1A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7748989C>T	uc002giw.1	+	4	493	c.117C>T	c.(115-117)AGC>AGT	p.S39S	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	39	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						CTCCTCGTAGCGCATGGCTGC	0.642													21	87					0	0	1	0	0		T	7748989	T	T	7748989	2	4	151	1	0	0	0	0	0	0	0	1	8154	767	27	1		1	KDM6B	17	7748989	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	27325	7748989	73446221	3654	80819											
KDM6B	23135	broad.mit.edu	37	chr17	7752900	7752900	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcgctcacttagtgagggGccccccaaggagctgaagat	9	7	13	12	1	1	3	1	2	0	1	1	4	1	4	3	3	2	2	3	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7752900G>C	uc002giw.1	+	11	3670	c.3294G>C	c.(3292-3294)GGG>GGC	p.G1098G	KDM6B_uc002gix.2_Silent_p.G400G	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1098					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						TTAGTGAGGGGCCCCCCAAGG	0.632													4	22					0	0	1	0	0		C	7752900	C	C	7752900	2	2	151	1	0	0	0	0	0	0	0	1	8154	1190	42	5		5	KDM6B	17	7752900	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3911	7752900	73442310	3655	80820											
TRAPPC1	58485	broad.mit.edu	37	chr17	7834014	7834014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgcacagtttggcccagCgggcacaggggattcttcac	7	10	12	12	1	2	0	1	0	1	0	2	1	2	1	1	4	2	3	1	4	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:7834014C>T	uc002gjo.1	-	4	464	c.348G>A	c.(346-348)CCG>CCA	p.P116P	KCNAB3_uc002gjm.1_5'Flank|KCNAB3_uc010vul.1_5'Flank|CNTROB_uc002gjp.2_5'Flank|CNTROB_uc002gjq.2_5'Flank	NM_021210	NP_067033	Q9Y5R8	TPPC1_HUMAN	trafficking protein particle complex 1	116					ER to Golgi vesicle-mediated transport	endoplasmic reticulum					0		Prostate(122;0.173)				TTTGGCCCAGCGGGCACAGGG	0.547													17	74					0	0	1	0	0		T	7834014	T	T	7834014	2	4	151	1	0	0	0	0	0	0	0	1	16482	755	27	1		1	TRAPPC1	17	7834014	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	81114	7834014	73361196	3656	80821											
C17orf68	80169	broad.mit.edu	37	chr17	8136238	8136238	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaaacctatcagccgtgggTcactgaggggttgagagtgc	9	8	14	10	1	2	2	2	2	0	1	2	3	2	2	3	3	3	1	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:8136238T>C	uc002gkq.3	-	11	1990	c.1931A>G	c.(1930-1932)GAC>GGC	p.D644G	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	644					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						CAGCCGTGGGTCACTGAGGGG	0.552													70	250					0	0	1	0	0		C	8136238	C	C	8136238	3	2	151	1	0	0	0	0	1	0	0	0	1879	1667	58	3	1774	3	C17orf68	17	8136238	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	302224	8136238	73058972	3657	80822											
ARHGEF15	22899	broad.mit.edu	37	chr17	8222131	8222131	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagagctgactgagttagggTgccggagggggggcgtgctc	6	7	21	7	2	0	3	0	2	0	1	1	5	0	4	1	5	3	3	1	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:8222131T>C	uc002glc.2	+	12	2057	c.1936T>C	c.(1936-1938)TGC>CGC	p.C646R	ARHGEF15_uc002gld.2_Missense_Mutation_p.C646R|ARHGEF15_uc010vuw.1_Missense_Mutation_p.C535R	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	646					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TGAGTTAGGGTGCCGGAGGGG	0.647													35	219					0	0	1	0	0		C	8222131	C	C	8222131	3	2	151	1	0	0	0	0	1	0	0	0	898	1696	59	3	1978	3	ARHGEF15	17	8222131	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	85893	8222131	72973079	3658	80823											
MYH10	4628	broad.mit.edu	37	chr17	8384695	8384695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcatctctctcctgctcggCgtgtcggcgggctcgctcag	2	11	12	16	5	4	0	2	0	2	0	9	0	4	0	1	3	1	3	1	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:8384695C>T	uc002gll.2	-	36	5212	c.5116G>A	c.(5116-5118)GCC>ACC	p.A1706T	MYH10_uc002glm.2_Missense_Mutation_p.A1737T|MYH10_uc010cnx.2_Missense_Mutation_p.A1715T	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1706	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TCCTGCTCGGCGTGTCGGCGG	0.602													13	62					0	0	1	0	0		T	8384695	T	T	8384695	3	4	151	1	0	0	0	0	1	0	0	0	10048	768	27	1	838	1	MYH10	17	8384695	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	162564	8384695	72810515	3659	80824											
PIK3R6	146850	broad.mit.edu	37	chr17	8738627	8738627	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagcgcctgcgtgacaggccTcccccagagccgcctgcagg	6	4	14	17	3	0	2	0	1	0	1	1	3	1	2	6	2	4	1	6	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:8738627T>C	uc002glq.1	-	8	848	c.608A>G	c.(607-609)GAG>GGG	p.E203G	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	203					platelet activation	cytosol					0						GTGACAGGCCTCCCCCAGAGC	0.667													4	17					0	0	1	0	0		C	8738627	C	C	8738627	3	2	151	1	0	0	0	0	1	0	0	0	11942	1551	54	3	1707	3	PIK3R6	17	8738627	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	353932	8738627	72456583	3660	80825											
PIK3R5	23533	broad.mit.edu	37	chr17	8784052	8784052	+	Silent	SNP	T	C	C	0	1	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	aggtcaggaggcgtctggggTggtgaggagaggtcgctctt	6	9	20	6	2	3	2	1	1	2	1	4	4	3	3	0	8	0	1	0	8	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:8784052T>C	uc002glt.2	-	19	2614	c.2547A>G	c.(2545-2547)CCA>CCG	p.P849P	PIK3R5_uc010vuz.1_Silent_p.P849P|PIK3R5_uc002glu.3_Silent_p.P463P	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	849					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GCGTCTGGGGTGGTGAGGAGA	0.632													6	31					0	0	1	0	0		C	8784052	C	C	8784052	2	2	151	1	0	0	0	0	0	0	0	1	11941	1683	59	3		3	PIK3R5	17	8784052	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	45425	8784052	72411158	3661	80826											
PIK3R5	23533	broad.mit.edu	37	chr17	8794162	8794162	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaggcgagtgtccgggcgTactcagcttattggctacag	7	10	15	9	3	1	1	1	1	0	0	2	2	2	1	1	3	3	3	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:8794162T>C	uc002glt.2	-	7	617	c.550A>G	c.(550-552)ACG>GCG	p.T184A	PIK3R5_uc010vuz.1_Missense_Mutation_p.T184A|PIK3R5_uc002glu.3_Intron|PIK3R5_uc010coa.1_Missense_Mutation_p.T184A|PIK3R5_uc010cob.1_5'UTR	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	184					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						TGTCCGGGCGTACTCAGCTTA	0.647													6	21					0	0	1	0	0		C	8794162	C	C	8794162	3	2	151	1	0	0	0	0	1	0	0	0	11941	1638	57	3	2144	3	PIK3R5	17	8794162	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10110	8794162	72401048	3662	80827											
WDR16	146845	broad.mit.edu	37	chr17	9532097	9532097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	gtgcccaacatgacctgccaCggcatcgacttcatgaggga	10	7	11	13	2	1	2	1	2	0	0	2	4	1	3	3	2	3	1	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:9532097C>A	uc002gly.2	+	9	1203	c.1134C>A	c.(1132-1134)CAC>CAA	p.H378Q	WDR16_uc002glz.2_Missense_Mutation_p.H310Q|WDR16_uc010coc.2_Missense_Mutation_p.H388Q	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	378	WD 6.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						TGACCTGCCACGGCATCGACT	0.527													4	93					0.150653	0.150959	1	1	0		A	9532097	A	A	9532097	3	1	151	1	0	0	0	0	1	0	0	0	17302	535	19	5	1168	5	WDR16	17	9532097	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	737935	9532097	71663113	3663	80828											
RCVRN	5957	broad.mit.edu	37	chr17	9808152	9808152	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacttcattcttgctgatggTcccgttaccgtccacgtcgt	5	14	8	14	4	2	1	1	1	1	0	5	1	4	1	3	1	2	2	3	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:9808152T>C	uc002gme.1	-	1	533	c.346A>G	c.(346-348)ACC>GCC	p.T116A		NM_002903	NP_002894	P35243	RECO_HUMAN	recoverin	116	EF-hand 3.|2; high affinity (By similarity).				visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						TTGCTGATGGTCCCGTTACCG	0.632													35	148					0	0	1	0	0		C	9808152	C	C	9808152	3	2	151	1	0	0	0	0	1	0	0	0	13211	1667	58	3	268	3	RCVRN	17	9808152	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	276055	9808152	71387058	3664	80829											
MYH13	8735	broad.mit.edu	37	chr17	10247249	10247249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccggcgatgttgtagtccaCggtgccggcatagtgcacca	7	8	14	12	4	0	0	0	0	0	0	1	1	1	0	4	3	2	4	4	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:10247249C>T	uc002gmk.1	-	16	1852	c.1762G>A	c.(1762-1764)GTG>ATG	p.V588M	MYH13_uc010vvf.1_Missense_Mutation_p.V263M	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	588	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TTGTAGTCCACGGTGCCGGCA	0.552													31	117					0	0	1	0	0		T	10247249	T	T	10247249	3	4	151	1	0	0	0	0	1	0	0	0	10050	536	19	1	4158	1	MYH13	17	10247249	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	439097	10247249	70947961	3665	80830											
MYH13	8735	broad.mit.edu	37	chr17	10263318	10263318	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccttcttcttgtccccggTaactgcaattgttgcaaaat	8	15	6	12	1	2	0	0	0	2	0	4	0	4	0	3	1	3	4	3	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:10263318T>C	uc002gmk.1	-	7	694	c.604A>G	c.(604-606)ACC>GCC	p.T202A		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	202	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TTGTCCCCGGTAACTGCAATT	0.493													14	76					0	0	1	0	0		C	10263318	C	C	10263318	3	2	151	1	0	0	0	0	1	0	0	0	10050	1638	57	3	5352	3	MYH13	17	10263318	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	16069	10263318	70931892	3666	80831											
MYH4	4622	broad.mit.edu	37	chr17	10356187	10356187	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattttaggtcaccctccagTtttctcttggctctttctaa	7	18	5	11	0	4	0	1	0	3	0	6	0	5	0	2	2	0	2	2	2	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:10356187T>C	uc002gmn.2	-	25	3285	c.3174A>G	c.(3172-3174)AAA>AAG	p.K1058K	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1058	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CACCCTCCAGTTTTCTCTTGG	0.338													83	310					0	0	1	0	0		C	10356187	C	C	10356187	2	2	151	1	0	0	0	0	0	0	0	1	10055	1722	60	3		3	MYH4	17	10356187	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	92869	10356187	70839023	3667	80832											
MYH3	4621	broad.mit.edu	37	chr17	10545866	10545866	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgagacactgtagtccacggTgcccgcatagtggatcagtg	9	9	13	10	2	1	1	1	1	0	1	2	3	2	2	2	2	1	2	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:10545866T>C	uc002gmq.1	-	15	1833	c.1756A>G	c.(1756-1758)ACC>GCC	p.T586A		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	586	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TAGTCCACGGTGCCCGCATAG	0.552													24	135					0	0	1	0	0		C	10545866	C	C	10545866	3	2	151	1	0	0	0	0	1	0	0	0	10054	1696	59	3	4170	3	MYH3	17	10545866	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	189679	10545866	70649344	3668	80833											
DNAH9	1770	broad.mit.edu	37	chr17	11672478	11672478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagaccatccgtgtgtgcTacttcatggagcggttgatg	7	12	14	8	2	1	2	1	2	0	1	2	4	2	3	2	2	3	2	2	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:11672478T>C	uc002gne.2	+	38	7452	c.7384T>C	c.(7384-7386)TAC>CAC	p.Y2462H	DNAH9_uc010coo.2_Missense_Mutation_p.Y1756H	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2462	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCGTGTGTGCTACTTCATGGA	0.612													5	102					0	0	1	0	0		C	11672478	C	C	11672478	3	2	151	1	0	0	0	0	1	0	0	0	4614	1522	53	3	7534	3	DNAH9	17	11672478	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1126612	11672478	69522732	3669	80834											
MYOCD	93649	broad.mit.edu	37	chr17	12639545	12639545	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggacagcagcagcgatggGctttctccggatcagactcg	9	7	14	11	3	2	1	1	0	1	1	4	5	2	3	1	3	3	3	1	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:12639545G>A	uc002gnn.2	+	6	782	c.483G>A	c.(481-483)GGG>GGA	p.G161G	MYOCD_uc002gno.2_Silent_p.G161G|MYOCD_uc002gnp.1_Silent_p.G65G	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	161	HDAC5-binding (By similarity).				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		GCAGCGATGGGCTTTCTCCGG	0.547													48	252					0	0	1	0	0		A	12639545	A	A	12639545	2	1	151	1	0	0	0	0	0	0	0	1	10105	1190	42	2		2	MYOCD	17	12639545	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	967067	12639545	68555665	3670	80835											
MYOCD	93649	broad.mit.edu	37	chr17	12649294	12649294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcaacgccactgagcaatAcccccttgtctcctgtcaaa	10	10	5	16	1	3	1	2	1	1	0	4	1	3	1	4	0	3	1	4	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:12649294A>G	uc002gnn.2	+	9	1329	c.1030A>G	c.(1030-1032)ACC>GCC	p.T344A	MYOCD_uc002gno.2_Missense_Mutation_p.T344A|MYOCD_uc002gnp.1_Missense_Mutation_p.T248A|MYOCD_uc002gnq.2_Missense_Mutation_p.T63A	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	344					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		ACTGAGCAATACCCCCTTGTC	0.413													45	253					0	0	1	0	0		G	12649294	G	G	12649294	3	3	151	1	0	0	0	0	1	0	0	0	10105	391	14	3	1064	3	MYOCD	17	12649294	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9749	12649294	68545916	3671	80836											
ADORA2B	136	broad.mit.edu	37	chr17	15848647	15848647	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggcgggcaacgtgctggtgTgcgccgcggtgggcacggcg	3	6	21	11	7	0	0	0	0	0	0	0	0	0	0	1	6	3	3	1	6	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:15848647T>C	uc002gpd.1	+	1	417	c.85T>C	c.(85-87)TGC>CGC	p.C29R		NM_000676	NP_000667	P29275	AA2BR_HUMAN	adenosine A2b receptor	29	Helical; Name=1; (By similarity).				activation of MAPK activity|cellular defense response|excretion|JNK cascade	integral to plasma membrane				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0855)	Defibrotide(DB04932)|Enprofylline(DB00824)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CGTGCTGGTGTGCGCCGCGGT	0.701													4	9					0	0	1	0	0		C	15848647	C	C	15848647	3	2	151	1	0	0	0	0	1	0	0	0	328	1696	59	3	87	3	ADORA2B	17	15848647	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3199353	15848647	65346563	3672	80837											
NCOR1	9611	broad.mit.edu	37	chr17	15989674	15989674	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gatgacgggatgagagggggCggtggcctggttggtcgagt	6	8	22	5	3	0	2	0	2	0	1	1	6	0	3	1	7	0	1	1	7	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:15989674C>T	uc002gpo.2	-	23	3339	c.3099G>A	c.(3097-3099)CCG>CCA	p.P1033P	NCOR1_uc002gpn.2_Silent_p.P1049P|NCOR1_uc002gpp.1_Silent_p.P940P|NCOR1_uc002gpq.1_Silent_p.P125P	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1033	Interaction with ETO.|Poly-Pro.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TGAGAGGGGGCGGTGGCCTGG	0.483													21	80					0	0	1	0	0		T	15989674	T	T	15989674	2	4	151	1	0	0	0	0	0	0	0	1	10254	755	27	1		1	NCOR1	17	15989674	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	141027	15989674	65205536	3673	80838											
TRPV2	51393	broad.mit.edu	37	chr17	16335135	16335135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcgcttccttctgatctActtagtcttccttttcggct	3	18	7	13	2	3	1	0	1	3	0	6	1	5	1	2	1	2	3	2	1	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:16335135A>G	uc002gpy.2	+	11	1992	c.1625A>G	c.(1624-1626)TAC>TGC	p.Y542C	TRPV2_uc002gpz.2_Missense_Mutation_p.Y112C	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	542	Helical; (Potential).				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CTTCTGATCTACTTAGTCTTC	0.622													17	71					0	0	1	0	0		G	16335135	G	G	16335135	3	3	151	1	0	0	0	0	1	0	0	0	16622	391	14	3	1663	3	TRPV2	17	16335135	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	345461	16335135	64860075	3674	80839											
C17orf76	388341	broad.mit.edu	37	chr17	16347255	16347255	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtggtgaggcggggcagggTgctgagtgctggcagcagct	5	8	21	7	1	0	2	0	2	0	0	0	2	0	2	0	6	4	6	0	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:16347255T>C	uc010cph.1	-	4	858	c.682A>G	c.(682-684)ACC>GCC	p.T228A	C17orf76_uc002gqh.2_Missense_Mutation_p.H189R|NCRNA00188_uc010vwl.1_Intron|NCRNA00188_uc010vwm.1_Intron|NCRNA00188_uc010vwn.1_Intron|NCRNA00188_uc010cpe.2_Intron|NCRNA00188_uc010vwo.1_Intron|NCRNA00188_uc010vwp.1_Intron|C17orf76_uc002gqg.1_3'UTR	NM_001113567	NP_001107039	Q8NAA5	CQ076_HUMAN	hypothetical protein LOC388341 isoform 1	228											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0887)		CGGGGCAGGGTGCTGAGTGCT	0.637													14	64					0	0	1	0	0		C	16347255	C	C	16347255	3	2	151	1	0	0	0	0	1	0	0	0	1884	1696	59	3	356	3	C17orf76	17	16347255	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	12120	16347255	64847955	3675	80840											
ZNF624	57547	broad.mit.edu	37	chr17	16527608	16527608	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctaaagcctctttgactagTgggagtcttcttgagtggaa	9	14	11	7	0	4	2	0	2	4	0	4	4	4	4	1	2	1	0	1	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:16527608T>C	uc010cpi.1	-	6	675	c.592A>G	c.(592-594)ACT>GCT	p.T198A		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	198					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CTTTGACTAGTGGGAGTCTTC	0.368													51	202					0	0	1	0	0		C	16527608	C	C	16527608	3	2	151	1	0	0	0	0	1	0	0	0	18073	1696	59	3	2009	3	ZNF624	17	16527608	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	180353	16527608	64667602	3676	80841											
COPS3	8533	broad.mit.edu	37	chr17	17168289	17168289	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaagcattttgctagcaAacaaagctgtgaacaaattg	16	11	7	7	0	0	1	0	1	0	0	0	1	0	1	0	0	6	4	0	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:17168289A>G	uc002grd.2	-	6	539	c.448T>C	c.(448-450)TTG>CTG	p.L150L	COPS3_uc010vwv.1_Silent_p.L130L|COPS3_uc010vww.1_Silent_p.L20L	NM_003653	NP_003644	Q9UNS2	CSN3_HUMAN	COP9 constitutive photomorphogenic homolog	150					cullin deneddylation|response to light stimulus|signal transduction	cytoplasm|signalosome	protein binding			skin(1)	1						TTTGCTAGCAAACAAAGCTGT	0.338													33	101					0	0	1	0	0		G	17168289	G	G	17168289	2	3	151	1	0	0	0	0	0	0	0	1	3737	11	1	3		3	COPS3	17	17168289	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	640681	17168289	64026921	3677	80842											
RAI1	10743	broad.mit.edu	37	chr17	17712704	17712704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaacttctctttggtcacagGttgcatattcatcgaagaga	12	13	8	8	1	3	1	2	0	1	1	5	3	3	1	0	2	2	2	0	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:17712704G>A	uc002grm.2	+	5	6129	c.5660G>A	c.(5659-5661)GGT>GAT	p.G1887D		NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1887	PHD-type.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		TTGGTCACAGGTTGCATATTC	0.557													51	182					0	0	1	0	0		A	17712704	A	A	17712704	3	1	151	1	0	0	0	0	1	0	0	0	13032	1275	44	4	5670	4	RAI1	17	17712704	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	544415	17712704	63482506	3678	80843											
TOM1L2	146691	broad.mit.edu	37	chr17	17764788	17764788	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacagggttaaagacctAccccttctgaactctgtttt	13	12	6	10	0	2	2	0	1	2	1	2	2	2	2	3	1	3	2	3	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:17764788A>G	uc002grz.3	-	12	1435	c.1278_splice	c.e12+1	p.G426_splice	TOM1L2_uc002gry.3_Splice_Site_p.G376_splice|TOM1L2_uc010vwy.1_Splice_Site_p.G373_splice|TOM1L2_uc010cpr.2_Splice_Site_p.G381_splice|TOM1L2_uc010vwz.1_Splice_Site_p.G278_splice|TOM1L2_uc010vxa.1_Splice_Site_p.G328_splice|TOM1L2_uc002grv.3_Splice_Site_p.G159_splice	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3						intracellular protein transport	intracellular					0	all_neural(463;0.228)					TTAAAGACCTACCCCTTCTGA	0.498													15	49					0	0	1	0	0		G	17764788	G	G	17764788	5	3	151	1	0	0	0	0	0	0	1	0	16378	405	14	3	259	3	TOM1L2	17	17764788	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	52084	17764788	63430422	3679	80844											
LRRC48	83450	broad.mit.edu	37	chr17	17891390	17891390	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgttgtcgctgggcaacaAccggattgacaacatgatga	11	9	13	8	2	0	3	0	3	0	0	1	4	0	4	1	3	3	3	1	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:17891390A>G	uc010vxd.1	+	6	801	c.422A>G	c.(421-423)AAC>AGC	p.N141S	LRRC48_uc002gsa.2_Missense_Mutation_p.N141S|LRRC48_uc010vxc.1_Missense_Mutation_p.N141S|LRRC48_uc002gsb.2_Missense_Mutation_p.N141S	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	141	LRR 5.					cytoplasm				pancreas(1)	1	all_neural(463;0.228)					CTGGGCAACAACCGGATTGAC	0.592													5	26					0	0	1	0	0		G	17891390	G	G	17891390	3	3	151	1	0	0	0	0	1	0	0	0	9023	43	2	3	432	3	LRRC48	17	17891390	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	126602	17891390	63303820	3680	80845											
LRRC48	83450	broad.mit.edu	37	chr17	17898317	17898317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtttctgcctgcagactgCgtttgtggaacacctgaatg	7	13	12	9	1	1	2	0	1	1	1	1	3	1	3	2	1	4	3	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:17898317C>T	uc010vxd.1	+	9	1095	c.716C>T	c.(715-717)GCG>GTG	p.A239V	LRRC48_uc002gsa.2_Missense_Mutation_p.A239V|LRRC48_uc010vxc.1_Missense_Mutation_p.A239V|LRRC48_uc002gsb.2_Missense_Mutation_p.A239V|LRRC48_uc010vxe.1_5'Flank	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	239	Potential.					cytoplasm				pancreas(1)	1	all_neural(463;0.228)					CTGCAGACTGCGTTTGTGGAA	0.483													15	36					0	0	1	0	0		T	17898317	T	T	17898317	3	4	151	1	0	0	0	0	1	0	0	0	9023	768	27	1	738	1	LRRC48	17	17898317	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6927	17898317	63296893	3681	80846											
DRG2	1819	broad.mit.edu	37	chr17	18005257	18005257	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttataacaaaatcgaccagaTctccatggaagaggtggacc	15	8	9	9	1	1	2	0	0	1	2	3	5	1	4	3	3	1	0	3	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18005257T>C	uc002gsh.1	+	9	807	c.752T>C	c.(751-753)ATC>ACC	p.I251T	DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Missense_Mutation_p.I251T	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	251					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					ATCGACCAGATCTCCATGGAA	0.577													5	22					0	0	1	0	0		C	18005257	C	C	18005257	3	2	151	1	0	0	0	0	1	0	0	0	4768	1435	50	3	786	3	DRG2	17	18005257	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	106940	18005257	63189953	3682	80847											
DRG2	1819	broad.mit.edu	37	chr17	18010553	18010553	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catccagatcgtgaagaagtAacggcgcctgccgggcctcc	9	6	12	14	4	0	3	0	1	0	2	3	3	2	3	5	2	2	1	5	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18010553A>G	uc002gsh.1	+	13	1149	c.1094A>G	c.(1093-1095)TAA>TGA	p.*365*	DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_3'UTR|MYO15A_uc010vxh.1_5'Flank	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	365					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					GTGAAGAAGTAACGGCGCCTG	0.602													3	21					0	0	1	0	0		G	18010553	G	G	18010553	2	3	151	1	0	0	0	0	0	0	0	1	4768	369	13	3		3	DRG2	17	18010553	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5296	18010553	63184657	3683	80848											
MYO15A	51168	broad.mit.edu	37	chr17	18043900	18043900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggcaagagcagctccGtcactcggctctacaaggcg	8	6	13	14	3	2	1	1	0	1	1	4	1	3	1	2	3	3	4	2	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18043900G>A	uc010vxh.1	+	19	5619	c.5281G>A	c.(5281-5283)GTC>ATC	p.V1761I		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1761	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GAGCAGCTCCGTCACTCGGCT	0.652											OREG0024223	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	119					0	0	1	0	0		A	18043900	A	A	18043900	3	1	151	1	0	0	0	0	1	0	0	0	10081	1145	40	1	5351	1	MYO15A	17	18043900	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	33347	18043900	63151310	3684	80849											
FLII	2314	broad.mit.edu	37	chr17	18148506	18148506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagcagcgggtaaaggcGtgctgctcattgcccttgcg	7	9	15	10	3	1	0	1	0	0	0	1	1	1	1	1	3	6	4	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18148506G>A	uc002gsr.1	-	30	3807	c.3756C>T	c.(3754-3756)CAC>CAT	p.H1252H	FLII_uc002gsq.1_Silent_p.H1123H|FLII_uc010cpy.1_Silent_p.H1241H|FLII_uc010vxn.1_Silent_p.H1221H|FLII_uc010vxo.1_Silent_p.H1197H	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	1252					multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					GGGTAAAGGCGTGCTGCTCAT	0.652													41	131					0	0	1	0	0		A	18148506	A	A	18148506	2	1	151	1	0	0	0	0	0	0	0	1	5939	1136	40	1		1	FLII	17	18148506	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	104606	18148506	63046704	3685	80850											
TOP3A	7156	broad.mit.edu	37	chr17	18181368	18181368	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgagcagcacagcctcctgGccacagttgcaggtcacaga	10	6	12	13	0	1	2	1	1	0	1	2	2	2	2	3	2	4	4	3	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18181368G>A	uc002gsx.1	-	18	2677	c.2448C>T	c.(2446-2448)GGC>GGT	p.G816G	TOP3A_uc010cpz.1_Silent_p.G268G|TOP3A_uc010vxr.1_Silent_p.G346G|TOP3A_uc002gsw.1_Silent_p.G268G|TOP3A_uc010vxs.1_Silent_p.G714G	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	816	1.|2 X 27 AA approximate repeats.				DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						CAGCCTCCTGGCCACAGTTGC	0.607													19	74					0	0	1	0	0		A	18181368	A	A	18181368	2	1	151	1	0	0	0	0	0	0	0	1	16393	1190	42	2		2	TOP3A	17	18181368	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	32862	18181368	63013842	3686	80851											
CCDC144B	284047	broad.mit.edu	37	chr17	18483886	18483886	+	RNA	SNP	A	T	T	1	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	tcctgcaacatgcaattttcAtgaaagagatgcttttcttt	11	16	6	8	0	2	2	1	1	1	1	3	3	3	2	1	0	4	3	1	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18483886A>T	uc002gua.3	-	12		c.2540T>A								Homo sapiens cDNA FLJ36492 fis, clone THYMU2018455.											ovary(1)|skin(1)	2						TGCAATTTTCATGAAAGAGAT	0.328													4	16					0	0	1	0	0		T	18483886	T	T	18483886	1	4	151	0	1	0	0	0	0	0	0	0	2781	232	8	5		5	CCDC144B	17	18483886	RNA	SNP	A	TCGA-CG-5721-01A-11D-1600-08	302518	18483886	62711324	3687	80852											
TBC1D28	254272	broad.mit.edu	37	chr17	18542507	18542507	+	Missense_Mutation	SNP	A	G	G	1	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	ccttcacctccagggcactgAcgcggggcagctccatctca	7	7	10	17	2	2	1	2	1	1	0	5	1	4	1	4	3	1	3	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18542507A>G	uc002gud.2	-	6	591	c.179T>C	c.(178-180)GTC>GCC	p.V60A		NM_001039397	NP_001034486	Q2M2D7	TBC28_HUMAN	TBC1 domain family, member 28	60						intracellular	Rab GTPase activator activity			ovary(1)	1						CAGGGCACTGACGCGGGGCAG	0.652													5	95					0	0	1	0	0		G	18542507	G	G	18542507	3	3	151	1	0	0	0	0	1	0	0	0	15642	275	10	3	473	3	TBC1D28	17	18542507	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	58621	18542507	62652703	3688	80853											
FBXW10	10517	broad.mit.edu	37	chr17	18673283	18673283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctccgggtcatcagcGcctgtgcagatggcaagatc	7	10	11	13	2	3	2	2	0	1	2	6	2	5	2	3	2	2	2	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18673283G>A	uc002guk.2	+	11	2123	c.1891G>A	c.(1891-1893)GCC>ACC	p.A631T	FBXW10_uc002guj.2_Missense_Mutation_p.A631T|FBXW10_uc002gul.2_Missense_Mutation_p.A660T|FBXW10_uc010cqh.1_Intron	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	631	WD 7.									ovary(1)	1						GGTCATCAGCGCCTGTGCAGA	0.517													71	284					0	0	1	0	0		A	18673283	A	A	18673283	3	1	151	1	0	0	0	0	1	0	0	0	5777	1087	38	1	1933	1	FBXW10	17	18673283	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	130776	18673283	62521927	3689	80854											
FAM83G	644815	broad.mit.edu	37	chr17	18907282	18907282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctcctcgctgtagaagaActcaggcttggactcgctgg	7	10	12	12	2	1	2	1	0	0	2	4	3	2	3	1	3	2	5	1	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:18907282A>G	uc002guw.2	-	2	240	c.73T>C	c.(73-75)TTC>CTC	p.F25L	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	25										ovary(1)|central_nervous_system(1)	2						CTGTAGAAGAACTCAGGCTTG	0.662													11	22					0	0	1	0	0		G	18907282	G	G	18907282	3	3	151	1	0	0	0	0	1	0	0	0	5653	43	2	3	2418	3	FAM83G	17	18907282	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	233999	18907282	62287928	3690	80855											
MAPK7	5598	broad.mit.edu	37	chr17	19284578	19284578	+	Silent	SNP	T	C	C	0	1	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	ttcctggccaagtaccatgaTcctgatgatgagcctgactg	9	11	10	11	0	0	5	0	5	0	0	2	5	2	5	5	1	2	1	5	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:19284578T>C	uc002gvn.2	+	4	1442	c.1056T>C	c.(1054-1056)GAT>GAC	p.D352D	MAPK7_uc002gvo.2_Silent_p.D213D|MAPK7_uc002gvq.2_Silent_p.D352D|MAPK7_uc002gvp.2_Silent_p.D352D	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	352	Necessary for oligomerization (By similarity).				cell cycle|cell differentiation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					AGTACCATGATCCTGATGATG	0.587													16	69					0	0	1	0	0		C	19284578	C	C	19284578	2	2	151	1	0	0	0	0	0	0	0	1	9300	1432	50	3		3	MAPK7	17	19284578	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	377296	19284578	61910632	3691	80856											
ALDH3A2	224	broad.mit.edu	37	chr17	19555901	19555901	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgaactgagtgaaaatAcagccaagatcttggcaaag	15	9	9	8	0	2	4	0	3	2	1	2	4	2	4	1	1	3	1	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:19555901A>G	uc002gwb.1	+	3	648	c.427A>G	c.(427-429)ACA>GCA	p.T143A	ALDH3A2_uc002gwa.1_Missense_Mutation_p.T143A|ALDH3A2_uc010cqr.1_Translation_Start_Site|ALDH3A2_uc002gwc.1_Missense_Mutation_p.T143A	NM_000382	NP_000373	P51648	AL3A2_HUMAN	aldehyde dehydrogenase 3A2 isoform 2	143	Cytoplasmic.				cellular aldehyde metabolic process|central nervous system development|epidermis development|lipid metabolic process|peripheral nervous system development	endoplasmic reticulum membrane|integral to membrane	3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(2)	2	all_cancers(12;1.39e-05)|all_epithelial(12;0.00158)|Breast(13;0.245)				NADH(DB00157)	GAGTGAAAATACAGCCAAGAT	0.333													7	232					0	0	1	0	0		G	19555901	G	G	19555901	3	3	151	1	0	0	0	0	1	0	0	0	498	391	14	3	437	3	ALDH3A2	17	19555901	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	271323	19555901	61639309	3692	80857											
C17orf103	256302	broad.mit.edu	37	chr17	21147535	21147535	+	Missense_Mutation	SNP	A	C	C	1	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	caggacggcccggtcatgacAtcctgggggttgtggagaca	8	7	16	10	2	1	2	1	1	0	1	2	4	2	3	2	6	0	1	2	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:21147535A>C	uc010vzx.1	-	3	111	c.109T>G	c.(109-111)TGT>GGT	p.C37G		NM_152914	NP_690878	Q8N6N6	GTL3B_HUMAN	transcript expressed during hematopoiesis 2	37											0						CGGTCATGACATCCTGGGGGT	0.617													4	39					0	0	1	0	0		C	21147535	C	C	21147535	3	2	151	1	0	0	0	0	1	0	0	0	1853	217	8	5	119	5	C17orf103	17	21147535	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1591634	21147535	60047675	3693	80858											
TNFAIP1	7126	broad.mit.edu	37	chr17	26671585	26671585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaagcgctacagcacttacGatgaccggcagctcggccac	10	6	10	15	4	1	1	1	1	0	0	2	2	1	1	2	2	5	4	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:26671585G>A	uc002hax.1	+	7	929	c.910G>A	c.(910-912)GAT>AAT	p.D304N	TNFAIP1_uc002hay.2_Missense_Mutation_p.D304N|TNFAIP1_uc010waf.1_Missense_Mutation_p.D200N	NM_021137	NP_066960	Q13829	BACD2_HUMAN	tumor necrosis factor, alpha-induced protein 1	304					apoptosis|cell migration|DNA replication|embryo development|immune response|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|endosome|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		CAGCACTTACGATGACCGGCA	0.637													9	22					0	0	1	0	0		A	26671585	A	A	26671585	3	1	151	1	0	0	0	0	1	0	0	0	16297	1058	37	1	932	1	TNFAIP1	17	26671585	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5524050	26671585	54523625	3694	80859											
VTN	7448	broad.mit.edu	37	chr17	26695960	26695960	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggccaaggctgcatccacGttgtccgggatgccatcgaa	9	7	13	12	3	0	0	0	0	0	0	3	2	2	1	4	3	2	3	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:26695960G>A	uc002hbc.2	-	5	908	c.759C>T	c.(757-759)AAC>AAT	p.N253N	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_5'Flank|SARM1_uc010waj.1_Intron	NM_000638	NP_000629	P04004	VTNC_HUMAN	vitronectin precursor	253					cell adhesion mediated by integrin|immune response|negative regulation of endopeptidase activity|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein binding|positive regulation of receptor-mediated endocytosis|positive regulation of smooth muscle cell migration|positive regulation of vascular endothelial growth factor receptor signaling pathway|smooth muscle cell-matrix adhesion	alphav-beta3 integrin-vitronectin complex|extracellular space	heparin binding|integrin binding|scavenger receptor activity			ovary(1)|kidney(1)	2	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Urokinase(DB00013)	CTGCATCCACGTTGTCCGGGA	0.592													20	78					0	0	1	0	0		A	26695960	A	A	26695960	2	1	151	1	0	0	0	0	0	0	0	1	17263	1136	40	1		1	VTN	17	26695960	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24375	26695960	54499250	3695	80860											
VTN	7448	broad.mit.edu	37	chr17	26697198	26697198	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccatgccagcagggccagTatgagaaggggtctcagggg	10	5	16	10	0	1	1	1	1	1	1	2	2	1	1	3	5	2	2	3	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:26697198T>C	uc002hbc.2	-	1	176	c.27A>G	c.(25-27)ATA>ATG	p.I9M	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_5'Flank|SARM1_uc010waj.1_Intron|SARM1_uc010crl.1_5'Flank	NM_000638	NP_000629	P04004	VTNC_HUMAN	vitronectin precursor	9					cell adhesion mediated by integrin|immune response|negative regulation of endopeptidase activity|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein binding|positive regulation of receptor-mediated endocytosis|positive regulation of smooth muscle cell migration|positive regulation of vascular endothelial growth factor receptor signaling pathway|smooth muscle cell-matrix adhesion	alphav-beta3 integrin-vitronectin complex|extracellular space	heparin binding|integrin binding|scavenger receptor activity			ovary(1)|kidney(1)	2	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Urokinase(DB00013)	GCAGGGCCAGTATGAGAAGGG	0.617													21	97					0	0	1	0	0		C	26697198	C	C	26697198	3	2	151	1	0	0	0	0	1	0	0	0	17263	1628	57	3	1441	3	VTN	17	26697198	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1238	26697198	54498012	3696	80861											
ALDOC	230	broad.mit.edu	37	chr17	26900951	26900951	+	Silent	SNP	T	C	C	0	1	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	cccccagacaggaaggtcacTcctagtgtggaggagagaag	12	5	14	10	0	1	2	1	0	0	2	2	6	2	5	3	4	0	0	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:26900951T>C	uc002hbp.2	-	8	946	c.801A>G	c.(799-801)GGA>GGG	p.G267G	PIGS_uc002hbn.2_5'Flank|PIGS_uc002hbo.2_5'Flank|PIGS_uc010wap.1_5'Flank|ALDOC_uc010cro.2_Silent_p.G239G	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	267					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					GGAAGGTCACTCCTAGTGTGG	0.547													33	147					0	0	1	0	0		C	26900951	C	C	26900951	2	2	151	1	0	0	0	0	0	0	0	1	509	1565	54	3		3	ALDOC	17	26900951	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	203753	26900951	54294259	3697	80862											
KIAA0100	9703	broad.mit.edu	37	chr17	26962262	26962262	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctccttgaagttgaagatActattgccatcaaagccagc	13	10	7	11	0	1	3	1	2	0	1	2	3	2	3	4	0	4	1	4	0	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:26962262A>G	uc002hbu.2	-	16	2442	c.2343T>C	c.(2341-2343)AGT>AGC	p.S781S		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	781						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					AGTTGAAGATACTATTGCCAT	0.572													26	114					0	0	1	0	0		G	26962262	G	G	26962262	2	3	151	1	0	0	0	0	0	0	0	1	8170	388	14	3		3	KIAA0100	17	26962262	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	61311	26962262	54232948	3698	80863											
SUPT6H	6830	broad.mit.edu	37	chr17	27011678	27011678	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagcaggtggaagaagatgaCgactttatggacgagaacca	15	6	13	7	2	0	4	0	1	0	3	0	8	0	6	1	3	2	1	1	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:27011678C>T	uc002hby.2	+	18	2394	c.2304C>T	c.(2302-2304)GAC>GAT	p.D768D	SUPT6H_uc010crt.2_Silent_p.D768D	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	768					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AAGAAGATGACGACTTTATGG	0.517													20	115					0	0	1	0	0		T	27011678	T	T	27011678	2	4	151	1	0	0	0	0	0	0	0	1	15425	535	19	1		1	SUPT6H	17	27011678	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	49416	27011678	54183532	3699	80864											
SUPT6H	6830	broad.mit.edu	37	chr17	27014226	27014226	+	Missense_Mutation	SNP	A	G	G	1	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	atgaagacatcctgtgtctcAagtttcaccccttgcaggtg	9	12	9	11	0	2	2	2	1	1	1	4	2	3	2	3	1	1	2	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:27014226A>G	uc002hby.2	+	22	2911	c.2821A>G	c.(2821-2823)AAG>GAG	p.K941E	SUPT6H_uc010crt.2_Missense_Mutation_p.K941E|SUPT6H_uc002hbz.1_5'Flank	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	941					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CCTGTGTCTCAAGTTTCACCC	0.562													31	121					0	0	1	0	0		G	27014226	G	G	27014226	3	3	151	1	0	0	0	0	1	0	0	0	15425	131	5	3	2903	3	SUPT6H	17	27014226	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2548	27014226	54180984	3700	80865											
SUPT6H	6830	broad.mit.edu	37	chr17	27016471	27016471	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgccctggaatacgatgaAtcagccgaggatgccaatcc	12	7	11	11	2	1	1	1	1	0	0	2	6	2	3	4	2	4	0	4	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:27016471A>G	uc002hby.2	+	25	3324	c.3234A>G	c.(3232-3234)GAA>GAG	p.E1078E	SUPT6H_uc010crt.2_Silent_p.E1078E|SUPT6H_uc002hbz.1_Silent_p.E10E	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1078					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AATACGATGAATCAGCCGAGG	0.512													20	92					0	0	1	0	0		G	27016471	G	G	27016471	2	3	151	1	0	0	0	0	0	0	0	1	15425	98	4	3		3	SUPT6H	17	27016471	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2245	27016471	54178739	3701	80866											
FLOT2	2319	broad.mit.edu	37	chr17	27208887	27208887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcggcctcggcaggccggcGcactgtagcgatgagctcct	5	7	14	15	5	0	1	0	1	0	0	3	2	1	1	3	4	2	4	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:27208887G>A	uc002hdc.2	-	8	982	c.859C>T	c.(859-861)CGC>TGC	p.R287C		NM_004475	NP_004466	Q14254	FLOT2_HUMAN	flotillin 2	287					cell adhesion|epidermis development	cell surface|endocytic vesicle|endosome|membrane fraction					0	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;3.26e-06)|all cancers(11;1.76e-05)|BRCA - Breast invasive adenocarcinoma(11;0.00015)|OV - Ovarian serous cystadenocarcinoma(11;0.0602)			GCAGGCCGGCGCACTGTAGCG	0.617													16	56					0	0	1	0	0		A	27208887	A	A	27208887	3	1	151	1	0	0	0	0	1	0	0	0	5951	1087	38	1	443	1	FLOT2	17	27208887	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	192416	27208887	53986323	3702	80867											
TIAF1	9220	broad.mit.edu	37	chr17	27400961	27400961	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgcttggatcagccctgaacTgctgtagttggaatgggttt	7	14	13	7	0	1	1	1	1	0	0	1	3	1	3	1	3	4	5	1	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:27400961T>C	uc002hdv.1	-	1	1667	c.257A>G	c.(256-258)CAG>CGG	p.Q86R	MYO18A_uc010wbc.1_3'UTR|MYO18A_uc002hds.2_3'UTR|MYO18A_uc010csa.1_3'UTR|MYO18A_uc002hdt.1_3'UTR|MYO18A_uc002hdu.1_3'UTR	NM_004740	NP_004731	O95411	TIAF1_HUMAN	TGFB1-induced anti-apoptotic factor 1	86					anti-apoptosis|apoptosis|I-kappaB kinase/NF-kappaB cascade	nucleus					0	Lung NSC(42;0.015)		Epithelial(11;1.19e-05)|all cancers(11;6.57e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000153)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			AGCCCTGAACTGCTGTAGTTG	0.542													47	232					0	0	1	0	0		C	27400961	C	C	27400961	3	2	151	1	0	0	0	0	1	0	0	0	15913	1580	55	3	94	3	TIAF1	17	27400961	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	192074	27400961	53794249	3703	80868											
MYO18A	399687	broad.mit.edu	37	chr17	27425890	27425890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acagctgtacttcgatgaggGgcctcactgtggtaaaaagc	11	9	12	9	1	1	1	1	1	0	0	2	2	1	1	1	3	3	3	1	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:27425890G>A	uc002hdt.1	-	23	3892	c.3734C>T	c.(3733-3735)CCC>CTC	p.P1245L	MYO18A_uc010wbc.1_Missense_Mutation_p.P787L|MYO18A_uc002hds.2_Missense_Mutation_p.P787L|MYO18A_uc010csa.1_Missense_Mutation_p.P1245L|MYO18A_uc002hdu.1_Missense_Mutation_p.P1245L|MYO18A_uc010wbd.1_Missense_Mutation_p.P914L	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	1245					anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			TTCGATGAGGGGCCTCACTGT	0.542													17	63					0	0	1	0	0		A	27425890	A	A	27425890	3	1	151	1	0	0	0	0	1	0	0	0	10083	1232	43	4	2510	4	MYO18A	17	27425890	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24929	27425890	53769320	3704	80869											
TAOK1	57551	broad.mit.edu	37	chr17	27802738	27802738	+	Silent	SNP	T	C	C	0	1	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	tttctacaaagaataaaacaTcccaacagtatagaatacaa	21	9	3	8	0	1	2	0	0	1	2	2	2	2	2	1	0	4	1	1	0	11	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:27802738T>C	uc002hdz.1	+	4	449	c.255T>C	c.(253-255)CAT>CAC	p.H85H	TAOK1_uc010wbe.1_Silent_p.H85H|TAOK1_uc010wbf.1_Silent_p.H85H	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	85	Protein kinase.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			GAATAAAACATCCCAACAGTA	0.358													12	66					0	0	1	0	0		C	27802738	C	C	27802738	2	2	151	1	0	0	0	0	0	0	0	1	15572	1432	50	3		3	TAOK1	17	27802738	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	376848	27802738	53392472	3705	80870											
EFCAB5	374786	broad.mit.edu	37	chr17	28417508	28417508	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgtggagaaacgcatatAgtagttccacttcgtgagag	11	10	12	8	2	0	2	0	1	0	2	2	4	1	2	2	1	1	3	2	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:28417508A>G	uc002het.2	+	20	3945	c.3753A>G	c.(3751-3753)ATA>ATG	p.I1251M	EFCAB5_uc010cse.2_Missense_Mutation_p.I1006M|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	1251							calcium ion binding			ovary(1)|skin(1)	2						AAACGCATATAGTAGTTCCAC	0.403													25	133					0	0	1	0	0		G	28417508	G	G	28417508	3	3	151	1	0	0	0	0	1	0	0	0	4944	410	15	3	3998	3	EFCAB5	17	28417508	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	614770	28417508	52777702	3706	80871											
SLC6A4	6532	broad.mit.edu	37	chr17	28542674	28542674	+	Missense_Mutation	SNP	A	G	G	1	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	tgtagctagcaaaagccagcAggaccccaaagcccggacca	14	3	10	14	1	0	0	0	0	0	0	0	2	0	2	5	2	5	4	5	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:28542674A>G	uc002hey.3	-	8	1575	c.1031T>C	c.(1030-1032)CTG>CCG	p.L344P		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	344	Helical; Name=6; (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	AAAAGCCAGCAGGACCCCAAA	0.542													12	86					0	0	1	0	0		G	28542674	G	G	28542674	3	3	151	1	0	0	0	0	1	0	0	0	14711	188	7	3	893	3	SLC6A4	17	28542674	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	125166	28542674	52652536	3707	80872											
SLC6A4	6532	broad.mit.edu	37	chr17	28545342	28545342	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaaaggcaatgatgcagatGgcataaccaatccctgggca	15	7	10	9	0	0	2	0	1	0	1	1	2	1	2	2	3	2	4	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:28545342G>T	uc002hey.3	-	5	1036	c.492C>A	c.(490-492)GCC>GCA	p.A164A		NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	164	Helical; Name=3; (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	TGATGCAGATGGCATAACCAA	0.557													10	40					1.58986e-06	1.61756e-06	1	1	0		T	28545342	T	T	28545342	2	4	151	1	0	0	0	0	0	0	0	1	14711	1335	47	5		5	SLC6A4	17	28545342	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2668	28545342	52649868	3708	80873											
GOSR1	9527	broad.mit.edu	37	chr17	28804459	28804459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttggacgacaaagatggcggCagggaccagcagttactggg	11	6	16	8	2	0	1	0	0	0	1	0	4	0	3	1	5	2	3	1	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:28804459C>T	uc002hfe.2	+	1	34	c.8C>T	c.(7-9)GCA>GTA	p.A3V	GOSR1_uc002hfd.2_Missense_Mutation_p.A3V|GOSR1_uc002hff.2_5'UTR|GOSR1_uc002hfc.1_Missense_Mutation_p.A3V	NM_004871	NP_004862	O95249	GOSR1_HUMAN	golgi SNAP receptor complex member 1 isoform 1	3	Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|SNARE complex	SNAP receptor activity				0						AAGATGGCGGCAGGGACCAGC	0.627											OREG0024301	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	25					0	0	1	0	0		T	28804459	T	T	28804459	3	4	151	1	0	0	0	0	1	0	0	0	6592	710	25	2	10	2	GOSR1	17	28804459	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	259117	28804459	52390751	3709	80874											
C17orf42	79736	broad.mit.edu	37	chr17	29231314	29231314	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttccacgaagcaatcGgaaagcttcaagttctttag	11	12	7	11	2	3	0	1	0	2	0	5	2	4	1	2	1	2	3	2	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:29231314G>A	uc002hfu.2	-	2	335	c.265C>T	c.(265-267)CGA>TGA	p.R89*	C17orf42_uc002hfv.2_RNA|C17orf42_uc002hfw.2_Nonsense_Mutation_p.R89*|C17orf42_uc010wbs.1_Nonsense_Mutation_p.R89*	NM_024683	NP_078959	Q96QE5	TEFM_HUMAN	hypothetical protein LOC79736	89					oxidative phosphorylation|regulation of transcription, DNA-dependent|transcription from mitochondrial promoter	mitochondrial nucleoid|ribonucleoprotein complex	DNA polymerase processivity factor activity|nucleic acid binding|protein binding			ovary(1)	1		all_cancers(10;4.64e-07)|all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				CGAAGCAATCGGAAAGCTTCA	0.418													31	113					0	0	1	0	0		A	29231314	A	A	29231314	4	1	151	1	0	0	0	0	0	1	0	0	1859	1124	39	1	829	1	C17orf42	17	29231314	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	426855	29231314	51963896	3710	80875											
NF1	4763	broad.mit.edu	37	chr17	29550514	29550514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taactagtcatcaaatgcttAgtagcacagaaattctcaag	16	11	6	8	0	3	1	3	0	1	1	4	1	3	1	0	0	3	3	0	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:29550514A>G	uc002hgg.2	+	16	2107	c.1774A>G	c.(1774-1776)AGT>GGT	p.S592G	NF1_uc002hgh.2_Missense_Mutation_p.S592G|NF1_uc010csn.1_Missense_Mutation_p.S452G|NF1_uc002hgi.1_5'Flank	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	592					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCAAATGCTTAGTAGCACAGA	0.308			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)			35	129					0	0	1	0	0		G	29550514	G	G	29550514	3	3	151	1	0	0	0	0	1	0	0	0	10375	420	15	3	1897	3	NF1	17	29550514	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	319200	29550514	51644696	3711	80876											
NF1	4763	broad.mit.edu	37	chr17	29559874	29559874	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacttactcaatgccaacgtAgacagtggtctcatgcactc	12	10	7	12	1	2	1	2	0	1	1	4	1	2	1	1	1	5	2	1	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:29559874A>G	uc002hgg.2	+	26	3804	c.3471A>G	c.(3469-3471)GTA>GTG	p.V1157V	NF1_uc002hgh.2_Silent_p.V1157V|NF1_uc010csn.1_Silent_p.V1017V|NF1_uc002hgi.1_Silent_p.V190V	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1157					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		ATGCCAACGTAGACAGTGGTC	0.448			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)			9	67					0	0	1	0	0		G	29559874	G	G	29559874	2	3	151	1	0	0	0	0	0	0	0	1	10375	407	15	3		3	NF1	17	29559874	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	9360	29559874	51635336	3712	80877											
NF1	4763	broad.mit.edu	37	chr17	29701123	29701123	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcaagccaagtgcagaagCaaagaagcgctggcagtttc	13	5	12	11	2	0	2	0	0	0	2	1	2	0	2	2	1	4	6	2	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:29701123C>T	uc002hgg.2	+	58	8803	c.8470C>T	c.(8470-8472)CAA>TAA	p.Q2824*	NF1_uc002hgh.2_Nonsense_Mutation_p.Q2803*|NF1_uc010cso.2_Nonsense_Mutation_p.Q1030*|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2824					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AGTGCAGAAGCAAAGAAGCGC	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)			15	55					0	0	1	0	0		T	29701123	T	T	29701123	4	4	151	1	0	0	0	0	0	1	0	0	10375	711	25	2	8761	2	NF1	17	29701123	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	141249	29701123	51494087	3713	80878											
UTP6	55813	broad.mit.edu	37	chr17	30190399	30190399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataaatggccagtctgatgCatagcatgtttagctacaaa	14	11	8	8	0	1	1	0	1	1	0	1	1	1	1	1	1	4	4	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:30190399C>T	uc002hgr.2	-	19	1856	c.1773G>A	c.(1771-1773)ATG>ATA	p.M591I	UTP6_uc002hgq.2_Missense_Mutation_p.M407I|UTP6_uc010cst.2_Missense_Mutation_p.M440I	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66	591					rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				CAGTCTGATGCATAGCATGTT	0.453													66	280					0	0	1	0	0		T	30190399	T	T	30190399	3	4	151	1	0	0	0	0	1	0	0	0	17128	710	25	2	24	2	UTP6	17	30190399	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	489276	30190399	51004811	3714	80879											
MYO1D	4642	broad.mit.edu	37	chr17	30986329	30986329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccttggttcttttgtaccGcatgcgggccagggtgcccc	3	12	13	13	2	1	0	0	0	1	0	1	0	1	0	5	3	4	3	5	3	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:30986329G>A	uc002hho.1	-	17	2161	c.2149C>T	c.(2149-2151)CGG>TGG	p.R717W	MYO1D_uc002hhp.1_Missense_Mutation_p.R717W	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	717	IQ 1.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CTTTTGTACCGCATGCGGGCC	0.507											OREG0024311	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	125					0	0	1	0	0		A	30986329	A	A	30986329	3	1	151	1	0	0	0	0	1	0	0	0	10089	1086	38	1	895	1	MYO1D	17	30986329	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	795930	30986329	50208881	3715	80880											
TMEM98	26022	broad.mit.edu	37	chr17	31260324	31260324	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactggatcgaagatgcctcGtaaggccatgggaactgttt	10	10	13	8	2	0	1	0	0	0	1	2	5	0	3	2	3	2	2	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:31260324G>A	uc002hhq.2	+	4	721	c.263_splice	c.e4+1	p.S88_splice	TMEM98_uc002hhr.2_Splice_Site_p.S88_splice	NM_015544	NP_056359	Q9Y2Y6	TMM98_HUMAN	transmembrane protein 98							endoplasmic reticulum|integral to membrane					0		Ovarian(249;0.182)|Breast(31;0.244)	BRCA - Breast invasive adenocarcinoma(9;0.0769)			AAGATGCCTCGTAAGGCCATG	0.517													24	114					0	0	1	0	0		A	31260324	A	A	31260324	5	1	151	1	0	0	0	0	0	0	1	0	16250	1159	40	1	270	1	TMEM98	17	31260324	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	273995	31260324	49934886	3716	80881											
ACCN1	40	broad.mit.edu	37	chr17	31438937	31438937	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tccctgtgcccagctcacctGtctctccccagatgggcagg	5	9	10	17	0	2	1	1	0	1	1	5	1	4	1	5	2	2	2	5	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:31438937G>A	uc002hhu.2	-	2	978	c.704C>T	c.(703-705)ACA>ATA	p.T235I	ACCN1_uc002hht.2_Missense_Mutation_p.T286I	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	235	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	CAGCTCACCTGTCTCTCCCCA	0.617													20	98					0	0	1	0	0		A	31438937	A	A	31438937	3	1	151	1	0	0	0	0	1	0	0	0	128	1377	48	4	870	4	ACCN1	17	31438937	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	178613	31438937	49756273	3717	80882											
C17orf102	400591	broad.mit.edu	37	chr17	32904605	32904605	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctcactgttgtacctaCaatgcctgtgatgttggaga	8	13	10	10	0	1	2	1	1	0	1	1	3	1	2	3	1	4	4	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:32904605C>A	uc002hie.1	-	2	534	c.445G>T	c.(445-447)GTA>TTA	p.V149L		NM_207454	NP_997337	A2RUQ5	CQ102_HUMAN	hypothetical protein LOC400591	149										ovary(1)	1						gttgtacctacaatgcctgTG	0.234													3	79					0.115264	0.115583	1	1	0		A	32904605	A	A	32904605	3	1	151	1	0	0	0	0	1	0	0	0	1852	478	17	5	62	5	C17orf102	17	32904605	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1465668	32904605	48290605	3718	80883											
FNDC8	54752	broad.mit.edu	37	chr17	33448908	33448908	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaacttcttggaggatgatAccatcaacctactgtaagtc	12	12	7	10	0	3	1	2	1	1	0	4	3	3	3	2	2	4	1	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:33448908A>G	uc002hix.2	+	1	278	c.196A>G	c.(196-198)ACC>GCC	p.T66A	RFFL_uc002hiq.2_5'Flank|RAD51L3_uc002hir.2_5'Flank|RAD51L3_uc010wcd.1_5'Flank|RAD51L3_uc002his.2_5'Flank|RAD51L3_uc010ctk.2_5'Flank|RAD51L3_uc010wce.1_5'Flank|RAD51L3_uc002hit.2_5'Flank|RAD51L3_uc002hiu.2_5'Flank|RAD51L3_uc010wcf.1_5'Flank|RAD51L3_uc002hiw.1_5'Flank|RAD51L3_uc002hiv.1_5'Flank|RAD51L3_uc010ctl.1_5'Flank|RAD51L3_uc010ctm.1_5'Flank	NM_017559	NP_060029	Q8TC99	FNDC8_HUMAN	fibronectin type III domain containing 8	66										ovary(2)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.022)		GGAGGATGATACCATCAACCT	0.299													27	74					0	0	1	0	0		G	33448908	G	G	33448908	3	3	151	1	0	0	0	0	1	0	0	0	5988	391	14	3	198	3	FNDC8	17	33448908	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	544303	33448908	47746302	3719	80884											
NLE1	54475	broad.mit.edu	37	chr17	33467011	33467011	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctctgtctccactgcctgGgactccaacgtcttccccag	5	12	7	17	1	3	0	0	0	3	0	7	1	5	1	5	1	2	0	5	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:33467011G>T	uc002hiy.1	-	3	265	c.237C>A	c.(235-237)TCC>TCA	p.S79S	NLE1_uc010ctn.1_5'UTR|NLE1_uc002hiz.1_5'UTR	NM_018096	NP_060566	Q9NVX2	NLE1_HUMAN	Notchless gene homolog isoform a	79						nucleolus				breast(3)|ovary(1)	4		Ovarian(249;0.17)				CCACTGCCTGGGACTCCAACG	0.557													8	52					5.18039e-06	5.25881e-06	1	1	0		T	33467011	T	T	33467011	2	4	151	1	0	0	0	0	0	0	0	1	10479	1219	43	5		5	NLE1	17	33467011	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	18103	33467011	47728199	3720	80885											
SLFN12	55106	broad.mit.edu	37	chr17	33738930	33738930	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggttttctggagtatacgtTatccttcctgatagccctga	8	15	9	9	1	1	2	0	2	1	0	3	3	3	3	3	2	2	3	3	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:33738930T>C	uc002hji.3	-	4	1541	c.1164A>G	c.(1162-1164)ATA>ATG	p.I388M	SLFN12_uc002hjj.3_Missense_Mutation_p.I388M|SLFN12_uc010cts.2_Missense_Mutation_p.I388M	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	388							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GAGTATACGTTATCCTTCCTG	0.274													56	226					0	0	1	0	0		C	33738930	C	C	33738930	3	2	151	1	0	0	0	0	1	0	0	0	14759	1744	61	3	576	3	SLFN12	17	33738930	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	271919	33738930	47456280	3721	80886											
SLFN13	146857	broad.mit.edu	37	chr17	33768197	33768197	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagtgactggtctgaaagTagtccagaaagatccagaga	15	7	11	8	0	1	5	0	2	1	3	3	6	3	5	3	1	0	1	3	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:33768197T>C	uc002hjk.1	-	4	2441	c.2111A>G	c.(2110-2112)TAC>TGC	p.Y704C	SLFN13_uc010wch.1_Missense_Mutation_p.Y704C|SLFN13_uc002hjl.2_Missense_Mutation_p.Y704C|SLFN13_uc010ctt.2_Missense_Mutation_p.Y386C|SLFN13_uc002hjm.2_Missense_Mutation_p.Y373C	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	704						intracellular	ATP binding			ovary(1)|breast(1)	2				UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GGTCTGAAAGTAGTCCAGAAA	0.473													63	244					0	0	1	0	0		C	33768197	C	C	33768197	3	2	151	1	0	0	0	0	1	0	0	0	14761	1638	57	3	586	3	SLFN13	17	33768197	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	29267	33768197	47427013	3722	80887											
SLFN13	146857	broad.mit.edu	37	chr17	33770835	33770835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaatgttgttgtagatcagCtttgtgttccagacctttct	8	18	8	7	0	2	2	1	0	1	2	3	2	3	2	2	0	1	5	2	0	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:33770835C>T	uc002hjk.1	-	2	1501	c.1171G>A	c.(1171-1173)GCT>ACT	p.A391T	SLFN13_uc010wch.1_Missense_Mutation_p.A391T|SLFN13_uc002hjl.2_Missense_Mutation_p.A391T|SLFN13_uc010ctt.2_Missense_Mutation_p.A73T|SLFN13_uc002hjm.2_Missense_Mutation_p.A60T	NM_144682	NP_653283	Q68D06	SLN13_HUMAN	schlafen family member 13	391						intracellular	ATP binding			ovary(1)|breast(1)	2				UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TGTAGATCAGCTTTGTGTTCC	0.408													23	140					0	0	1	0	0		T	33770835	T	T	33770835	3	4	151	1	0	0	0	0	1	0	0	0	14761	797	28	2	1534	2	SLFN13	17	33770835	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2638	33770835	47424375	3723	80888											
MMP28	79148	broad.mit.edu	37	chr17	34093727	34093727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcctgcagacttcgggggTagtagggctccacttgcagt	7	10	14	10	1	0	1	0	0	0	1	3	1	2	1	2	3	2	5	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:34093727T>C	uc002hjy.1	-	10	1614	c.1355A>G	c.(1354-1356)TAC>TGC	p.Y452C	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	452	Hemopexin-like 3.				proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		ACTTCGGGGGTAGTAGGGCTC	0.657													8	7					0	0	1	0	0		C	34093727	C	C	34093727	3	2	151	1	0	0	0	0	1	0	0	0	9683	1638	57	3	211	3	MMP28	17	34093727	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	322892	34093727	47101483	3724	80889											
TBC1D3B	414059	broad.mit.edu	37	chr17	34499221	34499221	+	Missense_Mutation	SNP	C	T	T																															cccgtaggcttacttggttcCgtatcgatccctgaagaaca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:34499221C>T	uc002hky.2	-	7	640	c.490G>A	c.(490-492)GGA>AGA	p.G164R	uc002hla.1_5'Flank|uc002hlc.2_5'Flank	NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	164	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TACTTGGTTCCGTATCGATCC	0.572													41	591					0	0	1	0	0		T	34499221	T	T	34499221	3	4	151	1	0	0	0	0	1	0	0	0	15645	661	23	1	1191	1	TBC1D3B	17	34499221	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	405494	34499221	46695989	3725	80890	153	2									
TBC1D3B	414059	broad.mit.edu	37	chr17	34499223	34499223	+	Missense_Mutation	SNP	T	C	C																															cgtaggcttacttggttccgTatcgatccctgaagaacata																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:34499223T>C	uc002hky.2	-	7	638	c.488A>G	c.(487-489)TAC>TGC	p.Y163C	uc002hla.1_5'Flank|uc002hlc.2_5'Flank	NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	163	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CTTGGTTCCGTATCGATCCCT	0.567													16	614					0	0	1	0	0		C	34499223	C	C	34499223	3	2	151	1	0	0	0	0	1	0	0	0	15645	1638	57	3	1193	3	TBC1D3B	17	34499223	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2	34499223	46695987	3726	80891	153	2									
ACACA	31	broad.mit.edu	37	chr17	35550328	35550328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttaccttatcccttgctCggaatgtaaaaaatttaggg	11	14	7	9	1	0	0	0	0	0	0	3	1	2	1	3	2	2	2	3	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:35550328C>T	uc002hnm.2	-	36	4267	c.4076G>A	c.(4075-4077)CGA>CAA	p.R1359Q	ACACA_uc002hnk.2_Missense_Mutation_p.R1281Q|ACACA_uc002hnl.2_Missense_Mutation_p.R1301Q|ACACA_uc002hnn.2_Missense_Mutation_p.R1359Q|ACACA_uc002hno.2_Missense_Mutation_p.R1396Q|ACACA_uc010cuy.2_Missense_Mutation_p.R53Q	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1359					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	ATCCCTTGCTCGGAATGTAAA	0.338													19	58					0	0	1	0	0		T	35550328	T	T	35550328	3	4	151	1	0	0	0	0	1	0	0	0	106	884	31	1	3048	1	ACACA	17	35550328	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1051105	35550328	45644882	3727	80892											
SYNRG	11276	broad.mit.edu	37	chr17	35880674	35880674	+	Silent	SNP	T	A	A	0	1	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	tccacattcaagaggcacacTccacaggcaagctcctgagc	12	6	8	15	0	1	2	1	1	0	1	4	2	4	2	3	2	2	3	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:35880674T>A	uc002hoa.2	-	20	3827	c.3744A>T	c.(3742-3744)GGA>GGT	p.G1248G	SYNRG_uc010wde.1_Silent_p.G1193G|SYNRG_uc010wdf.1_Silent_p.G1170G|SYNRG_uc002hoc.2_Silent_p.G1169G|SYNRG_uc002hoe.2_Silent_p.G1170G|SYNRG_uc002hod.2_Silent_p.G1125G|SYNRG_uc010wdg.1_Silent_p.G1042G|SYNRG_uc002hob.2_Silent_p.G1248G	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	1248					endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						AGAGGCACACTCCACAGGCAA	0.512													16	59					0	0	1	0	0		A	35880674	A	A	35880674	2	1	151	1	0	0	0	0	0	0	0	1	15485	1538	54	5		5	SYNRG	17	35880674	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	330346	35880674	45314536	3728	80893											
SYNRG	11276	broad.mit.edu	37	chr17	35902351	35902351	+	Silent	SNP	A	G	G	1	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	ttttcatattccttttgctcActggtctgaggaatcgtgtc	6	18	8	9	1	3	1	2	1	1	0	6	2	4	2	1	2	1	1	1	2	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:35902351A>G	uc002hoa.2	-	15	3008	c.2925T>C	c.(2923-2925)AGT>AGC	p.S975S	SYNRG_uc010wde.1_Silent_p.S897S|SYNRG_uc010wdf.1_Silent_p.S897S|SYNRG_uc002hoc.2_Silent_p.S896S|SYNRG_uc002hoe.2_Silent_p.S897S|SYNRG_uc002hod.2_Silent_p.S852S|SYNRG_uc010wdg.1_Silent_p.S769S|SYNRG_uc002hob.2_Silent_p.S975S|SYNRG_uc002hof.2_Silent_p.S641S	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	975					endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						CCTTTTGCTCACTGGTCTGAG	0.488													43	191					0	0	1	0	0		G	35902351	G	G	35902351	2	3	151	1	0	0	0	0	0	0	0	1	15485	156	6	3		3	SYNRG	17	35902351	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	21677	35902351	45292859	3729	80894											
GPR179	440435	broad.mit.edu	37	chr17	36483989	36483989	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtagttccttcacttacCtcccagggacagatcttggc	8	11	8	14	0	2	1	1	0	1	1	4	2	4	2	4	2	1	2	4	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:36483989C>A	uc002hpz.2	-	11	5484	c.5463G>T	c.(5461-5463)GAG>GAT	p.E1821D		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1821	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CTTCACTTACCTCCCAGGGAC	0.532													47	217					1.54707e-10	1.59462e-10	1	1	0		A	36483989	A	A	36483989	3	1	151	1	0	0	0	0	1	0	0	0	6689	680	24	5	1644	5	GPR179	17	36483989	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	581638	36483989	44711221	3730	80895											
MLLT6	4302	broad.mit.edu	37	chr17	36864113	36864113	+	Silent	SNP	T	C	C	0	1	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	ctgcagtacgtgcctcatgaTcgcttcaacaaggtcagcgg	9	9	11	12	3	3	1	3	1	0	0	4	1	3	1	1	2	5	3	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:36864113T>C	uc002hqi.3	+	4	355	c.342T>C	c.(340-342)GAT>GAC	p.D114D	MLLT6_uc010wdr.1_Silent_p.D114D|MLLT6_uc010cvm.1_Silent_p.D114D	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	114					regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					TGCCTCATGATCGCTTCAACA	0.582			T	MLL	AL								8	22					0	0	1	0	0		C	36864113	C	C	36864113	2	2	151	1	0	0	0	0	0	0	0	1	9648	1432	50	3		3	MLLT6	17	36864113	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	380124	36864113	44331097	3731	80896											
FBXL20	84961	broad.mit.edu	37	chr17	37420479	37420479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctggcagtcatagagttcTatccgctcaaggctatgaca	10	11	10	10	1	3	2	2	1	1	1	4	2	4	2	1	2	1	5	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:37420479T>C	uc010wed.1	-	14	1373	c.1152A>G	c.(1150-1152)ATA>ATG	p.I384M	FBXL20_uc002hrt.2_Missense_Mutation_p.I384M|FBXL20_uc010cvu.2_Missense_Mutation_p.I352M	NM_032875	NP_116264	Q96IG2	FXL20_HUMAN	F-box and leucine-rich repeat protein 20	384	LRR 12.					cytoplasm				ovary(1)	1			LUAD - Lung adenocarcinoma(14;0.146)			CATAGAGTTCTATCCGCTCAA	0.498													56	177					0	0	1	0	0		C	37420479	C	C	37420479	3	2	151	1	0	0	0	0	1	0	0	0	5731	1512	53	3	166	3	FBXL20	17	37420479	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	556366	37420479	43774731	3732	80897											
CDK12	51755	broad.mit.edu	37	chr17	37627217	37627217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaaagaagagatccagttcaCgcagtcgtcattccagtatc	14	9	8	10	2	2	2	2	0	0	2	6	3	4	2	2	0	0	3	2	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:37627217C>T	uc010cvv.2	+	2	1718	c.1132C>T	c.(1132-1134)CGC>TGC	p.R378C	CDK12_uc010wef.1_Missense_Mutation_p.R377C|CDK12_uc002hrw.3_Missense_Mutation_p.R378C	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	378					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						ATCCAGTTCACGCAGTCGTCA	0.423										TCGA Ovarian(9;0.13)			26	124					0	0	1	0	0		T	37627217	T	T	37627217	3	4	151	1	0	0	0	0	1	0	0	0	3131	536	19	1	1138	1	CDK12	17	37627217	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	206738	37627217	43567993	3733	80898											
PNMT	5409	broad.mit.edu	37	chr17	37826227	37826227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctggcaggataaggagcGccagctgcgagccagggtga	10	5	17	9	2	0	1	0	1	0	0	0	4	0	3	2	4	5	3	2	4	1	1	rs150323544		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:37826227G>A	uc002hsi.1	+	3	656	c.434G>A	c.(433-435)CGC>CAC	p.R145H		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	145					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	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)			GATAAGGAGCGCCAGCTGCGA	0.662													14	34					0	0	1	0	0		A	37826227	A	A	37826227	3	1	151	1	0	0	0	0	1	0	0	0	12178	1087	38	1	444	1	PNMT	17	37826227	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	199010	37826227	43368983	3734	80899											
MED24	9862	broad.mit.edu	37	chr17	38179049	38179049	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagctccactgcccgcagcgTgtgctccttccgcgtctcct	3	10	9	19	4	1	0	0	0	1	0	5	0	4	0	5	0	4	3	5	0	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:38179049T>C	uc002htt.2	-	21	2594	c.2281A>G	c.(2281-2283)ACG>GCG	p.T761A	MED24_uc010weq.1_5'Flank|MED24_uc002htr.2_5'Flank|MED24_uc010wer.1_Missense_Mutation_p.T96A|MED24_uc010wes.1_Missense_Mutation_p.T621A|MED24_uc010wet.1_Intron|MED24_uc002hts.2_Missense_Mutation_p.T786A|MED24_uc002htu.2_Missense_Mutation_p.T748A|MED24_uc010cwn.2_Missense_Mutation_p.T748A|MED24_uc010weu.1_Missense_Mutation_p.T671A|MED24_uc010wev.1_Missense_Mutation_p.T711A	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	761					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					GCCCGCAGCGTGTGCTCCTTC	0.642													5	33					0	0	1	0	0		C	38179049	C	C	38179049	3	2	151	1	0	0	0	0	1	0	0	0	9460	1696	59	3	712	3	MED24	17	38179049	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	352822	38179049	43016161	3735	80900											
THRA	7067	broad.mit.edu	37	chr17	38240097	38240097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccaccccagggcttctttCgccgcacaatccagaagaac	10	6	7	18	2	1	2	0	0	1	2	3	2	2	2	6	1	1	2	6	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:38240097C>T	uc002htw.2	+	5	715	c.232C>T	c.(232-234)CGC>TGC	p.R78C	THRA_uc010cwp.1_Missense_Mutation_p.R78C|THRA_uc002htv.2_Missense_Mutation_p.R78C|THRA_uc002htx.2_Missense_Mutation_p.R78C	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2	78	Nuclear receptor.				negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	GGGCTTCTTTCGCCGCACAAT	0.552													23	124					0	0	1	0	0		T	38240097	T	T	38240097	3	4	151	1	0	0	0	0	1	0	0	0	15898	884	31	1	246	1	THRA	17	38240097	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	61048	38240097	42955113	3736	80901											
RAPGEFL1	51195	broad.mit.edu	37	chr17	38345469	38345469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccgtccagtcttctgccGtgtatacatgcctgaccact	6	14	7	14	2	2	1	0	1	2	0	4	1	4	1	5	0	3	1	5	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:38345469G>A	uc010cwu.1	+	6	828	c.338G>A	c.(337-339)CGT>CAT	p.R113H	RAPGEFL1_uc010wfd.1_Missense_Mutation_p.R49H	NM_016339	NP_057423	Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor	319					G-protein coupled receptor protein signaling pathway|nervous system development|small GTPase mediated signal transduction	intracellular|membrane fraction	guanyl-nucleotide exchange factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						GTCTTCTGCCGTGTATACATG	0.527													52	224					0	0	1	0	0		A	38345469	A	A	38345469	3	1	151	1	0	0	0	0	1	0	0	0	13074	1145	40	1	352	1	RAPGEFL1	17	38345469	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	105372	38345469	42849741	3737	80902											
KRT25	147183	broad.mit.edu	37	chr17	38904579	38904579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggagcctggtggtaagtaTtttgctgcgttggtctacct	5	15	14	7	1	1	0	0	0	1	0	1	1	1	1	2	4	4	4	2	4	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:38904579T>C	uc002hve.2	-	8	1364	c.1303A>G	c.(1303-1305)ATA>GTA	p.I435V		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	435	Tail.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				GTGGTAAGTATTTTGCTGCGT	0.413													51	194					0	0	1	0	0		C	38904579	C	C	38904579	3	2	151	1	0	0	0	0	1	0	0	0	8478	1493	52	3	53	3	KRT25	17	38904579	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	559110	38904579	42290631	3738	80903											
KRT27	342574	broad.mit.edu	37	chr17	38933833	38933833	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggtggaccttgatgtcaAggagctgctcatactcgagc	9	9	12	11	1	2	1	2	1	0	0	3	4	2	3	2	3	4	2	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:38933833A>G	uc002hvg.2	-	6	1165	c.1124T>C	c.(1123-1125)CTT>CCT	p.L375P		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	375	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				CTTGATGTCAAGGAGCTGCTC	0.532													61	196					0	0	1	0	0		G	38933833	G	G	38933833	3	3	151	1	0	0	0	0	1	0	0	0	8480	72	3	3	267	3	KRT27	17	38933833	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	29254	38933833	42261377	3739	80904											
KRT28	162605	broad.mit.edu	37	chr17	38953472	38953472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaccgcgaggtctacccccGgggccgcgttcatctccacg	7	6	11	17	6	3	0	1	0	2	0	4	1	3	0	5	3	2	1	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:38953472G>A	uc002hvh.1	-	4	818	c.752C>T	c.(751-753)CCG>CTG	p.P251L		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	251	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GTCTACCCCCGGGGCCGCGTT	0.597													23	75					0	0	1	0	0		A	38953472	A	A	38953472	3	1	151	1	0	0	0	0	1	0	0	0	8481	1116	39	1	662	1	KRT28	17	38953472	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	19639	38953472	42241738	3740	80905											
KRT28	162605	broad.mit.edu	37	chr17	38955785	38955785	+	Missense_Mutation	SNP	A	G	G	1	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	aggtccgtatttttcataccAacccttgatttttctctcta	8	18	4	11	1	3	1	1	1	2	0	5	1	4	1	3	1	2	1	3	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:38955785A>G	uc002hvh.1	-	1	427	c.361T>C	c.(361-363)TGG>CGG	p.W121R		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	121	Rod.|Coil 1A.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				TTTTCATACCAACCCTTGATT	0.423													42	258					0	0	1	0	0		G	38955785	G	G	38955785	3	3	151	1	0	0	0	0	1	0	0	0	8481	130	5	3	1065	3	KRT28	17	38955785	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2313	38955785	42239425	3741	80906											
KRT12	3859	broad.mit.edu	37	chr17	39019476	39019476	+	Silent	SNP	T	A	A	0	1	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	tggtccacgttctggcgctcTgcgtccgcgcgcacctggag	3	9	14	15	6	2	0	0	0	2	0	4	1	4	1	3	3	1	3	3	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39019476T>A	uc002hvk.2	-	6	1239	c.1215A>T	c.(1213-1215)GCA>GCT	p.A405A		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	405	Rod.|Coil 2.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				TCTGGCGCTCTGCGTCCGCGC	0.672													11	29					0	0	1	0	0		A	39019476	A	A	39019476	2	1	151	1	0	0	0	0	0	0	0	1	8465	1567	55	5		5	KRT12	17	39019476	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	63691	39019476	42175734	3742	80907											
KRT23	25984	broad.mit.edu	37	chr17	39081783	39081783	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcctggagcttgcaggagTaccgagactgggtctcggat	7	10	15	9	2	1	1	0	0	1	1	3	5	2	4	2	4	3	3	2	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39081783T>C	uc002hvm.1	-	7	1554	c.965A>G	c.(964-966)TAC>TGC	p.Y322C	KRT23_uc010wfl.1_Missense_Mutation_p.Y185C|KRT23_uc010cxf.1_Missense_Mutation_p.Y109C|KRT23_uc010cxg.2_Missense_Mutation_p.Y322C	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	322	Rod.|Coil 2.			Y -> N (in Ref. 1; AAK00050).		intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				CTTGCAGGAGTACCGAGACTG	0.448													5	85					0	0	1	0	0		C	39081783	C	C	39081783	3	2	151	1	0	0	0	0	1	0	0	0	8476	1638	57	3	315	3	KRT23	17	39081783	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	62307	39081783	42113427	3743	80908											
KRTAP9-8	83901	broad.mit.edu	37	chr17	39394461	39394461	+	Missense_Mutation	SNP	A	G	G	1	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	ctgccgcccaacttgctgtcAaaacacctgctgccagccca	9	7	7	18	1	1	0	1	0	0	0	1	0	1	0	5	0	7	2	5	0	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39394461A>G	uc002hwh.3	+	1	192	c.158A>G	c.(157-159)CAA>CGA	p.Q53R	KRTAP9-9_uc010wfq.1_Intron	NM_031963	NP_114169	Q9BYQ0	KRA98_HUMAN	keratin associated protein 9.8	53	6.|15 X 5 AA repeats of C-C-[RQVSGE]- [SPSNQ]-[TASPI].					keratin filament				ovary(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			ACTTGCTGTCAAAACACCTGC	0.632													13	69					0	0	1	0	0		G	39394461	G	G	39394461	3	3	151	1	0	0	0	0	1	0	0	0	8592	130	5	3	160	3	KRTAP9-8	17	39394461	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	312678	39394461	41800749	3744	80909											
KRT33A	3883	broad.mit.edu	37	chr17	39504875	39504875	+	Missense_Mutation	SNP	A	G	G	1	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	ctccaccagctgccgcagggAcagctcggtctcatatctgt	7	9	10	15	2	2	0	1	0	2	0	5	1	3	1	3	2	3	3	3	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39504875A>G	uc002hwk.1	-	3	485	c.448T>C	c.(448-450)TCC>CCC	p.S150P		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	150	Rod.|Coil 1B.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				TGCCGCAGGGACAGCTCGGTC	0.592													14	55					0	0	1	0	0		G	39504875	G	G	39504875	3	3	151	1	0	0	0	0	1	0	0	0	8485	275	10	3	786	3	KRT33A	17	39504875	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	110414	39504875	41690335	3745	80910											
KRT33B	3884	broad.mit.edu	37	chr17	39521180	39521180	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gactccacgttggtgatcagGctctgcacctgggacagctg	7	9	13	12	1	2	1	1	1	1	0	3	3	3	2	2	3	2	4	2	3	0	1	rs142638263	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39521180G>T	uc002hwl.2	-	6	993	c.948C>A	c.(946-948)AGC>AGA	p.S316R		NM_002279	NP_002270	Q14525	KT33B_HUMAN	type I hair keratin 3B	316	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				TGGTGATCAGGCTCTGCACCT	0.617													7	65					4.68919e-08	4.80054e-08	1	1	0		T	39521180	T	T	39521180	3	4	151	1	0	0	0	0	1	0	0	0	8486	1194	42	5	274	5	KRT33B	17	39521180	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16305	39521180	41674030	3746	80911											
KRT32	3882	broad.mit.edu	37	chr17	39616434	39616434	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacagacggtgcggggcacGcatggggagggcacacaggt	10	3	18	10	3	0	1	0	0	0	1	0	2	0	2	0	7	1	3	0	7	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39616434G>A	uc002hwr.2	-	7	1336	c.1275C>T	c.(1273-1275)TGC>TGT	p.C425C		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	425	Tail.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				TGCGGGGCACGCATGGGGAGG	0.602													3	20					0	0	1	0	0		A	39616434	A	A	39616434	2	1	151	1	0	0	0	0	0	0	0	1	8484	1079	38	1		1	KRT32	17	39616434	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	95254	39616434	41578776	3747	80912											
KRT32	3882	broad.mit.edu	37	chr17	39622129	39622129	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcatccaggatcctgcgcaGgccattgatgtcggcctcca	8	9	10	14	2	1	1	1	1	0	0	5	2	4	2	5	3	1	1	5	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39622129G>T	uc002hwr.2	-	3	665	c.604C>A	c.(604-606)CTG>ATG	p.L202M		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	202	Rod.|Coil 1B.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				ATCCTGCGCAGGCCATTGATG	0.572													12	56					3.07112e-06	3.12052e-06	1	1	0		T	39622129	T	T	39622129	3	4	151	1	0	0	0	0	1	0	0	0	8484	991	35	5	762	5	KRT32	17	39622129	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5695	39622129	41573081	3748	80913											
KRT13	3860	broad.mit.edu	37	chr17	39661386	39661386	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgggctctgcttcaggtgCcagtcacggatcttcacctc	5	11	11	14	1	5	0	3	0	2	0	6	1	5	1	2	3	2	3	2	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39661386C>T	uc002hwu.1	-	1	480	c.417G>A	c.(415-417)TGG>TGA	p.W139*	KRT13_uc002hwv.1_Nonsense_Mutation_p.W139*|KRT13_uc002hww.2_Nonsense_Mutation_p.W32*|KRT13_uc010wfr.1_Nonsense_Mutation_p.W32*|KRT13_uc010cxo.2_Nonsense_Mutation_p.W139*|KRT13_uc002hwx.1_Nonsense_Mutation_p.W127*	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	139	Coil 1A.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				GCTTCAGGTGCCAGTCACGGA	0.607													17	92					0	0	1	0	0		T	39661386	T	T	39661386	4	4	151	1	0	0	0	0	0	1	0	0	8466	740	26	2	991	2	KRT13	17	39661386	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	39257	39661386	41533824	3749	80914											
HAP1	9001	broad.mit.edu	37	chr17	39883656	39883656	+	Missense_Mutation	SNP	T	C	C	0	1	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	caatcagcatgcccccacaaTccatgtacttctcccgcagg	10	8	6	17	1	2	0	1	0	1	0	4	0	3	0	4	1	3	3	4	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39883656T>C	uc002hxm.1	-	9	1337	c.1325A>G	c.(1324-1326)GAT>GGT	p.D442G	JUP_uc010wfs.1_Intron|HAP1_uc002hxn.1_Intron|HAP1_uc002hxo.1_Intron|HAP1_uc002hxp.1_Intron	NM_177977	NP_817084	P54257	HAP1_HUMAN	huntingtin-associated protein 1 isoform 2	442	Glu-rich.|HAP1 N-terminal.				brain development|protein localization|synaptic transmission	actin cytoskeleton	protein binding			ovary(2)	2		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			GCCCCCACAATCCATGTACTT	0.612													10	68					0	0	1	0	0		C	39883656	C	C	39883656	3	2	151	1	0	0	0	0	1	0	0	0	6969	1450	50	3		3	HAP1	17	39883656	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	222270	39883656	41311554	3750	80915											
JUP	3728	broad.mit.edu	37	chr17	39913734	39913734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacggacacgcgcttccggTagtctgggttcttgtcctcg	4	11	12	14	5	2	0	0	0	2	0	5	1	4	1	3	3	0	3	3	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39913734T>C	uc002hxq.2	-	12	2256	c.1979A>G	c.(1978-1980)TAC>TGC	p.Y660C	JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Missense_Mutation_p.Y660C|JUP_uc002hxs.2_Missense_Mutation_p.Y660C	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	660					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		GCGCTTCCGGTAGTCTGGGTT	0.582													25	118					0	0	1	0	0		C	39913734	C	C	39913734	3	2	151	1	0	0	0	0	1	0	0	0	7988	1638	57	3	270	3	JUP	17	39913734	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	30078	39913734	41281476	3751	80916											
FKBP10	60681	broad.mit.edu	37	chr17	39973321	39973321	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccccccagctatgatcgcaAcaccttggtggccatcgtgg	7	8	10	16	2	0	1	0	1	0	0	2	1	0	1	5	3	2	2	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39973321A>G	uc002hxv.2	+	2	582	c.257A>G	c.(256-258)AAC>AGC	p.N86S	FKBP10_uc002hxw.1_5'Flank	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	86	PPIase FKBP-type 1.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		TATGATCGCAACACCTTGGTG	0.612													12	62					0	0	1	0	0		G	39973321	G	G	39973321	3	3	151	1	0	0	0	0	1	0	0	0	5916	43	2	3	263	3	FKBP10	17	39973321	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	59587	39973321	41221889	3752	80917											
FKBP10	60681	broad.mit.edu	37	chr17	39973411	39973411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtcaacgagcggcgacGcctcattgtgcctccccacc	6	8	11	16	4	2	0	2	0	0	0	3	2	3	0	5	1	3	0	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:39973411G>A	uc002hxv.2	+	2	672	c.347G>A	c.(346-348)CGC>CAC	p.R116H	FKBP10_uc002hxw.1_5'Flank	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	116	PPIase FKBP-type 1.		Missing (in OI6).		protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		GAGCGGCGACGCCTCATTGTG	0.647													17	63					0	0	1	0	0		A	39973411	A	A	39973411	3	1	151	1	0	0	0	0	1	0	0	0	5916	1087	38	1	353	1	FKBP10	17	39973411	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	90	39973411	41221799	3753	80918											
ACLY	47	broad.mit.edu	37	chr17	40070067	40070067	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctggatggctgaggtggtAcagatgaacttgtaaaggag	11	11	15	4	0	1	3	0	2	1	1	1	5	1	5	0	5	2	3	0	5	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40070067A>G	uc002hyg.2	-	2	223	c.60T>C	c.(58-60)TGT>TGC	p.C20C	ACLY_uc002hyh.2_Silent_p.C20C|ACLY_uc002hyi.2_Silent_p.C74C|ACLY_uc010wfx.1_Silent_p.C74C|ACLY_uc010wfy.1_Silent_p.C20C	NM_001096	NP_001087	P53396	ACLY_HUMAN	ATP citrate lyase isoform 1	20					ATP catabolic process|cellular carbohydrate metabolic process|citrate metabolic process|coenzyme A metabolic process|energy reserve metabolic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	citrate lyase complex|cytosol|nucleus	ATP binding|ATP citrate synthase activity|citrate (pro-3S)-lyase activity|metal ion binding|protein binding|succinate-CoA ligase (ADP-forming) activity			ovary(2)|central_nervous_system(1)	3		Breast(137;0.000143)				CTGAGGTGGTACAGATGAACT	0.567													46	194					0	0	1	0	0		G	40070067	G	G	40070067	2	3	151	1	0	0	0	0	0	0	0	1	143	389	14	3		3	ACLY	17	40070067	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	96656	40070067	41125143	3754	80919											
DHX58	79132	broad.mit.edu	37	chr17	40263478	40263478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcgtccatccagcatgCgcctgaactcttcaccatgc	8	9	7	17	2	2	1	1	1	1	0	5	1	5	1	5	0	5	1	5	0	1	1	rs143989971	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40263478C>T	uc002hyw.3	-	4	429	c.206G>A	c.(205-207)CGC>CAC	p.R69H	DHX58_uc002hyv.3_RNA|DHX58_uc010wgf.1_Missense_Mutation_p.R62H	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	69	Helicase ATP-binding.				innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ATCCAGCATGCGCCTGAACTC	0.627													8	47					0	0	1	0	0		T	40263478	T	T	40263478	3	4	151	1	0	0	0	0	1	0	0	0	4520	768	27	1	1874	1	DHX58	17	40263478	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	193411	40263478	40931732	3755	80920											
PSMC3IP	29893	broad.mit.edu	37	chr17	40726185	40726185	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgagggccacgattttgccaTctaggacttgaaggtcagca	10	10	12	9	1	2	2	1	2	1	0	2	4	2	3	2	3	2	1	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40726185T>C	uc002iai.2	-	4	312	c.269A>G	c.(268-270)GAT>GGT	p.D90G	PSMC3IP_uc002iaj.2_Missense_Mutation_p.D27G|PSMC3IP_uc002iak.2_Missense_Mutation_p.D90G|PSMC3IP_uc010wgn.1_Missense_Mutation_p.D11G|PSMC3IP_uc010wgo.1_Intron|PSMC3IP_uc010wgp.1_RNA	NM_016556	NP_057640	Q9P2W1	HOP2_HUMAN	PSMC3 interacting protein isoform 2	90					DNA recombination|meiosis	nucleus	DNA binding			upper_aerodigestive_tract(1)|skin(1)	2		all_cancers(22;0.00426)|Breast(137;0.00116)|all_epithelial(22;0.0395)		BRCA - Breast invasive adenocarcinoma(366;0.13)		GATTTTGCCATCTAGGACTTG	0.527													13	48					0	0	1	0	0		C	40726185	C	C	40726185	3	2	151	1	0	0	0	0	1	0	0	0	12710	1435	50	3	404	3	PSMC3IP	17	40726185	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	462707	40726185	40469025	3756	80921											
TUBG2	27175	broad.mit.edu	37	chr17	40817819	40817819	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccacttcctcatgaccggcTacaccccgctcactacagac	9	8	5	19	2	2	2	2	1	0	1	4	2	4	2	5	1	2	2	5	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40817819T>C	uc010wgr.1	+	8	1073	c.817T>C	c.(817-819)TAC>CAC	p.Y273H	TUBG2_uc002iaq.2_Missense_Mutation_p.Y115H|TUBG2_uc002iar.2_Missense_Mutation_p.Y120H|TUBG2_uc002ias.2_Missense_Mutation_p.Y115H|TUBG2_uc002iap.2_Missense_Mutation_p.Y120H	NM_016437	NP_057521	Q9NRH3	TBG2_HUMAN	tubulin, gamma 2	273					G2/M transition of mitotic cell cycle|microtubule-based process|protein polymerization	cytosol	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.141)		CATGACCGGCTACACCCCGCT	0.632													22	81					0	0	1	0	0		C	40817819	C	C	40817819	3	2	151	1	0	0	0	0	1	0	0	0	16791	1522	53	3	847	3	TUBG2	17	40817819	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	91634	40817819	40377391	3757	80922											
PLEKHH3	79990	broad.mit.edu	37	chr17	40821468	40821468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggggctctgcaggaggaGctggctctctcccaccctca	5	8	13	15	0	3	0	1	0	2	0	5	2	4	2	2	5	2	4	2	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40821468G>A	uc002iau.2	-	12	2652	c.2185C>T	c.(2185-2187)CTC>TTC	p.L729F	PLEKHH3_uc010cyl.1_Intron|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Missense_Mutation_p.L90F|PLEKHH3_uc002iaw.2_3'UTR	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	729	FERM.				signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		TGCAGGAGGAGCTGGCTCTCT	0.532													12	32					0	0	1	0	0		A	40821468	A	A	40821468	3	1	151	1	0	0	0	0	1	0	0	0	12097	971	34	2	204	2	PLEKHH3	17	40821468	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3649	40821468	40373742	3758	80923											
CNTNAP1	8506	broad.mit.edu	37	chr17	40844011	40844011	+	Splice_Site	SNP	T	C	C	0	1	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	gtgcgggtggaactcaacagTgagcaggcagactgtgggag	10	6	18	7	1	1	2	1	1	0	1	1	4	1	4	0	4	4	2	0	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40844011T>C	uc002iay.2	+	16	2746	c.2530_splice	c.e16+2	p.T844_splice	CNTNAP1_uc010wgs.1_Splice_Site	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor						axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		AACTCAACAGTGAGCAGGCAG	0.602													34	155					0	0	1	0	0		C	40844011	C	C	40844011	5	2	151	1	0	0	0	0	0	0	1	0	3649	1710	59	3	2594	3	CNTNAP1	17	40844011	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22543	40844011	40351199	3759	80924											
WNK4	65266	broad.mit.edu	37	chr17	40937399	40937399	+	Missense_Mutation	SNP	A	G	G	1	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	gcctcaagctctggctgcgcAtggaggacgcgcggcgcggg	5	5	18	13	6	2	0	1	0	1	0	2	2	2	2	1	5	2	3	1	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40937399A>G	uc002ibj.2	+	6	1396	c.1375A>G	c.(1375-1377)ATG>GTG	p.M459V	WNK4_uc010wgx.1_Missense_Mutation_p.M123V|WNK4_uc002ibk.1_Missense_Mutation_p.M231V|WNK4_uc010wgy.1_5'UTR	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	459					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		CTGGCTGCGCATGGAGGAcgc	0.607													2	3					0	0	1	0	0		G	40937399	G	G	40937399	3	3	151	1	0	0	0	0	1	0	0	0	17406	217	8	3	1397	3	WNK4	17	40937399	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	93388	40937399	40257811	3760	80925											
AOC2	314	broad.mit.edu	37	chr17	40997488	40997488	+	Missense_Mutation	SNP	T	C	C	0	1	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	taagtctggccggttggaagTggttagagtccctctacctc	7	12	12	10	1	2	1	0	0	2	1	4	2	3	2	3	4	1	2	3	4	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:40997488T>C	uc002ibu.2	+	1	880	c.845T>C	c.(844-846)GTG>GCG	p.V282A	AOC2_uc002ibt.2_Missense_Mutation_p.V282A	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	282					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		CGGTTGGAAGTGGTTAGAGTC	0.572													29	112					0	0	1	0	0		C	40997488	C	C	40997488	3	2	151	1	0	0	0	0	1	0	0	0	727	1696	59	3	847	3	AOC2	17	40997488	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	60089	40997488	40197722	3761	80926											
IFI35	3430	broad.mit.edu	37	chr17	41165193	41165193	+	Missense_Mutation	SNP	A	G	G	1	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	ttgcgggctctgctctgatcAcctttgatgaccccaaaggt	7	12	10	12	1	3	3	1	3	2	0	3	3	3	3	3	2	2	2	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:41165193A>G	uc010whj.1	+	3	446	c.250A>G	c.(250-252)ACC>GCC	p.T84A		NM_005533	NP_005524	P80217	IN35_HUMAN	interferon-induced protein 35	84					response to virus|type I interferon-mediated signaling pathway	nucleus	protein binding			ovary(1)	1		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.157)		TGCTCTGATCACCTTTGATGA	0.577													49	139					0	0	1	0	0		G	41165193	G	G	41165193	3	3	151	1	0	0	0	0	1	0	0	0	7532	159	6	3	260	3	IFI35	17	41165193	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	167705	41165193	40030017	3762	80927											
MPP3	4356	broad.mit.edu	37	chr17	41907103	41907103	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcgatattgtcaggcagaggCgggagaacggggtcaaaatt	12	8	15	6	3	2	2	2	0	0	2	3	4	2	2	0	5	1	1	0	5	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:41907103C>T	uc002iei.3	-	7	526	c.360G>A	c.(358-360)CCG>CCA	p.P120P	MPP3_uc002ieh.2_Silent_p.P145P|MPP3_uc002iej.2_RNA|MPP3_uc010czi.1_Silent_p.P120P|MPP3_uc010wik.1_Silent_p.P145P|MPP3_uc010czj.1_3'UTR	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	120					signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		CAGGCAGAGGCGGGAGAACGG	0.562													12	58					0	0	1	0	0		T	41907103	T	T	41907103	2	4	151	1	0	0	0	0	0	0	0	1	9753	755	27	1		1	MPP3	17	41907103	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	741910	41907103	39288107	3763	80928											
MPP3	4356	broad.mit.edu	37	chr17	41907449	41907449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctctcatcactgtgcacGgaggcggcctgcaactcctc	6	9	9	17	2	2	0	2	0	1	0	6	1	4	1	3	3	3	2	3	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:41907449G>A	uc002iei.3	-	6	415	c.249C>T	c.(247-249)TCC>TCT	p.S83S	MPP3_uc002ieh.2_Silent_p.S108S|MPP3_uc002iej.2_RNA|MPP3_uc010czi.1_Silent_p.S83S|MPP3_uc010wik.1_Silent_p.S108S|MPP3_uc010czj.1_Silent_p.S83S	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	83	L27 2.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		CACTGTGCACGGAGGCGGCCT	0.627													4	16					0	0	1	0	0		A	41907449	A	A	41907449	2	1	151	1	0	0	0	0	0	0	0	1	9753	1103	39	1		1	MPP3	17	41907449	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	346	41907449	39287761	3764	80929											
SLC4A1	6521	broad.mit.edu	37	chr17	42334882	42334882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgatccacacgcggcccaCgatgtactctagaccgttgg	8	7	11	15	5	1	1	0	0	1	1	2	3	2	1	4	2	1	2	4	2	2	3	rs28931584		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42334882C>T	uc002igf.3	-	13	1611	c.1462G>A	c.(1462-1464)GTG>ATG	p.V488M	SLC4A1_uc002igg.3_Missense_Mutation_p.V488M	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	488	Membrane (anion exchange).				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		ACGCGGCCCACGATGTACTCT	0.597													7	46					0	0	1	0	0		T	42334882	T	T	42334882	3	4	151	1	0	0	0	0	1	0	0	0	14675	536	19	1	1305	1	SLC4A1	17	42334882	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	427433	42334882	38860328	3765	80930											
SLC25A39	51629	broad.mit.edu	37	chr17	42397576	42397576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acactgacctgcaaagagtcCcttggtgcccgactcggccc	8	7	10	16	2	0	2	0	1	0	1	2	3	1	2	4	2	2	1	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42397576C>T	uc002ign.2	-	11	1106	c.952G>A	c.(952-954)GGA>AGA	p.G318R	SLC25A39_uc002igm.2_Missense_Mutation_p.G310R|SLC25A39_uc002igo.2_Missense_Mutation_p.G310R|SLC25A39_uc010wiw.1_Missense_Mutation_p.G295R|SLC25A39_uc010czu.2_Missense_Mutation_p.G186R	NM_001143780	NP_001137252	Q9BZJ4	S2539_HUMAN	solute carrier family 25, member 39 isoform a	318	Solcar 3.|Helical; Name=6; (Potential).				heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane				upper_aerodigestive_tract(1)	1		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCAAAGAGTCCCTTGGTGCCC	0.667													8	42					0	0	1	0	0		T	42397576	T	T	42397576	3	4	151	1	0	0	0	0	1	0	0	0	14528	632	22	4	135	4	SLC25A39	17	42397576	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	62694	42397576	38797634	3766	80931											
ITGA2B	3674	broad.mit.edu	37	chr17	42457166	42457166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggggctcagcttgtccCggaagtctgcctcatcctag	7	10	11	13	1	3	0	2	0	1	0	5	1	5	1	3	3	2	2	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42457166C>T	uc002igt.1	-	18	1801	c.1769G>A	c.(1768-1770)CGG>CAG	p.R590Q	ITGA2B_uc002igu.1_Missense_Mutation_p.R71Q	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	590	Extracellular (Potential).				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	CAGCTTGTCCCGGAAGTCTGC	0.602													28	112					0	0	1	0	0		T	42457166	T	T	42457166	3	4	151	1	0	0	0	0	1	0	0	0	7892	652	23	1	1402	1	ITGA2B	17	42457166	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	59590	42457166	38738044	3767	80932											
GPATCH8	23131	broad.mit.edu	37	chr17	42476888	42476888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgccggccagaccttgagcGgctgcgggaatgctcactgc	6	6	15	14	4	1	2	1	1	0	1	1	3	1	3	3	3	4	2	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42476888G>A	uc002igw.1	-	8	2621	c.2557C>T	c.(2557-2559)CGC>TGC	p.R853C	GPATCH8_uc002igv.1_Missense_Mutation_p.R775C|GPATCH8_uc010wiz.1_Missense_Mutation_p.R775C	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	853	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GACCTTGAGCGGCTGCGGGAA	0.547													40	128					0	0	1	0	0		A	42476888	A	A	42476888	3	1	151	1	0	0	0	0	1	0	0	0	6609	1116	39	1	1955	1	GPATCH8	17	42476888	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	19722	42476888	38718322	3768	80933											
GPATCH8	23131	broad.mit.edu	37	chr17	42477017	42477017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccactactgggttggctccGatggctagaccggctgctcc	5	10	12	14	2	0	1	0	0	0	1	3	2	3	1	4	4	2	5	4	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42477017G>A	uc002igw.1	-	8	2492	c.2428C>T	c.(2428-2430)CGG>TGG	p.R810W	GPATCH8_uc002igv.1_Missense_Mutation_p.R732W|GPATCH8_uc010wiz.1_Missense_Mutation_p.R732W	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	810	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GGTTGGCTCCGATGGCTAGAC	0.552													24	75					0	0	1	0	0		A	42477017	A	A	42477017	3	1	151	1	0	0	0	0	1	0	0	0	6609	1057	37	1	2084	1	GPATCH8	17	42477017	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	129	42477017	38718193	3769	80934											
GPATCH8	23131	broad.mit.edu	37	chr17	42512431	42512431	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgaatagctttgtttaaatAccttgtacttttgtctcagc	10	18	6	7	0	1	1	1	1	1	0	2	1	1	1	1	0	4	3	1	0	6	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42512431A>G	uc002igw.1	-	5	412	c.348_splice	c.e5+1	p.K116_splice	GPATCH8_uc002igv.1_Splice_Site_p.K38_splice|GPATCH8_uc010wiz.1_Splice_Site_p.K38_splice	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8							intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		TTGTTTAAATACCTTGTACTT	0.388													3	72					0	0	1	0	0		G	42512431	G	G	42512431	5	3	151	1	0	0	0	0	0	0	1	0	6609	405	14	3	4174	3	GPATCH8	17	42512431	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	35414	42512431	38682779	3770	80935											
C17orf104	284071	broad.mit.edu	37	chr17	42745051	42745051	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaaatggattttgtgataActattcagctcagaagtatg	13	13	9	6	0	2	2	2	1	0	1	2	3	2	3	1	1	2	2	1	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42745051A>G	uc010czv.2	+	5	1772	c.1772A>G	c.(1771-1773)AAC>AGC	p.N591S	C17orf104_uc002igy.1_Missense_Mutation_p.N425S|C17orf104_uc002igz.3_Missense_Mutation_p.N425S|C17orf104_uc010wja.1_RNA|C17orf104_uc002iha.2_Missense_Mutation_p.N425S	NM_001145080	NP_001138552	A2RUB1	CQ104_HUMAN	hypothetical protein LOC284071	591										central_nervous_system(1)	1						TTTTGTGATAACTATTCAGCT	0.363													10	39					0	0	1	0	0		G	42745051	G	G	42745051	3	3	151	1	0	0	0	0	1	0	0	0	1854	43	2	3	1790	3	C17orf104	17	42745051	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	232620	42745051	38450159	3771	80936											
EFTUD2	9343	broad.mit.edu	37	chr17	42940176	42940176	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccagtaccttcacaggctgCccagcatgaatggtgccact	9	8	9	15	0	1	1	1	1	0	0	1	1	1	1	4	2	4	3	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:42940176C>T	uc002ihn.2	-	16	1773	c.1512G>A	c.(1510-1512)GGG>GGA	p.G504G	EFTUD2_uc010wje.1_Silent_p.G469G|EFTUD2_uc010wjf.1_Silent_p.G494G	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	504						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				TCACAGGCTGCCCAGCATGAA	0.572													12	61					0	0	1	0	0		T	42940176	T	T	42940176	2	4	151	1	0	0	0	0	0	0	0	1	4967	726	26	2		2	EFTUD2	17	42940176	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	195125	42940176	38255034	3772	80937											
HEXIM1	10614	broad.mit.edu	37	chr17	43227060	43227060	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcattggaaaccgtactAcaagctgacctgggaagaga	13	6	13	9	2	0	2	0	1	0	1	0	5	0	4	2	3	4	3	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:43227060A>G	uc002iig.2	+	1	2377	c.503A>G	c.(502-504)TAC>TGC	p.Y168C		NM_006460	NP_006451	O94992	HEXI1_HUMAN	hexamethylene bis-acetamide inducible 1	168	Basic region; mediates nuclear localization and interaction with 7SK snRNA and NR3C1.				negative regulation of cyclin-dependent protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding|snRNA binding			ovary(1)	1						AAACCGTACTACAAGCTGACC	0.567											OREG0024474	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	78					0	0	1	0	0		G	43227060	G	G	43227060	3	3	151	1	0	0	0	0	1	0	0	0	7092	391	14	3	505	3	HEXIM1	17	43227060	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	286884	43227060	37968150	3773	80938											
HEXIM2	124790	broad.mit.edu	37	chr17	43246699	43246699	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagagggcctcccgggtccgCgaagagatgttcgccaaagg	9	5	15	12	4	0	2	0	0	0	2	3	4	2	2	4	3	0	1	4	3	2	1	rs150581722		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:43246699C>T	uc002iih.1	+	4	623	c.384C>T	c.(382-384)CGC>CGT	p.R128R	HEXIM2_uc010daf.1_Silent_p.R150R|HEXIM2_uc002iii.1_Silent_p.R128R|HEXIM2_uc002iij.1_Silent_p.R128R|uc002iik.1_RNA	NM_144608	NP_653209	Q96MH2	HEXI2_HUMAN	hexamthylene bis-acetamide inducible 2	128					negative regulation of cyclin-dependent protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding|snRNA binding				0						CCCGGGTCCGCGAAGAGATGT	0.627													8	44					0	0	1	0	0		T	43246699	T	T	43246699	2	4	151	1	0	0	0	0	0	0	0	1	7093	755	27	1		1	HEXIM2	17	43246699	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	19639	43246699	37948511	3774	80939											
MAPT	4137	broad.mit.edu	37	chr17	44039745	44039745	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcgaagtgatggaagatcaCgctgggacgtacgggttggg	9	9	17	6	4	1	2	1	1	0	1	2	5	1	4	0	4	1	3	0	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:44039745C>T	uc002ijr.3	+	2	362	c.42C>T	c.(40-42)CAC>CAT	p.H14H	MAPT_uc010dau.2_Silent_p.H14H|MAPT_uc002ijs.3_Silent_p.H14H|MAPT_uc002ijx.3_Silent_p.H14H|MAPT_uc002ijt.3_Silent_p.H14H|MAPT_uc002iju.3_Silent_p.H14H|MAPT_uc002ijv.3_Silent_p.H14H	NM_016835	NP_058519	P10636	TAU_HUMAN	microtubule-associated protein tau isoform 1	14					cellular component disassembly involved in apoptosis|microtubule cytoskeleton organization|negative regulation of microtubule depolymerization|positive regulation of axon extension|positive regulation of microtubule polymerization|regulation of autophagy	axon|cytosol|growth cone|microtubule|microtubule associated complex|nuclear periphery|plasma membrane|tubulin complex	apolipoprotein E binding|enzyme binding|identical protein binding|lipoprotein particle binding|microtubule binding|protein binding|SH3 domain binding|structural constituent of cytoskeleton			pancreas(1)	1		Melanoma(429;0.216)				TGGAAGATCACGCTGGGACGT	0.562													3	35					0	0	1	0	0		T	44039745	T	T	44039745	2	4	151	1	0	0	0	0	0	0	0	1	9315	535	19	1		1	MAPT	17	44039745	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	793046	44039745	37155465	3775	80940											
WNT3	7473	broad.mit.edu	37	chr17	44845745	44845745	+	Missense_Mutation	SNP	A	G	G	1	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	ctggcagctgacgtagcagcAccagtggaagatgcagtggc	10	6	15	10	1	0	2	0	1	0	1	0	3	0	3	1	3	4	6	1	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:44845745A>G	uc002ikv.2	-	4	1128	c.1009T>C	c.(1009-1011)TGC>CGC	p.C337R		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	337					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			ACGTAGCAGCACCAGTGGAAG	0.617													14	66					0	0	1	0	0		G	44845745	G	G	44845745	3	3	151	1	0	0	0	0	1	0	0	0	17414	159	6	3	62	3	WNT3	17	44845745	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	806000	44845745	36349465	3776	80941											
CDC27	996	broad.mit.edu	37	chr17	45199935	45199935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccaagagaaattcatcaggGcgaggtgcgtttgacctaac	12	8	11	10	2	2	2	2	1	0	1	2	4	2	2	2	2	2	1	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:45199935G>A	uc002ild.3	-	18	2394	c.2267C>T	c.(2266-2268)GCC>GTC	p.A756V	CDC27_uc002ile.3_Missense_Mutation_p.A762V|CDC27_uc002ilf.3_Missense_Mutation_p.A755V|CDC27_uc010wkp.1_Missense_Mutation_p.A695V|CDC27_uc010wkq.1_RNA	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	756	TPR 9.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						ATTCATCAGGGCGAGGTGCGT	0.363													41	172					0	0	1	0	0		A	45199935	A	A	45199935	3	1	151	1	0	0	0	0	1	0	0	0	3069	1203	42	2	215	2	CDC27	17	45199935	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	354190	45199935	35995275	3777	80942											
C17orf57	124989	broad.mit.edu	37	chr17	45425174	45425174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttttgttatgtgtgtgcagCacttcataaagcctgtaaaa	11	15	9	6	0	1	0	1	0	0	0	1	0	1	0	1	0	3	5	1	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:45425174C>T	uc002iln.2	+	9	929	c.518C>T	c.(517-519)GCA>GTA	p.A173V	C17orf57_uc002ilm.2_Intron|C17orf57_uc002ill.1_Intron|C17orf57_uc010daz.1_Intron	NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	173							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						GTGTGTGCAGCACTTCATAAA	0.308													20	98					0	0	1	0	0		T	45425174	T	T	45425174	3	4	151	1	0	0	0	0	1	0	0	0	1868	724	25	2	540	2	C17orf57	17	45425174	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	225239	45425174	35770036	3778	80943											
OSBPL7	114881	broad.mit.edu	37	chr17	45897450	45897450	+	Missense_Mutation	SNP	A	G	G	1	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	aggctcctccaccacctcccAcagctcagaggcctgcagtc	8	6	8	19	0	1	1	1	0	0	1	5	1	4	1	6	2	2	3	6	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:45897450A>G	uc002ilx.1	-	3	291	c.88T>C	c.(88-90)TGG>CGG	p.W30R		NM_145798	NP_665741	Q9BZF2	OSBL7_HUMAN	oxysterol-binding protein-like protein 7	30					lipid transport		lipid binding				0						ACCACCTCCCACAGCTCAGAG	0.642													3	26					0	0	1	0	0		G	45897450	G	G	45897450	3	3	151	1	0	0	0	0	1	0	0	0	11301	159	6	3	2524	3	OSBPL7	17	45897450	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	472276	45897450	35297760	3779	80944											
SCRN2	90507	broad.mit.edu	37	chr17	45917722	45917722	+	Missense_Mutation	SNP	A	G	G	1	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	gcgtcttcgacacctgttccActtcaatgtaggtgcactgg	7	12	10	12	2	2	0	1	0	1	0	4	1	3	0	2	2	1	3	2	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:45917722A>G	uc002imd.2	-	3	317	c.191T>C	c.(190-192)GTG>GCG	p.V64A	SCRN2_uc002imc.2_Missense_Mutation_p.V72A|SCRN2_uc002imf.2_Missense_Mutation_p.V64A|SCRN2_uc002ime.2_RNA	NM_138355	NP_612364	Q96FV2	SCRN2_HUMAN	secernin 2 isoform 1	64					proteolysis		dipeptidase activity			ovary(1)	1						CACCTGTTCCACTTCAATGTA	0.517													7	41					0	0	1	0	0		G	45917722	G	G	45917722	3	3	151	1	0	0	0	0	1	0	0	0	13964	159	6	3	1128	3	SCRN2	17	45917722	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20272	45917722	35277488	3780	80945											
CDK5RAP3	80279	broad.mit.edu	37	chr17	46058547	46058547	+	Silent	SNP	T	C	C	0	1	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	aggtatgtggaccgagtgacTgaattcctccagcaaaagct	12	9	11	9	1	0	2	0	2	0	0	2	4	2	3	3	2	2	3	3	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:46058547T>C	uc002imr.2	+	13	1386	c.1302T>C	c.(1300-1302)ACT>ACC	p.T434T	CDK5RAP3_uc010wlc.1_Silent_p.T454T|CDK5RAP3_uc002imq.1_Silent_p.T209T|CDK5RAP3_uc002imu.2_Silent_p.T278T|CDK5RAP3_uc002ims.2_Silent_p.T347T|CDK5RAP3_uc002imv.2_Silent_p.T278T|CDK5RAP3_uc002imw.2_Silent_p.T276T|CDK5RAP3_uc002imx.2_Silent_p.T209T	NM_176096	NP_788276	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	434					brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding				0						ACCGAGTGACTGAATTCCTCC	0.577													22	68					0	0	1	0	0		C	46058547	C	C	46058547	2	2	151	1	0	0	0	0	0	0	0	1	3150	1567	55	3		3	CDK5RAP3	17	46058547	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	140825	46058547	35136663	3781	80946											
HOXB2	3212	broad.mit.edu	37	chr17	46621965	46621965	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattggctgggtttcttggcGgatttcttctctttcatcca	4	18	10	9	1	4	0	1	0	3	0	6	2	5	1	1	4	0	2	1	4	0	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:46621965G>A	uc002inm.2	-	1	429	c.309C>T	c.(307-309)TCC>TCT	p.S103S		NM_002145	NP_002136	P14652	HXB2_HUMAN	homeobox B2	103					blood circulation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GTTTCTTGGCGGATTTCTTCT	0.483													3	6					0	0	1	0	0		A	46621965	A	A	46621965	2	1	151	1	0	0	0	0	0	0	0	1	7317	1103	39	1		1	HOXB2	17	46621965	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	563418	46621965	34573245	3782	80947											
SNF8	11267	broad.mit.edu	37	chr17	47022068	47022068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagtttcttcttggcgatgGcgccagctcccaccccgcgg	5	9	11	16	4	2	0	0	0	2	0	3	1	3	0	4	3	1	2	4	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:47022068G>A	uc002ioj.2	-	1	87	c.29C>T	c.(28-30)GCC>GTC	p.A10V	SNF8_uc002iok.2_Missense_Mutation_p.A10V	NM_007241	NP_009172	Q96H20	SNF8_HUMAN	EAP30 subunit of ELL complex	10					cellular membrane organization|endosome transport|protein transport|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytosol|late endosome membrane|transcription factor complex	transcription factor binding				0						CTTGGCGATGGCGCCAGCTCC	0.547													27	117					0	0	1	0	0		A	47022068	A	A	47022068	3	1	151	1	0	0	0	0	1	0	0	0	14871	1203	42	2	779	2	SNF8	17	47022068	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	400103	47022068	34173142	3783	80948											
ZNF652	22834	broad.mit.edu	37	chr17	47394489	47394489	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gagtaggggaagtggtagctGcggcaacagaggcagctctc	10	6	17	8	1	1	1	0	0	1	1	2	3	1	2	0	5	4	6	0	5	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:47394489G>A	uc002iov.3	-	2	1063	c.599C>T	c.(598-600)GCA>GTA	p.A200V	ZNF652_uc002iow.2_Missense_Mutation_p.A200V|ZNF652_uc002iou.3_Intron	NM_001145365	NP_001138837	Q9Y2D9	ZN652_HUMAN	zinc finger protein 652	200					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)			AGTGGTAGCTGCGGCAACAGA	0.493													13	57					0	0	1	0	0		A	47394489	A	A	47394489	3	1	151	1	0	0	0	0	1	0	0	0	18090	1319	46	2	1241	2	ZNF652	17	47394489	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	372421	47394489	33800721	3784	80949											
SLC35B1	10237	broad.mit.edu	37	chr17	47781497	47781497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtcgaccaaaggttgatgTtcagcatcatgtggttggag	10	12	13	6	1	2	1	2	1	0	0	3	3	2	2	1	3	1	4	1	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:47781497T>C	uc002iph.1	-	6	707	c.620A>G	c.(619-621)AAC>AGC	p.N207S	SLC35B1_uc002ipi.1_Missense_Mutation_p.N140S|SLC35B1_uc002ipj.1_Missense_Mutation_p.N83S|SLC35B1_uc010wly.1_Missense_Mutation_p.N207S	NM_005827	NP_005818	P78383	S35B1_HUMAN	solute carrier family 35, member B1	207						endoplasmic reticulum membrane|integral to membrane|microsome	UDP-galactose transmembrane transporter activity				0						AAGGTTGATGTTCAGCATCAT	0.527													23	107					0	0	1	0	0		C	47781497	C	C	47781497	3	2	151	1	0	0	0	0	1	0	0	0	14600	1725	60	3	364	3	SLC35B1	17	47781497	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	387008	47781497	33413713	3785	80950											
ITGA3	3675	broad.mit.edu	37	chr17	48158769	48158769	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatggagaacaagaccacGtgggtgagtgcgcatgttca	13	7	13	8	2	1	3	1	1	0	2	1	4	1	3	1	2	3	2	1	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:48158769G>A	uc010dbl.2	+	23	3380	c.2916G>A	c.(2914-2916)ACG>ACA	p.T972T	ITGA3_uc010dbm.2_Silent_p.T972T	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	972	Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						ACAAGACCACGTGGGTGAGTG	0.517													10	11					0	0	1	0	0		A	48158769	A	A	48158769	2	1	151	1	0	0	0	0	0	0	0	1	7893	1132	40	1		1	ITGA3	17	48158769	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	377272	48158769	33036441	3786	80951											
LRRC59	55379	broad.mit.edu	37	chr17	48462559	48462559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcatcatactcctttctcCggcgctccttctcttccgcc	3	13	7	18	3	3	0	1	0	2	0	8	0	6	0	5	2	1	2	5	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:48462559C>T	uc002iqt.2	-	6	750	c.596G>A	c.(595-597)CGG>CAG	p.R199Q		NM_018509	NP_060979	Q96AG4	LRC59_HUMAN	leucine rich repeat containing 59	199	Potential.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial nucleoid	protein binding			central_nervous_system(1)	1	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			CTCCTTTCTCCGGCGCTCCTT	0.552													61	183					0	0	1	0	0		T	48462559	T	T	48462559	3	4	151	1	0	0	0	0	1	0	0	0	9033	652	23	1	335	1	LRRC59	17	48462559	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	303790	48462559	32732651	3787	80952											
RSAD1	55316	broad.mit.edu	37	chr17	48559747	48559747	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagctcgcagctgagatgtAccagaggggccgggctgtcc	7	6	17	11	2	0	2	0	1	0	2	2	4	1	3	3	4	3	5	3	4	1	1	rs140459309	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:48559747A>G	uc002iqw.1	+	4	826	c.770A>G	c.(769-771)TAC>TGC	p.Y257C	RSAD1_uc010wmq.1_RNA	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	257					porphyrin biosynthetic process	mitochondrion	4 iron, 4 sulfur cluster binding|coproporphyrinogen oxidase activity|metal ion binding				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			GCTGAGATGTACCAGAGGGGC	0.652											OREG0024567	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	58					0	0	1	0	0		G	48559747	G	G	48559747	3	3	151	1	0	0	0	0	1	0	0	0	13719	391	14	3	784	3	RSAD1	17	48559747	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	97188	48559747	32635463	3788	80953											
ABCC3	8714	broad.mit.edu	37	chr17	48746229	48746229	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaggctatgccatcaccaTacacagtggcaccttcacct	10	9	6	16	0	3	0	3	0	0	0	3	0	3	0	4	2	2	2	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:48746229T>C	uc002isl.2	+	15	1966	c.1886T>C	c.(1885-1887)ATA>ACA	p.I629T		NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	629	ABC transporter 1.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GCCATCACCATACACAGTGGC	0.557													6	27					0	0	1	0	0		C	48746229	C	C	48746229	3	2	151	1	0	0	0	0	1	0	0	0	54	1406	49	3	2028	3	ABCC3	17	48746229	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	186482	48746229	32448981	3789	80954											
ABCC3	8714	broad.mit.edu	37	chr17	48765057	48765057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcactgtcctgaccatcGcacaccggcttaacactatc	9	9	6	17	2	0	1	0	1	0	0	3	1	1	1	4	1	2	3	4	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:48765057G>A	uc002isl.2	+	30	4521	c.4441G>A	c.(4441-4443)GCA>ACA	p.A1481T	ABCC3_uc002isn.2_Missense_Mutation_p.A235T	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1481	Cytoplasmic (By similarity).|ABC transporter 2.				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	CCTGACCATCGCACACCGGCT	0.577													32	102					0	0	1	0	0		A	48765057	A	A	48765057	3	1	151	1	0	0	0	0	1	0	0	0	54	1087	38	1	4643	1	ABCC3	17	48765057	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	18828	48765057	32430153	3790	80955											
WFIKKN2	124857	broad.mit.edu	37	chr17	48917518	48917518	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctacacctgcacggcccGgaacgtggctggggtcctga	7	7	14	13	3	1	1	0	1	1	0	2	3	2	2	3	5	3	2	3	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:48917518G>A	uc002isv.3	+	2	1563	c.869G>A	c.(868-870)CGG>CAG	p.R290Q	WFIKKN2_uc010dbu.2_Missense_Mutation_p.R197Q	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	290	Ig-like C2-type.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			TGCACGGCCCGGAACGTGGCT	0.622													11	38					0	0	1	0	0		A	48917518	A	A	48917518	3	1	151	1	0	0	0	0	1	0	0	0	17385	1116	39	1	875	1	WFIKKN2	17	48917518	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	152461	48917518	32277692	3791	80956											
WFIKKN2	124857	broad.mit.edu	37	chr17	48917660	48917660	+	Silent	SNP	T	C	C	0	1	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	cccccagacagtgaggactgTggcgaagagcagacccgctg	10	4	14	13	2	0	4	0	1	0	3	0	6	0	5	3	2	1	2	3	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:48917660T>C	uc002isv.3	+	2	1705	c.1011T>C	c.(1009-1011)TGT>TGC	p.C337C	WFIKKN2_uc010dbu.2_Silent_p.C244C	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	337	BPTI/Kunitz inhibitor 1.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			GTGAGGACTGTGGCGAAGAGC	0.627													4	75					0	0	1	0	0		C	48917660	C	C	48917660	2	2	151	1	0	0	0	0	0	0	0	1	17385	1702	59	3		3	WFIKKN2	17	48917660	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	142	48917660	32277550	3792	80957											
SPAG9	9043	broad.mit.edu	37	chr17	49074005	49074005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaacatgtgcttttacctgaCgatactgctctctcttttgt	7	17	7	10	1	2	1	0	1	2	0	3	3	2	1	1	0	5	2	1	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:49074005C>T	uc002itc.2	-	16	2098	c.1889G>A	c.(1888-1890)CGT>CAT	p.R630H	SPAG9_uc002itb.2_Missense_Mutation_p.R616H|SPAG9_uc002itd.2_Missense_Mutation_p.R620H|SPAG9_uc002itf.2_Missense_Mutation_p.R451H|SPAG9_uc002ita.2_Missense_Mutation_p.R473H|SPAG9_uc002ite.2_Missense_Mutation_p.R460H	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	630					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			TTTTACCTGACGATACTGCTC	0.403													15	77					0	0	1	0	0		T	49074005	T	T	49074005	3	4	151	1	0	0	0	0	1	0	0	0	15010	536	19	1	2136	1	SPAG9	17	49074005	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	156345	49074005	32121205	3793	80958											
NME1-NME2	654364	broad.mit.edu	37	chr17	49245649	49245649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctacattgacctgaaagaccGaccattcttccctgggctgg	9	10	9	13	1	1	3	0	2	1	1	2	4	2	3	4	2	1	1	4	2	2	4	rs138826459		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:49245649G>A	uc002itk.2	+	7	846	c.593G>A	c.(592-594)CGA>CAA	p.R198Q	NME1-NME2_uc002itj.2_Missense_Mutation_p.R173Q|NME2_uc002itl.2_Missense_Mutation_p.R58Q|NME2_uc002itm.2_Missense_Mutation_p.R58Q|NME2_uc002itn.2_Missense_Mutation_p.R58Q|NME2_uc002ito.2_Missense_Mutation_p.R58Q	NM_002512	NP_002503	P22392	NDKB_HUMAN	nucleoside diphosphate kinase B	58	Interaction with AKAP13.				cell adhesion|CTP biosynthetic process|GTP biosynthetic process|negative regulation of apoptosis|nucleobase, nucleoside and nucleotide interconversion|positive regulation of epithelial cell proliferation|positive regulation of keratinocyte differentiation|UTP biosynthetic process	cytosol|lamellipodium|nucleus|ruffle	ATP binding|DNA binding|metal ion binding|nucleoside diphosphate kinase activity|protein binding|protein histidine kinase activity|sequence-specific DNA binding transcription factor activity				0			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)			CTGAAAGACCGACCATTCTTC	0.527													30	144					0	0	1	0	0		A	49245649	A	A	49245649	3	1	151	1	0	0	0	0	1	0	0	0	10509	1058	37	1	536	1	NME1-NME2	17	49245649	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	171644	49245649	31949561	3794	80959											
MBTD1	54799	broad.mit.edu	37	chr17	49284306	49284306	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaggtaggctgcagtctgTattgggaacttctactctca	8	13	12	8	0	3	0	1	0	3	0	4	1	3	1	0	4	3	5	0	4	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:49284306T>C	uc002itr.3	-	7	891	c.547A>G	c.(547-549)ACA>GCA	p.T183A	MBTD1_uc002itp.3_Missense_Mutation_p.T19A|MBTD1_uc002itq.3_Missense_Mutation_p.T183A	NM_017643	NP_060113	Q05BQ5	MBTD1_HUMAN	mbt domain containing 1	183	MBT 1.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)			CTGCAGTCTGTATTGGGAACT	0.378													21	86					0	0	1	0	0		C	49284306	C	C	49284306	3	2	151	1	0	0	0	0	1	0	0	0	9378	1638	57	3	1383	3	MBTD1	17	49284306	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	38657	49284306	31910904	3795	80960											
CA10	56934	broad.mit.edu	37	chr17	50008372	50008372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgccccccgtgttgatgCgaagaggtgtcagaaagggg	8	8	15	10	2	1	3	1	1	0	2	2	4	2	3	4	3	2	1	4	3	2	1	rs148839711	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:50008372C>T	uc002itw.3	-	3	1243	c.257G>A	c.(256-258)CGC>CAC	p.R86H	CA10_uc002itv.3_Missense_Mutation_p.R92H|CA10_uc002itx.3_Missense_Mutation_p.R86H|CA10_uc002ity.3_Missense_Mutation_p.R86H|CA10_uc002itz.2_Missense_Mutation_p.R86H	NM_020178	NP_064563	Q9NS85	CAH10_HUMAN	carbonic anhydrase X	86					brain development					ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(22;4.74e-06)			CGTGTTGATGCGAAGAGGTGT	0.498													56	248					0	0	1	0	0		T	50008372	T	T	50008372	3	4	151	1	0	0	0	0	1	0	0	0	2514	768	27	1	757	1	CA10	17	50008372	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	724066	50008372	31186838	3796	80961											
KIF2B	84643	broad.mit.edu	37	chr17	51900667	51900667	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctgaacaccccatgccGcccccgcccttatccccctt	5	9	5	22	2	1	1	0	1	1	0	2	1	2	1	8	0	3	1	8	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:51900667G>A	uc002iua.2	+	1	429	c.273G>A	c.(271-273)CCG>CCA	p.P91P		NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	91					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACCCCATGCCGCCCCCGCCCT	0.567													38	150					0	0	1	0	0		A	51900667	A	A	51900667	2	1	151	1	0	0	0	0	0	0	0	1	8314	1074	38	1		1	KIF2B	17	51900667	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1892295	51900667	29294543	3797	80962											
STXBP4	252983	broad.mit.edu	37	chr17	53078195	53078195	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggatacaacaaaacagtAcagattccaattacttcaga	18	9	5	9	0	1	2	1	0	0	2	2	3	2	3	1	1	5	1	1	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:53078195A>G	uc002iuf.1	+	7	732	c.525A>G	c.(523-525)GTA>GTG	p.V175V	STXBP4_uc010dcc.1_Silent_p.V100V|STXBP4_uc010dcd.1_Silent_p.V175V	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	175						cytoplasm	calcium ion binding			ovary(1)	1						ACAAAACAGTACAGATTCCAA	0.308													25	114					0	0	1	0	0		G	53078195	G	G	53078195	2	3	151	1	0	0	0	0	0	0	0	1	15380	378	14	3		3	STXBP4	17	53078195	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1177528	53078195	28117015	3798	80963											
DGKE	8526	broad.mit.edu	37	chr17	54912353	54912353	+	Missense_Mutation	SNP	A	G	G	1	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	gcacgggtggcgcgacacggAcctgttcagccagcccacct	7	5	13	16	4	1	0	1	0	0	0	1	2	1	1	4	3	2	2	4	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:54912353A>G	uc002iur.2	+	2	377	c.197A>G	c.(196-198)GAC>GGC	p.D66G	DGKE_uc002ius.1_Missense_Mutation_p.D66G|C17orf67_uc002iuq.2_5'Flank	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	66	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					CGCGACACGGACCTGTTCAGC	0.677													15	59					0	0	1	0	0		G	54912353	G	G	54912353	3	3	151	1	0	0	0	0	1	0	0	0	4474	275	10	3	199	3	DGKE	17	54912353	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1834158	54912353	26282857	3799	80964											
TRIM25	7706	broad.mit.edu	37	chr17	54981735	54981735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgtcaaacttgctgttgaCcctcttctcctcttccttta	5	17	6	13	0	4	1	1	1	3	0	6	1	5	1	3	1	2	2	3	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:54981735C>T	uc002iut.2	-	3	868	c.808G>A	c.(808-810)GTC>ATC	p.V270I	TRIM25_uc010dcj.2_Missense_Mutation_p.V62I	NM_005082	NP_005073	Q14258	TRI25_HUMAN	tripartite motif-containing 25	270	Interaction with influenza A virus NS1.|Potential.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|response to virus	cell junction|cytosol|nucleus	sequence-specific DNA binding transcription factor activity|ubiquitin-protein ligase activity|zinc ion binding			lung(1)|breast(1)|skin(1)	3	Breast(9;6.15e-08)					TTGCTGTTGACCCTCTTCTCC	0.473													73	265					0	0	1	0	0		T	54981735	T	T	54981735	3	4	151	1	0	0	0	0	1	0	0	0	16525	507	18	4	1112	4	TRIM25	17	54981735	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	69382	54981735	26213475	3800	80965											
VEZF1	7716	broad.mit.edu	37	chr17	56060228	56060228	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgtgtcgattgagatggTacacatctcggaaggccttc	8	12	12	9	2	1	1	0	1	1	1	4	4	1	2	1	3	1	2	1	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:56060228T>C	uc002ivf.1	-	2	703	c.560A>G	c.(559-561)TAC>TGC	p.Y187C	VEZF1_uc010dcn.1_Missense_Mutation_p.Y31C	NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	187	C2H2-type 2.				cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						ATTGAGATGGTACACATCTCG	0.483													4	92					0	0	1	0	0		C	56060228	C	C	56060228	3	2	151	1	0	0	0	0	1	0	0	0	17181	1638	57	3	1025	3	VEZF1	17	56060228	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1078493	56060228	25134982	3801	80966											
SFRS1	6426	broad.mit.edu	37	chr17	56082772	56082772	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtcaccaatcatcttatgTacgagagcgagatctgctat	11	12	9	9	2	4	2	2	0	2	2	4	4	4	2	1	0	3	2	1	0	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:56082772T>C	uc002ivi.2	-	4	951	c.742A>G	c.(742-744)ACA>GCA	p.T248A	SFRS1_uc002ivj.2_3'UTR	NM_006924	NP_008855	Q07955	SRSF1_HUMAN	splicing factor, arginine/serine-rich 1 isoform	248				Missing: In RS-C; loss of ability to activate splicing but retains splice site switching.|Missing: In MR-A; loss of ability to activate splicing.|Missing: In MR-B; strongly inhibits splicing.|Missing: In RS-B; retains both splice activation and splice site switching activity.	mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA 5'-splice site recognition|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytoplasm|nuclear speck	nucleotide binding|RNA binding				0		Colorectal(1115;0.0691)		LUAD - Lung adenocarcinoma(1115;0.247)		TCATCTTATGTACGAGAGCGA	0.418													7	271					0	0	1	0	0		C	56082772	C	C	56082772	3	2	151	1	0	0	0	0	1	0	0	0	14190	1638	57	3	8	3	SFRS1	17	56082772	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22544	56082772	25112438	3802	80967											
MKS1	54903	broad.mit.edu	37	chr17	56291683	56291683	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggggtgttaatgacgtggTtgttcctgacaaactcttct	8	14	12	7	1	2	2	0	2	2	0	3	3	3	2	1	3	1	3	1	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:56291683T>C	uc002ivr.1	-	6	656	c.581A>G	c.(580-582)AAC>AGC	p.N194S	MKS1_uc010wnq.1_5'UTR|MKS1_uc002ivs.1_Missense_Mutation_p.N194S	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	194					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						AATGACGTGGTTGTTCCTGAC	0.547													13	89					0	0	1	0	0		C	56291683	C	C	56291683	3	2	151	1	0	0	0	0	1	0	0	0	9627	1725	60	3	1150	3	MKS1	17	56291683	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	208911	56291683	24903527	3803	80968											
BZRAP1	9256	broad.mit.edu	37	chr17	56385040	56385040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggattgggcgacattgacaCggggtcatagtcaaacagag	13	7	14	7	2	2	2	2	1	0	1	2	4	2	3	0	4	1	0	0	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:56385040C>T	uc002ivx.3	-	24	5786	c.4915G>A	c.(4915-4917)GTG>ATG	p.V1639M	BZRAP1_uc002ivv.2_5'Flank|BZRAP1_uc002ivw.2_5'Flank|BZRAP1_uc010dcs.2_Missense_Mutation_p.V1579M|BZRAP1_uc010wnt.1_Missense_Mutation_p.V1639M	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1639	SH3 2.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GACATTGACACGGGGTCATAG	0.552													13	40					0	0	1	0	0		T	56385040	T	T	56385040	3	4	151	1	0	0	0	0	1	0	0	0	1580	536	19	1	690	1	BZRAP1	17	56385040	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	93357	56385040	24810170	3804	80969											
TEX14	56155	broad.mit.edu	37	chr17	56676460	56676460	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaatatctgctcgatattcCtcagcctatcatcattctcg	9	15	4	13	2	5	0	3	0	2	0	8	1	6	0	2	0	2	1	2	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:56676460C>A	uc010dcz.1	-	14	2382	c.2264G>T	c.(2263-2265)AGG>ATG	p.R755M	TEX14_uc002iwr.1_Missense_Mutation_p.R749M|TEX14_uc002iws.1_Missense_Mutation_p.R749M|TEX14_uc010dda.1_Missense_Mutation_p.R529M	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	755	Potential.					cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CTCGATATTCCTCAGCCTATC	0.418													74	271					3.58576e-35	3.76456e-35	1	1	0		A	56676460	A	A	56676460	3	1	151	1	0	0	0	0	1	0	0	0	15803	681	24	5	2309	5	TEX14	17	56676460	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	291420	56676460	24518750	3805	80970											
PPM1E	22843	broad.mit.edu	37	chr17	57057738	57057738	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagtgctcagcaccagcCgacctaggctatgatgggcg	9	6	12	14	2	1	1	1	1	0	0	1	2	1	1	4	2	3	3	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:57057738C>A	uc002iwx.2	+	7	1741	c.1614C>A	c.(1612-1614)GCC>GCA	p.A538A	PPM1E_uc010ddd.2_Silent_p.A301A	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	547					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			CAGCACCAGCCGACCTAGGCT	0.532													24	65					2.98393e-07	3.04732e-07	1	1	0		A	57057738	A	A	57057738	2	1	151	1	0	0	0	0	0	0	0	1	12360	639	23	5		5	PPM1E	17	57057738	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	381278	57057738	24137472	3806	80971											
PPM1E	22843	broad.mit.edu	37	chr17	57058186	57058186	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggtttaatccaaagtttTattcatttctctctgctcaa	10	18	4	9	0	5	0	3	0	2	0	7	0	6	0	1	1	1	3	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:57058186T>C	uc002iwx.2	+	7	2189	c.2062T>C	c.(2062-2064)TAT>CAT	p.Y688H	PPM1E_uc010ddd.2_Missense_Mutation_p.Y451H	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	697					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			TCCAAAGTTTTATTCATTTCT	0.428													5	167					0	0	1	0	0		C	57058186	C	C	57058186	3	2	151	1	0	0	0	0	1	0	0	0	12360	1754	61	3	2088	3	PPM1E	17	57058186	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	448	57058186	24137024	3807	80972											
CLTC	1213	broad.mit.edu	37	chr17	57759679	57759679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcagatggcccgtaagaagGctcgagagtcctatgtggag	10	8	15	8	2	0	3	0	0	0	3	2	5	1	4	2	3	1	3	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:57759679G>A	uc002ixq.1	+	22	3933	c.3490G>A	c.(3490-3492)GCT>ACT	p.A1164T	CLTC_uc002ixp.2_Missense_Mutation_p.A1164T|CLTC_uc002ixr.1_Missense_Mutation_p.A1168T	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1164	Heavy chain arm.|Proximal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CCGTAAGAAGGCTCGAGAGTC	0.393			T	ALK|TFE3	ALCL|renal 								29	125					0	0	1	0	0		A	57759679	A	A	57759679	3	1	151	1	0	0	0	0	1	0	0	0	3569	1203	42	2	3576	2	CLTC	17	57759679	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	701493	57759679	23435531	3808	80973											
PTRH2	51651	broad.mit.edu	37	chr17	57775295	57775295	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaacagccaagccgagtgtActgggatgagccaaatattc	13	7	10	11	1	0	1	0	1	0	0	1	3	0	2	4	1	5	1	4	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:57775295A>G	uc002ixt.2	-	2	170	c.45T>C	c.(43-45)AGT>AGC	p.S15S	PTRH2_uc002ixs.2_RNA	NM_016077	NP_057161	Q9Y3E5	PTH2_HUMAN	Bcl-2 inhibitor of transcription precursor	15					apoptosis|translation	mitochondrion	aminoacyl-tRNA hydrolase activity				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					AGCCGAGTGTACTGGGATGAG	0.483													14	41					0	0	1	0	0		G	57775295	G	G	57775295	2	3	151	1	0	0	0	0	0	0	0	1	12842	388	14	3		3	PTRH2	17	57775295	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	15616	57775295	23419915	3809	80974											
HEATR6	63897	broad.mit.edu	37	chr17	58137347	58137347	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgcaagcgatcattacGgagaagggggtaaaagccct	13	7	13	8	2	1	1	1	0	0	1	1	3	1	1	1	3	5	3	1	3	5	2	rs61752323		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:58137347G>A	uc002iyk.1	-	10	1544	c.1527C>T	c.(1525-1527)TCC>TCT	p.S509S	HEATR6_uc010ddk.1_Silent_p.S48S|HEATR6_uc010wos.1_Silent_p.S341S	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	509							binding			ovary(1)|skin(1)	2	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)			CGATCATTACGGAGAAGGGGG	0.453													56	278					0	0	1	0	0		A	58137347	A	A	58137347	2	1	151	1	0	0	0	0	0	0	0	1	7049	1103	39	1		1	HEATR6	17	58137347	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	362052	58137347	23057863	3810	80975											
CA4	762	broad.mit.edu	37	chr17	58234823	58234823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaacaaggccagcatttctGgaggaggactgcctgcccca	11	6	12	12	0	1	1	0	0	1	1	1	4	1	4	4	4	4	1	4	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:58234823G>A	uc002iym.3	+	4	398	c.304G>A	c.(304-306)GGA>AGA	p.G102R	CA4_uc010wou.1_Intron	NM_000717	NP_000708	P22748	CAH4_HUMAN	carbonic anhydrase IV precursor	102					bicarbonate transport|one-carbon metabolic process	anchored to external side of plasma membrane|apical plasma membrane|brush border membrane|ER-Golgi intermediate compartment|membrane fraction|perinuclear region of cytoplasm|rough endoplasmic reticulum|secretory granule membrane|trans-Golgi network|transport vesicle membrane	carbonate dehydratase activity|protein binding|zinc ion binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.83e-12)|all cancers(12;6.83e-11)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Topiramate(DB00273)|Trichlormethiazide(DB01021)	CAGCATTTCTGGAGGAGGACT	0.582													27	101					0	0	1	0	0		A	58234823	A	A	58234823	3	1	151	1	0	0	0	0	1	0	0	0	2521	1349	47	4	318	4	CA4	17	58234823	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	97476	58234823	22960387	3811	80976											
USP32	84669	broad.mit.edu	37	chr17	58286039	58286039	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatttctaagtgcatataacTgtccattggtagtggcaaag	12	14	9	6	0	1	0	0	0	1	0	2	0	2	0	1	2	2	3	1	2	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:58286039T>C	uc002iyo.1	-	23	3035	c.2749A>G	c.(2749-2751)AGT>GGT	p.S917G	USP32_uc002iyn.1_Missense_Mutation_p.S587G	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	917					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TGCATATAACTGTCCATTGGT	0.348													20	62					0	0	1	0	0		C	58286039	C	C	58286039	3	2	151	1	0	0	0	0	1	0	0	0	17089	1580	55	3	2113	3	USP32	17	58286039	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	51216	58286039	22909171	3812	80977											
USP32	84669	broad.mit.edu	37	chr17	58297062	58297062	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagatgttagactgctgtgtCcgagtggcaggctgctgtct	6	12	14	9	1	1	2	0	0	1	2	2	3	2	2	1	2	2	5	1	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:58297062C>T	uc002iyo.1	-	16	2122	c.1836G>A	c.(1834-1836)CGG>CGA	p.R612R	USP32_uc002iyn.1_Silent_p.R282R	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	612					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			ACTGCTGTGTCCGAGTGGCAG	0.443													22	105					0	0	1	0	0		T	58297062	T	T	58297062	2	4	151	1	0	0	0	0	0	0	0	1	17089	842	30	4		4	USP32	17	58297062	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	11023	58297062	22898148	3813	80978											
PPM1D	8493	broad.mit.edu	37	chr17	58734051	58734051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccgagcagataacactagtgCcatagtaatctgcatctctc	12	10	7	12	1	2	1	0	0	2	1	4	2	2	1	2	0	4	3	2	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:58734051C>T	uc002iyt.1	+	5	1331	c.1109C>T	c.(1108-1110)GCC>GTC	p.A370V	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	370	PP2C-like.				negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			AACACTAGTGCCATAGTAATC	0.463													26	102					0	0	1	0	0		T	58734051	T	T	58734051	3	4	151	1	0	0	0	0	1	0	0	0	12359	739	26	2	1127	2	PPM1D	17	58734051	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	436989	58734051	22461159	3814	80979											
PPM1D	8493	broad.mit.edu	37	chr17	58740414	58740414	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaccatatacctgccctggTtcgtagcaatgccttctcag	8	11	9	13	1	1	0	1	0	1	0	3	1	1	1	4	2	4	3	4	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:58740414T>C	uc002iyt.1	+	6	1541	c.1319T>C	c.(1318-1320)GTT>GCT	p.V440A	PPM1D_uc010ddm.1_RNA	NM_003620	NP_003611	O15297	PPM1D_HUMAN	protein phosphatase 1D	440					negative regulation of cell proliferation|protein dephosphorylation|response to radiation	nucleus|protein serine/threonine phosphatase complex	metal ion binding|protein binding|protein serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;6.75e-12)|all cancers(12;1.96e-10)			CCTGCCCTGGTTCGTAGCAAT	0.413											OREG0031485	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	7	206					0	0	1	0	0		C	58740414	C	C	58740414	3	2	151	1	0	0	0	0	1	0	0	0	12359	1725	60	3	1341	3	PPM1D	17	58740414	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6363	58740414	22454796	3815	80980											
TBX2	6909	broad.mit.edu	37	chr17	59479272	59479272	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagcctgtggccttccacaAgctgaagctgaccaacaaca	13	7	8	13	0	0	2	0	2	0	0	1	2	1	2	4	1	5	2	4	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:59479272A>G	uc010wox.1	+	2	904	c.623A>G	c.(622-624)AAG>AGG	p.K208R	TBX2_uc002ize.2_Missense_Mutation_p.K198R|TBX2_uc002izg.2_Missense_Mutation_p.K54R	NM_005994	NP_005985	Q13207	TBX2_HUMAN	T-box 2	208	T-box.				cell aging|positive regulation of cell proliferation		sequence-specific DNA binding				0						GCCTTCCACAAGCTGAAGCTG	0.612													13	44					0	0	1	0	0		G	59479272	G	G	59479272	3	3	151	1	0	0	0	0	1	0	0	0	15680	72	3	3	629	3	TBX2	17	59479272	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	738858	59479272	21715938	3816	80981											
TBX4	9496	broad.mit.edu	37	chr17	59560530	59560530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgtacaccagctatagcGtgcagacgatggagactgtg	10	7	13	11	4	0	2	0	0	0	2	0	4	0	2	2	1	4	3	2	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:59560530G>A	uc002izi.2	+	8	1336	c.1291G>A	c.(1291-1293)GTG>ATG	p.V431M	TBX4_uc010ddo.2_Missense_Mutation_p.V432M|TBX4_uc010woy.1_Missense_Mutation_p.V432M	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	431					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CAGCTATAGCGTGCAGACGAT	0.647													24	57					0	0	1	0	0		A	59560530	A	A	59560530	3	1	151	1	0	0	0	0	1	0	0	0	15685	1145	40	1	1321	1	TBX4	17	59560530	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	81258	59560530	21634680	3817	80982											
MED13	9969	broad.mit.edu	37	chr17	60033126	60033126	+	Silent	SNP	A	G	G	1	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	gagtctgcagcagatataccAcacattctacacatgtcttt	12	12	6	11	0	3	1	0	0	3	1	3	2	3	1	1	0	4	2	1	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:60033126A>G	uc002izo.2	-	25	5774	c.5697T>C	c.(5695-5697)TGT>TGC	p.C1899C		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1899					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CAGATATACCACACATTCTAC	0.433													16	82					0	0	1	0	0		G	60033126	G	G	60033126	2	3	151	1	0	0	0	0	0	0	0	1	9448	157	6	3		3	MED13	17	60033126	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	472596	60033126	21162084	3818	80983											
MED13	9969	broad.mit.edu	37	chr17	60072676	60072676	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtttttaatttgatattgcTgcactaattcatcagaaact	12	17	6	6	0	2	2	2	1	0	1	2	2	2	2	0	1	3	3	0	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:60072676T>C	uc002izo.2	-	10	2095	c.2018A>G	c.(2017-2019)CAG>CGG	p.Q673R		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	673					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						TTGATATTGCTGCACTAATTC	0.294													35	157					0	0	1	0	0		C	60072676	C	C	60072676	3	2	151	1	0	0	0	0	1	0	0	0	9448	1580	55	3	4590	3	MED13	17	60072676	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	39550	60072676	21122534	3819	80984											
MARCH10	162333	broad.mit.edu	37	chr17	60814662	60814662	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctcttcagcttagtgttAcacatcaggccttcttgttg	6	15	9	11	0	4	0	2	0	2	0	4	0	4	0	2	2	2	3	2	2	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:60814662A>G	uc010ddr.2	-	6	805	c.567T>C	c.(565-567)TGT>TGC	p.C189C	MARCH10_uc002jag.3_Silent_p.C189C|MARCH10_uc010dds.2_Silent_p.C227C|MARCH10_uc002jah.2_Silent_p.C188C|uc002jaj.1_RNA|uc002jak.2_RNA	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	189							ligase activity|zinc ion binding				0						GCTTAGTGTTACACATCAGGC	0.458													89	334					0	0	1	0	0		G	60814662	G	G	60814662	2	3	151	1	0	0	0	0	0	0	0	1	9317	389	14	3		3	MARCH10	17	60814662	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	741986	60814662	20380548	3820	80985											
ACE	1636	broad.mit.edu	37	chr17	61573878	61573878	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccgggcagcgcctggcGtgagtgtcctccagccctcc	4	6	15	16	3	0	1	0	1	0	0	3	2	3	1	6	3	2	1	6	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:61573878G>A	uc002jau.1	+	23	3525	c.3503_splice	c.e23+1	p.A1168_splice	ACE_uc002jav.1_Splice_Site_p.A594_splice|ACE_uc010ddv.1_Splice_Site_p.A395_splice|ACE_uc010wpj.1_Intron|ACE_uc002jaw.1_Splice_Site|ACE_uc010wpk.1_Intron	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1						arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	AGCGCCTGGCGTGAGTGTCCT	0.622													20	87					0	0	1	0	0		A	61573878	A	A	61573878	5	1	151	1	0	0	0	0	0	0	1	0	136	1159	40	1	3797	1	ACE	17	61573878	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	759216	61573878	19621332	3821	80986											
MAP3K3	4215	broad.mit.edu	37	chr17	61770979	61770979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtatgaagctatggccGccatcttcaagattgccacc	11	9	9	12	1	2	3	1	1	1	2	2	3	2	3	4	1	2	2	4	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:61770979G>A	uc002jbg.2	+	16	2042	c.1723G>A	c.(1723-1725)GCC>ACC	p.A575T	MAP3K3_uc002jbe.2_Missense_Mutation_p.A606T|MAP3K3_uc002jbf.2_Missense_Mutation_p.A606T|MAP3K3_uc002jbh.2_Missense_Mutation_p.A602T|MAP3K3_uc010wpo.1_Missense_Mutation_p.A490T|MAP3K3_uc010wpp.1_Missense_Mutation_p.A571T	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	575	Protein kinase.				MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						AGCTATGGCCGCCATCTTCAA	0.587													14	66					0	0	1	0	0		A	61770979	A	A	61770979	3	1	151	1	0	0	0	0	1	0	0	0	9269	1087	38	1	1882	1	MAP3K3	17	61770979	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	197101	61770979	19424231	3822	80987											
STRADA	92335	broad.mit.edu	37	chr17	61781717	61781717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacctggcatccgggttgcGctgaaggcactgctccacaa	9	8	11	13	2	0	1	0	1	0	0	2	1	2	1	3	3	3	5	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:61781717G>A	uc002jbm.2	-	11	1243	c.1084C>T	c.(1084-1086)CGC>TGC	p.R362C	STRADA_uc002jbn.2_Missense_Mutation_p.R304C|STRADA_uc002jbo.2_Missense_Mutation_p.R325C|STRADA_uc002jbp.2_Missense_Mutation_p.R325C|STRADA_uc002jbq.2_Missense_Mutation_p.R304C|STRADA_uc010wpq.1_Intron|STRADA_uc010wpr.1_Intron|STRADA_uc010ddw.2_Missense_Mutation_p.R333C|STRADA_uc002jbr.2_3'UTR	NM_001003787	NP_001003787	Q7RTN6	STRAA_HUMAN	STE20-related kinase adaptor alpha isoform 1	362	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|kinase binding|protein kinase activity			ovary(1)	1						TCCGGGTTGCGCTGAAGGCAC	0.657													9	20					0	0	1	0	0		A	61781717	A	A	61781717	3	1	151	1	0	0	0	0	1	0	0	0	15349	1087	38	1	281	1	STRADA	17	61781717	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	10738	61781717	19413493	3823	80988											
SCN4A	6329	broad.mit.edu	37	chr17	62018253	62018253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtccggcgtcccctgcctCgcccttctcctccgggcttg	0	10	12	19	4	1	0	0	0	1	0	6	0	4	0	7	3	1	1	7	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:62018253C>T	uc002jds.1	-	24	5466	c.5389G>A	c.(5389-5391)GAG>AAG	p.E1797K		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1797					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TCCCCTGCCTCGCCCTTCTCC	0.667													11	33					0	0	1	0	0		T	62018253	T	T	62018253	3	4	151	1	0	0	0	0	1	0	0	0	13945	893	31	1	125	1	SCN4A	17	62018253	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	236536	62018253	19176957	3824	80989											
LRRC37A3	374819	broad.mit.edu	37	chr17	62856350	62856350	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgagttttgtgaaagcggTatttttttctggaatgtacg	9	16	12	4	3	1	1	0	1	1	0	1	3	1	2	0	2	3	3	0	2	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:62856350T>A	uc002jey.2	-	11	4445	c.3914A>T	c.(3913-3915)TAC>TTC	p.Y1305F	LRRC37A3_uc010wqg.1_Missense_Mutation_p.Y423F|LRRC37A3_uc002jex.1_Missense_Mutation_p.Y282F|LRRC37A3_uc010wqf.1_Missense_Mutation_p.Y343F|LRRC37A3_uc010dek.1_Missense_Mutation_p.Y311F	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	1305	Extracellular (Potential).					integral to membrane					0						GTGAAAGCGGTATTTTTTTCT	0.408													101	412					0	0	1	0	0		A	62856350	A	A	62856350	3	1	151	1	0	0	0	0	1	0	0	0	9011	1638	57	5	1006	5	LRRC37A3	17	62856350	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	838097	62856350	18338860	3825	80990											
RGS9	8787	broad.mit.edu	37	chr17	63221143	63221143	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccagcacatggctcccagCccccatctgaccgtgtacac	8	6	9	18	1	1	1	0	1	1	0	2	1	2	1	5	2	3	3	5	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:63221143C>T	uc002jfe.2	+	18	1541	c.1431C>T	c.(1429-1431)AGC>AGT	p.S477S	RGS9_uc010dem.2_Silent_p.S474S|RGS9_uc002jfd.2_Silent_p.S474S|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Silent_p.S248S	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	477					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						TGGCTCCCAGCCCCCATCTGA	0.657													40	113					0	0	1	0	0		T	63221143	T	T	63221143	2	4	151	1	0	0	0	0	0	0	0	1	13338	738	26	2		2	RGS9	17	63221143	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	364793	63221143	17974067	3826	80991											
HELZ	9931	broad.mit.edu	37	chr17	65124796	65124796	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgattgctgctgtttgttggTacttcctgaatgctgcagtc	5	17	11	8	0	0	2	0	2	0	0	2	2	1	2	1	1	5	7	1	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:65124796T>C	uc010wqk.1	-	24	3548	c.3361A>G	c.(3361-3363)ACC>GCC	p.T1121A	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.T1120A	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					TGTTTGTTGGTACTTCCTGAA	0.443													91	425					0	0	1	0	0		C	65124796	C	C	65124796	3	2	151	1	0	0	0	0	1	0	0	0	7065	1638	57	3	2510	3	HELZ	17	65124796	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1903653	65124796	16070414	3827	80992											
HELZ	9931	broad.mit.edu	37	chr17	65124955	65124955	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatgacacagggcaataaAccgttcccaaaatttcctac	14	10	5	12	1	1	1	1	1	0	0	3	1	3	1	3	1	2	2	3	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:65124955A>G	uc010wqk.1	-	24	3389	c.3202T>C	c.(3202-3204)TTT>CTT	p.F1068L	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.F1067L	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					AGGGCAATAAACCGTTCCCAA	0.333													30	176					0	0	1	0	0		G	65124955	G	G	65124955	3	3	151	1	0	0	0	0	1	0	0	0	7065	43	2	3	2669	3	HELZ	17	65124955	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	159	65124955	16070255	3828	80993											
HELZ	9931	broad.mit.edu	37	chr17	65184543	65184543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatatttctgtgttaaatgCtatcccgactttatacacgt	12	16	5	8	2	1	0	0	0	1	0	2	1	2	0	1	0	2	2	1	0	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:65184543C>T	uc010wqk.1	-	12	1241	c.1054G>A	c.(1054-1056)GCA>ACA	p.A352T	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.A352T	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					GTGTTAAATGCTATCCCGACT	0.393													131	478					0	0	1	0	0		T	65184543	T	T	65184543	3	4	151	1	0	0	0	0	1	0	0	0	7065	797	28	2	4862	2	HELZ	17	65184543	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	59588	65184543	16010667	3829	80994											
PSMD12	5718	broad.mit.edu	37	chr17	65362568	65362568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtaggcgctgatccaccGtggcgctgtagtccacctcc	5	8	13	15	4	0	1	0	1	0	0	3	1	3	1	5	3	0	4	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:65362568G>A	uc002jfy.2	-	1	154	c.68C>T	c.(67-69)ACG>ATG	p.T23M	PSMD12_uc002jga.2_Missense_Mutation_p.T23M|PSMD12_uc002jfz.2_Translation_Start_Site|PSMD12_uc010det.1_Missense_Mutation_p.T23M	NM_002816	NP_002807	O00232	PSD12_HUMAN	proteasome 26S non-ATPase subunit 12 isoform 1	23					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding				0	all_cancers(12;2.38e-11)|all_epithelial(3;8.27e-13)					CTGATCCACCGTGGCGCTGTA	0.701													3	8					0	0	1	0	0		A	65362568	A	A	65362568	3	1	151	1	0	0	0	0	1	0	0	0	12717	1145	40	1	1346	1	PSMD12	17	65362568	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	178025	65362568	15832642	3830	80995											
NOL11	25926	broad.mit.edu	37	chr17	65720235	65720235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaatatacactcttacttgGacaagacgaaaactctgtta	16	11	5	9	1	2	1	0	0	2	1	2	3	2	2	0	1	3	1	0	1	8	5	rs148391618		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:65720235G>A	uc002jgd.1	+	6	593	c.590G>A	c.(589-591)GGA>GAA	p.G197E	NOL11_uc010wql.1_Missense_Mutation_p.G15E|NOL11_uc010deu.1_5'UTR	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	197						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			CTCTTACTTGGACAAGACGAA	0.294													7	131					0	0	1	0	0		A	65720235	A	A	65720235	3	1	151	1	0	0	0	0	1	0	0	0	10540	1174	41	4	612	4	NOL11	17	65720235	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	357667	65720235	15474975	3831	80996											
BPTF	2186	broad.mit.edu	37	chr17	65889599	65889599	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggtcaagaagggaagtatcgCgtctaccacaatcaatactc	14	8	9	10	2	3	1	2	0	1	1	5	2	3	2	1	2	2	1	1	2	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:65889599C>T	uc002jgf.2	+	6	2230	c.2169C>T	c.(2167-2169)CGC>CGT	p.R723R	BPTF_uc002jge.2_Silent_p.R849R|BPTF_uc010wqm.1_Silent_p.R786R	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	849	Interaction with MAZ.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GGAAGTATCGCGTCTACCACA	0.388													23	98					0	0	1	0	0		T	65889599	T	T	65889599	2	4	151	1	0	0	0	0	0	0	0	1	1498	755	27	1		1	BPTF	17	65889599	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	169364	65889599	15305611	3832	80997											
PRKAR1A	5573	broad.mit.edu	37	chr17	66526419	66526419	+	Silent	SNP	T	C	C	0	1	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	ccatctttgctttctccaggTgaaattgcactactgatgaa	10	14	7	10	0	2	3	0	3	2	0	3	3	2	3	2	1	3	2	2	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:66526419T>C	uc002jhg.2	+	11	1155	c.975T>C	c.(973-975)GGT>GGC	p.G325G	PRKAR1A_uc002jhh.2_Silent_p.G325G|PRKAR1A_uc002jhi.2_Silent_p.G325G|PRKAR1A_uc002jhj.2_Silent_p.G325G|PRKAR1A_uc002jhk.2_Silent_p.G201G|PRKAR1A_uc002jhl.2_Silent_p.G325G|PRKAR1A_uc002jhm.2_Intron	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	325	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					TTTCTCCAGGTGAAATTGCAC	0.443			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				45	177					0	0	1	0	0		C	66526419	C	C	66526419	2	2	151	1	0	0	0	0	0	0	0	1	12525	1710	59	3		3	PRKAR1A	17	66526419	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	636820	66526419	14668791	3833	80998											
FAM20A	54757	broad.mit.edu	37	chr17	66538220	66538220	+	Missense_Mutation	SNP	A	G	G	1	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	cggcaggaaggcagagagggAaccctccagcaggtgtgggt	10	4	18	9	1	0	1	0	0	0	1	1	4	1	3	2	6	2	3	2	6	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:66538220A>G	uc002jho.2	-	7	1303	c.1015T>C	c.(1015-1017)TCC>CCC	p.S339P	FAM20A_uc010wqp.1_Missense_Mutation_p.S201P|PRKAR1A_uc002jhm.2_Intron|FAM20A_uc002jhn.2_Silent_p.V41V	NM_017565	NP_060035	Q96MK3	FA20A_HUMAN	family with sequence similarity 20, member A	339						extracellular region					0	Breast(10;1.64e-13)					GCAGAGAGGGAACCCTCCAGC	0.597													16	70					0	0	1	0	0		G	66538220	G	G	66538220	3	3	151	1	0	0	0	0	1	0	0	0	5548	246	9	3	630	3	FAM20A	17	66538220	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11801	66538220	14656990	3834	80999											
ABCA8	10351	broad.mit.edu	37	chr17	66925370	66925370	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctcattaagaaagccaaAgctacctaaaatgagagaag	19	7	8	7	0	1	3	1	1	0	2	1	4	1	3	2	0	4	2	2	0	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:66925370A>G	uc002jhp.2	-	8	1124	c.945T>C	c.(943-945)GCT>GCC	p.A315A	ABCA8_uc002jhq.2_Silent_p.A315A|ABCA8_uc010wqq.1_Silent_p.A315A|ABCA8_uc010wqr.1_Silent_p.A254A|ABCA8_uc002jhr.2_Silent_p.A315A	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	315	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					AGAAAGCCAAAGCTACCTAAA	0.368													13	57					0	0	1	0	0		G	66925370	G	G	66925370	2	3	151	1	0	0	0	0	0	0	0	1	38	59	3	3		3	ABCA8	17	66925370	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	387150	66925370	14269840	3835	81000											
ABCA10	10349	broad.mit.edu	37	chr17	67150037	67150037	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcatacaactccaagtgCtctttcattgtaagcttggg	9	13	9	10	0	2	0	1	0	1	0	3	0	3	0	1	1	5	5	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:67150037C>A	uc010dfa.1	-	33	4779	c.3900G>T	c.(3898-3900)GAG>GAT	p.E1300D	ABCA10_uc010wqs.1_Missense_Mutation_p.E292D|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1300	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					ACTCCAAGTGCTCTTTCATTG	0.493													49	228					4.29476e-34	4.50805e-34	1	1	0		A	67150037	A	A	67150037	3	1	151	1	0	0	0	0	1	0	0	0	29	796	28	5	763	5	ABCA10	17	67150037	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	224667	67150037	14045173	3836	81001											
ABCA10	10349	broad.mit.edu	37	chr17	67215708	67215708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatgctgactctcggagacCcatcactgtcatcagtttct	9	12	8	12	1	5	2	3	1	2	1	6	4	5	2	1	1	1	2	1	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:67215708C>T	uc010dfa.1	-	7	1387	c.508G>A	c.(508-510)GGT>AGT	p.G170S	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfc.1_Missense_Mutation_p.G62S	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	170					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TCTCGGAGACCCATCACTGTC	0.318													7	162					0	0	1	0	0		T	67215708	T	T	67215708	3	4	151	1	0	0	0	0	1	0	0	0	29	623	22	4	4259	4	ABCA10	17	67215708	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	65671	67215708	13979502	3837	81002											
GPRC5C	55890	broad.mit.edu	37	chr17	72428192	72428192	+	Silent	SNP	C	T	T	0	0	0	1	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	gcccgcatgcgggggcgtggCagtcaacagcaacaacccac	10	3	13	15	3	1	0	1	0	0	0	1	0	1	0	2	3	5	3	2	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:72428192C>T	uc002jkp.2	+	1	526	c.15C>T	c.(13-15)GGC>GGT	p.G5G	GPRC5C_uc002jkq.2_Silent_p.G5G|GPRC5C_uc002jkr.2_5'Flank	NM_022036	NP_071319	Q9NQ84	GPC5C_HUMAN	G protein-coupled receptor family C, group 5,	Error:Variant_position_missing_in_Q9NQ84_after_alignment						cytoplasmic vesicle membrane|integral to plasma membrane	G-protein coupled receptor activity|protein binding			ovary(2)|prostate(1)|central_nervous_system(1)|pancreas(1)	5						GGGGGCGTGGCAGTCAACAGC	0.677													5	18					0	0	1	0	0		T	72428192	T	T	72428192	2	4	151	1	0	0	0	0	0	0	0	1	6742	697	25	2		2	GPRC5C	17	72428192	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5212484	72428192	8767018	3838	81003											
CD300LF	146722	broad.mit.edu	37	chr17	72691997	72691997	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccctccaggggctgcagtAcctgggacagggaacacagg	9	4	15	13	1	0	0	0	0	0	0	1	2	1	2	3	5	3	3	3	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:72691997A>G	uc002jlg.2	-	6	687	c.584T>C	c.(583-585)GTA>GCA	p.V195A	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|CD300LF_uc002jlf.2_Missense_Mutation_p.V198A|CD300LF_uc010dfw.2_RNA|CD300LF_uc002jlh.2_Silent_p.G210G|CD300LF_uc002jli.2_Silent_p.G160G|CD300LF_uc010wra.1_Missense_Mutation_p.V210A|CD300LF_uc002jlj.1_Silent_p.G205G	NM_139018	NP_620587	Q8TDQ1	CLM1_HUMAN	NK inhibitory receptor precursor	195	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			upper_aerodigestive_tract(1)	1						GGGCTGCAGTACCTGGGACAG	0.617													11	27					0	0	1	0	0		G	72691997	G	G	72691997	3	3	151	1	0	0	0	0	1	0	0	0	3004	405	14	3	296	3	CD300LF	17	72691997	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	263805	72691997	8503213	3839	81004											
TMEM104	54868	broad.mit.edu	37	chr17	72832138	72832138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggaggggcacccgcccctggCtgacttctcgggggtccgga	4	6	17	14	3	1	1	0	1	1	0	3	3	2	3	4	7	0	2	4	7	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:72832138C>T	uc002jls.3	+	10	965	c.803C>T	c.(802-804)GCT>GTT	p.A268V	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.A268V	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	268	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					CCGCCCCTGGCTGACTTCTCG	0.627													23	79					0	0	1	0	0		T	72832138	T	T	72832138	3	4	151	1	0	0	0	0	1	0	0	0	16043	797	28	2	837	2	TMEM104	17	72832138	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	140141	72832138	8363072	3840	81005											
TMEM104	54868	broad.mit.edu	37	chr17	72832395	72832395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtgggcctggccgctgtgCgctttttcctgggcctcttc	0	14	13	14	3	1	0	0	0	1	0	4	0	2	0	4	3	1	2	4	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:72832395C>T	uc002jls.3	+	10	1222	c.1060C>T	c.(1060-1062)CGC>TGC	p.R354C	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Missense_Mutation_p.R354C	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	354	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					GGCCGCTGTGCGCTTTTTCCT	0.607													35	211					0	0	1	0	0		T	72832395	T	T	72832395	3	4	151	1	0	0	0	0	1	0	0	0	16043	768	27	1	1094	1	TMEM104	17	72832395	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	257	72832395	8362815	3841	81006											
FDXR	2232	broad.mit.edu	37	chr17	72860346	72860346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcacctgctgggggcttCggaaaaagcggaggccccag	9	4	16	12	2	0	0	0	0	0	0	1	2	0	2	3	5	3	4	3	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:72860346C>T	uc002jly.2	-	9	1013	c.926G>A	c.(925-927)CGA>CAA	p.R309Q	FDXR_uc010wri.1_Missense_Mutation_p.R257Q|FDXR_uc010wrj.1_Missense_Mutation_p.R307Q|FDXR_uc002jlw.2_Missense_Mutation_p.R66Q|FDXR_uc002jlx.2_Missense_Mutation_p.R315Q|FDXR_uc002jmc.2_Missense_Mutation_p.R281Q|FDXR_uc010wrk.1_Missense_Mutation_p.R340Q|FDXR_uc010wrl.1_Missense_Mutation_p.R352Q|FDXR_uc002jma.2_Missense_Mutation_p.R310Q|FDXR_uc010wrm.1_Missense_Mutation_p.R269Q|FDXR_uc002jlz.2_Missense_Mutation_p.R301Q|FDXR_uc002jmb.2_RNA	NM_024417	NP_077728	P22570	ADRO_HUMAN	ferredoxin reductase isoform 1 precursor	309					cholesterol metabolic process|electron transport chain|steroid biosynthetic process|transport	mitochondrial matrix	ferredoxin-NADP+ reductase activity|protein binding				0	all_lung(278;0.172)|Lung NSC(278;0.207)					CTGGGGGCTTCGGAAAAAGCG	0.652													12	28					0	0	1	0	0		T	72860346	T	T	72860346	3	4	151	1	0	0	0	0	1	0	0	0	5821	884	31	1	565	1	FDXR	17	72860346	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	27951	72860346	8334864	3842	81007											
C17orf28	283987	broad.mit.edu	37	chr17	72959143	72959143	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggagcagggactcggccaGgggcctggcatgctcatcat	8	6	15	12	1	2	0	2	0	0	0	3	2	2	2	2	6	2	3	2	6	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:72959143G>A	uc002jmj.3	-	4	570	c.421C>T	c.(421-423)CTG>TTG	p.L141L	C17orf28_uc010wrs.1_5'UTR|C17orf28_uc002jmk.2_Silent_p.L140L	NM_030630	NP_085133	Q8IV36	CQ028_HUMAN	hypothetical protein LOC283987	141						integral to membrane|plasma membrane	protein binding				0	all_lung(278;0.151)|Lung NSC(278;0.185)					GACTCGGCCAGGGGCCTGGCA	0.647													14	15					0	0	1	0	0		A	72959143	A	A	72959143	2	1	151	1	0	0	0	0	0	0	0	1	1856	991	35	4		4	C17orf28	17	72959143	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	98797	72959143	8236067	3843	81008											
SLC16A5	9121	broad.mit.edu	37	chr17	73096199	73096199	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aacgcgctggcctcgatgggCgtctccctgggcatcaccct	5	8	12	16	4	2	0	1	0	1	0	4	1	2	0	3	3	1	2	3	3	1	0	rs142993518	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:73096199C>T	uc002jmr.2	+	5	813	c.441C>T	c.(439-441)GGC>GGT	p.G147G	SLC16A5_uc002jms.1_Silent_p.G147G|SLC16A5_uc002jmt.2_Silent_p.G147G|SLC16A5_uc002jmu.2_Silent_p.G147G|SLC16A5_uc010wrt.1_Silent_p.G187G	NM_004695	NP_004686	O15375	MOT6_HUMAN	solute carrier family 16, member 5	147	Helical; (Potential).				organic anion transport	integral to plasma membrane|membrane fraction	secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	CCTCGATGGGCGTCTCCCTGG	0.642													5	25					0	0	1	0	0		T	73096199	T	T	73096199	2	4	151	1	0	0	0	0	0	0	0	1	14436	755	27	1		1	SLC16A5	17	73096199	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	137056	73096199	8099011	3844	81009											
RECQL5	9400	broad.mit.edu	37	chr17	73626707	73626707	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaactcactcatcagcGgtacgtgttgactggcggtt	7	11	13	10	4	3	1	3	1	0	0	3	2	3	2	0	4	3	3	0	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:73626707G>A	uc010dgl.2	-	13	1866	c.1710C>T	c.(1708-1710)ACC>ACT	p.T570T	RECQL5_uc010dgk.2_Silent_p.T543T|RECQL5_uc002jot.3_5'Flank|LOC643008_uc002jow.2_5'Flank	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	570					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	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)			ACTCATCAGCGGTACGTGTTG	0.622								Other_identified_genes_with_known_or_suspected_DNA_repair_function					8	51					0	0	1	0	0		A	73626707	A	A	73626707	2	1	151	1	0	0	0	0	0	0	0	1	13228	1103	39	1		1	RECQL5	17	73626707	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	530508	73626707	7568503	3845	81010											
ITGB4	3691	broad.mit.edu	37	chr17	73745107	73745107	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagccccactccaccacCatcatcatcagggacccagg	10	4	8	19	0	3	0	3	0	0	0	4	1	4	1	7	3	1	0	7	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:73745107C>A	uc002jpg.2	+	27	3484	c.3297C>A	c.(3295-3297)ACC>ACA	p.T1099T	ITGB4_uc002jph.2_Silent_p.T1099T|ITGB4_uc002jpi.3_Silent_p.T1099T|ITGB4_uc002jpj.2_Silent_p.T1099T	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1099	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	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)			ACTCCACCACCATCATCATCA	0.582													7	19					1.58986e-06	1.61756e-06	1	1	0		A	73745107	A	A	73745107	2	1	151	1	0	0	0	0	0	0	0	1	7913	581	21	5		5	ITGB4	17	73745107	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	118400	73745107	7450103	3846	81011											
ITGB4	3691	broad.mit.edu	37	chr17	73748559	73748559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacatccctatcgtggacGcccagagcggggaggactac	9	6	13	13	3	0	2	0	1	0	1	2	5	1	5	2	4	2	0	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:73748559G>A	uc002jpg.2	+	32	4196	c.4009G>A	c.(4009-4011)GCC>ACC	p.A1337T	ITGB4_uc002jph.2_Missense_Mutation_p.A1337T|ITGB4_uc002jpi.3_Missense_Mutation_p.A1337T|ITGB4_uc002jpj.2_Missense_Mutation_p.A1337T|GALK1_uc010wsi.1_Intron	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	1337	Cytoplasmic (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	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)			TATCGTGGACGCCCAGAGCGG	0.662													26	120					0	0	1	0	0		A	73748559	A	A	73748559	3	1	151	1	0	0	0	0	1	0	0	0	7913	1087	38	1	4131	1	ITGB4	17	73748559	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3452	73748559	7446651	3847	81012											
TRIM47	91107	broad.mit.edu	37	chr17	73871509	73871509	+	Silent	SNP	A	G	G	1	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	aaatagtccctgggagcttcActctccaagaggttcgtact	10	11	9	11	1	2	1	1	0	1	1	5	2	3	2	2	2	2	3	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:73871509A>G	uc002jpw.2	-	5	1275	c.1248T>C	c.(1246-1248)AGT>AGC	p.S416S	TRIM47_uc002jpv.2_Silent_p.S178S	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	416	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGGGAGCTTCACTCTCCAAGA	0.622													8	47					0	0	1	0	0		G	73871509	G	G	73871509	2	3	151	1	0	0	0	0	0	0	0	1	16548	156	6	3		3	TRIM47	17	73871509	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	122950	73871509	7323701	3848	81013											
EXOC7	23265	broad.mit.edu	37	chr17	74097856	74097856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcaacattctcctgcagcCgctgcagattctccgtctgc	6	12	7	16	2	4	1	1	0	4	1	7	1	4	1	3	0	5	3	3	0	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74097856C>T	uc002jqs.2	-	3	310	c.215G>A	c.(214-216)CGG>CAG	p.R72Q	EXOC7_uc010dgv.1_Missense_Mutation_p.R19Q|EXOC7_uc002jqq.2_Missense_Mutation_p.R72Q|EXOC7_uc010wsw.1_Missense_Mutation_p.R72Q|EXOC7_uc010wsx.1_Missense_Mutation_p.R72Q|EXOC7_uc002jqr.2_Missense_Mutation_p.R72Q|EXOC7_uc010wsv.1_Missense_Mutation_p.R31Q|EXOC7_uc002jqu.2_Missense_Mutation_p.R72Q|EXOC7_uc002jqv.2_Missense_Mutation_p.R72Q	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4	72	Potential.				exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			CTCCTGCAGCCGCTGCAGATT	0.532													26	59					0	0	1	0	0		T	74097856	T	T	74097856	3	4	151	1	0	0	0	0	1	0	0	0	5318	652	23	1	2064	1	EXOC7	17	74097856	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	226347	74097856	7097354	3849	81014											
FOXJ1	2302	broad.mit.edu	37	chr17	74134076	74134076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgccgcttcttgaaagcGccgctcagtagccgctccgc	6	8	11	16	6	2	1	1	1	1	0	4	1	3	1	4	0	2	4	4	0	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74134076G>A	uc002jqw.2	-	2	714	c.624C>T	c.(622-624)GGC>GGT	p.G208G	FOXJ1_uc002jqx.2_Silent_p.G208G|uc002jqy.1_5'Flank	NM_001454	NP_001445	Q92949	FOXJ1_HUMAN	forkhead box J1	208	Fork-head.				actin cytoskeleton organization|activation of Rho GTPase activity|central tolerance induction|cilium assembly|epithelial cell differentiation|establishment of apical/basal cell polarity|heart looping|humoral immune response|left/right pattern formation|leukocyte migration|lung development|negative regulation of B cell activation|negative regulation of germinal center formation|negative regulation of humoral immune response mediated by circulating immunoglobulin|negative regulation of interleukin-6 biosynthetic process|negative regulation of NF-kappaB transcription factor activity|negative regulation of T cell differentiation in thymus|negative regulation of T cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of central B cell tolerance induction|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			pancreas(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			TCTTGAAAGCGCCGCTCAGTA	0.672													7	16					0	0	1	0	0		A	74134076	A	A	74134076	2	1	151	1	0	0	0	0	0	0	0	1	6025	1074	38	1		1	FOXJ1	17	74134076	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	36220	74134076	7061134	3850	81015											
RNF157	114804	broad.mit.edu	37	chr17	74154490	74154490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacctctccgagatgctgaAccgacggtctctgagagagc	9	9	11	12	3	2	4	0	2	2	2	4	7	2	4	3	1	4	1	3	1	2	1	rs79252974		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74154490A>G	uc002jqz.2	-	13	1466	c.1397T>C	c.(1396-1398)GTT>GCT	p.V466A	RNF157_uc002jra.2_Missense_Mutation_p.V466A	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	466	Ser-rich.						zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			GAGATGCTGAACCGACGGTCT	0.532													26	134					0	0	1	0	0		G	74154490	G	G	74154490	3	3	151	1	0	0	0	0	1	0	0	0	13479	43	2	3	670	3	RNF157	17	74154490	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20414	74154490	7040720	3851	81016											
RNF157	114804	broad.mit.edu	37	chr17	74158016	74158016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcgacagggcagaatcaagGtgtcccggacatccgagaga	12	4	15	10	3	1	2	1	0	0	2	3	6	3	3	2	4	0	1	2	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74158016G>A	uc002jqz.2	-	10	929	c.860C>T	c.(859-861)ACC>ATC	p.T287I	RNF157_uc002jra.2_Missense_Mutation_p.T287I	NM_052916	NP_443148	Q96PX1	RN157_HUMAN	ring finger protein 157	287	RING-type.						zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			CAGAATCAAGGTGTCCCGGAC	0.572													11	147					0	0	1	0	0		A	74158016	A	A	74158016	3	1	151	1	0	0	0	0	1	0	0	0	13479	1261	44	4	1219	4	RNF157	17	74158016	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3526	74158016	7037194	3852	81017											
PRPSAP1	5635	broad.mit.edu	37	chr17	74344633	74344633	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattggtctcttgatatacaAcagacttccccaattcagca	12	12	5	12	0	2	2	1	1	1	1	4	2	3	2	2	1	3	1	2	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74344633A>G	uc010wta.1	-	2	646	c.200T>C	c.(199-201)GTT>GCT	p.V67A	PRPSAP1_uc010wtb.1_5'UTR	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	38					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						TTGATATACAACAGACTTCCC	0.224													4	33					0	0	1	0	0		G	74344633	G	G	74344633	3	3	151	1	0	0	0	0	1	0	0	0	12603	43	2	3	993	3	PRPSAP1	17	74344633	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	186617	74344633	6850577	3853	81018											
UBE2O	63893	broad.mit.edu	37	chr17	74392545	74392545	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctgctccacagtcatgttctTgaggctctccaggatcttga	7	13	9	12	0	4	2	1	2	3	0	6	3	5	3	2	2	1	3	2	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74392545T>G	uc002jrm.3	-	14	2538	c.2473A>C	c.(2473-2475)AAG>CAG	p.K825Q	UBE2O_uc002jrn.3_Missense_Mutation_p.K825Q|UBE2O_uc002jrl.3_Missense_Mutation_p.K429Q	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	825	Potential.						ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						GTCATGTTCTTGAGGCTCTCC	0.597													55	214					0	0	1	0	0		G	74392545	G	G	74392545	3	3	151	1	0	0	0	0	1	0	0	0	16894	1821	63	5	1425	5	UBE2O	17	74392545	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	47912	74392545	6802665	3854	81019											
JMJD6	23210	broad.mit.edu	37	chr17	74714908	74714908	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcctcctcttcttcctgcggTgcactgtcccatcgccctcg	2	13	7	19	3	2	0	0	0	2	0	8	0	6	0	5	1	2	1	5	1	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74714908T>C	uc002jso.2	-	6	1439	c.1115A>G	c.(1114-1116)CAC>CGC	p.H372R	JMJD6_uc002jsn.1_Missense_Mutation_p.H372R|JMJD6_uc010dgz.2_Missense_Mutation_p.T326A	NM_015167	NP_055982	Q6NYC1	JMJD6_HUMAN	jumonji domain containing 6 isoform 2	372					mRNA processing|peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine|regulation of nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|sprouting angiogenesis|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-R2 specific)|histone demethylase activity (H4-R3 specific)|identical protein binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-lysine 5-dioxygenase activity|single-stranded RNA binding			skin(2)|ovary(1)	3						CTTCCTGCGGTGCACTGTCCC	0.572													15	64					0	0	1	0	0		C	74714908	C	C	74714908	3	2	151	1	0	0	0	0	1	0	0	0	7969	1696	59	3	141	3	JMJD6	17	74714908	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	322363	74714908	6480302	3855	81020											
MFSD11	79157	broad.mit.edu	37	chr17	74737081	74737081	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctgcttcaaatttgatTacaccgtcagtggttgccat	8	16	7	10	1	3	1	2	1	1	0	4	1	3	1	2	1	3	2	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:74737081T>C	uc002jta.2	+	4	1168	c.195T>C	c.(193-195)ATT>ATC	p.I65I	MFSD11_uc002jtb.2_Silent_p.I65I|MFSD11_uc010dha.2_Silent_p.I65I|MFSD11_uc002jtc.2_Silent_p.I65I|MFSD11_uc002jtd.3_Silent_p.I65I|MFSD11_uc010dhb.2_Silent_p.I65I|MFSD11_uc002jte.2_Silent_p.I65I	NM_024311	NP_077287	O43934	MFS11_HUMAN	major facilitator superfamily domain containing	65	Helical; (Potential).					integral to membrane				ovary(1)	1						CAAATTTGATTACACCGTCAG	0.358													89	285					0	0	1	0	0		C	74737081	C	C	74737081	2	2	151	1	0	0	0	0	0	0	0	1	9547	1742	61	3		3	MFSD11	17	74737081	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22173	74737081	6458129	3856	81021											
SEC14L1	6397	broad.mit.edu	37	chr17	75205464	75205464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actggtccccaaatctctgtAccggactgcagaggagctgg	9	8	12	12	1	1	1	0	0	1	1	3	3	2	3	3	4	3	3	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:75205464A>G	uc002jto.2	+	14	1784	c.1517A>G	c.(1516-1518)TAC>TGC	p.Y506C	SEC14L1_uc010dhc.2_Missense_Mutation_p.Y506C|SEC14L1_uc010wth.1_Missense_Mutation_p.Y506C|SEC14L1_uc002jtm.2_Missense_Mutation_p.Y506C|SEC14L1_uc010wti.1_Missense_Mutation_p.Y472C|SEC14L1_uc010wtj.1_Missense_Mutation_p.Y66C|SEC14L1_uc002jtr.2_5'UTR	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	506					transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						AAATCTCTGTACCGGACTGCA	0.537													5	43					0	0	1	0	0		G	75205464	G	G	75205464	3	3	151	1	0	0	0	0	1	0	0	0	14006	391	14	3	1563	3	SEC14L1	17	75205464	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	468383	75205464	5989746	3857	81022											
TNRC6C	57690	broad.mit.edu	37	chr17	76089187	76089187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaaatctcaaatggctctAgcatcaactggcccccaggt	13	9	7	12	0	3	0	2	0	2	0	4	0	3	0	2	3	2	2	2	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:76089187A>G	uc002jud.2	+	16	4744	c.4144A>G	c.(4144-4146)AGC>GGC	p.S1382G	TNRC6C_uc002juf.2_Missense_Mutation_p.S1379G	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1382	Sufficient for translational repression when tethered to a target mRNA.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			AAATGGCTCTAGCATCAACTG	0.507													9	48					0	0	1	0	0		G	76089187	G	G	76089187	3	3	151	1	0	0	0	0	1	0	0	0	16367	420	15	3	4194	3	TNRC6C	17	76089187	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	883723	76089187	5106023	3858	81023											
CBX4	8535	broad.mit.edu	37	chr17	77809108	77809108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcccctggcccttcccctgCgcgcccaaatccagcttggc	4	8	9	20	2	0	0	0	0	0	0	2	0	2	0	7	2	3	1	7	2	1	2	rs142055924		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:77809108C>T	uc002jxe.2	-	5	496	c.333G>A	c.(331-333)GCG>GCA	p.A111A		NM_003655	NP_003646	O00257	CBX4_HUMAN	chromobox homolog 4	111	Interaction with BMI1.				anti-apoptosis|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|PcG protein complex	enzyme binding|transcription corepressor activity			skin(2)	2			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CCTTCCCCTGCGCGCCCAAAT	0.657											OREG0024799	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	73					0	0	1	0	0		T	77809108	T	T	77809108	2	4	151	1	0	0	0	0	0	0	0	1	2723	755	27	1		1	CBX4	17	77809108	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1719921	77809108	3386102	3859	81024											
CCDC40	55036	broad.mit.edu	37	chr17	78063612	78063612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaactggcaaaagagatgCgttcctcagtggattccgag	11	9	11	10	2	1	1	1	0	0	1	4	4	4	2	3	2	2	2	3	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:78063612C>T	uc010dht.2	+	17	2788	c.2761C>T	c.(2761-2763)CGT>TGT	p.R921C	CCDC40_uc002jxm.3_Missense_Mutation_p.R704C|CCDC40_uc002jxn.3_Missense_Mutation_p.R317C	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	921	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			AAAAGAGATGCGTTCCTCAGT	0.522													15	91					0	0	1	0	0		T	78063612	T	T	78063612	3	4	151	1	0	0	0	0	1	0	0	0	2815	768	27	1	2827	1	CCDC40	17	78063612	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	254504	78063612	3131598	3860	81025											
EIF4A3	9775	broad.mit.edu	37	chr17	78111203	78111203	+	Missense_Mutation	SNP	T	A	A	0	1	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	acctggcgcccgaccggaacTccttcatgatggactcccgc	7	7	10	17	4	1	1	1	1	0	0	3	4	3	3	5	3	1	0	5	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:78111203T>A	uc010wuc.1	-	10	1038	c.965A>T	c.(964-966)GAG>GTG	p.E322V	EIF4A3_uc002jxs.2_Missense_Mutation_p.E322V	NM_014740	NP_055555	P38919	IF4A3_HUMAN	eukaryotic translation initiation factor 4A,	322	Helicase C-terminal.				mRNA transport|negative regulation of translation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|rRNA processing	catalytic step 2 spliceosome|cytoplasm|exon-exon junction complex|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|poly(A) RNA binding|protein binding			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)			CGACCGGAACTCCTTCATGAT	0.542													9	53					0	0	1	0	0		A	78111203	A	A	78111203	3	1	151	1	0	0	0	0	1	0	0	0	5034	1551	54	5	286	5	EIF4A3	17	78111203	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	47591	78111203	3084007	3861	81026											
RNF213	57674	broad.mit.edu	37	chr17	78336981	78336981	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggaagaggtttccttacCgtgggtgcaccttgcctacc	7	10	12	12	2	0	1	0	0	0	1	1	3	1	2	5	3	4	2	5	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:78336981C>A	uc002jyh.1	+	15	5877	c.5654C>A	c.(5653-5655)CCG>CAG	p.P1885Q	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.P267Q	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GTTTCCTTACCGTGGGTGCAC	0.527													23	108					1.96895e-08	2.0176e-08	1	1	0		A	78336981	A	A	78336981	3	1	151	1	0	0	0	0	1	0	0	0	13502	652	23	5	11908	5	RNF213	17	78336981	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	225778	78336981	2858229	3862	81027											
RNF213	57674	broad.mit.edu	37	chr17	78345686	78345686	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgcagctttcatgatgtAaaagattatattcaggaata	14	15	7	5	0	3	2	2	1	1	1	3	3	3	3	0	1	2	3	0	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:78345686A>G	uc002jyh.1	+	22	6880	c.6657A>G	c.(6655-6657)GTA>GTG	p.V2219V	uc002jyi.1_Intron|RNF213_uc010dhw.1_Silent_p.V601V	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TTCATGATGTAAAAGATTATA	0.358													10	40					0	0	1	0	0		G	78345686	G	G	78345686	2	3	151	1	0	0	0	0	0	0	0	1	13502	349	13	3		3	RNF213	17	78345686	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8705	78345686	2849524	3863	81028											
RPTOR	57521	broad.mit.edu	37	chr17	78899241	78899241	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acggtgcagacggggttctgCgactggagcgcccgctattt	6	9	15	11	5	1	1	0	0	1	1	1	3	1	2	1	4	3	3	1	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:78899241C>T	uc002jyt.1	+	24	3685	c.2880C>T	c.(2878-2880)TGC>TGT	p.C960C	RPTOR_uc010wug.1_Silent_p.C802C	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	960					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding	p.C960C(1)		lung(4)|urinary_tract(1)|ovary(1)	6						CGGGGTTCTGCGACTGGAGCG	0.592													6	37					0	0	1	0	0		T	78899241	T	T	78899241	2	4	151	1	0	0	0	0	0	0	0	1	13690	776	27	1		1	RPTOR	17	78899241	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	553555	78899241	2295969	3864	81029											
PDE6G	5148	broad.mit.edu	37	chr17	79620296	79620296	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggtcccccggccaccctggTggctgaccggaactcagcct	6	6	12	17	2	1	1	1	1	0	0	2	2	2	2	6	5	2	1	6	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:79620296T>C	uc002kay.3	-	2	184	c.40A>G	c.(40-42)ACC>GCC	p.T14A	PDE6G_uc002kaz.3_Intron	NM_002602	NP_002593	P18545	CNRG_HUMAN	phosphodiesterase 6G	14					platelet activation|visual perception	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|enzyme inhibitor activity				0	all_neural(118;0.0878)|all_lung(278;0.175)|Lung NSC(278;0.192)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GCCACCCTGGTGGCTGACCGG	0.627													14	64					0	0	1	0	0		C	79620296	C	C	79620296	3	2	151	1	0	0	0	0	1	0	0	0	11668	1696	59	3	235	3	PDE6G	17	79620296	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	721055	79620296	1574914	3865	81030											
ANAPC11	51529	broad.mit.edu	37	chr17	79857828	79857828	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcgacgactgcccgctggtgTggggccagtgctcccactgc	4	7	15	15	3	0	0	0	0	0	0	1	2	1	0	3	3	3	2	3	3	0	0	rs34978095		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:79857828T>C	uc002kbv.1	+	4	357	c.142T>C	c.(142-144)TGG>CGG	p.W48R	ANAPC11_uc002kbw.1_Missense_Mutation_p.W48R|ANAPC11_uc002kbx.1_Missense_Mutation_p.W48R|ANAPC11_uc002kby.1_Missense_Mutation_p.V148A|ANAPC11_uc002kbz.1_Missense_Mutation_p.W48R|ANAPC11_uc002kca.1_Missense_Mutation_p.W48R|ANAPC11_uc002kcb.1_Missense_Mutation_p.W48R|ANAPC11_uc002kcc.1_Missense_Mutation_p.W48R|ANAPC11_uc010dih.1_Missense_Mutation_p.W48R|NPB_uc002kcd.2_5'Flank	NM_016476	NP_057560	Q9NYG5	APC11_HUMAN	APC11 anaphase promoting complex subunit 11	48	RING-type.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	zinc ion binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCCGCTGGTGTGGGGCCAGTG	0.632													4	27					0	0	1	0	0		C	79857828	C	C	79857828	3	2	151	1	0	0	0	0	1	0	0	0	600	1696	59	3	453	3	ANAPC11	17	79857828	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	237532	79857828	1337382	3866	81031											
PCYT2	5833	broad.mit.edu	37	chr17	79864701	79864701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggggctccttcccagaaGcaaactggatgatcttctga	9	10	11	11	0	2	3	0	2	2	1	4	4	4	4	2	3	2	3	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:79864701G>A	uc002kcf.1	-	7	674	c.611C>T	c.(610-612)GCT>GTT	p.A204V	PCYT2_uc010wva.1_Missense_Mutation_p.A172V|PCYT2_uc010wvb.1_Missense_Mutation_p.A172V|PCYT2_uc002kce.1_Missense_Mutation_p.A126V|PCYT2_uc002kcg.1_Missense_Mutation_p.A233V|PCYT2_uc002kch.1_Missense_Mutation_p.A222V|PCYT2_uc002kci.1_Missense_Mutation_p.A163V|PCYT2_uc010dii.1_Missense_Mutation_p.A204V|PCYT2_uc010wvc.1_Missense_Mutation_p.A126V	NM_002861	NP_002852	Q99447	PCY2_HUMAN	phosphate cytidylyltransferase 2, ethanolamine	204	Catalytic 1 (Potential).				phospholipid biosynthetic process		ethanolamine-phosphate cytidylyltransferase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CTTCCCAGAAGCAAACTGGAT	0.597													3	37					0	0	1	0	0		A	79864701	A	A	79864701	3	1	151	1	0	0	0	0	1	0	0	0	11631	971	34	2	586	2	PCYT2	17	79864701	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6873	79864701	1330509	3867	81032											
PCYT2	5833	broad.mit.edu	37	chr17	79867402	79867402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgcttaccatcggtgtgcaCgcctacgatgaggtagtcac	8	10	12	11	3	1	1	1	1	0	0	2	2	1	1	2	2	4	3	2	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:79867402C>T	uc002kcf.1	-	2	229	c.166G>A	c.(166-168)GTG>ATG	p.V56M	PCYT2_uc010wva.1_Missense_Mutation_p.V24M|PCYT2_uc010wvb.1_Missense_Mutation_p.V24M|PCYT2_uc002kce.1_Translation_Start_Site|PCYT2_uc002kcg.1_Missense_Mutation_p.V67M|PCYT2_uc002kch.1_Missense_Mutation_p.V56M|PCYT2_uc002kci.1_Translation_Start_Site|PCYT2_uc010dii.1_Missense_Mutation_p.V56M|PCYT2_uc010wvc.1_Translation_Start_Site	NM_002861	NP_002852	Q99447	PCY2_HUMAN	phosphate cytidylyltransferase 2, ethanolamine	56	Catalytic 1 (Potential).				phospholipid biosynthetic process		ethanolamine-phosphate cytidylyltransferase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			TCGGTGTGCACGCCTACGATG	0.637													16	67					0	0	1	0	0		T	79867402	T	T	79867402	3	4	151	1	0	0	0	0	1	0	0	0	11631	536	19	1	1109	1	PCYT2	17	79867402	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2701	79867402	1327808	3868	81033											
ASPSCR1	79058	broad.mit.edu	37	chr17	79968697	79968697	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtggctctgagggtcctgtTccccgaccgctacgtcctac	4	10	12	15	3	1	1	0	1	1	0	4	2	4	1	5	3	2	3	5	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:79968697T>C	uc002kcx.2	+	10	1287	c.1190T>C	c.(1189-1191)TTC>TCC	p.F397S	ASPSCR1_uc002kcw.1_Missense_Mutation_p.F397S|ASPSCR1_uc002kcy.2_Missense_Mutation_p.F397S|ASPSCR1_uc002kcz.2_Missense_Mutation_p.F291S|ASPSCR1_uc002kda.2_Missense_Mutation_p.F320S	NM_024083	NP_076988	Q9BZE9	ASPC1_HUMAN	alveolar soft part sarcoma chromosome region,	397	UBX.						protein binding		ASPSCR1/TFE3(161)	soft_tissue(118)|kidney(43)|breast(1)	162	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			AGGGTCCTGTTCCCCGACCGC	0.701			T	TFE3	alveolar soft part sarcoma								17	78					0	0	1	0	0		C	79968697	C	C	79968697	3	2	151	1	0	0	0	0	1	0	0	0	1060	1783	62	3	1228	3	ASPSCR1	17	79968697	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	101295	79968697	1226513	3869	81034											
CCDC57	284001	broad.mit.edu	37	chr17	80159721	80159721	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgtgtgtcctgcagagccgCctcctgcagctgggtgcggt	3	9	15	14	3	0	1	0	0	0	1	2	1	2	1	5	2	5	3	5	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:80159721C>T	uc002kdz.1	-	3	455	c.100G>A	c.(100-102)GCG>ACG	p.A34T	CCDC57_uc002kdx.1_Missense_Mutation_p.A34T	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	34	Potential.									ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			TGCAGAGCCGCCTCCTGCAGC	0.657													7	28					0	0	1	0	0		T	80159721	T	T	80159721	3	4	151	1	0	0	0	0	1	0	0	0	2830	739	26	2	2711	2	CCDC57	17	80159721	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	191024	80159721	1035489	3870	81035											
CD7	924	broad.mit.edu	37	chr17	80274701	80274701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccccggaaccgtctgtccGtagtgggcaccaccccgtcc	5	6	12	18	4	1	0	0	0	1	0	3	1	3	1	8	3	1	2	8	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:80274701G>A	uc002kel.1	-	2	348	c.239C>T	c.(238-240)ACG>ATG	p.T80M	CD7_uc010din.2_Missense_Mutation_p.T80M|CD7_uc002kem.2_Silent_p.Y61Y|CD7_uc010wvk.1_Missense_Mutation_p.T80M	NM_006137	NP_006128	P09564	CD7_HUMAN	CD7 antigen precursor	80	Ig-like.|Extracellular (Probable).				immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|membrane fraction|plasma membrane	receptor activity				0	Breast(20;0.000675)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.249)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0667)			CCGTCTGTCCGTAGTGGGCAC	0.637													20	89					0	0	1	0	0		A	80274701	A	A	80274701	3	1	151	1	0	0	0	0	1	0	0	0	3035	1145	40	1	495	1	CD7	17	80274701	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	114980	80274701	920509	3871	81036											
C17orf62	79415	broad.mit.edu	37	chr17	80402337	80402337	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttacctgcggtggcccatGactgcactctgcgtgagggg	5	9	14	13	2	1	2	0	2	1	0	1	2	1	2	3	4	4	1	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:80402337G>A	uc002kez.2	-	5	477	c.429C>T	c.(427-429)GTC>GTT	p.V143V	C17orf62_uc002kex.2_5'UTR|C17orf62_uc002key.2_5'UTR|C17orf62_uc002kfa.2_Silent_p.V143V|C17orf62_uc010dir.2_Silent_p.V143V|C17orf62_uc002kfb.3_Silent_p.V143V|C17orf62_uc002kfc.3_Silent_p.V129V|C17orf62_uc002kfd.3_5'UTR|C17orf62_uc002kfe.3_5'UTR	NM_001100407	NP_001093877	Q9BQA9	CQ062_HUMAN	hypothetical protein LOC79415 isoform a	143						integral to membrane	protein binding				0	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			GGTGGCCCATGACTGCACTCT	0.632													12	41					0	0	1	0	0		A	80402337	A	A	80402337	2	1	151	1	0	0	0	0	0	0	0	1	1873	1277	45	4		4	C17orf62	17	80402337	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	127636	80402337	792873	3872	81037											
B3GNTL1	146712	broad.mit.edu	37	chr17	80915107	80915107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctgatcttgttctcgtccaCgtcacagaatgccaccacct	8	11	6	16	2	3	2	1	1	2	1	5	2	4	2	5	0	1	1	5	0	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr17:80915107C>T	uc002kgg.1	-	10	894	c.880G>A	c.(880-882)GTG>ATG	p.V294M	B3GNTL1_uc002kgf.1_Missense_Mutation_p.V183M|B3GNTL1_uc002kge.1_RNA	NM_001009905	NP_001009905	Q67FW5	B3GNL_HUMAN	UDP-GlcNAc:betaGal	294							transferase activity, transferring glycosyl groups			ovary(1)|pancreas(1)	2	Breast(20;0.000443)|all_neural(118;0.0779)	all_cancers(8;0.0396)|all_epithelial(8;0.0556)	BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			TTCTCGTCCACGTCACAGAAT	0.637													16	133					0	0	1	0	0		T	80915107	T	T	80915107	3	4	151	1	0	0	0	0	1	0	0	0	1266	536	19	1	217	1	B3GNTL1	17	80915107	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	512770	80915107	280103	3873	81038											
CETN1	1068	broad.mit.edu	37	chr18	580755	580755	+	Missense_Mutation	SNP	A	G	G	1	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	cttcaggctctttgatgacgAtgagaccgggaagatctcgt	9	11	12	9	3	3	4	1	3	2	2	4	7	3	5	1	2	0	1	1	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:580755A>G	uc002kko.1	+	1	389	c.347A>G	c.(346-348)GAT>GGT	p.D116G		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	116	EF-hand 3.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						TTTGATGACGATGAGACCGGG	0.522													21	83					0	0	1	0	0		G	580755	G	G	580755	3	3	151	1	0	0	0	0	1	0	0	0	3277	333	12	3	349	3	CETN1	18	580755	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08		580755	77496493	3874	81039											
CLUL1	27098	broad.mit.edu	37	chr18	633332	633332	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctgatttcaaagatgttAcctgggcaggacagaggact	11	9	13	8	0	1	3	1	1	0	2	1	5	1	5	2	4	1	2	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:633332A>G	uc002kkp.2	+	6	1036	c.891A>G	c.(889-891)TTA>TTG	p.L297L	CLUL1_uc010wys.1_Silent_p.L349L|CLUL1_uc002kkq.2_Silent_p.L297L	NM_014410	NP_055225	Q15846	CLUL1_HUMAN	clusterin-like 1 (retinal) precursor	297					cell death	extracellular region				ovary(2)	2						CAAAGATGTTACCTGGGCAGG	0.428													17	61					0	0	1	0	0		G	633332	G	G	633332	2	3	151	1	0	0	0	0	0	0	0	1	3573	388	14	3		3	CLUL1	18	633332	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	52577	633332	77443916	3875	81040											
YES1	7525	broad.mit.edu	37	chr18	745763	745763	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgtgctctggttgtgatAtagtatccaccattgtcaag	10	15	9	7	0	2	1	1	1	1	0	3	1	3	1	2	1	1	3	2	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:745763A>T	uc002kky.2	-	6	890	c.669T>A	c.(667-669)TAT>TAA	p.Y223*	YES1_uc002kkz.2_Nonsense_Mutation_p.Y223*	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	223	SH2.				blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	TGGTTGTGATATAGTATCCAC	0.358													52	221					0	0	1	0	0		T	745763	T	T	745763	4	4	151	1	0	0	0	0	0	1	0	0	17500	456	16	5	990	5	YES1	18	745763	Nonsense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	112431	745763	77331485	3876	81041											
METTL4	64863	broad.mit.edu	37	chr18	2544269	2544269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggtctggaatggggagcaCgtttacatctgcattcctaa	9	12	12	8	1	2	0	0	0	2	0	3	2	3	2	1	4	3	3	1	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:2544269C>T	uc002klh.3	-	8	1978	c.1198G>A	c.(1198-1200)GTG>ATG	p.V400M	METTL4_uc010dkj.2_Intron	NM_022840	NP_073751	Q8N3J2	METL4_HUMAN	methyltransferase like 4	400					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		methyltransferase activity|nucleic acid binding			kidney(1)|skin(1)	2						ATGGGGAGCACGTTTACATCT	0.348													19	58					0	0	1	0	0		T	2544269	T	T	2544269	3	4	151	1	0	0	0	0	1	0	0	0	9520	536	19	1	228	1	METTL4	18	2544269	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1798506	2544269	75532979	3877	81042											
NDC80	10403	broad.mit.edu	37	chr18	2575051	2575051	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatctgaaagaaaagtctcGctatttggcaaaaggtaatt	16	11	8	6	1	2	2	0	1	2	1	3	2	2	2	0	2	0	3	0	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:2575051G>A	uc002kli.2	+	3	347	c.165G>A	c.(163-165)TCG>TCA	p.S55S		NM_006101	NP_006092	O14777	NDC80_HUMAN	kinetochore associated 2	55	Interaction with the N-terminus of CDCA1.|Nuclear localization.				attachment of spindle microtubules to kinetochore|cell division|establishment of mitotic spindle orientation|mitotic prometaphase|mitotic sister chromatid segregation|mitotic spindle organization|phosphatidylinositol-mediated signaling	condensed nuclear chromosome outer kinetochore|cytosol|Ndc80 complex	protein binding			ovary(1)	1						GAAAAGTCTCGCTATTTGGCA	0.308													13	41					0	0	1	0	0		A	2575051	A	A	2575051	2	1	151	1	0	0	0	0	0	0	0	1	10261	1074	38	1		1	NDC80	18	2575051	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	30782	2575051	75502197	3878	81043											
SMCHD1	23347	broad.mit.edu	37	chr18	2703788	2703788	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacactttttaagggagtAattacacgtcctgatcttcc	10	16	6	9	1	1	1	0	1	1	0	3	2	3	2	2	1	2	1	2	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:2703788A>G	uc002klm.3	+	13	1935	c.1746A>G	c.(1744-1746)GTA>GTG	p.V582V	SMCHD1_uc002klk.3_RNA|SMCHD1_uc002kll.3_5'Flank	NM_015295	NP_056110	A6NHR9	SMHD1_HUMAN	structural maintenance of chromosomes flexible	582					chromosome organization		ATP binding				0						TTAAGGGAGTAATTACACGTC	0.388													3	70					0	0	1	0	0		G	2703788	G	G	2703788	2	3	151	1	0	0	0	0	0	0	0	1	14813	349	13	3		3	SMCHD1	18	2703788	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	128737	2703788	75373460	3879	81044											
LPIN2	9663	broad.mit.edu	37	chr18	2921586	2921586	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttagacggggcaaacagaTtcttgatatcatttagacac	13	11	9	8	1	2	4	1	1	1	3	2	4	2	4	0	2	1	2	0	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:2921586T>C	uc002klo.2	-	18	2626	c.2387A>G	c.(2386-2388)AAT>AGT	p.N796S		NM_014646	NP_055461	Q92539	LPIN2_HUMAN	lipin 2	796	C-LIP.				fatty acid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|triglyceride biosynthetic process	cytosol|endoplasmic reticulum membrane|nucleus	phosphatidate phosphatase activity|transcription coactivator activity			ovary(1)|skin(1)	2				READ - Rectum adenocarcinoma(2;0.0419)|Colorectal(6;0.156)		GGCAAACAGATTCTTGATATC	0.398													28	118					0	0	1	0	0		C	2921586	C	C	2921586	3	2	151	1	0	0	0	0	1	0	0	0	8937	1493	52	3	315	3	LPIN2	18	2921586	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	217798	2921586	75155662	3880	81045											
MYOM1	8736	broad.mit.edu	37	chr18	3100193	3100193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggctgagagcaagtaaacGtttcaattctgtagggggaa	13	10	13	5	1	2	1	1	1	1	1	2	3	2	2	0	3	2	5	0	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:3100193G>A	uc002klp.2	-	25	4025	c.3691C>T	c.(3691-3693)CGT>TGT	p.R1231C	MYOM1_uc002klq.2_Missense_Mutation_p.R1135C	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	1231						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GCAAGTAAACGTTTCAATTCT	0.368													19	106					0	0	1	0	0		A	3100193	A	A	3100193	3	1	151	1	0	0	0	0	1	0	0	0	10109	1145	40	1	1422	1	MYOM1	18	3100193	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	178607	3100193	74977055	3881	81046											
ARHGAP28	79822	broad.mit.edu	37	chr18	6909002	6909002	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agattcagaaccaaaggttaTatgaaattggaggaaatata	19	10	9	3	0	1	3	1	1	0	2	1	5	1	5	1	3	1	1	1	3	8	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:6909002T>C	uc010wzi.1	+	16	1781	c.1543T>C	c.(1543-1545)TAT>CAT	p.Y515H	ARHGAP28_uc002kne.2_Missense_Mutation_p.Y533H			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	515					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				CCAAAGGTTATATGAAATTGG	0.269													22	82					0	0	1	0	0		C	6909002	C	C	6909002	3	2	151	1	0	0	0	0	1	0	0	0	877	1406	49	3	1798	3	ARHGAP28	18	6909002	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3808809	6909002	71168246	3882	81047											
LAMA1	284217	broad.mit.edu	37	chr18	7014024	7014024	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatcgcaccgatgatgagtCgaccccacgagactgcaatt	12	7	9	13	4	0	3	0	2	0	1	2	6	0	3	3	0	1	2	3	0	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:7014024C>T	uc002knm.2	-	23	3247	c.3153G>A	c.(3151-3153)TCG>TCA	p.S1051S	LAMA1_uc010wzj.1_Silent_p.S527S	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1051	Laminin EGF-like 12.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GATGATGAGTCGACCCCACGA	0.483													3	17					0	0	1	0	0		T	7014024	T	T	7014024	2	4	151	1	0	0	0	0	0	0	0	1	8621	871	31	1		1	LAMA1	18	7014024	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	105022	7014024	71063224	3883	81048											
KIAA0802	23255	broad.mit.edu	37	chr18	8784591	8784591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcgcccttaccggggcctgGcctccagggcgaagaggagc	6	5	16	14	3	0	1	0	0	0	1	1	3	1	2	5	5	3	0	5	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:8784591G>A	uc002knr.2	+	6	1623	c.1481G>A	c.(1480-1482)GGC>GAC	p.G494D	KIAA0802_uc002knq.2_Missense_Mutation_p.G494D|KIAA0802_uc010dkw.1_Missense_Mutation_p.G332D	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	845											0						CCGGGGCCTGGCCTCCAGGGC	0.667													10	58					0	0	1	0	0		A	8784591	A	A	8784591	3	1	151	1	0	0	0	0	1	0	0	0	8210	1203	42	2	1495	2	KIAA0802	18	8784591	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1770567	8784591	69292657	3884	81049											
SEH1L	81929	broad.mit.edu	37	chr18	12982630	12982630	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttggaatataacaggaacggTgctagcatcttcaggagatg	13	10	12	6	1	2	1	1	0	1	1	2	4	2	3	0	4	4	2	0	4	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:12982630T>C	uc002krr.2	+	7	1013	c.875T>C	c.(874-876)GTG>GCG	p.V292A	SEH1L_uc002krq.2_Missense_Mutation_p.V292A	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	292	WD 6.				attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|carbohydrate metabolic process|cell division|glucose transport|mitotic metaphase plate congression|mitotic prometaphase|mRNA transport|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex					0						ACAGGAACGGTGCTAGCATCT	0.413													38	202					0	0	1	0	0		C	12982630	C	C	12982630	3	2	151	1	0	0	0	0	1	0	0	0	14034	1696	59	3	901	3	SEH1L	18	12982630	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4198039	12982630	65094618	3885	81050											
CEP192	55125	broad.mit.edu	37	chr18	13117599	13117599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tccagctgaagtttttgagtCccagagagccattctatgtc	9	13	9	10	0	1	3	0	2	1	1	4	4	3	3	3	0	2	2	3	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:13117599C>T	uc010xac.1	+	44	7512	c.7432C>T	c.(7432-7434)CCC>TCC	p.P2478S	CEP192_uc010xad.1_Missense_Mutation_p.P2003S|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Missense_Mutation_p.P901S|CEP192_uc002krw.2_Missense_Mutation_p.P628S|CEP192_uc002krx.2_Missense_Mutation_p.P482S|CEP192_uc002kry.2_RNA	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2478										ovary(4)|pancreas(1)	5						GTTTTTGAGTCCCAGAGAGCC	0.348													23	134					0	0	1	0	0		T	13117599	T	T	13117599	3	4	151	1	0	0	0	0	1	0	0	0	3254	855	30	4	7602	4	CEP192	18	13117599	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	134969	13117599	64959649	3886	81051											
C18orf19	125228	broad.mit.edu	37	chr18	13682058	13682058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagtcgagatacagtccGtggtacattccattgcattt	9	13	9	10	2	0	1	0	0	0	1	3	2	2	1	3	1	4	2	3	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:13682058G>A	uc010dlh.2	-	3	451	c.19C>T	c.(19-21)CGG>TGG	p.R7W	C18orf19_uc010dlg.2_Missense_Mutation_p.R7W|C18orf19_uc010dli.2_Missense_Mutation_p.R7W|C18orf19_uc002ksj.3_Missense_Mutation_p.R7W|C18orf19_uc010dlj.2_Intron	NM_001098801	NP_001092271	Q96ND0	CR019_HUMAN	hypothetical protein LOC125228	7						integral to membrane				breast(2)	2						GATACAGTCCGTGGTACATTC	0.368													36	172					0	0	1	0	0		A	13682058	A	A	13682058	3	1	151	1	0	0	0	0	1	0	0	0	1899	1144	40	1	811	1	C18orf19	18	13682058	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	564459	13682058	64395190	3887	81052											
RNMT	8731	broad.mit.edu	37	chr18	13731863	13731863	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaggatgttccaaaagataAatcttctactggagatggca	14	11	10	6	0	2	3	0	1	2	2	3	5	3	4	1	3	1	2	1	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:13731863A>G	uc002ksk.1	+	2	414	c.347A>G	c.(346-348)AAA>AGA	p.K116R	RNMT_uc002ksl.1_Missense_Mutation_p.K116R|RNMT_uc002ksm.1_Missense_Mutation_p.K116R|RNMT_uc010dlk.2_Missense_Mutation_p.K116R|RNMT_uc010xae.1_Intron	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	116					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						CCAAAAGATAAATCTTCTACT	0.343													37	129					0	0	1	0	0		G	13731863	G	G	13731863	3	3	151	1	0	0	0	0	1	0	0	0	13531	14	1	3	349	3	RNMT	18	13731863	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	49805	13731863	64345385	3888	81053											
MC5R	4161	broad.mit.edu	37	chr18	13826335	13826335	+	Missense_Mutation	SNP	A	G	G	1	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	cctacgtcatcctgtgcctcAtctccatgttcttcgctatg	5	15	6	15	2	4	0	2	0	2	0	7	0	5	0	4	0	2	2	4	0	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:13826335A>G	uc010xaf.1	+	1	571	c.571A>G	c.(571-573)ATC>GTC	p.I191V		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	191	Helical; Name=5; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						CCTGTGCCTCATCTCCATGTT	0.587													143	683					0	0	1	0	0		G	13826335	G	G	13826335	3	3	151	1	0	0	0	0	1	0	0	0	9385	217	8	3	573	3	MC5R	18	13826335	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	94472	13826335	64250913	3889	81054											
ABHD3	171586	broad.mit.edu	37	chr18	19283615	19283615	+	Missense_Mutation	SNP	A	G	G	1	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	ctgtcctcgaccctcccagcAccagaccgtcgggtagtacg	7	7	10	17	4	0	1	0	0	0	1	4	2	2	1	5	1	2	3	5	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:19283615A>G	uc002ktl.2	-	2	396	c.256T>C	c.(256-258)TGC>CGC	p.C86R	ABHD3_uc002ktm.2_Missense_Mutation_p.C86R|ABHD3_uc010xao.1_RNA|MIB1_uc002ktp.2_5'Flank|ABHD3_uc002kto.2_Missense_Mutation_p.C86R	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein	86						integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						CCCTCCCAGCACCAGACCGTC	0.532													15	100					0	0	1	0	0		G	19283615	G	G	19283615	3	3	151	1	0	0	0	0	1	0	0	0	83	159	6	3	1005	3	ABHD3	18	19283615	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5457280	19283615	58793633	3890	81055											
MIB1	57534	broad.mit.edu	37	chr18	19418353	19418353	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgttttactatctaaattAccaagaccatggattgtgga	12	14	8	7	1	1	1	0	0	1	1	1	3	1	3	2	2	2	1	2	2	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:19418353A>G	uc002ktq.2	+	13	1857	c.1857A>G	c.(1855-1857)TTA>TTG	p.L619L	MIB1_uc002ktp.2_Silent_p.L258L	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	619	ANK 6.				Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			TATCTAAATTACCAAGACCAT	0.338													23	81					0	0	1	0	0		G	19418353	G	G	19418353	2	3	151	1	0	0	0	0	0	0	0	1	9584	388	14	3		3	MIB1	18	19418353	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	134738	19418353	58658895	3891	81056											
GATA6	2627	broad.mit.edu	37	chr18	19762729	19762729	+	Silent	SNP	A	G	G	1	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	attttttaggtgcccagaccActtgctatgaaaaaagaggg	13	11	10	7	0	0	3	0	1	0	2	0	3	0	3	2	2	2	1	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:19762729A>G	uc002ktt.1	+	5	1705	c.1440A>G	c.(1438-1440)CCA>CCG	p.P480P	GATA6_uc002ktu.1_Silent_p.P480P	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	480					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			TGCCCAGACCACTTGCTATGA	0.318													9	48					0	0	1	0	0		G	19762729	G	G	19762729	2	3	151	1	0	0	0	0	0	0	0	1	6273	146	6	3		3	GATA6	18	19762729	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	344376	19762729	58314519	3892	81057											
CTAGE1	64693	broad.mit.edu	37	chr18	19996570	19996570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagatctttggctcgctttCggtaggtctccagctcttca	6	15	9	11	2	4	1	1	0	3	1	7	1	4	1	1	3	1	4	1	3	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:19996570C>T	uc002ktv.1	-	1	1309	c.1205G>A	c.(1204-1206)CGA>CAA	p.R402Q		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	402	Potential.					integral to membrane				ovary(1)	1	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)					GGCTCGCTTTCGGTAGGTCTC	0.358													33	120					0	0	1	0	0		T	19996570	T	T	19996570	3	4	151	1	0	0	0	0	1	0	0	0	3995	884	31	1	1036	1	CTAGE1	18	19996570	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	233841	19996570	58080678	3893	81058											
C18orf45	85019	broad.mit.edu	37	chr18	20889670	20889670	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggttgcactggtcaggatCgcatcaaacagcaatattga	12	10	11	8	1	2	1	2	1	0	0	3	2	2	2	0	3	3	4	0	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:20889670C>T	uc002kuf.2	-	14	913	c.804G>A	c.(802-804)GCG>GCA	p.A268A	C18orf45_uc010xaq.1_RNA|C18orf45_uc010xar.1_RNA|C18orf45_uc002kug.2_RNA|C18orf45_uc002kuh.2_RNA|C18orf45_uc002kue.2_RNA	NM_032933	NP_116322	Q24JQ0	CR045_HUMAN	hypothetical protein LOC85019	268	Helical; (Potential).					integral to membrane					0	all_cancers(21;0.000238)|all_epithelial(16;5.29e-06)|Lung NSC(20;0.00925)|Colorectal(14;0.0202)|all_lung(20;0.0255)|Ovarian(20;0.127)					TGGTCAGGATCGCATCAAACA	0.408													34	109					0	0	1	0	0		T	20889670	T	T	20889670	2	4	151	1	0	0	0	0	0	0	0	1	1906	871	31	1		1	C18orf45	18	20889670	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	893100	20889670	57187578	3894	81059											
RIOK3	8780	broad.mit.edu	37	chr18	21044566	21044566	+	Missense_Mutation	SNP	A	G	G	1	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	atgatgaagtagtatgtgggAgaaagaacacagcaagaatg	18	7	13	3	0	0	5	0	2	0	3	0	6	0	5	0	1	2	3	0	1	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21044566A>G	uc002kui.3	+	5	1134	c.517A>G	c.(517-519)AGA>GGA	p.R173G	RIOK3_uc010dls.2_Missense_Mutation_p.R173G|RIOK3_uc010xas.1_Missense_Mutation_p.R157G|RIOK3_uc010xat.1_5'Flank	NM_003831	NP_003822	O14730	RIOK3_HUMAN	sudD suppressor of bimD6 homolog	173					chromosome segregation		ATP binding|protein binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(21;0.000106)|all_epithelial(16;6.74e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AGTATGTGGGAGAAAGAACAC	0.338													24	76					0	0	1	0	0		G	21044566	G	G	21044566	3	3	151	1	0	0	0	0	1	0	0	0	13404	296	11	3	535	3	RIOK3	18	21044566	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	154896	21044566	57032682	3895	81060											
NPC1	4864	broad.mit.edu	37	chr18	21123433	21123433	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattacctaagaaaaatgctAcagtctcagaaaaggatgac	19	8	7	7	0	1	3	1	1	1	2	2	4	1	4	1	1	3	1	1	1	8	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21123433A>G	uc002kum.3	-	14	2505	c.2231T>C	c.(2230-2232)GTA>GCA	p.V744A	NPC1_uc010xaz.1_Missense_Mutation_p.V477A|NPC1_uc010xba.1_Missense_Mutation_p.V589A	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	744	SSD.				autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GAAAAATGCTACAGTCTCAGA	0.488													32	109					0	0	1	0	0		G	21123433	G	G	21123433	3	3	151	1	0	0	0	0	1	0	0	0	10589	391	14	3	1653	3	NPC1	18	21123433	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	78867	21123433	56953815	3896	81061											
NPC1	4864	broad.mit.edu	37	chr18	21128008	21128008	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctctggagcttctctgtAtcattatagtaattattgac	9	16	7	9	0	3	1	1	1	2	0	4	2	3	2	1	1	1	3	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21128008A>G	uc002kum.3	-	11	1993	c.1719T>C	c.(1717-1719)GAT>GAC	p.D573D	NPC1_uc010xaz.1_Intron|NPC1_uc010xba.1_Silent_p.D418D	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	573					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					GCTTCTCTGTATCATTATAGT	0.448													68	314					0	0	1	0	0		G	21128008	G	G	21128008	2	3	151	1	0	0	0	0	0	0	0	1	10589	446	16	3		3	NPC1	18	21128008	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4575	21128008	56949240	3897	81062											
NPC1	4864	broad.mit.edu	37	chr18	21136572	21136572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacagggtcacagcaggacgCctctcctggaagaacgggag	11	4	15	11	2	2	1	1	0	1	1	3	5	2	4	2	4	2	1	2	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21136572C>T	uc002kum.3	-	8	1235	c.961G>A	c.(961-963)GCG>ACG	p.A321T	NPC1_uc010xaz.1_Missense_Mutation_p.A122T|NPC1_uc010xba.1_Missense_Mutation_p.A166T	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	321					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					CAGCAGGACGCCTCTCCTGGA	0.567													3	26					0	0	1	0	0		T	21136572	T	T	21136572	3	4	151	1	0	0	0	0	1	0	0	0	10589	739	26	2	2947	2	NPC1	18	21136572	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8564	21136572	56940676	3898	81063											
NPC1	4864	broad.mit.edu	37	chr18	21140278	21140278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatgatgacatacatggcGtccaagccaaggatcgtcca	13	7	9	12	2	0	2	0	2	0	0	3	3	2	3	3	2	2	0	3	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21140278G>A	uc002kum.3	-	6	1072	c.798C>T	c.(796-798)GAC>GAT	p.D266D	NPC1_uc010xaz.1_Silent_p.D50D|NPC1_uc010xba.1_Silent_p.D111D	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	266					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					CATACATGGCGTCCAAGCCAA	0.517													13	73					0	0	1	0	0		A	21140278	A	A	21140278	2	1	151	1	0	0	0	0	0	0	0	1	10589	1136	40	1		1	NPC1	18	21140278	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3706	21140278	56936970	3899	81064											
NPC1	4864	broad.mit.edu	37	chr18	21141338	21141338	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acctacctgaaaacacaggaGtgatggtaaaaggtgcctgt	14	8	11	8	0	0	2	0	2	0	0	0	3	0	3	3	3	3	1	3	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21141338G>A	uc002kum.3	-	5	891	c.617C>T	c.(616-618)ACT>ATT	p.T206I	NPC1_uc010xaz.1_5'Flank|NPC1_uc010xba.1_Missense_Mutation_p.T51I	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	206					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					AAACACAGGAGTGATGGTAAA	0.373													61	249					0	0	1	0	0		A	21141338	A	A	21141338	3	1	151	1	0	0	0	0	1	0	0	0	10589	1029	36	4	3303	4	NPC1	18	21141338	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1060	21141338	56935910	3900	81065											
LAMA3	3909	broad.mit.edu	37	chr18	21494727	21494727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagtaaaccagaaacacccgGagtctatgacatggatggta	15	7	10	9	1	1	2	0	1	1	1	1	4	1	4	2	3	2	2	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21494727G>A	uc002kuq.2	+	58	7633	c.7547G>A	c.(7546-7548)GGA>GAA	p.G2516E	LAMA3_uc002kur.2_Missense_Mutation_p.G2460E|LAMA3_uc002kus.3_Missense_Mutation_p.G907E|LAMA3_uc002kut.3_Missense_Mutation_p.G851E	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	2516	Laminin G-like 1.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAAACACCCGGAGTCTATGAC	0.338													16	78					0	0	1	0	0		A	21494727	A	A	21494727	3	1	151	1	0	0	0	0	1	0	0	0	8623	1174	41	4	7952	4	LAMA3	18	21494727	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	353389	21494727	56582521	3901	81066											
LAMA3	3909	broad.mit.edu	37	chr18	21523805	21523805	+	Missense_Mutation	SNP	A	G	G	1	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	ctccagaggactggtgtttcAcacgggcactaagaactcct	10	9	10	12	1	1	2	1	0	0	2	3	3	3	3	2	3	1	2	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:21523805A>G	uc002kuq.2	+	69	9166	c.9080A>G	c.(9079-9081)CAC>CGC	p.H3027R	LAMA3_uc002kur.2_Missense_Mutation_p.H2971R|LAMA3_uc002kus.3_Missense_Mutation_p.H1418R|LAMA3_uc002kut.3_Missense_Mutation_p.H1362R	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	3027	Laminin G-like 4.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTGGTGTTTCACACGGGCACT	0.473													4	146					0	0	1	0	0		G	21523805	G	G	21523805	3	3	151	1	0	0	0	0	1	0	0	0	8623	159	6	3	9529	3	LAMA3	18	21523805	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	29078	21523805	56553443	3902	81067											
ZNF521	25925	broad.mit.edu	37	chr18	22804898	22804898	+	Missense_Mutation	SNP	A	G	G	1	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	cctcttcactctggagaggcAtcttgcaaatccggcagttt	8	12	9	12	1	4	1	1	0	3	1	5	2	5	1	2	3	1	4	2	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:22804898A>G	uc002kvk.2	-	4	3231	c.2984T>C	c.(2983-2985)ATG>ACG	p.M995T	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.M995T|ZNF521_uc002kvl.2_Missense_Mutation_p.M775T	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	995					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CTGGAGAGGCATCTTGCAAAT	0.483			T	PAX5	ALL								23	99					0	0	1	0	0		G	22804898	G	G	22804898	3	3	151	1	0	0	0	0	1	0	0	0	17990	217	8	3	971	3	ZNF521	18	22804898	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1281093	22804898	55272350	3903	81068											
SS18	6760	broad.mit.edu	37	chr18	23614972	23614972	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgtacaaagctttaccgtAgccctgctgctgtcctgggt	7	12	10	12	1	0	0	0	0	0	0	1	0	1	0	3	1	6	5	3	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:23614972A>G	uc002kvm.2	-	9	1171	c.1093T>C	c.(1093-1095)TAC>CAC	p.Y365H	SS18_uc002kvn.2_Missense_Mutation_p.Y334H|SS18_uc010xbf.1_Missense_Mutation_p.Y283H|SS18_uc010xbg.1_Missense_Mutation_p.Y282H|SS18_uc010xbh.1_Missense_Mutation_p.Y282H|SS18_uc010xbi.1_Missense_Mutation_p.Y342H|SS18_uc010dlz.1_Missense_Mutation_p.Y313H	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	365	2.|Gln-rich.|2 X 13 AA imperfect tandem repeats.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					GCTTTACCGTAGCCCTGCTGC	0.423			T	SSX1| SSX2	synovial sarcoma								20	132					0	0	1	0	0		G	23614972	G	G	23614972	3	3	151	1	0	0	0	0	1	0	0	0	15200	420	15	3	175	3	SS18	18	23614972	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	810074	23614972	54462276	3904	81069											
PSMA8	143471	broad.mit.edu	37	chr18	23731934	23731934	+	Silent	SNP	A	G	G	1	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	tacataactcgcttcatagcAactttaaagcaggtaagcta	15	11	6	9	1	1	0	1	0	0	0	2	0	1	0	0	1	6	5	0	1	8	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:23731934A>G	uc002kvq.2	+	3	474	c.360A>G	c.(358-360)GCA>GCG	p.A120A	PSMA8_uc002kvo.2_Silent_p.A76A|PSMA8_uc002kvp.2_Silent_p.A114A|PSMA8_uc002kvr.2_Silent_p.A88A	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	120					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			GCTTCATAGCAACTTTAAAGC	0.388													23	102					0	0	1	0	0		G	23731934	G	G	23731934	2	3	151	1	0	0	0	0	0	0	0	1	12695	117	5	3		3	PSMA8	18	23731934	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	116962	23731934	54345314	3905	81070											
PSMA8	143471	broad.mit.edu	37	chr18	23758901	23758901	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctatcaagttagcaataaaAgctttgctagaagtaagtga	16	11	9	5	0	1	2	1	1	0	1	1	2	1	2	0	0	3	6	0	0	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:23758901A>G	uc002kvq.2	+	5	717	c.603A>G	c.(601-603)AAA>AAG	p.K201K	PSMA8_uc002kvo.2_Silent_p.K157K|PSMA8_uc002kvp.2_Silent_p.K195K|PSMA8_uc002kvr.2_Silent_p.K169K	NM_144662	NP_653263	Q8TAA3	PSA7L_HUMAN	proteasome alpha 8 subunit isoform 1	201					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	threonine-type endopeptidase activity			skin(1)	1	all_cancers(21;0.000585)|Lung NSC(5;0.00148)|all_lung(6;0.0038)|Ovarian(20;0.124)		OV - Ovarian serous cystadenocarcinoma(3;0.000324)|all cancers(3;0.000954)|LUSC - Lung squamous cell carcinoma(2;0.181)			TAGCAATAAAAGCTTTGCTAG	0.318													25	81					0	0	1	0	0		G	23758901	G	G	23758901	2	3	151	1	0	0	0	0	0	0	0	1	12695	69	3	3		3	PSMA8	18	23758901	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	26967	23758901	54318347	3906	81071											
CHST9	83539	broad.mit.edu	37	chr18	24722666	24722666	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttacctgtatgttgttcTtcaatccagacttgcaaata	10	16	7	8	0	2	1	1	0	1	1	3	1	3	1	2	0	2	5	2	0	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:24722666T>C	uc002kwd.2	-	1	306	c.108A>G	c.(106-108)GAA>GAG	p.E36E	C18orf16_uc010xbm.1_Intron|CHST9_uc002kwe.2_Silent_p.E36E	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	36	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TATGTTGTTCTTCAATCCAGA	0.328													25	91					0	0	1	0	0		C	24722666	C	C	24722666	2	2	151	1	0	0	0	0	0	0	0	1	3414	1606	56	3		3	CHST9	18	24722666	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	963765	24722666	53354582	3907	81072											
DSC3	1825	broad.mit.edu	37	chr18	28602467	28602467	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaccacccccactgtagtAcctacacattaaaaaataaa	19	7	2	13	0	0	0	0	0	0	0	0	0	0	0	4	0	3	2	4	0	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:28602467A>G	uc002kwj.3	-	7	932	c.777T>C	c.(775-777)GGT>GGC	p.G259G	DSC3_uc002kwi.3_Silent_p.G259G	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	259	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			CCACTGTAGTACCTACACATT	0.373													16	73					0	0	1	0	0		G	28602467	G	G	28602467	2	3	151	1	0	0	0	0	0	0	0	1	4773	405	14	3		3	DSC3	18	28602467	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3879801	28602467	49474781	3908	81073											
MCART2	147407	broad.mit.edu	37	chr18	29340185	29340185	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttgtcatgatgcttgtggTtttgaagcaatgtctgaact	9	17	10	5	0	2	3	1	3	1	0	2	3	2	3	0	1	3	3	0	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:29340185T>C	uc002kxa.2	-	1	659	c.440A>G	c.(439-441)AAC>AGC	p.N147S		NM_001034172	NP_001029344	Q3SY17	MCAR2_HUMAN	mitochondrial carrier triple repeat 2	147	Solcar 2.				transport	integral to membrane|mitochondrial inner membrane				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.0539)			ATGCTTGTGGTTTTGAAGCAA	0.468													5	253					0	0	1	0	0		C	29340185	C	C	29340185	3	2	151	1	0	0	0	0	1	0	0	0	9388	1725	60	3	457	3	MCART2	18	29340185	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	737718	29340185	48737063	3909	81074											
FAM59A	64762	broad.mit.edu	37	chr18	29867755	29867755	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gttcacaaacttatagcggtGcccctcacggatgaagtgga	11	9	11	10	2	2	1	2	1	0	0	2	3	2	3	2	3	3	1	2	3	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:29867755G>A	uc002kxl.2	-	4	861	c.805C>T	c.(805-807)CAC>TAC	p.H269Y	FAM59A_uc002kxk.1_Missense_Mutation_p.H269Y	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	269	CABIT.									ovary(1)|skin(1)	2						TTATAGCGGTGCCCCTCACGG	0.527													26	128					0	0	1	0	0		A	29867755	A	A	29867755	3	1	151	1	0	0	0	0	1	0	0	0	5606	1319	46	2	1834	2	FAM59A	18	29867755	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	527570	29867755	48209493	3910	81075											
C18orf34	374864	broad.mit.edu	37	chr18	30846912	30846912	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttactgttattttgttaatAtcaatctcaagttttttatt	10	24	3	4	0	2	0	2	0	1	0	3	0	2	0	0	0	1	3	0	0	7	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:30846912A>T	uc002kxn.2	-	13	1519	c.1377T>A	c.(1375-1377)GAT>GAA	p.D459E	C18orf34_uc010dme.1_5'UTR|C18orf34_uc010xbr.1_Missense_Mutation_p.D459E|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.D459E|C18orf34_uc002kxp.2_Missense_Mutation_p.D459E	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	459	Potential.									ovary(1)	1						TTTTGTTAATATCAATCTCAA	0.284													12	67					0	0	1	0	0		T	30846912	T	T	30846912	3	4	151	1	0	0	0	0	1	0	0	0	1905	446	16	5	1266	5	C18orf34	18	30846912	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	979157	30846912	47230336	3911	81076											
C18orf34	374864	broad.mit.edu	37	chr18	30950126	30950126	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgtgacgtcgacatgggTagctaaagtaaatgccttta	12	11	11	7	2	0	1	0	1	0	0	1	2	0	1	1	1	3	4	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:30950126T>C	uc002kxn.2	-	5	378	c.236A>G	c.(235-237)TAC>TGC	p.Y79C	C18orf34_uc010xbr.1_Missense_Mutation_p.Y79C|C18orf34_uc010dmf.1_Missense_Mutation_p.Y79C|C18orf34_uc002kxo.2_Missense_Mutation_p.Y79C|C18orf34_uc002kxp.2_Missense_Mutation_p.Y79C	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	79										ovary(1)	1						TCGACATGGGTAGCTAAAGTA	0.368													16	64					0	0	1	0	0		C	30950126	C	C	30950126	3	2	151	1	0	0	0	0	1	0	0	0	1905	1638	57	3	2439	3	C18orf34	18	30950126	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	103214	30950126	47127122	3912	81077											
ASXL3	80816	broad.mit.edu	37	chr18	31251755	31251755	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagacagttcagataaagaaAtgaaacatgggcaaaaatct	20	7	8	6	0	2	4	1	1	1	3	2	4	2	4	0	1	1	2	0	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:31251755A>G	uc010dmg.1	+	7	695	c.640A>G	c.(640-642)ATG>GTG	p.M214V	ASXL3_uc002kxq.2_5'UTR	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	214					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						AGATAAAGAAATGAAACATGG	0.333													7	26					0	0	1	0	0		G	31251755	G	G	31251755	3	3	151	1	0	0	0	0	1	0	0	0	1069	101	4	3	666	3	ASXL3	18	31251755	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	301629	31251755	46825493	3913	81078											
ASXL3	80816	broad.mit.edu	37	chr18	31324921	31324921	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagggagcctctagtgtacaAcaaacacagaacatgaaagc	17	5	10	9	0	1	2	0	1	1	1	1	4	1	3	1	1	6	1	1	1	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:31324921A>C	uc010dmg.1	+	12	5164	c.5109A>C	c.(5107-5109)CAA>CAC	p.Q1703H	ASXL3_uc002kxq.2_Missense_Mutation_p.Q1410H	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1703					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CTAGTGTACAACAAACACAGA	0.542													26	105					0	0	1	0	0		C	31324921	C	C	31324921	3	2	151	1	0	0	0	0	1	0	0	0	1069	40	2	5	5155	5	ASXL3	18	31324921	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	73166	31324921	46752327	3914	81079											
ASXL3	80816	broad.mit.edu	37	chr18	31325827	31325827	+	Silent	SNP	T	C	C	0	1	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	ggtgatgaggtgggaggcacTgcacacacaatgccaaacaa	14	5	13	9	0	0	2	0	2	0	0	0	3	0	3	1	4	3	2	1	4	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:31325827T>C	uc010dmg.1	+	12	6070	c.6015T>C	c.(6013-6015)ACT>ACC	p.T2005T	ASXL3_uc002kxq.2_Silent_p.T1712T	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2005					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TGGGAGGCACTGCACACACAA	0.323													19	90					0	0	1	0	0		C	31325827	C	C	31325827	2	2	151	1	0	0	0	0	0	0	0	1	1069	1567	55	3		3	ASXL3	18	31325827	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	906	31325827	46751421	3915	81080											
ELP2	55250	broad.mit.edu	37	chr18	33721158	33721158	+	Silent	SNP	T	C	C	0	1	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	cacatatttgctcaacaaaaTgatcaggtaataatgtttat	16	14	5	6	0	2	1	2	1	0	0	2	1	2	1	0	1	2	3	0	1	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:33721158T>C	uc002kzk.1	+	6	592	c.582T>C	c.(580-582)AAT>AAC	p.N194N	ELP2_uc010xcg.1_Silent_p.N259N|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Silent_p.N168N|ELP2_uc010xch.1_Silent_p.N233N|ELP2_uc002kzn.1_Silent_p.N168N|ELP2_uc002kzo.1_Intron	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	194	WD 4.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						CTCAACAAAATGATCAGGTAA	0.328													36	130					0	0	1	0	0		C	33721158	C	C	33721158	2	2	151	1	0	0	0	0	0	0	0	1	5088	1461	51	3		3	ELP2	18	33721158	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2395331	33721158	44356090	3916	81081											
ELP2	55250	broad.mit.edu	37	chr18	33750064	33750064	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcgactccactgatgactgTattgagcacaacattggccc	10	10	9	12	1	0	3	0	3	0	0	1	4	1	3	2	1	3	2	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:33750064T>C	uc002kzk.1	+	20	2125	c.2115T>C	c.(2113-2115)TGT>TGC	p.C705C	ELP2_uc010xcg.1_Silent_p.C770C|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Silent_p.C679C|ELP2_uc010xch.1_Silent_p.C700C|ELP2_uc002kzn.1_Silent_p.C635C|ELP2_uc002kzo.1_Silent_p.C635C	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	705	WD 12.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						CTGATGACTGTATTGAGCACA	0.537													20	70					0	0	1	0	0		C	33750064	C	C	33750064	2	2	151	1	0	0	0	0	0	0	0	1	5088	1644	57	3		3	ELP2	18	33750064	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	28906	33750064	44327184	3917	81082											
SYT4	6860	broad.mit.edu	37	chr18	40853990	40853990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggactttaaactctcagggGaaactgactctttttcccct	9	14	7	11	0	2	1	1	1	2	0	4	3	3	3	2	3	2	0	2	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:40853990G>A	uc002law.2	-	2	773	c.404C>T	c.(403-405)TCC>TTC	p.S135F	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Missense_Mutation_p.S117F|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	135	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						ACTCTCAGGGGAAACTGACTC	0.433													36	87					0	0	1	0	0		A	40853990	A	A	40853990	3	1	151	1	0	0	0	0	1	0	0	0	15501	1174	41	4	885	4	SYT4	18	40853990	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	7103926	40853990	37223258	3918	81083											
SLC14A2	8170	broad.mit.edu	37	chr18	43252904	43252904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggaattggccaagtgtacGgctgtgataacccctggact	9	11	12	9	1	0	1	0	1	0	0	0	3	0	3	3	4	2	2	3	4	4	4	rs142459777	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:43252904G>A	uc010dnj.2	+	18	2590	c.2269G>A	c.(2269-2271)GGC>AGC	p.G757S	SLC14A2_uc002lbe.2_Missense_Mutation_p.G757S	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	757						apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CCAAGTGTACGGCTGTGATAA	0.488													45	119					0	0	1	0	0		A	43252904	A	A	43252904	3	1	151	1	0	0	0	0	1	0	0	0	14422	1116	39	1	2331	1	SLC14A2	18	43252904	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2398914	43252904	34824344	3919	81084											
KIAA1632	57724	broad.mit.edu	37	chr18	43438628	43438628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taaacactgaagcaagtagaCgtaaagagtcaagtaactgc	18	7	9	7	1	1	3	1	1	0	2	1	3	1	3	0	0	4	4	0	0	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:43438628C>T	uc002lbm.2	-	41	7229	c.7129G>A	c.(7129-7131)GTC>ATC	p.V2377I	KIAA1632_uc010xcq.1_Missense_Mutation_p.V931I|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.V1252I	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	2377					autophagy						0						AGCAAGTAGACGTAAAGAGTC	0.483													31	75					0	0	1	0	0		T	43438628	T	T	43438628	3	4	151	1	0	0	0	0	1	0	0	0	8265	536	19	1	626	1	KIAA1632	18	43438628	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	185724	43438628	34638620	3920	81085											
KIAA1632	57724	broad.mit.edu	37	chr18	43464646	43464646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacttcaccacttgctcaTacagctgtatgaactctgca	12	11	6	12	0	3	1	2	1	1	0	3	2	3	1	1	0	6	4	1	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:43464646T>C	uc002lbm.2	-	30	5340	c.5240A>G	c.(5239-5241)TAT>TGT	p.Y1747C	KIAA1632_uc010xcq.1_Missense_Mutation_p.Y301C|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.Y622C	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1747					autophagy						0						CACTTGCTCATACAGCTGTAT	0.428													21	114					0	0	1	0	0		C	43464646	C	C	43464646	3	2	151	1	0	0	0	0	1	0	0	0	8265	1406	49	3	2559	3	KIAA1632	18	43464646	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	26018	43464646	34612602	3921	81086											
HAUS1	115106	broad.mit.edu	37	chr18	43703311	43703311	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttctctgtctcatcagtCcttagtagcactatcagagg	8	14	8	11	0	4	1	3	0	2	1	7	1	5	1	1	1	2	3	1	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:43703311C>A	uc002lbu.2	+	6	727	c.647C>A	c.(646-648)TCC>TAC	p.S216Y	HAUS1_uc002lbv.2_Missense_Mutation_p.S140Y	NM_138443	NP_612452	Q96CS2	HAUS1_HUMAN	coiled-coil domain containing 5	216					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole				ovary(1)	1						TCTCATCAGTCCTTAGTAGCA	0.343													35	190					2.19358e-23	2.29498e-23	1	1	0		A	43703311	A	A	43703311	3	1	151	1	0	0	0	0	1	0	0	0	6981	855	30	5	669	5	HAUS1	18	43703311	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	238665	43703311	34373937	3922	81087											
TCEB3C	162699	broad.mit.edu	37	chr18	44549185	44549185	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgcggtacggctgatcggGcgtccacccttccagaacgg	6	8	14	13	5	0	2	0	1	0	1	3	2	2	2	3	4	3	2	3	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:44549185G>T	uc010dnr.2	-	1	1114	c.1114C>A	c.(1114-1116)CCC>ACC	p.P372T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_001100817	NP_001094287	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	372	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GGCTGATCGGGCGTCCACCCT	0.577													11	451					3.41278e-10	3.51436e-10	1	1	0		T	44549185	T	T	44549185	3	4	151	1	0	0	0	0	1	0	0	0	15708	1203	42	5	530	5	TCEB3C	18	44549185	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	845874	44549185	33528063	3923	81088											
TCEB3B	51224	broad.mit.edu	37	chr18	44560527	44560527	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaattcctcagccatatctAcctcctccacctcagagagg	10	9	6	16	1	3	1	2	0	1	1	6	3	6	1	6	1	2	0	6	1	3	3	rs111815744		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:44560527A>G	uc002lcr.1	-	1	1462	c.1109T>C	c.(1108-1110)GTA>GCA	p.V370A	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	370					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						AGCCATATCTACCTCCTCCAC	0.507													17	85					0	0	1	0	0		G	44560527	G	G	44560527	3	3	151	1	0	0	0	0	1	0	0	0	15707	391	14	3	1156	3	TCEB3B	18	44560527	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11342	44560527	33516721	3924	81089											
HDHD2	84064	broad.mit.edu	37	chr18	44639388	44639388	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcatgccgacatcttgagcCccaccaacatcatccctgca	11	7	6	17	1	2	1	1	1	1	0	3	2	3	1	5	0	5	2	5	0	1	1	rs150843690		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:44639388C>T	uc002lcs.2	-	6	769	c.636G>A	c.(634-636)GGG>GGA	p.G212G	HDHD2_uc002lct.2_Silent_p.G122G	NM_032124	NP_115500	Q9H0R4	HDHD2_HUMAN	haloacid dehalogenase-like hydrolase domain	212							hydrolase activity				0						CATCTTGAGCCCCACCAACAT	0.378													9	92					0	0	1	0	0		T	44639388	T	T	44639388	2	4	151	1	0	0	0	0	0	0	0	1	7039	610	22	4		4	HDHD2	18	44639388	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	78861	44639388	33437860	3925	81090											
C18orf32	497661	broad.mit.edu	37	chr18	47017228	47017228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acactgtttctgtaaagtgaCatctttcagatacttcgtgg	10	15	8	8	1	3	2	1	1	2	1	4	2	3	2	0	1	1	2	0	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:47017228C>T	uc002ldm.1	-	3	164	c.151G>A	c.(151-153)GTC>ATC	p.V51I	RPL17_uc002ldn.2_Missense_Mutation_p.V13I|RPL17_uc002ldo.2_Missense_Mutation_p.V51I|RPL17_uc002ldp.2_Missense_Mutation_p.V51I|RPL17_uc002ldq.2_Missense_Mutation_p.V51I|RPL17_uc010xdg.1_Missense_Mutation_p.V13I|SNORD58C_uc002ldr.2_5'Flank	NM_001035006	NP_001030178	Q8TCD1	CR032_HUMAN	ribosomal protein L17	Error:Variant_position_missing_in_Q8TCD1_after_alignment					positive regulation of I-kappaB kinase/NF-kappaB cascade		signal transducer activity				0						TGTAAAGTGACATCTTTCAGA	0.418													34	158					0	0	1	0	0		T	47017228	T	T	47017228	3	4	151	1	0	0	0	0	1	0	0	0	1904	478	17	4		4	C18orf32	18	47017228	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2377840	47017228	31060020	3926	81091											
CXXC1	30827	broad.mit.edu	37	chr18	47808995	47808995	+	Missense_Mutation	SNP	T	C	C	0	1	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	actggagcgcaggtcggtagTgaggggatcgtgctggatcg	7	8	19	7	4	0	1	0	1	0	0	3	4	0	4	0	6	2	3	0	6	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:47808995T>C	uc002leq.3	-	15	2672	c.1939A>G	c.(1939-1941)ACT>GCT	p.T647A	MBD1_uc002leg.2_5'Flank|MBD1_uc010dow.1_5'Flank|MBD1_uc010xdi.1_5'Flank|MBD1_uc002leh.3_5'Flank|MBD1_uc002len.2_5'Flank|MBD1_uc002lei.3_5'Flank|MBD1_uc002lej.3_5'Flank|MBD1_uc002lek.3_5'Flank|MBD1_uc002lel.3_5'Flank|MBD1_uc002lem.3_5'Flank|MBD1_uc010xdj.1_5'Flank|MBD1_uc010xdk.1_5'Flank|MBD1_uc010dox.1_5'Flank|MBD1_uc002leo.2_5'Flank|CXXC1_uc002lep.3_Missense_Mutation_p.T504A|CXXC1_uc002ler.3_Missense_Mutation_p.T651A|CXXC1_uc010doy.2_3'UTR	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	647					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGGTCGGTAGTGAGGGGATCG	0.662													24	75					0	0	1	0	0		C	47808995	C	C	47808995	3	2	151	1	0	0	0	0	1	0	0	0	4100	1696	59	3	35	3	CXXC1	18	47808995	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	791767	47808995	30268253	3927	81092											
ME2	4200	broad.mit.edu	37	chr18	48446896	48446896	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcaggttcttgagaaagTaccgagaaaaatattgtact	15	12	8	6	1	2	2	1	1	1	2	2	4	2	2	1	1	2	3	1	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:48446896T>C	uc002ley.2	+	8	1061	c.805T>C	c.(805-807)TAC>CAC	p.Y269H	ME2_uc010dpd.2_Missense_Mutation_p.Y269H	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	269					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)	CTTGAGAAAGTACCGAGAAAA	0.338													17	77					0	0	1	0	0		C	48446896	C	C	48446896	3	2	151	1	0	0	0	0	1	0	0	0	9436	1638	57	3	831	3	ME2	18	48446896	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	637901	48446896	29630352	3928	81093											
CCDC68	80323	broad.mit.edu	37	chr18	52604149	52604149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaataatctctgggccacgTttctcagagctgctgctcct	8	12	8	13	1	2	1	1	0	2	1	5	1	3	1	2	1	3	4	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:52604149T>C	uc002lfs.2	-	6	558	c.386A>G	c.(385-387)AAC>AGC	p.N129S	CCDC68_uc002lft.2_Missense_Mutation_p.N129S	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	129	Potential.									skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		CTGGGCCACGTTTCTCAGAGC	0.428													7	116					0	0	1	0	0		C	52604149	C	C	52604149	3	2	151	1	0	0	0	0	1	0	0	0	2843	1725	60	3	649	3	CCDC68	18	52604149	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4157253	52604149	25473099	3929	81094											
TCF4	6925	broad.mit.edu	37	chr18	53254318	53254318	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcagctctttgtccgtcccTaaggcagccattcgctgttg	5	13	9	14	2	2	0	1	0	1	0	5	0	4	0	3	1	2	4	3	1	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:53254318T>C	uc002lfz.2	-	2	642	c.30A>G	c.(28-30)TTA>TTG	p.L10L	TCF4_uc010xdx.1_5'Flank|TCF4_uc010dph.1_Silent_p.L10L|TCF4_uc010xdy.1_Intron|TCF4_uc002lga.2_Silent_p.L112L|TCF4_uc010dpi.2_Silent_p.L10L	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	10	Essential for MYOD1 inhibition (By similarity).				positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		TGTCCGTCCCTAAGGCAGCCA	0.413													16	75					0	0	1	0	0		C	53254318	C	C	53254318	2	2	151	1	0	0	0	0	0	0	0	1	15720	1519	53	3		3	TCF4	18	53254318	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	650169	53254318	24822930	3930	81095											
TXNL1	9352	broad.mit.edu	37	chr18	54283492	54283492	+	Silent	SNP	A	G	G	1	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	tcaccattatctggcccttgAaatttcatggaataaagctt	12	14	6	9	0	3	1	2	1	1	0	3	2	3	2	2	2	1	1	2	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:54283492A>G	uc002lgg.2	-	5	795	c.546T>C	c.(544-546)TTT>TTC	p.F182F	TXNL1_uc010xdz.1_RNA|TXNL1_uc002lgh.2_RNA|TXNL1_uc002lgi.2_Silent_p.F182F|TXNL1_uc002lgj.1_Silent_p.F182F	NM_004786	NP_004777	O43396	TXNL1_HUMAN	thioredoxin-like 1	182	PITH.				cell redox homeostasis|electron transport chain|glycerol ether metabolic process|transport	cytoplasm	electron carrier activity|protein disulfide oxidoreductase activity				0				READ - Rectum adenocarcinoma(59;0.193)|Colorectal(16;0.211)		CTGGCCCTTGAAATTTCATGG	0.328													15	67					0	0	1	0	0		G	54283492	G	G	54283492	2	3	151	1	0	0	0	0	0	0	0	1	16830	243	9	3		3	TXNL1	18	54283492	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1029174	54283492	23793756	3931	81096											
WDR7	23335	broad.mit.edu	37	chr18	54398627	54398627	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgcaggtgcattggatcgTtgtgtgatggggataacagc	8	11	15	7	2	0	1	0	1	0	0	2	3	0	3	0	4	3	3	0	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:54398627T>C	uc002lgk.1	+	14	1999	c.1788T>C	c.(1786-1788)CGT>CGC	p.R596R	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Silent_p.R596R	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	596	WD 7.									ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		CATTGGATCGTTGTGTGATGG	0.348													15	88					0	0	1	0	0		C	54398627	C	C	54398627	2	2	151	1	0	0	0	0	0	0	0	1	17346	1712	60	3		3	WDR7	18	54398627	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	115135	54398627	23678621	3932	81097											
WDR7	23335	broad.mit.edu	37	chr18	54483318	54483318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctcctgatgcctcagggCctgaagcaaaagtccaggag	10	6	13	12	1	1	2	1	2	0	0	3	3	3	3	4	3	2	2	4	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:54483318C>T	uc002lgk.1	+	20	3458	c.3247C>T	c.(3247-3249)CCT>TCT	p.P1083S	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.P1050S	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	1083										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TGCCTCAGGGCCTGAAGCAAA	0.458													5	24					0	0	1	0	0		T	54483318	T	T	54483318	3	4	151	1	0	0	0	0	1	0	0	0	17346	739	26	2	3321	2	WDR7	18	54483318	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	84691	54483318	23593930	3933	81098											
FECH	2235	broad.mit.edu	37	chr18	55238724	55238724	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccaatcctgcggtactgCtcttgaatcttgggggttcg	5	13	11	12	2	2	1	0	1	2	0	5	1	4	1	3	3	3	3	3	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:55238724C>T	uc002lgq.3	-	4	480	c.363G>A	c.(361-363)GAG>GAA	p.E121E	FECH_uc002lgp.3_Silent_p.E127E|FECH_uc002lgr.3_5'UTR	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	121					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				TGCGGTACTGCTCTTGAATCT	0.498													30	120					0	0	1	0	0		T	55238724	T	T	55238724	2	4	151	1	0	0	0	0	0	0	0	1	5822	796	28	2		2	FECH	18	55238724	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	755406	55238724	22838524	3934	81099											
NARS	4677	broad.mit.edu	37	chr18	55274419	55274419	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccggtatgactgagcaatAcaaaaaacatctcccagggc	14	6	9	12	1	1	2	0	2	1	0	2	2	1	2	2	2	3	2	2	2	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:55274419A>G	uc002lgs.2	-	9	1176	c.948T>C	c.(946-948)TGT>TGC	p.C316C	NARS_uc002lgt.2_Silent_p.C315C|NARS_uc010xea.1_Silent_p.C67C|NARS_uc010xeb.1_RNA|NARS_uc010xec.1_3'UTR|NARS_uc010xed.1_3'UTR	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	316					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	ACTGAGCAATACAAAAAACAT	0.438													27	153					0	0	1	0	0		G	55274419	G	G	55274419	2	3	151	1	0	0	0	0	0	0	0	1	10188	389	14	3		3	NARS	18	55274419	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	35695	55274419	22802829	3935	81100											
ALPK2	115701	broad.mit.edu	37	chr18	56246328	56246328	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagagcagagatgaagggtAccttctgttgtactttctct	9	13	11	8	0	2	3	0	1	2	2	3	4	2	3	1	1	3	5	1	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:56246328A>G	uc002lhj.3	-	4	1894	c.1680T>C	c.(1678-1680)GGT>GGC	p.G560G		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	560							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						GATGAAGGGTACCTTCTGTTG	0.527											OREG0025011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	171					0	0	1	0	0		G	56246328	G	G	56246328	2	3	151	1	0	0	0	0	0	0	0	1	545	378	14	3		3	ALPK2	18	56246328	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	971909	56246328	21830920	3936	81101											
RNF152	220441	broad.mit.edu	37	chr18	59483265	59483265	+	Silent	SNP	A	G	G	1	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	accgcctcctggggagccccAccttgcagaggctgctgttc	5	8	12	16	1	0	1	0	0	0	1	2	2	1	2	6	3	3	4	6	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:59483265A>G	uc002lih.1	-	2	844	c.432T>C	c.(430-432)GGT>GGC	p.G144G		NM_173557	NP_775828	Q8N8N0	RN152_HUMAN	ring finger protein 152	144					apoptosis|protein K48-linked ubiquitination	integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			breast(1)	1		Colorectal(73;0.186)				GGGGAGCCCCACCTTGCAGAG	0.677													5	62					0	0	1	0	0		G	59483265	G	G	59483265	2	3	151	1	0	0	0	0	0	0	0	1	13478	146	6	3		3	RNF152	18	59483265	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3236937	59483265	18593983	3937	81102											
PHLPP1	23239	broad.mit.edu	37	chr18	60506064	60506064	+	Silent	SNP	T	C	C	0	1	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	tgtttagcatttagctcctcTggaccccaaagccagactta	10	12	7	12	0	1	1	0	0	1	1	2	2	2	2	4	1	3	3	4	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:60506064T>C	uc002lis.2	+	4	463	c.285T>C	c.(283-285)TCT>TCC	p.S95S		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	607	PH.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						TTAGCTCCTCTGGACCCCAAA	0.428													26	115					0	0	1	0	0		C	60506064	C	C	60506064	2	2	151	1	0	0	0	0	0	0	0	1	11873	1567	55	3		3	PHLPP1	18	60506064	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1022799	60506064	17571184	3938	81103											
VPS4B	9525	broad.mit.edu	37	chr18	61064287	61064287	+	Missense_Mutation	SNP	A	G	G	1	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	ctttttaaaatgagtagctgActgtactttcctaacaggct	11	15	7	8	0	0	2	0	2	0	0	1	2	1	2	1	1	3	4	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:61064287A>G	uc002lix.2	-	9	1332	c.1072T>C	c.(1072-1074)TCA>CCA	p.S358P	VPS4B_uc010dpx.2_Missense_Mutation_p.S358P|VPS4B_uc010dpy.2_Missense_Mutation_p.S240P|VPS4B_uc010dpz.1_Missense_Mutation_p.S240P	NM_004869	NP_004860	O75351	VPS4B_HUMAN	vacuolar protein sorting factor 4B	358					cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1						TGAGTAGCTGACTGTACTTTC	0.294													27	199					0	0	1	0	0		G	61064287	G	G	61064287	3	3	151	1	0	0	0	0	1	0	0	0	17239	275	10	3	274	3	VPS4B	18	61064287	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	558223	61064287	17012961	3939	81104											
SERPINB10	5273	broad.mit.edu	37	chr18	61582880	61582880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccatagtgtatttgggcGccaaaggtaccactgcagcc	10	9	11	11	1	0	1	0	1	0	0	0	1	0	1	4	2	3	3	4	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:61582880G>A	uc010xev.1	+	2	226	c.136G>A	c.(136-138)GCC>ACC	p.A46T	SERPINB2_uc002ljp.1_Missense_Mutation_p.A187T|SERPINB2_uc002ljq.1_Missense_Mutation_p.A160T|SERPINB10_uc010xew.1_Missense_Mutation_p.A46T	NM_005024	NP_005015	P48595	SPB10_HUMAN	serine (or cysteine) proteinase inhibitor, clade	46						cytoplasm|nucleus	serine-type endopeptidase inhibitor activity			lung(1)|kidney(1)|skin(1)	3		Esophageal squamous(42;0.131)				GTATTTGGGCGCCAAAGGTAC	0.438													22	88					0	0	1	0	0		A	61582880	A	A	61582880	3	1	151	1	0	0	0	0	1	0	0	0	14122	1087	38	1	138	1	SERPINB10	18	61582880	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	518593	61582880	16494368	3940	81105											
DSEL	92126	broad.mit.edu	37	chr18	65181836	65181836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtaaatgtcctgtaaacaTtaacgccatgatccatgggg	13	11	9	8	1	0	1	0	1	0	0	2	1	2	1	3	2	2	2	3	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:65181836T>C	uc002lke.1	-	2	1264	c.40A>G	c.(40-42)ATG>GTG	p.M14V		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	4						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CCTGTAAACATTAACGCCATG	0.388													40	122					0	0	1	0	0		C	65181836	C	C	65181836	3	2	151	1	0	0	0	0	1	0	0	0	4781	1493	52	3	3632	3	DSEL	18	65181836	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3598956	65181836	12895412	3941	81106											
RTTN	25914	broad.mit.edu	37	chr18	67697273	67697273	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttcaatgctgctttcccaGgcctcagagaatctaggttc	8	14	8	11	0	3	1	2	0	1	1	5	2	4	1	2	2	2	3	2	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:67697273G>T	uc002lkp.2	-	42	5788	c.5720C>A	c.(5719-5721)CCT>CAT	p.P1907H	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.P995H|RTTN_uc010dqp.2_Missense_Mutation_p.P159H	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1907							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TGCTTTCCCAGGCCTCAGAGA	0.398													49	239					1.46357e-32	1.53596e-32	1	1	0		T	67697273	T	T	67697273	3	4	151	1	0	0	0	0	1	0	0	0	13762	1000	35	5	992	5	RTTN	18	67697273	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2515437	67697273	10379975	3942	81107											
RTTN	25914	broad.mit.edu	37	chr18	67715294	67715294	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccactgttggactacagcaTaaatgtgttttgctcttagc	9	14	9	9	0	1	0	0	0	1	0	1	1	1	1	1	1	4	4	1	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:67715294T>C	uc002lkp.2	-	40	5522	c.5454A>G	c.(5452-5454)TTA>TTG	p.L1818L	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Silent_p.L906L|RTTN_uc010dqp.2_Silent_p.L70L	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	1818							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				GACTACAGCATAAATGTGTTT	0.438													32	94					0	0	1	0	0		C	67715294	C	C	67715294	2	2	151	1	0	0	0	0	0	0	0	1	13762	1403	49	3		3	RTTN	18	67715294	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	18021	67715294	10361954	3943	81108											
RTTN	25914	broad.mit.edu	37	chr18	67781679	67781679	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcaatattacaaatggtAcctgtcagtaacttccatga	13	12	6	10	0	1	1	1	1	0	0	2	1	2	1	3	1	4	3	3	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:67781679A>T	uc002lkp.2	-	27	3751	c.3683_splice	c.e27+1	p.R1228_splice	RTTN_uc002lko.2_Splice_Site|RTTN_uc010xfb.1_Splice_Site_p.R316_splice	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin								binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				TACAAATGGTACCTGTCAGTA	0.343													27	125					0	0	1	0	0		T	67781679	T	T	67781679	5	4	151	1	0	0	0	0	0	0	1	0	13762	405	14	5	3087	5	RTTN	18	67781679	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	66385	67781679	10295569	3944	81109											
NETO1	81832	broad.mit.edu	37	chr18	70461635	70461635	+	Silent	SNP	A	G	G	1	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	gctccaaggtccttaaagtcAggatcttaaaaattgagaaa	16	10	8	7	0	2	1	1	1	1	1	4	3	4	2	2	2	0	1	2	2	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:70461635A>G	uc002lkw.2	-	5	758	c.474T>C	c.(472-474)CCT>CCC	p.P158P	NETO1_uc002lkx.1_Silent_p.P157P|NETO1_uc002lky.1_Silent_p.P158P	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	158	Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		CCTTAAAGTCAGGATCTTAAA	0.299													5	194					0	0	1	0	0		G	70461635	G	G	70461635	2	3	151	1	0	0	0	0	0	0	0	1	10358	175	7	3		3	NETO1	18	70461635	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2679956	70461635	7615613	3945	81110											
ZNF407	55628	broad.mit.edu	37	chr18	72347596	72347596	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagggaaacgtctgcaagTattgtgggaagatgtgtcga	12	9	14	6	2	1	1	0	0	1	1	2	4	1	3	1	2	2	2	1	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:72347596T>C	uc002llw.2	+	1	4678	c.4621T>C	c.(4621-4623)TAT>CAT	p.Y1541H	ZNF407_uc010xfc.1_Missense_Mutation_p.Y1541H|ZNF407_uc010dqu.1_Missense_Mutation_p.Y1541H|ZNF407_uc002llu.2_Missense_Mutation_p.Y1540H	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1541	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		CGTCTGCAAGTATTGTGGGAA	0.507													21	67					0	0	1	0	0		C	72347596	C	C	72347596	3	2	151	1	0	0	0	0	1	0	0	0	17912	1638	57	3	4623	3	ZNF407	18	72347596	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1885961	72347596	5729652	3946	81111											
TSHZ1	10194	broad.mit.edu	37	chr18	72999834	72999834	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagccgctggtgtccagcgtGgctgattcggtggcatcacc	6	9	14	12	3	1	1	1	1	0	0	3	1	2	1	3	4	2	3	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:72999834G>T	uc002lly.2	+	2	2900	c.2337G>T	c.(2335-2337)GTG>GTT	p.V779V		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	824						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		TGTCCAGCGTGGCTGATTCGG	0.572													18	64					1.64113e-05	1.66225e-05	1	1	0		T	72999834	T	T	72999834	2	4	151	1	0	0	0	0	0	0	0	1	16649	1335	47	5		5	TSHZ1	18	72999834	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	652238	72999834	5077414	3947	81112											
ZNF516	9658	broad.mit.edu	37	chr18	74091364	74091364	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcttggccaggggcccCtgtgtggccgcgccatgtgg	2	8	18	13	2	0	0	0	0	0	0	0	0	0	0	5	6	0	1	5	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:74091364C>T	uc010dqx.1	-	3	2941	c.2706G>A	c.(2704-2706)CAG>CAA	p.Q902Q	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	902					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CCAGGGGCCCCTGTGTGGCCG	0.711													8	39					0	0	1	0	0		T	74091364	T	T	74091364	2	4	151	1	0	0	0	0	0	0	0	1	17985	680	24	4		4	ZNF516	18	74091364	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1091530	74091364	3985884	3948	81113											
ZNF236	7776	broad.mit.edu	37	chr18	74624288	74624288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggacaacgaggaccagaGcaggcgctcttacaggtagt	12	5	15	9	2	1	1	0	0	1	1	1	5	1	4	1	5	3	3	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:74624288G>T	uc002lmi.2	+	17	3086	c.2888G>T	c.(2887-2889)AGC>ATC	p.S963I	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	963					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GAGGACCAGAGCAGGCGCTCT	0.542													11	51					0.000978159	0.000986513	1	1	0		T	74624288	T	T	74624288	3	4	151	1	0	0	0	0	1	0	0	0	17814	971	34	5	2954	5	ZNF236	18	74624288	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	532924	74624288	3452960	3949	81114											
ATP9B	374868	broad.mit.edu	37	chr18	77133944	77133944	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgctcttcgagtctgagttCgtccacgtggtggccatctc	4	13	12	12	3	3	1	0	1	3	0	7	2	4	1	2	2	1	2	2	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:77133944C>T	uc002lmx.2	+	28	3131	c.3117C>T	c.(3115-3117)TTC>TTT	p.F1039F	ATP9B_uc002lmw.1_Silent_p.F1039F|ATP9B_uc002lna.2_Silent_p.F65F|ATP9B_uc002lnb.1_3'UTR|ATP9B_uc010drb.2_RNA	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	1039	Helical; (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AGTCTGAGTTCGTCCACGTGG	0.602													19	70					0	0	1	0	0		T	77133944	T	T	77133944	2	4	151	1	0	0	0	0	0	0	0	1	1200	883	31	1		1	ATP9B	18	77133944	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2509656	77133944	943304	3950	81115											
CTDP1	9150	broad.mit.edu	37	chr18	77456018	77456018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagcaggtgccgctgtccaCggcgaccgtgtccatggtgc	5	7	15	14	4	0	0	0	0	0	0	2	1	2	0	4	3	3	3	4	3	0	0	rs143464787		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:77456018C>T	uc002lnh.1	+	3	587	c.440C>T	c.(439-441)ACG>ATG	p.T147M	CTDP1_uc002lni.1_Missense_Mutation_p.T147M|CTDP1_uc010drd.1_Missense_Mutation_p.T147M	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	147					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		CCGCTGTCCACGGCGACCGTG	0.617													15	27					0	0	1	0	0		T	77456018	T	T	77456018	3	4	151	1	0	0	0	0	1	0	0	0	4005	536	19	1	450	1	CTDP1	18	77456018	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	322074	77456018	621230	3951	81116											
ADNP2	22850	broad.mit.edu	37	chr18	77896522	77896522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaaaaggaaatagaactgTtgtcctcactcttttgggtg	12	13	10	6	0	2	1	1	0	1	1	3	2	3	2	1	2	1	2	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr18:77896522T>C	uc002lnw.2	+	4	3681	c.3226T>C	c.(3226-3228)TTG>CTG	p.L1076L		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	1076	Homeobox.				cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		AATAGAACTGTTGTCCTCACT	0.318													6	160					0	0	1	0	0		C	77896522	C	C	77896522	2	2	151	1	0	0	0	0	0	0	0	1	324	1722	60	3		3	ADNP2	18	77896522	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	440504	77896522	180726	3952	81117											
MIER2	54531	broad.mit.edu	37	chr19	308808	308808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcacgcacgtggttcCggacgggacgtacttcctcc	5	8	14	14	5	0	0	0	0	0	0	3	2	3	2	3	4	2	5	3	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:308808C>T	uc002lok.1	-	11	1111	c.1102G>A	c.(1102-1104)GGA>AGA	p.G368R		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	368					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACGTGGTTCCGGACGGGACG	0.697													11	40					0	0	1	0	0		T	308808	T	T	308808	3	4	151	1	0	0	0	0	1	0	0	0	9599	661	23	1	551	1	MIER2	19	308808	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08		308808	58820175	3953	81118											
MIER2	54531	broad.mit.edu	37	chr19	336173	336173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcctccccagcgaggaggCctgcgaaggaagagaggcag	10	3	16	12	2	0	1	0	0	0	1	1	6	1	3	4	4	3	1	4	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:336173C>T	uc002lok.1	-	2	19	c.10G>A	c.(10-12)GCC>ACC	p.A4T		NM_017550	NP_060020	Q8N344	MIER2_HUMAN	mesoderm induction early response 1, family	4					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		all_cancers(10;1.05e-30)|all_epithelial(18;3.04e-19)|Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;2.49e-05)|all_lung(49;4.36e-05)|Breast(49;0.000304)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCGAGGAGGCCTGCGAAGGA	0.647													9	29					0	0	1	0	0		T	336173	T	T	336173	3	4	151	1	0	0	0	0	1	0	0	0	9599	753	26	2	1679	2	MIER2	19	336173	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	27365	336173	58792810	3954	81119											
THEG	51298	broad.mit.edu	37	chr19	367122	367122	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggcttgggttttggcacggGgtcccactcttccaagaggg	5	11	15	10	1	1	1	0	0	1	1	3	1	3	1	2	6	0	3	2	6	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:367122G>T	uc002lol.2	-	7	895	c.856C>A	c.(856-858)CCC>ACC	p.P286T	THEG_uc002lom.2_Missense_Mutation_p.P262T	NM_016585	NP_057669	Q9P2T0	THEG_HUMAN	Theg homolog isoform 1	286					cell differentiation|chaperone-mediated protein complex assembly|multicellular organismal development|spermatogenesis	nucleus	protein binding			ovary(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTTGGCACGGGGTCCCACTCT	0.587													30	137					1.74807e-11	1.80592e-11	1	1	0		T	367122	T	T	367122	3	4	151	1	0	0	0	0	1	0	0	0	15882	1232	43	5	291	5	THEG	19	367122	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	30949	367122	58761861	3955	81120											
SHC2	25759	broad.mit.edu	37	chr19	422254	422254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgcacaaggaagtccccGtcagctcgaagcatcctctc	9	8	8	16	3	3	0	1	0	2	0	8	2	5	1	3	1	2	3	3	1	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:422254G>A	uc002loq.3	-	11	1512	c.1512C>T	c.(1510-1512)GAC>GAT	p.D504D	SHC2_uc002lop.3_Silent_p.D245D	NM_012435	NP_036567	P98077	SHC2_HUMAN	SHC (Src homology 2 domain containing)	504	SH2.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol					0		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)		GGAAGTCCCCGTCAGCTCGAA	0.701													4	13					0	0	1	0	0		A	422254	A	A	422254	2	1	151	1	0	0	0	0	0	0	0	1	14296	1136	40	1		1	SHC2	19	422254	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	55132	422254	58706729	3956	81121											
POLRMT	5442	broad.mit.edu	37	chr19	617784	617784	+	Missense_Mutation	SNP	A	G	G	1	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	actacgggggcacctggttcAtgacggagacatcagctgcg	9	7	14	11	3	2	2	2	1	0	1	2	3	2	2	1	4	3	3	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:617784A>G	uc002lpf.1	-	18	3544	c.3488T>C	c.(3487-3489)ATG>ACG	p.M1163T		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	1163	Mediates interaction with TEFM.				transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCTGGTTCATGACGGAGAC	0.637													6	30					0	0	1	0	0		G	617784	G	G	617784	3	3	151	1	0	0	0	0	1	0	0	0	12257	217	8	3	220	3	POLRMT	19	617784	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	195530	617784	58511199	3957	81122											
POLRMT	5442	broad.mit.edu	37	chr19	621761	621761	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggggggcaaagcatgggtAcatccaccgcctcgaaggtc	9	5	15	12	3	0	0	0	0	0	0	3	1	1	0	3	5	2	3	3	5	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:621761A>G	uc002lpf.1	-	10	1993	c.1937T>C	c.(1936-1938)GTA>GCA	p.V646A		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	646					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGCATGGGTACATCCACCGC	0.677													3	32					0	0	1	0	0		G	621761	G	G	621761	3	3	151	1	0	0	0	0	1	0	0	0	12257	391	14	3	1803	3	POLRMT	19	621761	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3977	621761	58507222	3958	81123											
PTBP1	5725	broad.mit.edu	37	chr19	808741	808741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catattcccgccctcggccaCgctgcacctctccaacatcc	7	8	5	21	3	1	0	0	0	1	0	5	0	3	0	6	1	2	2	6	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:808741C>T	uc002lpr.2	+	12	1470	c.1364C>T	c.(1363-1365)ACG>ATG	p.T455M	PTBP1_uc002lpp.2_Missense_Mutation_p.T481M|PTBP1_uc002lpq.2_Missense_Mutation_p.T474M|PTBP1_uc002lps.2_Missense_Mutation_p.T121M|PTBP1_uc002lpt.2_RNA|PTBP1_uc002lpu.1_Missense_Mutation_p.T451M	NM_031991	NP_114368	P26599	PTBP1_HUMAN	polypyrimidine tract-binding protein 1 isoform	455	RRM 4.				negative regulation of muscle cell differentiation|nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	mRNA binding|nucleotide binding|poly-pyrimidine tract binding|protein binding			kidney(1)|skin(1)	2		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCTCGGCCACGCTGCACCTC	0.662													3	15					0	0	1	0	0		T	808741	T	T	808741	3	4	151	1	0	0	0	0	1	0	0	0	12747	536	19	1	1492	1	PTBP1	19	808741	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	186980	808741	58320242	3959	81124											
MED16	10025	broad.mit.edu	37	chr19	881601	881601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgctggccaccttgaggtCggtgttggtgagcgagatgg	5	10	18	8	3	0	3	0	2	0	1	2	4	0	3	2	5	1	2	2	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:881601C>T	uc002lqd.1	-	7	1250	c.1099G>A	c.(1099-1101)GAC>AAC	p.D367N	MED16_uc010drw.1_Missense_Mutation_p.D192N|MED16_uc002lqe.2_Missense_Mutation_p.D356N|MED16_uc002lqf.2_Missense_Mutation_p.D356N|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Missense_Mutation_p.D356N|MED16_uc010xfx.1_Missense_Mutation_p.D212N|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	367					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCTTGAGGTCGGTGTTGGTG	0.647													23	77					0	0	1	0	0		T	881601	T	T	881601	3	4	151	1	0	0	0	0	1	0	0	0	9452	884	31	1	1574	1	MED16	19	881601	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	72860	881601	58247382	3960	81125											
MED16	10025	broad.mit.edu	37	chr19	881679	881679	+	Missense_Mutation	SNP	T	G	G	0	1	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	atcgttggtggccgataggaTccgccatttgagaattgtgg	8	12	14	7	3	0	1	0	1	0	1	2	4	1	2	3	4	0	1	3	4	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:881679T>G	uc002lqd.1	-	7	1172	c.1021A>C	c.(1021-1023)ATC>CTC	p.I341L	MED16_uc010drw.1_Missense_Mutation_p.I166L|MED16_uc002lqe.2_Missense_Mutation_p.I330L|MED16_uc002lqf.2_Missense_Mutation_p.I330L|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Missense_Mutation_p.I330L|MED16_uc010xfx.1_Missense_Mutation_p.I186L|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	341					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCGATAGGATCCGCCATTTG	0.582													9	76					0	0	1	0	0		G	881679	G	G	881679	3	3	151	1	0	0	0	0	1	0	0	0	9452	1435	50	5	1652	5	MED16	19	881679	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	78	881679	58247304	3961	81126											
C19orf26	255057	broad.mit.edu	37	chr19	1234739	1234739	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtccccctccgtcagtgtgTacctgcgacagcatctggcc	6	9	10	16	2	2	0	1	0	1	0	4	1	4	0	5	1	3	2	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:1234739T>C	uc002lrm.2	-	6	715	c.440A>G	c.(439-441)TAC>TGC	p.Y147C		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	173						integral to membrane					0		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)		CGTCAGTGTGTACCTGCGACA	0.657										HNSCC(14;0.022)			3	10					0	0	1	0	0		C	1234739	C	C	1234739	3	2	151	1	0	0	0	0	1	0	0	0	1919	1638	57	3	919	3	C19orf26	19	1234739	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	353060	1234739	57894244	3962	81127											
DAZAP1	26528	broad.mit.edu	37	chr19	1434758	1434758	+	Silent	SNP	T	C	C	0	1	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	ggttacgggcaggacttgagTggcttcggacagggcttctc	6	10	16	9	2	1	1	0	1	1	0	3	3	1	3	0	6	1	4	0	6	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:1434758T>C	uc002lsn.2	+	12	1260	c.1071T>C	c.(1069-1071)AGT>AGC	p.S357S	DAZAP1_uc002lsm.2_3'UTR|DAZAP1_uc002lso.2_Silent_p.S356S|DAZAP1_uc002lsl.1_Silent_p.S356S	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	357	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		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)		AGGACTTGAGTGGCTTCGGAC	0.597													7	52					0	0	1	0	0		C	1434758	C	C	1434758	2	2	151	1	0	0	0	0	0	0	0	1	4247	1693	59	3		3	DAZAP1	19	1434758	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	200019	1434758	57694225	3963	81128											
MBD3	53615	broad.mit.edu	37	chr19	1584655	1584655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtctggcgcacgggcagcgCcgtgttcaggtcgggcttgc	3	8	17	13	6	2	0	1	0	1	0	3	0	2	0	1	4	2	4	1	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:1584655C>T	uc002ltl.1	-	3	314	c.292G>A	c.(292-294)GCG>ACG	p.A98T	MBD3_uc002ltj.2_Missense_Mutation_p.A98T|MBD3_uc002ltk.2_Missense_Mutation_p.A66T	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	98					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		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)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGGGCAGCGCCGTGTTCAGG	0.592													9	47					0	0	1	0	0		T	1584655	T	T	1584655	3	4	151	1	0	0	0	0	1	0	0	0	9362	739	26	2	599	2	MBD3	19	1584655	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	149897	1584655	57544328	3964	81129											
ATP8B3	148229	broad.mit.edu	37	chr19	1802528	1802528	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcaggtgtctgtgttgcgaaTcctgcagcctcggaggagga	7	9	16	9	2	1	0	0	0	1	0	3	4	2	3	2	4	3	3	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:1802528T>C	uc002ltw.2	-	11	1255	c.1021A>G	c.(1021-1023)ATT>GTT	p.I341V	ATP8B3_uc002ltv.2_Missense_Mutation_p.I288V|ATP8B3_uc002ltx.2_RNA|ATP8B3_uc002lty.1_Missense_Mutation_p.I89V|ATP8B3_uc002ltz.1_Missense_Mutation_p.I288V	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	341	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTGTTGCGAATCCTGCAGCCT	0.567													11	52					0	0	1	0	0		C	1802528	C	C	1802528	3	2	151	1	0	0	0	0	1	0	0	0	1197	1435	50	3	3005	3	ATP8B3	19	1802528	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	217873	1802528	57326455	3965	81130											
AP3D1	8943	broad.mit.edu	37	chr19	2109159	2109159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaatgccatcgactttgattGagctcatgctcaagtcccca	10	11	8	12	1	2	2	2	2	0	0	4	4	3	2	3	0	3	2	3	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:2109159G>A	uc002luz.2	-	28	3435	c.3212C>T	c.(3211-3213)TCA>TTA	p.S1071L	AP3D1_uc010dsv.2_Missense_Mutation_p.S161L|AP3D1_uc002luy.2_Missense_Mutation_p.S1030L|AP3D1_uc002lva.2_Missense_Mutation_p.S1133L	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	1071					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACTTTGATTGAGCTCATGCT	0.552													25	132					0	0	1	0	0		A	2109159	A	A	2109159	3	1	151	1	0	0	0	0	1	0	0	0	746	1294	45	4	261	4	AP3D1	19	2109159	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	306631	2109159	57019824	3966	81131											
AP3D1	8943	broad.mit.edu	37	chr19	2132554	2132554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagtgcaacacctgtgtcGtactggctggggctgctcaa	7	10	13	11	1	2	0	2	0	0	0	3	0	2	0	1	3	4	5	1	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:2132554G>A	uc002luz.2	-	5	601	c.378C>T	c.(376-378)TAC>TAT	p.Y126Y	AP3D1_uc002luy.2_Silent_p.Y126Y|AP3D1_uc002lva.2_Silent_p.Y126Y	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	126					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCTGTGTCGTACTGGCTGG	0.592													38	92					0	0	1	0	0		A	2132554	A	A	2132554	2	1	151	1	0	0	0	0	0	0	0	1	746	1140	40	1		1	AP3D1	19	2132554	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	23395	2132554	56996429	3967	81132											
TMPRSS9	360200	broad.mit.edu	37	chr19	2416625	2416625	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagatcgggctgcggcgggTagtgctgcaccccctctaca	7	7	14	13	3	1	1	0	0	1	1	2	2	1	1	2	3	4	4	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:2416625T>C	uc010xgx.1	+	11	1733	c.1733T>C	c.(1732-1734)GTA>GCA	p.V578A		NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	578	Extracellular (Potential).|Peptidase S1 2.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				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)		CTGCGGCGGGTAGTGCTGCAC	0.657													8	26					0	0	1	0	0		C	2416625	C	C	2416625	3	2	151	1	0	0	0	0	1	0	0	0	16278	1638	57	3	1775	3	TMPRSS9	19	2416625	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	284071	2416625	56712358	3968	81133											
ZNF57	126295	broad.mit.edu	37	chr19	2917638	2917638	+	Missense_Mutation	SNP	A	G	G	1	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	caaactctataaatgtgaacActgtgggaaggcttttacct	13	12	8	8	0	1	1	0	1	1	0	1	2	1	2	1	2	3	1	1	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:2917638A>G	uc002lwr.2	+	4	1167	c.1019A>G	c.(1018-1020)CAC>CGC	p.H340R	ZNF57_uc010xha.1_Missense_Mutation_p.H308R	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	340	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		AAATGTGAACACTGTGGGAAG	0.458													6	101					0	0	1	0	0		G	2917638	G	G	2917638	3	3	151	1	0	0	0	0	1	0	0	0	18026	159	6	3	1033	3	ZNF57	19	2917638	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	501013	2917638	56211345	3969	81134											
ZNF57	126295	broad.mit.edu	37	chr19	2917975	2917975	+	Silent	SNP	C	T	T	0	0	0	1	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	cagctccataaatgtgaacaCtgtgggaaggcctttacctc	11	10	9	11	0	0	1	0	1	0	0	2	2	1	2	3	2	3	1	3	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:2917975C>T	uc002lwr.2	+	4	1504	c.1356C>T	c.(1354-1356)CAC>CAT	p.H452H	ZNF57_uc010xha.1_Silent_p.H420H	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	452	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		AATGTGAACACTGTGGGAAGG	0.428													45	168					0	0	1	0	0		T	2917975	T	T	2917975	2	4	151	1	0	0	0	0	0	0	0	1	18026	564	20	4		4	ZNF57	19	2917975	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	337	2917975	56211008	3970	81135											
NFIC	4782	broad.mit.edu	37	chr19	3452546	3452546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacgtccatcctaccccagaCggcctccacctacttccccc	7	7	5	22	2	0	1	0	0	0	1	4	2	4	1	9	1	2	0	9	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:3452546C>T	uc010xhi.1	+	8	1213	c.1151C>T	c.(1150-1152)ACG>ATG	p.T384M	NFIC_uc002lxo.2_Missense_Mutation_p.T375M|NFIC_uc010xhh.1_Missense_Mutation_p.T375M|NFIC_uc002lxp.2_Missense_Mutation_p.T384M|NFIC_uc010xhj.1_Missense_Mutation_p.T384M	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	384					DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		CTACCCCAGACGGCCTCCACC	0.652													53	182					0	0	1	0	0		T	3452546	T	T	3452546	3	4	151	1	0	0	0	0	1	0	0	0	10391	536	19	1	1188	1	NFIC	19	3452546	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	534571	3452546	55676437	3971	81136											
C19orf29	58509	broad.mit.edu	37	chr19	3623876	3623876	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcagctcctcctgctgcTtccgctcctcccgcagccgc	3	10	7	21	3	2	0	2	0	0	0	7	0	7	0	6	0	4	5	6	0	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:3623876T>C	uc002lyh.2	-	2	505	c.452A>G	c.(451-453)AAG>AGG	p.K151R	C19orf29_uc010dtn.2_5'Flank|C19orf29_uc002lyi.3_Missense_Mutation_p.K151R|C19orf29_uc010dto.2_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	151	Potential.					catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCTGCTGCTTCCGCTCCTC	0.711													4	11					0	0	1	0	0		C	3623876	C	C	3623876	3	2	151	1	0	0	0	0	1	0	0	0	1921	1609	56	3	1860	3	C19orf29	19	3623876	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	171330	3623876	55505107	3972	81137											
MATK	4145	broad.mit.edu	37	chr19	3779034	3779034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtccacttgacgggcagccGgcttgagtctagccccttcc	5	9	11	16	3	1	2	0	2	1	0	3	2	3	2	5	2	2	2	5	2	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:3779034G>A	uc002lyt.2	-	12	1553	c.1153C>T	c.(1153-1155)CGG>TGG	p.R385W	MATK_uc002lyv.2_Missense_Mutation_p.R386W|MATK_uc002lyu.2_Missense_Mutation_p.R344W|MATK_uc010dtq.2_Missense_Mutation_p.R385W	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	385	Protein kinase.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGGGCAGCCGGCTTGAGTCT	0.607													4	16					0	0	1	0	0		A	3779034	A	A	3779034	3	1	151	1	0	0	0	0	1	0	0	0	9350	1115	39	1	382	1	MATK	19	3779034	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	155158	3779034	55349949	3973	81138											
EBI3	10148	broad.mit.edu	37	chr19	4231313	4231313	+	Missense_Mutation	SNP	A	G	G	1	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	gccccgtgtccttcattgccAcgtacaggtcggagagcctg	6	9	12	14	3	1	1	1	0	0	1	3	2	2	1	5	2	3	1	5	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:4231313A>G	uc002lzu.2	+	2	201	c.193A>G	c.(193-195)ACG>GCG	p.T65A		NM_005755	NP_005746	Q14213	IL27B_HUMAN	Epstein-Barr virus induced 3 precursor	65	Fibronectin type-III 1.				humoral immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of interferon-gamma biosynthetic process|T-helper 1 type immune response	extracellular space|plasma membrane	cytokine activity|cytokine receptor activity				0		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)		CTTCATTGCCACGTACAGGTC	0.642													8	22					0	0	1	0	0		G	4231313	G	G	4231313	3	3	151	1	0	0	0	0	1	0	0	0	4889	159	6	3	199	3	EBI3	19	4231313	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	452279	4231313	54897670	3974	81139											
CHAF1A	10036	broad.mit.edu	37	chr19	4409350	4409350	+	Missense_Mutation	SNP	A	C	C	1	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	cattccttgcaaaacagaggAggagggtgttggctgtggag	10	9	16	6	0	0	1	0	0	0	1	1	4	1	4	1	5	2	3	1	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:4409350A>C	uc002mal.2	+	3	654	c.554A>C	c.(553-555)GAG>GCG	p.E185A		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	185	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		AAAACAGAGGAGGAGGGTGTT	0.582								Chromatin_Structure					22	74					0	0	1	0	0		C	4409350	C	C	4409350	3	2	151	1	0	0	0	0	1	0	0	0	3314	304	11	5	564	5	CHAF1A	19	4409350	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	178037	4409350	54719633	3975	81140											
FEM1A	55527	broad.mit.edu	37	chr19	4792619	4792619	+	Silent	SNP	T	G	G	0	1	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	gcagggggagaggctcagccTgggctgccccaagaagaccc	9	3	16	13	0	1	3	1	0	0	3	1	4	1	3	4	4	2	3	4	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:4792619T>G	uc002mbf.2	+	1	892	c.753T>G	c.(751-753)CCT>CCG	p.P251P	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	251					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		AGGCTCAGCCTGGGCTGCCCC	0.687													5	36					0	0	1	0	0		G	4792619	G	G	4792619	2	3	151	1	0	0	0	0	0	0	0	1	5823	1567	55	5		5	FEM1A	19	4792619	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	383269	4792619	54336364	3976	81141											
PLIN3	10226	broad.mit.edu	37	chr19	4852237	4852237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacaattgggtggccaccGtgtccttggcgctagacacc	7	8	12	14	3	0	1	0	0	0	1	1	2	1	1	5	3	0	1	5	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:4852237G>A	uc002mbj.2	-	5	602	c.425C>T	c.(424-426)ACG>ATG	p.T142M	PLIN3_uc002mbk.2_Missense_Mutation_p.T130M|PLIN3_uc002mbl.3_Missense_Mutation_p.T142M	NM_005817	NP_005808	O60664	PLIN3_HUMAN	mannose 6 phosphate receptor binding protein 1	142					vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)	GGTGGCCACCGTGTCCTTGGC	0.627											OREG0025175	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	24					0	0	1	0	0		A	4852237	A	A	4852237	3	1	151	1	0	0	0	0	1	0	0	0	12110	1145	40	1	895	1	PLIN3	19	4852237	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	59618	4852237	54276746	3977	81142											
UHRF1	29128	broad.mit.edu	37	chr19	4930731	4930731	+	Missense_Mutation	SNP	A	G	G	1	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	tccctcattcctcacaggtcAatgagtacgtcgatgctcgg	8	11	9	13	3	3	1	3	1	0	0	7	2	5	1	2	2	2	2	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:4930731A>G	uc002mbo.2	+	4	580	c.412A>G	c.(412-414)AAT>GAT	p.N138D	UHRF1_uc010xik.1_Intron|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.N151D	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	138					cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		CTCACAGGTCAATGAGTACGT	0.607													5	30					0	0	1	0	0		G	4930731	G	G	4930731	3	3	151	1	0	0	0	0	1	0	0	0	16993	130	5	3	461	3	UHRF1	19	4930731	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	78494	4930731	54198252	3978	81143											
KDM4B	23030	broad.mit.edu	37	chr19	5110675	5110675	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagatctccatggacgtgTtcgtgcgcatcctgcagccc	7	10	10	14	3	2	1	1	0	1	1	5	2	3	2	3	1	3	3	3	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:5110675T>C	uc002mbq.3	+	10	1187	c.961T>C	c.(961-963)TTC>CTC	p.F321L	KDM4B_uc010xil.1_Missense_Mutation_p.F321L|KDM4B_uc010xim.1_Missense_Mutation_p.F321L|KDM4B_uc002mbr.3_Missense_Mutation_p.F79L	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	321					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CATGGACGTGTTCGTGCGCAT	0.677													3	41					0	0	1	0	0		C	5110675	C	C	5110675	3	2	151	1	0	0	0	0	1	0	0	0	8145	1725	60	3	991	3	KDM4B	19	5110675	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	179944	5110675	54018308	3979	81144											
KDM4B	23030	broad.mit.edu	37	chr19	5110733	5110733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagcagggcaaggacctcaCggtgctggaccacacgcggc	10	3	15	13	3	1	0	1	0	0	0	1	3	1	2	2	5	2	3	2	5	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:5110733C>T	uc002mbq.3	+	10	1245	c.1019C>T	c.(1018-1020)ACG>ATG	p.T340M	KDM4B_uc010xil.1_Missense_Mutation_p.T340M|KDM4B_uc010xim.1_Missense_Mutation_p.T340M|KDM4B_uc002mbr.3_Missense_Mutation_p.T98M	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	340					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						AAGGACCTCACGGTGCTGGAC	0.662													5	22					0	0	1	0	0		T	5110733	T	T	5110733	3	4	151	1	0	0	0	0	1	0	0	0	8145	536	19	1	1049	1	KDM4B	19	5110733	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	58	5110733	54018250	3980	81145											
PTPRS	5802	broad.mit.edu	37	chr19	5208286	5208286	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggccgtcctggccaaactgCtccttagtcttatgcacttg	6	12	10	13	1	1	0	0	0	1	0	3	0	3	0	4	2	3	2	4	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:5208286C>T	uc002mbv.2	-	36	5838	c.5604G>A	c.(5602-5604)GAG>GAA	p.E1868E	PTPRS_uc002mbu.1_Silent_p.E1437E|PTPRS_uc010xin.1_Silent_p.E1410E|PTPRS_uc002mbw.2_Silent_p.E1830E|PTPRS_uc002mbx.2_Silent_p.E1425E|PTPRS_uc002mby.2_Silent_p.E1421E	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1868	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGCCAAACTGCTCCTTAGTCT	0.602													11	56					0	0	1	0	0		T	5208286	T	T	5208286	2	4	151	1	0	0	0	0	0	0	0	1	12836	796	28	2		2	PTPRS	19	5208286	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	97553	5208286	53920697	3981	81146											
ACSBG2	81616	broad.mit.edu	37	chr19	6187367	6187367	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttaagaagaagatcccCatcatcagtaacgccatgtt	13	11	8	9	1	2	3	2	0	0	3	3	3	3	3	3	1	1	3	3	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:6187367C>A	uc002mef.1	+	12	1841	c.1614C>A	c.(1612-1614)CCC>CCA	p.P538P	ACSBG2_uc002mee.1_Silent_p.P351P|ACSBG2_uc002meg.1_Silent_p.P538P|ACSBG2_uc002meh.1_Silent_p.P538P|ACSBG2_uc002mei.1_Silent_p.P488P|ACSBG2_uc010xiz.1_Silent_p.P538P	NM_030924	NP_112186	Q5FVE4	ACBG2_HUMAN	bubblegum-related acyl-CoA synthetase 2	538					cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1						AGAAGATCCCCATCATCAGTA	0.468													43	136					1.00001e-27	1.04805e-27	1	1	0		A	6187367	A	A	6187367	2	1	151	1	0	0	0	0	0	0	0	1	174	581	21	5		5	ACSBG2	19	6187367	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	979081	6187367	52941616	3982	81147											
MLLT1	4298	broad.mit.edu	37	chr19	6230666	6230666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgcaggtggttcacgggcGggttgccttccaggttcagg	5	9	17	10	3	2	0	2	0	0	0	3	0	3	0	2	6	2	4	2	6	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:6230666G>A	uc002mek.2	-	4	499	c.335C>T	c.(334-336)CCG>CTG	p.P112L		NM_005934	NP_005925	Q03111	ENL_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	112	YEATS.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|protein binding			skin(1)	1						GTTCACGGGCGGGTTGCCTTC	0.612			T	MLL	AL								46	175					0	0	1	0	0		A	6230666	A	A	6230666	3	1	151	1	0	0	0	0	1	0	0	0	9643	1116	39	1	1380	1	MLLT1	19	6230666	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	43299	6230666	52898317	3983	81148											
MLLT1	4298	broad.mit.edu	37	chr19	6230719	6230719	+	Silent	SNP	C	T	T	0	0	0	1	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	gtgaagcagaccttcctcggCtcctcctgaaacagagaaaa	13	7	9	12	1	0	4	0	2	0	2	4	5	3	4	4	1	2	2	4	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:6230719C>T	uc002mek.2	-	4	446	c.282G>A	c.(280-282)GAG>GAA	p.E94E		NM_005934	NP_005925	Q03111	ENL_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	94	YEATS.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|protein binding			skin(1)	1						CCTTCCTCGGCTCCTCCTGAA	0.592			T	MLL	AL								33	148					0	0	1	0	0		T	6230719	T	T	6230719	2	4	151	1	0	0	0	0	0	0	0	1	9643	796	28	2		2	MLLT1	19	6230719	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	53	6230719	52898264	3984	81149											
ACER1	125981	broad.mit.edu	37	chr19	6309743	6309743	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacgatgtagagaatgtgCagggcaatgctgttgagggc	11	8	15	7	1	0	2	0	1	0	1	0	4	0	2	0	2	2	5	0	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:6309743C>T	uc002mel.2	-	4	531	c.453G>A	c.(451-453)CTG>CTA	p.L151L		NM_133492	NP_597999	Q8TDN7	ACER1_HUMAN	alkaline ceramidase 1	151	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	ceramidase activity				0						AGAGAATGTGCAGGGCAATGC	0.607													26	99					0	0	1	0	0		T	6309743	T	T	6309743	2	4	151	1	0	0	0	0	0	0	0	1	138	697	25	2		2	ACER1	19	6309743	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	79024	6309743	52819240	3985	81150											
SLC25A23	79085	broad.mit.edu	37	chr19	6456459	6456459	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcttccagaaatacagcacgTcctccacattttccagcgaa	12	9	6	14	2	0	1	0	0	0	1	4	2	4	1	4	0	3	2	4	0	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:6456459T>A	uc002mex.1	-	4	597	c.455A>T	c.(454-456)GAC>GTC	p.D152V	SLC25A23_uc002mev.2_RNA|SLC25A23_uc010xjd.1_5'Flank	NM_024103	NP_077008	Q9BV35	SCMC3_HUMAN	solute carrier family 25, member 23	152	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)|pancreas(1)	2						ATACAGCACGTCCTCCACATT	0.592													4	55					0	0	1	0	0		A	6456459	A	A	6456459	3	1	151	1	0	0	0	0	1	0	0	0	14511	1667	58	5	979	5	SLC25A23	19	6456459	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	146716	6456459	52672524	3986	81151											
C3	718	broad.mit.edu	37	chr19	6710732	6710732	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctggcaccgatcagcgtgTagtacgccaccaggcggaag	9	5	14	13	5	1	0	1	0	0	0	1	2	1	1	3	3	2	4	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:6710732T>C	uc002mfm.2	-	13	1666	c.1604A>G	c.(1603-1605)TAC>TGC	p.Y535C		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	535					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GATCAGCGTGTAGTACGCCAC	0.672													6	65					0	0	1	0	0		C	6710732	C	C	6710732	3	2	151	1	0	0	0	0	1	0	0	0	2207	1638	57	3	3503	3	C3	19	6710732	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	254273	6710732	52418251	3987	81152											
TRIP10	9322	broad.mit.edu	37	chr19	6743530	6743530	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcgtaaatttgagcgggactGccgggaggcagagaaggcag	11	5	18	7	3	0	2	0	1	0	1	0	5	0	4	1	4	2	3	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:6743530G>A	uc002mfs.2	+	6	500	c.434G>A	c.(433-435)TGC>TAC	p.C145Y	TRIP10_uc010dux.1_Missense_Mutation_p.C145Y|TRIP10_uc002mfr.2_Missense_Mutation_p.C145Y|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_5'UTR	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	145	Potential.|Induction of membrane tubulation.				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						GAGCGGGACTGCCGGGAGGCA	0.597													10	56					0	0	1	0	0		A	6743530	A	A	6743530	3	1	151	1	0	0	0	0	1	0	0	0	16580	1319	46	2	456	2	TRIP10	19	6743530	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	32798	6743530	52385453	3988	81153											
ZNF557	79230	broad.mit.edu	37	chr19	7083669	7083669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaactcacactggaaaaaaaCcctatgaatgtaattattgc	17	10	6	8	0	1	1	1	1	0	0	1	3	1	2	1	1	3	1	1	1	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:7083669C>A	uc002mgb.2	+	8	1671	c.1186C>A	c.(1186-1188)CCC>ACC	p.P396T	ZNF557_uc002mga.2_Missense_Mutation_p.P403T|ZNF557_uc002mgc.2_Missense_Mutation_p.P403T	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	396					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		TGGAAAAAAACCCTATGAATG	0.368													34	150					1.45844e-13	1.51419e-13	1	1	0		A	7083669	A	A	7083669	3	1	151	1	0	0	0	0	1	0	0	0	18013	507	18	5	1229	5	ZNF557	19	7083669	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	340139	7083669	52045314	3989	81154											
INSR	3643	broad.mit.edu	37	chr19	7150506	7150506	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtcgcacaggtgagtcatAcctagggtcctcggcaccag	8	7	14	12	2	1	1	1	1	0	0	4	1	2	1	3	4	1	2	3	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:7150506A>G	uc002mgd.1	-	11	2376	c.2267_splice	c.e11+1	p.R756_splice	INSR_uc002mge.1_Intron	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor						activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGTGAGTCATACCTAGGGTCC	0.587													7	38					0	0	1	0	0		G	7150506	G	G	7150506	5	3	151	1	0	0	0	0	0	0	1	0	7789	405	14	3	1927	3	INSR	19	7150506	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	66837	7150506	51978477	3990	81155											
ZNF358	140467	broad.mit.edu	37	chr19	7585023	7585023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgtgtccgcagtgcggcaagGccttcgggcagagctcggcg	5	6	17	13	6	0	1	0	0	0	1	3	1	1	1	2	4	2	4	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:7585023G>A	uc002mgn.2	+	2	1065	c.895G>A	c.(895-897)GCC>ACC	p.A299T	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	299	C2H2-type 6.				embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						GTGCGGCAAGGCCTTCGGGCA	0.721													7	17					0	0	1	0	0		A	7585023	A	A	7585023	3	1	151	1	0	0	0	0	1	0	0	0	17892	1203	42	2	897	2	ZNF358	19	7585023	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	434517	7585023	51543960	3991	81156											
PNPLA6	10908	broad.mit.edu	37	chr19	7615447	7615447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacatcgtgctcaatgggcGgctgcgtagcgtgatccagc	7	10	13	11	4	1	1	1	1	0	0	3	1	2	1	1	2	5	3	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:7615447G>A	uc010xjq.1	+	18	2213	c.2018G>A	c.(2017-2019)CGG>CAG	p.R673Q	PNPLA6_uc002mgq.1_Missense_Mutation_p.R625Q|PNPLA6_uc010xjp.1_Missense_Mutation_p.R599Q|PNPLA6_uc002mgr.1_Missense_Mutation_p.R625Q|PNPLA6_uc002mgs.2_Missense_Mutation_p.R664Q	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	664	Cytoplasmic (Potential).|cNMP 3.				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CTCAATGGGCGGCTGCGTAGC	0.682													5	21					0	0	1	0	0		A	7615447	A	A	7615447	3	1	151	1	0	0	0	0	1	0	0	0	12188	1116	39	1	2084	1	PNPLA6	19	7615447	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	30424	7615447	51513536	3992	81157											
XAB2	56949	broad.mit.edu	37	chr19	7691131	7691131	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacttgaggtactcaatgTactcctctgcactctcagga	9	13	8	11	0	3	2	2	2	2	0	5	3	4	3	1	2	3	3	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:7691131T>C	uc002mgx.2	-	5	574	c.548A>G	c.(547-549)TAC>TGC	p.Y183C		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	183	HAT 5.				transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						GTACTCAATGTACTCCTCTGC	0.637								Direct_reversal_of_damage|NER					8	207					0	0	1	0	0		C	7691131	C	C	7691131	3	2	151	1	0	0	0	0	1	0	0	0	17444	1638	57	3	2079	3	XAB2	19	7691131	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	75684	7691131	51437852	3993	81158											
CLEC4G	339390	broad.mit.edu	37	chr19	7794978	7794978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgcgccgccgcccacGtcgtctttggcacagagaaa	8	7	11	15	5	1	1	0	0	1	1	3	3	2	1	4	1	1	1	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:7794978G>A	uc002mhp.3	-	7	623	c.554C>T	c.(553-555)ACG>ATG	p.T185M		NM_198492	NP_940894	Q6UXB4	CLC4G_HUMAN	C-type lectin domain family 4, member G	185	Extracellular (Potential).|C-type lectin.					integral to membrane	protein binding|sugar binding				0						CGCCGCCCACGTCGTCTTTGG	0.677													3	12					0	0	1	0	0		A	7794978	A	A	7794978	3	1	151	1	0	0	0	0	1	0	0	0	3520	1145	40	1	339	1	CLEC4G	19	7794978	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	103847	7794978	51334005	3994	81159											
CLEC4M	10332	broad.mit.edu	37	chr19	7831545	7831545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcctcccccaacagaacGcctgtgccgccactgtccca	8	5	7	21	2	0	1	0	0	0	1	2	1	2	1	8	0	4	0	8	0	2	0	rs140767813		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:7831545G>A	uc002mih.2	+	6	837	c.719G>A	c.(718-720)CGC>CAC	p.R240H	CLEC4M_uc010xjv.1_3'UTR|CLEC4M_uc002mhy.2_3'UTR|CLEC4M_uc010xjw.1_Missense_Mutation_p.R196H|CLEC4M_uc010dvt.2_Missense_Mutation_p.R217H|CLEC4M_uc010dvs.2_Missense_Mutation_p.R239H|CLEC4M_uc010xjx.1_Missense_Mutation_p.R212H|CLEC4M_uc002mhz.2_Missense_Mutation_p.R171H|CLEC4M_uc002mic.2_Missense_Mutation_p.R235H|CLEC4M_uc002mia.2_Missense_Mutation_p.R127H	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	263	Extracellular (Probable).|7.|7 X approximate tandem repeats.				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						CCAACAGAACGCCTGTGCCGC	0.562													19	67					0	0	1	0	0		A	7831545	A	A	7831545	3	1	151	1	0	0	0	0	1	0	0	0	3521	1087	38	1	827	1	CLEC4M	19	7831545	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	36567	7831545	51297438	3995	81160											
ELAVL1	1994	broad.mit.edu	37	chr19	8056606	8056606	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcttcgtaactcatcctgggTcatgttctgagggaggtagt	7	13	13	8	1	3	1	2	1	1	0	5	2	4	2	1	3	1	4	1	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:8056606T>C	uc002mjb.2	-	2	261	c.94A>G	c.(94-96)ACC>GCC	p.T32A		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	32	RRM 1.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						TCATCCTGGGTCATGTTCTGA	0.443													37	158					0	0	1	0	0		C	8056606	C	C	8056606	3	2	151	1	0	0	0	0	1	0	0	0	5057	1667	58	3	906	3	ELAVL1	19	8056606	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	225061	8056606	51072377	3996	81161											
FBN3	84467	broad.mit.edu	37	chr19	8138042	8138042	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggggccacgccgtccggcGcactcatccacctcctggca	6	5	11	19	4	1	0	1	0	0	0	4	0	4	0	6	4	0	2	6	4	0	0	rs116210236	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:8138042G>A	uc002mjf.2	-	61	7863	c.7842C>T	c.(7840-7842)TGC>TGT	p.C2614C	FBN3_uc002mje.2_Silent_p.C410C	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2614	EGF-like 44; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCCGTCCGGCGCACTCATCCA	0.657													23	55					0	0	1	0	0		A	8138042	A	A	8138042	2	1	151	1	0	0	0	0	0	0	0	1	5718	1079	38	1		1	FBN3	19	8138042	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	81436	8138042	50990941	3997	81162											
HNRNPM	4670	broad.mit.edu	37	chr19	8550915	8550915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatggagcgcatggtgcccGcaggtatgggagctggcctg	6	7	18	10	2	0	0	0	0	0	0	0	2	0	2	2	5	3	5	2	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:8550915G>A	uc010dwe.2	+	14	1683	c.1603G>A	c.(1603-1605)GCA>ACA	p.A535T	HNRNPM_uc010xke.1_Missense_Mutation_p.A481T|HNRNPM_uc010dwd.2_Missense_Mutation_p.A496T|HNRNPM_uc002mka.2_Missense_Mutation_p.A400T|HNRNPM_uc002mkb.1_5'Flank	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	535	27 X 6 AA repeats of [GEVSTPAN]-[ILMV]- [DE]-[RH]-[MLVI]-[GAV].				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						CATGGTGCCCGCAGGTATGGG	0.687													16	58					0	0	1	0	0		A	8550915	A	A	8550915	3	1	151	1	0	0	0	0	1	0	0	0	7287	1087	38	1	1657	1	HNRNPM	19	8550915	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	412873	8550915	50578068	3998	81163											
PRAM1	84106	broad.mit.edu	37	chr19	8563898	8563898	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttttgggaaaggcgctggagTcgcgcttcggctcgctggac	5	10	16	10	5	0	0	0	0	0	0	3	3	0	3	0	5	0	4	0	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:8563898T>C	uc002mkd.2	-	2	814	c.794A>G	c.(793-795)GAC>GGC	p.D265G	PRAM1_uc002mkc.2_Missense_Mutation_p.D265G	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	313	Pro-rich.						lipid binding|protein binding				0						GGCGCTGGAGTCGCGCTTCGG	0.642													8	32					0	0	1	0	0		C	8563898	C	C	8563898	3	2	151	1	0	0	0	0	1	0	0	0	12445	1667	58	3	1251	3	PRAM1	19	8563898	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	12983	8563898	50565085	3999	81164											
MUC16	94025	broad.mit.edu	37	chr19	9049048	9049048	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagttggaacagctgaactGgattctgccccatgactggt	9	10	13	9	0	1	2	0	2	1	0	1	5	1	5	2	4	4	2	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:9049048G>A	uc002mkp.2	-	5	32787	c.32583C>T	c.(32581-32583)TCC>TCT	p.S10861S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10863	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CAGCTGAACTGGATTCTGCCC	0.478													37	124					0	0	1	0	0		A	9049048	A	A	9049048	2	1	151	1	0	0	0	0	0	0	0	1	9991	1335	47	4		4	MUC16	19	9049048	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	485150	9049048	50079935	4000	81165											
MUC16	94025	broad.mit.edu	37	chr19	9069916	9069916	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaaagtggagagcctggtgaTggtttctgtggagatgtagg	10	11	17	3	0	1	3	0	1	1	2	1	5	1	3	1	5	1	2	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:9069916T>C	uc002mkp.2	-	3	17734	c.17530A>G	c.(17530-17532)ATC>GTC	p.I5844V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5846	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGCCTGGTGATGGTTTCTGTG	0.473													48	186					0	0	1	0	0		C	9069916	C	C	9069916	3	2	151	1	0	0	0	0	1	0	0	0	9991	1464	51	3	26321	3	MUC16	19	9069916	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	20868	9069916	50059067	4001	81166											
MUC16	94025	broad.mit.edu	37	chr19	9074359	9074359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacatctgtaaatgtgttggTagaagttataaactgatgag	14	13	10	4	0	1	3	0	2	1	1	1	3	1	3	0	1	1	4	0	1	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:9074359T>C	uc002mkp.2	-	3	13291	c.13087A>G	c.(13087-13089)ACC>GCC	p.T4363A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4365	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AATGTGTTGGTAGAAGTTATA	0.473													17	76					0	0	1	0	0		C	9074359	C	C	9074359	3	2	151	1	0	0	0	0	1	0	0	0	9991	1638	57	3	30764	3	MUC16	19	9074359	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4443	9074359	50054624	4002	81167											
MUC16	94025	broad.mit.edu	37	chr19	9074482	9074482	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgacagtgcttgtctctgTagcagagctggccacctggg	8	10	13	10	0	1	2	0	1	1	1	2	2	1	2	2	2	3	4	2	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:9074482T>C	uc002mkp.2	-	3	13168	c.12964A>G	c.(12964-12966)ACA>GCA	p.T4322A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4324	Thr-rich.|Extracellular (Potential).|Ser-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTTGTCTCTGTAGCAGAGCTG	0.502													16	51					0	0	1	0	0		C	9074482	C	C	9074482	3	2	151	1	0	0	0	0	1	0	0	0	9991	1638	57	3	30887	3	MUC16	19	9074482	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	123	9074482	50054501	4003	81168											
MUC16	94025	broad.mit.edu	37	chr19	9091107	9091107	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaggtgataggtcaaggaaGgaagaataaagtgtcccaaa	17	8	12	4	0	1	2	1	1	0	1	2	4	2	4	1	4	0	0	1	4	9	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:9091107G>A	uc002mkp.2	-	1	912	c.708C>T	c.(706-708)TCC>TCT	p.S236S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	236	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGTCAAGGAAGGAAGAATAAA	0.468													20	94					0	0	1	0	0		A	9091107	A	A	9091107	2	1	151	1	0	0	0	0	0	0	0	1	9991	987	35	4		4	MUC16	19	9091107	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	16625	9091107	50037876	4004	81169											
RDH8	50700	broad.mit.edu	37	chr19	10132286	10132286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgctactcgccgctgaccaCgctcaaaaccgtggattcct	8	8	8	17	5	1	1	1	1	0	0	3	2	2	2	5	1	2	3	5	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10132286C>T	uc002mmr.2	+	6	1046	c.797C>T	c.(796-798)ACG>ATG	p.T266M		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	266					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	CCGCTGACCACGCTCAAAACC	0.612													5	38					0	0	1	0	0		T	10132286	T	T	10132286	3	4	151	1	0	0	0	0	1	0	0	0	13221	536	19	1	819	1	RDH8	19	10132286	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1041179	10132286	48996697	4005	81170											
DNMT1	1786	broad.mit.edu	37	chr19	10252877	10252877	+	Missense_Mutation	SNP	A	G	G	1	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	gtggtagctcgctggagtggActtgtgggtgttctcaggcc	4	12	17	8	1	1	0	1	0	1	0	3	2	1	2	1	5	1	4	1	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10252877A>G	uc002mng.2	-	29	3268	c.3088T>C	c.(3088-3090)TCC>CCC	p.S1030P	DNMT1_uc002mne.2_5'Flank|DNMT1_uc002mnf.2_5'UTR|DNMT1_uc010xlc.1_Missense_Mutation_p.S1046P|DNMT1_uc002mnh.2_Missense_Mutation_p.S925P|DNMT1_uc010xld.1_Missense_Mutation_p.S1030P	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1030	BAH 2.				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	GCTGGAGTGGACTTGTGGGTG	0.587													10	58					0	0	1	0	0		G	10252877	G	G	10252877	3	3	151	1	0	0	0	0	1	0	0	0	4681	275	10	3	1810	3	DNMT1	19	10252877	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	120591	10252877	48876106	4006	81171											
DNMT1	1786	broad.mit.edu	37	chr19	10284549	10284549	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatagtaactattcttaccgTtctctggatgtaactctacg	10	16	6	9	2	3	0	0	0	3	0	4	1	3	1	1	1	4	3	1	1	7	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10284549T>C	uc002mng.2	-	7	813	c.633A>G	c.(631-633)GAA>GAG	p.E211E	DNMT1_uc010xlc.1_Silent_p.E227E|DNMT1_uc002mnh.2_Silent_p.E106E|DNMT1_uc010xld.1_Silent_p.E211E	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	211	Interaction with DNMT3B.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	ATTCTTACCGTTCTCTGGATG	0.328													35	118					0	0	1	0	0		C	10284549	C	C	10284549	2	2	151	1	0	0	0	0	0	0	0	1	4681	1722	60	3		3	DNMT1	19	10284549	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	31672	10284549	48844434	4007	81172											
ICAM1	3383	broad.mit.edu	37	chr19	10394791	10394791	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accgtggtctgttccctggaCgggctgttcccagtctcgga	4	11	13	13	3	2	0	0	0	2	0	5	2	4	2	3	4	0	3	3	4	0	2	rs143689328	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10394791C>T	uc002mnq.2	+	4	1039	c.720C>T	c.(718-720)GAC>GAT	p.D240D	ICAM1_uc010xle.1_Intron|ICAM4_uc002mnr.1_5'Flank|ICAM4_uc002mns.1_5'Flank|ICAM4_uc002mnt.1_5'Flank	NM_000201	NP_000192	P05362	ICAM1_HUMAN	intercellular adhesion molecule 1 precursor	240	Ig-like C2-type 3.|Extracellular (Potential).				adhesion to symbiont|heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking|positive regulation of cellular extravasation|regulation of immune response|regulation of leukocyte mediated cytotoxicity|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell|virion attachment, binding of host cell surface receptor	extracellular space|integral to plasma membrane	integrin binding|transmembrane receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;2.81e-06)|all cancers(31;6.56e-06)		Natalizumab(DB00108)|Simvastatin(DB00641)	GTTCCCTGGACGGGCTGTTCC	0.637													21	71					0	0	1	0	0		T	10394791	T	T	10394791	2	4	151	1	0	0	0	0	0	0	0	1	7495	535	19	1		1	ICAM1	19	10394791	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	110242	10394791	48734192	4008	81173											
TYK2	7297	broad.mit.edu	37	chr19	10475609	10475609	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcccggaagtcacagaagTaggcccacagtggctcccgc	9	6	12	14	2	1	1	1	0	0	1	3	2	3	2	3	3	0	2	3	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10475609T>C	uc002moc.3	-	8	1505	c.1127A>G	c.(1126-1128)TAC>TGC	p.Y376C	TYK2_uc010dxe.2_Missense_Mutation_p.Y191C|TYK2_uc002mod.2_Missense_Mutation_p.Y376C	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	376	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GTCACAGAAGTAGGCCCACAG	0.632													17	79					0	0	1	0	0		C	10475609	C	C	10475609	3	2	151	1	0	0	0	0	1	0	0	0	16836	1638	57	3	2508	3	TYK2	19	10475609	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	80818	10475609	48653374	4009	81174											
KEAP1	9817	broad.mit.edu	37	chr19	10599954	10599954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacgaaagtccacgtctctGtttccacatcgtagcgctcc	8	11	7	15	4	1	0	0	0	1	0	6	1	4	0	3	0	2	3	3	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10599954G>A	uc002moq.1	-	5	1778	c.1622C>T	c.(1621-1623)ACA>ATA	p.T541I	KEAP1_uc002mop.1_Intron|KEAP1_uc002mor.1_Missense_Mutation_p.T541I	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	541	Kelch 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CCACGTCTCTGTTTCCACATC	0.592													9	59					0	0	1	0	0		A	10599954	A	A	10599954	3	1	151	1	0	0	0	0	1	0	0	0	8157	1377	48	4	260	4	KEAP1	19	10599954	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	124345	10599954	48529029	4010	81175											
KEAP1	9817	broad.mit.edu	37	chr19	10602716	10602716	+	Missense_Mutation	SNP	A	G	G	1	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	gtcggactgcaggatctcgcActtctgcagctgcatctgca	7	10	11	13	2	3	0	0	0	3	0	5	2	3	2	0	2	5	6	0	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10602716A>G	uc002moq.1	-	3	1018	c.862T>C	c.(862-864)TGC>CGC	p.C288R	KEAP1_uc002mop.1_Missense_Mutation_p.C6R|KEAP1_uc002mor.1_Missense_Mutation_p.C288R	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	288				C->S: Abolishes repression of NFE2L2- dependent gene expression. Slows down degradation of NFE2L2.	regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			AGGATCTCGCACTTCTGCAGC	0.637													13	56					0	0	1	0	0		G	10602716	G	G	10602716	3	3	151	1	0	0	0	0	1	0	0	0	8157	159	6	3	1028	3	KEAP1	19	10602716	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2762	10602716	48526267	4011	81176											
KRI1	65095	broad.mit.edu	37	chr19	10670352	10670352	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctcatccttacggcgcacGgaggacgcgatgctgcgtgg	6	7	15	13	7	1	0	1	0	0	0	2	3	2	2	1	4	3	3	1	4	1	1	rs139920982		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:10670352G>A	uc002moy.1	-	11	987	c.978C>T	c.(976-978)TCC>TCT	p.S326S	KRI1_uc002mow.1_5'UTR|KRI1_uc002mox.1_Silent_p.S322S	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	326	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TACGGCGCACGGAGGACGCGA	0.622													12	64					0	0	1	0	0		A	10670352	A	A	10670352	2	1	151	1	0	0	0	0	0	0	0	1	8460	1103	39	1		1	KRI1	19	10670352	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	67636	10670352	48458631	4012	81177											
SMARCA4	6597	broad.mit.edu	37	chr19	11134301	11134301	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcgaggcccagttgccCgaaaaggtgatggagttttg	10	9	15	7	2	0	1	0	1	0	0	1	5	0	2	2	3	1	2	2	3	3	3	rs149874634	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:11134301C>T	uc002mqf.3	+	20	3251	c.2967C>T	c.(2965-2967)CCC>CCT	p.P989P	SMARCA4_uc010dxp.2_Silent_p.P989P|SMARCA4_uc010dxo.2_Silent_p.P989P|SMARCA4_uc002mqg.1_Silent_p.P989P|SMARCA4_uc010dxq.2_Silent_p.P989P|SMARCA4_uc010dxr.2_Silent_p.P989P|SMARCA4_uc002mqj.3_Silent_p.P989P|SMARCA4_uc010dxs.2_Silent_p.P989P|SMARCA4_uc010dxt.1_Silent_p.P209P|SMARCA4_uc002mqh.3_Silent_p.P112P|SMARCA4_uc002mqi.1_Silent_p.P192P	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	989					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CCCAGTTGCCCGAAAAGGTGA	0.597			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				5	15					0	0	1	0	0		T	11134301	T	T	11134301	2	4	151	1	0	0	0	0	0	0	0	1	14795	639	23	1		1	SMARCA4	19	11134301	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	463949	11134301	47994682	4013	81178											
ZNF823	55552	broad.mit.edu	37	chr19	11832903	11832903	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgagaaaggtatttgaaAcaactgaatgctttcccaca	14	12	8	7	0	0	3	0	3	0	1	1	4	1	3	1	1	3	3	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:11832903A>G	uc002msm.2	-	4	1572	c.1446T>C	c.(1444-1446)TGT>TGC	p.C482C	ZNF823_uc010xmd.1_Silent_p.C300C|ZNF823_uc010dyi.1_Silent_p.C438C	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	482	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GGTATTTGAAACAACTGAATG	0.373										HNSCC(68;0.2)			6	218					0	0	1	0	0		G	11832903	G	G	11832903	2	3	151	1	0	0	0	0	0	0	0	1	18204	41	2	3		3	ZNF823	19	11832903	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	698602	11832903	47296080	4014	81179											
ZNF844	284391	broad.mit.edu	37	chr19	12186294	12186294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcattcttcccttaataGgcacattagagctgacactg	10	12	9	10	0	2	2	1	1	1	1	3	2	3	2	1	2	1	2	1	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12186294G>T	uc002mtb.2	+	4	502	c.359G>T	c.(358-360)AGG>ATG	p.R120M	ZNF844_uc010dym.1_Translation_Start_Site	NM_001136501	NP_001129973	Q08AG5	ZN844_HUMAN	zinc finger protein 844	120	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCCCTTAATAGGCACATTAGA	0.433													8	31					0.0381472	0.0382882	1	1	0		T	12186294	T	T	12186294	3	4	151	1	0	0	0	0	1	0	0	0	18215	1000	35	5	373	5	ZNF844	19	12186294	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	353391	12186294	46942689	4015	81180											
ZNF20	7568	broad.mit.edu	37	chr19	12243602	12243602	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgagtcctttcatgatatcGaatggaactggaacaagtga	13	11	11	6	1	1	3	1	3	0	0	3	6	2	5	1	2	2	0	1	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12243602G>A	uc002mtf.1	-	4	1542	c.1399C>T	c.(1399-1401)CGA>TGA	p.R467*	ZNF20_uc002mte.1_Nonsense_Mutation_p.R432*|ZNF20_uc002mtg.1_Nonsense_Mutation_p.R467*	NM_021143	NP_066966	P17024	ZNF20_HUMAN	zinc finger protein 20	467	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCATGATATCGAATGGAACTG	0.403													58	200					0	0	1	0	0		A	12243602	A	A	12243602	4	1	151	1	0	0	0	0	0	1	0	0	17786	1066	37	1	203	1	ZNF20	19	12243602	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	57308	12243602	46885381	4016	81181											
ZNF799	90576	broad.mit.edu	37	chr19	12501728	12501728	+	Missense_Mutation	SNP	C	T	T																															tctctcctgtgtgagtccttCtatgttgagaaaggtattgg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12501728C>T	uc010dyt.2	-	4	1634	c.1484G>A	c.(1483-1485)AGA>AAA	p.R495K	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	495	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						GTGAGTCCTTCTATGTTGAGA	0.378													10	154					0	0	1	0	0		T	12501728	T	T	12501728	3	4	151	1	0	0	0	0	1	0	0	0	18191	913	32	4	451	4	ZNF799	19	12501728	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	258126	12501728	46627255	4017	81182	154	2									
ZNF799	90576	broad.mit.edu	37	chr19	12501734	12501734	+	Missense_Mutation	SNP	T	C	C																															ctgtgtgagtccttctatgtTgagaaaggtattggaaacaa																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12501734T>C	uc010dyt.2	-	4	1628	c.1478A>G	c.(1477-1479)CAA>CGA	p.Q493R	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	493	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						CCTTCTATGTTGAGAAAGGTA	0.368													11	158					0	0	1	0	0		C	12501734	C	C	12501734	3	2	151	1	0	0	0	0	1	0	0	0	18191	1812	63	3	457	3	ZNF799	19	12501734	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6	12501734	46627249	4018	81183	154	2									
ZNF799	90576	broad.mit.edu	37	chr19	12502023	12502023	+	Missense_Mutation	SNP	T	C	C	0	1	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	aacaaaggctttcccacataTcttgcatttgtgaggtccat	11	13	7	10	0	1	1	0	1	1	0	3	1	3	1	2	2	2	2	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12502023T>C	uc010dyt.2	-	4	1339	c.1189A>G	c.(1189-1191)ATA>GTA	p.I397V	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	397	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TTCCCACATATCTTGCATTTG	0.418													45	268					0	0	1	0	0		C	12502023	C	C	12502023	3	2	151	1	0	0	0	0	1	0	0	0	18191	1435	50	3	746	3	ZNF799	19	12502023	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	289	12502023	46626960	4019	81184											
ZNF443	10224	broad.mit.edu	37	chr19	12541723	12541723	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccacataccttgcatttAtgaggtccatctccagtgtg	8	14	7	12	0	1	1	0	1	1	0	4	1	3	1	4	1	2	1	4	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12541723A>G	uc002mtu.2	-	4	1461	c.1263T>C	c.(1261-1263)CAT>CAC	p.H421H		NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	421	C2H2-type 11.				induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						CCTTGCATTTATGAGGTCCAT	0.413													20	313					0	0	1	0	0		G	12541723	G	G	12541723	2	3	151	1	0	0	0	0	0	0	0	1	17941	446	16	3		3	ZNF443	19	12541723	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	39700	12541723	46587260	4020	81185											
MAN2B1	4125	broad.mit.edu	37	chr19	12758258	12758258	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaattttgcccttctcaccCtcaagttcaaggtaacgggg	9	12	8	12	1	4	0	4	0	1	0	5	0	4	0	2	3	2	2	2	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12758258C>A	uc002mub.2	-	22	2895	c.2819G>T	c.(2818-2820)AGG>ATG	p.R940M	MAN2B1_uc010dyv.1_Missense_Mutation_p.R939M	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	940					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						CCTTCTCACCCTCAAGTTCAA	0.572													27	113					6.38683e-12	6.60698e-12	1	1	0		A	12758258	A	A	12758258	3	1	151	1	0	0	0	0	1	0	0	0	9234	695	24	5	228	5	MAN2B1	19	12758258	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	216535	12758258	46370725	4021	81186											
HOOK2	29911	broad.mit.edu	37	chr19	12882282	12882282	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctcacttaggaaatagtAcctgcgggactgcagagatg	11	9	11	10	1	1	1	1	0	0	1	2	4	2	3	2	2	3	2	2	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:12882282A>G	uc002muy.2	-	8	700	c.529T>C	c.(529-531)TAC>CAC	p.Y177H	HOOK2_uc002muz.2_Missense_Mutation_p.Y177H	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	177	Sufficient for interaction with microtubules.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						AGGAAATAGTACCTGCGGGAC	0.602													6	13					0	0	1	0	0		G	12882282	G	G	12882282	3	3	151	1	0	0	0	0	1	0	0	0	7299	391	14	3	1694	3	HOOK2	19	12882282	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	124024	12882282	46246701	4022	81187											
FARSA	2193	broad.mit.edu	37	chr19	13035921	13035921	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccctgtgagccgtagccGccctgagagtgggtccgctt	5	8	13	15	3	0	2	0	2	0	1	1	3	1	2	6	1	2	2	6	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:13035921G>A	uc002mvs.2	-	8	957	c.909C>T	c.(907-909)GGC>GGT	p.G303G	FARSA_uc002mvt.2_RNA|FARSA_uc010xmv.1_Silent_p.G272G|FARSA_uc010dyy.1_Silent_p.G224G	NM_004461	NP_004452	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	303					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|phenylalanine-tRNA ligase activity|protein binding|tRNA binding			ovary(1)	1					L-Phenylalanine(DB00120)	AGCCGTAGCCGCCCTGAGAGT	0.622													5	9					0	0	1	0	0		A	13035921	A	A	13035921	2	1	151	1	0	0	0	0	0	0	0	1	5693	1074	38	1		1	FARSA	19	13035921	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	153639	13035921	46093062	4023	81188											
RAD23A	5886	broad.mit.edu	37	chr19	13059009	13059009	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccaaagccggccagggtAcctcagcacccccagaggcc	11	2	11	17	1	1	2	1	0	0	2	1	2	1	2	7	3	3	2	7	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:13059009A>G	uc002mvw.1	+	3	362	c.253A>G	c.(253-255)ACC>GCC	p.T85A	RAD23A_uc002mvx.1_Missense_Mutation_p.T85A|RAD23A_uc002mvz.1_Missense_Mutation_p.T85A|RAD23A_uc002mwa.1_Missense_Mutation_p.T85A|RAD23A_uc002mvy.1_5'UTR|RAD23A_uc010xmw.1_5'UTR	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	85					interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						CGGCCAGGGTACCTCAGCACC	0.647								NER					11	56					0	0	1	0	0		G	13059009	G	G	13059009	3	3	151	1	0	0	0	0	1	0	0	0	13007	391	14	3	263	3	RAD23A	19	13059009	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	23088	13059009	46069974	4024	81189											
DAND5	199699	broad.mit.edu	37	chr19	13084403	13084403	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccgtcgacgggtgaagatAtccaccatgctgatcgaggg	9	8	13	11	4	0	3	0	2	0	1	4	5	2	3	3	2	1	1	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:13084403A>G	uc002mwc.1	+	2	568	c.525A>G	c.(523-525)ATA>ATG	p.I175M	DAND5_uc010dyz.1_3'UTR	NM_152654	NP_689867	Q8N907	DAND5_HUMAN	dante precursor	175	CTCK.					extracellular region				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(19;1.87e-18)			GGGTGAAGATATCCACCATGC	0.587													6	84					0	0	1	0	0		G	13084403	G	G	13084403	3	3	151	1	0	0	0	0	1	0	0	0	4233	439	16	3	531	3	DAND5	19	13084403	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	25394	13084403	46044580	4025	81190											
CACNA1A	773	broad.mit.edu	37	chr19	13323264	13323264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggactccatgtgcccgtCttctggaacatctcctgggc	5	11	10	15	2	3	0	0	0	3	0	6	2	5	2	4	3	2	0	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:13323264C>A	uc010dze.2	-	42	6362	c.6126G>T	c.(6124-6126)AAG>AAT	p.K2042N	CACNA1A_uc010xnd.1_Missense_Mutation_p.K747N|CACNA1A_uc002mwx.3_Missense_Mutation_p.K747N|CACNA1A_uc010dzc.2_Missense_Mutation_p.K1567N|CACNA1A_uc002mwy.3_Missense_Mutation_p.K2041N|CACNA1A_uc002mwv.3_Missense_Mutation_p.K558N	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	2042	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	ATGTGCCCGTCTTCTGGAACA	0.642													3	16					0.004672	0.00470143	1	1	0		A	13323264	A	A	13323264	3	1	151	1	0	0	0	0	1	0	0	0	2541	912	32	5	1421	5	CACNA1A	19	13323264	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	238861	13323264	45805719	4026	81191											
MRI1	84245	broad.mit.edu	37	chr19	13879676	13879676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgcgtggttgccaacggcGacacagccaacaaggtgggc	10	4	14	13	4	0	0	0	0	0	0	0	1	0	0	3	4	4	1	3	4	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:13879676G>A	uc002mxe.2	+	5	829	c.763G>A	c.(763-765)GAC>AAC	p.D255N	MRI1_uc002mxf.2_Missense_Mutation_p.D208N	NM_001031727	NP_001026897	Q9BV20	MTNA_HUMAN	translation initiation factor eIF-2B subunit	255					L-methionine salvage from methylthioadenosine	cell projection|cytoplasm|nucleus	identical protein binding|S-methyl-5-thioribose-1-phosphate isomerase activity			ovary(1)	1						TGCCAACGGCGACACAGCCAA	0.637													10	29					0	0	1	0	0		A	13879676	A	A	13879676	3	1	151	1	0	0	0	0	1	0	0	0	9788	1058	37	1	874	1	MRI1	19	13879676	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	556412	13879676	45249307	4027	81192											
C19orf53	28974	broad.mit.edu	37	chr19	13885340	13885340	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcacaaacccgcaaagagtAagacggcagcggcagcctct	13	3	11	14	4	1	2	0	0	1	2	1	2	1	2	2	2	3	5	2	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:13885340A>G	uc002mxg.2	+	1	84	c.49A>G	c.(49-51)AAG>GAG	p.K17E		NM_014047	NP_054766	Q9UNZ5	L10K_HUMAN	Leydig cell tumor 10 kDa protein	17										ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(19;7.7e-24)|Epithelial(5;2.53e-19)			CGCAAAGAGTAAGACGGCAGC	0.667													3	12					0	0	1	0	0		G	13885340	G	G	13885340	3	3	151	1	0	0	0	0	1	0	0	0	1938	363	13	3	51	3	C19orf53	19	13885340	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5664	13885340	45243643	4028	81193											
ZSWIM4	65249	broad.mit.edu	37	chr19	13941371	13941371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgggcctacaagctggcgaCgctggccctggcgcagctca	6	5	14	16	4	1	0	1	0	0	0	1	1	1	0	3	4	3	4	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:13941371C>T	uc002mxh.1	+	13	2666	c.2477C>T	c.(2476-2478)ACG>ATG	p.T826M	ZSWIM4_uc010xng.1_Missense_Mutation_p.T749M	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	826							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			AAGCTGGCGACGCTGGCCCTG	0.711													6	53					0	0	1	0	0		T	13941371	T	T	13941371	3	4	151	1	0	0	0	0	1	0	0	0	18268	536	19	1	2527	1	ZSWIM4	19	13941371	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	56031	13941371	45187612	4029	81194											
CC2D1A	54862	broad.mit.edu	37	chr19	14040219	14040219	+	Silent	SNP	T	C	C	0	1	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	cggcccctgcatagcctcagTgtgctggcgtttgaccaaga	7	9	12	13	2	1	2	1	1	0	1	1	2	1	2	4	2	3	3	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14040219T>C	uc002mxo.2	+	25	2846	c.2547T>C	c.(2545-2547)AGT>AGC	p.S849S	CC2D1A_uc002mxp.2_Silent_p.S848S|CC2D1A_uc010dzh.2_Silent_p.S418S	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	849					positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			ATAGCCTCAGTGTGCTGGCGT	0.592													15	229					0	0	1	0	0		C	14040219	C	C	14040219	2	2	151	1	0	0	0	0	0	0	0	1	2729	1693	59	3		3	CC2D1A	19	14040219	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	98848	14040219	45088764	4030	81195											
IL27RA	9466	broad.mit.edu	37	chr19	14143218	14143218	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcagcgccgggccactgcagTgctacggagttggacccttg	6	7	15	13	3	0	0	0	0	0	0	0	2	0	2	3	3	4	4	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14143218T>C	uc002mxx.2	+	2	544	c.121T>C	c.(121-123)TGC>CGC	p.C41R		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	41	Extracellular (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						GCCACTGCAGTGCTACGGAGT	0.627													34	152					0	0	1	0	0		C	14143218	C	C	14143218	3	2	151	1	0	0	0	0	1	0	0	0	7697	1696	59	3	127	3	IL27RA	19	14143218	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	102999	14143218	44985765	4031	81196											
IL27RA	9466	broad.mit.edu	37	chr19	14159811	14159811	+	Missense_Mutation	SNP	T	C	C	0	1	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	agggaatttcactgtcggggTcccctatcgaatcactgtga	9	11	11	10	2	2	1	2	1	0	0	5	3	3	2	2	3	0	0	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14159811T>C	uc002mxx.2	+	9	1583	c.1160T>C	c.(1159-1161)GTC>GCC	p.V387A		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	387	Extracellular (Potential).|Fibronectin type-III 2.				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						ACTGTCGGGGTCCCCTATCGA	0.478											OREG0025303	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	91					0	0	1	0	0		C	14159811	C	C	14159811	3	2	151	1	0	0	0	0	1	0	0	0	7697	1667	58	3	1194	3	IL27RA	19	14159811	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	16593	14159811	44969172	4032	81197											
ASF1B	55723	broad.mit.edu	37	chr19	14232432	14232432	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtagcccactcggatgaacTcctgtccatggtaggtgcag	9	9	12	11	1	0	1	0	1	0	0	3	2	2	2	3	3	3	3	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14232432T>C	uc002mye.2	-	3	486	c.314A>G	c.(313-315)GAG>GGG	p.E105G		NM_018154	NP_060624	Q9NVP2	ASF1B_HUMAN	anti-silencing function 1B	105	Interaction with CHAF1B.|Interaction with histone H3 (By similarity).				cell differentiation|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus					0						TCGGATGAACTCCTGTCCATG	0.592													29	62					0	0	1	0	0		C	14232432	C	C	14232432	3	2	151	1	0	0	0	0	1	0	0	0	1039	1551	54	3	302	3	ASF1B	19	14232432	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	72621	14232432	44896551	4033	81198											
LPHN1	22859	broad.mit.edu	37	chr19	14268255	14268255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaccgacagcagcagctcGttgatgcggccctggtactg	8	8	13	12	3	0	2	0	2	0	0	1	3	0	2	2	2	5	5	2	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14268255G>A	uc010xnn.1	-	15	2864	c.2568C>T	c.(2566-2568)AAC>AAT	p.N856N	LPHN1_uc010xno.1_Silent_p.N851N|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	856	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						GCAGCAGCTCGTTGATGCGGC	0.637													13	44					0	0	1	0	0		A	14268255	A	A	14268255	2	1	151	1	0	0	0	0	0	0	0	1	8933	1136	40	1		1	LPHN1	19	14268255	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	35823	14268255	44860728	4034	81199											
CD97	976	broad.mit.edu	37	chr19	14501875	14501875	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaacattcaagaatgagagCgagaacacctgtcaaggtaa	19	6	9	7	1	2	3	2	1	0	3	2	5	2	3	1	1	3	1	1	1	7	2	rs140836731	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14501875C>T	uc002myl.2	+	4	453	c.330C>T	c.(328-330)AGC>AGT	p.S110S	CD97_uc002mym.2_Silent_p.S110S|CD97_uc002myn.2_Silent_p.S110S	NM_078481	NP_510966	P48960	CD97_HUMAN	CD97 antigen isoform 1 precursor	110	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(3)|breast(1)	4						AGAATGAGAGCGAGAACACCT	0.537													20	106					0	0	1	0	0		T	14501875	T	T	14501875	2	4	151	1	0	0	0	0	0	0	0	1	3052	767	27	1		1	CD97	19	14501875	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	233620	14501875	44627108	4035	81200											
PKN1	5585	broad.mit.edu	37	chr19	14554341	14554341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaccaacctgagccgcGtggcgggcctggagaagcag	8	3	16	14	4	0	2	0	1	0	1	0	3	0	2	5	4	3	1	5	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14554341G>A	uc002myp.2	+	3	550	c.382G>A	c.(382-384)GTG>ATG	p.V128M	PKN1_uc002myq.2_Missense_Mutation_p.V134M	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	128	REM 2.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CCTGAGCCGCGTGGCGGGCCT	0.647													8	4					0	0	1	0	0		A	14554341	A	A	14554341	3	1	151	1	0	0	0	0	1	0	0	0	11998	1145	40	1	435	1	PKN1	19	14554341	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	52466	14554341	44574642	4036	81201											
PKN1	5585	broad.mit.edu	37	chr19	14580254	14580254	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacaccggagcacgtgtgctTcgtgatggagtactcggccg	7	8	15	11	5	0	1	0	1	0	0	2	4	0	3	2	3	3	3	2	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14580254T>C	uc002myp.2	+	16	2246	c.2078T>C	c.(2077-2079)TTC>TCC	p.F693S	PKN1_uc002myq.2_Missense_Mutation_p.F699S|PKN1_uc002myr.2_Missense_Mutation_p.F33S	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	693	Protein kinase.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CACGTGTGCTTCGTGATGGAG	0.627													40	138					0	0	1	0	0		C	14580254	C	C	14580254	3	2	151	1	0	0	0	0	1	0	0	0	11998	1783	62	3	2183	3	PKN1	19	14580254	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	25913	14580254	44548729	4037	81202											
DNAJB1	3337	broad.mit.edu	37	chr19	14629004	14629004	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgcgcgggtcgctgagcacgTcgtaggcctcagcgatctcc	5	8	14	14	6	2	1	1	1	1	0	5	2	2	1	2	2	3	3	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14629004T>C	uc002myz.1	-	1	198	c.158A>G	c.(157-159)GAC>GGC	p.D53G	DNAJB1_uc010xnr.1_Intron	NM_006145	NP_006136	P25685	DNJB1_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 1	53	J.				chaperone cofactor-dependent protein refolding|response to unfolded protein	cytoplasm|nucleolus	heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(1328;0.0476)		GCTGAGCACGTCGTAGGCCTC	0.677													3	16					0	0	1	0	0		C	14629004	C	C	14629004	3	2	151	1	0	0	0	0	1	0	0	0	4621	1667	58	3	876	3	DNAJB1	19	14629004	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	48750	14629004	44499979	4038	81203											
NDUFB7	4713	broad.mit.edu	37	chr19	14682803	14682803	+	Frame_Shift_Del	DEL	G	-	-																															caggtagcgccggaccaggtGggcccccatggctgcagtcg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14682803delG	uc002mzg.2	-	1	84	c.10delC	c.(10-12)CACfs	p.H4fs		NM_004146	NP_004137	P17568	NDUB7_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	4					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)	CGGACCAGGTGGGCCCCCATG	0.677													4	9	---	---	---	---						.	-	14682803	-	-	14682803	7	5	151	1	0	1	0	1	0	0	0	0	10305	1348	47	0	415	0	NDUFB7	19	14682803	Frame_Shift_Del	DEL	G	TCGA-CG-5721-01A-11D-1600-08	53799	14682803	44446180	4039	81204											
OR7A10	390892	broad.mit.edu	37	chr19	14952342	14952342	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccggtcataggccatcacGgtcagaaggaagttatccaa	14	7	10	10	2	3	1	3	0	0	1	4	2	4	2	3	4	1	1	3	4	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:14952342G>A	uc002mzx.1	-	1	348	c.348C>T	c.(346-348)ACC>ACT	p.T116T		NM_001005190	NP_001005190	O76100	OR7AA_HUMAN	olfactory receptor, family 7, subfamily A,	116	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					AGGCCATCACGGTCAGAAGGA	0.483													23	83					0	0	1	0	0		A	14952342	A	A	14952342	2	1	151	1	0	0	0	0	0	0	0	1	11233	1103	39	1		1	OR7A10	19	14952342	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	269539	14952342	44176641	4040	81205											
NOTCH3	4854	broad.mit.edu	37	chr19	15271701	15271701	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcaggggattcgggggatggGgtcaggtaagggtgctcact	7	9	19	6	1	3	0	3	0	0	0	4	2	3	2	0	8	1	2	0	8	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:15271701G>T	uc002nan.2	-	33	6814	c.6738C>A	c.(6736-6738)ACC>ACA	p.T2246T		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	2246	Cytoplasmic (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CGGGGGATGGGGTCAGGTAAG	0.682													5	28					0.00116845	0.00117777	1	1	0		T	15271701	T	T	15271701	2	4	151	1	0	0	0	0	0	0	0	1	10569	1219	43	5		5	NOTCH3	19	15271701	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	319359	15271701	43857282	4041	81206											
NOTCH3	4854	broad.mit.edu	37	chr19	15302962	15302962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggcagggctcacccaccCggcactcatccacgtcgctt	6	6	11	18	4	2	0	2	0	0	0	4	0	3	0	3	4	0	4	3	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:15302962C>T	uc002nan.2	-	4	564	c.488G>A	c.(487-489)CGG>CAG	p.R163Q	NOTCH3_uc002nao.1_Missense_Mutation_p.R163Q	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	163	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CTCACCCACCCGGCACTCATC	0.672													8	21					0	0	1	0	0		T	15302962	T	T	15302962	3	4	151	1	0	0	0	0	1	0	0	0	10569	652	23	1	6597	1	NOTCH3	19	15302962	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	31261	15302962	43826021	4042	81207											
BRD4	23476	broad.mit.edu	37	chr19	15376427	15376427	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcttgagttgtgtttggtAccgtggaaacgccaggtttt	7	15	13	6	2	0	1	0	1	0	0	0	2	0	2	2	3	3	5	2	3	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:15376427A>G	uc002nar.2	-	5	809	c.587T>C	c.(586-588)GTA>GCA	p.V196A	BRD4_uc002nas.2_Missense_Mutation_p.V196A|BRD4_uc002nat.3_Missense_Mutation_p.V196A|BRD4_uc002nau.3_Missense_Mutation_p.V196A	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	196					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			TGTGTTTGGTACCGTGGAAAC	0.572			T	NUT|C15orf55	lethal midline carcinoma of young people								61	207					0	0	1	0	0		G	15376427	G	G	15376427	3	3	151	1	0	0	0	0	1	0	0	0	1507	391	14	3	3580	3	BRD4	19	15376427	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	73465	15376427	43752556	4043	81208											
AKAP8	10270	broad.mit.edu	37	chr19	15465764	15465764	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctttagactctgcatcagTttgttccacttcagcatccg	7	15	7	12	1	4	1	2	0	2	1	6	1	6	1	2	0	2	4	2	0	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:15465764T>C	uc002nav.2	-	14	2102	c.2041A>G	c.(2041-2043)ACT>GCT	p.T681A	AKAP8_uc010dzy.2_Missense_Mutation_p.T230A	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	681					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TCTGCATCAGTTTGTTCCACT	0.547													22	90					0	0	1	0	0		C	15465764	C	C	15465764	3	2	151	1	0	0	0	0	1	0	0	0	457	1725	60	3	41	3	AKAP8	19	15465764	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	89337	15465764	43663219	4044	81209											
AKAP8	10270	broad.mit.edu	37	chr19	15479061	15479061	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcacctgtcggctgcacggTcccgcgtcctgtctcttctc	2	12	9	18	4	3	0	1	0	2	0	8	0	5	0	3	2	1	2	3	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:15479061T>C	uc002nav.2	-	9	1206	c.1145A>G	c.(1144-1146)GAC>GGC	p.D382G	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.D196G	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	382					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						GGCTGCACGGTCCCGCGtcct	0.458													12	34					0	0	1	0	0		C	15479061	C	C	15479061	3	2	151	1	0	0	0	0	1	0	0	0	457	1667	58	3	957	3	AKAP8	19	15479061	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	13297	15479061	43649922	4045	81210											
OR10H2	26538	broad.mit.edu	37	chr19	15839069	15839069	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctcagtctccgagatcctCtacaccgtggccatcatccc	7	10	6	18	2	4	1	2	0	3	1	8	2	6	1	5	1	1	0	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:15839069C>T	uc002nbm.2	+	1	236	c.216C>T	c.(214-216)CTC>CTT	p.L72L		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	72	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CCGAGATCCTCTACACCGTGG	0.622													24	87					0	0	1	0	0		T	15839069	T	T	15839069	2	4	151	1	0	0	0	0	0	0	0	1	10925	900	32	4		4	OR10H2	19	15839069	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	360008	15839069	43289914	4046	81211											
AP1M1	8907	broad.mit.edu	37	chr19	16319907	16319907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccagccaccgtcaccaaCgcggtgtcctggcggtccga	7	5	11	18	5	1	0	1	0	0	0	3	1	3	0	7	3	2	0	7	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:16319907C>T	uc002ndu.2	+	5	638	c.465C>T	c.(463-465)AAC>AAT	p.N155N	AP1M1_uc002ndv.2_Silent_p.N155N|AP1M1_uc010xpd.1_Silent_p.N155N	NM_032493	NP_115882	Q9BXS5	AP1M1_HUMAN	adaptor-related protein complex 1, mu 1 subunit	155					cellular membrane organization|endosome to melanosome transport|interspecies interaction between organisms|intracellular protein transport|melanosome organization|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(3)|breast(1)	4						CCGTCACCAACGCGGTGTCCT	0.587													22	54					0	0	1	0	0		T	16319907	T	T	16319907	2	4	151	1	0	0	0	0	0	0	0	1	734	535	19	1		1	AP1M1	19	16319907	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	480838	16319907	42809076	4047	81212											
CALR3	125972	broad.mit.edu	37	chr19	16596064	16596064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatcaaatccacaaatatcGggtcctacaaaaaagattag	19	9	5	8	1	1	1	1	0	0	1	4	1	3	1	2	1	1	0	2	1	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:16596064G>A	uc002ned.2	-	4	465	c.402C>T	c.(400-402)CCC>CCT	p.P134P	MED26_uc002nee.2_Intron	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	134	N-domain.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						CACAAATATCGGGTCCTACAA	0.308													17	63					0	0	1	0	0		A	16596064	A	A	16596064	2	1	151	1	0	0	0	0	0	0	0	1	2596	1103	39	1		1	CALR3	19	16596064	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	276157	16596064	42532919	4048	81213											
MED26	9441	broad.mit.edu	37	chr19	16688193	16688193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcacgctggtcaccccGgcgcttgcggctgcccagcc	4	6	14	17	4	2	0	2	0	0	0	2	1	2	0	4	4	3	3	4	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:16688193G>A	uc002nen.1	-	3	709	c.448C>T	c.(448-450)CGG>TGG	p.R150W	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	150					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						TGGTCACCCCGGCGCTTGCGG	0.701													3	14					0	0	1	0	0		A	16688193	A	A	16688193	3	1	151	1	0	0	0	0	1	0	0	0	9462	1115	39	1	1358	1	MED26	19	16688193	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	92129	16688193	42440790	4049	81214											
SIN3B	23309	broad.mit.edu	37	chr19	16942437	16942437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaatggcaagttaaacatAcagtcgcctctgacaagcca	16	7	8	10	1	1	2	0	1	1	1	2	2	1	2	2	1	3	2	2	1	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:16942437A>G	uc002ney.1	+	3	374	c.360A>G	c.(358-360)ATA>ATG	p.I120M	SIN3B_uc002new.2_Missense_Mutation_p.I120M|SIN3B_uc002nex.2_Missense_Mutation_p.I52M|SIN3B_uc002nez.1_Missense_Mutation_p.I120M	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	120					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						AGTTAAACATACAGTCGCCTC	0.507													28	117					0	0	1	0	0		G	16942437	G	G	16942437	3	3	151	1	0	0	0	0	1	0	0	0	14351	381	14	3	370	3	SIN3B	19	16942437	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	254244	16942437	42186546	4050	81215											
CPAMD8	27151	broad.mit.edu	37	chr19	17039982	17039982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcacagccacatcaaagcGggtgaggcgcagtggccgct	9	5	14	13	4	1	1	1	1	0	0	2	1	1	1	2	3	2	3	2	3	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17039982G>A	uc002nfb.2	-	24	3087	c.3055C>T	c.(3055-3057)CGC>TGC	p.R1019C		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	972						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						ACATCAAAGCGGGTGAGGCGC	0.587													5	43					0	0	1	0	0		A	17039982	A	A	17039982	3	1	151	1	0	0	0	0	1	0	0	0	3798	1116	39	1	2819	1	CPAMD8	19	17039982	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	97545	17039982	42089001	4051	81216											
CPAMD8	27151	broad.mit.edu	37	chr19	17081839	17081839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtcatcaccaccagtcccGtttcctaggcaacagacaac	11	7	7	16	2	2	1	2	0	0	1	4	1	4	1	4	2	2	2	4	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17081839G>A	uc002nfb.2	-	18	2248	c.2216C>T	c.(2215-2217)ACG>ATG	p.T739M		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	692						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						CACCAGTCCCGTTTCCTAGGC	0.602													16	59					0	0	1	0	0		A	17081839	A	A	17081839	3	1	151	1	0	0	0	0	1	0	0	0	3798	1145	40	1	3682	1	CPAMD8	19	17081839	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	41857	17081839	42047144	4052	81217											
HAUS8	93323	broad.mit.edu	37	chr19	17163650	17163650	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtaccttcggagctcaaggTcctttttcgccgtcacgtcc	5	12	10	14	4	2	0	2	0	0	0	6	1	4	1	4	3	2	2	4	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17163650T>C	uc002nfe.2	-	10	1025	c.914A>G	c.(913-915)GAC>GGC	p.D305G	HAUS8_uc002nff.2_Missense_Mutation_p.D304G|HAUS8_uc002nfg.1_Missense_Mutation_p.D244G|HAUS8_uc002nfh.1_Missense_Mutation_p.D305G	NM_033417	NP_219485	Q9BT25	HAUS8_HUMAN	sarcoma antigen NY-SAR-48 isoform a	305					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole					0						GAGCTCAAGGTCCTTTTTCGC	0.537											OREG0025339	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	140					0	0	1	0	0		C	17163650	C	C	17163650	3	2	151	1	0	0	0	0	1	0	0	0	6988	1667	58	3	326	3	HAUS8	19	17163650	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	81811	17163650	41965333	4053	81218											
MYO9B	4650	broad.mit.edu	37	chr19	17312954	17312954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagaacgggaagatccacGtgggctacaaggatctgatg	13	7	13	8	2	1	3	0	1	1	2	2	5	2	5	1	3	3	1	1	3	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17312954G>A	uc010eak.2	+	28	4830	c.4678G>A	c.(4678-4680)GTG>ATG	p.V1560M	MYO9B_uc002nfi.2_Missense_Mutation_p.V1560M|MYO9B_uc002nfj.1_Missense_Mutation_p.V1560M|MYO9B_uc002nfl.1_Missense_Mutation_p.V109M	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1560	Tail.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						GAAGATCCACGTGGGCTACAA	0.587													7	27					0	0	1	0	0		A	17312954	A	A	17312954	3	1	151	1	0	0	0	0	1	0	0	0	10103	1145	40	1	4784	1	MYO9B	19	17312954	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	149304	17312954	41816029	4054	81219											
ANKLE1	126549	broad.mit.edu	37	chr19	17394238	17394238	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagctcagacgcctctttcgTcacagcggttgaggtctctg	6	11	11	13	3	4	2	2	1	2	1	6	2	4	2	1	2	2	2	1	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17394238T>C	uc002nga.2	+	5	941	c.665T>C	c.(664-666)GTC>GCC	p.V222A	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Missense_Mutation_p.V244A|ANKLE1_uc010xpn.1_Missense_Mutation_p.V276A|ANKLE1_uc002nfy.2_Missense_Mutation_p.V211A|ANKLE1_uc002nfz.2_5'UTR	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	222						nuclear envelope					0						GCCTCTTTCGTCACAGCGGTT	0.627													24	116					0	0	1	0	0		C	17394238	C	C	17394238	3	2	151	1	0	0	0	0	1	0	0	0	632	1667	58	3	683	3	ANKLE1	19	17394238	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	81284	17394238	41734745	4055	81220											
FAM129C	199786	broad.mit.edu	37	chr19	17653018	17653018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaggccgagcggagccGggggcgcttggggcagctgg	4	4	22	11	5	0	1	0	1	0	0	0	3	0	2	3	7	3	3	3	7	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17653018G>A	uc010xpr.1	+	11	1475	c.1337G>A	c.(1336-1338)CGG>CAG	p.R446Q	FAM129C_uc010xpq.1_Missense_Mutation_p.R446Q|FAM129C_uc002ngy.3_Missense_Mutation_p.R172Q|FAM129C_uc010xpu.1_Missense_Mutation_p.R172Q|FAM129C_uc002ngz.3_RNA|FAM129C_uc010eaw.2_Missense_Mutation_p.R172Q|FAM129C_uc002nhb.2_Missense_Mutation_p.R45Q	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	446											0						GAGCGGAGCCGGGGGCGCTTG	0.622													43	149					0	0	1	0	0		A	17653018	A	A	17653018	3	1	151	1	0	0	0	0	1	0	0	0	5449	1116	39	1	1379	1	FAM129C	19	17653018	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	258780	17653018	41475965	4056	81221											
GLT25D1	79709	broad.mit.edu	37	chr19	17679457	17679457	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacctggccttctacccacCtcaccctgactacacctggt	8	9	6	18	0	2	1	1	1	1	0	2	2	2	1	6	2	3	0	6	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17679457C>A	uc002nhc.1	+	5	776	c.764C>A	c.(763-765)CCT>CAT	p.P255H	GLT25D1_uc010eax.1_Missense_Mutation_p.P23H	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	255					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						TTCTACCCACCTCACCCTGAC	0.602													15	86					9.16793e-09	9.40691e-09	1	1	0		A	17679457	A	A	17679457	3	1	151	1	0	0	0	0	1	0	0	0	6481	681	24	5	782	5	GLT25D1	19	17679457	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	26439	17679457	41449526	4057	81222											
UNC13A	23025	broad.mit.edu	37	chr19	17750650	17750650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcacacacttcctaccCggtacatggagaggtcaatc	11	9	8	13	1	2	1	2	0	0	1	4	2	3	1	2	3	3	2	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17750650C>T	uc002nhd.2	-	23	3119	c.3119G>A	c.(3118-3120)CGG>CAG	p.R1040Q		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	952					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ACTTCCTACCCGGTACATGGA	0.567													13	78					0	0	1	0	0		T	17750650	T	T	17750650	3	4	151	1	0	0	0	0	1	0	0	0	17010	666	23	1	2340	1	UNC13A	19	17750650	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	71193	17750650	41378333	4058	81223											
FCHO1	23149	broad.mit.edu	37	chr19	17885203	17885203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccccaatctatcctcagCgatgaaacgtttgcggggag	9	8	11	13	3	2	1	1	1	1	0	3	3	3	2	4	2	3	1	4	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17885203C>T	uc010ebb.2	+	12	1025	c.836C>T	c.(835-837)GCG>GTG	p.A279V	FCHO1_uc002nhg.3_Missense_Mutation_p.A279V|FCHO1_uc002nhh.2_Missense_Mutation_p.A279V|FCHO1_uc010xpw.1_Missense_Mutation_p.A229V|FCHO1_uc010ebc.1_Missense_Mutation_p.A286V	NM_001161358	NP_001154830	O14526	FCHO1_HUMAN	FCH domain only 1 isoform b	279										breast(1)	1						CTATCCTCAGCGATGAAACGT	0.627													19	69					0	0	1	0	0		T	17885203	T	T	17885203	3	4	151	1	0	0	0	0	1	0	0	0	5801	782	27	1	874	1	FCHO1	19	17885203	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	134553	17885203	41243780	4059	81224											
B3GNT3	10331	broad.mit.edu	37	chr19	17922425	17922425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaggtgcgccaacgccagcTtcgtgctcaacggggatgat	9	7	13	12	4	1	1	1	1	0	0	2	2	1	2	2	3	5	2	2	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17922425T>C	uc002nhk.1	+	3	698	c.613T>C	c.(613-615)TTC>CTC	p.F205L	B3GNT3_uc002nhl.1_Missense_Mutation_p.F205L|B3GNT3_uc010ebd.1_Missense_Mutation_p.F205L|B3GNT3_uc010ebe.1_Missense_Mutation_p.F205L	NM_014256	NP_055071	Q9Y2A9	B3GN3_HUMAN	UDP-GlcNAc:betaGal	205	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to plasma membrane	galactosyltransferase activity			upper_aerodigestive_tract(1)	1						CAACGCCAGCTTCGTGCTCAA	0.582													3	63					0	0	1	0	0		C	17922425	C	C	17922425	3	2	151	1	0	0	0	0	1	0	0	0	1259	1609	56	3	619	3	B3GNT3	19	17922425	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	37222	17922425	41206558	4060	81225											
RPL18A	6142	broad.mit.edu	37	chr19	17973010	17973010	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaataccgggacctgaccacCgcaggcgctgtcacccagtg	9	5	12	15	3	1	1	1	1	0	0	1	3	1	2	5	2	1	2	5	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:17973010C>A	uc002nhp.1	+	3	341	c.306C>A	c.(304-306)ACC>ACA	p.T102T	SNORA68_uc002nhq.1_5'Flank	NM_000980	NP_000971	Q02543	RL18A_HUMAN	ribosomal protein L18a	102					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0						ACCTGACCACCGCAGGCGCTG	0.617													14	81					7.93312e-07	8.0819e-07	1	1	0		A	17973010	A	A	17973010	2	1	151	1	0	0	0	0	0	0	0	1	13590	639	23	5		5	RPL18A	19	17973010	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	50585	17973010	41155973	4061	81226											
MAST3	23031	broad.mit.edu	37	chr19	18252739	18252739	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccagcccactcctaccttCgctgaaaggagcttcagtga	9	9	9	14	1	1	2	1	2	0	0	4	3	3	3	4	1	3	2	4	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18252739C>T	uc002nhz.3	+	20	2166	c.2166C>T	c.(2164-2166)TTC>TTT	p.F722F		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	722							ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						CTCCTACCTTCGCTGAAAGGA	0.522													4	11					0	0	1	0	0		T	18252739	T	T	18252739	2	4	151	1	0	0	0	0	0	0	0	1	9344	883	31	1		1	MAST3	19	18252739	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	279729	18252739	40876244	4062	81227											
PIK3R2	5296	broad.mit.edu	37	chr19	18274130	18274130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgcccagcttaaggtctatCaccagcagtaccaggacaag	12	6	10	13	1	2	0	1	0	1	0	2	1	2	1	3	2	3	3	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18274130C>T	uc002nia.1	+	11	1860	c.1348C>T	c.(1348-1350)CAC>TAC	p.H450Y	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	450					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						TAAGGTCTATCACCAGCAGTA	0.572													18	61					0	0	1	0	0		T	18274130	T	T	18274130	3	4	151	1	0	0	0	0	1	0	0	0	11938	826	29	4	1386	4	PIK3R2	19	18274130	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21391	18274130	40854853	4063	81228											
PIK3R2	5296	broad.mit.edu	37	chr19	18279691	18279691	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcagccagcggggctgctAcgcctgctccgtggtgtgag	5	7	17	12	3	0	1	0	1	0	0	1	2	1	1	3	3	6	4	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18279691A>G	uc002nia.1	+	15	2476	c.1964A>G	c.(1963-1965)TAC>TGC	p.Y655C	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	655	SH2 2.				fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CGGGGCTGCTACGCCTGCTCC	0.652													3	17					0	0	1	0	0		G	18279691	G	G	18279691	3	3	151	1	0	0	0	0	1	0	0	0	11938	391	14	3	2018	3	PIK3R2	19	18279691	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5561	18279691	40849292	4064	81229											
IFI30	10437	broad.mit.edu	37	chr19	18288041	18288041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagctcatgcacgccaacgCccagcggacagatgctctcc	9	5	10	17	3	2	1	1	0	1	1	3	2	2	2	3	1	5	4	3	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18288041C>T	uc002nic.1	+	5	648	c.575C>T	c.(574-576)GCC>GTC	p.A192V	PIK3R2_uc002nib.1_RNA	NM_006332	NP_006323	P13284	GILT_HUMAN	interferon, gamma-inducible protein 30	192					antigen processing and presentation of exogenous peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway	cell junction|extracellular region|lysosome	oxidoreductase activity, acting on a sulfur group of donors				0						CACGCCAACGCCCAGCGGACA	0.597													3	4					0	0	1	0	0		T	18288041	T	T	18288041	3	4	151	1	0	0	0	0	1	0	0	0	7531	739	26	2	593	2	IFI30	19	18288041	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8350	18288041	40840942	4065	81230											
SSBP4	170463	broad.mit.edu	37	chr19	18543405	18543405	+	Silent	SNP	T	C	C	0	1	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	ggcccgtgggccagccccagTggaaactcggtgagcctatg	7	6	15	13	2	0	1	0	1	0	0	1	2	0	2	5	4	3	0	5	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18543405T>C	uc002niy.2	+	11	979	c.741T>C	c.(739-741)AGT>AGC	p.S247S	SSBP4_uc002niz.2_Silent_p.S225S	NM_032627	NP_116016	Q9BWG4	SSBP4_HUMAN	single stranded DNA binding protein 4 isoform a	247	Pro-rich.					nucleus	single-stranded DNA binding				0						CCAGCCCCAGTGGAAACTCGG	0.662													10	47					0	0	1	0	0		C	18543405	C	C	18543405	2	2	151	1	0	0	0	0	0	0	0	1	15207	1693	59	3		3	SSBP4	19	18543405	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	255364	18543405	40585578	4066	81231											
ELL	8178	broad.mit.edu	37	chr19	18557206	18557206	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcgctcaatgcgggcgtgCaggtcgcggtactcgctgta	6	9	15	11	6	1	0	1	0	0	0	3	0	1	0	0	3	4	5	0	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18557206C>T	uc002njh.2	-	10	1689	c.1617G>A	c.(1615-1617)CTG>CTA	p.L539L	ELL_uc010ebq.2_Silent_p.L482L|ELL_uc002njg.2_Silent_p.L406L	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	539					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		TGCGGGCGTGCAGGTCGCGGT	0.632			T	MLL	AL								3	9					0	0	1	0	0		T	18557206	T	T	18557206	2	4	151	1	0	0	0	0	0	0	0	1	5070	697	25	2		2	ELL	19	18557206	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	13801	18557206	40571777	4067	81232											
FKBP8	23770	broad.mit.edu	37	chr19	18648475	18648475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcacaaggctgcaggagCgcagggctgcgcggtagtgg	8	4	18	11	3	0	0	0	0	0	0	0	1	0	1	1	5	4	6	1	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18648475C>T	uc002njk.1	-	6	991	c.878G>A	c.(877-879)CGC>CAC	p.R293H	FKBP8_uc002nji.1_Missense_Mutation_p.R131H|FKBP8_uc010xqi.1_Missense_Mutation_p.R322H|FKBP8_uc002njj.1_Missense_Mutation_p.R294H|FKBP8_uc002njl.1_Missense_Mutation_p.R294H|FKBP8_uc002njm.1_Missense_Mutation_p.R293H|FKBP8_uc010ebr.1_Missense_Mutation_p.R132H|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	293	TPR 2.				apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						GCTGCAGGAGCGCAGGGCTGC	0.632													5	36					0	0	1	0	0		T	18648475	T	T	18648475	3	4	151	1	0	0	0	0	1	0	0	0	5928	768	27	1	376	1	FKBP8	19	18648475	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	91269	18648475	40480508	4068	81233											
CRTC1	23373	broad.mit.edu	37	chr19	18886579	18886579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgggagcctgccggactcGcagcaactgggatacgccag	9	4	14	14	4	0	0	0	0	0	0	1	3	0	3	3	3	5	2	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18886579G>A	uc002nkb.3	+	13	1729	c.1641G>A	c.(1639-1641)TCG>TCA	p.S547S	CRTC1_uc010ebv.2_Silent_p.S563S|CRTC1_uc010ebw.2_Silent_p.S383S|CRTC1_uc002nkc.3_Silent_p.S245S	NM_015321	NP_056136	Q6UUV9	CRTC1_HUMAN	mucoepidermoid carcinoma translocated 1 isoform	547					interspecies interaction between organisms|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	cAMP response element binding protein binding|protein binding	p.S547S(1)	CRTC1/MAML2(516)	salivary_gland(474)|lung(35)|thyroid(4)|breast(3)|skin(2)|ovary(1)	519						TGCCGGACTCGCAGCAACTGG	0.687													7	17					0	0	1	0	0		A	18886579	A	A	18886579	2	1	151	1	0	0	0	0	0	0	0	1	3902	1074	38	1		1	CRTC1	19	18886579	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	238104	18886579	40242404	4069	81234											
COMP	1311	broad.mit.edu	37	chr19	18893913	18893913	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgatgttctcctgggagaaGcagaagacccccaggcggcc	10	6	13	12	1	1	4	0	1	1	3	2	5	1	4	4	3	1	2	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:18893913G>A	uc002nke.2	-	18	2214	c.2178C>T	c.(2176-2178)TGC>TGT	p.C726C	COMP_uc002nkd.2_Silent_p.C693C|COMP_uc010xqj.1_Silent_p.C673C	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	726	Mediates cell survival and induction of the IAP family of survival proteins.|TSP C-terminal.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						CCTGGGAGAAGCAGAAGACCC	0.652													11	41					0	0	1	0	0		A	18893913	A	A	18893913	2	1	151	1	0	0	0	0	0	0	0	1	3727	963	34	2		2	COMP	19	18893913	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	7334	18893913	40235070	4070	81235											
MEF2B	100271849	broad.mit.edu	37	chr19	19260114	19260114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacacggtccatgtccGtgctggcatactggaagagg	9	7	14	11	2	0	1	0	0	0	1	2	2	2	2	2	4	3	4	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:19260114G>A	uc002nlm.2	-	3	293	c.179C>T	c.(178-180)ACG>ATG	p.T60M	MEF2B_uc002nln.2_Missense_Mutation_p.T107M|MEF2B_uc002nll.2_Missense_Mutation_p.T60M|LOC729991-MEF2B_uc010xqo.1_Missense_Mutation_p.T60M|LOC729991-MEF2B_uc010xqp.1_Missense_Mutation_p.T60M|LOC729991-MEF2B_uc002nlo.2_Missense_Mutation_p.T60M|LOC729991-MEF2B_uc002nlp.2_Missense_Mutation_p.T60M|MEF2B_uc002nlk.2_Missense_Mutation_p.T60M	NM_001145785	NP_001139257			myocyte enhancer factor 2B isoform a											skin(1)	1			OV - Ovarian serous cystadenocarcinoma(5;0.00011)|Epithelial(12;0.00412)			GTCCATGTCCGTGCTGGCATA	0.587													13	36					0	0	1	0	0		A	19260114	A	A	19260114	3	1	151	1	0	0	0	0	1	0	0	0	9474	1145	40	1	955	1	MEF2B	19	19260114	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	366201	19260114	39868869	4071	81236											
RFXANK	8625	broad.mit.edu	37	chr19	19308408	19308408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcctttggagagattgagaCcgttcgcttcctgctggagt	6	12	13	10	3	0	2	0	1	0	2	2	6	1	4	3	2	1	3	3	2	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:19308408C>T	uc002nls.2	+	6	921	c.416C>T	c.(415-417)ACC>ATC	p.T139I	RFXANK_uc002nlt.2_Missense_Mutation_p.T116I|RFXANK_uc002nlu.2_Missense_Mutation_p.T117I|RFXANK_uc002nlv.2_Missense_Mutation_p.T139I|RFXANK_uc002nlw.2_Missense_Mutation_p.T138I	NM_003721	NP_003712	O14593	RFXK_HUMAN	regulatory factor X-associated	139	ANK 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2			Epithelial(12;0.00228)			GAGATTGAGACCGTTCGCTTC	0.657													11	29					0	0	1	0	0		T	19308408	T	T	19308408	3	4	151	1	0	0	0	0	1	0	0	0	13294	507	18	4	430	4	RFXANK	19	19308408	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	48294	19308408	39820575	4072	81237											
KIAA0892	23383	broad.mit.edu	37	chr19	19460214	19460214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgctccctcgtgcttctggGccacatcttctatgtgctgg	3	14	10	14	1	3	0	0	0	3	0	5	0	4	0	2	2	3	3	2	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:19460214G>A	uc002nmk.3	+	16	1556	c.1517G>A	c.(1516-1518)GGC>GAC	p.G506D	KIAA0892_uc002nml.3_Missense_Mutation_p.G111D|KIAA0892_uc010ecd.2_Missense_Mutation_p.G111D|KIAA0892_uc010ece.2_Missense_Mutation_p.G82D	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	506	TPR 4.				cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0						GTGCTTCTGGGCCACATCTTC	0.612													29	150					0	0	1	0	0		A	19460214	A	A	19460214	3	1	151	1	0	0	0	0	1	0	0	0	8212	1203	42	2	1579	2	KIAA0892	19	19460214	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	151806	19460214	39668769	4073	81238											
GATAD2A	54815	broad.mit.edu	37	chr19	19611975	19611975	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtcccgggagccctacatgtGtgcacagtgcaagacggact	9	7	13	12	2	0	1	0	0	0	1	1	3	1	3	2	2	4	2	2	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:19611975G>A	uc010xqt.1	+	9	1562	c.1250G>A	c.(1249-1251)TGT>TAT	p.C417Y	GATAD2A_uc010xqu.1_Missense_Mutation_p.C46Y|GATAD2A_uc010xqv.1_Missense_Mutation_p.C437Y|GATAD2A_uc010xqw.1_Missense_Mutation_p.C245Y	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	417	GATA-type.				DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCCTACATGTGTGCACAGTGC	0.617													10	38					0	0	1	0	0		A	19611975	A	A	19611975	3	1	151	1	0	0	0	0	1	0	0	0	6275	1377	48	4	1280	4	GATAD2A	19	19611975	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	151761	19611975	39517008	4074	81239											
ZNF101	94039	broad.mit.edu	37	chr19	19788767	19788767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaatctctacagagatgtgaCgctggaaaccttcaggaacc	13	8	10	10	1	2	2	1	1	1	1	3	6	2	4	2	2	3	1	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:19788767C>T	uc002nni.1	+	2	208	c.98C>T	c.(97-99)ACG>ATG	p.T33M	ZNF101_uc010ecg.1_Translation_Start_Site|ZNF101_uc002nnj.1_Translation_Start_Site	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	33	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AGAGATGTGACGCTGGAAACC	0.498													34	113					0	0	1	0	0		T	19788767	T	T	19788767	3	4	151	1	0	0	0	0	1	0	0	0	17739	536	19	1	104	1	ZNF101	19	19788767	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	176792	19788767	39340216	4075	81240											
ZNF101	94039	broad.mit.edu	37	chr19	19790797	19790797	+	Silent	SNP	T	C	C	0	1	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	gcacatgaaagagctcacacTggagaaagaccttatgaatg	16	7	10	8	0	1	5	1	2	0	3	1	6	1	5	1	1	1	2	1	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:19790797T>C	uc002nni.1	+	4	1109	c.999T>C	c.(997-999)ACT>ACC	p.T333T	ZNF101_uc010ecg.1_Silent_p.T213T|ZNF101_uc002nnj.1_Silent_p.T213T	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	333					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GAGCTCACACTGGAGAAAGAC	0.373													15	76					0	0	1	0	0		C	19790797	C	C	19790797	2	2	151	1	0	0	0	0	0	0	0	1	17739	1567	55	3		3	ZNF101	19	19790797	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2030	19790797	39338186	4076	81241											
ZNF682	91120	broad.mit.edu	37	chr19	20117187	20117187	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaacctcttaaagactttgTcacatttttcacatttgtag	12	16	5	8	0	3	2	2	0	1	2	3	2	3	2	1	0	1	1	1	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:20117187T>C	uc002noq.2	-	4	1247	c.1124A>G	c.(1123-1125)GAC>GGC	p.D375G	ZNF682_uc002noo.2_Missense_Mutation_p.D343G|ZNF682_uc002nop.2_Missense_Mutation_p.D343G|ZNF682_uc010eck.2_Missense_Mutation_p.D299G	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	375	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						AAAGACTTTGTCACATTTTTC	0.358													19	89					0	0	1	0	0		C	20117187	C	C	20117187	3	2	151	1	0	0	0	0	1	0	0	0	18114	1667	58	3	376	3	ZNF682	19	20117187	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	326390	20117187	39011796	4077	81242											
ZNF486	90649	broad.mit.edu	37	chr19	20308530	20308530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttatttcatcctcgatcctTagtaaacatgagaagattca	13	15	5	8	1	2	2	2	1	0	2	5	4	4	2	2	0	1	1	2	0	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:20308530T>C	uc002nou.2	+	4	1068	c.1011T>C	c.(1009-1011)CTT>CTC	p.L337L		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	337	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCTCGATCCTTAGTAAACATG	0.408													20	71					0	0	1	0	0		C	20308530	C	C	20308530	2	2	151	1	0	0	0	0	0	0	0	1	17964	1741	61	3		3	ZNF486	19	20308530	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	191343	20308530	38820453	4078	81243											
ZNF430	80264	broad.mit.edu	37	chr19	21240516	21240516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggcaaagcctttaacCggtccccaaaacttactgca	13	9	7	12	1	0	0	0	0	0	0	1	0	1	0	4	2	5	2	4	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:21240516C>T	uc002npj.2	+	5	1512	c.1402C>T	c.(1402-1404)CGG>TGG	p.R468W	ZNF430_uc002npk.2_Missense_Mutation_p.R467W	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430	468	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						AGCCTTTAACCGGTCCCCAAA	0.388													14	75					0	0	1	0	0		T	21240516	T	T	21240516	3	4	151	1	0	0	0	0	1	0	0	0	17929	643	23	1	1420	1	ZNF430	19	21240516	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	931986	21240516	37888467	4079	81244											
ZNF714	148206	broad.mit.edu	37	chr19	21299731	21299731	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaatttacagttaagaaaAggctccgcaaatgtggttga	15	10	11	5	1	0	3	0	1	0	2	1	4	1	3	1	2	1	4	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:21299731A>G	uc002npo.3	+	5	621	c.261A>G	c.(259-261)AAA>AAG	p.K87K	ZNF714_uc002npl.2_5'UTR|ZNF714_uc010ecp.1_Silent_p.K39K|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	87					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGTTAAGAAAAGGCTCCGCAA	0.373													12	64					0	0	1	0	0		G	21299731	G	G	21299731	2	3	151	1	0	0	0	0	0	0	0	1	18143	69	3	3		3	ZNF714	19	21299731	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	59215	21299731	37829252	4080	81245											
ZNF714	148206	broad.mit.edu	37	chr19	21300315	21300315	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcattcatgttaaagaaaAaccctacaaatgtgaagaat	18	11	6	6	0	2	3	2	1	0	2	2	3	2	3	1	0	2	2	1	0	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:21300315A>G	uc002npo.3	+	6	1208	c.848A>G	c.(847-849)AAA>AGA	p.K283R	ZNF714_uc002npl.2_Missense_Mutation_p.K128R|ZNF714_uc010ecp.1_Missense_Mutation_p.K234R|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTAAAGAAAAACCCTACAAA	0.343													6	22					0	0	1	0	0		G	21300315	G	G	21300315	3	3	151	1	0	0	0	0	1	0	0	0	18143	14	1	3	855	3	ZNF714	19	21300315	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	584	21300315	37828668	4081	81246											
ZNF708	7562	broad.mit.edu	37	chr19	21477133	21477133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgaattatcttatgattcGtaaggtttgaggacttttta	11	19	8	3	1	1	3	0	3	1	0	2	4	1	4	0	2	0	2	0	2	6	9	rs148687204	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:21477133G>A	uc002npq.1	-	4	833	c.635C>T	c.(634-636)ACG>ATG	p.T212M	ZNF708_uc002npr.1_Missense_Mutation_p.T148M|ZNF708_uc010ecs.1_Missense_Mutation_p.T148M	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	212	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						CTTATGATTCGTAAGGTTTGA	0.338													19	73					0	0	1	0	0		A	21477133	A	A	21477133	3	1	151	1	0	0	0	0	1	0	0	0	18137	1145	40	1	1060	1	ZNF708	19	21477133	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	176818	21477133	37651850	4082	81247											
ZNF493	284443	broad.mit.edu	37	chr19	21606088	21606088	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcatattagagagaattcTtaccgatgtgaagaatgtgg	14	13	10	4	1	2	4	1	1	1	3	2	6	2	4	1	1	1	0	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:21606088T>G	uc002npx.2	+	2	523	c.243T>G	c.(241-243)TCT>TCG	p.S81S	ZNF493_uc002npw.2_Silent_p.S209S|ZNF493_uc002npy.2_Silent_p.S81S	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GAGAGAATTCTTACCGATGTG	0.348													28	147					0	0	1	0	0		G	21606088	G	G	21606088	2	3	151	1	0	0	0	0	0	0	0	1	17969	1596	56	5		5	ZNF493	19	21606088	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	128955	21606088	37522895	4083	81248											
ZNF493	284443	broad.mit.edu	37	chr19	21606418	21606418	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataattcataatggagaaaaAccctataaatgtgaagaatg	20	10	7	4	0	1	3	1	1	0	2	1	4	1	3	1	1	1	0	1	1	9	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:21606418A>G	uc002npx.2	+	2	853	c.573A>G	c.(571-573)AAA>AAG	p.K191K	ZNF493_uc002npw.2_Silent_p.K319K|ZNF493_uc002npy.2_Silent_p.K191K	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	191					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATGGAGAAAAACCCTATAAAT	0.338													24	111					0	0	1	0	0		G	21606418	G	G	21606418	2	3	151	1	0	0	0	0	0	0	0	1	17969	40	2	3		3	ZNF493	19	21606418	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	330	21606418	37522565	4084	81249											
ZNF43	7594	broad.mit.edu	37	chr19	21991830	21991830	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgtagggtttctctccagTatgaattctcttatgtttag	7	19	9	6	0	2	1	0	1	2	0	5	1	3	1	1	1	0	4	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:21991830T>C	uc002nqj.2	-	4	1139	c.1009A>G	c.(1009-1011)ACT>GCT	p.T337A	ZNF43_uc010ecv.2_Missense_Mutation_p.T331A|ZNF43_uc002nql.2_Missense_Mutation_p.T331A|ZNF43_uc002nqm.2_Missense_Mutation_p.T331A|ZNF43_uc002nqk.2_Missense_Mutation_p.T267A	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	337					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TTCTCTCCAGTATGAATTCTC	0.378													7	104					0	0	1	0	0		C	21991830	C	C	21991830	3	2	151	1	0	0	0	0	1	0	0	0	17928	1638	57	3	1424	3	ZNF43	19	21991830	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	385412	21991830	37137153	4085	81250											
ZNF208	7757	broad.mit.edu	37	chr19	22156465	22156465	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atactaaagcctttgccacaTtcttcacatttgtagggtgt	10	15	7	9	0	2	0	1	0	1	0	2	0	2	0	2	1	3	1	2	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:22156465T>C	uc002nqp.2	-	4	1520	c.1371A>G	c.(1369-1371)GAA>GAG	p.E457E	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_Splice_Site	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				CTTTGCCACATTCTTCACATT	0.378													32	127					0	0	1	0	0		C	22156465	C	C	22156465	2	2	151	1	0	0	0	0	0	0	0	1	17791	1490	52	3		3	ZNF208	19	22156465	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	164635	22156465	36972518	4086	81251											
ZNF257	113835	broad.mit.edu	37	chr19	22270970	22270970	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaccaatgtctgataactAcccagagcaaaatgtatcaa	17	10	5	9	0	2	2	1	1	1	1	2	2	2	2	2	0	4	2	2	0	8	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:22270970A>G	uc010ecx.2	+	4	587	c.418A>G	c.(418-420)ACC>GCC	p.T140A	ZNF257_uc010ecy.2_Missense_Mutation_p.T108A	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	140					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTGATAACTACCCAGAGCAA	0.318													15	74					0	0	1	0	0		G	22270970	G	G	22270970	3	3	151	1	0	0	0	0	1	0	0	0	17825	391	14	3	432	3	ZNF257	19	22270970	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	114505	22270970	36858013	4087	81252											
ZNF257	113835	broad.mit.edu	37	chr19	22271493	22271493	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaattcatactggagagaAaccctacaaatgtgaagagt	17	8	10	6	0	1	4	1	1	0	3	1	7	1	5	1	1	3	0	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:22271493A>G	uc010ecx.2	+	4	1110	c.941A>G	c.(940-942)AAA>AGA	p.K314R	ZNF257_uc010ecy.2_Missense_Mutation_p.K282R	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	314					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				ACTGGAGAGAAACCCTACAAA	0.418													16	62					0	0	1	0	0		G	22271493	G	G	22271493	3	3	151	1	0	0	0	0	1	0	0	0	17825	14	1	3	955	3	ZNF257	19	22271493	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	523	22271493	36857490	4088	81253											
ZNF676	163223	broad.mit.edu	37	chr19	22363441	22363441	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtagggtttctctccagTatgaataatcttatgtttag	9	19	8	5	0	2	1	0	1	2	0	4	1	3	1	1	1	0	4	1	1	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:22363441T>C	uc002nqs.1	-	3	1396	c.1078A>G	c.(1078-1080)ACT>GCT	p.T360A		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	360					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TTCTCTCCAGTATGAATAATC	0.393													4	165					0	0	1	0	0		C	22363441	C	C	22363441	3	2	151	1	0	0	0	0	1	0	0	0	18108	1638	57	3	692	3	ZNF676	19	22363441	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	91948	22363441	36765542	4089	81254											
ZNF676	163223	broad.mit.edu	37	chr19	22363694	22363694	+	Silent	SNP	A	G	G	1	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	ttgtagggcttctcttcagcAtgaattgccttatgtgtatt	7	18	9	7	0	2	1	1	1	1	0	3	1	2	1	1	1	2	4	1	1	4	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:22363694A>G	uc002nqs.1	-	3	1143	c.825T>C	c.(823-825)CAT>CAC	p.H275H		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	275	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				TCTCTTCAGCATGAATTGCCT	0.398													33	147					0	0	1	0	0		G	22363694	G	G	22363694	2	3	151	1	0	0	0	0	0	0	0	1	18108	214	8	3		3	ZNF676	19	22363694	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	253	22363694	36765289	4090	81255											
ZNF91	7644	broad.mit.edu	37	chr19	23544026	23544026	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtagaaagacttgaggaAtgattaaaagctttgccaca	15	11	10	5	0	0	4	0	2	0	2	0	5	0	5	1	1	2	2	1	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:23544026A>G	uc002nre.2	-	4	1868	c.1755T>C	c.(1753-1755)CAT>CAC	p.H585H	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Silent_p.H553H	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	585	C2H2-type 16.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GACTTGAGGAATGATTAAAAG	0.353													20	130					0	0	1	0	0		G	23544026	G	G	23544026	2	3	151	1	0	0	0	0	0	0	0	1	18225	98	4	3		3	ZNF91	19	23544026	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1180332	23544026	35584957	4091	81256											
C19orf12	83636	broad.mit.edu	37	chr19	30199167	30199167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acacctgcacttaccaacggCgagtcccggtgggccgccca	8	5	11	17	4	0	0	0	0	0	0	1	1	1	0	5	3	3	1	5	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:30199167C>T	uc002nsk.2	-	2	585	c.154G>A	c.(154-156)GCC>ACC	p.A52T	C19orf12_uc002nsj.2_Missense_Mutation_p.A63T|C19orf12_uc002nsl.2_Intron|C19orf12_uc002nsm.2_RNA	NM_031448	NP_113636	Q9NSK7	CS012_HUMAN	hypothetical protein LOC83636 isoform 2	52	Helical; (Potential).					integral to membrane					0	Ovarian(5;0.000567)|Breast(6;0.0203)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0435)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.183)			TTACCAACGGCGAGTCCCGGT	0.547													19	48					0	0	1	0	0		T	30199167	T	T	30199167	3	4	151	1	0	0	0	0	1	0	0	0	1912	768	27	1	279	1	C19orf12	19	30199167	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6655141	30199167	28929816	4092	81257											
ZNF536	9745	broad.mit.edu	37	chr19	30935840	30935840	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctctatggcaagggcgaGctgcccatgaaggagaagga	12	5	15	9	1	1	2	0	1	1	1	1	5	1	3	1	4	3	3	1	4	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:30935840G>A	uc002nsu.1	+	2	1509	c.1371G>A	c.(1369-1371)GAG>GAA	p.E457E	ZNF536_uc010edd.1_Silent_p.E457E	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	457					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCAAGGGCGAGCTGCCCATGA	0.642													14	42					0	0	1	0	0		A	30935840	A	A	30935840	2	1	151	1	0	0	0	0	0	0	0	1	17999	962	34	2		2	ZNF536	19	30935840	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	736673	30935840	28193143	4093	81258											
RHPN2	85415	broad.mit.edu	37	chr19	33471032	33471032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgtctgttcttgttggtgCcccaactcaggaaggaaagc	8	12	11	10	0	4	0	1	0	3	0	4	2	4	2	2	3	3	2	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:33471032C>T	uc002nuf.2	-	15	1997	c.1931G>A	c.(1930-1932)GGC>GAC	p.G644D	RHPN2_uc010xro.1_Missense_Mutation_p.G493D|RHPN2_uc002nue.2_Missense_Mutation_p.G374D	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	644					signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					CTTGTTGGTGCCCCAACTCAG	0.507													24	112					0	0	1	0	0		T	33471032	T	T	33471032	3	4	151	1	0	0	0	0	1	0	0	0	13376	739	26	2	133	2	RHPN2	19	33471032	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2535192	33471032	25657951	4094	81259											
WDR88	126248	broad.mit.edu	37	chr19	33647305	33647305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgctgttttaccttcagtgGccatttcctgtgtacaagct	6	16	8	11	0	1	0	1	0	0	0	2	0	2	0	3	1	4	4	3	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:33647305G>A	uc002nui.2	+	7	932	c.854G>A	c.(853-855)GGC>GAC	p.G285D		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	285	WD 5.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					ACCTTCAGTGGCCATTTCCTG	0.478													37	140					0	0	1	0	0		A	33647305	A	A	33647305	3	1	151	1	0	0	0	0	1	0	0	0	17361	1203	42	2	880	2	WDR88	19	33647305	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	176273	33647305	25481678	4095	81260											
LRP3	4037	broad.mit.edu	37	chr19	33693826	33693826	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcccggcctggcccctcaActacccgccaggcaccaact	8	4	8	21	2	1	0	1	0	0	0	1	0	1	0	7	3	4	1	7	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:33693826A>G	uc010edh.2	+	3	287	c.194A>G	c.(193-195)AAC>AGC	p.N65S	LRP3_uc010xrp.1_5'UTR|LRP3_uc002nuk.3_5'Flank	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	65	Extracellular (Potential).|CUB 1.				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					TGGCCCCTCAACTACCCGCCA	0.647													3	14					0	0	1	0	0		G	33693826	G	G	33693826	3	3	151	1	0	0	0	0	1	0	0	0	8976	43	2	3	204	3	LRP3	19	33693826	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	46521	33693826	25435157	4096	81261											
SLC7A10	56301	broad.mit.edu	37	chr19	33700230	33700230	+	Silent	SNP	A	G	G	1	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	tcacctgtgagtctgtgcacAcactttggtttgcttctcca	6	15	8	12	0	3	1	1	1	2	0	4	1	3	1	2	1	2	3	2	1	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:33700230A>G	uc002num.2	-	10	1572	c.1425T>C	c.(1423-1425)TGT>TGC	p.C475C	SLC7A10_uc002nul.2_Silent_p.C322C	NM_019849	NP_062823	Q9NS82	AAA1_HUMAN	solute carrier family 7, member 10	475					blood coagulation|cellular nitrogen compound metabolic process|ion transport|leukocyte migration	integral to plasma membrane	L-serine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(110;0.137)					GTCTGTGCACACACTTTGGTT	0.597													10	68					0	0	1	0	0		G	33700230	G	G	33700230	2	3	151	1	0	0	0	0	0	0	0	1	14718	157	6	3		3	SLC7A10	19	33700230	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6404	33700230	25428753	4097	81262											
KIAA0355	9710	broad.mit.edu	37	chr19	34818956	34818956	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcagacacccccgcagcccaTgcagtgtgagctccccaccg	8	4	10	19	2	0	2	0	1	0	1	1	2	1	2	6	0	3	4	6	0	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:34818956T>C	uc002nvd.3	+	6	1863	c.1004T>C	c.(1003-1005)ATG>ACG	p.M335T		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	335										ovary(1)	1	Esophageal squamous(110;0.162)					CCGCAGCCCATGCAGTGTGAG	0.612													26	104					0	0	1	0	0		C	34818956	C	C	34818956	3	2	151	1	0	0	0	0	1	0	0	0	8186	1464	51	3	1022	3	KIAA0355	19	34818956	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1118726	34818956	24310027	4098	81263											
MAG	4099	broad.mit.edu	37	chr19	35786812	35786812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccccgagctgggcgggaagTactacttccgtggggacctg	6	7	16	12	3	0	0	0	0	0	0	1	3	1	2	4	4	3	2	4	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:35786812T>C	uc002nyy.1	+	4	492	c.343T>C	c.(343-345)TAC>CAC	p.Y115H	MAG_uc002nyx.1_Missense_Mutation_p.Y115H|MAG_uc010eds.1_Missense_Mutation_p.Y90H|MAG_uc002nyz.1_Missense_Mutation_p.Y115H	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	115	Ig-like V-type.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GGGCGGGAAGTACTACTTCCG	0.652													40	143					0	0	1	0	0		C	35786812	C	C	35786812	3	2	151	1	0	0	0	0	1	0	0	0	9180	1638	57	3	349	3	MAG	19	35786812	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	967856	35786812	23342171	4099	81264											
MAG	4099	broad.mit.edu	37	chr19	35800929	35800929	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcgagcgggagttcgtgTactcggagcgcagcggcctc	7	6	17	11	6	0	1	0	0	0	1	3	4	0	3	1	3	5	3	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:35800929T>C	uc002nyy.1	+	8	1533	c.1384T>C	c.(1384-1386)TAC>CAC	p.Y462H	MAG_uc002nyx.1_Missense_Mutation_p.Y462H|MAG_uc010eds.1_Missense_Mutation_p.Y437H|MAG_uc002nyz.1_Missense_Mutation_p.Y462H	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	462	Ig-like C2-type 4.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GGAGTTCGTGTACTCGGAGCG	0.677													17	66					0	0	1	0	0		C	35800929	C	C	35800929	3	2	151	1	0	0	0	0	1	0	0	0	9180	1638	57	3	1406	3	MAG	19	35800929	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	14117	35800929	23328054	4100	81265											
CD22	933	broad.mit.edu	37	chr19	35828763	35828763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcagcaacccggagtacaCgacggtatcctggctcaagg	11	5	12	13	3	1	0	1	0	0	0	2	2	2	1	2	4	4	5	2	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:35828763C>T	uc010edt.2	+	5	901	c.824C>T	c.(823-825)ACG>ATG	p.T275M	CD22_uc010xst.1_Missense_Mutation_p.T103M|CD22_uc010edu.2_Missense_Mutation_p.T275M|CD22_uc010edv.2_Missense_Mutation_p.T275M|CD22_uc002nzb.3_Intron|CD22_uc010edx.2_RNA	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	275	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	CCGGAGTACACGACGGTATCC	0.562													17	49					0	0	1	0	0		T	35828763	T	T	35828763	3	4	151	1	0	0	0	0	1	0	0	0	2988	536	19	1	838	1	CD22	19	35828763	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	27834	35828763	23300220	4101	81266											
GAPDHS	26330	broad.mit.edu	37	chr19	36024441	36024441	+	Silent	SNP	C	T	T	0	0	0	1	1	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	taagaggccatgtcgaagcgCgacatcgtcctcaccaatgt	11	8	10	12	4	1	1	1	0	0	1	4	3	2	1	3	1	1	0	3	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36024441C>T	uc002oaf.1	+	1	128	c.12C>T	c.(10-12)CGC>CGT	p.R4R		NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	4					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	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)		NADH(DB00157)	TGTCGAAGCGCGACATCGTCC	0.627													8	38					0	0	1	0	0		T	36024441	T	T	36024441	2	4	151	1	0	0	0	0	0	0	0	1	6252	755	27	1		1	GAPDHS	19	36024441	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	195678	36024441	23104542	4102	81267											
ATP4A	495	broad.mit.edu	37	chr19	36047837	36047837	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgcctgcggtgcgacacTtgagcacagcatcagggacg	9	6	15	11	3	1	1	1	1	0	0	1	4	1	3	1	3	5	2	1	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36047837T>C	uc002oal.1	-	12	1876	c.1847A>G	c.(1846-1848)AAG>AGG	p.K616R	ATP4A_uc010eee.1_Intron	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	616	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GGTGCGACACTTGAGCACAGC	0.577													18	75					0	0	1	0	0		C	36047837	C	C	36047837	3	2	151	1	0	0	0	0	1	0	0	0	1146	1609	56	3	1304	3	ATP4A	19	36047837	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	23396	36047837	23081146	4103	81268											
ATP4A	495	broad.mit.edu	37	chr19	36049992	36049992	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagagtccctgtcttgtcCgagcagatcaccgaagtgga	9	9	13	10	2	2	2	1	1	1	2	4	6	4	3	3	1	1	1	3	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36049992C>T	uc002oal.1	-	8	1187	c.1158G>A	c.(1156-1158)TCG>TCA	p.S386S	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	386	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CTGTCTTGTCCGAGCAGATCA	0.572													49	279					0	0	1	0	0		T	36049992	T	T	36049992	2	4	151	1	0	0	0	0	0	0	0	1	1146	639	23	1		1	ATP4A	19	36049992	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2155	36049992	23078991	4104	81269											
ZBTB32	27033	broad.mit.edu	37	chr19	36207454	36207454	+	Missense_Mutation	SNP	A	G	G	1	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	ccatgaccaagcacctgcggAcacacggggccgctccgtac	9	4	11	17	4	0	1	0	1	0	0	1	2	1	2	5	3	3	3	5	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36207454A>G	uc002oay.2	+	6	1474	c.1264A>G	c.(1264-1266)ACA>GCA	p.T422A	ZBTB32_uc002oaz.2_RNA|MLL4_uc010eei.2_5'Flank	NM_014383	NP_055198	Q9Y2Y4	ZBT32_HUMAN	zinc finger and BTB domain containing 32	422	C2H2-type 2.				DNA repair|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleoplasm	DNA binding|protein binding|transcription corepressor activity|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCACCTGCGGACACACGGGGC	0.687											OREG0025433	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	71					0	0	1	0	0		G	36207454	G	G	36207454	3	3	151	1	0	0	0	0	1	0	0	0	17560	275	10	3	1282	3	ZBTB32	19	36207454	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	157462	36207454	22921529	4105	81270											
PSENEN	55851	broad.mit.edu	37	chr19	36236883	36236883	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgaacctgtgccggaagTactacctgggtaaggcagat	12	9	12	8	1	0	2	0	1	0	1	0	3	0	3	3	3	4	3	3	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36236883T>C	uc002obi.1	+	2	256	c.52T>C	c.(52-54)TAC>CAC	p.Y18H	TMEM149_uc010eej.2_5'Flank|U2AF1L4_uc002obh.1_5'Flank|U2AF1L4_uc002obe.2_5'Flank|U2AF1L4_uc002obf.2_5'Flank|U2AF1L4_uc002obg.2_5'Flank|PSENEN_uc002obj.1_Missense_Mutation_p.Y18H|PSENEN_uc002obk.1_RNA|LIN37_uc002obm.2_5'Flank	NM_172341	NP_758844	Q9NZ42	PEN2_HUMAN	presenilin enhancer 2	18	Helical; (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to plasma membrane	aspartic-type endopeptidase activity|protein binding			ovary(2)	2	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GTGCCGGAAGTACTACCTGGG	0.398													18	76					0	0	1	0	0		C	36236883	C	C	36236883	3	2	151	1	0	0	0	0	1	0	0	0	12674	1638	57	3	54	3	PSENEN	19	36236883	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	29429	36236883	22892100	4106	81271											
LIN37	55957	broad.mit.edu	37	chr19	36245365	36245365	+	Missense_Mutation	SNP	A	G	G	1	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	gatcctacgagagatgtacgAacgacagtgatgttcccagg	12	8	12	9	3	0	2	0	1	0	1	2	7	2	2	2	1	3	2	2	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36245365A>G	uc002obm.2	+	10	845	c.731A>G	c.(730-732)GAA>GGA	p.E244G	uc002obl.2_5'Flank	NM_019104	NP_061977	Q96GY3	LIN37_HUMAN	lin-37 homolog	244							protein binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GAGATGTACGAACGACAGTGA	0.577													8	34					0	0	1	0	0		G	36245365	G	G	36245365	3	3	151	1	0	0	0	0	1	0	0	0	8824	246	9	3	765	3	LIN37	19	36245365	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	8482	36245365	22883618	4107	81272											
NPHS1	4868	broad.mit.edu	37	chr19	36336323	36336323	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttcgcggagctcggcgctgTgggcgcggcaggtcacgcgc	3	7	18	13	8	1	0	1	0	0	0	3	1	1	1	0	5	1	3	0	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36336323T>C	uc002oby.2	-	14	1877	c.1877A>G	c.(1876-1878)CAC>CGC	p.H626R		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	626	Ig-like C2-type 6.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	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)			CTCGGCGCTGTGGGCGCGGCA	0.647													10	33					0	0	1	0	0		C	36336323	C	C	36336323	3	2	151	1	0	0	0	0	1	0	0	0	10601	1696	59	3	1912	3	NPHS1	19	36336323	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	90958	36336323	22792660	4108	81273											
KIRREL2	84063	broad.mit.edu	37	chr19	36352822	36352822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgggcctgatctctgtgcTacacatttcggggacccagg	6	10	12	13	2	1	1	0	1	1	0	4	2	2	2	3	4	2	1	3	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36352822T>C	uc002ocb.3	+	11	1618	c.1406T>C	c.(1405-1407)CTA>CCA	p.L469P	KIRREL2_uc002obz.3_Missense_Mutation_p.L469P|KIRREL2_uc002oca.3_Missense_Mutation_p.L419P|KIRREL2_uc002occ.3_Missense_Mutation_p.L416P|KIRREL2_uc002ocd.3_Missense_Mutation_p.L466P	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	469	Ig-like C2-type 5.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ATCTCTGTGCTACACATTTCG	0.672													3	10					0	0	1	0	0		C	36352822	C	C	36352822	3	2	151	1	0	0	0	0	1	0	0	0	8341	1522	53	3	1448	3	KIRREL2	19	36352822	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	16499	36352822	22776161	4109	81274											
KIRREL2	84063	broad.mit.edu	37	chr19	36357201	36357201	+	Missense_Mutation	SNP	A	G	G	1	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	cttctatgacttcaacccacAcctgggcatggtccccccct	7	10	6	18	0	2	1	1	1	1	0	3	1	3	1	5	2	1	1	5	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36357201A>G	uc002ocb.3	+	15	2146	c.1934A>G	c.(1933-1935)CAC>CGC	p.H645R	KIRREL2_uc002obz.3_Intron|KIRREL2_uc002oca.3_Intron|KIRREL2_uc002occ.3_Missense_Mutation_p.H592R|KIRREL2_uc002ocd.3_Missense_Mutation_p.H607R|APLP1_uc010xsz.1_5'Flank|APLP1_uc002oce.2_5'Flank|APLP1_uc002ocf.2_5'Flank|APLP1_uc002ocg.2_5'Flank	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	645	Pro-rich.|Cytoplasmic (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TTCAACCCACACCTGGGCATG	0.622													18	80					0	0	1	0	0		G	36357201	G	G	36357201	3	3	151	1	0	0	0	0	1	0	0	0	8341	159	6	3	1992	3	KIRREL2	19	36357201	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4379	36357201	22771782	4110	81275											
CLIP3	25999	broad.mit.edu	37	chr19	36517143	36517143	+	Missense_Mutation	SNP	A	G	G	1	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	gcagggctgagccgtggttgAagtcactgcacgtggagttc	7	9	16	9	2	1	2	1	2	0	0	2	3	1	3	1	3	2	5	1	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36517143A>G	uc010eeq.1	-	5	869	c.587T>C	c.(586-588)TTC>TCC	p.F196S	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.F196S	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	196					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GCCGTGGTTGAAGTCACTGCA	0.657													3	35					0	0	1	0	0		G	36517143	G	G	36517143	3	3	151	1	0	0	0	0	1	0	0	0	3537	246	9	3	1092	3	CLIP3	19	36517143	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	159942	36517143	22611840	4111	81276											
WDR62	284403	broad.mit.edu	37	chr19	36595572	36595572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagccctcgacctttacCgtgtggtgagctaagcccca	10	8	10	13	2	0	2	0	1	0	1	1	3	0	2	5	1	4	1	5	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36595572C>T	uc002odc.2	+	31	4382	c.4291C>T	c.(4291-4293)CGT>TGT	p.R1431C	WDR62_uc002odd.2_Missense_Mutation_p.R1436C	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1431					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CGACCTTTACCGTGTGGTGAG	0.617													10	41					0	0	1	0	0		T	36595572	T	T	36595572	3	4	151	1	0	0	0	0	1	0	0	0	17339	652	23	1	4428	1	WDR62	19	36595572	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	78429	36595572	22533411	4112	81277											
ZNF565	147929	broad.mit.edu	37	chr19	36673869	36673869	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattccttacactcgtagggTttctcaccagtgtggattcg	7	14	9	11	2	1	0	1	0	1	0	5	1	2	1	2	2	1	2	2	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36673869T>C	uc002odn.2	-	5	1107	c.999A>G	c.(997-999)AAA>AAG	p.K333K	ZNF565_uc010ees.2_Silent_p.K268K|ZNF565_uc002odo.2_Silent_p.K333K	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	333					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			ACTCGTAGGGTTTCTCACCAG	0.483													19	73					0	0	1	0	0		C	36673869	C	C	36673869	2	2	151	1	0	0	0	0	0	0	0	1	18021	1722	60	3		3	ZNF565	19	36673869	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	78297	36673869	22455114	4113	81278											
ZFP14	57677	broad.mit.edu	37	chr19	36831647	36831647	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtttctcaccagtatgaaTactctgatgaacagtaagtt	12	13	9	7	0	2	3	1	3	2	0	3	3	2	3	1	1	2	4	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:36831647T>C	uc002odx.1	-	4	1174	c.1081A>G	c.(1081-1083)ATT>GTT	p.I361V	ZFP14_uc010xtd.1_Missense_Mutation_p.I362V|ZFP14_uc010eex.1_Missense_Mutation_p.I361V	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	361	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					CCAGTATGAATACTCTGATGA	0.373													35	143					0	0	1	0	0		C	36831647	C	C	36831647	3	2	151	1	0	0	0	0	1	0	0	0	17664	1406	49	3	524	3	ZFP14	19	36831647	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	157778	36831647	22297336	4114	81279											
ZNF529	57711	broad.mit.edu	37	chr19	37038880	37038880	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatagttttttccaccagTatgtattttctgatattcat	9	21	4	7	0	3	1	2	1	1	0	4	1	4	1	2	0	0	3	2	0	4	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:37038880T>C	uc002oeh.3	-	5	782	c.580A>G	c.(580-582)ACT>GCT	p.T194A	ZNF529_uc010xth.1_Missense_Mutation_p.T194A|ZNF529_uc010xti.1_Missense_Mutation_p.T176A|ZNF529_uc002oeg.3_Missense_Mutation_p.T89A	NM_020951	NP_066002	Q6P280	ZN529_HUMAN	zinc finger protein 529 isoform a	161					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	Esophageal squamous(110;0.198)					TTTCCACCAGTATGTATTTTC	0.363													16	88					0	0	1	0	0		C	37038880	C	C	37038880	3	2	151	1	0	0	0	0	1	0	0	0	17995	1638	57	3	1115	3	ZNF529	19	37038880	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	207233	37038880	22090103	4115	81280											
ZNF345	25850	broad.mit.edu	37	chr19	37368485	37368485	+	Missense_Mutation	SNP	T	G	G	0	1	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	cttactcggcatcagagaatTcataccggtgagaaaccata	14	9	8	10	2	2	2	2	1	0	2	3	4	2	2	2	2	3	1	2	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:37368485T>G	uc002oex.2	+	3	1131	c.753T>G	c.(751-753)ATT>ATG	p.I251M	ZNF345_uc002oey.3_Missense_Mutation_p.I251M|ZNF345_uc002oez.2_Intron	NM_003419	NP_003410	Q14585	ZN345_HUMAN	zinc finger protein 345	251	C2H2-type 7.				negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATCAGAGAATTCATACCGGTG	0.428													19	85					0	0	1	0	0		G	37368485	G	G	37368485	3	3	151	1	0	0	0	0	1	0	0	0	17884	1771	62	5	755	5	ZNF345	19	37368485	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	329605	37368485	21760498	4116	81281											
ZNF829	374899	broad.mit.edu	37	chr19	37382950	37382950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtttgagcaatacttaaagGcttttccacattccttacat	11	15	6	9	0	0	1	0	1	0	0	2	1	2	1	2	2	3	3	2	2	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:37382950G>A	uc002ofa.1	-	6	1105	c.743C>T	c.(742-744)GCC>GTC	p.A248V	ZNF345_uc002oez.2_Intron	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	248	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ATACTTAAAGGCTTTTCCACA	0.363													19	93					0	0	1	0	0		A	37382950	A	A	37382950	3	1	151	1	0	0	0	0	1	0	0	0	18207	1203	42	2	559	2	ZNF829	19	37382950	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	14465	37382950	21746033	4117	81282											
ZNF420	147923	broad.mit.edu	37	chr19	37619822	37619822	+	Silent	SNP	T	C	C	0	1	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	catactggtgagaaaccataTcaatgtaaggaatgtgggaa	16	9	11	5	0	1	1	1	1	0	1	1	4	1	3	1	3	2	1	1	3	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:37619822T>C	uc002ofl.2	+	5	2144	c.1929T>C	c.(1927-1929)TAT>TAC	p.Y643Y		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	643	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGAAACCATATCAATGTAAGG	0.403													18	118					0	0	1	0	0		C	37619822	C	C	37619822	2	2	151	1	0	0	0	0	0	0	0	1	17922	1442	50	3		3	ZNF420	19	37619822	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	236872	37619822	21509161	4118	81283											
ZNF527	84503	broad.mit.edu	37	chr19	37879579	37879579	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcagtcataattgaatatAaaagactccatgctgagaag	17	11	7	6	0	2	3	2	2	0	2	3	4	3	3	1	0	1	1	1	0	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:37879579A>G	uc010efk.1	+	5	739	c.628A>G	c.(628-630)AAA>GAA	p.K210E	ZNF527_uc002ogf.3_Missense_Mutation_p.K178E|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	210					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AATTGAATATAAAAGACTCCA	0.333													51	153					0	0	1	0	0		G	37879579	G	G	37879579	3	3	151	1	0	0	0	0	1	0	0	0	17993	363	13	3	642	3	ZNF527	19	37879579	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	259757	37879579	21249404	4119	81284											
SIPA1L3	23094	broad.mit.edu	37	chr19	38579367	38579367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcttccttcttagaacatgCcaattacttcggcgtggatg	8	14	8	11	2	2	1	0	0	2	1	4	2	3	2	2	2	3	0	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:38579367C>T	uc002ohk.2	+	4	2050	c.1541C>T	c.(1540-1542)GCC>GTC	p.A514V		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	514					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TTAGAACATGCCAATTACTTC	0.597													6	17					0	0	1	0	0		T	38579367	T	T	38579367	3	4	151	1	0	0	0	0	1	0	0	0	14356	739	26	2	1547	2	SIPA1L3	19	38579367	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	699788	38579367	20549616	4120	81285											
KCNK6	9424	broad.mit.edu	37	chr19	38817452	38817452	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggccctgttgggggtcgtagTgaccgtctgctttctggtgc	2	13	16	10	2	2	1	0	1	2	0	3	1	2	1	2	4	2	3	2	4	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:38817452T>A	uc002oic.2	+	2	652	c.542T>A	c.(541-543)GTG>GAG	p.V181E	KCNK6_uc002oid.2_Missense_Mutation_p.V47E	NM_004823	NP_004814	Q9Y257	KCNK6_HUMAN	potassium channel, subfamily K, member 6	181	Helical; (Potential).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)	1	all_cancers(60;5.83e-07)		Lung(45;0.00047)|LUSC - Lung squamous cell carcinoma(53;0.000613)		Ibutilide(DB00308)|Quinidine(DB00908)	GGGGTCGTAGTGACCGTCTGC	0.627													5	108					0	0	1	0	0		A	38817452	A	A	38817452	3	1	151	1	0	0	0	0	1	0	0	0	8086	1696	59	5	548	5	KCNK6	19	38817452	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	238085	38817452	20311531	4121	81286											
RYR1	6261	broad.mit.edu	37	chr19	38948199	38948199	+	Silent	SNP	T	C	C	0	1	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	gctgtacgctccaaccaagaTcttattactgagaacttgct	11	12	7	11	1	1	2	0	1	1	2	2	3	2	2	2	0	5	4	2	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:38948199T>C	uc002oit.2	+	17	1984	c.1854T>C	c.(1852-1854)GAT>GAC	p.D618D	RYR1_uc002oiu.2_Silent_p.D618D	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	618	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCAACCAAGATCTTATTACTG	0.517													7	313					0	0	1	0	0		C	38948199	C	C	38948199	2	2	151	1	0	0	0	0	0	0	0	1	13793	1432	50	3		3	RYR1	19	38948199	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	130747	38948199	20180784	4122	81287											
RYR1	6261	broad.mit.edu	37	chr19	38993522	38993522	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgcattgtcccgcaggtAcatccgcccgtcgatgctgc	5	11	11	14	4	0	0	0	0	0	0	3	1	2	0	3	1	4	4	3	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:38993522A>G	uc002oit.2	+	49	7968	c.7838A>G	c.(7837-7839)TAC>TGC	p.Y2613C	RYR1_uc002oiu.2_Missense_Mutation_p.Y2613C|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2613	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCCCGCAGGTACATCCGCCCG	0.468													5	42					0	0	1	0	0		G	38993522	G	G	38993522	3	3	151	1	0	0	0	0	1	0	0	0	13793	391	14	3	8032	3	RYR1	19	38993522	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	45323	38993522	20135461	4123	81288											
SIRT2	22933	broad.mit.edu	37	chr19	39380364	39380364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atagagttccttggcgagggCgaagaagggttccggatgtt	9	10	16	6	3	0	2	0	0	0	2	2	5	2	3	2	4	0	3	2	4	3	5	rs150309258	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:39380364C>T	uc002ojt.1	-	7	597	c.397G>A	c.(397-399)GCC>ACC	p.A133T	SIRT2_uc010egh.1_Missense_Mutation_p.A96T|SIRT2_uc010egi.1_Missense_Mutation_p.A96T|SIRT2_uc002ojs.1_Missense_Mutation_p.A113T|SIRT2_uc002oju.1_Missense_Mutation_p.A96T|SIRT2_uc010egj.1_Missense_Mutation_p.A96T|SIRT2_uc002ojv.1_Missense_Mutation_p.A131T	NM_012237	NP_036369	Q8IXJ6	SIRT2_HUMAN	sirtuin 2 isoform 1	133	Deacetylase sirtuin-type.				cell division|chromatin silencing at rDNA|chromatin silencing at telomere|mitosis|negative regulation of striated muscle tissue development|protein ADP-ribosylation|regulation of exit from mitosis|regulation of phosphorylation|response to redox state	chromatin silencing complex|cytoplasm|microtubule	histone acetyltransferase binding|histone deacetylase binding|NAD+ binding|NAD-dependent histone deacetylase activity|transcription factor binding|tubulin deacetylase activity|ubiquitin binding|zinc ion binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00125)|LUSC - Lung squamous cell carcinoma(53;0.00191)			TTGGCGAGGGCGAAGAAGGGT	0.602													20	61					0	0	1	0	0		T	39380364	T	T	39380364	3	4	151	1	0	0	0	0	1	0	0	0	14363	768	27	1	812	1	SIRT2	19	39380364	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	386842	39380364	19748619	4124	81289											
SARS2	54938	broad.mit.edu	37	chr19	39412061	39412061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgaccatgtggagcactCgagcctggctctcatccccg	6	8	10	17	3	1	0	1	0	1	0	5	3	3	1	5	2	2	2	5	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:39412061C>T	uc002oka.2	-	5	720	c.560G>A	c.(559-561)CGA>CAA	p.R187Q	SARS2_uc002ojz.2_5'UTR|SARS2_uc010xup.1_Missense_Mutation_p.R189Q|SARS2_uc002okb.2_Missense_Mutation_p.R187Q|SARS2_uc010xuq.1_Missense_Mutation_p.R187Q|SARS2_uc010xur.1_RNA	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	187					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			GTGGAGCACTCGAGCCTGGCT	0.692													6	34					0	0	1	0	0		T	39412061	T	T	39412061	3	4	151	1	0	0	0	0	1	0	0	0	13870	884	31	1	1044	1	SARS2	19	39412061	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	31697	39412061	19716922	4125	81290											
PAPL	390928	broad.mit.edu	37	chr19	39589225	39589225	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accttcgtcccctttgtggaCgggggcattctccggcggaa	5	10	13	13	4	1	0	0	0	1	0	4	2	2	2	4	5	0	1	4	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:39589225C>T	uc002oki.2	+	3	523	c.249C>T	c.(247-249)GAC>GAT	p.D83D	PAPL_uc010egl.2_Silent_p.D83D	NM_001004318	NP_001004318	Q6ZNF0	PAPL_HUMAN	iron/zinc purple acid phosphatase-like protein	83						extracellular region	acid phosphatase activity|metal ion binding				0						CCTTTGTGGACGGGGGCATTC	0.652													9	34					0	0	1	0	0		T	39589225	T	T	39589225	2	4	151	1	0	0	0	0	0	0	0	1	11446	535	19	1		1	PAPL	19	39589225	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	177164	39589225	19539758	4126	81291											
IL28A	282616	broad.mit.edu	37	chr19	39759494	39759494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttaagagggccaaagatgCcttagtgagtctccccctgc	9	10	10	12	0	1	3	0	1	1	2	2	3	1	3	4	1	2	0	4	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:39759494C>T	uc002oku.1	+	2	240	c.188C>T	c.(187-189)GCC>GTC	p.A63V		NM_172138	NP_742150	Q8IZJ0	IL28A_HUMAN	interleukin 28A precursor	63					response to virus	extracellular space	cytokine activity			ovary(1)|skin(1)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;5.39e-26)|all cancers(26;4.1e-23)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			GCCAAAGATGCCTTAGTGAGT	0.612													6	13					0	0	1	0	0		T	39759494	T	T	39759494	3	4	151	1	0	0	0	0	1	0	0	0	7698	739	26	2	194	2	IL28A	19	39759494	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	170269	39759494	19369489	4127	81292											
PAF1	54623	broad.mit.edu	37	chr19	39879431	39879431	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgagacatcatctccaaCgcagctgcaccactcgtgtc	9	8	8	16	2	2	1	1	1	1	1	5	2	2	1	3	0	3	3	3	0	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:39879431C>T	uc002old.2	-	9	886	c.711G>A	c.(709-711)GCG>GCA	p.A237A	PAF1_uc002ole.1_Silent_p.A227A|PAF1_uc010xuv.1_RNA|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	237					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			TCATCTCCAACGCAGCTGCAC	0.547													12	80					0	0	1	0	0		T	39879431	T	T	39879431	2	4	151	1	0	0	0	0	0	0	0	1	11402	523	19	1		1	PAF1	19	39879431	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	119937	39879431	19249552	4128	81293											
MAP3K10	4294	broad.mit.edu	37	chr19	40698259	40698259	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaggagatcatcggtgtgggGggctttggcaaggtctatcg	7	10	18	6	2	2	1	1	0	1	1	4	3	2	1	0	7	0	2	0	7	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:40698259G>T	uc002ona.2	+	1	609	c.321G>T	c.(319-321)GGG>GGT	p.G107G		NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	107	Protein kinase.|ATP (By similarity).		G -> E (in a metastatic melanoma sample; somatic mutation).		activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity	p.G107E(1)		ovary(2)|lung(2)|skin(1)|pancreas(1)	6						TCGGTGTGGGGGGCTTTGGCA	0.701													3	16					1	1	1	1	0		T	40698259	T	T	40698259	2	4	151	1	0	0	0	0	0	0	0	1	9262	1219	43	5		5	MAP3K10	19	40698259	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	818828	40698259	18430724	4129	81294											
MAP3K10	4294	broad.mit.edu	37	chr19	40712065	40712065	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacatcagcctgccctctgGtacccacccgtgtccccaga	7	7	7	20	1	2	1	1	0	1	1	3	1	3	1	7	1	3	1	7	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:40712065G>A	uc002ona.2	+	5	1723	c.1435_splice	c.e5+1	p.G479_splice	MAP3K10_uc002onb.2_Intron	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase						activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						CTGCCCTCTGGTACCCACCCG	0.607													9	18					0	0	1	0	0		A	40712065	A	A	40712065	5	1	151	1	0	0	0	0	0	0	1	0	9262	1275	44	4	1454	4	MAP3K10	19	40712065	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	13806	40712065	18416918	4130	81295											
MAP3K10	4294	broad.mit.edu	37	chr19	40721046	40721046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctggaaactggtctccttCggccggacactcaccatctc	7	9	8	17	2	3	0	1	0	2	0	6	2	3	2	4	4	1	0	4	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:40721046C>T	uc002ona.2	+	10	3000	c.2712C>T	c.(2710-2712)TTC>TTT	p.F904F	MAP3K10_uc002onb.2_Silent_p.F293F	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	904					activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						TGGTCTCCTTCGGCCGGACAC	0.697													3	5					0	0	1	0	0		T	40721046	T	T	40721046	2	4	151	1	0	0	0	0	0	0	0	1	9262	883	31	1		1	MAP3K10	19	40721046	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	8981	40721046	18407937	4131	81296											
SPTBN4	57731	broad.mit.edu	37	chr19	41003397	41003397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctgtgcccctgcccaggCctgatctcgtggacttcagc	4	10	11	16	1	3	1	1	1	2	0	4	2	3	2	4	2	3	1	4	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41003397C>T	uc002ony.2	+	7	756	c.670C>T	c.(670-672)CCT>TCT	p.P224S	SPTBN4_uc002onx.2_Missense_Mutation_p.P224S|SPTBN4_uc002onz.2_Missense_Mutation_p.P224S	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	224	Actin-binding.|CH 2.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCTGCCCAGGCCTGATCTCGT	0.637													11	57					0	0	1	0	0		T	41003397	T	T	41003397	3	4	151	1	0	0	0	0	1	0	0	0	15146	753	26	2	692	2	SPTBN4	19	41003397	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	282351	41003397	18125586	4132	81297											
SPTBN4	57731	broad.mit.edu	37	chr19	41009954	41009954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactgggcttgtgggtgcccGgcggacacgacttgagcaga	8	7	16	10	3	0	2	0	1	0	1	0	4	0	3	1	4	3	2	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41009954G>A	uc002ony.2	+	12	1666	c.1580G>A	c.(1579-1581)CGG>CAG	p.R527Q	SPTBN4_uc002onx.2_Missense_Mutation_p.R527Q|SPTBN4_uc002onz.2_Missense_Mutation_p.R527Q	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	527	Spectrin 3.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GTGGGTGCCCGGCGGACACGA	0.647													15	47					0	0	1	0	0		A	41009954	A	A	41009954	3	1	151	1	0	0	0	0	1	0	0	0	15146	1116	39	1	1622	1	SPTBN4	19	41009954	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6557	41009954	18119029	4133	81298											
LTBP4	8425	broad.mit.edu	37	chr19	41125264	41125264	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcttacagatgtgaacgagtGtgaaacactacagggtgtat	13	10	12	6	1	0	3	0	2	0	1	0	4	0	3	0	1	4	2	0	1	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41125264G>A	uc002ooh.1	+	26	3284	c.3284G>A	c.(3283-3285)TGT>TAT	p.C1095Y	LTBP4_uc002oog.1_Missense_Mutation_p.C1058Y|LTBP4_uc002ooi.1_Missense_Mutation_p.C1028Y|LTBP4_uc002ooj.1_Translation_Start_Site|LTBP4_uc002ook.1_Missense_Mutation_p.C229Y|LTBP4_uc002ool.1_Missense_Mutation_p.C107Y|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_Translation_Start_Site	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1095	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GTGAACGAGTGTGAAACACTA	0.493													32	147					0	0	1	0	0		A	41125264	A	A	41125264	3	1	151	1	0	0	0	0	1	0	0	0	9094	1377	48	4	3674	4	LTBP4	19	41125264	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	115310	41125264	18003719	4134	81299											
LTBP4	8425	broad.mit.edu	37	chr19	41125313	41125313	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctgtgtgaaaatgtcgaAggctccttcctctgtgtctg	6	13	11	11	1	2	1	0	1	2	0	5	2	4	1	3	1	0	1	3	1	3	1	rs35731433		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41125313A>G	uc002ooh.1	+	26	3333	c.3333A>G	c.(3331-3333)GAA>GAG	p.E1111E	LTBP4_uc002oog.1_Silent_p.E1074E|LTBP4_uc002ooi.1_Silent_p.E1044E|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Silent_p.E245E|LTBP4_uc002ool.1_Silent_p.E123E|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'UTR	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1111	Cys-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AAAATGTCGAAGGCTCCTTCC	0.542													21	120					0	0	1	0	0		G	41125313	G	G	41125313	2	3	151	1	0	0	0	0	0	0	0	1	9094	69	3	3		3	LTBP4	19	41125313	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	49	41125313	18003670	4135	81300											
LTBP4	8425	broad.mit.edu	37	chr19	41135314	41135314	+	Silent	SNP	T	C	C	0	1	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	tccgcagacatcaacgagtgTgatgaggccgaggctgcctc	9	7	13	12	3	1	3	1	2	0	1	3	5	2	3	3	2	2	2	3	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41135314T>C	uc002ooh.1	+	34	4734	c.4734T>C	c.(4732-4734)TGT>TGC	p.C1578C	LTBP4_uc002oog.1_Silent_p.C1541C|LTBP4_uc002ooi.1_Silent_p.C1511C|LTBP4_uc002ooj.1_Silent_p.C451C|LTBP4_uc002ool.1_Silent_p.C590C|LTBP4_uc010xvp.1_Silent_p.C338C	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1578	EGF-like 16.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCAACGAGTGTGATGAGGCCG	0.627													6	47					0	0	1	0	0		C	41135314	C	C	41135314	2	2	151	1	0	0	0	0	0	0	0	1	9094	1702	59	3		3	LTBP4	19	41135314	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10001	41135314	17993669	4136	81301											
CYP2A6	1548	broad.mit.edu	37	chr19	41354549	41354549	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggagggcgtcgatgaggaAgcccgcctcctcctggatgc	6	6	15	14	4	0	1	0	1	0	0	3	5	2	4	5	4	2	0	5	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41354549A>G	uc002opl.3	-	3	484	c.463T>C	c.(463-465)TTC>CTC	p.F155L	CYP2A6_uc010ehe.1_5'UTR|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	155					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	TCGATGAGGAAGCCCGCCTCC	0.706													5	30					0	0	1	0	0		G	41354549	G	G	41354549	3	3	151	1	0	0	0	0	1	0	0	0	4165	72	3	3	1049	3	CYP2A6	19	41354549	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	219235	41354549	17774434	4137	81302											
CYP2A7	1549	broad.mit.edu	37	chr19	41386114	41386114	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctgatgacattggagactgTgcggctcaggaagaaggtgg	10	8	17	6	1	1	4	1	2	0	2	1	6	1	5	0	5	1	2	0	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41386114T>C	uc002opm.2	-	4	1071	c.529A>G	c.(529-531)ACA>GCA	p.T177A	CYP2A7_uc002opo.2_Missense_Mutation_p.T177A|CYP2A7_uc002opn.2_Missense_Mutation_p.T126A	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	177						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TTGGAGACTGTGCGGCTCAGG	0.532													14	65					0	0	1	0	0		C	41386114	C	C	41386114	3	2	151	1	0	0	0	0	1	0	0	0	4166	1696	59	3	979	3	CYP2A7	19	41386114	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	31565	41386114	17742869	4138	81303											
AXL	558	broad.mit.edu	37	chr19	41744382	41744382	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtcctccagtgcccctGggcccccctgagaacattag	6	8	9	18	0	0	1	0	1	0	1	2	2	2	1	8	1	2	0	8	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:41744382G>T	uc010ehj.2	+	8	1192	c.1002G>T	c.(1000-1002)CTG>CTT	p.L334L	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Silent_p.L334L|AXL_uc010ehk.2_Silent_p.L334L	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	334	Extracellular (Potential).|Fibronectin type-III 2.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						CAGTGCCCCTGGGCCCCCCTG	0.662													13	68					2.32078e-09	2.38489e-09	1	1	0		T	41744382	T	T	41744382	2	4	151	1	0	0	0	0	0	0	0	1	1239	1335	47	5		5	AXL	19	41744382	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	358268	41744382	17384601	4139	81304											
CEACAM7	1087	broad.mit.edu	37	chr19	42191122	42191122	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatattggtctgggcactgTttggcaggttccagaaggtt	8	13	13	7	0	1	1	0	0	1	1	2	1	2	1	1	5	0	5	1	5	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42191122T>C	uc002ori.1	-	2	97	c.95A>G	c.(94-96)AAC>AGC	p.N32S	CEACAM7_uc010ehx.2_Missense_Mutation_p.N32S|CEACAM7_uc010ehy.1_Missense_Mutation_p.N32S	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	32						anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		CTGGGCACTGTTTGGCAGGTT	0.493													16	169					0	0	1	0	0		C	42191122	C	C	42191122	3	2	151	1	0	0	0	0	1	0	0	0	3200	1725	60	3	714	3	CEACAM7	19	42191122	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	446740	42191122	16937861	4140	81305											
CEACAM3	1084	broad.mit.edu	37	chr19	42301579	42301579	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagctcactattgaatccatGccgctcagtgtcgcagaggg	10	9	11	11	2	2	2	2	1	0	1	4	2	3	2	2	1	2	3	2	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42301579G>A	uc002orn.1	+	2	199	c.123G>A	c.(121-123)ATG>ATA	p.M41I	CEACAM3_uc010eia.1_Missense_Mutation_p.M41I|CEACAM3_uc002oro.1_RNA	NM_001815	NP_001806	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion	41	Ig-like V-type.|Extracellular (Potential).					integral to membrane				skin(1)	1						TTGAATCCATGCCGCTCAGTG	0.512													28	145					0	0	1	0	0		A	42301579	A	A	42301579	3	1	151	1	0	0	0	0	1	0	0	0	3196	1319	46	2	129	2	CEACAM3	19	42301579	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	110457	42301579	16827404	4141	81306											
CD79A	973	broad.mit.edu	37	chr19	42383168	42383168	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatagcagcaacaacgccaAcgtcacctggtggcgcgtcc	11	5	10	15	4	1	0	1	0	0	0	2	0	2	0	3	2	5	2	3	2	5	1	rs151224661	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42383168A>G	uc002orv.2	+	2	373	c.188A>G	c.(187-189)AAC>AGC	p.N63S	CD79A_uc002oru.2_Missense_Mutation_p.N63S	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	63	Ig-like C2-type.|Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						AACAACGCCAACGTCACCTGG	0.607			O|S		DLBCL								15	63					0	0	1	0	0		G	42383168	G	G	42383168	3	3	151	1	0	0	0	0	1	0	0	0	3039	43	2	3	194	3	CD79A	19	42383168	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	81589	42383168	16745815	4142	81307											
RABAC1	10567	broad.mit.edu	37	chr19	42463428	42463428	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctcggcatctttctgctggTccttctgcgctgccatgtct	2	15	9	15	2	4	0	0	0	4	0	6	0	5	0	3	2	3	3	3	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42463428T>C	uc002osf.2	-	1	101	c.17A>G	c.(16-18)GAC>GGC	p.D6G		NM_006423	NP_006414	Q9UI14	PRAF1_HUMAN	Rab acceptor 1	6	Cytoplasmic (By similarity).					cell junction|Golgi apparatus|integral to membrane|synaptic vesicle	identical protein binding				0						TTTCTGCTGGTCCTTCTGCGC	0.582													5	28					0	0	1	0	0		C	42463428	C	C	42463428	3	2	151	1	0	0	0	0	1	0	0	0	12985	1667	58	3	560	3	RABAC1	19	42463428	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	80260	42463428	16665555	4143	81308											
ATP1A3	478	broad.mit.edu	37	chr19	42474390	42474390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaccaatttgtccgtcCgcgggttcctgggctgtctc	4	13	11	13	3	1	1	0	1	1	0	5	1	4	1	4	2	0	2	4	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42474390C>T	uc002osg.2	-	18	2643	c.2489G>A	c.(2488-2490)CGG>CAG	p.R830Q	ATP1A3_uc010xwf.1_Missense_Mutation_p.R841Q|ATP1A3_uc010xwg.1_Missense_Mutation_p.R800Q|ATP1A3_uc010xwh.1_Missense_Mutation_p.R843Q|ATP1A3_uc002osh.2_Missense_Mutation_p.R830Q	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	830	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						TTTGTCCGTCCGCGGGTTCCT	0.617													18	47					0	0	1	0	0		T	42474390	T	T	42474390	3	4	151	1	0	0	0	0	1	0	0	0	1131	652	23	1	576	1	ATP1A3	19	42474390	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10962	42474390	16654593	4144	81309											
ATP1A3	478	broad.mit.edu	37	chr19	42480695	42480695	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtccttgaggtcggtgccgTggatcacgcaggccttggca	6	9	15	11	3	1	1	1	1	0	0	3	2	2	2	3	5	1	2	3	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42480695T>C	uc002osg.2	-	15	2121	c.1967A>G	c.(1966-1968)CAC>CGC	p.H656R	ATP1A3_uc010xwf.1_Missense_Mutation_p.H667R|ATP1A3_uc010xwg.1_Missense_Mutation_p.H626R|ATP1A3_uc010xwh.1_Missense_Mutation_p.H669R|ATP1A3_uc002osh.2_Missense_Mutation_p.H656R	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	656	Cytoplasmic (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GTCGGTGCCGTGGATCACGCA	0.582													13	58					0	0	1	0	0		C	42480695	C	C	42480695	3	2	151	1	0	0	0	0	1	0	0	0	1131	1696	59	3	1110	3	ATP1A3	19	42480695	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	6305	42480695	16648288	4145	81310											
GRIK5	2901	broad.mit.edu	37	chr19	42507556	42507556	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgaagacagcaatgatgagGccacagatgagcacgataaa	18	4	11	8	2	0	5	0	3	0	2	0	7	0	5	1	1	2	2	1	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42507556G>A	uc002osj.1	-	18	2477	c.2442C>T	c.(2440-2442)GGC>GGT	p.G814G	GRIK5_uc002osi.1_Silent_p.G386G	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	814	Helical; (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	CAATGATGAGGCCACAGATGA	0.582													12	59					0	0	1	0	0		A	42507556	A	A	42507556	2	1	151	1	0	0	0	0	0	0	0	1	6793	1190	42	2		2	GRIK5	19	42507556	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	26861	42507556	16621427	4146	81311											
ZNF574	64763	broad.mit.edu	37	chr19	42583295	42583295	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggcccgagtggctgtGgagcactcataccgaaaggc	9	5	15	12	2	1	0	1	0	0	0	1	3	1	1	3	5	2	2	3	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42583295G>A	uc002osm.3	+	2	706	c.537G>A	c.(535-537)GTG>GTA	p.V179V	ZNF574_uc002osk.3_Silent_p.V269V	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	179					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GAGTGGCTGTGGAGCACTCAT	0.652													16	75					0	0	1	0	0		A	42583295	A	A	42583295	2	1	151	1	0	0	0	0	0	0	0	1	18031	1335	47	4		4	ZNF574	19	42583295	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	75739	42583295	16545688	4147	81312											
ZNF526	116115	broad.mit.edu	37	chr19	42729973	42729973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccctgaacggcgtcaccGctgtggggtttgtggcaagg	5	8	16	12	3	1	1	1	1	0	0	1	1	1	1	3	5	1	3	3	5	2	1	rs149858475		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42729973G>A	uc002osz.1	+	3	1574	c.1418G>A	c.(1417-1419)CGC>CAC	p.R473H		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	473	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CGGCGTCACCGCTGTGGGGTT	0.657													22	74					0	0	1	0	0		A	42729973	A	A	42729973	3	1	151	1	0	0	0	0	1	0	0	0	17992	1087	38	1	1420	1	ZNF526	19	42729973	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	146678	42729973	16399010	4148	81313											
ERF	2077	broad.mit.edu	37	chr19	42753338	42753338	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgcaggtaccgtttcatgTcctcagggctgaaggagaag	9	9	13	10	1	2	2	2	1	0	1	3	3	3	2	3	3	2	4	3	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42753338T>C	uc002ote.3	-	4	1084	c.926A>G	c.(925-927)GAC>GGC	p.D309G	ERF_uc002otd.3_Missense_Mutation_p.D40G	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	309					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CCGTTTCATGTCCTCAGGGCT	0.677													4	24					0	0	1	0	0		C	42753338	C	C	42753338	3	2	151	1	0	0	0	0	1	0	0	0	5229	1667	58	3	724	3	ERF	19	42753338	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	23365	42753338	16375645	4149	81314											
CIC	23152	broad.mit.edu	37	chr19	42791321	42791321	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggtccgcctcccaccacGgaggaggaggcctccggccc	7	3	14	17	3	0	0	0	0	0	0	3	3	3	3	7	6	0	0	7	6	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42791321G>A	uc002otf.1	+	3	421	c.381G>A	c.(379-381)ACG>ACA	p.T127T		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	127	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CTCCCACCACGGAGGAGGAGG	0.677			T	DUX4	soft tissue sarcoma								10	21					0	0	1	0	0		A	42791321	A	A	42791321	2	1	151	1	0	0	0	0	0	0	0	1	3427	1103	39	1		1	CIC	19	42791321	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	37983	42791321	16337662	4150	81315											
CIC	23152	broad.mit.edu	37	chr19	42795161	42795161	+	Silent	SNP	A	G	G	1	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	gccccacacttggtggctggAcccctgctgggcactgtggg	4	8	15	14	0	0	0	0	0	0	0	0	1	0	1	4	5	1	3	4	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42795161A>G	uc002otf.1	+	10	2281	c.2241A>G	c.(2239-2241)GGA>GGG	p.G747G		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	747	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				TGGTGGCTGGACCCCTGCTGG	0.667			T	DUX4	soft tissue sarcoma								5	26					0	0	1	0	0		G	42795161	G	G	42795161	2	3	151	1	0	0	0	0	0	0	0	1	3427	262	10	3		3	CIC	19	42795161	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3840	42795161	16333822	4151	81316											
LIPE	3991	broad.mit.edu	37	chr19	42911584	42911584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctccaggctccgttggcCgttggactttatcaggctgc	5	11	12	13	2	1	0	1	0	0	0	3	1	3	1	3	4	2	5	3	4	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:42911584C>T	uc002otr.2	-	6	2156	c.1879G>A	c.(1879-1881)GGC>AGC	p.G627S	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	627					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CTCCGTTGGCCGTTGGACTTT	0.672													4	17					0	0	1	0	0		T	42911584	T	T	42911584	3	4	151	1	0	0	0	0	1	0	0	0	8838	652	23	1	1371	1	LIPE	19	42911584	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	116423	42911584	16217399	4152	81317											
CEACAM1	634	broad.mit.edu	37	chr19	43023277	43023277	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtttttgaagaaccaacggaTggagattccagtgtcatttg	11	13	11	6	1	1	3	1	1	0	2	2	5	2	4	2	2	2	1	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:43023277T>G	uc002otv.2	-	5	1182	c.1069A>C	c.(1069-1071)ATC>CTC	p.I357L	uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron|CEACAM1_uc010eii.2_Intron|CEACAM1_uc002otw.2_Missense_Mutation_p.I357L|CEACAM1_uc010eij.2_Missense_Mutation_p.I357L|CEACAM1_uc002otx.2_Intron|CEACAM1_uc002oty.2_Intron|CEACAM1_uc002otz.2_Intron|CEACAM1_uc010eik.2_Intron|CEACAM1_uc002oua.2_Missense_Mutation_p.I357L|CEACAM1_uc002oub.2_Intron	NM_001712	NP_001703	P13688	CEAM1_HUMAN	carcinoembryonic antigen-related cell adhesion	357	Ig-like C2-type 3.|Extracellular (Potential).				angiogenesis|cell migration|homophilic cell adhesion|integrin-mediated signaling pathway	extracellular region|integral to plasma membrane|membrane fraction				ovary(1)|central_nervous_system(1)	2		Prostate(69;0.00682)		GBM - Glioblastoma multiforme(486;0.00148)	Arcitumomab(DB00113)	AACCAACGGATGGAGATTCCA	0.517													47	129					0	0	1	0	0		G	43023277	G	G	43023277	3	3	151	1	0	0	0	0	1	0	0	0	3190	1464	51	5	628	5	CEACAM1	19	43023277	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	111693	43023277	16105706	4153	81318											
LYPD5	284348	broad.mit.edu	37	chr19	44301943	44301943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtggtgcaggagggccGgtggcaggttctgatgtaca	6	9	18	8	2	1	1	0	1	1	0	2	2	1	2	1	7	2	4	1	7	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:44301943G>A	uc002oxm.3	-	5	637	c.556C>T	c.(556-558)CGG>TGG	p.R186W	LYPD5_uc002oxn.3_Missense_Mutation_p.R143W	NM_001031749	NP_001026919	Q6UWN5	LYPD5_HUMAN	LY6/PLAUR domain containing 5 isoform A	186	UPAR/Ly6.					anchored to membrane|plasma membrane					0		Prostate(69;0.0352)				CAGGAGGGCCGGTGGCAGGTT	0.602													6	35					0	0	1	0	0		A	44301943	A	A	44301943	3	1	151	1	0	0	0	0	1	0	0	0	9131	1115	39	1	203	1	LYPD5	19	44301943	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1278666	44301943	14827040	4154	81319											
ZNF45	7596	broad.mit.edu	37	chr19	44418119	44418119	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcctgtgtggattctacagTgtacattaagatctgagctc	9	14	9	9	0	2	2	0	1	2	1	4	3	3	3	1	1	3	2	1	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:44418119T>C	uc002oxu.1	-	4	1568	c.1469A>G	c.(1468-1470)CAC>CGC	p.H490R	ZNF45_uc002oxw.1_Missense_Mutation_p.H490R|ZNF45_uc002oxv.1_Missense_Mutation_p.H490R	NM_003425	NP_003416	Q02386	ZNF45_HUMAN	zinc finger protein 45	490	C2H2-type 12.				multicellular organismal development	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GATTCTACAGTGTACATTAAG	0.483													22	71					0	0	1	0	0		C	44418119	C	C	44418119	3	2	151	1	0	0	0	0	1	0	0	0	17946	1696	59	3	583	3	ZNF45	19	44418119	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	116176	44418119	14710864	4155	81320											
ZNF230	7773	broad.mit.edu	37	chr19	44514742	44514742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttacatctcagctcttcGtattcaccagagagttcact	9	14	6	12	1	4	1	3	0	2	1	6	2	4	1	1	0	2	4	1	0	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:44514742G>A	uc002oyb.1	+	5	802	c.551G>A	c.(550-552)CGT>CAT	p.R184H		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	184	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TCAGCTCTTCGTATTCACCAG	0.453													48	214					0	0	1	0	0		A	44514742	A	A	44514742	3	1	151	1	0	0	0	0	1	0	0	0	17809	1145	40	1	565	1	ZNF230	19	44514742	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	96623	44514742	14614241	4156	81321											
ZNF225	7768	broad.mit.edu	37	chr19	44635769	44635769	+	Silent	SNP	T	C	C	0	1	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	aaatcagcacttaatagtcaTcgcatggtccacacaggaga	15	8	8	10	1	2	1	2	0	0	1	4	2	3	1	1	2	1	2	1	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:44635769T>C	uc002oyj.1	+	5	1245	c.1002T>C	c.(1000-1002)CAT>CAC	p.H334H	ZNF225_uc010eje.1_Silent_p.H251H|ZNF225_uc010ejf.1_Silent_p.H334H	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	334	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				TTAATAGTCATCGCATGGTCC	0.408													57	204					0	0	1	0	0		C	44635769	C	C	44635769	2	2	151	1	0	0	0	0	0	0	0	1	17804	1432	50	3		3	ZNF225	19	44635769	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	121027	44635769	14493214	4157	81322											
ZNF180	7733	broad.mit.edu	37	chr19	44980768	44980768	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaataagtcgagcactcaAgctaaatgtttttccacact	14	11	5	11	1	1	0	1	0	0	0	3	1	2	0	1	0	2	3	1	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:44980768A>G	uc002ozf.3	-	5	2212	c.1930T>C	c.(1930-1932)TTG>CTG	p.L644L	ZNF180_uc002ozh.3_Silent_p.L301L|ZNF180_uc002ozi.3_Silent_p.L617L|ZNF180_uc002ozg.3_Silent_p.L643L|ZNF180_uc010ejm.2_Silent_p.L619L	NM_013256	NP_037388	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	644	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				CGAGCACTCAAGCTAAATGTT	0.373													8	260					0	0	1	0	0		G	44980768	G	G	44980768	2	3	151	1	0	0	0	0	0	0	0	1	17773	69	3	3		3	ZNF180	19	44980768	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	344999	44980768	14148215	4158	81323											
BCL3	602	broad.mit.edu	37	chr19	45254502	45254502	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagccttactgcctttgtAccccactcgggccatgggct	6	10	11	14	1	0	0	0	0	0	0	1	1	0	1	5	3	4	2	5	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:45254502A>G	uc010xxe.1	+	2	345	c.275A>G	c.(274-276)TAC>TGC	p.Y92C		NM_005178	NP_005169	P20749	BCL3_HUMAN	B-cell CLL/lymphoma 3	92	Pro-rich.				DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|I-kappaB kinase/NF-kappaB cascade|maintenance of protein location in nucleus|negative regulation of apoptosis|negative regulation of interleukin-8 biosynthetic process|negative regulation of transcription, DNA-dependent|positive regulation of translation|protein import into nucleus, translocation|regulation of DNA binding|regulation of NF-kappaB import into nucleus|response to UV-C|response to virus	Bcl3-Bcl10 complex|Bcl3/NF-kappaB2 complex|nucleus|perinuclear region of cytoplasm	protein binding, bridging|transcription factor binding			ovary(1)|lung(1)	2	Lung NSC(12;0.000698)|all_lung(12;0.002)	Ovarian(192;0.0728)				CTGCCTTTGTACCCCACTCGG	0.582			T	IGH@	CLL 								20	103					0	0	1	0	0		G	45254502	G	G	45254502	3	3	151	1	0	0	0	0	1	0	0	0	1376	391	14	3	281	3	BCL3	19	45254502	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	273734	45254502	13874481	4159	81324											
BCAM	4059	broad.mit.edu	37	chr19	45315633	45315633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcactgctgaggccactgcgCggctcaacgtgtttggtaag	7	9	14	11	3	1	1	1	1	0	0	1	1	1	1	1	3	3	5	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:45315633C>T	uc002ozu.2	+	3	462	c.418C>T	c.(418-420)CGG>TGG	p.R140W	BCAM_uc002ozt.1_Missense_Mutation_p.R140W	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	140	Extracellular (Potential).|Ig-like V-type 1.				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GGCCACTGCGCGGCTCAACGT	0.682													6	21					0	0	1	0	0		T	45315633	T	T	45315633	3	4	151	1	0	0	0	0	1	0	0	0	1345	759	27	1	428	1	BCAM	19	45315633	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	61131	45315633	13813350	4160	81325											
ERCC2	2068	broad.mit.edu	37	chr19	45867349	45867349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacgccggtactcgtcccGcaggcgctgctcgtctgtct	4	9	12	16	6	2	1	0	0	2	1	5	1	3	1	2	2	2	4	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:45867349G>A	uc002pbj.2	-	10	891	c.844C>T	c.(844-846)CGG>TGG	p.R282W	ERCC2_uc002pbi.2_5'Flank|ERCC2_uc010ejz.2_Missense_Mutation_p.R204W|ERCC2_uc002pbk.2_Missense_Mutation_p.R258W|ERCC2_uc002pbl.3_Missense_Mutation_p.R258W|ERCC2_uc010xxj.1_RNA	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	282	Helicase ATP-binding.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		TACTCGTCCCGCAGGCGCTGC	0.706			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				3	5					0	0	1	0	0		A	45867349	A	A	45867349	3	1	151	1	0	0	0	0	1	0	0	0	5221	1086	38	1	1551	1	ERCC2	19	45867349	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	551716	45867349	13261634	4161	81326											
CD3EAP	10849	broad.mit.edu	37	chr19	45911617	45911617	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgtcagggagccctctgCagcccatcccagcaagtccc	7	6	9	19	0	2	0	1	0	1	0	4	1	4	1	5	1	4	2	5	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:45911617C>T	uc002pbq.1	+	3	879	c.391C>T	c.(391-393)CAG>TAG	p.Q131*	PPP1R13L_uc002pbo.2_5'Flank|PPP1R13L_uc002pbp.2_5'Flank|CD3EAP_uc002pbr.1_Nonsense_Mutation_p.Q133*	NM_012099	NP_036231	O15446	RPA34_HUMAN	CD3E antigen, epsilon polypeptide associated	131					rRNA transcription|transmembrane receptor protein tyrosine kinase signaling pathway	chromosome|RNA polymerase I transcription factor complex	DNA-directed RNA polymerase activity			large_intestine(2)|ovary(2)	4		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0251)		GAGCCCTCTGCAGCCCATCCC	0.652													16	90					0	0	1	0	0		T	45911617	T	T	45911617	4	4	151	1	0	0	0	0	0	1	0	0	3015	711	25	2	401	2	CD3EAP	19	45911617	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	44268	45911617	13217366	4162	81327											
RTN2	6253	broad.mit.edu	37	chr19	45997462	45997462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgaattctaattggtccGtgctatcgaggcactgtccc	7	12	10	12	3	1	1	0	1	1	0	4	2	3	1	3	2	1	2	3	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:45997462G>A	uc002pcb.2	-	4	1004	c.776C>T	c.(775-777)ACG>ATG	p.T259M	RTN2_uc002pcc.2_Missense_Mutation_p.T259M|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	259						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		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)		TAATTGGTCCGTGCTATCGAG	0.537													54	201					0	0	1	0	0		A	45997462	A	A	45997462	3	1	151	1	0	0	0	0	1	0	0	0	13751	1145	40	1	893	1	RTN2	19	45997462	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	85845	45997462	13131521	4163	81328											
SYMPK	8189	broad.mit.edu	37	chr19	46357726	46357726	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgatgccacgctccgacgggTgacgctgtctccactgccgc	5	8	12	16	5	1	2	0	2	1	0	3	3	2	2	4	1	2	2	4	1	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:46357726T>C	uc002pdn.2	-	2	273	c.28A>G	c.(28-30)ACC>GCC	p.T10A	SYMPK_uc002pdo.1_Missense_Mutation_p.T10A|SYMPK_uc002pdp.1_Missense_Mutation_p.T10A|SYMPK_uc002pdq.1_Missense_Mutation_p.T10A	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	10	Interaction with HSF1.				cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		CTCCGACGGGTGACGCTGTCT	0.622													8	39					0	0	1	0	0		C	46357726	C	C	46357726	3	2	151	1	0	0	0	0	1	0	0	0	15464	1696	59	3	3900	3	SYMPK	19	46357726	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	360264	46357726	12771257	4164	81329											
PPP5C	5536	broad.mit.edu	37	chr19	46850393	46850393	+	Frame_Shift_Del	DEL	C	-	-																															agaggactgagtgtgctgagCccccccgggacgaacccccg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:46850393delC	uc002pem.2	+	1	100	c.40delC	c.(40-42)CCCfs	p.P14fs	PPP5C_uc010xya.1_5'UTR|PPP5C_uc002pen.2_Frame_Shift_Del_p.P14fs	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	14					mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		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)		GTGTGCTGAGCCCCCCCGGGA	0.687											OREG0025570	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	3	---	---	---	---						.	-	46850393	-	-	46850393	7	5	151	1	0	1	0	1	0	0	0	0	12428	739	26	0	42	0	PPP5C	19	46850393	Frame_Shift_Del	DEL	C	TCGA-CG-5721-01A-11D-1600-08	492667	46850393	12278590	4165	81330											
CCDC8	83987	broad.mit.edu	37	chr19	46914891	46914891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtcagctggggcctccgCcctctgattatctgcagcct	4	11	11	15	1	3	1	1	1	2	0	4	1	4	1	4	3	3	2	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:46914891C>T	uc002pep.2	-	1	2029	c.1177G>A	c.(1177-1179)GCG>ACG	p.A393T		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	393						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		GGGGCCTCCGCCCTCTGATTA	0.587													36	151					0	0	1	0	0		T	46914891	T	T	46914891	3	4	151	1	0	0	0	0	1	0	0	0	2856	739	26	2	443	2	CCDC8	19	46914891	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	64498	46914891	12214092	4166	81331											
AP2S1	1175	broad.mit.edu	37	chr19	47342048	47342048	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacattgtggaaatattcGtttaagacctgggagaggaa	14	10	12	5	1	0	3	0	0	0	3	1	6	0	5	1	3	0	1	1	3	4	5	rs143384246		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:47342048G>A	uc002pft.1	-	4	456	c.276C>T	c.(274-276)AAC>AAT	p.N92N	AP2S1_uc002pfu.1_Silent_p.N54N	NM_004069	NP_004060	P53680	AP2S1_HUMAN	adaptor-related protein complex 2, sigma 1	92					axon guidance|clathrin coat assembly|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|regulation of endocytosis|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	protein transporter activity				0		all_cancers(25;1.24e-06)|all_epithelial(76;1.09e-05)|all_lung(116;0.00019)|Lung NSC(112;0.000601)|Ovarian(192;0.0221)|all_neural(266;0.0459)|Breast(70;0.128)		OV - Ovarian serous cystadenocarcinoma(262;3.86e-05)|all cancers(93;0.000107)|Epithelial(262;0.00325)|GBM - Glioblastoma multiforme(486;0.0336)		GGAAATATTCGTTTAAGACCT	0.443													15	42					0	0	1	0	0		A	47342048	A	A	47342048	2	1	151	1	0	0	0	0	0	0	0	1	743	1136	40	1		1	AP2S1	19	47342048	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	427157	47342048	11786935	4167	81332											
KPTN	11133	broad.mit.edu	37	chr19	47987271	47987271	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagcggaagccgagcacCttgcctttaagggtggcggc	7	8	16	10	3	0	0	0	0	0	0	0	2	0	1	3	5	4	2	3	5	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:47987271C>T	uc002pgy.2	-	1	251	c.147G>A	c.(145-147)AAG>AAA	p.K49K	KPTN_uc010xys.1_RNA|uc002pgz.1_5'Flank	NM_007059	NP_008990	Q9Y664	KPTN_HUMAN	kaptin (actin binding protein)	49					actin filament organization|cellular component movement|sensory perception of sound	actin cytoskeleton|growth cone|microtubule organizing center|nucleus|perinuclear region of cytoplasm|stereocilium	actin binding			ovary(1)	1		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)		AGCCGAGCACCTTGCCTTTAA	0.537											OREG0025593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	19					0	0	1	0	0		T	47987271	T	T	47987271	2	4	151	1	0	0	0	0	0	0	0	1	8453	680	24	4		4	KPTN	19	47987271	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	645223	47987271	11141712	4168	81333											
LIG1	3978	broad.mit.edu	37	chr19	48631219	48631219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggatctgcttcttttccCggtcccaagccacggcttcg	4	12	10	15	3	2	0	0	0	2	0	5	1	4	1	3	3	2	3	3	3	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:48631219C>T	uc002pia.1	-	20	2000	c.1880G>A	c.(1879-1881)CGG>CAG	p.R627Q	LIG1_uc010xze.1_Missense_Mutation_p.R320Q|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.R559Q|LIG1_uc010xzg.1_Missense_Mutation_p.R596Q	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	627					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	CTTCTTTTCCCGGTCCCAAGC	0.572								NER					29	162					0	0	1	0	0		T	48631219	T	T	48631219	3	4	151	1	0	0	0	0	1	0	0	0	8797	652	23	1	915	1	LIG1	19	48631219	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	643948	48631219	10497764	4169	81334											
FAM83E	54854	broad.mit.edu	37	chr19	49113254	49113254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgcacgacacggacatccaCgttctgttggtgtggggagt	7	9	14	11	4	1	0	0	0	1	0	2	3	2	2	2	4	0	3	2	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:49113254C>T	uc002pjn.2	-	3	702	c.637G>A	c.(637-639)GTG>ATG	p.V213M		NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	213										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		CGGACATCCACGTTCTGTTGG	0.637													7	13					0	0	1	0	0		T	49113254	T	T	49113254	3	4	151	1	0	0	0	0	1	0	0	0	5651	536	19	1	811	1	FAM83E	19	49113254	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	482035	49113254	10015729	4170	81335											
RPL18	6141	broad.mit.edu	37	chr19	49119424	49119424	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccccctgccctgaggatgcgGctgcgggcccggctggtcac	3	6	15	17	3	1	1	1	1	0	0	1	2	1	2	4	5	3	2	4	5	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:49119424G>A	uc002pjq.1	-	5	366	c.333C>T	c.(331-333)AGC>AGT	p.S111S	FAM83E_uc002pjn.2_5'Flank|RPL18_uc002pjp.1_Silent_p.S59S|RPL18_uc010xzs.1_3'UTR	NM_000979	NP_000970	Q07020	RL18_HUMAN	ribosomal protein L18	111					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0		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)		TGAGGATGCGGCTGCGGGCCC	0.667													13	43					0	0	1	0	0		A	49119424	A	A	49119424	2	1	151	1	0	0	0	0	0	0	0	1	13589	1194	42	2		2	RPL18	19	49119424	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6170	49119424	10009559	4171	81336											
TRPM4	54795	broad.mit.edu	37	chr19	49671550	49671550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactgggggtctgcacacggGcatcggccggcatgttggtg	5	8	17	11	3	1	0	0	0	1	0	2	0	1	0	1	6	1	4	1	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:49671550G>A	uc002pmw.2	+	5	554	c.482G>A	c.(481-483)GGC>GAC	p.G161D	TRPM4_uc010emu.2_Missense_Mutation_p.G161D|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_5'UTR|TRPM4_uc010emv.2_Intron|TRPM4_uc010yal.1_Intron	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	161	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		CTGCACACGGGCATCGGCCGG	0.612													23	92					0	0	1	0	0		A	49671550	A	A	49671550	3	1	151	1	0	0	0	0	1	0	0	0	16614	1203	42	2	500	2	TRPM4	19	49671550	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	552126	49671550	9457433	4172	81337											
TEAD2	8463	broad.mit.edu	37	chr19	49850573	49850573	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgagcggcggcgctccGgggctggggcagtgctggct	2	7	19	13	5	1	0	0	0	1	0	3	1	2	0	1	7	2	5	1	7	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:49850573G>A	uc002pnj.2	-	9	874	c.783C>T	c.(781-783)CCC>CCT	p.P261P	TEAD2_uc002png.2_Silent_p.P264P|TEAD2_uc002pnh.2_Silent_p.P265P|TEAD2_uc002pni.2_Silent_p.P264P|TEAD2_uc010yao.1_Silent_p.P133P|TEAD2_uc010emw.2_Silent_p.P264P	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	261	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		GCGGCGCTCCGGGGCTGGGGC	0.632													33	112					0	0	1	0	0		A	49850573	A	A	49850573	2	1	151	1	0	0	0	0	0	0	0	1	15764	1103	39	1		1	TEAD2	19	49850573	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	179023	49850573	9278410	4173	81338											
DKKL1	27120	broad.mit.edu	37	chr19	49868877	49868877	+	Missense_Mutation	SNP	A	G	G	1	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	agcaccagctggggaacaacAccctctccagccacctccag	11	4	8	18	0	1	0	0	0	1	0	3	1	2	1	6	2	5	2	6	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:49868877A>G	uc002pnk.2	+	3	509	c.295A>G	c.(295-297)ACC>GCC	p.T99A		NM_014419	NP_055234	Q9UK85	DKKL1_HUMAN	dickkopf-like 1 precursor	99					anatomical structure morphogenesis	extracellular space	protein binding|signal transducer activity				0		all_lung(116;1.66e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0456)		GGGGAACAACACCCTCTCCAG	0.607													14	74					0	0	1	0	0		G	49868877	G	G	49868877	3	3	151	1	0	0	0	0	1	0	0	0	4554	159	6	3	305	3	DKKL1	19	49868877	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	18304	49868877	9260106	4174	81339											
SLC17A7	57030	broad.mit.edu	37	chr19	49934038	49934038	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catagtgcaccagggaggcaAttaggaacacgtactgccac	13	6	11	11	1	0	0	0	0	0	0	0	2	0	2	2	3	4	3	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:49934038A>G	uc002pnp.2	-	12	1593	c.1421T>C	c.(1420-1422)ATT>ACT	p.I474T	SLC17A7_uc002pno.2_Missense_Mutation_p.I136T	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	474	Helical; (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		CAGGGAGGCAATTAGGAACAC	0.582													19	92					0	0	1	0	0		G	49934038	G	G	49934038	3	3	151	1	0	0	0	0	1	0	0	0	14447	101	4	3	265	3	SLC17A7	19	49934038	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	65161	49934038	9194945	4175	81340											
ALDH16A1	126133	broad.mit.edu	37	chr19	49973652	49973652	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcctgggaccaggaggcCgagggggcaggcccagagct	7	2	20	12	2	0	1	0	0	0	1	0	4	0	3	4	7	1	2	4	7	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:49973652C>T	uc002pnt.2	+	17	2453	c.2337C>T	c.(2335-2337)GCC>GCT	p.A779A	ALDH16A1_uc010yar.1_Silent_p.A728A|ALDH16A1_uc010yas.1_Silent_p.A614A|ALDH16A1_uc010yat.1_Silent_p.A616A	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	779							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		ACCAGGAGGCCGAGGGGGCAG	0.692													12	23					0	0	1	0	0		T	49973652	T	T	49973652	2	4	151	1	0	0	0	0	0	0	0	1	488	639	23	1		1	ALDH16A1	19	49973652	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	39614	49973652	9155331	4176	81341											
MED25	81857	broad.mit.edu	37	chr19	50333092	50333092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggaagctgcctgcgcttcGgcttctgtttgagaaggcag	6	10	14	11	3	1	1	0	1	1	1	2	3	1	2	2	3	3	5	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50333092G>A	uc002ppw.1	+	6	628	c.575G>A	c.(574-576)CGG>CAG	p.R192Q	MED25_uc010ybe.1_Intron|MED25_uc002ppx.1_5'UTR	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	192	Interaction with the Mediator complex.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)		CCTGCGCTTCGGCTTCTGTTT	0.647													5	4					0	0	1	0	0		A	50333092	A	A	50333092	3	1	151	1	0	0	0	0	1	0	0	0	9461	1116	39	1	597	1	MED25	19	50333092	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	359440	50333092	8795891	4177	81342											
ZNF473	25888	broad.mit.edu	37	chr19	50550263	50550263	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaaagcctttcggtgccacTcgagcctcagccgccatcag	9	7	10	15	3	2	1	2	0	0	1	4	2	2	1	5	1	4	0	5	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50550263T>C	uc002prn.2	+	5	2800	c.2563T>C	c.(2563-2565)TCG>CCG	p.S855P	ZNF473_uc002prm.2_Missense_Mutation_p.S855P|ZNF473_uc010ybo.1_Missense_Mutation_p.S843P	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	855	C2H2-type 20.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		TCGGTGCCACTCGAGCCTCAG	0.532											OREG0025632	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	29					0	0	1	0	0		C	50550263	C	C	50550263	3	2	151	1	0	0	0	0	1	0	0	0	17956	1551	54	3	2577	3	ZNF473	19	50550263	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	217171	50550263	8578720	4178	81343											
MYH14	79784	broad.mit.edu	37	chr19	50764738	50764738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccacccctcacagatccagGcgctggaactggaccccaac	10	4	8	19	1	1	1	1	0	0	1	2	3	2	3	6	3	2	1	6	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50764738G>A	uc002prr.1	+	19	2355	c.2308G>A	c.(2308-2310)GCG>ACG	p.A770T	MYH14_uc010enu.1_Missense_Mutation_p.A811T|MYH14_uc002prq.1_Missense_Mutation_p.A778T	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	770	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		ACAGATCCAGGCGCTGGAACT	0.468													6	23					0	0	1	0	0		A	50764738	A	A	50764738	3	1	151	1	0	0	0	0	1	0	0	0	10051	1203	42	2	2509	2	MYH14	19	50764738	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	214475	50764738	8364245	4179	81344											
KCNC3	3748	broad.mit.edu	37	chr19	50826917	50826917	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagcacgcgcagccccacGaagtgccgggtcagcttgaa	9	4	12	16	4	1	1	1	1	0	0	1	2	1	1	4	1	4	3	4	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50826917G>A	uc002pru.1	-	2	1588	c.1293C>T	c.(1291-1293)TTC>TTT	p.F431F	KCNC3_uc002prt.1_Silent_p.F67F	NM_004977	NP_004968	Q14003	KCNC3_HUMAN	Shaw-related voltage-gated potassium channel	431	Helical; Voltage-sensor; Name=Segment S4; (Potential).				cell death	voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1		all_neural(266;0.057)|Ovarian(192;0.208)		OV - Ovarian serous cystadenocarcinoma(262;0.00283)|GBM - Glioblastoma multiforme(134;0.0181)		GCAGCCCCACGAAGTGCCGGG	0.657													7	46					0	0	1	0	0		A	50826917	A	A	50826917	2	1	151	1	0	0	0	0	0	0	0	1	8032	1049	37	1		1	KCNC3	19	50826917	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	62179	50826917	8302066	4180	81345											
NAPSA	9476	broad.mit.edu	37	chr19	50868804	50868804	+	Silent	SNP	T	C	C	0	1	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	gggtcaccataccggatcagTgtggccccggaaggctccac	8	6	13	14	2	2	0	2	0	0	0	3	2	3	2	5	5	1	1	5	5	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50868804T>C	uc002prx.2	-	1	128	c.75A>G	c.(73-75)ACA>ACG	p.T25T	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	25					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		ACCGGATCAGTGTGGCCCCGG	0.453													12	36					0	0	1	0	0		C	50868804	C	C	50868804	2	2	151	1	0	0	0	0	0	0	0	1	10184	1683	59	3		3	NAPSA	19	50868804	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	41887	50868804	8260179	4181	81346											
POLD1	5424	broad.mit.edu	37	chr19	50905562	50905562	+	Silent	SNP	C	T	T	0	0	0	1	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	cgccgtctcctggaacagggCatccgtgtggcaggcctggg	5	7	16	13	3	1	0	0	0	1	0	3	1	2	1	4	5	1	2	4	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50905562C>T	uc002psb.3	+	6	746	c.690C>T	c.(688-690)GGC>GGT	p.G230G	POLD1_uc002psc.3_Silent_p.G230G|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Silent_p.G230G	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	230					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		TGGAACAGGGCATCCGTGTGG	0.697								DNA_polymerases_(catalytic_subunits)					5	22					0	0	1	0	0		T	50905562	T	T	50905562	2	4	151	1	0	0	0	0	0	0	0	1	12209	697	25	2		2	POLD1	19	50905562	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	36758	50905562	8223421	4182	81347											
POLD1	5424	broad.mit.edu	37	chr19	50921195	50921195	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcggaccccctggacctgaGgcctggtgaccttgcaagca	7	8	12	14	1	0	2	0	2	0	0	1	4	0	4	5	4	2	2	5	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50921195G>T	uc002psb.3	+	27	3371	c.3315G>T	c.(3313-3315)GAG>GAT	p.E1105D	POLD1_uc002psc.3_Missense_Mutation_p.E1105D|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.E1131D|SPIB_uc002psd.2_5'Flank|SPIB_uc002pse.2_5'Flank|SPIB_uc010ycc.1_5'Flank	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	1105					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		CTGGACCTGAGGCCTGGTGAC	0.602								DNA_polymerases_(catalytic_subunits)					4	5					0.00909568	0.00914281	1	1	0		T	50921195	T	T	50921195	3	4	151	1	0	0	0	0	1	0	0	0	12209	991	35	5	3417	5	POLD1	19	50921195	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	15633	50921195	8207788	4183	81348											
FAM71E1	112703	broad.mit.edu	37	chr19	50979589	50979589	+	Silent	SNP	T	C	C	0	1	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	aagagcgggctcctgatttgTgatgacgtccctggaggggg	7	9	17	8	2	0	4	0	3	0	1	2	5	2	5	2	4	1	1	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:50979589T>C	uc002psh.2	-	1	415	c.57A>G	c.(55-57)TCA>TCG	p.S19S	FAM71E1_uc002psg.2_Silent_p.S19S|FAM71E1_uc002psi.2_RNA|C19orf63_uc002psj.2_5'Flank|C19orf63_uc002psk.2_5'Flank|C19orf63_uc002psl.2_5'Flank	NM_138411	NP_612420	Q6IPT2	F71E1_HUMAN	hypothetical protein LOC112703	19										breast(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.0077)|GBM - Glioblastoma multiforme(134;0.026)		TCCTGATTTGTGATGACGTCC	0.657													9	40					0	0	1	0	0		C	50979589	C	C	50979589	2	2	151	1	0	0	0	0	0	0	0	1	5625	1683	59	3		3	FAM71E1	19	50979589	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	58394	50979589	8149394	4184	81349											
LRRC4B	94030	broad.mit.edu	37	chr19	51021967	51021967	+	Missense_Mutation	SNP	T	C	C	0	1	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	atgacagcgggcgcagcacgTcgtgttgctgggcaccgtct	6	8	15	12	5	1	1	0	1	1	0	2	1	1	1	1	2	3	5	1	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:51021967T>C	uc002pss.2	-	3	1140	c.1003A>G	c.(1003-1005)ACG>GCG	p.T335A		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	335	LRRCT.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GCGCAGCACGTCGTGTTGCTG	0.657													10	22					0	0	1	0	0		C	51021967	C	C	51021967	3	2	151	1	0	0	0	0	1	0	0	0	9025	1667	58	3	1142	3	LRRC4B	19	51021967	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	42378	51021967	8107016	4185	81350											
IGLON5	402665	broad.mit.edu	37	chr19	51825371	51825371	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgccgacaactacacagtgTgtgaaggtgacaacgccacc	12	6	10	13	2	0	2	0	2	0	0	0	3	0	2	3	1	4	0	3	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:51825371T>C	uc002pwc.2	+	2	133	c.133T>C	c.(133-135)TGT>CGT	p.C45R		NM_001101372	NP_001094842	A6NGN9	IGLO5_HUMAN	IgLON family member 5 precursor	45	Ig-like C2-type 1.					extracellular region					0						CTACACAGTGTGTGAAGGTGA	0.632													12	55					0	0	1	0	0		C	51825371	C	C	51825371	3	2	151	1	0	0	0	0	1	0	0	0	7611	1696	59	3	139	3	IGLON5	19	51825371	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	803404	51825371	7303612	4186	81351											
SIGLEC8	27181	broad.mit.edu	37	chr19	51955734	51955734	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatctccgagtattcactgtCagtggcctcctgtccctgcg	5	12	10	14	2	3	0	2	0	1	0	6	2	5	0	4	1	1	1	4	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:51955734C>G	uc002pwt.2	-	7	1466	c.1399G>C	c.(1399-1401)GAC>CAC	p.D467H	SIGLEC8_uc010yda.1_Missense_Mutation_p.D358H|SIGLEC8_uc002pwu.2_Intron|SIGLEC8_uc010eox.2_Missense_Mutation_p.D374H	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	467	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TATTCACTGTCAGTGGCCTCC	0.547													29	123					0	0	1	0	0		G	51955734	G	G	51955734	3	3	151	1	0	0	0	0	1	0	0	0	14339	826	29	5	104	5	SIGLEC8	19	51955734	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	130363	51955734	7173249	4187	81352											
SIGLEC8	27181	broad.mit.edu	37	chr19	51955829	51955829	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcccctgacgagggggcaAcagctgggggaggcttcttc	6	7	15	13	1	1	1	0	1	1	0	3	3	2	2	3	5	2	3	3	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:51955829A>G	uc002pwt.2	-	7	1371	c.1304T>C	c.(1303-1305)GTT>GCT	p.V435A	SIGLEC8_uc010yda.1_Missense_Mutation_p.V326A|SIGLEC8_uc002pwu.2_Intron|SIGLEC8_uc010eox.2_Missense_Mutation_p.V342A	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	435	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CGAGGGGGCAACAGCTGGGGG	0.587													3	80					0	0	1	0	0		G	51955829	G	G	51955829	3	3	151	1	0	0	0	0	1	0	0	0	14339	43	2	3	199	3	SIGLEC8	19	51955829	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	95	51955829	7173154	4188	81353											
SIGLEC12	89858	broad.mit.edu	37	chr19	52002707	52002707	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaggatatgttgagtcGgacagccctggtcatggtca	9	10	12	10	1	3	1	3	1	0	0	4	3	3	3	1	4	1	1	1	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52002707G>A	uc002pwx.1	-	3	1128	c.1072C>T	c.(1072-1074)CGA>TGA	p.R358*	SIGLEC12_uc002pww.1_Nonsense_Mutation_p.R240*|SIGLEC12_uc010eoy.1_Nonsense_Mutation_p.R85*	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	358	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		ATGTTGAGTCGGACAGCCCTG	0.607													9	41					0	0	1	0	0		A	52002707	A	A	52002707	4	1	151	1	0	0	0	0	0	1	0	0	14333	1124	39	1	739	1	SIGLEC12	19	52002707	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	46878	52002707	7126276	4189	81354											
FPR2	2358	broad.mit.edu	37	chr19	52272320	52272320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtctgggcccagaaccacCgcactgtgagtctggccatg	8	7	12	14	1	2	2	0	1	2	1	2	2	2	2	4	2	1	1	4	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52272320C>T	uc002pxr.2	+	2	454	c.409C>T	c.(409-411)CGC>TGC	p.R137C	FPR2_uc002pxs.3_Missense_Mutation_p.R137C|FPR2_uc010epf.2_Missense_Mutation_p.R137C	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	137	Cytoplasmic (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						CCAGAACCACCGCACTGTGAG	0.498													31	124					0	0	1	0	0		T	52272320	T	T	52272320	3	4	151	1	0	0	0	0	1	0	0	0	6053	652	23	1	411	1	FPR2	19	52272320	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	269613	52272320	6856663	4190	81355											
ZNF649	65251	broad.mit.edu	37	chr19	52394084	52394084	+	Silent	SNP	A	G	G	1	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	atatagaagtaagctttctcAcactcatcacagccataggg	14	10	7	10	0	3	1	3	0	1	1	4	1	3	1	1	1	2	2	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52394084A>G	uc002pxy.2	-	5	1573	c.1305T>C	c.(1303-1305)TGT>TGC	p.C435C	ZNF577_uc010ydd.1_5'Flank|ZNF577_uc002pxx.3_5'Flank|ZNF577_uc002pxv.2_5'Flank|ZNF577_uc002pxw.2_5'Flank|ZNF577_uc010yde.1_5'Flank|ZNF577_uc010ydf.1_Intron	NM_023074	NP_075562	Q9BS31	ZN649_HUMAN	zinc finger protein 649	435	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(266;0.0602)		GBM - Glioblastoma multiforme(134;0.00152)|OV - Ovarian serous cystadenocarcinoma(262;0.0185)		AAGCTTTCTCACACTCATCAC	0.438													74	269					0	0	1	0	0		G	52394084	G	G	52394084	2	3	151	1	0	0	0	0	0	0	0	1	18089	157	6	3		3	ZNF649	19	52394084	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	121764	52394084	6734899	4191	81356											
ZNF614	80110	broad.mit.edu	37	chr19	52519395	52519395	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataggattttccgcactcggTacatacaaagggagtctttc	11	12	9	9	2	1	0	0	0	1	0	4	2	2	2	1	3	2	2	1	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52519395T>C	uc002pyj.2	-	5	1858	c.1456A>G	c.(1456-1458)ACC>GCC	p.T486A	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.T189A	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	486	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CCGCACTCGGTACATACAAAG	0.408													73	321					0	0	1	0	0		C	52519395	C	C	52519395	3	2	151	1	0	0	0	0	1	0	0	0	18064	1638	57	3	305	3	ZNF614	19	52519395	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	125311	52519395	6609588	4192	81357											
ZNF841	284371	broad.mit.edu	37	chr19	52569204	52569204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccggtatgaattttcCgatgacgtgctaggcatgag	8	13	11	9	3	1	3	0	3	1	0	4	4	3	3	2	2	1	3	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52569204C>T	uc002pyl.1	-	5	2135	c.1583G>A	c.(1582-1584)CGG>CAG	p.R528Q	ZNF841_uc010ydh.1_Missense_Mutation_p.R644Q|ZNF841_uc010epk.1_Intron	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	528	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGAATTTTCCGATGACGTGC	0.423													44	185					0	0	1	0	0		T	52569204	T	T	52569204	3	4	151	1	0	0	0	0	1	0	0	0	18214	652	23	1	847	1	ZNF841	19	52569204	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	49809	52569204	6559779	4193	81358											
ZNF841	284371	broad.mit.edu	37	chr19	52569671	52569671	+	Silent	SNP	A	G	G	1	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	ctgaagaccttgccacattcAttacatttgtagggtttctc	9	15	7	10	0	2	2	1	1	1	1	3	2	2	2	2	1	2	2	2	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52569671A>G	uc002pyl.1	-	5	1668	c.1116T>C	c.(1114-1116)AAT>AAC	p.N372N	ZNF841_uc010ydh.1_Silent_p.N488N|ZNF841_uc010epk.1_Intron	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	372	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGCCACATTCATTACATTTGT	0.423													24	59					0	0	1	0	0		G	52569671	G	G	52569671	2	3	151	1	0	0	0	0	0	0	0	1	18214	214	8	3		3	ZNF841	19	52569671	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	467	52569671	6559312	4194	81359											
ZNF480	147657	broad.mit.edu	37	chr19	52817449	52817449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggccatagaattctctcaggCggagtggaaatgcctggacc	10	8	13	10	1	2	1	1	0	1	1	3	4	2	4	3	5	1	0	3	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52817449C>T	uc010ydl.1	+	3	186	c.116C>T	c.(115-117)GCG>GTG	p.A39V	ZNF480_uc002pyv.2_Intron|ZNF480_uc010ydm.1_Missense_Mutation_p.A39V|ZNF480_uc010epn.2_Intron|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	39	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		TTCTCTCAGGCGGAGTGGAAA	0.473													48	225					0	0	1	0	0		T	52817449	T	T	52817449	3	4	151	1	0	0	0	0	1	0	0	0	17960	768	27	1	122	1	ZNF480	19	52817449	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	247778	52817449	6311534	4195	81360											
ZNF480	147657	broad.mit.edu	37	chr19	52825579	52825579	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctataggattgcgctccttgTacgacatcagaaaattcata	13	12	7	9	2	2	1	2	0	0	1	3	3	3	2	1	1	2	2	1	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52825579T>C	uc010ydl.1	+	5	1146	c.1076T>C	c.(1075-1077)GTA>GCA	p.V359A	ZNF480_uc002pyv.2_Missense_Mutation_p.V282A|ZNF480_uc010ydm.1_Missense_Mutation_p.V316A|ZNF480_uc010epn.2_Missense_Mutation_p.V190A|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	359	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		GCGCTCCTTGTACGACATCAG	0.378													30	112					0	0	1	0	0		C	52825579	C	C	52825579	3	2	151	1	0	0	0	0	1	0	0	0	17960	1638	57	3	1090	3	ZNF480	19	52825579	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	8130	52825579	6303404	4196	81361											
ZNF528	84436	broad.mit.edu	37	chr19	52918502	52918502	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggaaaatttctgggtgtAagcattttgaaaaacccgtc	15	11	9	6	1	1	1	0	1	1	0	2	2	1	2	1	2	2	2	1	2	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:52918502A>G	uc002pzh.2	+	7	823	c.397A>G	c.(397-399)AAG>GAG	p.K133E	ZNF528_uc002pzi.2_5'UTR	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(134;0.00249)|OV - Ovarian serous cystadenocarcinoma(262;0.00817)		TTCTGGGTGTAAGCATTTTGA	0.348													21	73					0	0	1	0	0		G	52918502	G	G	52918502	3	3	151	1	0	0	0	0	1	0	0	0	17994	363	13	3	411	3	ZNF528	19	52918502	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	92923	52918502	6210481	4197	81362											
ZNF611	81856	broad.mit.edu	37	chr19	53208359	53208359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcacaaattgtacatttgTaagatttctctccagtatga	12	16	6	7	0	2	2	1	1	1	1	4	2	3	2	1	0	1	3	1	0	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53208359T>C	uc002pzz.2	-	7	2266	c.1949A>G	c.(1948-1950)TAC>TGC	p.Y650C	ZNF611_uc010eqc.2_Missense_Mutation_p.Y580C|ZNF611_uc010ydo.1_Missense_Mutation_p.Y580C|ZNF611_uc010ydr.1_Missense_Mutation_p.Y581C|ZNF611_uc010ydp.1_Missense_Mutation_p.Y650C|ZNF611_uc010ydq.1_Missense_Mutation_p.Y650C|ZNF611_uc002qaa.3_Missense_Mutation_p.Y580C	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	650	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		TGTACATTTGTAAGATTTCTC	0.403													68	274					0	0	1	0	0		C	53208359	C	C	53208359	3	2	151	1	0	0	0	0	1	0	0	0	18062	1638	57	3	172	3	ZNF611	19	53208359	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	289857	53208359	5920624	4198	81363											
ZNF160	90338	broad.mit.edu	37	chr19	53572886	53572886	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggatgacctgatgaatagTtagatttgaacgaacagtaa	16	11	10	4	1	0	5	0	4	0	1	0	7	0	6	1	1	2	2	1	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53572886T>C	uc010eqk.2	-	7	1317	c.901A>G	c.(901-903)ACT>GCT	p.T301A	ZNF160_uc002qaq.3_Missense_Mutation_p.T301A|ZNF160_uc002qar.3_Missense_Mutation_p.T301A	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	301	C2H2-type 2.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		TGATGAATAGTTAGATTTGAA	0.413													49	242					0	0	1	0	0		C	53572886	C	C	53572886	3	2	151	1	0	0	0	0	1	0	0	0	17764	1725	60	3	1559	3	ZNF160	19	53572886	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	364527	53572886	5556097	4199	81364											
ZNF415	55786	broad.mit.edu	37	chr19	53612426	53612426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagtgtgaactctcCgatgtagtgcaaggcatgag	9	11	11	10	1	2	2	0	2	2	0	5	3	3	2	2	1	2	3	2	1	3	1	rs138480197	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53612426C>T	uc002qax.2	-	7	1365	c.1016G>A	c.(1015-1017)CGG>CAG	p.R339Q	ZNF415_uc002qat.2_Missense_Mutation_p.R303Q|ZNF415_uc002qaw.2_Missense_Mutation_p.R291Q|ZNF415_uc010yds.1_Missense_Mutation_p.R291Q|ZNF415_uc010ydt.1_Missense_Mutation_p.R291Q|ZNF415_uc002qau.2_Missense_Mutation_p.R278Q|ZNF415_uc002qav.2_Missense_Mutation_p.R303Q|ZNF415_uc002qba.2_Missense_Mutation_p.R61Q|ZNF415_uc002qay.2_Missense_Mutation_p.R278Q|ZNF415_uc002qaz.2_Missense_Mutation_p.R339Q	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	339	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		GTGAACTCTCCGATGTAGTGC	0.418													37	125					0	0	1	0	0		T	53612426	T	T	53612426	3	4	151	1	0	0	0	0	1	0	0	0	17917	652	23	1	799	1	ZNF415	19	53612426	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	39540	53612426	5516557	4200	81365											
ZNF347	84671	broad.mit.edu	37	chr19	53643691	53643691	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaacagatactaaagggtTtcccacactcatatggtttc	12	13	7	9	0	1	2	1	1	0	1	3	2	2	2	1	2	2	2	1	2	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53643691T>C	uc002qbb.1	-	5	2459	c.2390A>G	c.(2389-2391)AAA>AGA	p.K797R	ZNF347_uc010eql.1_Missense_Mutation_p.K798R|ZNF347_uc002qbc.1_Missense_Mutation_p.K798R	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	797	C2H2-type 20; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		ACTAAAGGGTTTCCCACACTC	0.413													76	309					0	0	1	0	0		C	53643691	C	C	53643691	3	2	151	1	0	0	0	0	1	0	0	0	17886	1841	64	3	133	3	ZNF347	19	53643691	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	31265	53643691	5485292	4201	81366											
ZNF677	342926	broad.mit.edu	37	chr19	53741578	53741578	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgaggatttattatgttgTtgatcttttctgtgagtgag	8	20	11	2	0	2	4	0	4	2	0	2	5	2	5	0	1	0	2	0	1	2	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53741578T>C	uc002qbf.1	-	5	587	c.402A>G	c.(400-402)CAA>CAG	p.Q134Q	ZNF677_uc002qbg.1_Silent_p.Q134Q	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	134					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		TATTATGTTGTTGATCTTTTC	0.338													42	175					0	0	1	0	0		C	53741578	C	C	53741578	2	2	151	1	0	0	0	0	0	0	0	1	18109	1722	60	3		3	ZNF677	19	53741578	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	97887	53741578	5387405	4202	81367											
VN1R2	317701	broad.mit.edu	37	chr19	53762245	53762245	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgaaagtaaaagcccCgacatacattggtctctcca	15	8	8	10	1	1	2	0	1	1	1	3	4	2	2	3	1	2	1	3	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53762245C>A	uc002qbi.2	+	1	701	c.617C>A	c.(616-618)CCG>CAG	p.P206Q		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	206	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		GTAAAAGCCCCGACATACATT	0.483													18	77					1.56452e-12	1.6203e-12	1	1	0		A	53762245	A	A	53762245	3	1	151	1	0	0	0	0	1	0	0	0	17205	652	23	5	619	5	VN1R2	19	53762245	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	20667	53762245	5366738	4203	81368											
VN1R4	317703	broad.mit.edu	37	chr19	53770041	53770041	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaggcaaaacaaaacctgTatacactggggtcacagctc	14	7	8	12	0	1	0	1	0	0	0	3	0	2	0	2	3	4	3	2	3	6	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53770041T>C	uc010ydu.1	-	1	878	c.878A>G	c.(877-879)TAC>TGC	p.Y293C		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	293	Cytoplasmic (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		ACAAAACCTGTATACACTGGG	0.393										HNSCC(26;0.072)			29	104					0	0	1	0	0		C	53770041	C	C	53770041	3	2	151	1	0	0	0	0	1	0	0	0	17206	1638	57	3	30	3	VN1R4	19	53770041	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	7796	53770041	5358942	4204	81369											
ZNF761	388561	broad.mit.edu	37	chr19	53958506	53958506	+	Missense_Mutation	SNP	A	G	G	1	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	ataaatgtgatgtatgtggcAagctctttaatcagaagcga	14	12	10	5	1	2	2	1	1	1	1	2	3	2	2	0	1	2	3	0	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:53958506A>G	uc010eqp.2	+	7	1203	c.745A>G	c.(745-747)AAG>GAG	p.K249E	ZNF761_uc010ydy.1_Missense_Mutation_p.K195E|ZNF761_uc002qbt.1_Missense_Mutation_p.K195E	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	249	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		TGTATGTGGCAAGCTCTTTAA	0.403													60	223					0	0	1	0	0		G	53958506	G	G	53958506	3	3	151	1	0	0	0	0	1	0	0	0	18161	131	5	3	756	3	ZNF761	19	53958506	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	188465	53958506	5170477	4205	81370											
MYADM	91663	broad.mit.edu	37	chr19	54377168	54377168	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacctatgtccagttcctgTcccacggccgttcgcgggac	5	9	10	17	4	0	0	0	0	0	0	4	1	3	1	6	2	0	2	6	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:54377168T>C	uc002qcl.2	+	3	533	c.385T>C	c.(385-387)TCC>CCC	p.S129P	MYADM_uc002qcm.2_Missense_Mutation_p.S129P|MYADM_uc002qcn.2_Missense_Mutation_p.S129P|MYADM_uc002qco.2_Missense_Mutation_p.S129P|MYADM_uc002qcp.2_Missense_Mutation_p.S129P	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	129	MARVEL 1.					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		CCAGTTCCTGTCCCACGGCCG	0.657													12	73					0	0	1	0	0		C	54377168	C	C	54377168	3	2	151	1	0	0	0	0	1	0	0	0	10024	1667	58	3	387	3	MYADM	19	54377168	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	418662	54377168	4751815	4206	81371											
LILRB3	11025	broad.mit.edu	37	chr19	54722996	54722996	+	Splice_Site	SNP	A	G	G	1	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	ggtcccccgcttccctactcAccagatgtcctgtgtttgct	4	13	8	16	1	1	1	1	0	0	1	4	1	4	1	5	1	2	3	5	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:54722996A>G	uc002qef.1	-	8	1537	c.1426_splice	c.e8+1	p.D476_splice	LILRB3_uc002qee.1_Splice_Site_p.D476_splice|LILRB3_uc002qeh.1_Splice_Site_p.D476_splice|LILRB3_uc002qeg.1_Splice_Site|LILRB3_uc002qei.1_Splice_Site_p.D476_splice|LILRA6_uc002qek.1_Splice_Site_p.D476_splice|LILRB3_uc010erh.1_Splice_Site_p.D493_splice|LILRB3_uc002qej.1_Splice_Site|LILRA6_uc002qel.1_Splice_Site_p.D476_splice|LILRA6_uc002qem.1_Splice_Site|LILRB3_uc002qen.1_Splice_Site|LILRB3_uc002qeo.1_Splice_Site_p.D476_splice|LILRB3_uc002qep.1_Splice_Site_p.D476_splice|LILRB3_uc002qeq.1_Splice_Site_p.D476_splice|LILRB3_uc002qer.1_Splice_Site|LILRB3_uc002qes.1_Splice_Site_p.D476_splice	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,						cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	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)		TTCCCTACTCACCAGATGTCC	0.488													5	54					0	0	1	0	0		G	54722996	G	G	54722996	5	3	151	1	0	0	0	0	0	0	1	0	8808	173	6	3	494	3	LILRB3	19	54722996	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	345828	54722996	4405987	4207	81372											
LILRB5	10990	broad.mit.edu	37	chr19	54754762	54754762	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagctgtgtagctgggcgTaggtcacatcctggggggct	6	10	16	9	1	2	0	2	0	0	0	3	0	3	0	1	5	2	5	1	5	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:54754762T>C	uc002qex.2	-	13	1772	c.1661A>G	c.(1660-1662)TAC>TGC	p.Y554C	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_3'UTR|LILRB5_uc002qey.2_Missense_Mutation_p.Y555C|LILRB5_uc002qez.2_Missense_Mutation_p.Y455C|LILRB5_uc002qfa.1_3'UTR	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	554	ITIM motif 1.|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TAGCTGGGCGTAGGTCACATC	0.647													18	69					0	0	1	0	0		C	54754762	C	C	54754762	3	2	151	1	0	0	0	0	1	0	0	0	8810	1638	57	3	115	3	LILRB5	19	54754762	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	31766	54754762	4374221	4208	81373											
LENG8	114823	broad.mit.edu	37	chr19	54963842	54963842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttccacagtacgtgtcccagGcagaagcctcagctttgcag	9	9	10	13	1	1	1	1	0	0	1	3	1	3	1	3	1	4	4	3	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:54963842G>A	uc002qfv.1	+	4	370	c.226G>A	c.(226-228)GCA>ACA	p.A76T	LENG8_uc002qfw.2_Missense_Mutation_p.A76T			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	76							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CGTGTCCCAGGCAGAAGCCTC	0.572													22	83					0	0	1	0	0		A	54963842	A	A	54963842	3	1	151	1	0	0	0	0	1	0	0	0	8740	1203	42	2	236	2	LENG8	19	54963842	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	209080	54963842	4165141	4209	81374											
LENG8	114823	broad.mit.edu	37	chr19	54969703	54969703	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaggccatgatcaaaacgtAtgtggtgccaagctcccttc	11	9	9	12	1	1	1	1	1	0	0	3	1	2	1	3	2	3	2	3	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:54969703A>G	uc002qfv.1	+	14	2276	c.2132A>G	c.(2131-2133)TAT>TGT	p.Y711C	LENG8_uc002qfw.2_Intron			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	711							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		ATCAAAACGTATGTGGTGCCA	0.622													8	48					0	0	1	0	0		G	54969703	G	G	54969703	3	3	151	1	0	0	0	0	1	0	0	0	8740	464	16	3		3	LENG8	19	54969703	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	5861	54969703	4159280	4210	81375											
NLRP7	199713	broad.mit.edu	37	chr19	55451007	55451007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcagaggaaacgcaggaAcagccccgtgcgggtgaggc	10	3	17	11	3	0	2	0	1	0	1	0	4	0	4	2	4	5	3	2	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:55451007A>G	uc002qih.3	-	4	1256	c.1180T>C	c.(1180-1182)TTC>CTC	p.F394L	NLRP7_uc002qig.3_Missense_Mutation_p.F394L|NLRP7_uc002qii.3_Missense_Mutation_p.F394L|NLRP7_uc010esk.2_Missense_Mutation_p.F394L|NLRP7_uc010esl.2_Missense_Mutation_p.F422L	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	394	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		AAACGCAGGAACAGCCCCGTG	0.711													3	9					0	0	1	0	0		G	55451007	G	G	55451007	3	3	151	1	0	0	0	0	1	0	0	0	10501	43	2	3	1965	3	NLRP7	19	55451007	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	481304	55451007	3677976	4211	81376											
NLRP2	55655	broad.mit.edu	37	chr19	55489171	55489171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtggacgaaatgctggagcGcttcaaaacagaagcacaag	15	5	12	9	3	1	1	1	0	0	1	1	4	1	3	0	2	4	3	0	2	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:55489171G>A	uc002qij.2	+	4	463	c.377G>A	c.(376-378)CGC>CAC	p.R126H	NLRP2_uc010yfp.1_Missense_Mutation_p.R103H|NLRP2_uc010esn.2_Intron|NLRP2_uc010eso.2_Missense_Mutation_p.R126H|NLRP2_uc010esp.2_Missense_Mutation_p.R126H	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	126					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		ATGCTGGAGCGCTTCAAAACA	0.537													21	63					0	0	1	0	0		A	55489171	A	A	55489171	3	1	151	1	0	0	0	0	1	0	0	0	10496	1087	38	1	387	1	NLRP2	19	55489171	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	38164	55489171	3639812	4212	81377											
PTPRH	5794	broad.mit.edu	37	chr19	55697344	55697344	+	Silent	SNP	A	G	G	1	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	tccagaggccagtaatgctcAcacttcacctgggggaggag	10	7	13	11	0	2	1	2	0	0	1	3	3	3	3	3	4	1	2	3	4	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:55697344A>G	uc002qjq.2	-	17	2860	c.2787T>C	c.(2785-2787)TGT>TGC	p.C929C	PTPRH_uc010esv.2_Silent_p.C751C	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	929	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		AGTAATGCTCACACTTCACCT	0.597													24	116					0	0	1	0	0		G	55697344	G	G	55697344	2	3	151	1	0	0	0	0	0	0	0	1	12828	157	6	3		3	PTPRH	19	55697344	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	208173	55697344	3431639	4213	81378											
SAPS1	22870	broad.mit.edu	37	chr19	55753611	55753611	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactggctctgctccccctcGaacatgttgcttaagagctg	7	11	10	13	1	1	1	0	0	1	1	3	3	2	1	2	1	4	5	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:55753611G>A	uc002qjw.3	-	7	1010	c.768C>T	c.(766-768)TTC>TTT	p.F256F	SAPS1_uc002qjv.2_Silent_p.F318F	NM_014931	NP_055746	Q9UPN7	PP6R1_HUMAN	SAPS domain family, member 1	256	Interaction with PPP6C.				regulation of phosphoprotein phosphatase activity	cytoplasm	protein phosphatase binding				0		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		GCTCCCCCTCGAACATGTTGC	0.657													30	125					0	0	1	0	0		A	55753611	A	A	55753611	2	1	151	1	0	0	0	0	0	0	0	1	13861	1049	37	1		1	SAPS1	19	55753611	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	56267	55753611	3375372	4214	81379											
HSPBP1	23640	broad.mit.edu	37	chr19	55776758	55776758	+	Splice_Site	SNP	C	A	A	0	0	0	1	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	gcggaaagtctgtcaccaggCtgtgagggacatgacagcgg	10	6	16	9	2	2	2	1	2	1	0	2	4	2	4	1	4	1	1	1	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:55776758C>A	uc002qjx.2	-	6	1142	c.1032_splice	c.e6-1	p.S344_splice	HSPBP1_uc002qjy.2_Splice_Site_p.S298_splice|HSPBP1_uc002qkb.2_Intron|HSPBP1_uc002qka.2_Splice_Site_p.S298_splice|HSPBP1_uc002qkd.2_Splice_Site_p.S298_splice|HSPBP1_uc002qkc.2_Splice_Site_p.S298_splice|uc002qke.2_5'Flank	NM_012267	NP_036399	Q9NZL4	HPBP1_HUMAN	hsp70-interacting protein						positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding		enzyme inhibitor activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		TGTCACCAGGCTGTGAGGGAC	0.532													23	70					7.92952e-12	8.20129e-12	1	1	0		A	55776758	A	A	55776758	5	1	151	1	0	0	0	0	0	0	1	0	7442	811	28	5	194	5	HSPBP1	19	55776758	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	23147	55776758	3352225	4215	81380											
IL11	3589	broad.mit.edu	37	chr19	55877435	55877435	+	Frame_Shift_Del	DEL	C	-	-																															cagtcaagtgtcaggtgcagCccccccaggatggcgtgggc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:55877435delC	uc002qks.1	-	5	676	c.540delG	c.(538-540)GGGfs	p.G180fs	FAM71E2_uc002qkr.2_5'Flank|FAM71E2_uc002qkq.2_5'Flank|IL11_uc010yfx.1_Frame_Shift_Del_p.G101fs	NM_000641	NP_000632	P20809	IL11_HUMAN	interleukin 11 precursor	180					B cell differentiation|fat cell differentiation|megakaryocyte differentiation|negative regulation of hormone secretion|platelet activation|positive regulation of cell proliferation|positive regulation of MAPKKK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity|growth factor activity|interleukin-11 receptor binding				0	Breast(117;0.191)	Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)	Oprelvekin(DB00038)	TCAGGTGCAGCCCCCCCAGGA	0.562													3	3	---	---	---	---						.	-	55877435	-	-	55877435	7	5	151	1	0	1	0	1	0	0	0	0	7638	726	26	0	63	0	IL11	19	55877435	Frame_Shift_Del	DEL	C	TCGA-CG-5721-01A-11D-1600-08	100677	55877435	3251548	4216	81381											
UBE2S	27338	broad.mit.edu	37	chr19	55918226	55918226	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtcggtgaggtcctcctcGttgggaaagaccttgatgcc	7	10	14	10	2	0	3	0	2	0	1	4	4	2	4	4	4	1	1	4	4	1	2	rs139337996	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:55918226G>A	uc002qkx.1	-	2	476	c.108C>T	c.(106-108)AAC>AAT	p.N36N	uc002qky.2_5'Flank	NM_014501	NP_055316	Q16763	UBE2S_HUMAN	ubiquitin-conjugating enzyme E2S	36					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|exit from mitosis|free ubiquitin chain polymerization|protein K11-linked ubiquitination|protein K27-linked ubiquitination|protein K29-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination	anaphase-promoting complex	ATP binding|ubiquitin-protein ligase activity				0	Breast(117;0.155)		LUSC - Lung squamous cell carcinoma(43;0.13)|BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.11)		GGTCCTCCTCGTTGGGAAAGA	0.587													26	80					0	0	1	0	0		A	55918226	A	A	55918226	2	1	151	1	0	0	0	0	0	0	0	1	16898	1136	40	1		1	UBE2S	19	55918226	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	40791	55918226	3210757	4217	81382											
NLRP13	126204	broad.mit.edu	37	chr19	56413559	56413559	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caagcgggtgctgccagctgGcaaaaccagagcctgcaggg	10	4	15	12	1	0	1	0	0	0	1	0	1	0	1	3	3	7	4	3	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:56413559G>A	uc010ygg.1	-	9	2656	c.2631C>T	c.(2629-2631)TGC>TGT	p.C877C		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	877							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		CTGCCAGCTGGCAAAACCAGA	0.602													8	20					0	0	1	0	0		A	56413559	A	A	56413559	2	1	151	1	0	0	0	0	0	0	0	1	10494	1195	42	2		2	NLRP13	19	56413559	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	495333	56413559	2715424	4218	81383											
NLRP5	126206	broad.mit.edu	37	chr19	56544060	56544060	+	Missense_Mutation	SNP	A	G	G	1	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	cccacacctgcggcagctggAcctgggcagcagcatcctga	8	5	12	16	1	0	1	0	1	0	0	1	2	1	2	4	3	4	5	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:56544060A>G	uc002qmj.2	+	8	2360	c.2360A>G	c.(2359-2361)GAC>GGC	p.D787G	NLRP5_uc002qmi.2_Missense_Mutation_p.D768G	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	787	LRR 3.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		CGGCAGCTGGACCTGGGCAGC	0.592													8	54					0	0	1	0	0		G	56544060	G	G	56544060	3	3	151	1	0	0	0	0	1	0	0	0	10499	275	10	3	2390	3	NLRP5	19	56544060	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	130501	56544060	2584923	4219	81384											
ZNF582	147948	broad.mit.edu	37	chr19	56896263	56896263	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaagtcttttctacattTattatacccaaaaggttttt	12	17	4	8	0	2	1	0	0	2	1	2	1	2	1	2	1	2	1	2	1	7	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:56896263T>C	uc002qmz.1	-	5	682	c.523A>G	c.(523-525)AAA>GAA	p.K175E	ZNF582_uc002qmy.2_Missense_Mutation_p.K206E	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	175	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		TTTCTACATTTATTATACCCA	0.343													7	184					0	0	1	0	0		C	56896263	C	C	56896263	3	2	151	1	0	0	0	0	1	0	0	0	18039	1763	61	3	1034	3	ZNF582	19	56896263	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	352203	56896263	2232720	4220	81385											
ZNF471	57573	broad.mit.edu	37	chr19	57036268	57036268	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaacaaagtgaacaccttAttcagcatcaaagaattcat	18	10	4	9	0	4	2	4	1	0	1	4	2	4	2	1	0	3	1	1	0	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57036268A>T	uc002qnh.2	+	5	965	c.832A>T	c.(832-834)ATT>TTT	p.I278F		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	278	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		TGAACACCTTATTCAGCATCA	0.398													52	224					0	0	1	0	0		T	57036268	T	T	57036268	3	4	151	1	0	0	0	0	1	0	0	0	17955	449	16	5	846	5	ZNF471	19	57036268	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	140005	57036268	2092715	4221	81386											
ZFP28	140612	broad.mit.edu	37	chr19	57065823	57065823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatcaaaggattcataccGgagaaaaaccatatgaatgt	18	9	7	7	1	2	2	2	1	0	1	2	4	2	3	2	2	3	0	2	2	7	4	rs142195358		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57065823G>A	uc002qnj.2	+	8	1740	c.1669G>A	c.(1669-1671)GGA>AGA	p.G557R	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	557					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		GATTCATACCGGAGAAAAACC	0.393													25	103					0	0	1	0	0		A	57065823	A	A	57065823	3	1	151	1	0	0	0	0	1	0	0	0	17667	1117	39	1	1699	1	ZFP28	19	57065823	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	29555	57065823	2063160	4222	81387											
PEG3	5178	broad.mit.edu	37	chr19	57327050	57327050	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgggaacagagaattcGccatccttcttaaactcacc	12	9	8	12	1	2	1	1	0	1	1	4	4	3	2	3	1	3	1	3	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57327050G>A	uc002qnu.2	-	7	3111	c.2760C>T	c.(2758-2760)GGC>GGT	p.G920G	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.G891G|PEG3_uc002qnv.2_Silent_p.G920G|PEG3_uc002qnw.2_Silent_p.G796G|PEG3_uc002qnx.2_Silent_p.G794G|PEG3_uc010etr.2_Silent_p.G920G	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	920					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CAGAGAATTCGCCATCCTTCT	0.438													43	211					0	0	1	0	0		A	57327050	A	A	57327050	2	1	151	1	0	0	0	0	0	0	0	1	11739	1074	38	1		1	PEG3	19	57327050	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	261227	57327050	1801933	4223	81388											
PEG3	5178	broad.mit.edu	37	chr19	57330063	57330063	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaccacattttggtatgatTcagcatcctaaaacagcaaa	15	10	5	11	0	1	1	1	1	0	0	2	1	2	1	3	1	3	3	3	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57330063T>C	uc002qnu.2	-	5	1028	c.677A>G	c.(676-678)GAA>GGA	p.E226G	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_Missense_Mutation_p.E101G|ZIM2_uc002qnq.2_Missense_Mutation_p.E101G|ZIM2_uc010etp.2_Missense_Mutation_p.E101G|ZIM2_uc010ygs.1_Missense_Mutation_p.E101G|PEG3_uc002qnt.2_Missense_Mutation_p.E227G|PEG3_uc002qnv.2_Missense_Mutation_p.E226G|PEG3_uc002qnw.2_Missense_Mutation_p.E101G|PEG3_uc002qnx.2_Missense_Mutation_p.E100G|PEG3_uc010etr.2_Missense_Mutation_p.E226G	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	226					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTGGTATGATTCAGCATCCTA	0.458													7	155					0	0	1	0	0		C	57330063	C	C	57330063	3	2	151	1	0	0	0	0	1	0	0	0	11739	1783	62	3	4104	3	PEG3	19	57330063	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3013	57330063	1798920	4224	81389											
PEG3	5178	broad.mit.edu	37	chr19	57334145	57334145	+	Missense_Mutation	SNP	A	G	G	1	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	tcttgggttcctggtgtgggAccagcggtctcgtggctcca	3	12	15	11	2	2	0	0	0	2	0	5	1	4	1	3	5	1	2	3	5	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57334145A>G	uc002qnu.2	-	3	892	c.541T>C	c.(541-543)TCC>CCC	p.S181P	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_Missense_Mutation_p.S56P|ZIM2_uc002qnq.2_Missense_Mutation_p.S56P|ZIM2_uc010etp.2_Missense_Mutation_p.S56P|ZIM2_uc010ygs.1_Missense_Mutation_p.S56P|PEG3_uc002qnt.2_Missense_Mutation_p.S182P|PEG3_uc002qnv.2_Missense_Mutation_p.S181P|PEG3_uc002qnw.2_Missense_Mutation_p.S56P|PEG3_uc002qnx.2_Missense_Mutation_p.S55P|PEG3_uc010etr.2_Missense_Mutation_p.S181P	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	181					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CTGGTGTGGGACCAGCGGTCT	0.537													6	36					0	0	1	0	0		G	57334145	G	G	57334145	3	3	151	1	0	0	0	0	1	0	0	0	11739	275	10	3	4248	3	PEG3	19	57334145	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4082	57334145	1794838	4225	81390											
USP29	57663	broad.mit.edu	37	chr19	57641676	57641676	+	Missense_Mutation	SNP	A	G	G	1	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	cttcttattgcaatgaaagcAccaaaccacctcttcccttg	11	12	4	14	0	2	1	0	1	2	0	3	1	3	1	4	0	3	2	4	0	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57641676A>G	uc002qny.2	+	4	1989	c.1633A>G	c.(1633-1635)ACC>GCC	p.T545A		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	545					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CAATGAAAGCACCAAACCACC	0.418													63	328					0	0	1	0	0		G	57641676	G	G	57641676	3	3	151	1	0	0	0	0	1	0	0	0	17085	159	6	3	1635	3	USP29	19	57641676	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	307531	57641676	1487307	4226	81391											
ZNF264	9422	broad.mit.edu	37	chr19	57722986	57722986	+	Missense_Mutation	SNP	A	G	G	1	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	gtgttcaaggattggacaggAgcaagtctctccaggagata	12	9	13	7	0	2	1	1	0	1	1	4	5	3	4	1	4	1	2	1	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57722986A>G	uc002qob.2	+	4	934	c.521A>G	c.(520-522)GAG>GGG	p.E174G		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	174					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		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)		ATTGGACAGGAGCAAGTCTCT	0.463													14	49					0	0	1	0	0		G	57722986	G	G	57722986	3	3	151	1	0	0	0	0	1	0	0	0	17829	304	11	3	535	3	ZNF264	19	57722986	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	81310	57722986	1405997	4227	81392											
AURKC	6795	broad.mit.edu	37	chr19	57743127	57743127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtggctacagcaaaccaaAcagcccagcagcccagcagc	14	2	9	16	0	0	0	0	0	0	0	0	0	0	0	3	1	9	4	3	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57743127A>G	uc002qoe.2	+	2	265	c.76A>G	c.(76-78)ACA>GCA	p.T26A	AURKC_uc002qoc.2_Missense_Mutation_p.T7A|AURKC_uc002qod.2_5'UTR|AURKC_uc010etv.2_Missense_Mutation_p.T23A	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	26					cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		AGCAAACCAAAcagcccagca	0.259													8	43					0	0	1	0	0		G	57743127	G	G	57743127	3	3	151	1	0	0	0	0	1	0	0	0	1225	43	2	3	87	3	AURKC	19	57743127	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20141	57743127	1385856	4228	81393											
AURKC	6795	broad.mit.edu	37	chr19	57746724	57746724	+	Missense_Mutation	SNP	A	T	T	1	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	cctggcccagatcctgaagcAcccctgggttcaggcccact	7	7	10	17	0	1	2	1	1	0	1	2	2	2	2	6	3	1	2	6	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57746724A>T	uc002qoe.2	+	7	1058	c.869A>T	c.(868-870)CAC>CTC	p.H290L	AURKC_uc002qoc.2_Missense_Mutation_p.H271L|AURKC_uc002qod.2_Missense_Mutation_p.H256L|AURKC_uc010etv.2_Missense_Mutation_p.H287L	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	290	Protein kinase.				cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		ATCCTGAAGCACCCCTGGGTT	0.597													12	87					0	0	1	0	0		T	57746724	T	T	57746724	3	4	151	1	0	0	0	0	1	0	0	0	1225	159	6	5	900	5	AURKC	19	57746724	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3597	57746724	1382259	4229	81394											
ZNF543	125919	broad.mit.edu	37	chr19	57839139	57839139	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttgcctgaggaagtcttActccaggaacaactgacaca	12	8	9	12	0	1	2	0	2	1	0	2	4	2	4	3	2	4	0	3	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57839139A>G	uc002qoi.1	+	4	654	c.309A>G	c.(307-309)TTA>TTG	p.L103L		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AGGAAGTCTTACTCCAGGAAC	0.463													27	92					0	0	1	0	0		G	57839139	G	G	57839139	2	3	151	1	0	0	0	0	0	0	0	1	18001	388	14	3		3	ZNF543	19	57839139	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	92415	57839139	1289844	4230	81395											
ZNF543	125919	broad.mit.edu	37	chr19	57839764	57839764	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acactggagaaaaaccctttGtgtgcaaagagtgtggcaaa	15	8	11	7	0	0	2	0	0	0	2	0	3	0	2	1	2	2	2	1	2	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57839764G>A	uc002qoi.1	+	4	1279	c.934G>A	c.(934-936)GTG>ATG	p.V312M		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	312	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AAAACCCTTTGTGTGCAAAGA	0.498													23	65					0	0	1	0	0		A	57839764	A	A	57839764	3	1	151	1	0	0	0	0	1	0	0	0	18001	1377	48	4	948	4	ZNF543	19	57839764	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	625	57839764	1289219	4231	81396											
ZNF548	147694	broad.mit.edu	37	chr19	57910856	57910856	+	Missense_Mutation	SNP	T	A	A	0	1	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	aatgcagtgaatgtgggaaaTcatttaggtaccactgcagg	13	10	12	6	0	1	1	1	1	0	0	1	2	1	2	1	3	3	3	1	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57910856T>A	uc002qom.2	+	3	1451	c.1201T>A	c.(1201-1203)TCA>ACA	p.S401T	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Missense_Mutation_p.S404T	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	401	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			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)		ATGTGGGAAATCATTTAGGTA	0.448													7	101					0	0	1	0	0		A	57910856	A	A	57910856	3	1	151	1	0	0	0	0	1	0	0	0	18005	1435	50	5	1251	5	ZNF548	19	57910856	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	71092	57910856	1218127	4232	81397											
ZNF17	7565	broad.mit.edu	37	chr19	57931169	57931169	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctacacctggctgagcatgaCggaacacaccccaagcgtac	12	5	9	15	2	0	2	0	2	0	0	0	3	0	3	3	2	5	3	3	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57931169C>T	uc002qoo.1	+	3	540	c.309C>T	c.(307-309)GAC>GAT	p.D103D	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Silent_p.D105D	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		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)		CTGAGCATGACGGAACACACC	0.512													26	132					0	0	1	0	0		T	57931169	T	T	57931169	2	4	151	1	0	0	0	0	0	0	0	1	17768	535	19	1		1	ZNF17	19	57931169	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	20313	57931169	1197814	4233	81398											
ZNF749	388567	broad.mit.edu	37	chr19	57956392	57956392	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattctttagatatcgctgtAcactgagtagacatcagaaa	15	12	7	7	1	2	4	1	1	1	3	3	4	2	4	0	0	1	3	0	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:57956392A>G	uc002qoq.2	+	3	2130	c.1876A>G	c.(1876-1878)ACA>GCA	p.T626A	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	626	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		ATATCGCTGTACACTGAGTAG	0.358													19	98					0	0	1	0	0		G	57956392	G	G	57956392	3	3	151	1	0	0	0	0	1	0	0	0	18156	391	14	3	1886	3	ZNF749	19	57956392	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	25223	57956392	1172591	4234	81399											
ZNF416	55659	broad.mit.edu	37	chr19	58083888	58083888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatacataaggcctttctgCagtgtgaactttgtggtgtt	9	15	10	7	0	1	1	0	1	1	0	1	1	1	1	1	2	3	2	1	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58083888C>T	uc002qpf.2	-	4	1555	c.1384G>A	c.(1384-1386)GCA>ACA	p.A462T	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	462					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		GGCCTTTCTGCAGTGTGAACT	0.438													42	172					0	0	1	0	0		T	58083888	T	T	58083888	3	4	151	1	0	0	0	0	1	0	0	0	17918	710	25	2	404	2	ZNF416	19	58083888	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	127496	58083888	1045095	4235	81400											
ZNF211	10520	broad.mit.edu	37	chr19	58152513	58152513	+	Missense_Mutation	SNP	T	C	C	0	1	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	taacagtaacaagtgtgcggTggccttttacagtggaaaaa	14	10	11	6	1	0	0	0	0	0	0	0	1	0	1	1	3	4	1	1	3	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58152513T>C	uc002qpq.2	+	3	839	c.659T>C	c.(658-660)GTG>GCG	p.V220A	ZNF211_uc010yhb.1_Missense_Mutation_p.V224A|ZNF211_uc002qpp.2_Missense_Mutation_p.V233A|ZNF211_uc002qpr.2_Missense_Mutation_p.V284A|ZNF211_uc002qps.2_Missense_Mutation_p.V285A|ZNF211_uc002qpt.2_Missense_Mutation_p.V232A|ZNF211_uc010yhc.1_Missense_Mutation_p.V232A|ZNF211_uc010yhd.1_Missense_Mutation_p.V159A|ZNF211_uc010yhe.1_Missense_Mutation_p.V211A	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	220						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AAGTGTGCGGTGGCCTTTTAC	0.468													30	108					0	0	1	0	0		C	58152513	C	C	58152513	3	2	151	1	0	0	0	0	1	0	0	0	17792	1696	59	3	712	3	ZNF211	19	58152513	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	68625	58152513	976470	4236	81401											
ZNF671	79891	broad.mit.edu	37	chr19	58232449	58232449	+	Silent	SNP	G	A	A	0	0	1	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	tcgtatggcctttctccagtGtgaactgtctggtgtttaaa	7	16	10	8	1	2	1	0	1	2	0	4	1	2	1	2	2	1	2	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58232449G>A	uc002qpz.3	-	4	1104	c.1005C>T	c.(1003-1005)CAC>CAT	p.H335H	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Silent_p.H258H|ZNF671_uc010yhf.1_Silent_p.H237H	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	335	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TTTCTCCAGTGTGAACTGTCT	0.473													28	105					0	0	1	0	0		A	58232449	A	A	58232449	2	1	151	1	0	0	0	0	0	0	0	1	18103	1368	48	4		4	ZNF671	19	58232449	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	79936	58232449	896534	4237	81402											
ZNF587	84914	broad.mit.edu	37	chr19	58369951	58369951	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttgctttcaggttgttgGtgtggatcaaaagatgagga	9	15	13	4	0	3	2	2	1	1	1	3	4	3	4	0	4	1	3	0	4	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58369951G>A	uc002qql.2	+	3	309	c.171G>A	c.(169-171)TGG>TGA	p.W57*	ZNF587_uc002qqb.2_Nonsense_Mutation_p.W14*|ZNF587_uc010yhh.1_Nonsense_Mutation_p.W14*|ZNF587_uc002qqi.1_Nonsense_Mutation_p.W14*|ZNF587_uc002qqj.1_RNA|ZNF814_uc002qqk.2_Intron|ZNF587_uc010yhk.1_Nonsense_Mutation_p.W56*	NM_032828	NP_116217	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	57	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		CAGGTTGTTGGTGTGGATCAA	0.478													19	106					0	0	1	0	0		A	58369951	A	A	58369951	4	1	151	1	0	0	0	0	0	1	0	0	18045	1270	44	4	181	4	ZNF587	19	58369951	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	137502	58369951	759032	4238	81403											
ZNF418	147686	broad.mit.edu	37	chr19	58439288	58439288	+	Silent	SNP	A	G	G	1	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	atgtctcccaagatcgcgccAcacatttcacaagagtgggc	11	8	9	13	2	2	2	1	0	1	2	4	2	2	2	2	1	0	0	2	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58439288A>G	uc002qqs.1	-	4	553	c.261T>C	c.(259-261)TGT>TGC	p.C87C	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Silent_p.C2C	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	87	KRAB.|C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		AGATCGCGCCACACATTTCAC	0.498													31	102					0	0	1	0	0		G	58439288	G	G	58439288	2	3	151	1	0	0	0	0	0	0	0	1	17920	157	6	3		3	ZNF418	19	58439288	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	69337	58439288	689695	4239	81404											
ZNF256	10172	broad.mit.edu	37	chr19	58453789	58453789	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctgatgaaggtatgcagtAaattgtaattgtttcctaca	12	15	9	5	0	0	2	0	2	0	0	1	2	1	2	1	1	3	6	1	1	6	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58453789A>G	uc002qqu.2	-	3	622	c.387T>C	c.(385-387)TTT>TTC	p.F129F	ZNF256_uc010euj.2_5'UTR	NM_005773	NP_005764	Q9Y2P7	ZN256_HUMAN	zinc finger protein 256	129					multicellular organismal development|negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0155)		GGTATGCAGTAAATTGTAATT	0.453													48	204					0	0	1	0	0		G	58453789	G	G	58453789	2	3	151	1	0	0	0	0	0	0	0	1	17824	359	13	3		3	ZNF256	19	58453789	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14501	58453789	675194	4240	81405											
ZNF135	7694	broad.mit.edu	37	chr19	58579383	58579383	+	Missense_Mutation	SNP	A	G	G	1	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	gtcacagctcgtccctcaccAaacatcagcgaatccacact	12	7	5	17	2	3	0	3	0	0	0	6	1	5	0	3	0	3	1	3	0	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58579383A>G	uc010yhq.1	+	5	1663	c.1567A>G	c.(1567-1569)AAA>GAA	p.K523E	ZNF135_uc002qre.2_Missense_Mutation_p.K511E|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Missense_Mutation_p.K469E|ZNF135_uc002qrg.2_Missense_Mutation_p.K481E|ZNF135_uc010yhr.1_Missense_Mutation_p.K332E	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2	523					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		GTCCCTCACCAAACATCAGCG	0.557													15	53					0	0	1	0	0		G	58579383	G	G	58579383	3	3	151	1	0	0	0	0	1	0	0	0	17750	131	5	3	1734	3	ZNF135	19	58579383	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	125594	58579383	549600	4241	81406											
ZNF544	27300	broad.mit.edu	37	chr19	58773028	58773028	+	Silent	SNP	G	A	A	0	0	1	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	atcattcagactacagagaaGccatctgtgtgtaatcagtg	13	11	9	8	0	4	2	3	0	1	2	4	3	4	2	1	0	2	1	1	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58773028G>A	uc010euo.2	+	7	1530	c.1056G>A	c.(1054-1056)AAG>AAA	p.K352K	ZNF544_uc010yhw.1_RNA|ZNF544_uc010yhx.1_Silent_p.K324K|ZNF544_uc010yhy.1_Silent_p.K324K|ZNF544_uc002qrt.3_Silent_p.K210K|ZNF544_uc002qru.3_Silent_p.K210K|uc002qrx.1_Intron	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	352					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|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;0.17)|GBM - Glioblastoma multiforme(193;0.018)		CTACAGAGAAGCCATCTGTGT	0.483													21	85					0	0	1	0	0		A	58773028	A	A	58773028	2	1	151	1	0	0	0	0	0	0	0	1	18002	962	34	2		2	ZNF544	19	58773028	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	193645	58773028	355955	4242	81407											
A1BG	1	broad.mit.edu	37	chr19	58862876	58862876	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggccaccgcgttcaggtgaAagaagatgcgatctgggctg	9	7	16	9	3	2	3	1	1	1	2	2	4	2	3	2	3	1	2	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58862876A>G	uc002qsd.3	-	5	853	c.791T>C	c.(790-792)TTT>TCT	p.F264S	NCRNA00181_uc002qse.2_Intron|A1BG_uc002qsf.1_RNA|NCRNA00181_uc002qsg.2_5'Flank	NM_130786	NP_570602	P04217	A1BG_HUMAN	alpha 1B-glycoprotein precursor	264	Ig-like V-type 3.					extracellular region					0		all_cancers(17;3.04e-16)|all_epithelial(17;7.77e-12)|Lung NSC(17;3.25e-05)|Colorectal(82;5.46e-05)|all_lung(17;0.000129)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(17;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0269)		GTTCAGGTGAAAGAAGATGCG	0.647													17	62					0	0	1	0	0		G	58862876	G	G	58862876	3	3	151	1	0	0	0	0	1	0	0	0	1	14	1	3	712	3	A1BG	19	58862876	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	89848	58862876	266107	4243	81408											
A1BG	1	broad.mit.edu	37	chr19	58869006	58869006	+	RNA	SNP	C	T	T	0	0	0	1	1	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	ctcttggggactccatctcgCgcctgtgacctaaaacagga	9	9	10	13	2	2	1	0	1	2	0	4	3	3	3	3	3	1	0	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58869006C>T	uc002qsf.1	-	5		c.647G>A			ZNF497_uc002qsh.1_5'UTR|ZNF497_uc002qsi.1_5'UTR|uc002qsj.1_Missense_Mutation_p.A126V|uc002qsk.1_5'Flank			P04217	A1BG_HUMAN	Homo sapiens primary hepatoblastoma mRNA for alpha-1-B glycoprotein precursor, partial cds, clone:HYST2477.							extracellular region					0		all_cancers(17;3.04e-16)|all_epithelial(17;7.77e-12)|Lung NSC(17;3.25e-05)|Colorectal(82;5.46e-05)|all_lung(17;0.000129)|all_neural(62;0.0182)|Ovarian(87;0.0443)|Breast(46;0.0889)|Renal(17;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0269)		CTCCATCTCGCGCCTGTGACC	0.597													6	26					0	0	1	0	0		T	58869006	T	T	58869006	1	4	151	0	1	0	0	0	0	0	0	0	1	783	27	1		1	A1BG	19	58869006	RNA	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6130	58869006	259977	4244	81409											
ZNF324B	388569	broad.mit.edu	37	chr19	58966843	58966843	+	Missense_Mutation	SNP	A	G	G	1	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	gcagccggcccagggaaaagAccttcacagagtaccgggtg	11	4	14	12	2	1	2	1	0	0	2	1	3	1	3	4	3	2	2	4	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58966843A>G	uc002qsv.1	+	4	639	c.532A>G	c.(532-534)ACC>GCC	p.T178A	ZNF324B_uc002qsu.1_Missense_Mutation_p.T168A|ZNF324B_uc010euq.1_Missense_Mutation_p.T178A	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	178					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		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)		CAGGGAAAAGACCTTCACAGA	0.667													3	57					0	0	1	0	0		G	58966843	G	G	58966843	3	3	151	1	0	0	0	0	1	0	0	0	17870	275	10	3	542	3	ZNF324B	19	58966843	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	97837	58966843	162140	4245	81410											
ZNF324B	388569	broad.mit.edu	37	chr19	58967261	58967261	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacgccctacgcgtgccccgTgtgcggcaaggccttccggc	4	6	14	17	6	0	0	0	0	0	0	1	1	1	0	5	3	3	1	5	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58967261T>C	uc002qsv.1	+	4	1057	c.950T>C	c.(949-951)GTG>GCG	p.V317A	ZNF324B_uc002qsu.1_Missense_Mutation_p.V307A|ZNF324B_uc010euq.1_Missense_Mutation_p.V317A	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	317	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		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)		GCGTGCCCCGTGTGCGGCAAG	0.682													3	16					0	0	1	0	0		C	58967261	C	C	58967261	3	2	151	1	0	0	0	0	1	0	0	0	17870	1696	59	3	960	3	ZNF324B	19	58967261	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	418	58967261	161722	4246	81411											
ZNF446	55663	broad.mit.edu	37	chr19	58988663	58988663	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggagcctgagactgcccgCctccgcttccgagggttctg	5	8	14	14	3	1	1	0	1	1	1	3	5	3	2	5	2	2	2	5	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58988663C>A	uc002qsz.2	+	2	195	c.78C>A	c.(76-78)CGC>CGA	p.R26R	ZNF446_uc002qta.2_Silent_p.R26R|ZNF446_uc010eur.2_Silent_p.R26R	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	26	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		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)		AGACTGCCCGCCTCCGCTTCC	0.662													46	186					2.43139e-17	2.53208e-17	1	1	0		A	58988663	A	A	58988663	2	1	151	1	0	0	0	0	0	0	0	1	17944	726	26	5		5	ZNF446	19	58988663	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	21402	58988663	140320	4247	81412											
ZNF446	55663	broad.mit.edu	37	chr19	58989496	58989496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacagtcccctgaggggaAccatggacaccaagaaccag	14	3	11	13	0	0	2	0	1	0	1	1	4	1	4	5	3	3	1	5	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:58989496A>G	uc002qsz.2	+	4	692	c.575A>G	c.(574-576)AAC>AGC	p.N192S	ZNF446_uc002qta.2_Missense_Mutation_p.N192S|ZNF446_uc010eur.2_Missense_Mutation_p.N192S	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	192					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		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)		CCTGAGGGGAACCATGGACAC	0.607													16	49					0	0	1	0	0		G	58989496	G	G	58989496	3	3	151	1	0	0	0	0	1	0	0	0	17944	43	2	3	585	3	ZNF446	19	58989496	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	833	58989496	139487	4248	81413											
SLC27A5	10998	broad.mit.edu	37	chr19	59012015	59012015	+	Missense_Mutation	SNP	T	A	A	0	1	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	gctggaaggtctcccacacaTcagcccgtagtccattgccc	8	8	9	16	1	2	0	1	0	1	0	4	1	3	1	4	2	2	2	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:59012015T>A	uc002qtc.2	-	5	1351	c.1241A>T	c.(1240-1242)GAT>GTT	p.D414V	SLC27A5_uc002qtb.2_5'Flank	NM_012254	NP_036386	Q9Y2P5	S27A5_HUMAN	solute carrier family 27 (fatty acid	414	Cytoplasmic (Probable).				bile acid and bile salt transport|bile acid biosynthetic process|very long-chain fatty acid metabolic process	endoplasmic reticulum membrane|integral to membrane	ATP binding|cholate-CoA ligase activity|long-chain fatty acid-CoA ligase activity				0		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)		CTCCCACACATCAGCCCGTAG	0.577													12	95					0	0	1	0	0		A	59012015	A	A	59012015	3	1	151	1	0	0	0	0	1	0	0	0	14554	1435	50	5	855	5	SLC27A5	19	59012015	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	22519	59012015	116968	4249	81414											
TRIM28	10155	broad.mit.edu	37	chr19	59059476	59059476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatccagaagcaccaggagCacattctgcgctttgcctct	10	9	9	13	1	2	2	0	0	2	2	3	3	3	3	3	1	4	3	3	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:59059476C>T	uc002qtg.1	+	7	1319	c.1030C>T	c.(1030-1032)CAC>TAC	p.H344Y	TRIM28_uc010eut.1_Missense_Mutation_p.H262Y|TRIM28_uc002qth.1_5'Flank	NM_005762	NP_005753	Q13263	TIF1B_HUMAN	tripartite motif-containing 28 protein	344	RBCC domain.|Leucine zipper alpha helical coiled-coil region.				epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	nucleoplasm	chromo shadow domain binding|ligase activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		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)		GCACCAGGAGCACATTCTGCG	0.557													28	218					0	0	1	0	0		T	59059476	T	T	59059476	3	4	151	1	0	0	0	0	1	0	0	0	16528	710	25	2	1056	2	TRIM28	19	59059476	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	47461	59059476	69507	4250	81415											
MZF1	7593	broad.mit.edu	37	chr19	59073626	59073626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgttcacccgtgtggatgCgccggtgctgggtgaggttg	3	10	18	10	4	1	1	1	1	0	0	1	2	1	2	3	4	2	3	3	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr19:59073626C>T	uc002qto.2	-	6	2579	c.2018G>A	c.(2017-2019)CGC>CAC	p.R673H	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_Missense_Mutation_p.R673H	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	673	C2H2-type 11.				viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		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)		CGTGTGGATGCGCCGGTGCTG	0.697													3	8					0	0	1	0	0		T	59073626	T	T	59073626	3	4	151	1	0	0	0	0	1	0	0	0	10126	768	27	1	190	1	MZF1	19	59073626	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	14150	59073626	55357	4251	81416											
RBCK1	10616	broad.mit.edu	37	chr20	409723	409723	+	Silent	SNP	A	G	G	1	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	tgctgggtcaccaagggcccAcgctggggccctggggtgag	5	6	18	12	1	1	1	1	1	0	0	1	1	1	1	3	6	1	2	3	6	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:409723A>G	uc002wdp.3	+	11	2130	c.1437A>G	c.(1435-1437)CCA>CCG	p.P479P	RBCK1_uc002wdq.3_Silent_p.P437P|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_Silent_p.P309P	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	479					interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				CCAAGGGCCCACGCTGGGGCC	0.557													6	59					0	0	1	0	0		G	409723	G	G	409723	2	3	151	1	0	0	0	0	0	0	0	1	13132	146	6	3		3	RBCK1	20	409723	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08		409723	62615797	4252	81417											
CSNK2A1	1457	broad.mit.edu	37	chr20	472935	472935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcaggacctttgaagtatCgggaagcaactcggacatta	12	9	11	9	2	1	1	1	1	0	0	3	4	1	4	1	3	2	3	1	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:472935C>T	uc002wdw.1	-	9	977	c.584G>A	c.(583-585)CGA>CAA	p.R195Q	CSNK2A1_uc002wdx.1_Missense_Mutation_p.R195Q|CSNK2A1_uc002wdy.1_Missense_Mutation_p.R59Q	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	195	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			TTTGAAGTATCGGGAAGCAAC	0.408													12	69					0	0	1	0	0		T	472935	T	T	472935	3	4	151	1	0	0	0	0	1	0	0	0	3960	884	31	1	615	1	CSNK2A1	20	472935	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	63212	472935	62552585	4253	81418											
RSPO4	343637	broad.mit.edu	37	chr20	948715	948715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaagagcctctgctggcagGtggaacagccgttctcctct	7	9	13	12	1	3	1	0	0	3	1	4	3	3	3	3	4	4	3	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:948715G>A	uc002wej.2	-	2	243	c.146C>T	c.(145-147)ACC>ATC	p.T49I	RSPO4_uc002wek.2_Missense_Mutation_p.T49I	NM_001029871	NP_001025042	Q2I0M5	RSPO4_HUMAN	R-spondin family, member 4 isoform 1 precursor	49					Wnt receptor signaling pathway	extracellular region	heparin binding				0						CTGCTGGCAGGTGGAACAGCC	0.637													4	31					0	0	1	0	0		A	948715	A	A	948715	3	1	151	1	0	0	0	0	1	0	0	0	13737	1261	44	4	574	4	RSPO4	20	948715	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	475780	948715	62076805	4254	81419											
C20orf46	55321	broad.mit.edu	37	chr20	1161734	1161734	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagcccgaggcctgcgatgaTgcacctgtccaggtgggagc	7	6	15	13	2	0	1	0	1	0	0	1	4	1	2	4	3	4	1	4	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:1161734T>C	uc010gaa.1	-	3	748	c.529A>G	c.(529-531)ATC>GTC	p.I177V	C20orf46_uc002weq.1_Missense_Mutation_p.I177V	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	177	Helical; (Potential).					integral to membrane	protein binding			ovary(1)	1						CCTGCGATGATGCACCTGTCC	0.647													4	36					0	0	1	0	0		C	1161734	C	C	1161734	3	2	151	1	0	0	0	0	1	0	0	0	2116	1464	51	3	245	3	C20orf46	20	1161734	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	213019	1161734	61863786	4255	81420											
TMC2	117532	broad.mit.edu	37	chr20	2593880	2593880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgacatgctggtaacgtAcatcaccatcctgctggggg	8	10	12	11	1	2	1	1	1	1	0	3	1	3	1	2	3	4	4	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:2593880A>G	uc002wgf.1	+	14	1799	c.1784A>G	c.(1783-1785)TAC>TGC	p.Y595C	TMC2_uc002wgg.1_Missense_Mutation_p.Y579C|TMC2_uc010zpw.1_Missense_Mutation_p.Y427C|TMC2_uc010zpx.1_Missense_Mutation_p.Y426C	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	595	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						CTGGTAACGTACATCACCATC	0.557													12	69					0	0	1	0	0		G	2593880	G	G	2593880	3	3	151	1	0	0	0	0	1	0	0	0	16010	391	14	3	1838	3	TMC2	20	2593880	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1432146	2593880	60431640	4256	81421											
TMC2	117532	broad.mit.edu	37	chr20	2597830	2597830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacgtaccccatgaacgcGtgttcaaagcctcccgatcc	10	7	8	16	4	1	1	1	1	0	0	3	2	3	1	5	0	4	3	5	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:2597830G>A	uc002wgf.1	+	16	2068	c.2053G>A	c.(2053-2055)GTG>ATG	p.V685M	TMC2_uc002wgg.1_Missense_Mutation_p.V669M	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	685	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						CCATGAACGCGTGTTCAAAGC	0.592													21	86					0	0	1	0	0		A	2597830	A	A	2597830	3	1	151	1	0	0	0	0	1	0	0	0	16010	1145	40	1	2115	1	TMC2	20	2597830	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3950	2597830	60427690	4257	81422											
CPXM1	56265	broad.mit.edu	37	chr20	2776643	2776643	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcacggtggcattgggcagGgtgtagtaagtgggcaatgg	8	9	18	6	1	1	0	1	0	0	0	1	0	1	0	0	6	0	5	0	6	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:2776643G>A	uc002wgu.2	-	10	1471	c.1407C>T	c.(1405-1407)ACC>ACT	p.T469T	CPXM1_uc010gas.2_Silent_p.T469T	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	469					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						CATTGGGCAGGGTGTAGTAAG	0.597													5	89					0	0	1	0	0		A	2776643	A	A	2776643	2	1	151	1	0	0	0	0	0	0	0	1	3840	1219	43	4		4	CPXM1	20	2776643	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	178813	2776643	60248877	4258	81423											
VPS16	64601	broad.mit.edu	37	chr20	2841438	2841438	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgtgctgtgccaggacCgagtggcacacattcttctg	7	10	13	11	1	2	0	0	0	2	0	2	3	2	2	2	3	2	2	2	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:2841438C>T	uc002whe.2	+	6	607	c.559C>T	c.(559-561)CGA>TGA	p.R187*	VPS16_uc002whh.2_5'Flank|VPS16_uc002whf.2_Nonsense_Mutation_p.R187*|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	187					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						GTGCCAGGACCGAGTGGCACA	0.572													15	64					0	0	1	0	0		T	2841438	T	T	2841438	4	4	151	1	0	0	0	0	0	1	0	0	17219	644	23	1	581	1	VPS16	20	2841438	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	64795	2841438	60184082	4259	81424											
VPS16	64601	broad.mit.edu	37	chr20	2845650	2845650	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggggcgagtagcagctctGcagacagccgccgatgcctt	8	6	15	12	3	1	1	0	0	1	1	1	4	1	1	3	2	5	4	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:2845650G>A	uc002whe.2	+	20	2001	c.1953G>A	c.(1951-1953)CTG>CTA	p.L651L	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'UTR|VPS16_uc002whf.2_Silent_p.L507L|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Silent_p.L337L|VPS16_uc002whi.2_Silent_p.L135L	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	651					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						TAGCAGCTCTGCAGACAGCCG	0.557													6	43					0	0	1	0	0		A	2845650	A	A	2845650	2	1	151	1	0	0	0	0	0	0	0	1	17219	1306	46	2		2	VPS16	20	2845650	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	4212	2845650	60179870	4260	81425											
PTPRA	5786	broad.mit.edu	37	chr20	2998463	2998463	+	Silent	SNP	A	G	G	1	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	ttgctgttggctactttaggAccaaaagaagaaacggtgaa	14	10	11	6	1	0	3	0	1	0	2	0	4	0	4	1	3	3	3	1	3	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:2998463A>G	uc010zqd.1	+	12	1295	c.978A>G	c.(976-978)GGA>GGG	p.G326G	PTPRA_uc002whj.2_Silent_p.G315G|PTPRA_uc002whk.2_Silent_p.G306G|PTPRA_uc002whl.2_Silent_p.G306G|PTPRA_uc002whm.2_Silent_p.G82G|PTPRA_uc002whn.2_Silent_p.G306G|PTPRA_uc002who.2_5'UTR	NM_002836	NP_002827	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	315	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						CTACTTTAGGACCAAAAGAAG	0.453													12	77					0	0	1	0	0		G	2998463	G	G	2998463	2	3	151	1	0	0	0	0	0	0	0	1	12820	289	10	3		3	PTPRA	20	2998463	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	152813	2998463	60027057	4261	81426											
FASTKD5	60493	broad.mit.edu	37	chr20	3127441	3127441	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagagagcagaggtgaatActttctcatgaagaaacgcc	14	9	10	8	1	2	5	2	2	1	3	3	6	2	5	1	1	3	1	1	1	4	3	rs147125058	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:3127441A>G	uc002whz.2	-	2	2587	c.2276T>C	c.(2275-2277)GTA>GCA	p.V759A	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	759					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						AGAGGTGAATACTTTCTCATG	0.448													42	199					0	0	1	0	0		G	3127441	G	G	3127441	3	3	151	1	0	0	0	0	1	0	0	0	5702	391	14	3	22	3	FASTKD5	20	3127441	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	128978	3127441	59898079	4262	81427											
FASTKD5	60493	broad.mit.edu	37	chr20	3127511	3127511	+	Missense_Mutation	SNP	A	G	G	1	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	tgggagccattcccagtaggAtaactctaccacacggtagc	11	8	10	12	1	1	0	0	0	1	0	2	2	2	2	3	3	4	2	3	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:3127511A>G	uc002whz.2	-	2	2517	c.2206T>C	c.(2206-2208)TCC>CCC	p.S736P	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	736	RAP.				apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						TCCCAGTAGGATAACTCTACC	0.493													20	113					0	0	1	0	0		G	3127511	G	G	3127511	3	3	151	1	0	0	0	0	1	0	0	0	5702	333	12	3	92	3	FASTKD5	20	3127511	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	70	3127511	59898009	4263	81428											
C20orf194	25943	broad.mit.edu	37	chr20	3233240	3233240	+	Missense_Mutation	SNP	T	C	C	0	1	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	agggcttcagctcaaagaggTcatgatactcctgctgttcc	9	11	10	11	0	3	2	3	1	0	1	5	2	5	2	2	2	3	4	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:3233240T>C	uc002wii.2	-	37	3563	c.3512A>G	c.(3511-3513)GAC>GGC	p.D1171G	C20orf194_uc002wij.3_Missense_Mutation_p.D910G|C20orf194_uc002wik.2_Missense_Mutation_p.D845G	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	1171											0						CTCAAAGAGGTCATGATACTC	0.517													38	185					0	0	1	0	0		C	3233240	C	C	3233240	3	2	151	1	0	0	0	0	1	0	0	0	2102	1667	58	3	25	3	C20orf194	20	3233240	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	105729	3233240	59792280	4264	81429											
SLC23A2	9962	broad.mit.edu	37	chr20	4855324	4855324	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcgtattgagaaaacagTaatactaggaatattgtcct	14	12	9	6	1	0	1	0	1	0	1	1	3	1	2	1	2	2	2	1	2	8	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:4855324T>C	uc002wlg.1	-	10	1218	c.843A>G	c.(841-843)TTA>TTG	p.L281L	SLC23A2_uc010zqr.1_Silent_p.L166L|SLC23A2_uc002wlh.1_Silent_p.L281L|SLC23A2_uc002wli.2_Silent_p.L280L	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	281	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						GAGAAAACAGTAATACTAGGA	0.358													7	195					0	0	1	0	0		C	4855324	C	C	4855324	2	2	151	1	0	0	0	0	0	0	0	1	14488	1635	57	3		3	SLC23A2	20	4855324	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1622084	4855324	58170196	4265	81430											
SLC23A2	9962	broad.mit.edu	37	chr20	4880213	4880213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatctcacctgcatccaaacGttgtctgtagcaaagtagtg	12	11	8	10	1	2	0	1	0	2	0	4	0	3	0	2	0	3	5	2	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:4880213G>A	uc002wlg.1	-	6	845	c.470C>T	c.(469-471)ACG>ATG	p.T157M	SLC23A2_uc010zqr.1_Missense_Mutation_p.T156M|SLC23A2_uc002wlh.1_Missense_Mutation_p.T157M|SLC23A2_uc002wli.2_Missense_Mutation_p.T156M	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	157	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						GCATCCAAACGTTGTCTGTAG	0.552													83	261					0	0	1	0	0		A	4880213	A	A	4880213	3	1	151	1	0	0	0	0	1	0	0	0	14488	1145	40	1	1530	1	SLC23A2	20	4880213	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24889	4880213	58145307	4266	81431											
PCNA	5111	broad.mit.edu	37	chr20	5096170	5096170	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtaaagaagttcaggtAcctcagtgcaaaagttagtt	13	14	9	5	0	2	1	2	0	0	1	2	1	2	1	1	1	2	6	1	1	7	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:5096170A>G	uc002wlp.2	-	5	834	c.631T>C	c.(631-633)TAC>CAC	p.Y211H	C20orf30_uc010gbi.2_5'Flank|C20orf30_uc002wlk.2_5'Flank|C20orf30_uc002wll.2_5'Flank|C20orf30_uc002wlm.2_5'Flank|C20orf30_uc002wln.2_5'Flank|C20orf30_uc002wlo.2_5'Flank|PCNA_uc002wlq.2_Missense_Mutation_p.Y211H	NM_182649	NP_872590	P12004	PCNA_HUMAN	proliferating cell nuclear antigen	211					cell proliferation|DNA strand elongation involved in DNA replication|mismatch repair|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|positive regulation of deoxyribonuclease activity|regulation of DNA replication|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair|translesion synthesis	cytoplasm|DNA replication factor C complex|microtubule cytoskeleton|nuclear replication fork|nucleoplasm|PCNA complex|PCNA-p21 complex	dinucleotide insertion or deletion binding|DNA polymerase processivity factor activity|MutLalpha complex binding|purine-specific mismatch base pair DNA N-glycosylase activity			lung(1)	1						AAGTTCAGGTACCTCAGTGCA	0.333								DNA_polymerases_(catalytic_subunits)					31	192					0	0	1	0	0		G	5096170	G	G	5096170	3	3	151	1	0	0	0	0	1	0	0	0	11607	391	14	3	162	3	PCNA	20	5096170	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	215957	5096170	57929350	4267	81432											
TRMT6	51605	broad.mit.edu	37	chr20	5924808	5924808	+	Frame_Shift_Del	DEL	T	-	-																															ttaaaataaaaactacttacTtttttttcttctttttaata																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:5924808delT	uc002wmh.1	-	4	580	c.458delA	c.(457-459)AAAfs	p.K153fs	TRMT6_uc010zra.1_5'UTR|TRMT6_uc010gbn.1_5'UTR|TRMT6_uc010gbo.1_RNA	NM_015939	NP_057023	Q9UJA5	TRM6_HUMAN	tRNA methyltransferase 6	153					regulation of translational initiation|tRNA processing	nucleus	protein binding|translation initiation factor activity			pancreas(1)	1						AACTACTTACTTTTTTTTCTT	0.194													7	16	---	---	---	---						.	-	5924808	-	-	5924808	7	5	151	1	0	1	0	1	0	0	0	0	16594	1623	56	0	1067	0	TRMT6	20	5924808	Frame_Shift_Del	DEL	T	TCGA-CG-5721-01A-11D-1600-08	828638	5924808	57100712	4268	81433											
FERMT1	55612	broad.mit.edu	37	chr20	6057833	6057833	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttgtttcaatcctgaccgCcggtcaatttgtggaacaag	9	12	10	10	2	2	1	2	1	0	0	3	2	3	2	3	2	1	2	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:6057833C>A	uc002wmr.2	-	15	2810	c.2021G>T	c.(2020-2022)GGC>GTC	p.G674V	FERMT1_uc002wmq.2_Missense_Mutation_p.G227V|FERMT1_uc010gbt.2_Missense_Mutation_p.G417V	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1	674					cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						ATCCTGACCGCCGGTCAATTT	0.542											OREG0025763	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	108					1.2644e-06	1.28763e-06	1	1	0		A	6057833	A	A	6057833	3	1	151	1	0	0	0	0	1	0	0	0	5831	739	26	5	16	5	FERMT1	20	6057833	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	133025	6057833	56967687	4269	81434											
FERMT1	55612	broad.mit.edu	37	chr20	6057917	6057917	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaatgtagccgccaatgTactcgtgcacaatcttgcaa	14	9	8	10	2	1	1	0	0	1	1	2	1	1	1	2	0	4	4	2	0	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:6057917T>C	uc002wmr.2	-	15	2726	c.1937A>G	c.(1936-1938)TAC>TGC	p.Y646C	FERMT1_uc002wmq.2_Missense_Mutation_p.Y199C|FERMT1_uc010gbt.2_Missense_Mutation_p.Y389C	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1	646	FERM.				cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						GCCGCCAATGTACTCGTGCAC	0.493											OREG0025763	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	48					0	0	1	0	0		C	6057917	C	C	6057917	3	2	151	1	0	0	0	0	1	0	0	0	5831	1638	57	3	100	3	FERMT1	20	6057917	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	84	6057917	56967603	4270	81435											
BMP2	650	broad.mit.edu	37	chr20	6759620	6759620	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttaactctaagattcctaagGcatgctgtgtcccgacagaa	12	11	8	10	1	1	2	0	0	1	2	3	3	3	2	2	1	2	2	2	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:6759620G>C	uc002wmu.1	+	3	1860	c.1075G>C	c.(1075-1077)GCA>CCA	p.A359P		NM_001200	NP_001191	P12643	BMP2_HUMAN	bone morphogenetic protein 2 preproprotein	359					BMP signaling pathway involved in heart induction|bone mineralization involved in bone maturation|cardiac cell differentiation|cardiac epithelial to mesenchymal transition|cartilage development|growth|negative regulation of cell cycle|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|pathway-restricted SMAD protein phosphorylation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cartilage development|positive regulation of endothelial cell proliferation|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of phosphatase activity|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	activin receptor activity, type II|BMP receptor binding|cytokine activity|growth factor activity|phosphatase activator activity|protein heterodimerization activity|SMAD binding|transforming growth factor beta receptor binding			ovary(1)|breast(1)	2					Simvastatin(DB00641)	GATTCCTAAGGCATGCTGTGT	0.458													13	84					0	0	1	0	0		C	6759620	C	C	6759620	3	2	151	1	0	0	0	0	1	0	0	0	1460	1203	42	5	1081	5	BMP2	20	6759620	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	701703	6759620	56265900	4271	81436											
HAO1	54363	broad.mit.edu	37	chr20	7894828	7894828	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctgagttgtggcggcagTttgaatctgttacgcacatc	8	13	11	9	2	1	2	0	2	1	0	2	2	1	2	1	2	2	5	1	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:7894828T>C	uc002wmw.1	-	3	552	c.528A>G	c.(526-528)AAA>AAG	p.K176K	HAO1_uc010gbu.2_Silent_p.K176K	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	176	FMN hydroxy acid dehydrogenase.				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						GTGGCGGCAGTTTGAATCTGT	0.378													19	50					0	0	1	0	0		C	7894828	C	C	7894828	2	2	151	1	0	0	0	0	0	0	0	1	6967	1722	60	3		3	HAO1	20	7894828	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1135208	7894828	55130692	4272	81437											
SNAP25	6616	broad.mit.edu	37	chr20	10277662	10277662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcgtgtagtggacgaacGggagcagatggccatcagtg	9	8	16	8	3	1	1	1	0	0	1	2	4	1	3	1	3	3	3	1	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:10277662G>A	uc002wnq.1	+	6	583	c.371G>A	c.(370-372)CGG>CAG	p.R124Q	SNAP25_uc002wnr.1_Missense_Mutation_p.R124Q|SNAP25_uc002wns.1_Missense_Mutation_p.R61Q|SNAP25_uc010gca.1_Missense_Mutation_p.R124Q|SNAP25_uc010gcb.1_Missense_Mutation_p.R61Q|SNAP25_uc010gcc.1_Intron	NM_130811	NP_570824	P60880	SNP25_HUMAN	synaptosomal-associated protein 25 isoform	124					energy reserve metabolic process|glutamate secretion|neurotransmitter uptake|synaptic vesicle docking involved in exocytosis	cell junction|growth cone|perinuclear region of cytoplasm|synapse|synaptosome				skin(2)	2					Botulinum Toxin Type A(DB00083)	GTGGACGAACGGGAGCAGATG	0.438													6	31					0	0	1	0	0		A	10277662	A	A	10277662	3	1	151	1	0	0	0	0	1	0	0	0	14855	1116	39	1	511	1	SNAP25	20	10277662	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2382834	10277662	52747858	4273	81438											
JAG1	182	broad.mit.edu	37	chr20	10624479	10624479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacattcgcaccggtaccagTtgtctccatccacacaggtg	9	9	8	15	2	1	0	0	0	1	0	4	0	2	0	4	2	1	3	4	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:10624479T>C	uc002wnw.2	-	20	2921	c.2405A>G	c.(2404-2406)AAC>AGC	p.N802S	JAG1_uc010gcd.1_Missense_Mutation_p.N360S	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	802	EGF-like 15; calcium-binding (Potential).|Extracellular (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						CCGGTACCAGTTGTCTCCATC	0.522									Alagille_Syndrome				10	39					0	0	1	0	0		C	10624479	C	C	10624479	3	2	151	1	0	0	0	0	1	0	0	0	7950	1725	60	3	1279	3	JAG1	20	10624479	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	346817	10624479	52401041	4274	81439											
KIF16B	55614	broad.mit.edu	37	chr20	16359926	16359926	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcaggaggtactgtagctgGcgttctttatattgcagcct	7	14	12	8	1	1	0	0	0	1	0	1	1	1	1	1	3	5	6	1	3	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:16359926G>A	uc002wpg.1	-	19	2879	c.2721C>T	c.(2719-2721)CGC>CGT	p.R907R	KIF16B_uc002wpe.1_Silent_p.R289R|KIF16B_uc002wpf.1_Silent_p.R289R|KIF16B_uc010gch.1_Silent_p.R907R|KIF16B_uc010gci.1_Silent_p.R907R|KIF16B_uc010gcj.1_Silent_p.R918R	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	907	Glu-rich.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						ACTGTAGCTGGCGTTCTTTAT	0.443													30	146					0	0	1	0	0		A	16359926	A	A	16359926	2	1	151	1	0	0	0	0	0	0	0	1	8294	1190	42	2		2	KIF16B	20	16359926	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	5735447	16359926	46665594	4275	81440											
CSRP2BP	57325	broad.mit.edu	37	chr20	18167991	18167991	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaccctgctatgctactgtAccagaagtttggattcaaga	12	11	8	10	0	1	2	1	0	0	2	1	3	1	3	2	1	5	4	2	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:18167991A>G	uc002wqj.2	+	11	2859	c.2237A>G	c.(2236-2238)TAC>TGC	p.Y746C	CSRP2BP_uc002wqk.2_Missense_Mutation_p.Y618C|CSRP2BP_uc010zru.1_Missense_Mutation_p.Y617C	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	746	N-acetyltransferase.				histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						ATGCTACTGTACCAGAAGTTT	0.398													48	211					0	0	1	0	0		G	18167991	G	G	18167991	3	3	151	1	0	0	0	0	1	0	0	0	3971	391	14	3	2275	3	CSRP2BP	20	18167991	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1808065	18167991	44857529	4276	81441											
ZNF133	7692	broad.mit.edu	37	chr20	18296188	18296188	+	Silent	SNP	T	C	C	0	1	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	aagatgacaaacctgctcagTcaccagcggatacactcagg	14	6	9	12	1	3	2	3	1	0	1	3	3	3	3	2	2	4	1	2	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:18296188T>C	uc010gcq.2	+	5	998	c.693T>C	c.(691-693)AGT>AGC	p.S231S	ZNF133_uc010zrv.1_Silent_p.S234S|ZNF133_uc010zrw.1_Silent_p.S168S|ZNF133_uc010gcr.2_Silent_p.S231S|ZNF133_uc010zrx.1_Silent_p.S136S|ZNF133_uc002wql.3_Silent_p.S230S|ZNF133_uc010gcs.2_Silent_p.S230S|ZNF133_uc010zry.1_Silent_p.S136S|ZNF133_uc002wqm.2_Silent_p.S231S	NM_003434	NP_003425	P52736	ZN133_HUMAN	zinc finger protein 133	231	C2H2-type 1.					nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)	2						ACCTGCTCAGTCACCAGCGGA	0.498													12	69					0	0	1	0	0		C	18296188	C	C	18296188	2	2	151	1	0	0	0	0	0	0	0	1	17748	1664	58	3		3	ZNF133	20	18296188	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	128197	18296188	44729332	4277	81442											
SEC23B	10483	broad.mit.edu	37	chr20	18513351	18513351	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagccattggtccatgcgTatctctgaatgtgaaaggac	11	10	12	8	1	1	2	0	2	1	0	3	4	2	4	2	3	2	1	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:18513351T>C	uc002wqz.1	+	11	1720	c.1277T>C	c.(1276-1278)GTA>GCA	p.V426A	SEC23B_uc002wra.1_Missense_Mutation_p.V426A|SEC23B_uc002wrb.1_Missense_Mutation_p.V426A|SEC23B_uc010zsb.1_Missense_Mutation_p.V408A|SEC23B_uc002wrc.1_Missense_Mutation_p.V426A	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	426					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						GGTCCATGCGTATCTCTGAAT	0.463													8	130					0	0	1	0	0		C	18513351	C	C	18513351	3	2	151	1	0	0	0	0	1	0	0	0	14017	1638	57	3	1315	3	SEC23B	20	18513351	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	217163	18513351	44512169	4278	81443											
SEC23B	10483	broad.mit.edu	37	chr20	18523751	18523751	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatggcacggcttggggtgTtccgagcggagtcagaggag	7	8	19	7	3	1	2	1	1	0	1	2	5	2	4	1	6	1	3	1	6	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:18523751T>C	uc002wqz.1	+	14	2043	c.1600T>C	c.(1600-1602)TTC>CTC	p.F534L	SEC23B_uc002wra.1_Missense_Mutation_p.F534L|SEC23B_uc002wrb.1_Missense_Mutation_p.F534L|SEC23B_uc010zsb.1_Missense_Mutation_p.F516L|SEC23B_uc002wrc.1_Missense_Mutation_p.F534L	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	534					ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						GCTTGGGGTGTTCCGAGCGGA	0.567													30	127					0	0	1	0	0		C	18523751	C	C	18523751	3	2	151	1	0	0	0	0	1	0	0	0	14017	1725	60	3	1650	3	SEC23B	20	18523751	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10400	18523751	44501769	4279	81444											
CRNKL1	51340	broad.mit.edu	37	chr20	20020405	20020405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacttttcataaagcttccGgcatctgtcaaattctcgaa	12	13	6	10	2	4	0	2	0	2	0	6	2	5	0	1	1	2	2	1	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:20020405G>A	uc002wrs.2	-	12	1908	c.1876C>T	c.(1876-1878)CGG>TGG	p.R626W		NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	626	HAT 12.				spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						TAAAGCTTCCGGCATCTGTCA	0.363													48	174					0	0	1	0	0		A	20020405	A	A	20020405	3	1	151	1	0	0	0	0	1	0	0	0	3894	1115	39	1	686	1	CRNKL1	20	20020405	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1496654	20020405	43005115	4280	81445											
C20orf26	26074	broad.mit.edu	37	chr20	20144857	20144857	+	Missense_Mutation	SNP	A	G	G	1	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	tcagctgttttgtattgatgAgaaatatgaagcaaggcaag	14	12	11	4	0	1	3	1	3	0	1	1	4	1	3	0	1	2	5	0	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:20144857A>G	uc002wru.2	+	11	1266	c.1190A>G	c.(1189-1191)GAG>GGG	p.E397G	C20orf26_uc010gcw.1_Missense_Mutation_p.E351G|C20orf26_uc010zse.1_Missense_Mutation_p.E397G|C20orf26_uc010zsf.1_Missense_Mutation_p.E397G	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	397										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TGTATTGATGAGAAATATGAA	0.478													9	134					0	0	1	0	0		G	20144857	G	G	20144857	3	3	151	1	0	0	0	0	1	0	0	0	2109	304	11	3	1228	3	C20orf26	20	20144857	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	124452	20144857	42880663	4281	81446											
C20orf26	26074	broad.mit.edu	37	chr20	20226821	20226821	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggactcccaggaaaaaaActtctggacactgaacaaag	17	6	8	10	0	1	1	0	1	1	0	2	4	2	4	1	3	2	0	1	3	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:20226821A>G	uc002wru.2	+	19	2197	c.2121A>G	c.(2119-2121)AAA>AAG	p.K707K	C20orf26_uc010zse.1_Silent_p.K687K|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Silent_p.K63K	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	707										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CAGGAAAAAAACTTCTGGACA	0.353													14	138					0	0	1	0	0		G	20226821	G	G	20226821	2	3	151	1	0	0	0	0	0	0	0	1	2109	40	2	3		3	C20orf26	20	20226821	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	81964	20226821	42798699	4282	81447											
RALGAPA2	57186	broad.mit.edu	37	chr20	20571891	20571891	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccgaaggacctgctgctgCtgtcccactgtgagatggcc	6	9	12	14	1	0	1	0	1	0	1	2	4	2	2	4	2	3	3	4	2	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:20571891C>T	uc002wrz.2	-	17	2414	c.2271G>A	c.(2269-2271)CAG>CAA	p.Q757Q	RALGAPA2_uc010gcx.2_Silent_p.Q461Q|RALGAPA2_uc010zsg.1_Silent_p.Q205Q	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	757	Poly-Gln.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CCTGCTGCTGCTGTCCCACTG	0.512													26	84					0	0	1	0	0		T	20571891	T	T	20571891	2	4	151	1	0	0	0	0	0	0	0	1	13039	796	28	2		2	RALGAPA2	20	20571891	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	345070	20571891	42453629	4283	81448											
RALGAPA2	57186	broad.mit.edu	37	chr20	20582381	20582381	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccactcccggtgctccagaCgtggtggcactcctaaatcg	7	9	10	15	3	0	1	0	0	0	1	5	1	4	1	4	3	1	2	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:20582381C>T	uc002wrz.2	-	16	2291	c.2148G>A	c.(2146-2148)ACG>ACA	p.T716T	RALGAPA2_uc010gcx.2_Silent_p.T420T|RALGAPA2_uc010zsg.1_Silent_p.T117T	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	716					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GTGCTCCAGACGTGGTGGCAC	0.463													15	93					0	0	1	0	0		T	20582381	T	T	20582381	2	4	151	1	0	0	0	0	0	0	0	1	13039	523	19	1		1	RALGAPA2	20	20582381	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	10490	20582381	42443139	4284	81449											
PLK1S1	55857	broad.mit.edu	37	chr20	21143065	21143065	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaaaagagccagcccgccagTctctccgataccagtttcag	12	7	8	14	2	2	1	1	0	1	1	4	2	3	1	5	0	3	1	5	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:21143065T>C	uc002wsb.2	+	5	1092	c.959T>C	c.(958-960)GTC>GCC	p.V320A	PLK1S1_uc010zsh.1_Missense_Mutation_p.V217A|PLK1S1_uc010zsi.1_Missense_Mutation_p.V187A|PLK1S1_uc010zsj.1_RNA|uc002wsc.2_Intron|PLK1S1_uc002wsd.2_RNA	NM_018474	NP_060944	Q2M2Z5	KIZ_HUMAN	polo-like kinase 1 substrate 1 isoform 1	320					spindle organization	centrosome	protein kinase binding				0						AGCCCGCCAGTCTCTCCGATA	0.458													5	20					0	0	1	0	0		C	21143065	C	C	21143065	3	2	151	1	0	0	0	0	1	0	0	0	12114	1667	58	3	977	3	PLK1S1	20	21143065	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	560684	21143065	41882455	4285	81450											
FOXA2	3170	broad.mit.edu	37	chr20	22563595	22563595	+	Silent	SNP	G	A	A	0	0	1	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	gccccggccgagccgcccatGcccgccatggcgcccgcgcc	3	2	13	23	7	0	0	0	0	0	0	0	1	0	0	9	2	2	0	9	2	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:22563595G>A	uc002wsn.2	-	3	457	c.267C>T	c.(265-267)GGC>GGT	p.G89G	FOXA2_uc002wsm.2_Silent_p.G95G	NM_153675	NP_710141	Q9Y261	FOXA2_HUMAN	forkhead box A2 isoform 2	89	Transactivation domain 1 (By similarity).				cell differentiation in hindbrain|central nervous system myelin formation|chromatin modification|dorsal/ventral neural tube patterning|ectoderm formation|endocrine pancreas development|endoderm development|epithelial tube branching involved in lung morphogenesis|in utero embryonic development|lung epithelial cell differentiation|negative regulation of neuron differentiation|neuron fate specification|oligodendrocyte cell fate commitment|positive regulation of embryonic development|positive regulation of gastrulation|positive regulation of neuron differentiation|primitive streak formation|regulation of blood coagulation|regulation of sequence-specific DNA binding transcription factor activity|response to interleukin-6	cytoplasm|transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|kidney(1)|central_nervous_system(1)	4	Lung NSC(19;0.188)					AGCCGCCCATGCCCGCCATGG	0.771													6	5					0	0	1	0	0		A	22563595	A	A	22563595	2	1	151	1	0	0	0	0	0	0	0	1	6004	1306	46	2		2	FOXA2	20	22563595	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1420530	22563595	40461925	4286	81451											
NXT1	29107	broad.mit.edu	37	chr20	23334997	23334997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttgaggggaacaaacaaCgggacttcaaccagaacttc	15	7	10	9	1	1	2	1	1	0	1	2	4	1	4	1	3	5	1	1	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:23334997C>T	uc002wsx.1	+	2	706	c.319C>T	c.(319-321)CGG>TGG	p.R107W		NM_013248	NP_037380	Q9UKK6	NXT1_HUMAN	NTF2-like export factor 1	107	NTF2.					cytoplasm|nuclear pore				ovary(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GAACAAACAACGGGACTTCAA	0.552													27	113					0	0	1	0	0		T	23334997	T	T	23334997	3	4	151	1	0	0	0	0	1	0	0	0	10813	527	19	1	321	1	NXT1	20	23334997	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	771402	23334997	39690523	4287	81452											
ACSS1	84532	broad.mit.edu	37	chr20	25003605	25003605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggcggcatagagcaggtAgcctgcctgggtatggacga	9	6	17	9	2	0	1	0	0	0	1	0	3	0	2	2	5	3	4	2	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:25003605A>G	uc002wub.2	-	5	1809	c.931T>C	c.(931-933)TAC>CAC	p.Y311H	ACSS1_uc002wuc.2_Missense_Mutation_p.Y311H|ACSS1_uc010gdc.2_Intron|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Missense_Mutation_p.Y228H	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	311					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TAGAGCAGGTAGCCTGCCTGG	0.637													13	34					0	0	1	0	0		G	25003605	G	G	25003605	3	3	151	1	0	0	0	0	1	0	0	0	188	420	15	3	1178	3	ACSS1	20	25003605	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1668608	25003605	38021915	4288	81453											
ABHD12	26090	broad.mit.edu	37	chr20	25290206	25290206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcgttcccactgagtcacCccaacctgggagggagaaac	10	6	12	13	1	1	2	1	1	0	1	2	4	2	3	4	3	2	1	4	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:25290206C>T	uc002wus.1	-	7	763	c.625G>A	c.(625-627)GGT>AGT	p.G209S	ABHD12_uc002wuq.2_Missense_Mutation_p.G209S|ABHD12_uc002wur.2_Missense_Mutation_p.G209S|ABHD12_uc002wut.1_Missense_Mutation_p.G209S|ABHD12_uc002wuu.1_5'UTR	NM_001042472	NP_001035937	Q8N2K0	ABD12_HUMAN	abhydrolase domain containing 12 isoform a	209	Extracellular (Potential).					integral to membrane	acylglycerol lipase activity			skin(1)	1						ACTGAGTCACCCCAACCTGGG	0.582													11	63					0	0	1	0	0		T	25290206	T	T	25290206	3	4	151	1	0	0	0	0	1	0	0	0	76	623	22	4	661	4	ABHD12	20	25290206	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	286601	25290206	37735314	4289	81454											
HCK	3055	broad.mit.edu	37	chr20	30671779	30671779	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatccggaccctggacaaCgggggcttctacatatcccc	10	7	10	14	2	1	1	0	0	1	1	3	3	3	3	4	4	2	1	4	4	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:30671779C>T	uc002wxh.2	+	7	786	c.615C>T	c.(613-615)AAC>AAT	p.N205N	HCK_uc010gdy.2_Silent_p.N184N|HCK_uc002wxi.2_Silent_p.N183N	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	205	SH2.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CCCTGGACAACGGGGGCTTCT	0.562													19	108					0	0	1	0	0		T	30671779	T	T	30671779	2	4	151	1	0	0	0	0	0	0	0	1	7010	535	19	1		1	HCK	20	30671779	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5381573	30671779	32353741	4290	81455											
PLAGL2	5326	broad.mit.edu	37	chr20	30785129	30785129	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccactaggtgccgccgtAcatccttacgagtatagaac	11	8	9	13	3	0	1	0	0	0	1	1	2	1	1	4	1	4	3	4	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:30785129A>G	uc002wxn.2	-	3	834	c.617T>C	c.(616-618)GTA>GCA	p.V206A		NM_002657	NP_002648	Q9UPG8	PLAL2_HUMAN	pleiomorphic adenoma gene-like 2	206	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GTGCCGCCGTACATCCTTACG	0.612													4	7					0	0	1	0	0		G	30785129	G	G	30785129	3	3	151	1	0	0	0	0	1	0	0	0	12039	391	14	3	877	3	PLAGL2	20	30785129	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	113350	30785129	32240391	4291	81456											
KIF3B	9371	broad.mit.edu	37	chr20	30898349	30898349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacggcaagccaagaccggcGcacaaggggagagattaaaa	17	2	13	9	3	0	2	0	0	0	2	0	4	0	3	2	4	2	2	2	4	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:30898349G>A	uc002wxq.2	+	2	936	c.769G>A	c.(769-771)GCA>ACA	p.A257T	KIF3B_uc010ztv.1_Missense_Mutation_p.A257T|KIF3B_uc010ztw.1_Missense_Mutation_p.A257T	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	257	Kinesin-motor.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CAAGACCGGCGCACAAGGGGA	0.512													11	44					0	0	1	0	0		A	30898349	A	A	30898349	3	1	151	1	0	0	0	0	1	0	0	0	8317	1087	38	1	771	1	KIF3B	20	30898349	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	113220	30898349	32127171	4292	81457											
ASXL1	171023	broad.mit.edu	37	chr20	31022395	31022395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgctctgcaggtccgaggggCgagaggtcaccactgccata	8	7	14	12	2	2	1	1	0	1	1	3	3	3	1	3	4	3	2	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:31022395C>T	uc002wxs.2	+	12	2306	c.1880C>T	c.(1879-1881)GCG>GTG	p.A627V	ASXL1_uc010geb.2_Missense_Mutation_p.A518V	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	627					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding	p.A627fs*7(2)		haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GTCCGAGGGGCGAGAGGTCAC	0.706			F|N|Mis		MDS|CMML								8	8					0	0	1	0	0		T	31022395	T	T	31022395	3	4	151	1	0	0	0	0	1	0	0	0	1067	768	27	1	1936	1	ASXL1	20	31022395	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	124046	31022395	32003125	4293	81458											
DNMT3B	1789	broad.mit.edu	37	chr20	31372648	31372648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttccgggaaaccaggactCgttcagaaagcccagctgta	11	8	10	12	2	2	1	1	0	1	1	4	3	3	3	3	2	3	3	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:31372648C>T	uc002wyc.2	+	4	610	c.289C>T	c.(289-291)CGT>TGT	p.R97C	DNMT3B_uc010ztx.1_RNA|DNMT3B_uc010zty.1_RNA|DNMT3B_uc002wyd.2_Missense_Mutation_p.R97C|DNMT3B_uc002wye.2_Missense_Mutation_p.R97C|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_RNA|DNMT3B_uc010ztz.1_Missense_Mutation_p.R97C|DNMT3B_uc010zua.1_Intron|DNMT3B_uc002wyf.2_Missense_Mutation_p.R109C	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	97	Interaction with DNMT1 and DNMT3A.				negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						AACCAGGACTCGTTCAGAAAG	0.507													10	42					0	0	1	0	0		T	31372648	T	T	31372648	3	4	151	1	0	0	0	0	1	0	0	0	4683	884	31	1	339	1	DNMT3B	20	31372648	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	350253	31372648	31652872	4294	81459											
SUN5	140732	broad.mit.edu	37	chr20	31577472	31577472	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcgatgtaatctccgtgTatcatcttcattattttctg	7	21	5	8	2	5	0	2	0	3	0	7	1	5	0	1	0	0	2	1	0	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:31577472T>C	uc002wyi.2	-	9	660	c.567A>G	c.(565-567)ATA>ATG	p.I189M		NM_080675	NP_542406	Q8TC36	SUN5_HUMAN	sperm associated antigen 4-like	189					spermatogenesis					skin(1)	1						AATCTCCGTGTATCATCTTCA	0.493													15	48					0	0	1	0	0		C	31577472	C	C	31577472	3	2	151	1	0	0	0	0	1	0	0	0	15419	1628	57	3	592	3	SUN5	20	31577472	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	204824	31577472	31448048	4295	81460											
C20orf186	149954	broad.mit.edu	37	chr20	31672763	31672763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcccggcgtgggtgtctAcctgagcttgtacacccgtg	4	10	13	14	3	1	1	0	1	1	0	1	1	1	1	4	2	4	2	4	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:31672763A>G	uc010zue.1	+	4	758	c.743A>G	c.(742-744)TAC>TGC	p.Y248C		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	248						cytoplasm|extracellular region	lipid binding				0						GTGGGTGTCTACCTGAGCTTG	0.652													8	14					0	0	1	0	0		G	31672763	G	G	31672763	3	3	151	1	0	0	0	0	1	0	0	0	2101	391	14	3	757	3	C20orf186	20	31672763	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	95291	31672763	31352757	4296	81461											
CDK5RAP1	51654	broad.mit.edu	37	chr20	31946924	31946924	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtctgagaactggctgaGgtgatctgaaagaaaaccag	14	8	13	6	0	2	5	0	4	2	2	2	6	2	5	1	2	2	1	1	2	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:31946924G>T	uc010gek.2	-	15	1855	c.1731C>A	c.(1729-1731)ACC>ACA	p.T577T	CDK5RAP1_uc002wyy.2_Silent_p.T473T|CDK5RAP1_uc002wyz.2_Silent_p.T563T|CDK5RAP1_uc002wza.2_Silent_p.T562T|CDK5RAP1_uc010gel.2_Silent_p.T472T|CDK5RAP1_uc010gem.2_Silent_p.T486T|CDK5RAP1_uc002wzc.1_3'UTR|CDK5RAP1_uc002wzb.1_3'UTR	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	577	CDK5R1-binding.|TRAM.				brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						AACTGGCTGAGGTGATCTGAA	0.502													25	107					2.52088e-20	2.63183e-20	1	1	0		T	31946924	T	T	31946924	2	4	151	1	0	0	0	0	0	0	0	1	3148	987	35	5		5	CDK5RAP1	20	31946924	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	274161	31946924	31078596	4297	81462											
SNTA1	6640	broad.mit.edu	37	chr20	32005722	32005722	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacggtgagacgtccttcatAtacttgactgattgggagag	10	12	12	7	2	1	4	1	3	0	2	2	6	2	4	1	2	2	0	1	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:32005722A>G	uc002wzd.1	-	3	776	c.504T>C	c.(502-504)TAT>TAC	p.Y168Y	SNTA1_uc010zuf.1_Silent_p.Y168Y	NM_003098	NP_003089	Q13424	SNTA1_HUMAN	acidic alpha 1 syntrophin	168	PH 1.|PDZ.				muscle contraction	cell junction|cytoplasm|cytoskeleton|sarcolemma	actin binding|calmodulin binding			skin(1)	1						CGTCCTTCATATACTTGACTG	0.498													17	76					0	0	1	0	0		G	32005722	G	G	32005722	2	3	151	1	0	0	0	0	0	0	0	1	14896	456	16	3		3	SNTA1	20	32005722	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	58798	32005722	31019798	4298	81463											
NCOA6	23054	broad.mit.edu	37	chr20	33330967	33330967	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgagcatcatcatcatttgTtgctgctgctgctgctgctg	6	15	10	10	0	3	1	3	1	0	0	3	1	3	1	0	0	7	8	0	0	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:33330967T>C	uc002xav.2	-	12	5664	c.3093A>G	c.(3091-3093)CAA>CAG	p.Q1031Q	NCOA6_uc002xaw.2_Silent_p.Q1031Q	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1031	NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TCATCATTtgttgctgctgct	0.493													16	79					0	0	1	0	0		C	33330967	C	C	33330967	2	2	151	1	0	0	0	0	0	0	0	1	10252	1722	60	3		3	NCOA6	20	33330967	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1325245	33330967	29694553	4299	81464											
FAM83C	128876	broad.mit.edu	37	chr20	33874637	33874637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggagaccattgggcccagGcccctcaccacggaatgggc	8	4	14	15	2	1	1	1	0	0	1	1	3	1	2	5	5	0	0	5	5	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:33874637G>A	uc010zux.1	-	4	2063	c.1945C>T	c.(1945-1947)CCT>TCT	p.P649S	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Missense_Mutation_p.P304S	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	649										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TTGGGCCCAGGCCCCTCACCA	0.647													23	36					0	0	1	0	0		A	33874637	A	A	33874637	3	1	151	1	0	0	0	0	1	0	0	0	5649	1203	42	2	302	2	FAM83C	20	33874637	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	543670	33874637	29150883	4300	81465											
ERGIC3	51614	broad.mit.edu	37	chr20	34145273	34145273	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatctagggaagacaacgTagtcaccctcggtgcttcct	9	11	10	11	2	2	2	1	1	1	1	4	3	3	3	2	2	2	2	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:34145273T>C	uc002xct.2	+	13	1219	c.1150T>C	c.(1150-1152)TAG>CAG	p.*384Q	ERGIC3_uc002xcs.2_Nonstop_Mutation_p.*389Q|ERGIC3_uc002xcu.2_Nonstop_Mutation_p.*399Q|ERGIC3_uc002xcv.2_Nonstop_Mutation_p.*347Q	NM_015966	NP_057050	Q9Y282	ERGI3_HUMAN	serologically defined breast cancer antigen 84	384					vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane	protein binding			large_intestine(2)|ovary(1)	3	Lung NSC(9;0.00489)|all_lung(11;0.00729)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			GAAGACAACGTAGTCACCCTC	0.592													17	76					0	0	1	0	0		C	34145273	C	C	34145273	4	2	151	1	0	0	0	0	0	0	0	0	5233	1651	57	3	1219	3	ERGIC3	20	34145273	Nonstop_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	270636	34145273	28880247	4301	81466											
PHF20	51230	broad.mit.edu	37	chr20	34526819	34526819	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgttctgtggaggaatcctAtatcaccagtgagcattgct	9	12	11	9	1	2	1	1	1	1	0	3	3	3	3	2	2	2	3	2	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:34526819A>G	uc002xek.1	+	16	2612	c.2501A>G	c.(2500-2502)TAT>TGT	p.Y834C		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	834					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					GAGGAATCCTATATCACCAGT	0.612													11	48					0	0	1	0	0		G	34526819	G	G	34526819	3	3	151	1	0	0	0	0	1	0	0	0	11850	449	16	3	2559	3	PHF20	20	34526819	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	381546	34526819	28498701	4302	81467											
EPB41L1	2036	broad.mit.edu	37	chr20	34773147	34773147	+	Silent	SNP	T	C	C	0	1	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	gctgtgcaggctgagctgggTgactatgatgctgaggagca	8	9	17	7	0	0	4	0	4	0	0	0	5	0	5	0	3	4	6	0	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:34773147T>C	uc002xfb.2	+	7	846	c.675T>C	c.(673-675)GGT>GGC	p.G225G	EPB41L1_uc002xeu.2_Silent_p.G163G|EPB41L1_uc010zvo.1_Silent_p.G225G|EPB41L1_uc002xev.2_Silent_p.G225G|EPB41L1_uc002xew.2_Silent_p.G128G|EPB41L1_uc002xex.2_Silent_p.G194G|EPB41L1_uc002xey.2_Intron|EPB41L1_uc002xez.2_Silent_p.G163G	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	225	FERM.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					CTGAGCTGGGTGACTATGATG	0.612													25	61					0	0	1	0	0		C	34773147	C	C	34773147	2	2	151	1	0	0	0	0	0	0	0	1	5160	1683	59	3		3	EPB41L1	20	34773147	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	246328	34773147	28252373	4303	81468											
DLGAP4	22839	broad.mit.edu	37	chr20	35060838	35060838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggcagaacgcagccagccaCgctacttcatgcacgcctac	11	5	9	16	3	1	1	1	0	0	1	1	1	1	1	3	1	6	4	3	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:35060838C>T	uc002xff.2	+	3	1153	c.718C>T	c.(718-720)CGC>TGC	p.R240C	DLGAP4_uc010zvp.1_Missense_Mutation_p.R240C	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	240					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CAGCCAGCCACGCTACTTCAT	0.632													17	69					0	0	1	0	0		T	35060838	T	T	35060838	3	4	151	1	0	0	0	0	1	0	0	0	4568	536	19	1	720	1	DLGAP4	20	35060838	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	287691	35060838	27964682	4304	81469											
DLGAP4	22839	broad.mit.edu	37	chr20	35125161	35125161	+	Missense_Mutation	SNP	A	G	G	1	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	cgccaccggtccctccacgcAccacttcaaagccgttcatc	8	7	6	20	4	2	0	2	0	0	0	5	0	4	0	6	1	1	2	6	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:35125161A>G	uc002xff.2	+	8	2137	c.1702A>G	c.(1702-1704)ACC>GCC	p.T568A	DLGAP4_uc010zvp.1_Missense_Mutation_p.T568A|DLGAP4_uc002xfg.2_5'UTR|DLGAP4_uc002xfh.2_Missense_Mutation_p.T29A|DLGAP4_uc002xfi.2_5'UTR|DLGAP4_uc002xfj.2_5'Flank	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	568					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCCTCCACGCACCACTTCAAA	0.572													16	87					0	0	1	0	0		G	35125161	G	G	35125161	3	3	151	1	0	0	0	0	1	0	0	0	4568	159	6	3	1759	3	DLGAP4	20	35125161	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	64323	35125161	27900359	4305	81470											
SAMHD1	25939	broad.mit.edu	37	chr20	35559270	35559270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaactagacatcctgctagaTaccccaccctgcagagcaaa	14	6	7	14	0	0	3	0	0	0	3	1	4	1	3	4	0	5	3	4	0	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:35559270T>C	uc002xgh.1	-	5	648	c.518A>G	c.(517-519)TAT>TGT	p.Y173C		NM_015474	NP_056289	Q9Y3Z3	SAMH1_HUMAN	SAM domain- and HD domain-containing protein 1	173	HD.				defense response to virus|innate immune response|regulation of innate immune response	nucleus	metal ion binding|phosphoric diester hydrolase activity				0		Myeloproliferative disorder(115;0.00878)				TCCTGCTAGATACCCCACCCT	0.428													6	175					0	0	1	0	0		C	35559270	C	C	35559270	3	2	151	1	0	0	0	0	1	0	0	0	13853	1406	49	3	1410	3	SAMHD1	20	35559270	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	434109	35559270	27466250	4306	81471											
RBL1	5933	broad.mit.edu	37	chr20	35661170	35661170	+	Silent	SNP	A	G	G	1	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	ttggtctgttttggagaagcAccaattaatgaatgagcagt	12	13	11	5	0	1	3	0	2	1	1	1	4	1	3	1	2	2	3	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:35661170A>G	uc002xgi.2	-	16	2359	c.2280T>C	c.(2278-2280)GGT>GGC	p.G760G	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Silent_p.G760G	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	760	Pocket; binds T and E1A.|Spacer.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				TTGGAGAAGCACCAATTAATG	0.403													80	317					0	0	1	0	0		G	35661170	G	G	35661170	2	3	151	1	0	0	0	0	0	0	0	1	13134	146	6	3		3	RBL1	20	35661170	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	101900	35661170	27364350	4307	81472											
GHRH	2691	broad.mit.edu	37	chr20	35882611	35882611	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccatgcacacacacccatAcctgtgcttctgcagcaggg	10	7	8	16	0	1	0	0	0	1	0	1	0	1	0	3	1	5	4	3	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:35882611A>G	uc002xgr.2	-	3	308	c.308_splice	c.e3+1	p.S103_splice	GHRH_uc002xgs.2_Splice_Site_p.S103_splice|GHRH_uc002xgt.2_Splice_Site_p.R103_splice	NM_021081	NP_066567	P01286	SLIB_HUMAN	growth hormone releasing hormone preproprotein						activation of adenylate cyclase activity by G-protein signaling pathway|adenohypophysis development|growth hormone secretion|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of circadian sleep/wake cycle, REM sleep|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to food	extracellular space|terminal button	growth hormone-releasing hormone activity|growth hormone-releasing hormone receptor binding			ovary(1)	1		Myeloproliferative disorder(115;0.00878)				ACACACCCATACCTGTGCTTC	0.542													56	186					0	0	1	0	0		G	35882611	G	G	35882611	5	3	151	1	0	0	0	0	0	0	1	0	6387	405	14	3	24	3	GHRH	20	35882611	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	221441	35882611	27142909	4308	81473											
RPRD1B	58490	broad.mit.edu	37	chr20	36668870	36668870	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagcttacttttctgtattTagcgaatgatgtcatccaaa	13	15	6	7	1	2	1	1	1	1	0	3	2	3	1	1	0	3	2	1	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:36668870T>A	uc002xho.3	+	2	587	c.185T>A	c.(184-186)TTA>TAA	p.L62*		NM_021215	NP_067038	Q9NQG5	RPR1B_HUMAN	Regulation of nuclear pre-mRNA domain containing	62	CID.									pancreas(1)	1						TTTCTGTATTTAGCGAATGAT	0.328													37	132					0	0	1	0	0		A	36668870	A	A	36668870	4	1	151	1	0	0	0	0	0	1	0	0	13641	1764	61	5	191	5	RPRD1B	20	36668870	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	786259	36668870	26356650	4309	81474											
KIAA1755	85449	broad.mit.edu	37	chr20	36869609	36869609	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagtttccttagttccagcTatctcctctagtgccccaga	7	13	8	13	0	2	1	0	0	2	1	5	2	4	2	5	1	2	3	5	1	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:36869609T>C	uc002xhy.1	-	3	1196	c.924A>G	c.(922-924)ATA>ATG	p.I308M	KIAA1755_uc002xhz.1_Missense_Mutation_p.I308M	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	308										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TAGTTCCAGCTATCTCCTCTA	0.512													9	341					0	0	1	0	0		C	36869609	C	C	36869609	3	2	151	1	0	0	0	0	1	0	0	0	8273	1512	53	3	2726	3	KIAA1755	20	36869609	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	200739	36869609	26155911	4310	81475											
SLC32A1	140679	broad.mit.edu	37	chr20	37357038	37357038	+	Missense_Mutation	SNP	T	G	G	0	1	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	gctcgtcgtcttcacgctgcTcatggccatttatgtgccgc	4	13	10	14	4	3	0	2	0	1	0	5	0	3	0	2	1	2	3	2	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:37357038T>G	uc002xjc.2	+	2	1597	c.1334T>G	c.(1333-1335)CTC>CGC	p.L445R		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	445	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	TTCACGCTGCTCATGGCCATT	0.672													10	52					0	0	1	0	0		G	37357038	G	G	37357038	3	3	151	1	0	0	0	0	1	0	0	0	14590	1551	54	5	1340	5	SLC32A1	20	37357038	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	487429	37357038	25668482	4311	81476											
PPP1R16B	26051	broad.mit.edu	37	chr20	37531369	37531369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgagcagcagatgattgcGgacatccactgcatgatcgc	10	8	11	12	2	0	4	0	3	0	1	2	5	1	5	2	1	4	3	2	1	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:37531369G>A	uc002xje.2	+	6	819	c.630G>A	c.(628-630)GCG>GCA	p.A210A	PPP1R16B_uc010ggc.2_Silent_p.A210A	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	210					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGATGATTGCGGACATCCACT	0.562													26	112					0	0	1	0	0		A	37531369	A	A	37531369	2	1	151	1	0	0	0	0	0	0	0	1	12388	1103	39	1		1	PPP1R16B	20	37531369	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	174331	37531369	25494151	4312	81477											
DHX35	60625	broad.mit.edu	37	chr20	37620999	37620999	+	Silent	SNP	T	C	C	0	1	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	agcttctctttgattcttagTgtcatcatgctggatgaagc	8	16	9	8	0	4	2	2	2	2	0	5	3	4	3	0	1	3	2	0	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:37620999T>C	uc002xjh.2	+	7	524	c.513T>C	c.(511-513)AGT>AGC	p.S171S	DHX35_uc010zwa.1_Silent_p.S16S|DHX35_uc010zwb.1_Silent_p.S16S|DHX35_uc010zwc.1_Silent_p.S140S	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	171	Helicase ATP-binding.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TGATTCTTAGTGTCATCATGC	0.428													5	136					0	0	1	0	0		C	37620999	C	C	37620999	2	2	151	1	0	0	0	0	0	0	0	1	4514	1710	59	3		3	DHX35	20	37620999	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	89630	37620999	25404521	4313	81478											
LPIN3	64900	broad.mit.edu	37	chr20	39976200	39976200	+	Silent	SNP	T	C	C	0	1	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	ttccatttgcaggtagacatTgagctcaatggggagcctgt	9	12	12	8	0	1	2	1	1	0	1	2	3	2	3	2	3	3	3	2	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:39976200T>C	uc002xjx.2	+	3	292	c.201T>C	c.(199-201)ATT>ATC	p.I67I	LPIN3_uc010ggh.2_Silent_p.I67I|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	67	N-LIP.				fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				AGGTAGACATTGAGCTCAATG	0.448													10	53					0	0	1	0	0		C	39976200	C	C	39976200	2	2	151	1	0	0	0	0	0	0	0	1	8938	1800	63	3		3	LPIN3	20	39976200	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2355201	39976200	23049320	4314	81479											
EMILIN3	90187	broad.mit.edu	37	chr20	39990405	39990405	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtactggctgacagagtcacTgaggcctgtgagcgacttgc	8	9	14	10	1	1	4	1	3	0	1	1	5	1	4	1	2	3	2	1	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:39990405T>C	uc002xjy.1	-	4	2028	c.1804A>G	c.(1804-1806)AGT>GGT	p.S602G		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	602						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				ACAGAGTCACTGAGGCCTGTG	0.582													22	71					0	0	1	0	0		C	39990405	C	C	39990405	3	2	151	1	0	0	0	0	1	0	0	0	5103	1580	55	3	500	3	EMILIN3	20	39990405	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	14205	39990405	23035115	4315	81480											
CHD6	84181	broad.mit.edu	37	chr20	40044014	40044014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agacaagtccatgccaagggCtccctgaagtgaactgatag	13	7	11	10	0	0	4	0	3	0	1	2	4	2	4	3	1	2	1	3	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:40044014C>T	uc002xka.1	-	34	6929	c.6751G>A	c.(6751-6753)GCC>ACC	p.A2251T	CHD6_uc002xjz.1_5'Flank	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2251					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				ATGCCAAGGGCTCCCTGAAGT	0.567													17	26					0	0	1	0	0		T	40044014	T	T	40044014	3	4	151	1	0	0	0	0	1	0	0	0	3332	797	28	2	1412	2	CHD6	20	40044014	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	53609	40044014	22981506	4316	81481											
PTPRT	11122	broad.mit.edu	37	chr20	40747089	40747089	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgacgatgctggcggagTtctcctgccagatcattctc	7	11	10	13	2	3	2	1	1	2	1	5	4	3	3	3	2	2	2	3	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:40747089T>C	uc002xkg.2	-	21	3120	c.2936A>G	c.(2935-2937)AAC>AGC	p.N979S	PTPRT_uc010ggj.2_Missense_Mutation_p.N998S|PTPRT_uc010ggi.2_Missense_Mutation_p.N182S	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	979	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GCTGGCGGAGTTCTCCTGCCA	0.542													19	54					0	0	1	0	0		C	40747089	C	C	40747089	3	2	151	1	0	0	0	0	1	0	0	0	12837	1725	60	3	1433	3	PTPRT	20	40747089	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	703075	40747089	22278431	4317	81482											
L3MBTL	26013	broad.mit.edu	37	chr20	42169672	42169672	+	Silent	SNP	A	G	G	1	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	tcagatcatcttcaggaaggAaaaggcatcctggagacagg	14	7	12	8	0	4	2	3	0	1	2	5	5	5	4	1	5	0	1	1	5	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:42169672A>G	uc010zwh.1	+	22	2473	c.2427A>G	c.(2425-2427)GGA>GGG	p.G809G	L3MBTL_uc002xkl.2_Silent_p.G741G|L3MBTL_uc002xkm.2_3'UTR|L3MBTL_uc010ggl.2_3'UTR|L3MBTL_uc002xkn.1_Intron|L3MBTL_uc002xko.2_3'UTR|L3MBTL_uc002xkp.2_Silent_p.G129G|SGK2_uc002xkq.1_Intron	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	Error:Variant_position_missing_in_Q9Y468_after_alignment					chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TTCAGGAAGGAAAAGGCATCC	0.483													29	126					0	0	1	0	0		G	42169672	G	G	42169672	2	3	151	1	0	0	0	0	0	0	0	1	8607	233	9	3		3	L3MBTL	20	42169672	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1422583	42169672	20855848	4318	81483											
SGK2	10110	broad.mit.edu	37	chr20	42203604	42203604	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatcgagcagtggactggtGgtgcttgggggcagtcctct	5	11	17	8	1	1	1	0	1	1	0	3	3	2	2	1	5	2	3	1	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:42203604G>T	uc002xkv.2	+	9	1052	c.833G>T	c.(832-834)TGG>TTG	p.W278L	SGK2_uc002xkt.2_RNA|SGK2_uc002xkr.2_Missense_Mutation_p.W218L|SGK2_uc010ggm.2_Missense_Mutation_p.W218L|SGK2_uc002xks.2_Missense_Mutation_p.W217L|SGK2_uc002xku.2_Missense_Mutation_p.W218L	NM_016276	NP_057360	Q9HBY8	SGK2_HUMAN	serum/glucocorticoid regulated kinase 2 isoform	278	Protein kinase.				intracellular protein kinase cascade|response to oxidative stress		ATP binding|potassium channel regulator activity|protein serine/threonine kinase activity|sodium channel regulator activity			lung(3)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	6		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GTGGACTGGTGGTGCTTGGGG	0.488													4	45					0.00024832	0.000250813	1	1	0		T	42203604	T	T	42203604	3	4	151	1	0	0	0	0	1	0	0	0	14234	1357	47	5	867	5	SGK2	20	42203604	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	33932	42203604	20821916	4319	81484											
MYBL2	4605	broad.mit.edu	37	chr20	42315583	42315583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggaagcagtgccgtgaacGctggcacaaccacctcaacc	11	4	12	14	2	1	1	1	1	0	0	1	2	1	2	4	3	5	3	4	3	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:42315583G>A	uc002xlb.1	+	5	586	c.371G>A	c.(370-372)CGC>CAC	p.R124H	MYBL2_uc010zwj.1_Missense_Mutation_p.R100H|MYBL2_uc002xla.1_Missense_Mutation_p.R124H	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	124	H-T-H motif (By similarity).|HTH myb-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TGCCGTGAACGCTGGCACAAC	0.582													8	41					0	0	1	0	0		A	42315583	A	A	42315583	3	1	151	1	0	0	0	0	1	0	0	0	10028	1087	38	1	389	1	MYBL2	20	42315583	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	111979	42315583	20709937	4320	81485											
GTSF1L	149699	broad.mit.edu	37	chr20	42355289	42355289	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatctgctgagtgggattcGgtggtgaggatcataagggc	9	10	17	5	1	2	2	1	2	1	0	3	5	2	4	0	5	1	1	0	5	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:42355289G>A	uc002xld.2	-	1	354	c.46C>T	c.(46-48)CGA>TGA	p.R16*	GTSF1L_uc002xlc.2_Nonsense_Mutation_p.R16*	NM_176791	NP_789761	Q9H1H1	GTSFL_HUMAN	gametocyte specific factor 1-like isoform 1	16	CHHC-type.						metal ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGTGGGATTCGGTGGTGAGGA	0.483													31	197					0	0	1	0	0		A	42355289	A	A	42355289	4	1	151	1	0	0	0	0	0	1	0	0	6903	1124	39	1	404	1	GTSF1L	20	42355289	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	39706	42355289	20670231	4321	81486											
TTPAL	79183	broad.mit.edu	37	chr20	43109032	43109032	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcttccgggttcctcacCgtgctgccccacactgaccc	4	10	8	19	2	1	1	1	1	0	0	3	1	3	1	6	1	3	3	6	1	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:43109032C>T	uc002xmc.1	+	3	517	c.393C>T	c.(391-393)ACC>ACT	p.T131T	TTPAL_uc002xmd.1_Silent_p.T131T|TTPAL_uc010ggr.1_Missense_Mutation_p.P9L	NM_024331	NP_077307	Q9BTX7	TTPAL_HUMAN	tocopherol (alpha) transfer protein-like	131	CRAL-TRIO.					intracellular	transporter activity			breast(1)	1						GGTTCCTCACCGTGCTGCCCC	0.557													40	156					0	0	1	0	0		T	43109032	T	T	43109032	2	4	151	1	0	0	0	0	0	0	0	1	16763	639	23	1		1	TTPAL	20	43109032	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	753743	43109032	19916488	4322	81487											
ADA	100	broad.mit.edu	37	chr20	43257798	43257798	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtgttagctgggagggcGatccctctcctcctggaaac	6	10	13	12	1	1	0	0	0	1	0	4	3	3	2	3	3	2	3	3	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:43257798G>A	uc002xmj.2	-	3	236	c.108C>T	c.(106-108)ATC>ATT	p.I36I	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	36					adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	CTGGGAGGGCGATCCCTCTCC	0.597									Adenosine_Deaminase_Deficiency				17	43					0	0	1	0	0		A	43257798	A	A	43257798	2	1	151	1	0	0	0	0	0	0	0	1	230	1048	37	1		1	ADA	20	43257798	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	148766	43257798	19767722	4323	81488											
UBE2C	11065	broad.mit.edu	37	chr20	44442079	44442079	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatactcttttttcaggctAcagcaggagctgatgaccct	10	12	9	10	0	2	2	1	2	1	0	2	4	2	3	1	2	4	3	1	2	3	5	rs150351110		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:44442079A>G	uc002xpm.2	+	2	185	c.105A>G	c.(103-105)CTA>CTG	p.L35L	UBE2C_uc002xpl.2_Silent_p.L35L|UBE2C_uc002xpn.2_5'UTR|UBE2C_uc002xpo.2_Silent_p.L35L|UBE2C_uc002xpp.2_Silent_p.L35L|UBE2C_uc002xpq.2_5'UTR	NM_007019	NP_008950	O00762	UBE2C_HUMAN	ubiquitin-conjugating enzyme E2C isoform 1	35					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cyclin catabolic process|exit from mitosis|free ubiquitin chain polymerization|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|positive regulation of exit from mitosis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|protein K48-linked ubiquitination|spindle organization	anaphase-promoting complex|cytosol|nucleoplasm	ATP binding|protein binding|ubiquitin-protein ligase activity				0		Myeloproliferative disorder(115;0.0122)				TTTTCAGGCTACAGCAGGAGC	0.527													7	279					0	0	1	0	0		G	44442079	G	G	44442079	2	3	151	1	0	0	0	0	0	0	0	1	16872	378	14	3		3	UBE2C	20	44442079	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1184281	44442079	18583441	4324	81489											
ZNF335	63925	broad.mit.edu	37	chr20	44578447	44578447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctagtagctcacctggttgtCggaggtcaccaggtgctgta	7	11	13	10	1	2	0	2	0	0	0	3	1	2	1	2	4	2	5	2	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:44578447C>T	uc002xqw.2	-	24	3784	c.3661G>A	c.(3661-3663)GAC>AAC	p.D1221N	ZNF335_uc002xqv.2_Missense_Mutation_p.D333N|ZNF335_uc010zxk.1_Missense_Mutation_p.D1066N	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	1221	Gln-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				ACCTGGTTGTCGGAGGTCACC	0.552													22	57					0	0	1	0	0		T	44578447	T	T	44578447	3	4	151	1	0	0	0	0	1	0	0	0	17877	884	31	1	387	1	ZNF335	20	44578447	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	136368	44578447	18447073	4325	81490											
SULF2	55959	broad.mit.edu	37	chr20	46295229	46295229	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcggacatagctggccttgTactctgtgggcattagagga	8	11	14	8	1	1	1	0	0	1	1	1	3	1	3	1	4	3	3	1	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:46295229T>C	uc002xto.2	-	12	1910	c.1580A>G	c.(1579-1581)TAC>TGC	p.Y527C	SULF2_uc002xtr.2_Missense_Mutation_p.Y527C|SULF2_uc002xtq.2_Missense_Mutation_p.Y527C|SULF2_uc010zyd.1_5'Flank	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	527					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						GCTGGCCTTGTACTCTGTGGG	0.637													15	64					0	0	1	0	0		C	46295229	C	C	46295229	3	2	151	1	0	0	0	0	1	0	0	0	15396	1638	57	3	1072	3	SULF2	20	46295229	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1716782	46295229	16730291	4326	81491											
ZNFX1	57169	broad.mit.edu	37	chr20	47868143	47868143	+	Missense_Mutation	SNP	T	G	G	0	1	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	gggtcaaaaggcgggcaattTcagggcacatacggtgctga	11	7	15	8	2	2	1	2	1	0	0	2	1	2	1	0	5	2	3	0	5	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:47868143T>G	uc002xui.2	-	13	3480	c.3233A>C	c.(3232-3234)GAA>GCA	p.E1078A		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1078							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GCGGGCAATTTCAGGGCACAT	0.428													22	52					0	0	1	0	0		G	47868143	G	G	47868143	3	3	151	1	0	0	0	0	1	0	0	0	18230	1783	62	5	2531	5	ZNFX1	20	47868143	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1572914	47868143	15157377	4327	81492											
ZNFX1	57169	broad.mit.edu	37	chr20	47887946	47887946	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcctgctgtggctgttctgTaggcttctggtggggagtcc	2	13	16	10	1	2	0	0	0	2	0	3	1	3	1	2	5	1	5	2	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:47887946T>C	uc002xui.2	-	3	650	c.403A>G	c.(403-405)ACA>GCA	p.T135A		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	135							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GGCTGTTCTGTAGGCTTCTGG	0.522													25	130					0	0	1	0	0		C	47887946	C	C	47887946	3	2	151	1	0	0	0	0	1	0	0	0	18230	1638	57	3	5401	3	ZNFX1	20	47887946	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	19803	47887946	15137574	4328	81493											
B4GALT5	9334	broad.mit.edu	37	chr20	48256242	48256242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggtcgtcatcttctccaCcccaaccccagaaagcatta	12	8	6	15	1	3	2	1	0	2	2	5	2	3	2	5	1	2	1	5	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:48256242C>T	uc002xuu.3	-	7	1084	c.890G>A	c.(889-891)GGT>GAT	p.G297D		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	297	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			ATCTTCTCCACCCCAACCCCA	0.438													42	188					0	0	1	0	0		T	48256242	T	T	48256242	3	4	151	1	0	0	0	0	1	0	0	0	1275	507	18	4	288	4	B4GALT5	20	48256242	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	368296	48256242	14769278	4329	81494											
PTPN1	5770	broad.mit.edu	37	chr20	49184937	49184937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccctttgcctaacacatgCggtcacttttgggagatggt	7	12	12	10	1	1	1	1	0	0	1	1	2	1	1	2	4	3	0	2	4	1	4	rs143550876	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:49184937C>T	uc002xvl.2	+	4	450	c.276C>T	c.(274-276)TGC>TGT	p.C92C	PTPN1_uc010zys.1_Silent_p.C19C	NM_002827	NP_002818	P18031	PTN1_HUMAN	protein tyrosine phosphatase, non-receptor type	92	Tyrosine-protein phosphatase.				blood coagulation|interferon-gamma-mediated signaling pathway|negative regulation of insulin receptor signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol|endoplasmic reticulum membrane	protein tyrosine phosphatase activity|zinc ion binding				0		Lung NSC(126;0.163)			Clodronate(DB00720)|Tiludronate(DB01133)	CTAACACATGCGGTCACTTTT	0.488													22	124					0	0	1	0	0		T	49184937	T	T	49184937	2	4	151	1	0	0	0	0	0	0	0	1	12802	776	27	1		1	PTPN1	20	49184937	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	928695	49184937	13840583	4330	81495											
FAM65C	140876	broad.mit.edu	37	chr20	49247292	49247292	+	Silent	SNP	T	C	C	0	1	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	tacgcgatcctccggctctgTgcactgctgaagcctgcgaa	7	9	11	14	4	1	1	0	1	1	0	3	3	3	1	3	1	5	3	3	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:49247292T>C	uc002xvm.2	-	2	411	c.93A>G	c.(91-93)GCA>GCG	p.A31A	FAM65C_uc010zyt.1_Silent_p.A35A|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.A31A	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	31										ovary(2)	2						TCCGGCTCTGTGCACTGCTGA	0.662													3	13					0	0	1	0	0		C	49247292	C	C	49247292	2	2	151	1	0	0	0	0	0	0	0	1	5615	1683	59	3		3	FAM65C	20	49247292	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	62355	49247292	13778228	4331	81496											
PARD6B	84612	broad.mit.edu	37	chr20	49366647	49366647	+	Silent	SNP	A	G	G	1	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	aacctcatcataacagtgagAccggcaaaccagaggaataa	18	5	8	10	1	2	2	2	1	0	2	2	4	2	3	3	2	3	1	3	2	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:49366647A>G	uc002xvo.2	+	3	984	c.741A>G	c.(739-741)AGA>AGG	p.R247R		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	247	PDZ.|Interaction with PARD3 and CDC42 (By similarity).				axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						TAACAGTGAGACCGGCAAACC	0.443													42	164					0	0	1	0	0		G	49366647	G	G	49366647	2	3	151	1	0	0	0	0	0	0	0	1	11465	272	10	3		3	PARD6B	20	49366647	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	119355	49366647	13658873	4332	81497											
ADNP	23394	broad.mit.edu	37	chr20	49509799	49509799	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttgctagtaaaattgtgTattttcataatgtagttggc	11	18	8	4	0	1	0	1	0	0	0	1	0	1	0	0	1	1	5	0	1	6	10			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:49509799T>C	uc002xvt.1	-	5	1797	c.1452A>G	c.(1450-1452)ATA>ATG	p.I484M	ADNP_uc002xvu.1_Missense_Mutation_p.I484M	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	484						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TAAAATTGTGTATTTTCATAA	0.373													114	440					0	0	1	0	0		C	49509799	C	C	49509799	3	2	151	1	0	0	0	0	1	0	0	0	323	1628	57	3	1860	3	ADNP	20	49509799	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	143152	49509799	13515721	4333	81498											
ADNP	23394	broad.mit.edu	37	chr20	49520468	49520468	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaacccaatgtcactaagTatttttttcacagttttccg	10	16	4	11	1	2	0	2	0	0	0	4	0	4	0	3	0	1	2	3	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:49520468T>A	uc002xvt.1	-	3	411	c.66A>T	c.(64-66)ATA>ATT	p.I22I	ADNP_uc002xvu.1_Silent_p.I22I	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	22						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TGTCACTAAGTATTTTTTTCA	0.318													16	76					0	0	1	0	0		A	49520468	A	A	49520468	2	1	151	1	0	0	0	0	0	0	0	1	323	1628	57	5		5	ADNP	20	49520468	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	10669	49520468	13505052	4334	81499											
KCNG1	3755	broad.mit.edu	37	chr20	49626525	49626525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggcccccgggttgcggtcGaagaagaactcgttgcaggt	9	7	15	10	4	0	2	0	0	0	2	2	3	0	2	2	4	3	3	2	4	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:49626525G>A	uc002xwa.3	-	2	646	c.351C>T	c.(349-351)TTC>TTT	p.F117F	KCNG1_uc002xwb.2_Silent_p.F117F	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	117	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						GGTTGCGGTCGAAGAAGAACT	0.647													12	42					0	0	1	0	0		A	49626525	A	A	49626525	2	1	151	1	0	0	0	0	0	0	0	1	8043	1049	37	1		1	KCNG1	20	49626525	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	106057	49626525	13398995	4335	81500											
NFATC2	4773	broad.mit.edu	37	chr20	50140511	50140511	+	Missense_Mutation	SNP	T	C	C	0	1	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	acttctgcggccctaccctaTccggctctccgaatcggccg	5	9	9	18	5	2	0	0	0	2	0	5	1	3	0	5	3	2	1	5	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:50140511T>C	uc002xwd.2	-	2	489	c.269A>G	c.(268-270)GAT>GGT	p.D90G	NFATC2_uc002xwc.2_Missense_Mutation_p.D90G|NFATC2_uc010zyv.1_Intron|NFATC2_uc010zyw.1_Intron|NFATC2_uc010zyx.1_Missense_Mutation_p.D70G|NFATC2_uc010zyy.1_Intron|NFATC2_uc010zyz.1_Intron|NFATC2_uc002xwe.2_Missense_Mutation_p.D70G	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	90					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					CCCTACCCTATCCGGCTCTCC	0.647													15	41					0	0	1	0	0		C	50140511	C	C	50140511	3	2	151	1	0	0	0	0	1	0	0	0	10381	1435	50	3	2592	3	NFATC2	20	50140511	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	513986	50140511	12885009	4336	81501											
ZFP64	55734	broad.mit.edu	37	chr20	50705146	50705146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttgtccttccggctgaagCacttgtcacagaactcacac	9	10	9	13	1	2	2	2	1	0	1	4	2	4	2	2	2	2	3	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:50705146C>T	uc002xwk.2	-	8	1362	c.1013G>A	c.(1012-1014)TGC>TAC	p.C338Y	ZFP64_uc002xwj.2_Missense_Mutation_p.C119Y	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CCGGCTGAAGCACTTGTCACA	0.493													36	193					0	0	1	0	0		T	50705146	T	T	50705146	3	4	151	1	0	0	0	0	1	0	0	0	17677	710	25	2	932	2	ZFP64	20	50705146	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	564635	50705146	12320374	4337	81502											
TSHZ2	128553	broad.mit.edu	37	chr20	51870983	51870983	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcgtttttgatgtcaatcGgccgtgttcccccgattcaa	7	13	9	12	5	2	1	2	1	0	0	4	2	3	1	3	1	0	2	3	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:51870983G>T	uc002xwo.2	+	2	1942	c.986G>T	c.(985-987)CGG>CTG	p.R329L		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	329					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GATGTCAATCGGCCGTGTTCC	0.463													42	148					1.00001e-27	1.04805e-27	1	1	0		T	51870983	T	T	51870983	3	4	151	1	0	0	0	0	1	0	0	0	16650	1116	39	5	992	5	TSHZ2	20	51870983	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1165837	51870983	11154537	4338	81503											
ZNF217	7764	broad.mit.edu	37	chr20	52192756	52192756	+	Silent	SNP	A	C	C	1	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	ctttttgtcttatccggtgcAggggaaacactggttttagg	7	15	12	7	1	1	0	0	0	1	0	2	1	2	1	1	5	2	2	1	5	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:52192756A>C	uc002xwq.3	-	3	2818	c.2547T>G	c.(2545-2547)CCT>CCG	p.P849P	ZNF217_uc010gij.1_Silent_p.P841P	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	849					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TATCCGGTGCAGGGGAAACAC	0.522													29	143					0	0	1	0	0		C	52192756	C	C	52192756	2	2	151	1	0	0	0	0	0	0	0	1	17797	175	7	5		5	ZNF217	20	52192756	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	321773	52192756	10832764	4339	81504											
BMP7	655	broad.mit.edu	37	chr20	55758796	55758796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgccacgttggccatccGcagggcttcctggttcttgg	4	11	12	14	2	1	0	0	0	1	0	3	0	3	0	5	4	1	4	5	4	0	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:55758796G>A	uc010gip.1	-	4	1469	c.940C>T	c.(940-942)CGG>TGG	p.R314W	BMP7_uc010giq.1_Intron|BMP7_uc002xyc.2_Missense_Mutation_p.R314W	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	314					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			TTGGCCATCCGCAGGGCTTCC	0.647													16	63					0	0	1	0	0		A	55758796	A	A	55758796	3	1	151	1	0	0	0	0	1	0	0	0	1466	1086	38	1	371	1	BMP7	20	55758796	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3566040	55758796	7266724	4340	81505											
SPO11	23626	broad.mit.edu	37	chr20	55913380	55913380	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacttttagtcaagaaactgTgggatacatttcatgttcct	11	15	8	7	0	2	1	2	0	0	1	3	3	3	2	1	1	2	1	1	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:55913380T>C	uc002xye.2	+	9	886	c.793T>C	c.(793-795)TGG>CGG	p.W265R	SPO11_uc002xyf.2_Missense_Mutation_p.W227R	NM_012444	NP_036576	Q9Y5K1	SPO11_HUMAN	meiotic recombination protein SPO11 isoform a	265					female gamete generation|reciprocal meiotic recombination	chromosome|nucleus	ATP binding|DNA binding|hydrolase activity			breast(2)|skin(1)	3	Lung NSC(12;0.0066)|all_lung(29;0.0188)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.73e-14)|Epithelial(14;9.02e-10)|all cancers(14;9.31e-09)			CAAGAAACTGTGGGATACATT	0.318								Editing_and_processing_nucleases					20	83					0	0	1	0	0		C	55913380	C	C	55913380	3	2	151	1	0	0	0	0	1	0	0	0	15102	1696	59	3	827	3	SPO11	20	55913380	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	154584	55913380	7112140	4341	81506											
GNAS	2778	broad.mit.edu	37	chr20	57485796	57485796	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ctaccctcatttcacctgcgCtgtggacactgagaacatcc	9	10	7	15	1	2	1	2	1	0	1	3	3	3	2	3	1	3	1	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:57485796C>A	uc002xzw.2	+	13	3311	c.3026C>A	c.(3025-3027)GCT>GAT	p.A1009D	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.A307D|GNAS_uc002xzx.2_Missense_Mutation_p.A307D|GNAS_uc010gjr.2_Missense_Mutation_p.A257D|GNAS_uc002xzy.2_Missense_Mutation_p.A292D|GNAS_uc002yaa.2_Missense_Mutation_p.A352D|GNAS_uc010zzt.1_Missense_Mutation_p.A367D|GNAS_uc002yab.2_RNA|GNAS_uc002yad.2_Missense_Mutation_p.A257D|GNAS_uc002yae.2_Missense_Mutation_p.A291D	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	366		GTP; via amide nitrogen (By similarity).	A -> S (in AHO; paradoxical combination of AHO and testotoxicosis; constitutively activates adenylyl cyclase in vitro; accounts for the testotoxicosis phenotype; mutant form is quite stable at testis temperature; rapidly degraded at 37 degrees explaining the AHO phenotype caused by loss of Gs activity).		activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			TTCACCTGCGCTGTGGACACT	0.572			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			11	47					0.000673444	0.000679448	1	1	0		A	57485796	A	A	57485796	3	1	151	1	0	0	0	0	1	0	0	0	6525	797	28	5	3964	5	GNAS	20	57485796	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1572416	57485796	5539724	4342	81507											
TH1L	51497	broad.mit.edu	37	chr20	57561870	57561870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttatctgaaaactacaccGctgtggcccagactgtgaac	11	10	8	12	1	2	3	0	2	2	1	2	3	2	3	2	1	3	1	2	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:57561870G>A	uc002yag.2	+	3	292	c.265G>A	c.(265-267)GCT>ACT	p.A89T	TH1L_uc010zzu.1_Missense_Mutation_p.A89T|TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.A89T	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	89					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			AAACTACACCGCTGTGGCCCA	0.488													57	171					0	0	1	0	0		A	57561870	A	A	57561870	3	1	151	1	0	0	0	0	1	0	0	0	15864	1087	38	1	275	1	TH1L	20	57561870	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	76074	57561870	5463650	4343	81508											
TH1L	51497	broad.mit.edu	37	chr20	57568057	57568057	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tctgccttaactgtaggtttCcagtggtagcaatgggtgtg	7	14	13	7	0	1	0	0	0	1	0	2	0	2	0	2	3	3	4	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:57568057C>G	uc002yag.2	+	11	1288	c.1261C>G	c.(1261-1263)CCA>GCA	p.P421A	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.P421A	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	421					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			CTGTAGGTTTCCAGTGGTAGC	0.403													14	32					0	0	1	0	0		G	57568057	G	G	57568057	3	3	151	1	0	0	0	0	1	0	0	0	15864	855	30	5	1303	5	TH1L	20	57568057	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	6187	57568057	5457463	4344	81509											
PHACTR3	116154	broad.mit.edu	37	chr20	58330282	58330282	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgatggaggaccccgatctgTacagagtgaaccacccactc	11	6	10	14	2	1	2	0	1	1	1	2	6	1	4	4	2	2	1	4	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:58330282T>C	uc002yau.2	+	4	871	c.404T>C	c.(403-405)GTA>GCA	p.V135A	PHACTR3_uc002yat.2_Missense_Mutation_p.V132A|PHACTR3_uc010zzw.1_Missense_Mutation_p.V94A|PHACTR3_uc002yav.2_Missense_Mutation_p.V94A|PHACTR3_uc002yaw.2_Missense_Mutation_p.V94A|PHACTR3_uc002yax.2_Missense_Mutation_p.V94A	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	135						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CCCCGATCTGTACAGAGTGAA	0.582													11	35					0	0	1	0	0		C	58330282	C	C	58330282	3	2	151	1	0	0	0	0	1	0	0	0	11830	1638	57	3	418	3	PHACTR3	20	58330282	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	762225	58330282	4695238	4345	81510											
CDH4	1002	broad.mit.edu	37	chr20	60509183	60509183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcaaagcccctggcgtgCgtcgcgtggatgagcggccg	7	5	16	13	6	0	1	0	1	0	0	1	2	0	2	3	3	4	1	3	3	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:60509183C>T	uc002ybn.1	+	15	2463	c.2449C>T	c.(2449-2451)CGT>TGT	p.R817C	CDH4_uc002ybp.1_Missense_Mutation_p.R743C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	817	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CCCTGGCGTGCGTCGCGTGGA	0.682													10	30					0	0	1	0	0		T	60509183	T	T	60509183	3	4	151	1	0	0	0	0	1	0	0	0	3115	768	27	1	2507	1	CDH4	20	60509183	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2178901	60509183	2516337	4346	81511											
PSMA7	5688	broad.mit.edu	37	chr20	60714246	60714246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgcgcccattgctctgcGtataacgctagcaagaaaag	11	8	10	12	3	1	1	0	0	1	1	1	1	1	1	2	0	5	4	2	0	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:60714246G>A	uc002ybx.1	-	4	471	c.356C>T	c.(355-357)ACG>ATG	p.T119M	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	119					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			ATTGCTCTGCGTATAACGCTA	0.488													14	59					0	0	1	0	0		A	60714246	A	A	60714246	3	1	151	1	0	0	0	0	1	0	0	0	12694	1145	40	1	406	1	PSMA7	20	60714246	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	205063	60714246	2311274	4347	81512											
LAMA5	3911	broad.mit.edu	37	chr20	60885488	60885488	+	Silent	SNP	T	C	C	0	1	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	cacagacctaaagtgataacTcccccgctgcctgggaagaa	13	6	9	13	1	0	3	0	1	0	2	1	4	1	4	4	1	2	1	4	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:60885488T>C	uc002ycq.2	-	76	10654	c.10587A>G	c.(10585-10587)GGA>GGG	p.G3529G		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3529	Laminin G-like 5.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAGTGATAACTCCCCCGCTGC	0.692													6	35					0	0	1	0	0		C	60885488	C	C	60885488	2	2	151	1	0	0	0	0	0	0	0	1	8625	1538	54	3		3	LAMA5	20	60885488	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	171242	60885488	2140032	4348	81513											
LAMA5	3911	broad.mit.edu	37	chr20	60890201	60890201	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagctgggactgcacacgggTggcggtgtcctgggcttcag	5	8	17	11	2	1	0	1	0	0	0	2	1	2	1	1	5	2	3	1	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:60890201T>C	uc002ycq.2	-	59	7997	c.7930A>G	c.(7930-7932)ACC>GCC	p.T2644A		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2644	Potential.|Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGCACACGGGTGGCGGTGTCC	0.672													3	19					0	0	1	0	0		C	60890201	C	C	60890201	3	2	151	1	0	0	0	0	1	0	0	0	8625	1696	59	3	3245	3	LAMA5	20	60890201	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4713	60890201	2135319	4349	81514											
NTSR1	4923	broad.mit.edu	37	chr20	61341218	61341218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgccgacggccagcacgccgGcggcctggtgtgcaccccca	5	3	14	19	6	0	0	0	0	0	0	0	1	0	0	6	4	2	2	6	4	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:61341218G>A	uc002ydf.2	+	1	1030	c.659G>A	c.(658-660)GGC>GAC	p.G220D		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	220	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			CAGCACGCCGGCGGCCTGGTG	0.672													6	17					0	0	1	0	0		A	61341218	A	A	61341218	3	1	151	1	0	0	0	0	1	0	0	0	10729	1203	42	2	661	2	NTSR1	20	61341218	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	451017	61341218	1684302	4350	81515											
DIDO1	11083	broad.mit.edu	37	chr20	61525226	61525226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggtcctggggtcccggcCggacactgtgacggtggtga	5	7	18	11	4	0	2	0	2	0	0	2	3	2	3	3	7	1	0	3	7	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:61525226C>A	uc002ydr.1	-	12	3157	c.2893G>T	c.(2893-2895)GGC>TGC	p.G965C	DIDO1_uc002yds.1_Missense_Mutation_p.G965C|DIDO1_uc002ydt.1_Missense_Mutation_p.G965C|DIDO1_uc002ydu.1_Missense_Mutation_p.G965C	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	965					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GGGTCCCGGCCGGACACTGTG	0.682													28	68					3.99451e-17	4.15913e-17	1	1	0		A	61525226	A	A	61525226	3	1	151	1	0	0	0	0	1	0	0	0	4528	652	23	5	3878	5	DIDO1	20	61525226	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	184008	61525226	1500294	4351	81516											
PTK6	5753	broad.mit.edu	37	chr20	62163998	62163998	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgccgcagcttcttcatgGcctggatctccgactgcagc	5	11	11	14	2	3	0	1	0	2	0	4	2	3	1	3	2	4	3	3	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:62163998G>T	uc002yfg.2	-	5	753	c.713C>A	c.(712-714)GCC>GAC	p.A238D	PTK6_uc011aay.1_Missense_Mutation_p.A137D|PTK6_uc011aaz.1_5'UTR	NM_005975	NP_005966	Q13882	PTK6_HUMAN	PTK6 protein tyrosine kinase 6	238	Protein kinase.					cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(1)|kidney(1)	2	all_cancers(38;2.51e-11)		Epithelial(9;1.5e-08)|all cancers(9;8.67e-08)|BRCA - Breast invasive adenocarcinoma(10;6.43e-06)			CTTCTTCATGGCCTGGATCTC	0.652													11	46					2.27111e-07	2.3198e-07	1	1	0		T	62163998	T	T	62163998	3	4	151	1	0	0	0	0	1	0	0	0	12787	1203	42	5	658	5	PTK6	20	62163998	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	638772	62163998	861522	4352	81517											
PRIC285	85441	broad.mit.edu	37	chr20	62200870	62200870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaacgaggcagcctgcacaCgcactcccacctggaagtcg	10	4	11	16	4	0	0	0	0	0	0	2	3	1	1	3	2	3	3	3	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:62200870C>T	uc002yfm.2	-	5	1611	c.719G>A	c.(718-720)CGT>CAT	p.R240H	PRIC285_uc002yfl.1_5'Flank	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	240					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			AGCCTGCACACGCACTCCCAC	0.672													10	10					0	0	1	0	0		T	62200870	T	T	62200870	3	4	151	1	0	0	0	0	1	0	0	0	12507	536	19	1	7317	1	PRIC285	20	62200870	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	36872	62200870	824650	4353	81518											
GMEB2	26205	broad.mit.edu	37	chr20	62250679	62250679	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctccacaccactgccGtccactgcagtgtccggagt	7	7	8	19	2	0	0	0	0	0	0	3	1	3	1	7	1	2	1	7	1	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:62250679G>A	uc002yfp.1	-	1	551	c.72C>T	c.(70-72)GAC>GAT	p.D24D	GMEB2_uc002yfq.1_Silent_p.D24D	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	24				DGSGVEGVKTVLVTTNLAPHG -> CPAGCALRDPDSILSS LHFTR (in Ref. 6).	regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			CACCACTGCCGTCCACTGCAG	0.647													12	50					0	0	1	0	0		A	62250679	A	A	62250679	2	1	151	1	0	0	0	0	0	0	0	1	6503	1136	40	1		1	GMEB2	20	62250679	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	49809	62250679	774841	4354	81519											
PCMTD2	55251	broad.mit.edu	37	chr20	62904640	62904640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggggcaccattaaaaagaTtattcatcaggaaactgtga	15	9	9	8	1	2	2	2	1	0	1	2	3	2	3	2	3	1	1	2	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr20:62904640T>C	uc002yil.3	+	6	973	c.773T>C	c.(772-774)ATT>ACT	p.I258T	PCMTD2_uc002yim.3_Missense_Mutation_p.I231T	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	258						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					ATTAAAAAGATTATTCATCAG	0.512													25	86					0	0	1	0	0		C	62904640	C	C	62904640	3	2	151	1	0	0	0	0	1	0	0	0	11606	1493	52	3	791	3	PCMTD2	20	62904640	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	653961	62904640	120880	4355	81520											
TPTE	7179	broad.mit.edu	37	chr21	10916386	10916386	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacgaggaatcgaataaatAatgaagtgttttataaagag	18	12	9	2	2	0	2	0	1	0	1	1	5	0	3	0	1	1	1	0	1	10	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:10916386A>G	uc002yip.1	-	20	1628	c.1260T>C	c.(1258-1260)ATT>ATC	p.I420I	TPTE_uc002yis.1_Intron|TPTE_uc002yiq.1_Silent_p.I402I|TPTE_uc002yir.1_Silent_p.I382I|TPTE_uc010gkv.1_Silent_p.I282I	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	420	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TCGAATAAATAATGAAGTGTT	0.383													17	194					0	0	1	0	0		G	10916386	G	G	10916386	2	3	151	1	0	0	0	0	0	0	0	1	16456	358	13	3		3	TPTE	21	10916386	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08		10916386	37213509	4356	81521											
TPTE	7179	broad.mit.edu	37	chr21	10971316	10971316	+	Missense_Mutation	SNP	A	C	C	1	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	cattggggccgagctcaatgAtgactcccgccaggtcagtc	8	8	12	13	2	2	2	2	2	0	0	4	3	3	2	3	3	1	1	3	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:10971316A>C	uc002yip.1	-	5	409	c.41T>G	c.(40-42)ATC>AGC	p.I14S	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.I14S|TPTE_uc002yir.1_Missense_Mutation_p.I14S|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	14					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GAGCTCAATGATGACTCCCGC	0.323													5	56					0	0	1	0	0		C	10971316	C	C	10971316	3	2	151	1	0	0	0	0	1	0	0	0	16456	333	12	5	1694	5	TPTE	21	10971316	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	54930	10971316	37158579	4357	81522											
HSPA13	6782	broad.mit.edu	37	chr21	15746385	15746385	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggcagttcagtgtcactActgtgaggttccttcctgtc	5	16	10	10	0	2	1	2	1	0	0	5	1	4	1	2	2	1	3	2	2	1	5	rs138306035	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:15746385A>G	uc002yjt.2	-	5	1038	c.969T>C	c.(967-969)AGT>AGC	p.S323S	HSPA13_uc011abx.1_Silent_p.S115S	NM_006948	NP_008879	P48723	HSP13_HUMAN	heat shock protein 70kDa family member 13	323						endoplasmic reticulum|microsome	ATP binding			kidney(1)	1						CAGTGTCACTACTGTGAGGTT	0.448													21	90					0	0	1	0	0		G	15746385	G	G	15746385	2	3	151	1	0	0	0	0	0	0	0	1	7422	388	14	3		3	HSPA13	21	15746385	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4775069	15746385	32383510	4358	81523											
USP25	29761	broad.mit.edu	37	chr21	17191087	17191087	+	Silent	SNP	T	C	C	0	1	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	aatgggttcaaagatctgcaTgagtgcctagaagctgcaat	13	10	11	7	0	2	3	1	1	1	2	2	3	2	3	1	1	4	4	1	1	5	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:17191087T>C	uc002yjy.1	+	10	1219	c.1002T>C	c.(1000-1002)CAT>CAC	p.H334H	USP25_uc011aby.1_Silent_p.H334H|USP25_uc002yjz.1_Silent_p.H334H|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	334					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		AAGATCTGCATGAGTGCCTAG	0.358													37	187					0	0	1	0	0		C	17191087	C	C	17191087	2	2	151	1	0	0	0	0	0	0	0	1	17082	1461	51	3		3	USP25	21	17191087	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1444702	17191087	30938808	4359	81524											
TMPRSS15	5651	broad.mit.edu	37	chr21	19666595	19666595	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcacactcacccatacacGcagtgtgcggcggacaccag	11	5	9	16	3	2	0	2	0	0	0	2	1	2	1	2	2	2	1	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:19666595G>A	uc002ykw.2	-	21	2509	c.2478C>T	c.(2476-2478)TGC>TGT	p.C826C		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	826	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						ACCCATACACGCAGTGTGCGG	0.582													16	66					0	0	1	0	0		A	19666595	A	A	19666595	2	1	151	1	0	0	0	0	0	0	0	1	16271	1079	38	1		1	TMPRSS15	21	19666595	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2475508	19666595	28463300	4360	81525											
GABPA	2551	broad.mit.edu	37	chr21	27136558	27136558	+	Silent	SNP	A	G	G	1	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	gcatcagtgcaatctgctacAcctactaccattaaagttat	13	12	5	11	0	2	0	1	0	1	0	2	0	2	0	2	0	5	4	2	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:27136558A>G	uc002ylx.3	+	8	1367	c.840A>G	c.(838-840)ACA>ACG	p.T280T	GABPA_uc002yly.3_Silent_p.T280T	NM_002040	NP_002031	Q06546	GABPA_HUMAN	GA binding protein transcription factor, alpha	280					positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding			ovary(1)|central_nervous_system(1)	2						AATCTGCTACACCTACTACCA	0.383													14	92					0	0	1	0	0		G	27136558	G	G	27136558	2	3	151	1	0	0	0	0	0	0	0	1	6171	146	6	3		3	GABPA	21	27136558	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7469963	27136558	20993337	4361	81526											
CYYR1	116159	broad.mit.edu	37	chr21	27938613	27938613	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcccaatataagcgtagtAggagcaacagtagggcgtgg	13	8	13	7	2	0	0	0	0	0	0	1	1	1	1	1	3	3	4	1	3	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:27938613A>T	uc002ymd.2	-	2	470	c.148T>A	c.(148-150)TAC>AAC	p.Y50N	CYYR1_uc011ack.1_RNA|CYYR1_uc002yme.2_Missense_Mutation_p.Y50N	NM_052954	NP_443186	Q96J86	CYYR1_HUMAN	cysteine and tyrosine-rich 1 protein precursor	50	Extracellular (Potential).					integral to membrane					0						TAAGCGTAGTAGGAGCAACAG	0.423													7	43					0	0	1	0	0		T	27938613	T	T	27938613	3	4	151	1	0	0	0	0	1	0	0	0	4214	420	15	5	328	5	CYYR1	21	27938613	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	802055	27938613	20191282	4362	81527											
ADAMTS5	11096	broad.mit.edu	37	chr21	28315800	28315800	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggaagacattaagcgcttaTcttctgtggaaccaaaggtc	12	11	10	8	1	2	1	0	0	2	1	3	3	2	3	1	3	2	1	1	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:28315800T>C	uc002ymg.2	-	3	2033	c.1304A>G	c.(1303-1305)GAT>GGT	p.D435G		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	435	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TAAGCGCTTATCTTCTGTGGA	0.453													9	40					0	0	1	0	0		C	28315800	C	C	28315800	3	2	151	1	0	0	0	0	1	0	0	0	269	1435	50	3	1512	3	ADAMTS5	21	28315800	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	377187	28315800	19814095	4363	81528											
ADAMTS5	11096	broad.mit.edu	37	chr21	28338270	28338270	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgtcgagacccccacagagGtcaaagacagccagagagcg	13	2	12	14	3	1	4	1	0	0	4	2	6	1	4	4	1	2	0	4	1	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:28338270G>A	uc002ymg.2	-	1	1170	c.441C>T	c.(439-441)GAC>GAT	p.D147D		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	147					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CCCCACAGAGGTCAAAGACAG	0.677													9	15					0	0	1	0	0		A	28338270	A	A	28338270	2	1	151	1	0	0	0	0	0	0	0	1	269	1252	44	4		4	ADAMTS5	21	28338270	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	22470	28338270	19791625	4364	81529											
RWDD2B	10069	broad.mit.edu	37	chr21	30380115	30380115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcacaggcactttgtgggCcttccacacaaacaacacca	12	8	6	15	0	1	0	1	0	0	0	2	0	2	0	3	2	2	1	3	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:30380115C>T	uc002yms.2	-	4	779	c.692G>A	c.(691-693)GGC>GAC	p.G231D	RWDD2B_uc002ymt.2_Missense_Mutation_p.G202D|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_Missense_Mutation_p.G151D	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	231											0						ACTTTGTGGGCCTTCCACACA	0.363													33	132					0	0	1	0	0		T	30380115	T	T	30380115	3	4	151	1	0	0	0	0	1	0	0	0	13781	739	26	2	275	2	RWDD2B	21	30380115	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2041845	30380115	17749780	4365	81530											
RWDD2B	10069	broad.mit.edu	37	chr21	30380209	30380209	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatattctttcttttgcattTgttatagatatgatggctgt	9	21	7	4	0	2	2	0	1	2	1	2	2	2	2	0	1	1	3	0	1	5	9			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:30380209T>C	uc002yms.2	-	4	685	c.598A>G	c.(598-600)AAA>GAA	p.K200E	RWDD2B_uc002ymt.2_Missense_Mutation_p.K171E|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_Missense_Mutation_p.K120E	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	200											0						CTTTTGCATTTGTTATAGATA	0.463													41	169					0	0	1	0	0		C	30380209	C	C	30380209	3	2	151	1	0	0	0	0	1	0	0	0	13781	1821	63	3	369	3	RWDD2B	21	30380209	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	94	30380209	17749686	4366	81531											
BACH1	571	broad.mit.edu	37	chr21	30693734	30693734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttgtggagggacagcggTtccgcgctcaccggtccgtg	4	10	15	12	5	2	0	1	0	1	0	4	2	4	2	3	4	1	2	3	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:30693734T>C	uc002ynj.2	+	2	248	c.133T>C	c.(133-135)TTC>CTC	p.F45L	BACH1_uc002ynk.2_Missense_Mutation_p.F45L|BACH1_uc002ynl.2_RNA	NM_001186	NP_001177	O14867	BACH1_HUMAN	BTB and CNC homology 1 transcription factor	45	BTB.					nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|liver(1)	2						GGGACAGCGGTTCCGCGCTCA	0.517													8	152					0	0	1	0	0		C	30693734	C	C	30693734	3	2	151	1	0	0	0	0	1	0	0	0	1284	1725	60	3	135	3	BACH1	21	30693734	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	313525	30693734	17436161	4367	81532											
GRIK1	2897	broad.mit.edu	37	chr21	30961219	30961219	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcattctgggccccataTttgccatcgggaactagttt	7	15	9	10	1	2	0	1	0	1	0	3	1	2	1	3	2	2	1	3	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:30961219T>C	uc002yno.1	-	11	1973	c.1509A>G	c.(1507-1509)AAA>AAG	p.K503K	GRIK1_uc002ynn.2_Silent_p.K488K|GRIK1_uc011acs.1_Silent_p.K503K|GRIK1_uc011act.1_Intron|GRIK1_uc010glq.1_Silent_p.K346K	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	503	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GGGCCCCATATTTGCCATCGG	0.373													7	308					0	0	1	0	0		C	30961219	C	C	30961219	2	2	151	1	0	0	0	0	0	0	0	1	6789	1490	52	3		3	GRIK1	21	30961219	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	267485	30961219	17168676	4368	81533											
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654914	31654914	+	Missense_Mutation	SNP	T	A	A	0	1	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	gctgcagctggggctggggcTgacgttggtagtttcacaga	6	10	17	8	1	1	2	1	1	0	1	1	2	1	2	0	5	2	8	0	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:31654914T>A	uc002ynv.2	-	1	363	c.337A>T	c.(337-339)AGC>TGC	p.S113C		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	113						keratin filament	structural molecule activity				0						gggctggggctgacgttggTA	0.408													17	79					0	0	1	0	0		A	31654914	A	A	31654914	3	1	151	1	0	0	0	0	1	0	0	0	8558	1580	55	5	431	5	KRTAP24-1	21	31654914	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	693695	31654914	16474981	4369	81534											
KRTAP21-2	337978	broad.mit.edu	37	chr21	32119274	32119274	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacctgtagtgatgattagtAgcaagaggaatagcatcttc	13	11	11	6	0	1	3	0	2	1	1	2	5	1	4	1	1	2	4	1	1	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:32119274A>G	uc011adh.1	-	1	247	c.247T>C	c.(247-249)TAC>CAC	p.Y83H		NM_181617	NP_853648	Q3LI59	KR212_HUMAN	keratin associated protein 21-2	83						intermediate filament					0						GATGATTAGTAGCAAGAGGAA	0.343													34	176					0	0	1	0	0		G	32119274	G	G	32119274	3	3	151	1	0	0	0	0	1	0	0	0	8555	420	15	3	6	3	KRTAP21-2	21	32119274	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	464360	32119274	16010621	4370	81535											
SFRS15	57466	broad.mit.edu	37	chr21	33057462	33057462	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgctgtcaccagactcGgcgtttcctctagccccaga	7	10	8	16	3	3	2	2	0	1	2	5	2	4	2	4	1	1	2	4	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:33057462G>A	uc002ypd.2	-	19	2814	c.2388C>T	c.(2386-2388)GCC>GCT	p.A796A	SFRS15_uc002ype.2_Silent_p.A774A|SFRS15_uc010glu.2_Silent_p.A781A|SFRS15_uc002ypf.1_Silent_p.A470A	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	796						nucleus	nucleotide binding|RNA binding				0						CACCAGACTCGGCGTTTCCTC	0.498													24	91					0	0	1	0	0		A	33057462	A	A	33057462	2	1	151	1	0	0	0	0	0	0	0	1	14196	1103	39	1		1	SFRS15	21	33057462	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	938188	33057462	15072433	4371	81536											
HUNK	30811	broad.mit.edu	37	chr21	33346910	33346910	+	Missense_Mutation	SNP	A	G	G	1	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	cgagcgtcgtgctgcacatgAccgagaagctgggttacaag	10	7	14	10	4	0	2	0	1	0	1	1	4	0	2	1	1	5	4	1	1	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:33346910A>G	uc002yph.2	+	7	1414	c.1054A>G	c.(1054-1056)ACC>GCC	p.T352A		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	352					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						GCTGCACATGACCGAGAAGCT	0.557													33	113					0	0	1	0	0		G	33346910	G	G	33346910	3	3	151	1	0	0	0	0	1	0	0	0	7474	275	10	3	1080	3	HUNK	21	33346910	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	289448	33346910	14782985	4372	81537											
MRAP	56246	broad.mit.edu	37	chr21	33686877	33686877	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagctttaacacagatgaAtctcttctgcattcagaagt	12	14	6	9	0	4	3	2	1	2	2	5	3	4	3	0	0	3	2	0	0	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:33686877A>G	uc002ypk.2	+	5	409	c.222A>G	c.(220-222)GAA>GAG	p.E74E	URB1_uc002ypn.2_3'UTR	NM_206898	NP_996781	Q8TCY5	MRAP_HUMAN	melanocortin 2 receptor accessory protein	Error:Variant_position_missing_in_Q8TCY5_after_alignment					positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|integral to membrane|perinuclear region of cytoplasm|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding				0						ACACAGATGAATCTCTTCTGC	0.388													24	93					0	0	1	0	0		G	33686877	G	G	33686877	2	3	151	1	0	0	0	0	0	0	0	1	9771	98	4	3		3	MRAP	21	33686877	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	339967	33686877	14443018	4373	81538											
C21orf59	56683	broad.mit.edu	37	chr21	33976433	33976433	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacccactcacaaactacgtAcctgtgttcccgacaagtct	11	10	5	15	2	2	0	1	0	1	0	3	1	3	0	3	0	4	2	3	0	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:33976433A>G	uc002yqc.2	-	4	647	c.534_splice	c.e4+1	p.Q178_splice	C21orf59_uc002ypx.1_Splice_Site_p.Q71_splice|C21orf59_uc002ypy.1_Splice_Site_p.Q178_splice|C21orf59_uc002ypz.1_Splice_Site_p.Q178_splice|C21orf59_uc010glx.2_Splice_Site_p.Q79_splice|C21orf59_uc002yqd.2_Splice_Site_p.Q178_splice|C21orf59_uc002yqa.3_Intron|C21orf59_uc002yqb.3_Splice_Site_p.Q178_splice|C21orf59_uc011adr.1_Splice_Site_p.Q122_splice	NM_021254	NP_067077	P57076	CU059_HUMAN	hypothetical protein LOC56683							cytosol|nucleus					0						CAAACTACGTACCTGTGTTCC	0.507													27	87					0	0	1	0	0		G	33976433	G	G	33976433	5	3	151	1	0	0	0	0	0	0	1	0	2133	405	14	3	352	3	C21orf59	21	33976433	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	289556	33976433	14153462	4374	81539											
GART	2618	broad.mit.edu	37	chr21	34876757	34876757	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccagtaactgtgactcCggtttccagggcttgctcat	7	11	10	13	1	1	1	1	1	0	0	3	1	3	1	3	2	2	5	3	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:34876757C>T	uc002yrx.2	-	21	2938	c.2803G>A	c.(2803-2805)GGA>AGA	p.G935R	GART_uc002yrz.2_Missense_Mutation_p.G935R|GART_uc010gmd.2_Missense_Mutation_p.G597R|GART_uc002yry.2_Missense_Mutation_p.G935R	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	935	GART.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	ACTGTGACTCCGGTTTCCAGG	0.398													34	158					0	0	1	0	0		T	34876757	T	T	34876757	3	4	151	1	0	0	0	0	1	0	0	0	6258	661	23	1	237	1	GART	21	34876757	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	900324	34876757	13253138	4375	81540											
SON	6651	broad.mit.edu	37	chr21	34922190	34922190	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaactgtcagttgtatCtacatcagtaatctcagagc	12	12	8	9	0	4	2	3	0	2	2	5	2	4	2	0	0	4	4	0	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:34922190C>A	uc002yse.1	+	3	702	c.653C>A	c.(652-654)TCT>TAT	p.S218Y	SON_uc002ysb.1_Missense_Mutation_p.S218Y|SON_uc002ysc.2_Missense_Mutation_p.S218Y|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	218					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						TCAGTTGTATCTACATCAGTA	0.458											OREG0003564	type=REGULATORY REGION|Gene=AK074269|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	68	172					3.94896e-32	4.14347e-32	1	1	0		A	34922190	A	A	34922190	3	1	151	1	0	0	0	0	1	0	0	0	14951	913	32	5	663	5	SON	21	34922190	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	45433	34922190	13207705	4376	81541											
SON	6651	broad.mit.edu	37	chr21	34927628	34927628	+	Missense_Mutation	SNP	T	C	C	0	1	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	taagaagaaggtttagcagaTctcccatccgtcgtaaaaga	15	9	9	8	2	1	4	0	0	1	4	4	4	2	4	2	1	1	3	2	1	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:34927628T>C	uc002yse.1	+	3	6140	c.6091T>C	c.(6091-6093)TCT>CCT	p.S2031P	SON_uc002ysb.1_Missense_Mutation_p.S2031P|SON_uc002ysc.2_Missense_Mutation_p.S2031P|SON_uc002ysd.2_Missense_Mutation_p.S1022P|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Missense_Mutation_p.S1022P	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	2031	3 X tandem repeats of [ST]-P-[VLI]-R- [RL]-[RK]-[RF]-S-R.				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						GTTTAGCAGATCTCCCATCCG	0.433													17	101					0	0	1	0	0		C	34927628	C	C	34927628	3	2	151	1	0	0	0	0	1	0	0	0	14951	1435	50	3	6101	3	SON	21	34927628	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5438	34927628	13202267	4377	81542											
SON	6651	broad.mit.edu	37	chr21	34931991	34931991	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcggaaaaaagaagcggaTagtgtttatggagaatgggt	15	9	14	3	2	0	2	0	0	0	2	1	5	0	4	0	4	1	1	0	4	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:34931991T>C	uc002yse.1	+	6	6616	c.6567T>C	c.(6565-6567)GAT>GAC	p.D2189D	SON_uc002ysc.2_Silent_p.D2189D|SON_uc002ysd.2_Silent_p.D1180D|SON_uc002ysf.1_Silent_p.D217D|SON_uc002ysg.2_Silent_p.D1180D	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	2189					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AAGAAGCGGATAGTGTTTATG	0.398													43	143					0	0	1	0	0		C	34931991	C	C	34931991	2	2	151	1	0	0	0	0	0	0	0	1	14951	1403	49	3		3	SON	21	34931991	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4363	34931991	13197904	4378	81543											
MRPS6	64968	broad.mit.edu	37	chr21	35497669	35497669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctactttgaaacgtaCgatagaggccctgatggaca	11	10	11	9	2	0	3	0	2	0	1	0	5	0	4	1	2	5	3	1	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:35497669C>T	uc002ytp.2	+	2	252	c.74C>T	c.(73-75)ACG>ATG	p.T25M		NM_032476	NP_115865	P82932	RT06_HUMAN	mitochondrial ribosomal protein S6	25					translation	mitochondrion|small ribosomal subunit	rRNA binding|structural constituent of ribosome			skin(1)	1						TTGAAACGTACGATAGAGGCC	0.423													33	178					0	0	1	0	0		T	35497669	T	T	35497669	3	4	151	1	0	0	0	0	1	0	0	0	9865	536	19	1	80	1	MRPS6	21	35497669	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	565678	35497669	12632226	4379	81544											
CBR3	874	broad.mit.edu	37	chr21	37507591	37507591	+	Missense_Mutation	SNP	T	C	C	0	1	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	acagttctctggggatgtggTgctcaccgcgcgggacgtgg	5	9	17	10	4	2	0	1	0	1	0	3	2	2	2	1	5	1	2	1	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:37507591T>C	uc002yve.2	+	1	329	c.101T>C	c.(100-102)GTG>GCG	p.V34A	uc002yvc.1_Intron|uc002yvd.1_Intron	NM_001236	NP_001227	O75828	CBR3_HUMAN	carbonyl reductase 3	34	NADP.					cytosol|nucleus	carbonyl reductase (NADPH) activity|NADPH binding				0						GGGGATGTGGTGCTCACCGCG	0.706													3	15					0	0	1	0	0		C	37507591	C	C	37507591	3	2	151	1	0	0	0	0	1	0	0	0	2712	1696	59	3	103	3	CBR3	21	37507591	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2009922	37507591	10622304	4380	81545											
TTC3	7267	broad.mit.edu	37	chr21	38538528	38538528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgccagcatacataaacGtgttaccaggtttgccccag	11	8	8	14	2	0	0	0	0	0	0	0	0	0	0	5	1	5	3	5	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:38538528G>A	uc002yvz.2	+	33	4117	c.4012G>A	c.(4012-4014)GTG>ATG	p.V1338M	TTC3_uc011aee.1_Missense_Mutation_p.V1028M|TTC3_uc002ywa.2_Missense_Mutation_p.V1338M|TTC3_uc002ywb.2_Missense_Mutation_p.V1338M|TTC3_uc010gnf.2_Missense_Mutation_p.V1103M|TTC3_uc002ywc.2_Missense_Mutation_p.V1028M|TTC3_uc002ywd.1_Missense_Mutation_p.V402M	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1338					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				ATACATAAACGTGTTACCAGG	0.468													44	225					0	0	1	0	0		A	38538528	A	A	38538528	3	1	151	1	0	0	0	0	1	0	0	0	16723	1145	40	1	4138	1	TTC3	21	38538528	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1030937	38538528	9591367	4381	81546											
TTC3	7267	broad.mit.edu	37	chr21	38538886	38538886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcaccagtgcagtaacaaAcattccacacgtgcagatgg	15	6	9	11	1	0	1	0	0	0	1	1	1	1	1	2	1	5	4	2	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:38538886A>G	uc002yvz.2	+	33	4475	c.4370A>G	c.(4369-4371)AAC>AGC	p.N1457S	TTC3_uc011aee.1_Missense_Mutation_p.N1147S|TTC3_uc002ywa.2_Missense_Mutation_p.N1457S|TTC3_uc002ywb.2_Missense_Mutation_p.N1457S|TTC3_uc010gnf.2_Missense_Mutation_p.N1222S|TTC3_uc002ywc.2_Missense_Mutation_p.N1147S|TTC3_uc002ywd.1_Missense_Mutation_p.N521S	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1457					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				GCAGTAACAAACATTCCACAC	0.368													12	71					0	0	1	0	0		G	38538886	G	G	38538886	3	3	151	1	0	0	0	0	1	0	0	0	16723	43	2	3	4496	3	TTC3	21	38538886	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	358	38538886	9591009	4382	81547											
DYRK1A	1859	broad.mit.edu	37	chr21	38862610	38862610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacctaacacgaaagtttgcGcaacagatgtgcactgcact	14	8	8	11	2	0	1	0	0	0	1	0	2	0	1	1	0	6	4	1	0	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:38862610G>A	uc002ywk.2	+	6	873	c.798G>A	c.(796-798)GCG>GCA	p.A266A	DYRK1A_uc002ywi.2_Silent_p.A266A|DYRK1A_uc002ywj.2_Silent_p.A257A|DYRK1A_uc002ywl.2_Silent_p.A266A|DYRK1A_uc002ywm.2_Silent_p.A266A|DYRK1A_uc011aei.1_Silent_p.A27A	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	266	Protein kinase.			A -> V (in Ref. 6; CAA05059).	nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						GAAAGTTTGCGCAACAGATGT	0.413													39	133					0	0	1	0	0		A	38862610	A	A	38862610	2	1	151	1	0	0	0	0	0	0	0	1	4860	1074	38	1		1	DYRK1A	21	38862610	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	323724	38862610	9267285	4383	81548											
KCNJ15	3772	broad.mit.edu	37	chr21	39671704	39671704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcgccagacccaaaaagcGggctgagaccatcaagttca	15	5	9	12	2	2	2	2	1	0	2	3	3	2	2	3	1	1	2	3	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:39671704G>A	uc002ywv.2	+	4	823	c.521G>A	c.(520-522)CGG>CAG	p.R174Q	KCNJ15_uc002yww.2_Missense_Mutation_p.R174Q|KCNJ15_uc002ywx.2_Missense_Mutation_p.R174Q	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	174	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						CCCAAAAAGCGGGCTGAGACC	0.507													19	85					0	0	1	0	0		A	39671704	A	A	39671704	3	1	151	1	0	0	0	0	1	0	0	0	8065	1116	39	1	523	1	KCNJ15	21	39671704	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	809094	39671704	8458191	4384	81549											
BRWD1	54014	broad.mit.edu	37	chr21	40578152	40578152	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaaatcagaagagattttctTcattttttcttcaaataagg	15	16	5	5	0	5	2	3	0	2	2	5	3	5	2	0	1	0	0	0	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:40578152T>C	uc002yxk.1	-	37	4385	c.4246A>G	c.(4246-4248)AAG>GAG	p.K1416E	BRWD1_uc010goc.1_Missense_Mutation_p.K59E|BRWD1_uc002yxl.2_Missense_Mutation_p.K1416E|BRWD1_uc010god.1_Missense_Mutation_p.K334E	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1416					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GAGATTTTCTTCATTTTTTCT	0.303													35	118					0	0	1	0	0		C	40578152	C	C	40578152	3	2	151	1	0	0	0	0	1	0	0	0	1528	1792	62	3	2979	3	BRWD1	21	40578152	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	906448	40578152	7551743	4385	81550											
DSCAM	1826	broad.mit.edu	37	chr21	41457677	41457677	+	Silent	SNP	A	G	G	1	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	cgcccatcaatcgttactagActgggtgtcccgttactgcc	7	11	9	14	3	1	1	1	0	0	1	3	1	2	1	3	1	3	2	3	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:41457677A>G	uc002yyq.1	-	23	4436	c.3984T>C	c.(3982-3984)AGT>AGC	p.S1328S	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1328	Extracellular (Potential).|Ig-like C2-type 10.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TCGTTACTAGACTGGGTGTCC	0.453													23	91					0	0	1	0	0		G	41457677	G	G	41457677	2	3	151	1	0	0	0	0	0	0	0	1	4774	272	10	3		3	DSCAM	21	41457677	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	879525	41457677	6672218	4386	81551											
FAM3B	54097	broad.mit.edu	37	chr21	42710359	42710359	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactccctgcccatctgacaCctatgcctacaggttactca	9	10	6	16	0	2	1	1	1	1	0	3	2	3	1	4	1	4	1	4	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:42710359C>G	uc002yzb.1	+	3	364	c.218C>G	c.(217-219)ACC>AGC	p.T73S	FAM3B_uc002yza.2_RNA|FAM3B_uc002yzc.1_Missense_Mutation_p.T25S|FAM3B_uc002yzd.1_Missense_Mutation_p.T96S|FAM3B_uc011aeq.1_Missense_Mutation_p.T87S	NM_058186	NP_478066	P58499	FAM3B_HUMAN	family with sequence similarity 3, member B	73					apoptosis|insulin secretion	extracellular space	cytokine activity				0		Prostate(19;1.57e-07)|all_epithelial(19;0.0404)				CCATCTGACACCTATGCCTAC	0.443													24	123					0	0	1	0	0		G	42710359	G	G	42710359	3	3	151	1	0	0	0	0	1	0	0	0	5571	507	18	5	228	5	FAM3B	21	42710359	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1252682	42710359	5419536	4387	81552											
MX2	4600	broad.mit.edu	37	chr21	42780121	42780121	+	Silent	SNP	A	G	G	1	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	taccggctcactcaggcgcgAcacgcactctgtcaattctc	8	9	8	16	4	5	0	3	0	2	0	6	1	5	0	1	2	1	2	1	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:42780121A>G	uc002yzf.1	+	14	2213	c.2109A>G	c.(2107-2109)CGA>CGG	p.R703R	MX2_uc002yzg.1_Silent_p.R426R|MX2_uc010gop.1_Silent_p.R185R	NM_002463	NP_002454	P20592	MX2_HUMAN	myxovirus resistance protein 2	703	GED.				response to virus|type I interferon-mediated signaling pathway	cytoplasm|nucleus	GTP binding|GTPase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				CTCAGGCGCGACACGCACTCT	0.498													10	82					0	0	1	0	0		G	42780121	G	G	42780121	2	3	151	1	0	0	0	0	0	0	0	1	10016	262	10	3		3	MX2	21	42780121	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	69762	42780121	5349774	4388	81553											
RIPK4	54101	broad.mit.edu	37	chr21	43161503	43161503	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggatgcgggccacgcggTagtgcccgcgctgtgcggcc	4	6	18	13	6	0	1	0	1	0	0	0	2	0	2	3	4	3	2	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:43161503T>C	uc002yzn.1	-	8	1898	c.1850A>G	c.(1849-1851)TAC>TGC	p.Y617C		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	617						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						GGCCACGCGGTAGTGCCCGCG	0.687													17	90					0	0	1	0	0		C	43161503	C	C	43161503	3	2	151	1	0	0	0	0	1	0	0	0	13408	1638	57	3	508	3	RIPK4	21	43161503	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	381382	43161503	4968392	4389	81554											
RIPK4	54101	broad.mit.edu	37	chr21	43169342	43169342	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcttctgtgtgagcacGccccagatgacgatcgcaaa	9	9	11	12	3	2	3	0	2	2	1	3	4	2	3	2	1	1	3	2	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:43169342G>A	uc002yzn.1	-	4	693	c.645C>T	c.(643-645)GGC>GGT	p.G215G		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	215						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						GTGTGAGCACGCCCCAGATGA	0.517													7	26					0	0	1	0	0		A	43169342	A	A	43169342	2	1	151	1	0	0	0	0	0	0	0	1	13408	1074	38	1		1	RIPK4	21	43169342	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	7839	43169342	4960553	4390	81555											
PKNOX1	5316	broad.mit.edu	37	chr21	44448901	44448901	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagaaaaaaactgctcagaAccggccagttcagaggtttt	16	8	9	8	1	2	3	2	0	0	3	2	3	2	3	2	2	3	3	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:44448901A>G	uc002zcq.1	+	10	1204	c.1016A>G	c.(1015-1017)AAC>AGC	p.N339S	PKNOX1_uc002zcp.1_Missense_Mutation_p.N339S|PKNOX1_uc011aex.1_Missense_Mutation_p.N222S	NM_004571	NP_004562	P55347	PKNX1_HUMAN	PBX/knotted 1 homeobox 1	339							sequence-specific DNA binding			large_intestine(2)	2						ACTGCTCAGAACCGGCCAGTT	0.512													8	291					0	0	1	0	0		G	44448901	G	G	44448901	3	3	151	1	0	0	0	0	1	0	0	0	12001	43	2	3	1050	3	PKNOX1	21	44448901	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1279559	44448901	3680994	4391	81556											
SIK1	150094	broad.mit.edu	37	chr21	44840207	44840207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggaggtgtagctgtgtgcGgagaaggcggggcaggcggg	6	7	23	5	3	0	1	0	0	0	1	0	3	0	2	0	8	2	3	0	8	2	2	rs138160311	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:44840207G>A	uc002zdf.2	-	8	1006	c.879C>T	c.(877-879)TCC>TCT	p.S293S		NM_173354	NP_775490	P57059	SIK1_HUMAN	salt-inducible kinase 1	293					anoikis|cell cycle|cell differentiation|intracellular protein kinase cascade|multicellular organismal development|regulation of cell differentiation|regulation of mitotic cell cycle	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|testis(2)|ovary(1)|central_nervous_system(1)|skin(1)	7						AGCTGTGTGCGGAGAAGGCGG	0.692													7	19					0	0	1	0	0		A	44840207	A	A	44840207	2	1	151	1	0	0	0	0	0	0	0	1	14342	1103	39	1		1	SIK1	21	44840207	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	391306	44840207	3289688	4392	81557											
HSF2BP	11077	broad.mit.edu	37	chr21	45050308	45050308	+	Missense_Mutation	SNP	T	C	C	0	1	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	actctccattgtttgaccagTgatgctgaaaaacttcaaag	13	12	7	9	0	2	3	1	3	1	0	3	3	2	3	2	0	2	2	2	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:45050308T>C	uc002zdi.2	-	6	801	c.469A>G	c.(469-471)ACT>GCT	p.T157A	HSF2BP_uc011aey.1_Missense_Mutation_p.T82A	NM_007031	NP_008962	O75031	HSF2B_HUMAN	heat shock transcription factor 2 binding	157					spermatogenesis|transcription from RNA polymerase II promoter	cytosol	binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.18)		GTTTGACCAGTGATGCTGAAA	0.388													13	74					0	0	1	0	0		C	45050308	C	C	45050308	3	2	151	1	0	0	0	0	1	0	0	0	7413	1696	59	3	551	3	HSF2BP	21	45050308	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	210101	45050308	3079587	4393	81558											
PDXK	8566	broad.mit.edu	37	chr21	45163690	45163690	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccccaggctggtgtacggTaggcaggggcccaccctcgg	7	5	15	14	2	0	0	0	0	0	0	1	0	0	0	4	7	2	4	4	7	3	2	rs111245794		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:45163690T>C	uc002zdm.3	+	4	529	c.331_splice	c.e4+2	p.V111_splice	PDXK_uc010gpj.2_Splice_Site_p.V111_splice|PDXK_uc002zdn.3_Intron|PDXK_uc002zdq.3_Splice_Site_p.V38_splice	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase						cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)	TGGTGTACGGTAGGCAGGGGC	0.632													4	19					0	0	1	0	0		C	45163690	C	C	45163690	5	2	151	1	0	0	0	0	0	0	1	0	11716	1652	57	3	347	3	PDXK	21	45163690	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	113382	45163690	2966205	4394	81559											
TRAPPC10	7109	broad.mit.edu	37	chr21	45509730	45509730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtgtcgattgactgccCgtggtccatctactccacag	7	11	10	13	2	2	1	1	1	1	0	5	2	4	1	3	2	2	0	3	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:45509730C>T	uc002zea.2	+	18	2955	c.2786C>T	c.(2785-2787)CCG>CTG	p.P929L	TRAPPC10_uc010gpo.2_Missense_Mutation_p.P640L|TRAPPC10_uc011afa.1_Missense_Mutation_p.P307L|TRAPPC10_uc011afb.1_Missense_Mutation_p.P34L	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	929					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						ATTGACTGCCCGTGGTCCATC	0.592													6	39					0	0	1	0	0		T	45509730	T	T	45509730	3	4	151	1	0	0	0	0	1	0	0	0	16483	652	23	1	2856	1	TRAPPC10	21	45509730	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	346040	45509730	2620165	4395	81560											
C21orf29	54084	broad.mit.edu	37	chr21	45941907	45941907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaactcccagtcgtaggcGccggaggtggcgatggtctg	8	7	16	10	4	1	1	0	0	1	1	3	3	2	2	2	5	1	1	2	5	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:45941907G>A	uc002zfe.1	-	9	1491	c.1425C>T	c.(1423-1425)GGC>GGT	p.G475G	C21orf29_uc010gpv.1_Silent_p.G407G	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	475	EAR 4.				cell adhesion	extracellular region	structural molecule activity				0						AGTCGTAGGCGCCGGAGGTGG	0.602													53	183					0	0	1	0	0		A	45941907	A	A	45941907	2	1	151	1	0	0	0	0	0	0	0	1	2127	1074	38	1		1	C21orf29	21	45941907	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	432177	45941907	2187988	4396	81561											
KRTAP10-3	386682	broad.mit.edu	37	chr21	45978566	45978566	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaggagtcagagtaagcGctggagcagacggacatggt	11	6	16	8	2	1	2	1	0	0	2	1	5	1	5	1	4	3	3	1	4	1	1	rs144613025	by1000genomes	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:45978566G>A	uc002zfj.1	-	1	78	c.33C>T	c.(31-33)AGC>AGT	p.S11S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198696	NP_941969	P60369	KR103_HUMAN	keratin associated protein 10-3	11						keratin filament				skin(1)	1						CAGAGTAAGCGCTGGAGCAGA	0.577													12	28					0	0	1	0	0		A	45978566	A	A	45978566	2	1	151	1	0	0	0	0	0	0	0	1	8526	1078	38	1		1	KRTAP10-3	21	45978566	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	36659	45978566	2151329	4397	81562											
UBE2G2	7327	broad.mit.edu	37	chr21	46208000	46208000	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaattccttccggaggattCagtgttaattctataaaatt	13	15	6	7	1	2	0	1	0	1	0	4	2	4	2	2	2	0	1	2	2	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:46208000C>T	uc002zfy.2	-	2	129	c.54G>A	c.(52-54)CTG>CTA	p.L18L	UBE2G2_uc002zfx.2_5'UTR	NM_003343	NP_003334	P60604	UB2G2_HUMAN	ubiquitin-conjugating enzyme E2G 2 isoform 1	18					protein K48-linked ubiquitination	cytosol	ATP binding|protein binding|ubiquitin-protein ligase activity			breast(3)|central_nervous_system(1)	4				Colorectal(79;0.0638)		CCGGAGGATTCAGTGTTAATT	0.279													19	73					0	0	1	0	0		T	46208000	T	T	46208000	2	4	151	1	0	0	0	0	0	0	0	1	16883	813	29	4		4	UBE2G2	21	46208000	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	229434	46208000	1921895	4398	81563											
ITGB2	3689	broad.mit.edu	37	chr21	46323290	46323290	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctcaccaatgcggccGgactcggtgatctcgttgag	6	9	14	12	4	2	2	1	2	1	0	4	3	2	3	3	4	1	1	3	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:46323290G>A	uc002zgd.2	-	4	533	c.489C>T	c.(487-489)TCC>TCT	p.S163S	ITGB2_uc002zge.2_Silent_p.S163S|ITGB2_uc002zgf.3_Silent_p.S163S|ITGB2_uc011afl.1_Silent_p.S85S|ITGB2_uc010gpw.2_Intron|ITGB2_uc002zgg.2_Silent_p.S163S	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	163	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	CAATGCGGCCGGACTCGGTGA	0.597													18	76					0	0	1	0	0		A	46323290	A	A	46323290	2	1	151	1	0	0	0	0	0	0	0	1	7910	1103	39	1		1	ITGB2	21	46323290	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	115290	46323290	1806605	4399	81564			1	37		3	3	80	N	T_G	6.901205e-05
ITGB2	3689	broad.mit.edu	37	chr21	46323305	46323305	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggccggactcggtgatctcGttgagggcccggagcaggtc	5	7	17	12	5	1	2	0	2	1	0	4	4	1	4	2	6	1	2	2	6	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:46323305G>A	uc002zgd.2	-	4	518	c.474C>T	c.(472-474)AAC>AAT	p.N158N	ITGB2_uc002zge.2_Silent_p.N158N|ITGB2_uc002zgf.3_Silent_p.N158N|ITGB2_uc011afl.1_Silent_p.N80N|ITGB2_uc010gpw.2_Intron|ITGB2_uc002zgg.2_Silent_p.N158N	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	158	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	CGGTGATCTCGTTGAGGGCCC	0.592													19	89					0	0	1	0	0		A	46323305	A	A	46323305	2	1	151	1	0	0	0	0	0	0	0	1	7910	1136	40	1		1	ITGB2	21	46323305	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	15	46323305	1806590	4400	81565			1	37		3	3	80	N	T_G	6.901205e-05
ITGB2	3689	broad.mit.edu	37	chr21	46323369	46323369	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggtcatcaagcatggagTaggagaggtccatcagatag	13	8	14	6	0	3	3	3	1	0	2	4	5	4	4	1	4	1	2	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:46323369T>C	uc002zgd.2	-	4	454	c.410A>G	c.(409-411)TAC>TGC	p.Y137C	ITGB2_uc002zge.2_Missense_Mutation_p.Y137C|ITGB2_uc002zgf.3_Missense_Mutation_p.Y137C|ITGB2_uc011afl.1_Missense_Mutation_p.Y59C|ITGB2_uc010gpw.2_Intron|ITGB2_uc002zgg.2_Missense_Mutation_p.Y137C	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	137	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	AAGCATGGAGTAGGAGAGGTC	0.617													26	73					0	0	1	0	0		C	46323369	C	C	46323369	3	2	151	1	0	0	0	0	1	0	0	0	7910	1638	57	3	1947	3	ITGB2	21	46323369	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	64	46323369	1806526	4401	81566			1	37		3	3	80	N	T_G	6.901205e-05
MCM3AP	8888	broad.mit.edu	37	chr21	47676879	47676879	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggcgcctcagtttcttgcgGgctgtgacagcttccctcca	4	12	11	14	2	2	1	1	1	1	0	4	1	4	1	3	2	2	3	3	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:47676879G>A	uc002zir.1	-	17	3792	c.3756C>T	c.(3754-3756)GCC>GCT	p.A1252A	MCM3AP_uc002zip.1_5'UTR|MCM3AP_uc002ziq.1_Silent_p.A179A	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1252					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					GTTTCTTGCGGGCTGTGACAG	0.587													6	22					0	0	1	0	0		A	47676879	A	A	47676879	2	1	151	1	0	0	0	0	0	0	0	1	9406	1219	43	4		4	MCM3AP	21	47676879	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1353510	47676879	453016	4402	81567											
MCM3AP	8888	broad.mit.edu	37	chr21	47704983	47704983	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaggtttgggtgaaccctAatgtttgcactgaagaggaa	11	12	13	5	0	0	4	0	3	0	1	0	5	0	5	1	3	2	3	1	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:47704983A>G	uc002zir.1	-	1	254	c.218T>C	c.(217-219)TTA>TCA	p.L73S	C21orf57_uc002zit.1_5'Flank|C21orf57_uc002ziu.1_5'Flank|C21orf57_uc002ziv.2_5'Flank|C21orf57_uc002ziw.2_5'Flank|C21orf57_uc002zix.2_5'Flank|C21orf57_uc010gqh.2_5'Flank|C21orf57_uc002ziy.2_5'Flank	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	73					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					GGTGAACCCTAATGTTTGCAC	0.488													17	82					0	0	1	0	0		G	47704983	G	G	47704983	3	3	151	1	0	0	0	0	1	0	0	0	9406	372	13	3	5836	3	MCM3AP	21	47704983	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	28104	47704983	424912	4403	81568											
PCNT	5116	broad.mit.edu	37	chr21	47786508	47786508	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgccgcaggtttttagaGgaacgtaaagagatcaccga	12	10	12	7	3	1	2	1	0	0	2	1	5	1	3	2	2	2	4	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:47786508G>T	uc002zji.3	+	15	2726	c.2619G>T	c.(2617-2619)GAG>GAT	p.E873D	PCNT_uc002zjj.2_Missense_Mutation_p.E755D	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	873					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GGTTTTTAGAGGAACGTAAAG	0.512													17	84					0.00188189	0.00189655	1	1	0		T	47786508	T	T	47786508	3	4	151	1	0	0	0	0	1	0	0	0	11609	991	35	5	2677	5	PCNT	21	47786508	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	81525	47786508	343387	4404	81569											
PCNT	5116	broad.mit.edu	37	chr21	47822252	47822252	+	Missense_Mutation	SNP	A	G	G	1	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	gttttaatgaaaggttttggActtaaaagaacagctagaaa	17	12	9	3	0	0	3	0	1	0	2	0	4	0	4	0	2	2	3	0	2	7	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr21:47822252A>G	uc002zji.3	+	27	5077	c.4970A>G	c.(4969-4971)GAC>GGC	p.D1657G	PCNT_uc002zjj.2_Missense_Mutation_p.D1539G	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1657	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					AAGGTTTTGGACTTAAAAGAA	0.244													18	54					0	0	1	0	0		G	47822252	G	G	47822252	3	3	151	1	0	0	0	0	1	0	0	0	11609	275	10	3	5076	3	PCNT	21	47822252	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	35744	47822252	307643	4405	81570											
POTEH	23784	broad.mit.edu	37	chr22	16279249	16279249	+	Missense_Mutation	SNP	A	G	G	1	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	ttttcttgattaaaaatttcAccacttgctgtttttgctca	9	20	4	8	0	3	1	2	1	1	0	3	1	3	1	1	0	2	3	1	0	3	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:16279249A>G	uc010gqp.2	-	4	1026	c.974T>C	c.(973-975)GTG>GCG	p.V325A	POTEH_uc002zlg.1_RNA|POTEH_uc002zlh.1_Missense_Mutation_p.V44A|POTEH_uc002zlj.1_Missense_Mutation_p.V160A	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	325	ANK 5.									skin(1)	1						TAAAAATTTCACCACTTGCTG	0.328													29	523					0	0	1	0	0		G	16279249	G	G	16279249	3	3	151	1	0	0	0	0	1	0	0	0	12286	159	6	3	691	3	POTEH	22	16279249	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08		16279249	35025317	4406	81571											
IL17RA	23765	broad.mit.edu	37	chr22	17590314	17590314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcagcacccccatggcGtctcctgacctccttccaga	7	7	9	18	1	1	2	0	1	1	1	4	2	3	2	6	2	2	3	6	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:17590314G>A	uc002zly.2	+	13	2338	c.2205G>A	c.(2203-2205)GCG>GCA	p.A735A	IL17RA_uc010gqt.2_Silent_p.A683A	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	735	Cytoplasmic (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CCCCCATGGCGTCTCCTGACC	0.682													5	28					0	0	1	0	0		A	17590314	A	A	17590314	2	1	151	1	0	0	0	0	0	0	0	1	7655	1132	40	1		1	IL17RA	22	17590314	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1311065	17590314	33714252	4407	81572											
CECR5	27440	broad.mit.edu	37	chr22	17619200	17619200	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcgttgccttctgcaggTactggtggaacaggttggcg	6	11	15	9	2	1	0	0	0	1	0	1	1	1	1	1	5	5	4	1	5	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:17619200T>C	uc002zmf.2	-	8	1011	c.983A>G	c.(982-984)TAC>TGC	p.Y328C	CECR5_uc002zmd.2_Missense_Mutation_p.Y139C|CECR5_uc002zme.2_Missense_Mutation_p.Y120C|CECR5_uc002zmg.2_Missense_Mutation_p.Y128C|CECR5_uc002zmh.2_Missense_Mutation_p.Y298C	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	328							hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				CTTCTGCAGGTACTGGTGGAA	0.572													7	45					0	0	1	0	0		C	17619200	C	C	17619200	3	2	151	1	0	0	0	0	1	0	0	0	3210	1638	57	3	292	3	CECR5	22	17619200	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	28886	17619200	33685366	4408	81573											
CECR1	51816	broad.mit.edu	37	chr22	17670900	17670900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccattcggatggattctgCgatgacagccacatctttgg	8	11	12	10	2	2	1	0	1	2	0	3	4	2	3	2	4	2	0	2	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:17670900C>T	uc002zmk.1	-	5	1116	c.904G>A	c.(904-906)GCA>ACA	p.A302T	CECR1_uc010gqu.1_Missense_Mutation_p.A302T|CECR1_uc011agi.1_Missense_Mutation_p.A260T|CECR1_uc011agj.1_3'UTR|CECR1_uc002zmj.1_Missense_Mutation_p.A61T	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	302					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				ATGGATTCTGCGATGACAGCC	0.577													9	31					0	0	1	0	0		T	17670900	T	T	17670900	3	4	151	1	0	0	0	0	1	0	0	0	3208	768	27	1	651	1	CECR1	22	17670900	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	51700	17670900	33633666	4409	81574											
CECR1	51816	broad.mit.edu	37	chr22	17684503	17684503	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcacgttgtcctcgtagaActcctgcatgctccggaaga	9	9	11	12	3	0	2	0	0	0	2	4	4	3	3	3	1	4	5	3	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:17684503A>G	uc002zmk.1	-	3	915	c.703T>C	c.(703-705)TTC>CTC	p.F235L	CECR1_uc010gqu.1_Missense_Mutation_p.F235L|CECR1_uc011agi.1_Missense_Mutation_p.F193L|CECR1_uc011agj.1_Missense_Mutation_p.F193L	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	235					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				TCCTCGTAGAACTCCTGCATG	0.532													4	48					0	0	1	0	0		G	17684503	G	G	17684503	3	3	151	1	0	0	0	0	1	0	0	0	3208	43	2	3	894	3	CECR1	22	17684503	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	13603	17684503	33620063	4410	81575											
CECR2	27443	broad.mit.edu	37	chr22	18018207	18018207	+	Splice_Site	SNP	A	G	G	1	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	tttcttattttgtgatttacAgctttgagttggatgatgat	8	21	9	3	0	1	4	0	4	1	0	1	5	1	5	0	1	2	2	0	1	2	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:18018207A>G	uc010gqw.1	+	10	1299	c.1173_splice	c.e10-2	p.L391_splice	CECR2_uc010gqv.1_Splice_Site_p.L250_splice|CECR2_uc002zml.2_Splice_Site_p.L250_splice|CECR2_uc002zmn.2_Splice_Site_p.L10_splice	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2						chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		TGTGATTTACAGCTTTGAGTT	0.388													20	386					0	0	1	0	0		G	18018207	G	G	18018207	5	3	151	1	0	0	0	0	0	0	1	0	3209	202	7	3	1211	3	CECR2	22	18018207	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	333704	18018207	33286359	4411	81576											
SLC25A18	83733	broad.mit.edu	37	chr22	18070770	18070770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaacgagctcgccggtaagGcgtcctttgcacattccttc	7	11	9	14	4	1	0	1	0	0	0	5	1	3	0	3	2	3	3	3	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:18070770G>A	uc002zmp.1	+	9	1149	c.655G>A	c.(655-657)GCG>ACG	p.A219T	SLC25A18_uc010gqx.2_Missense_Mutation_p.A219T|SLC25A18_uc002zmq.1_Missense_Mutation_p.A219T	NM_031481	NP_113669	Q9H1K4	GHC2_HUMAN	solute carrier	219	Solcar 3.					integral to membrane|mitochondrial inner membrane	binding|symporter activity				0				Lung(27;0.124)	L-Glutamic Acid(DB00142)	CGCCGGTAAGGCGTCCTTTGC	0.527													32	82					0	0	1	0	0		A	18070770	A	A	18070770	3	1	151	1	0	0	0	0	1	0	0	0	14505	1203	42	2	681	2	SLC25A18	22	18070770	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	52563	18070770	33233796	4412	81577											
TUBA8	51807	broad.mit.edu	37	chr22	18613870	18613870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaagtggggactgattcGtttgaagaagaaaatgaagg	16	8	15	2	1	0	6	0	3	0	3	1	8	0	7	0	3	0	1	0	3	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:18613870G>A	uc002znv.1	+	5	1390	c.1317G>A	c.(1315-1317)TCG>TCA	p.S439S	TUBA8_uc002znr.2_Silent_p.S373S|TUBA8_uc002znw.1_Silent_p.S463S|TUBA8_uc002znx.1_Intron	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	439					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						GGACTGATTCGTTTGAAGAAG	0.433													17	82					0	0	1	0	0		A	18613870	A	A	18613870	2	1	151	1	0	0	0	0	0	0	0	1	16776	1132	40	1		1	TUBA8	22	18613870	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	543100	18613870	32690696	4413	81578											
USP18	11274	broad.mit.edu	37	chr22	18644674	18644674	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcggcccctggagctggcCtactgcctgcagaagtgcaa	7	7	14	13	1	0	1	0	0	0	1	0	2	0	2	4	3	6	3	4	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:18644674C>A	uc002zny.2	+	4	710	c.372C>A	c.(370-372)GCC>GCA	p.A124A		NM_017414	NP_059110	Q9UMW8	UBP18_HUMAN	ubiquitin specific protease 18	124					regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway|ubiquitin-dependent protein catabolic process	cytosol|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			breast(1)	1						TGGAGCTGGCCTACTGCCTGC	0.592													4	51					0.0215528	0.0216404	1	1	0		A	18644674	A	A	18644674	2	1	151	1	0	0	0	0	0	0	0	1	17075	668	24	5		5	USP18	22	18644674	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	30804	18644674	32659892	4414	81579											
DGCR2	9993	broad.mit.edu	37	chr22	19028790	19028790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccagggatcctgcggcCgaggttgaagtggtgcactg	9	7	16	9	2	0	1	0	1	0	0	1	3	1	2	3	4	3	2	3	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:19028790C>T	uc002zoq.1	-	9	1425	c.1177G>A	c.(1177-1179)GGC>AGC	p.G393S	DGCR2_uc002zor.1_Missense_Mutation_p.G169S|DGCR2_uc011agr.1_Missense_Mutation_p.G349S	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	393	Cytoplasmic (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					ATCCTGCGGCCGAGGTTGAAG	0.622													10	30					0	0	1	0	0		T	19028790	T	T	19028790	3	4	151	1	0	0	0	0	1	0	0	0	4467	652	23	1	483	1	DGCR2	22	19028790	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	384116	19028790	32275776	4415	81580											
CDC45	8318	broad.mit.edu	37	chr22	19470330	19470330	+	Missense_Mutation	SNP	A	G	G	1	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	ataggccagtcaatgtcgtcAatgtatacaacgatacccag	14	9	8	10	2	2	0	2	0	0	0	3	1	2	0	2	1	3	1	2	1	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:19470330A>G	uc002zpr.2	+	4	398	c.322A>G	c.(322-324)AAT>GAT	p.N108D	CDC45_uc011agz.1_Missense_Mutation_p.N103D|CDC45_uc011aha.1_Missense_Mutation_p.N108D|CDC45_uc002zps.2_Missense_Mutation_p.N108D|CDC45_uc002zpt.2_Intron	NM_003504	NP_003495	O75419	CDC45_HUMAN	CDC45-like	108					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			lung(1)	1						CAATGTCGTCAATGTATACAA	0.408													112	344					0	0	1	0	0		G	19470330	G	G	19470330	3	3	151	1	0	0	0	0	1	0	0	0	3084	130	5	3	336	3	CDC45	22	19470330	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	441540	19470330	31834236	4416	81581											
COMT	1312	broad.mit.edu	37	chr22	19950294	19950294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggaggccattgacacctActgcgagcagaaggagtggg	10	6	16	9	1	0	2	0	1	0	1	0	5	0	4	2	4	3	2	2	4	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:19950294A>G	uc002zqu.2	+	3	494	c.245A>G	c.(244-246)TAC>TGC	p.Y82C	COMT_uc002zqt.2_Missense_Mutation_p.Y82C|COMT_uc002zqv.2_Missense_Mutation_p.Y82C|COMT_uc002zqw.2_Missense_Mutation_p.Y82C|COMT_uc011ahd.1_Missense_Mutation_p.Y82C|COMT_uc002zqx.2_Missense_Mutation_p.Y82C	NM_000754	NP_000745	P21964	COMT_HUMAN	catechol-O-methyltransferase isoform MB-COMT	82					neurotransmitter biosynthetic process|neurotransmitter catabolic process|xenobiotic metabolic process	cytosol|integral to membrane|intracellular membrane-bounded organelle|microsome|plasma membrane|soluble fraction	catechol O-methyltransferase activity|magnesium ion binding|protein binding			ovary(1)	1	Colorectal(54;0.0993)				Carbidopa(DB00190)|Conjugated Estrogens(DB00286)|Diethylstilbestrol(DB00255)|Dobutamine(DB00841)|Dopamine(DB00988)|Entacapone(DB00494)|Folic Acid(DB00158)|L-Valine(DB00161)|Levodopa(DB01235)|Methyldopa(DB00968)|Modafinil(DB00745)|Morphine(DB00295)|S-Adenosylmethionine(DB00118)|Tolcapone(DB00323)	ATTGACACCTACTGCGAGCAG	0.637													11	47					0	0	1	0	0		G	19950294	G	G	19950294	3	3	151	1	0	0	0	0	1	0	0	0	3728	391	14	3	247	3	COMT	22	19950294	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	479964	19950294	31354272	4417	81582											
ZDHHC8	29801	broad.mit.edu	37	chr22	20127090	20127090	+	Missense_Mutation	SNP	T	C	C	0	1	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	tccaggtccgcatgaagtggTgtgccacgtgccacttctac	7	10	11	13	2	1	1	0	1	1	0	3	1	3	1	4	2	3	1	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:20127090T>C	uc002zrq.2	+	3	422	c.316T>C	c.(316-318)TGT>CGT	p.C106R	ZDHHC8_uc002zrr.1_Missense_Mutation_p.C106R|ZDHHC8_uc010gsa.2_Missense_Mutation_p.C4R	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	106	Cytoplasmic (Potential).|DHHC-type.					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					CATGAAGTGGTGTGCCACGTG	0.637													13	48					0	0	1	0	0		C	20127090	C	C	20127090	3	2	151	1	0	0	0	0	1	0	0	0	17646	1696	59	3	326	3	ZDHHC8	22	20127090	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	176796	20127090	31177476	4418	81583											
DGCR6L	85359	broad.mit.edu	37	chr22	20303653	20303653	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccagtacctctagttctcGctgctgagccgcctgaacca	7	9	8	17	2	2	2	0	2	2	0	3	2	2	2	6	0	4	4	6	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:20303653G>A	uc002zrx.2	-	3	458	c.361C>T	c.(361-363)CGA>TGA	p.R121*	DGCR6L_uc010gsb.2_Intron|DGCR6L_uc010gsc.2_Nonsense_Mutation_p.R121*	NM_033257	NP_150282	Q9BY27	DGC6L_HUMAN	DiGeorge syndrome critical region gene 6 like	121	Potential.					nucleus					0	Colorectal(54;0.0993)					TCTAGTTCTCGCTGCTGAGCC	0.687													4	9					0	0	1	0	0		A	20303653	A	A	20303653	4	1	151	1	0	0	0	0	0	1	0	0	4469	1095	38	1	313	1	DGCR6L	22	20303653	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	176563	20303653	31000913	4419	81584											
ZNF74	7625	broad.mit.edu	37	chr22	20760494	20760494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgagaagccctaccagtgcGgctcctgcggcaaggccttc	7	6	13	15	3	0	1	0	0	0	1	2	2	1	1	4	3	4	2	4	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:20760494G>A	uc010gsm.2	+	6	1383	c.1171G>A	c.(1171-1173)GGC>AGC	p.G391S	ZNF74_uc002zsg.2_Missense_Mutation_p.G320S|ZNF74_uc002zsh.2_Missense_Mutation_p.G391S|ZNF74_uc002zsi.2_Missense_Mutation_p.G320S|ZNF74_uc010gsn.2_Missense_Mutation_p.G320S	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	391	C2H2-type 6.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CTACCAGTGCGGCTCCTGCGG	0.642													14	27					0	0	1	0	0		A	20760494	A	A	20760494	3	1	151	1	0	0	0	0	1	0	0	0	18152	1116	39	1	1189	1	ZNF74	22	20760494	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	456841	20760494	30544072	4420	81585											
MED15	51586	broad.mit.edu	37	chr22	20891434	20891434	+	Silent	SNP	A	G	G	1	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	atgaggaaagctggtgtggcAcacagtaaatccagcaagga	15	6	13	7	0	0	1	0	1	0	0	1	3	1	3	1	4	2	4	1	4	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:20891434A>G	uc002zsp.2	+	2	179	c.99A>G	c.(97-99)GCA>GCG	p.A33A	MED15_uc002zsn.1_5'UTR|MED15_uc002zso.2_Silent_p.A33A|MED15_uc002zsq.2_Silent_p.A33A|MED15_uc010gso.2_Silent_p.A33A|MED15_uc002zsr.2_Silent_p.A7A|MED15_uc011ahs.1_Silent_p.A7A|MED15_uc011aht.1_Silent_p.A7A	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	33	Interaction with SREBF1.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			CTGGTGTGGCACACAGTAAAT	0.547													10	67					0	0	1	0	0		G	20891434	G	G	20891434	2	3	151	1	0	0	0	0	0	0	0	1	9451	146	6	3		3	MED15	22	20891434	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	130940	20891434	30413132	4421	81586											
MED15	51586	broad.mit.edu	37	chr22	20929471	20929471	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctaccaccgctgtgtcCgccatcccgtcaagctccat	6	8	7	20	4	1	0	1	0	0	0	4	0	4	0	8	0	2	2	8	0	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:20929471C>T	uc002zsp.2	+	9	1304	c.1224C>T	c.(1222-1224)TCC>TCT	p.S408S	MED15_uc002zsq.2_Intron|MED15_uc010gso.2_Intron|MED15_uc002zsr.2_Intron|MED15_uc011ahs.1_Intron|MED15_uc002zss.2_Intron|MED15_uc011ahu.1_Silent_p.S134S|MED15_uc002zst.2_Silent_p.S24S	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	408	Pro-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			CCGCTGTGTCCGCCATCCCGT	0.627													24	74					0	0	1	0	0		T	20929471	T	T	20929471	2	4	151	1	0	0	0	0	0	0	0	1	9451	639	23	1		1	MED15	22	20929471	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	38037	20929471	30375095	4422	81587											
PI4KA	5297	broad.mit.edu	37	chr22	21062346	21062346	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcccctcctcagtaggggaTgtcattctgatagtactgga	8	12	11	10	0	3	1	2	1	1	0	5	3	5	3	3	3	1	2	3	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:21062346T>C	uc002zsz.3	-	55	6355	c.6124A>G	c.(6124-6126)ATC>GTC	p.I2042V	PI4KA_uc010gsp.2_Missense_Mutation_p.I433V|PI4KA_uc002zsy.3_Missense_Mutation_p.I852V	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	2042					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			CAGTAGGGGATGTCATTCTGA	0.607													40	166					0	0	1	0	0		C	21062346	C	C	21062346	3	2	151	1	0	0	0	0	1	0	0	0	11892	1464	51	3	14	3	PI4KA	22	21062346	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	132875	21062346	30242220	4423	81588											
LZTR1	8216	broad.mit.edu	37	chr22	21350351	21350351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcaggccttcgagtccatGctgcgctacatctactacgg	8	9	11	13	3	1	0	0	0	1	0	3	1	2	0	2	3	5	3	2	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:21350351G>A	uc002zto.2	+	18	2272	c.2169G>A	c.(2167-2169)ATG>ATA	p.M723I	LZTR1_uc002ztn.2_Missense_Mutation_p.M682I|LZTR1_uc011ahy.1_Missense_Mutation_p.M704I|LZTR1_uc002ztp.2_Missense_Mutation_p.M29I	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	723	BTB 2.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-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;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TCGAGTCCATGCTGCGCTACA	0.612													16	58					0	0	1	0	0		A	21350351	A	A	21350351	3	1	151	1	0	0	0	0	1	0	0	0	9155	1319	46	2	2239	2	LZTR1	22	21350351	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	288005	21350351	29954215	4424	81589											
HIC2	23119	broad.mit.edu	37	chr22	21799230	21799230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtggtgcgcgtgggcagggCgcggggacatggggcccgac	4	4	23	10	5	0	0	0	0	0	0	0	2	0	1	1	8	1	1	1	8	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:21799230C>T	uc002zur.3	+	3	276	c.46C>T	c.(46-48)CGC>TGC	p.R16C	HIC2_uc002zus.3_Missense_Mutation_p.R16C	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	16					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				GTGGGCAGGGCGCGGGGACAT	0.662													4	43					0	0	1	0	0		T	21799230	T	T	21799230	3	4	151	1	0	0	0	0	1	0	0	0	7118	768	27	1	52	1	HIC2	22	21799230	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	448879	21799230	29505336	4425	81590											
HIC2	23119	broad.mit.edu	37	chr22	21799327	21799327	+	Missense_Mutation	SNP	T	C	C	0	1	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	caagggcttcctgtgtgacgTcatcatcatggtggagaact	9	11	12	9	1	3	2	3	1	0	1	4	3	4	2	1	3	1	1	1	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:21799327T>C	uc002zur.3	+	3	373	c.143T>C	c.(142-144)GTC>GCC	p.V48A	HIC2_uc002zus.3_Missense_Mutation_p.V48A	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	48	BTB.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CTGTGTGACGTCATCATCATG	0.607													8	69					0	0	1	0	0		C	21799327	C	C	21799327	3	2	151	1	0	0	0	0	1	0	0	0	7118	1667	58	3	149	3	HIC2	22	21799327	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	97	21799327	29505239	4426	81591											
HIC2	23119	broad.mit.edu	37	chr22	21800502	21800502	+	Missense_Mutation	SNP	A	G	G	1	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	agacggtgtcctacggggacAacttgtatgtgtgcattccc	8	11	12	10	2	0	1	0	0	0	1	2	2	2	2	2	3	3	2	2	3	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:21800502A>G	uc002zur.3	+	3	1548	c.1318A>G	c.(1318-1320)AAC>GAC	p.N440D	HIC2_uc002zus.3_Missense_Mutation_p.N440D	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	440					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CTACGGGGACAACTTGTATGT	0.617													20	94					0	0	1	0	0		G	21800502	G	G	21800502	3	3	151	1	0	0	0	0	1	0	0	0	7118	130	5	3	1324	3	HIC2	22	21800502	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1175	21800502	29504064	4427	81592											
UBE2L3	7332	broad.mit.edu	37	chr22	21947247	21947247	+	Splice_Site	SNP	T	C	C	0	1	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	gcaagggcttattgttcctgTgagtattgaacacttccact	9	14	9	9	0	0	2	0	2	0	0	2	2	2	2	2	1	1	4	2	1	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:21947247T>C	uc002zva.1	+	2	200	c.123_splice	c.e2+2	p.P41_splice	UBE2L3_uc011aig.1_Intron|UBE2L3_uc002zuz.1_Splice_Site_p.P41_splice|UBE2L3_uc010gti.1_Splice_Site	NM_003347	NP_003338	P68036	UB2L3_HUMAN	ubiquitin-conjugating enzyme E2L 3						cell proliferation|cellular response to glucocorticoid stimulus|protein K11-linked ubiquitination|regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	ATP binding|transcription coactivator activity|ubiquitin protein ligase binding|ubiquitin-protein ligase activity				0	Colorectal(54;0.105)					ATTGTTCCTGTGAGTATTGAA	0.423													17	86					0	0	1	0	0		C	21947247	C	C	21947247	5	2	151	1	0	0	0	0	0	0	1	0	16889	1710	59	3	131	3	UBE2L3	22	21947247	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	146745	21947247	29357319	4428	81593											
CCDC116	164592	broad.mit.edu	37	chr22	21989105	21989105	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgctgggctcaagctctggCgtgcctgaagcatcagagcc	7	8	13	13	1	3	2	2	1	1	1	3	2	3	2	2	2	5	4	2	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:21989105C>T	uc002zve.2	+	4	846	c.753C>T	c.(751-753)GGC>GGT	p.G251G	CCDC116_uc011aih.1_Silent_p.G251G	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	251										ovary(1)|skin(1)	2	Colorectal(54;0.105)					CAAGCTCTGGCGTGCCTGAAG	0.572													39	141					0	0	1	0	0		T	21989105	T	T	21989105	2	4	151	1	0	0	0	0	0	0	0	1	2756	755	27	1		1	CCDC116	22	21989105	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	41858	21989105	29315461	4429	81594											
GNAZ	2781	broad.mit.edu	37	chr22	23438406	23438406	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatccccactgtcgaggacaTcctgcgctcccgggacatga	8	8	10	15	3	0	1	0	1	0	0	4	4	3	3	4	2	1	1	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:23438406T>C	uc002zwu.1	+	2	1061	c.524T>C	c.(523-525)ATC>ACC	p.I175T	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	175						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		GTCGAGGACATCCTGCGCTCC	0.607													14	101					0	0	1	0	0		C	23438406	C	C	23438406	3	2	151	1	0	0	0	0	1	0	0	0	6529	1435	50	3	526	3	GNAZ	22	23438406	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1449301	23438406	27866160	4430	81595											
BCR	613	broad.mit.edu	37	chr22	23603710	23603710	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaccagcagcgggtgggcGacctcttccagaagctggtg	7	6	15	13	2	1	1	0	0	1	1	2	2	2	1	4	3	3	2	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:23603710G>A	uc002zww.2	+	4	2331	c.1735G>A	c.(1735-1737)GAC>AAC	p.D579N	BCR_uc002zwx.2_Missense_Mutation_p.D579N|BCR_uc011aiy.1_Missense_Mutation_p.D168N|BCR_uc010gtx.1_Missense_Mutation_p.D82N|uc010gty.2_5'Flank	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	579	DH.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						GCGGGTGGGCGACCTCTTCCA	0.408			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								13	50					0	0	1	0	0		A	23603710	A	A	23603710	3	1	151	1	0	0	0	0	1	0	0	0	1389	1058	37	1	1749	1	BCR	22	23603710	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	165304	23603710	27700856	4431	81596											
CABIN1	23523	broad.mit.edu	37	chr22	24439497	24439497	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatcctgaccactggccCtgtttggataacctaatcac	10	11	7	13	0	1	1	1	1	0	0	2	2	2	2	4	2	2	2	4	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:24439497C>A	uc002zzi.1	+	6	604	c.477C>A	c.(475-477)CCC>CCA	p.P159P	CABIN1_uc002zzj.1_Silent_p.P159P|CABIN1_uc002zzl.1_Silent_p.P159P|CABIN1_uc010guk.1_Silent_p.P114P|CABIN1_uc002zzk.1_Silent_p.P114P	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	159					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						ACCACTGGCCCTGTTTGGATA	0.512													23	95					4.26978e-12	4.41864e-12	1	1	0		A	24439497	A	A	24439497	2	1	151	1	0	0	0	0	0	0	0	1	2531	668	24	5		5	CABIN1	22	24439497	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	835787	24439497	26865069	4432	81597											
SUSD2	56241	broad.mit.edu	37	chr22	24583571	24583571	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcgtcctccctgctcaccTacgattcctggttcctggtc	4	13	8	16	2	1	0	1	0	0	0	6	1	5	0	5	2	3	2	5	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:24583571T>C	uc002zzn.1	+	12	1968	c.1924T>C	c.(1924-1926)TAC>CAC	p.Y642H		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	642	VWFD.|Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCTGCTCACCTACGATTCCTG	0.627													21	79					0	0	1	0	0		C	24583571	C	C	24583571	3	2	151	1	0	0	0	0	1	0	0	0	15433	1522	53	3	1970	3	SUSD2	22	24583571	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	144074	24583571	26720995	4433	81598											
SGSM1	129049	broad.mit.edu	37	chr22	25243746	25243746	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcaaggtgcaagacctggaGcagctgatcgagagcgcgtg	10	5	16	10	4	0	3	0	1	0	2	1	5	0	4	1	2	4	4	1	2	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:25243746G>A	uc003abg.2	+	4	442	c.285G>A	c.(283-285)GAG>GAA	p.E95E	SGSM1_uc003abh.2_Silent_p.E95E|SGSM1_uc010guu.1_Silent_p.E95E|SGSM1_uc003abj.2_Silent_p.E95E|SGSM1_uc003abi.1_Silent_p.E70E|SGSM1_uc003abf.2_Silent_p.E95E	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	95	RUN.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						AAGACCTGGAGCAGCTGATCG	0.587													7	18					0	0	1	0	0		A	25243746	A	A	25243746	2	1	151	1	0	0	0	0	0	0	0	1	14247	962	34	2		2	SGSM1	22	25243746	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	660175	25243746	26060820	4434	81599											
SEZ6L	23544	broad.mit.edu	37	chr22	26688424	26688424	+	Silent	SNP	A	G	G	1	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	ggtccttacctcctgccctcAggagccccggagagaggcag	7	6	13	15	1	1	1	1	0	0	1	3	4	3	3	6	4	3	1	6	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:26688424A>G	uc003acb.2	+	2	303	c.147A>G	c.(145-147)TCA>TCG	p.S49S	SEZ6L_uc003acc.2_Silent_p.S49S|SEZ6L_uc011akc.1_Silent_p.S49S|SEZ6L_uc003acd.2_Silent_p.S49S|SEZ6L_uc011akd.1_Silent_p.S49S|SEZ6L_uc003ace.2_Silent_p.S49S|SEZ6L_uc003acf.1_5'UTR|SEZ6L_uc010gvc.1_5'UTR	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	49	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TCCTGCCCTCAGGAGCCCCGG	0.587													18	43					0	0	1	0	0		G	26688424	G	G	26688424	2	3	151	1	0	0	0	0	0	0	0	1	14168	175	7	3		3	SEZ6L	22	26688424	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1444678	26688424	24616142	4435	81600											
ASPHD2	57168	broad.mit.edu	37	chr22	26830248	26830248	+	Missense_Mutation	SNP	A	G	G	1	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	aaggatggaaaatgaacagcAcccccagcggggagtggttc	13	5	14	9	1	0	1	0	1	0	0	1	4	0	4	2	5	3	2	2	5	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:26830248A>G	uc003acg.2	+	2	1064	c.667A>G	c.(667-669)ACC>GCC	p.T223A		NM_020437	NP_065170	Q6ICH7	ASPH2_HUMAN	aspartate beta-hydroxylase domain containing 2	223	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity			ovary(1)	1						AATGAACAGCACCCCCAGCGG	0.537													19	84					0	0	1	0	0		G	26830248	G	G	26830248	3	3	151	1	0	0	0	0	1	0	0	0	1056	159	6	3	669	3	ASPHD2	22	26830248	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	141824	26830248	24474318	4436	81601											
SRRD	402055	broad.mit.edu	37	chr22	26886097	26886097	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaacaatcttttatggagtAactggtcagtagatgccctt	12	13	8	8	0	2	1	1	0	1	1	2	2	2	2	1	2	3	2	1	2	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:26886097A>G	uc010gve.2	+	5	704	c.697A>G	c.(697-699)AAC>GAC	p.N233D	SRRD_uc003acp.3_Missense_Mutation_p.N226D|uc003acu.1_5'Flank	NM_001013694	NP_001013716	Q9UH36	SRR1L_HUMAN	SRR1 domain containing	233					rhythmic process						0						TTTATGGAGTAACTGGTCAGT	0.473													24	104					0	0	1	0	0		G	26886097	G	G	26886097	3	3	151	1	0	0	0	0	1	0	0	0	15192	362	13	3	715	3	SRRD	22	26886097	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	55849	26886097	24418469	4437	81602											
TFIP11	24144	broad.mit.edu	37	chr22	26899657	26899657	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcttcttcctctgagtcaAccacagggaagtcttgcatg	9	11	9	12	0	4	1	1	1	3	0	5	2	5	2	2	1	3	2	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:26899657A>G	uc003acr.2	-	6	997	c.623T>C	c.(622-624)GTT>GCT	p.V208A	TFIP11_uc003acs.2_Missense_Mutation_p.V208A|TFIP11_uc003act.2_Missense_Mutation_p.V208A	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	208					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTCTGAGTCAACCACAGGGAA	0.478													19	119					0	0	1	0	0		G	26899657	G	G	26899657	3	3	151	1	0	0	0	0	1	0	0	0	15832	43	2	3	1926	3	TFIP11	22	26899657	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	13560	26899657	24404909	4438	81603											
TPST2	8459	broad.mit.edu	37	chr22	26936888	26936888	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaccagctgctcgtagtAcacaggcaggcacttctcct	9	8	9	15	1	1	0	0	0	1	0	3	0	1	0	2	2	4	7	2	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:26936888A>G	uc003acv.2	-	2	877	c.709T>C	c.(709-711)TAC>CAC	p.Y237H	TPST2_uc003acw.2_Missense_Mutation_p.Y237H|TPST2_uc003acx.2_Missense_Mutation_p.Y237H|TPST2_uc011akf.1_Missense_Mutation_p.Y237H	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	237	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						TGCTCGTAGTACACAGGCAGG	0.602													11	69					0	0	1	0	0		G	26936888	G	G	26936888	3	3	151	1	0	0	0	0	1	0	0	0	16454	391	14	3	440	3	TPST2	22	26936888	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	37231	26936888	24367678	4439	81604											
CRYBA4	1413	broad.mit.edu	37	chr22	27024321	27024321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaagaaaggagagctgagcGatgactatccttccctccag	12	7	11	11	1	0	4	0	2	0	2	3	6	3	4	3	1	2	2	3	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:27024321G>A	uc003acz.3	+	5	405	c.370G>A	c.(370-372)GAT>AAT	p.D124N		NM_001886	NP_001877	P53673	CRBA4_HUMAN	crystallin, beta A4	124	Beta/gamma crystallin 'Greek key' 3.				camera-type eye development|visual perception	soluble fraction	structural constituent of eye lens				0						AGAGCTGAGCGATGACTATCC	0.547													30	88					0	0	1	0	0		A	27024321	A	A	27024321	3	1	151	1	0	0	0	0	1	0	0	0	3912	1058	37	1	384	1	CRYBA4	22	27024321	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	87433	27024321	24280245	4440	81605											
ZNRF3	84133	broad.mit.edu	37	chr22	29444383	29444383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctccctgcccaggagctgCgggtcatcccctgtactcac	5	9	9	18	1	3	0	2	0	1	0	5	1	4	1	4	2	4	2	4	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:29444383C>T	uc003aeg.2	+	7	784	c.619C>T	c.(619-621)CGG>TGG	p.R207W	ZNRF3_uc003aeh.1_Missense_Mutation_p.R207W	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	307	RING-type; atypical.|Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						CCAGGAGCTGCGGGTCATCCC	0.602													18	61					0	0	1	0	0		T	29444383	T	T	29444383	3	4	151	1	0	0	0	0	1	0	0	0	18238	759	27	1	641	1	ZNRF3	22	29444383	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2420062	29444383	21860183	4441	81606											
KREMEN1	83999	broad.mit.edu	37	chr22	29533411	29533411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttccccgacacctatgccaCggggagggtctgctactgga	7	8	12	14	2	1	0	0	0	1	0	2	3	2	2	4	4	3	1	4	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:29533411C>T	uc011akm.1	+	6	726	c.713C>T	c.(712-714)ACG>ATG	p.T238M	KREMEN1_uc003ael.2_Missense_Mutation_p.T238M|KREMEN1_uc011akn.1_Missense_Mutation_p.T121M	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	236	Extracellular (Potential).|CUB.				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						ACCTATGCCACGGGGAGGGTC	0.597													35	100					0	0	1	0	0		T	29533411	T	T	29533411	3	4	151	1	0	0	0	0	1	0	0	0	8458	536	19	1	735	1	KREMEN1	22	29533411	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	89028	29533411	21771155	4442	81607											
EWSR1	2130	broad.mit.edu	37	chr22	29696151	29696151	+	Nonstop_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagagatcggccctactaGatgcagagaccccgcagagc	11	4	12	14	3	0	4	0	0	0	4	1	6	0	4	3	1	3	3	3	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:29696151G>T	uc003aet.2	+	17	2299	c.1971G>T	c.(1969-1971)TAG>TAT	p.*657Y	EWSR1_uc003aev.2_Nonstop_Mutation_p.*662Y|EWSR1_uc003aew.2_Nonstop_Mutation_p.*601Y|EWSR1_uc003aex.2_Nonstop_Mutation_p.*656Y|EWSR1_uc003aey.2_Nonstop_Mutation_p.*452Y|EWSR1_uc003aez.2_Nonstop_Mutation_p.*318Y	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	657					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						GGCCCTACTAGATGCAGAGAC	0.468			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								9	131					1.58986e-06	1.61756e-06	1	1	0		T	29696151	T	T	29696151	4	4	151	1	0	0	0	0	0	0	0	0	5304	937	33	5	2154	5	EWSR1	22	29696151	Nonstop_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	162740	29696151	21608415	4443	81608											
GAS2L1	10634	broad.mit.edu	37	chr22	29708221	29708221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatgggctgcctgggccccGaagccaagccctttccagct	7	7	11	16	1	0	0	0	0	0	0	1	1	1	0	6	2	4	2	6	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:29708221G>A	uc003afa.1	+	7	1980	c.1781G>A	c.(1780-1782)CGA>CAA	p.R594Q	GAS2L1_uc010gvm.1_Missense_Mutation_p.R367Q|GAS2L1_uc003afb.1_3'UTR|GAS2L1_uc003afc.1_Missense_Mutation_p.R594Q|GAS2L1_uc003afd.1_3'UTR|GAS2L1_uc003afe.1_3'UTR	NM_152236	NP_689422	Q99501	GA2L1_HUMAN	growth arrest-specific 2 like 1 isoform a	594					cell cycle arrest	cytoplasm|cytoskeleton					0						CCTGGGCCCCGAAGCCAAGCC	0.662													17	40					0	0	1	0	0		A	29708221	A	A	29708221	3	1	151	1	0	0	0	0	1	0	0	0	6261	1059	37	1	1802	1	GAS2L1	22	29708221	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	12070	29708221	21596345	4444	81609											
AP1B1	162	broad.mit.edu	37	chr22	29754783	29754783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggtcctccaccagctgggCgttgatgtcgtggagcttgg	4	11	15	11	2	0	1	0	1	0	0	3	2	2	2	3	4	2	3	3	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:29754783C>T	uc003afj.2	-	5	641	c.457G>A	c.(457-459)GCC>ACC	p.A153T	AP1B1_uc003afi.2_Missense_Mutation_p.A153T|AP1B1_uc003afk.2_Missense_Mutation_p.A153T|AP1B1_uc003afl.2_Missense_Mutation_p.A153T	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	153					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						ACCAGCTGGGCGTTGATGTCG	0.592													18	75					0	0	1	0	0		T	29754783	T	T	29754783	3	4	151	1	0	0	0	0	1	0	0	0	731	768	27	1	2468	1	AP1B1	22	29754783	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	46562	29754783	21549783	4445	81610											
RFPL1	5988	broad.mit.edu	37	chr22	29837596	29837596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgacgacctcaggagcGtccgaagtgggtgcatcaca	9	9	12	11	3	3	1	2	1	1	0	4	4	4	2	2	2	2	1	2	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:29837596G>A	uc003afn.2	+	2	648	c.439G>A	c.(439-441)GTC>ATC	p.V147I	RFPL1S_uc003afm.1_RNA	NM_021026	NP_066306	O75677	RFPL1_HUMAN	ret finger protein-like 1	147	B30.2/SPRY.						zinc ion binding				0						CCTCAGGAGCGTCCGAAGTGG	0.512													40	137					0	0	1	0	0		A	29837596	A	A	29837596	3	1	151	1	0	0	0	0	1	0	0	0	13278	1145	40	1	445	1	RFPL1	22	29837596	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	82813	29837596	21466970	4446	81611											
PLA2G3	50487	broad.mit.edu	37	chr22	31536087	31536087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtctcatgagcacagagaGcaccgtaggctgcggtgagc	10	6	14	11	2	1	3	1	2	1	1	2	4	1	3	1	2	4	4	1	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:31536087G>A	uc003aka.2	-	1	383	c.254C>T	c.(253-255)GCT>GTT	p.A85V		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	85					cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						AGCACAGAGAGCACCGTAGGC	0.637													20	52					0	0	1	0	0		A	31536087	A	A	31536087	3	1	151	1	0	0	0	0	1	0	0	0	12019	971	34	2	1303	2	PLA2G3	22	31536087	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1698491	31536087	19768479	4447	81612											
LIMK2	3985	broad.mit.edu	37	chr22	31669457	31669457	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagagctatgatgagacGgtggatatcttctcctttgg	10	12	13	6	1	2	3	0	2	2	2	3	6	2	5	1	4	1	1	1	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:31669457G>A	uc003akh.2	+	14	1723	c.1578G>A	c.(1576-1578)ACG>ACA	p.T526T	LIMK2_uc003akg.2_Silent_p.T443T|LIMK2_uc003aki.2_Silent_p.T280T|LIMK2_uc003akj.2_Silent_p.T505T|LIMK2_uc003akk.2_Silent_p.T505T|LIMK2_uc011aln.1_Silent_p.T443T	NM_005569	NP_005560	P53671	LIMK2_HUMAN	LIM domain kinase 2 isoform 2a	526	Protein kinase.					mitochondrion|nucleus	ATP binding|protein serine/threonine kinase activity|zinc ion binding			ovary(2)	2						ATGATGAGACGGTGGATATCT	0.542											OREG0026477	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	52					0	0	1	0	0		A	31669457	A	A	31669457	2	1	151	1	0	0	0	0	0	0	0	1	8818	1103	39	1		1	LIMK2	22	31669457	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	133370	31669457	19635109	4448	81613											
SFI1	9814	broad.mit.edu	37	chr22	32010791	32010791	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ccagcaacactgcccactcaGcgaggaagcagccgcgacgc	11	2	11	17	4	1	0	1	0	0	0	1	3	1	1	3	1	6	2	3	1	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:32010791G>C	uc003ale.2	+	28	3406	c.3013G>C	c.(3013-3015)GCG>CCG	p.A1005P	SFI1_uc003alf.2_Missense_Mutation_p.A974P|SFI1_uc003alg.2_Missense_Mutation_p.A923P|SFI1_uc011alp.1_Missense_Mutation_p.A911P|SFI1_uc011alq.1_Missense_Mutation_p.A950P|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_Missense_Mutation_p.A97P|SFI1_uc003alj.2_Missense_Mutation_p.Q76H	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	1005					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						TGCCCACTCAGCGAGGAAGCA	0.627													7	18					0	0	1	0	0		C	32010791	C	C	32010791	3	2	151	1	0	0	0	0	1	0	0	0	14181	971	34	5	3119	5	SFI1	22	32010791	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	341334	32010791	19293775	4449	81614											
DEPDC5	9681	broad.mit.edu	37	chr22	32229940	32229940	+	Missense_Mutation	SNP	A	G	G	1	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	gaataaggattctctagaggAcagtgtttctacctctccag	11	12	9	9	0	3	1	0	0	3	1	5	4	3	3	2	2	1	1	2	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:32229940A>G	uc003als.2	+	25	2286	c.2144A>G	c.(2143-2145)GAC>GGC	p.D715G	DEPDC5_uc011als.1_Missense_Mutation_p.D637G|DEPDC5_uc011alu.1_Missense_Mutation_p.D715G|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.D715G|DEPDC5_uc003alu.2_Missense_Mutation_p.D155G|DEPDC5_uc003alv.2_RNA|DEPDC5_uc011alw.1_Missense_Mutation_p.D36G|DEPDC5_uc003alw.2_Missense_Mutation_p.D13G|DEPDC5_uc011alx.1_5'UTR|DEPDC5_uc011alt.1_Missense_Mutation_p.D609G	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	715					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						TCTCTAGAGGACAGTGTTTCT	0.483													94	377					0	0	1	0	0		G	32229940	G	G	32229940	3	3	151	1	0	0	0	0	1	0	0	0	4448	275	10	3	2256	3	DEPDC5	22	32229940	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	219149	32229940	19074626	4450	81615											
RFPL2	10739	broad.mit.edu	37	chr22	32586769	32586769	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagtgagggcttatttggccTccccaggacggactggagca	8	8	15	10	1	0	1	0	1	0	0	1	5	1	4	3	5	1	2	3	5	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:32586769T>C	uc003amg.3	-	5	2063	c.1127A>G	c.(1126-1128)GAG>GGG	p.E376G	RFPL2_uc003ame.3_Missense_Mutation_p.E315G|RFPL2_uc003amf.3_Missense_Mutation_p.E286G|RFPL2_uc003amh.3_Missense_Mutation_p.E286G	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	376							zinc ion binding			skin(1)	1						TTATTTGGCCTCCCCAGGACG	0.443													47	199					0	0	1	0	0		C	32586769	C	C	32586769	3	2	151	1	0	0	0	0	1	0	0	0	13279	1551	54	3	13	3	RFPL2	22	32586769	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	356829	32586769	18717797	4451	81616											
SLC5A4	6527	broad.mit.edu	37	chr22	32644771	32644771	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacaaagatccacccaagaaTcagcaacattactgaggact	17	6	7	11	0	1	3	1	1	0	2	2	5	2	4	2	1	3	1	2	1	5	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:32644771T>C	uc003ami.2	-	4	333	c.331A>G	c.(331-333)ATT>GTT	p.I111V		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	111	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						CACCCAAGAATCAGCAACATT	0.338													27	122					0	0	1	0	0		C	32644771	C	C	32644771	3	2	151	1	0	0	0	0	1	0	0	0	14692	1435	50	3	1696	3	SLC5A4	22	32644771	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	58002	32644771	18659795	4452	81617											
SLC5A4	6527	broad.mit.edu	37	chr22	32650198	32650198	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcggttggtcttcagcatCgcctgagcagaagggaagac	9	8	13	11	2	2	3	1	1	1	2	4	4	2	4	2	3	2	3	2	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:32650198C>T	uc003ami.2	-	2	140	c.138G>A	c.(136-138)GCG>GCA	p.A46A		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	46	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						TCTTCAGCATCGCCTGAGCAG	0.567													14	50					0	0	1	0	0		T	32650198	T	T	32650198	2	4	151	1	0	0	0	0	0	0	0	1	14692	871	31	1		1	SLC5A4	22	32650198	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5427	32650198	18654368	4453	81618											
HMGXB4	10042	broad.mit.edu	37	chr22	35661177	35661177	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcatctcctggccctgaaGgctgtgggtctgacgcctcc	5	11	11	14	1	3	2	1	2	2	0	5	2	4	2	4	3	0	1	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:35661177G>T	uc003anl.2	+	5	970	c.796G>T	c.(796-798)GGC>TGC	p.G266C	HMGXB4_uc011amh.1_Missense_Mutation_p.G157C|HMGXB4_uc003ank.2_Missense_Mutation_p.G157C	NM_001003681	NP_001003681	Q9UGU5	HMGX4_HUMAN	high-mobility group protein 2-like 1	266					endosome to lysosome transport|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	NURF complex	DNA binding			breast(1)|skin(1)	2						TGGCCCTGAAGGCTGTGGGTC	0.512													17	76					4.14922e-12	4.29469e-12	1	1	0		T	35661177	T	T	35661177	3	4	151	1	0	0	0	0	1	0	0	0	7255	1000	35	5	810	5	HMGXB4	22	35661177	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	3010979	35661177	15643389	4454	81619											
APOL1	8542	broad.mit.edu	37	chr22	36661621	36661621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccacgacctggtcatcaaaAgccttgacaaattgaaggag	14	7	9	11	1	2	2	2	2	0	0	2	4	2	3	3	2	1	0	3	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:36661621A>G	uc003apf.2	+	6	907	c.739A>G	c.(739-741)AGC>GGC	p.S247G	APOL1_uc011amn.1_Missense_Mutation_p.S124G|APOL1_uc003apc.2_RNA|APOL1_uc003ape.2_Missense_Mutation_p.S263G|APOL1_uc011amo.1_Missense_Mutation_p.S124G|APOL1_uc011amp.1_Missense_Mutation_p.S247G|APOL1_uc011amq.1_Missense_Mutation_p.S229G|APOL1_uc010gwx.2_Missense_Mutation_p.S124G	NM_003661	NP_003652	O14791	APOL1_HUMAN	apolipoprotein L1 isoform a precursor	247					cholesterol metabolic process|cytolysis|innate immune response|killing of cells of other organism|lipid transport|lipoprotein metabolic process	high-density lipoprotein particle|very-low-density lipoprotein particle	chloride channel activity|lipid binding|protein binding			breast(2)|ovary(1)	3						GGTCATCAAAAGCCTTGACAA	0.493													22	94					0	0	1	0	0		G	36661621	G	G	36661621	3	3	151	1	0	0	0	0	1	0	0	0	805	72	3	3	809	3	APOL1	22	36661621	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1000444	36661621	14642945	4455	81620											
CACNG2	10369	broad.mit.edu	37	chr22	36960849	36960849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggaccagccgtatgagTaactattctttttggagtcg	11	12	11	7	2	1	2	0	1	1	1	2	4	1	4	2	2	2	2	2	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:36960849T>C	uc003aps.1	-	4	803	c.521A>G	c.(520-522)TAC>TGC	p.Y174C		NM_006078	NP_006069	Q9Y698	CCG2_HUMAN	voltage-dependent calcium channel gamma-2	174					membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0						GCCGTATGAGTAACTATTCTT	0.547													50	177					0	0	1	0	0		C	36960849	C	C	36960849	3	2	151	1	0	0	0	0	1	0	0	0	2560	1638	57	3	454	3	CACNG2	22	36960849	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	299228	36960849	14343717	4456	81621											
KCTD17	79734	broad.mit.edu	37	chr22	37457578	37457578	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcacgtttcctccttgcaGgttcccgtccgcaccctctc	3	12	6	20	3	2	0	1	0	1	0	7	0	6	0	6	1	1	4	6	1	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:37457578G>T	uc010gxb.2	+	8	807	c.785_splice	c.e8-1	p.G262_splice	KCTD17_uc011amv.1_Splice_Site_p.G245_splice|KCTD17_uc010gxc.2_Splice_Site_p.V205_splice	NM_024681	NP_078957	Q8N5Z5	KCD17_HUMAN	potassium channel tetramerisation domain							voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0						CCTCCTTGCAGGTTCCCGTCC	0.687													6	9					0.217242	0.217362	1	1	0		T	37457578	T	T	37457578	5	4	151	1	0	0	0	0	0	0	1	0	8120	1014	35	5	759	5	KCTD17	22	37457578	Splice_Site	SNP	G	TCGA-CG-5721-01A-11D-1600-08	496729	37457578	13846988	4457	81622											
RAC2	5880	broad.mit.edu	37	chr22	37637690	37637690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgatgagaaggcaggtcttgCccacggccctgaaagacagg	11	6	14	10	1	1	4	0	3	1	2	1	5	1	4	2	4	1	1	2	4	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:37637690C>T	uc003arc.2	-	2	161	c.44G>A	c.(43-45)GGC>GAC	p.G15D		NM_002872	NP_002863	P15153	RAC2_HUMAN	ras-related C3 botulinum toxin substrate 2	15	GTP (By similarity).				axon guidance|platelet activation|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding			breast(2)|central_nervous_system(1)|skin(1)	4						GCAGGTCTTGCCCACGGCCCT	0.612													15	68					0	0	1	0	0		T	37637690	T	T	37637690	3	4	151	1	0	0	0	0	1	0	0	0	13000	739	26	2	554	2	RAC2	22	37637690	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	180112	37637690	13666876	4458	81623											
TRIOBP	11078	broad.mit.edu	37	chr22	38151115	38151115	+	Missense_Mutation	SNP	A	T	T	1	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	cctcttgctccaggcagatgAgctggatggtgagatcgacc	8	9	13	11	1	1	3	0	2	1	2	3	6	2	4	3	3	2	3	3	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:38151115A>T	uc003atr.2	+	14	5766	c.5495A>T	c.(5494-5496)GAG>GTG	p.E1832V	TRIOBP_uc003atu.2_Missense_Mutation_p.E1660V|TRIOBP_uc003atv.2_Missense_Mutation_p.E119V|TRIOBP_uc003atw.2_Missense_Mutation_p.E119V|TRIOBP_uc003atx.1_5'Flank|TRIOBP_uc010gxh.2_5'Flank	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1832	PH.				actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CAGGCAGATGAGCTGGATGGT	0.632													5	20					0	0	1	0	0		T	38151115	T	T	38151115	3	4	151	1	0	0	0	0	1	0	0	0	16579	304	11	5	5728	5	TRIOBP	22	38151115	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	513425	38151115	13153451	4459	81624											
CSNK1E	1454	broad.mit.edu	37	chr22	38694806	38694806	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcacgaatttcagcatgttCcagtcaaagacgtagtcata	13	11	7	10	2	4	1	4	0	0	1	5	2	5	1	1	0	1	3	1	0	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:38694806C>A	uc003avj.2	-	7	1131	c.870G>T	c.(868-870)TGG>TGT	p.W290C	CSNK1E_uc003avk.2_Missense_Mutation_p.W290C|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_Missense_Mutation_p.W290C|CSNK1E_uc003avo.2_Missense_Mutation_p.W290C|CSNK1E_uc003avp.1_Missense_Mutation_p.W290C|CSNK1E_uc003avq.1_Missense_Mutation_p.W290C	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	290					DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					TCAGCATGTTCCAGTCAAAGA	0.597											OREG0026559	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	121					7.11191e-15	7.38801e-15	1	1	0		A	38694806	A	A	38694806	3	1	151	1	0	0	0	0	1	0	0	0	3956	856	30	5	396	5	CSNK1E	22	38694806	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	543691	38694806	12609760	4460	81625											
CSNK1E	1454	broad.mit.edu	37	chr22	38694907	38694907	+	Missense_Mutation	SNP	A	G	G	1	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	cttgtcgtcaaaccgcagggAgcggcagaagttgaggtatg	10	8	15	8	3	1	2	1	1	0	1	2	3	1	3	1	3	2	4	1	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:38694907A>G	uc003avj.2	-	7	1030	c.769T>C	c.(769-771)TCC>CCC	p.S257P	CSNK1E_uc003avk.2_Missense_Mutation_p.S257P|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_Missense_Mutation_p.S257P|CSNK1E_uc003avo.2_Missense_Mutation_p.S257P|CSNK1E_uc003avp.1_Missense_Mutation_p.S257P|CSNK1E_uc003avq.1_Missense_Mutation_p.S257P	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	257	Protein kinase.				DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					AACCGCAGGGAGCGGCAGAAG	0.577											OREG0026559	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	111					0	0	1	0	0		G	38694907	G	G	38694907	3	3	151	1	0	0	0	0	1	0	0	0	3956	304	11	3	497	3	CSNK1E	22	38694907	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	101	38694907	12609659	4461	81626											
KCNJ4	3761	broad.mit.edu	37	chr22	38823509	38823509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccacaatgtggctcttgCgcaggttgcccacgcgccac	6	8	10	17	3	1	0	0	0	1	0	2	0	2	0	4	2	2	3	4	2	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:38823509C>T	uc003avs.1	-	2	726	c.629G>A	c.(628-630)CGC>CAC	p.R210H	KCNJ4_uc003avt.1_Missense_Mutation_p.R210H	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	210	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					GTGGCTCTTGCGCAGGTTGCC	0.662													4	31					0	0	1	0	0		T	38823509	T	T	38823509	3	4	151	1	0	0	0	0	1	0	0	0	8069	768	27	1	712	1	KCNJ4	22	38823509	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	128602	38823509	12481057	4462	81627											
DDX17	10521	broad.mit.edu	37	chr22	38897252	38897252	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggattaccaaatttcttCgggggaaggccaccaccacc	11	7	9	14	1	1	0	0	0	1	0	2	2	1	2	6	4	1	0	6	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:38897252C>T	uc003avy.3	-	2	424	c.321G>A	c.(319-321)CCG>CCA	p.P107P	DDX17_uc003avx.3_Silent_p.P107P|DDX17_uc011anu.1_Silent_p.P20P	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	28					RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					CAAATTTCTTCGGGGGAAGGC	0.408													20	78					0	0	1	0	0		T	38897252	T	T	38897252	2	4	151	1	0	0	0	0	0	0	0	1	4347	871	31	1		1	DDX17	22	38897252	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	73743	38897252	12407314	4463	81628											
DMC1	11144	broad.mit.edu	37	chr22	38962699	38962699	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctgtatacctttgatggTacagattcctactgatttca	10	16	6	9	0	2	3	1	2	1	1	3	3	3	3	2	1	3	2	2	1	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:38962699T>C	uc003avz.1	-	4	314	c.139A>G	c.(139-141)ACC>GCC	p.T47A	DMC1_uc011anv.1_Missense_Mutation_p.T47A|DMC1_uc003awa.1_Missense_Mutation_p.T47A	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog	47					reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					CCTTTGATGGTACAGATTCCT	0.423								Homologous_recombination					26	108					0	0	1	0	0		C	38962699	C	C	38962699	3	2	151	1	0	0	0	0	1	0	0	0	4585	1638	57	3	927	3	DMC1	22	38962699	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	65447	38962699	12341867	4464	81629											
APOBEC3D	140564	broad.mit.edu	37	chr22	39421596	39421596	+	Silent	SNP	T	C	C	0	1	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	tgggaaaactttgtgtgcaaTgaaggtcagccattcatgcc	11	11	11	8	0	2	1	2	1	0	0	2	2	2	2	2	2	4	1	2	2	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:39421596T>C	uc011aoe.1	+	4	579	c.525T>C	c.(523-525)AAT>AAC	p.N175N	APOBEC3D_uc011aod.1_Silent_p.N244N|APOBEC3D_uc011aof.1_Intron|APOBEC3D_uc003awu.3_Intron|APOBEC3D_uc003awt.3_Silent_p.N175N|APOBEC3D_uc010gxu.2_Intron	NM_152426	NP_689639	Q96AK3	ABC3D_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	175					negative regulation of transposition		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0	Melanoma(58;0.04)					TTGTGTGCAATGAAGGTCAGC	0.547													59	240					0	0	1	0	0		C	39421596	C	C	39421596	2	2	151	1	0	0	0	0	0	0	0	1	792	1461	51	3		3	APOBEC3D	22	39421596	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	458897	39421596	11882970	4465	81630											
MGAT3	4248	broad.mit.edu	37	chr22	39884031	39884031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctggacgtgcgcttccacGagctgggcgacgtggtggac	5	8	17	11	5	0	0	0	0	0	0	1	4	1	2	1	4	3	3	1	4	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:39884031G>A	uc003axv.3	+	2	918	c.679G>A	c.(679-681)GAG>AAG	p.E227K	MGAT3_uc010gxy.2_Missense_Mutation_p.E227K	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	227	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					GCGCTTCCACGAGCTGGGCGA	0.652													6	30					0	0	1	0	0		A	39884031	A	A	39884031	3	1	151	1	0	0	0	0	1	0	0	0	9562	1059	37	1	681	1	MGAT3	22	39884031	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	462435	39884031	11420535	4466	81631											
RPS19BP1	91582	broad.mit.edu	37	chr22	39925608	39925608	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccggtcacaggccttgcgGccccggttctggcgcaaaat	6	7	14	14	4	2	0	1	0	1	0	2	0	2	0	4	6	1	2	4	6	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:39925608G>C	uc003ayb.2	-	4	427	c.300C>G	c.(298-300)GGC>GGG	p.G100G		NM_194326	NP_919307	Q86WX3	AROS_HUMAN	S19 binding protein	100						nucleolus|nucleoplasm					0	Melanoma(58;0.04)					AGGCCTTGCGGCCCCGGTTCT	0.612											OREG0026578	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	76					0	0	1	0	0		C	39925608	C	C	39925608	2	2	151	1	0	0	0	0	0	0	0	1	13655	1190	42	5		5	RPS19BP1	22	39925608	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	41577	39925608	11378958	4467	81632											
CACNA1I	8911	broad.mit.edu	37	chr22	40043875	40043875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggagacatctcggaagccGgcattgccagactttgcatg	10	8	13	10	2	1	2	0	0	1	2	2	4	1	3	2	3	3	2	2	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:40043875G>A	uc003ayc.2	+	9	1511	c.1511G>A	c.(1510-1512)CGG>CAG	p.R504Q	CACNA1I_uc003ayd.2_Intron|CACNA1I_uc003aye.2_Missense_Mutation_p.R419Q|CACNA1I_uc003ayf.2_Intron	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	504	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CTCGGAAGCCGGCATTGCCAG	0.373													9	49					0	0	1	0	0		A	40043875	A	A	40043875	3	1	151	1	0	0	0	0	1	0	0	0	2549	1116	39	1	1545	1	CACNA1I	22	40043875	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	118267	40043875	11260691	4468	81633											
CACNA1I	8911	broad.mit.edu	37	chr22	40064365	40064365	+	Silent	SNP	T	C	C	0	1	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	atcatgtacaatggactggaTgctgttgctgtggaccagca	10	11	12	8	0	1	0	1	0	0	0	1	3	1	3	1	3	4	5	1	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:40064365T>C	uc003ayc.2	+	24	4173	c.4173T>C	c.(4171-4173)GAT>GAC	p.D1391D	CACNA1I_uc003ayd.2_Silent_p.D1356D|CACNA1I_uc003aye.2_Silent_p.D1306D|CACNA1I_uc003ayf.2_Silent_p.D1271D	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1391	Extracellular (Potential).|III.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	ATGGACTGGATGCTGTTGCTG	0.562													4	28					0	0	1	0	0		C	40064365	C	C	40064365	2	2	151	1	0	0	0	0	0	0	0	1	2549	1461	51	3		3	CACNA1I	22	40064365	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	20490	40064365	11240201	4469	81634											
ADSL	158	broad.mit.edu	37	chr22	40754911	40754911	+	Missense_Mutation	SNP	A	G	G	1	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	ggaaacgttgctgtctttggAttcaggatctttgcatggat	8	15	12	6	1	3	0	1	0	2	0	3	4	3	4	0	4	3	3	0	4	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:40754911A>G	uc003ayp.3	+	5	585	c.526A>G	c.(526-528)ATT>GTT	p.I176V	ADSL_uc003ays.3_Missense_Mutation_p.I176V|ADSL_uc003ayq.3_Missense_Mutation_p.I176V|ADSL_uc003ayr.3_5'UTR|ADSL_uc003ayt.3_Missense_Mutation_p.I161V|ADSL_uc010gyb.1_RNA	NM_000026	NP_000017	P30566	PUR8_HUMAN	adenylosuccinate lyase isoform a	176					AMP biosynthetic process|protein tetramerization|purine base metabolic process	cytosol	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity|N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity			ovary(1)	1						CTGTCTTTGGATTCAGGATCT	0.512													32	161					0	0	1	0	0		G	40754911	G	G	40754911	3	3	151	1	0	0	0	0	1	0	0	0	346	333	12	3	544	3	ADSL	22	40754911	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	690546	40754911	10549655	4470	81635											
MKL1	57591	broad.mit.edu	37	chr22	40814987	40814987	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcctgcagggtcagctgCgtcagaggtgatgtcaccat	8	8	15	10	1	3	2	3	1	0	1	3	3	3	2	2	3	3	2	2	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:40814987C>T	uc003ayv.1	-	9	1662	c.1455G>A	c.(1453-1455)ACG>ACA	p.T485T	MKL1_uc003ayw.1_Silent_p.T485T|MKL1_uc010gye.1_Silent_p.T485T|MKL1_uc010gyf.1_Silent_p.T435T	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	485					positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GGGTCAGCTGCGTCAGAGGTG	0.682			T	RBM15	acute megakaryocytic leukemia								5	21					0	0	1	0	0		T	40814987	T	T	40814987	2	4	151	1	0	0	0	0	0	0	0	1	9619	755	27	1		1	MKL1	22	40814987	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	60076	40814987	10489579	4471	81636											
EP300	2033	broad.mit.edu	37	chr22	41573174	41573174	+	Missense_Mutation	SNP	A	G	G	1	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	ccggcagcaacagctgcagcAccgactacagcaggcccaaa	13	2	10	16	2	0	0	0	0	0	0	0	1	0	0	3	2	7	6	3	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:41573174A>G	uc003azl.3	+	31	5854	c.5459A>G	c.(5458-5460)CAC>CGC	p.H1820R		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1820					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						CAGCTGCAGCACCGACTACAG	0.617			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				8	52					0	0	1	0	0		G	41573174	G	G	41573174	3	3	151	1	0	0	0	0	1	0	0	0	5156	159	6	3	5581	3	EP300	22	41573174	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	758187	41573174	9731392	4472	81637											
EP300	2033	broad.mit.edu	37	chr22	41574435	41574435	+	Silent	SNP	A	G	G	1	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	atgcaacaaggaaatatgggAcagataggccagcttcccca	15	6	10	10	0	0	1	0	0	0	1	1	3	1	3	3	3	3	2	3	3	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:41574435A>G	uc003azl.3	+	31	7115	c.6720A>G	c.(6718-6720)GGA>GGG	p.G2240G		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2240	Interaction with NCOA2.				apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						GAAATATGGGACAGATAGGCC	0.567			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				16	47					0	0	1	0	0		G	41574435	G	G	41574435	2	3	151	1	0	0	0	0	0	0	0	1	5156	262	10	3		3	EP300	22	41574435	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1261	41574435	9730131	4473	81638											
L3MBTL2	83746	broad.mit.edu	37	chr22	41625571	41625571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatcccgcccactaagacgcGacccctcagacaggggtcca	11	4	9	17	3	1	2	1	0	0	2	3	3	3	2	5	2	0	0	5	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:41625571G>A	uc003azo.2	+	16	1970	c.1916G>A	c.(1915-1917)CGA>CAA	p.R639Q	L3MBTL2_uc003azn.2_RNA|CHADL_uc003azq.3_3'UTR|CHADL_uc010gyj.2_3'UTR	NM_031488	NP_113676	Q969R5	LMBL2_HUMAN	l(3)mbt-like 2	639					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	methylated histone residue binding|transcription corepressor activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3						ACTAAGACGCGACCCCTCAGA	0.532													17	42					0	0	1	0	0		A	41625571	A	A	41625571	3	1	151	1	0	0	0	0	1	0	0	0	8608	1058	37	1	1978	1	L3MBTL2	22	41625571	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	51136	41625571	9678995	4474	81639											
TOB2	10766	broad.mit.edu	37	chr22	41832509	41832509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaacgggcctggggtgcCgctgccctggccatcggccg	4	6	15	16	4	0	0	0	0	0	0	2	0	1	0	6	5	3	1	6	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:41832509C>T	uc003azz.1	-	2	1548	c.841G>A	c.(841-843)GGC>AGC	p.G281S		NM_016272	NP_057356	Q14106	TOB2_HUMAN	transducer of ERBB2, 2	281				QGSGTPGPFGGSGAGTCNSSSFDMAQVFGGGANSLFLEKT -> RAAAPQARLEAVGLAPATAAALTWPRYLEVVPTASSWR RH (in Ref. 1; BAA10971).	female gamete generation|negative regulation of cell proliferation	cytoplasm|nucleus				ovary(1)	1						CCTGGGGTGCCGCTGccctgg	0.363													3	13					0	0	1	0	0		T	41832509	T	T	41832509	3	4	151	1	0	0	0	0	1	0	0	0	16373	652	23	1	197	1	TOB2	22	41832509	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	206938	41832509	9472057	4475	81640											
PPPDE2	27351	broad.mit.edu	37	chr22	42016765	42016765	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttccccctcacccagcatgaTggggctgagccgccgggcca	6	6	12	17	2	1	2	1	2	0	0	2	2	2	2	6	3	2	2	6	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:42016765T>C	uc003ban.1	-	1	152	c.79A>G	c.(79-81)ATC>GTC	p.I27V	PPPDE2_uc011apb.1_RNA|XRCC6_uc003bao.1_5'Flank|XRCC6_uc003bap.1_5'Flank|XRCC6_uc011apc.1_5'Flank|XRCC6_uc003baq.1_5'Flank|XRCC6_uc003bar.1_5'Flank|XRCC6_uc003bas.1_5'Flank	NM_015704	NP_056519	Q6ICB0	PPDE2_HUMAN	PPPDE peptidase domain containing 2	27	PPPDE peptidase.										0						CCCAGCATGATGGGGCTGAGC	0.697													3	16					0	0	1	0	0		C	42016765	C	C	42016765	3	2	151	1	0	0	0	0	1	0	0	0	12431	1464	51	3	451	3	PPPDE2	22	42016765	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	184256	42016765	9287801	4476	81641											
SREBF2	6721	broad.mit.edu	37	chr22	42262964	42262964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtggcagcagcagcagcaGcagcaatggcaggggcagca	12	2	16	11	0	0	0	0	0	0	0	0	0	0	0	0	4	7	10	0	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:42262964G>A	uc003bbi.2	+	2	387	c.218G>A	c.(217-219)AGC>AAC	p.S73N	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	73	Gly/Pro/Ser-rich.|Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						agcagcagcagcagcaatggc	0.393													6	20					0	0	1	0	0		A	42262964	A	A	42262964	3	1	151	1	0	0	0	0	1	0	0	0	15167	971	34	2	224	2	SREBF2	22	42262964	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	246199	42262964	9041602	4477	81642											
ARFGAP3	26286	broad.mit.edu	37	chr22	43218294	43218294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acattgattcttctttagatAccaccttggccaggtcttcc	8	15	6	12	0	3	2	0	1	3	1	4	2	4	2	4	2	1	0	4	2	2	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:43218294A>G	uc003bdd.2	-	9	1014	c.794T>C	c.(793-795)GTA>GCA	p.V265A	ARFGAP3_uc010gzf.2_Missense_Mutation_p.V221A|ARFGAP3_uc011apu.1_Missense_Mutation_p.V193A	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating	265					intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						TTCTTTAGATACCACCTTGGC	0.343													35	199					0	0	1	0	0		G	43218294	G	G	43218294	3	3	151	1	0	0	0	0	1	0	0	0	851	391	14	3	788	3	ARFGAP3	22	43218294	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	955330	43218294	8086272	4478	81643											
MCAT	27349	broad.mit.edu	37	chr22	43529260	43529260	+	Missense_Mutation	SNP	A	G	G	1	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	gctcccacttcactggggagAccagctgctgggccagcagc	7	6	13	15	0	1	1	1	0	0	1	2	2	2	1	3	3	4	4	3	3	0	1	rs113924126		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:43529260A>G	uc003bdl.1	-	4	1011	c.962T>C	c.(961-963)GTC>GCC	p.V321A	MCAT_uc003bdm.1_3'UTR	NM_173467	NP_775738	Q8IVS2	FABD_HUMAN	mitochondrial malonyltransferase isoform a	321					fatty acid biosynthetic process	mitochondrion	[acyl-carrier-protein] S-malonyltransferase activity|binding			ovary(1)	1		Ovarian(80;0.0694)				CACTGGGGAGACCAGCTGCTG	0.567													33	168					0	0	1	0	0		G	43529260	G	G	43529260	3	3	151	1	0	0	0	0	1	0	0	0	9390	275	10	3	214	3	MCAT	22	43529260	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	310966	43529260	7775306	4479	81644											
SCUBE1	80274	broad.mit.edu	37	chr22	43604189	43604189	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggcgatgggcctctcgtAggtctggcaggtctcatagg	7	9	16	9	2	3	0	1	0	3	0	5	2	3	0	1	6	0	2	1	6	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:43604189A>C	uc003bdt.1	-	20	2711	c.2623T>G	c.(2623-2625)TAC>GAC	p.Y875D		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	875	CUB.				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GGCCTCTCGTAGGTCTGGCAG	0.537													22	122					0	0	1	0	0		C	43604189	C	C	43604189	3	2	151	1	0	0	0	0	1	0	0	0	13969	420	15	5	355	5	SCUBE1	22	43604189	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	74929	43604189	7700377	4480	81645											
EFCAB6	64800	broad.mit.edu	37	chr22	44112809	44112809	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcagaacctagcaaacgTtcctttttggaatttttggc	10	14	9	8	1	0	1	0	0	0	1	1	3	1	2	2	2	4	3	2	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:44112809T>C	uc003bdy.1	-	9	1016	c.801A>G	c.(799-801)GAA>GAG	p.E267E	EFCAB6_uc003bdz.1_Silent_p.E115E|EFCAB6_uc010gzi.1_Silent_p.E115E|EFCAB6_uc010gzk.1_RNA|EFCAB6_uc011aqa.1_Silent_p.E161E|EFCAB6_uc003bea.1_Silent_p.E264E|EFCAB6_uc003beb.3_Silent_p.E161E	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	267					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				CTAGCAAACGTTCCTTTTTGG	0.363													18	123					0	0	1	0	0		C	44112809	C	C	44112809	2	2	151	1	0	0	0	0	0	0	0	1	4945	1722	60	3		3	EFCAB6	22	44112809	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	508620	44112809	7191757	4481	81646											
PARVG	64098	broad.mit.edu	37	chr22	44585064	44585064	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaagccagaagcacaagctCacagtggtgctggaggccgt	12	5	13	11	1	1	1	1	0	0	1	1	2	1	2	2	3	4	3	2	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:44585064C>T	uc011aqe.1	+	6	742	c.318C>T	c.(316-318)CTC>CTT	p.L106L	PARVG_uc003bep.2_Silent_p.L106L|PARVG_uc011aqf.1_Silent_p.L106L|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	106	CH 1.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				AGCACAAGCTCACAGTGGTGC	0.647													4	32					0	0	1	0	0		T	44585064	T	T	44585064	2	4	151	1	0	0	0	0	0	0	0	1	11489	813	29	4		4	PARVG	22	44585064	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	472255	44585064	6719502	4482	81647											
PARVG	64098	broad.mit.edu	37	chr22	44592258	44592258	+	Missense_Mutation	SNP	A	G	G	1	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	ctttgtcaaccagaagctggAccgcctgggcctgtctgtgc	6	10	12	13	1	2	1	1	0	1	1	2	2	2	2	4	2	3	1	4	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:44592258A>G	uc011aqe.1	+	11	1098	c.674A>G	c.(673-675)GAC>GGC	p.D225G	PARVG_uc003bep.2_Missense_Mutation_p.D225G|PARVG_uc011aqf.1_Missense_Mutation_p.D225G|PARVG_uc003beq.2_RNA|PARVG_uc003ber.2_RNA	NM_001137605	NP_001131077	Q9HBI0	PARVG_HUMAN	parvin, gamma	225	CH 2.				cell-matrix adhesion	cytoplasm|cytoskeleton|focal adhesion	actin binding				0		Ovarian(80;0.024)|all_neural(38;0.0299)				CAGAAGCTGGACCGCCTGGGC	0.607													20	74					0	0	1	0	0		G	44592258	G	G	44592258	3	3	151	1	0	0	0	0	1	0	0	0	11489	275	10	3	708	3	PARVG	22	44592258	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	7194	44592258	6712308	4483	81648											
KIAA1644	85352	broad.mit.edu	37	chr22	44681392	44681392	+	Missense_Mutation	SNP	A	G	G	1	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	cggcctgtggggcttgtggcAgcgggcctgggggaggctgc	2	7	22	10	2	0	0	0	0	0	0	0	1	0	1	2	8	2	3	2	8	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:44681392A>G	uc003bet.2	-	4	648	c.515T>C	c.(514-516)CTG>CCG	p.L172P		NM_001099294	NP_001092764	Q3SXP7	K1644_HUMAN	hypothetical protein LOC85352 precursor	172	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1		all_neural(38;0.0762)|Ovarian(80;0.105)|Glioma(61;0.222)				GGCTTGTGGCAGCGGGCCTGG	0.687													9	51					0	0	1	0	0		G	44681392	G	G	44681392	3	3	151	1	0	0	0	0	1	0	0	0	8266	188	7	3	92	3	KIAA1644	22	44681392	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	89134	44681392	6623174	4484	81649											
PHF21B	112885	broad.mit.edu	37	chr22	45279040	45279040	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggtccagggcccggccaGcagtggggcagggctagtgg	5	6	19	11	1	0	0	0	0	0	0	1	0	1	0	3	7	1	3	3	7	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:45279040G>A	uc003bfn.2	-	13	1673	c.1522C>T	c.(1522-1524)CTG>TTG	p.L508L	PHF21B_uc003bfm.2_Silent_p.L304L|PHF21B_uc011aqk.1_Silent_p.L454L|PHF21B_uc011aql.1_Silent_p.L466L	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	508							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		GGCCCGGCCAGCAGTGGGGCA	0.672													20	78					0	0	1	0	0		A	45279040	A	A	45279040	2	1	151	1	0	0	0	0	0	0	0	1	11853	962	34	2		2	PHF21B	22	45279040	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	597648	45279040	6025526	4485	81650											
FAM118A	55007	broad.mit.edu	37	chr22	45719147	45719147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcagtggcccccggaatcCctgccctttgctcgtggaga	6	8	12	15	2	0	1	0	0	0	1	2	3	1	2	4	3	3	2	4	3	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:45719147C>A	uc003bfz.3	+	4	755	c.139C>A	c.(139-141)CCT>ACT	p.P47T	FAM118A_uc003bga.3_Missense_Mutation_p.P47T	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	47	Helical; (Potential).					integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CCCCGGAATCCCTGCCCTTTG	0.597													16	85					2.32078e-09	2.38489e-09	1	1	0		A	45719147	A	A	45719147	3	1	151	1	0	0	0	0	1	0	0	0	5422	623	22	5	145	5	FAM118A	22	45719147	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	440107	45719147	5585419	4486	81651											
FAM118A	55007	broad.mit.edu	37	chr22	45719217	45719217	+	Missense_Mutation	SNP	A	G	G	1	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	agagcagctggaggtgctgcAccccggagacgtcgccgagt	8	5	16	12	4	0	2	0	0	0	2	1	5	0	3	3	3	4	4	3	3	0	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:45719217A>G	uc003bfz.3	+	4	825	c.209A>G	c.(208-210)CAC>CGC	p.H70R	FAM118A_uc003bga.3_Missense_Mutation_p.H70R	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	70						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		GAGGTGCTGCACCCCGGAGAC	0.622													16	86					0	0	1	0	0		G	45719217	G	G	45719217	3	3	151	1	0	0	0	0	1	0	0	0	5422	159	6	3	215	3	FAM118A	22	45719217	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	70	45719217	5585349	4487	81652											
WNT7B	7477	broad.mit.edu	37	chr22	46318891	46318891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcacagccgtccgcgccggGcgacgtgcggttgcagagac	6	5	16	14	7	1	1	1	0	0	1	2	3	2	1	3	2	3	2	3	2	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:46318891G>A	uc003bgo.2	-	4	1269	c.895C>T	c.(895-897)CCC>TCC	p.P299S	WNT7B_uc010haa.2_Missense_Mutation_p.P303S	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	299					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		TCCGCGCCGGGCGACGTGCGG	0.642													5	64					0	0	1	0	0		A	46318891	A	A	46318891	3	1	151	1	0	0	0	0	1	0	0	0	17421	1203	42	2	158	2	WNT7B	22	46318891	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	599674	46318891	4985675	4488	81653											
WNT7B	7477	broad.mit.edu	37	chr22	46318963	46318963	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcctcctcgcagtagttggGcgacttctcaatgtacacca	8	11	9	13	2	1	0	1	0	1	0	5	1	3	0	3	1	1	4	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:46318963G>T	uc003bgo.2	-	4	1197	c.823C>A	c.(823-825)CCC>ACC	p.P275T	WNT7B_uc010haa.2_Missense_Mutation_p.P279T	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	275					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		CAGTAGTTGGGCGACTTCTCA	0.667													4	106					0.00909568	0.00914281	1	1	0		T	46318963	T	T	46318963	3	4	151	1	0	0	0	0	1	0	0	0	17421	1203	42	5	230	5	WNT7B	22	46318963	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	72	46318963	4985603	4489	81654											
PPARA	5465	broad.mit.edu	37	chr22	46614282	46614282	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcacaagtgcctttctgtCgggatgtcacacaacggtag	9	12	10	10	2	3	0	2	0	1	0	4	1	3	1	1	2	2	1	1	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:46614282C>T	uc003bgw.1	+	6	758	c.492C>T	c.(490-492)GTC>GTT	p.V164V	PPARA_uc003bgx.1_Silent_p.V164V|PPARA_uc010hab.1_Silent_p.V164V|PPARA_uc003bha.2_Silent_p.V164V|PPARA_uc003bhb.1_Silent_p.V164V|PPARA_uc010hac.1_Missense_Mutation_p.S29L	NM_005036	NP_005027	Q07869	PPARA_HUMAN	peroxisome proliferative activated receptor,	164	Nuclear receptor.				fatty acid metabolic process|fatty acid transport|negative regulation of appetite|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fatty acid beta-oxidation|regulation of cellular ketone metabolic process by positive regulation of transcription from an RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|ligand-regulated transcription factor activity|lipid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|ubiquitin conjugating enzyme binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00522)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Clofibrate(DB00636)|Fenofibrate(DB01039)|Gemfibrozil(DB01241)|Simvastatin(DB00641)	GCCTTTCTGTCGGGATGTCAC	0.488													54	169					0	0	1	0	0		T	46614282	T	T	46614282	2	4	151	1	0	0	0	0	0	0	0	1	12316	871	31	1		1	PPARA	22	46614282	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	295319	46614282	4690284	4490	81655											
PKDREJ	10343	broad.mit.edu	37	chr22	46655729	46655729	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacaggattagggatcacaAtcaccttggccatcacatag	13	8	8	12	0	3	0	3	0	0	0	3	2	3	2	3	3	0	0	3	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:46655729A>G	uc003bhh.2	-	1	3491	c.3491T>C	c.(3490-3492)ATT>ACT	p.I1164T		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1164	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		AGGGATCACAATCACCTTGGC	0.488													53	163					0	0	1	0	0		G	46655729	G	G	46655729	3	3	151	1	0	0	0	0	1	0	0	0	11989	101	4	3	3274	3	PKDREJ	22	46655729	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	41447	46655729	4648837	4491	81656											
CELSR1	9620	broad.mit.edu	37	chr22	46930187	46930187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccaaaggttgtacacggccaCattctcccggtccagccggc	8	7	10	16	3	1	0	0	0	1	0	3	0	2	0	5	4	2	2	5	4	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:46930187C>T	uc003bhw.1	-	1	2881	c.2881G>A	c.(2881-2883)GTG>ATG	p.V961M		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	961	Extracellular (Potential).|Cadherin 7.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TACACGGCCACATTCTCCCGG	0.607													13	39					0	0	1	0	0		T	46930187	T	T	46930187	3	4	151	1	0	0	0	0	1	0	0	0	3224	478	17	4	6303	4	CELSR1	22	46930187	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	274458	46930187	4374379	4492	81657											
GRAMD4	23151	broad.mit.edu	37	chr22	47068811	47068811	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccgaggctgcgcgccaagTacgacacgccctatatcatc	9	6	10	16	5	1	0	1	0	0	0	2	2	1	0	3	1	2	2	3	1	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:47068811T>A	uc003bhx.2	+	13	1195	c.1156T>A	c.(1156-1158)TAC>AAC	p.Y386N	GRAMD4_uc010had.2_Missense_Mutation_p.Y325N|GRAMD4_uc003bhy.2_5'Flank	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	386					apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		GCGCGCCAAGTACGACACGCC	0.607													6	45					0	0	1	0	0		A	47068811	A	A	47068811	3	1	151	1	0	0	0	0	1	0	0	0	6768	1638	57	5	1206	5	GRAMD4	22	47068811	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	138624	47068811	4235755	4493	81658											
BRD1	23774	broad.mit.edu	37	chr22	50197911	50197911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccgcagcaggggggcccCgttcctggacagccgcttga	5	5	15	16	4	0	1	0	1	0	0	1	2	1	2	6	4	2	4	6	4	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50197911C>T	uc003biv.2	-	2	1952	c.1465G>A	c.(1465-1467)GGG>AGG	p.G489R	BRD1_uc011arf.1_Missense_Mutation_p.G84R|BRD1_uc011arg.1_Missense_Mutation_p.G543R|BRD1_uc011arh.1_Missense_Mutation_p.G489R|BRD1_uc003biu.3_Missense_Mutation_p.G489R	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	489					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		AGGGGGGCCCCGTTCCTGGAC	0.612													10	37					0	0	1	0	0		T	50197911	T	T	50197911	3	4	151	1	0	0	0	0	1	0	0	0	1504	652	23	1	1755	1	BRD1	22	50197911	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3129100	50197911	1106655	4494	81659											
TUBGCP6	85378	broad.mit.edu	37	chr22	50664613	50664613	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagccatgtgtccagtacaActtatctaaggtagggtgaa	12	11	11	7	0	1	1	0	1	1	0	2	1	2	1	2	2	3	3	2	2	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50664613A>G	uc003bkb.1	-	9	2211	c.1699T>C	c.(1699-1701)TTG>CTG	p.L567L	TUBGCP6_uc010har.1_Silent_p.L567L|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_5'Flank|TUBGCP6_uc003bkd.1_5'UTR	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	567					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		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)		GTCCAGTACAACTTATCTAAG	0.577													53	191					0	0	1	0	0		G	50664613	G	G	50664613	2	3	151	1	0	0	0	0	0	0	0	1	16796	40	2	3		3	TUBGCP6	22	50664613	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	466702	50664613	639953	4495	81660											
PLXNB2	23654	broad.mit.edu	37	chr22	50728169	50728169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccaggcgcagccacggagGcggccaggcaggtgccaaag	10	1	17	13	3	0	0	0	0	0	0	0	1	0	1	4	6	3	2	4	6	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50728169G>A	uc003bkv.3	-	3	951	c.845C>T	c.(844-846)GCC>GTC	p.A282V		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	282	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		AGCCACGGAGGCGGCCAGGCA	0.662													9	31					0	0	1	0	0		A	50728169	A	A	50728169	3	1	151	1	0	0	0	0	1	0	0	0	12143	1203	42	2	4811	2	PLXNB2	22	50728169	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	63556	50728169	576397	4496	81661											
SBF1	6305	broad.mit.edu	37	chr22	50897733	50897733	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctaagcgtgttgcgtccCgacgcgtcggcgtagcgggg	4	7	17	13	9	0	0	0	0	0	0	2	1	1	0	2	3	3	3	2	3	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50897733C>T	uc003blh.2	-	28	3972	c.3777G>A	c.(3775-3777)TCG>TCA	p.S1259S	SBF1_uc011arx.1_Silent_p.S923S	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1259	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		TGTTGCGTCCCGACGCGTCGG	0.677													4	23					0	0	1	0	0		T	50897733	T	T	50897733	2	4	151	1	0	0	0	0	0	0	0	1	13883	639	23	1		1	SBF1	22	50897733	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	169564	50897733	406833	4497	81662											
SBF1	6305	broad.mit.edu	37	chr22	50898519	50898519	+	Missense_Mutation	SNP	A	G	G	1	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	ccctttccaccaggctgctcAtggtcatgcggtcggagggc	5	9	13	14	2	2	0	2	0	0	0	4	1	3	1	3	5	2	2	3	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50898519A>G	uc003blh.2	-	26	3548	c.3353T>C	c.(3352-3354)ATG>ACG	p.M1118T	SBF1_uc011arx.1_Missense_Mutation_p.M782T	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1118					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		CAGGCTGCTCATGGTCATGCG	0.677													10	38					0	0	1	0	0		G	50898519	G	G	50898519	3	3	151	1	0	0	0	0	1	0	0	0	13883	217	8	3	2392	3	SBF1	22	50898519	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	786	50898519	406047	4498	81663											
SBF1	6305	broad.mit.edu	37	chr22	50900413	50900413	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccccttgaggtggtcgctGgtgaccccactctccgtgca	5	9	12	15	2	1	2	0	2	1	0	3	2	1	2	5	3	2	2	5	3	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50900413G>T	uc003blh.2	-	20	2727	c.2532C>A	c.(2530-2532)ACC>ACA	p.T844T	SBF1_uc011arx.1_Silent_p.T508T|SBF1_uc003bli.2_Silent_p.T845T	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	844					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GGTGGTCGCTGGTGACCCCAC	0.612													10	103					4.3838e-07	4.47273e-07	1	1	0		T	50900413	T	T	50900413	2	4	151	1	0	0	0	0	0	0	0	1	13883	1335	47	5		5	SBF1	22	50900413	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1894	50900413	404153	4499	81664											
SBF1	6305	broad.mit.edu	37	chr22	50906258	50906258	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggtcaagcaggcgcagTagtggcgctcggagttgatg	10	7	17	7	3	1	2	1	1	0	1	2	3	1	3	0	4	1	5	0	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50906258T>C	uc003blh.2	-	3	431	c.236A>G	c.(235-237)TAC>TGC	p.Y79C	SBF1_uc011arx.1_5'Flank|SBF1_uc003bli.2_Missense_Mutation_p.Y79C	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	79	UDENN.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GCAGGCGCAGTAGTGGCGCTC	0.612													3	18					0	0	1	0	0		C	50906258	C	C	50906258	3	2	151	1	0	0	0	0	1	0	0	0	13883	1638	57	3	5601	3	SBF1	22	50906258	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	5845	50906258	398308	4500	81665											
MIOX	55586	broad.mit.edu	37	chr22	50928213	50928213	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaagtgcccggacctgccGgacgtggacaagctgcggcc	8	4	14	15	4	0	0	0	0	0	0	0	3	0	3	5	4	4	1	5	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50928213G>A	uc003bll.1	+	10	900	c.786G>A	c.(784-786)CCG>CCA	p.P262P	MIOX_uc003blm.1_Missense_Mutation_p.G258R|MIOX_uc003bln.1_Missense_Mutation_p.G219R	NM_017584	NP_060054	Q9UGB7	MIOX_HUMAN	myo-inositol oxygenase	262					inositol catabolic process	cytoplasm|inclusion body	aldo-keto reductase (NADP) activity|ferric iron binding|inositol oxygenase activity				0		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;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CGGACCTGCCGGACGTGGACA	0.652													20	58					0	0	1	0	0		A	50928213	A	A	50928213	2	1	151	1	0	0	0	0	0	0	0	1	9608	1103	39	1		1	MIOX	22	50928213	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	21955	50928213	376353	4501	81666											
KLHDC7B	113730	broad.mit.edu	37	chr22	50987826	50987826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgggctgctctatgccatcGgtggcgaatgcctgtacagc	7	9	13	12	3	1	0	0	0	1	0	2	1	1	0	2	3	5	3	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:50987826G>A	uc003bmi.2	+	1	1365	c.1231G>A	c.(1231-1233)GGT>AGT	p.G411S		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	411	Kelch 3.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|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)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTATGCCATCGGTGGCGAATG	0.662													26	85					0	0	1	0	0		A	50987826	A	A	50987826	3	1	151	1	0	0	0	0	1	0	0	0	8377	1116	39	1	1233	1	KLHDC7B	22	50987826	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	59613	50987826	316740	4502	81667											
CHKB	1120	broad.mit.edu	37	chr22	51018465	51018465	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaggccattcctcgtgagTataatcataaacccactcac	14	9	6	12	1	2	1	2	1	0	0	4	2	3	1	3	1	1	1	3	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:51018465T>C	uc003bms.2	-	8	1083	c.865A>G	c.(865-867)ACT>GCT	p.T289A	CPT1B_uc003bmk.3_5'Flank|CPT1B_uc003bml.2_5'Flank|CPT1B_uc003bmm.2_5'Flank|CPT1B_uc003bmo.2_5'Flank|CPT1B_uc011asa.1_5'Flank|CPT1B_uc003bmn.2_5'Flank|CPT1B_uc011asb.1_5'Flank|CHKB-CPT1B_uc003bmp.2_5'Flank|CHKB-CPT1B_uc003bmt.1_Missense_Mutation_p.T80A|CHKB-CPT1B_uc003bmu.2_Missense_Mutation_p.T168A|CHKB_uc003bmv.2_Missense_Mutation_p.T289A|LOC100144603_uc003bmw.3_5'Flank	NM_005198	NP_005189	Q9Y259	CHKB_HUMAN	choline kinase beta	289					phosphatidylethanolamine biosynthetic process		ATP binding|choline kinase activity|ethanolamine kinase activity				0		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)	TCCTCGTGAGTATAATCATAA	0.532													31	175					0	0	1	0	0		C	51018465	C	C	51018465	3	2	151	1	0	0	0	0	1	0	0	0	3351	1638	57	3	338	3	CHKB	22	51018465	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	30639	51018465	286101	4503	81668											
MAPK8IP2	23542	broad.mit.edu	37	chr22	51040316	51040316	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagctacgactcagaccactGtgagaaggtgggagaagagt	13	6	14	8	1	1	4	1	1	0	4	1	7	1	4	1	2	2	1	1	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:51040316G>A	uc003bmx.2	+	2	281	c.164G>A	c.(163-165)TGT>TAT	p.C55Y	MAPK8IP2_uc003bmy.2_5'Flank	NM_012324	NP_036456	Q13387	JIP2_HUMAN	mitogen-activated protein kinase 8 interacting	55					behavioral fear response|dendrite morphogenesis|MAPKKK cascade|nonassociative learning|positive regulation of anti-apoptosis|regulation of excitatory postsynaptic membrane potential|regulation of JNK cascade|regulation of receptor activity|regulation of synaptic transmission, glutamatergic|signal complex assembly|social behavior	cytoplasm|postsynaptic density	beta-amyloid binding|kinesin binding|MAP-kinase scaffold activity|protein kinase activator activity|protein kinase binding			large_intestine(2)|central_nervous_system(1)	3		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		OV - Ovarian serous cystadenocarcinoma(4;1.28e-70)|Epithelial(4;3.46e-65)|GBM - Glioblastoma multiforme(4;4.83e-06)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TCAGACCACTGTGAGAAGGTG	0.537													14	60					0	0	1	0	0		A	51040316	A	A	51040316	3	1	151	1	0	0	0	0	1	0	0	0	9303	1377	48	4	170	4	MAPK8IP2	22	51040316	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	21851	51040316	264250	4504	81669											
ACR	49	broad.mit.edu	37	chr22	51177745	51177745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacccacagggtggtgtcCgcatcgtcggcgggaaggct	9	6	15	11	4	0	0	0	0	0	0	3	1	1	1	2	5	1	2	2	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chr22:51177745C>T	uc003bnh.3	+	2	136	c.124C>T	c.(124-126)CGC>TGC	p.R42C	uc003bng.2_5'Flank|ACR_uc010hbh.1_Missense_Mutation_p.R42C	NM_001097	NP_001088	P10323	ACRO_HUMAN	acrosin precursor	42					acrosome matrix dispersal|activation of adenylate cyclase activity	acrosomal matrix|protein complex	amidase activity|copper ion binding|DNA binding|drug binding|fucose binding|mannose binding|protein binding|serine-type endopeptidase activity|zinc ion binding				0		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;1.1e-06)|LUAD - Lung adenocarcinoma(64;0.247)		GGGTGGTGTCCGCATCGTCGG	0.607													3	8					0	0	1	0	0		T	51177745	T	T	51177745	3	4	151	1	0	0	0	0	1	0	0	0	169	652	23	1	130	1	ACR	22	51177745	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	137429	51177745	126821	4505	81670											
PPP2R3B	28227	broad.mit.edu	37	chrX	301587	301587	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccatgctgtccagccttcGgcactgctcctcgtagaagt	6	10	11	14	2	0	1	0	0	0	1	4	1	2	1	4	2	3	4	4	2	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:301587G>A	uc004cpg.2	-	10	1465	c.1264C>T	c.(1264-1266)CGA>TGA	p.R422*	PPP2R3B_uc004cpf.2_Nonsense_Mutation_p.R23*	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	422	EF-hand.				cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TCCAGCCTTCGGCACTGCTCC	0.642													23	27					0	0	1	0	0		A	301587	A	A	301587	4	1	151	1	0	0	0	0	0	1	0	0	12411	1124	39	1	479	1	PPP2R3B	23	301587	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08		301587	154968973	4506	81671											
CRLF2	64109	broad.mit.edu	37	chrX	1321300	1321300	+	RNA	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtgtcgaaggggctccggTactgaacctcatagaggaga	10	7	15	9	3	1	3	1	1	0	2	3	5	2	3	2	5	2	2	2	5	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:1321300T>C	uc004cpm.1	-	4		c.455A>G						Q9HC73	CRLF2_HUMAN	Homo sapiens mRNA for IL-XR, complete cds.							extracellular region|integral to membrane|plasma membrane	receptor activity			haematopoietic_and_lymphoid_tissue(7)	7		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				GGGGCTCCGGTACTGAACCTC	0.637			Mis|T	P2RY8|IGH@	B-ALL|Downs associated ALL								17	40					0	0	1	0	0		C	1321300	C	C	1321300	1	2	151	0	1	0	0	0	0	0	0	0	3890	1638	57	3		3	CRLF2	23	1321300	RNA	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1019713	1321300	153949260	4507	81672											
ZBED1	9189	broad.mit.edu	37	chrX	2406722	2406722	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaagaaaccgccgctgacgCcatcccccaaggagaacacc	14	2	8	17	3	0	3	0	1	0	2	1	4	1	3	6	1	2	1	6	1	4	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:2406722C>G	uc004cqg.2	-	2	2240	c.2039G>C	c.(2038-2040)GGC>GCC	p.G680A	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Missense_Mutation_p.G680A	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	680						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCCGCTGACGCCATCCCCCAA	0.612													5	49					0	0	1	0	0		G	2406722	G	G	2406722	3	3	151	1	0	0	0	0	1	0	0	0	17543	739	26	5	49	5	ZBED1	23	2406722	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1085422	2406722	152863838	4508	81673											
MXRA5	25878	broad.mit.edu	37	chrX	3227797	3227797	+	Missense_Mutation	SNP	A	T	T	1	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	ttgttttggagtcactgccgAgaatgttttttgccatgcac	7	16	10	8	1	1	1	1	0	0	1	1	3	1	2	2	1	3	3	2	1	1	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:3227797A>T	uc004crg.3	-	7	8604	c.8447T>A	c.(8446-8448)CTC>CAC	p.L2816H		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2816	Ig-like C2-type 12.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GTCACTGCCGAGAATGTTTTT	0.468													13	25					0	0	1	0	0		T	3227797	T	T	3227797	3	4	151	1	0	0	0	0	1	0	0	0	10021	304	11	5	43	5	MXRA5	23	3227797	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	821075	3227797	152042763	4509	81674											
MXRA5	25878	broad.mit.edu	37	chrX	3239210	3239210	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctggcttagtggtggtggTttgtcccaaagacatgagaa	9	12	14	6	0	0	2	0	1	0	2	1	3	1	2	1	4	1	3	1	4	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:3239210T>C	uc004crg.3	-	5	4673	c.4516A>G	c.(4516-4518)ACC>GCC	p.T1506A		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1506						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GTGGTGGTGGTTTGTCCCAAA	0.473													36	107					0	0	1	0	0		C	3239210	C	C	3239210	3	2	151	1	0	0	0	0	1	0	0	0	10021	1725	60	3	3982	3	MXRA5	23	3239210	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	11413	3239210	152031350	4510	81675											
PRKX	5613	broad.mit.edu	37	chrX	3573212	3573212	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctaccagcttcttggcgaAcccaaagtccgtgagcttaa	10	10	9	12	2	2	1	0	1	2	0	3	2	3	1	3	1	4	2	3	1	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:3573212A>G	uc010nde.2	-	3	944	c.577T>C	c.(577-579)TTC>CTC	p.F193L		NM_005044	NP_005035	P51817	PRKX_HUMAN	protein kinase, X-linked	193	Protein kinase.						ATP binding|cAMP-dependent protein kinase activity			skin(2)|lung(1)	3		all_lung(23;0.000396)|Lung NSC(23;0.00123)				TTCTTGGCGAACCCAAAGTCC	0.517													22	93					0	0	1	0	0		G	3573212	G	G	3573212	3	3	151	1	0	0	0	0	1	0	0	0	12549	43	2	3	523	3	PRKX	23	3573212	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	334002	3573212	151697348	4511	81676											
PNPLA4	8228	broad.mit.edu	37	chrX	7889822	7889822	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctggttttggcgttggtgaTggatacgtgcagtcggttct	4	16	15	6	3	2	1	0	1	2	0	3	2	2	2	0	5	2	4	0	5	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:7889822T>C	uc011mhq.1	-	4	505	c.343A>G	c.(343-345)ATC>GTC	p.I115V	PNPLA4_uc011mhr.1_Missense_Mutation_p.I115V|PNPLA4_uc011mhs.1_Missense_Mutation_p.I28V	NM_004650	NP_004641	P41247	PLPL4_HUMAN	patatin-like phospholipase domain containing 4	115	Patatin.				lipid catabolic process		triglyceride lipase activity				0		Colorectal(8;0.0329)|Medulloblastoma(8;0.232)				GCGTTGGTGATGGATACGTGC	0.458													9	106					0	0	1	0	0		C	7889822	C	C	7889822	3	2	151	1	0	0	0	0	1	0	0	0	12186	1464	51	3	434	3	PNPLA4	23	7889822	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4316610	7889822	147380738	4512	81677											
KAL1	3730	broad.mit.edu	37	chrX	8538577	8538577	+	Missense_Mutation	SNP	A	G	G	1	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	tccgcttcttctttgttgggAcaagagacttactgctgacc	7	14	9	11	1	2	2	0	1	2	1	3	4	3	3	2	1	2	3	2	1	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:8538577A>G	uc004csf.2	-	7	1175	c.1025T>C	c.(1024-1026)GTC>GCC	p.V342A		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	342	Fibronectin type-III 2.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						CTTTGTTGGGACAAGAGACTT	0.502													10	32					0	0	1	0	0		G	8538577	G	G	8538577	3	3	151	1	0	0	0	0	1	0	0	0	7990	275	10	3	1049	3	KAL1	23	8538577	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	648755	8538577	146731983	4513	81678											
CLCN4	1183	broad.mit.edu	37	chrX	10181871	10181871	+	Missense_Mutation	SNP	T	A	A	0	1	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	aggcatctacgaggcccacaTccacttaaatgggtaccctt	11	9	8	13	1	1	0	0	0	1	0	2	1	2	0	3	3	2	2	3	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:10181871T>A	uc004csy.3	+	11	2157	c.1727T>A	c.(1726-1728)ATC>AAC	p.I576N	CLCN4_uc011mid.1_Missense_Mutation_p.I482N	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	576	Cytoplasmic (By similarity).					early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GAGGCCCACATCCACTTAAAT	0.607													16	64					0	0	1	0	0		A	10181871	A	A	10181871	3	1	151	1	0	0	0	0	1	0	0	0	3468	1435	50	5	1761	5	CLCN4	23	10181871	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1643294	10181871	145088689	4514	81679											
MID1	4281	broad.mit.edu	37	chrX	10534991	10534991	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgcggtgccgcccaaccagTttacacaaggcacagattaa	12	7	9	13	3	0	1	0	0	0	1	1	1	0	1	3	2	3	2	3	2	4	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:10534991T>C	uc004cte.3	-	2	788	c.597A>G	c.(595-597)AAA>AAG	p.K199K	MID1_uc004ctd.3_5'Flank|MID1_uc004ctg.3_Silent_p.K199K|MID1_uc004cth.3_Intron|MID1_uc004ctk.3_Silent_p.K199K|MID1_uc004cti.3_Silent_p.K199K|MID1_uc004ctj.3_Silent_p.K199K|MID1_uc011mie.1_Intron|MID1_uc004ctm.1_Silent_p.K199K|MID1_uc004ctn.1_Silent_p.K199K|MID1_uc004cto.1_Intron|MID1_uc010ndw.1_5'Flank|MID1_uc004cts.1_5'Flank|MID1_uc004ctt.2_Silent_p.K199K|MID1_uc004ctu.2_Silent_p.K199K|MID1_uc004ctv.2_Intron|MID1_uc004ctw.2_Intron|MID1_uc010ndy.1_Silent_p.K199K|uc010ndz.1_5'Flank|MID1_uc004cty.2_Intron|MID1_uc004ctz.1_5'Flank|MID1_uc004cua.1_RNA|MID1_uc004cub.1_Silent_p.K199K|MID1_uc010nea.1_Intron|MID1_uc004cuc.1_Silent_p.K199K|MID1_uc004cud.1_Silent_p.K199K|MID1_uc004cue.1_Intron|MID1_uc004cuf.1_Intron	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	199	B box-type 2.				microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						GCCCAACCAGTTTACACAAGG	0.527													20	56					0	0	1	0	0		C	10534991	C	C	10534991	2	2	151	1	0	0	0	0	0	0	0	1	9594	1722	60	3		3	MID1	23	10534991	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	353120	10534991	144735569	4515	81680											
MSL3	10943	broad.mit.edu	37	chrX	11778586	11778586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaaaatcgtagattacagCgtaaattggcaagaaaagct	18	9	9	5	2	0	3	0	1	0	2	1	3	0	3	0	1	3	4	0	1	9	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:11778586C>T	uc004cuw.2	+	3	355	c.250C>T	c.(250-252)CGT>TGT	p.R84C	MSL3_uc004cuv.1_Missense_Mutation_p.R84C|MSL3_uc004cux.2_Missense_Mutation_p.R25C|MSL3_uc011mig.1_5'UTR|MSL3_uc011mih.1_Missense_Mutation_p.R72C|MSL3_uc004cuy.2_5'UTR|MSL3_uc011mii.1_5'UTR	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	84	Chromo.				histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAGATTACAGCGTAAATTGGC	0.343													66	50					0	0	1	0	0		T	11778586	T	T	11778586	3	4	151	1	0	0	0	0	1	0	0	0	9897	768	27	1	260	1	MSL3	23	11778586	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	1243595	11778586	143491974	4516	81681											
FRMPD4	9758	broad.mit.edu	37	chrX	12728653	12728653	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacacagcgacccaggaaAcaggtattctcttcctgaac	15	7	7	12	1	1	1	0	1	1	0	3	3	2	2	2	2	4	1	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:12728653A>C	uc004cuz.1	+	14	2112	c.1606A>C	c.(1606-1608)ACA>CCA	p.T536P	FRMPD4_uc011mij.1_Missense_Mutation_p.T528P	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	536					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GACCCAGGAAACAGGTATTCT	0.443													4	158					0	0	1	0	0		C	12728653	C	C	12728653	3	2	151	1	0	0	0	0	1	0	0	0	6073	43	2	5	1660	5	FRMPD4	23	12728653	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	950067	12728653	142541907	4517	81682											
PRPS2	5634	broad.mit.edu	37	chrX	12837742	12837742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacgtgaaggaccgtgtggCcatcctcgtggatgacatgg	8	8	15	10	4	0	2	0	2	0	0	2	5	1	4	3	4	0	0	3	4	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:12837742C>T	uc004cvb.2	+	5	771	c.647C>T	c.(646-648)GCC>GTC	p.A216V	PRPS2_uc004cva.2_Missense_Mutation_p.A219V|PRPS2_uc010nec.2_Intron	NM_002765	NP_002756	P11908	PRPS2_HUMAN	phosphoribosyl pyrophosphate synthetase 2	216	Binding of phosphoribosylpyrophosphate (Potential).				nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity				0						GACCGTGTGGCCATCCTCGTG	0.557													67	177					0	0	1	0	0		T	12837742	T	T	12837742	3	4	151	1	0	0	0	0	1	0	0	0	12602	739	26	2	674	2	PRPS2	23	12837742	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	109089	12837742	142432818	4518	81683											
GEMIN8	54960	broad.mit.edu	37	chrX	14027269	14027269	+	Missense_Mutation	SNP	A	T	T	1	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	tagctgtccaggcgctctgcAtccagctgctgctgccgccc	4	9	11	17	2	1	0	0	0	1	0	3	0	3	0	4	1	6	6	4	1	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:14027269A>T	uc004cwb.2	-	5	835	c.492T>A	c.(490-492)GAT>GAA	p.D164E	GEMIN8_uc004cwc.2_Missense_Mutation_p.D164E|GEMIN8_uc004cwd.2_Missense_Mutation_p.D164E	NM_017856	NP_060326	Q9NWZ8	GEMI8_HUMAN	gem (nuclear organelle) associated protein 8	164	Potential.				spliceosomal snRNP assembly	Cajal body|cytoplasm|SMN complex|spliceosomal complex	protein binding				0						GGCGCTCTGCATCCAGCTGCT	0.597													16	49					0	0	1	0	0		T	14027269	T	T	14027269	3	4	151	1	0	0	0	0	1	0	0	0	6349	214	8	5	240	5	GEMIN8	23	14027269	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1189527	14027269	141243291	4519	81684											
GLRA2	2742	broad.mit.edu	37	chrX	14548222	14548222	+	Frame_Shift_Del	DEL	T	-	-																															ttttgacagccttgtttgcaTttttcttagagacaaaccac																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:14548222delT	uc010nep.2	+	2	375	c.43delT	c.(43-45)TTTfs	p.F15fs	GLRA2_uc010neq.2_Frame_Shift_Del_p.F15fs|GLRA2_uc004cwe.3_Frame_Shift_Del_p.F15fs|GLRA2_uc011mio.1_5'UTR|GLRA2_uc011mip.1_5'Flank	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	15					neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	CTTGTTTGCATTTTTCTTAGA	0.363													35	80	---	---	---	---						.	-	14548222	-	-	14548222	7	5	151	1	0	1	0	1	0	0	0	0	6470	1493	52	0	45	0	GLRA2	23	14548222	Frame_Shift_Del	DEL	T	TCGA-CG-5721-01A-11D-1600-08	520953	14548222	140722338	4520	81685											
GLRA2	2742	broad.mit.edu	37	chrX	14599525	14599525	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggcaaagtgctctacagtaTcaggtaagcctccattggct	10	11	10	10	0	2	0	1	0	1	0	3	0	3	0	2	3	3	5	2	3	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:14599525T>C	uc010nep.2	+	5	823	c.491T>C	c.(490-492)ATC>ACC	p.I164T	GLRA2_uc010neq.2_Missense_Mutation_p.I164T|GLRA2_uc004cwe.3_Missense_Mutation_p.I164T|GLRA2_uc011mio.1_Missense_Mutation_p.I75T|GLRA2_uc011mip.1_Missense_Mutation_p.I142T	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	164	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	CTCTACAGTATCAGGTAAGCC	0.438													3	82					0	0	1	0	0		C	14599525	C	C	14599525	3	2	151	1	0	0	0	0	1	0	0	0	6470	1435	50	3	577	3	GLRA2	23	14599525	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	51303	14599525	140671035	4521	81686											
FANCB	2187	broad.mit.edu	37	chrX	14883327	14883327	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaatattcaaaaacattAttctttttatttttttctat	16	21	0	4	0	3	0	1	0	2	0	3	0	3	0	0	0	1	0	0	0	9	11			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:14883327A>G	uc004cwg.1	-	3	574	c.306T>C	c.(304-306)AAT>AAC	p.N102N	FANCB_uc004cwh.1_Silent_p.N102N	NM_001018113	NP_001018123	Q8NB91	FANCB_HUMAN	Fanconi anemia complementation group B	102					DNA repair	nucleoplasm				lung(1)	1	Hepatocellular(33;0.183)					CAAAAACATTATTCTTTTTAT	0.303								Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				18	50					0	0	1	0	0		G	14883327	G	G	14883327	2	3	151	1	0	0	0	0	0	0	0	1	5677	446	16	3		3	FANCB	23	14883327	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	283802	14883327	140387233	4522	81687											
ASB11	140456	broad.mit.edu	37	chrX	15311390	15311390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgacacatgcagcactgccgCtgcagcaagcattgaagagg	12	6	12	11	1	0	3	0	2	0	1	0	3	0	3	1	1	6	6	1	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:15311390C>T	uc004cwp.1	-	4	422	c.422G>A	c.(421-423)AGC>AAC	p.S141N	ASB11_uc004cwo.1_Missense_Mutation_p.S120N|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Missense_Mutation_p.S124N	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	141	ANK 3.				intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					AGCACTGCCGCTGCAGCAAGC	0.537													99	64					0	0	1	0	0		T	15311390	T	T	15311390	3	4	151	1	0	0	0	0	1	0	0	0	1016	797	28	2	565	2	ASB11	23	15311390	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	428063	15311390	139959170	4523	81688											
BMX	660	broad.mit.edu	37	chrX	15552464	15552464	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaacacaattcagcaggTaacttattttagtttttctt	12	17	4	8	0	3	0	2	0	1	0	3	0	3	0	0	1	3	3	0	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:15552464T>C	uc004cww.2	+	12	1335	c.1147_splice	c.e12+2	p.G383_splice	BMX_uc004cwx.3_Splice_Site_p.G383_splice|BMX_uc004cwy.3_Splice_Site_p.G383_splice	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase						cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					ATTCAGCAGGTAACTTATTTT	0.333													4	172					0	0	1	0	0		C	15552464	C	C	15552464	5	2	151	1	0	0	0	0	0	0	1	0	1474	1652	57	3	1191	3	BMX	23	15552464	Splice_Site	SNP	T	TCGA-CG-5721-01A-11D-1600-08	241074	15552464	139718096	4524	81689											
BMX	660	broad.mit.edu	37	chrX	15555366	15555366	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcagtatgatgttgctgtTaagatgatcaaggagggctc	10	11	15	5	0	1	3	1	2	0	1	2	4	1	4	0	3	1	6	0	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:15555366T>C	uc004cww.2	+	14	1520	c.1332T>C	c.(1330-1332)GTT>GTC	p.V444V	BMX_uc004cwx.3_Silent_p.V444V|BMX_uc004cwy.3_Silent_p.V444V	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	444	Protein kinase.				cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					ATGTTGCTGTTAAGATGATCA	0.473													30	87					0	0	1	0	0		C	15555366	C	C	15555366	2	2	151	1	0	0	0	0	0	0	0	1	1474	1741	61	3		3	BMX	23	15555366	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2902	15555366	139715194	4525	81690											
SYAP1	94056	broad.mit.edu	37	chrX	16775393	16775393	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggaaagaaatggagcaactaGtgcttgacaaaaagcaagag	19	5	12	5	0	0	3	0	1	0	2	0	5	0	5	0	2	4	3	0	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:16775393G>A	uc004cxp.2	+	8	985	c.892G>A	c.(892-894)GTG>ATG	p.V298M	SYAP1_uc004cxo.2_Missense_Mutation_p.V298M|SYAP1_uc011miv.1_Missense_Mutation_p.V264M	NM_032796	NP_116185	Q96A49	SYAP1_HUMAN	SYAP1 protein	298										skin(1)	1	Hepatocellular(33;0.0997)					GGAGCAACTAGTGCTTGACAA	0.393													42	79					0	0	1	0	0		A	16775393	A	A	16775393	3	1	151	1	0	0	0	0	1	0	0	0	15451	1029	36	4	922	4	SYAP1	23	16775393	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1220027	16775393	138495167	4526	81691											
SCML1	6322	broad.mit.edu	37	chrX	17771410	17771410	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggctctgctcctactcacGagtgacgtgttgctgaagca	9	10	11	11	2	2	2	1	2	1	0	3	3	3	2	1	1	4	5	1	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:17771410G>A	uc004cyb.2	+	8	1213	c.888G>A	c.(886-888)ACG>ACA	p.T296T	SCML1_uc004cyc.2_Silent_p.T269T|SCML1_uc004cyd.2_Silent_p.T175T|SCML1_uc004cye.2_Silent_p.T175T	NM_001037540	NP_001032629	Q9UN30	SCML1_HUMAN	sex comb on midleg-like 1 isoform a	296	SAM.				anatomical structure morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)	3	Hepatocellular(33;0.183)					TCCTACTCACGAGTGACGTGT	0.413													8	138					0	0	1	0	0		A	17771410	A	A	17771410	2	1	151	1	0	0	0	0	0	0	0	1	13934	1045	37	1		1	SCML1	23	17771410	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	996017	17771410	137499150	4527	81692											
RAI2	10742	broad.mit.edu	37	chrX	17819375	17819375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttggattcagaactctgaggCatcgggatggggatgggaat	10	10	16	5	1	2	2	1	1	1	1	3	6	2	6	0	6	1	1	0	6	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:17819375C>T	uc004cyf.2	-	3	1326	c.756G>A	c.(754-756)ATG>ATA	p.M252I	RAI2_uc004cyg.2_Missense_Mutation_p.M252I|RAI2_uc010nfa.2_Missense_Mutation_p.M252I|RAI2_uc004cyh.3_Missense_Mutation_p.M252I|RAI2_uc011miy.1_Missense_Mutation_p.M202I	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	252	Pro-rich.				embryo development					ovary(1)|breast(1)	2	Hepatocellular(33;0.183)					AACTCTGAGGCATCGGGATGG	0.587													63	46					0	0	1	0	0		T	17819375	T	T	17819375	3	4	151	1	0	0	0	0	1	0	0	0	13034	710	25	2	840	2	RAI2	23	17819375	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	47965	17819375	137451185	4528	81693											
GPR64	10149	broad.mit.edu	37	chrX	19020962	19020962	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcaggcaagcttatacatAccccaaccgacaatgcagaa	16	6	7	12	1	0	1	0	0	0	1	0	2	0	1	3	1	6	4	3	1	7	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:19020962A>G	uc004cyx.2	-	24	2394	c.2230_splice	c.e24+1	p.G744_splice	GPR64_uc004cyy.2_Splice_Site_p.G741_splice|GPR64_uc004cyz.2_Splice_Site_p.G730_splice|GPR64_uc004czb.2_Splice_Site_p.G744_splice|GPR64_uc004czc.2_Splice_Site_p.G728_splice|GPR64_uc004czd.2_Splice_Site_p.G720_splice|GPR64_uc004cze.2_Splice_Site_p.G714_splice|GPR64_uc004czf.2_Splice_Site_p.G706_splice|GPR64_uc004cza.2_Splice_Site_p.G722_splice|GPR64_uc004cyw.2_Splice_Site_p.G728_splice|GPR64_uc010nfj.2_Splice_Site_p.G625_splice	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1						neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					GCTTATACATACCCCAACCGA	0.423													27	97					0	0	1	0	0		G	19020962	G	G	19020962	5	3	151	1	0	0	0	0	0	0	1	0	6720	405	14	3	845	3	GPR64	23	19020962	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1201587	19020962	136249598	4529	81694											
GPR64	10149	broad.mit.edu	37	chrX	19031984	19031984	+	Missense_Mutation	SNP	A	G	G	1	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	gctggaagctatgggagctgAaggctggggtgaaaggggtt	9	8	20	4	0	0	2	0	2	0	0	0	4	0	4	0	7	2	5	0	7	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:19031984A>G	uc004cyx.2	-	16	1083	c.919T>C	c.(919-921)TCA>CCA	p.S307P	GPR64_uc004cyy.2_Missense_Mutation_p.S304P|GPR64_uc004cyz.2_Missense_Mutation_p.S293P|GPR64_uc004czb.2_Missense_Mutation_p.S307P|GPR64_uc004czc.2_Missense_Mutation_p.S291P|GPR64_uc004czd.2_Missense_Mutation_p.S283P|GPR64_uc004cze.2_Missense_Mutation_p.S277P|GPR64_uc004czf.2_Missense_Mutation_p.S269P|GPR64_uc004cza.2_Missense_Mutation_p.S285P|GPR64_uc004cyw.2_Missense_Mutation_p.S291P|GPR64_uc010nfj.2_Missense_Mutation_p.S277P	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	307	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					ATGGGAGCTGAAGGCTGGGGT	0.557													59	46					0	0	1	0	0		G	19031984	G	G	19031984	3	3	151	1	0	0	0	0	1	0	0	0	6720	246	9	3	2190	3	GPR64	23	19031984	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	11022	19031984	136238576	4530	81695											
GPR64	10149	broad.mit.edu	37	chrX	19041550	19041550	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacctttgggcctctgctgTagcacacattataaagtaag	11	12	9	9	0	1	1	0	1	1	0	1	1	1	1	2	1	2	4	2	1	5	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:19041550T>C	uc004cyx.2	-	13	696	c.532A>G	c.(532-534)ACA>GCA	p.T178A	GPR64_uc004cyy.2_Missense_Mutation_p.T175A|GPR64_uc004cyz.2_Missense_Mutation_p.T164A|GPR64_uc004czb.2_Missense_Mutation_p.T178A|GPR64_uc004czc.2_Missense_Mutation_p.T162A|GPR64_uc004czd.2_Missense_Mutation_p.T154A|GPR64_uc004cze.2_Missense_Mutation_p.T148A|GPR64_uc004czf.2_Missense_Mutation_p.T140A|GPR64_uc004cza.2_Missense_Mutation_p.T156A|GPR64_uc004cyw.2_Missense_Mutation_p.T162A|GPR64_uc010nfj.2_Missense_Mutation_p.T148A	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	178	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					GCCTCTGCTGTAGCACACATT	0.308													19	60					0	0	1	0	0		C	19041550	C	C	19041550	3	2	151	1	0	0	0	0	1	0	0	0	6720	1638	57	3	2589	3	GPR64	23	19041550	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9566	19041550	136229010	4531	81696											
SH3KBP1	30011	broad.mit.edu	37	chrX	19560215	19560215	+	Frame_Shift_Del	DEL	G	-	-																															tgttcccaaagaggatgacaGgggggagggcgccgctgagg																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:19560215delG	uc004czm.2	-	16	2036	c.1720delC	c.(1720-1722)CTGfs	p.L574fs	SH3KBP1_uc011mje.1_Frame_Shift_Del_p.L313fs|SH3KBP1_uc011mjf.1_Frame_Shift_Del_p.L336fs|SH3KBP1_uc004czl.2_Frame_Shift_Del_p.L537fs|SH3KBP1_uc010nfm.2_Frame_Shift_Del_p.L19fs	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	574					apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						GAGGATGACAGGGGGGAGGGC	0.647													33	34	---	---	---	---						.	-	19560215	-	-	19560215	7	5	151	1	0	1	0	1	0	0	0	0	14280	991	35	0	289	0	SH3KBP1	23	19560215	Frame_Shift_Del	DEL	G	TCGA-CG-5721-01A-11D-1600-08	518665	19560215	135710345	4532	81697											
RPS6KA3	6197	broad.mit.edu	37	chrX	20190977	20190977	+	Missense_Mutation	SNP	T	C	C	0	1	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	atcagtaaactgaatactgtTcctgtgtaactgctacaaaa	15	12	6	8	0	1	1	1	1	0	0	2	1	2	1	1	0	5	4	1	0	8	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:20190977T>C	uc004czu.2	-	15	1240	c.1240A>G	c.(1240-1242)AAC>GAC	p.N414D	RPS6KA3_uc011mjk.1_Missense_Mutation_p.N384D|RPS6KA3_uc004czv.2_Missense_Mutation_p.N401D|RPS6KA3_uc011mjl.1_Missense_Mutation_p.N385D|RPS6KA3_uc011mjm.1_Missense_Mutation_p.N386D	NM_004586	NP_004577	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	414					axon guidance|central nervous system development|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|skeletal system development|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(4)|stomach(1)|ovary(1)|lung(1)|breast(1)	8						TGAATACTGTTCCTGTGTAAC	0.343													46	37					0	0	1	0	0		C	20190977	C	C	20190977	3	2	151	1	0	0	0	0	1	0	0	0	13677	1783	62	3	1014	3	RPS6KA3	23	20190977	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	630762	20190977	135079583	4533	81698											
CNKSR2	22866	broad.mit.edu	37	chrX	21581506	21581506	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctattcattgctacctagttTacaaatggatgcactgagac	12	13	7	9	0	1	1	1	1	0	1	1	3	1	2	1	1	4	3	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:21581506T>C	uc004czx.1	+	13	1580	c.1544T>C	c.(1543-1545)TTA>TCA	p.L515S	CNKSR2_uc004czw.2_Missense_Mutation_p.L515S|CNKSR2_uc011mjn.1_Missense_Mutation_p.L466S|CNKSR2_uc011mjo.1_Missense_Mutation_p.L485S|CNKSR2_uc004czy.2_Missense_Mutation_p.L107S	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	515	DUF1170.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CTACCTAGTTTACAAATGGAT	0.393													31	90					0	0	1	0	0		C	21581506	C	C	21581506	3	2	151	1	0	0	0	0	1	0	0	0	3610	1764	61	3	1594	3	CNKSR2	23	21581506	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1390529	21581506	133689054	4534	81699											
MBTPS2	51360	broad.mit.edu	37	chrX	21896666	21896666	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcaactcaagtttgcagaAccaataaagactgtaaaaaa	21	7	6	7	0	1	2	1	0	0	2	1	2	1	2	1	0	4	4	1	0	10	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:21896666A>G	uc004dae.2	+	9	1314	c.1117A>G	c.(1117-1119)ACC>GCC	p.T373A	MBTPS2_uc010nfr.2_5'UTR	NM_015884	NP_056968	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase,	373	Cys-rich.|Lumenal (Probable).				cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1						AGTTTGCAGAACCAATAAAGA	0.323													48	132					0	0	1	0	0		G	21896666	G	G	21896666	3	3	151	1	0	0	0	0	1	0	0	0	9380	43	2	3	1151	3	MBTPS2	23	21896666	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	315160	21896666	133373894	4535	81700											
MBTPS2	51360	broad.mit.edu	37	chrX	21896713	21896713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttcaagtttctgtataatAccttctttggaaactcacac	12	15	5	9	0	4	0	2	0	2	0	4	1	4	1	1	1	2	3	1	1	5	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:21896713A>G	uc004dae.2	+	9	1361	c.1164A>G	c.(1162-1164)ATA>ATG	p.I388M	MBTPS2_uc010nfr.2_Translation_Start_Site	NM_015884	NP_056968	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase,	388	Lumenal (Probable).				cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1						TCTGTATAATACCTTCTTTGG	0.393													48	165					0	0	1	0	0		G	21896713	G	G	21896713	3	3	151	1	0	0	0	0	1	0	0	0	9380	381	14	3	1198	3	MBTPS2	23	21896713	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	47	21896713	133373847	4536	81701											
PHEX	5251	broad.mit.edu	37	chrX	22196458	22196458	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtatttagcacagtctgaTttcttctggctaagaaaagc	13	13	8	7	0	3	2	0	1	3	1	3	2	3	2	0	1	2	3	0	1	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:22196458T>G	uc004dah.2	+	14	1754	c.1551T>G	c.(1549-1551)GAT>GAG	p.D517E	PHEX_uc011mjr.1_Missense_Mutation_p.D517E|PHEX_uc011mjs.1_Missense_Mutation_p.D420E	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	517	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						CACAGTCTGATTTCTTCTGGC	0.358													22	65					0	0	1	0	0		G	22196458	G	G	22196458	3	3	151	1	0	0	0	0	1	0	0	0	11838	1490	52	5	1605	5	PHEX	23	22196458	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	299745	22196458	133074102	4537	81702											
DMD	1756	broad.mit.edu	37	chrX	31222113	31222113	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggacacttggctcaatgtTactgcccccaaaggatgcaa	11	8	9	13	1	1	0	1	0	0	0	1	2	1	2	3	3	3	3	3	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:31222113T>C	uc004dda.1	-	67	10016	c.9772A>G	c.(9772-9774)AAC>GAC	p.N3258D	DMD_uc004dcq.1_Missense_Mutation_p.N529D|DMD_uc004dcr.1_Missense_Mutation_p.N798D|DMD_uc004dcs.1_Missense_Mutation_p.N798D|DMD_uc004dct.1_Missense_Mutation_p.N798D|DMD_uc004dcu.1_Missense_Mutation_p.N798D|DMD_uc004dcv.1_Missense_Mutation_p.N798D|DMD_uc004dcw.2_Missense_Mutation_p.N1914D|DMD_uc004dcx.2_Missense_Mutation_p.N1917D|DMD_uc004dcz.2_Missense_Mutation_p.N3135D|DMD_uc004dcy.1_Missense_Mutation_p.N3254D|DMD_uc004ddb.1_Missense_Mutation_p.N3250D|DMD_uc004dcm.1_Missense_Mutation_p.N190D|DMD_uc004dcn.1_Missense_Mutation_p.N190D|DMD_uc004dco.1_Missense_Mutation_p.N190D|DMD_uc004dcp.1_Missense_Mutation_p.N190D|DMD_uc011mkb.1_Missense_Mutation_p.N190D|DMD_uc010ngm.2_Missense_Mutation_p.N190D	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3258	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GGCTCAATGTTACTGCCCCCA	0.403													20	57					0	0	1	0	0		C	31222113	C	C	31222113	3	2	151	1	0	0	0	0	1	0	0	0	4586	1754	61	3	1427	3	DMD	23	31222113	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	9025655	31222113	124048447	4538	81703											
DMD	1756	broad.mit.edu	37	chrX	31496459	31496459	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgctttcgtagaagccgagTgacattctgggctctctcct	6	13	10	12	2	2	2	0	1	2	1	5	3	3	2	2	1	2	3	2	1	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:31496459T>C	uc004dda.1	-	59	8945	c.8701A>G	c.(8701-8703)ACT>GCT	p.T2901A	DMD_uc004dcq.1_Missense_Mutation_p.T172A|DMD_uc004dcr.1_Missense_Mutation_p.T441A|DMD_uc004dcs.1_Missense_Mutation_p.T441A|DMD_uc004dct.1_Missense_Mutation_p.T441A|DMD_uc004dcu.1_Missense_Mutation_p.T441A|DMD_uc004dcv.1_Missense_Mutation_p.T441A|DMD_uc004dcw.2_Missense_Mutation_p.T1557A|DMD_uc004dcx.2_Missense_Mutation_p.T1560A|DMD_uc004dcz.2_Missense_Mutation_p.T2778A|DMD_uc004dcy.1_Missense_Mutation_p.T2897A|DMD_uc004ddb.1_Missense_Mutation_p.T2893A	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2901	Spectrin 20.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGAAGCCGAGTGACATTCTGG	0.438													56	60					0	0	1	0	0		C	31496459	C	C	31496459	3	2	151	1	0	0	0	0	1	0	0	0	4586	1696	59	3	2554	3	DMD	23	31496459	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	274346	31496459	123774101	4539	81704											
FAM47A	158724	broad.mit.edu	37	chrX	34150216	34150216	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttcgggagacggacagccGtagcggaagtcgtccatgcc	8	7	14	12	5	1	1	0	0	1	1	4	4	2	3	3	3	3	1	3	3	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:34150216G>A	uc004ddg.2	-	1	213	c.180C>T	c.(178-180)TAC>TAT	p.Y60Y		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	60										ovary(4)|central_nervous_system(1)	5						ACGGACAGCCGTAGCGGAAGT	0.567													35	35					0	0	1	0	0		A	34150216	A	A	34150216	2	1	151	1	0	0	0	0	0	0	0	1	5583	1140	40	1		1	FAM47A	23	34150216	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2653757	34150216	121120344	4540	81705											
SYTL5	94122	broad.mit.edu	37	chrX	37935887	37935887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcccaaaactgacactgggCggagctatagcttggactta	11	9	10	11	1	0	1	0	1	0	0	1	3	1	3	1	3	3	2	1	3	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:37935887C>T	uc004ddu.2	+	7	1156	c.622C>T	c.(622-624)CGG>TGG	p.R208W	SYTL5_uc004ddv.2_Missense_Mutation_p.R208W|SYTL5_uc004ddx.2_Missense_Mutation_p.R208W	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	208					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						TGACACTGGGCGGAGCTATAG	0.383													67	36					0	0	1	0	0		T	37935887	T	T	37935887	3	4	151	1	0	0	0	0	1	0	0	0	15511	759	27	1	640	1	SYTL5	23	37935887	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3785671	37935887	117334673	4541	81706											
BCOR	54880	broad.mit.edu	37	chrX	39911469	39911469	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccagatctaacagctcctTactttcagggttgaaggctt	10	12	8	11	0	2	2	1	1	1	1	3	2	3	2	2	2	3	3	2	2	3	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:39911469T>A	uc004den.3	-	15	5453	c.5161A>T	c.(5161-5163)AAG>TAG	p.K1721*	BCOR_uc004dep.3_Nonsense_Mutation_p.K1687*|BCOR_uc004deo.3_Nonsense_Mutation_p.K1669*|BCOR_uc010nhb.2_3'UTR|BCOR_uc004dem.3_Nonsense_Mutation_p.K1687*	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1721					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						AACAGCTCCTTACTTTCAGGG	0.488													35	17					0	0	1	0	0		A	39911469	A	A	39911469	4	1	151	1	0	0	0	0	0	1	0	0	1387	1763	61	5	110	5	BCOR	23	39911469	Nonsense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1975582	39911469	115359091	4542	81707											
ATP6AP2	10159	broad.mit.edu	37	chrX	40450603	40450603	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccaggcagtgtcatttcgTaccctttggagaatgtgagt	8	12	11	10	1	1	2	1	1	0	1	2	3	1	2	3	2	1	2	3	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:40450603T>C	uc004det.2	+	3	388	c.286T>C	c.(286-288)TAC>CAC	p.Y96H	ATP6AP2_uc010nhc.2_RNA|ATP6AP2_uc011mkl.1_Missense_Mutation_p.Y20H|ATP6AP2_uc011mkm.1_Missense_Mutation_p.Y96H|ATP6AP2_uc011mkn.1_Missense_Mutation_p.Y96H	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory	96	Extracellular (Potential).				angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						TGTCATTTCGTACCCTTTGGA	0.423													15	39					0	0	1	0	0		C	40450603	C	C	40450603	3	2	151	1	0	0	0	0	1	0	0	0	1168	1638	57	3	296	3	ATP6AP2	23	40450603	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	539134	40450603	114819957	4543	81708											
ATP6AP2	10159	broad.mit.edu	37	chrX	40464919	40464919	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgccttggccttggctgtgaTtatcacctcttacaatattt	7	16	7	11	1	2	1	1	1	1	0	2	1	2	1	3	2	1	1	3	2	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:40464919T>C	uc004det.2	+	9	1067	c.965T>C	c.(964-966)ATT>ACT	p.I322T	ATP6AP2_uc010nhc.2_RNA|ATP6AP2_uc011mkl.1_Missense_Mutation_p.I246T|ATP6AP2_uc011mkm.1_Missense_Mutation_p.I290T|ATP6AP2_uc011mkn.1_Missense_Mutation_p.I244T|ATP6AP2_uc004deu.1_Missense_Mutation_p.I186T	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory	322	Helical; (Potential).				angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						TTGGCTGTGATTATCACCTCT	0.378													36	94					0	0	1	0	0		C	40464919	C	C	40464919	3	2	151	1	0	0	0	0	1	0	0	0	1168	1493	52	3	999	3	ATP6AP2	23	40464919	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	14316	40464919	114805641	4544	81709											
USP9X	8239	broad.mit.edu	37	chrX	40994031	40994031	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttccgtgatgggctaacaAtatcattcactaaaattctt	12	16	5	8	1	3	1	2	1	1	0	4	1	4	1	1	1	1	1	1	1	5	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:40994031A>C	uc004dfb.2	+	5	1009	c.376A>C	c.(376-378)ATA>CTA	p.I126L	USP9X_uc004dfc.2_Missense_Mutation_p.I126L	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	126					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TGGGCTAACAATATCATTCAC	0.353													76	64					0	0	1	0	0		C	40994031	C	C	40994031	3	2	151	1	0	0	0	0	1	0	0	0	17116	101	4	5	390	5	USP9X	23	40994031	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	529112	40994031	114276529	4545	81710											
NYX	60506	broad.mit.edu	37	chrX	41333485	41333485	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcgcctgcgcacgctcaAcctgggtggcaacgcgctgg	5	5	16	15	6	1	0	1	0	0	0	1	0	1	0	2	4	3	4	2	4	2	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:41333485A>G	uc004dfh.2	+	2	1209	c.779A>G	c.(778-780)AAC>AGC	p.N260S	NYX_uc011mku.1_Missense_Mutation_p.N255S	NM_022567	NP_072089	Q9GZU5	NYX_HUMAN	nyctalopin precursor	260	LRR 9.				response to stimulus|visual perception	intracellular|proteinaceous extracellular matrix				lung(2)	2						CGCACGCTCAACCTGGGTGGC	0.706													5	3					0	0	1	0	0		G	41333485	G	G	41333485	3	3	151	1	0	0	0	0	1	0	0	0	10816	43	2	3	785	3	NYX	23	41333485	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	339454	41333485	113937075	4546	81711											
EFHC2	80258	broad.mit.edu	37	chrX	44109680	44109680	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagggacgtaagggctctacGtgttctacaacctgcaaatg	11	10	11	9	2	2	0	0	0	2	0	2	1	2	1	1	2	4	4	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:44109680G>A	uc004dgb.3	-	6	708	c.618C>T	c.(616-618)CAC>CAT	p.H206H		NM_025184	NP_079460	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	206							calcium ion binding			breast(3)|ovary(2)|central_nervous_system(1)	6						AGGGCTCTACGTGTTCTACAA	0.408													30	17					0	0	1	0	0		A	44109680	A	A	44109680	2	1	151	1	0	0	0	0	0	0	0	1	4953	1136	40	1		1	EFHC2	23	44109680	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2776195	44109680	111160880	4547	81712											
KDM6A	7403	broad.mit.edu	37	chrX	44922891	44922891	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgtagcacatcaagaacGctgggaagtacagacactat	14	7	9	11	1	1	2	1	0	0	2	1	3	1	3	1	1	3	4	1	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:44922891G>A	uc004dge.3	+	16	2127	c.1752G>A	c.(1750-1752)ACG>ACA	p.T584T	KDM6A_uc010nhk.2_Silent_p.T550T|KDM6A_uc011mkz.1_Silent_p.T636T|KDM6A_uc011mla.1_Silent_p.T539T|KDM6A_uc011mlb.1_Silent_p.T591T|KDM6A_uc011mlc.1_Silent_p.T288T|KDM6A_uc011mld.1_Silent_p.T223T	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	584					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						CATCAAGAACGCTGGGAAGTA	0.512			D|N|F|S		renal|oesophageal SCC|MM								18	14					0	0	1	0	0		A	44922891	A	A	44922891	2	1	151	1	0	0	0	0	0	0	0	1	8153	1074	38	1		1	KDM6A	23	44922891	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	813211	44922891	110347669	4548	81713											
KDM6A	7403	broad.mit.edu	37	chrX	44950035	44950035	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaagtgtgaagtcaatagtAcccatggttcatctttcctg	11	13	8	9	0	3	1	2	1	1	0	4	1	4	1	2	1	1	2	2	1	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:44950035A>G	uc004dge.3	+	26	4179	c.3804A>G	c.(3802-3804)GTA>GTG	p.V1268V	KDM6A_uc011mkz.1_Silent_p.V1320V|KDM6A_uc011mla.1_Silent_p.V1223V|KDM6A_uc011mlb.1_Silent_p.V1275V|KDM6A_uc011mlc.1_Silent_p.V972V|KDM6A_uc011mld.1_Silent_p.V907V	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	1268					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						AGTCAATAGTACCCATGGTTC	0.373			D|N|F|S		renal|oesophageal SCC|MM								5	139					0	0	1	0	0		G	44950035	G	G	44950035	2	3	151	1	0	0	0	0	0	0	0	1	8153	378	14	3		3	KDM6A	23	44950035	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	27144	44950035	110320525	4549	81714											
RBM10	8241	broad.mit.edu	37	chrX	47030548	47030548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatcgggaccaggactatcGgaccgagcaaggggaggagg	11	4	17	9	3	0	0	0	0	0	0	2	6	0	5	2	7	1	1	2	7	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:47030548G>A	uc004dhf.2	+	4	702	c.323G>A	c.(322-324)CGG>CAG	p.R108Q	RBM10_uc004dhe.1_Missense_Mutation_p.R98Q|RBM10_uc004dhg.2_Intron|RBM10_uc004dhh.2_Missense_Mutation_p.R108Q|RBM10_uc010nhq.2_Intron|RBM10_uc004dhi.2_Missense_Mutation_p.R173Q	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	108					mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						CAGGACTATCGGACCGAGCAA	0.532													3	15					0	0	1	0	0		A	47030548	A	A	47030548	3	1	151	1	0	0	0	0	1	0	0	0	13136	1116	39	1	333	1	RBM10	23	47030548	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2080513	47030548	108240012	4550	81715											
CDK16	5127	broad.mit.edu	37	chrX	47084389	47084389	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacttcctcacattccagggTacctatgccaccgtctacaa	10	10	5	16	1	2	0	1	0	1	0	4	0	4	0	5	1	3	1	5	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:47084389T>C	uc004dho.2	+	6	918	c.522T>C	c.(520-522)GGT>GGC	p.G174G	CDK16_uc011mli.1_Silent_p.G180G|CDK16_uc011mlj.1_Silent_p.G174G|CDK16_uc011mlk.1_Silent_p.G174G|CDK16_uc011mll.1_Silent_p.G248G	NM_006201	NP_006192	Q00536	CDK16_HUMAN	PCTAIRE protein kinase 1 isoform 1	174	ATP (By similarity).|Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			lung(1)	1						CATTCCAGGGTACCTATGCCA	0.542													3	10					0	0	1	0	0		C	47084389	C	C	47084389	2	2	151	1	0	0	0	0	0	0	0	1	3135	1625	57	3		3	CDK16	23	47084389	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	53841	47084389	108186171	4551	81716											
CDK16	5127	broad.mit.edu	37	chrX	47087990	47087990	+	Missense_Mutation	SNP	A	T	T	1	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	ttccatatttgcactaaaggAgattcagctacaaaaggagg	15	10	9	7	0	1	1	1	0	0	1	2	3	2	2	1	3	3	2	1	3	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:47087990A>T	uc004dho.2	+	15	1796	c.1400A>T	c.(1399-1401)GAG>GTG	p.E467V	CDK16_uc011mli.1_Missense_Mutation_p.E473V|CDK16_uc011mlk.1_Missense_Mutation_p.E474V|CDK16_uc011mll.1_Missense_Mutation_p.E541V	NM_006201	NP_006192	Q00536	CDK16_HUMAN	PCTAIRE protein kinase 1 isoform 1	467							ATP binding|cyclin-dependent protein kinase activity|protein binding			lung(1)	1						GCACTAAAGGAGATTCAGCTA	0.493													36	36					0	0	1	0	0		T	47087990	T	T	47087990	3	4	151	1	0	0	0	0	1	0	0	0	3135	304	11	5	1696	5	CDK16	23	47087990	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3601	47087990	108182570	4552	81717											
USP11	8237	broad.mit.edu	37	chrX	47100775	47100775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcatgaagggtgagatcGcagaggcctatgcagacctg	10	7	16	8	1	0	4	0	2	0	3	1	5	0	4	2	3	1	3	2	3	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:47100775G>A	uc004dhp.2	+	8	1075	c.1075G>A	c.(1075-1077)GCA>ACA	p.A359T	USP11_uc004dhq.2_Missense_Mutation_p.A86T	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	359					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GGGTGAGATCGCAGAGGCCTA	0.592													50	24					0	0	1	0	0		A	47100775	A	A	47100775	3	1	151	1	0	0	0	0	1	0	0	0	17068	1087	38	1	1105	1	USP11	23	47100775	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	12785	47100775	108169785	4553	81718											
USP11	8237	broad.mit.edu	37	chrX	47107040	47107040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcctgcaacaaggacagcgGccagtggcactactttgatg	10	8	12	11	1	0	1	0	1	0	0	0	2	0	2	2	3	5	2	2	3	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:47107040G>A	uc004dhp.2	+	20	2696	c.2696G>A	c.(2695-2697)GGC>GAC	p.G899D	USP11_uc004dhq.2_Missense_Mutation_p.G625D	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	899					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						AAGGACAGCGGCCAGTGGCAC	0.507													31	69					0	0	1	0	0		A	47107040	A	A	47107040	3	1	151	1	0	0	0	0	1	0	0	0	17068	1203	42	2	2774	2	USP11	23	47107040	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	6265	47107040	108163520	4554	81719											
ARAF	369	broad.mit.edu	37	chrX	47428172	47428172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcatgacccggccgggaTttgccatcatcacacagtgg	8	9	11	13	2	3	1	3	1	0	0	3	2	3	2	3	3	1	1	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:47428172T>C	uc011mlq.1	+	11	1265	c.1132T>C	c.(1132-1134)TTT>CTT	p.F378L	ARAF_uc011mln.1_RNA|ARAF_uc011mlo.1_Missense_Mutation_p.F244L|ARAF_uc011mlp.1_Missense_Mutation_p.F378L|ARAF_uc004dic.1_Missense_Mutation_p.F159L	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	378	Protein kinase.			F -> V (in Ref. 6; AAB08754).	intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	CCGGCCGGGATTTGCCATCAT	0.582											OREG0019759	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	21					0	0	1	0	0		C	47428172	C	C	47428172	3	2	151	1	0	0	0	0	1	0	0	0	837	1493	52	3	1170	3	ARAF	23	47428172	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	321132	47428172	107842388	4555	81720											
ZNF182	7569	broad.mit.edu	37	chrX	47836190	47836190	+	Silent	SNP	A	G	G	1	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	aaggtttttccacacacatcAcattcatagggtttctctcc	10	14	5	12	0	3	0	2	0	1	0	6	0	5	0	2	2	0	2	2	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:47836190A>G	uc004dir.2	-	7	1642	c.1296T>C	c.(1294-1296)TGT>TGC	p.C432C	ZNF182_uc004dis.2_Silent_p.C413C|ZNF182_uc004dit.2_Silent_p.C432C|ZNF182_uc011mlu.1_Silent_p.C412C	NM_006962	NP_008893	P17025	ZN182_HUMAN	zinc finger protein 21 isoform 1	432	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3						CACACACATCACATTCATAGG	0.393													38	110					0	0	1	0	0		G	47836190	G	G	47836190	2	3	151	1	0	0	0	0	0	0	0	1	17775	157	6	3		3	ZNF182	23	47836190	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	408018	47836190	107434370	4556	81721											
PORCN	64840	broad.mit.edu	37	chrX	48370833	48370833	+	Missense_Mutation	SNP	A	G	G	1	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	acctctacttcgtgggcaccAtcgtcttcgggccctggata	6	11	10	14	3	2	0	0	0	2	0	5	1	2	1	3	3	1	1	3	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:48370833A>G	uc010nie.1	+	5	651	c.493A>G	c.(493-495)ATC>GTC	p.I165V	PORCN_uc004djr.1_Missense_Mutation_p.I165V|PORCN_uc004djs.1_Missense_Mutation_p.I165V|PORCN_uc004djt.1_Missense_Mutation_p.I94V|PORCN_uc011mlx.1_Missense_Mutation_p.I94V|PORCN_uc004dju.1_Missense_Mutation_p.I34V|PORCN_uc004djv.1_Missense_Mutation_p.I165V|PORCN_uc004djw.1_Missense_Mutation_p.I165V	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D	165	Helical; (Potential).				Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						CGTGGGCACCATCGTCTTCGG	0.627													7	8					0	0	1	0	0		G	48370833	G	G	48370833	3	3	151	1	0	0	0	0	1	0	0	0	12277	217	8	3	507	3	PORCN	23	48370833	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	534643	48370833	106899727	4557	81722											
KCND1	3750	broad.mit.edu	37	chrX	48826140	48826140	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgagggctgcggtgctcgtgTgtggattctcgaaggcccgc	4	9	17	11	5	1	0	0	0	1	0	3	3	1	1	1	4	2	2	1	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:48826140T>C	uc004dlx.1	-	1	2112	c.539A>G	c.(538-540)CAC>CGC	p.H180R	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	180	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						GGTGCTCGTGTGTGGATTCTC	0.657													7	8					0	0	1	0	0		C	48826140	C	C	48826140	3	2	151	1	0	0	0	0	1	0	0	0	8034	1696	59	3	1428	3	KCND1	23	48826140	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	455307	48826140	106444420	4558	81723											
SYP	6855	broad.mit.edu	37	chrX	49048110	49048110	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtccccgggtgccggttgTttctcgggggcgccgggagg	1	8	20	12	6	1	0	0	0	1	0	3	1	2	1	4	6	1	2	4	6	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:49048110T>C	uc004dmz.1	-	6	742	c.726A>G	c.(724-726)AAA>AAG	p.K242K	SYP_uc011mmz.1_Silent_p.K124K|SYP_uc004dna.1_Silent_p.K236K	NM_003179	NP_003170	P08247	SYPH_HUMAN	synaptophysin	242	Cytoplasmic (Potential).				regulation of long-term neuronal synaptic plasticity|regulation of short-term neuronal synaptic plasticity|synaptic vesicle maturation|synaptic vesicle membrane organization	cell junction|integral to synaptic vesicle membrane|synaptosome	calcium ion binding|cholesterol binding|transporter activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(315;0.00016)				GTGCCGGTTGTTTCTCGGGGG	0.711													7	3					0	0	1	0	0		C	49048110	C	C	49048110	2	2	151	1	0	0	0	0	0	0	0	1	15486	1722	60	3		3	SYP	23	49048110	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	221970	49048110	106222450	4559	81724											
CACNA1F	778	broad.mit.edu	37	chrX	49082529	49082529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggttggctcggcggaggcggCggctgggggaaggggagccc	4	4	24	9	4	0	0	0	0	0	0	1	3	0	3	1	11	1	3	1	11	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:49082529C>T	uc004dnb.2	-	13	1588	c.1526G>A	c.(1525-1527)CGC>CAC	p.R509H	CACNA1F_uc010nip.2_Missense_Mutation_p.R498H	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	509	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	GCGGAGGCGGCGGCTGGGGGA	0.662													3	1					0	0	1	0	0		T	49082529	T	T	49082529	3	4	151	1	0	0	0	0	1	0	0	0	2546	768	27	1	4551	1	CACNA1F	23	49082529	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	34419	49082529	106188031	4560	81725											
PPP1R3F	89801	broad.mit.edu	37	chrX	49143293	49143293	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagtcccttgggggccgaagTctgtctctctagtgtagcca	6	11	12	12	1	3	0	0	0	3	0	5	1	4	0	3	2	1	1	3	2	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:49143293T>C	uc004dnh.1	+	4	2157	c.2141T>C	c.(2140-2142)GTC>GCC	p.V714A	PPP1R3F_uc011mnd.1_Missense_Mutation_p.V385A|PPP1R3F_uc004dni.2_Missense_Mutation_p.V368A|PPP1R3F_uc004dnj.1_Missense_Mutation_p.V368A	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	714	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					GGGGCCGAAGTCTGTCTCTCT	0.592													18	18					0	0	1	0	0		C	49143293	C	C	49143293	3	2	151	1	0	0	0	0	1	0	0	0	12397	1667	58	3	2155	3	PPP1R3F	23	49143293	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	60764	49143293	106127267	4561	81726											
PPP1R3F	89801	broad.mit.edu	37	chrX	49143411	49143411	+	Silent	SNP	T	C	C	0	1	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	gtccctgcagaatgtgtgtgTgcactgcctcctcagctccg	5	11	11	14	1	1	1	1	0	0	1	4	1	4	1	4	0	4	3	4	0	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:49143411T>C	uc004dnh.1	+	4	2275	c.2259T>C	c.(2257-2259)TGT>TGC	p.C753C	PPP1R3F_uc011mnd.1_Silent_p.C424C|PPP1R3F_uc004dni.2_Silent_p.C407C|PPP1R3F_uc004dnj.1_Silent_p.C407C	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	753	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					AATGTGTGTGTGCACTGCCTC	0.627													13	51					0	0	1	0	0		C	49143411	C	C	49143411	2	2	151	1	0	0	0	0	0	0	0	1	12397	1702	59	3		3	PPP1R3F	23	49143411	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	118	49143411	106127149	4562	81727											
AKAP4	8852	broad.mit.edu	37	chrX	49957564	49957564	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggctctgtgagattctagTtgtttcactgaaagtgcttt	7	16	12	6	0	3	2	1	2	2	1	3	3	3	2	0	2	1	4	0	2	2	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:49957564T>C	uc004dow.1	-	5	1924	c.1800A>G	c.(1798-1800)CAA>CAG	p.Q600Q	AKAP4_uc004dov.1_Silent_p.Q217Q|AKAP4_uc010njp.1_Silent_p.Q422Q|AKAP4_uc004dou.1_Silent_p.Q591Q	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	600					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					GAGATTCTAGTTGTTTCACTG	0.463													45	154					0	0	1	0	0		C	49957564	C	C	49957564	2	2	151	1	0	0	0	0	0	0	0	1	453	1722	60	3		3	AKAP4	23	49957564	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	814153	49957564	105312996	4563	81728											
AKAP4	8852	broad.mit.edu	37	chrX	49958802	49958802	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagctgaaggactttgatTattgttggtgtttttagctg	8	17	13	3	0	0	2	0	2	0	0	0	4	0	4	0	3	2	4	0	3	3	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:49958802T>C	uc004dow.1	-	5	686	c.562A>G	c.(562-564)AAT>GAT	p.N188D	AKAP4_uc004dov.1_Missense_Mutation_p.N179D|AKAP4_uc010njp.1_Missense_Mutation_p.N10D|AKAP4_uc004dou.1_Missense_Mutation_p.N179D	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	188					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					GGACTTTGATTATTGTTGGTG	0.428													10	253					0	0	1	0	0		C	49958802	C	C	49958802	3	2	151	1	0	0	0	0	1	0	0	0	453	1754	61	3	2010	3	AKAP4	23	49958802	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1238	49958802	105311758	4564	81729											
DGKK	139189	broad.mit.edu	37	chrX	50146513	50146513	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatctgcaggcagaaggagGtcatcagtgatagacaatgt	13	9	12	7	0	4	3	3	1	1	2	4	4	4	4	0	3	1	2	0	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:50146513G>A	uc010njr.1	-	6	1221	c.1161C>T	c.(1159-1161)GAC>GAT	p.D387D		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	387					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					GCAGAAGGAGGTCATCAGTGA	0.483													61	29					0	0	1	0	0		A	50146513	A	A	50146513	2	1	151	1	0	0	0	0	0	0	0	1	4478	1252	44	4		4	DGKK	23	50146513	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	187711	50146513	105124047	4565	81730											
TSPYL2	64061	broad.mit.edu	37	chrX	53114010	53114010	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactaacccctacttcacaaAcatggtgattgtcaaggagt	13	10	8	10	0	2	1	2	1	0	0	2	3	2	2	2	2	3	0	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:53114010A>G	uc004drw.2	+	3	1091	c.959A>G	c.(958-960)AAC>AGC	p.N320S	TSPYL2_uc004drv.2_Missense_Mutation_p.N364S|TSPYL2_uc004drx.1_5'UTR	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	320					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						TACTTCACAAACATGGTGATT	0.498													19	56					0	0	1	0	0		G	53114010	G	G	53114010	3	3	151	1	0	0	0	0	1	0	0	0	16686	43	2	3	969	3	TSPYL2	23	53114010	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2967497	53114010	102156550	4566	81731											
IQSEC2	23096	broad.mit.edu	37	chrX	53285092	53285092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactggctggctggaggcGtgcccgctgagcccagggaa	7	5	17	12	2	0	1	0	1	0	0	0	4	0	3	2	5	2	3	2	5	1	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:53285092G>A	uc004dsd.2	-	3	1090	c.889C>T	c.(889-891)CGC>TGC	p.R297C	IQSEC2_uc004dsc.2_Missense_Mutation_p.R92C	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	287					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						GGCTGGAGGCGTGCCCGCTGA	0.672													12	6					0	0	1	0	0		A	53285092	A	A	53285092	3	1	151	1	0	0	0	0	1	0	0	0	7834	1145	40	1	3629	1	IQSEC2	23	53285092	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	171082	53285092	101985468	4567	81732											
HUWE1	10075	broad.mit.edu	37	chrX	53563521	53563521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgatcaccaggtgaggtaCggaacaaggcatacataggg	13	6	13	9	2	1	1	1	1	0	0	2	3	1	2	1	5	3	2	1	5	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:53563521C>T	uc004dsp.2	-	79	12647	c.12245G>A	c.(12244-12246)CGT>CAT	p.R4082H	HUWE1_uc004dsn.2_Missense_Mutation_p.R2890H	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	4082	HECT.				base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity	p.R3972H(1)		ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AGGTGAGGTACGGAACAAGGC	0.512													30	65					0	0	1	0	0		T	53563521	T	T	53563521	3	4	151	1	0	0	0	0	1	0	0	0	7477	536	19	1	903	1	HUWE1	23	53563521	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	278429	53563521	101707039	4568	81733											
PHF8	23133	broad.mit.edu	37	chrX	54022124	54022124	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccctgccccatgctccttActtccaccaggcggatctcc	5	11	6	19	1	1	0	0	0	1	0	5	1	4	1	7	2	3	1	7	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:54022124A>G	uc004dsu.2	-	12	1504	c.1431_splice	c.e12+1	p.E477_splice	PHF8_uc004dst.2_Splice_Site_p.E441_splice|PHF8_uc004dsv.2_Splice_Site_p.E307_splice|PHF8_uc004dsw.2_Splice_Site_p.E441_splice|PHF8_uc004dsx.2_Splice_Site_p.E205_splice|PHF8_uc004dsy.2_Splice_Site_p.E441_splice	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8						brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						CATGCTCCTTACTTCCACCAG	0.557													4	27					0	0	1	0	0		G	54022124	G	G	54022124	5	3	151	1	0	0	0	0	0	0	1	0	11859	405	14	3	1963	3	PHF8	23	54022124	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	458603	54022124	101248436	4569	81734											
FGD1	2245	broad.mit.edu	37	chrX	54475618	54475618	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcctgcgtttggtgatagaAttgaagggctcctggcagcg	7	11	15	8	2	0	3	0	2	0	1	1	3	1	3	2	3	3	3	2	3	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:54475618A>G	uc004dtg.2	-	15	2966	c.2232T>C	c.(2230-2232)AAT>AAC	p.N744N	FGD1_uc011moi.1_Silent_p.N502N	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	744	FYVE-type.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TGGTGATAGAATTGAAGGGCT	0.612													22	50					0	0	1	0	0		G	54475618	G	G	54475618	2	3	151	1	0	0	0	0	0	0	0	1	5846	98	4	3		3	FGD1	23	54475618	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	453494	54475618	100794942	4570	81735											
FGD1	2245	broad.mit.edu	37	chrX	54492003	54492003	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtggtgctgcaatgtcaggTtgccacaggcttcctccttc	5	13	11	12	0	1	0	1	0	0	0	4	0	3	0	3	3	3	4	3	3	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:54492003T>A	uc004dtg.2	-	8	2251	c.1517A>T	c.(1516-1518)AAC>ATC	p.N506I	FGD1_uc011moi.1_Missense_Mutation_p.N264I	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	506	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CAATGTCAGGTTGCCACAGGC	0.592													8	3					0	0	1	0	0		A	54492003	A	A	54492003	3	1	151	1	0	0	0	0	1	0	0	0	5846	1725	60	5	1412	5	FGD1	23	54492003	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	16385	54492003	100778557	4571	81736											
FGD1	2245	broad.mit.edu	37	chrX	54497788	54497788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccgcttcagtggtgaaggaCgctggctaggggtttcagtc	6	10	15	10	2	2	1	2	1	0	0	3	2	2	2	1	5	0	4	1	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:54497788C>T	uc004dtg.2	-	2	1174	c.440G>A	c.(439-441)CGT>CAT	p.R147H	FGD1_uc011moi.1_5'Flank	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	147	Pro-rich.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TGGTGAAGGACGCTGGCTAGG	0.627													11	47					0	0	1	0	0		T	54497788	T	T	54497788	3	4	151	1	0	0	0	0	1	0	0	0	5846	536	19	1	2513	1	FGD1	23	54497788	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	5785	54497788	100772772	4572	81737											
TRO	7216	broad.mit.edu	37	chrX	54956700	54956700	+	Silent	SNP	T	C	C	0	1	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	accagtgcctgctttagtggTgctaccagccctagtttttg	6	14	10	11	0	0	0	0	0	0	0	0	0	0	0	4	1	5	3	4	1	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:54956700T>C	uc004dtq.2	+	12	3650	c.3543T>C	c.(3541-3543)GGT>GGC	p.G1181G	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Silent_p.G712G|TRO_uc004dtw.2_Silent_p.G784G|TRO_uc004dtx.2_Silent_p.G564G	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1181	62 X 10 AA approximate tandem repeats.|38; approximate.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						GCTTTAGTGGTGCTACCAGCC	0.522													35	81					0	0	1	0	0		C	54956700	C	C	54956700	2	2	151	1	0	0	0	0	0	0	0	1	16600	1683	59	3		3	TRO	23	54956700	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	458912	54956700	100313860	4573	81738											
PAGE2	203569	broad.mit.edu	37	chrX	55117854	55117854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgatgtcagggagggtattAtgcccacttttgatctcact	8	14	10	9	0	2	2	2	2	1	0	3	3	2	3	1	2	1	1	1	2	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:55117854A>G	uc004duf.1	+	4	337	c.283A>G	c.(283-285)ATG>GTG	p.M95V		NM_207339	NP_997222	Q7Z2X7	GGEE2_HUMAN	P antigen family, member 2	95										ovary(2)	2						GGAGGGTATTATGCCCACTTT	0.403													55	170					0	0	1	0	0		G	55117854	G	G	55117854	3	3	151	1	0	0	0	0	1	0	0	0	11409	449	16	3	293	3	PAGE2	23	55117854	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	161154	55117854	100152706	4574	81739											
USP51	158880	broad.mit.edu	37	chrX	55513438	55513438	+	Silent	SNP	A	G	G	1	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	aacaaggaatacttattctcAttgggcacacaatctgttgg	13	12	8	8	0	2	0	1	0	2	0	3	1	2	1	0	3	2	2	0	3	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:55513438A>G	uc004dun.1	-	2	2014	c.1935T>C	c.(1933-1935)AAT>AAC	p.N645N	USP51_uc011moo.1_Silent_p.N349N	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	645					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						ACTTATTCTCATTGGGCACAC	0.453													35	25					0	0	1	0	0		G	55513438	G	G	55513438	2	3	151	1	0	0	0	0	0	0	0	1	17109	214	8	3		3	USP51	23	55513438	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	395584	55513438	99757122	4575	81740											
KLF8	11279	broad.mit.edu	37	chrX	56296710	56296710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaggatgcagcaaagtgtAcaccaaaagctctcacctga	14	7	9	11	0	1	1	1	1	1	0	2	2	1	2	2	1	5	5	2	1	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:56296710A>G	uc004dur.2	+	5	1800	c.854A>G	c.(853-855)TAC>TGC	p.Y285C	KLF8_uc011mop.1_Intron|KLF8_uc010nkh.2_RNA	NM_007250	NP_009181	O95600	KLF8_HUMAN	Kruppel-like factor 8 isoform 1	285	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGCAAAGTGTACACCAAAAGC	0.438													13	38					0	0	1	0	0		G	56296710	G	G	56296710	3	3	151	1	0	0	0	0	1	0	0	0	8368	391	14	3	872	3	KLF8	23	56296710	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	783272	56296710	98973850	4576	81741											
FAM123B	139285	broad.mit.edu	37	chrX	63411777	63411777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	accttcatcactattgggggCggattcttgctggtcactct	6	14	10	11	1	5	0	3	0	2	0	5	1	5	1	1	4	1	1	1	4	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:63411777C>T	uc004dvo.2	-	2	1663	c.1390G>A	c.(1390-1392)GCC>ACC	p.A464T		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	464					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						CTATTGGGGGCGGATTCTTGC	0.557													39	28					0	0	1	0	0		T	63411777	T	T	63411777	3	4	151	1	0	0	0	0	1	0	0	0	5434	768	27	1	2021	1	FAM123B	23	63411777	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	7115067	63411777	91858783	4577	81742											
FAM123B	139285	broad.mit.edu	37	chrX	63413026	63413026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcagcctacctgggccGgatgaggatggctctgaggt	6	11	14	10	1	3	2	1	2	2	0	3	4	3	4	3	5	2	1	3	5	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:63413026G>A	uc004dvo.2	-	2	414	c.141C>T	c.(139-141)TCC>TCT	p.S47S		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	47					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						TACCTGGGCCGGATGAGGATG	0.532													53	109					0	0	1	0	0		A	63413026	A	A	63413026	2	1	151	1	0	0	0	0	0	0	0	1	5434	1103	39	1		1	FAM123B	23	63413026	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1249	63413026	91857534	4578	81743											
ZC4H2	55906	broad.mit.edu	37	chrX	64140121	64140121	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcattctcagattgtttgaTagtgttttccatctggaaca	9	17	8	7	0	3	2	2	1	2	1	5	3	4	3	1	1	1	2	1	1	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:64140121T>C	uc004dvu.2	-	3	326	c.238A>G	c.(238-240)ATC>GTC	p.I80V	ZC4H2_uc004dvv.2_Missense_Mutation_p.I57V|ZC4H2_uc011mov.1_Missense_Mutation_p.I57V|ZC4H2_uc011mow.1_Missense_Mutation_p.I80V|ZC4H2_uc004dvw.1_Missense_Mutation_p.I80V	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	80	Potential.						metal ion binding|protein binding			ovary(1)	1						GATTGTTTGATAGTGTTTTCC	0.378													82	46					0	0	1	0	0		C	64140121	C	C	64140121	3	2	151	1	0	0	0	0	1	0	0	0	17603	1406	49	3	467	3	ZC4H2	23	64140121	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	727095	64140121	91130439	4579	81744											
AR	367	broad.mit.edu	37	chrX	66942766	66942766	+	Missense_Mutation	SNP	T	G	G	0	1	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	attgcatgcaaaagaaaaaaTcccacatcctgctcaagacg	17	7	6	11	1	1	2	1	0	0	2	3	2	3	2	2	0	3	3	2	0	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:66942766T>G	uc004dwu.1	+	7	3662	c.2547T>G	c.(2545-2547)AAT>AAG	p.N849K	AR_uc004dwv.1_Missense_Mutation_p.N317K	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	848	Ligand-binding.|Interaction with MYST2.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	AAAGAAAAAATCCCACATCCT	0.458									Androgen_Insensitivity_Syndrome				12	28					0	0	1	0	0		G	66942766	G	G	66942766	3	3	151	1	0	0	0	0	1	0	0	0	836	1432	50	5	2597	5	AR	23	66942766	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2802645	66942766	88327794	4580	81745											
OPHN1	4983	broad.mit.edu	37	chrX	67412815	67412815	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgctgcccacagtgcggtAcaacccttctgtcttgatcc	7	12	8	14	1	2	1	0	1	2	0	3	1	3	1	3	1	5	2	3	1	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:67412815A>G	uc004dww.3	-	15	1516	c.1222T>C	c.(1222-1224)TAC>CAC	p.Y408H	OPHN1_uc011mpg.1_Missense_Mutation_p.Y408H	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	408	Rho-GAP.				axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						ACAGTGCGGTACAACCCTTCT	0.398													23	73					0	0	1	0	0		G	67412815	G	G	67412815	3	3	151	1	0	0	0	0	1	0	0	0	10894	391	14	3	1226	3	OPHN1	23	67412815	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	470049	67412815	87857745	4581	81746											
KIF4A	24137	broad.mit.edu	37	chrX	69606471	69606471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttttttcttgtcaggacCgtaagaggcaatatgagctg	10	13	11	7	1	2	2	1	1	1	1	2	4	2	3	1	2	1	3	1	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:69606471C>T	uc004dyg.2	+	19	2165	c.2038C>T	c.(2038-2040)CGT>TGT	p.R680C	KIF4A_uc010nkw.2_Missense_Mutation_p.R680C	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	680	Potential.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						TTGTCAGGACCGTAAGAGGCA	0.373													30	20					0	0	1	0	0		T	69606471	T	T	69606471	3	4	151	1	0	0	0	0	1	0	0	0	8319	652	23	1	2108	1	KIF4A	23	69606471	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2193656	69606471	85664089	4582	81747											
DLG3	1741	broad.mit.edu	37	chrX	69670589	69670589	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gaaggtggccaagccaggcaGcctccacctcaacgacatgt	11	5	11	14	1	1	0	1	0	0	0	2	2	2	0	5	3	3	1	5	3	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:69670589G>A	uc004dyi.1	+	6	1269	c.941G>A	c.(940-942)AGC>AAC	p.S314N	DLG3_uc004dyj.1_5'Flank	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	314					axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					AAGCCAGGCAGCCTCCACCTC	0.547													9	37					0	0	1	0	0		A	69670589	A	A	69670589	3	1	151	1	0	0	0	0	1	0	0	0	4562	971	34	2	963	2	DLG3	23	69670589	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	64118	69670589	85599971	4583	81748											
ZMYM3	9203	broad.mit.edu	37	chrX	70471056	70471056	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggaatctacaacctcaggTtttggaggttctgctctcct	7	14	10	10	0	4	0	1	0	3	0	5	2	4	2	2	4	3	3	2	4	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:70471056T>C	uc004dzh.1	-	4	837	c.750A>G	c.(748-750)AAA>AAG	p.K250K	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Silent_p.K250K|ZMYM3_uc004dzj.1_Silent_p.K250K|ZMYM3_uc011mpu.1_5'UTR|ZMYM3_uc004dzk.3_Silent_p.K250K|ZMYM3_uc004dzl.3_Silent_p.K250K|ZMYM3_uc004dzm.3_Silent_p.K250K	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	250					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					CAACCTCAGGTTTTGGAGGTT	0.527													20	55					0	0	1	0	0		C	70471056	C	C	70471056	2	2	151	1	0	0	0	0	0	0	0	1	17726	1722	60	3		3	ZMYM3	23	70471056	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	800467	70471056	84799504	4584	81749											
NHSL2	340527	broad.mit.edu	37	chrX	71359174	71359174	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgaaggtgggtcagcactAcccaaggaccagaggcccaa	12	4	12	13	0	1	2	1	1	0	1	1	3	1	3	4	4	2	1	4	4	4	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:71359174A>G	uc011mqa.1	+	6	1776	c.1776A>G	c.(1774-1776)CTA>CTG	p.L592L	NHSL2_uc004eak.1_Silent_p.L226L|NHSL2_uc010nli.2_Silent_p.L361L	NM_001013627	NP_001013649	Q5HYW2	NHSL2_HUMAN	NHS-like 2	592											0	Renal(35;0.156)					GGTCAGCACTACCCAAGGACC	0.557													10	23					0	0	1	0	0		G	71359174	G	G	71359174	2	3	151	1	0	0	0	0	0	0	0	1	10431	378	14	3		3	NHSL2	23	71359174	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	888118	71359174	83911386	4585	81750											
ERCC6L	54821	broad.mit.edu	37	chrX	71425175	71425175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaagacagtgtttctcCggaaggatcctcttctgtat	8	15	9	9	1	4	2	0	1	4	1	6	4	5	4	2	2	0	2	2	2	3	4	rs78660817		TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:71425175C>T	uc004eaq.1	-	2	3539	c.3442G>A	c.(3442-3444)GGA>AGA	p.G1148R	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.G1025R	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	1148					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					AGTGTTTCTCCGGAAGGATCC	0.502													59	42					0	0	1	0	0		T	71425175	T	T	71425175	3	4	151	1	0	0	0	0	1	0	0	0	5226	661	23	1	314	1	ERCC6L	23	71425175	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	66001	71425175	83845385	4586	81751											
ERCC6L	54821	broad.mit.edu	37	chrX	71428266	71428266	+	Silent	SNP	A	G	G	1	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	atatcatcagccaatataccAccttttcttccatccctata	12	14	1	14	0	3	0	2	0	1	0	5	0	5	0	5	0	2	0	5	0	6	8			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:71428266A>G	uc004eaq.1	-	2	448	c.351T>C	c.(349-351)GGT>GGC	p.G117G	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_5'UTR	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	117	Helicase ATP-binding.				cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					CCAATATACCACCTTTTCTTC	0.433													89	249					0	0	1	0	0		G	71428266	G	G	71428266	2	3	151	1	0	0	0	0	0	0	0	1	5226	146	6	3		3	ERCC6L	23	71428266	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	3091	71428266	83842294	4587	81752											
PHKA1	5255	broad.mit.edu	37	chrX	71846871	71846871	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcggagtgctgccaggatActtgaattcaagcttgttcc	8	14	10	9	1	1	1	1	1	0	0	3	3	2	3	2	2	4	3	2	2	3	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:71846871A>G	uc004eax.3	-	17	2044	c.1743T>C	c.(1741-1743)AGT>AGC	p.S581S	PHKA1_uc004eay.3_Silent_p.S581S|PHKA1_uc011mqi.1_Silent_p.S581S	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	581					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)					CTGCCAGGATACTTGAATTCA	0.363													43	120					0	0	1	0	0		G	71846871	G	G	71846871	2	3	151	1	0	0	0	0	0	0	0	1	11862	388	14	3		3	PHKA1	23	71846871	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	418605	71846871	83423689	4588	81753											
KIAA2022	340533	broad.mit.edu	37	chrX	73961910	73961910	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctgaagtatgagatactagTgttatttgacaagtcagaag	14	12	11	4	0	1	4	1	3	0	2	1	5	1	4	0	0	1	3	0	0	7	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:73961910T>C	uc004eby.2	-	3	3099	c.2482A>G	c.(2482-2484)ACT>GCT	p.T828A		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	828					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GAGATACTAGTGTTATTTGAC	0.433													5	112					0	0	1	0	0		C	73961910	C	C	73961910	3	2	151	1	0	0	0	0	1	0	0	0	8285	1696	59	3	2076	3	KIAA2022	23	73961910	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2115039	73961910	81308650	4589	81754											
ZDHHC15	158866	broad.mit.edu	37	chrX	74670727	74670727	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtctttcttcattttcatAgcgctccttgtctgtgtagg	5	18	9	9	1	5	0	2	0	3	0	6	0	6	0	1	2	1	2	1	2	2	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:74670727A>G	uc004ecg.2	-	4	767	c.289T>C	c.(289-291)TAT>CAT	p.Y97H	ZDHHC15_uc004ech.2_Missense_Mutation_p.Y88H|ZDHHC15_uc011mqo.1_RNA|ZDHHC15_uc004eci.2_Missense_Mutation_p.Y88H	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	97						integral to membrane	zinc ion binding			ovary(2)	2						TCATTTTCATAGCGCTCCTTG	0.398													3	87					0	0	1	0	0		G	74670727	G	G	74670727	3	3	151	1	0	0	0	0	1	0	0	0	17630	420	15	3	836	3	ZDHHC15	23	74670727	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	708817	74670727	80599833	4590	81755											
PGAM4	441531	broad.mit.edu	37	chrX	77224557	77224557	+	Silent	SNP	A	G	G	1	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	agaccctccacatgcttggcAatgccctggaggctgttgcc	7	9	11	14	0	0	1	0	0	0	1	1	2	1	2	4	3	3	4	4	3	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:77224557A>G	uc004ecy.1	-	1	579	c.579T>C	c.(577-579)ATT>ATC	p.I193I	ATP7A_uc004ecw.2_Intron|ATP7A_uc004ecx.3_Intron	NM_001029891	NP_001025062	Q8N0Y7	PGAM4_HUMAN	bisphosphoglycerate mutase 4	193					glycolysis		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						CATGCTTGGCAATGCCCTGGA	0.512													39	109					0	0	1	0	0		G	77224557	G	G	77224557	2	3	151	1	0	0	0	0	0	0	0	1	11794	126	5	3		3	PGAM4	23	77224557	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2553830	77224557	78046003	4591	81756											
P2RY10	27334	broad.mit.edu	37	chrX	78216198	78216198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccttgtgggttctgtgcCgcttcatcagcaagaaaaat	10	11	10	10	1	3	1	2	0	1	1	3	1	3	1	2	1	3	3	2	1	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:78216198C>T	uc004ede.2	+	4	550	c.181C>T	c.(181-183)CGC>TGC	p.R61C	P2RY10_uc004edf.2_Missense_Mutation_p.R61C	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	61	Cytoplasmic (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						GGTTCTGTGCCGCTTCATCAG	0.418													90	87					0	0	1	0	0		T	78216198	T	T	78216198	3	4	151	1	0	0	0	0	1	0	0	0	11366	652	23	1	183	1	P2RY10	23	78216198	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	991641	78216198	77054362	4592	81757											
POU3F4	5456	broad.mit.edu	37	chrX	82764004	82764004	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgctgggcacactgtatggTaacgtgttctcgcagaccac	8	9	12	12	3	1	1	0	0	1	1	2	1	1	1	1	2	1	6	1	2	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:82764004T>C	uc004eeg.2	+	1	736	c.672T>C	c.(670-672)GGT>GGC	p.G224G		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	224	POU-specific.				sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						CACTGTATGGTAACGTGTTCT	0.522													15	43					0	0	1	0	0		C	82764004	C	C	82764004	2	2	151	1	0	0	0	0	0	0	0	1	12296	1625	57	3		3	POU3F4	23	82764004	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4547806	82764004	72506556	4593	81758											
CYLC1	1538	broad.mit.edu	37	chrX	83129273	83129273	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaagaaaggacacagagtcTactgatgctgaatttgatga	15	9	11	6	0	1	6	0	4	1	2	1	7	1	7	0	1	2	2	0	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:83129273T>C	uc004eei.1	+	4	1578	c.1557T>C	c.(1555-1557)TCT>TCC	p.S519S	CYLC1_uc004eeh.1_Silent_p.S518S	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	519	7.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						ACACAGAGTCTACTGATGCTG	0.353													8	36					0	0	1	0	0		C	83129273	C	C	83129273	2	2	151	1	0	0	0	0	0	0	0	1	4144	1509	53	3		3	CYLC1	23	83129273	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	365269	83129273	72141287	4594	81759											
RPS6KA6	27330	broad.mit.edu	37	chrX	83403063	83403063	+	Frame_Shift_Del	DEL	T	-	-																															tttctaccttttaaagaggcTttttttaacaccttcattgc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:83403063delT	uc004eej.1	-	4	404	c.327delA	c.(325-327)AAAfs	p.K109fs	RPS6KA6_uc011mqt.1_Frame_Shift_Del_p.K109fs|RPS6KA6_uc011mqu.1_Frame_Shift_Del_p.K6fs|RPS6KA6_uc010nmo.1_RNA	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	109	Protein kinase 1.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TTAAAGAGGCTTTTTTTAACA	0.303													53	37	---	---	---	---						.	-	83403063	-	-	83403063	7	5	151	1	0	1	0	1	0	0	0	0	13680	1606	56	0	1986	0	RPS6KA6	23	83403063	Frame_Shift_Del	DEL	T	TCGA-CG-5721-01A-11D-1600-08	273790	83403063	71867497	4595	81760											
HDX	139324	broad.mit.edu	37	chrX	83723662	83723662	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgtctgacatatctctaaTattcaccatttgtgaatttg	11	18	5	7	0	3	2	1	2	2	0	4	2	3	2	1	0	0	0	1	0	4	7			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:83723662T>C	uc004eek.1	-	3	1178	c.1069A>G	c.(1069-1071)ATT>GTT	p.I357V	HDX_uc011mqv.1_Missense_Mutation_p.I357V|HDX_uc004eel.1_Missense_Mutation_p.I299V	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	357						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						ATATCTCTAATATTCACCATT	0.393													9	99					0	0	1	0	0		C	83723662	C	C	83723662	3	2	151	1	0	0	0	0	1	0	0	0	7042	1406	49	3	1035	3	HDX	23	83723662	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	320599	83723662	71546898	4596	81761											
SATL1	340562	broad.mit.edu	37	chrX	84362428	84362428	+	Missense_Mutation	SNP	A	G	G	1	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	gcctcatgcccatttggctcAcacttggttggctcctgcct	4	13	9	15	0	2	0	2	0	0	0	3	0	3	0	4	3	2	3	4	3	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:84362428A>G	uc011mqx.1	-	1	1547	c.1547T>C	c.(1546-1548)GTG>GCG	p.V516A	SATL1_uc004een.2_Missense_Mutation_p.V516A	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	329	Gln-rich.						N-acetyltransferase activity			breast(2)	2						CATTTGGCTCACACTTGGTTG	0.517													43	35					0	0	1	0	0		G	84362428	G	G	84362428	3	3	151	1	0	0	0	0	1	0	0	0	13880	159	6	3	371	3	SATL1	23	84362428	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	638766	84362428	70908132	4597	81762											
CHM	1121	broad.mit.edu	37	chrX	85119781	85119781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcaggatttggtggaggggGacagaaatcttcattggggc	9	11	16	5	0	3	1	2	0	1	1	3	4	3	4	0	7	0	0	0	7	1	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:85119781G>A	uc004eet.2	-	15	1846	c.1816C>T	c.(1816-1818)CCC>TCC	p.P606S	CHM_uc011mqz.1_Missense_Mutation_p.P458S	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	606					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				GGTGGAGGGGGACAGAAATCT	0.438													19	9					0	0	1	0	0		A	85119781	A	A	85119781	3	1	151	1	0	0	0	0	1	0	0	0	3353	1174	41	4	149	4	CHM	23	85119781	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	757353	85119781	70150779	4598	81763											
DACH2	117154	broad.mit.edu	37	chrX	85403701	85403701	+	Missense_Mutation	SNP	A	G	G	1	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	ggggggcttattccgggccgAacccctgtactcgactccca	6	8	12	15	3	0	0	0	0	0	0	3	2	2	0	5	4	2	2	5	4	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:85403701A>G	uc004eew.2	+	1	247	c.77A>G	c.(76-78)GAA>GGA	p.E26G	DACH2_uc004eex.2_Missense_Mutation_p.E26G|DACH2_uc010nmq.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	26					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TTCCGGGCCGAACCCCTGTAC	0.587													11	9					0	0	1	0	0		G	85403701	G	G	85403701	3	3	151	1	0	0	0	0	1	0	0	0	4224	246	9	3	79	3	DACH2	23	85403701	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	283920	85403701	69866859	4599	81764											
SRPX2	27286	broad.mit.edu	37	chrX	99920261	99920261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagatccccccaagatccGctgtccccactcacgtgaga	10	7	7	17	2	1	3	1	1	0	3	4	4	4	3	6	0	0	1	6	0	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:99920261G>A	uc004egb.2	+	6	1034	c.554G>A	c.(553-555)CGC>CAC	p.R185H		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	185	HYR.				angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						CCCAAGATCCGCTGTCCCCAC	0.527													6	13					0	0	1	0	0		A	99920261	A	A	99920261	3	1	151	1	0	0	0	0	1	0	0	0	15190	1087	38	1	572	1	SRPX2	23	99920261	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	14516560	99920261	55350299	4600	81765											
TAF7L	54457	broad.mit.edu	37	chrX	100538467	100538467	+	Frame_Shift_Del	DEL	T	-	-																															gtctgctgttttataaaaggTttttttatcaagcgttctca																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:100538467delT	uc004ehb.2	-	4	520	c.508delA	c.(508-510)ACCfs	p.T170fs	TAF7L_uc004eha.2_Frame_Shift_Del_p.T84fs|TAF7L_uc004ehc.1_Frame_Shift_Del_p.T84fs	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	170					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						TTATAAAAGGTTTTTTTATCA	0.393													137	118	---	---	---	---						.	-	100538467	-	-	100538467	7	5	151	1	0	1	0	1	0	0	0	0	15558	1725	60	0	920	0	TAF7L	23	100538467	Frame_Shift_Del	DEL	T	TCGA-CG-5721-01A-11D-1600-08	618206	100538467	54732093	4601	81766											
GLA	2717	broad.mit.edu	37	chrX	100653514	100653514	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccagagggccatctgagtTacttgctgattccagctgag	8	10	12	11	0	1	4	0	3	1	1	2	4	2	4	3	1	3	3	3	1	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:100653514T>C	uc004ehl.1	-	6	953	c.843A>G	c.(841-843)GTA>GTG	p.V281V		NM_000169	NP_000160	P06280	AGAL_HUMAN	alpha-galactosidase A precursor	281					glycoside catabolic process|glycosphingolipid catabolic process|glycosylceramide catabolic process|negative regulation of nitric oxide biosynthetic process|negative regulation of nitric-oxide synthase activity|oligosaccharide metabolic process	extracellular region|Golgi apparatus|lysosome	cation binding|protein homodimerization activity|raffinose alpha-galactosidase activity|receptor binding				0					Agalsidase beta(DB00103)	CCATCTGAGTTACTTGCTGAT	0.438													48	108					0	0	1	0	0		C	100653514	C	C	100653514	2	2	151	1	0	0	0	0	0	0	0	1	6441	1741	61	3		3	GLA	23	100653514	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	115047	100653514	54617046	4602	81767											
TCEAL2	140597	broad.mit.edu	37	chrX	101382092	101382092	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagggaaagccagagagagGgggaagggcagagggtgaag	15	1	22	3	0	0	5	0	1	0	4	0	8	0	7	1	5	1	1	1	5	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:101382092G>T	uc004eip.2	+	3	509	c.290G>T	c.(289-291)GGG>GTG	p.G97V		NM_080390	NP_525129	Q9H3H9	TCAL2_HUMAN	transcription elongation factor A (SII)-like 2	97					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						ccagagagagggggaagggca	0.119													7	13					8.12818e-05	8.21897e-05	1	1	0		T	101382092	T	T	101382092	3	4	151	1	0	0	0	0	1	0	0	0	15696	1232	43	5	292	5	TCEAL2	23	101382092	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	728578	101382092	53888468	4603	81768											
NXF3	56000	broad.mit.edu	37	chrX	102339744	102339744	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggattgacaggttcagacctActgctaaatctcctttggta	10	13	9	9	0	2	2	1	1	1	1	3	3	2	3	2	3	2	3	2	3	4	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:102339744A>G	uc004eju.2	-	2	167	c.96T>C	c.(94-96)AGT>AGC	p.S32S	NXF3_uc010noi.1_5'Flank|NXF3_uc011mrw.1_Silent_p.S32S|NXF3_uc011mrx.1_Intron	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	32						cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						GTTCAGACCTACTGCTAAATC	0.428													64	217					0	0	1	0	0		G	102339744	G	G	102339744	2	3	151	1	0	0	0	0	0	0	0	1	10804	388	14	3		3	NXF3	23	102339744	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	957652	102339744	52930816	4604	81769											
RAB40A	142684	broad.mit.edu	37	chrX	102754895	102754895	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggtgcagtttttgggtgggcTctggggtgggcagacgatct	4	12	19	6	1	2	1	0	0	2	1	2	2	2	1	0	6	1	4	0	6	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:102754895T>G	uc004ekk.2	-	3	1132	c.790A>C	c.(790-792)AGC>CGC	p.S264R		NM_080879	NP_543155	Q8WXH6	RB40A_HUMAN	RAB40A, member RAS oncogene family	264					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0						TTGGGTGGGCTCTGGGGTGGG	0.527													51	44					0	0	1	0	0		G	102754895	G	G	102754895	3	3	151	1	0	0	0	0	1	0	0	0	12964	1551	54	5	47	5	RAB40A	23	102754895	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	415151	102754895	52515665	4605	81770											
SERPINA7	6906	broad.mit.edu	37	chrX	105280958	105280958	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggcatttggttgggatgaaTggcaggctgttactttgcct	6	15	14	6	0	0	1	0	1	0	0	0	2	0	2	1	5	2	5	1	5	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:105280958T>C	uc004eme.1	-	1	108	c.92A>G	c.(91-93)CAT>CGT	p.H31R	SERPINA7_uc010npd.2_Missense_Mutation_p.H31R|SERPINA7_uc010npe.1_Missense_Mutation_p.H31R	NM_000354	NP_000345	P05543	THBG_HUMAN	serine (or cysteine) proteinase inhibitor, clade	31				CH -> DS (in Ref. 7; AA sequence).	regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity				0					Levothyroxine(DB00451)|Liothyronine(DB00279)	TTGGGATGAATGGCAGGCTGT	0.463													45	138					0	0	1	0	0		C	105280958	C	C	105280958	3	2	151	1	0	0	0	0	1	0	0	0	14119	1464	51	3	1171	3	SERPINA7	23	105280958	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	2526063	105280958	49989602	4606	81771											
VSIG1	340547	broad.mit.edu	37	chrX	107310235	107310235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcgaattacagggtccaacGatccaggtaatgcatctatc	13	10	8	10	2	1	0	0	0	1	0	5	2	3	0	2	2	3	2	2	2	5	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:107310235G>A	uc004eno.2	+	3	444	c.283G>A	c.(283-285)GAT>AAT	p.D95N	VSIG1_uc011msk.1_Missense_Mutation_p.D131N	NM_182607	NP_872413	Q86XK7	VSIG1_HUMAN	V-set and immunoglobulin domain containing 1	95	Extracellular (Potential).|Ig-like V-type 1.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						AGGGTCCAACGATCCAGGTAA	0.433													113	92					0	0	1	0	0		A	107310235	A	A	107310235	3	1	151	1	0	0	0	0	1	0	0	0	17248	1058	37	1	405	1	VSIG1	23	107310235	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2029277	107310235	47960325	4607	81772											
ATG4A	115201	broad.mit.edu	37	chrX	107374535	107374535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttggggatgtatgctacGctgtggacagatgatgctgg	7	12	17	5	1	0	2	0	1	0	1	0	4	0	4	0	5	3	5	0	5	2	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:107374535G>A	uc004enr.2	+	4	362	c.239G>A	c.(238-240)CGC>CAC	p.R80H	ATG4A_uc004ent.2_Missense_Mutation_p.R80H|ATG4A_uc004ens.2_5'UTR|ATG4A_uc011msl.1_5'UTR|ATG4A_uc010npi.2_RNA|ATG4A_uc004enu.2_5'UTR	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	80					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						TGTATGCTACGCTGTGGACAG	0.458													12	194					0	0	1	0	0		A	107374535	A	A	107374535	3	1	151	1	0	0	0	0	1	0	0	0	1097	1087	38	1	253	1	ATG4A	23	107374535	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	64300	107374535	47896025	4608	81773											
ATG4A	115201	broad.mit.edu	37	chrX	107381067	107381067	+	Missense_Mutation	SNP	A	G	G	1	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	tgtccttcccttgagtgctgAcacagctggtgacaggcctc	6	11	11	13	0	0	3	0	3	0	0	3	3	2	3	3	2	2	2	3	2	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:107381067A>G	uc004enr.2	+	8	704	c.581A>G	c.(580-582)GAC>GGC	p.D194G	ATG4A_uc004ent.2_Missense_Mutation_p.D194G|ATG4A_uc004ens.2_Missense_Mutation_p.D110G|ATG4A_uc011msl.1_Missense_Mutation_p.D110G|ATG4A_uc010npi.2_RNA|ATG4A_uc004enu.2_Missense_Mutation_p.D110G	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	194					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						TTGAGTGCTGACACAGCTGGT	0.473													8	277					0	0	1	0	0		G	107381067	G	G	107381067	3	3	151	1	0	0	0	0	1	0	0	0	1097	275	10	3	611	3	ATG4A	23	107381067	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	6532	107381067	47889493	4609	81774											
COL4A6	1288	broad.mit.edu	37	chrX	107408254	107408254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggggacctgggggtccagCggggcctgggcggcctaggg	4	4	23	10	2	0	0	0	0	0	0	1	1	1	1	4	9	1	0	4	9	1	1	rs113329155	byFrequency	TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:107408254C>T	uc004enw.3	-	39	3929	c.3826G>A	c.(3826-3828)GCT>ACT	p.A1276T	COL4A6_uc004env.3_Missense_Mutation_p.A1275T|COL4A6_uc011msn.1_Missense_Mutation_p.A1251T|COL4A6_uc010npk.2_Missense_Mutation_p.A1251T|COL4A6_uc010npj.2_5'Flank	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1276	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						GGGGGTCCAGCGGGGCCTGGG	0.627									Alport_syndrome_with_Diffuse_Leiomyomatosis				40	13					0	0	1	0	0		T	107408254	T	T	107408254	3	4	151	1	0	0	0	0	1	0	0	0	3698	768	27	1	1277	1	COL4A6	23	107408254	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	27187	107408254	47862306	4610	81775											
NXT2	55916	broad.mit.edu	37	chrX	108785800	108785800	+	Silent	SNP	A	G	G	1	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	ggaactgtgaagtttgatggAaacaaacaacatttcttcaa	16	11	8	6	0	2	2	1	2	1	0	2	4	2	4	0	2	4	1	0	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:108785800A>G	uc004eof.1	+	4	456	c.312A>G	c.(310-312)GGA>GGG	p.G104G	NXT2_uc004eoe.1_Silent_p.G159G|NXT2_uc004eog.1_Silent_p.G76G	NM_018698	NP_061168	Q9NPJ8	NXT2_HUMAN	nuclear transport factor 2-like export factor 2	104	NTF2.				mRNA transport|protein transport	cytoplasm|nucleus				ovary(1)	1						AGTTTGATGGAAACAAACAAC	0.408													35	114					0	0	1	0	0		G	108785800	G	G	108785800	2	3	151	1	0	0	0	0	0	0	0	1	10814	233	9	3		3	NXT2	23	108785800	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1377546	108785800	46484760	4611	81776											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698039	111698039	+	Missense_Mutation	SNP	A	G	G	1	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	gaatctgattctgcggcttcAaatgcagcatccaaccacgg	11	9	9	12	2	3	1	1	1	2	0	4	2	4	1	2	2	4	3	2	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:111698039A>G	uc004epo.1	+	3	524	c.83A>G	c.(82-84)CAA>CGA	p.Q28R		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	28							nucleic acid binding|zinc ion binding			ovary(1)	1						CTGCGGCTTCAAATGCAGCAT	0.502													4	113					0	0	1	0	0		G	111698039	G	G	111698039	3	3	151	1	0	0	0	0	1	0	0	0	17609	130	5	3	85	3	ZCCHC16	23	111698039	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2912239	111698039	43572521	4612	81777											
LUZP4	51213	broad.mit.edu	37	chrX	114540914	114540914	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcattctgagcgatccCgaaaccacttagagagatct	13	10	7	11	2	4	3	2	1	2	2	5	6	5	3	2	0	2	0	2	0	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:114540914C>T	uc004eqa.2	+	4	521	c.487C>T	c.(487-489)CGA>TGA	p.R163*	LUZP4_uc004eqb.2_Nonsense_Mutation_p.R81*	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	163						nucleus				ovary(2)	2						TGAGCGATCCCGAAACCACTT	0.468													89	56					0	0	1	0	0		T	114540914	T	T	114540914	4	4	151	1	0	0	0	0	0	1	0	0	9106	644	23	1	501	1	LUZP4	23	114540914	Nonsense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2842875	114540914	40729646	4613	81778											
WDR44	54521	broad.mit.edu	37	chrX	117527127	117527127	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacgcccacctcctccaaCtaatttcccacctcctagac	10	8	3	20	1	0	1	0	0	0	1	4	1	4	1	7	0	2	1	7	0	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:117527127C>G	uc004eqn.2	+	4	1144	c.719C>G	c.(718-720)ACT>AGT	p.T240S	WDR44_uc004eqo.2_Missense_Mutation_p.T240S|WDR44_uc011mtr.1_Missense_Mutation_p.T215S|WDR44_uc010nqi.2_5'UTR	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	240	Pro-rich.					cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						CCTCCTCCAACTAATTTCCCA	0.512													15	148					0	0	1	0	0		G	117527127	G	G	117527127	3	3	151	1	0	0	0	0	1	0	0	0	17322	565	20	5	733	5	WDR44	23	117527127	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	2986213	117527127	37743433	4614	81779											
DOCK11	139818	broad.mit.edu	37	chrX	117770340	117770340	+	Silent	SNP	A	G	G	1	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	acttactggaataaagtatcAcctcaggagctcataaacat	16	10	6	9	0	3	0	3	0	0	0	3	2	3	2	1	2	3	2	1	2	7	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:117770340A>G	uc004eqp.2	+	36	3981	c.3918A>G	c.(3916-3918)TCA>TCG	p.S1306S	DOCK11_uc004eqq.2_Silent_p.S1085S	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1306					blood coagulation	cytosol	GTP binding			ovary(3)	3						ATAAAGTATCACCTCAGGAGC	0.239													10	45					0	0	1	0	0		G	117770340	G	G	117770340	2	3	151	1	0	0	0	0	0	0	0	1	4692	146	6	3		3	DOCK11	23	117770340	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	243213	117770340	37500220	4615	81780											
IL13RA1	3597	broad.mit.edu	37	chrX	117925753	117925753	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtacgacatctatgagaAgcaaaccaaggaggaaaccg	18	4	11	8	2	1	1	0	1	1	1	1	6	1	3	2	2	4	2	2	2	7	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:117925753A>G	uc004eqs.2	+	11	1263	c.1220A>G	c.(1219-1221)AAG>AGG	p.K407R	IL13RA1_uc004eqt.1_Intron	NM_001560	NP_001551	P78552	I13R1_HUMAN	interleukin 13 receptor, alpha 1 precursor	407	Cytoplasmic (Potential).					interleukin-13 receptor complex	cytokine receptor activity				0						ATCTATGAGAAGCAAACCAAG	0.408													39	87					0	0	1	0	0		G	117925753	G	G	117925753	3	3	151	1	0	0	0	0	1	0	0	0	7645	72	3	3	1262	3	IL13RA1	23	117925753	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	155413	117925753	37344807	4616	81781											
PGRMC1	10857	broad.mit.edu	37	chrX	118374362	118374362	+	Missense_Mutation	SNP	A	G	G	1	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	agcactgaaggatgagtacgAtgacctttctgacctcactg	11	10	10	10	1	2	4	1	4	1	0	2	6	2	5	2	1	2	2	2	1	2	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:118374362A>G	uc004erb.2	+	2	535	c.419A>G	c.(418-420)GAT>GGT	p.D140G	PGRMC1_uc011mts.1_Intron	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	140	Cytochrome b5 heme-binding.|Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						GATGAGTACGATGACCTTTCT	0.483													105	71					0	0	1	0	0		G	118374362	G	G	118374362	3	3	151	1	0	0	0	0	1	0	0	0	11825	333	12	3	425	3	PGRMC1	23	118374362	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	448609	118374362	36896198	4617	81782											
UPF3B	65109	broad.mit.edu	37	chrX	118979166	118979166	+	Missense_Mutation	SNP	T	C	C	0	1	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	agagctatactgtaccatcaTcgatagtcccgactttggta	11	12	8	10	2	1	1	1	0	0	1	3	3	2	1	2	1	3	3	2	1	5	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:118979166T>C	uc004erz.1	-	4	541	c.464A>G	c.(463-465)GAT>GGT	p.D155G	UPF3B_uc004esa.1_Missense_Mutation_p.D155G	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	155	Sufficient for association with EJC core.|Necessary for interaction with UPF2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						TGTACCATCATCGATAGTCCC	0.328													39	113					0	0	1	0	0		C	118979166	C	C	118979166	3	2	151	1	0	0	0	0	1	0	0	0	17032	1435	50	3	1019	3	UPF3B	23	118979166	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	604804	118979166	36291394	4618	81783											
NDUFA1	4694	broad.mit.edu	37	chrX	119007297	119007297	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttgctcattttgggtatcacTggagtctgatggaaagagat	10	14	12	5	0	3	2	2	1	1	1	3	5	3	4	0	3	1	2	0	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:119007297T>C	uc004esc.3	+	2	274	c.133T>C	c.(133-135)TGG>CGG	p.W45R	RNF113A_uc004esb.2_5'Flank	NM_004541	NP_004532	O15239	NDUA1_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	45					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			large_intestine(1)	1					NADH(DB00157)	TGGGTATCACTGGAGTCTGAT	0.403													37	124					0	0	1	0	0		C	119007297	C	C	119007297	3	2	151	1	0	0	0	0	1	0	0	0	10278	1580	55	3	139	3	NDUFA1	23	119007297	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	28131	119007297	36263263	4619	81784											
RHOXF1	158800	broad.mit.edu	37	chrX	119249597	119249597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccgccatcgcggttcatgCcgttctcgtggttcacaccg	4	11	11	15	6	3	0	2	0	1	0	5	0	3	0	4	2	2	3	4	2	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:119249597C>T	uc004esk.1	-	1	251	c.176G>A	c.(175-177)GGC>GAC	p.G59D	uc004esi.1_Intron	NM_139282	NP_644811	Q8NHV9	RHXF1_HUMAN	Rhox homeobox family, member 1	59					gamete generation|multicellular organismal development|steroid hormone receptor signaling pathway	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCGGTTCATGCCGTTCTCGTG	0.682													18	57					0	0	1	0	0		T	119249597	T	T	119249597	3	4	151	1	0	0	0	0	1	0	0	0	13372	739	26	2	390	2	RHOXF1	23	119249597	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	242300	119249597	36020963	4620	81785											
THOC2	57187	broad.mit.edu	37	chrX	122766892	122766892	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgaccaaaataaccaccCtgcacaagggaagacacaaa	19	4	6	12	0	1	2	0	1	1	1	1	3	1	3	3	1	2	1	3	1	6	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:122766892C>A	uc004etu.2	-	21	2169	c.2137_splice	c.e21-1	p.G713_splice	THOC2_uc011muh.1_Splice_Site_p.G638_splice	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2						intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						AATAACCACCCTGCACAAGGG	0.363													11	50					4.68919e-08	4.80054e-08	1	1	0		A	122766892	A	A	122766892	5	1	151	1	0	0	0	0	0	0	1	0	15890	695	24	5	2717	5	THOC2	23	122766892	Splice_Site	SNP	C	TCGA-CG-5721-01A-11D-1600-08	3517295	122766892	32503668	4621	81786											
SH2D1A	4068	broad.mit.edu	37	chrX	123504039	123504039	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttccagacagcacctggggTacataaaagatatttccgga	13	10	9	9	1	0	2	0	0	0	2	2	3	2	3	3	3	2	2	3	3	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:123504039T>C	uc004euf.3	+	3	560	c.215T>C	c.(214-216)GTA>GCA	p.V72A	SH2D1A_uc004euh.3_Missense_Mutation_p.V72A|SH2D1A_uc004eug.3_Intron|SH2D1A_uc010nqw.2_Intron|SH2D1A_uc004eui.3_RNA|SH2D1A_uc010nqx.2_Intron	NM_002351	NP_002342	O60880	SH21A_HUMAN	SH2 domain protein 1A isoform 1	72	SH2.				cell-cell signaling|cellular defense response	cytoplasm	SH3/SH2 adaptor activity				0						GCACCTGGGGTACATAAAAGA	0.363									X-linked_Lymphoproliferative_syndrome				88	75					0	0	1	0	0		C	123504039	C	C	123504039	3	2	151	1	0	0	0	0	1	0	0	0	14255	1638	57	3	225	3	SH2D1A	23	123504039	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	737147	123504039	31766521	4622	81787											
ODZ1	10178	broad.mit.edu	37	chrX	123517933	123517933	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgagtaactcttatggggTtggtaaggtctgcataaaag	13	12	12	4	0	2	1	0	1	2	0	2	1	2	1	0	4	2	4	0	4	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:123517933T>C	uc004euj.2	-	29	6891	c.6827A>G	c.(6826-6828)AAC>AGC	p.N2276S	ODZ1_uc011muj.1_Missense_Mutation_p.N2282S|ODZ1_uc010nqy.2_Missense_Mutation_p.N2283S	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2276	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TCTTATGGGGTTGGTAAGGTC	0.473													148	121					0	0	1	0	0		C	123517933	C	C	123517933	3	2	151	1	0	0	0	0	1	0	0	0	10853	1725	60	3	1362	3	ODZ1	23	123517933	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	13894	123517933	31752627	4623	81788											
ODZ1	10178	broad.mit.edu	37	chrX	123657295	123657295	+	Silent	SNP	T	C	C	0	1	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	gaaggaagcacaatagggttTgggctgataaagttggagat	14	9	15	3	0	0	2	0	1	0	1	0	5	0	3	0	4	1	4	0	4	6	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:123657295T>C	uc004euj.2	-	17	3016	c.2952A>G	c.(2950-2952)CCA>CCG	p.P984P	ODZ1_uc011muj.1_Silent_p.P983P|ODZ1_uc010nqy.2_Silent_p.P984P	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	984	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CAATAGGGTTTGGGCTGATAA	0.483													73	65					0	0	1	0	0		C	123657295	C	C	123657295	2	2	151	1	0	0	0	0	0	0	0	1	10853	1799	63	3		3	ODZ1	23	123657295	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	139362	123657295	31613265	4624	81789											
SMARCA1	6594	broad.mit.edu	37	chrX	128650306	128650306	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagagagaggtgccaacatActctccagcagaaattaagc	16	6	10	9	0	1	3	0	0	1	3	2	5	1	3	2	1	5	1	2	1	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:128650306A>G	uc004eun.3	-	3	541	c.428_splice	c.e3+1	p.D143_splice	SMARCA1_uc004eup.3_Splice_Site_p.D143_splice|SMARCA1_uc011muk.1_Splice_Site_p.D143_splice|SMARCA1_uc011mul.1_Splice_Site_p.D143_splice	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated						ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						gTGCCAACATACTCTCCAGCA	0.269													31	110					0	0	1	0	0		G	128650306	G	G	128650306	5	3	151	1	0	0	0	0	0	0	1	0	14793	405	14	3	2822	3	SMARCA1	23	128650306	Splice_Site	SNP	A	TCGA-CG-5721-01A-11D-1600-08	4993011	128650306	26620254	4625	81790											
UTP14A	10813	broad.mit.edu	37	chrX	129053461	129053461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagaagaaaatcaaaagtAaaaagtaaggaggcccctgt	20	5	11	5	0	1	2	1	0	0	2	1	5	1	3	2	2	0	2	2	2	9	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:129053461A>G	uc004euz.2	+	8	776	c.748A>G	c.(748-750)AAA>GAA	p.K250E	UTP14A_uc011mup.1_Missense_Mutation_p.K198E|UTP14A_uc011muq.1_Missense_Mutation_p.K196E|UTP14A_uc004eva.1_5'Flank	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	250	Potential.				rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						AATCAAAAGTAAAAAGTAAGG	0.473													15	61					0	0	1	0	0		G	129053461	G	G	129053461	3	3	151	1	0	0	0	0	1	0	0	0	17121	363	13	3	778	3	UTP14A	23	129053461	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	403155	129053461	26217099	4626	81791											
BCORL1	63035	broad.mit.edu	37	chrX	129189907	129189907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctttcaggcccggttcccGcactttgaaatcaccaccat	9	11	6	15	2	3	1	2	1	1	0	4	1	4	1	4	2	0	2	4	2	1	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:129189907G>A	uc004evb.1	+	13	5046	c.4932G>A	c.(4930-4932)CCG>CCA	p.P1644P	BCORL1_uc004evc.1_Silent_p.P480P	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1644					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						CCCGGTTCCCGCACTTTGAAA	0.582													134	93					0	0	1	0	0		A	129189907	A	A	129189907	2	1	151	1	0	0	0	0	0	0	0	1	1388	1074	38	1		1	BCORL1	23	129189907	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	136446	129189907	26080653	4627	81792											
ELF4	2000	broad.mit.edu	37	chrX	129205039	129205039	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcccgccccattgtctcaTagttcatgtcaggcttgttt	5	15	9	12	1	3	0	3	0	1	0	4	0	3	0	3	1	1	3	3	1	1	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:129205039T>C	uc004evd.3	-	7	1170	c.785A>G	c.(784-786)TAT>TGT	p.Y262C	ELF4_uc004eve.3_Missense_Mutation_p.Y262C	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	262	ETS.				natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CATTGTCTCATAGTTCATGTC	0.527			T	ERG	AML								7	226					0	0	1	0	0		C	129205039	C	C	129205039	3	2	151	1	0	0	0	0	1	0	0	0	5064	1406	49	3	1218	3	ELF4	23	129205039	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	15132	129205039	26065521	4628	81793											
RBMX2	51634	broad.mit.edu	37	chrX	129546413	129546413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagagcaaccatcctcttCgtcacccagacgcaagacag	12	5	9	15	2	2	3	1	0	1	3	4	3	3	3	3	1	2	3	3	1	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:129546413C>T	uc004evt.2	+	6	624	c.560C>T	c.(559-561)TCG>TTG	p.S187L		NM_016024	NP_057108	Q9Y388	RBMX2_HUMAN	RNA binding motif protein, X-linked 2	187	Lys-rich.						nucleotide binding|RNA binding			breast(3)|ovary(1)	4						CCATCCTCTTCGTCACCCAGA	0.433													45	22					0	0	1	0	0		T	129546413	T	T	129546413	3	4	151	1	0	0	0	0	1	0	0	0	13177	893	31	1	582	1	RBMX2	23	129546413	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	341374	129546413	25724147	4629	81794											
RAP2C	57826	broad.mit.edu	37	chrX	131348328	131348328	+	Nonsense_Mutation	SNP	A	T	T	1	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	gccgatgtctccatgaaaggAcagccccattcttgagccag	10	8	10	13	1	2	2	0	2	2	0	3	4	2	3	5	1	2	0	5	1	1	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:131348328A>T	uc004ewp.2	-	3	1204	c.420T>A	c.(418-420)TGT>TGA	p.C140*	RAP2C_uc004ewo.2_Nonsense_Mutation_p.C74*|RAP2C_uc010nrk.2_RNA|RAP2C_uc004ewq.3_Nonsense_Mutation_p.C140*	NM_021183	NP_067006	Q9Y3L5	RAP2C_HUMAN	RAP2C, member of RAS oncogene family precursor	140					negative regulation of cell migration|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of protein tyrosine kinase activity	recycling endosome membrane	GTP binding|GTPase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CCATGAAAGGACAGCCCCATT	0.443													114	79					0	0	1	0	0		T	131348328	T	T	131348328	4	4	151	1	0	0	0	0	0	1	0	0	13067	273	10	5	135	5	RAP2C	23	131348328	Nonsense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	1801915	131348328	23922232	4630	81795											
CCDC160	347475	broad.mit.edu	37	chrX	133379180	133379180	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaacagcacagaagataActctacctgcagtacagata	16	9	6	10	0	1	3	0	0	1	3	1	3	1	3	1	0	6	3	1	0	6	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:133379180A>G	uc011mvj.1	+	2	671	c.350A>G	c.(349-351)AAC>AGC	p.N117S		NM_001101357	NP_001094827	A6NGH7	CC160_HUMAN	coiled-coil domain containing 160	117										skin(1)	1						ACAGAAGATAACTCTACCTGC	0.343													7	11					0	0	1	0	0		G	133379180	G	G	133379180	3	3	151	1	0	0	0	0	1	0	0	0	2795	43	2	3	352	3	CCDC160	23	133379180	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2030852	133379180	21891380	4631	81796											
ZNF75D	7626	broad.mit.edu	37	chrX	134421687	134421688	+	Frame_Shift_Ins	INS	-	T	T																															gggcaattttcattctggtcINSttttttgatacttcgcatcc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:134421687_134421688insT	uc004eyp.2	-	7	3569_3570	c.914_915insA	c.(913-915)AAGfs	p.K305fs	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_Frame_Shift_Ins_p.K84fs|ZNF75D_uc004eyo.2_Frame_Shift_Ins_p.K210fs	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	305	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCATTCTGGTCTTTTTTGATAC	0.371													102	100	---	---	---	---						.	T	134421688	T	T	134421687	7	5	151	1	0	1	1	0	0	0	0	0	18159	912	32	0	621	0	ZNF75D	23	134421687	Frame_Shift_Ins	INS	-	TCGA-CG-5721-01A-11D-1600-08	1042507	134421687	20848873	4632	81797											
ARHGEF6	9459	broad.mit.edu	37	chrX	135825784	135825784	+	Silent	SNP	G	A	A	0	0	1	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	acataattactggggaaccaGcctgttctcccatttaatgt	11	13	7	10	0	1	0	0	0	1	0	2	1	1	1	3	2	3	1	3	2	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:135825784G>A	uc004fab.2	-	5	1083	c.621C>T	c.(619-621)GGC>GGT	p.G207G	ARHGEF6_uc011mwd.1_Silent_p.G53G|ARHGEF6_uc011mwe.1_Silent_p.G53G	NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	207	SH3.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					TGGGGAACCAGCCTGTTCTCC	0.408													7	220					0	0	1	0	0		A	135825784	A	A	135825784	2	1	151	1	0	0	0	0	0	0	0	1	910	958	34	2		2	ARHGEF6	23	135825784	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1404097	135825784	19444776	4633	81798											
ATP11C	286410	broad.mit.edu	37	chrX	138878614	138878614	+	Missense_Mutation	SNP	T	C	C	0	1	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	cataaatgataggaagtcggTgaacatttttaaaacctaaa	18	11	7	5	1	0	2	0	2	0	0	1	3	0	3	1	2	2	0	1	2	9	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:138878614T>C	uc004faz.2	-	12	1132	c.1033A>G	c.(1033-1035)ACC>GCC	p.T345A	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.T345A	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	345	Extracellular (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					AGGAAGTCGGTGAACATTTTT	0.313													66	39					0	0	1	0	0		C	138878614	C	C	138878614	3	2	151	1	0	0	0	0	1	0	0	0	1122	1696	59	3	2504	3	ATP11C	23	138878614	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	3052830	138878614	16391946	4634	81799											
MAGEC3	139081	broad.mit.edu	37	chrX	140983059	140983059	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctctgctgtcagccctGgtcagccttggcagggttcg	3	11	13	14	1	3	0	2	0	1	0	4	0	3	0	3	3	4	3	3	3	0	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:140983059G>A	uc011mwp.1	+	5	914	c.914G>A	c.(913-915)TGG>TAG	p.W305*	MAGEC3_uc004fbs.2_5'UTR|MAGEC3_uc010nsj.2_5'Flank	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	305	MAGE 1.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TGTCAGCCCTGGTCAGCCTTG	0.458													26	32					0	0	1	0	0		A	140983059	A	A	140983059	4	1	151	1	0	0	0	0	0	1	0	0	9200	1357	47	4	932	4	MAGEC3	23	140983059	Nonsense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2104445	140983059	14287501	4635	81800											
MAGEC1	9947	broad.mit.edu	37	chrX	140995386	140995386	+	Frame_Shift_Del	DEL	G	-	-																															tttcctcagtttcctcctcaGggggaggacttccagtcttc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:140995386delG	uc004fbt.2	+	4	2482	c.2196delG	c.(2194-2196)CAGfs	p.Q732fs	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	732							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCTCCTCAGGGGGAGGACT	0.542										HNSCC(15;0.026)			162	154	---	---	---	---						.	-	140995386	-	-	140995386	7	5	151	1	0	1	0	1	0	0	0	0	9198	991	35	0	2202	0	MAGEC1	23	140995386	Frame_Shift_Del	DEL	G	TCGA-CG-5721-01A-11D-1600-08	12327	140995386	14275174	4636	81801											
SPANXN3	139067	broad.mit.edu	37	chrX	142596675	142596675	+	Missense_Mutation	SNP	T	C	C	0	1	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	cactgtcctgtgaagatcctTcagataagcctaggtcttca	10	12	8	11	0	3	3	2	1	1	2	5	3	5	3	3	1	1	0	3	1	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:142596675T>C	uc004fbw.2	-	2	483	c.395A>G	c.(394-396)GAA>GGA	p.E132G		NM_001009609	NP_001009609	Q5MJ09	SPXN3_HUMAN	SPANX-N3 protein	132										ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGAAGATCCTTCAGATAAGCC	0.443													6	152					0	0	1	0	0		C	142596675	C	C	142596675	3	2	151	1	0	0	0	0	1	0	0	0	15017	1783	62	3	34	3	SPANXN3	23	142596675	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	1601289	142596675	12673885	4637	81802											
SLITRK2	84631	broad.mit.edu	37	chrX	144903977	144903977	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggttcctcagtgtgttaAccgtggccgggatcttacag	6	14	12	9	2	2	0	1	0	1	0	3	1	3	1	3	3	2	2	3	3	2	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:144903977A>G	uc004fcd.2	+	5	1024	c.34A>G	c.(34-36)ACC>GCC	p.T12A	SLITRK2_uc010nsp.2_Missense_Mutation_p.T12A|SLITRK2_uc010nso.2_Missense_Mutation_p.T12A|SLITRK2_uc011mwq.1_Missense_Mutation_p.T12A|SLITRK2_uc011mwr.1_Missense_Mutation_p.T12A|SLITRK2_uc011mws.1_Missense_Mutation_p.T12A|SLITRK2_uc004fcg.2_Missense_Mutation_p.T12A|SLITRK2_uc011mwt.1_Missense_Mutation_p.T12A	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	12						integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CAGTGTGTTAACCGTGGCCGG	0.502													5	36					0	0	1	0	0		G	144903977	G	G	144903977	3	3	151	1	0	0	0	0	1	0	0	0	14768	43	2	3	36	3	SLITRK2	23	144903977	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2307302	144903977	10366583	4638	81803											
FMR1NB	158521	broad.mit.edu	37	chrX	147106430	147106430	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggacaacagagttgtaacGggtttgaagaaacaaagaag	18	6	12	5	1	0	4	0	1	0	3	0	5	0	5	0	2	3	3	0	2	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:147106430G>T	uc004fcm.2	+	5	752	c.678G>T	c.(676-678)ACG>ACT	p.T226T		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	226	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GAGTTGTAACGGGTTTGAAGA	0.413													69	53					5.89852e-23	6.16999e-23	1	1	0		T	147106430	T	T	147106430	2	4	151	1	0	0	0	0	0	0	0	1	5975	1103	39	5		5	FMR1NB	23	147106430	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	2202453	147106430	8164130	4639	81804											
AFF2	2334	broad.mit.edu	37	chrX	147924950	147924950	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctacaaagtcagtgtctTtcaaatcgtgagtagttgga	11	14	9	7	1	4	1	2	1	2	0	5	2	4	2	0	1	1	2	0	1	4	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:147924950T>C	uc004fcp.2	+	7	1734	c.1255T>C	c.(1255-1257)TTC>CTC	p.F419L	AFF2_uc004fco.2_Intron|AFF2_uc004fcq.2_Intron|AFF2_uc004fcr.2_Intron|AFF2_uc011mxb.1_Intron|AFF2_uc004fcs.2_Missense_Mutation_p.F386L|AFF2_uc011mxc.1_Missense_Mutation_p.F60L	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	419					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					GTCAGTGTCTTTCAAATCGTG	0.398													6	160					0	0	1	0	0		C	147924950	C	C	147924950	3	2	151	1	0	0	0	0	1	0	0	0	357	1841	64	3	1336	3	AFF2	23	147924950	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	818520	147924950	7345610	4640	81805											
AFF2	2334	broad.mit.edu	37	chrX	148037624	148037624	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccagcccctaggaaagaAccaagacctaacatcccttt	16	6	5	14	0	0	2	0	0	0	2	1	3	1	3	6	1	4	0	6	1	6	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:148037624A>G	uc004fcp.2	+	11	2528	c.2049A>G	c.(2047-2049)GAA>GAG	p.E683E	AFF2_uc004fcq.2_Silent_p.E673E|AFF2_uc004fcr.2_Silent_p.E644E|AFF2_uc011mxb.1_Silent_p.E648E|AFF2_uc004fcs.2_Silent_p.E650E|AFF2_uc011mxc.1_Silent_p.E324E	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	683					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CTAGGAAAGAACCAAGACCTA	0.493													26	84					0	0	1	0	0		G	148037624	G	G	148037624	2	3	151	1	0	0	0	0	0	0	0	1	357	40	2	3		3	AFF2	23	148037624	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	112674	148037624	7232936	4641	81806											
PASD1	139135	broad.mit.edu	37	chrX	150844591	150844591	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattgatgcctgcagagcaAcgtgactcaaataagccgtg	13	8	11	9	2	1	4	1	2	0	2	1	4	1	4	2	0	5	2	2	0	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:150844591A>G	uc004fev.3	+	16	2630	c.2298A>G	c.(2296-2298)CAA>CAG	p.Q766Q		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	766						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CTGCAGAGCAACGTGACTCAA	0.572													25	71					0	0	1	0	0		G	150844591	G	G	150844591	2	3	151	1	0	0	0	0	0	0	0	1	11490	40	2	3		3	PASD1	23	150844591	Silent	SNP	A	TCGA-CG-5721-01A-11D-1600-08	2806967	150844591	4425969	4642	81807											
PRRG3	79057	broad.mit.edu	37	chrX	150869406	150869406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctacgaggaggtgactgcGccccaagagagcagcagtga	11	5	14	11	2	0	3	0	2	0	1	1	6	1	4	3	2	4	2	3	2	2	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:150869406G>A	uc004few.1	+	4	987	c.597G>A	c.(595-597)GCG>GCA	p.A199A		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	199	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGTGACTGCGCCCCAAGAGA	0.622													25	20					0	0	1	0	0		A	150869406	A	A	150869406	2	1	151	1	0	0	0	0	0	0	0	1	12629	1074	38	1		1	PRRG3	23	150869406	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	24815	150869406	4401154	4643	81808											
PRRG3	79057	broad.mit.edu	37	chrX	150869501	150869501	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccaaccctggcgctgacaAgtagtgggacgtttgtgccc	7	8	13	13	3	0	1	0	1	0	0	0	2	0	2	3	2	2	3	3	2	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:150869501A>G	uc004few.1	+	4	1082	c.692A>G	c.(691-693)AAG>AGG	p.K231R		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	231	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GGCGCTGACAAGTAGTGGGAC	0.537													13	45					0	0	1	0	0		G	150869501	G	G	150869501	3	3	151	1	0	0	0	0	1	0	0	0	12629	72	3	3	702	3	PRRG3	23	150869501	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	95	150869501	4401059	4644	81809											
GABRQ	55879	broad.mit.edu	37	chrX	151806730	151806730	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggctcgcggagggcaactAccccagtcccatcccgaaat	9	6	10	16	3	0	0	0	0	0	0	3	2	2	1	4	3	2	2	4	3	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:151806730A>G	uc004ffp.1	+	1	94	c.74A>G	c.(73-75)TAC>TGC	p.Y25C		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	25	Extracellular (Potential).					cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GAGGGCAACTACCCCAGTCCC	0.642													14	22					0	0	1	0	0		G	151806730	G	G	151806730	3	3	151	1	0	0	0	0	1	0	0	0	6189	391	14	3	76	3	GABRQ	23	151806730	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	937229	151806730	3463830	4645	81810											
GABRQ	55879	broad.mit.edu	37	chrX	151821062	151821062	+	Frame_Shift_Del	DEL	C	-	-																															ccccatcaccccagcgcaggCccccctggcaagcccggaaa																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:151821062delC	uc004ffp.1	+	9	1237	c.1217delC	c.(1216-1218)GCCfs	p.A406fs		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	406						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					CCAGCGCAGGCCCCCCTGGCA	0.587													42	29	---	---	---	---						.	-	151821062	-	-	151821062	7	5	151	1	0	1	0	1	0	0	0	0	6189	739	26	0	1251	0	GABRQ	23	151821062	Frame_Shift_Del	DEL	C	TCGA-CG-5721-01A-11D-1600-08	14332	151821062	3449498	4646	81811											
ATP2B3	492	broad.mit.edu	37	chrX	152813387	152813387	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggagaagaagaaagccaaCgcacccaaaaaggagaagtc	19	1	12	9	2	0	4	0	0	0	4	1	6	0	4	2	2	2	1	2	2	7	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:152813387C>T	uc004fht.1	+	7	1179	c.1053C>T	c.(1051-1053)AAC>AAT	p.N351N	ATP2B3_uc004fhs.1_Silent_p.N351N	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	351	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					AGAAAGCCAACGCACCCAAAA	0.597													19	64					0	0	1	0	0		T	152813387	T	T	152813387	2	4	151	1	0	0	0	0	0	0	0	1	1142	535	19	1		1	ATP2B3	23	152813387	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	992325	152813387	2457173	4647	81812											
PLXNB3	5365	broad.mit.edu	37	chrX	153043053	153043053	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaccggcccatccccatcgCcgtcaagtacctgtttgacc	8	8	8	17	3	1	1	1	1	0	0	3	2	2	1	7	1	2	2	7	1	3	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153043053C>A	uc004fii.2	+	31	5345	c.5171C>A	c.(5170-5172)GCC>GAC	p.A1724D	PLXNB3_uc010nuk.2_Missense_Mutation_p.A1747D|PLXNB3_uc011mzd.1_Missense_Mutation_p.A1363D|SRPK3_uc004fik.2_5'UTR	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1724	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	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)					ATCCCCATCGCCGTCAAGTAC	0.592													35	121					9.65963e-10	9.93583e-10	1	1	0		A	153043053	A	A	153043053	3	1	151	1	0	0	0	0	1	0	0	0	12144	739	26	5	5407	5	PLXNB3	23	153043053	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	229666	153043053	2227507	4648	81813											
HCFC1	3054	broad.mit.edu	37	chrX	153225269	153225269	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccttgagtcctggctgcGgtgggcacagaaatggagct	8	9	14	10	1	1	2	1	1	0	1	2	3	2	3	2	4	2	3	2	4	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153225269G>A	uc004fjp.2	-	8	1956	c.1428C>T	c.(1426-1428)ACC>ACT	p.T476T		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	476					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	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)					TCCTGGCTGCGGTGGGCACAG	0.672													23	27					0	0	1	0	0		A	153225269	A	A	153225269	2	1	151	1	0	0	0	0	0	0	0	1	7007	1103	39	1		1	HCFC1	23	153225269	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	182216	153225269	2045291	4649	81814											
TMEM187	8269	broad.mit.edu	37	chrX	153247940	153247941	+	Frame_Shift_Del	DEL	CT	-	-																															gctggcggccctggctgttcCtctctcttgagtgcgtctcc																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153247940_153247941delCT	uc004fjq.2	+	2	961_962	c.427_428delCT	c.(427-429)CTCfs	p.L143fs	hsa-mir-3202-2|MI0014253_5'Flank	NM_003492	NP_003483	Q14656	TM187_HUMAN	transmembrane protein 187	143	Helical; (Potential).					integral to membrane|transport vesicle					0	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)					CTGGCTGTTCCTCTCTCTTGAG	0.673													9	12	---	---	---	---						.	-	153247941	-	-	153247940	7	5	151	1	0	1	0	1	0	0	0	0	16134	681	24	0	429	0	TMEM187	23	153247940	Frame_Shift_Del	DEL	CT	TCGA-CG-5721-01A-11D-1600-08	22671	153247940	2022620	4650	81815											
TKTL1	8277	broad.mit.edu	37	chrX	153557991	153557991	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctggatatgtatggaattAgtgccagacatatcatagtg	12	13	11	5	0	1	1	1	0	0	1	1	3	1	3	1	2	2	2	1	2	6	5			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153557991A>G	uc004fkg.2	+	13	1930	c.1744A>G	c.(1744-1746)AGT>GGT	p.S582G	TKTL1_uc011mzl.1_Missense_Mutation_p.S576G|TKTL1_uc011mzm.1_Missense_Mutation_p.S378G|TKTL1_uc004fkh.2_Missense_Mutation_p.S526G	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	582					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	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)					GTATGGAATTAGTGCCAGACA	0.468													50	125					0	0	1	0	0		G	153557991	G	G	153557991	3	3	151	1	0	0	0	0	1	0	0	0	15960	420	15	3	1794	3	TKTL1	23	153557991	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	310051	153557991	1712569	4651	81816											
FLNA	2316	broad.mit.edu	37	chrX	153578115	153578115	+	Missense_Mutation	SNP	A	G	G	1	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	gtgccatgggggtataggtgAcgcggtagccctcagggcac	7	7	17	10	2	1	1	1	1	0	0	1	1	1	1	2	5	2	3	2	5	3	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153578115A>G	uc004fkk.2	-	46	7703	c.7454T>C	c.(7453-7455)GTC>GCC	p.V2485A	FLNA_uc004fki.2_Missense_Mutation_p.V525A|FLNA_uc011mzn.1_Missense_Mutation_p.V618A|FLNA_uc010nuu.1_Missense_Mutation_p.V2477A	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2485	Filamin 23.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GGTATAGGTGACGCGGTAGCC	0.612											OREG0003592	type=REGULATORY REGION|Gene=FLNA|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	13	31					0	0	1	0	0		G	153578115	G	G	153578115	3	3	151	1	0	0	0	0	1	0	0	0	5947	275	10	3	501	3	FLNA	23	153578115	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	20124	153578115	1692445	4652	81817											
FLNA	2316	broad.mit.edu	37	chrX	153588878	153588878	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcccaggccacctgtgccGgcgcccttggtgtcgatggt	4	8	15	14	3	0	0	0	0	0	0	1	1	0	0	5	5	1	0	5	5	0	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153588878G>A	uc004fkk.2	-	22	3534	c.3285C>T	c.(3283-3285)GCC>GCT	p.A1095A	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Silent_p.A1095A	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1095	Filamin 9.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CACCTGTGCCGGCGCCCTTGG	0.682											OREG0003593	type=REGULATORY REGION|Gene=FLNA|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	23	9					0	0	1	0	0		A	153588878	A	A	153588878	2	1	151	1	0	0	0	0	0	0	0	1	5947	1103	39	1		1	FLNA	23	153588878	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	10763	153588878	1681682	4653	81818											
FLNA	2316	broad.mit.edu	37	chrX	153593012	153593012	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgccagcctcctgcggccagTagcgcacatcacaggagccg	8	4	12	17	4	1	0	1	0	0	0	2	1	2	1	5	2	4	2	5	2	1	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153593012T>C	uc004fkk.2	-	13	2153	c.1904A>G	c.(1903-1905)TAC>TGC	p.Y635C	FLNA_uc010nuu.1_Missense_Mutation_p.Y635C	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	635	Filamin 4.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTGCGGCCAGTAGCGCACATC	0.622													23	51					0	0	1	0	0		C	153593012	C	C	153593012	3	2	151	1	0	0	0	0	1	0	0	0	5947	1638	57	3	6183	3	FLNA	23	153593012	Missense_Mutation	SNP	T	TCGA-CG-5721-01A-11D-1600-08	4134	153593012	1677548	4654	81819											
FLNA	2316	broad.mit.edu	37	chrX	153594737	153594737	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgccactgggctccaggccGggaccttgggctgtcacttt	4	11	13	13	1	1	0	1	0	0	0	2	1	2	1	4	4	1	2	4	4	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153594737G>A	uc004fkk.2	-	8	1416	c.1167C>T	c.(1165-1167)CCC>CCT	p.P389P	FLNA_uc010nuu.1_Silent_p.P389P	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	389	Filamin 2.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCTCCAGGCCGGGACCTTGGG	0.592													21	48					0	0	1	0	0		A	153594737	A	A	153594737	2	1	151	1	0	0	0	0	0	0	0	1	5947	1103	39	1		1	FLNA	23	153594737	Silent	SNP	G	TCGA-CG-5721-01A-11D-1600-08	1725	153594737	1675823	4655	81820											
FAM50A	9130	broad.mit.edu	37	chrX	153674214	153674214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggctctggtgaaggagcGggagaagcagctggccaaga	11	4	19	7	1	1	3	0	1	1	2	1	6	1	5	1	6	3	3	1	6	3	0			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153674214G>A	uc004fll.3	+	3	349	c.251G>A	c.(250-252)CGG>CAG	p.R84Q		NM_004699	NP_004690	Q14320	FA50A_HUMAN	XAP-5 protein	84					spermatogenesis	nucleus				ovary(1)	1	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)					GTGAAGGAGCGGGAGAAGCAG	0.607													7	22					0	0	1	0	0		A	153674214	A	A	153674214	3	1	151	1	0	0	0	0	1	0	0	0	5591	1116	39	1	261	1	FAM50A	23	153674214	Missense_Mutation	SNP	G	TCGA-CG-5721-01A-11D-1600-08	79477	153674214	1596346	4656	81821											
PLXNA3	55558	broad.mit.edu	37	chrX	153688930	153688930	+	Missense_Mutation	SNP	A	G	G	1	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	caagctgggtgagccgcaccAccgcaaggagcactacctgt	10	5	12	14	2	0	1	0	1	0	0	0	2	0	2	4	2	4	4	4	2	3	1			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153688930A>G	uc004flm.2	+	2	580	c.407A>G	c.(406-408)CAC>CGC	p.H136R		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	136	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GAGCCGCACCACCGCAAGGAG	0.667													22	85					0	0	1	0	0		G	153688930	G	G	153688930	3	3	151	1	0	0	0	0	1	0	0	0	12140	159	6	3	409	3	PLXNA3	23	153688930	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	14716	153688930	1581630	4657	81822											
GAB3	139716	broad.mit.edu	37	chrX	153906491	153906491	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcatccgtccactcctgTtttgtgctctggagagcctg	4	15	9	13	1	2	1	1	0	1	1	5	2	5	1	4	1	2	2	4	1	0	3			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:153906491T>C	uc004fmj.1	-	10	1773	c.1725A>G	c.(1723-1725)AAA>AAG	p.K575K	GAB3_uc004fmk.1_Silent_p.K576K|GAB3_uc010nve.1_Silent_p.K537K|GAB3_uc004fml.1_Silent_p.K195K	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	575										ovary(1)	1	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)					TCCACTCCTGTTTTGTGCTCT	0.453													50	108					0	0	1	0	0		C	153906491	C	C	153906491	2	2	151	1	0	0	0	0	0	0	0	1	6164	1722	60	3		3	GAB3	23	153906491	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	217561	153906491	1364069	4658	81823											
MPP1	4354	broad.mit.edu	37	chrX	154007457	154007457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccattctacaagcttagtAaacccaggagacaggcaccc	13	6	7	15	0	1	1	0	0	1	1	1	2	1	1	4	2	3	3	4	2	5	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:154007457A>G	uc004fmp.1	-	12	1511	c.1396T>C	c.(1396-1398)TAC>CAC	p.Y466H	MPP1_uc010nvg.1_Missense_Mutation_p.Y446H|MPP1_uc011mzv.1_Missense_Mutation_p.Y436H|MPP1_uc004fmq.1_Missense_Mutation_p.Y420H|MPP1_uc011mzw.1_Missense_Mutation_p.Y449H	NM_002436	NP_002427	Q00013	EM55_HUMAN	palmitoylated membrane protein 1	466	Interaction with MPP5.				regulation of neutrophil chemotaxis|signal transduction	integral to plasma membrane|membrane fraction|stereocilium	guanylate kinase activity|protein binding			ovary(2)|central_nervous_system(1)	3	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)					CAAGCTTAGTAAACCCAGGAG	0.488													26	47					0	0	1	0	0		G	154007457	G	G	154007457	3	3	151	1	0	0	0	0	1	0	0	0	9751	362	13	3	8	3	MPP1	23	154007457	Missense_Mutation	SNP	A	TCGA-CG-5721-01A-11D-1600-08	100966	154007457	1263103	4659	81824											
H2AFB1	474382	broad.mit.edu	37	chrX	154113626	154113626	+	Frame_Shift_Del	DEL	T	-	-																															cgacaggctactgagcacccTtttcaacacgaccaccatct																										TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:154113626delT	uc004fmu.2	+	1	310	c.302delT	c.(301-303)CTTfs	p.L101fs	F8_uc004fmt.2_Intron|F8_uc004fms.2_Intron|F8A1_uc004fmv.2_5'Flank	NM_080720	NP_542451	P0C5Y9	H2AB1_HUMAN	H2A histone family, member B3	101	Docking domain.				nucleosome assembly	nucleosome|nucleus	DNA binding				0	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CTGAGCACCCTTTTCAACACG	0.637													21	39	---	---	---	---						.	-	154113626	-	-	154113626	7	5	151	1	0	1	0	1	0	0	0	0	6940	1609	56	0	304	0	H2AFB1	23	154113626	Frame_Shift_Del	DEL	T	TCGA-CG-5721-01A-11D-1600-08	106169	154113626	1156934	4660	81825											
F8	2157	broad.mit.edu	37	chrX	154130394	154130394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccaataaggcattccaccCgccaaattccagctttggat	11	9	7	14	2	0	0	0	0	0	0	2	1	2	1	5	2	1	2	5	2	3	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:154130394C>T	uc004fmt.2	-	19	6218	c.6047G>A	c.(6046-6048)CGG>CAG	p.R2016Q	F8_uc010nvi.1_Intron	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2016	F5/8 type A 3.|Plastocyanin-like 6.		R -> P (in HEMA; severe familial).|R -> W (in HEMA; severe/moderate/mild).		acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GCATTCCACCCGCCAAATTCC	0.423													27	88					0	0	1	0	0		T	154130394	T	T	154130394	3	4	151	1	0	0	0	0	1	0	0	0	5358	652	23	1	1068	1	F8	23	154130394	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	16768	154130394	1140166	4661	81826											
F8	2157	broad.mit.edu	37	chrX	154158195	154158195	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaagttttcttcctccccTttttttgagaaatgagctgt	7	18	6	10	0	1	2	0	2	1	1	4	3	4	2	4	0	1	2	4	0	2	6			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:154158195T>C	uc004fmt.2	-	14	4041	c.3870A>G	c.(3868-3870)AAA>AAG	p.K1290K		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1290	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	CTTCCTCCCCTTTTTTTGAGA	0.383													71	188					0	0	1	0	0		C	154158195	C	C	154158195	2	2	151	1	0	0	0	0	0	0	0	1	5358	1606	56	3		3	F8	23	154158195	Silent	SNP	T	TCGA-CG-5721-01A-11D-1600-08	27801	154158195	1112365	4662	81827											
TMLHE	55217	broad.mit.edu	37	chrX	154741369	154741369	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaataggtagtgtcagtgtgCcgatccagagctagcttggt	10	11	13	7	1	1	1	1	0	0	1	2	2	2	1	2	2	3	3	2	2	4	4			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:154741369C>T	uc004fnn.2	-	5	889	c.723G>A	c.(721-723)CGG>CGA	p.R241R	TMLHE_uc004fno.2_Silent_p.R241R|TMLHE_uc004fnp.3_Silent_p.R241R	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	241					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	TGTCAGTGTGCCGATCCAGAG	0.413													50	167					0	0	1	0	0		T	154741369	T	T	154741369	2	4	151	1	0	0	0	0	0	0	0	1	16257	726	26	2		2	TMLHE	23	154741369	Silent	SNP	C	TCGA-CG-5721-01A-11D-1600-08	583174	154741369	529191	4663	81828											
SPRY3	10251	broad.mit.edu	37	chrX	155003541	155003541	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatcaaggcaaaatggatgCtgcggtgacagatgattttc	14	10	11	6	1	1	3	1	2	0	1	2	4	1	4	0	3	2	2	0	3	4	2			TCGA-CG-5721-01A-11D-1600-08	TCGA-CG-5721-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ed0d81a-b61c-4b8f-b99f-bd3c40dcd61a	3622f6a0-d481-4c2b-874c-1e3965f39982	g.chrX:155003541C>A	uc004fnq.1	+	2	462	c.8C>A	c.(7-9)GCT>GAT	p.A3D	SPRY3_uc010nvl.1_Missense_Mutation_p.A3D	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	3					multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AAAATGGATGCTGCGGTGACA	0.463													13	181					5.50884e-06	5.58596e-06	1	1	0		A	155003541	A	A	155003541	3	1	151	1	0	0	0	0	1	0	0	0	15132	797	28	5	10	5	SPRY3	23	155003541	Missense_Mutation	SNP	C	TCGA-CG-5721-01A-11D-1600-08	262172	155003541	267019	4664	81829											
EPHA8	2046	broad.mit.edu	37	chr1	22927491	22927491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgttggcacaaggaccgggCgcagcggcctcgcttctccc	5	7	13	16	4	1	0	0	0	1	0	3	1	1	1	3	4	1	4	3	4	1	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr1:22927491C>T	uc001bfx.1	+	15	2764	c.2639C>T	c.(2638-2640)GCG>GTG	p.A880V		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	880	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		AAGGACCGGGCGCAGCGGCCT	0.662													5	49					0	0	0.02938	0	0		T	22927491	T	T	22927491	3	4	152	1	0	0	0	0	1	0	0	0	5181	768	27	1	2870	1	EPHA8	1	22927491	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		22927491	226323130	1	81830											
CD53	963	broad.mit.edu	37	chr1	111441780	111441780	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctttgcactgaccctgaactGccagattgacaaaaccagcc	12	8	7	14	0	0	4	0	3	0	1	0	4	0	4	4	0	5	1	4	0	3	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr1:111441780G>T	uc001dzw.2	+	9	794	c.623G>T	c.(622-624)TGC>TTC	p.C208F	CD53_uc001dzx.2_Missense_Mutation_p.C208F|CD53_uc010owa.1_Missense_Mutation_p.C149F|CD53_uc001dzy.2_Missense_Mutation_p.C153F	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	208	Cytoplasmic (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		ACCCTGAACTGCCAGATTGAC	0.443													6	55					1.06961e-07	1.25779e-07	0.00308	1	0		T	111441780	T	T	111441780	3	4	152	1	0	0	0	0	1	0	0	0	3026	1319	46	5	649	5	CD53	1	111441780	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	88514289	111441780	137808841	2	81831											
MAGI3	260425	broad.mit.edu	37	chr1	114225853	114225853	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttacacgaagaggtagatcGgttagtcccaaaaagccagc	14	7	11	9	2	0	2	0	0	0	2	2	3	1	2	2	2	3	3	2	2	6	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr1:114225853G>A	uc001edk.2	+	21	3844	c.3663G>A	c.(3661-3663)TCG>TCA	p.S1221S	MAGI3_uc001edi.3_3'UTR|MAGI3_uc010owm.1_3'UTR|MAGI3_uc001edj.2_3'UTR|MAGI3_uc009wgo.2_RNA	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	1246					apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAGGTAGATCGGTTAGTCCCA	0.398													13	100					0	0	0.016723	0	0		A	114225853	A	A	114225853	2	1	152	1	0	0	0	0	0	0	0	1	9210	1103	39	1		1	MAGI3	1	114225853	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	2784073	114225853	135024768	3	81832											
PDE4DIP	9659	broad.mit.edu	37	chr1	144917576	144917576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgctctctcacagcaagacGaagctggcgcagttcttttt	8	12	9	12	3	3	1	1	0	2	1	5	2	3	1	0	1	2	5	0	1	2	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr1:144917576G>A	uc001elw.3	-	12	1819	c.1528C>T	c.(1528-1530)CGT>TGT	p.R510C	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R576C|PDE4DIP_uc001emc.1_Missense_Mutation_p.R510C|PDE4DIP_uc001emd.1_Missense_Mutation_p.R510C|PDE4DIP_uc001emb.1_Missense_Mutation_p.R673C|PDE4DIP_uc001eme.1_Missense_Mutation_p.R39C|PDE4DIP_uc001emf.1_Missense_Mutation_p.R297C	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	510	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACAGCAAGACGAAGCTGGCGC	0.443			T	PDGFRB	MPD								38	539					0	0	0.021022	0	0		A	144917576	A	A	144917576	3	1	152	1	0	0	0	0	1	0	0	0	11662	1058	37	1	5654	1	PDE4DIP	1	144917576	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	30691723	144917576	104333045	4	81833											
OR6K3	391114	broad.mit.edu	37	chr1	158687142	158687142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaacgcaagtacatgagtGatacactgccaaagaatatc	17	8	8	8	1	0	4	0	3	0	1	1	4	0	4	1	0	4	2	1	0	7	3	rs79482939	by1000genomes	TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr1:158687142G>A	uc010pip.1	-	1	812	c.812C>T	c.(811-813)TCA>TTA	p.S271L		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	271	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GTACATGAGTGATACACTGCC	0.453													6	149					0	0	0.021553	0	0		A	158687142	A	A	158687142	3	1	152	1	0	0	0	0	1	0	0	0	11222	1294	45	4	185	4	OR6K3	1	158687142	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	13769566	158687142	90563479	5	81834											
SIPA1L2	57568	broad.mit.edu	37	chr1	232650895	232650895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctggggtaccattagccGgaccaccaccgccagtctca	9	6	10	16	2	1	0	1	0	1	0	2	1	1	1	6	3	3	2	6	3	2	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr1:232650895G>A	uc001hvg.2	-	1	349	c.191C>T	c.(190-192)CCG>CTG	p.P64L		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	64					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				ACCATTAGCCGGACCACCACC	0.483													12	114					0	0	0.010729	0	0		A	232650895	A	A	232650895	3	1	152	1	0	0	0	0	1	0	0	0	14355	1116	39	1	5061	1	SIPA1L2	1	232650895	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	73963753	232650895	16599726	6	81835											
OR2T12	127064	broad.mit.edu	37	chr1	248457935	248457935	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatcatcttgacctgtgggCctcattttgctggtgtttta	6	17	10	8	0	3	2	2	1	1	1	3	2	3	2	2	2	1	2	2	2	1	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr1:248457935C>A	uc010pzj.1	-	1	946	c.946G>T	c.(946-948)GCC>TCC	p.A316S		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	316	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GACCTGTGGGCCTCATTTTGC	0.418													29	286					1.39806e-14	1.67503e-14	0.037714	1	0		A	248457935	A	A	248457935	3	1	152	1	0	0	0	0	1	0	0	0	11038	739	26	5	19	5	OR2T12	1	248457935	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	15807040	248457935	792686	7	81836											
NFE2L2	4780	broad.mit.edu	37	chr2	178096690	178096690	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagtttggcttctggacttGgaaccatggtagtctcaacc	8	13	10	10	0	3	0	2	0	2	0	4	2	3	2	2	4	2	3	2	4	3	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr2:178096690G>T	uc002ulh.3	-	5	1196	c.641C>A	c.(640-642)CCA>CAA	p.P214Q	NFE2L2_uc002ulg.3_Missense_Mutation_p.P198Q|NFE2L2_uc010zfa.1_Missense_Mutation_p.P191Q|NFE2L2_uc002uli.3_Missense_Mutation_p.P198Q	NM_006164	NP_006155	Q16236	NF2L2_HUMAN	nuclear factor erythroid 2-like 2 isoform 1	214					transcription from RNA polymerase II promoter	centrosome|cytosol|nucleus|plasma membrane	protein dimerization activity|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Epithelial(96;0.00442)|OV - Ovarian serous cystadenocarcinoma(117;0.00739)|all cancers(119;0.0195)|LUSC - Lung squamous cell carcinoma(2;0.036)|Lung(16;0.0935)			TTCTGGACTTGGAACCATGGT	0.338			Mis		NSCLC|HNSCC					HNSCC(56;0.16)			20	161					1.96292e-10	2.32982e-10	0.010504	1	0		T	178096690	T	T	178096690	3	4	152	1	0	0	0	0	1	0	0	0	10387	1348	47	5	1180	5	NFE2L2	2	178096690	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08		178096690	65102683	8	81837											
TTN	7273	broad.mit.edu	37	chr2	179426117	179426117	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcacaaggatctcttgcagGgactggttcacaagatttac	11	11	10	9	0	3	1	2	0	1	1	4	3	3	3	0	3	2	2	0	3	3	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr2:179426117G>C	uc010zfg.1	-	275	77262	c.77038C>G	c.(77038-77040)CCT>GCT	p.P25680A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P19375A|TTN_uc010zfi.1_Missense_Mutation_p.P19308A|TTN_uc010zfj.1_Missense_Mutation_p.P19183A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26607							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTCTTGCAGGGACTGGTTCA	0.413													26	330					0	0	0.037714	0	0		C	179426117	C	C	179426117	3	2	152	1	0	0	0	0	1	0	0	0	16761	1232	43	5	23385	5	TTN	2	179426117	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	1329427	179426117	63773256	9	81838											
TTN	7273	broad.mit.edu	37	chr2	179581972	179581972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgtagttgcctccagggcGaatctctcggttatctttgg	5	15	11	10	2	2	0	0	0	2	0	5	1	3	0	2	3	1	3	2	3	3	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr2:179581972G>A	uc010zfg.1	-	85	21981	c.21757C>T	c.(21757-21759)CGC>TGC	p.R7253C	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.R3914C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8180							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTCCAGGGCGAATCTCTCGG	0.458													18	90					0	0	0.006122	0	0		A	179581972	A	A	179581972	3	1	152	1	0	0	0	0	1	0	0	0	16761	1058	37	1	79140	1	TTN	2	179581972	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	155855	179581972	63617401	10	81839											
PARD3B	117583	broad.mit.edu	37	chr2	205990415	205990415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcagggggagacagcatCgctggtcattgcccgccaag	10	5	14	12	2	1	1	1	0	0	1	2	2	1	1	2	3	3	3	2	3	2	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr2:205990415C>T	uc002var.1	+	10	1595	c.1388C>T	c.(1387-1389)TCG>TTG	p.S463L	PARD3B_uc010fub.1_Missense_Mutation_p.S463L|PARD3B_uc002vao.1_Missense_Mutation_p.S463L|PARD3B_uc002vap.1_Missense_Mutation_p.S463L|PARD3B_uc002vaq.1_Missense_Mutation_p.S463L	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	463	PDZ 2.				cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		GAGACAGCATCGCTGGTCATT	0.488													18	160					0	0	0.0333	0	0		T	205990415	T	T	205990415	3	4	152	1	0	0	0	0	1	0	0	0	11463	893	31	1	1426	1	PARD3B	2	205990415	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	26408443	205990415	37208958	11	81840											
SLC16A14	151473	broad.mit.edu	37	chr2	230910835	230910835	+	Missense_Mutation	SNP	T	C	C	0	1	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	aattgacgatttctgggaggTgaatgaaggggatgacaaag	14	9	15	3	1	1	4	0	4	1	0	1	7	1	6	0	4	0	0	0	4	4	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr2:230910835T>C	uc002vqd.1	-	4	1370	c.1007A>G	c.(1006-1008)CAC>CGC	p.H336R	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.H336R|SLC16A14_uc002vqf.2_Missense_Mutation_p.H336R	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	336	Cytoplasmic (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		TTCTGGGAGGTGAATGAAGGG	0.403													8	55					0	0	0.006214	0	0		C	230910835	C	C	230910835	3	2	152	1	0	0	0	0	1	0	0	0	14432	1696	59	3	533	3	SLC16A14	2	230910835	Missense_Mutation	SNP	T	TCGA-CG-5722-01A-21D-1600-08	24920420	230910835	12288538	12	81841											
TRANK1	9881	broad.mit.edu	37	chr3	36896947	36896947	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgggagcaccctgagcttCgacagcctccgggatatgtt	8	9	12	12	2	0	1	0	1	0	0	2	4	1	3	3	2	3	3	3	2	1	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:36896947C>T	uc003cgj.2	-	3	2786	c.2484G>A	c.(2482-2484)TCG>TCA	p.S828S		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1378					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CCCTGAGCTTCGACAGCCTCC	0.493													22	166					0	0	0.012319	0	0		T	36896947	T	T	36896947	2	4	152	1	0	0	0	0	0	0	0	1	16480	871	31	1		1	TRANK1	3	36896947	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08		36896947	161125483	13	81842											
PCBP4	57060	broad.mit.edu	37	chr3	51992845	51992845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggccagggcgatggagaccGgagagccagtgatggtgaca	10	4	19	8	2	0	4	0	2	0	2	0	7	0	4	3	5	1	0	3	5	0	0			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:51992845G>A	uc003dcd.1	-	11	1280	c.884C>T	c.(883-885)CCG>CTG	p.P295L	PCBP4_uc003dcb.1_Missense_Mutation_p.P261L|PCBP4_uc003dcc.1_Missense_Mutation_p.P316L|PCBP4_uc003dce.1_Silent_p.S296S|PCBP4_uc003dcf.1_Missense_Mutation_p.P295L|PCBP4_uc003dcg.1_Missense_Mutation_p.P261L|PCBP4_uc003dch.1_Missense_Mutation_p.P295L|PCBP4_uc003dci.1_Missense_Mutation_p.P135L|PCBP4_uc003dcj.1_Missense_Mutation_p.P295L|PCBP4_uc003dck.1_Missense_Mutation_p.P252L|PCBP4_uc003dcl.1_Missense_Mutation_p.P295L	NM_033010	NP_127503	P57723	PCBP4_HUMAN	poly(rC) binding protein 4 isoform c	295						cytoplasm|ribonucleoprotein complex	DNA binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GATGGAGACCGGAGAGCCAGT	0.627													3	57					0	0	0.004672	0	0		A	51992845	A	A	51992845	3	1	152	1	0	0	0	0	1	0	0	0	11522	1116	39	1	335	1	PCBP4	3	51992845	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	15095898	51992845	146029585	14	81843											
KALRN	8997	broad.mit.edu	37	chr3	124436117	124436117	+	Missense_Mutation	SNP	A	T	T	1	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	ggatgatggccggctcttagActaccttatgaatcatgatg	10	12	11	8	1	2	4	1	3	1	1	2	5	2	5	2	3	1	1	2	3	4	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:124436117A>T	uc003ehg.2	+	59	8427	c.8300A>T	c.(8299-8301)GAC>GTC	p.D2767V	KALRN_uc003ehk.2_Missense_Mutation_p.D1070V	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2766	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CGGCTCTTAGACTACCTTATG	0.408													25	169					0	0	0.024334	0	0		T	124436117	T	T	124436117	3	4	152	1	0	0	0	0	1	0	0	0	7991	275	10	5	8690	5	KALRN	3	124436117	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08	72443272	124436117	73586313	15	81844											
VEPH1	79674	broad.mit.edu	37	chr3	157188240	157188240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcatgcttttcaatggactCggtctctctgatggctgttg	5	16	11	9	1	3	1	1	1	2	0	5	2	3	2	0	3	2	4	0	3	1	3	rs141413130		TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:157188240C>T	uc003fbj.1	-	3	534	c.217G>A	c.(217-219)GAG>AAG	p.E73K	VEPH1_uc003fbk.1_Missense_Mutation_p.E73K|VEPH1_uc010hvu.1_Missense_Mutation_p.E73K|VEPH1_uc003fbm.2_Missense_Mutation_p.E73K|VEPH1_uc003fbn.2_Missense_Mutation_p.E73K	NM_024621	NP_078897	Q14D04	MELT_HUMAN	ventricular zone expressed PH domain homolog 1	73						plasma membrane				breast(3)|ovary(1)|lung(1)	5			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			TCAATGGACTCGGTCTCTCTG	0.458													17	220					0	0	0.010504	0	0		T	157188240	T	T	157188240	3	4	152	1	0	0	0	0	1	0	0	0	17180	893	31	1	2454	1	VEPH1	3	157188240	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	32752123	157188240	40834190	16	81845											
SAMD7	344658	broad.mit.edu	37	chr3	169644391	169644391	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaggagaatggaaaaaaTtaatcccaagggactagcag	19	5	11	6	0	0	1	0	0	0	1	1	4	1	3	1	3	1	2	1	3	8	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:169644391T>A	uc003fgd.2	+	6	608	c.341T>A	c.(340-342)ATT>AAT	p.I114N	SAMD7_uc003fge.2_Missense_Mutation_p.I114N|SAMD7_uc011bpo.1_Missense_Mutation_p.I15N	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	114										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			ATGGAAAAAATTAATCCCAAG	0.453													16	98					0	0	0.028581	0	0		A	169644391	A	A	169644391	3	1	152	1	0	0	0	0	1	0	0	0	13849	1493	52	5	355	5	SAMD7	3	169644391	Missense_Mutation	SNP	T	TCGA-CG-5722-01A-21D-1600-08	12456151	169644391	28378039	17	81846											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; 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; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			10	88					0	0	0.020292	0	0		A	178936091	A	A	178936091	3	1	152	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	9291700	178936091	19086339	18	81847											
DNAJB11	51726	broad.mit.edu	37	chr3	186299790	186299790	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctctttacctcagactagtGaatgaagaacgaacgctgga	13	10	9	9	2	2	4	1	2	1	2	3	6	2	5	1	1	3	1	1	1	6	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:186299790G>C	uc003fqi.2	+	6	826	c.606G>C	c.(604-606)GTG>GTC	p.V202V		NM_016306	NP_057390	Q9UBS4	DJB11_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 11	202					protein folding	endoplasmic reticulum lumen	heat shock protein binding			ovary(1)|lung(1)	2	all_cancers(143;2.84e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.44e-20)	GBM - Glioblastoma multiforme(93;0.0476)		TCAGACTAGTGAATGAAGAAC	0.333													8	37					0	0	0.00308	0	0		C	186299790	C	C	186299790	2	2	152	1	0	0	0	0	0	0	0	1	4622	1277	45	5		5	DNAJB11	3	186299790	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	7363699	186299790	11722640	19	81848											
MASP1	5648	broad.mit.edu	37	chr3	186943280	186943280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttcattttcatctgaccGgagcctccaatgcttgcctg	6	14	8	13	1	3	1	2	1	1	0	4	2	4	2	4	1	3	2	4	1	1	4	rs28945073		TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr3:186943280G>A	uc003frh.1	-	13	1905	c.1573C>T	c.(1573-1575)CGG>TGG	p.R525W		NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	525	Peptidase S1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		TCATCTGACCGGAGCCTCCAA	0.557													19	180					0	0	0.008871	0	0		A	186943280	A	A	186943280	3	1	152	1	0	0	0	0	1	0	0	0	9340	1115	39	1	542	1	MASP1	3	186943280	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	643490	186943280	11079150	20	81849											
HNRNPD	3184	broad.mit.edu	37	chr4	83278030	83278030	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgatattgttccttcgacaTggctacttttatttcacact	8	18	5	10	1	1	1	1	1	0	0	3	2	2	1	1	1	1	2	1	1	3	8			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr4:83278030T>C	uc003hmm.1	-	6	1090	c.772A>G	c.(772-774)ATG>GTG	p.M258V	HNRNPD_uc003hml.1_RNA|HNRNPD_uc003hmn.1_Missense_Mutation_p.M239V|HNRNPD_uc003hmo.1_Missense_Mutation_p.M258V|HNRNPD_uc003hmp.1_Missense_Mutation_p.M239V|HNRNPD_uc010ijr.1_Missense_Mutation_p.M239V|HNRNPD_uc011cci.1_Missense_Mutation_p.M104V	NM_031370	NP_112738	Q14103	HNRPD_HUMAN	heterogeneous nuclear ribonucleoprotein D	258	RRM 2.				nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|RNA catabolic process|transcription, DNA-dependent	cytosol|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|telomeric DNA binding				0						TCCTTCGACATGGCTACTTTT	0.373													61	409					0	0	0.01441	0	0		C	83278030	C	C	83278030	3	2	152	1	0	0	0	0	1	0	0	0	7280	1464	51	3	307	3	HNRNPD	4	83278030	Missense_Mutation	SNP	T	TCGA-CG-5722-01A-21D-1600-08		83278030	107876246	21	81850											
CDS1	1040	broad.mit.edu	37	chr4	85553014	85553014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggtgaagaaacattatcGtctgcagttttatatggtgt	10	17	10	4	1	1	2	0	1	1	1	2	2	1	2	0	2	2	2	0	2	5	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr4:85553014G>A	uc011ccv.1	+	6	1121	c.623G>A	c.(622-624)CGT>CAT	p.R208H	CDS1_uc010ike.1_Missense_Mutation_p.R12H	NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	208					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)		AAACATTATCGTCTGCAGTTT	0.328													21	386					0	0	0.012319	0	0		A	85553014	A	A	85553014	3	1	152	1	0	0	0	0	1	0	0	0	3180	1145	40	1	645	1	CDS1	4	85553014	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	2274984	85553014	105601262	22	81851											
TLL1	7092	broad.mit.edu	37	chr4	167012436	167012436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggaaataaaatgtttgttCggtttgtttctgatgcatct	9	18	9	5	1	2	1	0	1	2	0	3	2	2	2	0	2	1	5	0	2	3	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr4:167012436C>T	uc003irh.1	+	19	3246	c.2599C>T	c.(2599-2601)CGG>TGG	p.R867W	TLL1_uc011cjn.1_Missense_Mutation_p.R890W|TLL1_uc011cjo.1_Missense_Mutation_p.R691W	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	867	CUB 4.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		AATGTTTGTTCGGTTTGTTTC	0.403													11	66					0	0	0.008291	0	0		T	167012436	T	T	167012436	3	4	152	1	0	0	0	0	1	0	0	0	15970	875	31	1	2673	1	TLL1	4	167012436	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	81459422	167012436	24141840	23	81852											
PCDHA1	56147	broad.mit.edu	37	chr5	140166324	140166324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatctagactcctgaattCgcgttttccgatagaaggag	11	12	10	8	3	1	4	0	2	1	2	4	6	3	5	2	1	0	1	2	1	5	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr5:140166324C>T	uc003lhb.2	+	1	449	c.449C>T	c.(448-450)TCG>TTG	p.S150L	PCDHA1_uc003lha.2_Missense_Mutation_p.S150L|PCDHA1_uc003lgz.2_Missense_Mutation_p.S150L	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	150	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCTGAATTCGCGTTTTCCG	0.443													20	134					0	0	0.008871	0	0		T	140166324	T	T	140166324	3	4	152	1	0	0	0	0	1	0	0	0	11538	893	31	1	451	1	PCDHA1	5	140166324	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		140166324	40748936	24	81853											
PCDHA6	56142	broad.mit.edu	37	chr5	140208285	140208285	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaaatccttggacagagaGgaagctcctgcacacaactt	15	7	9	10	0	0	2	0	0	0	2	2	5	2	4	2	2	3	2	2	2	4	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr5:140208285G>T	uc003lho.2	+	1	636	c.609G>T	c.(607-609)GAG>GAT	p.E203D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.E203D|PCDHA6_uc011dab.1_Missense_Mutation_p.E203D	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	203	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGACAGAGAGGAAGCTCCTG	0.448													13	108					0.00316338	0.00349347	0.024245	1	0		T	140208285	T	T	140208285	3	4	152	1	0	0	0	0	1	0	0	0	11547	991	35	5	611	5	PCDHA6	5	140208285	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	41961	140208285	40706975	25	81854											
PCDHA8	56140	broad.mit.edu	37	chr5	140222835	140222835	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacgaagcggactctccGcgccaccgtctgctggtcct	5	8	12	16	5	2	0	0	0	2	0	4	3	3	2	4	3	2	1	4	3	1	0			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr5:140222835G>A	uc003lhs.2	+	1	1929	c.1929G>A	c.(1927-1929)CCG>CCA	p.P643P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.P643P	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	643	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGACTCTCCGCGCCACCGTC	0.662													13	92					0	0	0.020292	0	0		A	140222835	A	A	140222835	2	1	152	1	0	0	0	0	0	0	0	1	11549	1074	38	1		1	PCDHA8	5	140222835	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	14550	140222835	40692425	26	81855											
PCDHGB2	56103	broad.mit.edu	37	chr5	140741004	140741004	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagccgcccctctcctcCagcataattgtcaccctgca	8	8	7	18	1	2	0	1	0	1	0	4	0	3	0	6	1	3	3	6	1	2	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr5:140741004C>A	uc003ljs.1	+	1	1302	c.1302C>A	c.(1300-1302)TCC>TCA	p.S434S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Silent_p.S434S|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	434	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTCTCCTCCAGCATAATTG	0.542													18	73					5.49717e-05	6.28955e-05	0.01892	1	0		A	140741004	A	A	140741004	2	1	152	1	0	0	0	0	0	0	0	1	11582	581	21	5		5	PCDHGB2	5	140741004	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	518169	140741004	40174256	27	81856											
NR3C1	2908	broad.mit.edu	37	chr5	142779330	142779330	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attccaattttcggaaccaaCgggaattggtggaatgacat	13	11	10	7	2	0	1	0	1	0	0	2	4	1	4	2	4	2	0	2	4	5	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr5:142779330C>T	uc003lmz.2	-	2	1567	c.1075G>A	c.(1075-1077)GTT>ATT	p.V359I	NR3C1_uc003lmy.2_Missense_Mutation_p.V359I|NR3C1_uc003lna.2_Missense_Mutation_p.V359I|NR3C1_uc003lnb.2_Missense_Mutation_p.V359I|NR3C1_uc011dbk.1_Intron|NR3C1_uc003lnc.2_Missense_Mutation_p.V359I|NR3C1_uc003lnd.2_Missense_Mutation_p.V359I|NR3C1_uc003lne.2_Missense_Mutation_p.V359I|NR3C1_uc003lnf.2_Missense_Mutation_p.V359I|NR3C1_uc003lng.2_Missense_Mutation_p.V359I|NR3C1_uc003lnh.2_Missense_Mutation_p.V359I|NR3C1_uc003lni.2_Missense_Mutation_p.V359I	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	359	Modulating.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		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)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	TCGGAACCAACGGGAATTGGT	0.443													18	181					0	0	0.006122	0	0		T	142779330	T	T	142779330	3	4	152	1	0	0	0	0	1	0	0	0	10649	536	19	1	1345	1	NR3C1	5	142779330	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	2038326	142779330	38135930	28	81857											
GRIA1	2890	broad.mit.edu	37	chr5	153149797	153149797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagccatcagtttttgtgCggaccacagaggaggggatg	10	8	15	8	1	1	2	1	0	0	2	1	5	1	5	2	4	2	1	2	4	0	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr5:153149797C>T	uc003lva.3	+	13	2457	c.2092C>T	c.(2092-2094)CGG>TGG	p.R698W	GRIA1_uc003luy.3_Missense_Mutation_p.R698W|GRIA1_uc003luz.3_Missense_Mutation_p.R603W|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.R618W|GRIA1_uc011dcx.1_Missense_Mutation_p.R629W|GRIA1_uc011dcy.1_Missense_Mutation_p.R708W|GRIA1_uc011dcz.1_Missense_Mutation_p.R708W	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	698	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGTTTTTGTGCGGACCACAGA	0.463													4	150					0	0	0.009096	0	0		T	153149797	T	T	153149797	3	4	152	1	0	0	0	0	1	0	0	0	6783	759	27	1	2142	1	GRIA1	5	153149797	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	10370467	153149797	27765463	29	81858											
POLH	5429	broad.mit.edu	37	chr6	43581728	43581728	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttcaaaccagtcaaagtAcaggaactgagcccttcttt	12	12	6	11	0	3	1	2	1	1	0	3	2	3	2	2	1	4	1	2	1	4	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr6:43581728A>G	uc003ovq.3	+	11	1880	c.1576A>G	c.(1576-1578)ACA>GCA	p.T526A	POLH_uc010jyu.2_Missense_Mutation_p.T402A|POLH_uc011dvl.1_RNA|POLH_uc003ovr.3_Missense_Mutation_p.T427A	NM_006502	NP_006493	Q9Y253	POLH_HUMAN	DNA-directed DNA polymerase eta	526					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA repair|response to UV-C	cytoplasm|nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			breast(2)	2	all_cancers(18;1.89e-05)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000753)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			CAGTCAAAGTACAGGAACTGA	0.433								DNA_polymerases_(catalytic_subunits)	Xeroderma_Pigmentosum				7	174					0	0	0.00308	0	0		G	43581728	G	G	43581728	3	3	152	1	0	0	0	0	1	0	0	0	12221	391	14	3	1614	3	POLH	6	43581728	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08		43581728	127533339	30	81859											
MUT	4594	broad.mit.edu	37	chr6	49415470	49415470	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttctttttccaactggtaCttatttactccaacaattac	10	18	2	11	0	2	0	0	0	2	0	4	0	4	0	2	1	5	1	2	1	7	8			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr6:49415470C>T	uc003ozg.3	-	8	1728	c.1473G>A	c.(1471-1473)AAG>AAA	p.K491K		NM_000255	NP_000246	P22033	MUTA_HUMAN	methylmalonyl Coenzyme A mutase precursor	491					fatty acid beta-oxidation	mitochondrial matrix	cobalamin binding|metal ion binding|methylmalonyl-CoA mutase activity				0	Lung NSC(77;0.0376)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCAACTGGTACTTATTTACTC	0.318													7	130					0	0	0.00308	0	0		T	49415470	T	T	49415470	2	4	152	1	0	0	0	0	0	0	0	1	10009	564	20	4		4	MUT	6	49415470	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	5833742	49415470	121699597	31	81860											
KCNQ5	56479	broad.mit.edu	37	chr6	73904416	73904416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggcctgcagttcattctgaCgccaaatgagttcagtgccc	9	10	10	12	1	3	2	2	2	1	0	3	2	3	2	3	1	2	3	3	1	1	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr6:73904416C>T	uc003pgk.2	+	14	2425	c.2078C>T	c.(2077-2079)ACG>ATG	p.T693M	KCNQ5_uc011dyh.1_Missense_Mutation_p.T712M|KCNQ5_uc011dyi.1_Missense_Mutation_p.T703M|KCNQ5_uc010kat.2_Missense_Mutation_p.T684M|KCNQ5_uc011dyj.1_Missense_Mutation_p.T583M|KCNQ5_uc011dyk.1_Missense_Mutation_p.T443M	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	693					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		TTCATTCTGACGCCAAATGAG	0.502													17	110					0	0	0.0333	0	0		T	73904416	T	T	73904416	3	4	152	1	0	0	0	0	1	0	0	0	8102	536	19	1	2193	1	KCNQ5	6	73904416	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	24488946	73904416	97210651	32	81861											
COL12A1	1303	broad.mit.edu	37	chr6	75838110	75838110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggttgcaggggctgcagtAttacattgtttcttctgcct	6	15	11	9	0	2	0	0	0	2	0	2	0	2	0	1	3	4	6	1	3	2	6			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr6:75838110A>G	uc003phs.2	-	38	6408	c.6242T>C	c.(6241-6243)ATA>ACA	p.I2081T	COL12A1_uc003pht.2_Missense_Mutation_p.I917T	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2081	Fibronectin type-III 16.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GGGCTGCAGTATTACATTGTT	0.378													11	138					0	0	0.008291	0	0		G	75838110	G	G	75838110	3	3	152	1	0	0	0	0	1	0	0	0	3672	449	16	3	3065	3	COL12A1	6	75838110	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08	1933694	75838110	95276957	33	81862											
SYNE1	23345	broad.mit.edu	37	chr6	152673313	152673313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaagacctttttccagcGtcatgtgttctttccggaca	9	14	8	10	2	2	2	1	1	1	1	4	3	4	3	3	1	1	1	3	1	2	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr6:152673313G>A	uc010kiw.2	-	70	12031	c.11429C>T	c.(11428-11430)ACG>ATG	p.T3810M	SYNE1_uc003qot.3_Missense_Mutation_p.T3795M|SYNE1_uc003qou.3_Missense_Mutation_p.T3810M|SYNE1_uc010kja.1_Missense_Mutation_p.T515M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3810	Cytoplasmic (Potential).|Potential.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTTTTCCAGCGTCATGTGTTC	0.438										HNSCC(10;0.0054)			39	329					0	0	0.025465	0	0		A	152673313	A	A	152673313	3	1	152	1	0	0	0	0	1	0	0	0	15470	1145	40	1	15345	1	SYNE1	6	152673313	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	76835203	152673313	18441754	34	81863											
MACC1	346389	broad.mit.edu	37	chr7	20198241	20198241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttttaccttaccttccccGaggagagctattgtgtcccc	6	13	8	14	1	0	1	0	0	0	1	2	3	2	1	6	1	3	2	6	1	3	6			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr7:20198241G>A	uc003sus.3	-	5	2052	c.1743C>T	c.(1741-1743)CTC>CTT	p.L581L	MACC1_uc010kug.2_Silent_p.L581L	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	581	SH3.				positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						TACCTTCCCCGAGGAGAGCTA	0.418													38	297					0	0	0.021022	0	0		A	20198241	A	A	20198241	2	1	152	1	0	0	0	0	0	0	0	1	9161	1045	37	1		1	MACC1	7	20198241	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08		20198241	138940422	35	81864											
RAMP3	10268	broad.mit.edu	37	chr7	45222946	45222946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctgatcgttatacccgtcGttctgactgtcgccatggct	5	13	10	13	5	1	2	0	2	1	0	4	2	1	2	2	1	1	4	2	1	2	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr7:45222946G>A	uc003tnb.2	+	3	443	c.382G>A	c.(382-384)GTT>ATT	p.V128I	RAMP3_uc003tnc.2_Missense_Mutation_p.V96I	NM_005856	NP_005847	O60896	RAMP3_HUMAN	receptor activity modifying protein 3 precursor	128	Helical; (Potential).				intracellular protein transport|receptor-mediated endocytosis|regulation of G-protein coupled receptor protein signaling pathway	integral to plasma membrane|lysosome	protein transporter activity				0					Pramlintide(DB01278)	TATACCCGTCGTTCTGACTGT	0.622													15	150					0	0	0.006122	0	0		A	45222946	A	A	45222946	3	1	152	1	0	0	0	0	1	0	0	0	13048	1145	40	1	392	1	RAMP3	7	45222946	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	25024705	45222946	113915717	36	81865											
TMEM130	222865	broad.mit.edu	37	chr7	98460898	98460898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtggatccagtggaagcGgtagaggtgggcgtcagcgg	7	7	21	6	3	1	1	1	0	0	1	2	3	2	3	1	7	2	1	1	7	2	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr7:98460898G>A	uc003upo.2	-	2	400	c.211C>T	c.(211-213)CGC>TGC	p.R71C	TMEM130_uc011kiq.1_Missense_Mutation_p.R52C|TMEM130_uc011kir.1_Missense_Mutation_p.R71C|TMEM130_uc003upn.2_Intron	NM_001134450	NP_001127922	Q8N3G9	TM130_HUMAN	transmembrane protein 130 isoform a	71	Extracellular (Potential).					Golgi membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(62;4.05e-09)|all_epithelial(64;2.62e-09)|Lung NSC(181;0.01)|all_lung(186;0.0115)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CAGTGGAAGCGGTAGAGGTGG	0.667													5	17					0	0	0.02938	0	0		A	98460898	A	A	98460898	3	1	152	1	0	0	0	0	1	0	0	0	16068	1116	39	1	1124	1	TMEM130	7	98460898	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	53237952	98460898	60677765	37	81866											
ADAM18	8749	broad.mit.edu	37	chr8	39587447	39587447	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gttgtatcagaaagcgatgaCgtgggacattaatattgcac	13	11	11	6	2	1	2	1	1	0	1	1	4	1	3	0	1	2	3	0	1	4	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr8:39587447C>T	uc003xni.2	+	20	2208	c.2208C>T	c.(2206-2208)GAC>GAT	p.D736D	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Silent_p.D712D	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	736	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			AAAGCGATGACGTGGGACATT	0.323													13	140					0	0	0.008871	0	0		T	39587447	T	T	39587447	2	4	152	1	0	0	0	0	0	0	0	1	239	535	19	1		1	ADAM18	8	39587447	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08		39587447	106776575	38	81867											
ZFHX4	79776	broad.mit.edu	37	chr8	77618093	77618093	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttcagccactcctcaccaGcatggctttaccccgagtac	9	9	7	16	1	2	0	2	0	0	0	3	1	3	0	5	1	4	4	5	1	2	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr8:77618093G>A	uc003yav.2	+	2	2157	c.1770G>A	c.(1768-1770)CAG>CAA	p.Q590Q	ZFHX4_uc003yat.1_Silent_p.Q590Q|ZFHX4_uc003yau.1_Silent_p.Q590Q|ZFHX4_uc003yaw.1_Silent_p.Q590Q	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	590						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTCCTCACCAGCATGGCTTTA	0.582										HNSCC(33;0.089)			3	82					0	0	0.004672	0	0		A	77618093	A	A	77618093	2	1	152	1	0	0	0	0	0	0	0	1	17660	962	34	2		2	ZFHX4	8	77618093	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	38030646	77618093	68745929	39	81868											
RIMS2	9699	broad.mit.edu	37	chr8	104898187	104898187	+	Silent	SNP	C	T	T	0	0	0	1	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	acttgaggcgtactgactcaCtacggaaacagcaccactta	13	8	8	12	2	1	2	1	2	0	0	1	3	1	3	1	2	4	2	1	2	4	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr8:104898187C>T	uc003yls.2	+	2	935	c.694C>T	c.(694-696)CTA>TTA	p.L232L	RIMS2_uc003ylp.2_Silent_p.L454L|RIMS2_uc003ylw.2_Silent_p.L262L|RIMS2_uc003ylq.2_Silent_p.L262L|RIMS2_uc003ylr.2_Silent_p.L262L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	485					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TACTGACTCACTACGGAAACA	0.448										HNSCC(12;0.0054)			13	107					0	0	0.016723	0	0		T	104898187	T	T	104898187	2	4	152	1	0	0	0	0	0	0	0	1	13393	564	20	4		4	RIMS2	8	104898187	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	27280094	104898187	41465835	40	81869											
RNF139	11236	broad.mit.edu	37	chr8	125499249	125499249	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatggctactataatgtcctCtgggaaaagcttgacgatta	12	12	10	7	1	1	1	0	1	1	0	2	4	2	2	1	2	2	2	1	2	6	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr8:125499249C>T	uc003yrc.2	+	2	1702	c.1359C>T	c.(1357-1359)CTC>CTT	p.L453L		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	453					negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			ATAATGTCCTCTGGGAAAAGC	0.353									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				55	445					0	0	0.01441	0	0		T	125499249	T	T	125499249	2	4	152	1	0	0	0	0	0	0	0	1	13467	900	32	4		4	RNF139	8	125499249	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	20601062	125499249	20864773	41	81870											
KIAA1432	57589	broad.mit.edu	37	chr9	5772699	5772699	+	Missense_Mutation	SNP	A	G	G	1	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	gctggagcacatttccatggAgttggccagtaaagggcctc	9	9	13	10	0	0	0	0	0	0	0	2	2	1	2	3	4	1	4	3	4	2	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr9:5772699A>G	uc003zji.2	+	23	3608	c.3515A>G	c.(3514-3516)GAG>GGG	p.E1172G	KIAA1432_uc003zjl.3_Missense_Mutation_p.E1135G|ERMP1_uc011lme.1_Intron	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	1251						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		ATTTCCATGGAGTTGGCCAGT	0.453													11	75					0	0	0.010729	0	0		G	5772699	G	G	5772699	3	3	152	1	0	0	0	0	1	0	0	0	8249	304	11	3	3679	3	KIAA1432	9	5772699	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08		5772699	135440732	42	81871											
KIAA1797	54914	broad.mit.edu	37	chr9	20952989	20952989	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctgtctccacagttcctActgactatagctacttgcct	7	16	5	13	0	2	1	0	1	2	0	4	1	3	1	3	0	4	2	3	0	4	7			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr9:20952989A>G	uc003zog.1	+	37	4420	c.4057A>G	c.(4057-4059)ACT>GCT	p.T1353A	KIAA1797_uc003zoh.1_Missense_Mutation_p.T789A	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	1353						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		CACAGTTCCTACTGACTATAG	0.393													3	93					0	0	0.004672	0	0		G	20952989	G	G	20952989	3	3	152	1	0	0	0	0	1	0	0	0	8274	391	14	3	4191	3	KIAA1797	9	20952989	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08	15180290	20952989	120260442	43	81872											
ZNF658	26149	broad.mit.edu	37	chr9	40784149	40784149	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcatcttctaaagaccatgGctcttctcctttctccaact	8	16	3	14	0	6	1	1	0	5	1	8	1	6	1	3	1	1	1	3	1	3	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr9:40784149G>C	uc004abs.2	-	4	348	c.196C>G	c.(196-198)CCA>GCA	p.P66A	ZNF658_uc010mmm.1_Missense_Mutation_p.P66A|ZNF658_uc010mmn.1_Missense_Mutation_p.P66A	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	66	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AAAGACCATGGCTCTTCTCCT	0.448													7	57					0	0	0.02938	0	0		C	40784149	C	C	40784149	3	2	152	1	0	0	0	0	1	0	0	0	18094	1203	42	5	2991	5	ZNF658	9	40784149	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	19831160	40784149	100429282	44	81873											
C9orf103	414328	broad.mit.edu	37	chr9	86258434	86258434	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacaaggaaaagatggtgtAgctctgaagtgtgaggagtc	14	8	14	5	0	1	3	0	2	1	1	2	5	1	5	0	3	1	2	0	3	5	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr9:86258434A>C	uc004amu.1	+	5	317	c.303A>C	c.(301-303)GTA>GTC	p.V101V	C9orf103_uc004amt.1_Silent_p.V55V|C9orf103_uc010mpv.1_Silent_p.V55V	NM_001001551	NP_001001551	Q5T6J7	GNTK_HUMAN	gluconokinase-like protein	101					carbohydrate metabolic process	cytoplasm	ATP binding|gluconokinase activity|shikimate kinase activity				0						AAGATGGTGTAGCTCTGAAGT	0.507													9	85					0	0	0.006214	0	0		C	86258434	C	C	86258434	2	2	152	1	0	0	0	0	0	0	0	1	2449	407	15	5		5	C9orf103	9	86258434	Silent	SNP	A	TCGA-CG-5722-01A-21D-1600-08	45474285	86258434	54954997	45	81874											
FAM78A	286336	broad.mit.edu	37	chr9	134151258	134151258	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcacatgccctgctcgccGtactggttgtagaactccat	8	11	8	14	2	1	1	1	0	0	1	3	1	2	1	3	1	4	4	3	1	3	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr9:134151258G>A	uc004cak.2	-	1	649	c.309C>T	c.(307-309)TAC>TAT	p.Y103Y		NM_033387	NP_203745	Q5JUQ0	FA78A_HUMAN	hypothetical protein LOC286336	103										ovary(1)	1	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.15e-05)|Epithelial(140;0.000267)		CCTGCTCGCCGTACTGGTTGT	0.652													3	27					0	0	0.004672	0	0		A	134151258	A	A	134151258	2	1	152	1	0	0	0	0	0	0	0	1	5640	1140	40	1		1	FAM78A	9	134151258	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	47892824	134151258	7062173	46	81875											
CCNY	219771	broad.mit.edu	37	chr10	35772377	35772377	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	agatcatcctcgggccagcaCaatattcctcagtaaatctc	12	10	6	13	1	3	1	2	0	1	1	7	1	5	1	3	1	1	2	3	1	4	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr10:35772377C>A	uc001iyw.3	+	2	380	c.200C>A	c.(199-201)ACA>AAA	p.T67K	CCNY_uc001iyu.3_Missense_Mutation_p.T13K|CCNY_uc001iyv.3_Missense_Mutation_p.T13K|CCNY_uc001iyx.3_Missense_Mutation_p.T13K|CCNY_uc009xmb.2_Intron|CCNY_uc010qet.1_5'UTR	NM_145012	NP_659449	Q8ND76	CCNY_HUMAN	cyclin Y isoform 1	67					cell division|G2/M transition of mitotic cell cycle|positive regulation of cyclin-dependent protein kinase activity|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	cyclin-dependent protein kinase regulator activity|protein kinase binding				0						CGGGCCAGCACAATATTCCTC	0.358													3	85					0.004672	0.00511503	0.004672	1	0		A	35772377	A	A	35772377	3	1	152	1	0	0	0	0	1	0	0	0	2939	478	17	5	206	5	CCNY	10	35772377	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		35772377	99762370	47	81876											
GJD4	219770	broad.mit.edu	37	chr10	35896709	35896709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcgtcctcctcccctccGccgtcttcagcgtctatgtc	2	13	8	18	4	3	0	1	0	2	0	8	0	7	0	6	0	2	0	6	0	1	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr10:35896709G>A	uc001iyy.1	+	2	426	c.268G>A	c.(268-270)GCC>ACC	p.A90T		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	90	Helical; (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CCTCCCCTCCGCCGTCTTCAG	0.711													7	53					0	0	0.008291	0	0		A	35896709	A	A	35896709	3	1	152	1	0	0	0	0	1	0	0	0	6434	1087	38	1	274	1	GJD4	10	35896709	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	124332	35896709	99638038	48	81877											
OR51T1	401665	broad.mit.edu	37	chr11	4904053	4904053	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccaggctatgttccagctGctccaatccaagggttcatg	8	10	10	13	1	1	0	1	0	0	0	4	0	4	0	4	2	2	5	4	2	3	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr11:4904053G>T	uc010qyp.1	+	1	1005	c.1005G>T	c.(1003-1005)CTG>CTT	p.L335L		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		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)		TGTTCCAGCTGCTCCAATCCA	0.458													10	106					0.000673444	0.00075024	0.008291	1	0		T	4904053	T	T	4904053	2	4	152	1	0	0	0	0	0	0	0	1	11125	1306	46	5		5	OR51T1	11	4904053	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08		4904053	130102463	49	81878											
OR4D10	390197	broad.mit.edu	37	chr11	59245145	59245145	+	Silent	SNP	T	C	C	0	1	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	tccatcacagtgcccaaggtTctggtggaccttctgtctga	7	12	10	12	0	4	1	1	1	3	0	5	2	5	2	3	3	1	1	3	3	1	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr11:59245145T>C	uc001nnz.1	+	1	243	c.243T>C	c.(241-243)GTT>GTC	p.V81V		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	81	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						TGCCCAAGGTTCTGGTGGACC	0.433													71	239					0	0	0.01441	0	0		C	59245145	C	C	59245145	2	2	152	1	0	0	0	0	0	0	0	1	11073	1770	62	3		3	OR4D10	11	59245145	Silent	SNP	T	TCGA-CG-5722-01A-21D-1600-08	54341092	59245145	75761371	50	81879											
OVOL1	5017	broad.mit.edu	37	chr11	65561652	65561652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtggtggcccagctgccctCtgaagacatgggccacttga	7	9	13	12	0	1	3	0	2	1	1	1	3	1	3	3	3	2	1	3	3	1	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr11:65561652C>T	uc001ofp.2	+	2	567	c.251C>T	c.(250-252)TCT>TTT	p.S84F	OVOL1_uc001ofq.2_Missense_Mutation_p.S22F	NM_004561	NP_004552	O14753	OVOL1_HUMAN	OVO-like 1 binding protein	84					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.17)		CAGCTGCCCTCTGAAGACATG	0.637													6	130					0	0	0.021553	0	0		T	65561652	T	T	65561652	3	4	152	1	0	0	0	0	1	0	0	0	11345	913	32	4	257	4	OVOL1	11	65561652	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	6316507	65561652	69444864	51	81880											
ROBO4	54538	broad.mit.edu	37	chr11	124766118	124766118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggaaacccgggctgcgcGgctctccctatgtcctgcgc	5	8	13	15	4	1	0	0	0	1	0	3	2	2	1	3	3	3	2	3	3	2	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr11:124766118G>A	uc001qbg.2	-	4	795	c.655C>T	c.(655-657)CGC>TGC	p.R219C	ROBO4_uc010sas.1_Missense_Mutation_p.R74C|ROBO4_uc001qbh.2_Missense_Mutation_p.R109C|ROBO4_uc001qbi.2_5'Flank|ROBO4_uc010sat.1_5'Flank	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	219	Ig-like C2-type 2.				angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		CGGGCTGCGCGGCTCTCCCTA	0.617													3	108					0	0	0.009096	0	0		A	124766118	A	A	124766118	3	1	152	1	0	0	0	0	1	0	0	0	13541	1116	39	1	2428	1	ROBO4	11	124766118	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	59204466	124766118	10240398	52	81881											
AKAP3	10566	broad.mit.edu	37	chr12	4736611	4736611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatgtctgatgcaggcttaCgctgtgtgttgggagcttca	8	13	13	7	1	2	1	1	1	1	0	2	2	2	2	0	2	3	5	0	2	2	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr12:4736611C>T	uc001qnb.3	-	4	1686	c.1457G>A	c.(1456-1458)CGT>CAT	p.R486H		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	486					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						TGCAGGCTTACGCTGTGTGTT	0.428													11	71					0	0	0.016723	0	0		T	4736611	T	T	4736611	3	4	152	1	0	0	0	0	1	0	0	0	452	536	19	1	1112	1	AKAP3	12	4736611	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		4736611	129115284	53	81882											
APOBEC1	339	broad.mit.edu	37	chr12	7805130	7805130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccaaaaaagccgagctaCgtagatcactagagtcacac	15	6	9	11	2	2	2	2	0	0	2	2	3	2	2	2	0	4	2	2	0	6	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr12:7805130C>T	uc001qtb.2	-	3	380	c.346G>A	c.(346-348)GTA>ATA	p.V116I	APOBEC1_uc001qtc.2_Missense_Mutation_p.V71I|APOBEC1_uc010sgf.1_Missense_Mutation_p.V116I	NM_001644	NP_001635	P41238	ABEC1_HUMAN	apolipoprotein B mRNA editing enzyme	116					cytidine to uridine editing|DNA demethylation|lipid metabolic process|mRNA modification|mRNA processing|negative regulation of methylation-dependent chromatin silencing	nucleoplasm	cytidine deaminase activity|RNA binding|zinc ion binding				0						AGCCGAGCTACGTAGATCACT	0.488													14	104					0	0	0.024245	0	0		T	7805130	T	T	7805130	3	4	152	1	0	0	0	0	1	0	0	0	787	536	19	1	376	1	APOBEC1	12	7805130	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	3068519	7805130	126046765	54	81883											
BAZ2A	11176	broad.mit.edu	37	chr12	57005736	57005736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgggacttctaaggagactGctgggaggactgctgaggaa	11	7	16	7	1	1	2	0	1	1	1	1	7	1	6	0	5	2	2	0	5	2	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr12:57005736G>T	uc001slq.1	-	6	1630	c.1436C>A	c.(1435-1437)GCA>GAA	p.A479E	BAZ2A_uc001slp.1_Missense_Mutation_p.A477E|BAZ2A_uc009zow.1_Missense_Mutation_p.A447E	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	479					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TAAGGAGACTGCTGGGAGGAC	0.547													7	21					8.12818e-05	9.21678e-05	0.02938	1	0		T	57005736	T	T	57005736	3	4	152	1	0	0	0	0	1	0	0	0	1332	1319	46	5	4377	5	BAZ2A	12	57005736	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	49200606	57005736	76846159	55	81884											
RASSF3	283349	broad.mit.edu	37	chr12	65085273	65085273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcctgcaagctctcagacCgggaacatccactctacctg	10	7	8	16	2	2	1	1	0	2	1	4	2	3	2	4	1	4	2	4	1	3	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr12:65085273C>T	uc001ssd.2	+	4	601	c.481C>T	c.(481-483)CGG>TGG	p.R161W	RASSF3_uc009zqn.2_RNA|RASSF3_uc001sse.2_Missense_Mutation_p.R91W	NM_178169	NP_835463	Q86WH2	RASF3_HUMAN	Ras association (RalGDS/AF-6) domain family	161	Ras-associating.				signal transduction	cytoplasm|microtubule	identical protein binding				0			Lung(2;0.00133)|LUAD - Lung adenocarcinoma(6;0.0665)|LUSC - Lung squamous cell carcinoma(43;0.132)	GBM - Glioblastoma multiforme(28;0.0611)		GCTCTCAGACCGGGAACATCC	0.478													11	81					0	0	0.010729	0	0		T	65085273	T	T	65085273	3	4	152	1	0	0	0	0	1	0	0	0	13112	643	23	1	495	1	RASSF3	12	65085273	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	8079537	65085273	68766622	56	81885											
NBEA	26960	broad.mit.edu	37	chr13	36046612	36046612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggactctctccatcaccaCgacagaaatctacttcgagg	11	8	9	13	2	3	1	1	0	2	1	6	4	4	2	2	3	1	0	2	3	2	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr13:36046612C>T	uc001uvb.2	+	41	6730	c.6524C>T	c.(6523-6525)ACG>ATG	p.T2175M	NBEA_uc010abi.2_Missense_Mutation_p.T831M|NBEA_uc010tee.1_Translation_Start_Site	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2175						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		TCCATCACCACGACAGAAATC	0.532													9	52					0	0	0.006214	0	0		T	36046612	T	T	36046612	3	4	152	1	0	0	0	0	1	0	0	0	10205	536	19	1	6686	1	NBEA	13	36046612	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		36046612	79123266	57	81886											
SYNE2	23224	broad.mit.edu	37	chr14	64449413	64449413	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttaaatgaagcaggaaatttCttagtcgaagtcagcaatga	16	11	9	5	1	2	2	1	2	1	0	3	4	2	3	0	1	2	2	0	1	7	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr14:64449413C>G	uc001xgm.2	+	17	2132	c.1902C>G	c.(1900-1902)TTC>TTG	p.F634L	SYNE2_uc001xgl.2_Missense_Mutation_p.F634L	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	634	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CAGGAAATTTCTTAGTCGAAG	0.378													8	193					0	0	0.00308	0	0		G	64449413	G	G	64449413	3	3	152	1	0	0	0	0	1	0	0	0	15471	912	32	5	1964	5	SYNE2	14	64449413	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		64449413	42900127	58	81887											
SIPA1L1	26037	broad.mit.edu	37	chr14	72139105	72139105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcggtggagatgactctgcGaagaaatgggctaggacagc	12	7	15	7	2	1	3	0	1	1	2	2	6	1	4	0	4	2	1	0	4	3	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr14:72139105G>A	uc001xms.2	+	9	3218	c.2870G>A	c.(2869-2871)CGA>CAA	p.R957Q	SIPA1L1_uc001xmt.2_Missense_Mutation_p.R957Q|SIPA1L1_uc001xmu.2_Missense_Mutation_p.R957Q|SIPA1L1_uc001xmv.2_Missense_Mutation_p.R957Q|SIPA1L1_uc010ttm.1_Missense_Mutation_p.R432Q	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	957					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		ATGACTCTGCGAAGAAATGGG	0.483													20	130					0	0	0.008871	0	0		A	72139105	A	A	72139105	3	1	152	1	0	0	0	0	1	0	0	0	14354	1058	37	1	2900	1	SIPA1L1	14	72139105	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	7689692	72139105	35210435	59	81888											
SLC12A6	9990	broad.mit.edu	37	chr15	34528245	34528245	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagcaggtcctggaatccTtccattgacttcgctttttg	7	16	8	10	1	0	1	0	1	0	0	4	2	3	2	3	2	1	2	3	2	2	6			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr15:34528245T>C	uc001zhw.2	-	23	3362	c.3198A>G	c.(3196-3198)GAA>GAG	p.E1066E	SLC12A6_uc001zhv.2_Silent_p.E1015E|SLC12A6_uc001zhx.2_Silent_p.E1051E|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Silent_p.E1007E|SLC12A6_uc001zib.2_Silent_p.E1057E|SLC12A6_uc001zic.2_Silent_p.E1066E|SLC12A6_uc010bau.2_Silent_p.E1066E|SLC12A6_uc001zid.2_Silent_p.E1007E|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Silent_p.E878E	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	1066	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CCTGGAATCCTTCCATTGACT	0.453													34	203					0	0	0.019004	0	0		C	34528245	C	C	34528245	2	2	152	1	0	0	0	0	0	0	0	1	14412	1606	56	3		3	SLC12A6	15	34528245	Silent	SNP	T	TCGA-CG-5722-01A-21D-1600-08		34528245	68003147	60	81889											
NOP10	55505	broad.mit.edu	37	chr15	34634268	34634268	+	Silent	SNP	A	G	G	1	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	tcatctggggagaaccgagcAggatgggctgagcaggtctg	9	7	17	8	1	3	2	1	1	2	1	3	5	3	3	1	5	3	3	1	5	1	0			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr15:34634268A>G	uc001zie.1	-	2	184	c.96T>C	c.(94-96)CCT>CCC	p.P32P	C15orf55_uc010ucc.1_5'Flank|C15orf55_uc010ucd.1_5'Flank	NM_018648	NP_061118	Q9NPE3	NOP10_HUMAN	nucleolar protein family A, member 3	32					pseudouridine synthesis|rRNA processing	Cajal body|nucleolus|small nucleolar ribonucleoprotein complex	protein binding				0						AGAACCGAGCAGGATGGGCTG	0.537													3	59					0	0	0.004672	0	0		G	34634268	G	G	34634268	2	3	152	1	0	0	0	0	0	0	0	1	10554	175	7	3		3	NOP10	15	34634268	Silent	SNP	A	TCGA-CG-5722-01A-21D-1600-08	106023	34634268	67897124	61	81890											
GJD2	57369	broad.mit.edu	37	chr15	35045227	35045227	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcaacttcttatcttctcGtttgcccccaccactgcccc	5	14	4	18	1	3	0	0	0	3	0	4	0	3	0	5	0	4	2	5	0	2	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr15:35045227G>A	uc001zis.1	-	2	418	c.418C>T	c.(418-420)CGA>TGA	p.R140*	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	140	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		TTATCTTCTCGTTTGCCCCCA	0.532													31	239					0	0	0.010818	0	0		A	35045227	A	A	35045227	4	1	152	1	0	0	0	0	0	1	0	0	6432	1153	40	1	551	1	GJD2	15	35045227	Nonsense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	410959	35045227	67486165	62	81891											
MYO9A	4649	broad.mit.edu	37	chr15	72227776	72227776	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	ggaggtgccacttgatagtcTgctctggcgaatcccagttc	7	11	12	11	1	2	1	0	1	2	0	4	3	3	2	2	3	2	2	2	3	2	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr15:72227776T>A	uc002atl.3	-	17	2901	c.2428A>T	c.(2428-2430)AGA>TGA	p.R810*	MYO9A_uc010biq.2_Nonsense_Mutation_p.R430*|MYO9A_uc002atn.1_Nonsense_Mutation_p.R791*	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	810					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						CTTGATAGTCTGCTCTGGCGA	0.398													15	143					0	0	0.024245	0	0		A	72227776	A	A	72227776	4	1	152	1	0	0	0	0	0	1	0	0	10102	1588	55	5	5322	5	MYO9A	15	72227776	Nonsense_Mutation	SNP	T	TCGA-CG-5722-01A-21D-1600-08	37182549	72227776	30303616	63	81892											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84690187	84690187	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttgggagcctggtaactgGtcacattgttctgccacctg	6	14	11	10	0	2	0	1	0	1	0	2	1	2	1	3	3	3	2	3	3	1	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr15:84690187G>A	uc002bjz.3	+	26	4523	c.4299G>A	c.(4297-4299)TGG>TGA	p.W1433*	ADAMTSL3_uc010bmt.1_Nonsense_Mutation_p.W1433*|ADAMTSL3_uc010bmu.1_Nonsense_Mutation_p.W1433*	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1433	TSP type-1 8.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			CTGGTAACTGGTCACATTGTT	0.512													20	185					0	0	0.01892	0	0		A	84690187	A	A	84690187	4	1	152	1	0	0	0	0	0	1	0	0	276	1270	44	4	4397	4	ADAMTSL3	15	84690187	Nonsense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	12462411	84690187	17841205	64	81893											
CHTF18	63922	broad.mit.edu	37	chr16	844151	844151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctcacagcgattctacCgtgtcctgcatgccgctgcc	5	9	9	18	4	2	0	1	0	1	0	3	1	3	0	6	0	5	2	6	0	1	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr16:844151C>T	uc002cke.3	+	15	1963	c.1900C>T	c.(1900-1902)CGT>TGT	p.R634C	CHTF18_uc002ckf.3_Missense_Mutation_p.R662C|CHTF18_uc010brf.2_Missense_Mutation_p.R216C|CHTF18_uc002ckg.3_Missense_Mutation_p.R152C	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	634					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				GCGATTCTACCGTGTCCTGCA	0.682													8	34					0	0	0.006214	0	0		T	844151	T	T	844151	3	4	152	1	0	0	0	0	1	0	0	0	3417	652	23	1	1958	1	CHTF18	16	844151	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		844151	89510602	65	81894											
FLYWCH2	114984	broad.mit.edu	37	chr16	2946611	2946611	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctccaaagacagcaccaaggTggcgggggccaagcgcaagg	12	2	15	12	2	0	1	0	0	0	1	1	1	1	1	3	5	2	2	3	5	4	0			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr16:2946611T>G	uc002csa.2	+	3	532	c.161T>G	c.(160-162)GTG>GGG	p.V54G	FLYWCH2_uc010uwj.1_Missense_Mutation_p.V54G|FLYWCH2_uc010uwk.1_Missense_Mutation_p.V54G	NM_138439	NP_612448	Q96CP2	FWCH2_HUMAN	FLYWCH family member 2	54											0						AGCACCAAGGTGGCGGGGGCC	0.667													13	78					0	0	0.020292	0	0		G	2946611	G	G	2946611	3	3	152	1	0	0	0	0	1	0	0	0	5962	1696	59	5	163	5	FLYWCH2	16	2946611	Missense_Mutation	SNP	T	TCGA-CG-5722-01A-21D-1600-08	2102460	2946611	87408142	66	81895											
GRIN2A	2903	broad.mit.edu	37	chr16	10274134	10274134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagttcgcgctctgtcacGtcgtggctgtgacccagcat	6	10	12	13	5	2	1	1	1	1	0	4	2	2	1	1	1	1	4	1	1	1	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr16:10274134G>A	uc002czo.3	-	2	683	c.135C>T	c.(133-135)GAC>GAT	p.D45D	GRIN2A_uc010uym.1_Silent_p.D45D|GRIN2A_uc002czr.3_Silent_p.D45D|GRIN2A_uc010buk.2_Silent_p.D45D	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	45	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GCTCTGTCACGTCGTGGCTGT	0.692													26	63					0	0	0.027356	0	0		A	10274134	A	A	10274134	2	1	152	1	0	0	0	0	0	0	0	1	6795	1136	40	1		1	GRIN2A	16	10274134	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	7327523	10274134	80080619	67	81896											
NOD2	64127	broad.mit.edu	37	chr16	50750497	50750497	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatttattttgtctctttaGtttgcgcgataacaatatct	9	20	6	6	2	2	0	0	0	2	0	3	1	2	0	0	0	2	2	0	0	6	10			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr16:50750497G>C	uc002egm.1	+	5	2568	c.2463_splice	c.e5-1	p.Y821_splice	NOD2_uc010cbl.1_Splice_Site_p.Y599_splice|NOD2_uc010cbm.1_Splice_Site_p.Y599_splice|NOD2_uc010cbn.1_Intron|NOD2_uc010cbo.1_Intron|NOD2_uc010cbp.1_Intron|NOD2_uc010cbq.1_Splice_Site|NOD2_uc010cbr.1_Intron	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain						activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				TGTCTCTTTAGTTTGCGCGAT	0.413													5	53					0	0	0.021553	0	0		C	50750497	C	C	50750497	5	2	152	1	0	0	0	0	0	0	1	0	10536	1043	36	5	2480	5	NOD2	16	50750497	Splice_Site	SNP	G	TCGA-CG-5722-01A-21D-1600-08	40476363	50750497	39604256	68	81897											
IRX5	10265	broad.mit.edu	37	chr16	54967637	54967637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggccccacaaccggtcCggggtctcatttcaatggat	8	8	11	14	2	2	0	2	0	1	0	4	1	3	1	5	5	1	0	5	5	2	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr16:54967637C>T	uc002ehv.2	+	3	1304	c.1304C>T	c.(1303-1305)CCG>CTG	p.P435L	IRX5_uc002ehw.2_Missense_Mutation_p.P369L	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	435					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						ACAACCGGTCCGGGGTCTCAT	0.592													8	73					0	0	0.004482	0	0		T	54967637	T	T	54967637	3	4	152	1	0	0	0	0	1	0	0	0	7863	652	23	1	1314	1	IRX5	16	54967637	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	4217140	54967637	35387116	69	81898											
CAMTA2	23125	broad.mit.edu	37	chr17	4875783	4875783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tagaataggctgacgtgacgGaaaaggtgccatccgacagc	13	6	13	9	3	0	3	0	2	0	1	1	5	1	4	2	3	2	1	2	3	5	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:4875783G>A	uc002gah.1	-	16	2660	c.2552C>T	c.(2551-2553)TCC>TTC	p.S851F	CAMTA2_uc010cku.1_Missense_Mutation_p.S874F|CAMTA2_uc002gag.1_Missense_Mutation_p.S850F|CAMTA2_uc002gai.1_Missense_Mutation_p.S853F|CAMTA2_uc010ckv.1_Missense_Mutation_p.S498F	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	851					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						TGACGTGACGGAAAAGGTGCC	0.642													3	9					0	0	0.004672	0	0		A	4875783	A	A	4875783	3	1	152	1	0	0	0	0	1	0	0	0	2617	1174	41	4	1138	4	CAMTA2	17	4875783	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08		4875783	76319427	70	81899											
DLG4	1742	broad.mit.edu	37	chr17	7106879	7106879	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcacctcgcgcacgtcCacttcatttacaaacaggat	10	10	8	13	3	2	0	2	0	0	0	4	1	3	1	2	2	2	1	2	2	2	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:7106879C>T	uc002get.3	-	8	1699	c.498G>A	c.(496-498)GTG>GTA	p.V166V	DLG4_uc010vtm.1_RNA|DLG4_uc010vtn.1_Silent_p.V63V|DLG4_uc010cly.2_Silent_p.V120V|DLG4_uc010vto.1_Silent_p.V163V|DLG4_uc002geu.2_Silent_p.V120V	NM_001365	NP_001356	P78352	DLG4_HUMAN	post-synaptic density protein 95 isoform 1	123	PDZ 1.				axon guidance|learning|protein complex assembly|protein localization to synapse|signal transduction|synaptic transmission	cell junction|cortical cytoskeleton|endocytic vesicle membrane|neuron spine|postsynaptic density|postsynaptic membrane|synaptosome	protein binding|protein C-terminus binding			ovary(1)|breast(1)	2						CGCGCACGTCCACTTCATTTA	0.632													9	42					0	0	0.008291	0	0		T	7106879	T	T	7106879	2	4	152	1	0	0	0	0	0	0	0	1	4563	581	21	4		4	DLG4	17	7106879	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	2231096	7106879	74088331	71	81900											
ARHGEF15	22899	broad.mit.edu	37	chr17	8216418	8216418	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcatcggtcaccctgcCgttgtcctcacatcctaccg	7	9	7	18	3	2	0	2	0	0	0	5	0	4	0	6	1	3	2	6	1	2	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:8216418C>T	uc002glc.2	+	3	901	c.780C>T	c.(778-780)GCC>GCT	p.A260A	ARHGEF15_uc002glb.1_3'UTR|ARHGEF15_uc002gld.2_Silent_p.A260A|ARHGEF15_uc010vuw.1_Intron	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	260					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						GTCACCCTGCCGTTGTCCTCA	0.657													7	41					0	0	0.004482	0	0		T	8216418	T	T	8216418	2	4	152	1	0	0	0	0	0	0	0	1	898	639	23	1		1	ARHGEF15	17	8216418	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	1109539	8216418	72978792	72	81901											
ARHGEF15	22899	broad.mit.edu	37	chr17	8219149	8219149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatgtggtgcatgcccacGctgtggggcctttctcggtg	3	12	16	10	2	1	1	0	1	1	0	2	1	1	1	2	4	2	2	2	4	0	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:8219149G>A	uc002glc.2	+	8	1619	c.1498G>A	c.(1498-1500)GCT>ACT	p.A500T	ARHGEF15_uc002gld.2_Missense_Mutation_p.A500T|ARHGEF15_uc010vuw.1_Missense_Mutation_p.A389T	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	500	DH.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						GCATGCCCACGCTGTGGGGCC	0.582													7	61					0	0	0.00308	0	0		A	8219149	A	A	8219149	3	1	152	1	0	0	0	0	1	0	0	0	898	1087	38	1	1524	1	ARHGEF15	17	8219149	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	2731	8219149	72976061	73	81902											
MYH10	4628	broad.mit.edu	37	chr17	8380351	8380351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaagctgcttcatccgagCgttggccttctccatcttgg	5	15	9	12	2	3	0	1	0	2	0	5	1	4	0	3	2	3	3	3	2	1	6			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:8380351C>T	uc002gll.2	-	40	5725	c.5629G>A	c.(5629-5631)GCT>ACT	p.A1877T	MYH10_uc002glm.2_Missense_Mutation_p.A1908T|MYH10_uc010cnx.2_Missense_Mutation_p.A1886T	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1877	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TTCATCCGAGCGTTGGCCTTC	0.567													5	60					0	0	0.021553	0	0		T	8380351	T	T	8380351	3	4	152	1	0	0	0	0	1	0	0	0	10048	768	27	1	309	1	MYH10	17	8380351	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	161202	8380351	72814859	74	81903											
ALKBH5	54890	broad.mit.edu	37	chr17	18110185	18110185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagcagctccgtgttacCacccagctatgcttcagatc	8	10	8	15	1	1	2	1	1	0	1	3	2	2	2	4	0	5	5	4	0	2	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:18110185C>T	uc010cpw.2	+	3	1599	c.908C>T	c.(907-909)CCA>CTA	p.P303L	ALKBH5_uc010cpx.2_RNA	NM_017758	NP_060228	Q6P6C2	ALKB5_HUMAN	alkB, alkylation repair homolog 5	303						integral to membrane	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0	all_neural(463;0.228)					TCCGTGTTACCACCCAGCTAT	0.572													33	431					0	0	0.012213	0	0		T	18110185	T	T	18110185	3	4	152	1	0	0	0	0	1	0	0	0	530	594	21	4	918	4	ALKBH5	17	18110185	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	9729834	18110185	63085025	75	81904											
PIGS	94005	broad.mit.edu	37	chr17	26890883	26890883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcatggtccaaagccCtccgataggccttctggaaa	9	9	8	15	1	2	0	1	0	1	0	5	2	5	1	6	3	1	0	6	3	3	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:26890883C>T	uc002hbo.2	-	4	702	c.329G>A	c.(328-330)AGG>AAG	p.R110K	PIGS_uc002hbn.2_Missense_Mutation_p.R102K|PIGS_uc010wap.1_Missense_Mutation_p.R49K	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	110	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					GTCCAAAGCCCTCCGATAGGC	0.498													10	218					0	0	0.016723	0	0		T	26890883	T	T	26890883	3	4	152	1	0	0	0	0	1	0	0	0	11917	681	24	4	1374	4	PIGS	17	26890883	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	8780698	26890883	54304327	76	81905											
LRRC37B	114659	broad.mit.edu	37	chr17	30349784	30349784	+	Missense_Mutation	SNP	A	G	G	1	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	tgttggtctcagcccaaagcAgaggctccgccaagtgcctg	8	8	12	13	1	1	1	1	0	1	1	3	1	2	1	4	2	3	3	4	2	2	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:30349784A>G	uc002hgu.2	+	1	1630	c.1619A>G	c.(1618-1620)CAG>CGG	p.Q540R	LRRC37B_uc010wbx.1_Missense_Mutation_p.Q458R|LRRC37B_uc010csu.2_Missense_Mutation_p.Q540R	NM_052888	NP_443120	Q96QE4	LR37B_HUMAN	leucine rich repeat containing 37B precursor	540	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.111)|Ovarian(249;0.182)|Breast(31;0.244)				AGCCCAAAGCAGAGGCTCCGC	0.537													49	170					0	0	0.01441	0	0		G	30349784	G	G	30349784	3	3	152	1	0	0	0	0	1	0	0	0	9012	188	7	3	1621	3	LRRC37B	17	30349784	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08	3458901	30349784	50845426	77	81906											
ACE	1636	broad.mit.edu	37	chr17	61568741	61568741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacaacggcaaggacttcCggtacatccagctagggctc	10	8	10	13	2	1	0	0	0	1	0	4	1	3	1	2	4	4	4	2	4	5	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr17:61568741C>T	uc002jau.1	+	19	2933	c.2911C>T	c.(2911-2913)CGG>TGG	p.R971W	ACE_uc002jav.1_Missense_Mutation_p.R397W|ACE_uc010ddv.1_Missense_Mutation_p.R198W|ACE_uc010wpj.1_Missense_Mutation_p.R397W|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Missense_Mutation_p.R217W	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	971	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	CAAGGACTTCCGGTACATCCA	0.607													23	62					0	0	0.021523	0	0		T	61568741	T	T	61568741	3	4	152	1	0	0	0	0	1	0	0	0	136	666	23	1	3188	1	ACE	17	61568741	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	31218957	61568741	19626469	78	81907											
ZFP161	7541	broad.mit.edu	37	chr18	5291265	5291265	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaggtgggcctgtgtggtGaaaccttttgtgcacatttc	6	15	12	8	0	1	1	1	1	0	0	2	1	1	1	2	3	2	1	2	3	1	4			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr18:5291265G>A	uc002kmq.2	-	4	1103	c.942C>T	c.(940-942)TTC>TTT	p.F314F	ZFP161_uc002kmr.2_Silent_p.F314F|ZFP161_uc010dkp.2_Silent_p.F314F	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	314	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCTGTGTGGTGAAACCTTTTG	0.473													7	106					0	0	0.02938	0	0		A	5291265	A	A	5291265	2	1	152	1	0	0	0	0	0	0	0	1	17665	1281	45	4		4	ZFP161	18	5291265	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08		5291265	72785983	79	81908											
NFATC1	4772	broad.mit.edu	37	chr18	77246792	77246792	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgcccgcagcacctgccGtccacggtccgcagggacga	6	3	14	18	6	0	0	0	0	0	0	2	2	2	1	6	3	2	3	6	3	0	0			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr18:77246792G>A	uc010xfg.1	+	9	3090	c.2637G>A	c.(2635-2637)CCG>CCA	p.P879P	NFATC1_uc002lnd.2_Intron|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Silent_p.P407P|NFATC1_uc002lnf.2_Silent_p.P866P|NFATC1_uc002lng.2_Intron|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	879	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		AGCACCTGCCGTCCACGGTCC	0.706													5	36					0	0	0.014758	0	0		A	77246792	A	A	77246792	2	1	152	1	0	0	0	0	0	0	0	1	10380	1132	40	1		1	NFATC1	18	77246792	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	71955527	77246792	830456	80	81909											
FEM1A	55527	broad.mit.edu	37	chr19	4793005	4793005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccctgttgatccgggagcGcatcctcggtccctcgcacc	4	8	12	17	4	0	1	0	1	0	0	5	2	3	2	5	3	1	3	5	3	0	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:4793005G>A	uc002mbf.2	+	1	1278	c.1139G>A	c.(1138-1140)CGC>CAC	p.R380H	uc002mbg.1_RNA	NM_018708	NP_061178	Q9BSK4	FEM1A_HUMAN	fem-1 homolog a	380					regulation of ubiquitin-protein ligase activity	cytoplasm	binding|ubiquitin-protein ligase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		ATCCGGGAGCGCATCCTCGGT	0.617													40	66					0	0	0.025465	0	0		A	4793005	A	A	4793005	3	1	152	1	0	0	0	0	1	0	0	0	5823	1087	38	1	1141	1	FEM1A	19	4793005	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08		4793005	54335978	81	81910											
ZNRF4	148066	broad.mit.edu	37	chr19	5456204	5456204	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaacaagtcggcccacgcGctgctcctgcccgacgaccc	7	5	10	19	5	0	0	0	0	0	0	2	2	1	0	4	1	4	3	4	1	2	0			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:5456204G>A	uc002mca.3	+	1	779	c.702G>A	c.(700-702)GCG>GCA	p.A234A		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	234	Extracellular (Potential).					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		CGGCCCACGCGCTGCTCCTGC	0.682													11	45					0	0	0.010729	0	0		A	5456204	A	A	5456204	2	1	152	1	0	0	0	0	0	0	0	1	18239	1074	38	1		1	ZNRF4	19	5456204	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	663199	5456204	53672779	82	81911											
PRAM1	84106	broad.mit.edu	37	chr19	8564247	8564247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttcaaaggggcctcacCgacctcaggctgcaggggct	7	6	14	14	1	3	0	3	0	0	0	3	1	3	0	4	6	1	3	4	6	1	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:8564247C>T	uc002mkd.2	-	2	465	c.445G>A	c.(445-447)GGT>AGT	p.G149S	PRAM1_uc002mkc.2_Missense_Mutation_p.G149S	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	197	Pro-rich.						lipid binding|protein binding				0						GGGGCCTCACCGACCTCAGGC	0.662													4	40					0	0	0.009096	0	0		T	8564247	T	T	8564247	3	4	152	1	0	0	0	0	1	0	0	0	12445	652	23	1	1600	1	PRAM1	19	8564247	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	3108043	8564247	50564736	83	81912											
ZNF177	7730	broad.mit.edu	37	chr19	9492250	9492250	+	Missense_Mutation	SNP	A	G	G	1	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	gctcttaccttattgtgcacAagagaactcacactggtgag	11	11	9	10	0	2	2	1	1	1	1	2	3	2	2	1	1	3	2	1	1	4	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:9492250A>G	uc002mli.2	+	12	1426	c.763A>G	c.(763-765)AAG>GAG	p.K255E	ZNF177_uc002mlj.2_Missense_Mutation_p.K205E|ZNF177_uc002mlk.2_Missense_Mutation_p.K255E	NM_003451	NP_003442	Q13360	ZN177_HUMAN	zinc finger protein 177	255	C2H2-type 5.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TATTGTGCACAAGAGAACTCA	0.468													22	258					0	0	0.012319	0	0		G	9492250	G	G	9492250	3	3	152	1	0	0	0	0	1	0	0	0	17771	131	5	3	1261	3	ZNF177	19	9492250	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08	928003	9492250	49636733	84	81913											
CYP4F2	8529	broad.mit.edu	37	chr19	15989736	15989736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccatcgcgaacgtctgccCgatgcagttcctaggggagg	7	7	14	13	5	1	0	0	0	1	0	3	3	2	1	3	3	3	2	3	3	2	2	rs146148233		TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:15989736C>T	uc002nbs.1	-	13	1458	c.1408G>A	c.(1408-1410)GGG>AGG	p.G470R	CYP4F2_uc010xot.1_Missense_Mutation_p.G321R	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	470					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						AACGTCTGCCCGATGCAGTTC	0.672													3	46					0	0	0.014758	0	0		T	15989736	T	T	15989736	3	4	152	1	0	0	0	0	1	0	0	0	4191	652	23	1	158	1	CYP4F2	19	15989736	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	6497486	15989736	43139247	85	81914											
TSHZ3	57616	broad.mit.edu	37	chr19	31769496	31769496	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaccatcatgtgggcagtGagctcctgcagggtgtcatg	7	10	15	9	0	2	2	2	2	0	0	3	2	3	2	2	2	2	3	2	2	0	0			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:31769496G>A	uc002nsy.3	-	2	1268	c.1203C>T	c.(1201-1203)CTC>CTT	p.L401L		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	401	C2H2-type 3; atypical.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TGTGGGCAGTGAGCTCCTGCA	0.557													25	267					0	0	0.016522	0	0		A	31769496	A	A	31769496	2	1	152	1	0	0	0	0	0	0	0	1	16651	1277	45	4		4	TSHZ3	19	31769496	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	15779760	31769496	27359487	86	81915											
ZNF529	57711	broad.mit.edu	37	chr19	37039085	37039085	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtaagtcaatcttgcttttGctttgccagtcatttctgaa	8	18	7	8	0	4	1	2	1	2	0	4	1	4	1	1	0	3	3	1	0	3	6			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:37039085G>T	uc002oeh.3	-	5	577	c.375C>A	c.(373-375)AGC>AGA	p.S125R	ZNF529_uc010xth.1_Missense_Mutation_p.S125R|ZNF529_uc010xti.1_Missense_Mutation_p.S107R|ZNF529_uc002oeg.3_Missense_Mutation_p.S20R	NM_020951	NP_066002	Q6P280	ZN529_HUMAN	zinc finger protein 529 isoform a	92					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1	Esophageal squamous(110;0.198)					TCTTGCTTTTGCTTTGCCAGT	0.373													14	110					9.31168e-06	1.07508e-05	0.016723	1	0		T	37039085	T	T	37039085	3	4	152	1	0	0	0	0	1	0	0	0	17995	1310	46	5	1320	5	ZNF529	19	37039085	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	5269589	37039085	22089898	87	81916											
ZNF229	7772	broad.mit.edu	37	chr19	44933774	44933774	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccagtgtggaccctctgatgGacaagcaggtttgaacttcg	9	10	12	10	1	1	2	0	2	1	0	2	4	1	4	2	3	2	2	2	3	2	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:44933774G>C	uc002oze.1	-	6	1616	c.1182C>G	c.(1180-1182)GTC>GTG	p.V394V	ZNF229_uc010ejk.1_Silent_p.V48V|ZNF229_uc010ejl.1_Silent_p.V388V	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	394	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				CCCTCTGATGGACAAGCAGGT	0.488													42	170					0	0	0.025465	0	0		C	44933774	C	C	44933774	2	2	152	1	0	0	0	0	0	0	0	1	17807	1161	41	5		5	ZNF229	19	44933774	Silent	SNP	G	TCGA-CG-5722-01A-21D-1600-08	7894689	44933774	14195209	88	81917											
KLK1	3816	broad.mit.edu	37	chr19	51322566	51322566	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccatgatgtgacaccttGgagcacaccatcacacatca	12	7	7	15	0	2	2	2	2	0	0	2	3	2	3	4	1	1	1	4	1	0	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:51322566G>A	uc002ptk.1	-	5	712	c.673C>T	c.(673-675)CAA>TAA	p.Q225*	KLK1_uc010ycg.1_RNA	NM_002257	NP_002248	P06870	KLK1_HUMAN	kallikrein 1 preproprotein	225	Peptidase S1.				proteolysis	nucleus	serine-type endopeptidase activity				0		all_neural(266;0.0199)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00399)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTGACACCTTGGAGCACACCA	0.582													7	57					0	0	0.02938	0	0		A	51322566	A	A	51322566	4	1	152	1	0	0	0	0	0	1	0	0	8413	1357	47	4	119	4	KLK1	19	51322566	Nonsense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	6388792	51322566	7806417	89	81918											
C19orf18	147685	broad.mit.edu	37	chr19	58472857	58472857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcatctcctaataacGgtatcctgaggttcttataa	10	16	5	10	1	4	1	1	1	3	0	6	1	5	1	2	2	1	2	2	2	5	8			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr19:58472857G>A	uc002qqv.2	-	5	538	c.434C>T	c.(433-435)CCG>CTG	p.P145L		NM_152474	NP_689687	Q8NEA5	CS018_HUMAN	hypothetical protein LOC147685 precursor	145	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)		TCCTAATAACGGTATCCTGAG	0.453													13	180					0	0	0.020292	0	0		A	58472857	A	A	58472857	3	1	152	1	0	0	0	0	1	0	0	0	1913	1116	39	1	221	1	C19orf18	19	58472857	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	7150291	58472857	656126	90	81919											
TOMM34	10953	broad.mit.edu	37	chr20	43572151	43572151	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcacgttctttccatcCagcttgagggcttctgtgca	5	14	9	13	1	3	1	1	1	2	0	5	1	5	1	3	1	2	4	3	1	0	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr20:43572151C>T	uc002xmy.2	-	6	908	c.768G>A	c.(766-768)CTG>CTA	p.L256L	PABPC1L_uc002xmx.2_Intron|TOMM34_uc002xmz.2_RNA	NM_006809	NP_006800	Q15785	TOM34_HUMAN	translocase of outer mitochondrial membrane 34	256	TPR 5.				protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	heat shock protein binding|signal sequence binding				0		Myeloproliferative disorder(115;0.0122)				TCTTTCCATCCAGCTTGAGGG	0.478													32	212					0	0	0.037714	0	0		T	43572151	T	T	43572151	2	4	152	1	0	0	0	0	0	0	0	1	16382	581	21	4		4	TOMM34	20	43572151	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08		43572151	19453369	91	81920											
GRIK1	2897	broad.mit.edu	37	chr21	31045467	31045467	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggagggagctttgatgagctCttgtagacgaattagaccta	11	11	13	6	1	1	4	0	2	1	2	1	7	1	6	1	2	2	3	1	2	4	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr21:31045467C>G	uc002yno.1	-	4	1026	c.562G>C	c.(562-564)GAG>CAG	p.E188Q	GRIK1_uc002ynn.2_Missense_Mutation_p.E188Q|GRIK1_uc011acs.1_Missense_Mutation_p.E188Q|GRIK1_uc011act.1_Missense_Mutation_p.E132Q|GRIK1_uc010glq.1_Missense_Mutation_p.E46Q|GRIK1_uc002ynr.2_Missense_Mutation_p.E188Q	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	188	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	TTGATGAGCTCTTGTAGACGA	0.393													20	93					0	0	0.007413	0	0		G	31045467	G	G	31045467	3	3	152	1	0	0	0	0	1	0	0	0	6789	922	32	5	2410	5	GRIK1	21	31045467	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		31045467	17084428	92	81921											
TPST2	8459	broad.mit.edu	37	chr22	26937013	26937013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccgcaatggtgactttgCgcgtgatcatggagtgcacg	8	9	14	10	4	1	2	1	2	0	0	1	3	1	3	1	2	3	2	1	2	1	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr22:26937013C>T	uc003acv.2	-	2	752	c.584G>A	c.(583-585)CGC>CAC	p.R195H	TPST2_uc003acw.2_Missense_Mutation_p.R195H|TPST2_uc003acx.2_Missense_Mutation_p.R195H|TPST2_uc011akf.1_Missense_Mutation_p.R195H	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	195	Lumenal (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						GGTGACTTTGCGCGTGATCAT	0.602													3	63					0	0	0.004672	0	0		T	26937013	T	T	26937013	3	4	152	1	0	0	0	0	1	0	0	0	16454	768	27	1	565	1	TPST2	22	26937013	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		26937013	24367553	93	81922											
PLXNB2	23654	broad.mit.edu	37	chr22	50715103	50715103	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtcctggtcgctgacCtgcaccatctgccggatccc	5	11	9	16	2	2	1	1	1	1	0	5	2	4	2	5	2	2	2	5	2	0	1			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chr22:50715103C>T	uc003bkv.3	-	35	5398	c.5292G>A	c.(5290-5292)CAG>CAA	p.Q1764Q	PLXNB2_uc003bkt.1_Silent_p.Q556Q|PLXNB2_uc003bku.1_Silent_p.Q749Q	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1764	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		GGTCGCTGACCTGCACCATCT	0.622													10	88					0	0	0.006214	0	0		T	50715103	T	T	50715103	2	4	152	1	0	0	0	0	0	0	0	1	12143	680	24	4		4	PLXNB2	22	50715103	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	23778090	50715103	589463	94	81923											
CXorf23	256643	broad.mit.edu	37	chrX	19973635	19973635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacttttcctgccaacagCaaccaaatcatgtgacatct	12	11	4	14	0	3	1	2	1	1	0	4	1	4	1	3	0	4	1	3	0	3	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:19973635C>T	uc004czp.2	-	4	1324	c.1324G>A	c.(1324-1326)GCT>ACT	p.A442T	CXorf23_uc010nfn.2_RNA|CXorf23_uc011mjg.1_Missense_Mutation_p.A7T|CXorf23_uc004czo.2_Missense_Mutation_p.A392T	NM_198279	NP_938020	A2AJT9	CX023_HUMAN	hypothetical protein LOC256643	442						mitochondrion				lung(1)|skin(1)	2						CTGCCAACAGCAACCAAATCA	0.363													15	138					0	0	0.024245	0	0		T	19973635	T	T	19973635	3	4	152	1	0	0	0	0	1	0	0	0	4106	710	25	2	756	2	CXorf23	23	19973635	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08		19973635	135296925	95	81924											
FAM47B	170062	broad.mit.edu	37	chrX	34961131	34961131	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacgacttccgctacgcCtgtcagtctcctgaagatac	9	10	9	13	3	2	2	1	1	1	1	4	4	3	3	3	1	2	1	3	1	3	3			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:34961131C>A	uc004ddi.1	+	1	201	c.183C>A	c.(181-183)GCC>GCA	p.A61A		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	61										ovary(3)|breast(1)	4						TCCGCTACGCCTGTCAGTCTC	0.552													16	92					2.23348e-06	2.60232e-06	0.028581	1	0		A	34961131	A	A	34961131	2	1	152	1	0	0	0	0	0	0	0	1	5584	668	24	5		5	FAM47B	23	34961131	Silent	SNP	C	TCGA-CG-5722-01A-21D-1600-08	14987496	34961131	120309429	96	81925											
HUWE1	10075	broad.mit.edu	37	chrX	53655786	53655786	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtacagtcaataatactgCtgagtttgggagttctctcc	10	13	9	9	0	2	1	1	1	1	0	4	2	3	2	1	1	3	4	1	1	4	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:53655786C>A	uc004dsp.2	-	14	1433	c.1031G>T	c.(1030-1032)AGC>ATC	p.S344I		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	344					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AATAATACTGCTGAGTTTGGG	0.393													14	114					0.000151284	0.000170028	0.016723	1	0		A	53655786	A	A	53655786	3	1	152	1	0	0	0	0	1	0	0	0	7477	797	28	5	12377	5	HUWE1	23	53655786	Missense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	18694655	53655786	101614774	97	81926											
KIAA2022	340533	broad.mit.edu	37	chrX	73962731	73962731	+	Missense_Mutation	SNP	A	C	C	1	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	ccttacccaacttcaccagcAtgttcttctcacctttaaag	10	13	3	15	0	3	0	2	0	2	0	4	0	3	0	4	0	3	2	4	0	4	6			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:73962731A>C	uc004eby.2	-	3	2278	c.1661T>G	c.(1660-1662)ATG>AGG	p.M554R		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	554					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						CTTCACCAGCATGTTCTTCTC	0.423													19	224					0	0	0.027356	0	0		C	73962731	C	C	73962731	3	2	152	1	0	0	0	0	1	0	0	0	8285	217	8	5	2897	5	KIAA2022	23	73962731	Missense_Mutation	SNP	A	TCGA-CG-5722-01A-21D-1600-08	20306945	73962731	81307829	98	81927											
CENPI	2491	broad.mit.edu	37	chrX	100417865	100417865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggactatttattttcacaggGgttacaaggcttgaaacttt	11	15	9	6	0	1	1	1	1	0	0	1	2	1	2	0	4	2	2	0	4	5	8			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:100417865G>A	uc004egx.2	+	21	2450	c.2180G>A	c.(2179-2181)GGG>GAG	p.G727E	CENPI_uc011mrg.1_Missense_Mutation_p.G713E	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	727					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						TTTTCACAGGGGTTACAAGGC	0.343													61	197					0	0	0.01441	0	0		A	100417865	A	A	100417865	3	1	152	1	0	0	0	0	1	0	0	0	3236	1232	43	4	2258	4	CENPI	23	100417865	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	26455134	100417865	54852695	99	81928											
ZMAT1	84460	broad.mit.edu	37	chrX	101139539	101139539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgcttttccattgcttgtGaaatattgtatggtgctgcg	7	17	10	7	1	0	1	0	1	0	0	1	1	1	1	1	1	4	4	1	1	3	7			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:101139539G>A	uc004eim.2	-	2	3845	c.347C>T	c.(346-348)TCA>TTA	p.S116L	ZMAT1_uc011mrl.1_Missense_Mutation_p.S287L|ZMAT1_uc004ein.2_Missense_Mutation_p.S116L|ZMAT1_uc011mrm.1_Missense_Mutation_p.S116L	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	116						nucleus	zinc ion binding			ovary(1)	1						CATTGCTTGTGAAATATTGTA	0.398													42	436					0	0	0.036044	0	0		A	101139539	A	A	101139539	3	1	152	1	0	0	0	0	1	0	0	0	17716	1294	45	4	1060	4	ZMAT1	23	101139539	Missense_Mutation	SNP	G	TCGA-CG-5722-01A-21D-1600-08	721674	101139539	54131021	100	81929											
TCEAL5	340543	broad.mit.edu	37	chrX	102529130	102529130	+	Missense_Mutation	SNP	T	G	G	0	1	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	gggaatcgtccgtccccctgTcggtttttctttttgctttc	2	18	9	12	3	1	0	0	0	1	0	6	1	3	1	3	2	1	2	3	2	1	5			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:102529130T>G	uc004ejz.1	-	3	657	c.362A>C	c.(361-363)GAC>GCC	p.D121A		NM_001012979	NP_001012997	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	121					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(1)|breast(1)	2						CGTCCCCCTGTCGGTTTTTCT	0.577													22	212					0	0	0.01892	0	0		G	102529130	G	G	102529130	3	3	152	1	0	0	0	0	1	0	0	0	15699	1667	58	5	262	5	TCEAL5	23	102529130	Missense_Mutation	SNP	T	TCGA-CG-5722-01A-21D-1600-08	1389591	102529130	52741430	101	81930											
NRK	203447	broad.mit.edu	37	chrX	105179181	105179181	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatacgctggattcgtagaAgtacctgaggaatcacctaa	13	10	10	8	2	1	2	1	1	0	1	2	4	1	4	2	2	2	4	2	2	7	6			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:105179181A>G	uc004emd.2	+	21	3822	c.3519A>G	c.(3517-3519)GAA>GAG	p.E1173E	NRK_uc010npc.1_Silent_p.E841E	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1173							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GATTCGTAGAAGTACCTGAGG	0.378										HNSCC(51;0.14)			8	209					0	0	0.00308	0	0		G	105179181	G	G	105179181	2	3	152	1	0	0	0	0	0	0	0	1	10674	69	3	3		3	NRK	23	105179181	Silent	SNP	A	TCGA-CG-5722-01A-21D-1600-08	2650051	105179181	50091379	102	81931											
ACTRT1	139741	broad.mit.edu	37	chrX	127185408	127185408	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggtgcaaaaagaacctCgggcacttggtacagctcat	12	8	11	10	1	2	1	2	0	0	1	3	1	2	1	1	3	4	4	1	3	4	2			TCGA-CG-5722-01A-21D-1600-08	TCGA-CG-5722-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	78d7b4b4-4d1b-42a3-9051-3b84a0b371c4	f209e9fe-c3db-4fe3-bc2f-2f92cee6a331	g.chrX:127185408C>A	uc004eum.2	-	1	975	c.778G>T	c.(778-780)GAG>TAG	p.E260*		NM_138289	NP_612146	Q8TDG2	ACTT1_HUMAN	actin-related protein T1	260						cytoplasm|cytoskeleton				ovary(2)|central_nervous_system(2)|skin(1)	5						AAAAGAACCTCGGGCACTTGG	0.527													70	258					3.56841e-20	4.31607e-20	0.01441	1	0		A	127185408	A	A	127185408	4	1	152	1	0	0	0	0	0	1	0	0	218	893	31	5	356	5	ACTRT1	23	127185408	Nonsense_Mutation	SNP	C	TCGA-CG-5722-01A-21D-1600-08	22006227	127185408	28085152	103	81932											
NOC2L	26155	broad.mit.edu	37	chr1	886561	886561	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgagctccccgagagcagCgtcagggcacggatgcagtg	8	4	15	14	4	1	1	1	0	0	1	2	4	2	2	3	2	4	4	3	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:886561C>T	uc001abz.3	-	12	1448	c.1389G>A	c.(1387-1389)ACG>ACA	p.T463T	NOC2L_uc001aby.3_Silent_p.T260T|NOC2L_uc009vjq.2_Silent_p.T463T	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	463						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		CCGAGAGCAGCGTCAGGGCAC	0.677													3	7					0	0	1	0	0		T	886561	T	T	886561	2	4	153	1	0	0	0	0	0	0	0	1	10532	755	27	1		1	NOC2L	1	886561	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08		886561	248364060	1	81933											
SDF4	51150	broad.mit.edu	37	chr1	1153955	1153955	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggccctgctggttctccacGgtgcccacgggcagggagat	5	8	15	13	2	1	1	0	0	1	1	2	2	1	1	3	5	2	3	3	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:1153955G>A	uc001adh.3	-	6	1124	c.795C>T	c.(793-795)ACC>ACT	p.T265T	SDF4_uc001adg.2_RNA|SDF4_uc001adi.3_Silent_p.T265T|SDF4_uc009vjv.2_Silent_p.T143T|SDF4_uc009vjw.2_RNA	NM_016176	NP_057260	Q9BRK5	CAB45_HUMAN	stromal cell derived factor 4 isoform 2	265	EF-hand 4.				cerebellum development|fat cell differentiation|response to ethanol|UV protection|zymogen granule exocytosis	bleb|Golgi lumen|late endosome|soluble fraction	calcium ion binding|calcium ion binding|identical protein binding|protein binding			upper_aerodigestive_tract(1)|large_intestine(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;7.85e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.42e-21)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;4.83e-05)|Kidney(185;0.00252)|BRCA - Breast invasive adenocarcinoma(365;0.00263)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0368)|Lung(427;0.204)		GGTTCTCCACGGTGCCCACGG	0.592													18	72					0	0	1	0	0		A	1153955	A	A	1153955	2	1	153	1	0	0	0	0	0	0	0	1	13987	1103	39	1		1	SDF4	1	1153955	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	267394	1153955	248096666	2	81934											
TAS1R3	83756	broad.mit.edu	37	chr1	1267095	1267095	+	Missense_Mutation	SNP	T	C	C	0	1	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	caacaacaagtcggatctgcTgcccgggctgcgcctgggct	7	7	13	14	3	1	0	0	0	1	0	2	1	1	1	2	3	5	3	2	3	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:1267095T>C	uc010nyk.1	+	2	269	c.269T>C	c.(268-270)CTG>CCG	p.L90P		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	90	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;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)	Aspartame(DB00168)	TCGGATCTGCTGCCCGGGCTG	0.622													7	45					0	0	1	0	0		C	1267095	C	C	1267095	3	2	153	1	0	0	0	0	1	0	0	0	15589	1580	55	3	275	3	TAS1R3	1	1267095	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	113140	1267095	247983526	3	81935											
PLCH2	9651	broad.mit.edu	37	chr1	2415898	2415898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcattgcaggaagcggacacGgatgaccaccaagggacgct	12	4	14	11	3	0	1	0	1	0	0	0	5	0	5	2	4	2	3	2	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:2415898G>A	uc001aji.1	+	5	931	c.657G>A	c.(655-657)ACG>ACA	p.T219T	PLCH2_uc010nyz.1_Silent_p.T7T|PLCH2_uc009vle.1_Silent_p.T7T|PLCH2_uc001ajj.1_Silent_p.T7T|PLCH2_uc001ajk.1_Silent_p.T7T	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	219	EF-hand 2.				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		AAGCGGACACGGATGACCACC	0.597													10	29					0	0	1	0	0		A	2415898	A	A	2415898	2	1	153	1	0	0	0	0	0	0	0	1	12057	1103	39	1		1	PLCH2	1	2415898	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1148803	2415898	246834723	4	81936											
ACTRT2	140625	broad.mit.edu	37	chr1	2939367	2939367	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttgggacctccgtggtgCagagaagatgcttctgaagg	9	10	15	7	1	1	3	0	1	1	2	2	5	2	4	2	3	2	3	2	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:2939367C>A	uc001ajz.2	+	1	1322	c.1117C>A	c.(1117-1119)CAG>AAG	p.Q373K		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	373						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CTCCGTGGTGCAGAGAAGATG	0.567													31	125					5.8336e-16	6.21446e-16	1	1	0		A	2939367	A	A	2939367	3	1	153	1	0	0	0	0	1	0	0	0	219	711	25	5	1119	5	ACTRT2	1	2939367	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	523469	2939367	246311254	5	81937											
MEGF6	1953	broad.mit.edu	37	chr1	3410383	3410383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgggcaaaggcagagacCggtgacagggtcacagggtg	10	5	19	7	1	1	2	1	1	0	1	1	3	1	2	1	6	0	2	1	6	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:3410383C>T	uc001akl.2	-	34	4566	c.4339G>A	c.(4339-4341)GGT>AGT	p.G1447S	MEGF6_uc001akk.2_Intron	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	1447						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		AGGCAGAGACCGGTGACAGGG	0.662													4	13					0	0	1	0	0		T	3410383	T	T	3410383	3	4	153	1	0	0	0	0	1	0	0	0	9480	652	23	1	302	1	MEGF6	1	3410383	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	471016	3410383	245840238	6	81938											
MEGF6	1953	broad.mit.edu	37	chr1	3417655	3417655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gaccataccagcctgctgggCacactacaggcaggcgagag	11	4	13	13	1	0	1	0	0	0	1	0	3	0	1	3	3	4	3	3	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:3417655C>T	uc001akl.2	-	20	2677	c.2450G>A	c.(2449-2451)TGC>TAC	p.C817Y	MEGF6_uc001akk.2_Missense_Mutation_p.C712Y	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	817						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GCCTGCTGGGCACACTACAGG	0.667													9	37					0	0	1	0	0		T	3417655	T	T	3417655	3	4	153	1	0	0	0	0	1	0	0	0	9480	710	25	2	2247	2	MEGF6	1	3417655	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7272	3417655	245832966	7	81939											
MEGF6	1953	broad.mit.edu	37	chr1	3421847	3421847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcacggagtcacaggccaCgcccactgggcaggtgcatg	8	5	14	14	2	2	0	2	0	0	0	2	1	2	1	2	4	1	3	2	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:3421847C>T	uc001akl.2	-	17	2340	c.2113G>A	c.(2113-2115)GTG>ATG	p.V705M	MEGF6_uc001akk.2_Missense_Mutation_p.V600M	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	705						extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		TCACAGGCCACGCCCACTGGG	0.687													5	21					0	0	1	0	0		T	3421847	T	T	3421847	3	4	153	1	0	0	0	0	1	0	0	0	9480	536	19	1	2596	1	MEGF6	1	3421847	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4192	3421847	245828774	8	81940											
PLEKHG5	57449	broad.mit.edu	37	chr1	6530390	6530390	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagggatgggcgctgtcaagTccaggtgcagaaattccttc	9	9	13	10	1	1	1	1	0	0	1	4	2	3	2	2	3	1	2	2	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:6530390T>C	uc001ano.1	-	17	1975	c.1874A>G	c.(1873-1875)GAC>GGC	p.D625G	PLEKHG5_uc001ann.1_Missense_Mutation_p.D606G|PLEKHG5_uc001anq.1_Missense_Mutation_p.D646G|PLEKHG5_uc001anp.1_Missense_Mutation_p.D646G|PLEKHG5_uc001anj.1_Missense_Mutation_p.D130G|PLEKHG5_uc009vma.1_Missense_Mutation_p.D409G|PLEKHG5_uc010nzr.1_Missense_Mutation_p.D638G|PLEKHG5_uc001ank.1_Missense_Mutation_p.D569G|PLEKHG5_uc009vmb.1_Missense_Mutation_p.D569G|PLEKHG5_uc001anl.1_Missense_Mutation_p.D569G|PLEKHG5_uc001anm.1_Missense_Mutation_p.D569G|PLEKHG5_uc001anr.1_5'Flank	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	625					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		CGCTGTCAAGTCCAGGTGCAG	0.617													14	33					0	0	1	0	0		C	6530390	C	C	6530390	3	2	153	1	0	0	0	0	1	0	0	0	12092	1667	58	3	1338	3	PLEKHG5	1	6530390	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3108543	6530390	242720231	9	81941											
SLC45A1	50651	broad.mit.edu	37	chr1	8390770	8390770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcagcgtcagcttcccccGggcccccgacggcttctacc	5	7	9	20	4	3	0	2	0	1	0	4	1	4	0	5	2	3	2	5	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:8390770G>A	uc001apb.2	+	4	1217	c.1217G>A	c.(1216-1218)CGG>CAG	p.R406Q	SLC45A1_uc001apc.2_Missense_Mutation_p.R104Q	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	406					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		AGCTTCCCCCGGGCCCCCGAC	0.677													13	21					0	0	1	0	0		A	8390770	A	A	8390770	3	1	153	1	0	0	0	0	1	0	0	0	14665	1116	39	1	1231	1	SLC45A1	1	8390770	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1860380	8390770	240859851	10	81942											
RERE	473	broad.mit.edu	37	chr1	8684392	8684392	+	Missense_Mutation	SNP	A	G	G	1	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	tttgaagtcttgaatgctacAgatgaaatacggtgtgtttg	11	15	11	4	1	1	4	0	3	1	1	1	4	1	4	0	1	3	2	0	1	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:8684392A>G	uc001ape.2	-	4	1183	c.373T>C	c.(373-375)TGT>CGT	p.C125R	RERE_uc001apf.2_Missense_Mutation_p.C125R|RERE_uc001aph.1_Missense_Mutation_p.C125R	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	125	BAH.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		TGAATGCTACAGATGAAATAC	0.358													38	180					0	0	1	0	0		G	8684392	G	G	8684392	3	3	153	1	0	0	0	0	1	0	0	0	13256	188	7	3	4411	3	RERE	1	8684392	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	293622	8684392	240566229	11	81943											
PIK3CD	5293	broad.mit.edu	37	chr1	9784903	9784903	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctacaccatcctgcggcGccacgggcttctcttcctcc	4	9	9	19	3	1	0	0	0	1	0	5	0	4	0	6	3	2	1	6	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:9784903G>A	uc001aqb.3	+	23	3114	c.2906G>A	c.(2905-2907)CGC>CAC	p.R969H	PIK3CD_uc010oaf.1_Missense_Mutation_p.R968H|PIK3CD_uc001aqe.3_Missense_Mutation_p.R993H	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	969	PI3K/PI4K.				phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	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)		ATCCTGCGGCGCCACGGGCTT	0.622											OREG0013083	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	83					0	0	1	0	0		A	9784903	A	A	9784903	3	1	153	1	0	0	0	0	1	0	0	0	11934	1087	38	1	2988	1	PIK3CD	1	9784903	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1100511	9784903	239465718	12	81944											
KIF1B	23095	broad.mit.edu	37	chr1	10386385	10386385	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgggcatgacccgttttaCgaccgatccccttggttcat	7	11	10	13	4	1	1	1	1	0	0	2	4	2	1	4	2	1	3	4	2	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:10386385C>T	uc001aqx.3	+	27	3094	c.2892C>T	c.(2890-2892)TAC>TAT	p.Y964Y	KIF1B_uc001aqw.3_Silent_p.Y918Y|KIF1B_uc001aqy.2_Silent_p.Y938Y|KIF1B_uc001aqz.2_Silent_p.Y964Y|KIF1B_uc001ara.2_Silent_p.Y924Y|KIF1B_uc001arb.2_Silent_p.Y950Y	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	964					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		ACCCGTTTTACGACCGATCCC	0.537													29	110					0	0	1	0	0		T	10386385	T	T	10386385	2	4	153	1	0	0	0	0	0	0	0	1	8300	547	19	1		1	KIF1B	1	10386385	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	601482	10386385	238864236	13	81945											
PGD	5226	broad.mit.edu	37	chr1	10477532	10477532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaattatggtggcatcGccctgatgtggagagggggc	7	10	15	9	1	1	2	1	1	1	1	3	3	1	2	1	5	0	1	1	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:10477532G>A	uc001arc.2	+	10	1165	c.1075G>A	c.(1075-1077)GCC>ACC	p.A359T	PGD_uc001ard.2_Missense_Mutation_p.A279T|PGD_uc010oak.1_Missense_Mutation_p.A337T|PGD_uc010oal.1_Missense_Mutation_p.A346T	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	359					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	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;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		TGGTGGCATCGCCCTGATGTG	0.552													41	110					0	0	1	0	0		A	10477532	A	A	10477532	3	1	153	1	0	0	0	0	1	0	0	0	11806	1087	38	1	1113	1	PGD	1	10477532	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	91147	10477532	238773089	14	81946											
SRM	6723	broad.mit.edu	37	chr1	11115064	11115064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggcggcgcggtgcacgtcGgagttgtagtacttcagctg	7	9	16	9	5	1	0	1	0	0	0	2	1	1	1	0	4	3	5	0	4	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:11115064G>A	uc001arz.1	-	7	934	c.843C>T	c.(841-843)TCC>TCT	p.S281S	SRM_uc001ary.1_Silent_p.S142S	NM_003132	NP_003123	P19623	SPEE_HUMAN	spermidine synthase	281					spermidine biosynthetic process	cytosol	protein homodimerization activity|spermidine synthase activity				0	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)	STAD - Stomach adenocarcinoma(5;0.228)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)	S-Adenosylmethionine(DB00118)|Spermine(DB00127)	GGTGCACGTCGGAGTTGTAGT	0.687													17	54					0	0	1	0	0		A	11115064	A	A	11115064	2	1	153	1	0	0	0	0	0	0	0	1	15176	1103	39	1		1	SRM	1	11115064	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	637532	11115064	238135557	15	81947											
MTOR	2475	broad.mit.edu	37	chr1	11307985	11307985	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggccttggtgagagctgTaccccagcagccccaccaag	9	6	12	14	0	0	2	0	2	0	1	0	3	0	2	6	2	4	3	6	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:11307985T>C	uc001asd.2	-	7	1128	c.1007A>G	c.(1006-1008)TAC>TGC	p.Y336C		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	336					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GTGAGAGCTGTACCCCAGCAG	0.572													40	107					0	0	1	0	0		C	11307985	C	C	11307985	3	2	153	1	0	0	0	0	1	0	0	0	9972	1638	57	3	6850	3	MTOR	1	11307985	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	192921	11307985	237942636	16	81948											
UBIAD1	29914	broad.mit.edu	37	chr1	11345717	11345717	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggaattggattcaagtaCgtggctctgggagacctcat	10	10	13	8	1	3	1	2	0	1	1	3	4	3	3	1	4	1	3	1	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:11345717C>T	uc001asg.2	+	2	880	c.546C>T	c.(544-546)TAC>TAT	p.Y182Y		NM_013319	NP_037451	Q9Y5Z9	UBIA1_HUMAN	UbiA prenyltransferase domain containing 1	182					menaquinone biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrion|nucleus	prenyltransferase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.012)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.52e-06)|COAD - Colon adenocarcinoma(227;0.000254)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0487)		GATTCAAGTACGTGGCTCTGG	0.552													15	48					0	0	1	0	0		T	11345717	T	T	11345717	2	4	153	1	0	0	0	0	0	0	0	1	16911	547	19	1		1	UBIAD1	1	11345717	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	37732	11345717	237904904	17	81949											
CLCN6	1185	broad.mit.edu	37	chr1	11889314	11889314	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgtttgtggcctcgatgGtgttaggagaatgccgacag	7	12	16	6	2	0	1	0	0	0	1	1	4	0	1	2	4	1	2	2	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:11889314G>C	uc001ate.3	+	13	1296	c.1183G>C	c.(1183-1185)GTG>CTG	p.V395L	CLCN6_uc009vnh.1_Missense_Mutation_p.G339A|CLCN6_uc010oat.1_Missense_Mutation_p.V111L|CLCN6_uc010oau.1_Missense_Mutation_p.V373L	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	395					cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		GGCCTCGATGGTGTTAGGAGA	0.512													65	207					0	0	1	0	0		C	11889314	C	C	11889314	3	2	153	1	0	0	0	0	1	0	0	0	3470	1261	44	5	1243	5	CLCN6	1	11889314	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	543597	11889314	237361307	18	81950											
AADACL4	343066	broad.mit.edu	37	chr1	12725975	12725975	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccctgttttcgttttaggtaCcgcaagcttcctgaccacca	7	13	7	14	2	0	1	0	1	0	0	2	1	1	1	5	1	2	5	5	1	3	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:12725975C>T	uc001auf.2	+	4	453	c.453C>T	c.(451-453)TAC>TAT	p.Y151Y		NM_001013630	NP_001013652	Q5VUY2	ADCL4_HUMAN	arylacetamide deacetylase-like 4	151	Lumenal (Potential).					integral to membrane	carboxylesterase activity				0	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)		GTTTTAGGTACCGCAAGCTTC	0.502													16	84					0	0	1	0	0		T	12725975	T	T	12725975	2	4	153	1	0	0	0	0	0	0	0	1	13	518	18	4		4	AADACL4	1	12725975	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	836661	12725975	236524646	19	81951											
LOC649330	649330	broad.mit.edu	37	chr1	12907847	12907847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtacatctccgctgctgatCgtttcacacctgcgtttcct	5	14	7	15	4	2	1	1	1	1	0	5	1	3	1	3	0	3	5	3	0	1	3	rs150230498		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:12907847C>T	uc009vno.2	-	1	391	c.296G>A	c.(295-297)CGA>CAA	p.R99Q	HNRNPCL1_uc010obf.1_Missense_Mutation_p.R99Q	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	99							nucleic acid binding|nucleotide binding				0						CGCTGCTGATCGTTTCACACC	0.488													23	173					0	0	1	0	0		T	12907847	T	T	12907847	3	4	153	1	0	0	0	0	1	0	0	0	8903	884	31	1	589	1	LOC649330	1	12907847	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	181872	12907847	236342774	20	81952											
PRDM2	7799	broad.mit.edu	37	chr1	14105507	14105507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcacacagattaaccggcGgcgacatgagcggcgccatg	10	5	14	12	5	0	2	0	1	0	1	0	3	0	2	2	4	2	1	2	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:14105507G>A	uc001avi.2	+	8	2073	c.1217G>A	c.(1216-1218)CGG>CAG	p.R406Q	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.R406Q|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.R163Q|PRDM2_uc001avk.2_Missense_Mutation_p.R205Q|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	406	C2H2-type 2.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		ATTAACCGGCGGCGACATGAG	0.517													22	58					0	0	1	0	0		A	14105507	A	A	14105507	3	1	153	1	0	0	0	0	1	0	0	0	12480	1116	39	1	1243	1	PRDM2	1	14105507	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1197660	14105507	235145114	21	81953											
PRDM2	7799	broad.mit.edu	37	chr1	14107336	14107336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccactctcaaatgccaccGcacagtccccacttccaatt	10	9	3	19	1	1	0	1	0	1	0	5	0	4	0	6	0	1	1	6	0	2	2	rs138768059		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:14107336G>A	uc001avi.2	+	8	3902	c.3046G>A	c.(3046-3048)GCA>ACA	p.A1016T	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.A1016T|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.A815T|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1016	Pro-rich.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		AAATGCCACCGCACAGTCCCC	0.642													19	80					0	0	1	0	0		A	14107336	A	A	14107336	3	1	153	1	0	0	0	0	1	0	0	0	12480	1087	38	1	3072	1	PRDM2	1	14107336	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1829	14107336	235143285	22	81954											
TMEM82	388595	broad.mit.edu	37	chr1	16071011	16071011	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggacttcctgaccacctcGgaggccatgcggttctggac	7	8	12	14	2	1	1	0	1	1	0	3	4	2	4	4	5	1	1	4	5	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:16071011G>A	uc001axc.2	+	4	831	c.693G>A	c.(691-693)TCG>TCA	p.S231S		NM_001013641	NP_001013663	A0PJX8	TMM82_HUMAN	transmembrane protein 82	231	Leu-rich.					integral to membrane				breast(1)|central_nervous_system(1)	2		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGACCACCTCGGAGGCCATGC	0.642													5	13					0	0	1	0	0		A	16071011	A	A	16071011	2	1	153	1	0	0	0	0	0	0	0	1	16231	1103	39	1		1	TMEM82	1	16071011	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1963675	16071011	233179610	23	81955											
CLCNKB	1188	broad.mit.edu	37	chr1	16377497	16377497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgggaatggtaccaccCgcggttcaccatctttggga	7	10	14	10	2	2	0	1	0	1	0	2	2	2	2	3	5	1	2	3	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:16377497C>T	uc001axw.3	+	12	1261	c.1181C>T	c.(1180-1182)CCG>CTG	p.P394L	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.P394L|CLCNKB_uc001axy.3_Missense_Mutation_p.P225L	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	394					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		TGGTACCACCCGCGGTTCACC	0.637													17	54					0	0	1	0	0		T	16377497	T	T	16377497	3	4	153	1	0	0	0	0	1	0	0	0	3473	652	23	1	1371	1	CLCNKB	1	16377497	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	306486	16377497	232873124	24	81956											
ATP13A2	23400	broad.mit.edu	37	chr1	17331318	17331318	+	Splice_Site	SNP	T	C	C	0	1	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	ctgtggggacggctccaggcTggggaagcaggtgagggtta	7	7	20	7	1	0	1	0	1	0	0	1	3	1	3	1	8	1	4	1	8	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:17331318T>C	uc001baa.2	-	5	538	c.348_splice	c.e5-1	p.S116_splice	ATP13A2_uc001bab.2_Splice_Site_p.S116_splice|ATP13A2_uc001bac.2_Splice_Site_p.S116_splice	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1						ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		GGCTCCAGGCTGGGGAAGCAG	0.667													12	74					0	0	1	0	0		C	17331318	C	C	17331318	5	2	153	1	0	0	0	0	0	0	1	0	1125	1594	55	3	3532	3	ATP13A2	1	17331318	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	953821	17331318	231919303	25	81957											
IGSF21	84966	broad.mit.edu	37	chr1	18661444	18661444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgccatgtgggcatctacGaccgcgccaccagggagaag	10	5	14	12	3	1	1	0	0	1	1	1	3	1	1	4	2	2	1	4	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:18661444G>A	uc001bau.1	+	4	747	c.364G>A	c.(364-366)GAC>AAC	p.D122N		NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	122	Ig-like 1.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		GGGCATCTACGACCGCGCCAC	0.622													13	33					0	0	1	0	0		A	18661444	A	A	18661444	3	1	153	1	0	0	0	0	1	0	0	0	7615	1058	37	1	378	1	IGSF21	1	18661444	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1330126	18661444	230589177	26	81958											
IGSF21	84966	broad.mit.edu	37	chr1	18691970	18691970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagccaaccacagagaacaTaccagagacggtcgtgagcc	14	3	10	14	2	0	3	0	1	0	2	1	5	0	3	5	1	5	0	5	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:18691970T>C	uc001bau.1	+	6	1177	c.794T>C	c.(793-795)ATA>ACA	p.I265T	IGSF21_uc001bav.1_Missense_Mutation_p.I86T	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	265						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		ACAGAGAACATACCAGAGACG	0.672													29	113					0	0	1	0	0		C	18691970	C	C	18691970	3	2	153	1	0	0	0	0	1	0	0	0	7615	1406	49	3	816	3	IGSF21	1	18691970	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	30526	18691970	230558651	27	81959											
KIAA0090	23065	broad.mit.edu	37	chr1	19549974	19549974	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaatgatacgcccagtgacGccatcaatgaggaagatgcc	13	7	11	10	2	1	5	1	4	0	1	1	6	1	6	3	1	2	0	3	1	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:19549974G>A	uc001bbo.2	-	19	2335	c.2292C>T	c.(2290-2292)GGC>GGT	p.G764G	KIAA0090_uc001bbn.2_5'Flank|KIAA0090_uc001bbp.2_Silent_p.G763G|KIAA0090_uc001bbq.2_Silent_p.G763G|KIAA0090_uc001bbr.2_Silent_p.G742G	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	764	DUF1620.|Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		GCCCAGTGACGCCATCAATGA	0.552													58	147					0	0	1	0	0		A	19549974	A	A	19549974	2	1	153	1	0	0	0	0	0	0	0	1	8169	1074	38	1		1	KIAA0090	1	19549974	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	858004	19549974	229700647	28	81960											
KIF17	57576	broad.mit.edu	37	chr1	21042044	21042044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatgcctctctgggagggcGgatccggcaggccctgcatg	5	8	16	12	2	1	1	0	1	1	0	3	3	2	3	3	5	2	2	3	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:21042044G>A	uc001bdr.3	-	2	438	c.320C>T	c.(319-321)CCG>CTG	p.P107L	KIF17_uc001bds.3_Missense_Mutation_p.P107L	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	107	Kinesin-motor.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CTGGGAGGGCGGATCCGGCAG	0.657													12	62					0	0	1	0	0		A	21042044	A	A	21042044	3	1	153	1	0	0	0	0	1	0	0	0	8295	1116	39	1	2825	1	KIF17	1	21042044	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1492070	21042044	228208577	29	81961											
HSPG2	3339	broad.mit.edu	37	chr1	22150206	22150206	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttggatggaacctctgcgGccctccctgcagtggaactg	7	9	12	13	1	1	0	0	0	1	0	2	3	2	3	3	4	4	1	3	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:22150206G>A	uc001bfj.2	-	96	12946	c.12906C>T	c.(12904-12906)GGC>GGT	p.G4302G	LDLRAD2_uc001bfg.1_3'UTR|HSPG2_uc001bfi.2_Silent_p.G319G|HSPG2_uc009vqd.2_Silent_p.G4303G	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	4302	Laminin G-like 3.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	AACCTCTGCGGCCCTCCCTGC	0.637													17	50					0	0	1	0	0		A	22150206	A	A	22150206	2	1	153	1	0	0	0	0	0	0	0	1	7446	1190	42	2		2	HSPG2	1	22150206	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1108162	22150206	227100415	30	81962											
HSPG2	3339	broad.mit.edu	37	chr1	22214000	22214000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgcccattgcggcatgCggcctcctggggcccacagg	5	6	15	15	2	0	0	0	0	0	0	1	0	1	0	4	5	3	2	4	5	0	1	rs148693072	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:22214000C>T	uc001bfj.2	-	8	911	c.871G>A	c.(871-873)GCA>ACA	p.A291T	HSPG2_uc009vqd.2_Missense_Mutation_p.A291T|HSPG2_uc009vqe.1_Silent_p.P189P	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	291	LDL-receptor class A 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TTGCGGCATGCGGCCTCCTGG	0.667													16	62					0	0	1	0	0		T	22214000	T	T	22214000	3	4	153	1	0	0	0	0	1	0	0	0	7446	768	27	1	12664	1	HSPG2	1	22214000	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	63794	22214000	227036621	31	81963											
EPHA8	2046	broad.mit.edu	37	chr1	22902954	22902954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcggaccgcgacctgggggCcagcacacaagaaagccagt	11	3	14	13	3	0	1	0	0	0	1	1	3	0	2	4	3	2	1	4	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:22902954C>T	uc001bfx.1	+	3	529	c.404C>T	c.(403-405)GCC>GTC	p.A135V	EPHA8_uc001bfw.2_Missense_Mutation_p.A135V	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	135	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity	p.A135T(1)		central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GACCTGGGGGCCAGCACACAA	0.592													8	49					0	0	1	0	0		T	22902954	T	T	22902954	3	4	153	1	0	0	0	0	1	0	0	0	5181	739	26	2	414	2	EPHA8	1	22902954	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	688954	22902954	226347667	32	81964											
C1QA	712	broad.mit.edu	37	chr1	22964234	22964234	+	Frame_Shift_Del	DEL	G	-	-																															ggcaggaagacctggcagacGggggcggccaggcctcaagg																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:22964234delG	uc001bfy.2	+	2	210	c.125delG	c.(124-126)CGGfs	p.R42fs	C1QA_uc001bfz.2_Frame_Shift_Del_p.R42fs	NM_015991	NP_057075	P02745	C1QA_HUMAN	complement component 1, q subcomponent, A chain	42	Collagen-like.				cell-cell signaling|complement activation, classical pathway|innate immune response	collagen|complement component C1 complex					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.41e-27)|Colorectal(126;1.52e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.63e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000541)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCTGGCAGACGGGGGCGGCCA	0.657													5	11	---	---	---	---						.	-	22964234	-	-	22964234	7	5	153	1	0	1	0	1	0	0	0	0	1957	1116	39	0	127	0	C1QA	1	22964234	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	61280	22964234	226286387	33	81965											
ZDHHC18	84243	broad.mit.edu	37	chr1	27177668	27177668	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatctggtccattctgggCctctcagggtttcacacgta	6	13	9	13	1	4	0	2	0	3	0	7	0	6	0	3	3	0	2	3	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:27177668C>T	uc001bnb.2	+	6	977	c.882C>T	c.(880-882)GGC>GGT	p.G294G		NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18	294	Helical; (Potential).					integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|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)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		CCATTCTGGGCCTCTCAGGGT	0.572													39	94					0	0	1	0	0		T	27177668	T	T	27177668	2	4	153	1	0	0	0	0	0	0	0	1	17633	726	26	2		2	ZDHHC18	1	27177668	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4213434	27177668	222072953	34	81966											
SMPDL3B	27293	broad.mit.edu	37	chr1	28285220	28285220	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggcctgcagcatgcagcaCgtgtgtgccatgcgccaggt	7	7	15	12	2	0	0	0	0	0	0	0	1	0	0	3	2	6	4	3	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:28285220C>T	uc001bpg.2	+	8	1430	c.1239C>T	c.(1237-1239)CAC>CAT	p.H413H	SMPDL3B_uc010ofq.1_Silent_p.H207H|SMPDL3B_uc010ofr.1_Silent_p.H365H|XKR8_uc001bph.1_5'Flank	NM_014474	NP_055289	Q92485	ASM3B_HUMAN	acid sphingomyelinase-like phosphodiesterase 3B	413					sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity			ovary(3)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000431)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;5.68e-24)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00587)|READ - Rectum adenocarcinoma(331;0.055)		GCATGCAGCACGTGTGTGCCA	0.627													24	105					0	0	1	0	0		T	28285220	T	T	28285220	2	4	153	1	0	0	0	0	0	0	0	1	14834	535	19	1		1	SMPDL3B	1	28285220	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1107552	28285220	220965401	35	81967											
MATN1	4146	broad.mit.edu	37	chr1	31187163	31187163	+	Missense_Mutation	SNP	A	G	G	1	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	caccagggactcgcaggcacAcgggtcttcctctgcagggg	7	6	14	14	2	2	0	0	0	2	0	4	1	3	1	2	5	1	3	2	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:31187163A>G	uc001brz.2	-	7	1406	c.1372T>C	c.(1372-1374)TGT>CGT	p.C458R	MATN1_uc001bsa.1_Missense_Mutation_p.C376R	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	458					protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		TCGCAGGCACACGGGTCTTCC	0.622													3	11					0	0	1	0	0		G	31187163	G	G	31187163	3	3	153	1	0	0	0	0	1	0	0	0	9351	159	6	3	126	3	MATN1	1	31187163	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2901943	31187163	218063458	36	81968											
BSDC1	55108	broad.mit.edu	37	chr1	32834083	32834083	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactttggaaagtgccatctGcacctcctcttcagtcatgt	8	13	7	13	0	4	0	2	0	2	0	5	1	5	1	3	1	2	1	3	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:32834083G>A	uc001bvh.3	-	10	1272	c.1225C>T	c.(1225-1227)CAG>TAG	p.Q409*	BSDC1_uc010ohg.1_Nonsense_Mutation_p.Q426*|BSDC1_uc010ohh.1_Nonsense_Mutation_p.Q353*|BSDC1_uc010ohi.1_Nonsense_Mutation_p.Q314*|BSDC1_uc001bvg.3_RNA|BSDC1_uc001bvj.2_Nonsense_Mutation_p.Q305*|BSDC1_uc001bvi.2_Nonsense_Mutation_p.Q426*	NM_018045	NP_060515	Q9NW68	BSDC1_HUMAN	BSD domain containing 1 isoform b	409							protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				AGTGCCATCTGCACCTCCTCT	0.572													20	56					0	0	1	0	0		A	32834083	A	A	32834083	4	1	153	1	0	0	0	0	0	1	0	0	1531	1328	46	2	75	2	BSDC1	1	32834083	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1646920	32834083	216416538	37	81969											
S100PBP	64766	broad.mit.edu	37	chr1	33292032	33292032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccagtagctgagactcCtgacctcttcaaactacctc	10	9	8	14	0	2	2	1	2	1	1	4	4	3	3	4	1	3	2	4	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:33292032C>A	uc001bvz.2	+	3	609	c.332C>A	c.(331-333)CCT>CAT	p.P111H	S100PBP_uc001bwa.1_Missense_Mutation_p.P111H|S100PBP_uc001bwb.1_Missense_Mutation_p.P111H|S100PBP_uc001bwc.2_Missense_Mutation_p.P111H|S100PBP_uc001bwd.2_RNA	NM_022753	NP_073590	Q96BU1	S1PBP_HUMAN	S100P binding protein isoform a	111						nucleus	calcium-dependent protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				GCTGAGACTCCTGACCTCTTC	0.443													34	91					3.11337e-16	3.32016e-16	1	1	0		A	33292032	A	A	33292032	3	1	153	1	0	0	0	0	1	0	0	0	13816	681	24	5	334	5	S100PBP	1	33292032	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	457949	33292032	215958589	38	81970											
NCDN	23154	broad.mit.edu	37	chr1	36028847	36028847	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgaccgttgaagatgggcCccgggagatcctgatcaagg	9	7	14	11	2	1	5	1	3	0	2	2	6	2	5	5	3	0	1	5	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:36028847C>A	uc001bza.2	+	6	1557	c.1430C>A	c.(1429-1431)CCC>CAC	p.P477H	NCDN_uc001bzb.2_Missense_Mutation_p.P477H|NCDN_uc001bzc.2_Missense_Mutation_p.P460H	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	477					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GAAGATGGGCCCCGGGAGATC	0.607													16	59					6.72482e-11	7.07005e-11	1	1	0		A	36028847	A	A	36028847	3	1	153	1	0	0	0	0	1	0	0	0	10233	623	22	5	1448	5	NCDN	1	36028847	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2736815	36028847	213221774	39	81971											
THRAP3	9967	broad.mit.edu	37	chr1	36755130	36755130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagatccaaaaaggaagatCggggcaagagaagcgaaggt	18	3	15	5	2	0	3	0	0	0	3	2	7	1	4	1	4	1	1	1	4	6	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:36755130C>T	uc001cae.3	+	5	1734	c.1510C>T	c.(1510-1512)CGG>TGG	p.R504W	THRAP3_uc001caf.3_Missense_Mutation_p.R504W|THRAP3_uc001cag.1_Missense_Mutation_p.R504W	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	504					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				AAAGGAAGATCGGGGCAAGAG	0.517			T	USP6	aneurysmal bone cysts								36	128					0	0	1	0	0		T	36755130	T	T	36755130	3	4	153	1	0	0	0	0	1	0	0	0	15899	875	31	1	1520	1	THRAP3	1	36755130	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	726283	36755130	212495491	40	81972											
SF3A3	10946	broad.mit.edu	37	chr1	38444662	38444662	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaactattccttacccGccacatttcaagcctaaagc	15	9	4	13	1	1	1	1	0	0	1	2	1	2	1	4	0	4	0	4	0	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:38444662G>A	uc001cci.2	-	10	949	c.825C>T	c.(823-825)GGC>GGT	p.G275G	SF3A3_uc010oik.1_Silent_p.G222G	NM_006802	NP_006793	Q12874	SF3A3_HUMAN	splicing factor 3a, subunit 3	275					nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|nuclear speck	nucleic acid binding|protein binding|zinc ion binding				0	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TTCCTTACCCGCCACATTTCA	0.368													21	67					0	0	1	0	0		A	38444662	A	A	38444662	2	1	153	1	0	0	0	0	0	0	0	1	14173	1074	38	1		1	SF3A3	1	38444662	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1689532	38444662	210805959	41	81973											
MACF1	23499	broad.mit.edu	37	chr1	39751055	39751055	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacactagctaagaatacacTgcaggctgtaagtctctgac	13	9	9	10	0	1	2	0	1	1	1	2	3	1	2	0	1	3	4	0	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:39751055T>C	uc010ois.1	+	14	1566	c.1361T>C	c.(1360-1362)CTG>CCG	p.L454P	MACF1_uc001cda.1_Missense_Mutation_p.L362P	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	454	LRR 4.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AAGAATACACTGCAGGCTGTA	0.408													24	77					0	0	1	0	0		C	39751055	C	C	39751055	3	2	153	1	0	0	0	0	1	0	0	0	9162	1580	55	3	1407	3	MACF1	1	39751055	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1306393	39751055	209499566	42	81974											
MACF1	23499	broad.mit.edu	37	chr1	39758498	39758498	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	ctcttggaaagctggagacaCagtattgtaaattgaaggtg	13	11	12	5	0	1	2	0	1	1	1	1	4	1	3	0	3	1	3	0	3	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:39758498C>T	uc010ois.1	+	18	2195	c.1990C>T	c.(1990-1992)CAG>TAG	p.Q664*	MACF1_uc001cda.1_Nonsense_Mutation_p.Q572*	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	664					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GCTGGAGACACAGTATTGTAA	0.383													12	50					0	0	1	0	0		T	39758498	T	T	39758498	4	4	153	1	0	0	0	0	0	1	0	0	9162	479	17	4	2052	4	MACF1	1	39758498	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7443	39758498	209492123	43	81975											
MACF1	23499	broad.mit.edu	37	chr1	39851380	39851380	+	Missense_Mutation	SNP	T	C	C	0	1	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	agttggacaacggctgagtgTccagtcagctatcagcaccc	10	8	11	12	1	2	1	2	1	0	0	3	2	3	2	2	2	3	4	2	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:39851380T>C	uc010oiu.1	+	21	9574	c.9443T>C	c.(9442-9444)GTC>GCC	p.V3148A	MACF1_uc010ois.1_Missense_Mutation_p.V2646A|MACF1_uc001cda.1_Missense_Mutation_p.V2533A|MACF1_uc001cdc.1_Missense_Mutation_p.V1712A	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	4713					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CGGCTGAGTGTCCAGTCAGCT	0.498													17	41					0	0	1	0	0		C	39851380	C	C	39851380	3	2	153	1	0	0	0	0	1	0	0	0	9162	1667	58	3	14294	3	MACF1	1	39851380	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	92882	39851380	209399241	44	81976											
HIVEP3	59269	broad.mit.edu	37	chr1	42049096	42049096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgctcgatcacctgcgtcCggggtacagacaaaggcacc	9	7	12	13	3	1	1	1	0	0	1	3	2	2	1	3	3	3	3	3	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:42049096C>T	uc001cgz.3	-	4	2586	c.1373G>A	c.(1372-1374)CGG>CAG	p.R458Q	HIVEP3_uc001cha.3_Missense_Mutation_p.R458Q|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	458	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CACCTGCGTCCGGGGTACAGA	0.627													14	47					0	0	1	0	0		T	42049096	T	T	42049096	3	4	153	1	0	0	0	0	1	0	0	0	7204	652	23	1	5871	1	HIVEP3	1	42049096	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2197716	42049096	207201525	45	81977											
CLDN19	149461	broad.mit.edu	37	chr1	43205659	43205659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctgcttccactgtggcagggCtgtgctagcaatgatgccca	7	10	12	12	0	0	1	0	1	0	0	1	1	1	1	2	2	4	5	2	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:43205659C>T	uc001cht.1	-	1	267	c.76G>A	c.(76-78)GCC>ACC	p.A26T	CLDN19_uc001chu.2_Missense_Mutation_p.A26T|CLDN19_uc010ojv.1_Missense_Mutation_p.A26T	NM_148960	NP_683763	Q8N6F1	CLD19_HUMAN	claudin 19 isoform a	26	Helical; (Potential).				calcium-independent cell-cell adhesion|response to stimulus|visual perception	basolateral plasma membrane|integral to membrane|tight junction	identical protein binding				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TGTGGCAGGGCTGTGCTAGCA	0.637													2	2					0	0	1	0	0		T	43205659	T	T	43205659	3	4	153	1	0	0	0	0	1	0	0	0	3483	797	28	2	734	2	CLDN19	1	43205659	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1156563	43205659	206044962	46	81978											
WDR65	149465	broad.mit.edu	37	chr1	43675514	43675514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcggtgggaaccattcGtgccatgaagtaccctctgc	8	9	10	14	2	1	1	0	1	1	0	3	2	1	2	4	2	4	1	4	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:43675514G>A	uc001cip.1	+	11	1977	c.1856G>A	c.(1855-1857)CGT>CAT	p.R619H	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Missense_Mutation_p.R608H|WDR65_uc001ciq.1_Missense_Mutation_p.R619H	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	619										skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GGAACCATTCGTGCCATGAAG	0.552													32	101					0	0	1	0	0		A	43675514	A	A	43675514	3	1	153	1	0	0	0	0	1	0	0	0	17342	1145	40	1	1894	1	WDR65	1	43675514	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	469855	43675514	205575107	47	81979											
CDC20	991	broad.mit.edu	37	chr1	43828733	43828733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgttttgagttggaccctgCgcggcggcgggagcgggaga	5	8	19	9	5	0	2	0	1	0	1	0	5	0	4	1	5	2	2	1	5	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:43828733C>T	uc001cix.2	+	11	1534	c.1433C>T	c.(1432-1434)GCG>GTG	p.A478V	CDC20_uc001ciy.2_Missense_Mutation_p.A478V	NM_001255	NP_001246	Q12834	CDC20_HUMAN	cell division cycle 20	478	WD 7.				activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	cytosol|nucleoplasm|spindle	enzyme binding|protein C-terminus binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TTGGACCCTGCGCGGCGGCGG	0.592													25	71					0	0	1	0	0		T	43828733	T	T	43828733	3	4	153	1	0	0	0	0	1	0	0	0	3062	768	27	1	1471	1	CDC20	1	43828733	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	153219	43828733	205421888	48	81980											
KIAA0467	23334	broad.mit.edu	37	chr1	43913621	43913621	+	Missense_Mutation	SNP	A	G	G	1	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	accctttgaggagcaaggagAggctgagcggcacgttctgc	9	7	15	10	2	1	3	0	2	1	1	1	5	1	4	1	4	3	4	1	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:43913621A>G	uc001cjk.1	+	53	7307	c.6845A>G	c.(6844-6846)GAG>GGG	p.E2282G	KIAA0467_uc001cjl.1_Missense_Mutation_p.E270G	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3181						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GAGCAAGGAGAGGCTGAGCGG	0.572													4	98					0	0	1	0	0		G	43913621	G	G	43913621	3	3	153	1	0	0	0	0	1	0	0	0	8194	304	11	3	7047	3	KIAA0467	1	43913621	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	84888	43913621	205337000	49	81981											
HPDL	84842	broad.mit.edu	37	chr1	45793679	45793679	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggctccccctggggcaTactaccagcagccaggaaag	9	6	11	15	0	0	0	0	0	0	0	2	1	2	1	5	4	4	3	5	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:45793679T>C	uc001cne.2	+	1	1135	c.859T>C	c.(859-861)TAC>CAC	p.Y287H		NM_032756	NP_116145	Q96IR7	HPDL_HUMAN	glyoxalase domain containing 1	287					aromatic amino acid family metabolic process		4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	Acute lymphoblastic leukemia(166;0.155)					CCCTGGGGCATACTACCAGCA	0.612													19	65					0	0	1	0	0		C	45793679	C	C	45793679	3	2	153	1	0	0	0	0	1	0	0	0	7349	1406	49	3	861	3	HPDL	1	45793679	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1880058	45793679	203456942	50	81982											
IPP	3652	broad.mit.edu	37	chr1	46193312	46193312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttattattacctccaatagCgtagaccatccctcccagaa	12	12	4	13	1	0	2	0	0	0	2	3	2	3	2	5	0	2	1	5	0	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:46193312C>T	uc001cou.2	-	5	1306	c.1039G>A	c.(1039-1041)GCT>ACT	p.A347T	IPP_uc001cos.3_Missense_Mutation_p.A347T	NM_005897	NP_005888	Q9Y573	IPP_HUMAN	intracisternal A particle-promoted polypeptide	347	Kelch 2.					actin cytoskeleton|cytoplasm	actin binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CCTCCAATAGCGTAGACCATC	0.378													44	158					0	0	1	0	0		T	46193312	T	T	46193312	3	4	153	1	0	0	0	0	1	0	0	0	7816	768	27	1	837	1	IPP	1	46193312	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	399633	46193312	203057309	51	81983											
MAST2	23139	broad.mit.edu	37	chr1	46500323	46500323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctggcacccaagctccaaCgccagtaccgctctccacgg	8	6	9	18	3	2	0	0	0	2	0	4	0	3	0	5	2	3	4	5	2	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:46500323C>T	uc001cov.2	+	29	4265	c.3982C>T	c.(3982-3984)CGC>TGC	p.R1328C	MAST2_uc001cow.2_Missense_Mutation_p.R1327C|MAST2_uc001cpa.2_Intron	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	1328					regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					CAAGCTCCAACGCCAGTACCG	0.672													20	70					0	0	1	0	0		T	46500323	T	T	46500323	3	4	153	1	0	0	0	0	1	0	0	0	9343	536	19	1	4096	1	MAST2	1	46500323	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	307011	46500323	202750298	52	81984											
ORC1L	4998	broad.mit.edu	37	chr1	52859407	52859407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccgagaaggccactttccGttttattcttcctggagaat	8	14	8	11	2	1	2	0	0	1	2	4	4	4	2	4	2	0	1	4	2	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:52859407G>A	uc001ctt.2	-	6	1009	c.790C>T	c.(790-792)CGG>TGG	p.R264W	ORC1L_uc010oni.1_Missense_Mutation_p.R264W|ORC1L_uc001ctu.2_Missense_Mutation_p.R264W|ORC1L_uc009vzd.2_Missense_Mutation_p.R18W	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	264					cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						GCCACTTTCCGTTTTATTCTT	0.443													23	94					0	0	1	0	0		A	52859407	A	A	52859407	3	1	153	1	0	0	0	0	1	0	0	0	11280	1144	40	1	1843	1	ORC1L	1	52859407	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6359084	52859407	196391214	53	81985											
LRP8	7804	broad.mit.edu	37	chr1	53732282	53732282	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcgatcctccgcacctcGtgccggttggtgaagattag	7	10	13	11	4	0	2	0	1	0	1	4	3	2	2	4	3	1	2	4	3	2	2	rs139974918		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:53732282G>A	uc001cvi.1	-	9	1432	c.1290C>T	c.(1288-1290)CAC>CAT	p.H430H	LRP8_uc001cvh.1_Translation_Start_Site|LRP8_uc001cvk.1_Silent_p.H260H|LRP8_uc001cvj.1_Silent_p.H430H|LRP8_uc001cvl.1_Silent_p.H301H|LRP8_uc001cvm.1_Silent_p.H15H	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	430	Extracellular (Potential).			H -> Y (in Ref. 1; BAA09328, 2; BAA21824/ BAA21825 and 3; CAA99509).	cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						TCCGCACCTCGTGCCGGTTGG	0.552													28	126					0	0	1	0	0		A	53732282	A	A	53732282	2	1	153	1	0	0	0	0	0	0	0	1	8981	1136	40	1		1	LRP8	1	53732282	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	872875	53732282	195518339	54	81986											
C1orf87	127795	broad.mit.edu	37	chr1	60491079	60491079	+	Missense_Mutation	SNP	T	C	C	0	1	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	aagagttgacttactttattTcattttggtaacccaaatct	12	17	5	7	0	2	2	1	1	1	1	2	2	2	2	1	1	2	2	1	1	5	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:60491079T>C	uc001czs.1	-	8	1213	c.1121A>G	c.(1120-1122)GAA>GGA	p.E374G		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	374							calcium ion binding			ovary(1)|breast(1)	2						TTACTTTATTTCATTTTGGTA	0.239													29	98					0	0	1	0	0		C	60491079	C	C	60491079	3	2	153	1	0	0	0	0	1	0	0	0	2067	1783	62	3	539	3	C1orf87	1	60491079	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	6758797	60491079	188759542	55	81987											
NFIA	4774	broad.mit.edu	37	chr1	61554228	61554228	+	Silent	SNP	T	C	C	0	1	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	ggtattccgctggaaagtacTgatggcgagcgccttgtaaa	10	10	13	8	3	0	1	0	1	0	0	1	3	1	2	2	3	2	4	2	3	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:61554228T>C	uc001czw.2	+	2	919	c.435T>C	c.(433-435)ACT>ACC	p.T145T	NFIA_uc001czy.2_Silent_p.T137T|NFIA_uc010oos.1_Silent_p.T190T|NFIA_uc001czv.2_Silent_p.T145T	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	145	CTF/NF-I.				DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						TGGAAAGTACTGATGGCGAGC	0.468													38	157					0	0	1	0	0		C	61554228	C	C	61554228	2	2	153	1	0	0	0	0	0	0	0	1	10389	1567	55	3		3	NFIA	1	61554228	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1063149	61554228	187696393	56	81988											
L1TD1	54596	broad.mit.edu	37	chr1	62676034	62676034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgaaacaccaggtggtgCacaaaacccaggaggaagag	15	4	14	8	0	0	2	0	1	0	1	0	4	0	4	2	5	3	1	2	5	4	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:62676034C>T	uc001dae.3	+	4	1890	c.1588C>T	c.(1588-1590)CAC>TAC	p.H530Y		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	530										ovary(1)|skin(1)	2						CCAGGTGGTGCACAAAACCCA	0.473													14	62					0	0	1	0	0		T	62676034	T	T	62676034	3	4	153	1	0	0	0	0	1	0	0	0	8605	710	25	2	1594	2	L1TD1	1	62676034	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1121806	62676034	186574587	57	81989											
FOXD3	27022	broad.mit.edu	37	chr1	63789483	63789483	+	Missense_Mutation	SNP	A	G	G	1	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	tgcgcgagcagacggcgctcAtgatgcagagcttcggcgct	7	7	15	12	6	1	3	1	1	0	2	2	4	1	3	0	2	4	5	0	2	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:63789483A>G	uc001dax.2	+	1	754	c.754A>G	c.(754-756)ATG>GTG	p.M252V		NM_012183	NP_036315	Q9UJU5	FOXD3_HUMAN	forkhead box D3	252					axon extension involved in axon guidance|branching involved in ureteric bud morphogenesis|cartilage development|embryonic placenta development|enteric nervous system development|iridophore differentiation|kidney development|lateral line nerve glial cell development|melanocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development|trophectodermal cell differentiation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						GACGGCGCTCATGATGCAGAG	0.612													6	24					0	0	1	0	0		G	63789483	G	G	63789483	3	3	153	1	0	0	0	0	1	0	0	0	6012	217	8	3	756	3	FOXD3	1	63789483	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1113449	63789483	185461138	58	81990											
LEPR	3953	broad.mit.edu	37	chr1	66085623	66085623	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctcagatcattttatccCcattgagaagtaccagttca	11	13	5	12	0	3	2	3	1	0	2	5	3	5	2	4	0	1	2	4	0	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:66085623C>A	uc001dci.2	+	17	2610	c.2408C>A	c.(2407-2409)CCC>CAC	p.P803H	LEPR_uc001dcg.2_Missense_Mutation_p.P803H|LEPR_uc001dch.2_Missense_Mutation_p.P803H|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.P803H|LEPR_uc001dck.2_Missense_Mutation_p.P803H	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	803	Extracellular (Potential).|Fibronectin type-III 4.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		CATTTTATCCCCATTGAGAAG	0.284													21	95					7.41877e-09	7.73479e-09	1	1	0		A	66085623	A	A	66085623	3	1	153	1	0	0	0	0	1	0	0	0	8744	623	22	5	2466	5	LEPR	1	66085623	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2296140	66085623	183164998	59	81991											
WLS	79971	broad.mit.edu	37	chr1	68603590	68603590	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacttggactgtgacgccGccccatttccaatggccttc	6	12	8	15	2	1	1	1	1	0	0	3	2	2	2	5	2	0	0	5	2	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:68603590G>A	uc001def.1	-	11	1660	c.1389C>T	c.(1387-1389)GGC>GGT	p.G463G	uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Silent_p.G461G|WLS_uc001deg.1_Silent_p.G372G|WLS_uc009wbf.1_Silent_p.G418G	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1	463	Lumenal (Potential).				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						CTGTGACGCCGCCCCATTTCC	0.443													39	83					0	0	1	0	0		A	68603590	A	A	68603590	2	1	153	1	0	0	0	0	0	0	0	1	17402	1074	38	1		1	WLS	1	68603590	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2517967	68603590	180647031	60	81992											
LRRC7	57554	broad.mit.edu	37	chr1	70493956	70493956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaagccaagccatggagtgCgtgttgagaattcaaatcca	13	9	11	8	1	1	1	1	1	0	1	2	3	2	2	3	1	3	2	3	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:70493956C>T	uc001dep.2	+	16	1813	c.1783C>T	c.(1783-1785)CGT>TGT	p.R595C	LRRC7_uc009wbg.2_Intron	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	595						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCATGGAGTGCGTGTTGAGAA	0.408													23	66					0	0	1	0	0		T	70493956	T	T	70493956	3	4	153	1	0	0	0	0	1	0	0	0	9038	768	27	1	1845	1	LRRC7	1	70493956	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1890366	70493956	178756665	61	81993											
NEGR1	257194	broad.mit.edu	37	chr1	72163744	72163744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatgacacatcattttccGcactgcattcatattcccca	11	12	5	13	1	2	1	2	1	0	0	4	2	4	2	3	1	1	2	3	1	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:72163744G>A	uc001dfw.2	-	4	714	c.614C>T	c.(613-615)GCG>GTG	p.A205V	NEGR1_uc001dfv.2_Missense_Mutation_p.A77V|NEGR1_uc010oqs.1_Intron	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	205	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		ATCATTTTCCGCACTGCATTC	0.353													32	89					0	0	1	0	0		A	72163744	A	A	72163744	3	1	153	1	0	0	0	0	1	0	0	0	10336	1087	38	1	466	1	NEGR1	1	72163744	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1669788	72163744	177086877	62	81994											
LRRIQ3	127255	broad.mit.edu	37	chr1	74649222	74649222	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcatactctaagagagatGcaagactgcaaattttccat	15	11	7	8	0	1	3	0	0	1	3	2	4	2	3	1	0	4	3	1	0	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:74649222G>A	uc001dfy.3	-	2	339	c.147C>T	c.(145-147)TGC>TGT	p.C49C	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	49										ovary(2)	2						taagagagatgcaagactgca	0.154													10	117					0	0	1	0	0		A	74649222	A	A	74649222	2	1	153	1	0	0	0	0	0	0	0	1	9048	1311	46	2		2	LRRIQ3	1	74649222	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2485478	74649222	174601399	63	81995											
AK5	26289	broad.mit.edu	37	chr1	77752792	77752792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actaaatggaggacagtcacGgagatcctttctaagaaatg	15	9	10	7	1	2	2	1	0	1	2	3	5	3	4	1	3	0	0	1	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:77752792G>A	uc001dhn.2	+	2	484	c.227G>A	c.(226-228)CGG>CAG	p.R76Q	AK5_uc001dho.2_Missense_Mutation_p.R50Q|AK5_uc001dhm.1_Missense_Mutation_p.R76Q	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	76					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						GGACAGTCACGGAGATCCTTT	0.368													29	92					0	0	1	0	0		A	77752792	A	A	77752792	3	1	153	1	0	0	0	0	1	0	0	0	443	1116	39	1	233	1	AK5	1	77752792	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3103570	77752792	171497829	64	81996											
NEXN	91624	broad.mit.edu	37	chr1	78383873	78383873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggaacaaaggaagagaaCggaggaggaacgaaaacgca	21	0	15	5	3	0	2	0	0	0	2	0	9	0	7	0	5	4	1	0	5	7	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:78383873C>T	uc001dic.3	+	5	659	c.362C>T	c.(361-363)ACG>ATG	p.T121M	NEXN_uc001dia.3_Missense_Mutation_p.T121M|NEXN_uc009wcb.1_Missense_Mutation_p.T57M|NEXN_uc001dib.3_Missense_Mutation_p.T57M|NEXN_uc001did.1_Missense_Mutation_p.T45M|NEXN_uc001dif.1_Missense_Mutation_p.T13M	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	121	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		AGGAAGAGAACGGAGGAGGAA	0.368													31	118					0	0	1	0	0		T	78383873	T	T	78383873	3	4	153	1	0	0	0	0	1	0	0	0	10374	536	19	1	376	1	NEXN	1	78383873	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	631081	78383873	170866748	65	81997											
SSX2IP	117178	broad.mit.edu	37	chr1	85136475	85136475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacatctttgtttctgaggTatattgagagatagttttgc	10	17	10	4	0	2	4	0	2	2	2	2	5	2	4	0	1	1	3	0	1	3	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:85136475T>C	uc001dkh.2	-	4	342	c.67A>G	c.(67-69)ACC>GCC	p.T23A	SSX2IP_uc001dkf.2_Translation_Start_Site|SSX2IP_uc001dkg.2_RNA|SSX2IP_uc010orz.1_Translation_Start_Site|SSX2IP_uc001dki.2_Missense_Mutation_p.T23A|SSX2IP_uc010osa.1_Translation_Start_Site|SSX2IP_uc001dkj.2_Missense_Mutation_p.T23A|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Missense_Mutation_p.T19A	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting	23					cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		GTTTCTGAGGTATATTGAGAG	0.313													65	289					0	0	1	0	0		C	85136475	C	C	85136475	3	2	153	1	0	0	0	0	1	0	0	0	15229	1638	57	3	1825	3	SSX2IP	1	85136475	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	6752602	85136475	164114146	66	81998											
MCOLN2	255231	broad.mit.edu	37	chr1	85431290	85431290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagtttccacggaatctggCgtctggctcggtatttttca	6	14	10	11	3	3	0	1	0	2	0	5	1	4	1	2	4	0	3	2	4	2	4	rs145109809		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:85431290C>T	uc001dkm.2	-	2	420	c.179G>A	c.(178-180)CGC>CAC	p.R60H	MCOLN2_uc001dkn.2_RNA	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2	60						integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		CGGAATCTGGCGTCTGGCTCG	0.413													18	101					0	0	1	0	0		T	85431290	T	T	85431290	3	4	153	1	0	0	0	0	1	0	0	0	9414	768	27	1	1573	1	MCOLN2	1	85431290	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	294815	85431290	163819331	67	81999											
COL24A1	255631	broad.mit.edu	37	chr1	86249817	86249817	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttagggcctgggaatccttgGaaacctgtcaaaccttgaac	11	10	10	10	0	1	1	1	1	0	0	2	3	2	3	4	3	3	0	4	3	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:86249817G>T	uc001dlj.2	-	50	4242	c.4200C>A	c.(4198-4200)TTC>TTA	p.F1400L	COL24A1_uc001dli.2_Missense_Mutation_p.F536L|COL24A1_uc010osd.1_Missense_Mutation_p.F700L|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	1400	Collagen-like 16.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		GGAATCCTTGGAAACCTGTCA	0.358													36	116					2.09667e-21	2.2563e-21	1	1	0		T	86249817	T	T	86249817	3	4	153	1	0	0	0	0	1	0	0	0	3686	1165	41	5	988	5	COL24A1	1	86249817	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	818527	86249817	163000804	68	82000											
CLCA4	22802	broad.mit.edu	37	chr1	87029383	87029383	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gtgggctcacctccggtgggGagtgtttgatgagtacaatg	7	11	16	7	1	1	2	1	2	0	0	2	3	2	3	2	4	1	3	2	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:87029383G>C	uc009wcs.2	+	4	532	c.488G>C	c.(487-489)GGA>GCA	p.G163A	CLCA4_uc009wct.2_Intron|CLCA4_uc009wcu.2_Intron	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	163						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		CTCCGGTGGGGAGTGTTTGAT	0.393													24	90					0	0	1	0	0		C	87029383	C	C	87029383	3	2	153	1	0	0	0	0	1	0	0	0	3462	1174	41	5	502	5	CLCA4	1	87029383	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	779566	87029383	162221238	69	82001											
LRRC8B	23507	broad.mit.edu	37	chr1	90048284	90048284	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcttaaaaccatggtgggaCgtcttctggtattacatcac	11	13	8	9	1	4	0	1	0	3	0	4	1	4	1	1	3	2	1	1	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:90048284C>T	uc001dni.2	+	7	582	c.75C>T	c.(73-75)GAC>GAT	p.D25D	LRRC8B_uc001dnh.2_Silent_p.D25D|LRRC8B_uc001dnj.2_Silent_p.D25D	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	25						integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		CATGGTGGGACGTCTTCTGGT	0.493													48	243					0	0	1	0	0		T	90048284	T	T	90048284	2	4	153	1	0	0	0	0	0	0	0	1	9040	535	19	1		1	LRRC8B	1	90048284	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3018901	90048284	159202337	70	82002											
ZNF326	284695	broad.mit.edu	37	chr1	90473107	90473107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggaagcaccttactcccGttcaaaattgaggcctgggt	9	10	11	11	1	1	1	1	1	0	0	2	2	2	2	3	3	2	2	3	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:90473107G>A	uc001dnq.2	+	5	552	c.413G>A	c.(412-414)CGT>CAT	p.R138H	ZNF326_uc009wda.1_Intron|ZNF326_uc001dnr.2_Intron	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	138	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		CCTTACTCCCGTTCAAAATTG	0.502													45	158					0	0	1	0	0		A	90473107	A	A	90473107	3	1	153	1	0	0	0	0	1	0	0	0	17871	1145	40	1	435	1	ZNF326	1	90473107	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	424823	90473107	158777514	71	82003											
HFM1	164045	broad.mit.edu	37	chr1	91781412	91781412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttgattatctgcgtcacCtatgattaaggtaacatagt	12	15	7	7	1	2	2	1	2	1	0	2	2	2	2	1	1	3	1	1	1	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:91781412C>T	uc001doa.3	-	28	3200	c.3100G>A	c.(3100-3102)GGT>AGT	p.G1034S	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Missense_Mutation_p.G713S|HFM1_uc001dob.3_Missense_Mutation_p.G222S|HFM1_uc010osv.1_Missense_Mutation_p.G718S	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	1034	SEC63.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		TCTGCGTCACCTATGATTAAG	0.313													23	95					0	0	1	0	0		T	91781412	T	T	91781412	3	4	153	1	0	0	0	0	1	0	0	0	7099	681	24	4	1255	4	HFM1	1	91781412	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1308305	91781412	157469209	72	82004											
HFM1	164045	broad.mit.edu	37	chr1	91843716	91843716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacttcaagagttggaccacGattttcatcttttacaatat	13	15	5	8	1	3	1	2	0	1	1	3	3	3	2	1	1	2	1	1	1	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:91843716G>A	uc001doa.3	-	11	1361	c.1261C>T	c.(1261-1263)CGT>TGT	p.R421C	HFM1_uc010osu.1_Missense_Mutation_p.R100C|HFM1_uc010osv.1_Missense_Mutation_p.R105C|HFM1_uc001doc.1_Missense_Mutation_p.R421C	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	421	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		GTTGGACCACGATTTTCATCT	0.274													30	89					0	0	1	0	0		A	91843716	A	A	91843716	3	1	153	1	0	0	0	0	1	0	0	0	7099	1058	37	1	3162	1	HFM1	1	91843716	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	62304	91843716	157406905	73	82005											
BRDT	676	broad.mit.edu	37	chr1	92443769	92443769	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgcatacaaatttgcGgcagatgttagattaatgtt	14	13	10	4	1	0	2	0	0	0	2	0	3	0	3	0	2	3	4	0	2	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:92443769G>A	uc001dok.3	+	7	1363	c.1014G>A	c.(1012-1014)GCG>GCA	p.A338A	BRDT_uc001dol.3_Silent_p.A338A|BRDT_uc010osz.1_Silent_p.A342A|BRDT_uc009wdf.2_Silent_p.A265A|BRDT_uc010ota.1_Silent_p.A292A|BRDT_uc010otb.1_Silent_p.A292A|BRDT_uc001dom.3_Silent_p.A338A	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	338	Bromo 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		ACAAATTTGCGGCAGATGTTA	0.333													32	108					0	0	1	0	0		A	92443769	A	A	92443769	2	1	153	1	0	0	0	0	0	0	0	1	1511	1103	39	1		1	BRDT	1	92443769	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	600053	92443769	156806852	74	82006											
BTBD8	284697	broad.mit.edu	37	chr1	92595319	92595319	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgaaagctcccaagagtaCgttactcttcaagggtaagc	12	9	10	10	1	2	2	1	1	1	1	3	2	3	2	1	1	4	5	1	1	6	4	rs138139110	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:92595319C>T	uc001doo.2	+	5	1005	c.738C>T	c.(736-738)TAC>TAT	p.Y246Y	BTBD8_uc010otc.1_RNA	NM_183242	NP_899065	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8	246	BTB 2.					nucleus				ovary(1)	1		all_lung(203;0.0484)|Lung NSC(277;0.126)|Glioma(108;0.222)		all cancers(265;0.0153)|Epithelial(280;0.0982)		CCCAAGAGTACGTTACTCTTC	0.413													23	92					0	0	1	0	0		T	92595319	T	T	92595319	2	4	153	1	0	0	0	0	0	0	0	1	1550	547	19	1		1	BTBD8	1	92595319	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	151550	92595319	156655302	75	82007											
GLMN	11146	broad.mit.edu	37	chr1	92712097	92712097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatggaactttcactttatcCcaatattttcttcagaggta	12	16	5	8	0	3	1	2	0	1	1	4	2	4	2	1	2	1	1	1	2	6	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:92712097C>T	uc001dor.2	-	19	1890	c.1775G>A	c.(1774-1776)GGG>GAG	p.G592E	GLMN_uc009wdg.2_RNA|GLMN_uc001dos.2_Missense_Mutation_p.G578E	NM_053274	NP_444504	Q92990	GLMN_HUMAN	glomulin	592					muscle cell differentiation|negative regulation of T cell proliferation|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of phosphorylation|regulation of gene expression, epigenetic|vasculogenesis	intracellular	hepatocyte growth factor receptor binding			skin(1)	1		all_lung(203;0.00827)|Lung NSC(277;0.0295)		all cancers(265;0.00702)|GBM - Glioblastoma multiforme(16;0.0381)|Epithelial(280;0.0989)		TCACTTTATCCCAATATTTTC	0.264									Multiple_Glomus_Tumors_(of_the_Skin)_Familial				8	70					0	0	1	0	0		T	92712097	T	T	92712097	3	4	153	1	0	0	0	0	1	0	0	0	6463	623	22	4	13	4	GLMN	1	92712097	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	116778	92712097	156538524	76	82008											
ABCA4	24	broad.mit.edu	37	chr1	94495142	94495142	+	Silent	SNP	C	T	T	0	0	0	1	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	agctgggtgatgtttggggaCacagaaggagtcttccaggg	9	9	17	6	0	1	2	0	1	1	1	2	4	2	4	1	5	1	2	1	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:94495142C>T	uc001dqh.2	-	30	4502	c.4398G>A	c.(4396-4398)GTG>GTA	p.V1466V		NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	1466	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TGTTTGGGGACACAGAAGGAG	0.512													6	39					0	0	1	0	0		T	94495142	T	T	94495142	2	4	153	1	0	0	0	0	0	0	0	1	34	465	17	4		4	ABCA4	1	94495142	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1783045	94495142	154755479	77	82009											
LPPR4	9890	broad.mit.edu	37	chr1	99764636	99764636	+	Missense_Mutation	SNP	T	C	C	0	1	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	tacagctctcattacagataTcatacagctgtccacaggat	13	11	6	11	0	2	1	2	0	1	1	4	2	3	2	1	1	5	2	1	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:99764636T>C	uc001dse.2	+	4	690	c.584T>C	c.(583-585)ATC>ACC	p.I195T	LPPR4_uc010oue.1_Missense_Mutation_p.I195T	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	195	Helical; (Potential).						phosphatidate phosphatase activity			ovary(3)	3		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)		ATTACAGATATCATACAGCTG	0.373													4	137					0	0	1	0	0		C	99764636	C	C	99764636	3	2	153	1	0	0	0	0	1	0	0	0	8945	1435	50	3	598	3	LPPR4	1	99764636	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5269494	99764636	149485985	78	82010											
AKNAD1	254268	broad.mit.edu	37	chr1	109369851	109369851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agttgaatctgagtgtggtgCcttttcatgaaggacaattg	10	14	12	5	0	2	3	1	3	1	0	2	4	2	4	1	2	1	1	1	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:109369851C>T	uc001dwa.2	-	11	2181	c.1912G>A	c.(1912-1914)GCA>ACA	p.A638T	AKNAD1_uc010ovb.1_Missense_Mutation_p.A345T|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	638										ovary(3)	3						GAGTGTGGTGCCTTTTCATGA	0.483													12	311					0	0	1	0	0		T	109369851	T	T	109369851	3	4	153	1	0	0	0	0	1	0	0	0	464	739	26	2	622	2	AKNAD1	1	109369851	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9605215	109369851	139880770	79	82011											
PSRC1	84722	broad.mit.edu	37	chr1	109823609	109823609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccctgcggccggggcaggcGttgagagttgctggtagaag	6	8	18	9	3	0	2	0	1	0	2	1	3	1	2	2	5	2	5	2	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:109823609G>A	uc001dxg.2	-	5	906	c.784C>T	c.(784-786)CGC>TGC	p.R262C	PSRC1_uc001dxb.2_Missense_Mutation_p.R62C|PSRC1_uc001dxc.2_Missense_Mutation_p.R232C|PSRC1_uc001dxd.2_Missense_Mutation_p.R232C|PSRC1_uc001dxe.2_Missense_Mutation_p.R232C|PSRC1_uc001dxf.2_Intron|PSRC1_uc001dxh.2_Missense_Mutation_p.R232C|PSRC1_uc001dxi.2_Missense_Mutation_p.R232C|PSRC1_uc001dxj.2_Missense_Mutation_p.R262C	NM_001032290	NP_001027461	Q6PGN9	PSRC1_HUMAN	proline/serine-rich coiled-coil 1 isoform c	262	Pro/Ser-rich.				cell division|microtubule bundle formation|mitotic metaphase plate congression|negative regulation of cell growth|positive regulation of microtubule polymerization|positive regulation of transcription, DNA-dependent|regulation of mitotic spindle organization	cytosol|midbody|spindle pole	microtubule binding				0		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0286)|Lung(183;0.0658)|COAD - Colon adenocarcinoma(174;0.112)|Epithelial(280;0.188)|all cancers(265;0.213)		CGGGGCAGGCGTTGAGAGTTG	0.632													6	27					0	0	1	0	0		A	109823609	A	A	109823609	3	1	153	1	0	0	0	0	1	0	0	0	12741	1145	40	1	351	1	PSRC1	1	109823609	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	453758	109823609	139427012	80	82012											
MYBPHL	343263	broad.mit.edu	37	chr1	109840109	109840109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcacgcggagttggtagCgacctgagtcagcacgttgg	7	8	16	10	4	1	1	1	1	0	0	1	3	1	2	1	3	3	6	1	3	1	3	rs143926262		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:109840109C>T	uc001dxk.1	-	3	415	c.365G>A	c.(364-366)CGC>CAC	p.R122H	MYBPHL_uc010ovh.1_Intron|MYBPHL_uc001dxl.2_Intron	NM_001010985	NP_001010985	A2RUH7	MBPHL_HUMAN	myosin binding protein H-like	122	Ig-like C2-type 1.									ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(203;0.00519)|all_epithelial(167;0.00575)|Lung NSC(277;0.00822)		Colorectal(144;0.0306)|Lung(183;0.0681)|COAD - Colon adenocarcinoma(174;0.117)|Epithelial(280;0.197)|all cancers(265;0.225)		GAGTTGGTAGCGACCTGAGTC	0.617													12	48					0	0	1	0	0		T	109840109	T	T	109840109	3	4	153	1	0	0	0	0	1	0	0	0	10033	768	27	1	723	1	MYBPHL	1	109840109	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	16500	109840109	139410512	81	82013											
ATXN7L2	127002	broad.mit.edu	37	chr1	110032913	110032913	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctgcacctttgggagccgGctggtgagcccaggatgcta	6	10	14	11	1	1	1	0	1	1	0	1	3	1	3	3	4	4	3	3	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:110032913G>A	uc001dxr.2	+	9	1272	c.1257G>A	c.(1255-1257)CGG>CGA	p.R419R	ATXN7L2_uc001dxs.2_Silent_p.R46R|ATXN7L2_uc001dxt.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	419										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		TTGGGAGCCGGCTGGTGAGCC	0.597											OREG0013635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	78					0	0	1	0	0		A	110032913	A	A	110032913	2	1	153	1	0	0	0	0	0	0	0	1	1218	1190	42	2		2	ATXN7L2	1	110032913	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	192804	110032913	139217708	82	82014											
GNAI3	2773	broad.mit.edu	37	chr1	110129408	110129408	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtaataacaaatggtttAcagaaacttcaatcattctc	15	15	4	7	0	3	1	2	0	1	1	4	1	3	1	0	1	3	2	0	1	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:110129408A>G	uc001dxz.2	+	7	935	c.778A>G	c.(778-780)ACA>GCA	p.T260A		NM_006496	NP_006487	P08754	GNAI3_HUMAN	guanine nucleotide binding protein (G protein),	260					cell cycle|cell division|inhibition of adenylate cyclase activity by G-protein signaling pathway|platelet activation|synaptic transmission	centrosome|heterotrimeric G-protein complex|midbody	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			ovary(1)	1		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)		CAAATGGTTTACAGAAACTTC	0.328													24	98					0	0	1	0	0		G	110129408	G	G	110129408	3	3	153	1	0	0	0	0	1	0	0	0	6521	391	14	3	804	3	GNAI3	1	110129408	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	96495	110129408	139121213	83	82015											
SLC6A17	388662	broad.mit.edu	37	chr1	110737297	110737297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtcatgttcttcttgatgCttatcaacctgggcctgggc	5	14	10	12	1	4	1	2	1	2	0	4	1	4	1	3	2	2	2	3	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:110737297C>T	uc009wfq.2	+	9	1857	c.1396C>T	c.(1396-1398)CTT>TTT	p.L466F	SLC6A17_uc001dze.1_Missense_Mutation_p.L64F	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	466	Helical; Name=8; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		CTTCTTGATGCTTATCAACCT	0.587													22	78					0	0	1	0	0		T	110737297	T	T	110737297	3	4	153	1	0	0	0	0	1	0	0	0	14705	797	28	2	1426	2	SLC6A17	1	110737297	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	607889	110737297	138513324	84	82016											
KCNC4	3749	broad.mit.edu	37	chr1	110765858	110765858	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaacctgctcaacatcatCgactttgtggccatcctgcc	10	10	7	14	1	2	1	2	0	0	1	4	2	3	1	4	1	4	1	4	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:110765858C>T	uc001dzh.2	+	2	1008	c.951C>T	c.(949-951)ATC>ATT	p.I317I	KCNC4_uc001dzf.2_Silent_p.I317I|KCNC4_uc009wfr.2_Silent_p.I317I|KCNC4_uc001dzg.2_Silent_p.I317I|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	317	Helical; Name=Segment S3; (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		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)		TCAACATCATCGACTTTGTGG	0.627													20	60					0	0	1	0	0		T	110765858	T	T	110765858	2	4	153	1	0	0	0	0	0	0	0	1	8033	874	31	1		1	KCNC4	1	110765858	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	28561	110765858	138484763	85	82017											
KCNA2	3737	broad.mit.edu	37	chr1	111146620	111146620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatgaagtaggggatgatgGccacaatgtcaatgatgttc	12	11	13	5	0	1	4	1	4	0	0	2	5	1	5	1	3	0	2	1	3	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:111146620G>A	uc001dzu.2	-	2	1281	c.785C>T	c.(784-786)GCC>GTC	p.A262V	KCNA2_uc009wfv.1_Missense_Mutation_p.A262V|KCNA2_uc009wfw.2_Missense_Mutation_p.A262V	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	262	Helical; Name=Segment S3; (Potential).					juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		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)		GGGGATGATGGCCACAATGTC	0.532													28	113					0	0	1	0	0		A	111146620	A	A	111146620	3	1	153	1	0	0	0	0	1	0	0	0	8019	1203	42	2	718	2	KCNA2	1	111146620	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	380762	111146620	138104001	86	82018											
CHI3L2	1117	broad.mit.edu	37	chr1	111784915	111784915	+	Missense_Mutation	SNP	A	G	G	1	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	ctattgacatggatgacttcActggcaaatcctgcaaccag	12	10	8	11	0	1	2	1	2	0	0	2	3	2	3	2	2	2	2	2	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:111784915A>G	uc001eam.2	+	10	1173	c.1102A>G	c.(1102-1104)ACT>GCT	p.T368A	CHI3L2_uc001ean.2_Missense_Mutation_p.T358A|CHI3L2_uc001eao.2_Missense_Mutation_p.T289A|CHI3L2_uc009wga.2_Missense_Mutation_p.T250A	NM_004000	NP_003991	Q15782	CH3L2_HUMAN	chitinase 3-like 2 isoform a	368					chitin catabolic process	extracellular space	cation binding|chitinase activity			central_nervous_system(1)	1		all_cancers(81;1.89e-05)|all_epithelial(167;7.36e-06)|all_lung(203;0.00018)|Lung NSC(277;0.000359)		Lung(183;0.0171)|Colorectal(144;0.0387)|all cancers(265;0.0464)|LUSC - Lung squamous cell carcinoma(189;0.0872)|Epithelial(280;0.0994)|COAD - Colon adenocarcinoma(174;0.141)		GGATGACTTCACTGGCAAATC	0.498													47	194					0	0	1	0	0		G	111784915	G	G	111784915	3	3	153	1	0	0	0	0	1	0	0	0	3344	159	6	3	1140	3	CHI3L2	1	111784915	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	638295	111784915	137465706	87	82019											
IGSF3	3321	broad.mit.edu	37	chr1	117122210	117122210	+	Silent	SNP	G	A	A	0	0	1	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	agcctgccctcccaaggactGccctctgggccaaagacagc	9	5	10	17	0	1	1	0	0	1	1	2	2	2	2	5	2	4	0	5	2	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:117122210G>A	uc001egr.1	-	10	3843	c.3138C>T	c.(3136-3138)GGC>GGT	p.G1046G	IGSF3_uc001egq.1_Silent_p.G1066G	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	1046	Ig-like C2-type 8.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		CCCAAGGACTGCCCTCTGGGC	0.507													12	36					0	0	1	0	0		A	117122210	A	A	117122210	2	1	153	1	0	0	0	0	0	0	0	1	7617	1306	46	2		2	IGSF3	1	117122210	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5337295	117122210	132128411	88	82020											
IGSF3	3321	broad.mit.edu	37	chr1	117156664	117156664	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcttctcgccaactttctgCcggagccaggccacagacag	8	7	11	15	2	2	1	0	0	2	1	3	2	2	2	4	3	3	1	4	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:117156664C>T	uc001egr.1	-	4	1260	c.555G>A	c.(553-555)CGG>CGA	p.R185R	IGSF3_uc001egq.1_Silent_p.R185R	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	185	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		CAACTTTCTGCCGGAGCCAGG	0.612													12	66					0	0	1	0	0		T	117156664	T	T	117156664	2	4	153	1	0	0	0	0	0	0	0	1	7617	726	26	2		2	IGSF3	1	117156664	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	34454	117156664	132093957	89	82021											
SPAG17	200162	broad.mit.edu	37	chr1	118527387	118527387	+	Silent	SNP	T	G	G	0	1	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	atatccattaggtaattctgTgttgtctcaatttccttcct	8	19	5	9	0	2	0	1	0	2	0	6	0	5	0	3	1	0	2	3	1	4	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:118527387T>G	uc001ehk.2	-	41	5756	c.5688A>C	c.(5686-5688)ACA>ACC	p.T1896T		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1896	Potential.					cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GGTAATTCTGTGTTGTCTCAA	0.323													21	109					0	0	1	0	0		G	118527387	G	G	118527387	2	3	153	1	0	0	0	0	0	0	0	1	15004	1683	59	5		5	SPAG17	1	118527387	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1370723	118527387	130723234	90	82022											
WARS2	10352	broad.mit.edu	37	chr1	119575832	119575832	+	Missense_Mutation	SNP	A	G	G	1	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	ggccagccgggtcataggtgAcctccgaggtgaagtctgtc	7	8	15	11	2	2	2	1	2	1	0	4	3	3	2	4	4	1	0	4	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:119575832A>G	uc001ehn.2	-	6	813	c.785T>C	c.(784-786)GTC>GCC	p.V262A	WARS2_uc010oxf.1_Missense_Mutation_p.V168A|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Missense_Mutation_p.V205A|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	262					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	GTCATAGGTGACCTCCGAGGT	0.617													21	96					0	0	1	0	0		G	119575832	G	G	119575832	3	3	153	1	0	0	0	0	1	0	0	0	17276	275	10	3	301	3	WARS2	1	119575832	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1048445	119575832	129674789	91	82023											
NOTCH2	4853	broad.mit.edu	37	chr1	120462059	120462059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcatcagcccgtgagtagCgggctgcaaggtgcagggcc	8	5	16	12	2	1	1	1	1	0	0	1	1	1	1	2	3	5	5	2	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:120462059C>T	uc001eik.2	-	31	5913	c.5657G>A	c.(5656-5658)CGC>CAC	p.R1886H		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1886	Cytoplasmic (Potential).|ANK 2.				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCGTGAGTAGCGGGCTGCAAG	0.607			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				11	59					0	0	1	0	0		T	120462059	T	T	120462059	3	4	153	1	0	0	0	0	1	0	0	0	10567	768	27	1	1774	1	NOTCH2	1	120462059	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	886227	120462059	128788562	92	82024											
PDE4DIP	9659	broad.mit.edu	37	chr1	144882530	144882530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtcacattcccctcctcTtggtgttggtgcttcccagg	5	13	9	14	0	2	0	1	0	1	0	5	0	5	0	4	3	1	2	4	3	0	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:144882530T>C	uc001elw.3	-	24	3780	c.3489A>G	c.(3487-3489)CAA>CAG	p.Q1163Q	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001elv.3_Silent_p.Q170Q	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1163					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TCCCCTCCTCTTGGTGTTGGT	0.522			T	PDGFRB	MPD								19	243					0	0	1	0	0		C	144882530	C	C	144882530	2	2	153	1	0	0	0	0	0	0	0	1	11662	1606	56	3		3	PDE4DIP	1	144882530	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	24420471	144882530	104368091	93	82025											
PDE4DIP	9659	broad.mit.edu	37	chr1	144994711	144994711	+	Silent	SNP	A	C	C	1	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	tcattgaggtgctgggacagAgtgcgatatccattagacat	11	11	12	7	1	1	3	1	1	0	2	2	5	2	4	1	2	2	1	1	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:144994711A>C	uc001elw.3	-	1	312	c.21T>G	c.(19-21)ACT>ACG	p.T7T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Silent_p.T7T|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001emc.1_Silent_p.T7T|PDE4DIP_uc001emd.1_Silent_p.T7T|PDE4DIP_uc001emg.1_Silent_p.T7T|PDE4DIP_uc001emh.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	7					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GCTGGGACAGAGTGCGATATC	0.567			T	PDGFRB	MPD								7	124					0	0	1	0	0		C	144994711	C	C	144994711	2	2	153	1	0	0	0	0	0	0	0	1	11662	291	11	5		5	PDE4DIP	1	144994711	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	112181	144994711	104255910	94	82026											
BCL9	607	broad.mit.edu	37	chr1	147091961	147091961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgattccaggctcccagcGccacatggagcctgggaata	10	7	12	12	1	0	1	0	1	0	0	2	4	2	3	4	3	2	1	4	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:147091961G>A	uc001epq.2	+	8	2740	c.2000G>A	c.(1999-2001)CGC>CAC	p.R667H	BCL9_uc010ozr.1_Missense_Mutation_p.R593H	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	667	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					GGCTCCCAGCGCCACATGGAG	0.572			T	IGH@|IGL@	B-ALL								13	45					0	0	1	0	0		A	147091961	A	A	147091961	3	1	153	1	0	0	0	0	1	0	0	0	1382	1087	38	1	2018	1	BCL9	1	147091961	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2097250	147091961	102158660	95	82027											
NBPF15	284565	broad.mit.edu	37	chr1	148594462	148594462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggactcactggatagatgttAttcgactccgtcaatgtact	10	13	9	9	2	2	1	2	0	0	1	4	4	3	3	1	2	1	2	1	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:148594462A>G	uc001esc.2	+	19	2324	c.1835A>G	c.(1834-1836)TAT>TGT	p.Y612C		NM_173638	NP_775909	Q8N660	NBPFF_HUMAN	hypothetical protein LOC284565	612	NBPF 6.					cytoplasm					0	all_hematologic(923;0.032)					GATAGATGTTATTCGACTCCG	0.458													126	445					0	0	1	0	0		G	148594462	G	G	148594462	3	3	153	1	0	0	0	0	1	0	0	0	10214	449	16	3	1893	3	NBPF15	1	148594462	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1502501	148594462	100656159	96	82028											
PLEKHO1	51177	broad.mit.edu	37	chr1	150128314	150128314	+	Missense_Mutation	SNP	T	C	C	0	1	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	acctgagtgactatgagaagTgtgaagagctccggaagtcc	12	8	13	8	1	0	5	0	4	0	2	2	7	2	6	3	1	1	1	3	1	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:150128314T>C	uc001ett.2	+	3	510	c.232T>C	c.(232-234)TGT>CGT	p.C78R	PLEKHO1_uc001etr.2_5'UTR|PLEKHO1_uc001ets.2_5'UTR|PLEKHO1_uc001etu.2_5'UTR	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	78	PH.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CTATGAGAAGTGTGAAGAGCT	0.448													56	125					0	0	1	0	0		C	150128314	C	C	150128314	3	2	153	1	0	0	0	0	1	0	0	0	12103	1696	59	3	242	3	PLEKHO1	1	150128314	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1533852	150128314	99122307	97	82029											
SEMA6C	10500	broad.mit.edu	37	chr1	151109008	151109008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgaacttgccctcaaacccaCgctcaatctcatccaggtag	11	9	6	15	1	3	1	3	1	1	0	5	1	4	1	3	1	3	2	3	1	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:151109008C>T	uc001ewu.2	-	12	1322	c.1022G>A	c.(1021-1023)CGT>CAT	p.R341H	SEMA6C_uc001ewv.2_Missense_Mutation_p.R341H|SEMA6C_uc001eww.2_Missense_Mutation_p.R301H|SEMA6C_uc010pcq.1_Missense_Mutation_p.R341H	NM_030913	NP_112175	Q9H3T2	SEM6C_HUMAN	semaphorin Y precursor	341	Extracellular (Potential).|Sema.					integral to membrane	receptor activity			ovary(1)|skin(1)	2	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CTCAAACCCACGCTCAATCTC	0.562													50	199					0	0	1	0	0		T	151109008	T	T	151109008	3	4	153	1	0	0	0	0	1	0	0	0	14066	536	19	1	1902	1	SEMA6C	1	151109008	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	980694	151109008	98141613	98	82030											
ZNF687	57592	broad.mit.edu	37	chr1	151261869	151261869	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaggctgatctacaagtgCgccatgtgcgacacagtctt	9	11	10	11	2	3	1	1	1	2	0	3	2	3	1	1	1	3	1	1	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:151261869C>T	uc001exq.2	+	5	2585	c.2487C>T	c.(2485-2487)TGC>TGT	p.C829C	ZNF687_uc009wmo.2_Silent_p.C829C|ZNF687_uc009wmp.2_Silent_p.C829C	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	829	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TCTACAAGTGCGCCATGTGCG	0.612													22	117					0	0	1	0	0		T	151261869	T	T	151261869	2	4	153	1	0	0	0	0	0	0	0	1	18117	776	27	1		1	ZNF687	1	151261869	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	152861	151261869	97988752	99	82031											
HRNR	388697	broad.mit.edu	37	chr1	152192304	152192304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgacccgagctagatcCgtgttgaccgtagccagagg	10	7	14	10	3	0	4	0	2	0	2	1	6	1	5	4	2	2	3	4	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:152192304C>T	uc001ezt.1	-	3	1877	c.1801G>A	c.(1801-1803)GGA>AGA	p.G601R		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	601	6.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GAGCTAGATCCGTGTTGACCG	0.552													87	268					0	0	1	0	0		T	152192304	T	T	152192304	3	4	153	1	0	0	0	0	1	0	0	0	7375	661	23	1	6755	1	HRNR	1	152192304	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	930435	152192304	97058317	100	82032											
CRNN	49860	broad.mit.edu	37	chr1	152382676	152382676	+	Silent	SNP	G	A	A	0	0	1	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	gtctgggtgggtgtctgggtGtgtgtccctgcctgtatctg	1	15	17	8	0	3	0	0	0	3	0	4	0	4	0	2	3	1	1	2	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:152382676G>A	uc001ezx.2	-	3	956	c.882C>T	c.(880-882)CAC>CAT	p.H294H		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	294	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGTCTGGGTGTGTGTCCCTG	0.607													81	267					0	0	1	0	0		A	152382676	A	A	152382676	2	1	153	1	0	0	0	0	0	0	0	1	3895	1368	48	4		4	CRNN	1	152382676	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	190372	152382676	96867945	101	82033											
DENND4B	9909	broad.mit.edu	37	chr1	153910311	153910311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctagctccactaagggtgtcGgctcaggcttctcctgctct	5	12	10	14	1	3	0	1	0	2	0	6	0	4	0	2	3	2	4	2	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:153910311G>A	uc001fdd.1	-	14	2395	c.1994C>T	c.(1993-1995)CCG>CTG	p.P665L		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	665										ovary(1)	1	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)			TAAGGGTGTCGGCTCAGGCTT	0.552													49	124					0	0	1	0	0		A	153910311	A	A	153910311	3	1	153	1	0	0	0	0	1	0	0	0	4440	1116	39	1	2556	1	DENND4B	1	153910311	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1527635	153910311	95340310	102	82034											
ADAR	103	broad.mit.edu	37	chr1	154574993	154574993	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgagaaattctatttgcTtaagcaggaaactactgggg	12	12	10	7	0	1	1	0	1	1	1	1	3	1	2	1	3	4	2	1	3	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:154574993T>C	uc001ffh.2	-	2	325	c.125A>G	c.(124-126)AAG>AGG	p.K42R	ADAR_uc001ffj.2_Missense_Mutation_p.K42R|ADAR_uc001ffi.2_Missense_Mutation_p.K42R|ADAR_uc001ffk.2_5'UTR|ADAR_uc001ffl.1_5'UTR|ADAR_uc001ffm.1_RNA|ADAR_uc001ffn.1_Missense_Mutation_p.K42R	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	42					adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		TTCTATTTGCTTAAGCAGGAA	0.547													20	58					0	0	1	0	0		C	154574993	C	C	154574993	3	2	153	1	0	0	0	0	1	0	0	0	281	1609	56	3	3611	3	ADAR	1	154574993	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	664682	154574993	94675628	103	82035											
TRIM46	80128	broad.mit.edu	37	chr1	155152112	155152112	+	Silent	SNP	T	C	C	0	1	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	ctgtctcttccaacagtgccTgaggcccccgtcattgacac	7	10	8	16	1	2	2	1	2	1	0	4	2	3	2	4	1	2	0	4	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:155152112T>C	uc001fhs.1	+	8	1373	c.1290T>C	c.(1288-1290)CCT>CCC	p.P430P	RAG1AP1_uc010pey.1_Intron|TRIM46_uc009wpe.1_RNA|TRIM46_uc001fhq.2_RNA|TRIM46_uc001fhr.2_Silent_p.P430P|TRIM46_uc001fht.1_RNA|TRIM46_uc010pfa.1_Silent_p.P304P|TRIM46_uc001fhu.1_Silent_p.P407P|TRIM46_uc009wpg.1_Silent_p.P417P|TRIM46_uc001fhv.3_Silent_p.P417P|TRIM46_uc001fhw.1_RNA	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	tripartite motif-containing 46	430	Fibronectin type-III.					intracellular	zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	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)			CAACAGTGCCTGAGGCCCCCG	0.642													6	32					0	0	1	0	0		C	155152112	C	C	155152112	2	2	153	1	0	0	0	0	0	0	0	1	16547	1567	55	3		3	TRIM46	1	155152112	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	577119	155152112	94098509	104	82036											
ARHGEF2	9181	broad.mit.edu	37	chr1	155920909	155920909	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	catgttgccgctgcagtaatGccagttccgtggcctgcttt	5	13	11	12	2	0	0	0	0	0	0	1	0	1	0	4	1	4	6	4	1	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:155920909G>A	uc001fmt.2	-	20	2532	c.2414C>T	c.(2413-2415)GCA>GTA	p.A805V	ARHGEF2_uc001fmq.2_Missense_Mutation_p.A43V|ARHGEF2_uc001fmr.2_Missense_Mutation_p.A777V|ARHGEF2_uc001fms.2_Missense_Mutation_p.A804V|ARHGEF2_uc001fmu.2_Missense_Mutation_p.A849V	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	805	Potential.				actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					CTGCAGTAATGCCAGTTCCGT	0.687													4	17					0	0	1	0	0		A	155920909	A	A	155920909	3	1	153	1	0	0	0	0	1	0	0	0	903	1319	46	2	558	2	ARHGEF2	1	155920909	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	768797	155920909	93329712	105	82037											
MEX3A	92312	broad.mit.edu	37	chr1	156047125	156047125	+	Missense_Mutation	SNP	A	G	G	1	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	ctggggcacccgtgatctcgAacacggggtcgcggtcacgg	6	6	16	13	6	2	1	1	1	1	0	4	2	2	1	1	6	1	1	1	6	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:156047125A>G	uc001fnd.3	-	2	803	c.803T>C	c.(802-804)TTC>TCC	p.F268S		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	268	KH 2.					cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					CGTGATCTCGAACACGGGGTC	0.607													13	27					0	0	1	0	0		G	156047125	G	G	156047125	3	3	153	1	0	0	0	0	1	0	0	0	9527	246	9	3	763	3	MEX3A	1	156047125	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	126216	156047125	93203496	106	82038											
HAPLN2	60484	broad.mit.edu	37	chr1	156593354	156593354	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcaccatcttccacaaagcCcaaggagacccaggtaagac	14	6	7	14	0	2	2	1	0	1	2	3	3	3	2	4	2	1	1	4	2	3	3	rs138640704	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:156593354C>A	uc001fpn.1	+	3	479	c.72C>A	c.(70-72)GCC>GCA	p.A24A	HAPLN2_uc010phq.1_Silent_p.A24A	NM_021817	NP_068589	Q9GZV7	HPLN2_HUMAN	brain link protein-1 precursor	24					cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCCACAAAGCCCAAGGAGACC	0.622													6	17					5.18039e-06	5.32909e-06	1	1	0		A	156593354	A	A	156593354	2	1	153	1	0	0	0	0	0	0	0	1	6971	610	22	5		5	HAPLN2	1	156593354	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	546229	156593354	92657267	107	82039											
ARHGEF11	9826	broad.mit.edu	37	chr1	156917127	156917127	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgagttcaggcaggttcggGaagagccgggccagctcctc	8	7	15	11	2	1	2	1	1	0	1	4	3	2	3	3	4	2	4	3	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:156917127G>A	uc001fqo.2	-	25	3377	c.2337C>T	c.(2335-2337)TTC>TTT	p.F779F	ARHGEF11_uc010phu.1_Silent_p.F195F|ARHGEF11_uc001fqn.2_Silent_p.F819F	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	779	DH.				actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCAGGTTCGGGAAGAGCCGGG	0.587													24	86					0	0	1	0	0		A	156917127	A	A	156917127	2	1	153	1	0	0	0	0	0	0	0	1	896	1165	41	4		4	ARHGEF11	1	156917127	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	323773	156917127	92333494	108	82040											
FCRL3	115352	broad.mit.edu	37	chr1	157665908	157665908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagtagtatctccctgcatCactctccttcacggtgagaa	10	11	7	13	1	4	1	2	1	2	1	6	2	4	1	2	1	1	3	2	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:157665908C>T	uc001frb.2	-	7	1346	c.1054G>A	c.(1054-1056)GAT>AAT	p.D352N	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.D352N|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.D78N|FCRL3_uc001frc.1_Missense_Mutation_p.D352N	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	352	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CTCCCTGCATCACTCTCCTTC	0.512													17	96					0	0	1	0	0		T	157665908	T	T	157665908	3	4	153	1	0	0	0	0	1	0	0	0	5810	826	29	4	1186	4	FCRL3	1	157665908	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	748781	157665908	91584713	109	82041											
KIRREL	55243	broad.mit.edu	37	chr1	158061243	158061243	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtggggtgctatccacgctCaccatcaacaatgtcatgga	11	9	10	11	1	3	0	3	0	0	0	4	1	4	1	2	3	2	2	2	3	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:158061243C>T	uc001frn.3	+	11	1772	c.1368C>T	c.(1366-1368)CTC>CTT	p.L456L	KIRREL_uc010pib.1_Silent_p.L356L|KIRREL_uc009wsq.2_Silent_p.L292L|KIRREL_uc001fro.3_Silent_p.L270L	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	456	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					TATCCACGCTCACCATCAACA	0.577													29	91					0	0	1	0	0		T	158061243	T	T	158061243	2	4	153	1	0	0	0	0	0	0	0	1	8340	813	29	4		4	KIRREL	1	158061243	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	395335	158061243	91189378	110	82042											
SLAMF8	56833	broad.mit.edu	37	chr1	159796723	159796723	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtggagtctgcttctctGggaaggtaagtggggcaggc	6	10	17	8	0	2	0	0	0	2	0	3	2	2	2	1	6	1	3	1	6	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:159796723G>T	uc001fue.3	+	1	245	c.35G>T	c.(34-36)TGG>TTG	p.W12L		NM_020125	NP_064510	Q9P0V8	SLAF8_HUMAN	SLAM family member 8 precursor	12						integral to membrane					0	all_hematologic(112;0.0597)					CTGCTTCTCTGGGAAGGTAAG	0.612													16	63					1.67942e-08	1.74823e-08	1	1	0		T	159796723	T	T	159796723	3	4	153	1	0	0	0	0	1	0	0	0	14395	1357	47	5	37	5	SLAMF8	1	159796723	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1735480	159796723	89453898	111	82043											
SLAMF8	56833	broad.mit.edu	37	chr1	159799686	159799686	+	Missense_Mutation	SNP	A	G	G	1	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	cattacagttactggtgcccAagtgctgagcaaagtcgggg	10	9	13	9	1	0	1	0	1	0	0	1	1	0	1	1	3	5	3	1	3	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:159799686A>G	uc001fue.3	+	2	281	c.71A>G	c.(70-72)CAA>CGA	p.Q24R		NM_020125	NP_064510	Q9P0V8	SLAF8_HUMAN	SLAM family member 8 precursor	24	Extracellular (Potential).					integral to membrane					0	all_hematologic(112;0.0597)					ACTGGTGCCCAAGTGCTGAGC	0.587													47	126					0	0	1	0	0		G	159799686	G	G	159799686	3	3	153	1	0	0	0	0	1	0	0	0	14395	130	5	3	77	3	SLAMF8	1	159799686	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2963	159799686	89450935	112	82044											
CCDC19	25790	broad.mit.edu	37	chr1	159842872	159842872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggttctcgcgcacctggCgccggagctcattggcatgc	4	9	14	14	4	2	0	1	0	1	0	3	1	2	1	2	4	2	5	2	4	0	2	rs147644439		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:159842872C>T	uc001fui.2	-	11	1457	c.1439G>A	c.(1438-1440)CGC>CAC	p.R480H	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.R395H|CCDC19_uc001ful.2_Missense_Mutation_p.R395H	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	480	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			GCGCACCTGGCGCCGGAGCTC	0.617													21	68					0	0	1	0	0		T	159842872	T	T	159842872	3	4	153	1	0	0	0	0	1	0	0	0	2798	768	27	1	224	1	CCDC19	1	159842872	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	43186	159842872	89407749	113	82045											
TAGLN2	8407	broad.mit.edu	37	chr1	159889527	159889527	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctgcttgcaggaactgagaGatctgctccatctgcttgaa	9	11	11	10	0	2	3	0	2	2	1	3	5	3	4	1	1	5	5	1	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:159889527G>A	uc001fum.1	-	2	329	c.279C>T	c.(277-279)ATC>ATT	p.I93I	CCDC19_uc001ful.2_Intron|TAGLN2_uc001fun.1_Silent_p.I93I|TAGLN2_uc001fuo.1_Silent_p.I93I|TAGLN2_uc010piy.1_3'UTR	NM_003564	NP_003555	P37802	TAGL2_HUMAN	transgelin 2	93	CH.				muscle organ development	nuclear membrane|plasma membrane	protein binding				0	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGAACTGAGAGATCTGCTCCA	0.562													62	265					0	0	1	0	0		A	159889527	A	A	159889527	2	1	153	1	0	0	0	0	0	0	0	1	15564	932	33	4		4	TAGLN2	1	159889527	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	46655	159889527	89361094	114	82046											
ATP1A2	477	broad.mit.edu	37	chr1	160091015	160091015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccttggatgagctgggcCgcaaataccaagtggacctg	9	9	13	10	1	0	1	0	1	0	0	1	3	1	3	4	3	2	2	4	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:160091015C>T	uc001fvc.2	+	3	283	c.151C>T	c.(151-153)CGC>TGC	p.R51C	ATP1A2_uc001fvb.2_Missense_Mutation_p.R51C|ATP1A2_uc010piz.1_5'Flank	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	51	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	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)			TGAGCTGGGCCGCAAATACCA	0.453													63	262					0	0	1	0	0		T	160091015	T	T	160091015	3	4	153	1	0	0	0	0	1	0	0	0	1130	652	23	1	161	1	ATP1A2	1	160091015	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	201488	160091015	89159606	115	82047											
ATP1A2	477	broad.mit.edu	37	chr1	160104956	160104956	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagccaaggcatgcgtggtGcacggctctgacctgaagga	10	6	15	10	2	1	2	0	2	1	0	1	4	1	3	2	4	3	3	2	4	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:160104956G>A	uc001fvc.2	+	15	2118	c.1986G>A	c.(1984-1986)GTG>GTA	p.V662V	ATP1A2_uc001fvb.2_Silent_p.V662V|ATP1A2_uc001fvd.2_Silent_p.V398V	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	662	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	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)			CATGCGTGGTGCACGGCTCTG	0.602													24	64					0	0	1	0	0		A	160104956	A	A	160104956	2	1	153	1	0	0	0	0	0	0	0	1	1130	1306	46	2		2	ATP1A2	1	160104956	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	13941	160104956	89145665	116	82048											
ADAMTS4	9507	broad.mit.edu	37	chr1	161163532	161163532	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacaggcctcgtgcagtctcGggaggagaactggacaccac	10	5	14	12	2	1	1	0	0	1	1	3	5	1	3	2	4	2	1	2	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:161163532G>T	uc001fyt.3	-	6	2061	c.1633C>A	c.(1633-1635)CGA>AGA	p.R545R		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	545	TSP type-1.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GTGCAGTCTCGGGAGGAGAAC	0.637													30	96					1.45844e-13	1.54626e-13	1	1	0		T	161163532	T	T	161163532	2	4	153	1	0	0	0	0	0	0	0	1	268	1124	39	5		5	ADAMTS4	1	161163532	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1058576	161163532	88087089	117	82049											
SDHC	6391	broad.mit.edu	37	chr1	161298208	161298208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgttcctttgggaaccacgGccaaagaagagatggagcgg	11	7	14	9	2	0	2	0	0	0	2	1	5	1	4	3	4	2	1	3	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:161298208G>A	uc001gag.2	+	3	130	c.100G>A	c.(100-102)GCC>ACC	p.A34T	SDHC_uc001gai.2_Missense_Mutation_p.A34T|SDHC_uc001gaj.2_Intron|SDHC_uc001gak.2_Intron|SDHC_uc001gah.2_Intron	NM_003001	NP_002992	Q99643	C560_HUMAN	succinate dehydrogenase complex, subunit C	34	Mitochondrial matrix (By similarity).				respiratory electron transport chain|transport|tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain complex II|plasma membrane succinate dehydrogenase complex	electron carrier activity|heme binding|succinate dehydrogenase activity				0	all_cancers(52;6.96e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Succinic acid(DB00139)	GGGAACCACGGCCAAAGAAGA	0.388			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome				43	166					0	0	1	0	0		A	161298208	A	A	161298208	3	1	153	1	0	0	0	0	1	0	0	0	13991	1203	42	2	110	2	SDHC	1	161298208	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	134676	161298208	87952413	118	82050											
FCGR2B	2213	broad.mit.edu	37	chr1	161642933	161642933	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctccatcccacaagcaaAccacagtcacagtggtgatt	12	9	6	14	0	2	1	1	1	1	0	4	1	3	1	3	1	2	1	3	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:161642933A>G	uc001gaz.1	+	4	652	c.560A>G	c.(559-561)AAC>AGC	p.N187S	FCGR2B_uc009wum.1_Missense_Mutation_p.N187S|FCGR2B_uc001gay.1_Missense_Mutation_p.N186S|FCGR2B_uc001gba.1_Missense_Mutation_p.N186S|FCGR2B_uc001gbb.1_Missense_Mutation_p.N187S|FCGR2B_uc009wun.1_Missense_Mutation_p.N180S	NM_004001	NP_003992	P31994	FCG2B_HUMAN	Fc fragment of IgG, low affinity IIb, receptor	187	Ig-like C2-type 2.|Extracellular (Potential).				immune response|interspecies interaction between organisms|regulation of immune response	integral to membrane|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CCACAAGCAAACCACAGTCAC	0.493			T	?	ALL								9	40					0	0	1	0	0		G	161642933	G	G	161642933	3	3	153	1	0	0	0	0	1	0	0	0	5796	43	2	3	574	3	FCGR2B	1	161642933	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	344725	161642933	87607688	119	82051											
OLFML2B	25903	broad.mit.edu	37	chr1	161969979	161969979	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccccggatgacagtgggctgGgaggccggccggcctctcag	5	5	17	14	3	1	1	1	1	1	0	2	3	1	3	5	6	0	1	5	6	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:161969979G>T	uc001gbu.2	-	5	1297	c.873C>A	c.(871-873)TCC>TCA	p.S291S	OLFML2B_uc010pkq.1_Silent_p.S292S	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	291										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CAGTGGGCTGGGAGGCCGGCC	0.612													16	53					3.52763e-06	3.63261e-06	1	1	0		T	161969979	T	T	161969979	2	4	153	1	0	0	0	0	0	0	0	1	10877	1219	43	5		5	OLFML2B	1	161969979	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	327046	161969979	87280642	120	82052											
DUSP27	92235	broad.mit.edu	37	chr1	167097443	167097443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaagttctccaggtccacGtacaacgagacctcaagttc	12	8	7	14	2	2	1	1	0	1	1	5	2	3	1	3	1	2	3	3	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:167097443G>A	uc001geb.1	+	5	3075	c.3075G>A	c.(3073-3075)ACG>ACA	p.T1025T		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	1025	Ser-rich.				protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						CCAGGTCCACGTACAACGAGA	0.567													18	76					0	0	1	0	0		A	167097443	A	A	167097443	2	1	153	1	0	0	0	0	0	0	0	1	4830	1132	40	1		1	DUSP27	1	167097443	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5127464	167097443	82153178	121	82053											
GPR161	23432	broad.mit.edu	37	chr1	168059836	168059836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgaagccagtgtccccCgtgctgctgctgtgccccag	5	8	12	16	1	0	1	0	1	0	0	1	1	1	1	5	0	6	4	5	0	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:168059836C>T	uc001gfc.2	-	6	1484	c.1170G>A	c.(1168-1170)ACG>ACA	p.T390T	GPR161_uc001gfb.2_Silent_p.T258T|GPR161_uc010pll.1_Silent_p.T300T|GPR161_uc010plm.1_Silent_p.T276T|GPR161_uc009wvo.2_Silent_p.T407T|GPR161_uc001gfd.2_Silent_p.T390T|GPR161_uc010pln.1_Silent_p.T410T|GPR161_uc001gfe.1_Silent_p.T390T	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	390	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					CAGTGTCCCCCGTGCTGCTGC	0.587													5	18					0	0	1	0	0		T	168059836	T	T	168059836	2	4	153	1	0	0	0	0	0	0	0	1	6680	639	23	1		1	GPR161	1	168059836	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	962393	168059836	81190785	122	82054											
TBX19	9095	broad.mit.edu	37	chr1	168262443	168262443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catagtgcgtgttggaagtgCccatcgaatggtaacaaact	12	10	11	8	2	0	0	0	0	0	0	1	2	0	1	1	2	4	2	1	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:168262443C>T	uc001gfl.2	+	3	581	c.530C>T	c.(529-531)GCC>GTC	p.A177V	TBX19_uc001gfj.3_Missense_Mutation_p.A108V	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	177	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					GTTGGAAGTGCCCATCGAATG	0.408													24	85					0	0	1	0	0		T	168262443	T	T	168262443	3	4	153	1	0	0	0	0	1	0	0	0	15679	739	26	2	540	2	TBX19	1	168262443	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	202607	168262443	80988178	123	82055											
XCL1	6375	broad.mit.edu	37	chr1	168550351	168550351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccacatgggtgagagacGtggtcaggagcatggacagg	12	5	17	7	1	1	2	1	1	0	1	1	5	1	4	1	5	2	1	1	5	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:168550351G>A	uc001gfo.1	+	3	258	c.238G>A	c.(238-240)GTG>ATG	p.V80M		NM_002995	NP_002986	P47992	XCL1_HUMAN	chemokine (C motif) ligand 1	80					CD4-positive, alpha-beta T cell proliferation|CD8-positive, alpha-beta T cell proliferation|cell-cell signaling|cellular response to interleukin-4|cellular response to transforming growth factor beta stimulus|immunoglobulin production in mucosal tissue|lymphocyte chemotaxis|negative regulation of interferon-gamma production|negative regulation of interleukin-2 production|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell cytokine production|negative regulation of T-helper 1 cell activation|negative regulation of transcription, DNA-dependent|neutrophil chemotaxis|positive regulation of activated T cell proliferation|positive regulation of B cell chemotaxis|positive regulation of granzyme A production|positive regulation of granzyme B production|positive regulation of interleukin-10 production|positive regulation of natural killer cell chemotaxis|positive regulation of neutrophil chemotaxis|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell chemotaxis|positive regulation of T cell cytokine production|positive regulation of T cell mediated cytotoxicity|positive regulation of thymocyte migration|positive regulation of transforming growth factor-beta production|regulation of inflammatory response|release of sequestered calcium ion into cytosol|response to virus|T-helper 1 cell cytokine production|T-helper 2 cell cytokine production	extracellular space	chemokine activity|protein homodimerization activity				0	all_hematologic(923;0.208)					GGTGAGAGACGTGGTCAGGAG	0.473													20	56					0	0	1	0	0		A	168550351	A	A	168550351	3	1	153	1	0	0	0	0	1	0	0	0	17449	1145	40	1	248	1	XCL1	1	168550351	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	287908	168550351	80700270	124	82056											
FMO1	2326	broad.mit.edu	37	chr1	171254496	171254496	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttggcccatgctcaccatAccagttccgcttgactggcc	6	11	8	16	1	1	1	1	1	0	0	2	1	2	1	5	2	2	3	5	2	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:171254496A>G	uc009wvz.2	+	9	1548	c.1412A>G	c.(1411-1413)TAC>TGC	p.Y471C	FMO1_uc010pme.1_Missense_Mutation_p.Y408C|FMO1_uc001ghl.2_Missense_Mutation_p.Y471C|FMO1_uc001ghm.2_Missense_Mutation_p.Y471C|FMO1_uc001ghn.2_3'UTR	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	471					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TGCTCACCATACCAGTTCCGC	0.502													32	140					0	0	1	0	0		G	171254496	G	G	171254496	3	3	153	1	0	0	0	0	1	0	0	0	5968	391	14	3	1442	3	FMO1	1	171254496	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2704145	171254496	77996125	125	82057											
C1orf9	51430	broad.mit.edu	37	chr1	172520731	172520731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctcaagatgacaactgcGcactagaaaatgaagatgta	17	8	8	8	1	1	5	1	2	1	3	2	5	1	5	0	0	2	2	0	0	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:172520731G>A	uc001giq.3	+	2	458	c.142G>A	c.(142-144)GCA>ACA	p.A48T	C1orf9_uc010pmm.1_Missense_Mutation_p.A48T|C1orf9_uc009wwd.2_Missense_Mutation_p.A48T|C1orf9_uc010pmn.1_Missense_Mutation_p.A48T|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	48					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		TGACAACTGCGCACTAGAAAA	0.398													16	50					0	0	1	0	0		A	172520731	A	A	172520731	3	1	153	1	0	0	0	0	1	0	0	0	2070	1087	38	1	148	1	C1orf9	1	172520731	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1266235	172520731	76729890	126	82058											
C1orf9	51430	broad.mit.edu	37	chr1	172558904	172558904	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggacagctacagatttttAtgctgaattgcaaaattcta	14	13	8	6	0	1	2	0	1	1	1	1	4	1	3	0	1	4	3	0	1	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:172558904A>G	uc001giq.3	+	18	2979	c.2663A>G	c.(2662-2664)TAT>TGT	p.Y888C	C1orf9_uc010pmm.1_Missense_Mutation_p.Y888C|C1orf9_uc009wwd.2_Missense_Mutation_p.Y844C|C1orf9_uc010pmn.1_Intron|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	888					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		ACAGATTTTTATGCTGAATTG	0.363													45	215					0	0	1	0	0		G	172558904	G	G	172558904	3	3	153	1	0	0	0	0	1	0	0	0	2070	449	16	3	2733	3	C1orf9	1	172558904	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	38173	172558904	76691717	127	82059											
SERPINC1	462	broad.mit.edu	37	chr1	173883880	173883880	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgccggttggtggcctcCgggatcttctgttctgagcc	4	11	13	13	3	3	1	0	1	3	0	4	2	4	2	4	4	1	2	4	4	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:173883880C>T	uc001gjt.2	-	2	338	c.219G>A	c.(217-219)CCG>CCA	p.P73P		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	73			P -> L (in AT3D; type-II; Basel/ Franconville/Clichy-1/Clichy-2/Dublin-2; lacks heparin-binding ability).		blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	TGGTGGCCTCCGGGATCTTCT	0.547											OREG0013990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	62	199					0	0	1	0	0		T	173883880	T	T	173883880	2	4	153	1	0	0	0	0	0	0	0	1	14134	639	23	1		1	SERPINC1	1	173883880	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1324976	173883880	75366741	128	82060											
GPR52	9293	broad.mit.edu	37	chr1	174417662	174417662	+	Missense_Mutation	SNP	A	G	G	1	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	tcttgcttgcatcagtgtggAtcgttatcttgcaataacca	9	15	8	9	1	3	0	1	0	2	0	4	1	3	1	1	1	4	4	1	1	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:174417662A>G	uc001gka.1	+	1	451	c.413A>G	c.(412-414)GAT>GGT	p.D138G	RABGAP1L_uc001gjw.2_Intron|RABGAP1L_uc001gjx.2_Intron|RABGAP1L_uc001gjy.2_Intron|RABGAP1L_uc001gjz.2_Intron|uc010pmu.1_RNA	NM_005684	NP_005675	Q9Y2T5	GPR52_HUMAN	G protein-coupled receptor 52	138	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						ATCAGTGTGGATCGTTATCTT	0.423													112	313					0	0	1	0	0		G	174417662	G	G	174417662	3	3	153	1	0	0	0	0	1	0	0	0	6713	333	12	3	415	3	GPR52	1	174417662	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	533782	174417662	74832959	129	82061											
TNN	63923	broad.mit.edu	37	chr1	175067522	175067522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtgacagagaatatggccaCggtctcctgggacccggtgc	8	7	15	11	2	1	2	0	1	1	1	2	4	1	3	3	5	1	0	3	5	2	1	rs144603425	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:175067522C>T	uc001gkl.1	+	9	2023	c.1910C>T	c.(1909-1911)ACG>ATG	p.T637M	TNN_uc010pmx.1_Missense_Mutation_p.T548M	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	637	Fibronectin type-III 5.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		AATATGGCCACGGTCTCCTGG	0.557													28	81					0	0	1	0	0		T	175067522	T	T	175067522	3	4	153	1	0	0	0	0	1	0	0	0	16348	536	19	1	1940	1	TNN	1	175067522	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	649860	175067522	74183099	130	82062											
TNN	63923	broad.mit.edu	37	chr1	175096130	175096130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttcgtccatctgctgtaaCgcagtctggtggcatattga	7	13	10	11	2	2	1	0	1	2	0	4	1	3	1	2	2	2	4	2	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:175096130C>T	uc001gkl.1	+	13	3067	c.2954C>T	c.(2953-2955)ACG>ATG	p.T985M		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	985	Fibronectin type-III 9.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TCTGCTGTAACGCAGTCTGGT	0.453													24	102					0	0	1	0	0		T	175096130	T	T	175096130	3	4	153	1	0	0	0	0	1	0	0	0	16348	536	19	1	3000	1	TNN	1	175096130	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	28608	175096130	74154491	131	82063											
RASAL2	9462	broad.mit.edu	37	chr1	178421675	178421675	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttctccgttttctgtgtccaGccattatgtctcccagtctt	4	18	6	13	1	4	0	0	0	4	0	7	0	5	0	4	0	1	1	4	0	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:178421675G>A	uc001glr.2	+	9	1578	c.1453G>A	c.(1453-1455)GCC>ACC	p.A485T	RASAL2_uc001glq.2_Missense_Mutation_p.A633T|RASAL2_uc009wxc.2_5'UTR	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	485	Ras-GAP.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						TCTGTGTCCAGCCATTATGTC	0.488													82	273					0	0	1	0	0		A	178421675	A	A	178421675	3	1	153	1	0	0	0	0	1	0	0	0	13089	971	34	2	1956	2	RASAL2	1	178421675	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3325545	178421675	70828946	132	82064											
ABL2	27	broad.mit.edu	37	chr1	179078139	179078139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtctttttgattaagcGtggtgtaaagaagcctgtga	10	14	12	5	1	1	3	0	2	1	1	1	3	1	3	1	1	2	1	1	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:179078139G>A	uc001gmj.3	-	12	2550	c.2263C>T	c.(2263-2265)CGC>TGC	p.R755C	ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Missense_Mutation_p.R734C|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Missense_Mutation_p.R740C|ABL2_uc001gmh.3_Missense_Mutation_p.R719C|ABL2_uc010pne.1_Intron	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	755	F-actin-binding (By similarity).				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	TTGATTAAGCGTGGTGTAAAG	0.532			T	ETV6	AML								19	58					0	0	1	0	0		A	179078139	A	A	179078139	3	1	153	1	0	0	0	0	1	0	0	0	93	1145	40	1	1289	1	ABL2	1	179078139	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	656464	179078139	70172482	133	82065											
TOR1AIP1	26092	broad.mit.edu	37	chr1	179887298	179887298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacccagacaaactgaatgGcctctggagccgtatttctc	10	9	10	12	1	2	2	0	1	2	1	3	4	2	4	3	3	2	1	3	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:179887298G>A	uc001gnq.2	+	10	1894	c.1676G>A	c.(1675-1677)GGC>GAC	p.G559D		NM_015602	NP_056417	Q5JTV8	TOIP1_HUMAN	lamina-associated polypeptide 1B	559	Lumenal (Potential).					integral to membrane|nuclear inner membrane				breast(1)|central_nervous_system(1)	2						AAACTGAATGGCCTCTGGAGC	0.403													26	68					0	0	1	0	0		A	179887298	A	A	179887298	3	1	153	1	0	0	0	0	1	0	0	0	16398	1203	42	2	1714	2	TOR1AIP1	1	179887298	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	809159	179887298	69363323	134	82066											
LHX4	89884	broad.mit.edu	37	chr1	180241138	180241138	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacagtgagctgagcttcCgaggtgagcagggctggagg	8	7	19	7	1	0	4	0	4	0	0	1	6	1	5	1	4	3	4	1	4	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:180241138C>T	uc001goe.1	+	5	998	c.775C>T	c.(775-777)CGA>TGA	p.R259*	uc001gof.1_Intron	NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	259						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.R259R(1)		ovary(1)	1						GCTGAGCTTCCGAGGTGAGCA	0.592													10	42					0	0	1	0	0		T	180241138	T	T	180241138	4	4	153	1	0	0	0	0	0	1	0	0	8789	644	23	1	793	1	LHX4	1	180241138	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	353840	180241138	69009483	135	82067											
STX6	10228	broad.mit.edu	37	chr1	180945745	180945745	+	Silent	SNP	T	C	C	0	1	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	atgagcacaaccaacaggacTgcaaagaggatggctatggc	15	5	12	9	0	0	2	0	1	0	1	0	4	0	4	1	4	4	3	1	4	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:180945745T>C	uc010pnq.1	-	8	966	c.729A>G	c.(727-729)GCA>GCG	p.A243A	STX6_uc009wxo.1_5'Flank|STX6_uc001goo.2_Silent_p.A243A|STX6_uc010pnr.1_Silent_p.A142A	NM_005819	NP_005810	O43752	STX6_HUMAN	syntaxin 6	243	Helical; Anchor for type IV membrane protein; (Potential).				Golgi vesicle transport|intracellular protein transport|vesicle fusion	clathrin-coated vesicle|early endosome|integral to membrane|perinuclear region of cytoplasm|plasma membrane|trans-Golgi network membrane	SNAP receptor activity			ovary(1)	1						CCAACAGGACTGCAAAGAGGA	0.557													5	125					0	0	1	0	0		C	180945745	C	C	180945745	2	2	153	1	0	0	0	0	0	0	0	1	15374	1567	55	3		3	STX6	1	180945745	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	704607	180945745	68304876	136	82068											
RNASEL	6041	broad.mit.edu	37	chr1	182550478	182550478	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcatttcccacattccgaAgcgtcctatagcggctgaag	10	11	8	12	3	1	1	1	1	0	0	4	2	4	1	3	1	2	1	3	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:182550478A>C	uc001gpj.1	-	4	1954	c.1787T>G	c.(1786-1788)CTT>CGT	p.L596R	RNASEL_uc009wxz.1_Missense_Mutation_p.L596R|RNASEL_uc001gpk.2_Missense_Mutation_p.L596R	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	596	KEN.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						CACATTCCGAAGCGTCCTATA	0.413									Hereditary_Prostate_Cancer				11	279					0	0	1	0	0		C	182550478	C	C	182550478	3	2	153	1	0	0	0	0	1	0	0	0	13441	72	3	5	450	5	RNASEL	1	182550478	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1604733	182550478	66700143	137	82069											
LAMC2	3918	broad.mit.edu	37	chr1	183212369	183212369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagatcaacagccaactgcGgcccatgatgtcagagctgg	11	6	11	13	1	2	3	2	1	0	2	2	3	2	3	3	2	5	1	3	2	2	0	rs144652590		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:183212369G>A	uc001gqa.2	+	23	3730	c.3416G>A	c.(3415-3417)CGG>CAG	p.R1139Q		NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	1139	Potential.|Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						AGCCAACTGCGGCCCATGATG	0.537													37	103					0	0	1	0	0		A	183212369	A	A	183212369	3	1	153	1	0	0	0	0	1	0	0	0	8631	1116	39	1	3514	1	LAMC2	1	183212369	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	661891	183212369	66038252	138	82070											
NCF2	4688	broad.mit.edu	37	chr1	183538297	183538297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaagatctctggggttttCggtctgggtggaggctcagc	5	12	16	8	1	3	2	1	1	2	1	5	3	3	3	0	6	1	2	0	6	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:183538297C>T	uc001gqj.3	-	7	968	c.693G>A	c.(691-693)CCG>CCA	p.P231P	NCF2_uc010pod.1_Silent_p.P186P|NCF2_uc010poe.1_Silent_p.P150P|NCF2_uc001gqk.3_Silent_p.P231P	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	231					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						CTGGGGTTTTCGGTCTGGGTG	0.473													64	197					0	0	1	0	0		T	183538297	T	T	183538297	2	4	153	1	0	0	0	0	0	0	0	1	10236	871	31	1		1	NCF2	1	183538297	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	325928	183538297	65712324	139	82071											
RGS1	5996	broad.mit.edu	37	chr1	192545493	192545493	+	Silent	SNP	T	C	C	0	1	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	aaatcttccaagtccaaggaTgtgtaagtacactaatacac	16	10	6	9	0	1	0	0	0	1	0	3	1	3	1	2	1	2	2	2	1	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:192545493T>C	uc001gsi.1	+	2	282	c.216T>C	c.(214-216)GAT>GAC	p.D72D	RGS1_uc010pou.1_Silent_p.D72D	NM_002922	NP_002913	Q08116	RGS1_HUMAN	regulator of G-protein signalling 1	72					immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of signal transduction	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity				0		Breast(1374;0.188)				AGTCCAAGGATGTGTAAGTAC	0.368													30	93					0	0	1	0	0		C	192545493	C	C	192545493	2	2	153	1	0	0	0	0	0	0	0	1	13317	1461	51	3		3	RGS1	1	192545493	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	9007196	192545493	56705128	140	82072											
PTPRC	5788	broad.mit.edu	37	chr1	198711039	198711039	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagaggtgactcacattcaGttcaccagctggccagacca	12	7	10	12	0	3	3	3	1	0	2	3	4	3	3	3	2	1	2	3	2	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:198711039G>A	uc001gur.1	+	24	2619	c.2439G>A	c.(2437-2439)CAG>CAA	p.Q813Q	PTPRC_uc001gus.1_Silent_p.Q765Q|PTPRC_uc001gut.1_Silent_p.Q652Q	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	813	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						CTCACATTCAGTTCACCAGCT	0.418													11	50					0	0	1	0	0		A	198711039	A	A	198711039	2	1	153	1	0	0	0	0	0	0	0	1	12822	1020	36	4		4	PTPRC	1	198711039	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6165546	198711039	50539582	141	82073											
KIF21B	23046	broad.mit.edu	37	chr1	200968549	200968549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcatcttcatcctcgcGcccttcctcctcctcacagc	4	12	4	21	2	4	0	3	0	1	0	10	0	9	0	6	0	1	0	6	0	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:200968549G>A	uc001gvs.1	-	13	2130	c.1813C>T	c.(1813-1815)CGC>TGC	p.R605C	KIF21B_uc001gvr.1_Missense_Mutation_p.R605C|KIF21B_uc009wzl.1_Missense_Mutation_p.R605C|KIF21B_uc010ppn.1_Missense_Mutation_p.R605C	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	605					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						TCATCCTCGCGCCCTTCCTCC	0.647													23	77					0	0	1	0	0		A	200968549	A	A	200968549	3	1	153	1	0	0	0	0	1	0	0	0	8305	1087	38	1	3149	1	KIF21B	1	200968549	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2257510	200968549	48282072	142	82074											
NAV1	89796	broad.mit.edu	37	chr1	201750232	201750232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccctaaaaaactggagtaCgacagtggtagcctgaagat	14	7	11	9	1	0	2	0	1	0	1	0	4	0	3	3	2	3	2	3	2	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:201750232C>T	uc001gwu.2	+	5	1805	c.1458C>T	c.(1456-1458)TAC>TAT	p.Y486Y	NAV1_uc001gwv.1_Translation_Start_Site|NAV1_uc001gww.1_Silent_p.Y95Y|NAV1_uc001gwx.2_Silent_p.Y95Y|NAV1_uc001gwy.1_5'Flank	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	486					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						AACTGGAGTACGACAGTGGTA	0.512													18	59					0	0	1	0	0		T	201750232	T	T	201750232	2	4	153	1	0	0	0	0	0	0	0	1	10201	547	19	1		1	NAV1	1	201750232	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	781683	201750232	47500389	143	82075											
NAV1	89796	broad.mit.edu	37	chr1	201779831	201779831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtggagcgctctggccGtgaggtcacagagggcatcg	6	7	17	11	3	2	2	1	1	1	1	3	3	2	3	2	5	1	2	2	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:201779831G>A	uc001gwu.2	+	23	5080	c.4733G>A	c.(4732-4734)CGT>CAT	p.R1578H	NAV1_uc001gwx.2_Missense_Mutation_p.R1187H	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1581					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CGCTCTGGCCGTGAGGTCACA	0.647													6	22					0	0	1	0	0		A	201779831	A	A	201779831	3	1	153	1	0	0	0	0	1	0	0	0	10201	1145	40	1	4893	1	NAV1	1	201779831	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	29599	201779831	47470790	144	82076											
TIMM17A	10440	broad.mit.edu	37	chr1	201926647	201926647	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttttgttatagggagtaaaCcacagactacgagggagttt	12	13	11	5	1	0	1	0	0	0	1	0	4	0	3	1	2	2	3	1	2	5	7	rs11555424		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:201926647C>G	uc001gxc.2	+	3	171	c.135C>G	c.(133-135)AAC>AAG	p.N45K		NM_006335	NP_006326	Q99595	TI17A_HUMAN	translocase of inner mitochondrial membrane 17	45					protein targeting to mitochondrion	integral to membrane|mitochondrial inner membrane presequence translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity				0						AGGGAGTAAACCACAGACTAC	0.363													20	90					0	0	1	0	0		G	201926647	G	G	201926647	3	3	153	1	0	0	0	0	1	0	0	0	15933	506	18	5	145	5	TIMM17A	1	201926647	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	146816	201926647	47323974	145	82077											
KDM5B	10765	broad.mit.edu	37	chr1	202710666	202710666	+	Missense_Mutation	SNP	T	G	G	0	1	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	agctggggtctaggcaagctTgctgcacctcttctagccaa	8	10	11	12	0	3	0	0	0	3	0	3	0	3	0	2	3	5	5	2	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:202710666T>G	uc001gyf.2	-	19	2890	c.2774A>C	c.(2773-2775)CAA>CCA	p.Q925P	KDM5B_uc009xag.2_Missense_Mutation_p.Q961P|KDM5B_uc001gyg.1_Missense_Mutation_p.Q767P	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	925					negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						TAGGCAAGCTTGCTGCACCTC	0.498													23	78					0	0	1	0	0		G	202710666	G	G	202710666	3	3	153	1	0	0	0	0	1	0	0	0	8150	1812	63	5	1896	5	KDM5B	1	202710666	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	784019	202710666	46539955	146	82078											
ZC3H11A	9877	broad.mit.edu	37	chr1	203821512	203821512	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctgcttgagctatcagaAatgattgatagctgaaggtg	11	13	11	6	0	2	5	1	4	1	1	2	5	2	5	0	1	3	3	0	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:203821512A>G	uc001hac.2	+	20	3034	c.2418A>G	c.(2416-2418)GAA>GAG	p.E806E	ZC3H11A_uc001had.2_Silent_p.E806E|ZC3H11A_uc001hae.2_Silent_p.E806E|ZC3H11A_uc001haf.2_Silent_p.E806E|ZC3H11A_uc010pqm.1_Silent_p.E752E	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	806							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			AGCTATCAGAAATGATTGATA	0.383													11	48					0	0	1	0	0		G	203821512	G	G	203821512	2	3	153	1	0	0	0	0	0	0	0	1	17585	11	1	3		3	ZC3H11A	1	203821512	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1110846	203821512	45429109	147	82079											
SOX13	9580	broad.mit.edu	37	chr1	204091075	204091075	+	Missense_Mutation	SNP	A	G	G	1	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	gcccccctgccccagtggtgAagaggcctggggccatggcc	5	5	15	16	0	0	2	0	1	0	1	0	2	0	2	8	5	1	0	8	5	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:204091075A>G	uc001ham.2	+	8	1418	c.823A>G	c.(823-825)AAG>GAG	p.K275E	SOX13_uc010pqp.1_Missense_Mutation_p.K274E|SOX13_uc010pqq.1_Missense_Mutation_p.K142E	NM_005686	NP_005677	Q9UN79	SOX13_HUMAN	SRY-box 13	275	Pro-rich.				anatomical structure morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			CCCAGTGGTGAAGAGGCCTGG	0.642													7	19					0	0	1	0	0		G	204091075	G	G	204091075	3	3	153	1	0	0	0	0	1	0	0	0	14969	247	9	3	849	3	SOX13	1	204091075	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	269563	204091075	45159546	148	82080											
CR2	1380	broad.mit.edu	37	chr1	207644832	207644832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccttggtttatggagattCgtctttgtaaaggtgagtag	8	17	12	4	1	1	2	0	1	1	1	3	3	2	2	1	3	0	3	1	3	4	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:207644832C>T	uc001hfw.2	+	9	1652	c.1558C>T	c.(1558-1560)CGT>TGT	p.R520C	CR2_uc001hfv.2_Missense_Mutation_p.R520C|CR2_uc009xch.2_Missense_Mutation_p.R520C|CR2_uc009xci.1_Intron	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	520	Sushi 8.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TATGGAGATTCGTCTTTGTAA	0.383													55	184					0	0	1	0	0		T	207644832	T	T	207644832	3	4	153	1	0	0	0	0	1	0	0	0	3845	884	31	1	1592	1	CR2	1	207644832	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3553757	207644832	41605789	149	82081											
LAMB3	3914	broad.mit.edu	37	chr1	209797343	209797343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcaggccctggagagttCgcctgagaagggagaggagc	9	5	18	9	1	0	3	0	1	0	3	1	7	0	4	2	4	2	3	2	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:209797343C>T	uc001hhg.2	-	14	2369	c.1979G>A	c.(1978-1980)CGA>CAA	p.R660Q	LAMB3_uc009xco.2_Missense_Mutation_p.R660Q|LAMB3_uc001hhh.2_Missense_Mutation_p.R660Q|LAMB3_uc010psl.1_RNA|hsa-mir-4260|MI0015859_5'Flank	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	660	Domain II.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CTGGAGAGTTCGCCTGAGAAG	0.532													25	66					0	0	1	0	0		T	209797343	T	T	209797343	3	4	153	1	0	0	0	0	1	0	0	0	8628	884	31	1	1575	1	LAMB3	1	209797343	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2152511	209797343	39453278	150	82082											
IRF6	3664	broad.mit.edu	37	chr1	209963054	209963054	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccaatggtttcccatctggCcattcttccccaaagcataa	10	12	5	14	0	2	0	0	0	2	0	5	0	5	0	5	2	1	2	5	2	3	4	rs121434228		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:209963054C>T	uc001hhq.1	-	8	1400	c.1137G>A	c.(1135-1137)TGG>TGA	p.W379*	IRF6_uc010psm.1_Nonsense_Mutation_p.W284*|IRF6_uc009xct.1_Nonsense_Mutation_p.W379*	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	379					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		TCCCATCTGGCCATTCTTCCC	0.458										HNSCC(57;0.16)			22	101					0	0	1	0	0		T	209963054	T	T	209963054	4	4	153	1	0	0	0	0	0	1	0	0	7850	740	26	2	274	2	IRF6	1	209963054	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	165711	209963054	39287567	151	82083											
PPP2R5A	5525	broad.mit.edu	37	chr1	212532095	212532095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatggcaagcttttcgatGaccttactagctcatacaaa	13	12	7	9	1	1	2	1	2	0	0	2	3	1	2	1	1	4	3	1	1	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:212532095G>A	uc001hjb.2	+	12	1868	c.1294G>A	c.(1294-1296)GAC>AAC	p.D432N	PPP2R5A_uc010ptd.1_Missense_Mutation_p.D373N	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B	432					negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		GCTTTTCGATGACCTTACTAG	0.343													39	124					0	0	1	0	0		A	212532095	A	A	212532095	3	1	153	1	0	0	0	0	1	0	0	0	12414	1290	45	4	1340	4	PPP2R5A	1	212532095	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2569041	212532095	36718526	152	82084											
MARK1	4139	broad.mit.edu	37	chr1	220835431	220835431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgtcacttaatggggttCgcttcaagcgaatatctggg	9	12	12	8	2	3	0	2	0	1	0	4	2	3	0	0	3	1	2	0	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:220835431C>T	uc001hmn.3	+	18	2908	c.2311C>T	c.(2311-2313)CGC>TGC	p.R771C	MARK1_uc009xdw.2_Missense_Mutation_p.R772C|MARK1_uc010pun.1_Missense_Mutation_p.R756C|MARK1_uc001hmm.3_Missense_Mutation_p.R734C	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	771	KA1.				intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		TAATGGGGTTCGCTTCAAGCG	0.428													27	87					0	0	1	0	0		T	220835431	T	T	220835431	3	4	153	1	0	0	0	0	1	0	0	0	9330	884	31	1	2381	1	MARK1	1	220835431	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8303336	220835431	28415190	153	82085											
HHIPL2	79802	broad.mit.edu	37	chr1	222716949	222716949	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactaattcggatcttttCtaccttcttcttgtccaggc	6	17	5	13	1	5	0	1	0	4	0	7	1	6	1	2	2	1	0	2	2	2	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:222716949C>A	uc001hnh.1	-	2	962	c.904G>T	c.(904-906)GAA>TAA	p.E302*		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	302					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		CGGATCTTTTCTACCTTCTTC	0.468													118	459					2.96211e-45	3.22745e-45	1	1	0		A	222716949	A	A	222716949	4	1	153	1	0	0	0	0	0	1	0	0	7110	922	32	5	1302	5	HHIPL2	1	222716949	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1881518	222716949	26533672	154	82086											
FAM177B	400823	broad.mit.edu	37	chr1	222922880	222922880	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatatcagtatgtgttaaaCgagttctataggatacaaaa	18	12	7	4	1	2	0	1	0	1	0	2	2	2	1	0	1	2	3	0	1	10	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:222922880C>T	uc001hnt.2	+	5	581	c.315C>T	c.(313-315)AAC>AAT	p.N105N	uc001hnr.1_Intron|FAM177B_uc009xeb.2_RNA	NM_207468	NP_997351	A6PVY3	F177B_HUMAN	hypothetical protein LOC400823	105										ovary(1)	1						ATGTGTTAAACGAGTTCTATA	0.403													22	108					0	0	1	0	0		T	222922880	T	T	222922880	2	4	153	1	0	0	0	0	0	0	0	1	5513	535	19	1		1	FAM177B	1	222922880	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	205931	222922880	26327741	155	82087											
H3F3A	3020	broad.mit.edu	37	chr1	226259158	226259158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacatccagctagcacgccGcatacgtggagaacgtgctt	11	7	11	12	4	0	2	0	0	0	2	1	3	1	2	2	1	5	4	2	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:226259158G>A	uc001hpw.2	+	4	504	c.389G>A	c.(388-390)CGC>CAC	p.R130H		NM_005324	NP_005315	P84243	H33_HUMAN	H3 histone, family 3B	130					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding				0	Breast(184;0.179)			GBM - Glioblastoma multiforme(131;0.203)		CTAGCACGCCGCATACGTGGA	0.403													9	21					0	0	1	0	0		A	226259158	A	A	226259158	3	1	153	1	0	0	0	0	1	0	0	0	6949	1087	38	1	399	1	H3F3A	1	226259158	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3336278	226259158	22991463	156	82088											
ITPKB	3707	broad.mit.edu	37	chr1	226924312	226924312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaggcagctccgagttcccGgggtaggagagccccttttg	6	9	14	12	2	0	1	0	0	0	1	2	3	2	1	4	4	2	4	4	4	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:226924312G>A	uc010pvo.1	-	2	1188	c.848C>T	c.(847-849)CCG>CTG	p.P283L	ITPKB_uc001hqh.2_Missense_Mutation_p.P283L	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	283							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				CCGAGTTCCCGGGGTAGGAGA	0.582													33	73					0	0	1	0	0		A	226924312	A	A	226924312	3	1	153	1	0	0	0	0	1	0	0	0	7934	1116	39	1	2020	1	ITPKB	1	226924312	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	665154	226924312	22326309	157	82089											
GJC2	57165	broad.mit.edu	37	chr1	228345575	228345575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtcttccgcatcgtgctgaCggctgtgggcggcgaggcca	4	8	17	12	5	1	1	0	1	1	0	3	2	2	1	2	5	1	3	2	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:228345575C>T	uc001hsk.2	+	2	291	c.116C>T	c.(115-117)ACG>ATG	p.T39M		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	39	Helical; (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				ATCGTGCTGACGGCTGTGGGC	0.637													5	14					0	0	1	0	0		T	228345575	T	T	228345575	3	4	153	1	0	0	0	0	1	0	0	0	6430	536	19	1	118	1	GJC2	1	228345575	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1421263	228345575	20905046	158	82090											
OBSCN	84033	broad.mit.edu	37	chr1	228466411	228466411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccagtgaccctcgtgcGcccgctgcgggacaagattg	6	7	14	14	4	0	2	0	1	0	1	1	3	0	3	3	1	3	2	3	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:228466411G>A	uc009xez.1	+	26	6925	c.6881G>A	c.(6880-6882)CGC>CAC	p.R2294H	OBSCN_uc001hsn.2_Missense_Mutation_p.R2294H|OBSCN_uc001hsp.1_5'UTR|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2294	Ig-like 23.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ACCCTCGTGCGCCCGCTGCGG	0.662													10	29					0	0	1	0	0		A	228466411	A	A	228466411	3	1	153	1	0	0	0	0	1	0	0	0	10831	1087	38	1	6979	1	OBSCN	1	228466411	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	120836	228466411	20784210	159	82091											
OBSCN	84033	broad.mit.edu	37	chr1	228480371	228480371	+	Missense_Mutation	SNP	T	C	C	0	1	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	agatggggacagatacagccTgaggcaggacgggactaaat	14	5	15	7	1	0	3	0	1	0	2	0	6	0	6	1	5	2	1	1	5	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:228480371T>C	uc009xez.1	+	40	10795	c.10751T>C	c.(10750-10752)CTG>CCG	p.L3584P	OBSCN_uc001hsn.2_Missense_Mutation_p.L3584P|OBSCN_uc001hsq.1_Missense_Mutation_p.L840P	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3584	Ig-like 36.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGATACAGCCTGAGGCAGGAC	0.607													48	102					0	0	1	0	0		C	228480371	C	C	228480371	3	2	153	1	0	0	0	0	1	0	0	0	10831	1580	55	3	10905	3	OBSCN	1	228480371	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	13960	228480371	20770250	160	82092											
OBSCN	84033	broad.mit.edu	37	chr1	228505745	228505745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgcatccagcccggtgggCggttcgaggtggtctcccag	5	7	16	13	4	1	0	0	0	1	0	4	1	2	0	3	5	2	2	3	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:228505745C>T	uc009xez.1	+	53	14046	c.14002C>T	c.(14002-14004)CGG>TGG	p.R4668W	OBSCN_uc001hsn.2_Missense_Mutation_p.R4668W	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4668	Ig-like 47.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCCCGGTGGGCGGTTCGAGGT	0.627													15	61					0	0	1	0	0		T	228505745	T	T	228505745	3	4	153	1	0	0	0	0	1	0	0	0	10831	759	27	1	14208	1	OBSCN	1	228505745	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	25374	228505745	20744876	161	82093											
NUP133	55746	broad.mit.edu	37	chr1	229606455	229606455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggttcttgagaacaatggCggctgacagcttttcggcat	8	12	13	8	2	1	2	0	2	1	1	2	3	1	2	0	4	2	4	0	4	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:229606455C>T	uc001htn.2	-	15	2040	c.1948G>A	c.(1948-1950)GCC>ACC	p.A650T		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	650					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				AGAACAATGGCGGCTGACAGC	0.498													16	53					0	0	1	0	0		T	229606455	T	T	229606455	3	4	153	1	0	0	0	0	1	0	0	0	10773	768	27	1	1570	1	NUP133	1	229606455	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1100710	229606455	19644166	162	82094											
SIPA1L2	57568	broad.mit.edu	37	chr1	232650507	232650507	+	Silent	SNP	T	C	C	0	1	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	ctgtcgatggatgaagtactTccatactccctgtgcagggc	8	11	11	11	1	0	1	0	1	0	0	3	3	2	2	2	2	3	2	2	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:232650507T>C	uc001hvg.2	-	1	737	c.579A>G	c.(577-579)GGA>GGG	p.G193G		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	193					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				ATGAAGTACTTCCATACTCCC	0.468													56	181					0	0	1	0	0		C	232650507	C	C	232650507	2	2	153	1	0	0	0	0	0	0	0	1	14355	1770	62	3		3	SIPA1L2	1	232650507	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3044052	232650507	16600114	163	82095											
KCNK1	3775	broad.mit.edu	37	chr1	233802452	233802452	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacggctgtggtccagcgcaTcaccgtgcacgtcacccgca	7	6	12	16	5	2	0	2	0	0	0	3	1	3	0	3	2	2	4	3	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:233802452T>C	uc010pxo.1	+	2	635	c.467T>C	c.(466-468)ATC>ACC	p.I156T	KCNK1_uc001hvw.2_RNA|KCNK1_uc001hvx.2_RNA	NM_002245	NP_002236	O00180	KCNK1_HUMAN	potassium channel, subfamily K, member 1	156	Cytoplasmic (Potential).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			central_nervous_system(1)	1		all_cancers(173;0.00217)|all_epithelial(177;0.121)|Prostate(94;0.122)|Acute lymphoblastic leukemia(190;0.175)			Ibutilide(DB00308)|Quinidine(DB00908)	GTCCAGCGCATCACCGTGCAC	0.602													13	36					0	0	1	0	0		C	233802452	C	C	233802452	3	2	153	1	0	0	0	0	1	0	0	0	8074	1435	50	3	473	3	KCNK1	1	233802452	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1151945	233802452	15448169	164	82096											
NID1	4811	broad.mit.edu	37	chr1	236189283	236189283	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacacgctgtccaccgagaGctgctgggtgctgggcaggg	7	6	17	11	2	0	1	0	0	0	1	1	3	1	1	2	3	4	5	2	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:236189283G>T	uc001hxo.2	-	8	1999	c.1897C>A	c.(1897-1899)CTC>ATC	p.L633I	NID1_uc009xgd.2_Missense_Mutation_p.L633I	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	633	Nidogen G2 beta-barrel.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	TCCACCGAGAGCTGCTGGGTG	0.582													49	199					2.24722e-20	2.41186e-20	1	1	0		T	236189283	T	T	236189283	3	4	153	1	0	0	0	0	1	0	0	0	10433	971	34	5	1898	5	NID1	1	236189283	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2386831	236189283	13061338	165	82097											
GPR137B	7107	broad.mit.edu	37	chr1	236371377	236371377	+	Silent	SNP	A	G	G	1	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	ccagattactatgattggggAcaacaaactaacagcttcct	14	10	7	10	0	0	2	0	1	0	1	1	3	1	3	2	2	5	1	2	2	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:236371377A>G	uc001hxq.2	+	7	1210	c.1119A>G	c.(1117-1119)GGA>GGG	p.G373G	GPR137B_uc001hxr.1_3'UTR|GPR137B_uc009xge.2_RNA	NM_003272	NP_003263	O60478	G137B_HUMAN	G protein-coupled receptor 137B	373	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.197)|Prostate(94;0.219)|Acute lymphoblastic leukemia(190;0.226)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			ATGATTGGGGACAACAAACTA	0.358													17	93					0	0	1	0	0		G	236371377	G	G	236371377	2	3	153	1	0	0	0	0	0	0	0	1	6661	262	10	3		3	GPR137B	1	236371377	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	182094	236371377	12879244	166	82098											
HEATR1	55127	broad.mit.edu	37	chr1	236719118	236719118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcttacctcagagtgctggGctcggaagtccagggcttcc	7	9	13	12	1	1	1	1	0	0	1	4	2	3	2	3	3	3	4	3	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:236719118G>A	uc001hyd.1	-	39	5761	c.5636C>T	c.(5635-5637)GCC>GTC	p.A1879V	HEATR1_uc009xgh.1_Missense_Mutation_p.A1041V	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1879					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			AGAGTGCTGGGCTCGGAAGTC	0.498													71	174					0	0	1	0	0		A	236719118	A	A	236719118	3	1	153	1	0	0	0	0	1	0	0	0	7043	1203	42	2	826	2	HEATR1	1	236719118	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	347741	236719118	12531503	167	82099											
HEATR1	55127	broad.mit.edu	37	chr1	236721561	236721561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgggggatggccagcGcctccagggtggaggtcacc	7	5	18	11	1	1	0	1	0	0	0	2	3	2	2	4	6	2	1	4	6	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:236721561G>A	uc001hyd.1	-	36	5305	c.5180C>T	c.(5179-5181)GCG>GTG	p.A1727V	HEATR1_uc009xgh.1_Missense_Mutation_p.A889V	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1727					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GATGGCCAGCGCCTCCAGGGT	0.542													30	106					0	0	1	0	0		A	236721561	A	A	236721561	3	1	153	1	0	0	0	0	1	0	0	0	7043	1087	38	1	1294	1	HEATR1	1	236721561	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2443	236721561	12529060	168	82100											
ACTN2	88	broad.mit.edu	37	chr1	236925802	236925802	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgtcgggagctgcccccGgatcaggcccagtactgcat	6	7	13	15	3	1	0	1	0	0	0	2	2	1	2	3	3	5	3	3	3	1	1	rs149554430		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:236925802G>A	uc001hyf.2	+	21	2772	c.2568G>A	c.(2566-2568)CCG>CCA	p.P856P	ACTN2_uc001hyg.2_Silent_p.P648P|ACTN2_uc009xgi.1_Silent_p.P856P|ACTN2_uc010pxu.1_Silent_p.P545P|ACTN2_uc001hyh.2_Silent_p.P544P	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	856					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			AGCTGCCCCCGGATCAGGCCC	0.572													17	67					0	0	1	0	0		A	236925802	A	A	236925802	2	1	153	1	0	0	0	0	0	0	0	1	205	1103	39	1		1	ACTN2	1	236925802	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	204241	236925802	12324819	169	82101											
FMN2	56776	broad.mit.edu	37	chr1	240255930	240255930	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggggcgcaggatggacaaaGgaccagctcgggctcggaca	11	3	17	10	3	0	0	0	0	0	0	2	4	0	4	1	7	1	3	1	7	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:240255930G>T	uc010pyd.1	+	1	746	c.521G>T	c.(520-522)AGG>ATG	p.R174M	FMN2_uc010pye.1_Missense_Mutation_p.R174M	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	174					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GATGGACAAAGGACCAGCTCG	0.617													5	23					0.217242	0.217785	1	1	0		T	240255930	T	T	240255930	3	4	153	1	0	0	0	0	1	0	0	0	5964	1000	35	5	523	5	FMN2	1	240255930	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3330128	240255930	8994691	170	82102											
FMN2	56776	broad.mit.edu	37	chr1	240370992	240370992	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctccgccccctcttccCggggcaggcataccccttcc	3	7	7	24	2	1	0	0	0	1	0	4	0	4	0	9	3	1	2	9	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:240370992C>T	uc010pyd.1	+	5	3105	c.2880C>T	c.(2878-2880)CCC>CCT	p.P960P	FMN2_uc010pye.1_Silent_p.P964P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	960	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCCCTCTTCCCGGGGCAGGCA	0.697													6	26					0	0	1	0	0		T	240370992	T	T	240370992	2	4	153	1	0	0	0	0	0	0	0	1	5964	639	23	1		1	FMN2	1	240370992	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	115062	240370992	8879629	171	82103											
CEP170	9859	broad.mit.edu	37	chr1	243289821	243289821	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgaaatgtatactgaaatcaGcctcagattcagcattctca	14	12	6	9	0	4	3	4	2	1	1	5	3	4	3	1	0	3	2	1	0	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:243289821G>A	uc001hzs.2	-	20	5093	c.4685C>T	c.(4684-4686)GCT>GTT	p.A1562V	CEP170_uc001hzt.2_Missense_Mutation_p.A1438V|CEP170_uc001hzu.2_Missense_Mutation_p.A1464V|CEP170_uc001hzr.2_Missense_Mutation_p.A151V|CEP170_uc001hzv.1_Intron	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	1562	Targeting to microtubules.|Targeting to centrosomes.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			ACTGAAATCAGCCTCAGATTC	0.448													7	18					0	0	1	0	0		A	243289821	A	A	243289821	3	1	153	1	0	0	0	0	1	0	0	0	3253	971	34	2	73	2	CEP170	1	243289821	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2918829	243289821	5960800	172	82104											
KIF26B	55083	broad.mit.edu	37	chr1	245849899	245849899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagcggggtcctggacagcgGccgccccaccagcatcatca	8	4	12	17	3	2	0	2	0	0	0	3	1	3	1	5	4	3	1	5	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:245849899G>A	uc001ibf.1	+	12	4054	c.3614G>A	c.(3613-3615)GGC>GAC	p.G1205D	KIF26B_uc001ibg.1_Missense_Mutation_p.G823D|KIF26B_uc001ibh.1_Missense_Mutation_p.G447D	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1205					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CTGGACAGCGGCCGCCCCACC	0.657													5	9					0	0	1	0	0		A	245849899	A	A	245849899	3	1	153	1	0	0	0	0	1	0	0	0	8311	1203	42	2	3660	2	KIF26B	1	245849899	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2560078	245849899	3400722	173	82105											
TFB2M	64216	broad.mit.edu	37	chr1	246729434	246729434	+	Missense_Mutation	SNP	T	A	A	0	1	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	aggaagcccgaccactgggaTccacatgtccttgtctctca	9	9	9	14	1	2	0	1	0	1	0	5	3	4	2	4	2	1	0	4	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:246729434T>A	uc001ibn.2	-	1	132	c.7A>T	c.(7-9)ATC>TTC	p.I3F	CNST_uc001ibo.3_5'Flank|CNST_uc001ibp.2_5'Flank|TFB2M_uc010pys.1_RNA	NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	3					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			ACCACTGGGATCCACATGTCC	0.587													6	30					0	0	1	0	0		A	246729434	A	A	246729434	3	1	153	1	0	0	0	0	1	0	0	0	15819	1435	50	5	1215	5	TFB2M	1	246729434	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	879535	246729434	2521187	174	82106											
CNST	163882	broad.mit.edu	37	chr1	246823624	246823624	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattccaagaaatagacgatAgcttggatcaaggtaaaccg	16	8	10	7	2	1	2	1	0	0	2	2	5	2	3	2	2	2	2	2	2	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:246823624A>G	uc001ibp.2	+	10	2338	c.1960A>G	c.(1960-1962)AGC>GGC	p.S654G		NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	654					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						AATAGACGATAGCTTGGATCA	0.423													50	122					0	0	1	0	0		G	246823624	G	G	246823624	3	3	153	1	0	0	0	0	1	0	0	0	3637	420	15	3	2009	3	CNST	1	246823624	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	94190	246823624	2426997	175	82107											
OR6F1	343169	broad.mit.edu	37	chr1	247875954	247875954	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccactaactgtgaggatgTacatcaccagaaaaagcata	17	8	7	9	0	1	2	1	1	0	1	1	3	1	3	2	1	4	2	2	1	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr1:247875954T>C	uc001idj.1	-	1	104	c.104A>G	c.(103-105)TAC>TGC	p.Y35C		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TGTGAGGATGTACATCACCAG	0.468													44	145					0	0	1	0	0		C	247875954	C	C	247875954	3	2	153	1	0	0	0	0	1	0	0	0	11220	1638	57	3	826	3	OR6F1	1	247875954	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1052330	247875954	1374667	176	82108											
PXDN	7837	broad.mit.edu	37	chr2	1653400	1653400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtacagcccgacaggtttgCgatgaggttcaggtactgtg	8	10	15	8	2	1	1	1	1	0	0	1	3	1	1	1	4	4	4	1	4	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:1653400C>T	uc002qxa.2	-	17	2216	c.2152G>A	c.(2152-2154)GCA>ACA	p.A718T		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	718					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GACAGGTTTGCGATGAGGTTC	0.572													23	61					0	0	1	0	0		T	1653400	T	T	1653400	3	4	153	1	0	0	0	0	1	0	0	0	12872	768	27	1	2315	1	PXDN	2	1653400	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		1653400	241545973	177	82109											
TTC15	51112	broad.mit.edu	37	chr2	3481504	3481504	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctgaaaagtattttcaagaCgttgagaaagtaacacagaa	18	9	9	5	1	1	4	1	2	0	3	1	5	1	4	0	0	1	4	0	0	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:3481504C>T	uc002qxm.1	+	10	2021	c.1815C>T	c.(1813-1815)GAC>GAT	p.D605D	TTC15_uc002qxn.1_Silent_p.D605D|TTC15_uc010ewm.1_Silent_p.D611D	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	605	TPR 2.						binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		ATTTTCAAGACGTTGAGAAAG	0.274													19	52					0	0	1	0	0		T	3481504	T	T	3481504	2	4	153	1	0	0	0	0	0	0	0	1	16708	535	19	1		1	TTC15	2	3481504	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1828104	3481504	239717869	178	82110											
IAH1	285148	broad.mit.edu	37	chr2	9628371	9628371	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgatagagaaaaaggtCtcttctctacctttgctgct	9	15	7	10	0	2	2	0	1	2	1	4	3	2	2	2	1	3	2	2	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:9628371C>A	uc002qzr.2	+	6	686	c.660C>A	c.(658-660)GTC>GTA	p.V220V	IAH1_uc002qzs.2_Silent_p.V107V|IAH1_uc002qzt.2_Silent_p.V107V|IAH1_uc010yiz.1_RNA	NM_001039613	NP_001034702	Q2TAA2	IAH1_HUMAN	isoamyl acetate-hydrolyzing esterase 1 homolog	220					lipid catabolic process		hydrolase activity, acting on ester bonds				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AGAAAAAGGTCTCTTCTCTAC	0.433													34	105					3.21399e-22	3.468e-22	1	1	0		A	9628371	A	A	9628371	2	1	153	1	0	0	0	0	0	0	0	1	7487	900	32	5		5	IAH1	2	9628371	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6146867	9628371	233571002	179	82111											
GRHL1	29841	broad.mit.edu	37	chr2	10140825	10140825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcttacaagctcaccctgaCggagatctaaaggcctgcgg	10	8	11	12	2	3	2	1	1	2	1	3	3	3	2	2	3	3	1	2	3	4	2	rs143356570		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:10140825C>T	uc002raa.2	+	16	2018	c.1847C>T	c.(1846-1848)ACG>ATG	p.T616M	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Missense_Mutation_p.T427M|GRHL1_uc010yjb.1_Missense_Mutation_p.T465M	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	616					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		CTCACCCTGACGGAGATCTAA	0.537													38	103					0	0	1	0	0		T	10140825	T	T	10140825	3	4	153	1	0	0	0	0	1	0	0	0	6779	536	19	1	1909	1	GRHL1	2	10140825	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	512454	10140825	233058548	180	82112											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10908887	10908887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgaagtcccgaacggccGcctacaacactctgaagaca	13	5	8	15	3	1	3	0	2	1	1	2	4	2	3	4	1	3	0	4	1	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:10908887G>A	uc002ras.2	+	6	530	c.421G>A	c.(421-423)GCC>ACC	p.A141T	ATP6V1C2_uc002rat.2_Missense_Mutation_p.A141T	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	141					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		CCGAACGGCCGCCTACAACAC	0.557													5	71					0	0	1	0	0		A	10908887	A	A	10908887	3	1	153	1	0	0	0	0	1	0	0	0	1182	1087	38	1	439	1	ATP6V1C2	2	10908887	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	768062	10908887	232290486	181	82113											
KCNF1	3754	broad.mit.edu	37	chr2	11053802	11053802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtactacaacaagcagcGcgtcctggagaccgcggcca	11	4	12	14	4	0	1	0	0	0	1	1	2	1	1	3	3	5	2	3	3	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:11053802G>A	uc002rax.2	+	1	1740	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	417	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		AACAAGCAGCGCGTCCTGGAG	0.617													12	30					0	0	1	0	0		A	11053802	A	A	11053802	3	1	153	1	0	0	0	0	1	0	0	0	8042	1087	38	1	1252	1	KCNF1	2	11053802	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	144915	11053802	232145571	182	82114											
LPIN1	23175	broad.mit.edu	37	chr2	11923961	11923961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttgccgttttagataaacGaagccgacatcttggtgctg	10	13	10	8	3	1	1	0	0	1	1	1	3	1	1	2	1	4	2	2	1	4	5	rs115521500	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:11923961G>A	uc010yjn.1	+	9	1437	c.1163G>A	c.(1162-1164)CGA>CAA	p.R388Q	LPIN1_uc010yjm.1_Missense_Mutation_p.R473Q|LPIN1_uc002rbt.2_Missense_Mutation_p.R388Q|LPIN1_uc002rbs.2_Missense_Mutation_p.R424Q	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	388					fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		TTAGATAAACGAAGCCGACAT	0.438													96	282					0	0	1	0	0		A	11923961	A	A	11923961	3	1	153	1	0	0	0	0	1	0	0	0	8936	1058	37	1	1189	1	LPIN1	2	11923961	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	870159	11923961	231275412	183	82115											
NBAS	51594	broad.mit.edu	37	chr2	15307394	15307394	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagacacacttcaccagcagCttggcatccaggagcaggga	12	5	12	12	0	1	1	1	0	0	1	2	4	2	3	2	3	3	4	2	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:15307394C>T	uc002rcc.1	-	52	6920	c.6894G>A	c.(6892-6894)AAG>AAA	p.K2298K	NBAS_uc002rcb.1_Silent_p.K138K|NBAS_uc010exl.1_Silent_p.K1370K|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	2298										ovary(2)|liver(1)|skin(1)	4						TCACCAGCAGCTTGGCATCCA	0.522													4	61					0	0	1	0	0		T	15307394	T	T	15307394	2	4	153	1	0	0	0	0	0	0	0	1	10204	796	28	2		2	NBAS	2	15307394	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3383433	15307394	227891979	184	82116											
NBAS	51594	broad.mit.edu	37	chr2	15432888	15432888	+	Silent	SNP	A	G	G	1	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	ttgattagttctttgggatcAgcctatgaaagacatggaaa	13	13	10	5	0	2	3	1	2	1	1	2	5	2	5	1	2	1	1	1	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:15432888A>G	uc002rcc.1	-	41	4826	c.4800T>C	c.(4798-4800)GCT>GCC	p.A1600A	NBAS_uc010exl.1_Silent_p.A672A|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1600										ovary(2)|liver(1)|skin(1)	4						CTTTGGGATCAGCCTATGAAA	0.433													26	84					0	0	1	0	0		G	15432888	G	G	15432888	2	3	153	1	0	0	0	0	0	0	0	1	10204	175	7	3		3	NBAS	2	15432888	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	125494	15432888	227766485	185	82117											
GEN1	348654	broad.mit.edu	37	chr2	17941286	17941286	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcgtaatcttggtgggaaaAccattgcagttgatctgagt	10	13	12	6	1	2	2	0	2	2	0	2	3	2	3	1	2	3	3	1	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:17941286A>C	uc002rct.2	+	2	149	c.76A>C	c.(76-78)ACC>CCC	p.T26P	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.T26P|GEN1_uc002rcu.2_Missense_Mutation_p.T26P	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	26	N-domain.				DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TGGTGGGAAAACCATTGCAGT	0.463								Homologous_recombination					45	134					0	0	1	0	0		C	17941286	C	C	17941286	3	2	153	1	0	0	0	0	1	0	0	0	6350	43	2	5	78	5	GEN1	2	17941286	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2508398	17941286	225258087	186	82118											
GEN1	348654	broad.mit.edu	37	chr2	17961961	17961961	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtcacacatgactttaaaAcccacatgtgaaatctttca	15	11	4	11	0	3	2	2	2	1	0	3	2	3	2	1	0	1	0	1	0	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:17961961A>C	uc002rct.2	+	14	1555	c.1482A>C	c.(1480-1482)AAA>AAC	p.K494N	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.K494N|GEN1_uc002rcu.2_Missense_Mutation_p.K494N	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	494					DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TGACTTTAAAACCCACATGTG	0.343								Homologous_recombination					38	108					0	0	1	0	0		C	17961961	C	C	17961961	3	2	153	1	0	0	0	0	1	0	0	0	6350	40	2	5	1532	5	GEN1	2	17961961	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	20675	17961961	225237412	187	82119											
APOB	338	broad.mit.edu	37	chr2	21233212	21233212	+	Silent	SNP	T	C	C	0	1	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	tgatcaaattgtatcatataTgtctgcagttgagatagttt	12	17	8	4	0	3	2	2	2	1	1	3	3	3	2	0	0	1	4	0	0	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:21233212T>C	uc002red.2	-	26	6656	c.6528A>G	c.(6526-6528)ACA>ACG	p.T2176T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2176	Heparin-binding.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GTATCATATATGTCTGCAGTT	0.244													24	68					0	0	1	0	0		C	21233212	C	C	21233212	2	2	153	1	0	0	0	0	0	0	0	1	785	1451	51	3		3	APOB	2	21233212	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3271251	21233212	221966161	188	82120											
APOB	338	broad.mit.edu	37	chr2	21235467	21235467	+	Missense_Mutation	SNP	A	G	G	1	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	tagaaatttgtggcgtagagAcccatcatatgatagtgtga	13	12	11	5	1	1	4	1	2	0	2	1	5	1	4	1	1	0	1	1	1	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:21235467A>G	uc002red.2	-	26	4401	c.4273T>C	c.(4273-4275)TCT>CCT	p.S1425P		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1425					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGGCGTAGAGACCCATCATAT	0.338													29	124					0	0	1	0	0		G	21235467	G	G	21235467	3	3	153	1	0	0	0	0	1	0	0	0	785	275	10	3	9434	3	APOB	2	21235467	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2255	21235467	221963906	189	82121											
OTOF	9381	broad.mit.edu	37	chr2	26693574	26693574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttcttcttcttcttcttctCcttctcctcctcagcctgca	2	19	2	18	0	8	0	1	0	7	0	11	0	9	0	4	0	2	1	4	0	0	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:26693574C>T	uc002rhk.2	-	32	4037	c.3910G>A	c.(3910-3912)GAG>AAG	p.E1304K	OTOF_uc010yla.1_Missense_Mutation_p.E34K|OTOF_uc002rhh.2_Missense_Mutation_p.E537K|OTOF_uc002rhi.2_Missense_Mutation_p.E614K|OTOF_uc002rhj.2_Missense_Mutation_p.E537K	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1304	Cytoplasmic (Potential).|Poly-Lys.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ttcttcttctccttctcctcc	0.512													19	52					0	0	1	0	0		T	26693574	T	T	26693574	3	4	153	1	0	0	0	0	1	0	0	0	11322	864	30	4	2328	4	OTOF	2	26693574	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5458107	26693574	216505799	190	82122											
OTOF	9381	broad.mit.edu	37	chr2	26696092	26696092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagcccaccagtgtgtagCgaccgaaggcccggcagtcc	8	4	15	14	3	0	0	0	0	0	0	1	3	1	1	5	3	2	2	5	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:26696092C>T	uc002rhk.2	-	29	3768	c.3641G>A	c.(3640-3642)CGC>CAC	p.R1214H	OTOF_uc010yla.1_5'UTR|OTOF_uc002rhh.2_Missense_Mutation_p.R467H|OTOF_uc002rhi.2_Missense_Mutation_p.R524H|OTOF_uc002rhj.2_Missense_Mutation_p.R467H	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1214	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CAGTGTGTAGCGACCGAAGGC	0.672													9	30					0	0	1	0	0		T	26696092	T	T	26696092	3	4	153	1	0	0	0	0	1	0	0	0	11322	768	27	1	2609	1	OTOF	2	26696092	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2518	26696092	216503281	191	82123											
SLC30A3	7781	broad.mit.edu	37	chr2	27481120	27481120	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcatgctgcccacatcCgccagcaagtgggctgcatc	8	7	9	17	1	1	0	1	0	0	0	3	0	2	0	4	1	4	4	4	1	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:27481120C>A	uc002rjk.2	-	3	519	c.333G>T	c.(331-333)GCG>GCT	p.A111A	SLC30A3_uc002rjj.2_5'UTR|SLC30A3_uc010ylh.1_Silent_p.A106A	NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),	111	Helical; (Potential).				regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCCCACATCCGCCAGCAAGT	0.582													10	31					3.86212e-05	3.96282e-05	1	1	0		A	27481120	A	A	27481120	2	1	153	1	0	0	0	0	0	0	0	1	14581	639	23	5		5	SLC30A3	2	27481120	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	785028	27481120	215718253	192	82124											
GPN1	11321	broad.mit.edu	37	chr2	27851977	27851977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aggcttctgggggtccgcggCacccagtgtgtctgttggtg	3	11	17	10	2	2	0	0	0	2	0	3	0	3	0	2	5	0	3	2	5	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:27851977C>T	uc010ymc.1	+	1	115	c.94C>T	c.(94-96)CAC>TAC	p.H32Y	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_5'Flank|CCDC121_uc002rld.2_5'Flank|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Intron|GPN1_uc010yma.1_Intron|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_5'UTR|GPN1_uc010yme.1_Missense_Mutation_p.H32Y|GPN1_uc010ezg.1_5'Flank	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	18						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						GGGTCCGCGGCACCCAGTGTG	0.617													6	44					0	0	1	0	0		T	27851977	T	T	27851977	3	4	153	1	0	0	0	0	1	0	0	0	6632	710	25	2	107	2	GPN1	2	27851977	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	370857	27851977	215347396	193	82125											
FOSL2	2355	broad.mit.edu	37	chr2	28627079	28627079	+	Missense_Mutation	SNP	A	G	G	1	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	tggtgcagcccacagtgatcAcctccatgtccaacccatac	10	8	7	16	0	1	1	1	1	0	0	3	1	3	1	5	1	4	1	5	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:28627079A>G	uc002rma.2	+	2	1017	c.208A>G	c.(208-210)ACC>GCC	p.T70A	FOSL2_uc010ymi.1_Missense_Mutation_p.T31A	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	70					cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					CACAGTGATCACCTCCATGTC	0.632													21	70					0	0	1	0	0		G	28627079	G	G	28627079	3	3	153	1	0	0	0	0	1	0	0	0	6002	159	6	3	214	3	FOSL2	2	28627079	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	775102	28627079	214572294	194	82126											
TRMT61B	55006	broad.mit.edu	37	chr2	29083987	29083987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgttagaaaacttactgcGtcaaatgttaaagattttat	15	14	6	6	2	1	2	1	0	0	2	1	2	1	2	0	0	3	2	0	0	8	5	rs145705706		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:29083987G>A	uc002rmm.2	-	3	1022	c.990C>T	c.(988-990)GAC>GAT	p.D330D	TRMT61B_uc002rmn.2_Silent_p.D330D|TRMT61B_uc010ezk.2_RNA	NM_017910	NP_060380	Q9BVS5	TR61B_HUMAN	tRNA methyltransferase 61 homolog B	330							tRNA (adenine-N1-)-methyltransferase activity				0						AACTTACTGCGTCAAATGTTA	0.388													30	101					0	0	1	0	0		A	29083987	A	A	29083987	2	1	153	1	0	0	0	0	0	0	0	1	16596	1136	40	1		1	TRMT61B	2	29083987	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	456908	29083987	214115386	195	82127											
CAPN13	92291	broad.mit.edu	37	chr2	30987098	30987098	+	Missense_Mutation	SNP	A	G	G	1	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	agtgcagatggatgttggtgAtcacgcctcctgtgaggtcc	7	11	14	9	1	1	3	1	2	0	1	3	4	3	4	3	3	1	2	3	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:30987098A>G	uc002rnn.2	-	6	775	c.599T>C	c.(598-600)ATC>ACC	p.I200T	CAPN13_uc002rnp.1_Missense_Mutation_p.I200T	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	200	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					GATGTTGGTGATCACGCCTCC	0.582													7	28					0	0	1	0	0		G	30987098	G	G	30987098	3	3	153	1	0	0	0	0	1	0	0	0	2629	333	12	3	1478	3	CAPN13	2	30987098	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1903111	30987098	212212275	196	82128											
CRIM1	51232	broad.mit.edu	37	chr2	36704126	36704126	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttctgtcgatgccaagggggCgttgccatctgcttcaccgc	5	11	12	13	3	3	0	1	0	2	0	4	1	3	0	3	2	3	2	3	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:36704126C>T	uc002rpd.2	+	6	1125	c.1086C>T	c.(1084-1086)GGC>GGT	p.G362G		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	362	VWFC 1.|Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GCCAAGGGGGCGTTGCCATCT	0.493													50	142					0	0	1	0	0		T	36704126	T	T	36704126	2	4	153	1	0	0	0	0	0	0	0	1	3876	755	27	1		1	CRIM1	2	36704126	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5717028	36704126	206495247	197	82129											
VIT	5212	broad.mit.edu	37	chr2	37035710	37035710	+	Silent	SNP	C	T	T	0	0	0	1	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	ctggtgaagcgggtctgcgaCactgaccgcctggcctgcag	6	7	15	13	3	1	2	0	2	1	0	1	3	1	2	3	3	3	1	3	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:37035710C>T	uc002rpl.2	+	15	1706	c.1485C>T	c.(1483-1485)GAC>GAT	p.D495D	VIT_uc002rpm.2_Silent_p.D473D|VIT_uc010ezv.2_Silent_p.D451D|VIT_uc010ezw.2_Silent_p.D452D	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	480						proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				GGGTCTGCGACACTGACCGCC	0.617													12	44					0	0	1	0	0		T	37035710	T	T	37035710	2	4	153	1	0	0	0	0	0	0	0	1	17197	477	17	4		4	VIT	2	37035710	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	331584	37035710	206163663	198	82130											
THUMPD2	80745	broad.mit.edu	37	chr2	39964026	39964026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcttcgaatgaagttgacGctgtcttgaatgcaccagtt	9	13	11	8	2	1	3	0	3	1	0	2	4	1	3	1	1	1	5	1	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:39964026G>A	uc002rru.2	-	10	1398	c.1361C>T	c.(1360-1362)GCG>GTG	p.A454V	THUMPD2_uc002rrv.2_RNA|THUMPD2_uc010ynt.1_Missense_Mutation_p.A345V	NM_025264	NP_079540	Q9BTF0	THUM2_HUMAN	THUMP domain containing 2	454							methyltransferase activity			skin(1)	1		all_hematologic(82;0.248)				TGAAGTTGACGCTGTCTTGAA	0.423													62	241					0	0	1	0	0		A	39964026	A	A	39964026	3	1	153	1	0	0	0	0	1	0	0	0	15908	1087	38	1	154	1	THUMPD2	2	39964026	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2928316	39964026	203235347	199	82131											
ABCG8	64241	broad.mit.edu	37	chr2	44099366	44099366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttctgcctcccagcagcGtgaccccactagacaccaac	10	7	6	18	1	2	2	0	1	2	1	3	2	3	2	5	0	4	1	5	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:44099366G>A	uc002rtq.2	+	8	1222	c.1132G>A	c.(1132-1134)GTG>ATG	p.V378M	ABCG8_uc010yoa.1_Missense_Mutation_p.V377M	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	378	Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TCCCAGCAGCGTGACCCCACT	0.572													17	59					0	0	1	0	0		A	44099366	A	A	44099366	3	1	153	1	0	0	0	0	1	0	0	0	72	1145	40	1	1162	1	ABCG8	2	44099366	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4135340	44099366	199100007	200	82132											
SIX3	6496	broad.mit.edu	37	chr2	45169972	45169972	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgaactggcgcaggccacCggcctcactcccacacaagt	9	4	10	18	4	1	0	1	0	0	0	2	1	2	0	4	3	1	1	4	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:45169972C>T	uc002run.1	+	1	936	c.729C>T	c.(727-729)ACC>ACT	p.T243T		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	243	Homeobox.				visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CGCAGGCCACCGGCCTCACTC	0.662													10	27					0	0	1	0	0		T	45169972	T	T	45169972	2	4	153	1	0	0	0	0	0	0	0	1	14373	639	23	1		1	SIX3	2	45169972	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1070606	45169972	198029401	201	82133											
PRKCE	5581	broad.mit.edu	37	chr2	45879393	45879393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtggacgactcgcgcatcGgccaaacggccaccaagcag	11	4	12	14	5	0	0	0	0	0	0	2	2	0	1	3	3	2	2	3	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:45879393G>A	uc002rut.2	+	1	351	c.154G>A	c.(154-156)GGC>AGC	p.G52S		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	52	C2.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			CTCGCGCATCGGCCAAACGGC	0.627													9	44					0	0	1	0	0		A	45879393	A	A	45879393	3	1	153	1	0	0	0	0	1	0	0	0	12533	1116	39	1	156	1	PRKCE	2	45879393	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	709421	45879393	197319980	202	82134											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808788	48808788	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acccaaggttgagaacttcaGtgtagcaggaaaaatccaca	16	7	9	9	0	1	1	1	1	0	1	2	3	2	2	2	2	2	3	2	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:48808788G>A	uc010yol.1	+	1	1063	c.1016G>A	c.(1015-1017)AGT>AAT	p.S339N	STON1_uc002rwo.3_Missense_Mutation_p.S339N|STON1_uc010fbm.2_Missense_Mutation_p.S339N|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.S339N|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.S339N	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	339					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GAGAACTTCAGTGTAGCAGGA	0.358													50	155					0	0	1	0	0		A	48808788	A	A	48808788	3	1	153	1	0	0	0	0	1	0	0	0	15342	1029	36	4	1018	4	STON1-GTF2A1L	2	48808788	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2929395	48808788	194390585	203	82135											
FSHR	2492	broad.mit.edu	37	chr2	49190059	49190059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaatgaagaaatctctgCgaaagtttttggtaaagatg	15	11	11	4	1	1	4	0	1	1	3	2	5	1	4	0	1	1	3	0	1	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:49190059C>T	uc002rww.2	-	10	1975	c.1901G>A	c.(1900-1902)CGC>CAC	p.R634H	FSHR_uc002rwx.2_Missense_Mutation_p.R572H|FSHR_uc010fbn.2_Missense_Mutation_p.R608H	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	634	Cytoplasmic (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding	p.R634R(1)		ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	GAAATCTCTGCGAAAGTTTTT	0.453									Gonadal_Dysgenesis_46_XX				14	55					0	0	1	0	0		T	49190059	T	T	49190059	3	4	153	1	0	0	0	0	1	0	0	0	6087	768	27	1	190	1	FSHR	2	49190059	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	381271	49190059	194009314	204	82136											
NRXN1	9378	broad.mit.edu	37	chr2	51255151	51255151	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagaagctgagctgcaggcgGccgccgcgcgtcagaatcag	9	4	16	12	5	2	3	2	1	0	2	2	4	2	3	2	2	3	3	2	2	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:51255151G>A	uc010fbq.2	-	2	1738	c.261C>T	c.(259-261)GGC>GGT	p.G87G	NRXN1_uc002rxe.3_Silent_p.G87G|NRXN1_uc002rxd.1_Silent_p.G87G	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCTGCAGGCGGCCGCCGCGCG	0.672													3	4					0	0	1	0	0		A	51255151	A	A	51255151	2	1	153	1	0	0	0	0	0	0	0	1	10684	1190	42	2		2	NRXN1	2	51255151	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2065092	51255151	191944222	205	82137											
PSME4	23198	broad.mit.edu	37	chr2	54119956	54119956	+	Missense_Mutation	SNP	T	A	A	0	1	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	atacatcaccttttcaaatgTccagtgcttagaacctctga	12	13	5	11	0	3	2	2	1	1	1	4	2	4	2	3	0	3	1	3	0	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:54119956T>A	uc002rxp.2	-	36	4236	c.4180A>T	c.(4180-4182)ACA>TCA	p.T1394S	PSME4_uc010yop.1_Missense_Mutation_p.T1280S|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Missense_Mutation_p.T769S|PSME4_uc010fbv.1_Missense_Mutation_p.T538S	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1394					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TTTTCAAATGTCCAGTGCTTA	0.373													41	123					0	0	1	0	0		A	54119956	A	A	54119956	3	1	153	1	0	0	0	0	1	0	0	0	12731	1667	58	5	1395	5	PSME4	2	54119956	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2864805	54119956	189079417	206	82138											
C2orf73	129852	broad.mit.edu	37	chr2	54570910	54570910	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtcttcctaccaccttaCgactctaagagcacccagag	10	9	6	16	1	2	2	0	0	2	2	3	3	3	2	5	0	3	1	5	0	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:54570910C>T	uc002rxt.1	+	3	330	c.288C>T	c.(286-288)TAC>TAT	p.Y96Y	C2orf73_uc010yor.1_Silent_p.Y38Y|C2orf73_uc002rxs.1_Translation_Start_Site|C2orf73_uc010yos.1_RNA	NM_001100396	NP_001093866	Q8N5S3	CB073_HUMAN	hypothetical protein LOC129852	96											0						TACCACCTTACGACTCTAAGA	0.443													16	58					0	0	1	0	0		T	54570910	T	T	54570910	2	4	153	1	0	0	0	0	0	0	0	1	2195	547	19	1		1	C2orf73	2	54570910	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	450954	54570910	188628463	207	82139											
PNPT1	87178	broad.mit.edu	37	chr2	55870530	55870530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtgcaaatacagaaaacGtttcttcatccacctgacta	13	12	6	10	1	2	2	1	1	1	1	3	2	3	2	2	1	3	2	2	1	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:55870530G>A	uc002rzf.2	-	24	1990	c.1937C>T	c.(1936-1938)ACG>ATG	p.T646M	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	646	KH.				mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TACAGAAAACGTTTCTTCATC	0.274													31	114					0	0	1	0	0		A	55870530	A	A	55870530	3	1	153	1	0	0	0	0	1	0	0	0	12192	1145	40	1	434	1	PNPT1	2	55870530	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1299620	55870530	187328843	208	82140											
PUS10	150962	broad.mit.edu	37	chr2	61188656	61188656	+	Silent	SNP	T	C	C	0	1	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	agaacagcgcatacagccttTggtgagtttggaggacaagg	12	8	14	7	1	0	2	0	1	0	1	0	4	0	4	1	4	4	2	1	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:61188656T>C	uc010fci.2	-	10	876	c.816A>G	c.(814-816)CCA>CCG	p.P272P	PUS10_uc002sao.2_Silent_p.P272P|PUS10_uc010ypk.1_Silent_p.P49P	NM_144709	NP_653310	Q3MIT2	PUS10_HUMAN	pseudouridylate synthase 10	272					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			ovary(2)|large_intestine(1)|kidney(1)	4			LUSC - Lung squamous cell carcinoma(5;1.56e-06)|Lung(5;2.48e-05)|Epithelial(17;0.113)			ATACAGCCTTTGGTGAGTTTG	0.353													76	324					0	0	1	0	0		C	61188656	C	C	61188656	2	2	153	1	0	0	0	0	0	0	0	1	12856	1799	63	3		3	PUS10	2	61188656	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5318126	61188656	182010717	209	82141											
UGP2	7360	broad.mit.edu	37	chr2	64111196	64111196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacagaagtacaatcattgtCgtgtgaaaatctacactttc	14	13	6	8	1	2	2	1	1	1	1	4	2	2	2	0	0	3	1	0	0	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:64111196C>T	uc002scm.2	+	5	850	c.544C>T	c.(544-546)CGT>TGT	p.R182C	UGP2_uc002scl.2_Missense_Mutation_p.R171C|UGP2_uc010ypx.1_Missense_Mutation_p.R191C	NM_006759	NP_006750	Q16851	UGPA_HUMAN	UDP-glucose pyrophosphorylase 2 isoform a	182					glycogen biosynthetic process|phosphorylation|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	metal ion binding|protein binding|UTP:glucose-1-phosphate uridylyltransferase activity				0						CAATCATTGTCGTGTGAAAAT	0.313													20	89					0	0	1	0	0		T	64111196	T	T	64111196	3	4	153	1	0	0	0	0	1	0	0	0	16969	884	31	1	562	1	UGP2	2	64111196	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2922540	64111196	179088177	210	82142											
CEP68	23177	broad.mit.edu	37	chr2	65298797	65298797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgctgagcccaggttcCgcagctcagccttccagctg	5	9	11	16	2	1	1	1	1	0	0	4	1	4	1	5	1	5	5	5	1	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:65298797C>T	uc002sdl.3	+	3	781	c.567C>T	c.(565-567)TCC>TCT	p.S189S	CEP68_uc002sdj.2_Silent_p.S189S|CEP68_uc010yqb.1_Silent_p.S189S|CEP68_uc002sdk.3_Silent_p.S189S|CEP68_uc010yqc.1_Silent_p.S189S|CEP68_uc010yqd.1_Silent_p.S189S	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	189					centrosome organization	centrosome				skin(1)	1						GCCCAGGTTCCGCAGCTCAGC	0.627													17	44					0	0	1	0	0		T	65298797	T	T	65298797	2	4	153	1	0	0	0	0	0	0	0	1	3261	639	23	1		1	CEP68	2	65298797	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1187601	65298797	177900576	211	82143											
SPRED2	200734	broad.mit.edu	37	chr2	65541135	65541135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctcgcccttggcgaagcGcacgtaggaggagtccgcgt	7	6	15	13	6	0	0	0	0	0	0	2	4	1	2	3	3	1	2	3	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:65541135G>A	uc002sdr.3	-	6	1292	c.757C>T	c.(757-759)CGC>TGC	p.R253C	SPRED2_uc010fcw.2_Missense_Mutation_p.R250C	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	253	KBD.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						TTGGCGAAGCGCACGTAGGAG	0.652													26	83					0	0	1	0	0		A	65541135	A	A	65541135	3	1	153	1	0	0	0	0	1	0	0	0	15118	1087	38	1	503	1	SPRED2	2	65541135	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	242338	65541135	177658238	212	82144											
CLEC4F	165530	broad.mit.edu	37	chr2	71043195	71043195	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcaggcgactctgctcctGctggatttccatggttagag	6	13	11	11	1	2	1	1	0	1	1	4	3	4	2	2	3	2	3	2	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:71043195G>A	uc002shf.2	-	4	1395	c.1318C>T	c.(1318-1320)CAG>TAG	p.Q440*	CLEC4F_uc010yqv.1_Nonsense_Mutation_p.Q440*	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	440	Extracellular (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						CTCTGCTCCTGCTGGATTTCC	0.517													23	83					0	0	1	0	0		A	71043195	A	A	71043195	4	1	153	1	0	0	0	0	0	1	0	0	3519	1328	46	2	467	2	CLEC4F	2	71043195	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5502060	71043195	172156178	213	82145											
ALMS1	7840	broad.mit.edu	37	chr2	73676827	73676827	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagagggagaagcctagtgTtttgtacccacaggtgttat	11	11	12	7	0	0	2	0	0	0	2	0	3	0	2	2	2	2	3	2	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:73676827T>C	uc002sje.1	+	10	3287	c.3176T>C	c.(3175-3177)GTT>GCT	p.V1059A	ALMS1_uc002sjf.1_Missense_Mutation_p.V1015A|ALMS1_uc002sjg.2_Missense_Mutation_p.V445A|ALMS1_uc002sjh.1_Missense_Mutation_p.V445A	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	1057	34 X 47 AA approximate tandem repeat.|11.				G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AAGCCTAGTGTTTTGTACCCA	0.498													53	161					0	0	1	0	0		C	73676827	C	C	73676827	3	2	153	1	0	0	0	0	1	0	0	0	535	1725	60	3	3200	3	ALMS1	2	73676827	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2633632	73676827	169522546	214	82146											
ALMS1	7840	broad.mit.edu	37	chr2	73680921	73680921	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagtgatgccagtgatggaAatggttcctgctcgtgggac	8	11	15	7	1	0	2	0	2	0	0	2	4	1	4	2	3	2	3	2	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:73680921A>C	uc002sje.1	+	10	7381	c.7270A>C	c.(7270-7272)AAT>CAT	p.N2424H	ALMS1_uc002sjf.1_Missense_Mutation_p.N2380H|ALMS1_uc002sjg.2_Missense_Mutation_p.N1810H|ALMS1_uc002sjh.1_Missense_Mutation_p.N1810H	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2422					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CAGTGATGGAAATGGTTCCTG	0.388													46	165					0	0	1	0	0		C	73680921	C	C	73680921	3	2	153	1	0	0	0	0	1	0	0	0	535	14	1	5	7294	5	ALMS1	2	73680921	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	4094	73680921	169518452	215	82147											
C2orf78	388960	broad.mit.edu	37	chr2	74042785	74042785	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agaaagccaaagataccagtGccatcaaggtaaatcaggtg	17	6	10	8	0	2	2	2	0	0	2	2	2	2	2	3	2	3	1	3	2	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:74042785G>A	uc002sjr.1	+	3	1556	c.1435G>A	c.(1435-1437)GCC>ACC	p.A479T		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	479										ovary(2)	2						AGATACCAGTGCCATCAAGGT	0.468													21	54					0	0	1	0	0		A	74042785	A	A	74042785	3	1	153	1	0	0	0	0	1	0	0	0	2198	1319	46	2	1445	2	C2orf78	2	74042785	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	361864	74042785	169156588	216	82148											
DCTN1	1639	broad.mit.edu	37	chr2	74596483	74596483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtctgctggtagtctgcaaCcgtctcctgggctgcctcca	4	11	12	14	1	3	0	0	0	3	0	5	0	4	0	4	3	4	4	4	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:74596483C>T	uc002skx.2	-	14	1839	c.1528G>A	c.(1528-1530)GTT>ATT	p.V510I	DCTN1_uc002skv.2_Missense_Mutation_p.V376I|DCTN1_uc002sku.2_Missense_Mutation_p.V376I|DCTN1_uc002skw.1_Missense_Mutation_p.V486I|DCTN1_uc010ffd.2_Missense_Mutation_p.V490I|DCTN1_uc002sky.2_Missense_Mutation_p.V473I	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	510	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						TAGTCTGCAACCGTCTCCTGG	0.622													19	56					0	0	1	0	0		T	74596483	T	T	74596483	3	4	153	1	0	0	0	0	1	0	0	0	4309	507	18	4	2384	4	DCTN1	2	74596483	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	553698	74596483	168602890	217	82149											
CTNNA2	1496	broad.mit.edu	37	chr2	80085186	80085186	+	Missense_Mutation	SNP	T	A	A																															agtttgcagatgacccttgcTcgtcggtaaagcgcggcacc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:80085186T>A	uc010ysh.1	+	3	351	c.346T>A	c.(346-348)TCG>ACG	p.S116T	CTNNA2_uc010yse.1_Missense_Mutation_p.S116T|CTNNA2_uc010ysf.1_Missense_Mutation_p.S116T|CTNNA2_uc010ysg.1_Missense_Mutation_p.S116T	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	116					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGACCCTTGCTCGTCGGTAAA	0.592													27	115					0	0	1	0	0		A	80085186	A	A	80085186	3	1	153	1	0	0	0	0	1	0	0	0	4016	1551	54	5	356	5	CTNNA2	2	80085186	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5488703	80085186	163114187	218	82150	155	2									
CTNNA2	1496	broad.mit.edu	37	chr2	80085188	80085188	+	Silent	SNP	G	A	A																															tttgcagatgacccttgctcGtcggtaaagcgcggcaccat																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:80085188G>A	uc010ysh.1	+	3	353	c.348G>A	c.(346-348)TCG>TCA	p.S116S	CTNNA2_uc010yse.1_Silent_p.S116S|CTNNA2_uc010ysf.1_Silent_p.S116S|CTNNA2_uc010ysg.1_Silent_p.S116S	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	116					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ACCCTTGCTCGTCGGTAAAGC	0.582													43	98					0	0	1	0	0		A	80085188	A	A	80085188	2	1	153	1	0	0	0	0	0	0	0	1	4016	1132	40	1		1	CTNNA2	2	80085188	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2	80085188	163114185	219	82151	155	2									
LRRTM1	347730	broad.mit.edu	37	chr2	80530111	80530111	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggactgcaggtgcggcacGgtctcgaacacatggggctc	8	6	16	11	3	1	0	0	0	1	0	3	2	1	1	0	6	3	3	0	6	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:80530111G>T	uc002sok.1	-	2	1104	c.834C>A	c.(832-834)ACC>ACA	p.T278T	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	278	LRR 8.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GGTGCGGCACGGTCTCGAACA	0.587										HNSCC(69;0.2)			10	43					2.27111e-07	2.35318e-07	1	1	0		T	80530111	T	T	80530111	2	4	153	1	0	0	0	0	0	0	0	1	9057	1103	39	5		5	LRRTM1	2	80530111	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	444923	80530111	162669262	220	82152											
ELMOD3	84173	broad.mit.edu	37	chr2	85598687	85598687	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggacctgggctttcagggTaagagggaggagtagctcat	10	8	17	6	0	2	1	2	0	0	1	2	5	2	4	1	5	1	4	1	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:85598687T>C	uc002spf.3	+	11	1272	c.607_splice	c.e11+2	p.G203_splice	ELMOD3_uc010fgg.2_Intron|ELMOD3_uc002spg.3_Splice_Site_p.G203_splice|ELMOD3_uc002sph.3_Splice_Site_p.G203_splice|ELMOD3_uc010ysn.1_Splice_Site_p.G203_splice|ELMOD3_uc010yso.1_Splice_Site|ELMOD3_uc010ysp.1_Intron	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b						phagocytosis	cytoskeleton				ovary(2)	2						GCTTTCAGGGTAAGAGGGAGG	0.527													26	114					0	0	1	0	0		C	85598687	C	C	85598687	5	2	153	1	0	0	0	0	0	0	1	0	5078	1652	57	3	635	3	ELMOD3	2	85598687	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5068576	85598687	157600686	221	82153											
SFTPB	6439	broad.mit.edu	37	chr2	85893744	85893744	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcttgcagccctcacagtcTggttctggaagtagtcgatg	8	11	12	10	1	3	0	1	0	2	0	4	2	3	1	1	2	3	4	1	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:85893744T>C	uc002sqh.2	-	4	395	c.389A>G	c.(388-390)CAG>CGG	p.Q130R	SFTPB_uc002sqi.2_Missense_Mutation_p.Q142R|SFTPB_uc002sqj.2_Missense_Mutation_p.Q130R	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	130	Saposin B-type 1.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						CCTCACAGTCTGGTTCTGGAA	0.622													20	88					0	0	1	0	0		C	85893744	C	C	85893744	3	2	153	1	0	0	0	0	1	0	0	0	14216	1580	55	3	784	3	SFTPB	2	85893744	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	295057	85893744	157305629	222	82154											
MRPL35	51318	broad.mit.edu	37	chr2	86437712	86437712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actcttagataaaatgacgaCgtccttctggaagaggcgaa	14	9	10	8	3	2	3	0	1	2	2	3	6	3	4	1	2	0	0	1	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:86437712C>T	uc002srg.3	+	4	546	c.488C>T	c.(487-489)ACG>ATG	p.T163M	MRPL35_uc002srf.3_Missense_Mutation_p.T163M	NM_016622	NP_057706	Q9NZE8	RM35_HUMAN	mitochondrial ribosomal protein L35 isoform a	163					translation	mitochondrial ribosome	structural constituent of ribosome				0						AAAATGACGACGTCCTTCTGG	0.373													42	111					0	0	1	0	0		T	86437712	T	T	86437712	3	4	153	1	0	0	0	0	1	0	0	0	9816	536	19	1	502	1	MRPL35	2	86437712	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	543968	86437712	156761661	223	82155											
KCNIP3	30818	broad.mit.edu	37	chr2	96040058	96040058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccagatagcagcgacagtGagctggagctgtccacggtg	9	7	14	11	2	0	2	0	1	0	1	2	4	2	3	2	2	4	3	2	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:96040058G>A	uc002sup.2	+	3	311	c.196G>A	c.(196-198)GAG>AAG	p.E66K	KCNIP3_uc002suq.2_Missense_Mutation_p.E40K	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	66					apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		CAGCGACAGTGAGCTGGAGCT	0.612													12	67					0	0	1	0	0		A	96040058	A	A	96040058	3	1	153	1	0	0	0	0	1	0	0	0	8057	1291	45	4	313	4	KCNIP3	2	96040058	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	9602346	96040058	147159315	224	82156											
TMEM127	55654	broad.mit.edu	37	chr2	96919660	96919660	+	Silent	SNP	T	G	G	0	1	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	agcgcctgctcctcttcctcTgtggggtagtggcgcaggag	4	10	15	12	2	2	0	0	0	2	0	4	1	4	1	3	4	2	3	3	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:96919660T>G	uc002svq.2	-	4	860	c.603A>C	c.(601-603)ACA>ACC	p.T201T	TMEM127_uc002svr.2_Silent_p.T201T	NM_017849	NP_060319	O75204	TM127_HUMAN	transmembrane protein 127	201					negative regulation of cell proliferation|negative regulation of TOR signaling cascade	cytoplasm|integral to membrane|plasma membrane					0						CCTCTTCCTCTGTGGGGTAGT	0.607									Pheochromocytoma_(Adrenal)_Familial				16	49					0	0	1	0	0		G	96919660	G	G	96919660	2	3	153	1	0	0	0	0	0	0	0	1	16065	1567	55	5		5	TMEM127	2	96919660	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	879602	96919660	146279713	225	82157											
SNRNP200	23020	broad.mit.edu	37	chr2	96943411	96943411	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcagggctgagccacccatTgctggaaaggacatccacgc	11	5	12	13	1	0	1	0	1	0	0	1	3	1	3	3	3	3	3	3	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:96943411T>C	uc002svu.2	-	41	5883	c.5797A>G	c.(5797-5799)AAT>GAT	p.N1933D	SNRNP200_uc002svt.2_Missense_Mutation_p.N543D|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1933	SEC63 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						AGCCACCCATTGCTGGAAAGG	0.552													23	86					0	0	1	0	0		C	96943411	C	C	96943411	3	2	153	1	0	0	0	0	1	0	0	0	14877	1812	63	3	633	3	SNRNP200	2	96943411	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	23751	96943411	146255962	226	82158											
CNNM4	26504	broad.mit.edu	37	chr2	97463265	97463265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagctgacaaccgaagccGgaagcgggtgtctgagaaga	12	4	16	9	3	1	3	0	2	1	2	1	6	1	4	2	3	4	2	2	3	4	0	rs148365594		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:97463265G>A	uc002swx.2	+	3	1660	c.1562G>A	c.(1561-1563)CGG>CAG	p.R521Q	CNNM4_uc010yuy.1_Missense_Mutation_p.R8Q|hsa-mir-3127|MI0014144_5'Flank	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	521					biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						AACCGAAGCCGGAAGCGGGTG	0.572													31	55					0	0	1	0	0		A	97463265	A	A	97463265	3	1	153	1	0	0	0	0	1	0	0	0	3618	1116	39	1	1572	1	CNNM4	2	97463265	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	519854	97463265	145736108	227	82159											
ZAP70	7535	broad.mit.edu	37	chr2	98340772	98340772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagttctactcgcgcgacccCgacgggctgccctgcaacct	6	7	11	17	5	1	0	0	0	1	0	2	3	1	0	4	1	4	3	4	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:98340772C>T	uc002syd.1	+	3	480	c.273C>T	c.(271-273)CCC>CCT	p.P91P	ZAP70_uc010yvf.1_Silent_p.P91P|ZAP70_uc002sye.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	91	SH2 1.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						CGCGCGACCCCGACGGGCTGC	0.692													2	2					0	0	1	0	0		T	98340772	T	T	98340772	2	4	153	1	0	0	0	0	0	0	0	1	17540	639	23	1		1	ZAP70	2	98340772	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	877507	98340772	144858601	228	82160											
RNF149	284996	broad.mit.edu	37	chr2	101910512	101910512	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagtatgaagtagaagctgGccaataactttcttagtttc	13	13	8	7	0	1	2	0	1	1	1	2	2	1	2	1	1	2	4	1	1	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:101910512G>A	uc002taz.1	-	3	846	c.744C>T	c.(742-744)GGC>GGT	p.G248G	RNF149_uc002tax.1_RNA	NM_173647	NP_775918	Q8NC42	RN149_HUMAN	ring finger protein 149 precursor	248						integral to membrane	ligase activity|zinc ion binding			ovary(1)|breast(1)	2						GTAGAAGCTGGCCAATAACTT	0.289													49	205					0	0	1	0	0		A	101910512	A	A	101910512	2	1	153	1	0	0	0	0	0	0	0	1	13475	1190	42	2		2	RNF149	2	101910512	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3569740	101910512	141288861	229	82161											
NCK2	8440	broad.mit.edu	37	chr2	106497880	106497880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatggcagcggcgccgaccGcatctacgacctcaacatcc	10	5	9	17	5	2	0	1	0	1	0	3	2	3	0	4	2	3	2	4	2	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:106497880G>A	uc002tdg.2	+	4	765	c.323G>A	c.(322-324)CGC>CAC	p.R108H	NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Missense_Mutation_p.R108H	NM_003581	NP_003572	O43639	NCK2_HUMAN	NCK adaptor protein 2 isoform A	108					axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity			ovary(1)|lung(1)	2						GGCGCCGACCGCATCTACGAC	0.677													4	18					0	0	1	0	0		A	106497880	A	A	106497880	3	1	153	1	0	0	0	0	1	0	0	0	10239	1087	38	1	329	1	NCK2	2	106497880	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4587368	106497880	136701493	230	82162											
SH3RF3	344558	broad.mit.edu	37	chr2	109964227	109964227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggacatcatcgtcctgcGgcgcaaggtggatgaacagt	9	7	16	9	3	1	1	1	1	0	0	3	3	2	3	1	5	2	1	1	5	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:109964227G>A	uc010ywt.1	+	2	671	c.671G>A	c.(670-672)CGG>CAG	p.R224Q		NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3	224	SH3 1.						zinc ion binding			ovary(1)	1						ATCGTCCTGCGGCGCAAGGTG	0.602													12	28					0	0	1	0	0		A	109964227	A	A	109964227	3	1	153	1	0	0	0	0	1	0	0	0	14285	1116	39	1	677	1	SH3RF3	2	109964227	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3466347	109964227	133235146	231	82163											
ANAPC1	64682	broad.mit.edu	37	chr2	112608477	112608477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcagtccaggaataaaaAcctttcccacctttaagcaa	14	9	6	12	0	0	0	0	0	0	0	2	1	2	1	4	2	2	2	4	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:112608477A>G	uc002thi.2	-	14	1773	c.1526T>C	c.(1525-1527)GTT>GCT	p.V509A		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	509					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						AGGAATAAAAACCTTTCCCAC	0.378													10	74					0	0	1	0	0		G	112608477	G	G	112608477	3	3	153	1	0	0	0	0	1	0	0	0	598	43	2	3	4448	3	ANAPC1	2	112608477	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2644250	112608477	130590896	232	82164											
ZC3H6	376940	broad.mit.edu	37	chr2	113089479	113089479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcacatgcatcaaagggtgCccctcacttacccagatcaa	12	9	6	14	0	4	1	4	0	0	1	4	1	4	1	3	1	3	1	3	1	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:113089479C>T	uc002thq.1	+	12	3378	c.2984C>T	c.(2983-2985)GCC>GTC	p.A995V		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	995							nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						TCAAAGGGTGCCCCTCACTTA	0.488													13	60					0	0	1	0	0		T	113089479	T	T	113089479	3	4	153	1	0	0	0	0	1	0	0	0	17596	739	26	2	3030	2	ZC3H6	2	113089479	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	481002	113089479	130109894	233	82165											
RGPD5	84220	broad.mit.edu	37	chr2	113147712	113147712	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatcattttcaagaggctttTcccttttcttttcttgattt	6	23	4	8	0	4	2	2	1	2	1	5	2	5	2	1	1	0	1	1	1	2	11			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:113147712T>C	uc002ths.1	-	20	2887	c.2810A>G	c.(2809-2811)GAA>GGA	p.E937G	RGPD8_uc010fkk.1_Missense_Mutation_p.E797G|RGPD5_uc002tht.1_Missense_Mutation_p.E188G	NM_005054	NP_005045	Q99666	RGPD5_HUMAN	RANBP2-like and GRIP domain containing 5 isoform	937					intracellular transport	cytoplasm	binding				0						AAGAGGCTTTTCCCTTTTCTT	0.418													71	236					0	0	1	0	0		C	113147712	C	C	113147712	3	2	153	1	0	0	0	0	1	0	0	0	13314	1783	62	3	13517	3	RGPD5	2	113147712	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	58233	113147712	130051661	234	82166											
CKAP2L	150468	broad.mit.edu	37	chr2	113520087	113520087	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagataaactcacttggtgtTttggctcttcagttttccct	7	17	7	10	0	3	1	2	0	1	1	4	1	4	1	1	2	1	3	1	2	2	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:113520087T>A	uc002tie.2	-	2	176	c.97A>T	c.(97-99)AAC>TAC	p.N33Y	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	33						centrosome					0						CACTTGGTGTTTTGGCTCTTC	0.418													22	58					0	0	1	0	0		A	113520087	A	A	113520087	3	1	153	1	0	0	0	0	1	0	0	0	3446	1841	64	5	2172	5	CKAP2L	2	113520087	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	372375	113520087	129679286	235	82167											
TFCP2L1	29842	broad.mit.edu	37	chr2	121997154	121997154	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcgccgaggccaaagctGtttggagaaccattgtagct	9	10	11	11	2	0	1	0	0	0	1	1	3	0	1	4	2	3	4	4	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:121997154G>A	uc002tmx.2	-	8	933	c.840C>T	c.(838-840)AAC>AAT	p.N280N	TFCP2L1_uc010flr.2_Silent_p.N280N	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	280					female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					GGCCAAAGCTGTTTGGAGAAC	0.577													11	47					0	0	1	0	0		A	121997154	A	A	121997154	2	1	153	1	0	0	0	0	0	0	0	1	15821	1368	48	4		4	TFCP2L1	2	121997154	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8477067	121997154	121202219	236	82168											
CLASP1	23332	broad.mit.edu	37	chr2	122286272	122286272	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctggggattagcagcttgaTccatgatctttagcagcaga	10	11	11	9	0	1	3	0	2	1	1	2	4	2	4	2	2	4	4	2	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:122286272T>C	uc002tnc.2	-	4	749	c.359A>G	c.(358-360)GAT>GGT	p.D120G	CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.D120G|CLASP1_uc010yza.1_Missense_Mutation_p.D120G|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_Intron|CLASP1_uc002tng.1_Missense_Mutation_p.D120G|RNU4ATAC_uc010yzd.1_5'Flank	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	120	HEAT 1.				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					AGCAGCTTGATCCATGATCTT	0.507													57	248					0	0	1	0	0		C	122286272	C	C	122286272	3	2	153	1	0	0	0	0	1	0	0	0	3457	1435	50	3	4457	3	CLASP1	2	122286272	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	289118	122286272	120913101	237	82169											
IWS1	55677	broad.mit.edu	37	chr2	128249666	128249666	+	Splice_Site	SNP	T	C	C	0	1	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	cctggctcacactaggcagcTggggaacataaacacataca	14	6	9	12	0	1	0	1	0	0	0	1	1	1	1	1	4	4	3	1	4	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:128249666T>C	uc002ton.2	-	10	2233	c.1930_splice	c.e10-1	p.L644_splice	IWS1_uc010yzl.1_Intron	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog						transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		ACTAGGCAGCTGGGGAACATA	0.458													14	73					0	0	1	0	0		C	128249666	C	C	128249666	5	2	153	1	0	0	0	0	0	0	1	0	7947	1594	55	3	551	3	IWS1	2	128249666	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5963394	128249666	114949707	238	82170											
IWS1	55677	broad.mit.edu	37	chr2	128250886	128250886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcttcagcagctcctcccGgatcttgagtgcaggcaaac	9	9	10	13	1	3	1	1	1	2	0	5	3	5	2	2	2	4	4	2	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:128250886G>A	uc002ton.2	-	9	2203	c.1900C>T	c.(1900-1902)CGG>TGG	p.R634W	IWS1_uc010yzl.1_RNA	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	634	TFIIS N-terminal.				transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		AGCTCCTCCCGGATCTTGAGT	0.443													33	85					0	0	1	0	0		A	128250886	A	A	128250886	3	1	153	1	0	0	0	0	1	0	0	0	7947	1115	39	1	583	1	IWS1	2	128250886	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1220	128250886	114948487	239	82171											
POTEF	728378	broad.mit.edu	37	chr2	130832415	130832415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccgcccagccaggtctaggCgcagggtggcatgggggagg	6	4	19	12	2	1	0	0	0	1	0	1	1	1	1	3	7	1	2	3	7	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:130832415C>T	uc010fmh.2	-	17	3030	c.2630G>A	c.(2629-2631)CGC>CAC	p.R877H		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	877	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						CAGGTCTAGGCGCAGGGTGGC	0.607													5	39					0	0	1	0	0		T	130832415	T	T	130832415	3	4	153	1	0	0	0	0	1	0	0	0	12284	768	27	1	601	1	POTEF	2	130832415	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2581529	130832415	112366958	240	82172											
PLEKHB2	55041	broad.mit.edu	37	chr2	132110744	132110744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagtaaatattcgtagacGtataaagctaacttttcccc	13	13	6	9	2	0	1	0	0	0	1	2	1	1	1	2	0	3	5	2	0	8	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:132110744G>A	uc002tsh.2	+	7	1135	c.575G>A	c.(574-576)CGT>CAT	p.R192H				Q96CS7	PKHB2_HUMAN	SubName: Full=Putative uncharacterized protein PLEKHB2;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.0828)		ATTCGTAGACGTATAAAGCTA	0.537													5	11					0	0	1	0	0		A	132110744	A	A	132110744	3	1	153	1	0	0	0	0	1	0	0	0	12084	1160	40	1		1	PLEKHB2	2	132110744	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1278329	132110744	111088629	241	82173											
FAM128A	653784	broad.mit.edu	37	chr2	132241708	132241708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtagcgctgggctggcgtgGcatcctctggctggatccct	3	10	16	12	2	1	0	0	0	1	0	3	1	3	1	2	6	1	5	2	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:132241708G>A	uc002tsw.3	-	3	518	c.403C>T	c.(403-405)CCA>TCA	p.P135S	FAM128A_uc002tsv.3_RNA	NM_001085365	NP_001078834	Q6P582	MZT2A_HUMAN	hypothetical protein LOC653784	135						centrosome|gamma-tubulin ring complex|spindle					0				BRCA - Breast invasive adenocarcinoma(221;0.13)		GGCTGGCGTGGCATCCTCTGG	0.647													11	106					0	0	1	0	0		A	132241708	A	A	132241708	3	1	153	1	0	0	0	0	1	0	0	0	5445	1203	42	2	77	2	FAM128A	2	132241708	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	130964	132241708	110957665	242	82174											
GPR39	2863	broad.mit.edu	37	chr2	133174929	133174929	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgaccacgtccagctacaCcctgtcctgcaagctgcaca	9	7	7	18	1	0	1	0	1	0	0	2	1	2	1	5	0	5	4	5	0	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:133174929C>A	uc002ttl.2	+	1	783	c.314C>A	c.(313-315)ACC>AAC	p.T105N		NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	105	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						TCCAGCTACACCCTGTCCTGC	0.557													26	69					3.01185e-09	3.14996e-09	1	1	0		A	133174929	A	A	133174929	3	1	153	1	0	0	0	0	1	0	0	0	6708	507	18	5	316	5	GPR39	2	133174929	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	933221	133174929	110024444	243	82175											
NCKAP5	344148	broad.mit.edu	37	chr2	133540971	133540971	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagttttcagtcctttctcaTgagcactttgacaaccatga	10	14	7	10	0	2	3	2	3	1	0	4	4	3	3	2	0	2	2	2	0	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:133540971T>C	uc002ttp.2	-	14	3787	c.3413A>G	c.(3412-3414)CAT>CGT	p.H1138R	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1138							protein binding				0						TCCTTTCTCATGAGCACTTTG	0.498													42	174					0	0	1	0	0		C	133540971	C	C	133540971	3	2	153	1	0	0	0	0	1	0	0	0	10242	1464	51	3	2344	3	NCKAP5	2	133540971	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	366042	133540971	109658402	244	82176											
KIF5C	3800	broad.mit.edu	37	chr2	149806952	149806952	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcaatgaggctgagaccaAgtccacactgatgttcggac	11	9	10	11	1	1	3	1	3	0	1	3	5	2	4	2	2	0	2	2	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:149806952A>G	uc010zbu.1	+	10	1312	c.944A>G	c.(943-945)AAG>AGG	p.K315R	KIF5C_uc002tws.1_RNA	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	315	Kinesin-motor.|Microtubule-binding.				microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		GCTGAGACCAAGTCCACACTG	0.473													8	44					0	0	1	0	0		G	149806952	G	G	149806952	3	3	153	1	0	0	0	0	1	0	0	0	8323	72	3	3	904	3	KIF5C	2	149806952	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	16265981	149806952	93392421	245	82177											
CACNB4	785	broad.mit.edu	37	chr2	152695721	152695721	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcctggtatgagtcagggTaatcttcttccacaagaggg	9	12	12	8	0	3	2	1	1	2	1	5	2	5	2	2	3	0	2	2	3	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:152695721T>C	uc002tya.2	-	14	1543	c.1475A>G	c.(1474-1476)TAC>TGC	p.Y492C	CACNB4_uc002txy.2_Missense_Mutation_p.Y458C|CACNB4_uc002txz.2_Missense_Mutation_p.Y474C|CACNB4_uc010fnz.2_Missense_Mutation_p.Y430C	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	492					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	TGAGTCAGGGTAATCTTCTTC	0.468													16	69					0	0	1	0	0		C	152695721	C	C	152695721	3	2	153	1	0	0	0	0	1	0	0	0	2558	1638	57	3	91	3	CACNB4	2	152695721	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2888769	152695721	90503652	246	82178											
CACNB4	785	broad.mit.edu	37	chr2	152737372	152737372	+	Missense_Mutation	SNP	A	G	G	1	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	tagctgtgcttggaacaggcAcatcctcgtccagggcgccg	7	8	13	13	3	0	0	0	0	0	0	3	1	2	1	3	3	3	3	3	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:152737372A>G	uc002tya.2	-	4	400	c.332T>C	c.(331-333)GTG>GCG	p.V111A	CACNB4_uc002txy.2_Missense_Mutation_p.V77A|CACNB4_uc002txz.2_Missense_Mutation_p.V93A|CACNB4_uc010fnz.2_Missense_Mutation_p.V111A|CACNB4_uc002tyb.2_Missense_Mutation_p.V77A	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	111					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	TGGAACAGGCACATCCTCGTC	0.463													10	39					0	0	1	0	0		G	152737372	G	G	152737372	3	3	153	1	0	0	0	0	1	0	0	0	2558	159	6	3	1274	3	CACNB4	2	152737372	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	41651	152737372	90462001	247	82179											
KCNJ3	3760	broad.mit.edu	37	chr2	155555962	155555962	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaacagccacatggtctcCgcgcagattcgctgcaagct	9	7	10	15	4	1	1	0	0	1	1	3	1	1	1	2	1	4	5	2	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:155555962C>T	uc002tyv.1	+	1	870	c.675C>T	c.(673-675)TCC>TCT	p.S225S	KCNJ3_uc010zce.1_Silent_p.S225S	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	225	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	ACATGGTCTCCGCGCAGATTC	0.607													3	10					0	0	1	0	0		T	155555962	T	T	155555962	2	4	153	1	0	0	0	0	0	0	0	1	8068	639	23	1		1	KCNJ3	2	155555962	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2818590	155555962	87643411	248	82180											
TANC1	85461	broad.mit.edu	37	chr2	160087129	160087129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcatcatggataagactgCgaggttccaacagcagagca	13	6	13	9	1	1	2	1	0	0	2	2	4	2	3	1	3	4	4	1	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:160087129C>T	uc002uag.2	+	27	5466	c.5192C>T	c.(5191-5193)GCG>GTG	p.A1731V	TANC1_uc010zcm.1_3'UTR|TANC1_uc010fon.2_Missense_Mutation_p.A575V	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1731						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GATAAGACTGCGAGGTTCCAA	0.557													23	127					0	0	1	0	0		T	160087129	T	T	160087129	3	4	153	1	0	0	0	0	1	0	0	0	15569	768	27	1	5295	1	TANC1	2	160087129	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4531167	160087129	83112244	249	82181											
TBR1	10716	broad.mit.edu	37	chr2	162274319	162274319	+	Silent	SNP	C	T	T	0	0	0	1	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	ggcaaatgggttccttgcggCaaagcggacaccaatgtgca	11	7	13	10	2	0	0	0	0	0	0	1	1	1	1	2	4	3	4	2	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:162274319C>T	uc002ubw.1	+	2	1127	c.825C>T	c.(823-825)GGC>GGT	p.G275G	TBR1_uc010foy.2_5'Flank	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	275	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity	p.G275C(1)		ovary(1)|central_nervous_system(1)	2						TTCCTTGCGGCAAAGCGGACA	0.443													30	89					0	0	1	0	0		T	162274319	T	T	162274319	2	4	153	1	0	0	0	0	0	0	0	1	15672	697	25	2		2	TBR1	2	162274319	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2187190	162274319	80925054	250	82182											
LRP2	4036	broad.mit.edu	37	chr2	170044552	170044552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatcatctcgatgcagcGcccattgtcacacttgaact	9	13	6	13	2	4	1	3	1	1	0	5	2	4	1	1	0	3	1	1	0	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:170044552G>A	uc002ues.2	-	49	9469	c.9256C>T	c.(9256-9258)CGC>TGC	p.R3086C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3086	Extracellular (Potential).|LDL-receptor class A 25.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCGATGCAGCGCCCATTGTCA	0.507													42	162					0	0	1	0	0		A	170044552	A	A	170044552	3	1	153	1	0	0	0	0	1	0	0	0	8974	1087	38	1	4835	1	LRP2	2	170044552	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7770233	170044552	73154821	251	82183											
UBR3	130507	broad.mit.edu	37	chr2	170806462	170806462	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attttactaaaagctgcatcGcaaagtagaatgaacaaacg	18	9	7	7	2	0	2	0	1	0	1	1	2	0	2	0	0	5	4	0	0	8	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:170806462G>A	uc010zdi.1	+	23	3432	c.3432G>A	c.(3430-3432)TCG>TCA	p.S1144S	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_5'UTR|UBR3_uc002uft.3_5'UTR	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1144					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						AAGCTGCATCGCAAAGTAGAA	0.383													14	76					0	0	1	0	0		A	170806462	A	A	170806462	2	1	153	1	0	0	0	0	0	0	0	1	16929	1074	38	1		1	UBR3	2	170806462	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	761910	170806462	72392911	252	82184											
ITGA6	3655	broad.mit.edu	37	chr2	173368931	173368931	+	Frame_Shift_Del	DEL	A	-	-																															aaagtatattgataaccttgAaaaaaaacagtggatcacaa																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:173368931delA	uc002uhp.1	+	25	3430	c.3227delA	c.(3226-3228)GAAfs	p.E1076fs	ITGA6_uc010zdy.1_3'UTR|ITGA6_uc002uho.1_3'UTR|ITGA6_uc010fqm.1_3'UTR	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	1115	Cytoplasmic (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			GATAACCTTGAAAAAAAACAG	0.408													6	8	---	---	---	---						.	-	173368931	-	-	173368931	7	5	153	1	0	1	0	1	0	0	0	0	7896	246	9	0	3437	0	ITGA6	2	173368931	Frame_Shift_Del	DEL	A	TCGA-CG-5723-01A-11D-1600-08	2562469	173368931	69830442	253	82185											
WIPF1	7456	broad.mit.edu	37	chr2	175432803	175432803	+	Splice_Site	SNP	T	C	C	0	1	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	ggaggtggtgggagggggccTggagcaaaaaaagacactta	13	5	18	5	0	0	1	0	0	0	1	0	4	0	4	1	7	1	1	1	7	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:175432803T>C	uc002uiy.2	-	7	1462	c.1130_splice	c.e7-1	p.G377_splice	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Splice_Site_p.G377_splice|WIPF1_uc010fqt.1_Splice_Site_p.G377_splice|WIPF1_uc002uiz.2_Splice_Site_p.G377_splice|WIPF1_uc002ujb.1_Splice_Site_p.G377_splice	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1						actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						GGAGGGGGCCTGGAGCAAAAA	0.552													4	31					0	0	1	0	0		C	175432803	C	C	175432803	5	2	153	1	0	0	0	0	0	0	1	0	17393	1594	55	3	395	3	WIPF1	2	175432803	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2063872	175432803	67766570	254	82186											
HOXD9	3235	broad.mit.edu	37	chr2	176987564	176987564	+	Missense_Mutation	SNP	A	G	G	1	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	cctcagcaactactacgtggActcgcttataggccatgagg	10	9	10	12	2	1	1	1	1	0	0	2	2	1	2	2	3	4	2	2	3	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:176987564A>G	uc010zex.1	+	1	152	c.68A>G	c.(67-69)GAC>GGC	p.D23G		NM_014213	NP_055028	P28356	HXD9_HUMAN	homeobox D9	23						nucleus	sequence-specific DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		TACTACGTGGACTCGCTTATA	0.687													4	20					0	0	1	0	0		G	176987564	G	G	176987564	3	3	153	1	0	0	0	0	1	0	0	0	7342	275	10	3	70	3	HOXD9	2	176987564	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1554761	176987564	66211809	255	82187											
TTN	7273	broad.mit.edu	37	chr2	179422756	179422756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatctcccagcgtcagctgTaacactttctttgagattga	10	14	7	10	1	3	2	1	2	2	1	4	3	3	2	1	0	3	2	1	0	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:179422756T>C	uc010zfg.1	-	277	79845	c.79621A>G	c.(79621-79623)ACA>GCA	p.T26541A	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T20236A|TTN_uc010zfi.1_Missense_Mutation_p.T20169A|TTN_uc010zfj.1_Missense_Mutation_p.T20044A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27468							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCGTCAGCTGTAACACTTTCT	0.448													79	230					0	0	1	0	0		C	179422756	C	C	179422756	3	2	153	1	0	0	0	0	1	0	0	0	16761	1638	57	3	20794	3	TTN	2	179422756	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2435192	179422756	63776617	256	82188											
TTN	7273	broad.mit.edu	37	chr2	179474066	179474066	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccctttttgctgttgtcaAtactcaaacgctgtgtcaga	8	15	7	11	1	3	1	3	0	0	1	4	1	4	1	1	0	3	3	1	0	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:179474066A>G	uc010zfg.1	-	222	44491	c.44267T>C	c.(44266-44268)ATT>ACT	p.I14756T	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.I8451T|TTN_uc010zfi.1_Missense_Mutation_p.I8384T|TTN_uc010zfj.1_Missense_Mutation_p.I8259T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15683							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTGTTGTCAATACTCAAACG	0.458													11	70					0	0	1	0	0		G	179474066	G	G	179474066	3	3	153	1	0	0	0	0	1	0	0	0	16761	101	4	3	56082	3	TTN	2	179474066	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	51310	179474066	63725307	257	82189											
TTN	7273	broad.mit.edu	37	chr2	179474465	179474465	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgagaaggttcactaatacCcgcggcgttctctgctcgca	8	9	10	14	5	2	1	1	0	1	1	4	2	2	1	2	2	2	4	2	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:179474465C>A	uc010zfg.1	-	221	44205	c.43981G>T	c.(43981-43983)GGT>TGT	p.G14661C	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G8356C|TTN_uc010zfi.1_Missense_Mutation_p.G8289C|TTN_uc010zfj.1_Missense_Mutation_p.G8164C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15588							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCACTAATACCCGCGGCGTTC	0.463													119	310					1.33972e-64	1.46131e-64	1	1	0		A	179474465	A	A	179474465	3	1	153	1	0	0	0	0	1	0	0	0	16761	623	22	5	56372	5	TTN	2	179474465	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	399	179474465	63724908	258	82190											
TTN	7273	broad.mit.edu	37	chr2	179484758	179484758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacttcctgtcttctaccccGcaagcatattcacactcatc	9	12	4	16	1	4	0	2	0	2	0	6	1	5	0	3	0	2	2	3	0	3	5	rs147703145	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:179484758G>A	uc010zfg.1	-	198	38906	c.38682C>T	c.(38680-38682)TGC>TGT	p.C12894C	TTN_uc010zfh.1_Silent_p.C6589C|TTN_uc010zfi.1_Silent_p.C6522C|TTN_uc010zfj.1_Silent_p.C6397C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13821							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTCTACCCCGCAAGCATATT	0.333													36	110					0	0	1	0	0		A	179484758	A	A	179484758	2	1	153	1	0	0	0	0	0	0	0	1	16761	1079	38	1		1	TTN	2	179484758	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	10293	179484758	63714615	259	82191											
TTN	7273	broad.mit.edu	37	chr2	179498235	179498235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttttgatttttaagatgCggcgcaggccatctgccttg	6	15	10	10	2	1	2	0	1	1	1	1	2	1	2	3	2	2	1	3	2	1	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:179498235C>T	uc010zfg.1	-	181	35371	c.35147G>A	c.(35146-35148)CGC>CAC	p.R11716H	TTN_uc010zfh.1_Missense_Mutation_p.R5411H|TTN_uc010zfi.1_Missense_Mutation_p.R5344H|TTN_uc010zfj.1_Missense_Mutation_p.R5219H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12643							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTTAAGATGCGGCGCAGGCC	0.438													38	99					0	0	1	0	0		T	179498235	T	T	179498235	3	4	153	1	0	0	0	0	1	0	0	0	16761	768	27	1	65366	1	TTN	2	179498235	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	13477	179498235	63701138	260	82192											
TTN	7273	broad.mit.edu	37	chr2	179640257	179640257	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattttgacaccatttttgtAccattcacattcggggtctg	9	16	7	9	1	2	1	1	1	1	0	3	1	2	1	2	2	1	1	2	2	2	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:179640257A>G	uc010zfg.1	-	28	6558	c.6334T>C	c.(6334-6336)TAC>CAC	p.Y2112H	TTN_uc010zfh.1_Missense_Mutation_p.Y2066H|TTN_uc010zfi.1_Missense_Mutation_p.Y2066H|TTN_uc010zfj.1_Missense_Mutation_p.Y2066H|TTN_uc002unb.2_Missense_Mutation_p.Y2112H|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2112							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCATTTTTGTACCATTCACAT	0.473													18	82					0	0	1	0	0		G	179640257	G	G	179640257	3	3	153	1	0	0	0	0	1	0	0	0	16761	391	14	3	104994	3	TTN	2	179640257	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	142022	179640257	63559116	261	82193											
ZNF385B	151126	broad.mit.edu	37	chr2	180309623	180309623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctagaatactcgggctccGctggagtttgttgtaagggc	7	12	14	8	2	0	1	0	0	0	1	2	2	1	2	1	3	2	6	1	3	4	5	rs149254466	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:180309623G>A	uc002unn.3	-	9	1781	c.1177C>T	c.(1177-1179)CGG>TGG	p.R393W	ZNF385B_uc002unj.2_Missense_Mutation_p.R291W|ZNF385B_uc002unk.2_RNA|ZNF385B_uc002unl.2_Missense_Mutation_p.R290W|ZNF385B_uc002unm.2_Missense_Mutation_p.R317W	NM_152520	NP_689733	Q569K4	Z385B_HUMAN	zinc finger protein 385B isoform 1	393						nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			Epithelial(96;0.174)|OV - Ovarian serous cystadenocarcinoma(117;0.201)			CTCGGGCTCCGCTGGAGTTTG	0.498													78	210					0	0	1	0	0		A	180309623	A	A	180309623	3	1	153	1	0	0	0	0	1	0	0	0	17902	1086	38	1	246	1	ZNF385B	2	180309623	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	669366	180309623	62889750	262	82194											
NUP35	129401	broad.mit.edu	37	chr2	184023042	184023042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaaattggatgcatattcGttatcaatctaaactgcagg	14	12	9	6	1	2	0	1	0	1	0	3	2	2	2	0	3	3	3	0	3	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:184023042G>A	uc002upf.2	+	7	744	c.641G>A	c.(640-642)CGT>CAT	p.R214H	NUP35_uc010zfs.1_Missense_Mutation_p.R196H|NUP35_uc010zft.1_Missense_Mutation_p.R96H|NUP35_uc002upg.2_RNA	NM_138285	NP_612142	Q8NFH5	NUP53_HUMAN	nucleoporin 35kDa	214	RRM Nup35-type.				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	intermediate filament cytoskeleton|nuclear membrane|nuclear pore|plasma membrane					0						ATGCATATTCGTTATCAATCT	0.323													21	66					0	0	1	0	0		A	184023042	A	A	184023042	3	1	153	1	0	0	0	0	1	0	0	0	10782	1145	40	1	667	1	NUP35	2	184023042	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3713419	184023042	59176331	263	82195											
ITGAV	3685	broad.mit.edu	37	chr2	187541575	187541575	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggggcattcagccagcGcccatgcctgtgcctgtgtg	5	9	13	14	1	1	0	1	0	0	0	1	0	1	0	5	2	4	1	5	2	0	1	rs140775791	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:187541575G>A	uc002upq.2	+	29	3240	c.2964G>A	c.(2962-2964)GCG>GCA	p.A988A	ITGAV_uc010frs.2_Silent_p.A952A|ITGAV_uc010zfv.1_Silent_p.A942A	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	988	Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		TTCAGCCAGCGCCCATGCCTG	0.423													40	143					0	0	1	0	0		A	187541575	A	A	187541575	2	1	153	1	0	0	0	0	0	0	0	1	7904	1074	38	1		1	ITGAV	2	187541575	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3518533	187541575	55657798	264	82196											
TFPI	7035	broad.mit.edu	37	chr2	188348879	188348879	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggaaccttggttgattgCggagtcagggagttattcac	8	12	14	7	1	2	1	2	1	0	0	2	4	2	4	1	4	2	2	1	4	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:188348879C>T	uc002upx.2	-	6	633	c.600G>A	c.(598-600)CCG>CCA	p.P200P	TFPI_uc002upy.2_Silent_p.P200P|TFPI_uc002upz.2_Silent_p.P196P|TFPI_uc002uqa.2_Silent_p.P200P|TFPI_uc002uqb.2_Silent_p.P200P	NM_006287	NP_006278	P10646	TFPI1_HUMAN	tissue factor pathway inhibitor isoform a	200					blood coagulation, extrinsic pathway	extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0554)		Coagulation factor VIIa(DB00036)	TGGTTGATTGCGGAGTCAGGG	0.378													24	76					0	0	1	0	0		T	188348879	T	T	188348879	2	4	153	1	0	0	0	0	0	0	0	1	15833	755	27	1		1	TFPI	2	188348879	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	807304	188348879	54850494	265	82197											
COL5A2	1290	broad.mit.edu	37	chr2	189907474	189907474	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaatggtccagggattccaGcacttccttgttcaccattt	9	13	7	12	0	1	0	1	0	0	0	4	1	4	1	4	2	1	2	4	2	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:189907474G>T	uc002uqk.2	-	49	3772	c.3497C>A	c.(3496-3498)GCT>GAT	p.A1166D	COL5A2_uc010frx.2_Missense_Mutation_p.A742D	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1166					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			AGGGATTCCAGCACTTCCTTG	0.378													9	36					0.00448238	0.0045481	1	1	0		T	189907474	T	T	189907474	3	4	153	1	0	0	0	0	1	0	0	0	3700	971	34	5	1026	5	COL5A2	2	189907474	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1558595	189907474	53291899	266	82198											
OSGEPL1	64172	broad.mit.edu	37	chr2	190617701	190617701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttgcgacaccaccagatGcaacctgaaggaattgagaa	15	7	9	10	1	0	3	0	2	0	2	0	6	0	4	3	1	4	1	3	1	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:190617701G>A	uc002uqz.1	-	6	1502	c.968C>T	c.(967-969)GCA>GTA	p.A323V	OSGEPL1_uc002ura.1_RNA	NM_022353	NP_071748	Q9H4B0	OSGP2_HUMAN	O-sialoglycoprotein endopeptidase-like 1	323					proteolysis|tRNA processing		metalloendopeptidase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0293)|all cancers(119;0.0831)			ACCACCAGATGCAACCTGAAG	0.378													7	29					0	0	1	0	0		A	190617701	A	A	190617701	3	1	153	1	0	0	0	0	1	0	0	0	11307	1319	46	2	288	2	OSGEPL1	2	190617701	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	710227	190617701	52581672	267	82199											
STAT4	6775	broad.mit.edu	37	chr2	191898219	191898219	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattagtgagtatataccacTttcagaatggtccacccagg	12	11	8	10	0	1	2	1	1	0	1	2	2	2	2	3	2	1	1	3	2	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:191898219T>A	uc002usm.1	-	20	2103	c.1849A>T	c.(1849-1851)AGT>TGT	p.S617C	STAT4_uc002usn.1_Missense_Mutation_p.S617C|STAT4_uc010zgk.1_Missense_Mutation_p.S462C|STAT4_uc002uso.2_Missense_Mutation_p.S617C	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	617	SH2.				JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			TATATACCACTTTCAGAATGG	0.373													29	83					0	0	1	0	0		A	191898219	A	A	191898219	3	1	153	1	0	0	0	0	1	0	0	0	15292	1609	56	5	417	5	STAT4	2	191898219	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1280518	191898219	51301154	268	82200											
MYO1B	4430	broad.mit.edu	37	chr2	192228478	192228478	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatgcagattgtgggctttAtggatcatgaagctgagtct	9	13	12	7	0	2	3	1	2	1	1	2	4	2	4	1	2	2	3	1	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:192228478A>G	uc010fsg.2	+	10	1045	c.790A>G	c.(790-792)ATG>GTG	p.M264V	MYO1B_uc002usq.2_Missense_Mutation_p.M264V|MYO1B_uc002usr.2_Missense_Mutation_p.M264V|MYO1B_uc002uss.1_Missense_Mutation_p.M264V	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	264	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			TGTGGGCTTTATGGATCATGA	0.388													39	171					0	0	1	0	0		G	192228478	G	G	192228478	3	3	153	1	0	0	0	0	1	0	0	0	10087	449	16	3	824	3	MYO1B	2	192228478	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	330259	192228478	50970895	269	82201											
TMEFF2	23671	broad.mit.edu	37	chr2	193049142	193049142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtttgcatgcagcctgtCgcaggtaacactcattctgg	7	12	11	11	1	2	0	1	0	1	0	3	0	2	0	1	2	4	6	1	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:193049142C>T	uc002utc.2	-	3	744	c.350G>A	c.(349-351)CGA>CAA	p.R117Q	TMEFF2_uc002utd.1_Missense_Mutation_p.R117Q	NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	117	Kazal-like 1.|Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			TGCAGCCTGTCGCAGGTAACA	0.473													32	80					0	0	1	0	0		T	193049142	T	T	193049142	3	4	153	1	0	0	0	0	1	0	0	0	16039	884	31	1	806	1	TMEFF2	2	193049142	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	820664	193049142	50150231	270	82202											
DNAH7	56171	broad.mit.edu	37	chr2	196605585	196605585	+	Missense_Mutation	SNP	T	C	C	0	1	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	atccagaaataatccgtgaaTgaaaacacctaaatataaaa	22	8	4	7	1	0	3	0	2	0	1	2	3	2	3	3	0	1	0	3	0	10	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:196605585T>C	uc002utj.3	-	64	11874	c.11773A>G	c.(11773-11775)ATT>GTT	p.I3925V	DNAH7_uc002uti.3_Missense_Mutation_p.I408V	NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3925					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AATCCGTGAATGAAAACACCT	0.328													32	123					0	0	1	0	0		C	196605585	C	C	196605585	3	2	153	1	0	0	0	0	1	0	0	0	4612	1464	51	3	309	3	DNAH7	2	196605585	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3556443	196605585	46593788	271	82203											
SATB2	23314	broad.mit.edu	37	chr2	200173523	200173523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggaccacgtgttgcatgCgttcgctgtggtgatgcctt	4	13	14	10	3	0	1	0	1	0	0	1	2	0	2	2	2	3	5	2	2	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:200173523C>T	uc002uuy.1	-	10	2517	c.1700G>A	c.(1699-1701)CGC>CAC	p.R567H	SATB2_uc010fsq.1_Missense_Mutation_p.R449H|SATB2_uc002uuz.1_Missense_Mutation_p.R567H|SATB2_uc002uva.1_Missense_Mutation_p.R567H	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	567						cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTGTTGCATGCGTTCGCTGTG	0.597													31	96					0	0	1	0	0		T	200173523	T	T	200173523	3	4	153	1	0	0	0	0	1	0	0	0	13879	768	27	1	509	1	SATB2	2	200173523	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3567938	200173523	43025850	272	82204											
C2orf60	129450	broad.mit.edu	37	chr2	200813094	200813094	+	Silent	SNP	A	G	G	1	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	tgtgcaactgcagcaacatgAatctttacttctttcttccc	9	15	5	12	0	3	1	0	1	3	0	4	1	4	1	1	0	6	3	1	0	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:200813094A>G	uc002uvi.3	-	2	446	c.180T>C	c.(178-180)ATT>ATC	p.I60I	C2orf60_uc002uvj.3_5'UTR|C2orf60_uc002uvk.3_RNA|C2orf60_uc010fss.2_Intron|C2orf60_uc002uvl.2_Silent_p.I60I	NM_001039693	NP_001034782	A2RUC4	TYW5_HUMAN	hypothetical protein LOC129450	60					wybutosine biosynthetic process		iron ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein homodimerization activity|tRNA binding				0						CAGCAACATGAATCTTTACTT	0.383													23	158					0	0	1	0	0		G	200813094	G	G	200813094	2	3	153	1	0	0	0	0	0	0	0	1	2182	242	9	3		3	C2orf60	2	200813094	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	639571	200813094	42386279	273	82205											
CASP10	843	broad.mit.edu	37	chr2	202070608	202070608	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtacctctctttctaggtaAcagagccacaaatggtgcac	12	10	8	11	0	2	1	0	0	2	1	3	1	2	1	2	2	4	3	2	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:202070608A>C	uc002uxl.1	+	7	1143	c.725A>C	c.(724-726)AAC>ACC	p.N242T	CASP10_uc010zhn.1_Intron|CASP10_uc002uxj.1_Missense_Mutation_p.N242T|CASP10_uc002uxk.1_Intron|CASP10_uc010fta.1_Intron|CASP10_uc002uxm.1_Intron|CASP10_uc010ftb.1_Intron	NM_032974	NP_116756	Q92851	CASPA_HUMAN	caspase 10 isoform b preproprotein	242					apoptosis|induction of apoptosis by extracellular signals|proteolysis	cytosol|plasma membrane	cysteine-type endopeptidase activity|identical protein binding|protein binding			skin(3)|ovary(1)|pancreas(1)|breast(1)	6						TTTCTAGGTAACAGAGCCACA	0.443													20	54					0	0	1	0	0		C	202070608	C	C	202070608	3	2	153	1	0	0	0	0	1	0	0	0	2672	43	2	5	747	5	CASP10	2	202070608	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1257514	202070608	41128765	274	82206											
CASP8	841	broad.mit.edu	37	chr2	202141612	202141612	+	Missense_Mutation	SNP	T	A	A	0	1	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	tactgtctgatcatcaacaaTcacaattttgcaaaagcacg	15	11	5	10	1	4	1	3	1	1	0	4	1	4	1	0	0	4	2	0	0	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:202141612T>A	uc002uxr.1	+	8	932	c.723T>A	c.(721-723)AAT>AAA	p.N241K	CASP8_uc002uxo.1_Missense_Mutation_p.S220T|CASP8_uc002uxp.1_Missense_Mutation_p.N258K|CASP8_uc002uxq.1_Missense_Mutation_p.N226K|CASP8_uc002uxt.1_Missense_Mutation_p.N300K|CASP8_uc002uxu.1_RNA|CASP8_uc002uxv.1_Missense_Mutation_p.N226K|CASP8_uc002uxw.1_Missense_Mutation_p.N226K|CASP8_uc002uxy.1_Missense_Mutation_p.N241K|CASP8_uc002uxx.1_Missense_Mutation_p.N226K|CASP8_uc010ftf.2_Intron|CASP8_uc010fte.1_Missense_Mutation_p.S102T	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	241					activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						TCATCAACAATCACAATTTTG	0.433										HNSCC(4;0.00038)			5	104					0	0	1	0	0		A	202141612	A	A	202141612	3	1	153	1	0	0	0	0	1	0	0	0	2680	1435	50	5	1026	5	CASP8	2	202141612	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	71004	202141612	41057761	275	82207											
NRP2	8828	broad.mit.edu	37	chr2	206587232	206587232	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttgctcaaaaaacttcacaaGccccaacgggaccatcgaat	15	7	6	13	2	2	0	2	0	0	0	3	2	2	1	3	1	4	1	3	1	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:206587232G>A	uc002vaw.2	+	4	1255	c.464G>A	c.(463-465)AGC>AAC	p.S155N	NRP2_uc002vat.2_Missense_Mutation_p.S155N|NRP2_uc002vau.2_Missense_Mutation_p.S155N|NRP2_uc002vav.2_Missense_Mutation_p.S155N|NRP2_uc002vax.2_Missense_Mutation_p.S155N|NRP2_uc002vay.2_Missense_Mutation_p.S155N|NRP2_uc010fud.2_Missense_Mutation_p.S155N	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	155	Extracellular (Potential).|CUB 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						AACTTCACAAGCCCCAACGGG	0.463													19	71					0	0	1	0	0		A	206587232	A	A	206587232	3	1	153	1	0	0	0	0	1	0	0	0	10680	971	34	2	478	2	NRP2	2	206587232	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4445620	206587232	36612141	276	82208											
INO80D	54891	broad.mit.edu	37	chr2	206874404	206874404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggtcgacgaggtccacGccttctcttcttcttgtgtt	3	16	11	11	3	3	0	0	0	3	0	6	2	4	0	2	3	0	1	2	3	0	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:206874404G>A	uc002vaz.3	-	9	2062	c.1657C>T	c.(1657-1659)CGT>TGT	p.R553C		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	553					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						CGAGGTCCACGCCTTCTCTTC	0.542													12	41					0	0	1	0	0		A	206874404	A	A	206874404	3	1	153	1	0	0	0	0	1	0	0	0	7765	1087	38	1	1438	1	INO80D	2	206874404	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	287172	206874404	36324969	277	82209											
INO80D	54891	broad.mit.edu	37	chr2	206884472	206884472	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aaggatacgttggaaacaatGtctggtgaatggaagggctt	13	10	14	4	1	1	1	0	1	1	0	1	4	1	4	0	5	2	2	0	5	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:206884472G>A	uc002vaz.3	-	7	1801	c.1396C>T	c.(1396-1398)CAT>TAT	p.H466Y		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	466					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						TGGAAACAATGTCTGGTGAAT	0.433													9	44					0	0	1	0	0		A	206884472	A	A	206884472	3	1	153	1	0	0	0	0	1	0	0	0	7765	1377	48	4	1707	4	INO80D	2	206884472	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	10068	206884472	36314901	278	82210											
FASTKD2	22868	broad.mit.edu	37	chr2	207636937	207636937	+	Missense_Mutation	SNP	A	T	T	1	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	ggtgtcctttaagaataatgAtcaacatattgcagtcctgc	12	13	8	8	0	1	2	1	1	0	1	3	2	3	2	2	1	3	1	2	1	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:207636937A>T	uc002vbu.2	+	6	1557	c.1147A>T	c.(1147-1149)ATC>TTC	p.I383F	FASTKD2_uc002vbv.2_Missense_Mutation_p.I383F|FASTKD2_uc002vbx.2_Missense_Mutation_p.I383F|FASTKD2_uc002vbw.1_Missense_Mutation_p.I383F	NM_001136193	NP_001129665	Q9NYY8	FAKD2_HUMAN	FAST kinase domains 2	383					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|skin(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0718)|Epithelial(149;0.119)|Lung(261;0.138)		AAGAATAATGATCAACATATT	0.348													37	93					0	0	1	0	0		T	207636937	T	T	207636937	3	4	153	1	0	0	0	0	1	0	0	0	5700	333	12	5	1165	5	FASTKD2	2	207636937	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	752465	207636937	35562436	279	82211											
CRYGD	1421	broad.mit.edu	37	chr2	208988911	208988911	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtcggcatagtcgccgcgGcgcaggaagtactggaggcc	7	6	17	11	5	0	0	0	0	0	0	2	2	0	2	2	6	1	3	2	6	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:208988911G>A	uc002vcn.3	-	2	293	c.177C>T	c.(175-177)CGC>CGT	p.R59R		NM_006891	NP_008822	P07320	CRGD_HUMAN	crystallin, gamma D	59	Beta/gamma crystallin 'Greek key' 2.		R -> H (in CACA; lowered solubility; crystallizes easily).		cellular response to reactive oxygen species|visual perception	soluble fraction	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		AGTCGCCGCGGCGCAGGAAGT	0.652													7	22					0	0	1	0	0		A	208988911	A	A	208988911	2	1	153	1	0	0	0	0	0	0	0	1	3920	1190	42	2		2	CRYGD	2	208988911	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1351974	208988911	34210462	280	82212											
FN1	2335	broad.mit.edu	37	chr2	216274341	216274341	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatattccacccggaatccCgacacggtgtcggaagctga	10	8	10	13	4	1	1	1	1	0	0	4	4	3	3	3	3	1	1	3	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:216274341C>T	uc002vfa.2	-	15	2510	c.2244G>A	c.(2242-2244)TCG>TCA	p.S748S	FN1_uc002vfb.2_Silent_p.S748S|FN1_uc002vfc.2_Silent_p.S748S|FN1_uc002vfd.2_Silent_p.S748S|FN1_uc002vfe.2_Silent_p.S748S|FN1_uc002vff.2_Silent_p.S748S|FN1_uc002vfg.2_Silent_p.S748S|FN1_uc002vfh.2_Silent_p.S748S|FN1_uc002vfi.2_Silent_p.S748S|FN1_uc002vfj.2_Silent_p.S748S	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	748	Fibronectin type-III 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCCGGAATCCCGACACGGTGT	0.547													24	50					0	0	1	0	0		T	216274341	T	T	216274341	2	4	153	1	0	0	0	0	0	0	0	1	5976	639	23	1		1	FN1	2	216274341	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7285430	216274341	26925032	281	82213											
MREG	55686	broad.mit.edu	37	chr2	216809644	216809644	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccatctgccaggcatggaAccccaggcttcttggggtaa	8	8	13	12	0	2	0	0	0	2	0	2	1	2	1	4	6	2	3	4	6	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:216809644A>G	uc002vfo.2	-	5	883	c.587T>C	c.(586-588)GTT>GCT	p.V196A	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	196						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		CAGGCATGGAACCCCAGGCTT	0.498													13	47					0	0	1	0	0		G	216809644	G	G	216809644	3	3	153	1	0	0	0	0	1	0	0	0	9778	43	2	3	61	3	MREG	2	216809644	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	535303	216809644	26389729	282	82214											
RPL37A	6168	broad.mit.edu	37	chr2	217366124	217366124	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaaggagttgaaagaccaGtagacgctcctctactcttt	11	11	9	10	1	2	4	0	2	2	2	3	5	3	5	2	1	1	3	2	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:217366124G>A	uc002vgf.2	+	4	354	c.276G>A	c.(274-276)CAG>CAA	p.Q92Q	RPL37A_uc002vgg.2_3'UTR	NM_000998	NP_000989	P61513	RL37A_HUMAN	ribosomal protein L37a	92					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	metal ion binding|protein binding|structural constituent of ribosome			ovary(1)	1		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)		TGAAAGACCAGTAGACGCTCC	0.393													18	52					0	0	1	0	0		A	217366124	A	A	217366124	2	1	153	1	0	0	0	0	0	0	0	1	13615	1020	36	4		4	RPL37A	2	217366124	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	556480	217366124	25833249	283	82215											
TNS1	7145	broad.mit.edu	37	chr2	218686571	218686571	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catggccataggcctgggtgGctggagcactaaagctcttg	8	9	14	10	0	1	0	0	0	1	0	1	1	1	1	2	5	2	3	2	5	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:218686571G>T	uc002vgt.2	-	23	3550	c.3152C>A	c.(3151-3153)GCC>GAC	p.A1051D	TNS1_uc002vgr.2_Missense_Mutation_p.A1038D|TNS1_uc002vgs.2_Missense_Mutation_p.A1030D|TNS1_uc010zjv.1_Missense_Mutation_p.A1030D	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1051						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GGCCTGGGTGGCTGGAGCACT	0.647													3	5					0.004672	0.00473571	1	1	0		T	218686571	T	T	218686571	3	4	153	1	0	0	0	0	1	0	0	0	16368	1203	42	5	2099	5	TNS1	2	218686571	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1320447	218686571	24512802	284	82216											
AAMP	14	broad.mit.edu	37	chr2	219131233	219131233	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggtcttgcagtcaccattCgggactttccacatccaggt	9	11	9	12	1	2	0	1	0	1	0	5	1	4	1	3	3	1	1	3	3	1	3	rs140610263		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:219131233C>T	uc002vhk.2	-	5	696	c.612G>A	c.(610-612)CCG>CCA	p.P204P	AAMP_uc002vhj.2_Silent_p.P185P|AAMP_uc010fvo.2_Silent_p.P204P|AAMP_uc002vhl.2_Silent_p.P205P	NM_001087	NP_001078	Q13685	AAMP_HUMAN	angio-associated, migratory cell protein	204	WD 3.				angiogenesis|cell differentiation|positive regulation of endothelial cell migration|smooth muscle cell migration	cell surface|cytoplasm|plasma membrane	heparin binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;7.19e-07)|all cancers(144;0.000131)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGTCACCATTCGGGACTTTCC	0.622													18	39					0	0	1	0	0		T	219131233	T	T	219131233	2	4	153	1	0	0	0	0	0	0	0	1	17	871	31	1		1	AAMP	2	219131233	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	444662	219131233	24068140	285	82217											
FEV	54738	broad.mit.edu	37	chr2	219846723	219846723	+	Missense_Mutation	SNP	A	G	G	1	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	aggcctgcgccaggccctggAagtcgaagcggtaggcgtag	8	5	17	11	4	0	0	0	0	0	0	1	2	0	1	3	5	2	2	3	5	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:219846723A>G	uc002vji.1	-	3	965	c.383T>C	c.(382-384)TTC>TCC	p.F128S		NM_017521	NP_059991	Q99581	FEV_HUMAN	FEV (ETS oncogene family)	128					cell differentiation|nervous system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity		EWSR1/FEV(10)|FUS/FEV(2)	bone(10)|soft_tissue(2)	12		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CAGGCCCTGGAAGTCGAAGCG	0.522			T	EWSR1| FUS	Ewing sarcoma								2	7					0	0	1	0	0		G	219846723	G	G	219846723	3	3	153	1	0	0	0	0	1	0	0	0	5836	246	9	3	337	3	FEV	2	219846723	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	715490	219846723	23352650	286	82218											
ATG9A	79065	broad.mit.edu	37	chr2	220085516	220085516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctccgagccctcttcgggcaCgggctcagggtgccttgatg	4	9	14	14	3	2	1	1	1	1	0	4	2	3	1	3	3	2	2	3	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:220085516C>T	uc002vke.1	-	15	2653	c.2467G>A	c.(2467-2469)GTG>ATG	p.V823M	ABCB6_uc002vkc.1_5'Flank|ABCB6_uc010fwe.1_5'Flank|ABCB6_uc010zku.1_5'Flank|ATG9A_uc002vkd.1_RNA|ATG9A_uc002vkf.1_Missense_Mutation_p.V823M	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	823	Cytoplasmic (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		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													28	67					0	0	1	0	0		T	220085516	T	T	220085516	3	4	153	1	0	0	0	0	1	0	0	0	1103	536	19	1	60	1	ATG9A	2	220085516	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	238793	220085516	23113857	287	82219											
SPEG	10290	broad.mit.edu	37	chr2	220342646	220342646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtgctttctcctacttgCggcgcatagtggagcgtagc	5	11	15	10	3	1	0	0	0	1	0	2	1	1	1	1	4	5	3	1	4	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:220342646C>T	uc010fwg.2	+	22	4846	c.4846C>T	c.(4846-4848)CGG>TGG	p.R1616W		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1616	Protein kinase 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		CTCCTACTTGCGGCGCATAGT	0.647													30	103					0	0	1	0	0		T	220342646	T	T	220342646	3	4	153	1	0	0	0	0	1	0	0	0	15061	759	27	1	4944	1	SPEG	2	220342646	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	257130	220342646	22856727	288	82220											
ACCN4	55515	broad.mit.edu	37	chr2	220402406	220402406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcccaagacccccctgcGgacctccactgggggcatct	6	6	11	18	2	1	1	0	0	1	1	3	2	3	2	6	3	1	1	6	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:220402406G>A	uc002vma.2	+	8	1792	c.1778G>A	c.(1777-1779)CGG>CAG	p.R593Q	ACCN4_uc002vlz.2_Missense_Mutation_p.R612Q|ACCN4_uc002vmb.2_3'UTR	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	593	Cytoplasmic (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		ACCCCCCTGCGGACCTCCACT	0.607													9	34					0	0	1	0	0		A	220402406	A	A	220402406	3	1	153	1	0	0	0	0	1	0	0	0	131	1116	39	1	1869	1	ACCN4	2	220402406	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	59760	220402406	22796967	289	82221											
OBSL1	23363	broad.mit.edu	37	chr2	220418400	220418400	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tggcccccgcacgatggtcaCtgggacctctgggggtggga	5	7	17	12	2	2	0	1	0	1	0	2	3	2	2	3	6	0	1	3	6	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:220418400C>A	uc010fwk.2	-	16	4942	c.4885G>T	c.(4885-4887)GTG>TTG	p.V1629L		NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1629	Ig-like 13.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		ACGATGGTCACTGGGACCTCT	0.612											OREG0003989	type=REGULATORY REGION|Gene=AK092118|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	3	23					0.115264	0.115899	1	1	0		A	220418400	A	A	220418400	3	1	153	1	0	0	0	0	1	0	0	0	10832	565	20	5	829	5	OBSL1	2	220418400	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	15994	220418400	22780973	290	82222											
WDFY1	57590	broad.mit.edu	37	chr2	224746715	224746715	+	Silent	SNP	G	A	A	0	0	1	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	acccggacttggaactcgaaGcccatgactgggtaacttga	11	8	11	11	2	0	2	0	2	0	0	1	5	0	4	2	3	3	1	2	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:224746715G>A	uc002vnq.2	-	10	1059	c.1008C>T	c.(1006-1008)GGC>GGT	p.G336G		NM_020830	NP_065881	Q8IWB7	WDFY1_HUMAN	WD repeat and FYVE domain containing 1	336	FYVE-type.					cytosol|early endosome|nucleus	1-phosphatidylinositol binding|zinc ion binding			lung(1)	1		all_lung(227;0.00682)|Lung NSC(271;0.00859)|Renal(207;0.0112)|all_hematologic(139;0.189)		Epithelial(121;5.34e-10)|all cancers(144;1.67e-07)|Lung(261;0.00807)|LUSC - Lung squamous cell carcinoma(224;0.00843)		GGAACTCGAAGCCCATGACTG	0.493													74	266					0	0	1	0	0		A	224746715	A	A	224746715	2	1	153	1	0	0	0	0	0	0	0	1	17294	958	34	2		2	WDFY1	2	224746715	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4328315	224746715	18452658	291	82223											
DOCK10	55619	broad.mit.edu	37	chr2	225666646	225666646	+	Silent	SNP	G	A	A	0	0	1	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	tacttactggtcatggtattGtctaacatctgtaagagttt	10	17	8	6	0	3	1	1	0	2	1	3	1	3	1	0	2	3	3	0	2	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:225666646G>A	uc010fwz.1	-	40	4619	c.4380C>T	c.(4378-4380)GAC>GAT	p.D1460D	DOCK10_uc002vob.2_Silent_p.D1454D|DOCK10_uc002voa.2_Silent_p.D116D|DOCK10_uc002voc.2_Silent_p.D314D	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1460							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TCATGGTATTGTCTAACATCT	0.378													57	220					0	0	1	0	0		A	225666646	A	A	225666646	2	1	153	1	0	0	0	0	0	0	0	1	4691	1368	48	4		4	DOCK10	2	225666646	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	919931	225666646	17532727	292	82224											
IRS1	3667	broad.mit.edu	37	chr2	227663330	227663330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgtagtactcgaggcgcGccgggcccccagcctcgctg	4	7	13	17	6	1	0	0	0	1	0	4	1	1	0	4	2	2	3	4	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:227663330G>A	uc002voh.3	-	1	177	c.125C>T	c.(124-126)GCG>GTG	p.A42V		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	42	PH.|Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CTCGAGGCGCGCCGGGCCCCC	0.632													18	51					0	0	1	0	0		A	227663330	A	A	227663330	3	1	153	1	0	0	0	0	1	0	0	0	7856	1087	38	1	3607	1	IRS1	2	227663330	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1996684	227663330	15536043	293	82225											
HTR2B	3357	broad.mit.edu	37	chr2	231973769	231973769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccaattgtggatgttcttCgcataagtgtttcatcacct	8	16	7	10	1	3	0	2	0	1	0	5	1	4	1	2	1	0	3	2	1	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:231973769C>T	uc002vro.2	-	4	1413	c.908G>A	c.(907-909)CGA>CAA	p.R303Q	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Missense_Mutation_p.R236Q	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	303	Cytoplasmic (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	GGATGTTCTTCGCATAAGTGT	0.468													65	228					0	0	1	0	0		T	231973769	T	T	231973769	3	4	153	1	0	0	0	0	1	0	0	0	7458	884	31	1	541	1	HTR2B	2	231973769	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4310439	231973769	11225604	294	82226											
NGEF	25791	broad.mit.edu	37	chr2	233834974	233834974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	attgctgttctgcaaggaggCattctgctccaggggatatt	8	13	12	8	0	2	0	0	0	2	0	3	2	3	2	1	4	3	5	1	4	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:233834974C>T	uc002vts.2	-	3	581	c.333G>A	c.(331-333)ATG>ATA	p.M111I		NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	111	Regulatory region; modulates activity toward RHOA, RAC1 and CDC42 (By similarity).				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		TGCAAGGAGGCATTCTGCTCC	0.468													45	151					0	0	1	0	0		T	233834974	T	T	233834974	3	4	153	1	0	0	0	0	1	0	0	0	10413	710	25	2	1962	2	NGEF	2	233834974	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1861205	233834974	9364399	295	82227											
UGT1A6	54578	broad.mit.edu	37	chr2	234602124	234602124	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gccttaccctgtggggtgatCctggctgagtatttgggcct	4	13	14	10	0	0	2	0	2	0	0	1	2	1	2	4	4	1	2	4	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:234602124C>T	uc002vuv.3	+	1	613	c.474C>T	c.(472-474)ATC>ATT	p.I158I	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Silent_p.I158I	NM_001072	NP_001063	P19224	UD16_HUMAN	UDP glycosyltransferase 1 family, polypeptide A6	158					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity				0		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;5.86e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000384)|Lung(119;0.00306)|LUSC - Lung squamous cell carcinoma(224;0.00702)		GTGGGGTGATCCTGGCTGAGT	0.532													59	211					0	0	1	0	0		T	234602124	T	T	234602124	2	4	153	1	0	0	0	0	0	0	0	1	16975	845	30	4		4	UGT1A6	2	234602124	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	767150	234602124	8597249	296	82228											
RBM44	375316	broad.mit.edu	37	chr2	238728937	238728937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcactatcagatgtgtcGtcgccattgttgtgatattt	7	18	9	7	2	2	2	2	1	0	1	4	2	2	2	1	0	0	2	1	0	2	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:238728937G>A	uc002vxi.3	+	5	1991	c.1859G>A	c.(1858-1860)CGT>CAT	p.R620H		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	619							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		CAGATGTGTCGTCGCCATTGT	0.348													7	36					0	0	1	0	0		A	238728937	A	A	238728937	3	1	153	1	0	0	0	0	1	0	0	0	13163	1145	40	1	1873	1	RBM44	2	238728937	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4126813	238728937	4470436	297	82229											
ESPNL	339768	broad.mit.edu	37	chr2	239038938	239038938	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccgctgtcaggagtatgagaGtgagctgggccggttggcgg	6	8	19	8	3	1	2	1	2	0	1	1	4	1	3	2	5	1	4	2	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:239038938G>A	uc002vxq.3	+	9	1693	c.1583G>A	c.(1582-1584)AGT>AAT	p.S528N	ESPNL_uc010fyw.2_Missense_Mutation_p.S224N	NM_194312	NP_919288	Q6ZVH7	ESPNL_HUMAN	espin-like	528	Potential.									pancreas(1)	1		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;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		GAGTATGAGAGTGAGCTGGGC	0.662													4	9					0	0	1	0	0		A	239038938	A	A	239038938	3	1	153	1	0	0	0	0	1	0	0	0	5263	1029	36	4	1617	4	ESPNL	2	239038938	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	310001	239038938	4160435	298	82230											
HDLBP	3069	broad.mit.edu	37	chr2	242169295	242169295	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtcccgcaccacaaagcCtctggaaggtgccttggcct	7	8	11	15	2	1	0	0	0	1	0	2	1	2	1	5	3	3	1	5	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr2:242169295C>A	uc002waz.2	-	27	3901	c.3673G>T	c.(3673-3675)GGC>TGC	p.G1225C	HDLBP_uc002wba.2_Missense_Mutation_p.G1225C|HDLBP_uc002wbb.2_Missense_Mutation_p.G1177C	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	1225					cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		ACCACAAAGCCTCTGGAAGGT	0.642													4	11					1	1	1	1	0		A	242169295	A	A	242169295	3	1	153	1	0	0	0	0	1	0	0	0	7041	681	24	5	141	5	HDLBP	2	242169295	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3130357	242169295	1030078	299	82231											
ITPR1	3708	broad.mit.edu	37	chr3	4810193	4810193	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgccttatgcttgctttctAgctaaagagcccacaacaca	12	11	6	12	0	1	1	0	0	1	1	1	1	1	1	2	0	6	3	2	0	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:4810193A>T	uc003bqa.2	+	43	5930	c.5582_splice	c.e43-2	p.A1861_splice	ITPR1_uc010hca.1_Splice_Site_p.A1846_splice|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Splice_Site_p.A831_splice	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1						activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		CTTGCTTTCTAGCTAAAGAGC	0.522													22	43					0	0	1	0	0		T	4810193	T	T	4810193	5	4	153	1	0	0	0	0	0	0	1	0	7936	434	15	5	5898	5	ITPR1	3	4810193	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08		4810193	193212237	300	82232											
BRPF1	7862	broad.mit.edu	37	chr3	9780731	9780731	+	Silent	SNP	C	T	T	0	0	0	1	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	gacgaggaagtagagtatgaCatggacgaggaggactacat	15	6	15	5	2	0	2	0	1	0	1	0	9	0	6	0	4	1	2	0	4	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:9780731C>T	uc003bse.2	+	3	1047	c.648C>T	c.(646-648)GAC>GAT	p.D216D	BRPF1_uc003bsf.2_Silent_p.D216D|BRPF1_uc003bsg.2_Silent_p.D216D|BRPF1_uc011ati.1_Silent_p.D216D	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	216	Interaction with MYST3 and MYST4.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					TAGAGTATGACATGGACGAGG	0.502													30	43					0	0	1	0	0		T	9780731	T	T	9780731	2	4	153	1	0	0	0	0	0	0	0	1	1523	477	17	4		4	BRPF1	3	9780731	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4970538	9780731	188241699	301	82233											
SEC13	6396	broad.mit.edu	37	chr3	10357003	10357004	+	Splice_Site	INS	-	C	C																															cctgggctcgccagcacttaINSccccctgaggtcggcgataa																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:10357003_10357004insC	uc003bvn.2	-	3	283	c.164_splice	c.e3+1	p.G55_splice	SEC13_uc003bvl.2_5'Flank|SEC13_uc003bvm.2_Splice_Site_p.G41_splice|SEC13_uc003bvp.2_Splice_Site_p.G58_splice|SEC13_uc003bvo.2_Splice_Site_p.G101_splice|SEC13_uc003bvq.1_Splice_Site_p.G41_splice|SEC13_uc003bvr.1_Splice_Site_p.G41_splice|SEC13_uc011aul.1_Splice_Site_p.G55_splice	NM_183352	NP_899195	P55735	SEC13_HUMAN	SEC13 protein isoform 1						COPII vesicle coating|intracellular protein transport|mitotic prometaphase|mRNA transport|post-translational protein modification|protein N-linked glycosylation via asparagine|transmembrane transport	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Nup107-160 complex	protein binding			ovary(1)	1						GCCAGCACTTACCCCCTGAGGT	0.579													21	42	---	---	---	---						.	C	10357004	C	C	10357003	8	5	153	1	0	1	1	0	0	0	1	0	14005	405	14	0	830	0	SEC13	3	10357003	Splice_Site	INS	-	TCGA-CG-5723-01A-11D-1600-08	576272	10357003	187665427	302	82234											
ATP2B2	491	broad.mit.edu	37	chr3	10387766	10387766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcccgtcgttggtcccGtcccccgtcacggccaccac	4	6	11	20	5	1	0	1	0	0	0	4	0	3	0	6	3	0	2	6	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:10387766G>A	uc003bvt.2	-	17	2899	c.2460C>T	c.(2458-2460)GAC>GAT	p.D820D	ATP2B2_uc003bvv.2_Silent_p.D775D|ATP2B2_uc003bvw.2_Silent_p.D775D|ATP2B2_uc010hdo.2_Silent_p.D525D	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	820	Cytoplasmic (Potential).	Magnesium (By similarity).			ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CGTTGGTCCCGTCCCCCGTCA	0.677													12	26					0	0	1	0	0		A	10387766	A	A	10387766	2	1	153	1	0	0	0	0	0	0	0	1	1141	1136	40	1		1	ATP2B2	3	10387766	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	30763	10387766	187634664	303	82235											
HRH1	3269	broad.mit.edu	37	chr3	11301400	11301400	+	Missense_Mutation	SNP	T	G	G	0	1	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	acactgccagcaccgggagcTcatcaataggtccctccctt	9	8	8	16	1	2	0	2	0	0	0	4	1	4	1	4	2	3	2	4	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:11301400T>G	uc010hdr.2	+	2	1019	c.677T>G	c.(676-678)CTC>CGC	p.L226R	HRH1_uc010hds.2_Missense_Mutation_p.L226R|HRH1_uc010hdt.2_Missense_Mutation_p.L226R|HRH1_uc003bwb.3_Missense_Mutation_p.L226R	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1	226	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	CACCGGGAGCTCATCAATAGG	0.537													67	103					0	0	1	0	0		G	11301400	G	G	11301400	3	3	153	1	0	0	0	0	1	0	0	0	7371	1551	54	5	679	5	HRH1	3	11301400	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	913634	11301400	186721030	304	82236											
ATG7	10533	broad.mit.edu	37	chr3	11382179	11382179	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggcatgggaccaaggatggTgaacctcagtgaatgtatgg	12	8	15	6	0	1	2	1	2	0	0	1	4	1	4	2	5	1	2	2	5	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:11382179T>C	uc003bwc.2	+	10	1067	c.950T>C	c.(949-951)GTG>GCG	p.V317A	ATG7_uc003bwd.2_Missense_Mutation_p.V317A|ATG7_uc011aum.1_Missense_Mutation_p.V278A	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	317					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						CCAAGGATGGTGAACCTCAGT	0.433													10	69					0	0	1	0	0		C	11382179	C	C	11382179	3	2	153	1	0	0	0	0	1	0	0	0	1102	1696	59	3	984	3	ATG7	3	11382179	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	80779	11382179	186640251	305	82237											
RAF1	5894	broad.mit.edu	37	chr3	12660191	12660191	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatccaaaaccattgctgatCgtcttccaagctccctgtat	11	12	5	13	1	1	1	0	1	1	0	5	1	4	1	4	0	3	3	4	0	5	3	rs140806518	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:12660191C>T	uc003bxf.3	-	2	445	c.30G>A	c.(28-30)ACG>ACA	p.T10T	RAF1_uc011auu.1_5'UTR	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	10					activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	CATTGCTGATCGTCTTCCAAG	0.428			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				22	69					0	0	1	0	0		T	12660191	T	T	12660191	2	4	153	1	0	0	0	0	0	0	0	1	13027	871	31	1		1	RAF1	3	12660191	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1278012	12660191	185362239	306	82238											
IQSEC1	9922	broad.mit.edu	37	chr3	12977583	12977583	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aggtccgactcggtgctggaCggccggtcccctgcctgcga	4	7	15	15	5	0	0	0	0	0	0	3	3	2	1	5	5	3	1	5	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:12977583C>T	uc003bxt.2	-	3	984	c.975G>A	c.(973-975)CCG>CCA	p.P325P	IQSEC1_uc003bxu.3_Silent_p.P203P|IQSEC1_uc011auw.1_Silent_p.P311P	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	325					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						CGGTGCTGGACGGCCGGTCCC	0.662													16	27					0	0	1	0	0		T	12977583	T	T	12977583	2	4	153	1	0	0	0	0	0	0	0	1	7833	523	19	1		1	IQSEC1	3	12977583	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	317392	12977583	185044847	307	82239											
GRIP2	80852	broad.mit.edu	37	chr3	14564529	14564529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcggcagggccaccgggccGcacgtaggtcaggacaagcg	8	3	17	13	5	1	0	1	0	0	0	2	1	1	1	3	5	1	3	3	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:14564529G>A	uc011avi.1	-	7	835	c.835C>T	c.(835-837)CGG>TGG	p.R279W	GRIP2_uc011avh.1_5'UTR|GRIP2_uc003byu.1_3'UTR|GRIP2_uc003byv.1_3'UTR	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	182	PDZ 2.				synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						CCACCGGGCCGCACGTAGGTC	0.512													10	72					0	0	1	0	0		A	14564529	A	A	14564529	3	1	153	1	0	0	0	0	1	0	0	0	6804	1086	38	1	2665	1	GRIP2	3	14564529	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1586946	14564529	183457901	308	82240											
GRIP2	80852	broad.mit.edu	37	chr3	14564548	14564548	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacgtaggtcaggacaagCgggcgggacttgtgcccatc	8	6	15	12	4	1	0	1	0	0	0	2	2	1	2	1	4	2	2	1	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:14564548C>T	uc011avi.1	-	7	816	c.816G>A	c.(814-816)CCG>CCA	p.P272P	GRIP2_uc011avh.1_5'UTR|GRIP2_uc003byu.1_3'UTR|GRIP2_uc003byv.1_3'UTR	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	175	PDZ 2.				synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						TCAGGACAAGCGGGCGGGACT	0.572													44	55					0	0	1	0	0		T	14564548	T	T	14564548	2	4	153	1	0	0	0	0	0	0	0	1	6804	755	27	1		1	GRIP2	3	14564548	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	19	14564548	183457882	309	82241											
C3orf20	84077	broad.mit.edu	37	chr3	14769959	14769959	+	Silent	SNP	T	C	C	0	1	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	ttaacaggtctgtttaccatTgaatatcccaccaaaaagga	15	11	6	9	0	1	1	0	1	1	0	2	2	2	2	3	2	2	1	3	2	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:14769959T>C	uc003byy.2	+	12	2108	c.1704T>C	c.(1702-1704)ATT>ATC	p.I568I	C3orf20_uc003byz.2_Silent_p.I446I|C3orf20_uc003bza.2_Silent_p.I446I|C3orf20_uc003bzb.1_Silent_p.I69I	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	568						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						TGTTTACCATTGAATATCCCA	0.483													18	83					0	0	1	0	0		C	14769959	C	C	14769959	2	2	153	1	0	0	0	0	0	0	0	1	2216	1800	63	3		3	C3orf20	3	14769959	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	205411	14769959	183252471	310	82242											
FGD5	152273	broad.mit.edu	37	chr3	14863039	14863039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacgaaaatgatggctacGtggacatgagcagcttcaac	15	7	10	9	2	1	2	1	2	0	0	1	4	1	3	0	2	5	3	0	2	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:14863039G>A	uc003bzc.2	+	1	2571	c.2461G>A	c.(2461-2463)GTG>ATG	p.V821M	FGD5_uc011avk.1_Missense_Mutation_p.V821M	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	821					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						TGATGGCTACGTGGACATGAG	0.512													26	90					0	0	1	0	0		A	14863039	A	A	14863039	3	1	153	1	0	0	0	0	1	0	0	0	5850	1145	40	1	2463	1	FGD5	3	14863039	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	93080	14863039	183159391	311	82243											
RFTN1	23180	broad.mit.edu	37	chr3	16358486	16358486	+	Missense_Mutation	SNP	A	G	G	1	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	cagcctcaccctccacacccAccccacacagcaggccacca	11	2	4	24	0	1	0	1	0	0	0	2	0	2	0	8	1	2	1	8	1	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:16358486A>G	uc003cay.2	-	10	1868	c.1586T>C	c.(1585-1587)GTG>GCG	p.V529A	RFTN1_uc010hes.2_Missense_Mutation_p.V493A|OXNAD1_uc003cax.2_Intron|OXNAD1_uc011awb.1_Intron	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	529						plasma membrane				ovary(3)|central_nervous_system(1)	4						CTCCACACCCACCCCACACAG	0.632													9	136					0	0	1	0	0		G	16358486	G	G	16358486	3	3	153	1	0	0	0	0	1	0	0	0	13283	159	6	3	154	3	RFTN1	3	16358486	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1495447	16358486	181663944	312	82244											
RFTN1	23180	broad.mit.edu	37	chr3	16419565	16419565	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaggaatggtactgaggTataacaccaacgaatttcag	16	8	10	7	1	1	2	1	1	0	1	1	4	1	3	1	3	3	2	1	3	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:16419565T>C	uc003cay.2	-	5	768	c.486A>G	c.(484-486)ATA>ATG	p.I162M	RFTN1_uc010hes.2_Missense_Mutation_p.I126M	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	162						plasma membrane				ovary(3)|central_nervous_system(1)	4						GGTACTGAGGTATAACACCAA	0.517													23	49					0	0	1	0	0		C	16419565	C	C	16419565	3	2	153	1	0	0	0	0	1	0	0	0	13283	1628	57	3	1274	3	RFTN1	3	16419565	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	61079	16419565	181602865	313	82245											
TBC1D5	9779	broad.mit.edu	37	chr3	17255739	17255739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgctgtgtgagcgagaaCgtgagatgttgctaaaaaag	12	12	13	4	2	0	3	0	2	0	2	0	5	0	3	0	0	4	3	0	0	4	4	rs138674365		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:17255739C>T	uc003cbf.2	-	18	3377	c.1712G>A	c.(1711-1713)CGT>CAT	p.R571H	TBC1D5_uc010heu.2_Missense_Mutation_p.R158H|TBC1D5_uc010hev.2_Missense_Mutation_p.R593H|TBC1D5_uc003cbe.2_Missense_Mutation_p.R571H|TBC1D5_uc010hew.1_Missense_Mutation_p.R545H	NM_014744	NP_055559	Q92609	TBCD5_HUMAN	TBC1 domain family, member 5 isoform b	571						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						TGAGCGAGAACGTGAGATGTT	0.408													48	96					0	0	1	0	0		T	17255739	T	T	17255739	3	4	153	1	0	0	0	0	1	0	0	0	15648	536	19	1	695	1	TBC1D5	3	17255739	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	836174	17255739	180766691	314	82246											
RARB	5915	broad.mit.edu	37	chr3	25622169	25622169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttcactggcttgaccatcGcagaccaaattaccctgctg	9	11	8	13	1	1	2	1	1	0	1	2	2	1	2	3	1	2	4	3	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:25622169G>A	uc011awl.1	+	5	829	c.763G>A	c.(763-765)GCA>ACA	p.A255T	RARB_uc003cdi.1_Missense_Mutation_p.A136T|RARB_uc003cdh.2_Missense_Mutation_p.A248T	NM_016152	NP_057236	P10826	RARB_HUMAN	retinoic acid receptor, beta isoform 2	255	Ligand-binding.				embryonic digestive tract development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	protein binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|large_intestine(1)|pancreas(1)	3					Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)|Tamibarotene(DB04942)|Tazarotene(DB00799)	CTTGACCATCGCAGACCAAAT	0.502													33	55					0	0	1	0	0		A	25622169	A	A	25622169	3	1	153	1	0	0	0	0	1	0	0	0	13078	1087	38	1	760	1	RARB	3	25622169	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8366430	25622169	172400261	315	82247											
STT3B	201595	broad.mit.edu	37	chr3	31621466	31621466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaactttggaaccaaggaGcaggacttttagctgcttgt	11	11	12	7	0	0	1	0	0	0	1	0	5	0	4	1	3	5	3	1	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:31621466G>A	uc011axe.1	+	3	589	c.589G>A	c.(589-591)GCA>ACA	p.A197T	STT3B_uc010hft.1_Missense_Mutation_p.A197T|STT3B_uc003cer.1_Missense_Mutation_p.A197T	NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	197	Helical; (Potential).				protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0						GAACCAAGGAGCAGGACTTTT	0.408													65	267					0	0	1	0	0		A	31621466	A	A	31621466	3	1	153	1	0	0	0	0	1	0	0	0	15359	971	34	2	599	2	STT3B	3	31621466	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5999297	31621466	166400964	316	82248											
TRIM71	131405	broad.mit.edu	37	chr3	32932581	32932581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgaccgcagcaacaacCgcatccaggtgttcaagccc	10	5	9	17	4	1	0	1	0	0	0	3	1	2	0	5	1	4	4	5	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:32932581C>T	uc003cff.2	+	4	1948	c.1885C>T	c.(1885-1887)CGC>TGC	p.R629C		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	629	NHL 1.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						CAGCAACAACCGCATCCAGGT	0.642													19	15					0	0	1	0	0		T	32932581	T	T	32932581	3	4	153	1	0	0	0	0	1	0	0	0	16570	652	23	1	1899	1	TRIM71	3	32932581	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1311115	32932581	165089849	317	82249											
MLH1	4292	broad.mit.edu	37	chr3	37053550	37053550	+	Frame_Shift_Del	DEL	G	-	-																															cactacccaatgcctcaaccGtggacaatattcgctccatc																								rs2308317	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:37053550delG	uc003cgl.2	+	8	697	c.637delG	c.(637-639)GTGfs	p.V213fs	MLH1_uc011aye.1_5'UTR|MLH1_uc011ayb.1_5'UTR|MLH1_uc010hge.2_Frame_Shift_Del_p.V213fs|MLH1_uc003cgn.3_5'UTR|MLH1_uc011ayc.1_Frame_Shift_Del_p.V115fs|MLH1_uc011ayd.1_5'UTR|MLH1_uc003cgo.2_5'UTR|MLH1_uc010hgg.1_5'UTR|MLH1_uc010hgh.1_5'UTR|MLH1_uc010hgi.1_5'UTR|MLH1_uc010hgj.1_5'UTR|MLH1_uc010hgk.2_5'UTR|MLH1_uc010hgl.1_5'Flank	NM_000249	NP_000240	P40692	MLH1_HUMAN	MutL protein homolog 1	213					mismatch repair|somatic hypermutation of immunoglobulin genes	chiasma|MutLalpha complex|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|protein binding	p.0?(1)		large_intestine(40)|haematopoietic_and_lymphoid_tissue(8)|ovary(6)|pancreas(5)|stomach(3)|central_nervous_system(3)|endometrium(3)|breast(3)|prostate(3)|skin(2)|NS(1)	77						TGCCTCAACCGTGGACAATAT	0.383		1	D|Mis|N|F|S		colorectal|endometrial|ovarian|CNS	colorectal|endometrial|ovarian|CNS		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				76	101	---	---	---	---						.	-	37053550	-	-	37053550	7	5	153	1	0	1	0	1	0	0	0	0	9635	1145	40	0	667	0	MLH1	3	37053550	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	4120969	37053550	160968880	318	82250											
GOLGA4	2803	broad.mit.edu	37	chr3	37367422	37367422	+	Missense_Mutation	SNP	T	A	A	0	1	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	cacagttgaagaaagagttaTctgaaaacatcaatgctgtc	16	10	8	7	0	2	4	1	2	1	2	3	4	2	4	0	0	2	3	0	0	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:37367422T>A	uc003cgv.2	+	14	4349	c.4045T>A	c.(4045-4047)TCT>ACT	p.S1349T	GOLGA4_uc010hgr.1_Missense_Mutation_p.S910T|GOLGA4_uc003cgw.2_Missense_Mutation_p.S1371T|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.S1230T	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1349	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GAAAGAGTTATCTGAAAACAT	0.353													33	32					0	0	1	0	0		A	37367422	A	A	37367422	3	1	153	1	0	0	0	0	1	0	0	0	6570	1435	50	5	4169	5	GOLGA4	3	37367422	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	313872	37367422	160655008	319	82251											
ITGA9	3680	broad.mit.edu	37	chr3	37523078	37523078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctccaggccaaaggcaggaCgctgatcccttgctatgaag	10	7	11	13	1	0	2	0	2	0	0	2	3	2	3	4	3	1	3	4	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:37523078C>T	uc003chd.2	+	4	577	c.524C>T	c.(523-525)ACG>ATG	p.T175M	ITGA9_uc003chc.2_Missense_Mutation_p.T175M	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor	175	Extracellular (Potential).				axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		AAAGGCAGGACGCTGATCCCT	0.547													87	92					0	0	1	0	0		T	37523078	T	T	37523078	3	4	153	1	0	0	0	0	1	0	0	0	7899	536	19	1	538	1	ITGA9	3	37523078	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	155656	37523078	160499352	320	82252											
SCN10A	6336	broad.mit.edu	37	chr3	38763811	38763811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcaaaccagctgtgctccaCgatacggtagcaagtcttgc	10	9	9	13	2	2	0	1	0	1	0	3	1	3	0	2	1	6	4	2	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:38763811C>T	uc003ciq.2	-	19	3445	c.3445G>A	c.(3445-3447)GTG>ATG	p.V1149M		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1149	III.|Helical; Name=S1 of repeat III; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTGTGCTCCACGATACGGTAG	0.562													54	53					0	0	1	0	0		T	38763811	T	T	38763811	3	4	153	1	0	0	0	0	1	0	0	0	13937	536	19	1	2461	1	SCN10A	3	38763811	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1240733	38763811	159258619	321	82253											
SCN11A	11280	broad.mit.edu	37	chr3	38892065	38892065	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagattttgatgagacattCtaacgtaaagatgaccacaa	18	10	7	6	1	1	5	0	3	1	3	1	6	1	5	1	0	1	1	1	0	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:38892065C>A	uc011ays.1	-	25	4433	c.4234G>T	c.(4234-4236)GAA>TAA	p.E1412*	SCN11A_uc003cis.1_Nonsense_Mutation_p.E77*	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1412	IV.|Helical; Name=S2 of repeat IV; (By similarity).				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	ATGAGACATTCTAACGTAAAG	0.393													58	206					3.84483e-29	4.16887e-29	1	1	0		A	38892065	A	A	38892065	4	1	153	1	0	0	0	0	0	1	0	0	13938	922	32	5	1149	5	SCN11A	3	38892065	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	128254	38892065	159130365	322	82254											
SCN11A	11280	broad.mit.edu	37	chr3	38949543	38949543	+	Frame_Shift_Del	DEL	T	-	-																															tattaccaaagagctttctcTtttttggggtaaaatatgat																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:38949543delT	uc011ays.1	-	10	1569	c.1370delA	c.(1369-1371)AAGfs	p.K457fs		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	457					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GAGCTTTCTCTTTTTTGGGGT	0.388													110	139	---	---	---	---						.	-	38949543	-	-	38949543	7	5	153	1	0	1	0	1	0	0	0	0	13938	1609	56	0	4073	0	SCN11A	3	38949543	Frame_Shift_Del	DEL	T	TCGA-CG-5723-01A-11D-1600-08	57478	38949543	159072887	323	82255											
CCDC13	152206	broad.mit.edu	37	chr3	42794103	42794103	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatgcgattggtcagctgCttcaccctggtttttgcacc	5	14	11	11	1	2	0	2	0	0	0	2	2	2	1	2	3	4	4	2	3	0	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:42794103C>T	uc003cly.3	-	4	561	c.477G>A	c.(475-477)AAG>AAA	p.K159K	CCDC13_uc003clz.2_Silent_p.K159K|CCDC13_uc011azq.1_Silent_p.K159K	NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	159	Potential.									ovary(1)	1						TGGTCAGCTGCTTCACCCTGG	0.572													45	47					0	0	1	0	0		T	42794103	T	T	42794103	2	4	153	1	0	0	0	0	0	0	0	1	2768	796	28	2		2	CCDC13	3	42794103	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3844560	42794103	155228327	324	82256											
KIF15	56992	broad.mit.edu	37	chr3	44828026	44828026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagtctttgttgttggtgCggtggagcaggtggtaacct	5	13	18	5	1	1	0	0	0	1	0	1	2	1	2	1	6	3	4	1	6	1	4	rs145837852		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:44828026C>T	uc003cnx.3	+	7	748	c.599C>T	c.(598-600)GCG>GTG	p.A200V	KIF15_uc010hiq.2_Missense_Mutation_p.A103V	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	200	Kinesin-motor.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		GTTGTTGGTGCGGTGGAGCAG	0.483													45	50					0	0	1	0	0		T	44828026	T	T	44828026	3	4	153	1	0	0	0	0	1	0	0	0	8293	768	27	1	625	1	KIF15	3	44828026	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2033923	44828026	153194404	325	82257											
DHX30	22907	broad.mit.edu	37	chr3	47890175	47890175	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctggctcacatctccacCgacccccggttggccaaggc	6	6	10	19	3	2	0	1	0	1	0	3	1	2	0	6	4	0	2	6	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:47890175C>T	uc003cru.2	+	17	3063	c.2637C>T	c.(2635-2637)ACC>ACT	p.T879T	DHX30_uc003crt.2_Silent_p.T840T|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	879						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		ACATCTCCACCGACCCCCGGT	0.642													32	31					0	0	1	0	0		T	47890175	T	T	47890175	2	4	153	1	0	0	0	0	0	0	0	1	4510	639	23	1		1	DHX30	3	47890175	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3062149	47890175	150132255	326	82258											
CCDC51	79714	broad.mit.edu	37	chr3	48476334	48476334	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cgctcgttgctgaatgctgtGccccagggctcttcccagtg	4	11	12	14	2	1	1	0	1	1	0	3	1	2	1	3	1	3	5	3	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:48476334G>A	uc003csz.2	-	2	326	c.205C>T	c.(205-207)CAC>TAC	p.H69Y	CCDC51_uc003cta.2_5'UTR|CCDC51_uc003ctb.2_5'UTR|CCDC51_uc003ctc.2_Missense_Mutation_p.H69Y|CCDC51_uc003ctd.2_5'UTR	NM_024661	NP_078937	Q96ER9	CCD51_HUMAN	coiled-coil domain containing 51	69						integral to membrane					0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		TGAATGCTGTGCCCCAGGGCT	0.612													53	54					0	0	1	0	0		A	48476334	A	A	48476334	3	1	153	1	0	0	0	0	1	0	0	0	2824	1319	46	2	1042	2	CCDC51	3	48476334	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	586159	48476334	149546096	327	82259											
ATRIP	84126	broad.mit.edu	37	chr3	48506346	48506346	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctgtctgcgggacacggtGctgctgctgcacggcctatc	4	9	14	14	4	1	0	0	0	1	0	2	1	1	1	1	3	5	5	1	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:48506346G>A	uc003ctf.1	+	12	2204	c.2172G>A	c.(2170-2172)GTG>GTA	p.V724V	ATRIP_uc011bbj.1_Silent_p.V597V|ATRIP_uc003ctg.1_Silent_p.V697V|TREX1_uc010hjy.2_5'UTR|TREX1_uc003ctj.2_5'UTR|TREX1_uc003ctk.2_5'Flank|TREX1_uc010hjz.2_5'Flank|TREX1_uc010hka.2_5'Flank	NM_130384	NP_569055	Q8WXE1	ATRIP_HUMAN	ATR interacting protein isoform 1	724					DNA damage checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding|protein serine/threonine kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GGGACACGGTGCTGCTGCTGC	0.632								Other_conserved_DNA_damage_response_genes					21	36					0	0	1	0	0		A	48506346	A	A	48506346	2	1	153	1	0	0	0	0	0	0	0	1	1206	1306	46	2		2	ATRIP	3	48506346	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	30012	48506346	149516084	328	82260											
COL7A1	1294	broad.mit.edu	37	chr3	48602622	48602622	+	Frame_Shift_Del	DEL	G	-	-																															cagagtactcatcatcctcaGggggtacccgctctgcaggt																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:48602622delG	uc003ctz.2	-	116	8541	c.8540delC	c.(8539-8541)CCTfs	p.P2847fs	UCN2_uc003cty.1_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2847	Nonhelical region (NC2).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		ATCATCCTCAGGGGGTACCCG	0.592													26	40	---	---	---	---						.	-	48602622	-	-	48602622	7	5	153	1	0	1	0	1	0	0	0	0	3707	1000	35	0	306	0	COL7A1	3	48602622	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	96276	48602622	149419808	329	82261											
COL7A1	1294	broad.mit.edu	37	chr3	48623373	48623373	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcgatgagggactcttacCtttggacaatacactgggca	10	11	10	10	1	2	1	0	1	2	0	3	4	2	3	1	3	2	1	1	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:48623373C>A	uc003ctz.2	-	28	3760	c.3759G>T	c.(3757-3759)AAG>AAT	p.K1253N		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1253	Nonhelical region (NC1).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GGACTCTTACCTTTGGACAAT	0.562													59	61					9.68594e-22	1.04458e-21	1	1	0		A	48623373	A	A	48623373	3	1	153	1	0	0	0	0	1	0	0	0	3707	695	24	5	5439	5	COL7A1	3	48623373	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	20751	48623373	149399057	330	82262											
IP6K2	51447	broad.mit.edu	37	chr3	48732686	48732686	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaaggacgcctttggcGcggggctccacatccatggc	7	7	13	14	3	0	1	0	0	0	1	3	2	3	2	4	5	0	1	4	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:48732686G>A	uc003cup.2	-	2	283	c.39C>T	c.(37-39)CGC>CGT	p.R13R	IP6K2_uc003cuq.2_Silent_p.R13R|IP6K2_uc011bbq.1_Silent_p.R13R|IP6K2_uc011bbr.1_Silent_p.R13R|IP6K2_uc003cur.2_Silent_p.R13R|IP6K2_uc003cus.2_Silent_p.R13R|IP6K2_uc003cut.2_RNA|IP6K2_uc011bbs.1_RNA|IP6K2_uc011bbt.1_Silent_p.R68R|IP6K2_uc003cuv.1_Missense_Mutation_p.R139C|IP6K2_uc011bbu.1_Silent_p.R67R|IP6K2_uc011bbv.1_Silent_p.R71R|IP6K2_uc003cuw.1_Missense_Mutation_p.R138C	NM_001005909	NP_001005909	Q9UHH9	IP6K2_HUMAN	inositol hexaphosphate kinase 2 isoform a	13					negative regulation of cell growth|phosphatidylinositol phosphorylation|positive regulation of apoptosis|type I interferon-mediated signaling pathway	intermediate filament cytoskeleton|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						CGCCTTTGGCGCGGGGCTCCA	0.657													33	38					0	0	1	0	0		A	48732686	A	A	48732686	2	1	153	1	0	0	0	0	0	0	0	1	7805	1074	38	1		1	IP6K2	3	48732686	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	109313	48732686	149289744	331	82263											
P4HTM	54681	broad.mit.edu	37	chr3	49042326	49042326	+	Missense_Mutation	SNP	T	G	G	0	1	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	cactcgcctgtcgcctgagaTcgtggagctcagcgagccgc	6	7	13	15	5	1	1	1	1	0	1	4	4	1	2	3	1	3	1	3	1	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:49042326T>G	uc003cvg.2	+	6	1269	c.920T>G	c.(919-921)ATC>AGC	p.I307S	P4HTM_uc003cvh.2_Missense_Mutation_p.I307S|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	307	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	TCGCCTGAGATCGTGGAGCTC	0.642													38	48					0	0	1	0	0		G	49042326	G	G	49042326	3	3	153	1	0	0	0	0	1	0	0	0	11379	1435	50	5	942	5	P4HTM	3	49042326	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	309640	49042326	148980104	332	82264											
DALRD3	55152	broad.mit.edu	37	chr3	49054740	49054740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaactcctcctcacagctaAcaacatgtacaaccaggcag	14	6	7	14	0	1	0	1	0	0	0	3	1	3	1	3	2	6	3	3	2	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:49054740A>G	uc003cvk.1	-	5	868	c.848T>C	c.(847-849)GTT>GCT	p.V283A	DALRD3_uc003cvl.1_Missense_Mutation_p.V283A|DALRD3_uc003cvm.1_Missense_Mutation_p.V116A|DALRD3_uc010hko.1_Missense_Mutation_p.V116A|DALRD3_uc011bca.1_Missense_Mutation_p.V283A	NM_001009996	NP_001009996	Q5D0E6	DALD3_HUMAN	DALR anticodon binding domain containing 3	283					arginyl-tRNA aminoacylation	cytoplasm	arginine-tRNA ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CTCACAGCTAACAACATGTAC	0.498													59	68					0	0	1	0	0		G	49054740	G	G	49054740	3	3	153	1	0	0	0	0	1	0	0	0	4232	43	2	3	815	3	DALRD3	3	49054740	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	12414	49054740	148967690	333	82265											
USP19	10869	broad.mit.edu	37	chr3	49147938	49147938	+	Silent	SNP	A	G	G	1	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	gcacaggcagtgtagtggccAccaatcatgcctccatagtg	10	8	11	12	0	1	0	1	0	0	0	2	0	2	0	4	2	1	3	4	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:49147938A>G	uc003cwd.1	-	24	3650	c.3489T>C	c.(3487-3489)GGT>GGC	p.G1163G	USP19_uc003cwa.2_Silent_p.G971G|USP19_uc003cvz.3_Silent_p.G1266G|USP19_uc011bcg.1_Silent_p.G1254G|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Silent_p.G921G|USP19_uc011bch.1_Silent_p.G1264G	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	1163	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TGTAGTGGCCACCAATCATGC	0.562													10	66					0	0	1	0	0		G	49147938	G	G	49147938	2	3	153	1	0	0	0	0	0	0	0	1	17076	146	6	3		3	USP19	3	49147938	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	93198	49147938	148874492	334	82266											
USP19	10869	broad.mit.edu	37	chr3	49149374	49149374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctctagcaactgagcgaggCgggcataagtgaggcgtgag	10	6	16	9	3	1	3	0	3	1	0	1	4	1	3	1	3	3	2	1	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:49149374C>T	uc003cwd.1	-	19	2725	c.2564G>A	c.(2563-2565)CGC>CAC	p.R855H	USP19_uc003cwa.2_Missense_Mutation_p.R663H|USP19_uc003cvz.3_Missense_Mutation_p.R958H|USP19_uc011bcg.1_Missense_Mutation_p.R946H|USP19_uc003cwb.2_Intron|USP19_uc003cwc.1_Missense_Mutation_p.R613H|USP19_uc011bch.1_Missense_Mutation_p.R956H	NM_006677	NP_006668	O94966	UBP19_HUMAN	ubiquitin thioesterase 19	855	Cytoplasmic (Potential).				ER-associated protein catabolic process|positive regulation of cell cycle process|protein deubiquitination|regulation of protein stability|response to endoplasmic reticulum stress|skeletal muscle atrophy	endoplasmic reticulum membrane|integral to membrane	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(4)|breast(2)|lung(1)	7				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CTGAGCGAGGCGGGCATAAGT	0.597													14	33					0	0	1	0	0		T	49149374	T	T	49149374	3	4	153	1	0	0	0	0	1	0	0	0	17076	768	27	1	1424	1	USP19	3	49149374	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1436	49149374	148873056	335	82267											
AMT	275	broad.mit.edu	37	chr3	49456495	49456495	+	Frame_Shift_Del	DEL	G	-	-																															cctgcctccaggcgcaggctGtccctggctgccagccctgc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:49456495delG	uc003cww.2	-	7	915	c.786delC	c.(784-786)GACfs	p.D262fs	AMT_uc011bcn.1_Intron|AMT_uc003cwx.2_Frame_Shift_Del_p.D262fs|AMT_uc011bco.1_Frame_Shift_Del_p.D218fs|AMT_uc003cwy.2_Frame_Shift_Del_p.D214fs|AMT_uc011bcp.1_Frame_Shift_Del_p.D165fs|AMT_uc011bcq.1_Frame_Shift_Del_p.D206fs	NM_000481	NP_000472	P48728	GCST_HUMAN	aminomethyltransferase isoform 1 precursor	262					glycine catabolic process	mitochondrion	aminomethyltransferase activity|transaminase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	GGCGCAGGCTGTCCCTGGCTG	0.587													20	32	---	---	---	---						.	-	49456495	-	-	49456495	7	5	153	1	0	1	0	1	0	0	0	0	589	1368	48	0	465	0	AMT	3	49456495	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	307121	49456495	148565935	336	82268											
ACY1	95	broad.mit.edu	37	chr3	52021432	52021432	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgccaccatgagcgccaGctttgacttccgtgtggcac	7	9	10	15	2	0	2	0	2	0	0	1	2	1	2	5	1	3	2	5	1	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:52021432G>T	uc003dcp.2	+	11	876	c.815G>T	c.(814-816)AGC>ATC	p.S272I	ACY1_uc011bea.1_Missense_Mutation_p.S362I|ACY1_uc011beb.1_Missense_Mutation_p.S272I|ACY1_uc003dcq.2_Missense_Mutation_p.S272I	NM_000666	NP_000657	Q03154	ACY1_HUMAN	aminoacylase 1	272					cellular amino acid metabolic process|proteolysis	cytosol	aminoacylase activity|metal ion binding|metallopeptidase activity			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	L-Aspartic Acid(DB00128)	ATGAGCGCCAGCTTTGACTTC	0.587													3	51					0.00909568	0.00920112	1	1	0		T	52021432	T	T	52021432	3	4	153	1	0	0	0	0	1	0	0	0	226	971	34	5	853	5	ACY1	3	52021432	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2564937	52021432	146000998	337	82269											
STAB1	23166	broad.mit.edu	37	chr3	52551981	52551981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgacacagcccacaccGtgggggacggcctcacctgc	7	4	12	18	3	1	0	1	0	0	0	1	2	1	1	5	3	3	0	5	3	0	0	rs150583969	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:52551981G>A	uc003dej.2	+	45	4797	c.4723G>A	c.(4723-4725)GTG>ATG	p.V1575M	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1575	Extracellular (Potential).|EGF-like 13.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		AGCCCACACCGTGGGGGACGG	0.617													31	48					0	0	1	0	0		A	52551981	A	A	52551981	3	1	153	1	0	0	0	0	1	0	0	0	15262	1145	40	1	4901	1	STAB1	3	52551981	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	530549	52551981	145470449	338	82270											
ITIH1	3697	broad.mit.edu	37	chr3	52824813	52824813	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aacctggtggtgtctgtggaCgacggtggcacctttgaggt	6	11	16	8	2	1	1	0	1	1	0	1	3	1	2	2	6	1	1	2	6	1	1	rs146607393	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:52824813C>T	uc003dfs.2	+	20	2394	c.2370C>T	c.(2368-2370)GAC>GAT	p.D790D	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Silent_p.D391D|ITIH1_uc010hmo.1_Silent_p.D344D|ITIH1_uc003dfu.2_Silent_p.D156D	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	790	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		TGTCTGTGGACGACGGTGGCA	0.597													116	117					0	0	1	0	0		T	52824813	T	T	52824813	2	4	153	1	0	0	0	0	0	0	0	1	7919	535	19	1		1	ITIH1	3	52824813	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	272832	52824813	145197617	339	82271											
CACNA1D	776	broad.mit.edu	37	chr3	53694205	53694205	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttaaccaaagaaacagaaggCgggaaccactcaagcggcaa	18	3	10	10	2	1	2	1	0	0	2	1	3	1	3	2	3	4	1	2	3	7	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:53694205C>T	uc003dgv.3	+	5	832	c.669C>T	c.(667-669)GGC>GGT	p.G223G	CACNA1D_uc003dgu.3_Silent_p.G223G|CACNA1D_uc003dgy.3_Silent_p.G223G	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	223	Extracellular (Potential).|I.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	AAACAGAAGGCGGGAACCACT	0.458													12	76					0	0	1	0	0		T	53694205	T	T	53694205	2	4	153	1	0	0	0	0	0	0	0	1	2544	755	27	1		1	CACNA1D	3	53694205	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	869392	53694205	144328225	340	82272											
LRTM1	57408	broad.mit.edu	37	chr3	54952711	54952711	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggcttgggtttgagctcGcactccaagagttctcgctc	5	13	11	12	2	1	2	0	1	1	1	5	2	2	2	1	2	1	6	1	2	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:54952711G>A	uc003dhl.2	-	3	947	c.813C>T	c.(811-813)TGC>TGT	p.C271C	CACNA2D3_uc003dhf.2_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron	NM_020678	NP_065729	Q9HBL6	LRTM1_HUMAN	leucine-rich repeats and transmembrane domains 1	271	Extracellular (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.00975)|Kidney(284;0.0112)|OV - Ovarian serous cystadenocarcinoma(275;0.0502)		GTTTGAGCTCGCACTCCAAGA	0.602													36	31					0	0	1	0	0		A	54952711	A	A	54952711	2	1	153	1	0	0	0	0	0	0	0	1	9062	1079	38	1		1	LRTM1	3	54952711	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1258506	54952711	143069719	341	82273											
ACOX2	8309	broad.mit.edu	37	chr3	58519212	58519212	+	Silent	SNP	G	A	A	0	0	1	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	gtggcagtcagcgtggggctGtgtatcacaaactcctgggt	7	10	15	9	1	2	0	2	0	0	0	3	0	3	0	1	4	2	3	1	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:58519212G>A	uc003dkl.2	-	5	718	c.543C>T	c.(541-543)CAC>CAT	p.H181H		NM_003500	NP_003491	Q99424	ACOX2_HUMAN	acyl-Coenzyme A oxidase 2	181					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3alpha,7alpha,12alpha-trihydroxy-5beta-cholestanoyl-CoA 24-hydroxylase activity|acyl-CoA dehydrogenase activity|pristanoyl-CoA oxidase activity				0				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)		GCGTGGGGCTGTGTATCACAA	0.498											OREG0015638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	147					0	0	1	0	0		A	58519212	A	A	58519212	2	1	153	1	0	0	0	0	0	0	0	1	159	1368	48	4		4	ACOX2	3	58519212	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3566501	58519212	139503218	342	82274											
PTPRG	5793	broad.mit.edu	37	chr3	62258734	62258734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcatatcaggacacagcGtaactacctcgtccagactg	13	7	9	12	2	1	1	1	0	0	1	3	3	2	2	2	1	4	2	2	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:62258734G>A	uc003dlb.2	+	22	4015	c.3296G>A	c.(3295-3297)CGT>CAT	p.R1099H	PTPRG_uc003dlc.2_Missense_Mutation_p.R1070H|PTPRG_uc011bfi.1_Missense_Mutation_p.R345H|uc010hno.2_Intron|uc003dld.3_Intron|uc010hnp.2_Intron|uc003dle.3_Intron	NM_002841	NP_002832	P23470	PTPRG_HUMAN	protein tyrosine phosphatase, receptor type, G	1099	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	identical protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(5)|lung(2)	7				BRCA - Breast invasive adenocarcinoma(55;0.000376)|KIRC - Kidney renal clear cell carcinoma(10;0.0499)|Kidney(10;0.065)		AGGACACAGCGTAACTACCTC	0.433													15	71					0	0	1	0	0		A	62258734	A	A	62258734	3	1	153	1	0	0	0	0	1	0	0	0	12827	1145	40	1	3382	1	PTPRG	3	62258734	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3739522	62258734	135763696	343	82275											
PSMD6	9861	broad.mit.edu	37	chr3	64004505	64004505	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcattaccttttccctgaGatctggtctttctaaggcaa	8	15	8	10	0	4	1	1	1	3	1	5	2	5	1	2	3	1	1	2	3	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:64004505G>T	uc003dma.1	-	4	731	c.706C>A	c.(706-708)CTC>ATC	p.L236I	PSMD6_uc003dlz.1_Missense_Mutation_p.L187I|PSMD6_uc003dmb.1_Missense_Mutation_p.L289I|PSMD6_uc003dmc.1_Missense_Mutation_p.L197I|PSMD6_uc003dmd.1_Missense_Mutation_p.L198I	NM_014814	NP_055629	Q15008	PSMD6_HUMAN	proteasome (prosome, macropain) 26S subunit,	236	PCI.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	ATPase activity|protein binding			central_nervous_system(1)|skin(1)	2		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)		TTTTCCCTGAGATCTGGTCTT	0.279													33	127					9.78306e-22	1.05392e-21	1	1	0		T	64004505	T	T	64004505	3	4	153	1	0	0	0	0	1	0	0	0	12724	942	33	5	483	5	PSMD6	3	64004505	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1745771	64004505	134017925	344	82276											
MITF	4286	broad.mit.edu	37	chr3	69928397	69928397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagatgcaggagcaggagCgcagggagcagcagcagaag	14	1	18	8	1	0	2	0	0	0	2	0	5	0	5	0	3	7	7	0	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:69928397C>T	uc003dnz.2	+	2	333	c.217C>T	c.(217-219)CGC>TGC	p.R73C	MITF_uc011bgb.1_Missense_Mutation_p.R21C|MITF_uc003doa.2_Missense_Mutation_p.R72C|MITF_uc003dob.2_Missense_Mutation_p.R57C|MITF_uc003dod.2_Missense_Mutation_p.R48C|MITF_uc003doc.1_RNA	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	73					melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		GGAGCAGGAGCGCAGGGAGCA	0.597			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						18	56					0	0	1	0	0		T	69928397	T	T	69928397	3	4	153	1	0	0	0	0	1	0	0	0	9614	768	27	1	388	1	MITF	3	69928397	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5923892	69928397	128094033	345	82277											
FOXP1	27086	broad.mit.edu	37	chr3	71015109	71015109	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtatgctccattgccccGttcagctcttcccgtattgc	4	15	8	14	2	2	0	1	0	1	0	4	0	4	0	4	1	4	5	4	1	2	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:71015109G>A	uc003dol.2	-	16	2144	c.1821C>T	c.(1819-1821)AAC>AAT	p.N607N	FOXP1_uc003dom.2_Silent_p.N531N|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Silent_p.N606N|FOXP1_uc003dop.2_Silent_p.N607N|FOXP1_uc003doq.1_Intron|FOXP1_uc003doi.2_Silent_p.N507N|FOXP1_uc003doj.2_Silent_p.N507N|FOXP1_uc003dok.2_Silent_p.N420N	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	607					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		CCATTGCCCCGTTCAGCTCTT	0.512			T	PAX5	ALL								78	290					0	0	1	0	0		A	71015109	A	A	71015109	2	1	153	1	0	0	0	0	0	0	0	1	6040	1136	40	1		1	FOXP1	3	71015109	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1086712	71015109	127007321	346	82278											
PDZRN3	23024	broad.mit.edu	37	chr3	73432878	73432878	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcttcccggatcttcagggCgcgctcccgcagcaggcggt	4	8	13	16	5	3	0	1	0	2	0	5	1	5	1	2	4	1	3	2	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:73432878C>T	uc003dpl.1	-	10	2935	c.2839G>A	c.(2839-2841)GCC>ACC	p.A947T	PDZRN3_uc011bgh.1_Missense_Mutation_p.A604T|PDZRN3_uc010hoe.1_Missense_Mutation_p.A645T|PDZRN3_uc011bgf.1_Missense_Mutation_p.A664T|PDZRN3_uc011bgg.1_Missense_Mutation_p.A667T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	947							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		ATCTTCAGGGCGCGCTCCCGC	0.672													9	36					0	0	1	0	0		T	73432878	T	T	73432878	3	4	153	1	0	0	0	0	1	0	0	0	11728	768	27	1	365	1	PDZRN3	3	73432878	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2417769	73432878	124589552	347	82279											
CNTN3	5067	broad.mit.edu	37	chr3	74474011	74474011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttacctccagagtgtggtgGggggccgcagagcagcacaa	9	6	15	11	1	0	2	0	0	0	2	1	2	1	2	3	4	3	3	3	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:74474011G>A	uc003dpm.1	-	4	519	c.439C>T	c.(439-441)CCA>TCA	p.P147S		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	147	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		GAGTGTGGTGGGGGGCCGCAG	0.443													7	38					0	0	1	0	0		A	74474011	A	A	74474011	3	1	153	1	0	0	0	0	1	0	0	0	3645	1232	43	4	2723	4	CNTN3	3	74474011	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1041133	74474011	123548419	348	82280											
EPHA3	2042	broad.mit.edu	37	chr3	89499405	89499405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccttgtatcagctgatgctgGactgctggcagaaagacagg	10	9	13	9	0	1	3	1	1	0	2	1	4	1	4	1	3	3	5	1	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:89499405G>A	uc003dqy.2	+	15	2800	c.2575G>A	c.(2575-2577)GAC>AAC	p.D859N	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	859	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GCTGATGCTGGACTGCTGGCA	0.498										TSP Lung(6;0.00050)			17	82					0	0	1	0	0		A	89499405	A	A	89499405	3	1	153	1	0	0	0	0	1	0	0	0	5176	1174	41	4	2659	4	EPHA3	3	89499405	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	15025394	89499405	108523025	349	82281											
EPHA6	285220	broad.mit.edu	37	chr3	96706210	96706210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaatggatgaacataataggCccattcacacataccaggta	17	8	7	9	0	1	1	1	1	0	0	1	2	1	2	2	3	2	1	2	3	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:96706210C>T	uc010how.1	+	3	530	c.487C>T	c.(487-489)CCC>TCC	p.P163S	EPHA6_uc003drp.1_Missense_Mutation_p.P163S	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	68	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						ACATAATAGGCCCATTCACAC	0.373													36	136					0	0	1	0	0		T	96706210	T	T	96706210	3	4	153	1	0	0	0	0	1	0	0	0	5179	739	26	2	497	2	EPHA6	3	96706210	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7206805	96706210	101316220	350	82282											
EPHA6	285220	broad.mit.edu	37	chr3	96706313	96706313	+	Missense_Mutation	SNP	A	T	T	1	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	agctcagaaaatttatgtggAaatgaaattcacactaaggg	17	10	9	5	0	2	2	2	1	0	1	2	3	2	3	0	2	1	1	0	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:96706313A>T	uc010how.1	+	3	633	c.590A>T	c.(589-591)GAA>GTA	p.E197V	EPHA6_uc003drp.1_Missense_Mutation_p.E197V	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	102	Ephrin-binding.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						ATTTATGTGGAAATGAAATTC	0.398													5	155					0	0	1	0	0		T	96706313	T	T	96706313	3	4	153	1	0	0	0	0	1	0	0	0	5179	246	9	5	600	5	EPHA6	3	96706313	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	103	96706313	101316117	351	82283											
OR5H2	79310	broad.mit.edu	37	chr3	98002130	98002130	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctatgtagccatatgcaaAcctttactatatccagtgat	12	13	6	10	1	0	1	0	1	0	0	1	1	1	1	3	0	4	3	3	0	7	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:98002130A>G	uc003dsj.1	+	1	399	c.399A>G	c.(397-399)AAA>AAG	p.K133K		NM_001005482	NP_001005482	Q8NGV7	OR5H2_HUMAN	olfactory receptor, family 5, subfamily H,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3						CCATATGCAAACCTTTACTAT	0.383													25	148					0	0	1	0	0		G	98002130	G	G	98002130	2	3	153	1	0	0	0	0	0	0	0	1	11181	40	2	3		3	OR5H2	3	98002130	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1295817	98002130	100020300	352	82284											
ABI3BP	25890	broad.mit.edu	37	chr3	100469446	100469446	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggttcctggcgaactgctcTgaaataacctgagagagaaa	14	8	11	8	1	1	3	0	2	1	2	2	6	2	3	2	2	3	2	2	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:100469446T>C	uc003dun.2	-	35	3206	c.3121A>G	c.(3121-3123)AGA>GGA	p.R1041G	ABI3BP_uc003duj.2_Missense_Mutation_p.R621G|ABI3BP_uc003duk.2_Missense_Mutation_p.R750G|ABI3BP_uc003dul.2_Missense_Mutation_p.R871G|ABI3BP_uc011bhd.1_Missense_Mutation_p.R995G|ABI3BP_uc003dum.2_Missense_Mutation_p.R452G	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	1041						extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						CGAACTGCTCTGAAATAACCT	0.393													45	133					0	0	1	0	0		C	100469446	C	C	100469446	3	2	153	1	0	0	0	0	1	0	0	0	91	1588	55	3	110	3	ABI3BP	3	100469446	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2467316	100469446	97552984	353	82285											
RG9MTD1	54931	broad.mit.edu	37	chr3	101284698	101284698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccttagatcaaatgatacGtattttgttatgtctgaaaa	14	15	6	6	1	2	3	1	2	1	1	2	3	2	3	1	0	1	2	1	0	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:101284698G>A	uc003duz.2	+	2	1221	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H		NM_017819	NP_060289	Q7L0Y3	MRRP1_HUMAN	RNA (guanine-9-) methyltransferase domain	358					tRNA processing	mitochondrion	methyltransferase activity|protein binding			ovary(1)	1						CAAATGATACGTATTTTGTTA	0.368													28	72					0	0	1	0	0		A	101284698	A	A	101284698	3	1	153	1	0	0	0	0	1	0	0	0	13296	1145	40	1	1075	1	RG9MTD1	3	101284698	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	815252	101284698	96737732	354	82286											
FAM55C	91775	broad.mit.edu	37	chr3	101535714	101535714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttataaagaccagtggaggcCcagaaagtttaagatgcgtc	14	9	11	7	1	0	3	0	0	0	3	1	4	0	4	2	2	1	1	2	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:101535714C>T	uc003dvn.2	+	7	1635	c.998C>T	c.(997-999)CCC>CTC	p.P333L	FAM55C_uc010hpn.2_Missense_Mutation_p.P333L	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	333						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						CAGTGGAGGCCCAGAAAGTTT	0.373													44	182					0	0	1	0	0		T	101535714	T	T	101535714	3	4	153	1	0	0	0	0	1	0	0	0	5600	623	22	4	1012	4	FAM55C	3	101535714	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	251016	101535714	96486716	355	82287											
MORC1	27136	broad.mit.edu	37	chr3	108776228	108776228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgagcccactttttcatgCattttgatcaaacggttatt	9	17	7	8	1	2	2	2	2	0	0	2	2	2	2	1	1	3	2	1	1	2	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:108776228C>T	uc003dxl.2	-	13	1224	c.1137G>A	c.(1135-1137)ATG>ATA	p.M379I	MORC1_uc011bhn.1_Missense_Mutation_p.M379I	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	379					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						CTTTTTCATGCATTTTGATCA	0.388													38	159					0	0	1	0	0		T	108776228	T	T	108776228	3	4	153	1	0	0	0	0	1	0	0	0	9719	710	25	2	1881	2	MORC1	3	108776228	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7240514	108776228	89246202	356	82288											
DPPA4	55211	broad.mit.edu	37	chr3	109049561	109049561	+	Silent	SNP	T	C	C	0	1	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	agagccacttcaggaggatgTgtctcagaactttgcaggga	11	9	13	8	0	2	2	2	0	1	2	3	5	2	5	1	3	3	1	1	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:109049561T>C	uc003dxq.3	-	5	544	c.489A>G	c.(487-489)ACA>ACG	p.T163T	DPPA4_uc011bho.1_Intron|DPPA4_uc011bhp.1_Silent_p.T163T	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	163						nucleus	protein binding			upper_aerodigestive_tract(1)	1						CAGGAGGATGTGTCTCAGAAC	0.478													23	115					0	0	1	0	0		C	109049561	C	C	109049561	2	2	153	1	0	0	0	0	0	0	0	1	4742	1683	59	3		3	DPPA4	3	109049561	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	273333	109049561	88972869	357	82289											
DPPA4	55211	broad.mit.edu	37	chr3	109050783	109050783	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtcccggtgaatcagatTaacaggtggcagtttagaag	13	10	12	6	1	1	3	1	1	0	2	2	3	2	3	1	3	1	2	1	3	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:109050783T>C	uc003dxq.3	-	3	329	c.274A>G	c.(274-276)AAT>GAT	p.N92D	DPPA4_uc011bho.1_Missense_Mutation_p.N92D|DPPA4_uc011bhp.1_Missense_Mutation_p.N92D	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	92						nucleus	protein binding			upper_aerodigestive_tract(1)	1						TGAATCAGATTAACAGGTGGC	0.542													48	156					0	0	1	0	0		C	109050783	C	C	109050783	3	2	153	1	0	0	0	0	1	0	0	0	4742	1754	61	3	660	3	DPPA4	3	109050783	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1222	109050783	88971647	358	82290											
PHLDB2	90102	broad.mit.edu	37	chr3	111693410	111693410	+	Nonstop_Mutation	SNP	G	C	C	0	0	1	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	tacactcacttcttgttgtaGtgaactgaggcaacagtcca	11	12	8	10	0	2	2	1	2	1	0	3	2	3	2	1	1	3	3	1	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:111693410G>C	uc010hqa.2	+	18	4173	c.3762G>C	c.(3760-3762)TAG>TAC	p.*1254Y	PHLDB2_uc003dyc.2_Nonstop_Mutation_p.*1238Y|PHLDB2_uc003dyd.2_Nonstop_Mutation_p.*1211Y|PHLDB2_uc003dyg.2_Nonstop_Mutation_p.*1254Y|PHLDB2_uc003dyh.2_Nonstop_Mutation_p.*1211Y|PHLDB2_uc003dyi.2_Nonstop_Mutation_p.*745Y|PHLDB2_uc003dyj.2_Nonstop_Mutation_p.*309Y	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	1254						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						TCTTGTTGTAGTGAACTGAGG	0.463													40	93					0	0	1	0	0		C	111693410	C	C	111693410	4	2	153	1	0	0	0	0	0	0	0	0	11871	1024	36	5	3913	5	PHLDB2	3	111693410	Nonstop_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2642627	111693410	86329020	359	82291											
ATP6V1A	523	broad.mit.edu	37	chr3	113503111	113503111	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtacttcgcactggtaaAcccctctctgtagagcttgg	7	12	9	13	1	1	1	0	0	1	1	3	1	1	1	3	2	3	5	3	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:113503111A>C	uc003eao.2	+	4	318	c.252A>C	c.(250-252)AAA>AAC	p.K84N	ATP6V1A_uc011bik.1_Missense_Mutation_p.K51N	NM_001690	NP_001681	P38606	VATA_HUMAN	ATPase, H+ transporting, lysosomal V1 subunit A	84					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|integral to plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(2)|skin(1)	3						GCACTGGTAAACCCCTCTCTG	0.433													32	138					0	0	1	0	0		C	113503111	C	C	113503111	3	2	153	1	0	0	0	0	1	0	0	0	1178	40	2	5	262	5	ATP6V1A	3	113503111	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1809701	113503111	84519319	360	82292											
ZBTB20	26137	broad.mit.edu	37	chr3	114057858	114057858	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaagatactacttatccGtcagacacatgcatcctcat	14	10	6	11	1	2	3	2	0	0	3	4	4	4	3	2	0	3	1	2	0	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:114057858G>A	uc003ebi.2	-	5	2400	c.2220C>T	c.(2218-2220)GAC>GAT	p.D740D	ZBTB20_uc003ebj.2_Silent_p.D667D|ZBTB20_uc010hqp.2_Silent_p.D667D|ZBTB20_uc003ebk.2_Silent_p.D667D|ZBTB20_uc003ebl.2_Silent_p.D667D|ZBTB20_uc003ebm.2_Silent_p.D667D|ZBTB20_uc003ebn.2_Silent_p.D667D	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	740					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		CTACTTATCCGTCAGACACAT	0.413													37	113					0	0	1	0	0		A	114057858	A	A	114057858	2	1	153	1	0	0	0	0	0	0	0	1	17554	1136	40	1		1	ZBTB20	3	114057858	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	554747	114057858	83964572	361	82293											
ZBTB20	26137	broad.mit.edu	37	chr3	114070178	114070178	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgccattctgcatggagcaCgcgtagagtgccgagtagat	9	9	13	10	3	1	2	0	0	1	2	1	4	1	3	2	1	4	4	2	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:114070178C>T	uc003ebi.2	-	4	927	c.747G>A	c.(745-747)GCG>GCA	p.A249A	ZBTB20_uc003ebj.2_Silent_p.A176A|ZBTB20_uc010hqp.2_Silent_p.A176A|ZBTB20_uc003ebk.2_Silent_p.A176A|ZBTB20_uc003ebl.2_Silent_p.A176A|ZBTB20_uc003ebm.2_Silent_p.A176A|ZBTB20_uc003ebn.2_Silent_p.A176A|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	249					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCATGGAGCACGCGTAGAGTG	0.657													17	73					0	0	1	0	0		T	114070178	T	T	114070178	2	4	153	1	0	0	0	0	0	0	0	1	17554	523	19	1		1	ZBTB20	3	114070178	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	12320	114070178	83952252	362	82294											
KTELC1	56983	broad.mit.edu	37	chr3	119190219	119190219	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaagatgatggcagaggtAgtcagacggaagctagggac	14	5	17	5	1	1	4	1	1	0	3	1	7	1	7	0	5	1	3	0	5	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:119190219A>G	uc003ecm.2	+	3	324	c.240A>G	c.(238-240)GTA>GTG	p.V80V	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_5'UTR	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	80						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		TGGCAGAGGTAGTCAGACGGA	0.488													93	273					0	0	1	0	0		G	119190219	G	G	119190219	2	3	153	1	0	0	0	0	0	0	0	1	8599	407	15	3		3	KTELC1	3	119190219	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	5120041	119190219	78832211	363	82295											
KTELC1	56983	broad.mit.edu	37	chr3	119198976	119198976	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtttggccaatttatcctAcaggtcttggacggtgggac	7	13	12	9	1	1	0	0	0	1	0	2	2	2	2	2	5	1	1	2	5	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:119198976A>G	uc003ecm.2	+	5	619	c.535A>G	c.(535-537)ACA>GCA	p.T179A	KTELC1_uc011biz.1_RNA|KTELC1_uc011bja.1_Missense_Mutation_p.T20A	NM_152305	NP_689518	Q8NBL1	PGLT1_HUMAN	KTEL (Lys-Tyr-Glu-Leu) containing 1 precursor	179						endoplasmic reticulum lumen	UDP-glucosyltransferase activity				0				GBM - Glioblastoma multiforme(114;0.233)		AATTTATCCTACAGGTCTTGG	0.428													29	104					0	0	1	0	0		G	119198976	G	G	119198976	3	3	153	1	0	0	0	0	1	0	0	0	8599	391	14	3	553	3	KTELC1	3	119198976	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	8757	119198976	78823454	364	82296											
POLQ	10721	broad.mit.edu	37	chr3	121158877	121158877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttgttgtctttgattcctgGcaaatatctacgccttccca	7	16	7	11	1	2	1	0	1	2	0	4	1	4	1	3	1	1	3	3	1	3	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:121158877G>A	uc003eee.3	-	27	7480	c.7351C>T	c.(7351-7353)CCA>TCA	p.P2451S	POLQ_uc003eed.2_Missense_Mutation_p.P1623S	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2451					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TTGATTCCTGGCAAATATCTA	0.338								DNA_polymerases_(catalytic_subunits)					28	122					0	0	1	0	0		A	121158877	A	A	121158877	3	1	153	1	0	0	0	0	1	0	0	0	12227	1203	42	2	437	2	POLQ	3	121158877	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1959901	121158877	76863553	365	82297											
CASR	846	broad.mit.edu	37	chr3	121980496	121980496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacatcatcgagtatttccGctggaactgggtgggcacaa	11	9	12	9	2	1	1	1	0	0	1	3	3	2	2	1	3	1	3	1	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:121980496G>A	uc003eev.3	+	4	986	c.614G>A	c.(613-615)CGC>CAC	p.R205H	CASR_uc003eew.3_Missense_Mutation_p.R205H	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	205	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	GAGTATTTCCGCTGGAACTGG	0.522													63	175					0	0	1	0	0		A	121980496	A	A	121980496	3	1	153	1	0	0	0	0	1	0	0	0	2685	1087	38	1	624	1	CASR	3	121980496	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	821619	121980496	76041934	366	82298											
PDIA5	10954	broad.mit.edu	37	chr3	122864423	122864423	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgagaaggcagcagaagcccTccatggagaagcggatgtaa	14	5	14	8	1	0	3	0	1	0	3	1	6	1	4	2	3	3	3	2	3	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:122864423T>G	uc003egc.1	+	12	1021	c.965T>G	c.(964-966)CTC>CGC	p.L322R	PDIA5_uc003egd.1_RNA	NM_006810	NP_006801	Q14554	PDIA5_HUMAN	protein disulfide isomerase A5 precursor	322	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein folding|response to stress	endoplasmic reticulum lumen	electron carrier activity|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.0427)		GCAGAAGCCCTCCATGGAGAA	0.507													5	52					0	0	1	0	0		G	122864423	G	G	122864423	3	3	153	1	0	0	0	0	1	0	0	0	11690	1551	54	5	1011	5	PDIA5	3	122864423	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	883927	122864423	75158007	367	82299											
KALRN	8997	broad.mit.edu	37	chr3	123946846	123946846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcccacagggtcttttcGgaatgatggtttgaaagctt	8	15	11	7	1	1	2	0	2	1	0	3	3	2	3	1	3	1	2	1	3	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:123946846G>A	uc003ehg.2	+	2	204	c.77G>A	c.(76-78)CGG>CAG	p.R26Q	KALRN_uc010hrv.1_Missense_Mutation_p.R26Q|KALRN_uc003ehf.1_Missense_Mutation_p.R26Q|KALRN_uc011bjy.1_Missense_Mutation_p.R26Q	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	26					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GGGTCTTTTCGGAATGATGGT	0.488													38	203					0	0	1	0	0		A	123946846	A	A	123946846	3	1	153	1	0	0	0	0	1	0	0	0	7991	1116	39	1	83	1	KALRN	3	123946846	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1082423	123946846	74075584	368	82300											
HEG1	57493	broad.mit.edu	37	chr3	124709815	124709815	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtttcattttcaagcctaTatccatcttcacatgctgaa	11	15	5	10	0	4	1	3	1	1	0	5	1	5	1	2	1	2	2	2	1	4	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:124709815T>C	uc003ehs.3	-	13	3736	c.3668A>G	c.(3667-3669)TAT>TGT	p.Y1223C	HEG1_uc003ehr.3_Missense_Mutation_p.Y77C|HEG1_uc011bke.1_Missense_Mutation_p.Y1323C	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	1223	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						TTCAAGCCTATATCCATCTTC	0.363													2	5					0	0	1	0	0		C	124709815	C	C	124709815	3	2	153	1	0	0	0	0	1	0	0	0	7060	1406	49	3	497	3	HEG1	3	124709815	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	762969	124709815	73312615	369	82301											
PLXNA1	5361	broad.mit.edu	37	chr3	126746844	126746844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagcagcagatggagaaggGccccattgacgccatcacgg	12	4	13	12	2	1	3	1	1	0	2	1	4	1	3	3	3	2	2	3	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:126746844G>A	uc003ejg.2	+	23	4359	c.4355G>A	c.(4354-4356)GGC>GAC	p.G1452D	PLXNA1_uc003ejh.2_Missense_Mutation_p.G120D	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1475	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ATGGAGAAGGGCCCCATTGAC	0.637													14	57					0	0	1	0	0		A	126746844	A	A	126746844	3	1	153	1	0	0	0	0	1	0	0	0	12138	1203	42	2	4514	2	PLXNA1	3	126746844	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2037029	126746844	71275586	370	82302											
MCM2	4171	broad.mit.edu	37	chr3	127327857	127327857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctccaaggatcagcagatCggagagaaggtaggtggaag	13	6	15	7	1	2	2	1	0	1	2	4	6	2	5	1	5	1	2	1	5	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:127327857C>T	uc003ejp.2	+	8	1476	c.1419C>T	c.(1417-1419)ATC>ATT	p.I473I	MCM2_uc011bkm.1_Silent_p.I343I|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Silent_p.I357I	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	473	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						ATCAGCAGATCGGAGAGAAGG	0.562													19	73					0	0	1	0	0		T	127327857	T	T	127327857	2	4	153	1	0	0	0	0	0	0	0	1	9404	874	31	1		1	MCM2	3	127327857	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	581013	127327857	70694573	371	82303											
ASTE1	28990	broad.mit.edu	37	chr3	130743595	130743595	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagttttgtgtgcccttaaTagtgttcatatttctccact	8	19	6	8	0	2	0	1	0	1	0	3	0	2	0	2	0	1	2	2	0	4	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:130743595T>C	uc003env.1	-	3	998	c.556A>G	c.(556-558)ATT>GTT	p.I186V	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Missense_Mutation_p.I186V|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	186					DNA repair		nuclease activity				0						GTGCCCTTAATAGTGTTCATA	0.393													35	131					0	0	1	0	0		C	130743595	C	C	130743595	3	2	153	1	0	0	0	0	1	0	0	0	1063	1406	49	3	1499	3	ASTE1	3	130743595	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3415738	130743595	67278835	372	82304											
A4GNT	51146	broad.mit.edu	37	chr3	137843629	137843629	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgatggagatgacatcggtgTccatgtagatgccaccgtat	10	11	12	8	2	0	4	0	2	0	2	2	5	1	4	3	2	1	2	3	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:137843629T>C	uc003ers.2	-	3	702	c.500A>G	c.(499-501)GAC>GGC	p.D167G		NM_016161	NP_057245	Q9UNA3	A4GCT_HUMAN	alpha-1,4-N-acetylglucosaminyltransferase	167	Lumenal (Potential).|DXD motif (By similarity).				protein O-linked glycosylation	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	acetylglucosaminyltransferase activity|galactosyltransferase activity			central_nervous_system(1)	1						GACATCGGTGTCCATGTAGAT	0.547													26	77					0	0	1	0	0		C	137843629	C	C	137843629	3	2	153	1	0	0	0	0	1	0	0	0	7	1667	58	3	526	3	A4GNT	3	137843629	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	7100034	137843629	60178801	373	82305											
PRR23B	389151	broad.mit.edu	37	chr3	138739139	138739139	+	Missense_Mutation	SNP	A	G	G	1	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	ccaggaaaacgtccacttccAgcccggcagacgagtcgtgc	10	5	11	15	4	0	1	0	0	0	1	3	3	2	2	4	2	3	1	4	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:138739139A>G	uc003esy.1	-	1	630	c.365T>C	c.(364-366)CTG>CCG	p.L122P		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	122										breast(1)	1						GTCCACTTCCAGCCCGGCAGA	0.632													8	38					0	0	1	0	0		G	138739139	G	G	138739139	3	3	153	1	0	0	0	0	1	0	0	0	12617	188	7	3	436	3	PRR23B	3	138739139	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	895510	138739139	59283291	374	82306											
CHST2	9435	broad.mit.edu	37	chr3	142840602	142840602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcgacgtggcggtcttggCgccactgctgcgagacccgg	4	8	15	14	6	1	1	0	0	1	1	2	3	1	1	2	4	2	1	2	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:142840602C>T	uc003evm.2	+	2	1833	c.944C>T	c.(943-945)GCG>GTG	p.A315V		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	315	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						GCGGTCTTGGCGCCACTGCTG	0.667													5	4					0	0	1	0	0		T	142840602	T	T	142840602	3	4	153	1	0	0	0	0	1	0	0	0	3407	768	27	1	946	1	CHST2	3	142840602	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4101463	142840602	55181828	375	82307											
SIAH2	6478	broad.mit.edu	37	chr3	150460061	150460061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacaccgtcatgaatcgaaCggggcgtggcctcccaggtc	8	6	12	15	4	1	1	1	1	0	0	4	2	2	1	4	4	1	0	4	4	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:150460061C>T	uc003eyi.2	-	2	1469	c.842G>A	c.(841-843)CGT>CAT	p.R281H		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	281	SBD.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			ATGAATCGAACGGGGCGTGGC	0.547													23	66					0	0	1	0	0		T	150460061	T	T	150460061	3	4	153	1	0	0	0	0	1	0	0	0	14325	536	19	1	136	1	SIAH2	3	150460061	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7619459	150460061	47562369	376	82308											
GPR87	53836	broad.mit.edu	37	chr3	151012131	151012131	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaacattacacgcagacaaGaaaagtgtaatttctttgca	17	10	6	8	1	1	2	0	0	1	2	1	2	1	2	0	0	3	3	0	0	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:151012131G>A	uc003eyt.2	-	3	1264	c.903C>T	c.(901-903)TTC>TTT	p.F301F	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_023915	NP_076404	Q9BY21	GPR87_HUMAN	G protein-coupled receptor 87	301	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ACGCAGACAAGAAAAGTGTAA	0.333													40	170					0	0	1	0	0		A	151012131	A	A	151012131	2	1	153	1	0	0	0	0	0	0	0	1	6731	933	33	4		4	GPR87	3	151012131	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	552070	151012131	47010299	377	82309											
MED12L	116931	broad.mit.edu	37	chr3	151095843	151095843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttggtggcccccctcatcGccaggttgccaacttctgtg	4	11	12	14	1	2	0	1	0	1	0	3	0	2	0	5	4	2	2	5	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:151095843G>A	uc003eyp.2	+	29	4293	c.4255G>A	c.(4255-4257)GCC>ACC	p.A1419T	MED12L_uc011bnz.1_Missense_Mutation_p.A1279T|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A582T	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1419					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CCCCCTCATCGCCAGGTTGCC	0.537													26	114					0	0	1	0	0		A	151095843	A	A	151095843	3	1	153	1	0	0	0	0	1	0	0	0	9447	1087	38	1	4369	1	MED12L	3	151095843	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	83712	151095843	46926587	378	82310											
LXN	56925	broad.mit.edu	37	chr3	158387236	158387236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatacctggaatattttgtGcttctagcggttccttcatg	8	17	8	8	1	2	0	1	0	1	0	3	1	3	1	2	2	3	2	2	2	5	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:158387236G>A	uc003fch.2	-	3	571	c.356C>T	c.(355-357)GCA>GTA	p.A119V	GFM1_uc003fcd.2_Intron|GFM1_uc003fce.2_Intron|GFM1_uc003fcf.2_Intron|GFM1_uc003fcg.2_Intron|LXN_uc011bov.1_Missense_Mutation_p.A119V	NM_020169	NP_064554	Q9BS40	LXN_HUMAN	latexin	119						cytoplasm	metalloendopeptidase inhibitor activity|protein binding				0			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			AATATTTTGTGCTTCTAGCGG	0.323													31	77					0	0	1	0	0		A	158387236	A	A	158387236	3	1	153	1	0	0	0	0	1	0	0	0	9107	1319	46	2	328	2	LXN	3	158387236	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7291393	158387236	39635194	379	82311											
SLITRK3	22865	broad.mit.edu	37	chr3	164906625	164906625	+	Frame_Shift_Del	DEL	A	-	-																															cagcaacaaagactgctgagAaaaacagaaccagcaggctg																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:164906625delA	uc003fej.3	-	2	2438	c.1994delT	c.(1993-1995)TTCfs	p.F665fs	SLITRK3_uc003fek.2_Frame_Shift_Del_p.F665fs	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	665	Helical; (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GACTGCTGAGAAAAACAGAAC	0.532										HNSCC(40;0.11)			17	30	---	---	---	---						.	-	164906625	-	-	164906625	7	5	153	1	0	1	0	1	0	0	0	0	14769	246	9	0	943	0	SLITRK3	3	164906625	Frame_Shift_Del	DEL	A	TCGA-CG-5723-01A-11D-1600-08	6519389	164906625	33115805	380	82312											
ZBBX	79740	broad.mit.edu	37	chr3	167000063	167000063	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgtaattctttttccaaAttgtctaaagtatgttgatc	11	19	5	6	0	2	1	0	1	2	0	4	1	3	1	1	0	0	3	1	0	5	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:167000063A>G	uc003fep.2	-	19	2423	c.2100T>C	c.(2098-2100)AAT>AAC	p.N700N	ZBBX_uc011bpc.1_Silent_p.N739N|ZBBX_uc003feq.2_Silent_p.N671N	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	700	Potential.					intracellular	zinc ion binding			ovary(2)	2						CTTTTTCCAAATTGTCTAAAG	0.338													25	89					0	0	1	0	0		G	167000063	G	G	167000063	2	3	153	1	0	0	0	0	0	0	0	1	17542	98	4	3		3	ZBBX	3	167000063	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2093438	167000063	31022367	381	82313											
LRRC31	79782	broad.mit.edu	37	chr3	169578504	169578504	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccaagtctgggagaaaaGgcagcaaggcaactagaagt	15	6	12	8	0	1	2	0	0	1	2	2	3	2	2	1	3	2	3	1	3	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:169578504G>T	uc003fgc.1	-	3	409	c.332C>A	c.(331-333)CCT>CAT	p.P111H	LRRC31_uc010hwp.1_Intron	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	111										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			TGGGAGAAAAGGCAGCAAGGC	0.398													6	129					0.0215528	0.0217588	1	1	0		T	169578504	T	T	169578504	3	4	153	1	0	0	0	0	1	0	0	0	9004	1000	35	5	1354	5	LRRC31	3	169578504	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2578441	169578504	28443926	382	82314											
GHSR	2693	broad.mit.edu	37	chr3	172163150	172163150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acacgaggttgcagtactggCtgatctgagcaatctccaag	11	9	11	10	1	2	2	0	2	2	0	3	3	2	2	1	2	3	5	1	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:172163150C>T	uc003fib.1	-	2	902	c.902G>A	c.(901-903)AGC>AAC	p.S301N		NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	301	Extracellular (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			GCAGTACTGGCTGATCTGAGC	0.512													32	125					0	0	1	0	0		T	172163150	T	T	172163150	3	4	153	1	0	0	0	0	1	0	0	0	6390	797	28	2	202	2	GHSR	3	172163150	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2584646	172163150	25859280	383	82315											
MCF2L2	23101	broad.mit.edu	37	chr3	182947567	182947567	+	Silent	SNP	T	A	A	0	1	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	aaatccattggagtgatataTccctgcagaggtgcaaacaa	15	9	9	8	0	0	2	0	1	0	1	2	3	2	3	2	2	3	2	2	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:182947567T>A	uc003fli.1	-	17	2022	c.1932A>T	c.(1930-1932)GGA>GGT	p.G644G	MCF2L2_uc003flj.1_Silent_p.G644G|MCF2L2_uc011bqr.1_RNA	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	644	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			GAGTGATATATCCCTGCAGAG	0.368													36	158					0	0	1	0	0		A	182947567	A	A	182947567	2	1	153	1	0	0	0	0	0	0	0	1	9398	1422	50	5		5	MCF2L2	3	182947567	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	10784417	182947567	15074863	384	82316											
B3GNT5	84002	broad.mit.edu	37	chr3	182988259	182988259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttggattggtcgtgttcatCgtggtgcccctcccattaga	5	15	11	10	2	1	1	1	0	0	1	4	2	2	2	3	3	1	1	3	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:182988259C>T	uc003flk.2	+	2	1203	c.673C>T	c.(673-675)CGT>TGT	p.R225C	MCF2L2_uc003fli.1_Intron|MCF2L2_uc003flj.1_Intron|MCF2L2_uc011bqr.1_Intron|B3GNT5_uc003fll.2_Missense_Mutation_p.R225C|B3GNT5_uc003flm.2_Missense_Mutation_p.R225C	NM_032047	NP_114436	Q9BYG0	B3GN5_HUMAN	UDP-GlcNAc:betaGal	225	Lumenal (Potential).				central nervous system development|glycolipid biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity|galactosyltransferase activity			ovary(1)	1	all_cancers(143;8.52e-13)|Ovarian(172;0.0355)		all cancers(12;4.52e-44)|Epithelial(37;8.82e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			TCGTGTTCATCGTGGTGCCCC	0.433													65	211					0	0	1	0	0		T	182988259	T	T	182988259	3	4	153	1	0	0	0	0	1	0	0	0	1261	884	31	1	675	1	B3GNT5	3	182988259	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	40692	182988259	15034171	385	82317											
KLHL6	89857	broad.mit.edu	37	chr3	183273199	183273199	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcggtggcaggagaattcCtgaatgtccacacacaagat	13	7	11	10	2	0	3	0	1	0	2	2	4	2	3	2	3	0	1	2	3	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:183273199C>A	uc003flr.2	-	1	301	c.243G>T	c.(241-243)CAG>CAT	p.Q81H	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Missense_Mutation_p.Q79H	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	81	BTB.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			AGGAGAATTCCTGAATGTCCA	0.507													5	152					0.000602214	0.000614773	1	1	0		A	183273199	A	A	183273199	3	1	153	1	0	0	0	0	1	0	0	0	8409	680	24	5	1650	5	KLHL6	3	183273199	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	284940	183273199	14749231	386	82318											
CLDN16	10686	broad.mit.edu	37	chr3	190127782	190127782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtcatactcagcccctcGcacagagacggccaaaatgt	13	6	8	14	2	2	1	2	0	0	1	3	2	2	1	3	1	2	1	3	1	4	1	rs139856985	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:190127782G>A	uc003fsi.2	+	5	943	c.875G>A	c.(874-876)CGC>CAC	p.R292H	CLDN16_uc010hze.2_3'UTR	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	292	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		TCAGCCCCTCGCACAGAGACG	0.443													33	89					0	0	1	0	0		A	190127782	A	A	190127782	3	1	153	1	0	0	0	0	1	0	0	0	3480	1087	38	1	893	1	CLDN16	3	190127782	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6854583	190127782	7894648	387	82319											
TMEM207	131920	broad.mit.edu	37	chr3	190158096	190158096	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctgtgagaatcaattcGgggtctcctcagccagcact	8	9	11	13	2	3	1	2	1	1	1	5	2	3	1	3	2	2	1	3	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:190158096G>A	uc003fsj.2	-	4	308	c.241C>T	c.(241-243)CGA>TGA	p.R81*		NM_207316	NP_997199	Q6UWW9	TM207_HUMAN	transmembrane protein 207 precursor	81						integral to membrane					0	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.0176)		GAATCAATTCGGGGTCTCCTC	0.512													10	35					0	0	1	0	0		A	190158096	A	A	190158096	4	1	153	1	0	0	0	0	0	1	0	0	16157	1124	39	1	207	1	TMEM207	3	190158096	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	30314	190158096	7864334	388	82320											
ATP13A5	344905	broad.mit.edu	37	chr3	193002723	193002723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttgtatagatgggttttCgaaatggctttcccttagaa	10	16	10	5	1	0	2	0	0	0	2	2	3	1	2	1	2	0	4	1	2	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:193002723C>T	uc011bsq.1	-	27	3206	c.3206G>A	c.(3205-3207)CGA>CAA	p.R1069Q		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	1069					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		GATGGGTTTTCGAAATGGCTT	0.378													4	95					0	0	1	0	0		T	193002723	T	T	193002723	3	4	153	1	0	0	0	0	1	0	0	0	1128	884	31	1	464	1	ATP13A5	3	193002723	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2844627	193002723	5019707	389	82321											
TMEM44	93109	broad.mit.edu	37	chr3	194344358	194344358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcacgggcccaggctcagcGgcagggccagggcaaacaca	11	1	15	14	2	1	0	1	0	0	0	1	0	1	0	2	5	3	4	2	5	1	0	rs146561237		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:194344358G>A	uc010hzn.2	-	4	594	c.425C>T	c.(424-426)CCG>CTG	p.P142L	TMEM44_uc003fue.2_Missense_Mutation_p.P142L|TMEM44_uc003fud.2_Missense_Mutation_p.P142L|TMEM44_uc003fuf.2_Missense_Mutation_p.P142L|TMEM44_uc011bsv.1_Missense_Mutation_p.P142L|TMEM44_uc003fuh.1_RNA	NM_001011655	NP_001011655	Q2T9K0	TMM44_HUMAN	transmembrane protein 44 isoform b	142	Helical; (Potential).					integral to membrane					0	all_cancers(143;1.41e-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;9.06e-06)		CAGGCTCAGCGGCAGGGCCAG	0.662													11	8					0	0	1	0	0		A	194344358	A	A	194344358	3	1	153	1	0	0	0	0	1	0	0	0	16193	1116	39	1	1068	1	TMEM44	3	194344358	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1341635	194344358	3678072	390	82322											
BDH1	622	broad.mit.edu	37	chr3	197273282	197273282	+	Silent	SNP	T	C	C	0	1	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	agggtttttcctgggagccgTgacaggggtctggagaggcg	6	9	19	7	2	1	2	0	1	1	1	2	4	2	3	2	6	1	1	2	6	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr3:197273282T>C	uc003fxr.2	-	3	435	c.33A>G	c.(31-33)TCA>TCG	p.S11S	BDH1_uc003fxs.2_Silent_p.S11S|BDH1_uc003fxt.2_Intron|BDH1_uc003fxu.2_Silent_p.S11S	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	11					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	CTGGGAGCCGTGACAGGGGTC	0.557													28	127					0	0	1	0	0		C	197273282	C	C	197273282	2	2	153	1	0	0	0	0	0	0	0	1	1391	1683	59	3		3	BDH1	3	197273282	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2928924	197273282	749148	391	82323											
MAEA	10296	broad.mit.edu	37	chr4	1305821	1305821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcagaagaacattgacCgggagaccagccacgtcacc	12	4	10	15	3	2	4	2	1	0	3	2	5	2	4	5	1	2	1	5	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:1305821C>T	uc003gda.2	+	2	154	c.124C>T	c.(124-126)CGG>TGG	p.R42W	MAEA_uc010ibs.1_Missense_Mutation_p.R42W|MAEA_uc003gdb.2_Missense_Mutation_p.R42W|MAEA_uc011bvb.1_Missense_Mutation_p.R42W|MAEA_uc003gdc.2_Missense_Mutation_p.R42W|MAEA_uc003gdd.2_RNA|MAEA_uc011bvc.1_Missense_Mutation_p.R41W|MAEA_uc011bvd.1_5'UTR	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	42	Extracellular and involved in cell to cell contact.				cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			GAACATTGACCGGGAGACCAG	0.637													13	29					0	0	1	0	0		T	1305821	T	T	1305821	3	4	153	1	0	0	0	0	1	0	0	0	9171	643	23	1	130	1	MAEA	4	1305821	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		1305821	189848455	392	82324											
WHSC1	7468	broad.mit.edu	37	chr4	1980497	1980497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcaccccggacgggcGgtcctactgctgtgagcatg	6	7	14	14	3	0	1	0	1	0	0	1	2	1	2	3	3	5	4	3	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:1980497G>A	uc003gdz.3	+	22	4135	c.3959G>A	c.(3958-3960)CGG>CAG	p.R1320Q	WHSC1_uc003geb.3_Missense_Mutation_p.R1320Q|WHSC1_uc003gec.3_Missense_Mutation_p.R1320Q|WHSC1_uc003ged.3_Missense_Mutation_p.R1320Q|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Missense_Mutation_p.R539Q|WHSC1_uc011bvh.1_Missense_Mutation_p.R381Q|WHSC1_uc010icf.2_Missense_Mutation_p.R668Q	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1320					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		CCGGACGGGCGGTCCTACTGC	0.612			T	IGH@	MM								11	53					0	0	1	0	0		A	1980497	A	A	1980497	3	1	153	1	0	0	0	0	1	0	0	0	17388	1116	39	1	4117	1	WHSC1	4	1980497	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	674676	1980497	189173779	393	82325											
ADD1	118	broad.mit.edu	37	chr4	2900204	2900204	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgtgtcagttggagagagCgttgaggaggccttctatta	8	12	14	7	2	2	2	1	1	1	1	3	5	2	4	1	3	1	2	1	3	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:2900204C>T	uc003gfr.2	+	8	1118	c.930C>T	c.(928-930)AGC>AGT	p.S310S	ADD1_uc003gfn.2_Intron|ADD1_uc010ico.1_Silent_p.S310S|ADD1_uc003gfo.2_Silent_p.S310S|ADD1_uc003gfp.2_Silent_p.S310S|ADD1_uc003gfq.2_Silent_p.S310S|ADD1_uc003gfs.2_Silent_p.S310S|ADD1_uc003gft.3_Silent_p.S310S|ADD1_uc003gfu.2_Silent_p.S95S	NM_001119	NP_001110	P35611	ADDA_HUMAN	adducin 1 (alpha) isoform a	310					actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TTGGAGAGAGCGTTGAGGAGG	0.507													58	200					0	0	1	0	0		T	2900204	T	T	2900204	2	4	153	1	0	0	0	0	0	0	0	1	304	767	27	1		1	ADD1	4	2900204	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	919707	2900204	188254072	394	82326											
HTT	3064	broad.mit.edu	37	chr4	3237477	3237477	+	Frame_Shift_Del	DEL	G	-	-																															caccgggccatggcggctctGggcctgatgctcacctgcat																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:3237477delG	uc011bvq.1	+	64	8908	c.8763delG	c.(8761-8763)CTGfs	p.L2921fs		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2919					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TGGCGGCTCTGGGCCTGATGC	0.602													13	19	---	---	---	---						.	-	3237477	-	-	3237477	7	5	153	1	0	1	0	1	0	0	0	0	7473	1335	47	0	9007	0	HTT	4	3237477	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	337273	3237477	187916799	395	82327											
RGS12	6002	broad.mit.edu	37	chr4	3424203	3424203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcgtggtggctgtcaaggCgggcttctccatcaaagaca	8	9	13	11	2	3	1	2	0	1	1	4	1	3	1	1	4	1	2	1	4	2	1	rs144503690		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:3424203C>T	uc003ggw.2	+	11	3843	c.2939C>T	c.(2938-2940)GCG>GTG	p.A980V	RGS12_uc003ggv.2_Missense_Mutation_p.A980V|RGS12_uc003ggy.1_Missense_Mutation_p.A378V|RGS12_uc003ggz.2_Missense_Mutation_p.A332V|RGS12_uc010icu.1_Missense_Mutation_p.A179V|RGS12_uc011bvs.1_Missense_Mutation_p.A322V|RGS12_uc003gha.2_Missense_Mutation_p.A322V|RGS12_uc010icv.2_Missense_Mutation_p.A179V|RGS12_uc003ghb.2_Missense_Mutation_p.A179V	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	980	RBD 1.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCTGTCAAGGCGGGCTTCTCC	0.627													9	22					0	0	1	0	0		T	3424203	T	T	3424203	3	4	153	1	0	0	0	0	1	0	0	0	13320	768	27	1	3035	1	RGS12	4	3424203	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	186726	3424203	187730073	396	82328											
STK32B	55351	broad.mit.edu	37	chr4	5458560	5458560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgaaatccactcggtcacGcccatcgatgaaatcctcaa	13	8	6	14	4	2	1	2	1	0	0	6	3	4	1	3	1	1	0	3	1	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:5458560G>A	uc003gih.1	+	8	757	c.693G>A	c.(691-693)ACG>ACA	p.T231T	STK32B_uc010ida.1_Silent_p.T184T	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	231	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						ACTCGGTCACGCCCATCGATG	0.532													14	27					0	0	1	0	0		A	5458560	A	A	5458560	2	1	153	1	0	0	0	0	0	0	0	1	15323	1074	38	1		1	STK32B	4	5458560	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2034357	5458560	185695716	397	82329											
EVC2	132884	broad.mit.edu	37	chr4	5620258	5620258	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcacgaactctgcttctcGccacgcagtctgaaattgct	8	12	7	14	3	4	1	1	1	3	0	5	2	4	1	1	0	3	3	1	0	2	3	rs146538906		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:5620258G>A	uc003gij.2	-	15	2707	c.2653C>T	c.(2653-2655)CGA>TGA	p.R885*	EVC2_uc011bwb.1_Nonsense_Mutation_p.R325*|EVC2_uc003gik.2_Nonsense_Mutation_p.R805*	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	885						integral to membrane				large_intestine(3)|ovary(2)	5						TCTGCTTCTCGCCACGCAGTC	0.617													10	31					0	0	1	0	0		A	5620258	A	A	5620258	4	1	153	1	0	0	0	0	0	1	0	0	5294	1095	38	1	1305	1	EVC2	4	5620258	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	161698	5620258	185534018	398	82330											
EVC2	132884	broad.mit.edu	37	chr4	5624349	5624349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atccttcagtctctgcctcaCgctctggacaccctcctggt	5	12	7	17	1	4	0	2	0	2	0	7	1	6	1	4	2	1	1	4	2	0	1	rs138128087		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:5624349C>T	uc003gij.2	-	14	2470	c.2416G>A	c.(2416-2418)GTG>ATG	p.V806M	EVC2_uc011bwb.1_Missense_Mutation_p.V246M|EVC2_uc003gik.2_Missense_Mutation_p.V726M	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	806						integral to membrane				large_intestine(3)|ovary(2)	5						CTCTGCCTCACGCTCTGGACA	0.642													9	32					0	0	1	0	0		T	5624349	T	T	5624349	3	4	153	1	0	0	0	0	1	0	0	0	5294	536	19	1	1546	1	EVC2	4	5624349	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4091	5624349	185529927	399	82331											
MAN2B2	23324	broad.mit.edu	37	chr4	6610856	6610856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtaaccgaacggtgcgcGtgacccaggaattcctggag	11	6	14	10	4	0	2	0	1	0	1	1	5	1	4	3	3	3	1	3	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:6610856G>A	uc003gjf.1	+	12	1873	c.1837G>A	c.(1837-1839)GTG>ATG	p.V613M	MAN2B2_uc003gje.1_Missense_Mutation_p.V613M|MAN2B2_uc011bwf.1_Missense_Mutation_p.V562M	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	613					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						AACGGTGCGCGTGACCCAGGA	0.572													10	50					0	0	1	0	0		A	6610856	A	A	6610856	3	1	153	1	0	0	0	0	1	0	0	0	9235	1145	40	1	1883	1	MAN2B2	4	6610856	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	986507	6610856	184543420	400	82332											
ABLIM2	84448	broad.mit.edu	37	chr4	8108356	8108356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgggctgggagcagcctgggGctgcgacactgttgggaaag	7	6	19	9	2	0	0	0	0	0	0	0	3	0	2	1	5	3	4	1	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:8108356G>A	uc003gko.2	-	2	162	c.19C>T	c.(19-21)CCC>TCC	p.P7S	ABLIM2_uc003gkj.3_Missense_Mutation_p.P7S|ABLIM2_uc003gkm.3_Missense_Mutation_p.P7S|ABLIM2_uc003gkp.2_Missense_Mutation_p.P7S|ABLIM2_uc003gkq.2_Missense_Mutation_p.P7S|ABLIM2_uc003gkr.2_Missense_Mutation_p.P7S|ABLIM2_uc003gks.3_Missense_Mutation_p.P7S|ABLIM2_uc011bwl.1_Missense_Mutation_p.P12S	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	7					axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						GCAGCCTGGGGCTGCGACACT	0.622													5	14					0	0	1	0	0		A	8108356	A	A	8108356	3	1	153	1	0	0	0	0	1	0	0	0	95	1203	42	2	2052	2	ABLIM2	4	8108356	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1497500	8108356	183045920	401	82333											
BOD1L	259282	broad.mit.edu	37	chr4	13601693	13601693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtgtgactgaggggtcGccttcctcttgagggacagc	5	10	16	10	1	1	3	0	3	1	0	3	4	2	4	2	4	1	1	2	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:13601693G>A	uc003gmz.1	-	10	6948	c.6831C>T	c.(6829-6831)GGC>GGT	p.G2277G	BOD1L_uc010idr.1_Silent_p.G1614G	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2277							DNA binding			ovary(5)|breast(1)	6						CTGAGGGGTCGCCTTCCTCTT	0.562													11	26					0	0	1	0	0		A	13601693	A	A	13601693	2	1	153	1	0	0	0	0	0	0	0	1	1484	1074	38	1		1	BOD1L	4	13601693	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5493337	13601693	177552583	402	82334											
C1QTNF7	114905	broad.mit.edu	37	chr4	15437526	15437526	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagcaaatggttcccctggGccccatggtcgcatcggcct	6	8	13	14	2	0	0	0	0	0	0	3	1	1	1	5	5	1	3	5	5	1	1	rs141616746	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:15437526G>A	uc011bxb.1	+	2	386	c.159G>A	c.(157-159)GGG>GGA	p.G53G	C1QTNF7_uc003gno.2_Silent_p.G60G|C1QTNF7_uc003gnp.2_Silent_p.G53G	NM_001135171	NP_001128643	Q9BXJ2	C1QT7_HUMAN	C1q and tumor necrosis factor related protein 7	53	Collagen-like.					collagen					0						GTTCCCCTGGGCCCCATGGTC	0.537													17	43					0	0	1	0	0		A	15437526	A	A	15437526	2	1	153	1	0	0	0	0	0	0	0	1	1971	1190	42	2		2	C1QTNF7	4	15437526	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1835833	15437526	175716750	403	82335											
LCORL	254251	broad.mit.edu	37	chr4	17963635	17963635	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggtgttgactgtgaagaAtcaagagatggtatacaatc	13	12	12	4	0	1	4	1	2	0	2	2	5	1	4	0	2	1	3	0	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:17963635A>T	uc003gpq.2	-	4	332	c.321T>A	c.(319-321)GAT>GAA	p.D107E	LCORL_uc011bxk.1_Missense_Mutation_p.D20E	NM_153686	NP_710153	Q8N3X6	LCORL_HUMAN	ligand dependent nuclear receptor	107					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						ACTGTGAAGAATCAAGAGATG	0.328													21	69					0	0	1	0	0		T	17963635	T	T	17963635	3	4	153	1	0	0	0	0	1	0	0	0	8706	98	4	5	1688	5	LCORL	4	17963635	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2526109	17963635	173190641	404	82336											
DHX15	1665	broad.mit.edu	37	chr4	24578185	24578185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagcatagcatttgttgaaGctcgcaactccttctccttt	9	15	6	11	1	1	1	0	1	1	0	4	1	2	1	2	0	4	5	2	0	4	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:24578185G>A	uc003gqx.2	-	2	356	c.188C>T	c.(187-189)GCT>GTT	p.A63V		NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	63					mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				ATTTGTTGAAGCTCGCAActc	0.408													38	110					0	0	1	0	0		A	24578185	A	A	24578185	3	1	153	1	0	0	0	0	1	0	0	0	4507	971	34	2	2251	2	DHX15	4	24578185	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6614550	24578185	166576091	405	82337											
SEL1L3	23231	broad.mit.edu	37	chr4	25849480	25849480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcctacccaaagatggtaCaacattctgaaaaaaagaaa	19	7	6	9	0	1	3	0	1	1	2	1	3	1	3	2	1	4	1	2	1	8	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:25849480C>T	uc003gru.3	-	2	321	c.169G>A	c.(169-171)GTA>ATA	p.V57I		NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	57						integral to membrane	binding				0						AAAGATGGTACAACATTCTGA	0.338													6	33					0	0	1	0	0		T	25849480	T	T	25849480	3	4	153	1	0	0	0	0	1	0	0	0	14037	478	17	4	3321	4	SEL1L3	4	25849480	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1271295	25849480	165304796	406	82338											
CCKAR	886	broad.mit.edu	37	chr4	26487494	26487494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagagatatggctaccagatTaaaggtagatacactcacag	16	9	9	7	0	1	3	1	0	0	3	1	4	1	3	1	2	2	2	1	2	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:26487494T>C	uc003gse.1	-	3	544	c.391A>G	c.(391-393)AAT>GAT	p.N131D		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	131	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	GCTACCAGATTAAAGGTAGAT	0.433													4	35					0	0	1	0	0		C	26487494	C	C	26487494	3	2	153	1	0	0	0	0	1	0	0	0	2883	1754	61	3	907	3	CCKAR	4	26487494	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	638014	26487494	164666782	407	82339											
PCDH7	5099	broad.mit.edu	37	chr4	30724650	30724650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgacaacccgcccatgttcGgccagtcggtggtggaggtt	7	8	14	12	4	0	0	0	0	0	0	2	2	0	1	3	5	1	2	3	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:30724650G>A	uc003gsk.1	+	1	2614	c.1606G>A	c.(1606-1608)GGC>AGC	p.G536S	PCDH7_uc011bxw.1_Missense_Mutation_p.G489S|PCDH7_uc011bxx.1_Missense_Mutation_p.G536S	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	536	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GCCCATGTTCGGCCAGTCGGT	0.622													20	49					0	0	1	0	0		A	30724650	A	A	30724650	3	1	153	1	0	0	0	0	1	0	0	0	11535	1116	39	1	1608	1	PCDH7	4	30724650	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4237156	30724650	160429626	408	82340											
PCDH7	5099	broad.mit.edu	37	chr4	30725630	30725630	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtttgcacatcccactcacCcaggatatagctggtgaccc	10	9	8	14	0	1	1	1	1	0	0	2	2	2	2	3	2	2	3	3	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:30725630C>T	uc003gsk.1	+	1	3594	c.2586C>T	c.(2584-2586)ACC>ACT	p.T862T	PCDH7_uc011bxw.1_Silent_p.T815T|PCDH7_uc011bxx.1_Silent_p.T862T	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	862	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						TCCCACTCACCCAGGATATAG	0.453													32	103					0	0	1	0	0		T	30725630	T	T	30725630	2	4	153	1	0	0	0	0	0	0	0	1	11535	610	22	4		4	PCDH7	4	30725630	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	980	30725630	160428646	409	82341											
TLR6	10333	broad.mit.edu	37	chr4	38830759	38830759	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatggcaggatatcttttgCaactgattatgagataaatc	13	13	10	5	0	1	2	0	2	1	1	2	5	1	4	0	3	2	2	0	3	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:38830759C>T	uc003gtm.2	-	1	402	c.336G>A	c.(334-336)TTG>TTA	p.L112L	TLR6_uc010ifg.1_Silent_p.L112L	NM_006068	NP_006059	Q9Y2C9	TLR6_HUMAN	toll-like receptor 6 precursor	112	LRR 3.|Extracellular (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to diacyl bacterial lipopeptide|defense response to bacterium|detection of diacyl bacterial lipopeptide|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-6 biosynthetic process|positive regulation of JUN kinase activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	integral to plasma membrane|phagocytic vesicle membrane	lipopeptide binding|transmembrane receptor activity			ovary(2)	2						ATATCTTTTGCAACTGATTAT	0.363													33	101					0	0	1	0	0		T	38830759	T	T	38830759	2	4	153	1	0	0	0	0	0	0	0	1	15980	709	25	2		2	TLR6	4	38830759	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8105129	38830759	152323517	410	82342											
KCTD8	386617	broad.mit.edu	37	chr4	44177000	44177000	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	tgagggtctgaaagagttcaCtgtttctgcgtttgtctggt	6	16	13	6	1	4	3	1	2	3	1	4	3	4	3	0	2	1	3	0	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:44177000C>G	uc003gwu.2	-	2	1513	c.1229G>C	c.(1228-1230)AGT>ACT	p.S410T		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	410						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						AAAGAGTTCACTGTTTCTGCG	0.448										HNSCC(17;0.042)			97	380					0	0	1	0	0		G	44177000	G	G	44177000	3	3	153	1	0	0	0	0	1	0	0	0	8131	565	20	5	196	5	KCTD8	4	44177000	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5346241	44177000	146977276	411	82343											
ATP10D	57205	broad.mit.edu	37	chr4	47559796	47559796	+	Missense_Mutation	SNP	A	C	C	1	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	atcgcttaacagtgggaaagAgccatcttctggagttccaa	12	10	10	9	1	2	1	0	0	2	1	4	3	3	3	2	2	2	2	2	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:47559796A>C	uc003gxk.1	+	12	2104	c.1940A>C	c.(1939-1941)GAG>GCG	p.E647A	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	647	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3						AGTGGGAAAGAGCCATCTTCT	0.488													35	114					0	0	1	0	0		C	47559796	C	C	47559796	3	2	153	1	0	0	0	0	1	0	0	0	1119	304	11	5	1982	5	ATP10D	4	47559796	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3382796	47559796	143594480	412	82344											
PDGFRA	5156	broad.mit.edu	37	chr4	55146618	55146618	+	Silent	SNP	T	C	C	0	1	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	cagagatcactctatgatcgTccagcctcatataagaagaa	15	9	7	10	1	3	4	2	1	1	3	5	5	4	4	2	0	1	0	2	0	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:55146618T>C	uc003han.3	+	16	2623	c.2292T>C	c.(2290-2292)CGT>CGC	p.R764R	PDGFRA_uc003haa.2_Silent_p.R524R|PDGFRA_uc010igq.1_Silent_p.R658R|PDGFRA_uc003ham.2_RNA|PDGFRA_uc003hao.1_Silent_p.R143R	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	764	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TCTATGATCGTCCAGCCTCAT	0.343			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			22	79					0	0	1	0	0		C	55146618	C	C	55146618	2	2	153	1	0	0	0	0	0	0	0	1	11680	1654	58	3		3	PDGFRA	4	55146618	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	7586822	55146618	136007658	413	82345											
TMPRSS11B	132724	broad.mit.edu	37	chr4	69095169	69095169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaataatgttttggactttcCgtgtcatatatggtttattt	10	20	7	4	1	1	0	1	0	0	0	2	1	2	1	1	2	0	2	1	2	5	9	rs139488710	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:69095169C>T	uc003hdw.3	-	8	888	c.752G>A	c.(751-753)CGG>CAG	p.R251Q		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	251	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TTGGACTTTCCGTGTCATATA	0.338													29	125					0	0	1	0	0		T	69095169	T	T	69095169	3	4	153	1	0	0	0	0	1	0	0	0	16265	652	23	1	510	1	TMPRSS11B	4	69095169	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	13948551	69095169	122059107	414	82346											
CSN3	1448	broad.mit.edu	37	chr4	71114945	71114945	+	Silent	SNP	T	C	C	0	1	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	ccaaatagccacccacccacTgtggtacgtcgcccaaacct	11	6	6	18	2	0	0	0	0	0	0	1	0	0	0	6	1	3	1	6	1	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:71114945T>C	uc003hfe.3	+	4	376	c.318T>C	c.(316-318)ACT>ACC	p.T106T		NM_005212	NP_005203	P07498	CASK_HUMAN	casein kappa precursor	106						extracellular region	protein binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						ACCCACCCACTGTGGTACGTC	0.468													23	82					0	0	1	0	0		C	71114945	C	C	71114945	2	2	153	1	0	0	0	0	0	0	0	1	3952	1567	55	3		3	CSN3	4	71114945	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2019776	71114945	120039331	415	82347											
C4orf35	85438	broad.mit.edu	37	chr4	71201895	71201895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacacctccacaactgaaaCggatatctttgaactactga	15	9	6	11	1	1	4	0	3	1	1	2	5	2	5	2	1	4	0	2	1	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:71201895C>T	uc003hff.2	+	1	1225	c.1139C>T	c.(1138-1140)ACG>ATG	p.T380M		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	380						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				ACAACTGAAACGGATATCTTT	0.398													36	123					0	0	1	0	0		T	71201895	T	T	71201895	3	4	153	1	0	0	0	0	1	0	0	0	2268	536	19	1	1141	1	C4orf35	4	71201895	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	86950	71201895	119952381	416	82348											
USO1	8615	broad.mit.edu	37	chr4	76695833	76695833	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctttcttctctatagggcgTcttactactgcaggcactaa	8	15	7	11	1	4	0	0	0	4	0	5	0	4	0	0	2	3	2	0	2	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:76695833T>C	uc003hiu.2	+	7	735	c.560T>C	c.(559-561)GTC>GCC	p.V187A	USO1_uc003hiv.2_Missense_Mutation_p.V22A|USO1_uc003hiw.2_Missense_Mutation_p.V22A	NM_003715	NP_003706	O60763	USO1_HUMAN	USO1 homolog, vesicle docking protein	187	Globular head.|ARM 3.				intracellular protein transport|vesicle fusion with Golgi apparatus	cytosol|Golgi membrane	protein binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CTATAGGGCGTCTTACTACTG	0.303													13	75					0	0	1	0	0		C	76695833	C	C	76695833	3	2	153	1	0	0	0	0	1	0	0	0	17065	1667	58	3	431	3	USO1	4	76695833	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5493938	76695833	114458443	417	82349											
PPEF2	5470	broad.mit.edu	37	chr4	76793201	76793201	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcctcatggtgagtgtgtgGgtcaccttgttagcttgata	6	15	13	7	0	2	2	2	2	0	0	2	2	2	2	2	2	2	2	2	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:76793201G>A	uc003hix.2	-	13	1983	c.1626C>T	c.(1624-1626)ACC>ACT	p.T542T	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Silent_p.T542T	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	542					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TGAGTGTGTGGGTCACCTTGT	0.433													30	122					0	0	1	0	0		A	76793201	A	A	76793201	2	1	153	1	0	0	0	0	0	0	0	1	12327	1219	43	4		4	PPEF2	4	76793201	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	97368	76793201	114361075	418	82350											
SEC31A	22872	broad.mit.edu	37	chr4	83785682	83785682	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgaacacatggtgctgctGctgctgctgctcagctccct	7	11	10	13	0	1	1	1	1	0	0	2	1	2	1	1	1	8	7	1	1	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:83785682G>A	uc003hnf.2	-	11	1431	c.1267C>T	c.(1267-1269)CAG>TAG	p.Q423*	SEC31A_uc003hne.2_Nonsense_Mutation_p.Q195*|SEC31A_uc011ccl.1_Nonsense_Mutation_p.Q423*|SEC31A_uc003hnl.2_Nonsense_Mutation_p.Q423*|SEC31A_uc003hng.2_Nonsense_Mutation_p.Q423*|SEC31A_uc003hnh.2_Nonsense_Mutation_p.Q423*|SEC31A_uc003hni.2_Nonsense_Mutation_p.Q423*|SEC31A_uc003hnj.2_Nonsense_Mutation_p.Q423*|SEC31A_uc011ccm.1_Nonsense_Mutation_p.Q418*|SEC31A_uc011ccn.1_Nonsense_Mutation_p.Q423*|SEC31A_uc003hnk.2_Nonsense_Mutation_p.Q423*|SEC31A_uc003hnm.2_Nonsense_Mutation_p.Q423*|SEC31A_uc003hnn.1_Nonsense_Mutation_p.Q423*|SEC31A_uc003hno.2_Nonsense_Mutation_p.Q423*	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	423	Interaction with SEC13.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				TGGTGCTGCTGCTGCTGCTGC	0.453													11	82					0	0	1	0	0		A	83785682	A	A	83785682	4	1	153	1	0	0	0	0	0	1	0	0	14023	1328	46	2	2463	2	SEC31A	4	83785682	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6992481	83785682	107368594	419	82351											
THAP9	79725	broad.mit.edu	37	chr4	83838784	83838784	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatttgaaaaatcatgtactGaaagtgaatagtgccaccca	17	10	7	7	0	1	3	1	3	0	0	1	3	1	3	2	0	2	1	2	0	7	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:83838784G>A	uc003hnt.2	+	5	1538	c.1419G>A	c.(1417-1419)CTG>CTA	p.L473L	THAP9_uc003hns.1_Silent_p.L329L|THAP9_uc003hnu.1_RNA|THAP9_uc003hnv.2_Silent_p.L190L	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	473							DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				ATCATGTACTGAAAGTGAATA	0.388													88	261					0	0	1	0	0		A	83838784	A	A	83838784	2	1	153	1	0	0	0	0	0	0	0	1	15876	1277	45	4		4	THAP9	4	83838784	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	53102	83838784	107315492	420	82352											
WDFY3	23001	broad.mit.edu	37	chr4	85617311	85617311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aatccactcatgtagatgggCactcacgtaatcacactcca	13	9	6	13	1	3	1	3	0	0	1	5	1	5	1	2	1	0	3	2	1	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:85617311C>T	uc003hpd.2	-	58	9121	c.8713G>A	c.(8713-8715)GCC>ACC	p.A2905T	WDFY3_uc003hpe.1_Missense_Mutation_p.A516T	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2905	BEACH.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TGTAGATGGGCACTCACGTAA	0.408													42	141					0	0	1	0	0		T	85617311	T	T	85617311	3	4	153	1	0	0	0	0	1	0	0	0	17296	710	25	2	1911	2	WDFY3	4	85617311	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1778527	85617311	105536965	421	82353											
PTPN13	5783	broad.mit.edu	37	chr4	87696414	87696414	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagtcagattagttattggaCgagttctagaattacccaga	13	12	9	7	1	2	3	1	0	1	3	2	5	2	4	1	1	1	2	1	1	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:87696414C>T	uc003hpz.2	+	34	6079	c.5599C>T	c.(5599-5601)CGA>TGA	p.R1867*	PTPN13_uc003hpy.2_Nonsense_Mutation_p.R1872*|PTPN13_uc003hqa.2_Nonsense_Mutation_p.R1848*|PTPN13_uc003hqb.2_Nonsense_Mutation_p.R1676*|PTPN13_uc003hqc.1_Nonsense_Mutation_p.R233*	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1867	PDZ 4.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		AGTTATTGGACGAGTTCTAGA	0.388													17	41					0	0	1	0	0		T	87696414	T	T	87696414	4	4	153	1	0	0	0	0	0	1	0	0	12805	528	19	1	5744	1	PTPN13	4	87696414	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2079103	87696414	103457862	422	82354											
DMP1	1758	broad.mit.edu	37	chr4	88584427	88584427	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgatgcctatcacaacaaAcccattggggaccaagatga	14	8	9	10	0	1	3	1	2	0	1	1	4	1	4	3	2	3	1	3	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:88584427A>C	uc003hqv.2	+	6	1601	c.1497A>C	c.(1495-1497)AAA>AAC	p.K499N	DMP1_uc003hqw.2_Missense_Mutation_p.K483N	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	499					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		ATCACAACAAACCCATTGGGG	0.448													59	177					0	0	1	0	0		C	88584427	C	C	88584427	3	2	153	1	0	0	0	0	1	0	0	0	4589	40	2	5	1515	5	DMP1	4	88584427	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	888013	88584427	102569849	423	82355											
SMARCAD1	56916	broad.mit.edu	37	chr4	95198191	95198191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcaaataaccgtttgctgCtcacaggcacacctgtacag	12	8	9	12	1	1	0	1	0	0	0	1	0	1	0	2	2	4	6	2	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:95198191C>T	uc003htc.3	+	16	2218	c.1963C>T	c.(1963-1965)CTC>TTC	p.L655F	SMARCAD1_uc003htb.3_Missense_Mutation_p.L655F|SMARCAD1_uc003htd.3_Missense_Mutation_p.L655F|SMARCAD1_uc010ila.2_Missense_Mutation_p.L518F|SMARCAD1_uc011cdw.1_Missense_Mutation_p.L225F	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	655	Helicase ATP-binding.				chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		CCGTTTGCTGCTCACAGGCAC	0.398													50	173					0	0	1	0	0		T	95198191	T	T	95198191	3	4	153	1	0	0	0	0	1	0	0	0	14797	797	28	2	2021	2	SMARCAD1	4	95198191	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6613764	95198191	95956085	424	82356											
BMPR1B	658	broad.mit.edu	37	chr4	96035949	96035949	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttctggttgcctaggactAgaaggctcagattttcagtg	9	13	11	8	0	3	2	2	0	1	2	3	3	3	3	1	3	1	2	1	3	3	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:96035949A>C	uc003htm.3	+	5	496	c.222A>C	c.(220-222)CTA>CTC	p.L74L	BMPR1B_uc010ilb.2_Silent_p.L74L|BMPR1B_uc003htn.3_Silent_p.L74L	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	74	Extracellular (Potential).				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		GCCTAGGACTAGAAGGCTCAG	0.418													12	380					0	0	1	0	0		C	96035949	C	C	96035949	2	2	153	1	0	0	0	0	0	0	0	1	1471	407	15	5		5	BMPR1B	4	96035949	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	837758	96035949	95118327	425	82357											
PDHA2	5161	broad.mit.edu	37	chr4	96761471	96761471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cactacagtgctcactagggCggaggggcttaaatactaca	12	8	11	10	1	1	0	1	0	0	0	1	1	1	1	0	4	4	2	0	4	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:96761471C>T	uc003htr.3	+	1	233	c.170C>T	c.(169-171)GCG>GTG	p.A57V		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	57					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	CTCACTAGGGCGGAGGGGCTT	0.463													14	59					0	0	1	0	0		T	96761471	T	T	96761471	3	4	153	1	0	0	0	0	1	0	0	0	11684	768	27	1	172	1	PDHA2	4	96761471	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	725522	96761471	94392805	426	82358											
DDIT4L	115265	broad.mit.edu	37	chr4	101109133	101109133	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcagggctccgttgaggaaaGccgcaggacatcttgagcaa	11	6	14	10	2	1	2	0	2	1	0	2	4	2	4	2	3	2	5	2	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:101109133G>A	uc003hvq.2	-	3	486	c.283C>T	c.(283-285)CTT>TTT	p.L95F		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	95					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		GTTGAGGAAAGCCGCAGGACA	0.458													28	193					0	0	1	0	0		A	101109133	A	A	101109133	3	1	153	1	0	0	0	0	1	0	0	0	4335	971	34	2	302	2	DDIT4L	4	101109133	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4347662	101109133	90045143	427	82359											
MANBA	4126	broad.mit.edu	37	chr4	103555971	103555971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcgccttgcagagccccaCggcctccttcggtgaggaca	6	7	12	16	3	0	2	0	1	0	1	2	3	1	3	5	3	3	1	5	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:103555971C>T	uc003hwg.2	-	16	2489	c.2389G>A	c.(2389-2391)GTG>ATG	p.V797M	MANBA_uc011ces.1_Missense_Mutation_p.V740M	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	797					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		CAGAGCCCCACGGCCTCCTTC	0.582													18	65					0	0	1	0	0		T	103555971	T	T	103555971	3	4	153	1	0	0	0	0	1	0	0	0	9237	536	19	1	258	1	MANBA	4	103555971	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2446838	103555971	87598305	428	82360											
SEC24B	10427	broad.mit.edu	37	chr4	110451569	110451569	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcactctgcattgatggcGcccagctccctcaagttgtt	7	11	9	14	1	2	1	1	1	1	0	3	1	3	1	2	1	3	5	2	1	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:110451569G>T	uc003hzk.2	+	19	3256	c.3201G>T	c.(3199-3201)GCG>GCT	p.A1067A	SEC24B_uc003hzl.2_Silent_p.A1032A|SEC24B_uc011cfp.1_Silent_p.A1097A|SEC24B_uc011cfq.1_Silent_p.A1066A|SEC24B_uc011cfr.1_Silent_p.A1031A	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	1067					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CATTGATGGCGCCCAGCTCCC	0.398													50	143					1.67211e-32	1.81696e-32	1	1	0		T	110451569	T	T	110451569	2	4	153	1	0	0	0	0	0	0	0	1	14020	1074	38	5		5	SEC24B	4	110451569	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6895598	110451569	80702707	429	82361											
CCDC109B	55013	broad.mit.edu	37	chr4	110605647	110605647	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccaaaaccagtggactcCtgtgggctggattggcactg	10	8	13	10	0	0	0	0	0	0	0	1	2	1	2	3	4	2	2	3	4	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:110605647C>A	uc011cfs.1	+	6	800	c.661C>A	c.(661-663)CTG>ATG	p.L221M		NM_017918	NP_060388	Q9NWR8	C109B_HUMAN	coiled-coil domain containing 109B	221	Helical; (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;6.65e-06)		CAGTGGACTCCTGTGGGCTGG	0.493													26	83					7.92952e-12	8.36287e-12	1	1	0		A	110605647	A	A	110605647	3	1	153	1	0	0	0	0	1	0	0	0	2748	680	24	5	683	5	CCDC109B	4	110605647	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	154078	110605647	80548629	430	82362											
LRIT3	345193	broad.mit.edu	37	chr4	110791250	110791250	+	Missense_Mutation	SNP	A	G	G	1	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	tccagctccaccaaggtgggAaaagaaatttaaaggtggca	15	7	11	8	0	0	1	0	0	0	1	2	2	2	2	3	4	1	2	3	4	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:110791250A>G	uc003hzx.3	+	3	1403	c.1210A>G	c.(1210-1212)AAA>GAA	p.K404E	LRIT3_uc003hzw.3_Missense_Mutation_p.K266E	NM_198506	NP_940908	Q3SXY7	LRIT3_HUMAN	leucine-rich repeat, immunoglobulin-like and	404						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;0.0011)		CCAAGGTGGGAAAAGAAATTT	0.413													21	87					0	0	1	0	0		G	110791250	G	G	110791250	3	3	153	1	0	0	0	0	1	0	0	0	8967	247	9	3	1220	3	LRIT3	4	110791250	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	185603	110791250	80363026	431	82363											
NEUROG2	63973	broad.mit.edu	37	chr4	113436263	113436263	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcgttgaggttgtgcatgcgGtttcgctcgcggttgttggc	2	14	17	8	5	0	1	0	1	0	0	2	1	0	1	0	4	2	7	0	4	0	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:113436263G>A	uc003ias.2	-	2	696	c.369C>T	c.(367-369)AAC>AAT	p.N123N		NM_024019	NP_076924	Q9H2A3	NGN2_HUMAN	neurogenin 2	123	Helix-loop-helix motif.|Basic motif.				positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent	nucleus	E-box binding	p.N123N(1)		skin(2)|central_nervous_system(1)	3		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00168)		TGTGCATGCGGTTTCGCTCGC	0.672													16	55					0	0	1	0	0		A	113436263	A	A	113436263	2	1	153	1	0	0	0	0	0	0	0	1	10372	1252	44	4		4	NEUROG2	4	113436263	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2645013	113436263	77718013	432	82364											
ARSJ	79642	broad.mit.edu	37	chr4	114823740	114823740	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catatgggtcggctgtgatgTtgaaaagccatacacttttg	10	13	11	7	1	0	2	0	2	0	0	1	2	0	2	1	2	2	2	1	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:114823740T>C	uc003ibq.1	-	2	2378	c.1490A>G	c.(1489-1491)AAC>AGC	p.N497S	ARSJ_uc010imu.1_Missense_Mutation_p.N497S|ARSJ_uc010imv.1_Missense_Mutation_p.N325S	NM_024590	NP_078866	Q5FYB0	ARSJ_HUMAN	arylsulfatase J precursor	497						extracellular region	arylsulfatase activity|metal ion binding			ovary(1)	1		Ovarian(17;0.0035)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00194)		GGCTGTGATGTTGAAAAGCCA	0.517													34	90					0	0	1	0	0		C	114823740	C	C	114823740	3	2	153	1	0	0	0	0	1	0	0	0	996	1725	60	3	313	3	ARSJ	4	114823740	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1387477	114823740	76330536	433	82365											
SYNPO2	171024	broad.mit.edu	37	chr4	119948547	119948547	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggagaagatccacgctcGgaaaaagatcacagcagacc	16	3	11	11	2	1	4	1	0	0	4	3	6	2	5	2	2	1	2	2	2	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:119948547G>A	uc003icm.3	+	3	1219	c.1023G>A	c.(1021-1023)TCG>TCA	p.S341S	SYNPO2_uc010ina.2_Silent_p.S341S|SYNPO2_uc010inb.2_Silent_p.S341S|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Silent_p.S269S	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	341						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						ATCCACGCTCGGAAAAAGATC	0.557													15	39					0	0	1	0	0		A	119948547	A	A	119948547	2	1	153	1	0	0	0	0	0	0	0	1	15482	1103	39	1		1	SYNPO2	4	119948547	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5124807	119948547	71205729	434	82366											
SYNPO2	171024	broad.mit.edu	37	chr4	119951141	119951141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taagaagcgacgtcggagggCcaggaaatacaccctagtta	14	6	12	9	3	0	1	0	0	0	1	1	4	0	3	2	3	2	1	2	3	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:119951141C>T	uc003icm.3	+	4	1407	c.1211C>T	c.(1210-1212)GCC>GTC	p.A404V	SYNPO2_uc010ina.2_Missense_Mutation_p.A404V|SYNPO2_uc010inb.2_Missense_Mutation_p.A404V|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.A332V	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	404	Poly-Arg.					nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						CGTCGGAGGGCCAGGAAATAC	0.502													57	148					0	0	1	0	0		T	119951141	T	T	119951141	3	4	153	1	0	0	0	0	1	0	0	0	15482	739	26	2	1225	2	SYNPO2	4	119951141	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2594	119951141	71203135	435	82367											
ANKRD50	57182	broad.mit.edu	37	chr4	125592090	125592090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctaagaggggtgtacggCcattgttatctgtgtgatct	7	14	13	7	1	2	2	0	1	2	1	2	2	2	2	1	3	2	3	1	3	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:125592090C>T	uc003ifg.3	-	3	2608	c.2342G>A	c.(2341-2343)GGC>GAC	p.G781D	ANKRD50_uc011cgo.1_Missense_Mutation_p.G602D|ANKRD50_uc010inw.2_Missense_Mutation_p.G781D	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	781	ANK 10.									central_nervous_system(1)	1						GGGTGTACGGCCATTGTTATC	0.473													40	172					0	0	1	0	0		T	125592090	T	T	125592090	3	4	153	1	0	0	0	0	1	0	0	0	677	739	26	2	1951	2	ANKRD50	4	125592090	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5640949	125592090	65562186	436	82368											
FAT4	79633	broad.mit.edu	37	chr4	126372844	126372844	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggtcctgccaccagttattTcagtctgagcactgctggag	8	11	11	11	0	2	1	1	1	1	0	3	2	3	2	3	2	3	3	3	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:126372844T>C	uc003ifj.3	+	9	10673	c.10673T>C	c.(10672-10674)TTC>TCC	p.F3558S	FAT4_uc011cgp.1_Missense_Mutation_p.F1856S|FAT4_uc003ifi.1_Missense_Mutation_p.F1036S	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3558	Cadherin 34.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACCAGTTATTTCAGTCTGAGC	0.478													57	237					0	0	1	0	0		C	126372844	C	C	126372844	3	2	153	1	0	0	0	0	1	0	0	0	5706	1783	62	3	10707	3	FAT4	4	126372844	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	780754	126372844	64781432	437	82369											
FAT4	79633	broad.mit.edu	37	chr4	126389930	126389930	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcaccaccatgaagaaggtgTcagatggacattttcacact	13	10	8	10	0	3	3	3	1	0	2	3	4	3	4	2	2	0	0	2	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:126389930T>G	uc003ifj.3	+	11	12163	c.12163T>G	c.(12163-12165)TCA>GCA	p.S4055A	FAT4_uc011cgp.1_Missense_Mutation_p.S2318A|FAT4_uc003ifi.1_Missense_Mutation_p.S1533A	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4055	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAAGAAGGTGTCAGATGGACA	0.388													54	152					0	0	1	0	0		G	126389930	G	G	126389930	3	3	153	1	0	0	0	0	1	0	0	0	5706	1667	58	5	12205	5	FAT4	4	126389930	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	17086	126389930	64764346	438	82370											
PCDH10	57575	broad.mit.edu	37	chr4	134072704	134072704	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagccagccggtctacgacgTgtatgtgactgaaaacaacg	12	7	11	11	4	1	2	0	2	1	0	1	3	1	2	2	1	5	1	2	1	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:134072704T>C	uc003iha.2	+	1	2235	c.1409T>C	c.(1408-1410)GTG>GCG	p.V470A	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.V470A	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	470	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GTCTACGACGTGTATGTGACT	0.617													20	93					0	0	1	0	0		C	134072704	C	C	134072704	3	2	153	1	0	0	0	0	1	0	0	0	11526	1696	59	3	1411	3	PCDH10	4	134072704	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	7682774	134072704	57081572	439	82371											
ELMOD2	255520	broad.mit.edu	37	chr4	141446595	141446595	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaaaaaatgtttatttctTtgtgggagttcttctatggg	12	17	9	3	0	3	0	0	0	3	0	3	1	3	1	0	2	0	2	0	2	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:141446595T>G	uc003iik.2	+	2	105	c.13T>G	c.(13-15)TTG>GTG	p.L5V		NM_153702	NP_714913	Q8IZ81	ELMD2_HUMAN	ELMO/CED-12 domain containing 2	5					phagocytosis|regulation of defense response to virus|response to virus	cytoskeleton	GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)					GTTTATTTCTTTGTGGGAGTT	0.333													62	182					0	0	1	0	0		G	141446595	G	G	141446595	3	3	153	1	0	0	0	0	1	0	0	0	5077	1838	64	5	15	5	ELMOD2	4	141446595	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	7373891	141446595	49707681	440	82372											
INPP4B	8821	broad.mit.edu	37	chr4	143324116	143324116	+	Missense_Mutation	SNP	T	C	C	0	1	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	catgagacttatccttgacaTcatagactgttagttttatt	11	17	6	7	0	1	3	1	2	0	2	2	4	2	3	1	0	0	2	1	0	4	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:143324116T>C	uc003iix.3	-	8	942	c.347A>G	c.(346-348)GAT>GGT	p.D116G	INPP4B_uc003iiw.3_Missense_Mutation_p.D116G|INPP4B_uc011chm.1_RNA|INPP4B_uc011cho.1_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	116	C2.				signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					ATCCTTGACATCATAGACTGT	0.398													7	166					0	0	1	0	0		C	143324116	C	C	143324116	3	2	153	1	0	0	0	0	1	0	0	0	7769	1435	50	3	2507	3	INPP4B	4	143324116	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1877521	143324116	47830160	441	82373											
POU4F2	5458	broad.mit.edu	37	chr4	147561385	147561385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgtccacgccggctcacGcgccgcacatggccaccatg	6	6	12	17	5	1	0	1	0	0	0	2	0	2	0	5	3	0	2	5	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:147561385G>A	uc003ikv.2	+	2	903	c.655G>A	c.(655-657)GCG>ACG	p.A219T		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	219					estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					GCCGGCTCACGCGCCGCACAT	0.721													4	6					0	0	1	0	0		A	147561385	A	A	147561385	3	1	153	1	0	0	0	0	1	0	0	0	12298	1087	38	1	661	1	POU4F2	4	147561385	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4237269	147561385	43592891	442	82374											
LRBA	987	broad.mit.edu	37	chr4	151511917	151511917	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacagagtatcatcatcGccttccaggaggatctcgtt	10	11	10	10	2	3	2	2	1	1	1	6	5	4	4	2	2	0	2	2	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:151511917G>A	uc010ipj.2	-	40	6648	c.6174C>T	c.(6172-6174)GGC>GGT	p.G2058G	LRBA_uc003ilt.3_Silent_p.G706G|LRBA_uc003ilu.3_Silent_p.G2047G	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2058						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					TATCATCATCGCCTTCCAGGA	0.428													41	107					0	0	1	0	0		A	151511917	A	A	151511917	2	1	153	1	0	0	0	0	0	0	0	1	8949	1074	38	1		1	LRBA	4	151511917	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3950532	151511917	39642359	443	82375											
LRBA	987	broad.mit.edu	37	chr4	151749498	151749498	+	Missense_Mutation	SNP	A	G	G	1	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	gttttttgaaactgaaactgAcggtgtagccttagtgtcca	10	14	10	7	1	0	3	0	3	0	0	1	3	1	3	2	1	3	2	2	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:151749498A>G	uc010ipj.2	-	30	5479	c.5005T>C	c.(5005-5007)TCA>CCA	p.S1669P	LRBA_uc003ilt.3_Missense_Mutation_p.S328P|LRBA_uc003ilu.3_Missense_Mutation_p.S1669P	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1669						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					ACTGAAACTGACGGTGTAGCC	0.438													45	165					0	0	1	0	0		G	151749498	G	G	151749498	3	3	153	1	0	0	0	0	1	0	0	0	8949	275	10	3	3702	3	LRBA	4	151749498	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	237581	151749498	39404778	444	82376											
FBXW7	55294	broad.mit.edu	37	chr4	153249385	153249385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgaagatgcatacaacGcacagtggaagtatgcccat	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:153249385G>A	uc003ims.2	-	9	1542	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXW7_uc011cii.1_Missense_Mutation_p.R465C|FBXW7_uc003imt.2_Missense_Mutation_p.R465C|FBXW7_uc011cih.1_Missense_Mutation_p.R289C|FBXW7_uc003imq.2_Missense_Mutation_p.R385C|FBXW7_uc003imr.2_Missense_Mutation_p.R347C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGCATACAACGCACAGTGGAA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								66	294					0	0	1	0	0		A	153249385	A	A	153249385	3	1	153	1	0	0	0	0	1	0	0	0	5783	1087	38	1	746	1	FBXW7	4	153249385	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1499887	153249385	37904891	445	82377											
DCHS2	54798	broad.mit.edu	37	chr4	155163925	155163925	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtggcttggacaatcaagCtggtttggaaaaagaatcaa	14	10	11	6	0	2	1	2	0	0	1	2	3	2	3	0	4	1	3	0	4	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:155163925C>T	uc003inw.2	-	22	5577	c.5577_splice	c.e22-1	p.S1859_splice		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GACAATCAAGCTGGTTTGGAA	0.353													19	89					0	0	1	0	0		T	155163925	T	T	155163925	5	4	153	1	0	0	0	0	0	0	1	0	4291	811	28	2	3190	2	DCHS2	4	155163925	Splice_Site	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1914540	155163925	35990351	446	82378											
GRIA2	2891	broad.mit.edu	37	chr4	158284167	158284167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttataaggaaggttacaacGtatatggcatcgaaagtgtt	14	12	10	5	2	0	0	0	0	0	0	1	2	0	1	0	3	2	4	0	3	8	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:158284167G>A	uc003ipm.3	+	15	3082	c.2623G>A	c.(2623-2625)GTA>ATA	p.V875I	GRIA2_uc011cit.1_Missense_Mutation_p.V828I|GRIA2_uc003ipl.3_Missense_Mutation_p.V875I|GRIA2_uc003ipk.3_Missense_Mutation_p.V828I|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_3'UTR|GRIA2_uc011ciy.1_3'UTR|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	875	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AGGTTACAACGTATATGGCAT	0.403													62	207					0	0	1	0	0		A	158284167	A	A	158284167	3	1	153	1	0	0	0	0	1	0	0	0	6784	1145	40	1	2800	1	GRIA2	4	158284167	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3120242	158284167	32870109	447	82379											
FNIP2	57600	broad.mit.edu	37	chr4	159782803	159782803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgttaacctaccacctggCctgggtcccaactgtcatgc	7	10	10	14	0	1	0	1	0	0	0	2	0	2	0	5	3	4	1	5	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:159782803C>T	uc003iqe.3	+	12	1523	c.1340C>T	c.(1339-1341)GCC>GTC	p.A447V		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	447					DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TACCACCTGGCCTGGGTCCCA	0.488													48	129					0	0	1	0	0		T	159782803	T	T	159782803	3	4	153	1	0	0	0	0	1	0	0	0	5990	739	26	2	1386	2	FNIP2	4	159782803	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1498636	159782803	31371473	448	82380											
C4orf43	55319	broad.mit.edu	37	chr4	164428219	164428219	+	Missense_Mutation	SNP	A	G	G	1	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	gggaaaaagtgcaggacgggAaaaaaaagtcatccatccat	18	5	11	7	1	1	0	1	0	0	0	3	3	3	3	2	3	1	1	2	3	6	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:164428219A>G	uc003iqq.3	+	2	319	c.38A>G	c.(37-39)GAA>GGA	p.E13G		NM_018352	NP_060822	Q96EY4	CD043_HUMAN	hypothetical protein LOC55319	13											0						GCAGGACGGGAAAAAAAAGTC	0.363													4	6					0	0	1	0	0		G	164428219	G	G	164428219	3	3	153	1	0	0	0	0	1	0	0	0	2274	246	9	3	44	3	C4orf43	4	164428219	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	4645416	164428219	26726057	449	82381											
SPOCK3	50859	broad.mit.edu	37	chr4	167921509	167921509	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaatgtttacctgtgtgtaAgcctccggtgactaatgcag	10	12	10	9	1	0	1	0	1	0	0	1	1	1	1	3	1	3	3	3	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:167921509A>C	uc003iri.1	-	5	491	c.350T>G	c.(349-351)CTT>CGT	p.L117R	SPOCK3_uc011cjp.1_Missense_Mutation_p.L114R|SPOCK3_uc011cjq.1_Missense_Mutation_p.L126R|SPOCK3_uc011cjr.1_Intron|SPOCK3_uc003irj.1_Missense_Mutation_p.L114R|SPOCK3_uc011cjs.1_Missense_Mutation_p.L66R|SPOCK3_uc011cjt.1_Missense_Mutation_p.L25R|SPOCK3_uc011cju.1_Intron|SPOCK3_uc011cjv.1_Intron|SPOCK3_uc003irk.3_Missense_Mutation_p.L114R|SPOCK3_uc011cjw.1_RNA	NM_016950	NP_058646	Q9BQ16	TICN3_HUMAN	testican 3 isoform 2	117					signal transduction	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase inhibitor activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0181)|Renal(120;0.0184)|Melanoma(52;0.0198)		GBM - Glioblastoma multiforme(119;0.02)		CCTGTGTGTAAGCCTCCGGTG	0.413													8	179					0	0	1	0	0		C	167921509	C	C	167921509	3	2	153	1	0	0	0	0	1	0	0	0	15106	72	3	5	992	5	SPOCK3	4	167921509	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3493290	167921509	23232767	450	82382											
GLRA3	8001	broad.mit.edu	37	chr4	175580334	175580334	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatccaaatatcaatagcTttgacatatgaaacctagcc	15	10	5	11	0	1	2	1	2	0	0	2	2	2	2	4	0	3	1	4	0	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:175580334T>G	uc003ity.1	-	8	1445	c.942A>C	c.(940-942)AAA>AAC	p.K314N	GLRA3_uc003itz.1_Missense_Mutation_p.K314N	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	314					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	TATCAATAGCTTTGACATATG	0.353													29	88					0	0	1	0	0		G	175580334	G	G	175580334	3	3	153	1	0	0	0	0	1	0	0	0	6471	1606	56	5	464	5	GLRA3	4	175580334	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	7658825	175580334	15573942	451	82383											
RWDD4A	201965	broad.mit.edu	37	chr4	184577096	184577096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctccttcataaatagagcGtaatgcttctagttccatct	11	15	5	10	1	4	1	1	0	3	1	6	1	5	1	2	0	2	3	2	0	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:184577096G>A	uc003ivt.1	-	2	269	c.43C>T	c.(43-45)CGC>TGC	p.R15C	RWDD4A_uc003ivu.1_RNA|RWDD4A_uc003ivv.1_Intron|RWDD4A_uc011ckl.1_Intron	NM_152682	NP_689895	Q6NW29	RWDD4_HUMAN	RWD domain containing 4A	15	RWD.										0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;7.35e-27)|Epithelial(43;1.49e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.76e-10)|GBM - Glioblastoma multiforme(59;5.54e-06)|Colorectal(24;7.92e-06)|STAD - Stomach adenocarcinoma(60;2.35e-05)|COAD - Colon adenocarcinoma(29;6.26e-05)|LUSC - Lung squamous cell carcinoma(40;0.00935)|READ - Rectum adenocarcinoma(43;0.166)		TAAATAGAGCGTAATGCTTCT	0.343													44	158					0	0	1	0	0		A	184577096	A	A	184577096	3	1	153	1	0	0	0	0	1	0	0	0	13783	1145	40	1	547	1	RWDD4A	4	184577096	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8996762	184577096	6577180	452	82384											
FAM149A	25854	broad.mit.edu	37	chr4	187077204	187077204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagcccggtaggaaatggcGcaaactcggacttcctcctg	9	8	11	13	3	1	0	1	0	0	0	4	2	3	2	3	4	2	2	3	4	3	2	rs140463493	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:187077204G>A	uc003iyt.3	+	7	1013	c.434G>A	c.(433-435)CGC>CAC	p.R145H	FAM149A_uc011cla.1_Missense_Mutation_p.R145H|FAM149A_uc010isj.2_Missense_Mutation_p.R145H|FAM149A_uc010isk.2_RNA|FAM149A_uc003iyu.3_Missense_Mutation_p.R145H|FAM149A_uc010isl.2_Missense_Mutation_p.R145H|FAM149A_uc011clb.1_Missense_Mutation_p.R145H	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	436										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		AGGAAATGGCGCAAACTCGGA	0.438													25	62					0	0	1	0	0		A	187077204	A	A	187077204	3	1	153	1	0	0	0	0	1	0	0	0	5466	1087	38	1	448	1	FAM149A	4	187077204	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2500108	187077204	4077072	453	82385											
ZFP42	132625	broad.mit.edu	37	chr4	188924074	188924074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcaagccaagacctgcaggCggaaatagaacctgtcagcg	13	5	12	11	2	2	2	2	0	0	2	2	3	2	3	3	2	4	1	3	2	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr4:188924074C>T	uc003izg.1	+	3	358	c.113C>T	c.(112-114)GCG>GTG	p.A38V	ZFP42_uc003izh.1_Missense_Mutation_p.A38V|ZFP42_uc003izi.1_Missense_Mutation_p.A38V	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	38					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		GACCTGCAGGCGGAAATAGAA	0.572													17	72					0	0	1	0	0		T	188924074	T	T	188924074	3	4	153	1	0	0	0	0	1	0	0	0	17675	768	27	1	115	1	ZFP42	4	188924074	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1846870	188924074	2230202	454	82386											
IRX1	79192	broad.mit.edu	37	chr5	3599722	3599722	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccggagaaggccgaggacgaCgaggagatcgacctggaaag	13	2	17	9	5	0	2	0	0	0	2	1	10	0	4	3	5	0	0	3	5	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:3599722C>T	uc003jde.2	+	2	712	c.660C>T	c.(658-660)GAC>GAT	p.D220D		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	220						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CCGAGGACGACGAGGAGATCG	0.622													10	43					0	0	1	0	0		T	3599722	T	T	3599722	2	4	153	1	0	0	0	0	0	0	0	1	7859	535	19	1		1	IRX1	5	3599722	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08		3599722	177315538	455	82387											
SEMA5A	9037	broad.mit.edu	37	chr5	9044506	9044506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgatggcctccaccgagtcGtacttgtccagtttgttgat	6	15	10	10	2	0	2	0	2	0	0	3	3	2	2	4	1	1	3	4	1	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:9044506G>A	uc003jek.2	-	22	3796	c.3084C>T	c.(3082-3084)TAC>TAT	p.Y1028Y		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	1028	Cytoplasmic (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CCACCGAGTCGTACTTGTCCA	0.478													41	167					0	0	1	0	0		A	9044506	A	A	9044506	2	1	153	1	0	0	0	0	0	0	0	1	14062	1140	40	1		1	SEMA5A	5	9044506	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5444784	9044506	171870754	456	82388											
SEMA5A	9037	broad.mit.edu	37	chr5	9108327	9108327	+	Silent	SNP	T	G	G	0	1	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	atgccacccccgcattgggcTgtgcaccgttcccaaggacc	7	7	10	17	2	0	0	0	0	0	0	1	1	1	1	6	2	2	4	6	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:9108327T>G	uc003jek.2	-	16	2710	c.1998A>C	c.(1996-1998)ACA>ACC	p.T666T		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	666	TSP type-1 3.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CGCATTGGGCTGTGCACCGTT	0.537													8	48					0	0	1	0	0		G	9108327	G	G	9108327	2	3	153	1	0	0	0	0	0	0	0	1	14062	1567	55	5		5	SEMA5A	5	9108327	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	63821	9108327	171806933	457	82389											
CTNND2	1501	broad.mit.edu	37	chr5	11346489	11346489	+	Missense_Mutation	SNP	A	T	T	1	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	aaggtttttacccacctgggAtctttctgaatgctatcaat	10	15	7	9	0	3	1	1	1	2	0	3	2	3	2	2	2	2	2	2	2	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:11346489A>T	uc003jfa.1	-	9	1768	c.1623T>A	c.(1621-1623)GAT>GAA	p.D541E	CTNND2_uc010itt.2_Missense_Mutation_p.D450E|CTNND2_uc011cmy.1_Missense_Mutation_p.D204E|CTNND2_uc011cmz.1_Missense_Mutation_p.D108E|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.D108E	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	541	ARM 2.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						CCCACCTGGGATCTTTCTGAA	0.458													17	97					0	0	1	0	0		T	11346489	T	T	11346489	3	4	153	1	0	0	0	0	1	0	0	0	4023	330	12	5	2110	5	CTNND2	5	11346489	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2238162	11346489	169568771	458	82390											
MYO10	4651	broad.mit.edu	37	chr5	16694613	16694613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtggaggagcccccccCttttttgtggagccagcctt	5	10	12	14	1	0	0	0	0	0	0	0	3	0	3	6	3	4	0	6	3	0	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:16694613C>T	uc003jft.3	-	27	4135	c.3667G>A	c.(3667-3669)GGG>AGG	p.G1223R	MYO10_uc011cnc.1_Missense_Mutation_p.G102R|MYO10_uc011cnd.1_Missense_Mutation_p.G580R|MYO10_uc011cne.1_Missense_Mutation_p.G580R|MYO10_uc010itx.2_Missense_Mutation_p.G846R	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1223	PH 1.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						GAGCCCCCCCCTTTTTTGTGG	0.557													24	75					0	0	1	0	0		T	16694613	T	T	16694613	3	4	153	1	0	0	0	0	1	0	0	0	10080	681	24	4	2569	4	MYO10	5	16694613	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5348124	16694613	164220647	459	82391											
CDH18	1016	broad.mit.edu	37	chr5	19838877	19838877	+	Silent	SNP	A	G	G	1	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	caaaatcttacctttccaacAtactgaggatctggtcccat	12	12	5	12	0	2	1	0	1	2	0	4	2	4	2	3	2	3	0	3	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:19838877A>G	uc003jgc.2	-	2	596	c.219T>C	c.(217-219)TAT>TAC	p.Y73Y	CDH18_uc003jgd.2_Silent_p.Y73Y|CDH18_uc011cnm.1_Silent_p.Y73Y	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	73	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CCTTTCCAACATACTGAGGAT	0.383													22	72					0	0	1	0	0		G	19838877	G	G	19838877	2	3	153	1	0	0	0	0	0	0	0	1	3106	224	8	3		3	CDH18	5	19838877	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3144264	19838877	161076383	460	82392											
RNASEN	29102	broad.mit.edu	37	chr5	31449476	31449476	+	Silent	SNP	A	G	G	1	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	gataatgaattcctggcatgAtcaggattcattccaaaatt	14	13	7	7	0	2	2	2	2	0	0	4	4	4	3	2	2	0	1	2	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:31449476A>G	uc003jhg.2	-	21	3092	c.2733T>C	c.(2731-2733)GAT>GAC	p.D911D	RNASEN_uc003jhh.2_Silent_p.D874D|RNASEN_uc003jhi.2_Silent_p.D874D	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	911	Necessary for interaction with DGCR8 and pri-miRNA processing activity.|RNase III 1.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						TCCTGGCATGATCAGGATTCA	0.363													8	27					0	0	1	0	0		G	31449476	G	G	31449476	2	3	153	1	0	0	0	0	0	0	0	1	13442	330	12	3		3	RNASEN	5	31449476	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	11610599	31449476	149465784	461	82393											
PDZD2	23037	broad.mit.edu	37	chr5	32090071	32090071	+	Missense_Mutation	SNP	T	C	C	0	1	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	aactggcgtcctcctcctccTcccttcaaacagccattaga	9	10	5	17	1	1	1	1	0	0	1	6	1	6	1	6	1	3	0	6	1	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:32090071T>C	uc003jhl.2	+	20	6905	c.6517T>C	c.(6517-6519)TCC>CCC	p.S2173P	PDZD2_uc003jhm.2_Missense_Mutation_p.S2173P	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2173	Ser-rich.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CTCCTCCTCCTCCCTTCAAAC	0.542													51	138					0	0	1	0	0		C	32090071	C	C	32090071	3	2	153	1	0	0	0	0	1	0	0	0	11720	1551	54	3	6591	3	PDZD2	5	32090071	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	640595	32090071	148825189	462	82394											
NPR3	4883	broad.mit.edu	37	chr5	32712294	32712294	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggggccagtgtgcgagTatgcagcagcgccagtggcc	6	7	16	12	2	0	0	0	0	0	0	1	1	1	0	4	3	4	3	4	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:32712294T>C	uc003jhv.2	+	1	630	c.412T>C	c.(412-414)TAT>CAT	p.Y138H	NPR3_uc010iuo.2_Intron|NPR3_uc011cnz.1_Intron|NPR3_uc003jhu.2_Missense_Mutation_p.Y138H	NM_000908	NP_000899	P17342	ANPRC_HUMAN	natriuretic peptide receptor C/guanylate cyclase	138	Extracellular (Potential).				osteoclast proliferation|positive regulation of urine volume|regulation of blood pressure|regulation of osteoblast proliferation|skeletal system development	integral to membrane	hormone binding|natriuretic peptide receptor activity			ovary(1)|central_nervous_system(1)	2					Nesiritide(DB04899)	AGTGTGCGAGTATGCAGCAGC	0.672													16	68					0	0	1	0	0		C	32712294	C	C	32712294	3	2	153	1	0	0	0	0	1	0	0	0	10615	1638	57	3	414	3	NPR3	5	32712294	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	622223	32712294	148202966	463	82395											
RAI14	26064	broad.mit.edu	37	chr5	34823324	34823324	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaacagctacaggtcgaactCcaatcccgaagggcagaact	15	5	9	12	2	0	1	0	0	0	1	3	3	2	1	2	2	5	2	2	2	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:34823324C>T	uc003jir.2	+	15	1573	c.1377C>T	c.(1375-1377)CTC>CTT	p.L459L	RAI14_uc010iur.2_Silent_p.L430L|RAI14_uc011coj.1_Silent_p.L459L|RAI14_uc003jis.2_Silent_p.L462L|RAI14_uc003jit.2_Silent_p.L459L|RAI14_uc011cok.1_Silent_p.L451L	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	459	Potential.					cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					AGGTCGAACTCCAATCCCGAA	0.428													24	84					0	0	1	0	0		T	34823324	T	T	34823324	2	4	153	1	0	0	0	0	0	0	0	1	13033	842	30	4		4	RAI14	5	34823324	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2111030	34823324	146091936	464	82396											
SPEF2	79925	broad.mit.edu	37	chr5	35691158	35691158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaacatggttggagagtgggCcttaccagaagaaatggttg	12	9	15	5	0	0	3	0	0	0	3	0	5	0	3	2	4	2	2	2	4	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:35691158C>T	uc003jjo.2	+	11	1655	c.1544C>T	c.(1543-1545)GCC>GTC	p.A515V	SPEF2_uc003jjq.3_Missense_Mutation_p.A515V|SPEF2_uc003jjp.1_Missense_Mutation_p.A6V	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	515					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGAGAGTGGGCCTTACCAGAA	0.363													26	107					0	0	1	0	0		T	35691158	T	T	35691158	3	4	153	1	0	0	0	0	1	0	0	0	15060	739	26	2	1607	2	SPEF2	5	35691158	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	867834	35691158	145224102	465	82397											
NIPBL	25836	broad.mit.edu	37	chr5	37017251	37017251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatcaaggatctatagaacGcattttaaaacaggtactaa	17	10	8	6	1	2	1	1	0	1	1	2	3	2	3	0	3	3	2	0	3	8	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:37017251G>A	uc003jkl.3	+	24	5406	c.4907G>A	c.(4906-4908)CGC>CAC	p.R1636H	NIPBL_uc003jkk.3_Missense_Mutation_p.R1636H	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1636					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TCTATAGAACGCATTTTAAAA	0.328													8	67					0	0	1	0	0		A	37017251	A	A	37017251	3	1	153	1	0	0	0	0	1	0	0	0	10447	1087	38	1	4997	1	NIPBL	5	37017251	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1326093	37017251	143898009	466	82398											
GDNF	2668	broad.mit.edu	37	chr5	37815784	37815784	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaccttttagcggaatgcTttcttagaatatggtaaacc	12	13	7	9	1	1	1	0	0	1	1	1	2	1	2	2	2	3	2	2	2	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:37815784T>G	uc011cpi.1	-	3	805	c.605A>C	c.(604-606)AAG>ACG	p.K202T	GDNF_uc011cpc.1_Missense_Mutation_p.K124T|GDNF_uc011cpd.1_Missense_Mutation_p.K150T|GDNF_uc011cpe.1_Missense_Mutation_p.K176T|GDNF_uc011cpf.1_Missense_Mutation_p.K176T|GDNF_uc011cpg.1_Missense_Mutation_p.K219T|GDNF_uc011cph.1_Missense_Mutation_p.K193T	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1	202					adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					AGCGGAATGCTTTCTTAGAAT	0.473													27	129					0	0	1	0	0		G	37815784	G	G	37815784	3	3	153	1	0	0	0	0	1	0	0	0	6337	1609	56	5	33	5	GDNF	5	37815784	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	798533	37815784	143099476	467	82399											
RICTOR	253260	broad.mit.edu	37	chr5	38947433	38947433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catctgaacccccatatgtgGcactggacaccatggaccgc	10	7	9	15	1	1	1	0	1	1	0	1	3	1	3	4	3	1	1	4	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:38947433G>A	uc003jlp.2	-	32	4271	c.4247C>T	c.(4246-4248)GCC>GTC	p.A1416V	RICTOR_uc003jlo.2_Missense_Mutation_p.A1440V|RICTOR_uc010ivf.2_Missense_Mutation_p.A1131V	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1416					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					CCCATATGTGGCACTGGACAC	0.383													46	159					0	0	1	0	0		A	38947433	A	A	38947433	3	1	153	1	0	0	0	0	1	0	0	0	13383	1203	42	2	907	2	RICTOR	5	38947433	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1131649	38947433	141967827	468	82400											
CARD6	84674	broad.mit.edu	37	chr5	40852450	40852450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttcaagcacgagatgtgaCcgctagggattcaatcctca	12	9	10	10	2	3	2	3	1	0	1	4	4	4	3	2	1	1	3	2	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:40852450C>T	uc003jmg.2	+	3	1091	c.1016C>T	c.(1015-1017)ACG>ATG	p.T339M		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	339					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						CGAGATGTGACCGCTAGGGAT	0.458													19	47					0	0	1	0	0		T	40852450	T	T	40852450	3	4	153	1	0	0	0	0	1	0	0	0	2653	507	18	4	1026	4	CARD6	5	40852450	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1905017	40852450	140062810	469	82401											
OXCT1	5019	broad.mit.edu	37	chr5	41862805	41862805	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttctactggatctgtataAaacttggtatggcgatgagc	10	13	11	7	1	2	1	0	1	2	0	2	3	2	2	0	3	3	3	0	3	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:41862805A>G	uc003jmn.2	-	2	457	c.126T>C	c.(124-126)TTT>TTC	p.F42F		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	42					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	GATCTGTATAAAACTTGGTAT	0.373													24	86					0	0	1	0	0		G	41862805	G	G	41862805	2	3	153	1	0	0	0	0	0	0	0	1	11348	11	1	3		3	OXCT1	5	41862805	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1010355	41862805	139052455	470	82402											
ZNF131	7690	broad.mit.edu	37	chr5	43161497	43161497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaaattgaggtagagattgCcgaaggcaccattgaagtgg	13	9	14	5	1	0	4	0	3	0	1	0	6	0	4	2	3	1	2	2	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:43161497C>T	uc011cpw.1	+	5	554	c.518C>T	c.(517-519)GCC>GTC	p.A173V	ZNF131_uc010ivl.1_Missense_Mutation_p.A173V|ZNF131_uc003jnj.3_5'UTR|ZNF131_uc003jnk.2_Missense_Mutation_p.A173V|ZNF131_uc003jnn.3_5'UTR|ZNF131_uc003jnl.1_Intron|ZNF131_uc010ivm.1_Intron	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	173						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTAGAGATTGCCGAAGGCACC	0.433													26	119					0	0	1	0	0		T	43161497	T	T	43161497	3	4	153	1	0	0	0	0	1	0	0	0	17746	739	26	2	532	2	ZNF131	5	43161497	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1298692	43161497	137753763	471	82403											
ITGA1	3672	broad.mit.edu	37	chr5	52177731	52177731	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgtacagtatggagaaaaCgtgacccatgagttcaacct	14	10	9	8	1	1	3	1	2	0	1	1	4	1	3	2	1	3	3	2	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:52177731C>T	uc003jou.2	+	7	703	c.651C>T	c.(649-651)AAC>AAT	p.N217N	ITGA1_uc003jov.2_RNA	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	217	Extracellular (Potential).|VWFA.				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				ATGGAGAAAACGTGACCCATG	0.428													17	108					0	0	1	0	0		T	52177731	T	T	52177731	2	4	153	1	0	0	0	0	0	0	0	1	7888	535	19	1		1	ITGA1	5	52177731	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9016234	52177731	128737529	472	82404											
MCCC2	64087	broad.mit.edu	37	chr5	70942086	70942086	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaaatattcctctgctgTtccttcaaaacattactggt	13	14	5	9	0	2	1	1	0	1	1	4	1	4	1	2	1	3	2	2	1	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:70942086T>C	uc003kbs.3	+	13	1336	c.1198T>C	c.(1198-1200)TTC>CTC	p.F400L	MCCC2_uc003kbt.3_RNA	NM_022132	NP_071415	Q9HCC0	MCCB_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)	400	Carboxyltransferase.				leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)	1		Lung NSC(167;0.000697)|Prostate(74;0.0107)|Ovarian(174;0.0175)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.04e-54)	Biotin(DB00121)	TCCTCTGCTGTTCCTTCAAAA	0.289													23	82					0	0	1	0	0		C	70942086	C	C	70942086	3	2	153	1	0	0	0	0	1	0	0	0	9393	1725	60	3	1248	3	MCCC2	5	70942086	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	18764355	70942086	109973174	473	82405											
MRPS27	23107	broad.mit.edu	37	chr5	71533950	71533950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagcagttggggctgtgtCgaaacctaaataagcacaag	14	7	11	9	1	0	0	0	0	0	0	1	1	0	0	2	2	3	4	2	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:71533950C>T	uc003kbz.3	-	5	323	c.287G>A	c.(286-288)CGA>CAA	p.R96Q	MRPS27_uc003kca.3_Missense_Mutation_p.R40Q|MRPS27_uc011cse.1_Missense_Mutation_p.R110Q|MRPS27_uc010iza.2_Missense_Mutation_p.R40Q|MRPS27_uc010iyz.1_RNA	NM_015084	NP_055899	Q92552	RT27_HUMAN	mitochondrial ribosomal protein S27	96						mitochondrion|ribosome					0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-53)		GGGGCTGTGTCGAAACCTAAA	0.408													39	78					0	0	1	0	0		T	71533950	T	T	71533950	3	4	153	1	0	0	0	0	1	0	0	0	9856	884	31	1	985	1	MRPS27	5	71533950	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	591864	71533950	109381310	474	82406											
ZNF366	167465	broad.mit.edu	37	chr5	71739855	71739855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcctccagcacctcgggggCgtgctccgacttggtggaca	5	9	13	14	3	0	0	0	0	0	0	4	2	3	1	4	4	2	2	4	4	0	2	rs112462947	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:71739855C>T	uc003kce.1	-	5	2149	c.1963G>A	c.(1963-1965)GCC>ACC	p.A655T		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	655					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		ACCTCGGGGGCGTGCTCCGAC	0.642													62	228					0	0	1	0	0		T	71739855	T	T	71739855	3	4	153	1	0	0	0	0	1	0	0	0	17895	768	27	1	275	1	ZNF366	5	71739855	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	205905	71739855	109175405	475	82407											
VCAN	1462	broad.mit.edu	37	chr5	82815203	82815203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcgatttgagtatcctcGcagaaactgcatcacccagt	11	10	7	13	2	1	2	1	1	0	1	4	3	2	2	3	0	2	3	3	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:82815203G>A	uc003kii.3	+	7	1434	c.1078G>A	c.(1078-1080)GCA>ACA	p.A360T	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.A360T|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	360	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GAGTATCCTCGCAGAAACTGC	0.368													65	189					0	0	1	0	0		A	82815203	A	A	82815203	3	1	153	1	0	0	0	0	1	0	0	0	17164	1087	38	1	1100	1	VCAN	5	82815203	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	11075348	82815203	98100057	476	82408											
COX7C	1350	broad.mit.edu	37	chr5	85913901	85913901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccagagcatccggaggttcaCaacctctgtggtccgtagga	9	8	12	12	2	2	1	1	0	1	1	4	3	4	3	4	4	2	3	4	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:85913901C>T	uc003kir.2	+	1	118	c.29C>T	c.(28-30)ACA>ATA	p.T10I		NM_001867	NP_001858	P15954	COX7C_HUMAN	cytochrome c oxidase subunit VIIc precursor	10					respiratory electron transport chain	integral to membrane|mitochondrial inner membrane	cytochrome-c oxidase activity				0		all_cancers(142;7e-06)|Lung NSC(167;0.000601)|all_lung(232;0.000693)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;1.56e-40)|Epithelial(54;3.17e-34)|all cancers(79;3.36e-29)		CGGAGGTTCACAACCTCTGTG	0.597													7	23					0	0	1	0	0		T	85913901	T	T	85913901	3	4	153	1	0	0	0	0	1	0	0	0	3787	478	17	4	31	4	COX7C	5	85913901	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3098698	85913901	95001359	477	82409											
PCSK1	5122	broad.mit.edu	37	chr5	95748029	95748029	+	Missense_Mutation	SNP	A	G	G	1	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	taaagcatcttacctgtttgAcaccatattcaaaagccttc	13	13	4	11	0	2	1	1	1	1	0	3	1	2	1	3	0	3	2	3	0	6	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:95748029A>G	uc003kls.1	-	7	1081	c.875T>C	c.(874-876)GTC>GCC	p.V292A	PCSK1_uc010jbi.1_Missense_Mutation_p.V53A	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	292	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TACCTGTTTGACACCATATTC	0.463													23	91					0	0	1	0	0		G	95748029	G	G	95748029	3	3	153	1	0	0	0	0	1	0	0	0	11619	275	10	3	1418	3	PCSK1	5	95748029	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	9834128	95748029	85167231	478	82410											
LNPEP	4012	broad.mit.edu	37	chr5	96363452	96363452	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaggttccctctggggtcCtataccatacaaaatattgt	10	14	7	10	0	2	0	1	0	1	0	4	0	4	0	3	3	2	1	3	3	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:96363452C>A	uc003kmv.1	+	17	3394	c.2880C>A	c.(2878-2880)TCC>TCA	p.S960S	LNPEP_uc003kmw.1_Silent_p.S946S	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	960	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		CTCTGGGGTCCTATACCATAC	0.383													22	120					1.64293e-13	1.74095e-13	1	1	0		A	96363452	A	A	96363452	2	1	153	1	0	0	0	0	0	0	0	1	8881	668	24	5		5	LNPEP	5	96363452	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	615423	96363452	84551808	479	82411											
ST8SIA4	7903	broad.mit.edu	37	chr5	100222206	100222206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagaaatgtttagtgtccggCgcctgtcaagcacatagtgt	10	11	12	8	2	1	1	1	0	0	1	2	2	2	1	2	1	1	2	2	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:100222206C>T	uc003knk.2	-	3	672	c.344G>A	c.(343-345)CGC>CAC	p.R115H	ST8SIA4_uc003knl.2_Missense_Mutation_p.R115H	NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	115	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TAGTGTCCGGCGCCTGTCAAG	0.433													34	136					0	0	1	0	0		T	100222206	T	T	100222206	3	4	153	1	0	0	0	0	1	0	0	0	15259	768	27	1	751	1	ST8SIA4	5	100222206	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3858754	100222206	80693054	480	82412											
GIN1	54826	broad.mit.edu	37	chr5	102444277	102444277	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaacattaattttacctttGaagacaaatttttttgctgc	12	18	5	6	0	0	3	0	2	0	1	0	3	0	3	1	0	4	1	1	0	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:102444277G>A	uc003koa.1	-	2	217	c.135C>T	c.(133-135)TTC>TTT	p.F45F	GIN1_uc003kob.1_5'UTR|GIN1_uc003koc.1_Silent_p.F45F	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	45					DNA integration		DNA binding			ovary(1)|skin(1)	2		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)		TTTTACCTTTGAAGACAAATT	0.338													25	96					0	0	1	0	0		A	102444277	A	A	102444277	2	1	153	1	0	0	0	0	0	0	0	1	6401	1281	45	4		4	GIN1	5	102444277	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2222071	102444277	78470983	481	82413											
FER	2241	broad.mit.edu	37	chr5	108380463	108380463	+	Missense_Mutation	SNP	A	G	G	1	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	atgtaaagaagatcttcctcAggaattgaaaataaaatttt	18	13	6	4	0	2	3	1	1	1	2	3	4	3	4	1	1	0	1	1	1	8	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:108380463A>G	uc003kop.1	+	15	2180	c.1796A>G	c.(1795-1797)CAG>CGG	p.Q599R	FER_uc011cvg.1_Missense_Mutation_p.Q424R	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	599	Protein kinase.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		GATCTTCCTCAGGAATTGAAA	0.224													39	181					0	0	1	0	0		G	108380463	G	G	108380463	3	3	153	1	0	0	0	0	1	0	0	0	5827	188	7	3	1846	3	FER	5	108380463	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	5936186	108380463	72534797	482	82414											
PJA2	9867	broad.mit.edu	37	chr5	108672997	108672997	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaggctcagaggaaggagCtgcagatgcttcaataaccg	13	7	12	9	1	3	2	3	0	0	2	3	4	3	4	1	3	4	4	1	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:108672997C>A	uc003kos.3	-	10	2282	c.2062G>T	c.(2062-2064)GCT>TCT	p.A688S		NM_014819	NP_055634	O43164	PJA2_HUMAN	praja 2, RING-H2 motif containing	688	Interaction with PRKAR1A, PRKAR2A and PRKAR2B.				long-term memory|regulation of protein kinase A signaling cascade	cell junction|endoplasmic reticulum membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	ligase activity|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)		GAGGAAGGAGCTGCAGATGCT	0.473													23	65					6.32553e-13	6.6888e-13	1	1	0		A	108672997	A	A	108672997	3	1	153	1	0	0	0	0	1	0	0	0	11981	797	28	5	68	5	PJA2	5	108672997	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	292534	108672997	72242263	483	82415											
DCP2	167227	broad.mit.edu	37	chr5	112328441	112328441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaagtaaataaagaagaaGctcctcatgattgtgctgct	16	10	9	6	0	1	3	1	1	0	2	2	4	2	3	1	0	3	4	1	0	8	3	rs149992344	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:112328441G>A	uc003kqh.2	+	4	604	c.406G>A	c.(406-408)GCT>ACT	p.A136T	DCP2_uc011cwa.1_5'UTR|DCP2_uc010jcc.2_Missense_Mutation_p.A42T	NM_152624	NP_689837	Q8IU60	DCP2_HUMAN	DCP2 decapping enzyme	136	Nudix box.|Nudix hydrolase.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus|RNA-induced silencing complex	exoribonuclease activity, producing 5'-phosphomonoesters|manganese ion binding|protein binding|protein binding|RNA binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		OV - Ovarian serous cystadenocarcinoma(64;6.98e-08)|Epithelial(69;7.87e-08)|all cancers(49;1.06e-05)|COAD - Colon adenocarcinoma(37;0.0123)|Colorectal(14;0.0171)		TAAAGAAGAAGCTCCTCATGA	0.358													19	92					0	0	1	0	0		A	112328441	A	A	112328441	3	1	153	1	0	0	0	0	1	0	0	0	4303	971	34	2	420	2	DCP2	5	112328441	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3655444	112328441	68586819	484	82416											
SEMA6A	57556	broad.mit.edu	37	chr5	115840539	115840539	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtgagaccatgggtacttAcagttgccatgcgaaatact	12	10	11	8	1	0	1	0	1	0	1	0	4	0	1	2	1	5	2	2	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:115840539A>G	uc010jck.2	-	2	809	c.100_splice	c.e2+1	p.Y34_splice	SEMA6A_uc003krx.3_Splice_Site_p.Y34_splice	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and						apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		ATGGGTACTTACAGTTGCCAT	0.423													5	14					0	0	1	0	0		G	115840539	G	G	115840539	5	3	153	1	0	0	0	0	0	0	1	0	14064	405	14	3	3062	3	SEMA6A	5	115840539	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3512098	115840539	65074721	485	82417											
HSD17B4	3295	broad.mit.edu	37	chr5	118844941	118844941	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacatcagacaaagtcaaggTaagccatgactttgtaagca	16	8	9	8	0	2	2	2	1	0	1	2	3	2	2	1	1	2	3	1	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:118844941T>C	uc003ksj.2	+	16	1560	c.1437_splice	c.e16+2	p.K479_splice	HSD17B4_uc011cwg.1_Splice_Site_p.K455_splice|HSD17B4_uc011cwh.1_Splice_Site_p.K461_splice|HSD17B4_uc011cwi.1_Splice_Site_p.K504_splice|HSD17B4_uc003ksk.3_Splice_Site_p.K332_splice|HSD17B4_uc011cwj.1_Splice_Site_p.K332_splice|HSD17B4_uc010jcn.1_Splice_Site_p.K217_splice	NM_000414	NP_000405	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4						bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)	AAAGTCAAGGTAAGCCATGAC	0.294													7	191					0	0	1	0	0		C	118844941	C	C	118844941	5	2	153	1	0	0	0	0	0	0	1	0	7402	1652	57	3	1501	3	HSD17B4	5	118844941	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3004402	118844941	62070319	486	82418											
SNCAIP	9627	broad.mit.edu	37	chr5	121780285	121780285	+	Missense_Mutation	SNP	A	G	G	1	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	ttgaatatggagcaaatgtcAccatgcagaaccacgctggg	13	8	11	9	1	1	2	1	1	0	1	1	3	1	3	2	2	3	3	2	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:121780285A>G	uc003ksw.1	+	8	1656	c.1450A>G	c.(1450-1452)ACC>GCC	p.T484A	SNCAIP_uc011cwl.1_Missense_Mutation_p.T42A|SNCAIP_uc003ksx.1_Missense_Mutation_p.T531A|SNCAIP_uc003ksy.1_Missense_Mutation_p.T118A|SNCAIP_uc003ksz.1_Missense_Mutation_p.T118A|SNCAIP_uc010jcu.2_Missense_Mutation_p.T80A|SNCAIP_uc011cwm.1_Missense_Mutation_p.T118A|SNCAIP_uc003kta.1_Missense_Mutation_p.T116A|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.T178A|SNCAIP_uc010jcx.1_Missense_Mutation_p.T424A|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_5'UTR	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	484	ANK 4.				cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		AGCAAATGTCACCATGCAGAA	0.507													30	135					0	0	1	0	0		G	121780285	G	G	121780285	3	3	153	1	0	0	0	0	1	0	0	0	14866	159	6	3	1476	3	SNCAIP	5	121780285	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2935344	121780285	59134975	487	82419											
MEGF10	84466	broad.mit.edu	37	chr5	126769111	126769111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggggccccaactgctccctgCcctgctactgtaaaaatggg	8	8	11	14	0	0	0	0	0	0	0	1	0	1	0	4	3	5	3	4	3	5	2	rs148212621		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:126769111C>T	uc003kuh.3	+	15	2112	c.1750C>T	c.(1750-1752)CCC>TCC	p.P584S	MEGF10_uc003kui.3_Missense_Mutation_p.P584S	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	584	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.|EGF-like 11.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		CTGCTCCCTGCCCTGCTACTG	0.577													30	105					0	0	1	0	0		T	126769111	T	T	126769111	3	4	153	1	0	0	0	0	1	0	0	0	9478	739	26	2	1800	2	MEGF10	5	126769111	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4988826	126769111	54146149	488	82420											
CHSY3	337876	broad.mit.edu	37	chr5	129243787	129243787	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggtgataaattagaagagTttcttagatcgctaaacagc	15	12	9	5	1	1	4	0	1	1	3	2	4	1	4	0	1	2	2	0	1	8	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:129243787T>C	uc003kvd.2	+	2	820	c.820T>C	c.(820-822)TTT>CTT	p.F274L		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	274	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		ATTAGAAGAGTTTCTTAGATC	0.413													19	52					0	0	1	0	0		C	129243787	C	C	129243787	3	2	153	1	0	0	0	0	1	0	0	0	3416	1725	60	3	826	3	CHSY3	5	129243787	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2474676	129243787	51671473	489	82421											
RAPGEF6	51735	broad.mit.edu	37	chr5	130840422	130840422	+	Missense_Mutation	SNP	T	C	C	0	1	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	caactttatgggtattttttTccacatggtttaaaattctc	10	19	5	7	0	1	0	0	0	1	0	3	0	2	0	1	2	1	2	1	2	5	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:130840422T>C	uc003kvn.1	-	11	1357	c.1151A>G	c.(1150-1152)GAA>GGA	p.E384G	RAPGEF6_uc003kvp.1_Missense_Mutation_p.E434G|RAPGEF6_uc003kvo.1_Missense_Mutation_p.E384G|RAPGEF6_uc010jdi.1_Missense_Mutation_p.E384G|RAPGEF6_uc010jdj.1_Missense_Mutation_p.E384G|RAPGEF6_uc003kvq.2_Missense_Mutation_p.E101G|RAPGEF6_uc003kvr.2_Missense_Mutation_p.E384G|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.E384G	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	384	cNMP.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		GGTATTTTTTTCCACATGGTT	0.398													35	112					0	0	1	0	0		C	130840422	C	C	130840422	3	2	153	1	0	0	0	0	1	0	0	0	13073	1783	62	3	4212	3	RAPGEF6	5	130840422	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1596635	130840422	50074838	490	82422											
CDKL3	51265	broad.mit.edu	37	chr5	133695646	133695646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagaggtattttctaagtCgcttactctctagtccatga	10	14	9	8	1	2	2	0	1	2	1	5	3	3	3	1	2	1	2	1	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:133695646C>T	uc003kzf.3	-	3	421	c.302G>A	c.(301-303)CGA>CAA	p.R101Q	CDKL3_uc011cxm.1_Intron|CDKL3_uc011cxn.1_Intron|CDKL3_uc010jdw.2_Intron|CDKL3_uc011cxo.1_Intron|CDKL3_uc011cxp.1_Intron|CDKL3_uc011cxq.1_5'UTR|CDKL3_uc003kzg.3_Missense_Mutation_p.R101Q|CDKL3_uc011cxr.1_Missense_Mutation_p.R101Q	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1	101	Protein kinase.					cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTTTCTAAGTCGCTTACTCTC	0.323													3	16					0	0	1	0	0		T	133695646	T	T	133695646	3	4	153	1	0	0	0	0	1	0	0	0	3158	884	31	1	1524	1	CDKL3	5	133695646	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2855224	133695646	47219614	491	82423											
SPOCK1	6695	broad.mit.edu	37	chr5	136834163	136834163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttggggcccgcgcctcCggcgagcgcgtccaggtgcc	2	6	18	15	6	0	0	0	0	0	0	2	1	2	0	5	5	2	1	5	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:136834163C>T	uc003lbo.2	-	1	276	c.85G>A	c.(85-87)GGA>AGA	p.G29R	SPOCK1_uc003lbp.2_Missense_Mutation_p.G29R	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	29					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCCGCGCCTCCGGCGAGCGCG	0.687													8	8					0	0	1	0	0		T	136834163	T	T	136834163	3	4	153	1	0	0	0	0	1	0	0	0	15104	661	23	1	1274	1	SPOCK1	5	136834163	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3138517	136834163	44081097	492	82424											
FAM53C	51307	broad.mit.edu	37	chr5	137682483	137682483	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atggcctgtagccccccaccCctctctgcttcctgcagccc	4	9	7	21	0	1	0	0	0	1	0	3	0	2	0	8	1	4	3	8	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:137682483C>A	uc003lcv.2	+	5	1484	c.1014C>A	c.(1012-1014)CCC>CCA	p.P338P	FAM53C_uc003lcw.2_Silent_p.P338P|FAM53C_uc011cyq.1_RNA|FAM53C_uc011cyr.1_3'UTR	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	338										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GCCCCCCACCCCTCTCTGCTT	0.612													21	61					6.44725e-10	6.76052e-10	1	1	0		A	137682483	A	A	137682483	2	1	153	1	0	0	0	0	0	0	0	1	5595	610	22	5		5	FAM53C	5	137682483	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	848320	137682483	43232777	493	82425											
MATR3	9782	broad.mit.edu	37	chr5	138643309	138643309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcattgaatcaacaaggaGctcatagtgcactgtcttct	11	13	7	10	0	5	1	3	1	2	0	5	2	5	2	0	1	3	2	0	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:138643309G>A	uc003ldu.2	+	5	632	c.205G>A	c.(205-207)GCT>ACT	p.A69T	MATR3_uc003lds.2_Missense_Mutation_p.A69T|MATR3_uc010jfb.2_Missense_Mutation_p.A69T|MATR3_uc003ldt.2_Intron|MATR3_uc003ldw.2_Missense_Mutation_p.A69T|MATR3_uc003ldx.2_Missense_Mutation_p.A69T|MATR3_uc010jfc.2_Missense_Mutation_p.A69T|MATR3_uc003ldy.2_Intron|MATR3_uc011czb.1_Intron|MATR3_uc003ldz.2_Missense_Mutation_p.A69T|MATR3_uc003lea.2_Missense_Mutation_p.A69T	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	69						nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TCAACAAGGAGCTCATAGTGC	0.413													61	155					0	0	1	0	0		A	138643309	A	A	138643309	3	1	153	1	0	0	0	0	1	0	0	0	9355	971	34	2	207	2	MATR3	5	138643309	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	960826	138643309	42271951	494	82426											
NRG2	9542	broad.mit.edu	37	chr5	139235336	139235336	+	Missense_Mutation	SNP	A	G	G	1	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	agatgcccgtgatggtcaggAccctcttctggtacagctcc	7	10	11	13	1	3	2	1	1	2	1	4	3	4	3	3	3	3	2	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:139235336A>G	uc003lex.1	-	6	1442	c.1217T>C	c.(1216-1218)GTC>GCC	p.V406A	NRG2_uc003lev.1_Missense_Mutation_p.V414A|NRG2_uc003lew.1_Missense_Mutation_p.V408A|NRG2_uc003ley.1_Missense_Mutation_p.V400A	NM_004883	NP_004874	O14511	NRG2_HUMAN	neuregulin 2 isoform 1	406	Helical; Note=Internal signal sequence; (Potential).				embryo development	extracellular region|integral to membrane|plasma membrane	growth factor activity			pancreas(2)|breast(2)|ovary(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATGGTCAGGACCCTCTTCTG	0.597													23	107					0	0	1	0	0		G	139235336	G	G	139235336	3	3	153	1	0	0	0	0	1	0	0	0	10667	275	10	3	1355	3	NRG2	5	139235336	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	592027	139235336	41679924	495	82427											
PCDHA1	56147	broad.mit.edu	37	chr5	140167303	140167303	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggctgccacatcttcacGgtgtctgcgcgggacgcgga	5	7	15	14	6	3	0	1	0	2	0	3	2	3	2	2	4	2	1	2	4	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140167303G>A	uc003lhb.2	+	1	1428	c.1428G>A	c.(1426-1428)ACG>ACA	p.T476T	PCDHA1_uc003lha.2_Silent_p.T476T|PCDHA1_uc003lgz.2_Silent_p.T476T	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	476	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACATCTTCACGGTGTCTGCGC	0.652													14	66					0	0	1	0	0		A	140167303	A	A	140167303	2	1	153	1	0	0	0	0	0	0	0	1	11538	1103	39	1		1	PCDHA1	5	140167303	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	931967	140167303	40747957	496	82428											
PCDHA1	56147	broad.mit.edu	37	chr5	140167617	140167617	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggtgcagtcagtgagctggTgccgcgattggtgggtgcgg	4	10	20	7	3	1	1	1	1	0	0	1	2	1	1	1	5	4	2	1	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140167617T>C	uc003lhb.2	+	1	1742	c.1742T>C	c.(1741-1743)GTG>GCG	p.V581A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.V581A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	581	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTGAGCTGGTGCCGCGATTG	0.652													15	73					0	0	1	0	0		C	140167617	C	C	140167617	3	2	153	1	0	0	0	0	1	0	0	0	11538	1696	59	3	1744	3	PCDHA1	5	140167617	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	314	140167617	40747643	497	82429											
PCDHA2	56146	broad.mit.edu	37	chr5	140175140	140175140	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctttgtctctcgtgctgggGaaatcgctggacagagagga	8	11	14	8	2	2	1	0	0	2	1	5	5	2	4	0	4	1	2	0	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140175140G>A	uc003lhd.2	+	1	697	c.591G>A	c.(589-591)GGG>GGA	p.G197G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.G197G|PCDHA2_uc011czy.1_Silent_p.G197G	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	197	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTGCTGGGGAAATCGCTGG	0.453													33	136					0	0	1	0	0		A	140175140	A	A	140175140	2	1	153	1	0	0	0	0	0	0	0	1	11543	1161	41	4		4	PCDHA2	5	140175140	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7523	140175140	40740120	498	82430											
PCDHA2	56146	broad.mit.edu	37	chr5	140175673	140175673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattgctctcatcacggtgtCggatcgcgactctggtacga	7	11	11	12	5	3	0	2	0	2	0	6	3	3	1	0	3	2	2	0	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140175673C>T	uc003lhd.2	+	1	1230	c.1124C>T	c.(1123-1125)TCG>TTG	p.S375L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.S375L|PCDHA2_uc011czy.1_Missense_Mutation_p.S375L	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	375	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCACGGTGTCGGATCGCGAC	0.517													29	105					0	0	1	0	0		T	140175673	T	T	140175673	3	4	153	1	0	0	0	0	1	0	0	0	11543	893	31	1	1126	1	PCDHA2	5	140175673	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	533	140175673	40739587	499	82431											
PCDHA4	56144	broad.mit.edu	37	chr5	140188759	140188759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcccgcgctgacggccacgGccactgtgctggtgtcactt	5	8	13	15	4	1	1	1	1	0	0	1	1	1	1	3	3	2	2	3	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140188759G>A	uc003lhi.2	+	1	2088	c.1987G>A	c.(1987-1989)GCC>ACC	p.A663T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.A663T|PCDHA4_uc011daa.1_Missense_Mutation_p.A663T	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	663	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGGCCACGGCCACTGTGCT	0.672													17	37					0	0	1	0	0		A	140188759	A	A	140188759	3	1	153	1	0	0	0	0	1	0	0	0	11545	1203	42	2	1989	2	PCDHA4	5	140188759	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	13086	140188759	40726501	500	82432											
PCDHA5	56143	broad.mit.edu	37	chr5	140203164	140203164	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtggaccctgattcgggcTacaacgcttggctttcgtat	7	12	11	11	3	0	1	0	1	0	0	2	2	0	2	1	3	2	4	1	3	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140203164T>C	uc003lhl.2	+	1	1804	c.1804T>C	c.(1804-1806)TAC>CAC	p.Y602H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.Y602H|PCDHA5_uc003lhj.1_Missense_Mutation_p.Y602H	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	602	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATTCGGGCTACAACGCTTG	0.672													20	55					0	0	1	0	0		C	140203164	C	C	140203164	3	2	153	1	0	0	0	0	1	0	0	0	11546	1522	53	3	1806	3	PCDHA5	5	140203164	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	14405	140203164	40712096	501	82433											
PCDHA6	56142	broad.mit.edu	37	chr5	140209139	140209139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgcggacgcgcaggagaacgCgctggtgtcctactcgctgg	6	6	16	13	7	0	1	0	0	0	1	2	3	1	2	1	4	2	3	1	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140209139C>T	uc003lho.2	+	1	1490	c.1463C>T	c.(1462-1464)GCG>GTG	p.A488V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.A488V|PCDHA6_uc011dab.1_Missense_Mutation_p.A488V	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	488	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGAGAACGCGCTGGTGTCC	0.662													14	58					0	0	1	0	0		T	140209139	T	T	140209139	3	4	153	1	0	0	0	0	1	0	0	0	11547	768	27	1	1465	1	PCDHA6	5	140209139	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5975	140209139	40706121	502	82434											
PCDHA9	9752	broad.mit.edu	37	chr5	140229360	140229360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctacgagctggtggttaccgCgcgggacgggggctcgcctt	4	8	17	12	6	0	0	0	0	0	0	1	2	0	1	2	5	3	3	2	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140229360C>T	uc003lhu.2	+	1	2004	c.1280C>T	c.(1279-1281)GCG>GTG	p.A427V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.A427V	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	427	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGTTACCGCGCGGGACGGG	0.632													24	78					0	0	1	0	0		T	140229360	T	T	140229360	3	4	153	1	0	0	0	0	1	0	0	0	11550	768	27	1	1282	1	PCDHA9	5	140229360	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	20221	140229360	40685900	503	82435											
PCDHA11	56138	broad.mit.edu	37	chr5	140250297	140250297	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	tacagttccaggtgagcgcgCgcgatgcgggcgtgccgcct	5	7	16	13	7	0	1	0	1	0	0	1	2	1	1	3	2	4	1	3	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140250297C>A	uc003lia.2	+	1	2467	c.1609C>A	c.(1609-1611)CGC>AGC	p.R537S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.R537S	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	537	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGAGCGCGCGCGATGCGGG	0.672													26	68					1.80694e-10	1.89772e-10	1	1	0		A	140250297	A	A	140250297	3	1	153	1	0	0	0	0	1	0	0	0	11540	768	27	5	1611	5	PCDHA11	5	140250297	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	20937	140250297	40664963	504	82436											
PCDHA13	56136	broad.mit.edu	37	chr5	140263587	140263587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgcgggaggcacagtgagCgagctgatgccgcggtcggt	7	5	19	10	6	0	2	0	2	0	0	1	4	0	3	1	4	4	2	1	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140263587C>T	uc003lif.2	+	1	1734	c.1734C>T	c.(1732-1734)AGC>AGT	p.S578S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.S578S|PCDHA13_uc003lid.2_Silent_p.S578S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	578	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCACAGTGAGCGAGCTGATGC	0.672													18	52					0	0	1	0	0		T	140263587	T	T	140263587	2	4	153	1	0	0	0	0	0	0	0	1	11542	767	27	1		1	PCDHA13	5	140263587	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	13290	140263587	40651673	505	82437											
PCDHAC2	56134	broad.mit.edu	37	chr5	140347691	140347691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccacagatgggggaatacCgcagctcacatccctgcgta	11	6	11	13	2	1	1	1	0	0	1	2	2	2	2	3	2	4	3	3	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140347691C>T	uc003lii.2	+	1	1580	c.1340C>T	c.(1339-1341)CCG>CTG	p.P447L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.P447L	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	447	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGGGAATACCGCAGCTCACA	0.537													51	141					0	0	1	0	0		T	140347691	T	T	140347691	3	4	153	1	0	0	0	0	1	0	0	0	11552	652	23	1	1342	1	PCDHAC2	5	140347691	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	84104	140347691	40567569	506	82438											
PCDHB6	56130	broad.mit.edu	37	chr5	140531810	140531810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccaccgccacgctgcacGtgctcctggtggacggcttc	4	7	13	17	5	0	0	0	0	0	0	2	1	1	1	4	4	2	4	4	4	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140531810G>A	uc003lir.2	+	1	1972	c.1972G>A	c.(1972-1974)GTG>ATG	p.V658M	PCDHB6_uc011dah.1_Missense_Mutation_p.V522M	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	658	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CACGCTGCACGTGCTCCTGGT	0.697													6	32					0	0	1	0	0		A	140531810	A	A	140531810	3	1	153	1	0	0	0	0	1	0	0	0	11565	1145	40	1	1974	1	PCDHB6	5	140531810	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	184119	140531810	40383450	507	82439											
PCDHB6	56130	broad.mit.edu	37	chr5	140532163	140532163	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcccaacttccctcctcaGggcactgagagagaaatgga	12	7	10	12	0	1	2	1	1	0	2	3	5	3	3	3	2	2	1	3	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140532163G>T	uc003lir.2	+	1	2325	c.2325G>T	c.(2323-2325)CAG>CAT	p.Q775H	PCDHB6_uc011dah.1_Missense_Mutation_p.Q639H	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	775	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCCTCCTCAGGGCACTGAGA	0.468													25	111					3.6726e-16	3.91445e-16	1	1	0		T	140532163	T	T	140532163	3	4	153	1	0	0	0	0	1	0	0	0	11565	991	35	5	2327	5	PCDHB6	5	140532163	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	353	140532163	40383097	508	82440											
PCDHB8	56128	broad.mit.edu	37	chr5	140559277	140559277	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgcgcgtgctggtgctggaCgccaacgacaactcgccctt	6	8	13	14	5	0	0	0	0	0	0	1	2	0	1	2	2	5	2	2	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140559277C>T	uc011dai.1	+	1	1848	c.1662C>T	c.(1660-1662)GAC>GAT	p.D554D	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	554	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGTGCTGGACGCCAACGACA	0.706													14	64					0	0	1	0	0		T	140559277	T	T	140559277	2	4	153	1	0	0	0	0	0	0	0	1	11567	535	19	1		1	PCDHB8	5	140559277	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	27114	140559277	40355983	509	82441											
PCDHB16	57717	broad.mit.edu	37	chr5	140563395	140563395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgaatataatatcaccCtcaccgtcacagatatgggg	13	9	9	10	1	3	2	3	1	0	1	3	3	3	2	2	2	1	1	2	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140563395C>A	uc003liv.2	+	1	2416	c.1261C>A	c.(1261-1263)CTC>ATC	p.L421I	PCDHB16_uc010jfw.1_Missense_Mutation_p.L93I	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	421	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TAATATCACCCTCACCGTCAC	0.453													30	92					1.2476e-16	1.33188e-16	1	1	0		A	140563395	A	A	140563395	3	1	153	1	0	0	0	0	1	0	0	0	11560	681	24	5	1263	5	PCDHB16	5	140563395	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4118	140563395	40351865	510	82442											
PCDHB9	56127	broad.mit.edu	37	chr5	140568260	140568260	+	Missense_Mutation	SNP	A	G	G	1	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	ccttcacccaaacctcctacAccctgttcgtccgggagaac	9	8	6	18	2	1	1	1	0	0	1	4	2	3	1	6	1	3	1	6	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140568260A>G	uc003liw.1	+	3	1369	c.1369A>G	c.(1369-1371)ACC>GCC	p.T457A		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	457	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AACCTCCTACACCCTGTTCGT	0.612													32	115					0	0	1	0	0		G	140568260	G	G	140568260	3	3	153	1	0	0	0	0	1	0	0	0	11568	146	6	3	1370	3	PCDHB9	5	140568260	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	4865	140568260	40347000	511	82443											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712379	140712379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctggccttcgtcatcGtgctgctggcgcacaggctg	3	12	12	14	3	2	0	1	0	1	0	5	0	3	0	2	3	2	4	2	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140712379G>A	uc003lji.1	+	1	2128	c.2128G>A	c.(2128-2130)GTG>ATG	p.V710M	PCDHGA1_uc011dan.1_Missense_Mutation_p.V710M	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	710	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCGTCATCGTGCTGCTGGC	0.662													11	64					0	0	1	0	0		A	140712379	A	A	140712379	3	1	153	1	0	0	0	0	1	0	0	0	11569	1145	40	1	2130	1	PCDHGA1	5	140712379	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	144119	140712379	40202881	512	82444											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720690	140720690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgctggcgcacaggctgcggCgctggcacaagtcacgcctg	6	6	15	14	4	1	0	1	0	0	0	1	0	1	0	1	4	2	5	1	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140720690C>T	uc003ljk.1	+	1	2337	c.2152C>T	c.(2152-2154)CGC>TGC	p.R718C	PCDHGA1_uc003lji.1_Intron|PCDHGA3_uc003ljm.1_5'Flank|PCDHGA3_uc010jfx.1_5'Flank|PCDHGA2_uc011dao.1_Missense_Mutation_p.R718C|PCDHGA3_uc011dap.1_5'Flank	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	718	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGCTGCGGCGCTGGCACAA	0.642													21	61					0	0	1	0	0		T	140720690	T	T	140720690	3	4	153	1	0	0	0	0	1	0	0	0	11573	768	27	1	2154	1	PCDHGA2	5	140720690	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8311	140720690	40194570	513	82445											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725511	140725511	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgctggacagagacgcGctcaagcagagcctcgtggt	8	6	14	13	3	1	2	1	0	0	2	2	4	1	3	2	2	3	3	2	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140725511G>A	uc003ljm.1	+	1	1911	c.1911G>A	c.(1909-1911)GCG>GCA	p.A637A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.A397A|PCDHGA3_uc011dap.1_Silent_p.A637A	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	637	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGAGACGCGCTCAAGCAGA	0.701													11	47					0	0	1	0	0		A	140725511	A	A	140725511	2	1	153	1	0	0	0	0	0	0	0	1	11574	1074	38	1		1	PCDHGA3	5	140725511	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4821	140725511	40189749	514	82446											
PCDHGB2	56103	broad.mit.edu	37	chr5	140739781	140739781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgttgtctttgttccccGgggctctcccagtccagatc	3	14	9	15	1	2	1	0	0	2	1	7	1	5	1	5	2	0	3	5	2	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140739781G>A	uc003ljs.1	+	1	79	c.79G>A	c.(79-81)GGG>AGG	p.G27R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.G27R	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	27					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTTGTTCCCCGGGGCTCTCCC	0.592											OREG0016857	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	16					0	0	1	0	0		A	140739781	A	A	140739781	3	1	153	1	0	0	0	0	1	0	0	0	11582	1116	39	1	81	1	PCDHGB2	5	140739781	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	14270	140739781	40175479	515	82447											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769353	140769353	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgtgccttaggcgacagggaCgccgtccgccagcgccttct	5	7	13	16	6	1	0	0	0	1	0	2	2	2	1	5	2	2	0	5	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140769353C>T	uc003lkc.1	+	1	1902	c.1902C>T	c.(1900-1902)GAC>GAT	p.D634D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.D634D	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	634	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGACAGGGACGCCGTCCGCC	0.697													10	23					0	0	1	0	0		T	140769353	T	T	140769353	2	4	153	1	0	0	0	0	0	0	0	1	11584	535	19	1		1	PCDHGB4	5	140769353	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	29572	140769353	40145907	516	82448											
PCDHGA10	56106	broad.mit.edu	37	chr5	140795052	140795052	+	Missense_Mutation	SNP	T	A	A	0	1	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	accgcggactcgcgaaagagTcacctgatcttcccccagcc	9	6	9	17	4	2	2	1	1	1	1	4	4	3	3	5	1	1	0	5	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140795052T>A	uc003lkl.1	+	1	2310	c.2310T>A	c.(2308-2310)AGT>AGA	p.S770R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Missense_Mutation_p.S770R|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	770	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGAAAGAGTCACCTGATCT	0.552													28	111					0	0	1	0	0		A	140795052	A	A	140795052	3	1	153	1	0	0	0	0	1	0	0	0	11570	1664	58	5	2312	5	PCDHGA10	5	140795052	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	25699	140795052	40120208	517	82449											
PCDHGA11	56105	broad.mit.edu	37	chr5	140801469	140801469	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcgatcccatccgaaagggCgcagttcccattcgtgtggt	7	9	13	12	4	0	0	0	0	0	0	4	2	3	0	3	3	0	2	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:140801469C>T	uc003lkq.1	+	1	933	c.675C>T	c.(673-675)GGC>GGT	p.G225G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Silent_p.G225G|PCDHGA11_uc003lkp.1_Silent_p.G225G	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	225	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCGAAAGGGCGCAGTTCCCA	0.527													27	102					0	0	1	0	0		T	140801469	T	T	140801469	2	4	153	1	0	0	0	0	0	0	0	1	11571	755	27	1		1	PCDHGA11	5	140801469	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6417	140801469	40113791	518	82450											
RNF14	9604	broad.mit.edu	37	chr5	141358224	141358224	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaaattgttcctgtgcagTatctgtttctgtgagaagct	9	16	10	6	0	2	1	0	1	2	1	3	2	3	1	1	0	2	6	1	0	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:141358224T>C	uc003lly.2	+	4	702	c.663T>C	c.(661-663)AGT>AGC	p.S221S	RNF14_uc003llz.2_Silent_p.S221S|RNF14_uc003lma.2_Silent_p.S221S|RNF14_uc003lmb.2_Silent_p.S95S|RNF14_uc003lmc.2_Silent_p.S221S|RNF14_uc011dbg.1_Intron|RNF14_uc011dbh.1_Intron|RNF14_uc003lmd.2_Silent_p.S221S	NM_183399	NP_899646	Q9UBS8	RNF14_HUMAN	ring finger protein 14 isoform 1	221	RING-type 1; atypical.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|protein ubiquitination|regulation of androgen receptor signaling pathway|regulation of transcription from RNA polymerase II promoter|response to estradiol stimulus|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|small conjugating protein ligase activity|transcription coactivator activity|zinc ion binding				0		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)		TCCTGTGCAGTATCTGTTTCT	0.418													53	157					0	0	1	0	0		C	141358224	C	C	141358224	2	2	153	1	0	0	0	0	0	0	0	1	13468	1635	57	3		3	RNF14	5	141358224	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	556755	141358224	39557036	519	82451											
DPYSL3	1809	broad.mit.edu	37	chr5	146788339	146788339	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgggccagttatccccatTtccaacatgcgggtttgctc	6	13	9	13	1	1	0	0	0	1	0	4	0	3	0	4	2	3	3	4	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:146788339T>C	uc003lon.1	-	7	752	c.642A>G	c.(640-642)GAA>GAG	p.E214E	DPYSL3_uc003loo.2_Silent_p.E328E	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	214					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTATCCCCATTTCCAACATGC	0.413													30	90					0	0	1	0	0		C	146788339	C	C	146788339	2	2	153	1	0	0	0	0	0	0	0	1	4754	1838	64	3		3	DPYSL3	5	146788339	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5430115	146788339	34126921	520	82452											
ABLIM3	22885	broad.mit.edu	37	chr5	148619446	148619446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacctcaccactactaccGctctggtaaggaagggggag	10	7	11	13	1	3	0	2	0	1	0	3	2	3	2	3	4	2	2	3	4	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:148619446G>A	uc003lpy.2	+	13	1450	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	ABLIM3_uc003lpz.1_Missense_Mutation_p.R400H|ABLIM3_uc003lqa.1_Missense_Mutation_p.R346H|ABLIM3_uc003lqb.2_Missense_Mutation_p.R338H|ABLIM3_uc003lqc.1_Missense_Mutation_p.R400H|ABLIM3_uc003lqd.1_Missense_Mutation_p.R338H|ABLIM3_uc003lqf.2_Missense_Mutation_p.R338H|ABLIM3_uc003lqe.1_Missense_Mutation_p.R338H	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	400					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACTACTACCGCTCTGGTAAG	0.642													37	100					0	0	1	0	0		A	148619446	A	A	148619446	3	1	153	1	0	0	0	0	1	0	0	0	96	1087	38	1	1245	1	ABLIM3	5	148619446	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1831107	148619446	32295814	521	82453											
AFAP1L1	134265	broad.mit.edu	37	chr5	148687114	148687114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatatgtgccttcctgctgCggaaaaagcgtttcgggcag	8	10	14	9	3	0	0	0	0	0	0	2	2	1	2	2	3	4	3	2	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:148687114C>T	uc003lqh.2	+	7	816	c.685C>T	c.(685-687)CGG>TGG	p.R229W	AFAP1L1_uc003lqg.3_Missense_Mutation_p.R229W|AFAP1L1_uc010jgy.2_Missense_Mutation_p.R229W	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	229	PH 1.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTCCTGCTGCGGAAAAAGCG	0.632													13	55					0	0	1	0	0		T	148687114	T	T	148687114	3	4	153	1	0	0	0	0	1	0	0	0	354	759	27	1	711	1	AFAP1L1	5	148687114	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	67668	148687114	32228146	522	82454											
CSF1R	1436	broad.mit.edu	37	chr5	149447811	149447811	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaatagcagcaggagcagCagcagcagcaaggccatgat	15	4	12	10	0	0	1	0	1	0	0	0	2	0	2	1	2	8	7	1	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:149447811C>G	uc003lrl.2	-	10	1788	c.1593G>C	c.(1591-1593)CTG>CTC	p.L531L	CSF1R_uc011dcd.1_Silent_p.L383L|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.L531L	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	531	Helical; (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	gcaggagcagcagcagcagca	0.512													12	56					0	0	1	0	0		G	149447811	G	G	149447811	2	3	153	1	0	0	0	0	0	0	0	1	3935	697	25	5		5	CSF1R	5	149447811	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	760697	149447811	31467449	523	82455											
ARSI	340075	broad.mit.edu	37	chr5	149677060	149677060	+	Missense_Mutation	SNP	T	C	C	0	1	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	caggccgctggccagccaggTcctcccgttcataagggtca	7	7	12	15	2	2	0	2	0	0	0	4	0	4	0	5	4	1	2	5	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:149677060T>C	uc003lrv.2	-	2	2016	c.1427A>G	c.(1426-1428)GAC>GGC	p.D476G		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	476						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCCAGCCAGGTCCTCCCGTTC	0.637													9	44					0	0	1	0	0		C	149677060	C	C	149677060	3	2	153	1	0	0	0	0	1	0	0	0	995	1667	58	3	286	3	ARSI	5	149677060	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	229249	149677060	31238200	524	82456											
RPS14	6208	broad.mit.edu	37	chr5	149826384	149826384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctatttcctcctgtggcccGgagtttgatgtgtagggcgg	4	13	14	10	2	0	1	0	1	0	0	2	2	2	2	4	4	0	2	4	4	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:149826384G>A	uc003lsh.2	-	3	565	c.292C>T	c.(292-294)CGG>TGG	p.R98W	uc003lsg.2_5'Flank|RPS14_uc003lsi.2_Missense_Mutation_p.R98W|RPS14_uc003lsj.2_Missense_Mutation_p.R98W	NM_001025071	NP_001020242	P62263	RS14_HUMAN	ribosomal protein S14	98					endocrine pancreas development|erythrocyte differentiation|maturation of SSU-rRNA|negative regulation of transcription from RNA polymerase II promoter|ribosomal small subunit assembly|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	mRNA 5'-UTR binding|protein binding|structural constituent of ribosome|translation regulator activity			central_nervous_system(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCTGTGGCCCGGAGTTTGATG	0.572													17	80					0	0	1	0	0		A	149826384	A	A	149826384	3	1	153	1	0	0	0	0	1	0	0	0	13649	1115	39	1	175	1	RPS14	5	149826384	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	149324	149826384	31088876	525	82457											
NDST1	3340	broad.mit.edu	37	chr5	149927860	149927860	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggctctgacgcatcctcGaagctgcgtgccctccagaa	7	7	11	16	4	1	2	0	1	1	1	4	3	3	2	4	1	3	3	4	1	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:149927860G>A	uc003lsk.3	+	12	2728	c.2226G>A	c.(2224-2226)TCG>TCA	p.S742S	NDST1_uc011dcj.1_Intron	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	742	Heparan sulfate N-sulfotransferase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACGCATCCTCGAAGCTGCGTG	0.627													13	52					0	0	1	0	0		A	149927860	A	A	149927860	2	1	153	1	0	0	0	0	0	0	0	1	10274	1045	37	1		1	NDST1	5	149927860	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	101476	149927860	30987400	526	82458											
ANXA6	309	broad.mit.edu	37	chr5	150505975	150505975	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctgacctctactcgggcCactgcactaagttcccacat	8	10	8	15	1	2	1	0	1	2	0	4	1	3	1	3	2	2	2	3	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:150505975C>A	uc003ltl.1	-	14	1196	c.1044G>T	c.(1042-1044)GTG>GTT	p.V348V	ANXA6_uc011dcp.1_Silent_p.V316V|ANXA6_uc003ltm.1_Silent_p.V348V|ANXA6_uc003ltn.1_Silent_p.V141V|ANXA6_uc003lto.1_Intron	NM_001155	NP_001146	P08133	ANXA6_HUMAN	annexin VI isoform 1	348						melanosome	calcium ion binding|calcium-dependent phospholipid binding|protein binding				0		Medulloblastoma(196;0.0912)|all_hematologic(541;0.208)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTACTCGGGCCACTGCACTAA	0.597											OREG0016946	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	15					0.115264	0.115899	1	1	0		A	150505975	A	A	150505975	2	1	153	1	0	0	0	0	0	0	0	1	722	581	21	5		5	ANXA6	5	150505975	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	578115	150505975	30409285	527	82459											
FAT2	2196	broad.mit.edu	37	chr5	150900904	150900904	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagcctggcggtgctgtaCgtgggcccaaccttggggtc	4	9	16	12	2	0	1	0	1	0	0	1	1	0	1	3	5	4	2	3	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:150900904C>T	uc003lue.3	-	18	11263	c.11250G>A	c.(11248-11250)ACG>ACA	p.T3750T	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Silent_p.T443T	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3750	Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGGTGCTGTACGTGGGCCCAA	0.607													24	62					0	0	1	0	0		T	150900904	T	T	150900904	2	4	153	1	0	0	0	0	0	0	0	1	5704	523	19	1		1	FAT2	5	150900904	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	394929	150900904	30014356	528	82460											
GALNT10	55568	broad.mit.edu	37	chr5	153674465	153674465	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaggaggccatccggagggaCgctcagcgcgtaggtacgga	10	4	17	10	5	1	0	1	0	0	0	2	4	2	4	2	6	2	3	2	6	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:153674465C>T	uc003lvh.2	+	2	381	c.249C>T	c.(247-249)GAC>GAT	p.D83D	GALNT10_uc003lvg.1_Silent_p.D83D|GALNT10_uc010jic.2_RNA	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	83	Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TCCGGAGGGACGCTCAGCGCG	0.458													10	45					0	0	1	0	0		T	153674465	T	T	153674465	2	4	153	1	0	0	0	0	0	0	0	1	6223	535	19	1		1	GALNT10	5	153674465	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2773561	153674465	27240795	529	82461											
RARS	5917	broad.mit.edu	37	chr5	167915644	167915644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgactgctgaaattgaccGgttgaaaaactgtggctgtt	10	13	11	7	1	1	4	0	4	1	0	1	4	1	4	1	2	2	4	1	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:167915644G>A	uc003lzx.2	+	2	124	c.83G>A	c.(82-84)CGG>CAG	p.R28Q	RARS_uc011deo.1_5'UTR	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	28	Could be involved in the assembly of the multisynthetase complex.				arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|skin(1)	3	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)		GAAATTGACCGGTTGAAAAAC	0.368													34	84					0	0	1	0	0		A	167915644	A	A	167915644	3	1	153	1	0	0	0	0	1	0	0	0	13083	1116	39	1	89	1	RARS	5	167915644	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	14241179	167915644	12999616	530	82462											
SLIT3	6586	broad.mit.edu	37	chr5	168093623	168093623	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	catgatgggcaccttggaggCtgtggcacatgatgcataac	10	9	13	9	0	0	2	0	2	0	0	0	3	0	3	1	4	2	4	1	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:168093623C>A	uc003mab.2	-	36	4828	c.4408G>T	c.(4408-4410)GCC>TCC	p.A1470S	SLIT3_uc010jjg.2_Missense_Mutation_p.A1477S	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	1470	CTCK.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACCTTGGAGGCTGTGGCACAT	0.602													18	55					4.54149e-19	4.8638e-19	1	1	0		A	168093623	A	A	168093623	3	1	153	1	0	0	0	0	1	0	0	0	14766	797	28	5	167	5	SLIT3	5	168093623	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	177979	168093623	12821637	531	82463											
DOCK2	1794	broad.mit.edu	37	chr5	169496192	169496192	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctgaggaccaggacaagCtgacccacctcaaggacctg	12	4	10	15	0	1	2	1	2	0	0	1	5	1	5	5	3	1	1	5	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:169496192C>A	uc003maf.2	+	46	4776	c.4696C>A	c.(4696-4698)CTG>ATG	p.L1566M	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.L1058M|DOCK2_uc003mah.2_Missense_Mutation_p.L122M	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1566	DHR-2.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCAGGACAAGCTGACCCACCT	0.592													7	36					7.48243e-07	7.74084e-07	1	1	0		A	169496192	A	A	169496192	3	1	153	1	0	0	0	0	1	0	0	0	4693	796	28	5	4878	5	DOCK2	5	169496192	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1402569	169496192	11419068	532	82464											
FAF2	23197	broad.mit.edu	37	chr5	175933771	175933771	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctatatgacctctgcaggtAatccacgacttcttattctc	9	15	5	12	1	4	1	0	1	4	0	6	2	5	1	2	1	1	2	2	1	4	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:175933771A>G	uc003mej.3	+	11	1211	c.1158A>G	c.(1156-1158)GTA>GTG	p.V386V		NM_014613	NP_055428	Q96CS3	FAF2_HUMAN	UBX domain containing 8	386	UBX.				response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1						CTCTGCAGGTAATCCACGACT	0.368													86	320					0	0	1	0	0		G	175933771	G	G	175933771	2	3	153	1	0	0	0	0	0	0	0	1	5381	349	13	3		3	FAF2	5	175933771	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	6437579	175933771	4981489	533	82465											
CDHR2	54825	broad.mit.edu	37	chr5	176003174	176003174	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctcaccatggtggtctaCgacccggacaaggcaggcgt	9	6	13	13	3	2	0	1	0	1	0	2	3	2	1	3	5	1	1	3	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:176003174C>T	uc003mem.1	+	12	1248	c.1182C>T	c.(1180-1182)TAC>TAT	p.Y394Y	CDHR2_uc003men.1_Silent_p.Y394Y	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	394	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						TGGTGGTCTACGACCCGGACA	0.662													11	48					0	0	1	0	0		T	176003174	T	T	176003174	2	4	153	1	0	0	0	0	0	0	0	1	3122	547	19	1		1	CDHR2	5	176003174	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	69403	176003174	4912086	534	82466											
FGFR4	2264	broad.mit.edu	37	chr5	176517487	176517487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgggcgggctgagcgtgGtggccactggtacaaggagg	6	7	20	8	2	0	1	0	1	0	0	0	2	0	2	1	7	2	2	1	7	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:176517487G>A	uc003mfl.2	+	3	355	c.188G>A	c.(187-189)GGT>GAT	p.G63D	FGFR4_uc003mfm.2_Missense_Mutation_p.G63D|FGFR4_uc011dfu.1_Missense_Mutation_p.G63D|FGFR4_uc011dfv.1_RNA|FGFR4_uc003mfn.1_Missense_Mutation_p.G63D|FGFR4_uc011dfw.1_Missense_Mutation_p.G63D|FGFR4_uc003mfo.2_Missense_Mutation_p.G63D	NM_002011	NP_002002	P22455	FGFR4_HUMAN	fibroblast growth factor receptor 4 isoform 1	63	Ig-like C2-type 1.|Extracellular (Potential).				insulin receptor signaling pathway|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity			lung(11)|stomach(1)|central_nervous_system(1)|breast(1)|skin(1)|prostate(1)	16	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)	GCTGAGCGTGGTGGCCACTGG	0.662										TSP Lung(9;0.080)			12	58					0	0	1	0	0		A	176517487	A	A	176517487	3	1	153	1	0	0	0	0	1	0	0	0	5882	1261	44	4	194	4	FGFR4	5	176517487	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	514313	176517487	4397773	535	82467											
LMAN2	10960	broad.mit.edu	37	chr5	176761333	176761333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctcgatcttggtccagtCgatgctctcctcgtcgggcg	3	11	14	13	5	2	0	0	0	2	0	8	2	3	0	2	3	1	2	2	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:176761333C>T	uc003mge.2	-	7	1099	c.862G>A	c.(862-864)GAC>AAC	p.D288N	LMAN2_uc003mgd.2_Missense_Mutation_p.D288N	NM_006816	NP_006807	Q12907	LMAN2_HUMAN	lectin, mannose-binding 2 precursor	288	Lumenal (Potential).				protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	metal ion binding|sugar binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TTGGTCCAGTCGATGCTCTCC	0.587													17	43					0	0	1	0	0		T	176761333	T	T	176761333	3	4	153	1	0	0	0	0	1	0	0	0	8855	884	31	1	216	1	LMAN2	5	176761333	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	243846	176761333	4153927	536	82468											
FAM153C	653316	broad.mit.edu	37	chr5	177473894	177473894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcagcaagtccttcctctGcacctgcagaagaagcaaca	12	8	8	13	0	2	2	1	0	1	2	4	2	4	2	3	0	5	4	3	0	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:177473894G>A	uc011dge.1	+	10	496	c.295G>A	c.(295-297)GCA>ACA	p.A99T	FAM153C_uc003mig.1_Missense_Mutation_p.A99T	NM_001079527	NP_001072995			hypothetical protein LOC653316												0	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)			TCCTTCCTCTGCACCTGCAGA	0.517													33	118					0	0	1	0	0		A	177473894	A	A	177473894	3	1	153	1	0	0	0	0	1	0	0	0	5473	1319	46	2	325	2	FAM153C	5	177473894	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	712561	177473894	3441366	537	82469											
GRM6	2916	broad.mit.edu	37	chr5	178413540	178413540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgcaccacaggtgtggggCggcagcccgtgtggttgggc	4	6	20	11	3	0	0	0	0	0	0	0	0	0	0	2	7	1	3	2	7	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:178413540C>T	uc003mjr.2	-	8	1894	c.1715G>A	c.(1714-1716)CGC>CAC	p.R572H	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.R155H|GRM6_uc003mjs.1_Missense_Mutation_p.R192H	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	572	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		AGGTGTGGGGCGGCAGCCCGT	0.706													7	21					0	0	1	0	0		T	178413540	T	T	178413540	3	4	153	1	0	0	0	0	1	0	0	0	6817	768	27	1	930	1	GRM6	5	178413540	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	939646	178413540	2501720	538	82470											
GRM6	2916	broad.mit.edu	37	chr5	178413854	178413854	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcacatccagtctgagggtCtctgcccactggcccactgc	6	9	9	17	0	3	1	1	1	2	0	5	1	4	1	3	2	2	0	3	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:178413854C>T	uc003mjr.2	-	7	1664	c.1485G>A	c.(1483-1485)GAG>GAA	p.E495E	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Silent_p.E78E|GRM6_uc003mjs.1_Silent_p.E115E	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	495	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		GTCTGAGGGTCTCTGCCCACT	0.657													8	23					0	0	1	0	0		T	178413854	T	T	178413854	2	4	153	1	0	0	0	0	0	0	0	1	6817	912	32	4		4	GRM6	5	178413854	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	314	178413854	2501406	539	82471											
GFPT2	9945	broad.mit.edu	37	chr5	179743769	179743769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgtgtcacacttacagccaCggcagcgtggtagctggttc	8	10	12	11	2	1	0	1	0	0	0	2	0	1	0	1	3	4	4	1	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:179743769C>T	uc003mlw.1	-	12	1245	c.1147G>A	c.(1147-1149)GTG>ATG	p.V383M		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	383	SIS 1.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	CTTACAGCCACGGCAGCGTGG	0.562													12	25					0	0	1	0	0		T	179743769	T	T	179743769	3	4	153	1	0	0	0	0	1	0	0	0	6361	536	19	1	933	1	GFPT2	5	179743769	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1329915	179743769	1171491	540	82472											
FLT4	2324	broad.mit.edu	37	chr5	180053236	180053236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagggcatgtggactgtggCgcccggacagtgcctttcca	6	8	14	13	2	0	0	0	0	0	0	1	2	1	2	4	4	1	1	4	4	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:180053236C>T	uc003mma.3	-	9	1212	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	FLT4_uc003mlz.3_Missense_Mutation_p.R378H|FLT4_uc003mmb.1_5'UTR|FLT4_uc011dgy.1_Missense_Mutation_p.R378H	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	378	Ig-like C2-type 4.|Extracellular (Potential).		R -> C (in a renal clear cell carcinoma sample; somatic mutation).		positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity	p.R378C(1)		lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	TGGACTGTGGCGCCCGGACAG	0.647									Congenital_Hereditary_Lymphedema				11	104					0	0	1	0	0		T	180053236	T	T	180053236	3	4	153	1	0	0	0	0	1	0	0	0	5958	768	27	1	3054	1	FLT4	5	180053236	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	309467	180053236	862024	541	82473											
TRIM52	84851	broad.mit.edu	37	chr5	180687440	180687440	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatcttcctcttcttcttcTtcctcctcgtcccacatata	5	18	2	16	1	5	1	0	1	5	0	10	1	9	1	4	0	0	0	4	0	2	7	rs80196452		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr5:180687440T>C	uc003mnp.2	-	1	680	c.375A>G	c.(373-375)GAA>GAG	p.E125E	uc003mnq.2_5'Flank	NM_032765	NP_116154	Q96A61	TRI52_HUMAN	tripartite motif-containing 52	125	Glu-rich.					intracellular	zinc ion binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.0106)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0588)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.232)		CTTCTTCTTCTTCCTCCTCGT	0.453													62	243					0	0	1	0	0		C	180687440	C	C	180687440	2	2	153	1	0	0	0	0	0	0	0	1	16553	1606	56	3		3	TRIM52	5	180687440	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	634204	180687440	227820	542	82474											
FAM50B	26240	broad.mit.edu	37	chr6	3850865	3850865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcgatgtgcacgatgacGtgcgcctgctcagcgacgcc	6	8	13	14	6	1	1	1	1	0	0	2	4	1	1	2	0	4	3	2	0	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:3850865G>A	uc003mvu.2	+	2	932	c.820G>A	c.(820-822)GTG>ATG	p.V274M		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	274						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				GCACGATGACGTGCGCCTGCT	0.627													12	58					0	0	1	0	0		A	3850865	A	A	3850865	3	1	153	1	0	0	0	0	1	0	0	0	5592	1145	40	1	822	1	FAM50B	6	3850865	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		3850865	167264202	543	82475											
CDYL	9425	broad.mit.edu	37	chr6	4943797	4943797	+	Missense_Mutation	SNP	T	C	C	0	1	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	tagaaacttcgtgaatacttTcattcaatttaagaagccca	15	13	5	8	1	2	3	2	1	0	2	3	3	2	3	1	0	3	0	1	0	7	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:4943797T>C	uc003mwi.2	+	7	1432	c.1301T>C	c.(1300-1302)TTC>TCC	p.F434S	CDYL_uc003mwj.2_Missense_Mutation_p.F380S|CDYL_uc003mwk.2_Missense_Mutation_p.F145S|CDYL_uc011dhx.1_Missense_Mutation_p.F248S|CDYL_uc011dhy.1_Missense_Mutation_p.F248S	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	434					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		GTGAATACTTTCATTCAATTT	0.353													48	164					0	0	1	0	0		C	4943797	C	C	4943797	3	2	153	1	0	0	0	0	1	0	0	0	3188	1783	62	3	1157	3	CDYL	6	4943797	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1092932	4943797	166171270	544	82476											
CDYL	9425	broad.mit.edu	37	chr6	4952537	4952537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtggacggaagctgacagCgcaggaggcgtgtggcaagg	10	4	19	8	3	0	1	0	1	0	0	0	4	0	4	0	6	2	3	0	6	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:4952537C>T	uc003mwi.2	+	8	1663	c.1532C>T	c.(1531-1533)GCG>GTG	p.A511V	CDYL_uc003mwj.2_Missense_Mutation_p.A457V|CDYL_uc003mwk.2_Missense_Mutation_p.A222V|CDYL_uc011dhx.1_Missense_Mutation_p.A325V|CDYL_uc011dhy.1_Missense_Mutation_p.A325V	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	511					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		AAGCTGACAGCGCAGGAGGCG	0.577													16	61					0	0	1	0	0		T	4952537	T	T	4952537	3	4	153	1	0	0	0	0	1	0	0	0	3188	768	27	1	1392	1	CDYL	6	4952537	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8740	4952537	166162530	545	82477											
FARS2	10667	broad.mit.edu	37	chr6	5369002	5369002	+	Missense_Mutation	SNP	A	G	G	1	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	aggacgaccacagcaacctcAcccggaaggtcctcaccaga	13	3	9	16	2	2	1	2	0	0	1	3	4	3	3	5	3	2	1	5	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:5369002A>G	uc010jnv.1	+	2	535	c.199A>G	c.(199-201)ACC>GCC	p.T67A	FARS2_uc003mwr.2_Missense_Mutation_p.T67A|FARS2_uc003mws.1_Missense_Mutation_p.T67A	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	67					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	CAGCAACCTCACCCGGAAGGT	0.587													12	38					0	0	1	0	0		G	5369002	G	G	5369002	3	3	153	1	0	0	0	0	1	0	0	0	5692	159	6	3	201	3	FARS2	6	5369002	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	416465	5369002	165746065	546	82478											
LY86	9450	broad.mit.edu	37	chr6	6588968	6588968	+	Missense_Mutation	SNP	A	G	G	1	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	gtcccatacaggcccccaccAtgaagggtttcacagccact	10	7	8	16	0	1	1	1	1	0	0	2	1	2	1	5	2	2	1	5	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:6588968A>G	uc003mwy.1	+	1	35	c.1A>G	c.(1-3)ATG>GTG	p.M1V	LOC285780_uc003mww.3_Intron|LOC285780_uc003mwx.2_Intron	NM_004271	NP_004262	O95711	LY86_HUMAN	MD-1, RP105-associated precursor	1					apoptosis|cell proliferation|humoral immune response|inflammatory response|innate immune response	extracellular space|plasma membrane					0	Ovarian(93;0.0377)					GGCCCCCACCATGAAGGGTTT	0.522													22	74					0	0	1	0	0		G	6588968	G	G	6588968	3	3	153	1	0	0	0	0	1	0	0	0	9118	217	8	3	3	3	LY86	6	6588968	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1219966	6588968	164526099	547	82479											
RREB1	6239	broad.mit.edu	37	chr6	7248924	7248924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccacagcggcaacaacgCcgtctcagagaacgaggctg	12	3	11	15	4	1	1	1	0	1	1	2	3	1	1	2	2	4	2	2	2	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:7248924C>T	uc003mxc.2	+	12	5177	c.4787C>T	c.(4786-4788)GCC>GTC	p.A1596V	RREB1_uc003mxb.2_Missense_Mutation_p.A1651V|RREB1_uc010jnx.2_Missense_Mutation_p.A1385V	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1596					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				GGCAACAACGCCGTCTCAGAG	0.622													7	30					0	0	1	0	0		T	7248924	T	T	7248924	3	4	153	1	0	0	0	0	1	0	0	0	13704	739	26	2	4990	2	RREB1	6	7248924	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	659956	7248924	163866143	548	82480											
DSP	1832	broad.mit.edu	37	chr6	7576615	7576615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtggctctatgatgctaaaCgccgccaggattccttagaa	11	10	10	10	2	1	2	0	1	1	1	2	3	2	3	3	2	2	2	3	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:7576615C>T	uc003mxp.1	+	19	2998	c.2719C>T	c.(2719-2721)CGC>TGC	p.R907C	DSP_uc003mxq.1_Missense_Mutation_p.R907C	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	907	Globular 1.|Spectrin 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGATGCTAAACGCCGCCAGGA	0.423													41	145					0	0	1	0	0		T	7576615	T	T	7576615	3	4	153	1	0	0	0	0	1	0	0	0	4787	536	19	1	2793	1	DSP	6	7576615	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	327691	7576615	163538452	549	82481											
DSP	1832	broad.mit.edu	37	chr6	7585193	7585193	+	Silent	SNP	T	C	C	0	1	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	atgatctccttgaaaaatggTgtcggcaccagcagcagcat	12	9	10	10	1	1	2	0	2	1	0	3	2	1	2	2	2	3	4	2	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:7585193T>C	uc003mxp.1	+	24	7977	c.7698T>C	c.(7696-7698)GGT>GGC	p.G2566G	DSP_uc003mxq.1_Silent_p.G1967G	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2566	Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		TGAAAAATGGTGTCGGCACCA	0.488													28	91					0	0	1	0	0		C	7585193	C	C	7585193	2	2	153	1	0	0	0	0	0	0	0	1	4787	1683	59	3		3	DSP	6	7585193	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	8578	7585193	163529874	550	82482											
NEDD9	4739	broad.mit.edu	37	chr6	11191366	11191366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccttccagcttgtctcatggGaggggggaagtcatagtctt	7	12	13	9	0	3	0	2	0	2	0	5	2	4	2	2	4	1	1	2	4	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:11191366G>A	uc003mzv.2	-	5	903	c.736C>T	c.(736-738)CCC>TCC	p.P246S	NEDD9_uc010joz.2_Missense_Mutation_p.P246S|NEDD9_uc003mzw.3_Missense_Mutation_p.P100S	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	246					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			TGTCTCATGGGAGGGGGGAAG	0.527													21	55					0	0	1	0	0		A	11191366	A	A	11191366	3	1	153	1	0	0	0	0	1	0	0	0	10332	1174	41	4	1780	4	NEDD9	6	11191366	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3606173	11191366	159923701	551	82483											
GFOD1	54438	broad.mit.edu	37	chr6	13365145	13365145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggcagtcgtcgaaggtggCggccatggtgaggggccgcc	6	5	19	11	4	0	1	0	1	0	0	2	2	0	1	3	7	0	1	3	7	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:13365145C>T	uc003nat.1	-	2	1668	c.1003G>A	c.(1003-1005)GCC>ACC	p.A335T	GFOD1_uc003nas.1_Missense_Mutation_p.A232T	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	335						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			TCGAAGGTGGCGGCCATGGTG	0.647													12	32					0	0	1	0	0		T	13365145	T	T	13365145	3	4	153	1	0	0	0	0	1	0	0	0	6358	768	27	1	173	1	GFOD1	6	13365145	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2173779	13365145	157749922	552	82484											
JARID2	3720	broad.mit.edu	37	chr6	15496493	15496493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgccacggtgacgaagggggCtgtcacatacaccaaagcca	12	5	12	12	2	1	1	1	1	0	0	1	2	1	1	3	3	3	1	3	3	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:15496493C>A	uc003nbj.2	+	7	1281	c.1037C>A	c.(1036-1038)GCT>GAT	p.A346D	JARID2_uc011diu.1_Missense_Mutation_p.A210D|JARID2_uc011div.1_Missense_Mutation_p.A174D|JARID2_uc011diw.1_Missense_Mutation_p.A308D	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	346					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				ACGAAGGGGGCTGTCACATAC	0.517													22	82					8.10497e-08	8.4109e-08	1	1	0		A	15496493	A	A	15496493	3	1	153	1	0	0	0	0	1	0	0	0	7961	797	28	5	1063	5	JARID2	6	15496493	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2131348	15496493	155618574	553	82485											
KIAA0319	9856	broad.mit.edu	37	chr6	24588957	24588957	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcactgggcttttctccacGgtgactgagctgagctccag	7	10	12	12	1	1	3	0	3	1	0	3	3	2	3	2	2	3	4	2	2	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:24588957G>A	uc011djo.1	-	4	1095	c.858C>T	c.(856-858)ACC>ACT	p.T286T	KIAA0319_uc011djp.1_Silent_p.T241T|KIAA0319_uc003neh.1_Silent_p.T286T|KIAA0319_uc011djq.1_Silent_p.T277T|KIAA0319_uc011djr.1_Silent_p.T286T	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	286	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						TTTTCTCCACGGTGACTGAGC	0.517													26	101					0	0	1	0	0		A	24588957	A	A	24588957	2	1	153	1	0	0	0	0	0	0	0	1	8184	1103	39	1		1	KIAA0319	6	24588957	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	9092464	24588957	146526110	554	82486											
TRIM38	10475	broad.mit.edu	37	chr6	25966795	25966795	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatgatggaggaagccacCtgctccatctgcctgagcct	10	8	11	12	0	1	3	0	2	1	1	2	5	2	5	5	2	4	1	5	2	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:25966795C>A	uc003nfm.2	+	3	480	c.45C>A	c.(43-45)ACC>ACA	p.T15T	TRIM38_uc003nfn.2_Silent_p.T15T	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	15					positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						AGGAAGCCACCTGCTCCATCT	0.478													17	58					3.52763e-06	3.63261e-06	1	1	0		A	25966795	A	A	25966795	2	1	153	1	0	0	0	0	0	0	0	1	16538	668	24	5		5	TRIM38	6	25966795	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1377838	25966795	145148272	555	82487											
HIST1H3F	8968	broad.mit.edu	37	chr6	26250706	26250706	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggcgacagtaccaggcCtgtagcggtggggcttcttc	6	8	17	10	2	1	0	0	0	1	0	2	2	1	1	2	6	2	3	2	6	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:26250706C>A	uc003nhg.1	-	1	130	c.128G>T	c.(127-129)AGG>ATG	p.R43M	HIST1H2BH_uc003nhh.2_5'Flank	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	43					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						AGTACCAGGCCTGTAGCGGTG	0.617													29	97					1.36615e-20	1.46702e-20	1	1	0		A	26250706	A	A	26250706	3	1	153	1	0	0	0	0	1	0	0	0	7176	681	24	5	286	5	HIST1H3F	6	26250706	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	283911	26250706	144864361	556	82488											
HIST1H2AL	8332	broad.mit.edu	37	chr6	27833428	27833428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggagctcaacaagctgctggGcaaagtaaccatcgctcagg	12	6	12	11	1	2	0	2	0	0	0	3	1	2	1	1	3	5	6	1	3	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:27833428G>A	uc003njw.2	+	1	322	c.296G>A	c.(295-297)GGC>GAC	p.G99D		NM_003511	NP_003502	P0C0S8	H2A1_HUMAN	histone cluster 1, H2al	99					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						AAGCTGCTGGGCAAAGTAACC	0.592													27	97					0	0	1	0	0		A	27833428	A	A	27833428	3	1	153	1	0	0	0	0	1	0	0	0	7154	1203	42	2	298	2	HIST1H2AL	6	27833428	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1582722	27833428	143281639	557	82489											
NKAPL	222698	broad.mit.edu	37	chr6	28227419	28227419	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtcctcctggtcgacctcGtatagtggatatcgctacca	7	11	10	13	4	0	0	0	0	0	0	5	2	2	1	4	2	1	2	4	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:28227419G>A	uc003nkt.2	+	1	322	c.270G>A	c.(268-270)TCG>TCA	p.S90S	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	90										upper_aerodigestive_tract(1)|ovary(1)	2						GGTCGACCTCGTATAGTGGAT	0.582													23	59					0	0	1	0	0		A	28227419	A	A	28227419	2	1	153	1	0	0	0	0	0	0	0	1	10459	1132	40	1		1	NKAPL	6	28227419	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	393991	28227419	142887648	558	82490											
OR10C1	442194	broad.mit.edu	37	chr6	29408492	29408492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatctgttgcgggccgcCgcaaggccttctccacctgc	4	9	10	18	3	2	0	0	0	2	0	4	0	3	0	6	2	2	2	6	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:29408492C>T	uc011dlp.1	+	1	700	c.700C>T	c.(700-702)CGC>TGC	p.R234C	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCGGGCCGCCGCAAGGCCTT	0.592													89	231					0	0	1	0	0		T	29408492	T	T	29408492	3	4	153	1	0	0	0	0	1	0	0	0	10917	652	23	1	702	1	OR10C1	6	29408492	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1181073	29408492	141706575	559	82491											
CLIC1	1192	broad.mit.edu	37	chr6	31704062	31704062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacgaacaattcgacctgcgGttgttcttcagccatggttg	8	12	10	11	3	2	0	1	0	1	0	3	2	2	0	2	2	3	3	2	2	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:31704062G>A	uc003nwr.2	-	1	280	c.16C>T	c.(16-18)CCG>TCG	p.P6S	CLIC1_uc003rje.2_Missense_Mutation_p.P6S	NM_001288	NP_001279	O00299	CLIC1_HUMAN	chloride intracellular channel 1	6	Required for insertion into the membrane.				signal transduction	brush border|chloride channel complex|cytoplasm|membrane fraction|nuclear membrane|plasma membrane|soluble fraction	protein binding|voltage-gated chloride channel activity			ovary(1)|central_nervous_system(1)	2						TCGACCTGCGGTTGTTCTTCA	0.597													16	49					0	0	1	0	0		A	31704062	A	A	31704062	3	1	153	1	0	0	0	0	1	0	0	0	3528	1261	44	4	733	4	CLIC1	6	31704062	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2295570	31704062	139411005	560	82492											
NEU1	4758	broad.mit.edu	37	chr6	31829855	31829855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctcgcctcagcaaaggcGagaagagtgccccgcggagt	9	6	13	13	4	1	2	1	0	0	2	3	4	2	3	4	2	2	1	4	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:31829855G>A	uc003nxq.3	-	2	429	c.273C>T	c.(271-273)CTC>CTT	p.L91L	NEU1_uc010jtg.2_RNA|NEU1_uc003nxr.3_RNA|NEU1_uc010jth.2_Intron|NEU1_uc003nxs.3_Silent_p.L91L	NM_000434	NP_000425	Q99519	NEUR1_HUMAN	neuraminidase precursor	91			L -> R (in SIALIDOSIS; type 2).			cytoplasmic membrane-bounded vesicle|lysosomal lumen|lysosomal membrane|plasma membrane	exo-alpha-sialidase activity|protein binding			ovary(1)	1					Oseltamivir(DB00198)|Zanamivir(DB00558)	CAGCAAAGGCGAGAAGAGTGC	0.592													11	54					0	0	1	0	0		A	31829855	A	A	31829855	2	1	153	1	0	0	0	0	0	0	0	1	10360	1045	37	1		1	NEU1	6	31829855	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	125793	31829855	139285212	561	82493											
PRRT1	80863	broad.mit.edu	37	chr6	32117390	32117390	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcaccgcgatgggcatgTagtcgtgtggcgggcgcctc	5	8	16	12	5	1	0	1	0	0	0	3	1	1	0	2	3	1	3	2	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:32117390T>C	uc003nzt.2	-	3	784	c.668A>G	c.(667-669)TAC>TGC	p.Y223C	PRRT1_uc003nzs.2_Missense_Mutation_p.Y264C|PRRT1_uc003nzu.2_Silent_p.L115L	NM_030651	NP_085154	Q99946	PRRT1_HUMAN	NG5 protein	223					response to biotic stimulus	integral to membrane				breast(1)	1						GATGGGCATGTAGTCGTGTGG	0.682													7	46					0	0	1	0	0		C	32117390	C	C	32117390	3	2	153	1	0	0	0	0	1	0	0	0	12631	1638	57	3	260	3	PRRT1	6	32117390	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	287535	32117390	138997677	562	82494											
AGPAT1	10554	broad.mit.edu	37	chr6	32137211	32137211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcactgggggcagcacccGcacctgacattgtcctgggg	6	6	16	13	1	0	1	0	1	0	0	1	1	1	1	3	5	1	4	3	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:32137211G>A	uc003oae.2	-	7	1012	c.694C>T	c.(694-696)CGG>TGG	p.R232W	PPT2_uc003nzy.1_RNA|AGPAT1_uc011dpj.1_RNA|AGPAT1_uc011dpk.1_Missense_Mutation_p.R196W|AGPAT1_uc003oaf.2_Missense_Mutation_p.R232W|AGPAT1_uc003oag.2_Missense_Mutation_p.R122W|AGPAT1_uc003oah.2_Missense_Mutation_p.R232W|AGPAT1_uc003oai.1_Missense_Mutation_p.R232W|AGPAT1_uc011dpl.1_Missense_Mutation_p.R120W	NM_006411	NP_006402	Q99943	PLCA_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 1	232					energy reserve metabolic process|phosphatidic acid biosynthetic process|positive regulation of cellular metabolic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			central_nervous_system(1)	1						GGCAGCACCCGCACCTGACAT	0.617													17	68					0	0	1	0	0		A	32137211	A	A	32137211	3	1	153	1	0	0	0	0	1	0	0	0	386	1086	38	1	161	1	AGPAT1	6	32137211	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	19821	32137211	138977856	563	82495											
TAP2	6891	broad.mit.edu	37	chr6	32803500	32803500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccggatccgcaagttgattCgagacatggtgtaggtgaag	10	9	14	8	3	0	3	0	2	0	1	2	5	1	4	2	3	0	3	2	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:32803500C>T	uc003occ.2	-	3	690	c.659G>A	c.(658-660)CGA>CAA	p.R220Q	TAP2_uc011dqf.1_Missense_Mutation_p.R220Q|TAP2_uc003ocb.1_Missense_Mutation_p.R220Q|TAP2_uc003ocd.2_Missense_Mutation_p.R220Q	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	220	Cytoplasmic (Potential).|ABC transmembrane type-1.				antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						CAAGTTGATTCGAGACATGGT	0.587													16	61					0	0	1	0	0		T	32803500	T	T	32803500	3	4	153	1	0	0	0	0	1	0	0	0	15576	884	31	1	1522	1	TAP2	6	32803500	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	666289	32803500	138311567	564	82496											
KIFC1	3833	broad.mit.edu	37	chr6	33373357	33373357	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcagggccagggagtgaGgagctcactgtcaccaatgc	9	6	15	11	1	2	1	2	1	0	0	2	3	2	3	2	3	3	2	2	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:33373357G>T	uc003oef.3	+	7	1935	c.1485G>T	c.(1483-1485)GAG>GAT	p.E495D	KIFC1_uc011drf.1_Missense_Mutation_p.E487D	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	495	Kinesin-motor.				blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						CAGGGAGTGAGGAGCTCACTG	0.587													11	24					4.68919e-08	4.87375e-08	1	1	0		T	33373357	T	T	33373357	3	4	153	1	0	0	0	0	1	0	0	0	8328	991	35	5	1511	5	KIFC1	6	33373357	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	569857	33373357	137741710	565	82497											
ITPR3	3710	broad.mit.edu	37	chr6	33643506	33643506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaggtggatgacgagggcgGccgcatgttcctgcgcgtgc	5	7	19	10	5	0	1	0	1	0	0	1	4	1	3	2	5	2	2	2	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:33643506G>A	uc011drk.1	+	25	3374	c.3155G>A	c.(3154-3156)GGC>GAC	p.G1052D		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1052	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GACGAGGGCGGCCGCATGTTC	0.647													12	33					0	0	1	0	0		A	33643506	A	A	33643506	3	1	153	1	0	0	0	0	1	0	0	0	7938	1203	42	2	3253	2	ITPR3	6	33643506	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	270149	33643506	137471561	566	82498											
GRM4	2914	broad.mit.edu	37	chr6	34101128	34101128	+	Missense_Mutation	SNP	A	T	T	1	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	ggaacaggcctcccagtgtgAtgtccccatctatgcggatg	8	9	12	12	1	1	1	0	1	1	0	3	3	3	3	4	3	2	0	4	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:34101128A>T	uc003oir.3	-	1	316	c.146T>A	c.(145-147)ATC>AAC	p.I49N	GRM4_uc011dsn.1_Missense_Mutation_p.I49N|GRM4_uc010jvh.2_Missense_Mutation_p.I49N|GRM4_uc010jvi.2_5'UTR|GRM4_uc010jvk.1_5'UTR	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	49	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TCCCAGTGTGATGTCCCCATC	0.602													9	42					0	0	1	0	0		T	34101128	T	T	34101128	3	4	153	1	0	0	0	0	1	0	0	0	6815	333	12	5	2632	5	GRM4	6	34101128	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	457622	34101128	137013939	567	82499											
PACSIN1	29993	broad.mit.edu	37	chr6	34499507	34499507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgactccaagggagtgcgcGtgcgggcactctacgactat	9	7	13	12	5	1	0	0	0	1	0	2	3	2	1	1	2	3	1	1	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:34499507G>A	uc003ojo.2	+	9	1374	c.1168G>A	c.(1168-1170)GTG>ATG	p.V390M	PACSIN1_uc003ojp.2_Missense_Mutation_p.V390M	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	390	SH3.				endocytosis		protein kinase activity				0						GGGAGTGCGCGTGCGGGCACT	0.662													44	129					0	0	1	0	0		A	34499507	A	A	34499507	3	1	153	1	0	0	0	0	1	0	0	0	11393	1145	40	1	1198	1	PACSIN1	6	34499507	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	398379	34499507	136615560	568	82500											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34804017	34804017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaacagcagcagcagcCgcctcagccagtactttgag	12	5	10	14	1	1	1	1	1	0	0	1	1	1	1	3	0	8	5	3	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:34804017C>T	uc003oju.3	+	8	1159	c.925C>T	c.(925-927)CGC>TGC	p.R309C	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	309										ovary(3)	3						CAGCAGCAGCCGCCTCAGCCA	0.567													23	72					0	0	1	0	0		T	34804017	T	T	34804017	3	4	153	1	0	0	0	0	1	0	0	0	16994	652	23	1	955	1	UHRF1BP1	6	34804017	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	304510	34804017	136311050	569	82501											
PPARD	5467	broad.mit.edu	37	chr6	35392439	35392439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagttcctgcgcagcctcCgcaaacccttcagtgatatc	8	10	9	14	2	1	2	1	2	0	0	4	2	3	2	4	0	3	3	4	0	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:35392439C>T	uc003okm.2	+	7	1270	c.961C>T	c.(961-963)CGC>TGC	p.R321C	PPARD_uc003okl.2_Missense_Mutation_p.R321C|PPARD_uc003okn.2_Missense_Mutation_p.R321C|PPARD_uc011dtb.1_Missense_Mutation_p.R282C|PPARD_uc011dtc.1_Missense_Mutation_p.R223C	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	321	Ligand-binding.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	GCGCAGCCTCCGCAAACCCTT	0.547													9	35					0	0	1	0	0		T	35392439	T	T	35392439	3	4	153	1	0	0	0	0	1	0	0	0	12317	652	23	1	996	1	PPARD	6	35392439	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	588422	35392439	135722628	570	82502											
ETV7	51513	broad.mit.edu	37	chr6	36343699	36343699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttggtgaggatgcagagggCgcgtccgttcatctcgaacc	7	9	14	11	4	2	2	1	1	1	1	4	4	3	3	2	3	2	2	2	3	1	2	rs9394345	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:36343699C>T	uc003omb.2	-	3	405	c.256G>A	c.(256-258)GCC>ACC	p.A86T	ETV7_uc003olz.1_Missense_Mutation_p.A86T|ETV7_uc003oma.1_Intron|ETV7_uc010jwg.2_RNA|ETV7_uc003omc.2_Intron|ETV7_uc010jwj.2_Missense_Mutation_p.R13H|ETV7_uc010jwh.2_Missense_Mutation_p.A5T|ETV7_uc010jwi.2_Missense_Mutation_p.A86T|ETV7_uc011dtl.1_Intron	NM_016135	NP_057219	Q9Y603	ETV7_HUMAN	ets variant 7	86	PNT.				organ morphogenesis|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						ATGCAGAGGGCGCGTCCGTTC	0.642													21	85					0	0	1	0	0		T	36343699	T	T	36343699	3	4	153	1	0	0	0	0	1	0	0	0	5292	768	27	1	793	1	ETV7	6	36343699	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	951260	36343699	134771368	571	82503											
DNAH8	1769	broad.mit.edu	37	chr6	38976649	38976649	+	Missense_Mutation	SNP	A	G	G	1	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	taccaacattcaacccaaagAgagtggaggtggtgtgggag	13	7	14	7	0	1	1	1	0	0	1	1	4	1	3	2	4	3	0	2	4	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:38976649A>G	uc003ooe.1	+	87	13223	c.12623A>G	c.(12622-12624)GAG>GGG	p.E4208G		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CAACCCAAAGAGAGTGGAGGT	0.423													7	334					0	0	1	0	0		G	38976649	G	G	38976649	3	3	153	1	0	0	0	0	1	0	0	0	4613	304	11	3	12961	3	DNAH8	6	38976649	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2632950	38976649	132138418	572	82504											
DAAM2	23500	broad.mit.edu	37	chr6	39824082	39824082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctggcctgcagtgaccatgGccccccgcaagaggagccac	8	4	12	17	1	0	2	0	1	0	1	0	3	0	3	7	3	2	2	7	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:39824082G>A	uc003oow.2	+	2	160	c.4G>A	c.(4-6)GCC>ACC	p.A2T	DAAM2_uc010jxc.2_Missense_Mutation_p.A2T|DAAM2_uc003oox.2_Missense_Mutation_p.A2T|DAAM2_uc003oov.3_Missense_Mutation_p.A2T|DAAM2_uc003ooy.3_Missense_Mutation_p.A2T	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	2					actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					AGTGACCATGGCCCCCCGCAA	0.607													2	1					0	0	1	0	0		A	39824082	A	A	39824082	3	1	153	1	0	0	0	0	1	0	0	0	4219	1203	42	2	6	2	DAAM2	6	39824082	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	847433	39824082	131290985	573	82505											
LRFN2	57497	broad.mit.edu	37	chr6	40360464	40360464	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggatcatggtgccgcccaGaatctggctgtgcatggact	8	9	13	11	1	2	1	1	0	1	1	2	3	2	3	2	4	2	2	2	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:40360464G>A	uc003oph.1	-	3	2053	c.1588C>T	c.(1588-1590)CTG>TTG	p.L530L		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	530	Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GTGCCGCCCAGAATCTGGCTG	0.602													10	38					0	0	1	0	0		A	40360464	A	A	40360464	2	1	153	1	0	0	0	0	0	0	0	1	8956	933	33	4		4	LRFN2	6	40360464	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	536382	40360464	130754603	574	82506											
FOXP4	116113	broad.mit.edu	37	chr6	41533592	41533592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagccgatggcagcagcGgcggggccacagggacaact	10	2	17	12	3	0	0	0	0	0	0	0	2	0	1	2	6	4	3	2	6	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:41533592G>A	uc003oql.2	+	2	552	c.94G>A	c.(94-96)GGC>AGC	p.G32S	FOXP4_uc003oqm.2_Missense_Mutation_p.G32S|FOXP4_uc003oqn.2_Missense_Mutation_p.G32S	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	32					embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					TGGCAGCAGCGGCGGGGCCAC	0.622													22	46					0	0	1	0	0		A	41533592	A	A	41533592	3	1	153	1	0	0	0	0	1	0	0	0	6043	1116	39	1	96	1	FOXP4	6	41533592	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1173128	41533592	129581475	575	82507											
MDFI	4188	broad.mit.edu	37	chr6	41613956	41613956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggagggctccctggaggagGcggcaacccccatgccccaa	9	3	14	15	1	0	0	0	0	0	0	1	3	1	3	5	6	2	2	5	6	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:41613956G>A	uc003oqp.3	+	4	498	c.169G>A	c.(169-171)GCG>ACG	p.A57T	MDFI_uc003oqq.3_Missense_Mutation_p.A57T|MDFI_uc010jxn.2_Missense_Mutation_p.A57T	NM_005586	NP_005577	Q99750	MDFI_HUMAN	MyoD family inhibitor	57					cytoplasmic sequestering of transcription factor|dorsal/ventral axis specification|negative regulation of DNA binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of Wnt receptor signaling pathway	cytoplasm|nucleus					0	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)			CCTGGAGGAGGCGGCAACCCC	0.632													6	89					0	0	1	0	0		A	41613956	A	A	41613956	3	1	153	1	0	0	0	0	1	0	0	0	9422	1203	42	2	175	2	MDFI	6	41613956	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	80364	41613956	129501111	576	82508											
USP49	25862	broad.mit.edu	37	chr6	41773695	41773695	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccttgttctggatgagctCcagactccgactaatggagg	8	11	11	11	1	1	2	0	1	1	1	4	5	4	4	3	3	1	2	3	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:41773695C>A	uc003ori.2	-	4	1249	c.1027G>T	c.(1027-1029)GAG>TAG	p.E343*		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	343					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TGGATGAGCTCCAGACTCCGA	0.602													20	34					2.39187e-15	2.54533e-15	1	1	0		A	41773695	A	A	41773695	4	1	153	1	0	0	0	0	0	1	0	0	17106	864	30	5	911	5	USP49	6	41773695	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	159739	41773695	129341372	577	82509											
TRERF1	55809	broad.mit.edu	37	chr6	42227276	42227276	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aggtggtccccgaggacgcgCggggagcgcagctggctctg	5	5	19	12	5	1	0	0	0	1	0	2	3	2	2	2	6	2	3	2	6	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:42227276C>T	uc003osd.2	-	9	2633	c.2070G>A	c.(2068-2070)CCG>CCA	p.P690P	TRERF1_uc011duq.1_Silent_p.P607P|TRERF1_uc003osb.2_Silent_p.P446P|TRERF1_uc003osc.2_Silent_p.P446P|TRERF1_uc003ose.2_Silent_p.P710P	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	690	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CGAGGACGCGCGGGGAGCGCA	0.726													9	29					0	0	1	0	0		T	42227276	T	T	42227276	2	4	153	1	0	0	0	0	0	0	0	1	16501	755	27	1		1	TRERF1	6	42227276	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	453581	42227276	128887791	578	82510											
CUL7	9820	broad.mit.edu	37	chr6	43010580	43010580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcttcagcaaggctcccGcacagccattttgcagcgcc	8	7	11	15	2	1	0	1	0	0	0	2	1	2	1	3	2	5	5	3	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:43010580G>A	uc003otq.2	-	19	3908	c.3605C>T	c.(3604-3606)GCG>GTG	p.A1202V	CUL7_uc010jyg.2_Missense_Mutation_p.A481V|CUL7_uc011dvb.1_Missense_Mutation_p.A1286V|CUL7_uc010jyh.2_Missense_Mutation_p.A195V|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	1202					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			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)			CAAGGCTCCCGCACAGCCATT	0.547													6	14					0	0	1	0	0		A	43010580	A	A	43010580	3	1	153	1	0	0	0	0	1	0	0	0	4063	1087	38	1	1523	1	CUL7	6	43010580	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	783304	43010580	128104487	579	82511											
TTBK1	84630	broad.mit.edu	37	chr6	43222808	43222808	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggaatgtggccgggtttCgaggaacggttcgctatgcc	6	10	15	10	5	0	0	0	0	0	0	3	3	0	2	2	5	2	3	2	5	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:43222808C>T	uc003ouq.1	+	7	877	c.598C>T	c.(598-600)CGA>TGA	p.R200*		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	200	Protein kinase.					cell junction|cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	9			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0125)|OV - Ovarian serous cystadenocarcinoma(102;0.0399)			GGCCGGGTTTCGAGGAACGGT	0.607													24	55					0	0	1	0	0		T	43222808	T	T	43222808	4	4	153	1	0	0	0	0	0	1	0	0	16702	876	31	1	620	1	TTBK1	6	43222808	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	212228	43222808	127892259	580	82512											
RSPH9	221421	broad.mit.edu	37	chr6	43612906	43612906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcctcagcccggaccGtcgggcctcgctgctcacgt	4	6	14	17	5	2	0	2	0	0	0	4	1	2	1	4	3	2	3	4	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:43612906G>A	uc003ovw.1	+	1	97	c.71G>A	c.(70-72)CGT>CAT	p.R24H	RSPH9_uc003ovx.1_Missense_Mutation_p.R24H	NM_152732	NP_689945	Q9H1X1	RSPH9_HUMAN	radial spoke head 9 homolog	24					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton				upper_aerodigestive_tract(1)|skin(1)	2						AGCCCGGACCGTCGGGCCTCG	0.662									Kartagener_syndrome				16	34					0	0	1	0	0		A	43612906	A	A	43612906	3	1	153	1	0	0	0	0	1	0	0	0	13733	1145	40	1	73	1	RSPH9	6	43612906	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	390098	43612906	127502161	581	82513											
SLC29A1	2030	broad.mit.edu	37	chr6	44198398	44198398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttacctgggcctgccccGcctggtgagtaaatggaggg	6	9	15	11	1	0	1	0	1	0	0	0	2	0	2	5	4	2	2	5	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:44198398G>A	uc003owu.1	+	7	1012	c.683G>A	c.(682-684)CGC>CAC	p.R228H	SLC29A1_uc003owv.1_Missense_Mutation_p.R228H|SLC29A1_uc003oww.1_Missense_Mutation_p.R307H|SLC29A1_uc003owx.1_Missense_Mutation_p.R228H|SLC29A1_uc003owy.1_Missense_Mutation_p.R228H|SLC29A1_uc003owz.1_Missense_Mutation_p.R228H	NM_004955	NP_004946	Q99808	S29A1_HUMAN	equilibrative nucleoside transporter 1	228	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|basolateral plasma membrane|integral to plasma membrane|membrane fraction	nucleoside transmembrane transporter activity|protein binding			large_intestine(2)|skin(1)	3	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)		Troglitazone(DB00197)	GGCCTGCCCCGCCTGGTGAGT	0.557													14	31					0	0	1	0	0		A	44198398	A	A	44198398	3	1	153	1	0	0	0	0	1	0	0	0	14559	1087	38	1	705	1	SLC29A1	6	44198398	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	585492	44198398	126916669	582	82514											
CRISP1	167	broad.mit.edu	37	chr6	49825053	49825053	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaaccctcacatactttcaTggacaacataggcagtaagc	14	8	6	13	0	2	0	2	0	0	0	2	1	2	1	2	2	4	2	2	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:49825053T>C	uc003ozw.2	-	2	140	c.61A>G	c.(61-63)ATG>GTG	p.M21V	CRISP1_uc003ozx.2_Missense_Mutation_p.M21V	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1	21					fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					CATACTTTCATGGACAACATA	0.244													16	48					0	0	1	0	0		C	49825053	C	C	49825053	3	2	153	1	0	0	0	0	1	0	0	0	3882	1464	51	3	716	3	CRISP1	6	49825053	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5626655	49825053	121290014	583	82515											
PKHD1	5314	broad.mit.edu	37	chr6	51892954	51892954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgcaagtggtcacctcacCcttgtgagtgaatgctgacc	10	10	10	11	0	2	3	2	3	0	0	2	3	2	3	3	1	2	2	3	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:51892954C>T	uc003pah.1	-	30	3836	c.3560G>A	c.(3559-3561)GGG>GAG	p.G1187E	PKHD1_uc003pai.2_Missense_Mutation_p.G1187E	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1187	Extracellular (Potential).|IPT/TIG 6; atypical.				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GTCACCTCACCCTTGTGAGTG	0.468													25	258					0	0	1	0	0		T	51892954	T	T	51892954	3	4	153	1	0	0	0	0	1	0	0	0	11990	637	22	4	8855	4	PKHD1	6	51892954	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2067901	51892954	119222113	584	82516											
ICK	22858	broad.mit.edu	37	chr6	52883237	52883237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatgatgcagcccaccGcccagacgtcaatgggggag	9	5	13	14	2	1	2	1	1	0	1	1	3	1	3	4	2	3	1	4	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:52883237G>A	uc003pbh.2	-	8	1044	c.554C>T	c.(553-555)GCG>GTG	p.A185V	ICK_uc003pbi.2_Missense_Mutation_p.A185V|ICK_uc003pbj.2_Missense_Mutation_p.A185V	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	185	Protein kinase.				intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding	p.A185A(1)		ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					GCAGCCCACCGCCCAGACGTC	0.512													55	176					0	0	1	0	0		A	52883237	A	A	52883237	3	1	153	1	0	0	0	0	1	0	0	0	7500	1087	38	1	1376	1	ICK	6	52883237	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	990283	52883237	118231830	585	82517											
COL21A1	81578	broad.mit.edu	37	chr6	56047377	56047377	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagaattctgaagaagcaGcaccaaaaccatgcagagaa	19	4	8	10	0	1	4	0	1	1	3	1	5	1	4	2	0	4	3	2	0	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:56047377G>A	uc003pcs.2	-	2	272	c.40C>T	c.(40-42)CTG>TTG	p.L14L	COL21A1_uc003pct.1_RNA|COL21A1_uc011dxi.1_Silent_p.L14L|COL21A1_uc003pcu.1_Silent_p.L14L	NM_030820	NP_110447	Q96P44	COLA1_HUMAN	collagen, type XXI, alpha 1 precursor	14					cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(2)	2	Lung NSC(77;0.0483)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGAAGAAGCAGCACCAAAACC	0.353													3	14					0	0	1	0	0		A	56047377	A	A	56047377	2	1	153	1	0	0	0	0	0	0	0	1	3683	962	34	2		2	COL21A1	6	56047377	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3164140	56047377	115067690	586	82518											
DST	667	broad.mit.edu	37	chr6	56382024	56382024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgcttttcctcttcactgCatgcggtcatgattttatgc	6	18	7	10	1	3	1	2	1	1	0	4	1	4	1	1	1	4	2	1	1	1	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:56382024C>T	uc003pdf.2	-	65	12000	c.11972G>A	c.(11971-11973)TGC>TAC	p.C3991Y	DST_uc003pcz.3_Missense_Mutation_p.C3813Y|DST_uc011dxj.1_Missense_Mutation_p.C3842Y|DST_uc011dxk.1_Missense_Mutation_p.C3853Y|DST_uc003pcy.3_Missense_Mutation_p.C3487Y	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5899	Spectrin 10.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CTCTTCACTGCATGCGGTCAT	0.388													63	261					0	0	1	0	0		T	56382024	T	T	56382024	3	4	153	1	0	0	0	0	1	0	0	0	4789	710	25	2	5187	2	DST	6	56382024	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	334647	56382024	114733043	587	82519											
DST	667	broad.mit.edu	37	chr6	56489995	56489995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgaactctgcattcttcggCgtttcactggagatttttgt	6	17	9	9	2	3	2	1	1	2	1	4	3	3	2	0	2	2	2	0	2	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:56489995C>T	uc003pdf.2	-	34	4719	c.4691G>A	c.(4690-4692)CGC>CAC	p.R1564H	DST_uc003pcz.3_Missense_Mutation_p.R1386H|DST_uc011dxj.1_Missense_Mutation_p.R1415H|DST_uc011dxk.1_Missense_Mutation_p.R1426H|DST_uc003pcy.3_Missense_Mutation_p.R1060H|DST_uc003pdb.2_Missense_Mutation_p.R1060H|DST_uc003pdc.3_Missense_Mutation_p.R1060H|DST_uc003pdd.3_Missense_Mutation_p.R1060H	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	1386	Nuclear localization signal; in isoform 6 (By similarity).				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CATTCTTCGGCGTTTCACTGG	0.363													55	247					0	0	1	0	0		T	56489995	T	T	56489995	3	4	153	1	0	0	0	0	1	0	0	0	4789	768	27	1	17232	1	DST	6	56489995	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	107971	56489995	114625072	588	82520											
DST	667	broad.mit.edu	37	chr6	56501366	56501366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctcacatacctcgaaatacgCtgtgttctcctttatgtgct	8	15	6	12	2	2	0	1	0	1	0	4	1	2	0	2	0	3	3	2	0	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:56501366C>T	uc003pdf.2	-	22	2978	c.2950G>A	c.(2950-2952)GCG>ACG	p.A984T	DST_uc003pcz.3_Missense_Mutation_p.A806T|DST_uc011dxj.1_Missense_Mutation_p.A835T|DST_uc011dxk.1_Missense_Mutation_p.A846T|DST_uc003pcy.3_Missense_Mutation_p.A480T|DST_uc003pdb.2_Missense_Mutation_p.A480T|DST_uc003pdc.3_Missense_Mutation_p.A480T|DST_uc003pdd.3_Missense_Mutation_p.A480T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	806					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			TCGAAATACGCTGTGTTCTCC	0.408													33	144					0	0	1	0	0		T	56501366	T	T	56501366	3	4	153	1	0	0	0	0	1	0	0	0	4789	797	28	2	19021	2	DST	6	56501366	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	11371	56501366	114613701	589	82521											
KIAA1586	57691	broad.mit.edu	37	chr6	56917509	56917509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttcctaaaatgccaaaacGacagggtgattttttgcatt	12	14	8	7	1	0	1	0	1	0	0	1	2	1	1	2	1	3	2	2	1	4	6	rs147392367		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:56917509G>A	uc003pdj.2	+	4	382	c.212G>A	c.(211-213)CGA>CAA	p.R71Q	KIAA1586_uc011dxm.1_Missense_Mutation_p.R44Q	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	71							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			ATGCCAAAACGACAGGGTGAT	0.303													17	75					0	0	1	0	0		A	56917509	A	A	56917509	3	1	153	1	0	0	0	0	1	0	0	0	8261	1058	37	1	226	1	KIAA1586	6	56917509	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	416143	56917509	114197558	590	82522											
COL9A1	1297	broad.mit.edu	37	chr6	70944498	70944498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgcccaccactcaccGgagggccctggacaccaggc	9	3	12	17	1	1	0	1	0	0	0	1	3	1	2	5	4	2	1	5	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:70944498G>A	uc003pfg.3	-	34	2417	c.2258C>T	c.(2257-2259)CCG>CTG	p.P753L	COL9A1_uc003pfe.3_Missense_Mutation_p.P302L|COL9A1_uc003pff.3_Missense_Mutation_p.P510L	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	753	Triple-helical region (COL2).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						ACCACTCACCGGAGGGCCCTG	0.612													8	28					0	0	1	0	0		A	70944498	A	A	70944498	3	1	153	1	0	0	0	0	1	0	0	0	3710	1130	39	1	527	1	COL9A1	6	70944498	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	14026989	70944498	100170569	591	82523											
OGFRL1	79627	broad.mit.edu	37	chr6	72011140	72011140	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcttaaaagccttggtgaGcttggatatgaaagttttaa	13	15	9	4	0	1	2	0	2	1	0	1	3	1	3	1	2	2	2	1	2	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:72011140G>A	uc003pfx.1	+	7	907	c.744G>A	c.(742-744)GAG>GAA	p.E248E		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	248						membrane	receptor activity				0						GCCTTGGTGAGCTTGGATATG	0.373													135	463					0	0	1	0	0		A	72011140	A	A	72011140	2	1	153	1	0	0	0	0	0	0	0	1	10863	962	34	2		2	OGFRL1	6	72011140	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1066642	72011140	99103927	592	82524											
COL12A1	1303	broad.mit.edu	37	chr6	75875263	75875263	+	Silent	SNP	A	G	G	1	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	gtcaaaggttctccttctccActgctgtaagtggcaaatac	10	12	8	11	0	3	0	1	0	2	0	5	0	3	0	2	2	2	4	2	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:75875263A>G	uc003phs.2	-	14	3109	c.2943T>C	c.(2941-2943)AGT>AGC	p.S981S	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	981	Fibronectin type-III 6.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTCCTTCTCCACTGCTGTAAG	0.438													53	180					0	0	1	0	0		G	75875263	G	G	75875263	2	3	153	1	0	0	0	0	0	0	0	1	3672	156	6	3		3	COL12A1	6	75875263	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3864123	75875263	95239804	593	82525											
TMEM30A	55754	broad.mit.edu	37	chr6	75968604	75968604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaggtaatgctgcagtacGcatccaaacaataaaatcct	16	9	7	9	1	0	0	0	0	0	0	2	0	2	0	2	1	4	6	2	1	7	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:75968604G>A	uc003phw.2	-	6	1062	c.784C>T	c.(784-786)CGT>TGT	p.R262C	TMEM30A_uc003phx.2_Missense_Mutation_p.R226C	NM_018247	NP_060717	Q9NV96	CC50A_HUMAN	transmembrane protein 30A isoform 1	262						integral to membrane					0						GCTGCAGTACGCATCCAAACA	0.383													38	120					0	0	1	0	0		A	75968604	A	A	75968604	3	1	153	1	0	0	0	0	1	0	0	0	16178	1087	38	1	309	1	TMEM30A	6	75968604	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	93341	75968604	95146463	594	82526											
SENP6	26054	broad.mit.edu	37	chr6	76425219	76425219	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagctacaggaagatcagaGcaaagagaaaagaaagcata	22	3	11	5	0	1	4	1	0	0	4	1	7	1	5	0	1	4	3	0	1	8	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:76425219G>T	uc003pid.3	+	24	3867	c.3248G>T	c.(3247-3249)AGC>ATC	p.S1083I	SENP6_uc003pie.3_Missense_Mutation_p.S1076I|SENP6_uc010kbf.2_RNA	NM_015571	NP_056386	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6 isoform 1	1083	Protease.				proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)				GAAGATCAGAGCAAAGAGAAA	0.383													38	144					4.3949e-29	4.76272e-29	1	1	0		T	76425219	T	T	76425219	3	4	153	1	0	0	0	0	1	0	0	0	14075	971	34	5	3342	5	SENP6	6	76425219	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	456615	76425219	94689848	595	82527											
MYO6	4646	broad.mit.edu	37	chr6	76623846	76623846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaatgaaccgacagcaacGcttcttccgcatcccattca	12	9	6	14	3	2	2	1	2	1	0	4	3	4	2	3	0	3	3	3	0	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:76623846G>A	uc003pih.1	+	34	3785	c.3506G>A	c.(3505-3507)CGC>CAC	p.R1169H	MYO6_uc003pii.1_Missense_Mutation_p.R1146H|MYO6_uc003pij.1_Missense_Mutation_p.R117H	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1178					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		CGACAGCAACGCTTCTTCCGC	0.498													41	133					0	0	1	0	0		A	76623846	A	A	76623846	3	1	153	1	0	0	0	0	1	0	0	0	10099	1087	38	1	3636	1	MYO6	6	76623846	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	198627	76623846	94491221	596	82528											
MYO6	4646	broad.mit.edu	37	chr6	76624589	76624589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactggcctgactcggaagCgtggtgctgagatcttgcca	8	9	14	10	2	1	3	0	2	1	2	2	5	1	4	2	3	3	1	2	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:76624589C>T	uc003pih.1	+	35	3997	c.3718C>T	c.(3718-3720)CGT>TGT	p.R1240C	MYO6_uc003pii.1_Missense_Mutation_p.R1217C|MYO6_uc003pij.1_Missense_Mutation_p.R188C	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1249					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		GACTCGGAAGCGTGGTGCTGA	0.493													14	50					0	0	1	0	0		T	76624589	T	T	76624589	3	4	153	1	0	0	0	0	1	0	0	0	10099	768	27	1	3852	1	MYO6	6	76624589	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	743	76624589	94490478	597	82529											
IBTK	25998	broad.mit.edu	37	chr6	82933262	82933262	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaaccaaagacagagcaAtgtctttatggtgaagggca	15	7	11	8	0	1	3	0	1	1	2	1	3	1	3	1	2	3	3	1	2	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:82933262A>C	uc003pjl.1	-	8	1546	c.1019T>G	c.(1018-1020)ATT>AGT	p.I340S	IBTK_uc011dyv.1_Missense_Mutation_p.I340S|IBTK_uc011dyw.1_Missense_Mutation_p.I340S|IBTK_uc010kbi.1_Missense_Mutation_p.I34S|IBTK_uc003pjm.2_Missense_Mutation_p.I340S	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	340					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		AGACAGAGCAATGTCTTTATG	0.423													23	109					0	0	1	0	0		C	82933262	C	C	82933262	3	2	153	1	0	0	0	0	1	0	0	0	7492	101	4	5	3130	5	IBTK	6	82933262	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	6308673	82933262	88181805	598	82530											
C6orf165	154313	broad.mit.edu	37	chr6	88136278	88136278	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggtgctcaagaagtggaaaTgatgacaaaacagttaggag	16	8	13	4	0	1	3	1	2	0	1	1	5	1	5	0	3	2	2	0	3	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:88136278T>C	uc003plv.2	+	8	967	c.875T>C	c.(874-876)ATG>ACG	p.M292T	C6orf165_uc003plw.2_Missense_Mutation_p.M104T|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.M292T	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	292										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		GAAGTGGAAATGATGACAAAA	0.308													10	42					0	0	1	0	0		C	88136278	C	C	88136278	3	2	153	1	0	0	0	0	1	0	0	0	2344	1464	51	3	901	3	C6orf165	6	88136278	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5203016	88136278	82978789	599	82531											
CNR1	1268	broad.mit.edu	37	chr6	88854388	88854388	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaacaggctgcccacggaGgcagtgaaggaggccgtgac	11	3	17	10	2	0	2	0	2	0	0	0	5	0	5	2	6	2	2	2	6	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:88854388G>T	uc011dzq.1	-	2	4169	c.606C>A	c.(604-606)GCC>GCA	p.A202A	CNR1_uc010kbz.2_Silent_p.A202A|CNR1_uc011dzr.1_Silent_p.A202A|CNR1_uc011dzs.1_Silent_p.A202A|CNR1_uc003pmq.3_Silent_p.A202A|CNR1_uc011dzt.1_Silent_p.A202A|CNR1_uc010kca.2_Silent_p.A169A	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	202	Helical; Name=3; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	TGCCCACGGAGGCAGTGAAGG	0.552													9	32					0.00621372	0.00629527	1	1	0		T	88854388	T	T	88854388	2	4	153	1	0	0	0	0	0	0	0	1	3634	987	35	5		5	CNR1	6	88854388	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	718110	88854388	82260679	600	82532											
USP45	85015	broad.mit.edu	37	chr6	99956514	99956514	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacttgaggcacaaccaaAtatcagaagtaagtactagc	17	7	7	10	0	1	2	1	1	0	1	1	2	1	2	1	1	3	3	1	1	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:99956514A>C	uc003ppx.2	-	3	778	c.245T>G	c.(244-246)ATT>AGT	p.I82S	USP45_uc003ppw.2_5'UTR|USP45_uc003ppy.2_RNA|USP45_uc010kcq.1_Missense_Mutation_p.I82S|USP45_uc003ppz.2_Missense_Mutation_p.I82S|USP45_uc003pqa.2_Missense_Mutation_p.I82S	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	82	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		GCACAACCAAATATCAGAAGT	0.363													19	64					0	0	1	0	0		C	99956514	C	C	99956514	3	2	153	1	0	0	0	0	1	0	0	0	17102	101	4	5	2263	5	USP45	6	99956514	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	11102126	99956514	71158553	601	82533											
SIM1	6492	broad.mit.edu	37	chr6	100838779	100838779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agccagttggtctgagggggCtttccttagctgtaatctgt	6	14	13	8	0	2	1	0	1	2	0	3	1	3	1	2	3	2	4	2	3	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:100838779C>T	uc003pqj.3	-	11	1966	c.1759G>A	c.(1759-1761)GCC>ACC	p.A587T	SIM1_uc010kcu.2_Missense_Mutation_p.A587T	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	587	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TCTGAGGGGGCTTTCCTTAGC	0.453													42	128					0	0	1	0	0		T	100838779	T	T	100838779	3	4	153	1	0	0	0	0	1	0	0	0	14348	797	28	2	545	2	SIM1	6	100838779	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	882265	100838779	70276288	602	82534											
ASCC3	10973	broad.mit.edu	37	chr6	101037604	101037604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttcaaatagtaataggagGcaattcggccataagttaga	15	10	10	6	1	1	1	1	0	0	1	2	2	1	2	1	3	0	4	1	3	7	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:101037604G>A	uc003pqk.2	-	36	5785	c.5456C>T	c.(5455-5457)GCC>GTC	p.A1819V		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1819	SEC63 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		GTAATAGGAGGCAATTCGGCC	0.343													39	169					0	0	1	0	0		A	101037604	A	A	101037604	3	1	153	1	0	0	0	0	1	0	0	0	1034	1203	42	2	1180	2	ASCC3	6	101037604	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	198825	101037604	70077463	603	82535											
ASCC3	10973	broad.mit.edu	37	chr6	101315870	101315870	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctgtgagacgaggtaaagCcatctattattcaatcagtg	12	12	9	8	1	3	1	2	1	1	1	4	3	4	1	2	1	1	1	2	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:101315870C>A	uc003pqk.2	-	2	333	c.4G>T	c.(4-6)GCT>TCT	p.A2S	ASCC3_uc011eai.1_5'UTR|ASCC3_uc003pql.2_Missense_Mutation_p.A2S|ASCC3_uc010kcv.2_Missense_Mutation_p.A2S|ASCC3_uc003pqm.2_Missense_Mutation_p.A2S	NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	2					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CGAGGTAAAGCCATCTATTAT	0.373													11	54					0.00829132	0.00839167	1	1	0		A	101315870	A	A	101315870	3	1	153	1	0	0	0	0	1	0	0	0	1034	739	26	5	6867	5	ASCC3	6	101315870	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	278266	101315870	69799197	604	82536											
BEND3	57673	broad.mit.edu	37	chr6	107390422	107390422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccggcacgtggaccttgCgctgctgctggtaggagcgc	4	7	17	13	4	0	0	0	0	0	0	0	2	0	2	2	5	4	5	2	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:107390422C>T	uc003prs.2	-	5	2623	c.1973G>A	c.(1972-1974)CGC>CAC	p.R658H		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	658										ovary(3)	3						GTGGACCTTGCGCTGCTGCTG	0.657													15	51					0	0	1	0	0		T	107390422	T	T	107390422	3	4	153	1	0	0	0	0	1	0	0	0	1400	768	27	1	517	1	BEND3	6	107390422	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6074552	107390422	63724645	605	82537											
SOBP	55084	broad.mit.edu	37	chr6	107908293	107908293	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccttcaggctagagatGaagatggacatgctgaaaat	13	11	10	7	0	1	4	1	2	0	2	2	6	2	5	1	2	1	2	1	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:107908293G>T	uc003prx.2	+	5	1087	c.583G>T	c.(583-585)GAA>TAA	p.E195*	SOBP_uc003prw.1_Nonsense_Mutation_p.E195*	NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	195							metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		GGCTAGAGATGAAGATGGACA	0.373													68	288					4.29146e-36	4.66827e-36	1	1	0		T	107908293	T	T	107908293	4	4	153	1	0	0	0	0	0	1	0	0	14937	1291	45	5	601	5	SOBP	6	107908293	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	517871	107908293	63206774	606	82538											
SLC16A10	117247	broad.mit.edu	37	chr6	111498462	111498462	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggaatcatatttgcctgcgGctgctcctttgcataccagc	7	13	9	12	1	1	0	1	0	0	0	2	1	2	1	3	2	6	3	3	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:111498462G>T	uc003pus.2	+	3	711	c.536G>T	c.(535-537)GGC>GTC	p.G179V	SLC16A10_uc003pur.3_Missense_Mutation_p.G179V|SLC16A10_uc003put.2_5'UTR	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	179	Helical; (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		TTTGCCTGCGGCTGCTCCTTT	0.453													39	108					3.3946e-10	3.5614e-10	1	1	0		T	111498462	T	T	111498462	3	4	153	1	0	0	0	0	1	0	0	0	14428	1203	42	5	546	5	SLC16A10	6	111498462	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3590169	111498462	59616605	607	82539											
ROS1	6098	broad.mit.edu	37	chr6	117706978	117706978	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagccacacaaaaacgtcGcctttcgtgtcactgtagta	12	9	8	12	3	1	0	1	0	0	0	3	0	1	0	2	0	3	3	2	0	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:117706978G>A	uc003pxp.1	-	15	2371	c.2172C>T	c.(2170-2172)GGC>GGT	p.G724G	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	724	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		CAAAAACGTCGCCTTTCGTGT	0.428			T	GOPC|ROS1	glioblastoma|NSCLC								10	125					0	0	1	0	0		A	117706978	A	A	117706978	2	1	153	1	0	0	0	0	0	0	0	1	13556	1074	38	1		1	ROS1	6	117706978	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6208516	117706978	53408089	608	82540											
DCBLD1	285761	broad.mit.edu	37	chr6	117860470	117860470	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaacttttatgttaagagTtttgtgatgaacttcaaaaa	14	17	6	4	0	2	3	2	2	0	1	2	3	2	3	0	0	2	2	0	0	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:117860470T>C	uc003pxs.2	+	9	1154	c.1029T>C	c.(1027-1029)AGT>AGC	p.S343S	GOPC_uc003pxq.1_Intron|DCBLD1_uc003pxr.1_Silent_p.S343S|DCBLD1_uc003pxt.1_5'UTR	NM_173674	NP_775945	Q8N8Z6	DCBD1_HUMAN	discoidin, CUB and LCCL domain containing 1	343	F5/8 type C.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(1)	1		all_cancers(87;0.171)		GBM - Glioblastoma multiforme(226;0.0447)|OV - Ovarian serous cystadenocarcinoma(136;0.0921)|all cancers(137;0.125)		ATGTTAAGAGTTTTGTGATGA	0.308													33	136					0	0	1	0	0		C	117860470	C	C	117860470	2	2	153	1	0	0	0	0	0	0	0	1	4283	1722	60	3		3	DCBLD1	6	117860470	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	153492	117860470	53254597	609	82541											
C6orf170	221322	broad.mit.edu	37	chr6	121412168	121412168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtaattccaaaaacactggGttatccattgcaggcaaatc	15	10	7	9	0	0	0	0	0	0	0	3	0	2	0	2	2	2	4	2	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:121412168G>A	uc003pyo.1	-	31	3553	c.3485C>T	c.(3484-3486)ACC>ATC	p.T1162I		NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	1162	Rab-GAP TBC.				multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		AAAACACTGGGTTATCCATTG	0.284													28	150					0	0	1	0	0		A	121412168	A	A	121412168	3	1	153	1	0	0	0	0	1	0	0	0	2347	1261	44	4	296	4	C6orf170	6	121412168	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3551698	121412168	49702899	610	82542											
HSF2	3298	broad.mit.edu	37	chr6	122743435	122743435	+	Silent	SNP	T	C	C	0	1	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	aatgaggatgttatatctgaTccctccaagtaaggagtttg	12	13	10	6	0	1	2	0	2	1	0	3	4	3	4	2	2	0	3	2	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:122743435T>C	uc003pyu.2	+	8	1009	c.822T>C	c.(820-822)GAT>GAC	p.D274D	HSF2_uc003pyv.2_Silent_p.D274D	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	274					response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		TTATATCTGATCCCTCCAAGT	0.284													67	248					0	0	1	0	0		C	122743435	C	C	122743435	2	2	153	1	0	0	0	0	0	0	0	1	7412	1432	50	3		3	HSF2	6	122743435	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1331267	122743435	48371632	611	82543											
C6orf174	387104	broad.mit.edu	37	chr6	127796999	127796999	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacataagcacgcggttctcGtactgcagctgcatgacctt	9	10	10	12	3	1	1	0	1	1	0	2	2	1	1	1	1	5	6	1	1	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:127796999G>A	uc003qbd.2	-	6	3037	c.2172C>T	c.(2170-2172)TAC>TAT	p.Y724Y	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	724	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CGCGGTTCTCGTACTGCAGCT	0.677													21	81					0	0	1	0	0		A	127796999	A	A	127796999	2	1	153	1	0	0	0	0	0	0	0	1	2348	1140	40	1		1	C6orf174	6	127796999	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5053564	127796999	43318068	612	82544											
PTPRK	5796	broad.mit.edu	37	chr6	128297891	128297891	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacttggatggggccatatcGtagcatcccttcctctggcc	6	11	10	14	1	1	0	0	0	1	0	4	1	3	1	4	4	1	2	4	4	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:128297891G>A	uc003qbk.2	-	27	4244	c.3877C>T	c.(3877-3879)CGA>TGA	p.R1293*	PTPRK_uc003qbj.2_Nonsense_Mutation_p.R1294*|PTPRK_uc010kfc.2_Nonsense_Mutation_p.R1300*|PTPRK_uc011ebu.1_Nonsense_Mutation_p.R1316*	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	1293	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GGGCCATATCGTAGCATCCCT	0.388													20	56					0	0	1	0	0		A	128297891	A	A	128297891	4	1	153	1	0	0	0	0	0	1	0	0	12830	1153	40	1	458	1	PTPRK	6	128297891	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	500892	128297891	42817176	613	82545											
MED23	9439	broad.mit.edu	37	chr6	131914253	131914253	+	Missense_Mutation	SNP	A	T	T	1	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	gcatgggcagctgggttgggAaactcattgaatctccagtc	9	10	13	9	0	2	1	1	1	1	0	4	2	2	2	1	3	2	4	1	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:131914253A>T	uc003qcs.1	-	24	3465	c.3291T>A	c.(3289-3291)TTT>TTA	p.F1097L	MED23_uc003qcq.2_Missense_Mutation_p.F1103L|MED23_uc003qcr.1_5'UTR	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	1097					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		CTGGGTTGGGAAACTCATTGA	0.478													19	72					0	0	1	0	0		T	131914253	T	T	131914253	3	4	153	1	0	0	0	0	1	0	0	0	9459	243	9	5	846	5	MED23	6	131914253	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3616362	131914253	39200814	614	82546											
KIAA1244	57221	broad.mit.edu	37	chr6	138601240	138601240	+	Silent	SNP	A	C	C	1	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	ctcgacaggaacatgcttggAgaggctggctattggggcag	9	8	16	8	1	0	1	0	0	0	1	1	4	0	2	0	6	2	4	0	6	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:138601240A>C	uc003qhu.2	+	14	2400	c.2400A>C	c.(2398-2400)GGA>GGC	p.G800G		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	800					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		ACATGCTTGGAGAGGCTGGCT	0.572													14	40					0	0	1	0	0		C	138601240	C	C	138601240	2	2	153	1	0	0	0	0	0	0	0	1	8233	291	11	5		5	KIAA1244	6	138601240	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	6686987	138601240	32513827	615	82547											
KIAA1244	57221	broad.mit.edu	37	chr6	138632618	138632618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccacagacctgtgcctcccgGccctggattacctcaggcgc	6	7	10	18	2	1	1	1	0	0	1	2	2	2	2	6	3	2	0	6	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:138632618G>A	uc003qhu.2	+	25	4171	c.4171G>A	c.(4171-4173)GCC>ACC	p.A1391T		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1391					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		GTGCCTCCCGGCCCTGGATTA	0.642													3	12					0	0	1	0	0		A	138632618	A	A	138632618	3	1	153	1	0	0	0	0	1	0	0	0	8233	1203	42	2	4269	2	KIAA1244	6	138632618	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	31378	138632618	32482449	616	82548											
SASH1	23328	broad.mit.edu	37	chr6	148865429	148865429	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagcctcctggagctaaacaCggtttagcaaggacgcctct	10	8	10	13	2	1	0	0	0	1	0	2	2	2	2	3	3	4	3	3	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:148865429C>T	uc003qme.1	+	18	3298	c.2823C>T	c.(2821-2823)CAC>CAT	p.H941H	SASH1_uc011eeb.1_Silent_p.H702H|SASH1_uc003qmf.1_Silent_p.H351H	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	941							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		GAGCTAAACACGGTTTAGCAA	0.557													20	92					0	0	1	0	0		T	148865429	T	T	148865429	2	4	153	1	0	0	0	0	0	0	0	1	13873	535	19	1		1	SASH1	6	148865429	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	10232811	148865429	22249638	617	82549											
UST	10090	broad.mit.edu	37	chr6	149342593	149342593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacctcattacttcaagggcGtgctcagtatctacaaagac	12	11	7	11	1	4	1	3	0	1	1	4	1	4	1	1	1	4	2	1	1	6	5	rs141035429		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:149342593G>A	uc003qmg.2	+	7	1209	c.913G>A	c.(913-915)GTG>ATG	p.V305M		NM_005715	NP_005706	Q9Y2C2	UST_HUMAN	uronyl-2-sulfotransferase	305	Lumenal (Potential).				protein sulfation	Golgi membrane|integral to membrane	sulfotransferase activity			ovary(2)	2		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.78e-10)|GBM - Glioblastoma multiforme(68;0.138)		CTTCAAGGGCGTGCTCAGTAT	0.463													43	123					0	0	1	0	0		A	149342593	A	A	149342593	3	1	153	1	0	0	0	0	1	0	0	0	17119	1145	40	1	939	1	UST	6	149342593	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	477164	149342593	21772474	618	82550											
C6orf97	80129	broad.mit.edu	37	chr6	151869460	151869460	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagagacctgcgcaaagaaAatgaattcgtgaaaggacaa	18	7	10	6	2	0	4	0	2	0	2	1	6	0	5	1	1	1	1	1	1	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:151869460A>G	uc003qol.2	+	5	699	c.610A>G	c.(610-612)AAT>GAT	p.N204D		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	204	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GCGCAAAGAAAATGAATTCGT	0.368													10	53					0	0	1	0	0		G	151869460	G	G	151869460	3	3	153	1	0	0	0	0	1	0	0	0	2377	14	1	3	628	3	C6orf97	6	151869460	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2526867	151869460	19245607	619	82551											
NOX3	50508	broad.mit.edu	37	chr6	155776222	155776222	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcttcataccagtagaaCgtgtcaataaacagataaaa	17	10	5	9	1	3	2	2	0	1	2	4	2	4	2	2	0	3	1	2	0	8	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:155776222C>T	uc003qqm.2	-	2	193	c.90G>A	c.(88-90)ACG>ACA	p.T30T		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	30	Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		ACCAGTAGAACGTGTCAATAA	0.328													14	62					0	0	1	0	0		T	155776222	T	T	155776222	2	4	153	1	0	0	0	0	0	0	0	1	10576	523	19	1		1	NOX3	6	155776222	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3906762	155776222	15338845	620	82552											
ARID1B	57492	broad.mit.edu	37	chr6	157522175	157522175	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaacaggcagggccctggcGgccctacacaggcgccccct	8	3	13	17	2	0	1	0	0	0	1	0	1	0	1	4	5	2	1	4	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:157522175G>T	uc003qqn.2	+	18	4545	c.4393G>T	c.(4393-4395)GGC>TGC	p.G1465C	ARID1B_uc003qqo.2_Missense_Mutation_p.G1425C|ARID1B_uc003qqp.2_Missense_Mutation_p.G1412C	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1470	Pro-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GGGCCCTGGCGGCCCTACACA	0.592													19	42					1.55795e-14	1.65352e-14	1	1	0		T	157522175	T	T	157522175	3	4	153	1	0	0	0	0	1	0	0	0	914	1116	39	5	4517	5	ARID1B	6	157522175	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1745953	157522175	13592892	621	82553											
ZDHHC14	79683	broad.mit.edu	37	chr6	157803268	157803268	+	Missense_Mutation	SNP	T	G	G	0	1	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	cctgacgctcgtcctcatccTggtcactagcggactcttct	5	12	8	16	3	4	1	2	1	2	0	7	2	6	2	3	2	1	1	3	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:157803268T>G	uc003qqt.2	+	1	712	c.215T>G	c.(214-216)CTG>CGG	p.L72R	ZDHHC14_uc003qqs.2_Missense_Mutation_p.L72R	NM_024630	NP_078906	Q8IZN3	ZDH14_HUMAN	zinc finger, DHHC-type containing 14 isoform 1	72	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|skin(1)	2		Breast(66;0.00586)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.9e-17)|BRCA - Breast invasive adenocarcinoma(81;5.8e-05)		GTCCTCATCCTGGTCACTAGC	0.627													6	48					0	0	1	0	0		G	157803268	G	G	157803268	3	3	153	1	0	0	0	0	1	0	0	0	17629	1580	55	5	217	5	ZDHHC14	6	157803268	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	281093	157803268	13311799	622	82554											
SYNJ2	8871	broad.mit.edu	37	chr6	158449969	158449969	+	Silent	SNP	A	G	G	1	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	tcgggggtgttctatttctcAtggccaaacgatgggtctcg	6	13	13	9	3	3	0	1	0	3	0	6	1	3	0	1	4	1	1	1	4	2	3	rs140060886		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:158449969A>G	uc003qqx.1	+	3	471	c.396A>G	c.(394-396)TCA>TCG	p.S132S	SYNJ2_uc011efm.1_RNA|SYNJ2_uc003qqw.1_Silent_p.S132S|SYNJ2_uc003qqy.1_5'UTR|SYNJ2_uc011efn.1_Silent_p.S81S|SYNJ2_uc010kjo.1_Silent_p.S81S	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	132	SAC.						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		TCTATTTCTCATGGCCAAACG	0.542													7	79					0	0	1	0	0		G	158449969	G	G	158449969	2	3	153	1	0	0	0	0	0	0	0	1	15478	204	8	3		3	SYNJ2	6	158449969	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	646701	158449969	12665098	623	82555											
IGF2R	3482	broad.mit.edu	37	chr6	160412338	160412338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgcacgacttgaagacacGcacttatcattcagtgggta	12	11	9	9	2	2	2	2	1	0	1	2	3	2	2	0	1	1	3	0	1	4	5	rs8191704		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:160412338G>A	uc003qta.2	+	2	420	c.272G>A	c.(271-273)CGC>CAC	p.R91H		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	91	1.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		TTGAAGACACGCACTTATCAT	0.378													5	131					0	0	1	0	0		A	160412338	A	A	160412338	3	1	153	1	0	0	0	0	1	0	0	0	7592	1087	38	1	278	1	IGF2R	6	160412338	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1962369	160412338	10702729	624	82556											
LPA	4018	broad.mit.edu	37	chr6	161014990	161014990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaaaactcaaggttgtacCcatttggataatattctgtt	14	14	7	6	0	2	1	1	0	1	1	2	2	2	2	1	2	2	3	1	2	7	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:161014990C>T	uc003qtl.2	-	23	3749	c.3629G>A	c.(3628-3630)GGT>GAT	p.G1210D		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3718	Kringle 33.				blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	AAGGTTGTACCCATTTGGATA	0.443													27	109					0	0	1	0	0		T	161014990	T	T	161014990	3	4	153	1	0	0	0	0	1	0	0	0	8921	637	22	4	2565	4	LPA	6	161014990	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	602652	161014990	10100077	625	82557											
PLG	5340	broad.mit.edu	37	chr6	161134156	161134156	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcgacattcttgagtgtgaAggtcaggagtggttctagaa	10	12	14	5	1	3	3	1	2	2	1	3	5	3	4	0	3	1	1	0	3	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:161134156A>C	uc003qtm.3	+	5	609	c.546A>C	c.(544-546)GAA>GAC	p.E182D		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	182					extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TTGAGTGTGAAGGTCAGGAGT	0.428													35	145					0	0	1	0	0		C	161134156	C	C	161134156	3	2	153	1	0	0	0	0	1	0	0	0	12105	86	3	5	568	5	PLG	6	161134156	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	119166	161134156	9980911	626	82558											
PLG	5340	broad.mit.edu	37	chr6	161159605	161159605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgtggaggcaccttgatatCcccagagtgggtgttgactg	7	11	14	9	0	0	3	0	2	0	1	1	4	1	4	3	3	0	2	3	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:161159605C>T	uc003qtm.3	+	15	1901	c.1838C>T	c.(1837-1839)TCC>TTC	p.S613F		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	613	Peptidase S1.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	ACCTTGATATCCCCAGAGTGG	0.373													20	113					0	0	1	0	0		T	161159605	T	T	161159605	3	4	153	1	0	0	0	0	1	0	0	0	12105	855	30	4	1900	4	PLG	6	161159605	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	25449	161159605	9955462	627	82559											
QKI	9444	broad.mit.edu	37	chr6	163956101	163956101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaagatgctcagaacagaGcagaaatcaaattgaagaga	19	6	11	5	0	2	6	2	1	0	5	2	8	2	7	0	1	3	2	0	1	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:163956101G>A	uc003qui.2	+	4	1041	c.490G>A	c.(490-492)GCA>ACA	p.A164T	QKI_uc003que.2_Missense_Mutation_p.A164T|QKI_uc003quf.2_Missense_Mutation_p.A164T|QKI_uc003qug.2_Missense_Mutation_p.A164T|QKI_uc003quh.2_Missense_Mutation_p.A164T|QKI_uc003quj.2_Missense_Mutation_p.A164T	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	164					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		TCAGAACAGAGCAGAAATCAA	0.378													17	100					0	0	1	0	0		A	163956101	A	A	163956101	3	1	153	1	0	0	0	0	1	0	0	0	12898	971	34	2	504	2	QKI	6	163956101	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2796496	163956101	7158966	628	82560											
QKI	9444	broad.mit.edu	37	chr6	163984455	163984455	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctttgcttactgtagcagCccttgccttttctcttgcag	4	18	7	12	0	2	0	0	0	2	0	3	0	2	0	2	0	6	4	2	0	2	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:163984455C>G	uc003qui.2	+	6	1189	c.638C>G	c.(637-639)GCC>GGC	p.A213G	QKI_uc003que.2_Missense_Mutation_p.A213G|QKI_uc003quf.2_Missense_Mutation_p.A213G|QKI_uc003qug.2_Missense_Mutation_p.A213G|QKI_uc003quh.2_Intron|QKI_uc003quj.2_Intron	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	213					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		ACTGTAGCAGCCCTTGCCTTT	0.483													10	42					0	0	1	0	0		G	163984455	G	G	163984455	3	3	153	1	0	0	0	0	1	0	0	0	12898	739	26	5	660	5	QKI	6	163984455	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	28354	163984455	7130612	629	82561											
QKI	9444	broad.mit.edu	37	chr6	163987788	163987788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttcgaaggcacgatatgCgtgtccatccttaccaaagg	12	9	10	10	3	0	0	0	0	0	0	3	2	2	0	3	2	2	2	3	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:163987788C>T	uc003qui.2	+	7	1521	c.970C>T	c.(970-972)CGT>TGT	p.R324C	QKI_uc003que.2_3'UTR|QKI_uc003quf.2_3'UTR|QKI_uc003qug.2_3'UTR|QKI_uc003quh.2_3'UTR|QKI_uc003quj.2_Missense_Mutation_p.R316C	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	324	Nuclear localization signal (By similarity).				mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		GCACGATATGCGTGTCCATCC	0.413													12	33					0	0	1	0	0		T	163987788	T	T	163987788	3	4	153	1	0	0	0	0	1	0	0	0	12898	768	27	1	1100	1	QKI	6	163987788	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3333	163987788	7127279	630	82562											
T	6862	broad.mit.edu	37	chr6	166571818	166571818	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgcttcacatggaaggtggCgacacaggtgtccatgaggc	9	8	14	10	1	1	1	1	1	0	0	2	3	2	2	1	5	1	1	1	5	1	1	rs140876874		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:166571818C>T	uc003quu.1	-	9	1786	c.1293G>A	c.(1291-1293)TCG>TCA	p.S431S	T_uc003qut.1_Silent_p.S432S|T_uc003quv.1_Silent_p.S373S	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	431					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TGGAAGGTGGCGACACAGGTG	0.612									Chordoma_Familial_Clustering_of				31	120					0	0	1	0	0		T	166571818	T	T	166571818	2	4	153	1	0	0	0	0	0	0	0	1	15513	755	27	1		1	T	6	166571818	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2584030	166571818	4543249	631	82563											
RNASET2	8635	broad.mit.edu	37	chr6	167352465	167352465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcgcatccacctgggcggCgcaggtcccatgcttttccc	5	8	12	16	3	0	0	0	0	0	0	3	1	3	0	4	3	2	3	4	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:167352465C>T	uc003qve.2	-	6	771	c.364G>A	c.(364-366)GCC>ACC	p.A122T	RNASET2_uc003qvh.2_Intron|RNASET2_uc003qvf.2_Missense_Mutation_p.A30T|RNASET2_uc003qvg.2_Missense_Mutation_p.A59T|RNASET2_uc003qvi.1_Silent_p.A9A	NM_003730	NP_003721	O00584	RNT2_HUMAN	ribonuclease T2 precursor	122					RNA catabolic process	extracellular region	ribonuclease T2 activity|RNA binding				0		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;1.53e-19)|BRCA - Breast invasive adenocarcinoma(81;5.01e-06)|GBM - Glioblastoma multiforme(31;0.00665)		ACCTGGGCGGCGCAGGTCCCA	0.468													27	99					0	0	1	0	0		T	167352465	T	T	167352465	3	4	153	1	0	0	0	0	1	0	0	0	13443	768	27	1	422	1	RNASET2	6	167352465	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	780647	167352465	3762602	632	82564											
SMOC2	64094	broad.mit.edu	37	chr6	168949813	168949813	+	Silent	SNP	T	C	C	0	1	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	tcattttggttcatagatatTgcatcacgttaccctaccct	9	16	5	11	1	3	1	3	0	0	1	3	1	3	1	2	1	3	3	2	1	4	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:168949813T>C	uc003qws.1	+	7	587	c.567T>C	c.(565-567)ATT>ATC	p.I189I	SMOC2_uc003qwr.1_Silent_p.I200I	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	189					signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		TCATAGATATTGCATCACGTT	0.398													37	123					0	0	1	0	0		C	168949813	C	C	168949813	2	2	153	1	0	0	0	0	0	0	0	1	14827	1800	63	3		3	SMOC2	6	168949813	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1597348	168949813	2165254	633	82565											
DLL1	28514	broad.mit.edu	37	chr6	170597466	170597466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtagtgttcgtcacacacGaagcggtaggagtacttgag	11	10	13	7	3	1	1	1	1	0	0	2	3	1	2	0	2	2	4	0	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr6:170597466G>A	uc003qxm.2	-	4	1001	c.531C>T	c.(529-531)TTC>TTT	p.F177F	DLL1_uc011ehc.1_Silent_p.F177F	NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	177	Extracellular (Potential).|DSL.				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		CGTCACACACGAAGCGGTAGG	0.652													11	56					0	0	1	0	0		A	170597466	A	A	170597466	2	1	153	1	0	0	0	0	0	0	0	1	4572	1049	37	1		1	DLL1	6	170597466	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1647653	170597466	517601	634	82566											
SUN1	23353	broad.mit.edu	37	chr7	881705	881705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcaggatgctgtgactcGacggcctcctgtattggacg	6	10	13	12	3	0	1	0	1	0	0	2	4	1	3	3	3	2	3	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:881705G>A	uc011jvp.1	+	4	468	c.389G>A	c.(388-390)CGA>CAA	p.R130Q	SUN1_uc010ksa.1_Missense_Mutation_p.R151Q|SUN1_uc003sje.1_Missense_Mutation_p.R130Q|SUN1_uc003sjf.2_Missense_Mutation_p.R80Q|SUN1_uc011jvq.1_Missense_Mutation_p.R130Q|SUN1_uc003sjg.2_5'Flank	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	130	Nuclear.|LMNA-binding.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						GCTGTGACTCGACGGCCTCCT	0.557													16	38					0	0	1	0	0		A	881705	A	A	881705	3	1	153	1	0	0	0	0	1	0	0	0	15416	1058	37	1	466	1	SUN1	7	881705	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		881705	158256958	635	82567											
FTSJ2	29960	broad.mit.edu	37	chr7	2279097	2279097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaccgccacctgactccagGccccaggagctgccccacag	8	3	10	20	1	0	1	0	1	0	0	1	2	1	2	8	2	2	2	8	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:2279097G>A	uc003slm.2	-	2	283	c.254C>T	c.(253-255)GCC>GTC	p.A85V	FTSJ2_uc003slk.2_5'UTR|FTSJ2_uc003sll.2_5'UTR|FTSJ2_uc003sln.2_RNA|FTSJ2_uc003slo.2_5'UTR|NUDT1_uc003slp.1_5'Flank|NUDT1_uc003slq.1_5'Flank|NUDT1_uc003slr.1_5'Flank|NUDT1_uc003sls.1_5'Flank|NUDT1_uc003slt.1_5'Flank	NM_013393	NP_037525	Q9UI43	RRMJ2_HUMAN	FtsJ homolog 2	85	S-adenosyl-L-methionine binding.				cell proliferation	mitochondrion|nucleolus	nucleic acid binding|rRNA (uridine-2'-O-)-methyltransferase activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.7e-14)		CTGACTCCAGGCCCCAGGAGC	0.647													4	19					0	0	1	0	0		A	2279097	A	A	2279097	3	1	153	1	0	0	0	0	1	0	0	0	6102	1203	42	2	494	2	FTSJ2	7	2279097	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1397392	2279097	156859566	636	82568											
C7orf27	221927	broad.mit.edu	37	chr7	2594050	2594050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagagccgggagcagctgggCgcattctgggtccatggtga	7	7	18	9	2	1	2	0	1	1	1	2	4	2	3	2	4	3	3	2	4	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:2594050C>T	uc003smi.2	-	2	58	c.16G>A	c.(16-18)GCC>ACC	p.A6T	C7orf27_uc003smj.1_Missense_Mutation_p.A6T	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	6					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		AGCAGCTGGGCGCATTCTGGG	0.592													17	36					0	0	1	0	0		T	2594050	T	T	2594050	3	4	153	1	0	0	0	0	1	0	0	0	2385	768	27	1	2501	1	C7orf27	7	2594050	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	314953	2594050	156544613	637	82569											
ACTB	60	broad.mit.edu	37	chr7	5567738	5567738	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacagcactgtgttggcgTacaggtctttgcggatgtcc	7	11	13	10	2	1	1	0	0	1	1	2	2	2	2	1	3	3	3	1	3	1	3	rs11546937		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:5567738T>C	uc003sos.3	-	4	917	c.881A>G	c.(880-882)TAC>TGC	p.Y294C	ACTB_uc003sor.3_Missense_Mutation_p.Y172C|ACTB_uc003sot.3_Missense_Mutation_p.Y294C|ACTB_uc003soq.3_Missense_Mutation_p.Y172C|ACTB_uc010ksy.2_Missense_Mutation_p.Y172C	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	294					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		TGTGTTGGCGTACAGGTCTTT	0.557													57	183					0	0	1	0	0		C	5567738	C	C	5567738	3	2	153	1	0	0	0	0	1	0	0	0	193	1638	57	3	254	3	ACTB	7	5567738	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2973688	5567738	153570925	638	82570											
PMS2	5395	broad.mit.edu	37	chr7	6037037	6037037	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagggggcagctgaacaaaAggaatgaggctttgcaactg	13	7	14	7	0	0	2	0	2	0	0	0	3	0	3	0	4	4	4	0	4	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:6037037A>C	uc003spl.2	-	7	810	c.723T>G	c.(721-723)CCT>CCG	p.P241P	PMS2_uc003spj.2_Silent_p.P135P|PMS2_uc003spk.2_Silent_p.P106P|PMS2_uc011jwl.1_Silent_p.P106P|PMS2_uc010ktg.2_5'UTR|PMS2_uc010kte.2_Silent_p.P241P|PMS2_uc010ktf.1_Silent_p.P241P	NM_000535	NP_000526	P54278	PMS2_HUMAN	PMS2 postmeiotic segregation increased 2 isoform	241					mismatch repair|reciprocal meiotic recombination|somatic hypermutation of immunoglobulin genes	MutLalpha complex	ATP binding|ATPase activity|endonuclease activity|protein binding|single base insertion or deletion binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;4.39e-15)		GCTGAACAAAAGGAATGAGGC	0.383			Mis|N|F			colorectal|endometrial|ovarian|medulloblastoma|glioma		Direct_reversal_of_damage|MMR	Lynch_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				6	26					0	0	1	0	0		C	6037037	C	C	6037037	2	2	153	1	0	0	0	0	0	0	0	1	12162	59	3	5		5	PMS2	7	6037037	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	469299	6037037	153101626	639	82571											
CYTH3	9265	broad.mit.edu	37	chr7	6210912	6210912	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgatcaatcttctgcgcCtccccgggcagcctgaagct	7	9	10	15	3	3	1	1	1	2	0	4	2	4	1	4	1	4	2	4	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:6210912C>T	uc003spt.2	-	7	587	c.483G>A	c.(481-483)GAG>GAA	p.E161E	CYTH3_uc011jws.1_Silent_p.E76E	NM_004227	NP_004218	O43739	CYH3_HUMAN	cytohesin 3	161	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion|vesicle-mediated transport	cytoplasm|membrane fraction|plasma membrane	1-phosphatidylinositol binding|ARF guanyl-nucleotide exchange factor activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity				0						TCTTCTGCGCCTCCCCGGGCA	0.612													26	68					0	0	1	0	0		T	6210912	T	T	6210912	2	4	153	1	0	0	0	0	0	0	0	1	4208	680	24	4		4	CYTH3	7	6210912	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	173875	6210912	152927751	640	82572											
KLHL7	55975	broad.mit.edu	37	chr7	23164385	23164385	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgaacaactggtggaatTtgcttatactgctaggtgag	11	14	11	5	0	0	2	0	2	0	0	0	3	0	3	0	3	5	2	0	3	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:23164385T>C	uc003svs.3	+	3	595	c.302T>C	c.(301-303)TTT>TCT	p.F101S	KLHL7_uc003svr.3_Missense_Mutation_p.F79S|KLHL7_uc011jys.1_Missense_Mutation_p.F25S|KLHL7_uc011jyt.1_Intron|KLHL7_uc003svt.2_Missense_Mutation_p.F53S|KLHL7_uc003svp.2_Missense_Mutation_p.F79S|KLHL7_uc003svq.2_Missense_Mutation_p.F101S|KLHL7_uc011jyu.1_Missense_Mutation_p.F79S	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	101	BTB.					Golgi apparatus|nucleolus|plasma membrane					0						CTGGTGGAATTTGCTTATACT	0.338													27	87					0	0	1	0	0		C	23164385	C	C	23164385	3	2	153	1	0	0	0	0	1	0	0	0	8410	1841	64	3	312	3	KLHL7	7	23164385	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	16953473	23164385	135974278	641	82573											
TRA2A	29896	broad.mit.edu	37	chr7	23547109	23547109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttatagaataatccacccGaattcttctaccatccagct	12	12	5	12	1	2	1	0	0	2	1	4	2	4	1	4	1	2	2	4	1	6	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:23547109G>A	uc003swi.2	-	5	785	c.571C>T	c.(571-573)CGG>TGG	p.R191W	TRA2A_uc011jzb.1_RNA|TRA2A_uc011jzc.1_Missense_Mutation_p.R90W|TRA2A_uc011jzd.1_Missense_Mutation_p.R90W	NM_013293	NP_037425	Q13595	TRA2A_HUMAN	transformer-2 alpha	191	RRM.				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TAATCCACCCGAATTCTTCTA	0.423													60	167					0	0	1	0	0		A	23547109	A	A	23547109	3	1	153	1	0	0	0	0	1	0	0	0	16459	1057	37	1	293	1	TRA2A	7	23547109	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	382724	23547109	135591554	642	82574											
DFNA5	1687	broad.mit.edu	37	chr7	24738827	24738827	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttctgtatctttcaggggagTcaaggttgggtcttcaagat	8	15	12	6	0	6	1	3	0	3	1	6	2	6	2	0	4	0	2	0	4	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:24738827T>G	uc010kus.1	-	10	1397	c.1309A>C	c.(1309-1311)ACT>CCT	p.T437P	DFNA5_uc003swz.2_Missense_Mutation_p.T273P|DFNA5_uc003sxa.1_Missense_Mutation_p.T437P|DFNA5_uc010kut.1_Missense_Mutation_p.T273P	NM_001127453	NP_001120925	O60443	DFNA5_HUMAN	deafness, autosomal dominant 5 protein isoform	437					sensory perception of sound					ovary(1)	1						TTCAGGGGAGTCAAGGTTGGG	0.408													23	55					0	0	1	0	0		G	24738827	G	G	24738827	3	3	153	1	0	0	0	0	1	0	0	0	4460	1667	58	5	185	5	DFNA5	7	24738827	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1191718	24738827	134399836	643	82575											
HOXA1	3198	broad.mit.edu	37	chr7	27135386	27135386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccactaggaagcggtcgtcgCcgccgcaactgttggcgctg	6	7	14	14	6	0	0	0	0	0	0	2	1	0	1	3	3	2	3	3	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:27135386C>T	uc003sye.2	-	1	240	c.146G>A	c.(145-147)GGC>GAC	p.G49D	HOXA1_uc003syd.2_Missense_Mutation_p.G49D|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	49						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						GCGGTCGTCGCCGCCGCAACT	0.537											OREG0003750	type=REGULATORY REGION|Gene=BC031342|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	20	72					0	0	1	0	0		T	27135386	T	T	27135386	3	4	153	1	0	0	0	0	1	0	0	0	7304	739	26	2	869	2	HOXA1	7	27135386	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2396559	27135386	132003277	644	82576											
INMT	11185	broad.mit.edu	37	chr7	30795381	30795381	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgacattgaacagctcCtacacagtccccagagctac	11	9	7	14	0	0	3	0	2	0	1	2	3	2	3	3	0	5	3	3	0	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:30795381C>A	uc003tbs.1	+	3	722	c.706C>A	c.(706-708)CTA>ATA	p.L236I	FAM188B_uc010kwe.2_Intron|INMT_uc010kwc.1_RNA|INMT_uc010kwd.1_Missense_Mutation_p.L235I	NM_006774	NP_006765	O95050	INMT_HUMAN	indolethylamine N-methyltransferase	236						cytoplasm	amine N-methyltransferase activity				0						TGAACAGCTCCTACACAGTCC	0.577													33	114					1.36615e-20	1.46702e-20	1	1	0		A	30795381	A	A	30795381	3	1	153	1	0	0	0	0	1	0	0	0	7761	680	24	5	716	5	INMT	7	30795381	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3659995	30795381	128343282	645	82577											
RP9	6100	broad.mit.edu	37	chr7	33136929	33136929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgcctttgataaagaaagggCattctttgtcacccgttcgg	9	13	10	9	2	2	2	1	1	1	1	3	2	2	2	2	2	1	2	2	2	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:33136929C>T	uc003tdm.2	-	4	377	c.359G>A	c.(358-360)TGC>TAC	p.C120Y		NM_203288	NP_976033	Q8TA86	RP9_HUMAN	retinitis pigmentosa 9	120	PIM1-binding (By similarity).|CCHC-type.				RNA splicing	nucleus	nucleic acid binding|protein binding|zinc ion binding				0			GBM - Glioblastoma multiforme(11;0.0403)			AAAGAAAGGGCATTCTTTGTC	0.378													29	120					0	0	1	0	0		T	33136929	T	T	33136929	3	4	153	1	0	0	0	0	1	0	0	0	13560	710	25	2	318	2	RP9	7	33136929	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2341548	33136929	126001734	646	82578											
BBS9	27241	broad.mit.edu	37	chr7	33296948	33296948	+	Silent	SNP	T	G	G	0	1	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	ctccctggctttcttctgccTggtcctcttgcctacagttc	2	16	7	16	0	3	0	0	0	3	0	6	0	5	0	4	2	3	2	4	2	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:33296948T>G	uc003tdn.1	+	6	1056	c.543T>G	c.(541-543)CCT>CCG	p.P181P	BBS9_uc003tdo.1_Silent_p.P181P|BBS9_uc003tdp.1_Silent_p.P181P|BBS9_uc003tdq.1_Silent_p.P181P|BBS9_uc010kwn.1_RNA|BBS9_uc011kan.1_Silent_p.P181P|BBS9_uc011kao.1_Silent_p.P59P	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	181					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TTCTTCTGCCTGGTCCTCTTG	0.438									Bardet-Biedl_syndrome				31	151					0	0	1	0	0		G	33296948	G	G	33296948	2	3	153	1	0	0	0	0	0	0	0	1	1343	1567	55	5		5	BBS9	7	33296948	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	160019	33296948	125841715	647	82579											
BBS9	27241	broad.mit.edu	37	chr7	33397489	33397489	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attccgcgagttatccaatgTaaatttagacttcccctaaa	13	13	5	10	2	0	1	0	0	0	1	3	2	3	1	4	0	0	2	4	0	7	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:33397489T>C	uc003tdn.1	+	16	2088	c.1575T>C	c.(1573-1575)TGT>TGC	p.C525C	BBS9_uc003tdo.1_Silent_p.C490C|BBS9_uc003tdp.1_Silent_p.C520C|BBS9_uc003tdq.1_Silent_p.C485C|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Silent_p.C49C|BBS9_uc003tds.1_5'UTR|BBS9_uc011kao.1_Silent_p.C403C	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	525					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TTATCCAATGTAAATTTAGAC	0.333									Bardet-Biedl_syndrome				52	198					0	0	1	0	0		C	33397489	C	C	33397489	2	2	153	1	0	0	0	0	0	0	0	1	1343	1644	57	3		3	BBS9	7	33397489	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	100541	33397489	125741174	648	82580											
NPSR1	387129	broad.mit.edu	37	chr7	34917721	34917721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcagctccaggaggctgcGctaatgctctgccctcaacg	7	8	11	15	3	3	0	2	0	1	0	4	1	4	1	2	2	5	4	2	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:34917721G>A	uc003tei.1	+	9	1187	c.1059G>A	c.(1057-1059)GCG>GCA	p.A353A	NPSR1_uc010kww.1_Silent_p.A342A|NPSR1_uc011kar.1_Silent_p.A287A	NM_207173	NP_997056	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	Error:Variant_position_missing_in_Q6W5P4_after_alignment						cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	AGGAGGCTGCGCTAATGCTCT	0.532													7	21					0	0	1	0	0		A	34917721	A	A	34917721	2	1	153	1	0	0	0	0	0	0	0	1	10619	1074	38	1		1	NPSR1	7	34917721	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1520232	34917721	124220942	649	82581											
INHBA	3624	broad.mit.edu	37	chr7	41729889	41729889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacatgccaggtgctcttccGagcgtctactactttttcag	7	13	9	12	2	3	0	1	0	2	0	4	2	4	0	2	1	5	1	2	1	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:41729889G>A	uc003thq.2	-	2	875	c.640C>T	c.(640-642)CGG>TGG	p.R214W	INHBA_uc003thr.2_Missense_Mutation_p.R214W	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	214					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						GTGCTCTTCCGAGCGTCTACT	0.592										TSP Lung(11;0.080)			8	51					0	0	1	0	0		A	41729889	A	A	41729889	3	1	153	1	0	0	0	0	1	0	0	0	7757	1057	37	1	644	1	INHBA	7	41729889	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6812168	41729889	117408774	650	82582											
GLI3	2737	broad.mit.edu	37	chr7	42085063	42085063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gaataatgtctgcataggggCtgcgctggccagttagcagg	9	9	15	8	1	1	0	0	0	1	0	1	1	1	0	1	4	3	5	1	4	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:42085063C>T	uc011kbh.1	-	6	837	c.746G>A	c.(745-747)AGC>AAC	p.S249N	GLI3_uc011kbg.1_Missense_Mutation_p.S190N	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	249					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TGCATAGGGGCTGCGCTGGCC	0.552									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				23	79					0	0	1	0	0		T	42085063	T	T	42085063	3	4	153	1	0	0	0	0	1	0	0	0	6454	797	28	2	4036	2	GLI3	7	42085063	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	355174	42085063	117053600	651	82583											
C7orf25	79020	broad.mit.edu	37	chr7	42950002	42950002	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acactgttgtaaaatgcaaaGatgatgtgagggttgctata	14	12	11	4	0	0	3	0	2	0	1	0	3	0	3	0	1	2	5	0	1	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:42950002G>A	uc003thw.2	-	2	962	c.498C>T	c.(496-498)ATC>ATT	p.I166I	C7orf25_uc010kxq.2_Silent_p.I166I|C7orf25_uc003thx.3_Silent_p.I224I|C7orf25_uc010kxr.2_Silent_p.I224I	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	166										skin(1)	1						AAAATGCAAAGATGATGTGAG	0.498													26	87					0	0	1	0	0		A	42950002	A	A	42950002	2	1	153	1	0	0	0	0	0	0	0	1	2383	932	33	4		4	C7orf25	7	42950002	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	864939	42950002	116188661	652	82584											
C7orf44	55744	broad.mit.edu	37	chr7	43684886	43684886	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacgaagttttccctgtcGatgagcttgagataatggat	10	13	10	8	2	0	2	0	2	0	1	3	6	2	3	2	1	1	2	2	1	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:43684886G>A	uc003tin.1	-	4	322	c.228C>T	c.(226-228)ATC>ATT	p.I76I	C7orf44_uc003til.2_RNA|C7orf44_uc003tii.2_RNA|C7orf44_uc003tij.2_RNA|C7orf44_uc010kxu.1_RNA|C7orf44_uc003tik.2_RNA|C7orf44_uc003tim.1_RNA|C7orf44_uc003tio.1_Silent_p.I76I|C7orf44_uc003tiq.1_Silent_p.I76I|C7orf44_uc003tip.1_Silent_p.I76I	NM_018224	NP_060694	Q9GZY4	CG044_HUMAN	hypothetical protein LOC55744	76						integral to membrane				ovary(1)	1						TTTCCCTGTCGATGAGCTTGA	0.532													20	66					0	0	1	0	0		A	43684886	A	A	43684886	2	1	153	1	0	0	0	0	0	0	0	1	2397	1048	37	1		1	C7orf44	7	43684886	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	734884	43684886	115453777	653	82585											
NPC1L1	29881	broad.mit.edu	37	chr7	44579262	44579262	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccacgtcgtcaccttgggacTcattgcaacgtgcaaccccc	8	8	8	17	3	2	0	2	0	0	0	3	1	2	1	4	1	4	2	4	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:44579262T>G	uc003tlb.2	-	2	790	c.734A>C	c.(733-735)GAG>GCG	p.E245A	NPC1L1_uc003tlc.2_Missense_Mutation_p.E245A|NPC1L1_uc011kbw.1_Missense_Mutation_p.E245A|NPC1L1_uc003tld.2_Missense_Mutation_p.E245A	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	245	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ACCTTGGGACTCATTGCAACG	0.632													25	52					0	0	1	0	0		G	44579262	G	G	44579262	3	3	153	1	0	0	0	0	1	0	0	0	10590	1551	54	5	3421	5	NPC1L1	7	44579262	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	894376	44579262	114559401	654	82586											
NPC1L1	29881	broad.mit.edu	37	chr7	44579700	44579700	+	Missense_Mutation	SNP	A	G	G	1	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	tgatcgacagactcgcttccAgtgataccagctgcttggcg	8	10	11	12	3	0	3	0	2	0	1	3	4	1	3	2	1	3	3	2	1	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:44579700A>G	uc003tlb.2	-	2	352	c.296T>C	c.(295-297)CTG>CCG	p.L99P	NPC1L1_uc003tlc.2_Missense_Mutation_p.L99P|NPC1L1_uc011kbw.1_Missense_Mutation_p.L99P|NPC1L1_uc003tld.2_Missense_Mutation_p.L99P	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	99	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	ACTCGCTTCCAGTGATACCAG	0.582													16	33					0	0	1	0	0		G	44579700	G	G	44579700	3	3	153	1	0	0	0	0	1	0	0	0	10590	188	7	3	3859	3	NPC1L1	7	44579700	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	438	44579700	114558963	655	82587											
TNS3	64759	broad.mit.edu	37	chr7	47408881	47408881	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggctggcaccacgtggcgGgtcccactgtacttgcttcg	4	10	14	13	3	0	0	0	0	0	0	2	0	1	0	2	4	2	4	2	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:47408881G>T	uc003tnv.2	-	17	1729	c.1362C>A	c.(1360-1362)ACC>ACA	p.T454T	TNS3_uc003tnw.2_Silent_p.T454T	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	454						focal adhesion	protein binding			ovary(4)	4						CCACGTGGCGGGTCCCACTGT	0.577													22	59					1.96895e-08	2.0475e-08	1	1	0		T	47408881	T	T	47408881	2	4	153	1	0	0	0	0	0	0	0	1	16369	1219	43	5		5	TNS3	7	47408881	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2829181	47408881	111729782	656	82588											
ABCA13	154664	broad.mit.edu	37	chr7	48319362	48319362	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcattaaagcaaccacCggaaagaatgtcacatcaga	17	9	6	9	1	3	2	3	0	0	2	3	3	3	3	2	1	2	1	2	1	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:48319362C>T	uc003toq.2	+	18	8596	c.8571C>T	c.(8569-8571)ACC>ACT	p.T2857T	ABCA13_uc010kys.1_5'Flank	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2857					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAGCAACCACCGGAAAGAATG	0.368													36	124					0	0	1	0	0		T	48319362	T	T	48319362	2	4	153	1	0	0	0	0	0	0	0	1	31	639	23	1		1	ABCA13	7	48319362	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	910481	48319362	110819301	657	82589											
COBL	23242	broad.mit.edu	37	chr7	51096683	51096683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttatacgttgtgaggcCgtgcttaagtctgtagcttt	7	17	11	6	2	1	1	0	1	1	0	1	2	1	1	1	1	3	4	1	1	4	7	rs148062130		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:51096683C>T	uc003tpr.3	-	10	2295	c.2110G>A	c.(2110-2112)GGC>AGC	p.G704S	COBL_uc003tps.2_Missense_Mutation_p.G761S|COBL_uc011kcl.1_Missense_Mutation_p.G704S|COBL_uc003tpp.3_Missense_Mutation_p.G490S|COBL_uc003tpq.3_Missense_Mutation_p.G645S|COBL_uc003tpo.3_Missense_Mutation_p.G246S	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	704										skin(3)|ovary(2)	5	Glioma(55;0.08)					GTTGTGAGGCCGTGCTTAAGT	0.493													40	106					0	0	1	0	0		T	51096683	T	T	51096683	3	4	153	1	0	0	0	0	1	0	0	0	3656	652	23	1	1691	1	COBL	7	51096683	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2777321	51096683	108041980	658	82590											
POM121L12	285877	broad.mit.edu	37	chr7	53104026	53104026	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgccttcaagcccctgaGcaaaaatggagcggttgctt	9	10	10	12	1	2	1	1	1	1	0	2	2	2	2	3	2	5	3	3	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:53104026G>T	uc003tpz.2	+	1	678	c.662G>T	c.(661-663)AGC>ATC	p.S221I		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	221											0						AAGCCCCTGAGCAAAAATGGA	0.632													8	47					2.17888e-05	2.23912e-05	1	1	0		T	53104026	T	T	53104026	3	4	153	1	0	0	0	0	1	0	0	0	12260	971	34	5	664	5	POM121L12	7	53104026	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2007343	53104026	106034637	659	82591											
PHKG1	5260	broad.mit.edu	37	chr7	56148844	56148844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccccttcttcacccagtggCcatagattcggaaagcgtag	9	9	10	13	2	2	1	1	0	1	1	3	2	2	2	4	2	1	1	4	2	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:56148844C>T	uc003trz.1	-	10	1262	c.1067G>A	c.(1066-1068)GGC>GAC	p.G356D	PSPH_uc003trj.2_Intron|PHKG1_uc003try.1_Missense_Mutation_p.G250D|PHKG1_uc011kdb.1_Missense_Mutation_p.G388D|PHKG1_uc011kdc.1_Missense_Mutation_p.G347D|PHKG1_uc011kdd.1_Missense_Mutation_p.G302D	NM_006213	NP_006204	Q16816	PHKG1_HUMAN	phosphorylase kinase gamma subunit 1	356	Calmodulin-binding (domain-C).				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			large_intestine(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CACCCAGTGGCCATAGATTCG	0.647													35	64					0	0	1	0	0		T	56148844	T	T	56148844	3	4	153	1	0	0	0	0	1	0	0	0	11865	739	26	2	100	2	PHKG1	7	56148844	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3044818	56148844	102989819	660	82592											
AUTS2	26053	broad.mit.edu	37	chr7	70255700	70255700	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagactacgagcacacgcgGctccactccgtgcaccccgc	9	4	10	18	5	0	1	0	0	0	1	2	3	2	1	4	1	3	3	4	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:70255700G>A	uc003tvw.3	+	19	4241	c.3498G>A	c.(3496-3498)CGG>CGA	p.R1166R	AUTS2_uc003tvx.3_Silent_p.R1142R|AUTS2_uc011keg.1_Silent_p.R618R	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1166	His-rich.									ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		AGCACACGCGGCTCCACTCCG	0.682													11	19					0	0	1	0	0		A	70255700	A	A	70255700	2	1	153	1	0	0	0	0	0	0	0	1	1226	1190	42	2		2	AUTS2	7	70255700	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	14106856	70255700	88882963	661	82593											
TYW1B	441250	broad.mit.edu	37	chr7	72159779	72159779	+	Silent	SNP	A	G	G	1	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	tctttggtactggcatccacActgacatacagctgagtaac	11	11	8	11	0	1	2	0	2	1	0	2	2	2	2	1	2	4	4	1	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:72159779A>G	uc011kej.1	-	14	1563	c.1404T>C	c.(1402-1404)AGT>AGC	p.S468S	TYW1B_uc011keh.1_Silent_p.S306S|TYW1B_uc011kei.1_Silent_p.S94S	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	468					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TGGCATCCACACTGACATACA	0.403													28	75					0	0	1	0	0		G	72159779	G	G	72159779	2	3	153	1	0	0	0	0	0	0	0	1	16845	156	6	3		3	TYW1B	7	72159779	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1904079	72159779	86978884	662	82594											
BAZ1B	9031	broad.mit.edu	37	chr7	72884801	72884801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcgttcttcttcagcttggCgttccagtttcactgttaaa	6	18	7	10	2	4	0	2	0	2	0	6	0	5	0	1	1	1	5	1	1	2	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:72884801C>T	uc003tyc.2	-	8	2951	c.2606G>A	c.(2605-2607)CGC>CAC	p.R869H		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	869	Potential.				ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCAGCTTGGCGTTCCAGTTT	0.398													39	139					0	0	1	0	0		T	72884801	T	T	72884801	3	4	153	1	0	0	0	0	1	0	0	0	1331	768	27	1	1893	1	BAZ1B	7	72884801	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	725022	72884801	86253862	663	82595											
MLXIPL	51085	broad.mit.edu	37	chr7	73009996	73009996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccagttgtgcagcgtacGggttcggacgtagtcatcaa	8	11	12	10	4	2	0	2	0	0	0	4	1	3	1	1	2	3	5	1	2	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:73009996G>A	uc003tyn.1	-	15	2329	c.2281C>T	c.(2281-2283)CGT>TGT	p.R761C	MLXIPL_uc003tyj.1_Missense_Mutation_p.R140C|MLXIPL_uc003tyk.1_Missense_Mutation_p.R740C|MLXIPL_uc003tyl.1_Missense_Mutation_p.R759C|MLXIPL_uc003tym.1_Missense_Mutation_p.R742C|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.R667C	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	761					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TGCAGCGTACGGGTTCGGACG	0.632													14	55					0	0	1	0	0		A	73009996	A	A	73009996	3	1	153	1	0	0	0	0	1	0	0	0	9655	1116	39	1	289	1	MLXIPL	7	73009996	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	125195	73009996	86128667	664	82596											
TRIM74	378108	broad.mit.edu	37	chr7	75034218	75034218	+	Frame_Shift_Del	DEL	G	-	-																															cccgctgcctggaggggataGggggtcacacccgtggcctg																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:75034218delG	uc003udc.1	+	4	792	c.592delG	c.(592-594)GGGfs	p.G198fs	TRIM74_uc010ldc.2_Frame_Shift_Del_p.G198fs|TRIM74_uc010ldd.2_Frame_Shift_Del_p.G198fs	NM_198924	NP_944606	Q86UV6	TRI74_HUMAN	tripartite motif-containing 73	198						intracellular	zinc ion binding				0						GGAGGGGATAGGGGGTCACAC	0.677													9	19	---	---	---	---						.	-	75034218	-	-	75034218	7	5	153	1	0	1	0	1	0	0	0	0	16573	1000	35	0	602	0	TRIM74	7	75034218	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	2024222	75034218	84104445	665	82597											
POM121C	100101267	broad.mit.edu	37	chr7	75068449	75068449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caaaagaagcggggactccaCtggccaccaggggctcaaat	13	4	12	12	1	1	1	1	0	0	1	2	2	2	2	3	5	1	1	3	5	4	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:75068449C>T	uc010lde.1	-	4	1007	c.1007G>A	c.(1006-1008)AGT>AAT	p.S336N	POM121C_uc003udk.3_Missense_Mutation_p.S94N			A8CG34	P121C_HUMAN	Homo sapiens POM121-2 mRNA for nuclear pore membrane protein 121-2, partial cds.	336	Required for targeting to the nucleus and nuclear pore complex.|Pore side (Potential).|Ser-rich.				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						GGGGACTCCACTGGCCACCAG	0.468													6	235					0	0	1	0	0		T	75068449	T	T	75068449	3	4	153	1	0	0	0	0	1	0	0	0	12259	565	20	4	2722	4	POM121C	7	75068449	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	34231	75068449	84070214	666	82598											
RHBDD2	57414	broad.mit.edu	37	chr7	75517524	75517524	+	Missense_Mutation	SNP	A	G	G	1	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	gtccaaaccccacctcctccAgtgtctacccagcttctgcg	7	9	6	19	1	2	0	0	0	2	0	5	0	5	0	7	0	4	1	7	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:75517524A>G	uc003udw.1	+	4	1036	c.952A>G	c.(952-954)AGT>GGT	p.S318G	RHBDD2_uc003udv.1_Missense_Mutation_p.S177G	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	318						integral to membrane	serine-type endopeptidase activity				0						CACCTCCTCCAGTGTCTACCC	0.657													52	167					0	0	1	0	0		G	75517524	G	G	75517524	3	3	153	1	0	0	0	0	1	0	0	0	13342	188	7	3	966	3	RHBDD2	7	75517524	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	449075	75517524	83621139	667	82599											
HGF	3082	broad.mit.edu	37	chr7	81346622	81346622	+	Missense_Mutation	SNP	T	C	C	0	1	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	agggtccatgagcatcatcaTctggatttcggcagtaattc	10	12	10	9	1	3	1	2	1	1	0	6	2	4	2	1	3	1	3	1	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:81346622T>C	uc003uhl.2	-	11	1496	c.1331A>G	c.(1330-1332)GAT>GGT	p.D444G	HGF_uc003uhm.2_Missense_Mutation_p.D439G	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	444	Kringle 4.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						AGCATCATCATCTGGATTTCG	0.448													32	114					0	0	1	0	0		C	81346622	C	C	81346622	3	2	153	1	0	0	0	0	1	0	0	0	7101	1435	50	3	887	3	HGF	7	81346622	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5829098	81346622	77792041	668	82600											
CACNA2D1	781	broad.mit.edu	37	chr7	81588629	81588629	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagacatcaggcccttttcGgtatctgggttgcttaacca	8	12	10	11	1	2	1	1	0	1	1	3	1	2	1	2	3	2	4	2	3	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:81588629G>A	uc003uhr.1	-	38	3377	c.3121C>T	c.(3121-3123)CGA>TGA	p.R1041*	CACNA2D1_uc011kgy.1_Nonsense_Mutation_p.R253*	NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	1053	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	GGCCCTTTTCGGTATCTGGGT	0.358													31	105					0	0	1	0	0		A	81588629	A	A	81588629	4	1	153	1	0	0	0	0	0	1	0	0	2551	1124	39	1	162	1	CACNA2D1	7	81588629	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	242007	81588629	77550034	669	82601											
SEMA3E	9723	broad.mit.edu	37	chr7	83277848	83277848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggtgataatgtgccccGcggatgccatgctgccgtgt	7	9	14	11	3	0	1	0	1	0	0	0	2	0	2	4	2	4	2	4	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:83277848G>A	uc003uhy.1	-	1	477	c.11C>T	c.(10-12)GCG>GTG	p.A4V		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	4					axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				AATGTGCCCCGCGGATGCCAT	0.567													11	38					0	0	1	0	0		A	83277848	A	A	83277848	3	1	153	1	0	0	0	0	1	0	0	0	14053	1087	38	1	2384	1	SEMA3E	7	83277848	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1689219	83277848	75860815	670	82602											
ABCB4	5244	broad.mit.edu	37	chr7	87073078	87073078	+	Silent	SNP	A	G	G	1	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	cctctctctgaaaaactgtcAattttaggattctaaataaa	15	14	4	8	0	4	1	1	1	3	0	5	2	4	2	1	1	1	0	1	1	8	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:87073078A>G	uc003uiv.1	-	11	1207	c.1131T>C	c.(1129-1131)ATT>ATC	p.I377I	ABCB4_uc003uiw.1_Silent_p.I377I|ABCB4_uc003uix.1_Silent_p.I377I	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	377	Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					AAAAACTGTCAATTTTAGGAT	0.343													21	78					0	0	1	0	0		G	87073078	G	G	87073078	2	3	153	1	0	0	0	0	0	0	0	1	43	126	5	3		3	ABCB4	7	87073078	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3795230	87073078	72065585	671	82603											
ZNF804B	219578	broad.mit.edu	37	chr7	88963047	88963047	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaacccatgattgtaacaagTcacccatttataaaacaaaa	20	9	3	9	0	1	1	1	1	0	0	1	1	1	1	2	0	3	1	2	0	8	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:88963047T>C	uc011khi.1	+	4	1289	c.751T>C	c.(751-753)TCA>CCA	p.S251P		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	251						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTGTAACAAGTCACCCATTTA	0.348										HNSCC(36;0.09)			30	83					0	0	1	0	0		C	88963047	C	C	88963047	3	2	153	1	0	0	0	0	1	0	0	0	18196	1667	58	3	765	3	ZNF804B	7	88963047	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1889969	88963047	70175616	672	82604											
ZNF804B	219578	broad.mit.edu	37	chr7	88964676	88964676	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggaatcatttaaaaatGaaaaatactcaaaacgtaga	20	10	7	4	1	2	2	2	1	0	1	2	3	2	3	0	1	2	1	0	1	10	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:88964676G>T	uc011khi.1	+	4	2918	c.2380G>T	c.(2380-2382)GAA>TAA	p.E794*		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	794						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			ATTTAAAAATGAAAAATACTC	0.358										HNSCC(36;0.09)			25	55					5.35356e-11	5.63134e-11	1	1	0		T	88964676	T	T	88964676	4	4	153	1	0	0	0	0	0	1	0	0	18196	1291	45	5	2394	5	ZNF804B	7	88964676	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1629	88964676	70173987	673	82605											
ANKIB1	54467	broad.mit.edu	37	chr7	92028112	92028112	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaacccagatagaagaaaAtcctttggaagaaaatattc	19	8	8	6	0	0	4	0	0	0	4	2	6	1	6	2	2	1	0	2	2	9	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:92028112A>C	uc003ulw.2	+	20	3495	c.3119A>C	c.(3118-3120)AAT>ACT	p.N1040T	ANKIB1_uc010lew.1_Missense_Mutation_p.N309T	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	1040							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ATAGAAGAAAATCCTTTGGAA	0.478													7	16					0	0	1	0	0		C	92028112	C	C	92028112	3	2	153	1	0	0	0	0	1	0	0	0	630	101	4	5	3193	5	ANKIB1	7	92028112	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3063436	92028112	67110551	674	82606											
TECPR1	25851	broad.mit.edu	37	chr7	97861206	97861206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccagggccaagcgcacGtccacccacttgtggggctt	6	8	12	15	2	0	0	0	0	0	0	2	0	2	0	4	3	2	3	4	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:97861206G>A	uc003upg.2	-	13	2089	c.1884C>T	c.(1882-1884)GAC>GAT	p.D628D	TECPR1_uc003uph.1_Silent_p.D558D	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	628	PH.					integral to membrane	protein binding			pancreas(1)	1						CCAAGCGCACGTCCACCCACT	0.657													7	21					0	0	1	0	0		A	97861206	A	A	97861206	2	1	153	1	0	0	0	0	0	0	0	1	15768	1136	40	1		1	TECPR1	7	97861206	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5833094	97861206	61277457	675	82607											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97944910	97944910	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcactctgacgagaagtAacggtctccacatactaaaa	15	10	6	10	2	3	2	1	1	2	1	4	3	3	2	1	1	2	1	1	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:97944910A>G	uc003upj.2	-	7	764	c.501T>C	c.(499-501)GTT>GTC	p.V167V		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	167	IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			GACGAGAAGTAACGGTCTCCA	0.383													36	100					0	0	1	0	0		G	97944910	G	G	97944910	2	3	153	1	0	0	0	0	0	0	0	1	1303	349	13	3		3	BAIAP2L1	7	97944910	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	83704	97944910	61193753	676	82608											
TMEM130	222865	broad.mit.edu	37	chr7	98453803	98453803	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gagtcttcagtcaccatctgGgtcctgttaggagacaggga	9	10	13	9	0	4	1	2	0	2	1	5	4	5	2	2	3	0	1	2	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:98453803G>A	uc003upo.2	-	4	744	c.555C>T	c.(553-555)ACC>ACT	p.T185T	TMEM130_uc011kiq.1_Silent_p.T166T|TMEM130_uc011kir.1_Silent_p.T185T|TMEM130_uc003upn.2_Silent_p.T83T	NM_001134450	NP_001127922	Q8N3G9	TM130_HUMAN	transmembrane protein 130 isoform a	185	Extracellular (Potential).|PKD.					Golgi membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(62;4.05e-09)|all_epithelial(64;2.62e-09)|Lung NSC(181;0.01)|all_lung(186;0.0115)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TCACCATCTGGGTCCTGTTAG	0.532													8	36					0	0	1	0	0		A	98453803	A	A	98453803	2	1	153	1	0	0	0	0	0	0	0	1	16068	1219	43	4		4	TMEM130	7	98453803	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	508893	98453803	60684860	677	82609											
TRRAP	8295	broad.mit.edu	37	chr7	98609946	98609946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcctggacaatctgtgcCgcatggaccccgcctggcac	8	6	11	16	2	1	0	0	0	1	0	1	2	1	2	5	3	2	2	5	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:98609946C>T	uc003upp.2	+	72	11757	c.11548C>T	c.(11548-11550)CGC>TGC	p.R3850C	TRRAP_uc011kis.1_Missense_Mutation_p.R3821C|TRRAP_uc003upr.2_Missense_Mutation_p.R3556C|TRRAP_uc003ups.2_5'Flank	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3850	FATC.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CAATCTGTGCCGCATGGACCC	0.662													4	10					0	0	1	0	0		T	98609946	T	T	98609946	3	4	153	1	0	0	0	0	1	0	0	0	16627	652	23	1	11739	1	TRRAP	7	98609946	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	156143	98609946	60528717	678	82610											
ZNF394	84124	broad.mit.edu	37	chr7	99091496	99091496	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaatatgacaggtttcccCgcattcctcacatttaaaat	13	12	6	10	1	1	1	1	1	0	0	3	2	3	2	3	2	0	2	3	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:99091496C>A	uc003uqs.2	-	3	1503	c.1342G>T	c.(1342-1344)GGG>TGG	p.G448W	ZNF394_uc003uqt.2_Missense_Mutation_p.G241W	NM_032164	NP_115540	Q53GI3	ZN394_HUMAN	zinc finger protein 394	448	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CAGGTTTCCCCGCATTCCTCA	0.433													48	215					2.65591e-33	2.88755e-33	1	1	0		A	99091496	A	A	99091496	3	1	153	1	0	0	0	0	1	0	0	0	17905	652	23	5	347	5	ZNF394	7	99091496	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	481550	99091496	60047167	679	82611											
SPDYE3	441272	broad.mit.edu	37	chr7	99917282	99917282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccactctcacatacccttgCgccctaagcattggttccag	8	10	6	17	1	1	0	1	0	1	0	3	0	2	0	4	1	3	2	4	1	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:99917282C>T	uc003uug.1	+	4	550	c.310C>T	c.(310-312)CGC>TGC	p.R104C	uc011kjm.1_5'Flank	NM_001004351	NP_001004351	A6NKU9	SPDE3_HUMAN	speedy homolog E3	481											0						CATACCCTTGCGCCCTAAGCA	0.537													26	115					0	0	1	0	0		T	99917282	T	T	99917282	3	4	153	1	0	0	0	0	1	0	0	0	15055	768	27	1	1475	1	SPDYE3	7	99917282	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	825786	99917282	59221381	680	82612											
GNB2	2783	broad.mit.edu	37	chr7	100276081	100276081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgccacgtgccgcctcttcGacctgcgggccgatcaggag	6	6	13	16	6	2	0	1	0	1	0	3	3	2	1	5	2	2	0	5	2	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:100276081G>A	uc003uwb.2	+	9	1033	c.760G>A	c.(760-762)GAC>AAC	p.D254N	GNB2_uc003uwc.2_Missense_Mutation_p.D210N|GNB2_uc010lhd.2_Missense_Mutation_p.D210N|GNB2_uc010lhe.2_Missense_Mutation_p.D210N|GNB2_uc003uwd.2_Missense_Mutation_p.D154N|GNB2_uc010lhf.2_Missense_Mutation_p.D154N|GNB2_uc003uwe.2_Missense_Mutation_p.D254N|GNB2_uc003uwf.2_Missense_Mutation_p.D154N	NM_005273	NP_005264	P62879	GBB2_HUMAN	guanine nucleotide-binding protein, beta-2	254	WD 5.				cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|synaptic transmission	perinuclear region of cytoplasm|plasma membrane	GTPase activity|GTPase binding|signal transducer activity			ovary(2)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)	Ovarian(593;0.238)				CCGCCTCTTCGACCTGCGGGC	0.637													13	36					0	0	1	0	0		A	100276081	A	A	100276081	3	1	153	1	0	0	0	0	1	0	0	0	6532	1058	37	1	790	1	GNB2	7	100276081	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	358799	100276081	58862582	681	82613											
ZAN	7455	broad.mit.edu	37	chr7	100390033	100390033	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctctgcaccaggcactgCgtgctggatctgtgctctgc	4	11	11	15	1	3	0	0	0	3	0	4	1	3	1	2	2	5	4	2	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:100390033C>T	uc003uwj.2	+	43	7884	c.7719C>T	c.(7717-7719)TGC>TGT	p.C2573C	ZAN_uc003uwk.2_Silent_p.C2573C|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Missense_Mutation_p.A566V	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2573	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CCAGGCACTGCGTGCTGGATC	0.632													18	65					0	0	1	0	0		T	100390033	T	T	100390033	2	4	153	1	0	0	0	0	0	0	0	1	17539	776	27	1		1	ZAN	7	100390033	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	113952	100390033	58748630	682	82614											
TRIP6	7205	broad.mit.edu	37	chr7	100469273	100469273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgcgtggtgtgtcacCgcggcctcgacggcatcccc	4	8	12	17	5	2	0	2	0	0	0	4	1	3	0	5	3	1	1	5	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:100469273C>T	uc003uww.2	+	7	1278	c.1108C>T	c.(1108-1110)CGC>TGC	p.R370C		NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	370	LIM zinc-binding 2.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGTGTGTCACCGCGGCCTCGA	0.617													8	46					0	0	1	0	0		T	100469273	T	T	100469273	3	4	153	1	0	0	0	0	1	0	0	0	16585	652	23	1	1134	1	TRIP6	7	100469273	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	79240	100469273	58669390	683	82615											
PLOD3	8985	broad.mit.edu	37	chr7	100853896	100853896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctggggcagctccatccGcagggtatcaccccggatca	7	7	11	16	2	3	0	2	0	1	0	5	1	5	1	5	4	1	4	5	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:100853896G>A	uc003uyd.2	-	13	1873	c.1417C>T	c.(1417-1419)CGG>TGG	p.R473W	PLOD3_uc010lhs.2_Missense_Mutation_p.R38W	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	473					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	AGCTCCATCCGCAGGGTATCA	0.622													21	43					0	0	1	0	0		A	100853896	A	A	100853896	3	1	153	1	0	0	0	0	1	0	0	0	12122	1086	38	1	827	1	PLOD3	7	100853896	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	384623	100853896	58284767	684	82616											
SPDYE6	729597	broad.mit.edu	37	chr7	101989090	101989090	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtttggagtcctcgtcGtcctcctccatgtcattggc	3	17	9	12	2	1	0	1	0	0	0	7	1	5	1	4	2	0	1	4	2	0	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:101989090G>C	uc011kkp.1	-	6	1204	c.783C>G	c.(781-783)GAC>GAG	p.D261E	SPDYE6_uc003uzb.2_Missense_Mutation_p.D117E	NM_001146210	NP_001139682	P0CI01	SPDE6_HUMAN	speedy homolog E6	261											0						AGTCCTCGTCGTCCTCCTCCA	0.552													20	277					0	0	1	0	0		C	101989090	C	C	101989090	3	2	153	1	0	0	0	0	1	0	0	0	15058	1136	40	5	433	5	SPDYE6	7	101989090	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1135194	101989090	57149573	685	82617											
ARMC10	83787	broad.mit.edu	37	chr7	102738805	102738805	+	Silent	SNP	A	G	G	1	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	gcaaaggagattcttcttcgAgtacttacgctatttcagaa	12	13	8	8	2	3	2	1	0	2	2	4	4	3	2	0	1	2	3	0	1	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:102738805A>G	uc003vaw.1	+	7	1229	c.837A>G	c.(835-837)CGA>CGG	p.R279R	ARMC10_uc003vay.1_Silent_p.R220R|ARMC10_uc003vax.1_Silent_p.R244R|ARMC10_uc003vbb.1_Silent_p.R185R|ARMC10_uc011kli.1_Silent_p.R220R|ARMC10_uc010lis.1_Silent_p.R161R|ARMC10_uc003vba.1_RNA|ARMC10_uc003vaz.1_Silent_p.R157R	NM_031905	NP_114111	Q8N2F6	ARM10_HUMAN	SVH protein isoform a	279					regulation of growth	endoplasmic reticulum membrane|integral to membrane	binding			ovary(1)	1						TTCTTCTTCGAGTACTTACGC	0.348													12	128					0	0	1	0	0		G	102738805	G	G	102738805	2	3	153	1	0	0	0	0	0	0	0	1	951	291	11	3		3	ARMC10	7	102738805	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	749715	102738805	56399858	686	82618											
PIK3CG	5294	broad.mit.edu	37	chr7	106508673	106508673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaactgcatcttcatcGtcattcaccgcagcaccacc	11	8	4	18	2	4	0	3	0	1	0	5	0	4	0	4	0	4	3	4	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:106508673G>A	uc003vdv.3	+	2	752	c.667G>A	c.(667-669)GTC>ATC	p.V223I	PIK3CG_uc003vdu.2_Missense_Mutation_p.V223I|PIK3CG_uc003vdw.2_Missense_Mutation_p.V223I	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	223					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CATCTTCATCGTCATTCACCG	0.592													31	77					0	0	1	0	0		A	106508673	A	A	106508673	3	1	153	1	0	0	0	0	1	0	0	0	11935	1145	40	1	669	1	PIK3CG	7	106508673	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3769868	106508673	52629990	687	82619											
NRCAM	4897	broad.mit.edu	37	chr7	107822325	107822325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactgggtcccagtgcacctCggctaaggtactgttcacca	8	10	10	13	1	1	0	1	0	0	0	3	0	2	0	3	3	3	4	3	3	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:107822325C>T	uc003vfb.2	-	24	3058	c.2587G>A	c.(2587-2589)GAG>AAG	p.E863K	NRCAM_uc003vfc.2_Missense_Mutation_p.E847K|NRCAM_uc011kmk.1_Missense_Mutation_p.E858K|NRCAM_uc003vfd.2_Missense_Mutation_p.E839K|NRCAM_uc003vfe.2_Missense_Mutation_p.E839K	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	863	Fibronectin type-III 3.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CAGTGCACCTCGGCTAAGGTA	0.493													22	68					0	0	1	0	0		T	107822325	T	T	107822325	3	4	153	1	0	0	0	0	1	0	0	0	10663	893	31	1	1397	1	NRCAM	7	107822325	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1313652	107822325	51316338	688	82620											
NRCAM	4897	broad.mit.edu	37	chr7	107834488	107834488	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctttcatcactgggcagttcCctgttgtccttcagccacag	6	13	8	14	0	3	0	3	0	0	0	5	0	5	0	3	1	1	3	3	1	0	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:107834488C>A	uc003vfb.2	-	17	2229	c.1758G>T	c.(1756-1758)AGG>AGT	p.R586S	NRCAM_uc003vfc.2_Missense_Mutation_p.R580S|NRCAM_uc011kmk.1_Missense_Mutation_p.R581S|NRCAM_uc003vfd.2_Missense_Mutation_p.R562S|NRCAM_uc003vfe.2_Missense_Mutation_p.R562S	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	586	Ig-like 6.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						TGGGCAGTTCCCTGTTGTCCT	0.403													46	112					1.5731e-28	1.70384e-28	1	1	0		A	107834488	A	A	107834488	3	1	153	1	0	0	0	0	1	0	0	0	10663	622	22	5	2254	5	NRCAM	7	107834488	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	12163	107834488	51304175	689	82621											
DOCK4	9732	broad.mit.edu	37	chr7	111372303	111372303	+	Silent	SNP	A	G	G	1	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	ttcaatggagatcgcccggcAggcgagggggatactgatgt	9	8	16	8	3	1	2	1	1	0	1	2	5	1	3	1	5	1	1	1	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:111372303A>G	uc003vfx.2	-	51	5702	c.5433T>C	c.(5431-5433)CCT>CCC	p.P1811P	DOCK4_uc011kml.1_Silent_p.P692P|DOCK4_uc011kmm.1_Silent_p.P680P|DOCK4_uc003vfw.2_Silent_p.P1223P|DOCK4_uc003vfy.2_Silent_p.P1856P|DOCK4_uc003vfv.2_Silent_p.P124P	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1811	Ser-rich.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ATCGCCCGGCAGGCGAGGGGG	0.463													4	58					0	0	1	0	0		G	111372303	G	G	111372303	2	3	153	1	0	0	0	0	0	0	0	1	4695	175	7	3		3	DOCK4	7	111372303	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3537815	111372303	47766360	690	82622											
WNT2	7472	broad.mit.edu	37	chr7	116955281	116955281	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcctttgctgtccttggcGcttcccatcttctttggatc	3	17	8	13	1	2	0	0	0	2	0	5	1	4	1	3	2	2	2	3	2	0	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:116955281G>A	uc003viz.2	-	3	732	c.432C>T	c.(430-432)AGC>AGT	p.S144S	WNT2_uc003vja.2_Silent_p.S48S	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	144					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		TGTCCTTGGCGCTTCCCATCT	0.453													37	106					0	0	1	0	0		A	116955281	A	A	116955281	2	1	153	1	0	0	0	0	0	0	0	1	17412	1078	38	1		1	WNT2	7	116955281	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5582978	116955281	42183382	691	82623											
SPAM1	6677	broad.mit.edu	37	chr7	123593853	123593853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagcctcttctctttcataGgaagcccccgaataaacgcc	10	10	7	14	2	3	1	1	1	2	0	4	3	3	2	4	1	3	0	4	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:123593853G>A	uc003vld.2	+	4	631	c.229G>A	c.(229-231)GGA>AGA	p.G77R	SPAM1_uc003vle.2_Missense_Mutation_p.G77R|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.G77R|SPAM1_uc010lku.2_Missense_Mutation_p.G77R	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	77					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	CTCTTTCATAGGAAGCCCCCG	0.423													17	87					0	0	1	0	0		A	123593853	A	A	123593853	3	1	153	1	0	0	0	0	1	0	0	0	15011	1001	35	4	231	4	SPAM1	7	123593853	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6638572	123593853	35544810	692	82624											
ZNF800	168850	broad.mit.edu	37	chr7	127014342	127014342	+	Missense_Mutation	SNP	A	G	G	1	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	taaattgtattcagcctttgAagaagacttttgttttcgag	11	17	8	5	1	1	3	1	1	0	2	2	4	1	3	1	0	1	2	1	0	5	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:127014342A>G	uc003vlx.1	-	5	1311	c.1048T>C	c.(1048-1050)TCA>CCA	p.S350P	ZNF800_uc003vlw.1_Missense_Mutation_p.S253P|ZNF800_uc003vly.1_Missense_Mutation_p.S350P|ZNF800_uc010lla.2_Missense_Mutation_p.S350P	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	350					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCAGCCTTTGAAGAAGACTTT	0.343													58	164					0	0	1	0	0		G	127014342	G	G	127014342	3	3	153	1	0	0	0	0	1	0	0	0	18194	246	9	3	954	3	ZNF800	7	127014342	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3420489	127014342	32124321	693	82625											
FSCN3	29999	broad.mit.edu	37	chr7	127236393	127236393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgcagatggtgaggtgCgtgctgcttctgagcgctta	5	12	14	10	2	2	3	0	2	2	1	2	3	2	3	1	2	5	4	1	2	1	2	rs148605578		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:127236393C>T	uc003vmd.1	+	3	1072	c.853C>T	c.(853-855)CGT>TGT	p.R285C	FSCN3_uc011koh.1_Missense_Mutation_p.R151C|FSCN3_uc010llc.1_Missense_Mutation_p.R285C	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	285						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						TGGTGAGGTGCGTGCTGCTTC	0.552													65	214					0	0	1	0	0		T	127236393	T	T	127236393	3	4	153	1	0	0	0	0	1	0	0	0	6083	768	27	1	863	1	FSCN3	7	127236393	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	222051	127236393	31902270	694	82626											
RBM28	55131	broad.mit.edu	37	chr7	127955004	127955004	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgttgagctgccttctgttGctggtcttttgcaggctctg	2	17	13	9	0	3	1	0	1	3	0	3	1	3	1	1	2	4	6	1	2	0	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:127955004G>A	uc003vmp.2	-	17	1973	c.1858C>T	c.(1858-1860)CAA>TAA	p.Q620*	RBM28_uc003vmo.2_Nonsense_Mutation_p.Q162*|RBM28_uc011koj.1_Nonsense_Mutation_p.Q479*	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	620					mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						GCCTTCTGTTGCTGGTCTTTT	0.517													66	287					0	0	1	0	0		A	127955004	A	A	127955004	4	1	153	1	0	0	0	0	0	1	0	0	13153	1328	46	2	433	2	RBM28	7	127955004	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	718611	127955004	31183659	695	82627											
IRF5	3663	broad.mit.edu	37	chr7	128588011	128588011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctggatgtcctggaccGcgggctcatcctccagctac	5	9	12	15	2	1	0	1	0	0	0	4	2	4	2	4	3	3	4	4	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:128588011G>A	uc003vog.2	+	8	1107	c.986G>A	c.(985-987)CGC>CAC	p.R329H	IRF5_uc003voh.2_Missense_Mutation_p.R313H|IRF5_uc010llt.2_Missense_Mutation_p.R237H|IRF5_uc003voi.2_Missense_Mutation_p.R313H|IRF5_uc003voj.3_Missense_Mutation_p.R313H|IRF5_uc010llw.1_3'UTR	NM_002200	NP_002191	Q13568	IRF5_HUMAN	interferon regulatory factor 5 isoform a	323					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GTCCTGGACCGCGGGCTCATC	0.617													18	96					0	0	1	0	0		A	128588011	A	A	128588011	3	1	153	1	0	0	0	0	1	0	0	0	7849	1087	38	1	1038	1	IRF5	7	128588011	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	633007	128588011	30550652	696	82628											
SMO	6608	broad.mit.edu	37	chr7	128845469	128845469	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggccacattcgtggctgacTggcggaactcgaatcgctac	9	8	12	12	4	0	1	0	1	0	0	3	3	0	2	1	4	2	2	1	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:128845469T>C	uc003vor.2	+	4	1046	c.766T>C	c.(766-768)TGG>CGG	p.W256R	SMO_uc003vos.2_5'Flank	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	256	Cytoplasmic (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						CGTGGCTGACTGGCGGAACTC	0.537			Mis		skin basal cell 								41	110					0	0	1	0	0		C	128845469	C	C	128845469	3	2	153	1	0	0	0	0	1	0	0	0	14825	1580	55	3	780	3	SMO	7	128845469	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	257458	128845469	30293194	697	82629											
KLHDC10	23008	broad.mit.edu	37	chr7	129770479	129770479	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtacctagcctgctggaaCtggcatgggagaagctgctt	8	10	14	9	0	0	1	0	0	0	1	0	3	0	2	2	4	6	5	2	4	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:129770479C>T	uc003vpj.1	+	10	1357	c.1222C>T	c.(1222-1224)CTG>TTG	p.L408L	KLHDC10_uc003vpk.1_Silent_p.L379L|KLHDC10_uc010lmb.1_Silent_p.L305L	NM_014997	NP_055812	Q6PID8	KLD10_HUMAN	kelch domain containing 10	408	Kelch 6.										0						CCTGCTGGAACTGGCATGGGA	0.512													10	178					0	0	1	0	0		T	129770479	T	T	129770479	2	4	153	1	0	0	0	0	0	0	0	1	8371	564	20	4		4	KLHDC10	7	129770479	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	925010	129770479	29368184	698	82630											
PODXL	5420	broad.mit.edu	37	chr7	131195812	131195812	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtcacactgtggctgctttTccccccagagtttgttgtat	5	15	10	11	0	1	1	1	0	0	1	2	1	2	1	3	2	1	5	3	2	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:131195812T>C	uc003vqw.3	-	2	739	c.481A>G	c.(481-483)AAA>GAA	p.K161E	PODXL_uc003vqx.3_Missense_Mutation_p.K161E	NM_001018111	NP_001018121	O00592	PODXL_HUMAN	podocalyxin-like isoform 1 precursor	161	Thr-rich.|Extracellular (Potential).				cell adhesion|epithelial tube formation|negative regulation of cell-cell adhesion|positive regulation of cell migration|positive regulation of cell-cell adhesion mediated by integrin|regulation of microvillus assembly	actin cytoskeleton|apical plasma membrane|centrosome|filopodium|integral to plasma membrane|lamellipodium|membrane raft|microvillus membrane|nucleolus|ruffle				breast(2)|pancreas(1)	3	Melanoma(18;0.162)					TGGCTGCTTTTCCCCCCAGAG	0.527													48	208					0	0	1	0	0		C	131195812	C	C	131195812	3	2	153	1	0	0	0	0	1	0	0	0	12199	1792	62	3	1227	3	PODXL	7	131195812	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1425333	131195812	27942851	699	82631											
PLXNA4	91584	broad.mit.edu	37	chr7	131848964	131848964	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaggagtagcgggcctcGcccgtgatggcgtcaatggg	7	7	16	11	4	2	1	2	1	0	0	3	2	2	2	2	4	1	1	2	4	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:131848964G>A	uc003vra.3	-	24	4666	c.4437C>T	c.(4435-4437)GGC>GGT	p.G1479G		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1479	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AGCGGGCCTCGCCCGTGATGG	0.592													12	46					0	0	1	0	0		A	131848964	A	A	131848964	2	1	153	1	0	0	0	0	0	0	0	1	12141	1074	38	1		1	PLXNA4	7	131848964	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	653152	131848964	27289699	700	82632											
PLXNA4	91584	broad.mit.edu	37	chr7	132192606	132192606	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggctgtgtcctccttgcaaaGcctcacgagcttggatgtat	7	12	11	11	1	1	0	1	0	0	0	3	2	3	1	3	2	3	4	3	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:132192606G>T	uc003vra.3	-	2	1076	c.847C>A	c.(847-849)CTT>ATT	p.L283I	PLXNA4_uc003vrc.2_Missense_Mutation_p.L283I|PLXNA4_uc003vrb.2_Missense_Mutation_p.L283I	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	283	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TCCTTGCAAAGCCTCACGAGC	0.562													18	53					6.94344e-10	7.27702e-10	1	1	0		T	132192606	T	T	132192606	3	4	153	1	0	0	0	0	1	0	0	0	12141	971	34	5	5275	5	PLXNA4	7	132192606	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	343642	132192606	26946057	701	82633											
EXOC4	60412	broad.mit.edu	37	chr7	132973835	132973835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaagctggaacagtgcatgGccagcaagcactatctcagt	14	7	10	10	0	1	0	1	0	1	0	2	1	1	1	1	2	5	4	1	2	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:132973835G>A	uc003vrk.2	+	3	471	c.436G>A	c.(436-438)GCC>ACC	p.A146T	EXOC4_uc011kpo.1_Missense_Mutation_p.A45T|EXOC4_uc003vri.2_Missense_Mutation_p.A146T|EXOC4_uc003vrj.2_Missense_Mutation_p.A146T	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	146					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				ACAGTGCATGGCCAGCAAGCA	0.418													10	42					0	0	1	0	0		A	132973835	A	A	132973835	3	1	153	1	0	0	0	0	1	0	0	0	5314	1203	42	2	446	2	EXOC4	7	132973835	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	781229	132973835	26164828	702	82634											
EXOC4	60412	broad.mit.edu	37	chr7	133164813	133164813	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctgcaggttcgaatcGtcctcccatgccatcagtat	7	14	7	13	2	2	0	1	0	1	0	7	1	4	0	3	1	2	3	3	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:133164813G>A	uc003vrk.2	+	9	1373	c.1338G>A	c.(1336-1338)TCG>TCA	p.S446S	EXOC4_uc011kpo.1_Silent_p.S345S|EXOC4_uc003vri.2_Silent_p.S446S|EXOC4_uc003vrj.2_Silent_p.S446S	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	446					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				GGTTCGAATCGTCCTCCCATG	0.488													29	107					0	0	1	0	0		A	133164813	A	A	133164813	2	1	153	1	0	0	0	0	0	0	0	1	5314	1132	40	1		1	EXOC4	7	133164813	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	190978	133164813	25973850	703	82635											
CNOT4	4850	broad.mit.edu	37	chr7	135047807	135047807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatctgtgtgctgaagggggCgctgtggtgggtctgtgatg	4	12	20	5	1	2	2	0	2	2	0	2	3	2	2	0	4	1	2	0	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:135047807C>T	uc011kpy.1	-	11	2064	c.1972G>A	c.(1972-1974)GCC>ACC	p.A658T	CNOT4_uc003vss.2_Missense_Mutation_p.A584T|CNOT4_uc011kpz.1_Missense_Mutation_p.A655T|CNOT4_uc003vst.2_Missense_Mutation_p.A587T	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	322					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						CTGAAGGGGGCGCTGTGGTGG	0.587													33	102					0	0	1	0	0		T	135047807	T	T	135047807	3	4	153	1	0	0	0	0	1	0	0	0	3624	768	27	1	173	1	CNOT4	7	135047807	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1882994	135047807	24090856	704	82636											
MGAM	8972	broad.mit.edu	37	chr7	141795515	141795515	+	Splice_Site	SNP	T	C	C	0	1	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	tgcggcctctgctccatgagTgagtgtccagcagggatccc	6	9	13	13	1	1	2	0	2	1	0	4	3	4	3	4	2	3	2	4	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:141795515T>C	uc003vwy.2	+	41	4973	c.4919_splice	c.e41+2	p.E1640_splice		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase						polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	GCTCCATGAGTGAGTGTCCAG	0.473													19	344					0	0	1	0	0		C	141795515	C	C	141795515	5	2	153	1	0	0	0	0	0	0	1	0	9559	1710	59	3	5079	3	MGAM	7	141795515	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	6747708	141795515	17343148	705	82637											
SSPO	23145	broad.mit.edu	37	chr7	149508775	149508775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtctccgggctcatcGccaactgcagctcctggcct	4	10	10	17	2	2	0	1	0	1	0	5	0	3	0	5	2	3	3	5	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:149508775G>A	uc010lpk.2	+	68	9514	c.9514G>A	c.(9514-9516)GCC>ACC	p.A3172T		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3172					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CGGGCTCATCGCCAACTGCAG	0.493													23	75					0	0	1	0	0		A	149508775	A	A	149508775	3	1	153	1	0	0	0	0	1	0	0	0	15214	1087	38	1	9774	1	SSPO	7	149508775	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7713260	149508775	9629888	706	82638											
KCNH2	3757	broad.mit.edu	37	chr7	150647278	150647278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatggccacgacgacgtcGccccgcaggatctcgatgga	9	5	14	13	6	1	0	0	0	1	0	3	6	1	3	3	4	0	1	3	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:150647278G>A	uc003wic.2	-	9	2389	c.2376C>T	c.(2374-2376)GGC>GGT	p.G792G	KCNH2_uc003wib.2_Silent_p.G452G|KCNH2_uc011kux.1_Silent_p.G696G|KCNH2_uc003wid.2_Silent_p.G452G|KCNH2_uc003wie.2_Silent_p.G792G	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	792	Cytoplasmic (Potential).|cNMP.				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	CGACGACGTCGCCCCGCAGGA	0.637													16	48					0	0	1	0	0		A	150647278	A	A	150647278	2	1	153	1	0	0	0	0	0	0	0	1	8048	1074	38	1		1	KCNH2	7	150647278	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1138503	150647278	8491385	707	82639											
KCNH2	3757	broad.mit.edu	37	chr7	150671835	150671835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcgatttccactttgcgctCctcggcgcccagcagtgcct	4	10	11	16	4	0	0	0	0	0	0	3	1	2	0	4	2	3	2	4	2	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:150671835C>T	uc003wic.2	-	2	284	c.271G>A	c.(271-273)GAG>AAG	p.E91K	KCNH2_uc003wie.2_Missense_Mutation_p.E91K	NM_000238	NP_000229	Q12809	KCNH2_HUMAN	voltage-gated potassium channel, subfamily H,	91	Cytoplasmic (Potential).				blood circulation|muscle contraction|regulation of heart contraction|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|two-component sensor activity			skin(3)|ovary(1)	4	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiodarone(DB01118)|Amsacrine(DB00276)|Astemizole(DB00637)|Carvedilol(DB01136)|Cisapride(DB00604)|Dofetilide(DB00204)|Halofantrine(DB01218)|Ibutilide(DB00308)|Pimozide(DB01100)|Propafenone(DB01182)|Quinidine(DB00908)|Sertindole(DB06144)|Sotalol(DB00489)|Terfenadine(DB00342)|Verapamil(DB00661)	ACTTTGCGCTCCTCGGCGCCC	0.493													5	8					0	0	1	0	0		T	150671835	T	T	150671835	3	4	153	1	0	0	0	0	1	0	0	0	8048	864	30	4	3645	4	KCNH2	7	150671835	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	24557	150671835	8466828	708	82640											
NOS3	4846	broad.mit.edu	37	chr7	150696110	150696110	+	Missense_Mutation	SNP	A	C	C	1	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	gctgctgcaggccccagatgAtcccccagaactcttccttc	7	9	8	17	0	1	3	0	1	1	2	4	3	3	3	5	1	3	3	5	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:150696110A>C	uc003wif.2	+	8	1189	c.893A>C	c.(892-894)GAT>GCT	p.D298A	NOS3_uc011kuy.1_Missense_Mutation_p.D92A|NOS3_uc011kuz.1_Missense_Mutation_p.D298A|NOS3_uc011kva.1_Missense_Mutation_p.D298A|NOS3_uc011kvb.1_Missense_Mutation_p.D298A	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	298	Interaction with NOSIP.				anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	GCCCCAGATGATCCCCCAGAA	0.657													31	115					0	0	1	0	0		C	150696110	C	C	150696110	3	2	153	1	0	0	0	0	1	0	0	0	10563	333	12	5	919	5	NOS3	7	150696110	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	24275	150696110	8442553	709	82641											
CDK5	1020	broad.mit.edu	37	chr7	150752436	150752436	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccccaaagaggacatccgGtgggcggtaccacagtgtga	10	5	15	11	2	0	2	0	1	0	1	1	3	1	3	4	5	1	1	4	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:150752436G>A	uc003wir.1	-	8	569	c.508C>T	c.(508-510)CCG>TCG	p.P170S	CDK5_uc003wis.1_Missense_Mutation_p.P138S	NM_004935	NP_004926	Q00535	CDK5_HUMAN	cyclin-dependent kinase 5 isoform 1	170	Protein kinase.				activation of pro-apoptotic gene products|blood coagulation|cell division|cell proliferation|embryo development|negative regulation of transcription, DNA-dependent|positive regulation of neuron apoptosis	axon|cytosol|dendrite|growth cone|lamellipodium|membrane|neuromuscular junction|neuronal cell body	acetylcholine receptor activator activity|ATP binding|cyclin-dependent protein kinase activity|ErbB-2 class receptor binding|ErbB-3 class receptor binding|tau-protein kinase activity			lung(1)|central_nervous_system(1)	2		Breast(660;0.159)|Ovarian(593;0.182)	OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)|LUSC - Lung squamous cell carcinoma(290;0.008)|Lung(243;0.00942)|BRCA - Breast invasive adenocarcinoma(188;0.242)		AGGACATCCGGTGGGCGGTAC	0.612													10	26					0	0	1	0	0		A	150752436	A	A	150752436	3	1	153	1	0	0	0	0	1	0	0	0	3145	1261	44	4	390	4	CDK5	7	150752436	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	56326	150752436	8386227	710	82642											
AGAP3	116988	broad.mit.edu	37	chr7	150814817	150814817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacttcctgcgtctctgcaGcttccgcaacgccagcgagg	6	9	10	16	4	1	0	0	0	1	0	4	1	3	0	3	1	6	3	3	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:150814817G>A	uc003wjg.1	+	5	662	c.659G>A	c.(658-660)AGC>AAC	p.S220N	AGAP3_uc003wje.1_5'UTR|AGAP3_uc003wjf.1_Missense_Mutation_p.S220N|AGAP3_uc010lpy.1_Missense_Mutation_p.S220N|AGAP3_uc003wjh.1_Missense_Mutation_p.S400N	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	184	Small GTPase-like.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						CGTCTCTGCAGCTTCCGCAAC	0.607													29	89					0	0	1	0	0		A	150814817	A	A	150814817	3	1	153	1	0	0	0	0	1	0	0	0	369	971	34	2	677	2	AGAP3	7	150814817	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	62381	150814817	8323846	711	82643											
UBE3C	9690	broad.mit.edu	37	chr7	157041136	157041136	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgcttggaaccagtgcCgacgtggacattcaccacct	10	9	10	12	2	1	0	1	0	0	0	1	3	1	2	4	2	3	2	4	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:157041136C>T	uc010lqs.2	+	19	2868	c.2556C>T	c.(2554-2556)GCC>GCT	p.A852A	UBE3C_uc003wni.3_Silent_p.A215A	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	852	HECT.				protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		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)		GAACCAGTGCCGACGTGGACA	0.502													49	148					0	0	1	0	0		T	157041136	T	T	157041136	2	4	153	1	0	0	0	0	0	0	0	1	16907	639	23	1		1	UBE3C	7	157041136	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6226319	157041136	2097527	712	82644											
VIPR2	7434	broad.mit.edu	37	chr7	158935152	158935152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttacctttgtgtttttctGtttgagacctcagaagctct	6	18	7	10	0	3	2	1	1	2	2	3	3	3	2	3	0	2	3	3	0	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr7:158935152G>A	uc003woh.2	-	2	323	c.137C>T	c.(136-138)ACA>ATA	p.T46I	VIPR2_uc010lqx.2_RNA|VIPR2_uc010lqy.2_RNA	NM_003382	NP_003373	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	46	Extracellular (Potential).				cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		GTGTTTTTCTGTTTGAGACCT	0.483													78	266					0	0	1	0	0		A	158935152	A	A	158935152	3	1	153	1	0	0	0	0	1	0	0	0	17196	1377	48	4	1227	4	VIPR2	7	158935152	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1894016	158935152	203511	713	82645											
CSMD1	64478	broad.mit.edu	37	chr8	3000078	3000078	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgctcagcagggccgcGgggagatccgtgccgctaaa	7	7	16	11	4	1	1	1	0	0	1	2	2	2	1	3	3	3	4	3	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:3000078G>A	uc011kwk.1	-	41	6543	c.6153C>T	c.(6151-6153)CCC>CCT	p.P2051P	CSMD1_uc011kwj.1_Silent_p.P1443P|CSMD1_uc010lrg.2_Silent_p.P119P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2051	Extracellular (Potential).|CUB 12.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GCAGGGCCGCGGGGAGATCCG	0.463													28	105					0	0	1	0	0		A	3000078	A	A	3000078	2	1	153	1	0	0	0	0	0	0	0	1	3947	1103	39	1		1	CSMD1	8	3000078	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08		3000078	143363944	714	82646											
CSMD1	64478	broad.mit.edu	37	chr8	3045475	3045475	+	Missense_Mutation	SNP	T	C	C	0	1	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	gttctgctccgtggcaaaacTgatcacttggatctaccaaa	11	11	8	11	1	3	1	1	1	2	0	4	2	4	2	2	2	3	3	2	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:3045475T>C	uc011kwk.1	-	36	5929	c.5539A>G	c.(5539-5541)AGT>GGT	p.S1847G	CSMD1_uc011kwj.1_Missense_Mutation_p.S1239G|CSMD1_uc003wqe.2_Missense_Mutation_p.S1003G|CSMD1_uc010lrg.2_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1847	Extracellular (Potential).|CUB 11.			IQVISFATEQNWDSL -> DPSDQFCHGAELGLPF (in Ref. 1; AAK73475/AAG52948).		integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GTGGCAAAACTGATCACTTGG	0.428													12	23					0	0	1	0	0		C	3045475	C	C	3045475	3	2	153	1	0	0	0	0	1	0	0	0	3947	1580	55	3	5298	3	CSMD1	8	3045475	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	45397	3045475	143318547	715	82647											
NEIL2	252969	broad.mit.edu	37	chr8	11643587	11643587	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcacgtggtggagttcagTacagcctggctgcagggcaa	9	8	15	9	1	2	0	2	0	0	0	2	2	2	1	1	4	3	5	1	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:11643587T>C	uc003wug.2	+	5	1479	c.804T>C	c.(802-804)AGT>AGC	p.S268S	NEIL2_uc003wue.2_Silent_p.S268S|NEIL2_uc003wuf.2_Silent_p.S207S|NEIL2_uc011kxd.1_Silent_p.S152S	NM_145043	NP_659480	Q969S2	NEIL2_HUMAN	nei like 2 isoform a	268					base-excision repair|nucleotide-excision repair	nucleus	damaged DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|hydrolase activity, hydrolyzing N-glycosyl compounds|zinc ion binding				0	all_epithelial(15;0.103)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.166)		TGGAGTTCAGTACAGCCTGGC	0.587								BER_DNA_glycosylases					48	142					0	0	1	0	0		C	11643587	C	C	11643587	2	2	153	1	0	0	0	0	0	0	0	1	10338	1635	57	3		3	NEIL2	8	11643587	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	8598112	11643587	134720435	716	82648											
SLC7A2	6542	broad.mit.edu	37	chr8	17409424	17409424	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagcccccttcctgtagcGtttgaatatgtgggatgggg	9	11	13	8	1	0	1	0	1	0	0	1	2	1	2	3	3	2	2	3	3	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:17409424G>A	uc011kyc.1	+	6	1153	c.984G>A	c.(982-984)GCG>GCA	p.A328A	SLC7A2_uc011kyd.1_Silent_p.A368A|SLC7A2_uc011kye.1_Silent_p.A368A|SLC7A2_uc011kyf.1_Silent_p.A328A	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	328	Extracellular (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	TTCCTGTAGCGTTTGAATATG	0.502													62	154					0	0	1	0	0		A	17409424	A	A	17409424	2	1	153	1	0	0	0	0	0	0	0	1	14722	1132	40	1		1	SLC7A2	8	17409424	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5765837	17409424	128954598	717	82649											
FGL1	2267	broad.mit.edu	37	chr8	17726129	17726129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatgatctctgtcccacGtgctgaatttcattctttgg	6	17	8	10	1	4	2	2	2	2	0	6	2	5	2	1	1	1	1	1	1	1	3	rs146098986		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:17726129G>A	uc003wxx.2	-	8	1031	c.707C>T	c.(706-708)ACG>ATG	p.T236M	FGL1_uc003wxy.2_Missense_Mutation_p.T236M|FGL1_uc003wxz.2_Missense_Mutation_p.T235M|FGL1_uc003wya.2_Missense_Mutation_p.T236M|FGL1_uc003wyb.2_Missense_Mutation_p.T236M|FGL1_uc003wyc.2_Missense_Mutation_p.T236M|FGL1_uc003wyd.2_RNA|FGL1_uc003wye.2_Missense_Mutation_p.T286M|FGL1_uc003wyf.2_Missense_Mutation_p.T206M	NM_201553	NP_963847	Q08830	FGL1_HUMAN	fibrinogen-like 1 precursor	236	Fibrinogen C-terminal.				signal transduction	fibrinogen complex	receptor binding				0				Colorectal(111;0.0573)|COAD - Colon adenocarcinoma(73;0.215)		TCTGTCCCACGTGCTGAATTT	0.453													27	239					0	0	1	0	0		A	17726129	A	A	17726129	3	1	153	1	0	0	0	0	1	0	0	0	5886	1145	40	1	239	1	FGL1	8	17726129	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	316705	17726129	128637893	718	82650											
NAT2	10	broad.mit.edu	37	chr8	18257712	18257712	+	Missense_Mutation	SNP	T	C	C	0	1	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	taagaagaaaccggggtgggTggtgtctccaggtcaatcaa	12	8	14	7	1	3	2	2	0	1	2	4	2	3	2	2	5	1	0	2	5	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:18257712T>C	uc003wyw.1	+	2	306	c.199T>C	c.(199-201)TGG>CGG	p.W67R		NM_000015	NP_000006	P11245	ARY2_HUMAN	N-acetyltransferase 2	67					xenobiotic metabolic process	cytosol	arylamine N-acetyltransferase activity			ovary(1)|skin(1)	2				Colorectal(111;0.0531)|COAD - Colon adenocarcinoma(73;0.21)		CCGGGGTGGGTGGTGTCTCCA	0.463									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				42	143					0	0	1	0	0		C	18257712	C	C	18257712	3	2	153	1	0	0	0	0	1	0	0	0	10195	1696	59	3	201	3	NAT2	8	18257712	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	531583	18257712	128106310	719	82651											
ATP6V1B2	526	broad.mit.edu	37	chr8	20070374	20070374	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgagaaacatgtattggtTattctaacagacatgagttc	13	14	9	5	0	1	3	0	2	1	2	2	4	1	3	0	1	2	3	0	1	4	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:20070374T>C	uc003wzp.2	+	9	1099	c.885T>C	c.(883-885)GTT>GTC	p.V295V		NM_001693	NP_001684	P21281	VATB2_HUMAN	vacuolar H+ATPase B2	295					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|endomembrane system|Golgi apparatus|melanosome|plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)		ATGTATTGGTTATTCTAACAG	0.393													76	225					0	0	1	0	0		C	20070374	C	C	20070374	2	2	153	1	0	0	0	0	0	0	0	1	1180	1741	61	3		3	ATP6V1B2	8	20070374	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1812662	20070374	126293648	720	82652											
NPM2	10361	broad.mit.edu	37	chr8	21891687	21891687	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaggaagaggaagaggaAgatgatgaggatgaggatgc	16	4	20	1	0	0	6	0	3	0	3	0	13	0	12	0	6	1	0	0	6	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:21891687A>T	uc003xab.2	+	6	1090	c.432A>T	c.(430-432)GAA>GAT	p.E144D	NPM2_uc003xac.2_Missense_Mutation_p.E144D|NPM2_uc003xad.2_Missense_Mutation_p.E144D|NPM2_uc003xae.2_Missense_Mutation_p.E144D|NPM2_uc003xaf.2_Intron	NM_182795	NP_877724	Q86SE8	NPM2_HUMAN	nucleoplasmin 2	144	Poly-Glu.				chromatin remodeling|embryo development|oocyte differentiation|positive regulation of meiosis|regulation of exit from mitosis|single fertilization	cytoplasmic chromatin|nuclear chromatin	histone binding|nucleic acid binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		aggaagaggaagatgatgagg	0.348													4	57					0	0	1	0	0		T	21891687	T	T	21891687	3	4	153	1	0	0	0	0	1	0	0	0	10607	69	3	5	450	5	NPM2	8	21891687	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1821313	21891687	124472335	721	82653											
REEP4	80346	broad.mit.edu	37	chr8	21997010	21997010	+	Silent	SNP	C	T	T	0	0	0	1	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	agcacggtctcgtagctgcgCtccttggcctgcacgatgta	6	10	12	13	4	1	0	0	0	1	0	3	1	2	0	2	2	4	6	2	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:21997010C>T	uc003xau.1	-	5	789	c.336G>A	c.(334-336)GAG>GAA	p.E112E	REEP4_uc010ltt.1_Silent_p.E112E|REEP4_uc011kyz.1_Silent_p.E112E	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	112						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)		CGTAGCTGCGCTCCTTGGCCT	0.642													15	38					0	0	1	0	0		T	21997010	T	T	21997010	2	4	153	1	0	0	0	0	0	0	0	1	13232	796	28	2		2	REEP4	8	21997010	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	105323	21997010	124367012	722	82654											
PIWIL2	55124	broad.mit.edu	37	chr8	22140652	22140652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtaccttcagcacaccGtcccggggtcccccgcagct	5	7	9	20	3	1	0	1	0	0	0	3	0	3	0	6	2	3	4	6	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:22140652G>A	uc003xbn.2	+	5	679	c.531G>A	c.(529-531)CCG>CCA	p.P177P	PIWIL2_uc011kzf.1_Silent_p.P177P|PIWIL2_uc010ltv.2_Silent_p.P177P	NM_018068	NP_060538	Q8TC59	PIWL2_HUMAN	piwi-like 2	177					DNA methylation involved in gamete generation|gene silencing by RNA|germ-line stem cell maintenance|multicellular organismal development|oogenesis|piRNA metabolic process|positive regulation of translation|RNA 5'-end processing|spermatogenesis	chromatoid body|pi-body	piRNA binding			skin(1)	1				Colorectal(74;0.018)|COAD - Colon adenocarcinoma(73;0.0707)		TCAGCACACCGTCCCGGGGTC	0.577													12	46					0	0	1	0	0		A	22140652	A	A	22140652	2	1	153	1	0	0	0	0	0	0	0	1	11977	1132	40	1		1	PIWIL2	8	22140652	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	143642	22140652	124223370	723	82655											
SORBS3	10174	broad.mit.edu	37	chr8	22415705	22415705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agattcaccggaaaatgccaGgtaagatacccttccagggc	13	7	10	11	1	1	2	1	0	0	2	2	3	2	3	4	3	2	1	4	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:22415705G>A	uc003xbv.2	+	5	818	c.478G>A	c.(478-480)GAC>AAC	p.D160N	SORBS3_uc011kzk.1_RNA	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	160	SoHo.				muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		GAAAATGCCAGGTAAGATACC	0.547													5	77					0	0	1	0	0		A	22415705	A	A	22415705	3	1	153	1	0	0	0	0	1	0	0	0	14954	1014	35	4	492	4	SORBS3	8	22415705	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	275053	22415705	123948317	724	82656											
PDLIM2	64236	broad.mit.edu	37	chr8	22452098	22452098	+	Missense_Mutation	SNP	T	C	C	0	1	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	actggaagctttggaggggaTggtggagggcgccaagcgga	9	6	20	6	2	0	0	0	0	0	0	0	5	0	5	1	8	2	1	1	8	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:22452098T>C	uc003xcc.1	+	10	1171	c.1037T>C	c.(1036-1038)ATG>ACG	p.M346T		NM_176871	NP_789847	Q96JY6	PDLI2_HUMAN	PDZ and LIM domain 2 isoform 1	Error:Variant_position_missing_in_Q96JY6_after_alignment						actin cytoskeleton|cell surface|cytoplasm|focal adhesion|nucleus	zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00579)|Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0626)		TTGGAGGGGATGGTGGAGGGC	0.552													35	119					0	0	1	0	0		C	22452098	C	C	22452098	3	2	153	1	0	0	0	0	1	0	0	0	11699	1464	51	3	1153	3	PDLIM2	8	22452098	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	36393	22452098	123911924	725	82657											
EBF2	64641	broad.mit.edu	37	chr8	25718687	25718687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaagctggctgggattcCtggggacgctgtagagagct	7	9	17	8	1	0	1	0	0	0	1	1	5	1	4	1	5	2	5	1	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:25718687C>T	uc003xes.1	-	13	1237	c.1220G>A	c.(1219-1221)AGG>AAG	p.R407K	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	407					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		GCTGGGATTCCTGGGGACGCT	0.522													34	144					0	0	1	0	0		T	25718687	T	T	25718687	3	4	153	1	0	0	0	0	1	0	0	0	4887	681	24	4	523	4	EBF2	8	25718687	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3266589	25718687	120645335	726	82658											
SCARA3	51435	broad.mit.edu	37	chr8	27516154	27516154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggaccagaccttacaggCccaggaggtgctctccacca	9	6	11	15	0	1	1	0	0	1	1	2	3	1	3	5	4	2	2	5	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:27516154C>T	uc003xga.1	+	5	608	c.467C>T	c.(466-468)GCC>GTC	p.A156V	SCARA3_uc003xgb.1_Missense_Mutation_p.A156V	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	156	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		ACCTTACAGGCCCAGGAGGTG	0.597													8	125					0	0	1	0	0		T	27516154	T	T	27516154	3	4	153	1	0	0	0	0	1	0	0	0	13904	739	26	2	485	2	SCARA3	8	27516154	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1797467	27516154	118847868	727	82659											
PURG	29942	broad.mit.edu	37	chr8	30889719	30889719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtctaatccgtaggaagcGaccccgctgattttccttta	8	14	8	11	3	1	1	0	1	1	0	3	3	3	2	4	1	1	2	4	1	4	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:30889719G>A	uc003xin.2	-	1	599	c.580C>T	c.(580-582)CGC>TGC	p.R194C	WRN_uc003xio.3_5'Flank|PURG_uc003xim.1_Missense_Mutation_p.R194C	NM_013357	NP_037489	Q9UJV8	PURG_HUMAN	purine-rich element binding protein G isoform A	194	By similarity.					nucleus	DNA binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.0895)|Kidney(114;0.108)		CGTAGGAAGCGACCCCGCTGA	0.488													41	122					0	0	1	0	0		A	30889719	A	A	30889719	3	1	153	1	0	0	0	0	1	0	0	0	12854	1058	37	1	576	1	PURG	8	30889719	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3373565	30889719	115474303	728	82660											
NRG1	3084	broad.mit.edu	37	chr8	32617802	32617802	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagaaaacagtaggcacagCagcccaactgggggcccaag	14	3	13	11	0	0	1	0	0	0	1	0	1	0	1	2	3	4	4	2	3	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:32617802C>T	uc003xiv.2	+	11	1663	c.1146C>T	c.(1144-1146)AGC>AGT	p.S382S	NRG1_uc011lbf.1_Silent_p.S379S|NRG1_uc010lvo.2_Silent_p.S379S|NRG1_uc003xiu.2_Silent_p.S387S|NRG1_uc003xiw.2_Silent_p.S379S|NRG1_uc003xit.2_Silent_p.S382S|NRG1_uc010lvr.2_Silent_p.S124S|NRG1_uc010lvs.2_Silent_p.S124S|NRG1_uc010lvp.2_Silent_p.S336S|NRG1_uc010lvq.2_Silent_p.S319S|NRG1_uc011lbg.1_Silent_p.S228S|NRG1_uc011lbh.1_Silent_p.S225S|NRG1_uc003xja.2_Silent_p.S193S	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	382	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		GTAGGCACAGCAGCCCAACTG	0.542													55	187					0	0	1	0	0		T	32617802	T	T	32617802	2	4	153	1	0	0	0	0	0	0	0	1	10666	709	25	2		2	NRG1	8	32617802	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1728083	32617802	113746220	729	82661											
ERLIN2	11160	broad.mit.edu	37	chr8	37597886	37597886	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttccccctcctctgcagaggCggtgccctgctgacttcgac	4	10	10	17	2	1	2	0	1	1	1	4	3	3	2	4	2	3	2	4	2	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:37597886C>T	uc003xke.3	+	3	226	c.111C>T	c.(109-111)GGC>GGT	p.G37G	uc003xkb.1_5'Flank|ERLIN2_uc003xkc.3_Silent_p.G37G|ERLIN2_uc003xkd.2_Silent_p.G37G|ERLIN2_uc003xkf.3_Silent_p.G37G|ERLIN2_uc003xkg.2_Silent_p.G37G	NM_007175	NP_009106	O94905	ERLN2_HUMAN	ER lipid raft associated 2 isoform 1	37	Lumenal (Potential).				ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	protein binding				0		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TCTGCAGAGGCGGTGCCCTGC	0.512													66	180					0	0	1	0	0		T	37597886	T	T	37597886	2	4	153	1	0	0	0	0	0	0	0	1	5241	755	27	1		1	ERLIN2	8	37597886	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4980084	37597886	108766136	730	82662											
GPR124	25960	broad.mit.edu	37	chr8	37688981	37688981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcggcgtgtgggcctcaggcGagtgggagtgcaccgtgtcc	4	8	18	11	4	1	0	1	0	0	0	3	2	2	1	3	4	1	1	3	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:37688981G>A	uc003xkj.2	+	8	1336	c.973G>A	c.(973-975)GAG>AAG	p.E325K	GPR124_uc010lvy.2_Missense_Mutation_p.E325K	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor	325	Extracellular (Potential).|Ig-like.				central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			GGCCTCAGGCGAGTGGGAGTG	0.662													17	38					0	0	1	0	0		A	37688981	A	A	37688981	3	1	153	1	0	0	0	0	1	0	0	0	6653	1059	37	1	982	1	GPR124	8	37688981	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	91095	37688981	108675041	731	82663											
TM2D2	83877	broad.mit.edu	37	chr8	38851132	38851132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaattccatctaaggcatgGcactggactgaagtgtgttc	10	12	10	9	0	2	1	1	1	1	0	4	2	3	2	1	3	0	3	1	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:38851132G>A	uc003xmk.2	-	3	446	c.363C>T	c.(361-363)TGC>TGT	p.C121C	TM2D2_uc003xml.2_Silent_p.C78C|TM2D2_uc003xmm.2_Silent_p.C78C|TM2D2_uc003xmn.2_Silent_p.C78C	NM_078473	NP_510882	Q9BX73	TM2D2_HUMAN	TM2 domain containing 2 isoform a	121						integral to membrane					0		all_lung(54;0.00338)|Lung NSC(58;0.0133)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			CTAAGGCATGGCACTGGACTG	0.453													16	65					0	0	1	0	0		A	38851132	A	A	38851132	2	1	153	1	0	0	0	0	0	0	0	1	15989	1195	42	2		2	TM2D2	8	38851132	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1162151	38851132	107512890	732	82664											
MYST3	7994	broad.mit.edu	37	chr8	41791956	41791956	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccttggtttcggtctcaGgactattgctgctgtctgct	3	16	11	11	1	2	0	1	0	2	0	5	1	3	1	1	3	3	5	1	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:41791956G>T	uc010lxb.2	-	18	4326	c.3782C>A	c.(3781-3783)CCT>CAT	p.P1261H	MYST3_uc010lxc.2_Missense_Mutation_p.P1261H|MYST3_uc003xon.3_Missense_Mutation_p.P1261H	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1261					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			TTCGGTCTCAGGACTATTGCT	0.219													4	16					0.0381472	0.0384538	1	1	0		T	41791956	T	T	41791956	3	4	153	1	0	0	0	0	1	0	0	0	10122	1000	35	5	2236	5	MYST3	8	41791956	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2940824	41791956	104572066	733	82665											
IKBKB	3551	broad.mit.edu	37	chr8	42178357	42178357	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagcaggggggaacgctggaCgacctgtgagtactggctgg	9	6	18	8	2	0	1	0	1	0	0	0	4	0	3	1	6	3	4	1	6	3	1	rs148836092		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:42178357C>T	uc003xow.1	+	16	1860	c.1683C>T	c.(1681-1683)GAC>GAT	p.D561D	IKBKB_uc010lxh.1_3'UTR|IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Silent_p.D338D|IKBKB_uc003xox.1_Silent_p.D282D|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Silent_p.D559D|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Silent_p.D502D	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	561					anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	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)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	GAACGCTGGACGACCTGTGAG	0.617													15	59					0	0	1	0	0		T	42178357	T	T	42178357	2	4	153	1	0	0	0	0	0	0	0	1	7627	535	19	1		1	IKBKB	8	42178357	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	386401	42178357	104185665	734	82666											
NPBWR1	2831	broad.mit.edu	37	chr8	53852765	53852765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatcgccgacttcctgctgCggcagtggcccttcggggag	5	8	14	14	4	0	0	0	0	0	0	3	2	1	1	3	4	2	2	3	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:53852765C>T	uc011ldu.1	+	1	298	c.298C>T	c.(298-300)CGG>TGG	p.R100W		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	100	Extracellular (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				CTTCCTGCTGCGGCAGTGGCC	0.597													3	15					0	0	1	0	0		T	53852765	T	T	53852765	3	4	153	1	0	0	0	0	1	0	0	0	10587	759	27	1	300	1	NPBWR1	8	53852765	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	11674408	53852765	92511257	735	82667											
PENK	5179	broad.mit.edu	37	chr8	57358398	57358398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagttgatgtcggccgggcGcactaggcggtagctgcacg	7	7	17	10	5	0	1	0	1	0	0	1	2	0	1	1	4	2	5	1	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:57358398G>A	uc003xsz.2	-	1	196	c.115C>T	c.(115-117)CGC>TGC	p.R39C	uc003xtb.1_RNA|PENK_uc003xta.3_Missense_Mutation_p.R39C|PENK_uc010lym.2_Missense_Mutation_p.R39C	NM_006211	NP_006202	P01210	PENK_HUMAN	proenkephalin	39					neuropeptide signaling pathway	extracellular region	neuropeptide hormone activity|opioid peptide activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_lung(136;0.229)	Epithelial(17;0.000873)|all cancers(17;0.0069)			TCGGCCGGGCGCACTAGGCGG	0.657													18	31					0	0	1	0	0		A	57358398	A	A	57358398	3	1	153	1	0	0	0	0	1	0	0	0	11746	1087	38	1	696	1	PENK	8	57358398	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3505633	57358398	89005624	736	82668											
PENK	5179	broad.mit.edu	37	chr8	57358505	57358505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgcaaagtgtcaggaacCgcgccatggactgcgaggag	12	5	15	9	3	1	0	1	0	0	0	1	4	1	3	2	3	3	1	2	3	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:57358505C>T	uc003xsz.2	-	1	89	c.8G>A	c.(7-9)CGG>CAG	p.R3Q	uc003xtb.1_RNA|PENK_uc003xta.3_Missense_Mutation_p.R3Q|PENK_uc010lym.2_Missense_Mutation_p.R3Q	NM_006211	NP_006202	P01210	PENK_HUMAN	proenkephalin	3					neuropeptide signaling pathway	extracellular region	neuropeptide hormone activity|opioid peptide activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_lung(136;0.229)	Epithelial(17;0.000873)|all cancers(17;0.0069)			TGTCAGGAACCGCGCCATGGA	0.697													7	5					0	0	1	0	0		T	57358505	T	T	57358505	3	4	153	1	0	0	0	0	1	0	0	0	11746	652	23	1	803	1	PENK	8	57358505	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	107	57358505	89005517	737	82669											
CYP7A1	1581	broad.mit.edu	37	chr8	59409729	59409729	+	Missense_Mutation	SNP	A	C	C	1	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	gtatttccatccatcgggtcAatgcttctgtgcccaaatgc	8	13	8	12	1	2	0	1	0	1	0	5	0	4	0	3	1	3	2	3	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:59409729A>C	uc003xtm.3	-	3	405	c.342T>G	c.(340-342)ATT>ATG	p.I114M		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	114					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				CCATCGGGTCAATGCTTCTGT	0.408									Neonatal_Giant_Cell_Hepatitis				30	98					0	0	1	0	0		C	59409729	C	C	59409729	3	2	153	1	0	0	0	0	1	0	0	0	4199	126	5	5	1188	5	CYP7A1	8	59409729	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2051224	59409729	86954293	738	82670											
ARMC1	55156	broad.mit.edu	37	chr8	66534566	66534566	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcttttctctgtttgcacgGcattctgccaagtatcgaag	8	15	8	10	2	3	0	0	0	3	0	5	1	3	0	1	1	2	4	1	1	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:66534566G>A	uc003xvl.2	-	3	442	c.207C>T	c.(205-207)TGC>TGT	p.C69C	ARMC1_uc011leo.1_Missense_Mutation_p.P31S	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein	69	ARM.				metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			TGTTTGCACGGCATTCTGCCA	0.353													53	144					0	0	1	0	0		A	66534566	A	A	66534566	2	1	153	1	0	0	0	0	0	0	0	1	950	1195	42	2		2	ARMC1	8	66534566	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7124837	66534566	79829456	739	82671											
VCPIP1	80124	broad.mit.edu	37	chr8	67547088	67547088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatttcctgcaatttttttCgctgggcctcaaccaaatca	9	14	5	13	1	2	0	2	0	0	0	4	0	3	0	4	1	2	2	4	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:67547088C>T	uc003xwn.2	-	3	3576	c.3317G>A	c.(3316-3318)CGA>CAA	p.R1106Q		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	1106					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CAATTTTTTTCGCTGGGCCTC	0.453													48	131					0	0	1	0	0		T	67547088	T	T	67547088	3	4	153	1	0	0	0	0	1	0	0	0	17167	884	31	1	355	1	VCPIP1	8	67547088	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1012522	67547088	78816934	740	82672											
CPA6	57094	broad.mit.edu	37	chr8	68396023	68396023	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaccacttcactttccagTttctattggcatccactcca	9	13	3	16	0	2	0	1	0	1	0	5	0	5	0	4	1	0	2	4	1	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:68396023T>C	uc003xxq.3	-	8	1074	c.818A>G	c.(817-819)AAC>AGC	p.N273S	CPA6_uc003xxr.3_Missense_Mutation_p.N125S|CPA6_uc003xxs.2_Missense_Mutation_p.N273S	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor	273					proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			CACTTTCCAGTTTCTATTGGC	0.443													67	241					0	0	1	0	0		C	68396023	C	C	68396023	3	2	153	1	0	0	0	0	1	0	0	0	3797	1725	60	3	511	3	CPA6	8	68396023	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	848935	68396023	77967999	741	82673											
PREX2	80243	broad.mit.edu	37	chr8	68942753	68942753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agttgctgaagcggactccaCggaaacacagtgactatgca	13	7	11	10	2	0	2	0	2	0	0	1	4	1	4	1	2	4	3	1	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:68942753C>T	uc003xxv.1	+	6	592	c.565C>T	c.(565-567)CGG>TGG	p.R189W	PREX2_uc003xxu.1_Missense_Mutation_p.R189W|PREX2_uc011lez.1_Missense_Mutation_p.R124W	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	189	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GCGGACTCCACGGAAACACAG	0.463													17	60					0	0	1	0	0		T	68942753	T	T	68942753	3	4	153	1	0	0	0	0	1	0	0	0	12499	527	19	1	587	1	PREX2	8	68942753	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	546730	68942753	77421269	742	82674											
KCNB2	9312	broad.mit.edu	37	chr8	73849351	73849351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccacaggagcagctggcCgtggcacagaccgaggtcat	9	6	14	12	2	1	1	1	0	0	1	2	3	2	2	3	4	2	3	3	4	0	0	rs141923254		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:73849351C>T	uc003xzb.2	+	3	2349	c.1761C>T	c.(1759-1761)GCC>GCT	p.A587A		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	587	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AGCAGCTGGCCGTGGCACAGA	0.547													21	60					0	0	1	0	0		T	73849351	T	T	73849351	2	4	153	1	0	0	0	0	0	0	0	1	8029	639	23	1		1	KCNB2	8	73849351	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4906598	73849351	72514671	743	82675											
PI15	51050	broad.mit.edu	37	chr8	75737662	75737662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccaaagccaggcggaagCgctacatttcgcagaatgac	12	6	10	13	3	0	2	0	1	0	1	2	3	1	3	3	2	3	2	3	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:75737662C>T	uc003yal.2	+	2	357	c.178C>T	c.(178-180)CGC>TGC	p.R60C	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.R60C	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	60						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			CAGGCGGAAGCGCTACATTTC	0.448													26	102					0	0	1	0	0		T	75737662	T	T	75737662	3	4	153	1	0	0	0	0	1	0	0	0	11887	768	27	1	180	1	PI15	8	75737662	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1888311	75737662	70626360	744	82676											
HNF4G	3174	broad.mit.edu	37	chr8	76471161	76471161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtttggagagttgcttctgCtcctgcccacactgcagagc	6	11	12	12	0	1	2	0	0	1	2	2	3	2	2	2	2	5	5	2	2	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:76471161C>T	uc003yaq.2	+	9	1141	c.871C>T	c.(871-873)CTC>TTC	p.L291F	HNF4G_uc003yar.2_Missense_Mutation_p.L328F	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	291					endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			GTTGCTTCTGCTCCTGCCCAC	0.433													38	108					0	0	1	0	0		T	76471161	T	T	76471161	3	4	153	1	0	0	0	0	1	0	0	0	7270	797	28	2	1012	2	HNF4G	8	76471161	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	733499	76471161	69892861	745	82677											
ZFHX4	79776	broad.mit.edu	37	chr8	77765551	77765551	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacattctcagttcaaacgcCcacggacaagaattacagat	15	8	7	11	2	2	2	2	0	1	2	3	4	2	3	1	1	2	1	1	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:77765551C>A	uc003yav.2	+	10	6646	c.6259C>A	c.(6259-6261)CCA>ACA	p.P2087T	ZFHX4_uc003yau.1_Missense_Mutation_p.P2132T|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2087T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2087	Homeobox 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GTTCAAACGCCCACGGACAAG	0.453										HNSCC(33;0.089)			7	35					0.00198382	0.00201596	1	1	0		A	77765551	A	A	77765551	3	1	153	1	0	0	0	0	1	0	0	0	17660	623	22	5	6428	5	ZFHX4	8	77765551	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1294390	77765551	68598471	746	82678											
KIAA1429	25962	broad.mit.edu	37	chr8	95502202	95502202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcgtaatggtggaagagggCctctgttaaaattgctctgg	9	12	14	6	1	2	1	0	0	2	1	3	2	2	2	1	4	1	3	1	4	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:95502202C>T	uc003ygo.1	-	23	5262	c.5249G>A	c.(5248-5250)GGC>GAC	p.G1750D	KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	1750					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			TGGAAGAGGGCCTCTGTTAAA	0.448													25	88					0	0	1	0	0		T	95502202	T	T	95502202	3	4	153	1	0	0	0	0	1	0	0	0	8247	739	26	2	197	2	KIAA1429	8	95502202	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	17736651	95502202	50861820	747	82679											
GDF6	392255	broad.mit.edu	37	chr8	97156813	97156813	+	Missense_Mutation	SNP	A	G	G	1	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	acctgcagccgcacgactccAccaccatgtcctcgtactgc	8	7	7	19	3	0	0	0	0	0	0	3	1	2	0	6	0	4	3	6	0	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:97156813A>G	uc003yhp.2	-	2	1446	c.1346T>C	c.(1345-1347)GTG>GCG	p.V449A		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	449					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GCACGACTCCACCACCATGTC	0.622													6	18					0	0	1	0	0		G	97156813	G	G	97156813	3	3	153	1	0	0	0	0	1	0	0	0	6332	159	6	3	25	3	GDF6	8	97156813	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1654611	97156813	49207209	748	82680											
MTERFD1	51001	broad.mit.edu	37	chr8	97270799	97270799	+	Silent	SNP	G	A	A	0	0	1	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	atctgaggctgagcagaaaaGccatgtaacagtgttcttgc	12	10	11	8	0	2	3	0	2	2	1	2	3	2	3	1	1	4	4	1	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:97270799G>A	uc003yhs.1	-	2	198	c.120C>T	c.(118-120)GGC>GGT	p.G40G	MTERFD1_uc003yhr.1_5'Flank|MTERFD1_uc010mbd.1_Silent_p.G40G	NM_015942	NP_057026	Q96E29	MTER1_HUMAN	MTERF domain containing 1 precursor	40					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)					GAGCAGAAAAGCCATGTAACA	0.423													52	225					0	0	1	0	0		A	97270799	A	A	97270799	2	1	153	1	0	0	0	0	0	0	0	1	9937	958	34	2		2	MTERFD1	8	97270799	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	113986	97270799	49093223	749	82681											
VPS13B	157680	broad.mit.edu	37	chr8	100866205	100866205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accttcctaacagcaggttgGctggtcactccacacacctc	9	9	7	16	0	1	0	1	0	0	0	4	0	3	0	4	3	2	3	4	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:100866205G>A	uc003yiv.2	+	56	10774	c.10663G>A	c.(10663-10665)GCT>ACT	p.A3555T	VPS13B_uc003yiw.2_Missense_Mutation_p.A3530T	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	3555					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CAGCAGGTTGGCTGGTCACTC	0.488													46	174					0	0	1	0	0		A	100866205	A	A	100866205	3	1	153	1	0	0	0	0	1	0	0	0	17216	1203	42	2	11075	2	VPS13B	8	100866205	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3595406	100866205	45497817	750	82682											
UBR5	51366	broad.mit.edu	37	chr8	103297393	103297393	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgtaagctagcttcttctcgCgcagtcatcctctctcttct	5	15	6	15	3	6	0	1	0	5	0	9	0	7	0	1	0	2	4	1	0	2	5	rs145137858	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:103297393C>T	uc003ykr.1	-	40	5691	c.5658G>A	c.(5656-5658)GCG>GCA	p.A1886A	UBR5_uc003yks.1_Silent_p.A1886A	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1886					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			CTTCTTCTCGCGCAGTCATCC	0.403													35	123					0	0	1	0	0		T	103297393	T	T	103297393	2	4	153	1	0	0	0	0	0	0	0	1	16931	755	27	1		1	UBR5	8	103297393	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2431188	103297393	43066629	751	82683											
TM7SF4	81501	broad.mit.edu	37	chr8	105361783	105361783	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaagcttgccagggtttGaggttcacttgaaactgcac	10	12	10	9	0	2	2	2	2	0	0	2	2	2	2	1	2	4	4	1	2	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:105361783G>T	uc003ylx.1	+	2	1052	c.1003G>T	c.(1003-1005)GAG>TAG	p.E335*		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	335					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GCCAGGGTTTGAGGTTCACTT	0.363													70	245					1.43987e-31	1.56375e-31	1	1	0		T	105361783	T	T	105361783	4	4	153	1	0	0	0	0	0	1	0	0	16001	1291	45	5	1005	5	TM7SF4	8	105361783	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2064390	105361783	41002239	752	82684											
DPYS	1807	broad.mit.edu	37	chr8	105459576	105459576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaattaagtctccattttcCgcatggacctgggcaattgc	9	12	9	11	1	1	0	0	0	1	0	3	1	2	1	3	2	1	3	3	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:105459576C>T	uc003yly.3	-	3	708	c.579G>A	c.(577-579)GCG>GCA	p.A193A		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	193					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTCCATTTTCCGCATGGACCT	0.453													33	75					0	0	1	0	0		T	105459576	T	T	105459576	2	4	153	1	0	0	0	0	0	0	0	1	4752	639	23	1		1	DPYS	8	105459576	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	97793	105459576	40904446	753	82685											
ZFPM2	23414	broad.mit.edu	37	chr8	106815064	106815064	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcataataaaatgtgagaaAaatgggaatttgaagcagcc	19	8	10	4	0	0	2	0	2	0	1	0	4	0	3	1	1	3	2	1	1	7	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:106815064A>G	uc003ymd.2	+	8	2777	c.2754A>G	c.(2752-2754)AAA>AAG	p.K918K	ZFPM2_uc011lhs.1_Silent_p.K649K	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	918					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AATGTGAGAAAAATGGGAATT	0.458													14	42					0	0	1	0	0		G	106815064	G	G	106815064	2	3	153	1	0	0	0	0	0	0	0	1	17683	11	1	3		3	ZFPM2	8	106815064	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1355488	106815064	39548958	754	82686											
RSPO2	340419	broad.mit.edu	37	chr8	109001362	109001362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcactctccatactggcGcatcccttctcttcgaagga	8	10	8	15	2	2	0	0	0	2	0	6	2	3	1	2	3	1	2	2	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:109001362G>A	uc003yms.2	-	3	863	c.205C>T	c.(205-207)CGC>TGC	p.R69C	RSPO2_uc003ymq.2_Missense_Mutation_p.R2C|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	69					Wnt receptor signaling pathway	extracellular region	heparin binding			skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			CCATACTGGCGCATCCCTTCT	0.473													25	83					0	0	1	0	0		A	109001362	A	A	109001362	3	1	153	1	0	0	0	0	1	0	0	0	13735	1087	38	1	542	1	RSPO2	8	109001362	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2186298	109001362	37362660	755	82687											
ENY2	56943	broad.mit.edu	37	chr8	110348379	110348379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcaagatgaacaaagatgCgcagatgagagcagcgatta	17	6	12	6	2	0	5	0	2	0	4	0	7	0	5	0	0	5	3	0	0	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:110348379C>T	uc003ynd.2	+	2	91	c.29C>T	c.(28-30)GCG>GTG	p.A10V	NUDCD1_uc003ynb.3_5'Flank|NUDCD1_uc010mcl.2_5'Flank|ENY2_uc003ync.2_Missense_Mutation_p.A5V	NM_020189	NP_064574	Q9NPA8	ENY2_HUMAN	enhancer of yellow 2 homolog	10					histone deubiquitination|mRNA transport|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity				0	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;9.05e-13)			AACAAAGATGCGCAGATGAGA	0.363													9	45					0	0	1	0	0		T	110348379	T	T	110348379	3	4	153	1	0	0	0	0	1	0	0	0	5154	768	27	1	35	1	ENY2	8	110348379	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1347017	110348379	36015643	756	82688											
SYBU	55638	broad.mit.edu	37	chr8	110588045	110588045	+	Missense_Mutation	SNP	T	A	A	0	1	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	tcttgttttggatgtttatgTccacaaaatatttctgaatg	10	19	7	5	0	2	1	0	1	2	0	3	2	3	2	1	1	0	2	1	1	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:110588045T>A	uc003ynj.3	-	7	1245	c.1082A>T	c.(1081-1083)GAC>GTC	p.D361V	SYBU_uc003yni.3_Missense_Mutation_p.D358V|SYBU_uc003ynk.3_Missense_Mutation_p.D242V|SYBU_uc010mco.2_Missense_Mutation_p.D360V|SYBU_uc003ynl.3_Missense_Mutation_p.D360V|SYBU_uc010mcp.2_Missense_Mutation_p.D361V|SYBU_uc010mcq.2_Missense_Mutation_p.D361V|SYBU_uc003yno.3_Missense_Mutation_p.D242V|SYBU_uc010mcr.2_Missense_Mutation_p.D361V|SYBU_uc003ynm.3_Missense_Mutation_p.D360V|SYBU_uc003ynn.3_Missense_Mutation_p.D360V|SYBU_uc010mcs.2_Missense_Mutation_p.D242V|SYBU_uc010mct.2_Missense_Mutation_p.D361V|SYBU_uc010mcu.2_Missense_Mutation_p.D360V|SYBU_uc003ynp.3_Missense_Mutation_p.D293V|SYBU_uc010mcv.2_Missense_Mutation_p.D361V|SYBU_uc003ynh.3_Missense_Mutation_p.D155V|SYBU_uc011lhw.1_Missense_Mutation_p.D231V	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	361	Sufficient for interaction with STX1A.|Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						GATGTTTATGTCCACAAAATA	0.448													7	128					0	0	1	0	0		A	110588045	A	A	110588045	3	1	153	1	0	0	0	0	1	0	0	0	15452	1667	58	5	913	5	SYBU	8	110588045	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	239666	110588045	35775977	757	82689											
CSMD3	114788	broad.mit.edu	37	chr8	113871489	113871489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaagattagagccacacGttttcactaaaagagaaatt	16	11	7	7	1	1	4	1	1	0	3	1	5	1	4	1	0	1	1	1	0	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:113871489G>A	uc003ynu.2	-	11	1799	c.1640C>T	c.(1639-1641)ACG>ATG	p.T547M	CSMD3_uc003ynt.2_Missense_Mutation_p.T507M|CSMD3_uc011lhx.1_Missense_Mutation_p.T443M	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	547	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGAGCCACACGTTTTCACTAA	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			31	89					0	0	1	0	0		A	113871489	A	A	113871489	3	1	153	1	0	0	0	0	1	0	0	0	3949	1145	40	1	9727	1	CSMD3	8	113871489	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3283444	113871489	32492533	758	82690											
EXT1	2131	broad.mit.edu	37	chr8	118847717	118847717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcatcgcctatgacggcaGcttggttccaattaatcact	9	13	7	12	2	2	1	2	1	1	0	5	1	3	1	2	2	1	3	2	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:118847717G>A	uc003yok.1	-	3	1903	c.1130C>T	c.(1129-1131)GCT>GTT	p.A377V		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	377	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TATGACGGCAGCTTGGTTCCA	0.488			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				27	76					0	0	1	0	0		A	118847717	A	A	118847717	3	1	153	1	0	0	0	0	1	0	0	0	5331	971	34	2	1146	2	EXT1	8	118847717	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4976228	118847717	27516305	759	82691											
SNTB1	6641	broad.mit.edu	37	chr8	121823613	121823613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacggacaggatggcgtcGcccacgtacagggcttgggt	7	8	15	11	4	1	0	1	0	0	0	2	2	1	2	1	5	1	2	1	5	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:121823613G>A	uc010mdg.2	-	1	697	c.471C>T	c.(469-471)GGC>GGT	p.G157G	SNTB1_uc003ype.2_Silent_p.G157G	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	157	PH 1.|PDZ.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			GGATGGCGTCGCCCACGTACA	0.647													21	37					0	0	1	0	0		A	121823613	A	A	121823613	2	1	153	1	0	0	0	0	0	0	0	1	14897	1074	38	1		1	SNTB1	8	121823613	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2975896	121823613	24540409	760	82692											
ZHX2	22882	broad.mit.edu	37	chr8	123965008	123965008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagctgcccccgaacccaagCgtccacacatcgctcaggtg	10	5	9	17	3	1	0	1	0	0	0	3	1	2	0	4	1	4	2	4	1	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:123965008C>T	uc003ypk.1	+	3	1825	c.1258C>T	c.(1258-1260)CGT>TGT	p.R420C		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	420	Required for interaction with NFYA.|Required for repressor activity.|Required for nuclear localization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CGAACCCAAGCGTCCACACAT	0.617													9	28					0	0	1	0	0		T	123965008	T	T	123965008	3	4	153	1	0	0	0	0	1	0	0	0	17701	768	27	1	1260	1	ZHX2	8	123965008	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2141395	123965008	22399014	761	82693											
ATAD2	29028	broad.mit.edu	37	chr8	124371546	124371546	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttagagctgctatatgatTagacaggccaccaacactat	13	12	7	9	0	0	3	0	1	0	2	0	3	0	3	2	1	3	2	2	1	6	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:124371546T>C	uc003yqh.3	-	11	1405	c.1297A>G	c.(1297-1299)AAT>GAT	p.N433D	ATAD2_uc011lii.1_Missense_Mutation_p.N224D|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.N433D	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	433					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			GCTATATGATTAGACAGGCCA	0.358													66	186					0	0	1	0	0		C	124371546	C	C	124371546	3	2	153	1	0	0	0	0	1	0	0	0	1072	1754	61	3	2947	3	ATAD2	8	124371546	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	406538	124371546	21992476	762	82694											
FER1L6	654463	broad.mit.edu	37	chr8	125022838	125022838	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaattgttttcacaggaatTacaactatttgccatttgag	12	16	6	7	0	1	1	1	1	0	0	1	2	1	2	1	1	3	1	1	1	5	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:125022838T>C	uc003yqw.2	+	14	1911	c.1705T>C	c.(1705-1707)TAC>CAC	p.Y569H	uc003yqx.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	569	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			TCACAGGAATTACAACTATTT	0.458													49	166					0	0	1	0	0		C	125022838	C	C	125022838	3	2	153	1	0	0	0	0	1	0	0	0	5829	1754	61	3	1755	3	FER1L6	8	125022838	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	651292	125022838	21341184	763	82695											
TMEM65	157378	broad.mit.edu	37	chr8	125332355	125332355	+	Missense_Mutation	SNP	A	G	G	1	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	tactaagacgtgtttgccacAtgtcaacttgctttggtgtg	8	15	10	8	1	1	1	1	0	0	1	1	1	1	1	1	1	4	2	1	1	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:125332355A>G	uc010mdl.2	-	6	1135	c.593T>C	c.(592-594)ATG>ACG	p.M198T		NM_194291	NP_919267	Q6PI78	TMM65_HUMAN	transmembrane protein 65	198						integral to membrane					0	Lung NSC(37;1.18e-11)|Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			TGTTTGCCACATGTCAACTTG	0.418													27	157					0	0	1	0	0		G	125332355	G	G	125332355	3	3	153	1	0	0	0	0	1	0	0	0	16219	217	8	3	137	3	TMEM65	8	125332355	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	309517	125332355	21031667	764	82696											
WISP1	8840	broad.mit.edu	37	chr8	134232963	134232963	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctccgagtgcgccccccGcgtctctggtgcccccaccc	2	7	10	22	4	1	0	0	0	1	0	3	1	2	0	8	1	3	0	8	1	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:134232963G>A	uc003yub.2	+	3	565	c.489G>A	c.(487-489)CCG>CCA	p.P163P	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	163	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			TGCGCCCCCCGCGTCTCTGGT	0.657													9	42					0	0	1	0	0		A	134232963	A	A	134232963	2	1	153	1	0	0	0	0	0	0	0	1	17398	1074	38	1		1	WISP1	8	134232963	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8900608	134232963	12131059	765	82697											
ZFAT	57623	broad.mit.edu	37	chr8	135614542	135614542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctctttgatgtgggtgcGcagcctgatggagctgacga	7	10	14	10	2	1	3	0	3	1	0	1	5	1	4	2	2	3	2	2	2	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:135614542G>A	uc003yup.2	-	6	1595	c.1420C>T	c.(1420-1422)CGC>TGC	p.R474C	ZFAT_uc003yun.2_Missense_Mutation_p.R462C|ZFAT_uc003yuo.2_Missense_Mutation_p.R462C|ZFAT_uc010meh.2_Missense_Mutation_p.R462C|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.R462C|ZFAT_uc010mej.2_Missense_Mutation_p.R412C|ZFAT_uc003yur.2_Missense_Mutation_p.R462C	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	474	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			ATGTGGGTGCGCAGCCTGATG	0.602													9	48					0	0	1	0	0		A	135614542	A	A	135614542	3	1	153	1	0	0	0	0	1	0	0	0	17657	1087	38	1	2355	1	ZFAT	8	135614542	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1381579	135614542	10749480	766	82698											
FAM135B	51059	broad.mit.edu	37	chr8	139263228	139263228	+	Missense_Mutation	SNP	A	C	C	1	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	ggccaagcgttcggctgctgAccatcggtgccccagccaca	7	6	12	16	3	0	1	0	1	0	0	2	1	0	1	5	3	4	3	5	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:139263228A>C	uc003yuy.2	-	6	569	c.398T>G	c.(397-399)GTC>GGC	p.V133G	FAM135B_uc003yux.2_Missense_Mutation_p.V34G|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	133										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TCGGCTGCTGACCATCGGTGC	0.582										HNSCC(54;0.14)			20	57					0	0	1	0	0		C	139263228	C	C	139263228	3	2	153	1	0	0	0	0	1	0	0	0	5460	275	10	5	3882	5	FAM135B	8	139263228	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3648686	139263228	7100794	767	82699											
GSDMD	79792	broad.mit.edu	37	chr8	144643943	144643943	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccacgagcgaaggcgcctgGccacagctgccctctggcct	6	6	12	17	3	1	0	0	0	1	0	2	2	2	0	5	3	3	1	5	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:144643943G>A	uc010mfe.2	+	10	1471	c.768G>A	c.(766-768)TGG>TGA	p.W256*	GSDMD_uc003yyf.2_Nonsense_Mutation_p.W304*|GSDMD_uc003yyg.2_Nonsense_Mutation_p.W256*|GSDMD_uc003yyh.2_Nonsense_Mutation_p.W187*	NM_024736	NP_079012	P57764	GSDMD_HUMAN	gasdermin D	256											0						AAGGCGCCTGGCCACAGCTGC	0.672													4	12					0	0	1	0	0		A	144643943	A	A	144643943	4	1	153	1	0	0	0	0	0	1	0	0	6835	1212	42	2	790	2	GSDMD	8	144643943	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5380715	144643943	1720079	768	82700											
PYCRL	65263	broad.mit.edu	37	chr8	144688646	144688646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatactcacgaaggccacGccactgccactgaggccagt	11	5	10	15	2	1	1	1	1	0	0	1	2	1	1	4	2	2	1	4	2	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:144688646G>A	uc003yyy.2	-	4	586	c.576C>T	c.(574-576)GGC>GGT	p.G192G	PYCRL_uc011lkm.1_Silent_p.G172G|PYCRL_uc011lkn.1_RNA	NM_023078	NP_075566	Q53H96	P5CR3_HUMAN	pyrroline-5-carboxylate reductase-like	180					proline biosynthetic process		pyrroline-5-carboxylate reductase activity				0	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;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			CGAAGGCCACGCCACTGCCAC	0.652													13	29					0	0	1	0	0		A	144688646	A	A	144688646	2	1	153	1	0	0	0	0	0	0	0	1	12882	1074	38	1		1	PYCRL	8	144688646	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	44703	144688646	1675376	769	82701											
ZNF623	9831	broad.mit.edu	37	chr8	144733328	144733328	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagatccactctggggacaGgcccttcgaatgtaaagact	12	8	11	10	1	1	2	0	0	1	2	3	5	2	3	2	3	0	1	2	3	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:144733328G>T	uc003yzd.2	+	1	1375	c.1286G>T	c.(1285-1287)AGG>ATG	p.R429M	ZNF623_uc011lkp.1_Missense_Mutation_p.R389M|ZNF623_uc003yzc.2_Missense_Mutation_p.R389M	NM_014789	NP_055604	O75123	ZN623_HUMAN	zinc finger protein 623 isoform 1	429					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	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;2.46e-41)|Epithelial(56;5.28e-40)|all cancers(56;5.23e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			TCTGGGGACAGGCCCTTCGAA	0.493													7	165					0.248553	0.249049	1	1	0		T	144733328	T	T	144733328	3	4	153	1	0	0	0	0	1	0	0	0	18072	1000	35	5	1288	5	ZNF623	8	144733328	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	44682	144733328	1630694	770	82702											
PLEC	5339	broad.mit.edu	37	chr8	144990747	144990747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgggcgtccaccgtgccGcgctgcagggcctcgtccag	3	6	16	16	6	0	0	0	0	0	0	3	0	2	0	5	2	3	2	5	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:144990747G>A	uc003zaf.1	-	32	13823	c.13653C>T	c.(13651-13653)CGC>CGT	p.R4551R	PLEC_uc003zab.1_Silent_p.R4414R|PLEC_uc003zac.1_Silent_p.R4418R|PLEC_uc003zad.2_Silent_p.R4414R|PLEC_uc003zae.1_Silent_p.R4382R|PLEC_uc003zag.1_Silent_p.R4392R|PLEC_uc003zah.2_Silent_p.R4400R|PLEC_uc003zaj.2_Silent_p.R4441R	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4551	Plectin 32.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CCACCGTGCCGCGCTGCAGGG	0.677													18	59					0	0	1	0	0		A	144990747	A	A	144990747	2	1	153	1	0	0	0	0	0	0	0	1	12071	1074	38	1		1	PLEC	8	144990747	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	257419	144990747	1373275	771	82703											
KIFC2	90990	broad.mit.edu	37	chr8	145694141	145694141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatggccagcctgcgtcaggGctgcggggacctccgaggtt	5	7	17	12	3	1	0	1	0	0	0	2	3	2	1	4	5	3	2	4	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:145694141G>A	uc003zcz.2	+	10	1102	c.1037G>A	c.(1036-1038)GGC>GAC	p.G346D		NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	346	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CTGCGTCAGGGCTGCGGGGAC	0.672													40	122					0	0	1	0	0		A	145694141	A	A	145694141	3	1	153	1	0	0	0	0	1	0	0	0	8329	1203	42	2	1075	2	KIFC2	8	145694141	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	703394	145694141	669881	772	82704											
ARHGAP39	80728	broad.mit.edu	37	chr8	145771001	145771001	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctgctccaggccagcatgTtggcgatggacaccttccgc	6	8	12	15	3	0	0	0	0	0	0	2	2	2	1	4	3	2	4	4	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:145771001T>C	uc003zdt.1	-	7	2708	c.2153A>G	c.(2152-2154)AAC>AGC	p.N718S	ARHGAP39_uc011llk.1_Missense_Mutation_p.N718S|ARHGAP39_uc003zds.1_Missense_Mutation_p.N718S	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	718					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGCCAGCATGTTGGCGATGGA	0.607													8	41					0	0	1	0	0		C	145771001	C	C	145771001	3	2	153	1	0	0	0	0	1	0	0	0	884	1725	60	3	1219	3	ARHGAP39	8	145771001	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	76860	145771001	593021	773	82705											
ZNF251	90987	broad.mit.edu	37	chr8	145948088	145948088	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattcattacacttgtagggTttctctcctgtgtgaatgat	8	17	8	8	0	2	2	1	2	1	0	4	2	3	2	1	1	1	2	1	1	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:145948088T>G	uc003zdv.3	-	5	1213	c.957A>C	c.(955-957)AAA>AAC	p.K319N		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	319					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		ACTTGTAGGGTTTCTCTCCTG	0.473													23	70					0	0	1	0	0		G	145948088	G	G	145948088	3	3	153	1	0	0	0	0	1	0	0	0	17821	1722	60	5	1062	5	ZNF251	8	145948088	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	177087	145948088	415934	774	82706											
RPL8	6132	broad.mit.edu	37	chr8	146015267	146015267	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaatgagacccactttgcgGccagcaggggcatctctgcg	8	7	13	13	2	1	1	0	1	1	1	2	2	1	1	2	3	3	3	2	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr8:146015267G>A	uc003zeb.2	-	6	807	c.696C>T	c.(694-696)GGC>GGT	p.G232G	RPL8_uc003zdz.2_RNA|RPL8_uc003zea.2_Silent_p.G196G|RPL8_uc003zec.2_Silent_p.G232G	NM_033301	NP_150644	P62917	RL8_HUMAN	ribosomal protein L8	232					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	rRNA binding|structural constituent of ribosome				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.191)		CCACTTTGCGGCCAGCAGGGG	0.587													59	165					0	0	1	0	0		A	146015267	A	A	146015267	2	1	153	1	0	0	0	0	0	0	0	1	13627	1190	42	2		2	RPL8	8	146015267	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	67179	146015267	348755	775	82707											
SMARCA2	6595	broad.mit.edu	37	chr9	2104016	2104016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttcagggctgaactgtatCgggcctcagggaagtttgag	8	10	16	7	1	2	2	2	2	0	0	3	3	2	3	1	4	1	4	1	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:2104016C>T	uc003zhc.2	+	23	3238	c.3139C>T	c.(3139-3141)CGG>TGG	p.R1047W	SMARCA2_uc003zhd.2_Missense_Mutation_p.R1047W|SMARCA2_uc010mha.2_Missense_Mutation_p.R980W	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	1047					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		TGAACTGTATCGGGCCTCAGG	0.408													59	222					0	0	1	0	0		T	2104016	T	T	2104016	3	4	153	1	0	0	0	0	1	0	0	0	14794	875	31	1	3225	1	SMARCA2	9	2104016	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		2104016	139109415	776	82708											
KIAA0020	9933	broad.mit.edu	37	chr9	2820070	2820070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaatacaatcaaatgccGccagtaaaaccaaatgggag	18	6	7	10	1	2	0	2	0	0	0	2	1	2	1	3	1	3	1	3	1	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:2820070G>A	uc003zhp.1	-	13	1313	c.1217C>T	c.(1216-1218)GCG>GTG	p.A406V	KIAA0020_uc010mhc.1_Missense_Mutation_p.A405V|KIAA0020_uc003zhq.1_Missense_Mutation_p.A405V	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	406	Pumilio 5.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		ATCAAATGCCGCCAGTAAAAC	0.373													19	41					0	0	1	0	0		A	2820070	A	A	2820070	3	1	153	1	0	0	0	0	1	0	0	0	8168	1087	38	1	753	1	KIAA0020	9	2820070	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	716054	2820070	138393361	777	82709											
KIAA0020	9933	broad.mit.edu	37	chr9	2831004	2831004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caatatttctcgaatatttgGctttacttaactcaaccaaa	14	15	3	9	1	2	0	1	0	1	0	3	1	2	0	1	1	3	1	1	1	8	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:2831004G>A	uc003zhp.1	-	7	731	c.635C>T	c.(634-636)GCC>GTC	p.A212V	KIAA0020_uc010mhc.1_Missense_Mutation_p.A211V|KIAA0020_uc003zhq.1_Missense_Mutation_p.A212V	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	212	Pumilio 2.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		CGAATATTTGGCTTTACTTAA	0.303													13	25					0	0	1	0	0		A	2831004	A	A	2831004	3	1	153	1	0	0	0	0	1	0	0	0	8168	1203	42	2	1359	2	KIAA0020	9	2831004	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	10934	2831004	138382427	778	82710											
JAK2	3717	broad.mit.edu	37	chr9	5089751	5089751	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtggtcgctgtaaaaaaGcttcagcatagtactgaaga	14	9	12	6	1	1	2	1	1	0	1	2	3	1	2	0	2	3	5	0	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:5089751G>A	uc010mhm.2	+	19	2762	c.2649G>A	c.(2647-2649)AAG>AAA	p.K883K	JAK2_uc003ziw.2_Silent_p.K883K	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	883	Protein kinase 2.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		CTGTAAAAAAGCTTCAGCATA	0.438		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				38	95					0	0	1	0	0		A	5089751	A	A	5089751	2	1	153	1	0	0	0	0	0	0	0	1	7954	962	34	2		2	JAK2	9	5089751	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2258747	5089751	136123680	779	82711											
KDM4C	23081	broad.mit.edu	37	chr9	6805770	6805770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggcagctggccaacagtGgcaagtgagtagaatcagtt	12	8	13	8	0	2	2	2	1	0	1	2	2	2	2	1	3	2	5	1	3	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:6805770G>A	uc003zkh.2	+	3	896	c.316G>A	c.(316-318)GGC>AGC	p.G106S	KDM4C_uc010mhu.2_Missense_Mutation_p.G128S|KDM4C_uc010mhw.2_Missense_Mutation_p.G106S|KDM4C_uc011lmi.1_Missense_Mutation_p.G106S|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.G106S|KDM4C_uc011lmk.1_Intron|KDM4C_uc010mhv.2_Missense_Mutation_p.G106S	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	106					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						GGCCAACAGTGGCAAGTGAGT	0.403													31	76					0	0	1	0	0		A	6805770	A	A	6805770	3	1	153	1	0	0	0	0	1	0	0	0	8146	1348	47	4	392	4	KDM4C	9	6805770	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1716019	6805770	134407661	780	82712											
KDM4C	23081	broad.mit.edu	37	chr9	6814672	6814672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggattacgaagatttggagcGcaagtactggaagaacttaa	15	9	12	5	2	0	2	0	0	0	2	0	6	0	5	0	3	4	2	0	3	7	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:6814672G>A	uc003zkh.2	+	4	942	c.362G>A	c.(361-363)CGC>CAC	p.R121H	KDM4C_uc010mhu.2_Missense_Mutation_p.R143H|KDM4C_uc010mhw.2_Missense_Mutation_p.R121H|KDM4C_uc011lmi.1_Missense_Mutation_p.R121H|KDM4C_uc011lmj.1_Intron|KDM4C_uc003zkg.2_Missense_Mutation_p.R121H|KDM4C_uc011lmk.1_5'UTR|KDM4C_uc010mhv.2_Missense_Mutation_p.R121H	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	121					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						GATTTGGAGCGCAAGTACTGG	0.363													38	140					0	0	1	0	0		A	6814672	A	A	6814672	3	1	153	1	0	0	0	0	1	0	0	0	8146	1087	38	1	442	1	KDM4C	9	6814672	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8902	6814672	134398759	781	82713											
MPDZ	8777	broad.mit.edu	37	chr9	13140138	13140138	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctctggctctgactctgacTgactgggtgcctgtgggaac	5	12	13	11	0	3	3	0	3	3	0	4	4	3	4	1	3	2	1	1	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:13140138T>C	uc010mia.1	-	27	3908	c.3851A>G	c.(3850-3852)CAG>CGG	p.Q1284R	MPDZ_uc010mib.2_5'Flank|MPDZ_uc010mhx.2_Missense_Mutation_p.Q106R|MPDZ_uc011lmm.1_Missense_Mutation_p.Q143R|MPDZ_uc003zkz.3_5'UTR|MPDZ_uc010mhy.2_Missense_Mutation_p.Q1284R|MPDZ_uc010mhz.2_Missense_Mutation_p.Q1251R|MPDZ_uc011lmn.1_Missense_Mutation_p.Q1251R|MPDZ_uc003zlb.3_Missense_Mutation_p.Q1284R	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1284					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TGACTCTGACTGACTGGGTGC	0.468													42	163					0	0	1	0	0		C	13140138	C	C	13140138	3	2	153	1	0	0	0	0	1	0	0	0	9740	1580	55	3	2350	3	MPDZ	9	13140138	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	6325466	13140138	128073293	782	82714											
ZDHHC21	340481	broad.mit.edu	37	chr9	14674299	14674299	+	Missense_Mutation	SNP	A	G	G	1	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	aatcaaacccatgcagcaccAaccatgtgggtcaacaacaa	17	5	6	13	0	2	0	2	0	0	0	2	0	2	0	3	1	6	2	3	1	6	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:14674299A>G	uc003zli.2	-	4	510	c.40T>C	c.(40-42)TGG>CGG	p.W14R	ZDHHC21_uc003zlg.1_Intron	NM_178566	NP_848661	Q8IVQ6	ZDH21_HUMAN	zinc finger, DHHC-type containing 21	14					nitric oxide metabolic process|regulation of nitric-oxide synthase activity	Golgi membrane|integral to membrane	palmitoyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(50;4.31e-06)		ATGCAGCACCAACCATGTGGG	0.408													38	111					0	0	1	0	0		G	14674299	G	G	14674299	3	3	153	1	0	0	0	0	1	0	0	0	17637	117	5	3	777	3	ZDHHC21	9	14674299	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1534161	14674299	126539132	783	82715											
CNTLN	54875	broad.mit.edu	37	chr9	17484293	17484293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctttccaatatgttacagGctttggccaaagagttgcaa	11	14	8	8	0	1	1	0	0	1	1	2	1	2	1	2	2	2	4	2	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:17484293G>A	uc003zmz.2	+	24	3879	c.3853G>A	c.(3853-3855)GCT>ACT	p.A1285T	CNTLN_uc003zmy.2_Missense_Mutation_p.A1286T|CNTLN_uc010mio.2_Missense_Mutation_p.A965T	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1286	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		TATGTTACAGGCTTTGGCCAA	0.318													42	161					0	0	1	0	0		A	17484293	A	A	17484293	3	1	153	1	0	0	0	0	1	0	0	0	3642	1217	42	2	3980	2	CNTLN	9	17484293	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2809994	17484293	123729138	784	82716											
HAUS6	54801	broad.mit.edu	37	chr9	19058515	19058515	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaattccacaacatagtTttatttgtggaaggtttgtt	13	16	8	4	0	0	1	0	0	0	1	1	2	1	2	1	2	1	3	1	2	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:19058515T>G	uc003znk.2	-	16	2503	c.2250A>C	c.(2248-2250)AAA>AAC	p.K750N	HAUS6_uc011lmz.1_Missense_Mutation_p.K470N|HAUS6_uc003znl.1_Missense_Mutation_p.K614N	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	750					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						ACAACATAGTTTTATTTGTGG	0.358													8	60					0	0	1	0	0		G	19058515	G	G	19058515	3	3	153	1	0	0	0	0	1	0	0	0	6986	1838	64	5	625	5	HAUS6	9	19058515	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1574222	19058515	122154916	785	82717											
KIAA1797	54914	broad.mit.edu	37	chr9	20953057	20953057	+	Frame_Shift_Del	DEL	A	-	-																															ggcttcttcattacaggaggAaaaaaaggcaagtgagcaca																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:20953057delA	uc003zog.1	+	37	4488	c.4125delA	c.(4123-4125)GGAfs	p.G1375fs	KIAA1797_uc003zoh.1_Frame_Shift_Del_p.G811fs	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	1375						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TTACAGGAGGAAAAAAAGGCA	0.368													22	51	---	---	---	---						.	-	20953057	-	-	20953057	7	5	153	1	0	1	0	1	0	0	0	0	8274	233	9	0	4259	0	KIAA1797	9	20953057	Frame_Shift_Del	DEL	A	TCGA-CG-5723-01A-11D-1600-08	1894542	20953057	120260374	786	82718											
B4GALT1	2683	broad.mit.edu	37	chr9	33167076	33167076	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gggtgacgccaaggtgcagaGcgcagacggccacgagcagg	10	2	18	11	4	0	3	0	1	0	2	0	4	0	3	2	4	3	3	2	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:33167076G>A	uc003zsg.2	-	1	281	c.92C>T	c.(91-93)GCT>GTT	p.A31V		NM_001497	NP_001488	P15291	B4GT1_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	31	Helical; Signal-anchor for type II membrane protein; (Potential).			AL -> VW (in Ref. 1; AAA35936/AAA35937 and 6; AAA68220).	oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	basolateral plasma membrane|brush border membrane|desmosome|external side of plasma membrane|extracellular region|glycocalyx|Golgi cisterna membrane|Golgi trans cisterna|integral to membrane	alpha-tubulin binding|beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|beta-tubulin binding|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity|protein binding|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(29;0.0084)	GBM - Glioblastoma multiforme(74;0.121)	N-Acetyl-D-glucosamine(DB00141)	AAGGTGCAGAGCGCAGACGGC	0.716													4	11					0	0	1	0	0		A	33167076	A	A	33167076	3	1	153	1	0	0	0	0	1	0	0	0	1271	971	34	2	1128	2	B4GALT1	9	33167076	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	12214019	33167076	108046355	787	82719											
NOL6	65083	broad.mit.edu	37	chr9	33462740	33462740	+	Silent	SNP	T	C	C	0	1	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	acagcaaagtcctccaggatTgcttcaacattgggcaccat	12	9	8	12	0	1	0	1	0	0	0	3	1	3	1	3	2	3	3	3	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:33462740T>C	uc003zsz.2	-	26	3464	c.3363A>G	c.(3361-3363)GCA>GCG	p.A1121A	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_Silent_p.A175A|NOL6_uc003zta.2_Silent_p.A674A|NOL6_uc010mjv.2_Silent_p.A1118A|NOL6_uc011lob.1_Silent_p.A1069A|NOL6_uc003ztb.1_Intron	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	1121					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		CCTCCAGGATTGCTTCAACAT	0.567													25	69					0	0	1	0	0		C	33462740	C	C	33462740	2	2	153	1	0	0	0	0	0	0	0	1	10544	1799	63	3		3	NOL6	9	33462740	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	295664	33462740	107750691	788	82720											
KIF24	347240	broad.mit.edu	37	chr9	34311229	34311229	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggactcctaatttggagtagTccttcattgtaatcttggct	8	16	9	8	0	2	0	1	0	1	0	4	2	4	2	2	3	0	3	2	3	3	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:34311229T>C	uc003zua.3	-	2	236	c.116A>G	c.(115-117)GAC>GGC	p.D39G	KIF24_uc010mkb.2_Missense_Mutation_p.D70G	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	39	SAM.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			TTTGGAGTAGTCCTTCATTGT	0.368													16	39					0	0	1	0	0		C	34311229	C	C	34311229	3	2	153	1	0	0	0	0	1	0	0	0	8308	1667	58	3	4038	3	KIF24	9	34311229	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	848489	34311229	106902202	789	82721											
VCP	7415	broad.mit.edu	37	chr9	35067913	35067913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacatcccctaggcgtacacGaaggttattccgaacaactc	12	8	8	13	3	0	0	0	0	0	0	3	3	2	0	3	2	3	2	3	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:35067913G>A	uc003zvy.2	-	3	666	c.277C>T	c.(277-279)CGT>TGT	p.R93C	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_5'UTR|VCP_uc010mki.1_Missense_Mutation_p.R48C	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	93					activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			AGGCGTACACGAAGGTTATTC	0.473													4	72					0	0	1	0	0		A	35067913	A	A	35067913	3	1	153	1	0	0	0	0	1	0	0	0	17166	1058	37	1	2203	1	VCP	9	35067913	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	756684	35067913	106145518	790	82722											
UNC13B	10497	broad.mit.edu	37	chr9	35403768	35403768	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgggaaatgaggaggggcCcgagtcctatgagttgcaga	10	7	16	8	1	0	3	0	2	0	1	1	6	1	5	3	4	1	2	3	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:35403768C>A	uc003zwq.2	+	39	4806	c.4514C>A	c.(4513-4515)CCC>CAC	p.P1505H	UNC13B_uc003zwr.2_Missense_Mutation_p.P1524H|ATP8B5P_uc010mkn.1_5'Flank|ATP8B5P_uc010mko.2_5'Flank|ATP8B5P_uc010mkp.2_5'Flank|ATP8B5P_uc003zwu.2_5'Flank	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	1505	C2 3.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			GAGGAGGGGCCCGAGTCCTAT	0.562													20	50					1.10513e-12	1.16676e-12	1	1	0		A	35403768	A	A	35403768	3	1	153	1	0	0	0	0	1	0	0	0	17011	623	22	5	4668	5	UNC13B	9	35403768	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	335855	35403768	105809663	791	82723											
RUSC2	9853	broad.mit.edu	37	chr9	35555607	35555607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggaacaggaagcttgccGcctctgggctcctggcgatc	7	8	13	13	2	1	0	0	0	1	0	3	3	2	2	3	4	3	2	3	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:35555607G>A	uc003zww.2	+	3	2820	c.2565G>A	c.(2563-2565)CCG>CCA	p.P855P	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Silent_p.P855P	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	855						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GAAGCTTGCCGCCTCTGGGCT	0.637													16	28					0	0	1	0	0		A	35555607	A	A	35555607	2	1	153	1	0	0	0	0	0	0	0	1	13776	1074	38	1		1	RUSC2	9	35555607	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	151839	35555607	105657824	792	82724											
FAM166B	730112	broad.mit.edu	37	chr9	35563290	35563290	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgtgcggtggacagggggCcaggctaggccaggagggcc	7	4	21	9	1	0	0	0	0	0	0	0	2	0	2	3	8	1	1	3	8	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:35563290C>T	uc010mkr.2	-	2	230	c.159G>A	c.(157-159)TGG>TGA	p.W53*	FAM166B_uc011lov.1_Nonsense_Mutation_p.W53*|FAM166B_uc011low.1_Nonsense_Mutation_p.W53*|FAM166B_uc003zwy.2_Nonsense_Mutation_p.W53*	NM_001164310	NP_001157782	A8MTA8	F166B_HUMAN	hypothetical protein LOC730112 isoform 1	53											0						GGACAGGGGGCCAGGCTAGGC	0.617													31	79					0	0	1	0	0		T	35563290	T	T	35563290	4	4	153	1	0	0	0	0	0	1	0	0	5493	740	26	2	507	2	FAM166B	9	35563290	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7683	35563290	105650141	793	82725											
TESK1	7016	broad.mit.edu	37	chr9	35609368	35609368	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacctgttcctcggcctccCaaccctggtcccctagatca	6	9	7	19	1	1	1	1	0	0	1	5	1	4	1	7	2	1	2	7	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:35609368C>T	uc003zxa.2	+	10	1846	c.1510C>T	c.(1510-1512)CAA>TAA	p.Q504*	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Nonsense_Mutation_p.Q344*	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	504					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CTCGGCCTCCCAACCCTGGTC	0.657													9	50					0	0	1	0	0		T	35609368	T	T	35609368	4	4	153	1	0	0	0	0	0	1	0	0	15792	595	21	4	1548	4	TESK1	9	35609368	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	46078	35609368	105604063	794	82726											
GRHPR	9380	broad.mit.edu	37	chr9	37428512	37428512	+	Silent	SNP	C	T	T	0	0	0	1	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	cctcgtggaagcccctctggCtgtgtggctatggactcacg	5	10	13	13	2	2	0	1	0	1	0	3	2	2	2	3	4	1	2	3	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:37428512C>T	uc003zzu.1	+	5	477	c.436C>T	c.(436-438)CTG>TTG	p.L146L	GRHPR_uc010mlu.2_Silent_p.L66L|GRHPR_uc010mlv.1_Silent_p.L66L|GRHPR_uc003zzt.1_Silent_p.L66L|GRHPR_uc003zzv.1_5'Flank|GRHPR_uc003zzw.1_5'Flank	NM_012203	NP_036335	Q9UBQ7	GRHPR_HUMAN	glyoxylate reductase/hydroxypyruvate reductase	146					cellular nitrogen compound metabolic process|excretion|glyoxylate metabolic process	peroxisomal matrix	glycerate dehydrogenase activity|glyoxylate reductase (NADP) activity|hydroxypyruvate reductase activity|NAD binding|protein binding				0				GBM - Glioblastoma multiforme(29;0.00687)		GCCCCTCTGGCTGTGTGGCTA	0.682													24	88					0	0	1	0	0		T	37428512	T	T	37428512	2	4	153	1	0	0	0	0	0	0	0	1	6782	796	28	2		2	GRHPR	9	37428512	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1819144	37428512	103784919	795	82727											
FRMPD1	22844	broad.mit.edu	37	chr9	37746591	37746591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccggcacagggaggcagCggggaacctgagggatgtgg	8	3	20	10	3	0	1	0	1	0	0	0	4	0	4	2	7	2	2	2	7	1	0	rs150133117		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:37746591C>T	uc004aag.1	+	16	4606	c.4562C>T	c.(4561-4563)GCG>GTG	p.A1521V	FRMPD1_uc004aah.1_Missense_Mutation_p.A1521V	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1521						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		AGGGAGGCAGCGGGGAACCTG	0.607													27	64					0	0	1	0	0		T	37746591	T	T	37746591	3	4	153	1	0	0	0	0	1	0	0	0	6071	768	27	1	4620	1	FRMPD1	9	37746591	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	318079	37746591	103466840	796	82728											
PRKACG	5568	broad.mit.edu	37	chr9	71628327	71628327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggccatctcatagatgaGcacccctagggcccaccagt	10	6	9	16	1	1	2	1	1	1	1	2	2	1	2	5	2	1	1	5	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:71628327G>A	uc004agy.2	-	1	713	c.682C>T	c.(682-684)CTC>TTC	p.L228F		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	228	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						TCATAGATGAGCACCCCTAGG	0.612													13	55					0	0	1	0	0		A	71628327	A	A	71628327	3	1	153	1	0	0	0	0	1	0	0	0	12521	971	34	2	377	2	PRKACG	9	71628327	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	33881736	71628327	69585104	797	82729											
TMEM2	23670	broad.mit.edu	37	chr9	74329881	74329881	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgttcgaggcttctggtCtattcctccagtgcctacat	7	15	8	11	1	2	0	0	0	2	0	5	1	4	0	3	2	2	2	3	2	3	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:74329881C>A	uc011lsa.1	-	15	3100	c.2560G>T	c.(2560-2562)GAC>TAC	p.D854Y	TMEM2_uc010mos.2_Missense_Mutation_p.D791Y|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	854						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		GGCTTCTGGTCTATTCCTCCA	0.453													26	129					4.7796e-09	4.99358e-09	1	1	0		A	74329881	A	A	74329881	3	1	153	1	0	0	0	0	1	0	0	0	16146	913	32	5	1631	5	TMEM2	9	74329881	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2701554	74329881	66883550	798	82730											
ALDH1A1	216	broad.mit.edu	37	chr9	75539031	75539031	+	Silent	SNP	T	G	G	0	1	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	ccaggaacaatattcactacTccaggaggaaaccctgccta	14	7	7	13	0	1	0	1	0	0	0	2	3	2	3	4	3	4	0	4	3	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:75539031T>G	uc004ajd.2	-	7	704	c.651A>C	c.(649-651)GGA>GGC	p.G217G	ALDH1A1_uc011lsh.1_Silent_p.G138G|ALDH1A1_uc011lsg.1_Silent_p.G43G	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	217					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	TATTCACTACTCCAGGAGGAA	0.393													39	131					0	0	1	0	0		G	75539031	G	G	75539031	2	3	153	1	0	0	0	0	0	0	0	1	490	1538	54	5		5	ALDH1A1	9	75539031	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1209150	75539031	65674400	799	82731											
VPS13A	23230	broad.mit.edu	37	chr9	79952237	79952237	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaggaattgactttgaagaGattataaaaaatgatggtgc	17	11	11	2	0	0	4	0	3	0	1	0	7	0	5	0	2	1	0	0	2	7	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:79952237G>C	uc004akr.2	+	47	6422	c.6162G>C	c.(6160-6162)GAG>GAC	p.E2054D	VPS13A_uc004akp.3_Missense_Mutation_p.E2054D|VPS13A_uc004akq.3_Missense_Mutation_p.E2054D|VPS13A_uc004aks.2_Missense_Mutation_p.E2015D|VPS13A_uc004akt.2_Missense_Mutation_p.E394D	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2054					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ACTTTGAAGAGATTATAAAAA	0.289													24	51					0	0	1	0	0		C	79952237	C	C	79952237	3	2	153	1	0	0	0	0	1	0	0	0	17215	933	33	5	6348	5	VPS13A	9	79952237	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4413206	79952237	61261194	800	82732											
SHC3	53358	broad.mit.edu	37	chr9	91657048	91657048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaggtgggtgcttctcccGtgggggccacgtgcagtttc	3	11	16	11	3	1	0	0	0	1	0	3	0	1	0	2	4	2	4	2	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:91657048G>A	uc004aqg.2	-	10	1560	c.1253C>T	c.(1252-1254)ACG>ATG	p.T418M		NM_016848	NP_058544	Q92529	SHC3_HUMAN	src homology 2 domain-containing transforming	418	CH1.				central nervous system development|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	protein binding|signal transducer activity			lung(3)|skin(1)	4						TGCTTCTCCCGTGGGGGCCAC	0.572													36	102					0	0	1	0	0		A	91657048	A	A	91657048	3	1	153	1	0	0	0	0	1	0	0	0	14297	1145	40	1	543	1	SHC3	9	91657048	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	11704811	91657048	49556383	801	82733											
SEMA4D	10507	broad.mit.edu	37	chr9	91994251	91994251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacaaggtgggggccactaCgggctttggaaccaccttca	9	8	13	11	1	1	1	1	1	0	0	1	2	1	2	3	5	2	1	3	5	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:91994251C>T	uc004aqo.1	-	18	2529	c.1957G>A	c.(1957-1959)GTA>ATA	p.V653I	SEMA4D_uc011ltm.1_Intron|SEMA4D_uc011ltn.1_Intron|SEMA4D_uc011lto.1_Intron|SEMA4D_uc004aqp.1_Missense_Mutation_p.V651I	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	653	Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						GGGGCCACTACGGGCTTTGGA	0.557													74	262					0	0	1	0	0		T	91994251	T	T	91994251	3	4	153	1	0	0	0	0	1	0	0	0	14059	536	19	1	1205	1	SEMA4D	9	91994251	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	337203	91994251	49219180	802	82734											
ROR2	4920	broad.mit.edu	37	chr9	94495680	94495680	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgaactgtgagcactggtCcgacaggtgcgtagacgtgc	8	7	16	10	4	0	2	0	1	0	1	1	4	1	2	1	3	4	2	1	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:94495680C>A	uc004arj.1	-	6	860	c.661G>T	c.(661-663)GAC>TAC	p.D221Y	ROR2_uc004ari.1_Missense_Mutation_p.D81Y|ROR2_uc004ark.2_Missense_Mutation_p.D221Y	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	221	FZ.|Extracellular (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GAGCACTGGTCCGACAGGTGC	0.642													5	17					0.217242	0.217785	1	1	0		A	94495680	A	A	94495680	3	1	153	1	0	0	0	0	1	0	0	0	13552	855	30	5	2186	5	ROR2	9	94495680	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2501429	94495680	46717751	803	82735											
BICD2	23299	broad.mit.edu	37	chr9	95481241	95481241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactggtgcggccggccccGccctggccctcgcggtagta	3	6	16	16	5	0	0	0	0	0	0	1	1	0	1	5	6	1	2	5	6	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:95481241G>A	uc004aso.1	-	5	1743	c.1686C>T	c.(1684-1686)GGC>GGT	p.G562G	BICD2_uc004asp.1_Silent_p.G562G	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	562					microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						GGCCGGCCCCGCCCTGGCCCT	0.687													5	17					0	0	1	0	0		A	95481241	A	A	95481241	2	1	153	1	0	0	0	0	0	0	0	1	1430	1074	38	1		1	BICD2	9	95481241	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	985561	95481241	45732190	804	82736											
BICD2	23299	broad.mit.edu	37	chr9	95481833	95481833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttctgtgtgtcctgcagcGttgccagcaggcccgccttt	3	12	12	14	2	1	0	0	0	1	0	2	0	2	0	4	1	4	4	4	1	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:95481833G>A	uc004aso.1	-	5	1151	c.1094C>T	c.(1093-1095)ACG>ATG	p.T365M	BICD2_uc004asp.1_Missense_Mutation_p.T365M	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	365	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						GTCCTGCAGCGTTGCCAGCAG	0.622													3	10					0	0	1	0	0		A	95481833	A	A	95481833	3	1	153	1	0	0	0	0	1	0	0	0	1430	1145	40	1	1495	1	BICD2	9	95481833	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	592	95481833	45731598	805	82737											
WNK2	65268	broad.mit.edu	37	chr9	95993293	95993293	+	Silent	SNP	T	C	C	0	1	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	atccaccgagacctgaaatgTgacaatattttcatcaccgg	13	10	7	11	2	2	3	2	2	0	1	3	4	3	3	4	1	0	0	4	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:95993293T>C	uc004ati.1	+	3	978	c.978T>C	c.(976-978)TGT>TGC	p.C326C	WNK2_uc011lud.1_Silent_p.C326C|WNK2_uc004atj.2_Silent_p.C326C|WNK2_uc010mrc.1_Silent_p.C326C|WNK2_uc010mrd.1_5'UTR	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	326	Protein kinase.				intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						ACCTGAAATGTGACAATATTT	0.537													45	172					0	0	1	0	0		C	95993293	C	C	95993293	2	2	153	1	0	0	0	0	0	0	0	1	17404	1702	59	3		3	WNK2	9	95993293	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	511460	95993293	45220138	806	82738											
WNK2	65268	broad.mit.edu	37	chr9	95997109	95997109	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtactcccgagttcatggcGcccgagatgtacgaggagca	9	7	14	11	4	1	1	1	0	0	1	2	5	2	2	2	3	3	4	2	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:95997109G>A	uc004ati.1	+	4	1095	c.1095G>A	c.(1093-1095)GCG>GCA	p.A365A	WNK2_uc011lud.1_Silent_p.A365A|WNK2_uc004atj.2_Silent_p.A365A|WNK2_uc004atk.2_Silent_p.A2A|WNK2_uc010mrc.1_Silent_p.A365A|WNK2_uc010mrd.1_Silent_p.A2A	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	365	Protein kinase.				intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						AGTTCATGGCGCCCGAGATGT	0.617													5	31					0	0	1	0	0		A	95997109	A	A	95997109	2	1	153	1	0	0	0	0	0	0	0	1	17404	1074	38	1		1	WNK2	9	95997109	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3816	95997109	45216322	807	82739											
FAM120A	23196	broad.mit.edu	37	chr9	96261170	96261170	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccaccacattacttaggTaagtaaataaaagcctgtga	16	10	6	9	0	0	1	0	1	0	0	1	1	1	1	3	1	2	2	3	1	7	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:96261170T>C	uc004atw.2	+	5	1055	c.1030_splice	c.e5+2	p.A344_splice	FAM120A_uc004atv.2_Splice_Site_p.A344_splice|FAM120A_uc004atx.2_Splice_Site_p.A126_splice|FAM120A_uc004aty.2_Splice_Site_p.A126_splice	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator							cytoplasm|plasma membrane	RNA binding				0						ATTACTTAGGTAAGTAAATAA	0.313													57	241					0	0	1	0	0		C	96261170	C	C	96261170	5	2	153	1	0	0	0	0	0	0	1	0	5426	1652	57	3	1050	3	FAM120A	9	96261170	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	264061	96261170	44952261	808	82740											
PHF2	5253	broad.mit.edu	37	chr9	96438043	96438043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttccatcgagaccgggctggCggctgctgcagctaagttgt	6	10	14	11	3	0	1	0	0	0	1	2	2	1	1	2	3	3	6	2	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:96438043C>T	uc004aub.2	+	20	2951	c.2804C>T	c.(2803-2805)GCG>GTG	p.A935V	PHF2_uc011lug.1_Missense_Mutation_p.A818V|PHF2_uc004auc.2_Missense_Mutation_p.A355V	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	935					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		ACCGGGCTGGCGGCTGCTGCA	0.652													15	39					0	0	1	0	0		T	96438043	T	T	96438043	3	4	153	1	0	0	0	0	1	0	0	0	11849	768	27	1	2882	1	PHF2	9	96438043	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	176873	96438043	44775388	809	82741											
PTCH1	5727	broad.mit.edu	37	chr9	98268780	98268780	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaggaggcccacaaccaaGaacttgccgcagtttttttg	11	10	10	10	1	0	2	0	1	0	1	0	3	0	3	3	2	3	2	3	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:98268780G>A	uc004avk.3	-	2	491	c.303C>T	c.(301-303)TTC>TTT	p.F101F	PTCH1_uc010mro.2_5'UTR|PTCH1_uc010mrp.2_5'UTR|PTCH1_uc010mrq.2_5'UTR|PTCH1_uc004avl.3_5'UTR|PTCH1_uc010mrr.2_Silent_p.F35F|PTCH1_uc004avm.3_Silent_p.F100F|PTCH1_uc010mrt.1_RNA|PTCH1_uc010mru.1_RNA|PTCH1_uc004avo.2_Silent_p.F35F|PTCH1_uc010mrv.1_Intron|PTCH1_uc010mrw.1_Intron	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	101	Helical; (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				CCACAACCAAGAACTTGCCGC	0.512									Basal_Cell_Nevus_syndrome				15	43					0	0	1	0	0		A	98268780	A	A	98268780	2	1	153	1	0	0	0	0	0	0	0	1	12752	933	33	4		4	PTCH1	9	98268780	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1830737	98268780	42944651	810	82742											
CDC14B	8555	broad.mit.edu	37	chr9	99285991	99285991	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaggctatcagagtgccCgtgcgaccaaggccagctag	10	6	13	12	2	1	1	1	0	0	1	1	2	1	1	3	2	4	3	3	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:99285991C>A	uc004awj.2	-	10	1415	c.963G>T	c.(961-963)ACG>ACT	p.T321T	CDC14B_uc004awk.2_Silent_p.T321T|CDC14B_uc004awl.2_RNA|CDC14B_uc004awi.2_Silent_p.T284T	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2	321	B.				activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCAGAGTGCCCGTGCGACCAA	0.498													16	33					6.31663e-08	6.55844e-08	1	1	0		A	99285991	A	A	99285991	2	1	153	1	0	0	0	0	0	0	0	1	3060	639	23	5		5	CDC14B	9	99285991	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1017211	99285991	41927440	811	82743											
TDRD7	23424	broad.mit.edu	37	chr9	100245400	100245400	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatggtggaccatacgagCgctttctccacagaggaact	10	9	10	12	2	1	1	0	0	1	1	3	4	2	3	3	3	3	1	3	3	2	2	rs138199272		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:100245400C>T	uc004axj.2	+	15	2907	c.2682C>T	c.(2680-2682)AGC>AGT	p.S894S	TDRD7_uc011lux.1_Silent_p.S820S|TDRD7_uc010msp.1_Silent_p.S146S|TDRD7_uc011luy.1_Silent_p.S214S	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	894	Interacts with CDK17 (By similarity).|Interacts with CABLES1 (By similarity).				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				ACCATACGAGCGCTTTCTCCA	0.507													28	77					0	0	1	0	0		T	100245400	T	T	100245400	2	4	153	1	0	0	0	0	0	0	0	1	15760	767	27	1		1	TDRD7	9	100245400	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	959409	100245400	40968031	812	82744											
TMOD1	7111	broad.mit.edu	37	chr9	100353681	100353681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccagcaaggaccccggcttCgggcatccaacgcaatgatg	10	5	11	15	3	0	1	0	1	0	0	2	2	1	2	4	3	2	4	4	3	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:100353681C>T	uc004axk.1	+	9	1192	c.979C>T	c.(979-981)CGG>TGG	p.R327W	TMOD1_uc004axl.1_Missense_Mutation_p.R327W	NM_003275	NP_003266	P28289	TMOD1_HUMAN	tropomodulin 1	327					muscle filament sliding	cytosol	actin binding				0		Acute lymphoblastic leukemia(62;0.154)		STAD - Stomach adenocarcinoma(157;0.105)		ACCCCGGCTTCGGGCATCCAA	0.507													37	130					0	0	1	0	0		T	100353681	T	T	100353681	3	4	153	1	0	0	0	0	1	0	0	0	16258	875	31	1	1009	1	TMOD1	9	100353681	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	108281	100353681	40859750	813	82745											
GABBR2	9568	broad.mit.edu	37	chr9	101258740	101258740	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatcgttggagaagctctcGgtgtctgaaatctcaatgtc	9	12	12	8	2	3	2	1	1	3	1	7	4	3	3	0	3	1	2	0	3	3	1	rs149573430	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:101258740G>A	uc004ays.2	-	4	843	c.687C>T	c.(685-687)ACC>ACT	p.T229T		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	229	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	AGAAGCTCTCGGTGTCTGAAA	0.542													15	62					0	0	1	0	0		A	101258740	A	A	101258740	2	1	153	1	0	0	0	0	0	0	0	1	6170	1103	39	1		1	GABBR2	9	101258740	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	905059	101258740	39954691	814	82746											
NR4A3	8013	broad.mit.edu	37	chr9	102590423	102590423	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacggagatcatgaacccCgactacaccaagctgaccat	14	5	7	15	2	1	3	1	2	0	1	1	5	1	3	5	1	3	1	5	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:102590423C>T	uc004baf.1	+	3	828	c.99C>T	c.(97-99)CCC>CCT	p.P33P	NR4A3_uc004bae.2_Silent_p.P33P|NR4A3_uc004bag.1_Silent_p.P33P|NR4A3_uc004bai.2_Silent_p.P44P	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	33					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				TCATGAACCCCGACTACACCA	0.572			T	EWSR1	extraskeletal myxoid chondrosarcoma								32	90					0	0	1	0	0		T	102590423	T	T	102590423	2	4	153	1	0	0	0	0	0	0	0	1	10653	639	23	1		1	NR4A3	9	102590423	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1331683	102590423	38623008	815	82747											
TMEFF1	8577	broad.mit.edu	37	chr9	103204533	103204533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctctcctgagtacccacGtcctagggaaggagaagatc	10	7	11	13	1	1	3	0	1	1	2	4	5	2	4	4	2	1	1	4	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:103204533G>A	uc004bay.1	+	1	346	c.313G>A	c.(313-315)GTC>ATC	p.V105I	C9orf30_uc004baw.2_Missense_Mutation_p.V105I|C9orf30_uc004bax.2_RNA	NM_003692	NP_003683	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two	Error:Variant_position_missing_in_Q8IYR6_after_alignment					multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)				GAGTACCCACGTCCTAGGGAA	0.582													16	54					0	0	1	0	0		A	103204533	A	A	103204533	3	1	153	1	0	0	0	0	1	0	0	0	16038	1145	40	1		1	TMEFF1	9	103204533	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	614110	103204533	38008898	816	82748											
ACTL7B	10880	broad.mit.edu	37	chr9	111617246	111617246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgtcctggcagcggcccaggCaggcagctgtgagctccggg	5	6	17	13	2	0	1	0	1	0	0	2	1	2	1	3	5	3	5	3	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:111617246C>T	uc004bdi.2	-	1	1030	c.965G>A	c.(964-966)TGC>TAC	p.C322Y		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	322						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						GCGGCCCAGGCAGGCAGCTGT	0.657													15	46					0	0	1	0	0		T	111617246	T	T	111617246	3	4	153	1	0	0	0	0	1	0	0	0	201	710	25	2	286	2	ACTL7B	9	111617246	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8412713	111617246	29596185	817	82749											
ACTL7B	10880	broad.mit.edu	37	chr9	111617489	111617489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcgtccgtgaatgcgtggCccgcctcattgagcagctgc	5	9	14	13	4	1	2	1	2	0	0	3	2	2	2	3	2	4	2	3	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:111617489C>T	uc004bdi.2	-	1	787	c.722G>A	c.(721-723)GGC>GAC	p.G241D		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	241						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						GAATGCGTGGCCCGCCTCATT	0.642													12	36					0	0	1	0	0		T	111617489	T	T	111617489	3	4	153	1	0	0	0	0	1	0	0	0	201	739	26	2	529	2	ACTL7B	9	111617489	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	243	111617489	29595942	818	82750											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112900030	112900030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaacatcagtgacagcgggGcatccaatgagacaaccaat	16	5	9	11	1	1	2	1	2	0	1	2	3	2	2	2	2	3	1	2	2	4	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:112900030G>A	uc004bei.2	+	9	3094	c.2902G>A	c.(2902-2904)GCA>ACA	p.A968T	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.A736T|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.A736T|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.A546T|AKAP2_uc011lwi.1_Missense_Mutation_p.A594T|AKAP2_uc004bem.2_Missense_Mutation_p.A594T|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.A554T|AKAP2_uc011lwj.1_Missense_Mutation_p.A505T|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.A505T	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	505							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						TGACAGCGGGGCATCCAATGA	0.522													48	107					0	0	1	0	0		A	112900030	A	A	112900030	3	1	153	1	0	0	0	0	1	0	0	0	11429	1203	42	2	2236	2	PALM2-AKAP2	9	112900030	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1282541	112900030	28313401	819	82751											
SVEP1	79987	broad.mit.edu	37	chr9	113197545	113197545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaaatatgctcttagaatCgatcttcactttccccacaa	14	12	3	12	1	3	1	1	0	2	1	5	2	4	1	2	0	1	1	2	0	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:113197545C>T	uc010mtz.2	-	29	5201	c.4864G>A	c.(4864-4866)GAT>AAT	p.D1622N		NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1622	Pentaxin.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CTCTTAGAATCGATCTTCACT	0.448													31	119					0	0	1	0	0		T	113197545	T	T	113197545	3	4	153	1	0	0	0	0	1	0	0	0	15445	884	31	1	5931	1	SVEP1	9	113197545	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	297515	113197545	28015886	820	82752											
SVEP1	79987	broad.mit.edu	37	chr9	113228188	113228188	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcctcttttcacagttgaGgtgttttctggacacgagag	7	14	11	9	1	3	2	1	1	2	1	4	4	4	3	1	2	0	3	1	2	0	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:113228188G>A	uc010mtz.2	-	18	3616	c.3279C>T	c.(3277-3279)ACC>ACT	p.T1093T	SVEP1_uc010mua.1_Silent_p.T1093T	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1093					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TCACAGTTGAGGTGTTTTCTG	0.443													4	18					0	0	1	0	0		A	113228188	A	A	113228188	2	1	153	1	0	0	0	0	0	0	0	1	15445	987	35	4		4	SVEP1	9	113228188	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	30643	113228188	27985243	821	82753											
WDR31	114987	broad.mit.edu	37	chr9	116079151	116079151	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaacagccagagaagtcaAgggtcctgatccatccagag	14	5	10	12	0	1	3	1	1	0	2	4	4	4	3	5	1	2	0	5	1	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:116079151A>G	uc004bhe.2	-	11	1234	c.982T>C	c.(982-984)TTG>CTG	p.L328L	uc004bhb.2_5'Flank|WDR31_uc004bhc.2_Silent_p.L327L|WDR31_uc004bhd.2_Silent_p.L203L|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	328											0						AGAGAAGTCAAGGGTCCTGAT	0.502													25	74					0	0	1	0	0		G	116079151	G	G	116079151	2	3	153	1	0	0	0	0	0	0	0	1	17312	69	3	3		3	WDR31	9	116079151	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2850963	116079151	25134280	822	82754											
C9orf43	257169	broad.mit.edu	37	chr9	116187629	116187629	+	Silent	SNP	A	C	C	1	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	ctctctggtcaccaggttacAggaaacagcagcagcggcag	11	6	12	12	1	2	0	1	0	1	0	3	1	2	1	1	4	5	4	1	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:116187629A>C	uc004bho.3	+	10	1267	c.871A>C	c.(871-873)AGG>CGG	p.R291R	C9orf43_uc004bhp.2_Silent_p.R291R	NM_152786	NP_689999	Q8TAL5	CI043_HUMAN	hypothetical protein LOC257169	291											0						ACCAGGTTACAGGAAAcagca	0.428													7	69					0	0	1	0	0		C	116187629	C	C	116187629	2	2	153	1	0	0	0	0	0	0	0	1	2486	179	7	5		5	C9orf43	9	116187629	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	108478	116187629	25025802	823	82755											
RGS3	5998	broad.mit.edu	37	chr9	116269753	116269753	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgagcagcgccacagctgCcacctggtatgtgacagctc	8	7	11	15	1	0	2	0	2	0	0	1	2	0	2	4	1	5	4	4	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:116269753C>A	uc004bhq.2	+	14	1481	c.1272C>A	c.(1270-1272)TGC>TGA	p.C424*	RGS3_uc004bhr.2_Nonsense_Mutation_p.C312*|RGS3_uc004bhs.2_Nonsense_Mutation_p.C314*|RGS3_uc004bht.2_Nonsense_Mutation_p.C143*|RGS3_uc010muy.2_Nonsense_Mutation_p.C143*|RGS3_uc004bhu.2_Nonsense_Mutation_p.C50*	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	424					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						GCCACAGCTGCCACCTGGTAT	0.657													6	17					3.59834e-05	3.69594e-05	1	1	0		A	116269753	A	A	116269753	4	1	153	1	0	0	0	0	0	1	0	0	13331	747	26	5	1463	5	RGS3	9	116269753	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	82124	116269753	24943678	824	82756											
RGS3	5998	broad.mit.edu	37	chr9	116276899	116276899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggcacctacgtcaccctgGcccccaaagtcctggtgttc	7	9	9	16	1	1	0	1	0	0	0	3	0	2	0	5	3	1	2	5	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:116276899G>A	uc004bhq.2	+	16	1848	c.1639G>A	c.(1639-1641)GCC>ACC	p.A547T	RGS3_uc004bhr.2_Missense_Mutation_p.A435T|RGS3_uc004bhs.2_Missense_Mutation_p.A437T|RGS3_uc004bht.2_Missense_Mutation_p.A266T|RGS3_uc010muy.2_Missense_Mutation_p.A266T|RGS3_uc004bhu.2_Missense_Mutation_p.A173T	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	547					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CGTCACCCTGGCCCCCAAAGT	0.592													22	67					0	0	1	0	0		A	116276899	A	A	116276899	3	1	153	1	0	0	0	0	1	0	0	0	13331	1203	42	2	1838	2	RGS3	9	116276899	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7146	116276899	24936532	825	82757											
ZNF618	114991	broad.mit.edu	37	chr9	116811442	116811442	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgtacgtgacggattgccgGgtgagcacgtccgccttctc	5	10	14	12	5	1	2	0	2	1	0	3	3	2	3	3	2	3	2	3	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:116811442G>T	uc004bid.2	+	15	1959	c.1860G>T	c.(1858-1860)CGG>CGT	p.R620R	ZNF618_uc004bic.2_Silent_p.R527R|ZNF618_uc011lxi.1_Silent_p.R587R|ZNF618_uc011lxj.1_Silent_p.R588R|ZNF618_uc010mvb.2_Silent_p.R210R	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	620					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGGATTGCCGGGTGAGCACGT	0.612													27	125					4.22769e-11	4.45406e-11	1	1	0		T	116811442	T	T	116811442	2	4	153	1	0	0	0	0	0	0	0	1	18067	1219	43	5		5	ZNF618	9	116811442	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	534543	116811442	24401989	826	82758											
COL27A1	85301	broad.mit.edu	37	chr9	116930239	116930239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagttcctccccggcaagaCggtcgtccacctcgggtccc	5	7	11	18	4	0	1	0	0	0	1	6	1	4	1	6	3	0	3	6	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:116930239C>T	uc011lxl.1	+	3	404	c.404C>T	c.(403-405)ACG>ATG	p.T135M	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Translation_Start_Site	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	135	Laminin G-like.|TSP N-terminal.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CCCGGCAAGACGGTCGTCCAC	0.682													20	57					0	0	1	0	0		T	116930239	T	T	116930239	3	4	153	1	0	0	0	0	1	0	0	0	3688	536	19	1	414	1	COL27A1	9	116930239	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	118797	116930239	24283192	827	82759											
COL27A1	85301	broad.mit.edu	37	chr9	116930829	116930829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagctgtcagccagtaacGcacttgatcccatgctccca	10	8	7	16	1	1	1	1	1	0	0	3	1	3	1	4	0	4	4	4	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:116930829G>A	uc011lxl.1	+	3	994	c.994G>A	c.(994-996)GCA>ACA	p.A332T	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.A182T	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	332	Pro-rich.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						AGCCAGTAACGCACTTGATCC	0.612													12	38					0	0	1	0	0		A	116930829	A	A	116930829	3	1	153	1	0	0	0	0	1	0	0	0	3688	1087	38	1	1004	1	COL27A1	9	116930829	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	590	116930829	24282602	828	82760											
ORM1	5004	broad.mit.edu	37	chr9	117085980	117085980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttatatcgcatcggcctttcGaaacgaggagtacaataagt	13	11	9	8	4	0	0	0	0	0	0	3	3	0	1	1	2	2	2	1	2	6	5	rs146832261		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:117085980G>A	uc004bik.3	+	2	263	c.152G>A	c.(151-153)CGA>CAA	p.R51Q	ORM1_uc011lxo.1_Missense_Mutation_p.R51Q	NM_000607	NP_000598	P02763	A1AG1_HUMAN	orosomucoid 1 precursor	51					acute-phase response|regulation of immune system process|transport	extracellular space	protein binding				0		Myeloproliferative disorder(63;0.163)			Acenocoumarol(DB01418)|Alfentanil(DB00802)|Aprindine(DB01429)|Disopyramide(DB00280)|Penbutolol(DB01359)|Phenprocoumon(DB00946)|Quinidine(DB00908)|Tamsulosin(DB00706)	TCGGCCTTTCGAAACGAGGAG	0.443													23	66					0	0	1	0	0		A	117085980	A	A	117085980	3	1	153	1	0	0	0	0	1	0	0	0	11286	1058	37	1	158	1	ORM1	9	117085980	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	155151	117085980	24127451	829	82761											
AKNA	80709	broad.mit.edu	37	chr9	117139520	117139520	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgagttcaacggatgggttGacctcggaatgttcagaaag	11	10	13	7	2	2	3	2	2	0	1	3	5	2	5	1	3	1	3	1	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:117139520G>A	uc004biq.3	-	2	702	c.567C>T	c.(565-567)GTC>GTT	p.V189V	AKNA_uc004bio.3_5'Flank|AKNA_uc004bip.3_Silent_p.V108V|AKNA_uc004bir.3_Silent_p.V189V|AKNA_uc004bis.3_Silent_p.V189V|AKNA_uc010mve.2_Silent_p.V70V|AKNA_uc004biu.1_Intron|AKNA_uc004biv.1_Silent_p.V189V|AKNA_uc004biw.1_Silent_p.V189V	NM_030767	NP_110394	Q7Z591	AKNA_HUMAN	AT-hook transcription factor	189					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(2)	6						CGGATGGGTTGACCTCGGAAT	0.587													25	74					0	0	1	0	0		A	117139520	A	A	117139520	2	1	153	1	0	0	0	0	0	0	0	1	463	1277	45	4		4	AKNA	9	117139520	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	53540	117139520	24073911	830	82762											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123165217	123165217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caatcaggcccaggacatggCggccattcttgctggcccac	8	7	11	15	1	2	0	1	0	1	0	2	1	2	1	3	5	1	1	3	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:123165217C>T	uc004bkf.2	-	34	5355	c.5174G>A	c.(5173-5175)CGC>CAC	p.R1725H	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.R734H|CDK5RAP2_uc004bke.2_Missense_Mutation_p.R1010H|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.R1646H|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.R990H|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.R990H|CDK5RAP2_uc011lya.1_Missense_Mutation_p.R990H|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.R1495H	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1725					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						CAGGACATGGCGGCCATTCTT	0.592													29	50					0	0	1	0	0		T	123165217	T	T	123165217	3	4	153	1	0	0	0	0	1	0	0	0	3149	768	27	1	527	1	CDK5RAP2	9	123165217	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6025697	123165217	18048214	831	82763											
C5	727	broad.mit.edu	37	chr9	123742388	123742388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagcttctctcttcaaagCtgaaacaattgaacgaaact	16	10	5	10	1	3	2	1	2	2	0	4	3	3	2	0	0	5	2	0	0	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:123742388C>T	uc004bkv.2	-	28	3661	c.3631G>A	c.(3631-3633)GCT>ACT	p.A1211T		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1211					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	CTCTTCAAAGCTGAAACAATT	0.303													37	118					0	0	1	0	0		T	123742388	T	T	123742388	3	4	153	1	0	0	0	0	1	0	0	0	2283	797	28	2	1455	2	C5	9	123742388	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	577171	123742388	17471043	832	82764											
PTGS1	5742	broad.mit.edu	37	chr9	125143952	125143952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtccacaggtagacctcGgccacatttatggagacaat	11	10	9	11	1	1	2	0	0	1	2	3	3	2	2	3	3	0	1	3	3	3	3	rs3842795	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:125143952G>A	uc004bmg.1	+	7	823	c.688G>A	c.(688-690)GGC>AGC	p.G230S	PTGS1_uc011lys.1_Missense_Mutation_p.G205S|PTGS1_uc010mwb.1_Missense_Mutation_p.G121S|PTGS1_uc004bmf.1_Missense_Mutation_p.G230S|PTGS1_uc004bmh.1_Missense_Mutation_p.G121S|PTGS1_uc011lyt.1_Missense_Mutation_p.G121S	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	230					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	GGTAGACCTCGGCCACATTTA	0.567													12	38					0	0	1	0	0		A	125143952	A	A	125143952	3	1	153	1	0	0	0	0	1	0	0	0	12778	1116	39	1	714	1	PTGS1	9	125143952	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1401564	125143952	16069479	833	82765											
OR1N1	138883	broad.mit.edu	37	chr9	125289221	125289221	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggccacatagcggtcatAcgccatggcagccaggaaga	13	5	12	11	2	1	1	1	0	0	1	1	2	1	2	3	4	3	1	3	4	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:125289221A>C	uc004bmn.1	-	1	352	c.352T>G	c.(352-354)TAT>GAT	p.Y118D		NM_012363	NP_036495	Q8NGS0	OR1N1_HUMAN	olfactory receptor, family 1, subfamily N,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)|breast(1)|skin(1)	3						TAGCGGTCATACGCCATGGCA	0.527													8	52					0	0	1	0	0		C	125289221	C	C	125289221	3	2	153	1	0	0	0	0	1	0	0	0	10988	391	14	5	587	5	OR1N1	9	125289221	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	145269	125289221	15924210	834	82766											
OR1L1	26737	broad.mit.edu	37	chr9	125424142	125424142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttatcatcctggccatcCgctcagacactcgtctccag	7	11	7	16	2	3	1	2	0	1	1	7	1	5	1	4	1	1	2	4	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:125424142C>T	uc011lza.1	+	1	298	c.298C>T	c.(298-300)CGC>TGC	p.R100C		NM_001005236	NP_001005236	Q8NH94	OR1L1_HUMAN	olfactory receptor, family 1, subfamily L,	100	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CCTGGCCATCCGCTCAGACAC	0.483													48	166					0	0	1	0	0		T	125424142	T	T	125424142	3	4	153	1	0	0	0	0	1	0	0	0	10982	652	23	1	150	1	OR1L1	9	125424142	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	134921	125424142	15789289	835	82767											
LHX2	9355	broad.mit.edu	37	chr9	126776328	126776328	+	Missense_Mutation	SNP	A	G	G	1	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	ctactacctgctggcggtggAcaagcagtggcacatgcgct	8	8	13	12	2	0	0	0	0	0	0	0	1	0	1	1	4	5	4	1	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:126776328A>G	uc004boe.1	+	2	948	c.209A>G	c.(208-210)GAC>GGC	p.D70G	LHX2_uc010mwi.1_Missense_Mutation_p.D70G	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	70	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTGGCGGTGGACAAGCAGTGG	0.632													11	54					0	0	1	0	0		G	126776328	G	G	126776328	3	3	153	1	0	0	0	0	1	0	0	0	8787	275	10	3	215	3	LHX2	9	126776328	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1352186	126776328	14437103	836	82768											
WDR38	401551	broad.mit.edu	37	chr9	127616498	127616498	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaggtcaactcttctgcCttctcccctgatggccagat	6	14	7	14	0	5	2	1	1	4	1	6	2	5	2	4	2	2	0	4	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:127616498C>A	uc004box.2	+	2	140	c.84C>A	c.(82-84)GCC>GCA	p.A28A	WDR38_uc011lzn.1_Intron|WDR38_uc011lzo.1_Silent_p.A28A|WDR38_uc011lzp.1_5'UTR	NM_001045476	NP_001038941	Q5JTN6	WDR38_HUMAN	WD repeat domain 38	28	WD 1.										0						ACTCTTCTGCCTTCTCCCCTG	0.597													76	265					8.67825e-70	9.47104e-70	1	1	0		A	127616498	A	A	127616498	2	1	153	1	0	0	0	0	0	0	0	1	17318	668	24	5		5	WDR38	9	127616498	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	840170	127616498	13596933	837	82769											
PBX3	5090	broad.mit.edu	37	chr9	128725361	128725361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggaggaaattcactgtAcagtccacataatttaaatg	14	12	7	8	0	1	0	1	0	0	0	2	2	2	2	2	2	1	1	2	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:128725361A>G	uc004bqb.2	+	8	1309	c.1193A>G	c.(1192-1194)TAC>TGC	p.Y398C	PBX3_uc004bqc.2_Missense_Mutation_p.Y217C|PBX3_uc004bqd.2_3'UTR|PBX3_uc011lzw.1_Missense_Mutation_p.Y323C|PBX3_uc011lzx.1_3'UTR|PBX3_uc004bqe.2_Missense_Mutation_p.Y306C	NM_006195	NP_006186	P40426	PBX3_HUMAN	pre-B-cell leukemia homeobox 3 isoform 1	398				Y -> C (in Ref. 2; AAL09477).	anterior compartment pattern formation|posterior compartment specification		sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						AATTCACTGTACAGTCCACAT	0.413													7	22					0	0	1	0	0		G	128725361	G	G	128725361	3	3	153	1	0	0	0	0	1	0	0	0	11513	391	14	3	1223	3	PBX3	9	128725361	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1108863	128725361	12488070	838	82770											
FAM129B	64855	broad.mit.edu	37	chr9	130269612	130269612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcgccccagtcgatgggggCgccctcggccagcaggtgca	5	5	15	16	4	0	0	0	0	0	0	3	1	0	0	4	4	2	2	4	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:130269612C>T	uc004brh.2	-	14	1955	c.1753G>A	c.(1753-1755)GCC>ACC	p.A585T	FAM129B_uc004bri.2_Missense_Mutation_p.A572T|FAM129B_uc004brj.3_3'UTR	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	585							protein binding				0						TCGATGGGGGCGCCCTCGGCC	0.687													6	12					0	0	1	0	0		T	130269612	T	T	130269612	3	4	153	1	0	0	0	0	1	0	0	0	5448	768	27	1	491	1	FAM129B	9	130269612	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1544251	130269612	10943819	839	82771											
TTC16	158248	broad.mit.edu	37	chr9	130486431	130486431	+	Missense_Mutation	SNP	A	G	G	1	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	ccgacggctccaggagttcgAtggggcagtggaggacttcc	7	7	16	11	3	0	0	0	0	0	0	3	5	2	3	3	6	0	3	3	6	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:130486431A>G	uc004brq.1	+	8	972	c.905A>G	c.(904-906)GAT>GGT	p.D302G	PTRH1_uc011mah.1_Intron|TTC16_uc011mai.1_Missense_Mutation_p.D289G|TTC16_uc004brr.1_Missense_Mutation_p.D247G|TTC16_uc010mxn.1_5'UTR	NM_144965	NP_659402	Q8NEE8	TTC16_HUMAN	tetratricopeptide repeat domain 16	302	TPR 5.						binding				0						CAGGAGTTCGATGGGGCAGTG	0.657													9	30					0	0	1	0	0		G	130486431	G	G	130486431	3	3	153	1	0	0	0	0	1	0	0	0	16709	333	12	3	935	3	TTC16	9	130486431	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	216819	130486431	10727000	840	82772											
C9orf114	51490	broad.mit.edu	37	chr9	131589411	131589411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagtaggtgcgaagctccgGcgactgagcattgtccagga	10	7	14	10	3	0	1	0	1	0	0	2	4	2	2	2	3	3	3	2	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:131589411G>A	uc004bwd.2	-	4	294	c.268C>T	c.(268-270)CCG>TCG	p.P90S	C9orf114_uc004bwe.2_Missense_Mutation_p.P90S|C9orf114_uc010mym.2_RNA	NM_016390	NP_057474	Q5T280	CI114_HUMAN	hypothetical protein LOC51490	90											0						CGAAGCTCCGGCGACTGAGCA	0.607													14	76					0	0	1	0	0		A	131589411	A	A	131589411	3	1	153	1	0	0	0	0	1	0	0	0	2452	1203	42	2	898	2	C9orf114	9	131589411	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1102980	131589411	9624020	841	82773											
DOLPP1	57171	broad.mit.edu	37	chr9	131847515	131847515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtgggcaccaagtacGggatgccctccagccattcc	9	6	11	15	1	0	0	0	0	0	0	2	1	2	1	5	2	4	3	5	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:131847515G>A	uc004bxc.2	+	4	320	c.292G>A	c.(292-294)GGG>AGG	p.G98R	DOLPP1_uc004bxd.2_Missense_Mutation_p.G98R|DOLPP1_uc004bxe.2_RNA|DOLPP1_uc004bxf.2_5'Flank	NM_020438	NP_065171	Q86YN1	DOPP1_HUMAN	dolichyl pyrophosphate phosphatase 1 isoform a	98					dolichyl diphosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane	dolichyldiphosphatase activity			skin(1)	1						CACCAAGTACGGGATGCCCTC	0.582													31	91					0	0	1	0	0		A	131847515	A	A	131847515	3	1	153	1	0	0	0	0	1	0	0	0	4710	1116	39	1	306	1	DOLPP1	9	131847515	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	258104	131847515	9365916	842	82774											
USP20	10868	broad.mit.edu	37	chr9	132637208	132637208	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgagacggtggtgcagaaCgccgagggctacgtactctt	9	7	14	11	5	1	2	0	0	1	2	1	4	1	2	1	3	4	3	1	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:132637208C>T	uc004bys.2	+	19	2233	c.2022C>T	c.(2020-2022)AAC>AAT	p.N674N	USP20_uc004byr.2_Silent_p.N674N|USP20_uc004byt.1_Silent_p.N674N	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	674					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				TGGTGCAGAACGCCGAGGGCT	0.607													12	43					0	0	1	0	0		T	132637208	T	T	132637208	2	4	153	1	0	0	0	0	0	0	0	1	17078	535	19	1		1	USP20	9	132637208	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	789693	132637208	8576223	843	82775											
LAMC3	10319	broad.mit.edu	37	chr9	133901719	133901719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgaagttccacaccagtCgccctgagagctttgccatc	8	9	10	14	1	0	2	0	2	0	1	3	3	1	2	4	1	2	3	4	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:133901719C>T	uc004caa.1	+	2	519	c.421C>T	c.(421-423)CGC>TGC	p.R141C		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	141	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CCACACCAGTCGCCCTGAGAG	0.592													20	42					0	0	1	0	0		T	133901719	T	T	133901719	3	4	153	1	0	0	0	0	1	0	0	0	8632	884	31	1	427	1	LAMC3	9	133901719	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1264511	133901719	7311712	844	82776											
POMT1	10585	broad.mit.edu	37	chr9	134393862	134393862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaggatctgacacagacGtctggaagaccatcctctca	13	7	9	12	1	3	4	1	1	3	3	5	6	4	6	2	2	0	0	2	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:134393862G>A	uc004cav.2	+	14	1571	c.1369G>A	c.(1369-1371)GTC>ATC	p.V457I	POMT1_uc004cax.2_Missense_Mutation_p.V435I|POMT1_uc011mcj.1_Missense_Mutation_p.V213I|POMT1_uc004cau.2_Missense_Mutation_p.V435I|POMT1_uc004caw.2_Missense_Mutation_p.V381I|POMT1_uc011mck.1_Missense_Mutation_p.V318I|POMT1_uc011mcl.1_Missense_Mutation_p.V283I|POMT1_uc011mcm.1_Missense_Mutation_p.V405I|POMT1_uc011mcn.1_Missense_Mutation_p.V160I	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	457	MIR 3.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		TGACACAGACGTCTGGAAGAC	0.448													93	338					0	0	1	0	0		A	134393862	A	A	134393862	3	1	153	1	0	0	0	0	1	0	0	0	12264	1145	40	1	1419	1	POMT1	9	134393862	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	492143	134393862	6819569	845	82777											
NTNG2	84628	broad.mit.edu	37	chr9	135102276	135102276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaacctgtgctccatgcgcGagggcagcctgcagtgcgag	7	6	14	14	3	0	0	0	0	0	0	1	2	1	0	4	1	6	3	4	1	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:135102276G>A	uc004cbh.2	+	4	1674	c.898G>A	c.(898-900)GAG>AAG	p.E300K		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	300	Laminin EGF-like 1.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CTCCATGCGCGAGGGCAGCCT	0.657													5	17					0	0	1	0	0		A	135102276	A	A	135102276	3	1	153	1	0	0	0	0	1	0	0	0	10724	1059	37	1	908	1	NTNG2	9	135102276	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	708414	135102276	6111155	846	82778											
C9orf98	158067	broad.mit.edu	37	chr9	135690055	135690055	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttttcaaagaagggctggaTgagctcgccaaacgtggtcc	10	9	12	10	2	1	2	1	1	0	1	3	3	2	3	2	3	2	2	2	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:135690055T>C	uc004cbu.1	-	10	1505	c.949A>G	c.(949-951)ATC>GTC	p.I317V	C9orf98_uc010mzx.1_RNA|C9orf98_uc004cbv.1_Missense_Mutation_p.I113V	NM_152572	NP_689785	Q96MA6	KAD8_HUMAN	putative adenylate kinase-like protein C9orf98	317	Adenylate kinase.					cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;4.89e-06)|Epithelial(140;0.00016)		AAGGGCTGGATGAGCTCGCCA	0.498													13	37					0	0	1	0	0		C	135690055	C	C	135690055	3	2	153	1	0	0	0	0	1	0	0	0	2512	1464	51	3	506	3	C9orf98	9	135690055	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	587779	135690055	5523376	847	82779											
GTF3C5	9328	broad.mit.edu	37	chr9	135906432	135906432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggccgatttggggctggggGccgccgtccccgtggagctg	2	7	19	13	5	0	0	0	0	0	0	1	2	1	1	5	6	1	2	5	6	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:135906432G>A	uc004cci.3	+	1	371	c.34G>A	c.(34-36)GCC>ACC	p.A12T	GTF3C5_uc010mzz.2_5'UTR|GTF3C5_uc004ccj.3_Missense_Mutation_p.A12T	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	12						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		GGGGCTGGGGGCCGCCGTCCC	0.692													5	9					0	0	1	0	0		A	135906432	A	A	135906432	3	1	153	1	0	0	0	0	1	0	0	0	6892	1203	42	2	36	2	GTF3C5	9	135906432	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	216377	135906432	5306999	848	82780											
SURF1	6834	broad.mit.edu	37	chr9	136219368	136219368	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagcttccaggtctcgataAtgccagtggttcctttctgg	7	14	10	10	1	2	0	0	0	2	0	5	1	4	0	3	3	2	2	3	3	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:136219368A>C	uc004cdh.1	-	7	716	c.684T>G	c.(682-684)CAT>CAG	p.H228Q	SURF1_uc004cdg.1_Missense_Mutation_p.H119Q	NM_003172	NP_003163	Q15526	SURF1_HUMAN	surfeit 1	228					aerobic respiration|respiratory chain complex IV assembly	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			breast(2)	2				OV - Ovarian serous cystadenocarcinoma(145;5.06e-07)|Epithelial(140;4.25e-06)|all cancers(34;3.93e-05)		GGTCTCGATAATGCCAGTGGT	0.512											OREG0019585	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	86					0	0	1	0	0		C	136219368	C	C	136219368	3	2	153	1	0	0	0	0	1	0	0	0	15428	98	4	5	230	5	SURF1	9	136219368	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	312936	136219368	4994063	849	82781											
C9orf96	169436	broad.mit.edu	37	chr9	136262382	136262382	+	Missense_Mutation	SNP	A	G	G	1	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	agatggtgcctgcgtccatcAccgacatgctgttagaaggc	9	9	12	11	2	1	2	1	0	0	2	2	3	2	2	3	2	3	2	3	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:136262382A>G	uc004cdk.2	+	10	1019	c.958A>G	c.(958-960)ACC>GCC	p.T320A	C9orf96_uc004cdl.2_Intron	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	320							ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TGCGTCCATCACCGACATGCT	0.587													8	30					0	0	1	0	0		G	136262382	G	G	136262382	3	3	153	1	0	0	0	0	1	0	0	0	2511	159	6	3	996	3	C9orf96	9	136262382	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	43014	136262382	4951049	850	82782											
VAV2	7410	broad.mit.edu	37	chr9	136662911	136662911	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgctccatgtggctgcagTactccccgtagatcagaagc	8	9	11	13	2	1	2	1	0	0	2	3	2	3	2	3	1	4	5	3	1	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:136662911T>C	uc004ces.2	-	10	903	c.857A>G	c.(856-858)TAC>TGC	p.Y286C	VAV2_uc004cer.2_Missense_Mutation_p.Y281C	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	286	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		GTGGCTGCAGTACTCCCCGTA	0.592													3	38					0	0	1	0	0		C	136662911	C	C	136662911	3	2	153	1	0	0	0	0	1	0	0	0	17158	1638	57	3	1863	3	VAV2	9	136662911	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	400529	136662911	4550520	851	82783											
COL5A1	1289	broad.mit.edu	37	chr9	137591897	137591897	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctctcccgtcttcctctaCgaggaccacacggggaagcc	7	7	10	17	4	3	0	0	0	3	0	5	3	4	2	4	3	2	1	4	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:137591897C>T	uc004cfe.2	+	3	802	c.420C>T	c.(418-420)TAC>TAT	p.Y140Y		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	140	TSP N-terminal.|Laminin G-like.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		TCTTCCTCTACGAGGACCACA	0.607													21	74					0	0	1	0	0		T	137591897	T	T	137591897	2	4	153	1	0	0	0	0	0	0	0	1	3699	547	19	1		1	COL5A1	9	137591897	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	928986	137591897	3621534	852	82784											
FCN1	2219	broad.mit.edu	37	chr9	137804344	137804344	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccctaccctgggcagtcaGggcgtggatgttgtcattcc	5	10	14	12	1	2	0	2	0	0	0	3	1	3	1	3	4	1	2	3	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:137804344G>T	uc004cfi.2	-	7	678	c.586C>A	c.(586-588)CTG>ATG	p.L196M		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	196	Fibrinogen C-terminal.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		TGGGCAGTCAGGGCGTGGATG	0.637													9	19					0.0692343	0.0697207	1	1	0		T	137804344	T	T	137804344	3	4	153	1	0	0	0	0	1	0	0	0	5805	991	35	5	406	5	FCN1	9	137804344	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	212447	137804344	3409087	853	82785											
OLFM1	10439	broad.mit.edu	37	chr9	138011566	138011566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaccatcctcaagaccCgcagcctggactatgccggt	10	6	10	15	2	1	2	1	0	0	2	2	4	2	3	5	2	2	1	5	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:138011566C>T	uc010nar.2	+	6	1316	c.1000C>T	c.(1000-1002)CGC>TGC	p.R334C	OLFM1_uc004cfl.3_Missense_Mutation_p.R316C|OLFM1_uc004cfn.3_Missense_Mutation_p.R85C	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	334	Olfactomedin-like.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		CCTCAAGACCCGCAGCCTGGA	0.562													24	42					0	0	1	0	0		T	138011566	T	T	138011566	3	4	153	1	0	0	0	0	1	0	0	0	10871	652	23	1	978	1	OLFM1	9	138011566	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	207222	138011566	3201865	854	82786											
SNAPC4	6621	broad.mit.edu	37	chr9	139278455	139278455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggagccagaccgatgggGcagctcagaagctatttttg	9	9	14	9	1	1	2	1	0	0	2	1	4	1	3	2	3	3	3	2	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:139278455G>A	uc004chh.2	-	14	1459	c.1450C>T	c.(1450-1452)CCC>TCC	p.P484S		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	484	HTH myb-type 3.|H-T-H motif (By similarity).				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GACCGATGGGGCAGCTCAGAA	0.527													8	38					0	0	1	0	0		A	139278455	A	A	139278455	3	1	153	1	0	0	0	0	1	0	0	0	14862	1203	42	2	2995	2	SNAPC4	9	139278455	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1266889	139278455	1934976	855	82787											
C9orf86	55684	broad.mit.edu	37	chr9	139726288	139726288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcctgccggacgacgtgCgtgacttcatcgacaacctg	8	9	10	14	5	2	1	2	1	0	0	4	4	3	2	3	1	3	0	3	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:139726288C>T	uc004cji.1	+	6	842	c.574C>T	c.(574-576)CGT>TGT	p.R192C	C9orf86_uc004cjm.2_Missense_Mutation_p.R192C|C9orf86_uc004cjh.2_Missense_Mutation_p.R192C|C9orf86_uc004cjj.1_Missense_Mutation_p.R192C|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Missense_Mutation_p.R192C|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Missense_Mutation_p.R77C	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	192	Small GTPase-like.				small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		GGACGACGTGCGTGACTTCAT	0.672													3	21					0	0	1	0	0		T	139726288	T	T	139726288	3	4	153	1	0	0	0	0	1	0	0	0	2505	768	27	1	596	1	C9orf86	9	139726288	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	447833	139726288	1487143	856	82788											
MAMDC4	158056	broad.mit.edu	37	chr9	139748023	139748023	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggccgttggaacccacCgagggaaagaggcatccacc	12	4	12	13	2	0	1	0	0	0	1	1	4	1	3	5	4	1	2	5	4	2	1	rs146167637	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:139748023C>T	uc004cjs.2	+	4	405	c.355C>T	c.(355-357)CGA>TGA	p.R119*	MAMDC4_uc011mej.1_5'UTR	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	119	Extracellular (Potential).|MAM 1.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	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)		TGGAACCCACCGAGGGAAAGA	0.657													19	57					0	0	1	0	0		T	139748023	T	T	139748023	4	4	153	1	0	0	0	0	0	1	0	0	9222	644	23	1	369	1	MAMDC4	9	139748023	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	21735	139748023	1465408	857	82789											
C9orf139	401563	broad.mit.edu	37	chr9	139929124	139929124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccggcggcagttcctgcaGgaaggaggctgtcctgccac	7	6	14	14	2	0	0	0	0	0	0	2	2	2	2	4	5	2	4	4	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:139929124G>A	uc004ckp.1	+	3	1705	c.191G>A	c.(190-192)AGG>AAG	p.R64K	FUT7_uc004ckq.2_5'Flank	NM_207511	NP_997394	Q6ZV77	CI139_HUMAN	hypothetical protein LOC401563	64											0	all_cancers(76;0.0893)	Myeloproliferative disorder(178;0.0821)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.99e-05)|Epithelial(140;0.000493)		AGTTCCTGCAGGAAGGAGGCT	0.667													14	64					0	0	1	0	0		A	139929124	A	A	139929124	3	1	153	1	0	0	0	0	1	0	0	0	2462	1000	35	4	197	4	C9orf139	9	139929124	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	181101	139929124	1284307	858	82790											
SLC34A3	142680	broad.mit.edu	37	chr9	140130434	140130434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccacttcttcttcaacctgGccggcatcctgctgtggtac	5	13	8	15	1	3	0	1	0	2	0	5	0	5	0	4	3	3	3	4	3	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:140130434G>A	uc004cmf.1	+	13	1552	c.1366G>A	c.(1366-1368)GCC>ACC	p.A456T	SLC34A3_uc011met.1_Missense_Mutation_p.A456T	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	456	Helical; Name=M6; (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		CTTCAACCTGGCCGGCATCCT	0.711											OREG0019630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	68					0	0	1	0	0		A	140130434	A	A	140130434	3	1	153	1	0	0	0	0	1	0	0	0	14594	1203	42	2	1412	2	SLC34A3	9	140130434	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	201310	140130434	1082997	859	82791											
SLC34A3	142680	broad.mit.edu	37	chr9	140130512	140130512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacttcggggtggtgaccGcccgttaccgctgggtggct	3	9	17	12	4	0	1	0	1	0	0	1	1	0	1	3	6	1	4	3	6	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:140130512G>A	uc004cmf.1	+	13	1630	c.1444G>A	c.(1444-1446)GCC>ACC	p.A482T	SLC34A3_uc011met.1_Missense_Mutation_p.A482T	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	482	Cytoplasmic (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|integral to membrane	sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GGTGGTGACCGCCCGTTACCG	0.682											OREG0019630	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	43					0	0	1	0	0		A	140130512	A	A	140130512	3	1	153	1	0	0	0	0	1	0	0	0	14594	1087	38	1	1490	1	SLC34A3	9	140130512	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	78	140130512	1082919	860	82792											
C9orf173	441476	broad.mit.edu	37	chr9	140147666	140147666	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtacgcagacccaagcGccacgacacaggccccttct	9	5	11	16	3	1	1	0	0	1	1	1	2	1	1	4	2	2	2	4	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr9:140147666G>A	uc004cmk.1	+	6	921	c.909G>A	c.(907-909)GCG>GCA	p.A303A	C9orf173_uc004cmj.1_Missense_Mutation_p.R299H|C9orf173_uc011meu.1_RNA|C9orf173_uc010ncd.1_RNA|C9orf173_uc011mev.1_Missense_Mutation_p.R243H|C9orf173_uc004cml.1_Silent_p.A248A|COBRA1_uc004cmm.3_5'Flank			Q8N7X2	CI173_HUMAN	SubName: Full=LOC441476 protein;	307										pancreas(1)	1						AGACCCAAGCGCCACGACACA	0.682													4	8					0	0	1	0	0		A	140147666	A	A	140147666	2	1	153	1	0	0	0	0	0	0	0	1	2475	1087	38	1		1	C9orf173	9	140147666	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	17154	140147666	1065765	861	82793											
TUBB8	347688	broad.mit.edu	37	chr10	93569	93569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggaaacgggaccatgttcaCggccagcttccgcaggtcag	9	6	14	12	3	2	0	2	0	0	0	3	2	3	2	3	4	2	3	3	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:93569C>T	uc001ifi.2	-	4	763	c.763G>A	c.(763-765)GTG>ATG	p.V255M	TUBB8_uc009xhe.2_Missense_Mutation_p.V218M|TUBB8_uc010pzs.1_Missense_Mutation_p.V183M	NM_177987	NP_817124	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 isoform 1	255					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		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)		ACCATGTTCACGGCCAGCTTC	0.632													5	27					0	0	1	0	0		T	93569	T	T	93569	3	4	153	1	0	0	0	0	1	0	0	0	16787	536	19	1	575	1	TUBB8	10	93569	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		93569	135441178	862	82794											
WDR37	22884	broad.mit.edu	37	chr10	1126020	1126020	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcgattgatggagcagagcTgagtaagggccaactcaaaa	15	6	13	7	1	1	3	1	2	0	1	1	5	1	4	1	2	4	3	1	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:1126020T>C	uc001igf.1	+	4	478	c.305T>C	c.(304-306)CTG>CCG	p.L102P	WDR37_uc001ige.2_Missense_Mutation_p.L102P|WDR37_uc009xhm.1_Missense_Mutation_p.L102P|WDR37_uc009xhn.1_RNA|WDR37_uc001igg.1_RNA	NM_014023	NP_054742	Q9Y2I8	WDR37_HUMAN	WD repeat domain 37	102											0		all_epithelial(10;0.0449)|Colorectal(49;0.142)		Epithelial(11;0.134)		GGAGCAGAGCTGAGTAAGGGC	0.393													10	57					0	0	1	0	0		C	1126020	C	C	1126020	3	2	153	1	0	0	0	0	1	0	0	0	17317	1580	55	3	315	3	WDR37	10	1126020	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1032451	1126020	134408727	863	82795											
NET1	10276	broad.mit.edu	37	chr10	5493800	5493800	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtttttataggagccaaGcaataaaagagttcgacctc	13	13	8	7	1	0	1	0	0	0	1	2	3	0	2	2	1	2	3	2	1	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:5493800G>T	uc001iia.2	+	4	401	c.263G>T	c.(262-264)AGC>ATC	p.S88I	NET1_uc010qar.1_5'UTR|NET1_uc001iib.2_Missense_Mutation_p.S34I|NET1_uc010qas.1_5'UTR	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	88					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						TAGGAGCCAAGCAATAAAAGA	0.388													60	247					3.37043e-27	3.64857e-27	1	1	0		T	5493800	T	T	5493800	3	4	153	1	0	0	0	0	1	0	0	0	10357	971	34	5	374	5	NET1	10	5493800	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4367780	5493800	130040947	864	82796											
NET1	10276	broad.mit.edu	37	chr10	5494448	5494448	+	Missense_Mutation	SNP	T	C	C	0	1	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	agagatgctggacatcaccaTgaaggagtctctcaccacca	13	7	9	12	0	3	2	2	1	1	1	4	5	3	4	3	2	1	1	3	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:5494448T>C	uc001iia.2	+	5	629	c.491T>C	c.(490-492)ATG>ACG	p.M164T	NET1_uc010qar.1_5'UTR|NET1_uc001iib.2_Missense_Mutation_p.M110T|NET1_uc010qas.1_5'UTR	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	164					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						GACATCACCATGAAGGAGTCT	0.532													16	38					0	0	1	0	0		C	5494448	C	C	5494448	3	2	153	1	0	0	0	0	1	0	0	0	10357	1464	51	3	606	3	NET1	10	5494448	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	648	5494448	130040299	865	82797											
C10orf18	54906	broad.mit.edu	37	chr10	5791573	5791573	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctacacagccagcagtctGgacagctcttcctcttggag	8	9	11	13	0	3	0	0	0	3	0	4	2	4	2	2	3	4	3	2	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:5791573G>A	uc001iij.2	+	15	6814	c.6189G>A	c.(6187-6189)CTG>CTA	p.L2063L	C10orf18_uc001iik.2_Silent_p.L907L	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	2063										ovary(1)|central_nervous_system(1)	2						CCAGCAGTCTGGACAGCTCTT	0.483													35	133					0	0	1	0	0		A	5791573	A	A	5791573	2	1	153	1	0	0	0	0	0	0	0	1	1599	1335	47	4		4	C10orf18	10	5791573	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	297125	5791573	129743174	866	82798											
ITIH2	3698	broad.mit.edu	37	chr10	7759669	7759669	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgcagttcgaacttcactAccaggaggtgaagtggagga	11	8	15	7	1	1	1	1	1	0	0	2	5	1	4	1	5	3	2	1	5	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:7759669A>G	uc001ijs.2	+	6	710	c.548A>G	c.(547-549)TAC>TGC	p.Y183C		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	183	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						GAACTTCACTACCAGGAGGTG	0.512													72	198					0	0	1	0	0		G	7759669	G	G	7759669	3	3	153	1	0	0	0	0	1	0	0	0	7920	391	14	3	570	3	ITIH2	10	7759669	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1968096	7759669	127775078	867	82799											
ITIH2	3698	broad.mit.edu	37	chr10	7771947	7771947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcaaaaattcagaaaaacGttaaggagaacatccaagac	20	7	7	7	1	2	3	2	0	0	3	3	4	3	3	1	1	2	1	1	1	7	2	rs147442256		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:7771947G>A	uc001ijs.2	+	12	1474	c.1312G>A	c.(1312-1314)GTT>ATT	p.V438I		NM_002216	NP_002207	P19823	ITIH2_HUMAN	inter-alpha globulin inhibitor H2 polypeptide	438	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(1)|pancreas(1)|skin(1)	3						TCAGAAAAACGTTAAGGAGAA	0.368													23	92					0	0	1	0	0		A	7771947	A	A	7771947	3	1	153	1	0	0	0	0	1	0	0	0	7920	1145	40	1	1358	1	ITIH2	10	7771947	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	12278	7771947	127762800	868	82800											
TAF3	83860	broad.mit.edu	37	chr10	8006390	8006390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcgatcaccaaaaactgtatCcaaagaaaagaaatcacctg	19	7	5	10	1	2	2	2	0	0	2	4	3	3	2	3	0	1	1	3	0	7	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:8006390C>T	uc010qbd.1	+	3	917	c.917C>T	c.(916-918)TCC>TTC	p.S306F		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	306					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						AAAACTGTATCCAAAGAAAAG	0.383													19	71					0	0	1	0	0		T	8006390	T	T	8006390	3	4	153	1	0	0	0	0	1	0	0	0	15550	855	30	4	927	4	TAF3	10	8006390	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	234443	8006390	127528357	869	82801											
TAF3	83860	broad.mit.edu	37	chr10	8056685	8056685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagaagaaggacaaaaagCacaagaagaggaagcatcga	23	1	11	6	1	0	4	0	0	0	4	1	7	0	6	0	2	2	2	0	2	8	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:8056685C>T	uc010qbd.1	+	7	2761	c.2761C>T	c.(2761-2763)CAC>TAC	p.H921Y		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	921					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						GGACAAAAAGCACAAGAAGAG	0.587													5	10					0	0	1	0	0		T	8056685	T	T	8056685	3	4	153	1	0	0	0	0	1	0	0	0	15550	710	25	2	2787	2	TAF3	10	8056685	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	50295	8056685	127478062	870	82802											
DHTKD1	55526	broad.mit.edu	37	chr10	12162823	12162823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gccccctttgccagtacccgCtgtaggaattggcacagttc	7	10	10	14	1	0	0	0	0	0	0	1	1	0	1	4	2	2	5	4	2	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:12162823C>A	uc001ild.3	+	17	2795	c.2696C>A	c.(2695-2697)GCT>GAT	p.A899D		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	899					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			CCAGTACCCGCTGTAGGAATT	0.458													12	49					7.93312e-07	8.19865e-07	1	1	0		A	12162823	A	A	12162823	3	1	153	1	0	0	0	0	1	0	0	0	4506	797	28	5	2762	5	DHTKD1	10	12162823	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4106138	12162823	123371924	871	82803											
MCM10	55388	broad.mit.edu	37	chr10	13240764	13240764	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaatctgaggaatttcagaAaatcctaaaagcaaaatcaa	20	8	7	6	0	3	2	2	1	1	1	4	4	4	4	1	2	1	1	1	2	9	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:13240764A>G	uc001ima.2	+	16	2299	c.2198A>G	c.(2197-2199)AAA>AGA	p.K733R	MCM10_uc001imb.2_Missense_Mutation_p.K732R|MCM10_uc001imc.2_Missense_Mutation_p.K732R	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	733					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GAATTTCAGAAAATCCTAAAA	0.438													20	58					0	0	1	0	0		G	13240764	G	G	13240764	3	3	153	1	0	0	0	0	1	0	0	0	9403	14	1	3	2256	3	MCM10	10	13240764	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1077941	13240764	122293983	872	82804											
BEND7	222389	broad.mit.edu	37	chr10	13523008	13523008	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtcttgtcatcaaaaaaCgcacacaccagttttctaaa	17	10	4	10	1	4	0	2	0	2	0	4	0	4	0	1	0	1	2	1	0	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:13523008C>T	uc001imm.2	-	6	1095	c.798G>A	c.(796-798)GCG>GCA	p.A266A	BEND7_uc001imn.2_Silent_p.A27A|BEND7_uc001imo.3_Silent_p.A279A	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1	318	BEN.						protein binding			ovary(1)|breast(1)	2						CATCAAAAAACGCACACACCA	0.433													56	189					0	0	1	0	0		T	13523008	T	T	13523008	2	4	153	1	0	0	0	0	0	0	0	1	1404	523	19	1		1	BEND7	10	13523008	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	282244	13523008	122011739	873	82805											
FAM107B	83641	broad.mit.edu	37	chr10	14816491	14816491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctgtctgcctgctttggCcacaggctgcacacggacgg	5	9	14	13	2	1	0	0	0	1	0	1	1	1	1	2	5	3	4	2	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:14816491C>T	uc001ina.1	-	1	406	c.172G>A	c.(172-174)GCC>ACC	p.A58T	FAM107B_uc010qbu.1_RNA	NM_031453	NP_113641	Q9H098	F107B_HUMAN	hypothetical protein LOC83641	Error:Variant_position_missing_in_Q9H098_after_alignment										breast(4)	4						CCTGCTTTGGCCACAGGCTGC	0.562													29	106					0	0	1	0	0		T	14816491	T	T	14816491	3	4	153	1	0	0	0	0	1	0	0	0	5401	739	26	2	768	2	FAM107B	10	14816491	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1293483	14816491	120718256	874	82806											
CUBN	8029	broad.mit.edu	37	chr10	16992003	16992003	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgaacgctgaggtacctcGgaggggcgcgtcttcgtggc	6	8	17	10	5	1	2	0	2	1	0	3	3	1	3	1	5	2	2	1	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:16992003G>A	uc001ioo.2	-	34	5129	c.5077C>T	c.(5077-5079)CGA>TGA	p.R1693*		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1693	CUB 11.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GAGGTACCTCGGAGGGGCGCG	0.463													8	31					0	0	1	0	0		A	16992003	A	A	16992003	4	1	153	1	0	0	0	0	0	1	0	0	4054	1124	39	1	5930	1	CUBN	10	16992003	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2175512	16992003	118542744	875	82807											
CUBN	8029	broad.mit.edu	37	chr10	17026127	17026127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgactgcttgccatgacGcattgaagcctctcccattt	8	12	8	13	1	1	3	0	3	1	0	2	3	1	3	3	0	3	2	3	0	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:17026127G>A	uc001ioo.2	-	30	4554	c.4502C>T	c.(4501-4503)GCG>GTG	p.A1501V		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1501	CUB 9.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTGCCATGACGCATTGAAGCC	0.473													46	159					0	0	1	0	0		A	17026127	A	A	17026127	3	1	153	1	0	0	0	0	1	0	0	0	4054	1087	38	1	6521	1	CUBN	10	17026127	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	34124	17026127	118508620	876	82808											
CUBN	8029	broad.mit.edu	37	chr10	17152969	17152969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgtattcacacactcaaCgggtggagccacagaacagc	13	6	11	11	1	2	1	2	0	0	1	2	2	2	2	1	3	4	1	1	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:17152969C>T	uc001ioo.2	-	9	1016	c.964G>A	c.(964-966)GTT>ATT	p.V322I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	322	EGF-like 4; calcium-binding (Potential).				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ACACACTCAACGGGTGGAGCC	0.512													27	64					0	0	1	0	0		T	17152969	T	T	17152969	3	4	153	1	0	0	0	0	1	0	0	0	4054	536	19	1	10143	1	CUBN	10	17152969	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	126842	17152969	118381778	877	82809											
GPR158	57512	broad.mit.edu	37	chr10	25701295	25701295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgacagcccatgcttcGtccaggaagataagtattta	12	11	9	9	1	0	3	0	2	0	1	2	4	1	4	2	1	2	2	2	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:25701295G>A	uc001isj.2	+	4	1288	c.1228G>A	c.(1228-1230)GTC>ATC	p.V410I		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	410	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CCCATGCTTCGTCCAGGAAGA	0.498													77	238					0	0	1	0	0		A	25701295	A	A	25701295	3	1	153	1	0	0	0	0	1	0	0	0	6678	1145	40	1	1242	1	GPR158	10	25701295	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8548326	25701295	109833452	878	82810											
GPR158	57512	broad.mit.edu	37	chr10	25887671	25887671	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcttctgaaatggagaaaaAccccactttttccttaaagg	13	11	8	9	0	1	2	0	1	1	1	2	3	2	2	3	3	1	1	3	3	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:25887671A>C	uc001isj.2	+	11	3176	c.3116A>C	c.(3115-3117)AAC>ACC	p.N1039T	GPR158_uc001isk.2_Missense_Mutation_p.N414T	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1039	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						ATGGAGAAAAACCCCACTTTT	0.453													35	99					0	0	1	0	0		C	25887671	C	C	25887671	3	2	153	1	0	0	0	0	1	0	0	0	6678	43	2	5	3158	5	GPR158	10	25887671	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	186376	25887671	109647076	879	82811											
ACBD5	91452	broad.mit.edu	37	chr10	27512289	27512289	+	Silent	SNP	G	A	A	0	0	1	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	gaggttatatcagaactcctGccactctttttgtcctcgac	8	14	7	12	1	2	1	1	0	1	1	5	3	4	1	3	1	2	1	3	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:27512289G>A	uc010qdp.1	-	5	659	c.468C>T	c.(466-468)GGC>GGT	p.G156G	ACBD5_uc010qdm.1_Silent_p.G154G|ACBD5_uc010qdn.1_Silent_p.G47G|ACBD5_uc010qdo.1_Silent_p.G47G|ACBD5_uc001ito.2_Silent_p.G121G|ACBD5_uc001itp.2_Silent_p.G47G|ACBD5_uc001itq.2_Silent_p.G47G|ACBD5_uc001itr.1_5'UTR	NM_145698	NP_663736	Q5T8D3	ACBD5_HUMAN	acyl-Coenzyme A binding domain containing 5	154					transport	integral to membrane|peroxisomal membrane	fatty-acyl-CoA binding				0						CAGAACTCCTGCCACTCTTTT	0.318													23	101					0	0	1	0	0		A	27512289	A	A	27512289	2	1	153	1	0	0	0	0	0	0	0	1	125	1306	46	2		2	ACBD5	10	27512289	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1624618	27512289	108022458	880	82812											
MKX	283078	broad.mit.edu	37	chr10	28030368	28030368	+	Missense_Mutation	SNP	A	G	G	1	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	gcttgtaaagccactgcttgAggggtcgcgccatgtcttgc	6	11	13	11	2	1	1	0	1	1	0	2	1	1	1	2	2	3	3	2	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:28030368A>G	uc001ity.3	-	3	479	c.254T>C	c.(253-255)CTC>CCC	p.L85P	MKX_uc001itx.3_Missense_Mutation_p.L85P	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	85	Homeobox; TALE-type.				muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCACTGCTTGAGGGGTCGCGC	0.632													14	87					0	0	1	0	0		G	28030368	G	G	28030368	3	3	153	1	0	0	0	0	1	0	0	0	9628	304	11	3	824	3	MKX	10	28030368	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	518079	28030368	107504379	881	82813											
MKX	283078	broad.mit.edu	37	chr10	28030415	28030415	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgccgcttgtgcctcaccttCccgccattctgccgggcgct	2	11	10	18	4	2	0	1	0	1	0	3	0	3	0	6	1	3	2	6	1	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:28030415C>G	uc001ity.3	-	3	432	c.207G>C	c.(205-207)GGG>GGC	p.G69G	MKX_uc001itx.3_Silent_p.G69G	NM_173576	NP_775847	Q8IYA7	MKX_HUMAN	mohawk homeobox	69					muscle organ development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCCTCACCTTCCCGCCATTCT	0.692													5	13					0	0	1	0	0		G	28030415	G	G	28030415	2	3	153	1	0	0	0	0	0	0	0	1	9628	842	30	5		5	MKX	10	28030415	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	47	28030415	107504332	882	82814											
SVIL	6840	broad.mit.edu	37	chr10	29777554	29777554	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatctgcaacagcatcagccTcttgtagggcacggcgctgt	9	9	11	12	2	3	0	1	0	2	0	3	0	3	0	1	2	4	5	1	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:29777554T>C	uc001iut.1	-	23	5077	c.4324A>G	c.(4324-4326)AGG>GGG	p.R1442G	SVIL_uc010qdw.1_Missense_Mutation_p.R356G|SVIL_uc001iuu.1_Missense_Mutation_p.R1016G|SVIL_uc009xlc.2_Missense_Mutation_p.R234G	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1442	Gelsolin-like 1.|Interaction with NEB.				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				AGCATCAGCCTCTTGTAGGGC	0.547													9	27					0	0	1	0	0		C	29777554	C	C	29777554	3	2	153	1	0	0	0	0	1	0	0	0	15446	1550	54	3	2384	3	SVIL	10	29777554	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1747139	29777554	105757193	883	82815											
SVIL	6840	broad.mit.edu	37	chr10	29788162	29788162	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgcttcctctcctcaatcgTcatttggctctctcgacttt	4	17	5	15	2	4	0	2	0	2	0	9	1	5	0	2	1	1	2	2	1	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:29788162T>C	uc001iut.1	-	18	4300	c.3547A>G	c.(3547-3549)ACG>GCG	p.T1183A	SVIL_uc010qdw.1_Missense_Mutation_p.T97A|SVIL_uc001iuu.1_Missense_Mutation_p.T757A|SVIL_uc009xlc.2_5'Flank	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1183					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TCCTCAATCGTCATTTGGCTC	0.542													17	92					0	0	1	0	0		C	29788162	C	C	29788162	3	2	153	1	0	0	0	0	1	0	0	0	15446	1667	58	3	3181	3	SVIL	10	29788162	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	10608	29788162	105746585	884	82816											
KIAA1462	57608	broad.mit.edu	37	chr10	30336508	30336508	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgctctggggctccccgtgGcctctcggtgtgctgcggcg	0	10	17	14	4	2	0	0	0	2	0	4	0	3	0	3	5	3	3	3	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:30336508G>A	uc001iux.2	-	1	293	c.234C>T	c.(232-234)GGC>GGT	p.G78G	KIAA1462_uc001iuy.2_Silent_p.G78G|KIAA1462_uc001iuz.2_5'UTR|KIAA1462_uc009xle.1_Silent_p.G78G	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	78										ovary(4)	4						GCTCCCCGTGGCCTCTCGGTG	0.612													17	68					0	0	1	0	0		A	30336508	A	A	30336508	2	1	153	1	0	0	0	0	0	0	0	1	8250	1190	42	2		2	KIAA1462	10	30336508	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	548346	30336508	105198239	885	82817											
ZNF33A	7581	broad.mit.edu	37	chr10	38345312	38345312	+	Missense_Mutation	SNP	T	C	C	0	1	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	agccctatgaatgtaacacaTgcaggaaaactttctctcaa	15	10	6	10	0	2	1	1	1	1	0	3	2	2	2	1	1	4	2	1	1	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:38345312T>C	uc001izh.2	+	5	2435	c.2257T>C	c.(2257-2259)TGC>CGC	p.C753R	ZNF33A_uc001izg.2_Missense_Mutation_p.C754R|ZNF33A_uc010qev.1_Missense_Mutation_p.C760R|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	753	C2H2-type 16.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						ATGTAACACATGCAGGAAAAC	0.353													43	148					0	0	1	0	0		C	38345312	C	C	38345312	3	2	153	1	0	0	0	0	1	0	0	0	17879	1464	51	3	2274	3	ZNF33A	10	38345312	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	8008804	38345312	97189435	886	82818											
AGAP4	119016	broad.mit.edu	37	chr10	46322015	46322015	+	Missense_Mutation	SNP	A	T	T	1	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	cgttcccacgcatgttttggAtcgactgcagggccatggcc	6	10	12	13	3	0	0	0	0	0	0	2	2	1	1	3	3	1	4	3	3	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:46322015A>T	uc001jcx.3	-	7	1466	c.1340T>A	c.(1339-1341)ATC>AAC	p.I447N	AGAP4_uc010qfl.1_Missense_Mutation_p.I470N|AGAP4_uc001jcy.3_Missense_Mutation_p.I362N|uc010qfm.1_5'Flank	NM_133446	NP_597703	Q96P64	AGAP4_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	447	Arf-GAP.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			ovary(1)	1						CATGTTTTGGATCGACTGCAG	0.557													56	245					0	0	1	0	0		T	46322015	T	T	46322015	3	4	153	1	0	0	0	0	1	0	0	0	370	333	12	5	655	5	AGAP4	10	46322015	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	7976703	46322015	89212732	887	82819											
RBP3	5949	broad.mit.edu	37	chr10	48389993	48389993	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcaccccgctgccctcccaCgtctggctgcctccaccaag	6	6	8	21	2	1	0	0	0	1	0	3	0	3	0	7	1	3	3	7	1	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:48389993C>T	uc001jez.2	-	1	999	c.885G>A	c.(883-885)ACG>ACA	p.T295T		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	295	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	TGCCCTCCCACGTCTGGCTGC	0.692													12	19					0	0	1	0	0		T	48389993	T	T	48389993	2	4	153	1	0	0	0	0	0	0	0	1	13182	523	19	1		1	RBP3	10	48389993	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2067978	48389993	87144754	888	82820											
AGAP6	414189	broad.mit.edu	37	chr10	51749089	51749089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttggagtttaacctttctgCcaatccagagtcaagcacaa	12	12	7	10	0	2	1	1	0	1	1	3	2	3	2	3	1	3	2	3	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:51749089C>T	uc001jix.3	+	2	643	c.245C>T	c.(244-246)GCC>GTC	p.A82V		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	82					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						AACCTTTCTGCCAATCCAGAG	0.343													24	66					0	0	1	0	0		T	51749089	T	T	51749089	3	4	153	1	0	0	0	0	1	0	0	0	372	739	26	2	251	2	AGAP6	10	51749089	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3359096	51749089	83785658	889	82821											
DKK1	22943	broad.mit.edu	37	chr10	54074424	54074424	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggaataagtaccagaccaTtgacaactaccaggtgagag	15	6	11	9	1	0	3	0	2	0	2	0	5	0	4	3	2	3	1	3	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:54074424T>C	uc001jjr.2	+	1	384	c.230T>C	c.(229-231)ATT>ACT	p.I77T	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	77					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TACCAGACCATTGACAACTAC	0.627											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	61					0	0	1	0	0		C	54074424	C	C	54074424	3	2	153	1	0	0	0	0	1	0	0	0	4550	1493	52	3	232	3	DKK1	10	54074424	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2325335	54074424	81460323	890	82822											
PCDH15	65217	broad.mit.edu	37	chr10	55912943	55912943	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcatttccacccctggagcGatggtgataagccctgttgt	8	12	10	11	1	1	1	1	1	0	0	2	3	2	2	4	2	2	1	4	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:55912943G>A	uc001jju.1	-	14	2096	c.1701C>T	c.(1699-1701)ATC>ATT	p.I567I	PCDH15_uc010qhq.1_Silent_p.I572I|PCDH15_uc010qhr.1_Silent_p.I567I|PCDH15_uc010qhs.1_Silent_p.I579I|PCDH15_uc010qht.1_Silent_p.I574I|PCDH15_uc010qhu.1_Silent_p.I567I|PCDH15_uc001jjv.1_Silent_p.I545I|PCDH15_uc010qhv.1_Silent_p.I567I|PCDH15_uc010qhw.1_Silent_p.I530I|PCDH15_uc010qhx.1_Silent_p.I567I|PCDH15_uc010qhy.1_Silent_p.I572I|PCDH15_uc010qhz.1_Silent_p.I567I|PCDH15_uc010qia.1_Silent_p.I545I|PCDH15_uc010qib.1_Silent_p.I545I|PCDH15_uc001jjw.2_Silent_p.I567I	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	567	Cadherin 5.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCCCTGGAGCGATGGTGATAA	0.493										HNSCC(58;0.16)			30	79					0	0	1	0	0		A	55912943	A	A	55912943	2	1	153	1	0	0	0	0	0	0	0	1	11530	1048	37	1		1	PCDH15	10	55912943	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1838519	55912943	79621804	891	82823											
ANK3	288	broad.mit.edu	37	chr10	61846456	61846456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtaatgctacagagaagacGcagattgggtgtagtgtccc	11	10	13	7	1	0	3	0	0	0	3	1	4	1	3	1	1	2	4	1	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:61846456G>A	uc001jky.2	-	30	3919	c.3727C>T	c.(3727-3729)CGT>TGT	p.R1243C	ANK3_uc001jkw.2_Missense_Mutation_p.R377C|ANK3_uc009xpa.2_Missense_Mutation_p.R377C|ANK3_uc001jkx.2_Missense_Mutation_p.R421C|ANK3_uc010qih.1_Missense_Mutation_p.R1244C|ANK3_uc001jkz.3_Missense_Mutation_p.R1237C|ANK3_uc001jla.1_Missense_Mutation_p.R309C|ANK3_uc001jlb.1_Missense_Mutation_p.R761C	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1243					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CAGAGAAGACGCAGATTGGGT	0.418													36	87					0	0	1	0	0		A	61846456	A	A	61846456	3	1	153	1	0	0	0	0	1	0	0	0	622	1087	38	1	9775	1	ANK3	10	61846456	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5933513	61846456	73688291	892	82824											
EGR2	1959	broad.mit.edu	37	chr10	64573060	64573060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtacccccaggctgcacGcccccagagcaggaggctgt	8	4	14	15	1	0	1	0	0	0	1	0	2	0	2	4	4	3	5	4	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:64573060G>A	uc010qim.1	-	3	1492	c.1338C>T	c.(1336-1338)GGC>GGT	p.G446G	EGR2_uc010qin.1_Silent_p.G396G|EGR2_uc001jmi.2_Silent_p.G446G|EGR2_uc010qio.1_Silent_p.G459G|EGR2_uc009xph.2_Silent_p.G446G	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	446					fat cell differentiation|protein export from nucleus|transcription from RNA polymerase II promoter	cytoplasm|nucleus	chromatin binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					CAGGCTGCACGCCCCCAGAGC	0.642													17	74					0	0	1	0	0		A	64573060	A	A	64573060	2	1	153	1	0	0	0	0	0	0	0	1	4978	1074	38	1		1	EGR2	10	64573060	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2726604	64573060	70961687	893	82825											
HKDC1	80201	broad.mit.edu	37	chr10	71010120	71010120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggtgaagatcagaagtggaCggaggtcagtgcgaatgtac	12	8	16	5	2	2	3	2	1	0	2	2	6	2	5	0	4	2	1	0	4	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:71010120C>T	uc001jpf.3	+	11	1778	c.1645C>T	c.(1645-1647)CGG>TGG	p.R549W	HKDC1_uc010qje.1_Missense_Mutation_p.R412W	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	549					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						CAGAAGTGGACGGAGGTCAGT	0.557													54	164					0	0	1	0	0		T	71010120	T	T	71010120	3	4	153	1	0	0	0	0	1	0	0	0	7209	527	19	1	1687	1	HKDC1	10	71010120	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6437060	71010120	64524627	894	82826											
SGPL1	8879	broad.mit.edu	37	chr10	72633180	72633180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggaactatcagttcttcGtcgatacagattggcagggt	11	11	11	8	2	2	1	1	0	1	1	4	3	2	2	0	3	2	2	0	3	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:72633180G>A	uc001jrm.2	+	12	1354	c.1132G>A	c.(1132-1134)GTC>ATC	p.V378I	SGPL1_uc009xqk.2_RNA	NM_003901	NP_003892	O95470	SGPL1_HUMAN	sphingosine-1-phosphate lyase 1	378	Cytoplasmic (Potential).				apoptosis|carboxylic acid metabolic process|ceramide metabolic process|sphingolipid catabolic process	integral to endoplasmic reticulum membrane	carboxy-lyase activity|pyridoxal phosphate binding|sphinganine-1-phosphate aldolase activity				0					Pyridoxal Phosphate(DB00114)	TCAGTTCTTCGTCGATACAGA	0.502													50	157					0	0	1	0	0		A	72633180	A	A	72633180	3	1	153	1	0	0	0	0	1	0	0	0	14243	1145	40	1	1174	1	SGPL1	10	72633180	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1623060	72633180	62901567	895	82827											
CDH23	64072	broad.mit.edu	37	chr10	73375330	73375330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgaatggcctgctggaccGggagaaccccctgtacagcc	8	7	12	14	1	0	2	0	1	0	1	0	4	0	3	5	3	4	2	5	3	3	2	rs121908355		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:73375330G>A	uc001jrx.3	+	10	1279	c.902G>A	c.(901-903)CGG>CAG	p.R301Q	CDH23_uc001jrw.3_Missense_Mutation_p.R301Q|CDH23_uc009xql.2_Missense_Mutation_p.R346Q	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	301	Cadherin 3.|Extracellular (Potential).		R -> Q (in DFNB12).		calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CTGCTGGACCGGGAGAACCCC	0.572													10	47					0	0	1	0	0		A	73375330	A	A	73375330	3	1	153	1	0	0	0	0	1	0	0	0	3111	1116	39	1	936	1	CDH23	10	73375330	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	742150	73375330	62159417	896	82828											
MYOZ1	58529	broad.mit.edu	37	chr10	75394429	75394429	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgttgctcttgctgtatgaGaatccctgaccagctgtgcc	6	12	10	13	1	1	2	0	2	1	1	2	3	2	2	4	0	4	5	4	0	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:75394429G>T	uc001jur.2	-	4	680	c.315C>A	c.(313-315)TTC>TTA	p.F105L		NM_021245	NP_067068	Q9NP98	MYOZ1_HUMAN	myozenin 1	105	Gly-rich.				myofibril assembly	nucleus|pseudopodium	FATZ binding			ovary(2)	2	Prostate(51;0.0112)					TGCTGTATGAGAATCCCTGAC	0.577													23	65					2.21704e-12	2.33943e-12	1	1	0		T	75394429	T	T	75394429	3	4	153	1	0	0	0	0	1	0	0	0	10113	933	33	5	596	5	MYOZ1	10	75394429	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2019099	75394429	60140318	897	82829											
DUPD1	338599	broad.mit.edu	37	chr10	76803726	76803726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgtgggccgcgttcagcaCgtgcgtgaaccccgccttct	4	8	13	16	6	2	1	1	1	1	0	2	1	2	1	5	1	3	2	5	1	1	2	rs143238854	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:76803726C>T	uc001jwq.1	-	2	250	c.250G>A	c.(250-252)GTG>ATG	p.V84M		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	84	Tyrosine-protein phosphatase.					cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					GCGTTCAGCACGTGCGTGAAC	0.706													9	27					0	0	1	0	0		T	76803726	T	T	76803726	3	4	153	1	0	0	0	0	1	0	0	0	4810	536	19	1	420	1	DUPD1	10	76803726	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1409297	76803726	58731021	898	82830											
KCNMA1	3778	broad.mit.edu	37	chr10	78651358	78651358	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctattggccagtgtctgCggggtgctgtagccacctct	4	12	12	13	1	2	0	0	0	2	0	3	0	3	0	4	3	3	2	4	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:78651358C>T	uc001jxn.2	-	26	3444	c.3267G>A	c.(3265-3267)CCG>CCA	p.P1089P	KCNMA1_uc001jxj.2_Silent_p.P1035P|KCNMA1_uc001jxk.1_Silent_p.P707P|KCNMA1_uc009xrt.1_Silent_p.P880P|KCNMA1_uc001jxl.1_Silent_p.P714P|KCNMA1_uc001jxo.2_Silent_p.P1072P|KCNMA1_uc001jxm.2_Silent_p.P1031P|KCNMA1_uc001jxq.2_Silent_p.P1061P|uc001jxp.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1089	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CCAGTGTCTGCGGGGTGCTGT	0.632													6	39					0	0	1	0	0		T	78651358	T	T	78651358	2	4	153	1	0	0	0	0	0	0	0	1	8089	755	27	1		1	KCNMA1	10	78651358	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1847632	78651358	56883389	899	82831											
KCNMA1	3778	broad.mit.edu	37	chr10	78844418	78844418	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatattcgaggcatcctcCgcatccgggtcagcgcagta	9	9	11	12	4	1	1	1	1	0	0	5	2	4	1	3	2	1	4	3	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:78844418C>T	uc001jxn.2	-	12	1677	c.1500G>A	c.(1498-1500)GCG>GCA	p.A500A	KCNMA1_uc001jxj.2_Silent_p.A500A|KCNMA1_uc001jxk.1_Silent_p.A115A|KCNMA1_uc009xrt.1_Silent_p.A320A|KCNMA1_uc001jxl.1_Silent_p.A154A|KCNMA1_uc001jxo.2_Silent_p.A500A|KCNMA1_uc001jxm.2_Silent_p.A500A|KCNMA1_uc001jxq.2_Silent_p.A500A	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	500	RCK N-terminal.|Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AGGCATCCTCCGCATCCGGGT	0.522													17	46					0	0	1	0	0		T	78844418	T	T	78844418	2	4	153	1	0	0	0	0	0	0	0	1	8089	639	23	1		1	KCNMA1	10	78844418	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	193060	78844418	56690329	900	82832											
POLR3A	11128	broad.mit.edu	37	chr10	79764517	79764517	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccaggctgctgctgcagcTtgcccgtgttcagggcttcg	4	10	14	13	2	1	0	1	0	0	0	2	0	1	0	2	2	6	7	2	2	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:79764517T>G	uc001jzn.2	-	16	2298	c.2204A>C	c.(2203-2205)AAG>ACG	p.K735T		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	735					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			CTGCTGCAGCTTGCCCGTGTT	0.592													12	29					0	0	1	0	0		G	79764517	G	G	79764517	3	3	153	1	0	0	0	0	1	0	0	0	12247	1609	56	5	2032	5	POLR3A	10	79764517	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	920099	79764517	55770230	901	82833											
NRG3	10718	broad.mit.edu	37	chr10	83635626	83635626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaccgggtgcccatccgggCcagcccgcgctccaccacag	6	3	12	20	4	0	0	0	0	0	0	2	0	2	0	7	2	2	2	7	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:83635626C>T	uc001kco.2	+	1	557	c.530C>T	c.(529-531)GCC>GTC	p.A177V	NRG3_uc010qlz.1_Missense_Mutation_p.A177V|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	177	Ser/Thr-rich.|Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CCCATCCGGGCCAGCCCGCGC	0.726													3	29					0	0	1	0	0		T	83635626	T	T	83635626	3	4	153	1	0	0	0	0	1	0	0	0	10668	739	26	2	532	2	NRG3	10	83635626	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3871109	83635626	51899121	902	82834											
GLUD1	2746	broad.mit.edu	37	chr10	88854214	88854214	+	Missense_Mutation	SNP	T	G	G	0	1	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	gggcttgatgatccgcaggaTgccgcgcacccggttccgct	5	8	14	14	5	0	2	0	2	0	0	2	3	2	3	4	3	1	5	4	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:88854214T>G	uc001keh.2	-	1	410	c.313A>C	c.(313-315)ATC>CTC	p.I105L	FAM35A_uc001kei.3_5'Flank|GLUD1_uc001keg.2_5'Flank|GLUD1_uc010qmp.1_5'Flank	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	105					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	ATCCGCAGGATGCCGCGCACC	0.662													15	39					0	0	1	0	0		G	88854214	G	G	88854214	3	3	153	1	0	0	0	0	1	0	0	0	6491	1464	51	5	1415	5	GLUD1	10	88854214	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	5218588	88854214	46680533	903	82835											
PANK1	53354	broad.mit.edu	37	chr10	91371452	91371452	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaaagacaaacccgacctaCcattctgaagtcctcttcga	14	8	5	14	2	2	2	0	1	2	1	4	4	3	2	4	0	2	0	4	0	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:91371452C>T	uc001kgp.1	-	2	1212	c.1056_splice	c.e2+1	p.M352_splice	PANK1_uc001kgn.1_Splice_Site_p.M127_splice|PANK1_uc001kgo.1_Splice_Site_p.M127_splice|PANK1_uc009xtu.1_Splice_Site_p.M154_splice	NM_148977	NP_683878	Q8TE04	PANK1_HUMAN	pantothenate kinase 1 isoform alpha						coenzyme A biosynthetic process|pantothenate metabolic process	cytosol|nucleus	ATP binding|pantothenate kinase activity				0					Bezafibrate(DB01393)	ACCCGACCTACCATTCTGAAG	0.428													22	73					0	0	1	0	0		T	91371452	T	T	91371452	5	4	153	1	0	0	0	0	0	0	1	0	11435	521	18	4	763	4	PANK1	10	91371452	Splice_Site	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2517238	91371452	44163295	904	82836											
RPP30	10556	broad.mit.edu	37	chr10	92634643	92634643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttggctattcagttgttGctatcaatcatatcgttgac	9	16	8	8	1	3	1	3	1	0	0	4	1	3	1	0	1	1	6	0	1	4	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:92634643G>A	uc009xtx.2	+	2	135	c.100G>A	c.(100-102)GCT>ACT	p.A34T	RPP30_uc001khd.2_Missense_Mutation_p.A34T|RPP30_uc010qnj.1_Missense_Mutation_p.A34T	NM_006413	NP_006404	P78346	RPP30_HUMAN	ribonuclease P/MRP 30kDa subunit isoform b	34					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity				0						TTCAGTTGTTGCTATCAATCA	0.294													17	77					0	0	1	0	0		A	92634643	A	A	92634643	3	1	153	1	0	0	0	0	1	0	0	0	13637	1319	46	2	106	2	RPP30	10	92634643	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1263191	92634643	42900104	905	82837											
BTAF1	9044	broad.mit.edu	37	chr10	93749219	93749219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagtgcacaacaaggacGccctgtcccaattcaaaaat	15	6	7	13	1	1	0	1	0	0	0	2	1	2	1	2	1	3	2	2	1	5	1	rs142341012		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:93749219G>A	uc001khr.2	+	20	2834	c.2736G>A	c.(2734-2736)ACG>ACA	p.T912T	BTAF1_uc001khs.1_Silent_p.T582T|BTAF1_uc001kht.1_Silent_p.T350T	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	912					negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				CAACAAGGACGCCCTGTCCCA	0.403													30	102					0	0	1	0	0		A	93749219	A	A	93749219	2	1	153	1	0	0	0	0	0	0	0	1	1539	1074	38	1		1	BTAF1	10	93749219	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1114576	93749219	41785528	906	82838											
CYP26A1	1592	broad.mit.edu	37	chr10	94836985	94836985	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctaaatggacctcctaCaatgaaaaccagtcccaccg	13	8	6	14	1	1	1	0	1	1	0	3	2	3	2	5	1	2	1	5	1	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:94836985C>T	uc001kil.2	+	7	1463	c.1418C>T	c.(1417-1419)ACA>ATA	p.T473I	CYP26A1_uc001kik.1_Missense_Mutation_p.T404I|CYP26A1_uc001kim.1_Missense_Mutation_p.T371I	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	473					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				GGACCTCCTACAATGAAAACC	0.448													15	67					0	0	1	0	0		T	94836985	T	T	94836985	3	4	153	1	0	0	0	0	1	0	0	0	4158	478	17	4	1444	4	CYP26A1	10	94836985	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1087766	94836985	40697762	907	82839											
ZDHHC16	84287	broad.mit.edu	37	chr10	99211969	99211969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctggcatttcttctatagCcactggaatctgatcctgat	8	15	8	10	0	3	2	0	2	3	0	4	3	4	3	2	2	2	2	2	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:99211969C>T	uc001knj.2	+	4	715	c.366C>T	c.(364-366)AGC>AGT	p.S122S	ZDHHC16_uc001knp.2_Silent_p.S122S|ZDHHC16_uc001knk.2_Silent_p.S122S|ZDHHC16_uc001knl.2_Silent_p.S122S|ZDHHC16_uc001knm.2_Intron|ZDHHC16_uc001knn.2_Silent_p.S122S|ZDHHC16_uc010qow.1_Silent_p.S122S|ZDHHC16_uc009xvq.2_RNA|ZDHHC16_uc001kno.2_Silent_p.S122S|ZDHHC16_uc009xvr.2_Silent_p.S122S	NM_198046	NP_932163	Q969W1	ZDH16_HUMAN	Abl-philin 2 isoform 1	122	Helical; (Potential).				apoptosis	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.0846)		Epithelial(162;5.81e-10)|all cancers(201;4.19e-08)		TCTTCTATAGCCACTGGAATC	0.562													38	119					0	0	1	0	0		T	99211969	T	T	99211969	2	4	153	1	0	0	0	0	0	0	0	1	17631	738	26	2		2	ZDHHC16	10	99211969	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4374984	99211969	36322778	908	82840											
SLC25A28	81894	broad.mit.edu	37	chr10	101370949	101370949	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtctctgggggttaaagtgcTcctgcaggaattcataggtc	8	12	13	8	0	2	0	1	0	1	0	5	1	3	1	1	4	2	3	1	4	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:101370949T>G	uc001kpx.2	-	4	881	c.752A>C	c.(751-753)GAG>GCG	p.E251A	SLC25A28_uc001kpy.2_Missense_Mutation_p.E64A	NM_031212	NP_112489	Q96A46	MFRN2_HUMAN	solute carrier family 25, member 28	251	Solcar 2.				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Colorectal(252;0.234)		Epithelial(162;2.57e-10)|all cancers(201;2.01e-08)		GTTAAAGTGCTCCTGCAGGAA	0.567													23	99					0	0	1	0	0		G	101370949	G	G	101370949	3	3	153	1	0	0	0	0	1	0	0	0	14516	1551	54	5	346	5	SLC25A28	10	101370949	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2158980	101370949	34163798	909	82841											
ENTPD7	57089	broad.mit.edu	37	chr10	101455831	101455831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcggaggcaactttgcccGgcagcgctacgaagaccttg	8	9	12	12	4	0	1	0	0	0	1	1	3	0	2	2	3	4	3	2	3	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:101455831G>A	uc001kqa.3	+	9	1140	c.962G>A	c.(961-963)CGG>CAG	p.R321Q	ENTPD7_uc009xwl.2_Missense_Mutation_p.R323Q	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	321	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		AACTTTGCCCGGCAGCGCTAC	0.453													38	112					0	0	1	0	0		A	101455831	A	A	101455831	3	1	153	1	0	0	0	0	1	0	0	0	5152	1116	39	1	992	1	ENTPD7	10	101455831	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	84882	101455831	34078916	910	82842											
PKD2L1	9033	broad.mit.edu	37	chr10	102054754	102054754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccgaaaagcaggtagcCgagttgggcataggcgaaga	12	5	16	8	3	0	1	0	0	0	1	1	4	1	1	2	4	2	4	2	4	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:102054754C>T	uc001kqx.1	-	8	1866	c.1483G>A	c.(1483-1485)GGC>AGC	p.G495S	PKD2L1_uc009xwm.1_Missense_Mutation_p.G448S	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	495	Helical; (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		AGCAGGTAGCCGAGTTGGGCA	0.562													28	61					0	0	1	0	0		T	102054754	T	T	102054754	3	4	153	1	0	0	0	0	1	0	0	0	11986	652	23	1	970	1	PKD2L1	10	102054754	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	598923	102054754	33479993	911	82843											
LDB1	8861	broad.mit.edu	37	chr10	103870407	103870407	+	Frame_Shift_Del	DEL	C	-	-																															catagtacagctccgtagcaCccccctcaaagatgctgcgg																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:103870407delC	uc009xwz.2	-	6	747	c.404delG	c.(403-405)GGTfs	p.G135fs	LDB1_uc001kuk.3_Frame_Shift_Del_p.G99fs|LDB1_uc001kul.3_Frame_Shift_Del_p.G99fs	NM_001113407	NP_001106878	Q86U70	LDB1_HUMAN	LIM domain binding 1 isoform 1	135					histone H3-K4 acetylation|negative regulation of erythrocyte differentiation|negative regulation of transcription, DNA-dependent|positive regulation of hemoglobin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription elongation, DNA-dependent|transcription, DNA-dependent|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	nuclear chromatin|protein complex	LIM domain binding|protein homodimerization activity|transcription corepressor activity			large_intestine(1)	1		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		CTCCGTAGCACCCCCCTCAAA	0.562													23	48	---	---	---	---						.	-	103870407	-	-	103870407	7	5	153	1	0	1	0	1	0	0	0	0	8711	507	18	0	855	0	LDB1	10	103870407	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	1815653	103870407	31664340	912	82844											
GBF1	8729	broad.mit.edu	37	chr10	104128078	104128078	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccctgagggcatattcCtgcgtgtgcctactgccagc	6	9	10	16	1	0	1	0	1	0	0	1	1	1	1	6	1	5	1	6	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:104128078C>T	uc001kux.1	+	22	2983	c.2743C>T	c.(2743-2745)CTG>TTG	p.L915L	GBF1_uc001kuy.1_Silent_p.L915L|GBF1_uc001kuz.1_Silent_p.L916L	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	915					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		GGGCATATTCCTGCGTGTGCC	0.517													40	128					0	0	1	0	0		T	104128078	T	T	104128078	2	4	153	1	0	0	0	0	0	0	0	1	6286	680	24	4		4	GBF1	10	104128078	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	257671	104128078	31406669	913	82845											
SH3PXD2A	9644	broad.mit.edu	37	chr10	105362048	105362048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccgactggggcctgaccGccacctgccgcactccgttc	6	6	10	19	4	0	1	0	1	0	0	2	2	1	1	7	2	1	2	7	2	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:105362048G>A	uc001kxj.1	-	14	2983	c.2843C>T	c.(2842-2844)GCG>GTG	p.A948V	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Missense_Mutation_p.A783V|SH3PXD2A_uc010qqt.1_Missense_Mutation_p.A825V|SH3PXD2A_uc009xxn.1_Missense_Mutation_p.A783V|SH3PXD2A_uc010qqu.1_Missense_Mutation_p.A891V	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	976					cell communication|superoxide metabolic process	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol binding|protein binding				0		Colorectal(252;0.0815)|Breast(234;0.131)		Epithelial(162;4.09e-10)|all cancers(201;2.73e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0119)		GGGCCTGACCGCCACCTGCCG	0.652													10	13					0	0	1	0	0		A	105362048	A	A	105362048	3	1	153	1	0	0	0	0	1	0	0	0	14281	1087	38	1	478	1	SH3PXD2A	10	105362048	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1233970	105362048	30172699	914	82846											
ITPRIP	85450	broad.mit.edu	37	chr10	106074825	106074825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttcagggaccccgggctgtCcagctggccaaaggccaggt	7	6	14	14	1	1	0	1	0	0	0	2	1	2	1	5	5	1	2	5	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:106074825C>T	uc001kye.2	-	2	1058	c.985G>A	c.(985-987)GAC>AAC	p.D329N	ITPRIP_uc001kyf.2_Missense_Mutation_p.D329N|ITPRIP_uc001kyg.2_Missense_Mutation_p.D329N	NM_033397	NP_203755	Q8IWB1	IPRI_HUMAN	inositol 1,4,5-triphosphate receptor interacting	329						plasma membrane					0						CCCGGGCTGTCCAGCTGGCCA	0.567													25	120					0	0	1	0	0		T	106074825	T	T	106074825	3	4	153	1	0	0	0	0	1	0	0	0	7939	855	30	4	662	4	ITPRIP	10	106074825	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	712777	106074825	29459922	915	82847											
SORCS1	114815	broad.mit.edu	37	chr10	108448006	108448006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccggcgcctgcagcaaacGccagtctctgcctttgttat	6	11	10	14	3	1	0	0	0	1	0	3	0	2	0	4	1	4	3	4	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:108448006G>A	uc001kym.2	-	10	1512	c.1504C>T	c.(1504-1506)CGT>TGT	p.R502C	SORCS1_uc001kyl.2_Missense_Mutation_p.R502C|SORCS1_uc009xxs.2_Missense_Mutation_p.R502C|SORCS1_uc001kyn.1_Missense_Mutation_p.R502C|SORCS1_uc001kyo.2_Missense_Mutation_p.R502C	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	502	Lumenal (Potential).|BNR 3.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TGCAGCAAACGCCAGTCTCTG	0.498													26	130					0	0	1	0	0		A	108448006	A	A	108448006	3	1	153	1	0	0	0	0	1	0	0	0	14955	1087	38	1	2304	1	SORCS1	10	108448006	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2373181	108448006	27086741	916	82848											
TCF7L2	6934	broad.mit.edu	37	chr10	114911564	114911564	+	Missense_Mutation	SNP	T	G	G	0	1	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	taatgcattcatgttgtataTgaaggaaatgagagcaaagg	16	11	11	3	0	1	2	1	2	0	1	1	4	1	3	0	2	2	4	0	2	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:114911564T>G	uc001lae.3	+	10	1589	c.1082T>G	c.(1081-1083)ATG>AGG	p.M361R	TCF7L2_uc001lac.3_Missense_Mutation_p.M338R|TCF7L2_uc010qrk.1_Missense_Mutation_p.M338R|TCF7L2_uc010qrl.1_Missense_Mutation_p.M338R|TCF7L2_uc010qrm.1_Missense_Mutation_p.M361R|TCF7L2_uc010qrn.1_Missense_Mutation_p.M304R|TCF7L2_uc001lad.3_Missense_Mutation_p.M334R|TCF7L2_uc001lag.3_Missense_Mutation_p.M385R|TCF7L2_uc001laf.3_Missense_Mutation_p.M338R|TCF7L2_uc010qro.1_Missense_Mutation_p.M338R|TCF7L2_uc001lah.2_Missense_Mutation_p.M343R|TCF7L2_uc010qrp.1_Missense_Mutation_p.M338R|TCF7L2_uc010qrq.1_Missense_Mutation_p.M334R|TCF7L2_uc010qrr.1_Missense_Mutation_p.M276R|TCF7L2_uc010qrs.1_Missense_Mutation_p.M232R|TCF7L2_uc010qrt.1_Missense_Mutation_p.M232R|TCF7L2_uc010qru.1_Missense_Mutation_p.M260R|TCF7L2_uc010qrv.1_Missense_Mutation_p.M178R|TCF7L2_uc010qrw.1_Missense_Mutation_p.M65R|TCF7L2_uc010qrx.1_Missense_Mutation_p.M218R	NM_001146274	NP_001139746	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2 isoform 1	361	Mediates interaction with MAD2L2.|HMG box.				anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|pancreas development|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|protein kinase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)		ATGTTGTATATGAAGGAAATG	0.463													27	84					0	0	1	0	0		G	114911564	G	G	114911564	3	3	153	1	0	0	0	0	1	0	0	0	15723	1464	51	5	1265	5	TCF7L2	10	114911564	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	6463558	114911564	20623183	917	82849											
FAM160B1	57700	broad.mit.edu	37	chr10	116602749	116602749	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtaatttcagaagatacaTtaaaaggtcaggattccttg	15	13	8	5	0	2	2	2	0	0	2	3	3	3	3	1	2	1	1	1	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:116602749T>C	uc001lcb.2	+	6	915	c.580T>C	c.(580-582)TTA>CTA	p.L194L	FAM160B1_uc001lcc.2_Silent_p.L194L	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	194										lung(1)	1						AGAAGATACATTAAAAGGTCA	0.358													14	100					0	0	1	0	0		C	116602749	C	C	116602749	2	2	153	1	0	0	0	0	0	0	0	1	5481	1490	52	3		3	FAM160B1	10	116602749	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1691185	116602749	18931998	918	82850											
FAM160B1	57700	broad.mit.edu	37	chr10	116606441	116606441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaatataaacctttgtgcCcagaagataaagatgtggta	16	10	9	6	0	0	4	0	0	0	4	0	4	0	4	2	1	2	1	2	1	8	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:116606441C>T	uc001lcb.2	+	11	1857	c.1522C>T	c.(1522-1524)CCA>TCA	p.P508S	FAM160B1_uc001lcc.2_Missense_Mutation_p.P508S	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	508										lung(1)	1						ACCTTTGTGCCCAGAAGATAA	0.353													18	103					0	0	1	0	0		T	116606441	T	T	116606441	3	4	153	1	0	0	0	0	1	0	0	0	5481	623	22	4	1564	4	FAM160B1	10	116606441	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3692	116606441	18928306	919	82851											
HSPA12A	259217	broad.mit.edu	37	chr10	118441370	118441370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtccgactctgccgattaCgccgtatgtgttccttagct	6	13	10	12	4	1	0	0	0	1	0	3	2	3	0	4	1	3	3	4	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:118441370C>T	uc001lct.2	-	8	959	c.854G>A	c.(853-855)CGT>CAT	p.R285H	HSPA12A_uc001lcu.2_Missense_Mutation_p.R202H	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	285							ATP binding			ovary(1)	1				all cancers(201;0.0158)		CTGCCGATTACGCCGTATGTG	0.473											OREG0020558	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	68					0	0	1	0	0		T	118441370	T	T	118441370	3	4	153	1	0	0	0	0	1	0	0	0	7420	536	19	1	1193	1	HSPA12A	10	118441370	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1834929	118441370	17093377	920	82852											
PDZD8	118987	broad.mit.edu	37	chr10	119042787	119042787	+	Missense_Mutation	SNP	A	G	G	1	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	tagacctgtctgctacacagActcggatgggccaaataagt	12	9	10	10	1	1	2	0	0	1	2	2	3	1	3	2	2	2	1	2	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:119042787A>G	uc001lde.1	-	5	3656	c.3457T>C	c.(3457-3459)TCT>CCT	p.S1153P		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	1153					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		TGCTACACAGACTCGGATGGG	0.398													23	109					0	0	1	0	0		G	119042787	G	G	119042787	3	3	153	1	0	0	0	0	1	0	0	0	11724	275	10	3	11	3	PDZD8	10	119042787	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	601417	119042787	16491960	921	82853											
PRLHR	2834	broad.mit.edu	37	chr10	120354444	120354444	+	Missense_Mutation	SNP	A	G	G	1	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	ggtgcacatgagcacgtcggAcaaggccaggttgccgatga	10	6	15	10	3	0	2	0	2	0	0	1	4	0	3	2	4	3	3	2	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:120354444A>G	uc001ldp.1	-	2	452	c.313T>C	c.(313-315)TCC>CCC	p.S105P		NM_004248	NP_004239	P49683	PRLHR_HUMAN	G protein-coupled receptor 10	105	Helical; Name=2; (Potential).				female pregnancy	integral to plasma membrane	neuropeptide Y receptor activity				0		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		AGCACGTCGGACAAGGCCAGG	0.682													5	58					0	0	1	0	0		G	120354444	G	G	120354444	3	3	153	1	0	0	0	0	1	0	0	0	12552	275	10	3	803	3	PRLHR	10	120354444	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1311657	120354444	15180303	922	82854											
INPP5F	22876	broad.mit.edu	37	chr10	121586928	121586928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagacaccttctcggccatCgcaattagatgtctctcttt	9	13	6	13	2	3	2	0	0	3	2	6	2	3	2	2	1	0	1	2	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:121586928C>T	uc001leo.2	+	20	3201	c.3035C>T	c.(3034-3036)TCG>TTG	p.S1012L	INPP5F_uc001lep.2_Missense_Mutation_p.S402L	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	1012							phosphoric ester hydrolase activity	p.S1012S(1)		ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		TCTCGGCCATCGCAATTAGAT	0.463													34	158					0	0	1	0	0		T	121586928	T	T	121586928	3	4	153	1	0	0	0	0	1	0	0	0	7774	893	31	1	3113	1	INPP5F	10	121586928	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1232484	121586928	13947819	923	82855											
DMBT1	1755	broad.mit.edu	37	chr10	124331836	124331836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaccctgcaggttctcCgatttccttggagtcaaccc	6	12	7	16	1	3	0	1	0	2	0	6	2	4	1	5	2	2	2	5	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:124331836C>T	uc001lgk.1	+	5	300	c.194C>T	c.(193-195)CCG>CTG	p.P65L	DMBT1_uc001lgl.1_Missense_Mutation_p.P65L|DMBT1_uc001lgm.1_Missense_Mutation_p.P65L|DMBT1_uc009xzz.1_Missense_Mutation_p.P65L|DMBT1_uc010qtx.1_Missense_Mutation_p.P65L|DMBT1_uc009yaa.1_5'UTR	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	65			P -> L.		epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GCAGGTTCTCCGATTTCCTTG	0.522													62	165					0	0	1	0	0		T	124331836	T	T	124331836	3	4	153	1	0	0	0	0	1	0	0	0	4583	652	23	1	212	1	DMBT1	10	124331836	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2744908	124331836	11202911	924	82856											
DOCK1	1793	broad.mit.edu	37	chr10	129160405	129160405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taattcccgagacggagctgCgcaaagccaccatccccatc	11	6	8	16	3	0	1	0	0	0	1	3	3	2	2	5	1	3	2	5	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:129160405C>T	uc001ljt.2	+	33	3362	c.3298C>T	c.(3298-3300)CGC>TGC	p.R1100C	DOCK1_uc010qun.1_Missense_Mutation_p.R1121C|DOCK1_uc009yaq.2_Missense_Mutation_p.R95C	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1100					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		GACGGAGCTGCGCAAAGCCAC	0.448													7	37					0	0	1	0	0		T	129160405	T	T	129160405	3	4	153	1	0	0	0	0	1	0	0	0	4690	768	27	1	3428	1	DOCK1	10	129160405	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4828569	129160405	6374342	925	82857											
PPP2R2D	55844	broad.mit.edu	37	chr10	133769302	133769302	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaccgcgcgccagcctcaaAccccggaaggtgtgtacggg	10	4	13	14	5	1	0	1	0	0	0	1	1	1	1	5	3	4	1	5	3	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr10:133769302A>C	uc001lks.2	+	7	1341	c.1098A>C	c.(1096-1098)AAA>AAC	p.K366N	PPP2R2D_uc001lkr.2_Missense_Mutation_p.K172N|PPP2R2D_uc001lkt.2_Missense_Mutation_p.K172N|PPP2R2D_uc009yay.2_Missense_Mutation_p.K234N	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	399					cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		CCAGCCTCAAACCCCGGAAGG	0.572													19	52					0	0	1	0	0		C	133769302	C	C	133769302	3	2	153	1	0	0	0	0	1	0	0	0	12409	40	2	5	1125	5	PPP2R2D	10	133769302	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	4608897	133769302	1765445	926	82858											
IRF7	3665	broad.mit.edu	37	chr11	613969	613969	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctgtcgttagtgccgcggGctggggcccggggctggggg	2	7	21	11	4	0	0	0	0	0	0	1	0	0	0	3	7	1	3	3	7	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:613969G>C	uc001lqh.2	-	7	1118	c.748C>G	c.(748-750)CCC>GCC	p.P250A	IRF7_uc009ycb.2_Missense_Mutation_p.P144A|IRF7_uc010qwf.1_Missense_Mutation_p.P249A|IRF7_uc001lqf.2_5'UTR|IRF7_uc010qwg.1_5'UTR|IRF7_uc001lqg.2_Missense_Mutation_p.P263A|IRF7_uc001lqi.2_Intron|IRF7_uc010qwh.1_5'UTR	NM_001572	NP_001563	Q92985	IRF7_HUMAN	interferon regulatory factor 7 isoform a	250					interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of interferon-alpha production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|endosome membrane|nucleoplasm|plasma membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		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;7.68e-28)|Epithelial(43;7.44e-27)|OV - Ovarian serous cystadenocarcinoma(40;3.53e-21)|BRCA - Breast invasive adenocarcinoma(625;6.96e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGTGCCGCGGGCTGGGGCCCG	0.687													13	15					0	0	1	0	0		C	613969	C	C	613969	3	2	153	1	0	0	0	0	1	0	0	0	7851	1203	42	5	783	5	IRF7	11	613969	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		613969	134392547	927	82859											
MUC6	4588	broad.mit.edu	37	chr11	1024987	1024988	+	Frame_Shift_Del	DEL	CC	-	-																															gctctccttccacgagttcaCcaactccagctcgctggatg																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:1024987_1024988delCC	uc001lsw.2	-	24	3132_3133	c.3081_3082delGG	c.(3079-3084)TTGGTGfs	p.L1027fs		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1027_1028	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CACGAGTTCACCAACTCCAGCT	0.624													22	34	---	---	---	---						.	-	1024988	-	-	1024987	7	5	153	1	0	1	0	1	0	0	0	0	9998	507	18	0	4277	0	MUC6	11	1024987	Frame_Shift_Del	DEL	CC	TCGA-CG-5723-01A-11D-1600-08	411018	1024987	133981529	928	82860											
MUC5B	727897	broad.mit.edu	37	chr11	1263618	1263618	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgggcggagaactacccCgaggtaagcatcgaccaggt	10	5	14	12	4	0	1	0	0	0	1	1	4	0	1	4	4	4	2	4	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:1263618C>T	uc009ycr.1	+	47	7713	c.7587C>T	c.(7585-7587)CCC>CCT	p.P2529P	MUC5B_uc001ltb.2_Silent_p.P1839P	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1836	7 X Cys-rich subdomain repeats.|Thr-rich.|Cys-rich subdomain 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		AGAACTACCCCGAGGTAAGCA	0.587													13	41					0	0	1	0	0		T	1263618	T	T	1263618	2	4	153	1	0	0	0	0	0	0	0	1	9997	639	23	1		1	MUC5B	11	1263618	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	238631	1263618	133742898	929	82861											
MUC5B	727897	broad.mit.edu	37	chr11	1272678	1272678	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccgagcactatagccacCgtgatggtgcccaccggttc	8	7	12	14	3	0	1	0	1	0	0	1	3	0	1	5	2	4	2	5	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:1272678C>T	uc009ycr.1	+	52	15660	c.15534C>T	c.(15532-15534)ACC>ACT	p.T5178T	MUC5B_uc001ltb.2_Silent_p.T4859T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4856	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTATAGCCACCGTGATGGTGC	0.632													14	38					0	0	1	0	0		T	1272678	T	T	1272678	2	4	153	1	0	0	0	0	0	0	0	1	9997	639	23	1		1	MUC5B	11	1272678	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9060	1272678	133733838	930	82862											
NUP98	4928	broad.mit.edu	37	chr11	3712640	3712640	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtggtgtctgtgagttttgcTcctccgctatcacacagcca	6	13	10	12	1	2	1	1	1	1	0	4	1	4	1	3	1	2	3	3	1	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:3712640T>G	uc001lyh.2	-	28	4682	c.4391A>C	c.(4390-4392)GAG>GCG	p.E1464A	NUP98_uc001lyi.2_Missense_Mutation_p.E1464A|NUP98_uc001lyg.2_Missense_Mutation_p.E429A	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1481					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		TGAGTTTTGCTCCTCCGCTAT	0.453			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								14	76					0	0	1	0	0		G	3712640	G	G	3712640	3	3	153	1	0	0	0	0	1	0	0	0	10792	1551	54	5	1035	5	NUP98	11	3712640	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2439962	3712640	131293876	931	82863											
NUP98	4928	broad.mit.edu	37	chr11	3733808	3733808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctacctgaggtggaggtgCaggtttgccattaagagcca	9	10	13	9	0	1	2	0	1	1	1	1	3	1	3	3	4	4	2	3	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:3733808C>T	uc001lyh.2	-	20	3019	c.2728G>A	c.(2728-2730)GCA>ACA	p.A910T	NUP98_uc001lyi.2_Missense_Mutation_p.A910T|NUP98_uc001lyj.1_Missense_Mutation_p.A910T|NUP98_uc001lyk.1_Missense_Mutation_p.A927T	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	927					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GGTGGAGGTGCAGGTTTGCCA	0.448			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								45	110					0	0	1	0	0		T	3733808	T	T	3733808	3	4	153	1	0	0	0	0	1	0	0	0	10792	710	25	2	2751	2	NUP98	11	3733808	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	21168	3733808	131272708	932	82864											
OR52K1	390036	broad.mit.edu	37	chr11	4510535	4510535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaagccattgcactacacGacggtcctgactgggtccct	8	9	10	14	2	0	1	0	1	0	0	2	2	2	1	3	2	4	2	3	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:4510535G>A	uc001lza.1	+	1	405	c.405G>A	c.(403-405)ACG>ACA	p.T135T		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGCACTACACGACGGTCCTGA	0.567													9	49					0	0	1	0	0		A	4510535	A	A	4510535	2	1	153	1	0	0	0	0	0	0	0	1	11142	1045	37	1		1	OR52K1	11	4510535	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	776727	4510535	130495981	933	82865											
HBE1	3046	broad.mit.edu	37	chr11	5290793	5290793	+	Missense_Mutation	SNP	A	G	G	1	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	tagcatctccaaaggaagtcAgcaccttcttgccatgggcc	10	9	9	13	0	3	0	1	0	2	0	4	1	3	1	4	2	3	2	4	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:5290793A>G	uc001mal.1	-	2	459	c.206T>C	c.(205-207)CTG>CCG	p.L69P	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Missense_Mutation_p.L69P	NM_005330	NP_005321	P02100	HBE_HUMAN	epsilon globin	69					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.34e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAGGAAGTCAGCACCTTCTT	0.522													28	114					0	0	1	0	0		G	5290793	G	G	5290793	3	3	153	1	0	0	0	0	1	0	0	0	6996	188	7	3	245	3	HBE1	11	5290793	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	780258	5290793	129715723	934	82866											
OR51I2	390064	broad.mit.edu	37	chr11	5474944	5474944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgatgtggccatatccatgGccacactgcccactgtactc	8	10	9	14	0	0	1	0	1	0	0	2	1	1	1	4	2	2	1	4	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:5474944G>A	uc010qzf.1	+	1	226	c.226G>A	c.(226-228)GCC>ACC	p.A76T	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004754	NP_001004754	Q9H344	O51I2_HUMAN	olfactory receptor, family 51, subfamily I,	76	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4		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)		CATATCCATGGCCACACTGCC	0.502													30	122					0	0	1	0	0		A	5474944	A	A	5474944	3	1	153	1	0	0	0	0	1	0	0	0	11120	1203	42	2	228	2	OR51I2	11	5474944	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	184151	5474944	129531572	935	82867											
OR56B4	196335	broad.mit.edu	37	chr11	6129484	6129484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttcatcatgctcaggaatgGcctgttgaccatcccagtgc	8	11	10	12	0	3	1	3	1	0	0	4	2	4	2	3	2	2	3	3	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:6129484G>A	uc010qzx.1	+	1	476	c.476G>A	c.(475-477)GGC>GAC	p.G159D		NM_001005181	NP_001005181	Q8NH76	O56B4_HUMAN	olfactory receptor, family 56, subfamily B,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.31e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTCAGGAATGGCCTGTTGACC	0.502													36	127					0	0	1	0	0		A	6129484	A	A	6129484	3	1	153	1	0	0	0	0	1	0	0	0	11157	1203	42	2	478	2	OR56B4	11	6129484	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	654540	6129484	128877032	936	82868											
OR2D2	120776	broad.mit.edu	37	chr11	6913632	6913632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aagcacagtgaccaggtagaCacccaataatacgataaata	19	6	7	9	1	0	2	0	1	0	1	0	3	0	2	2	1	2	2	2	1	8	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:6913632C>T	uc010rau.1	-	1	100	c.100G>A	c.(100-102)GTC>ATC	p.V34I		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		ACCAGGTAGACACCCAATAAT	0.443													31	78					0	0	1	0	0		T	6913632	T	T	6913632	3	4	153	1	0	0	0	0	1	0	0	0	11013	478	17	4	829	4	OR2D2	11	6913632	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	784148	6913632	128092884	937	82869											
RBMXL2	27288	broad.mit.edu	37	chr11	7111248	7111248	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccaggacgggggacaccGccatcttacggaggaggagg	9	3	17	12	3	1	0	0	0	1	0	1	5	1	5	4	7	1	0	4	7	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:7111248G>A	uc001mfc.2	+	1	1084	c.897G>A	c.(895-897)CCG>CCA	p.P299P		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	299	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GGGGGACACCGCCATCTTACG	0.662													8	10					0	0	1	0	0		A	7111248	A	A	7111248	2	1	153	1	0	0	0	0	0	0	0	1	13179	1074	38	1		1	RBMXL2	11	7111248	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	197616	7111248	127895268	938	82870											
C11orf16	56673	broad.mit.edu	37	chr11	8947037	8947037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaggcatggctcaggccCgtttctcttccaatacctcc	7	10	7	17	1	2	0	1	0	1	0	5	0	4	0	5	3	1	3	5	3	3	3	rs143892206	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:8947037C>T	uc001mhb.3	-	5	1301	c.1177G>A	c.(1177-1179)GGG>AGG	p.G393R	C11orf16_uc001mhc.3_Missense_Mutation_p.G393R	NM_020643	NP_065694	Q9NQ32	CK016_HUMAN	hypothetical protein LOC56673	393										upper_aerodigestive_tract(1)|pancreas(1)	2				Epithelial(150;4.11e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0234)		GGCTCAGGCCCGTTTCTCTTC	0.587													29	86					0	0	1	0	0		T	8947037	T	T	8947037	3	4	153	1	0	0	0	0	1	0	0	0	1634	652	23	1	234	1	C11orf16	11	8947037	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1835789	8947037	126059479	939	82871											
TMEM9B	56674	broad.mit.edu	37	chr11	8969887	8969887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttagctgaggacaacatgccGgtcaaagacagactttcgct	12	9	10	10	2	1	3	1	1	0	2	2	4	1	4	1	2	3	2	1	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:8969887G>A	uc001mhe.1	-	5	706	c.577C>T	c.(577-579)CGG>TGG	p.R193W	TMEM9B_uc001mhf.1_Missense_Mutation_p.R119W|TMEM9B_uc010rbt.1_Missense_Mutation_p.R119W	NM_020644	NP_065695	Q9NQ34	TMM9B_HUMAN	TMEM9 domain family, member B precursor	193					positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	signal transducer activity				0				Epithelial(150;4.39e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0237)		ACAACATGCCGGTCAAAGACA	0.493													43	129					0	0	1	0	0		A	8969887	A	A	8969887	3	1	153	1	0	0	0	0	1	0	0	0	16252	1115	39	1	23	1	TMEM9B	11	8969887	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	22850	8969887	126036629	940	82872											
SCUBE2	57758	broad.mit.edu	37	chr11	9069032	9069032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgaaactgctccctgtggaCggcctttctgagcgtgcgga	6	10	14	11	3	1	2	0	2	1	0	2	4	2	4	2	3	4	1	2	3	1	1	rs72550810	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:9069032C>T	uc001mhh.1	-	15	1866	c.1786G>A	c.(1786-1788)GTC>ATC	p.V596I	SCUBE2_uc001mhi.1_Missense_Mutation_p.V625I|SCUBE2_uc001mhj.1_Missense_Mutation_p.V470I	NM_020974	NP_066025	Q9NQ36	SCUB2_HUMAN	CEGP1 protein precursor	596						extracellular region	calcium ion binding			ovary(1)|skin(1)	2				all cancers(16;8.57e-09)|Epithelial(150;4.42e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0116)		TCCCTGTGGACGGCCTTTCTG	0.557													21	58					0	0	1	0	0		T	9069032	T	T	9069032	3	4	153	1	0	0	0	0	1	0	0	0	13970	536	19	1	1245	1	SCUBE2	11	9069032	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	99145	9069032	125937484	941	82873											
ARNTL	406	broad.mit.edu	37	chr11	13393835	13393835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaacctcagctgcctcgtcGcaattggacgactgcattct	8	11	9	13	3	2	0	1	0	1	0	4	2	2	1	2	1	4	4	2	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:13393835G>A	uc001mkr.2	+	13	1354	c.946G>A	c.(946-948)GCA>ACA	p.A316T	ARNTL_uc001mko.2_Missense_Mutation_p.A272T|ARNTL_uc001mkp.2_Missense_Mutation_p.A315T|ARNTL_uc001mkq.2_Missense_Mutation_p.A315T|ARNTL_uc001mks.2_Missense_Mutation_p.A273T|ARNTL_uc001mkt.2_Missense_Mutation_p.A316T|ARNTL_uc001mku.2_RNA|ARNTL_uc009ygm.1_Intron|ARNTL_uc001mkv.1_Missense_Mutation_p.A273T|ARNTL_uc001mkw.2_Missense_Mutation_p.A273T|ARNTL_uc001mkx.2_Missense_Mutation_p.A314T	NM_001178	NP_001169	O00327	BMAL1_HUMAN	aryl hydrocarbon receptor nuclear	316					circadian rhythm|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	aryl hydrocarbon receptor binding|DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0				Epithelial(150;0.0243)		CTGCCTCGTCGCAATTGGACG	0.498													29	96					0	0	1	0	0		A	13393835	A	A	13393835	3	1	153	1	0	0	0	0	1	0	0	0	968	1087	38	1	992	1	ARNTL	11	13393835	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4324803	13393835	121612681	942	82874											
ABCC8	6833	broad.mit.edu	37	chr11	17428178	17428178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagacgggtacctcatggggGctaggatgatccggtttagc	8	9	16	8	2	1	2	1	1	0	1	2	4	2	3	2	5	2	3	2	5	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:17428178G>A	uc001mnc.2	-	26	3446	c.3320C>T	c.(3319-3321)GCC>GTC	p.A1107V		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1107	Cytoplasmic (By similarity).|ABC transmembrane type-1 2.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CCTCATGGGGGCTAGGATGAT	0.413													14	36					0	0	1	0	0		A	17428178	A	A	17428178	3	1	153	1	0	0	0	0	1	0	0	0	58	1203	42	2	1481	2	ABCC8	11	17428178	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4034343	17428178	117578338	943	82875											
ABCC8	6833	broad.mit.edu	37	chr11	17491700	17491700	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttgtgatagtagaccacGgaggtgacagcagccatgaa	13	8	13	7	1	0	4	0	3	0	1	0	5	0	5	2	2	2	3	2	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:17491700G>A	uc001mnc.2	-	3	486	c.360C>T	c.(358-360)TCC>TCT	p.S120S	ABCC8_uc010rcy.1_Silent_p.S120S	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	120	Helical; Name=3; (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	AGTAGACCACGGAGGTGACAG	0.517													8	28					0	0	1	0	0		A	17491700	A	A	17491700	2	1	153	1	0	0	0	0	0	0	0	1	58	1103	39	1		1	ABCC8	11	17491700	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	63522	17491700	117514816	944	82876											
MYOD1	4654	broad.mit.edu	37	chr11	17741819	17741819	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagggcctgcaggctctgCtgcgcgaccaggacgccgcg	5	5	16	15	6	1	0	0	0	1	0	2	3	1	1	3	3	3	3	3	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:17741819C>T	uc001mni.2	+	1	710	c.490C>T	c.(490-492)CTG>TTG	p.L164L		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	164					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						GCAGGCTCTGCTGCGCGACCA	0.547													5	16					0	0	1	0	0		T	17741819	T	T	17741819	2	4	153	1	0	0	0	0	0	0	0	1	10106	796	28	2		2	MYOD1	11	17741819	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	250119	17741819	117264697	945	82877											
SAA4	6291	broad.mit.edu	37	chr11	18253142	18253142	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgttggacttcgagtcCtccaatacagtgctgctgtt	6	15	9	11	2	1	0	0	0	1	0	5	2	3	1	2	1	3	4	2	1	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:18253142C>T	uc001mny.2	-	4	396	c.300G>A	c.(298-300)GAG>GAA	p.E100E		NM_006512	NP_006503	P35542	SAA4_HUMAN	serum amyloid A4, constitutive precursor	100					acute-phase response	high-density lipoprotein particle					0						ACTTCGAGTCCTCCAATACAG	0.502													4	172					0	0	1	0	0		T	18253142	T	T	18253142	2	4	153	1	0	0	0	0	0	0	0	1	13825	680	24	4		4	SAA4	11	18253142	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	511323	18253142	116753374	946	82878											
UEVLD	55293	broad.mit.edu	37	chr11	18587900	18587900	+	Missense_Mutation	SNP	T	C	C	0	1	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	acaaatatacaaaccttcagTgatttttgcaatataggcta	16	13	5	7	0	1	1	1	1	0	0	1	1	1	1	1	1	3	2	1	1	8	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:18587900T>C	uc001mot.2	-	5	567	c.487A>G	c.(487-489)ACT>GCT	p.T163A	UEVLD_uc001mou.2_Missense_Mutation_p.T163A|UEVLD_uc010rde.1_Missense_Mutation_p.T33A|UEVLD_uc010rdf.1_Missense_Mutation_p.T141A|UEVLD_uc010rdg.1_Missense_Mutation_p.T33A|UEVLD_uc001mov.2_Missense_Mutation_p.T141A|UEVLD_uc010rdh.1_Missense_Mutation_p.T163A	NM_001040697	NP_001035787	Q8IX04	UEVLD_HUMAN	ubiquitin-conjugating enzyme E2-like isoform a	163					cellular carbohydrate metabolic process|protein modification process|protein transport		binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor				0						AAACCTTCAGTGATTTTTGCA	0.368													30	72					0	0	1	0	0		C	18587900	C	C	18587900	3	2	153	1	0	0	0	0	1	0	0	0	16959	1696	59	3	960	3	UEVLD	11	18587900	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	334758	18587900	116418616	947	82879											
ANO3	63982	broad.mit.edu	37	chr11	26556078	26556078	+	Silent	SNP	C	T	T	0	0	0	1	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	gtctatcacatgctggaacgCaccaaatatgaaaatggaat	16	9	8	8	1	2	1	1	1	1	0	2	3	2	3	1	2	2	2	1	2	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:26556078C>T	uc001mqt.3	+	9	1090	c.945C>T	c.(943-945)CGC>CGT	p.R315R	ANO3_uc010rdr.1_Silent_p.R299R|ANO3_uc010rds.1_Silent_p.R154R|ANO3_uc010rdt.1_Silent_p.R169R	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	315	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGCTGGAACGCACCAAATATG	0.323													33	113					0	0	1	0	0		T	26556078	T	T	26556078	2	4	153	1	0	0	0	0	0	0	0	1	698	697	25	2		2	ANO3	11	26556078	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7968178	26556078	108450438	948	82880											
METT5D1	196074	broad.mit.edu	37	chr11	28134963	28134963	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctggcatacctaatttaggtGtctggccaaacagaatacat	13	11	8	9	0	1	1	0	0	1	1	1	1	1	1	2	3	3	1	2	3	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:28134963G>A	uc001msh.2	+	3	537	c.82G>A	c.(82-84)GTC>ATC	p.V28I	METT5D1_uc001msg.2_Missense_Mutation_p.V28I|METT5D1_uc001mse.2_Missense_Mutation_p.V28I|METT5D1_uc001msf.1_RNA	NM_001113528	NP_001107000	A6NJ78	MET15_HUMAN	methyltransferase 5 domain containing 1 isoform	28							methyltransferase activity				0						TAATTTAGGTGTCTGGCCAAA	0.378													27	90					0	0	1	0	0		A	28134963	A	A	28134963	3	1	153	1	0	0	0	0	1	0	0	0	9510	1377	48	4	84	4	METT5D1	11	28134963	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1578885	28134963	106871553	949	82881											
TCP11L1	55346	broad.mit.edu	37	chr11	33087459	33087459	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgggggctgtgttgctggtCaccttcagcatggcagcgcc	4	10	15	12	1	2	0	2	0	0	0	2	0	2	0	2	4	3	5	2	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:33087459C>T	uc001mud.2	+	8	1456	c.1056C>T	c.(1054-1056)GTC>GTT	p.V352V	TCP11L1_uc009yju.2_Silent_p.V167V|TCP11L1_uc010rei.1_Silent_p.V352V|TCP11L1_uc001mue.2_Silent_p.V352V|TCP11L1_uc001muf.1_RNA	NM_018393	NP_060863	Q9NUJ3	T11L1_HUMAN	t-complex 11 (mouse) like 1	352											0						TGTTGCTGGTCACCTTCAGCA	0.498											OREG0020866	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	62	190					0	0	1	0	0		T	33087459	T	T	33087459	2	4	153	1	0	0	0	0	0	0	0	1	15739	813	29	4		4	TCP11L1	11	33087459	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4952496	33087459	101919057	950	82882											
HIPK3	10114	broad.mit.edu	37	chr11	33308232	33308232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgaaaaacactgcaggtgCtacaaaggtcatagcagctc	14	9	9	9	0	1	1	1	1	0	0	2	1	1	1	0	2	6	4	0	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:33308232C>T	uc001mul.1	+	2	542	c.272C>T	c.(271-273)GCT>GTT	p.A91V	HIPK3_uc001mum.1_Missense_Mutation_p.A91V|HIPK3_uc009yjv.1_Missense_Mutation_p.A91V	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	91					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						ACTGCAGGTGCTACAAAGGTC	0.483													22	105					0	0	1	0	0		T	33308232	T	T	33308232	3	4	153	1	0	0	0	0	1	0	0	0	7134	797	28	2	274	2	HIPK3	11	33308232	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	220773	33308232	101698284	951	82883											
HIPK3	10114	broad.mit.edu	37	chr11	33308858	33308858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgccactaaaagtgattCggcccattcttcaacaagtg	11	10	7	13	1	2	1	1	1	1	0	3	1	2	1	3	1	2	0	3	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:33308858C>T	uc001mul.1	+	2	1168	c.898C>T	c.(898-900)CGG>TGG	p.R300W	HIPK3_uc001mum.1_Missense_Mutation_p.R300W|HIPK3_uc009yjv.1_Missense_Mutation_p.R300W	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	300	Protein kinase.				anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						AAAAGTGATTCGGCCCATTCT	0.388													31	153					0	0	1	0	0		T	33308858	T	T	33308858	3	4	153	1	0	0	0	0	1	0	0	0	7134	875	31	1	900	1	HIPK3	11	33308858	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	626	33308858	101697658	952	82884											
CHST1	8534	broad.mit.edu	37	chr11	45671376	45671376	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcaaaggccacgatgtcGtaggagaggcggaagcgcca	11	4	17	9	4	0	1	0	0	0	1	1	4	0	2	2	5	1	2	2	5	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:45671376G>A	uc001mys.1	-	4	1769	c.1098C>T	c.(1096-1098)TAC>TAT	p.Y366Y		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	366	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CCACGATGTCGTAGGAGAGGC	0.657													21	73					0	0	1	0	0		A	45671376	A	A	45671376	2	1	153	1	0	0	0	0	0	0	0	1	3400	1140	40	1		1	CHST1	11	45671376	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	12362518	45671376	89335140	953	82885											
CHST1	8534	broad.mit.edu	37	chr11	45671881	45671881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggccacgtggctgcgctcgCggcacgcctcggccgccacg	3	5	15	18	8	0	0	0	0	0	0	2	0	0	0	4	4	1	3	4	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:45671881C>T	uc001mys.1	-	4	1264	c.593G>A	c.(592-594)CGC>CAC	p.R198H		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	198	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		GCTGCGCTCGCGGCACGCCTC	0.687													4	19					0	0	1	0	0		T	45671881	T	T	45671881	3	4	153	1	0	0	0	0	1	0	0	0	3400	768	27	1	646	1	CHST1	11	45671881	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	505	45671881	89334635	954	82886											
GYLTL1B	120071	broad.mit.edu	37	chr11	45949777	45949777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacagactatgcccgctggCgggaggctcaggccccgtac	7	5	13	16	3	1	1	1	0	0	1	1	2	1	2	4	4	2	3	4	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:45949777C>T	uc001nbv.1	+	13	1915	c.1804C>T	c.(1804-1806)CGG>TGG	p.R602W	GYLTL1B_uc001nbw.1_Missense_Mutation_p.R571W|GYLTL1B_uc001nbx.1_Missense_Mutation_p.R602W|GYLTL1B_uc001nby.1_Missense_Mutation_p.R285W|GYLTL1B_uc001nbz.1_Intron	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	602	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		TGCCCGCTGGCGGGAGGCTCA	0.662													12	44					0	0	1	0	0		T	45949777	T	T	45949777	3	4	153	1	0	0	0	0	1	0	0	0	6923	759	27	1	1850	1	GYLTL1B	11	45949777	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	277896	45949777	89056739	955	82887											
GYLTL1B	120071	broad.mit.edu	37	chr11	45949840	45949840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgaaccctacgtggtggtgCcacgagactgtccccgctat	8	9	11	13	3	0	2	0	1	0	1	1	3	1	2	4	2	3	1	4	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:45949840C>T	uc001nbv.1	+	13	1978	c.1867C>T	c.(1867-1869)CCA>TCA	p.P623S	GYLTL1B_uc001nbw.1_Missense_Mutation_p.P592S|GYLTL1B_uc001nbx.1_Missense_Mutation_p.P623S|GYLTL1B_uc001nby.1_Missense_Mutation_p.P306S|GYLTL1B_uc001nbz.1_Intron	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	623	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		CGTGGTGGTGCCACGAGACTG	0.642													37	150					0	0	1	0	0		T	45949840	T	T	45949840	3	4	153	1	0	0	0	0	1	0	0	0	6923	739	26	2	1913	2	GYLTL1B	11	45949840	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	63	45949840	89056676	956	82888											
PHF21A	51317	broad.mit.edu	37	chr11	45967444	45967444	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgaacaggtgcagggaaagTgaatgtggtctctgtctttt	9	13	13	6	0	2	2	0	2	2	0	3	3	2	3	0	3	2	1	0	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:45967444T>C	uc001ncc.3	-	14	2020	c.1396A>G	c.(1396-1398)ACT>GCT	p.T466A	PHF21A_uc001ncb.3_Intron|PHF21A_uc009ykx.2_Intron|PHF21A_uc001nce.2_Missense_Mutation_p.T467A|PHF21A_uc001nca.1_Missense_Mutation_p.T202A	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	466					blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						GCAGGGAAAGTGAATGTGGTC	0.502													21	76					0	0	1	0	0		C	45967444	C	C	45967444	3	2	153	1	0	0	0	0	1	0	0	0	11852	1696	59	3	666	3	PHF21A	11	45967444	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	17604	45967444	89039072	957	82889											
CKAP5	9793	broad.mit.edu	37	chr11	46837768	46837768	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccttaaggctttcctcagtgTctctatacaggccactatga	9	13	7	12	0	2	1	1	1	1	0	4	1	3	1	3	2	1	1	3	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:46837768T>G	uc001ndi.1	-	4	549	c.439A>C	c.(439-441)ACA>CCA	p.T147P	CKAP5_uc009ylg.1_Missense_Mutation_p.T33P|CKAP5_uc001ndj.1_Missense_Mutation_p.T147P	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	147					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TTCCTCAGTGTCTCTATACAG	0.303													36	199					0	0	1	0	0		G	46837768	G	G	46837768	3	3	153	1	0	0	0	0	1	0	0	0	3448	1667	58	5	5823	5	CKAP5	11	46837768	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	870324	46837768	88168748	958	82890											
MADD	8567	broad.mit.edu	37	chr11	47310991	47310991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatctgtcattaaacacagCccaacagtgaaaagagaacc	17	7	6	11	0	3	2	2	1	1	1	3	3	3	2	2	0	4	0	2	0	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:47310991C>T	uc001ner.1	+	17	2954	c.2763C>T	c.(2761-2763)AGC>AGT	p.S921S	MADD_uc001neq.2_Silent_p.S901S|MADD_uc001nev.1_Silent_p.S858S|MADD_uc001nes.1_Silent_p.S878S|MADD_uc001net.1_Silent_p.S921S|MADD_uc009yln.1_Silent_p.S858S|MADD_uc001neu.1_Silent_p.S858S|MADD_uc001nex.2_Silent_p.S921S|MADD_uc001nez.2_Silent_p.S858S|MADD_uc001new.2_Silent_p.S901S|MADD_uc009ylo.2_5'Flank	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	921					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		TTAAACACAGCCCAACAGTGA	0.478													76	260					0	0	1	0	0		T	47310991	T	T	47310991	2	4	153	1	0	0	0	0	0	0	0	1	9170	738	26	2		2	MADD	11	47310991	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	473223	47310991	87695525	959	82891											
AGBL2	79841	broad.mit.edu	37	chr11	47726206	47726206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttggggttctcgaagacGtgggtttacttcatccaact	7	14	10	10	2	3	1	1	0	2	1	5	2	4	1	1	3	2	2	1	3	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:47726206G>A	uc001ngg.2	-	6	575	c.475C>T	c.(475-477)CGT>TGT	p.R159C	AGBL2_uc010rhq.1_Missense_Mutation_p.R121C|AGBL2_uc001ngh.1_Missense_Mutation_p.R103C	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	159					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						TCTCGAAGACGTGGGTTTACT	0.443													31	123					0	0	1	0	0		A	47726206	A	A	47726206	3	1	153	1	0	0	0	0	1	0	0	0	376	1145	40	1	2285	1	AGBL2	11	47726206	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	415215	47726206	87280310	960	82892											
PTPRJ	5795	broad.mit.edu	37	chr11	48157734	48157734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctaaccacacaagcacgTatgacaaagcgattactctc	14	8	6	13	2	2	1	0	1	2	0	3	2	2	1	1	0	4	3	1	0	5	3	rs151134680		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:48157734T>C	uc001ngp.3	+	9	2114	c.1759T>C	c.(1759-1761)TAT>CAT	p.Y587H	PTPRJ_uc010rhr.1_Missense_Mutation_p.Y32H	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	587	Extracellular (Potential).|Fibronectin type-III 6.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CACAAGCACGTATGACAAAGC	0.532													41	117					0	0	1	0	0		C	48157734	C	C	48157734	3	2	153	1	0	0	0	0	1	0	0	0	12829	1638	57	3	1802	3	PTPRJ	11	48157734	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	431528	48157734	86848782	961	82893											
OR5D18	219438	broad.mit.edu	37	chr11	55587205	55587205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactcttcctggtttttctgGccatctacaatgtcactgtg	6	16	7	12	0	4	0	1	0	3	0	5	0	5	0	2	2	1	1	2	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:55587205G>A	uc010rin.1	+	1	100	c.100G>A	c.(100-102)GCC>ACC	p.A34T		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				GGTTTTTCTGGCCATCTACAA	0.463													62	192					0	0	1	0	0		A	55587205	A	A	55587205	3	1	153	1	0	0	0	0	1	0	0	0	11176	1203	42	2	102	2	OR5D18	11	55587205	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7429471	55587205	79419311	962	82894											
OR5T2	219464	broad.mit.edu	37	chr11	56000654	56000654	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgctcttgtatatactgTacgacatatattcagcagtg	10	15	8	8	1	2	0	1	0	1	0	2	1	2	0	0	0	4	4	0	0	6	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:56000654T>C	uc010rjc.1	-	1	8	c.8A>G	c.(7-9)TAC>TGC	p.Y3C		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	3	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTATATACTGTACGACATATA	0.368													43	185					0	0	1	0	0		C	56000654	C	C	56000654	3	2	153	1	0	0	0	0	1	0	0	0	11201	1638	57	3	1070	3	OR5T2	11	56000654	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	413449	56000654	79005862	963	82895											
APLNR	187	broad.mit.edu	37	chr11	57004240	57004240	+	Missense_Mutation	SNP	A	G	G	1	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	tagcccacaggggcagcgtcAccacgaaggtcaggtcagcc	10	4	13	14	2	3	0	3	0	0	0	3	1	3	0	3	4	3	1	3	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:57004240A>G	uc001njo.2	-	1	688	c.239T>C	c.(238-240)GTG>GCG	p.V80A	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	80	Helical; Name=2; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						GGGCAGCGTCACCACGAAGGT	0.587													15	35					0	0	1	0	0		G	57004240	G	G	57004240	3	3	153	1	0	0	0	0	1	0	0	0	777	159	6	3	907	3	APLNR	11	57004240	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1003586	57004240	78002276	964	82896											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57069355	57069355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaacgacatccgtgtccGgcggctctgaggttcctcca	6	8	11	16	4	1	1	0	1	1	0	5	2	5	1	5	3	1	2	5	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:57069355G>A	uc001njr.2	-	8	5209	c.4897C>T	c.(4897-4899)CGG>TGG	p.R1633W	TNKS1BP1_uc001njp.2_Missense_Mutation_p.R205W|TNKS1BP1_uc001njq.2_Missense_Mutation_p.R206W|TNKS1BP1_uc001njs.2_Missense_Mutation_p.R1633W	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	1633	Nuclear localization signal (Potential).|Arg/Glu/Lys-rich (charged).				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				ATCCGTGTCCGGCGGCTCTGA	0.572													12	63					0	0	1	0	0		A	57069355	A	A	57069355	3	1	153	1	0	0	0	0	1	0	0	0	16345	1115	39	1	304	1	TNKS1BP1	11	57069355	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	65115	57069355	77937161	965	82897											
SSRP1	6749	broad.mit.edu	37	chr11	57095279	57095279	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatggtctgacttgatcttCtctcggctggcattgagcca	6	13	12	10	1	3	3	0	3	3	0	5	4	3	4	1	4	1	2	1	4	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:57095279C>A	uc001njt.2	-	14	1956	c.1689G>T	c.(1687-1689)GAG>GAT	p.E563D	TNKS1BP1_uc001njs.2_5'Flank|TNKS1BP1_uc009ymd.1_5'Flank	NM_003146	NP_003137	Q08945	SSRP1_HUMAN	structure specific recognition protein 1	563	HMG box.				DNA repair|DNA replication|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|cytoplasm|nucleoplasm	DNA binding|protein binding			ovary(2)	2						ACTTGATCTTCTCTCGGCTGG	0.428													50	129					1.07234e-20	1.15337e-20	1	1	0		A	57095279	A	A	57095279	3	1	153	1	0	0	0	0	1	0	0	0	15219	912	32	5	456	5	SSRP1	11	57095279	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	25924	57095279	77911237	966	82898											
ZDHHC5	25921	broad.mit.edu	37	chr11	57467412	57467412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttaggctcagcctcccctgGcccaggccagccacctctca	6	7	8	20	0	2	0	2	0	1	0	4	0	3	0	7	3	2	1	7	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:57467412G>A	uc001nkx.1	+	12	3313	c.2057G>A	c.(2056-2058)GGC>GAC	p.G686D	ZDHHC5_uc001nky.1_Missense_Mutation_p.G633D|ZDHHC5_uc001nkz.1_Missense_Mutation_p.G500D	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	686						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						GCCTCCCCTGGCCCAGGCCAG	0.572													12	41					0	0	1	0	0		A	57467412	A	A	57467412	3	1	153	1	0	0	0	0	1	0	0	0	17643	1203	42	2	2099	2	ZDHHC5	11	57467412	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	372133	57467412	77539104	967	82899											
OR10Q1	219960	broad.mit.edu	37	chr11	57995413	57995413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcgtcagaggctgctttaCggataatggcactcctcaga	9	10	12	10	2	2	2	2	0	0	2	3	3	3	3	1	4	2	3	1	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:57995413C>T	uc010rkd.1	-	1	935	c.935G>A	c.(934-936)CGT>CAT	p.R312H		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GGCTGCTTTACGGATAATGGC	0.498													58	202					0	0	1	0	0		T	57995413	T	T	57995413	3	4	153	1	0	0	0	0	1	0	0	0	10935	536	19	1	28	1	OR10Q1	11	57995413	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	528001	57995413	77011103	968	82900											
FAM111B	374393	broad.mit.edu	37	chr11	58893587	58893587	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttgggcttttttatcaaCgaggatttaatgtgcatgcc	8	16	9	8	1	1	0	1	0	0	0	1	2	1	1	2	2	3	2	2	2	3	6	rs147236932	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:58893587C>T	uc001nnl.2	+	4	2260	c.2017C>T	c.(2017-2019)CGA>TGA	p.R673*	FAM111B_uc001nnm.2_Nonsense_Mutation_p.R643*|FAM111B_uc010rko.1_Nonsense_Mutation_p.R643*	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	673							catalytic activity			ovary(2)	2						TTTTTATCAACGAGGATTTAA	0.348													58	140					0	0	1	0	0		T	58893587	T	T	58893587	4	4	153	1	0	0	0	0	0	1	0	0	5411	528	19	1	2023	1	FAM111B	11	58893587	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	898174	58893587	76112929	969	82901											
STX3	6809	broad.mit.edu	37	chr11	59559674	59559674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaagggcgaatccagcGgcagctcgaaattagtatgt	13	7	12	9	3	0	0	0	0	0	0	2	2	1	0	1	2	3	4	1	2	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:59559674G>A	uc001nog.2	+	6	642	c.452G>A	c.(451-453)CGG>CAG	p.R151Q	STX3_uc010rkx.1_Missense_Mutation_p.R151Q|STX3_uc010rky.1_Missense_Mutation_p.R54Q|STX3_uc009ymt.1_Missense_Mutation_p.R54Q	NM_004177	NP_004168	Q13277	STX3_HUMAN	syntaxin 3	151	Cytoplasmic (Potential).				cellular response to oxidative stress|intracellular protein transport|neuron projection development|neurotransmitter transport	apical plasma membrane|azurophil granule|cell-cell junction|growth cone|integral to membrane|plasma membrane enriched fraction|SNARE complex|specific granule	arachidonic acid binding|SNAP receptor activity			ovary(2)	2						CGAATCCAGCGGCAGCTCGAA	0.527													7	19					0	0	1	0	0		A	59559674	A	A	59559674	3	1	153	1	0	0	0	0	1	0	0	0	15371	1116	39	1	474	1	STX3	11	59559674	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	666087	59559674	75446842	970	82902											
TCN1	6947	broad.mit.edu	37	chr11	59629106	59629106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagacacaaggccaaaacGtccaggctgagctggtagta	15	5	11	10	1	0	2	0	1	0	1	1	2	1	2	2	3	3	4	2	3	6	2	rs139772818	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:59629106G>A	uc001noj.2	-	4	548	c.450C>T	c.(448-450)GAC>GAT	p.D150D		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	150					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AGGCCAAAACGTCCAGGCTGA	0.438													32	108					0	0	1	0	0		A	59629106	A	A	59629106	2	1	153	1	0	0	0	0	0	0	0	1	15731	1136	40	1		1	TCN1	11	59629106	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	69432	59629106	75377410	971	82903											
GPR44	11251	broad.mit.edu	37	chr11	60620738	60620738	+	Missense_Mutation	SNP	A	G	G	1	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	ccgctagtgcccaaagcaccAggcagactttgtgcgccgcg	8	6	12	15	4	0	1	0	0	0	1	0	1	0	1	4	1	3	3	4	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:60620738A>G	uc001nqc.2	-	2	570	c.458T>C	c.(457-459)CTG>CCG	p.L153P		NM_004778	NP_004769	Q9Y5Y4	GPR44_HUMAN	G protein-coupled receptor 44	153	Helical; Name=4; (Potential).				immune response	integral to plasma membrane	N-formyl peptide receptor activity			ovary(1)	1						CCAAAGCACCAGGCAGACTTT	0.642													7	9					0	0	1	0	0		G	60620738	G	G	60620738	3	3	153	1	0	0	0	0	1	0	0	0	6710	188	7	3	733	3	GPR44	11	60620738	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	991632	60620738	74385778	972	82904											
TMEM132A	54972	broad.mit.edu	37	chr11	60695270	60695270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accagggtctggcagcctgcCctgtgcccggctccatgcca	5	7	12	17	1	1	0	0	0	1	0	2	0	2	0	6	3	4	2	6	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:60695270C>T	uc001nqj.2	+	3	666	c.473C>T	c.(472-474)CCC>CTC	p.P158L	TMEM132A_uc001nqi.2_Missense_Mutation_p.P158L|TMEM132A_uc001nqk.2_Missense_Mutation_p.P171L|TMEM132A_uc001nql.1_Missense_Mutation_p.P171L	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	158	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GGCAGCCTGCCCTGTGCCCGG	0.657													14	40					0	0	1	0	0		T	60695270	T	T	60695270	3	4	153	1	0	0	0	0	1	0	0	0	16070	623	22	4	483	4	TMEM132A	11	60695270	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	74532	60695270	74311246	973	82905											
CD5	921	broad.mit.edu	37	chr11	60886386	60886386	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagagtgtctcattgcaGaaccccagaagacaacacct	14	6	7	14	0	1	4	1	0	1	4	2	4	1	4	4	0	3	1	4	0	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:60886386G>T	uc009ynk.2	+	4	504	c.401_splice	c.e4-1	p.E134_splice		NM_014207	NP_055022	P06127	CD5_HUMAN	CD5 molecule precursor						cell proliferation|cell recognition	integral to plasma membrane	scavenger receptor activity			ovary(1)	1		all_lung(304;5.94e-05)|Lung NSC(402;7.26e-05)		BRCA - Breast invasive adenocarcinoma(625;0.000946)|Lung(977;0.0086)|LUSC - Lung squamous cell carcinoma(625;0.0528)		TCTCATTGCAGAACCCCAGAA	0.612													8	21					0.000157383	0.000160911	1	1	0		T	60886386	T	T	60886386	5	4	153	1	0	0	0	0	0	0	1	0	3024	956	33	5	414	5	CD5	11	60886386	Splice_Site	SNP	G	TCGA-CG-5723-01A-11D-1600-08	191116	60886386	74120130	974	82906											
AHNAK	79026	broad.mit.edu	37	chr11	62297658	62297658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgggtcctgagacatcaaCgtcagctttgggcagcttca	8	12	11	10	1	3	1	3	1	0	1	4	2	4	1	1	2	3	3	1	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:62297658C>T	uc001ntl.2	-	5	4531	c.4231G>A	c.(4231-4233)GTT>ATT	p.V1411I	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1411					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GAGACATCAACGTCAGCTTTG	0.483													110	349					0	0	1	0	0		T	62297658	T	T	62297658	3	4	153	1	0	0	0	0	1	0	0	0	414	536	19	1	13561	1	AHNAK	11	62297658	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1411272	62297658	72708858	975	82907											
ROM1	6094	broad.mit.edu	37	chr11	62381962	62381962	+	Missense_Mutation	SNP	A	G	G	1	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	tgggtagcatgctggctgtcAccttcctactgcaggtgagt	6	12	13	10	0	1	1	1	1	0	0	2	1	2	1	2	3	4	5	2	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:62381962A>G	uc001ntv.2	+	2	1364	c.823A>G	c.(823-825)ACC>GCC	p.T275A	EML3_uc001ntr.1_5'Flank|EML3_uc001nts.1_5'Flank|EML3_uc001ntt.1_5'Flank|EML3_uc001ntu.1_5'Flank|EML3_uc010rly.1_5'Flank	NM_000327	NP_000318	Q03395	ROM1_HUMAN	retinal outer segment membrane protein 1	275	Helical; (Potential).				cell adhesion|visual perception	integral to plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GCTGGCTGTCACCTTCCTACT	0.612													11	48					0	0	1	0	0		G	62381962	G	G	62381962	3	3	153	1	0	0	0	0	1	0	0	0	13546	159	6	3	829	3	ROM1	11	62381962	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	84304	62381962	72624554	976	82908											
METTL12	751071	broad.mit.edu	37	chr11	62434242	62434242	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgccgatgctcagaacCtgggggctgtggcttcttca	6	10	13	12	2	3	1	2	0	1	1	3	2	3	1	2	3	3	4	2	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:62434242C>A	uc001nug.1	+	3	701	c.442C>A	c.(442-444)CTG>ATG	p.L148M	C11orf48_uc001nue.2_Intron|C11orf48_uc001nuf.2_Intron|METTL12_uc001nuh.2_3'UTR|METTL12_uc010rmc.1_RNA	NM_001043229	NP_001036694	A8MUP2	MTL12_HUMAN	methyltransferase like 12 precursor	148						mitochondrion	methyltransferase activity				0						TGCTCAGAACCTGGGGGCTGT	0.592													17	58					1.9806e-07	2.05429e-07	1	1	0		A	62434242	A	A	62434242	3	1	153	1	0	0	0	0	1	0	0	0	9514	680	24	5	448	5	METTL12	11	62434242	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	52280	62434242	72572274	977	82909											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62487636	62487636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaacagcaatagcttccGccgttggccagaattgtaca	11	10	9	11	2	0	2	0	1	0	1	1	2	1	2	3	1	4	4	3	1	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:62487636G>A	uc001nuw.2	-	10	1832	c.1639C>T	c.(1639-1641)CGG>TGG	p.R547W	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	547					cell killing	nucleus	ATP binding|nucleic acid binding				0						AATAGCTTCCGCCGTTGGCCA	0.418													51	142					0	0	1	0	0		A	62487636	A	A	62487636	3	1	153	1	0	0	0	0	1	0	0	0	7291	1086	38	1	624	1	HNRNPUL2	11	62487636	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	53394	62487636	72518880	978	82910											
TTC9C	283237	broad.mit.edu	37	chr11	62496515	62496515	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcacgcctgaacaagaaaaCatattgcataccacccagac	16	6	5	14	1	1	3	1	1	0	2	1	3	1	3	3	0	4	1	3	0	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:62496515C>T	uc001nuy.2	+	1	564	c.195C>T	c.(193-195)AAC>AAT	p.N65N	HNRNPUL2_uc001nuu.1_5'Flank|HNRNPUL2_uc001nuw.2_5'Flank|TTC9C_uc001nux.2_Silent_p.N198N	NM_173810	NP_776171	Q8N5M4	TTC9C_HUMAN	tetratricopeptide repeat domain 9C	65							binding			ovary(1)|pancreas(1)	2						AACAAGAAAACATATTGCATA	0.527													13	64					0	0	1	0	0		T	62496515	T	T	62496515	2	4	153	1	0	0	0	0	0	0	0	1	16743	477	17	4		4	TTC9C	11	62496515	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8879	62496515	72510001	979	82911											
SLC22A9	114571	broad.mit.edu	37	chr11	63137671	63137671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcattcatacctggccatcGctgctgggtccacatcctgg	6	11	10	14	1	1	0	1	0	0	0	4	0	3	0	4	3	3	3	4	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:63137671G>A	uc001nww.2	+	1	411	c.143G>A	c.(142-144)CGC>CAC	p.R48H	SLC22A9_uc001nwx.2_RNA	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	48	Extracellular (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						CCTGGCCATCGCTGCTGGGTC	0.478													64	241					0	0	1	0	0		A	63137671	A	A	63137671	3	1	153	1	0	0	0	0	1	0	0	0	14486	1087	38	1	145	1	SLC22A9	11	63137671	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	641156	63137671	71868845	980	82912											
FLRT1	23769	broad.mit.edu	37	chr11	63884234	63884234	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgacaactccgtgtccacCgtcagcattgaggaggacgc	10	7	12	12	3	1	2	1	2	0	0	3	5	3	4	3	2	2	1	3	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:63884234C>T	uc001nyi.1	+	2	836	c.495C>T	c.(493-495)ACC>ACT	p.T165T	MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein	137	LRR 4.|Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						CCGTGTCCACCGTCAGCATTG	0.627													9	36					0	0	1	0	0		T	63884234	T	T	63884234	2	4	153	1	0	0	0	0	0	0	0	1	5952	639	23	1		1	FLRT1	11	63884234	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	746563	63884234	71122282	981	82913											
NUDT22	84304	broad.mit.edu	37	chr11	63994403	63994403	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccgagacttcctgggcacCaactggtccagctcagctgc	8	8	10	15	1	1	1	1	0	0	1	3	2	3	1	4	2	5	3	4	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:63994403C>A	uc001nyp.3	+	2	459	c.279C>A	c.(277-279)ACC>ACA	p.T93T	TRPT1_uc010rnc.1_5'Flank|TRPT1_uc010rnd.1_5'Flank|TRPT1_uc001nyn.2_5'Flank|TRPT1_uc001nyo.2_5'Flank|TRPT1_uc010rne.1_5'Flank|TRPT1_uc010rnf.1_5'Flank|NUDT22_uc009ypd.2_Silent_p.T93T|NUDT22_uc009ype.2_Silent_p.T93T|NUDT22_uc001nyq.3_Silent_p.T93T|NUDT22_uc010rng.1_5'Flank	NM_032344	NP_115720	Q9BRQ3	NUD22_HUMAN	nudix (nucleoside diphosphate linked moiety	93							hydrolase activity				0						TCCTGGGCACCAACTGGTCCA	0.677													14	46					4.3838e-07	4.53988e-07	1	1	0		A	63994403	A	A	63994403	2	1	153	1	0	0	0	0	0	0	0	1	10758	581	21	5		5	NUDT22	11	63994403	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	110169	63994403	71012113	982	82914											
SLC22A12	116085	broad.mit.edu	37	chr11	64367852	64367852	+	Silent	SNP	G	A	A	0	0	1	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	cccacagaaatgggggctctGcgctcagccttggccgtgct	6	8	13	14	2	2	1	1	0	1	1	2	1	2	1	3	3	3	3	3	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:64367852G>A	uc001oam.1	+	8	2046	c.1299G>A	c.(1297-1299)CTG>CTA	p.L433L	SLC22A12_uc001oal.1_Silent_p.L212L|SLC22A12_uc009yps.1_Silent_p.L399L|SLC22A12_uc001oan.1_Silent_p.L325L|SLC22A12_uc009ypt.2_Silent_p.L251L	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	433					cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						TGGGGGCTCTGCGCTCAGCCT	0.637													3	8					0	0	1	0	0		A	64367852	A	A	64367852	2	1	153	1	0	0	0	0	0	0	0	1	14468	1306	46	2		2	SLC22A12	11	64367852	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	373449	64367852	70638664	983	82915											
PYGM	5837	broad.mit.edu	37	chr11	64522768	64522768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcattggggtacaggacacGagagatgttctccgccaggt	10	9	13	9	2	2	1	1	0	1	1	3	4	2	2	2	4	1	2	2	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:64522768G>A	uc001oax.3	-	7	1649	c.832C>T	c.(832-834)CGT>TGT	p.R278C	PYGM_uc001oay.3_Missense_Mutation_p.R190C	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	278					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	TACAGGACACGAGAGATGTTC	0.607													19	65					0	0	1	0	0		A	64522768	A	A	64522768	3	1	153	1	0	0	0	0	1	0	0	0	12887	1058	37	1	1752	1	PYGM	11	64522768	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	154916	64522768	70483748	984	82916											
MEN1	4221	broad.mit.edu	37	chr11	64572093	64572093	+	Frame_Shift_Del	DEL	G	-	-																															gacagtcccaggaggcttccGggggggtcctgacactgcac																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:64572093delG	uc001obj.2	-	10	1634	c.1561delC	c.(1561-1563)CGGfs	p.R521fs	MAP4K2_uc001obh.2_5'Flank|MAP4K2_uc001obi.2_5'Flank|MAP4K2_uc010rnp.1_5'Flank|MEN1_uc001obk.2_Frame_Shift_Del_p.R521fs|MEN1_uc001obl.2_Frame_Shift_Del_p.R481fs|MEN1_uc001obm.2_Frame_Shift_Del_p.R516fs|MEN1_uc001obn.2_Frame_Shift_Del_p.R521fs|MEN1_uc001obo.2_Frame_Shift_Del_p.R521fs|MEN1_uc001obp.2_Frame_Shift_Del_p.R516fs|MEN1_uc001obq.2_Frame_Shift_Del_p.R521fs|MEN1_uc001obr.2_Frame_Shift_Del_p.R521fs	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	521					DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding	p.R516fs*15(1)		parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						GGAGGCTTCCGGGGGGGTCCT	0.716			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				10	19	---	---	---	---						.	-	64572093	-	-	64572093	7	5	153	1	0	1	0	1	0	0	0	0	9490	1115	39	0	290	0	MEN1	11	64572093	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	49325	64572093	70434423	985	82917											
ATG2A	23130	broad.mit.edu	37	chr11	64678286	64678286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctgccctcacctccgtgTactcaggctcagaggtgccc	5	9	9	18	1	4	1	3	0	1	1	5	1	5	1	5	2	3	2	5	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:64678286T>C	uc001obx.2	-	11	1722	c.1607A>G	c.(1606-1608)TAC>TGC	p.Y536C		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	536							protein binding			ovary(1)|central_nervous_system(1)	2						CACCTCCGTGTACTCAGGCTC	0.672													4	13					0	0	1	0	0		C	64678286	C	C	64678286	3	2	153	1	0	0	0	0	1	0	0	0	1094	1638	57	3	4333	3	ATG2A	11	64678286	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	106193	64678286	70328230	986	82918											
PPP2R5B	5526	broad.mit.edu	37	chr11	64695857	64695857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcaagttcctgggtctcCgggcctacatccgcaaacag	9	8	11	13	2	1	0	0	0	1	0	4	0	3	0	4	3	2	3	4	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:64695857C>T	uc001oby.2	+	6	1267	c.682C>T	c.(682-684)CGG>TGG	p.R228W	PPP2R5B_uc001obz.2_Missense_Mutation_p.R228W	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	228					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						CCTGGGTCTCCGGGCCTACAT	0.592													19	75					0	0	1	0	0		T	64695857	T	T	64695857	3	4	153	1	0	0	0	0	1	0	0	0	12415	643	23	1	700	1	PPP2R5B	11	64695857	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	17571	64695857	70310659	987	82919											
SLC22A20	440044	broad.mit.edu	37	chr11	65000741	65000741	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggccatgctggtggccacCgccaccatgatttacgtggg	6	8	13	14	3	0	1	0	1	0	0	0	1	0	1	6	4	2	1	6	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:65000741C>T	uc010roc.1	+	8	1167	c.1164C>T	c.(1162-1164)ACC>ACT	p.T388T		NM_001004326	NP_001004326	A6NK97	S22AK_HUMAN	solute carrier family 22, member 20	388	Helical; (Potential).				ion transport	integral to membrane	transmembrane transporter activity			central_nervous_system(1)	1						TGGTGGCCACCGCCACCATGA	0.602													6	15					0	0	1	0	0		T	65000741	T	T	65000741	2	4	153	1	0	0	0	0	0	0	0	1	14476	667	23	1		1	SLC22A20	11	65000741	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	304884	65000741	70005775	988	82920											
FRMD8	83786	broad.mit.edu	37	chr11	65156922	65156922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcccatgagctgcaccGcgctgtccgcgaggtcctgc	5	7	13	16	4	0	1	0	1	0	0	2	2	2	1	4	1	4	3	4	1	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:65156922G>A	uc001odu.3	+	3	368	c.176G>A	c.(175-177)CGC>CAC	p.R59H	FRMD8_uc009yqj.2_Intron|FRMD8_uc010rof.1_Missense_Mutation_p.R59H	NM_031904	NP_114110	Q9BZ67	FRMD8_HUMAN	FERM domain containing 8	59	FERM.					cytoskeleton	binding			lung(1)|pancreas(1)	2						GAGCTGCACCGCGCTGTCCGC	0.642													21	48					0	0	1	0	0		A	65156922	A	A	65156922	3	1	153	1	0	0	0	0	1	0	0	0	6070	1087	38	1	182	1	FRMD8	11	65156922	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	156181	65156922	69849594	989	82921											
LTBP3	4054	broad.mit.edu	37	chr11	65321528	65321528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttgcctggtaccttctgCtgagatctgtcccgggccta	5	12	11	13	1	2	1	0	1	2	1	3	2	3	1	4	2	3	3	4	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:65321528C>T	uc001oej.2	-	2	924	c.655G>A	c.(655-657)GCA>ACA	p.A219T	LTBP3_uc010roi.1_Missense_Mutation_p.A102T|LTBP3_uc001oei.2_Missense_Mutation_p.A219T|LTBP3_uc010roj.1_Intron|LTBP3_uc010rok.1_Missense_Mutation_p.A130T	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	219						extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GTACCTTCTGCTGAGATCTGT	0.692													4	34					0	0	1	0	0		T	65321528	T	T	65321528	3	4	153	1	0	0	0	0	1	0	0	0	9093	797	28	2	3364	2	LTBP3	11	65321528	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	164606	65321528	69684988	990	82922											
PCNXL3	399909	broad.mit.edu	37	chr11	65396168	65396168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttgcccagccgtttgccGtgccacgtatccagcctgtg	4	12	10	15	3	0	0	0	0	0	0	1	0	1	0	6	0	5	2	6	0	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:65396168G>A	uc001oey.2	+	23	3805	c.3805G>A	c.(3805-3807)GTG>ATG	p.V1269M	PCNXL3_uc001oez.2_Missense_Mutation_p.V156M	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1269						integral to membrane					0						GCCGTTTGCCGTGCCACGTAT	0.662													3	16					0	0	1	0	0		A	65396168	A	A	65396168	3	1	153	1	0	0	0	0	1	0	0	0	11612	1145	40	1	3895	1	PCNXL3	11	65396168	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	74640	65396168	69610348	991	82923											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810516	65810516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaggtcccaggccagtaggCgccgcagcagcactagcgac	9	3	13	16	3	0	0	0	0	0	0	1	1	1	0	4	3	3	4	4	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:65810516C>T	uc001ogv.2	-	2	918	c.758G>A	c.(757-759)CGC>CAC	p.R253H	GAL3ST3_uc001ogw.2_Missense_Mutation_p.R253H	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	253	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						GGCCAGTAGGCGCCGCAGCAG	0.607													15	39					0	0	1	0	0		T	65810516	T	T	65810516	3	4	153	1	0	0	0	0	1	0	0	0	6214	768	27	1	541	1	GAL3ST3	11	65810516	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	414348	65810516	69196000	992	82924											
GAL3ST3	89792	broad.mit.edu	37	chr11	65810617	65810617	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccaggtaggcggcgtcGtcgcgcgggctgcgctcatt	3	7	16	15	8	1	0	1	0	0	0	3	0	1	0	2	4	1	3	2	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:65810617G>A	uc001ogv.2	-	2	817	c.657C>T	c.(655-657)GAC>GAT	p.D219D	GAL3ST3_uc001ogw.2_Silent_p.D219D	NM_033036	NP_149025	Q96A11	G3ST3_HUMAN	galactose-3-O-sulfotransferase 3	219	Lumenal (Potential).				monosaccharide metabolic process|oligosaccharide metabolic process|poly-N-acetyllactosamine metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|carbohydrate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(1)	1						AGGCGGCGTCGTCGCGCGGGC	0.667													13	51					0	0	1	0	0		A	65810617	A	A	65810617	2	1	153	1	0	0	0	0	0	0	0	1	6214	1136	40	1		1	GAL3ST3	11	65810617	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	101	65810617	69195899	993	82925											
ADRBK1	156	broad.mit.edu	37	chr11	67047323	67047323	+	Missense_Mutation	SNP	A	T	T	1	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	cccttagccatacatcgaagAgatttgtcaaaacctccgag	13	9	7	12	2	1	1	1	0	0	1	3	4	2	1	4	0	3	0	4	0	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:67047323A>T	uc009yrn.1	+	6	721	c.455A>T	c.(454-456)GAG>GTG	p.E152V	ADRBK1_uc009yrm.1_Missense_Mutation_p.E152V	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	152	RGS.|N-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	TACATCGAAGAGATTTGTCAA	0.587													13	65					0	0	1	0	0		T	67047323	T	T	67047323	3	4	153	1	0	0	0	0	1	0	0	0	343	304	11	5	477	5	ADRBK1	11	67047323	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1236706	67047323	67959193	994	82926											
PITPNM1	9600	broad.mit.edu	37	chr11	67269822	67269822	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agacgtttggctgctgccccCcatcaggcaggtaataggtc	8	9	12	12	1	1	1	1	0	0	1	2	1	1	1	3	4	2	5	3	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:67269822C>A	uc001olx.2	-	3	545	c.356G>T	c.(355-357)GGG>GTG	p.G119V	PITPNM1_uc001oly.2_Missense_Mutation_p.G119V|PITPNM1_uc001olz.2_Missense_Mutation_p.G119V	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	119					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						CTGCTGCCCCCCATCAGGCAG	0.607													19	63					1.37522e-17	1.46969e-17	1	1	0		A	67269822	A	A	67269822	3	1	153	1	0	0	0	0	1	0	0	0	11969	623	22	5	3462	5	PITPNM1	11	67269822	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	222499	67269822	67736694	995	82927											
NUMA1	4926	broad.mit.edu	37	chr11	71719794	71719794	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaggctgtcaatactcaagTccagctggggcttagcctgg	8	9	12	12	0	2	0	2	0	0	0	3	0	3	0	3	4	3	3	3	4	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:71719794T>C	uc001orl.1	-	20	5328	c.5156A>G	c.(5155-5157)GAC>GGC	p.D1719G	NUMA1_uc001orj.2_5'UTR|NUMA1_uc009ysw.1_Missense_Mutation_p.D1268G|NUMA1_uc001ork.1_Missense_Mutation_p.D583G|NUMA1_uc001orm.1_Missense_Mutation_p.D1705G|NUMA1_uc001orn.2_Missense_Mutation_p.D1282G	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1719					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						AATACTCAAGTCCAGCTGGGG	0.567			T	RARA	APL								36	100					0	0	1	0	0		C	71719794	C	C	71719794	3	2	153	1	0	0	0	0	1	0	0	0	10769	1667	58	3	1223	3	NUMA1	11	71719794	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	4449972	71719794	63286722	996	82928											
NUMA1	4926	broad.mit.edu	37	chr11	71720329	71720329	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttacctgcagcttatagtgCtcagctgcctgctccttctg	5	14	8	14	0	2	0	1	0	1	0	3	0	3	0	3	0	7	5	3	0	3	4	rs143949849		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:71720329C>T	uc001orl.1	-	18	4996	c.4824G>A	c.(4822-4824)GAG>GAA	p.E1608E	NUMA1_uc001orj.2_5'Flank|NUMA1_uc009ysw.1_Silent_p.E1157E|NUMA1_uc001ork.1_Silent_p.E472E|NUMA1_uc001orm.1_Silent_p.E1594E|NUMA1_uc001orn.2_Silent_p.E1171E	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1608	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GCTTATAGTGCTCAGCTGCCT	0.637			T	RARA	APL								8	23					0	0	1	0	0		T	71720329	T	T	71720329	2	4	153	1	0	0	0	0	0	0	0	1	10769	796	28	2		2	NUMA1	11	71720329	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	535	71720329	63286187	997	82929											
CLPB	81570	broad.mit.edu	37	chr11	72091323	72091323	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcaggacagcccacacttAccttccaaagaatggattcc	14	7	7	13	0	0	1	0	0	0	1	2	3	2	3	4	2	3	1	4	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:72091323A>G	uc001osj.2	-	4	696	c.646_splice	c.e4+1	p.D216_splice	CLPB_uc010rqx.1_Splice_Site_p.D171_splice|CLPB_uc010rqy.1_Splice_Site_p.V187_splice|CLPB_uc001osk.2_Splice_Site_p.V216_splice|CLPB_uc009ytg.2_Splice_Site|CLPB_uc010rqz.1_Splice_Site_p.V45_splice	NM_030813	NP_110440	Q9H078	CLPB_HUMAN	caseinolytic peptidase B						cellular response to heat		ATP binding|nucleoside-triphosphatase activity|protein binding			pancreas(1)	1						GCCCACACTTACCTTCCAAAG	0.517													15	44					0	0	1	0	0		G	72091323	G	G	72091323	5	3	153	1	0	0	0	0	0	0	1	0	3554	405	14	3	1531	3	CLPB	11	72091323	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08	370994	72091323	62915193	998	82930											
CHRDL2	25884	broad.mit.edu	37	chr11	74415529	74415529	+	Splice_Site	SNP	A	G	G	1	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	tggaggagggtccagtccccAcctttcttatgtttctcctt	5	15	9	12	0	2	0	0	0	2	0	5	2	4	2	5	3	0	1	5	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:74415529A>G	uc001ovi.2	-	7	1004	c.751_splice	c.e7+1	p.A251_splice	CHRDL2_uc001ovg.2_Splice_Site_p.A135_splice|CHRDL2_uc001ovh.2_Splice_Site_p.A251_splice|CHRDL2_uc001ovj.1_Intron|CHRDL2_uc001ovk.1_Splice_Site_p.E251_splice			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;						cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					TCCAGTCCCCACCTTTCTTAT	0.612													12	38					0	0	1	0	0		G	74415529	G	G	74415529	5	3	153	1	0	0	0	0	0	0	1	0	3377	173	6	3	626	3	CHRDL2	11	74415529	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2324206	74415529	60590987	999	82931											
CHRDL2	25884	broad.mit.edu	37	chr11	74417543	74417543	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tgcactcaccaccccatggaGcgactgcacactgtcctctt	8	9	7	17	1	2	0	1	0	1	0	3	2	3	1	4	1	3	2	4	1	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:74417543G>T	uc001ovi.2	-	6	824	c.571C>A	c.(571-573)CTC>ATC	p.L191I	CHRDL2_uc001ovg.2_Missense_Mutation_p.L75I|CHRDL2_uc001ovh.2_Missense_Mutation_p.L191I|CHRDL2_uc001ovj.1_5'Flank|CHRDL2_uc001ovk.1_Missense_Mutation_p.L191I			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;	191					cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					ACCCCATGGAGCGACTGCACA	0.592													21	74					7.87624e-14	8.35498e-14	1	1	0		T	74417543	T	T	74417543	3	4	153	1	0	0	0	0	1	0	0	0	3377	971	34	5	812	5	CHRDL2	11	74417543	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2014	74417543	60588973	1000	82932											
SPCS2	9789	broad.mit.edu	37	chr11	74688037	74688037	+	Silent	SNP	T	C	C	0	1	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	gtcatggatgcatatgagccTgaaatatccaggctccatga	12	10	10	9	0	1	3	1	3	0	0	3	4	3	4	3	2	2	2	3	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:74688037T>C	uc001ovu.2	+	5	669	c.630T>C	c.(628-630)CCT>CCC	p.P210P		NM_014752	NP_055567	Q15005	SPCS2_HUMAN	signal peptidase complex subunit 2 homolog	210	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion|signal peptide processing	integral to membrane|microsome|signal peptidase complex	peptidase activity			breast(1)	1						CATATGAGCCTGAAATATCCA	0.448													6	34					0	0	1	0	0		C	74688037	C	C	74688037	2	2	153	1	0	0	0	0	0	0	0	1	15049	1567	55	3		3	SPCS2	11	74688037	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	270494	74688037	60318479	1001	82933											
UVRAG	7405	broad.mit.edu	37	chr11	75852178	75852178	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacccagcgagcaggccggGtccgccagtgtccagcttcc	6	6	12	17	3	0	0	0	0	0	0	3	1	3	0	6	2	4	2	6	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:75852178G>A	uc001oxc.2	+	15	2062	c.1821G>A	c.(1819-1821)GGG>GGA	p.G607G	UVRAG_uc010rrw.1_Silent_p.G506G|UVRAG_uc001oxd.2_Silent_p.G235G|UVRAG_uc010rrx.1_Silent_p.G235G|UVRAG_uc010rry.1_Silent_p.G163G	NM_003369	NP_003360	Q9P2Y5	UVRAG_HUMAN	UV radiation resistance associated	607					DNA repair|positive regulation of autophagy	early endosome|late endosome|lysosome	protein binding			skin(4)|lung(2)	6						AGCAGGCCGGGTCCGCCAGTG	0.612													16	32					0	0	1	0	0		A	75852178	A	A	75852178	2	1	153	1	0	0	0	0	0	0	0	1	17134	1248	44	4		4	UVRAG	11	75852178	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1164141	75852178	59154338	1002	82934											
C11orf30	56946	broad.mit.edu	37	chr11	76207359	76207359	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcacagttccctaaacaAcatcaacagtctcctaagca	14	9	4	14	0	2	0	1	0	1	0	4	0	3	0	2	0	5	3	2	0	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:76207359A>G	uc001oxl.2	+	9	1352	c.1209A>G	c.(1207-1209)CAA>CAG	p.Q403Q	C11orf30_uc009yuj.1_Silent_p.Q418Q|C11orf30_uc010rsa.1_Silent_p.Q353Q|C11orf30_uc001oxm.2_Intron|C11orf30_uc010rsb.1_Silent_p.Q418Q|C11orf30_uc010rsc.1_Silent_p.Q418Q|C11orf30_uc001oxn.2_Silent_p.Q404Q|C11orf30_uc010rsd.1_Silent_p.Q417Q	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	403	Interaction with BRCA2.|Gln-rich.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						TCCCTAAACAACATCAACAGT	0.473													68	183					0	0	1	0	0		G	76207359	G	G	76207359	2	3	153	1	0	0	0	0	0	0	0	1	1639	40	2	3		3	C11orf30	11	76207359	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	355181	76207359	58799157	1003	82935											
LRRC32	2615	broad.mit.edu	37	chr11	76371656	76371656	+	Silent	SNP	A	G	G	1	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	aagctgtcggggatgagctcAatctcattgtagctcaaatc	11	11	10	9	1	3	1	3	1	1	0	6	2	3	2	0	2	3	4	0	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:76371656A>G	uc001oxq.3	-	3	1224	c.981T>C	c.(979-981)ATT>ATC	p.I327I	LRRC32_uc001oxr.3_Silent_p.I327I|LRRC32_uc010rsf.1_Silent_p.I327I	NM_005512	NP_005503	Q14392	LRC32_HUMAN	leucine rich repeat containing 32 precursor	327	LRR 11.|Extracellular (Potential).					integral to plasma membrane					0						GGATGAGCTCAATCTCATTGT	0.607													9	32					0	0	1	0	0		G	76371656	G	G	76371656	2	3	153	1	0	0	0	0	0	0	0	1	9005	126	5	3		3	LRRC32	11	76371656	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	164297	76371656	58634860	1004	82936											
CAPN5	726	broad.mit.edu	37	chr11	76825332	76825332	+	Missense_Mutation	SNP	A	C	C	1	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	ggatggaggcaacacagcagAcgcactggtggacttcacgg	11	5	15	10	2	1	1	1	0	0	1	1	4	1	4	0	6	2	3	0	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:76825332A>C	uc001oxx.2	+	5	736	c.551A>C	c.(550-552)GAC>GCC	p.D184A	CAPN5_uc009yup.2_Missense_Mutation_p.D224A|CAPN5_uc009yuq.2_Missense_Mutation_p.D220A|CAPN5_uc001oxy.2_Missense_Mutation_p.D224A	NM_004055	NP_004046	O15484	CAN5_HUMAN	calpain 5	184	Calpain catalytic.				proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0						AACACAGCAGACGCACTGGTG	0.572											OREG0021255	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	168					0	0	1	0	0		C	76825332	C	C	76825332	3	2	153	1	0	0	0	0	1	0	0	0	2632	275	10	5	565	5	CAPN5	11	76825332	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	453676	76825332	58181184	1005	82937											
PAK1	5058	broad.mit.edu	37	chr11	77090970	77090970	+	Missense_Mutation	SNP	A	G	G	1	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	ctgtgacagcatcaaaaccgAcatgaattgtgtgttcaaaa	15	10	8	8	1	2	2	2	2	0	0	2	3	2	2	1	0	2	2	1	0	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:77090970A>G	uc001oyh.3	-	3	793	c.260T>C	c.(259-261)GTC>GCC	p.V87A	PAK1_uc010rso.1_5'UTR|PAK1_uc001oyg.3_Missense_Mutation_p.V87A|PAK1_uc001oyi.1_Missense_Mutation_p.V87A	NM_002576	NP_002567	Q13153	PAK1_HUMAN	p21-activated kinase 1 isoform 2	87	CRIB.|GTPase-binding (By similarity).|Autoregulatory region.				apoptosis|axon guidance|cytoskeleton organization|ER-nucleus signaling pathway|positive regulation of JUN kinase activity|positive regulation of peptidyl-serine phosphorylation|protein autophosphorylation|T cell costimulation|T cell receptor signaling pathway	cytosol|focal adhesion|Golgi apparatus	ATP binding|collagen binding|protein binding|protein serine/threonine kinase activity			skin(2)|stomach(1)|lung(1)	4	all_cancers(14;1.75e-18)					ATCAAAACCGACATGAATTGT	0.418													27	114					0	0	1	0	0		G	77090970	G	G	77090970	3	3	153	1	0	0	0	0	1	0	0	0	11418	275	10	3	1482	3	PAK1	11	77090970	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	265638	77090970	57915546	1006	82938											
ODZ4	26011	broad.mit.edu	37	chr11	78412977	78412977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgttcttccggataaaccGaattcggatgttcccaaggt	9	13	9	10	3	1	0	0	0	1	0	4	3	3	2	3	3	1	2	3	3	4	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:78412977G>A	uc001ozl.3	-	28	5144	c.4681C>T	c.(4681-4683)CGG>TGG	p.R1561W	ODZ4_uc009yvb.1_Missense_Mutation_p.R145W	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1561	NHL 5.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CGGATAAACCGAATTCGGATG	0.493													27	116					0	0	1	0	0		A	78412977	A	A	78412977	3	1	153	1	0	0	0	0	1	0	0	0	10856	1057	37	1	3656	1	ODZ4	11	78412977	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1322007	78412977	56593539	1007	82939											
HEPHL1	341208	broad.mit.edu	37	chr11	93837908	93837908	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgattttgaggaaagcaacaGaatgcatggtatatccaaag	16	10	10	5	0	0	3	0	2	0	1	1	4	1	4	1	2	3	3	1	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:93837908G>C	uc001pep.2	+	16	3054	c.2897G>C	c.(2896-2898)AGA>ACA	p.R966T	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	966	Extracellular (Potential).|Plastocyanin-like 6.				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GAAAGCAACAGAATGCATGGT	0.388													52	147					0	0	1	0	0		C	93837908	C	C	93837908	3	2	153	1	0	0	0	0	1	0	0	0	7071	942	33	5	2959	5	HEPHL1	11	93837908	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	15424931	93837908	41168608	1008	82940											
KDM4DL	390245	broad.mit.edu	37	chr11	94759423	94759423	+	Silent	SNP	C	A	A	0	0	0	1	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	ttcccagacatttctcggggCtgtgaggccttcctgcggca	5	11	12	13	2	1	2	0	1	1	1	4	2	3	2	3	4	1	2	3	4	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:94759423C>A	uc010ruf.1	+	1	1002	c.702C>A	c.(700-702)GGC>GGA	p.G234G		NM_001161630	NP_001155102	B2RXH2	KD4DL_HUMAN	lysine (K)-specific demethylase 4D-like	234	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TTTCTCGGGGCTGTGAGGCCT	0.572													11	48					0.00010058	0.000103044	1	1	0		A	94759423	A	A	94759423	2	1	153	1	0	0	0	0	0	0	0	1	8148	784	28	5		5	KDM4DL	11	94759423	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	921515	94759423	40247093	1009	82941											
MMP3	4314	broad.mit.edu	37	chr11	102714181	102714181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgttaattacctgaacaaGgttcatgctggtgtcctcac	10	13	9	9	0	2	1	2	1	0	0	3	1	3	1	2	2	3	3	2	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:102714181G>A	uc001phj.1	-	1	162	c.97C>T	c.(97-99)CTT>TTT	p.L33F		NM_002422	NP_002413	P08254	MMP3_HUMAN	matrix metalloproteinase 3 preproprotein	33					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			lung(1)|kidney(1)	2		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Marimastat(DB00786)|Simvastatin(DB00641)	ACCTGAACAAGGTTCATGCTG	0.483													7	37					0	0	1	0	0		A	102714181	A	A	102714181	3	1	153	1	0	0	0	0	1	0	0	0	9684	1000	35	4	1376	4	MMP3	11	102714181	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7954758	102714181	32292335	1010	82942											
ALKBH8	91801	broad.mit.edu	37	chr11	107427630	107427630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgagtacggcttgttaggtgGcattaagagagcatccacca	11	10	12	8	1	0	2	0	1	0	1	1	3	1	2	2	3	2	5	2	3	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:107427630G>A	uc010rvr.1	-	3	304	c.229C>T	c.(229-231)CCA>TCA	p.P77S	ALKBH8_uc010rvq.1_5'UTR|ALKBH8_uc009yxp.2_Missense_Mutation_p.P77S|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	77	RRM.				response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		TTGTTAGGTGGCATTAAGAGA	0.458													20	71					0	0	1	0	0		A	107427630	A	A	107427630	3	1	153	1	0	0	0	0	1	0	0	0	533	1203	42	2	1805	2	ALKBH8	11	107427630	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4713449	107427630	27578886	1011	82943											
ATM	472	broad.mit.edu	37	chr11	108117798	108117798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagtattcttcaggatttCgtaatattgccgtcaaagaa	14	13	8	6	2	3	1	2	0	1	1	4	3	3	2	1	1	1	2	1	1	6	7	rs138398778		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:108117798C>T	uc001pkb.1	+	8	1394	c.1009C>T	c.(1009-1011)CGT>TGT	p.R337C	ATM_uc009yxr.1_Missense_Mutation_p.R337C	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	337			R -> C (in a colorectal adenocarcinoma sample; somatic mutation).|R -> H (in a colorectal adenocarcinoma sample; somatic mutation).		cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding	p.R337C(2)|p.R337S(2)|p.R337H(1)		haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTCAGGATTTCGTAATATTGC	0.323			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)			24	96					0	0	1	0	0		T	108117798	T	T	108117798	3	4	153	1	0	0	0	0	1	0	0	0	1110	884	31	1	1035	1	ATM	11	108117798	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	690168	108117798	26888718	1012	82944											
SIK2	23235	broad.mit.edu	37	chr11	111591703	111591703	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacaaagtgcagttgttgTatgaacaaataggaccggag	15	9	12	5	1	0	2	0	2	0	0	0	4	0	4	1	2	3	4	1	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:111591703T>C	uc001plt.2	+	12	1979	c.1861T>C	c.(1861-1863)TAT>CAT	p.Y621H		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	621					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						GCAGTTGTTGTATGAACAAAT	0.512													36	124					0	0	1	0	0		C	111591703	C	C	111591703	3	2	153	1	0	0	0	0	1	0	0	0	14343	1638	57	3	1907	3	SIK2	11	111591703	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3473905	111591703	23414813	1013	82945											
PPP2R1B	5519	broad.mit.edu	37	chr11	111597740	111597740	+	Silent	SNP	A	G	G	1	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	tctgcaattcccagctgggcAagtgtgtctctagtatctcc	7	13	9	12	0	3	0	0	0	3	0	6	0	4	0	2	1	2	4	2	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:111597740A>G	uc001plw.1	-	16	2037	c.1953T>C	c.(1951-1953)CTT>CTC	p.L651L	uc001plu.1_5'Flank|PPP2R1B_uc009yye.1_RNA|PPP2R1B_uc010rwi.1_Silent_p.L587L	NM_181699	NP_859050	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	Error:Variant_position_missing_in_P30154_after_alignment							protein binding				0		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)		CCAGCTGGGCAAGTGTGTCTC	0.453													21	73					0	0	1	0	0		G	111597740	G	G	111597740	2	3	153	1	0	0	0	0	0	0	0	1	12405	117	5	3		3	PPP2R1B	11	111597740	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	6037	111597740	23408776	1014	82946											
HTR3A	3359	broad.mit.edu	37	chr11	113853876	113853876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctccaaatatcccgtacGtgtatattcggcatcaaggc	11	11	8	11	3	2	0	1	0	1	0	5	0	3	0	2	2	1	3	2	2	6	5	rs139646314		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:113853876G>A	uc010rxb.1	+	5	660	c.427G>A	c.(427-429)GTG>ATG	p.V143M	HTR3A_uc010rxa.1_Missense_Mutation_p.V143M|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Missense_Mutation_p.V122M	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	137	Extracellular (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		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)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	TATCCCGTACGTGTATATTCG	0.532													60	154					0	0	1	0	0		A	113853876	A	A	113853876	3	1	153	1	0	0	0	0	1	0	0	0	7460	1145	40	1	471	1	HTR3A	11	113853876	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2256136	113853876	21152640	1015	82947											
SIDT2	51092	broad.mit.edu	37	chr11	117054505	117054505	+	Missense_Mutation	SNP	T	A	A	0	1	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	catcctgcagcgcaaagactTccccagcaacagcttttatg	11	9	7	14	1	0	1	0	0	0	1	2	1	2	1	3	0	5	4	3	0	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:117054505T>A	uc001pqh.1	+	7	754	c.713T>A	c.(712-714)TTC>TAC	p.F238Y	SIDT2_uc010rxe.1_Missense_Mutation_p.F238Y|SIDT2_uc001pqg.2_Missense_Mutation_p.F238Y|SIDT2_uc001pqi.1_Missense_Mutation_p.F238Y	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	238	Extracellular (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		CGCAAAGACTTCCCCAGCAAC	0.388													7	78					0	0	1	0	0		A	117054505	A	A	117054505	3	1	153	1	0	0	0	0	1	0	0	0	14328	1783	62	5	739	5	SIDT2	11	117054505	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3200629	117054505	17952011	1016	82948											
RNF214	257160	broad.mit.edu	37	chr11	117152859	117152859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccacacatgccccctgccGcctccatcccacctccccca	6	6	4	25	1	0	0	0	0	0	0	4	0	4	0	10	0	2	0	10	0	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:117152859G>A	uc001pqt.2	+	11	1630	c.1585G>A	c.(1585-1587)GCC>ACC	p.A529T	RNF214_uc001pqu.2_Missense_Mutation_p.A529T|RNF214_uc010rxf.1_Missense_Mutation_p.A374T	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	529	Pro-rich.						zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		GCCCCCTGCCGCCTCCATCCC	0.627													46	129					0	0	1	0	0		A	117152859	A	A	117152859	3	1	153	1	0	0	0	0	1	0	0	0	13503	1087	38	1	1623	1	RNF214	11	117152859	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	98354	117152859	17853657	1017	82949											
DSCAML1	57453	broad.mit.edu	37	chr11	117302319	117302319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacaccatgctgggagcccaCggtgcgccagtcggaggtga	8	5	16	12	3	0	1	0	1	0	0	1	4	0	3	3	4	3	1	3	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:117302319C>T	uc001prh.1	-	31	5487	c.5485G>A	c.(5485-5487)GTG>ATG	p.V1829M		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1769	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGGGAGCCCACGGTGCGCCAG	0.647													28	92					0	0	1	0	0		T	117302319	T	T	117302319	3	4	153	1	0	0	0	0	1	0	0	0	4775	536	19	1	868	1	DSCAML1	11	117302319	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	149460	117302319	17704197	1018	82950											
DSCAML1	57453	broad.mit.edu	37	chr11	117303931	117303931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtgtagccgtgggccctggGgtggccctttcacaggggtg	3	10	18	10	1	1	0	1	0	0	0	1	0	1	0	3	6	1	1	3	6	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:117303931G>A	uc001prh.1	-	29	5131	c.5129C>T	c.(5128-5130)CCC>CTC	p.P1710L		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1650	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGGGCCCTGGGGTGGCCCTTT	0.572													4	37					0	0	1	0	0		A	117303931	A	A	117303931	3	1	153	1	0	0	0	0	1	0	0	0	4775	1232	43	4	1232	4	DSCAML1	11	117303931	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1612	117303931	17702585	1019	82951											
CXCR5	643	broad.mit.edu	37	chr11	118765107	118765107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catcttcctggacaccctggCgaggctgaaggccgtggaca	8	7	13	13	2	1	1	0	1	1	0	2	4	2	3	3	5	0	1	3	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:118765107C>T	uc001pue.3	+	2	964	c.854C>T	c.(853-855)GCG>GTG	p.A285V	CXCR5_uc001puf.2_Missense_Mutation_p.A240V	NM_001716	NP_001707	P32302	CXCR5_HUMAN	Burkitt lymphoma receptor 1 isoform 1	285	Extracellular (Potential).				B cell activation|cellular component movement	integral to plasma membrane	C-X-C chemokine receptor activity			breast(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		GACACCCTGGCGAGGCTGAAG	0.602													19	57					0	0	1	0	0		T	118765107	T	T	118765107	3	4	153	1	0	0	0	0	1	0	0	0	4097	768	27	1	860	1	CXCR5	11	118765107	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1461176	118765107	16241409	1020	82952											
SC5DL	6309	broad.mit.edu	37	chr11	121177962	121177962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcatgacggtgattttcGtgtcccccaaatcttacagc	9	13	7	12	2	2	2	1	2	1	0	4	2	3	2	2	1	2	0	2	1	2	4	rs148689830		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:121177962G>A	uc001pxu.2	+	5	789	c.641G>A	c.(640-642)CGT>CAT	p.R214H	SC5DL_uc001pxt.2_3'UTR|SC5DL_uc001pxv.2_Missense_Mutation_p.R214H	NM_006918	NP_008849	O75845	SC5D_HUMAN	sterol-C5-desaturase	214					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	C-5 sterol desaturase activity|iron ion binding|lathosterol oxidase activity			ovary(1)	1		Breast(109;0.00328)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)	OV - Ovarian serous cystadenocarcinoma(1;0.0334)	BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.144)		GGTGATTTTCGTGTCCCCCAA	0.353													81	318					0	0	1	0	0		A	121177962	A	A	121177962	3	1	153	1	0	0	0	0	1	0	0	0	13891	1145	40	1	655	1	SC5DL	11	121177962	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2412855	121177962	13828554	1021	82953											
OR8B8	26493	broad.mit.edu	37	chr11	124310573	124310573	+	Missense_Mutation	SNP	A	G	G	1	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	gagaaaacacacctggggagAcatggtgaccatgtacaaca	16	5	11	9	0	0	3	0	1	0	2	0	5	0	3	2	3	3	1	2	3	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:124310573A>G	uc010sal.1	-	1	409	c.409T>C	c.(409-411)TCT>CCT	p.S137P		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ACCTGGGGAGACATGGTGACC	0.517													18	52					0	0	1	0	0		G	124310573	G	G	124310573	3	3	153	1	0	0	0	0	1	0	0	0	11249	275	10	3	529	3	OR8B8	11	124310573	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3132611	124310573	10695943	1022	82954											
TBRG1	84897	broad.mit.edu	37	chr11	124496862	124496862	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccccgtgggctattgcagTactcgaatatatgccagcat	10	11	9	11	2	0	0	0	0	0	0	1	1	0	0	3	1	5	4	3	1	6	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:124496862T>A	uc001qak.3	+	5	892	c.654T>A	c.(652-654)AGT>AGA	p.S218R	TBRG1_uc001qaj.3_Missense_Mutation_p.S67R|TBRG1_uc001qal.3_5'UTR|TBRG1_uc001qam.3_RNA|TBRG1_uc009zbf.2_RNA|TBRG1_uc009zbg.2_Missense_Mutation_p.S67R|TBRG1_uc009zbh.2_5'UTR	NM_032811	NP_116200	Q3YBR2	TBRG1_HUMAN	transforming growth factor beta regulator 1	218	FYR N-terminal.				cell cycle arrest|DNA replication|negative regulation of cell proliferation|nucleolus to nucleoplasm transport|protein stabilization	nucleus	DNA binding|protein binding				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0218)		GCTATTGCAGTACTCGAATAT	0.493													5	13					0	0	1	0	0		A	124496862	A	A	124496862	3	1	153	1	0	0	0	0	1	0	0	0	15673	1635	57	5	672	5	TBRG1	11	124496862	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	186289	124496862	10509654	1023	82955											
HEPACAM	220296	broad.mit.edu	37	chr11	124794736	124794736	+	Silent	SNP	G	A	A	0	0	1	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	aggtcgctgagaagcagggaGccattttcaaagagtcggat	12	8	14	7	2	1	2	1	1	0	2	3	5	1	4	1	3	2	2	1	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:124794736G>A	uc001qbk.2	-	2	721	c.315C>T	c.(313-315)GGC>GGT	p.G105G	HEPACAM_uc009zbj.2_5'Flank|HEPACAM_uc001qbl.1_Silent_p.G105G	NM_152722	NP_689935	Q14CZ8	HECAM_HUMAN	hepatocyte cell adhesion molecule precursor	105	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell cycle arrest|regulation of growth	cytoplasm|integral to membrane				pancreas(1)	1	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;1.54e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		GAAGCAGGGAGCCATTTTCAA	0.587													46	112					0	0	1	0	0		A	124794736	A	A	124794736	2	1	153	1	0	0	0	0	0	0	0	1	7068	958	34	2		2	HEPACAM	11	124794736	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	297874	124794736	10211780	1024	82956											
STT3A	3703	broad.mit.edu	37	chr11	125484229	125484229	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttttccaggcaatggcgtCcacagaggaaaaagcctatg	12	9	11	9	1	0	1	0	0	0	1	2	2	2	2	3	3	1	2	3	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:125484229C>A	uc001qcd.2	+	15	1792	c.1682C>A	c.(1681-1683)TCC>TAC	p.S561Y	STT3A_uc001qce.2_Missense_Mutation_p.S561Y|STT3A_uc010sbg.1_Missense_Mutation_p.S469Y|STT3A_uc009zbn.2_Missense_Mutation_p.S283Y	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	561	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		GCAATGGCGTCCACAGAGGAA	0.448													104	366					6.00251e-64	6.54375e-64	1	1	0		A	125484229	A	A	125484229	3	1	153	1	0	0	0	0	1	0	0	0	15358	855	30	5	1736	5	STT3A	11	125484229	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	689493	125484229	9522287	1025	82957											
FOXRED1	55572	broad.mit.edu	37	chr11	126147409	126147409	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggcccccacccgctagttgTcaacatgtactttgctactg	7	11	9	14	1	1	0	1	0	0	0	1	0	1	0	3	1	4	4	3	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:126147409T>C	uc001qdi.2	+	11	1333	c.1286T>C	c.(1285-1287)GTC>GCC	p.V429A	FOXRED1_uc010sbn.1_Missense_Mutation_p.V259A|FOXRED1_uc010sbo.1_RNA|FOXRED1_uc010sbp.1_Missense_Mutation_p.V242A|FOXRED1_uc010sbq.1_Missense_Mutation_p.V296A|FOXRED1_uc001qdj.2_Missense_Mutation_p.V218A|FOXRED1_uc010sbr.1_Missense_Mutation_p.V415A|FOXRED1_uc001qdk.2_Missense_Mutation_p.V218A	NM_017547	NP_060017	Q96CU9	FXRD1_HUMAN	FAD-dependent oxidoreductase domain containing	429						integral to membrane|mitochondrion	oxidoreductase activity|protein binding				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0729)		CCGCTAGTTGTCAACATGTAC	0.587													19	78					0	0	1	0	0		C	126147409	C	C	126147409	3	2	153	1	0	0	0	0	1	0	0	0	6047	1667	58	3	1328	3	FOXRED1	11	126147409	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	663180	126147409	8859107	1026	82958											
ARHGAP32	9743	broad.mit.edu	37	chr11	128842466	128842466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgattagttctgtgcgtgCgctgaagtgtggcagcagca	8	10	15	8	3	1	1	0	1	1	0	1	3	1	1	0	1	4	5	0	1	2	2	rs148138101	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:128842466C>T	uc009zcp.2	-	21	3893	c.3893G>A	c.(3892-3894)CGC>CAC	p.R1298H	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.R257H|ARHGAP32_uc001qez.2_Missense_Mutation_p.R949H	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1298					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TCTGTGCGTGCGCTGAAGTGT	0.557													38	112					0	0	1	0	0		T	128842466	T	T	128842466	3	4	153	1	0	0	0	0	1	0	0	0	881	768	27	1	2378	1	ARHGAP32	11	128842466	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2695057	128842466	6164050	1027	82959											
ARHGAP32	9743	broad.mit.edu	37	chr11	128846512	128846512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttttagctgaacggagggTtccttctgccctgccacctg	6	12	10	13	1	1	1	0	1	1	0	2	2	2	2	4	2	4	2	4	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:128846512T>C	uc009zcp.2	-	19	2098	c.2098A>G	c.(2098-2100)ACC>GCC	p.T700A	ARHGAP32_uc009zcq.1_Missense_Mutation_p.T660A|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Missense_Mutation_p.T351A	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	700					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						GAACGGAGGGTTCCTTCTGCC	0.363													38	112					0	0	1	0	0		C	128846512	C	C	128846512	3	2	153	1	0	0	0	0	1	0	0	0	881	1725	60	3	4181	3	ARHGAP32	11	128846512	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	4046	128846512	6160004	1028	82960											
ARHGAP32	9743	broad.mit.edu	37	chr11	128851443	128851443	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactgaagcaggcagattCtatctgttttgatctgtgag	9	14	10	8	0	3	4	0	3	3	1	4	4	4	4	1	1	1	3	1	1	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:128851443C>A	uc009zcp.2	-	16	1606	c.1606G>T	c.(1606-1608)GAA>TAA	p.E536*	ARHGAP32_uc009zcq.1_Nonsense_Mutation_p.E496*|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Nonsense_Mutation_p.E187*	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	536	Rho-GAP.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CAGGCAGATTCTATCTGTTTT	0.423													34	88					1.21669e-08	1.2672e-08	1	1	0		A	128851443	A	A	128851443	4	1	153	1	0	0	0	0	0	1	0	0	881	922	32	5	4685	5	ARHGAP32	11	128851443	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4931	128851443	6155073	1029	82961											
ST14	6768	broad.mit.edu	37	chr11	130060404	130060404	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgatgcgcttcaccacGcccggcttccctgacagccc	6	7	10	18	3	1	2	1	2	0	0	2	3	2	2	4	1	3	3	4	1	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:130060404G>A	uc001qfw.2	+	7	883	c.690G>A	c.(688-690)ACG>ACA	p.T230T	ST14_uc010sca.1_Silent_p.T40T	NM_021978	NP_068813	Q9Y5Y6	ST14_HUMAN	matriptase	230	Extracellular (Potential).|CUB 1.				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(2)|skin(2)|central_nervous_system(1)	5	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)	GCTTCACCACGCCCGGCTTCC	0.692													14	20					0	0	1	0	0		A	130060404	A	A	130060404	2	1	153	1	0	0	0	0	0	0	0	1	15236	1074	38	1		1	ST14	11	130060404	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1208961	130060404	4946112	1030	82962											
IGSF9B	22997	broad.mit.edu	37	chr11	133791085	133791085	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgctgatgagctcgatgggCgtggtggcctctgcctcggc	3	10	16	12	3	1	2	0	2	1	0	3	3	1	2	2	4	3	2	2	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:133791085C>T	uc001qgx.3	-	18	2766	c.2535G>A	c.(2533-2535)ACG>ACA	p.T845T		NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	845	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GCTCGATGGGCGTGGTGGCCT	0.642													10	35					0	0	1	0	0		T	133791085	T	T	133791085	2	4	153	1	0	0	0	0	0	0	0	1	7622	755	27	1		1	IGSF9B	11	133791085	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3730681	133791085	1215431	1031	82963											
IGSF9B	22997	broad.mit.edu	37	chr11	133794769	133794769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgatcagatcctgcatgaCggccagaacccggaactcat	11	7	10	13	2	2	4	2	2	0	2	3	5	3	5	3	2	3	2	3	2	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:133794769C>T	uc001qgx.3	-	15	2296	c.2065G>A	c.(2065-2067)GTC>ATC	p.V689I	IGSF9B_uc001qgy.1_Missense_Mutation_p.V531I	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	689	Fibronectin type-III 2.|Extracellular (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		TCCTGCATGACGGCCAGAACC	0.577													31	113					0	0	1	0	0		T	133794769	T	T	133794769	3	4	153	1	0	0	0	0	1	0	0	0	7622	536	19	1	2004	1	IGSF9B	11	133794769	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3684	133794769	1211747	1032	82964											
JAM3	83700	broad.mit.edu	37	chr11	134014848	134014848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagagccaatcccagatttCgcaattcttctttccactta	10	13	4	14	1	2	2	0	0	2	2	5	2	4	2	4	0	1	1	4	0	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:134014848C>T	uc001qhb.1	+	5	730	c.706C>T	c.(706-708)CGC>TGC	p.R236C	JAM3_uc009zcz.1_Missense_Mutation_p.R185C	NM_032801	NP_116190	Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3 precursor	191	Extracellular (Potential).|Ig-like C2-type.				angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		TCCCAGATTTCGCAATTCTTC	0.502													23	80					0	0	1	0	0		T	134014848	T	T	134014848	3	4	153	1	0	0	0	0	1	0	0	0	7960	884	31	1	724	1	JAM3	11	134014848	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	220079	134014848	991668	1033	82965											
NCAPD3	23310	broad.mit.edu	37	chr11	134022911	134022911	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgtctttattcctggcGggagaccgcacattccactg	7	11	12	11	2	1	1	0	0	1	1	3	3	3	2	3	3	0	1	3	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:134022911G>T	uc001qhd.1	-	35	5031	c.4425C>A	c.(4423-4425)CCC>CCA	p.P1475P	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Missense_Mutation_p.P426Q	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1475					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		TATTCCTGGCGGGAGACCGCA	0.562													34	123					6.70999e-13	7.0916e-13	1	1	0		T	134022911	T	T	134022911	2	4	153	1	0	0	0	0	0	0	0	1	10225	1103	39	5		5	NCAPD3	11	134022911	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8063	134022911	983605	1034	82966											
GLB1L2	89944	broad.mit.edu	37	chr11	134212847	134212847	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgaacaccctcaccacgTaggtgctgcccctgtccccc	6	8	8	19	1	1	1	1	1	0	0	2	1	2	1	6	1	3	3	6	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr11:134212847T>C	uc001qhp.2	+	2	472	c.284_splice	c.e2+2	p.T95_splice		NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor						carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		CCTCACCACGTAGGTGCTGCC	0.607													15	75					0	0	1	0	0		C	134212847	C	C	134212847	5	2	153	1	0	0	0	0	0	0	1	0	6444	1652	57	3	292	3	GLB1L2	11	134212847	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	189936	134212847	793669	1035	82967											
KDM5A	5927	broad.mit.edu	37	chr12	416792	416792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctatcttgccaactcataGcacgttctgtcaaacactgc	10	12	5	14	1	5	0	2	0	3	0	5	0	5	0	1	0	5	2	1	0	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:416792G>A	uc001qif.1	-	23	4121	c.3758C>T	c.(3757-3759)GCT>GTT	p.A1253V	KDM5A_uc001qie.1_Missense_Mutation_p.A1253V	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1253					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						CCAACTCATAGCACGTTCTGT	0.542			T 	NUP98	AML								21	78					0	0	1	0	0		A	416792	A	A	416792	3	1	153	1	0	0	0	0	1	0	0	0	8149	971	34	2	1338	2	KDM5A	12	416792	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		416792	133435103	1036	82968											
KDM5A	5927	broad.mit.edu	37	chr12	443551	443551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacagactgttccaggacaGgcatgttattcaaattccaa	14	10	8	9	0	1	1	1	0	0	1	3	3	3	2	2	2	1	3	2	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:443551G>A	uc001qif.1	-	11	1709	c.1346C>T	c.(1345-1347)CCT>CTT	p.P449L	KDM5A_uc001qie.1_Missense_Mutation_p.P449L|KDM5A_uc010sdn.1_Missense_Mutation_p.P408L|KDM5A_uc010sdo.1_Missense_Mutation_p.P68L	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	449	JmjC.				chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						TTCCAGGACAGGCATGTTATT	0.388			T 	NUP98	AML								66	287					0	0	1	0	0		A	443551	A	A	443551	3	1	153	1	0	0	0	0	1	0	0	0	8149	1000	35	4	3798	4	KDM5A	12	443551	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	26759	443551	133408344	1037	82969											
RAD52	5893	broad.mit.edu	37	chr12	1025516	1025516	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacccctcgctcaccctcacTcttctcagctgacggcgtgg	5	9	8	19	3	4	1	3	1	2	0	6	1	4	1	3	2	1	2	3	2	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:1025516T>C	uc001qis.1	-	9	973	c.859A>G	c.(859-861)AGT>GGT	p.S287G	RAD52_uc001qit.1_RNA|RAD52_uc010sdt.1_Missense_Mutation_p.S210G|RAD52_uc001qiu.1_Missense_Mutation_p.S287G|RAD52_uc001qiv.1_RNA|RAD52_uc001qiw.1_RNA|RAD52_uc010sdu.1_3'UTR	NM_134424	NP_602296	P43351	RAD52_HUMAN	RAD52 homolog	287					DNA recombinase assembly|mitotic recombination|reciprocal meiotic recombination	nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1	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)			TCACCCTCACTCTTCTCAGCT	0.433								Homologous_recombination					5	18					0	0	1	0	0		C	1025516	C	C	1025516	3	2	153	1	0	0	0	0	1	0	0	0	13016	1551	54	3	413	3	RAD52	12	1025516	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	581965	1025516	132826379	1038	82970											
CACNA1C	775	broad.mit.edu	37	chr12	2705039	2705039	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcccctctcccgtacaGgtttcgcctccagtgccacc	4	10	7	20	2	1	0	0	0	1	0	5	0	3	0	8	1	2	2	8	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:2705039G>T	uc009zdu.1	+	20	2977	c.2664_splice	c.e20-1	p.R888_splice	CACNA1C_uc009zdv.1_Splice_Site_p.R885_splice|CACNA1C_uc001qkb.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkc.2_Splice_Site_p.R888_splice|CACNA1C_uc001qke.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkf.2_Splice_Site_p.R888_splice|CACNA1C_uc001qjz.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkd.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkg.2_Splice_Site_p.R888_splice|CACNA1C_uc009zdw.1_Splice_Site_p.R888_splice|CACNA1C_uc001qkh.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkl.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkn.2_Splice_Site_p.R888_splice|CACNA1C_uc001qko.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkp.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkr.2_Splice_Site_p.R888_splice|CACNA1C_uc001qku.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkq.2_Splice_Site_p.R888_splice|CACNA1C_uc001qks.2_Splice_Site_p.R888_splice|CACNA1C_uc001qkt.2_Splice_Site_p.R888_splice|CACNA1C_uc001qka.1_Splice_Site_p.R423_splice|CACNA1C_uc001qki.1_Splice_Site_p.R624_splice|CACNA1C_uc001qkj.1_Splice_Site_p.R624_splice|CACNA1C_uc001qkk.1_Splice_Site_p.R624_splice|CACNA1C_uc001qkm.1_Splice_Site_p.R624_splice|CACNA1C_uc001qkw.2_Splice_Site_p.R177_splice	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CTCCCGTACAGGTTTCGCCTC	0.577													20	97					1.10513e-12	1.16676e-12	1	1	0		T	2705039	T	T	2705039	5	4	153	1	0	0	0	0	0	0	1	0	2543	1014	35	5	2849	5	CACNA1C	12	2705039	Splice_Site	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1679523	2705039	131146856	1039	82971											
VWF	7450	broad.mit.edu	37	chr12	6128544	6128544	+	Missense_Mutation	SNP	A	G	G	1	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	cctggctgcccgcatacttcAcctggctggcaatgcgccgc	5	8	11	17	3	1	0	1	0	0	0	1	0	1	0	4	3	3	4	4	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:6128544A>G	uc001qnn.1	-	28	4290	c.4040T>C	c.(4039-4041)GTG>GCG	p.V1347A	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1347	VWFA 1; binding site for platelet glycoprotein Ib.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CGCATACTTCACCTGGCTGGC	0.627													18	74					0	0	1	0	0		G	6128544	G	G	6128544	3	3	153	1	0	0	0	0	1	0	0	0	17272	159	6	3	4501	3	VWF	12	6128544	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3423505	6128544	127723351	1040	82972											
GPR162	27239	broad.mit.edu	37	chr12	6934773	6934773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcctgcgagcgctaccGcgccgacgtgcgcacagtgt	5	7	14	15	7	0	0	0	0	0	0	1	2	1	0	3	1	4	2	3	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:6934773G>A	uc001qqw.1	+	3	1527	c.992G>A	c.(991-993)CGC>CAC	p.R331H	LEPREL2_uc001qqz.1_5'Flank|LEPREL2_uc001qra.1_5'Flank|GPR162_uc001qqx.1_Missense_Mutation_p.R47H|GPR162_uc009zfd.1_Missense_Mutation_p.R27H|GPR162_uc001qqy.1_Missense_Mutation_p.R27H	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	331	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GAGCGCTACCGCGCCGACGTG	0.647											OREG0021636	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	4					0	0	1	0	0		A	6934773	A	A	6934773	3	1	153	1	0	0	0	0	1	0	0	0	6681	1087	38	1	1017	1	GPR162	12	6934773	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	806229	6934773	126917122	1041	82973											
GPR162	27239	broad.mit.edu	37	chr12	6935968	6935968	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggggtcctcctgagtacCtgggacaaagacacaggttg	9	8	14	10	1	0	2	0	1	0	1	3	3	2	3	3	4	1	2	3	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:6935968C>A	uc001qqw.1	+	5	1901	c.1366C>A	c.(1366-1368)CTG>ATG	p.L456M	LEPREL2_uc001qqz.1_5'Flank|LEPREL2_uc001qra.1_5'Flank|LEPREL2_uc001qrb.1_5'Flank|GPR162_uc001qqx.1_Missense_Mutation_p.L172M|GPR162_uc009zfd.1_Missense_Mutation_p.L152M|GPR162_uc001qqy.1_Intron	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	456	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TCCTGAGTACCTGGGACAAAG	0.637													31	83					2.08457e-15	2.21948e-15	1	1	0		A	6935968	A	A	6935968	3	1	153	1	0	0	0	0	1	0	0	0	6681	680	24	5	1399	5	GPR162	12	6935968	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1195	6935968	126915927	1042	82974											
C1S	716	broad.mit.edu	37	chr12	7169970	7169970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagctgtcagagaactgtgCgtatgactcagtgcaggtat	10	11	13	7	1	2	3	2	2	0	1	2	4	2	3	0	1	4	4	0	1	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:7169970C>T	uc001qsj.2	+	6	916	c.197C>T	c.(196-198)GCG>GTG	p.A66V	C1S_uc001qsk.2_Missense_Mutation_p.A66V|C1S_uc001qsl.2_Missense_Mutation_p.A66V|C1S_uc009zfr.2_Intron|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	66	CUB 1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	GAGAACTGTGCGTATGACTCA	0.473													41	157					0	0	1	0	0		T	7169970	T	T	7169970	3	4	153	1	0	0	0	0	1	0	0	0	1977	768	27	1	203	1	C1S	12	7169970	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	234002	7169970	126681925	1043	82975											
C1R	715	broad.mit.edu	37	chr12	7242010	7242010	+	Frame_Shift_Del	DEL	G	-	-																															tgtagttgcagcgcaggtcaGgggggtaggaccgagggtac																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:7242010delG	uc010sfy.1	-	5	706	c.647delC	c.(646-648)CCTfs	p.P216fs	C1R_uc010sfz.1_Frame_Shift_Del_p.P230fs|C1R_uc010sga.1_Frame_Shift_Del_p.P182fs	NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	216	CUB 2.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCGCAGGTCAGGGGGGTAGGA	0.597													10	22	---	---	---	---						.	-	7242010	-	-	7242010	7	5	153	1	0	1	0	1	0	0	0	0	1975	1000	35	0	1177	0	C1R	12	7242010	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	72040	7242010	126609885	1044	82976											
SLC2A14	144195	broad.mit.edu	37	chr12	7984225	7984225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcggttaacaaagagtcCgacggaaaaggagccgatca	17	4	12	8	4	1	1	1	0	0	1	2	5	2	3	2	3	3	1	2	3	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:7984225C>T	uc001qtk.2	-	9	1109	c.316G>A	c.(316-318)GGA>AGA	p.G106R	SLC2A14_uc001qtl.2_Missense_Mutation_p.G83R|SLC2A14_uc001qtm.2_Missense_Mutation_p.G83R|SLC2A14_uc010sgg.1_Intron|SLC2A14_uc001qtn.2_Missense_Mutation_p.G106R|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Missense_Mutation_p.G121R	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	106	Helical; Name=2; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		ACAAAGAGTCCGACGGAAAAG	0.537											OREG0021654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	50					0	0	1	0	0		T	7984225	T	T	7984225	3	4	153	1	0	0	0	0	1	0	0	0	14568	661	23	1	1278	1	SLC2A14	12	7984225	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	742215	7984225	125867670	1045	82977											
FAM90A1	55138	broad.mit.edu	37	chr12	8374755	8374755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgccgctaagcacctgggcgGgtgtcctcgtgcctgtctgg	3	9	15	14	4	1	0	0	0	1	0	3	0	2	0	4	3	2	2	4	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:8374755G>A	uc001qui.2	-	7	1617	c.1058C>T	c.(1057-1059)CCC>CTC	p.P353L	FAM90A1_uc001quh.2_Missense_Mutation_p.P353L	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	353							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		CACCTGGGCGGGTGTCCTCGT	0.672													9	20					0	0	1	0	0		A	8374755	A	A	8374755	3	1	153	1	0	0	0	0	1	0	0	0	5664	1232	43	4	340	4	FAM90A1	12	8374755	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	390530	8374755	125477140	1046	82978											
GSG1	83445	broad.mit.edu	37	chr12	13238096	13238096	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttactatgcttgcacttGaactccagcaccatcctggt	8	13	6	14	0	1	1	0	1	1	0	3	1	3	1	3	1	5	3	3	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:13238096G>T	uc001rbn.2	-	7	1001	c.828C>A	c.(826-828)TTC>TTA	p.F276L	GSG1_uc001rbj.2_Missense_Mutation_p.F240L|GSG1_uc001rbk.2_Missense_Mutation_p.Q282K|GSG1_uc001rbl.2_Missense_Mutation_p.F212L|GSG1_uc001rbm.2_Missense_Mutation_p.F189L|GSG1_uc001rbo.2_Missense_Mutation_p.Q318K|GSG1_uc001rbp.2_Missense_Mutation_p.F253L|GSG1_uc001rbq.1_Missense_Mutation_p.Q318K	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	263						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		GCTTGCACTTGAACTCCAGCA	0.557													19	48					4.96729e-08	5.16012e-08	1	1	0		T	13238096	T	T	13238096	3	4	153	1	0	0	0	0	1	0	0	0	6836	1299	45	5	264	5	GSG1	12	13238096	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4863341	13238096	120613799	1047	82979											
PDE3A	5139	broad.mit.edu	37	chr12	20766556	20766556	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagcccagagtgaatccCgtcacttcgctcagtgaaaa	13	7	8	13	2	2	3	2	2	0	1	4	3	3	3	2	0	1	1	2	0	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:20766556C>T	uc001reh.1	+	3	1213	c.1191C>T	c.(1189-1191)CCC>CCT	p.P397P		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	397					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	GAGTGAATCCCGTCACTTCGC	0.488													28	94					0	0	1	0	0		T	20766556	T	T	20766556	2	4	153	1	0	0	0	0	0	0	0	1	11656	639	23	1		1	PDE3A	12	20766556	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7528460	20766556	113085339	1048	82980											
SLCO1A2	6579	broad.mit.edu	37	chr12	21448696	21448696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttaaaccaccaattatatatCcaatacatattggaggtaag	17	12	5	7	0	0	0	0	0	0	0	1	1	1	1	3	2	2	1	3	2	10	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:21448696C>T	uc001rer.2	-	9	1357	c.1106G>A	c.(1105-1107)GGA>GAA	p.G369E	SLCO1A2_uc001res.2_Missense_Mutation_p.G369E|SLCO1A2_uc010siq.1_Missense_Mutation_p.G237E|SLCO1A2_uc010sio.1_Missense_Mutation_p.G237E|SLCO1A2_uc010sip.1_Missense_Mutation_p.G237E|SLCO1A2_uc001ret.2_Missense_Mutation_p.G367E|SLCO1A2_uc001reu.2_Missense_Mutation_p.G349E	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	369	Helical; Name=8; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	integral to membrane|plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						AATTATATATCCAATACATAT	0.284													20	67					0	0	1	0	0		T	21448696	T	T	21448696	3	4	153	1	0	0	0	0	1	0	0	0	14747	855	30	4	930	4	SLCO1A2	12	21448696	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	682140	21448696	112403199	1049	82981											
GYS2	2998	broad.mit.edu	37	chr12	21693395	21693395	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagagcctctcagttctgttCctctggataatcctttggcg	6	14	10	11	1	3	1	1	0	3	1	6	3	5	2	3	2	1	2	3	2	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:21693395C>T	uc001rfb.2	-	14	2013	c.1758G>A	c.(1756-1758)AGG>AGA	p.R586R		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	586					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						CAGTTCTGTTCCTCTGGATAA	0.438													75	287					0	0	1	0	0		T	21693395	T	T	21693395	2	4	153	1	0	0	0	0	0	0	0	1	6929	854	30	4		4	GYS2	12	21693395	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	244699	21693395	112158500	1050	82982											
ST8SIA1	6489	broad.mit.edu	37	chr12	22354586	22354586	+	Missense_Mutation	SNP	A	G	G	1	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	gttggagaaattcctcgggcAtggcatggaagccagaaaag	13	7	14	7	1	0	2	0	0	0	2	2	4	1	3	2	4	1	3	2	4	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:22354586A>G	uc001rfo.3	-	5	1453	c.971T>C	c.(970-972)ATG>ACG	p.M324T	ST8SIA1_uc009zix.2_Missense_Mutation_p.M181T	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	324	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						TTCCTCGGGCATGGCATGGAA	0.502													39	133					0	0	1	0	0		G	22354586	G	G	22354586	3	3	153	1	0	0	0	0	1	0	0	0	15256	217	8	3	103	3	ST8SIA1	12	22354586	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	661191	22354586	111497309	1051	82983											
ITPR2	3709	broad.mit.edu	37	chr12	26572040	26572040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcaaaccaggacatacGccacgtgatagagaaaggcc	15	4	11	11	2	0	2	0	1	0	1	0	4	0	3	3	2	3	2	3	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:26572040G>A	uc001rhg.2	-	50	7469	c.7052C>T	c.(7051-7053)GCG>GTG	p.A2351V	ITPR2_uc009zjg.1_Missense_Mutation_p.A502V	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2351	Extracellular (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CAGGACATACGCCACGTGATA	0.448													21	55					0	0	1	0	0		A	26572040	A	A	26572040	3	1	153	1	0	0	0	0	1	0	0	0	7937	1087	38	1	1085	1	ITPR2	12	26572040	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4217454	26572040	107279855	1052	82984											
FGFR1OP2	26127	broad.mit.edu	37	chr12	27113500	27113500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcttccttgatgcatctcGacacatccttgaagcacctc	9	13	5	14	1	2	2	0	2	2	0	6	3	4	2	3	0	2	2	3	0	1	4	rs144332739	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:27113500G>A	uc001rhm.2	+	5	791	c.449G>A	c.(448-450)CGA>CAA	p.R150Q	FGFR1OP2_uc001rhl.2_Missense_Mutation_p.R150Q|FGFR1OP2_uc001rhn.2_Intron	NM_015633	NP_056448	Q9NVK5	FGOP2_HUMAN	FGFR1 oncogene partner 2	150						cytoplasm					0	Colorectal(261;0.0847)					GATGCATCTCGACACATCCTT	0.403													23	97					0	0	1	0	0		A	27113500	A	A	27113500	3	1	153	1	0	0	0	0	1	0	0	0	5879	1058	37	1	463	1	FGFR1OP2	12	27113500	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	541460	27113500	106738395	1053	82985											
DDX11	1663	broad.mit.edu	37	chr12	31254802	31254802	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcattctctgtaacctgtgCggtgtggttcctggaggggt	4	13	15	9	2	1	0	0	0	1	0	3	1	2	1	2	5	2	3	2	5	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:31254802C>T	uc001rjt.1	+	21	2339	c.2088C>T	c.(2086-2088)TGC>TGT	p.C696C	DDX11_uc001rjr.1_Silent_p.C696C|DDX11_uc001rjs.1_Intron|DDX11_uc001rju.1_Silent_p.C368C|DDX11_uc001rjv.1_Silent_p.C696C|DDX11_uc001rjw.1_Silent_p.C670C|DDX11_uc009zjn.1_RNA|DDX11_uc009zjo.1_5'Flank	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	696					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					GTAACCTGTGCGGTGTGGTTC	0.627										Multiple Myeloma(12;0.14)			28	92					0	0	1	0	0		T	31254802	T	T	31254802	2	4	153	1	0	0	0	0	0	0	0	1	4346	776	27	1		1	DDX11	12	31254802	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4141302	31254802	102597093	1054	82986											
C12orf35	55196	broad.mit.edu	37	chr12	32138395	32138395	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaaacacagcagcggcgtGcagacctctaaagaatcatt	15	6	10	10	2	2	3	1	0	1	3	2	4	2	3	1	1	4	2	1	1	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:32138395G>A	uc001rks.2	+	4	4920	c.4506G>A	c.(4504-4506)GTG>GTA	p.V1502V	C12orf35_uc001rkt.2_5'Flank	NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	1502										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			GCAGCGGCGTGCAGACCTCTA	0.408													15	49					0	0	1	0	0		A	32138395	A	A	32138395	2	1	153	1	0	0	0	0	0	0	0	1	1685	1306	46	2		2	C12orf35	12	32138395	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	883593	32138395	101713500	1055	82987											
FGD4	121512	broad.mit.edu	37	chr12	32777363	32777363	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	tgttttattttagttctgcgCaagacaaagaagaatggatc	13	14	9	5	1	1	3	0	0	1	3	2	4	1	4	0	1	1	3	0	1	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:32777363C>T	uc001rkz.2	+	12	1996	c.1519C>T	c.(1519-1521)CAA>TAA	p.Q507*	FGD4_uc001rlc.2_Nonsense_Mutation_p.Q592*|FGD4_uc001rky.2_Nonsense_Mutation_p.Q259*|FGD4_uc001rla.2_Nonsense_Mutation_p.Q163*|FGD4_uc010ske.1_Nonsense_Mutation_p.Q619*|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	507	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					TAGTTCTGCGCAAGACAAAGA	0.224													13	38					0	0	1	0	0		T	32777363	T	T	32777363	4	4	153	1	0	0	0	0	0	1	0	0	5849	711	25	2	1557	2	FGD4	12	32777363	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	638968	32777363	101074532	1056	82988											
ADAMTS20	80070	broad.mit.edu	37	chr12	43837660	43837660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcaacgtttgttgctcctgCgggaatctttacaacaacat	10	13	8	10	2	2	0	1	0	1	0	3	1	3	1	1	1	6	3	1	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:43837660C>T	uc010skx.1	-	16	2224	c.2224G>A	c.(2224-2226)GCA>ACA	p.A742T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	742	Spacer.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		GTTGCTCCTGCGGGAATCTTT	0.383													58	205					0	0	1	0	0		T	43837660	T	T	43837660	3	4	153	1	0	0	0	0	1	0	0	0	266	768	27	1	3603	1	ADAMTS20	12	43837660	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	11060297	43837660	90014235	1057	82989											
TMEM117	84216	broad.mit.edu	37	chr12	44782314	44782314	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgacccttctttggtttgCatcaggtctgacttcaatga	9	15	8	9	0	4	3	2	3	2	0	4	3	4	3	1	2	1	2	1	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:44782314C>T	uc001rod.2	+	8	1470	c.1404C>T	c.(1402-1404)TGC>TGT	p.C468C	TMEM117_uc001roe.2_Silent_p.C364C|TMEM117_uc009zkc.2_3'UTR	NM_032256	NP_115632	Q9H0C3	TM117_HUMAN	transmembrane protein 117	468						endoplasmic reticulum|integral to membrane					0	Lung SC(27;0.192)			GBM - Glioblastoma multiforme(48;0.124)		CTTTGGTTTGCATCAGGTCTG	0.443													40	178					0	0	1	0	0		T	44782314	T	T	44782314	2	4	153	1	0	0	0	0	0	0	0	1	16056	718	25	2		2	TMEM117	12	44782314	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	944654	44782314	89069581	1058	82990											
ARID2	196528	broad.mit.edu	37	chr12	46211569	46211569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtggactttgctattaacGtatgcactctcctatcaaat	12	14	6	9	1	2	0	1	0	1	0	3	1	2	1	1	1	3	3	1	1	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:46211569G>A	uc001ros.1	+	5	535	c.535G>A	c.(535-537)GTA>ATA	p.V179I	ARID2_uc001ror.2_Missense_Mutation_p.V179I	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	179					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TGCTATTAACGTATGCACTCT	0.388													25	105					0	0	1	0	0		A	46211569	A	A	46211569	3	1	153	1	0	0	0	0	1	0	0	0	915	1145	40	1	553	1	ARID2	12	46211569	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1429255	46211569	87640326	1059	82991											
SFRS2IP	9169	broad.mit.edu	37	chr12	46322307	46322307	+	Missense_Mutation	SNP	A	G	G	1	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	tttttcaggggcagctacagAgctccgaagtttctttttca	8	15	9	9	1	3	1	2	0	1	1	4	2	4	1	1	2	3	4	1	2	2	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:46322307A>G	uc001rox.2	-	11	1464	c.1177T>C	c.(1177-1179)TCT>CCT	p.S393P	SFRS2IP_uc001row.2_Missense_Mutation_p.S78P|SFRS2IP_uc001roy.1_Missense_Mutation_p.S467P	NM_004719	NP_004710	Q99590	SCAFB_HUMAN	splicing factor, arginine/serine-rich 2,	393					spliceosome assembly	nucleus	protein binding|zinc ion binding				0	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.209)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.1)		GCAGCTACAGAGCTCCGAAGT	0.423													42	172					0	0	1	0	0		G	46322307	G	G	46322307	3	3	153	1	0	0	0	0	1	0	0	0	14202	304	11	3	3234	3	SFRS2IP	12	46322307	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	110738	46322307	87529588	1060	82992											
PFKM	5213	broad.mit.edu	37	chr12	48501948	48501948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tactatggatgatccagacaCcgtgggaagcatacctgttt	11	11	10	9	1	0	2	0	1	0	1	1	4	1	4	3	2	3	2	3	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:48501948C>T	uc001rrb.1	+	3	400	c.176C>T	c.(175-177)ACC>ATC	p.T59I	SENP1_uc001rqw.2_5'Flank|SENP1_uc001rqx.2_5'Flank|SENP1_uc001rqy.2_5'Flank|SENP1_uc001rqz.2_5'Flank|SENP1_uc009zkx.2_5'Flank|PFKM_uc001rra.1_5'UTR	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	Error:Variant_position_missing_in_P08237_after_alignment					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GATCCAGACACCGTGGGAAGC	0.438													40	147					0	0	1	0	0		T	48501948	T	T	48501948	3	4	153	1	0	0	0	0	1	0	0	0	11784	507	18	4	182	4	PFKM	12	48501948	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2179641	48501948	85349947	1061	82993											
ZNF641	121274	broad.mit.edu	37	chr12	48737327	48737327	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtgctacacagcaggtttGagaaactatcttcctgaaga	12	11	9	9	0	1	3	0	2	1	2	2	4	2	3	1	1	4	3	1	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:48737327G>C	uc001rrn.1	-	6	911	c.746C>G	c.(745-747)TCA>TGA	p.S249*	ZNF641_uc001rro.1_Nonsense_Mutation_p.S235*|ZNF641_uc010sls.1_Nonsense_Mutation_p.S226*	NM_152320	NP_689533	Q96N77	ZN641_HUMAN	zinc finger protein 641	249	Transactivation.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						CAGCAGGTTTGAGAAACTATC	0.542													24	87					0	0	1	0	0		C	48737327	C	C	48737327	4	2	153	1	0	0	0	0	0	1	0	0	18082	1294	45	5	574	5	ZNF641	12	48737327	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	235379	48737327	85114568	1062	82994											
DDX23	9416	broad.mit.edu	37	chr12	49225894	49225894	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggatttggccaacacgtcGcagcccttcttctggttgac	7	11	11	12	2	2	1	0	1	2	0	3	2	2	2	2	3	2	2	2	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:49225894G>A	uc001rsm.2	-	15	2122	c.2031C>T	c.(2029-2031)TGC>TGT	p.C677C		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	677	Helicase C-terminal.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						CCAACACGTCGCAGCCCTTCT	0.517													16	70					0	0	1	0	0		A	49225894	A	A	49225894	2	1	153	1	0	0	0	0	0	0	0	1	4353	1079	38	1		1	DDX23	12	49225894	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	488567	49225894	84626001	1063	82995											
MLL2	8085	broad.mit.edu	37	chr12	49434444	49434444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtcagtgtaggagccagggCgaaagatgtctgggtgactt	9	9	17	6	1	2	2	1	1	1	1	2	4	2	3	1	4	1	1	1	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:49434444C>T	uc001rta.3	-	31	7109	c.7109G>A	c.(7108-7110)CGC>CAC	p.R2370H		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2370	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGAGCCAGGGCGAAAGATGTC	0.657			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			5	31					0	0	1	0	0		T	49434444	T	T	49434444	3	4	153	1	0	0	0	0	1	0	0	0	9639	768	27	1	9600	1	MLL2	12	49434444	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	208550	49434444	84417451	1064	82996											
TROAP	10024	broad.mit.edu	37	chr12	49722991	49722991	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accgttcaacctaaaacccgGttcacacccatgccatcaac	13	7	4	17	2	3	0	3	0	0	0	3	0	3	0	5	1	4	2	5	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:49722991G>A	uc001rtx.3	+	10	1235	c.1068G>A	c.(1066-1068)CGG>CGA	p.R356R	TROAP_uc009zlh.2_Silent_p.R356R|TROAP_uc001rty.2_Silent_p.R64R	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	356					cell adhesion	cytoplasm				ovary(1)	1						CTAAAACCCGGTTCACACCCA	0.547													25	226					0	0	1	0	0		A	49722991	A	A	49722991	2	1	153	1	0	0	0	0	0	0	0	1	16601	1248	44	4		4	TROAP	12	49722991	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	288547	49722991	84128904	1065	82997											
KCNH3	23416	broad.mit.edu	37	chr12	49937067	49937067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcactcagggggtgtttGgggagaaaccaaacttgcct	9	9	13	10	0	2	1	2	0	0	1	2	2	2	1	3	4	3	1	3	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:49937067G>A	uc001ruh.1	+	5	849	c.589G>A	c.(589-591)GGG>AGG	p.G197R	KCNH3_uc010smj.1_Missense_Mutation_p.G137R	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	197	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						GGGGGTGTTTGGGGAGAAACC	0.567													15	34					0	0	1	0	0		A	49937067	A	A	49937067	3	1	153	1	0	0	0	0	1	0	0	0	8049	1348	47	4	607	4	KCNH3	12	49937067	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	214076	49937067	83914828	1066	82998											
AQP6	363	broad.mit.edu	37	chr12	50369362	50369362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctatcctcacaggcaccGtagaggtggggacaggggca	9	6	16	10	1	1	1	1	0	0	1	2	2	2	2	2	7	0	4	2	7	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:50369362G>A	uc001rvr.1	+	4	1094	c.757G>A	c.(757-759)GTA>ATA	p.V253I	AQP6_uc001rvp.1_Missense_Mutation_p.V79I|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	253	Cytoplasmic (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						CACAGGCACCGTAGAGGTGGG	0.647													30	62					0	0	1	0	0		A	50369362	A	A	50369362	3	1	153	1	0	0	0	0	1	0	0	0	830	1145	40	1	771	1	AQP6	12	50369362	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	432295	50369362	83482533	1067	82999											
LARP4	113251	broad.mit.edu	37	chr12	50794705	50794705	+	Translation_Start_Site	SNP	G	A	A	0	0	1	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	ggtggaggggcaaggcgagtGtgtgtccttatcctagcaat	8	10	16	7	1	0	0	0	0	0	0	2	2	2	1	2	5	1	2	2	5	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:50794705G>A	uc001rwp.1	+	1	56	c.-88G>A	c.(-90--86)GTGTG>GTATG		LARP4_uc001rwo.1_Translation_Start_Site|LARP4_uc001rwq.1_Translation_Start_Site|LARP4_uc001rwr.1_Translation_Start_Site|LARP4_uc001rws.1_Translation_Start_Site|LARP4_uc001rwm.2_Translation_Start_Site|LARP4_uc001rwn.2_Translation_Start_Site	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a								nucleotide binding|RNA binding			ovary(1)	1						CAAGGCGAGTGTGTGTCCTTA	0.647													57	187					0	0	1	0	0		A	50794705	A	A	50794705	1	1	153	1	0	0	0	0	0	0	0	0	8646	1392	48	4		4	LARP4	12	50794705	Translation_Start_Site	SNP	G	TCGA-CG-5723-01A-11D-1600-08	425343	50794705	83057190	1068	83000											
SLC4A8	9498	broad.mit.edu	37	chr12	51844755	51844755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agaagcaccggagacgagggCggggcaaaggagccagccag	13	0	18	10	3	0	2	0	0	0	2	0	5	0	3	3	5	3	2	3	5	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:51844755C>T	uc001rys.1	+	3	404	c.226C>T	c.(226-228)CGG>TGG	p.R76W	SLC4A8_uc010sni.1_Missense_Mutation_p.R23W|SLC4A8_uc001rym.2_Missense_Mutation_p.R23W|SLC4A8_uc001ryn.2_Missense_Mutation_p.R23W|SLC4A8_uc001ryo.2_Missense_Mutation_p.R23W|SLC4A8_uc001ryp.1_Missense_Mutation_p.R23W|SLC4A8_uc010snj.1_Missense_Mutation_p.R103W|SLC4A8_uc001ryq.3_Missense_Mutation_p.R76W|SLC4A8_uc001ryr.2_Missense_Mutation_p.R76W|SLC4A8_uc010snk.1_Missense_Mutation_p.R23W	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	76	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		GAGACGAGGGCGGGGCAAAGG	0.662													8	7					0	0	1	0	0		T	51844755	T	T	51844755	3	4	153	1	0	0	0	0	1	0	0	0	14684	759	27	1	236	1	SLC4A8	12	51844755	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1050050	51844755	82007140	1069	83001											
KRT2	3849	broad.mit.edu	37	chr12	53044214	53044214	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagcccatccagatatctctTgaggctgtcgatatacccct	9	11	8	13	1	1	2	0	1	1	1	4	4	2	2	4	1	2	1	4	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:53044214T>C	uc001sat.2	-	2	742	c.709A>G	c.(709-711)AAG>GAG	p.K237E		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	237	Coil 1B.|Rod.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		AGATATCTCTTGAGGCTGTCG	0.483													69	275					0	0	1	0	0		C	53044214	C	C	53044214	3	2	153	1	0	0	0	0	1	0	0	0	8473	1821	63	3	1242	3	KRT2	12	53044214	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1199459	53044214	80807681	1070	83002											
KRT8	3856	broad.mit.edu	37	chr12	53295004	53295004	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattgatctcatcctcatacCtgtgaggaaaagacttacaa	14	12	6	9	0	2	3	2	2	1	1	4	4	3	4	2	1	2	0	2	1	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:53295004C>A	uc001sbd.2	-	3	637	c.534_splice	c.e3-1	p.K178_splice	KRT8_uc009zmj.2_Splice_Site_p.K178_splice|KRT8_uc009zmk.1_Splice_Site_p.K206_splice|KRT8_uc009zml.1_Splice_Site_p.K178_splice|KRT8_uc009zmm.1_Splice_Site_p.K178_splice	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8						cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATCCTCATACCTGTGAGGAAA	0.463													38	145					1.30998e-17	1.40071e-17	1	1	0		A	53295004	A	A	53295004	5	1	153	1	0	0	0	0	0	0	1	0	8509	695	24	5	942	5	KRT8	12	53295004	Splice_Site	SNP	C	TCGA-CG-5723-01A-11D-1600-08	250790	53295004	80556891	1071	83003											
SP7	121340	broad.mit.edu	37	chr12	53722463	53722463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatatccaccactaccccCagtgcttgcaccccgtgggg	7	7	8	19	1	0	0	0	0	0	0	1	0	1	0	7	2	3	2	7	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:53722463C>T	uc001sct.2	-	2	870	c.763G>A	c.(763-765)GGG>AGG	p.G255R	SP7_uc001scu.2_Missense_Mutation_p.G237R|SP7_uc001scv.2_Missense_Mutation_p.G255R	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	255					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCACTACCCCCAGTGCTTGCA	0.622													9	29					0	0	1	0	0		T	53722463	T	T	53722463	3	4	153	1	0	0	0	0	1	0	0	0	14994	594	21	4	536	4	SP7	12	53722463	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	427459	53722463	80129432	1072	83004											
SP1	6667	broad.mit.edu	37	chr12	53776718	53776718	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgccaatagctactcaacTactactaccaccagcaacat	16	8	3	14	0	1	0	1	0	0	0	1	0	1	0	3	0	9	2	3	0	9	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:53776718T>C	uc001scw.2	+	3	1084	c.987T>C	c.(985-987)ACT>ACC	p.T329T	SP1_uc010sog.1_Silent_p.T322T	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	329	Transactivation domain B (Gln-rich).|Ser/Thr-rich.				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		GCTACTCAACTACTACTACCA	0.502													31	108					0	0	1	0	0		C	53776718	C	C	53776718	2	2	153	1	0	0	0	0	0	0	0	1	14984	1509	53	3		3	SP1	12	53776718	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	54255	53776718	80075177	1073	83005											
LRP1	4035	broad.mit.edu	37	chr12	57537482	57537482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctccaaggcaactgctctCgcctgggctgccagcaccat	8	7	10	16	1	1	0	0	0	1	0	3	0	2	0	4	2	5	5	4	2	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:57537482C>T	uc001snd.2	+	4	815	c.349C>T	c.(349-351)CGC>TGC	p.R117C	LRP1_uc010sre.1_Missense_Mutation_p.R117C|LRP1_uc001snb.2_Missense_Mutation_p.R117C|LRP1_uc001snc.1_Missense_Mutation_p.R117C	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	117	EGF-like 1.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CAACTGCTCTCGCCTGGGCTG	0.602													10	39					0	0	1	0	0		T	57537482	T	T	57537482	3	4	153	1	0	0	0	0	1	0	0	0	8969	884	31	1	363	1	LRP1	12	57537482	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3760764	57537482	76314413	1074	83006											
LRP1	4035	broad.mit.edu	37	chr12	57577935	57577935	+	Silent	SNP	C	A	A	0	0	0	1	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	cggctcaatggctccttccgCtacgtggtgatctcccaggg	5	10	12	14	3	2	1	1	1	1	0	5	1	4	1	3	4	1	3	3	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:57577935C>A	uc001snd.2	+	37	6463	c.5997C>A	c.(5995-5997)CGC>CGA	p.R1999R		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1999	LDL-receptor class B 18.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	GCTCCTTCCGCTACGTGGTGA	0.597													12	23					2.27111e-07	2.35318e-07	1	1	0		A	57577935	A	A	57577935	2	1	153	1	0	0	0	0	0	0	0	1	8969	784	28	5		5	LRP1	12	57577935	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	40453	57577935	76273960	1075	83007											
LRP1	4035	broad.mit.edu	37	chr12	57602495	57602495	+	Missense_Mutation	SNP	A	G	G	1	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	accccttctccctccccaggAccatgtactggtcagactgg	7	9	8	17	0	2	1	1	0	1	1	4	2	3	2	6	3	1	1	6	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:57602495A>G	uc001snd.2	+	78	12506	c.12040A>G	c.(12040-12042)ACC>GCC	p.T4014A		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	4014	LDL-receptor class B 33.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCTCCCCAGGACCATGTACTG	0.637													11	42					0	0	1	0	0		G	57602495	G	G	57602495	3	3	153	1	0	0	0	0	1	0	0	0	8969	289	10	3	12350	3	LRP1	12	57602495	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	24560	57602495	76249400	1076	83008											
AGAP2	116986	broad.mit.edu	37	chr12	58124639	58124639	+	Frame_Shift_Del	DEL	C	-	-																															cgttaatgctggctgaggggCcaaaggcagagatggccctc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:58124639delC	uc001spq.2	-	11	2243	c.2243delG	c.(2242-2244)GGCfs	p.G748fs	AGAP2_uc001spp.2_Frame_Shift_Del_p.G748fs|AGAP2_uc001spr.2_Frame_Shift_Del_p.G412fs	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	748	PH.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						GGCTGAGGGGCCAAAGGCAGA	0.572													14	30	---	---	---	---						.	-	58124639	-	-	58124639	7	5	153	1	0	1	0	1	0	0	0	0	368	739	26	0	1371	0	AGAP2	12	58124639	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	522144	58124639	75727256	1077	83009	156	2									
AGAP2	116986	broad.mit.edu	37	chr12	58124646	58124646	+	Missense_Mutation	SNP	C	T	T																															gctggctgaggggccaaaggCagagatggccctcgggggcc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:58124646C>T	uc001spq.2	-	11	2236	c.2236G>A	c.(2236-2238)GCC>ACC	p.A746T	AGAP2_uc001spp.2_Missense_Mutation_p.A746T|AGAP2_uc001spr.2_Missense_Mutation_p.A410T	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	746	PH.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						GGGCCAAAGGCAGAGATGGCC	0.577													8	23					0	0	1	0	0		T	58124646	T	T	58124646	3	4	153	1	0	0	0	0	1	0	0	0	368	710	25	2	1378	2	AGAP2	12	58124646	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7	58124646	75727249	1078	83010	156	2									
FAM119B	25895	broad.mit.edu	37	chr12	58174183	58174183	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcttccctgcaaactatgaCctggtgctgggggctgatat	7	12	12	10	0	1	2	0	2	1	0	2	2	2	2	2	3	3	3	2	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:58174183C>T	uc001sqg.2	+	3	560	c.435C>T	c.(433-435)GAC>GAT	p.D145D	FAM119B_uc001sqf.2_3'UTR|FAM119B_uc009zqd.2_RNA|TSFM_uc001sqi.2_5'Flank|TSFM_uc010sse.1_5'Flank|TSFM_uc001sqh.2_5'Flank|TSFM_uc010ssf.1_5'Flank	NM_015433	NP_056248	Q96AZ1	MT21B_HUMAN	hypothetical protein LOC25895 isoform a	145						integral to membrane|intracellular	methyltransferase activity				0	all_cancers(7;9.07e-82)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					CAAACTATGACCTGGTGCTGG	0.612													23	54					0	0	1	0	0		T	58174183	T	T	58174183	2	4	153	1	0	0	0	0	0	0	0	1	5425	506	18	4		4	FAM119B	12	58174183	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	49537	58174183	75677712	1079	83011											
MON2	23041	broad.mit.edu	37	chr12	62943525	62943525	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	accaacaatgccttgtacttGcctgcaaatagttgtagatg	12	12	8	9	0	0	1	0	0	0	1	0	1	0	1	3	0	5	4	3	0	6	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:62943525G>A	uc001sre.2	+	23	3222	c.2831G>A	c.(2830-2832)TGC>TAC	p.C944Y	MON2_uc009zqj.2_Missense_Mutation_p.C944Y|MON2_uc010ssl.1_Missense_Mutation_p.C872Y|MON2_uc010ssm.1_Missense_Mutation_p.C921Y|MON2_uc010ssn.1_Missense_Mutation_p.C944Y|MON2_uc001srf.2_Missense_Mutation_p.C707Y	NM_015026	NP_055841	Q7Z3U7	MON2_HUMAN	MON2 homolog	945					Golgi to endosome transport|protein transport	cytoplasm	ARF guanyl-nucleotide exchange factor activity|binding			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.218)	GBM - Glioblastoma multiforme(28;0.128)		CCTTGTACTTGCCTGCAAATA	0.368													38	135					0	0	1	0	0		A	62943525	A	A	62943525	3	1	153	1	0	0	0	0	1	0	0	0	9718	1319	46	2	2921	2	MON2	12	62943525	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4769342	62943525	70908370	1080	83012											
PPM1H	57460	broad.mit.edu	37	chr12	63195794	63195794	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccaggcaggtagggggcagGacggcggagttcttcaggat	8	6	18	9	2	2	0	1	0	1	0	2	3	2	3	1	8	0	4	1	8	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:63195794G>A	uc001srk.3	-	3	707	c.558C>T	c.(556-558)GTC>GTT	p.V186V		NM_020700	NP_065751	Q9ULR3	PPM1H_HUMAN	protein phosphatase 1H (PP2C domain containing)	186	PP2C-like.						phosphoprotein phosphatase activity			lung(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;0.000443)|BRCA - Breast invasive adenocarcinoma(9;0.209)	GBM - Glioblastoma multiforme(28;0.0126)		TAGGGGGCAGGACGGCGGAGT	0.721													8	51					0	0	1	0	0		A	63195794	A	A	63195794	2	1	153	1	0	0	0	0	0	0	0	1	12363	1161	41	4		4	PPM1H	12	63195794	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	252269	63195794	70656101	1081	83013											
GNS	2799	broad.mit.edu	37	chr12	65113872	65113872	+	Missense_Mutation	SNP	T	C	C	0	1	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	taacatcattaaccgatagtTcatctttcctaaaagctctg	13	14	4	10	1	4	0	2	0	2	0	5	1	5	0	2	0	3	2	2	0	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:65113872T>C	uc001ssg.3	-	13	1680	c.1510A>G	c.(1510-1512)AAC>GAC	p.N504D	GNS_uc001ssf.2_Missense_Mutation_p.N448D|GNS_uc010ssq.1_Missense_Mutation_p.N536D|GNS_uc010ssr.1_Missense_Mutation_p.N484D	NM_002076	NP_002067	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase precursor	504						lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		AACCGATAGTTCATCTTTCCT	0.448													104	307					0	0	1	0	0		C	65113872	C	C	65113872	3	2	153	1	0	0	0	0	1	0	0	0	6565	1783	62	3	156	3	GNS	12	65113872	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1918078	65113872	68738023	1082	83014											
CAND1	55832	broad.mit.edu	37	chr12	67692780	67692780	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccattataaatatttgtcTtaaatatcttacctatgatc	14	18	2	7	0	2	1	0	1	2	0	3	1	2	1	2	0	2	0	2	0	10	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:67692780T>C	uc001stn.2	+	7	1342	c.905T>C	c.(904-906)CTT>CCT	p.L302P	CAND1_uc001sto.2_5'UTR	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	302	HEAT 8.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		AATATTTGTCTTAAATATCTT	0.219													16	63					0	0	1	0	0		C	67692780	C	C	67692780	3	2	153	1	0	0	0	0	1	0	0	0	2618	1609	56	3	931	3	CAND1	12	67692780	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2578908	67692780	66159115	1083	83015											
TSPAN8	7103	broad.mit.edu	37	chr12	71531789	71531789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttttcactttcccctgtggCgctcaaaagctttgtgtttt	5	19	7	10	1	2	0	2	0	0	0	3	0	3	0	2	1	1	3	2	1	2	6	rs148575105		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:71531789C>T	uc009zrt.1	-	5	550	c.388G>A	c.(388-390)GCC>ACC	p.A130T	TSPAN8_uc001swk.1_Missense_Mutation_p.A130T|TSPAN8_uc001swj.1_Missense_Mutation_p.A130T	NM_004616	NP_004607	P19075	TSN8_HUMAN	transmembrane 4 superfamily member 3	130	Extracellular (Potential).				protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)			TCCCCTGTGGCGCTCAAAAGC	0.343													39	132					0	0	1	0	0		T	71531789	T	T	71531789	3	4	153	1	0	0	0	0	1	0	0	0	16679	768	27	1	341	1	TSPAN8	12	71531789	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3839009	71531789	62320106	1084	83016											
TMTC2	160335	broad.mit.edu	37	chr12	83379735	83379735	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgtttaagcaaactcccCgaagcagagcattggtatat	13	10	9	9	2	0	1	0	0	0	1	1	2	1	1	2	1	5	5	2	1	5	5	rs148211417		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:83379735C>T	uc001szt.2	+	8	2412	c.1980C>T	c.(1978-1980)CCC>CCT	p.P660P	TMTC2_uc001szs.1_Silent_p.P660P|TMTC2_uc010suk.1_Silent_p.P415P	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	660	TPR 6.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						GCAAACTCCCCGAAGCAGAGC	0.433													42	254					0	0	1	0	0		T	83379735	T	T	83379735	2	4	153	1	0	0	0	0	0	0	0	1	16286	639	23	1		1	TMTC2	12	83379735	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	11847946	83379735	50472160	1085	83017											
PLXNC1	10154	broad.mit.edu	37	chr12	94562942	94562942	+	Missense_Mutation	SNP	A	G	G	1	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	tgttcagaaagaaggggatcAacctgaaagagtccaaccaa	17	6	10	8	0	2	4	2	1	0	3	3	5	3	5	3	2	2	1	3	2	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:94562942A>G	uc001tdc.2	+	2	1325	c.1076A>G	c.(1075-1077)CAA>CGA	p.Q359R		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	359	Extracellular (Potential).|Sema.				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						GAAGGGGATCAACCTGAAAGA	0.383													31	98					0	0	1	0	0		G	94562942	G	G	94562942	3	3	153	1	0	0	0	0	1	0	0	0	12145	130	5	3	1082	3	PLXNC1	12	94562942	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	11183207	94562942	39288953	1086	83018											
APAF1	317	broad.mit.edu	37	chr12	99126270	99126270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatcttaagaaaatacacGtgtcccctgacttcaaaaca	16	9	4	12	1	2	2	1	1	1	1	3	2	3	2	3	0	2	0	3	0	7	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:99126270G>A	uc001tfz.2	+	27	4250	c.3673G>A	c.(3673-3675)GTG>ATG	p.V1225M	APAF1_uc001tfy.2_Missense_Mutation_p.V1214M|APAF1_uc001tga.2_Missense_Mutation_p.V1171M|APAF1_uc001tgb.2_Missense_Mutation_p.V1182M|APAF1_uc001tgc.2_3'UTR|APAF1_uc009zto.2_Missense_Mutation_p.V549M	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform	1225					activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	GAAAATACACGTGTCCCCTGA	0.333													25	78					0	0	1	0	0		A	99126270	A	A	99126270	3	1	153	1	0	0	0	0	1	0	0	0	755	1145	40	1	3775	1	APAF1	12	99126270	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4563328	99126270	34725625	1087	83019											
UTP20	27340	broad.mit.edu	37	chr12	101736764	101736764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgatgatatcaacttcgacGttcgctttgagactttccag	9	15	8	9	3	1	3	1	3	0	1	4	5	2	3	1	0	1	2	1	0	2	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:101736764G>A	uc001tia.1	+	35	4498	c.4342G>A	c.(4342-4344)GTT>ATT	p.V1448I		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1448					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						CAACTTCGACGTTCGCTTTGA	0.328													38	138					0	0	1	0	0		A	101736764	A	A	101736764	3	1	153	1	0	0	0	0	1	0	0	0	17125	1145	40	1	4480	1	UTP20	12	101736764	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2610494	101736764	32115131	1088	83020											
SPIC	121599	broad.mit.edu	37	chr12	101880330	101880330	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagggcactcagaaattaCggaagaagtggggaaattac	15	6	13	7	1	1	2	1	0	0	2	1	4	1	4	1	4	2	1	1	4	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:101880330C>T	uc001tid.2	+	6	687	c.528C>T	c.(526-528)TAC>TAT	p.Y176Y	SPIC_uc009zua.2_Silent_p.Y51Y|SPIC_uc010svp.1_Silent_p.Y175Y	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	176	ETS.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						TCAGAAATTACGGAAGAAGTG	0.448													42	89					0	0	1	0	0		T	101880330	T	T	101880330	2	4	153	1	0	0	0	0	0	0	0	1	15076	547	19	1		1	SPIC	12	101880330	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	143566	101880330	31971565	1089	83021											
STAB2	55576	broad.mit.edu	37	chr12	104044321	104044321	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgggacccttcacggtgCtgttacctacagacaaggga	10	8	12	11	1	1	1	1	0	0	1	1	3	1	3	2	3	4	3	2	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:104044321C>A	uc001tjw.2	+	11	1408	c.1222C>A	c.(1222-1224)CTG>ATG	p.L408M		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	408	Extracellular (Potential).|FAS1 1.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTTCACGGTGCTGTTACCTAC	0.443													14	63					0.000422831	0.000432089	1	1	0		A	104044321	A	A	104044321	3	1	153	1	0	0	0	0	1	0	0	0	15263	796	28	5	1264	5	STAB2	12	104044321	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2163991	104044321	29807574	1090	83022											
STAB2	55576	broad.mit.edu	37	chr12	104071360	104071360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcggctgccacgacaacGcatcctgtttgtatgtgggt	7	10	13	11	3	0	0	0	0	0	0	1	1	1	0	2	3	2	4	2	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:104071360G>A	uc001tjw.2	+	25	2962	c.2776G>A	c.(2776-2778)GCA>ACA	p.A926T		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	926	Extracellular (Potential).|EGF-like 9.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CCACGACAACGCATCCTGTTT	0.572													5	55					0	0	1	0	0		A	104071360	A	A	104071360	3	1	153	1	0	0	0	0	1	0	0	0	15263	1087	38	1	2874	1	STAB2	12	104071360	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	27039	104071360	29780535	1091	83023											
NUAK1	9891	broad.mit.edu	37	chr12	106532257	106532257	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgcctttgcccagggtctCctgcagctcgtagcggtgct	3	11	14	13	2	1	0	0	0	1	0	3	0	1	0	3	3	6	4	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:106532257C>A	uc001tlj.1	-	1	1555	c.175G>T	c.(175-177)GAG>TAG	p.E59*		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	59	Protein kinase.						ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						CCCAGGGTCTCCTGCAGCTCG	0.672													8	25					0.000157383	0.000160911	1	1	0		A	106532257	A	A	106532257	4	1	153	1	0	0	0	0	0	1	0	0	10731	864	30	5	1838	5	NUAK1	12	106532257	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2460897	106532257	27319638	1092	83024											
C12orf34	84915	broad.mit.edu	37	chr12	110206229	110206229	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccccaagccacctgaggcGcctgctccaccacccggcct	7	5	8	21	2	0	1	0	1	0	0	1	1	1	1	9	2	3	1	9	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:110206229G>A	uc001tpd.1	+	3	1054	c.495G>A	c.(493-495)GCG>GCA	p.A165A	MGC14436_uc010sxs.1_Intron|MGC14436_uc001tpe.2_Intron|C12orf34_uc001tpf.1_Silent_p.A165A	NM_032829	NP_116218	Q5U5X8	CL034_HUMAN	hypothetical protein LOC84915	165	Pro-rich.									ovary(1)	1						CACCTGAGGCGCCTGCTCCAC	0.731													5	14					0	0	1	0	0		A	110206229	A	A	110206229	2	1	153	1	0	0	0	0	0	0	0	1	1684	1074	38	1		1	C12orf34	12	110206229	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3673972	110206229	23645666	1093	83025											
TCHP	84260	broad.mit.edu	37	chr12	110340853	110340853	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggcgctcccgacgctgccgTcctactggtgcagccagcag	5	7	13	16	4	0	0	0	0	0	0	2	1	2	0	4	2	5	4	4	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:110340853T>C	uc001tpn.2	+	2	175	c.22T>C	c.(22-24)TCC>CCC	p.S8P	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.S8P	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	8					apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						GACGCTGCCGTCCTACTGGTG	0.602													13	55					0	0	1	0	0		C	110340853	C	C	110340853	3	2	153	1	0	0	0	0	1	0	0	0	15727	1667	58	3	24	3	TCHP	12	110340853	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	134624	110340853	23511042	1094	83026											
GIT2	9815	broad.mit.edu	37	chr12	110421431	110421431	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggatgaaagaagttggcTtgtgctcctaaagataacag	15	9	11	6	0	0	3	0	1	0	2	1	4	1	4	1	2	2	3	1	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:110421431T>G	uc001tps.2	-	5	639	c.474A>C	c.(472-474)CAA>CAC	p.Q158H	GIT2_uc001tpq.2_Missense_Mutation_p.Q158H|GIT2_uc001tpv.2_Missense_Mutation_p.Q158H|GIT2_uc001tpu.2_Missense_Mutation_p.Q158H|GIT2_uc001tpt.2_Missense_Mutation_p.Q158H|GIT2_uc010sxu.1_Missense_Mutation_p.Q96H|GIT2_uc001tpw.2_Missense_Mutation_p.Q158H|GIT2_uc010sxv.1_Missense_Mutation_p.Q158H	NM_057169	NP_476510	Q14161	GIT2_HUMAN	G protein-coupled receptor kinase interacting	158	ANK 1.				regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	nucleoplasm	ARF GTPase activator activity|protein binding|zinc ion binding			central_nervous_system(1)	1						AGAAGTTGGCTTGTGCTCCTA	0.383													42	146					0	0	1	0	0		G	110421431	G	G	110421431	3	3	153	1	0	0	0	0	1	0	0	0	6412	1606	56	5	1907	5	GIT2	12	110421431	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	80578	110421431	23430464	1095	83027											
ATP2A2	488	broad.mit.edu	37	chr12	110783139	110783139	+	Missense_Mutation	SNP	T	C	C	0	1	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	atccccatacccgatgacaaTggcgctctctgttctagtaa	10	11	7	13	2	2	1	0	1	2	0	4	2	3	1	3	1	1	3	3	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:110783139T>C	uc001tqk.3	+	18	3256	c.2693T>C	c.(2692-2694)ATG>ACG	p.M898T	ATP2A2_uc001tql.3_Missense_Mutation_p.M898T|ATP2A2_uc010sxy.1_Missense_Mutation_p.M871T|ATP2A2_uc001tqn.3_5'Flank|ATP2A2_uc009zvn.2_5'Flank	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	898	Helical; Name=8; (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						CCGATGACAATGGCGCTCTCT	0.498													65	206					0	0	1	0	0		C	110783139	C	C	110783139	3	2	153	1	0	0	0	0	1	0	0	0	1138	1464	51	3	2763	3	ATP2A2	12	110783139	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	361708	110783139	23068756	1096	83028											
ACAD10	80724	broad.mit.edu	37	chr12	112185167	112185167	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagcttctatgtcataaaCggtcacaaatggtggatcac	13	10	9	9	1	4	0	3	0	1	0	4	2	4	1	0	3	2	1	0	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:112185167C>T	uc001tsq.2	+	16	2663	c.2463C>T	c.(2461-2463)AAC>AAT	p.N821N	ACAD10_uc001tsp.2_Silent_p.N821N|ACAD10_uc009zvx.2_Silent_p.N852N|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	821							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						ATGTCATAAACGGTCACAAAT	0.502													39	119					0	0	1	0	0		T	112185167	T	T	112185167	2	4	153	1	0	0	0	0	0	0	0	1	108	535	19	1		1	ACAD10	12	112185167	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1402028	112185167	21666728	1097	83029											
ERP29	10961	broad.mit.edu	37	chr12	112460088	112460088	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctggggcagttaaggttggaGccatccagcgctggctgaag	8	8	16	9	1	0	1	0	1	0	0	1	2	1	2	2	5	2	5	2	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:112460088G>A	uc001ttk.1	+	3	536	c.418G>A	c.(418-420)GCC>ACC	p.A140T	ERP29_uc001ttl.1_3'UTR	NM_006817	NP_006808	P30040	ERP29_HUMAN	endoplasmic reticulum protein 29 isoform 1	140					intracellular protein transport|protein folding|protein secretion	endoplasmic reticulum lumen|melanosome	protein disulfide isomerase activity				0						TAAGGTTGGAGCCATCCAGCG	0.577													19	65					0	0	1	0	0		A	112460088	A	A	112460088	3	1	153	1	0	0	0	0	1	0	0	0	5250	971	34	2	428	2	ERP29	12	112460088	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	274921	112460088	21391807	1098	83030											
LHX5	64211	broad.mit.edu	37	chr12	113906172	113906172	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcgtcctgcagtgcgtcctgGaggtccggggacaaactgcg	6	8	15	12	4	0	0	0	0	0	0	4	2	3	2	3	4	4	1	3	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:113906172G>A	uc001tvj.1	-	3	1009	c.435C>T	c.(433-435)CTC>CTT	p.L145L		NM_022363	NP_071758	Q9H2C1	LHX5_HUMAN	LIM homeobox protein 5	145						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTGCGTCCTGGAGGTCCGGGG	0.642													12	44					0	0	1	0	0		A	113906172	A	A	113906172	2	1	153	1	0	0	0	0	0	0	0	1	8790	1161	41	4		4	LHX5	12	113906172	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1446084	113906172	19945723	1099	83031											
MED13L	23389	broad.mit.edu	37	chr12	116408482	116408482	+	Missense_Mutation	SNP	T	C	C	0	1	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	atgttgggaacaccaagatgTgtgtacaagaagcatcttga	14	10	11	6	0	1	3	0	1	1	2	1	4	1	4	1	1	3	3	1	1	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:116408482T>C	uc001tvw.2	-	27	6039	c.5984A>G	c.(5983-5985)CAC>CGC	p.H1995R		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1995					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CACCAAGATGTGTGTACAAGA	0.478													35	113					0	0	1	0	0		C	116408482	C	C	116408482	3	2	153	1	0	0	0	0	1	0	0	0	9449	1696	59	3	668	3	MED13L	12	116408482	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2502310	116408482	17443413	1100	83032											
TESC	54997	broad.mit.edu	37	chr12	117494684	117494684	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtccgggacattgttgaagtTctccttgctggtttccaaga	7	14	11	9	1	1	2	0	1	1	1	4	3	3	3	3	2	1	4	3	2	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:117494684T>C	uc001twh.2	-	3	300	c.295A>G	c.(295-297)AAC>GAC	p.N99D	TESC_uc001twi.2_RNA	NM_017899	NP_060369	Q96BS2	TESC_HUMAN	tescalcin	46					negative regulation of cell proliferation|positive regulation of megakaryocyte differentiation|positive regulation of transcription, DNA-dependent|regulation of cell adhesion mediated by integrin	cytoplasm|lamellipodium|nucleus|plasma membrane|ruffle	calcium ion binding|magnesium ion binding|phosphatase inhibitor activity|protein binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0297)		TTGTTGAAGTTCTCCTTGCTG	0.493													28	78					0	0	1	0	0		C	117494684	C	C	117494684	3	2	153	1	0	0	0	0	1	0	0	0	15791	1783	62	3	532	3	TESC	12	117494684	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1086202	117494684	16357211	1101	83033											
NOS1	4842	broad.mit.edu	37	chr12	117672429	117672429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctggttgacaggcggcGcgtcctccagccgctcgatc	5	8	12	16	5	1	1	0	1	1	0	5	2	3	1	4	3	1	2	4	3	0	1	rs56266548		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:117672429G>A	uc001twm.1	-	21	3862	c.3176C>T	c.(3175-3177)GCG>GTG	p.A1059V		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1059	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GACAGGCGGCGCGTCCTCCAG	0.627													12	27					0	0	1	0	0		A	117672429	A	A	117672429	3	1	153	1	0	0	0	0	1	0	0	0	10560	1087	38	1	1164	1	NOS1	12	117672429	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	177745	117672429	16179466	1102	83034											
WSB2	55884	broad.mit.edu	37	chr12	118474213	118474213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggtatcgtaagaagccgtgaCaagcagggcagagtcggggg	11	5	18	7	3	0	3	0	1	0	2	2	3	0	3	1	4	2	4	1	4	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:118474213C>T	uc001twr.2	-	6	861	c.763G>A	c.(763-765)GTC>ATC	p.V255I	WSB2_uc010sza.1_Missense_Mutation_p.V30I|WSB2_uc010szb.1_Missense_Mutation_p.V45I|WSB2_uc009zws.1_Missense_Mutation_p.V255I	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	255	WD 4.				intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GAAGCCGTGACAAGCAGGGCA	0.502													20	115					0	0	1	0	0		T	118474213	T	T	118474213	3	4	153	1	0	0	0	0	1	0	0	0	17431	478	17	4	467	4	WSB2	12	118474213	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	801784	118474213	15377682	1103	83035											
KDM2B	84678	broad.mit.edu	37	chr12	121951203	121951203	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtaacggaatttgggctgCacctgaaagcaaagacgcag	13	6	14	8	2	0	2	0	1	0	1	0	3	0	3	1	3	3	5	1	3	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:121951203C>T	uc001uat.2	-	10	1154	c.1050G>A	c.(1048-1050)GTG>GTA	p.V350V	KDM2B_uc001uas.2_Silent_p.V319V|KDM2B_uc001uau.2_Silent_p.V233V|KDM2B_uc001uav.3_Silent_p.V260V	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	350					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						ATTTGGGCTGCACCTGAAAGC	0.577													18	62					0	0	1	0	0		T	121951203	T	T	121951203	2	4	153	1	0	0	0	0	0	0	0	1	8141	697	25	2		2	KDM2B	12	121951203	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3476990	121951203	11900692	1104	83036											
LRRC43	254050	broad.mit.edu	37	chr12	122676072	122676072	+	Silent	SNP	T	C	C	0	1	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	acctatgattttgtgaaagaTgaagaaggcgaaatgaatga	17	10	11	3	1	0	7	0	5	0	2	0	8	0	7	1	1	0	0	1	1	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:122676072T>C	uc009zxm.2	+	6	1072	c.1047T>C	c.(1045-1047)GAT>GAC	p.D349D	LRRC43_uc001ubw.3_Silent_p.D164D|LRRC43_uc009zxn.2_Silent_p.D110D	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	349											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TTGTGAAAGATGAAGAAGGCG	0.537											OREG0022219	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	95					0	0	1	0	0		C	122676072	C	C	122676072	2	2	153	1	0	0	0	0	0	0	0	1	9019	1461	51	3		3	LRRC43	12	122676072	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	724869	122676072	11175823	1105	83037											
KNTC1	9735	broad.mit.edu	37	chr12	123055441	123055441	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agataattcttgcaaaatggTtggaacaagcagccaggaac	16	8	10	7	0	1	1	0	0	1	1	1	3	1	3	1	3	5	3	1	3	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:123055441T>C	uc001ucv.2	+	23	2042	c.1879T>C	c.(1879-1881)TTG>CTG	p.L627L	KNTC1_uc010taf.1_Silent_p.L590L	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	627					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		TGCAAAATGGTTGGAACAAGC	0.299													6	15					0	0	1	0	0		C	123055441	C	C	123055441	2	2	153	1	0	0	0	0	0	0	0	1	8444	1722	60	3		3	KNTC1	12	123055441	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	379369	123055441	10796454	1106	83038											
KNTC1	9735	broad.mit.edu	37	chr12	123087620	123087620	+	Frame_Shift_Del	DEL	A	-	-																															tacagcaaaacacgttttcgAaaaaaaactgaagccaaagc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:123087620delA	uc001ucv.2	+	48	5094	c.4931delA	c.(4930-4932)GAAfs	p.E1644fs	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1644					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		CACGTTTTCGAAAAAAAACTG	0.388													20	40	---	---	---	---						.	-	123087620	-	-	123087620	7	5	153	1	0	1	0	1	0	0	0	0	8444	246	9	0	5117	0	KNTC1	12	123087620	Frame_Shift_Del	DEL	A	TCGA-CG-5723-01A-11D-1600-08	32179	123087620	10764275	1107	83039											
GPR81	27198	broad.mit.edu	37	chr12	123214828	123214828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaggccacaatgagcagcGgcggcatcacctgggagatg	12	4	14	11	2	1	2	1	1	0	1	1	3	1	2	2	4	2	2	2	4	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:123214828G>A	uc001ucz.2	-	1	302	c.59C>T	c.(58-60)CCG>CTG	p.P20L	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	20	Extracellular (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		AATGAGCAGCGGCGGCATCAC	0.622													5	21					0	0	1	0	0		A	123214828	A	A	123214828	3	1	153	1	0	0	0	0	1	0	0	0	6726	1116	39	1	985	1	GPR81	12	123214828	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	127208	123214828	10637067	1108	83040											
EIF2B1	1967	broad.mit.edu	37	chr12	124106442	124106442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcttgtccagtctgcGcgaccttgagagtgtctgcc	5	12	13	11	2	3	2	0	2	3	1	4	4	4	2	3	1	2	0	3	1	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:124106442G>A	uc001ufm.2	-	9	922	c.779C>T	c.(778-780)GCG>GTG	p.A260V	EIF2B1_uc001ufn.2_Missense_Mutation_p.A258V	NM_001414	NP_001405	Q14232	EI2BA_HUMAN	eukaryotic translation initiation factor 2B,	260					cellular response to stimulus|oligodendrocyte development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex|membrane fraction|plasma membrane	protein binding|translation initiation factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.67e-05)|Epithelial(86;0.000353)|all cancers(50;0.00489)		TCCAGTCTGCGCGACCTTGAG	0.522													13	35					0	0	1	0	0		A	124106442	A	A	124106442	3	1	153	1	0	0	0	0	1	0	0	0	5006	1087	38	1	142	1	EIF2B1	12	124106442	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	891614	124106442	9745453	1109	83041											
ATP6V0A2	23545	broad.mit.edu	37	chr12	124209219	124209219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagcagttgcagaagctcGaggttgaactgagagaagtc	13	7	15	6	1	0	4	0	2	0	2	2	7	0	5	0	2	4	5	0	2	3	2	rs146676679		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:124209219G>A	uc001ufr.2	+	4	561	c.313G>A	c.(313-315)GAG>AAG	p.E105K	ATP6V0A2_uc001ufq.1_Missense_Mutation_p.E105K	NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	105	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		GCAGAAGCTCGAGGTTGAACT	0.388													90	262					0	0	1	0	0		A	124209219	A	A	124209219	3	1	153	1	0	0	0	0	1	0	0	0	1170	1059	37	1	327	1	ATP6V0A2	12	124209219	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	102777	124209219	9642676	1110	83042											
CCDC92	80212	broad.mit.edu	37	chr12	124421711	124421711	+	Missense_Mutation	SNP	T	G	G	0	1	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	gggcctgcggcggggtggcgTggtggatccgatgtgccacc	3	7	20	11	4	0	0	0	0	0	0	1	2	1	1	4	7	2	0	4	7	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:124421711T>G	uc001ufw.1	-	5	1037	c.890A>C	c.(889-891)CAC>CCC	p.H297P	CCDC92_uc001ufv.1_Missense_Mutation_p.H280P|CCDC92_uc001ufx.1_Missense_Mutation_p.H297P|CCDC92_uc001ufy.1_Missense_Mutation_p.H280P	NM_025140	NP_079416	Q53HC0	CCD92_HUMAN	coiled-coil domain containing 92	297											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.0002)|OV - Ovarian serous cystadenocarcinoma(86;0.000222)|all cancers(50;0.00129)|BRCA - Breast invasive adenocarcinoma(302;0.242)		CGGGGTGGCGTGGTGGATCCG	0.692													5	20					0	0	1	0	0		G	124421711	G	G	124421711	3	3	153	1	0	0	0	0	1	0	0	0	2874	1696	59	5	109	5	CCDC92	12	124421711	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	212492	124421711	9430184	1111	83043											
SCARB1	949	broad.mit.edu	37	chr12	125294823	125294823	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	catgttgcactgatcggaatGccagaagtcaacctgggggg	10	8	14	9	1	1	2	1	1	0	1	2	3	1	3	2	4	3	2	2	4	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:125294823G>A	uc001ugo.3	-	6	992	c.739C>T	c.(739-741)CAT>TAT	p.H247Y	SCARB1_uc001ugn.3_Missense_Mutation_p.H247Y|SCARB1_uc001ugm.3_Missense_Mutation_p.H247Y|SCARB1_uc010tbd.1_Missense_Mutation_p.H247Y|SCARB1_uc010tbe.1_Missense_Mutation_p.H206Y|SCARB1_uc001ugp.3_Missense_Mutation_p.H247Y	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	247	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	TGATCGGAATGCCAGAAGTCA	0.567													9	31					0	0	1	0	0		A	125294823	A	A	125294823	3	1	153	1	0	0	0	0	1	0	0	0	13906	1319	46	2	942	2	SCARB1	12	125294823	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	873112	125294823	8557072	1112	83044											
FZD10	11211	broad.mit.edu	37	chr12	130648515	130648515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccgccggcaagaagtgggGccacgaggccatcgaagcca	10	2	16	13	4	0	1	0	0	0	1	1	3	0	1	5	5	1	1	5	5	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:130648515G>A	uc001uii.2	+	1	1484	c.1028G>A	c.(1027-1029)GGC>GAC	p.G343D	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	343	Cytoplasmic (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		AAGAAGTGGGGCCACGAGGCC	0.647													12	24					0	0	1	0	0		A	130648515	A	A	130648515	3	1	153	1	0	0	0	0	1	0	0	0	6143	1203	42	2	1030	2	FZD10	12	130648515	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5353692	130648515	3203380	1113	83045											
GPR133	283383	broad.mit.edu	37	chr12	131451073	131451073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtggatgggatccatgaaCttcaggatacaactggaggt	12	10	13	6	0	1	1	1	1	0	0	2	5	2	5	1	5	3	0	1	5	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:131451073C>T	uc001uit.3	+	3	728	c.169C>T	c.(169-171)CTT>TTT	p.L57F	GPR133_uc010tbm.1_Missense_Mutation_p.L57F	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	57	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		GATCCATGAACTTCAGGATAC	0.532													8	54					0	0	1	0	0		T	131451073	T	T	131451073	3	4	153	1	0	0	0	0	1	0	0	0	6658	565	20	4	179	4	GPR133	12	131451073	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	802558	131451073	2400822	1114	83046											
ULK1	8408	broad.mit.edu	37	chr12	132393458	132393458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgcagctgacttcggcttcgCgcggtacctccagagcaaca	8	7	11	15	5	0	2	0	1	0	1	3	2	1	2	2	2	4	5	2	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:132393458C>T	uc001uje.2	+	7	774	c.506C>T	c.(505-507)GCG>GTG	p.A169V		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	169	Protein kinase.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		TTCGGCTTCGCGCGGTACCTC	0.468													3	19					0	0	1	0	0		T	132393458	T	T	132393458	3	4	153	1	0	0	0	0	1	0	0	0	17001	768	27	1	532	1	ULK1	12	132393458	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	942385	132393458	1458437	1115	83047											
ZNF10	7556	broad.mit.edu	37	chr12	133733098	133733098	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagatctcaccttgttgtGcatcatagaattcacactgg	11	12	8	10	0	3	2	3	0	1	2	4	3	3	2	1	1	1	2	1	1	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr12:133733098G>A	uc009zzb.2	+	5	1713	c.1266G>A	c.(1264-1266)GTG>GTA	p.V422V	ZNF268_uc010tbv.1_Intron|ZNF10_uc001ulq.2_Silent_p.V422V	NM_015394	NP_056209	P21506	ZNF10_HUMAN	zinc finger protein 10	422	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)|skin(1)	3	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;1.28e-06)|all_epithelial(31;0.0051)|Lung NSC(355;0.00948)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		ACCTTGTTGTGCATCATAGAA	0.418													13	275					0	0	1	0	0		A	133733098	A	A	133733098	2	1	153	1	0	0	0	0	0	0	0	1	17737	1306	46	2		2	ZNF10	12	133733098	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1339640	133733098	118797	1116	83048											
CENPJ	55835	broad.mit.edu	37	chr13	25457398	25457398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacttcgtttcttgatgacCgtttgcatatacggttttaa	8	18	8	7	3	1	2	0	2	1	0	2	2	1	2	1	1	3	5	1	1	4	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:25457398C>T	uc001upt.3	-	17	4187	c.3934G>A	c.(3934-3936)GGT>AGT	p.G1312S	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	1312					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		TCTTGATGACCGTTTGCATAT	0.443													69	244					0	0	1	0	0		T	25457398	T	T	25457398	3	4	153	1	0	0	0	0	1	0	0	0	3237	652	23	1	86	1	CENPJ	13	25457398	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		25457398	89712480	1117	83049											
LNX2	222484	broad.mit.edu	37	chr13	28136599	28136599	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccatacttcaggtcgtgcCcattgatggccagcactcgg	7	11	10	13	2	1	1	1	1	0	0	4	1	2	1	3	3	3	1	3	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:28136599C>A	uc001url.3	-	5	1484	c.1175G>T	c.(1174-1176)GGG>GTG	p.G392V	LNX2_uc001urm.1_Missense_Mutation_p.G392V	NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	392	PDZ 2.						zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		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)		CAGGTCGTGCCCATTGATGGC	0.527													51	144					1.83081e-24	1.97976e-24	1	1	0		A	28136599	A	A	28136599	3	1	153	1	0	0	0	0	1	0	0	0	8883	623	22	5	921	5	LNX2	13	28136599	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2679201	28136599	87033279	1118	83050											
FLT3	2322	broad.mit.edu	37	chr13	28636133	28636133	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagatacatccacttccacaGcggcagcttcgtacactgtc	10	9	7	15	2	0	1	0	0	0	1	4	1	2	1	2	1	4	3	2	1	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:28636133G>A	uc001urw.2	-	3	321	c.239C>T	c.(238-240)GCT>GTT	p.A80V	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.A80V	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	80	Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity	p.599_560>LTGSSDNEYFYVDFREYEY(1)		haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	CACTTCCACAGCGGCAGCTTC	0.532			Mis|O		AML|ALL								27	65					0	0	1	0	0		A	28636133	A	A	28636133	3	1	153	1	0	0	0	0	1	0	0	0	5956	971	34	2	2830	2	FLT3	13	28636133	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	499534	28636133	86533745	1119	83051											
FLT1	2321	broad.mit.edu	37	chr13	29008007	29008007	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcgtgttcaagggagtggtAgcagtacaattgaggacaag	12	9	14	6	1	1	1	1	1	0	0	2	3	1	3	0	3	2	4	0	3	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:29008007A>G	uc001usb.3	-	6	1047	c.762T>C	c.(760-762)GCT>GCC	p.A254A	FLT1_uc010aar.1_Silent_p.A254A|FLT1_uc001usc.3_Silent_p.A254A|FLT1_uc010tdp.1_Silent_p.A254A	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	254	Extracellular (Potential).|Ig-like C2-type 3.				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	AGGGAGTGGTAGCAGTACAAT	0.423													36	141					0	0	1	0	0		G	29008007	G	G	29008007	2	3	153	1	0	0	0	0	0	0	0	1	5955	407	15	3		3	FLT1	13	29008007	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	371874	29008007	86161871	1120	83052											
SLC46A3	283537	broad.mit.edu	37	chr13	29287374	29287374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaagtcaatgatagctattCgaattgttttttgtttgtgt	10	19	9	3	1	1	1	1	1	0	0	2	3	1	1	0	0	1	3	0	0	5	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:29287374C>T	uc001usi.2	-	2	1473	c.503G>A	c.(502-504)CGA>CAA	p.R168Q	SLC46A3_uc001usg.2_Missense_Mutation_p.R93Q|SLC46A3_uc001usj.2_Missense_Mutation_p.R168Q|SLC46A3_uc001ush.2_Missense_Mutation_p.R168Q|SLC46A3_uc001usk.2_Missense_Mutation_p.R93Q	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	168	Cytoplasmic (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		GATAGCTATTCGAATTGTTTT	0.373													35	80					0	0	1	0	0		T	29287374	T	T	29287374	3	4	153	1	0	0	0	0	1	0	0	0	14671	884	31	1	912	1	SLC46A3	13	29287374	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	279367	29287374	85882504	1121	83053											
FRY	10129	broad.mit.edu	37	chr13	32868578	32868578	+	Missense_Mutation	SNP	A	G	G	1	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	cagtgcagtcattgcagctgAccctctctattcagacggcg	8	10	10	13	2	3	2	2	1	1	1	4	2	3	2	1	1	3	3	1	1	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:32868578A>G	uc001utx.2	+	60	9150	c.8654A>G	c.(8653-8655)GAC>GGC	p.D2885G	FRY_uc010tdw.1_RNA|FRY_uc001utz.2_Missense_Mutation_p.D416G|FRY_uc010tdx.1_Missense_Mutation_p.D255G	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2885					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		ATTGCAGCTGACCCTCTCTAT	0.493													13	40					0	0	1	0	0		G	32868578	G	G	32868578	3	3	153	1	0	0	0	0	1	0	0	0	6077	275	10	3	8892	3	FRY	13	32868578	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3581204	32868578	82301300	1122	83054											
BRCA2	675	broad.mit.edu	37	chr13	32972903	32972903	+	Missense_Mutation	SNP	T	G	G	0	1	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	aattacaactaaaaaatataTctaagcatttgcaaaggcga	20	10	5	6	1	1	0	0	0	1	0	1	1	1	0	0	1	4	2	0	1	10	6	rs80359259		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:32972903T>G	uc001uub.1	+	27	10480	c.10253T>G	c.(10252-10254)ATC>AGC	p.I3418S		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	3418					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AAAAAATATATCTAAGCATTT	0.353			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			22	57					0	0	1	0	0		G	32972903	G	G	32972903	3	3	153	1	0	0	0	0	1	0	0	0	1502	1435	50	5	10355	5	BRCA2	13	32972903	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	104325	32972903	82196975	1123	83055											
SPG20	23111	broad.mit.edu	37	chr13	36900787	36900787	+	Missense_Mutation	SNP	A	G	G	1	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	ttcttctggaactggctcacAtggtacaatgtgactcaggt	9	13	10	9	0	4	1	2	1	2	0	4	2	4	2	0	4	2	2	0	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:36900787A>G	uc001uvn.2	-	6	1483	c.1213T>C	c.(1213-1215)TGT>CGT	p.C405R	SPG20_uc010ten.1_Missense_Mutation_p.C395R|SPG20_uc001uvm.2_Missense_Mutation_p.C405R|SPG20_uc001uvo.2_Missense_Mutation_p.C405R|SPG20_uc001uvq.2_Missense_Mutation_p.C405R|SPG20_uc001uvp.2_Missense_Mutation_p.C405R	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	405					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		ACTGGCTCACATGGTACAATG	0.348													16	68					0	0	1	0	0		G	36900787	G	G	36900787	3	3	153	1	0	0	0	0	1	0	0	0	15067	217	8	3	807	3	SPG20	13	36900787	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3927884	36900787	78269091	1124	83056											
SMAD9	4093	broad.mit.edu	37	chr13	37439797	37439797	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatctatgagcacacttcGggaggaagcctggaatgtct	10	9	11	11	1	2	1	0	1	2	0	3	4	2	4	2	3	2	1	2	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:37439797G>A	uc001uvw.2	-	5	1223	c.880C>T	c.(880-882)CGA>TGA	p.R294*	SMAD9_uc001uvx.2_Nonsense_Mutation_p.R257*|SMAD9_uc010tep.1_Nonsense_Mutation_p.R87*	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	294	MH2.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		AGCACACTTCGGGAGGAAGCC	0.473													28	107					0	0	1	0	0		A	37439797	A	A	37439797	4	1	153	1	0	0	0	0	0	1	0	0	14789	1124	39	1	535	1	SMAD9	13	37439797	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	539010	37439797	77730081	1125	83057											
C13orf23	80209	broad.mit.edu	37	chr13	39603448	39603448	+	Missense_Mutation	SNP	T	G	G	0	1	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	gttcaagagcaactagtttgTctttactgaaagtgaaacag	14	12	9	6	0	2	3	1	2	1	1	2	3	2	3	0	0	4	3	0	0	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:39603448T>G	uc001uwy.2	-	4	1118	c.245A>C	c.(244-246)GAC>GCC	p.D82A	C13orf23_uc001uwz.2_Missense_Mutation_p.D60A	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	82										ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		AACTAGTTTGTCTTTACTGAA	0.294													24	101					0	0	1	0	0		G	39603448	G	G	39603448	3	3	153	1	0	0	0	0	1	0	0	0	1724	1667	58	5	2629	5	C13orf23	13	39603448	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2163651	39603448	75566430	1126	83058											
SLC25A15	10166	broad.mit.edu	37	chr13	41379273	41379273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatctgcagaatgcagccGccggttccttcgcctctgcc	5	10	11	15	3	2	2	0	1	2	1	4	2	3	2	5	1	4	3	5	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:41379273G>A	uc001uxn.2	+	4	656	c.334G>A	c.(334-336)GCC>ACC	p.A112T	SUGT1L1_uc001uxp.1_Intron|SLC25A15_uc010tfb.1_Missense_Mutation_p.A18T|SUGT1L1_uc001uxo.1_RNA	NM_014252	NP_055067	Q9Y619	ORNT1_HUMAN	mitochondrial ornithine transporter 1	112	Helical; Name=3; (Potential).|Solcar 2.				cellular amino acid metabolic process|mitochondrial ornithine transport|urea cycle	integral to membrane|mitochondrial inner membrane	L-ornithine transmembrane transporter activity				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.48e-08)|Epithelial(112;7.51e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000191)|GBM - Glioblastoma multiforme(144;0.00231)|BRCA - Breast invasive adenocarcinoma(63;0.0704)	L-Ornithine(DB00129)	GAATGCAGCCGCCGGTTCCTT	0.542													36	53					0	0	1	0	0		A	41379273	A	A	41379273	3	1	153	1	0	0	0	0	1	0	0	0	14502	1087	38	1	344	1	SLC25A15	13	41379273	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1775825	41379273	73790605	1127	83059											
MTRF1	9617	broad.mit.edu	37	chr13	41827154	41827154	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatttctcctttggcacaaGgctctggaaaagctggaata	12	12	9	8	0	2	0	0	0	2	0	3	2	2	2	1	4	1	3	1	4	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:41827154G>T	uc001uxx.2	-	6	990	c.520C>A	c.(520-522)CTT>ATT	p.L174I	MTRF1_uc001uxy.2_Missense_Mutation_p.L174I|MTRF1_uc001uxz.2_Missense_Mutation_p.L10I|MTRF1_uc010tff.1_Missense_Mutation_p.L187I|MTRF1_uc001uyc.1_Missense_Mutation_p.L174I	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	174					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		TTTGGCACAAGGCTCTGGAAA	0.333													5	85					0.184627	0.185273	1	1	0		T	41827154	T	T	41827154	3	4	153	1	0	0	0	0	1	0	0	0	9977	1000	35	5	845	5	MTRF1	13	41827154	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	447881	41827154	73342724	1128	83060											
NAA16	79612	broad.mit.edu	37	chr13	41943362	41943362	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaagaaaaaaagagatgaAgaagaagaagaagccagtgg	24	2	12	3	0	0	7	0	1	0	6	0	8	0	7	1	1	1	0	1	1	10	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:41943362A>T	uc001uyf.2	+	15	2214	c.1890A>T	c.(1888-1890)GAA>GAT	p.E630D	NAA16_uc010tfg.1_RNA	NM_024561	NP_078837	Q6N069	NAA16_HUMAN	NMDA receptor regulated 1-like protein isoform	630					N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1						aaagagatgaagaagaagaag	0.219													28	79					0	0	1	0	0		T	41943362	T	T	41943362	3	4	153	1	0	0	0	0	1	0	0	0	10137	69	3	5	1981	5	NAA16	13	41943362	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	116208	41943362	73226516	1129	83061											
SLC25A30	253512	broad.mit.edu	37	chr13	45980026	45980026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttccccactcaccttctgggCgttcaatgaatagtcgcttc	7	13	7	14	2	3	1	2	1	1	0	6	1	4	1	3	1	0	2	3	1	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:45980026C>T	uc001vag.2	-	4	436	c.299G>A	c.(298-300)CGC>CAC	p.R100H	SLC25A30_uc010tfs.1_Missense_Mutation_p.R25H|SLC25A30_uc001vah.2_Missense_Mutation_p.R25H|SLC25A30_uc010tft.1_Missense_Mutation_p.R49H|SLC25A30_uc001vaf.2_5'Flank	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	100					mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)		ACCTTCTGGGCGTTCAATGAA	0.473													11	66					0	0	1	0	0		T	45980026	T	T	45980026	3	4	153	1	0	0	0	0	1	0	0	0	14519	768	27	1	604	1	SLC25A30	13	45980026	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4036664	45980026	69189852	1130	83062											
RB1	5925	broad.mit.edu	37	chr13	48919235	48919235	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtccataaattctttaacTtactaaaagaaattgatacc	16	14	4	7	0	1	2	0	1	1	1	2	2	2	2	2	0	3	0	2	0	8	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:48919235T>G	uc001vcb.2	+	4	566	c.400T>G	c.(400-402)TTA>GTA	p.L134V	RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	134					androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.?(5)|p.L134fs*1(1)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ATTCTTTAACTTACTAAAAGA	0.284		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)			31	115					0	0	1	0	0		G	48919235	G	G	48919235	3	3	153	1	0	0	0	0	1	0	0	0	13123	1606	56	5	414	5	RB1	13	48919235	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2939209	48919235	66250643	1131	83063											
SERPINE3	647174	broad.mit.edu	37	chr13	51936035	51936035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaacctaacacaggtattAcagtattttttgacaggatt	14	13	8	6	0	0	2	0	1	0	1	0	4	0	3	1	2	3	2	1	2	5	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:51936035A>G	uc001vfh.2	+	7	1237	c.1177A>G	c.(1177-1179)ACA>GCA	p.T393A	SERPINE3_uc010tgp.1_Intron|INTS6_uc001vfi.2_3'UTR|INTS6_uc001vfj.2_3'UTR|INTS6_uc001vfk.2_3'UTR|INTS6_uc001vfl.2_3'UTR	NM_001101320	NP_001094790	A8MV23	SERP3_HUMAN	nexin-related serine protease inhibitor	393					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)	2						CACAGGTATTACAGTATTTTT	0.383													22	81					0	0	1	0	0		G	51936035	G	G	51936035	3	3	153	1	0	0	0	0	1	0	0	0	14138	391	14	3	1203	3	SERPINE3	13	51936035	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3016800	51936035	63233843	1132	83064											
PCDH8	5100	broad.mit.edu	37	chr13	53420927	53420927	+	Missense_Mutation	SNP	A	G	G	1	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	gtccaccgagacataagtggAcacggcgcccccggcgcggc	8	3	14	16	6	0	1	0	0	0	1	1	3	1	2	4	4	0	0	4	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:53420927A>G	uc001vhi.2	-	1	1848	c.1645T>C	c.(1645-1647)TCC>CCC	p.S549P	PCDH8_uc001vhj.2_Missense_Mutation_p.S549P	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	549	Extracellular (Potential).|Cadherin 5.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		ACATAAGTGGACACGGCGCCC	0.701													2	2					0	0	1	0	0		G	53420927	G	G	53420927	3	3	153	1	0	0	0	0	1	0	0	0	11536	275	10	3	1579	3	PCDH8	13	53420927	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1484892	53420927	61748951	1133	83065											
PCDH17	27253	broad.mit.edu	37	chr13	58208186	58208186	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccaggatcccgacctgggCcagaacggcaccgtatccta	9	5	11	16	3	0	1	0	0	0	1	2	3	2	2	6	3	1	2	6	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:58208186C>G	uc001vhq.1	+	1	2398	c.1506C>G	c.(1504-1506)GGC>GGG	p.G502G	PCDH17_uc010aec.1_Silent_p.G502G	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	502	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CCGACCTGGGCCAGAACGGCA	0.597													15	40					0	0	1	0	0		G	58208186	G	G	58208186	2	3	153	1	0	0	0	0	0	0	0	1	11531	726	26	5		5	PCDH17	13	58208186	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4787259	58208186	56961692	1134	83066											
PCDH17	27253	broad.mit.edu	37	chr13	58208609	58208609	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagatcgacccgtccagcggCgagatccgcacgctgcaccc	8	4	12	17	6	0	2	0	0	0	2	3	5	2	2	4	1	2	3	4	1	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:58208609C>T	uc001vhq.1	+	1	2821	c.1929C>T	c.(1927-1929)GGC>GGT	p.G643G	PCDH17_uc010aec.1_Silent_p.G643G	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	643	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CGTCCAGCGGCGAGATCCGCA	0.657													24	150					0	0	1	0	0		T	58208609	T	T	58208609	2	4	153	1	0	0	0	0	0	0	0	1	11531	755	27	1		1	PCDH17	13	58208609	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	423	58208609	56961269	1135	83067											
DACH1	1602	broad.mit.edu	37	chr13	72146986	72146986	+	Missense_Mutation	SNP	T	C	C	0	1	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	aattaccttaataactgatgTctcaactctggatgggggac	12	12	9	8	0	2	1	1	1	2	0	3	3	2	3	1	3	3	0	1	3	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:72146986T>C	uc010thn.1	-	5	1708	c.1285A>G	c.(1285-1287)ACA>GCA	p.T429A	DACH1_uc010tho.1_Intron|DACH1_uc010thp.1_Intron	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	481					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		ATAACTGATGTCTCAACTCTG	0.403													20	83					0	0	1	0	0		C	72146986	C	C	72146986	3	2	153	1	0	0	0	0	1	0	0	0	4223	1667	58	3	867	3	DACH1	13	72146986	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	13938377	72146986	43022892	1136	83068											
TBC1D4	9882	broad.mit.edu	37	chr13	75901914	75901914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagcaagactgttggaccGttcaaaactgtccacacttc	12	10	8	11	1	1	2	1	1	0	1	3	3	2	3	2	1	2	3	2	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:75901914G>A	uc001vjl.1	-	9	2127	c.1780C>T	c.(1780-1782)CGG>TGG	p.R594W	TBC1D4_uc010aer.2_Missense_Mutation_p.R594W|TBC1D4_uc010aes.2_Missense_Mutation_p.R594W	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	594						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CTGTTGGACCGTTCAAAACTG	0.393													56	150					0	0	1	0	0		A	75901914	A	A	75901914	3	1	153	1	0	0	0	0	1	0	0	0	15647	1144	40	1	2168	1	TBC1D4	13	75901914	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3754928	75901914	39267964	1137	83069											
UCHL3	7347	broad.mit.edu	37	chr13	76179898	76179898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgcaagaagtttatggagCgcgaccctgatgaactaaga	13	10	11	7	2	0	4	0	2	0	2	0	6	0	5	1	1	3	2	1	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:76179898C>T	uc001vjq.2	+	9	673	c.643C>T	c.(643-645)CGC>TGC	p.R215C	UCHL3_uc001vjr.2_Missense_Mutation_p.R179C	NM_006002	NP_005993	P15374	UCHL3_HUMAN	ubiquitin carboxyl-terminal esterase L3	215					ubiquitin-dependent protein catabolic process	cytoplasm	cysteine-type peptidase activity|ubiquitin binding|ubiquitin thiolesterase activity				0				GBM - Glioblastoma multiforme(99;0.0125)		GTTTATGGAGCGCGACCCTGA	0.323													26	84					0	0	1	0	0		T	76179898	T	T	76179898	3	4	153	1	0	0	0	0	1	0	0	0	16947	768	27	1	677	1	UCHL3	13	76179898	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	277984	76179898	38989980	1138	83070											
IPO5	3843	broad.mit.edu	37	chr13	98641389	98641389	+	Silent	SNP	A	G	G	1	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	gtcagctctcaaaatgtgggActgcgggaagctgcccttca	9	9	12	11	1	3	0	3	0	1	0	4	2	3	2	1	2	4	2	1	2	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:98641389A>G	uc001vnf.1	+	4	503	c.438A>G	c.(436-438)GGA>GGG	p.G146G	IPO5_uc001vne.2_Silent_p.G164G|IPO5_uc010tik.1_Intron|IPO5_uc010til.1_Silent_p.G86G	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	146					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						AAAATGTGGGACTGCGGGAAG	0.373													4	78					0	0	1	0	0		G	98641389	G	G	98641389	2	3	153	1	0	0	0	0	0	0	0	1	7812	262	10	3		3	IPO5	13	98641389	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	22461491	98641389	16528489	1139	83071											
FAM155A	728215	broad.mit.edu	37	chr13	107822998	107822998	+	Silent	SNP	T	C	C	0	1	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	ctgttgcacagtcttgttgcTgatgacactgtgagcgatgt	7	14	12	8	1	1	3	0	3	1	0	1	4	1	3	0	0	3	4	0	0	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:107822998T>C	uc001vql.2	-	3	1740	c.1224A>G	c.(1222-1224)TCA>TCG	p.S408S		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	408						integral to membrane	binding			skin(1)	1						GTCTTGTTGCTGATGACACTG	0.493													18	69					0	0	1	0	0		C	107822998	C	C	107822998	2	2	153	1	0	0	0	0	0	0	0	1	5476	1567	55	3		3	FAM155A	13	107822998	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	9181609	107822998	7346880	1140	83072											
ARHGEF7	8874	broad.mit.edu	37	chr13	111953116	111953116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgcaaagaatctgctcCacaagttttgcttccagaag	12	11	7	11	1	2	2	1	0	1	2	4	2	4	2	2	0	2	4	2	0	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr13:111953116C>T	uc010tjo.1	+	18	1962	c.1910C>T	c.(1909-1911)CCA>CTA	p.P637L	ARHGEF7_uc001vrv.3_Missense_Mutation_p.P562L|ARHGEF7_uc001vrw.3_Missense_Mutation_p.P562L|ARHGEF7_uc001vrx.3_Missense_Mutation_p.P562L	NM_003899	NP_003890	Q14155	ARHG7_HUMAN	PAK-interacting exchange factor beta isoform a	Error:Variant_position_missing_in_Q14155_after_alignment					apoptosis|epidermal growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_lung(23;3.96e-05)|Lung NSC(43;0.00156)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.188)			GAATCTGCTCCACAAGTTTTG	0.353													36	141					0	0	1	0	0		T	111953116	T	T	111953116	3	4	153	1	0	0	0	0	1	0	0	0	911	594	21	4	2516	4	ARHGEF7	13	111953116	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4130118	111953116	3216762	1141	83073											
POTEG	404785	broad.mit.edu	37	chr14	19553815	19553815	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctttcatggagccgaggtaCcacgtccgtcgagaagatct	9	9	12	11	4	2	2	1	0	1	2	4	5	3	3	3	2	2	2	3	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:19553815C>A	uc001vuz.1	+	1	451	c.399C>A	c.(397-399)TAC>TAA	p.Y133*	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	133										ovary(1)	1						AGCCGAGGTACCACGTCCGTC	0.587													22	313					2.09667e-21	2.2563e-21	1	1	0		A	19553815	A	A	19553815	4	1	153	1	0	0	0	0	0	1	0	0	12285	518	18	5	401	5	POTEG	14	19553815	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		19553815	87795725	1142	83074											
OR4M1	441670	broad.mit.edu	37	chr14	20248598	20248598	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttctatttgttcatcctAccaggaaatatccttatcat	10	17	3	11	0	3	0	2	0	1	0	6	1	6	1	4	1	1	1	4	1	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:20248598A>G	uc010tku.1	+	1	117	c.117A>G	c.(115-117)CTA>CTG	p.L39L		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGTTCATCCTACCAGGAAATA	0.428													124	833					0	0	1	0	0		G	20248598	G	G	20248598	2	3	153	1	0	0	0	0	0	0	0	1	11094	378	14	3		3	OR4M1	14	20248598	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	694783	20248598	87100942	1143	83075											
OR4K15	81127	broad.mit.edu	37	chr14	20443718	20443718	+	Missense_Mutation	SNP	A	C	C	1	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	tctctgtttctctcctattcAggtagctgaaattaagtccc	8	16	6	11	0	3	1	1	1	2	0	7	1	5	1	2	1	1	3	2	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:20443718A>C	uc010tkx.1	+	1	41	c.41A>C	c.(40-42)CAG>CCG	p.Q14P		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCTCCTATTCAGGTAGCTGAA	0.383													37	125					0	0	1	0	0		C	20443718	C	C	20443718	3	2	153	1	0	0	0	0	1	0	0	0	11089	188	7	5	43	5	OR4K15	14	20443718	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	195120	20443718	86905822	1144	83076											
OSGEP	55644	broad.mit.edu	37	chr14	20915437	20915437	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctacttcatctgtccgatAcctgtggaaaaacagaagaa	14	10	7	10	1	3	2	1	0	2	2	4	4	4	3	2	1	3	0	2	1	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:20915437A>G	uc001vxf.2	-	11	1326	c.970T>C	c.(970-972)TAT>CAT	p.Y324H		NM_017807	NP_060277	Q9NPF4	OSGEP_HUMAN	O-sialoglycoprotein endopeptidase	324					proteolysis|tRNA processing		metal ion binding|metalloendopeptidase activity|protein binding				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0231)|READ - Rectum adenocarcinoma(17;0.196)		TCTGTCCGATACCTGTGGAAA	0.473													68	225					0	0	1	0	0		G	20915437	G	G	20915437	3	3	153	1	0	0	0	0	1	0	0	0	11306	405	14	3	41	3	OSGEP	14	20915437	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	471719	20915437	86434103	1145	83077											
RNASE4	6038	broad.mit.edu	37	chr14	21167799	21167799	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatctgcagcaccaccaataTccaatgcaagaacggcaaga	16	6	7	12	1	1	2	0	0	1	2	2	2	2	2	3	1	4	4	3	1	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:21167799T>C	uc001vxy.3	+	2	832	c.269T>C	c.(268-270)ATC>ACC	p.I90T	RNASE4_uc001vxx.3_RNA|RNASE4_uc001vya.2_Missense_Mutation_p.I90T	NM_002937	NP_002928	P34096	RNAS4_HUMAN	ribonuclease, RNase A family, 4 precursor	90					mRNA cleavage	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			central_nervous_system(1)	1	all_cancers(95;0.00304)		Epithelial(56;5.13e-07)|all cancers(55;4.73e-06)	GBM - Glioblastoma multiforme(265;0.0133)		ACCACCAATATCCAATGCAAG	0.478													45	157					0	0	1	0	0		C	21167799	C	C	21167799	3	2	153	1	0	0	0	0	1	0	0	0	13431	1435	50	3	271	3	RNASE4	14	21167799	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	252362	21167799	86181741	1146	83078											
CHD8	57680	broad.mit.edu	37	chr14	21862288	21862288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgccgaagcaattctataCggtagagagtccgtgaggct	11	8	13	9	4	1	2	0	1	1	1	2	4	2	2	2	2	3	3	2	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:21862288C>T	uc001was.1	-	32	4923	c.4829G>A	c.(4828-4830)CGT>CAT	p.R1610H	CHD8_uc001war.1_Missense_Mutation_p.R1506H|SNORD9_uc001wat.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1889					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CAATTCTATACGGTAGAGAGT	0.512													19	47					0	0	1	0	0		T	21862288	T	T	21862288	3	4	153	1	0	0	0	0	1	0	0	0	3334	536	19	1	2107	1	CHD8	14	21862288	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	694489	21862288	85487252	1147	83079											
CHD8	57680	broad.mit.edu	37	chr14	21868764	21868764	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataaaatatctcgccatcGtccccaactaaaaaacagaa	19	7	4	11	2	1	2	0	0	1	2	4	2	2	2	3	0	2	0	3	0	8	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:21868764G>A	uc001was.1	-	23	3635	c.3541C>T	c.(3541-3543)CGA>TGA	p.R1181*	CHD8_uc001war.1_Nonsense_Mutation_p.R1077*|CHD8_uc001wav.1_Nonsense_Mutation_p.R623*	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1460					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TCTCGCCATCGTCCCCAACTA	0.418													18	34					0	0	1	0	0		A	21868764	A	A	21868764	4	1	153	1	0	0	0	0	0	1	0	0	3334	1153	40	1	3431	1	CHD8	14	21868764	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6476	21868764	85480776	1148	83080											
CHD8	57680	broad.mit.edu	37	chr14	21896123	21896123	+	Silent	SNP	G	A	A	0	0	1	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	tccccagcactcttcttcctGcgtttcttctcgccttcctc	2	16	4	19	2	4	0	0	0	4	0	9	0	7	0	5	0	2	2	5	0	0	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:21896123G>A	uc001was.1	-	4	763	c.669C>T	c.(667-669)CGC>CGT	p.R223R	CHD8_uc001war.1_Silent_p.R119R	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	502					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TCTTCTTCCTGCGTTTCTTCT	0.542													25	92					0	0	1	0	0		A	21896123	A	A	21896123	2	1	153	1	0	0	0	0	0	0	0	1	3334	1306	46	2		2	CHD8	14	21896123	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	27359	21896123	85453417	1149	83081											
MYH7	4625	broad.mit.edu	37	chr14	23885266	23885266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcctcggcggccatgcGgttggcgtggctgagctgga	3	8	19	11	4	0	1	0	1	0	0	1	2	0	2	2	7	2	3	2	7	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:23885266G>A	uc001wjx.2	-	34	5006	c.4900C>T	c.(4900-4902)CGC>TGC	p.R1634C		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1634	Potential.		R -> C (in CMD1S).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		GCGGCCATGCGGTTGGCGTGG	0.612													20	53					0	0	1	0	0		A	23885266	A	A	23885266	3	1	153	1	0	0	0	0	1	0	0	0	10057	1116	39	1	935	1	MYH7	14	23885266	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1989143	23885266	83464274	1150	83082											
JPH4	84502	broad.mit.edu	37	chr14	24040254	24040254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcgatgggctcaggctcCgtgcctgctggggccctcag	4	8	16	13	2	2	0	2	0	0	0	3	1	3	0	3	5	2	3	3	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:24040254C>T	uc001wkq.2	-	6	2604	c.1686G>A	c.(1684-1686)ACG>ACA	p.T562T	AP1G2_uc001wkl.2_5'Flank|AP1G2_uc001wkn.2_5'Flank|AP1G2_uc010tnp.1_5'Flank|AP1G2_uc010akt.2_5'Flank|JPH4_uc010tnr.1_Silent_p.T227T|JPH4_uc001wkr.2_Silent_p.T562T	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	562	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		GCTCAGGCTCCGTGCCTGCTG	0.682													15	48					0	0	1	0	0		T	24040254	T	T	24040254	2	4	153	1	0	0	0	0	0	0	0	1	7979	639	23	1		1	JPH4	14	24040254	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	154988	24040254	83309286	1151	83083											
PCK2	5106	broad.mit.edu	37	chr14	24572402	24572402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacgaggccttcaactggcGtcatggggtgtttgtgggca	7	11	15	8	2	2	0	2	0	0	0	2	1	2	0	1	5	2	2	1	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:24572402G>A	uc001wlt.2	+	9	1538	c.1406G>A	c.(1405-1407)CGT>CAT	p.R469H	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Missense_Mutation_p.R481H|PCK2_uc010tnw.1_Missense_Mutation_p.R335H|PCK2_uc010tnx.1_Missense_Mutation_p.R335H|PCK2_uc001wlu.3_Intron	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	469					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		TTCAACTGGCGTCATGGGGTG	0.567													12	39					0	0	1	0	0		A	24572402	A	A	24572402	3	1	153	1	0	0	0	0	1	0	0	0	11601	1145	40	1	1532	1	PCK2	14	24572402	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	532148	24572402	82777138	1152	83084											
RNF31	55072	broad.mit.edu	37	chr14	24617593	24617593	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacactggaagtactgctgCttcggacagagctcagcctg	9	9	11	12	1	2	1	2	0	0	1	3	3	2	3	1	2	5	4	1	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:24617593C>A	uc001wmn.1	+	3	715	c.466C>A	c.(466-468)CTT>ATT	p.L156I	PSME2_uc001wmj.2_5'Flank|PSME2_uc001wmk.2_5'Flank|RNF31_uc001wml.1_5'UTR|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_5'UTR|RNF31_uc001wmo.1_5'Flank|RNF31_uc001wmp.2_5'Flank	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	156	Polyubiquitin-binding.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		AGTACTGCTGCTTCGGACAGA	0.552													13	46					0.00136819	0.00139318	1	1	0		A	24617593	A	A	24617593	3	1	153	1	0	0	0	0	1	0	0	0	13512	797	28	5	476	5	RNF31	14	24617593	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	45191	24617593	82731947	1153	83085											
RIPK3	11035	broad.mit.edu	37	chr14	24806443	24806443	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttgtggaacctgctcctctTgtgccctgctcctcttggta	3	15	9	14	0	2	0	0	0	2	0	4	1	4	1	4	2	4	3	4	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:24806443T>C	uc001wpb.2	-	8	1334	c.1124A>G	c.(1123-1125)CAA>CGA	p.Q375R	ADCY4_uc001wov.2_5'Flank|ADCY4_uc001wow.2_5'Flank|ADCY4_uc010toh.1_5'Flank|ADCY4_uc001wox.2_5'Flank|ADCY4_uc001woy.2_5'Flank|ADCY4_uc001woz.3_5'Flank|RIPK3_uc001wpa.2_Missense_Mutation_p.Q175R|RIPK3_uc010alq.2_RNA|RIPK3_uc010toi.1_Missense_Mutation_p.Q154R	NM_006871	NP_006862	Q9Y572	RIPK3_HUMAN	receptor-interacting serine-threonine kinase 3	375					apoptosis|induction of apoptosis by extracellular signals	cytoplasm	ATP binding|protein binding|transcription coactivator activity			central_nervous_system(2)|ovary(1)|lung(1)	4				GBM - Glioblastoma multiforme(265;0.0181)		CTGCTCCTCTTGTGCCCTGCT	0.517													41	146					0	0	1	0	0		C	24806443	C	C	24806443	3	2	153	1	0	0	0	0	1	0	0	0	13407	1812	63	3	444	3	RIPK3	14	24806443	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	188850	24806443	82543097	1154	83086											
COCH	1690	broad.mit.edu	37	chr14	31348147	31348147	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctgcttctttcacagtaActagtaggtataattattgt	10	17	8	6	0	3	0	1	0	2	0	3	0	3	0	0	2	2	4	0	2	6	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:31348147A>G	uc001wqr.2	+	5	450	c.370A>G	c.(370-372)ACT>GCT	p.T124A	COCH_uc001wqp.2_Missense_Mutation_p.T124A|COCH_uc001wqq.3_Missense_Mutation_p.T124A|uc001wqs.2_Intron|COCH_uc001wqt.1_5'Flank	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	124					sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		TTTCACAGTAACTAGTAGGTA	0.403													39	203					0	0	1	0	0		G	31348147	G	G	31348147	3	3	153	1	0	0	0	0	1	0	0	0	3659	43	2	3	384	3	COCH	14	31348147	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	6541704	31348147	76001393	1155	83087											
NIN	51199	broad.mit.edu	37	chr14	51225270	51225270	+	Silent	SNP	A	G	G	1	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	agagcgctttcacacctctcAgtgactttctgacaatcaga	11	11	7	12	1	4	4	3	2	2	2	5	4	4	4	1	0	1	1	1	0	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:51225270A>G	uc001wym.2	-	18	2669	c.2478T>C	c.(2476-2478)ACT>ACC	p.T826T	NIN_uc001wyi.2_Silent_p.T826T|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Silent_p.T832T|NIN_uc001wyo.2_Silent_p.T826T	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	826	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					CACACCTCTCAGTGACTTTCT	0.478			T	PDGFRB	MPD								25	115					0	0	1	0	0		G	51225270	G	G	51225270	2	3	153	1	0	0	0	0	0	0	0	1	10436	175	7	3		3	NIN	14	51225270	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	19877123	51225270	56124270	1156	83088											
WDHD1	11169	broad.mit.edu	37	chr14	55411081	55411081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagttgacaatactctaaatCgaatcattccttcttttatt	12	17	3	9	1	3	1	1	1	2	0	5	2	4	1	1	0	1	1	1	0	6	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:55411081C>T	uc001xbm.1	-	25	3236	c.3158G>A	c.(3157-3159)CGA>CAA	p.R1053Q	WDHD1_uc010aom.1_Missense_Mutation_p.R570Q|WDHD1_uc001xbn.1_Missense_Mutation_p.R930Q	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	1053	HMG box.					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						TACTCTAAATCGAATCATTCC	0.333													33	119					0	0	1	0	0		T	55411081	T	T	55411081	3	4	153	1	0	0	0	0	1	0	0	0	17297	884	31	1	239	1	WDHD1	14	55411081	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4185811	55411081	51938459	1157	83089											
SOCS4	122809	broad.mit.edu	37	chr14	55510977	55510977	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtacaacttatgatggcatCgatgcccttccaattccttc	9	14	6	12	1	0	1	0	1	0	0	4	2	2	1	3	1	3	2	3	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:55510977C>T	uc001xbo.2	+	3	1783	c.1218C>T	c.(1216-1218)ATC>ATT	p.I406I	SOCS4_uc001xbp.2_Silent_p.I406I	NM_199421	NP_955453	Q8WXH5	SOCS4_HUMAN	suppressor of cytokine signaling 4	406	SOCS box.				intracellular signal transduction|negative regulation of signal transduction|regulation of growth					ovary(1)|kidney(1)	2						ATGATGGCATCGATGCCCTTC	0.368													38	124					0	0	1	0	0		T	55510977	T	T	55510977	2	4	153	1	0	0	0	0	0	0	0	1	14941	874	31	1		1	SOCS4	14	55510977	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	99896	55510977	51838563	1158	83090											
FBXO34	55030	broad.mit.edu	37	chr14	55818441	55818441	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttgtgtcccttactagcCgaaatcctgatcaaagaaaa	14	10	7	10	1	1	2	1	1	0	1	3	3	3	2	3	0	3	1	3	0	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:55818441C>T	uc001xbu.2	+	2	1578	c.1333C>T	c.(1333-1335)CGA>TGA	p.R445*	FBXO34_uc001xbv.2_RNA|FBXO34_uc010aoo.2_Nonsense_Mutation_p.R445*	NM_017943	NP_060413	Q9NWN3	FBX34_HUMAN	F-box only protein 34	445										ovary(2)|lung(2)|skin(1)	5						CCTTACTAGCCGAAATCCTGA	0.438													68	217					0	0	1	0	0		T	55818441	T	T	55818441	4	4	153	1	0	0	0	0	0	1	0	0	5758	644	23	1	1335	1	FBXO34	14	55818441	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	307464	55818441	51531099	1159	83091											
KIAA0831	22863	broad.mit.edu	37	chr14	55836623	55836623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggactcctcaaggtctgctCgtacttcaaagggccctgac	8	10	10	13	1	3	1	2	1	1	0	5	2	4	2	2	3	2	2	2	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:55836623C>T	uc001xbx.1	-	10	1229	c.1193G>A	c.(1192-1194)CGA>CAA	p.R398Q	FBXO34_uc001xbv.2_Intron|KIAA0831_uc001xbw.1_Missense_Mutation_p.R285Q	NM_014924	NP_055739	Q6ZNE5	BAKOR_HUMAN	Barkor	398					autophagic vacuole assembly|positive regulation of autophagy	autophagic vacuole|endoplasmic reticulum|pre-autophagosomal structure membrane	protein binding				0						AAGGTCTGCTCGTACTTCAAA	0.507													9	94					0	0	1	0	0		T	55836623	T	T	55836623	3	4	153	1	0	0	0	0	1	0	0	0	8211	884	31	1	289	1	KIAA0831	14	55836623	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	18182	55836623	51512917	1160	83092											
C14orf101	54916	broad.mit.edu	37	chr14	57052563	57052563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggttcaattgcctacCgcgtcaatcttctctgtggc	5	16	8	12	2	4	0	2	0	2	0	5	0	4	0	2	2	2	1	2	2	3	6	rs144727961	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:57052563C>T	uc001xcm.2	+	3	399	c.277C>T	c.(277-279)CGC>TGC	p.R93C	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xck.2_Missense_Mutation_p.R93C|C14orf101_uc010aot.1_Missense_Mutation_p.R93C|C14orf101_uc001xcl.1_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_5'UTR	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	93						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		AATTGCCTACCGCGTCAATCT	0.403													60	231					0	0	1	0	0		T	57052563	T	T	57052563	3	4	153	1	0	0	0	0	1	0	0	0	1737	652	23	1	287	1	C14orf101	14	57052563	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1215940	57052563	50296977	1161	83093											
EXOC5	10640	broad.mit.edu	37	chr14	57714400	57714400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggttctccatacaagacGttcaatatattcatctgcca	11	13	7	10	1	4	1	2	0	2	1	5	1	4	1	2	2	2	2	2	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:57714400G>A	uc001xct.2	-	2	309	c.58C>T	c.(58-60)CGT>TGT	p.R20C	EXOC5_uc010trg.1_Translation_Start_Site|EXOC5_uc010trh.1_Missense_Mutation_p.R20C	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	20					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						CATACAAGACGTTCAATATAT	0.328													3	3					0	0	1	0	0		A	57714400	A	A	57714400	3	1	153	1	0	0	0	0	1	0	0	0	5315	1145	40	1	2136	1	EXOC5	14	57714400	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	661837	57714400	49635140	1162	83094											
C14orf50	145376	broad.mit.edu	37	chr14	65054921	65054921	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcagagaaaaagctcaaaaCgtctttgagaaaaagtatca	19	8	7	7	1	4	2	3	1	1	2	4	4	4	2	0	0	2	2	0	0	7	2	rs142941569	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:65054921C>T	uc001xhl.1	+	11	1086	c.990C>T	c.(988-990)AAC>AAT	p.N330N	C14orf50_uc001xhm.1_Silent_p.N60N	NM_172365	NP_758953	Q96LQ0	CN050_HUMAN	hypothetical protein LOC145376	330										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00382)|all cancers(60;0.00427)|BRCA - Breast invasive adenocarcinoma(234;0.0488)		AAGCTCAAAACGTCTTTGAGA	0.463													42	125					0	0	1	0	0		T	65054921	T	T	65054921	2	4	153	1	0	0	0	0	0	0	0	1	1780	535	19	1		1	C14orf50	14	65054921	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7340521	65054921	42294619	1163	83095											
PLEKHG3	26030	broad.mit.edu	37	chr14	65208796	65208796	+	Missense_Mutation	SNP	T	C	C	0	1	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	catcctggaggagcatgagcTgggagccatcacagaggagt	11	6	15	9	0	1	2	1	1	0	1	2	6	2	6	2	4	3	2	2	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:65208796T>C	uc001xho.1	+	16	2830	c.2561T>C	c.(2560-2562)CTG>CCG	p.L854P	PLEKHG3_uc001xhn.1_Missense_Mutation_p.L798P|PLEKHG3_uc001xhp.2_Missense_Mutation_p.L975P|PLEKHG3_uc010aqh.1_Missense_Mutation_p.L396P|PLEKHG3_uc001xhq.1_Missense_Mutation_p.L359P	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	854					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GAGCATGAGCTGGGAGCCATC	0.662													8	43					0	0	1	0	0		C	65208796	C	C	65208796	3	2	153	1	0	0	0	0	1	0	0	0	12089	1580	55	3	2443	3	PLEKHG3	14	65208796	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	153875	65208796	42140744	1164	83096											
FNTB	2342	broad.mit.edu	37	chr14	65520041	65520041	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtgctgccagtgccctgcGggggggcttctggataaacc	6	9	15	11	1	1	0	0	0	1	0	1	1	1	1	3	4	5	2	3	4	2	2	rs149471226		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:65520041G>A	uc001xia.2	+	10	1206	c.1041G>A	c.(1039-1041)GCG>GCA	p.A347A	FNTB_uc010tsl.1_Silent_p.A381A|FNTB_uc010tsm.1_Silent_p.A301A|MAX_uc001xic.1_Intron|FNTB_uc001xid.2_Silent_p.A103A|FNTB_uc010tso.1_Silent_p.A262A	NM_002028	NP_002019	P49356	FNTB_HUMAN	farnesyltransferase, CAAX box, beta	347	PFTB 5.				protein farnesylation	microtubule associated complex	protein binding|protein farnesyltransferase activity			ovary(1)	1				all cancers(60;0.00115)|OV - Ovarian serous cystadenocarcinoma(108;0.00412)|BRCA - Breast invasive adenocarcinoma(234;0.011)		AGTGCCCTGCGGGGGGGCTTC	0.597													14	27					0	0	1	0	0		A	65520041	A	A	65520041	2	1	153	1	0	0	0	0	0	0	0	1	5992	1103	39	1		1	FNTB	14	65520041	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	311245	65520041	41829499	1165	83097											
RDH11	51109	broad.mit.edu	37	chr14	68151878	68151878	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgccgaaccagttcagaTtggactgtgccagggtgtac	9	9	14	9	1	1	1	1	0	0	1	1	4	1	2	3	2	4	2	3	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:68151878T>C	uc001xjv.3	-	6	798	c.708A>G	c.(706-708)CAA>CAG	p.Q236Q	RDH11_uc001xjw.3_Silent_p.Q223Q|RDH11_uc001xjx.3_Silent_p.Q166Q	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	236	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	CCAGTTCAGATTGGACTGTGC	0.517													19	71					0	0	1	0	0		C	68151878	C	C	68151878	2	2	153	1	0	0	0	0	0	0	0	1	13215	1490	52	3		3	RDH11	14	68151878	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2631837	68151878	39197662	1166	83098											
MAP3K9	4293	broad.mit.edu	37	chr14	71200020	71200020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggctgggtgaatgctgtaggCgactctctccactccctggg	5	10	14	12	1	1	1	0	1	1	0	4	2	3	1	2	4	1	3	2	4	2	1	rs147124893		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:71200020C>T	uc001xmm.2	-	11	2066	c.2066G>A	c.(2065-2067)CGC>CAC	p.R689H	MAP3K9_uc010ttk.1_Missense_Mutation_p.R417H|MAP3K9_uc001xmk.2_Missense_Mutation_p.R422H|MAP3K9_uc001xml.2_Missense_Mutation_p.R703H	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	689					activation of JUN kinase activity|protein autophosphorylation		ATP binding|JUN kinase kinase kinase activity|MAP kinase kinase activity|protein homodimerization activity			stomach(2)|lung(1)|central_nervous_system(1)|skin(1)	5				all cancers(60;0.00779)|BRCA - Breast invasive adenocarcinoma(234;0.00884)|OV - Ovarian serous cystadenocarcinoma(108;0.08)		atgctgtaggcgactctctcc	0.299													9	36					0	0	1	0	0		T	71200020	T	T	71200020	3	4	153	1	0	0	0	0	1	0	0	0	9275	768	27	1	1256	1	MAP3K9	14	71200020	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3048142	71200020	36149520	1167	83099											
RBM25	58517	broad.mit.edu	37	chr14	73554751	73554751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccagaatctaccctccGtgcactcagattattacatg	11	10	8	12	1	2	2	1	0	1	2	3	3	3	3	3	1	4	1	3	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:73554751G>A	uc001xno.2	+	6	633	c.425G>A	c.(424-426)CGT>CAT	p.R142H	RBM25_uc001xnn.3_Missense_Mutation_p.R142H|RBM25_uc010ttu.1_Missense_Mutation_p.R142H|RBM25_uc001xnp.2_Translation_Start_Site	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	142	RRM.				apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		TCTACCCTCCGTGCACTCAGA	0.388													22	110					0	0	1	0	0		A	73554751	A	A	73554751	3	1	153	1	0	0	0	0	1	0	0	0	13150	1145	40	1	443	1	RBM25	14	73554751	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2354731	73554751	33794789	1168	83100											
C14orf45	80127	broad.mit.edu	37	chr14	74514756	74514756	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaagttgcaagagagtcaTactttacttttacatcaaaa	16	12	6	7	0	2	2	2	0	0	2	2	3	2	2	0	0	4	2	0	0	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:74514756T>C	uc010tup.1	+	7	894	c.771T>C	c.(769-771)CAT>CAC	p.H257H	C14orf45_uc001xpm.1_RNA	NM_025057	NP_079333	Q8ND07	CN045_HUMAN	hypothetical protein LOC80127	257											0				BRCA - Breast invasive adenocarcinoma(234;0.00351)		AAGAGAGTCATACTTTACTTT	0.348													10	70					0	0	1	0	0		C	74514756	C	C	74514756	2	2	153	1	0	0	0	0	0	0	0	1	1778	1403	49	3		3	C14orf45	14	74514756	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	960005	74514756	32834784	1169	83101											
LTBP2	4053	broad.mit.edu	37	chr14	74995349	74995349	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatggacaggcggatgtcGgagctcgcgtaggtgtagcc	7	8	16	10	4	1	0	1	0	0	0	3	3	1	3	1	5	2	3	1	5	2	2	rs144915925		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:74995349G>A	uc001xqa.2	-	12	2592	c.2205C>T	c.(2203-2205)TCC>TCT	p.S735S		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	735					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding	p.S735S(1)		liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GGCGGATGTCGGAGCTCGCGT	0.642													19	30					0	0	1	0	0		A	74995349	A	A	74995349	2	1	153	1	0	0	0	0	0	0	0	1	9092	1103	39	1		1	LTBP2	14	74995349	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	480593	74995349	32354191	1170	83102											
YLPM1	56252	broad.mit.edu	37	chr14	75265268	75265268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgaggcctggaagcagtCgggagaaagtgccaggtggt	9	7	19	6	1	0	2	0	1	0	1	1	4	0	3	2	6	2	1	2	6	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:75265268C>T	uc001xqj.3	+	5	3392	c.3268C>T	c.(3268-3270)CGG>TGG	p.R1090W	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	895	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TGGAAGCAGTCGGGAGAAAGT	0.587													23	65					0	0	1	0	0		T	75265268	T	T	75265268	3	4	153	1	0	0	0	0	1	0	0	0	17512	875	31	1	3286	1	YLPM1	14	75265268	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	269919	75265268	32084272	1171	83103											
TMED10	10972	broad.mit.edu	37	chr14	75643173	75643173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcacttgcgagagttaatgGgcagatggaaggagatggca	12	7	17	5	1	0	3	0	0	0	3	0	6	0	4	0	5	1	4	0	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:75643173G>A	uc001xrm.1	-	1	177	c.110C>T	c.(109-111)CCC>CTC	p.P37L	TMED10_uc010ash.1_RNA	NM_006827	NP_006818	P49755	TMEDA_HUMAN	transmembrane emp24 domain-containing protein 10	37	Lumenal (Potential).				protein transport|regulated secretory pathway|vesicle targeting, to, from or within Golgi	cis-Golgi network|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|melanosome|microsome|zymogen granule membrane	protein binding				0				BRCA - Breast invasive adenocarcinoma(234;0.0126)		AGAGTTAATGGGCAGATGGAA	0.612													15	63					0	0	1	0	0		A	75643173	A	A	75643173	3	1	153	1	0	0	0	0	1	0	0	0	16028	1232	43	4	569	4	TMED10	14	75643173	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	377905	75643173	31706367	1172	83104											
NRXN3	9369	broad.mit.edu	37	chr14	80328296	80328296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaaacaaggacagggagTattacgtgtaaacatgcgaa	19	6	11	5	2	0	1	0	0	0	1	0	4	0	3	0	2	4	2	0	2	8	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:80328296T>C	uc001xun.2	+	17	3666	c.3175T>C	c.(3175-3177)TAT>CAT	p.Y1059H	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.Y635H|NRXN3_uc010asw.2_Missense_Mutation_p.Y457H|NRXN3_uc001xur.3_Missense_Mutation_p.Y430H	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1641	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GGACAGGGAGTATTACGTGTA	0.493													7	23					0	0	1	0	0		C	80328296	C	C	80328296	3	2	153	1	0	0	0	0	1	0	0	0	10686	1638	57	3	3587	3	NRXN3	14	80328296	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	4685123	80328296	27021244	1173	83105											
TSHR	7253	broad.mit.edu	37	chr14	81610228	81610228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagatctacatcacagtccGaaatccgcagtacaacccag	15	6	7	13	2	2	1	1	0	1	1	4	3	4	1	3	0	3	2	3	0	5	2	rs139352934	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:81610228G>A	uc001xvd.1	+	10	1982	c.1826G>A	c.(1825-1827)CGA>CAA	p.R609Q		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	609	Cytoplasmic (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	ATCACAGTCCGAAATCCGCAG	0.463			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						86	334					0	0	1	0	0		A	81610228	A	A	81610228	3	1	153	1	0	0	0	0	1	0	0	0	16648	1058	37	1	2001	1	TSHR	14	81610228	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1281932	81610228	25739312	1174	83106											
FLRT2	23768	broad.mit.edu	37	chr14	86088134	86088134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgtacagtcggtgcacacGgtctacctgtatggcaacca	11	9	10	11	2	1	0	0	0	1	0	2	0	1	0	2	3	4	4	2	3	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:86088134G>A	uc001xvr.2	+	2	1043	c.276G>A	c.(274-276)ACG>ACA	p.T92T	FLRT2_uc010atd.2_Silent_p.T92T	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	92	Extracellular (Potential).|LRR 2.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CGGTGCACACGGTCTACCTGT	0.463													50	163					0	0	1	0	0		A	86088134	A	A	86088134	2	1	153	1	0	0	0	0	0	0	0	1	5953	1103	39	1		1	FLRT2	14	86088134	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4477906	86088134	21261406	1175	83107											
KCNK10	54207	broad.mit.edu	37	chr14	88652183	88652183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgatgttgtcctcggacGcaccctgcccatgcttgttc	5	13	10	13	2	0	2	0	2	0	0	3	3	1	3	3	1	2	4	3	1	0	3	rs61738734	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:88652183G>A	uc001xwo.2	-	7	1770	c.1313C>T	c.(1312-1314)GCG>GTG	p.A438V	KCNK10_uc001xwm.2_Missense_Mutation_p.A443V|KCNK10_uc001xwn.2_Missense_Mutation_p.A443V	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	438	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						GTCCTCGGACGCACCCTGCCC	0.572													35	114					0	0	1	0	0		A	88652183	A	A	88652183	3	1	153	1	0	0	0	0	1	0	0	0	8075	1087	38	1	307	1	KCNK10	14	88652183	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2564049	88652183	18697357	1176	83108											
PTPN21	11099	broad.mit.edu	37	chr14	88945665	88945665	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	gctgtggattagcatggtggCgtccgacagggacttcttat	7	12	14	8	2	1	0	0	0	1	0	2	3	2	2	1	4	1	2	1	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:88945665C>A	uc001xwv.3	-	13	2441	c.2110G>T	c.(2110-2112)GCC>TCC	p.A704S	PTPN21_uc010twc.1_Missense_Mutation_p.A500S	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	704						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						AGCATGGTGGCGTCCGACAGG	0.682													8	46					5.16669e-11	5.43762e-11	1	1	0		A	88945665	A	A	88945665	3	1	153	1	0	0	0	0	1	0	0	0	12811	768	27	5	1442	5	PTPN21	14	88945665	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	293482	88945665	18403875	1177	83109											
TDP1	55775	broad.mit.edu	37	chr14	90429630	90429630	+	Missense_Mutation	SNP	A	G	G	1	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	cccagaaagctgcacacaagAggaaaatatcacctgtgaaa	18	5	8	10	0	1	3	1	1	0	2	1	4	1	4	2	1	2	2	2	1	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:90429630A>G	uc001xxy.2	+	3	471	c.172A>G	c.(172-174)AGG>GGG	p.R58G	TDP1_uc010atm.2_RNA|TDP1_uc001xxz.2_Missense_Mutation_p.R58G|TDP1_uc010atn.2_Missense_Mutation_p.R58G|TDP1_uc001xya.2_5'UTR|TDP1_uc001xyb.2_RNA|TDP1_uc010ato.2_Missense_Mutation_p.R58G|TDP1_uc001xyc.1_Missense_Mutation_p.R58G	NM_018319	NP_060789	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1	58					cell death|double-strand break repair|single strand break repair	cytoplasm|nucleus	3'-tyrosyl-DNA phosphodiesterase activity|double-stranded DNA binding|exonuclease activity|protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		TGCACACAAGAGGAAAATATC	0.512								Repair_of_DNA-protein_crosslinks					40	119					0	0	1	0	0		G	90429630	G	G	90429630	3	3	153	1	0	0	0	0	1	0	0	0	15753	295	11	3	174	3	TDP1	14	90429630	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1483965	90429630	16919910	1178	83110											
DICER1	23405	broad.mit.edu	37	chr14	95583999	95583999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcttccatctgtttgttgCgaggctgattcttcccaatg	5	16	9	11	1	2	1	0	1	2	0	4	2	4	1	2	1	2	4	2	1	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:95583999C>T	uc001ydw.2	-	10	1651	c.1469G>A	c.(1468-1470)CGC>CAC	p.R490H	DICER1_uc001ydv.2_Missense_Mutation_p.R480H|DICER1_uc001ydx.2_Missense_Mutation_p.R490H	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	490	Helicase C-terminal.|Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		CTGTTTGTTGCGAGGCTGATT	0.383			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				44	146					0	0	1	0	0		T	95583999	T	T	95583999	3	4	153	1	0	0	0	0	1	0	0	0	4527	768	27	1	4375	1	DICER1	14	95583999	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5154369	95583999	11765541	1179	83111											
BCL11B	64919	broad.mit.edu	37	chr14	99723922	99723922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggacactttcctgagctCggagcgtgaggagggtggcg	6	8	17	10	4	0	2	0	2	0	0	3	5	1	5	1	5	2	1	1	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:99723922C>T	uc001yga.2	-	2	580	c.313G>A	c.(313-315)GAG>AAG	p.E105K	BCL11B_uc001ygb.2_Missense_Mutation_p.E105K	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	105						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		TTCCTGAGCTCGGAGCGTGAG	0.592			T	TLX3	T-ALL								23	77					0	0	1	0	0		T	99723922	T	T	99723922	3	4	153	1	0	0	0	0	1	0	0	0	1365	893	31	1	2383	1	BCL11B	14	99723922	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4139923	99723922	7625618	1180	83112											
DIO3	1735	broad.mit.edu	37	chr14	102028223	102028223	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gatttcttcaagcaggcgcaCgagggcggtccggcgcccaa	8	6	14	13	5	2	0	1	0	1	0	3	2	3	0	2	4	1	2	2	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:102028223C>T	uc010txq.1	+	1	536	c.312C>T	c.(310-312)CAC>CAT	p.H104H	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	104	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				AGCAGGCGCACGAGGGCGGTC	0.657													9	64					0	0	1	0	0		T	102028223	T	T	102028223	2	4	153	1	0	0	0	0	0	0	0	1	4532	535	19	1		1	DIO3	14	102028223	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2304301	102028223	5321317	1181	83113											
TECPR2	9895	broad.mit.edu	37	chr14	102910059	102910059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcccagatcacagcccGgaacaatgtggtgtgggcgc	8	7	14	12	2	1	1	1	0	0	1	2	2	2	2	2	3	2	1	2	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:102910059G>A	uc001ylw.1	+	12	2976	c.2828G>A	c.(2827-2829)CGG>CAG	p.R943Q	TECPR2_uc010awl.2_Missense_Mutation_p.R943Q|TECPR2_uc010txx.1_Missense_Mutation_p.R106Q	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	943							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						ATCACAGCCCGGAACAATGTG	0.617													7	43					0	0	1	0	0		A	102910059	A	A	102910059	3	1	153	1	0	0	0	0	1	0	0	0	15769	1116	39	1	2870	1	TECPR2	14	102910059	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	881836	102910059	4439481	1182	83114											
C14orf180	400258	broad.mit.edu	37	chr14	105054103	105054103	+	Frame_Shift_Del	DEL	C	-	-																															caggaggacaacaggaagtgCcccccctccatcctgaaacg																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:105054103delC	uc001yow.1	+	3	430	c.129delC	c.(127-129)TGCfs	p.C43fs	C14orf180_uc010tyh.1_Frame_Shift_Del_p.C43fs|C14orf180_uc010awy.1_Frame_Shift_Del_p.C43fs	NM_001008404	NP_001008404	Q8N912	CN180_HUMAN	hypothetical protein LOC400258	43						integral to membrane					0		Melanoma(154;0.226)	all cancers(16;0.00405)|OV - Ovarian serous cystadenocarcinoma(23;0.0319)|Epithelial(46;0.0784)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.127)		ACAGGAAGTGCCCCCCCTCCA	0.701													5	10	---	---	---	---						.	-	105054103	-	-	105054103	7	5	153	1	0	1	0	1	0	0	0	0	1766	747	26	0	135	0	C14orf180	14	105054103	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	2144044	105054103	2295437	1183	83115											
INF2	64423	broad.mit.edu	37	chr14	105174185	105174185	+	Frame_Shift_Del	DEL	C	-	-																															ctactgccctgcacctgcagCccccccgtggcgggaggcat																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr14:105174185delC	uc001ypb.2	+	8	1724	c.1581delC	c.(1579-1581)AGCfs	p.S527fs	INF2_uc010tyi.1_Frame_Shift_Del_p.S527fs|INF2_uc001ypc.2_Frame_Shift_Del_p.S527fs|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	527					actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		GCACCTGCAGCCCCCCCGTGG	0.562													10	17	---	---	---	---						.	-	105174185	-	-	105174185	7	5	153	1	0	1	0	1	0	0	0	0	7750	738	26	0	1611	0	INF2	14	105174185	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	120082	105174185	2175355	1184	83116											
NIPA2	81614	broad.mit.edu	37	chr15	23014510	23014510	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgcatacgcagcgaagttgGccacctcaccagctcccact	10	6	8	17	3	1	0	1	0	0	0	2	1	2	0	4	1	3	4	4	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:23014510G>C	uc001yux.2	-	6	828	c.215C>G	c.(214-216)GCC>GGC	p.A72G	NIPA2_uc001yuy.2_Missense_Mutation_p.A72G|NIPA2_uc001yuz.2_Missense_Mutation_p.A72G|NIPA2_uc001yva.2_Missense_Mutation_p.A53G|NIPA2_uc001yvb.2_Missense_Mutation_p.A72G|NIPA2_uc010ayb.2_Missense_Mutation_p.A53G	NM_030922	NP_112184	Q8N8Q9	NIPA2_HUMAN	non imprinted in Prader-Willi/Angelman syndrome	72	Helical; (Potential).					early endosome|integral to membrane|plasma membrane				haematopoietic_and_lymphoid_tissue(1)	1		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)		AGCGAAGTTGGCCACCTCACC	0.458													5	14					0	0	1	0	0		C	23014510	C	C	23014510	3	2	153	1	0	0	0	0	1	0	0	0	10442	1203	42	5	879	5	NIPA2	15	23014510	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		23014510	79516882	1185	83117											
MAGEL2	54551	broad.mit.edu	37	chr15	23890346	23890346	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaggtgggcactgcctgCgatgcctttgaggcattcat	8	10	14	9	1	1	1	1	1	0	0	1	3	1	2	2	4	3	2	2	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:23890346C>T	uc001ywj.3	-	1	830	c.735G>A	c.(733-735)TCG>TCA	p.S245S		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		GCACTGCCTGCGATGCCTTTG	0.612													19	78					0	0	1	0	0		T	23890346	T	T	23890346	2	4	153	1	0	0	0	0	0	0	0	1	9207	755	27	1		1	MAGEL2	15	23890346	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	875836	23890346	78641046	1186	83118											
HERC2	8924	broad.mit.edu	37	chr15	28408251	28408251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagactcacctgtgggtaggCggtccccatgccggaaagca	9	6	14	12	2	1	1	1	0	0	1	2	3	2	2	4	4	2	2	4	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:28408251C>T	uc001zbj.2	-	69	10841	c.10735G>A	c.(10735-10737)GCC>ACC	p.A3579T		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3579					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGTGGGTAGGCGGTCCCCATG	0.647													32	56					0	0	1	0	0		T	28408251	T	T	28408251	3	4	153	1	0	0	0	0	1	0	0	0	7074	768	27	1	3869	1	HERC2	15	28408251	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4517905	28408251	74123141	1187	83119											
TJP1	7082	broad.mit.edu	37	chr15	30011319	30011319	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcctcatcatttcctcGggatatggatcctttctata	7	17	6	11	1	4	0	2	0	2	0	7	2	6	2	3	2	1	0	3	2	3	6	rs45562135		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:30011319G>A	uc001zcr.2	-	21	3502	c.3027C>T	c.(3025-3027)CCC>CCT	p.P1009P	TJP1_uc010azl.2_Silent_p.P997P|TJP1_uc001zcq.2_Silent_p.P933P|TJP1_uc001zcs.2_Silent_p.P929P	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1009					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		TCATTTCCTCGGGATATGGAT	0.393													70	190					0	0	1	0	0		A	30011319	A	A	30011319	2	1	153	1	0	0	0	0	0	0	0	1	15954	1103	39	1		1	TJP1	15	30011319	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1603068	30011319	72520073	1188	83120											
RYR3	6263	broad.mit.edu	37	chr15	33831643	33831643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacctcatcctcgtcagcGtgtcctctgaaagatacctt	9	12	7	13	2	3	3	2	2	1	1	6	3	5	3	4	0	2	0	4	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:33831643G>A	uc001zhi.2	+	6	596	c.526G>A	c.(526-528)GTG>ATG	p.V176M	RYR3_uc010bar.2_Missense_Mutation_p.V176M	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	176	MIR 2.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCTCGTCAGCGTGTCCTCTGA	0.433													3	11					0	0	1	0	0		A	33831643	A	A	33831643	3	1	153	1	0	0	0	0	1	0	0	0	13795	1145	40	1	548	1	RYR3	15	33831643	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3820324	33831643	68699749	1189	83121											
RYR3	6263	broad.mit.edu	37	chr15	33988594	33988594	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcagccacacctctgtaagCgacaccatcaacctgctggc	11	7	7	16	1	3	0	2	0	1	0	3	1	3	0	4	1	4	2	4	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:33988594C>T	uc001zhi.2	+	39	6106	c.6036C>T	c.(6034-6036)AGC>AGT	p.S2012S	RYR3_uc010bar.2_Silent_p.S2012S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2012	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCTCTGTAAGCGACACCATCA	0.582													19	53					0	0	1	0	0		T	33988594	T	T	33988594	2	4	153	1	0	0	0	0	0	0	0	1	13795	767	27	1		1	RYR3	15	33988594	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	156951	33988594	68542798	1190	83122											
RYR3	6263	broad.mit.edu	37	chr15	34145782	34145782	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaagtatggagatctctaCggagcagaacgcattgctga	14	8	11	8	2	1	3	0	1	1	2	2	5	1	4	0	2	5	4	0	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:34145782C>T	uc001zhi.2	+	96	13768	c.13698C>T	c.(13696-13698)TAC>TAT	p.Y4566Y	RYR3_uc010bar.2_Silent_p.Y4561Y	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	4566					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAGATCTCTACGGAGCAGAAC	0.488													16	53					0	0	1	0	0		T	34145782	T	T	34145782	2	4	153	1	0	0	0	0	0	0	0	1	13795	547	19	1		1	RYR3	15	34145782	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	157188	34145782	68385610	1191	83123											
C15orf29	79768	broad.mit.edu	37	chr15	34445071	34445071	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actggagttaaccaaatatgTtcgactatcatggtgtaatt	13	14	8	6	1	1	0	1	0	0	0	2	2	1	1	1	2	1	3	1	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:34445071T>C	uc001zhp.2	-	4	518	c.358A>G	c.(358-360)ACA>GCA	p.T120A	C15orf29_uc010ubz.1_Missense_Mutation_p.T24A|C15orf29_uc010uca.1_Missense_Mutation_p.T120A	NM_024713	NP_078989	Q9H079	CO029_HUMAN	hypothetical protein LOC79768	120						nucleolus				ovary(1)	1		all_lung(180;1.86e-06)		all cancers(64;5.49e-18)|GBM - Glioblastoma multiforme(113;8.91e-07)|BRCA - Breast invasive adenocarcinoma(123;0.026)|Lung(196;0.229)		ACCAAATATGTTCGACTATCA	0.418													10	182					0	0	1	0	0		C	34445071	C	C	34445071	3	2	153	1	0	0	0	0	1	0	0	0	1792	1725	60	3	584	3	C15orf29	15	34445071	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	299289	34445071	68086321	1192	83124											
SLC12A6	9990	broad.mit.edu	37	chr15	34531353	34531353	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctctgcctccattaggtgCtttatggtctgaaagagaca	9	14	9	9	0	2	2	0	1	2	1	4	3	3	2	2	2	2	1	2	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:34531353C>T	uc001zhw.2	-	19	2609	c.2445G>A	c.(2443-2445)AAG>AAA	p.K815K	SLC12A6_uc001zhv.2_Silent_p.K764K|SLC12A6_uc001zhx.2_Silent_p.K800K|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Silent_p.K756K|SLC12A6_uc001zib.2_Silent_p.K806K|SLC12A6_uc001zic.2_Silent_p.K815K|SLC12A6_uc010bau.2_Silent_p.K815K|SLC12A6_uc001zid.2_Silent_p.K756K|SLC12A6_uc001zht.2_RNA|SLC12A6_uc001zhu.2_Silent_p.K627K	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	815					angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CCATTAGGTGCTTTATGGTCT	0.493													46	178					0	0	1	0	0		T	34531353	T	T	34531353	2	4	153	1	0	0	0	0	0	0	0	1	14412	796	28	2		2	SLC12A6	15	34531353	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	86282	34531353	68000039	1193	83125											
MEIS2	4212	broad.mit.edu	37	chr15	37187361	37187361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccaacctacctgcaggccGgatccccatgtgttgctgac	8	8	10	15	1	0	1	0	1	0	0	1	2	1	2	6	2	5	3	6	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:37187361G>A	uc001zjr.2	-	11	2175	c.1138C>T	c.(1138-1140)CGG>TGG	p.R380W	MEIS2_uc001zjl.2_Missense_Mutation_p.R367W|MEIS2_uc010ucj.1_Missense_Mutation_p.R360W|MEIS2_uc001zjm.2_Missense_Mutation_p.R285W|MEIS2_uc001zjn.2_Missense_Mutation_p.R234W|MEIS2_uc001zjo.2_Missense_Mutation_p.R380W|MEIS2_uc001zjp.2_Missense_Mutation_p.R373W|MEIS2_uc001zjs.2_Missense_Mutation_p.R373W|MEIS2_uc001zju.2_Missense_Mutation_p.R360W|MEIS2_uc001zjt.2_Missense_Mutation_p.R373W|MEIS2_uc001zjj.2_Missense_Mutation_p.R76W|MEIS2_uc001zjk.2_Missense_Mutation_p.R69W	NM_170675	NP_733775	O14770	MEIS2_HUMAN	Meis homeobox 2 isoform c	380					negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)	2		all_epithelial(112;9.77e-14)|Lung NSC(122;1.42e-09)|all_lung(180;2.2e-08)|Ovarian(310;0.134)|Melanoma(134;0.155)		all cancers(64;9.33e-21)|GBM - Glioblastoma multiforme(113;1.71e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0288)		CCTGCAGGCCGGATCCCCATG	0.567													18	60					0	0	1	0	0		A	37187361	A	A	37187361	3	1	153	1	0	0	0	0	1	0	0	0	9486	1115	39	1	366	1	MEIS2	15	37187361	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2656008	37187361	65344031	1194	83126											
THBS1	7057	broad.mit.edu	37	chr15	39875834	39875834	+	Missense_Mutation	SNP	T	C	C	0	1	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	acagggggtgctgcagaatgTgaggtttgtctttggaacca	9	11	15	6	0	1	2	0	1	1	1	1	3	1	3	1	4	3	3	1	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:39875834T>C	uc001zkh.2	+	4	823	c.644T>C	c.(643-645)GTG>GCG	p.V215A		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	215	TSP N-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CTGCAGAATGTGAGGTTTGTC	0.527											OREG0023051	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	103					0	0	1	0	0		C	39875834	C	C	39875834	3	2	153	1	0	0	0	0	1	0	0	0	15878	1696	59	3	654	3	THBS1	15	39875834	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2688473	39875834	62655558	1195	83127											
FSIP1	161835	broad.mit.edu	37	chr15	40018788	40018788	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtctatgggttcttcaaatAcctgattattccgattttca	10	17	6	8	1	4	1	2	1	2	0	5	2	5	1	2	1	1	1	2	1	4	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:40018788A>G	uc001zki.2	-	9	1268	c.1050_splice	c.e9+1	p.Q350_splice		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1											ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		TTCTTCAAATACCTGATTATT	0.373													10	81					0	0	1	0	0		G	40018788	G	G	40018788	5	3	153	1	0	0	0	0	0	0	1	0	6088	405	14	3	709	3	FSIP1	15	40018788	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08	142954	40018788	62512604	1196	83128											
C15orf23	90417	broad.mit.edu	37	chr15	40683717	40683717	+	Missense_Mutation	SNP	T	G	G	0	1	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	taggcagtgagaccctggcaTcacgacaagaatccactact	13	7	9	12	1	1	2	1	1	0	2	2	4	2	2	2	2	1	2	2	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:40683717T>G	uc001zll.2	+	7	824	c.709T>G	c.(709-711)TCA>GCA	p.S237A	C15orf23_uc010ucp.1_Missense_Mutation_p.S237A|C15orf23_uc001zlo.2_Intron|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	237						nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		GACCCTGGCATCACGACAAGA	0.473													24	81					0	0	1	0	0		G	40683717	G	G	40683717	3	3	153	1	0	0	0	0	1	0	0	0	1788	1435	50	5	735	5	C15orf23	15	40683717	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	664929	40683717	61847675	1197	83129											
CHAC1	79094	broad.mit.edu	37	chr15	41247781	41247781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggccctgcgcctgaagagGccattgccacgcagatcctg	7	7	13	14	2	0	3	0	1	0	2	1	3	1	3	5	2	2	1	5	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:41247781G>A	uc001znh.2	+	3	624	c.604G>A	c.(604-606)GCC>ACC	p.A202T	CHAC1_uc010uct.1_Missense_Mutation_p.A157T	NM_024111	NP_077016	Q9BUX1	CHAC1_HUMAN	ChaC, cation transport regulator-like 1 isoform	202					apoptosis in response to endoplasmic reticulum stress|response to unfolded protein	cytosol	protein binding				0		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)		GCCTGAAGAGGCCATTGCCAC	0.607													36	126					0	0	1	0	0		A	41247781	A	A	41247781	3	1	153	1	0	0	0	0	1	0	0	0	3311	1203	42	2	614	2	CHAC1	15	41247781	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	564064	41247781	61283611	1198	83130											
SPG11	80208	broad.mit.edu	37	chr15	44876193	44876193	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaaataccggcatactctActtgcttcatgcacacagcc	12	10	6	13	1	2	1	1	1	1	0	2	1	2	1	2	1	6	3	2	1	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:44876193A>G	uc001ztx.2	-	30	5716	c.5685T>C	c.(5683-5685)AGT>AGC	p.S1895S	SPG11_uc010bdw.2_Silent_p.S184S|SPG11_uc010ueh.1_Silent_p.S1895S|SPG11_uc010uei.1_Silent_p.S1895S|SPG11_uc001zty.1_Silent_p.S624S	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1895	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		GGCATACTCTACTTGCTTCAT	0.468													9	129					0	0	1	0	0		G	44876193	G	G	44876193	2	3	153	1	0	0	0	0	0	0	0	1	15066	388	14	3		3	SPG11	15	44876193	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3628412	44876193	57655199	1199	83131											
DUOX1	53905	broad.mit.edu	37	chr15	45444515	45444515	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccgcacatcacacgggcatCacagacaccacccgcgtggg	10	3	11	17	4	2	1	2	0	0	1	2	1	2	1	3	2	0	2	3	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:45444515C>T	uc001zus.1	+	26	3571	c.3225C>T	c.(3223-3225)ATC>ATT	p.I1075I	DUOX1_uc001zut.1_Silent_p.I1075I|DUOX1_uc010bee.1_Silent_p.I455I|DUOX1_uc001zuu.2_Silent_p.I217I	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1075	Interaction with TXNDC11 (By similarity).|Extracellular (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		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)		ACACGGGCATCACAGACACCA	0.607													11	31					0	0	1	0	0		T	45444515	T	T	45444515	2	4	153	1	0	0	0	0	0	0	0	1	4806	816	29	4		4	DUOX1	15	45444515	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	568322	45444515	57086877	1200	83132											
MYEF2	50804	broad.mit.edu	37	chr15	48459562	48459562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacccttgattttccttccGcatccttaaagagctccacg	8	14	5	14	2	0	2	0	1	0	1	4	2	4	2	5	0	2	2	5	0	3	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:48459562G>A	uc001zwi.3	-	3	531	c.407C>T	c.(406-408)GCG>GTG	p.A136V	MYEF2_uc001zwj.3_Missense_Mutation_p.A136V|MYEF2_uc001zwl.2_Intron	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	136	RRM 1.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		TTTTCCTTCCGCATCCTTAAA	0.368													25	90					0	0	1	0	0		A	48459562	A	A	48459562	3	1	153	1	0	0	0	0	1	0	0	0	10042	1087	38	1	1455	1	MYEF2	15	48459562	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3015047	48459562	54071830	1201	83133											
SECISBP2L	9728	broad.mit.edu	37	chr15	49304949	49304949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attaaaggatgtcaaacaggGctgacttttggttaaaggtt	13	13	11	4	0	1	1	1	1	0	0	1	2	1	2	0	4	1	3	0	4	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:49304949G>A	uc001zxe.1	-	12	1761	c.1627C>T	c.(1627-1629)CCC>TCC	p.P543S	SECISBP2L_uc001zxd.1_Missense_Mutation_p.P498S|SECISBP2L_uc010bep.1_Missense_Mutation_p.P305S	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	543										breast(1)|skin(1)	2						GTCAAACAGGGCTGACTTTTG	0.353													36	142					0	0	1	0	0		A	49304949	A	A	49304949	3	1	153	1	0	0	0	0	1	0	0	0	14032	1203	42	2	1706	2	SECISBP2L	15	49304949	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	845387	49304949	53226443	1202	83134											
GALK2	2585	broad.mit.edu	37	chr15	49493385	49493385	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagctaaaggagatgtttaActccaagtttggatctattc	13	13	9	6	0	1	1	0	0	1	1	3	4	2	2	1	2	2	3	1	2	6	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:49493385A>G	uc001zxj.1	+	2	178	c.80A>G	c.(79-81)AAC>AGC	p.N27S	GALK2_uc001zxi.1_Missense_Mutation_p.N16S|GALK2_uc010ufb.1_Missense_Mutation_p.N3S|GALK2_uc001zxk.2_RNA|GALK2_uc010ufc.1_Missense_Mutation_p.N3S	NM_002044	NP_002035	Q01415	GALK2_HUMAN	galactokinase 2 isoform 1	27					galactose metabolic process	cytoplasm	ATP binding|galactokinase activity|N-acetylgalactosamine kinase activity			breast(1)	1		all_lung(180;0.000325)		all cancers(107;3.71e-08)|GBM - Glioblastoma multiforme(94;7e-05)		GAGATGTTTAACTCCAAGTTT	0.279													12	61					0	0	1	0	0		G	49493385	G	G	49493385	3	3	153	1	0	0	0	0	1	0	0	0	6219	43	2	3	110	3	GALK2	15	49493385	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	188436	49493385	53038007	1203	83135											
ATP8B4	79895	broad.mit.edu	37	chr15	50215592	50215592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacactgaggtggtctgacGtcaaagacaaaaggacttca	14	9	10	8	1	3	3	2	2	1	1	3	4	3	4	0	3	1	0	0	3	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:50215592G>A	uc001zxu.2	-	17	1884	c.1742C>T	c.(1741-1743)ACG>ATG	p.T581M	ATP8B4_uc010ber.2_Missense_Mutation_p.T454M|ATP8B4_uc010ufd.1_Missense_Mutation_p.T391M|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	581	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GTGGTCTGACGTCAAAGACAA	0.408													21	84					0	0	1	0	0		A	50215592	A	A	50215592	3	1	153	1	0	0	0	0	1	0	0	0	1198	1145	40	1	1884	1	ATP8B4	15	50215592	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	722207	50215592	52315800	1204	83136											
TMOD3	29766	broad.mit.edu	37	chr15	52194210	52194210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgaaccagagcagctaatgCtataacaaaaaacaatgact	20	6	6	9	1	0	2	0	1	0	1	0	3	0	2	1	0	6	3	1	0	8	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:52194210C>T	uc002abm.2	+	9	1220	c.1001C>T	c.(1000-1002)GCT>GTT	p.A334V	TMOD3_uc010bfc.1_RNA	NM_014547	NP_055362	Q9NYL9	TMOD3_HUMAN	tropomodulin 3 (ubiquitous)	334						cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1				all cancers(107;0.00194)		GCAGCTAATGCTATAACAAAA	0.378													19	73					0	0	1	0	0		T	52194210	T	T	52194210	3	4	153	1	0	0	0	0	1	0	0	0	16260	797	28	2	1031	2	TMOD3	15	52194210	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1978618	52194210	50337182	1205	83137											
MYO5A	4644	broad.mit.edu	37	chr15	52662454	52662454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaggtctttccggagcttgGcaatttcttcctgcagacta	7	13	9	12	1	2	1	0	0	2	1	4	2	4	2	3	3	2	3	3	3	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:52662454G>A	uc002aby.2	-	22	3222	c.2978C>T	c.(2977-2979)GCC>GTC	p.A993V	MYO5A_uc002abx.3_Missense_Mutation_p.A993V|MYO5A_uc010uge.1_Missense_Mutation_p.A862V	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	993	Potential.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CCGGAGCTTGGCAATTTCTTC	0.453													50	154					0	0	1	0	0		A	52662454	A	A	52662454	3	1	153	1	0	0	0	0	1	0	0	0	10096	1203	42	2	2669	2	MYO5A	15	52662454	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	468244	52662454	49868938	1206	83138											
ONECUT1	3175	broad.mit.edu	37	chr15	53081384	53081384	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggccgaggtgggcgtgaggTgctgctccccgtggcggccg	2	6	20	13	6	0	1	0	1	0	0	1	2	1	1	4	6	2	2	4	6	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:53081384T>C	uc002aci.1	-	1	826	c.698A>G	c.(697-699)CAC>CGC	p.H233R		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	233					endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		GGGCGTGAGGTGCTGCTCCCC	0.716													16	54					0	0	1	0	0		C	53081384	C	C	53081384	3	2	153	1	0	0	0	0	1	0	0	0	10887	1696	59	3	707	3	ONECUT1	15	53081384	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	418930	53081384	49450008	1207	83139											
WDR72	256764	broad.mit.edu	37	chr15	53907708	53907708	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caacaaataaactatagtatCtgactctcgcaaagaatcac	18	9	4	10	1	3	2	1	1	2	1	4	2	3	2	0	0	2	2	0	0	9	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:53907708C>G	uc002acj.2	-	15	2737	c.2695G>C	c.(2695-2697)GAT>CAT	p.D899H	WDR72_uc010bfi.1_Missense_Mutation_p.D899H	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	899										lung(1)|skin(1)	2				all cancers(107;0.0511)		ACTATAGTATCTGACTCTCGC	0.348													22	79					0	0	1	0	0		G	53907708	G	G	53907708	3	3	153	1	0	0	0	0	1	0	0	0	17348	913	32	5	637	5	WDR72	15	53907708	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	826324	53907708	48623684	1208	83140											
UNC13C	440279	broad.mit.edu	37	chr15	54307652	54307652	+	Missense_Mutation	SNP	A	G	G	1	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	aagtaccacacttgactctgAtgtctacacggagccctatt	11	11	7	12	1	2	2	0	2	2	0	2	3	2	3	2	1	3	1	2	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:54307652A>G	uc002ack.2	+	1	2552	c.2552A>G	c.(2551-2553)GAT>GGT	p.D851G		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	851					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		CTTGACTCTGATGTCTACACG	0.418													22	96					0	0	1	0	0		G	54307652	G	G	54307652	3	3	153	1	0	0	0	0	1	0	0	0	17012	333	12	3	2554	3	UNC13C	15	54307652	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	399944	54307652	48223740	1209	83141											
RFX7	64864	broad.mit.edu	37	chr15	56388135	56388135	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttttacatttggtcctctgGtcacagaccttagttgcttt	6	18	7	10	0	2	1	1	0	1	1	3	1	3	1	2	2	2	2	2	2	2	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:56388135G>A	uc010bfn.2	-	9	1791	c.1791C>T	c.(1789-1791)GAC>GAT	p.D597D	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.D411D	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	500					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						TGGTCCTCTGGTCACAGACCT	0.433													16	46					0	0	1	0	0		A	56388135	A	A	56388135	2	1	153	1	0	0	0	0	0	0	0	1	13293	1252	44	4		4	RFX7	15	56388135	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2080483	56388135	46143257	1210	83142											
ALDH1A2	8854	broad.mit.edu	37	chr15	58287284	58287284	+	Missense_Mutation	SNP	T	A	A	0	1	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	aaatacactcactgggatgaTctgtccacacactccaatgg	13	9	7	12	0	2	1	1	1	1	0	4	2	4	2	2	2	1	0	2	2	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:58287284T>A	uc002aex.2	-	5	605	c.547A>T	c.(547-549)ATC>TTC	p.I183F	ALDH1A2_uc002aey.2_Missense_Mutation_p.I183F|ALDH1A2_uc010ugv.1_Missense_Mutation_p.I162F|ALDH1A2_uc010ugw.1_Missense_Mutation_p.I154F|ALDH1A2_uc002aew.2_Missense_Mutation_p.I87F	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	183					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	ACTGGGATGATCTGTCCACAC	0.393													62	175					0	0	1	0	0		A	58287284	A	A	58287284	3	1	153	1	0	0	0	0	1	0	0	0	491	1435	50	5	1045	5	ALDH1A2	15	58287284	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1899149	58287284	44244108	1211	83143											
TLN2	83660	broad.mit.edu	37	chr15	62978963	62978963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccctcaccaccgtcaagCgctgggcagcctcacccaag	8	4	10	19	2	3	0	3	0	0	0	3	0	3	0	6	2	2	2	6	2	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:62978963C>T	uc002alb.3	+	9	1081	c.1081C>T	c.(1081-1083)CGC>TGC	p.R361C		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	361	FERM.|Interaction with PIP5K1C (By similarity).				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						CACCGTCAAGCGCTGGGCAGC	0.602													8	38					0	0	1	0	0		T	62978963	T	T	62978963	3	4	153	1	0	0	0	0	1	0	0	0	15973	768	27	1	1115	1	TLN2	15	62978963	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4691679	62978963	39552429	1212	83144											
TLN2	83660	broad.mit.edu	37	chr15	63004122	63004122	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttctaggtgaaatggtgcGccaggcgcgggttctggccc	5	10	15	11	3	3	1	0	1	3	0	3	1	3	1	2	5	1	1	2	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:63004122G>A	uc002alb.3	+	19	2480	c.2480G>A	c.(2479-2481)CGC>CAC	p.R827H		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	827					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GAAATGGTGCGCCAGGCGCGG	0.498													17	58					0	0	1	0	0		A	63004122	A	A	63004122	3	1	153	1	0	0	0	0	1	0	0	0	15973	1087	38	1	2554	1	TLN2	15	63004122	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	25159	63004122	39527270	1213	83145											
HERC1	8925	broad.mit.edu	37	chr15	63990925	63990925	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagtaaatatcaaagacttActtctgcccttaactgctgc	12	12	7	10	0	2	1	1	0	1	1	2	2	2	2	1	1	5	2	1	1	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:63990925A>G	uc002amp.2	-	26	5053	c.4905_splice	c.e26+1	p.E1635_splice	HERC1_uc010uil.1_Splice_Site_p.E619_splice	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1						protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TCAAAGACTTACTTCTGCCCT	0.418													9	39					0	0	1	0	0		G	63990925	G	G	63990925	5	3	153	1	0	0	0	0	0	0	1	0	7073	405	14	3	9890	3	HERC1	15	63990925	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08	986803	63990925	38540467	1214	83146											
TRIP4	9325	broad.mit.edu	37	chr15	64717782	64717782	+	Silent	SNP	C	T	T	0	0	0	1	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	ccgtcaggttgtcttctgggCtgtgtggacctaattgactg	5	14	13	9	1	3	1	1	1	2	0	3	2	3	2	2	3	0	2	2	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:64717782C>T	uc002anm.2	+	11	1570	c.1527C>T	c.(1525-1527)GGC>GGT	p.G509G		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	509					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						GTCTTCTGGGCTGTGTGGACC	0.313													47	160					0	0	1	0	0		T	64717782	T	T	64717782	2	4	153	1	0	0	0	0	0	0	0	1	16584	784	28	2		2	TRIP4	15	64717782	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	726857	64717782	37813610	1215	83147											
CILP	8483	broad.mit.edu	37	chr15	65491212	65491212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaccttggtgggtagcGtgtagccactgcactggatc	6	10	14	11	1	0	0	0	0	0	0	1	1	0	1	3	4	3	3	3	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:65491212G>A	uc002aon.2	-	9	1593	c.1412C>T	c.(1411-1413)ACG>ATG	p.T471M		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	471					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						GGTGGGTAGCGTGTAGCCACT	0.607													6	35					0	0	1	0	0		A	65491212	A	A	65491212	3	1	153	1	0	0	0	0	1	0	0	0	3432	1145	40	1	2146	1	CILP	15	65491212	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	773430	65491212	37040180	1216	83148											
IGDCC4	57722	broad.mit.edu	37	chr15	65702545	65702545	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggcaatgtcacctggtcCttctcccaagtaatgatggg	9	11	10	11	0	3	1	2	1	1	0	5	1	4	1	3	3	0	2	3	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:65702545C>A	uc002aou.1	-	3	744	c.534G>T	c.(532-534)AAG>AAT	p.K178N		NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	178	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						TCACCTGGTCCTTCTCCCAAG	0.607													16	74					2.23348e-06	2.3035e-06	1	1	0		A	65702545	A	A	65702545	3	1	153	1	0	0	0	0	1	0	0	0	7585	680	24	5	3290	5	IGDCC4	15	65702545	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	211333	65702545	36828847	1217	83149											
DENND4A	10260	broad.mit.edu	37	chr15	66048497	66048497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccccagatctgtaagtggagGcttatctcttcctcttctat	7	15	7	12	0	4	1	0	0	4	1	6	2	5	2	3	2	0	2	3	2	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:66048497G>A	uc002aph.2	-	3	670	c.292C>T	c.(292-294)CCT>TCT	p.P98S	DENND4A_uc002api.2_Missense_Mutation_p.P98S|DENND4A_uc002apj.3_Missense_Mutation_p.P98S|DENND4A_uc010ujj.1_Missense_Mutation_p.P98S	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	98	MABP.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GTAAGTGGAGGCTTATCTCTT	0.378													9	33					0	0	1	0	0		A	66048497	A	A	66048497	3	1	153	1	0	0	0	0	1	0	0	0	4439	1203	42	2	5552	2	DENND4A	15	66048497	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	345952	66048497	36482895	1218	83150											
MAP2K1	5604	broad.mit.edu	37	chr15	66737006	66737006	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctaggtaataaaaggcCtgacatatctgagggagaag	14	9	11	7	0	2	3	0	2	2	1	3	4	3	3	2	3	0	1	2	3	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:66737006C>A	uc010bhq.2	+	5	1004	c.529C>A	c.(529-531)CTG>ATG	p.L177M	MAP2K1_uc010ujp.1_Missense_Mutation_p.L155M	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	177	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						AATAAAAGGCCTGACATATCT	0.323									Cardiofaciocutaneous_syndrome				38	120					9.45814e-24	1.02221e-23	1	1	0		A	66737006	A	A	66737006	3	1	153	1	0	0	0	0	1	0	0	0	9254	680	24	5	547	5	MAP2K1	15	66737006	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	688509	66737006	35794386	1219	83151											
FEM1B	10116	broad.mit.edu	37	chr15	68583129	68583129	+	Missense_Mutation	SNP	A	T	T	1	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	ctacaacctgattcaccttgAtcccagaactcgtgaaggtt	11	11	7	12	1	1	4	1	3	0	1	3	4	2	4	3	1	3	1	3	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:68583129A>T	uc002arg.2	+	2	2048	c.1433A>T	c.(1432-1434)GAT>GTT	p.D478V	FEM1B_uc002arh.2_Missense_Mutation_p.D398V	NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	478					apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						ATTCACCTTGATCCCAGAACT	0.423													61	228					0	0	1	0	0		T	68583129	T	T	68583129	3	4	153	1	0	0	0	0	1	0	0	0	5824	333	12	5	1439	5	FEM1B	15	68583129	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1846123	68583129	33948263	1220	83152											
TLE3	7090	broad.mit.edu	37	chr15	70345628	70345628	+	Missense_Mutation	SNP	T	G	G	0	1	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	caggtcccaggagcgcaccgTgttgtccaggccccctgtcc	5	7	12	17	2	0	0	0	0	0	0	3	1	3	1	6	3	1	2	6	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:70345628T>G	uc002asm.2	-	17	3040	c.1921A>C	c.(1921-1923)ACG>CCG	p.T641P	TLE3_uc002ask.2_Missense_Mutation_p.T568P|TLE3_uc002asl.2_Missense_Mutation_p.T641P|TLE3_uc010ukd.1_Missense_Mutation_p.T631P|TLE3_uc010bik.1_Missense_Mutation_p.T222P|TLE3_uc010bil.1_Missense_Mutation_p.T638P|TLE3_uc002asn.2_Missense_Mutation_p.T629P|TLE3_uc002asp.2_Missense_Mutation_p.T633P|TLE3_uc002aso.2_Missense_Mutation_p.T636P	NM_005078	NP_005069	Q04726	TLE3_HUMAN	transducin-like enhancer protein 3 isoform a	641	WD 4.				organ morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|protein binding			lung(2)	2						GAGCGCACCGTGTTGTCCAGG	0.612													4	4					0	0	1	0	0		G	70345628	G	G	70345628	3	3	153	1	0	0	0	0	1	0	0	0	15965	1696	59	5	413	5	TLE3	15	70345628	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1762499	70345628	32185764	1221	83153											
THSD4	79875	broad.mit.edu	37	chr15	72039263	72039263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgtgccgccaggtgtacgCcaaccgcagcctgacggtgc	6	7	13	15	4	1	1	0	1	1	0	1	1	1	1	5	2	5	2	5	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:72039263C>T	uc002atb.1	+	12	2202	c.2123C>T	c.(2122-2124)GCC>GTC	p.A708V	THSD4_uc002ate.2_Missense_Mutation_p.A348V	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	708	TSP type-1 2.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						CAGGTGTACGCCAACCGCAGC	0.627													10	17					0	0	1	0	0		T	72039263	T	T	72039263	3	4	153	1	0	0	0	0	1	0	0	0	15903	739	26	2	2169	2	THSD4	15	72039263	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1693635	72039263	30492129	1222	83154											
BBS4	585	broad.mit.edu	37	chr15	73028236	73028236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgagaagaagaacgccctgGcccaatatcaggagatggag	14	4	14	9	2	1	4	1	0	0	4	1	7	1	5	2	3	1	0	2	3	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:73028236G>A	uc002avb.2	+	14	1220	c.1177G>A	c.(1177-1179)GCC>ACC	p.A393T	BBS4_uc010ukv.1_Missense_Mutation_p.A381T|BBS4_uc002avc.2_Missense_Mutation_p.A221T|BBS4_uc002avd.2_Missense_Mutation_p.A401T	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	393	TPR 10.|Required for localization to centrosomes.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						GAACGCCCTGGCCCAATATCA	0.473									Bardet-Biedl_syndrome				65	219					0	0	1	0	0		A	73028236	A	A	73028236	3	1	153	1	0	0	0	0	1	0	0	0	1340	1203	42	2	1231	2	BBS4	15	73028236	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	988973	73028236	29503156	1223	83155											
PML	5371	broad.mit.edu	37	chr15	74315304	74315304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggacgccatgacgcaggcGctgcaggagcaggatagtgc	9	5	16	11	3	0	1	0	1	0	0	0	4	0	4	1	4	3	4	1	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:74315304G>A	uc002awv.2	+	3	878	c.738G>A	c.(736-738)GCG>GCA	p.A246A	PML_uc002awm.2_Silent_p.A246A|PML_uc002awl.2_Silent_p.A246A|PML_uc002awj.1_Silent_p.A246A|PML_uc002awk.2_Silent_p.A246A|PML_uc002awn.2_Silent_p.A246A|PML_uc002awo.2_Silent_p.A246A|PML_uc002awp.2_Silent_p.A246A|PML_uc002awq.2_Silent_p.A246A|PML_uc002awr.2_Silent_p.A246A|PML_uc002aws.2_Silent_p.A246A|PML_uc002awt.2_Silent_p.A246A|PML_uc002awu.2_Silent_p.A246A|PML_uc010ule.1_Intron|PML_uc002aww.1_Silent_p.A161A|PML_uc002awx.2_Silent_p.A4A|PML_uc002awy.2_5'Flank	NM_033238	NP_150241	P29590	PML_HUMAN	promyelocytic leukemia protein isoform 1	246	Potential.				cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction resulting in induction of apoptosis|endoplasmic reticulum calcium ion homeostasis|induction of apoptosis|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|maintenance of protein location in nucleus|negative regulation of angiogenesis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of mitotic cell cycle|negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of telomerase activity|negative regulation of telomere maintenance via telomerase|negative regulation of transcription, DNA-dependent|negative regulation of translation in response to oxidative stress|PML body organization|PML body organization|positive regulation of defense response to virus by host|positive regulation of histone deacetylation|protein complex assembly|protein stabilization|protein targeting|regulation of calcium ion transport into cytosol|regulation of protein phosphorylation|response to hypoxia|response to virus|transcription, DNA-dependent	cytoplasm|cytosol|early endosome membrane|extrinsic to endoplasmic reticulum membrane|insoluble fraction|nuclear matrix|nuclear membrane|nucleolus|nucleus|PML body	cobalt ion binding|DNA binding|protein binding|protein binding|protein heterodimerization activity|protein homodimerization activity|SUMO binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding|zinc ion binding			central_nervous_system(2)|kidney(2)|breast(1)	5						TGACGCAGGCGCTGCAGGAGC	0.677			T	RARA|PAX5	APL|ALL								5	16					0	0	1	0	0		A	74315304	A	A	74315304	2	1	153	1	0	0	0	0	0	0	0	1	12154	1074	38	1		1	PML	15	74315304	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1287068	74315304	28216088	1224	83156											
STRA6	64220	broad.mit.edu	37	chr15	74490099	74490099	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggttggactcactgacagCgaggccaggcaggcgtggta	8	7	17	9	2	1	1	1	1	0	0	1	3	1	2	1	6	1	3	1	6	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:74490099C>T	uc002axk.2	-	3	356	c.174G>A	c.(172-174)TCG>TCA	p.S58S	STRA6_uc002axi.2_5'Flank|STRA6_uc010ulh.1_Silent_p.S96S|STRA6_uc002axj.2_Silent_p.S97S|STRA6_uc010bji.2_Silent_p.S58S|STRA6_uc002axl.2_5'UTR|STRA6_uc002axm.2_Silent_p.S58S|STRA6_uc002axn.2_Silent_p.S58S|STRA6_uc010uli.1_Silent_p.S95S|STRA6_uc010bjj.1_RNA|STRA6_uc010bjk.2_Silent_p.S58S	NM_022369	NP_071764	Q9BX79	STRA6_HUMAN	stimulated by retinoic acid gene 6 homolog	58	Helical; (Potential).				adrenal gland development|alveolar primary septum development|developmental growth|diaphragm development|digestive tract morphogenesis|ear development|embryonic camera-type eye formation|embryonic digestive tract development|eyelid development in camera-type eye|face morphogenesis|feeding behavior|female genitalia development|kidney development|lung vasculature development|neuromuscular process|nose morphogenesis|paramesonephric duct development|positive regulation of behavior|pulmonary artery morphogenesis|pulmonary valve morphogenesis|smooth muscle tissue development|transport|uterus morphogenesis|ventricular septum development|vocal learning	integral to membrane|plasma membrane|protein complex	receptor activity			central_nervous_system(1)	1						TCACTGACAGCGAGGCCAGGC	0.652													13	34					0	0	1	0	0		T	74490099	T	T	74490099	2	4	153	1	0	0	0	0	0	0	0	1	15347	755	27	1		1	STRA6	15	74490099	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	174795	74490099	28041293	1225	83157											
CCDC33	80125	broad.mit.edu	37	chr15	74536466	74536466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcctgcaaggatggctcCgagccgtggccctatgtggt	5	9	14	13	2	0	0	0	0	0	0	1	2	1	1	5	4	3	2	5	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:74536466C>T	uc002axo.2	+	2	556	c.162C>T	c.(160-162)TCC>TCT	p.S54S		NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	257	C2.						protein binding			ovary(3)|skin(2)	5						AGGATGGCTCCGAGCCGTGGC	0.587													18	39					0	0	1	0	0		T	74536466	T	T	74536466	2	4	153	1	0	0	0	0	0	0	0	1	2809	639	23	1		1	CCDC33	15	74536466	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	46367	74536466	27994926	1226	83158											
CLK3	1198	broad.mit.edu	37	chr15	74912515	74912515	+	Silent	SNP	T	C	C	0	1	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	ccataccggacccgcaagcaTgcccaccactgccacaaacg	12	3	7	19	3	0	0	0	0	0	0	0	1	0	1	6	1	5	2	6	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:74912515T>C	uc010uln.1	+	3	1223	c.762T>C	c.(760-762)CAT>CAC	p.H254H	CLK3_uc002ayg.3_Silent_p.H106H|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Silent_p.H254H|CLK3_uc002ayj.3_Silent_p.H106H|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	254	Arg-rich.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						CCCGCAAGCATGCCCACCACT	0.612													14	68					0	0	1	0	0		C	74912515	C	C	74912515	2	2	153	1	0	0	0	0	0	0	0	1	3541	1461	51	3		3	CLK3	15	74912515	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	376049	74912515	27618877	1227	83159											
CYP1A2	1544	broad.mit.edu	37	chr15	75042486	75042486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccggtgtgggctgcccGccggcgcctggcccagaatg	4	6	17	14	4	0	1	0	0	0	1	0	2	0	2	5	5	1	1	5	5	1	0	rs150893756	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:75042486G>A	uc002ayr.1	+	2	471	c.407G>A	c.(406-408)CGC>CAC	p.R136H		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	136					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	TGGGCTGCCCGCCGGCGCCTG	0.617													44	148					0	0	1	0	0		A	75042486	A	A	75042486	3	1	153	1	0	0	0	0	1	0	0	0	4153	1087	38	1	409	1	CYP1A2	15	75042486	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	129971	75042486	27488906	1228	83160											
CYP1A2	1544	broad.mit.edu	37	chr15	75047412	75047412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacatgtccaggcgcggctgCgcttctccatcaactgaaga	10	8	10	13	3	2	2	1	1	1	1	4	2	3	2	2	2	3	2	2	2	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:75047412C>T	uc002ayr.1	+	7	1598	c.1534C>T	c.(1534-1536)CGC>TGC	p.R512C		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	511				R -> LP (in Ref. 2; AAA35738).	alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GGCGCGGCTGCGCTTCTCCAT	0.602													8	30					0	0	1	0	0		T	75047412	T	T	75047412	3	4	153	1	0	0	0	0	1	0	0	0	4153	768	27	1	1556	1	CYP1A2	15	75047412	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4926	75047412	27483980	1229	83161											
SCAMP5	192683	broad.mit.edu	37	chr15	75308975	75308975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacctggtgggctgtctcGcgtggctgatcggaggcggg	4	9	19	9	4	1	2	0	2	1	0	3	3	1	3	1	6	1	2	1	6	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:75308975G>A	uc002azk.1	+	4	340	c.178G>A	c.(178-180)GCG>ACG	p.A60T	SCAMP5_uc002azl.1_Missense_Mutation_p.A60T|SCAMP5_uc002azm.1_Missense_Mutation_p.A60T|SCAMP5_uc002azn.1_Missense_Mutation_p.A60T|SCAMP5_uc010uly.1_Intron	NM_138967	NP_620417	Q8TAC9	SCAM5_HUMAN	secretory carrier membrane protein 5	60	Helical; (Potential).				exocytosis|negative regulation of endocytosis|positive regulation of calcium ion-dependent exocytosis|positive regulation of cytokine secretion|protein transport|response to endoplasmic reticulum stress	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane|trans-Golgi network membrane	protein binding			ovary(1)	1						GGGCTGTCTCGCGTGGCTGAT	0.612													21	48					0	0	1	0	0		A	75308975	A	A	75308975	3	1	153	1	0	0	0	0	1	0	0	0	13899	1087	38	1	188	1	SCAMP5	15	75308975	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	261563	75308975	27222417	1230	83162											
CSPG4	1464	broad.mit.edu	37	chr15	75968067	75968067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaccagccaggccgttgcGgggcttggcagtcaggacct	6	7	15	13	2	2	0	2	0	0	0	2	1	2	1	4	5	2	3	4	5	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:75968067G>A	uc002baw.2	-	10	6886	c.6793C>T	c.(6793-6795)CGC>TGC	p.R2265C		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	2265	Cytoplasmic (Potential).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						AGGCCGTTGCGGGGCTTGGCA	0.652													22	57					0	0	1	0	0		A	75968067	A	A	75968067	3	1	153	1	0	0	0	0	1	0	0	0	3963	1116	39	1	179	1	CSPG4	15	75968067	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	659092	75968067	26563325	1231	83163											
CSPG4	1464	broad.mit.edu	37	chr15	75981657	75981657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccctcacaggcagagtcCgggtcataggcctggaaaac	11	5	13	12	1	2	1	2	0	0	1	3	2	3	2	3	5	1	1	3	5	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:75981657C>T	uc002baw.2	-	3	1842	c.1749G>A	c.(1747-1749)CCG>CCA	p.P583P		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	583	Extracellular (Potential).|CSPG 2.|Globular or compact configuration stabilized by disulfide bonds.|Interaction with COL6A2 (By similarity).|Neurite growth inhibition (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						AGGCAGAGTCCGGGTCATAGG	0.642													10	35					0	0	1	0	0		T	75981657	T	T	75981657	2	4	153	1	0	0	0	0	0	0	0	1	3963	639	23	1		1	CSPG4	15	75981657	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	13590	75981657	26549735	1232	83164											
SGK269	79834	broad.mit.edu	37	chr15	77426055	77426055	+	Silent	SNP	T	C	C	0	1	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	acagctcccttgggctgtcgTggctgcttgggaggtatcat	5	12	14	10	1	1	0	1	0	0	0	3	1	2	1	1	4	2	5	1	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:77426055T>C	uc002bcm.2	-	5	3677	c.3369A>G	c.(3367-3369)CCA>CCG	p.P1123P		NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	1123					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		TGGGCTGTCGTGGCTGCTTGG	0.453													30	77					0	0	1	0	0		C	77426055	C	C	77426055	2	2	153	1	0	0	0	0	0	0	0	1	14236	1683	59	3		3	SGK269	15	77426055	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1444398	77426055	25105337	1233	83165											
CHRNA3	1136	broad.mit.edu	37	chr15	78894011	78894011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctgtagtgcacgttgagcaCgaagacggtgatgacgatgg	10	9	15	7	4	1	4	0	3	1	1	1	6	1	4	0	2	2	4	0	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:78894011C>T	uc002bec.2	-	5	1159	c.973G>A	c.(973-975)GTG>ATG	p.V325M	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.V325M	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	325	Helical; (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						ACGTTGAGCACGAAGACGGTG	0.522													43	164					0	0	1	0	0		T	78894011	T	T	78894011	3	4	153	1	0	0	0	0	1	0	0	0	3387	536	19	1	637	1	CHRNA3	15	78894011	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1467956	78894011	23637381	1234	83166											
ADAMTS7	11173	broad.mit.edu	37	chr15	79063957	79063957	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggctccttggtgggaccCggggacgtgaggttctccca	6	8	15	12	2	1	1	0	1	1	0	3	3	2	3	3	6	0	2	3	6	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:79063957C>T	uc002bej.3	-	15	2557	c.2346G>A	c.(2344-2346)CCG>CCA	p.P782P	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Silent_p.P782P	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	782	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TGGTGGGACCCGGGGACGTGA	0.672													5	18					0	0	1	0	0		T	79063957	T	T	79063957	2	4	153	1	0	0	0	0	0	0	0	1	271	639	23	1		1	ADAMTS7	15	79063957	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	169946	79063957	23467435	1235	83167											
FAM108C1	58489	broad.mit.edu	37	chr15	81041945	81041945	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cctcgaggtatgaatgcgcaGcggtaattctccattcccct	8	11	9	13	3	1	1	0	1	1	0	4	2	2	1	4	2	2	3	4	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:81041945G>A	uc002bfu.2	+	2	801	c.682G>A	c.(682-684)GCG>ACG	p.A228T	FAM108C1_uc002bft.2_Intron	NM_021214	NP_067037	Q6PCB6	F108C_HUMAN	hypothetical protein LOC58489	228							hydrolase activity				0						TGAATGCGCAGCGGTAATTCT	0.507													27	80					0	0	1	0	0		A	81041945	A	A	81041945	3	1	153	1	0	0	0	0	1	0	0	0	5404	971	34	2	688	2	FAM108C1	15	81041945	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1977988	81041945	21489447	1236	83168											
TMC3	342125	broad.mit.edu	37	chr15	81666342	81666342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagctcacctgagcagcagaGattcctggtagaggtagcac	11	7	12	11	0	1	3	1	1	0	2	2	4	2	3	2	2	4	6	2	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:81666342G>A	uc002bgo.1	-	1	77	c.77C>T	c.(76-78)TCT>TTT	p.S26F	TMC3_uc010blr.1_RNA|TMC3_uc002bgp.2_Missense_Mutation_p.S26F	NM_001080532	NP_001074001	Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	26	Cytoplasmic (Potential).					integral to membrane				ovary(1)|liver(1)	2						GAGCAGCAGAGATTCCTGGTA	0.557													9	22					0	0	1	0	0		A	81666342	A	A	81666342	3	1	153	1	0	0	0	0	1	0	0	0	16011	942	33	4	3313	4	TMC3	15	81666342	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	624397	81666342	20865050	1237	83169											
FAM154B	283726	broad.mit.edu	37	chr15	82564031	82564031	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagggaagattgatcttggTactacctacaaacgggattt	13	11	10	7	1	1	2	0	1	1	1	1	4	1	4	1	3	4	1	1	3	6	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:82564031T>C	uc002bgv.2	+	2	210	c.141T>C	c.(139-141)GGT>GGC	p.G47G	FAM154B_uc010unr.1_Silent_p.G32G|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	47										skin(2)	2						TTGATCTTGGTACTACCTACA	0.393													9	86					0	0	1	0	0		C	82564031	C	C	82564031	2	2	153	1	0	0	0	0	0	0	0	1	5475	1625	57	3		3	FAM154B	15	82564031	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	897689	82564031	19967361	1238	83170											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84651204	84651204	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccgtgcgacgattccagaaaTctctgatccagtgggagaag	11	8	12	10	3	1	3	0	1	1	2	4	6	3	3	3	1	1	0	3	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:84651204T>C	uc002bjz.3	+	21	3048	c.2824T>C	c.(2824-2826)TCT>CCT	p.S942P	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.S942P|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.S942P	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	942	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			ATTCCAGAAATCTCTGATCCA	0.512													34	100					0	0	1	0	0		C	84651204	C	C	84651204	3	2	153	1	0	0	0	0	1	0	0	0	276	1435	50	3	2902	3	ADAMTSL3	15	84651204	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2087173	84651204	17880188	1239	83171											
ALPK3	57538	broad.mit.edu	37	chr15	85383249	85383249	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagcctgagggtgggaccCtggcggcttggcaggaggga	6	5	22	8	1	0	1	0	1	0	0	0	5	0	5	2	8	1	2	2	8	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:85383249C>T	uc002ble.2	+	5	1512	c.1345C>T	c.(1345-1347)CTG>TTG	p.L449L		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	449					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GGGTGGGACCCTGGCGGCTTG	0.652													5	15					0	0	1	0	0		T	85383249	T	T	85383249	2	4	153	1	0	0	0	0	0	0	0	1	546	680	24	4		4	ALPK3	15	85383249	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	732045	85383249	17148143	1240	83172											
FANCI	55215	broad.mit.edu	37	chr15	89848354	89848354	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctattcctagaggatgccTtgttttgcaagagcttgatg	8	15	10	8	0	0	3	0	1	0	2	2	4	2	4	3	1	3	3	3	1	3	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:89848354T>C	uc010bnp.1	+	29	3157	c.3067T>C	c.(3067-3069)TTG>CTG	p.L1023L	FANCI_uc002bnm.1_Silent_p.L963L|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Silent_p.L784L|FANCI_uc002bnq.1_Silent_p.L436L	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	1023					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					AGAGGATGCCTTGTTTTGCAA	0.323								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				69	245					0	0	1	0	0		C	89848354	C	C	89848354	2	2	153	1	0	0	0	0	0	0	0	1	5683	1606	56	3		3	FANCI	15	89848354	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	4465105	89848354	12683038	1241	83173											
AP3S2	10239	broad.mit.edu	37	chr15	90451554	90451554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtgttcaccttcctggtggCgctgaagttgggctcgattt	4	14	13	10	3	1	1	1	1	0	0	3	2	2	1	2	3	0	4	2	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:90451554C>T	uc002bos.3	-	3	414	c.259G>A	c.(259-261)GCC>ACC	p.A87T	C15orf38_uc002bot.1_RNA|C15orf38_uc002bou.2_Missense_Mutation_p.A87T	NM_182616	NP_872422	P59780	AP3S2_HUMAN	hypothetical protein LOC348110	Error:Variant_position_missing_in_P59780_after_alignment					intracellular protein transport|vesicle-mediated transport	cytoplasmic vesicle membrane|Golgi apparatus|membrane coat	protein transporter activity				0	Lung NSC(78;0.0181)|all_lung(78;0.0384)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.223)			TTCCTGGTGGCGCTGAAGTTG	0.592													26	73					0	0	1	0	0		T	90451554	T	T	90451554	3	4	153	1	0	0	0	0	1	0	0	0	750	768	27	1		1	AP3S2	15	90451554	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	603200	90451554	12079838	1242	83174											
TTLL13	440307	broad.mit.edu	37	chr15	90799471	90799471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtggcatcttcattacccGaaatccccgggagatcaagc	11	8	9	13	3	3	1	2	0	1	1	4	3	4	1	3	2	2	1	3	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:90799471G>A	uc002bpd.1	+	6	935	c.647G>A	c.(646-648)CGA>CAA	p.R216Q	TTLL13_uc002bpe.1_Intron	NM_001029964	NP_001025135	A6NNM8	TTL13_HUMAN	tubulin tyrosine ligase-like family, member 13	216	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			TTCATTACCCGAAATCCCCGG	0.547													24	73					0	0	1	0	0		A	90799471	A	A	90799471	3	1	153	1	0	0	0	0	1	0	0	0	16752	1058	37	1	665	1	TTLL13	15	90799471	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	347917	90799471	11731921	1243	83175											
TTLL13	440307	broad.mit.edu	37	chr15	90800412	90800412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttgatatgcgagtctacGtcctgatcacatcctgtgac	9	13	9	10	2	2	3	1	3	1	0	4	4	4	3	2	0	2	1	2	0	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:90800412G>A	uc002bpd.1	+	7	1036	c.748G>A	c.(748-750)GTC>ATC	p.V250I	TTLL13_uc002bpe.1_RNA	NM_001029964	NP_001025135	A6NNM8	TTL13_HUMAN	tubulin tyrosine ligase-like family, member 13	250	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			GCGAGTCTACGTCCTGATCAC	0.453													29	93					0	0	1	0	0		A	90800412	A	A	90800412	3	1	153	1	0	0	0	0	1	0	0	0	16752	1145	40	1	770	1	TTLL13	15	90800412	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	941	90800412	11730980	1244	83176											
RGMA	56963	broad.mit.edu	37	chr15	93595502	93595502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtgcgcaggcgtggctgCgaggtggggccatccttgga	5	7	19	10	4	0	0	0	0	0	0	1	2	1	1	2	6	3	2	2	6	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:93595502C>T	uc002bss.1	-	3	638	c.366G>A	c.(364-366)TCG>TCA	p.S122S	RGMA_uc002bsq.1_Silent_p.S106S|RGMA_uc010boi.1_Silent_p.S13S|RGMA_uc002bsr.1_Silent_p.S13S|RGMA_uc010urc.1_Silent_p.S130S	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor	122					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			GGCGTGGCTGCGAGGTGGGGC	0.667													13	29					0	0	1	0	0		T	93595502	T	T	93595502	2	4	153	1	0	0	0	0	0	0	0	1	13305	755	27	1		1	RGMA	15	93595502	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2795090	93595502	8935890	1245	83177											
IGF1R	3480	broad.mit.edu	37	chr15	99500476	99500476	+	Frame_Shift_Del	DEL	C	-	-																															ccagagaacatggagagcgtCcccctggacccctcggcctc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:99500476delC	uc002bul.2	+	21	3959	c.3909delC	c.(3907-3909)GTCfs	p.V1303fs	IGF1R_uc010bon.2_Frame_Shift_Del_p.V1302fs	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1303	Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	TGGAGAGCGTCCCCCTGGACC	0.672													8	16	---	---	---	---						.	-	99500476	-	-	99500476	7	5	153	1	0	1	0	1	0	0	0	0	7587	842	30	0	3991	0	IGF1R	15	99500476	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	5904974	99500476	3030916	1246	83178											
PGPEP1L	145814	broad.mit.edu	37	chr15	99511846	99511846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctggccgggagcccgcgcGatagtggagggacatggatg	7	5	20	9	4	0	0	0	0	0	0	0	5	0	4	2	6	1	1	2	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:99511846G>A	uc002bum.2	-	5	658	c.452C>T	c.(451-453)TCG>TTG	p.S151L	PGPEP1L_uc010bop.2_Missense_Mutation_p.R96C|PGPEP1L_uc002bun.2_RNA	NM_001102612	NP_001096082	A6NFU8	PGPIL_HUMAN	pyroglutamyl-peptidase 1-like protein	151					proteolysis		cysteine-type peptidase activity				0						GAGCCCGCGCGATAGTGGAGG	0.557													5	15					0	0	1	0	0		A	99511846	A	A	99511846	3	1	153	1	0	0	0	0	1	0	0	0	11823	1059	37	1	142	1	PGPEP1L	15	99511846	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	11370	99511846	3019546	1247	83179											
LRRK1	79705	broad.mit.edu	37	chr15	101569367	101569367	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	tggtggggactggcttcacgCagcagacggaagagcagtac	10	6	16	9	2	1	2	1	0	0	2	1	4	1	4	0	5	3	5	0	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:101569367C>T	uc002bwr.2	+	20	3212	c.2893C>T	c.(2893-2895)CAG>TAG	p.Q965*	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	965					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGCTTCACGCAGCAGACGGA	0.552													14	45					0	0	1	0	0		T	101569367	T	T	101569367	4	4	153	1	0	0	0	0	0	1	0	0	9050	711	25	2	2967	2	LRRK1	15	101569367	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2057521	101569367	962025	1248	83180											
LRRK1	79705	broad.mit.edu	37	chr15	101606891	101606891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggagaaggattctggcGcccagcggggccgagtcatt	7	7	16	11	3	2	1	1	0	1	1	2	4	2	2	3	5	1	0	3	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:101606891G>A	uc002bwr.2	+	33	6134	c.5815G>A	c.(5815-5817)GCC>ACC	p.A1939T	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1939					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GGATTCTGGCGCCCAGCGGGG	0.582													60	221					0	0	1	0	0		A	101606891	A	A	101606891	3	1	153	1	0	0	0	0	1	0	0	0	9050	1087	38	1	5941	1	LRRK1	15	101606891	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	37524	101606891	924501	1249	83181											
SNRPA1	6627	broad.mit.edu	37	chr15	101821975	101821975	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttccatctcttcttcaccaTcatcagtgggccctaaagaa	10	12	5	14	0	5	1	3	0	2	1	7	1	6	1	3	1	0	0	3	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr15:101821975T>C	uc002bww.2	-	9	799	c.722A>G	c.(721-723)GAT>GGT	p.D241G	SNRPA1_uc002bwx.2_RNA|SNRPA1_uc010bpc.2_RNA	NM_003090	NP_003081	P09661	RU2A_HUMAN	small nuclear ribonucleoprotein polypeptide A'	241						catalytic step 2 spliceosome|nucleoplasm|U2 snRNP	protein binding|RNA binding			kidney(1)	1	Lung NSC(78;0.00156)|all_lung(78;0.00195)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00113)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TTCTTCACCATCATCAGTGGG	0.333													17	78					0	0	1	0	0		C	101821975	C	C	101821975	3	2	153	1	0	0	0	0	1	0	0	0	14885	1435	50	3	49	3	SNRPA1	15	101821975	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	215084	101821975	709417	1250	83182											
AXIN1	8312	broad.mit.edu	37	chr16	338227	338227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accccacagtcaaactcgtcGctcactttcttgaagtagta	11	11	6	13	2	3	1	2	1	1	0	5	1	3	1	2	0	1	3	2	0	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:338227G>A	uc002cgp.1	-	11	2661	c.2484C>T	c.(2482-2484)AGC>AGT	p.S828S	AXIN1_uc002cgq.1_Silent_p.S792S	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	828	DIX.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CAAACTCGTCGCTCACTTTCT	0.592													39	97					0	0	1	0	0		A	338227	A	A	338227	2	1	153	1	0	0	0	0	0	0	0	1	1237	1078	38	1		1	AXIN1	16	338227	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08		338227	90016526	1251	83183											
MRPL28	10573	broad.mit.edu	37	chr16	418565	418565	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagctgggggtcctgcCgggcaagccgcagcagcatc	6	5	17	13	2	0	0	0	0	0	0	2	0	1	0	3	4	6	6	3	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:418565C>T	uc002cgr.1	-	3	528	c.512G>A	c.(511-513)CGG>CAG	p.R171Q	MRPL28_uc010bqu.1_Missense_Mutation_p.R171Q|MRPL28_uc002cgs.1_Missense_Mutation_p.R171Q|MRPL28_uc002cgt.1_Missense_Mutation_p.R171Q	NM_006428	NP_006419	Q13084	RM28_HUMAN	mitochondrial ribosomal protein L28 precursor	171					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0		Hepatocellular(16;0.000105)|Lung NSC(18;0.0324)|all_lung(18;0.064)				GGGGTCCTGCCGGGCAAGCCG	0.662													8	36					0	0	1	0	0		T	418565	T	T	418565	3	4	153	1	0	0	0	0	1	0	0	0	9810	652	23	1	270	1	MRPL28	16	418565	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	80338	418565	89936188	1252	83184											
RHOT2	89941	broad.mit.edu	37	chr16	722950	722950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccattacatggacgggcagaCcccctgcctctttgtctcct	6	11	8	16	1	2	1	0	0	2	1	3	2	2	2	5	2	2	1	5	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:722950C>T	uc002cip.2	+	18	1617	c.1550C>T	c.(1549-1551)ACC>ATC	p.T517I	RHOT2_uc002ciq.2_Missense_Mutation_p.T410I|RHOT2_uc010bqy.2_Missense_Mutation_p.T296I|RHBDL1_uc002cir.1_5'Flank|RHBDL1_uc010uun.1_5'Flank	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	517	Miro 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				GACGGGCAGACCCCCTGCCTC	0.652													11	61					0	0	1	0	0		T	722950	T	T	722950	3	4	153	1	0	0	0	0	1	0	0	0	13369	507	18	4	1620	4	RHOT2	16	722950	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	304385	722950	89631803	1253	83185											
RPUSD1	113000	broad.mit.edu	37	chr16	836152	836152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcacgagctggtccagcGactgcagcagtgtgtggggg	6	7	17	11	2	0	0	0	0	0	0	1	2	1	0	2	3	5	4	2	3	0	0	rs147626249		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:836152G>A	uc002cka.2	-	5	971	c.737C>T	c.(736-738)TCG>TTG	p.S246L	RPUSD1_uc002ckb.2_Missense_Mutation_p.S246L|RPUSD1_uc002ckc.2_Missense_Mutation_p.S117L|RPUSD1_uc002ckd.2_3'UTR|CHTF18_uc010uus.1_5'Flank|CHTF18_uc010bre.1_5'Flank|CHTF18_uc002cke.3_5'Flank|CHTF18_uc002ckf.3_5'Flank|CHTF18_uc010brf.2_5'Flank|CHTF18_uc002ckg.3_5'Flank	NM_058192	NP_478072	Q9UJJ7	RUSD1_HUMAN	RNA pseudouridylate synthase domain containing	246					pseudouridine synthesis		pseudouridine synthase activity|RNA binding				0		Hepatocellular(780;0.00335)				CTGGTCCAGCGACTGCAGCAG	0.711													13	49					0	0	1	0	0		A	836152	A	A	836152	3	1	153	1	0	0	0	0	1	0	0	0	13691	1059	37	1	205	1	RPUSD1	16	836152	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	113202	836152	89518601	1254	83186											
TPSD1	23430	broad.mit.edu	37	chr16	1306669	1306669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccccagtgggtgctaaccGcggcgcactgcgtggaaccg	7	5	14	15	5	0	0	0	0	0	0	0	1	0	1	4	3	4	2	4	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:1306669G>A	uc002clb.1	+	2	244	c.235G>A	c.(235-237)GCG>ACG	p.A79T	TPSD1_uc010brm.1_Missense_Mutation_p.A17T	NM_012217	NP_036349	Q9BZJ3	TRYD_HUMAN	tryptase delta 1 precursor	79	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				GGTGCTAACCGCGGCGCACTG	0.697													19	48					0	0	1	0	0		A	1306669	A	A	1306669	3	1	153	1	0	0	0	0	1	0	0	0	16451	1087	38	1	241	1	TPSD1	16	1306669	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	470517	1306669	89048084	1255	83187											
BAIAP3	8938	broad.mit.edu	37	chr16	1391384	1391384	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaggagcagcgcttcggcTtccgcaagggcagcaagcgc	10	4	15	12	4	0	1	0	0	0	1	2	2	1	2	1	3	4	6	1	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:1391384T>G	uc002clk.1	+	8	730	c.730T>G	c.(730-732)TTC>GTC	p.F244V	BAIAP3_uc002clj.2_Missense_Mutation_p.F226V|BAIAP3_uc010uuz.1_Missense_Mutation_p.F209V|BAIAP3_uc010uva.1_Missense_Mutation_p.F181V|BAIAP3_uc010uvb.1_Missense_Mutation_p.F261V|BAIAP3_uc010uvc.1_Missense_Mutation_p.F209V	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	244	C2 1.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				GCGCTTCGGCTTCCGCAAGGG	0.667													19	65					0	0	1	0	0		G	1391384	G	G	1391384	3	3	153	1	0	0	0	0	1	0	0	0	1305	1609	56	5	760	5	BAIAP3	16	1391384	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	84715	1391384	88963369	1256	83188											
CRAMP1L	57585	broad.mit.edu	37	chr16	1712579	1712579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggcctttttgctgtcccGacaaccttgccacccaacag	8	9	9	15	1	0	0	0	0	0	0	1	2	1	1	5	2	4	1	5	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:1712579G>A	uc010uvh.1	+	11	2502	c.2502G>A	c.(2500-2502)CCG>CCA	p.P834P	CRAMP1L_uc002cmf.2_RNA	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	834						nucleus	DNA binding				0						TTGCTGTCCCGACAACCTTGC	0.557													36	89					0	0	1	0	0		A	1712579	A	A	1712579	2	1	153	1	0	0	0	0	0	0	0	1	3849	1045	37	1		1	CRAMP1L	16	1712579	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	321195	1712579	88642174	1257	83189											
EME2	197342	broad.mit.edu	37	chr16	1824335	1824335	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccgaggagtttctgcagggCgtcgccacactgacccaggt	7	7	13	14	3	1	1	0	1	1	0	2	3	1	2	3	3	1	2	3	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:1824335C>T	uc002cmq.1	+	3	459	c.459C>T	c.(457-459)GGC>GGT	p.G153G	NME3_uc002cmm.2_5'Flank|NME3_uc010brv.2_5'Flank|MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Silent_p.G153G	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	153					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						TTCTGCAGGGCGTCGCCACAC	0.662								Direct_reversal_of_damage|Homologous_recombination					10	61					0	0	1	0	0		T	1824335	T	T	1824335	2	4	153	1	0	0	0	0	0	0	0	1	5097	755	27	1		1	EME2	16	1824335	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	111756	1824335	88530418	1258	83190											
SPSB3	90864	broad.mit.edu	37	chr16	1827312	1827312	+	Missense_Mutation	SNP	A	C	C	1	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	agtctggccgcagctggcgcAggcggtggcagcacaggtac	7	5	17	12	3	1	0	0	0	1	0	1	0	1	0	1	6	3	6	1	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:1827312A>C	uc002cmr.2	-	6	887	c.854T>G	c.(853-855)CTG>CGG	p.L285R	SPSB3_uc002cms.2_Missense_Mutation_p.L157R|SPSB3_uc002cmt.2_Missense_Mutation_p.L157R|SPSB3_uc002cmu.2_Missense_Mutation_p.L285R|SPSB3_uc002cmv.2_Missense_Mutation_p.L157R	NM_080861	NP_543137	Q6PJ21	SPSB3_HUMAN	splA/ryanodine receptor domain and SOCS box	285	SOCS box.				intracellular signal transduction						0						CAGCTGGCGCAGGCGGTGGCA	0.682													6	13					0	0	1	0	0		C	1827312	C	C	1827312	3	2	153	1	0	0	0	0	1	0	0	0	15139	188	7	5	217	5	SPSB3	16	1827312	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2977	1827312	88527441	1259	83191											
TBC1D24	57465	broad.mit.edu	37	chr16	2546053	2546053	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtgtgagatggcagacaGgtttgcaggaaaccctcaga	12	7	15	7	0	1	3	1	1	0	3	1	5	1	4	1	4	2	3	1	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:2546053G>T	uc002cql.2	+	2	44	c.-96G>T	c.(-98--94)CAGGT>CATGT		TBC1D24_uc002cqk.2_Translation_Start_Site|TBC1D24_uc002cqm.2_Translation_Start_Site|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24						neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						ATGGCAGACAGGTTTGCAGGA	0.498													14	55					2.61681e-11	2.75838e-11	1	1	0		T	2546053	T	T	2546053	1	4	153	1	0	0	0	0	0	0	0	0	15639	1015	35	5		5	TBC1D24	16	2546053	Translation_Start_Site	SNP	G	TCGA-CG-5723-01A-11D-1600-08	718741	2546053	87808700	1260	83192											
AMDHD2	51005	broad.mit.edu	37	chr16	2577818	2577818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccgggagaagcggggcGcgcaccccgaggcccacctc	7	2	15	17	5	1	1	1	0	0	1	2	3	1	1	5	4	2	1	5	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:2577818G>A	uc002cqq.2	+	5	557	c.460G>A	c.(460-462)GCG>ACG	p.A154T	AMDHD2_uc002cqp.2_Missense_Mutation_p.A154T|AMDHD2_uc010uwc.1_Missense_Mutation_p.A154T|AMDHD2_uc010uwd.1_5'UTR	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	154				A -> T (in Ref. 1; AAD27723).	N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						GAAGCGGGGCGCGCACCCCGA	0.692													4	4					0	0	1	0	0		A	2577818	A	A	2577818	3	1	153	1	0	0	0	0	1	0	0	0	568	1087	38	1	478	1	AMDHD2	16	2577818	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	31765	2577818	87776935	1261	83193											
SRRM2	23524	broad.mit.edu	37	chr16	2810378	2810378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctgcttcagggcgacgcGgggagggagatgcgcctttc	5	7	16	13	4	1	1	1	0	0	1	2	4	1	2	3	4	2	1	3	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:2810378G>A	uc002crk.2	+	10	1459	c.910G>A	c.(910-912)GGG>AGG	p.G304R	SRRM2_uc002crj.1_Missense_Mutation_p.G208R|SRRM2_uc002crl.1_Missense_Mutation_p.G304R|SRRM2_uc010bsu.1_Missense_Mutation_p.G208R	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	304	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						AGGGCGACGCGGGGAGGGAGA	0.562													7	34					0	0	1	0	0		A	2810378	A	A	2810378	3	1	153	1	0	0	0	0	1	0	0	0	15194	1116	39	1	944	1	SRRM2	16	2810378	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	232560	2810378	87544375	1262	83194											
ZSCAN10	84891	broad.mit.edu	37	chr16	3140022	3140022	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cacaggacatcggtcagtggCggcgcttcggccttactctc	6	9	12	14	4	2	0	1	0	1	0	5	1	2	1	1	5	1	1	1	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:3140022C>T	uc002ctv.1	-	5	1336	c.1248G>A	c.(1246-1248)CCG>CCA	p.P416P	ZSCAN10_uc002cty.1_Silent_p.P77P|ZSCAN10_uc002ctw.1_Silent_p.P334P|ZSCAN10_uc002ctx.1_Silent_p.P344P	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	416					negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CGGTCAGTGGCGGCGCTTCGG	0.711													2	0					0	0	1	0	0		T	3140022	T	T	3140022	2	4	153	1	0	0	0	0	0	0	0	1	18252	755	27	1		1	ZSCAN10	16	3140022	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	329644	3140022	87214731	1263	83195											
ZNF213	7760	broad.mit.edu	37	chr16	3191292	3191292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagagcttcaagcagcgcGcgcacctcatcgcgcatcag	11	5	10	15	5	3	1	3	0	0	1	4	1	3	1	1	0	3	4	1	0	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:3191292G>A	uc010uws.1	+	6	1771	c.1324G>A	c.(1324-1326)GCG>ACG	p.A442T	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Missense_Mutation_p.A442T|ZNF213_uc010uwt.1_3'UTR|uc002cuf.1_5'Flank	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	442	C2H2-type 5.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CAAGCAGCGCGCGCACCTCAT	0.687													10	40					0	0	1	0	0		A	3191292	A	A	3191292	3	1	153	1	0	0	0	0	1	0	0	0	17794	1087	38	1	1342	1	ZNF213	16	3191292	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	51270	3191292	87163461	1264	83196											
CORO7	79585	broad.mit.edu	37	chr16	4463375	4463375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggttcctgcatgaaggggCggttcctgctcgaatgtcac	6	11	14	10	2	1	1	1	1	0	0	4	2	3	1	2	4	2	4	2	4	2	2	rs143239749	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:4463375C>T	uc002cwh.3	-	2	211	c.91G>A	c.(91-93)GCC>ACC	p.A31T	CORO7_uc002cwf.2_Missense_Mutation_p.A31T|CORO7_uc002cwg.3_5'UTR|CORO7_uc010uxh.1_Missense_Mutation_p.A31T|CORO7_uc010uxi.1_Missense_Mutation_p.A31T|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_5'UTR|CORO7_uc010btr.1_Intron	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	31						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						CATGAAGGGGCGGTTCCTGCT	0.502													3	6					0	0	1	0	0		T	4463375	T	T	4463375	3	4	153	1	0	0	0	0	1	0	0	0	3762	768	27	1	2794	1	CORO7	16	4463375	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1272083	4463375	85891378	1265	83197											
MGRN1	23295	broad.mit.edu	37	chr16	4700454	4700454	+	Silent	SNP	T	C	C	0	1	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	ctctttggagagaacatggaTctgaacttcctgggcagccg	9	10	12	10	1	2	2	0	1	2	1	3	5	3	4	2	3	3	1	2	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:4700454T>C	uc002cwz.2	+	2	313	c.177T>C	c.(175-177)GAT>GAC	p.D59D	MGRN1_uc002cxa.2_Silent_p.D59D|MGRN1_uc010btx.2_Silent_p.D59D|MGRN1_uc010btw.2_Silent_p.D59D|MGRN1_uc002cxb.2_Silent_p.D59D|MGRN1_uc010uxo.1_Silent_p.D59D|MGRN1_uc010uxp.1_Silent_p.D59D|MGRN1_uc010uxq.1_RNA	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	59					endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						AGAACATGGATCTGAACTTCC	0.567													6	172					0	0	1	0	0		C	4700454	C	C	4700454	2	2	153	1	0	0	0	0	0	0	0	1	9577	1432	50	3		3	MGRN1	16	4700454	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	237079	4700454	85654299	1266	83198											
PPL	5493	broad.mit.edu	37	chr16	4950862	4950862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ggtacttggcccggagttcgCtgttctgctcctgaggacag	5	11	14	11	2	1	1	0	1	1	0	3	3	2	3	2	4	2	5	2	4	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:4950862C>A	uc002cyd.1	-	6	665	c.575G>T	c.(574-576)AGC>ATC	p.S192I		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	192	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						CCGGAGTTCGCTGTTCTGCTC	0.667													26	238					6.32553e-13	6.6888e-13	1	1	0		A	4950862	A	A	4950862	3	1	153	1	0	0	0	0	1	0	0	0	12356	797	28	5	4763	5	PPL	16	4950862	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	250408	4950862	85403891	1267	83199											
BFAR	51283	broad.mit.edu	37	chr16	14743706	14743706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcagggaatctgaacacGacctcctggtccacaaggct	11	6	11	13	1	1	1	0	1	1	0	3	3	3	2	3	3	2	3	3	3	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:14743706G>A	uc002dco.2	+	4	795	c.514G>A	c.(514-516)GAC>AAC	p.D172N	BFAR_uc002dcm.2_Missense_Mutation_p.D172N|BFAR_uc002dcn.2_Silent_p.T103T|BFAR_uc002dcp.2_Intron|BFAR_uc010uzh.1_Missense_Mutation_p.D44N	NM_016561	NP_057645	Q9NZS9	BFAR_HUMAN	bifunctional apoptosis regulator	172	Lumenal (Potential).				anti-apoptosis|apoptosis	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	structural molecule activity|zinc ion binding			ovary(1)|skin(1)	2						ATCTGAACACGACCTCCTGGT	0.552													19	62					0	0	1	0	0		A	14743706	A	A	14743706	3	1	153	1	0	0	0	0	1	0	0	0	1415	1058	37	1	524	1	BFAR	16	14743706	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	9792844	14743706	75611047	1268	83200											
NDE1	54820	broad.mit.edu	37	chr16	15788062	15788062	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggacccccctcacacctgcGgcccggatatcagccctcaa	8	5	9	19	2	3	0	3	0	0	0	3	2	3	2	6	3	2	0	6	3	2	1	rs1123418		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:15788062G>A	uc002ddt.1	+	6	787	c.744G>A	c.(742-744)GCG>GCA	p.A248A	NDE1_uc010uzy.1_Silent_p.A248A|NDE1_uc002dds.2_Silent_p.A248A|NDE1_uc002ddu.1_Silent_p.A185A	NM_017668	NP_060138	Q9NXR1	NDE1_HUMAN	nuclear distribution gene E homolog 1	248	Interaction with CENPF (By similarity).				cell differentiation|cell division|centrosome duplication|establishment of chromosome localization|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|mitotic prometaphase|nervous system development	cleavage furrow|condensed chromosome kinetochore|cytosol|microtubule|spindle pole centrosome	microtubule binding			ovary(1)	1						TCACACCTGCGGCCCGGATAT	0.572													12	23					0	0	1	0	0		A	15788062	A	A	15788062	2	1	153	1	0	0	0	0	0	0	0	1	10262	1103	39	1		1	NDE1	16	15788062	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1044356	15788062	74566691	1269	83201											
MYH11	4629	broad.mit.edu	37	chr16	15811163	15811163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcactctcattcttctgggCcgtgctgcgctctgtggcca	3	12	12	14	2	4	0	1	0	4	0	5	0	4	0	2	3	2	3	2	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:15811163C>T	uc002ddy.2	-	38	5445	c.5338G>A	c.(5338-5340)GCC>ACC	p.A1780T	MYH11_uc002ddv.2_Missense_Mutation_p.A1787T|MYH11_uc002ddw.2_Missense_Mutation_p.A1780T|MYH11_uc002ddx.2_Missense_Mutation_p.A1787T|MYH11_uc010bvg.2_Missense_Mutation_p.A1612T|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Missense_Mutation_p.A486T	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1780	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TTCTTCTGGGCCGTGCTGCGC	0.637			T	CBFB	AML								16	76					0	0	1	0	0		T	15811163	T	T	15811163	3	4	153	1	0	0	0	0	1	0	0	0	10049	739	26	2	631	2	MYH11	16	15811163	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	23101	15811163	74543590	1270	83202											
MYH11	4629	broad.mit.edu	37	chr16	15814829	15814829	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctccgtggcttgcagctcgTcctccagctcttccagctgc	3	11	9	18	2	1	0	0	0	1	0	6	0	5	0	5	1	5	5	5	1	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:15814829T>C	uc002ddy.2	-	33	4765	c.4658A>G	c.(4657-4659)GAC>GGC	p.D1553G	MYH11_uc002ddv.2_Missense_Mutation_p.D1560G|MYH11_uc002ddw.2_Missense_Mutation_p.D1553G|MYH11_uc002ddx.2_Missense_Mutation_p.D1560G|MYH11_uc010bvg.2_Missense_Mutation_p.D1385G|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Missense_Mutation_p.D259G|NDE1_uc002ddz.1_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1553	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TTGCAGCTCGTCCTCCAGCTC	0.637			T	CBFB	AML								23	55					0	0	1	0	0		C	15814829	C	C	15814829	3	2	153	1	0	0	0	0	1	0	0	0	10049	1667	58	3	1331	3	MYH11	16	15814829	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3666	15814829	74539924	1271	83203											
MYH11	4629	broad.mit.edu	37	chr16	15853542	15853542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgagtatccagcggaaaaggCgctcatatgttgccttggcc	9	10	12	10	2	1	1	1	1	0	0	2	2	2	2	3	3	2	3	3	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:15853542C>T	uc002ddy.2	-	12	1399	c.1292G>A	c.(1291-1293)CGC>CAC	p.R431H	MYH11_uc002ddv.2_Missense_Mutation_p.R438H|MYH11_uc002ddw.2_Missense_Mutation_p.R431H|MYH11_uc002ddx.2_Missense_Mutation_p.R438H|MYH11_uc010bvg.2_Missense_Mutation_p.R263H|MYH11_uc002dea.1_Missense_Mutation_p.R137H	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	431	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GCGGAAAAGGCGCTCATATGT	0.537			T	CBFB	AML								35	87					0	0	1	0	0		T	15853542	T	T	15853542	3	4	153	1	0	0	0	0	1	0	0	0	10049	768	27	1	4781	1	MYH11	16	15853542	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	38713	15853542	74501211	1272	83204											
ABCC6	368	broad.mit.edu	37	chr16	16267261	16267261	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagggactgacttgatggaCctgtcatttagaggaaatga	12	11	12	6	0	2	4	2	3	0	1	2	7	2	7	1	3	0	0	1	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:16267261C>T	uc002den.3	-	21	2704	c.2667G>A	c.(2665-2667)AGG>AGA	p.R889R	ABCC6_uc010bvo.2_RNA	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	889	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		ACTTGATGGACCTGTCATTTA	0.542													39	142					0	0	1	0	0		T	16267261	T	T	16267261	2	4	153	1	0	0	0	0	0	0	0	1	57	521	18	4		4	ABCC6	16	16267261	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	413719	16267261	74087492	1273	83205											
XYLT1	64131	broad.mit.edu	37	chr16	17202689	17202689	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggcacagatgtccatggcagTccacatcccgcccaccaacg	10	5	9	17	2	0	1	0	0	0	1	3	1	3	1	5	2	1	2	5	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:17202689T>C	uc002dfa.2	-	12	2828	c.2743A>G	c.(2743-2745)ACT>GCT	p.T915A		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	915	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						TCCATGGCAGTCCACATCCCG	0.677													4	28					0	0	1	0	0		C	17202689	C	C	17202689	3	2	153	1	0	0	0	0	1	0	0	0	17489	1667	58	3	140	3	XYLT1	16	17202689	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	935428	17202689	73152064	1274	83206											
NOMO2	283820	broad.mit.edu	37	chr16	18555052	18555052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aactatgaggggactggccgCattggcattggagttggtta	9	11	15	6	1	0	1	0	1	0	0	0	3	0	3	1	6	1	4	1	6	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:18555052C>T	uc002dfe.2	-	7	694	c.622G>A	c.(622-624)GCG>ACG	p.A208T	NOMO2_uc002dff.2_Missense_Mutation_p.A208T|NOMO2_uc010bvx.2_Missense_Mutation_p.A41T	NM_001004060	NP_001004060	Q5JPE7	NOMO2_HUMAN	nodal modulator 2 isoform 1	208	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			skin(1)	1						GGACTGGCCGCATTGGCATTg	0.274													18	102					0	0	1	0	0		T	18555052	T	T	18555052	3	4	153	1	0	0	0	0	1	0	0	0	10551	710	25	2	3289	2	NOMO2	16	18555052	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1352363	18555052	71799701	1275	83207											
SYT17	51760	broad.mit.edu	37	chr16	19278340	19278340	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agccgtggagcagtggcataGcctgaggtcccgagctgagt	8	7	16	10	2	0	2	0	2	0	0	1	4	1	3	3	3	4	3	3	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:19278340G>A	uc002dfw.2	+	8	1698	c.1367G>A	c.(1366-1368)AGC>AAC	p.S456N	SYT17_uc002dfx.2_Missense_Mutation_p.S395N|SYT17_uc002dfy.2_Missense_Mutation_p.S452N	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	456						membrane|synaptic vesicle	transporter activity			ovary(1)	1						CAGTGGCATAGCCTGAGGTCC	0.577													16	37					0	0	1	0	0		A	19278340	A	A	19278340	3	1	153	1	0	0	0	0	1	0	0	0	15498	971	34	2	1397	2	SYT17	16	19278340	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	723288	19278340	71076413	1276	83208											
PDILT	204474	broad.mit.edu	37	chr16	20380924	20380924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcaagtttaggatttggaCggatgggatatcgacctctg	9	12	13	7	2	2	0	1	0	1	0	3	5	2	4	1	4	0	2	1	4	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:20380924C>T	uc002dhc.1	-	8	1229	c.1006G>A	c.(1006-1008)GTC>ATC	p.V336I		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	336					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						AGGATTTGGACGGATGGGATA	0.468													59	182					0	0	1	0	0		T	20380924	T	T	20380924	3	4	153	1	0	0	0	0	1	0	0	0	11693	536	19	1	768	1	PDILT	16	20380924	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1102584	20380924	69973829	1277	83209											
UQCRC2	7385	broad.mit.edu	37	chr16	21983256	21983256	+	Missense_Mutation	SNP	A	T	T	1	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	ggccccaggtgaaatccgagAacagaatggagacagtcttg	13	6	13	9	1	1	4	0	1	1	3	2	6	2	4	3	3	1	0	3	3	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:21983256A>T	uc002djx.2	+	10	915	c.779A>T	c.(778-780)GAA>GTA	p.E260V	UQCRC2_uc002djy.2_Missense_Mutation_p.E260V|UQCRC2_uc010bxa.2_RNA|UQCRC2_uc002djz.1_Missense_Mutation_p.E127V	NM_003366	NP_003357	P22695	QCR2_HUMAN	ubiquinol-cytochrome c reductase core protein II	260					aerobic respiration|oxidative phosphorylation|proteolysis|respiratory electron transport chain|transport		metalloendopeptidase activity|zinc ion binding			large_intestine(2)	2				GBM - Glioblastoma multiforme(48;0.0264)		GAAATCCGAGAACAGAATGGA	0.448													17	90					0	0	1	0	0		T	21983256	T	T	21983256	3	4	153	1	0	0	0	0	1	0	0	0	17046	246	9	5	817	5	UQCRC2	16	21983256	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1602332	21983256	68371497	1278	83210											
USP31	57478	broad.mit.edu	37	chr16	23091276	23091276	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acactgcagacctgtgtagtGccccccttgcatggtgccat	7	10	10	14	0	0	1	0	0	0	1	0	1	0	1	5	1	4	3	5	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:23091276G>A	uc002dll.2	-	13	2167	c.2167C>T	c.(2167-2169)CAC>TAC	p.H723Y	USP31_uc010bxm.2_Intron	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	723		Proton acceptor (By similarity).			ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		CCTGTGTAGTGCCCCCCTTGC	0.572													18	45					0	0	1	0	0		A	23091276	A	A	23091276	3	1	153	1	0	0	0	0	1	0	0	0	17088	1319	46	2	1907	2	USP31	16	23091276	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1108020	23091276	67263477	1279	83211											
USP31	57478	broad.mit.edu	37	chr16	23096246	23096246	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtttgaggctgatgatgacGctccctttgcagacgaacac	9	10	12	10	2	0	5	0	4	0	1	1	6	1	5	1	2	2	4	1	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:23096246G>T	uc002dll.2	-	11	1765	c.1765C>A	c.(1765-1767)CGT>AGT	p.R589S	USP31_uc010bxm.2_5'UTR	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	589					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		TGATGATGACGCTCCCTTTGC	0.458													87	411					1.26005e-42	1.37218e-42	1	1	0		T	23096246	T	T	23096246	3	4	153	1	0	0	0	0	1	0	0	0	17088	1087	38	5	2317	5	USP31	16	23096246	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	4970	23096246	67258507	1280	83212											
PALB2	79728	broad.mit.edu	37	chr16	23614847	23614847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaaatgagagtctgtacccGaccatttcacaaaagaccaa	16	7	7	11	1	2	2	1	1	1	2	2	4	2	2	3	0	1	2	3	0	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:23614847G>A	uc002dlx.1	-	13	3694	c.3494C>T	c.(3493-3495)TCG>TTG	p.S1165L		NM_024675	NP_078951	Q86YC2	PALB2_HUMAN	partner and localizer of BRCA2	1165	Interaction with RAD51 and BRCA2.|WD 7.				double-strand break repair via homologous recombination	nucleoplasm	DNA binding|protein binding			lung(3)|breast(3)|ovary(2)|skin(1)|kidney(1)|pancreas(1)	11				GBM - Glioblastoma multiforme(48;0.0167)		GTCTGTACCCGACCATTTCAC	0.413			F|N|Mis			Wilms tumor|medulloblastoma|AML ,breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia_type_N|Fanconi_Anemia|PALB2-associated_Familial_Breast_and_Pancreatic_Cancer|Pancreatic_Cancer_Familial_Clustering_of				41	120					0	0	1	0	0		A	23614847	A	A	23614847	3	1	153	1	0	0	0	0	1	0	0	0	11425	1059	37	1	70	1	PALB2	16	23614847	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	518601	23614847	66739906	1281	83213											
GTF3C1	2975	broad.mit.edu	37	chr16	27539991	27539991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agacaccaccttggctagccCggcgttcagcatatactggt	9	9	10	13	2	1	1	1	0	0	1	1	1	1	1	3	3	3	3	3	3	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:27539991C>T	uc002dov.1	-	6	941	c.901G>A	c.(901-903)GGG>AGG	p.G301R	GTF3C1_uc002dou.2_Missense_Mutation_p.G301R	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	301						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TTGGCTAGCCCGGCGTTCAGC	0.483													48	137					0	0	1	0	0		T	27539991	T	T	27539991	3	4	153	1	0	0	0	0	1	0	0	0	6888	652	23	1	5556	1	GTF3C1	16	27539991	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3925144	27539991	62814762	1282	83214											
KIAA0556	23247	broad.mit.edu	37	chr16	27784524	27784524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagaaaaaatccccttgtcgGaaaacagtatcctttgtagg	14	10	9	8	1	0	1	0	0	0	1	3	3	2	2	3	2	1	2	3	2	7	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:27784524G>A	uc002dow.2	+	23	4327	c.4303G>A	c.(4303-4305)GAA>AAA	p.E1435K		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1435										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CCCCTTGTCGGAAAACAGTAT	0.567													3	29					0	0	1	0	0		A	27784524	A	A	27784524	3	1	153	1	0	0	0	0	1	0	0	0	8199	1175	41	4	4393	4	KIAA0556	16	27784524	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	244533	27784524	62570229	1283	83215											
XPO6	23214	broad.mit.edu	37	chr16	28117503	28117503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacccggcagcctgtgctgCcctcgtggaggatgctctcg	4	8	13	16	3	1	0	0	0	1	0	3	2	1	2	4	3	4	3	4	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:28117503C>T	uc002dpa.1	-	20	3146	c.2645G>A	c.(2644-2646)GGC>GAC	p.G882D	XPO6_uc002dpb.1_Missense_Mutation_p.G868D|XPO6_uc010vcp.1_Missense_Mutation_p.G882D	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	882					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						GCCTGTGCTGCCCTCGTGGAG	0.582													5	62					0	0	1	0	0		T	28117503	T	T	28117503	3	4	153	1	0	0	0	0	1	0	0	0	17474	739	26	2	752	2	XPO6	16	28117503	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	332979	28117503	62237250	1284	83216											
XPO6	23214	broad.mit.edu	37	chr16	28145176	28145176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cattaccagtgtggagaaggCgtgcgtgggcaggagctcca	9	7	16	9	2	0	1	0	0	0	1	1	3	1	2	2	4	3	2	2	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:28145176C>T	uc002dpa.1	-	11	2023	c.1522G>A	c.(1522-1524)GCC>ACC	p.A508T	XPO6_uc002dpb.1_Missense_Mutation_p.A494T|XPO6_uc010vcp.1_Missense_Mutation_p.A508T	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	508					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						GTGGAGAAGGCGTGCGTGGGC	0.582													13	41					0	0	1	0	0		T	28145176	T	T	28145176	3	4	153	1	0	0	0	0	1	0	0	0	17474	768	27	1	1911	1	XPO6	16	28145176	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	27673	28145176	62209577	1285	83217											
APOB48R	55911	broad.mit.edu	37	chr16	28509138	28509138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagggtctcatggtgaccGggggccggagggcagaggcc	7	4	20	10	2	1	3	1	1	1	2	2	4	1	4	3	7	0	1	3	7	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:28509138G>A	uc002dqb.1	+	3	2759	c.2749G>A	c.(2749-2751)GGG>AGG	p.G917R	uc010vct.1_Intron|APOB48R_uc010byg.1_Missense_Mutation_p.G455R	NM_018690	NP_061160	Q0VD83	APOBR_HUMAN	apolipoprotein B48 receptor	917	Glu-rich.				cholesterol metabolic process|lipid transport	chylomicron|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle					0						CATGGTGACCGGGGGCCGGAG	0.637													5	12					0	0	1	0	0		A	28509138	A	A	28509138	3	1	153	1	0	0	0	0	1	0	0	0	786	1116	39	1	2759	1	APOB48R	16	28509138	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	363962	28509138	61845615	1286	83218											
IL27	246778	broad.mit.edu	37	chr16	28511129	28511129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggccaggacacctgggccGggccctgtaaggcgctgccc	5	4	17	15	2	0	0	0	0	0	0	0	1	0	1	5	6	1	2	5	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:28511129G>A	uc002dqc.2	-	5	598	c.575C>T	c.(574-576)CCG>CTG	p.P192L	uc010vct.1_Intron	NM_145659	NP_663634	Q8NEV9	IL27A_HUMAN	interleukin 27 precursor	192					inflammatory response|innate immune response|positive regulation of interferon-gamma biosynthetic process|regulation of defense response to virus|regulation of T cell proliferation|regulation of T-helper 1 cell differentiation	extracellular space	cytokine activity|interleukin-27 receptor binding				0						CACCTGGGCCGGGCCCTGTAA	0.532													3	3					0	0	1	0	0		A	28511129	A	A	28511129	3	1	153	1	0	0	0	0	1	0	0	0	7696	1116	39	1	160	1	IL27	16	28511129	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1991	28511129	61843624	1287	83219											
ATP2A1	487	broad.mit.edu	37	chr16	28906263	28906263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggtggagagagccaacGcctgcaactcggtgagcctg	10	5	15	11	3	0	2	0	1	0	1	1	5	0	3	3	3	5	1	3	3	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:28906263G>A	uc002dro.1	+	12	1592	c.1408G>A	c.(1408-1410)GCC>ACC	p.A470T	uc010vct.1_Intron|ATP2A1_uc002drn.1_Missense_Mutation_p.A470T|ATP2A1_uc002drp.1_Missense_Mutation_p.A345T	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	470	Cytoplasmic (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAGAGCCAACGCCTGCAACTC	0.612													9	44					0	0	1	0	0		A	28906263	A	A	28906263	3	1	153	1	0	0	0	0	1	0	0	0	1137	1087	38	1	1454	1	ATP2A1	16	28906263	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	395134	28906263	61448490	1288	83220											
C16orf53	79447	broad.mit.edu	37	chr16	29828545	29828545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcccagaccacacatgcccaCggaatttgattttgatgatg	11	11	8	11	1	0	4	0	3	0	1	1	5	1	5	3	1	1	0	3	1	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:29828545C>T	uc002dug.3	+	2	816	c.497C>T	c.(496-498)ACG>ATG	p.T166M	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron	NM_024516	NP_078792	Q9BTK6	PA1_HUMAN	PTIP-associated 1 protein	166											0						CACATGCCCACGGAATTTGAT	0.572											OREG0023722	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	41					0	0	1	0	0		T	29828545	T	T	29828545	3	4	153	1	0	0	0	0	1	0	0	0	1821	536	19	1	503	1	C16orf53	16	29828545	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	922282	29828545	60526208	1289	83221											
TAOK2	9344	broad.mit.edu	37	chr16	29999115	29999115	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagcatcccacttgcccccGtgggccatccacacactggc	7	8	8	18	1	0	0	0	0	0	0	2	0	2	0	5	2	2	1	5	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:29999115G>A	uc002dva.1	+	16	4305	c.3522G>A	c.(3520-3522)CCG>CCA	p.P1174P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Silent_p.P1181P|TAOK2_uc002dvd.1_Silent_p.P1001P	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	1174	Helical; (Potential).				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						ACTTGCCCCCGTGGGCCATCC	0.667													13	35					0	0	1	0	0		A	29999115	A	A	29999115	2	1	153	1	0	0	0	0	0	0	0	1	15573	1132	40	1		1	TAOK2	16	29999115	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	170570	29999115	60355638	1290	83222											
GDPD3	79153	broad.mit.edu	37	chr16	30124065	30124065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaccaccactctgtcccGtgtcagctgacagtcgagct	8	8	8	17	2	2	1	1	1	1	0	4	2	3	1	4	0	2	2	4	0	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:30124065G>A	uc002dwp.2	-	3	311	c.232C>T	c.(232-234)CGG>TGG	p.R78W	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_Missense_Mutation_p.R16W|LOC100271831_uc010vei.1_5'Flank	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	78	Extracellular (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						ACTCTGTCCCGTGTCAGCTGA	0.662											OREG0023731	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	47					0	0	1	0	0		A	30124065	A	A	30124065	3	1	153	1	0	0	0	0	1	0	0	0	6340	1144	40	1	756	1	GDPD3	16	30124065	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	124950	30124065	60230688	1291	83223											
MAPK3	5595	broad.mit.edu	37	chr16	30129759	30129759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggatgtacttgaggccccGcaggatctggtagaggaagt	9	9	16	7	1	1	2	0	1	1	1	1	5	1	5	2	5	1	3	2	5	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:30129759G>A	uc002dws.2	-	3	554	c.454C>T	c.(454-456)CGG>TGG	p.R152W	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAPK3_uc002dwr.2_Missense_Mutation_p.R38W|MAPK3_uc002dwv.3_Missense_Mutation_p.R152W|MAPK3_uc002dwt.2_Missense_Mutation_p.R152W|MAPK3_uc002dwu.2_RNA|MAPK3_uc010bzp.2_RNA	NM_002746	NP_002737	P27361	MK03_HUMAN	mitogen-activated protein kinase 3 isoform 1	152	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle|cellular response to mechanical stimulus|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|interleukin-1-mediated signaling pathway|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription initiation from RNA polymerase I promoter	cytosol|nucleoplasm	ATP binding|MAP kinase activity|phosphatase binding				0					Arsenic trioxide(DB01169)|Isoproterenol(DB01064)|Simvastatin(DB00641)|Sulindac(DB00605)	TTGAGGCCCCGCAGGATCTGG	0.532													28	82					0	0	1	0	0		A	30129759	A	A	30129759	3	1	153	1	0	0	0	0	1	0	0	0	9297	1086	38	1	766	1	MAPK3	16	30129759	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5694	30129759	60224994	1292	83224											
ZNF785	146540	broad.mit.edu	37	chr16	30593992	30593992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacggcctgctgccacgcGcgcctctcgctgcaggagcg	5	5	13	18	6	1	0	0	0	1	0	2	1	1	1	4	2	4	3	4	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:30593992G>A	uc002dyw.1	-	3	1185	c.1107C>T	c.(1105-1107)CGC>CGT	p.R369R	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Silent_p.R354R|ZNF785_uc010vez.1_Silent_p.R334R	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	369					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCTGCCACGCGCGCCTCTCGC	0.627													11	62					0	0	1	0	0		A	30593992	A	A	30593992	2	1	153	1	0	0	0	0	0	0	0	1	18182	1074	38	1		1	ZNF785	16	30593992	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	464233	30593992	59760761	1293	83225											
PRR14	78994	broad.mit.edu	37	chr16	30666220	30666220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcccccggcccccaatccGccagtggcgaactcaggacc	8	3	10	20	3	1	0	1	0	0	0	2	2	2	1	7	3	2	0	7	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:30666220G>A	uc002dyy.2	+	8	1187	c.929G>A	c.(928-930)CGC>CAC	p.R310H	PRR14_uc002dyz.2_Missense_Mutation_p.R155H|PRR14_uc002dza.2_Missense_Mutation_p.R310H|PRR14_uc002dzb.1_Missense_Mutation_p.R124H	NM_024031	NP_076936	Q9BWN1	PRR14_HUMAN	proline rich 14	310	Pro-rich.										0			Colorectal(24;0.103)			CCCCCAATCCGCCAGTGGCGA	0.647													10	40					0	0	1	0	0		A	30666220	A	A	30666220	3	1	153	1	0	0	0	0	1	0	0	0	12608	1087	38	1	955	1	PRR14	16	30666220	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	72228	30666220	59688533	1294	83226											
SRCAP	10847	broad.mit.edu	37	chr16	30723463	30723463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagcccaagggttacacGctggccacgacccaggtatc	9	6	10	16	2	0	0	0	0	0	0	2	1	1	0	4	3	2	3	4	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:30723463G>A	uc002dze.1	+	12	2185	c.1800G>A	c.(1798-1800)ACG>ACA	p.T600T	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.T457T|SRCAP_uc010bzz.1_Silent_p.T170T	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	600					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			AGGGTTACACGCTGGCCACGA	0.522													30	65					0	0	1	0	0		A	30723463	A	A	30723463	2	1	153	1	0	0	0	0	0	0	0	1	15160	1074	38	1		1	SRCAP	16	30723463	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	57243	30723463	59631290	1295	83227											
RNF40	9810	broad.mit.edu	37	chr16	30779279	30779279	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccacaaccaccagctaaaAggggacgcccagcgatacaa	17	2	8	14	2	0	0	0	0	0	0	0	2	0	1	4	2	5	1	4	2	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:30779279A>G	uc002dzq.2	+	12	1617	c.1494A>G	c.(1492-1494)AAA>AAG	p.K498K	RNF40_uc010caa.2_Silent_p.K498K|RNF40_uc010cab.2_Silent_p.K398K|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Silent_p.K498K|RNF40_uc010vfb.1_Silent_p.K190K|RNF40_uc010vfc.1_5'Flank	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	498	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			ACCAGCTAAAAGGGGACGCCC	0.532													30	122					0	0	1	0	0		G	30779279	G	G	30779279	2	3	153	1	0	0	0	0	0	0	0	1	13518	69	3	3		3	RNF40	16	30779279	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	55816	30779279	59575474	1296	83228											
ZNF646	9726	broad.mit.edu	37	chr16	31092480	31092480	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggctcatgcccggggccacaGccaggtgccagcccagatgg	7	4	15	15	1	1	1	1	0	0	1	1	1	1	1	5	5	4	1	5	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31092480G>A	uc002eap.2	+	2	5124	c.4835G>A	c.(4834-4836)AGC>AAC	p.S1612N		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1612					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CGGGGCCACAGCCAGGTGCCA	0.642													16	56					0	0	1	0	0		A	31092480	A	A	31092480	3	1	153	1	0	0	0	0	1	0	0	0	18087	971	34	2	4837	2	ZNF646	16	31092480	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	313201	31092480	59262273	1297	83229											
MYST1	84148	broad.mit.edu	37	chr16	31138555	31138555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatccacatcgggaactacGaaattgatgcctggtatttc	12	11	9	9	2	0	2	0	1	0	1	3	4	1	3	2	2	3	1	2	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31138555G>A	uc002eay.2	+	5	580	c.562G>A	c.(562-564)GAA>AAA	p.E188K	MYST1_uc002eax.2_Missense_Mutation_p.E188K|MYST1_uc002eaz.2_Missense_Mutation_p.E30K|MYST1_uc002eba.2_5'UTR|MYST1_uc002ebb.2_5'Flank	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	188					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						CGGGAACTACGAAATTGATGC	0.532													34	105					0	0	1	0	0		A	31138555	A	A	31138555	3	1	153	1	0	0	0	0	1	0	0	0	10120	1059	37	1	580	1	MYST1	16	31138555	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	46075	31138555	59216198	1298	83230											
TRIM72	493829	broad.mit.edu	37	chr16	31232241	31232241	+	Splice_Site	SNP	T	C	C	0	1	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	actgcctggtgaccagcaggTgagagcaacctggccctgtc	8	7	13	13	0	0	2	0	2	0	1	1	3	0	2	4	3	4	2	4	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31232241T>C	uc002ebn.1	+	5	969	c.740_splice	c.e5+2	p.R247_splice		NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72						exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						GACCAGCAGGTGAGAGCAACC	0.552													30	123					0	0	1	0	0		C	31232241	C	C	31232241	5	2	153	1	0	0	0	0	0	0	1	0	16571	1710	59	3	756	3	TRIM72	16	31232241	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	93686	31232241	59122512	1299	83231											
ITGAM	3684	broad.mit.edu	37	chr16	31283278	31283278	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaataacgcagctgcttggGcggacacacacggccacggg	10	4	13	14	4	0	0	0	0	0	0	0	1	0	1	2	4	3	3	2	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31283278G>T	uc002ebq.2	+	7	767	c.669G>T	c.(667-669)GGG>GGT	p.G223G	ITGAM_uc002ebr.2_Silent_p.G223G	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	223	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						AGCTGCTTGGGCGGACACACA	0.512													14	76					5.01169e-05	5.13974e-05	1	1	0		T	31283278	T	T	31283278	2	4	153	1	0	0	0	0	0	0	0	1	7903	1190	42	5		5	ITGAM	16	31283278	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	51037	31283278	59071475	1300	83232											
ITGAM	3684	broad.mit.edu	37	chr16	31284825	31284825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacagagagggagtcattCgctacgtcattggggtaggg	10	8	16	7	2	2	2	2	0	0	2	3	4	2	3	0	4	1	2	0	4	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31284825C>T	uc002ebq.2	+	8	942	c.844C>T	c.(844-846)CGC>TGC	p.R282C	ITGAM_uc002ebr.2_Missense_Mutation_p.R282C|ITGAM_uc010cam.1_5'Flank	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	282	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						GGGAGTCATTCGCTACGTCAT	0.463													30	63					0	0	1	0	0		T	31284825	T	T	31284825	3	4	153	1	0	0	0	0	1	0	0	0	7903	884	31	1	874	1	ITGAM	16	31284825	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1547	31284825	59069928	1301	83233											
ARMC5	79798	broad.mit.edu	37	chr16	31477235	31477235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggggttggggccctgacGcacctgctgctctctgggag	3	11	16	11	1	1	1	0	1	1	0	2	2	1	2	2	5	2	4	2	5	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31477235G>A	uc002ecc.2	+	5	2458	c.1929G>A	c.(1927-1929)ACG>ACA	p.T643T	ARMC5_uc010vfn.1_Silent_p.T738T|ARMC5_uc010vfo.1_Silent_p.T675T|ARMC5_uc002eca.3_3'UTR|ARMC5_uc010vfp.1_Silent_p.T451T|ARMC5_uc002ecb.2_Silent_p.T643T	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	643							binding			pancreas(1)	1						GGGCCCTGACGCACCTGCTGC	0.652													8	28					0	0	1	0	0		A	31477235	A	A	31477235	2	1	153	1	0	0	0	0	0	0	0	1	955	1074	38	1		1	ARMC5	16	31477235	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	192410	31477235	58877518	1302	83234											
C16orf58	64755	broad.mit.edu	37	chr16	31510649	31510649	+	Missense_Mutation	SNP	T	C	C	0	1	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	taggttgctggtggagacggTcatggtgaaacagattgggt	9	11	17	4	1	1	3	1	1	0	2	1	4	1	3	0	6	2	2	0	6	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31510649T>C	uc002eci.1	-	5	586	c.574A>G	c.(574-576)ACC>GCC	p.T192A	C16orf58_uc010vfq.1_Missense_Mutation_p.T50A	NM_022744	NP_073581	Q96GQ5	CP058_HUMAN	hypothetical protein LOC64755	192						integral to membrane				ovary(1)|breast(1)	2						GTGGAGACGGTCATGGTGAAA	0.527													3	20					0	0	1	0	0		C	31510649	C	C	31510649	3	2	153	1	0	0	0	0	1	0	0	0	1825	1667	58	3	868	3	C16orf58	16	31510649	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	33414	31510649	58844104	1303	83235											
ZNF267	10308	broad.mit.edu	37	chr16	31927586	31927586	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaaagccttcaactctagGtcatacctcactacacatcg	12	9	6	14	1	4	0	3	0	1	0	5	0	4	0	2	2	4	1	2	2	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:31927586G>A	uc002ecs.3	+	4	2225	c.2016G>A	c.(2014-2016)AGG>AGA	p.R672R		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	672	C2H2-type 13.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TCAACTCTAGGTCATACCTCA	0.438													27	88					0	0	1	0	0		A	31927586	A	A	31927586	2	1	153	1	0	0	0	0	0	0	0	1	17831	1252	44	4		4	ZNF267	16	31927586	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	416937	31927586	58427167	1304	83236											
VPS35	55737	broad.mit.edu	37	chr16	46714715	46714715	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttcaaaatatccttcctgGactgaggaaatgacttgaca	13	12	7	9	0	1	3	1	3	0	0	3	5	3	5	2	2	0	0	2	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:46714715G>T	uc002eef.3	-	5	473	c.374C>A	c.(373-375)TCC>TAC	p.S125Y	VPS35_uc002eed.2_5'Flank|VPS35_uc002eee.2_Missense_Mutation_p.S86Y	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	125					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				ATCCTTCCTGGACTGAGGAAA	0.363													31	108					2.29764e-31	2.49398e-31	1	1	0		T	46714715	T	T	46714715	3	4	153	1	0	0	0	0	1	0	0	0	17229	1174	41	5	2068	5	VPS35	16	46714715	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	14787129	46714715	43640038	1305	83237											
N4BP1	9683	broad.mit.edu	37	chr16	48594921	48594921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaactacaacatcctaaacGtttttcacaggcagatttca	15	11	5	10	1	2	2	2	0	0	2	3	2	3	2	1	1	4	2	1	1	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:48594921G>A	uc002efp.2	-	2	1870	c.1633C>T	c.(1633-1635)CGT>TGT	p.R545C		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1	545					negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				CATCCTAAACGTTTTTCACAG	0.448													41	165					0	0	1	0	0		A	48594921	A	A	48594921	3	1	153	1	0	0	0	0	1	0	0	0	10127	1145	40	1	1081	1	N4BP1	16	48594921	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1880206	48594921	41759832	1306	83238											
ZNF423	23090	broad.mit.edu	37	chr16	49670430	49670430	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgggctccgacgcgtccacgTcatcctcgctggcctcatgg	4	9	12	16	5	2	0	2	0	0	0	6	1	5	0	4	3	0	2	4	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:49670430T>C	uc002efs.2	-	5	2931	c.2633A>G	c.(2632-2634)GAC>GGC	p.D878G	ZNF423_uc010vgn.1_Missense_Mutation_p.D761G	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	878					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CGCGTCCACGTCATCCTCGCT	0.607													17	64					0	0	1	0	0		C	49670430	C	C	49670430	3	2	153	1	0	0	0	0	1	0	0	0	17923	1667	58	3	1241	3	ZNF423	16	49670430	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1075509	49670430	40684323	1307	83239											
IRX6	79190	broad.mit.edu	37	chr16	55358985	55358985	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	ctcgacagggaagagagagaCgggccagggacagccaccat	13	2	15	11	2	0	2	0	0	0	2	1	7	0	4	3	3	1	0	3	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:55358985C>T	uc002ehy.2	+	1	515	c.-18C>T	c.(-20--16)GACGG>GATGG		IRX6_uc002ehx.2_Translation_Start_Site|IRX6_uc010ccb.1_5'Flank	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						AAGAGAGAGACGGGCCAGGGA	0.642													5	32					0	0	1	0	0		T	55358985	T	T	55358985	1	4	153	1	0	0	0	0	0	0	0	0	7864	551	19	1		1	IRX6	16	55358985	Translation_Start_Site	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5688555	55358985	34995768	1308	83240											
CES7	221223	broad.mit.edu	37	chr16	55903594	55903594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcataggcagccagggcGgacccatcaaagatggaggc	11	5	13	12	1	2	1	2	0	0	1	3	3	3	3	3	5	1	1	3	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:55903594G>A	uc002eip.2	-	4	629	c.480C>T	c.(478-480)TCC>TCT	p.S160S	CES7_uc002eio.2_Silent_p.S160S|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_Silent_p.S54S	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	160						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		CAGCCAGGGCGGACCCATCAA	0.562													14	34					0	0	1	0	0		A	55903594	A	A	55903594	2	1	153	1	0	0	0	0	0	0	0	1	3275	1103	39	1		1	CES7	16	55903594	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	544609	55903594	34451159	1309	83241											
NLRC5	84166	broad.mit.edu	37	chr16	57060576	57060576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcatcctgcacctgccGccccttccttagccacctgg	4	9	8	20	1	0	0	0	0	0	0	2	0	2	0	9	2	3	2	9	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:57060576G>A	uc002ekk.1	+	6	1946	c.1721G>A	c.(1720-1722)CGC>CAC	p.R574H	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.R379H|NLRC5_uc002ekl.2_Missense_Mutation_p.R379H|NLRC5_uc002ekm.2_Missense_Mutation_p.R379H|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	574					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				TGCACCTGCCGCCCCTTCCTT	0.632													14	42					0	0	1	0	0		A	57060576	A	A	57060576	3	1	153	1	0	0	0	0	1	0	0	0	10489	1087	38	1	1735	1	NLRC5	16	57060576	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1156982	57060576	33294177	1310	83242											
NLRC5	84166	broad.mit.edu	37	chr16	57060597	57060597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccccttccttagccacctggCgcagggcaatgaggactgtg	7	8	12	14	1	0	1	0	1	0	0	1	2	1	2	5	3	1	2	5	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:57060597C>T	uc002ekk.1	+	6	1967	c.1742C>T	c.(1741-1743)GCG>GTG	p.A581V	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Missense_Mutation_p.A386V|NLRC5_uc002ekl.2_Missense_Mutation_p.A386V|NLRC5_uc002ekm.2_Missense_Mutation_p.A386V|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	581					defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				AGCCACCTGGCGCAGGGCAAT	0.622													17	69					0	0	1	0	0		T	57060597	T	T	57060597	3	4	153	1	0	0	0	0	1	0	0	0	10489	768	27	1	1756	1	NLRC5	16	57060597	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	21	57060597	33294156	1311	83243											
POLR2C	5432	broad.mit.edu	37	chr16	57503122	57503122	+	Missense_Mutation	SNP	A	G	G	1	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	ccgagtgctcggtggagttcAccctcgatgtgcggtgcaat	6	10	14	11	4	1	0	1	0	0	0	3	3	1	1	2	3	3	3	2	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:57503122A>G	uc002elt.1	+	5	390	c.304A>G	c.(304-306)ACC>GCC	p.T102A	POLR2C_uc010vhq.1_Missense_Mutation_p.T102A	NM_032940	NP_116558	P19387	RPB3_HUMAN	DNA directed RNA polymerase II polypeptide C	102					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0						GGTGGAGTTCACCCTCGATGT	0.582													28	114					0	0	1	0	0		G	57503122	G	G	57503122	3	3	153	1	0	0	0	0	1	0	0	0	12235	159	6	3	322	3	POLR2C	16	57503122	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	442525	57503122	32851631	1312	83244											
GPR56	9289	broad.mit.edu	37	chr16	57695814	57695814	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggccttgatcttcttctccTttgcttctggcaccttccag	3	16	8	14	0	4	1	0	1	4	0	6	1	5	1	4	2	1	2	4	2	0	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:57695814T>A	uc002emb.2	+	14	2180	c.1888T>A	c.(1888-1890)TTT>ATT	p.F630I	GPR56_uc002ema.1_Missense_Mutation_p.F455I|GPR56_uc002emc.2_Missense_Mutation_p.F624I|GPR56_uc002emf.2_Missense_Mutation_p.F624I|GPR56_uc010vhs.1_Missense_Mutation_p.F630I|GPR56_uc002emd.2_Missense_Mutation_p.F624I|GPR56_uc002eme.2_Missense_Mutation_p.F624I|GPR56_uc010vht.1_Missense_Mutation_p.F629I|GPR56_uc002emg.3_Missense_Mutation_p.F624I|GPR56_uc010vhu.1_Missense_Mutation_p.F449I	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	630	Helical; Name=6; (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						CTTCTTCTCCTTTGCTTCTGG	0.597													19	72					0	0	1	0	0		A	57695814	A	A	57695814	3	1	153	1	0	0	0	0	1	0	0	0	6715	1609	56	5	1949	5	GPR56	16	57695814	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	192692	57695814	32658939	1313	83245											
CNGB1	1258	broad.mit.edu	37	chr16	57918222	57918222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcccaagggaggcaggcGgtggagagctcggtggagac	8	4	19	10	2	0	2	0	0	0	2	2	5	1	3	2	7	1	2	2	7	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:57918222G>A	uc002emt.2	-	33	3667	c.3602C>T	c.(3601-3603)CCG>CTG	p.P1201L	CNGB1_uc010cdh.2_Missense_Mutation_p.P1195L	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	1201	Cytoplasmic (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						GGAGGCAGGCGGTGGAGAGCT	0.761													4	21					0	0	1	0	0		A	57918222	A	A	57918222	3	1	153	1	0	0	0	0	1	0	0	0	3603	1116	39	1	157	1	CNGB1	16	57918222	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	222408	57918222	32436531	1314	83246											
C16orf80	29105	broad.mit.edu	37	chr16	58149340	58149340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttgcccgaaagcgacgacGcacattcttgtcatctagta	11	10	8	12	4	3	0	1	0	2	0	3	3	3	0	1	0	2	2	1	0	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:58149340G>A	uc002enb.1	-	4	575	c.298C>T	c.(298-300)CGT>TGT	p.R100C		NM_013242	NP_037374	Q9Y6A4	CP080_HUMAN	transcription factor IIB	100					multicellular organismal development						0						AAGCGACGACGCACATTCTTG	0.512													20	45					0	0	1	0	0		A	58149340	A	A	58149340	3	1	153	1	0	0	0	0	1	0	0	0	1840	1087	38	1	295	1	C16orf80	16	58149340	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	231118	58149340	32205413	1315	83247											
PRSS54	221191	broad.mit.edu	37	chr16	58314269	58314269	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tagtataagggttgtacagaCgcctcaggagacctgcctga	11	9	12	9	1	1	3	1	1	0	2	1	4	1	3	3	2	2	3	3	2	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:58314269C>T	uc002enf.2	-	7	1442	c.1047G>A	c.(1045-1047)GCG>GCA	p.A349A	PRSS54_uc002eng.2_Silent_p.A349A|PRSS54_uc010vie.1_Silent_p.A250A|CCDC113_uc002ene.2_3'UTR|CCDC113_uc010vid.1_3'UTR	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	349					proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GTTGTACAGACGCCTCAGGAG	0.468													25	107					0	0	1	0	0		T	58314269	T	T	58314269	2	4	153	1	0	0	0	0	0	0	0	1	12655	523	19	1		1	PRSS54	16	58314269	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	164929	58314269	32040484	1316	83248											
CA7	766	broad.mit.edu	37	chr16	66881124	66881124	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaatgacagcgatgacCgaaccggtaagtggcccctg	11	7	11	12	3	1	2	1	2	0	0	1	4	1	2	4	2	2	1	4	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:66881124C>T	uc002eqi.2	+	2	341	c.232C>T	c.(232-234)CGA>TGA	p.R78*	uc002eqh.2_Intron|CA7_uc002eqj.2_Nonsense_Mutation_p.R22*	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1	78					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		CAGCGATGACCGAACCGGTAA	0.582													7	18					0	0	1	0	0		T	66881124	T	T	66881124	4	4	153	1	0	0	0	0	0	1	0	0	2525	644	23	1	238	1	CA7	16	66881124	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8566855	66881124	23473629	1317	83249											
CTCF	10664	broad.mit.edu	37	chr16	67662409	67662409	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacgaccccaacttcgtccCtgcggcttttgtctgttcta	5	14	7	15	3	3	0	1	0	2	0	5	1	4	0	3	1	2	2	3	1	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:67662409C>A	uc002etl.2	+	9	1945	c.1655C>A	c.(1654-1656)CCT>CAT	p.P552H	CTCF_uc010cek.2_Missense_Mutation_p.P224H|CTCF_uc002etm.1_Missense_Mutation_p.P41H	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	552					chromatin modification|chromosome segregation|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|regulation of centromeric sister chromatid cohesion|regulation of molecular function, epigenetic	chromosome, centromeric region|condensed chromosome|nucleolus|nucleoplasm	chromatin insulator sequence binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0166)|Epithelial(162;0.0577)		AACTTCGTCCCTGCGGCTTTT	0.498													16	181					2.32078e-09	2.42847e-09	1	1	0		A	67662409	A	A	67662409	3	1	153	1	0	0	0	0	1	0	0	0	4003	681	24	5	1681	5	CTCF	16	67662409	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	781285	67662409	22692344	1318	83250											
EDC4	23644	broad.mit.edu	37	chr16	67914081	67914081	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tcctgcctggcctgctcccaGccccagctgacaaactgact	7	8	8	18	0	0	2	0	2	0	0	2	2	2	2	6	1	5	2	6	1	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:67914081G>A	uc002eur.2	+	17	2225	c.2059G>A	c.(2059-2061)GCC>ACC	p.A687T	EDC4_uc010cer.2_Missense_Mutation_p.A306T|EDC4_uc010vkg.1_Missense_Mutation_p.A619T|EDC4_uc002eus.2_Missense_Mutation_p.A417T|EDC4_uc002eut.1_5'Flank	NM_014329	NP_055144	Q6P2E9	EDC4_HUMAN	autoantigen RCD8	687					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|central_nervous_system(2)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0042)|Epithelial(162;0.0185)|all cancers(182;0.121)		CCTGCTCCCAGCCCCAGCTGA	0.657													13	31					0	0	1	0	0		A	67914081	A	A	67914081	3	1	153	1	0	0	0	0	1	0	0	0	4914	971	34	2	2125	2	EDC4	16	67914081	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	251672	67914081	22440672	1319	83251											
WWP2	11060	broad.mit.edu	37	chr16	69942692	69942692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgagagctgcccaacggaCgtgtctattatgttgaccac	10	9	11	11	3	1	2	0	1	1	1	1	4	1	3	2	1	4	2	2	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:69942692C>T	uc002exu.1	+	10	1032	c.943C>T	c.(943-945)CGT>TGT	p.R315C	WWP2_uc002ext.2_Missense_Mutation_p.R315C|WWP2_uc002exv.1_Missense_Mutation_p.R315C|WWP2_uc010vlm.1_Missense_Mutation_p.R199C	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	315	WW 1.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						GCCCAACGGACGTGTCTATTA	0.517													50	143					0	0	1	0	0		T	69942692	T	T	69942692	3	4	153	1	0	0	0	0	1	0	0	0	17442	536	19	1	973	1	WWP2	16	69942692	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2028611	69942692	20412061	1320	83252											
WWP2	11060	broad.mit.edu	37	chr16	69963368	69963368	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagaagagacaggacaatGgacgggtgtattacgtgaac	15	6	14	6	2	0	3	0	1	0	2	0	7	0	5	0	3	2	1	0	3	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:69963368G>T	uc002exu.1	+	13	1341	c.1252G>T	c.(1252-1254)GGA>TGA	p.G418*	WWP2_uc002exv.1_Nonsense_Mutation_p.G418*|WWP2_uc010vlm.1_Nonsense_Mutation_p.G302*|WWP2_uc010vln.1_Nonsense_Mutation_p.G36*|WWP2_uc002exw.1_5'UTR	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	418	WW 3.				entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						ACAGGACAATGGACGGGTGTA	0.577											OREG0023910	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	53					5.03518e-11	5.302e-11	1	1	0		T	69963368	T	T	69963368	4	4	153	1	0	0	0	0	0	1	0	0	17442	1349	47	5	1298	5	WWP2	16	69963368	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	20676	69963368	20391385	1321	83253											
PDPR	55066	broad.mit.edu	37	chr16	70172927	70172927	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgggtcatggaagtcatgcGtaagtgaagctttatcgcag	10	10	13	8	3	2	1	2	1	0	0	3	2	2	2	1	2	2	3	1	2	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:70172927G>A	uc002eyf.1	+	11	2272	c.1315_splice	c.e11+1	p.P439_splice	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Splice_Site_p.P339_splice|PDPR_uc002eyg.1_Splice_Site_p.P167_splice	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory						glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		GAAGTCATGCGTAAGTGAAGC	0.498													8	38					0	0	1	0	0		A	70172927	A	A	70172927	5	1	153	1	0	0	0	0	0	0	1	0	11708	1159	40	1	1350	1	PDPR	16	70172927	Splice_Site	SNP	G	TCGA-CG-5723-01A-11D-1600-08	209559	70172927	20181826	1322	83254											
FUK	197258	broad.mit.edu	37	chr16	70501297	70501297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcagctgggacagcttcCggggagccagagtgatcgcc	8	7	15	11	2	1	2	1	1	0	1	3	4	2	4	3	3	3	3	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:70501297C>T	uc002eyy.2	+	7	563	c.505C>T	c.(505-507)CGG>TGG	p.R169W	FUK_uc010vmb.1_3'UTR|FUK_uc010cft.2_Missense_Mutation_p.R201W|FUK_uc002eyz.2_Intron	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	169						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				GGACAGCTTCCGGGGAGCCAG	0.652													5	14					0	0	1	0	0		T	70501297	T	T	70501297	3	4	153	1	0	0	0	0	1	0	0	0	6110	643	23	1	527	1	FUK	16	70501297	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	328370	70501297	19853456	1323	83255											
PHLPP2	23035	broad.mit.edu	37	chr16	71690580	71690580	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaattttcagggttgtgaTatggctgtgggaggtgaagg	9	13	16	3	0	2	2	2	2	0	0	2	3	2	3	0	5	0	2	0	5	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:71690580T>C	uc002fax.2	-	15	2290	c.2284A>G	c.(2284-2286)ATC>GTC	p.I762V	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.I695V	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	762						cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						AGGGTTGTGATATGGCTGTGG	0.368													55	174					0	0	1	0	0		C	71690580	C	C	71690580	3	2	153	1	0	0	0	0	1	0	0	0	11874	1406	49	3	1703	3	PHLPP2	16	71690580	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1189283	71690580	18664173	1324	83256											
ZFHX3	463	broad.mit.edu	37	chr16	72992888	72992888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcctggggctgctcggggCcagcggcggagcccgctggg	3	4	20	14	4	0	0	0	0	0	0	1	1	0	1	3	7	4	3	3	7	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:72992888C>T	uc002fck.2	-	2	1830	c.1157G>A	c.(1156-1158)GGC>GAC	p.G386D	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	386					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTGCTCGGGGCCAGCGGCGGA	0.602													28	79					0	0	1	0	0		T	72992888	T	T	72992888	3	4	153	1	0	0	0	0	1	0	0	0	17659	739	26	2	9990	2	ZFHX3	16	72992888	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1302308	72992888	17361865	1325	83257											
BCAR1	9564	broad.mit.edu	37	chr16	75263765	75263765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcagtgtggtcaggttggCctcacactgctccaggtaga	7	10	14	10	0	3	1	3	0	0	1	4	1	4	1	2	5	1	3	2	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:75263765C>T	uc002fdv.2	-	7	2380	c.2257G>A	c.(2257-2259)GCC>ACC	p.A753T	BCAR1_uc002fdt.2_Missense_Mutation_p.A206T|BCAR1_uc002fdu.2_Missense_Mutation_p.A543T|BCAR1_uc010cgu.2_Missense_Mutation_p.A742T|BCAR1_uc010vna.1_Missense_Mutation_p.A751T|BCAR1_uc010vnb.1_Missense_Mutation_p.A799T|BCAR1_uc002fdw.2_Missense_Mutation_p.A753T|BCAR1_uc010vnc.1_Missense_Mutation_p.A605T|BCAR1_uc010vnd.1_Missense_Mutation_p.A771T|BCAR1_uc002fdx.2_Missense_Mutation_p.A771T	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	753	Divergent helix-loop-helix motif.				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		GTCAGGTTGGCCTCACACTGC	0.662													13	47					0	0	1	0	0		T	75263765	T	T	75263765	3	4	153	1	0	0	0	0	1	0	0	0	1349	739	26	2	359	2	BCAR1	16	75263765	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2270877	75263765	15090988	1326	83258											
CNTNAP4	85445	broad.mit.edu	37	chr16	76555939	76555939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtaatatttccagctcCgacagtagtgactttttcat	10	16	7	8	1	1	1	1	1	0	0	3	2	3	1	2	0	1	3	2	0	3	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:76555939C>T	uc002feu.1	+	19	2925	c.2540C>T	c.(2539-2541)CCG>CTG	p.P847L	CNTNAP4_uc002fev.1_Missense_Mutation_p.P711L|CNTNAP4_uc010chb.1_Missense_Mutation_p.P774L|CNTNAP4_uc002fex.1_Missense_Mutation_p.P850L	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	847	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						TTTCCAGCTCCGACAGTAGTG	0.458													55	210					0	0	1	0	0		T	76555939	T	T	76555939	3	4	153	1	0	0	0	0	1	0	0	0	3652	652	23	1	2619	1	CNTNAP4	16	76555939	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1292174	76555939	13798814	1327	83259											
PKD1L2	114780	broad.mit.edu	37	chr16	81249919	81249919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaggaagggcctctccCgatgtggccgcaggtgtcag	7	7	15	12	2	3	1	2	0	1	1	4	3	3	2	3	4	0	1	3	4	1	0	rs117142104	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:81249919C>T	uc002fgh.1	-	2	394	c.394G>A	c.(394-396)GGG>AGG	p.G132R	PKD1L2_uc002fgj.2_Missense_Mutation_p.G132R	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	132	Extracellular (Potential).|C-type lectin.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GGGCCTCTCCCGATGTGGCCG	0.652													20	47					0	0	1	0	0		T	81249919	T	T	81249919	3	4	153	1	0	0	0	0	1	0	0	0	11984	652	23	1	7222	1	PKD1L2	16	81249919	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4693980	81249919	9104834	1328	83260											
PKD1L2	114780	broad.mit.edu	37	chr16	81253808	81253808	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatggcctccttgcccctcGcaccagctctgggcatcacg	7	8	9	17	2	2	0	1	0	1	0	4	0	3	0	5	2	2	3	5	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:81253808G>A	uc002fgh.1	-	1	168	c.168C>T	c.(166-168)TGC>TGT	p.C56C	PKD1L2_uc002fgj.2_Silent_p.C56C	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	56	Extracellular (Potential).|C-type lectin.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CTTGCCCCTCGCACCAGCTCT	0.552													35	91					0	0	1	0	0		A	81253808	A	A	81253808	2	1	153	1	0	0	0	0	0	0	0	1	11984	1079	38	1		1	PKD1L2	16	81253808	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3889	81253808	9100945	1329	83261											
PLCG2	5336	broad.mit.edu	37	chr16	81934352	81934352	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgctgaccagctgccctcGcccagccagctgcgggagaa	8	5	13	15	2	0	2	0	1	0	1	1	3	0	2	4	1	6	3	4	1	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:81934352G>A	uc002fgt.2	+	14	1481	c.1329G>A	c.(1327-1329)TCG>TCA	p.S443S	PLCG2_uc010chg.1_Silent_p.S443S	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	443	PI-PLC X-box.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						AGCTGCCCTCGCCCAGCCAGC	0.637													6	32					0	0	1	0	0		A	81934352	A	A	81934352	2	1	153	1	0	0	0	0	0	0	0	1	12055	1074	38	1		1	PLCG2	16	81934352	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	680544	81934352	8420401	1330	83262											
PLCG2	5336	broad.mit.edu	37	chr16	81944173	81944173	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atccgctccaccatggagggCgggaccctgaaatactactt	10	8	10	13	2	0	1	0	1	0	0	2	3	2	3	4	3	2	1	4	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:81944173C>T	uc002fgt.2	+	18	1934	c.1782C>T	c.(1780-1782)GGC>GGT	p.G594G	PLCG2_uc010chg.1_Silent_p.G594G	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	594	SH2 1.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						CCATGGAGGGCGGGACCCTGA	0.642													39	114					0	0	1	0	0		T	81944173	T	T	81944173	2	4	153	1	0	0	0	0	0	0	0	1	12055	755	27	1		1	PLCG2	16	81944173	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9821	81944173	8410580	1331	83263											
PLCG2	5336	broad.mit.edu	37	chr16	81965249	81965249	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgagagatcacctggaagaTtgacaccaaggtaggcacct	13	6	11	11	1	1	3	1	1	0	2	1	6	1	4	4	3	0	2	4	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:81965249T>A	uc002fgt.2	+	25	2881	c.2729T>A	c.(2728-2730)ATT>AAT	p.I910N		NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	910					intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						ACCTGGAAGATTGACACCAAG	0.607													17	91					0	0	1	0	0		A	81965249	A	A	81965249	3	1	153	1	0	0	0	0	1	0	0	0	12055	1493	52	5	2823	5	PLCG2	16	81965249	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	21076	81965249	8389504	1332	83264											
MLYCD	23417	broad.mit.edu	37	chr16	83948976	83948976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcctgatggccaactaccGctacttcctggaggagacgg	8	7	13	13	3	0	2	0	1	0	1	1	4	1	3	4	5	3	1	4	5	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:83948976G>A	uc002fgz.2	+	5	1384	c.1364G>A	c.(1363-1365)CGC>CAC	p.R455H		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	455					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						GCCAACTACCGCTACTTCCTG	0.612													9	36					0	0	1	0	0		A	83948976	A	A	83948976	3	1	153	1	0	0	0	0	1	0	0	0	9656	1087	38	1	1382	1	MLYCD	16	83948976	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1983727	83948976	6405777	1333	83265											
TAF1C	9013	broad.mit.edu	37	chr16	84218535	84218535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagagaggtcagggacgtcGctcagaccaagggggccggt	11	4	17	9	3	2	2	2	0	0	2	3	4	2	3	2	5	0	1	2	5	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:84218535G>A	uc002fhn.2	-	2	288	c.60C>T	c.(58-60)AGC>AGT	p.S20S	TAF1C_uc002fhm.2_Intron|TAF1C_uc010vnx.1_Silent_p.S20S|TAF1C_uc010vny.1_Intron|TAF1C_uc010vnz.1_Intron|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Intron|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Silent_p.S20S	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	20					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						CAGGGACGTCGCTCAGACCAA	0.627													5	25					0	0	1	0	0		A	84218535	A	A	84218535	2	1	153	1	0	0	0	0	0	0	0	1	15546	1078	38	1		1	TAF1C	16	84218535	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	269559	84218535	6136218	1334	83266											
USP10	9100	broad.mit.edu	37	chr16	84806195	84806195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaactccctcctgtcctcGtgctgcacctgaaacgattc	10	10	6	15	2	0	1	0	1	0	0	5	2	3	1	4	0	4	2	4	0	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:84806195G>A	uc002fii.2	+	12	2189	c.2047G>A	c.(2047-2049)GTG>ATG	p.V683M	USP10_uc010voe.1_Missense_Mutation_p.V687M|USP10_uc010vof.1_Missense_Mutation_p.V245M|USP10_uc002fij.2_Missense_Mutation_p.V209M	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	683					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						TCCTGTCCTCGTGCTGCACCT	0.448													71	242					0	0	1	0	0		A	84806195	A	A	84806195	3	1	153	1	0	0	0	0	1	0	0	0	17067	1145	40	1	2093	1	USP10	16	84806195	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	587660	84806195	5548558	1335	83267											
IRF8	3394	broad.mit.edu	37	chr16	85948086	85948086	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttctcctgcaggcgtgccGctggtgacggggtacaccac	5	9	14	13	3	1	1	0	1	1	0	2	1	1	1	3	4	3	4	3	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:85948086G>A	uc002fjh.2	+	6	618	c.561G>A	c.(559-561)CCG>CCA	p.P187P	IRF8_uc010chp.2_Intron	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	187					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(2)|ovary(1)	3		Prostate(104;0.0771)				CAGGCGTGCCGCTGGTGACGG	0.572													11	31					0	0	1	0	0		A	85948086	A	A	85948086	2	1	153	1	0	0	0	0	0	0	0	1	7852	1074	38	1		1	IRF8	16	85948086	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1141891	85948086	4406667	1336	83268											
SLC7A5	8140	broad.mit.edu	37	chr16	87872417	87872417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcccaggtgatagttccCgaagtcctaggcaggcacaa	11	6	12	12	2	0	1	0	1	0	0	2	3	2	1	3	3	0	3	3	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:87872417C>T	uc002fkm.2	-	6	1018	c.946G>A	c.(946-948)GGG>AGG	p.G316R		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	316					blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0				BRCA - Breast invasive adenocarcinoma(80;0.049)		TGATAGTTCCCGAAGTCCTAG	0.667													14	74					0	0	1	0	0		T	87872417	T	T	87872417	3	4	153	1	0	0	0	0	1	0	0	0	14725	652	23	1	597	1	SLC7A5	16	87872417	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1924331	87872417	2482336	1337	83269											
GALNS	2588	broad.mit.edu	37	chr16	88901652	88901652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggaaatgagggcagcgccGttgtccgacgtgaagaagac	11	5	16	9	5	0	4	0	2	0	2	1	6	1	5	2	2	1	2	2	2	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:88901652G>A	uc002fly.3	-	8	956	c.867C>T	c.(865-867)AAC>AAT	p.N289N	GALNS_uc010cid.2_Silent_p.N295N|GALNS_uc002flz.3_Translation_Start_Site	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	289		Calcium (By similarity).				lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	GGGCAGCGCCGTTGTCCGACG	0.602													6	10					0	0	1	0	0		A	88901652	A	A	88901652	2	1	153	1	0	0	0	0	0	0	0	1	6221	1136	40	1		1	GALNS	16	88901652	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1029235	88901652	1453101	1338	83270											
ANKRD11	29123	broad.mit.edu	37	chr16	89345633	89345633	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctgatctgcaggtattcGaagtaggggttggccctgtc	6	13	13	9	1	1	1	0	1	1	0	4	2	2	1	2	4	1	4	2	4	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:89345633G>A	uc002fmx.1	-	9	7778	c.7317C>T	c.(7315-7317)TTC>TTT	p.F2439F	ANKRD11_uc002fmy.1_Silent_p.F2439F|ANKRD11_uc002fnc.1_Silent_p.F2439F|ANKRD11_uc002fna.1_Silent_p.F104F|ANKRD11_uc002fnb.1_Silent_p.F2396F	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2439						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		GCAGGTATTCGAAGTAGGGGT	0.607													6	24					0	0	1	0	0		A	89345633	A	A	89345633	2	1	153	1	0	0	0	0	0	0	0	1	639	1049	37	1		1	ANKRD11	16	89345633	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	443981	89345633	1009120	1339	83271											
TUBB3	10381	broad.mit.edu	37	chr16	90001817	90001817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccaccgtgttccggggcCgcatgtccatgaaggaggtg	6	8	16	11	3	0	1	0	1	0	0	2	2	2	2	5	5	0	2	5	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr16:90001817C>T	uc002fph.1	+	4	1023	c.958C>T	c.(958-960)CGC>TGC	p.R320C	TUBB3_uc002fpf.2_Missense_Mutation_p.R667C|TUBB3_uc010ciz.1_Missense_Mutation_p.R248C|TUBB3_uc002fpg.1_Missense_Mutation_p.R174C|TUBB3_uc002fpi.1_Missense_Mutation_p.R248C|TUBB3_uc002fpj.1_Missense_Mutation_p.R248C|TUBB3_uc010cjb.1_Missense_Mutation_p.R174C|TUBB3_uc002fpk.1_Missense_Mutation_p.R174C	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	320					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GTTCCGGGGCCGCATGTCCAT	0.632													23	68					0	0	1	0	0		T	90001817	T	T	90001817	3	4	153	1	0	0	0	0	1	0	0	0	16783	652	23	1	972	1	TUBB3	16	90001817	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	656184	90001817	352936	1340	83272											
NXN	64359	broad.mit.edu	37	chr17	708453	708453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccgcgtgatcacctcGccctgcgggtccagcatgat	5	8	11	17	4	1	2	1	2	0	0	3	2	2	2	5	1	3	1	5	1	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:708453G>A	uc002fsa.2	-	6	947	c.855C>T	c.(853-855)GGC>GGT	p.G285G	NXN_uc010vqd.1_Intron|NXN_uc002frz.2_Silent_p.G36G|NXN_uc010vqe.1_Silent_p.G177G	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	285	Thioredoxin.				cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		TGATCACCTCGCCCTGCGGGT	0.701													3	15					0	0	1	0	0		A	708453	A	A	708453	2	1	153	1	0	0	0	0	0	0	0	1	10806	1074	38	1		1	NXN	17	708453	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08		708453	80486757	1341	83273											
TUSC5	286753	broad.mit.edu	37	chr17	1183640	1183640	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcgcctgcttctgcccCgtctggcccctcaacctcat	3	11	8	19	3	4	0	2	0	2	0	6	0	4	0	6	1	3	1	6	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:1183640C>T	uc002fsi.1	+	1	684	c.345C>T	c.(343-345)CCC>CCT	p.P115P		NM_172367	NP_758955	Q8IXB3	TUSC5_HUMAN	LOST1	115	Helical; (Potential).				response to biotic stimulus	integral to membrane		p.P115S(1)		skin(2)	2				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GCTTCTGCCCCGTCTGGCCCC	0.617													26	121					0	0	1	0	0		T	1183640	T	T	1183640	2	4	153	1	0	0	0	0	0	0	0	1	16805	639	23	1		1	TUSC5	17	1183640	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	475187	1183640	80011570	1342	83274											
SMG6	23293	broad.mit.edu	37	chr17	2200581	2200581	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatggcaagaccatccatgtAgtcttccagtttgaacttgt	11	13	8	9	0	1	2	0	1	1	1	3	2	3	2	3	1	1	3	3	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:2200581A>G	uc002fub.1	-	4	2162	c.2107T>C	c.(2107-2109)TAC>CAC	p.Y703H		NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	703					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CCATCCATGTAGTCTTCCAGT	0.318													35	169					0	0	1	0	0		G	2200581	G	G	2200581	3	3	153	1	0	0	0	0	1	0	0	0	14822	420	15	3	2216	3	SMG6	17	2200581	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1016941	2200581	78994629	1343	83275											
RAP1GAP2	23108	broad.mit.edu	37	chr17	2894595	2894595	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgtttctctttcagacccTggaggaggagctatttggga	7	13	12	9	0	2	1	1	0	1	1	3	5	2	5	2	4	1	2	2	4	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:2894595T>C	uc010ckd.2	+	12	908	c.818T>C	c.(817-819)CTG>CCG	p.L273P	RAP1GAP2_uc010cke.2_Missense_Mutation_p.L258P	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	273	Rap-GAP.				regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						TTTCAGACCCTGGAGGAGGAG	0.478													3	15					0	0	1	0	0		C	2894595	C	C	2894595	3	2	153	1	0	0	0	0	1	0	0	0	13063	1580	55	3	864	3	RAP1GAP2	17	2894595	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	694014	2894595	78300615	1344	83276											
OR1D2	4991	broad.mit.edu	37	chr17	2996177	2996177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagcacatttcccaccacCgtgaccaggtacatggacag	12	7	9	13	1	0	2	0	2	0	0	1	3	1	3	4	2	2	2	4	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:2996177C>T	uc010vrb.1	-	1	114	c.114G>A	c.(112-114)ACG>ACA	p.T38T		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	38	Helical; Name=1; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						TTCCCACCACCGTGACCAGGT	0.552													36	148					0	0	1	0	0		T	2996177	T	T	2996177	2	4	153	1	0	0	0	0	0	0	0	1	10972	639	23	1		1	OR1D2	17	2996177	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	101582	2996177	78199033	1345	83277											
ASPA	443	broad.mit.edu	37	chr17	3402247	3402247	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaactcttgatgggaagacGatcccactgggcggagactg	10	9	13	9	2	1	3	0	1	1	2	2	6	2	4	1	3	1	0	1	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:3402247G>A	uc010ckg.2	+	7	898	c.807G>A	c.(805-807)ACG>ACA	p.T269T	SPATA22_uc010vrg.1_Intron|ASPA_uc002fvq.2_Silent_p.T269T	NM_001128085	NP_001121557	P45381	ACY2_HUMAN	aspartoacylase	269					aspartate catabolic process	cytoplasm|nucleus	aminoacylase activity|aspartoacylase activity|hydrolase activity, acting on ester bonds|metal ion binding				0					L-Aspartic Acid(DB00128)	ATGGGAAGACGATCCCACTGG	0.428													12	43					0	0	1	0	0		A	3402247	A	A	3402247	2	1	153	1	0	0	0	0	0	0	0	1	1051	1045	37	1		1	ASPA	17	3402247	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	406070	3402247	77792963	1346	83278											
ATP2A3	489	broad.mit.edu	37	chr17	3851105	3851105	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctccgtgtgcaggccggtGgccacggccacacccaccgc	6	4	13	18	4	0	0	0	0	0	0	1	0	1	0	6	4	2	2	6	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:3851105G>T	uc002fxb.1	-	8	826	c.675C>A	c.(673-675)GCC>GCA	p.A225A	ATP2A3_uc002fwx.1_Silent_p.A225A|ATP2A3_uc002fwy.1_Silent_p.A225A|ATP2A3_uc002fwz.1_Silent_p.A225A|ATP2A3_uc002fxa.1_Silent_p.A225A|ATP2A3_uc002fxc.1_Silent_p.A225A|ATP2A3_uc002fxd.1_Silent_p.A225A	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	225	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		GCAGGCCGGTGGCCACGGCCA	0.672													4	6					0.014758	0.014914	1	1	0		T	3851105	T	T	3851105	2	4	153	1	0	0	0	0	0	0	0	1	1139	1335	47	5		5	ATP2A3	17	3851105	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	448858	3851105	77344105	1347	83279											
SMTNL2	342527	broad.mit.edu	37	chr17	4497136	4497136	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaattcctctttcacGtggtctgtgccaagctctgg	8	12	11	10	1	4	2	1	0	3	2	5	3	5	2	2	2	2	1	2	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:4497136G>A	uc002fyf.1	+	4	817	c.750G>A	c.(748-750)ACG>ACA	p.T250T	SMTNL2_uc002fye.2_Silent_p.T106T	NM_001114974	NP_001108446	Q2TAL5	SMTL2_HUMAN	smoothelin-like 2 isoform 1	250											0				READ - Rectum adenocarcinoma(115;0.0325)		CCTCTTTCACGTGGTCTGTGC	0.592													13	67					0	0	1	0	0		A	4497136	A	A	4497136	2	1	153	1	0	0	0	0	0	0	0	1	14841	1132	40	1		1	SMTNL2	17	4497136	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	646031	4497136	76698074	1348	83280											
ZMYND15	84225	broad.mit.edu	37	chr17	4646665	4646665	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggcctcactcgtggctattgGacccagctcagcatgctgat	7	10	11	13	1	2	1	2	1	0	0	3	2	2	2	2	3	3	4	2	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:4646665G>A	uc002fyt.2	+	6	1251	c.1212G>A	c.(1210-1212)TGG>TGA	p.W404*	ZMYND15_uc002fyv.2_Nonsense_Mutation_p.W404*|ZMYND15_uc002fyu.2_Nonsense_Mutation_p.W404*	NM_032265	NP_115641	Q9H091	ZMY15_HUMAN	zinc finger, MYND-type containing 15 isoform 2	404							zinc ion binding				0						GTGGCTATTGGACCCAGCTCA	0.612													9	274					0	0	1	0	0		A	4646665	A	A	4646665	4	1	153	1	0	0	0	0	0	1	0	0	17733	1183	41	4	1230	4	ZMYND15	17	4646665	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	149529	4646665	76548545	1349	83281											
RPAIN	84268	broad.mit.edu	37	chr17	5329385	5329385	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggaggcaaacccactcatCtgtcctgtatgtacaaagta	12	10	9	10	0	2	0	1	0	1	0	3	1	3	1	2	2	2	4	2	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:5329385C>T	uc002gbq.2	+	4	978	c.408C>T	c.(406-408)ATC>ATT	p.I136I	RPAIN_uc010vsz.1_Silent_p.I136I|RPAIN_uc002gbp.1_Intron|RPAIN_uc010vta.1_Intron|RPAIN_uc010vtb.1_Silent_p.I136I|RPAIN_uc002gbs.2_Intron|RPAIN_uc002gbt.2_Silent_p.I136I|RPAIN_uc002gbu.2_Intron|RPAIN_uc002gbv.2_Intron|RPAIN_uc002gbr.2_RNA|RPAIN_uc002gbw.2_Intron|RPAIN_uc002gbx.1_5'Flank	NM_001033002	NP_001028174	Q86UA6	RIP_HUMAN	RPA interacting protein isoform b	136					DNA recombination|DNA repair|DNA-dependent DNA replication|protein import into nucleus|response to UV	cytoplasm|cytoplasm|nucleolus|PML body|PML body	metal ion binding|protein complex binding				0						ACCCACTCATCTGTCCTGTAT	0.458													6	48					0	0	1	0	0		T	5329385	T	T	5329385	2	4	153	1	0	0	0	0	0	0	0	1	13565	903	32	4		4	RPAIN	17	5329385	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	682720	5329385	75865825	1350	83282											
AIPL1	23746	broad.mit.edu	37	chr17	6328845	6328845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctctgcagggggccctgCggacagctctgcagatggtg	5	8	17	11	1	2	1	0	0	2	1	2	2	2	2	1	5	4	4	1	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:6328845C>T	uc002gcp.2	-	6	1185	c.1090G>A	c.(1090-1092)GCA>ACA	p.A364T	AIPL1_uc002gcq.2_Missense_Mutation_p.A304T|AIPL1_uc002gcr.2_Missense_Mutation_p.A301T|AIPL1_uc010clk.2_Missense_Mutation_p.A342T|AIPL1_uc010cll.2_Missense_Mutation_p.A340T|AIPL1_uc002gcs.2_3'UTR	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	364					protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		gggggccctgcggacagctct	0.269													14	40					0	0	1	0	0		T	6328845	T	T	6328845	3	4	153	1	0	0	0	0	1	0	0	0	436	768	27	1	68	1	AIPL1	17	6328845	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	999460	6328845	74866365	1351	83283											
FBXO39	162517	broad.mit.edu	37	chr17	6690183	6690183	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcctgcaggaagttgtttTacttcaaaatctgggctttc	9	16	8	8	0	2	0	1	0	1	0	4	1	3	1	1	2	2	4	1	2	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:6690183T>A	uc010vtg.1	+	3	1228	c.1108T>A	c.(1108-1110)TAC>AAC	p.Y370N	FBXO39_uc010cls.1_RNA	NM_153230	NP_694962	Q8N4B4	FBX39_HUMAN	F-box protein 39	370										ovary(1)|skin(1)	2						GAAGTTGTTTTACTTCAAAAT	0.453													5	139					0	0	1	0	0		A	6690183	A	A	6690183	3	1	153	1	0	0	0	0	1	0	0	0	5761	1754	61	5	1114	5	FBXO39	17	6690183	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	361338	6690183	74505027	1352	83284											
NLGN2	57555	broad.mit.edu	37	chr17	7320376	7320376	+	Missense_Mutation	SNP	T	C	C	0	1	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	cataggcctgaagccacgcgTgcgtgacaactaccgcgcca	10	5	11	15	5	0	2	0	2	0	0	0	2	0	2	4	1	4	0	4	1	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7320376T>C	uc002ggt.1	+	7	1839	c.1766T>C	c.(1765-1767)GTG>GCG	p.V589A		NM_020795	NP_065846	Q8NFZ4	NLGN2_HUMAN	neuroligin 2 precursor	589	Extracellular (Potential).				cell-cell junction maintenance|neuron cell-cell adhesion|positive regulation of synaptogenesis|regulation of inhibitory postsynaptic membrane potential|synapse assembly	cell surface|integral to plasma membrane|postsynaptic membrane	neurexin binding|receptor activity			central_nervous_system(1)	1		Prostate(122;0.157)				AAGCCACGCGTGCGTGACAAC	0.587													8	21					0	0	1	0	0		C	7320376	C	C	7320376	3	2	153	1	0	0	0	0	1	0	0	0	10481	1696	59	3	1792	3	NLGN2	17	7320376	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	630193	7320376	73874834	1353	83285											
POLR2A	5430	broad.mit.edu	37	chr17	7415852	7415852	+	Missense_Mutation	SNP	A	G	G	1	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	tgggtggaatctctcctgccAtgacaccttggaaccagggt	8	10	12	11	0	1	1	0	1	1	0	3	3	2	3	4	4	2	0	4	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7415852A>G	uc002ghf.3	+	27	4783	c.4549A>G	c.(4549-4551)ATG>GTG	p.M1517V		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1517					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				CTCTCCTGCCATGACACCTTG	0.572													4	57					0	0	1	0	0		G	7415852	G	G	7415852	3	3	153	1	0	0	0	0	1	0	0	0	12233	217	8	3	4655	3	POLR2A	17	7415852	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	95476	7415852	73779358	1354	83286											
POLR2A	5430	broad.mit.edu	37	chr17	7417070	7417070	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctacagccccagctcGcccagctacagcccagcctc	8	4	7	22	1	0	0	0	0	0	0	2	0	0	0	6	0	8	3	6	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7417070G>A	uc002ghf.3	+	29	5721	c.5487G>A	c.(5485-5487)TCG>TCA	p.S1829S		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1829	34.|52 X 7 AA approximate tandem repeats of Y-[ST]-P-[STQ]-[ST]-P-[SRTEVKGN].				mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				gccccagctcgcccagctaca	0.443													54	205					0	0	1	0	0		A	7417070	A	A	7417070	2	1	153	1	0	0	0	0	0	0	0	1	12233	1074	38	1		1	POLR2A	17	7417070	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1218	7417070	73778140	1355	83287											
TP53	7157	broad.mit.edu	37	chr17	7578424	7578424	+	Missense_Mutation	SNP	A	G	G	1	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	agcgcctcacaacctccgtcAtgtgctgtgactgcttgtag	7	11	10	13	2	2	1	2	1	0	0	3	1	3	1	3	0	4	3	3	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7578424A>G	uc002gim.2	-	5	700	c.506T>C	c.(505-507)ATG>ACG	p.M169T	TP53_uc002gig.1_Missense_Mutation_p.M169T|TP53_uc002gih.2_Missense_Mutation_p.M169T|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.M37T|TP53_uc010cng.1_Missense_Mutation_p.M37T|TP53_uc002gii.1_Missense_Mutation_p.M37T|TP53_uc010cnh.1_Missense_Mutation_p.M169T|TP53_uc010cni.1_Missense_Mutation_p.M169T|TP53_uc002gij.2_Missense_Mutation_p.M169T|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.M76T|TP53_uc002gio.2_Missense_Mutation_p.M37T|TP53_uc010vug.1_Missense_Mutation_p.M130T	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	169	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		M -> T (in sporadic cancers; somatic mutation).|M -> V (in sporadic cancers; somatic mutation).|HM -> LI (in a sporadic cancer; somatic mutation).|M -> K (in sporadic cancers; somatic mutation).|M -> I (in sporadic cancers; somatic mutation).|MT -> IS (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.M169I(8)|p.0?(7)|p.M169V(3)|p.M169T(3)|p.V157_C176del20(1)|p.K164_P219del(1)|p.H168fs*69(1)|p.P151_V173del23(1)|p.H168fs*3(1)|p.H168fs*4(1)|p.Q165_M169delQSQHM(1)|p.H168_M169>LI(1)|p.S149fs*72(1)|p.M169fs*2(1)|p.M169fs*12(1)|p.M169_T170insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AACCTCCGTCATGTGCTGTGA	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			5	36					0	0	1	0	0		G	7578424	G	G	7578424	3	3	153	1	0	0	0	0	1	0	0	0	16407	217	8	3	792	3	TP53	17	7578424	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	161354	7578424	73616786	1356	83288											
DNAH2	146754	broad.mit.edu	37	chr17	7710586	7710586	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccagcctgatatcatcggCcgcgtctccctggctgccaa	6	10	9	16	3	2	1	1	1	1	0	5	1	3	1	5	2	2	1	5	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7710586C>T	uc002giu.1	+	61	9575	c.9561C>T	c.(9559-9561)GGC>GGT	p.G3187G	DNAH2_uc010cnm.1_Silent_p.G125G	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3187	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				ATATCATCGGCCGCGTCTCCC	0.592													31	82					0	0	1	0	0		T	7710586	T	T	7710586	2	4	153	1	0	0	0	0	0	0	0	1	4608	726	26	2		2	DNAH2	17	7710586	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	132162	7710586	73484624	1357	83289											
CYB5D1	124637	broad.mit.edu	37	chr17	7761538	7761538	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcggaggtggcccaacataAcaggcccgaagacctctggg	10	4	15	12	2	1	1	0	0	1	1	1	3	1	2	3	6	2	0	3	6	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7761538A>T	uc002gjb.3	+	1	475	c.86A>T	c.(85-87)AAC>ATC	p.N29I	LSMD1_uc002giz.2_5'Flank|LSMD1_uc002gja.2_5'Flank|CYB5D1_uc010cnn.1_Missense_Mutation_p.N29I	NM_144607	NP_653208	Q6P9G0	CB5D1_HUMAN	cytochrome b5 domain containing 1	29	Cytochrome b5 heme-binding.						heme binding			skin(1)	1		all_cancers(10;0.11)|Prostate(122;0.219)				GCCCAACATAACAGGCCCGAA	0.612											OREG0024147	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	82					0	0	1	0	0		T	7761538	T	T	7761538	3	4	153	1	0	0	0	0	1	0	0	0	4127	43	2	5	88	5	CYB5D1	17	7761538	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	50952	7761538	73433672	1358	83290											
CHD3	1107	broad.mit.edu	37	chr17	7803346	7803346	+	Missense_Mutation	SNP	T	C	C	0	1	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	atcgactcaagaacaaccagTccaaggtgagtgaggtttcc	13	8	10	10	1	1	3	1	2	0	1	4	4	3	3	3	2	2	1	3	2	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7803346T>C	uc002gje.2	+	16	2827	c.2677T>C	c.(2677-2679)TCC>CCC	p.S893P	CHD3_uc002gjd.2_Missense_Mutation_p.S952P|CHD3_uc002gjf.2_Missense_Mutation_p.S893P	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	893	Helicase ATP-binding.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GAACAACCAGTCCAAGGTGAG	0.468													15	35					0	0	1	0	0		C	7803346	C	C	7803346	3	2	153	1	0	0	0	0	1	0	0	0	3329	1667	58	3	3020	3	CHD3	17	7803346	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	41808	7803346	73391864	1359	83291											
GUCY2D	3000	broad.mit.edu	37	chr17	7917326	7917326	+	Missense_Mutation	SNP	A	G	G	1	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	agccggaacttcggccctccAtggaccacaccttcgacctg	8	7	9	17	3	0	0	0	0	0	0	3	3	1	2	6	3	2	0	6	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:7917326A>G	uc002gjt.2	+	12	2466	c.2392A>G	c.(2392-2394)ATG>GTG	p.M798V		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	798	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				TCGGCCCTCCATGGACCACAC	0.617													25	77					0	0	1	0	0		G	7917326	G	G	7917326	3	3	153	1	0	0	0	0	1	0	0	0	6913	217	8	3	2434	3	GUCY2D	17	7917326	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	113980	7917326	73277884	1360	83292											
MYH10	4628	broad.mit.edu	37	chr17	8381732	8381732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcagcttcttctcagtgCgacggactaatttgttggcg	6	15	10	10	3	3	0	2	0	2	0	4	2	3	1	0	2	2	2	0	2	1	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:8381732C>T	uc002gll.2	-	39	5633	c.5537G>A	c.(5536-5538)CGC>CAC	p.R1846H	MYH10_uc002glm.2_Missense_Mutation_p.R1877H|MYH10_uc010cnx.2_Missense_Mutation_p.R1855H	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1846	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CTTCTCAGTGCGACGGACTAA	0.458													42	132					0	0	1	0	0		T	8381732	T	T	8381732	3	4	153	1	0	0	0	0	1	0	0	0	10048	768	27	1	405	1	MYH10	17	8381732	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	464406	8381732	72813478	1361	83293											
CCDC42	146849	broad.mit.edu	37	chr17	8638419	8638419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcccctcctcctaccatgtCcagctgcttgtgggtgtcct	3	13	9	16	0	0	0	0	0	0	0	5	0	5	0	7	1	3	2	7	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:8638419C>T	uc002gln.2	-	6	1095	c.868G>A	c.(868-870)GAC>AAC	p.D290N	CCDC42_uc002glo.2_Missense_Mutation_p.D216N	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	290										ovary(1)	1						CCTACCATGTCCAGCTGCTTG	0.597													8	42					0	0	1	0	0		T	8638419	T	T	8638419	3	4	153	1	0	0	0	0	1	0	0	0	2817	855	30	4	90	4	CCDC42	17	8638419	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	256687	8638419	72556791	1362	83294											
USP43	124739	broad.mit.edu	37	chr17	9570015	9570015	+	Silent	SNP	T	C	C	0	1	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	aactgcctgtcaccatcagcTcagcttcctctaggtcaaag	10	10	7	14	0	5	0	4	0	1	0	6	0	6	0	3	1	4	2	3	1	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:9570015T>C	uc010cod.2	+	3	687	c.687T>C	c.(685-687)GCT>GCC	p.A229A	USP43_uc002gma.3_5'UTR|USP43_uc010vva.1_Silent_p.A229A|USP43_uc010coe.2_Intron	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	229					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CACCATCAGCTCAGCTTCCTC	0.473													7	24					0	0	1	0	0		C	9570015	C	C	9570015	2	2	153	1	0	0	0	0	0	0	0	1	17100	1538	54	3		3	USP43	17	9570015	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	931596	9570015	71625195	1363	83295											
GAS7	8522	broad.mit.edu	37	chr17	9828912	9828912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctctgtgagggctttcCgggcctggggtccaaggaca	5	8	16	12	2	1	1	0	1	1	0	3	2	3	2	4	5	0	2	4	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:9828912C>T	uc002gmg.1	-	11	1180	c.1019G>A	c.(1018-1020)CGG>CAG	p.R340Q	GAS7_uc010vvc.1_Missense_Mutation_p.R154Q|GAS7_uc002gmh.1_Missense_Mutation_p.R200Q|GAS7_uc010vvd.1_Missense_Mutation_p.R292Q|GAS7_uc002gmi.2_Missense_Mutation_p.R276Q|GAS7_uc002gmj.1_Missense_Mutation_p.R280Q|GAS7_uc010coh.1_Missense_Mutation_p.R280Q	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	340	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						GAGGGCTTTCCGGGCCTGGGG	0.617			T	MLL	AML*								22	75					0	0	1	0	0		T	9828912	T	T	9828912	3	4	153	1	0	0	0	0	1	0	0	0	6265	652	23	1	427	1	GAS7	17	9828912	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	258897	9828912	71366298	1364	83296											
GAS7	8522	broad.mit.edu	37	chr17	9923135	9923135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaccgccggccctgaggcGacaggtagctctgccagcca	8	5	13	15	3	1	1	0	1	1	0	1	2	1	1	5	3	4	3	5	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:9923135G>A	uc002gmg.1	-	2	424	c.263C>T	c.(262-264)TCG>TTG	p.S88L	GAS7_uc010vvd.1_Missense_Mutation_p.S40L|GAS7_uc002gmi.2_Missense_Mutation_p.S24L|GAS7_uc002gmj.1_Missense_Mutation_p.S28L|GAS7_uc010coh.1_Missense_Mutation_p.S28L	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	88	WW.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						GCCCTGAGGCGACAGGTAGCT	0.597			T	MLL	AML*								15	54					0	0	1	0	0		A	9923135	A	A	9923135	3	1	153	1	0	0	0	0	1	0	0	0	6265	1059	37	1	1270	1	GAS7	17	9923135	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	94223	9923135	71272075	1365	83297											
MYOCD	93649	broad.mit.edu	37	chr17	12639605	12639605	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcagcgggatccccgccagaCgctaaagcctcagatacccc	10	5	9	17	3	2	2	2	0	0	2	3	3	3	3	6	1	3	1	6	1	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:12639605C>T	uc002gnn.2	+	6	842	c.543C>T	c.(541-543)GAC>GAT	p.D181D	MYOCD_uc002gno.2_Silent_p.D181D|MYOCD_uc002gnp.1_Silent_p.D85D	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	181	HDAC5-binding (By similarity).				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CCCCGCCAGACGCTAAAGCCT	0.488													38	102					0	0	1	0	0		T	12639605	T	T	12639605	2	4	153	1	0	0	0	0	0	0	0	1	10105	535	19	1		1	MYOCD	17	12639605	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2716470	12639605	68555605	1366	83298											
CDRT1	374286	broad.mit.edu	37	chr17	15522651	15522651	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatttaactgcttcagaatgCcaactagaaacctcctctgt	12	13	5	11	0	2	2	1	0	1	2	3	2	3	2	3	0	5	1	3	0	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:15522651C>A	uc002gov.3	-	1	368	c.176G>T	c.(175-177)GGC>GTC	p.G59V	TRIM16_uc002gor.1_Intron	NM_006382	NP_006373	O95170	CDRT1_HUMAN	CMT1A duplicated region transcript 1	59											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(2;1.36e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0541)		CTTCAGAATGCCAACTAGAAA	0.428													12	362					1.66031e-10	1.74462e-10	1	1	0		A	15522651	A	A	15522651	3	1	153	1	0	0	0	0	1	0	0	0	3177	739	26	5	2130	5	CDRT1	17	15522651	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2883046	15522651	65672559	1367	83299											
TRIM16	10626	broad.mit.edu	37	chr17	15532000	15532000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagatctacaatccggatggCgttttccttcttggaaagcc	9	12	9	11	2	2	1	0	0	2	1	4	3	4	3	3	3	2	1	3	3	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:15532000C>T	uc002gox.2	-	9	2181	c.1624G>A	c.(1624-1626)GCC>ACC	p.A542T	TRIM16_uc002gor.1_Intron|TRIM16_uc002gow.2_Missense_Mutation_p.A326T|TRIM16_uc002goy.2_Missense_Mutation_p.A412T	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	542	B30.2/SPRY.				histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		ATCCGGATGGCGTTTTCCTTC	0.517													8	51					0	0	1	0	0		T	15532000	T	T	15532000	3	4	153	1	0	0	0	0	1	0	0	0	16517	768	27	1	74	1	TRIM16	17	15532000	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9349	15532000	65663210	1368	83300											
NCOR1	9611	broad.mit.edu	37	chr17	15973548	15973548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataactcacaggggtcctccGtgcactggtgtcatcataaa	11	10	9	11	1	3	0	3	0	0	0	5	0	5	0	2	3	2	1	2	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:15973548G>A	uc002gpo.2	-	31	4684	c.4444C>T	c.(4444-4446)CGG>TGG	p.R1482W	NCOR1_uc002gpn.2_Missense_Mutation_p.R1498W|NCOR1_uc002gpp.1_Missense_Mutation_p.R1389W|NCOR1_uc002gpm.2_5'Flank|NCOR1_uc010vwb.1_Missense_Mutation_p.R66W|NCOR1_uc010coy.2_Missense_Mutation_p.R390W|NCOR1_uc010vwc.1_Missense_Mutation_p.R293W	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1482	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GGGGTCCTCCGTGCACTGGTG	0.498													82	317					0	0	1	0	0		A	15973548	A	A	15973548	3	1	153	1	0	0	0	0	1	0	0	0	10254	1144	40	1	2942	1	NCOR1	17	15973548	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	441548	15973548	65221662	1369	83301											
RAI1	10743	broad.mit.edu	37	chr17	17699170	17699170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggattccaccacctcggacGcctctctggcccagaagccc	7	6	10	18	2	1	1	0	0	1	1	4	3	2	3	6	3	1	0	6	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:17699170G>A	uc002grm.2	+	3	3377	c.2908G>A	c.(2908-2910)GCC>ACC	p.A970T	RAI1_uc002grn.1_Missense_Mutation_p.A970T	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	970						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CACCTCGGACGCCTCTCTGGC	0.617													11	25					0	0	1	0	0		A	17699170	A	A	17699170	3	1	153	1	0	0	0	0	1	0	0	0	13032	1087	38	1	2910	1	RAI1	17	17699170	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1725622	17699170	63496040	1370	83302											
ATPAF2	91647	broad.mit.edu	37	chr17	17929670	17929670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaaacttcacggctgcccGgatcagctgatccttgtttc	8	11	9	13	2	2	2	2	1	0	1	4	3	3	3	2	2	3	3	2	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:17929670G>A	uc002gse.1	-	4	538	c.385C>T	c.(385-387)CGG>TGG	p.R129W	ATPAF2_uc002gsd.1_RNA|ATPAF2_uc002gsf.1_RNA|ATPAF2_uc010cps.1_RNA	NM_145691	NP_663729	Q8N5M1	ATPF2_HUMAN	ATP synthase mitochondrial F1 complex assembly	129					proton-transporting ATP synthase complex assembly	mitochondrion|nuclear speck	protein binding				0	all_neural(463;0.228)					ACGGCTGCCCGGATCAGCTGA	0.498													4	119					0	0	1	0	0		A	17929670	A	A	17929670	3	1	153	1	0	0	0	0	1	0	0	0	1202	1115	39	1	504	1	ATPAF2	17	17929670	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	230500	17929670	63265540	1371	83303											
FLII	2314	broad.mit.edu	37	chr17	18148975	18148975	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccttctcgttggagcacCtgggaatcaagggtcaaggt	9	9	13	10	1	3	0	2	0	1	0	4	2	3	2	2	4	2	2	2	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:18148975C>A	uc002gsr.1	-	28	3555	c.3504_splice	c.e28-1	p.R1168_splice	FLII_uc002gsq.1_Splice_Site_p.R1039_splice|FLII_uc010cpy.1_Splice_Site_p.R1157_splice|FLII_uc010vxn.1_Splice_Site_p.R1137_splice|FLII_uc010vxo.1_Splice_Site_p.R1113_splice	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog						multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					GTTGGAGCACCTGGGAATCAA	0.552													43	136					6.48837e-15	6.89733e-15	1	1	0		A	18148975	A	A	18148975	5	1	153	1	0	0	0	0	0	0	1	0	5939	695	24	5	318	5	FLII	17	18148975	Splice_Site	SNP	C	TCGA-CG-5723-01A-11D-1600-08	219305	18148975	63046235	1372	83304											
SMCR7	125170	broad.mit.edu	37	chr17	18167618	18167618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acgcctggagctcactgtggCtgtgcttgtggcagtccctg	4	11	14	12	1	1	0	1	0	0	0	2	1	2	1	2	3	2	4	2	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:18167618C>T	uc002gst.2	+	4	1116	c.905C>T	c.(904-906)GCT>GTT	p.A302V	SMCR7_uc002gsu.2_3'UTR|SMCR7_uc010vxq.1_Missense_Mutation_p.A313V	NM_139162	NP_631901	Q96C03	SMCR7_HUMAN	Smith-Magenis syndrome chromosome region,	302						integral to membrane	protein binding				0	all_neural(463;0.228)					CTCACTGTGGCTGTGCTTGTG	0.677													20	41					0	0	1	0	0		T	18167618	T	T	18167618	3	4	153	1	0	0	0	0	1	0	0	0	14815	797	28	2	952	2	SMCR7	17	18167618	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	18643	18167618	63027592	1373	83305											
FBXW10	10517	broad.mit.edu	37	chr17	18647733	18647733	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagaggaggtttctagttgGcattctgaagcagttaaata	13	12	11	5	0	2	2	0	1	2	1	2	3	2	3	0	3	1	5	0	3	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:18647733G>T	uc002guk.2	+	1	408	c.176G>T	c.(175-177)GGC>GTC	p.G59V	FBXW10_uc002guj.2_Missense_Mutation_p.G59V|FBXW10_uc002gul.2_Missense_Mutation_p.G59V|FBXW10_uc010cqh.1_Missense_Mutation_p.G59V	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	59										ovary(1)	1						TTTCTAGTTGGCATTCTGAAG	0.423													51	190					2.60599e-31	2.82715e-31	1	1	0		T	18647733	T	T	18647733	3	4	153	1	0	0	0	0	1	0	0	0	5777	1203	42	5	178	5	FBXW10	17	18647733	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	480115	18647733	62547477	1374	83306											
EPN2	22905	broad.mit.edu	37	chr17	19235367	19235367	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcccagtccctcaaccCtttcctggcaccaggtaggc	8	7	8	18	0	1	0	1	0	0	0	3	0	3	0	6	3	2	2	6	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:19235367C>A	uc002gvd.3	+	10	2061	c.1613C>A	c.(1612-1614)CCT>CAT	p.P538H	EPN2_uc010cql.1_Missense_Mutation_p.P247H|EPN2_uc002gve.3_Missense_Mutation_p.P481H|EPN2_uc002gvf.3_Missense_Mutation_p.P253H|EPN2_uc010vyo.1_Missense_Mutation_p.P246H|EPN2_uc010vyp.1_Missense_Mutation_p.P474H|EPN2_uc010vyq.1_Missense_Mutation_p.P475H|EPN2_uc002gvh.1_Intron|EPN2_uc002gvj.3_Missense_Mutation_p.P201H	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	538	6 X 3 AA repeats of [DE]-P-W.|3 X 3 AA repeats of N-P-F.|1.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					TCCCTCAACCCTTTCCTGGCA	0.637													16	54					3.52763e-06	3.63261e-06	1	1	0		A	19235367	A	A	19235367	3	1	153	1	0	0	0	0	1	0	0	0	5194	681	24	5	1643	5	EPN2	17	19235367	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	587634	19235367	61959843	1375	83307											
RNF112	7732	broad.mit.edu	37	chr17	19319112	19319112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagatgccattctggcccGccatggtgtggccttactct	7	11	11	12	1	2	1	0	0	2	1	2	2	2	1	4	3	2	0	4	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:19319112G>A	uc010vyw.1	+	14	1719	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	RNF112_uc010vyv.1_Missense_Mutation_p.R508H	NM_007148	NP_009079	Q7Z5V9	Q7Z5V9_HUMAN	ring finger protein 112	507							GTP binding|GTPase activity|zinc ion binding			ovary(2)	2						ATTCTGGCCCGCCATGGTGTG	0.602													24	21					0	0	1	0	0		A	19319112	A	A	19319112	3	1	153	1	0	0	0	0	1	0	0	0	13451	1087	38	1	1284	1	RNF112	17	19319112	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	83745	19319112	61876098	1376	83308											
KIAA0100	9703	broad.mit.edu	37	chr17	26961681	26961681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaggaggcatctgccagaGctaccagttctagccctgct	9	8	12	12	0	2	1	0	0	2	1	2	3	2	3	3	3	5	4	3	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:26961681G>A	uc002hbu.2	-	16	3023	c.2924C>T	c.(2923-2925)GCT>GTT	p.A975V		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	975						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					ATCTGCCAGAGCTACCAGTTC	0.532													35	123					0	0	1	0	0		A	26961681	A	A	26961681	3	1	153	1	0	0	0	0	1	0	0	0	8170	971	34	2	3879	2	KIAA0100	17	26961681	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7642569	26961681	54233529	1377	83309											
SUPT6H	6830	broad.mit.edu	37	chr17	27017981	27017981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggcattgcccacaggcGtccccagggtgagagctatg	8	7	13	13	1	0	1	0	1	0	1	1	2	1	1	3	3	2	2	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:27017981G>A	uc002hby.2	+	27	3623	c.3533G>A	c.(3532-3534)CGT>CAT	p.R1178H	SUPT6H_uc010crt.2_Missense_Mutation_p.R1178H|SUPT6H_uc002hbz.1_Missense_Mutation_p.R110H	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1178					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					GCCCACAGGCGTCCCCAGGGT	0.542													16	46					0	0	1	0	0		A	27017981	A	A	27017981	3	1	153	1	0	0	0	0	1	0	0	0	15425	1145	40	1	3635	1	SUPT6H	17	27017981	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	56300	27017981	54177229	1378	83310											
SUPT6H	6830	broad.mit.edu	37	chr17	27028023	27028023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacccctagctactcctacaCgaccccaagccagcccatca	11	5	5	20	1	1	0	1	0	0	0	2	2	2	0	7	0	5	1	7	0	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:27028023C>T	uc002hby.2	+	36	4961	c.4871C>T	c.(4870-4872)ACG>ATG	p.T1624M	SUPT6H_uc010crt.2_Missense_Mutation_p.T1624M	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1624					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					TACTCCTACACGACCCCAAGC	0.622													36	97					0	0	1	0	0		T	27028023	T	T	27028023	3	4	153	1	0	0	0	0	1	0	0	0	15425	536	19	1	5009	1	SUPT6H	17	27028023	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	10042	27028023	54167187	1379	83311											
FLOT2	2319	broad.mit.edu	37	chr17	27209007	27209007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggatcttctgctgttcacGggccccctgcagctcatagg	5	10	11	15	2	4	0	2	0	2	0	4	1	4	1	3	3	3	4	3	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:27209007G>A	uc002hdc.2	-	8	862	c.739C>T	c.(739-741)CGT>TGT	p.R247C		NM_004475	NP_004466	Q14254	FLOT2_HUMAN	flotillin 2	247					cell adhesion|epidermis development	cell surface|endocytic vesicle|endosome|membrane fraction					0	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;3.26e-06)|all cancers(11;1.76e-05)|BRCA - Breast invasive adenocarcinoma(11;0.00015)|OV - Ovarian serous cystadenocarcinoma(11;0.0602)			TGCTGTTCACGGGCCCCCTGC	0.577													22	54					0	0	1	0	0		A	27209007	A	A	27209007	3	1	153	1	0	0	0	0	1	0	0	0	5951	1116	39	1	563	1	FLOT2	17	27209007	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	180984	27209007	53986203	1380	83312											
PHF12	57649	broad.mit.edu	37	chr17	27238239	27238239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcctatggataacgtgccGgggctgaccttgccatctgg	6	11	12	12	2	1	1	0	1	1	0	2	2	2	2	4	4	3	1	4	4	2	4	rs143319936		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:27238239G>A	uc002hdg.1	-	10	2636	c.2106C>T	c.(2104-2106)CCC>CCT	p.P702P	PHF12_uc010wbb.1_Silent_p.P684P|PHF12_uc002hdi.1_Silent_p.P698P|PHF12_uc002hdh.1_Silent_p.P485P	NM_001033561	NP_001028733	Q96QT6	PHF12_HUMAN	PHD finger protein 12 isoform 1	702	Interaction with SIN3A.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	protein binding|zinc ion binding			ovary(1)	1	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)			ATAACGTGCCGGGGCTGACCT	0.557													10	46					0	0	1	0	0		A	27238239	A	A	27238239	2	1	153	1	0	0	0	0	0	0	0	1	11842	1103	39	1		1	PHF12	17	27238239	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	29232	27238239	53956971	1381	83313											
CORO6	84940	broad.mit.edu	37	chr17	27946167	27946167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtgtgatgataggttccGtaatgttgcgcatgggggta	9	12	15	5	2	0	2	0	2	0	0	1	2	1	2	1	3	1	5	1	3	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:27946167G>A	uc002hel.2	-	3	364	c.362C>T	c.(361-363)ACG>ATG	p.T121M	CORO6_uc002hem.2_5'Flank|CORO6_uc002hen.2_5'Flank	NM_032854	NP_116243	Q6QEF8	CORO6_HUMAN	coronin 6	121					actin cytoskeleton organization	actin cytoskeleton	actin filament binding				0						GATAGGTTCCGTAATGTTGCG	0.567													6	31					0	0	1	0	0		A	27946167	A	A	27946167	3	1	153	1	0	0	0	0	1	0	0	0	3761	1145	40	1	1088	1	CORO6	17	27946167	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	707928	27946167	53249043	1382	83314											
CPD	1362	broad.mit.edu	37	chr17	28791650	28791650	+	Missense_Mutation	SNP	T	G	G	0	1	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	taacagcttgcattatttggTgcatctgctcaatcaagtct	10	15	7	9	0	4	0	2	0	2	0	4	0	4	0	0	1	5	4	0	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:28791650T>G	uc002hfb.1	+	21	3976	c.3961T>G	c.(3961-3963)TGC>GGC	p.C1321G	CPD_uc010wbo.1_Missense_Mutation_p.C1074G|CPD_uc010wbp.1_RNA	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	1321	Cytoplasmic (Potential).				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						CATTATTTGGTGCATCTGCTC	0.403													79	220					0	0	1	0	0		G	28791650	G	G	28791650	3	3	153	1	0	0	0	0	1	0	0	0	3801	1696	59	5	4043	5	CPD	17	28791650	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	845483	28791650	52403560	1383	83315											
ADAP2	55803	broad.mit.edu	37	chr17	29280306	29280306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctgtctctcttccccagCtcgtgccattcctcaccagg	4	13	7	17	1	4	0	1	0	3	0	8	0	6	0	5	1	2	1	5	1	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:29280306C>T	uc002hfx.2	+	8	1021	c.742C>T	c.(742-744)CTC>TTC	p.L248F	ADAP2_uc010csk.2_Missense_Mutation_p.L254F|ADAP2_uc002hfy.2_Missense_Mutation_p.L248F|ADAP2_uc010csl.2_RNA	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein	248					heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						TCTTCCCCAGCTCGTGCCATT	0.532													14	41					0	0	1	0	0		T	29280306	T	T	29280306	3	4	153	1	0	0	0	0	1	0	0	0	280	811	28	2	772	2	ADAP2	17	29280306	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	488656	29280306	51914904	1384	83316											
ZNHIT3	9326	broad.mit.edu	37	chr17	34848677	34848677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacagtgcaaccctgaaactCgtcctgttgagaaaaaaata	17	8	7	9	1	0	2	0	2	0	1	2	3	1	2	2	0	4	2	2	0	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:34848677C>T	uc002hms.1	+	3	210	c.139C>T	c.(139-141)CGT>TGT	p.R47C	ZNHIT3_uc010cus.1_Missense_Mutation_p.R47C|ZNHIT3_uc002hmt.1_RNA|ZNHIT3_uc010cut.1_RNA	NM_004773	NP_004764	Q15649	ZNHI3_HUMAN	thyroid hormone receptor interactor 3	47					regulation of transcription, DNA-dependent	intracellular	metal ion binding|thyroid hormone receptor binding				0		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0188)		CCCTGAAACTCGTCCTGTTGA	0.453													27	140					0	0	1	0	0		T	34848677	T	T	34848677	3	4	153	1	0	0	0	0	1	0	0	0	18233	884	31	1	149	1	ZNHIT3	17	34848677	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5568371	34848677	46346533	1385	83317											
ACACA	31	broad.mit.edu	37	chr17	35487138	35487138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtgtacacttcccgccCgaggacctagagaaaagagc	12	5	13	11	2	0	2	0	0	0	2	1	6	1	4	3	3	2	1	3	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:35487138C>T	uc002hnm.2	-	46	5766	c.5575G>A	c.(5575-5577)GGG>AGG	p.G1859R	ACACA_uc002hnk.2_Missense_Mutation_p.G1781R|ACACA_uc002hnl.2_Missense_Mutation_p.G1801R|ACACA_uc002hnn.2_Missense_Mutation_p.G1859R|ACACA_uc002hno.2_Missense_Mutation_p.G1896R|ACACA_uc010cuy.2_Missense_Mutation_p.G504R|ACACA_uc010wdc.1_5'UTR	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1859	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	ACTTCCCGCCCGAGGACCTAG	0.468													31	122					0	0	1	0	0		T	35487138	T	T	35487138	3	4	153	1	0	0	0	0	1	0	0	0	106	652	23	1	1509	1	ACACA	17	35487138	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	638461	35487138	45708072	1386	83318											
MLLT6	4302	broad.mit.edu	37	chr17	36865745	36865745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctggttagtgcccaaatgGcaggcttgctgtgtgaggaa	8	11	14	8	0	1	1	0	1	1	0	1	2	1	2	1	4	2	4	1	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:36865745G>A	uc002hqi.3	+	6	482	c.469G>A	c.(469-471)GCA>ACA	p.A157T	MLLT6_uc010wdr.1_Missense_Mutation_p.A157T|MLLT6_uc010cvm.1_Missense_Mutation_p.A157T	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	157	PHD-type 2.				regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					TGCCCAAATGGCAGGCTTGCT	0.577			T	MLL	AL								3	34					0	0	1	0	0		A	36865745	A	A	36865745	3	1	153	1	0	0	0	0	1	0	0	0	9648	1203	42	2	491	2	MLLT6	17	36865745	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1378607	36865745	44329465	1387	83319											
PLXDC1	57125	broad.mit.edu	37	chr17	37234200	37234200	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcgatgaagagggaggaGgaggtagtggtgaggtctcc	9	8	19	5	1	1	3	0	2	1	1	3	7	1	6	1	6	0	1	1	6	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:37234200G>T	uc002hrg.2	-	11	1364	c.1152C>A	c.(1150-1152)TCC>TCA	p.S384S	uc002hre.1_Intron|uc002hrf.1_Intron|PLXDC1_uc010cvr.1_Silent_p.S92S|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	384	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						AGAGGGAGGAGGAGGTAGTGG	0.602													20	78					5.26018e-13	5.56813e-13	1	1	0		T	37234200	T	T	37234200	2	4	153	1	0	0	0	0	0	0	0	1	12136	987	35	5		5	PLXDC1	17	37234200	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	368455	37234200	43961010	1388	83320											
IKZF3	22806	broad.mit.edu	37	chr17	37922577	37922577	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgataactggaaccatctcCgaggtgggagcaggcggtgt	9	8	15	9	2	1	1	0	1	1	0	2	4	1	3	2	5	3	1	2	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:37922577C>T	uc002hsu.2	-	8	1058	c.996G>A	c.(994-996)TCG>TCA	p.S332S	IKZF3_uc002htd.2_Silent_p.S298S|IKZF3_uc010cwd.2_Silent_p.S189S|IKZF3_uc002hsv.2_Silent_p.S259S|IKZF3_uc010cwe.2_Silent_p.S198S|IKZF3_uc010cwf.2_Silent_p.S150S|IKZF3_uc010cwg.2_Silent_p.S111S|IKZF3_uc002hsw.2_Silent_p.S293S|IKZF3_uc002hsx.2_Silent_p.S276S|IKZF3_uc002hsy.2_Silent_p.S293S|IKZF3_uc002hsz.2_Silent_p.S237S|IKZF3_uc002hta.2_Silent_p.S254S|IKZF3_uc002htb.2_RNA|IKZF3_uc010cwh.2_Silent_p.S245S|IKZF3_uc002htc.2_Silent_p.S85S|IKZF3_uc010wel.1_Silent_p.S85S	NM_012481	NP_036613	Q9UKT9	IKZF3_HUMAN	aiolos isoform 1	332					B cell activation|mesoderm development|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)|kidney(2)|skin(2)	6	Breast(7;4.5e-103)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Colorectal(5;6.23e-08)|COAD - Colon adenocarcinoma(5;8.58e-06)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GAACCATCTCCGAGGTGGGAG	0.572													34	114					0	0	1	0	0		T	37922577	T	T	37922577	2	4	153	1	0	0	0	0	0	0	0	1	7632	639	23	1		1	IKZF3	17	37922577	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	688377	37922577	43272633	1389	83321											
TNS4	84951	broad.mit.edu	37	chr17	38635981	38635981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtgactttgaagtggaccaCggtgggcgtggggaggatgt	7	10	19	5	2	0	2	0	2	0	0	0	5	0	5	1	6	0	0	1	6	1	1	rs141187598	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:38635981C>T	uc010cxb.2	-	10	2019	c.1855G>A	c.(1855-1857)GTG>ATG	p.V619M	TNS4_uc002huu.3_Intron	NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	619	Phosphatase tensin-type.				apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			AAGTGGACCACGGTGGGCGTG	0.617													12	73					0	0	1	0	0		T	38635981	T	T	38635981	3	4	153	1	0	0	0	0	1	0	0	0	16370	536	19	1	308	1	TNS4	17	38635981	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	713404	38635981	42559229	1390	83322											
KRT10	3858	broad.mit.edu	37	chr17	38976553	38976553	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcatctttgcggttttgTtcagcaagttgttcatattg	7	18	9	7	1	4	0	3	0	1	0	4	0	4	0	0	1	3	6	0	1	2	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:38976553T>G	uc002hvi.2	-	4	1016	c.990A>C	c.(988-990)GAA>GAC	p.E330D	KRT10_uc010cxd.2_5'Flank|TMEM99_uc002hvj.1_Intron	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	330	Rod.|Gly-rich.|Coil 2.				epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				TGCGGTTTTGTTCAGCAAGTT	0.403													25	237					0	0	1	0	0		G	38976553	G	G	38976553	3	3	153	1	0	0	0	0	1	0	0	0	8464	1722	60	5	784	5	KRT10	17	38976553	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	340572	38976553	42218657	1391	83323											
KRTAP4-2	85291	broad.mit.edu	37	chr17	39334156	39334156	+	Silent	SNP	T	C	C	0	1	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	acagactggcagcactggggTctgaagcagctggacacaca	12	5	13	11	0	1	2	0	1	1	1	1	3	1	3	0	4	3	4	0	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:39334156T>C	uc002hwd.2	-	1	305	c.261A>G	c.(259-261)AGA>AGG	p.R87R		NM_033062	NP_149051	Q9BYR5	KRA42_HUMAN	keratin associated protein 4-2	87	20 X 5 AA repeats OF C-C-[GRQVS]-[SPT]- [VSTQ].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			AGCACTGGGGTCTGAAGCAGC	0.672													15	62					0	0	1	0	0		C	39334156	C	C	39334156	2	2	153	1	0	0	0	0	0	0	0	1	8567	1664	58	3		3	KRTAP4-2	17	39334156	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	357603	39334156	41861054	1392	83324											
KRTAP9-4	85280	broad.mit.edu	37	chr17	39406326	39406326	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcctgcctggttgcctaaaCcagagctgtggctccaactg	7	10	11	13	0	0	1	0	0	0	1	1	1	1	1	5	2	6	3	5	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:39406326C>T	uc002hwi.2	+	1	388	c.354C>T	c.(352-354)AAC>AAT	p.N118N	KRTAP9-9_uc010wfq.1_Intron	NM_033191	NP_149461	Q9BYQ2	KRA94_HUMAN	keratin associated protein 9-4	118	15 X 5 AA repeats of C-C-[RQVGE]-[SPTN]- [TASPF].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			GTTGCCTAAACCAGAGCTGTG	0.607													8	198					0	0	1	0	0		T	39406326	T	T	39406326	2	4	153	1	0	0	0	0	0	0	0	1	8591	506	18	4		4	KRTAP9-4	17	39406326	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	72170	39406326	41788884	1393	83325											
KRT36	8689	broad.mit.edu	37	chr17	39643638	39643638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcagctcaatctctagcgCgttgaccgtacgtctcagct	7	11	9	14	4	3	1	2	1	2	0	5	1	3	1	1	0	5	5	1	0	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:39643638C>T	uc002hwt.2	-	5	952	c.952G>A	c.(952-954)GCG>ACG	p.A318T		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	318	Rod.|Coil 2.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				ATCTCTAGCGCGTTGACCGTA	0.632													5	31					0	0	1	0	0		T	39643638	T	T	39643638	3	4	153	1	0	0	0	0	1	0	0	0	8489	768	27	1	463	1	KRT36	17	39643638	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	237312	39643638	41551572	1394	83326											
KRT13	3860	broad.mit.edu	37	chr17	39658827	39658827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactccgtctctgccaccGtgttctccagccccgctttc	3	11	8	19	3	2	0	0	0	2	0	6	0	3	0	6	1	2	3	6	1	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:39658827G>A	uc002hwu.1	-	6	1106	c.1043C>T	c.(1042-1044)ACG>ATG	p.T348M	KRT13_uc002hwv.1_Missense_Mutation_p.T348M|KRT13_uc002hww.2_Missense_Mutation_p.T241M|KRT13_uc010wfr.1_Missense_Mutation_p.T241M|KRT13_uc010cxo.2_Missense_Mutation_p.T348M|KRT13_uc002hwx.1_Missense_Mutation_p.T336M	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	348	Rod.|Coil 2.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CTCTGCCACCGTGTTCTCCAG	0.632													28	110					0	0	1	0	0		A	39658827	A	A	39658827	3	1	153	1	0	0	0	0	1	0	0	0	8466	1145	40	1	345	1	KRT13	17	39658827	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	15189	39658827	41536383	1395	83327											
DHX58	79132	broad.mit.edu	37	chr17	40256929	40256929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtatacactctgatcggccCgggcacggcccctggcctgg	5	7	13	16	4	1	1	0	1	1	0	2	1	1	1	4	5	1	2	4	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:40256929C>T	uc002hyw.3	-	11	1641	c.1418G>A	c.(1417-1419)CGG>CAG	p.R473Q	DHX58_uc002hyv.3_RNA|DHX58_uc010wgf.1_Missense_Mutation_p.R466Q	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	473	Helicase C-terminal.			R -> W (in Ref. 1; BAB13818).	innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CTGATCGGCCCGGGCACGGCC	0.622													24	61					0	0	1	0	0		T	40256929	T	T	40256929	3	4	153	1	0	0	0	0	1	0	0	0	4520	652	23	1	634	1	DHX58	17	40256929	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	598102	40256929	40938281	1396	83328											
KAT2A	2648	broad.mit.edu	37	chr17	40266539	40266539	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acgctctccacagggatctgCctcacgccctccttgaagca	8	8	8	17	2	3	1	1	1	2	0	5	2	4	2	4	1	2	2	4	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:40266539C>T	uc002hyx.2	-	14	2163	c.2103G>A	c.(2101-2103)AGG>AGA	p.R701R	DHX58_uc002hyv.3_5'Flank|DHX58_uc002hyw.3_5'Flank|DHX58_uc010wgf.1_5'Flank	NM_021078	NP_066564	Q92830	KAT2A_HUMAN	general control of amino acid synthesis 5-like	701					chromatin remodeling|histone deubiquitination|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	H3 histone acetyltransferase activity|histone deacetylase binding|protein binding|transcription coactivator activity			upper_aerodigestive_tract(1)|lung(1)	2						CAGGGATCTGCCTCACGCCCT	0.582													47	160					0	0	1	0	0		T	40266539	T	T	40266539	2	4	153	1	0	0	0	0	0	0	0	1	7997	738	26	2		2	KAT2A	17	40266539	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9610	40266539	40928671	1397	83329											
PLEKHH3	79990	broad.mit.edu	37	chr17	40825735	40825735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggctcccgagacgccgcGcccctttcccgctgctgctg	3	7	12	19	6	0	1	0	0	0	1	2	3	2	1	5	1	2	4	5	1	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:40825735G>A	uc002iau.2	-	4	883	c.416C>T	c.(415-417)GCG>GTG	p.A139V	PLEKHH3_uc010cyl.1_5'Flank|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Intron|PLEKHH3_uc002iaw.2_Missense_Mutation_p.A139V	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	139	PH.				signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GAGACGCCGCGCCCCTTTCCC	0.711													7	17					0	0	1	0	0		A	40825735	A	A	40825735	3	1	153	1	0	0	0	0	1	0	0	0	12097	1087	38	1	2005	1	PLEKHH3	17	40825735	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	559196	40825735	40369475	1398	83330											
CNTNAP1	8506	broad.mit.edu	37	chr17	40839898	40839898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcttctccttttctcccGtctgggggacgggctgggcc	1	11	15	14	3	3	0	0	0	3	0	5	1	3	1	3	5	0	2	3	5	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:40839898G>A	uc002iay.2	+	8	1421	c.1205G>A	c.(1204-1206)CGT>CAT	p.R402H	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	402	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		CTTTTCTCCCGTCTGGGGGAC	0.637													19	88					0	0	1	0	0		A	40839898	A	A	40839898	3	1	153	1	0	0	0	0	1	0	0	0	3649	1145	40	1	1235	1	CNTNAP1	17	40839898	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	14163	40839898	40355312	1399	83331											
AOC2	314	broad.mit.edu	37	chr17	40997823	40997823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaacagccgaggcttggtgCggggagtggactgcccctat	7	8	16	10	2	0	0	0	0	0	0	0	3	0	2	3	5	4	2	3	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:40997823C>T	uc002ibu.2	+	1	1215	c.1180C>T	c.(1180-1182)CGG>TGG	p.R394W	AOC2_uc002ibt.2_Missense_Mutation_p.R394W	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	394					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		AGGCTTGGTGCGGGGAGTGGA	0.542													14	21					0	0	1	0	0		T	40997823	T	T	40997823	3	4	153	1	0	0	0	0	1	0	0	0	727	759	27	1	1182	1	AOC2	17	40997823	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	157925	40997823	40197387	1400	83332											
IFI35	3430	broad.mit.edu	37	chr17	41165127	41165127	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acacccagcaggacccggaaGtgcctaagtctttagtttcc	10	9	9	13	1	1	0	0	0	1	0	2	2	2	2	4	2	2	2	4	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:41165127G>A	uc010whj.1	+	3	380	c.184G>A	c.(184-186)GTG>ATG	p.V62M		NM_005533	NP_005524	P80217	IN35_HUMAN	interferon-induced protein 35	62					response to virus|type I interferon-mediated signaling pathway	nucleus	protein binding			ovary(1)	1		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.157)		GGACCCGGAAGTGCCTAAGTC	0.552													69	208					0	0	1	0	0		A	41165127	A	A	41165127	3	1	153	1	0	0	0	0	1	0	0	0	7532	1029	36	4	194	4	IFI35	17	41165127	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	167304	41165127	40030083	1401	83333											
DHX8	1659	broad.mit.edu	37	chr17	41598812	41598812	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	accacctcaccctgctagctGtgtacaactcctggaagaac	11	8	7	15	0	1	1	1	0	0	1	2	2	2	2	4	1	5	3	4	1	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:41598812G>A	uc002idu.1	+	21	3215	c.3142G>A	c.(3142-3144)GTG>ATG	p.V1048M	DHX8_uc010wig.1_Missense_Mutation_p.V1048M	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	1048						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		CCTGCTAGCTGTGTACAACTC	0.537													13	38					0	0	1	0	0		A	41598812	A	A	41598812	3	1	153	1	0	0	0	0	1	0	0	0	4521	1377	48	4	3224	4	DHX8	17	41598812	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	433685	41598812	39596398	1402	83334											
GFAP	2670	broad.mit.edu	37	chr17	42990757	42990757	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gccacgtcaagctccacatgGacctgctgtcgggccagctg	7	7	12	15	2	1	0	1	0	0	0	3	1	2	1	4	2	3	3	4	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:42990757G>A	uc002ihq.2	-	4	720	c.660C>T	c.(658-660)GTC>GTT	p.V220V	GFAP_uc002ihr.2_Silent_p.V220V|GFAP_uc010wjg.1_RNA	NM_002055	NP_002046	P14136	GFAP_HUMAN	glial fibrillary acidic protein isoform 1	220	Linker 12.|Rod.					cytoplasm|intermediate filament	structural constituent of cytoskeleton			ovary(1)|pancreas(1)	2		Prostate(33;0.0959)				GCTCCACATGGACCTGCTGTC	0.622													19	63					0	0	1	0	0		A	42990757	A	A	42990757	2	1	153	1	0	0	0	0	0	0	0	1	6352	1161	41	4		4	GFAP	17	42990757	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1391945	42990757	38204453	1403	83335											
ARHGAP27	201176	broad.mit.edu	37	chr17	43475404	43475404	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtactcagagccatctcGgctccgtagctggagggaca	9	7	13	12	2	2	1	1	0	1	1	4	3	3	3	2	4	3	4	2	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:43475404G>A	uc002iix.2	-	10	1179	c.730C>T	c.(730-732)CGA>TGA	p.R244*	ARHGAP27_uc010dak.2_Nonsense_Mutation_p.R217*|ARHGAP27_uc010wjl.1_Nonsense_Mutation_p.R363*	NM_199282	NP_954976	Q6ZUM4	RHG27_HUMAN	Rho GTPase activating protein 27 isoform a	585	PH.				positive regulation of Cdc42 GTPase activity|receptor-mediated endocytosis|signal transduction	cytoplasm|membrane	Rac GTPase activator activity|SH3 domain binding				0	Renal(3;0.0405)					GAGCCATCTCGGCTCCGTAGC	0.552													9	59					0	0	1	0	0		A	43475404	A	A	43475404	4	1	153	1	0	0	0	0	0	1	0	0	876	1124	39	1	948	1	ARHGAP27	17	43475404	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	484647	43475404	37719806	1404	83336											
ITGB3	3690	broad.mit.edu	37	chr17	45361816	45361816	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgccttccagatgattcGaagaatttctccatccaagt	10	14	6	11	1	2	3	0	1	2	2	6	4	4	3	4	0	1	0	4	0	3	4	rs141225656		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:45361816G>A	uc002ilj.2	+	4	389	c.369G>A	c.(367-369)TCG>TCA	p.S123S	ITGB3_uc002ili.1_Silent_p.S123S|ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	123	Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	CAGATGATTCGAAGAATTTCT	0.428													18	90					0	0	1	0	0		A	45361816	A	A	45361816	2	1	153	1	0	0	0	0	0	0	0	1	7911	1045	37	1		1	ITGB3	17	45361816	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1886412	45361816	35833394	1405	83337											
LRRC46	90506	broad.mit.edu	37	chr17	45914298	45914298	+	Missense_Mutation	SNP	A	G	G	1	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	ctcctgcgcaaggggaggagAcagtccctgaggccgtctcc	7	6	14	14	2	1	2	0	1	1	1	4	4	3	3	4	4	1	1	4	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:45914298A>G	uc002ima.2	+	8	1034	c.778A>G	c.(778-780)ACA>GCA	p.T260A	LRRC46_uc002imb.2_Missense_Mutation_p.T213A	NM_033413	NP_219481	Q96FV0	LRC46_HUMAN	leucine rich repeat containing 46	260										ovary(1)	1						AGGGGAGGAGACAGTCCCTGA	0.637													31	94					0	0	1	0	0		G	45914298	G	G	45914298	3	3	153	1	0	0	0	0	1	0	0	0	9021	275	10	3	808	3	LRRC46	17	45914298	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	552482	45914298	35280912	1406	83338											
HOXB1	3211	broad.mit.edu	37	chr17	46606967	46606967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcatgtcgactggtctgagGcatctccagctgcctccttg	5	12	11	13	1	2	1	0	1	2	0	5	2	3	1	3	2	3	3	3	2	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:46606967G>A	uc002ink.1	-	2	854	c.848C>T	c.(847-849)GCC>GTC	p.A283V		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	283						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTGGTCTGAGGCATCTCCAGC	0.632													19	66					0	0	1	0	0		A	46606967	A	A	46606967	3	1	153	1	0	0	0	0	1	0	0	0	7315	1203	42	2	61	2	HOXB1	17	46606967	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	692669	46606967	34588243	1407	83339											
HOXB3	3213	broad.mit.edu	37	chr17	46628527	46628527	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccgccgccaccgccgccGccaccacagccctctgctgg	4	3	10	24	6	1	0	0	0	1	0	1	0	1	0	10	1	2	1	10	1	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:46628527G>A	uc002inn.2	-	2	865	c.465C>T	c.(463-465)GGC>GGT	p.G155G	HOXB3_uc010wlm.1_Silent_p.G82G|HOXB3_uc010dbf.2_Silent_p.G155G|HOXB3_uc010dbg.2_Silent_p.G155G|HOXB3_uc002ino.2_Silent_p.G155G|HOXB3_uc010wlk.1_Silent_p.G23G|HOXB3_uc010wll.1_Silent_p.G82G	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	155	Gly-rich.				angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						caccgccgccgccaccACAGC	0.373													7	6					0	0	1	0	0		A	46628527	A	A	46628527	2	1	153	1	0	0	0	0	0	0	0	1	7318	1074	38	1		1	HOXB3	17	46628527	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	21560	46628527	34566683	1408	83340											
ATP5G1	516	broad.mit.edu	37	chr17	46973023	46973023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtccctcccaggaacccGtctctcaagcagcagctctt	7	10	7	17	1	4	0	1	0	3	0	7	1	6	1	3	1	4	3	3	1	2	1	rs11549733		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:46973023G>A	uc002iog.2	+	5	437	c.303G>A	c.(301-303)CCG>CCA	p.P101P	ATP5G1_uc002ioh.2_Silent_p.P101P	NM_005175	NP_005166	P05496	AT5G1_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	101					ATP hydrolysis coupled proton transport|mitochondrial ATP synthesis coupled proton transport|respiratory electron transport chain	integral to membrane|mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity|lipid binding				0						CCAGGAACCCGTCTCTCAAGC	0.567													80	236					0	0	1	0	0		A	46973023	A	A	46973023	2	1	153	1	0	0	0	0	0	0	0	1	1154	1132	40	1		1	ATP5G1	17	46973023	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	344496	46973023	34222187	1409	83341											
GNGT2	2793	broad.mit.edu	37	chr17	47284234	47284234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actccttgatttcctttcccGctttggaaatctgcgagaac	8	14	7	12	2	1	2	0	1	1	1	4	4	4	3	3	1	2	1	3	1	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:47284234G>A	uc002ioo.1	-	4	402	c.95C>T	c.(94-96)GCG>GTG	p.A32V		NM_031498	NP_113686	O14610	GBGT2_HUMAN	guanine nucleotide binding protein-gamma	32					G-protein coupled receptor protein signaling pathway|phototransduction|synaptic transmission	extracellular region|heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)			TTCCTTTCCCGCTTTGGAAAT	0.483													36	110					0	0	1	0	0		A	47284234	A	A	47284234	3	1	153	1	0	0	0	0	1	0	0	0	6549	1087	38	1	118	1	GNGT2	17	47284234	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	311211	47284234	33910976	1410	83342											
ZNF652	22834	broad.mit.edu	37	chr17	47394604	47394604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcattgctgtcatctgtggCctcttcctcactctcttcct	3	17	6	15	0	6	0	3	0	3	0	9	0	8	0	3	1	1	1	3	1	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:47394604C>T	uc002iov.3	-	2	948	c.484G>A	c.(484-486)GCC>ACC	p.A162T	ZNF652_uc002iow.2_Missense_Mutation_p.A162T|ZNF652_uc002iou.3_Intron	NM_001145365	NP_001138837	Q9Y2D9	ZN652_HUMAN	zinc finger protein 652	162	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_cancers(4;6.81e-14)|Breast(4;4.97e-29)|all_epithelial(4;1.53e-17)		BRCA - Breast invasive adenocarcinoma(1;3.1e-14)|Epithelial(5;2.92e-06)|all cancers(6;3.15e-05)			TCATCTGTGGCCTCTTCCTCA	0.443													65	277					0	0	1	0	0		T	47394604	T	T	47394604	3	4	153	1	0	0	0	0	1	0	0	0	18090	739	26	2	1356	2	ZNF652	17	47394604	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	110370	47394604	33800606	1411	83343											
ANKRD40	91369	broad.mit.edu	37	chr17	48777178	48777178	+	Silent	SNP	A	T	T	1	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	gggttggccaaatagttgggAacaaagggcagttctgactc	11	9	14	7	0	1	1	0	1	1	0	2	2	1	2	1	4	1	4	1	4	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:48777178A>T	uc002iso.2	-	3	615	c.360T>A	c.(358-360)GTT>GTA	p.V120V		NM_052855	NP_443087	Q6AI12	ANR40_HUMAN	ankyrin repeat domain 40	120											0			BRCA - Breast invasive adenocarcinoma(22;2.03e-09)			AATAGTTGGGAACAAAGGGCA	0.443													17	46					0	0	1	0	0		T	48777178	T	T	48777178	2	4	153	1	0	0	0	0	0	0	0	1	669	233	9	5		5	ANKRD40	17	48777178	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1382574	48777178	32418032	1412	83344											
LPO	4025	broad.mit.edu	37	chr17	56343518	56343518	+	Silent	SNP	A	G	G	1	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	gggtctcccttggcaggtggAattgatcctctggtgcgggg	4	11	17	9	1	2	1	0	1	2	0	4	2	3	2	2	7	1	1	2	7	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:56343518A>G	uc002ivt.2	+	11	1840	c.1524A>G	c.(1522-1524)GGA>GGG	p.G508G	LPO_uc010wns.1_Silent_p.G449G|LPO_uc010dcp.2_Silent_p.G425G|LPO_uc010dcq.2_Silent_p.G179G|LPO_uc010dcr.2_Silent_p.G71G	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	508					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						TGGCAGGTGGAATTGATCCTC	0.512													10	17					0	0	1	0	0		G	56343518	G	G	56343518	2	3	153	1	0	0	0	0	0	0	0	1	8940	233	9	3		3	LPO	17	56343518	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	7566340	56343518	24851692	1413	83345											
BZRAP1	9256	broad.mit.edu	37	chr17	56389568	56389568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccaccgccaagcaacagcGcagtgggtcagagctgcccc	10	3	11	17	2	1	1	1	0	0	1	1	1	1	1	5	1	5	3	5	1	2	0	rs143785694	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:56389568G>A	uc002ivx.3	-	17	3485	c.2614C>T	c.(2614-2616)CGC>TGC	p.R872C	BZRAP1_uc010dcs.2_Missense_Mutation_p.R812C|BZRAP1_uc010wnt.1_Missense_Mutation_p.R872C	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	872						mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAGCAACAGCGCAGTGGGTCA	0.687													4	9					0	0	1	0	0		A	56389568	A	A	56389568	3	1	153	1	0	0	0	0	1	0	0	0	1580	1087	38	1	3019	1	BZRAP1	17	56389568	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	46050	56389568	24805642	1414	83346											
TRIM37	4591	broad.mit.edu	37	chr17	57157177	57157177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcaatcatcatctccactGcattcctaatttcccgaaca	11	12	4	14	1	3	0	2	0	1	0	6	1	5	0	3	0	3	2	3	0	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:57157177G>A	uc002iwy.3	-	7	998	c.554C>T	c.(553-555)GCA>GTA	p.A185V	TRIM37_uc002iwz.3_Missense_Mutation_p.A185V|TRIM37_uc002ixa.3_Missense_Mutation_p.A63V|TRIM37_uc010woc.1_Missense_Mutation_p.A151V	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	185	Potential.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					CATCTCCACTGCATTCCTAAT	0.393									Mulibrey_Nanism				48	155					0	0	1	0	0		A	57157177	A	A	57157177	3	1	153	1	0	0	0	0	1	0	0	0	16537	1319	46	2	2420	2	TRIM37	17	57157177	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	767609	57157177	24038033	1415	83347											
DHX40	79665	broad.mit.edu	37	chr17	57679949	57679949	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tactacgaagatgtctttgtGcgggctatttcaaaaatgta	12	14	9	6	2	2	1	1	0	1	1	2	2	2	1	0	1	3	2	0	1	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:57679949G>A	uc002ixn.1	+	15	2020	c.1873G>A	c.(1873-1875)GCG>ACG	p.A625T	DHX40_uc010woe.1_Missense_Mutation_p.A548T|DHX40_uc010wof.1_Missense_Mutation_p.A140T	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	625							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					ATGTCTTTGTGCGGGCTATTT	0.338													29	91					0	0	1	0	0		A	57679949	A	A	57679949	3	1	153	1	0	0	0	0	1	0	0	0	4518	1319	46	2	1931	2	DHX40	17	57679949	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	522772	57679949	23515261	1416	83348											
CLTC	1213	broad.mit.edu	37	chr17	57759076	57759076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacgttgcaatgaacctgcGgtctggagtcaacttgcaaa	12	9	11	9	2	2	1	1	1	1	0	2	3	2	2	1	2	6	3	1	2	5	2	rs141347684		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:57759076G>A	uc002ixq.1	+	21	3761	c.3318G>A	c.(3316-3318)GCG>GCA	p.A1106A	CLTC_uc002ixp.2_Silent_p.A1106A|CLTC_uc002ixr.1_Silent_p.A1110A	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1106	Heavy chain arm.|Proximal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					ATGAACCTGCGGTCTGGAGTC	0.418			T	ALK|TFE3	ALCL|renal 								39	128					0	0	1	0	0		A	57759076	A	A	57759076	2	1	153	1	0	0	0	0	0	0	0	1	3569	1103	39	1		1	CLTC	17	57759076	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	79127	57759076	23436134	1417	83349											
MED13	9969	broad.mit.edu	37	chr17	60059997	60059997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagcactgaagccacaggTacacctatattgtgcttcct	11	10	8	12	0	0	1	0	1	0	0	1	2	1	1	3	1	4	3	3	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:60059997T>C	uc002izo.2	-	16	3444	c.3367A>G	c.(3367-3369)ACC>GCC	p.T1123A		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1123					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						AAGCCACAGGTACACCTATAT	0.408													48	187					0	0	1	0	0		C	60059997	C	C	60059997	3	2	153	1	0	0	0	0	1	0	0	0	9448	1638	57	3	3217	3	MED13	17	60059997	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2300921	60059997	21135213	1418	83350											
TLK2	11011	broad.mit.edu	37	chr17	60637441	60637441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctagagaaatacaaggaacGattaaatagatgtgtgacaa	19	8	10	4	1	0	3	0	1	0	2	0	6	0	4	0	1	2	1	0	1	9	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:60637441G>A	uc010ddp.2	+	10	1053	c.785G>A	c.(784-786)CGA>CAA	p.R262Q	TLK2_uc002izx.3_Missense_Mutation_p.R110Q|TLK2_uc002izz.3_Missense_Mutation_p.R262Q|TLK2_uc002jaa.3_Missense_Mutation_p.R230Q|TLK2_uc010wpd.1_Missense_Mutation_p.R230Q	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	262	Potential.		R -> Q.		cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						TACAAGGAACGATTAAATAGA	0.358													4	103					0	0	1	0	0		A	60637441	A	A	60637441	3	1	153	1	0	0	0	0	1	0	0	0	15969	1058	37	1	819	1	TLK2	17	60637441	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	577444	60637441	20557769	1419	83351											
CCDC45	90799	broad.mit.edu	37	chr17	62518978	62518978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtcactgctccccagccGtaaattctactggagagcat	11	9	8	13	1	2	1	1	0	1	1	3	2	3	1	3	1	4	3	3	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:62518978G>A	uc002jem.2	+	8	932	c.874G>A	c.(874-876)GTA>ATA	p.V292I	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.V128I	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	292						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			CTCCCCAGCCGTAAATTCTAC	0.463													4	17					0	0	1	0	0		A	62518978	A	A	62518978	3	1	153	1	0	0	0	0	1	0	0	0	2819	1145	40	1	904	1	CCDC45	17	62518978	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1881537	62518978	18676232	1420	83352											
RGS9	8787	broad.mit.edu	37	chr17	63189717	63189717	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgccatcatgtcaggctgccTccccagcaacccctggatca	8	8	8	17	0	3	0	3	0	0	0	4	1	4	1	6	2	4	2	6	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:63189717T>G	uc002jfe.2	+	12	913	c.803T>G	c.(802-804)CTC>CGC	p.L268R	RGS9_uc010dem.2_Missense_Mutation_p.L265R|RGS9_uc002jfd.2_Missense_Mutation_p.L265R|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.L39R	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	268	G protein gamma.				intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						TCAGGCTGCCTCCCCAGCAAC	0.398													14	73					0	0	1	0	0		G	63189717	G	G	63189717	3	3	153	1	0	0	0	0	1	0	0	0	13338	1551	54	5	849	5	RGS9	17	63189717	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	670739	63189717	18005493	1421	83353											
KPNA2	3838	broad.mit.edu	37	chr17	66036862	66036862	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agcaatgtggaaaatcagctCcaagctactcaagctgccag	14	7	9	11	0	2	0	2	0	0	0	3	1	3	1	2	1	6	4	2	1	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:66036862C>G	uc002jgk.2	+	4	414	c.282C>G	c.(280-282)CTC>CTG	p.L94L	KPNA2_uc002jgl.2_Silent_p.L94L	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	94	ARM 1; truncated.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			AAAATCAGCTCCAAGCTACTC	0.418													40	174					0	0	1	0	0		G	66036862	G	G	66036862	2	3	153	1	0	0	0	0	0	0	0	1	8446	842	30	5		5	KPNA2	17	66036862	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2847145	66036862	15158348	1422	83354											
FAM20A	54757	broad.mit.edu	37	chr17	66538187	66538187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcacagacagcctgggggCcaggttgagggacggcagga	9	3	20	9	1	0	2	0	1	0	1	0	4	0	4	2	7	1	3	2	7	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:66538187C>T	uc002jho.2	-	7	1336	c.1048G>A	c.(1048-1050)GCC>ACC	p.A350T	FAM20A_uc010wqp.1_Missense_Mutation_p.A212T|PRKAR1A_uc002jhm.2_Intron|FAM20A_uc002jhn.2_Nonsense_Mutation_p.W52*	NM_017565	NP_060035	Q96MK3	FA20A_HUMAN	family with sequence similarity 20, member A	350						extracellular region					0	Breast(10;1.64e-13)					AGCCTGGGGGCCAGGTTGAGG	0.607													31	87					0	0	1	0	0		T	66538187	T	T	66538187	3	4	153	1	0	0	0	0	1	0	0	0	5548	739	26	2	597	2	FAM20A	17	66538187	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	501325	66538187	14657023	1423	83355											
ABCA9	10350	broad.mit.edu	37	chr17	67031809	67031809	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaccaactcaccaaagacaGgccatagaggagaaagaggg	18	3	11	9	0	1	4	1	0	0	4	1	5	1	4	3	3	2	0	3	3	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:67031809G>T	uc002jhu.2	-	7	1077	c.934C>A	c.(934-936)CTG>ATG	p.L312M	ABCA9_uc010dez.2_Missense_Mutation_p.L312M	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	312	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					ACCAAAGACAGGCCATAGAGG	0.388													14	39					8.00594e-06	8.23152e-06	1	1	0		T	67031809	T	T	67031809	3	4	153	1	0	0	0	0	1	0	0	0	39	991	35	5	4072	5	ABCA9	17	67031809	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	493622	67031809	14163401	1424	83356											
TTYH2	94015	broad.mit.edu	37	chr17	72218769	72218769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcctgctgcatcacctggaCggccgtggtggccgggctca	4	8	14	15	3	2	0	2	0	0	0	3	1	3	1	4	5	2	3	4	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:72218769C>T	uc002jkc.2	+	2	306	c.275C>T	c.(274-276)ACG>ATG	p.T92M	TTYH2_uc010wqw.1_Missense_Mutation_p.T71M	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	92	Helical; Name=2; (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						ATCACCTGGACGGCCGTGGTG	0.622													23	26					0	0	1	0	0		T	72218769	T	T	72218769	3	4	153	1	0	0	0	0	1	0	0	0	16766	536	19	1	281	1	TTYH2	17	72218769	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5186960	72218769	8976441	1425	83357											
KIF19	124602	broad.mit.edu	37	chr17	72342526	72342526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgccccctagacacagaatCgtgggcagcgtatgaaggag	11	6	13	11	3	0	3	0	1	0	2	2	4	0	4	2	2	1	2	2	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:72342526C>T	uc002jkm.3	+	8	925	c.787C>T	c.(787-789)CGT>TGT	p.R263C	KIF19_uc002jkj.2_Missense_Mutation_p.R263C|KIF19_uc002jkk.2_Missense_Mutation_p.R221C|KIF19_uc002jkl.2_Missense_Mutation_p.R221C	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	263	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						GACACAGAATCGTGGGCAGCG	0.592													2	0					0	0	1	0	0		T	72342526	T	T	72342526	3	4	153	1	0	0	0	0	1	0	0	0	8298	884	31	1	817	1	KIF19	17	72342526	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	123757	72342526	8852684	1426	83358											
LLGL2	3993	broad.mit.edu	37	chr17	73555400	73555400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgcgagctgctctacctgGgcaccgagagtggcaacgtg	7	7	14	13	3	1	1	0	0	1	1	1	3	1	1	3	2	5	4	3	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:73555400G>A	uc002joh.2	+	6	593	c.439G>A	c.(439-441)GGC>AGC	p.G147S	LLGL2_uc002jog.1_Missense_Mutation_p.G147S|LLGL2_uc010dgf.1_Missense_Mutation_p.G147S|LLGL2_uc002joi.2_Missense_Mutation_p.G147S|LLGL2_uc010dgg.1_Missense_Mutation_p.G147S|LLGL2_uc002joj.2_Missense_Mutation_p.G136S	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	147	WD 3.				cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			GCTCTACCTGGGCACCGAGAG	0.642													14	33					0	0	1	0	0		A	73555400	A	A	73555400	3	1	153	1	0	0	0	0	1	0	0	0	8851	1232	43	4	457	4	LLGL2	17	73555400	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1212874	73555400	7639810	1427	83359											
GALK1	2584	broad.mit.edu	37	chr17	73754610	73754610	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcggccgctgcctgggcCgtgcgccgaatctcccccac	4	5	14	18	5	1	0	0	0	1	0	2	1	1	0	6	3	2	1	6	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:73754610C>T	uc010wsi.1	-	6	927	c.864G>A	c.(862-864)ACG>ACA	p.T288T	GALK1_uc002jpk.2_Silent_p.T288T	NM_000154	NP_000145	P51570	GALK1_HUMAN	galactokinase 1	288			T -> M (in GALCT2).		galactose catabolic process	cytosol	ATP binding|galactokinase activity|galactose binding				0	all_cancers(13;1.5e-07)		all cancers(21;1.03e-06)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			CTGCCTGGGCCGTGCGCCGAA	0.706													3	4					0	0	1	0	0		T	73754610	T	T	73754610	2	4	153	1	0	0	0	0	0	0	0	1	6218	639	23	1		1	GALK1	17	73754610	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	199210	73754610	7440600	1428	83360											
EVPL	2125	broad.mit.edu	37	chr17	74004930	74004930	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctcctgcaccgtgggaggCcgcttctcgagctcctggat	4	11	12	14	3	2	0	0	0	2	0	5	3	3	2	4	3	2	3	4	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:74004930C>T	uc002jqi.2	-	22	4584	c.4356G>A	c.(4354-4356)CGG>CGA	p.R1452R	EVPL_uc010wss.1_Silent_p.R1474R|EVPL_uc010wst.1_Silent_p.R922R	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1452	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CCGTGGGAGGCCGCTTCTCGA	0.637													36	98					0	0	1	0	0		T	74004930	T	T	74004930	2	4	153	1	0	0	0	0	0	0	0	1	5300	726	26	2		2	EVPL	17	74004930	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	250320	74004930	7190280	1429	83361											
EXOC7	23265	broad.mit.edu	37	chr17	74080177	74080177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgtctggaatagcccagGccttctggattttgcacagt	7	13	11	10	0	2	0	0	0	2	0	2	2	2	2	2	3	2	1	2	3	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:74080177G>A	uc002jqs.2	-	19	2110	c.2015C>T	c.(2014-2016)GCC>GTC	p.A672V	EXOC7_uc002jqp.1_Missense_Mutation_p.P134S|EXOC7_uc010dgv.1_Missense_Mutation_p.A546V|EXOC7_uc002jqq.2_Missense_Mutation_p.A621V|EXOC7_uc010wsw.1_Missense_Mutation_p.A644V|EXOC7_uc010wsx.1_Missense_Mutation_p.A613V|EXOC7_uc002jqr.2_Missense_Mutation_p.A590V|EXOC7_uc010wsv.1_Missense_Mutation_p.A593V	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4	672					exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			AATAGCCCAGGCCTTCTGGAT	0.527													15	35					0	0	1	0	0		A	74080177	A	A	74080177	3	1	153	1	0	0	0	0	1	0	0	0	5318	1203	42	2	200	2	EXOC7	17	74080177	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	75247	74080177	7115033	1430	83362											
SPHK1	8877	broad.mit.edu	37	chr17	74382511	74382511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagcggcctgactgggagaCcgccatccagaagcccctgt	8	5	14	14	2	0	3	0	1	0	2	1	5	1	4	6	3	2	0	6	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:74382511C>T	uc002jrf.1	+	7	1105	c.296C>T	c.(295-297)ACC>ATC	p.T99I	SPHK1_uc002jrg.1_Missense_Mutation_p.T48I|SPHK1_uc002jrh.2_Missense_Mutation_p.T113I|SPHK1_uc002jrj.2_Missense_Mutation_p.T185I|SPHK1_uc002jri.2_Missense_Mutation_p.T99I|SPHK1_uc002jrk.3_Missense_Mutation_p.T99I	NM_001142602	NP_001136074	Q9NYA1	SPHK1_HUMAN	sphingosine kinase 1 isoform 3	99	DAGKc.				'de novo' posttranslational protein folding|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|calcium-mediated signaling|positive regulation of angiogenesis|positive regulation of cell growth|positive regulation of cell migration|positive regulation of fibroblast proliferation|positive regulation of mitotic cell cycle|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|positive regulation of smooth muscle contraction|regulation of tumor necrosis factor-mediated signaling pathway|sphingoid catabolic process|sphingosine metabolic process	cytosol|membrane fraction|nucleus|plasma membrane|soluble fraction	ATP binding|calmodulin binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|DNA binding|magnesium ion binding|protein phosphatase 2A binding|sphinganine kinase activity			kidney(1)	1						GACTGGGAGACCGCCATCCAG	0.657											OREG0024750	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	30					0	0	1	0	0		T	74382511	T	T	74382511	3	4	153	1	0	0	0	0	1	0	0	0	15071	507	18	4	614	4	SPHK1	17	74382511	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	302334	74382511	6812699	1431	83363											
SEPT9	10801	broad.mit.edu	37	chr17	75478334	75478334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaggccccggtggacttcgGctacgtggggattgactcca	7	8	15	11	3	0	1	0	1	0	0	2	4	1	3	3	6	1	1	3	6	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:75478334G>A	uc002jts.3	+	4	956	c.830G>A	c.(829-831)GGC>GAC	p.G277D	SEPT9_uc010wtk.1_Missense_Mutation_p.G258D|SEPT9_uc002jtt.3_Missense_Mutation_p.G113D|SEPT9_uc002jtu.3_Missense_Mutation_p.G259D|SEPT9_uc002jtv.2_Missense_Mutation_p.G270D|SEPT9_uc002jtw.2_Missense_Mutation_p.G113D|SEPT9_uc002jtx.1_Missense_Mutation_p.G113D|SEPT9_uc010wtl.1_Missense_Mutation_p.G53D|SEPT9_uc002jty.3_Missense_Mutation_p.G26D|SEPT9_uc010wtm.1_Missense_Mutation_p.G26D|SEPT9_uc010wtn.1_Missense_Mutation_p.G26D|SEPT9_uc010dhd.2_Missense_Mutation_p.G165D	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	277					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			GTGGACTTCGGCTACGTGGGG	0.637													9	30					0	0	1	0	0		A	75478334	A	A	75478334	3	1	153	1	0	0	0	0	1	0	0	0	14096	1203	42	2	1318	2	SEPT9	17	75478334	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1095823	75478334	5716876	1432	83364											
DNAH17	8632	broad.mit.edu	37	chr17	76430202	76430202	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	cgaccggttccagccctgggCgccgaacttgcgcctctctg	4	8	12	17	5	1	0	0	0	1	0	3	2	2	0	5	2	3	1	5	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:76430202C>A	uc010dhp.1	-	20	3355	c.3133G>T	c.(3133-3135)GCC>TCC	p.A1045S	DNAH17_uc002jvq.2_Missense_Mutation_p.A330S|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CAGCCCTGGGCGCCGAACTTG	0.602													29	114					2.48696e-23	2.6864e-23	1	1	0		A	76430202	A	A	76430202	3	1	153	1	0	0	0	0	1	0	0	0	4607	768	27	5	1283	5	DNAH17	17	76430202	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	951868	76430202	4765008	1433	83365											
TIMP2	7077	broad.mit.edu	37	chr17	76869992	76869992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttctcactgaccgctttgGccctgatcactgcaaaacac	9	10	6	16	1	2	2	2	2	1	0	3	2	2	2	3	1	2	2	3	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:76869992G>A	uc002jwf.2	-	2	442	c.140C>T	c.(139-141)GCC>GTC	p.A47V	TIMP2_uc002jwe.2_5'UTR|TIMP2_uc010wty.1_5'UTR	NM_003255	NP_003246	P16035	TIMP2_HUMAN	TIMP metallopeptidase inhibitor 2 precursor	47	NTR.			VIRAKAV -> GKESGDP (in Ref. 10).			metal ion binding|metalloendopeptidase inhibitor activity			central_nervous_system(2)	2			BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.194)			GACCGCTTTGGCCCTGATCAC	0.507													35	92					0	0	1	0	0		A	76869992	A	A	76869992	3	1	153	1	0	0	0	0	1	0	0	0	15943	1203	42	2	538	2	TIMP2	17	76869992	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	439790	76869992	4325218	1434	83366											
C1QTNF1	114897	broad.mit.edu	37	chr17	77043914	77043914	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggcctctacttcttcagccTcaacgtgcacacctggaacc	8	9	7	17	2	4	0	2	0	2	0	4	1	4	1	4	2	5	1	4	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:77043914T>C	uc002jwp.2	+	4	930	c.590T>C	c.(589-591)CTC>CCC	p.L197P	C1QTNF1_uc002jwq.2_Missense_Mutation_p.L115P|C1QTNF1_uc002jwr.3_Missense_Mutation_p.L207P|C1QTNF1_uc002jws.2_Missense_Mutation_p.L197P|C1QTNF1_uc002jwt.2_Missense_Mutation_p.L295P	NM_030968	NP_112230	Q9BXJ1	C1QT1_HUMAN	C1q and tumor necrosis factor related protein 1	197	C1q.					collagen				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.0294)|OV - Ovarian serous cystadenocarcinoma(97;0.201)			TTCTTCAGCCTCAACGTGCAC	0.557													14	93					0	0	1	0	0		C	77043914	C	C	77043914	3	2	153	1	0	0	0	0	1	0	0	0	1965	1551	54	3	600	3	C1QTNF1	17	77043914	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	173922	77043914	4151296	1435	83367											
CBX8	57332	broad.mit.edu	37	chr17	77769888	77769888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttttgggcttgggtccacGctttttggggccatagagct	4	14	15	8	1	0	1	0	0	0	1	1	1	1	1	2	5	1	4	2	5	1	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:77769888G>A	uc002jxd.1	-	4	307	c.214C>T	c.(214-216)CGT>TGT	p.R72C		NM_020649	NP_065700	Q9HC52	CBX8_HUMAN	chromobox homolog 8	72					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear chromatin|PcG protein complex	methylated histone residue binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			TTGGGTCCACGCTTTTTGGGG	0.517													78	307					0	0	1	0	0		A	77769888	A	A	77769888	3	1	153	1	0	0	0	0	1	0	0	0	2727	1087	38	1	938	1	CBX8	17	77769888	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	725974	77769888	3425322	1436	83368											
RNF213	57674	broad.mit.edu	37	chr17	78317076	78317076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctgcccttcctggatgCgcagtatcagaaggtccccg	6	9	11	15	2	1	1	1	0	0	1	3	2	3	2	5	2	3	3	5	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:78317076C>T	uc002jyh.1	+	2	576	c.353C>T	c.(352-354)GCG>GTG	p.A118V		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TTCCTGGATGCGCAGTATCAG	0.562													5	35					0	0	1	0	0		T	78317076	T	T	78317076	3	4	153	1	0	0	0	0	1	0	0	0	13502	768	27	1	6555	1	RNF213	17	78317076	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	547188	78317076	2878134	1437	83369											
C17orf70	80233	broad.mit.edu	37	chr17	79514156	79514156	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggccagggaagcgcagacacTgcagcatgtccactgtgtgc	9	6	14	12	1	0	1	0	0	0	1	1	2	1	2	2	2	4	3	2	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:79514156T>C	uc002kaq.2	-	5	2007	c.1952A>G	c.(1951-1953)CAG>CGG	p.Q651R	C17orf70_uc002kao.1_Missense_Mutation_p.Q300R|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Missense_Mutation_p.Q500R	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	651					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			GCGCAGACACTGCAGCATGTC	0.657													7	36					0	0	1	0	0		C	79514156	C	C	79514156	3	2	153	1	0	0	0	0	1	0	0	0	1880	1580	55	3	713	3	C17orf70	17	79514156	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1197080	79514156	1681054	1438	83370											
SLC16A3	9123	broad.mit.edu	37	chr17	80195343	80195343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctttgtgctttacgccGtggccgcctcggtcatggtg	2	12	15	12	5	1	0	1	0	0	0	2	0	1	0	3	4	2	2	3	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:80195343G>A	uc002kea.2	+	4	836	c.697G>A	c.(697-699)GTG>ATG	p.V233M	SLC16A3_uc002kee.2_Missense_Mutation_p.V233M|SLC16A3_uc002keb.2_Missense_Mutation_p.V233M|SLC16A3_uc002kec.2_Missense_Mutation_p.V233M|SLC16A3_uc002ked.2_Missense_Mutation_p.V233M	NM_001042422	NP_001035887	O15427	MOT4_HUMAN	solute carrier family 16, member 3	233	Helical; (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	actin cytoskeleton|integral to plasma membrane|membrane fraction|nuclear membrane	secondary active monocarboxylate transmembrane transporter activity|symporter activity			upper_aerodigestive_tract(1)|lung(1)	2	Breast(20;0.00285)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0149)		Pyruvic acid(DB00119)	GCTTTACGCCGTGGCCGCCTC	0.716													5	18					0	0	1	0	0		A	80195343	A	A	80195343	3	1	153	1	0	0	0	0	1	0	0	0	14434	1145	40	1	707	1	SLC16A3	17	80195343	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	681187	80195343	999867	1439	83371											
TBCD	6904	broad.mit.edu	37	chr17	80884364	80884364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacggcttgaaggccattgCgaggtgagtcccaacagttc	10	8	13	10	2	0	3	0	2	0	1	2	4	1	3	2	3	2	2	2	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr17:80884364C>T	uc002kfz.2	+	28	2598	c.2468C>T	c.(2467-2469)GCG>GTG	p.A823V	TBCD_uc002kfy.1_Missense_Mutation_p.A823V|TBCD_uc002kgb.1_Missense_Mutation_p.A148V|TBCD_uc002kgc.2_5'Flank|TBCD_uc002kgd.2_5'Flank	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	823					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			AAGGCCATTGCGAGGTGAGTC	0.507													10	40					0	0	1	0	0		T	80884364	T	T	80884364	3	4	153	1	0	0	0	0	1	0	0	0	15658	768	27	1	2578	1	TBCD	17	80884364	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	689021	80884364	310846	1440	83372											
COLEC12	81035	broad.mit.edu	37	chr18	347267	347267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctcacgaagttgctgacGgagatctagaatgtctgatc	12	11	10	8	2	3	4	1	2	3	2	5	6	3	4	0	1	1	2	0	1	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:347267G>A	uc002kkm.2	-	5	570	c.355C>T	c.(355-357)CGT>TGT	p.R119C		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	119	Potential.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				AGTTGCTGACGGAGATCTAGA	0.468													57	127					0	0	1	0	0		A	347267	A	A	347267	3	1	153	1	0	0	0	0	1	0	0	0	3715	1116	39	1	1897	1	COLEC12	18	347267	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		347267	77729981	1441	83373											
DLGAP1	9229	broad.mit.edu	37	chr18	3879906	3879906	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaggggcccacgcactcagCctggaaggagttccgctggg	8	5	16	12	2	1	0	1	0	0	0	2	3	2	2	3	5	1	3	3	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:3879906C>A	uc002kmf.2	-	1	230	c.163G>T	c.(163-165)GCT>TCT	p.A55S	DLGAP1_uc010wyz.1_Missense_Mutation_p.A55S|DLGAP1_uc002kmk.2_Missense_Mutation_p.A55S|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	55					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				ACGCACTCAGCCTGGAAGGAG	0.662													19	66					6.21321e-17	6.63646e-17	1	1	0		A	3879906	A	A	3879906	3	1	153	1	0	0	0	0	1	0	0	0	4565	739	26	5	2865	5	DLGAP1	18	3879906	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3532639	3879906	74197342	1442	83374											
EPB41L3	23136	broad.mit.edu	37	chr18	5397065	5397065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actactagttacctcaaaatGaggtttttgttccaaagttt	12	16	6	7	0	1	1	1	1	0	0	2	1	2	1	2	1	2	4	2	1	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:5397065G>A	uc002kmt.1	-	18	2919	c.2833C>T	c.(2833-2835)CAT>TAT	p.H945Y	EPB41L3_uc010wzh.1_Missense_Mutation_p.H776Y|EPB41L3_uc002kmu.1_Missense_Mutation_p.H723Y|EPB41L3_uc010dkq.1_Missense_Mutation_p.H614Y|EPB41L3_uc002kms.1_Missense_Mutation_p.H180Y|EPB41L3_uc010wze.1_Missense_Mutation_p.H250Y|EPB41L3_uc010wzf.1_Missense_Mutation_p.H242Y|EPB41L3_uc010wzg.1_Missense_Mutation_p.H217Y|EPB41L3_uc010dkr.2_Missense_Mutation_p.H337Y	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	945	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						ACCTCAAAATGAGGTTTTTGT	0.413													5	127					0	0	1	0	0		A	5397065	A	A	5397065	3	1	153	1	0	0	0	0	1	0	0	0	5162	1290	45	4	450	4	EPB41L3	18	5397065	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1517159	5397065	72680183	1443	83375											
LAMA1	284217	broad.mit.edu	37	chr18	7044752	7044752	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccggaggacacggttccCggcctccagggctgctgatg	5	8	15	13	3	0	1	0	1	0	0	2	3	2	3	4	5	2	3	4	5	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:7044752C>T	uc002knm.2	-	7	1039	c.945G>A	c.(943-945)CCG>CCA	p.P315P	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	315	Laminin EGF-like 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACACGGTTCCCGGCCTCCAGG	0.478													39	190					0	0	1	0	0		T	7044752	T	T	7044752	2	4	153	1	0	0	0	0	0	0	0	1	8621	639	23	1		1	LAMA1	18	7044752	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1647687	7044752	71032496	1444	83376											
RAB12	201475	broad.mit.edu	37	chr18	8636338	8636338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatatttttgaaacttgtcGatgacattctgaaaaaggta	15	14	8	4	1	1	4	0	3	1	1	2	5	1	4	0	1	1	1	0	1	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:8636338G>A	uc002knp.2	+	5	887	c.604G>A	c.(604-606)GAT>AAT	p.D202N		NM_001025300	NP_001020471	Q6IQ22	RAB12_HUMAN	RAB12, member RAS oncogene family	202					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding				0						GAAACTTGTCGATGACATTCT	0.338													9	39					0	0	1	0	0		A	8636338	A	A	8636338	3	1	153	1	0	0	0	0	1	0	0	0	12923	1058	37	1	622	1	RAB12	18	8636338	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1591586	8636338	69440910	1445	83377											
POTEC	388468	broad.mit.edu	37	chr18	14542797	14542797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtagtctccccaagcgcccaCgttgctcttgccgctccccc	4	9	8	20	3	2	0	0	0	2	0	4	0	3	0	6	0	3	4	6	0	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:14542797C>T	uc010dln.2	-	1	803	c.349G>A	c.(349-351)GTG>ATG	p.V117M	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	117										skin(3)	3						CAAGCGCCCACGTTGCTCTTG	0.602													8	221					0	0	1	0	0		T	14542797	T	T	14542797	3	4	153	1	0	0	0	0	1	0	0	0	12281	536	19	1	1323	1	POTEC	18	14542797	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5906459	14542797	63534451	1446	83378											
CTAGE1	64693	broad.mit.edu	37	chr18	19996086	19996086	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgttcccacggaggtgccagGggcccagcgtcagaaggagc	8	5	16	12	2	1	1	1	0	0	1	2	3	2	3	3	5	3	1	3	5	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:19996086G>T	uc002ktv.1	-	1	1793	c.1689C>A	c.(1687-1689)CCC>CCA	p.P563P		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	563						integral to membrane				ovary(1)	1	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)					GAGGTGCCAGGGGCCCAGCGT	0.512													32	78					9.78306e-22	1.05392e-21	1	1	0		T	19996086	T	T	19996086	2	4	153	1	0	0	0	0	0	0	0	1	3995	1219	43	5		5	CTAGE1	18	19996086	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5453289	19996086	58081162	1447	83379											
OSBPL1A	114876	broad.mit.edu	37	chr18	21891961	21891961	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttacctctaatgatttcTtcaggtctgcagcagaaacc	11	14	6	10	0	4	2	1	1	3	1	4	2	4	2	2	1	4	2	2	1	4	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:21891961T>C	uc002kve.2	-	13	1253	c.1079A>G	c.(1078-1080)AAG>AGG	p.K360R	OSBPL1A_uc010xbc.1_5'Flank|OSBPL1A_uc002kvf.3_Missense_Mutation_p.K140R	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	360					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					TAATGATTTCTTCAGGTCTGC	0.388													94	275					0	0	1	0	0		C	21891961	C	C	21891961	3	2	153	1	0	0	0	0	1	0	0	0	11296	1609	56	3	1837	3	OSBPL1A	18	21891961	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1895875	21891961	56185287	1448	83380											
DSG4	147409	broad.mit.edu	37	chr18	28991227	28991227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacctatgcagccgggggcaCggtggaaggaggtgtatcgg	8	6	18	9	3	0	0	0	0	0	0	1	2	0	2	2	7	2	3	2	7	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:28991227C>T	uc002kwq.2	+	15	2306	c.2171C>T	c.(2170-2172)ACG>ATG	p.T724M	DSG4_uc002kwr.2_Missense_Mutation_p.T743M	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	724	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GCCGGGGGCACGGTGGAAGGA	0.468													15	86					0	0	1	0	0		T	28991227	T	T	28991227	3	4	153	1	0	0	0	0	1	0	0	0	4785	536	19	1	2350	1	DSG4	18	28991227	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7099266	28991227	49086021	1449	83381											
FHOD3	80206	broad.mit.edu	37	chr18	34340669	34340669	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgagaacatgaaggctgtGctgaaaacctcgtccccctc	11	7	9	14	2	0	3	0	2	0	1	3	4	1	3	3	1	3	2	3	1	4	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:34340669G>A	uc002kzt.1	+	22	4045	c.3948G>A	c.(3946-3948)GTG>GTA	p.V1316V	FHOD3_uc002kzs.1_Silent_p.V1333V|FHOD3_uc010dmz.1_Silent_p.V1048V|FHOD3_uc010dnb.1_Intron	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	1316					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TGAAGGCTGTGCTGAAAACCT	0.682													16	54					0	0	1	0	0		A	34340669	A	A	34340669	2	1	153	1	0	0	0	0	0	0	0	1	5897	1306	46	2		2	FHOD3	18	34340669	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5349442	34340669	43736579	1450	83382											
KIAA1328	57536	broad.mit.edu	37	chr18	34465570	34465570	+	Missense_Mutation	SNP	A	G	G	1	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	aagactgaaagctgagcaggAgtcatttgagaagaagatca	17	7	12	5	0	2	6	2	3	0	4	2	8	2	7	0	1	2	2	0	1	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:34465570A>G	uc002kzz.2	+	5	405	c.383A>G	c.(382-384)GAG>GGG	p.E128G		NM_020776	NP_065827	Q86T90	K1328_HUMAN	hypothetical protein LOC57536	128	Potential.									central_nervous_system(1)	1				COAD - Colon adenocarcinoma(74;0.195)		GCTGAGCAGGAGTCATTTGAG	0.328													3	13					0	0	1	0	0		G	34465570	G	G	34465570	3	3	153	1	0	0	0	0	1	0	0	0	8241	304	11	3	401	3	KIAA1328	18	34465570	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	124901	34465570	43611678	1451	83383											
CELF4	56853	broad.mit.edu	37	chr18	34850756	34850756	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggggtggatgccattggcGaacacagcttccgcagcagg	9	7	15	10	2	0	0	0	0	0	0	1	2	1	1	2	5	4	3	2	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:34850756G>A	uc002lae.2	-	8	1470	c.1074C>T	c.(1072-1074)TTC>TTT	p.F358F	CELF4_uc010dnd.1_Silent_p.F356F|CELF4_uc002lag.2_Silent_p.F348F|CELF4_uc002laf.2_Silent_p.F353F|CELF4_uc002lai.2_Silent_p.F343F|CELF4_uc002lah.1_Silent_p.F83F	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	358					embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						TGCCATTGGCGAACACAGCTT	0.572													25	51					0	0	1	0	0		A	34850756	A	A	34850756	2	1	153	1	0	0	0	0	0	0	0	1	3221	1049	37	1		1	CELF4	18	34850756	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	385186	34850756	43226492	1452	83384											
ST8SIA5	29906	broad.mit.edu	37	chr18	44260327	44260327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtagtagacagcttgcggcGattcgaagtcgtccagcacg	10	8	13	10	5	0	1	0	0	0	1	3	3	1	1	1	1	3	4	1	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:44260327G>A	uc002lcj.1	-	7	1377	c.809C>T	c.(808-810)TCG>TTG	p.S270L	ST8SIA5_uc002lci.1_Missense_Mutation_p.S117L|ST8SIA5_uc010xcy.1_Missense_Mutation_p.S306L|ST8SIA5_uc010xcz.1_Missense_Mutation_p.S239L	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	270	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						AGCTTGCGGCGATTCGAAGTC	0.622													8	32					0	0	1	0	0		A	44260327	A	A	44260327	3	1	153	1	0	0	0	0	1	0	0	0	15260	1059	37	1	325	1	ST8SIA5	18	44260327	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	9409571	44260327	33816921	1453	83385											
TCEB3C	162699	broad.mit.edu	37	chr18	44555084	44555084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcattgtctttctctgtgCggtacagctgatcgggcgtc	4	13	13	11	4	2	1	0	1	2	0	5	1	2	1	0	3	3	3	0	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:44555084C>T	uc010xdb.1	-	1	1366	c.1130G>A	c.(1129-1131)CGC>CAC	p.R377H	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	377	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						TTTCTCTGTGCGGTACAGCTG	0.567													15	834					0	0	1	0	0		T	44555084	T	T	44555084	3	4	153	1	0	0	0	0	1	0	0	0	15708	768	27	1	2157	1	TCEB3C	18	44555084	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	294757	44555084	33522164	1454	83386											
ZBTB7C	201501	broad.mit.edu	37	chr18	45566726	45566726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggaaagaagtccggggcGaatggagacaaggagggtct	12	6	18	5	2	1	2	0	0	1	2	2	6	2	4	1	6	0	0	1	6	4	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:45566726G>A	uc002lda.2	-	1	769	c.753C>T	c.(751-753)TTC>TTT	p.F251F	ZBTB7C_uc002ldb.2_Silent_p.F251F|ZBTB7C_uc010dnu.2_Silent_p.F260F|ZBTB7C_uc010dnv.2_Silent_p.F273F|ZBTB7C_uc010dnw.2_Silent_p.F251F|ZBTB7C_uc010dnx.1_Silent_p.F251F|ZBTB7C_uc010dny.1_Silent_p.F251F|ZBTB7C_uc010dnz.1_Silent_p.F273F|ZBTB7C_uc010dob.1_Silent_p.F251F|ZBTB7C_uc010doc.1_Silent_p.F260F|ZBTB7C_uc010dod.1_Silent_p.F273F|ZBTB7C_uc010doe.1_Silent_p.F251F|ZBTB7C_uc010dof.1_Silent_p.F251F|ZBTB7C_uc010dog.1_Silent_p.F251F|ZBTB7C_uc010doh.1_Silent_p.F260F|ZBTB7C_uc010doi.1_Silent_p.F251F|ZBTB7C_uc010doj.1_Silent_p.F260F|ZBTB7C_uc010dok.1_Silent_p.F300F|ZBTB7C_uc010dol.1_Silent_p.F260F|ZBTB7C_uc010doa.1_Silent_p.F273F|ZBTB7C_uc010don.1_Silent_p.F259F|ZBTB7C_uc010doo.1_Silent_p.F251F|ZBTB7C_uc010dop.1_Silent_p.F251F|ZBTB7C_uc010doq.1_Silent_p.F260F|ZBTB7C_uc010dor.1_Silent_p.F273F|ZBTB7C_uc010dos.1_Silent_p.F251F|ZBTB7C_uc010dot.1_Silent_p.F251F|ZBTB7C_uc010dou.1_Silent_p.F260F|ZBTB7C_uc010dom.1_Silent_p.F260F	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	251						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						AGTCCGGGGCGAATGGAGACA	0.597													12	47					0	0	1	0	0		A	45566726	A	A	45566726	2	1	153	1	0	0	0	0	0	0	0	1	17580	1049	37	1		1	ZBTB7C	18	45566726	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1011642	45566726	32510522	1455	83387											
WDR7	23335	broad.mit.edu	37	chr18	54603098	54603098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctcgctcattgccaccGccagaccacccgccttcatc	6	8	5	22	3	3	1	2	0	1	1	5	1	3	1	7	0	1	1	7	0	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:54603098G>A	uc002lgk.1	+	23	4004	c.3793G>A	c.(3793-3795)GCC>ACC	p.A1265T	WDR7_uc002lgl.1_Missense_Mutation_p.A1232T	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	1265										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		CATTGCCACCGCCAGACCACC	0.527													34	68					0	0	1	0	0		A	54603098	A	A	54603098	3	1	153	1	0	0	0	0	1	0	0	0	17346	1087	38	1	3879	1	WDR7	18	54603098	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	9036372	54603098	23474150	1456	83388											
ZNF532	55205	broad.mit.edu	37	chr18	56586342	56586342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctgcatcgctgccatcGcggctctcagcgctaaaaag	8	8	10	15	5	1	0	1	0	1	0	5	0	2	0	2	1	3	4	2	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:56586342G>A	uc002lho.2	+	4	1370	c.823G>A	c.(823-825)GCG>ACG	p.A275T	ZNF532_uc002lhp.2_Missense_Mutation_p.A273T|ZNF532_uc010xeg.1_Missense_Mutation_p.A273T|ZNF532_uc002lhr.2_Missense_Mutation_p.A273T|ZNF532_uc002lhs.2_Missense_Mutation_p.A273T	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	275					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CGCTGCCATCGCGGCTCTCAG	0.552													32	84					0	0	1	0	0		A	56586342	A	A	56586342	3	1	153	1	0	0	0	0	1	0	0	0	17997	1087	38	1	825	1	ZNF532	18	56586342	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1983244	56586342	21490906	1457	83389											
ZNF532	55205	broad.mit.edu	37	chr18	56646392	56646392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcatcaggaaagtgtacGcctgctcgtaagtcctggtt	10	10	12	9	2	1	0	1	0	0	0	3	1	2	1	2	3	2	5	2	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:56646392G>A	uc002lho.2	+	9	3803	c.3256G>A	c.(3256-3258)GCC>ACC	p.A1086T	ZNF532_uc002lhp.2_Missense_Mutation_p.A1084T|ZNF532_uc010xeg.1_Missense_Mutation_p.A1084T|ZNF532_uc002lhr.2_Missense_Mutation_p.A1084T|ZNF532_uc002lhs.2_Missense_Mutation_p.A1084T|ZNF532_uc010xeh.1_Intron	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1086	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GAAAGTGTACGCCTGCTCGTA	0.527													22	91					0	0	1	0	0		A	56646392	A	A	56646392	3	1	153	1	0	0	0	0	1	0	0	0	17997	1087	38	1	3278	1	ZNF532	18	56646392	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	60050	56646392	21430856	1458	83390											
CPLX4	339302	broad.mit.edu	37	chr18	56979989	56979989	+	Silent	SNP	A	G	G	1	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	gcctttttctgtgtaaatgcAgcatctctttccatcctaaa	9	16	5	11	0	2	0	0	0	2	0	5	0	4	0	3	0	2	3	3	0	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:56979989A>G	uc002lhy.2	-	2	370	c.183T>C	c.(181-183)GCT>GCC	p.A61A		NM_181654	NP_857637	Q7Z7G2	CPLX4_HUMAN	complexin 4 precursor	61					exocytosis|neurotransmitter transport	cell junction|synapse	syntaxin binding			ovary(1)	1		Colorectal(73;0.175)				GTGTAAATGCAGCATCTCTTT	0.438													18	78					0	0	1	0	0		G	56979989	G	G	56979989	2	3	153	1	0	0	0	0	0	0	0	1	3810	175	7	3		3	CPLX4	18	56979989	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	333597	56979989	21097259	1459	83391											
LMAN1	3998	broad.mit.edu	37	chr18	57020530	57020530	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaagcttgactagccccGtcactatagtgtaaggggga	11	8	12	10	1	1	1	1	1	0	0	1	2	1	2	3	2	2	2	3	2	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:57020530G>A	uc002lhz.2	-	5	575	c.543C>T	c.(541-543)GAC>GAT	p.D181D	LMAN1_uc010xek.1_Silent_p.D181D	NM_005570	NP_005561	P49257	LMAN1_HUMAN	lectin, mannose-binding, 1 precursor	181	Lumenal (Potential).|L-type lectin-like.	Calcium.			blood coagulation|ER to Golgi vesicle-mediated transport|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	mannose binding|metal ion binding|unfolded protein binding			skin(1)	1		Colorectal(73;0.0946)			Antihemophilic Factor(DB00025)	GACTAGCCCCGTCACTATAGT	0.403													8	76					0	0	1	0	0		A	57020530	A	A	57020530	2	1	153	1	0	0	0	0	0	0	0	1	8853	1136	40	1		1	LMAN1	18	57020530	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	40541	57020530	21056718	1460	83392											
KIAA1468	57614	broad.mit.edu	37	chr18	59895676	59895676	+	Silent	SNP	A	G	G	1	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	gtaaatagttcagacaagggAaaaaacacagacatccatct	19	7	7	8	0	2	2	1	0	1	2	3	3	3	3	1	1	1	2	1	1	7	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:59895676A>G	uc002lil.2	+	8	1508	c.1293A>G	c.(1291-1293)GGA>GGG	p.G431G	KIAA1468_uc002lik.1_Silent_p.G431G|KIAA1468_uc010xel.1_Silent_p.G431G|KIAA1468_uc002lim.2_Silent_p.G75G	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	431							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				CAGACAAGGGAAAAAACACAG	0.433													31	138					0	0	1	0	0		G	59895676	G	G	59895676	2	3	153	1	0	0	0	0	0	0	0	1	8252	233	9	3		3	KIAA1468	18	59895676	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2875146	59895676	18181572	1461	83393											
SERPINB4	6318	broad.mit.edu	37	chr18	61326636	61326636	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccaggtgaaattacctgTaaaaatagatacgttttttc	14	13	8	6	1	0	2	0	1	0	1	1	2	0	2	2	2	2	2	2	2	7	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:61326636T>C	uc002ljg.2	-	3	374	c.348A>G	c.(346-348)TTA>TTG	p.L116L	SERPINB3_uc002lji.2_Silent_p.L116L|SERPINB3_uc010dqa.2_Silent_p.L116L|SERPINB3_uc010dqb.2_Silent_p.L116L			P48594	SPB4_HUMAN	SubName: Full=Squamous cell carcinoma antigen 2;	116					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						AAATTACCTGTAAAAATAGAT	0.433													27	94					0	0	1	0	0		C	61326636	C	C	61326636	2	2	153	1	0	0	0	0	0	0	0	1	14128	1635	57	3		3	SERPINB4	18	61326636	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1430960	61326636	16750612	1462	83394											
RTTN	25914	broad.mit.edu	37	chr18	67836303	67836303	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctctgataaaaactcgcttgCcttggtgaattaaaaaaaca	16	11	6	8	1	1	2	0	2	1	0	2	2	1	2	1	1	3	1	1	1	8	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:67836303C>A	uc002lkp.2	-	12	1545	c.1477G>T	c.(1477-1479)GCA>TCA	p.A493S	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Intron|RTTN_uc002lkq.1_Missense_Mutation_p.A493S	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	493							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				AACTCGCTTGCCTTGGTGaat	0.284													21	68					1.2644e-06	1.30605e-06	1	1	0		A	67836303	A	A	67836303	3	1	153	1	0	0	0	0	1	0	0	0	13762	753	26	5	5355	5	RTTN	18	67836303	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6509667	67836303	10240945	1463	83395											
C18orf55	29090	broad.mit.edu	37	chr18	71822600	71822600	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccagtcctagcaagataTatgggagagccttagaaaaa	16	8	9	8	0	0	3	0	0	0	3	2	4	2	3	3	1	2	1	3	1	7	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:71822600T>C	uc010dqr.1	+	3	722	c.424T>C	c.(424-426)TAT>CAT	p.Y142H		NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	142					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				TAGCAAGATATATGGGAGAGC	0.413													27	108					0	0	1	0	0		C	71822600	C	C	71822600	3	2	153	1	0	0	0	0	1	0	0	0	1908	1406	49	3	434	3	C18orf55	18	71822600	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3986297	71822600	6254648	1464	83396											
TSHZ1	10194	broad.mit.edu	37	chr18	72999246	72999246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccccagggagcctcacGcccccaccgcacaagagcaa	11	2	8	20	2	1	1	1	0	0	1	2	2	2	2	6	1	2	2	6	1	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:72999246G>A	uc002lly.2	+	2	2312	c.1749G>A	c.(1747-1749)ACG>ACA	p.T583T		NM_005786	NP_005777	Q6ZSZ6	TSH1_HUMAN	teashirt family zinc finger 1	628						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Esophageal squamous(42;0.129)|Prostate(75;0.142)|Melanoma(33;0.211)		Colorectal(1;0.000501)|READ - Rectum adenocarcinoma(2;0.00226)|BRCA - Breast invasive adenocarcinoma(31;0.246)		GGAGCCTCACGCCCCCACCGC	0.642													10	38					0	0	1	0	0		A	72999246	A	A	72999246	2	1	153	1	0	0	0	0	0	0	0	1	16649	1074	38	1		1	TSHZ1	18	72999246	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1176646	72999246	5078002	1465	83397											
NFATC1	4772	broad.mit.edu	37	chr18	77211059	77211059	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgggtacggctggtgttccgCgttcacgtcccgcaacccag	5	8	13	15	6	1	0	1	0	0	0	3	0	3	0	3	3	2	5	3	3	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr18:77211059C>T	uc010xfg.1	+	5	2148	c.1695C>T	c.(1693-1695)CGC>CGT	p.R565R	NFATC1_uc002lnc.1_Silent_p.R565R|NFATC1_uc010xff.1_Intron|NFATC1_uc002lnd.2_Silent_p.R565R|NFATC1_uc002lne.2_Silent_p.R93R|NFATC1_uc010xfh.1_Silent_p.R565R|NFATC1_uc010xfi.1_Silent_p.R552R|NFATC1_uc010xfj.1_Silent_p.R93R|NFATC1_uc002lnf.2_Silent_p.R552R|NFATC1_uc002lng.2_Silent_p.R552R|NFATC1_uc010xfk.1_Silent_p.R552R	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	565	RHD.				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		TGGTGTTCCGCGTTCACGTCC	0.607													36	79					0	0	1	0	0		T	77211059	T	T	77211059	2	4	153	1	0	0	0	0	0	0	0	1	10380	755	27	1		1	NFATC1	18	77211059	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4211813	77211059	866189	1466	83398											
POLRMT	5442	broad.mit.edu	37	chr19	621725	621725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaaagcaccagagtgcGgcgatgtccagggcagcggg	10	3	18	10	3	0	1	0	0	0	1	1	3	1	2	2	4	3	3	2	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:621725G>A	uc002lpf.1	-	10	2029	c.1973C>T	c.(1972-1974)CCG>CTG	p.P658L		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	658					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCAGAGTGCGGCGATGTCCA	0.687													5	7					0	0	1	0	0		A	621725	A	A	621725	3	1	153	1	0	0	0	0	1	0	0	0	12257	1116	39	1	1767	1	POLRMT	19	621725	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		621725	58507258	1467	83399											
C19orf21	126353	broad.mit.edu	37	chr19	758615	758615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggagagtgtcctgcgcCgggagcaagaggtggcagag	10	4	20	7	2	0	4	0	0	0	4	1	6	1	5	2	4	2	2	2	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:758615C>T	uc002lpo.2	+	2	1752	c.1669C>T	c.(1669-1671)CGG>TGG	p.R557W		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	557	Potential.									upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGTCCTGCGCCGGGAGCAAGA	0.612													21	77					0	0	1	0	0		T	758615	T	T	758615	3	4	153	1	0	0	0	0	1	0	0	0	1916	643	23	1	1671	1	C19orf21	19	758615	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	136890	758615	58370368	1468	83400											
LPPR3	79948	broad.mit.edu	37	chr19	815844	815844	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacgatggaagaagccactAtgggcagctgtggggacaag	13	6	15	7	1	0	1	0	0	0	1	0	4	0	3	1	4	3	2	1	4	5	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:815844A>G	uc002lpx.1	-	3	147	c.83T>C	c.(82-84)ATA>ACA	p.I28T	LPPR3_uc010dru.1_5'Flank|LPPR3_uc002lpw.1_Missense_Mutation_p.I28T|LPPR3_uc002lpy.1_5'UTR	NM_024888	NP_079164	Q6T4P5	LPPR3_HUMAN	plasticity-related protein 2	28	Helical; (Potential).					integral to membrane	phosphatidate phosphatase activity				0						AGAAGCCACTATGGGCAGCTG	0.552													6	20					0	0	1	0	0		G	815844	G	G	815844	3	3	153	1	0	0	0	0	1	0	0	0	8944	449	16	3	2177	3	LPPR3	19	815844	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	57229	815844	58313139	1469	83401											
MED16	10025	broad.mit.edu	37	chr19	877065	877065	+	Missense_Mutation	SNP	T	G	G	0	1	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	gctgcacgtgcagcaggatgTcccaccagtcgtagccggtc	7	7	13	14	3	0	0	0	0	0	0	3	1	1	1	3	2	4	5	3	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:877065T>G	uc002lqd.1	-	9	1620	c.1469A>C	c.(1468-1470)GAC>GCC	p.D490A	MED16_uc010drw.1_Missense_Mutation_p.D315A|MED16_uc002lqe.2_Missense_Mutation_p.D479A|MED16_uc002lqf.2_Missense_Mutation_p.D479A|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Intron|MED16_uc010xfx.1_Missense_Mutation_p.D335A|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	490					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGCAGGATGTCCCACCAGTC	0.662													3	22					0	0	1	0	0		G	877065	G	G	877065	3	3	153	1	0	0	0	0	1	0	0	0	9452	1667	58	5	1196	5	MED16	19	877065	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	61221	877065	58251918	1470	83402											
HMHA1	23526	broad.mit.edu	37	chr19	1085856	1085856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcccgggaggacggggacGgggacgaggacggcccggcc	7	0	21	13	6	0	0	0	0	0	0	0	6	0	5	3	9	1	0	3	9	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:1085856G>A	uc002lqz.1	+	23	3493	c.3262G>A	c.(3262-3264)GGG>AGG	p.G1088R	HMHA1_uc010xgd.1_Missense_Mutation_p.G1104R|HMHA1_uc010xge.1_Missense_Mutation_p.G956R|HMHA1_uc002lra.1_Missense_Mutation_p.G928R|HMHA1_uc002lrb.1_Missense_Mutation_p.G971R|HMHA1_uc002lrc.1_Missense_Mutation_p.G723R|HMHA1_uc002lrd.1_Missense_Mutation_p.G164R|HMHA1_uc010dsd.1_Missense_Mutation_p.G194R	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	1088					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGACGGGGACGGGGACGAGGA	0.692													15	39					0	0	1	0	0		A	1085856	A	A	1085856	3	1	153	1	0	0	0	0	1	0	0	0	7256	1116	39	1	3352	1	HMHA1	19	1085856	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	208791	1085856	58043127	1471	83403											
DAZAP1	26528	broad.mit.edu	37	chr19	1428934	1428934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagccgggttgtgcccaacGctgccaatggctgggcaggc	6	6	17	12	2	0	0	0	0	0	0	0	1	0	1	3	5	4	4	3	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:1428934G>A	uc002lsn.2	+	8	829	c.640G>A	c.(640-642)GCT>ACT	p.A214T	DAZAP1_uc002lsm.2_Missense_Mutation_p.A214T|DAZAP1_uc002lso.2_Missense_Mutation_p.A213T|DAZAP1_uc002lsl.1_Missense_Mutation_p.A214T	NM_018959	NP_061832	Q96EP5	DAZP1_HUMAN	DAZ associated protein 1 isoform b	214					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleotide binding|RNA binding			breast(1)	1		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)		TGTGCCCAACGCTGCCAATGG	0.647													4	11					0	0	1	0	0		A	1428934	A	A	1428934	3	1	153	1	0	0	0	0	1	0	0	0	4247	1087	38	1	670	1	DAZAP1	19	1428934	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	343078	1428934	57700049	1472	83404											
APC2	10297	broad.mit.edu	37	chr19	1466376	1466376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaatctctccaggggccCggaagcaggcctggctgccg	6	6	15	14	2	1	0	0	0	1	0	3	2	2	2	4	6	2	2	4	6	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:1466376C>T	uc002lsr.1	+	15	3284	c.3076C>T	c.(3076-3078)CGG>TGG	p.R1026W	APC2_uc002lss.1_Missense_Mutation_p.R608W|APC2_uc002lst.1_Missense_Mutation_p.R1026W|APC2_uc002lsu.1_Missense_Mutation_p.R1025W|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	1026					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCAGGGGCCCGGAAGCAGGC	0.667													5	5					0	0	1	0	0		T	1466376	T	T	1466376	3	4	153	1	0	0	0	0	1	0	0	0	764	643	23	1	3130	1	APC2	19	1466376	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	37442	1466376	57662607	1473	83405											
REXO1	57455	broad.mit.edu	37	chr19	1825905	1825905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaacagagtggtcagacccGaaagccccttctcctcactc	10	7	9	15	1	3	2	2	0	1	2	5	4	3	3	4	2	2	0	4	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:1825905G>A	uc002lua.3	-	3	2044	c.1949C>T	c.(1948-1950)TCG>TTG	p.S650L		NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	650						nucleus	exonuclease activity|nucleic acid binding				0		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)		GGTCAGACCCGAAAGCCCCTT	0.612													26	76					0	0	1	0	0		A	1825905	A	A	1825905	3	1	153	1	0	0	0	0	1	0	0	0	13266	1059	37	1	1772	1	REXO1	19	1825905	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	359529	1825905	57303078	1474	83406											
ZNF57	126295	broad.mit.edu	37	chr19	2917163	2917163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aggcctgcatttgtccctcaCacctacacagtcacggaaga	11	8	8	14	1	2	1	2	0	0	1	3	2	3	2	3	2	2	1	3	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:2917163C>T	uc002lwr.2	+	4	692	c.544C>T	c.(544-546)CAC>TAC	p.H182Y	ZNF57_uc010xha.1_Missense_Mutation_p.H150Y	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGTCCCTCACACCTACACAG	0.498													19	74					0	0	1	0	0		T	2917163	T	T	2917163	3	4	153	1	0	0	0	0	1	0	0	0	18026	478	17	4	558	4	ZNF57	19	2917163	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1091258	2917163	56211820	1475	83407											
TLE6	79816	broad.mit.edu	37	chr19	2987969	2987969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacacaagttggggtgtggtCcaggtgagacccaggcccga	10	6	15	10	1	0	1	0	1	0	1	1	3	1	1	3	5	1	1	3	5	2	1	rs141862660	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:2987969C>T	uc002lwu.2	+	9	730	c.330C>T	c.(328-330)GTC>GTT	p.V110V	TLE6_uc002lwt.2_Silent_p.V233V|TLE6_uc010dtg.2_Silent_p.V233V|TLE6_uc002lwv.2_5'UTR	NM_024760	NP_079036	Q9H808	TLE6_HUMAN	transducin-like enhancer of split 6 isoform 2	110					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGGTGTGGTCCAGGTGAGAC	0.667													8	16					0	0	1	0	0		T	2987969	T	T	2987969	2	4	153	1	0	0	0	0	0	0	0	1	15967	842	30	4		4	TLE6	19	2987969	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	70806	2987969	56141014	1476	83408											
GNA11	2767	broad.mit.edu	37	chr19	3119270	3119270	+	Missense_Mutation	SNP	T	G	G	0	1	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	acccctggttccagaactccTccgtcatcctcttcctcaac	7	11	4	19	1	3	1	2	0	1	1	8	1	8	1	7	1	2	1	7	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:3119270T>G	uc002lxd.2	+	6	1044	c.802T>G	c.(802-804)TCC>GCC	p.S268A	uc010xhe.1_5'Flank	NM_002067	NP_002058	P29992	GNA11_HUMAN	guanine nucleotide binding protein (G protein),	268					activation of phospholipase C activity by dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation|regulation of action potential	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			eye(70)|skin(16)	86		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.79e-05)|OV - Ovarian serous cystadenocarcinoma(105;2.68e-113)|Epithelial(107;1.22e-111)|all cancers(105;5.78e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00141)|STAD - Stomach adenocarcinoma(1328;0.181)		CCAGAACTCCTCCGTCATCCT	0.597			Mis		uveal melanoma								21	90					0	0	1	0	0		G	3119270	G	G	3119270	3	3	153	1	0	0	0	0	1	0	0	0	6514	1551	54	5	824	5	GNA11	19	3119270	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	131301	3119270	56009713	1477	83409											
TBXA2R	6915	broad.mit.edu	37	chr19	3600476	3600476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgcgaacccccctgccGcgcgcccgccagcacgctca	5	4	11	21	7	1	0	1	0	0	0	1	1	1	0	6	0	4	2	6	0	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:3600476G>A	uc002lyg.1	-	2	371	c.157C>T	c.(157-159)CGG>TGG	p.R53W	TBXA2R_uc002lye.1_Missense_Mutation_p.R53W	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	53	Cytoplasmic (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CCCCCCTGCCGCGCGCCCGCC	0.701													6	10					0	0	1	0	0		A	3600476	A	A	3600476	3	1	153	1	0	0	0	0	1	0	0	0	15688	1086	38	1	1127	1	TBXA2R	19	3600476	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	481206	3600476	55528507	1478	83410											
APBA3	9546	broad.mit.edu	37	chr19	3760158	3760158	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctggcatagggtcccactgGctgtcaggggtgaggtcctc	5	9	15	12	0	1	1	1	1	0	0	4	1	3	1	3	6	0	2	3	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:3760158G>A	uc002lyp.1	-	2	282	c.105C>T	c.(103-105)AGC>AGT	p.S35S	MRPL54_uc002lyq.3_5'Flank	NM_004886	NP_004877	O96018	APBA3_HUMAN	amyloid beta (A4) precursor protein-binding,	35					intracellular signal transduction|protein transport	intracellular|membrane	protein binding				0		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)		GGTCCCACTGGCTGTCAGGGG	0.612													12	43					0	0	1	0	0		A	3760158	A	A	3760158	2	1	153	1	0	0	0	0	0	0	0	1	758	1194	42	2		2	APBA3	19	3760158	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	159682	3760158	55368825	1479	83411											
PLIN4	729359	broad.mit.edu	37	chr19	4512549	4512549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggccacattcgcagcacCggtgaccccactgcagacag	9	7	10	15	2	0	2	0	1	0	1	1	2	0	2	4	2	2	3	4	2	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:4512549C>T	uc002mar.1	-	3	1381	c.1381G>A	c.(1381-1383)GGT>AGT	p.G461S	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	461	27 X 33 AA approximate tandem repeat.|12.					lipid particle|plasma membrane					0						TTCGCAGCACCGGTGACCCCA	0.577													52	150					0	0	1	0	0		T	4512549	T	T	4512549	3	4	153	1	0	0	0	0	1	0	0	0	12111	652	23	1	2708	1	PLIN4	19	4512549	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	752391	4512549	54616434	1480	83412											
PLIN5	440503	broad.mit.edu	37	chr19	4523795	4523795	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggtcgctccacaaggatgggCgcgaagggtcccaccagcca	9	4	14	14	3	0	0	0	0	0	0	3	2	2	1	4	4	1	1	4	4	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:4523795C>T	uc002mas.2	-	8	1190	c.1137G>A	c.(1135-1137)GCG>GCA	p.A379A		NM_001013706	NP_001013728	Q00G26	PLIN5_HUMAN	lipid storage droplet protein 5	379						lipid particle					0						CAAGGATGGGCGCGAAGGGTC	0.751													5	19					0	0	1	0	0		T	4523795	T	T	4523795	2	4	153	1	0	0	0	0	0	0	0	1	12112	755	27	1		1	PLIN5	19	4523795	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	11246	4523795	54605188	1481	83413											
PTPRS	5802	broad.mit.edu	37	chr19	5212474	5212474	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	acgccgtaaactggaactggCggacctcgcgtttctcactg	8	9	11	13	5	1	0	1	0	1	0	3	2	1	2	2	3	2	2	2	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:5212474C>A	uc002mbv.2	-	31	4877	c.4643G>T	c.(4642-4644)CGC>CTC	p.R1548L	PTPRS_uc002mbu.1_Missense_Mutation_p.R1117L|PTPRS_uc010xin.1_Missense_Mutation_p.R1090L|PTPRS_uc002mbw.2_Missense_Mutation_p.R1510L|PTPRS_uc002mbx.2_Missense_Mutation_p.R1105L|PTPRS_uc002mby.2_Missense_Mutation_p.R1101L	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1548	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CTGGAACTGGCGGACCTCGCG	0.488													2	5					0.0784	0.0789111	1	1	0		A	5212474	A	A	5212474	3	1	153	1	0	0	0	0	1	0	0	0	12836	768	27	5	1235	5	PTPRS	19	5212474	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	688679	5212474	53916509	1482	83414											
PTPRS	5802	broad.mit.edu	37	chr19	5244133	5244133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggccgttgggctccaccGgctcctcccactgcacaatc	6	8	9	18	2	1	0	1	0	0	0	5	0	4	0	5	3	1	4	5	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:5244133G>A	uc002mbv.2	-	11	1583	c.1349C>T	c.(1348-1350)CCG>CTG	p.P450L	PTPRS_uc002mbu.1_Missense_Mutation_p.P437L|PTPRS_uc010xin.1_Missense_Mutation_p.P437L|PTPRS_uc002mbw.2_Missense_Mutation_p.P437L|PTPRS_uc002mbx.2_Missense_Mutation_p.P441L|PTPRS_uc002mby.2_Missense_Mutation_p.P437L	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	450	Extracellular (Potential).|Fibronectin type-III 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGGCTCCACCGGCTCCTCCCA	0.682													6	62					0	0	1	0	0		A	5244133	A	A	5244133	3	1	153	1	0	0	0	0	1	0	0	0	12836	1116	39	1	4609	1	PTPRS	19	5244133	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	31659	5244133	53884850	1483	83415											
SAFB2	9667	broad.mit.edu	37	chr19	5592763	5592763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacaagaccactgacctgtcGatggcgtggtcctggtactg	8	9	13	11	2	0	2	0	1	0	1	2	4	1	2	3	3	1	1	3	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:5592763G>A	uc002mcd.2	-	16	2555	c.2343C>T	c.(2341-2343)ATC>ATT	p.I781I		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	781	Arg-rich.|Interacts with SAFB1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CTGACCTGTCGATGGCGTGGT	0.597													11	32					0	0	1	0	0		A	5592763	A	A	5592763	2	1	153	1	0	0	0	0	0	0	0	1	13832	1048	37	1		1	SAFB2	19	5592763	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	348630	5592763	53536220	1484	83416											
RFX2	5990	broad.mit.edu	37	chr19	6002852	6002852	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggacgtgtagcgccgcagCgtctgggcgaaggcactgac	8	5	17	11	5	1	1	0	1	1	0	1	3	1	2	1	3	2	3	1	3	2	1	rs144909436		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:6002852C>T	uc002meb.2	-	14	1799	c.1530G>A	c.(1528-1530)ACG>ACA	p.T510T	RFX2_uc002mec.2_Silent_p.T485T	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	510					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						AGCGCCGCAGCGTCTGGGCGA	0.677													5	6					0	0	1	0	0		T	6002852	T	T	6002852	2	4	153	1	0	0	0	0	0	0	0	1	13288	755	27	1		1	RFX2	19	6002852	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	410089	6002852	53126131	1485	83417											
RFX2	5990	broad.mit.edu	37	chr19	6016119	6016119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctggtgcccagccgccgcGttctcagccccataaacaca	9	6	8	18	3	1	0	1	0	1	0	2	0	1	0	6	1	4	1	6	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:6016119G>A	uc002meb.2	-	7	1030	c.761C>T	c.(760-762)ACG>ATG	p.T254M	RFX2_uc002mec.2_Missense_Mutation_p.T229M	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a	254	RFX-type winged-helix.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						CAGCCGCCGCGTTCTCAGCCC	0.567													8	40					0	0	1	0	0		A	6016119	A	A	6016119	3	1	153	1	0	0	0	0	1	0	0	0	13288	1145	40	1	1458	1	RFX2	19	6016119	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	13267	6016119	53112864	1486	83418											
DENND1C	79958	broad.mit.edu	37	chr19	6470356	6470356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcttggccttgactgagtGcaggagggcgccaccacctt	6	9	14	12	1	1	2	0	2	1	0	1	3	1	3	4	4	1	1	4	4	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:6470356G>A	uc002mfe.2	-	18	1404	c.1312C>T	c.(1312-1314)CAC>TAC	p.H438Y	DENND1C_uc002mfb.2_5'UTR|DENND1C_uc002mfc.2_5'UTR|DENND1C_uc002mfd.2_5'UTR|DENND1C_uc010xje.1_Missense_Mutation_p.H394Y	NM_024898	NP_079174	Q8IV53	DEN1C_HUMAN	DENN/MADD domain containing 1C	438						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1						TTGACTGAGTGCAGGAGGGCG	0.413													4	7					0	0	1	0	0		A	6470356	A	A	6470356	3	1	153	1	0	0	0	0	1	0	0	0	4434	1319	46	2	1117	2	DENND1C	19	6470356	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	454237	6470356	52658627	1487	83419											
TRIP10	9322	broad.mit.edu	37	chr19	6743586	6743586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctagaccaggatatcaacGccaccaaggctgatgtggag	12	6	13	10	1	1	2	1	1	0	1	1	4	1	4	3	4	1	2	3	4	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:6743586G>A	uc002mfs.2	+	6	556	c.490G>A	c.(490-492)GCC>ACC	p.A164T	TRIP10_uc010dux.1_Missense_Mutation_p.A164T|TRIP10_uc002mfr.2_Missense_Mutation_p.A164T|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_5'UTR	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	164	Potential.|Induction of membrane tubulation.				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						GGATATCAACGCCACCAAGGC	0.622													18	44					0	0	1	0	0		A	6743586	A	A	6743586	3	1	153	1	0	0	0	0	1	0	0	0	16580	1087	38	1	512	1	TRIP10	19	6743586	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	273230	6743586	52385397	1488	83420											
SH2D3A	10045	broad.mit.edu	37	chr19	6752655	6752655	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccgaggacgcgctggaaCttctcaaagcgttcagcgcg	9	6	13	13	7	2	0	2	0	1	0	3	3	2	2	1	2	3	2	1	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:6752655C>T	uc002mft.2	-	10	1874	c.1680G>A	c.(1678-1680)AAG>AAA	p.K560K	SH2D3A_uc010xjg.1_Silent_p.K467K	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	560					JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						CGCGCTGGAACTTCTCAAAGC	0.682													3	4					0	0	1	0	0		T	6752655	T	T	6752655	2	4	153	1	0	0	0	0	0	0	0	1	14258	564	20	4		4	SH2D3A	19	6752655	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9069	6752655	52376328	1489	83421											
C19orf45	374877	broad.mit.edu	37	chr19	7573246	7573246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcacgcctcaccagcGcggctgcagggagaagatag	9	4	15	13	3	1	2	1	0	0	2	1	3	1	2	3	3	2	3	3	3	2	1	rs147092817		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:7573246G>A	uc002mgm.2	+	9	1589	c.1448G>A	c.(1447-1449)CGC>CAC	p.R483H		NM_198534	NP_940936	Q8NA69	CS045_HUMAN	hypothetical protein LOC374877	483											0						CCTCACCAGCGCGGCTGCAGG	0.577													10	31					0	0	1	0	0		A	7573246	A	A	7573246	3	1	153	1	0	0	0	0	1	0	0	0	1931	1087	38	1	1478	1	C19orf45	19	7573246	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	820591	7573246	51555737	1490	83422											
XAB2	56949	broad.mit.edu	37	chr19	7687494	7687494	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtacacgcggttctgcacGggctctgaaccatcaaagta	10	10	10	11	3	3	1	1	1	2	0	3	1	3	1	1	2	3	5	1	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:7687494G>A	uc002mgx.2	-	11	1451	c.1425C>T	c.(1423-1425)CCC>CCT	p.P475P		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	475					transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						GGTTCTGCACGGGCTCTGAAC	0.672								Direct_reversal_of_damage|NER					9	52					0	0	1	0	0		A	7687494	A	A	7687494	2	1	153	1	0	0	0	0	0	0	0	1	17444	1103	39	1		1	XAB2	19	7687494	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	114248	7687494	51441489	1491	83423											
CTXN1	404217	broad.mit.edu	37	chr19	7990265	7990265	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcggctgtaggggtcgagCaggatgcgcacgcagcgcac	8	5	17	11	5	0	0	0	0	0	0	1	2	0	1	0	4	4	6	0	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:7990265C>T	uc002miy.3	-	2	379	c.159G>A	c.(157-159)CTG>CTA	p.L53L		NM_206833	NP_996664	P60606	CTXN1_HUMAN	cortexin 1	53						integral to membrane				ovary(1)	1						AGGGGTCGAGCAGGATGCGCA	0.701													3	5					0	0	1	0	0		T	7990265	T	T	7990265	2	4	153	1	0	0	0	0	0	0	0	1	4052	697	25	2		2	CTXN1	19	7990265	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	302771	7990265	51138718	1492	83424											
ADAMTS10	81794	broad.mit.edu	37	chr19	8651120	8651120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggttgcggcactccaccGcctgcacctggctacctgga	5	8	12	16	2	0	0	0	0	0	0	1	1	1	1	5	4	3	5	5	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:8651120G>A	uc002mkj.1	-	22	2820	c.2546C>T	c.(2545-2547)GCG>GTG	p.A849V	ADAMTS10_uc002mki.1_Missense_Mutation_p.A336V|ADAMTS10_uc002mkk.1_Missense_Mutation_p.A481V	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	849	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GCACTCCACCGCCTGCACCTG	0.687											OREG0025221	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	19					0	0	1	0	0		A	8651120	A	A	8651120	3	1	153	1	0	0	0	0	1	0	0	0	256	1087	38	1	785	1	ADAMTS10	19	8651120	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	660855	8651120	50477863	1493	83425											
MUC16	94025	broad.mit.edu	37	chr19	9072974	9072974	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtgtttatggaaggatgCgttgtctctatatctgtggt	7	17	12	5	1	2	0	0	0	2	0	3	2	2	2	0	3	1	2	0	3	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:9072974C>T	uc002mkp.2	-	3	14676	c.14472G>A	c.(14470-14472)ACG>ACA	p.T4824T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4826	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGAAGGATGCGTTGTCTCTA	0.443													22	92					0	0	1	0	0		T	9072974	T	T	9072974	2	4	153	1	0	0	0	0	0	0	0	1	9991	755	27	1		1	MUC16	19	9072974	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	421854	9072974	50056009	1494	83426											
ZNF562	54811	broad.mit.edu	37	chr19	9764462	9764462	+	Silent	SNP	A	G	G	1	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	ccctcaaaagtgttccctccAttctgagctctcatgtgtgt	7	14	7	13	0	3	1	2	1	2	0	6	1	5	1	3	0	1	2	3	0	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:9764462A>G	uc010xks.1	-	6	607	c.444T>C	c.(442-444)AAT>AAC	p.N148N	ZNF562_uc002mly.2_Silent_p.N148N|ZNF562_uc002mlx.2_Silent_p.N76N|ZNF562_uc010xkt.1_Silent_p.N111N|ZNF562_uc010xku.1_Silent_p.N79N|ZNF562_uc010xkv.1_Silent_p.N147N|ZNF562_uc010xkw.1_Silent_p.N32N	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGTTCCCTCCATTCTGAGCTC	0.423													42	130					0	0	1	0	0		G	9764462	G	G	9764462	2	3	153	1	0	0	0	0	0	0	0	1	18018	214	8	3		3	ZNF562	19	9764462	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	691488	9764462	49364521	1495	83427											
ICAM5	7087	broad.mit.edu	37	chr19	10404792	10404792	+	Silent	SNP	T	C	C	0	1	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	tctgggcgcctgttttcctgTgaggtcgatgggaagccaca	6	11	14	10	2	1	1	0	1	1	0	3	3	2	2	3	3	1	1	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:10404792T>C	uc002mnu.3	+	8	1853	c.1788T>C	c.(1786-1788)TGT>TGC	p.C596C	ICAM5_uc002mnv.3_Silent_p.C471C	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	596	Extracellular (Potential).|Ig-like C2-type 7.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			TGTTTTCCTGTGAGGTCGATG	0.647													32	79					0	0	1	0	0		C	10404792	C	C	10404792	2	2	153	1	0	0	0	0	0	0	0	1	7499	1702	59	3		3	ICAM5	19	10404792	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	640330	10404792	48724191	1496	83428											
PDE4A	5141	broad.mit.edu	37	chr19	10570296	10570296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacctgctgaagaaattccGcatccctgtggacacgatgg	10	8	12	11	2	0	2	0	1	0	1	2	5	2	4	3	3	1	2	3	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:10570296G>A	uc002moj.2	+	10	1334	c.1226G>A	c.(1225-1227)CGC>CAC	p.R409H	PDE4A_uc002mok.2_Missense_Mutation_p.R383H|PDE4A_uc002mol.2_Missense_Mutation_p.R348H|PDE4A_uc002mom.2_Missense_Mutation_p.R170H|PDE4A_uc002mon.2_Intron|PDE4A_uc002moo.2_Missense_Mutation_p.R75H	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	409	Catalytic.				signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	AAGAAATTCCGCATCCCTGTG	0.642													6	35					0	0	1	0	0		A	10570296	A	A	10570296	3	1	153	1	0	0	0	0	1	0	0	0	11658	1087	38	1	1721	1	PDE4A	19	10570296	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	165504	10570296	48558687	1497	83429											
DNM2	1785	broad.mit.edu	37	chr19	10908090	10908090	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cccccgacatggcctttgaaGccattgtgaaaaaacagatt	13	9	8	11	1	0	3	0	2	0	1	0	4	0	3	4	1	2	0	4	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:10908090G>T	uc002mps.1	+	10	1395	c.1231G>T	c.(1231-1233)GCC>TCC	p.A411S	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Intron|DNM2_uc002mpv.1_Missense_Mutation_p.A411S|DNM2_uc002mpu.1_Intron|DNM2_uc010dxl.1_Intron|DNM2_uc002mpw.2_Missense_Mutation_p.A144S	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	411					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			GGCCTTTGAAGCCATTGTGAA	0.537													27	74					2.79863e-10	2.93769e-10	1	1	0		T	10908090	T	T	10908090	3	4	153	1	0	0	0	0	1	0	0	0	4678	971	34	5	1412	5	DNM2	19	10908090	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	337794	10908090	48220893	1498	83430											
LDLR	3949	broad.mit.edu	37	chr19	11213416	11213416	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcctcagttctggaggtgCgatggccaagtggactgcga	8	10	14	9	2	2	0	1	0	1	0	3	4	3	2	2	4	2	1	2	4	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:11213416C>T	uc002mqk.3	+	3	435	c.267C>T	c.(265-267)TGC>TGT	p.C89C	LDLR_uc010xlk.1_Silent_p.C89C|LDLR_uc010xll.1_Intron|LDLR_uc010xlm.1_Intron|LDLR_uc010xln.1_Silent_p.C89C|LDLR_uc010xlo.1_Silent_p.C89C	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	89	Extracellular (Potential).|LDL-receptor class A 2.		C -> Y (in FH).		cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		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)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	TCTGGAGGTGCGATGGCCAAG	0.567													29	110					0	0	1	0	0		T	11213416	T	T	11213416	2	4	153	1	0	0	0	0	0	0	0	1	8720	776	27	1		1	LDLR	19	11213416	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	305326	11213416	47915567	1499	83431											
RAB3D	9545	broad.mit.edu	37	chr19	11446182	11446182	+	Missense_Mutation	SNP	T	G	G	0	1	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	caacacgttcgtcctccaggTcacacttgttccccaccagg	8	9	7	17	2	1	0	1	0	0	0	5	0	4	0	5	2	1	2	5	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:11446182T>G	uc002mqy.2	-	4	651	c.413A>C	c.(412-414)GAC>GCC	p.D138A		NM_004283	NP_004274	O95716	RAB3D_HUMAN	RAB3D, member RAS oncogene family	138	GTP.				exocytosis|protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(2)	2						GTCCTCCAGGTCACACTTGTT	0.627													18	66					0	0	1	0	0		G	11446182	G	G	11446182	3	3	153	1	0	0	0	0	1	0	0	0	12959	1667	58	5	254	5	RAB3D	19	11446182	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	232766	11446182	47682801	1500	83432											
PRKCSH	5589	broad.mit.edu	37	chr19	11559934	11559934	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccgaccacgacaagttcagtGccatgaagtatgagcaaggc	13	6	11	11	2	1	2	1	2	0	0	1	4	1	2	3	1	2	3	3	1	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:11559934G>A	uc002mrt.2	+	16	1720	c.1384G>A	c.(1384-1386)GCC>ACC	p.A462T	PRKCSH_uc002mru.2_Missense_Mutation_p.A459T|PRKCSH_uc010xlz.1_Missense_Mutation_p.A469T|PRKCSH_uc010dya.2_Missense_Mutation_p.A244T|PRKCSH_uc010dyb.2_Missense_Mutation_p.A459T	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	462	PRKCSH.				innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						CAAGTTCAGTGCCATGAAGTA	0.677													16	51					0	0	1	0	0		A	11559934	A	A	11559934	3	1	153	1	0	0	0	0	1	0	0	0	12538	1319	46	2	1463	2	PRKCSH	19	11559934	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	113752	11559934	47569049	1501	83433											
ZNF625	90589	broad.mit.edu	37	chr19	12256589	12256589	+	Silent	SNP	A	G	G	1	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	cattcatatggtttctctccAgtgtgagttcgtttgtggat	6	18	10	7	1	2	1	1	1	1	0	5	2	3	2	1	2	0	3	1	2	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:12256589A>G	uc002mth.2	-	4	794	c.444T>C	c.(442-444)ACT>ACC	p.T148T	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Silent_p.T182T	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	148					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTCTCTCCAGTGTGAGTTC	0.413													40	177					0	0	1	0	0		G	12256589	G	G	12256589	2	3	153	1	0	0	0	0	0	0	0	1	18074	175	7	3		3	ZNF625	19	12256589	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	696655	12256589	46872394	1502	83434											
ZNF799	90576	broad.mit.edu	37	chr19	12501871	12501871	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacatttgcatttatagggTttctctccagtatgagttgt	8	17	8	8	0	1	1	0	1	1	0	3	1	2	1	2	1	1	4	2	1	3	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:12501871T>G	uc010dyt.2	-	4	1491	c.1341A>C	c.(1339-1341)AAA>AAC	p.K447N	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	447					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						ATTTATAGGGTTTCTCTCCAG	0.388													51	150					0	0	1	0	0		G	12501871	G	G	12501871	3	3	153	1	0	0	0	0	1	0	0	0	18191	1722	60	5	594	5	ZNF799	19	12501871	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	245282	12501871	46627112	1503	83435											
ZNF791	163049	broad.mit.edu	37	chr19	12739381	12739381	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcccagcctttcgagtacaCgtgagagtgcatactggaga	10	8	12	11	3	0	2	0	1	0	2	1	5	0	2	2	1	4	2	2	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:12739381C>T	uc002mua.2	+	4	1200	c.1038C>T	c.(1036-1038)CAC>CAT	p.H346H	ZNF791_uc010xml.1_Silent_p.H314H|ZNF791_uc010dyu.1_Silent_p.H237H|ZNF791_uc010xmm.1_Silent_p.H237H	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	346	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTCGAGTACACGTGAGAGTGC	0.408													34	116					0	0	1	0	0		T	12739381	T	T	12739381	2	4	153	1	0	0	0	0	0	0	0	1	18188	535	19	1		1	ZNF791	19	12739381	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	237510	12739381	46389602	1504	83436											
MAN2B1	4125	broad.mit.edu	37	chr19	12766586	12766586	+	Silent	SNP	A	G	G	1	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	cgggcctggggcttccagcgAggcacctgggctactgaata	7	7	15	12	2	0	1	0	1	0	0	1	2	1	1	3	5	2	3	3	5	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:12766586A>G	uc002mub.2	-	14	1828	c.1752T>C	c.(1750-1752)CCT>CCC	p.P584P	MAN2B1_uc010dyv.1_Silent_p.P583P	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	584					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GCTTCCAGCGAGGCACCTGGG	0.612													39	110					0	0	1	0	0		G	12766586	G	G	12766586	2	3	153	1	0	0	0	0	0	0	0	1	9234	291	11	3		3	MAN2B1	19	12766586	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	27205	12766586	46362397	1505	83437											
DHPS	1725	broad.mit.edu	37	chr19	12791075	12791075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcagctggtaagtgggcggCggctctgggtcaggtccgcg	4	8	19	10	4	2	0	1	0	1	0	3	0	3	0	1	6	2	4	1	6	1	1	rs145815031		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:12791075C>T	uc002muh.1	-	2	369	c.272G>A	c.(271-273)CGC>CAC	p.R91H	DHPS_uc002muf.1_5'UTR|DHPS_uc002mug.1_Missense_Mutation_p.R49H|DHPS_uc002mui.1_Missense_Mutation_p.R91H|DHPS_uc002muj.1_Missense_Mutation_p.R91H|DHPS_uc002muk.1_RNA|DHPS_uc010xmn.1_RNA	NM_001930	NP_001921	P49366	DHYS_HUMAN	deoxyhypusine synthase isoform a	91					peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|post-translational protein modification|spermidine catabolic process to deoxyhypusine, using deoxyhypusine synthase|translation	cytosol	deoxyhypusine synthase activity|protein binding			central_nervous_system(1)	1					Sulfadoxine(DB01299)	AAGTGGGCGGCGGCTCTGGGT	0.542													72	178					0	0	1	0	0		T	12791075	T	T	12791075	3	4	153	1	0	0	0	0	1	0	0	0	4491	768	27	1	869	1	DHPS	19	12791075	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	24489	12791075	46337908	1506	83438											
FBXW9	84261	broad.mit.edu	37	chr19	12800036	12800036	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgcccacctgctcaggcCtgcagcctccagacctctag	7	6	8	20	1	2	1	1	0	1	1	3	1	3	1	7	1	3	2	7	1	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:12800036C>T	uc010dyx.2	-	10	1431	c.1431G>A	c.(1429-1431)CAG>CAA	p.Q477Q	FBXW9_uc010xmp.1_RNA|uc002mul.1_Silent_p.A98A|FBXW9_uc002mum.1_Silent_p.Q457Q|FBXW9_uc002mun.1_Silent_p.Q294Q	NM_032301	NP_115677	Q5XUX1	FBXW9_HUMAN	F-box and WD-40 domain protein 9	487	WD 7.						protein binding			ovary(1)	1						CTGCTCAGGCCTGCAGCCTCC	0.647													11	34					0	0	1	0	0		T	12800036	T	T	12800036	2	4	153	1	0	0	0	0	0	0	0	1	5785	680	24	4		4	FBXW9	19	12800036	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8961	12800036	46328947	1507	83439											
NFIX	4784	broad.mit.edu	37	chr19	13184812	13184812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	accaggtgaccctggggcggCggtccatcacctcccctcct	5	7	11	18	2	1	1	1	1	0	0	4	1	4	1	7	5	0	0	7	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:13184812C>T	uc010xmx.1	+	5	867	c.814C>T	c.(814-816)CGG>TGG	p.R272W	NFIX_uc002mwd.2_Missense_Mutation_p.R264W|NFIX_uc002mwe.2_Missense_Mutation_p.R256W|NFIX_uc002mwf.2_Missense_Mutation_p.R267W|NFIX_uc002mwg.1_Missense_Mutation_p.R263W			Q14938	NFIX_HUMAN	RecName: Full=Nuclear factor 1;	264					DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(19;8.2e-22)			CCTGGGGCGGCGGTCCATCAC	0.627													7	61					0	0	1	0	0		T	13184812	T	T	13184812	3	4	153	1	0	0	0	0	1	0	0	0	10393	759	27	1	808	1	NFIX	19	13184812	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	384776	13184812	45944171	1508	83440											
CACNA1A	773	broad.mit.edu	37	chr19	13323306	13323306	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgctgggtcacccaggacggGctctccttgaggccgctttc	4	9	13	15	3	2	1	1	1	1	0	4	2	2	2	3	4	0	3	3	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:13323306G>A	uc010dze.2	-	42	6320	c.6084C>T	c.(6082-6084)AGC>AGT	p.S2028S	CACNA1A_uc010xnd.1_Silent_p.S733S|CACNA1A_uc002mwx.3_Silent_p.S733S|CACNA1A_uc010dzc.2_Silent_p.S1553S|CACNA1A_uc002mwy.3_Silent_p.S2027S|CACNA1A_uc002mwv.3_Silent_p.S544S	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	2028	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CCCAGGACGGGCTCTCCTTGA	0.652													4	4					0	0	1	0	0		A	13323306	A	A	13323306	2	1	153	1	0	0	0	0	0	0	0	1	2541	1194	42	2		2	CACNA1A	19	13323306	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	138494	13323306	45805677	1509	83441											
CACNA1A	773	broad.mit.edu	37	chr19	13414687	13414687	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacctcgttccagtcttcGcccgtcaggatctgaaaggg	8	10	11	12	3	3	2	1	2	2	0	6	3	4	3	3	2	0	1	3	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:13414687G>A	uc010dze.2	-	16	2237	c.2001C>T	c.(1999-2001)GGC>GGT	p.G667G	CACNA1A_uc010dzc.2_Silent_p.G192G|CACNA1A_uc002mwy.3_Silent_p.G666G|CACNA1A_uc010xne.1_Silent_p.G192G	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	667	Extracellular (Potential).|II.				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	TCCAGTCTTCGCCCGTCAGGA	0.592													35	105					0	0	1	0	0		A	13414687	A	A	13414687	2	1	153	1	0	0	0	0	0	0	0	1	2541	1074	38	1		1	CACNA1A	19	13414687	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	91381	13414687	45714296	1510	83442											
CACNA1A	773	broad.mit.edu	37	chr19	13470495	13470495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgcaaacaggatgttgtcGaactgagtgatcccgttgtt	10	12	11	8	2	0	2	0	2	0	0	2	4	1	3	1	1	3	4	1	1	2	3	rs17846910		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:13470495G>A	uc010dze.2	-	6	1139	c.903C>T	c.(901-903)TTC>TTT	p.F301F	CACNA1A_uc002mwy.3_Silent_p.F301F	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	301	I.|Extracellular (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GGATGTTGTCGAACTGAGTGA	0.552													4	18					0	0	1	0	0		A	13470495	A	A	13470495	2	1	153	1	0	0	0	0	0	0	0	1	2541	1049	37	1		1	CACNA1A	19	13470495	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	55808	13470495	45658488	1511	83443											
ZSWIM4	65249	broad.mit.edu	37	chr19	13939479	13939479	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatgcggatgactctgaaCgtaatgacctggcggcggag	9	8	16	8	4	1	4	0	4	1	0	1	6	1	6	1	4	2	1	1	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:13939479C>T	uc002mxh.1	+	12	2238	c.2049C>T	c.(2047-2049)AAC>AAT	p.N683N	ZSWIM4_uc010xng.1_Silent_p.N606N	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	683							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			TGACTCTGAACGTAATGACCT	0.622													20	79					0	0	1	0	0		T	13939479	T	T	13939479	2	4	153	1	0	0	0	0	0	0	0	1	18268	535	19	1		1	ZSWIM4	19	13939479	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	468984	13939479	45189504	1512	83444											
C19orf57	79173	broad.mit.edu	37	chr19	14000060	14000060	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctgtatctggctgtccaGcaggaagtcgagttccacag	9	10	11	11	1	1	0	0	0	1	0	5	2	4	1	3	2	1	4	3	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:14000060G>A	uc002mxl.1	-	6	1668	c.1609C>T	c.(1609-1611)CTG>TTG	p.L537L	C19orf57_uc002mxk.1_Silent_p.L419L|C19orf57_uc002mxm.1_Intron	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	537					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			TGGCTGTCCAGCAGGAAGTCG	0.607													11	40					0	0	1	0	0		A	14000060	A	A	14000060	2	1	153	1	0	0	0	0	0	0	0	1	1942	962	34	2		2	C19orf57	19	14000060	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	60581	14000060	45128923	1513	83445											
LPHN1	22859	broad.mit.edu	37	chr19	14288438	14288438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttgtcgtccgtgcgcccGtagttggcattctccaccat	5	13	9	14	4	2	0	0	0	2	0	5	0	3	0	4	1	1	3	4	1	1	4	rs148289324		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:14288438G>A	uc010xnn.1	-	3	485	c.189C>T	c.(187-189)TAC>TAT	p.Y63Y	LPHN1_uc010xno.1_Silent_p.Y63Y	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	63	SUEL-type lectin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						CCGTGCGCCCGTAGTTGGCAT	0.607													32	119					0	0	1	0	0		A	14288438	A	A	14288438	2	1	153	1	0	0	0	0	0	0	0	1	8933	1140	40	1		1	LPHN1	19	14288438	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	288378	14288438	44840545	1514	83446											
EMR3	84658	broad.mit.edu	37	chr19	14772911	14772911	+	Silent	SNP	T	C	C	0	1	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	ccacaatatacactatagggTggtgtacattcattaatgtc	13	13	7	8	0	1	0	1	0	0	0	2	0	1	0	1	2	2	1	1	2	7	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:14772911T>C	uc002mzi.3	-	4	367	c.219A>G	c.(217-219)CCA>CCG	p.P73P	EMR3_uc010dzp.2_Intron|EMR3_uc010xnv.1_Intron	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	73	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						CACTATAGGGTGGTGTACATT	0.294													6	112					0	0	1	0	0		C	14772911	C	C	14772911	2	2	153	1	0	0	0	0	0	0	0	1	5114	1683	59	3		3	EMR3	19	14772911	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	484473	14772911	44356072	1515	83447											
OR7A17	26333	broad.mit.edu	37	chr19	14991937	14991937	+	Silent	SNP	T	C	C	0	1	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	ttaatgagcatctttgggatTgtagtggagatgaaacagat	13	13	12	3	0	1	4	0	2	1	2	1	6	1	5	0	2	2	2	0	2	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:14991937T>C	uc010xob.1	-	1	231	c.231A>G	c.(229-231)ACA>ACG	p.T77T		NM_030901	NP_112163	O14581	OR7AH_HUMAN	olfactory receptor, family 7, subfamily A,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Ovarian(108;0.203)					TCTTTGGGATTGTAGTGGAGA	0.478													28	86					0	0	1	0	0		C	14991937	C	C	14991937	2	2	153	1	0	0	0	0	0	0	0	1	11234	1799	63	3		3	OR7A17	19	14991937	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	219026	14991937	44137046	1516	83448											
BRD4	23476	broad.mit.edu	37	chr19	15375544	15375544	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtcaatggtggtgggggtggTggtgtctgctttcctcttca	3	15	16	7	0	4	0	2	0	2	0	5	0	5	0	1	6	1	1	1	6	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:15375544T>G	uc002nar.2	-	6	1105	c.883A>C	c.(883-885)ACC>CCC	p.T295P	BRD4_uc002nas.2_Missense_Mutation_p.T295P|BRD4_uc002nat.3_Missense_Mutation_p.T295P|BRD4_uc002nau.3_Missense_Mutation_p.T295P	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	295					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			GTGGGGGTGGTGGTGTCTGCT	0.647			T	NUT|C15orf55	lethal midline carcinoma of young people						OREG0025319	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	119					0	0	1	0	0		G	15375544	G	G	15375544	3	3	153	1	0	0	0	0	1	0	0	0	1507	1696	59	5	3280	5	BRD4	19	15375544	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	383607	15375544	43753439	1517	83449											
AKAP8	10270	broad.mit.edu	37	chr19	15483787	15483787	+	Missense_Mutation	SNP	A	G	G	1	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	catggactgggagaagagggAcggaggtggccggctggggg	8	4	23	6	2	0	2	0	0	0	2	0	6	0	5	1	9	0	1	1	9	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:15483787A>G	uc002nav.2	-	5	797	c.736T>C	c.(736-738)TCC>CCC	p.S246P	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.S60P	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	246					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						GAGAAGAGGGACGGAGGTGGC	0.701													4	12					0	0	1	0	0		G	15483787	G	G	15483787	3	3	153	1	0	0	0	0	1	0	0	0	457	275	10	3	1382	3	AKAP8	19	15483787	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	108243	15483787	43645196	1518	83450											
OR10H5	284433	broad.mit.edu	37	chr19	15905420	15905420	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccacctctgttgaagttgGcctgtggagatgatgtgctg	6	13	14	8	0	1	3	0	2	1	1	1	4	1	3	3	2	2	3	3	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:15905420G>T	uc010xos.1	+	1	562	c.562G>T	c.(562-564)GCC>TCC	p.A188S		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTTGAAGTTGGCCTGTGGAGA	0.567													34	75					1.26612e-14	1.34521e-14	1	1	0		T	15905420	T	T	15905420	3	4	153	1	0	0	0	0	1	0	0	0	10928	1203	42	5	564	5	OR10H5	19	15905420	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	421633	15905420	43223563	1519	83451											
CYP4F11	57834	broad.mit.edu	37	chr19	16034738	16034738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgctcctggatgacggcatCtgtgaagtcgtgcaccaggt	7	9	13	12	3	1	2	0	2	1	0	3	3	2	3	3	3	1	3	3	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:16034738C>T	uc002nbu.2	-	7	838	c.802G>A	c.(802-804)GAT>AAT	p.D268N	CYP4F11_uc010eab.1_Missense_Mutation_p.D268N|CYP4F11_uc002nbt.2_Missense_Mutation_p.D268N	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	268					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						ATGACGGCATCTGTGAAGTCG	0.532													39	129					0	0	1	0	0		T	16034738	T	T	16034738	3	4	153	1	0	0	0	0	1	0	0	0	4189	913	32	4	800	4	CYP4F11	19	16034738	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	129318	16034738	43094245	1520	83452											
TMEM38A	79041	broad.mit.edu	37	chr19	16791256	16791256	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttctacaagtgtgtctgCttcctgcctgtgaaactcat	7	15	7	12	0	4	1	1	1	3	0	5	1	5	1	2	0	4	1	2	0	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:16791256C>T	uc002nes.2	+	3	421	c.330C>T	c.(328-330)TGC>TGT	p.C110C		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	110	Cytoplasmic (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						AGTGTGTCTGCTTCCTGCCTG	0.557													91	310					0	0	1	0	0		T	16791256	T	T	16791256	2	4	153	1	0	0	0	0	0	0	0	1	16184	805	28	2		2	TMEM38A	19	16791256	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	756518	16791256	42337727	1521	83453											
NWD1	284434	broad.mit.edu	37	chr19	16860994	16860994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggcagctgcaaggaggaCgctgagcccggtgcacacag	9	4	16	12	2	0	1	0	1	0	0	0	3	0	3	1	4	4	6	1	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:16860994C>T	uc002neu.3	+	6	1963	c.1541C>T	c.(1540-1542)ACG>ATG	p.T514M	NWD1_uc002net.3_Missense_Mutation_p.T379M|NWD1_uc002nev.3_Missense_Mutation_p.T308M			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	514	NACHT.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						GCAAGGAGGACGCTGAGCCCG	0.647													18	44					0	0	1	0	0		T	16860994	T	T	16860994	3	4	153	1	0	0	0	0	1	0	0	0	10800	536	19	1	1142	1	NWD1	19	16860994	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	69738	16860994	42267989	1522	83454											
CPAMD8	27151	broad.mit.edu	37	chr19	17014586	17014586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtagtccaggttggtggaggCcagggagacagtgaggttga	9	8	19	5	0	0	3	0	2	0	1	1	5	1	4	2	6	0	3	2	6	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:17014586C>T	uc002nfb.2	-	33	4506	c.4474G>A	c.(4474-4476)GCC>ACC	p.A1492T	CPAMD8_uc002nfd.1_5'Flank	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1445						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TTGGTGGAGGCCAGGGAGACA	0.582													27	106					0	0	1	0	0		T	17014586	T	T	17014586	3	4	153	1	0	0	0	0	1	0	0	0	3798	739	26	2	1364	2	CPAMD8	19	17014586	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	153592	17014586	42114397	1523	83455											
CPAMD8	27151	broad.mit.edu	37	chr19	17108023	17108023	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtggagtcatcgaacgcGacctgctggctcccgtccac	6	7	14	14	4	1	0	1	0	0	0	4	3	3	1	3	4	2	2	3	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:17108023G>A	uc002nfb.2	-	11	1166	c.1134C>T	c.(1132-1134)GTC>GTT	p.V378V		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	331						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						CATCGAACGCGACCTGCTGGC	0.647													4	34					0	0	1	0	0		A	17108023	A	A	17108023	2	1	153	1	0	0	0	0	0	0	0	1	3798	1045	37	1		1	CPAMD8	19	17108023	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	93437	17108023	42020960	1524	83456											
PLVAP	83483	broad.mit.edu	37	chr19	17476377	17476377	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggaggtctgagttctcGcgggccacgcgttcgatatc	5	11	14	11	6	2	1	0	1	2	0	5	3	2	2	1	3	0	3	1	3	1	4	rs147035073	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:17476377G>A	uc002ngk.1	-	3	947	c.897C>T	c.(895-897)CGC>CGT	p.R299R		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	299	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						CTGAGTTCTCGCGGGCCACGC	0.672													17	37					0	0	1	0	0		A	17476377	A	A	17476377	2	1	153	1	0	0	0	0	0	0	0	1	12135	1074	38	1		1	PLVAP	19	17476377	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	368354	17476377	41652606	1525	83457											
IL12RB1	3594	broad.mit.edu	37	chr19	18177481	18177481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctatgattcttcaccgagaCgtggtgcggtgtcccagctg	6	11	13	11	3	2	2	1	1	1	1	3	3	3	2	2	2	2	2	2	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:18177481C>T	uc002nhw.1	-	12	1418	c.1354G>A	c.(1354-1356)GTC>ATC	p.V452I	IL12RB1_uc010xqb.1_Missense_Mutation_p.V452I|IL12RB1_uc002nhx.1_Missense_Mutation_p.V492I	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	452	Extracellular (Potential).|Fibronectin type-III 5.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						TTCACCGAGACGTGGTGCGGT	0.483													35	129					0	0	1	0	0		T	18177481	T	T	18177481	3	4	153	1	0	0	0	0	1	0	0	0	7642	536	19	1	658	1	IL12RB1	19	18177481	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	701104	18177481	40951502	1526	83458											
IL12RB1	3594	broad.mit.edu	37	chr19	18183096	18183096	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgtggagctgtagtcGgtaagtgacctccgtgccag	8	9	14	10	2	0	1	0	1	0	0	2	2	1	2	3	2	3	4	3	2	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:18183096G>A	uc002nhw.1	-	9	911	c.847C>T	c.(847-849)CGA>TGA	p.R283*	IL12RB1_uc010xqb.1_Nonsense_Mutation_p.R283*|IL12RB1_uc002nhx.1_Nonsense_Mutation_p.R323*|IL12RB1_uc002nhy.2_Nonsense_Mutation_p.R283*	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	283	Extracellular (Potential).|Fibronectin type-III 3.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						AGCTGTAGTCGGTAAGTGACC	0.597													9	36					0	0	1	0	0		A	18183096	A	A	18183096	4	1	153	1	0	0	0	0	0	1	0	0	7642	1124	39	1	1306	1	IL12RB1	19	18183096	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	5615	18183096	40945887	1527	83459											
RAB3A	5864	broad.mit.edu	37	chr19	18313398	18313398	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgatgcccacggtgctgacGaaggcaggcgtgaacgagtc	9	6	15	11	5	0	2	0	2	0	0	2	5	0	2	1	3	3	2	1	3	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:18313398G>A	uc002nie.2	-	2	322	c.153C>T	c.(151-153)TTC>TTT	p.F51F		NM_002866	NP_002857	P20336	RAB3A_HUMAN	RAB3A, member RAS oncogene family	51	Effector region (By similarity).				glutamate secretion|protein transport|small GTPase mediated signal transduction	clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|plasma membrane|synaptic vesicle	GTP binding|GTPase activity				0						CGGTGCTGACGAAGGCAGGCG	0.562											OREG0025360	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	57	177					0	0	1	0	0		A	18313398	A	A	18313398	2	1	153	1	0	0	0	0	0	0	0	1	12956	1049	37	1		1	RAB3A	19	18313398	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	130302	18313398	40815585	1528	83460											
UPF1	5976	broad.mit.edu	37	chr19	18966799	18966799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aacggagaagatccaccagaCggggctaaaggtcgtgcgcc	12	4	14	11	4	0	3	0	0	0	3	2	4	1	3	3	4	2	1	3	4	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:18966799C>T	uc002nkg.2	+	12	1918	c.1643C>T	c.(1642-1644)ACG>ATG	p.T548M	UPF1_uc002nkf.2_Missense_Mutation_p.T537M	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	548					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						ATCCACCAGACGGGGCTAAAG	0.612													7	28					0	0	1	0	0		T	18966799	T	T	18966799	3	4	153	1	0	0	0	0	1	0	0	0	17029	536	19	1	1656	1	UPF1	19	18966799	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	653401	18966799	40162184	1529	83461											
SFRS14	10147	broad.mit.edu	37	chr19	19136833	19136833	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagaaaattccagatcccgGccacattctttgcgaaagta	13	10	8	10	2	1	2	0	1	1	2	3	4	3	2	3	1	1	1	3	1	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:19136833G>A	uc002nkx.2	-	3	470	c.324C>T	c.(322-324)GGC>GGT	p.G108G	SFRS14_uc002nkz.1_Silent_p.G122G|SFRS14_uc002nla.1_Silent_p.G108G|SFRS14_uc002nlb.2_Silent_p.G108G|SFRS14_uc010xqk.1_Missense_Mutation_p.A10V	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	108					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CCAGATCCCGGCCACATTCTT	0.517													45	138					0	0	1	0	0		A	19136833	A	A	19136833	2	1	153	1	0	0	0	0	0	0	0	1	14195	1190	42	2		2	SFRS14	19	19136833	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	170034	19136833	39992150	1530	83462											
SLC25A42	284439	broad.mit.edu	37	chr19	19217167	19217167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccctggacctggtcagagCgcggatggccgtaaccccga	7	5	13	16	4	1	1	1	0	0	1	1	4	1	3	6	4	2	1	6	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:19217167C>T	uc002nlf.1	+	6	621	c.470C>T	c.(469-471)GCG>GTG	p.A157V	SLC25A42_uc010xqn.1_Missense_Mutation_p.A209V	NM_178526	NP_848621	Q86VD7	S2542_HUMAN	solute carrier family 25, member 42	157	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.4e-06)|Epithelial(12;0.000497)			CTGGTCAGAGCGCGGATGGCC	0.662													9	37					0	0	1	0	0		T	19217167	T	T	19217167	3	4	153	1	0	0	0	0	1	0	0	0	14532	768	27	1	488	1	SLC25A42	19	19217167	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	80334	19217167	39911816	1531	83463											
NCAN	1463	broad.mit.edu	37	chr19	19329854	19329854	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accctgcagccacggccaagCgcagcccgagatgcccctcg	8	3	11	19	4	0	1	0	0	0	1	1	2	0	1	6	1	5	2	6	1	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:19329854C>T	uc002nlz.2	+	3	303	c.204C>T	c.(202-204)AGC>AGT	p.S68S		NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	68	Ig-like V-type.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CACGGCCAAGCGCAGCCCGAG	0.657													7	30					0	0	1	0	0		T	19329854	T	T	19329854	2	4	153	1	0	0	0	0	0	0	0	1	10223	767	27	1		1	NCAN	19	19329854	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	112687	19329854	39799129	1532	83464											
NCAN	1463	broad.mit.edu	37	chr19	19351447	19351447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacgtggatcggcctgaacGacaggatcgtggagagagat	12	6	15	8	4	0	3	0	1	0	2	2	8	0	5	1	4	1	0	1	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:19351447G>A	uc002nlz.2	+	12	3544	c.3445G>A	c.(3445-3447)GAC>AAC	p.D1149N	NCAN_uc002nma.2_5'UTR	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1149	C-type lectin.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CGGCCTGAACGACAGGATCGT	0.632													21	59					0	0	1	0	0		A	19351447	A	A	19351447	3	1	153	1	0	0	0	0	1	0	0	0	10223	1058	37	1	3487	1	NCAN	19	19351447	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	21593	19351447	39777536	1533	83465											
GATAD2A	54815	broad.mit.edu	37	chr19	19576260	19576260	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaaatggagagaggattgTtggcttcagatttaaacact	15	12	10	4	0	1	2	1	0	0	2	1	5	1	4	0	3	1	2	0	3	5	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:19576260T>C	uc010xqt.1	+	2	418	c.106T>C	c.(106-108)TTG>CTG	p.L36L	GATAD2A_uc010xqu.1_5'UTR|GATAD2A_uc010xqv.1_Silent_p.L55L|GATAD2A_uc010xqw.1_5'UTR	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	36					DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GAGAGGATTGTTGGCTTCAGA	0.532													13	67					0	0	1	0	0		C	19576260	C	C	19576260	2	2	153	1	0	0	0	0	0	0	0	1	6275	1722	60	3		3	GATAD2A	19	19576260	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	224813	19576260	39552723	1534	83466											
GATAD2A	54815	broad.mit.edu	37	chr19	19613299	19613299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcgccggcaagggcagcGccacctccaactggaagaag	11	3	14	13	3	0	2	0	1	0	1	1	3	1	3	4	3	3	2	4	3	4	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:19613299G>A	uc010xqt.1	+	11	2047	c.1735G>A	c.(1735-1737)GCC>ACC	p.A579T	GATAD2A_uc010xqu.1_Missense_Mutation_p.A208T|GATAD2A_uc010xqv.1_Missense_Mutation_p.A599T|GATAD2A_uc010xqw.1_Missense_Mutation_p.A382T	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	579					DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CAAGGGCAGCGCCACCTCCAA	0.637													24	64					0	0	1	0	0		A	19613299	A	A	19613299	3	1	153	1	0	0	0	0	1	0	0	0	6275	1087	38	1	1773	1	GATAD2A	19	19613299	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	37039	19613299	39515684	1535	83467											
ZNF714	148206	broad.mit.edu	37	chr19	21300337	21300337	+	Silent	SNP	T	C	C	0	1	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	ccctacaaatgtgaagaatgTgacaaagcttttaaccgatt	15	11	7	8	1	0	3	0	2	0	1	0	4	0	3	2	0	3	1	2	0	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:21300337T>C	uc002npo.3	+	6	1230	c.870T>C	c.(868-870)TGT>TGC	p.C290C	ZNF714_uc002npl.2_Silent_p.C135C|ZNF714_uc010ecp.1_Silent_p.C241C|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	290	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGAAGAATGTGACAAAGCTT	0.338													7	20					0	0	1	0	0		C	21300337	C	C	21300337	2	2	153	1	0	0	0	0	0	0	0	1	18143	1702	59	3		3	ZNF714	19	21300337	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1687038	21300337	37828646	1536	83468											
ZNF536	9745	broad.mit.edu	37	chr19	31040042	31040042	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcagaggacatggactcCtccaagggggagaacaacga	13	5	12	11	1	1	2	1	0	0	2	4	6	4	4	3	4	2	0	3	4	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:31040042C>A	uc002nsu.1	+	4	3654	c.3516C>A	c.(3514-3516)TCC>TCA	p.S1172S	ZNF536_uc010edd.1_Silent_p.S1172S	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					ACATGGACTCCTCCAAGGGGG	0.537													25	71					1.85244e-09	1.93941e-09	1	1	0		A	31040042	A	A	31040042	2	1	153	1	0	0	0	0	0	0	0	1	17999	668	24	5		5	ZNF536	19	31040042	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	9739705	31040042	28088941	1537	83469											
TSHZ3	57616	broad.mit.edu	37	chr19	31768425	31768425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccacagcagccttctcCgccaggctgttgctcatctt	5	11	10	15	1	3	0	1	0	2	0	4	0	3	0	4	2	3	4	4	2	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:31768425C>T	uc002nsy.3	-	2	2339	c.2274G>A	c.(2272-2274)GCG>GCA	p.A758A		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	758					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CAGCCTTCTCCGCCAGGCTGT	0.602													18	54					0	0	1	0	0		T	31768425	T	T	31768425	2	4	153	1	0	0	0	0	0	0	0	1	16651	639	23	1		1	TSHZ3	19	31768425	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	728383	31768425	27360558	1538	83470											
KIAA0355	9710	broad.mit.edu	37	chr19	34838949	34838949	+	Splice_Site	SNP	T	C	C	0	1	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	ccgagttcttcacagaagggTgagtgctgggtacttcaggg	8	10	15	8	1	3	2	2	1	1	1	3	3	3	2	1	3	2	3	1	3	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:34838949T>C	uc002nvd.3	+	11	3546	c.2687_splice	c.e11+2	p.G896_splice		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710											ovary(1)	1	Esophageal squamous(110;0.162)					CACAGAAGGGTGAGTGCTGGG	0.637													7	29					0	0	1	0	0		C	34838949	C	C	34838949	5	2	153	1	0	0	0	0	0	0	1	0	8186	1710	59	3	2727	3	KIAA0355	19	34838949	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3070524	34838949	24290034	1539	83471											
ZNF599	148103	broad.mit.edu	37	chr19	35250008	35250008	+	Silent	SNP	A	G	G	1	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	ctgaaggtctttccacattcAttgcattcaaagggtttctc	9	15	7	10	0	4	1	2	1	2	0	6	1	5	1	1	2	1	2	1	2	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:35250008A>G	uc010edn.1	-	4	2086	c.1698T>C	c.(1696-1698)AAT>AAC	p.N566N	ZNF599_uc010edm.1_Silent_p.N529N	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	566	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			TTCCACATTCATTGCATTCAA	0.403													75	198					0	0	1	0	0		G	35250008	G	G	35250008	2	3	153	1	0	0	0	0	0	0	0	1	18054	214	8	3		3	ZNF599	19	35250008	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	411059	35250008	23878975	1540	83472											
LSR	51599	broad.mit.edu	37	chr19	35753459	35753459	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttctgcagactggctcttCgtggttgtggtatgcctggc	3	15	13	10	1	2	1	0	0	2	1	3	1	2	1	1	4	2	4	1	4	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:35753459C>T	uc002nyl.2	+	5	1009	c.786C>T	c.(784-786)TTC>TTT	p.F262F	LSR_uc002nym.2_Silent_p.F243F|LSR_uc002nyn.2_Intron|LSR_uc002nyo.2_Silent_p.F243F|LSR_uc010xsr.1_Intron|LSR_uc002nyp.2_Silent_p.F225F	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	262	Helical; (Potential).				embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	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)			ACTGGCTCTTCGTGGTTGTGG	0.627													33	134					0	0	1	0	0		T	35753459	T	T	35753459	2	4	153	1	0	0	0	0	0	0	0	1	9082	883	31	1		1	LSR	19	35753459	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	503451	35753459	23375524	1541	83473											
MAG	4099	broad.mit.edu	37	chr19	35800979	35800979	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcatcctcacgctgcggggGcaggcccaggccccgccccg	5	3	14	19	4	1	0	1	0	0	0	2	0	2	0	6	4	2	3	6	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:35800979G>A	uc002nyy.1	+	8	1583	c.1434G>A	c.(1432-1434)GGG>GGA	p.G478G	MAG_uc002nyx.1_Silent_p.G478G|MAG_uc010eds.1_Silent_p.G453G|MAG_uc002nyz.1_Silent_p.G478G	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	478	Ig-like C2-type 4.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			CGCTGCGGGGGCAGGCCCAGG	0.687													12	24					0	0	1	0	0		A	35800979	A	A	35800979	2	1	153	1	0	0	0	0	0	0	0	1	9180	1190	42	2		2	MAG	19	35800979	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	47520	35800979	23328004	1542	83474											
ATP4A	495	broad.mit.edu	37	chr19	36043937	36043937	+	Splice_Site	SNP	A	G	G	1	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	gatggggcggggcagggctcAcccactcctggccgtagctg	5	6	17	13	2	1	0	1	0	0	0	2	1	2	0	3	6	1	4	3	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:36043937A>G	uc002oal.1	-	18	2780	c.2751_splice	c.e18+1	p.W917_splice	ATP4A_uc010eee.1_Splice_Site_p.W75_splice	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A						ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GGCAGGGCTCACCCACTCCTG	0.662													8	50					0	0	1	0	0		G	36043937	G	G	36043937	5	3	153	1	0	0	0	0	0	0	1	0	1146	173	6	3	374	3	ATP4A	19	36043937	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08	242958	36043937	23085046	1543	83475											
ATP4A	495	broad.mit.edu	37	chr19	36046581	36046581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctgggggggcttacttgCgattaacctggtctacgggc	5	11	16	9	2	2	0	0	0	2	0	2	1	2	0	1	6	4	1	1	6	3	4	rs145767701		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:36046581C>T	uc002oal.1	-	13	2032	c.2003G>A	c.(2002-2004)CGC>CAC	p.R668H	ATP4A_uc010eee.1_5'UTR	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	668	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GGCTTACTTGCGATTAACCTG	0.652													33	113					0	0	1	0	0		T	36046581	T	T	36046581	3	4	153	1	0	0	0	0	1	0	0	0	1146	768	27	1	1144	1	ATP4A	19	36046581	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2644	36046581	23082402	1544	83476											
ARHGAP33	115703	broad.mit.edu	37	chr19	36269464	36269464	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaggttctcctgccttccGgagcttcccccgccccccga	3	8	10	20	4	1	0	0	0	1	0	4	3	3	2	8	3	2	2	8	3	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:36269464G>A	uc002obr.1	+	5	454	c.369G>A	c.(367-369)CCG>CCA	p.P123P	ARHGAP33_uc002obs.1_Silent_p.P123P|ARHGAP33_uc002obt.1_5'UTR|ARHGAP33_uc010eek.1_Silent_p.P141P	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	123	PX; atypical.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CCTGCCTTCCGGAGCTTCCCC	0.612													18	86					0	0	1	0	0		A	36269464	A	A	36269464	2	1	153	1	0	0	0	0	0	0	0	1	882	1103	39	1		1	ARHGAP33	19	36269464	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	222883	36269464	22859519	1545	83477											
APLP1	333	broad.mit.edu	37	chr19	36365538	36365538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgccttggagggcttcctgGcagccctgcaggcagatccg	5	8	14	14	1	0	1	0	0	0	1	2	2	2	2	4	4	3	4	4	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:36365538G>A	uc002oce.2	+	9	1327	c.1189G>A	c.(1189-1191)GCA>ACA	p.A397T	APLP1_uc010xsz.1_Missense_Mutation_p.A358T|APLP1_uc002ocf.2_Missense_Mutation_p.A397T|APLP1_uc002ocg.2_Missense_Mutation_p.A300T|APLP1_uc010xta.1_Missense_Mutation_p.A391T	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	397	Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	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)			GGGCTTCCTGGCAGCCCTGCA	0.682													19	63					0	0	1	0	0		A	36365538	A	A	36365538	3	1	153	1	0	0	0	0	1	0	0	0	778	1203	42	2	1223	2	APLP1	19	36365538	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	96074	36365538	22763445	1546	83478											
WDR62	284403	broad.mit.edu	37	chr19	36557260	36557260	+	Silent	SNP	A	G	G	1	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	gtggcgtgtgtggccttctcAcccaatatgaagcacatcgt	8	11	11	11	2	1	1	1	1	1	0	3	1	1	1	2	2	1	1	2	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:36557260A>G	uc002odc.2	+	5	583	c.492A>G	c.(490-492)TCA>TCG	p.S164S	WDR62_uc002odd.2_Silent_p.S164S|WDR62_uc002odb.2_Silent_p.S164S	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	164	WD 2.				cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TGGCCTTCTCACCCAATATGA	0.572													6	28					0	0	1	0	0		G	36557260	G	G	36557260	2	3	153	1	0	0	0	0	0	0	0	1	17339	146	6	3		3	WDR62	19	36557260	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	191722	36557260	22571723	1547	83479											
DPF1	8193	broad.mit.edu	37	chr19	38706786	38706786	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggggagcatcacctgatcGcccacagtccgcacaggaga	10	5	13	13	2	1	2	1	1	0	1	3	4	2	3	3	3	1	2	3	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:38706786G>A	uc002ohl.2	-	8	868	c.841C>T	c.(841-843)CGA>TGA	p.R281*	DPF1_uc002ohm.2_Nonsense_Mutation_p.R325*|DPF1_uc002ohn.2_Nonsense_Mutation_p.R243*|DPF1_uc010xtu.1_Nonsense_Mutation_p.R299*|DPF1_uc010xtv.1_Nonsense_Mutation_p.R299*	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	281	PHD-type 1.				induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TCACCTGATCGCCCACAGTCC	0.642													29	72					0	0	1	0	0		A	38706786	A	A	38706786	4	1	153	1	0	0	0	0	0	1	0	0	4722	1095	38	1	317	1	DPF1	19	38706786	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2149526	38706786	20422197	1548	83480											
RYR1	6261	broad.mit.edu	37	chr19	38949797	38949797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgatgcaggacacgtggcaCgcccagtgacttccccaggg	8	6	13	14	2	0	2	0	2	0	0	1	3	1	3	3	3	1	2	3	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:38949797C>T	uc002oit.2	+	19	2309	c.2179C>T	c.(2179-2181)CGC>TGC	p.R727C	RYR1_uc002oiu.2_Missense_Mutation_p.R727C	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	727	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ACACGTGGCACGCCCAGTGAC	0.582													11	55					0	0	1	0	0		T	38949797	T	T	38949797	3	4	153	1	0	0	0	0	1	0	0	0	13793	536	19	1	2253	1	RYR1	19	38949797	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	243011	38949797	20179186	1549	83481											
RYR1	6261	broad.mit.edu	37	chr19	39003103	39003103	+	Missense_Mutation	SNP	A	G	G	1	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	ccagcacatcgcccagcaccAgttcggagatgacgtcatcc	10	6	9	16	3	1	2	1	1	0	1	4	3	2	2	4	1	2	3	4	1	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:39003103A>G	uc002oit.2	+	63	9582	c.9452A>G	c.(9451-9453)CAG>CGG	p.Q3151R	RYR1_uc002oiu.2_Missense_Mutation_p.Q3151R|RYR1_uc002oiv.1_Missense_Mutation_p.Q71R|RYR1_uc010xuf.1_Missense_Mutation_p.Q71R	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3151					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GCCCAGCACCAGTTCGGAGAT	0.647													30	61					0	0	1	0	0		G	39003103	G	G	39003103	3	3	153	1	0	0	0	0	1	0	0	0	13793	188	7	3	9702	3	RYR1	19	39003103	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	53306	39003103	20125880	1550	83482											
DYRK1B	9149	broad.mit.edu	37	chr19	40316485	40316485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccggagggctgaggcagccGggtgctggggggcaggcgct	4	5	22	10	3	0	1	0	1	0	0	1	2	1	2	2	8	2	5	2	8	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:40316485G>A	uc002omj.2	-	11	2040	c.1760C>T	c.(1759-1761)CCG>CTG	p.P587L	DYRK1B_uc002omi.2_Missense_Mutation_p.P559L|DYRK1B_uc002omk.2_Missense_Mutation_p.P547L	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	587					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	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)			TGAGGCAGCCGGGTGCTGGGG	0.701													5	7					0	0	1	0	0		A	40316485	A	A	40316485	3	1	153	1	0	0	0	0	1	0	0	0	4861	1116	39	1	133	1	DYRK1B	19	40316485	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1313382	40316485	18812498	1551	83483											
CNTD2	79935	broad.mit.edu	37	chr19	40730477	40730477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcaggcgatgtagacgcacgCggccagcgctcaggtaggaa	10	4	16	11	5	1	1	1	0	0	1	1	3	1	2	1	4	1	5	1	4	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:40730477C>T	uc010xvi.1	-	3	480	c.431G>A	c.(430-432)CGC>CAC	p.R144H	CNTD2_uc002ond.2_RNA	NM_024877	NP_079153	Q9H8S5	CNTD2_HUMAN	cyclin N-terminal domain containing 2 isoform 2	144					regulation of cyclin-dependent protein kinase activity		protein kinase binding				0						TAGACGCACGCGGCCAGCGCT	0.617													23	78					0	0	1	0	0		T	40730477	T	T	40730477	3	4	153	1	0	0	0	0	1	0	0	0	3639	768	27	1	504	1	CNTD2	19	40730477	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	413992	40730477	18398506	1552	83484											
SPTBN4	57731	broad.mit.edu	37	chr19	40996012	40996012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcggccgcatgcggatcCactcactggagaacgtggac	8	5	14	14	6	1	1	1	0	0	1	2	4	2	3	2	4	2	1	2	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:40996012C>T	uc002ony.2	+	4	438	c.352C>T	c.(352-354)CAC>TAC	p.H118Y	SPTBN4_uc002onx.2_Missense_Mutation_p.H118Y|SPTBN4_uc002onz.2_Missense_Mutation_p.H118Y	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	118	CH 1.|Actin-binding.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CATGCGGATCCACTCACTGGA	0.667													11	23					0	0	1	0	0		T	40996012	T	T	40996012	3	4	153	1	0	0	0	0	1	0	0	0	15146	594	21	4	362	4	SPTBN4	19	40996012	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	265535	40996012	18132971	1553	83485											
LTBP4	8425	broad.mit.edu	37	chr19	41132925	41132925	+	Missense_Mutation	SNP	G	T	T																															gctacgcccccccgcatataGccccccgcgaccaggtggct																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:41132925G>T	uc002ooh.1	+	32	4232	c.4232G>T	c.(4231-4233)AGC>ATC	p.S1411I	LTBP4_uc002oog.1_Missense_Mutation_p.S1374I|LTBP4_uc002ooi.1_Missense_Mutation_p.S1344I|LTBP4_uc002ooj.1_Missense_Mutation_p.S284I|LTBP4_uc002ook.1_Missense_Mutation_p.S545I|LTBP4_uc002ool.1_Missense_Mutation_p.S423I|LTBP4_uc010xvp.1_Missense_Mutation_p.S171I	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1411	Pro-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCCGCATATAGCCCCCCGCGA	0.622													3	15					1	1	1	1	0		T	41132925	T	T	41132925	3	4	153	1	0	0	0	0	1	0	0	0	9094	971	34	5	4646	5	LTBP4	19	41132925	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	136913	41132925	17996058	1554	83486	157	2									
LTBP4	8425	broad.mit.edu	37	chr19	41132932	41132932	+	Silent	SNP	G	A	A																															ccccccgcatatagccccccGcgaccaggtggctttggact																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:41132932G>A	uc002ooh.1	+	32	4239	c.4239G>A	c.(4237-4239)CCG>CCA	p.P1413P	LTBP4_uc002oog.1_Silent_p.P1376P|LTBP4_uc002ooi.1_Silent_p.P1346P|LTBP4_uc002ooj.1_Silent_p.P286P|LTBP4_uc002ook.1_Silent_p.P547P|LTBP4_uc002ool.1_Silent_p.P425P|LTBP4_uc010xvp.1_Silent_p.P173P	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1413	Pro-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ATAGCCCCCCGCGACCAGGTG	0.627													4	10					0	0	1	0	0		A	41132932	A	A	41132932	2	1	153	1	0	0	0	0	0	0	0	1	9094	1074	38	1		1	LTBP4	19	41132932	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7	41132932	17996051	1555	83487	157	2									
AXL	558	broad.mit.edu	37	chr19	41745098	41745098	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatagggctaaggcaagaGgtgaccctggagctgcaggg	11	5	17	8	0	0	2	0	1	0	1	0	4	0	3	1	5	2	4	1	5	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:41745098G>T	uc010ehj.2	+	9	1354	c.1164G>T	c.(1162-1164)GAG>GAT	p.E388D	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Missense_Mutation_p.E388D|AXL_uc010ehk.2_Missense_Mutation_p.E388D	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	388	Extracellular (Potential).|Fibronectin type-III 2.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						TAAGGCAAGAGGTGACCCTGG	0.587													16	65					2.23348e-06	2.3035e-06	1	1	0		T	41745098	T	T	41745098	3	4	153	1	0	0	0	0	1	0	0	0	1239	991	35	5	1198	5	AXL	19	41745098	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	612166	41745098	17383885	1556	83488											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41798252	41798252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccttggggggtcaggccCtctatcctcatgtcctggtg	5	11	13	12	0	3	0	2	0	1	0	5	0	5	0	4	5	1	0	4	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:41798252C>A	uc002oqb.3	+	8	1391	c.1102C>A	c.(1102-1104)CTC>ATC	p.L368I	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.L268I|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.L268I|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.L368I|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.L254I|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.L268I|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.L268I|HNRNPUL1_uc010eho.2_Missense_Mutation_p.L268I|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.L268I|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.L224I|HNRNPUL1_uc010ehl.1_Missense_Mutation_p.L268I	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	368	B30.2/SPRY.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						GGGTCAGGCCCTCTATCCTCA	0.502													55	192					9.52127e-25	1.03014e-24	1	1	0		A	41798252	A	A	41798252	3	1	153	1	0	0	0	0	1	0	0	0	7290	681	24	5	1132	5	HNRNPUL1	19	41798252	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	53154	41798252	17330731	1557	83489											
TGFB1	7040	broad.mit.edu	37	chr19	41838133	41838133	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggatccacttccagccgaggTccttgcggaagtcaatgtac	9	9	11	12	2	1	0	1	0	0	0	4	3	4	2	4	3	3	1	4	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:41838133T>C	uc002oqh.1	-	6	1781	c.914A>G	c.(913-915)GAC>GGC	p.D305G	CYP2F1_uc010xvw.1_Intron	NM_000660	NP_000651	P01137	TGFB1_HUMAN	transforming growth factor, beta 1 precursor	305					active induction of host immune response by virus|ATP biosynthetic process|cell cycle arrest|cell growth|cell-cell junction organization|chondrocyte differentiation|connective tissue replacement involved in inflammatory response wound healing|epidermal growth factor receptor signaling pathway|evasion of host defenses by virus|hemopoietic progenitor cell differentiation|induction of apoptosis|lymph node development|mitotic cell cycle G1/S transition checkpoint|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of cell-cell adhesion|negative regulation of DNA replication|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|negative regulation of macrophage cytokine production|negative regulation of mitotic cell cycle|negative regulation of protein phosphorylation|ossification involved in bone remodeling|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of collagen biosynthetic process|positive regulation of epithelial to mesenchymal transition|positive regulation of fibroblast migration|positive regulation of interleukin-17 production|positive regulation of isotype switching to IgA isotypes|positive regulation of MAP kinase activity|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of protein dephosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|protein export from nucleus|protein import into nucleus, translocation|receptor catabolic process|regulation of DNA binding|regulation of striated muscle tissue development|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|response to estradiol stimulus|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway|viral infectious cycle	extracellular space|Golgi lumen|nucleus|platelet alpha granule lumen|proteinaceous extracellular matrix	growth factor activity|type II transforming growth factor beta receptor binding				0					Hyaluronidase(DB00070)	CCAGCCGAGGTCCTTGCGGAA	0.622													10	30					0	0	1	0	0		C	41838133	C	C	41838133	3	2	153	1	0	0	0	0	1	0	0	0	15841	1667	58	3	266	3	TGFB1	19	41838133	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	39881	41838133	17290850	1558	83490											
B3GNT8	374907	broad.mit.edu	37	chr19	41932375	41932375	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcgaagtcagggatctcGgtggcggcggcggcccccca	6	4	18	13	5	2	0	1	0	1	0	3	3	2	1	3	7	0	0	3	7	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:41932375G>A	uc002oqs.2	-	3	763	c.309C>T	c.(307-309)ACC>ACT	p.T103T	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	103	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						CAGGGATCTCGGTGGCGGCGG	0.682													6	19					0	0	1	0	0		A	41932375	A	A	41932375	2	1	153	1	0	0	0	0	0	0	0	1	1264	1103	39	1		1	B3GNT8	19	41932375	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	94242	41932375	17196608	1559	83491											
CD79A	973	broad.mit.edu	37	chr19	42383610	42383610	+	Frame_Shift_Del	DEL	C	-	-																															actacctccttgcagagccgCcccccaggcccttcctggac																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:42383610delC	uc002orv.2	+	3	570	c.385delC	c.(385-387)CCCfs	p.P129fs	CD79A_uc002oru.2_Frame_Shift_Del_p.P91fs	NM_001783	NP_001774	P11912	CD79A_HUMAN	CD79A antigen isoform 1 precursor	129	Extracellular (Potential).				B cell differentiation|B cell proliferation|B cell receptor signaling pathway	B cell receptor complex|external side of plasma membrane|integral to membrane|membrane raft|multivesicular body	transmembrane receptor activity			ovary(2)|pancreas(1)	3						TGCAGAGCCGCCCCCCAGGCC	0.677			O|S		DLBCL								8	14	---	---	---	---						.	-	42383610	-	-	42383610	7	5	153	1	0	1	0	1	0	0	0	0	3039	739	26	0	395	0	CD79A	19	42383610	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	451235	42383610	16745373	1560	83492											
GRIK5	2901	broad.mit.edu	37	chr19	42563569	42563569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacaccttgtcatcacGgatctccttgagcagtggtg	7	11	13	10	1	3	1	2	1	1	0	4	3	3	3	2	4	1	1	2	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:42563569G>A	uc002osj.1	-	5	654	c.619C>T	c.(619-621)CGT>TGT	p.R207C	GRIK5_uc010eib.1_Missense_Mutation_p.R126C	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	207	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	TTGTCATCACGGATCTCCTTG	0.572													18	96					0	0	1	0	0		A	42563569	A	A	42563569	3	1	153	1	0	0	0	0	1	0	0	0	6793	1116	39	1	2383	1	GRIK5	19	42563569	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	179959	42563569	16565414	1561	83493											
POU2F2	5452	broad.mit.edu	37	chr19	42621421	42621421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagctagctggctgcccGtcaacatgagttgggcctgg	6	8	13	14	1	1	1	1	1	0	0	1	1	1	1	4	3	4	4	4	3	2	2	rs150784596		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:42621421G>A	uc002osp.2	-	5	351	c.284C>T	c.(283-285)ACG>ATG	p.T95M	POU2F2_uc002osn.2_Missense_Mutation_p.T95M|POU2F2_uc002oso.2_Translation_Start_Site|POU2F2_uc002osq.2_Missense_Mutation_p.T95M|POU2F2_uc002osr.1_Missense_Mutation_p.T95M	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	95					humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				CTGGCTGCCCGTCAACATGAG	0.617													34	104					0	0	1	0	0		A	42621421	A	A	42621421	3	1	153	1	0	0	0	0	1	0	0	0	12291	1145	40	1	1147	1	POU2F2	19	42621421	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	57852	42621421	16507562	1562	83494											
DEDD2	162989	broad.mit.edu	37	chr19	42713974	42713974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccgactccgccgctgcCgcttggttgggggggagcct	2	7	17	15	4	0	0	0	0	0	0	1	2	1	1	6	5	2	3	6	5	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:42713974C>T	uc002osu.1	-	4	535	c.467G>A	c.(466-468)CGG>CAG	p.R156Q	DEDD2_uc002osv.1_RNA|DEDD2_uc002osw.1_Missense_Mutation_p.R151Q|DEDD2_uc002osx.1_Missense_Mutation_p.G40S|DEDD2_uc002osy.1_Missense_Mutation_p.R156Q|DEDD2_uc010eid.2_RNA	NM_133328	NP_579874	Q8WXF8	DEDD2_HUMAN	death effector domain-containing  DNA binding	156	Bipartite nuclear localization signal (Potential).				activation of pro-apoptotic gene products|apoptotic nuclear change|cellular homeostasis|induction of apoptosis via death domain receptors|intracellular signal transduction|negative regulation of transcription, DNA-dependent|RNA processing|rRNA catabolic process|transcription, DNA-dependent	nucleolus	DNA binding|receptor signaling complex scaffold activity				0		Prostate(69;0.0704)				CCGCCGCTGCCGCTTGGTTGG	0.662													4	12					0	0	1	0	0		T	42713974	T	T	42713974	3	4	153	1	0	0	0	0	1	0	0	0	4388	652	23	1	521	1	DEDD2	19	42713974	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	92553	42713974	16415009	1563	83495											
MEGF8	1954	broad.mit.edu	37	chr19	42861648	42861648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgggcggttactccccGgaaaatggcttcaaccagca	9	8	12	12	2	1	0	1	0	0	0	2	1	2	1	3	5	3	3	3	5	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:42861648G>A	uc002otl.3	+	27	5357	c.4722G>A	c.(4720-4722)CCG>CCA	p.P1574P	MEGF8_uc002otm.3_Silent_p.P1182P	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1641	Extracellular (Potential).|Kelch 9.					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GTTACTCCCCGGAAAATGGCT	0.672													12	56					0	0	1	0	0		A	42861648	A	A	42861648	2	1	153	1	0	0	0	0	0	0	0	1	9481	1103	39	1		1	MEGF8	19	42861648	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	147674	42861648	16267335	1564	83496											
LYPD3	27076	broad.mit.edu	37	chr19	43967403	43967403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggcccacacagctgtagCactccacgccgttgggcggg	7	6	13	15	3	1	0	1	0	0	0	2	0	2	0	3	3	2	4	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:43967403C>T	uc002owl.1	-	4	527	c.419G>A	c.(418-420)TGC>TAC	p.C140Y	LYPD3_uc002owm.2_3'UTR	NM_014400	NP_055215	O95274	LYPD3_HUMAN	GPI-anchored metastasis-associated protein	140	UPAR/Ly6 2.					anchored to plasma membrane				pancreas(1)	1		Prostate(69;0.0153)				ACAGCTGTAGCACTCCACGCC	0.622													18	57					0	0	1	0	0		T	43967403	T	T	43967403	3	4	153	1	0	0	0	0	1	0	0	0	9129	710	25	2	629	2	LYPD3	19	43967403	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1105755	43967403	15161580	1565	83497											
KCNN4	3783	broad.mit.edu	37	chr19	44280754	44280754	+	Missense_Mutation	SNP	A	C	C	1	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	gtaagaaggtggaaatgctgAtcgtgcatttaaccaggaac	14	9	12	6	1	0	2	0	1	0	1	1	4	0	4	1	3	4	3	1	3	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:44280754A>C	uc002oxl.2	-	2	590	c.194T>G	c.(193-195)ATC>AGC	p.I65S	KCNN4_uc010eiz.2_5'Flank|KCNN4_uc010eja.1_RNA	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	65	Helical; Name=Segment S2; (Potential).				defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	GGAAATGCTGATCGTGCATTT	0.592													15	25					0	0	1	0	0		C	44280754	C	C	44280754	3	2	153	1	0	0	0	0	1	0	0	0	8097	333	12	5	1117	5	KCNN4	19	44280754	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	313351	44280754	14848229	1566	83498											
ZNF225	7768	broad.mit.edu	37	chr19	44635779	44635779	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaatagtcatcgcatggtcCacacaggagagaaacggtac	14	8	10	9	2	1	1	1	0	0	1	3	3	2	2	1	3	2	2	1	3	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:44635779C>A	uc002oyj.1	+	5	1255	c.1012C>A	c.(1012-1014)CAC>AAC	p.H338N	ZNF225_uc010eje.1_Missense_Mutation_p.H255N|ZNF225_uc010ejf.1_Missense_Mutation_p.H338N	NM_013362	NP_037494	Q9UK10	ZN225_HUMAN	zinc finger protein 225	338	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				TCGCATGGTCCACACAGGAGA	0.433													62	188					2.37032e-18	2.53584e-18	1	1	0		A	44635779	A	A	44635779	3	1	153	1	0	0	0	0	1	0	0	0	17804	594	21	5	1026	5	ZNF225	19	44635779	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	355025	44635779	14493204	1567	83499											
ZFP112	7771	broad.mit.edu	37	chr19	44832877	44832877	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggatgaccttgaagatatAaattatggctgaagctgtta	13	14	10	4	0	0	4	0	3	0	1	0	5	0	5	1	2	1	3	1	2	7	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:44832877A>G	uc010ejj.2	-	5	1564	c.1451T>C	c.(1450-1452)TTA>TCA	p.L484S	ZFP112_uc002ozc.3_Missense_Mutation_p.L478S|ZFP112_uc010xwy.1_Missense_Mutation_p.L501S|ZFP112_uc010xwz.1_Missense_Mutation_p.L483S	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	484	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						TTGAAGATATAAATTATGGCT	0.413													86	203					0	0	1	0	0		G	44832877	G	G	44832877	3	3	153	1	0	0	0	0	1	0	0	0	17663	372	13	3	1294	3	ZFP112	19	44832877	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	197098	44832877	14296106	1568	83500											
ZNF296	162979	broad.mit.edu	37	chr19	45574970	45574970	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcgaagcgggtgctgccaggCgtcatgccgtgcatgcggcg	5	7	17	12	6	1	0	1	0	0	0	2	1	1	0	2	3	6	2	2	3	1	0	rs145168144		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:45574970C>T	uc002pao.2	-	3	1374	c.1317G>A	c.(1315-1317)ACG>ACA	p.T439T		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	439					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGCTGCCAGGCGTCATGCCGT	0.677													18	75					0	0	1	0	0		T	45574970	T	T	45574970	2	4	153	1	0	0	0	0	0	0	0	1	17853	755	27	1		1	ZNF296	19	45574970	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	742093	45574970	13554013	1569	83501											
DMWD	1762	broad.mit.edu	37	chr19	46288989	46288989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctccagcaggggcacctCgtggatgcgcgggcacagcg	6	4	18	13	4	0	0	0	0	0	0	2	1	1	1	2	5	3	4	2	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:46288989C>T	uc002pdj.1	-	3	1811	c.1765G>A	c.(1765-1767)GAG>AAG	p.E589K	DMWD_uc002pdk.1_Missense_Mutation_p.E589K|DMWD_uc010eko.1_Missense_Mutation_p.E274K	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	589					meiosis						0		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)		AGGGGCACCTCGTGGATGCGC	0.682													6	36					0	0	1	0	0		T	46288989	T	T	46288989	3	4	153	1	0	0	0	0	1	0	0	0	4599	893	31	1	271	1	DMWD	19	46288989	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	714019	46288989	12839994	1570	83502											
PPP5C	5536	broad.mit.edu	37	chr19	46890636	46890636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccccagatcatgcacggagGcctgttcagtgaagacggtg	9	8	13	11	2	2	3	2	1	0	2	3	4	3	4	3	3	1	2	3	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:46890636G>A	uc002pem.2	+	9	1121	c.1061G>A	c.(1060-1062)GGC>GAC	p.G354D	PPP5C_uc010xya.1_Missense_Mutation_p.G221D|PPP5C_uc002pen.2_Missense_Mutation_p.G332D|PPP5C_uc010xyb.1_Missense_Mutation_p.G212D	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	354	Catalytic.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		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)		ATGCACGGAGGCCTGTTCAGT	0.607													12	28					0	0	1	0	0		A	46890636	A	A	46890636	3	1	153	1	0	0	0	0	1	0	0	0	12428	1203	42	2	1095	2	PPP5C	19	46890636	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	601647	46890636	12238347	1571	83503											
CCDC8	83987	broad.mit.edu	37	chr19	46914767	46914767	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagcctctgccctctggccaGcccgggcctgtgccctctga	3	8	11	19	1	3	1	0	1	3	0	3	1	3	1	6	2	4	0	6	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:46914767G>A	uc002pep.2	-	1	2153	c.1301C>T	c.(1300-1302)GCT>GTT	p.A434V		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	434						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		CCTCTGGCCAGCCCGGGCCTG	0.592													23	63					0	0	1	0	0		A	46914767	A	A	46914767	3	1	153	1	0	0	0	0	1	0	0	0	2856	971	34	2	319	2	CCDC8	19	46914767	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	24131	46914767	12214216	1572	83504											
SLC1A5	6510	broad.mit.edu	37	chr19	47280536	47280536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatgaacactgcggccacGcactggaagagcgcggcacc	11	3	13	14	4	0	2	0	1	0	1	0	3	0	3	2	3	3	3	2	3	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:47280536G>A	uc002pfs.2	-	6	1805	c.1185C>T	c.(1183-1185)TGC>TGT	p.C395C	SLC1A5_uc010xyh.1_Silent_p.C193C|SLC1A5_uc002pfq.2_Silent_p.C219C|SLC1A5_uc002pfr.2_Silent_p.C167C	NM_005628	NP_005619	Q15758	AAAT_HUMAN	solute carrier family 1 member 5 isoform 1	395	Helical; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane|melanosome|membrane fraction	neutral amino acid transmembrane transporter activity|protein binding|receptor activity|sodium:dicarboxylate symporter activity				0		all_epithelial(76;0.00314)|Ovarian(192;0.0798)|all_neural(266;0.107)		OV - Ovarian serous cystadenocarcinoma(262;0.000338)|all cancers(93;0.000882)|Epithelial(262;0.0211)|GBM - Glioblastoma multiforme(486;0.0341)	L-Asparagine(DB00174)|L-Glutamine(DB00130)	CTGCGGCCACGCACTGGAAGA	0.602													13	41					0	0	1	0	0		A	47280536	A	A	47280536	2	1	153	1	0	0	0	0	0	0	0	1	14460	1079	38	1		1	SLC1A5	19	47280536	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	365769	47280536	11848447	1573	83505											
NPAS1	4861	broad.mit.edu	37	chr19	47548656	47548656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtcctgaagcaggatcCggtgcggccatggggcctgg	6	6	19	10	2	0	1	0	1	0	0	2	2	2	2	4	8	2	1	4	8	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:47548656C>T	uc002pfw.2	+	12	1716	c.1520C>T	c.(1519-1521)CCG>CTG	p.P507L	NPAS1_uc002pfx.2_Missense_Mutation_p.P332L|NPAS1_uc002pfy.2_Missense_Mutation_p.P507L|NPAS1_uc010xyj.1_3'UTR	NM_002517	NP_002508	Q99742	NPAS1_HUMAN	neuronal PAS domain protein 1	507					central nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0		all_cancers(25;4.31e-08)|all_epithelial(76;2.96e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.102)		all cancers(93;6.02e-05)|OV - Ovarian serous cystadenocarcinoma(262;7.35e-05)|Epithelial(262;0.00389)|GBM - Glioblastoma multiforme(486;0.0252)		AAGCAGGATCCGGTGCGGCCA	0.746													7	28					0	0	1	0	0		T	47548656	T	T	47548656	3	4	153	1	0	0	0	0	1	0	0	0	10581	652	23	1	1562	1	NPAS1	19	47548656	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	268120	47548656	11580327	1574	83506											
NAPA	8775	broad.mit.edu	37	chr19	47991636	47991636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagccgggagatggagtcgTattccttcacctgagggcac	8	8	13	12	2	1	2	1	1	0	1	3	4	2	3	4	3	1	2	4	3	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:47991636T>C	uc002pha.1	-	11	1097	c.797A>G	c.(796-798)TAC>TGC	p.Y266C	uc002pgz.1_Intron|NAPA_uc002phb.1_Missense_Mutation_p.Y227C|NAPA_uc002phc.1_Missense_Mutation_p.Y153C|NAPA_uc002phd.1_Missense_Mutation_p.Y266C	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	266					cellular membrane fusion|intra-Golgi vesicle-mediated transport|post-Golgi vesicle-mediated transport	cytosol					0		all_cancers(25;1.55e-10)|all_epithelial(76;3.4e-08)|all_lung(116;1.73e-07)|Lung NSC(112;3.95e-07)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		OV - Ovarian serous cystadenocarcinoma(262;0.000466)|all cancers(93;0.000739)|Epithelial(262;0.0168)|GBM - Glioblastoma multiforme(486;0.049)		GATGGAGTCGTATTCCTTCAC	0.607													11	37					0	0	1	0	0		C	47991636	C	C	47991636	3	2	153	1	0	0	0	0	1	0	0	0	10179	1638	57	3	94	3	NAPA	19	47991636	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	442980	47991636	11137347	1575	83507											
TPRX1	284355	broad.mit.edu	37	chr19	48306062	48306062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtggaggctgcagatcGtgggttccgccgctggaagg	5	8	18	10	3	0	1	0	0	0	1	2	3	1	3	3	6	1	4	3	6	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:48306062G>A	uc002php.1	-	2	277	c.206C>T	c.(205-207)ACG>ATG	p.T69M		NM_198479	NP_940881	Q8N7U7	TPRX1_HUMAN	tetra-peptide repeat homeobox	69						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		GCTGCAGATCGTGGGTTCCGC	0.682													3	4					0	0	1	0	0		A	48306062	A	A	48306062	3	1	153	1	0	0	0	0	1	0	0	0	16448	1145	40	1	1033	1	TPRX1	19	48306062	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	314426	48306062	10822921	1576	83508											
PLA2G4C	8605	broad.mit.edu	37	chr19	48565257	48565257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcccttctcgattacctCgaaaggatctccggcactga	11	9	8	13	3	2	1	0	1	2	0	5	4	2	2	3	2	2	1	3	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:48565257C>T	uc002phx.2	-	14	1653	c.1255G>A	c.(1255-1257)GAG>AAG	p.E419K	PLA2G4C_uc002phw.2_Missense_Mutation_p.E354K|PLA2G4C_uc010elr.2_Missense_Mutation_p.E419K|PLA2G4C_uc010xzd.1_Missense_Mutation_p.E429K	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	419	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		TCGATTACCTCGAAAGGATCT	0.632													49	124					0	0	1	0	0		T	48565257	T	T	48565257	3	4	153	1	0	0	0	0	1	0	0	0	12022	893	31	1	390	1	PLA2G4C	19	48565257	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	259195	48565257	10563726	1577	83509											
DHDH	27294	broad.mit.edu	37	chr19	49448111	49448111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtcctgtgattcccctgtCggaaagtgagctcctggctg	7	11	12	11	1	0	2	0	2	0	0	4	3	3	3	4	2	1	2	4	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:49448111C>T	uc002ple.1	+	7	966	c.926C>T	c.(925-927)TCG>TTG	p.S309L		NM_014475	NP_055290	Q9UQ10	DHDH_HUMAN	dimeric dihydrodiol dehydrogenase	309					carbohydrate metabolic process		binding|D-xylose 1-dehydrogenase (NADP+) activity|electron carrier activity|NAD(P)+ transhydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000158)|all cancers(93;0.000258)|Epithelial(262;0.0173)|GBM - Glioblastoma multiforme(486;0.0179)		ATTCCCCTGTCGGAAAGTGAG	0.522													22	119					0	0	1	0	0		T	49448111	T	T	49448111	3	4	153	1	0	0	0	0	1	0	0	0	4485	893	31	1	952	1	DHDH	19	49448111	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	882854	49448111	9680872	1578	83510											
CGB2	114336	broad.mit.edu	37	chr19	49536447	49536447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagcccatcccgactcccggGgccctcagacaccccgatcc	8	4	8	21	3	1	1	1	0	0	1	4	3	4	1	7	2	1	0	7	2	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:49536447G>A	uc002plw.2	+	3	684	c.461G>A	c.(460-462)GGG>GAG	p.G154E	CGB_uc010yad.1_Intron|SNAR-G2_uc010yae.1_5'Flank|CGB2_uc010yaf.1_Missense_Mutation_p.G142E|CGB2_uc010yag.1_Missense_Mutation_p.G142E	NM_033378	NP_203696			chorionic gonadotropin, beta polypeptide 2												0		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)		CGACTCCCGGGGCCCTCAGAC	0.632													4	97					0	0	1	0	0		A	49536447	A	A	49536447	3	1	153	1	0	0	0	0	1	0	0	0	3301	1232	43	4	471	4	CGB2	19	49536447	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	88336	49536447	9592536	1579	83511											
TRPM4	54795	broad.mit.edu	37	chr19	49671859	49671859	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggtgacccggaggacggggTccagtttcccctggactaca	7	7	14	13	3	0	1	0	1	0	0	2	4	2	4	4	6	1	1	4	6	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:49671859T>C	uc002pmw.2	+	6	734	c.662T>C	c.(661-663)GTC>GCC	p.V221A	TRPM4_uc010emu.2_Missense_Mutation_p.V221A|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_Missense_Mutation_p.V47A|TRPM4_uc010emv.2_Missense_Mutation_p.V106A|TRPM4_uc010yal.1_5'UTR	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	221	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		GAGGACGGGGTCCAGTTTCCC	0.577													14	53					0	0	1	0	0		C	49671859	C	C	49671859	3	2	153	1	0	0	0	0	1	0	0	0	16614	1667	58	3	684	3	TRPM4	19	49671859	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	135412	49671859	9457124	1580	83512											
PIH1D1	55011	broad.mit.edu	37	chr19	49949668	49949668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccggcagaagcggcatggCcaccattaattgctgaggag	11	6	13	11	2	0	2	0	1	0	1	0	3	0	3	3	4	2	3	3	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:49949668C>T	uc002pns.2	-	9	1128	c.844G>A	c.(844-846)GCC>ACC	p.A282T	uc002pnr.1_5'Flank	NM_017916	NP_060386	Q9NWS0	PIHD1_HUMAN	NOP17	282					box C/D snoRNP assembly	pre-snoRNP complex					0		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)		AGCGGCATGGCCACCATTAAT	0.552													11	27					0	0	1	0	0		T	49949668	T	T	49949668	3	4	153	1	0	0	0	0	1	0	0	0	11925	739	26	2	32	2	PIH1D1	19	49949668	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	277809	49949668	9179315	1581	83513											
NOSIP	51070	broad.mit.edu	37	chr19	50059858	50059858	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcaggctgtcgcgggtcaCggcacacacgtagcgctcgc	6	6	14	15	6	2	0	2	0	0	0	4	0	2	0	0	3	1	5	0	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:50059858C>T	uc002pok.2	-	8	825	c.673G>A	c.(673-675)GTG>ATG	p.V225M	NOSIP_uc002pol.2_Missense_Mutation_p.V225M	NM_015953	NP_057037	Q9Y314	NOSIP_HUMAN	nitric oxide synthase interacting protein	225					negative regulation of nitric-oxide synthase activity|nitric oxide metabolic process	cytosol|nucleus	protein binding			skin(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00321)|GBM - Glioblastoma multiforme(134;0.0133)		TCGCGGGTCACGGCACACACG	0.697													13	20					0	0	1	0	0		T	50059858	T	T	50059858	3	4	153	1	0	0	0	0	1	0	0	0	10564	536	19	1	244	1	NOSIP	19	50059858	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	110190	50059858	9069125	1582	83514											
ZNF473	25888	broad.mit.edu	37	chr19	50548543	50548543	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtcagagtacatacctgtgGcatcagaaaactcacactgg	14	8	9	10	0	3	2	3	0	0	2	3	2	3	2	1	2	3	2	1	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:50548543G>A	uc002prn.2	+	5	1080	c.843G>A	c.(841-843)TGG>TGA	p.W281*	ZNF473_uc002prm.2_Nonsense_Mutation_p.W281*|ZNF473_uc010ybo.1_Nonsense_Mutation_p.W269*	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	281	C2H2-type 2; degenerate.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		CATACCTGTGGCATCAGAAAA	0.438													56	195					0	0	1	0	0		A	50548543	A	A	50548543	4	1	153	1	0	0	0	0	0	1	0	0	17956	1212	42	2	857	2	ZNF473	19	50548543	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	488685	50548543	8580440	1583	83515											
MYH14	79784	broad.mit.edu	37	chr19	50747580	50747580	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaacaccgatcaagccaccaTgcctgacaacacaggtactg	14	5	8	14	1	1	1	1	1	0	0	1	3	1	1	4	1	5	1	4	1	4	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:50747580T>C	uc002prr.1	+	10	1219	c.1172T>C	c.(1171-1173)ATG>ACG	p.M391T	MYH14_uc010enu.1_Missense_Mutation_p.M399T|MYH14_uc002prq.1_Missense_Mutation_p.M399T	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	391	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		CAAGCCACCATGCCTGACAAC	0.627													8	25					0	0	1	0	0		C	50747580	C	C	50747580	3	2	153	1	0	0	0	0	1	0	0	0	10051	1464	51	3	1234	3	MYH14	19	50747580	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	199037	50747580	8381403	1584	83516											
LRRC4B	94030	broad.mit.edu	37	chr19	51021091	51021091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggccacggacacggccgaggCggcgggcagctcgtcctcca	6	3	16	16	6	0	0	0	0	0	0	3	2	2	1	4	6	1	2	4	6	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:51021091C>T	uc002pss.2	-	3	2016	c.1879G>A	c.(1879-1881)GCC>ACC	p.A627T		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	627	Cytoplasmic (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		ACGGCCGAGGCGGCGGGCAGC	0.726													3	7					0	0	1	0	0		T	51021091	T	T	51021091	3	4	153	1	0	0	0	0	1	0	0	0	9025	768	27	1	266	1	LRRC4B	19	51021091	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	273511	51021091	8107892	1585	83517											
KLK12	43849	broad.mit.edu	37	chr19	51535273	51535273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcagccggaggtcgtgctCgtggctcgtcgaggctccca	5	7	15	14	5	0	0	0	0	0	0	5	2	1	1	2	4	3	4	2	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:51535273C>T	uc002pvg.1	-	3	436	c.316G>A	c.(316-318)GAG>AAG	p.E106K	KLK12_uc010ycp.1_RNA|KLK12_uc010ycq.1_Intron|KLK12_uc010ycr.1_Intron|KLK12_uc010ycs.1_Intron|KLK12_uc002pvh.1_Missense_Mutation_p.E106K|KLK12_uc002pvi.1_Missense_Mutation_p.E106K|KLK12_uc002pvj.1_Intron	NM_145894	NP_665901	Q9UKR0	KLK12_HUMAN	kallikrein 12 isoform 2	106	Peptidase S1.				proteolysis	extracellular region|soluble fraction	serine-type endopeptidase activity			ovary(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00399)		AGGTCGTGCTCGTGGCTCGTC	0.682													5	3					0	0	1	0	0		T	51535273	T	T	51535273	3	4	153	1	0	0	0	0	1	0	0	0	8416	893	31	1	504	1	KLK12	19	51535273	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	514182	51535273	7593710	1586	83518											
SIGLEC8	27181	broad.mit.edu	37	chr19	51961233	51961233	+	Missense_Mutation	SNP	A	G	G	1	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	agttttgtaattcaactgtgAtttgtaactccatttcatgc	10	18	6	7	0	2	1	2	1	0	0	3	1	3	1	1	0	3	3	1	0	3	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:51961233A>G	uc002pwt.2	-	1	476	c.409T>C	c.(409-411)TCA>CCA	p.S137P	SIGLEC8_uc010yda.1_Missense_Mutation_p.S137P|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Missense_Mutation_p.S137P	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	137	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TTCAACTGTGATTTGTAACTC	0.507													57	200					0	0	1	0	0		G	51961233	G	G	51961233	3	3	153	1	0	0	0	0	1	0	0	0	14339	333	12	3	1118	3	SIGLEC8	19	51961233	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	425960	51961233	7167750	1587	83519											
ZNF836	162962	broad.mit.edu	37	chr19	52659509	52659509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagtctgactgaagaccttgCcacattcattgcatttgtaa	12	13	7	9	0	2	3	1	2	1	1	2	3	2	3	2	0	2	2	2	0	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:52659509C>T	uc010ydi.1	-	5	1801	c.1427G>A	c.(1426-1428)GGC>GAC	p.G476D	ZNF836_uc010ydj.1_Missense_Mutation_p.G476D	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	476	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAAGACCTTGCCACATTCATT	0.423													57	185					0	0	1	0	0		T	52659509	T	T	52659509	3	4	153	1	0	0	0	0	1	0	0	0	18212	739	26	2	1385	2	ZNF836	19	52659509	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	698276	52659509	6469474	1588	83520											
PPP2R1A	5518	broad.mit.edu	37	chr19	52715983	52715983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacacccccatggtgcggcGggccgcagcctccaagctgg	6	5	14	16	3	0	1	0	1	0	0	1	1	1	1	5	4	3	2	5	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:52715983G>A	uc002pyp.2	+	5	707	c.548G>A	c.(547-549)CGG>CAG	p.R183Q	PPP2R1A_uc010ydk.1_Missense_Mutation_p.R128Q|PPP2R1A_uc010epm.1_Missense_Mutation_p.R223Q|PPP2R1A_uc002pyq.2_Missense_Mutation_p.R4Q	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	183	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 5.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity	p.R183W(16)|p.R183Q(7)|p.R183G(2)		endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		ATGGTGCGGCGGGCCGCAGCC	0.562			Mis		clear cell ovarian carcinoma								12	35					0	0	1	0	0		A	52715983	A	A	52715983	3	1	153	1	0	0	0	0	1	0	0	0	12404	1116	39	1	566	1	PPP2R1A	19	52715983	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	56474	52715983	6413000	1589	83521											
PPP2R1A	5518	broad.mit.edu	37	chr19	52724264	52724264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggcagccaccagcaacCtgaagaagctagtggaaaag	15	3	13	10	1	0	2	0	1	0	1	0	4	0	3	3	2	4	3	3	2	6	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:52724264C>A	uc002pyp.2	+	12	1555	c.1396C>A	c.(1396-1398)CTG>ATG	p.L466M	PPP2R1A_uc010ydk.1_Missense_Mutation_p.L411M|PPP2R1A_uc002pyq.2_Missense_Mutation_p.L287M	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	466	PP2A subunit C binding.|HEAT 12.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CACCAGCAACCTGAAGAAGCT	0.547			Mis		clear cell ovarian carcinoma								7	117					5.18039e-06	5.32909e-06	1	1	0		A	52724264	A	A	52724264	3	1	153	1	0	0	0	0	1	0	0	0	12404	680	24	5	1442	5	PPP2R1A	19	52724264	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8281	52724264	6404719	1590	83522											
ZNF83	55769	broad.mit.edu	37	chr19	53158850	53158850	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	cctgtagttctccaacatcaCggccctgtataaagccctct	9	11	6	15	1	3	0	1	0	2	0	4	0	3	0	4	1	2	3	4	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:53158850C>T	uc010epz.2	-	3	364	c.-484G>A	c.(-486--482)CCGTG>CCATG		ZNF83_uc010eqb.1_Translation_Start_Site	NM_001105554	NP_001099024	P51522	ZNF83_HUMAN	zinc finger protein 83 isoform b							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.00841)|GBM - Glioblastoma multiforme(134;0.0244)		TCCAACATCACGGCCCTGTAT	0.478													51	146					0	0	1	0	0		T	53158850	T	T	53158850	1	4	153	1	0	0	0	0	0	0	0	0	18208	551	19	1		1	ZNF83	19	53158850	Translation_Start_Site	SNP	C	TCGA-CG-5723-01A-11D-1600-08	434586	53158850	5970133	1591	83523											
ZNF813	126017	broad.mit.edu	37	chr19	53994075	53994075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataactatgggaataatttcCggaattcttcgttactcaca	13	14	6	8	2	2	0	1	0	1	0	4	2	3	2	1	2	2	1	1	2	6	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:53994075C>T	uc002qbu.2	+	4	717	c.589C>T	c.(589-591)CGG>TGG	p.R197W	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	197					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		GAATAATTTCCGGAATTCTTC	0.373													63	192					0	0	1	0	0		T	53994075	T	T	53994075	3	4	153	1	0	0	0	0	1	0	0	0	18200	643	23	1	599	1	ZNF813	19	53994075	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	835225	53994075	5134908	1592	83524											
NLRP12	91662	broad.mit.edu	37	chr19	54314260	54314260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacttgcctatccctgccGcgccttgcatgaccacggtg	5	10	11	15	3	0	1	0	1	0	0	1	2	1	2	5	2	3	1	5	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:54314260G>A	uc002qch.3	-	3	873	c.653C>T	c.(652-654)GCG>GTG	p.A218V	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.A218V|NLRP12_uc002qcj.3_Missense_Mutation_p.A218V|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.A218V	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	218	NACHT.|ATP (Potential).				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TATCCCTGCCGCGCCTTGCAT	0.592													25	88					0	0	1	0	0		A	54314260	A	A	54314260	3	1	153	1	0	0	0	0	1	0	0	0	10493	1087	38	1	2660	1	NLRP12	19	54314260	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	320185	54314260	4814723	1593	83525											
TMC4	147798	broad.mit.edu	37	chr19	54669187	54669187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgatgcgctggcgcagcCgcacgtggacgtccccgcag	7	5	15	14	6	0	2	0	1	0	1	1	3	1	3	3	2	2	4	3	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:54669187C>T	uc010erf.2	-	6	1061	c.929G>A	c.(928-930)CGG>CAG	p.R310Q	TMC4_uc002qdn.2_5'Flank|TMC4_uc002qdo.2_Missense_Mutation_p.R304Q	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	310	Extracellular (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CTGGCGCAGCCGCACGTGGAC	0.622													4	15					0	0	1	0	0		T	54669187	T	T	54669187	3	4	153	1	0	0	0	0	1	0	0	0	16012	652	23	1	1249	1	TMC4	19	54669187	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	354927	54669187	4459796	1594	83526											
LILRB3	11025	broad.mit.edu	37	chr19	54721312	54721312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtttcaccggggcatacGtcactgcctgggggtcttca	6	11	13	11	2	4	0	3	0	1	0	4	0	4	0	2	4	2	2	2	4	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:54721312G>A	uc002qef.1	-	12	1736	c.1625C>T	c.(1624-1626)ACG>ATG	p.T542M	LILRB3_uc002qee.1_Missense_Mutation_p.T543M|LILRB3_uc002qeh.1_Missense_Mutation_p.T542M|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Missense_Mutation_p.T542M|LILRA6_uc002qek.1_Missense_Mutation_p.T543M|LILRB3_uc010erh.1_Missense_Mutation_p.T559M|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Missense_Mutation_p.T542M|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.T543M|LILRB3_uc002qep.1_Missense_Mutation_p.T543M|LILRB3_uc002qeq.1_Missense_Mutation_p.T542M|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Missense_Mutation_p.T543M	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	542	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	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)		CGGGGCATACGTCACTGCCTG	0.572													15	59					0	0	1	0	0		A	54721312	A	A	54721312	3	1	153	1	0	0	0	0	1	0	0	0	8808	1145	40	1	278	1	LILRB3	19	54721312	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	52125	54721312	4407671	1595	83527											
LAIR1	3903	broad.mit.edu	37	chr19	54872811	54872811	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagatggagggtctgggcaGatcttctaggagggaagcag	10	7	18	6	1	3	2	0	0	3	2	3	6	3	5	0	5	1	2	0	5	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:54872811G>T	uc002qfk.1	-	3	386	c.76C>A	c.(76-78)CTG>ATG	p.L26M	LAIR1_uc002qfl.1_Missense_Mutation_p.L26M|LAIR1_uc002qfm.1_Missense_Mutation_p.L25M|LAIR1_uc002qfn.1_Missense_Mutation_p.L25M|LAIR1_uc010yex.1_Missense_Mutation_p.L19M|LAIR1_uc002qfo.2_Missense_Mutation_p.L8M	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	26	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		GGTCTGGGCAGATCTTCTAGG	0.453													35	142					2.87052e-16	3.0628e-16	1	1	0		T	54872811	T	T	54872811	3	4	153	1	0	0	0	0	1	0	0	0	8618	933	33	5	819	5	LAIR1	19	54872811	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	151499	54872811	4256172	1596	83528											
LILRA2	11027	broad.mit.edu	37	chr19	55086397	55086397	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcttctccgtgggcccCgtgagcccgagtcgcaggtg	4	8	14	15	4	2	1	0	1	2	0	4	2	2	1	5	2	1	1	5	2	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:55086397C>T	uc002qgg.3	+	4	641	c.552C>T	c.(550-552)CCC>CCT	p.P184P	LILRA2_uc010ern.2_Silent_p.P184P|LILRA2_uc002qgf.2_Silent_p.P184P|LILRA2_uc010yfe.1_Silent_p.P184P|LILRA2_uc010yff.1_Silent_p.P172P|LILRA2_uc010ero.2_Silent_p.P172P|LILRA2_uc010yfg.1_Silent_p.P184P	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	184	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		CCGTGGGCCCCGTGAGCCCGA	0.577													36	130					0	0	1	0	0		T	55086397	T	T	55086397	2	4	153	1	0	0	0	0	0	0	0	1	8801	639	23	1		1	LILRA2	19	55086397	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	213586	55086397	4042586	1597	83529											
KIR2DL3	3804	broad.mit.edu	37	chr19	55263199	55263199	+	Frame_Shift_Del	DEL	A	-	-																															ttcatcgctggtgctgcaacAaaaaaagtaagtctcacgaa																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:55263199delA	uc002qgv.2	+	6	832	c.814delA	c.(814-816)AAAfs	p.K272fs	KIR2DL3_uc002qgx.2_Frame_Shift_Del_p.K272fs|KIR2DL3_uc002qgy.2_Frame_Shift_Del_p.K174fs|KIR2DL3_uc010erw.1_Frame_Shift_Del_p.K272fs|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	272	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		GTGCTGCAACAAAAAAAGTAA	0.438													24	42	---	---	---	---						.	-	55263199	-	-	55263199	7	5	153	1	0	1	0	1	0	0	0	0	8333	131	5	0	836	0	KIR2DL3	19	55263199	Frame_Shift_Del	DEL	A	TCGA-CG-5723-01A-11D-1600-08	176802	55263199	3865784	1598	83530											
NLRP7	199713	broad.mit.edu	37	chr19	55451377	55451377	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttcttctcccagtccccGcagatgtcctggatcagcgc	5	12	8	16	2	4	1	1	0	3	1	7	2	6	2	4	1	1	1	4	1	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:55451377G>A	uc002qih.3	-	4	886	c.810C>T	c.(808-810)TGC>TGT	p.C270C	NLRP7_uc002qig.3_Silent_p.C270C|NLRP7_uc002qii.3_Silent_p.C270C|NLRP7_uc010esk.2_Silent_p.C270C|NLRP7_uc010esl.2_Silent_p.C298C	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	270	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CCCAGTCCCCGCAGATGTCCT	0.592													22	57					0	0	1	0	0		A	55451377	A	A	55451377	2	1	153	1	0	0	0	0	0	0	0	1	10501	1079	38	1		1	NLRP7	19	55451377	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	188178	55451377	3677606	1599	83531											
NLRP2	55655	broad.mit.edu	37	chr19	55481476	55481476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttcaagtatctgatcacGaccttctccctggcacacga	11	10	7	13	2	4	1	2	1	2	0	5	3	4	1	2	1	0	3	2	1	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:55481476G>A	uc002qij.2	+	2	179	c.93G>A	c.(91-93)ACG>ACA	p.T31T	NLRP2_uc010yfp.1_Silent_p.T31T|NLRP2_uc010esn.2_Silent_p.T31T|NLRP2_uc010eso.2_Silent_p.T31T|NLRP2_uc010esp.2_Silent_p.T31T	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	31	DAPIN.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		ATCTGATCACGACCTTCTCCC	0.547													15	83					0	0	1	0	0		A	55481476	A	A	55481476	2	1	153	1	0	0	0	0	0	0	0	1	10496	1045	37	1		1	NLRP2	19	55481476	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	30099	55481476	3647507	1600	83532											
BRSK1	84446	broad.mit.edu	37	chr19	55816195	55816195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaccccccagccccggcGgtggcgtcgggggagccgcc	4	2	15	20	5	0	0	0	0	0	0	1	1	0	1	8	5	2	0	8	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:55816195G>A	uc002qkg.2	+	14	1901	c.1624G>A	c.(1624-1626)GGT>AGT	p.G542S	BRSK1_uc002qkf.2_Missense_Mutation_p.G558S|BRSK1_uc002qkh.2_Missense_Mutation_p.G237S	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	542					establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		CAGCCCCGGCGGTGGCGTCGG	0.721													3	3					0	0	1	0	0		A	55816195	A	A	55816195	3	1	153	1	0	0	0	0	1	0	0	0	1526	1116	39	1	1678	1	BRSK1	19	55816195	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	334719	55816195	3312788	1601	83533											
ZNF628	89887	broad.mit.edu	37	chr19	55993938	55993938	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacaaatgtgccgagtgcGgcaagtccttcaagggctcc	9	8	11	13	2	1	0	1	0	0	0	3	1	3	0	4	2	3	2	4	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:55993938G>T	uc002qld.2	+	3	1931	c.1366G>T	c.(1366-1368)GGC>TGC	p.G456C	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	456	C2H2-type 10.					nucleus	DNA binding|zinc ion binding				0	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)		TGCCGAGTGCGGCAAGTCCTT	0.731													4	11					0.150653	0.151256	1	1	0		T	55993938	T	T	55993938	3	4	153	1	0	0	0	0	1	0	0	0	18077	1116	39	5	1368	5	ZNF628	19	55993938	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	177743	55993938	3135045	1602	83534											
ZNF470	388566	broad.mit.edu	37	chr19	57088950	57088950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagaatgcttctcttataCgtcatcggcgatattatcat	10	14	8	9	3	3	1	2	0	1	1	5	2	3	1	0	2	2	2	0	2	5	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:57088950C>T	uc002qnl.3	+	6	1829	c.1153C>T	c.(1153-1155)CGT>TGT	p.R385C	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	385	C2H2-type 6.|Nuclear localization signal (Potential).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		TTCTCTTATACGTCATCGGCG	0.418													28	100					0	0	1	0	0		T	57088950	T	T	57088950	3	4	153	1	0	0	0	0	1	0	0	0	17954	536	19	1	1167	1	ZNF470	19	57088950	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1095012	57088950	2040033	1603	83535											
ZIM2	23619	broad.mit.edu	37	chr19	57286617	57286617	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttcgtgtctcctaagggcTacttgcgtactaaaggttcg	7	13	11	10	4	1	0	0	0	1	0	4	0	1	0	1	2	3	4	1	2	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:57286617T>C	uc002qnr.2	-	11	1405	c.1023A>G	c.(1021-1023)GTA>GTG	p.V341V	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Silent_p.V137V|ZIM2_uc010ygr.1_Silent_p.V137V|ZIM2_uc002qnq.2_Silent_p.V341V|ZIM2_uc010etp.2_Silent_p.V341V|ZIM2_uc010ygs.1_Silent_p.V341V	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	341	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		TCCTAAGGGCTACTTGCGTAC	0.463													37	155					0	0	1	0	0		C	57286617	C	C	57286617	2	2	153	1	0	0	0	0	0	0	0	1	17709	1509	53	3		3	ZIM2	19	57286617	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	197667	57286617	1842366	1604	83536											
ZNF776	284309	broad.mit.edu	37	chr19	58266024	58266024	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcattaaacatcaacgagTtcacacgggagaaagacatc	16	7	7	11	2	3	2	3	0	0	2	4	4	3	2	1	1	2	1	1	1	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:58266024T>C	uc002qpx.2	+	3	1749	c.1526T>C	c.(1525-1527)GTT>GCT	p.V509A	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Missense_Mutation_p.V509A	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	509	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		CATCAACGAGTTCACACGGGA	0.423													29	94					0	0	1	0	0		C	58266024	C	C	58266024	3	2	153	1	0	0	0	0	1	0	0	0	18174	1725	60	3	1536	3	ZNF776	19	58266024	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	979407	58266024	862959	1605	83537											
ZNF814	730051	broad.mit.edu	37	chr19	58385049	58385049	+	Missense_Mutation	SNP	T	C	C	0	1	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	cataagatctttctctagggTgaactcgctgatgtagaatg	11	13	10	7	1	2	4	0	2	2	2	4	4	2	4	0	1	1	2	0	1	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:58385049T>C	uc002qqo.2	-	3	1981	c.1709A>G	c.(1708-1710)CAC>CGC	p.H570R	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	570	C2H2-type 13.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						TTCTCTAGGGTGAACTCGCTG	0.463													21	46					0	0	1	0	0		C	58385049	C	C	58385049	3	2	153	1	0	0	0	0	1	0	0	0	18201	1696	59	3	862	3	ZNF814	19	58385049	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	119025	58385049	743934	1606	83538											
ZSCAN1	284312	broad.mit.edu	37	chr19	58565039	58565039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcaggcatctcggtagtgCcgcgtgggccccgaggtggg	4	8	18	11	4	1	0	0	0	1	0	2	1	1	0	3	5	2	3	3	5	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:58565039C>T	uc002qrc.1	+	6	1094	c.847C>T	c.(847-849)CCG>TCG	p.P283S		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	283					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		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;0.0152)		CTCGGTAGTGCCGCGTGGGCC	0.622													5	63					0	0	1	0	0		T	58565039	T	T	58565039	3	4	153	1	0	0	0	0	1	0	0	0	18251	739	26	2	861	2	ZSCAN1	19	58565039	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	179990	58565039	563944	1607	83539											
ZSCAN18	65982	broad.mit.edu	37	chr19	58598704	58598704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcggtgttggcagggccGtcctcttcggtctttgcttc	1	15	13	12	3	2	0	0	0	2	0	6	0	3	0	2	4	2	4	2	4	0	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:58598704G>A	uc002qri.2	-	4	930	c.621C>T	c.(619-621)GAC>GAT	p.D207D	ZSCAN18_uc002qrj.3_Silent_p.D207D|ZSCAN18_uc010yhs.1_Silent_p.D72D|ZSCAN18_uc002qrh.2_Silent_p.D207D|ZSCAN18_uc010yht.1_Silent_p.D263D|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	207					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TGGCAGGGCCGTCCTCTTCGG	0.632													3	10					0	0	1	0	0		A	58598704	A	A	58598704	2	1	153	1	0	0	0	0	0	0	0	1	18255	1136	40	1		1	ZSCAN18	19	58598704	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	33665	58598704	530279	1608	83540											
ZNF8	7554	broad.mit.edu	37	chr19	58806136	58806136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtgccgaatgtgggaagtCtttctgccatagtacacacc	9	11	11	10	1	2	0	0	0	2	0	2	2	2	1	3	1	3	1	3	1	4	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:58806136C>T	uc002qry.1	+	4	1092	c.962C>T	c.(961-963)TCT>TTT	p.S321F	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	321	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		TGTGGGAAGTCTTTCTGCCAT	0.552													26	92					0	0	1	0	0		T	58806136	T	T	58806136	3	4	153	1	0	0	0	0	1	0	0	0	18192	913	32	4	976	4	ZNF8	19	58806136	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	207432	58806136	322847	1609	83541											
ZSCAN22	342945	broad.mit.edu	37	chr19	58849911	58849911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgaggaacagttctagtgCgtggccaaacctcacctccc	9	8	9	15	2	2	0	1	0	1	0	4	2	3	1	4	2	3	1	4	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:58849911C>T	uc002qsc.2	+	3	842	c.695C>T	c.(694-696)GCG>GTG	p.A232V	ZSCAN22_uc010yhz.1_Missense_Mutation_p.R227C	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	232					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		AGTTCTAGTGCGTGGCCAAAC	0.522													69	236					0	0	1	0	0		T	58849911	T	T	58849911	3	4	153	1	0	0	0	0	1	0	0	0	18259	768	27	1	701	1	ZSCAN22	19	58849911	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	43775	58849911	279072	1610	83542											
ZNF324B	388569	broad.mit.edu	37	chr19	58967706	58967706	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcaagggtttcgccaagggCgccgtgctgctcagccaccg	6	6	15	14	4	1	0	1	0	0	0	2	0	1	0	4	3	3	4	4	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr19:58967706C>T	uc002qsv.1	+	4	1502	c.1395C>T	c.(1393-1395)GGC>GGT	p.G465G	ZNF324B_uc002qsu.1_Silent_p.G455G|ZNF324B_uc010euq.1_Silent_p.G465G	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	465	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		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)		TCGCCAAGGGCGCCGTGCTGC	0.687													15	68					0	0	1	0	0		T	58967706	T	T	58967706	2	4	153	1	0	0	0	0	0	0	0	1	17870	755	27	1		1	ZNF324B	19	58967706	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	117795	58967706	161277	1611	83543											
SRXN1	140809	broad.mit.edu	37	chr20	629410	629410	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acacccttaggtctgagagaGtggactggacaagcttggcg	10	8	14	9	1	1	2	0	1	1	1	1	5	1	4	1	4	1	1	1	4	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:629410G>A	uc002wea.2	-	2	423	c.362C>T	c.(361-363)ACT>ATT	p.T121I	SRXN1_uc002web.2_RNA	NM_080725	NP_542763	Q9BYN0	SRXN1_HUMAN	sulfiredoxin 1 homolog	121					response to oxidative stress	cytosol	antioxidant activity|ATP binding|DNA binding|sulfiredoxin activity			ovary(1)	1						GTCTGAGAGAGTGGACTGGAC	0.597													31	100					0	0	1	0	0		A	629410	A	A	629410	3	1	153	1	0	0	0	0	1	0	0	0	15198	1029	36	4	55	4	SRXN1	20	629410	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08		629410	62396110	1612	83544											
SNPH	9751	broad.mit.edu	37	chr20	1277814	1277814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctccacctgtgagcgtgCgggatgcctacggcacctct	5	9	11	16	3	2	1	0	1	2	0	3	2	2	2	5	2	4	1	5	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:1277814C>T	uc002wes.2	+	4	312	c.76C>T	c.(76-78)CGG>TGG	p.R26W	SNPH_uc002wet.2_Missense_Mutation_p.R70W	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	26					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						TGTGAGCGTGCGGGATGCCTA	0.637													5	23					0	0	1	0	0		T	1277814	T	T	1277814	3	4	153	1	0	0	0	0	1	0	0	0	14875	759	27	1	82	1	SNPH	20	1277814	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	648404	1277814	61747706	1613	83545											
CDC25B	994	broad.mit.edu	37	chr20	3783801	3783801	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcaacatcgtggataagtTtgtgattgtagactgcagat	12	12	11	6	1	0	3	0	1	0	2	1	4	0	4	0	1	3	4	0	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:3783801T>C	uc002wjn.2	+	13	2082	c.1304T>C	c.(1303-1305)TTT>TCT	p.F435S	CDC25B_uc010zqk.1_Missense_Mutation_p.F371S|CDC25B_uc010zql.1_Missense_Mutation_p.F357S|CDC25B_uc010zqm.1_Missense_Mutation_p.F344S|CDC25B_uc002wjl.2_Missense_Mutation_p.F323S|CDC25B_uc002wjm.2_Missense_Mutation_p.F323S|CDC25B_uc002wjo.2_Missense_Mutation_p.F421S|CDC25B_uc002wjp.2_Missense_Mutation_p.F394S|CDC25B_uc002wjq.2_Missense_Mutation_p.F235S|CDC25B_uc010gbc.2_Missense_Mutation_p.F16S	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	435	Rhodanese.				cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						GTGGATAAGTTTGTGATTGTA	0.542													3	76					0	0	1	0	0		C	3783801	C	C	3783801	3	2	153	1	0	0	0	0	1	0	0	0	3066	1841	64	3	1354	3	CDC25B	20	3783801	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2505987	3783801	59241719	1614	83546											
MAVS	57506	broad.mit.edu	37	chr20	3844972	3844972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccttccagcccctggcccGttccacccccagggcaagcc	5	6	8	22	1	0	0	0	0	0	0	3	0	3	0	9	2	2	2	9	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:3844972G>A	uc002wjw.3	+	6	864	c.695G>A	c.(694-696)CGT>CAT	p.R232H	MAVS_uc002wjx.3_Missense_Mutation_p.R91H|MAVS_uc002wjy.3_5'UTR	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	232	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						CCCCTGGCCCGTTCCACCCCC	0.622													23	65					0	0	1	0	0		A	3844972	A	A	3844972	3	1	153	1	0	0	0	0	1	0	0	0	9356	1145	40	1	713	1	MAVS	20	3844972	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	61171	3844972	59180548	1615	83547											
SMOX	54498	broad.mit.edu	37	chr20	4164225	4164225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgcggctcctattcatacaCgcaggtgggctccagcgggg	6	7	14	14	4	1	0	1	0	0	0	3	0	3	0	3	5	2	3	3	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:4164225C>T	uc002wkm.1	+	6	1655	c.1454C>T	c.(1453-1455)ACG>ATG	p.T485M	SMOX_uc002wkk.1_Missense_Mutation_p.T432M|SMOX_uc002wkl.1_Missense_Mutation_p.T432M|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Missense_Mutation_p.T485M|SMOX_uc010zqo.1_Missense_Mutation_p.T409M|SMOX_uc002wko.1_Missense_Mutation_p.T485M	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	485					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	TATTCATACACGCAGGTGGGC	0.612													15	55					0	0	1	0	0		T	4164225	T	T	4164225	3	4	153	1	0	0	0	0	1	0	0	0	14828	536	19	1	1472	1	SMOX	20	4164225	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	319253	4164225	58861295	1616	83548											
ADRA1D	146	broad.mit.edu	37	chr20	4229311	4229311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccaggaagacgcccacGcccacgccctgcgcgctcac	7	3	11	20	5	1	1	1	0	0	1	1	2	1	2	4	1	2	2	4	1	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:4229311G>A	uc002wkr.2	-	1	349	c.294C>T	c.(292-294)GGC>GGT	p.G98G		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	98	Helical; Name=1; (By similarity).				cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	AGAcgcccacgcccacgccct	0.274													3	1					0	0	1	0	0		A	4229311	A	A	4229311	2	1	153	1	0	0	0	0	0	0	0	1	336	1074	38	1		1	ADRA1D	20	4229311	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	65086	4229311	58796209	1617	83549											
PRNP	5621	broad.mit.edu	37	chr20	4680491	4680491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgttaagatgatggagcgcGtggttgagcagatgtgtatc	10	11	15	5	3	0	4	0	2	0	2	1	5	0	5	0	2	2	4	0	2	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:4680491G>A	uc002wku.2	+	2	988	c.625G>A	c.(625-627)GTG>ATG	p.V209M	PRNP_uc002wkv.2_Missense_Mutation_p.V209M|PRNP_uc002wkw.2_Missense_Mutation_p.V209M|PRNP_uc002wkx.2_Missense_Mutation_p.V209M|PRNP_uc002wkt.1_Missense_Mutation_p.V179M|PRNP_uc002wky.2_Missense_Mutation_p.V209M|PRNP_uc010gbe.1_Missense_Mutation_p.V209M	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	209	Interaction with GRB2, ERI3 and SYN1 (By similarity).				axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding			central_nervous_system(1)	1					Tetracycline(DB00759)	GATGGAGCGCGTGGTTGAGCA	0.532													8	86					0	0	1	0	0		A	4680491	A	A	4680491	3	1	153	1	0	0	0	0	1	0	0	0	12566	1145	40	1	627	1	PRNP	20	4680491	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	451180	4680491	58345029	1618	83550											
SLC23A2	9962	broad.mit.edu	37	chr20	4850638	4850638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagactcgatgatgctggcGaccacggcactgagcatgcc	10	7	12	12	3	0	3	0	2	0	1	1	5	0	3	2	2	3	3	2	2	1	1	rs147469332	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:4850638G>A	uc002wlg.1	-	12	1539	c.1164C>T	c.(1162-1164)GTC>GTT	p.V388V	SLC23A2_uc010zqr.1_Silent_p.V273V|SLC23A2_uc002wlh.1_Silent_p.V388V|SLC23A2_uc002wli.2_Silent_p.V387V	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	388	Helical; (Potential).				L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						TGATGCTGGCGACCACGGCAC	0.592													23	68					0	0	1	0	0		A	4850638	A	A	4850638	2	1	153	1	0	0	0	0	0	0	0	1	14488	1045	37	1		1	SLC23A2	20	4850638	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	170147	4850638	58174882	1619	83551											
BMP2	650	broad.mit.edu	37	chr20	6759236	6759236	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggattcgtggtggaagtgGcccacttggaggagaaacaa	12	8	15	6	1	0	1	0	0	0	1	1	5	0	4	1	6	1	0	1	6	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:6759236G>T	uc002wmu.1	+	3	1476	c.691G>T	c.(691-693)GCC>TCC	p.A231S		NM_001200	NP_001191	P12643	BMP2_HUMAN	bone morphogenetic protein 2 preproprotein	231					BMP signaling pathway involved in heart induction|bone mineralization involved in bone maturation|cardiac cell differentiation|cardiac epithelial to mesenchymal transition|cartilage development|growth|negative regulation of cell cycle|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|pathway-restricted SMAD protein phosphorylation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cartilage development|positive regulation of endothelial cell proliferation|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of phosphatase activity|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	activin receptor activity, type II|BMP receptor binding|cytokine activity|growth factor activity|phosphatase activator activity|protein heterodimerization activity|SMAD binding|transforming growth factor beta receptor binding			ovary(1)|breast(1)	2					Simvastatin(DB00641)	GGTGGAAGTGGCCCACTTGGA	0.517													7	38					0.00307968	0.00312641	1	1	0		T	6759236	T	T	6759236	3	4	153	1	0	0	0	0	1	0	0	0	1460	1203	42	5	697	5	BMP2	20	6759236	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1908598	6759236	56266284	1620	83552											
PAK7	57144	broad.mit.edu	37	chr20	9520201	9520201	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgaggagttcctgggctgTtgctctctgagagggctccc	4	11	14	12	1	1	1	0	1	1	1	5	4	4	2	3	3	1	5	3	3	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:9520201T>C	uc002wnl.2	-	11	2613	c.2068A>G	c.(2068-2070)ACA>GCA	p.T690A	PAK7_uc002wnk.2_Missense_Mutation_p.T690A|PAK7_uc002wnj.2_Missense_Mutation_p.T690A|PAK7_uc010gby.1_Missense_Mutation_p.T603A	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	690	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			TCCTGGGCTGTTGCTCTCTGA	0.507													76	251					0	0	1	0	0		C	9520201	C	C	9520201	3	2	153	1	0	0	0	0	1	0	0	0	11424	1725	60	3	95	3	PAK7	20	9520201	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2760965	9520201	53505319	1621	83553											
PCSK2	5126	broad.mit.edu	37	chr20	17417441	17417441	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctgattgacatctacagCgccagctggggccccacaga	10	6	11	14	1	1	3	0	2	1	1	1	3	1	3	3	2	4	2	3	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:17417441C>T	uc002wpm.2	+	8	1118	c.798C>T	c.(796-798)AGC>AGT	p.S266S	PCSK2_uc002wpl.2_Silent_p.S247S|PCSK2_uc010zrm.1_Silent_p.S231S	NM_002594	NP_002585	P16519	NEC2_HUMAN	proprotein convertase subtilisin/kexin type 2	266	Catalytic.				enkephalin processing|insulin processing|islet amyloid polypeptide processing	extracellular space|membrane|soluble fraction|transport vesicle	serine-type endopeptidase activity			ovary(3)|central_nervous_system(2)|large_intestine(1)|pancreas(1)	7					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACATCTACAGCGCCAGCTGGG	0.612													19	37					0	0	1	0	0		T	17417441	T	T	17417441	2	4	153	1	0	0	0	0	0	0	0	1	11620	767	27	1		1	PCSK2	20	17417441	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	7897240	17417441	45608079	1622	83554											
RALGAPA2	57186	broad.mit.edu	37	chr20	20586055	20586055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatccaagctaccatgagcGtctaaaaccaaccaaccaac	16	5	6	14	1	1	1	0	1	1	0	2	2	2	2	5	1	7	1	5	1	7	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:20586055G>A	uc002wrz.2	-	15	1945	c.1802C>T	c.(1801-1803)ACG>ATG	p.T601M	RALGAPA2_uc010gcx.2_Missense_Mutation_p.T305M|RALGAPA2_uc010zsg.1_Missense_Mutation_p.T2M	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	601					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TACCATGAGCGTCTAAAACCA	0.393													10	38					0	0	1	0	0		A	20586055	A	A	20586055	3	1	153	1	0	0	0	0	1	0	0	0	13039	1159	40	1	3919	1	RALGAPA2	20	20586055	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3168614	20586055	42439465	1623	83555											
TPX2	22974	broad.mit.edu	37	chr20	30370135	30370135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaccaaacaccgtgcacggGctgtgacctgcaaaagtaca	15	5	9	12	2	0	1	0	1	0	0	0	1	0	1	3	1	5	4	3	1	5	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:30370135G>A	uc002wwp.1	+	11	1836	c.1138G>A	c.(1138-1140)GCT>ACT	p.A380T	TPX2_uc010gdv.1_Missense_Mutation_p.A416T	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	380					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			CCGTGCACGGGCTGTGACCTG	0.507													51	163					0	0	1	0	0		A	30370135	A	A	30370135	3	1	153	1	0	0	0	0	1	0	0	0	16458	1203	42	2	1172	2	TPX2	20	30370135	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	9784080	30370135	32655385	1624	83556											
MYL9	10398	broad.mit.edu	37	chr20	35176475	35176475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctggagggcatgatgagCgaggccccggggcccatcaa	9	5	15	12	2	1	2	1	2	0	0	1	4	1	3	4	5	2	1	4	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:35176475C>T	uc002xfl.1	+	3	319	c.225C>T	c.(223-225)AGC>AGT	p.S75S	uc002xfk.3_Intron|MYL9_uc002xfm.1_Intron	NM_006097	NP_006088	P24844	MYL9_HUMAN	myosin regulatory light chain 9 isoform a	75					axon guidance|muscle contraction|regulation of muscle contraction	cytosol|muscle myosin complex	calcium ion binding|structural constituent of muscle				0	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				GCATGATGAGCGAGGCCCCGG	0.612													6	29					0	0	1	0	0		T	35176475	T	T	35176475	2	4	153	1	0	0	0	0	0	0	0	1	10072	767	27	1		1	MYL9	20	35176475	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	4806340	35176475	27849045	1625	83557											
DHX35	60625	broad.mit.edu	37	chr20	37638972	37638972	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggttcctgagatgcagcgTagtaatttggcacctgtcat	9	12	11	9	2	1	1	1	1	0	1	2	2	2	1	2	2	2	5	2	2	2	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:37638972T>C	uc002xjh.2	+	13	1283	c.1272T>C	c.(1270-1272)CGT>CGC	p.R424R	DHX35_uc010zwa.1_Silent_p.R269R|DHX35_uc010zwb.1_Silent_p.R269R|DHX35_uc010zwc.1_Silent_p.R393R	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	424	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGATGCAGCGTAGTAATTTGG	0.488													27	99					0	0	1	0	0		C	37638972	C	C	37638972	2	2	153	1	0	0	0	0	0	0	0	1	4514	1625	57	3		3	DHX35	20	37638972	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2462497	37638972	25386548	1626	83558											
PTPRT	11122	broad.mit.edu	37	chr20	41306614	41306614	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctcaacatcggggtccagatGccacagcttatagttgggag	10	9	12	10	1	1	1	1	0	0	1	3	2	2	2	2	3	3	2	2	3	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:41306614G>A	uc002xkg.2	-	7	1229	c.1045C>T	c.(1045-1047)CAT>TAT	p.H349Y	PTPRT_uc010ggj.2_Missense_Mutation_p.H349Y	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	349	Extracellular (Potential).|Fibronectin type-III 1.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GGGTCCAGATGCCACAGCTTA	0.602													39	139					0	0	1	0	0		A	41306614	A	A	41306614	3	1	153	1	0	0	0	0	1	0	0	0	12837	1319	46	2	3441	2	PTPRT	20	41306614	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3667642	41306614	21718906	1627	83559											
MYBL2	4605	broad.mit.edu	37	chr20	42302493	42302493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacacagattcagatgtgcCggagcagagggatagcaagt	13	6	15	7	1	1	3	1	0	0	3	1	6	1	6	1	3	3	2	1	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:42302493C>T	uc002xlb.1	+	2	283	c.68C>T	c.(67-69)CCG>CTG	p.P23L	MYBL2_uc010zwj.1_Missense_Mutation_p.P23L|MYBL2_uc002xla.1_Missense_Mutation_p.P23L	NM_002466	NP_002457	P10244	MYBB_HUMAN	MYB-related protein B	23						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(3)|kidney(2)	5		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			TCAGATGTGCCGGAGCAGAGG	0.542													5	5					0	0	1	0	0		T	42302493	T	T	42302493	3	4	153	1	0	0	0	0	1	0	0	0	10028	652	23	1	74	1	MYBL2	20	42302493	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	995879	42302493	20723027	1628	83560											
JPH2	57158	broad.mit.edu	37	chr20	42788479	42788479	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggttgtccagccactcGccctcgtagcggaggccact	6	7	12	16	4	0	0	0	0	0	0	3	1	1	1	4	3	2	3	4	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:42788479G>A	uc002xli.1	-	2	1821	c.948C>T	c.(946-948)GGC>GGT	p.G316G		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	316	MORN 8.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CCAGCCACTCGCCCTCGTAGC	0.662													4	12					0	0	1	0	0		A	42788479	A	A	42788479	2	1	153	1	0	0	0	0	0	0	0	1	7977	1074	38	1		1	JPH2	20	42788479	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	485986	42788479	20237041	1629	83561											
HNF4A	3172	broad.mit.edu	37	chr20	43057109	43057109	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagatgtgtgagtggcccCgacccaggggacaggcaggt	9	5	17	10	1	0	2	0	1	0	1	0	5	0	3	3	5	0	1	3	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:43057109C>T	uc002xma.2	+	9	1353	c.1264C>T	c.(1264-1266)CGA>TGA	p.R422*	HNF4A_uc002xlu.2_Intron|HNF4A_uc002xlv.2_Nonsense_Mutation_p.R400*|HNF4A_uc002xlz.2_Intron|HNF4A_uc010ggq.2_Nonsense_Mutation_p.R415*	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	422					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TGAGTGGCCCCGACCCAGGGG	0.557													8	30					0	0	1	0	0		T	43057109	T	T	43057109	4	4	153	1	0	0	0	0	0	1	0	0	7269	644	23	1	1476	1	HNF4A	20	43057109	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	268630	43057109	19968411	1630	83562											
ZNF334	55713	broad.mit.edu	37	chr20	45140720	45140720	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtaaatccctgagcaacttaCctgaaattttttcattttca	12	16	4	9	0	2	2	2	2	0	0	3	2	3	2	2	0	3	2	2	0	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:45140720C>T	uc002xsc.2	-	2	205	c.21_splice	c.e2+1	p.Q7_splice	ZNF334_uc002xsd.2_Splice_Site|ZNF334_uc010ghl.2_Splice_Site	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				GAGCAACTTACCTGAAATTTT	0.378													26	95					0	0	1	0	0		T	45140720	T	T	45140720	5	4	153	1	0	0	0	0	0	0	1	0	17876	521	18	4	2036	4	ZNF334	20	45140720	Splice_Site	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2083611	45140720	17884800	1631	83563											
DDX27	55661	broad.mit.edu	37	chr20	47845427	47845427	+	Splice_Site	SNP	T	C	C	0	1	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	accacctgcctggctgtgggTgagtttctggccaagggctg	5	10	15	11	0	1	1	0	1	1	0	1	1	1	1	4	4	1	3	4	4	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:47845427T>C	uc002xuh.2	+	8	1034	c.973_splice	c.e8+2	p.G325_splice		NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27							nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGGCTGTGGGTGAGTTTCTGG	0.622													15	26					0	0	1	0	0		C	47845427	C	C	47845427	5	2	153	1	0	0	0	0	0	0	1	0	4357	1710	59	3	1005	3	DDX27	20	47845427	Splice_Site	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2704707	47845427	15180093	1632	83564											
FAM65C	140876	broad.mit.edu	37	chr20	49214161	49214161	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggacagctcatccagggcGaagtcggcattgaggaaggc	11	5	16	9	2	1	1	1	1	0	0	3	4	2	3	1	5	1	2	1	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:49214161G>A	uc002xvm.2	-	14	2052	c.1734C>T	c.(1732-1734)TTC>TTT	p.F578F	FAM65C_uc010zyt.1_Silent_p.F582F|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.F578F	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	578										ovary(2)	2						CATCCAGGGCGAAGTCGGCAT	0.647													6	22					0	0	1	0	0		A	49214161	A	A	49214161	2	1	153	1	0	0	0	0	0	0	0	1	5615	1049	37	1		1	FAM65C	20	49214161	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1368734	49214161	13811359	1633	83565											
MOCS3	27304	broad.mit.edu	37	chr20	49576679	49576679	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttatcagcagctcaagagTtagaccctttaacagttcgg	11	11	8	11	1	2	2	2	0	0	2	3	2	2	2	2	1	3	4	2	1	4	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:49576679T>C	uc002xvy.1	+	1	1317	c.1300T>C	c.(1300-1302)TTA>CTA	p.L434L	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	434	Rhodanese.				enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						AGCTCAAGAGTTAGACCCTTT	0.493													41	101					0	0	1	0	0		C	49576679	C	C	49576679	2	2	153	1	0	0	0	0	0	0	0	1	9710	1722	60	3		3	MOCS3	20	49576679	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	362518	49576679	13448841	1634	83566											
KCNG1	3755	broad.mit.edu	37	chr20	49626567	49626567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtcgtagtcatcgcacacGttgaggatgtcgtcgaagtt	9	11	12	9	6	1	1	1	1	0	0	5	3	1	2	0	1	0	4	0	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:49626567G>A	uc002xwa.3	-	2	604	c.309C>T	c.(307-309)AAC>AAT	p.N103N	KCNG1_uc002xwb.2_Silent_p.N103N	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	103	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						CATCGCACACGTTGAGGATGT	0.637													11	28					0	0	1	0	0		A	49626567	A	A	49626567	2	1	153	1	0	0	0	0	0	0	0	1	8043	1136	40	1		1	KCNG1	20	49626567	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	49888	49626567	13398953	1635	83567											
ZFP64	55734	broad.mit.edu	37	chr20	50768821	50768821	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtggtggccactgcgatgTtctggcctccatcgctcacc	4	11	11	15	2	2	0	1	0	1	0	4	1	3	0	4	3	1	2	4	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:50768821T>C	uc002xwl.2	-	6	2259	c.1910A>G	c.(1909-1911)AAC>AGC	p.N637S	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.N635S|ZFP64_uc002xwn.2_Missense_Mutation_p.N583S	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	637					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CACTGCGATGTTCTGGCCTCC	0.547													18	70					0	0	1	0	0		C	50768821	C	C	50768821	3	2	153	1	0	0	0	0	1	0	0	0	17677	1725	60	3	1330	3	ZFP64	20	50768821	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1142254	50768821	12256699	1636	83568											
ZFP64	55734	broad.mit.edu	37	chr20	50769100	50769100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcgatcagactgacctggCgcaggatctgcagccggctg	7	6	16	12	3	2	2	1	1	1	1	2	4	2	3	2	4	2	3	2	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:50769100C>T	uc002xwl.2	-	6	1980	c.1631G>A	c.(1630-1632)CGC>CAC	p.R544H	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.R542H|ZFP64_uc002xwn.2_Missense_Mutation_p.R490H	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	544					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ACTGACCTGGCGCAGGATCTG	0.682													11	42					0	0	1	0	0		T	50769100	T	T	50769100	3	4	153	1	0	0	0	0	1	0	0	0	17677	768	27	1	1609	1	ZFP64	20	50769100	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	279	50769100	12256420	1637	83569											
ZFP64	55734	broad.mit.edu	37	chr20	50769117	50769117	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcgcaggatctgcagccgGctgttccctgggagttcctc	4	10	14	13	2	1	0	0	0	1	0	4	2	3	2	3	4	2	5	3	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:50769117G>T	uc002xwl.2	-	6	1963	c.1614C>A	c.(1612-1614)AGC>AGA	p.S538R	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.S536R|ZFP64_uc002xwn.2_Missense_Mutation_p.S484R	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	538					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						TCTGCAGCCGGCTGTTCCCTG	0.682													5	35					0.00198382	0.00201596	1	1	0		T	50769117	T	T	50769117	3	4	153	1	0	0	0	0	1	0	0	0	17677	1194	42	5	1626	5	ZFP64	20	50769117	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	17	50769117	12256403	1638	83570											
CSTF1	1477	broad.mit.edu	37	chr20	54978560	54978560	+	Missense_Mutation	SNP	A	G	G	1	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	acgccaggtgcaccggacacAggctgtgtttaaccacaccg	10	6	11	14	3	0	0	0	0	0	0	0	1	0	1	4	3	2	3	4	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:54978560A>G	uc002xxl.1	+	6	1273	c.1073A>G	c.(1072-1074)CAG>CGG	p.Q358R	CSTF1_uc002xxm.1_Missense_Mutation_p.Q358R|CSTF1_uc002xxn.1_Missense_Mutation_p.Q358R|CSTF1_uc002xxo.1_Missense_Mutation_p.Q301R	NM_001033521	NP_001028693	Q05048	CSTF1_HUMAN	cleavage stimulation factor subunit 1	358					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding			central_nervous_system(1)	1			Colorectal(105;0.202)			CACCGGACACAGGCTGTGTTT	0.562													13	50					0	0	1	0	0		G	54978560	G	G	54978560	3	3	153	1	0	0	0	0	1	0	0	0	3986	188	7	3	1091	3	CSTF1	20	54978560	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	4209443	54978560	8046960	1639	83571											
NPEPL1	79716	broad.mit.edu	37	chr20	57290340	57290340	+	Frame_Shift_Del	DEL	G	-	-																															tgtgaggtggatgtcgaggaGggggacctggggagggactc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:57290340delG	uc010zzs.1	+	12	1625	c.1530delG	c.(1528-1530)GAGfs	p.E510fs	NPEPL1_uc010zzr.1_Frame_Shift_Del_p.E462fs|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Frame_Shift_Del_p.E482fs|NPEPL1_uc002xzp.2_3'UTR	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	510					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			ATGTCGAGGAGGGGGACCTGG	0.617													6	11	---	---	---	---						.	-	57290340	-	-	57290340	7	5	153	1	0	1	0	1	0	0	0	0	10593	991	35	0	1422	0	NPEPL1	20	57290340	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	2311780	57290340	5735180	1640	83572											
CDH4	1002	broad.mit.edu	37	chr20	60348097	60348097	+	Silent	SNP	T	C	C	0	1	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	gtcgtggctctggacccctcTccgcctccgaaggacaccct	5	8	10	18	3	2	0	0	0	2	0	5	3	3	2	6	3	0	1	6	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:60348097T>C	uc002ybn.1	+	4	449	c.435T>C	c.(433-435)TCT>TCC	p.S145S	CDH4_uc002ybp.1_Silent_p.S71S	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	145					adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			TGGACCCCTCTCCGCCTCCGA	0.597													5	20					0	0	1	0	0		C	60348097	C	C	60348097	2	2	153	1	0	0	0	0	0	0	0	1	3115	1538	54	3		3	CDH4	20	60348097	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3057757	60348097	2677423	1641	83573											
CDH4	1002	broad.mit.edu	37	chr20	60498692	60498692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatccgcctggaggagggcGtgccccccggcaccgtgctg	4	6	16	15	4	0	1	0	1	0	0	1	3	1	3	6	4	2	2	6	4	0	0	rs148441133	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:60498692G>A	uc002ybn.1	+	10	1572	c.1558G>A	c.(1558-1560)GTG>ATG	p.V520M	CDH4_uc002ybp.1_Missense_Mutation_p.V446M	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	520	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GGAGGAGGGCGTGCCCCCCGG	0.627													9	37					0	0	1	0	0		A	60498692	A	A	60498692	3	1	153	1	0	0	0	0	1	0	0	0	3115	1145	40	1	1596	1	CDH4	20	60498692	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	150595	60498692	2526828	1642	83574											
GTPBP5	26164	broad.mit.edu	37	chr20	60770906	60770906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgtctgtggaggaaacGgaggcgctggggcaagctgc	7	8	18	8	2	1	0	0	0	1	0	1	3	1	3	0	6	4	4	0	6	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:60770906G>A	uc002yce.3	+	3	291	c.253G>A	c.(253-255)GGA>AGA	p.G85R	GTPBP5_uc011aab.1_5'UTR|GTPBP5_uc011aac.1_5'UTR|GTPBP5_uc011aad.1_5'UTR|GTPBP5_uc011aae.1_5'UTR|GTPBP5_uc011aaf.1_Missense_Mutation_p.G85R|GTPBP5_uc011aag.1_Missense_Mutation_p.G85R	NM_015666	NP_056481	Q9H4K7	GTPB5_HUMAN	GTP binding protein 5	85	Localized in the mitocondria.|Not localized in the mitocondria.				ribosome biogenesis	mitochondrion	GTP binding|GTPase activity|magnesium ion binding				0	Breast(26;3.52e-09)		BRCA - Breast invasive adenocarcinoma(19;2.5e-08)			TGGAGGAAACGGAGGCGCTGG	0.547													8	39					0	0	1	0	0		A	60770906	A	A	60770906	3	1	153	1	0	0	0	0	1	0	0	0	6899	1117	39	1	259	1	GTPBP5	20	60770906	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	272214	60770906	2254614	1643	83575											
DIDO1	11083	broad.mit.edu	37	chr20	61510982	61510982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctcctgtcctcggacGcccggccctgggcgtcgggc	1	8	13	19	5	1	0	0	0	1	0	6	1	3	1	5	4	0	0	5	4	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:61510982G>A	uc002ydr.1	-	16	6590	c.6326C>T	c.(6325-6327)GCG>GTG	p.A2109V	DIDO1_uc002yds.1_Missense_Mutation_p.A2109V	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	2109	Arg-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GTCCTCGGACGCCCGGCCCTG	0.428													29	89					0	0	1	0	0		A	61510982	A	A	61510982	3	1	153	1	0	0	0	0	1	0	0	0	4528	1087	38	1	400	1	DIDO1	20	61510982	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	740076	61510982	1514538	1644	83576											
DIDO1	11083	broad.mit.edu	37	chr20	61512957	61512957	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggagttccttctcacgtCggcacacatcctgttgggca	7	10	10	14	3	1	0	1	0	1	0	5	1	3	1	2	3	0	4	2	3	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:61512957C>A	uc002ydr.1	-	16	4615	c.4351G>T	c.(4351-4353)GAC>TAC	p.D1451Y	DIDO1_uc002yds.1_Missense_Mutation_p.D1451Y	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1451					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTTCTCACGTCGGCACACATC	0.597													36	103					1.36161e-19	1.45903e-19	1	1	0		A	61512957	A	A	61512957	3	1	153	1	0	0	0	0	1	0	0	0	4528	884	31	5	2375	5	DIDO1	20	61512957	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1975	61512957	1512563	1645	83577											
NKAIN4	128414	broad.mit.edu	37	chr20	61881322	61881322	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccggtactggatggtgcCgaagagtcccaggatgacga	10	6	15	10	3	0	2	0	1	0	1	1	6	1	4	3	4	3	1	3	4	2	1	rs147137550	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:61881322C>A	uc002yek.2	-	2	247	c.157G>T	c.(157-159)GGC>TGC	p.G53C	NKAIN4_uc010gkd.1_5'UTR	NM_152864	NP_690603	Q8IVV8	NKAI4_HUMAN	Na+/K+ transporting ATPase interacting 4	53	Helical; (Potential).					integral to membrane|plasma membrane					0	all_cancers(38;2.72e-09)					TGGATGGTGCCGAAGAGTCCC	0.622													8	16					0.0477658	0.0481254	1	1	0		A	61881322	A	A	61881322	3	1	153	1	0	0	0	0	1	0	0	0	10457	652	23	5	493	5	NKAIN4	20	61881322	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	368365	61881322	1144198	1646	83578											
ARFGAP1	55738	broad.mit.edu	37	chr20	61907543	61907543	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagacaccgcgggcttggggTtcacctcaggtcagtgtcct	6	9	14	12	2	3	1	3	0	0	1	4	2	4	1	3	4	0	2	3	4	0	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:61907543T>G	uc002yem.2	+	3	273	c.161T>G	c.(160-162)GTT>GGT	p.V54G	ARFGAP1_uc011aas.1_Intron|ARFGAP1_uc011aat.1_5'UTR|ARFGAP1_uc002yel.2_Missense_Mutation_p.V54G|ARFGAP1_uc002yen.2_Missense_Mutation_p.V54G	NM_018209	NP_060679	Q8N6T3	ARFG1_HUMAN	ADP-ribosylation factor GTPase activating	54	Arf-GAP.				COPI coating of Golgi vesicle|protein transport|regulation of ARF GTPase activity|retrograde vesicle-mediated transport, Golgi to ER	cytosol|Golgi-associated vesicle membrane	ARF GTPase activator activity|zinc ion binding			pancreas(1)	1	all_cancers(38;1.59e-09)					GGGCTTGGGGTTCACCTCAGG	0.617													12	37					0	0	1	0	0		G	61907543	G	G	61907543	3	3	153	1	0	0	0	0	1	0	0	0	849	1725	60	5	167	5	ARFGAP1	20	61907543	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	26221	61907543	1117977	1647	83579											
PRIC285	85441	broad.mit.edu	37	chr20	62194495	62194495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggctcggtaccaggaagcCgtgctgcaggctggtgccga	7	6	17	11	3	0	0	0	0	0	0	1	2	0	1	3	5	5	5	3	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:62194495C>T	uc002yfm.2	-	9	6572	c.5680G>A	c.(5680-5682)GGC>AGC	p.G1894S	PRIC285_uc002yfl.1_Missense_Mutation_p.G1325S	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1894					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			ACCAGGAAGCCGTGCTGCAGG	0.692													3	6					0	0	1	0	0		T	62194495	T	T	62194495	3	4	153	1	0	0	0	0	1	0	0	0	12507	652	23	1	2317	1	PRIC285	20	62194495	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	286952	62194495	831025	1648	83580											
RTEL1	51750	broad.mit.edu	37	chr20	62321137	62321137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagtggtaccggcagcaggCgtccagggctgtgaaccagg	8	5	18	10	2	0	1	0	1	0	0	1	2	1	2	3	6	3	4	3	6	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:62321137C>T	uc002yfu.1	+	24	2403	c.2060C>T	c.(2059-2061)GCG>GTG	p.A687V	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Missense_Mutation_p.A687V|RTEL1_uc011abd.1_Missense_Mutation_p.A711V|RTEL1_uc011abe.1_Missense_Mutation_p.A464V|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_5'UTR	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	687					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			CGGCAGCAGGCGTCCAGGGCT	0.692													5	11					0	0	1	0	0		T	62321137	T	T	62321137	3	4	153	1	0	0	0	0	1	0	0	0	13745	768	27	1	2150	1	RTEL1	20	62321137	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	126642	62321137	704383	1649	83581											
ZNF512B	57473	broad.mit.edu	37	chr20	62591325	62591325	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcatcctggaggccagtcGtcccggcgcgggggcagctt	4	7	16	14	4	0	0	0	0	0	0	3	1	2	1	3	5	2	3	3	5	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr20:62591325G>A	uc002yhl.1	-	17	2649	c.2595C>T	c.(2593-2595)GAC>GAT	p.D865D		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	865					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GAGGCCAGTCGTCCCGGCGCG	0.657													15	43					0	0	1	0	0		A	62591325	A	A	62591325	2	1	153	1	0	0	0	0	0	0	0	1	17982	1136	40	1		1	ZNF512B	20	62591325	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	270188	62591325	434195	1650	83582											
APP	351	broad.mit.edu	37	chr21	27425591	27425591	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgaagatgagtttcgcaAacatccatcctctcctggtg	10	11	9	11	1	1	3	0	2	1	1	5	3	3	3	3	1	1	2	3	1	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:27425591A>C	uc002ylz.2	-	4	629	c.429T>G	c.(427-429)GTT>GTG	p.V143V	APP_uc010glk.2_Silent_p.V138V|APP_uc002yma.2_Silent_p.V143V|APP_uc011ach.1_Silent_p.V87V|APP_uc002ymb.2_Silent_p.V143V|APP_uc010glj.2_Silent_p.V87V|APP_uc011aci.1_Silent_p.V108V|APP_uc011acj.1_Silent_p.V143V	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	143	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				GAGTTTCGCAAACATCCATCC	0.453													42	203					0	0	1	0	0		C	27425591	C	C	27425591	2	2	153	1	0	0	0	0	0	0	0	1	815	1	1	5		5	APP	21	27425591	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08		27425591	20704304	1651	83583											
ADAMTS5	11096	broad.mit.edu	37	chr21	28305340	28305340	+	Silent	SNP	T	C	C	0	1	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	tggccccaggatccccaagaTccccagttgccatggcttga	8	8	10	15	0	0	2	0	1	0	1	2	3	2	3	7	3	1	2	7	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:28305340T>C	uc002ymg.2	-	5	2442	c.1713A>G	c.(1711-1713)GGA>GGG	p.G571G		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	571	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						ATCCCCAAGATCCCCAGTTGC	0.463													5	33					0	0	1	0	0		C	28305340	C	C	28305340	2	2	153	1	0	0	0	0	0	0	0	1	269	1422	50	3		3	ADAMTS5	21	28305340	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	879749	28305340	19824555	1652	83584											
RNF160	26046	broad.mit.edu	37	chr21	30324485	30324485	+	Missense_Mutation	SNP	T	C	C	0	1	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	attttaaataagaataccttTcttttctcttataatgtggt	12	20	4	5	0	2	1	0	0	2	1	3	1	2	1	1	1	1	0	1	1	7	9			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:30324485T>C	uc002ymr.2	-	18	3492	c.3479A>G	c.(3478-3480)GAA>GGA	p.E1160G		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1114							ligase activity|zinc ion binding				0						AGAATACCTTTCTTTTCTCTT	0.323													23	80					0	0	1	0	0		C	30324485	C	C	30324485	3	2	153	1	0	0	0	0	1	0	0	0	13480	1783	62	3	2011	3	RNF160	21	30324485	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2019145	30324485	17805410	1653	83585											
KRTAP19-5	337972	broad.mit.edu	37	chr21	31874344	31874344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atccacagccatagccatagCccaggtcatcgaagcctccg	11	6	8	16	2	1	0	1	0	0	0	4	1	3	0	6	1	4	0	6	1	3	2	rs150866063		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:31874344C>T	uc011ada.1	-	1	65	c.65G>A	c.(64-66)GGC>GAC	p.G22D		NM_181611	NP_853642	Q3LI72	KR195_HUMAN	keratin associated protein 19-5	22						intermediate filament	protein binding				0						ATAGCCATAGCCCAGGTCATC	0.582													6	39					0	0	1	0	0		T	31874344	T	T	31874344	3	4	153	1	0	0	0	0	1	0	0	0	8548	739	26	2	156	2	KRTAP19-5	21	31874344	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1549859	31874344	16255551	1654	83586											
TIAM1	7074	broad.mit.edu	37	chr21	32513434	32513434	+	Splice_Site	SNP	A	G	G	1	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	ctgagaagatggggaccctcAcctcttttttctcaccagtc	8	12	8	13	0	3	2	2	1	2	2	5	4	3	3	3	2	0	0	3	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:32513434A>G	uc002yow.1	-	23	4246	c.3774_splice	c.e23+1	p.E1258_splice	TIAM1_uc011adk.1_Splice_Site_p.E1258_splice|TIAM1_uc011adl.1_Splice_Site_p.E1198_splice	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						GGGGACCCTCACCTCTTTTTT	0.393													18	66					0	0	1	0	0		G	32513434	G	G	32513434	5	3	153	1	0	0	0	0	0	0	1	0	15915	173	6	3	1027	3	TIAM1	21	32513434	Splice_Site	SNP	A	TCGA-CG-5723-01A-11D-1600-08	639090	32513434	15616461	1655	83587											
TIAM1	7074	broad.mit.edu	37	chr21	32582396	32582396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagggtgtcccgtgcagtgtCgcctggccggacgaccgtca	5	7	15	14	5	1	0	1	0	0	0	3	2	2	1	4	3	1	1	4	3	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:32582396C>T	uc002yow.1	-	12	2825	c.2353G>A	c.(2353-2355)GAC>AAC	p.D785N	TIAM1_uc011adk.1_Missense_Mutation_p.D785N|TIAM1_uc011adl.1_Missense_Mutation_p.D760N	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	785	RBD.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CGTGCAGTGTCGCCTGGCCGG	0.547													11	38					0	0	1	0	0		T	32582396	T	T	32582396	3	4	153	1	0	0	0	0	1	0	0	0	15915	884	31	1	2494	1	TIAM1	21	32582396	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	68962	32582396	15547499	1656	83588											
SFRS15	57466	broad.mit.edu	37	chr21	33044413	33044413	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattccaccaggcctaacaaAggggccatgcggtgggaagg	11	5	14	11	1	0	0	0	0	0	0	1	1	1	1	4	6	2	0	4	6	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:33044413A>C	uc002ypd.2	-	20	3169	c.2743T>G	c.(2743-2745)TTT>GTT	p.F915V	SFRS15_uc002ype.2_Missense_Mutation_p.F893V|SFRS15_uc010glu.2_Missense_Mutation_p.F900V	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	915						nucleus	nucleotide binding|RNA binding				0						GGCCTAACAAAGGGGCCATGC	0.577													7	50					0	0	1	0	0		C	33044413	C	C	33044413	3	2	153	1	0	0	0	0	1	0	0	0	14196	72	3	5	704	5	SFRS15	21	33044413	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	462017	33044413	15085482	1657	83589											
HUNK	30811	broad.mit.edu	37	chr21	33340661	33340661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggcttaatgagaattacaCgggcaaagtgccctgtaatg	12	10	11	8	1	0	1	0	1	0	1	0	2	0	1	1	2	2	3	1	2	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:33340661C>T	uc002yph.2	+	6	1334	c.974C>T	c.(973-975)ACG>ATG	p.T325M		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	325					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						GAGAATTACACGGGCAAAGTG	0.547													31	104					0	0	1	0	0		T	33340661	T	T	33340661	3	4	153	1	0	0	0	0	1	0	0	0	7474	536	19	1	996	1	HUNK	21	33340661	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	296248	33340661	14789234	1658	83590											
CRYZL1	9946	broad.mit.edu	37	chr21	34971554	34971554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagatacatcaatcactcggGctgtaaaggacaggaaatca	16	8	9	8	1	3	1	3	0	0	1	4	3	3	3	0	3	1	2	0	3	6	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:34971554G>A	uc011adw.1	-	9	758	c.578C>T	c.(577-579)GCC>GTC	p.A193V	DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Missense_Mutation_p.A217V|CRYZL1_uc002yss.1_RNA|CRYZL1_uc002yst.1_RNA|CRYZL1_uc002ysq.2_5'Flank	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	193					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						AATCACTCGGGCTGTAAAGGA	0.388													22	86					0	0	1	0	0		A	34971554	A	A	34971554	3	1	153	1	0	0	0	0	1	0	0	0	3926	1217	42	2	491	2	CRYZL1	21	34971554	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1630893	34971554	13158341	1659	83591											
ITSN1	6453	broad.mit.edu	37	chr21	35169896	35169896	+	Silent	SNP	A	C	C	1	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	gctaagccagctgtccaggcAccctggtccactgcaggtat	8	8	11	14	0	0	0	0	0	0	0	2	0	2	0	4	3	3	5	4	3	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:35169896A>C	uc002yta.1	+	18	2434	c.2166A>C	c.(2164-2166)GCA>GCC	p.A722A	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Silent_p.A722A|ITSN1_uc010gmg.2_Silent_p.A685A|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Silent_p.A722A|ITSN1_uc010gmi.2_Silent_p.A685A|ITSN1_uc010gmj.2_Silent_p.A606A|ITSN1_uc002ysy.2_Silent_p.A722A|ITSN1_uc002ysx.2_Silent_p.A685A|ITSN1_uc002ytb.1_Silent_p.A722A|ITSN1_uc002ytc.1_Silent_p.A722A|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Silent_p.A685A|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Silent_p.A722A|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Silent_p.A656A	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	722					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CTGTCCAGGCACCCTGGTCCA	0.463													3	60					0	0	1	0	0		C	35169896	C	C	35169896	2	2	153	1	0	0	0	0	0	0	0	1	7942	146	6	5		5	ITSN1	21	35169896	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	198342	35169896	12959999	1660	83592											
RUNX1	861	broad.mit.edu	37	chr21	36252918	36252918	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctggttcttcatggctgcGgtagcatttctcagctcagc	6	13	10	12	1	4	0	3	0	2	0	5	0	4	0	1	3	4	5	1	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:36252918G>A	uc002yuh.2	-	2	1941	c.363C>T	c.(361-363)ACC>ACT	p.T121T	RUNX1_uc002yui.2_Silent_p.T121T|RUNX1_uc010gmu.2_Silent_p.T148T|RUNX1_uc010gmv.2_Silent_p.T148T|RUNX1_uc002yuj.3_Silent_p.T16T|RUNX1_uc002yuk.3_Silent_p.T148T|RUNX1_uc002yum.1_Silent_p.T16T|RUNX1_uc010gmw.1_Silent_p.T148T|RUNX1_uc002yuo.1_Silent_p.T121T|RUNX1_uc002yur.1_Silent_p.T16T	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform	121	Runt.				myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding	p.L121fs*2(1)|p.A149fs*2(1)		haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						TCATGGCTGCGGTAGCATTTC	0.483			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				19	41					0	0	1	0	0		A	36252918	A	A	36252918	2	1	153	1	0	0	0	0	0	0	0	1	13771	1103	39	1		1	RUNX1	21	36252918	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1083022	36252918	11876977	1661	83593											
CHAF1B	8208	broad.mit.edu	37	chr21	37788576	37788576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtttgttaatgttgcagagaCgcctggagacgctcagggca	9	10	14	8	2	1	2	1	0	0	2	1	4	1	2	1	2	1	6	1	2	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:37788576C>T	uc002yvj.2	+	14	1730	c.1592C>T	c.(1591-1593)ACG>ATG	p.T531M		NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B	531					cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						GTTGCAGAGACGCCTGGAGAC	0.488													7	33					0	0	1	0	0		T	37788576	T	T	37788576	3	4	153	1	0	0	0	0	1	0	0	0	3315	536	19	1	1642	1	CHAF1B	21	37788576	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1535658	37788576	10341319	1662	83594											
KCNJ15	3772	broad.mit.edu	37	chr21	39671314	39671314	+	Missense_Mutation	SNP	A	G	G	1	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	cgtgagaattgacaaagtggAtggcatatacctactctacc	13	10	9	9	1	1	2	0	2	1	1	1	4	1	3	2	2	3	1	2	2	6	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:39671314A>G	uc002ywv.2	+	4	433	c.131A>G	c.(130-132)GAT>GGT	p.D44G	KCNJ15_uc002yww.2_Missense_Mutation_p.D44G|KCNJ15_uc002ywx.2_Missense_Mutation_p.D44G	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	44	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						GACAAAGTGGATGGCATATAC	0.537													35	112					0	0	1	0	0		G	39671314	G	G	39671314	3	3	153	1	0	0	0	0	1	0	0	0	8065	333	12	3	133	3	KCNJ15	21	39671314	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1882738	39671314	8458581	1663	83595											
ETS2	2114	broad.mit.edu	37	chr21	40194777	40194777	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcacgcccgaggaactgcaCgccatcctgggcgtccagcc	7	6	11	17	4	1	0	1	0	0	0	3	2	3	1	5	2	3	1	5	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:40194777C>T	uc002yxg.2	+	10	1570	c.1374C>T	c.(1372-1374)CAC>CAT	p.H458H	ETS2_uc002yxf.2_Silent_p.H598H	NM_005239	NP_005230	P15036	ETS2_HUMAN	v-ets erythroblastosis virus E26 oncogene	458					positive regulation of transcription, DNA-dependent|skeletal system development	nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)|pancreas(1)	4		Prostate(19;6.33e-08)|all_epithelial(19;0.123)				AGGAACTGCACGCCATCCTGG	0.647													7	26					0	0	1	0	0		T	40194777	T	T	40194777	2	4	153	1	0	0	0	0	0	0	0	1	5284	535	19	1		1	ETS2	21	40194777	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	523463	40194777	7935118	1664	83596											
DSCAM	1826	broad.mit.edu	37	chr21	41416171	41416171	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagcggtttctcgctgtgggCccagccttggcattcctcct	3	13	11	14	2	1	0	0	0	1	0	4	0	3	0	4	3	2	3	4	3	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:41416171C>T	uc002yyq.1	-	31	5669	c.5217G>A	c.(5215-5217)GGG>GGA	p.G1739G	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1739	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TCGCTGTGGGCCCAGCCTTGG	0.592													8	36					0	0	1	0	0		T	41416171	T	T	41416171	2	4	153	1	0	0	0	0	0	0	0	1	4774	726	26	2		2	DSCAM	21	41416171	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1221394	41416171	6713724	1665	83597											
BACE2	25825	broad.mit.edu	37	chr21	42647470	42647470	+	Silent	SNP	G	A	A	0	0	1	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	ttaatcgtcctgctgctgctGccgttccggtgtcagcgtcg	3	13	12	13	5	1	0	1	0	0	0	5	0	3	0	3	1	5	4	3	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:42647470G>A	uc002yyw.2	+	9	1939	c.1476G>A	c.(1474-1476)CTG>CTA	p.L492L	BACE2_uc002yyx.2_Silent_p.L442L|BACE2_uc002yyy.2_3'UTR|BACE2_uc010goo.2_RNA	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	492	Helical; (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				TGCTGCTGCTGCCGTTCCGGT	0.567													19	39					0	0	1	0	0		A	42647470	A	A	42647470	2	1	153	1	0	0	0	0	0	0	0	1	1283	1306	46	2		2	BACE2	21	42647470	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1231299	42647470	5482425	1666	83598											
TMPRSS2	7113	broad.mit.edu	37	chr21	42866364	42866364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcgtcaggaccctcggggCgtactggggcacgggggacg	5	5	19	12	5	1	0	1	0	0	0	2	2	1	2	1	7	2	2	1	7	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:42866364C>T	uc002yzj.2	-	3	291	c.157G>A	c.(157-159)GCC>ACC	p.A53T	TMPRSS2_uc010gor.2_Missense_Mutation_p.A90T|TMPRSS2_uc010gos.1_Missense_Mutation_p.A53T	NM_005656	NP_005647	O15393	TMPS2_HUMAN	transmembrane protease, serine 2 isoform 2	53	Cytoplasmic (Potential).				proteolysis	cytoplasm|extracellular region|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity		TMPRSS2/ERG(2499)|TMPRSS2/ETV1(24)	prostate(2523)|central_nervous_system(1)	2524		Prostate(19;4.48e-07)|all_epithelial(19;0.031)				ACCCTCGGGGCGTACTGGGGC	0.612			T	ERG|ETV1|ETV4|ETV5	prostate 								20	54					0	0	1	0	0		T	42866364	T	T	42866364	3	4	153	1	0	0	0	0	1	0	0	0	16272	768	27	1	1369	1	TMPRSS2	21	42866364	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	218894	42866364	5263531	1667	83599											
RRP1B	23076	broad.mit.edu	37	chr21	45107917	45107917	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccctcccacaggcccCgcagagggggcgaacagcca	10	1	14	16	2	0	1	0	0	0	1	1	3	1	1	5	4	2	1	5	4	2	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:45107917C>T	uc002zdk.2	+	13	1776	c.1662C>T	c.(1660-1662)CCC>CCT	p.P554P	RRP1B_uc002zdl.2_Silent_p.P87P	NM_015056	NP_055871	Q14684	RRP1B_HUMAN	ribosomal RNA processing 1 homolog B	554					rRNA processing	cytosol|nucleolus|preribosome, small subunit precursor	protein binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.178)		CCACAGGCCCCGCAGAGGGGG	0.662													5	14					0	0	1	0	0		T	45107917	T	T	45107917	2	4	153	1	0	0	0	0	0	0	0	1	13713	639	23	1		1	RRP1B	21	45107917	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2241553	45107917	3021978	1668	83600											
PWP2	5822	broad.mit.edu	37	chr21	45540348	45540348	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggtgacctcatccatggaCgggaccgtgcgagcctttga	7	9	14	11	3	1	2	1	2	0	0	2	5	2	4	4	3	2	0	4	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:45540348C>T	uc002zeb.2	+	11	1398	c.1308C>T	c.(1306-1308)GAC>GAT	p.D436D		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	436	WD 9.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		CATCCATGGACGGGACCGTGC	0.597													28	138					0	0	1	0	0		T	45540348	T	T	45540348	2	4	153	1	0	0	0	0	0	0	0	1	12869	535	19	1		1	PWP2	21	45540348	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	432431	45540348	2589547	1669	83601											
AIRE	326	broad.mit.edu	37	chr21	45711065	45711065	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccttccacctggcctgcCtgtcccctccgctccgggag	2	8	12	19	2	0	0	0	0	0	0	4	1	4	1	9	3	1	1	9	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:45711065C>A	uc002zei.2	+	8	1094	c.967C>A	c.(967-969)CTG>ATG	p.L323M	AIRE_uc010gpq.2_RNA|AIRE_uc002zej.2_Missense_Mutation_p.L126M|AIRE_uc010gpr.2_Missense_Mutation_p.L126M	NM_000383	NP_000374	O43918	AIRE_HUMAN	autoimmune regulator isoform 1	323	PHD-type 1.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|histone binding|transcription regulatory region DNA binding|translation regulator activity|zinc ion binding			skin(1)	1				Colorectal(79;0.0806)		CCTGGCCTGCCTGTCCCCTCC	0.682									Autoimmune_PolyEndocrinopathy_Candidiasis_Ectodermal_Dystrophy				11	24					0.00136819	0.00139318	1	1	0		A	45711065	A	A	45711065	3	1	153	1	0	0	0	0	1	0	0	0	437	680	24	5	1285	5	AIRE	21	45711065	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	170717	45711065	2418830	1670	83602											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047185	46047185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgagcccccctgctgcGccaccagctgctgcgccccg	3	6	12	20	3	0	1	0	1	0	0	0	1	0	1	7	0	6	4	7	0	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:46047185G>A	uc002zfp.3	+	1	146	c.97G>A	c.(97-99)GCC>ACC	p.A33T	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	33	2.|25 X 5 AA repeats of C-C-X(3).					keratin filament					0						CCCCTGCTGCGCCACCAGCTG	0.697													17	35					0	0	1	0	0		A	46047185	A	A	46047185	3	1	153	1	0	0	0	0	1	0	0	0	8532	1087	38	1	99	1	KRTAP10-9	21	46047185	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	336120	46047185	2082710	1671	83603											
KRTAP10-10	353333	broad.mit.edu	37	chr21	46057386	46057386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgcctgcactgactcttggCgggtagtcgactgcccagag	6	8	14	13	3	1	2	0	1	1	1	2	3	1	2	2	2	2	2	2	2	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:46057386C>T	uc002zfq.2	+	1	114	c.52C>T	c.(52-54)CGG>TGG	p.R18W	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181688	NP_859016	P60014	KR10A_HUMAN	keratin associated protein 10-10	18						keratin filament					0						TGACTCTTGGCGGGTAGTCGA	0.617													9	59					0	0	1	0	0		T	46057386	T	T	46057386	3	4	153	1	0	0	0	0	1	0	0	0	8522	759	27	1	54	1	KRTAP10-10	21	46057386	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	10201	46057386	2072509	1672	83604											
COL6A1	1291	broad.mit.edu	37	chr21	47423577	47423577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatggactttatcaacgacGccaccgacgtcaacgatgcc	11	7	8	15	5	2	0	2	0	0	0	2	4	2	1	4	1	3	0	4	1	3	2	rs141713954		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:47423577G>A	uc002zhu.1	+	35	2839	c.2737G>A	c.(2737-2739)GCC>ACC	p.A913T	COL6A1_uc010gqd.1_Missense_Mutation_p.A244T|COL6A1_uc002zhv.1_Missense_Mutation_p.A244T|COL6A1_uc002zhw.1_Missense_Mutation_p.A7T	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	913	C-terminal globular domain.|VWFA 3.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	TATCAACGACGCCACCGACGT	0.647													7	33					0	0	1	0	0		A	47423577	A	A	47423577	3	1	153	1	0	0	0	0	1	0	0	0	3702	1087	38	1	2875	1	COL6A1	21	47423577	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1366191	47423577	706318	1673	83605											
MCM3AP	8888	broad.mit.edu	37	chr21	47697478	47697478	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctctctggtcaagcaggcgGtacttctccttggatgtctc	5	14	10	12	1	5	0	1	0	4	0	8	1	5	1	1	4	2	2	1	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr21:47697478G>A	uc002zir.1	-	5	1857	c.1821C>T	c.(1819-1821)TAC>TAT	p.Y607Y		NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	607					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CAAGCAGGCGGTACTTCTCCT	0.592													44	131					0	0	1	0	0		A	47697478	A	A	47697478	2	1	153	1	0	0	0	0	0	0	0	1	9406	1256	44	4		4	MCM3AP	21	47697478	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	273901	47697478	432417	1674	83606											
IL17RA	23765	broad.mit.edu	37	chr22	17581248	17581248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcctcccttctcttcagtggCgttttaccttcagccacttt	4	17	5	15	1	3	0	2	0	1	0	6	0	5	0	4	1	2	1	4	1	1	6	rs145378071	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:17581248C>T	uc002zly.2	+	5	560	c.427C>T	c.(427-429)CGT>TGT	p.R143C	IL17RA_uc010gqt.2_Missense_Mutation_p.R143C	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	143	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		TCTTCAGTGGCGTTTTACCTT	0.547													59	228					0	0	1	0	0		T	17581248	T	T	17581248	3	4	153	1	0	0	0	0	1	0	0	0	7655	768	27	1	445	1	IL17RA	22	17581248	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		17581248	33723318	1675	83607											
CECR1	51816	broad.mit.edu	37	chr22	17688177	17688177	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgtcatggaggtgcaaggcaGcccctggagagggaagaaga	12	5	17	7	0	1	3	1	0	0	3	1	6	1	5	2	5	2	2	2	5	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:17688177G>A	uc002zmk.1	-	2	538	c.326C>T	c.(325-327)GCT>GTT	p.A109V	CECR1_uc010gqu.1_Missense_Mutation_p.A109V|CECR1_uc011agi.1_Missense_Mutation_p.A67V|CECR1_uc011agj.1_Missense_Mutation_p.A67V	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	109					adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				GTGCAAGGCAGCCCCTGGAGA	0.577													23	67					0	0	1	0	0		A	17688177	A	A	17688177	3	1	153	1	0	0	0	0	1	0	0	0	3208	971	34	2	1275	2	CECR1	22	17688177	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	106929	17688177	33616389	1676	83608											
CECR1	51816	broad.mit.edu	37	chr22	17690434	17690434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccagccgcccccccagcCgcatcatcttttctttcaac	7	9	5	20	2	4	0	2	0	2	0	4	0	4	0	6	0	3	2	6	0	1	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:17690434C>T	uc002zmk.1	-	1	346	c.134G>A	c.(133-135)CGG>CAG	p.R45Q	CECR1_uc010gqu.1_Missense_Mutation_p.R45Q|CECR1_uc011agi.1_Missense_Mutation_p.R3Q|CECR1_uc011agj.1_Missense_Mutation_p.R3Q	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	45	Dimerization.				adenosine catabolic process|hypoxanthine salvage|inosine biosynthetic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)				CCCCCCCAGCCGCATCATCTT	0.542													14	32					0	0	1	0	0		T	17690434	T	T	17690434	3	4	153	1	0	0	0	0	1	0	0	0	3208	652	23	1	1471	1	CECR1	22	17690434	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2257	17690434	33614132	1677	83609											
SEPT5	5413	broad.mit.edu	37	chr22	19709399	19709399	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgcaacatgctcatccgcaCgcatatgcacgacctcaagg	11	6	9	15	4	2	0	2	0	0	0	3	1	3	0	2	1	3	5	2	1	3	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:19709399C>T	uc002zpv.1	+	10	994	c.869C>T	c.(868-870)ACG>ATG	p.T290M	SEPT5_uc002zpw.1_RNA|SEPT5_uc002zpx.1_RNA|SEPT5_uc002zpy.1_Translation_Start_Site|SEPT5_uc002zpz.1_5'Flank	NM_002688	NP_002679	Q99719	SEPT5_HUMAN	septin 5	290					cell cycle|cytokinesis|regulation of exocytosis|synaptic vesicle targeting	plasma membrane|septin complex|synaptic vesicle	GTP binding|GTPase activity|protein binding|structural molecule activity			lung(1)	1	Colorectal(54;0.0993)					CTCATCCGCACGCATATGCAC	0.657													14	54					0	0	1	0	0		T	19709399	T	T	19709399	3	4	153	1	0	0	0	0	1	0	0	0	14092	536	19	1	907	1	SEPT5	22	19709399	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2018965	19709399	31595167	1678	83610											
COMT	1312	broad.mit.edu	37	chr22	19956143	19956143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagacttcctagcacacgtgCgcgggagcagctgctttgag	8	8	13	12	3	0	2	0	1	0	1	1	3	1	3	1	1	5	4	1	1	1	3	rs139449932	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:19956143C>T	uc002zqu.2	+	6	949	c.700C>T	c.(700-702)CGC>TGC	p.R234C	COMT_uc002zqv.2_Missense_Mutation_p.R234C|COMT_uc002zqw.2_Missense_Mutation_p.R234C|COMT_uc011ahd.1_Missense_Mutation_p.R234C|COMT_uc002zqx.2_Missense_Mutation_p.R234C	NM_000754	NP_000745	P21964	COMT_HUMAN	catechol-O-methyltransferase isoform MB-COMT	234					neurotransmitter biosynthetic process|neurotransmitter catabolic process|xenobiotic metabolic process	cytosol|integral to membrane|intracellular membrane-bounded organelle|microsome|plasma membrane|soluble fraction	catechol O-methyltransferase activity|magnesium ion binding|protein binding			ovary(1)	1	Colorectal(54;0.0993)				Carbidopa(DB00190)|Conjugated Estrogens(DB00286)|Diethylstilbestrol(DB00255)|Dobutamine(DB00841)|Dopamine(DB00988)|Entacapone(DB00494)|Folic Acid(DB00158)|L-Valine(DB00161)|Levodopa(DB01235)|Methyldopa(DB00968)|Modafinil(DB00745)|Morphine(DB00295)|S-Adenosylmethionine(DB00118)|Tolcapone(DB00323)	AGCACACGTGCGCGGGAGCAG	0.607													15	48					0	0	1	0	0		T	19956143	T	T	19956143	3	4	153	1	0	0	0	0	1	0	0	0	3728	768	27	1	714	1	COMT	22	19956143	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	246744	19956143	31348423	1679	83611											
PI4KA	5297	broad.mit.edu	37	chr22	21082088	21082088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttcaggcacatcactaaCggctcccgggtccaaccgaa	10	7	9	15	3	2	0	2	0	0	0	4	1	4	0	3	3	3	3	3	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:21082088C>T	uc002zsz.3	-	40	4804	c.4573G>A	c.(4573-4575)GTT>ATT	p.V1525I	PI4KA_uc002zsy.3_Missense_Mutation_p.V335I	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1525					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			ACATCACTAACGGCTCCCGGG	0.532													12	52					0	0	1	0	0		T	21082088	T	T	21082088	3	4	153	1	0	0	0	0	1	0	0	0	11892	536	19	1	1625	1	PI4KA	22	21082088	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1125945	21082088	30222478	1680	83612											
LZTR1	8216	broad.mit.edu	37	chr22	21343941	21343941	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacatgtggacaattggcctCcaggaccgagagctcacctg	10	7	12	12	1	1	1	1	0	0	1	2	5	2	3	4	3	1	1	4	3	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:21343941C>T	uc002zto.2	+	7	724	c.621C>T	c.(619-621)CTC>CTT	p.L207L	LZTR1_uc002ztn.2_Silent_p.L166L|LZTR1_uc011ahy.1_Silent_p.L188L|LZTR1_uc010gsr.1_Silent_p.L78L	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	207	Kelch 3.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-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;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CAATTGGCCTCCAGGACCGAG	0.353													7	35					0	0	1	0	0		T	21343941	T	T	21343941	2	4	153	1	0	0	0	0	0	0	0	1	9155	842	30	4		4	LZTR1	22	21343941	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	261853	21343941	29960625	1681	83613											
BCR	613	broad.mit.edu	37	chr22	23653915	23653915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaggtgccctacatcgtgCgccagtgcgtggaggagatc	8	7	14	12	3	0	1	0	0	0	1	2	3	0	2	3	3	4	0	3	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:23653915C>T	uc002zww.2	+	19	3810	c.3214C>T	c.(3214-3216)CGC>TGC	p.R1072C	BCR_uc002zwx.2_Missense_Mutation_p.R1028C|BCR_uc011aiy.1_Missense_Mutation_p.R661C	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	1072	Rho-GAP.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						CTACATCGTGCGCCAGTGCGT	0.622			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								7	37					0	0	1	0	0		T	23653915	T	T	23653915	3	4	153	1	0	0	0	0	1	0	0	0	1389	768	27	1	3288	1	BCR	22	23653915	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	2309974	23653915	27650651	1682	83614											
ZNF70	7621	broad.mit.edu	37	chr22	24086165	24086165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcaggtgtagggcttcttgCcggtgtggattctctggtgc	3	13	16	9	2	2	0	0	0	2	0	3	1	2	1	1	5	2	3	1	5	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:24086165C>T	uc002zxs.2	-	2	1624	c.1163G>A	c.(1162-1164)GGC>GAC	p.G388D	ZNF70_uc002zxr.1_5'Flank	NM_021916	NP_068735	Q9UC06	ZNF70_HUMAN	zinc finger protein 70	388						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						GGGCTTCTTGCCGGTGTGGAT	0.587													66	140					0	0	1	0	0		T	24086165	T	T	24086165	3	4	153	1	0	0	0	0	1	0	0	0	18128	739	26	2	181	2	ZNF70	22	24086165	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	432250	24086165	27218401	1683	83615											
SNRPD3	6634	broad.mit.edu	37	chr22	24964007	24964007	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtggcacagctggagcaggTatacatccgtggcagcaaaa	13	6	13	9	1	0	0	0	0	0	0	1	1	1	1	1	4	4	6	1	4	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:24964007T>C	uc003aam.1	+	3	622	c.182T>C	c.(181-183)GTA>GCA	p.V61A	SNRPD3_uc011aju.1_Missense_Mutation_p.V61A	NM_004175	NP_004166	P62318	SMD3_HUMAN	small nuclear ribonucleoprotein polypeptide D3	61					histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	enzyme binding|histone pre-mRNA DCP binding			ovary(1)	1						CTGGAGCAGGTATACATCCGT	0.468													27	89					0	0	1	0	0		C	24964007	C	C	24964007	3	2	153	1	0	0	0	0	1	0	0	0	14891	1638	57	3	188	3	SNRPD3	22	24964007	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	877842	24964007	26340559	1684	83616											
MYO18B	84700	broad.mit.edu	37	chr22	26173682	26173682	+	Missense_Mutation	SNP	A	G	G	1	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	ggagtggcgctgggaagaccAcctgctgtgagcaggtcctg	7	7	17	10	1	0	2	0	1	0	1	1	4	1	4	3	4	2	3	3	4	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:26173682A>G	uc003abz.1	+	8	2252	c.2002A>G	c.(2002-2004)ACC>GCC	p.T668A	MYO18B_uc003aca.1_Missense_Mutation_p.T549A|MYO18B_uc010guy.1_Missense_Mutation_p.T549A|MYO18B_uc010guz.1_Missense_Mutation_p.T549A|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_Missense_Mutation_p.T181A	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	668	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TGGGAAGACCACCTGCTGTGA	0.622													14	80					0	0	1	0	0		G	26173682	G	G	26173682	3	3	153	1	0	0	0	0	1	0	0	0	10084	159	6	3	2028	3	MYO18B	22	26173682	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1209675	26173682	25130884	1685	83617											
MYO18B	84700	broad.mit.edu	37	chr22	26423370	26423370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaagcatccactttgaaaCggaagaggctaaccgttcct	12	10	8	11	2	1	2	1	1	0	1	3	3	3	3	3	2	3	3	3	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:26423370C>T	uc003abz.1	+	43	7680	c.7430C>T	c.(7429-7431)ACG>ATG	p.T2477M	MYO18B_uc003aca.1_Missense_Mutation_p.T2358M|MYO18B_uc010guy.1_Missense_Mutation_p.T2359M|MYO18B_uc010guz.1_Missense_Mutation_p.T2357M|MYO18B_uc011aka.1_Missense_Mutation_p.T1631M|MYO18B_uc011akb.1_Missense_Mutation_p.T1990M|MYO18B_uc010gva.1_Missense_Mutation_p.T460M|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2477						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CACTTTGAAACGGAAGAGGCT	0.557													20	61					0	0	1	0	0		T	26423370	T	T	26423370	3	4	153	1	0	0	0	0	1	0	0	0	10084	536	19	1	7596	1	MYO18B	22	26423370	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	249688	26423370	24881196	1686	83618											
SEZ6L	23544	broad.mit.edu	37	chr22	26747187	26747187	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggactcccatctggacGtctcgcctgccccactgcgt	6	8	10	17	3	2	0	0	0	2	0	4	2	3	2	4	2	2	0	4	2	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:26747187G>A	uc003acb.2	+	12	2733	c.2577G>A	c.(2575-2577)ACG>ACA	p.T859T	SEZ6L_uc003acc.2_Silent_p.T859T|SEZ6L_uc011akc.1_Silent_p.T859T|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Silent_p.T859T|SEZ6L_uc003ace.2_Silent_p.T859T|SEZ6L_uc003acf.1_Silent_p.T632T|SEZ6L_uc010gvc.1_Silent_p.T632T|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	859	Sushi 4.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CCATCTGGACGTCTCGCCTGC	0.532													19	63					0	0	1	0	0		A	26747187	A	A	26747187	2	1	153	1	0	0	0	0	0	0	0	1	14168	1132	40	1		1	SEZ6L	22	26747187	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	323817	26747187	24557379	1687	83619											
MTMR3	8897	broad.mit.edu	37	chr22	30413941	30413941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaccctgtgtgccatgtgcGtaacctgatgctgtggagtg	6	12	14	9	1	0	1	0	1	0	0	0	2	0	2	3	1	5	3	3	1	2	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:30413941G>A	uc003agv.3	+	16	2028	c.1700G>A	c.(1699-1701)CGT>CAT	p.R567H	MTMR3_uc003agu.3_Missense_Mutation_p.R567H|MTMR3_uc003agw.3_Missense_Mutation_p.R567H	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	567	Myotubularin phosphatase.			LYPVCHVRNLMLWSAVYLP -> CILQPFHCGQQKEFGVGY I (in Ref. 7).	phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			TGCCATGTGCGTAACCTGATG	0.567													37	113					0	0	1	0	0		A	30413941	A	A	30413941	3	1	153	1	0	0	0	0	1	0	0	0	9963	1145	40	1	1754	1	MTMR3	22	30413941	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	3666754	30413941	20890625	1688	83620											
TBC1D10A	83874	broad.mit.edu	37	chr22	30691728	30691728	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcccagcctgctcacccGtggcccccccgggacacaaa	8	3	11	19	2	1	0	1	0	0	0	1	2	1	1	6	3	2	1	6	3	1	0	rs141103266		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:30691728G>A	uc011akt.1	-	4	546	c.522C>T	c.(520-522)CAC>CAT	p.H174H	GATSL3_uc003ahf.2_RNA|GATSL3_uc003ahg.2_RNA|GATSL3_uc003ahh.2_RNA|GATSL3_uc010gvq.2_RNA|GATSL3_uc003ahi.2_Silent_p.H32H|TBC1D10A_uc003ahj.3_Silent_p.H86H|TBC1D10A_uc010gvu.2_Silent_p.H181H|TBC1D10A_uc003ahk.3_Silent_p.H174H	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	174	Rab-GAP TBC.					intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						CTGCTCACCCGTGGCCCCCCC	0.607													7	23					0	0	1	0	0		A	30691728	A	A	30691728	2	1	153	1	0	0	0	0	0	0	0	1	15623	1136	40	1		1	TBC1D10A	22	30691728	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	277787	30691728	20612838	1689	83621											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951416	30951416	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctccagctcccagcacaGcaggtccttcagcagcacca	9	6	8	18	0	1	0	1	0	0	0	5	0	5	0	5	1	5	5	5	1	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:30951416G>A	uc003aig.1	-	4	936	c.796C>T	c.(796-798)CTG>TTG	p.L266L	GAL3ST1_uc003aih.1_Silent_p.L266L|GAL3ST1_uc003aii.1_Silent_p.L266L|GAL3ST1_uc010gvz.1_Silent_p.L266L	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	266	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						TCCCAGCACAGCAGGTCCTTC	0.667													14	71					0	0	1	0	0		A	30951416	A	A	30951416	2	1	153	1	0	0	0	0	0	0	0	1	6212	962	34	2		2	GAL3ST1	22	30951416	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	259688	30951416	20353150	1690	83622											
INPP5J	27124	broad.mit.edu	37	chr22	31524009	31524009	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactttgtcaagtttgccatCgacagtgaccagctccatca	10	11	7	13	1	2	1	2	1	0	0	4	2	3	1	3	0	2	2	3	0	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:31524009C>T	uc003aju.3	+	7	1952	c.1860C>T	c.(1858-1860)ATC>ATT	p.I620I	INPP5J_uc003ajv.3_Silent_p.I253I|INPP5J_uc003ajs.3_Silent_p.I253I|INPP5J_uc011alk.1_Silent_p.I553I|INPP5J_uc010gwg.2_Silent_p.I185I|INPP5J_uc003ajw.2_Silent_p.I56I|INPP5J_uc003ajt.3_Silent_p.I252I|INPP5J_uc003ajx.2_5'UTR|INPP5J_uc003ajy.2_5'UTR|INPP5J_uc003ajz.2_Missense_Mutation_p.S10L	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	620	Catalytic (Potential).					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						AGTTTGCCATCGACAGTGACC	0.567													10	21					0	0	1	0	0		T	31524009	T	T	31524009	2	4	153	1	0	0	0	0	0	0	0	1	7775	874	31	1		1	INPP5J	22	31524009	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	572593	31524009	19780557	1691	83623											
PLA2G3	50487	broad.mit.edu	37	chr22	31534345	31534345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgttgaagaaggccacGcccacgatgtccgagatgga	12	5	13	11	4	0	3	0	1	0	2	1	6	1	4	3	2	1	2	3	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:31534345G>A	uc003aka.2	-	3	828	c.699C>T	c.(697-699)GGC>GGT	p.G233G		NM_015715	NP_056530	Q9NZ20	PA2G3_HUMAN	phospholipase A2, group III precursor	233	Phospholipase A2-like.				cilium morphogenesis|lipid catabolic process|phospholipid metabolic process	centriole|extracellular space|plasma membrane	calcium ion binding|calcium-dependent phospholipase A2 activity				0						AGAAGGCCACGCCCACGATGT	0.622													12	33					0	0	1	0	0		A	31534345	A	A	31534345	2	1	153	1	0	0	0	0	0	0	0	1	12019	1074	38	1		1	PLA2G3	22	31534345	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	10336	31534345	19770221	1692	83624											
PISD	23761	broad.mit.edu	37	chr22	32017120	32017120	+	Missense_Mutation	SNP	A	G	G	1	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	ctggttcttgaaggagtcacAcgacgcggctgtggagtagg	8	9	16	8	3	2	1	1	1	1	0	2	4	2	3	0	5	0	3	0	5	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:32017120A>G	uc003alm.3	-	6	713	c.706T>C	c.(706-708)TGT>CGT	p.C236R	PISD_uc003alk.2_Missense_Mutation_p.C202R|PISD_uc003all.2_Missense_Mutation_p.C201R|PISD_uc011alr.1_Missense_Mutation_p.C201R|PISD_uc003aln.3_Missense_Mutation_p.C236R	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	236					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	AAGGAGTCACACGACGCGGCT	0.612											OREG0003530	type=REGULATORY REGION|Gene=PISD|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	21	49					0	0	1	0	0		G	32017120	G	G	32017120	3	3	153	1	0	0	0	0	1	0	0	0	11965	159	6	3	535	3	PISD	22	32017120	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	482775	32017120	19287446	1693	83625											
DEPDC5	9681	broad.mit.edu	37	chr22	32200207	32200207	+	Missense_Mutation	SNP	A	G	G	1	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	tacatgctgtcccattgttcAaggtaattagatttcggatt	10	16	8	7	1	1	1	1	0	0	1	3	2	2	2	1	2	2	3	1	2	4	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:32200207A>G	uc003als.2	+	16	1283	c.1141A>G	c.(1141-1143)AAG>GAG	p.K381E	DEPDC5_uc011als.1_Missense_Mutation_p.K381E|DEPDC5_uc011alu.1_Missense_Mutation_p.K381E|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.K381E|DEPDC5_uc003alr.1_Missense_Mutation_p.K381E|DEPDC5_uc011alt.1_Missense_Mutation_p.K353E	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	381					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CCCATTGTTCAAGGTAATTAG	0.313													35	130					0	0	1	0	0		G	32200207	G	G	32200207	3	3	153	1	0	0	0	0	1	0	0	0	4448	131	5	3	1199	3	DEPDC5	22	32200207	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	183087	32200207	19104359	1694	83626											
DEPDC5	9681	broad.mit.edu	37	chr22	32302427	32302427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcatcaaccgtgacaacCggctggtcacgttctggaca	9	9	10	13	3	4	1	2	1	2	0	4	2	4	2	2	3	3	3	2	3	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:32302427C>T	uc003als.2	+	42	4805	c.4663C>T	c.(4663-4665)CGG>TGG	p.R1555W	DEPDC5_uc011als.1_Missense_Mutation_p.R1486W|DEPDC5_uc011alu.1_Missense_Mutation_p.R1586W|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.R1577W|DEPDC5_uc003alu.2_Missense_Mutation_p.R1004W|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Missense_Mutation_p.R853W|DEPDC5_uc011alx.1_Missense_Mutation_p.R403W|DEPDC5_uc010gwk.2_3'UTR|DEPDC5_uc011aly.1_Missense_Mutation_p.R403W	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1555					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						CCGTGACAACCGGCTGGTCAC	0.592													35	178					0	0	1	0	0		T	32302427	T	T	32302427	3	4	153	1	0	0	0	0	1	0	0	0	4448	643	23	1	4913	1	DEPDC5	22	32302427	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	102220	32302427	19002139	1695	83627											
HMOX1	3162	broad.mit.edu	37	chr22	35783055	35783055	+	Missense_Mutation	SNP	T	A	A	0	1	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	accttccccaacattgccagTgccaccaagttcaagcagct	11	8	6	16	0	1	0	1	0	0	0	2	0	2	0	6	0	5	3	6	0	3	3	rs140966438		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:35783055T>A	uc003ant.1	+	3	602	c.522T>A	c.(520-522)AGT>AGA	p.S174R		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	174					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	ACATTGCCAGTGCCACCAAGT	0.597													24	111					0	0	1	0	0		A	35783055	A	A	35783055	3	1	153	1	0	0	0	0	1	0	0	0	7259	1693	59	5	532	5	HMOX1	22	35783055	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3480628	35783055	15521511	1696	83628											
APOL3	80833	broad.mit.edu	37	chr22	36541536	36541536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttacctgggcaattcagccGcagtcacgaatctcttccag	9	10	9	13	2	3	0	2	0	1	0	5	1	4	0	3	1	2	3	3	1	3	3	rs141517147	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:36541536G>A	uc003aot.2	-	2	373	c.335C>T	c.(334-336)GCG>GTG	p.A112V	APOL3_uc003aoq.2_Missense_Mutation_p.A41V|APOL3_uc003aor.2_Missense_Mutation_p.A41V|APOL3_uc003aos.2_Missense_Mutation_p.A41V|APOL3_uc003aou.2_5'UTR|APOL3_uc003aov.2_5'UTR	NM_145640	NP_663615	O95236	APOL3_HUMAN	apolipoprotein L3 isoform 1	112					inflammatory response|lipoprotein metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	lipid binding|lipid transporter activity|signal transducer activity				0						CAATTCAGCCGCAGTCACGAA	0.557													22	63					0	0	1	0	0		A	36541536	A	A	36541536	3	1	153	1	0	0	0	0	1	0	0	0	807	1087	38	1	881	1	APOL3	22	36541536	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	758481	36541536	14763030	1697	83629											
CSF2RB	1439	broad.mit.edu	37	chr22	37334294	37334294	+	Missense_Mutation	SNP	T	A	A	0	1	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	acagcccgagggcctccttgTcctgcagcaagtgggcgact	7	7	13	14	2	0	0	0	0	0	0	2	2	2	0	4	2	3	2	4	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:37334294T>A	uc003aqa.3	+	14	2661	c.2444T>A	c.(2443-2445)GTC>GAC	p.V815D	CSF2RB_uc003aqc.3_Missense_Mutation_p.V821D	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	815	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	GGCCTCCTTGTCCTGCAGCAA	0.652													47	137					0	0	1	0	0		A	37334294	A	A	37334294	3	1	153	1	0	0	0	0	1	0	0	0	3938	1667	58	5	2494	5	CSF2RB	22	37334294	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	792758	37334294	13970272	1698	83630											
KCNJ4	3761	broad.mit.edu	37	chr22	38823826	38823826	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccaccggggctgctccGccaccacccgccgccgggcc	3	2	15	21	5	0	0	0	0	0	0	1	0	1	0	9	5	1	2	9	5	0	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:38823826G>A	uc003avs.1	-	2	409	c.312C>T	c.(310-312)GGC>GGT	p.G104G	KCNJ4_uc003avt.1_Silent_p.G104G	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	104	Poly-Gly.|Val/Gly/Ala/Pro stretch.|Extracellular (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					GGGCTGCTCCGCCACCAcccg	0.562													5	13					0	0	1	0	0		A	38823826	A	A	38823826	2	1	153	1	0	0	0	0	0	0	0	1	8069	1074	38	1		1	KCNJ4	22	38823826	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1489532	38823826	12480740	1699	83631											
CACNA1I	8911	broad.mit.edu	37	chr22	40066157	40066157	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggtggagaacttccacaagTgccggcagcaccaggaggct	10	6	14	11	1	0	1	0	0	0	1	1	3	1	2	3	5	3	3	3	5	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:40066157T>C	uc003ayc.2	+	25	4309	c.4309T>C	c.(4309-4311)TGC>CGC	p.C1437R	CACNA1I_uc003ayd.2_Missense_Mutation_p.C1402R|CACNA1I_uc003aye.2_Missense_Mutation_p.C1352R|CACNA1I_uc003ayf.2_Missense_Mutation_p.C1317R	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1437	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CTTCCACAAGTGCCGGCAGCA	0.607													37	126					0	0	1	0	0		C	40066157	C	C	40066157	3	2	153	1	0	0	0	0	1	0	0	0	2549	1696	59	3	4407	3	CACNA1I	22	40066157	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1242331	40066157	11238409	1700	83632											
CACNA1I	8911	broad.mit.edu	37	chr22	40066850	40066850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccacctattgtcacacccGgctgctcatccactccatgt	7	11	6	17	1	2	0	2	0	0	0	4	0	4	0	5	1	2	2	5	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:40066850G>A	uc003ayc.2	+	26	4430	c.4430G>A	c.(4429-4431)CGG>CAG	p.R1477Q	CACNA1I_uc003ayd.2_Missense_Mutation_p.R1442Q|CACNA1I_uc003aye.2_Missense_Mutation_p.R1392Q|CACNA1I_uc003ayf.2_Missense_Mutation_p.R1357Q	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1477	Cytoplasmic (Potential).|IV.				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	TGTCACACCCGGCTGCTCATC	0.577													24	75					0	0	1	0	0		A	40066850	A	A	40066850	3	1	153	1	0	0	0	0	1	0	0	0	2549	1116	39	1	4532	1	CACNA1I	22	40066850	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	693	40066850	11237716	1701	83633											
FAM83F	113828	broad.mit.edu	37	chr22	40417465	40417465	+	Silent	SNP	T	G	G	0	1	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	ggcctccattactcctccacTgtggctcgaaagcttatcaa	9	11	7	14	1	1	0	1	0	0	0	5	1	4	0	4	2	2	2	4	2	4	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:40417465T>G	uc003ayk.1	+	4	1045	c.951T>G	c.(949-951)ACT>ACG	p.T317T		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	317										breast(1)	1						ACTCCTCCACTGTGGCTCGAA	0.642													28	114					0	0	1	0	0		G	40417465	G	G	40417465	2	3	153	1	0	0	0	0	0	0	0	1	5652	1567	55	5		5	FAM83F	22	40417465	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	350615	40417465	10887101	1702	83634											
TNRC6B	23112	broad.mit.edu	37	chr22	40661673	40661673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacaacaataacaggtctaCgggtgggtcctggaactttg	11	9	13	8	1	1	0	0	0	1	0	2	2	2	2	1	5	4	0	1	5	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:40661673C>T	uc011aor.1	+	5	1650	c.1439C>T	c.(1438-1440)ACG>ATG	p.T480M	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Missense_Mutation_p.T480M|TNRC6B_uc003ayo.2_Missense_Mutation_p.T284M	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	480					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						AACAGGTCTACGGGTGGGTCC	0.478													14	27					0	0	1	0	0		T	40661673	T	T	40661673	3	4	153	1	0	0	0	0	1	0	0	0	16366	536	19	1	1578	1	TNRC6B	22	40661673	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	244208	40661673	10642893	1703	83635											
MKL1	57591	broad.mit.edu	37	chr22	40815358	40815358	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccgagacaggcagtgatcGcaacttcagctcctgcttca	9	8	10	14	2	2	2	2	1	0	1	4	3	3	2	2	1	3	4	2	1	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:40815358G>A	uc003ayv.1	-	9	1291	c.1084C>T	c.(1084-1086)CGA>TGA	p.R362*	MKL1_uc003ayw.1_Nonsense_Mutation_p.R362*|MKL1_uc010gye.1_Nonsense_Mutation_p.R362*|MKL1_uc010gyf.1_Nonsense_Mutation_p.R312*	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	362	SAP.				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GGCAGTGATCGCAACTTCAGC	0.617			T	RBM15	acute megakaryocytic leukemia								5	38					0	0	1	0	0		A	40815358	A	A	40815358	4	1	153	1	0	0	0	0	0	1	0	0	9619	1095	38	1	1727	1	MKL1	22	40815358	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	153685	40815358	10489208	1704	83636											
XPNPEP3	63929	broad.mit.edu	37	chr22	41322429	41322429	+	Missense_Mutation	SNP	A	G	G	1	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	cattgaacagatatgcagccAggcttcttgaccttcactgc	10	11	8	12	0	2	3	1	2	1	1	2	3	2	3	2	1	4	2	2	1	2	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:41322429A>G	uc003azh.2	+	10	1606	c.1514A>G	c.(1513-1515)CAG>CGG	p.Q505R	XPNPEP3_uc003azi.2_Missense_Mutation_p.Q426R|XPNPEP3_uc011aoy.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	505					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						ATATGCAGCCAGGCTTCTTGA	0.507													33	173					0	0	1	0	0		G	41322429	G	G	41322429	3	3	153	1	0	0	0	0	1	0	0	0	17470	188	7	3	1552	3	XPNPEP3	22	41322429	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	507071	41322429	9982137	1705	83637											
ZC3H7B	23264	broad.mit.edu	37	chr22	41716681	41716681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgatggagaggcagaaacGgaaggcggacatcgagaaag	16	3	16	6	3	0	4	0	1	0	3	1	8	0	6	0	5	1	1	0	5	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:41716681G>A	uc003azw.2	+	2	233	c.17G>A	c.(16-18)CGG>CAG	p.R6Q	ZC3H7B_uc003azv.1_Missense_Mutation_p.R6Q|ZC3H7B_uc010gyl.1_RNA	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	6					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						AGGCAGAAACGGAAGGCGGAC	0.602													21	90					0	0	1	0	0		A	41716681	A	A	41716681	3	1	153	1	0	0	0	0	1	0	0	0	17598	1116	39	1	19	1	ZC3H7B	22	41716681	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	394252	41716681	9587885	1706	83638											
SULT4A1	25830	broad.mit.edu	37	chr22	44234807	44234807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcggtagctcatggtccGcagagagcggtggaactgat	8	8	15	10	3	1	2	1	1	0	1	3	4	2	3	2	4	3	3	2	4	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:44234807G>A	uc003bee.1	-	4	564	c.448C>T	c.(448-450)CGG>TGG	p.R150W	SULT4A1_uc003bed.1_Missense_Mutation_p.R71W|SULT4A1_uc003bef.1_RNA|SULT4A1_uc011aqb.1_Intron	NM_014351	NP_055166	Q9BR01	ST4A1_HUMAN	sulfotransferase family 4A, member 1	150					3'-phosphoadenosine 5'-phosphosulfate metabolic process|steroid metabolic process|xenobiotic metabolic process	cytosol	sulfotransferase activity				0		Ovarian(80;0.024)|all_neural(38;0.0416)		Colorectal(1;0.00242)|READ - Rectum adenocarcinoma(1;0.0419)		CTCATGGTCCGCAGAGAGCGG	0.537													13	58					0	0	1	0	0		A	44234807	A	A	44234807	3	1	153	1	0	0	0	0	1	0	0	0	15408	1086	38	1	422	1	SULT4A1	22	44234807	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2518126	44234807	7069759	1707	83639											
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45210627	45210627	+	Silent	SNP	G	A	A	0	0	1	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	gtcctgtggaacatcttgaaGcccctcatcaggtatgcgtc	8	11	10	12	1	3	1	2	1	1	0	5	2	4	2	3	2	3	1	3	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:45210627G>A	uc003bfd.2	+	10	1277	c.1005G>A	c.(1003-1005)AAG>AAA	p.K335K	PRR5-ARHGAP8_uc003bfc.2_Silent_p.K256K|PRR5-ARHGAP8_uc011aqi.1_Silent_p.K247K|PRR5-ARHGAP8_uc011aqj.1_Silent_p.K161K|ARHGAP8_uc003bfi.2_Silent_p.K125K|ARHGAP8_uc010gzv.2_Silent_p.K125K|ARHGAP8_uc003bfj.2_Silent_p.K156K|ARHGAP8_uc003bfk.2_Silent_p.K125K|ARHGAP8_uc003bfl.2_RNA	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						ACATCTTGAAGCCCCTCATCA	0.572													21	81					0	0	1	0	0		A	45210627	A	A	45210627	2	1	153	1	0	0	0	0	0	0	0	1	12623	962	34	2		2	PRR5-ARHGAP8	22	45210627	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	975820	45210627	6093939	1708	83640											
PHF21B	112885	broad.mit.edu	37	chr22	45309814	45309814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgtgctctcgggctgcGtctgcacttgaggctgaatg	4	11	14	12	3	2	2	0	2	2	0	3	2	2	2	1	2	4	4	1	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:45309814G>A	uc003bfn.2	-	5	870	c.719C>T	c.(718-720)ACG>ATG	p.T240M	PHF21B_uc003bfm.2_Missense_Mutation_p.T36M|PHF21B_uc011aqk.1_Missense_Mutation_p.T186M|PHF21B_uc011aql.1_Missense_Mutation_p.T198M|PHF21B_uc011aqm.1_Missense_Mutation_p.T186M	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	240							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		CTCGGGCTGCGTCTGCACTTG	0.438													11	70					0	0	1	0	0		A	45309814	A	A	45309814	3	1	153	1	0	0	0	0	1	0	0	0	11853	1145	40	1	912	1	PHF21B	22	45309814	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	99187	45309814	5994752	1709	83641											
RIBC2	26150	broad.mit.edu	37	chr22	45818285	45818285	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgaaagacttcaacaagagCcaggtataggtactccgcga	14	7	11	9	2	1	3	1	1	0	2	2	4	2	3	2	2	3	2	2	2	6	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:45818285C>T	uc011aqs.1	+	5	866	c.657C>T	c.(655-657)AGC>AGT	p.S219S		NM_015653	NP_056468	Q9H4K1	RIBC2_HUMAN	RIB43A domain with coiled-coils 2	151	Potential.										0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		TCAACAAGAGCCAGGTATAGG	0.572													50	170					0	0	1	0	0		T	45818285	T	T	45818285	2	4	153	1	0	0	0	0	0	0	0	1	13378	738	26	2		2	RIBC2	22	45818285	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	508471	45818285	5486281	1710	83642											
CELSR1	9620	broad.mit.edu	37	chr22	46765660	46765660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcgacagccagcagaagtCggggttcccgtagccctggg	9	5	15	12	3	0	1	0	0	0	1	2	2	1	1	3	3	4	3	3	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:46765660C>T	uc003bhw.1	-	26	7801	c.7801G>A	c.(7801-7803)GAC>AAC	p.D2601N	CELSR1_uc011arc.1_Missense_Mutation_p.R1066Q	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2601	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGCAGAAGTCGGGGTTCCCG	0.647													5	51					0	0	1	0	0		T	46765660	T	T	46765660	3	4	153	1	0	0	0	0	1	0	0	0	3224	884	31	1	1283	1	CELSR1	22	46765660	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	947375	46765660	4538906	1711	83643											
PANX2	56666	broad.mit.edu	37	chr22	50615711	50615711	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcccgggcatcacggagcgCgagaagcgcgagatcatcga	10	3	16	12	7	2	2	2	0	0	2	3	6	2	3	1	3	2	1	1	3	1	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chr22:50615711C>T	uc003bjn.3	+	2	570	c.570C>T	c.(568-570)CGC>CGT	p.R190R	PANX2_uc003bjp.3_Silent_p.R56R|PANX2_uc003bjo.3_Silent_p.R190R	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	190	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		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)		TCACGGAGCGCGAGAAGCGCG	0.647													8	14					0	0	1	0	0		T	50615711	T	T	50615711	2	4	153	1	0	0	0	0	0	0	0	1	11440	755	27	1		1	PANX2	22	50615711	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	3850051	50615711	688855	1712	83644											
IL3RA	3563	broad.mit.edu	37	chrX	1499988	1499988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcggtgacagcttccaaaaCgacaagctggtatgttgttt	11	12	10	8	2	0	1	0	1	0	0	2	2	1	1	1	2	3	5	1	2	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:1499988C>T	uc004cps.2	+	11	1402	c.1053C>T	c.(1051-1053)AAC>AAT	p.N351N	IL3RA_uc011mhd.1_Silent_p.N273N	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	351	Cytoplasmic (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity			skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	GCTTCCAAAACGACAAGCTGG	0.423													63	194					0	0	1	0	0		T	1499988	T	T	1499988	2	4	153	1	0	0	0	0	0	0	0	1	7711	535	19	1		1	IL3RA	23	1499988	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08		1499988	153770572	1713	83645											
MXRA5	25878	broad.mit.edu	37	chrX	3228890	3228890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cccggctgctatctcccgcaCagtggtgatggggttggggt	4	10	16	11	2	1	1	0	1	1	0	2	1	1	1	2	6	1	4	2	6	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:3228890C>T	uc004crg.3	-	7	7511	c.7354G>A	c.(7354-7356)GTG>ATG	p.V2452M		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2452	Ig-like C2-type 9.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				ATCTCCCGCACAGTGGTGATG	0.587													15	19					0	0	1	0	0		T	3228890	T	T	3228890	3	4	153	1	0	0	0	0	1	0	0	0	10021	478	17	4	1136	4	MXRA5	23	3228890	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1728902	3228890	152041670	1714	83646											
HCCS	3052	broad.mit.edu	37	chrX	11133052	11133052	+	Silent	SNP	T	C	C	0	1	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	gcctatgagtacgtggagtgTcccattaggggcactgcggc	7	9	15	10	2	0	1	0	1	0	0	1	2	1	2	2	4	2	2	2	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:11133052T>C	uc004cuk.2	+	3	464	c.198T>C	c.(196-198)TGT>TGC	p.C66C	HCCS_uc004cuj.2_Silent_p.C66C|HCCS_uc004cul.1_Silent_p.C66C	NM_005333	NP_005324	P53701	CCHL_HUMAN	holocytochrome c synthase	66					organ morphogenesis|oxidation-reduction process	mitochondrial inner membrane	holocytochrome-c synthase activity|metal ion binding				0						ACGTGGAGTGTCCCATTAGGG	0.498													41	46					0	0	1	0	0		C	11133052	C	C	11133052	2	2	153	1	0	0	0	0	0	0	0	1	7006	1673	58	3		3	HCCS	23	11133052	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	7904162	11133052	144137508	1715	83647											
GEMIN8	54960	broad.mit.edu	37	chrX	14027102	14027102	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtgcttgtcaaagctcagcTgcaccgcggcctccatggct	7	9	11	14	2	2	0	2	0	0	0	3	0	3	0	3	2	4	5	3	2	1	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:14027102T>C	uc004cwb.2	-	5	1002	c.659A>G	c.(658-660)CAG>CGG	p.Q220R	GEMIN8_uc004cwc.2_Missense_Mutation_p.Q220R|GEMIN8_uc004cwd.2_Missense_Mutation_p.Q220R	NM_017856	NP_060326	Q9NWZ8	GEMI8_HUMAN	gem (nuclear organelle) associated protein 8	220					spliceosomal snRNP assembly	Cajal body|cytoplasm|SMN complex|spliceosomal complex	protein binding				0						AAAGCTCAGCTGCACCGCGGC	0.617													5	82					0	0	1	0	0		C	14027102	C	C	14027102	3	2	153	1	0	0	0	0	1	0	0	0	6349	1580	55	3	73	3	GEMIN8	23	14027102	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2894050	14027102	141243458	1716	83648											
MBTPS2	51360	broad.mit.edu	37	chrX	21896785	21896785	+	Silent	SNP	A	G	G	1	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	attgatatgttatacgtaggAcatcctctgcatcttcacta	11	15	6	9	1	3	1	1	1	2	0	4	2	4	2	1	1	2	3	1	1	5	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:21896785A>G	uc004dae.2	+	9	1433	c.1236A>G	c.(1234-1236)GGA>GGG	p.G412G	MBTPS2_uc010nfr.2_Silent_p.G5G	NM_015884	NP_056968	O43462	MBTP2_HUMAN	membrane-bound transcription factor peptidase,	412	Lumenal (Probable).				cholesterol metabolic process|proteolysis	Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity			ovary(1)	1						TATACGTAGGACATCCTCTGC	0.368													76	95					0	0	1	0	0		G	21896785	G	G	21896785	2	3	153	1	0	0	0	0	0	0	0	1	9380	262	10	3		3	MBTPS2	23	21896785	Silent	SNP	A	TCGA-CG-5723-01A-11D-1600-08	7869683	21896785	133373775	1717	83649											
POLA1	5422	broad.mit.edu	37	chrX	24760164	24760164	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgagcgtaacgagttcttgTtgcttcatgcattttacgaa	9	14	9	9	4	2	0	1	0	1	0	2	3	2	0	1	0	5	5	1	0	3	7			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:24760164T>C	uc004dbl.2	+	22	2397	c.2374T>C	c.(2374-2376)TTG>CTG	p.L792L	SCARNA23_uc004dbo.1_5'Flank	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	792					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	CGAGTTCTTGTTGCTTCATGC	0.383													51	45					0	0	1	0	0		C	24760164	C	C	24760164	2	2	153	1	0	0	0	0	0	0	0	1	12206	1722	60	3		3	POLA1	23	24760164	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	2863379	24760164	130510396	1718	83650											
LANCL3	347404	broad.mit.edu	37	chrX	37431309	37431309	+	Frame_Shift_Del	DEL	G	-	-																															gcgggggctagcgcctgccaGggggggctttatggcggcgt																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:37431309delG	uc011mkd.1	+	1	488	c.186delG	c.(184-186)CAGfs	p.Q62fs	LANCL3_uc004ddp.1_Frame_Shift_Del_p.Q62fs	NM_198511	NP_940913	Q6ZV70	LANC3_HUMAN	LanC lantibiotic synthetase component C-like 3	62							catalytic activity				0						GCGCCTGCCAGGGGGGGCTTT	0.721													3	5	---	---	---	---						.	-	37431309	-	-	37431309	7	5	153	1	0	1	0	1	0	0	0	0	8638	991	35	0	188	0	LANCL3	23	37431309	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	12671145	37431309	117839251	1719	83651											
OTC	5009	broad.mit.edu	37	chrX	38271179	38271179	+	Missense_Mutation	SNP	T	G	G	0	1	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	gcccagaaagccagaagaagTggatgatgaagtcttttatt	14	10	11	6	0	1	5	0	2	1	3	1	6	1	6	2	1	1	0	2	1	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:38271179T>G	uc004def.3	+	9	1146	c.932T>G	c.(931-933)GTG>GGG	p.V311G		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	311					arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	CCAGAAGAAGTGGATGATGAA	0.423													72	59					0	0	1	0	0		G	38271179	G	G	38271179	3	3	153	1	0	0	0	0	1	0	0	0	11320	1696	59	5	966	5	OTC	23	38271179	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	839870	38271179	116999381	1720	83652											
CXorf38	159013	broad.mit.edu	37	chrX	40496296	40496296	+	Missense_Mutation	SNP	A	T	T	1	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	atactgccacaatctctgggAtgttcttgaattcattcaga	11	14	7	9	0	4	2	2	1	2	1	5	3	4	3	1	1	2	1	1	1	3	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:40496296A>T	uc004dew.2	-	4	589	c.584T>A	c.(583-585)ATC>AAC	p.I195N	CXorf38_uc011mko.1_Missense_Mutation_p.I110N|CXorf38_uc004dev.1_Missense_Mutation_p.I76N|CXorf38_uc010nhd.2_RNA	NM_144970	NP_659407	Q8TB03	CX038_HUMAN	hypothetical protein LOC159013	195										ovary(1)	1						AATCTCTGGGATGTTCTTGAA	0.373													38	49					0	0	1	0	0		T	40496296	T	T	40496296	3	4	153	1	0	0	0	0	1	0	0	0	4110	333	12	5	387	5	CXorf38	23	40496296	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	2225117	40496296	114774264	1721	83653											
RBM10	8241	broad.mit.edu	37	chrX	47044527	47044527	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaaaaatagcttccagcCtatcagctccctgcgagatg	11	10	7	13	1	2	1	2	0	0	1	4	2	4	1	3	0	4	2	3	0	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:47044527C>A	uc004dhf.2	+	18	2403	c.2024C>A	c.(2023-2025)CCT>CAT	p.P675H	RBM10_uc004dhg.2_Missense_Mutation_p.P597H|RBM10_uc004dhh.2_Missense_Mutation_p.P674H|RBM10_uc010nhq.2_Missense_Mutation_p.P598H|RBM10_uc004dhi.2_Missense_Mutation_p.P740H	NM_005676	NP_005667	P98175	RBM10_HUMAN	RNA binding motif protein 10 isoform 1	675					mRNA processing|RNA splicing	chromatin remodeling complex	nucleotide binding|RNA binding|zinc ion binding			ovary(1)|large_intestine(1)|prostate(1)|breast(1)|pancreas(1)	5						AGCTTCCAGCCTATCAGCTCC	0.562													14	24					1.33986e-20	1.44033e-20	1	1	0		A	47044527	A	A	47044527	3	1	153	1	0	0	0	0	1	0	0	0	13136	681	24	5	2090	5	RBM10	23	47044527	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	6548231	47044527	108226033	1722	83654											
CCNB3	85417	broad.mit.edu	37	chrX	50053307	50053307	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttgaagaacttgttggcttTgcaggagaaaagcaccatgg	12	10	12	7	0	0	3	0	1	0	2	0	4	0	3	1	3	3	4	1	3	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:50053307T>C	uc004dox.3	+	6	2436	c.2138T>C	c.(2137-2139)TTG>TCG	p.L713S	CCNB3_uc004doy.2_Missense_Mutation_p.L713S|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	713					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					TTGTTGGCTTTGCAGGAGAAA	0.468													15	18					0	0	1	0	0		C	50053307	C	C	50053307	3	2	153	1	0	0	0	0	1	0	0	0	2917	1821	63	3	2152	3	CCNB3	23	50053307	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	3008780	50053307	105217253	1723	83655											
CCNB3	85417	broad.mit.edu	37	chrX	50054263	50054263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtccttcaaggagccattgGccttacaagagagtcccacc	10	9	9	13	0	1	1	1	0	0	1	3	3	3	2	5	2	2	0	5	2	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:50054263G>A	uc004dox.3	+	6	3392	c.3094G>A	c.(3094-3096)GCC>ACC	p.A1032T	CCNB3_uc004doy.2_Missense_Mutation_p.A1032T|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1032					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GGAGCCATTGGCCTTACAAGA	0.473													51	57					0	0	1	0	0		A	50054263	A	A	50054263	3	1	153	1	0	0	0	0	1	0	0	0	2917	1203	42	2	3108	2	CCNB3	23	50054263	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	956	50054263	105216297	1724	83656											
DGKK	139189	broad.mit.edu	37	chrX	50130583	50130583	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacactattgcagtgttgTtctgttttatctgaccccag	8	15	8	10	0	2	2	0	1	2	1	2	2	2	2	2	0	1	4	2	0	2	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:50130583T>C	uc010njr.1	-	14	2147	c.2087A>G	c.(2086-2088)AAC>AGC	p.N696S		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	696					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TGCAGTGTTGTTCTGTTTTAT	0.383													23	15					0	0	1	0	0		C	50130583	C	C	50130583	3	2	153	1	0	0	0	0	1	0	0	0	4478	1725	60	3	1787	3	DGKK	23	50130583	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	76320	50130583	105139977	1725	83657											
KDM5C	8242	broad.mit.edu	37	chrX	53246393	53246393	+	Frame_Shift_Del	DEL	G	-	-																															aggctgcacagactgtcgtaGggggatgctgtggggtttgt																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:53246393delG	uc004drz.2	-	5	1122	c.589delC	c.(589-591)CTAfs	p.L197fs	KDM5C_uc011moc.1_RNA|KDM5C_uc011mod.1_Frame_Shift_Del_p.L130fs|KDM5C_uc004dsa.2_Frame_Shift_Del_p.L196fs	NM_004187	NP_004178	P41229	KDM5C_HUMAN	jumonji, AT rich interactive domain 1C isoform	197					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			kidney(9)|ovary(5)|salivary_gland(1)|autonomic_ganglia(1)|haematopoietic_and_lymphoid_tissue(1)|oesophagus(1)	18						GACTGTCGTAGGGGGATGCTG	0.527			N|F|S		clear cell renal carcinoma								11	8	---	---	---	---						.	-	53246393	-	-	53246393	7	5	153	1	0	1	0	1	0	0	0	0	8151	991	35	0	4279	0	KDM5C	23	53246393	Frame_Shift_Del	DEL	G	TCGA-CG-5723-01A-11D-1600-08	3115810	53246393	102024167	1726	83658											
HUWE1	10075	broad.mit.edu	37	chrX	53586338	53586338	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttggctggtagctgtgctcTgatcatggaaaaagtcatcc	9	12	11	9	0	3	1	2	1	1	0	4	2	4	2	1	3	2	4	1	3	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:53586338T>C	uc004dsp.2	-	57	8294	c.7892A>G	c.(7891-7893)CAG>CGG	p.Q2631R	HUWE1_uc004dsn.2_Missense_Mutation_p.Q1455R|uc004dss.2_5'Flank|MIRLET7F2_hsa-let-7f-2|MI0000068_5'Flank	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	2631					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						AGCTGTGCTCTGATCATGGAA	0.522													26	49					0	0	1	0	0		C	53586338	C	C	53586338	3	2	153	1	0	0	0	0	1	0	0	0	7477	1580	55	3	5344	3	HUWE1	23	53586338	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	339945	53586338	101684222	1727	83659											
WNK3	65267	broad.mit.edu	37	chrX	54228568	54228568	+	Frame_Shift_Del	DEL	T	-	-																															aagtcatctgtgaacatcccTtttttactggctggagactg																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:54228568delT	uc004dtd.1	-	22	5197	c.4758delA	c.(4756-4758)AAAfs	p.K1586fs	WNK3_uc004dtc.1_Frame_Shift_Del_p.K1643fs	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1586					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						TGAACATCCCTTTTTTACTGG	0.393													19	33	---	---	---	---						.	-	54228568	-	-	54228568	7	5	153	1	0	1	0	1	0	0	0	0	17405	1606	56	0	481	0	WNK3	23	54228568	Frame_Shift_Del	DEL	T	TCGA-CG-5723-01A-11D-1600-08	642230	54228568	101041992	1728	83660											
UBQLN2	29978	broad.mit.edu	37	chrX	56591874	56591874	+	Frame_Shift_Del	DEL	C	-	-																															aggacccactggccctgcagCcccccctggctccaccggct																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:56591874delC	uc004dus.2	+	1	1803	c.1568delC	c.(1567-1569)GCCfs	p.A523fs	UBQLN2_uc011moq.1_Intron	NM_013444	NP_038472	Q9UHD9	UBQL2_HUMAN	ubiquilin 2	523	11.|12 X 3 AA tandem repeats of P-X-X.					cytoplasm|nucleus|plasma membrane	binding			ovary(1)|skin(1)	2						GGCCCTGCAGCCCCCCCTGGC	0.642													3	3	---	---	---	---						.	-	56591874	-	-	56591874	7	5	153	1	0	1	0	1	0	0	0	0	16923	739	26	0	1570	0	UBQLN2	23	56591874	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	2363306	56591874	98678686	1729	83661											
SPIN2A	54466	broad.mit.edu	37	chrX	57162586	57162586	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttgagctaagaccatccCcctccattcatccttagaac	10	11	5	15	0	1	3	1	1	0	2	4	3	4	3	5	0	3	2	5	0	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:57162586C>A	uc004dvb.2	-	2	816	c.445G>T	c.(445-447)GGG>TGG	p.G149W		NM_019003	NP_061876	Q99865	SPI2A_HUMAN	spindlin family, member 2	149					cell cycle|gamete generation						0						AAGACCATCCCCCTCCATTCA	0.408													50	71					3.95532e-38	4.30495e-38	1	1	0		A	57162586	A	A	57162586	3	1	153	1	0	0	0	0	1	0	0	0	15078	623	22	5	335	5	SPIN2A	23	57162586	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	570712	57162586	98107974	1730	83662											
HEPH	9843	broad.mit.edu	37	chrX	65413405	65413405	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggcacttactggaaagtgCgatatgaagcctttcaagat	12	10	12	7	1	1	2	1	1	0	1	1	4	1	3	1	3	3	1	1	3	5	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:65413405C>T	uc011moz.1	+	8	1363	c.1303C>T	c.(1303-1305)CGA>TGA	p.R435*	HEPH_uc004dwn.2_Nonsense_Mutation_p.R435*|HEPH_uc004dwo.2_Nonsense_Mutation_p.R165*|HEPH_uc010nkr.2_Nonsense_Mutation_p.R435*|HEPH_uc011mpa.1_Nonsense_Mutation_p.R435*	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	432	Extracellular (Potential).|Plastocyanin-like 3.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						CTGGAAAGTGCGATATGAAGC	0.368													18	22					0	0	1	0	0		T	65413405	T	T	65413405	4	4	153	1	0	0	0	0	0	1	0	0	7070	760	27	1	1486	1	HEPH	23	65413405	Nonsense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	8250819	65413405	89857155	1731	83663											
NHSL2	340527	broad.mit.edu	37	chrX	71359790	71359790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagcaaaactaaggtgagtCggcaccactcagagacaaat	17	5	10	9	1	1	2	1	1	0	1	2	4	1	2	1	2	2	2	1	2	5	1	rs144260909	byFrequency	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:71359790C>T	uc011mqa.1	+	6	2392	c.2392C>T	c.(2392-2394)CGG>TGG	p.R798W	NHSL2_uc004eak.1_Missense_Mutation_p.R432W|NHSL2_uc010nli.2_Missense_Mutation_p.R567W	NM_001013627	NP_001013649	Q5HYW2	NHSL2_HUMAN	NHS-like 2	798											0	Renal(35;0.156)					TAAGGTGAGTCGGCACCACTC	0.498													15	13					0	0	1	0	0		T	71359790	T	T	71359790	3	4	153	1	0	0	0	0	1	0	0	0	10431	875	31	1	2414	1	NHSL2	23	71359790	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	5946385	71359790	83910770	1732	83664											
NAP1L3	4675	broad.mit.edu	37	chrX	92927070	92927070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggtagttgtcacagtaaCatcttttcctcttctccagt	7	16	7	11	0	4	0	1	0	3	0	6	0	5	0	2	1	1	3	2	1	2	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:92927070C>T	uc004efq.2	-	1	1539	c.1234G>A	c.(1234-1236)GTT>ATT	p.V412I	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	412					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						GTCACAGTAACATCTTTTCCT	0.418													8	13					0	0	1	0	0		T	92927070	T	T	92927070	3	4	153	1	0	0	0	0	1	0	0	0	10176	478	17	4	290	4	NAP1L3	23	92927070	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	21567280	92927070	62343490	1733	83665											
CSTF2	1478	broad.mit.edu	37	chrX	100088274	100088274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccgtgcaatggaggcccGtgcgatggaagctcgtgcaa	8	6	16	11	4	0	0	0	0	0	0	1	3	0	2	2	4	4	3	2	4	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:100088274G>A	uc004egh.2	+	11	1371	c.1313G>A	c.(1312-1314)CGT>CAT	p.R438H	CSTF2_uc010nnd.2_Missense_Mutation_p.R458H|CSTF2_uc004egi.2_Missense_Mutation_p.R421H	NM_001325	NP_001316	P33240	CSTF2_HUMAN	cleavage stimulation factor subunit 2	438	6.|12 X 5 AA tandem repeats of M-E-A-R-[AG].				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cleavage body|mRNA cleavage and polyadenylation specificity factor complex	nucleotide binding|protein binding|protein binding|RNA binding			skin(1)	1						ATGGAGGCCCGTGCGATGGAA	0.622													11	9					0	0	1	0	0		A	100088274	A	A	100088274	3	1	153	1	0	0	0	0	1	0	0	0	3987	1145	40	1	1355	1	CSTF2	23	100088274	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	7161204	100088274	55182286	1734	83666											
TRMT2B	79979	broad.mit.edu	37	chrX	100292967	100292967	+	Missense_Mutation	SNP	A	G	G	1	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	atttgggtacagccgttgtcAcactgactccattgagcatt	9	13	9	10	1	1	2	1	2	0	0	2	2	2	2	2	1	3	3	2	1	1	5			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:100292967A>G	uc004egq.2	-	4	676	c.377T>C	c.(376-378)GTG>GCG	p.V126A	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.V126A|TRMT2B_uc004egs.2_Missense_Mutation_p.V126A|TRMT2B_uc004egt.2_Missense_Mutation_p.V126A|TRMT2B_uc004egu.2_Missense_Mutation_p.V7A|TRMT2B_uc004egv.2_Intron	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	126							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						AGCCGTTGTCACACTGACTCC	0.423													122	158					0	0	1	0	0		G	100292967	G	G	100292967	3	3	153	1	0	0	0	0	1	0	0	0	16592	159	6	3	1177	3	TRMT2B	23	100292967	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	204693	100292967	54977593	1735	83667											
ARMCX5	64860	broad.mit.edu	37	chrX	101857120	101857120	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggaaaggctgaggctggCctgcaagatggaatcagtgg	12	6	17	6	0	1	3	1	1	0	2	1	5	1	5	1	6	1	3	1	6	3	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:101857120C>T	uc004ejg.2	+	6	932	c.51C>T	c.(49-51)GGC>GGT	p.G17G	ARMCX5_uc004ejh.2_Silent_p.G17G	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	17							binding			ovary(1)	1						CTGAGGCTGGCCTGCAAGATG	0.527													11	13					0	0	1	0	0		T	101857120	T	T	101857120	2	4	153	1	0	0	0	0	0	0	0	1	963	726	26	2		2	ARMCX5	23	101857120	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1564153	101857120	53413440	1736	83668											
GPRASP1	9737	broad.mit.edu	37	chrX	101909665	101909665	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccaatacctggtctgggcCcagggaagatcccaatagca	13	6	10	12	0	1	1	0	0	1	1	2	2	2	2	4	3	3	1	4	3	6	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:101909665C>A	uc004ejj.3	+	5	1625	c.824C>A	c.(823-825)CCC>CAC	p.P275H	GPRASP1_uc004eji.3_Missense_Mutation_p.P275H|GPRASP1_uc010nod.2_Missense_Mutation_p.P275H	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	275						cytoplasm	protein binding			ovary(1)|lung(1)	2						TGGTCTGGGCCCAGGGAAGAT	0.468													15	158					1.3612e-06	1.40532e-06	1	1	0		A	101909665	A	A	101909665	3	1	153	1	0	0	0	0	1	0	0	0	6738	623	22	5	826	5	GPRASP1	23	101909665	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	52545	101909665	53360895	1737	83669											
TCEAL5	340543	broad.mit.edu	37	chrX	102529176	102529176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacataatcttcagccgggcGcttttcggcggcccgcggct	5	9	12	15	6	2	0	1	0	1	0	3	0	2	0	2	4	1	2	2	4	1	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:102529176G>A	uc004ejz.1	-	3	611	c.316C>T	c.(316-318)CGC>TGC	p.R106C		NM_001012979	NP_001012997	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(1)|breast(1)	2						TCAGCCGGGCGCTTTTCGGCG	0.587													30	26					0	0	1	0	0		A	102529176	A	A	102529176	3	1	153	1	0	0	0	0	1	0	0	0	15699	1087	38	1	308	1	TCEAL5	23	102529176	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	619511	102529176	52741384	1738	83670											
BEX2	84707	broad.mit.edu	37	chrX	102564733	102564733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcaggatgggctgcctaaCgcggaaccgcctacggtttc	7	8	13	13	4	0	0	0	0	0	0	1	2	0	2	3	4	5	3	3	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:102564733C>T	uc004ekb.2	-	3	411	c.172G>A	c.(172-174)GTT>ATT	p.V58I	BEX2_uc004eka.2_Missense_Mutation_p.V87I	NM_032621	NP_116010	Q9BXY8	BEX2_HUMAN	brain expressed X-linked 2	58					apoptosis|cell cycle|regulation of apoptosis|regulation of cell cycle	cytoplasm|nucleus				ovary(1)	1						GGCTGCCTAACGCGGAACCGC	0.498													56	73					0	0	1	0	0		T	102564733	T	T	102564733	3	4	153	1	0	0	0	0	1	0	0	0	1412	536	19	1	218	1	BEX2	23	102564733	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	35557	102564733	52705827	1739	83671											
TEX13A	56157	broad.mit.edu	37	chrX	104463832	104463832	+	Frame_Shift_Del	DEL	C	-	-																															tgatggtctattctgtggggCcccccatcagaccacaggct																								rs1060551	by1000genomes	TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:104463832delC	uc004ema.2	-	5	1156	c.1044delG	c.(1042-1044)GGGfs	p.G348fs	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Frame_Shift_Del_p.G349fs	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	348						intracellular	zinc ion binding			ovary(2)	2						TTCTGTGGGGCCCCCCATCAG	0.567													40	52	---	---	---	---						.	-	104463832	-	-	104463832	7	5	153	1	0	1	0	1	0	0	0	0	15801	739	26	0	189	0	TEX13A	23	104463832	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	1899099	104463832	50806728	1740	83672											
TSC22D3	1831	broad.mit.edu	37	chrX	106957913	106957913	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcttctccaccagctctcGgatctgctccttcaggatct	5	14	7	15	1	6	0	1	0	5	0	9	2	7	2	3	2	2	3	3	2	0	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:106957913G>A	uc004eng.2	-	3	491	c.241C>T	c.(241-243)CGA>TGA	p.R81*	TSC22D3_uc004enf.2_Nonsense_Mutation_p.R24*|TSC22D3_uc004enh.2_Nonsense_Mutation_p.R147*|TSC22D3_uc004eni.2_Nonsense_Mutation_p.R147*|TSC22D3_uc004enj.2_Nonsense_Mutation_p.R147*	NM_004089	NP_004080	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 2	81	Leucine-zipper.						sequence-specific DNA binding transcription factor activity				0						ACCAGCTCTCGGATCTGCTCC	0.522													77	79					0	0	1	0	0		A	106957913	A	A	106957913	4	1	153	1	0	0	0	0	0	1	0	0	16635	1124	39	1	167	1	TSC22D3	23	106957913	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2494081	106957913	48312647	1741	83673											
KCNE1L	23630	broad.mit.edu	37	chrX	108868075	108868075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcaggatgtagagataggCgtcgtcgcccttggcgctgg	7	8	17	9	4	0	1	0	0	0	1	2	4	0	2	1	4	1	3	1	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:108868075C>T	uc004eoh.2	-	1	319	c.175G>A	c.(175-177)GCC>ACC	p.A59T		NM_012282	NP_036414	Q9UJ90	KCE1L_HUMAN	potassium voltage-gated channel, Isk-related	59					regulation of heart contraction	voltage-gated potassium channel complex					0						TAGAGATAGGCGTCGTCGCCC	0.657													11	24					0	0	1	0	0		T	108868075	T	T	108868075	3	4	153	1	0	0	0	0	1	0	0	0	8038	768	27	1	257	1	KCNE1L	23	108868075	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08	1910162	108868075	46402485	1742	83674											
RGAG1	57529	broad.mit.edu	37	chrX	109697380	109697380	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagaagcaaatgaaggggTttttggacgattcagagaga	15	8	15	3	1	1	4	1	1	0	3	1	8	1	5	0	4	1	2	0	4	3	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:109697380T>G	uc004eor.1	+	3	3781	c.3535T>G	c.(3535-3537)TTT>GTT	p.F1179V	RGAG1_uc011msr.1_Missense_Mutation_p.F1179V	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1179										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AATGAAGGGGTTTTTGGACGA	0.507													29	54					0	0	1	0	0		G	109697380	G	G	109697380	3	3	153	1	0	0	0	0	1	0	0	0	13299	1725	60	5	3537	5	RGAG1	23	109697380	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	829305	109697380	45573180	1743	83675											
LUZP4	51213	broad.mit.edu	37	chrX	114540853	114540853	+	Missense_Mutation	SNP	T	A	A	0	1	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	cagcatcaatcagaaggaaaTccggacaaatcagaagaatc	19	5	8	9	1	3	3	3	0	0	3	5	5	4	5	1	2	1	1	1	2	6	0			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:114540853T>A	uc004eqa.2	+	4	460	c.426T>A	c.(424-426)AAT>AAA	p.N142K	LUZP4_uc004eqb.2_Missense_Mutation_p.N60K	NM_016383	NP_057467	Q9P127	LUZP4_HUMAN	leucine zipper protein 4	142						nucleus				ovary(2)	2						CAGAAGGAAATCCGGACAAAT	0.463													37	37					0	0	1	0	0		A	114540853	A	A	114540853	3	1	153	1	0	0	0	0	1	0	0	0	9106	1432	50	5	440	5	LUZP4	23	114540853	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	4843473	114540853	40729707	1744	83676											
KLHL13	90293	broad.mit.edu	37	chrX	117043783	117043783	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgtcatcagtggaaatcGtatgttcttcattaattttg	9	18	9	5	1	4	0	3	0	1	0	5	1	4	1	0	2	0	2	0	2	3	6			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:117043783G>A	uc004eql.2	-	5	909	c.847C>T	c.(847-849)CGA>TGA	p.R283*	KLHL13_uc004eqk.2_Nonsense_Mutation_p.R232*|KLHL13_uc011mtn.1_Nonsense_Mutation_p.R123*|KLHL13_uc011mto.1_Nonsense_Mutation_p.R277*|KLHL13_uc011mtp.1_Nonsense_Mutation_p.R285*|KLHL13_uc004eqm.2_Nonsense_Mutation_p.R232*|KLHL13_uc011mtq.1_Nonsense_Mutation_p.R267*	NM_033495	NP_277030	Q9P2N7	KLH13_HUMAN	kelch-like 13	283	BACK.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex				kidney(1)|skin(1)	2						AGTGGAAATCGTATGTTCTTC	0.438													47	51					0	0	1	0	0		A	117043783	A	A	117043783	4	1	153	1	0	0	0	0	0	1	0	0	8385	1153	40	1	1132	1	KLHL13	23	117043783	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2502930	117043783	38226777	1745	83677											
WDR44	54521	broad.mit.edu	37	chrX	117532356	117532356	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccccttcttacagtaatgaCgcggcacagtcagatgatga	11	10	9	11	2	2	4	1	3	1	1	3	4	3	4	2	1	1	2	2	1	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:117532356C>T	uc004eqn.2	+	8	1622	c.1197C>T	c.(1195-1197)GAC>GAT	p.D399D	WDR44_uc004eqo.2_Silent_p.D399D|WDR44_uc011mtr.1_Silent_p.D374D|WDR44_uc010nqi.2_Silent_p.D109D	NM_019045	NP_061918	Q5JSH3	WDR44_HUMAN	WD repeat domain 44 protein	399						cytosol|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm				lung(2)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	5						ACAGTAATGACGCGGCACAGT	0.353													32	37					0	0	1	0	0		T	117532356	T	T	117532356	2	4	153	1	0	0	0	0	0	0	0	1	17322	535	19	1		1	WDR44	23	117532356	Silent	SNP	C	TCGA-CG-5723-01A-11D-1600-08	488573	117532356	37738204	1746	83678											
UPF3B	65109	broad.mit.edu	37	chrX	118975216	118975217	+	Frame_Shift_Del	DEL	CA	-	-																															tcttctctcttttcttctctCattctctagaaagaaacatc																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:118975216_118975217delCA	uc004erz.1	-	7	706_707	c.629_630delTG	c.(628-630)ATGfs	p.M210fs	UPF3B_uc004esa.1_Frame_Shift_Del_p.M210fs	NM_080632	NP_542199	Q9BZI7	REN3B_HUMAN	UPF3 regulator of nonsense transcripts homolog B	210	Sufficient for association with EJC core.|Necessary for interaction with UPF2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation|termination of RNA polymerase II transcription	cytosol|exon-exon junction complex|nucleoplasm	mRNA binding|nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(2)|kidney(1)	3						tttcttctCTCATTCTCTAGAA	0.183													64	107	---	---	---	---						.	-	118975217	-	-	118975216	7	5	153	1	0	1	0	1	0	0	0	0	17032	826	29	0	841	0	UPF3B	23	118975216	Frame_Shift_Del	DEL	CA	TCGA-CG-5723-01A-11D-1600-08	1442860	118975216	36295344	1747	83679											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299494	125299494	+	Silent	SNP	G	A	A	0	0	1	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	tgggccagcccggcctccttGtcccgcatgagggggatgcg	4	7	16	14	3	0	1	0	1	0	0	2	2	2	2	5	4	2	1	5	4	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:125299494G>A	uc004euk.1	-	1	441	c.414C>T	c.(412-414)GAC>GAT	p.D138D		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	138										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CGGCCTCCTTGTCCCGCATGA	0.652													31	34					0	0	1	0	0		A	125299494	A	A	125299494	2	1	153	1	0	0	0	0	0	0	0	1	4268	1368	48	4		4	DCAF12L2	23	125299494	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	6324278	125299494	29971066	1748	83680											
BCORL1	63035	broad.mit.edu	37	chrX	129190011	129190011	+	Frame_Shift_Del	DEL	C	-	-																															tggaggcttggacgacagatCccccccaggctcctctgaga																								rs137862942		TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:129190011delC	uc004evb.1	+	13	5150	c.5036delC	c.(5035-5037)TCCfs	p.S1679fs	BCORL1_uc004evc.1_Frame_Shift_Del_p.S515fs	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1679					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GACGACAGATCCCCCCCAGGC	0.602													32	40	---	---	---	---						.	-	129190011	-	-	129190011	7	5	153	1	0	1	0	1	0	0	0	0	1388	855	30	0	5308	0	BCORL1	23	129190011	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	3890517	129190011	26080549	1749	83681											
HS6ST2	90161	broad.mit.edu	37	chrX	132091108	132091108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaacacgatcaggtcatcGcccttgatgtcgaagtctac	11	9	10	11	3	3	1	2	1	1	0	5	4	3	2	1	2	2	0	1	2	3	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:132091108G>A	uc011mve.1	-	3	1091	c.675C>T	c.(673-675)GGC>GGT	p.G225G	HS6ST2_uc011mvb.1_Silent_p.G79G|HS6ST2_uc011mvc.1_Silent_p.G79G|HS6ST2_uc011mvd.1_Silent_p.G225G	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	225	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					TCAGGTCATCGCCCTTGATGT	0.627													10	14					0	0	1	0	0		A	132091108	A	A	132091108	2	1	153	1	0	0	0	0	0	0	0	1	7387	1074	38	1		1	HS6ST2	23	132091108	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	2901097	132091108	23179452	1750	83682											
RBMX	27316	broad.mit.edu	37	chrX	135956553	135956553	+	Missense_Mutation	SNP	A	T	T	1	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	ctgctgtaatcatcatagcgActgcttccaccataagatgg	11	11	8	11	1	2	1	2	0	0	1	3	2	3	1	2	1	3	3	2	1	3	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:135956553A>T	uc004fae.1	-	9	1134	c.924T>A	c.(922-924)AGT>AGA	p.S308R	RBMX_uc004fac.1_5'Flank|RBMX_uc011mwf.1_Intron|RBMX_uc004fad.1_3'UTR|RBMX_uc011mwg.1_Missense_Mutation_p.S269R|RBMX_uc004faf.1_Missense_Mutation_p.S169R|RBMX_uc010nsf.1_Missense_Mutation_p.S269R|RBMX_uc004fag.1_Missense_Mutation_p.S180R	NM_002139	NP_002130	P38159	HNRPG_HUMAN	RNA binding motif protein, X-linked isoform 1	308						catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CATCATAGCGACTGCTTCCAC	0.507													38	67					0	0	1	0	0		T	135956553	T	T	135956553	3	4	153	1	0	0	0	0	1	0	0	0	13176	272	10	5	310	5	RBMX	23	135956553	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	3865445	135956553	19314007	1751	83683											
FGF13	2258	broad.mit.edu	37	chrX	137717759	137717759	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtatatcattgatgaatatgTcacataataattttcaaaca	17	15	4	5	0	3	2	3	2	0	0	3	2	3	2	0	0	1	1	0	0	7	8			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:137717759T>C	uc004fam.2	-	4	1122	c.460A>G	c.(460-462)ACA>GCA	p.T154A	FGF13_uc004fan.2_Missense_Mutation_p.T101A|FGF13_uc011mwi.1_Missense_Mutation_p.T135A|FGF13_uc004faq.2_Missense_Mutation_p.T164A|FGF13_uc004far.2_Missense_Mutation_p.T135A|FGF13_uc011mwj.1_Missense_Mutation_p.T164A|FGF13_uc011mwk.1_Missense_Mutation_p.T108A	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	154					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					GATGAATATGTCACATAATAA	0.378													45	61					0	0	1	0	0		C	137717759	C	C	137717759	3	2	153	1	0	0	0	0	1	0	0	0	5856	1667	58	3	285	3	FGF13	23	137717759	Missense_Mutation	SNP	T	TCGA-CG-5723-01A-11D-1600-08	1761206	137717759	17552801	1752	83684											
FMR1	2332	broad.mit.edu	37	chrX	147019098	147019098	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacccatttttctcaaccTaacagtacaaaagtccagag	15	9	5	12	0	1	1	1	0	1	1	3	1	2	1	3	0	4	2	3	0	5	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:147019098T>C	uc010nst.2	+	11	1293	c.1104T>C	c.(1102-1104)CCT>CCC	p.P368P	FMR1_uc004fcj.2_Silent_p.P366P|FMR1_uc004fck.3_Silent_p.P368P|FMR1_uc004fcl.3_Silent_p.P229P|FMR1_uc011mxa.1_Silent_p.P36P	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	368					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					tttctcaacctaacagtacaa	0.204									Fragile_X_syndrome				50	76					0	0	1	0	0		C	147019098	C	C	147019098	2	2	153	1	0	0	0	0	0	0	0	1	5974	1509	53	3		3	FMR1	23	147019098	Silent	SNP	T	TCGA-CG-5723-01A-11D-1600-08	9301339	147019098	8251462	1753	83685											
PASD1	139135	broad.mit.edu	37	chrX	150842425	150842425	+	Frame_Shift_Del	DEL	C	-	-																															atcctgaggcgtatcaagggCcccccgtgaaccagctgcca																										TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:150842425delC	uc004fev.3	+	15	2274	c.1942delC	c.(1942-1944)CCCfs	p.P648fs		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	648						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTATCAAGGGCCCCCCGTGAA	0.458													52	93	---	---	---	---						.	-	150842425	-	-	150842425	7	5	153	1	0	1	0	1	0	0	0	0	11490	739	26	0	1996	0	PASD1	23	150842425	Frame_Shift_Del	DEL	C	TCGA-CG-5723-01A-11D-1600-08	3823327	150842425	4428135	1754	83686											
PRRG3	79057	broad.mit.edu	37	chrX	150869231	150869231	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtaccggggtactgtgcataGccaaggggagccttctgggc	7	8	16	10	1	1	0	0	0	1	0	1	1	1	1	3	5	5	3	3	5	4	4			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:150869231G>A	uc004few.1	+	4	812	c.422G>A	c.(421-423)AGC>AAC	p.S141N		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	141	Cytoplasmic (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					ACTGTGCATAGCCAAGGGGAG	0.687													30	35					0	0	1	0	0		A	150869231	A	A	150869231	3	1	153	1	0	0	0	0	1	0	0	0	12629	971	34	2	432	2	PRRG3	23	150869231	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	26806	150869231	4401329	1755	83687											
ZNF185	7739	broad.mit.edu	37	chrX	152135749	152135749	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcattcgccatggagaagaAgcctccatgtggcagcactc	10	8	10	13	1	1	2	1	0	0	2	4	3	2	2	3	2	2	2	3	2	2	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:152135749A>C	uc010ntv.1	+	20	1872	c.1835A>C	c.(1834-1836)AAG>ACG	p.K612T	ZNF185_uc011myg.1_Missense_Mutation_p.K644T|ZNF185_uc011myh.1_Missense_Mutation_p.K615T|ZNF185_uc011myi.1_Missense_Mutation_p.K583T|ZNF185_uc011myj.1_Missense_Mutation_p.K553T|ZNF185_uc011myk.1_Missense_Mutation_p.K613T|ZNF185_uc004fgw.3_Missense_Mutation_p.K391T|ZNF185_uc004fgu.2_Missense_Mutation_p.K241T|ZNF185_uc004fgv.2_Missense_Mutation_p.K309T|ZNF185_uc004fgx.2_Missense_Mutation_p.K250T	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	612						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					ATGGAGAAGAAGCCTCCATGT	0.502													24	25					0	0	1	0	0		C	152135749	C	C	152135749	3	2	153	1	0	0	0	0	1	0	0	0	17777	72	3	5	2157	5	ZNF185	23	152135749	Missense_Mutation	SNP	A	TCGA-CG-5723-01A-11D-1600-08	1266518	152135749	3134811	1756	83688											
RENBP	5973	broad.mit.edu	37	chrX	153209078	153209078	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcactgaagatggttcgctGcaccttgaccgggcggccgt	6	9	13	13	4	1	3	1	2	0	1	2	3	1	3	3	3	1	3	3	3	1	2			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:153209078G>A	uc004fjo.1	-	5	552	c.382C>T	c.(382-384)CAG>TAG	p.Q128*	RENBP_uc011mzh.1_Nonsense_Mutation_p.Q128*	NM_002910	NP_002901	P51606	RENBP_HUMAN	renin binding protein	128					mannose metabolic process|regulation of blood pressure		endopeptidase inhibitor activity|mannose-6-phosphate isomerase activity|N-acylglucosamine 2-epimerase activity			ovary(1)|pancreas(1)	2	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)	ATGGTTCGCTGCACCTTGACC	0.607													12	47					0	0	1	0	0		A	153209078	A	A	153209078	4	1	153	1	0	0	0	0	0	1	0	0	13250	1328	46	2	929	2	RENBP	23	153209078	Nonsense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	1073329	153209078	2061482	1757	83689											
HCFC1	3054	broad.mit.edu	37	chrX	153218045	153218045	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtggctgcggcctgggcaGctgcttctgcagcagccgtc	3	8	15	15	3	1	0	0	0	1	0	2	0	1	0	3	3	6	6	3	3	0	1			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:153218045G>T	uc004fjp.2	-	19	5390	c.4862C>A	c.(4861-4863)GCT>GAT	p.A1621D		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1621					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	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)					GGCCTGGGCAGCTGCTTCTGC	0.697													4	5					0.00198382	0.00201596	1	1	0		T	153218045	T	T	153218045	3	4	153	1	0	0	0	0	1	0	0	0	7007	971	34	5	1277	5	HCFC1	23	153218045	Missense_Mutation	SNP	G	TCGA-CG-5723-01A-11D-1600-08	8967	153218045	2052515	1758	83690											
FLNA	2316	broad.mit.edu	37	chrX	153591075	153591075	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgaagtaggtgggctcgtgGgccttgagccctgtcttggc	4	11	17	9	1	1	2	0	2	1	0	2	2	1	2	2	4	1	2	2	4	2	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrX:153591075G>A	uc004fkk.2	-	16	2607	c.2358C>T	c.(2356-2358)GCC>GCT	p.A786A	FLNA_uc010nuu.1_Silent_p.A786A	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	786	Filamin 6.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGGGCTCGTGGGCCTTGAGCC	0.662													10	9					0	0	1	0	0		A	153591075	A	A	153591075	2	1	153	1	0	0	0	0	0	0	0	1	5947	1219	43	4		4	FLNA	23	153591075	Silent	SNP	G	TCGA-CG-5723-01A-11D-1600-08	373030	153591075	1679485	1759	83691											
EIF1AY	9086	broad.mit.edu	37	chrY	22741514	22741514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtaaaggaggtaaaaacaggCgcaggggtaaaaatgagaat	19	5	14	3	1	0	1	0	1	0	1	0	3	0	2	0	5	1	4	0	5	9	3			TCGA-CG-5723-01A-11D-1600-08	TCGA-CG-5723-11A-02D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	ffb4f42b-58e9-40c3-8963-11804f041375	e4834ec5-3085-4675-8d63-23f546b30799	g.chrY:22741514C>T	uc004fuk.2	+	2	184	c.37C>T	c.(37-39)CGC>TGC	p.R13C	EIF1AY_uc004ful.2_RNA	NM_004681	NP_004672	O14602	IF1AY_HUMAN	eukaryotic translation initiation factor 1A, Y	13						cytoplasm	protein binding|translation initiation factor activity				0						TAAAAACAGGCGCAGGGGTAA	0.274													3	5					0	0	1	0	0		T	22741514	T	T	22741514	3	4	153	1	0	0	0	0	1	0	0	0	4999	768	27	1	43	1	EIF1AY	24	22741514	Missense_Mutation	SNP	C	TCGA-CG-5723-01A-11D-1600-08		22741514	36632052	1760	83692											
SLC6A9	6536	broad.mit.edu	37	chr1	44467189	44467189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagggccgtggtctgccacaCgggacacatccacgcccagg	8	4	13	16	3	1	0	0	0	1	0	2	1	2	1	4	4	1	0	4	4	0	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:44467189C>T	uc001cll.2	-	9	1484	c.1292G>A	c.(1291-1293)CGT>CAT	p.R431H	SLC6A9_uc009vxe.2_Missense_Mutation_p.R287H|SLC6A9_uc010okm.1_Missense_Mutation_p.R358H|SLC6A9_uc001clm.2_Missense_Mutation_p.R377H|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.R362H|SLC6A9_uc001cln.2_Missense_Mutation_p.R358H|SLC6A9_uc010oko.1_Missense_Mutation_p.R247H|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	431						integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	GTCTGCCACACGGGACACATC	0.592													38	48					0	0	0.074837	0	0		T	44467189	T	T	44467189	3	4	154	1	0	0	0	0	1	0	0	0	14716	536	19	1	852	1	SLC6A9	1	44467189	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08		44467189	204783432	1	83693											
NRD1	4898	broad.mit.edu	37	chr1	52260202	52260202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttcagagctttcactttgCatagatggtggccactgggc	7	13	12	9	0	2	2	2	0	0	2	2	2	2	2	1	3	2	3	1	3	1	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:52260202C>T	uc001ctc.3	-	26	3243	c.2921G>A	c.(2920-2922)TGC>TAC	p.C974Y	NRD1_uc009vzb.2_Missense_Mutation_p.C669Y|NRD1_uc001ctd.3_Missense_Mutation_p.C906Y|NRD1_uc001cte.2_Missense_Mutation_p.C842Y|NRD1_uc001ctf.2_Missense_Mutation_p.C906Y|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	905					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						TTTCACTTTGCATAGATGGTG	0.517													207	142					0	0	0.048971	0	0		T	52260202	T	T	52260202	3	4	154	1	0	0	0	0	1	0	0	0	10664	710	25	2	770	2	NRD1	1	52260202	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	7793013	52260202	196990419	2	83694											
MAGI3	260425	broad.mit.edu	37	chr1	114201842	114201842	+	Missense_Mutation	SNP	A	G	G	1	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	ataacattgttcagctgatcAaagatgctggtgtcaccgtc	11	12	9	9	1	3	2	3	1	0	1	4	2	3	2	1	1	3	3	1	1	2	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:114201842A>G	uc001edk.2	+	16	2951	c.2770A>G	c.(2770-2772)AAA>GAA	p.K924E	MAGI3_uc001edh.3_Missense_Mutation_p.K949E|MAGI3_uc001edi.3_Missense_Mutation_p.K924E|MAGI3_uc010owm.1_Missense_Mutation_p.K949E|MAGI3_uc001edj.2_Missense_Mutation_p.K645E	NM_001142782	NP_001136254	Q5TCQ9	MAGI3_HUMAN	membrane-associated guanylate kinase-related  3	949	Interaction with LPAR2 and GRIN2B.|PDZ 5.				apoptosis|interspecies interaction between organisms|intracellular signal transduction	nucleus|tight junction	ATP binding|guanylate kinase activity|protein binding			lung(3)|ovary(2)|central_nervous_system(1)	6	Lung SC(450;0.184)	all_cancers(81;2.34e-09)|all_epithelial(167;7.41e-09)|all_lung(203;7.13e-06)|Lung NSC(69;1.2e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCAGCTGATCAAAGATGCTGG	0.498													24	77					0	0	0.099896	0	0		G	114201842	G	G	114201842	3	3	154	1	0	0	0	0	1	0	0	0	9210	131	5	3	2832	3	MAGI3	1	114201842	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	61941640	114201842	135048779	3	83695											
SETDB1	9869	broad.mit.edu	37	chr1	150936523	150936523	+	Missense_Mutation	SNP	A	G	G	1	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	tgtcttcgtggatacccatgAtcttcgcttcccctgggtgg	4	14	11	12	2	2	1	0	1	2	0	5	2	3	2	3	3	1	1	3	3	1	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:150936523A>G	uc001evu.2	+	21	3912	c.3722A>G	c.(3721-3723)GAT>GGT	p.D1241G	SETDB1_uc001evv.2_Missense_Mutation_p.D1241G	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	1241	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	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)			GATACCCATGATCTTCGCTTC	0.522													21	46					0	0	0.069288	0	0		G	150936523	G	G	150936523	3	3	154	1	0	0	0	0	1	0	0	0	14163	333	12	3	3800	3	SETDB1	1	150936523	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	36734681	150936523	98314098	4	83696											
ASPM	259266	broad.mit.edu	37	chr1	197059184	197059184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cactctgggccatgttctcaCaacaaagtggagacaatcta	13	9	8	11	0	3	1	1	0	3	1	4	2	3	1	1	2	1	1	1	2	4	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:197059184C>T	uc001gtu.2	-	25	10117	c.9860G>A	c.(9859-9861)TGT>TAT	p.C3287Y	ASPM_uc001gtv.2_Missense_Mutation_p.C1702Y|ASPM_uc001gtw.3_Missense_Mutation_p.C1135Y	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3287					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						CATGTTCTCACAACAAAGTGG	0.353													75	53					0	0	0.048971	0	0		T	197059184	T	T	197059184	3	4	154	1	0	0	0	0	1	0	0	0	1057	478	17	4	589	4	ASPM	1	197059184	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	46122661	197059184	52191437	5	83697											
PFKFB2	5208	broad.mit.edu	37	chr1	207243623	207243623	+	Splice_Site	SNP	A	C	C	1	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	cctgccccatttccctccacAgtcataccaggacctggtgc	7	9	7	18	0	1	0	1	0	0	0	3	1	3	1	7	2	3	0	7	2	1	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:207243623A>C	uc001hfg.2	+	12	1202	c.1093_splice	c.e12-2	p.S365_splice	PFKFB2_uc010psc.1_Splice_Site_p.S267_splice|PFKFB2_uc001hfh.2_Splice_Site_p.S365_splice|PFKFB2_uc009xcc.2_Splice_Site_p.S323_splice|PFKFB2_uc010psd.1_Splice_Site_p.S179_splice	NM_006212	NP_006203	O60825	F262_HUMAN	6-phosphofructo-2-kinase/fructose-2,						fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			ovary(1)	1	Prostate(682;0.19)					TTCCCTCCACAGTCATACCAG	0.607													13	6					0	0	0.062417	0	0		C	207243623	C	C	207243623	5	2	154	1	0	0	0	0	0	0	1	0	11780	202	7	5	1133	5	PFKFB2	1	207243623	Splice_Site	SNP	A	TCGA-CG-5724-01A-11D-1600-08	10184439	207243623	42006998	6	83698											
RPS6KC1	26750	broad.mit.edu	37	chr1	213415558	213415558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagatgggcagctgaaatGgtggtagcccttgatgcttt	10	11	13	7	0	0	3	0	2	0	1	0	3	0	3	1	3	3	4	1	3	3	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:213415558G>A	uc010ptr.1	+	11	2898	c.2739G>A	c.(2737-2739)ATG>ATA	p.M913I	RPS6KC1_uc001hkd.2_Missense_Mutation_p.M901I|RPS6KC1_uc010pts.1_Missense_Mutation_p.M701I|RPS6KC1_uc010ptt.1_Missense_Mutation_p.M701I|RPS6KC1_uc010ptu.1_Missense_Mutation_p.M732I|RPS6KC1_uc010ptv.1_Missense_Mutation_p.M448I|RPS6KC1_uc001hke.2_Missense_Mutation_p.M732I	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	913	Protein kinase 2.				cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		CAGCTGAAATGGTGGTAGCCC	0.418													107	67					0	0	0.048971	0	0		A	213415558	A	A	213415558	3	1	154	1	0	0	0	0	1	0	0	0	13683	1348	47	4	2781	4	RPS6KC1	1	213415558	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	6171935	213415558	35835063	7	83699											
VN1R5	317705	broad.mit.edu	37	chr1	247419489	247419489	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttctaagatgatcaaacTtcctggttttattaccatat	11	17	4	9	0	2	2	1	1	1	1	4	2	4	2	3	1	2	1	3	1	5	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr1:247419489T>G	uc010pyu.1	+	1	116	c.116T>G	c.(115-117)CTT>CGT	p.L39R		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	39	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)	OV - Ovarian serous cystadenocarcinoma(106;0.00854)			ATGATCAAACTTCCTGGTTTT	0.338													4	181					0	0	0.009096	0	0		G	247419489	G	G	247419489	3	3	154	1	0	0	0	0	1	0	0	0	17207	1609	56	5	118	5	VN1R5	1	247419489	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	34003931	247419489	1831132	8	83700											
TPO	7173	broad.mit.edu	37	chr2	1488506	1488506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacagccgccttccgcttcGgccatgccacgatccacccg	6	6	8	21	5	0	0	0	0	0	0	3	1	2	0	8	1	2	1	8	1	0	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:1488506G>A	uc002qww.2	+	9	1568	c.1477G>A	c.(1477-1479)GGC>AGC	p.G493S	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.G493S|TPO_uc002qwr.2_Missense_Mutation_p.G493S|TPO_uc002qwx.2_Missense_Mutation_p.G493S|TPO_uc010yio.1_Missense_Mutation_p.G320S|TPO_uc010yip.1_Missense_Mutation_p.G493S|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	493	Extracellular (Potential).		G -> S (in TDH2A).		cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	CTTCCGCTTCGGCCATGCCAC	0.652													42	21					0	0	0.048971	0	0		A	1488506	A	A	1488506	3	1	154	1	0	0	0	0	1	0	0	0	16436	1116	39	1	1507	1	TPO	2	1488506	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		1488506	241710867	9	83701											
APOB	338	broad.mit.edu	37	chr2	21229171	21229171	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgaagaccgtgtgctcttGgaattcaagtaagtgttggc	10	12	12	7	1	2	2	1	1	1	1	2	3	2	3	1	2	1	3	1	2	4	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:21229171G>C	uc002red.2	-	26	10697	c.10569C>G	c.(10567-10569)TCC>TCG	p.S3523S		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3523					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GTGTGCTCTTGGAATTCAAGT	0.433													67	218					0	0	0.048971	0	0		C	21229171	C	C	21229171	2	2	154	1	0	0	0	0	0	0	0	1	785	1335	47	5		5	APOB	2	21229171	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	19740665	21229171	221970202	10	83702											
ADD2	119	broad.mit.edu	37	chr2	70933534	70933534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctcggggaccgtctcttCgctcattttcccggtgggtt	3	13	12	13	4	2	0	1	0	1	0	6	1	3	1	3	4	1	2	3	4	0	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:70933534C>T	uc002sgz.2	-	3	472	c.7G>A	c.(7-9)GAA>AAA	p.E3K	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Missense_Mutation_p.E3K|ADD2_uc002sha.2_Missense_Mutation_p.E3K|ADD2_uc002sgx.2_Missense_Mutation_p.E3K|ADD2_uc010fdt.1_Missense_Mutation_p.E3K|ADD2_uc002shc.1_Missense_Mutation_p.E3K|ADD2_uc002shd.1_Missense_Mutation_p.E3K|ADD2_uc010fdu.1_Missense_Mutation_p.E19K	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	3					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						ACCGTCTCTTCGCTCATTTTC	0.617													31	17					0	0	0.080422	0	0		T	70933534	T	T	70933534	3	4	154	1	0	0	0	0	1	0	0	0	305	893	31	1	2410	1	ADD2	2	70933534	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	49704363	70933534	172265839	11	83703											
C2orf65	130951	broad.mit.edu	37	chr2	74867167	74867167	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatagatatacttaccacaAaagggaggatgcactcatgc	16	9	8	8	0	1	1	1	0	0	1	1	3	1	3	1	2	4	1	1	2	7	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:74867167A>G	uc002smy.2	-	2	353	c.236T>C	c.(235-237)TTT>TCT	p.F79S	C2orf65_uc010ysa.1_Missense_Mutation_p.F79S|C2orf65_uc002smz.2_Missense_Mutation_p.F79S	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	79					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						ACTTACCACAAAAGGGAGGAT	0.274													64	61					0	0	0.048971	0	0		G	74867167	G	G	74867167	3	3	154	1	0	0	0	0	1	0	0	0	2187	14	1	3	1396	3	C2orf65	2	74867167	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	3933633	74867167	168332206	12	83704											
LRP1B	53353	broad.mit.edu	37	chr2	141625236	141625236	+	Missense_Mutation	SNP	T	G	G	0	1	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	tctgaatcacactgacattcTgccctgtccacttattggct	8	14	6	13	0	3	2	1	2	2	0	4	2	4	2	2	1	1	1	2	1	2	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:141625236T>G	uc002tvj.1	-	27	5474	c.4502A>C	c.(4501-4503)CAG>CCG	p.Q1501P	LRP1B_uc010fnl.1_Missense_Mutation_p.Q683P	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1501	Extracellular (Potential).|LDL-receptor class B 13.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ACTGACATTCTGCCCTGTCCA	0.478										TSP Lung(27;0.18)			85	73					0	0	0.048971	0	0		G	141625236	G	G	141625236	3	3	154	1	0	0	0	0	1	0	0	0	8973	1580	55	5	9557	5	LRP1B	2	141625236	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	66758069	141625236	101574137	13	83705											
BAZ2B	29994	broad.mit.edu	37	chr2	160176909	160176909	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagcctgacatctagagcaAaggtttcaaggtttggatac	13	10	10	8	0	2	2	1	1	1	1	2	3	2	3	1	3	3	3	1	3	5	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:160176909A>G	uc002uao.2	-	37	6726	c.6374T>C	c.(6373-6375)TTT>TCT	p.F2125S	BAZ2B_uc002uap.2_Missense_Mutation_p.F2089S	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	2125	Bromo.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						ATCTAGAGCAAAGGTTTCAAG	0.338													39	28					0	0	0.09836	0	0		G	160176909	G	G	160176909	3	3	154	1	0	0	0	0	1	0	0	0	1333	14	1	3	136	3	BAZ2B	2	160176909	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	18551673	160176909	83022464	14	83706											
CALCRL	10203	broad.mit.edu	37	chr2	188210976	188210976	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggatgctttttccatttaAgtgttcactaggacagtcat	10	16	8	7	0	2	0	2	0	0	0	3	2	3	2	1	2	1	2	1	2	2	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:188210976A>C	uc002upv.3	-	15	1869	c.1321T>G	c.(1321-1323)TTA>GTA	p.L441V	CALCRL_uc010frt.2_Missense_Mutation_p.L441V	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	441	Cytoplasmic (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			TTTCCATTTAAGTGTTCACTA	0.358													43	35					0	0	0.11126	0	0		C	188210976	C	C	188210976	3	2	154	1	0	0	0	0	1	0	0	0	2583	69	3	5	68	5	CALCRL	2	188210976	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	28034067	188210976	54988397	15	83707											
IQCA1	79781	broad.mit.edu	37	chr2	237405873	237405873	+	Missense_Mutation	SNP	A	T	T	1	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	ccgtgagttccagctccaccAtctcgttcttcagctccagg	6	11	8	16	2	3	1	1	1	2	0	7	1	6	1	5	1	2	4	5	1	0	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:237405873A>T	uc002vvz.1	-	2	451	c.269T>A	c.(268-270)ATG>AAG	p.M90K	IQCA1_uc002vwb.2_Missense_Mutation_p.M97K|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Missense_Mutation_p.M90K	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	90							ATP binding			ovary(1)	1						CAGCTCCACCATCTCGTTCTT	0.507													16	19					0	0	0.024245	0	0		T	237405873	T	T	237405873	3	4	154	1	0	0	0	0	1	0	0	0	7818	217	8	5	2271	5	IQCA1	2	237405873	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	49194897	237405873	5793500	16	83708											
MLPH	79083	broad.mit.edu	37	chr2	238449573	238449573	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagagtggcagtgacggcCtcagaagtccagcaggcaga	12	4	15	10	1	1	4	1	1	0	3	2	5	2	4	2	3	1	3	2	3	1	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr2:238449573C>G	uc002vwt.2	+	11	1646	c.1419C>G	c.(1417-1419)GCC>GCG	p.A473A	MLPH_uc002vws.2_Silent_p.A330A|MLPH_uc010fyt.1_Silent_p.A445A|MLPH_uc002vwu.2_Silent_p.A445A|MLPH_uc002vwv.2_Intron|MLPH_uc002vww.2_Intron|MLPH_uc002vwx.2_Silent_p.A329A|MLPH_uc010fyu.2_Silent_p.A225A	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	473	Potential.						metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		CAGTGACGGCCTCAGAAGTCC	0.592													15	4					0	0	0.028581	0	0		G	238449573	G	G	238449573	2	3	154	1	0	0	0	0	0	0	0	1	9651	668	24	5		5	MLPH	2	238449573	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	1043700	238449573	4749800	17	83709											
HACL1	26061	broad.mit.edu	37	chr3	15613246	15613246	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	cttgctctctggaggatactGccatggtgttttatcaagtt	7	16	10	8	0	2	0	1	0	1	0	3	2	2	2	1	3	3	3	1	3	3	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:15613246G>A	uc003caf.2	-	12	1184	c.1024C>T	c.(1024-1026)CAG>TAG	p.Q342*	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Nonsense_Mutation_p.Q315*|HACL1_uc011avt.1_Intron|HACL1_uc003cag.2_5'UTR|HACL1_uc011avu.1_Nonsense_Mutation_p.Q260*|HACL1_uc010hep.2_Nonsense_Mutation_p.Q101*	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	342					fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						GGAGGATACTGCCATGGTGTT	0.343													32	208					0	0	0.050027	0	0		A	15613246	A	A	15613246	4	1	154	1	0	0	0	0	0	1	0	0	6957	1328	46	2	736	2	HACL1	3	15613246	Nonsense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		15613246	182409184	18	83710											
NEK10	152110	broad.mit.edu	37	chr3	27216205	27216205	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcacaggccctgtcttcGtctttaccataggaggcctg	6	12	10	13	2	3	0	1	0	2	0	5	1	3	1	3	3	1	0	3	3	2	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:27216205G>A	uc010hfk.2	-	6	790	c.561C>T	c.(559-561)GAC>GAT	p.D187D	NEK10_uc003cds.1_Silent_p.D272D|NEK10_uc010hfj.2_Silent_p.D187D			Q6ZWH5	NEK10_HUMAN	RecName: Full=Serine/threonine-protein kinase Nek10;          EC=2.7.11.1; AltName: Full=NimA-related protein kinase 10;	875							ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						CCCTGTCTTCGTCTTTACCAT	0.512													79	159					0	0	0.048971	0	0		A	27216205	A	A	27216205	2	1	154	1	0	0	0	0	0	0	0	1	10341	1160	40	1		1	NEK10	3	27216205	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	11602959	27216205	170806225	19	83711											
KBTBD5	131377	broad.mit.edu	37	chr3	42733380	42733380	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctcatccccaggtataaCgaggaggagaagaaatggga	14	7	12	8	1	2	2	1	0	1	2	4	6	3	4	2	4	1	1	2	4	4	2	rs142843476	by1000genomes	TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:42733380C>T	uc003clv.1	+	6	1861	c.1761C>T	c.(1759-1761)AAC>AAT	p.N587N		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	587	Kelch 5.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		CCAGGTATAACGAGGAGGAGA	0.582													28	64					0	0	0.099896	0	0		T	42733380	T	T	42733380	2	4	154	1	0	0	0	0	0	0	0	1	8012	535	19	1		1	KBTBD5	3	42733380	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	15517175	42733380	155289050	20	83712											
DRD3	1814	broad.mit.edu	37	chr3	113890790	113890790	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tggcacctgtggagttctctGccccacaggtgtagttcagg	6	11	13	11	0	2	0	1	0	1	0	3	1	2	1	3	4	1	4	3	4	1	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:113890790G>A	uc003ebd.2	-	3	473	c.50C>T	c.(49-51)GCA>GTA	p.A17V	DRD3_uc010hqn.1_Missense_Mutation_p.A17V|DRD3_uc003ebb.1_Missense_Mutation_p.A17V|DRD3_uc003ebc.1_Missense_Mutation_p.A17V	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	17	Extracellular (Probable).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|arachidonic acid secretion|behavioral response to cocaine|cellular calcium ion homeostasis|circadian regulation of gene expression|G-protein coupled receptor internalization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|locomotory behavior|musculoskeletal movement, spinal reflex action|negative regulation of blood pressure|negative regulation of oligodendrocyte differentiation|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|positive regulation of dopamine receptor signaling pathway|positive regulation of mitosis|prepulse inhibition|regulation of dopamine secretion|response to drug|response to histamine|response to morphine|social behavior|visual learning	integral to plasma membrane	dopamine D3 receptor activity|drug binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4					Apomorphine(DB00714)|Chlorprothixene(DB01239)|Cocaine(DB00907)|Methotrimeprazine(DB01403)|Olanzapine(DB00334)|Pramipexole(DB00413)|Ropinirole(DB00268)|Ziprasidone(DB00246)	GGAGTTCTCTGCCCCACAGGT	0.617													4	2					0	0	0.014758	0	0		A	113890790	A	A	113890790	3	1	154	1	0	0	0	0	1	0	0	0	4764	1319	46	2	1176	2	DRD3	3	113890790	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	71157410	113890790	84131640	21	83713											
HSPBAP1	79663	broad.mit.edu	37	chr3	122478133	122478133	+	Silent	SNP	T	C	C	0	1	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	agatgacagggtgtgtgggcTcccaaggagccaatccacaa	12	6	13	10	0	0	2	0	1	0	1	2	3	2	3	3	3	1	1	3	3	3	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:122478133T>C	uc003efu.1	-	4	630	c.507A>G	c.(505-507)GGA>GGG	p.G169G	HSPBAP1_uc003efv.1_Silent_p.G169G	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	169	JmjC.|Interaction with HSPB1 (By similarity).					cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		GTGTGTGGGCTCCCAAGGAGC	0.373													8	106					0	0	0.038147	0	0		C	122478133	C	C	122478133	2	2	154	1	0	0	0	0	0	0	0	1	7441	1538	54	3		3	HSPBAP1	3	122478133	Silent	SNP	T	TCGA-CG-5724-01A-11D-1600-08	8587343	122478133	75544297	22	83714											
TMEM108	66000	broad.mit.edu	37	chr3	133099271	133099271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctaccctcacccccaggaCcccactctggggctactcct	6	8	6	21	0	3	0	1	0	2	0	4	1	4	1	6	3	2	1	6	3	2	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:133099271C>T	uc003eph.2	+	4	990	c.716C>T	c.(715-717)ACC>ATC	p.T239I	TMEM108_uc003epi.2_Missense_Mutation_p.T239I|TMEM108_uc003epj.1_Missense_Mutation_p.T239I|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Missense_Mutation_p.T190I	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	239	Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						ACCCCCAGGACCCCACTCTGG	0.627													22	40					0	0	0.055883	0	0		T	133099271	T	T	133099271	3	4	154	1	0	0	0	0	1	0	0	0	16049	507	18	4	722	4	TMEM108	3	133099271	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	10621138	133099271	64923159	23	83715											
P2RY12	64805	broad.mit.edu	37	chr3	151056447	151056447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaaatgactgtgttcttaaGaaaaataataaagtttgatt	18	14	7	2	0	1	4	0	2	1	2	1	4	1	4	0	0	0	2	0	0	7	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:151056447G>A	uc003eyw.1	-	2	403	c.187C>T	c.(187-189)CTT>TTT	p.L63F	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_Missense_Mutation_p.L63F|P2RY12_uc003eyx.1_Missense_Mutation_p.L63F	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	63	Helical; Name=2; (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	GTGTTCTTAAGAAAAATAATA	0.368													74	30					0	0	0.048971	0	0		A	151056447	A	A	151056447	3	1	154	1	0	0	0	0	1	0	0	0	11368	942	33	4	845	4	P2RY12	3	151056447	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	17957176	151056447	46965983	24	83716											
ZMAT3	64393	broad.mit.edu	37	chr3	178785396	178785396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgataactcttcttcccCtgcaagaggcaaggaagcct	10	10	8	13	1	2	1	0	0	2	1	4	3	3	2	3	2	3	2	3	2	4	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr3:178785396C>T	uc003fjg.2	-	2	404	c.145G>A	c.(145-147)GGG>AGG	p.G49R	ZMAT3_uc010hxa.2_Missense_Mutation_p.G49R|ZMAT3_uc003fji.2_Missense_Mutation_p.G49R	NM_022470	NP_071915	Q9HA38	ZMAT3_HUMAN	p53 target zinc finger protein isoform 1	49					apoptosis|protein transport|regulation of growth|response to DNA damage stimulus|transmembrane transport	nucleolus	RNA binding|zinc ion binding			ovary(2)	2	all_cancers(143;3.31e-18)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;6.74e-27)|GBM - Glioblastoma multiforme(14;0.00448)|BRCA - Breast invasive adenocarcinoma(182;0.0527)			TCTTCTTCCCCTGCAAGAGGC	0.557													121	62					0	0	0.048971	0	0		T	178785396	T	T	178785396	3	4	154	1	0	0	0	0	1	0	0	0	17718	681	24	4	744	4	ZMAT3	3	178785396	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	27728949	178785396	19237034	25	83717											
RGS12	6002	broad.mit.edu	37	chr4	3317869	3317869	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	gctccaagggaacaatgagaCgtgctcttggtcttggaagc	10	9	13	9	1	2	1	0	1	2	1	3	4	3	3	1	3	3	2	1	3	4	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:3317869C>T	uc003ggw.2	+	2	876	c.-28C>T	c.(-30--26)GACGT>GATGT		RGS12_uc003ggu.2_Translation_Start_Site|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_RNA|RGS12_uc003ggv.2_Translation_Start_Site|RGS12_uc003ggx.1_Translation_Start_Site	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1							condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AACAATGAGACGTGCTCTTGG	0.507													39	56					0	0	0.092188	0	0		T	3317869	T	T	3317869	1	4	154	1	0	0	0	0	0	0	0	0	13320	551	19	1		1	RGS12	4	3317869	Translation_Start_Site	SNP	C	TCGA-CG-5724-01A-11D-1600-08		3317869	187836407	26	83718											
CCDC96	257236	broad.mit.edu	37	chr4	7043264	7043264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctagggcggcctgggcctCgatttctgccagctgtgtct	3	12	13	13	2	2	0	0	0	2	0	4	1	3	0	4	3	2	1	4	3	1	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:7043264C>T	uc003gjv.2	-	1	1465	c.1402G>A	c.(1402-1404)GAG>AAG	p.E468K	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	468											0						GCCTGGGCCTCGATTTCTGCC	0.547													165	216					0	0	0.048971	0	0		T	7043264	T	T	7043264	3	4	154	1	0	0	0	0	1	0	0	0	2877	893	31	1	269	1	CCDC96	4	7043264	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	3725395	7043264	184111012	27	83719											
AFAP1	60312	broad.mit.edu	37	chr4	7795508	7795508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggacgatcccgtctctgCgagtaaaatcccaatccacc	10	9	8	14	3	1	0	0	0	1	0	5	3	4	1	4	1	1	1	4	1	3	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:7795508C>T	uc003gkg.1	-	11	1585	c.1312G>A	c.(1312-1314)GCA>ACA	p.A438T	AFAP1_uc011bwk.1_Missense_Mutation_p.A438T	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	438	PH 2.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						CCCGTCTCTGCGAGTAAAATC	0.453													46	235					0	0	0.048971	0	0		T	7795508	T	T	7795508	3	4	154	1	0	0	0	0	1	0	0	0	353	768	27	1	1164	1	AFAP1	4	7795508	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	752244	7795508	183358768	28	83720											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68964625	68964625	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaacaacaaaatgagtaAcaataccaattgcaattcct	18	9	3	11	0	1	1	1	1	0	0	2	1	2	1	3	0	5	2	3	0	9	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:68964625A>C	uc003hdt.1	-	2	192	c.143T>G	c.(142-144)GTT>GGT	p.V48G		NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	48	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						AAAATGAGTAACAATACCAAT	0.373													48	74					0	0	0.048971	0	0		C	68964625	C	C	68964625	3	2	154	1	0	0	0	0	1	0	0	0	16268	43	2	5	1209	5	TMPRSS11F	4	68964625	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	61169117	68964625	122189651	29	83721											
YTHDC1	91746	broad.mit.edu	37	chr4	69197837	69197837	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ataccttcgctttggcaagaGacacattctcatggttgtta	10	14	8	9	1	1	1	1	0	1	1	3	2	1	1	1	2	1	4	1	2	3	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:69197837G>C	uc003hdx.2	-	7	1459	c.1106C>G	c.(1105-1107)TCT>TGT	p.S369C	YTHDC1_uc003hdy.2_Missense_Mutation_p.S351C	NM_001031732	NP_001026902	Q96MU7	YTDC1_HUMAN	splicing factor YT521-B isoform 1	369	YTH.									upper_aerodigestive_tract(1)|ovary(1)	2						TTTGGCAAGAGACACATTCTC	0.313													53	90					0	0	0.048971	0	0		C	69197837	C	C	69197837	3	2	154	1	0	0	0	0	1	0	0	0	17522	942	33	5	1121	5	YTHDC1	4	69197837	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	233212	69197837	121956439	30	83722											
DDIT4L	115265	broad.mit.edu	37	chr4	101109017	101109017	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacacaagtgtaagctcaaaAgtaggtacgacgctagaatc	17	7	9	8	2	1	1	1	0	0	1	2	2	1	1	0	1	3	5	0	1	9	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:101109017A>C	uc003hvq.2	-	3	602	c.399T>G	c.(397-399)ACT>ACG	p.T133T		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	133					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		TAAGCTCAAAAGTAGGTACGA	0.438													28	112					0	0	0.108266	0	0		C	101109017	C	C	101109017	2	2	154	1	0	0	0	0	0	0	0	1	4335	59	3	5		5	DDIT4L	4	101109017	Silent	SNP	A	TCGA-CG-5724-01A-11D-1600-08	31911180	101109017	90045259	31	83723											
TRPC3	7222	broad.mit.edu	37	chr4	122853995	122853995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgtagtccacgcagttgaCgttcagcgtcttggactcct	7	12	10	12	3	2	1	1	1	1	0	4	2	4	2	2	1	1	4	2	1	1	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:122853995C>T	uc003ieg.2	-	2	492	c.418G>A	c.(418-420)GTC>ATC	p.V140I	TRPC3_uc010inr.2_Missense_Mutation_p.V67I|TRPC3_uc003ief.2_Missense_Mutation_p.V67I|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	55	Cytoplasmic (Potential).|ANK 1.				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						ACGCAGTTGACGTTCAGCGTC	0.637													31	57					0	0	0.037714	0	0		T	122853995	T	T	122853995	3	4	154	1	0	0	0	0	1	0	0	0	16605	536	19	1	2391	1	TRPC3	4	122853995	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	21744978	122853995	68300281	32	83724											
LRBA	987	broad.mit.edu	37	chr4	151935786	151935786	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagggacacgattgtcttcGctagccattgctagctcacg	9	10	11	11	3	2	0	1	0	1	0	3	3	2	1	1	1	3	3	1	1	3	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:151935786G>T	uc010ipj.2	-	2	483	c.9C>A	c.(7-9)AGC>AGA	p.S3R	LRBA_uc003ilu.3_Missense_Mutation_p.S3R|LRBA_uc003ilx.1_Missense_Mutation_p.S3R	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	3						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GATTGTCTTCGCTAGCCATTG	0.542													2	2					0.00909568	0.00919963	0.009096	1	0		T	151935786	T	T	151935786	3	4	154	1	0	0	0	0	1	0	0	0	8949	1078	38	5	8810	5	LRBA	4	151935786	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	29081791	151935786	39218490	33	83725											
VEGFC	7424	broad.mit.edu	37	chr4	177608362	177608362	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatgtttggtggtggaacTtctttccttttaacaagcat	8	17	9	7	0	1	0	0	0	1	0	2	1	2	1	1	3	4	3	1	3	3	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr4:177608362T>C	uc003ius.1	-	6	1554	c.1124A>G	c.(1123-1125)AAG>AGG	p.K375R		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	375					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		GTGGTGGAACTTCTTTCCTTT	0.368													163	223					0	0	0.048971	0	0		C	177608362	C	C	177608362	3	2	154	1	0	0	0	0	1	0	0	0	17178	1609	56	3	146	3	VEGFC	4	177608362	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	25672576	177608362	13545914	34	83726											
ADCY2	108	broad.mit.edu	37	chr5	7698445	7698445	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctctccctaaccatgccaAgaactgtgtgaaaatggggc	12	9	9	11	0	1	2	0	1	1	1	3	2	2	2	3	2	3	0	3	2	5	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr5:7698445A>G	uc003jdz.1	+	7	1134	c.1067A>G	c.(1066-1068)AAG>AGG	p.K356R	ADCY2_uc011cmo.1_Missense_Mutation_p.K176R	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	356	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						AACCATGCCAAGAACTGTGTG	0.333													52	246					0	0	0.048971	0	0		G	7698445	G	G	7698445	3	3	154	1	0	0	0	0	1	0	0	0	294	72	3	3	1093	3	ADCY2	5	7698445	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08		7698445	173216815	35	83727											
CDH10	1008	broad.mit.edu	37	chr5	24537713	24537713	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttcatcaataataaaaAgagtaccagctccatctcca	15	13	3	10	0	3	1	2	0	1	1	5	1	4	1	3	0	2	2	3	0	6	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr5:24537713A>G	uc003jgr.1	-	3	634	c.302T>C	c.(301-303)CTT>CCT	p.L101P	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	101	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AATAATAAAAAGAGTACCAGC	0.373										HNSCC(23;0.051)			61	112					0	0	0.048971	0	0		G	24537713	G	G	24537713	3	3	154	1	0	0	0	0	1	0	0	0	3099	72	3	3	2104	3	CDH10	5	24537713	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	16839268	24537713	156377547	36	83728											
ADAMTS12	81792	broad.mit.edu	37	chr5	33549454	33549454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtccacgcactgaatctcgCgtatcttgaagcccccactg	8	10	8	15	3	2	2	0	2	2	0	4	2	3	2	3	0	1	2	3	0	3	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr5:33549454C>T	uc003jia.1	-	21	4323	c.4160G>A	c.(4159-4161)CGC>CAC	p.R1387H	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R1302H	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1387	TSP type-1 6.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CTGAATCTCGCGTATCTTGAA	0.557										HNSCC(64;0.19)			57	106					0	0	0.048971	0	0		T	33549454	T	T	33549454	3	4	154	1	0	0	0	0	1	0	0	0	257	768	27	1	640	1	ADAMTS12	5	33549454	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	9011741	33549454	147365806	37	83729											
GPR98	84059	broad.mit.edu	37	chr5	90012394	90012394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctacgtccaggagagtgttGcagtattgtacattgttcgg	8	14	12	7	2	1	1	0	0	1	1	3	2	2	1	1	2	3	5	1	2	3	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr5:90012394G>A	uc003kju.2	+	43	9391	c.9295G>A	c.(9295-9297)GCA>ACA	p.A3099T	GPR98_uc003kjt.2_Missense_Mutation_p.A805T|GPR98_uc003kjv.2_Missense_Mutation_p.A699T	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3099	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GGAGAGTGTTGCAGTATTGTA	0.428													15	53					0	0	0.024245	0	0		A	90012394	A	A	90012394	3	1	154	1	0	0	0	0	1	0	0	0	6737	1319	46	2	9465	2	GPR98	5	90012394	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	56462940	90012394	90902866	38	83730											
PCDHA6	56142	broad.mit.edu	37	chr5	140209731	140209731	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcatcacgggcgtcggtgggCgccgcgggcccagaggcggc	4	4	19	14	7	2	1	2	0	0	1	3	1	2	1	2	6	0	0	2	6	0	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr5:140209731C>T	uc003lho.2	+	1	2082	c.2055C>T	c.(2053-2055)GGC>GGT	p.G685G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Silent_p.G685G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	685	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTCGGTGGGCGCCGCGGGCC	0.662													13	26					0	0	0.043863	0	0		T	140209731	T	T	140209731	2	4	154	1	0	0	0	0	0	0	0	1	11547	755	27	1		1	PCDHA6	5	140209731	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	50197337	140209731	40705529	39	83731											
PCDHGA4	56111	broad.mit.edu	37	chr5	140735929	140735929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagtcacatgttctattccaGataatctgccattcacactt	11	15	4	11	0	4	1	2	0	2	1	5	1	5	1	2	0	1	1	2	0	3	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr5:140735929G>A	uc003ljq.1	+	1	1162	c.1162G>A	c.(1162-1164)GAT>AAT	p.D388N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.D388N	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	388	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ttctattccagataatctgcc	0.323													3	10					0	0	0.004672	0	0		A	140735929	A	A	140735929	3	1	154	1	0	0	0	0	1	0	0	0	11575	942	33	4	1164	4	PCDHGA4	5	140735929	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	526198	140735929	40179331	40	83732											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755518	140755518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttctcagtgggcctgcacaCgggcgaggtgcgcacggcgc	5	7	16	13	5	1	0	1	0	1	0	2	1	1	0	1	4	2	2	1	4	0	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr5:140755518C>T	uc003ljy.1	+	1	1868	c.1868C>T	c.(1867-1869)ACG>ATG	p.T623M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.T623M	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	623	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCCTGCACACGGGCGAGGTG	0.692													19	63					0	0	0.076483	0	0		T	140755518	T	T	140755518	3	4	154	1	0	0	0	0	1	0	0	0	11577	536	19	1	1870	1	PCDHGA6	5	140755518	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	19589	140755518	40159742	41	83733											
EXOC2	55770	broad.mit.edu	37	chr6	564037	564037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttatcaaaacacaccttcCgccgtgtgctgcaacgtggc	10	10	8	13	3	1	0	1	0	0	0	2	0	2	0	3	1	4	2	3	1	4	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:564037C>T	uc003mtd.2	-	16	1919	c.1785G>A	c.(1783-1785)GCG>GCA	p.A595A	EXOC2_uc003mte.2_Silent_p.A595A|EXOC2_uc011dho.1_Silent_p.A190A	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	595					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		ACACACCTTCCGCCGTGTGCT	0.453													9	35					0	0	0.047766	0	0		T	564037	T	T	564037	2	4	154	1	0	0	0	0	0	0	0	1	5310	639	23	1		1	EXOC2	6	564037	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08		564037	170551030	42	83734											
MDC1	9656	broad.mit.edu	37	chr6	30675783	30675783	+	Missense_Mutation	SNP	T	C	C	0	1	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	acaactgtttttgttctctgTcctgtttccccttggttaat	5	20	6	10	0	1	0	0	0	1	0	4	0	3	0	3	1	1	4	3	1	2	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:30675783T>C	uc003nrg.3	-	8	3013	c.2573A>G	c.(2572-2574)GAC>GGC	p.D858G	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Intron	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	858				Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						TTGTTCTCTGTCCTGTTTCCC	0.458								Other_conserved_DNA_damage_response_genes					198	321					0	0	0.048971	0	0		C	30675783	C	C	30675783	3	2	154	1	0	0	0	0	1	0	0	0	9421	1667	58	3	3728	3	MDC1	6	30675783	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	30111746	30675783	140439284	43	83735											
ATF6B	1388	broad.mit.edu	37	chr6	32095981	32095981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgagcagcatcagctccgCcatctttcccccccaccccc	6	7	6	22	1	2	1	1	1	1	0	4	1	4	1	7	0	3	4	7	0	0	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:32095981C>T	uc003nzn.2	-	1	37	c.4G>A	c.(4-6)GCG>ACG	p.A2T	ATF6B_uc003nzo.2_Missense_Mutation_p.A2T|ATF6B_uc011dpg.1_5'Flank|ATF6B_uc011dph.1_Missense_Mutation_p.A2T	NM_004381	NP_004372	Q99941	ATF6B_HUMAN	activating transcription factor 6 beta isoform	2	Cytoplasmic (Potential).|Transcription activation.				response to unfolded protein|signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ATCAGCTCCGCCATCTTTCCC	0.612													7	19					0	0	0.038147	0	0		T	32095981	T	T	32095981	3	4	154	1	0	0	0	0	1	0	0	0	1086	739	26	2	2179	2	ATF6B	6	32095981	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	1420198	32095981	139019086	44	83736											
SLC29A1	2030	broad.mit.edu	37	chr6	44197722	44197722	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcactgccatcctggtgaaGgtgcagctggatgctctgcc	7	10	12	12	0	2	1	1	1	1	0	3	2	3	2	3	3	5	3	3	3	1	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:44197722G>A	uc003owu.1	+	5	722	c.393G>A	c.(391-393)AAG>AAA	p.K131K	SLC29A1_uc011dvp.1_Silent_p.K150K|SLC29A1_uc003owv.1_Silent_p.K131K|SLC29A1_uc003oww.1_Silent_p.K210K|SLC29A1_uc011dvq.1_Silent_p.K173K|SLC29A1_uc003owx.1_Silent_p.K131K|SLC29A1_uc003owy.1_Silent_p.K131K|SLC29A1_uc003owz.1_Silent_p.K131K	NM_004955	NP_004946	Q99808	S29A1_HUMAN	equilibrative nucleoside transporter 1	131	Extracellular (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|basolateral plasma membrane|integral to plasma membrane|membrane fraction	nucleoside transmembrane transporter activity|protein binding			large_intestine(2)|skin(1)	3	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)		Troglitazone(DB00197)	TCCTGGTGAAGGTGCAGCTGG	0.587													20	37					0	0	0.049695	0	0		A	44197722	A	A	44197722	2	1	154	1	0	0	0	0	0	0	0	1	14559	991	35	4		4	SLC29A1	6	44197722	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	12101741	44197722	126917345	45	83737											
CD2AP	23607	broad.mit.edu	37	chr6	47547178	47547178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atggtaaagaaggagtatttCcagacaattttgctgtccag	13	12	10	6	0	0	2	0	0	0	2	2	3	2	3	2	2	1	3	2	2	5	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:47547178C>T	uc003oyw.2	+	9	1417	c.961C>T	c.(961-963)CCA>TCA	p.P321S		NM_012120	NP_036252	Q9Y5K6	CD2AP_HUMAN	CD2-associated protein	321	SH3 3.				cell division|mitosis|protein complex assembly|signal transduction|substrate-dependent cell migration, cell extension	cytoplasm|filamentous actin|nucleolus|plasma membrane|ruffle	SH3 domain binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2			Lung(136;0.105)|LUSC - Lung squamous cell carcinoma(51;0.138)			AGGAGTATTTCCAGACAATTT	0.343													17	58					0	0	0.0333	0	0		T	47547178	T	T	47547178	3	4	154	1	0	0	0	0	1	0	0	0	2997	855	30	4	995	4	CD2AP	6	47547178	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	3349456	47547178	123567889	46	83738											
PKHD1	5314	broad.mit.edu	37	chr6	51637574	51637574	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagcactgtaaagatgaacTttcccataaacccctgaaaa	17	9	5	10	0	0	3	0	2	0	1	1	3	1	3	3	0	3	2	3	0	8	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:51637574T>G	uc003pah.1	-	55	8844	c.8568A>C	c.(8566-8568)AAA>AAC	p.K2856N	PKHD1_uc010jzn.1_Missense_Mutation_p.K839N|PKHD1_uc003pai.2_Missense_Mutation_p.K2856N	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2856	G8 2.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AAAGATGAACTTTCCCATAAA	0.408													32	77					0	0	0.045705	0	0		G	51637574	G	G	51637574	3	3	154	1	0	0	0	0	1	0	0	0	11990	1606	56	5	3747	5	PKHD1	6	51637574	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	4090396	51637574	119477493	47	83739											
C6orf142	90523	broad.mit.edu	37	chr6	53989433	53989433	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaagtgacctcttcaaagctGaatatgtccttattgtggac	12	13	8	8	0	2	2	1	2	1	0	3	3	3	3	2	1	1	1	2	1	5	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:53989433G>C	uc003pcg.3	+	3	495	c.382G>C	c.(382-384)GAA>CAA	p.E128Q	C6orf142_uc003pcf.2_Missense_Mutation_p.E128Q|C6orf142_uc003pch.3_Missense_Mutation_p.E66Q|C6orf142_uc011dwz.1_Missense_Mutation_p.E87Q|C6orf142_uc011dxa.1_Missense_Mutation_p.E139Q	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	128						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					CTTCAAAGCTGAATATGTCCT	0.498													44	125					0	0	0.104719	0	0		C	53989433	C	C	53989433	3	2	154	1	0	0	0	0	1	0	0	0	2336	1291	45	5	392	5	C6orf142	6	53989433	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	2351859	53989433	117125634	48	83740											
SNX14	57231	broad.mit.edu	37	chr6	86238069	86238069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttagaaggaagctgggcatCaggaaatgcacctgaaatta	15	8	11	7	0	1	2	1	1	0	1	1	4	1	4	1	3	2	3	1	3	6	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:86238069C>T	uc003pkr.2	-	20	2099	c.1906G>A	c.(1906-1908)GAT>AAT	p.D636N	SNX14_uc003pkp.2_Missense_Mutation_p.D499N|SNX14_uc003pkq.2_Missense_Mutation_p.D242N|SNX14_uc011dzg.1_Missense_Mutation_p.D584N|SNX14_uc003pks.2_Missense_Mutation_p.D583N|SNX14_uc003pkt.2_Missense_Mutation_p.D627N	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	636	PX.				cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		AGCTGGGCATCAGGAAATGCA	0.318													53	124					0	0	0.048971	0	0		T	86238069	T	T	86238069	3	4	154	1	0	0	0	0	1	0	0	0	14910	826	29	4	974	4	SNX14	6	86238069	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	32248636	86238069	84876998	49	83741											
TAAR2	9287	broad.mit.edu	37	chr6	132938378	132938378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgtacttcagtgctctgcGaaaccagggatagaagaaac	15	8	10	8	1	2	2	1	0	1	2	2	4	2	3	1	1	5	2	1	1	6	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:132938378G>A	uc003qdl.1	-	2	967	c.967C>T	c.(967-969)CGC>TGC	p.R323C	TAAR2_uc010kfr.1_Missense_Mutation_p.R278C	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	323	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		AGTGCTCTGCGAAACCAGGGA	0.363													49	47					0	0	0.048971	0	0		A	132938378	A	A	132938378	3	1	154	1	0	0	0	0	1	0	0	0	15515	1058	37	1	92	1	TAAR2	6	132938378	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	46700309	132938378	38176689	50	83742											
SYNE1	23345	broad.mit.edu	37	chr6	152485429	152485429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttcttatcaagctgctgcaCggctaccagggtctccttca	7	12	9	13	1	4	0	2	0	2	0	5	0	4	0	2	2	4	5	2	2	3	4	rs143842011	byFrequency	TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:152485429C>T	uc010kiw.2	-	131	24261	c.23659G>A	c.(23659-23661)GTG>ATG	p.V7887M	SYNE1_uc010kiv.2_Missense_Mutation_p.V2411M|SYNE1_uc003qos.3_Missense_Mutation_p.V2411M|SYNE1_uc003qot.3_Missense_Mutation_p.V7816M|SYNE1_uc003qou.3_Missense_Mutation_p.V7887M|SYNE1_uc003qop.3_Missense_Mutation_p.V49M|SYNE1_uc011eez.1_Missense_Mutation_p.V89M|SYNE1_uc003qoq.3_Missense_Mutation_p.V89M|SYNE1_uc003qor.3_Missense_Mutation_p.V787M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7887	Spectrin 28.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGCTGCTGCACGGCTACCAGG	0.557										HNSCC(10;0.0054)			59	90					0	0	0.048971	0	0		T	152485429	T	T	152485429	3	4	154	1	0	0	0	0	1	0	0	0	15470	536	19	1	2871	1	SYNE1	6	152485429	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	19547051	152485429	18629638	51	83743											
SYNE1	23345	broad.mit.edu	37	chr6	152711423	152711423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggttctgtacctttgagcGtggacggaggagctcatgat	8	12	14	7	2	2	2	1	2	1	0	2	5	2	5	1	4	3	3	1	4	2	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr6:152711423G>A	uc010kiw.2	-	53	8771	c.8169C>T	c.(8167-8169)CAC>CAT	p.H2723H	SYNE1_uc003qot.3_Silent_p.H2730H|SYNE1_uc003qou.3_Silent_p.H2723H|SYNE1_uc010kjb.1_Silent_p.H2706H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2723	Cytoplasmic (Potential).|HAT 5.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ACCTTTGAGCGTGGACGGAGG	0.458										HNSCC(10;0.0054)			29	104					0	0	0.037714	0	0		A	152711423	A	A	152711423	2	1	154	1	0	0	0	0	0	0	0	1	15470	1136	40	1		1	SYNE1	6	152711423	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	225994	152711423	18403644	52	83744											
ZNF804B	219578	broad.mit.edu	37	chr7	88965033	88965033	+	Missense_Mutation	SNP	T	G	G	0	1	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	gcccttcagaaaccacagaaTcaaacactgcagaaggagag	17	4	9	11	0	2	4	2	0	0	4	2	5	2	4	2	1	3	1	2	1	4	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr7:88965033T>G	uc011khi.1	+	4	3275	c.2737T>G	c.(2737-2739)TCA>GCA	p.S913A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	913						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AACCACAGAATCAAACACTGC	0.428										HNSCC(36;0.09)			61	184					0	0	0.048971	0	0		G	88965033	G	G	88965033	3	3	154	1	0	0	0	0	1	0	0	0	18196	1435	50	5	2751	5	ZNF804B	7	88965033	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08		88965033	70173630	53	83745											
COL1A2	1278	broad.mit.edu	37	chr7	94057073	94057073	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcagacccaaggactatgaAgttgatgctactctgaagtc	12	10	9	10	0	2	4	1	3	1	1	3	5	2	5	1	1	2	2	1	1	5	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr7:94057073A>C	uc003ung.1	+	49	3873	c.3402A>C	c.(3400-3402)GAA>GAC	p.E1134D	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	1134	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	AGGACTATGAAGTTGATGCTA	0.507										HNSCC(75;0.22)			84	96					0	0	0.048971	0	0		C	94057073	C	C	94057073	3	2	154	1	0	0	0	0	1	0	0	0	3681	69	3	5	3596	5	COL1A2	7	94057073	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	5092040	94057073	65081590	54	83746											
PDAP1	11333	broad.mit.edu	37	chr7	98994334	98994334	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggagagtgactgcattcGttttcctgacaatgtggcat	9	12	12	8	1	0	3	0	2	0	1	2	4	1	3	1	2	1	3	1	2	1	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr7:98994334G>C	uc003uqe.2	-	6	638	c.517C>G	c.(517-519)CGA>GGA	p.R173G		NM_014891	NP_055706	Q13442	HAP28_HUMAN	PDGFA associated protein 1	173					cell proliferation|signal transduction						0	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)		Becaplermin(DB00102)	GACTGCATTCGTTTTCCTGAC	0.597													40	130					0	0	0.048971	0	0		C	98994334	C	C	98994334	3	2	154	1	0	0	0	0	1	0	0	0	11632	1153	40	5	32	5	PDAP1	7	98994334	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	4937261	98994334	60144329	55	83747											
CPA5	93979	broad.mit.edu	37	chr7	129999462	129999462	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggaaagacaggccatggcGaaatcccgccggctggagcg	11	3	16	11	4	0	1	0	0	0	1	1	5	1	3	3	5	1	1	3	5	2	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr7:129999462G>A	uc010lmd.1	+	7	986	c.366G>A	c.(364-366)GCG>GCA	p.A122A	CPA5_uc003vps.2_Silent_p.A122A|CPA5_uc003vpt.2_Silent_p.A122A|CPA5_uc010lme.1_Silent_p.A122A|CPA5_uc003vpu.1_Silent_p.A122A	NM_001127441	NP_001120913	Q8WXQ8	CBPA5_HUMAN	carboxypeptidase A5 isoform 1	122					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2	Melanoma(18;0.0435)					AGGCCATGGCGAAATCCCGCC	0.592													6	0					0	0	0.021553	0	0		A	129999462	A	A	129999462	2	1	154	1	0	0	0	0	0	0	0	1	3796	1045	37	1		1	CPA5	7	129999462	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	31005128	129999462	29139201	56	83748											
CSMD1	64478	broad.mit.edu	37	chr8	2820151	2820151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggggatgccagggtctccGcagaacacagctatggaaga	11	5	15	10	2	1	2	0	0	1	2	2	4	1	4	2	4	3	2	2	4	3	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:2820151G>A	uc011kwk.1	-	61	9858	c.9468C>T	c.(9466-9468)TGC>TGT	p.C3156C	CSMD1_uc011kwj.1_Silent_p.C2485C|CSMD1_uc010lrg.2_Silent_p.C1047C	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3156	Extracellular (Potential).|Sushi 26.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAGGGTCTCCGCAGAACACAG	0.468													12	18					0	0	0.09319	0	0		A	2820151	A	A	2820151	2	1	154	1	0	0	0	0	0	0	0	1	3947	1079	38	1		1	CSMD1	8	2820151	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08		2820151	143543871	57	83749											
CSMD1	64478	broad.mit.edu	37	chr8	3245020	3245020	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgagctgtacctaccgtcGcagctgggcaaggcgtggtt	7	9	14	11	3	0	1	0	1	0	0	1	1	0	1	2	3	4	6	2	3	3	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:3245020G>A	uc011kwk.1	-	18	3171	c.2781C>T	c.(2779-2781)TGC>TGT	p.C927C	CSMD1_uc011kwj.1_Silent_p.C319C|CSMD1_uc003wqe.2_Silent_p.C83C	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	927	Extracellular (Potential).|Sushi 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ACCTACCGTCGCAGCTGGGCA	0.587													3	6					0	0	0.004672	0	0		A	3245020	A	A	3245020	2	1	154	1	0	0	0	0	0	0	0	1	3947	1079	38	1		1	CSMD1	8	3245020	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	424869	3245020	143119002	58	83750											
CSMD1	64478	broad.mit.edu	37	chr8	3253803	3253803	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcccggtgctgatgaggaActggggtgcctgggtgccgt	4	10	18	9	2	0	2	0	2	0	0	1	3	1	3	3	5	4	2	3	5	1	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:3253803A>C	uc011kwk.1	-	17	2899	c.2509T>G	c.(2509-2511)TTC>GTC	p.F837V	CSMD1_uc011kwj.1_Missense_Mutation_p.F229V|CSMD1_uc003wqe.2_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	837	Extracellular (Potential).|CUB 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTGATGAGGAACTGGGGTGCC	0.557													4	6					0	0	0.009096	0	0		C	3253803	C	C	3253803	3	2	154	1	0	0	0	0	1	0	0	0	3947	43	2	5	8404	5	CSMD1	8	3253803	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	8783	3253803	143110219	59	83751											
SOX7	83595	broad.mit.edu	37	chr8	10583429	10583429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatactggtcgaattcattgCgatccatgtcccccaggagt	10	11	9	11	2	1	0	1	0	0	0	4	3	3	1	3	2	2	0	3	2	3	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:10583429C>T	uc003wtf.2	-	2	1065	c.986G>A	c.(985-987)CGC>CAC	p.R329H	SOX7_uc011kwz.1_Missense_Mutation_p.R381H	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	329	Sox C-terminal.				endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		GAATTCATTGCGATCCATGTC	0.622													17	47					0	0	0.028581	0	0		T	10583429	T	T	10583429	3	4	154	1	0	0	0	0	1	0	0	0	14981	768	27	1	184	1	SOX7	8	10583429	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	7329626	10583429	135780593	60	83752											
SH2D4A	63898	broad.mit.edu	37	chr8	19192367	19192367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggaagaagagaaaatccGagtgagtccttactgtctgt	12	10	11	8	1	1	3	0	1	1	2	3	6	3	4	3	1	1	0	3	1	5	1	rs75590099	by1000genomes	TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:19192367G>A	uc003wzb.2	+	4	848	c.512G>A	c.(511-513)CGA>CAA	p.R171Q	SH2D4A_uc011kym.1_Missense_Mutation_p.R126Q|SH2D4A_uc003wzc.2_Missense_Mutation_p.R171Q	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	171						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		GAGAAAATCCGAGTGAGTCCT	0.498													10	16					0	0	0.069234	0	0		A	19192367	A	A	19192367	3	1	154	1	0	0	0	0	1	0	0	0	14260	1072	37	1	572	1	SH2D4A	8	19192367	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	8608938	19192367	127171655	61	83753											
ARFGEF1	10565	broad.mit.edu	37	chr8	68165687	68165687	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattaatttagatacttactCtgtttacttgattttgtagg	11	20	6	4	0	1	2	0	1	1	1	1	2	1	2	0	1	3	2	0	1	7	11			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:68165687C>A	uc003xxo.1	-	18	3087	c.2697G>T	c.(2695-2697)CAG>CAT	p.Q899H	ARFGEF1_uc003xxl.1_Missense_Mutation_p.Q353H	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	899					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GATACTTACTCTGTTTACTTG	0.269													38	14					3.21399e-22	3.60049e-22	0.074837	1	0		A	68165687	A	A	68165687	3	1	154	1	0	0	0	0	1	0	0	0	852	927	32	5	2940	5	ARFGEF1	8	68165687	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	48973320	68165687	78198335	62	83754											
PREX2	80243	broad.mit.edu	37	chr8	69104587	69104587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctaatgaggcctctcaaCgctttggatgaactttaccg	10	11	9	11	2	1	2	1	2	1	0	2	3	1	3	2	2	4	2	2	2	4	4	rs137974526		TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:69104587C>T	uc003xxv.1	+	37	4458	c.4431C>T	c.(4429-4431)AAC>AAT	p.N1477N		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1477					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						GGCCTCTCAACGCTTTGGATG	0.433													18	15					0	0	0.055883	0	0		T	69104587	T	T	69104587	2	4	154	1	0	0	0	0	0	0	0	1	12499	535	19	1		1	PREX2	8	69104587	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	938900	69104587	77259435	63	83755											
ZFHX4	79776	broad.mit.edu	37	chr8	77765163	77765163	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccatcttctccagaaacGccgcccccgccacctcctcc	6	8	4	23	3	3	1	0	0	3	1	7	1	5	1	9	0	1	0	9	0	1	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:77765163G>A	uc003yav.2	+	10	6258	c.5871G>A	c.(5869-5871)ACG>ACA	p.T1957T	ZFHX4_uc003yau.1_Silent_p.T2002T|ZFHX4_uc003yaw.1_Silent_p.T1957T	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1957	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTCCAGAAACGccgcccccgc	0.318										HNSCC(33;0.089)			75	22					0	0	0.048971	0	0		A	77765163	A	A	77765163	2	1	154	1	0	0	0	0	0	0	0	1	17660	1074	38	1		1	ZFHX4	8	77765163	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	8660576	77765163	68598859	64	83756											
SDC2	6383	broad.mit.edu	37	chr8	97620628	97620628	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaggaaaatggacccagcCgaagaggatacaaatgtgta	18	5	12	6	1	0	1	0	0	0	1	0	6	0	4	2	3	2	1	2	3	7	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:97620628C>T	uc003yhv.1	+	4	990	c.372C>T	c.(370-372)GCC>GCT	p.A124A	SDC2_uc011lgu.1_Silent_p.A95A	NM_002998	NP_002989	P34741	SDC2_HUMAN	syndecan 2 precursor	124	Extracellular (Potential).					integral to plasma membrane	cytoskeletal protein binding|PDZ domain binding			ovary(2)	2	Breast(36;3.41e-05)				Sargramostim(DB00020)	TGGACCCAGCCGAAGAGGATA	0.453													62	32					0	0	0.048971	0	0		T	97620628	T	T	97620628	2	4	154	1	0	0	0	0	0	0	0	1	13977	639	23	1		1	SDC2	8	97620628	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	19855465	97620628	48743394	65	83757											
DCAF13	25879	broad.mit.edu	37	chr8	104453766	104453766	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatcctcatataaaacgtatAgctcgtcatcgacatctacc	13	12	4	12	3	3	0	2	0	1	0	6	1	4	0	2	0	3	2	2	0	7	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:104453766A>T	uc003yln.2	+	10	1903	c.1626A>T	c.(1624-1626)ATA>ATT	p.I542I	DCAF13_uc003ylo.2_Silent_p.I253I	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	390					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						TAAAACGTATAGCTCGTCATC	0.373													6	572					0	0	0.021553	0	0		T	104453766	T	T	104453766	2	4	154	1	0	0	0	0	0	0	0	1	4269	410	15	5		5	DCAF13	8	104453766	Silent	SNP	A	TCGA-CG-5724-01A-11D-1600-08	6833138	104453766	41910256	66	83758											
COL14A1	7373	broad.mit.edu	37	chr8	121219265	121219265	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttatggttaactggactCatgccccaggaaatgtggaa	11	11	11	8	0	1	0	1	0	0	0	1	3	1	3	2	4	2	2	2	4	4	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:121219265C>A	uc003yox.2	+	10	1388	c.1123C>A	c.(1123-1125)CAT>AAT	p.H375N	COL14A1_uc003yoy.2_Missense_Mutation_p.H53N|COL14A1_uc010mde.1_Missense_Mutation_p.H53N	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	375	Fibronectin type-III 2.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TAACTGGACTCATGCCCCAGG	0.433													15	42					2.32078e-09	2.53567e-09	0.024245	1	0		A	121219265	A	A	121219265	3	1	154	1	0	0	0	0	1	0	0	0	3674	826	29	5	1157	5	COL14A1	8	121219265	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	16765499	121219265	25144757	67	83759											
TG	7038	broad.mit.edu	37	chr8	134042185	134042185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgtccctggcagcagacCgtggcggggctgatgtggcc	4	7	18	12	3	0	2	0	1	0	1	1	2	1	2	3	5	1	3	3	5	0	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:134042185C>T	uc003ytw.2	+	41	7197	c.7156C>T	c.(7156-7158)CGT>TGT	p.R2386C	TG_uc010mdw.2_Missense_Mutation_p.R1145C|TG_uc011ljb.1_Missense_Mutation_p.R755C|TG_uc011ljc.1_Missense_Mutation_p.R519C	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2386					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGCAGCAGACCGTGGCGGGGC	0.647													9	7					0	0	0.037714	0	0		T	134042185	T	T	134042185	3	4	154	1	0	0	0	0	1	0	0	0	15838	652	23	1	7318	1	TG	8	134042185	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	12822920	134042185	12321837	68	83760											
TSTA3	7264	broad.mit.edu	37	chr8	144696357	144696357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtatatgaactgcctccGcggattccctgtaccccaca	9	9	8	15	3	0	1	0	1	0	0	2	3	2	2	5	1	3	2	5	1	4	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr8:144696357G>A	uc003yza.2	-	7	676	c.640C>T	c.(640-642)CGG>TGG	p.R214W	TSTA3_uc003yzb.2_Missense_Mutation_p.R214W	NM_003313	NP_003304	Q13630	FCL_HUMAN	tissue specific transplantation antigen P35B	214					'de novo' GDP-L-fucose biosynthetic process|leukocyte cell-cell adhesion		coenzyme binding|electron carrier activity|GDP-4-dehydro-D-rhamnose reductase activity|GDP-L-fucose synthase activity|isomerase activity			pancreas(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)		NADH(DB00157)	AACTGCCTCCGCGGATTCCCT	0.637													36	17					0	0	0.069456	0	0		A	144696357	A	A	144696357	3	1	154	1	0	0	0	0	1	0	0	0	16700	1086	38	1	345	1	TSTA3	8	144696357	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	10654172	144696357	1667665	69	83761											
UHRF2	115426	broad.mit.edu	37	chr9	6460623	6460623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcaaggatcttagaccacGagctagaaccattttgaaat	14	11	8	8	1	2	3	1	1	1	2	2	5	2	4	2	1	2	1	2	1	5	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:6460623G>A	uc003zjy.2	+	4	1035	c.695G>A	c.(694-696)CGA>CAA	p.R232Q	UHRF2_uc003zjz.2_RNA|UHRF2_uc003zka.1_Missense_Mutation_p.R9Q	NM_152896	NP_690856	Q96PU4	UHRF2_HUMAN	ubiquitin-like with PHD and ring finger domains	232	Interaction with PCNP.				cell cycle|cell differentiation|cell proliferation|protein autoubiquitination|regulation of cell cycle|ubiquitin-dependent protein catabolic process	nucleus	DNA binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0392)|Lung(218;0.129)		CTTAGACCACGAGCTAGAACC	0.373													57	61					0	0	0.048971	0	0		A	6460623	A	A	6460623	3	1	154	1	0	0	0	0	1	0	0	0	16996	1058	37	1	709	1	UHRF2	9	6460623	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		6460623	134752808	70	83762											
BNC2	54796	broad.mit.edu	37	chr9	16437105	16437105	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggattcgctgctctcattatAttcattctgagttgaaaggc	9	15	9	8	1	3	2	2	2	2	0	5	3	3	3	0	2	1	3	0	2	3	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:16437105A>T	uc003zml.2	-	6	1227	c.1087T>A	c.(1087-1089)TAT>AAT	p.Y363N	BNC2_uc011lmw.1_Missense_Mutation_p.Y268N|BNC2_uc003zmm.2_Missense_Mutation_p.Y321N|BNC2_uc003zmq.1_Missense_Mutation_p.Y377N|BNC2_uc003zmr.1_Missense_Mutation_p.Y400N|BNC2_uc003zmp.1_Missense_Mutation_p.Y391N|BNC2_uc010mij.1_Missense_Mutation_p.Y285N|BNC2_uc011lmv.1_Missense_Mutation_p.Y189N|BNC2_uc003zmo.1_Missense_Mutation_p.Y285N|BNC2_uc003zmj.2_Missense_Mutation_p.Y128N|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.Y128N|BNC2_uc003zmn.1_Missense_Mutation_p.Y128N	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	363					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		CTCTCATTATATTCATTCTGA	0.488													75	37					0	0	0.048971	0	0		T	16437105	T	T	16437105	3	4	154	1	0	0	0	0	1	0	0	0	1476	449	16	5	2220	5	BNC2	9	16437105	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	9976482	16437105	124776326	71	83763											
MAMDC2	256691	broad.mit.edu	37	chr9	72746492	72746492	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttatgttgccctggatgatAtttcattctctcctgttcac	6	18	7	10	0	3	1	2	1	1	0	5	2	4	2	2	1	1	3	2	1	2	6	rs139503678		TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:72746492A>G	uc004ahm.2	+	7	1575	c.958A>G	c.(958-960)ATT>GTT	p.I320V	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	320	MAM 2.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						CCTGGATGATATTTCATTCTC	0.408													180	67					0	0	0.048971	0	0		G	72746492	G	G	72746492	3	3	154	1	0	0	0	0	1	0	0	0	9221	449	16	3	984	3	MAMDC2	9	72746492	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	56309387	72746492	68466939	72	83764											
GALNT12	79695	broad.mit.edu	37	chr9	101589068	101589068	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcttggccaatgagctttcGggactgcccaaggtgcgcct	6	9	13	13	3	0	1	0	1	0	0	1	2	0	2	3	3	3	2	3	3	2	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:101589068G>A	uc004ayz.2	+	3	576	c.576G>A	c.(574-576)TCG>TCA	p.S192S		NM_024642	NP_078918	Q8IXK2	GLT12_HUMAN	N-acetylgalactosaminyltransferase 12	192	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(1)|ovary(1)	2		Acute lymphoblastic leukemia(62;0.0559)				ATGAGCTTTCGGGACTGCCCA	0.642													4	7					0	0	0.02938	0	0		A	101589068	A	A	101589068	2	1	154	1	0	0	0	0	0	0	0	1	6225	1103	39	1		1	GALNT12	9	101589068	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	28842576	101589068	39624363	73	83765											
ALDOB	229	broad.mit.edu	37	chr9	104187255	104187255	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tccagggctttggtagagggCaaaggttgatagcattgagg	10	10	16	5	0	0	3	0	2	0	1	1	3	1	3	1	5	1	5	1	5	3	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:104187255C>A	uc004bbk.2	-	8	951	c.869G>T	c.(868-870)TGC>TTC	p.C290F		NM_000035	NP_000026	P05062	ALDOB_HUMAN	aldolase B, fructose-bisphosphate	290					fructose 1,6-bisphosphate metabolic process|fructose catabolic process|gluconeogenesis|glycolysis|NADH oxidation|positive regulation of ATPase activity|vacuolar proton-transporting V-type ATPase complex assembly	centriolar satellite|cytosol	ATPase binding|cytoskeletal protein binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TGGTAGAGGGCAAAGGTTGAT	0.522													9	126					3.09899e-07	3.32437e-07	0.047766	1	0		A	104187255	A	A	104187255	3	1	154	1	0	0	0	0	1	0	0	0	508	710	25	5	233	5	ALDOB	9	104187255	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	2598187	104187255	37026176	74	83766											
HSDL2	84263	broad.mit.edu	37	chr9	115216406	115216406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctcagtgatgatgttgttAaagccactcaagcaatctat	12	13	7	9	0	3	2	2	2	2	0	4	2	3	2	1	0	2	3	1	0	5	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:115216406A>G	uc004bga.1	+	9	1072	c.979A>G	c.(979-981)AAA>GAA	p.K327E	HSDL2_uc011lwv.1_Missense_Mutation_p.K206E|HSDL2_uc004bgb.1_Missense_Mutation_p.K161E|HSDL2_uc004bgc.1_Missense_Mutation_p.K254E|HSDL2_uc011lww.1_Missense_Mutation_p.K122E	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	327	SCP2.					peroxisome	oxidoreductase activity|sterol binding				0						TGATGTTGTTAAAGCCACTCA	0.398													81	75					0	0	0.048971	0	0		G	115216406	G	G	115216406	3	3	154	1	0	0	0	0	1	0	0	0	7410	363	13	3	1013	3	HSDL2	9	115216406	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	11029151	115216406	25997025	75	83767											
TLR4	7099	broad.mit.edu	37	chr9	120475218	120475218	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgaaggaaacttggaaaAgtttgacaaatctgctctag	17	10	9	5	0	2	2	0	2	2	0	2	4	2	4	0	2	2	2	0	2	7	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:120475218A>C	uc004bjz.2	+	3	1103	c.812A>C	c.(811-813)AAG>ACG	p.K271T	TLR4_uc004bka.2_Missense_Mutation_p.K231T|TLR4_uc004bkb.2_Missense_Mutation_p.K71T	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	271	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						AACTTGGAAAAGTTTGACAAA	0.358													162	63					0	0	0.048971	0	0		C	120475218	C	C	120475218	3	2	154	1	0	0	0	0	1	0	0	0	15978	72	3	5	822	5	TLR4	9	120475218	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	5258812	120475218	20738213	76	83768											
OR1L4	254973	broad.mit.edu	37	chr9	125486451	125486452	+	Frame_Shift_Ins	INS	-	T	T																															ggctccacacccctatgtacINSttttttctcagcaacttgtc																										TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr9:125486451_125486452insT	uc004bmu.1	+	1	183_184	c.183_184insT	c.(181-186)TACTTTfs	p.Y61fs		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	61_62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCCCTATGTACTTTTTTCTCAG	0.446													63	110	---	---	---	---						.	T	125486452	T	T	125486451	7	5	154	1	0	1	1	0	0	0	0	0	10984	576	20	0	185	0	OR1L4	9	125486451	Frame_Shift_Ins	INS	-	TCGA-CG-5724-01A-11D-1600-08	5011233	125486451	15726980	77	83769											
LHPP	64077	broad.mit.edu	37	chr10	126172767	126172767	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cgagtcgcagaagtcccgggCagagctggtggggcagcttc	7	6	17	11	3	0	2	0	0	0	2	3	3	1	2	1	4	2	5	1	4	1	1	rs138019469		TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr10:126172767C>A	uc001lhs.1	+	2	205	c.185C>A	c.(184-186)GCA>GAA	p.A62E	LHPP_uc001lht.1_Missense_Mutation_p.A62E|LHPP_uc009yai.1_Missense_Mutation_p.A62E	NM_022126	NP_071409	Q9H008	LHPP_HUMAN	phospholysine phosphohistidine inorganic	62					protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.163)|Colorectal(40;0.187)		AAGTCCCGGGCAGAGCTGGTG	0.642													4	47					5.18039e-06	5.49059e-06	0.038147	1	0		A	126172767	A	A	126172767	3	1	154	1	0	0	0	0	1	0	0	0	8785	710	25	5	191	5	LHPP	10	126172767	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08		126172767	9361980	78	83770											
SBF2	81846	broad.mit.edu	37	chr11	9810669	9810669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacttacactgaaaaggctgGtgagagcatcaggctgagta	13	8	13	7	0	1	3	1	3	0	1	1	5	1	3	0	3	2	4	0	3	4	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:9810669G>A	uc001mib.2	-	35	5057	c.4919C>T	c.(4918-4920)ACC>ATC	p.T1640I	uc001mhz.1_Intron|SBF2_uc001mid.2_Missense_Mutation_p.T284I|SBF2_uc001mic.2_5'Flank|uc001mie.3_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1640	Interaction with MTMR2.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		GAAAAGGCTGGTGAGAGCATC	0.547													38	23					0	0	0.080422	0	0		A	9810669	A	A	9810669	3	1	154	1	0	0	0	0	1	0	0	0	13884	1261	44	4	654	4	SBF2	11	9810669	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		9810669	125195847	79	83771											
SPRYD5	84767	broad.mit.edu	37	chr11	55653609	55653610	+	Frame_Shift_Ins	INS	-	A	A																															gttttgcaggaggagctcctINSaaaaaaaatgcagtctttat																										TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:55653609_55653610insA	uc010rip.1	+	3	514_515	c.422_423insA	c.(421-423)CTAfs	p.L141fs	SPRYD5_uc010riq.1_5'UTR	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	141						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				GAGGAGCTCCTAAAAAAAATGC	0.401													26	42	---	---	---	---						.	A	55653610	A	A	55653609	7	5	154	1	0	1	1	0	0	0	0	0	15136	1522	53	0	428	0	SPRYD5	11	55653609	Frame_Shift_Ins	INS	-	TCGA-CG-5724-01A-11D-1600-08	45842940	55653609	79352907	80	83772											
C11orf84	144097	broad.mit.edu	37	chr11	63594451	63594451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccaggttatccgcgtgcGgatggaggagcccccagcgg	6	7	15	13	4	1	0	0	0	1	0	3	3	2	3	4	5	3	1	4	5	1	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:63594451G>A	uc001nxt.2	+	6	1222	c.986G>A	c.(985-987)CGG>CAG	p.R329Q	C11orf84_uc001nxu.1_RNA	NM_138471	NP_612480	Q9BUA3	CK084_HUMAN	hypothetical protein LOC144097	329											0						ATCCGCGTGCGGATGGAGGAG	0.677													3	30					0	0	0.004672	0	0		A	63594451	A	A	63594451	3	1	154	1	0	0	0	0	1	0	0	0	1670	1116	39	1	1008	1	C11orf84	11	63594451	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	7940842	63594451	71412065	81	83773											
PELI3	246330	broad.mit.edu	37	chr11	66241318	66241318	+	Frame_Shift_Del	DEL	T	-	-																															tccgaggactcagccccgggTgtctggcgggagatctcggt																										TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:66241318delT	uc001oic.3	+	7	926	c.762delT	c.(760-762)GGTfs	p.G254fs	PELI3_uc001oib.2_Frame_Shift_Del_p.G254fs|PELI3_uc001oid.3_Frame_Shift_Del_p.G230fs|PELI3_uc001oie.3_Frame_Shift_Del_p.G105fs|PELI3_uc010rpd.1_Frame_Shift_Del_p.G95fs	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	254						cytosol	protein binding			ovary(1)	1						CAGCCCCGGGTGTCTGGCGGG	0.647													57	84	---	---	---	---						.	-	66241318	-	-	66241318	7	5	154	1	0	1	0	1	0	0	0	0	11742	1683	59	0	784	0	PELI3	11	66241318	Frame_Shift_Del	DEL	T	TCGA-CG-5724-01A-11D-1600-08	2646867	66241318	68765198	82	83774											
FOLH1B	219595	broad.mit.edu	37	chr11	89431668	89431668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtttgatattgaaagcaaAgtggacccttccaaggcctg	11	11	10	9	0	0	2	0	2	0	0	1	3	1	3	3	2	1	2	3	2	4	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:89431668A>C	uc001pda.2	+	14	1756	c.1230A>C	c.(1228-1230)AAA>AAC	p.K410N		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	410					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TTGAAAGCAAAGTGGACCCTT	0.473													42	121					0	0	0.11126	0	0		C	89431668	C	C	89431668	3	2	154	1	0	0	0	0	1	0	0	0	5994	69	3	5	1276	5	FOLH1B	11	89431668	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	23190350	89431668	45574848	83	83775											
FAT3	120114	broad.mit.edu	37	chr11	92086454	92086454	+	Silent	SNP	T	C	C	0	1	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	agtgaattttcccctcctggTgtcgtggttgctatagtaaa	8	15	10	8	1	0	1	0	1	0	0	3	1	2	1	3	2	1	3	3	2	5	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:92086454T>C	uc001pdj.3	+	1	1193	c.1176T>C	c.(1174-1176)GGT>GGC	p.G392G		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	392	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCCCTCCTGGTGTCGTGGTTG	0.408										TCGA Ovarian(4;0.039)			24	11					0	0	0.069288	0	0		C	92086454	C	C	92086454	2	2	154	1	0	0	0	0	0	0	0	1	5705	1683	59	3		3	FAT3	11	92086454	Silent	SNP	T	TCGA-CG-5724-01A-11D-1600-08	2654786	92086454	42920062	84	83776											
KDM4D	55693	broad.mit.edu	37	chr11	94731169	94731169	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccttggggagcccaaaacTtggtatgtggtgcccccaga	9	8	12	12	0	0	1	0	0	0	1	0	2	0	2	4	4	3	1	4	4	3	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:94731169T>C	uc001pfe.2	+	3	1465	c.633T>C	c.(631-633)ACT>ACC	p.T211T		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	211	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AGCCCAAAACTTGGTATGTGG	0.577													67	33					0	0	0.048971	0	0		C	94731169	C	C	94731169	2	2	154	1	0	0	0	0	0	0	0	1	8147	1596	56	3		3	KDM4D	11	94731169	Silent	SNP	T	TCGA-CG-5724-01A-11D-1600-08	2644715	94731169	40275347	85	83777											
OR6T1	219874	broad.mit.edu	37	chr11	123814316	123814316	+	Missense_Mutation	SNP	A	G	G	1	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	cgacaagcatcttgggaaccAcaacagttaccagcaacagc	15	5	8	13	1	1	0	0	0	1	0	1	2	1	1	2	1	7	3	2	1	5	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr11:123814316A>G	uc010sab.1	-	1	230	c.230T>C	c.(229-231)GTG>GCG	p.V77A		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	77	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		CTTGGGAACCACAACAGTTAC	0.488													4	124					0	0	0.009096	0	0		G	123814316	G	G	123814316	3	3	154	1	0	0	0	0	1	0	0	0	11229	159	6	3	744	3	OR6T1	11	123814316	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	29083147	123814316	11192200	86	83778											
PRICKLE1	144165	broad.mit.edu	37	chr12	42858814	42858814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctacactgatctgctgacCggctgctcttgcccattcgg	5	12	10	14	2	3	2	0	2	3	0	4	2	3	2	2	2	4	3	2	2	1	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:42858814C>T	uc010skv.1	-	7	1309	c.1022G>A	c.(1021-1023)CGG>CAG	p.R341Q	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R341Q|PRICKLE1_uc010skw.1_Missense_Mutation_p.R341Q|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R341Q	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	341					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		ATCTGCTGACCGGCTGCTCTT	0.512													48	73					0	0	0.048971	0	0		T	42858814	T	T	42858814	3	4	154	1	0	0	0	0	1	0	0	0	12508	652	23	1	1481	1	PRICKLE1	12	42858814	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08		42858814	90993081	87	83779											
PUS7L	83448	broad.mit.edu	37	chr12	44148392	44148392	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctttgcatccaaatatttAaaaaagtcaaatgcttcctc	14	15	3	9	0	2	0	1	0	1	0	5	0	4	0	2	0	2	2	2	0	6	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:44148392A>T	uc001rnq.3	-	2	1146	c.657T>A	c.(655-657)TTT>TTA	p.F219L	PUS7L_uc001rnr.3_Missense_Mutation_p.F219L|PUS7L_uc001rns.3_Missense_Mutation_p.F219L|PUS7L_uc009zkb.2_Intron	NM_001098615	NP_001092085	Q9H0K6	PUS7L_HUMAN	pseudouridylate synthase 7 homolog (S.	219					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			pancreas(1)	1	all_cancers(12;0.00027)	Lung NSC(34;0.114)|all_lung(34;0.24)		GBM - Glioblastoma multiforme(48;0.0402)		CCAAATATTTAAAAAAGTCAA	0.299													36	143					0	0	0.054565	0	0		T	44148392	T	T	44148392	3	4	154	1	0	0	0	0	1	0	0	0	12859	359	13	5	1480	5	PUS7L	12	44148392	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	1289578	44148392	89703503	88	83780											
LARP4	113251	broad.mit.edu	37	chr12	50821557	50821557	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatttagcaggtagcatctAaaggaactggtttaaatcct	13	14	8	6	0	1	0	0	0	1	0	2	1	2	1	1	3	3	4	1	3	8	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:50821557A>G	uc001rwp.1	+	2	175	c.31A>G	c.(31-33)AAA>GAA	p.K11E	LARP4_uc001rwo.1_Missense_Mutation_p.K11E|LARP4_uc001rwq.1_Missense_Mutation_p.K11E|LARP4_uc001rwr.1_Missense_Mutation_p.K11E|LARP4_uc001rws.1_Missense_Mutation_p.K10E|LARP4_uc001rwm.2_Missense_Mutation_p.K11E|LARP4_uc001rwn.2_5'UTR	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	11							nucleotide binding|RNA binding			ovary(1)	1						GGTAGCATCTAAAGGAACTGG	0.348													53	60					0	0	0.048971	0	0		G	50821557	G	G	50821557	3	3	154	1	0	0	0	0	1	0	0	0	8646	363	13	3	37	3	LARP4	12	50821557	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	6673165	50821557	83030338	89	83781											
KRT74	121391	broad.mit.edu	37	chr12	52964594	52964594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacagaggtctcactggcGtgagtctggatctgagcgat	9	10	14	8	2	3	4	1	3	3	1	4	6	3	5	0	3	1	0	0	3	0	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:52964594G>A	uc001sap.1	-	5	915	c.867C>T	c.(865-867)CAC>CAT	p.H289H		NM_175053	NP_778223	Q7RTS7	K2C74_HUMAN	keratin 6 irs4	289	Rod.|Linker 12.					keratin filament	structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.191)		TCTCACTGGCGTGAGTCTGGA	0.567													10	48					0	0	0.058154	0	0		A	52964594	A	A	52964594	2	1	154	1	0	0	0	0	0	0	0	1	8503	1136	40	1		1	KRT74	12	52964594	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	2143037	52964594	80887301	90	83782											
MGAT4C	25834	broad.mit.edu	37	chr12	86373791	86373791	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagggatgcaatgactttcTtgatggcagttaagaaattt	12	14	10	5	0	1	3	0	2	1	1	1	4	1	4	0	2	1	3	0	2	4	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:86373791T>G	uc001tai.3	-	8	1963	c.713A>C	c.(712-714)AAG>ACG	p.K238T	MGAT4C_uc001tal.3_Missense_Mutation_p.K238T|MGAT4C_uc001taj.3_Missense_Mutation_p.K238T|MGAT4C_uc001tak.3_Missense_Mutation_p.K238T|MGAT4C_uc010sum.1_Missense_Mutation_p.K262T|MGAT4C_uc001tah.3_Missense_Mutation_p.K238T	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	238	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						AATGACTTTCTTGATGGCAGT	0.358													55	60					0	0	0.048971	0	0		G	86373791	G	G	86373791	3	3	154	1	0	0	0	0	1	0	0	0	9565	1609	56	5	727	5	MGAT4C	12	86373791	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	33409197	86373791	47478104	91	83783											
MGAT4C	25834	broad.mit.edu	37	chr12	86383296	86383296	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttatcaagtatttcaaaaAtatgtttcatttgatgaaat	15	19	4	3	0	3	2	3	2	0	0	3	2	3	2	0	0	0	2	0	0	7	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:86383296A>C	uc001tai.3	-	6	1279	c.29T>G	c.(28-30)ATT>AGT	p.I10S	MGAT4C_uc001tal.3_Missense_Mutation_p.I10S|MGAT4C_uc001taj.3_Missense_Mutation_p.I10S|MGAT4C_uc001tak.3_Missense_Mutation_p.I10S|MGAT4C_uc010sum.1_Missense_Mutation_p.I34S|MGAT4C_uc001tah.3_Missense_Mutation_p.I10S	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	10	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						TATTTCAAAAATATGTTTCAT	0.308													19	64					0	0	0.055883	0	0		C	86383296	C	C	86383296	3	2	154	1	0	0	0	0	1	0	0	0	9565	101	4	5	1419	5	MGAT4C	12	86383296	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	9505	86383296	47468599	92	83784											
C12orf51	283450	broad.mit.edu	37	chr12	112685929	112685929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctccagtttcccctgcatgGcatcatcaacttcactttgc	7	14	5	15	0	4	0	3	0	1	0	6	0	5	0	3	1	3	3	3	1	1	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:112685929G>A	uc009zwc.2	-	20	2942	c.2924C>T	c.(2923-2925)GCC>GTC	p.A975V		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CCCCTGCATGGCATCATCAAC	0.328													4	52					0	0	0.009096	0	0		A	112685929	A	A	112685929	3	1	154	1	0	0	0	0	1	0	0	0	1699	1203	42	2	9266	2	C12orf51	12	112685929	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	26302633	112685929	21165966	93	83785											
MORN3	283385	broad.mit.edu	37	chr12	122091042	122091042	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccaaagtcgatcatcgtcCcgcatttggccatattgtcc	8	11	9	13	3	1	0	1	0	0	0	5	1	3	0	4	2	0	1	4	2	2	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr12:122091042C>A	uc001uax.2	-	4	758	c.587G>T	c.(586-588)GGG>GTG	p.G196V	MORN3_uc001uay.2_Intron	NM_173855	NP_776254	Q6PF18	MORN3_HUMAN	MORN repeat containing 3	196	MORN 7.										0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000409)|Epithelial(86;0.00145)		GATCATCGTCCCGCATTTGGC	0.617													3	43					6.4e-05	6.62456e-05	0.004672	1	0		A	122091042	A	A	122091042	3	1	154	1	0	0	0	0	1	0	0	0	9727	623	22	5	143	5	MORN3	12	122091042	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	9405113	122091042	11760853	94	83786											
EDNRB	1910	broad.mit.edu	37	chr13	78492471	78492471	+	Missense_Mutation	SNP	A	G	G	1	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	ggagatggtgcgtggcggagAtcctgccgtcctgtctcctt	4	11	15	11	3	1	2	0	0	1	2	4	4	3	2	4	4	2	0	4	4	0	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr13:78492471A>G	uc001vko.2	-	1	496	c.238T>C	c.(238-240)TCT>CCT	p.S80P	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.S80P|EDNRB_uc010aez.1_Missense_Mutation_p.S80P|EDNRB_uc001vkp.1_Missense_Mutation_p.S163P|EDNRB_uc010afa.1_Missense_Mutation_p.S80P	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	80	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CGTGGCGGAGATCCTGCCGTC	0.592													18	86					0	0	0.055883	0	0		G	78492471	G	G	78492471	3	3	154	1	0	0	0	0	1	0	0	0	4926	333	12	3	1239	3	EDNRB	13	78492471	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08		78492471	36677407	95	83787											
OR4M1	441670	broad.mit.edu	37	chr14	20248768	20248768	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gaagataatttcctttggtgGatgcattgcacagctcttct	9	15	9	8	0	2	1	0	0	2	1	3	3	3	2	1	2	3	3	1	2	2	5	rs62619918		TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr14:20248768G>C	uc010tku.1	+	1	287	c.287G>C	c.(286-288)GGA>GCA	p.G96A		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCCTTTGGTGGATGCATTGCA	0.468													19	464					0	0	0.049695	0	0		C	20248768	C	C	20248768	3	2	154	1	0	0	0	0	1	0	0	0	11094	1174	41	5	289	5	OR4M1	14	20248768	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		20248768	87100772	96	83788											
DLGAP5	9787	broad.mit.edu	37	chr14	55655676	55655676	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttacttggcttaacattggtCttttctggaacaagcccttg	8	16	8	9	0	2	0	0	0	2	0	2	1	2	1	1	3	4	1	1	3	4	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr14:55655676C>T	uc001xbs.2	-	2	439	c.222G>A	c.(220-222)AAG>AAA	p.K74K	DLGAP5_uc001xbt.2_Silent_p.K74K	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	74					cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						TAACATTGGTCTTTTCTGGAA	0.348													62	73					0	0	0.048971	0	0		T	55655676	T	T	55655676	2	4	154	1	0	0	0	0	0	0	0	1	4569	912	32	4		4	DLGAP5	14	55655676	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	35406908	55655676	51693864	97	83789											
FOXN3	1112	broad.mit.edu	37	chr14	89878584	89878584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgacactcctgaggacCgactccccaaagctcttcag	9	7	10	15	1	2	2	1	2	1	0	4	4	4	3	4	2	1	2	4	2	1	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr14:89878584C>T	uc001xxo.3	-	2	374	c.237G>A	c.(235-237)TCG>TCA	p.S79S	FOXN3_uc001xxn.3_Silent_p.S79S|FOXN3_uc010atk.2_Silent_p.S79S|FOXN3_uc001xxp.2_Silent_p.S79S	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	79					DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding	p.S79L(1)		skin(2)|ovary(1)	3						TCCTGAGGACCGACTCCCCAA	0.587													32	103					0	0	0.054565	0	0		T	89878584	T	T	89878584	2	4	154	1	0	0	0	0	0	0	0	1	6035	639	23	1		1	FOXN3	14	89878584	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	34222908	89878584	17470956	98	83790											
LGMN	5641	broad.mit.edu	37	chr14	93176169	93176169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tagggggacgggagaactggCtttgcgtttcataccctgaa	9	10	14	8	2	1	2	1	1	0	1	1	4	1	3	1	4	3	2	1	4	4	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr14:93176169C>T	uc001yav.2	-	12	1194	c.868G>A	c.(868-870)GCC>ACC	p.A290T	LGMN_uc001yat.2_Missense_Mutation_p.A290T|LGMN_uc001yau.2_Missense_Mutation_p.A290T|LGMN_uc001yaw.2_Missense_Mutation_p.A290T|LGMN_uc010aul.2_Missense_Mutation_p.A171T|LGMN_uc001yax.2_Missense_Mutation_p.A290T|LGMN_uc001yay.2_Missense_Mutation_p.A290T	NM_001008530	NP_001008530	Q99538	LGMN_HUMAN	legumain preproprotein	290					hormone biosynthetic process|negative regulation of neuron apoptosis|vitamin D metabolic process	lysosome	cysteine-type endopeptidase activity|protein serine/threonine kinase activity			skin(1)	1		all_cancers(154;0.0706)		COAD - Colon adenocarcinoma(157;0.224)		GGAGAACTGGCTTTGCGTTTC	0.433													75	98					0	0	0.048971	0	0		T	93176169	T	T	93176169	3	4	154	1	0	0	0	0	1	0	0	0	8771	797	28	2	449	2	LGMN	14	93176169	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	3297585	93176169	14173371	99	83791											
KIAA1409	57578	broad.mit.edu	37	chr14	94088466	94088466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atactctcaacctccgacagCgactctcttgtatttgagcc	9	12	6	14	2	2	1	1	1	2	0	5	3	3	1	3	0	4	1	3	0	3	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr14:94088466C>T	uc001ybv.1	+	28	4505	c.4422C>T	c.(4420-4422)AGC>AGT	p.S1474S	KIAA1409_uc001ybs.1_Silent_p.S1452S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1629						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CCTCCGACAGCGACTCTCTTG	0.493													40	117					0	0	0.09836	0	0		T	94088466	T	T	94088466	2	4	154	1	0	0	0	0	0	0	0	1	8246	767	27	1		1	KIAA1409	14	94088466	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	912297	94088466	13261074	100	83792											
CSPG4	1464	broad.mit.edu	37	chr15	75974714	75974714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggcctagctgggggccccGcaccacacggtagagcagga	8	3	15	15	3	0	1	0	0	0	1	0	2	0	2	5	5	2	4	5	5	2	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr15:75974714G>A	uc002baw.2	-	8	4963	c.4870C>T	c.(4870-4872)CGG>TGG	p.R1624W		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	1624	Extracellular (Potential).|Cysteine-containing.|Neurite growth inhibition (By similarity).|CSPG 11.				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						TGGGGGCCCCGCACCACACGG	0.662													39	24					0	0	0.080422	0	0		A	75974714	A	A	75974714	3	1	154	1	0	0	0	0	1	0	0	0	3963	1086	38	1	2110	1	CSPG4	15	75974714	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		75974714	26556678	101	83793											
ZNF710	374655	broad.mit.edu	37	chr15	90617399	90617399	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctgggccacatgcacCtgcacgccggcagcaagccc	8	4	11	18	2	0	0	0	0	0	0	0	0	0	0	5	2	5	5	5	2	1	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr15:90617399C>T	uc002bov.1	+	4	1825	c.1702C>T	c.(1702-1704)CTG>TTG	p.L568L		NM_198526	NP_940928	Q8N1W2	ZN710_HUMAN	zinc finger protein 710	568	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.00769)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.129)			CCACATGCACCTGCACGCCGG	0.577													34	46					0	0	0.069456	0	0		T	90617399	T	T	90617399	2	4	154	1	0	0	0	0	0	0	0	1	18140	680	24	4		4	ZNF710	15	90617399	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	14642685	90617399	11913993	102	83794											
ALDH1A3	220	broad.mit.edu	37	chr15	101445802	101445802	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaggggccaagctggaatgCgggggctcagccatggaaga	11	4	18	8	1	1	1	1	0	0	1	1	4	1	3	2	6	3	2	2	6	4	0	rs113661159		TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr15:101445802C>T	uc002bwn.3	+	10	1247	c.1143C>T	c.(1141-1143)TGC>TGT	p.C381C	ALDH1A3_uc010bpb.2_Silent_p.C274C|uc002bwo.1_Intron	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	381					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	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)		NADH(DB00157)|Vitamin A(DB00162)	AGCTGGAATGCGGGGGCTCAG	0.498													41	36					0	0	0.086207	0	0		T	101445802	T	T	101445802	2	4	154	1	0	0	0	0	0	0	0	1	492	776	27	1		1	ALDH1A3	15	101445802	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	10828403	101445802	1085590	103	83795											
ZNF768	79724	broad.mit.edu	37	chr16	30536081	30536081	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaaggtcttgccgcagtcGgggcagctgtaggtgcggcc	5	9	17	10	3	1	1	0	1	1	0	2	1	1	1	2	5	3	4	2	5	2	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr16:30536081G>A	uc002dyk.3	-	2	1556	c.1380C>T	c.(1378-1380)CCC>CCT	p.P460P	ZNF768_uc010vex.1_Silent_p.P429P|uc002dyl.1_5'Flank|ZNF768_uc010vew.1_Silent_p.P429P	NM_024671	NP_078947	Q9H5H4	ZN768_HUMAN	zinc finger protein 768	460	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	DNA binding|zinc ion binding				0						TGCCGCAGTCGGGGCAGCTGT	0.682													6	14					0	0	0.069234	0	0		A	30536081	A	A	30536081	2	1	154	1	0	0	0	0	0	0	0	1	18166	1103	39	1		1	ZNF768	16	30536081	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08		30536081	59818672	104	83796											
CDH11	1009	broad.mit.edu	37	chr16	65016134	65016134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggccattgctgataaacTtcgggtcgatgtgcacgttg	9	11	13	8	3	0	1	0	1	0	0	2	2	0	1	1	2	3	3	1	2	3	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr16:65016134T>G	uc002eoi.2	-	8	1504	c.1070A>C	c.(1069-1071)AAG>ACG	p.K357T	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.K357T|CDH11_uc010vin.1_Missense_Mutation_p.K231T|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	357	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GCTGATAAACTTCGGGTCGAT	0.478			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			67	35					0	0	0.048971	0	0		G	65016134	G	G	65016134	3	3	154	1	0	0	0	0	1	0	0	0	3100	1609	56	5	1344	5	CDH11	16	65016134	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	34480053	65016134	25338619	105	83797											
PSKH1	5681	broad.mit.edu	37	chr16	67961298	67961298	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacagtggaccctggagcccGtatgactgcactgcaggccc	8	6	13	14	1	0	1	0	1	0	0	0	4	0	3	3	3	3	3	3	3	1	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr16:67961298G>C	uc002euv.2	+	3	1198	c.1028G>C	c.(1027-1029)CGT>CCT	p.R343P		NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	343	Protein kinase.					endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		CCTGGAGCCCGTATGACTGCA	0.582													52	26					0	0	0.048971	0	0		C	67961298	C	C	67961298	3	2	154	1	0	0	0	0	1	0	0	0	12686	1145	40	5	1034	5	PSKH1	16	67961298	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	2945164	67961298	22393455	106	83798											
SLC7A6	9057	broad.mit.edu	37	chr16	68325560	68325560	+	Missense_Mutation	SNP	T	G	G	0	1	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	atgcatccatctttgcttcaTcaaggtactgtgtctctgtg	7	16	8	10	0	4	0	2	0	2	0	6	0	5	0	1	1	3	3	1	1	2	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr16:68325560T>G	uc002evt.1	+	8	1327	c.1018T>G	c.(1018-1020)TCA>GCA	p.S340A	SLC7A6_uc010cfb.1_RNA|SLC7A6_uc002evu.1_Missense_Mutation_p.S340A|SLC7A6_uc002evv.1_RNA|SLC7A6_uc010cfc.1_RNA	NM_001076785	NP_001070253	Q92536	YLAT2_HUMAN	solute carrier family 7 (cationic amino acid	340	Cytoplasmic (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	basolateral plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|antiporter activity			central_nervous_system(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.0948)		CTTTGCTTCATCAAGGTACTG	0.478													78	164					0	0	0.048971	0	0		G	68325560	G	G	68325560	3	3	154	1	0	0	0	0	1	0	0	0	14726	1435	50	5	1036	5	SLC7A6	16	68325560	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	364262	68325560	22029193	107	83799											
KIAA0664	23277	broad.mit.edu	37	chr17	2604521	2604521	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggaatggcttaggaagcggGggctggcgggcttggggttg	5	8	23	5	2	0	0	0	0	0	0	0	2	0	2	0	9	1	4	0	9	3	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:2604521G>T	uc002fuy.1	-	7	910	c.824C>A	c.(823-825)CCC>CAC	p.P275H	KIAA0664_uc002fux.1_Missense_Mutation_p.P207H	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	275							binding			breast(2)	2						TAGGAAGCGGGGGCTGGCGGG	0.607													7	22					1.6384e-10	1.80122e-10	0.02938	1	0		T	2604521	T	T	2604521	3	4	154	1	0	0	0	0	1	0	0	0	8205	1232	43	5	3185	5	KIAA0664	17	2604521	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		2604521	78590689	108	83800											
TMEM95	339168	broad.mit.edu	37	chr17	7258584	7258584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaggcttgtgtcttctgtCgcctcccagcccacgacttg	4	11	9	17	2	2	0	0	0	2	0	4	1	3	0	4	1	1	1	4	1	0	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:7258584C>T	uc002ggh.1	+	1	88	c.61C>T	c.(61-63)CGC>TGC	p.R21C	TMEM95_uc002ggf.1_Missense_Mutation_p.R21C|TMEM95_uc002ggg.1_Missense_Mutation_p.R21C	NM_198154	NP_937797	Q3KNT9	TMM95_HUMAN	transmembrane protein 95	21	Extracellular (Potential).					integral to membrane					0		Prostate(122;0.173)				TGTCTTCTGTCGCCTCCCAGC	0.672													7	7					0	0	0.055883	0	0		T	7258584	T	T	7258584	3	4	154	1	0	0	0	0	1	0	0	0	16248	884	31	1	63	1	TMEM95	17	7258584	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	4654063	7258584	73936626	109	83801											
SLFN12L	342615	broad.mit.edu	37	chr17	33802111	33802111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcagggtaaattacttgcGagtttaaatcatactggcag	13	13	9	6	1	2	0	2	0	0	0	2	1	2	0	0	2	3	3	0	2	6	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:33802111G>A	uc002hjn.2	-	5	2564	c.1685C>T	c.(1684-1686)TCG>TTG	p.S562L		NM_001145027	NP_001138499			schlafen family member 12-like											ovary(1)	1						AATTACTTGCGAGTTTAAATC	0.388													46	86					0	0	0.048971	0	0		A	33802111	A	A	33802111	3	1	154	1	0	0	0	0	1	0	0	0	14760	1059	37	1	172	1	SLFN12L	17	33802111	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	26543527	33802111	47393099	110	83802											
CDK12	51755	broad.mit.edu	37	chr17	37650864	37650864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgaaatcaaaatccttcGtcagttaatccaccgaagtg	13	11	7	10	3	2	1	2	1	0	0	6	2	4	1	3	0	0	1	3	0	5	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:37650864G>A	uc010cvv.2	+	5	2922	c.2336G>A	c.(2335-2337)CGT>CAT	p.R779H	CDK12_uc010wef.1_Missense_Mutation_p.R778H|CDK12_uc002hrw.3_Missense_Mutation_p.R779H	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	779	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AAAATCCTTCGTCAGTTAatc	0.279										TCGA Ovarian(9;0.13)			12	56					0	0	0.09319	0	0		A	37650864	A	A	37650864	3	1	154	1	0	0	0	0	1	0	0	0	3131	1145	40	1	2354	1	CDK12	17	37650864	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	3848753	37650864	43544346	111	83803											
EFTUD2	9343	broad.mit.edu	37	chr17	42937799	42937799	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggtctcttcagaaactctaCctcctcattgcctcggggtt	6	14	8	13	1	4	1	2	0	2	1	7	1	5	1	3	3	3	1	3	3	2	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:42937799C>A	uc002ihn.2	-	17	1980	c.1719_splice	c.e17+1	p.E573_splice	EFTUD2_uc010wje.1_Splice_Site_p.E538_splice|EFTUD2_uc010wjf.1_Splice_Site_p.E563_splice	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain							Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				AGAAACTCTACCTCCTCATTG	0.502													3	155					6.4e-05	6.62456e-05	0.004672	1	0		A	42937799	A	A	42937799	5	1	154	1	0	0	0	0	0	0	1	0	4967	521	18	5	1246	5	EFTUD2	17	42937799	Splice_Site	SNP	C	TCGA-CG-5724-01A-11D-1600-08	5286935	42937799	38257411	112	83804											
LRRC59	55379	broad.mit.edu	37	chr17	48462540	48462540	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcccgcttggctgctttgagGgcatcatactcctttctccg	4	14	9	14	2	2	1	1	1	1	0	5	1	4	1	3	2	2	4	3	2	1	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:48462540G>A	uc002iqt.2	-	6	769	c.615C>T	c.(613-615)GCC>GCT	p.A205A		NM_018509	NP_060979	Q96AG4	LRC59_HUMAN	leucine rich repeat containing 59	205	Potential.|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial nucleoid	protein binding			central_nervous_system(1)	1	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;2.43e-08)			CTGCTTTGAGGGCATCATACT	0.557													65	268					0	0	0.048971	0	0		A	48462540	A	A	48462540	2	1	154	1	0	0	0	0	0	0	0	1	9033	1219	43	4		4	LRRC59	17	48462540	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	5524741	48462540	32732670	113	83805											
EXOC7	23265	broad.mit.edu	37	chr17	74081411	74081411	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgcgctggtaggtctGgatctgctgctcaatgtgct	5	13	12	11	1	4	0	2	0	2	0	4	1	4	1	1	3	4	5	1	3	2	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:74081411G>A	uc002jqs.2	-	16	1944	c.1849C>T	c.(1849-1851)CAG>TAG	p.Q617*	EXOC7_uc002jqp.1_5'Flank|EXOC7_uc010dgv.1_Nonsense_Mutation_p.Q491*|EXOC7_uc002jqq.2_Nonsense_Mutation_p.Q566*|EXOC7_uc010wsw.1_Nonsense_Mutation_p.Q589*|EXOC7_uc010wsx.1_Nonsense_Mutation_p.Q558*|EXOC7_uc002jqr.2_Nonsense_Mutation_p.Q535*|EXOC7_uc010wsv.1_Nonsense_Mutation_p.Q538*	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4	617					exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			TGGTAGGTCTGGATCTGCTGC	0.627													7	8					0	0	0.038147	0	0		A	74081411	A	A	74081411	4	1	154	1	0	0	0	0	0	1	0	0	5318	1357	47	4	378	4	EXOC7	17	74081411	Nonsense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	25618871	74081411	7113799	114	83806											
SEC14L1	6397	broad.mit.edu	37	chr17	75196749	75196749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggaggctggcatcatcacGacaaaggtaccggatggagt	11	6	15	9	3	2	0	2	0	0	0	2	4	2	3	1	6	1	3	1	6	2	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr17:75196749G>A	uc002jto.2	+	9	1270	c.1003G>A	c.(1003-1005)GAC>AAC	p.D335N	SEC14L1_uc010dhc.2_Missense_Mutation_p.D335N|SEC14L1_uc010wth.1_Missense_Mutation_p.D335N|SEC14L1_uc002jtm.2_Missense_Mutation_p.D335N|SEC14L1_uc010wti.1_Missense_Mutation_p.D301N	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a	335	CRAL-TRIO.				transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						GCATCATCACGACAAAGGTAC	0.507													87	133					0	0	0.048971	0	0		A	75196749	A	A	75196749	3	1	154	1	0	0	0	0	1	0	0	0	14006	1058	37	1	1029	1	SEC14L1	17	75196749	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	1115338	75196749	5998461	115	83807											
PTPRM	5797	broad.mit.edu	37	chr18	8113545	8113545	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaaaaagacgacagaaatcTtaaagtgctacccagtgcca	17	7	7	10	1	1	2	0	0	1	2	1	3	1	2	2	0	3	1	2	0	7	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr18:8113545T>G	uc002knn.3	+	12	2421	c.1918T>G	c.(1918-1920)TTA>GTA	p.L640V	PTPRM_uc010dkv.2_Missense_Mutation_p.L640V|PTPRM_uc010wzl.1_Missense_Mutation_p.L427V	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	640	Fibronectin type-III 4.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GACAGAAATCTTAAAGTGCTA	0.403													63	129					0	0	0.048971	0	0		G	8113545	G	G	8113545	3	3	154	1	0	0	0	0	1	0	0	0	12831	1606	56	5	1964	5	PTPRM	18	8113545	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08		8113545	69963703	116	83808											
KLHL14	57565	broad.mit.edu	37	chr18	30260165	30260165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctccaattgcatacaagcGatcattcattacagccaaag	14	10	5	12	1	2	0	2	0	0	0	4	1	4	0	3	0	5	1	3	0	5	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr18:30260165G>A	uc002kxm.1	-	7	1943	c.1555C>T	c.(1555-1557)CGC>TGC	p.R519C	KLHL14_uc010dmd.1_Missense_Mutation_p.R68C	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	519						cytosol|endoplasmic reticulum membrane				ovary(1)	1						GCATACAAGCGATCATTCATT	0.378													57	50					0	0	0.048971	0	0		A	30260165	A	A	30260165	3	1	154	1	0	0	0	0	1	0	0	0	8386	1058	37	1	343	1	KLHL14	18	30260165	Missense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08	22146620	30260165	47817083	117	83809											
C18orf34	374864	broad.mit.edu	37	chr18	30847015	30847015	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcaatatcccatgtttttTtctttaagaaaagaataaaa	16	15	4	6	0	2	2	1	0	1	2	3	2	3	2	1	0	0	2	1	0	8	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr18:30847015T>G	uc002kxn.2	-	13	1416	c.1274A>C	c.(1273-1275)AAA>ACA	p.K425T	C18orf34_uc010dme.1_5'UTR|C18orf34_uc010xbr.1_Missense_Mutation_p.K425T|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.K425T|C18orf34_uc002kxp.2_Missense_Mutation_p.K425T	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	425										ovary(1)	1						CCATGTTTTTTTCTTTAAGAA	0.264													21	49					0	0	0.062417	0	0		G	30847015	G	G	30847015	3	3	154	1	0	0	0	0	1	0	0	0	1905	1855	64	5	1369	5	C18orf34	18	30847015	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	586850	30847015	47230233	118	83810											
NOL4	8715	broad.mit.edu	37	chr18	31538236	31538236	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgctcggcttcaacgccGtctgtctcattaactttctc	6	13	7	15	4	4	0	2	0	3	0	7	0	4	0	2	1	3	2	2	1	2	3	rs141277558		TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr18:31538236G>A	uc010dmi.2	-	7	1432	c.1203C>T	c.(1201-1203)GAC>GAT	p.D401D	NOL4_uc010xbs.1_Silent_p.D116D|NOL4_uc002kxr.3_Silent_p.D237D|NOL4_uc010xbt.1_Silent_p.D327D|NOL4_uc010dmh.2_Silent_p.D327D|NOL4_uc010xbu.1_Silent_p.D401D|NOL4_uc002kxt.3_Silent_p.D401D|NOL4_uc010xbv.1_Silent_p.D150D|NOL4_uc010xbw.1_Silent_p.D287D	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	401						nucleolus	RNA binding			ovary(3)	3						CTTCAACGCCGTCTGTCTCAT	0.483													33	111					0	0	0.059317	0	0		A	31538236	A	A	31538236	2	1	154	1	0	0	0	0	0	0	0	1	10543	1136	40	1		1	NOL4	18	31538236	Silent	SNP	G	TCGA-CG-5724-01A-11D-1600-08	691221	31538236	46539012	119	83811											
C18orf25	147339	broad.mit.edu	37	chr18	43843012	43843012	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtgactccccagcagacTtgggcttcaccagcagaagt	9	8	11	13	0	1	3	1	1	0	2	2	3	2	3	3	1	2	4	3	1	1	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr18:43843012T>C	uc002lbw.2	+	6	1525	c.1146T>C	c.(1144-1146)ACT>ACC	p.T382T	C18orf25_uc002lbx.2_Silent_p.T321T	NM_145055	NP_659492	Q96B23	CR025_HUMAN	ARKadia-like 1 isoform a	381										central_nervous_system(2)	2						CCCAGCAGACTTGGGCTTCAC	0.488													45	20					0	0	0.039052	0	0		C	43843012	C	C	43843012	2	2	154	1	0	0	0	0	0	0	0	1	1902	1596	56	3		3	C18orf25	18	43843012	Silent	SNP	T	TCGA-CG-5724-01A-11D-1600-08	12304776	43843012	34234236	120	83812											
TCEB3C	162699	broad.mit.edu	37	chr18	44554665	44554665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgttttcgggttttgtccgCgggcgccgcgtgccggttgc	0	13	16	12	7	0	0	0	0	0	0	2	0	1	0	3	3	2	3	3	3	0	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr18:44554665C>T	uc010xdb.1	-	1	1785	c.1549G>A	c.(1549-1551)GCG>ACG	p.A517T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	517					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GTTTTGTccgcgggcgccgcg	0.368													11	184					0	0	0.049695	0	0		T	44554665	T	T	44554665	3	4	154	1	0	0	0	0	1	0	0	0	15708	768	27	1	1738	1	TCEB3C	18	44554665	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	711653	44554665	33522583	121	83813											
DCC	1630	broad.mit.edu	37	chr18	50731602	50731602	+	Silent	SNP	A	G	G	1	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	acagtgcaagttccagggccAgtagaaaacctgcaagctgt	13	7	11	10	0	0	1	0	0	0	1	1	1	1	1	3	1	4	5	3	1	5	2			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr18:50731602A>G	uc002lfe.1	+	10	2177	c.1590A>G	c.(1588-1590)CCA>CCG	p.P530P	DCC_uc010xdr.1_Silent_p.P378P|DCC_uc010dpf.1_Silent_p.P185P	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	530	Extracellular (Potential).|Fibronectin type-III 2.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TTCCAGGGCCAGTAGAAAACC	0.378													106	85					0	0	0.048971	0	0		G	50731602	G	G	50731602	2	3	154	1	0	0	0	0	0	0	0	1	4285	175	7	3		3	DCC	18	50731602	Silent	SNP	A	TCGA-CG-5724-01A-11D-1600-08	6176937	50731602	27345646	122	83814											
TICAM1	148022	broad.mit.edu	37	chr19	4816472	4816472	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggggagggcggtgggggggTgccagcctgccatgcgtgca	4	6	22	9	2	0	0	0	0	0	0	0	1	0	1	3	7	5	1	3	7	0	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:4816472T>G	uc002mbi.2	-	2	2169	c.1918A>C	c.(1918-1920)ACC>CCC	p.T640P		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	640	Sufficient to induce apoptosis.|Pro-rich.			Missing (in Ref. 6; AAO85488).	apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		GGTGGGGGGGTGCCAGCCTGC	0.721													4	5					0	0	0.021553	0	0		G	4816472	G	G	4816472	3	3	154	1	0	0	0	0	1	0	0	0	15917	1696	59	5	224	5	TICAM1	19	4816472	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08		4816472	54312511	123	83815											
MAP2K7	5609	broad.mit.edu	37	chr19	7977228	7977228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacgctggaggtggacgtggCgtcctggttcaaggatgtca	7	9	17	8	3	2	0	2	0	0	0	3	4	3	3	1	6	0	2	1	6	1	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:7977228C>T	uc002mit.2	+	11	1237	c.1172C>T	c.(1171-1173)GCG>GTG	p.A391V	MAP2K7_uc002miv.2_Missense_Mutation_p.A398V|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.A398V|MAP2K7_uc010dvv.2_Missense_Mutation_p.A266V	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	391					activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GTGGACGTGGCGTCCTGGTTC	0.642													3	49					0	0	0.004672	0	0		T	7977228	T	T	7977228	3	4	154	1	0	0	0	0	1	0	0	0	9260	768	27	1	1214	1	MAP2K7	19	7977228	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	3160756	7977228	51151755	124	83816											
MUC16	94025	broad.mit.edu	37	chr19	9010689	9010689	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggagtccctgaggtcccaAggtccactgtggaggtccca	8	8	13	12	0	0	1	0	1	0	0	4	3	4	3	4	5	0	0	4	5	1	0			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:9010689A>C	uc002mkp.2	-	38	39176	c.38972T>G	c.(38971-38973)CTT>CGT	p.L12991R	MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12993	Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAGGTCCCAAGGTCCACTGT	0.517													28	20					0	0	0.050027	0	0		C	9010689	C	C	9010689	3	2	154	1	0	0	0	0	1	0	0	0	9991	72	3	5	4739	5	MUC16	19	9010689	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	1033461	9010689	50118294	125	83817											
ZNF44	51710	broad.mit.edu	37	chr19	12383467	12383467	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgctttcctgcattgctTacattcatatggcttctctg	7	17	7	10	0	2	0	1	0	1	0	4	1	3	0	1	1	4	4	1	1	3	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:12383467T>C	uc010xmj.1	-	5	1952	c.1747A>G	c.(1747-1749)AAG>GAG	p.K583E	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.K535E	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	583	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		CTGCATTGCTTACATTCATAT	0.403													3	43					0	0	0.004672	0	0		C	12383467	C	C	12383467	3	2	154	1	0	0	0	0	1	0	0	0	17937	1763	61	3	248	3	ZNF44	19	12383467	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	3372778	12383467	46745516	126	83818											
NCAN	1463	broad.mit.edu	37	chr19	19349171	19349171	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggactgccgccgccgctcCggccacctgaccagcgtcca	7	4	11	19	5	0	1	0	1	0	0	2	2	2	2	8	2	2	1	8	2	1	0	rs146079504		TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:19349171C>T	uc002nlz.2	+	11	3459	c.3360C>T	c.(3358-3360)TCC>TCT	p.S1120S	NCAN_uc010ecc.1_Silent_p.S684S|NCAN_uc002nma.2_5'Flank	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1120	C-type lectin.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GCCGCCGCTCCGGCCACCTGA	0.652													27	15					0	0	0.042209	0	0		T	19349171	T	T	19349171	2	4	154	1	0	0	0	0	0	0	0	1	10223	639	23	1		1	NCAN	19	19349171	Silent	SNP	C	TCGA-CG-5724-01A-11D-1600-08	6965704	19349171	39779812	127	83819											
ZNF208	7757	broad.mit.edu	37	chr19	22154442	22154442	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctccagtatgaattacctTatgtttagtaaggattgaga	12	15	8	6	0	1	2	0	2	1	1	2	4	1	3	2	1	1	3	2	1	6	7			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:22154442T>C	uc002nqp.2	-	6	3159	c.3010A>G	c.(3010-3012)AAG>GAG	p.K1004E	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208									p.K1004N(1)		ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TGAATTACCTTATGTTTAGTA	0.358													3	170					0	0	0.004672	0	0		C	22154442	C	C	22154442	3	2	154	1	0	0	0	0	1	0	0	0	17791	1763	61	3	452	3	ZNF208	19	22154442	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	2805271	22154442	36974541	128	83820											
ZNF790	388536	broad.mit.edu	37	chr19	37314605	37314605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gctgtagttctccaacatcaCatctctatataaatccctct	11	14	3	13	0	4	0	1	0	3	0	7	0	5	0	2	0	1	3	2	0	6	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:37314605C>T	uc002oew.2	-	3	216	c.97G>A	c.(97-99)GTG>ATG	p.V33M	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	33	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TCCAACATCACATCTCTATAT	0.408													17	113					0	0	0.028581	0	0		T	37314605	T	T	37314605	3	4	154	1	0	0	0	0	1	0	0	0	18187	478	17	4	1825	4	ZNF790	19	37314605	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	15160163	37314605	21814378	129	83821											
RYR1	6261	broad.mit.edu	37	chr19	38983186	38983186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagaccaccctgggcagcCgcctcatgagcctgttggag	9	6	13	13	1	1	2	1	1	0	1	1	4	1	3	5	2	2	2	5	2	1	1			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:38983186C>T	uc002oit.2	+	38	6314	c.6184C>T	c.(6184-6186)CGC>TGC	p.R2062C	RYR1_uc002oiu.2_Missense_Mutation_p.R2062C	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2062	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCTGGGCAGCCGCCTCATGAG	0.522													5	56					0	0	0.021553	0	0		T	38983186	T	T	38983186	3	4	154	1	0	0	0	0	1	0	0	0	13793	652	23	1	6334	1	RYR1	19	38983186	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	1668581	38983186	20145797	130	83822											
ZNF841	284371	broad.mit.edu	37	chr19	52569312	52569312	+	Missense_Mutation	SNP	T	A	A	0	1	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	gaattgaaaggtttccactgTcaatgaagaccttgccacac	13	10	8	10	0	1	3	1	2	0	1	2	4	2	3	3	1	1	1	3	1	4	3			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:52569312T>A	uc002pyl.1	-	5	2027	c.1475A>T	c.(1474-1476)GAC>GTC	p.D492V	ZNF841_uc010ydh.1_Missense_Mutation_p.D608V|ZNF841_uc010epk.1_Intron	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	492	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTTCCACTGTCAATGAAGAC	0.443													29	194					0	0	0.037714	0	0		A	52569312	A	A	52569312	3	1	154	1	0	0	0	0	1	0	0	0	18214	1667	58	5	955	5	ZNF841	19	52569312	Missense_Mutation	SNP	T	TCGA-CG-5724-01A-11D-1600-08	13586126	52569312	6559671	131	83823											
ZNF836	162962	broad.mit.edu	37	chr19	52658985	52658985	+	Missense_Mutation	SNP	A	T	T	1	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	ccgatgacgtgctaggcatgAgtagtaactgaaaaccttgc	12	9	11	9	2	0	3	0	3	0	0	0	4	0	3	2	1	4	4	2	1	5	4			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr19:52658985A>T	uc010ydi.1	-	5	2325	c.1951T>A	c.(1951-1953)TCA>ACA	p.S651T	ZNF836_uc010ydj.1_Missense_Mutation_p.S651T	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	651	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCTAGGCATGAGTAGTAACTG	0.413													5	372					0	0	0.021553	0	0		T	52658985	T	T	52658985	3	4	154	1	0	0	0	0	1	0	0	0	18212	304	11	5	861	5	ZNF836	19	52658985	Missense_Mutation	SNP	A	TCGA-CG-5724-01A-11D-1600-08	89673	52658985	6469998	132	83824											
GART	2618	broad.mit.edu	37	chr21	34876432	34876432	+	Nonstop_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttctgaattaaaaggcttCattcctctttaacccaacag	13	14	4	10	0	3	1	1	1	2	0	4	1	4	1	2	1	2	1	2	1	5	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr21:34876432C>A	uc002yrx.2	-	22	3167	c.3032G>T	c.(3031-3033)TGA>TTA	p.*1011L	GART_uc002yrz.2_Nonstop_Mutation_p.*1011L|GART_uc010gmd.2_Nonstop_Mutation_p.*673L|GART_uc002yry.2_Nonstop_Mutation_p.*1011L	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	1011					'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	TAAAAGGCTTCATTCCTCTTT	0.403													20	41					2.27731e-05	2.38511e-05	0.062417	1	0		A	34876432	A	A	34876432	4	1	154	1	0	0	0	0	0	0	0	0	6258	837	29	5	4	5	GART	21	34876432	Nonstop_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08		34876432	13253463	133	83825											
DSCAM	1826	broad.mit.edu	37	chr21	41450635	41450635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccatcgtagttcagcgtagCgaagttggcctgcttctccg	6	11	12	12	4	2	0	1	0	1	0	4	1	2	0	3	1	3	5	3	1	3	5			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chr21:41450635C>T	uc002yyq.1	-	26	5142	c.4690G>A	c.(4690-4692)GCT>ACT	p.A1564T	DSCAM_uc002yyr.1_Intron	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1564	Extracellular (Potential).|Fibronectin type-III 6.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				TTCAGCGTAGCGAAGTTGGCC	0.592													10	25					0	0	0.069234	0	0		T	41450635	T	T	41450635	3	4	154	1	0	0	0	0	1	0	0	0	4774	768	27	1	1380	1	DSCAM	21	41450635	Missense_Mutation	SNP	C	TCGA-CG-5724-01A-11D-1600-08	6574203	41450635	6679260	134	83826											
BCOR	54880	broad.mit.edu	37	chrX	39932171	39932171	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttagcatctggttcttctcGgagaaggtctacgtagacaa	10	13	10	8	2	4	2	0	0	4	2	5	3	4	2	0	3	2	3	0	3	5	6			TCGA-CG-5724-01A-11D-1600-08	TCGA-CG-5724-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6dac8ca0-f776-4ea2-85c4-aefba4966be7	8c55d79f-356a-4589-8403-cdfed8311550	g.chrX:39932171G>A	uc004den.3	-	4	2720	c.2428C>T	c.(2428-2430)CGA>TGA	p.R810*	BCOR_uc004dep.3_Nonsense_Mutation_p.R810*|BCOR_uc004deo.3_Nonsense_Mutation_p.R810*|BCOR_uc004dem.3_Nonsense_Mutation_p.R810*|BCOR_uc004deq.3_Nonsense_Mutation_p.R810*	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	810					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						GGTTCTTCTCGGAGAAGGTCT	0.522													76	39					0	0	0.048971	0	0		A	39932171	A	A	39932171	4	1	154	1	0	0	0	0	0	1	0	0	1387	1124	39	1	2887	1	BCOR	23	39932171	Nonsense_Mutation	SNP	G	TCGA-CG-5724-01A-11D-1600-08		39932171	115338389	135	83827											
KLHL17	339451	broad.mit.edu	37	chr1	900458	900458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgaggaccaacaagtgggtgGccgcatcctgcatgttcacc	9	7	12	13	2	1	0	1	0	0	0	2	2	2	1	4	3	2	3	4	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:900458G>A	uc001aca.1	+	12	1923	c.1816G>A	c.(1816-1818)GCC>ACC	p.A606T	KLHL17_uc001acc.1_RNA|PLEKHN1_uc001acd.2_5'Flank|PLEKHN1_uc001acf.2_5'Flank|PLEKHN1_uc001ace.2_5'Flank	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	606	Kelch 6.|Interaction with F-actin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CAAGTGGGTGGCCGCATCCTG	0.637													12	61					0	0	1	0	0		A	900458	A	A	900458	3	1	155	1	0	0	0	0	1	0	0	0	8388	1203	42	2	1862	2	KLHL17	1	900458	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08		900458	248350163	1	83828											
AGRN	375790	broad.mit.edu	37	chr1	989347	989347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaccgctggttgcgggtcGtggcacataggtgagtaggg	7	8	17	9	3	0	1	0	1	0	0	1	1	0	1	2	5	2	4	2	5	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:989347G>A	uc001ack.1	+	34	5916	c.5866G>A	c.(5866-5868)GTG>ATG	p.V1956M		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	1956	Laminin G-like 3.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	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)		GTTGCGGGTCGTGGCACATAG	0.637													4	12					0	0	1	0	0		A	989347	A	A	989347	3	1	155	1	0	0	0	0	1	0	0	0	397	1145	40	1	6000	1	AGRN	1	989347	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	88889	989347	248261274	2	83829											
MIB2	142678	broad.mit.edu	37	chr1	1559291	1559291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagcatgagctcgcccacGccttcgaccgctacgagacc	10	5	9	17	5	0	2	0	1	0	1	2	4	0	2	4	0	3	3	4	0	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:1559291G>A	uc001agg.2	+	4	686	c.559G>A	c.(559-561)GCC>ACC	p.A187T	MIB2_uc001agh.2_Missense_Mutation_p.A173T|MIB2_uc001agi.2_Missense_Mutation_p.A187T|MIB2_uc001agj.2_Missense_Mutation_p.A28T|MIB2_uc001agk.2_Missense_Mutation_p.A187T|MIB2_uc001agl.1_Missense_Mutation_p.A143T|MIB2_uc001agm.2_Missense_Mutation_p.A129T|MIB2_uc010nyq.1_Missense_Mutation_p.A143T|MIB2_uc009vkh.2_Missense_Mutation_p.A28T|MIB2_uc001agn.2_5'Flank	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	187	ZZ-type.				Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-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;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GCTCGCCCACGCCTTCGACCG	0.687													9	14					0	0	1	0	0		A	1559291	A	A	1559291	3	1	155	1	0	0	0	0	1	0	0	0	9585	1087	38	1	744	1	MIB2	1	1559291	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	569944	1559291	247691330	3	83830											
SKI	6497	broad.mit.edu	37	chr1	2234752	2234752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgttcaccctcgccagcGcctctctgctttccgaccct	3	12	7	19	3	2	0	1	0	1	0	5	1	3	0	5	0	2	2	5	0	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:2234752G>A	uc001aja.3	+	3	1196	c.1124G>A	c.(1123-1125)CGC>CAC	p.R375H		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	375					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	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)		CCTCGCCAGCGCCTCTCTGCT	0.617													126	183					0	0	1	0	0		A	2234752	A	A	2234752	3	1	155	1	0	0	0	0	1	0	0	0	14382	1087	38	1	1134	1	SKI	1	2234752	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	675461	2234752	247015869	4	83831											
MMEL1	79258	broad.mit.edu	37	chr1	2522446	2522446	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctaccacacgcggcatcGctccttggggtgcatggggg	5	8	16	12	3	0	0	0	0	0	0	2	0	1	0	2	6	2	4	2	6	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:2522446G>A	uc001ajy.2	-	24	2537	c.2323C>T	c.(2323-2325)CGA>TGA	p.R775*	C1orf93_uc001aju.1_3'UTR|C1orf93_uc001ajw.1_3'UTR|C1orf93_uc001ajv.1_3'UTR|C1orf93_uc010nzd.1_3'UTR|C1orf93_uc010nze.1_3'UTR|C1orf93_uc010nzf.1_3'UTR|C1orf93_uc001ajx.1_3'UTR|MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	775	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		ACGCGGCATCGCTCCTTGGGG	0.701													4	8					0	0	1	0	0		A	2522446	A	A	2522446	4	1	155	1	0	0	0	0	0	1	0	0	9664	1095	38	1	20	1	MMEL1	1	2522446	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	287694	2522446	246728175	5	83832											
PRDM16	63976	broad.mit.edu	37	chr1	3328339	3328339	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccttgtacccccggccGcctctgctacctcccacatc	5	9	5	22	2	1	0	0	0	1	0	4	0	3	0	8	1	3	2	8	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:3328339G>A	uc001akf.2	+	9	1658	c.1578G>A	c.(1576-1578)CCG>CCA	p.P526P	PRDM16_uc001akc.2_Silent_p.P526P|PRDM16_uc001akd.2_Silent_p.P526P|PRDM16_uc001ake.2_Silent_p.P526P|PRDM16_uc009vlh.2_Silent_p.P227P	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	526	Pro-rich.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	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)		ACCCCCGGCCGCCTCTGCTAC	0.701			T	EVI1	MDS|AML								48	65					0	0	1	0	0		A	3328339	A	A	3328339	2	1	155	1	0	0	0	0	0	0	0	1	12479	1074	38	1		1	PRDM16	1	3328339	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	805893	3328339	245922282	6	83833											
ARHGEF16	27237	broad.mit.edu	37	chr1	3394493	3394493	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagcgcggagagctgttcTtagtggaagaaaccggactt	11	9	14	7	3	1	3	0	1	1	2	1	6	1	5	1	3	3	2	1	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:3394493T>C	uc001akg.3	+	11	1776	c.1528T>C	c.(1528-1530)TTA>CTA	p.L510L	ARHGEF16_uc001aki.2_Silent_p.L222L|ARHGEF16_uc001akj.2_Silent_p.L222L|ARHGEF16_uc010nzh.1_Silent_p.L214L	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	510	PH.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		AGAGCTGTTCTTAGTGGAAGA	0.577													4	78					0	0	1	0	0		C	3394493	C	C	3394493	2	2	155	1	0	0	0	0	0	0	0	1	899	1606	56	3		3	ARHGEF16	1	3394493	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	66154	3394493	245856128	7	83834											
MEGF6	1953	broad.mit.edu	37	chr1	3428619	3428619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatagcccgcgtgacacacGcacttgaaggacccctgggt	9	7	11	14	3	1	2	1	2	0	0	1	3	1	3	3	2	1	1	3	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:3428619G>A	uc001akl.2	-	8	1154	c.927C>T	c.(925-927)TGC>TGT	p.C309C	MEGF6_uc001akk.2_Silent_p.C204C	NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor	309	EGF-like 5; calcium-binding (Potential).					extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		CGTGACACACGCACTTGAAGG	0.672													13	79					0	0	1	0	0		A	3428619	A	A	3428619	2	1	155	1	0	0	0	0	0	0	0	1	9480	1079	38	1		1	MEGF6	1	3428619	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	34126	3428619	245822002	8	83835											
LRRC47	57470	broad.mit.edu	37	chr1	3703715	3703715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaccacggcctccgacgcGcaggtactccaggatggatc	8	5	12	16	4	0	0	0	0	0	0	3	3	2	2	5	4	1	2	5	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:3703715G>A	uc001akx.1	-	2	803	c.775C>T	c.(775-777)CGC>TGC	p.R259C		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	259					translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		CCTCCGACGCGCAGGTACTCC	0.473													15	36					0	0	1	0	0		A	3703715	A	A	3703715	3	1	155	1	0	0	0	0	1	0	0	0	9022	1087	38	1	1000	1	LRRC47	1	3703715	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	275096	3703715	245546906	9	83836											
NPHP4	261734	broad.mit.edu	37	chr1	6021934	6021934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcaggaagaaggtggaacGcaggctccagggccgggtgt	9	6	17	9	2	1	1	1	0	1	1	3	3	2	3	2	6	1	2	2	6	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:6021934G>A	uc001alq.1	-	6	859	c.593C>T	c.(592-594)GCG>GTG	p.A198V	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	198					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	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)		AAGGTGGAACGCAGGCTCCAG	0.532													13	28					0	0	1	0	0		A	6021934	A	A	6021934	3	1	155	1	0	0	0	0	1	0	0	0	10600	1087	38	1	3787	1	NPHP4	1	6021934	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2318219	6021934	243228687	10	83837											
THAP3	90326	broad.mit.edu	37	chr1	6688663	6688663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catctgctccgagcacttccGgccagagtgcttcagcgcct	6	9	10	16	3	2	1	1	0	1	1	4	2	4	1	4	1	4	3	4	1	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:6688663G>A	uc001aoc.2	+	3	338	c.179G>A	c.(178-180)CGG>CAG	p.R60Q	THAP3_uc001aod.2_Missense_Mutation_p.R60Q|THAP3_uc001aoe.1_Missense_Mutation_p.R60Q			Q8WTV1	THAP3_HUMAN	RecName: Full=THAP domain-containing protein 3;	60	THAP-type.						DNA binding|metal ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		GAGCACTTCCGGCCAGAGTGC	0.612													29	35					0	0	1	0	0		A	6688663	A	A	6688663	3	1	155	1	0	0	0	0	1	0	0	0	15870	1116	39	1	185	1	THAP3	1	6688663	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	666729	6688663	242561958	11	83838											
THAP3	90326	broad.mit.edu	37	chr1	6688716	6688716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacctaaagcacaatgccGtgcccacggtgttcgccttt	10	9	9	13	3	0	1	0	0	0	1	1	1	0	1	4	1	4	2	4	1	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:6688716G>A	uc001aoc.2	+	3	391	c.232G>A	c.(232-234)GTG>ATG	p.V78M	THAP3_uc001aod.2_Missense_Mutation_p.V78M|THAP3_uc001aoe.1_Missense_Mutation_p.V78M			Q8WTV1	THAP3_HUMAN	RecName: Full=THAP domain-containing protein 3;	78	THAP-type.						DNA binding|metal ion binding				0	Ovarian(185;0.0212)|all_lung(157;0.154)	all_cancers(23;7.39e-28)|all_epithelial(116;1.76e-17)|all_lung(118;2.27e-05)|Lung NSC(185;9.97e-05)|Renal(390;0.00188)|Breast(487;0.00289)|Colorectal(325;0.00342)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.156)		Colorectal(212;1.29e-07)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000896)|STAD - Stomach adenocarcinoma(132;0.0167)|READ - Rectum adenocarcinoma(331;0.0642)		GCACAATGCCGTGCCCACGGT	0.592													33	27					0	0	1	0	0		A	6688716	A	A	6688716	3	1	155	1	0	0	0	0	1	0	0	0	15870	1145	40	1	238	1	THAP3	1	6688716	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	53	6688716	242561905	12	83839											
DNAJC11	55735	broad.mit.edu	37	chr1	6704674	6704674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacagctgcacccaaaacGctgtgcctggagatcttcct	9	9	9	14	1	1	2	0	1	1	1	2	3	2	2	3	1	4	3	3	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:6704674G>A	uc001aof.2	-	10	1147	c.1041C>T	c.(1039-1041)AGC>AGT	p.S347S	DNAJC11_uc010nzt.1_Intron|DNAJC11_uc001aog.2_Silent_p.S347S|DNAJC11_uc010nzu.1_Silent_p.S257S	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	347					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|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;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		CACCCAAAACGCTGTGCCTGG	0.552													34	51					0	0	1	0	0		A	6704674	A	A	6704674	2	1	155	1	0	0	0	0	0	0	0	1	4636	1078	38	1		1	DNAJC11	1	6704674	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	15958	6704674	242545947	13	83840											
RERE	473	broad.mit.edu	37	chr1	8420552	8420552	+	Frame_Shift_Del	DEL	G	-	-																															ttctggctctgggtcagcccGgggggctgggcgggcgagga																								rs143760887	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:8420552delG	uc001ape.2	-	19	3825	c.3015delC	c.(3013-3015)CCCfs	p.P1005fs	RERE_uc001apf.2_Frame_Shift_Del_p.P1005fs|RERE_uc010nzx.1_Frame_Shift_Del_p.P737fs|RERE_uc001apd.2_Frame_Shift_Del_p.P451fs	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1005	Pro-rich.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GGGTCAGCCCGGGGGGCTGGG	0.716													7	12	---	---	---	---						.	-	8420552	-	-	8420552	7	5	155	1	0	1	0	1	0	0	0	0	13256	1103	39	0	1709	0	RERE	1	8420552	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	1715878	8420552	240830069	14	83841											
H6PD	9563	broad.mit.edu	37	chr1	9305054	9305054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgggctgcctgcaagcccagGagctccagggacatgtctcc	7	7	13	14	0	1	0	0	0	1	0	3	2	2	2	4	3	4	3	4	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:9305054G>A	uc001apt.2	+	2	334	c.61G>A	c.(61-63)GAG>AAG	p.E21K		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	21	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	GCAAGCCCAGGAGCTCCAGGG	0.567													16	63					0	0	1	0	0		A	9305054	A	A	9305054	3	1	155	1	0	0	0	0	1	0	0	0	6952	1175	41	4	63	4	H6PD	1	9305054	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	884502	9305054	239945567	15	83842											
H6PD	9563	broad.mit.edu	37	chr1	9305488	9305488	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agctgccggccaggcccgggCgcctggctgcgggttgtcct	2	7	17	15	4	0	0	0	0	0	0	1	0	1	0	5	5	3	3	5	5	0	1	rs143453022		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:9305488C>T	uc001apt.2	+	2	768	c.495C>T	c.(493-495)GGC>GGT	p.G165G		NM_004285	NP_004276	O95479	G6PE_HUMAN	hexose-6-phosphate dehydrogenase precursor	165	Glucose 1-dehydrogenase.					endoplasmic reticulum lumen	6-phosphogluconolactonase activity|glucose 1-dehydrogenase|glucose-6-phosphate dehydrogenase activity|NADP binding				0	all_lung(157;0.23)	all_epithelial(116;1.28e-19)|all_lung(118;5.22e-06)|Lung NSC(185;1.98e-05)|Renal(390;0.000147)|Breast(348;0.00109)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.88e-07)|COAD - Colon adenocarcinoma(227;7.47e-05)|Kidney(185;0.000244)|KIRC - Kidney renal clear cell carcinoma(229;0.000905)|STAD - Stomach adenocarcinoma(132;0.00176)|BRCA - Breast invasive adenocarcinoma(304;0.00183)|READ - Rectum adenocarcinoma(331;0.0419)	NADH(DB00157)	CAGGCCCGGGCGCCTGGCTGC	0.607													45	65					0	0	1	0	0		T	9305488	T	T	9305488	2	4	155	1	0	0	0	0	0	0	0	1	6952	755	27	1		1	H6PD	1	9305488	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	434	9305488	239945133	16	83843											
UBE4B	10277	broad.mit.edu	37	chr1	10207065	10207065	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctgatgctggcctacttgaCgagagcttcctgagaagatg	9	10	13	9	1	0	5	0	3	0	3	1	7	1	5	2	1	3	3	2	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:10207065C>T	uc001aqs.3	+	19	3221	c.2508C>T	c.(2506-2508)GAC>GAT	p.D836D	UBE4B_uc001aqr.3_Silent_p.D707D|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Silent_p.D291D|UBE4B_uc001aqt.1_Silent_p.D176D	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	836					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		GCCTACTTGACGAGAGCTTCC	0.532													84	90					0	0	1	0	0		T	10207065	T	T	10207065	2	4	155	1	0	0	0	0	0	0	0	1	16909	535	19	1		1	UBE4B	1	10207065	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	901577	10207065	239043556	17	83844											
CORT	1325	broad.mit.edu	37	chr1	10510294	10510294	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacaagatgccattgtcccCcggcctcctgctgctgctgc	5	9	9	18	1	0	1	0	0	0	1	2	1	2	1	6	1	5	3	6	1	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:10510294C>A	uc001ari.2	+	1	324	c.164C>A	c.(163-165)CCC>CAC	p.P55H	APITD1_uc001arf.2_Intron|APITD1_uc001arg.2_Intron	NM_001302	NP_001293	O00230	CORT_HUMAN	cortistatin preproprotein	5					inhibition of adenylate cyclase activity by G-protein signaling pathway|synaptic transmission	extracellular region|soluble fraction	G-protein-coupled receptor binding|neuropeptide hormone activity				0	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)		CCATTGTCCCCCGGCCTCCTG	0.657													13	75					5.50884e-06	5.65434e-06	1	1	0		A	10510294	A	A	10510294	3	1	155	1	0	0	0	0	1	0	0	0	3763	623	22	5	166	5	CORT	1	10510294	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	303229	10510294	238740327	18	83845											
PEX14	5195	broad.mit.edu	37	chr1	10659294	10659294	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtcctcttctccccaGggctgacagatgaagagatt	10	11	10	10	0	2	5	0	3	2	2	4	6	3	5	3	1	0	1	3	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:10659294G>T	uc001arn.2	+	4	191	c.170_splice	c.e4-1	p.G57_splice	PEX14_uc009vmu.1_Intron|PEX14_uc009vmv.2_Splice_Site|PEX14_uc010oam.1_Splice_Site|PEX14_uc010oan.1_Intron|PEX14_uc009vmw.2_Splice_Site	NM_004565	NP_004556	O75381	PEX14_HUMAN	peroxisomal biogenesis factor 14						negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|protein homooligomerization|protein import into peroxisome matrix|transmembrane transport	integral to membrane|nucleus|peroxisomal membrane|protein complex	protein N-terminus binding|transcription corepressor activity			breast(1)	1	Ovarian(185;0.203)	all_lung(284;6.02e-06)|Lung NSC(185;9.62e-06)|Renal(390;0.000147)|Breast(348;0.000932)|Colorectal(325;0.00215)|Hepatocellular(190;0.00913)|Ovarian(437;0.023)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0292)|Colorectal(212;9.13e-08)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000482)|Kidney(185;0.00174)|KIRC - Kidney renal clear cell carcinoma(229;0.00457)|STAD - Stomach adenocarcinoma(132;0.0249)|READ - Rectum adenocarcinoma(331;0.0419)		CTTCTCCCCAGGGCTGACAGA	0.532													34	87					1.26612e-14	1.34585e-14	1	1	0		T	10659294	T	T	10659294	5	4	155	1	0	0	0	0	0	0	1	0	11761	1014	35	5	183	5	PEX14	1	10659294	Splice_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	149000	10659294	238591327	19	83846											
PTCHD2	57540	broad.mit.edu	37	chr1	11580806	11580806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggctccgccccgccagcCgggccccgctactcttccgg	2	5	12	22	6	1	0	0	0	1	0	3	0	3	0	9	3	2	2	9	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:11580806C>T	uc001ash.3	+	10	2401	c.2263C>T	c.(2263-2265)CGG>TGG	p.R755W	PTCHD2_uc001asi.1_Missense_Mutation_p.R755W	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	755	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCCCGCCAGCCGGGCCCCGCT	0.652													13	14					0	0	1	0	0		T	11580806	T	T	11580806	3	4	155	1	0	0	0	0	1	0	0	0	12755	643	23	1	2297	1	PTCHD2	1	11580806	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	921512	11580806	237669815	20	83847											
FBXO6	26270	broad.mit.edu	37	chr1	11728893	11728893	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggaaacgcaagtgcctgCgagagggcttcatcaccaag	11	7	12	11	2	3	1	2	0	1	1	3	3	3	2	2	2	3	2	2	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:11728893C>T	uc001aso.2	+	2	344	c.178C>T	c.(178-180)CGA>TGA	p.R60*		NM_018438	NP_060908	Q9NRD1	FBX6_HUMAN	F-box only protein 6	60					DNA damage checkpoint|DNA repair|ER-associated protein catabolic process|response to unfolded protein|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	glycoprotein binding			lung(1)	1	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)		CAAGTGCCTGCGAGAGGGCTT	0.632													35	51					0	0	1	0	0		T	11728893	T	T	11728893	4	4	155	1	0	0	0	0	0	1	0	0	5773	760	27	1	180	1	FBXO6	1	11728893	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	148087	11728893	237521728	21	83848											
TNFRSF8	943	broad.mit.edu	37	chr1	12202468	12202468	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggagctggaggcggaccaTaccccccactaccccgagca	10	3	12	16	2	0	0	0	0	0	0	0	5	0	3	6	4	4	2	6	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:12202468T>C	uc001atq.2	+	15	1890	c.1668T>C	c.(1666-1668)CAT>CAC	p.H556H	TNFRSF8_uc010obc.1_Silent_p.H444H|TNFRSF8_uc001atr.2_Silent_p.H93H|TNFRSF8_uc001ats.2_Silent_p.H37H	NM_001243	NP_001234	P28908	TNR8_HUMAN	tumor necrosis factor receptor superfamily,	556	Cytoplasmic (Potential).				cellular response to mechanical stimulus|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of TRAIL biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	cytoplasm|integral to membrane|plasma membrane				skin(2)|ovary(1)|pancreas(1)|central_nervous_system(1)	5	Ovarian(185;0.249)	Lung NSC(185;8.71e-05)|all_lung(284;9.89e-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;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)		AGGCGGACCATACCCCCCACT	0.662													10	8					0	0	1	0	0		C	12202468	C	C	12202468	2	2	155	1	0	0	0	0	0	0	0	1	16324	1403	49	3		3	TNFRSF8	1	12202468	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	473575	12202468	237048153	22	83849											
PRAMEF12	390999	broad.mit.edu	37	chr1	12835715	12835715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttcaagtgttggacttgcGgaatgtggatgagaacttct	10	13	12	6	1	2	1	1	1	1	1	2	5	2	4	0	3	2	1	0	3	3	4	rs145339247	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:12835715G>A	uc001aui.2	+	2	344	c.317G>A	c.(316-318)CGG>CAG	p.R106Q		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	106										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TTGGACTTGCGGAATGTGGAT	0.512													9	387					0	0	1	0	0		A	12835715	A	A	12835715	3	1	155	1	0	0	0	0	1	0	0	0	12450	1116	39	1	323	1	PRAMEF12	1	12835715	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	633247	12835715	236414906	23	83850											
CTRC	11330	broad.mit.edu	37	chr1	15771162	15771162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtggtggatcacgccacGtgctccaggattgactggtg	6	9	14	12	3	1	1	1	1	0	0	2	3	2	3	3	4	1	1	3	4	0	1	rs113087202	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:15771162G>A	uc001awi.1	+	6	578	c.555G>A	c.(553-555)ACG>ACA	p.T185T	CTRC_uc001awj.1_Intron	NM_007272	NP_009203	Q99895	CTRC_HUMAN	chymotrypsin C preproprotein	185	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0		Breast(348;0.000207)|all_lung(284;0.00021)|Colorectal(325;0.000257)|Lung NSC(340;0.000269)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)|Hepatocellular(190;0.0634)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ATCACGCCACGTGCTCCAGGA	0.627													25	39					0	0	1	0	0		A	15771162	A	A	15771162	2	1	155	1	0	0	0	0	0	0	0	1	4030	1132	40	1		1	CTRC	1	15771162	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2935447	15771162	233479459	24	83851											
FBLIM1	54751	broad.mit.edu	37	chr1	16091539	16091539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttatcaccctggcacccccgCgccgcgatgtggccgtggcg	4	7	13	17	6	1	0	1	0	0	0	1	1	1	0	5	3	0	1	5	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:16091539C>T	uc001axd.1	+	4	504	c.61C>T	c.(61-63)CGC>TGC	p.R21C	FBLIM1_uc001axe.1_Missense_Mutation_p.R21C|FBLIM1_uc001axf.2_RNA|FBLIM1_uc001axg.1_Missense_Mutation_p.R21C|FBLIM1_uc001axh.1_Missense_Mutation_p.R21C|FBLIM1_uc001axi.1_Missense_Mutation_p.R21C	NM_017556	NP_060026	Q8WUP2	FBLI1_HUMAN	filamin-binding LIM protein-1 isoform a	21	Filamin-binding.				cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytoskeleton|cytosol|focal adhesion|intracellular membrane-bounded organelle	zinc ion binding			skin(1)	1		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|READ - Rectum adenocarcinoma(331;0.0649)|STAD - Stomach adenocarcinoma(313;0.138)		GGCACCCCCGCGCCGCGATGT	0.662													53	63					0	0	1	0	0		T	16091539	T	T	16091539	3	4	155	1	0	0	0	0	1	0	0	0	5711	768	27	1	63	1	FBLIM1	1	16091539	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	320377	16091539	233159082	25	83852											
SPEN	23013	broad.mit.edu	37	chr1	16203108	16203108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaggtcccctagcggcagCggctctagaagtagatcctc	10	7	11	13	2	1	2	0	0	1	2	4	2	3	2	3	3	2	3	3	3	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:16203108C>T	uc001axk.1	+	3	1020	c.816C>T	c.(814-816)AGC>AGT	p.S272S	SPEN_uc010obp.1_Silent_p.S231S	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	272	Ser-rich.|Arg-rich.|By similarity.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CTAGCGGCAGCGGCTCTAGAA	0.502													42	45					0	0	1	0	0		T	16203108	T	T	16203108	2	4	155	1	0	0	0	0	0	0	0	1	15063	767	27	1		1	SPEN	1	16203108	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	111569	16203108	233047513	26	83853											
EPHA2	1969	broad.mit.edu	37	chr1	16458656	16458656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgttgacgaggatgttgCgggcagccaggtcacggtgc	6	9	17	9	3	1	1	1	1	0	0	1	3	1	2	1	4	4	4	1	4	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:16458656C>T	uc001aya.1	-	13	2365	c.2228G>A	c.(2227-2229)CGC>CAC	p.R743H		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	743	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	GAGGATGTTGCGGGCAGCCAG	0.612													20	139					0	0	1	0	0		T	16458656	T	T	16458656	3	4	155	1	0	0	0	0	1	0	0	0	5175	768	27	1	722	1	EPHA2	1	16458656	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	255548	16458656	232791965	27	83854											
CROCC	9696	broad.mit.edu	37	chr1	17266547	17266547	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcccacgaggacgcccagcgCgaggtgcagcggctgcggag	7	2	18	14	6	0	0	0	0	0	0	0	4	0	2	2	4	4	2	2	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:17266547C>T	uc001azt.2	+	13	1836	c.1767C>T	c.(1765-1767)CGC>CGT	p.R589R	CROCC_uc009voy.1_Silent_p.R292R|CROCC_uc009voz.1_Silent_p.R352R|CROCC_uc001azu.2_5'UTR	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	589	Potential.				cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		ACGCCCAGCGCGAGGTGCAGC	0.672													7	10					0	0	1	0	0		T	17266547	T	T	17266547	2	4	155	1	0	0	0	0	0	0	0	1	3896	755	27	1		1	CROCC	1	17266547	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	807891	17266547	231984074	28	83855											
IGSF21	84966	broad.mit.edu	37	chr1	18661448	18661448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgggcatctacgaccGcgccaccagggagaaggtgg	9	5	15	12	3	1	1	0	0	1	1	1	3	1	1	4	4	1	1	4	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:18661448G>A	uc001bau.1	+	4	751	c.368G>A	c.(367-369)CGC>CAC	p.R123H		NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	123	Ig-like 1.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		ATCTACGACCGCGCCACCAGG	0.622													4	58					0	0	1	0	0		A	18661448	A	A	18661448	3	1	155	1	0	0	0	0	1	0	0	0	7615	1087	38	1	382	1	IGSF21	1	18661448	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1394901	18661448	230589173	29	83856											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809556	18809556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgggcatcgccgtgtaccGctgcagcgccagcacccggc	5	5	13	18	5	0	0	0	0	0	0	1	0	0	0	5	2	4	5	5	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:18809556G>A	uc001bax.2	+	1	2133	c.2081G>A	c.(2080-2082)CGC>CAC	p.R694H	KLHDC7A_uc009vpg.2_Missense_Mutation_p.R476H	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	694						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		GCCGTGTACCGCTGCAGCGCC	0.667													21	46					0	0	1	0	0		A	18809556	A	A	18809556	3	1	155	1	0	0	0	0	1	0	0	0	8376	1087	38	1	2083	1	KLHDC7A	1	18809556	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	148108	18809556	230441065	30	83857											
KIF17	57576	broad.mit.edu	37	chr1	21016738	21016738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgacgtcatatgagttgcGcatggcagtgatgtcttcct	7	13	11	10	2	2	3	1	3	1	0	3	3	3	3	2	1	1	3	2	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:21016738G>A	uc001bdr.3	-	7	1442	c.1324C>T	c.(1324-1326)CGC>TGC	p.R442C	KIF17_uc009vpx.2_5'UTR|KIF17_uc001bds.3_Missense_Mutation_p.R442C	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	442	Potential.				microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TATGAGTTGCGCATGGCAGTG	0.637													34	54					0	0	1	0	0		A	21016738	A	A	21016738	3	1	155	1	0	0	0	0	1	0	0	0	8295	1087	38	1	1801	1	KIF17	1	21016738	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2207182	21016738	228233883	31	83858											
SH2D5	400745	broad.mit.edu	37	chr1	21048381	21048381	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccacagtcctgctcctcGtaggtggggttcaggcggcc	4	8	15	14	2	1	0	1	0	0	0	4	0	3	0	4	6	1	3	4	6	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:21048381G>A	uc001bdt.1	-	9	1549	c.924C>T	c.(922-924)TAC>TAT	p.Y308Y	SH2D5_uc009vpy.1_Silent_p.Y392Y|SH2D5_uc001bdu.1_RNA	NM_001103160	NP_001096630	Q6ZV89	SH2D5_HUMAN	SH2 domain containing 5 isoform 2	308	SH2.										0		Colorectal(325;3.46e-05)|all_lung(284;5.32e-05)|Lung NSC(340;5.51e-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;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|GBM - Glioblastoma multiforme(114;0.000465)|Kidney(64;0.000476)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(64;0.00634)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCTGCTCCTCGTAGGTGGGGT	0.677													10	19					0	0	1	0	0		A	21048381	A	A	21048381	2	1	155	1	0	0	0	0	0	0	0	1	14262	1140	40	1		1	SH2D5	1	21048381	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	31643	21048381	228202240	32	83859											
EPHA8	2046	broad.mit.edu	37	chr1	22927816	22927816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaccccctgccttcgtccGgagctgctttgacctccgag	4	9	9	19	3	0	1	0	1	0	0	3	3	2	2	7	1	3	2	7	1	0	2	rs141279306		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:22927816G>A	uc001bfx.1	+	16	2878	c.2753G>A	c.(2752-2754)CGG>CAG	p.R918Q		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	918	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GCCTTCGTCCGGAGCTGCTTT	0.682													13	79					0	0	1	0	0		A	22927816	A	A	22927816	3	1	155	1	0	0	0	0	1	0	0	0	5181	1116	39	1	2988	1	EPHA8	1	22927816	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1879435	22927816	226322805	33	83860											
EPHB2	2048	broad.mit.edu	37	chr1	23233308	23233308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacacggagaagcagcgccGggacttcctgagcgaagcct	10	5	13	13	4	0	2	0	1	0	1	1	5	1	3	3	2	5	1	3	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:23233308G>A	uc009vqj.1	+	11	2139	c.1994G>A	c.(1993-1995)CGG>CAG	p.R665Q	EPHB2_uc001bge.2_Missense_Mutation_p.R666Q|EPHB2_uc001bgf.2_Missense_Mutation_p.R665Q|EPHB2_uc010odu.1_Missense_Mutation_p.R607Q	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	665	Cytoplasmic (Potential).|Protein kinase.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		AAGCAGCGCCGGGACTTCCTG	0.582									Hereditary_Prostate_Cancer				22	65					0	0	1	0	0		A	23233308	A	A	23233308	3	1	155	1	0	0	0	0	1	0	0	0	5183	1116	39	1	2039	1	EPHB2	1	23233308	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	305492	23233308	226017313	34	83861											
SRRM1	10250	broad.mit.edu	37	chr1	24978984	24978984	+	Frame_Shift_Del	DEL	A	-	-																															gcctaaagaaccttctccggAaaaaaattccaaaaaagaaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:24978984delA	uc001bjm.2	+	7	1009	c.785delA	c.(784-786)GAAfs	p.E262fs	SRRM1_uc010oel.1_Frame_Shift_Del_p.E262fs|SRRM1_uc009vrh.1_Frame_Shift_Del_p.E223fs|SRRM1_uc009vri.1_Frame_Shift_Del_p.E179fs|SRRM1_uc010oem.1_RNA	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	262	Pro-rich.|Arg-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		CCTTCTCCGGAAAAAAATTCC	0.448													26	43	---	---	---	---						.	-	24978984	-	-	24978984	7	5	155	1	0	1	0	1	0	0	0	0	15193	246	9	0	811	0	SRRM1	1	24978984	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1745676	24978984	224271637	35	83862											
RHD	6007	broad.mit.edu	37	chr1	25611170	25611170	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaacctcttcatgctggcGcttggtgtgcagtgggcaat	6	13	12	10	1	3	0	2	0	1	0	3	0	3	0	1	3	3	4	1	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:25611170G>A	uc001bjz.2	+	2	313	c.255G>A	c.(253-255)GCG>GCA	p.A85A	RHD_uc010oep.1_Silent_p.A85A|RHD_uc001bkc.2_Silent_p.A85A|RHD_uc009vrm.2_5'UTR|RHD_uc001bka.2_Silent_p.A85A|RHD_uc001bkb.2_Silent_p.A85A|RHD_uc009vrn.2_Silent_p.A85A|RHD_uc009vro.2_Silent_p.A85A|RHD_uc009vrp.2_Silent_p.A85A	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	85	Helical; (Potential).					integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-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)		TCATGCTGGCGCTTGGTGTGC	0.577													23	93					0	0	1	0	0		A	25611170	A	A	25611170	2	1	155	1	0	0	0	0	0	0	0	1	13352	1074	38	1		1	RHD	1	25611170	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	632186	25611170	223639451	36	83863											
MAP3K6	9064	broad.mit.edu	37	chr1	27682908	27682908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggccaggacataggtcCgggcttcctcattcagccgc	6	8	13	14	2	2	0	2	0	0	0	4	1	4	1	4	5	1	1	4	5	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:27682908C>T	uc001bny.1	-	26	3857	c.3608G>A	c.(3607-3609)CGG>CAG	p.R1203Q	MAP3K6_uc009vsw.1_Missense_Mutation_p.R1195Q	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	1203	Potential.				activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GACATAGGTCCGGGCTTCCTC	0.622													11	16					0	0	1	0	0		T	27682908	T	T	27682908	3	4	155	1	0	0	0	0	1	0	0	0	9272	652	23	1	274	1	MAP3K6	1	27682908	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2071738	27682908	221567713	37	83864											
PPP1R8	5511	broad.mit.edu	37	chr1	28176659	28176659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggaatcagggagcaggcGcatgcagaactttgccttca	11	7	14	9	1	2	1	2	0	0	1	2	4	2	4	1	4	4	3	1	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:28176659G>A	uc001bov.1	+	7	812	c.758G>A	c.(757-759)CGC>CAC	p.R253H	PPP1R8_uc001bow.1_Missense_Mutation_p.R111H|PPP1R8_uc001box.1_Missense_Mutation_p.R29H|PPP1R8_uc009vtc.1_RNA|PPP1R8_uc009vtd.1_RNA	NM_014110	NP_054829	Q12972	PP1R8_HUMAN	protein phosphatase 1 regulatory inhibitor	253					mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|RNA splicing|transcription, DNA-dependent	cytoplasm|nuclear speck|spliceosomal complex	DNA binding|endonuclease activity|protein binding|protein serine/threonine phosphatase inhibitor activity|ribonuclease E activity|RNA binding				0		Colorectal(325;3.46e-05)|all_lung(284;0.000129)|Lung NSC(340;0.000259)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.76e-24)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00248)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)		GGGAGCAGGCGCATGCAGAAC	0.612													195	299					0	0	1	0	0		A	28176659	A	A	28176659	3	1	155	1	0	0	0	0	1	0	0	0	12399	1087	38	1	784	1	PPP1R8	1	28176659	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	493751	28176659	221073962	38	83865											
PTAFR	5724	broad.mit.edu	37	chr1	28476914	28476914	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggtacggatgatgaccaGgttgcagaagaggatgatga	14	7	15	5	1	0	6	0	4	0	2	0	8	0	8	1	4	2	3	1	4	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:28476914G>T	uc001bpl.2	-	2	746	c.619C>A	c.(619-621)CTG>ATG	p.L207M	PTAFR_uc001bpm.3_Missense_Mutation_p.L207M|PTAFR_uc009vte.2_Missense_Mutation_p.L207M	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	207	Cytoplasmic (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		ATGATGACCAGGTTGCAGAAG	0.567													20	32					5.03518e-11	5.30839e-11	1	1	0		T	28476914	T	T	28476914	3	4	155	1	0	0	0	0	1	0	0	0	12745	991	35	5	413	5	PTAFR	1	28476914	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	300255	28476914	220773707	39	83866											
PTPRU	10076	broad.mit.edu	37	chr1	29644308	29644308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggaggagtgcagcatcGccctgttgccccggaaccgc	7	6	14	14	4	0	0	0	0	0	0	1	3	0	3	4	3	4	3	4	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:29644308G>A	uc001bru.2	+	26	3702	c.3592G>A	c.(3592-3594)GCC>ACC	p.A1198T	PTPRU_uc001brv.2_Missense_Mutation_p.A1194T|PTPRU_uc001brw.2_Missense_Mutation_p.A1188T|PTPRU_uc009vtq.2_Missense_Mutation_p.A1194T|PTPRU_uc009vtr.2_Missense_Mutation_p.A1185T|PTPRU_uc001brx.2_5'Flank	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1198	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GTGCAGCATCGCCCTGTTGCC	0.637													23	43					0	0	1	0	0		A	29644308	A	A	29644308	3	1	155	1	0	0	0	0	1	0	0	0	12838	1087	38	1	3716	1	PTPRU	1	29644308	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1167394	29644308	219606313	40	83867											
CSMD2	114784	broad.mit.edu	37	chr1	34088992	34088992	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaactccccagcatggtTacagtgttatctgcaccatc	11	10	8	12	0	1	1	0	0	1	1	3	2	2	1	3	1	4	4	3	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:34088992T>C	uc001bxn.1	-	36	5609	c.5580A>G	c.(5578-5580)GTA>GTG	p.V1860V	CSMD2_uc001bxm.1_Silent_p.V1900V|CSMD2_uc001bxo.1_Silent_p.V773V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1860	CUB 11.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CCAGCATGGTTACAGTGTTAT	0.438													67	99					0	0	1	0	0		C	34088992	C	C	34088992	2	2	155	1	0	0	0	0	0	0	0	1	3948	1741	61	3		3	CSMD2	1	34088992	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	4444684	34088992	215161629	41	83868											
ZMYM6	9204	broad.mit.edu	37	chr1	35453279	35453279	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tacacaaattgaagaaagtaGtcaaagttccttggagactt	16	11	8	6	0	1	3	1	1	0	2	2	4	2	3	1	1	1	2	1	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:35453279G>A	uc001byh.2	-	16	3632	c.3404C>T	c.(3403-3405)ACT>ATT	p.T1135I	uc001byd.3_5'Flank|uc001bye.2_5'Flank|ZMYM6_uc001byf.1_Intron|ZMYM6_uc010oht.1_Missense_Mutation_p.T1038I	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	1135					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				gaagaaagtagtcaaagttcc	0.01													5	7					0	0	1	0	0		A	35453279	A	A	35453279	3	1	155	1	0	0	0	0	1	0	0	0	17729	1029	36	4	577	4	ZMYM6	1	35453279	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1364287	35453279	213797342	42	83869											
ZMYM6	9204	broad.mit.edu	37	chr1	35474381	35474381	+	Missense_Mutation	SNP	A	G	G	1	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	acagaactgtaaatttggacAtacaatcttcacaacaaaac	19	9	4	9	0	2	1	1	0	1	1	2	2	2	2	0	1	4	1	0	1	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:35474381A>G	uc001byh.2	-	11	1865	c.1637T>C	c.(1636-1638)ATG>ACG	p.M546T	ZMYM6_uc001byf.1_Missense_Mutation_p.M546T|ZMYM6_uc010oht.1_Missense_Mutation_p.M449T|ZMYM6_uc009vup.2_Missense_Mutation_p.M352T|ZMYM6_uc009vuq.1_Missense_Mutation_p.M546T|ZMYM6_uc009vur.1_Missense_Mutation_p.M352T	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	546	MYM-type 8.				multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				AAATTTGGACATACAATCTTC	0.318													19	109					0	0	1	0	0		G	35474381	G	G	35474381	3	3	155	1	0	0	0	0	1	0	0	0	17729	217	8	3	2364	3	ZMYM6	1	35474381	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	21102	35474381	213776240	43	83870											
ZMYM6	9204	broad.mit.edu	37	chr1	35485090	35485090	+	Frame_Shift_Del	DEL	T	-	-																															agtttggcccttataaagcaTttttttacaaccagaacaaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:35485090delT	uc001byh.2	-	4	520	c.292delA	c.(292-294)ATGfs	p.M98fs	ZMYM6_uc001byf.1_Frame_Shift_Del_p.M98fs|ZMYM6_uc010oht.1_Frame_Shift_Del_p.M1fs|ZMYM6_uc009vup.2_Intron|ZMYM6_uc009vuq.1_Frame_Shift_Del_p.M98fs|ZMYM6_uc009vur.1_Intron|ZMYM6_uc001byj.2_Frame_Shift_Del_p.M98fs|ZMYM6_uc001byi.2_Frame_Shift_Del_p.M98fs|ZMYM6_uc001byk.2_Frame_Shift_Del_p.M98fs	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	98					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				TTATAAAGCATTTTTTTACAA	0.453													67	124	---	---	---	---						.	-	35485090	-	-	35485090	7	5	155	1	0	1	0	1	0	0	0	0	17729	1493	52	0	3737	0	ZMYM6	1	35485090	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	10709	35485090	213765531	44	83871											
MACF1	23499	broad.mit.edu	37	chr1	39903506	39903506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatctttcctctcgcctgCgtatgccaccactgatccct	7	12	6	16	2	2	2	0	1	2	1	5	2	4	2	5	0	2	1	5	0	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:39903506C>T	uc010oiu.1	+	36	13506	c.13375C>T	c.(13375-13377)CGT>TGT	p.R4459C	MACF1_uc010ois.1_Missense_Mutation_p.R3957C	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CTCTCGCCTGCGTATGCCACC	0.448													6	272					0	0	1	0	0		T	39903506	T	T	39903506	3	4	155	1	0	0	0	0	1	0	0	0	9162	768	27	1	18286	1	MACF1	1	39903506	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4418416	39903506	209347115	45	83872											
HIVEP3	59269	broad.mit.edu	37	chr1	42049803	42049803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggagaagccacaggggccGcaggggtagggcctctcacc	10	3	16	12	1	1	1	1	0	1	1	2	2	1	1	4	6	1	2	4	6	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:42049803G>A	uc001cgz.3	-	4	1879	c.666C>T	c.(664-666)TGC>TGT	p.C222C	HIVEP3_uc001cha.3_Silent_p.C222C|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	222	C2H2-type 2.|No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).|ZAS1.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CACAGGGGCCGCAGGGGTAGG	0.602													5	78					0	0	1	0	0		A	42049803	A	A	42049803	2	1	155	1	0	0	0	0	0	0	0	1	7204	1079	38	1		1	HIVEP3	1	42049803	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2146297	42049803	207200818	46	83873											
YBX1	4904	broad.mit.edu	37	chr1	43162317	43162317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaatggcttttgtagggtgCggaggcagcaaatgttacag	10	11	15	5	1	0	0	0	0	0	0	0	1	0	1	0	4	3	6	0	4	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:43162317C>T	uc001chs.2	+	5	530	c.359C>T	c.(358-360)GCG>GTG	p.A120V		NM_004559	NP_004550	P67809	YBOX1_HUMAN	nuclease sensitive element binding protein 1	120	CSD.			A -> E (in Ref. 2; AAA61308).	CRD-mediated mRNA stabilization|negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|positive regulation of cell division|transcription from RNA polymerase II promoter	CRD-mediated mRNA stability complex|extracellular region|histone pre-mRNA 3'end processing complex|nucleoplasm|stress granule|U12-type spliceosomal complex	double-stranded DNA binding|protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(4)|upper_aerodigestive_tract(1)	5	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TTGTAGGGTGCGGAGGCAGCA	0.413													39	87					0	0	1	0	0		T	43162317	T	T	43162317	3	4	155	1	0	0	0	0	1	0	0	0	17495	768	27	1	377	1	YBX1	1	43162317	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1112514	43162317	206088304	47	83874											
LEPRE1	64175	broad.mit.edu	37	chr1	43215906	43215906	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagtaggaaaagtagaggggCgtatccaggcggaagtagga	14	5	18	4	2	0	1	0	0	0	1	1	5	1	4	1	6	0	4	1	6	7	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:43215906C>T	uc001chv.2	-	11	1784	c.1671G>A	c.(1669-1671)ACG>ACA	p.T557T	LEPRE1_uc001chw.2_Silent_p.T557T|LEPRE1_uc001chx.3_Silent_p.T557T	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	557					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	AGTAGAGGGGCGTATCCAGGC	0.552													16	22					0	0	1	0	0		T	43215906	T	T	43215906	2	4	155	1	0	0	0	0	0	0	0	1	8745	755	27	1		1	LEPRE1	1	43215906	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	53589	43215906	206034715	48	83875											
DPH2	1802	broad.mit.edu	37	chr1	44436283	44436283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tataggttgccttgcagttcCctgaccagctattgggagat	8	13	11	9	0	0	2	0	1	0	1	1	3	1	2	3	2	3	4	3	2	3	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:44436283C>T	uc001ckz.2	+	2	358	c.163C>T	c.(163-165)CCT>TCT	p.P55S	DPH2_uc001cla.2_Missense_Mutation_p.P55S|DPH2_uc010okk.1_5'UTR|DPH2_uc001clb.2_5'UTR	NM_001384	NP_001375	Q9BQC3	DPH2_HUMAN	diphthamide biosynthesis protein 2 isoform a	55					peptidyl-diphthamide biosynthetic process from peptidyl-histidine	cytoplasm				ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)				CTTGCAGTTCCCTGACCAGCT	0.537													19	317					0	0	1	0	0		T	44436283	T	T	44436283	3	4	155	1	0	0	0	0	1	0	0	0	4726	623	22	4	169	4	DPH2	1	44436283	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1220377	44436283	204814338	49	83876											
DMAP1	55929	broad.mit.edu	37	chr1	44685744	44685744	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttcaatgagctgcgaagCgacctggtgctgctctacga	9	10	12	10	3	2	1	1	1	1	0	2	4	2	1	1	1	6	4	1	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:44685744C>T	uc001clq.1	+	10	1187	c.1107C>T	c.(1105-1107)AGC>AGT	p.S369S	DMAP1_uc001clr.1_Silent_p.S369S|DMAP1_uc001cls.1_Silent_p.S369S|DMAP1_uc010oku.1_Silent_p.S359S	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	369					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					AGCTGCGAAGCGACCTGGTGC	0.642											OREG0013438	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	15					0	0	1	0	0		T	44685744	T	T	44685744	2	4	155	1	0	0	0	0	0	0	0	1	4582	767	27	1		1	DMAP1	1	44685744	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	249461	44685744	204564877	50	83877											
KIF2C	11004	broad.mit.edu	37	chr1	45216216	45216216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgcagctgcaaactcccGcaagcagttttcagttcctc	8	10	8	15	1	1	0	1	0	0	0	4	0	3	0	3	0	5	7	3	0	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:45216216G>A	uc001cmg.3	+	5	534	c.419G>A	c.(418-420)CGC>CAC	p.R140H	KIF2C_uc010olb.1_Missense_Mutation_p.R140H|KIF2C_uc010olc.1_Missense_Mutation_p.R27H|KIF2C_uc001cmh.3_Missense_Mutation_p.R86H	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	140	Globular (Potential).				blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GCAAACTCCCGCAAGCAGTTT	0.552													58	48					0	0	1	0	0		A	45216216	A	A	45216216	3	1	155	1	0	0	0	0	1	0	0	0	8315	1087	38	1	437	1	KIF2C	1	45216216	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	530472	45216216	204034405	51	83878											
PLK3	1263	broad.mit.edu	37	chr1	45268997	45268997	+	Frame_Shift_Del	DEL	C	-	-																															tgacagtcccagacctgacaCcccccaacccagctaggagt																								rs112574988		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:45268997delC	uc001cmn.2	+	8	1106	c.1006delC	c.(1006-1008)CCCfs	p.P336fs	PLK3_uc001cmo.2_RNA	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3	336						membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					AGACCTGACACCCCCCAACCC	0.577													30	56	---	---	---	---						.	-	45268997	-	-	45268997	7	5	155	1	0	1	0	1	0	0	0	0	12116	507	18	0	1036	0	PLK3	1	45268997	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	52781	45268997	203981624	52	83879											
PTCH2	8643	broad.mit.edu	37	chr1	45293142	45293142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccggtgggggcagcaccGccttgagggaactgaagcgc	7	5	18	11	3	0	2	0	2	0	0	0	3	0	3	3	5	3	2	3	5	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:45293142G>A	uc010olf.1	-	15	2315	c.2303C>T	c.(2302-2304)GCG>GTG	p.A768V	PTCH2_uc010olg.1_Missense_Mutation_p.A466V	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	768	Extracellular (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					GGGCAGCACCGCCTTGAGGGA	0.662									Basal_Cell_Nevus_syndrome				24	24					0	0	1	0	0		A	45293142	A	A	45293142	3	1	155	1	0	0	0	0	1	0	0	0	12753	1087	38	1	1360	1	PTCH2	1	45293142	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	24145	45293142	203957479	53	83880											
HECTD3	79654	broad.mit.edu	37	chr1	45476257	45476257	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacgccaaagagctgctgcTgccgctggaggtggttggga	7	7	16	11	2	0	1	0	0	0	1	0	3	0	3	3	4	4	5	3	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:45476257T>C	uc009vxk.2	-	2	589	c.491A>G	c.(490-492)CAG>CGG	p.Q164R	HECTD3_uc001cmy.3_5'Flank|HECTD3_uc010olh.1_Intron|UROD_uc010oli.1_5'Flank|UROD_uc001cna.1_5'Flank|UROD_uc001cnb.1_5'Flank|UROD_uc010olj.1_5'Flank|UROD_uc001cnc.1_5'Flank	NM_024602	NP_078878	Q5T447	HECD3_HUMAN	HECT domain containing 3	164					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	ubiquitin-protein ligase activity				0	Acute lymphoblastic leukemia(166;0.155)					GAGCTGCTGCTGCCGCTGGAG	0.687													5	15					0	0	1	0	0		C	45476257	C	C	45476257	3	2	155	1	0	0	0	0	1	0	0	0	7057	1580	55	3	2174	3	HECTD3	1	45476257	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	183115	45476257	203774364	54	83881											
CYP4X1	260293	broad.mit.edu	37	chr1	47489621	47489621	+	Frame_Shift_Del	DEL	C	-	-																															cggctgctgcgggacctgcgCcccttcccagcgccccccac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:47489621delC	uc001cqt.2	+	1	382	c.132delC	c.(130-132)CGCfs	p.R44fs	CYP4X1_uc001cqr.2_Intron|CYP4X1_uc001cqs.2_Intron	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	44						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						GGGACCTGCGCCCCTTCCCAG	0.488													17	38	---	---	---	---						.	-	47489621	-	-	47489621	7	5	155	1	0	1	0	1	0	0	0	0	4196	726	26	0	134	0	CYP4X1	1	47489621	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	2013364	47489621	201761000	55	83882											
FAF1	11124	broad.mit.edu	37	chr1	51323599	51323599	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaaagaaaaaagtacttAccactaagtcccaattattt	19	10	5	7	0	0	2	0	0	0	2	1	3	1	2	2	0	2	1	2	0	9	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:51323599A>G	uc009vyx.1	-	3	177	c.114_splice	c.e3+1	p.V38_splice	FAF1_uc009vyw.1_Splice_Site|FAF1_uc001cse.1_Splice_Site_p.V38_splice	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1						apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity	p.0?(2)		ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		AAAAGTACTTACCACTAAGTC	0.303													8	96					0	0	1	0	0		G	51323599	G	G	51323599	5	3	155	1	0	0	0	0	0	0	1	0	5380	405	14	3	1908	3	FAF1	1	51323599	Splice_Site	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3833978	51323599	197927022	56	83883											
PODN	127435	broad.mit.edu	37	chr1	53546514	53546514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggtgcccgccaatgccttcGactccacgcccaacctcaag	8	6	8	19	4	1	0	1	0	0	0	3	1	2	0	6	1	3	0	6	1	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:53546514G>A	uc001cuv.2	+	9	1778	c.1771G>A	c.(1771-1773)GAC>AAC	p.D591N	PODN_uc001cuw.2_Missense_Mutation_p.D572N|PODN_uc010onr.1_Missense_Mutation_p.D572N|PODN_uc010ons.1_Missense_Mutation_p.D449N	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	543	LRR 18.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						CAATGCCTTCGACTCCACGCC	0.617													26	29					0	0	1	0	0		A	53546514	A	A	53546514	3	1	155	1	0	0	0	0	1	0	0	0	12197	1058	37	1	1805	1	PODN	1	53546514	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2222915	53546514	195704107	57	83884											
DMRTB1	63948	broad.mit.edu	37	chr1	53925671	53925671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacctgcgcaggccgatgcGgaccgtgcccggcccactgt	6	5	14	16	5	0	1	0	0	0	1	0	3	0	2	5	3	3	1	5	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:53925671G>A	uc001cvq.1	+	1	600	c.545G>A	c.(544-546)CGG>CAG	p.R182Q		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	182	Pro-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AGGCCGATGCGGACCGTGCCC	0.721													4	10					0	0	1	0	0		A	53925671	A	A	53925671	3	1	155	1	0	0	0	0	1	0	0	0	4596	1116	39	1	547	1	DMRTB1	1	53925671	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	379157	53925671	195324950	58	83885											
TMEM59	9528	broad.mit.edu	37	chr1	54506485	54506485	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcaagaaaattcctgtgCgcttgtgaatttctcatttg	9	17	7	8	1	3	2	2	1	2	1	5	2	4	2	1	0	1	1	1	0	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:54506485C>T	uc001cwp.2	-	6	901	c.651G>A	c.(649-651)GCG>GCA	p.A217A	TMEM59_uc001cwn.2_Silent_p.A81A|TMEM59_uc001cwo.2_Silent_p.A80A|TMEM59_uc001cwq.2_Silent_p.A218A|TMEM59_uc001cwr.2_Silent_p.A150A|TMEM59_uc001cws.1_Silent_p.A229A	NM_004872	NP_004863	Q9BXS4	TMM59_HUMAN	thymic dendritic cell-derived factor 1	217	Extracellular (Potential).					Golgi membrane|integral to membrane					0						AATTCCTGTGCGCTTGTGAAT	0.338													59	113					0	0	1	0	0		T	54506485	T	T	54506485	2	4	155	1	0	0	0	0	0	0	0	1	16210	755	27	1		1	TMEM59	1	54506485	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	580814	54506485	194744136	59	83886											
TMEM59	9528	broad.mit.edu	37	chr1	54509067	54509067	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaatataactatttttccGtcatcggcttgaagataaaa	14	14	7	6	2	1	2	1	1	0	1	3	3	2	3	1	2	1	1	1	2	7	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:54509067G>A	uc001cwp.2	-	4	772	c.522C>T	c.(520-522)GAC>GAT	p.D174D	TMEM59_uc001cwn.2_Silent_p.D37D|TMEM59_uc001cwo.2_Silent_p.D37D|TMEM59_uc001cwq.2_Silent_p.D174D|TMEM59_uc001cwr.2_Silent_p.D107D|TMEM59_uc001cws.1_Silent_p.D185D	NM_004872	NP_004863	Q9BXS4	TMM59_HUMAN	thymic dendritic cell-derived factor 1	174	Extracellular (Potential).					Golgi membrane|integral to membrane					0						CTATTTTTCCGTCATCGGCTT	0.388													46	68					0	0	1	0	0		A	54509067	A	A	54509067	2	1	155	1	0	0	0	0	0	0	0	1	16210	1136	40	1		1	TMEM59	1	54509067	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2582	54509067	194741554	60	83887											
C8B	732	broad.mit.edu	37	chr1	57431549	57431549	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggagccaggcaaactgaGacagcccagggcagcacaga	13	2	13	13	0	0	2	0	1	0	2	0	4	0	3	3	3	4	3	3	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:57431549G>T	uc001cyp.2	-	1	140	c.73C>A	c.(73-75)CTC>ATC	p.L25I	C8B_uc010oon.1_5'UTR|C8B_uc010ooo.1_5'UTR	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	25					complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						GGCAAACTGAGACAGCCCAGG	0.502													5	149					0.217242	0.217503	1	1	0		T	57431549	T	T	57431549	3	4	155	1	0	0	0	0	1	0	0	0	2420	942	33	5	1750	5	C8B	1	57431549	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2922482	57431549	191819072	61	83888											
JUN	3725	broad.mit.edu	37	chr1	59248342	59248342	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccgttgaccggctgcGccgccgacgtgacgctgggc	3	6	15	17	7	0	2	0	2	0	0	0	3	0	2	5	2	2	3	5	2	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:59248342G>T	uc001cze.2	-	1	1444	c.401C>A	c.(400-402)GCG>GAG	p.A134E	uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene	134					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	GACCGGCTGCGCCGCCGACGT	0.716			A		sarcoma								3	16					2.32078e-09	2.42832e-09	1	1	0		T	59248342	T	T	59248342	3	4	155	1	0	0	0	0	1	0	0	0	7985	1087	38	5	598	5	JUN	1	59248342	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1816793	59248342	190002279	62	83889											
L1TD1	54596	broad.mit.edu	37	chr1	62676171	62676171	+	Silent	SNP	A	G	G	1	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	cataaaaagcattcacatacAaatttgagtatttcaacagg	18	11	5	7	0	2	1	2	1	0	0	2	1	2	1	0	1	3	2	0	1	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:62676171A>G	uc001dae.3	+	4	2027	c.1725A>G	c.(1723-1725)ACA>ACG	p.T575T		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	575										ovary(1)|skin(1)	2						ATTCACATACAAATTTGAGTA	0.378													4	119					0	0	1	0	0		G	62676171	G	G	62676171	2	3	155	1	0	0	0	0	0	0	0	1	8605	117	5	3		3	L1TD1	1	62676171	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3427829	62676171	186574450	63	83890											
KANK4	163782	broad.mit.edu	37	chr1	62740642	62740642	+	Missense_Mutation	SNP	T	C	C	0	1	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	tagtgtttcccttctcgatgTcatccacatacttgaggaag	9	14	8	10	1	2	1	1	1	1	0	5	3	4	2	2	1	1	1	2	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:62740642T>C	uc001dah.3	-	3	511	c.134A>G	c.(133-135)GAC>GGC	p.D45G	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	45										ovary(3)|skin(2)|lung(1)	6						CTTCTCGATGTCATCCACATA	0.488													12	201					0	0	1	0	0		C	62740642	C	C	62740642	3	2	155	1	0	0	0	0	1	0	0	0	7995	1667	58	3	2885	3	KANK4	1	62740642	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	64471	62740642	186509979	64	83891											
FOXD3	27022	broad.mit.edu	37	chr1	63789164	63789164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctagtgaagccgccttactcGtacatcgcgctcatcaccat	9	10	7	15	4	2	1	2	1	0	0	4	1	2	1	3	0	3	2	3	0	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:63789164G>A	uc001dax.2	+	1	435	c.435G>A	c.(433-435)TCG>TCA	p.S145S		NM_012183	NP_036315	Q9UJU5	FOXD3_HUMAN	forkhead box D3	145	Fork-head.				axon extension involved in axon guidance|branching involved in ureteric bud morphogenesis|cartilage development|embryonic placenta development|enteric nervous system development|iridophore differentiation|kidney development|lateral line nerve glial cell development|melanocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development|trophectodermal cell differentiation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CGCCTTACTCGTACATCGCGC	0.458													20	27					0	0	1	0	0		A	63789164	A	A	63789164	2	1	155	1	0	0	0	0	0	0	0	1	6012	1132	40	1		1	FOXD3	1	63789164	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1048522	63789164	185461457	65	83892											
EFCAB7	84455	broad.mit.edu	37	chr1	63991248	63991248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attattttccaatagaatggCgatcagtccacgaagcgatg	13	11	9	8	3	1	1	1	0	0	1	3	4	3	1	2	1	1	0	2	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:63991248C>T	uc001dbf.2	+	2	299	c.5C>T	c.(4-6)GCG>GTG	p.A2V	ITGB3BP_uc001dba.1_5'Flank|ITGB3BP_uc001dbb.1_5'Flank|ITGB3BP_uc001dbc.1_5'Flank|ITGB3BP_uc001dbd.1_5'Flank|ITGB3BP_uc009wak.1_5'Flank	NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	2							calcium ion binding				0						AATAGAATGGCGATCAGTCCA	0.368													39	103					0	0	1	0	0		T	63991248	T	T	63991248	3	4	155	1	0	0	0	0	1	0	0	0	4946	768	27	1	7	1	EFCAB7	1	63991248	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	202084	63991248	185259373	66	83893											
ROR1	4919	broad.mit.edu	37	chr1	64608333	64608333	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgacatcccagcgtgcGgtaaatagaagtcattgccc	10	10	11	10	2	1	2	1	1	0	1	2	2	2	2	2	1	3	1	2	1	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:64608333G>A	uc001dbj.2	+	7	1573	c.1174G>A	c.(1174-1176)GAT>AAT	p.D392N	ROR1_uc001dbi.3_Missense_Mutation_p.G392S|uc001dbl.2_Intron	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	392	Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						CCCAGCGTGCGGTAAATAGAA	0.443													18	48					0	0	1	0	0		A	64608333	A	A	64608333	3	1	155	1	0	0	0	0	1	0	0	0	13551	1130	39	1	1200	1	ROR1	1	64608333	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	617085	64608333	184642288	67	83894											
RAVER2	55225	broad.mit.edu	37	chr1	65243369	65243369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagatgtttcatcaatattCttttagaggaaaagacttaa	15	15	6	5	0	4	3	3	0	1	3	4	4	4	4	0	1	0	1	0	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:65243369C>T	uc001dbs.1	+	3	458	c.380C>T	c.(379-381)TCT>TTT	p.S127F	RAVER2_uc001dbt.1_Missense_Mutation_p.S6F|RAVER2_uc010opb.1_Missense_Mutation_p.S6F	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	127	RRM 1.					cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						CATCAATATTCTTTTAGAGGA	0.343													101	155					0	0	1	0	0		T	65243369	T	T	65243369	3	4	155	1	0	0	0	0	1	0	0	0	13120	913	32	4	390	4	RAVER2	1	65243369	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	635036	65243369	184007252	68	83895											
IL12RB2	3595	broad.mit.edu	37	chr1	67787572	67787572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcagagatcttcgttggtGgtgagcattccattttgaat	9	14	12	6	1	1	3	0	2	1	1	3	5	2	3	1	2	2	3	1	2	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:67787572G>A	uc001ddu.2	+	3	1004	c.364G>A	c.(364-366)GTT>ATT	p.V122I	IL12RB2_uc010oqi.1_Missense_Mutation_p.V122I|IL12RB2_uc010oqj.1_Missense_Mutation_p.V122I|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.V122I|IL12RB2_uc010oqm.1_Missense_Mutation_p.V122I|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	122	Extracellular (Potential).				positive regulation of cell proliferation|positive regulation of interferon-gamma production	integral to plasma membrane	cytokine receptor activity			ovary(2)|central_nervous_system(1)	3						CTTCGTTGGTGGTGAGCATTC	0.368													8	265					0	0	1	0	0		A	67787572	A	A	67787572	3	1	155	1	0	0	0	0	1	0	0	0	7643	1362	47	4	370	4	IL12RB2	1	67787572	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2544203	67787572	181463049	69	83896											
SLC44A5	204962	broad.mit.edu	37	chr1	75681465	75681465	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataggcatttctgtttaaaaActttattgcattttccaaac	13	17	4	7	0	1	0	0	0	1	0	2	0	2	0	1	1	3	3	1	1	6	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:75681465A>C	uc001dgu.2	-	19	1846	c.1702T>G	c.(1702-1704)TTT>GTT	p.F568V	SLC44A5_uc001dgt.2_Missense_Mutation_p.F568V|SLC44A5_uc001dgs.2_Missense_Mutation_p.F526V|SLC44A5_uc001dgr.2_Missense_Mutation_p.F526V|SLC44A5_uc010oqz.1_Missense_Mutation_p.F607V|SLC44A5_uc010ora.1_Missense_Mutation_p.F562V|SLC44A5_uc010orb.1_Missense_Mutation_p.F438V	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	568	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						CTGTTTAAAAACTTTATTGCA	0.353													49	82					0	0	1	0	0		C	75681465	C	C	75681465	3	2	155	1	0	0	0	0	1	0	0	0	14664	43	2	5	592	5	SLC44A5	1	75681465	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	7893893	75681465	173569156	70	83897											
FUBP1	8880	broad.mit.edu	37	chr1	78426155	78426155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggggcccatggggtacaGgtggccctaaaggatttact	9	9	14	9	0	0	0	0	0	0	0	0	1	0	1	2	7	2	1	2	7	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:78426155G>T	uc001dii.2	-	15	1459	c.1370C>A	c.(1369-1371)CCT>CAT	p.P457H	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Missense_Mutation_p.P478H	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	457	Pro-rich.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						ATGGGGTACAGGTGGCCCTAA	0.493													9	18					7.48243e-07	7.75629e-07	1	1	0		T	78426155	T	T	78426155	3	4	155	1	0	0	0	0	1	0	0	0	6106	1000	35	5	588	5	FUBP1	1	78426155	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2744690	78426155	170824466	71	83898											
PTGFR	5737	broad.mit.edu	37	chr1	78958519	78958519	+	Frame_Shift_Del	DEL	T	-	-																															cggaaaaccggctttccgtaTttttttcagtaatcttcatg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:78958519delT	uc001din.2	+	2	357	c.91delT	c.(91-93)TTTfs	p.F31fs	PTGFR_uc001dim.2_Frame_Shift_Del_p.F31fs	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	31	Extracellular (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	GCTTTCCGTATTTTTTTCAGT	0.453													84	116	---	---	---	---						.	-	78958519	-	-	78958519	7	5	155	1	0	1	0	1	0	0	0	0	12772	1493	52	0	93	0	PTGFR	1	78958519	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	532364	78958519	170292102	72	83899											
CCBL2	56267	broad.mit.edu	37	chr1	89426867	89426867	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctatttttaagtgcttaTttccagaatatacaagccat	13	16	4	8	0	0	1	0	0	0	1	1	1	1	1	3	0	4	1	3	0	8	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:89426867T>A	uc001dmp.2	-	8	1147	c.770A>T	c.(769-771)AAT>ATT	p.N257I	CCBL2_uc001dmq.2_Missense_Mutation_p.N223I|CCBL2_uc001dmr.2_Missense_Mutation_p.N93I	NM_001008661	NP_001008661	Q6YP21	KAT3_HUMAN	kynurenine aminotransferase III isoform 1	257					biosynthetic process|kynurenine metabolic process|tryptophan catabolic process		cysteine-S-conjugate beta-lyase activity|kynurenine-glyoxylate transaminase activity|kynurenine-oxoglutarate transaminase activity|pyridoxal phosphate binding			ovary(1)	1		Lung NSC(277;0.123)		all cancers(265;0.0117)|Epithelial(280;0.0341)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TAAGTGCTTATTTCCAGAATA	0.383													64	103					0	0	1	0	0		A	89426867	A	A	89426867	3	1	155	1	0	0	0	0	1	0	0	0	2736	1493	52	5	622	5	CCBL2	1	89426867	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	10468348	89426867	159823754	73	83900											
RBMXL1	494115	broad.mit.edu	37	chr1	89449327	89449327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctggctgcatccttagcGtctgctgggctttcaaaggt	5	14	11	11	1	3	0	1	0	2	0	5	0	4	0	1	3	3	4	1	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:89449327G>A	uc009wcx.2	-	3	899	c.183C>T	c.(181-183)GAC>GAT	p.D61D	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Silent_p.D61D	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	61	RRM.						nucleotide binding|RNA binding				0						CATCCTTAGCGTCTGCTGGGC	0.423											OREG0013593	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	475					0	0	1	0	0		A	89449327	A	A	89449327	2	1	155	1	0	0	0	0	0	0	0	1	13178	1136	40	1		1	RBMXL1	1	89449327	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	22460	89449327	159801294	74	83901											
GBP3	2635	broad.mit.edu	37	chr1	89478880	89478880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacttacgaggcccattgaCcttgatgcctcctgaaagag	10	9	11	11	1	0	4	0	3	0	1	1	6	1	5	4	2	2	0	4	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:89478880C>T	uc001dmt.2	-	6	1061	c.856G>A	c.(856-858)GTC>ATC	p.V286I	GBP3_uc010oss.1_Missense_Mutation_p.V207I|GBP3_uc001dmu.2_Missense_Mutation_p.V152I|GBP3_uc001dmv.2_RNA	NM_018284	NP_060754	Q9H0R5	GBP3_HUMAN	guanylate binding protein 3	286						integral to membrane	GTP binding|GTPase activity			ovary(1)|pancreas(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0103)|Epithelial(280;0.0293)		GGCCCATTGACCTTGATGCCT	0.333													32	150					0	0	1	0	0		T	89478880	T	T	89478880	3	4	155	1	0	0	0	0	1	0	0	0	6290	507	18	4	955	4	GBP3	1	89478880	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	29553	89478880	159771741	75	83902											
AGL	178	broad.mit.edu	37	chr1	100361928	100361928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtatactgctgattactggaCgctatgtagaagccaggtag	11	11	12	7	1	0	2	0	1	0	1	0	3	0	3	1	2	4	5	1	2	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:100361928C>T	uc001dsi.1	+	25	3746	c.3346C>T	c.(3346-3348)CGC>TGC	p.R1116C	AGL_uc001dsj.1_Missense_Mutation_p.R1116C|AGL_uc001dsk.1_Missense_Mutation_p.R1116C|AGL_uc001dsl.1_Missense_Mutation_p.R1116C|AGL_uc001dsm.1_Missense_Mutation_p.R1100C|AGL_uc001dsn.1_Missense_Mutation_p.R1099C	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1116	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GATTACTGGACGCTATGTAGA	0.408													7	253					0	0	1	0	0		T	100361928	T	T	100361928	3	4	155	1	0	0	0	0	1	0	0	0	384	536	19	1	3509	1	AGL	1	100361928	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	10883048	100361928	148888693	76	83903											
SASS6	163786	broad.mit.edu	37	chr1	100584676	100584676	+	Frame_Shift_Del	DEL	T	-	-																															cgtaacttatctaattcttgTtttttttctgctaatgtcta																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:100584676delT	uc001dsu.2	-	7	708	c.567delA	c.(565-567)AAAfs	p.K189fs	SASS6_uc009wdz.2_Frame_Shift_Del_p.K22fs	NM_194292	NP_919268	Q6UVJ0	SAS6_HUMAN	spindle assembly abnormal protein 6	189	Potential.				centriole replication	centriole				upper_aerodigestive_tract(1)|ovary(1)	2		all_epithelial(167;4.58e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.085)|all cancers(265;0.139)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.197)		CTAATTCTTGTTTTTTTTCTG	0.318													39	65	---	---	---	---						.	-	100584676	-	-	100584676	7	5	155	1	0	1	0	1	0	0	0	0	13875	1722	60	0	1450	0	SASS6	1	100584676	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	222748	100584676	148665945	77	83904											
AMY2A	279	broad.mit.edu	37	chr1	104160223	104160223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctccgaagggatttggagGggttcaggtgggtatgattc	8	11	17	5	1	1	1	1	1	0	0	3	4	2	3	1	6	1	3	1	6	2	4	rs148925092		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:104160223G>A	uc001dut.2	+	1	225	c.161G>A	c.(160-162)GGG>GAG	p.G54E	AMY2A_uc010ouq.1_Missense_Mutation_p.G54E	NM_000699	NP_000690	P04746	AMYP_HUMAN	pancreatic amylase alpha 2A precursor	54					carbohydrate catabolic process|polysaccharide digestion	extracellular space	alpha-amylase activity|calcium ion binding|chloride ion binding			ovary(1)|skin(1)	2		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)	Acarbose(DB00284)|Bentiromide(DB00522)|Icodextrin(DB00702)|Miglitol(DB00491)|Pancrelipase(DB00085)	GGATTTGGAGGGGTTCAGGTG	0.413													133	315					0	0	1	0	0		A	104160223	A	A	104160223	3	1	155	1	0	0	0	0	1	0	0	0	594	1232	43	4	163	4	AMY2A	1	104160223	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3575547	104160223	145090398	78	83905											
CELSR2	1952	broad.mit.edu	37	chr1	109813153	109813153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgggcactcactgaggtgCgcgatgtcaacaccggcccc	8	5	12	16	4	2	1	2	1	0	0	2	2	2	1	4	3	2	1	4	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:109813153C>T	uc001dxa.3	+	24	7475	c.7414C>T	c.(7414-7416)CGC>TGC	p.R2472C		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2472	Cytoplasmic (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CACTGAGGTGCGCGATGTCAA	0.607													6	105					0	0	1	0	0		T	109813153	T	T	109813153	3	4	155	1	0	0	0	0	1	0	0	0	3225	768	27	1	7508	1	CELSR2	1	109813153	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5652930	109813153	139437468	79	83906											
GSTM4	2948	broad.mit.edu	37	chr1	110199841	110199841	+	Silent	SNP	T	C	C	0	1	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	ttcttccccacggcagctccTgactatgacagaagccagtg	9	9	9	14	1	1	3	0	2	1	1	3	3	3	3	4	1	2	2	4	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:110199841T>C	uc001dyf.2	+	3	431	c.117T>C	c.(115-117)CCT>CCC	p.P39P	GSTM4_uc009wfi.2_3'UTR|GSTM4_uc001dyg.2_5'UTR|GSTM4_uc009wfj.2_Silent_p.P39P|GSTM4_uc001dyh.2_Silent_p.P39P|GSTM2_uc001dyi.2_Intron	NM_000850	NP_000841	Q03013	GSTM4_HUMAN	glutathione S-transferase mu 4 isoform 1	39	GST N-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity				0		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)	CGGCAGCTCCTGACTATGACA	0.567													12	24					0	0	1	0	0		C	110199841	C	C	110199841	2	2	155	1	0	0	0	0	0	0	0	1	6856	1567	55	3		3	GSTM4	1	110199841	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	386688	110199841	139050780	80	83907											
KCNA2	3737	broad.mit.edu	37	chr1	111147202	111147202	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttcggagggggtcaaagTacctcattcgtttctttggg	7	14	12	8	2	3	0	2	0	1	0	5	1	3	1	1	4	1	2	1	4	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:111147202T>A	uc001dzu.2	-	2	699	c.203A>T	c.(202-204)TAC>TTC	p.Y68F	KCNA2_uc009wfv.1_Missense_Mutation_p.Y68F|KCNA2_uc009wfw.2_Missense_Mutation_p.Y68F	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	68						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		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)		GGGGTCAAAGTACCTCATTCG	0.517													73	124					0	0	1	0	0		A	111147202	A	A	111147202	3	1	155	1	0	0	0	0	1	0	0	0	8019	1638	57	5	1300	5	KCNA2	1	111147202	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	947361	111147202	138103419	81	83908											
KCNA3	3738	broad.mit.edu	37	chr1	111216300	111216300	+	Missense_Mutation	SNP	A	G	G	1	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	cagccccttggagtggcgcgAcagcttgaagatgcggaaga	10	6	15	10	3	0	3	0	1	0	2	0	6	0	5	2	3	3	1	2	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:111216300A>G	uc001dzv.1	-	1	1356	c.1132T>C	c.(1132-1134)TCG>CCG	p.S378P		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	378	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAGTGGCGCGACAGCTTGAAG	0.592													48	88					0	0	1	0	0		G	111216300	G	G	111216300	3	3	155	1	0	0	0	0	1	0	0	0	8020	275	10	3	599	3	KCNA3	1	111216300	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	69098	111216300	138034321	82	83909											
KCNA3	3738	broad.mit.edu	37	chr1	111216362	111216362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaggatggccagagacatgGcctgctgtccattgccctgt	7	10	12	12	0	1	1	1	0	0	1	2	3	2	2	4	3	2	1	4	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:111216362G>A	uc001dzv.1	-	1	1294	c.1070C>T	c.(1069-1071)GCC>GTC	p.A357V		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	357						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAGAGACATGGCCTGCTGTCC	0.562													58	79					0	0	1	0	0		A	111216362	A	A	111216362	3	1	155	1	0	0	0	0	1	0	0	0	8020	1203	42	2	661	2	KCNA3	1	111216362	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	62	111216362	138034259	83	83910											
DRAM2	128338	broad.mit.edu	37	chr1	111667451	111667451	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttgatgataacgttctcTtcaggactcagagcatgaac	13	12	8	8	1	3	4	2	3	1	1	4	5	3	5	0	1	3	2	0	1	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:111667451T>C	uc001ead.3	-	5	509	c.252A>G	c.(250-252)GAA>GAG	p.E84E	DRAM2_uc001eae.3_Silent_p.E84E|DRAM2_uc009wfy.2_RNA|DRAM2_uc001eaf.3_Intron	NM_178454	NP_848549	Q6UX65	DRAM2_HUMAN	transmembrane protein 77	84					apoptosis|induction of apoptosis	Golgi apparatus|integral to membrane|lysosomal membrane					0						TAACGTTCTCTTCAGGACTCA	0.353													50	70					0	0	1	0	0		C	111667451	C	C	111667451	2	2	155	1	0	0	0	0	0	0	0	1	4760	1606	56	3		3	DRAM2	1	111667451	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	451089	111667451	137583170	84	83911											
RSBN1	54665	broad.mit.edu	37	chr1	114308955	114308955	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccgccgaaactgttttgaActgatgaatgacatttctag	12	12	8	9	2	1	4	0	4	1	0	1	5	1	4	2	0	2	1	2	0	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:114308955A>G	uc001edq.2	-	7	2092	c.2056T>C	c.(2056-2058)TTC>CTC	p.F686L	RSBN1_uc001edr.2_RNA	NM_018364	NP_060834	Q5VWQ0	RSBN1_HUMAN	round spermatid basic protein 1	686						nucleus				ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACTGTTTTGAACTGATGAATG	0.423													119	157					0	0	1	0	0		G	114308955	G	G	114308955	3	3	155	1	0	0	0	0	1	0	0	0	13721	43	2	3	356	3	RSBN1	1	114308955	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2641504	114308955	134941666	85	83912											
DCLRE1B	64858	broad.mit.edu	37	chr1	114454003	114454003	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagccgaaaaatccacagCtcccaccctgatatccacgt	14	6	5	16	2	0	1	0	1	0	0	3	2	3	1	5	0	2	1	5	0	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:114454003C>T	uc001eeg.2	+	4	960	c.789C>T	c.(787-789)AGC>AGT	p.S263S	DCLRE1B_uc001eeh.2_Silent_p.S137S|DCLRE1B_uc001eei.2_Silent_p.S137S	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	263					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAATCCACAGCTCCCACCCTG	0.532								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					68	95					0	0	1	0	0		T	114454003	T	T	114454003	2	4	155	1	0	0	0	0	0	0	0	1	4298	796	28	2		2	DCLRE1B	1	114454003	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	145048	114454003	134796618	86	83913											
HIPK1	204851	broad.mit.edu	37	chr1	114516066	114516066	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcctacattgggtcttccCgaggctcaacaatttacact	11	12	6	12	1	2	0	1	0	1	0	4	1	4	0	2	2	3	1	2	2	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:114516066C>T	uc001eem.2	+	16	3726	c.3565C>T	c.(3565-3567)CGA>TGA	p.R1189*	HIPK1_uc001een.2_Nonsense_Mutation_p.R1189*|HIPK1_uc001eeo.2_Nonsense_Mutation_p.R815*|HIPK1_uc001eep.2_Nonsense_Mutation_p.R795*|HIPK1_uc001eeq.2_Nonsense_Mutation_p.R481*	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	1189					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGGGTCTTCCCGAGGCTCAAC	0.542													94	137					0	0	1	0	0		T	114516066	T	T	114516066	4	4	155	1	0	0	0	0	0	1	0	0	7132	644	23	1	3725	1	HIPK1	1	114516066	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	62063	114516066	134734555	87	83914											
SPAG17	200162	broad.mit.edu	37	chr1	118537093	118537093	+	Frame_Shift_Del	DEL	T	-	-																															gagggacaattgtatcttccTtttttacttgccatggtgat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:118537093delT	uc001ehk.2	-	35	5182	c.5114delA	c.(5113-5115)AAGfs	p.K1705fs		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1705						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TGTATCTTCCTTTTTTACTTG	0.413													79	106	---	---	---	---						.	-	118537093	-	-	118537093	7	5	155	1	0	1	0	1	0	0	0	0	15004	1609	56	0	1613	0	SPAG17	1	118537093	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	4021027	118537093	130713528	88	83915											
HMGCS2	3158	broad.mit.edu	37	chr1	120298076	120298076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagcgaggccaggcacccGtacagggatgaggtgtacat	12	5	15	9	2	0	2	0	1	0	1	0	4	0	3	2	4	3	3	2	4	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:120298076G>A	uc001eid.2	-	6	1212	c.1161C>T	c.(1159-1161)TAC>TAT	p.Y387Y	HMGCS2_uc010oxj.1_Silent_p.Y345Y|HMGCS2_uc001eie.2_Silent_p.Y295Y	NM_005518	NP_005509	P54868	HMCS2_HUMAN	hydroxymethylglutaryl-CoA synthase 2 isoform 1	387					acetoacetic acid biosynthetic process|cholesterol biosynthetic process|isoprenoid biosynthetic process|ketone body biosynthetic process	mitochondrial matrix	hydroxymethylglutaryl-CoA synthase activity			ovary(2)	2	all_cancers(5;6.38e-10)|all_epithelial(5;1.1e-10)|Melanoma(3;1.93e-05)|Breast(55;0.218)|all_neural(166;0.219)	all_lung(203;1.29e-06)|Lung NSC(69;9.35e-06)|all_epithelial(167;0.00124)		Lung(183;0.0112)|LUSC - Lung squamous cell carcinoma(189;0.0595)		CCAGGCACCCGTACAGGGATG	0.562													204	292					0	0	1	0	0		A	120298076	A	A	120298076	2	1	155	1	0	0	0	0	0	0	0	1	7249	1140	40	1		1	HMGCS2	1	120298076	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1760983	120298076	128952545	89	83916											
NOTCH2	4853	broad.mit.edu	37	chr1	120491722	120491722	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacaagggtttggggaacagGgagccaatactgtctgacaa	13	7	13	8	0	1	1	0	1	1	0	1	3	1	3	1	4	3	1	1	4	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:120491722G>T	uc001eik.2	-	16	2763	c.2507C>A	c.(2506-2508)CCC>CAC	p.P836H	NOTCH2_uc001eil.2_Missense_Mutation_p.P836H	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	836	Extracellular (Potential).|EGF-like 22.				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGGGGAACAGGGAGCCAATAC	0.413			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome		OREG0013733	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	193					8.12818e-05	8.30715e-05	1	1	0		T	120491722	T	T	120491722	3	4	155	1	0	0	0	0	1	0	0	0	10567	1232	43	5	4984	5	NOTCH2	1	120491722	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	193646	120491722	128758899	90	83917											
PDZK1	5174	broad.mit.edu	37	chr1	145762320	145762320	+	Frame_Shift_Del	DEL	A	-	-																															aaccatgactcgcacatggcAaaagaacgggtgagtggggg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:145762320delA	uc001eon.1	+	9	1594	c.1497delA	c.(1495-1497)GCAfs	p.A499fs	NBPF10_uc001emp.3_Intron|PDZK1_uc001eoo.1_Frame_Shift_Del_p.A499fs|PDZK1_uc010oza.1_Frame_Shift_Del_p.A388fs	NM_002614	NP_002605	Q5T2W1	NHRF3_HUMAN	PDZ domain containing 1	499					carnitine transport|cell proliferation|drug transport|positive regulation of ion transmembrane transport	brush border membrane|cytoplasm	PDZ domain binding|transporter activity				0	all_hematologic(18;0.00473)|Acute lymphoblastic leukemia(18;0.0786)		KIRC - Kidney renal clear cell carcinoma(6;0.0764)|Kidney(552;0.118)|Colorectal(543;0.229)			CGCACATGGCAAAAGAACGGG	0.438													38	64	---	---	---	---						.	-	145762320	-	-	145762320	7	5	155	1	0	1	0	1	0	0	0	0	11726	117	5	0	1523	0	PDZK1	1	145762320	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	25270598	145762320	103488301	91	83918											
SV2A	9900	broad.mit.edu	37	chr1	149884981	149884981	+	Frame_Shift_Del	DEL	C	-	-																															ttctttccgtcgttgtgcctCcccccggcccccagggggac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:149884981delC	uc001etg.2	-	2	903	c.412delG	c.(412-414)GAGfs	p.E138fs	SV2A_uc001eth.2_Frame_Shift_Del_p.E138fs	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	138	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	CGTTGTGCCTCCCCCCGGCCC	0.632													35	70	---	---	---	---						.	-	149884981	-	-	149884981	7	5	155	1	0	1	0	1	0	0	0	0	15442	864	30	0	1864	0	SV2A	1	149884981	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	4122661	149884981	99365640	92	83919											
PLEKHO1	51177	broad.mit.edu	37	chr1	150131589	150131589	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaggcatcatcgaattggagCcaggcaaagagggtgctgca	12	6	15	8	1	1	1	1	0	0	1	2	4	1	2	1	4	3	4	1	4	2	1	rs148396210		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:150131589C>T	uc001ett.2	+	6	1379	c.1101C>T	c.(1099-1101)AGC>AGT	p.S367S	PLEKHO1_uc001etr.2_Silent_p.S195S|PLEKHO1_uc001ets.2_Silent_p.S184S|PLEKHO1_uc001etu.2_Silent_p.S195S	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	367	Negative regulator of AP-1 activity.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			CGAATTGGAGCCAGGCAAAGA	0.627													9	30					0	0	1	0	0		T	150131589	T	T	150131589	2	4	155	1	0	0	0	0	0	0	0	1	12103	738	26	2		2	PLEKHO1	1	150131589	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	246608	150131589	99119032	93	83920											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150526845	150526846	+	Frame_Shift_Ins	INS	-	C	C																															tacccctcaccgcagccctgINScccccctgagcagccagacc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:150526845_150526846insC	uc001eux.2	+	7	1372_1373	c.1136_1137insC	c.(1135-1137)TGCfs	p.C379fs	ADAMTSL4_uc001euw.2_Frame_Shift_Ins_p.C379fs|ADAMTSL4_uc009wlw.2_Frame_Shift_Ins_p.C379fs|ADAMTSL4_uc010pcg.1_Frame_Shift_Ins_p.C379fs	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	379					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	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)			CCGCAGCCCTGCCCCCCTGAGC	0.639													48	58	---	---	---	---						.	C	150526846	C	C	150526845	7	5	155	1	0	1	1	0	0	0	0	0	277	1319	46	0	1154	0	ADAMTSL4	1	150526845	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	395256	150526845	98723776	94	83921											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150528719	150528719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtgatgattctacctgtCgccttgtttcggggaacctc	5	13	13	10	2	1	2	0	2	1	0	4	3	1	3	3	4	2	1	3	4	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:150528719C>T	uc001eux.2	+	9	1689	c.1453C>T	c.(1453-1455)CGC>TGC	p.R485C	ADAMTSL4_uc001euw.2_Missense_Mutation_p.R485C|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.R508C|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.R508C|ADAMTSL4_uc009wlx.2_5'Flank	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	485					apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	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)			TTCTACCTGTCGCCTTGTTTC	0.612													60	101					0	0	1	0	0		T	150528719	T	T	150528719	3	4	155	1	0	0	0	0	1	0	0	0	277	884	31	1	1479	1	ADAMTSL4	1	150528719	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1874	150528719	98721902	95	83922											
PIP5K1A	8394	broad.mit.edu	37	chr1	151219440	151219440	+	Missense_Mutation	SNP	A	G	G	1	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	tgcagagtcagagttcacccAtgtgagtatctgggatgtgt	9	12	13	7	0	3	3	2	1	1	2	3	4	3	4	1	1	1	3	1	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:151219440A>G	uc001exj.2	+	15	2137	c.1685A>G	c.(1684-1686)CAT>CGT	p.H562R	PIP5K1A_uc001exi.2_Missense_Mutation_p.H549R|PIP5K1A_uc010pcu.1_Missense_Mutation_p.H522R|PIP5K1A_uc001exk.2_Missense_Mutation_p.H500R|PIP5K1A_uc010pcv.1_Missense_Mutation_p.I227V	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	562					phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			GAGTTCACCCATGTGAGTATC	0.413													22	136					0	0	1	0	0		G	151219440	G	G	151219440	3	3	155	1	0	0	0	0	1	0	0	0	11958	231	8	3	1743	3	PIP5K1A	1	151219440	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	690721	151219440	98031181	96	83923											
POGZ	23126	broad.mit.edu	37	chr1	151380627	151380628	+	Frame_Shift_Del	DEL	AG	-	-																															agcaggtgctatagcgacacAgagagcagtgtacgtaagta																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:151380627_151380628delAG	uc001eyd.1	-	15	2629_2630	c.2323_2324delCT	c.(2323-2325)CTGfs	p.L775fs	POGZ_uc001eye.1_Frame_Shift_Del_p.L722fs|POGZ_uc010pdb.1_Frame_Shift_Del_p.L766fs|POGZ_uc001eyf.1_Frame_Shift_Del_p.L731fs|POGZ_uc010pdc.1_Frame_Shift_Del_p.L713fs|POGZ_uc009wmv.1_Frame_Shift_Del_p.L680fs|POGZ_uc010pdd.1_Frame_Shift_Del_p.L266fs	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	775	C2H2-type 8.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	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)			ATAGCGACACAGAGAGCAGTGT	0.475													53	110	---	---	---	---						.	-	151380628	-	-	151380627	7	5	155	1	0	1	0	1	0	0	0	0	12205	188	7	0	1928	0	POGZ	1	151380627	Frame_Shift_Del	DEL	AG	TCGA-CG-5726-01A-11D-1600-08	161187	151380627	97869994	97	83924											
TUFT1	7286	broad.mit.edu	37	chr1	151538676	151538676	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaatggctttagtcagagtcCcacagccctgtacagcagcc	11	8	9	13	0	1	1	1	0	0	1	2	1	2	1	3	1	4	3	3	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:151538676C>A	uc001eyl.2	+	6	514	c.452C>A	c.(451-453)CCC>CAC	p.P151H	TUFT1_uc001eym.2_Missense_Mutation_p.P126H|TUFT1_uc010pdf.1_Missense_Mutation_p.P170H|TUFT1_uc010pdg.1_Missense_Mutation_p.P99H	NM_020127	NP_064512	Q9NNX1	TUFT1_HUMAN	tuftelin 1 isoform 1	151					bone mineralization|odontogenesis	cytoplasm|extracellular region	structural constituent of tooth enamel				0	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGTCAGAGTCCCACAGCCCTG	0.468													16	22					1.56452e-12	1.65463e-12	1	1	0		A	151538676	A	A	151538676	3	1	155	1	0	0	0	0	1	0	0	0	16798	623	22	5	474	5	TUFT1	1	151538676	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	158049	151538676	97711945	98	83925											
FLG	2312	broad.mit.edu	37	chr1	152286203	152286203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgctgactgctggtggcCggatccatgtctttctcctg	3	14	12	12	1	3	1	0	1	3	0	5	2	4	2	3	3	2	2	3	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:152286203C>T	uc001ezu.1	-	3	1195	c.1159G>A	c.(1159-1161)GGC>AGC	p.G387S	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	387	Ser-rich.|Filaggrin 2.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCTGGTGGCCGGATCCATGT	0.582									Ichthyosis				19	471					0	0	1	0	0		T	152286203	T	T	152286203	3	4	155	1	0	0	0	0	1	0	0	0	5936	652	23	1	11030	1	FLG	1	152286203	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	747527	152286203	96964418	99	83926											
LCE1C	353133	broad.mit.edu	37	chr1	152777650	152777650	+	Frame_Shift_Del	DEL	C	-	-																															ccccgccacagcagctggagCcccccgagggctggctgcag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:152777650delC	uc001fap.1	-	2	356	c.305delG	c.(304-306)GGCfs	p.G102fs		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	102	Gly-rich.				keratinization						0	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)			GCAGCTGGAGCCCCCCGAGGG	0.667													44	73	---	---	---	---						.	-	152777650	-	-	152777650	7	5	155	1	0	1	0	1	0	0	0	0	8677	739	26	0	55	0	LCE1C	1	152777650	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	491447	152777650	96472971	100	83927											
S100A3	6274	broad.mit.edu	37	chr1	153520175	153520175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggctactgggagcagggggGctctgaggggcagtccttga	7	7	19	8	0	1	2	0	2	1	0	2	3	2	3	1	7	2	4	1	7	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:153520175G>A	uc001fca.1	-	3	372	c.289C>T	c.(289-291)CCC>TCC	p.P97S	S100A4_uc001fby.2_5'Flank|S100A4_uc001fbz.2_5'Flank|uc009wog.1_Intron	NM_002960	NP_002951	P33764	S10A3_HUMAN	S100 calcium binding protein A3	97							calcium ion binding|protein binding				0	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)			GAGCAGGGGGGCTCTGAGGGG	0.622													47	59					0	0	1	0	0		A	153520175	A	A	153520175	3	1	155	1	0	0	0	0	1	0	0	0	13804	1203	42	2	20	2	S100A3	1	153520175	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	742525	153520175	95730446	101	83928											
S100A16	140576	broad.mit.edu	37	chr1	153580513	153580513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctttctggagcatctcgcGgaagctgctcttgctgatct	5	14	10	12	2	5	1	0	1	5	0	6	3	5	3	0	2	4	4	0	2	1	2	rs142272783		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:153580513G>A	uc001fcc.2	-	2	248	c.115C>T	c.(115-117)CGC>TGC	p.R39C	S100A16_uc001fcd.1_Missense_Mutation_p.R39C	NM_080388	NP_525127	Q96FQ6	S10AG_HUMAN	S100 calcium binding protein A16	39	EF-hand 1.					cytosol|nucleolus	calcium ion binding|protein homodimerization activity				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			AGCATCTCGCGGAAGCTGCTC	0.547													48	55					0	0	1	0	0		A	153580513	A	A	153580513	3	1	155	1	0	0	0	0	1	0	0	0	13802	1116	39	1	204	1	S100A16	1	153580513	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	60338	153580513	95670108	102	83929											
INTS3	65123	broad.mit.edu	37	chr1	153732081	153732081	+	Missense_Mutation	SNP	T	C	C	0	1	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	tccagacaaggatagcattaTgaacataggtatgtgaccaa	16	9	9	7	0	0	3	0	2	0	1	1	4	1	4	2	2	2	2	2	2	7	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:153732081T>C	uc009wom.2	+	12	1450	c.1229T>C	c.(1228-1230)ATG>ACG	p.M410T	INTS3_uc001fct.2_Missense_Mutation_p.M410T|INTS3_uc001fcu.2_Missense_Mutation_p.M102T|INTS3_uc001fcv.2_Missense_Mutation_p.M204T|INTS3_uc010peb.1_Missense_Mutation_p.M204T|INTS3_uc001fcw.2_5'UTR|INTS3_uc010pec.1_Intron	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	411					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GATAGCATTATGAACATAGGT	0.498													80	162					0	0	1	0	0		C	153732081	C	C	153732081	3	2	155	1	0	0	0	0	1	0	0	0	7795	1464	51	3	1271	3	INTS3	1	153732081	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	151568	153732081	95518540	103	83930											
ATP8B2	57198	broad.mit.edu	37	chr1	154302881	154302881	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttgttgcagaagaagaaaGgagggcgcgggctaatgacc	12	8	15	6	2	0	4	0	1	0	3	0	5	0	5	1	3	1	3	1	3	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:154302881G>T	uc001fey.1	+	2	287	c.98G>T	c.(97-99)AGG>ATG	p.R33M	ATP8B2_uc001few.2_Missense_Mutation_p.R14M|ATP8B2_uc001fex.2_Missense_Mutation_p.R47M	NM_001005855	NP_001005855	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform b	33	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GAAGAAGAAAGGAGGGCGCGG	0.493													21	68					3.73194e-20	4.0155e-20	1	1	0		T	154302881	T	T	154302881	3	4	155	1	0	0	0	0	1	0	0	0	1196	1000	35	5	150	5	ATP8B2	1	154302881	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	570800	154302881	94947740	104	83931											
PBXIP1	57326	broad.mit.edu	37	chr1	154924376	154924376	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccatcctggatgccgggcCcagtgtctccactggcaggc	5	8	13	15	1	1	0	0	0	1	0	4	1	3	1	5	4	1	1	5	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:154924376C>A	uc001ffr.2	-	3	132	c.73G>T	c.(73-75)GGC>TGC	p.G25C	PBXIP1_uc001ffs.2_5'UTR|PBXIP1_uc010pep.1_Intron|PBXIP1_uc009woy.1_RNA	NM_020524	NP_065385	Q96AQ6	PBIP1_HUMAN	pre-B-cell leukemia homeobox interacting protein	25					cell differentiation|multicellular organismal development|negative regulation of transcription, DNA-dependent	cytosol|microtubule|nucleus	protein binding|transcription corepressor activity			large_intestine(1)	1	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GATGCCGGGCCCAGTGTCTCC	0.597													69	84					5.89852e-23	6.37543e-23	1	1	0		A	154924376	A	A	154924376	3	1	155	1	0	0	0	0	1	0	0	0	11515	623	22	5	2158	5	PBXIP1	1	154924376	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	621495	154924376	94326245	105	83932											
GBA	2629	broad.mit.edu	37	chr1	155209427	155209427	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcttcagagaagtacgatTtaagtagcaaattttgggca	13	13	9	6	1	2	1	1	0	1	1	2	3	2	1	0	1	2	4	0	1	5	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:155209427T>C	uc001fjh.2	-	4	584	c.434A>G	c.(433-435)AAA>AGA	p.K145R	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Intron|GBA_uc010pfx.1_Intron|GBA_uc001fji.2_Missense_Mutation_p.K145R|GBA_uc001fjj.2_Missense_Mutation_p.K145R|GBA_uc001fjk.2_Missense_Mutation_p.K145R|GBA_uc001fjl.2_Missense_Mutation_p.K145R|GBA_uc010pfy.1_Missense_Mutation_p.K58R|GBA_uc009wqk.1_Missense_Mutation_p.K58R	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	145					carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		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)		Alglucerase(DB00088)|Imiglucerase(DB00053)	GAAGTACGATTTAAGTAGCAA	0.393									Gaucher_disease_type_I				31	54					0	0	1	0	0		C	155209427	C	C	155209427	3	2	155	1	0	0	0	0	1	0	0	0	6281	1841	64	3	1208	3	GBA	1	155209427	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	285051	155209427	94041194	106	83933											
FAM189B	10712	broad.mit.edu	37	chr1	155220390	155220390	+	Frame_Shift_Del	DEL	G	-	-																															aataggagcgggcagcccgtGgggggcgccgtggcaggggg																								rs74953707	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:155220390delG	uc001fjm.2	-	9	1793	c.1187delC	c.(1186-1188)CCAfs	p.P396fs	RAG1AP1_uc010pey.1_Intron|FAM189B_uc009wql.2_Frame_Shift_Del_p.P198fs|FAM189B_uc001fjn.2_Frame_Shift_Del_p.P300fs|FAM189B_uc001fjo.2_Frame_Shift_Del_p.P378fs|FAM189B_uc001fjp.2_Intron	NM_006589	NP_006580	P81408	F189B_HUMAN	hypothetical protein LOC10712 isoform a	396						integral to membrane	WW domain binding			ovary(1)|breast(1)	2						GGCAGCCCGTGGGGGGCGCCG	0.721													12	6	---	---	---	---						.	-	155220390	-	-	155220390	7	5	155	1	0	1	0	1	0	0	0	0	5528	1348	47	0	835	0	FAM189B	1	155220390	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	10963	155220390	94030231	107	83934											
CLK2	1196	broad.mit.edu	37	chr1	155233743	155233743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcccgagcccagctcacccGcagcggtttgcagttctcac	7	8	9	17	3	2	0	2	0	1	0	4	1	3	0	3	1	4	5	3	1	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:155233743G>A	uc001fjy.2	-	12	1605	c.1315C>T	c.(1315-1317)CGG>TGG	p.R439W	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjs.2_5'Flank|SCAMP3_uc001fju.2_5'Flank|SCAMP3_uc001fjv.2_5'Flank|SCAMP3_uc001fjt.2_5'Flank|CLK2_uc001fjw.2_Missense_Mutation_p.R438W|CLK2_uc001fjx.2_Missense_Mutation_p.R211W|CLK2_uc009wqm.2_Missense_Mutation_p.R439W	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	439	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		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)			CAGCTCACCCGCAGCGGTTTG	0.532								Other_conserved_DNA_damage_response_genes					26	164					0	0	1	0	0		A	155233743	A	A	155233743	3	1	155	1	0	0	0	0	1	0	0	0	3540	1086	38	1	192	1	CLK2	1	155233743	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	13353	155233743	94016878	108	83935											
CLK2	1196	broad.mit.edu	37	chr1	155234303	155234303	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtattcaaagatgatgcagcCtatactccacacatcacaag	15	9	6	11	0	2	2	2	1	0	1	3	2	3	2	2	0	3	2	2	0	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:155234303C>A	uc001fjy.2	-	10	1392	c.1102G>T	c.(1102-1104)GGC>TGC	p.G368C	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjs.2_5'Flank|SCAMP3_uc001fju.2_5'Flank|SCAMP3_uc001fjv.2_5'Flank|SCAMP3_uc001fjt.2_5'Flank|CLK2_uc001fjw.2_Missense_Mutation_p.G367C|CLK2_uc001fjx.2_Missense_Mutation_p.G140C|CLK2_uc009wqm.2_Missense_Mutation_p.G368C	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	368	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		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)			ATGATGCAGCCTATACTCCAC	0.498								Other_conserved_DNA_damage_response_genes					12	46					2.27111e-07	2.36009e-07	1	1	0		A	155234303	A	A	155234303	3	1	155	1	0	0	0	0	1	0	0	0	3540	681	24	5	413	5	CLK2	1	155234303	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	560	155234303	94016318	109	83936											
SMG5	23381	broad.mit.edu	37	chr1	156228930	156228930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgaaatgaccaaagctgcGgatgcagcagatgcgcacca	14	5	12	10	2	0	3	0	2	0	1	0	5	0	4	2	1	5	4	2	1	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:156228930G>A	uc001foc.3	-	16	2457	c.2308C>T	c.(2308-2310)CGC>TGC	p.R770C	SMG5_uc009wrv.2_Missense_Mutation_p.R255C	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	770					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					CCAAAGCTGCGGATGCAGCAG	0.612													3	65					0	0	1	0	0		A	156228930	A	A	156228930	3	1	155	1	0	0	0	0	1	0	0	0	14821	1116	39	1	770	1	SMG5	1	156228930	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	994627	156228930	93021691	110	83937											
CCT3	7203	broad.mit.edu	37	chr1	156286984	156286984	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgattattgtctgtcttcCggactctgcggatggctgtg	4	15	13	9	3	3	0	0	0	3	0	4	3	4	2	1	3	2	1	1	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:156286984C>A	uc001fol.1	-	10	1167	c.947G>T	c.(946-948)CGG>CTG	p.R316L	CCT3_uc001fom.1_Missense_Mutation_p.R315L|CCT3_uc001fon.1_Missense_Mutation_p.R278L|CCT3_uc010phj.1_Missense_Mutation_p.R270L|CCT3_uc010phk.1_Missense_Mutation_p.R270L|CCT3_uc010phl.1_Missense_Mutation_p.R270L	NM_005998	NP_005989	P49368	TCPG_HUMAN	chaperonin containing TCP1, subunit 3 isoform a	316					'de novo' posttranslational protein folding	cytoskeleton|cytosol|plasma membrane	ATP binding|unfolded protein binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.158)					GTCTGTCTTCCGGACTCTGCG	0.448													81	104					1.42074e-37	1.566e-37	1	1	0		A	156286984	A	A	156286984	3	1	155	1	0	0	0	0	1	0	0	0	2957	652	23	5	710	5	CCT3	1	156286984	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	58054	156286984	92963637	111	83938											
MRPL24	79590	broad.mit.edu	37	chr1	156707482	156707482	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catcagctctgggaaattcgGgtttagggataattctccct	9	13	10	9	1	3	0	1	0	2	0	5	2	3	2	1	3	1	2	1	3	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:156707482G>T	uc001fpw.1	-	5	609	c.470C>A	c.(469-471)CCC>CAC	p.P157H	MRPL24_uc001fpx.1_Missense_Mutation_p.P157H	NM_024540	NP_078816	Q96A35	RM24_HUMAN	mitochondrial ribosomal protein L24 precursor	157					translation	mitochondrion|ribosome	structural constituent of ribosome				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGGAAATTCGGGTTTAGGGAT	0.542													16	122					1.5739e-10	1.65512e-10	1	1	0		T	156707482	T	T	156707482	3	4	155	1	0	0	0	0	1	0	0	0	9808	1232	43	5	188	5	MRPL24	1	156707482	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	420498	156707482	92543139	112	83939											
OR10X1	128367	broad.mit.edu	37	chr1	158549613	158549613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccaacaagaatgaattccTtcaggattgtctggttgatc	12	12	9	8	0	2	3	1	2	1	1	4	4	3	4	2	2	2	1	2	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:158549613T>C	uc010pin.1	-	1	77	c.77A>G	c.(76-78)AAG>AGG	p.K26R		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	26	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AATGAATTCCTTCAGGATTGT	0.363													10	249					0	0	1	0	0		C	158549613	C	C	158549613	3	2	155	1	0	0	0	0	1	0	0	0	10941	1609	56	3	898	3	OR10X1	1	158549613	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1842131	158549613	90701008	113	83940											
SPTA1	6708	broad.mit.edu	37	chr1	158639307	158639307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgactccttcagcaatctaCgtctagtggcagccttttca	9	13	7	12	1	4	1	2	1	2	0	5	1	5	1	2	1	3	2	2	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:158639307C>T	uc001fst.1	-	14	1923	c.1724G>A	c.(1723-1725)CGT>CAT	p.R575H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	575	Spectrin 6.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CAGCAATCTACGTCTAGTGGC	0.443													102	181					0	0	1	0	0		T	158639307	T	T	158639307	3	4	155	1	0	0	0	0	1	0	0	0	15141	536	19	1	5691	1	SPTA1	1	158639307	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	89694	158639307	90611314	114	83941											
PYHIN1	149628	broad.mit.edu	37	chr1	158911972	158911972	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacatcaacttgaagaggaAattcattaaaaagagaatca	22	8	6	5	0	3	3	3	1	0	2	3	5	3	4	0	1	2	0	0	1	8	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:158911972A>G	uc001ftb.2	+	5	1030	c.785A>G	c.(784-786)AAA>AGA	p.K262R	PYHIN1_uc001ftc.2_Missense_Mutation_p.K253R|PYHIN1_uc001ftd.2_Missense_Mutation_p.K262R|PYHIN1_uc001fte.2_Missense_Mutation_p.K253R	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	262	HIN-200.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					TTGAAGAGGAAATTCATTAAA	0.368													46	66					0	0	1	0	0		G	158911972	G	G	158911972	3	3	155	1	0	0	0	0	1	0	0	0	12890	14	1	3	799	3	PYHIN1	1	158911972	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	272665	158911972	90338649	115	83942											
OR10J3	441911	broad.mit.edu	37	chr1	159284045	159284045	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccctcttacccatgatGactgaataccttagggggtt	9	11	10	11	0	1	3	0	3	1	0	1	3	1	3	3	3	2	1	3	3	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:159284045G>T	uc010piu.1	-	1	405	c.405C>A	c.(403-405)GTC>GTA	p.V135V		NM_001004467	NP_001004467	Q5JRS4	O10J3_HUMAN	olfactory receptor, family 10, subfamily J,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_hematologic(112;0.0429)					TACCCATGATGACTGAATACC	0.507													8	130					0.000157383	0.000160261	1	1	0		T	159284045	T	T	159284045	2	4	155	1	0	0	0	0	0	0	0	1	10930	1277	45	5		5	OR10J3	1	159284045	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	372073	159284045	89966576	116	83943											
ITLN1	55600	broad.mit.edu	37	chr1	160851038	160851038	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtttctccagtgctgcatgGgggacttattgggcacgtgc	5	13	14	9	1	1	0	0	0	1	0	2	1	1	1	1	3	3	4	1	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:160851038G>T	uc001fxc.2	-	5	586	c.470C>A	c.(469-471)CCC>CAC	p.P157H		NM_017625	NP_060095	Q8WWA0	ITLN1_HUMAN	intelectin precursor	157	Fibrinogen C-terminal.				positive regulation of glucose import|positive regulation of protein phosphorylation|response to nematode|signal transduction	anchored to membrane|brush border membrane|extracellular region|membrane raft	receptor binding|sugar binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)	7	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			GTGCTGCATGGGGGACTTATT	0.572													49	109					1.30916e-28	1.43262e-28	1	1	0		T	160851038	T	T	160851038	3	4	155	1	0	0	0	0	1	0	0	0	7926	1232	43	5	487	5	ITLN1	1	160851038	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1566993	160851038	88399583	117	83944											
ADAMTS4	9507	broad.mit.edu	37	chr1	161166670	161166670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctactcagtgaagcaaagcGctgtagagaaaaagggagag	16	6	13	6	1	2	3	1	1	1	2	2	5	2	3	0	1	3	3	0	1	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:161166670G>A	uc001fyt.3	-	2	1062	c.634C>T	c.(634-636)CGC>TGC	p.R212C	ADAMTS4_uc001fyu.2_Missense_Mutation_p.R212C|NDUFS2_uc001fyv.2_5'Flank	NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	212					proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GAAGCAAAGCGCTGTAGAGAA	0.527													6	224					0	0	1	0	0		A	161166670	A	A	161166670	3	1	155	1	0	0	0	0	1	0	0	0	268	1101	38	1	1911	1	ADAMTS4	1	161166670	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	315632	161166670	88083951	118	83945											
FCRLB	127943	broad.mit.edu	37	chr1	161697204	161697204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcagttcccggcgagcGgcgccccgactgcggggcca	4	4	17	16	6	0	0	0	0	0	0	1	2	1	0	4	5	3	3	4	5	0	1	rs145348831		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:161697204G>A	uc001gbh.2	+	8	1267	c.1033G>A	c.(1033-1035)GGC>AGC	p.G345S	FCRLB_uc009wus.2_Missense_Mutation_p.G345S|FCRLB_uc001gbj.2_Silent_p.A296A|FCRLB_uc001gbk.2_3'UTR|FCRLB_uc001gbl.2_Silent_p.A289A|FCRLB_uc001gbm.2_3'UTR|FCRLB_uc001gbi.2_Missense_Mutation_p.G345S|FCRLB_uc001gbn.3_3'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	345						endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			CCCGGCGAGCGGCGCCCCGAC	0.677													6	31					0	0	1	0	0		A	161697204	A	A	161697204	3	1	155	1	0	0	0	0	1	0	0	0	5815	1116	39	1	1055	1	FCRLB	1	161697204	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	530534	161697204	87553417	119	83946											
TADA1	117143	broad.mit.edu	37	chr1	166827446	166827446	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagcaggagtgcagcctgCtgctcagcatcatcaggggg	8	6	15	12	0	3	0	3	0	0	0	3	1	3	1	2	3	6	5	2	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:166827446C>T	uc001gdw.2	-	7	949	c.765G>A	c.(763-765)CAG>CAA	p.Q255Q	TADA1_uc001gdv.2_Silent_p.Q113Q	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	255					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						GTGCAGCCTGCTGCTCAGCAT	0.502													53	89					0	0	1	0	0		T	166827446	T	T	166827446	2	4	155	1	0	0	0	0	0	0	0	1	15534	796	28	2		2	TADA1	1	166827446	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5130242	166827446	82423175	120	83947											
GPA33	10223	broad.mit.edu	37	chr1	167038309	167038309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcattgttggatatgctgaCgcgattcttataaagctcac	11	13	9	8	2	2	1	1	1	1	0	2	3	2	2	0	1	3	4	0	1	4	6	rs139630164		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:167038309C>T	uc001gea.1	-	3	609	c.265G>A	c.(265-267)GTC>ATC	p.V89I		NM_005814	NP_005805	Q99795	GPA33_HUMAN	transmembrane glycoprotein A33 precursor	89	Ig-like V-type.|Extracellular (Potential).					integral to plasma membrane	receptor activity				0						GATATGCTGACGCGATTCTTA	0.493													41	62					0	0	1	0	0		T	167038309	T	T	167038309	3	4	155	1	0	0	0	0	1	0	0	0	6601	536	19	1	714	1	GPA33	1	167038309	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	210863	167038309	82212312	121	83948											
F5	2153	broad.mit.edu	37	chr1	169498918	169498918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgggacttcttttcatagtAccagctcttcttttcatcaa	8	17	5	11	1	6	0	3	0	3	0	7	1	6	1	1	1	2	2	1	1	3	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:169498918A>G	uc001ggg.1	-	16	5492	c.5347T>C	c.(5347-5349)TAC>CAC	p.Y1783H		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1783	F5/8 type A 3.|Plastocyanin-like 6.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TTTTCATAGTACCAGCTCTTC	0.373													10	224					0	0	1	0	0		G	169498918	G	G	169498918	3	3	155	1	0	0	0	0	1	0	0	0	5356	391	14	3	1367	3	F5	1	169498918	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2460609	169498918	79751703	122	83949											
SERPINC1	462	broad.mit.edu	37	chr1	173881070	173881070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggatttgttggcttttCgatagagtcggcagttcagt	7	15	14	5	2	1	1	1	0	0	1	3	4	1	3	0	4	0	4	0	4	1	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:173881070C>T	uc001gjt.2	-	3	610	c.491G>A	c.(490-492)CGA>CAA	p.R164Q		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	164					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	GTTGGCTTTTCGATAGAGTCG	0.398													96	149					0	0	1	0	0		T	173881070	T	T	173881070	3	4	155	1	0	0	0	0	1	0	0	0	14134	884	31	1	923	1	SERPINC1	1	173881070	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4382152	173881070	75369551	123	83950											
PAPPA2	60676	broad.mit.edu	37	chr1	176668318	176668318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaccacatgaacatgacGgtcccctgccccacagaagg	11	6	9	15	1	0	3	0	2	0	1	1	3	1	3	5	2	3	1	5	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:176668318G>A	uc001gkz.2	+	8	3993	c.2829G>A	c.(2827-2829)ACG>ACA	p.T943T	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	943					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TGAACATGACGGTCCCCTGCC	0.602													6	165					0	0	1	0	0		A	176668318	A	A	176668318	2	1	155	1	0	0	0	0	0	0	0	1	11452	1103	39	1		1	PAPPA2	1	176668318	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2787248	176668318	72582303	124	83951											
FAM5B	57795	broad.mit.edu	37	chr1	177198951	177198951	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccagctccgagccctggaGgagcagcacggagcgggaga	9	4	16	12	3	0	1	0	0	0	1	2	6	2	4	3	4	5	3	3	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:177198951G>T	uc001glf.2	+	2	251	c.-61G>T	c.(-63--59)GAGGA>GATGA			NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B							extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GAGCCCTGGAGGAGCAGCACG	0.567													16	22					1.5739e-10	1.65512e-10	1	1	0		T	177198951	T	T	177198951	1	4	155	1	0	0	0	0	0	0	0	0	5607	1015	35	5		5	FAM5B	1	177198951	Translation_Start_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	530633	177198951	72051670	125	83952											
TOR3A	64222	broad.mit.edu	37	chr1	179063240	179063240	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tctttcagtaatctcaggggCgatataatcaatgaggtggt	11	13	11	6	1	4	1	3	1	2	0	5	2	4	1	0	4	0	1	0	4	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:179063240C>T	uc001gmd.2	+	5	983	c.831C>T	c.(829-831)GGC>GGT	p.G277G	TOR3A_uc010pnd.1_Silent_p.G61G	NM_022371	NP_071766	Q9H497	TOR3A_HUMAN	torsin family 3, member A precursor	277					chaperone mediated protein folding requiring cofactor	endoplasmic reticulum	ATP binding			pancreas(1)	1						ATCTCAGGGGCGATATAATCA	0.458													38	91					0	0	1	0	0		T	179063240	T	T	179063240	2	4	155	1	0	0	0	0	0	0	0	1	16402	755	27	1		1	TOR3A	1	179063240	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1864289	179063240	70187381	126	83953											
TOR1AIP1	26092	broad.mit.edu	37	chr1	179852002	179852002	+	Missense_Mutation	SNP	T	C	C	0	1	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	accccaggaaaccgaggaaaTgaagacgcgaaggactaccc	16	2	11	12	3	0	2	0	1	0	1	0	7	0	5	4	3	2	0	4	3	5	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:179852002T>C	uc001gnq.2	+	1	583	c.365T>C	c.(364-366)ATG>ACG	p.M122T	TOR1AIP1_uc001gnp.1_Missense_Mutation_p.M122T	NM_015602	NP_056417	Q5JTV8	TOIP1_HUMAN	lamina-associated polypeptide 1B	122	Nuclear (Potential).					integral to membrane|nuclear inner membrane				breast(1)|central_nervous_system(1)	2						ACCGAGGAAATGAAGACGCGA	0.597													20	28					0	0	1	0	0		C	179852002	C	C	179852002	3	2	155	1	0	0	0	0	1	0	0	0	16398	1464	51	3	367	3	TOR1AIP1	1	179852002	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	788762	179852002	69398619	127	83954											
CACNA1E	777	broad.mit.edu	37	chr1	181702035	181702035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcctcttcagcctcccGgagcaggtctgccagccagg	6	7	13	15	1	3	0	1	0	2	0	5	2	5	2	5	4	4	1	5	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:181702035G>A	uc001gow.2	+	20	2978	c.2813G>A	c.(2812-2814)CGG>CAG	p.R938Q	CACNA1E_uc009wxs.2_Missense_Mutation_p.R826Q|CACNA1E_uc001gox.1_Missense_Mutation_p.R164Q|CACNA1E_uc009wxt.2_Missense_Mutation_p.R164Q	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	938	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TCAGCCTCCCGGAGCAGGTCT	0.642													10	79					0	0	1	0	0		A	181702035	A	A	181702035	3	1	155	1	0	0	0	0	1	0	0	0	2545	1116	39	1	2891	1	CACNA1E	1	181702035	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1850033	181702035	67548586	128	83955											
ZNF648	127665	broad.mit.edu	37	chr1	182026619	182026619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtgtctacacttttgtgcGcacagagatactttccattg	9	14	8	10	2	1	1	0	0	1	1	2	2	2	1	1	0	3	1	1	0	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:182026619G>A	uc001goz.2	-	2	735	c.527C>T	c.(526-528)GCG>GTG	p.A176V		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	176					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACTTTTGTGCGCACAGAGATA	0.567													4	65					0	0	1	0	0		A	182026619	A	A	182026619	3	1	155	1	0	0	0	0	1	0	0	0	18088	1087	38	1	1183	1	ZNF648	1	182026619	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	324584	182026619	67224002	129	83956											
RGS8	85397	broad.mit.edu	37	chr1	182638780	182638780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtggcatcagtaaggccGccatacaggcatcagcttac	10	8	11	12	2	2	0	2	0	0	0	2	0	2	0	2	3	4	4	2	3	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:182638780G>A	uc010pnw.1	-	3	263	c.5C>T	c.(4-6)GCG>GTG	p.A2V	RGS8_uc001gpn.1_Missense_Mutation_p.A2V|RGS8_uc001gpm.1_Intron	NM_001102450	NP_001095920	P57771	RGS8_HUMAN	regulator of G-protein signalling 8 isoform 2	2					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)	1						CAGTAAGGCCGCCATACAGGC	0.522													72	54					0	0	1	0	0		A	182638780	A	A	182638780	3	1	155	1	0	0	0	0	1	0	0	0	13337	1087	38	1	557	1	RGS8	1	182638780	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	612161	182638780	66611841	130	83957											
HMCN1	83872	broad.mit.edu	37	chr1	185986140	185986140	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaaacatcttacttcattgTgatggttaataacttactgg	12	16	7	6	0	2	2	1	2	1	0	2	2	2	2	0	2	4	1	0	2	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:185986140T>C	uc001grq.1	+	33	5466	c.5237T>C	c.(5236-5238)GTG>GCG	p.V1746A		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1746	Ig-like C2-type 15.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TACTTCATTGTGATGGTTAAT	0.393													32	204					0	0	1	0	0		C	185986140	C	C	185986140	3	2	155	1	0	0	0	0	1	0	0	0	7236	1696	59	3	5367	3	HMCN1	1	185986140	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3347360	185986140	63264481	131	83958											
HMCN1	83872	broad.mit.edu	37	chr1	186083133	186083133	+	Frame_Shift_Del	DEL	C	-	-																															cctccaaacataaaggggggCccccagagccttgtaattct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:186083133delC	uc001grq.1	+	73	11383	c.11154delC	c.(11152-11154)GGCfs	p.G3718fs		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3718	Ig-like C2-type 36.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TAAAGGGGGGCCCCCAGAGCC	0.413													174	342	---	---	---	---						.	-	186083133	-	-	186083133	7	5	155	1	0	1	0	1	0	0	0	0	7236	726	26	0	11444	0	HMCN1	1	186083133	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	96993	186083133	63167488	132	83959											
HMCN1	83872	broad.mit.edu	37	chr1	186114659	186114659	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgggggaagagcttgtggGggaccagactcccagatcca	11	6	15	9	0	0	3	0	0	0	3	2	5	2	5	3	4	1	1	3	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:186114659G>T	uc001grq.1	+	92	14620	c.14391G>T	c.(14389-14391)GGG>GGT	p.G4797G	HMCN1_uc001grs.1_Silent_p.G366G	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4797	TSP type-1 5.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GAGCTTGTGGGGGACCAGACT	0.547													26	43					1.77063e-15	1.89056e-15	1	1	0		T	186114659	T	T	186114659	2	4	155	1	0	0	0	0	0	0	0	1	7236	1219	43	5		5	HMCN1	1	186114659	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	31526	186114659	63135962	133	83960											
TPR	7175	broad.mit.edu	37	chr1	186325512	186325512	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaacaagctgcatttgatgCtgtcgtgatttgcggagttg	8	14	12	7	2	1	2	1	2	0	0	2	3	1	3	0	1	5	4	0	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:186325512C>T	uc001grv.2	-	15	2091	c.1794G>A	c.(1792-1794)CAG>CAA	p.Q598Q		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	598	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		GCATTTGATGCTGTCGTGATT	0.428			T	NTRK1	papillary thyroid								23	27					0	0	1	0	0		T	186325512	T	T	186325512	2	4	155	1	0	0	0	0	0	0	0	1	16442	796	28	2		2	TPR	1	186325512	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	210853	186325512	62925109	134	83961											
PLA2G4A	5321	broad.mit.edu	37	chr1	186862228	186862228	+	Frame_Shift_Del	DEL	A	-	-																															agacatttcaataatgacatAaaccctgtgtggaatgagac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:186862228delA	uc001gsc.2	+	4	406	c.201delA	c.(199-201)ATAfs	p.I67fs	PLA2G4A_uc010pos.1_Frame_Shift_Del_p.I67fs	NM_024420	NP_077734	P47712	PA24A_HUMAN	cytosolic phospholipase A2, group IVA	67	C2.|Phospholipid binding (Probable).				phospholipid catabolic process|platelet activating factor biosynthetic process|platelet activation	cytosol|endoplasmic reticulum membrane	calcium ion binding|calcium-dependent phospholipid binding|lysophospholipase activity			lung(2)|breast(1)	3					Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Medrysone(DB00253)|Quinacrine(DB01103)	ATAATGACATAAACCCTGTGT	0.378													199	274	---	---	---	---						.	-	186862228	-	-	186862228	7	5	155	1	0	1	0	1	0	0	0	0	12020	352	13	0	211	0	PLA2G4A	1	186862228	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	536716	186862228	62388393	135	83962											
LHX9	56956	broad.mit.edu	37	chr1	197889132	197889132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcagcccggagaagcccGccctgtgcgccggctgcggg	4	4	16	17	6	1	1	1	0	0	1	1	2	1	1	4	3	4	2	4	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:197889132G>A	uc001guk.1	+	2	642	c.205G>A	c.(205-207)GCC>ACC	p.A69T	LHX9_uc001gui.1_Missense_Mutation_p.A60T|LHX9_uc001guj.1_Missense_Mutation_p.A75T	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	69	LIM zinc-binding 1.				motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						GGAGAAGCCCGCCCTGTGCGC	0.642													5	161					0	0	1	0	0		A	197889132	A	A	197889132	3	1	155	1	0	0	0	0	1	0	0	0	8793	1087	38	1	243	1	LHX9	1	197889132	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	11026904	197889132	51361489	136	83963											
ZNF281	23528	broad.mit.edu	37	chr1	200377574	200377574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgattcatttgttttaccGgtcttctgttccttattttc	4	22	6	9	2	3	0	1	0	2	0	5	1	4	0	2	1	2	2	2	1	2	9	rs149361792		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:200377574G>A	uc001gve.2	-	2	1367	c.1260C>T	c.(1258-1260)ACC>ACT	p.T420T	ZNF281_uc001gvf.1_Silent_p.T420T|ZNF281_uc001gvg.1_Silent_p.T384T	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	420					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TTGTTTTACCGGTCTTCTGTT	0.373													116	164					0	0	1	0	0		A	200377574	A	A	200377574	2	1	155	1	0	0	0	0	0	0	0	1	17843	1103	39	1		1	ZNF281	1	200377574	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2488442	200377574	48873047	137	83964											
NAV1	89796	broad.mit.edu	37	chr1	201750154	201750154	+	Silent	SNP	A	C	C	1	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	ctttagctacgcacagactcAgagaagcgctcactggcaga	12	7	10	12	2	2	3	2	0	0	3	2	4	2	3	0	1	3	4	0	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:201750154A>C	uc001gwu.2	+	5	1727	c.1380A>C	c.(1378-1380)TCA>TCC	p.S460S	NAV1_uc001gwv.1_5'UTR|NAV1_uc001gww.1_Silent_p.S69S|NAV1_uc001gwx.2_Silent_p.S69S|NAV1_uc001gwy.1_5'Flank	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	460					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GCACAGACTCAGAGAAGCGCT	0.463													6	72					0	0	1	0	0		C	201750154	C	C	201750154	2	2	155	1	0	0	0	0	0	0	0	1	10201	175	7	5		5	NAV1	1	201750154	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1372580	201750154	47500467	138	83965											
GPR37L1	9283	broad.mit.edu	37	chr1	202092489	202092489	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcctacagtgcctatgccaTcatgcttctggcgctggtgg	5	12	11	13	1	2	0	1	0	1	0	3	0	3	0	3	3	4	2	3	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:202092489T>C	uc001gxj.2	+	1	461	c.398T>C	c.(397-399)ATC>ACC	p.I133T		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	133	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						GCCTATGCCATCATGCTTCTG	0.582													43	63					0	0	1	0	0		C	202092489	C	C	202092489	3	2	155	1	0	0	0	0	1	0	0	0	6707	1435	50	3	400	3	GPR37L1	1	202092489	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	342335	202092489	47158132	139	83966											
PPFIA4	8497	broad.mit.edu	37	chr1	203044731	203044731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaggtgtttcgccgcgcGccctcctggaggaagcgctt	6	8	14	13	5	0	0	0	0	0	0	2	3	1	2	3	3	1	2	3	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:203044731G>A	uc001gyz.2	+	16	2495	c.1902G>A	c.(1900-1902)GCG>GCA	p.A634A	PPFIA4_uc009xaj.2_Silent_p.A1265A|PPFIA4_uc010pqf.1_Silent_p.A847A|PPFIA4_uc001gza.2_Silent_p.A625A|PPFIA4_uc001gzb.1_Silent_p.A320A|PPFIA4_uc001gzc.1_Silent_p.A176A	NM_015053	NP_055868	O75335	LIPA4_HUMAN	protein tyrosine phosphatase, receptor type, f	634					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						TTCGCCGCGCGCCCTCCTGGA	0.711													10	9					0	0	1	0	0		A	203044731	A	A	203044731	2	1	155	1	0	0	0	0	0	0	0	1	12331	1074	38	1		1	PPFIA4	1	203044731	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	952242	203044731	46205890	140	83967											
CNTN2	6900	broad.mit.edu	37	chr1	205039153	205039153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgccgcggggatgggcccGagagcctcactgcactcgtg	6	5	15	15	5	1	1	1	0	0	1	2	3	1	2	4	3	2	1	4	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:205039153G>A	uc001hbr.2	+	18	2664	c.2395G>A	c.(2395-2397)GAG>AAG	p.E799K	CNTN2_uc001hbq.1_Missense_Mutation_p.E690K|CNTN2_uc001hbs.2_Missense_Mutation_p.E587K	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	799	Fibronectin type-III 2.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	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)			GGATGGGCCCGAGAGCCTCAC	0.647													8	15					0	0	1	0	0		A	205039153	A	A	205039153	3	1	155	1	0	0	0	0	1	0	0	0	3644	1059	37	1	2461	1	CNTN2	1	205039153	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1994422	205039153	44211468	141	83968											
RCOR3	55758	broad.mit.edu	37	chr1	211469082	211469082	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggaaggtggaattgaagaatTcaaacctcctgaggtatgtt	13	11	12	5	0	1	3	1	2	0	1	2	5	2	5	2	4	1	2	2	4	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:211469082T>A	uc001hig.2	+	8	999	c.830T>A	c.(829-831)TTC>TAC	p.F277Y	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.F335Y|RCOR3_uc010psw.1_Missense_Mutation_p.F335Y|RCOR3_uc001hif.2_Missense_Mutation_p.F335Y	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		ATTGAAGAATTCAAACCTCCT	0.353													41	75					0	0	1	0	0		A	211469082	A	A	211469082	3	1	155	1	0	0	0	0	1	0	0	0	13209	1783	62	5	1038	5	RCOR3	1	211469082	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	6429929	211469082	37781539	142	83969											
NEK2	4751	broad.mit.edu	37	chr1	211842578	211842578	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggctctcctaattgtcGccctcttctctcaagatttc	5	17	5	14	1	5	1	1	0	4	1	9	1	5	1	2	1	0	1	2	1	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:211842578G>T	uc001hir.1	-	6	1008	c.862C>A	c.(862-864)CGA>AGA	p.R288R	NEK2_uc001hiq.1_Silent_p.R288R|NEK2_uc001his.3_Silent_p.R288R|NEK2_uc001hit.1_RNA	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2	288	Interaction with PCNT.				cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		CCTAATTGTCGCCCTCTTCTC	0.448													12	315					3.07112e-06	3.16389e-06	1	1	0		T	211842578	T	T	211842578	2	4	155	1	0	0	0	0	0	0	0	1	10343	1095	38	5		5	NEK2	1	211842578	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	373496	211842578	37408043	143	83970											
INTS7	25896	broad.mit.edu	37	chr1	212180670	212180670	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acaatcaccattttggtggaCggataggatgtgaccagctg	11	10	12	8	1	1	1	1	1	0	0	1	4	1	4	2	4	1	1	2	4	2	3	rs150638626	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:212180670C>T	uc001hiw.1	-	6	783	c.678G>A	c.(676-678)CCG>CCA	p.P226P	INTS7_uc009xdb.1_Silent_p.P226P|INTS7_uc001hix.1_Silent_p.P102P|INTS7_uc001hiy.1_Silent_p.P226P|INTS7_uc010pta.1_Silent_p.P177P	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	226					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		TTTTGGTGGACGGATAGGATG	0.423													36	55					0	0	1	0	0		T	212180670	T	T	212180670	2	4	155	1	0	0	0	0	0	0	0	1	7799	523	19	1		1	INTS7	1	212180670	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	338092	212180670	37069951	144	83971											
PROX1	5629	broad.mit.edu	37	chr1	214170355	214170355	+	Missense_Mutation	SNP	T	A	A	0	1	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	gatatggatcgcttatgtgaTgagcacctgagagcaaagcg	12	9	13	7	2	0	3	0	3	0	1	1	6	0	4	1	1	3	3	1	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:214170355T>A	uc001hkh.2	+	2	749	c.477T>A	c.(475-477)GAT>GAA	p.D159E	PROX1_uc001hkg.1_Missense_Mutation_p.D159E	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	159					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		GCTTATGTGATGAGCACCTGA	0.493													62	81					0	0	1	0	0		A	214170355	A	A	214170355	3	1	155	1	0	0	0	0	1	0	0	0	12582	1461	51	5	479	5	PROX1	1	214170355	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1989685	214170355	35080266	145	83972											
DISP1	84976	broad.mit.edu	37	chr1	223177115	223177115	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccatcacagtaatctggggCgtgtccccagaagacaatgg	11	7	11	12	1	2	2	1	0	1	2	3	2	3	2	3	3	0	1	3	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:223177115C>T	uc001hnu.1	+	8	2523	c.2376C>T	c.(2374-2376)GGC>GGT	p.G792G		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	792					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TAATCTGGGGCGTGTCCCCAG	0.473													26	34					0	0	1	0	0		T	223177115	T	T	223177115	2	4	155	1	0	0	0	0	0	0	0	1	4545	755	27	1		1	DISP1	1	223177115	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	9006760	223177115	26073506	146	83973											
TMEM63A	9725	broad.mit.edu	37	chr1	226054855	226054855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcctcccaaaactatacgGgtctttgtctgcagagaagc	10	11	9	11	1	2	1	0	0	2	1	4	2	4	1	2	1	4	1	2	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:226054855G>A	uc001hpm.1	-	8	773	c.523C>T	c.(523-525)CCG>TCG	p.P175S	TMEM63A_uc010pvi.1_Missense_Mutation_p.P175S	NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	175						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					AAACTATACGGGTCTTTGTCT	0.527													10	358					0	0	1	0	0		A	226054855	A	A	226054855	3	1	155	1	0	0	0	0	1	0	0	0	16215	1232	43	4	1968	4	TMEM63A	1	226054855	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2877740	226054855	23195766	147	83974											
LEFTY2	7044	broad.mit.edu	37	chr1	226127115	226127115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctggggctccccaagcccgGctggcgccccctgcgaggca	4	4	15	18	3	0	0	0	0	0	0	1	1	1	0	5	5	2	4	5	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:226127115G>A	uc001hpt.1	-	3	763	c.683C>T	c.(682-684)GCC>GTC	p.A228V	LEFTY2_uc010pvk.1_Missense_Mutation_p.A194V|LEFTY2_uc009xek.1_Intron	NM_003240	NP_003231	O00292	LFTY2_HUMAN	endometrial bleeding associated factor	228					cell growth|multicellular organismal development|platelet activation|platelet degranulation|transforming growth factor beta receptor signaling pathway	extracellular space|platelet alpha granule lumen	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					CCCAAGCCCGGCTGGCGCCCC	0.692													5	8					0	0	1	0	0		A	226127115	A	A	226127115	3	1	155	1	0	0	0	0	1	0	0	0	8732	1203	42	2	425	2	LEFTY2	1	226127115	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	72260	226127115	23123506	148	83975											
CABC1	56997	broad.mit.edu	37	chr1	227152949	227152949	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccctctgggcagggccaaCgggaggctctttgcaaaccc	7	7	12	15	1	2	0	0	0	2	0	3	1	3	1	4	4	3	3	4	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:227152949C>T	uc001hqm.1	+	8	3845	c.426C>T	c.(424-426)AAC>AAT	p.N142N	CABC1_uc010pvp.1_Silent_p.N105N|CABC1_uc001hqn.1_Silent_p.N142N|CABC1_uc009xeq.1_Silent_p.N90N|CABC1_uc010pvq.1_Intron|CABC1_uc010pvr.1_5'Flank	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	142					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				GCAGGGCCAACGGGAGGCTCT	0.642													19	22					0	0	1	0	0		T	227152949	T	T	227152949	2	4	155	1	0	0	0	0	0	0	0	1	2530	535	19	1		1	CABC1	1	227152949	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1025834	227152949	22097672	149	83976											
PRSS38	339501	broad.mit.edu	37	chr1	228003897	228003897	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacgcaggcctccacgtctgCggcggctccatcctcaatga	7	8	10	16	4	2	1	1	1	1	0	5	1	5	1	4	3	2	2	4	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:228003897C>T	uc001hrh.2	+	2	255	c.255C>T	c.(253-255)TGC>TGT	p.C85C		NM_183062	NP_898885	A1L453	PRS38_HUMAN	marapsin 2 precursor	85	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)|pancreas(1)	2						TCCACGTCTGCGGCGGCTCCA	0.672													3	57					0	0	1	0	0		T	228003897	T	T	228003897	2	4	155	1	0	0	0	0	0	0	0	1	12649	776	27	1		1	PRSS38	1	228003897	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	850948	228003897	21246724	150	83977											
PRSS38	339501	broad.mit.edu	37	chr1	228033279	228033279	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgcccgacatgctgtgtgCtggggacatcctgaatgcta	8	10	12	11	1	0	1	0	1	0	0	1	3	1	2	2	2	4	3	2	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:228033279C>A	uc001hrh.2	+	4	692	c.692C>A	c.(691-693)GCT>GAT	p.A231D		NM_183062	NP_898885	A1L453	PRS38_HUMAN	marapsin 2 precursor	231	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)|pancreas(1)	2						ATGCTGTGTGCTGGGGACATC	0.607													4	70					0.014758	0.0149097	1	1	0		A	228033279	A	A	228033279	3	1	155	1	0	0	0	0	1	0	0	0	12649	797	28	5	706	5	PRSS38	1	228033279	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	29382	228033279	21217342	151	83978											
WNT9A	7483	broad.mit.edu	37	chr1	228109597	228109597	+	Silent	SNP	G	A	A	0	0	1	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	tacttgtgcttcagatgcttGcccacctcatggaaaggcgc	8	11	10	12	1	2	1	2	0	0	1	2	2	2	2	2	2	4	2	2	2	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:228109597G>A	uc001hri.2	-	4	808	c.720C>T	c.(718-720)GGC>GGT	p.G240G		NM_003395	NP_003386	O14904	WNT9A_HUMAN	wingless-type MMTV integration site family,	240					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|cornea development in camera-type eye|embryonic arm morphogenesis|embryonic skeletal joint morphogenesis|endoderm development|iris morphogenesis|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|neuron differentiation|positive regulation of smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding|signal transducer activity			central_nervous_system(1)|pancreas(1)	2		Prostate(94;0.0405)				TCAGATGCTTGCCCACCTCAT	0.642													20	96					0	0	1	0	0		A	228109597	A	A	228109597	2	1	155	1	0	0	0	0	0	0	0	1	17424	1306	46	2		2	WNT9A	1	228109597	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	76318	228109597	21141024	152	83979											
OBSCN	84033	broad.mit.edu	37	chr1	228466970	228466970	+	Silent	SNP	G	A	A	0	0	1	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	gagacctccatcccctcagtGcggccacctaagtggctcct	7	8	9	17	1	1	1	1	0	0	1	4	2	4	1	7	2	1	1	7	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:228466970G>A	uc009xez.1	+	27	7265	c.7221G>A	c.(7219-7221)GTG>GTA	p.V2407V	OBSCN_uc001hsn.2_Silent_p.V2407V|OBSCN_uc001hsp.1_Silent_p.V106V|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2407					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCCCCTCAGTGCGGCCACCTA	0.642													10	70					0	0	1	0	0		A	228466970	A	A	228466970	2	1	155	1	0	0	0	0	0	0	0	1	10831	1306	46	2		2	OBSCN	1	228466970	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	357373	228466970	20783651	153	83980											
OBSCN	84033	broad.mit.edu	37	chr1	228504492	228504492	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttcacctgcacgctcagCgaggcggtgcccgtgggaga	6	7	15	13	4	2	1	2	0	0	1	2	3	2	1	2	3	4	3	2	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:228504492C>T	uc009xez.1	+	51	13412	c.13368C>T	c.(13366-13368)AGC>AGT	p.S4456S	OBSCN_uc001hsn.2_Silent_p.S4456S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4456	Ig-like 46.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCACGCTCAGCGAGGCGGTGC	0.677													9	11					0	0	1	0	0		T	228504492	T	T	228504492	2	4	155	1	0	0	0	0	0	0	0	1	10831	767	27	1		1	OBSCN	1	228504492	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	37522	228504492	20746129	154	83981											
OBSCN	84033	broad.mit.edu	37	chr1	228528927	228528927	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcccgcaccgataccgtCagctacgtgttccggaacat	9	8	9	15	5	1	0	1	0	0	0	3	3	3	1	4	1	4	3	4	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:228528927C>A	uc009xez.1	+	73	17873	c.17829C>A	c.(17827-17829)GTC>GTA	p.V5943V	OBSCN_uc001hsn.2_Silent_p.V5943V|OBSCN_uc001hsr.1_Silent_p.V572V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5943	PH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCGATACCGTCAGCTACGTGT	0.657													7	28					0.0381472	0.0384463	1	1	0		A	228528927	A	A	228528927	2	1	155	1	0	0	0	0	0	0	0	1	10831	813	29	5		5	OBSCN	1	228528927	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	24435	228528927	20721694	155	83982											
OBSCN	84033	broad.mit.edu	37	chr1	228550350	228550350	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggccccaaggcgccaggCccctccacaggggacctcac	7	3	12	19	1	1	0	1	0	0	0	2	1	2	1	7	5	0	0	7	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:228550350C>T	uc009xez.1	+	80	18779	c.18735C>T	c.(18733-18735)GGC>GGT	p.G6245G	OBSCN_uc001hsr.1_Silent_p.G874G	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6245					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGCGCCAGGCCCCTCCACAG	0.677													4	18					0	0	1	0	0		T	228550350	T	T	228550350	2	4	155	1	0	0	0	0	0	0	0	1	10831	726	26	2		2	OBSCN	1	228550350	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	21423	228550350	20700271	156	83983											
NUP133	55746	broad.mit.edu	37	chr1	229635518	229635518	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttcaccagcaaggcttggCcaatagcggatagatccttc	10	10	9	12	1	2	1	1	0	1	1	4	2	3	2	3	3	2	2	3	3	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:229635518C>T	uc001htn.2	-	5	653	c.561G>A	c.(559-561)TGG>TGA	p.W187*		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	187					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				CAAGGCTTGGCCAATAGCGGA	0.448													5	95					0	0	1	0	0		T	229635518	T	T	229635518	4	4	155	1	0	0	0	0	0	1	0	0	10773	740	26	2	2997	2	NUP133	1	229635518	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1085168	229635518	19615103	157	83984											
ABCB10	23456	broad.mit.edu	37	chr1	229683388	229683388	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtcttgtcaaagaaagcaAcctcctgcctcagaatggag	13	8	10	10	0	3	2	2	0	1	2	4	4	4	3	3	1	3	1	3	1	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:229683388A>G	uc001htp.3	-	3	822	c.779T>C	c.(778-780)GTT>GCT	p.V260A		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	260	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				AAAGAAAGCAACCTCCTGCCT	0.493													27	39					0	0	1	0	0		G	229683388	G	G	229683388	3	3	155	1	0	0	0	0	1	0	0	0	41	43	2	3	1481	3	ABCB10	1	229683388	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	47870	229683388	19567233	158	83985											
C1orf131	128061	broad.mit.edu	37	chr1	231374652	231374652	+	Missense_Mutation	SNP	T	C	C	0	1	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	attttctttttttattgctgTgaaattctaccacttctact	8	22	3	8	0	3	1	0	1	3	0	3	1	3	1	1	0	3	1	1	0	4	11			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:231374652T>C	uc001hun.1	-	2	438	c.401A>G	c.(400-402)CAC>CGC	p.H134R	C1orf131_uc001hul.2_Missense_Mutation_p.H134R|C1orf131_uc001hum.2_Missense_Mutation_p.H134R|C1orf131_uc010pwd.1_Missense_Mutation_p.H134R|C1orf131_uc001huo.1_Missense_Mutation_p.H134R|GNPAT_uc009xfo.1_5'Flank|GNPAT_uc001hup.3_5'Flank|GNPAT_uc009xfp.2_5'Flank	NM_152379	NP_689592	Q8NDD1	CA131_HUMAN	hypothetical protein LOC128061	134										central_nervous_system(1)|skin(1)	2	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				TTTATTGCTGTGAAATTCTAC	0.438													7	156					0	0	1	0	0		C	231374652	C	C	231374652	3	2	155	1	0	0	0	0	1	0	0	0	2001	1696	59	3	504	3	C1orf131	1	231374652	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1691264	231374652	17875969	159	83986											
SIPA1L2	57568	broad.mit.edu	37	chr1	232626679	232626679	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgagttggaagcctgtcGcaaacactgaatgctcagct	10	9	13	9	1	1	2	1	2	0	0	2	3	1	3	1	2	4	4	1	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:232626679G>A	uc001hvg.2	-	3	1905	c.1747C>T	c.(1747-1749)CGA>TGA	p.R583*		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	583					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GAAGCCTGTCGCAAACACTGA	0.463													6	150					0	0	1	0	0		A	232626679	A	A	232626679	4	1	155	1	0	0	0	0	0	1	0	0	14355	1095	38	1	3497	1	SIPA1L2	1	232626679	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1252027	232626679	16623942	160	83987											
LYST	1130	broad.mit.edu	37	chr1	235887386	235887386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttagaaagatttctacaGcattatctctcaattgccac	12	15	5	9	0	3	2	1	0	2	2	4	2	3	2	1	0	3	2	1	0	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:235887386G>T	uc001hxj.2	-	39	9432	c.9257C>A	c.(9256-9258)GCT>GAT	p.A3086D	LYST_uc001hxi.2_Missense_Mutation_p.A310D	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3086					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GATTTCTACAGCATTATCTCT	0.368									Chediak-Higashi_syndrome				29	173					2.70662e-09	2.83026e-09	1	1	0		T	235887386	T	T	235887386	3	4	155	1	0	0	0	0	1	0	0	0	9146	971	34	5	2208	5	LYST	1	235887386	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3260707	235887386	13363235	161	83988											
NID1	4811	broad.mit.edu	37	chr1	236144978	236144978	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	ctcaaagagcacccggcgctGcgtgccgtccagcttcgcca	7	6	11	17	5	1	1	1	0	0	1	3	1	2	1	4	1	4	3	4	1	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:236144978G>A	uc001hxo.2	-	16	3262	c.3160C>T	c.(3160-3162)CAG>TAG	p.Q1054*	NID1_uc009xgd.2_Nonsense_Mutation_p.Q921*|NID1_uc009xgc.2_Nonsense_Mutation_p.Q135*	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	1054	LDL-receptor class B 2.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	ACCCGGCGCTGCGTGCCGTCC	0.507													67	75					0	0	1	0	0		A	236144978	A	A	236144978	4	1	155	1	0	0	0	0	0	1	0	0	10433	1328	46	2	603	2	NID1	1	236144978	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	257592	236144978	13105643	162	83989											
CEP170	9859	broad.mit.edu	37	chr1	243349251	243349251	+	Missense_Mutation	SNP	T	G	G	0	1	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	gcttggtctgtgcccaagacTccctgaacttcttaataatg	9	13	8	11	0	2	2	0	1	2	1	3	2	3	2	2	1	2	1	2	1	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:243349251T>G	uc001hzs.2	-	10	1804	c.1396A>C	c.(1396-1398)AGT>CGT	p.S466R	CEP170_uc001hzt.2_Intron|CEP170_uc001hzu.2_Intron	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	466						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			TGCCCAAGACTCCCTGAACTT	0.413													70	111					0	0	1	0	0		G	243349251	G	G	243349251	3	3	155	1	0	0	0	0	1	0	0	0	3253	1551	54	5	3432	5	CEP170	1	243349251	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	7204273	243349251	5901370	163	83990											
NLRP3	114548	broad.mit.edu	37	chr1	247588075	247588075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccaccaccgcggtgtacGtcttcttcctttccagtttg	6	13	8	14	3	2	1	0	0	2	1	4	1	4	1	5	1	1	2	5	1	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:247588075G>A	uc001icr.2	+	5	1468	c.1330G>A	c.(1330-1332)GTC>ATC	p.V444I	NLRP3_uc001ics.2_Missense_Mutation_p.V444I|NLRP3_uc001icu.2_Missense_Mutation_p.V444I|NLRP3_uc001icw.2_Missense_Mutation_p.V444I|NLRP3_uc001icv.2_Missense_Mutation_p.V444I|NLRP3_uc010pyw.1_Missense_Mutation_p.V442I|NLRP3_uc001ict.1_Missense_Mutation_p.V442I	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	444	NACHT.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CGCGGTGTACGTCTTCTTCCT	0.612													36	58					0	0	1	0	0		A	247588075	A	A	247588075	3	1	155	1	0	0	0	0	1	0	0	0	10497	1145	40	1	1340	1	NLRP3	1	247588075	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4238824	247588075	1662546	164	83991											
TRIM58	25893	broad.mit.edu	37	chr1	248039478	248039478	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgagaatggggtctgggCcctgtggctgctgaaaggga	7	9	17	8	0	1	2	0	2	1	1	2	4	2	3	2	5	1	2	2	5	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:248039478C>A	uc001ido.2	+	6	1196	c.1148C>A	c.(1147-1149)GCC>GAC	p.A383D	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	383	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGGGTCTGGGCCCTGTGGCTG	0.552													53	99					1.02487e-32	1.1252e-32	1	1	0		A	248039478	A	A	248039478	3	1	155	1	0	0	0	0	1	0	0	0	16557	739	26	5	1170	5	TRIM58	1	248039478	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	451403	248039478	1211143	165	83992											
TRIM58	25893	broad.mit.edu	37	chr1	248039617	248039617	+	Silent	SNP	T	C	C	0	1	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	tcattctacaatgtcacagaTggatcttatatctacacatt	13	15	4	9	0	5	1	2	0	3	1	5	2	5	2	0	1	2	0	0	1	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:248039617T>C	uc001ido.2	+	6	1335	c.1287T>C	c.(1285-1287)GAT>GAC	p.D429D	OR2W3_uc001idp.1_Intron	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	429	B30.2/SPRY.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ATGTCACAGATGGATCTTATA	0.443													173	311					0	0	1	0	0		C	248039617	C	C	248039617	2	2	155	1	0	0	0	0	0	0	0	1	16557	1461	51	3		3	TRIM58	1	248039617	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	139	248039617	1211004	166	83993											
OR2L8	391190	broad.mit.edu	37	chr1	248112583	248112583	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcaaaagagtgtgtgtgCtgatgataacagggtcttgg	11	11	15	4	0	1	4	0	3	1	1	1	4	1	4	0	2	3	2	0	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:248112583C>T	uc001idt.1	+	1	424	c.424C>T	c.(424-426)CTG>TTG	p.L142L	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			AGTGTGTGTGCTGATGATAAC	0.443													54	320					0	0	1	0	0		T	248112583	T	T	248112583	2	4	155	1	0	0	0	0	0	0	0	1	11028	796	28	2		2	OR2L8	1	248112583	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	72966	248112583	1138038	167	83994											
OR2T3	343173	broad.mit.edu	37	chr1	248637306	248637306	+	Missense_Mutation	SNP	A	G	G	1	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	ttctcgcccccatcatggtcAtctccagctcatacaccctc	7	11	4	19	1	5	0	3	0	2	0	8	0	5	0	4	1	2	1	4	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr1:248637306A>G	uc001iel.1	+	1	655	c.655A>G	c.(655-657)ATC>GTC	p.I219V		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CATCATGGTCATCTCCAGCTC	0.567													132	32					0	0	1	0	0		G	248637306	G	G	248637306	3	3	155	1	0	0	0	0	1	0	0	0	11042	217	8	3	657	3	OR2T3	1	248637306	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	524723	248637306	613315	168	83995											
SNTG2	54221	broad.mit.edu	37	chr2	1161257	1161257	+	Silent	SNP	C	T	T	0	0	0	1	1	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	catctgctgagaaatgctggCgatgaagttaccatcaccgt	11	10	10	10	2	2	2	1	2	1	1	2	4	2	2	2	1	3	3	2	1	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:1161257C>T	uc002qwq.2	+	7	563	c.435C>T	c.(433-435)GGC>GGT	p.G145G	SNTG2_uc010ewi.2_Intron	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	145	PDZ.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		GAAATGCTGGCGATGAAGTTA	0.443													10	70					0	0	1	0	0		T	1161257	T	T	1161257	2	4	155	1	0	0	0	0	0	0	0	1	14900	755	27	1		1	SNTG2	2	1161257	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08		1161257	242038116	169	83996											
PXDN	7837	broad.mit.edu	37	chr2	1658274	1658274	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatctccatttcgactgacgTcaggaactaggaaaatacaa	15	9	8	9	2	2	1	1	1	1	0	4	5	2	3	1	2	2	0	1	2	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:1658274T>C	uc002qxa.2	-	15	1908	c.1844A>G	c.(1843-1845)GAC>GGC	p.D615G	PXDN_uc002qxb.1_Missense_Mutation_p.D615G	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	615					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TCGACTGACGTCAGGAACTAG	0.418													5	73					0	0	1	0	0		C	1658274	C	C	1658274	3	2	155	1	0	0	0	0	1	0	0	0	12872	1667	58	3	2631	3	PXDN	2	1658274	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	497017	1658274	241541099	170	83997											
SOX11	6664	broad.mit.edu	37	chr2	5833158	5833158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatcccgttcatccgggaggCggagcggctgcggctcaagc	6	6	16	13	5	2	0	2	0	0	0	4	3	4	2	2	5	3	3	2	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:5833158C>T	uc002qyj.2	+	1	360	c.305C>T	c.(304-306)GCG>GTG	p.A102V		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	102	HMG box.				cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		ATCCGGGAGGCGGAGCGGCTG	0.627													7	20					0	0	1	0	0		T	5833158	T	T	5833158	3	4	155	1	0	0	0	0	1	0	0	0	14967	768	27	1	307	1	SOX11	2	5833158	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4174884	5833158	237366215	171	83998											
GRHL1	29841	broad.mit.edu	37	chr2	10130834	10130834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taacctacagggagctgagcGgaaaatcagggatgaagaac	16	5	13	7	1	1	3	1	2	0	1	1	6	1	6	1	3	5	1	1	3	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:10130834G>A	uc002raa.2	+	10	1451	c.1280G>A	c.(1279-1281)CGG>CAG	p.R427Q	GRHL1_uc002rab.2_RNA|GRHL1_uc002rad.2_Missense_Mutation_p.R238Q|GRHL1_uc010yjb.1_Missense_Mutation_p.R276Q	NM_198182	NP_937825	Q9NZI5	GRHL1_HUMAN	grainyhead-like 1	427					cellular lipid metabolic process|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding			pancreas(1)|skin(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.172)|OV - Ovarian serous cystadenocarcinoma(76;0.246)		GGAGCTGAGCGGAAAATCAGG	0.423													5	32					0	0	1	0	0		A	10130834	A	A	10130834	3	1	155	1	0	0	0	0	1	0	0	0	6779	1116	39	1	1318	1	GRHL1	2	10130834	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4297676	10130834	233068539	172	83999											
C2orf50	130813	broad.mit.edu	37	chr2	11273484	11273484	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggagccaccccacccctggGctccagagaaccacatcagc	10	3	10	18	0	1	1	1	0	0	1	2	3	2	2	7	2	3	1	7	2	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:11273484G>A	uc010yji.1	+	1	306	c.24G>A	c.(22-24)GGG>GGA	p.G8G	uc002raz.1_5'Flank|uc002rba.1_5'Flank|C2orf50_uc010yjj.1_Silent_p.G8G	NM_182500	NP_872306	Q96LR7	CB050_HUMAN	hypothetical protein LOC130813	8											0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0997)|OV - Ovarian serous cystadenocarcinoma(76;0.134)		CCACCCCTGGGCTCCAGAGAA	0.642													15	31					0	0	1	0	0		A	11273484	A	A	11273484	2	1	155	1	0	0	0	0	0	0	0	1	2175	1190	42	2		2	C2orf50	2	11273484	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1142650	11273484	231925889	173	84000											
LPIN1	23175	broad.mit.edu	37	chr2	11944622	11944622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtaccaaggcacgtgccGctgtgagggcaccatctatc	9	7	12	13	2	1	1	0	1	1	0	2	1	1	1	3	2	2	5	3	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:11944622G>A	uc010yjn.1	+	16	2253	c.1979G>A	c.(1978-1980)CGC>CAC	p.R660H	LPIN1_uc010yjm.1_Missense_Mutation_p.R745H|LPIN1_uc002rbt.2_Missense_Mutation_p.R660H|LPIN1_uc010yjo.1_Missense_Mutation_p.R161H	NM_145693	NP_663731	Q14693	LPIN1_HUMAN	lipin 1	660	C-LIP.				fatty acid catabolic process|transcription, DNA-dependent|triglyceride biosynthetic process|triglyceride mobilization	cytosol|endoplasmic reticulum membrane	phosphatidate phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.173)		GGCACGTGCCGCTGTGAGGGC	0.473													54	84					0	0	1	0	0		A	11944622	A	A	11944622	3	1	155	1	0	0	0	0	1	0	0	0	8936	1087	38	1	2033	1	LPIN1	2	11944622	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	671138	11944622	231254751	174	84001											
SMC6	79677	broad.mit.edu	37	chr2	17884436	17884436	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttacctttagttctttAtaatgtagttggcacctttt	7	23	5	6	0	1	0	0	0	1	0	1	0	1	0	2	1	1	4	2	1	5	13			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:17884436A>G	uc002rco.2	-	19	2426	c.2130T>C	c.(2128-2130)TAT>TAC	p.Y710Y	SMC6_uc010exo.2_Silent_p.Y710Y|SMC6_uc002rcn.2_Silent_p.Y710Y|SMC6_uc002rcp.1_Silent_p.Y736Y|SMC6_uc002rcq.2_Silent_p.Y736Y	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	710	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTAGTTCTTTATAATGTAGTT	0.289													25	38					0	0	1	0	0		G	17884436	G	G	17884436	2	3	155	1	0	0	0	0	0	0	0	1	14812	456	16	3		3	SMC6	2	17884436	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	5939814	17884436	225314937	175	84002											
APOB	338	broad.mit.edu	37	chr2	21230729	21230729	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaacagtgccatgcctttaGcagttagaacactgtggccc	11	9	9	12	0	0	1	0	0	0	1	0	1	0	1	3	1	5	2	3	1	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:21230729G>T	uc002red.2	-	26	9139	c.9011C>A	c.(9010-9012)GCT>GAT	p.A3004D		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3004					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CATGCCTTTAGCAGTTAGAAC	0.408													55	97					4.1673e-28	4.55731e-28	1	1	0		T	21230729	T	T	21230729	3	4	155	1	0	0	0	0	1	0	0	0	785	971	34	5	4696	5	APOB	2	21230729	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3346293	21230729	221968644	176	84003											
C2orf44	80304	broad.mit.edu	37	chr2	24262011	24262011	+	Silent	SNP	G	A	A	0	0	1	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	cattttgggtgccacacacaGccctggggaaggataggtag	10	8	14	9	0	0	0	0	0	0	0	0	2	0	2	2	5	2	1	2	5	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:24262011G>A	uc002rep.2	-	2	485	c.354C>T	c.(352-354)GGC>GGT	p.G118G	C2orf44_uc010eya.2_Silent_p.G118G	NM_025203	NP_079479	Q9H6R7	CB044_HUMAN	hypothetical protein LOC80304 isoform 1	118							protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCACACACAGCCCTGGGGAA	0.498													23	47					0	0	1	0	0		A	24262011	A	A	24262011	2	1	155	1	0	0	0	0	0	0	0	1	2171	958	34	2		2	C2orf44	2	24262011	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3031282	24262011	218937362	177	84004											
CAD	790	broad.mit.edu	37	chr2	27460681	27460681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtggccgggtctgcagcCgggctgaagctttacctcaa	7	8	13	13	3	2	1	1	1	1	0	2	1	2	1	4	3	4	3	4	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:27460681C>T	uc002rji.2	+	29	4821	c.4659C>T	c.(4657-4659)GCC>GCT	p.A1553A	CAD_uc010eyw.2_Silent_p.A1490A	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1553	DHOase (dihydroorotase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GGTCTGCAGCCGGGCTGAAGC	0.627													20	40					0	0	1	0	0		T	27460681	T	T	27460681	2	4	155	1	0	0	0	0	0	0	0	1	2568	639	23	1		1	CAD	2	27460681	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3198670	27460681	215738692	178	84005											
DNAJC5G	285126	broad.mit.edu	37	chr2	27500844	27500844	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gatcactttggtgaagaaggCgtcagatactattttattct	11	15	9	6	1	3	3	2	1	1	2	3	4	3	3	0	2	1	0	0	2	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:27500844C>T	uc002rjl.1	+	4	754	c.336C>T	c.(334-336)GGC>GGT	p.G112G	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Intron|DNAJC5G_uc002rjm.1_Silent_p.G112G	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	112					protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGAAGAAGGCGTCAGATACT	0.413													7	229					0	0	1	0	0		T	27500844	T	T	27500844	2	4	155	1	0	0	0	0	0	0	0	1	4658	755	27	1		1	DNAJC5G	2	27500844	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	40163	27500844	215698529	179	84006											
IFT172	26160	broad.mit.edu	37	chr2	27688651	27688651	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaatggctgttccaaactcGatgaggccctcatccaatgt	10	11	8	12	1	2	1	2	1	0	0	5	2	4	1	3	2	1	2	3	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:27688651G>A	uc002rku.2	-	17	1842	c.1791C>T	c.(1789-1791)ATC>ATT	p.I597I		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	597	TPR 1.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTCCAAACTCGATGAGGCCCT	0.552													235	331					0	0	1	0	0		A	27688651	A	A	27688651	2	1	155	1	0	0	0	0	0	0	0	1	7573	1048	37	1		1	IFT172	2	27688651	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	187807	27688651	215510722	180	84007											
SPDYA	245711	broad.mit.edu	37	chr2	29063081	29063081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatatctggcaaagagaacGttctgttcatcacagtggag	12	12	10	7	1	4	1	2	0	2	1	4	3	4	2	0	2	1	3	0	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:29063081G>A	uc002rmj.2	+	7	802	c.596G>A	c.(595-597)CGT>CAT	p.R199H	SPDYA_uc002rmi.2_Missense_Mutation_p.R199H|SPDYA_uc002rmk.2_Missense_Mutation_p.R199H|SPDYA_uc002rml.2_Missense_Mutation_p.R199H	NM_182756	NP_877433	Q5MJ70	SPDYA_HUMAN	speedy homolog A isoform 1	199	Speedy/Ringo box; Required for CDK- binding (By similarity).				G1/S transition of mitotic cell cycle|multicellular organismal development|positive regulation of cell proliferation|response to DNA damage stimulus	nucleus	protein kinase binding			upper_aerodigestive_tract(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CAAAGAGAACGTTCTGTTCAT	0.393													32	49					0	0	1	0	0		A	29063081	A	A	29063081	3	1	155	1	0	0	0	0	1	0	0	0	15052	1145	40	1	614	1	SPDYA	2	29063081	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1374430	29063081	214136292	181	84008											
LTBP1	4052	broad.mit.edu	37	chr2	33487837	33487837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaaacttgagcctggtcaaCcccagctgtctccaggcatt	9	9	8	15	0	2	1	1	1	1	0	3	1	2	1	5	2	4	2	5	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:33487837C>T	uc002ros.2	+	14	2467	c.2467C>T	c.(2467-2469)CCC>TCC	p.P823S	LTBP1_uc002rot.2_Missense_Mutation_p.P497S|LTBP1_uc002rou.2_Missense_Mutation_p.P497S|LTBP1_uc002rov.2_Missense_Mutation_p.P444S|LTBP1_uc010ymz.1_Missense_Mutation_p.P497S|LTBP1_uc010yna.1_Missense_Mutation_p.P444S	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	823					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GCCTGGTCAACCCCAGCTGTC	0.383													15	78					0	0	1	0	0		T	33487837	T	T	33487837	3	4	155	1	0	0	0	0	1	0	0	0	9091	507	18	4	2576	4	LTBP1	2	33487837	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4424756	33487837	209711536	182	84009											
CRIM1	51232	broad.mit.edu	37	chr2	36749246	36749246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttccagatcaaccttttCggccttccttgtcccgcaat	6	16	5	14	2	1	1	1	0	0	1	5	1	4	1	5	1	1	1	5	1	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:36749246C>T	uc002rpd.2	+	13	2257	c.2218C>T	c.(2218-2220)CGG>TGG	p.R740W		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	740	Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				TCAACCTTTTCGGCCTTCCTT	0.448													13	185					0	0	1	0	0		T	36749246	T	T	36749246	3	4	155	1	0	0	0	0	1	0	0	0	3876	875	31	1	2268	1	CRIM1	2	36749246	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3261409	36749246	206450127	183	84010											
FAM82A1	151393	broad.mit.edu	37	chr2	38201322	38201323	+	Frame_Shift_Del	DEL	GA	-	-																															tgagtgagtctggcaagtcgGagagttttgaactacttcgt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:38201322_38201323delGA	uc002rql.2	+	3	715_716	c.592_593delGA	c.(592-594)GAGfs	p.E198fs	FAM82A1_uc002rqn.1_Frame_Shift_Del_p.E376fs|FAM82A1_uc002rqk.1_Frame_Shift_Del_p.E53fs|FAM82A1_uc002rqm.2_Frame_Shift_Del_p.E53fs	NM_144713	NP_653314	Q96LZ7	RMD2_HUMAN	family with sequence similarity 82, member A1	198						cytoplasm|integral to membrane|microtubule|spindle pole	binding			ovary(1)	1						TGGCAAGTCGGAGAGTTTTGAA	0.376													66	113	---	---	---	---						.	-	38201323	-	-	38201322	7	5	155	1	0	1	0	1	0	0	0	0	5644	1175	41	0	1592	0	FAM82A1	2	38201322	Frame_Shift_Del	DEL	GA	TCGA-CG-5726-01A-11D-1600-08	1452076	38201322	204998051	184	84011											
ATL2	64225	broad.mit.edu	37	chr2	38545705	38545705	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctagtcatagtgctcagaGcaaacaccgttgcacagtct	12	9	9	11	1	3	1	2	0	1	1	3	1	3	1	1	0	5	5	1	0	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:38545705G>T	uc002rqq.2	-	4	605	c.575C>A	c.(574-576)GCT>GAT	p.A192D	ATL2_uc010ynm.1_Missense_Mutation_p.A174D|ATL2_uc010ynn.1_Missense_Mutation_p.A174D|ATL2_uc010yno.1_Missense_Mutation_p.A21D|ATL2_uc002rqs.2_Missense_Mutation_p.A192D|ATL2_uc002rqr.2_Missense_Mutation_p.A21D	NM_001135673	NP_001129145	Q8NHH9	ATLA2_HUMAN	atlastin GTPase 2 isoform 2	192	Cytoplasmic.				endoplasmic reticulum organization|Golgi organization|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	GTP binding|GTPase activity|identical protein binding			ovary(1)|kidney(1)|skin(1)	3						AGTGCTCAGAGCAAACACCGT	0.408													11	77					3.27435e-08	3.41325e-08	1	1	0		T	38545705	T	T	38545705	3	4	155	1	0	0	0	0	1	0	0	0	1108	971	34	5	1328	5	ATL2	2	38545705	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	344383	38545705	204653668	185	84012											
THADA	63892	broad.mit.edu	37	chr2	43787479	43787479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccattagtgtttggaaacgaCcaacatcaatatcatgactc	14	11	6	10	1	2	1	2	1	0	0	3	3	2	2	2	1	2	1	2	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:43787479C>T	uc002rsw.3	-	16	2709	c.2357G>A	c.(2356-2358)GGT>GAT	p.G786D	THADA_uc010far.2_Missense_Mutation_p.G55D|THADA_uc002rsx.3_Missense_Mutation_p.G786D|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.G496D|THADA_uc010fat.1_Intron|THADA_uc002rta.2_Missense_Mutation_p.G496D|THADA_uc002rtb.1_Missense_Mutation_p.G786D|THADA_uc002rtc.3_Missense_Mutation_p.G786D	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	786							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				TTGGAAACGACCAACATCAAT	0.294													8	24					0	0	1	0	0		T	43787479	T	T	43787479	3	4	155	1	0	0	0	0	1	0	0	0	15865	507	18	4	3596	4	THADA	2	43787479	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5241774	43787479	199411894	186	84013											
SIX2	10736	broad.mit.edu	37	chr2	45235919	45235919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcgggaatttgcggcgcaCgcggtatttgcccacggcgc	6	7	15	13	7	0	0	0	0	0	0	0	1	0	1	1	4	3	2	1	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:45235919C>T	uc002ruo.2	-	1	624	c.331G>A	c.(331-333)GTG>ATG	p.V111M	SIX2_uc002rup.2_Missense_Mutation_p.V111M	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	111						nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TTGCGGCGCACGCGGTATTTG	0.657													31	34					0	0	1	0	0		T	45235919	T	T	45235919	3	4	155	1	0	0	0	0	1	0	0	0	14372	536	19	1	552	1	SIX2	2	45235919	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1448440	45235919	197963454	187	84014											
SRBD1	55133	broad.mit.edu	37	chr2	45832557	45832557	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatcctggacctgtactttCgctcttcttggcaatgatga	8	14	8	11	1	2	2	0	2	2	0	4	3	3	3	2	2	1	3	2	2	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:45832557C>T	uc002rus.2	-	2	100	c.24G>A	c.(22-24)GCG>GCA	p.A8A		NM_018079	NP_060549	Q8N5C6	SRBD1_HUMAN	S1 RNA binding domain 1	8					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		hydrolase activity, acting on ester bonds|RNA binding			central_nervous_system(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)	LUSC - Lung squamous cell carcinoma(58;0.0917)|Lung(47;0.154)			CCTGTACTTTCGCTCTTCTTG	0.353													13	435					0	0	1	0	0		T	45832557	T	T	45832557	2	4	155	1	0	0	0	0	0	0	0	1	15158	871	31	1		1	SRBD1	2	45832557	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	596638	45832557	197366816	188	84015											
FOXN2	3344	broad.mit.edu	37	chr2	48602092	48602092	+	Frame_Shift_Del	DEL	A	-	-																															tcctcttaaaacagcattgcAaaaaaagaggagttacggca																								rs149269949		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:48602092delA	uc002rwh.1	+	7	1121	c.806delA	c.(805-807)CAAfs	p.Q269fs		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	269					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			ACAGCATTGCAAAAAAAGAGG	0.383													47	100	---	---	---	---						.	-	48602092	-	-	48602092	7	5	155	1	0	1	0	1	0	0	0	0	6034	130	5	0	824	0	FOXN2	2	48602092	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	2769535	48602092	194597281	189	84016											
LHCGR	3973	broad.mit.edu	37	chr2	48941140	48941140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacagtgaagtcagtgtcGtcccattgaatgcatgactt	10	13	9	9	1	1	3	1	3	0	0	3	3	2	3	1	0	2	1	1	0	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:48941140G>A	uc002rwu.3	-	7	660	c.590C>T	c.(589-591)ACG>ATG	p.T197M	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	197	Extracellular (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	AGTCAGTGTCGTCCCATTGAA	0.383									Familial_Male-Limited_Precocious_Puberty				29	45					0	0	1	0	0		A	48941140	A	A	48941140	3	1	155	1	0	0	0	0	1	0	0	0	8778	1145	40	1	1529	1	LHCGR	2	48941140	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	339048	48941140	194258233	190	84017											
FSHR	2492	broad.mit.edu	37	chr2	49217744	49217744	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgaatcttgtgaacatctGgaaggtgcttaatacctgtg	12	13	10	6	0	2	2	0	2	2	0	2	3	2	3	1	2	3	1	1	2	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:49217744G>T	uc002rww.2	-	5	481	c.407C>A	c.(406-408)CCA>CAA	p.P136Q	FSHR_uc002rwx.2_Missense_Mutation_p.P136Q|FSHR_uc010fbn.2_Missense_Mutation_p.P136Q|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	136	Extracellular (Potential).|LRR 4.				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	GTGAACATCTGGAAGGTGCTT	0.373									Gonadal_Dysgenesis_46_XX				25	151					5.45024e-15	5.80456e-15	1	1	0		T	49217744	T	T	49217744	3	4	155	1	0	0	0	0	1	0	0	0	6087	1348	47	5	1704	5	FSHR	2	49217744	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	276604	49217744	193981629	191	84018											
NRXN1	9378	broad.mit.edu	37	chr2	50573835	50573835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgcagacccaccgtgtcCgcctcgcaaggatgccggtg	7	6	12	16	5	0	1	0	0	0	1	3	2	1	2	5	2	1	2	5	2	1	0	rs138844263		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:50573835C>T	uc010fbp.2	-	1	1060	c.253G>A	c.(253-255)GGA>AGA	p.G85R	NRXN1_uc002rxb.3_Intron|NRXN1_uc010fbq.2_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	85	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CCACCGTGTCCGCCTCGCAAG	0.572													22	41					0	0	1	0	0		T	50573835	T	T	50573835	3	4	155	1	0	0	0	0	1	0	0	0	10684	661	23	1	1193	1	NRXN1	2	50573835	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1356091	50573835	192625538	192	84019											
GPR75	10936	broad.mit.edu	37	chr2	54080672	54080672	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcccttttcccatggctcGaagtcgagtcttttgtttgc	4	17	9	11	2	1	0	0	0	1	0	5	2	3	0	2	1	1	3	2	1	1	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:54080672G>A	uc002rxo.3	-	2	1493	c.1222C>T	c.(1222-1224)CGA>TGA	p.R408*	ASB3_uc002rxi.3_Intron	NM_006794	NP_006785	O95800	GPR75_HUMAN	G protein-coupled receptor 75	408	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|skin(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CCCATGGCTCGAAGTCGAGTC	0.448													14	221					0	0	1	0	0		A	54080672	A	A	54080672	4	1	155	1	0	0	0	0	0	1	0	0	6723	1066	37	1	404	1	GPR75	2	54080672	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3506837	54080672	189118701	193	84020											
CCDC104	112942	broad.mit.edu	37	chr2	55771388	55771388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttggaacagaagaacttcgGcaacgagaacactatctcaa	16	7	8	10	2	1	3	1	0	1	3	3	5	1	4	0	2	4	1	0	2	7	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:55771388G>A	uc002ryy.2	+	9	1008	c.810G>A	c.(808-810)CGG>CGA	p.R270R	CCDC104_uc002ryx.2_Silent_p.R295R	NM_080667	NP_542398	Q96G28	CC104_HUMAN	coiled-coil domain containing 104	270										ovary(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			AAGAACTTCGGCAACGAGAAC	0.388													42	65					0	0	1	0	0		A	55771388	A	A	55771388	2	1	155	1	0	0	0	0	0	0	0	1	2742	1190	42	2		2	CCDC104	2	55771388	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1690716	55771388	187427985	194	84021											
PNPT1	87178	broad.mit.edu	37	chr2	55870544	55870544	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaacgtttcttcatccacCtgactaatagttacaccttt	12	14	4	11	1	2	1	1	1	1	0	3	2	3	1	3	0	2	2	3	0	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:55870544C>T	uc002rzf.2	-	24	1976	c.1923G>A	c.(1921-1923)CAG>CAA	p.Q641Q	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	641	KH.				mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CTTCATCCACCTGACTAATAG	0.264													12	115					0	0	1	0	0		T	55870544	T	T	55870544	2	4	155	1	0	0	0	0	0	0	0	1	12192	680	24	4		4	PNPT1	2	55870544	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	99156	55870544	187328829	195	84022											
KIAA1841	84542	broad.mit.edu	37	chr2	61304055	61304055	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgtaacatttttatgaagGccaaacatggtgatccatgt	12	14	9	6	0	0	2	0	2	0	0	1	2	1	2	2	2	2	1	2	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:61304055G>A	uc002saw.3	+	6	735	c.432G>A	c.(430-432)GGG>GGA	p.G144G	KIAA1841_uc002sax.3_5'UTR|KIAA1841_uc002say.2_Silent_p.G144G|KIAA1841_uc002sav.3_Silent_p.G144G	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	144											0			Epithelial(17;0.193)			TTTTATGAAGGCCAAACATGG	0.333													41	61					0	0	1	0	0		A	61304055	A	A	61304055	2	1	155	1	0	0	0	0	0	0	0	1	8277	1217	42	2		2	KIAA1841	2	61304055	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5433511	61304055	181895318	196	84023											
USP34	9736	broad.mit.edu	37	chr2	61475795	61475795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtattgaaactcaaaatgCgaggcaatttcttaaaacat	17	12	6	6	1	2	1	1	1	1	0	2	2	2	1	0	1	3	2	0	1	8	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:61475795C>T	uc002sbe.2	-	49	6267	c.6245G>A	c.(6244-6246)CGC>CAC	p.R2082H	USP34_uc002sbf.2_Missense_Mutation_p.R232H	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2082					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ACTCAAAATGCGAGGCAATTT	0.308													8	124					0	0	1	0	0		T	61475795	T	T	61475795	3	4	155	1	0	0	0	0	1	0	0	0	17091	768	27	1	4523	1	USP34	2	61475795	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	171740	61475795	181723578	197	84024											
PELI1	57162	broad.mit.edu	37	chr2	64323400	64323401	+	Frame_Shift_Ins	INS	-	A	A																															caagaacaccattagtggtcINSaagccatccatctgtccatc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:64323400_64323401insA	uc002scs.3	-	5	4587_4588	c.548_549insT	c.(547-549)TTGfs	p.L183fs	PELI1_uc002sct.3_Frame_Shift_Ins_p.L183fs|PELI1_uc002scr.3_Frame_Shift_Ins_p.L4fs	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	183					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol				ovary(1)	1						CATTAGTGGTCAAGCCATCCAT	0.426													93	125	---	---	---	---						.	A	64323401	A	A	64323400	7	5	155	1	0	1	1	0	0	0	0	0	11740	825	29	0	715	0	PELI1	2	64323400	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	2847605	64323400	178875973	198	84025											
FBXO48	554251	broad.mit.edu	37	chr2	68691370	68691370	+	Frame_Shift_Del	DEL	C	-	-																															cagttctgcttctagaatttCcccccatgtatctgcatcca																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:68691370delC	uc002seo.2	-	4	847	c.439delG	c.(439-441)GAAfs	p.E147fs		NM_001024680	NP_001019851	Q5FWF7	FBX48_HUMAN	F-box protein 48	147											0						TCTAGAATTTCCCCCCATGTA	0.388													217	485	---	---	---	---						.	-	68691370	-	-	68691370	7	5	155	1	0	1	0	1	0	0	0	0	5771	864	30	0	32	0	FBXO48	2	68691370	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	4367970	68691370	174508003	199	84026											
ANTXR1	84168	broad.mit.edu	37	chr2	69472360	69472360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctccaattcttttctaggggCgctgcatcaacttcaccagg	8	12	8	13	1	4	0	2	0	2	0	5	0	5	0	2	3	2	2	2	3	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:69472360C>T	uc002sfg.2	+	18	1794	c.1438C>T	c.(1438-1440)CGC>TGC	p.R480C		NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	480	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						TTTCTAGGGGCGCTGCATCAA	0.468									Familial_Infantile_Hemangioma				15	36					0	0	1	0	0		T	69472360	T	T	69472360	3	4	155	1	0	0	0	0	1	0	0	0	711	768	27	1	1585	1	ANTXR1	2	69472360	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	780990	69472360	173727013	200	84027											
ANXA4	307	broad.mit.edu	37	chr2	70031679	70031679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggcaccgatgaagacGccattattagcgtccttgcc	9	8	9	15	3	0	2	0	1	0	1	1	3	1	2	6	1	2	1	6	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:70031679G>A	uc002sfr.3	+	4	339	c.112G>A	c.(112-114)GCC>ACC	p.A38T	ANXA4_uc010yqn.1_RNA|ANXA4_uc002sfs.3_Missense_Mutation_p.A38T|ANXA4_uc010yqo.1_5'UTR	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	36	Annexin 1.				anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						CGATGAAGACGCCATTATTAG	0.552													13	22					0	0	1	0	0		A	70031679	A	A	70031679	3	1	155	1	0	0	0	0	1	0	0	0	720	1087	38	1	122	1	ANXA4	2	70031679	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	559319	70031679	173167694	201	84028											
FIGLA	344018	broad.mit.edu	37	chr2	71012593	71012593	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagtcgtagacatcacactgTggcgacaagcgtgtgctggc	9	8	13	11	3	1	1	1	0	0	1	2	2	1	1	0	2	2	2	0	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:71012593T>C	uc002she.1	-	3	568	c.563A>G	c.(562-564)CAC>CGC	p.H188R		NM_001004311	NP_001004311	Q6QHK4	FIGLA_HUMAN	factor in the germline alpha	188					multicellular organismal development|oocyte development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcription factor complex	DNA binding|transcription factor binding				0						CATCACACTGTGGCGACAAGC	0.448													20	418					0	0	1	0	0		C	71012593	C	C	71012593	3	2	155	1	0	0	0	0	1	0	0	0	5904	1696	59	3	108	3	FIGLA	2	71012593	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	980914	71012593	172186780	202	84029											
ALMS1	7840	broad.mit.edu	37	chr2	73827831	73827831	+	Frame_Shift_Del	DEL	A	-	-																															tggagattgtgaacggtgccAaaaaacacactcgagatgtt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:73827831delA	uc002sje.1	+	20	11809	c.11698delA	c.(11698-11700)AAAfs	p.K3900fs	ALMS1_uc002sjf.1_Frame_Shift_Del_p.K3856fs|ALMS1_uc002sjh.1_Frame_Shift_Del_p.K3286fs	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3898					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GAACGGTGCCAAAAAACACAC	0.448													28	60	---	---	---	---						.	-	73827831	-	-	73827831	7	5	155	1	0	1	0	1	0	0	0	0	535	131	5	0	11762	0	ALMS1	2	73827831	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	2815238	73827831	169371542	203	84030											
NAT8	9027	broad.mit.edu	37	chr2	73868259	73868259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcactgtagccctggtccCgggcaaactggaggacagtc	8	8	12	13	1	1	0	1	0	0	0	3	2	2	2	2	4	2	2	2	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:73868259C>T	uc002sji.1	-	2	664	c.497G>A	c.(496-498)CGG>CAG	p.R166Q		NM_003960	NP_003951	Q9UHE5	NAT8_HUMAN	N-acetyltransferase 8	166	N-acetyltransferase.				gastrulation with mouth forming second|response to drug	integral to membrane	N-acetyltransferase activity			ovary(1)	1						GCCCTGGTCCCGGGCAAACTG	0.577													10	80					0	0	1	0	0		T	73868259	T	T	73868259	3	4	155	1	0	0	0	0	1	0	0	0	10197	652	23	1	190	1	NAT8	2	73868259	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	40428	73868259	169331114	204	84031											
DCTN1	1639	broad.mit.edu	37	chr2	74590160	74590160	+	Missense_Mutation	SNP	T	A	A	0	1	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	gtctactacgtgcgtgtgtgTgctcaattgattcaatgtct	7	16	10	8	2	4	1	2	1	2	0	4	1	4	1	0	0	4	1	0	0	4	4	rs72466493		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:74590160T>A	uc002skx.2	-	29	3801	c.3490A>T	c.(3490-3492)ACA>TCA	p.T1164S	SLC4A5_uc002skl.2_RNA|DCTN1_uc002skt.1_Missense_Mutation_p.T98S|DCTN1_uc002skv.2_Missense_Mutation_p.T1030S|DCTN1_uc002sku.2_Missense_Mutation_p.T1025S|DCTN1_uc002skw.1_Missense_Mutation_p.T1140S|DCTN1_uc010ffd.2_Missense_Mutation_p.T1139S|DCTN1_uc002sky.2_Missense_Mutation_p.T1122S	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	1164					cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						TGCGTGTGTGTGCTCAATTGA	0.537													9	31					0	0	1	0	0		A	74590160	A	A	74590160	3	1	155	1	0	0	0	0	1	0	0	0	4309	1696	59	5	362	5	DCTN1	2	74590160	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	721901	74590160	168609213	205	84032											
HTRA2	27429	broad.mit.edu	37	chr2	74759794	74759794	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagctttcccgatgttcaGcatggtgtactcatccataa	10	12	7	12	1	2	0	2	0	0	0	4	1	4	0	3	1	3	4	3	1	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:74759794G>A	uc002smi.1	+	7	1766	c.1164G>A	c.(1162-1164)CAG>CAA	p.Q388Q	AUP1_uc002smf.2_5'Flank|AUP1_uc002smg.2_5'Flank|AUP1_uc002smh.2_5'Flank|AUP1_uc010yrx.1_5'Flank|AUP1_uc010yry.1_5'Flank|HTRA2_uc002smj.1_Intron|HTRA2_uc002smk.1_Intron|HTRA2_uc002sml.1_Intron|HTRA2_uc002smm.1_Silent_p.Q129Q|HTRA2_uc002smn.1_Silent_p.Q129Q	NM_013247	NP_037379	O43464	HTRA2_HUMAN	HtrA serine peptidase 2 isoform 1 preproprotein	388	PDZ.				apoptosis|proteolysis|response to stress	CD40 receptor complex|endoplasmic reticulum membrane|internal side of plasma membrane|mitochondrial intermembrane space|mitochondrial membrane|nucleus	serine-type endopeptidase activity|unfolded protein binding			ovary(1)	1						CCGATGTTCAGCATGGTGTAC	0.532													26	102					0	0	1	0	0		A	74759794	A	A	74759794	2	1	155	1	0	0	0	0	0	0	0	1	7470	962	34	2		2	HTRA2	2	74759794	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	169634	74759794	168439579	206	84033											
HK2	3099	broad.mit.edu	37	chr2	75113685	75113685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggtggaaggagaagaggggCggatgtgtgtgaacatggaa	12	7	20	2	1	0	3	0	1	0	2	0	7	0	6	0	7	1	0	0	7	4	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:75113685C>T	uc002snd.2	+	15	4030	c.2104C>T	c.(2104-2106)CGG>TGG	p.R702W		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	702	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						AGAAGAGGGGCGGATGTGTGT	0.552													23	105					0	0	1	0	0		T	75113685	T	T	75113685	3	4	155	1	0	0	0	0	1	0	0	0	7207	759	27	1	2162	1	HK2	2	75113685	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	353891	75113685	168085688	207	84034											
CTNNA2	1496	broad.mit.edu	37	chr2	80831288	80831288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaatggacaaattagctcGtgctgtggctgatcaggtaa	11	11	12	7	2	1	1	1	1	0	0	3	3	1	2	0	3	2	4	0	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:80831288G>A	uc010ysh.1	+	15	2284	c.2279G>A	c.(2278-2280)CGT>CAT	p.R760H	CTNNA2_uc010yse.1_Missense_Mutation_p.R760H|CTNNA2_uc010ysf.1_Missense_Mutation_p.R760H|CTNNA2_uc010ysg.1_Missense_Mutation_p.R760H|CTNNA2_uc010ysi.1_Missense_Mutation_p.R392H|CTNNA2_uc010ysj.1_Missense_Mutation_p.R89H	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	760					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AAATTAGCTCGTGCTGTGGCT	0.438													39	50					0	0	1	0	0		A	80831288	A	A	80831288	3	1	155	1	0	0	0	0	1	0	0	0	4016	1145	40	1	2129	1	CTNNA2	2	80831288	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5717603	80831288	162368085	208	84035											
TMEM150A	129303	broad.mit.edu	37	chr2	85827471	85827471	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctaagggtacaactcacccaTgaaagcacccatgttgccaa	14	7	7	13	0	1	1	1	1	0	0	1	1	1	1	3	1	4	3	3	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:85827471T>C	uc002spw.1	-	4	986	c.265A>G	c.(265-267)ATG>GTG	p.M89V	USP39_uc002sqb.2_5'Flank|TMEM150A_uc002spx.1_Intron|TMEM150A_uc002spz.1_Intron|TMEM150A_uc002sqa.1_Missense_Mutation_p.M5V|TMEM150A_uc002spy.1_Missense_Mutation_p.M89V	NM_001031738	NP_001026908	Q86TG1	T150A_HUMAN	transmembrane protein 150A isoform 1	89	Helical; (Potential).					integral to membrane|plasma membrane					0						AACTCACCCATGAAAGCACCC	0.602													4	53					0	0	1	0	0		C	85827471	C	C	85827471	3	2	155	1	0	0	0	0	1	0	0	0	16092	1464	51	3	566	3	TMEM150A	2	85827471	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	4996183	85827471	157371902	209	84036											
USP39	10713	broad.mit.edu	37	chr2	85852763	85852763	+	Silent	SNP	T	C	C	0	1	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	accacttacctgccgggtatTgtgggactgaataacataaa	13	10	9	9	1	0	1	0	1	0	0	0	2	0	2	3	2	3	1	3	2	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:85852763T>C	uc002sqe.2	+	5	708	c.672T>C	c.(670-672)ATT>ATC	p.I224I	USP39_uc002sqb.2_5'UTR|USP39_uc010ysu.1_Silent_p.I146I|USP39_uc010ysv.1_Silent_p.I121I|USP39_uc010fgn.1_Silent_p.I224I|USP39_uc002sqf.2_Silent_p.I224I|USP39_uc002sqg.2_Silent_p.I224I|USP39_uc010fgo.2_Silent_p.I224I	NM_006590	NP_006581	Q53GS9	SNUT2_HUMAN	ubiquitin specific protease 39	224					spliceosome assembly|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)	1						TGCCGGGTATTGTGGGACTGA	0.453													22	107					0	0	1	0	0		C	85852763	C	C	85852763	2	2	155	1	0	0	0	0	0	0	0	1	17096	1800	63	3		3	USP39	2	85852763	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	25292	85852763	157346610	210	84037											
IMMT	10989	broad.mit.edu	37	chr2	86373208	86373208	+	Missense_Mutation	SNP	A	C	C	1	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	tactctgaacagcctgttcgAttcctctgagtctggcatag	8	13	9	11	1	3	2	0	2	3	0	5	3	4	2	2	1	3	2	2	1	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:86373208A>C	uc002sqz.3	-	14	2034	c.1646T>G	c.(1645-1647)ATC>AGC	p.I549S	IMMT_uc002sqy.3_Missense_Mutation_p.I290S|IMMT_uc002srb.3_Missense_Mutation_p.I538S|IMMT_uc002sra.3_Missense_Mutation_p.I548S|IMMT_uc010ytd.1_Missense_Mutation_p.I537S|IMMT_uc010yte.1_Missense_Mutation_p.I502S|IMMT_uc002src.1_Missense_Mutation_p.I285S	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	549	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						AGCCTGTTCGATTCCTCTGAG	0.353													12	24					0	0	1	0	0		C	86373208	C	C	86373208	3	2	155	1	0	0	0	0	1	0	0	0	7734	333	12	5	638	5	IMMT	2	86373208	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	520445	86373208	156826165	211	84038											
KDM3A	55818	broad.mit.edu	37	chr2	86693713	86693713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attggagtctgttccacaagCattgactggccttcctaagg	9	12	10	10	0	1	1	0	1	1	0	3	2	3	2	3	3	1	2	3	3	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:86693713C>T	uc002sri.3	+	10	1553	c.1226C>T	c.(1225-1227)GCA>GTA	p.A409V	KDM3A_uc010ytj.1_Missense_Mutation_p.A409V|KDM3A_uc010ytk.1_Missense_Mutation_p.A357V	NM_018433	NP_060903	Q9Y4C1	KDM3A_HUMAN	jumonji domain containing 1A	409					androgen receptor signaling pathway|cell differentiation|formaldehyde biosynthetic process|histone H3-K9 demethylation|hormone-mediated signaling pathway|positive regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	androgen receptor binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	5						GTTCCACAAGCATTGACTGGC	0.453													9	289					0	0	1	0	0		T	86693713	T	T	86693713	3	4	155	1	0	0	0	0	1	0	0	0	8142	710	25	2	1260	2	KDM3A	2	86693713	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	320505	86693713	156505660	212	84039											
RMND5A	64795	broad.mit.edu	37	chr2	86992214	86992214	+	Missense_Mutation	SNP	A	G	G	1	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	ccttggaatttaagctacacAgactgtattttattagcttg	11	16	7	7	0	0	1	0	0	0	1	0	2	0	2	1	1	3	3	1	1	6	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:86992214A>G	uc010ytm.1	+	5	963	c.586A>G	c.(586-588)AGA>GGA	p.R196G	RMND5A_uc002srs.3_Intron|RMND5A_uc002srr.2_Missense_Mutation_p.R196G	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	196	CTLH.									ovary(1)|skin(1)	2						TAAGCTACACAGACTGTATTT	0.363													8	216					0	0	1	0	0		G	86992214	G	G	86992214	3	3	155	1	0	0	0	0	1	0	0	0	13422	180	7	3	604	3	RMND5A	2	86992214	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	298501	86992214	156207159	213	84040											
ZNF514	84874	broad.mit.edu	37	chr2	95815928	95815928	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcacatcttgaatgtgttttTccactgatactacctggaat	10	15	7	9	0	1	2	0	2	1	0	2	3	2	3	2	1	2	2	2	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:95815928T>C	uc002sue.1	-	5	676	c.302A>G	c.(301-303)GAA>GGA	p.E101G	ZNF514_uc002sud.1_Missense_Mutation_p.E174G	NM_032788	NP_116177	Q96K75	ZN514_HUMAN	zinc finger protein 514	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATGTGTTTTTCCACTGATAC	0.413													79	356					0	0	1	0	0		C	95815928	C	C	95815928	3	2	155	1	0	0	0	0	1	0	0	0	17984	1783	62	3	904	3	ZNF514	2	95815928	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	8823714	95815928	147383445	214	84041											
GPAT2	150763	broad.mit.edu	37	chr2	96697827	96697827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aacagcgacccacaaaggggCgatacttccccaggaatgga	14	4	11	12	2	0	0	0	0	0	0	1	4	1	2	3	4	3	0	3	4	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:96697827C>T	uc002svf.2	-	3	354	c.131G>A	c.(130-132)CGC>CAC	p.R44H	GPAT2_uc002svg.2_5'UTR|GPAT2_uc010yuh.1_Missense_Mutation_p.R44H|GPAT2_uc002svh.2_Missense_Mutation_p.R44H	NM_207328	NP_997211	Q6NUI2	GPAT2_HUMAN	glycerol-3-phosphate acyltransferase 2,	44					glycerol-3-phosphate metabolic process|phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity				0						CACAAAGGGGCGATACTTCCC	0.597													9	98					0	0	1	0	0		T	96697827	T	T	96697827	3	4	155	1	0	0	0	0	1	0	0	0	6604	768	27	1	2336	1	GPAT2	2	96697827	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	881899	96697827	146501546	215	84042											
ITPRIPL1	150771	broad.mit.edu	37	chr2	96992973	96992973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatctcattgaggcctgtCgggtgctcagccgccaagag	8	9	13	11	2	2	3	2	2	1	1	4	3	2	3	3	2	2	1	3	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:96992973C>T	uc002svx.2	+	3	939	c.604C>T	c.(604-606)CGG>TGG	p.R202W	ITPRIPL1_uc010yuk.1_Missense_Mutation_p.R194W|ITPRIPL1_uc002svy.2_Missense_Mutation_p.R210W|ITPRIPL1_uc010yul.1_Missense_Mutation_p.R194W	NM_001008949	NP_001008949	Q6GPH6	IPIL1_HUMAN	inositol 1,4,5-triphosphate receptor interacting	202	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(2)|ovary(1)	3						TGAGGCCTGTCGGGTGCTCAG	0.532													44	76					0	0	1	0	0		T	96992973	T	T	96992973	3	4	155	1	0	0	0	0	1	0	0	0	7940	875	31	1	644	1	ITPRIPL1	2	96992973	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	295146	96992973	146206400	216	84043											
NCAPH	23397	broad.mit.edu	37	chr2	97007608	97007608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcagcactgactcacctcGcttattggcctccccctcca	6	11	6	18	1	2	1	2	1	0	0	5	1	4	1	5	1	1	3	5	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:97007608G>A	uc002svz.1	+	2	332	c.248G>A	c.(247-249)CGC>CAC	p.R83H	NCAPH_uc010fhu.1_Missense_Mutation_p.R59H|NCAPH_uc010fhv.1_Missense_Mutation_p.R72H|NCAPH_uc010yum.1_Missense_Mutation_p.R59H|NCAPH_uc010fhw.1_Missense_Mutation_p.R72H|NCAPH_uc010yun.1_Intron|NCAPH_uc002swa.1_Intron	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	83					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				GACTCACCTCGCTTATTGGCC	0.587													63	95					0	0	1	0	0		A	97007608	A	A	97007608	3	1	155	1	0	0	0	0	1	0	0	0	10228	1087	38	1	254	1	NCAPH	2	97007608	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	14635	97007608	146191765	217	84044											
ANKRD36B	57730	broad.mit.edu	37	chr2	98201579	98201579	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cctcctgcctcagttgtacaGcctgtcagtattagaccgag	8	11	9	13	1	2	1	2	0	0	1	3	2	3	1	5	0	3	3	5	0	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:98201579G>T	uc010yvc.1	-	3	558	c.278C>A	c.(277-279)GCT>GAT	p.A93D	ANKRD36B_uc010yve.1_RNA|ANKRD36B_uc010fif.2_RNA	NM_025190	NP_079466	Q8N2N9	AN36B_HUMAN	ankyrin repeat domain 36B	93	ANK 3.										0						CAGTTGTACAGCCTGTCAGTA	0.428													4	62					2.7689e-08	2.88816e-08	1	1	0		T	98201579	T	T	98201579	3	4	155	1	0	0	0	0	1	0	0	0	666	985	34	5	3947	5	ANKRD36B	2	98201579	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1193971	98201579	144997794	218	84045											
REV1	51455	broad.mit.edu	37	chr2	100022521	100022521	+	Missense_Mutation	SNP	A	G	G	1	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	aaaaggtggcaagaaagtgcAagttctagaagcagatgata	18	7	12	4	0	1	4	0	1	1	3	1	4	1	4	0	2	2	4	0	2	8	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:100022521A>G	uc002tad.2	-	17	2874	c.2662T>C	c.(2662-2664)TGC>CGC	p.C888R	REV1_uc002tac.2_Missense_Mutation_p.C887R	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	888					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						AAGAAAGTGCAAGTTCTAGAA	0.443								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					20	44					0	0	1	0	0		G	100022521	G	G	100022521	3	3	155	1	0	0	0	0	1	0	0	0	13264	130	5	3	1121	3	REV1	2	100022521	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1820942	100022521	143176852	219	84046											
REV1	51455	broad.mit.edu	37	chr2	100029342	100029342	+	Missense_Mutation	SNP	T	G	G	0	1	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	tttttggagttttgccatggTcatatactgcaagtctccac	8	16	8	9	0	2	0	1	0	1	0	3	1	2	1	2	2	3	2	2	2	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:100029342T>G	uc002tad.2	-	13	2235	c.2023A>C	c.(2023-2025)ACC>CCC	p.T675P	REV1_uc002tac.2_Missense_Mutation_p.T674P	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	675					DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						TTTGCCATGGTCATATACTGC	0.403								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	206					0	0	1	0	0		G	100029342	G	G	100029342	3	3	155	1	0	0	0	0	1	0	0	0	13264	1667	58	5	1776	5	REV1	2	100029342	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	6821	100029342	143170031	220	84047											
REV1	51455	broad.mit.edu	37	chr2	100038096	100038096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcttcatcacaactgacagCttcaatgttatgagtgtagc	11	12	8	10	1	3	2	3	2	0	0	3	2	3	2	0	0	3	4	0	0	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:100038096C>T	uc002tad.2	-	11	1908	c.1696G>A	c.(1696-1698)GCT>ACT	p.A566T	REV1_uc002tac.2_Missense_Mutation_p.A565T	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	566	UmuC.				DNA replication|error-prone translesion synthesis|response to UV	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|magnesium ion binding|protein binding			ovary(2)	2						CAACTGACAGCTTCAATGTTA	0.423								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					44	68					0	0	1	0	0		T	100038096	T	T	100038096	3	4	155	1	0	0	0	0	1	0	0	0	13264	797	28	2	2111	2	REV1	2	100038096	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	8754	100038096	143161277	221	84048											
SLC9A4	389015	broad.mit.edu	37	chr2	103095325	103095325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctaccacaggctgccagGcctcatgccagaaagctgcc	9	6	9	17	0	2	1	1	0	1	1	2	1	2	1	6	2	5	2	6	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:103095325G>A	uc002tbz.3	+	2	741	c.284G>A	c.(283-285)GGC>GAC	p.G95D		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	95	Helical; Name=C/M3; (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						AGGCTGCCAGGCCTCATGCCA	0.587													19	51					0	0	1	0	0		A	103095325	A	A	103095325	3	1	155	1	0	0	0	0	1	0	0	0	14741	1203	42	2	290	2	SLC9A4	2	103095325	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3057229	103095325	140104048	222	84049											
SLC9A2	6549	broad.mit.edu	37	chr2	103322334	103322334	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacctcccgatatttatcCttacctaaaaatacgaagct	14	12	3	12	2	1	0	1	0	0	0	3	2	3	0	4	0	4	1	4	0	9	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:103322334C>A	uc002tca.2	+	11	2149	c.2007C>A	c.(2005-2007)TCC>TCA	p.S669S		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	669	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GATATTTATCCTTACCTAAAA	0.289													29	54					7.68411e-24	8.32155e-24	1	1	0		A	103322334	A	A	103322334	2	1	155	1	0	0	0	0	0	0	0	1	14737	668	24	5		5	SLC9A2	2	103322334	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	227009	103322334	139877039	223	84050											
SLC5A7	60482	broad.mit.edu	37	chr2	108625008	108625008	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aattgttctgcagtatctctGccctgtgtatatttctttct	6	20	6	9	0	4	0	0	0	4	0	5	0	4	0	1	0	2	4	1	0	4	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:108625008G>T	uc002tdv.2	+	8	1259	c.983G>T	c.(982-984)TGC>TTC	p.C328F	SLC5A7_uc010ywm.1_Missense_Mutation_p.C81F|SLC5A7_uc010fjj.2_Missense_Mutation_p.C328F|SLC5A7_uc010ywn.1_Missense_Mutation_p.C215F	NM_021815	NP_068587	Q9GZV3	SC5A7_HUMAN	solute carrier family 5 (choline transporter),	328	Helical; (Potential).				acetylcholine biosynthetic process|neurotransmitter secretion	integral to membrane|plasma membrane	choline:sodium symporter activity			ovary(2)|central_nervous_system(1)|skin(1)	4					Choline(DB00122)	CAGTATCTCTGCCCTGTGTAT	0.443													56	81					6.4308e-24	6.96879e-24	1	1	0		T	108625008	T	T	108625008	3	4	155	1	0	0	0	0	1	0	0	0	14695	1319	46	5	1009	5	SLC5A7	2	108625008	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5302674	108625008	134574365	224	84051											
ZC3H6	376940	broad.mit.edu	37	chr2	113081979	113081979	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaattgtaggtcctcaaaatCaagctggagtgcttgttcaa	13	12	9	7	0	3	0	3	0	0	0	4	1	4	1	1	2	2	4	1	2	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:113081979C>T	uc002thq.1	+	10	1985	c.1591C>T	c.(1591-1593)CAA>TAA	p.Q531*		NM_198581	NP_940983	P61129	ZC3H6_HUMAN	zinc finger CCCH-type domain containing 6	531	Pro-rich.						nucleic acid binding|zinc ion binding			ovary(3)|central_nervous_system(1)	4						TCCTCAAAATCAAGCTGGAGT	0.532													22	31					0	0	1	0	0		T	113081979	T	T	113081979	4	4	155	1	0	0	0	0	0	1	0	0	17596	827	29	4	1629	4	ZC3H6	2	113081979	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4456971	113081979	130117394	225	84052											
IL1RN	3557	broad.mit.edu	37	chr2	113877668	113877668	+	Silent	SNP	A	T	T	1	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	ttgtatgaagaaggaggtggAggaggaggagaaggtgaaga	15	6	20	0	0	0	5	0	2	0	3	0	10	0	9	0	7	0	1	0	7	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:113877668A>T	uc002tiz.2	+	2	162	c.36A>T	c.(34-36)GGA>GGT	p.G12G	IL1RN_uc002tix.1_RNA|IL1RN_uc002tiy.2_Intron|IL1RN_uc002tja.2_Intron	NM_173841	NP_776213	P18510	IL1RA_HUMAN	interleukin 1 receptor antagonist isoform 2	Error:Variant_position_missing_in_P18510_after_alignment					immune response|inflammatory response|response to glucocorticoid stimulus	centrosome|extracellular space|nucleus|plasma membrane	cytokine activity|interleukin-1 receptor antagonist activity			skin(2)	2					Anakinra(DB00026)	aAGGAGGTGGAGGAGGAGGAG	0.209									Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				13	70					0	0	1	0	0		T	113877668	T	T	113877668	2	4	155	1	0	0	0	0	0	0	0	1	7681	291	11	5		5	IL1RN	2	113877668	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	795689	113877668	129321705	226	84053											
ERCC3	2071	broad.mit.edu	37	chr2	128015230	128015230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgggcgccttgctccgcGatgagtggtactccatgtac	5	11	13	12	3	0	1	0	1	0	0	2	2	2	1	3	2	4	4	3	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:128015230G>A	uc002toh.1	-	15	2386	c.2291C>T	c.(2290-2292)TCG>TTG	p.S764L	ERCC3_uc002toe.1_Missense_Mutation_p.S519L|ERCC3_uc002tof.1_Missense_Mutation_p.S700L|ERCC3_uc002tog.1_Missense_Mutation_p.S700L	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	764					cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		CTTGCTCCGCGATGAGTGGTA	0.582			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				56	90					0	0	1	0	0		A	128015230	A	A	128015230	3	1	155	1	0	0	0	0	1	0	0	0	5222	1059	37	1	61	1	ERCC3	2	128015230	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	14137562	128015230	115184143	227	84054											
MAP3K2	10746	broad.mit.edu	37	chr2	128096511	128096511	+	Frame_Shift_Del	DEL	T	-	-																															cttattaaaataaatacctgTttttttggtgatgaagattt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:128096511delT	uc002toj.1	-	2	185	c.120delA	c.(118-120)AAAfs	p.K40fs	MAP3K2_uc010flz.1_Frame_Shift_Del_p.K40fs	NM_006609	NP_006600	Q9Y2U5	M3K2_HUMAN	mitogen-activated protein kinase kinase kinase	40					activation of JUN kinase activity|cellular response to mechanical stimulus	nucleus	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein kinase binding			lung(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0706)		TAAATACCTGTTTTTTTGGTG	0.333													15	10	---	---	---	---						.	-	128096511	-	-	128096511	7	5	155	1	0	1	0	1	0	0	0	0	9268	1722	60	0	1799	0	MAP3K2	2	128096511	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	81281	128096511	115102862	228	84055											
TUBA3E	112714	broad.mit.edu	37	chr2	130951418	130951418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgcttggtcttgatggtggCgatggccgcattgacgtctt	4	13	15	9	4	2	2	0	2	2	0	2	3	2	2	1	4	0	2	1	4	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:130951418C>T	uc002tqv.2	-	4	1098	c.997G>A	c.(997-999)GCC>ACC	p.A333T		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	333					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					TTGATGGTGGCGATGGCCGCA	0.547													49	68					0	0	1	0	0		T	130951418	T	T	130951418	3	4	155	1	0	0	0	0	1	0	0	0	16774	768	27	1	363	1	TUBA3E	2	130951418	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2854907	130951418	112247955	229	84056											
ARHGEF4	50649	broad.mit.edu	37	chr2	131798826	131798826	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgacttccagatctactcGgagtactgcaataaccaccc	11	8	7	15	2	1	1	0	0	1	1	3	3	2	2	4	1	4	2	4	1	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:131798826G>A	uc002tsa.1	+	9	1648	c.1128G>A	c.(1126-1128)TCG>TCA	p.S376S	ARHGEF4_uc010fmw.1_Intron|ARHGEF4_uc002tsb.1_Silent_p.S376S|ARHGEF4_uc010fmx.1_Silent_p.S316S|ARHGEF4_uc002tsc.1_5'UTR	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	376	DH.				apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		AGATCTACTCGGAGTACTGCA	0.592													7	149					0	0	1	0	0		A	131798826	A	A	131798826	2	1	155	1	0	0	0	0	0	0	0	1	908	1103	39	1		1	ARHGEF4	2	131798826	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	847408	131798826	111400547	230	84057											
ARHGEF4	50649	broad.mit.edu	37	chr2	131803637	131803637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccggccctgctacctgacgCgccagaagcacccagccctg	7	4	11	19	3	0	2	0	1	0	1	0	2	0	2	6	1	4	2	6	1	2	1	rs61758709	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:131803637C>T	uc002tsa.1	+	14	2468	c.1948C>T	c.(1948-1950)CGC>TGC	p.R650C	ARHGEF4_uc010fmw.1_Missense_Mutation_p.R798C|ARHGEF4_uc002tsb.1_3'UTR|ARHGEF4_uc010fmx.1_Missense_Mutation_p.R590C|ARHGEF4_uc002tsc.1_Missense_Mutation_p.R193C	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	650					apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		CTACCTGACGCGCCAGAAGCA	0.667													12	89					0	0	1	0	0		T	131803637	T	T	131803637	3	4	155	1	0	0	0	0	1	0	0	0	908	768	27	1	2086	1	ARHGEF4	2	131803637	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4811	131803637	111395736	231	84058											
MGAT5	4249	broad.mit.edu	37	chr2	135107386	135107386	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctttcaggtgcatgctcCgagtccttgattcatttggt	5	18	9	9	1	3	1	2	1	1	0	5	2	5	1	2	2	2	2	2	2	0	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:135107386C>T	uc002ttv.1	+	9	1268	c.1123C>T	c.(1123-1125)CGA>TGA	p.R375*		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	375	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		GTGCATGCTCCGAGTCCTTGA	0.423													6	264					0	0	1	0	0		T	135107386	T	T	135107386	4	4	155	1	0	0	0	0	0	1	0	0	9566	644	23	1	1157	1	MGAT5	2	135107386	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3303749	135107386	108091987	232	84059											
LCT	3938	broad.mit.edu	37	chr2	136546022	136546022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcacaagagaaaagagaaCgtacaaagctgtctgtgctt	17	7	10	7	1	1	2	0	0	1	2	1	4	1	2	0	0	5	4	0	0	7	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:136546022C>T	uc002tuu.1	-	17	5667	c.5656G>A	c.(5656-5658)GTT>ATT	p.V1886I		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1886	Helical; (Potential).				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GAAAAGAGAACGTACAAAGCT	0.517													12	276					0	0	1	0	0		T	136546022	T	T	136546022	3	4	155	1	0	0	0	0	1	0	0	0	8709	536	19	1	131	1	LCT	2	136546022	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1438636	136546022	106653351	233	84060											
LRP1B	53353	broad.mit.edu	37	chr2	140990876	140990876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatataattttgcatataccGgattggagtaatttgttggc	11	17	9	4	1	0	0	0	0	0	0	0	2	0	2	1	3	2	3	1	3	6	11	rs151022058		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:140990876G>A	uc002tvj.1	-	91	14651	c.13679C>T	c.(13678-13680)CCG>CTG	p.P4560L		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4560	Endocytosis signal (Potential).|Cytoplasmic (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGCATATACCGGATTGGAGTA	0.333										TSP Lung(27;0.18)			58	67					0	0	1	0	0		A	140990876	A	A	140990876	3	1	155	1	0	0	0	0	1	0	0	0	8973	1116	39	1	124	1	LRP1B	2	140990876	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4444854	140990876	102208497	234	84061											
LRP1B	53353	broad.mit.edu	37	chr2	141806673	141806673	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaaagtctaaagcacgaggGtttaccagattttctatggg	12	12	11	6	1	2	2	0	1	2	1	2	3	2	2	1	2	2	2	1	2	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:141806673G>T	uc002tvj.1	-	11	2643	c.1671C>A	c.(1669-1671)AAC>AAA	p.N557K	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	557	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AAGCACGAGGGTTTACCAGAT	0.438										TSP Lung(27;0.18)			9	401					3.07112e-06	3.16389e-06	1	1	0		T	141806673	T	T	141806673	3	4	155	1	0	0	0	0	1	0	0	0	8973	1252	44	5	12452	5	LRP1B	2	141806673	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	815797	141806673	101392700	235	84062											
MBD5	55777	broad.mit.edu	37	chr2	149226053	149226053	+	Silent	SNP	C	T	T	0	0	0	1	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	catcaaatgccatgggaaggCtatatgtacaagaactgcct	14	9	9	9	0	1	1	1	0	0	1	1	2	1	2	2	2	4	2	2	2	7	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:149226053C>T	uc002twm.3	+	9	1529	c.541C>T	c.(541-543)CTA>TTA	p.L181L	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Silent_p.L181L|MBD5_uc002twn.1_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	181						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		CATGGGAAGGCTATATGTACA	0.413													6	131					0	0	1	0	0		T	149226053	T	T	149226053	2	4	155	1	0	0	0	0	0	0	0	1	9365	796	28	2		2	MBD5	2	149226053	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	7419380	149226053	93973320	236	84063											
KIF5C	3800	broad.mit.edu	37	chr2	149861973	149861973	+	Frame_Shift_Del	DEL	A	-	-																															aggatctgaccacccgagttAaaaaagtgagttctctttgt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:149861973delA	uc010zbu.1	+	22	2808	c.2440delA	c.(2440-2442)AAAfs	p.K814fs	KIF5C_uc002tws.1_RNA|KIF5C_uc002twu.1_Frame_Shift_Del_p.K96fs	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	814					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		CACCCGAGTTAAAAAAGTGAG	0.423													22	34	---	---	---	---						.	-	149861973	-	-	149861973	7	5	155	1	0	1	0	1	0	0	0	0	8323	363	13	0	2448	0	KIF5C	2	149861973	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	635920	149861973	93337400	237	84064											
RIF1	55183	broad.mit.edu	37	chr2	152319553	152319553	+	Frame_Shift_Del	DEL	A	-	-																															aacagtaataatgatgaaagAaaaaaagctttaatttcatc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:152319553delA	uc002txm.2	+	30	3649	c.3519delA	c.(3517-3519)AGAfs	p.R1173fs	RIF1_uc002txl.2_Frame_Shift_Del_p.R1173fs|RIF1_uc002txn.2_Frame_Shift_Del_p.R1173fs|RIF1_uc002txo.2_Frame_Shift_Del_p.R1173fs|RIF1_uc002txp.2_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1173					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		ATGATGAAAGAAAAAAAGCTT	0.353													41	86	---	---	---	---						.	-	152319553	-	-	152319553	7	5	155	1	0	1	0	1	0	0	0	0	13384	243	9	0	3633	0	RIF1	2	152319553	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	2457580	152319553	90879820	238	84065											
KCNJ3	3760	broad.mit.edu	37	chr2	155566208	155566208	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagatcaactttttcttgtgTcccccctcacaatttgccac	8	14	4	15	0	3	1	2	0	1	1	4	1	4	1	4	0	2	0	4	0	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:155566208T>C	uc002tyv.1	+	2	991	c.796T>C	c.(796-798)TCC>CCC	p.S266P	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	266	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	TTTTCTTGTGTCCCCCCTCAC	0.488													42	106					0	0	1	0	0		C	155566208	C	C	155566208	3	2	155	1	0	0	0	0	1	0	0	0	8068	1667	58	3	802	3	KCNJ3	2	155566208	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3246655	155566208	87633165	239	84066											
PKP4	8502	broad.mit.edu	37	chr2	159481795	159481795	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaggccaggtggggtcgtcgTcccccaaacgctcagggatg	8	6	15	12	3	1	0	1	0	0	0	4	1	2	1	3	5	1	1	3	5	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:159481795T>C	uc002tzv.2	+	7	1269	c.1009T>C	c.(1009-1011)TCC>CCC	p.S337P	PKP4_uc002tzt.1_Missense_Mutation_p.S189P|PKP4_uc002tzu.2_Missense_Mutation_p.S337P|PKP4_uc002tzw.2_Missense_Mutation_p.S337P|PKP4_uc002tzx.2_5'UTR|PKP4_uc002tzy.1_5'UTR|PKP4_uc002tzz.1_Missense_Mutation_p.S335P|PKP4_uc002uaa.2_Missense_Mutation_p.S189P	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	337					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						GGGGTCGTCGTCCCCCAAACG	0.587										HNSCC(62;0.18)			9	48					0	0	1	0	0		C	159481795	C	C	159481795	3	2	155	1	0	0	0	0	1	0	0	0	12006	1667	58	3	1031	3	PKP4	2	159481795	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3915587	159481795	83717578	240	84067											
BAZ2B	29994	broad.mit.edu	37	chr2	160181408	160181408	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggaacaagtttcaagttTacaggaagtagaaaaggcca	17	7	10	7	0	1	1	1	0	0	1	1	3	1	3	2	3	2	3	2	3	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:160181408T>C	uc002uao.2	-	36	6619	c.6267A>G	c.(6265-6267)GTA>GTG	p.V2089V	BAZ2B_uc002uap.2_Silent_p.V2053V	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	2089	Bromo.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						GTTTCAAGTTTACAGGAAGTA	0.323													47	106					0	0	1	0	0		C	160181408	C	C	160181408	2	2	155	1	0	0	0	0	0	0	0	1	1333	1741	61	3		3	BAZ2B	2	160181408	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	699613	160181408	83017965	241	84068											
RBMS1	5937	broad.mit.edu	37	chr2	161223762	161223762	+	Silent	SNP	G	A	A	0	0	1	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	accaggtcctggtcggtggtGtggggaggcagtcctcggat	5	9	18	9	2	0	0	0	0	0	0	4	2	2	2	3	8	0	1	3	8	0	0	rs147917487	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:161223762G>A	uc002ubo.2	-	2	660	c.216C>T	c.(214-216)CAC>CAT	p.H72H	RBMS1_uc002ubj.2_Silent_p.H39H|RBMS1_uc002ubk.2_Silent_p.H39H|RBMS1_uc002ubl.2_Silent_p.H70H|RBMS1_uc002ubn.2_Silent_p.H72H|RBMS1_uc002ubi.3_Silent_p.H72H|RBMS1_uc002ubm.2_Silent_p.H39H|RBMS1_uc002ubp.2_Silent_p.H72H|RBMS1_uc010fox.2_Silent_p.H72H	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	72	RRM 1.				DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						GGTCGGTGGTGTGGGGAGGCA	0.353													18	114					0	0	1	0	0		A	161223762	A	A	161223762	2	1	155	1	0	0	0	0	0	0	0	1	13173	1368	48	4		4	RBMS1	2	161223762	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1042354	161223762	81975611	242	84069											
GRB14	2888	broad.mit.edu	37	chr2	165353779	165353779	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaccgtgagtgcccaggcgTaaacatccttttttctgagc	8	12	9	12	2	1	2	0	2	1	0	2	2	2	2	3	1	4	1	3	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:165353779T>C	uc002ucl.2	-	11	1777	c.1236A>G	c.(1234-1236)TTA>TTG	p.L412L	GRB14_uc010zcv.1_Silent_p.L325L|GRB14_uc002ucm.2_RNA	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14	412					blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						TGCCCAGGCGTAAACATCCTT	0.423													71	98					0	0	1	0	0		C	165353779	C	C	165353779	2	2	155	1	0	0	0	0	0	0	0	1	6773	1635	57	3		3	GRB14	2	165353779	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	4130017	165353779	77845594	243	84070											
SCN3A	6328	broad.mit.edu	37	chr2	165997164	165997165	+	Frame_Shift_Ins	INS	-	G	G																															ggtcatctattatcacctctINSgggggaagttgtccagtagg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:165997164_165997165insG	uc002ucx.2	-	13	2507_2508	c.2015_2016insC	c.(2014-2016)CCAfs	p.P672fs	SCN3A_uc002ucy.2_Intron|SCN3A_uc002ucz.2_Intron|SCN3A_uc002uda.1_Intron|SCN3A_uc002udb.1_Intron	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	672						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TTATCACCTCTGGGGGAAGTTG	0.475													32	49	---	---	---	---						.	G	165997165	G	G	165997164	7	5	155	1	0	1	1	0	0	0	0	0	13943	1567	55	0	4050	0	SCN3A	2	165997164	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	643385	165997164	77202209	244	84071											
SCN9A	6335	broad.mit.edu	37	chr2	167055359	167055359	+	Frame_Shift_Del	DEL	T	-	-																															acattatcaaaagccatatcTtttttattgagtaaatcatc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:167055359delT	uc010fpl.2	-	27	6098	c.5757delA	c.(5755-5757)AAAfs	p.K1919fs	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1930						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	AAGCCATATCTTTTTTATTGA	0.348													30	52	---	---	---	---						.	-	167055359	-	-	167055359	7	5	155	1	0	1	0	1	0	0	0	0	13950	1606	56	0	180	0	SCN9A	2	167055359	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	1058195	167055359	76144014	245	84072											
XIRP2	129446	broad.mit.edu	37	chr2	168098309	168098309	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgatacacctgaggatgaAgagattccaaaggtttcgac	14	10	10	7	1	0	4	0	3	0	1	2	7	1	5	2	2	1	1	2	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:168098309A>G	uc002udx.2	+	7	1083	c.1065A>G	c.(1063-1065)GAA>GAG	p.E355E	XIRP2_uc010fpn.2_Silent_p.E388E|XIRP2_uc010fpo.2_Silent_p.E355E|XIRP2_uc010fpp.2_Silent_p.E355E|XIRP2_uc002udy.2_Silent_p.E180E|XIRP2_uc010fpq.2_Silent_p.E133E|XIRP2_uc010fpr.2_Silent_p.E133E	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	180					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CTGAGGATGAAGAGATTCCAA	0.333													4	192					0	0	1	0	0		G	168098309	G	G	168098309	2	3	155	1	0	0	0	0	0	0	0	1	17456	69	3	3		3	XIRP2	2	168098309	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1042950	168098309	75101064	246	84073											
XIRP2	129446	broad.mit.edu	37	chr2	168106521	168106521	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaattttcagcaaacacaAatacagaccgctgaaagtaa	19	7	6	9	1	1	3	1	1	0	2	1	3	1	3	1	0	3	3	1	0	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:168106521A>G	uc002udx.2	+	8	8637	c.8619A>G	c.(8617-8619)CAA>CAG	p.Q2873Q	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.Q2698Q|XIRP2_uc010fpq.2_Silent_p.Q2651Q|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Silent_p.Q219Q	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2698					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGCAAACACAAATACAGACCG	0.393													57	131					0	0	1	0	0		G	168106521	G	G	168106521	2	3	155	1	0	0	0	0	0	0	0	1	17456	11	1	3		3	XIRP2	2	168106521	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	8212	168106521	75092852	247	84074											
LRP2	4036	broad.mit.edu	37	chr2	170097542	170097542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattggggcagtcaaagatgCcatcacacactacactcaga	14	7	8	12	0	3	2	3	0	0	2	3	2	3	2	1	2	2	1	1	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:170097542C>T	uc002ues.2	-	25	4214	c.4001G>A	c.(4000-4002)GGC>GAC	p.G1334D	LRP2_uc010zdf.1_Missense_Mutation_p.G1197D	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1334	LDL-receptor class A 15.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTCAAAGATGCCATCACACAC	0.493													8	150					0	0	1	0	0		T	170097542	T	T	170097542	3	4	155	1	0	0	0	0	1	0	0	0	8974	739	26	2	10186	2	LRP2	2	170097542	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1991021	170097542	73101831	248	84075											
FASTKD1	79675	broad.mit.edu	37	chr2	170417153	170417153	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataacgatatctaacatttcGaagaaactttgctatgcttt	14	15	5	7	2	1	1	0	0	1	1	2	3	1	1	0	0	5	2	0	0	6	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:170417153G>A	uc002uev.3	-	5	1103	c.715C>T	c.(715-717)CGA>TGA	p.R239*	FASTKD1_uc002uew.3_RNA|FASTKD1_uc002uex.3_Nonsense_Mutation_p.R225*|FASTKD1_uc002uey.2_Nonsense_Mutation_p.R202*	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	239					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						CTAACATTTCGAAGAAACTTT	0.333													26	69					0	0	1	0	0		A	170417153	A	A	170417153	4	1	155	1	0	0	0	0	0	1	0	0	5699	1066	37	1	1872	1	FASTKD1	2	170417153	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	319611	170417153	72782220	249	84076											
UBR3	130507	broad.mit.edu	37	chr2	170897447	170897447	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctttatcatgatgtaacaTcccttttgctcatccagatc	9	17	4	11	0	3	2	2	1	1	1	6	2	5	2	2	0	2	2	2	0	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:170897447T>C	uc010zdi.1	+	32	4612	c.4612T>C	c.(4612-4614)TCC>CCC	p.S1538P	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_Missense_Mutation_p.S359P|UBR3_uc002uft.3_Missense_Mutation_p.S395P|UBR3_uc010zdj.1_Missense_Mutation_p.S229P|UBR3_uc002ufu.3_Missense_Mutation_p.S44P	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1538					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						TGATGTAACATCCCTTTTGCT	0.323													5	121					0	0	1	0	0		C	170897447	C	C	170897447	3	2	155	1	0	0	0	0	1	0	0	0	16929	1435	50	3	4738	3	UBR3	2	170897447	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	480294	170897447	72301926	250	84077											
TTN	7273	broad.mit.edu	37	chr2	179411522	179411522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctcactgactggcttacGctctatgatgtagcccacaa	10	11	7	13	1	2	2	1	2	1	0	2	2	2	2	2	1	3	3	2	1	5	4	rs145099448	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179411522G>A	uc010zfg.1	-	290	87153	c.86929C>T	c.(86929-86931)CGT>TGT	p.R28977C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22672C|TTN_uc010zfi.1_Missense_Mutation_p.R22605C|TTN_uc010zfj.1_Missense_Mutation_p.R22480C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29904							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTGGCTTACGCTCTATGATG	0.498													8	92					0	0	1	0	0		A	179411522	A	A	179411522	3	1	155	1	0	0	0	0	1	0	0	0	16761	1087	38	1	13434	1	TTN	2	179411522	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	8514075	179411522	63787851	251	84078											
TTN	7273	broad.mit.edu	37	chr2	179441417	179441417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttattgctctcacccatCgcaggcttttcttttctctc	4	20	4	13	1	3	0	1	0	3	0	7	0	3	0	1	1	1	3	1	1	1	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179441417C>T	uc010zfg.1	-	274	62074	c.61850G>A	c.(61849-61851)CGA>CAA	p.R20617Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R14312Q|TTN_uc010zfi.1_Missense_Mutation_p.R14245Q|TTN_uc010zfj.1_Missense_Mutation_p.R14120Q|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21544							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTCACCCATCGCAGGCTTTT	0.463													31	374					0	0	1	0	0		T	179441417	T	T	179441417	3	4	155	1	0	0	0	0	1	0	0	0	16761	884	31	1	38577	1	TTN	2	179441417	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	29895	179441417	63757956	252	84079											
TTN	7273	broad.mit.edu	37	chr2	179590542	179590542	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatcacttcccacttcattcTgtgctttgcagtggtattca	7	17	6	11	0	4	0	3	0	1	0	5	0	5	0	1	1	2	3	1	1	2	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179590542T>C	uc010zfg.1	-	67	16999	c.16775A>G	c.(16774-16776)CAG>CGG	p.Q5592R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q2253R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6519							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACTTCATTCTGTGCTTTGCA	0.373													63	111					0	0	1	0	0		C	179590542	C	C	179590542	3	2	155	1	0	0	0	0	1	0	0	0	16761	1580	55	3	84194	3	TTN	2	179590542	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	149125	179590542	63608831	253	84080											
TTN	7273	broad.mit.edu	37	chr2	179590718	179590718	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcacattcaagactgacTtcagcatttttaagggtttc	11	15	7	8	0	3	2	3	1	0	1	4	2	3	2	0	1	1	3	0	1	2	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179590718T>C	uc010zfg.1	-	67	16823	c.16599A>G	c.(16597-16599)GAA>GAG	p.E5533E	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.E2194E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6460							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAAGACTGACTTCAGCATTTT	0.413													51	53					0	0	1	0	0		C	179590718	C	C	179590718	2	2	155	1	0	0	0	0	0	0	0	1	16761	1606	56	3		3	TTN	2	179590718	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	176	179590718	63608655	254	84081											
TTN	7273	broad.mit.edu	37	chr2	179612257	179612257	+	Missense_Mutation	SNP	T	G	G																															aaagtggacgacctagtgatTcctgtttctggttgtagtat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179612257T>G	uc002unb.2	-	46	15094	c.14870A>C	c.(14869-14871)GAA>GCA	p.E4957A	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCTAGTGATTCCTGTTTCTG	0.418													89	148					0	0	1	0	0		G	179612257	G	G	179612257	3	3	155	1	0	0	0	0	1	0	0	0	16761	1783	62	5	95427	5	TTN	2	179612257	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	21539	179612257	63587116	255	84082	158	2									
TTN	7273	broad.mit.edu	37	chr2	179612262	179612262	+	Missense_Mutation	SNP	T	A	A																															ggacgacctagtgattcctgTttctggttgtagtattcata																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179612262T>A	uc002unb.2	-	46	15089	c.14865A>T	c.(14863-14865)AAA>AAT	p.K4955N	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGATTCCTGTTTCTGGTTGT	0.413													89	148					0	0	1	0	0		A	179612262	A	A	179612262	3	1	155	1	0	0	0	0	1	0	0	0	16761	1722	60	5	95432	5	TTN	2	179612262	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	5	179612262	63587111	256	84083	158	2									
TTN	7273	broad.mit.edu	37	chr2	179615191	179615191	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggattggcatgtcattgTtataccacgtcactataggt	9	14	11	7	1	2	0	2	0	0	0	2	1	2	1	1	3	1	2	1	3	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179615191T>A	uc002unb.2	-	46	12160	c.11936A>T	c.(11935-11937)AAC>ATC	p.N3979I	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATGTCATTGTTATACCACGT	0.328													72	118					0	0	1	0	0		A	179615191	A	A	179615191	3	1	155	1	0	0	0	0	1	0	0	0	16761	1725	60	5	98361	5	TTN	2	179615191	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2929	179615191	63584182	257	84084											
TTN	7273	broad.mit.edu	37	chr2	179621109	179621109	+	Silent	SNP	T	A	A	0	1	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	ctctcggattcctctatcttTgcaccttcgtgagtccaggt	5	15	8	13	2	3	1	0	1	3	0	7	2	5	2	3	2	1	1	3	2	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179621109T>A	uc010zfh.1	-	44	10805	c.10581A>T	c.(10579-10581)GCA>GCT	p.A3527A	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTCTATCTTTGCACCTTCGT	0.403													60	72					0	0	1	0	0		A	179621109	A	A	179621109	2	1	155	1	0	0	0	0	0	0	0	1	16761	1799	63	5		5	TTN	2	179621109	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	5918	179621109	63578264	258	84085											
TTN	7273	broad.mit.edu	37	chr2	179669352	179669352	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaacggctgcgtaaacgtCggtgcttgagttgtcatctt	7	14	12	8	4	2	1	1	1	1	0	3	1	2	1	0	2	4	5	0	2	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179669352C>T	uc002und.2	-	2	243	c.18G>A	c.(16-18)CCG>CCA	p.P6P	TTN_uc010zfg.1_Silent_p.P6P|TTN_uc010zfh.1_Silent_p.P6P|TTN_uc010zfi.1_Silent_p.P6P|TTN_uc010zfj.1_Silent_p.P6P|TTN_uc002unb.2_Silent_p.P6P			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	6							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCGTAAACGTCGGTGCTTGAG	0.463													38	59					0	0	1	0	0		T	179669352	T	T	179669352	2	4	155	1	0	0	0	0	0	0	0	1	16761	871	31	1		1	TTN	2	179669352	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	48243	179669352	63530021	259	84086											
SESTD1	91404	broad.mit.edu	37	chr2	179986628	179986628	+	Frame_Shift_Del	DEL	T	-	-																															tgatccaggagaccttgaccTttttcacgcaaaccttgcaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:179986628delT	uc002uni.3	-	13	1461	c.1311delA	c.(1309-1311)AAAfs	p.K437fs	SESTD1_uc002unh.3_5'UTR	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	437	Spectrin 2.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			GACCTTGACCTTTTTCACGCA	0.418													58	98	---	---	---	---						.	-	179986628	-	-	179986628	7	5	155	1	0	1	0	1	0	0	0	0	14152	1606	56	0	803	0	SESTD1	2	179986628	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	317276	179986628	63212745	260	84087											
CWC22	57703	broad.mit.edu	37	chr2	180823790	180823790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattttcagcaatttgtgagCacattcttcaaaatctaaac	14	14	4	9	0	4	1	2	1	2	0	4	1	4	1	0	0	3	2	0	0	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:180823790C>T	uc010frh.1	-	14	1717	c.1417G>A	c.(1417-1419)GCT>ACT	p.A473T	CWC22_uc002uno.2_5'UTR|CWC22_uc002unp.2_Missense_Mutation_p.A473T	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	473	MI.					catalytic step 2 spliceosome	protein binding|RNA binding				0						AATTTGTGAGCACATTCTTCA	0.299													3	16					0	0	1	0	0		T	180823790	T	T	180823790	3	4	155	1	0	0	0	0	1	0	0	0	4071	710	25	2	1337	2	CWC22	2	180823790	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	837162	180823790	62375583	261	84088											
ZC3H15	55854	broad.mit.edu	37	chr2	187373387	187373387	+	Missense_Mutation	SNP	A	G	G	1	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	cattgatgctgttcctgttgAtgaaaatcttttcactggag	9	16	9	7	0	2	3	1	3	1	0	3	4	3	4	1	1	1	3	1	1	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:187373387A>G	uc002upo.2	+	10	1433	c.1208A>G	c.(1207-1209)GAT>GGT	p.D403G		NM_018471	NP_060941	Q8WU90	ZC3HF_HUMAN	erythropoietin 4 immediate early response	403						cytoplasm|nucleolus|plasma membrane	nucleic acid binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Epithelial(96;0.0922)|all cancers(119;0.233)			GTTCCTGTTGATGAAAATCTT	0.403													4	88					0	0	1	0	0		G	187373387	G	G	187373387	3	3	155	1	0	0	0	0	1	0	0	0	17592	333	12	3	1246	3	ZC3H15	2	187373387	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	6549597	187373387	55825986	262	84089											
FAM171B	165215	broad.mit.edu	37	chr2	187605148	187605148	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgcttacaaagatggctaCgtgttgacccctctgccttg	8	13	9	11	1	1	2	0	1	1	1	1	2	1	2	3	1	4	3	3	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:187605148C>T	uc002ups.2	+	2	544	c.432C>T	c.(430-432)TAC>TAT	p.Y144Y	FAM171B_uc002upr.1_Silent_p.Y144Y	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	144	Extracellular (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						AAGATGGCTACGTGTTGACCC	0.338													10	101					0	0	1	0	0		T	187605148	T	T	187605148	2	4	155	1	0	0	0	0	0	0	0	1	5502	547	19	1		1	FAM171B	2	187605148	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	231761	187605148	55594225	263	84090											
GTF3C3	9330	broad.mit.edu	37	chr2	197629314	197629314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacaataggtatacaaaagCgtttgagccattccggtatt	14	11	9	7	2	0	1	0	1	0	0	1	2	1	1	2	2	4	3	2	2	8	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:197629314C>T	uc002uts.2	-	18	2724	c.2634G>A	c.(2632-2634)ACG>ACA	p.T878T	GTF3C3_uc010zgu.1_Silent_p.T849T	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	878						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						TATACAAAAGCGTTTGAGCCA	0.443													64	85					0	0	1	0	0		T	197629314	T	T	197629314	2	4	155	1	0	0	0	0	0	0	0	1	6890	755	27	1		1	GTF3C3	2	197629314	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	10024166	197629314	45570059	264	84091											
PLCL1	5334	broad.mit.edu	37	chr2	198966086	198966086	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacagtgtcagaaagcaggTaattgtttttaatttttttt	11	19	8	3	0	1	1	1	0	0	1	1	1	1	1	0	1	2	4	0	1	4	10			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:198966086T>A	uc010fsp.2	+	4	3286	c.2995_splice	c.e4+2	p.G999_splice	PLCL1_uc002uuv.3_Splice_Site_p.G920_splice	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;						intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	AGAAAGCAGGTAAttgttttt	0.274													49	64					0	0	1	0	0		A	198966086	A	A	198966086	5	1	155	1	0	0	0	0	0	0	1	0	12058	1652	57	5	3011	5	PLCL1	2	198966086	Splice_Site	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1336772	198966086	44233287	265	84092											
AOX1	316	broad.mit.edu	37	chr2	201469483	201469483	+	Frame_Shift_Del	DEL	C	-	-																															tgagagaatgatgtggttttCccccgtgaccctgaaggaac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:201469483delC	uc002uvx.2	+	9	835	c.734delC	c.(733-735)TCCfs	p.S245fs		NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	245	FAD-binding PCMH-type.				inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	ATGTGGTTTTCCCCCGTGACC	0.463													87	110	---	---	---	---						.	-	201469483	-	-	201469483	7	5	155	1	0	1	0	1	0	0	0	0	729	855	30	0	768	0	AOX1	2	201469483	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	2503397	201469483	41729890	266	84093											
AOX1	316	broad.mit.edu	37	chr2	201477410	201477410	+	Frame_Shift_Del	DEL	T	-	-																															tcaattcaggaatgagagtcTtttttggagaaggggatggc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:201477410delT	uc002uvx.2	+	14	1443	c.1342delT	c.(1342-1344)TTTfs	p.F448fs	AOX1_uc010zhf.1_Frame_Shift_Del_p.F4fs|AOX1_uc010fsu.2_5'UTR	NM_001159	NP_001150	Q06278	ADO_HUMAN	aldehyde oxidase 1	448					inflammatory response|reactive oxygen species metabolic process	cytoplasm	2 iron, 2 sulfur cluster binding|aldehyde oxidase activity|flavin adenine dinucleotide binding|iron ion binding|NAD binding|xanthine dehydrogenase activity			ovary(4)|pancreas(1)|skin(1)	6					Brimonidine(DB00484)|Chlorpromazine(DB00477)|Famciclovir(DB00426)|Menadione(DB00170)|Methotrexate(DB00563)|NADH(DB00157)|Palonosetron(DB00377)|Penciclovir(DB00299)|Raloxifene(DB00481)|Zaleplon(DB00962)|Zonisamide(DB00909)	AATGAGAGTCTTTTTTGGAGA	0.473													65	108	---	---	---	---						.	-	201477410	-	-	201477410	7	5	155	1	0	1	0	1	0	0	0	0	729	1609	56	0	1396	0	AOX1	2	201477410	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	7927	201477410	41721963	267	84094											
ORC2L	4999	broad.mit.edu	37	chr2	201798663	201798663	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttaaaacttttgaactgCtgtgagcttcaaaatattct	13	15	7	6	0	2	2	1	2	1	0	2	2	2	2	0	1	4	3	0	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:201798663C>A	uc002uwr.2	-	10	1000	c.743G>T	c.(742-744)AGC>ATC	p.S248I	ORC2L_uc010zhj.1_Missense_Mutation_p.S248I	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	248					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0						TTTTGAACTGCTGTGAGCTTC	0.338													6	180					0.217242	0.217503	1	1	0		A	201798663	A	A	201798663	3	1	155	1	0	0	0	0	1	0	0	0	11281	797	28	5	1026	5	ORC2L	2	201798663	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	321253	201798663	41400710	268	84095											
MPP4	58538	broad.mit.edu	37	chr2	202552029	202552029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccttgaagtgtggagcCtggagcatttgtctcagctc	6	13	12	10	0	1	1	1	1	1	0	3	3	1	3	2	2	4	2	2	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:202552029C>A	uc002uyk.3	-	5	553	c.345G>T	c.(343-345)CAG>CAT	p.Q115H	MPP4_uc010ftj.2_Missense_Mutation_p.Q115H|MPP4_uc010zhq.1_Missense_Mutation_p.Q115H|MPP4_uc010zhr.1_Missense_Mutation_p.Q115H|MPP4_uc010zhs.1_Missense_Mutation_p.Q115H|MPP4_uc002uyj.3_Missense_Mutation_p.Q115H|MPP4_uc010zht.1_Intron|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.Q115H|MPP4_uc002uym.1_Missense_Mutation_p.Q128H|MPP4_uc002uyn.2_Missense_Mutation_p.Q115H	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	115	L27 2.					cytoplasm	protein binding				0						AGTGTGGAGCCTGGAGCATTT	0.413													6	6					0.0215528	0.021748	1	1	0		A	202552029	A	A	202552029	3	1	155	1	0	0	0	0	1	0	0	0	9754	680	24	5	1640	5	MPP4	2	202552029	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	753366	202552029	40647344	269	84096											
ALS2	57679	broad.mit.edu	37	chr2	202622177	202622177	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgactgcctccctctgtttcTtcttctctgatatccacaag	6	15	5	15	1	4	1	0	1	4	0	7	2	6	1	3	0	1	1	3	0	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:202622177T>C	uc002uyo.2	-	5	1775	c.1419A>G	c.(1417-1419)GAA>GAG	p.E473E	ALS2_uc002uyp.3_Silent_p.E473E|ALS2_uc002uyq.2_Silent_p.E473E	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	473					cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						CCTCTGTTTCTTCTTCTCTGA	0.438													8	175					0	0	1	0	0		C	202622177	C	C	202622177	2	2	155	1	0	0	0	0	0	0	0	1	550	1606	56	3		3	ALS2	2	202622177	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	70148	202622177	40577196	270	84097											
ABI2	10152	broad.mit.edu	37	chr2	204255835	204255835	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaactcagaagccccctAgtccccctatgtcagggaaa	11	7	7	16	0	2	1	2	0	0	1	4	2	4	2	5	1	2	0	5	1	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:204255835A>G	uc002vaa.2	+	5	782	c.547A>G	c.(547-549)AGT>GGT	p.S183G	ABI2_uc010zig.1_RNA|ABI2_uc002uzz.2_Missense_Mutation_p.S177G|ABI2_uc010zih.1_Intron|ABI2_uc010zii.1_Missense_Mutation_p.S177G|ABI2_uc010zij.1_Missense_Mutation_p.S121G|ABI2_uc002vab.2_Missense_Mutation_p.S132G|ABI2_uc010zik.1_Missense_Mutation_p.S18G|ABI2_uc010zil.1_Missense_Mutation_p.S18G|ABI2_uc010zim.1_Missense_Mutation_p.S18G|ABI2_uc002vac.2_Missense_Mutation_p.S18G	NM_005759	NP_005750	Q9NYB9	ABI2_HUMAN	abl interactor 2	183	Pro-rich.				actin polymerization or depolymerization|cell migration|peptidyl-tyrosine phosphorylation	cytoskeleton|cytosol|filopodium|lamellipodium	cytoskeletal adaptor activity|DNA binding|kinase binding|proline-rich region binding|SH3 domain binding|ubiquitin protein ligase binding				0						GAAGCCCCCTAGTCCCCCTAT	0.408													11	26					0	0	1	0	0		G	204255835	G	G	204255835	3	3	155	1	0	0	0	0	1	0	0	0	89	420	15	3	543	3	ABI2	2	204255835	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1633658	204255835	38943538	271	84098											
NRP2	8828	broad.mit.edu	37	chr2	206607957	206607957	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctccaacatgctggggatgcTctcaggcctcattgcagact	8	10	10	13	0	2	1	2	0	1	1	4	2	3	2	2	3	4	3	2	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:206607957T>C	uc002vaw.2	+	9	2113	c.1322T>C	c.(1321-1323)CTC>CCC	p.L441P	NRP2_uc002vat.2_Missense_Mutation_p.L441P|NRP2_uc002vau.2_Missense_Mutation_p.L441P|NRP2_uc002vav.2_Missense_Mutation_p.L441P|NRP2_uc002vax.2_Missense_Mutation_p.L441P|NRP2_uc002vay.2_Missense_Mutation_p.L441P|NRP2_uc010fud.2_Missense_Mutation_p.L441P	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	441	Extracellular (Potential).|F5/8 type C 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CTGGGGATGCTCTCAGGCCTC	0.602													55	284					0	0	1	0	0		C	206607957	C	C	206607957	3	2	155	1	0	0	0	0	1	0	0	0	10680	1551	54	3	1356	3	NRP2	2	206607957	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2352122	206607957	36591416	272	84099											
FZD5	7855	broad.mit.edu	37	chr2	208633251	208633251	+	Nonsense_Mutation	SNP	C	T	T																															cattggatctccaccagcggCcagaactggtgcacctccag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:208633251C>T	uc002vcj.2	-	2	623	c.213G>A	c.(211-213)TGG>TGA	p.W71*		NM_003468	NP_003459	Q13467	FZD5_HUMAN	frizzled 5 precursor	71	FZ.|Extracellular (Potential).				angiogenesis|anterior/posterior axis specification, embryo|axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to molecule of bacterial origin|embryonic camera-type eye development|gonad development|labyrinthine layer blood vessel development|positive regulation of interferon-gamma production|positive regulation of transcription from RNA polymerase II promoter|post-embryonic camera-type eye development|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell projection|cell surface|Golgi membrane|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|protein kinase binding|Wnt-protein binding			ovary(2)|lung(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.13)|Lung(261;0.134)		CCACCAGCGGCCAGAACTGGT	0.632													5	20					0	0	1	0	0		T	208633251	T	T	208633251	4	4	155	1	0	0	0	0	0	1	0	0	6147	740	26	2	1548	2	FZD5	2	208633251	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2025294	208633251	34566122	273	84100	159	2									
FZD5	7855	broad.mit.edu	37	chr2	208633259	208633259	+	Nonsense_Mutation	SNP	G	A	A																															ctccaccagcggccagaactGgtgcacctccaggcccgcct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:208633259G>A	uc002vcj.2	-	2	615	c.205C>T	c.(205-207)CAG>TAG	p.Q69*		NM_003468	NP_003459	Q13467	FZD5_HUMAN	frizzled 5 precursor	69	FZ.|Extracellular (Potential).				angiogenesis|anterior/posterior axis specification, embryo|axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to molecule of bacterial origin|embryonic camera-type eye development|gonad development|labyrinthine layer blood vessel development|positive regulation of interferon-gamma production|positive regulation of transcription from RNA polymerase II promoter|post-embryonic camera-type eye development|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell projection|cell surface|Golgi membrane|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|protein kinase binding|Wnt-protein binding			ovary(2)|lung(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.13)|Lung(261;0.134)		GGCCAGAACTGGTGCACCTCC	0.617													4	20					0	0	1	0	0		A	208633259	A	A	208633259	4	1	155	1	0	0	0	0	0	1	0	0	6147	1357	47	4	1556	4	FZD5	2	208633259	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	8	208633259	34566114	274	84101	159	2									
PLEKHM3	389072	broad.mit.edu	37	chr2	208841408	208841408	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctgagcagtgagtcctcGttccaaagacaaagtcgtca	12	9	9	11	2	2	3	1	2	1	1	6	3	4	3	2	0	1	2	2	0	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:208841408G>A	uc002vcl.2	-	3	2003	c.1513C>T	c.(1513-1515)CGA>TGA	p.R505*	PLEKHM3_uc002vcm.2_Nonsense_Mutation_p.R505*	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	505					intracellular signal transduction		metal ion binding			ovary(1)	1						GTGAGTCCTCGTTCCAAAGAC	0.443													5	84					0	0	1	0	0		A	208841408	A	A	208841408	4	1	155	1	0	0	0	0	0	1	0	0	12101	1153	40	1	796	1	PLEKHM3	2	208841408	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	208149	208841408	34357965	275	84102											
CRYGA	1418	broad.mit.edu	37	chr2	209025753	209025753	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcagtgagctcagacataagGcctcggtagtcatctctctc	9	11	9	12	1	5	2	3	1	2	1	8	2	5	2	1	2	1	2	1	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:209025753G>A	uc002vcq.3	-	3	317	c.300C>T	c.(298-300)GGC>GGT	p.G100G		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	100	Beta/gamma crystallin 'Greek key' 3.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		CAGACATAAGGCCTCGGTAGT	0.502													53	60					0	0	1	0	0		A	209025753	A	A	209025753	2	1	155	1	0	0	0	0	0	0	0	1	3917	1190	42	2		2	CRYGA	2	209025753	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	184345	209025753	34173620	276	84103											
MAP2	4133	broad.mit.edu	37	chr2	210559300	210559300	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacaaaaatggtactgtcatGgcacctgaccttcctgaaat	13	11	7	10	0	1	2	1	2	0	0	2	2	2	2	3	2	2	2	3	2	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:210559300G>T	uc002vde.1	+	7	2654	c.2406G>T	c.(2404-2406)ATG>ATT	p.M802I	MAP2_uc002vdc.1_Missense_Mutation_p.M802I|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.M798I	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	802					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GTACTGTCATGGCACCTGACC	0.448													79	133					9.0989e-53	1.00958e-52	1	1	0		T	210559300	T	T	210559300	3	4	155	1	0	0	0	0	1	0	0	0	9253	1348	47	5	2420	5	MAP2	2	210559300	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1533547	210559300	32640073	277	84104											
ATIC	471	broad.mit.edu	37	chr2	216198174	216198174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcagcggcatatgcaagaGcaagaggtcagactcatagg	13	7	12	9	1	3	3	3	0	1	3	4	3	3	3	0	3	3	3	0	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:216198174G>A	uc002vex.3	+	9	1090	c.916G>A	c.(916-918)GCA>ACA	p.A306T	ATIC_uc010zjo.1_Missense_Mutation_p.A247T|ATIC_uc002vey.3_Missense_Mutation_p.A305T	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	306					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	ATATGCAAGAGCAAGAGGTCA	0.383			T	ALK	ALCL								5	119					0	0	1	0	0		A	216198174	A	A	216198174	3	1	155	1	0	0	0	0	1	0	0	0	1106	971	34	2	950	2	ATIC	2	216198174	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5638874	216198174	27001199	278	84105											
FN1	2335	broad.mit.edu	37	chr2	216251612	216251612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtgatggtggctcgaggaGcaatccagtgcacagtaaaa	13	7	13	8	1	0	1	0	1	0	0	2	3	1	2	1	3	2	4	1	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:216251612G>A	uc002vfa.2	-	28	4678	c.4412C>T	c.(4411-4413)GCT>GTT	p.A1471V	FN1_uc002vfb.2_Missense_Mutation_p.A1380V|FN1_uc002vfc.2_Missense_Mutation_p.A1380V|FN1_uc002vfd.2_Missense_Mutation_p.A1471V|FN1_uc002vfe.2_Missense_Mutation_p.A1380V|FN1_uc002vff.2_Missense_Mutation_p.A1380V|FN1_uc002vfg.2_Missense_Mutation_p.A1380V|FN1_uc002vfh.2_Missense_Mutation_p.A1380V|FN1_uc002vfi.2_Missense_Mutation_p.A1471V|FN1_uc002vfj.2_Missense_Mutation_p.A1471V|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.A98V	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1470	Fibronectin type-III 10.|Cell-attachment.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCTCGAGGAGCAATCCAGTG	0.527													12	24					0	0	1	0	0		A	216251612	A	A	216251612	3	1	155	1	0	0	0	0	1	0	0	0	5976	971	34	2	3097	2	FN1	2	216251612	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	53438	216251612	26947761	279	84106											
TNS1	7145	broad.mit.edu	37	chr2	218700768	218700768	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccctccaggattgagagcGatggtaagagccagctccgg	9	6	14	12	3	0	2	0	1	0	2	2	5	2	3	4	3	3	2	4	3	1	2	rs61743061	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:218700768G>A	uc002vgt.2	-	18	3197	c.2799C>T	c.(2797-2799)ATC>ATT	p.I933I	TNS1_uc002vgr.2_Silent_p.I933I|TNS1_uc002vgs.2_Silent_p.I933I|TNS1_uc010zjv.1_Silent_p.I933I	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	933						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GATTGAGAGCGATGGTAAGAG	0.562													36	60					0	0	1	0	0		A	218700768	A	A	218700768	2	1	155	1	0	0	0	0	0	0	0	1	16368	1048	37	1		1	TNS1	2	218700768	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2449156	218700768	24498605	280	84107											
CCDC108	255101	broad.mit.edu	37	chr2	219895549	219895549	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctcaccagcagctgggcGcacttggctggggcagagat	8	7	15	11	1	1	1	1	0	0	1	1	2	1	1	1	4	3	6	1	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:219895549G>A	uc002vjl.1	-	9	1107	c.1023C>T	c.(1021-1023)TGC>TGT	p.C341C	CCDC108_uc010fwa.1_5'Flank|CCDC108_uc010zkp.1_Silent_p.C330C|CCDC108_uc010zkq.1_Silent_p.C276C	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	341						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCAGCTGGGCGCACTTGGCTG	0.637													14	31					0	0	1	0	0		A	219895549	A	A	219895549	2	1	155	1	0	0	0	0	0	0	0	1	2746	1079	38	1		1	CCDC108	2	219895549	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1194781	219895549	23303824	281	84108											
STK16	8576	broad.mit.edu	37	chr2	220112985	220112985	+	Missense_Mutation	SNP	A	G	G	1	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	catggtgttccaaaagggtgAcagtgtggcccttgctgtgc	7	11	14	9	0	0	1	0	1	0	0	1	1	1	1	2	3	2	2	2	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:220112985A>G	uc002vko.2	+	7	885	c.728A>G	c.(727-729)GAC>GGC	p.D243G	GLB1L_uc002vkm.2_5'Flank|GLB1L_uc002vkn.2_5'Flank|STK16_uc002vks.2_Missense_Mutation_p.D125G|STK16_uc002vkp.2_Missense_Mutation_p.D243G|STK16_uc002vkr.2_Missense_Mutation_p.D176G|STK16_uc002vkq.2_Missense_Mutation_p.D288G	NM_001008910	NP_001008910	O75716	STK16_HUMAN	serine/threonine kinase 16	243	Protein kinase.				protein complex assembly	membrane	ATP binding|protein binding|protein serine/threonine kinase activity			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)		CAAAAGGGTGACAGTGTGGCC	0.522													5	153					0	0	1	0	0		G	220112985	G	G	220112985	3	3	155	1	0	0	0	0	1	0	0	0	15314	275	10	3	750	3	STK16	2	220112985	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	217436	220112985	23086388	282	84109											
CHPF	79586	broad.mit.edu	37	chr2	220404779	220404779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgcgctgggcctggcGcggctcatacagtagcagca	7	5	15	14	4	1	0	1	0	0	0	1	0	1	0	2	4	3	5	2	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:220404779G>A	uc002vmc.3	-	4	1881	c.1654C>T	c.(1654-1656)CGC>TGC	p.R552C	CHPF_uc010zlh.1_Missense_Mutation_p.R390C	NM_024536	NP_078812	Q8IZ52	CHSS2_HUMAN	chondroitin polymerizing factor	552	Lumenal (Potential).|Ala-rich.					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity|protein binding				0		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)		TGGGCCTGGCGCGGCTCATAC	0.677													5	10					0	0	1	0	0		A	220404779	A	A	220404779	3	1	155	1	0	0	0	0	1	0	0	0	3371	1087	38	1	677	1	CHPF	2	220404779	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	291794	220404779	22794594	283	84110											
TMEM198	130612	broad.mit.edu	37	chr2	220409549	220409549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacagcccctggagcgcaggTaccaggcactgccggccctc	8	4	12	17	2	0	0	0	0	0	0	1	1	0	1	5	4	5	3	5	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:220409549T>C	uc002vme.2	+	3	685	c.100T>C	c.(100-102)TAC>CAC	p.Y34H	CHPF_uc010zlh.1_5'Flank|CHPF_uc002vmc.3_5'Flank|CHPF_uc002vmd.3_5'Flank|TMEM198_uc002vmf.2_Missense_Mutation_p.Y34H	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	34						integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		GGAGCGCAGGTACCAGGCACT	0.607													46	95					0	0	1	0	0		C	220409549	C	C	220409549	3	2	155	1	0	0	0	0	1	0	0	0	16144	1638	57	3	102	3	TMEM198	2	220409549	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	4770	220409549	22789824	284	84111											
OBSL1	23363	broad.mit.edu	37	chr2	220432804	220432804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgacgttggccacggtgcGcacccggccccgcatctcgc	4	7	13	17	6	1	1	0	1	1	0	2	1	1	1	4	3	1	3	4	3	0	1	rs79295927		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:220432804G>A	uc010fwk.2	-	2	1312	c.1255C>T	c.(1255-1257)CGC>TGC	p.R419C	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Missense_Mutation_p.R419C|OBSL1_uc002vmj.2_Missense_Mutation_p.R6C	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	419	Ig-like 4.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GCCACGGTGCGCACCCGGCCC	0.617											OREG0003988	type=REGULATORY REGION|Gene=OBSL1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	48	57					0	0	1	0	0		A	220432804	A	A	220432804	3	1	155	1	0	0	0	0	1	0	0	0	10832	1087	38	1	4667	1	OBSL1	2	220432804	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	23255	220432804	22766569	285	84112											
SERPINE2	5270	broad.mit.edu	37	chr2	224866442	224866442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcatccccaggaccgacGcaatcccatggggagagatc	12	4	12	13	2	0	1	0	0	0	1	3	6	2	3	4	3	1	2	4	3	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:224866442G>A	uc002vnu.2	-	2	419	c.176C>T	c.(175-177)GCG>GTG	p.A59V	SERPINE2_uc002vnt.2_Missense_Mutation_p.A59V|SERPINE2_uc010zlr.1_Missense_Mutation_p.A71V|SERPINE2_uc002vnv.2_Missense_Mutation_p.A59V	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	59					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		CAGGACCGACGCAATCCCATG	0.557													37	90					0	0	1	0	0		A	224866442	A	A	224866442	3	1	155	1	0	0	0	0	1	0	0	0	14137	1087	38	1	1052	1	SERPINE2	2	224866442	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4433638	224866442	18332931	286	84113											
IRS1	3667	broad.mit.edu	37	chr2	227662389	227662389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgccccgatgccggtgggCgtgggttctgttggtgctgg	1	11	19	10	3	1	0	0	0	1	0	1	1	1	0	3	5	3	4	3	5	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:227662389C>T	uc002voh.3	-	1	1118	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	356	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TGCCGGTGGGCGTGGGTTCTG	0.721											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	50					0	0	1	0	0		T	227662389	T	T	227662389	3	4	155	1	0	0	0	0	1	0	0	0	7856	768	27	1	2666	1	IRS1	2	227662389	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2795947	227662389	15536984	287	84114											
SPHKAP	80309	broad.mit.edu	37	chr2	228882351	228882351	+	Silent	SNP	G	A	A	0	0	1	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	gccttcagccggctccacctGtcgccactcagtaaccgatt	7	9	8	17	3	2	0	2	0	0	0	4	1	3	0	6	1	2	2	6	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:228882351G>A	uc002vpq.2	-	7	3266	c.3219C>T	c.(3217-3219)GAC>GAT	p.D1073D	SPHKAP_uc002vpp.2_Silent_p.D1073D|SPHKAP_uc010zlx.1_Silent_p.D1073D	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1073						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GGCTCCACCTGTCGCCACTCA	0.582													44	51					0	0	1	0	0		A	228882351	A	A	228882351	2	1	155	1	0	0	0	0	0	0	0	1	15073	1368	48	4		4	SPHKAP	2	228882351	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1219962	228882351	14317022	288	84115											
TRIP12	9320	broad.mit.edu	37	chr2	230642151	230642151	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgtcagtgaagtttcttgCcgtagcatccatttataaaa	12	14	8	7	1	2	1	1	1	1	0	3	2	3	1	2	0	2	3	2	0	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:230642151C>T	uc002vpw.1	-	36	5293	c.5184G>A	c.(5182-5184)CGG>CGA	p.R1728R	TRIP12_uc002vpx.1_Silent_p.R1776R|TRIP12_uc002vpy.1_Silent_p.R1458R	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1728					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		AAGTTTCTTGCCGTAGCATCC	0.413													9	287					0	0	1	0	0		T	230642151	T	T	230642151	2	4	155	1	0	0	0	0	0	0	0	1	16582	726	26	2		2	TRIP12	2	230642151	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1759800	230642151	12557222	289	84116											
C2orf57	165100	broad.mit.edu	37	chr2	232458553	232458553	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacatcctggtgtggtcCgagaccaccatgggcatggc	8	7	14	12	1	0	2	0	0	0	2	2	3	2	2	4	4	0	2	4	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:232458553C>T	uc002vrz.2	+	1	942	c.891C>T	c.(889-891)TCC>TCT	p.S297S		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	297										ovary(1)	1		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)		TGGTGTGGTCCGAGACCACCA	0.647													39	74					0	0	1	0	0		T	232458553	T	T	232458553	2	4	155	1	0	0	0	0	0	0	0	1	2181	639	23	1		1	C2orf57	2	232458553	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1816402	232458553	10740820	290	84117											
ECEL1	9427	broad.mit.edu	37	chr2	233348859	233348859	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cctgtgccagctcgtgcagtGcctcacggaatggcggggac	6	7	15	13	3	1	0	1	0	0	0	2	2	1	2	3	4	4	2	3	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:233348859G>A	uc002vsv.2	-	7	1464	c.1259C>T	c.(1258-1260)GCA>GTA	p.A420V	ECEL1_uc010fya.1_Missense_Mutation_p.A420V|ECEL1_uc010fyb.1_Missense_Mutation_p.A127V	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	420	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		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)		CTCGTGCAGTGCCTCACGGAA	0.647													36	32					0	0	1	0	0		A	233348859	A	A	233348859	3	1	155	1	0	0	0	0	1	0	0	0	4897	1319	46	2	1116	2	ECEL1	2	233348859	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	890306	233348859	9850514	291	84118											
DNAJB3	414061	broad.mit.edu	37	chr2	234652528	234652528	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctcggatgaggcctgcCggggcacgtccagcacctcg	5	6	15	15	4	0	1	0	1	0	0	3	2	1	2	5	5	2	2	5	5	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:234652528C>A	uc002vuz.2	-	1	134	c.35G>T	c.(34-36)CGG>CTG	p.R12L	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron	NM_001001394	NP_001001394	Q8WWF6	DNJB3_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 3	12	J.				protein folding		heat shock protein binding|unfolded protein binding				0						TGAGGCCTGCCGGGGCACGTC	0.642													41	50					5.44703e-19	5.84209e-19	1	1	0		A	234652528	A	A	234652528	3	1	155	1	0	0	0	0	1	0	0	0	4627	652	23	5	406	5	DNAJB3	2	234652528	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1303669	234652528	8546845	292	84119											
AGAP1	116987	broad.mit.edu	37	chr2	237032595	237032595	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtcacggcccgagatgcccaCgggaacacagctctggccta	9	5	12	15	3	2	1	1	0	1	1	2	3	2	2	3	3	3	1	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:237032595C>T	uc002vvs.2	+	18	2998	c.2403C>T	c.(2401-2403)CAC>CAT	p.H801H	AGAP1_uc002vvt.2_Silent_p.H748H	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	801	ANK 2.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GAGATGCCCACGGGAACACAG	0.647													24	30					0	0	1	0	0		T	237032595	T	T	237032595	2	4	155	1	0	0	0	0	0	0	0	1	366	535	19	1		1	AGAP1	2	237032595	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2380067	237032595	6166778	293	84120											
CXCR7	57007	broad.mit.edu	37	chr2	237489456	237489456	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccatgggcgagctcacGtgcaaagtcacacacctcat	10	7	10	14	2	3	0	3	0	0	0	3	1	3	0	2	2	2	2	2	2	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:237489456G>A	uc010fyq.2	+	3	578	c.348G>A	c.(346-348)ACG>ACA	p.T116T	CXCR7_uc002vwd.2_Silent_p.T116T	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	116	Extracellular (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		GCGAGCTCACGTGCAAAGTCA	0.562													58	129					0	0	1	0	0		A	237489456	A	A	237489456	2	1	155	1	0	0	0	0	0	0	0	1	4099	1132	40	1		1	CXCR7	2	237489456	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	456861	237489456	5709917	294	84121											
PER2	8864	broad.mit.edu	37	chr2	239186494	239186494	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatgtccacatcttcctgCagtgggacctggctgggctg	5	11	12	13	0	2	0	1	0	1	0	4	1	4	1	3	3	1	3	3	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:239186494C>T	uc002vyc.2	-	2	321	c.84G>A	c.(82-84)CTG>CTA	p.L28L	PER2_uc010znv.1_Silent_p.L28L|PER2_uc010znw.1_Silent_p.L28L|PER2_uc010fyx.1_Silent_p.L28L	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	28					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		CATCTTCCTGCAGTGGGACCT	0.617													22	46					0	0	1	0	0		T	239186494	T	T	239186494	2	4	155	1	0	0	0	0	0	0	0	1	11749	697	25	2		2	PER2	2	239186494	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1697038	239186494	4012879	295	84122											
ASB1	51665	broad.mit.edu	37	chr2	239344354	239344354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtgttcctcctgcagccGcatcaacgagaagtctgtct	7	12	9	13	2	3	1	1	0	2	1	5	2	5	1	3	0	3	3	3	0	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:239344354G>A	uc002vyg.2	+	3	280	c.194G>A	c.(193-195)CGC>CAC	p.R65H		NM_001040445	NP_001035535	Q9Y576	ASB1_HUMAN	ankyrin repeat and SOCS box-containing protein	65	ANK 1.				intracellular signal transduction|negative regulation of cytokine biosynthetic process						0		all_epithelial(40;2.65e-14)|Breast(86;7.61e-05)|Renal(207;0.00183)|all_lung(227;0.0283)|Ovarian(221;0.0365)|Lung NSC(271;0.0941)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)		TCCTGCAGCCGCATCAACGAG	0.652													7	6					0	0	1	0	0		A	239344354	A	A	239344354	3	1	155	1	0	0	0	0	1	0	0	0	1014	1087	38	1	204	1	ASB1	2	239344354	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	157860	239344354	3855019	296	84123											
GPC1	2817	broad.mit.edu	37	chr2	241401788	241401788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccgagttctgggcccGcctgctcgagcgcctcttca	3	9	13	16	4	3	0	1	0	2	0	4	2	3	0	4	2	2	3	4	2	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:241401788G>A	uc002vyw.3	+	3	727	c.506G>A	c.(505-507)CGC>CAC	p.R169H		NM_002081	NP_002072	P35052	GPC1_HUMAN	glypican 1 precursor	169					axon guidance	anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;4.51e-33)|all cancers(36;1.74e-30)|OV - Ovarian serous cystadenocarcinoma(60;4.73e-15)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;9.1e-06)|Colorectal(34;0.000487)|Lung(119;0.0013)|LUSC - Lung squamous cell carcinoma(224;0.0154)|COAD - Colon adenocarcinoma(134;0.0194)|READ - Rectum adenocarcinoma(96;0.0949)		TTCTGGGCCCGCCTGCTCGAG	0.677													3	5					0	0	1	0	0		A	241401788	A	A	241401788	3	1	155	1	0	0	0	0	1	0	0	0	6612	1087	38	1	516	1	GPC1	2	241401788	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2057434	241401788	1797585	297	84124											
ANKMY1	51281	broad.mit.edu	37	chr2	241468876	241468876	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacgtcctggctgccatcGgggtaggtctcgacacctgg	5	8	13	15	3	1	0	0	0	1	0	4	1	2	0	4	5	1	2	4	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:241468876G>A	uc002vyz.1	-	4	493	c.264C>T	c.(262-264)CCC>CCT	p.P88P	ANKMY1_uc002vza.1_Intron|ANKMY1_uc010fzd.1_Silent_p.P177P|ANKMY1_uc002vzb.1_Intron|ANKMY1_uc002vzc.1_Intron|ANKMY1_uc002vzd.1_Intron|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Intron	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	88	MORN 3.						zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		GGCTGCCATCGGGGTAGGTCT	0.602													19	33					0	0	1	0	0		A	241468876	A	A	241468876	2	1	155	1	0	0	0	0	0	0	0	1	634	1103	39	1		1	ANKMY1	2	241468876	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	67088	241468876	1730497	298	84125											
ING5	84289	broad.mit.edu	37	chr2	242662669	242662669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgcgtggaccttaccacGaaacccaaaggaaaatggtg	13	6	11	11	2	0	0	0	0	0	0	0	3	0	2	4	3	3	0	4	3	5	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr2:242662669G>A	uc002wcd.2	+	7	688	c.663G>A	c.(661-663)ACG>ACA	p.T221T		NM_032329	NP_115705	Q8WYH8	ING5_HUMAN	inhibitor of growth family, member 5	221	PHD-type.				DNA replication|histone H3 acetylation|negative regulation of cell proliferation|negative regulation of growth|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.16e-33)|all cancers(36;4.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.6e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.65e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0839)		ACCTTACCACGAAACCCAAAG	0.532													108	161					0	0	1	0	0		A	242662669	A	A	242662669	2	1	155	1	0	0	0	0	0	0	0	1	7755	1045	37	1		1	ING5	2	242662669	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1193793	242662669	536704	299	84126											
SETD5	55209	broad.mit.edu	37	chr3	9512161	9512161	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttgtcaccgaaaagacCtggatttggcaaaagtagga	14	9	11	7	1	1	1	1	0	0	1	1	4	1	3	2	3	1	3	2	3	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:9512161C>T	uc003brt.2	+	19	3178	c.2743C>T	c.(2743-2745)CTG>TTG	p.L915L	SETD5_uc003bru.2_Silent_p.L817L|SETD5_uc003brv.2_Silent_p.L804L|SETD5_uc010hck.2_Silent_p.L397L|SETD5_uc003brx.2_Silent_p.L584L	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	915										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		CCGAAAAGACCTGGATTTGGC	0.478													119	192					0	0	1	0	0		T	9512161	T	T	9512161	2	4	155	1	0	0	0	0	0	0	0	1	14159	680	24	4		4	SETD5	3	9512161	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08		9512161	188510269	300	84127											
BRPF1	7862	broad.mit.edu	37	chr3	9781094	9781094	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccctgtgccccaacaagggCggtgccttcaagcagacaga	10	5	12	14	1	1	2	1	0	0	2	1	2	1	2	4	2	4	1	4	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:9781094C>T	uc003bse.2	+	3	1410	c.1011C>T	c.(1009-1011)GGC>GGT	p.G337G	BRPF1_uc003bsf.2_Silent_p.G337G|BRPF1_uc003bsg.2_Silent_p.G337G|BRPF1_uc011ati.1_Silent_p.G337G	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	337					histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					CCAACAAGGGCGGTGCCTTCA	0.622													11	208					0	0	1	0	0		T	9781094	T	T	9781094	2	4	155	1	0	0	0	0	0	0	0	1	1523	755	27	1		1	BRPF1	3	9781094	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	268933	9781094	188241336	301	84128											
TTLL3	26140	broad.mit.edu	37	chr3	9877137	9877137	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtcaagagtggatggggcGaggccgtgtaccccagggtc	7	6	19	9	2	1	1	1	0	0	1	2	3	1	2	3	6	1	1	3	6	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:9877137G>A	uc003btg.2	+	13	2499	c.2283G>A	c.(2281-2283)GCG>GCA	p.A761A	ARPC4_uc003btc.1_Intron	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	761					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					TGGATGGGGCGAGGCCGTGTA	0.562													98	136					0	0	1	0	0		A	9877137	A	A	9877137	2	1	155	1	0	0	0	0	0	0	0	1	16754	1045	37	1		1	TTLL3	3	9877137	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	96043	9877137	188145293	302	84129											
FANCD2	2177	broad.mit.edu	37	chr3	10114936	10114936	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctttttaatataaaaGaaaggaaacaaaaaacagat	21	12	4	4	0	1	2	0	0	1	2	2	3	1	3	0	1	2	0	0	1	9	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:10114936G>T	uc003buw.2	+	28	2684	c.2606_splice	c.e28-1	p.E869_splice	FANCD2_uc003bux.1_Splice_Site_p.E869_splice|FANCD2_uc003buy.1_Splice_Site_p.E869_splice|FANCD2_uc010hcw.1_Splice_Site	NM_033084	NP_149075	Q9BXW9	FACD2_HUMAN	Fanconi anemia complementation group D2 isoform						DNA repair|response to gamma radiation	nucleoplasm	protein binding|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.148)		TAATATAAAAGAAAGGAAACA	0.378			D|Mis|N|F			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				14	111					4.3838e-07	4.5499e-07	1	1	0		T	10114936	T	T	10114936	5	4	155	1	0	0	0	0	0	0	1	0	5679	956	33	5	2711	5	FANCD2	3	10114936	Splice_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	237799	10114936	187907494	303	84130											
TMEM40	55287	broad.mit.edu	37	chr3	12783970	12783970	+	Missense_Mutation	SNP	T	G	G	0	1	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	tacctccatagagttgaagcTcatccttcaaaacgtcaggc	12	10	7	12	1	3	2	3	1	0	1	5	2	5	2	3	1	3	2	3	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:12783970T>G	uc003bxg.1	-	5	465	c.338A>C	c.(337-339)GAG>GCG	p.E113A	TMEM40_uc003bxh.1_Missense_Mutation_p.E83A|TMEM40_uc003bxi.1_Missense_Mutation_p.E37A|TMEM40_uc011auv.1_Missense_Mutation_p.E129A	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	113						integral to membrane					0						GAGTTGAAGCTCATCCTTCAA	0.507													94	131					0	0	1	0	0		G	12783970	G	G	12783970	3	3	155	1	0	0	0	0	1	0	0	0	16188	1551	54	5	395	5	TMEM40	3	12783970	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2669034	12783970	185238460	304	84131											
TMEM43	79188	broad.mit.edu	37	chr3	14183281	14183281	+	Frame_Shift_Del	DEL	A	-	-																															ctcggacacgggtgccagccAaaaagttggagtgaaaagac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:14183281delA	uc003byk.2	+	12	1443	c.1189delA	c.(1189-1191)AAAfs	p.K397fs		NM_024334	NP_077310	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	397	Nuclear (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nuclear inner membrane				ovary(1)	1						GGTGCCAGCCAAAAAGTTGGA	0.642													18	27	---	---	---	---						.	-	14183281	-	-	14183281	7	5	155	1	0	1	0	1	0	0	0	0	16192	131	5	0	1235	0	TMEM43	3	14183281	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1399311	14183281	183839149	305	84132											
LSM3	27258	broad.mit.edu	37	chr3	14239580	14239580	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctctttgtccggggagatggCgttgtcctggttgcccctcc	2	13	13	13	2	1	1	0	0	1	1	4	2	4	1	5	4	1	2	5	4	0	3	rs112724438	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:14239580C>T	uc003byn.2	+	4	302	c.273C>T	c.(271-273)GGC>GGT	p.G91G	uc003byo.1_5'Flank	NM_014463	NP_055278	P62310	LSM3_HUMAN	Lsm3 protein	91					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	catalytic step 2 spliceosome|cytosol	protein binding|RNA binding			ovary(1)	1						GGGGAGATGGCGTTGTCCTGG	0.418													12	94					0	0	1	0	0		T	14239580	T	T	14239580	2	4	155	1	0	0	0	0	0	0	0	1	9075	755	27	1		1	LSM3	3	14239580	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	56299	14239580	183782850	306	84133											
GRIP2	80852	broad.mit.edu	37	chr3	14554310	14554310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtgatgcccagctccacGctgcgcttcttgggcagctt	5	11	12	13	2	1	1	0	1	1	0	2	1	2	1	2	2	4	5	2	2	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:14554310G>A	uc011avi.1	-	15	1989	c.1989C>T	c.(1987-1989)AGC>AGT	p.S663S	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Silent_p.S194S	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	565	PDZ 5.				synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						CCAGCTCCACGCTGCGCTTCT	0.597													5	34					0	0	1	0	0		A	14554310	A	A	14554310	2	1	155	1	0	0	0	0	0	0	0	1	6804	1078	38	1		1	GRIP2	3	14554310	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	314730	14554310	183468120	307	84134											
RFTN1	23180	broad.mit.edu	37	chr3	16419244	16419244	+	Silent	SNP	A	G	G	1	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	ctccctgagagtggctcttcAtgcacctccaaggggttgct	6	11	11	13	0	2	1	1	1	1	1	4	2	4	1	3	3	2	4	3	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:16419244A>G	uc003cay.2	-	5	1089	c.807T>C	c.(805-807)CAT>CAC	p.H269H	RFTN1_uc010hes.2_Silent_p.H233H	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	269						plasma membrane				ovary(3)|central_nervous_system(1)	4						GTGGCTCTTCATGCACCTCCA	0.527													61	97					0	0	1	0	0		G	16419244	G	G	16419244	2	3	155	1	0	0	0	0	0	0	0	1	13283	214	8	3		3	RFTN1	3	16419244	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1864934	16419244	181603186	308	84135											
TGFBR2	7048	broad.mit.edu	37	chr3	30713226	30713226	+	Missense_Mutation	SNP	T	A	A	0	1	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	agttgccatatctgtcatcaTcatcttctactgctaccgcg	8	14	6	13	2	6	0	3	0	3	0	6	0	6	0	2	0	4	2	2	0	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:30713226T>A	uc003ceo.2	+	4	933	c.551T>A	c.(550-552)ATC>AAC	p.I184N	TGFBR2_uc003cen.2_Missense_Mutation_p.I209N	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	184	Helical; (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						TCTGTCATCATCATCTTCTAC	0.512													29	38					0	0	1	0	0		A	30713226	A	A	30713226	3	1	155	1	0	0	0	0	1	0	0	0	15847	1435	50	5	644	5	TGFBR2	3	30713226	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	14293982	30713226	167309204	309	84136											
PDCD6IP	10015	broad.mit.edu	37	chr3	33907899	33907899	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatgcgtatggccagtataAtatgccatatccaccagtgt	11	13	8	9	1	0	0	0	0	0	0	1	0	1	0	4	1	2	2	4	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:33907899A>T	uc003cfx.2	+	18	2644	c.2489A>T	c.(2488-2490)AAT>ATT	p.N830I	PDCD6IP_uc003cfy.2_Missense_Mutation_p.N835I|PDCD6IP_uc011axw.1_Missense_Mutation_p.N611I	NM_013374	NP_037506	Q8WUM4	PDC6I_HUMAN	programmed cell death 6 interacting protein	830	Pro-rich.|Interaction with EIAV p9.|Self-association.				apoptosis|cell cycle|cell division|interspecies interaction between organisms|protein transport	cytosol|melanosome|microtubule organizing center	calcium-dependent protein binding			ovary(1)|skin(1)	2						GGCCAGTATAATATGCCATAT	0.483													58	103					0	0	1	0	0		T	33907899	T	T	33907899	3	4	155	1	0	0	0	0	1	0	0	0	11643	101	4	5	2574	5	PDCD6IP	3	33907899	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3194673	33907899	164114531	310	84137											
DLEC1	9940	broad.mit.edu	37	chr3	38136374	38136374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgttgcccccacaggcacGtggagctggccttctactgg	5	9	13	14	2	1	0	0	0	1	0	1	1	1	1	3	4	4	3	3	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:38136374G>A	uc003cho.1	+	13	1945	c.1924G>A	c.(1924-1926)GTG>ATG	p.V642M	DLEC1_uc003chp.1_Missense_Mutation_p.V642M|DLEC1_uc010hgv.1_Missense_Mutation_p.V642M|DLEC1_uc003chr.1_Translation_Start_Site|DLEC1_uc010hgx.1_5'Flank|DLEC1_uc003chq.1_Intron	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	642					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		CCACAGGCACGTGGAGCTGGC	0.612													36	45					0	0	1	0	0		A	38136374	A	A	38136374	3	1	155	1	0	0	0	0	1	0	0	0	4558	1145	40	1	1974	1	DLEC1	3	38136374	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4228475	38136374	159886056	311	84138											
GORASP1	64689	broad.mit.edu	37	chr3	39139895	39139895	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactgtcaggaagagtcagCtgaggcaggtggtccgcctg	9	7	16	9	1	2	3	2	1	0	2	3	4	3	4	2	4	1	2	2	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:39139895C>T	uc003ciw.1	-	9	1253	c.1155G>A	c.(1153-1155)CAG>CAA	p.Q385Q	GORASP1_uc003civ.1_RNA|GORASP1_uc003cix.1_RNA|GORASP1_uc003ciy.1_RNA|GORASP1_uc011ayw.1_Silent_p.Q290Q|GORASP1_uc003ciz.1_Silent_p.Q230Q	NM_031899	NP_114105	Q9BQQ3	GORS1_HUMAN	Golgi reassembly stacking protein 1	385					mitotic prophase|protein transport	cytosol|Golgi apparatus|membrane				ovary(2)|central_nervous_system(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		GAAGAGTCAGCTGAGGCAGGT	0.597													25	53					0	0	1	0	0		T	39139895	T	T	39139895	2	4	155	1	0	0	0	0	0	0	0	1	6590	796	28	2		2	GORASP1	3	39139895	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1003521	39139895	158882535	312	84139											
XIRP1	165904	broad.mit.edu	37	chr3	39227515	39227515	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgggatgagcggtgtagatgCcatcctgaattgtcacccac	9	9	12	11	2	1	3	1	2	0	1	2	4	2	4	3	2	2	1	3	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:39227515C>A	uc003cjk.1	-	2	3643	c.3422G>T	c.(3421-3423)GGC>GTC	p.G1141V	XIRP1_uc003cji.2_Intron|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1141							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		GGTGTAGATGCCATCCTGAAT	0.607													48	97					9.52127e-25	1.03446e-24	1	1	0		A	39227515	A	A	39227515	3	1	155	1	0	0	0	0	1	0	0	0	17455	739	26	5	2113	5	XIRP1	3	39227515	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	87620	39227515	158794915	313	84140											
SLC25A38	54977	broad.mit.edu	37	chr3	39433004	39433004	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgaagcagtatttcttgCgaggccatcccccaaccgcc	8	10	8	15	2	1	1	0	1	1	0	2	2	2	1	5	1	3	2	5	1	3	4	rs121918330		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:39433004C>T	uc003cjo.2	+	4	750	c.349C>T	c.(349-351)CGA>TGA	p.R117*		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	117					erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GTATTTCTTGCGAGGCCATCC	0.527													174	305					0	0	1	0	0		T	39433004	T	T	39433004	4	4	155	1	0	0	0	0	0	1	0	0	14527	760	27	1	363	1	SLC25A38	3	39433004	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	205489	39433004	158589426	314	84141											
MYRIP	25924	broad.mit.edu	37	chr3	40192665	40192665	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggagagtggcgcgtgcttCgacattctaggtactctcac	7	11	12	11	3	2	1	1	0	2	1	4	3	2	1	0	3	2	2	0	3	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:40192665C>T	uc003cka.2	+	4	594	c.459C>T	c.(457-459)TTC>TTT	p.F153F	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Silent_p.F153F|MYRIP_uc010hhw.2_Intron|MYRIP_uc010hhx.1_Silent_p.F153F|MYRIP_uc011ayz.1_5'UTR	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	153	Myosin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		GCGCGTGCTTCGACATTCTAG	0.567													8	13					0	0	1	0	0		T	40192665	T	T	40192665	2	4	155	1	0	0	0	0	0	0	0	1	10118	883	31	1		1	MYRIP	3	40192665	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	759661	40192665	157829765	315	84142											
ZNF619	285267	broad.mit.edu	37	chr3	40528780	40528780	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacactggagagaaaccatActcatgtgaggaatgtggac	14	7	11	9	0	1	2	1	1	0	1	1	6	1	5	2	3	2	0	2	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:40528780A>G	uc011azb.1	+	6	1177	c.899A>G	c.(898-900)TAC>TGC	p.Y300C	ZNF619_uc010hhz.2_Missense_Mutation_p.Y251C|ZNF619_uc003ckj.2_Missense_Mutation_p.Y244C|ZNF619_uc011azc.1_Missense_Mutation_p.Y260C|ZNF619_uc011azd.1_Missense_Mutation_p.Y216C|ZNF619_uc011aza.1_Missense_Mutation_p.Y202C	NM_001145082	NP_001138554	E9PCD9	E9PCD9_HUMAN	zinc finger protein 619 isoform 1	300					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GAGAAACCATACTCATGTGAG	0.443													55	59					0	0	1	0	0		G	40528780	G	G	40528780	3	3	155	1	0	0	0	0	1	0	0	0	18068	391	14	3	939	3	ZNF619	3	40528780	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	336115	40528780	157493650	316	84143											
CTNNB1	1499	broad.mit.edu	37	chr3	41268742	41268742	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accccaagctttagtaaataTaatgaggacctatacttacg	15	11	6	9	1	0	1	0	1	0	0	0	2	0	2	3	1	3	2	3	1	9	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:41268742T>C	uc010hia.1	+	8	1136	c.980T>C	c.(979-981)ATA>ACA	p.I327T	CTNNB1_uc003ckp.2_Missense_Mutation_p.I327T|CTNNB1_uc003ckq.2_Missense_Mutation_p.I327T|CTNNB1_uc003ckr.2_Missense_Mutation_p.I327T|CTNNB1_uc011azf.1_Missense_Mutation_p.I320T|CTNNB1_uc011azg.1_Missense_Mutation_p.I255T|uc010hib.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	327	ARM 5.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	TTAGTAAATATAATGAGGACC	0.398		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				7	156					0	0	1	0	0		C	41268742	C	C	41268742	3	2	155	1	0	0	0	0	1	0	0	0	4019	1406	49	3	1002	3	CTNNB1	3	41268742	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	739962	41268742	156753688	317	84144											
ULK4	54986	broad.mit.edu	37	chr3	41607548	41607548	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagttccatattcgaatctTtgcaggcaactagattgctg	10	14	9	8	1	1	1	0	0	1	1	3	2	2	1	1	1	3	5	1	1	5	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:41607548T>G	uc003ckv.3	-	32	3395	c.3194A>C	c.(3193-3195)AAA>ACA	p.K1065T		NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	1065							ATP binding|protein serine/threonine kinase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.214)		ATTCGAATCTTTGCAGGCAAC	0.328													8	174					0	0	1	0	0		G	41607548	G	G	41607548	3	3	155	1	0	0	0	0	1	0	0	0	17004	1841	64	5	657	5	ULK4	3	41607548	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	338806	41607548	156414882	318	84145											
TRAK1	22906	broad.mit.edu	37	chr3	42244033	42244033	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccgggagaactacctctcGgagaggaggttctttgagga	9	8	15	9	3	2	3	0	1	2	2	3	7	2	5	2	5	2	1	2	5	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:42244033G>A	uc003cky.2	+	13	1749	c.1533G>A	c.(1531-1533)TCG>TCA	p.S511S	TRAK1_uc011azh.1_Silent_p.S511S|TRAK1_uc011azi.1_Silent_p.S511S|TRAK1_uc003ckz.3_Silent_p.S437S|TRAK1_uc011azj.1_Silent_p.S437S|TRAK1_uc003cla.2_Silent_p.S453S	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	511	Potential.				endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						ACTACCTCTCGGAGAGGAGGT	0.662													17	27					0	0	1	0	0		A	42244033	A	A	42244033	2	1	155	1	0	0	0	0	0	0	0	1	16475	1103	39	1		1	TRAK1	3	42244033	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	636485	42244033	155778397	319	84146											
CCDC13	152206	broad.mit.edu	37	chr3	42772008	42772008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagccggtcacgctccacctCggcagcctgccagagggcct	6	5	13	17	3	1	1	1	0	0	1	3	2	2	1	6	3	3	2	6	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:42772008C>T	uc003cly.3	-	13	1753	c.1669G>A	c.(1669-1671)GAG>AAG	p.E557K		NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	557	Potential.									ovary(1)	1						CGCTCCACCTCGGCAGCCTGC	0.612													25	30					0	0	1	0	0		T	42772008	T	T	42772008	3	4	155	1	0	0	0	0	1	0	0	0	2768	893	31	1	494	1	CCDC13	3	42772008	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	527975	42772008	155250422	320	84147											
SACM1L	22908	broad.mit.edu	37	chr3	45745000	45745000	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgacgtacttaccattgacCgtgtgtccacagaggttacc	10	11	9	11	2	0	3	0	2	0	1	1	3	1	3	4	1	3	2	4	1	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:45745000C>G	uc003cos.2	+	2	307	c.103C>G	c.(103-105)CGT>GGT	p.R35G	SACM1L_uc011bag.1_5'UTR|SACM1L_uc011bah.1_Silent_p.T11T	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	35						Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		TACCATTGACCGTGTGTCCAC	0.338													72	121					0	0	1	0	0		G	45745000	G	G	45745000	3	3	155	1	0	0	0	0	1	0	0	0	13828	652	23	5	109	5	SACM1L	3	45745000	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2972992	45745000	152277430	321	84148											
FYCO1	79443	broad.mit.edu	37	chr3	46008705	46008705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgcagctgctgacactcGccctccttgctctgtagaat	6	11	8	16	2	1	2	0	1	1	1	4	2	3	2	3	0	3	5	3	0	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:46008705G>A	uc003cpb.3	-	8	2327	c.2121C>T	c.(2119-2121)GGC>GGT	p.G707G	FYCO1_uc011bal.1_Silent_p.G707G	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	707	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCTGACACTCGCCCTCCTTGC	0.612													6	251					0	0	1	0	0		A	46008705	A	A	46008705	2	1	155	1	0	0	0	0	0	0	0	1	6139	1074	38	1		1	FYCO1	3	46008705	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	263705	46008705	152013725	322	84149											
ALS2CL	259173	broad.mit.edu	37	chr3	46722765	46722765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcctcaatgccatagccGctcctctggcccctctccca	5	10	5	21	1	3	0	1	0	2	0	7	0	6	0	8	1	2	1	8	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:46722765G>A	uc003cqa.1	-	13	1597	c.1407C>T	c.(1405-1407)AGC>AGT	p.S469S	ALS2CL_uc003cpz.1_5'UTR|ALS2CL_uc003cqb.1_Silent_p.S469S|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	469	MORN 5.				endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		TGCCATAGCCGCTCCTCTGGC	0.667													13	151					0	0	1	0	0		A	46722765	A	A	46722765	2	1	155	1	0	0	0	0	0	0	0	1	551	1078	38	1		1	ALS2CL	3	46722765	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	714060	46722765	151299665	323	84150											
NBEAL2	23218	broad.mit.edu	37	chr3	47037248	47037248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtttgaggccttcttcacggCggccgggaccctggtggtgg	3	10	17	11	3	2	1	1	1	1	0	2	2	2	2	3	7	0	1	3	7	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:47037248C>T	uc003cqp.2	+	14	2122	c.1943C>T	c.(1942-1944)GCG>GTG	p.A648V	NBEAL2_uc010hjm.1_Missense_Mutation_p.A209V	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	648							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		TTCTTCACGGCGGCCGGGACC	0.597													13	10					0	0	1	0	0		T	47037248	T	T	47037248	3	4	155	1	0	0	0	0	1	0	0	0	10207	768	27	1	1997	1	NBEAL2	3	47037248	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	314483	47037248	150985182	324	84151											
FBXW12	285231	broad.mit.edu	37	chr3	48422396	48422396	+	Missense_Mutation	SNP	A	G	G	1	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	agactggaggccaaacagtcAtccaaggtaggctgtgccac	12	6	12	11	0	1	1	1	0	0	1	2	2	2	2	3	4	2	2	3	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:48422396A>G	uc003csr.2	+	8	1165	c.979A>G	c.(979-981)ATC>GTC	p.I327V	FBXW12_uc010hjv.2_Missense_Mutation_p.I308V|FBXW12_uc003css.2_Missense_Mutation_p.I257V|FBXW12_uc010hjw.2_Missense_Mutation_p.I226V	NM_207102	NP_996985	Q6X9E4	FBW12_HUMAN	F-box and WD repeat domain containing 12 isoform	327	WD 4.										0				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCAAACAGTCATCCAAGGTAG	0.413													37	47					0	0	1	0	0		G	48422396	G	G	48422396	3	3	155	1	0	0	0	0	1	0	0	0	5779	217	8	3	1042	3	FBXW12	3	48422396	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1385148	48422396	149600034	325	84152											
COL7A1	1294	broad.mit.edu	37	chr3	48619157	48619157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccgttccccttggactccGgtagctcctctgggcccagc	4	9	10	18	2	1	0	0	0	1	0	4	1	4	1	6	3	2	3	6	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:48619157G>A	uc003ctz.2	-	48	4705	c.4704C>T	c.(4702-4704)ACC>ACT	p.T1568T	MIR711_hsa-mir-711|MI0012488_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1568	Triple-helical region.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CTTGGACTCCGGTAGCTCCTC	0.587													88	140					0	0	1	0	0		A	48619157	A	A	48619157	2	1	155	1	0	0	0	0	0	0	0	1	3707	1103	39	1		1	COL7A1	3	48619157	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	196761	48619157	149403273	326	84153											
BSN	8927	broad.mit.edu	37	chr3	49680130	49680130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagctcttcggccttggcGcgtcactgctaacccaggcg	6	9	12	14	4	2	0	1	0	1	0	3	0	2	0	2	3	3	3	2	3	2	4	rs148125466	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:49680130G>A	uc003cxe.3	+	3	1177	c.1063G>A	c.(1063-1065)GCG>ACG	p.A355T		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	355					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CGGCCTTGGCGCGTCACTGCT	0.657													28	30					0	0	1	0	0		A	49680130	A	A	49680130	3	1	155	1	0	0	0	0	1	0	0	0	1533	1087	38	1	1073	1	BSN	3	49680130	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1060973	49680130	148342300	327	84154											
HYAL3	8372	broad.mit.edu	37	chr3	50330907	50330907	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgatcacataggggcccaAggtgtccaccaggtagtcat	11	9	11	10	0	2	1	2	1	0	0	3	1	3	1	3	4	0	1	3	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:50330907A>C	uc003czd.1	-	4	1297	c.1024T>G	c.(1024-1026)TTG>GTG	p.L342V	HYAL3_uc003czc.1_Missense_Mutation_p.L312V|HYAL3_uc003cze.1_Missense_Mutation_p.L93V|HYAL3_uc003czf.1_Missense_Mutation_p.L63V|HYAL3_uc003czg.1_Missense_Mutation_p.L312V|IFRD2_uc011bdp.1_5'Flank|IFRD2_uc003czb.2_5'Flank	NM_003549	NP_003540	O43820	HYAL3_HUMAN	hyaluronoglucosaminidase 3 precursor	342					carbohydrate metabolic process	extracellular region|lysosome	hyalurononglucosaminidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		TAGGGGCCCAAGGTGTCCACC	0.582													24	26					0	0	1	0	0		C	50330907	C	C	50330907	3	2	155	1	0	0	0	0	1	0	0	0	7481	69	3	5	233	5	HYAL3	3	50330907	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	650777	50330907	147691523	328	84155											
RBM15B	29890	broad.mit.edu	37	chr3	51430740	51430742	+	In_Frame_Del	DEL	AGG	-	-																															cacccctgagcgcagccgcaAggagaaccactccagtgaag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:51430740_51430742delAGG	uc003dbd.2	+	1	2010_2012	c.1910_1912delAGG	c.(1909-1914)AAGGAG>AAG	p.E638del		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	638					interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CGCAGCCGCAAGGAGAACCACTC	0.631													11	19	---	---	---	---						.	-	51430742	-	-	51430740	7	5	155	1	0	1	0	1	0	0	0	0	13142	72	3	0	1912	0	RBM15B	3	51430740	In_Frame_Del	DEL	AGG	TCGA-CG-5726-01A-11D-1600-08	1099833	51430740	146591690	329	84156											
RAD54L2	23132	broad.mit.edu	37	chr3	51664851	51664851	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gatgtcttaaaccagcgtgaCgcccttgggcgggtccttgt	6	11	13	11	3	1	1	0	1	1	0	2	2	2	1	3	2	2	0	3	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:51664851C>T	uc011bdt.1	+	6	854	c.729C>T	c.(727-729)GAC>GAT	p.D243D	RAD54L2_uc003dbh.2_Translation_Start_Site|RAD54L2_uc011bdu.1_Translation_Start_Site|RAD54L2_uc003dbj.2_Translation_Start_Site	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	243						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		ACCAGCGTGACGCCCTTGGGC	0.522													46	60					0	0	1	0	0		T	51664851	T	T	51664851	2	4	155	1	0	0	0	0	0	0	0	1	13019	535	19	1		1	RAD54L2	3	51664851	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	234111	51664851	146357579	330	84157											
TEX264	51368	broad.mit.edu	37	chr3	51733548	51733548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggagacagagtggaaatggCgggggcttgtggaggccatt	10	7	19	5	1	0	2	0	0	0	2	0	5	0	4	1	7	0	1	1	7	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:51733548C>T	uc010hls.2	+	5	776	c.607C>T	c.(607-609)CGG>TGG	p.R203W	TEX264_uc003dbk.3_Missense_Mutation_p.R203W|TEX264_uc010hlt.2_Missense_Mutation_p.R23W|TEX264_uc003dbl.3_Missense_Mutation_p.R203W|TEX264_uc003dbm.3_Missense_Mutation_p.R242W	NM_001129884	NP_001123356	Q9Y6I9	TX264_HUMAN	testis expressed 264 precursor	203						extracellular region					0				BRCA - Breast invasive adenocarcinoma(193;8.53e-05)|Kidney(197;0.000594)|KIRC - Kidney renal clear cell carcinoma(197;0.000759)		GTGGAAATGGCGGGGGCTTGT	0.577													68	94					0	0	1	0	0		T	51733548	T	T	51733548	3	4	155	1	0	0	0	0	1	0	0	0	15808	759	27	1	617	1	TEX264	3	51733548	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	68697	51733548	146288882	331	84158											
TLR9	54106	broad.mit.edu	37	chr3	52257576	52257576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcagcggcggcaatttccGcccacatcgagcacacgcag	9	5	11	16	6	0	0	0	0	0	0	3	1	1	0	2	2	2	4	2	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:52257576G>A	uc003dda.1	-	2	1390	c.756C>T	c.(754-756)GGC>GGT	p.G252G	TLR9_uc003ddb.2_Silent_p.G349G	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	252	LRR 8.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	GGCAATTTCCGCCCACATCGA	0.622													4	19					0	0	1	0	0		A	52257576	A	A	52257576	2	1	155	1	0	0	0	0	0	0	0	1	15983	1074	38	1		1	TLR9	3	52257576	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	524028	52257576	145764854	332	84159											
GLT8D1	55830	broad.mit.edu	37	chr3	52731828	52731828	+	Frame_Shift_Del	DEL	C	-	-																															gctgtttatagctgcaatggCccccccaagcctgtcttcag																								rs115960994	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:52731828delC	uc003dfi.3	-	4	377	c.238delG	c.(238-240)GCCfs	p.A80fs	GLT8D1_uc003dfj.2_Frame_Shift_Del_p.A80fs|GLT8D1_uc003dfk.2_Frame_Shift_Del_p.A80fs|GLT8D1_uc003dfl.2_Frame_Shift_Del_p.A80fs|GLT8D1_uc003dfm.2_Frame_Shift_Del_p.A80fs|GLT8D1_uc003dfn.2_Frame_Shift_Del_p.A80fs|GLT8D1_uc003dfo.1_Frame_Shift_Del_p.A80fs	NM_152932	NP_690909	Q68CQ7	GL8D1_HUMAN	glycosyltransferase 8 domain containing 1	80	Lumenal (Potential).					integral to membrane|mitochondrion	transferase activity, transferring glycosyl groups				0				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GCTGCAATGGCCCCCCCAAGC	0.483													41	92	---	---	---	---						.	-	52731828	-	-	52731828	7	5	155	1	0	1	0	1	0	0	0	0	6484	739	26	0	905	0	GLT8D1	3	52731828	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	474252	52731828	145290602	333	84160											
SFMBT1	51460	broad.mit.edu	37	chr3	52945098	52945098	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccgaagaggttaggacaGcattccagtttgatacaggt	12	9	13	7	1	0	2	0	1	0	1	1	5	1	4	2	4	2	3	2	4	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:52945098G>A	uc003dgf.2	-	18	2396	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C	SFMBT1_uc010hmr.2_Silent_p.C556C|SFMBT1_uc003dgg.2_Silent_p.C609C|SFMBT1_uc003dgh.2_Silent_p.C609C	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	609					regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		GGTTAGGACAGCATTCCAGTT	0.433													7	187					0	0	1	0	0		A	52945098	A	A	52945098	2	1	155	1	0	0	0	0	0	0	0	1	14182	963	34	2		2	SFMBT1	3	52945098	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	213270	52945098	145077332	334	84161											
CACNA2D3	55799	broad.mit.edu	37	chr3	54922040	54922040	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcggtggtgagtgcccccaTtgaagcgtattggaccagcc	7	8	14	12	3	0	2	0	2	0	0	0	3	0	3	4	3	3	1	4	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:54922040T>A	uc003dhf.2	+	24	2159	c.2111T>A	c.(2110-2112)ATT>AAT	p.I704N	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.I610N|CACNA2D3_uc003dhh.1_RNA|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	704	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		AGTGCCCCCATTGAAGCGTAT	0.507													57	74					0	0	1	0	0		A	54922040	A	A	54922040	3	1	155	1	0	0	0	0	1	0	0	0	2553	1493	52	5	2205	5	CACNA2D3	3	54922040	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1976942	54922040	143100390	335	84162											
CCDC66	285331	broad.mit.edu	37	chr3	56597857	56597857	+	Frame_Shift_Del	DEL	A	-	-																															aacatcacaggcaaaaggtgAaaaaaatggaatgacttttt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:56597857delA	uc003dhz.2	+	4	335	c.248delA	c.(247-249)GAAfs	p.E83fs	CCDC66_uc003dhy.2_5'UTR|CCDC66_uc003dhu.2_Frame_Shift_Del_p.E49fs|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dhv.2_RNA|CCDC66_uc003dhw.2_Frame_Shift_Del_p.E83fs	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	83										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		GCAAAAGGTGAAAAAAATGGA	0.358													8	12	---	---	---	---						.	-	56597857	-	-	56597857	7	5	155	1	0	1	0	1	0	0	0	0	2841	246	9	0	262	0	CCDC66	3	56597857	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1675817	56597857	141424573	336	84163											
C3orf63	23272	broad.mit.edu	37	chr3	56675690	56675690	+	Missense_Mutation	SNP	T	C	C	0	1	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	ataaccaattaaacagcctaTggatgtcagcaatgccggag	15	8	9	9	1	1	0	1	0	0	0	1	2	1	2	3	2	5	1	3	2	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:56675690T>C	uc003did.3	-	15	2407	c.2306A>G	c.(2305-2307)CAT>CGT	p.H769R	C3orf63_uc003dic.3_Missense_Mutation_p.H373R|C3orf63_uc003die.3_Missense_Mutation_p.H769R	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	769										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		AAACAGCCTATGGATGTCAGC	0.473													68	85					0	0	1	0	0		C	56675690	C	C	56675690	3	2	155	1	0	0	0	0	1	0	0	0	2242	1464	51	3	2806	3	C3orf63	3	56675690	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	77833	56675690	141346740	337	84164											
DNAH12	201625	broad.mit.edu	37	chr3	57528532	57528532	+	Frame_Shift_Del	DEL	G	-	-																															ttttctgggagatggacaatGgggggtaacttcaagttcag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:57528532delG	uc003dit.2	-	2	247	c.66delC	c.(64-66)CCCfs	p.P22fs	DNAH12_uc003diu.2_Frame_Shift_Del_p.P22fs	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1	22	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						GATGGACAATGGGGGGTAACT	0.413													81	162	---	---	---	---						.	-	57528532	-	-	57528532	7	5	155	1	0	1	0	1	0	0	0	0	4606	1335	47	0	9487	0	DNAH12	3	57528532	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	852842	57528532	140493898	338	84165											
FLNB	2317	broad.mit.edu	37	chr3	58121816	58121816	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatatgattggagtcacctaCgggggtgacgacatcccact	10	10	11	10	2	1	2	1	2	0	0	2	4	2	3	2	3	1	0	2	3	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:58121816C>T	uc003djj.2	+	28	4947	c.4782C>T	c.(4780-4782)TAC>TAT	p.Y1594Y	FLNB_uc010hne.2_Silent_p.Y1625Y|FLNB_uc003djk.2_Silent_p.Y1594Y|FLNB_uc010hnf.2_Silent_p.Y1594Y|FLNB_uc003djl.2_Silent_p.Y1425Y|FLNB_uc003djm.2_Silent_p.Y1425Y	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1594	Filamin 14.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		GAGTCACCTACGGGGGTGACG	0.537													17	30					0	0	1	0	0		T	58121816	T	T	58121816	2	4	155	1	0	0	0	0	0	0	0	1	5948	547	19	1		1	FLNB	3	58121816	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	593284	58121816	139900614	339	84166											
FAM3D	131177	broad.mit.edu	37	chr3	58631238	58631238	+	Silent	SNP	G	A	A	0	0	1	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	tgtgtcttaggtacttacatGcggtcttcaaagcacatagt	10	14	9	8	1	3	0	1	0	2	0	3	0	3	0	0	2	4	2	0	2	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:58631238G>A	uc003dkq.2	-	5	558	c.261C>T	c.(259-261)CGC>CGT	p.R87R		NM_138805	NP_620160	Q96BQ1	FAM3D_HUMAN	family with sequence similarity 3, member D	87					negative regulation of insulin secretion	extracellular region	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000225)|Kidney(10;0.000667)|KIRC - Kidney renal clear cell carcinoma(10;0.000802)|OV - Ovarian serous cystadenocarcinoma(275;0.169)		GTACTTACATGCGGTCTTCAA	0.438													10	23					0	0	1	0	0		A	58631238	A	A	58631238	2	1	155	1	0	0	0	0	0	0	0	1	5573	1306	46	2		2	FAM3D	3	58631238	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	509422	58631238	139391192	340	84167											
SLC25A26	115286	broad.mit.edu	37	chr3	66428192	66428192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggggcttatgaccgaacGcacagcttgctgttggaagt	8	10	14	9	2	0	1	0	1	0	0	0	3	0	2	1	3	3	5	1	3	3	3	rs147162139		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:66428192G>A	uc011bfq.1	+	11	1514	c.786G>A	c.(784-786)ACG>ACA	p.T262T	SLC25A26_uc011bfs.1_Silent_p.T174T|SLC25A26_uc011bft.1_RNA|SLC25A26_uc011bfr.1_Silent_p.T262T|SLC25A26_uc003dmt.2_3'UTR	NM_173471	NP_775742	Q70HW3	SAMC_HUMAN	solute carrier family 25, member 26 isoform a	262	Solcar 3.					integral to membrane|mitochondrial inner membrane|nucleus	S-adenosylmethionine transmembrane transporter activity			pancreas(1)	1		Lung NSC(201;0.00774)		BRCA - Breast invasive adenocarcinoma(55;0.00046)|KIRC - Kidney renal clear cell carcinoma(15;0.0515)|Kidney(15;0.0648)		ATGACCGAACGCACAGCTTGC	0.502													9	252					0	0	1	0	0		A	66428192	A	A	66428192	2	1	155	1	0	0	0	0	0	0	0	1	14514	1074	38	1		1	SLC25A26	3	66428192	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7796954	66428192	131594238	341	84168											
ROBO1	6091	broad.mit.edu	37	chr3	78710235	78710235	+	Frame_Shift_Del	DEL	A	-	-																															tctgctccttgaaattcattAaaaaaagggcgagccttaat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:78710235delA	uc003dqe.2	-	16	2473	c.2265delT	c.(2263-2265)TTTfs	p.F755fs	ROBO1_uc003dqb.2_Frame_Shift_Del_p.F716fs|ROBO1_uc003dqc.2_Frame_Shift_Del_p.F719fs|ROBO1_uc003dqd.2_Frame_Shift_Del_p.F719fs|ROBO1_uc010hoh.2_5'UTR|ROBO1_uc011bgl.1_Frame_Shift_Del_p.F327fs|ROBO1_uc003dqf.1_Frame_Shift_Del_p.F434fs	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	755	Extracellular (Potential).|Fibronectin type-III 2.				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GAAATTCATTAAAAAAAGGGC	0.398													22	48	---	---	---	---						.	-	78710235	-	-	78710235	7	5	155	1	0	1	0	1	0	0	0	0	13538	359	13	0	2754	0	ROBO1	3	78710235	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	12282043	78710235	119312195	342	84169											
PROS1	5627	broad.mit.edu	37	chr3	93611853	93611853	+	Missense_Mutation	SNP	T	A	A	0	1	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	gttcattcttaagctgaactTcaatctttccaccacgaagt	11	14	5	11	1	4	1	2	1	2	0	5	2	5	1	2	0	2	2	2	0	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:93611853T>A	uc003drb.3	-	10	1420	c.1079A>T	c.(1078-1080)GAA>GTA	p.E360V	PROS1_uc010hoo.2_Missense_Mutation_p.E229V|PROS1_uc003dqz.3_Missense_Mutation_p.E229V	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	360	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	AAGCTGAACTTCAATCTTTCC	0.393													60	123					0	0	1	0	0		A	93611853	A	A	93611853	3	1	155	1	0	0	0	0	1	0	0	0	12580	1783	62	5	975	5	PROS1	3	93611853	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	14901618	93611853	104410577	343	84170											
STX19	415117	broad.mit.edu	37	chr3	93733837	93733837	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttatctcctttgtaatggTagactctctcttaagtagac	9	18	6	8	0	3	2	0	0	3	2	5	2	3	2	1	1	0	3	1	1	5	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:93733837T>C	uc003drh.1	-	2	534	c.277A>G	c.(277-279)ACC>GCC	p.T93A	ARL13B_uc003drc.2_Intron|ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Intron|ARL13B_uc003drf.2_Intron|ARL13B_uc003drg.2_Intron	NM_001001850	NP_001001850	Q8N4C7	STX19_HUMAN	syntaxin 19	93					intracellular protein transport|vesicle-mediated transport	membrane	SNAP receptor activity				0						TTTGTAATGGTAGACTCTCTC	0.338													132	215					0	0	1	0	0		C	93733837	C	C	93733837	3	2	155	1	0	0	0	0	1	0	0	0	15367	1638	57	3	611	3	STX19	3	93733837	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	121984	93733837	104288593	344	84171											
OR5K2	402135	broad.mit.edu	37	chr3	98216757	98216757	+	Frame_Shift_Del	DEL	C	-	-																															ttgctgtgcctgtgctattaCccccaaaatgttagagaact																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:98216757delC	uc011bgx.1	+	1	233	c.233delC	c.(232-234)ACCfs	p.T78fs		NM_001004737	NP_001004737	Q8NHB8	OR5K2_HUMAN	olfactory receptor, family 5, subfamily K,	78	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						TGTGCTATTACCCCCAAAATG	0.428													169	263	---	---	---	---						.	-	98216757	-	-	98216757	7	5	155	1	0	1	0	1	0	0	0	0	11186	507	18	0	235	0	OR5K2	3	98216757	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	4482920	98216757	99805673	345	84172											
IMPG2	50939	broad.mit.edu	37	chr3	100972552	100972552	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaacataccagaatagatgaCggcgttgcctgaagacttga	15	8	10	8	2	0	6	0	3	0	3	0	6	0	6	2	1	3	1	2	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:100972552C>T	uc003duq.1	-	11	1430	c.1227G>A	c.(1225-1227)CCG>CCA	p.P409P	IMPG2_uc011bhe.1_Silent_p.P272P	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	409	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAATAGATGACGGCGTTGCCT	0.403													27	39					0	0	1	0	0		T	100972552	T	T	100972552	2	4	155	1	0	0	0	0	0	0	0	1	7745	523	19	1		1	IMPG2	3	100972552	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2755795	100972552	97049878	346	84173											
SENP7	57337	broad.mit.edu	37	chr3	101044872	101044872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtttggtctttattacatgaCgaggaaaccacttctccaaa	12	13	7	9	1	2	1	0	1	2	0	3	3	2	2	2	2	2	1	2	2	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:101044872C>T	uc003dut.2	-	24	3179	c.3068G>A	c.(3067-3069)CGT>CAT	p.R1023H	SENP7_uc003duu.2_Missense_Mutation_p.R958H|SENP7_uc003duv.2_Missense_Mutation_p.R990H|SENP7_uc003duw.2_Missense_Mutation_p.R957H|SENP7_uc003dux.2_Missense_Mutation_p.R859H|SENP7_uc003dus.2_Missense_Mutation_p.R211H	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	1023	Protease.				proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TATTACATGACGAGGAAACCA	0.368													70	87					0	0	1	0	0		T	101044872	T	T	101044872	3	4	155	1	0	0	0	0	1	0	0	0	14076	536	19	1	88	1	SENP7	3	101044872	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	72320	101044872	96977558	347	84174											
SENP7	57337	broad.mit.edu	37	chr3	101083705	101083705	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattcacatgtaatcaatggTagttctaacaatgctgattc	13	14	7	7	0	3	1	2	1	1	0	4	2	3	1	0	1	2	4	0	1	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:101083705T>C	uc003dut.2	-	10	1560	c.1449A>G	c.(1447-1449)CTA>CTG	p.L483L	SENP7_uc003duu.2_Silent_p.L418L|SENP7_uc003duv.2_Silent_p.L450L|SENP7_uc003duw.2_Silent_p.L417L|SENP7_uc003dux.2_Silent_p.L319L	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	483					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TAATCAATGGTAGTTCTAACA	0.299													65	83					0	0	1	0	0		C	101083705	C	C	101083705	2	2	155	1	0	0	0	0	0	0	0	1	14076	1625	57	3		3	SENP7	3	101083705	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	38833	101083705	96938725	348	84175											
BOC	91653	broad.mit.edu	37	chr3	112991965	112991965	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctggtcatcccctggggCcagagtgccaagcttacctg	7	8	12	14	0	1	1	1	0	0	1	2	1	2	1	5	3	4	2	5	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:112991965C>T	uc003dzx.2	+	8	1632	c.1011C>T	c.(1009-1011)GGC>GGT	p.G337G	BOC_uc003dzy.2_Silent_p.G337G|BOC_uc003dzz.2_Silent_p.G337G|BOC_uc003eab.2_Silent_p.G38G	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	337	Ig-like C2-type 4.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TCCCCTGGGGCCAGAGTGCCA	0.642													7	95					0	0	1	0	0		T	112991965	T	T	112991965	2	4	155	1	0	0	0	0	0	0	0	1	1482	726	26	2		2	BOC	3	112991965	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	11908260	112991965	85030465	349	84176											
BOC	91653	broad.mit.edu	37	chr3	112999406	112999406	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctccattccctatagtAcatcccagcaagtaacaaca	13	11	3	14	0	2	0	0	0	2	0	5	0	4	0	3	0	4	3	3	0	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:112999406A>G	uc003dzx.2	+	14	2825	c.2204A>G	c.(2203-2205)TAC>TGC	p.Y735C	BOC_uc003dzy.2_Missense_Mutation_p.Y735C|BOC_uc003dzz.2_Missense_Mutation_p.Y736C|BOC_uc003eab.2_Missense_Mutation_p.Y436C|BOC_uc003eac.2_Missense_Mutation_p.Y50C	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	735	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TCCCTATAGTACATCCCAGCA	0.418													4	161					0	0	1	0	0		G	112999406	G	G	112999406	3	3	155	1	0	0	0	0	1	0	0	0	1482	405	14	3	2250	3	BOC	3	112999406	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	7441	112999406	85023024	350	84177											
KIAA2018	205717	broad.mit.edu	37	chr3	113378505	113378505	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgatgaagacatcacaGgctgcaaagcaaagagctgt	14	8	10	9	0	1	4	1	2	0	2	2	4	2	4	1	1	3	4	1	1	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:113378505G>T	uc003eam.2	-	7	2435	c.2024C>A	c.(2023-2025)CCT>CAT	p.P675H	KIAA2018_uc003eal.2_Missense_Mutation_p.P619H	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	675					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						AGACATCACAGGCTGCAAAGC	0.398													15	172					7.93312e-07	8.2082e-07	1	1	0		T	113378505	T	T	113378505	3	4	155	1	0	0	0	0	1	0	0	0	8284	1000	35	5	4717	5	KIAA2018	3	113378505	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	379099	113378505	84643925	351	84178											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													41	69	---	---	---	---						.	-	114058003	-	-	114058003	7	5	155	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	679498	114058003	83964427	352	84179											
GOLGB1	2804	broad.mit.edu	37	chr3	121388136	121388136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atagtgctgctggttctcacGaagactctgactggtatcgc	8	12	11	10	2	2	2	1	1	2	1	4	3	2	2	0	2	2	4	0	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:121388136G>A	uc003eei.3	-	18	9355	c.9229C>T	c.(9229-9231)CGT>TGT	p.R3077C	GOLGB1_uc010hrc.2_Missense_Mutation_p.R3082C|GOLGB1_uc003eej.3_Missense_Mutation_p.R3043C	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	3077	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		TGGTTCTCACGAAGACTCTGA	0.483													8	196					0	0	1	0	0		A	121388136	A	A	121388136	3	1	155	1	0	0	0	0	1	0	0	0	6580	1058	37	1	570	1	GOLGB1	3	121388136	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7330133	121388136	76634294	353	84180											
KALRN	8997	broad.mit.edu	37	chr3	124413263	124413263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgcaaagtctgtgggcGgccaaagcccaccatcactt	10	7	11	13	1	2	0	1	0	1	0	2	0	2	0	3	2	2	2	3	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:124413263G>A	uc003ehg.2	+	53	7617	c.7490G>A	c.(7489-7491)CGG>CAG	p.R2497Q	KALRN_uc003ehk.2_Missense_Mutation_p.R800Q	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2496	Ig-like C2-type.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GTCTGTGGGCGGCCAAAGCCC	0.532													5	149					0	0	1	0	0		A	124413263	A	A	124413263	3	1	155	1	0	0	0	0	1	0	0	0	7991	1116	39	1	7856	1	KALRN	3	124413263	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3025127	124413263	73609167	354	84181											
ITGB5	3693	broad.mit.edu	37	chr3	124560272	124560272	+	Silent	SNP	A	G	G	1	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	actgcatcaaagcccccctcAggggcatctcggttccggga	8	7	11	15	2	3	0	2	0	1	0	5	1	4	1	4	4	2	3	4	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:124560272A>G	uc003eho.2	-	5	1035	c.738T>C	c.(736-738)CCT>CCC	p.P246P		NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	246	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		AGCCCCCCTCAGGGGCATCTC	0.572													21	48					0	0	1	0	0		G	124560272	G	G	124560272	2	3	155	1	0	0	0	0	0	0	0	1	7914	175	7	3		3	ITGB5	3	124560272	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	147009	124560272	73462158	355	84182											
SNX4	8723	broad.mit.edu	37	chr3	125176163	125176163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggatgctaagtcctgagcagCcatctccaagtcatactgca	11	9	9	12	0	2	1	1	1	1	0	4	2	3	2	3	1	5	3	3	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:125176163C>T	uc003eib.2	-	11	1033	c.991G>A	c.(991-993)GCT>ACT	p.A331T	SNX4_uc011bkf.1_Missense_Mutation_p.A186T	NM_003794	NP_003785	O95219	SNX4_HUMAN	sorting nexin 4	331					cell communication|endocytic recycling|endocytosis|protein transport	cytoplasmic dynein complex|early endosome membrane	phosphatidylinositol binding|protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4						TCCTGAGCAGCCATCTCCAAG	0.433													5	138					0	0	1	0	0		T	125176163	T	T	125176163	3	4	155	1	0	0	0	0	1	0	0	0	14929	739	26	2	377	2	SNX4	3	125176163	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	615891	125176163	72846267	356	84183											
PLXNA1	5361	broad.mit.edu	37	chr3	126741073	126741073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtggcctcgctcatcatgaCggccctgcagggcgagatgg	6	8	15	12	3	2	2	2	1	0	1	3	3	2	2	2	4	1	2	2	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:126741073C>T	uc003ejg.2	+	21	4119	c.4115C>T	c.(4114-4116)ACG>ATG	p.T1372M		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1395	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CTCATCATGACGGCCCTGCAG	0.607													7	14					0	0	1	0	0		T	126741073	T	T	126741073	3	4	155	1	0	0	0	0	1	0	0	0	12138	536	19	1	4266	1	PLXNA1	3	126741073	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1564910	126741073	71281357	357	84184											
PLXNA1	5361	broad.mit.edu	37	chr3	126747142	126747142	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggacgctgcctacaagggcgTgccctactcccagcggccca	7	5	12	17	3	0	0	0	0	0	0	1	1	1	1	4	3	5	1	4	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:126747142T>C	uc003ejg.2	+	24	4563	c.4559T>C	c.(4558-4560)GTG>GCG	p.V1520A	PLXNA1_uc003ejh.2_Missense_Mutation_p.V188A	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1543	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TACAAGGGCGTGCCCTACTCC	0.682													3	31					0	0	1	0	0		C	126747142	C	C	126747142	3	2	155	1	0	0	0	0	1	0	0	0	12138	1696	59	3	4722	3	PLXNA1	3	126747142	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	6069	126747142	71275288	358	84185											
COPG	22820	broad.mit.edu	37	chr3	128979597	128979597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgagagcagcatcgacCgcctcatgaagcagatctcc	11	5	11	14	3	2	3	1	1	1	2	4	5	2	3	3	0	4	4	3	0	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:128979597C>T	uc003els.2	+	12	1175	c.1075C>T	c.(1075-1077)CGC>TGC	p.R359C	COPG_uc010htb.2_Missense_Mutation_p.R265C	NM_016128	NP_057212	Q9Y678	COPG_HUMAN	coatomer protein complex, subunit gamma 1	359	HEAT 4.				COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(3)|breast(1)	4						CAGCATCGACCGCCTCATGAA	0.562													12	93					0	0	1	0	0		T	128979597	T	T	128979597	3	4	155	1	0	0	0	0	1	0	0	0	3734	652	23	1	1121	1	COPG	3	128979597	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2232455	128979597	69042833	359	84186											
PIK3R4	30849	broad.mit.edu	37	chr3	130435316	130435316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcgggaagagaaccatttCgtttcttctgacgcatgtga	10	12	11	8	3	2	3	0	2	2	1	4	5	2	4	1	1	1	2	1	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:130435316C>T	uc003enj.2	-	9	2836	c.2255G>A	c.(2254-2256)CGA>CAA	p.R752Q		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	752					fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						AGAACCATTTCGTTTCTTCTG	0.433													57	80					0	0	1	0	0		T	130435316	T	T	130435316	3	4	155	1	0	0	0	0	1	0	0	0	11940	884	31	1	1869	1	PIK3R4	3	130435316	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1455719	130435316	67587114	360	84187											
DNAJC13	23317	broad.mit.edu	37	chr3	132184906	132184906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcaacaaacttgttgaaaCgcattttggtaagtcagttg	12	13	9	7	1	1	1	1	1	0	0	1	1	1	1	0	1	4	5	0	1	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:132184906C>T	uc003eor.2	+	18	2025	c.1960C>T	c.(1960-1962)CGC>TGC	p.R654C	DNAJC13_uc010htq.1_Missense_Mutation_p.R654C	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	654							heat shock protein binding			ovary(1)|breast(1)	2						CTTGTTGAAACGCATTTTGGT	0.353													24	50					0	0	1	0	0		T	132184906	T	T	132184906	3	4	155	1	0	0	0	0	1	0	0	0	4638	536	19	1	2026	1	DNAJC13	3	132184906	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1749590	132184906	65837524	361	84188											
TMEM108	66000	broad.mit.edu	37	chr3	133099023	133099024	+	Frame_Shift_Ins	INS	-	C	C																															ccagccgccccaccacagcgINScccccccgcactaccacacg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:133099023_133099024insC	uc003eph.2	+	4	742_743	c.468_469insC	c.(466-471)GCGCCCfs	p.A156fs	TMEM108_uc003epi.2_Frame_Shift_Ins_p.A156fs|TMEM108_uc003epj.1_Frame_Shift_Ins_p.A156fs|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Frame_Shift_Ins_p.A107fs	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	156_157	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						CCACCACAGCGCCCCCCCGCAC	0.703													6	13	---	---	---	---						.	C	133099024	C	C	133099023	7	5	155	1	0	1	1	0	0	0	0	0	16049	1074	38	0	474	0	TMEM108	3	133099023	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	914117	133099023	64923407	362	84189											
PRR23A	729627	broad.mit.edu	37	chr3	138724625	138724625	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctggagctccggaaactcGgggtccgcgtcctcctcgta	6	9	12	14	5	1	0	0	0	1	0	7	2	5	2	4	4	2	2	4	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:138724625G>A	uc011bms.1	-	1	486	c.486C>T	c.(484-486)CCC>CCT	p.P162P		NM_001134659	NP_001128131	A6NEV1	PR23A_HUMAN	proline rich 23A	162											0						CCGGAAACTCGGGGTCCGCGT	0.657													14	11					0	0	1	0	0		A	138724625	A	A	138724625	2	1	155	1	0	0	0	0	0	0	0	1	12616	1103	39	1		1	PRR23A	3	138724625	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5625602	138724625	59297805	363	84190											
GRK7	131890	broad.mit.edu	37	chr3	141497732	141497732	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtgctggggaaaggtggtttTggggaggtaagtgtctccca	7	11	18	5	0	1	0	0	0	1	0	2	2	1	2	1	7	1	3	1	7	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:141497732T>G	uc011bnd.1	+	1	690	c.606T>G	c.(604-606)TTT>TTG	p.F202L		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	202	ATP (By similarity).|Protein kinase.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						AAGGTGGTTTTGGGGAGGTAA	0.463													53	86					0	0	1	0	0		G	141497732	G	G	141497732	3	3	155	1	0	0	0	0	1	0	0	0	6810	1809	63	5	608	5	GRK7	3	141497732	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2773107	141497732	56524698	364	84191											
AADAC	13	broad.mit.edu	37	chr3	151545776	151545776	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccctgacctatgtcatcaCctgtcaatatgatctcttaa	11	13	4	13	0	4	2	3	2	1	0	5	2	4	2	4	0	0	0	4	0	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:151545776C>A	uc003eze.2	+	5	1106	c.1016C>A	c.(1015-1017)ACC>AAC	p.T339N		NM_001086	NP_001077	P22760	AAAD_HUMAN	arylacetamide deacetylase	339	Lumenal (Potential).				positive regulation of triglyceride catabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	carboxylesterase activity|deacetylase activity|serine hydrolase activity|triglyceride lipase activity			skin(2)	2		Myeloproliferative disorder(1037;0.0255)|all_neural(597;0.112)	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TATGTCATCACCTGTCAATAT	0.468													72	109					8.20758e-20	8.81418e-20	1	1	0		A	151545776	A	A	151545776	3	1	155	1	0	0	0	0	1	0	0	0	10	507	18	5	1034	5	AADAC	3	151545776	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	10048044	151545776	46476654	365	84192											
DHX36	170506	broad.mit.edu	37	chr3	154022719	154022719	+	Missense_Mutation	SNP	A	C	C	1	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	tctgactgcagatttctttcAtggatttcatcaagtacgat	10	16	7	8	1	5	2	3	1	2	1	5	4	5	3	0	1	2	2	0	1	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:154022719A>C	uc003ezy.3	-	8	1092	c.1011T>G	c.(1009-1011)CAT>CAG	p.H337Q	DHX36_uc010hvq.2_Missense_Mutation_p.H337Q|DHX36_uc003ezz.3_Missense_Mutation_p.H337Q	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	337	Helicase ATP-binding.|DEAH box.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			GATTTCTTTCATGGATTTCAT	0.318													23	53					0	0	1	0	0		C	154022719	C	C	154022719	3	2	155	1	0	0	0	0	1	0	0	0	4515	214	8	5	2087	5	DHX36	3	154022719	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2476943	154022719	43999711	366	84193											
PLCH1	23007	broad.mit.edu	37	chr3	155222380	155222380	+	Silent	SNP	A	G	G	1	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	ttggtcatgagggatcgtccAtgtgatttctttccactttc	6	17	9	9	1	2	2	1	2	1	0	6	3	4	3	2	2	0	0	2	2	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:155222380A>G	uc011bok.1	-	12	1909	c.1632T>C	c.(1630-1632)CAT>CAC	p.H544H	PLCH1_uc011boj.1_Silent_p.H544H|PLCH1_uc011bol.1_Silent_p.H526H	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	544					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			GGGATCGTCCATGTGATTTCT	0.279													5	143					0	0	1	0	0		G	155222380	G	G	155222380	2	3	155	1	0	0	0	0	0	0	0	1	12056	214	8	3		3	PLCH1	3	155222380	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1199661	155222380	42800050	367	84194											
KCNAB1	7881	broad.mit.edu	37	chr3	155838427	155838427	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcccggacaggggcagcGgggagtcagatctcagagga	10	3	18	10	2	2	2	2	0	1	2	3	5	2	5	1	6	2	2	1	6	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:155838427G>A	uc003far.2	+	1	91	c.27G>A	c.(25-27)GCG>GCA	p.A9A	KCNAB1_uc011bon.1_Silent_p.A9A	NM_172160	NP_751892	Q14722	KCAB1_HUMAN	potassium voltage-gated channel, shaker-related	9						cytoplasm|integral to membrane	oxidoreductase activity|potassium channel regulator activity|voltage-gated potassium channel activity			ovary(3)|skin(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			CAGGGGCAGCGGGGAGTCAGA	0.483													98	175					0	0	1	0	0		A	155838427	A	A	155838427	2	1	155	1	0	0	0	0	0	0	0	1	8025	1103	39	1		1	KCNAB1	3	155838427	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	616047	155838427	42184003	368	84195											
EIF5A2	56648	broad.mit.edu	37	chr3	170625513	170625513	+	Frame_Shift_Del	DEL	T	-	-																															ctttgagcaccacgaagccgTttttgcgcaaggccgagcac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:170625513delT	uc003fhd.2	-	2	213	c.83delA	c.(82-84)AACfs	p.N28fs		NM_020390	NP_065123	Q9GZV4	IF5A2_HUMAN	eIF-5A2 protein	28					mRNA transport|peptidyl-lysine modification to hypusine|polyamine homeostasis|positive regulation of cell proliferation|positive regulation of translational elongation|positive regulation of translational termination|post-translational protein modification|protein transport|spermatogenesis|translational frameshifting|transmembrane transport	cytosol|endoplasmic reticulum membrane|nuclear pore	protein binding|ribosome binding|translation elongation factor activity				0	all_cancers(22;1.61e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;9.8e-16)|Lung(28;4.28e-15)			CACGAAGCCGTTTTTGCGCAA	0.517													114	226	---	---	---	---						.	-	170625513	-	-	170625513	7	5	155	1	0	1	0	1	0	0	0	0	5050	1725	60	0	394	0	EIF5A2	3	170625513	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	14787086	170625513	27396917	369	84196											
TBL1XR1	79718	broad.mit.edu	37	chr3	176769342	176769342	+	Frame_Shift_Del	DEL	T	-	-																															catttgctgtgttttctccaTtttttgcagatccttgttgg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:176769342delT	uc003fiw.3	-	5	637	c.377delA	c.(376-378)AATfs	p.N126fs	TBL1XR1_uc003fix.3_Frame_Shift_Del_p.N126fs|TBL1XR1_uc011bpz.1_Translation_Start_Site|TBL1XR1_uc003fiy.2_Frame_Shift_Del_p.N126fs	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1	126					canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			GTTTTCTCCATTTTTTGCAGA	0.418													83	164	---	---	---	---						.	-	176769342	-	-	176769342	7	5	155	1	0	1	0	1	0	0	0	0	15665	1493	52	0	1215	0	TBL1XR1	3	176769342	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	6143829	176769342	21253088	370	84197											
ACTL6A	86	broad.mit.edu	37	chr3	179298929	179298929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgttttcttttgttgtaggGgttatcaggaaacacaatgt	9	18	10	4	0	2	0	1	0	1	0	2	1	2	1	0	3	1	4	0	3	4	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:179298929G>A	uc003fjw.2	+	11	1120	c.947G>A	c.(946-948)GGG>GAG	p.G316E	ACTL6A_uc003fjx.2_Missense_Mutation_p.G274E|ACTL6A_uc003fjy.2_Missense_Mutation_p.G274E	NM_004301	NP_004292	O96019	ACL6A_HUMAN	actin-like 6A isoform 1	316					chromatin remodeling|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|nervous system development|regulation of growth|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	Ino80 complex|npBAF complex|NuA4 histone acetyltransferase complex|plasma membrane|SWI/SNF complex	ATP binding|chromatin binding			ovary(1)	1	all_cancers(143;3.94e-16)|Ovarian(172;0.0172)|Breast(254;0.191)		OV - Ovarian serous cystadenocarcinoma(80;5.98e-26)|GBM - Glioblastoma multiforme(14;0.0169)			TTGTTGTAGGGGTTATCAGGA	0.388													105	233					0	0	1	0	0		A	179298929	A	A	179298929	3	1	155	1	0	0	0	0	1	0	0	0	198	1246	43	4	989	4	ACTL6A	3	179298929	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2529587	179298929	18723501	371	84198											
ABCC5	10057	broad.mit.edu	37	chr3	183685490	183685490	+	Frame_Shift_Del	DEL	A	-	-																															acaaaaatcttacctggcctAaaatggctgaaatgagagag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:183685490delA	uc003fmg.2	-	12	1991	c.1826delT	c.(1825-1827)TTAfs	p.L609fs	ABCC5_uc011bqt.1_Frame_Shift_Del_p.L137fs|ABCC5_uc010hxl.2_Frame_Shift_Del_p.L609fs	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	609	Helical; (Potential).|ABC transporter 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TACCTGGCCTAAAATGGCTGA	0.448													159	196	---	---	---	---						.	-	183685490	-	-	183685490	7	5	155	1	0	1	0	1	0	0	0	0	56	372	13	0	2563	0	ABCC5	3	183685490	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	4386561	183685490	14336940	372	84199											
CHRD	8646	broad.mit.edu	37	chr3	184105786	184105786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgtgcccagcctgtgcGtgtcaaccccaccgactgct	5	8	11	17	2	1	0	1	0	0	0	1	1	1	0	6	1	5	1	6	1	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:184105786G>A	uc003fov.2	+	20	2765	c.2519G>A	c.(2518-2520)CGT>CAT	p.R840H	CHRD_uc003fow.2_Missense_Mutation_p.R470H|CHRD_uc003fox.2_Missense_Mutation_p.R840H|CHRD_uc003foy.2_Missense_Mutation_p.R470H|CHRD_uc010hyc.2_Missense_Mutation_p.R430H|CHRD_uc011brr.1_Missense_Mutation_p.R382H	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	840	VWFC 3.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CAGCCTGTGCGTGTCAACCCC	0.617													7	16					0	0	1	0	0		A	184105786	A	A	184105786	3	1	155	1	0	0	0	0	1	0	0	0	3375	1145	40	1	2597	1	CHRD	3	184105786	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	420296	184105786	13916644	373	84200											
RTP1	132112	broad.mit.edu	37	chr3	186917755	186917755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccaagtcgcaggaccagaCgggctcaggctggaacttct	10	6	12	13	2	2	1	1	0	1	1	3	3	2	3	2	4	1	3	2	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:186917755C>T	uc003frg.2	+	2	719	c.689C>T	c.(688-690)ACG>ATG	p.T230M		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	230	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		CAGGACCAGACGGGCTCAGGC	0.617													43	65					0	0	1	0	0		T	186917755	T	T	186917755	3	4	155	1	0	0	0	0	1	0	0	0	13758	536	19	1	695	1	RTP1	3	186917755	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2811969	186917755	11104675	374	84201											
LPP	4026	broad.mit.edu	37	chr3	188426170	188426170	+	Missense_Mutation	SNP	A	G	G	1	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	catggaaaatccacctgctgAcgaatactttggtgagtggg	11	10	12	8	1	0	2	0	2	0	0	1	4	1	3	2	3	2	1	2	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:188426170A>G	uc003frs.1	+	7	1475	c.1229A>G	c.(1228-1230)GAC>GGC	p.D410G	LPP_uc011bsg.1_Missense_Mutation_p.D263G|LPP_uc011bsi.1_Missense_Mutation_p.D410G|LPP_uc003frt.2_Missense_Mutation_p.D410G|LPP_uc011bsj.1_Missense_Mutation_p.D247G	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	410					cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		CCACCTGCTGACGAATACTTT	0.478			T	HMGA2|MLL|C12orf9	lipoma|leukemia								5	167					0	0	1	0	0		G	188426170	G	G	188426170	3	3	155	1	0	0	0	0	1	0	0	0	8941	275	10	3	1247	3	LPP	3	188426170	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1508415	188426170	9596260	375	84202											
DLG1	1739	broad.mit.edu	37	chr3	196857450	196857450	+	Frame_Shift_Del	DEL	T	-	-																															ttcatatacatacttgtgggTtttgccactttcaaataaac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:196857450delT	uc003fxo.3	-	12	1402	c.1212delA	c.(1210-1212)AAAfs	p.K404fs	DLG1_uc011bub.1_Frame_Shift_Del_p.K288fs|DLG1_uc011buc.1_Frame_Shift_Del_p.K288fs|DLG1_uc011bud.1_Frame_Shift_Del_p.K87fs|DLG1_uc003fxn.3_Frame_Shift_Del_p.K404fs|DLG1_uc011bue.1_Frame_Shift_Del_p.K371fs|DLG1_uc010ial.2_Frame_Shift_Del_p.K404fs|DLG1_uc011buf.1_RNA|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Frame_Shift_Del_p.K371fs|DLG1_uc010ian.2_Frame_Shift_Del_p.K271fs	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	404	PDZ 2.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		TACTTGTGGGTTTTGCCACTT	0.338													74	116	---	---	---	---						.	-	196857450	-	-	196857450	7	5	155	1	0	1	0	1	0	0	0	0	4560	1722	60	0	1666	0	DLG1	3	196857450	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	8431280	196857450	1164980	376	84203											
LRCH3	84859	broad.mit.edu	37	chr3	197553878	197553878	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatccactacaatcacctcCtgcacaggtaaaccatagtg	14	8	5	14	0	1	0	1	0	0	0	3	0	3	0	4	1	3	2	4	1	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:197553878C>A	uc011bul.1	+	5	775	c.770C>A	c.(769-771)CCT>CAT	p.P257H	LRCH3_uc003fyj.1_Missense_Mutation_p.P257H|LRCH3_uc011bum.1_Missense_Mutation_p.P257H|LRCH3_uc011bun.1_Missense_Mutation_p.P131H|LRCH3_uc003fyk.2_5'Flank	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	257	LRR 8.					extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		CAATCACCTCCTGCACAGGTA	0.463													5	81					0.0215528	0.021748	1	1	0		A	197553878	A	A	197553878	3	1	155	1	0	0	0	0	1	0	0	0	8952	681	24	5	788	5	LRCH3	3	197553878	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	696428	197553878	468552	377	84204											
LMLN	89782	broad.mit.edu	37	chr3	197703560	197703560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacacacaaagtgcggccccGttattgttcctgaggaacat	11	9	9	12	2	0	1	0	1	0	0	1	2	1	2	3	2	2	2	3	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:197703560G>A	uc011buo.1	+	5	545	c.523G>A	c.(523-525)GTT>ATT	p.V175I	LMLN_uc003fyt.2_Missense_Mutation_p.V123I|LMLN_uc010iar.2_Missense_Mutation_p.V175I|LMLN_uc010ias.2_Missense_Mutation_p.V123I|LMLN_uc003fyu.2_5'UTR	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	175					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GTGCGGCCCCGTTATTGTTCC	0.483													42	184					0	0	1	0	0		A	197703560	A	A	197703560	3	1	155	1	0	0	0	0	1	0	0	0	8864	1145	40	1	541	1	LMLN	3	197703560	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	149682	197703560	318870	378	84205											
LMLN	89782	broad.mit.edu	37	chr3	197751646	197751646	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gagttacccagactggggaaGcggatgctatcaggtaagct	11	8	14	8	1	1	1	1	0	0	1	1	4	1	3	1	4	4	4	1	4	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr3:197751646G>A	uc011buo.1	+	14	1665	c.1643G>A	c.(1642-1644)AGC>AAC	p.S548N	LMLN_uc003fyt.2_Missense_Mutation_p.S533N|LMLN_uc010iar.2_Missense_Mutation_p.S585N|LMLN_uc010ias.2_Missense_Mutation_p.S496N|LMLN_uc003fyu.2_Missense_Mutation_p.S345N	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	548					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GACTGGGGAAGCGGATGCTAT	0.353													73	151					0	0	1	0	0		A	197751646	A	A	197751646	3	1	155	1	0	0	0	0	1	0	0	0	8864	971	34	2	1812	2	LMLN	3	197751646	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	48086	197751646	270784	379	84206											
TACC3	10460	broad.mit.edu	37	chr4	1729454	1729454	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gccaacagctcatcaaggaaGtggatgccaaaactactcat	15	7	8	11	0	3	0	3	0	0	0	3	2	3	2	2	2	5	1	2	2	6	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:1729454G>A	uc003gdo.2	+	4	433	c.325G>A	c.(325-327)GTG>ATG	p.V109M	TACC3_uc010ibz.2_Missense_Mutation_p.V109M|TACC3_uc003gdp.2_Intron	NM_006342	NP_006333	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing	109						centrosome				ovary(1)|central_nervous_system(1)	2		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			CATCAAGGAAGTGGATGCCAA	0.448													82	520					0	0	1	0	0		A	1729454	A	A	1729454	3	1	155	1	0	0	0	0	1	0	0	0	15528	1029	36	4	335	4	TACC3	4	1729454	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08		1729454	189424822	380	84207											
WHSC1	7468	broad.mit.edu	37	chr4	1941423	1941423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtaaaccactgaagaagcGaaatcgggcttccacggcag	14	6	11	10	3	0	2	0	1	0	1	2	3	1	2	2	2	2	3	2	2	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:1941423G>A	uc003gdz.3	+	9	1975	c.1799G>A	c.(1798-1800)CGA>CAA	p.R600Q	WHSC1_uc003geb.3_Missense_Mutation_p.R600Q|WHSC1_uc003gec.3_Missense_Mutation_p.R600Q|WHSC1_uc003ged.3_Missense_Mutation_p.R600Q|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_5'UTR|WHSC1_uc003gdy.1_Missense_Mutation_p.R600Q|WHSC1_uc010icd.1_Missense_Mutation_p.R600Q|WHSC1_uc003gea.1_Missense_Mutation_p.R600Q|WHSC1_uc010ice.1_Missense_Mutation_p.R600Q|WHSC1_uc003geh.1_Missense_Mutation_p.R600Q	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	600					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		CTGAAGAAGCGAAATCGGGCT	0.358			T	IGH@	MM								51	59					0	0	1	0	0		A	1941423	A	A	1941423	3	1	155	1	0	0	0	0	1	0	0	0	17388	1058	37	1	1829	1	WHSC1	4	1941423	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	211969	1941423	189212853	381	84208											
HTT	3064	broad.mit.edu	37	chr4	3182362	3182362	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtgtcaatgttactgagacTcatccagtaccatcaggtaa	12	11	9	9	0	3	1	3	1	0	1	4	2	4	1	2	2	2	3	2	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:3182362T>C	uc011bvq.1	+	37	4884	c.4739T>C	c.(4738-4740)CTC>CCC	p.L1580P		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1578					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TTACTGAGACTCATCCAGTAC	0.438													29	146					0	0	1	0	0		C	3182362	C	C	3182362	3	2	155	1	0	0	0	0	1	0	0	0	7473	1551	54	3	4875	3	HTT	4	3182362	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1240939	3182362	187971914	382	84209											
RGS12	6002	broad.mit.edu	37	chr4	3429895	3429895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccagaaaccactcggctaCggtaattccccaccctggcc	9	7	7	18	2	0	1	0	0	0	1	3	1	2	1	6	3	2	2	6	3	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:3429895C>T	uc003ggw.2	+	15	4314	c.3410C>T	c.(3409-3411)ACG>ATG	p.T1137M	RGS12_uc003ggv.2_Missense_Mutation_p.T1137M|RGS12_uc003ggy.1_Missense_Mutation_p.T535M|RGS12_uc003ggz.2_Missense_Mutation_p.T489M|RGS12_uc010icu.1_Missense_Mutation_p.T336M|RGS12_uc011bvs.1_Missense_Mutation_p.T479M|RGS12_uc003gha.2_Missense_Mutation_p.T479M|RGS12_uc010icv.2_Missense_Mutation_p.T336M|RGS12_uc003ghb.2_Missense_Mutation_p.T336M	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1137						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CACTCGGCTACGGTAATTCCC	0.557													51	82					0	0	1	0	0		T	3429895	T	T	3429895	3	4	155	1	0	0	0	0	1	0	0	0	13320	550	19	1	3522	1	RGS12	4	3429895	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	247533	3429895	187724381	383	84210											
DOK7	285489	broad.mit.edu	37	chr4	3487306	3487306	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcggccgagggggagcaGatcagcttcctgttcgactg	6	9	14	12	3	1	1	1	0	0	1	5	4	3	2	3	3	2	3	3	3	0	2	rs146277586		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:3487306G>A	uc003ghd.2	+	5	643	c.573G>A	c.(571-573)CAG>CAA	p.Q191Q	DOK7_uc003ghe.2_Silent_p.Q53Q|DOK7_uc003ghf.2_5'UTR	NM_173660	NP_775931	Q18PE1	DOK7_HUMAN	downstream of tyrosine kinase 7 isoform 1	191	IRS-type PTB.				positive regulation of protein tyrosine kinase activity	cell junction|synapse	insulin receptor binding|protein kinase binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		AGGGGGAGCAGATCAGCTTCC	0.672													23	44					0	0	1	0	0		A	3487306	A	A	3487306	2	1	155	1	0	0	0	0	0	0	0	1	4708	942	33	4		4	DOK7	4	3487306	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	57411	3487306	187666970	384	84211											
OTOP1	133060	broad.mit.edu	37	chr4	4199303	4199303	+	Frame_Shift_Del	DEL	G	-	-																															caggttgtaccaggtgtagcGggggtggccctcagcacaga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:4199303delG	uc003ghp.1	-	5	1288	c.1258delC	c.(1258-1260)CGCfs	p.R420fs		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	420					biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CAGGTGTAGCGGGGGTGGCCC	0.572													47	79	---	---	---	---						.	-	4199303	-	-	4199303	7	5	155	1	0	1	0	1	0	0	0	0	11324	1116	39	0	588	0	OTOP1	4	4199303	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	711997	4199303	186954973	385	84212											
CRMP1	1400	broad.mit.edu	37	chr4	5838577	5838577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaagttgtccttgcccaccGccttctgggcagtgctgtag	6	12	11	12	1	1	0	0	0	1	0	2	0	2	0	4	1	2	4	4	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:5838577G>A	uc003gip.2	-	11	1126	c.1025C>T	c.(1024-1026)GCG>GTG	p.A342V	CRMP1_uc003gin.1_Missense_Mutation_p.A254V|CRMP1_uc003giq.2_Missense_Mutation_p.A342V|CRMP1_uc003gir.2_Missense_Mutation_p.A337V|CRMP1_uc003gis.2_Missense_Mutation_p.A456V	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	342					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CTTGCCCACCGCCTTCTGGGC	0.577													47	88					0	0	1	0	0		A	5838577	A	A	5838577	3	1	155	1	0	0	0	0	1	0	0	0	3893	1087	38	1	713	1	CRMP1	4	5838577	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1639274	5838577	185315699	386	84213											
HTRA3	94031	broad.mit.edu	37	chr4	8293275	8293275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgacatggactacatccagaCggatgccatcatcaacgtga	13	7	9	12	3	2	2	2	1	0	1	3	5	3	4	2	2	3	0	2	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:8293275C>T	uc003gla.2	+	4	1091	c.887C>T	c.(886-888)ACG>ATG	p.T296M	HTRA3_uc003gkz.2_Missense_Mutation_p.T296M	NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	296	Serine protease.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						TACATCCAGACGGATGCCATC	0.632													4	32					0	0	1	0	0		T	8293275	T	T	8293275	3	4	155	1	0	0	0	0	1	0	0	0	7471	536	19	1	901	1	HTRA3	4	8293275	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2454698	8293275	182861001	387	84214											
ACOX3	8310	broad.mit.edu	37	chr4	8394073	8394073	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacctactggccagatagccGtgtcctccacacgcctcccg	8	7	8	18	3	0	1	0	0	0	1	3	1	3	1	7	1	3	0	7	1	3	2	rs148695498		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:8394073G>A	uc010idk.2	-	11	1432	c.1287C>T	c.(1285-1287)CAC>CAT	p.H429H	ACOX3_uc003glc.3_Silent_p.H429H|ACOX3_uc003gld.3_Silent_p.H429H|ACOX3_uc003gle.1_Silent_p.H334H	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	429					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						CCAGATAGCCGTGTCCTCCAC	0.517													164	215					0	0	1	0	0		A	8394073	A	A	8394073	2	1	155	1	0	0	0	0	0	0	0	1	160	1136	40	1		1	ACOX3	4	8394073	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	100798	8394073	182760203	388	84215											
DHX15	1665	broad.mit.edu	37	chr4	24542527	24542527	+	Silent	SNP	A	G	G	1	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	agtttcttcaattgtaacacAactgatcctaaattagaacg	15	13	5	8	1	2	2	1	1	1	1	3	2	3	2	1	0	3	2	1	0	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:24542527A>G	uc003gqx.2	-	9	1698	c.1530T>C	c.(1528-1530)GTT>GTC	p.V510V	DHX15_uc003gqw.2_5'Flank	NM_001358	NP_001349	O43143	DHX15_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 15	510	Helicase C-terminal.				mRNA processing	U12-type spliceosomal complex	ATP binding|ATP-dependent helicase activity|nucleic acid binding|RNA helicase activity			ovary(1)	1		Breast(46;0.0503)				ATTGTAACACAACTGATCCTA	0.328													6	130					0	0	1	0	0		G	24542527	G	G	24542527	2	3	155	1	0	0	0	0	0	0	0	1	4507	117	5	3		3	DHX15	4	24542527	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	16148454	24542527	166611749	389	84216											
PCDH7	5099	broad.mit.edu	37	chr4	30724436	30724436	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtcacctgcaccgtggtgggCgacgtgcccttccagctcaa	6	8	12	15	3	2	0	2	0	0	0	3	1	3	0	4	2	3	2	4	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:30724436C>T	uc003gsk.1	+	1	2400	c.1392C>T	c.(1390-1392)GGC>GGT	p.G464G	PCDH7_uc011bxw.1_Silent_p.G417G|PCDH7_uc011bxx.1_Silent_p.G464G	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	464	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						CCGTGGTGGGCGACGTGCCCT	0.627													5	38					0	0	1	0	0		T	30724436	T	T	30724436	2	4	155	1	0	0	0	0	0	0	0	1	11535	755	27	1		1	PCDH7	4	30724436	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6181909	30724436	160429840	390	84217											
RELL1	768211	broad.mit.edu	37	chr4	37636679	37636679	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccacagacgtgcttccctggCgtcccccctggtgacaaagg	7	7	11	16	2	0	2	0	1	0	1	2	2	2	2	5	3	1	1	5	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:37636679C>T	uc003gsz.2	-	5	600	c.510G>A	c.(508-510)ACG>ACA	p.T170T	RELL1_uc010ifc.2_Silent_p.T170T	NM_001085399	NP_001078868	Q8IUW5	RELL1_HUMAN	receptor expressed in lymphoid tissues like 1	170	Cytoplasmic (Potential).					cytoplasm|integral to membrane|microtubule cytoskeleton|plasma membrane					0						GCTTCCCTGGCGTCCCCCCTG	0.592													23	27					0	0	1	0	0		T	37636679	T	T	37636679	2	4	155	1	0	0	0	0	0	0	0	1	13243	755	27	1		1	RELL1	4	37636679	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6912243	37636679	153517597	391	84218											
RFC1	5981	broad.mit.edu	37	chr4	39328186	39328186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaaaatgccaatacctcCgcatcttcatcaagctgtaa	15	9	5	12	1	3	0	2	0	1	0	4	0	4	0	3	0	4	4	3	0	7	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:39328186C>T	uc003gty.1	-	6	773	c.639G>A	c.(637-639)GCG>GCA	p.A213A	RFC1_uc003gtx.1_Silent_p.A213A|RFC1_uc003gtz.1_Silent_p.A97A	NM_002913	NP_002904	P35251	RFC1_HUMAN	replication factor C large subunit	213					DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|telomere maintenance via telomerase|transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|enzyme activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4						CCAATACCTCCGCATCTTCAT	0.358													4	87					0	0	1	0	0		T	39328186	T	T	39328186	2	4	155	1	0	0	0	0	0	0	0	1	13269	639	23	1		1	RFC1	4	39328186	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1691507	39328186	151826090	392	84219											
ATP8A1	10396	broad.mit.edu	37	chr4	42466947	42466947	+	Missense_Mutation	SNP	A	C	C	1	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	cagaggaattagctgcctgcAggccttcattgccactgata	10	10	10	11	0	1	2	1	1	0	1	1	3	1	3	3	2	4	2	3	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:42466947A>C	uc003gwr.2	-	26	2703	c.2471T>G	c.(2470-2472)CTG>CGG	p.L824R	ATP8A1_uc003gwq.2_Missense_Mutation_p.L50R|ATP8A1_uc003gws.2_Missense_Mutation_p.L809R	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	824	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	AGCTGCCTGCAGGCCTTCATT	0.458													14	75					0	0	1	0	0		C	42466947	C	C	42466947	3	2	155	1	0	0	0	0	1	0	0	0	1193	188	7	5	1071	5	ATP8A1	4	42466947	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3138761	42466947	148687329	393	84220											
SPATA18	132671	broad.mit.edu	37	chr4	52951146	52951146	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagtcccatttgcccccgtaGccaaattggtttaaacacgg	11	10	8	12	2	0	0	0	0	0	0	1	0	1	0	4	2	3	2	4	2	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:52951146G>A	uc003gzl.2	+	11	1822	c.1544G>A	c.(1543-1545)AGC>AAC	p.S515N	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.S483N	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	515					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TGCCCCCGTAGCCAAATTGGT	0.368													76	98					0	0	1	0	0		A	52951146	A	A	52951146	3	1	155	1	0	0	0	0	1	0	0	0	15028	971	34	2	1586	2	SPATA18	4	52951146	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	10484199	52951146	138203130	394	84221											
PDGFRA	5156	broad.mit.edu	37	chr4	55143602	55143602	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggaaggtggttgaaggaacaGcctatggattaagccggtcc	11	8	15	7	1	0	1	0	1	0	0	1	4	1	4	3	6	3	1	3	6	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:55143602G>A	uc003han.3	+	13	2165	c.1834G>A	c.(1834-1836)GCC>ACC	p.A612T	PDGFRA_uc003haa.2_Missense_Mutation_p.A372T|PDGFRA_uc010igq.1_Missense_Mutation_p.A506T|PDGFRA_uc003ham.2_RNA|PDGFRA_uc003hao.1_5'UTR	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	612	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	TGAAGGAACAGCCTATGGATT	0.507			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			49	80					0	0	1	0	0		A	55143602	A	A	55143602	3	1	155	1	0	0	0	0	1	0	0	0	11680	971	34	2	1880	2	PDGFRA	4	55143602	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2192456	55143602	136010674	395	84222											
KIAA1211	57482	broad.mit.edu	37	chr4	57181050	57181050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacccagaggccgagcggcGaagagagcagcagggaagga	14	0	18	9	3	0	2	0	0	0	2	0	8	0	4	2	4	4	2	2	4	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:57181050G>A	uc003hbk.2	+	8	1773	c.1382G>A	c.(1381-1383)CGA>CAA	p.R461Q	KIAA1211_uc010iha.2_Missense_Mutation_p.R454Q|KIAA1211_uc011bzz.1_Missense_Mutation_p.R371Q|KIAA1211_uc003hbm.1_Missense_Mutation_p.R347Q	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	461	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					GCCGAGCGGCGAAGAGAGCAG	0.602													4	4					0	0	1	0	0		A	57181050	A	A	57181050	3	1	155	1	0	0	0	0	1	0	0	0	8231	1058	37	1	1400	1	KIAA1211	4	57181050	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2037448	57181050	133973226	396	84223											
C4orf14	84273	broad.mit.edu	37	chr4	57839340	57839340	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcttttgtaattccaggggTgtcataaaaccagtgggcat	10	14	10	7	0	2	0	1	0	1	0	3	0	3	0	2	3	1	2	2	3	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:57839340T>C	uc003hck.2	-	3	1564	c.1489A>G	c.(1489-1491)ACC>GCC	p.T497A		NM_032313	NP_115689	Q8NC60	CD014_HUMAN	hypothetical protein LOC84273	497							GTP binding			ovary(1)|breast(1)	2	Glioma(25;0.08)|all_neural(26;0.181)					ATTCCAGGGGTGTCATAAAAC	0.299													19	409					0	0	1	0	0		C	57839340	C	C	57839340	3	2	155	1	0	0	0	0	1	0	0	0	2254	1696	59	3	627	3	C4orf14	4	57839340	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	658290	57839340	133314936	397	84224											
UGT2B10	7365	broad.mit.edu	37	chr4	69693173	69693173	+	Missense_Mutation	SNP	T	C	C	0	1	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	acctgataatattgctcacaTgaaggccaagggagcagctg	13	8	11	9	0	1	2	1	2	0	0	1	3	1	3	2	2	3	3	2	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:69693173T>C	uc003hee.2	+	5	1239	c.1214T>C	c.(1213-1215)ATG>ACG	p.M405T	UGT2B10_uc011cam.1_Missense_Mutation_p.M321T	NM_001075	NP_001066	P36537	UDB10_HUMAN	UDP glucuronosyltransferase 2B10 isoform 1	405					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						ATTGCTCACATGAAGGCCAAG	0.448													145	258					0	0	1	0	0		C	69693173	C	C	69693173	3	2	155	1	0	0	0	0	1	0	0	0	16982	1464	51	3	1232	3	UGT2B10	4	69693173	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	11853833	69693173	121461103	398	84225											
UGT2B28	54490	broad.mit.edu	37	chr4	70156391	70156391	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaccatgggatccctatggTaggcattccattgttttggg	7	14	11	9	0	0	0	0	0	0	0	2	1	2	1	3	4	1	3	3	4	3	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:70156391T>C	uc003hej.2	+	5	1174	c.1172T>C	c.(1171-1173)GTA>GCA	p.V391A	UGT2B28_uc010ihr.2_Intron	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	391					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	ATCCCTATGGTAGGCATTCCA	0.448													60	173					0	0	1	0	0		C	70156391	C	C	70156391	3	2	155	1	0	0	0	0	1	0	0	0	16986	1638	57	3	1190	3	UGT2B28	4	70156391	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	463218	70156391	120997885	399	84226											
PPEF2	5470	broad.mit.edu	37	chr4	76781991	76781991	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgctccgagcaaggtcacaGatgcagtcatctgtaatgtc	11	10	10	10	1	3	1	2	0	1	1	5	2	4	1	1	1	3	4	1	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:76781991G>A	uc003hix.2	-	17	2448	c.2091C>T	c.(2089-2091)ATC>ATT	p.I697I	PPEF2_uc003hiy.2_RNA	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	697	EF-hand 3.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CAAGGTCACAGATGCAGTCAT	0.488													6	186					0	0	1	0	0		A	76781991	A	A	76781991	2	1	155	1	0	0	0	0	0	0	0	1	12327	932	33	4		4	PPEF2	4	76781991	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6625600	76781991	114372285	400	84227											
PPEF2	5470	broad.mit.edu	37	chr4	76797712	76797712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagggaagagagcggctttCggggagaaaccatgggatgg	12	5	19	5	2	0	3	0	0	0	3	1	7	0	5	1	6	2	1	1	6	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:76797712C>T	uc003hix.2	-	11	1405	c.1048G>A	c.(1048-1050)GAA>AAA	p.E350K	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.E350K	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	350	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			GAGCGGCTTTCGGGGAGAAAC	0.587													25	51					0	0	1	0	0		T	76797712	T	T	76797712	3	4	155	1	0	0	0	0	1	0	0	0	12327	893	31	1	1241	1	PPEF2	4	76797712	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	15721	76797712	114356564	401	84228											
STBD1	8987	broad.mit.edu	37	chr4	77230640	77230640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agagctaaagaagaaatgagCctctctgatttgaacagtca	16	9	9	7	0	2	6	1	3	1	3	3	6	2	6	1	0	3	1	1	0	5	2	rs115600175	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:77230640C>T	uc003hka.2	+	2	810	c.564C>T	c.(562-564)AGC>AGT	p.S188S	STBD1_uc003hjy.2_3'UTR|STBD1_uc011cbv.1_3'UTR|STBD1_uc011cbw.1_Silent_p.S39S	NM_003943	NP_003934	O95210	STBD1_HUMAN	starch binding domain 1	188	Cytoplasmic (Potential).				carbohydrate metabolic process|muscle contraction	integral to plasma membrane|membrane fraction	carbohydrate binding|catalytic activity|protein binding			ovary(1)	1			Lung(101;0.196)			AAGAAATGAGCCTCTCTGATT	0.483													33	63					0	0	1	0	0		T	77230640	T	T	77230640	2	4	155	1	0	0	0	0	0	0	0	1	15299	738	26	2		2	STBD1	4	77230640	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	432928	77230640	113923636	402	84229											
CCDC158	339965	broad.mit.edu	37	chr4	77255321	77255321	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgttagcttttgtagagtgCtgagttaaaacaatttacaa	13	15	9	4	0	0	2	0	1	0	1	0	2	0	2	0	0	4	5	0	0	7	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:77255321C>T	uc003hkb.3	-	18	2818	c.2665_splice	c.e18-1	p.H889_splice		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158											skin(3)|ovary(2)|pancreas(1)	6						TTGTAGAGTGCTGAGTTAAAA	0.299													25	188					0	0	1	0	0		T	77255321	T	T	77255321	5	4	155	1	0	0	0	0	0	0	1	0	2793	811	28	2	705	2	CCDC158	4	77255321	Splice_Site	SNP	C	TCGA-CG-5726-01A-11D-1600-08	24681	77255321	113898955	403	84230											
ANKRD56	345079	broad.mit.edu	37	chr4	77816917	77816917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtccctgacatttacccGagaagccaacctttgcacta	10	10	7	14	1	0	2	0	1	0	1	1	3	1	2	4	0	4	2	4	0	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:77816917G>A	uc003hki.2	-	1	2086	c.2086C>T	c.(2086-2088)CGG>TGG	p.R696W		NM_001029870	NP_001025041	A6NEL2	ANR56_HUMAN	ankyrin repeat domain 56	696	ANK 2.										0						ACATTTACCCGAGAAGCCAAC	0.532													203	282					0	0	1	0	0		A	77816917	A	A	77816917	3	1	155	1	0	0	0	0	1	0	0	0	682	1057	37	1	299	1	ANKRD56	4	77816917	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	561596	77816917	113337359	404	84231											
CCNI	10983	broad.mit.edu	37	chr4	77969731	77969731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggggacggtagacataaaCggaattcagaggcagggaag	15	4	17	5	2	1	2	1	0	0	2	1	6	1	5	0	6	1	2	0	6	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:77969731C>T	uc003hkm.2	-	7	1319	c.775G>A	c.(775-777)GTT>ATT	p.V259I	CCNI_uc011ccb.1_Missense_Mutation_p.V245I	NM_006835	NP_006826	Q14094	CCNI_HUMAN	cyclin I	259					spermatogenesis					ovary(1)	1						TAGACATAAACGGAATTCAGA	0.522													45	71					0	0	1	0	0		T	77969731	T	T	77969731	3	4	155	1	0	0	0	0	1	0	0	0	2929	536	19	1	362	1	CCNI	4	77969731	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	152814	77969731	113184545	405	84232											
FGF5	2250	broad.mit.edu	37	chr4	81196119	81196119	+	Missense_Mutation	SNP	A	G	G	1	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	taggaatacgaggagttttcAgcaacaaatttttagcgatg	14	12	10	5	2	1	0	1	0	0	0	1	4	1	2	0	2	4	2	0	2	6	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:81196119A>G	uc003hmd.2	+	2	649	c.412A>G	c.(412-414)AGC>GGC	p.S138G	FGF5_uc003hme.2_Intron	NM_004464	NP_004455	P12034	FGF5_HUMAN	fibroblast growth factor 5 isoform 1 precursor	138					cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	fibroblast growth factor receptor binding|growth factor activity			ovary(1)|breast(1)	2						AGGAGTTTTCAGCAACAAATT	0.338													3	97					0	0	1	0	0		G	81196119	G	G	81196119	3	3	155	1	0	0	0	0	1	0	0	0	5869	188	7	3	418	3	FGF5	4	81196119	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3226388	81196119	109958157	406	84233											
PRKG2	5593	broad.mit.edu	37	chr4	82126113	82126113	+	Missense_Mutation	SNP	A	G	G	1	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	actctctctccagctctgtcAccttgttccgcagagcatca	7	12	6	16	1	5	1	2	0	3	1	8	1	6	1	3	0	2	4	3	0	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:82126113A>G	uc003hmh.2	-	1	103	c.89T>C	c.(88-90)GTG>GCG	p.V30A	PRKG2_uc011cch.1_Missense_Mutation_p.V30A	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	30					platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						CAGCTCTGTCACCTTGTTCCG	0.527													19	96					0	0	1	0	0		G	82126113	G	G	82126113	3	3	155	1	0	0	0	0	1	0	0	0	12545	159	6	3	2271	3	PRKG2	4	82126113	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	929994	82126113	109028163	407	84234											
PTPN13	5783	broad.mit.edu	37	chr4	87691032	87691032	+	Frame_Shift_Del	DEL	A	-	-																															atgccagcatagtaagggttAaaaagctctttcctggacag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:87691032delA	uc003hpz.2	+	29	5080	c.4600delA	c.(4600-4602)AAAfs	p.K1534fs	PTPN13_uc003hpy.2_Frame_Shift_Del_p.K1539fs|PTPN13_uc003hqa.2_Frame_Shift_Del_p.K1515fs|PTPN13_uc003hqb.2_Frame_Shift_Del_p.K1343fs|PTPN13_uc003hqc.1_5'UTR	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1534	PDZ 3.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		AGTAAGGGTTAAAAAGCTCTT	0.373													73	106	---	---	---	---						.	-	87691032	-	-	87691032	7	5	155	1	0	1	0	1	0	0	0	0	12805	363	13	0	4725	0	PTPN13	4	87691032	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	5564919	87691032	103463244	408	84235											
SPP1	6696	broad.mit.edu	37	chr4	88903934	88903934	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgaattccacagccatgaAtttcacagccatgaagatat	14	10	7	10	1	1	4	1	3	0	1	2	4	2	4	3	0	2	0	3	0	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:88903934A>T	uc003hra.2	+	7	996	c.831A>T	c.(829-831)GAA>GAT	p.E277D	SPP1_uc003hrb.2_Missense_Mutation_p.E250D|SPP1_uc003hrc.2_Missense_Mutation_p.E263D|SPP1_uc011cde.1_Missense_Mutation_p.E290D|SPP1_uc003hrd.2_Missense_Mutation_p.E236D	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	277				SHEF -> GNSL (in Ref. 2).	biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		ACAGCCATGAATTTCACAGCC	0.393													48	44					0	0	1	0	0		T	88903934	T	T	88903934	3	4	155	1	0	0	0	0	1	0	0	0	15111	98	4	5	853	5	SPP1	4	88903934	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1212902	88903934	102250342	409	84236											
ATOH1	474	broad.mit.edu	37	chr4	94750420	94750420	+	Missense_Mutation	SNP	A	G	G	1	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	ggagcagcggcggtgccagcAgcagcaagagccccgggccg	8	1	18	14	4	0	1	0	0	0	1	0	2	0	2	4	4	7	4	4	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:94750420A>G	uc003hta.1	+	1	343	c.343A>G	c.(343-345)AGC>GGC	p.S115G		NM_005172	NP_005163	Q92858	ATOH1_HUMAN	atonal homolog 1	115					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;3.57e-07)		CGGTGCCAGCAGCAGCAAGAG	0.711													3	8					0	0	1	0	0		G	94750420	G	G	94750420	3	3	155	1	0	0	0	0	1	0	0	0	1113	188	7	3	345	3	ATOH1	4	94750420	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	5846486	94750420	96403856	410	84237											
MANBA	4126	broad.mit.edu	37	chr4	103645126	103645127	+	Splice_Site	INS	-	A	A																															tttactttttgccatttgctINSaaaaaaaagaaaagattttt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:103645126_103645127insA	uc003hwg.2	-	3	373	c.273_splice	c.e3-1	p.S91_splice	MANBA_uc011ces.1_Splice_Site_p.S91_splice	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor						carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		TGCCATTTGCTAAAAAAAAGAA	0.282													23	45	---	---	---	---						.	A	103645127	A	A	103645126	8	5	155	1	0	1	1	0	0	0	1	0	9237	1536	53	0	2428	0	MANBA	4	103645126	Splice_Site	INS	-	TCGA-CG-5726-01A-11D-1600-08	8894706	103645126	87509150	411	84238											
CXXC4	80319	broad.mit.edu	37	chr4	105412064	105412064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcttcttcttggctgggTtggctccgccagctccccct	1	14	9	17	1	3	0	0	0	3	0	6	0	6	0	5	3	1	4	5	3	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:105412064T>C	uc003hxg.2	-	1	404	c.389A>G	c.(388-390)AAC>AGC	p.N130S	uc003hxh.1_5'Flank|CXXC4_uc010ilo.2_Intron	NM_025212	NP_079488	Q9H2H0	CXXC4_HUMAN	CXXC finger 4	130					negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway|zygotic specification of dorsal/ventral axis		DNA binding|PDZ domain binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;3.05e-08)		CTTGGCTGGGTTGGCTCCGCC	0.587													44	70					0	0	1	0	0		C	105412064	C	C	105412064	3	2	155	1	0	0	0	0	1	0	0	0	4101	1725	60	3	215	3	CXXC4	4	105412064	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1766938	105412064	85742212	412	84239											
PRDM5	11107	broad.mit.edu	37	chr4	121774642	121774642	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagcgaagccagttggagtgCcgtgggttggtagcatccaa	10	8	15	8	2	0	0	0	0	0	0	1	2	1	1	3	3	4	4	3	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:121774642C>T	uc003idn.2	-	3	481	c.231G>A	c.(229-231)CGG>CGA	p.R77R	PRDM5_uc003ido.2_Silent_p.R77R|PRDM5_uc010ine.2_Silent_p.R77R|PRDM5_uc010inf.2_Silent_p.R77R|PRDM5_uc003idp.1_Silent_p.R77R	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	77	SET.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						AGTTGGAGTGCCGTGGGTTGG	0.443													18	555					0	0	1	0	0		T	121774642	T	T	121774642	2	4	155	1	0	0	0	0	0	0	0	1	12482	726	26	2		2	PRDM5	4	121774642	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	16362578	121774642	69379634	413	84240											
C4orf31	79625	broad.mit.edu	37	chr4	121958294	121958294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctggagtagacatgacGccccagttttggagaaggct	9	8	15	9	1	0	3	0	1	0	2	0	5	0	4	3	4	0	3	3	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:121958294G>A	uc003idq.1	-	4	1359	c.832C>T	c.(832-834)CGT>TGT	p.R278C		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	278	Fibronectin type-III 1.										0						TAGACATGACGCCCCAGTTTT	0.463													8	112					0	0	1	0	0		A	121958294	A	A	121958294	3	1	155	1	0	0	0	0	1	0	0	0	2264	1087	38	1	878	1	C4orf31	4	121958294	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	183652	121958294	69195982	414	84241											
C4orf31	79625	broad.mit.edu	37	chr4	121961098	121961098	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttacctgagccttccccGctcctgtcctctggcagctc	3	12	8	18	1	1	1	0	1	1	0	5	1	4	1	6	1	4	4	6	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:121961098G>A	uc003idq.1	-	3	827	c.300C>T	c.(298-300)AGC>AGT	p.S100S		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	100											0						AGCCTTCCCCGCTCCTGTCCT	0.498													14	72					0	0	1	0	0		A	121961098	A	A	121961098	2	1	155	1	0	0	0	0	0	0	0	1	2264	1078	38	1		1	C4orf31	4	121961098	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2804	121961098	69193178	415	84242											
FAT4	79633	broad.mit.edu	37	chr4	126239229	126239229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttctgaatataagtgccCgggaccagggagttcacccc	9	10	11	11	1	2	1	1	1	1	0	2	3	2	3	4	2	1	2	4	2	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:126239229C>T	uc003ifj.3	+	1	1663	c.1663C>T	c.(1663-1665)CGG>TGG	p.R555W		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	555	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TATAAGTGCCCGGGACCAGGG	0.517											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	43					0	0	1	0	0		T	126239229	T	T	126239229	3	4	155	1	0	0	0	0	1	0	0	0	5706	643	23	1	1665	1	FAT4	4	126239229	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4278131	126239229	64915047	416	84243											
FAT4	79633	broad.mit.edu	37	chr4	126372330	126372330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcattagaggtgcagatataGatgaggtcactgtaaatgtc	13	11	12	5	0	1	4	1	1	0	3	2	4	1	4	0	2	1	3	0	2	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:126372330G>A	uc003ifj.3	+	9	10159	c.10159G>A	c.(10159-10161)GAT>AAT	p.D3387N	FAT4_uc011cgp.1_Missense_Mutation_p.D1685N|FAT4_uc003ifi.1_Missense_Mutation_p.D865N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3387	Cadherin 32.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGCAGATATAGATGAGGTCAC	0.418													9	360					0	0	1	0	0		A	126372330	A	A	126372330	3	1	155	1	0	0	0	0	1	0	0	0	5706	942	33	4	10193	4	FAT4	4	126372330	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	133101	126372330	64781946	417	84244											
PCDH18	54510	broad.mit.edu	37	chr4	138452975	138452975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgttcacggtcaattgtagCccctatgctgatttccccat	7	15	7	12	1	2	1	2	1	0	0	3	1	3	1	4	1	2	3	4	1	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:138452975C>T	uc003ihe.3	-	1	655	c.268G>A	c.(268-270)GCT>ACT	p.A90T	PCDH18_uc003ihf.3_Missense_Mutation_p.A83T|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Intron|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	90	Extracellular (Potential).|Cadherin 1.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.A90T(1)		pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					TCAATTGTAGCCCCTATGCTG	0.438													123	243					0	0	1	0	0		T	138452975	T	T	138452975	3	4	155	1	0	0	0	0	1	0	0	0	11532	739	26	2	3155	2	PCDH18	4	138452975	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	12080645	138452975	52701301	418	84245											
ZNF827	152485	broad.mit.edu	37	chr4	146700596	146700596	+	Frame_Shift_Del	DEL	A	-	-																															ttcccacacacgtcacagggAaaaagctggtcattgaattt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:146700596delA	uc003ikn.2	-	9	2499	c.2451delT	c.(2449-2451)TTTfs	p.F817fs	ZNF827_uc003ikm.2_Frame_Shift_Del_p.F817fs|ZNF827_uc010iox.2_Frame_Shift_Del_p.F467fs|ZNF827_uc003ikl.2_5'UTR	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	817	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					CGTCACAGGGAAAAAGCTGGT	0.493													41	88	---	---	---	---						.	-	146700596	-	-	146700596	7	5	155	1	0	1	0	1	0	0	0	0	18205	243	9	0	802	0	ZNF827	4	146700596	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	8247621	146700596	44453680	419	84246											
KIAA0922	23240	broad.mit.edu	37	chr4	154523729	154523729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacctcctcctgggtaattcGggacctaagtcttgtaaccg	8	12	9	12	2	1	0	0	0	1	0	4	1	3	1	5	2	2	2	5	2	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:154523729G>A	uc003inm.3	+	23	2538	c.2486G>A	c.(2485-2487)CGG>CAG	p.R829Q	KIAA0922_uc010ipp.2_Missense_Mutation_p.R830Q|KIAA0922_uc010ipq.2_Missense_Mutation_p.R598Q	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	829	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				TGGGTAATTCGGGACCTAAGT	0.433													61	111					0	0	1	0	0		A	154523729	A	A	154523729	3	1	155	1	0	0	0	0	1	0	0	0	8217	1116	39	1	2579	1	KIAA0922	4	154523729	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7823133	154523729	36630547	420	84247											
DCHS2	54798	broad.mit.edu	37	chr4	155155840	155155840	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattgggagtcatgccttCtggcagagaaccaagatggt	13	9	12	7	0	2	2	1	0	1	2	2	4	2	3	2	3	2	1	2	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:155155840C>A	uc003inw.2	-	25	8599	c.8599G>T	c.(8599-8601)GAA>TAA	p.E2867*		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2867					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GTCATGCCTTCTGGCAGAGAA	0.512													82	140					1.42479e-40	1.5715e-40	1	1	0		A	155155840	A	A	155155840	4	1	155	1	0	0	0	0	0	1	0	0	4291	922	32	5	155	5	DCHS2	4	155155840	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	632111	155155840	35998436	421	84248											
DCHS2	54798	broad.mit.edu	37	chr4	155157007	155157007	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaatcaaataaatatttcCattggttttatttactgaaa	15	18	3	5	0	2	1	1	1	1	0	3	1	3	1	1	1	1	1	1	1	8	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:155157007C>A	uc003inw.2	-	25	7432	c.7432G>T	c.(7432-7434)GGA>TGA	p.G2478*		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2478	Cadherin 22.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TAAATATTTCCATTGGTTTTA	0.383													71	124					2.32817e-41	2.5696e-41	1	1	0		A	155157007	A	A	155157007	4	1	155	1	0	0	0	0	0	1	0	0	4291	603	21	5	1322	5	DCHS2	4	155157007	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1167	155157007	35997269	422	84249											
ACCN5	51802	broad.mit.edu	37	chr4	156784774	156784774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagcaccctgcgaattttgCtccggttctgaacaatattg	10	12	9	10	2	1	2	0	1	1	1	2	3	2	2	2	1	4	3	2	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:156784774C>T	uc003ipe.1	-	2	220	c.173G>A	c.(172-174)AGC>AAC	p.S58N		NM_017419	NP_059115	Q9NY37	ACCN5_HUMAN	amiloride-sensitive cation channel 5,	58	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0464)|Kidney(143;0.058)|COAD - Colon adenocarcinoma(41;0.141)		GCGAATTTTGCTCCGGTTCTG	0.483													44	73					0	0	1	0	0		T	156784774	T	T	156784774	3	4	155	1	0	0	0	0	1	0	0	0	132	797	28	2	1380	2	ACCN5	4	156784774	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1627767	156784774	34369502	423	84250											
PDGFC	56034	broad.mit.edu	37	chr4	157684333	157684333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atttgtgcaatcccctgacaCcggtctttggtctcaactga	8	13	8	12	1	2	2	1	2	2	0	4	2	3	2	3	2	2	1	3	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:157684333C>T	uc003iph.1	-	6	1438	c.947G>A	c.(946-948)GGT>GAT	p.G316D	PDGFC_uc003ipi.1_Missense_Mutation_p.G153D|PDGFC_uc011cis.1_Missense_Mutation_p.G153D|PDGFC_uc011cir.1_Missense_Mutation_p.G160D	NM_016205	NP_057289	Q9NRA1	PDGFC_HUMAN	platelet-derived growth factor C precursor	316					central nervous system development|platelet-derived growth factor receptor signaling pathway|positive regulation of cell division|positive regulation of DNA replication|positive regulation of fibroblast proliferation|vascular endothelial growth factor receptor signaling pathway	endoplasmic reticulum lumen|extracellular space|Golgi membrane|nucleus	cell surface binding|growth factor activity|platelet-derived growth factor receptor binding|protein homodimerization activity			ovary(1)|lung(1)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.08)|Kidney(143;0.0977)|COAD - Colon adenocarcinoma(41;0.212)		TCCCCTGACACCGGTCTTTGG	0.483													68	81					0	0	1	0	0		T	157684333	T	T	157684333	3	4	155	1	0	0	0	0	1	0	0	0	11678	507	18	4	94	4	PDGFC	4	157684333	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	899559	157684333	33469943	424	84251											
GRIA2	2891	broad.mit.edu	37	chr4	158262574	158262574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagcaaacagaaattgcttAtggaacattagactctggct	15	11	8	7	0	1	2	0	0	1	2	1	3	1	3	0	2	4	3	0	2	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:158262574A>G	uc003ipm.3	+	12	2462	c.2003A>G	c.(2002-2004)TAT>TGT	p.Y668C	GRIA2_uc011cit.1_Missense_Mutation_p.Y621C|GRIA2_uc003ipl.3_Missense_Mutation_p.Y668C|GRIA2_uc003ipk.3_Missense_Mutation_p.Y621C|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	668	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	GAAATTGCTTATGGAACATTA	0.403													44	243					0	0	1	0	0		G	158262574	G	G	158262574	3	3	155	1	0	0	0	0	1	0	0	0	6784	449	16	3	2049	3	GRIA2	4	158262574	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	578241	158262574	32891702	425	84252											
FSTL5	56884	broad.mit.edu	37	chr4	162577602	162577602	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttgtcccacagttgctgcagTgatgcttagtttctgatctt	6	17	9	9	0	2	2	0	2	2	0	3	2	3	2	1	0	3	5	1	0	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:162577602T>C	uc003iqh.2	-	7	1208	c.772A>G	c.(772-774)ACT>GCT	p.T258A	FSTL5_uc003iqi.2_Missense_Mutation_p.T257A|FSTL5_uc010iqv.2_Missense_Mutation_p.T257A	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	258	Ig-like 1.					extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		GTTGCTGCAGTGATGCTTAGT	0.398													41	58					0	0	1	0	0		C	162577602	C	C	162577602	3	2	155	1	0	0	0	0	1	0	0	0	6094	1696	59	3	1811	3	FSTL5	4	162577602	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	4315028	162577602	28576674	426	84253											
C4orf43	55319	broad.mit.edu	37	chr4	164435265	164435265	+	Frame_Shift_Del	DEL	A	-	-																															tcaaaatcatcttgatccccAaaaaaagagatattcaaaga																								rs2304802	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:164435265delA	uc003iqq.3	+	4	475	c.194delA	c.(193-195)CAAfs	p.Q65fs		NM_018352	NP_060822	Q96EY4	CD043_HUMAN	hypothetical protein LOC55319	65											0						CTTGATCCCCAAAAAAAGAGA	0.358													77	150	---	---	---	---						.	-	164435265	-	-	164435265	7	5	155	1	0	1	0	1	0	0	0	0	2274	130	5	0	208	0	C4orf43	4	164435265	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1857663	164435265	26719011	427	84254											
KLHL2	11275	broad.mit.edu	37	chr4	166231877	166231877	+	Silent	SNP	T	C	C	0	1	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	ttaaatggattattatacgcTgtgggaggctttgatgggag	10	14	14	3	1	0	1	0	1	0	0	0	4	0	4	0	4	1	2	0	4	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:166231877T>C	uc003irb.2	+	10	1471	c.1212T>C	c.(1210-1212)GCT>GCC	p.A404A	KLHL2_uc011cjm.1_Silent_p.A408A|KLHL2_uc003irc.2_Silent_p.A316A|KLHL2_uc010ira.2_Silent_p.A57A	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	404	Kelch 3.				intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		TATTATACGCTGTGGGAGGCT	0.423													149	242					0	0	1	0	0		C	166231877	C	C	166231877	2	2	155	1	0	0	0	0	0	0	0	1	8390	1567	55	3		3	KLHL2	4	166231877	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1796612	166231877	24922399	428	84255											
DDX60L	91351	broad.mit.edu	37	chr4	169351672	169351672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggaatcctcctttggcCgagtagtttgagtcacaatg	9	12	10	10	1	1	1	1	1	0	0	3	3	3	2	3	2	0	2	3	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:169351672C>T	uc003irq.3	-	13	1855	c.1634G>A	c.(1633-1635)CGG>CAG	p.R545Q	DDX60L_uc003irr.1_Missense_Mutation_p.R545Q|DDX60L_uc003irs.1_Missense_Mutation_p.R272Q	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	545							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CTCCTTTGGCCGAGTAGTTTG	0.353													15	37					0	0	1	0	0		T	169351672	T	T	169351672	3	4	155	1	0	0	0	0	1	0	0	0	4382	652	23	1	3590	1	DDX60L	4	169351672	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3119795	169351672	21802604	429	84256											
GALNTL6	442117	broad.mit.edu	37	chr4	173803946	173803946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttcatttcacaggtctcCtgttatggctggaggtctct	5	17	10	9	0	4	0	2	0	2	0	6	1	4	1	1	4	0	3	1	4	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:173803946C>T	uc003isv.2	+	8	1665	c.929C>T	c.(928-930)CCT>CTT	p.P310L		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	310	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						CACAGGTCTCCTGTTATGGCT	0.388													112	176					0	0	1	0	0		T	173803946	T	T	173803946	3	4	155	1	0	0	0	0	1	0	0	0	6240	681	24	4	955	4	GALNTL6	4	173803946	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4452274	173803946	17350330	430	84257											
DCTD	1635	broad.mit.edu	37	chr4	183815681	183815681	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgcattcattacaagggaAcaaggcaacatacatactac	17	7	7	10	1	1	0	1	0	0	0	1	1	1	1	0	2	7	2	0	2	8	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:183815681A>C	uc003ivf.2	-	4	496	c.322T>G	c.(322-324)TTC>GTC	p.F108V	DCTD_uc003ivg.2_Missense_Mutation_p.F119V|DCTD_uc010irw.2_Missense_Mutation_p.F49V|DCTD_uc003ivh.2_Missense_Mutation_p.F49V	NM_001921	NP_001912	P32321	DCTD_HUMAN	dCMP deaminase isoform b	108					nucleotide biosynthetic process|pyrimidine base metabolic process|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide metabolic process	cytosol	dCMP deaminase activity|zinc ion binding				0		all_lung(41;5.16e-14)|Lung NSC(41;1.33e-13)|Colorectal(36;0.00666)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.202)		all cancers(43;1.65e-24)|Epithelial(43;3.44e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.39e-10)|Colorectal(24;4.69e-07)|COAD - Colon adenocarcinoma(29;7.07e-05)|STAD - Stomach adenocarcinoma(60;0.000118)|GBM - Glioblastoma multiforme(59;0.000472)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.0419)		TTACAAGGGAACAAGGCAACA	0.468													20	53					0	0	1	0	0		C	183815681	C	C	183815681	3	2	155	1	0	0	0	0	1	0	0	0	4308	43	2	5	226	5	DCTD	4	183815681	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	10011735	183815681	7338595	431	84258											
C4orf41	60684	broad.mit.edu	37	chr4	184596387	184596387	+	Missense_Mutation	SNP	T	G	G	0	1	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	acaagatacacaaaatgcgcTgaagtaagttaagctttcaa	18	9	7	7	1	1	2	1	1	0	1	1	2	1	2	0	0	3	4	0	0	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:184596387T>G	uc003ivx.2	+	7	907	c.731T>G	c.(730-732)CTG>CGG	p.L244R	C4orf41_uc003ivw.2_Missense_Mutation_p.L244R|C4orf41_uc010isc.2_Intron	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	244											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		CAAAATGCGCTGAAGTAAGTT	0.269													20	29					0	0	1	0	0		G	184596387	G	G	184596387	3	3	155	1	0	0	0	0	1	0	0	0	2273	1580	55	5	753	5	C4orf41	4	184596387	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	780706	184596387	6557889	432	84259											
IRF2	3660	broad.mit.edu	37	chr4	185339729	185339729	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggggcagcattcggtagacCctgaaggcattatttccttt	9	12	11	9	1	0	2	0	1	0	1	2	2	1	2	2	4	1	4	2	4	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:185339729C>A	uc003iwf.3	-	4	521	c.321G>T	c.(319-321)AGG>AGT	p.R107S		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	107	IRF tryptophan pentad repeat.				blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TTCGGTAGACCCTGAAGGCAT	0.408													64	98					4.38816e-42	4.84962e-42	1	1	0		A	185339729	A	A	185339729	3	1	155	1	0	0	0	0	1	0	0	0	7844	622	22	5	752	5	IRF2	4	185339729	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	743342	185339729	5814547	433	84260											
LRP2BP	55805	broad.mit.edu	37	chr4	186295603	186295603	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagaattttcttcatatagtCcacccctttctccttcgaca	10	15	3	13	1	3	1	1	0	2	1	6	2	4	1	4	0	0	0	4	0	4	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:186295603C>A	uc003ixj.1	-	4	1155	c.343G>T	c.(343-345)GAC>TAC	p.D115Y	LRP2BP_uc003ixk.1_Missense_Mutation_p.D89Y|LRP2BP_uc011ckr.1_Missense_Mutation_p.D115Y	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	115	Sel1-like 1.					cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		TTCATATAGTCCACCCCTTTC	0.388													69	101					5.80444e-35	6.38947e-35	1	1	0		A	186295603	A	A	186295603	3	1	155	1	0	0	0	0	1	0	0	0	8975	855	30	5	720	5	LRP2BP	4	186295603	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	955874	186295603	4858673	434	84261											
CCDC110	256309	broad.mit.edu	37	chr4	186380474	186380474	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaatttttgcaacacactGctcagtaacggaattaactt	13	13	6	9	1	1	1	1	1	0	0	1	2	1	2	0	1	5	3	0	1	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:186380474G>A	uc003ixu.3	-	6	1343	c.1267C>T	c.(1267-1269)CAG>TAG	p.Q423*	CCDC110_uc003ixv.3_Nonsense_Mutation_p.Q386*|CCDC110_uc011ckt.1_Nonsense_Mutation_p.Q423*	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	423						nucleus				central_nervous_system(1)	1		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)		GCAACACACTGCTCAGTAACG	0.313													134	219					0	0	1	0	0		A	186380474	A	A	186380474	4	1	155	1	0	0	0	0	0	1	0	0	2750	1328	46	2	1242	2	CCDC110	4	186380474	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	84871	186380474	4773802	435	84262											
FAM149A	25854	broad.mit.edu	37	chr4	187075716	187075716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggttgctgacctaacggcaCgttcatccctggaagaagag	10	8	13	10	2	1	3	1	1	0	2	2	4	2	4	2	3	2	4	2	3	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:187075716C>T	uc003iyt.3	+	6	886	c.307C>T	c.(307-309)CGT>TGT	p.R103C	FAM149A_uc011cla.1_Missense_Mutation_p.R103C|FAM149A_uc010isj.2_Missense_Mutation_p.R103C|FAM149A_uc010isk.2_RNA|FAM149A_uc003iyu.3_Missense_Mutation_p.R103C|FAM149A_uc010isl.2_Missense_Mutation_p.R103C|FAM149A_uc011clb.1_Missense_Mutation_p.R103C	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	394										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		CCTAACGGCACGTTCATCCCT	0.473													5	91					0	0	1	0	0		T	187075716	T	T	187075716	3	4	155	1	0	0	0	0	1	0	0	0	5466	536	19	1	317	1	FAM149A	4	187075716	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	695242	187075716	4078560	436	84263											
KLKB1	3818	broad.mit.edu	37	chr4	187171481	187171481	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagatgcttttgtgtgtcGgaccatctgcacctatcacc	7	13	8	13	1	2	1	1	0	1	1	4	2	3	2	4	1	2	2	4	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:187171481G>T	uc003iyy.2	+	7	754	c.683G>T	c.(682-684)CGG>CTG	p.R228L	KLKB1_uc011clc.1_Nonsense_Mutation_p.G16*|KLKB1_uc011cld.1_Missense_Mutation_p.R190L	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	228	Apple 3.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		TTTGTGTGTCGGACCATCTGC	0.463													14	291					4.36969e-10	4.58653e-10	1	1	0		T	187171481	T	T	187171481	3	4	155	1	0	0	0	0	1	0	0	0	8428	1116	39	5	705	5	KLKB1	4	187171481	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	95765	187171481	3982795	437	84264											
KLKB1	3818	broad.mit.edu	37	chr4	187173268	187173268	+	Silent	SNP	T	G	G	0	1	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	ctgcaggtgaagctgacagcTcagaggcacctgtgtggagg	9	7	16	9	0	1	3	1	2	0	1	1	4	1	4	1	4	3	4	1	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:187173268T>G	uc003iyy.2	+	11	1313	c.1242T>G	c.(1240-1242)GCT>GCG	p.A414A	KLKB1_uc011clc.1_Silent_p.A212A|KLKB1_uc011cld.1_Silent_p.A376A	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	414	Peptidase S1.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		AGCTGACAGCTCAGAGGCACC	0.542													48	88					0	0	1	0	0		G	187173268	G	G	187173268	2	3	155	1	0	0	0	0	0	0	0	1	8428	1538	54	5		5	KLKB1	4	187173268	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1787	187173268	3981008	438	84265											
FAT1	2195	broad.mit.edu	37	chr4	187509854	187509854	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgacctcggactccacttcGcagcaggctgacacgtcaga	10	7	10	14	3	1	3	1	2	0	1	4	4	2	4	2	2	1	3	2	2	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr4:187509854G>A	uc003izf.2	-	27	13847	c.13659C>T	c.(13657-13659)TGC>TGT	p.C4553C	FAT1_uc010isn.2_Silent_p.C200C|FAT1_uc003ize.2_Silent_p.C444C	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4553	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ACTCCACTTCGCAGCAGGCTG	0.622										HNSCC(5;0.00058)			28	42					0	0	1	0	0		A	187509854	A	A	187509854	2	1	155	1	0	0	0	0	0	0	0	1	5703	1079	38	1		1	FAT1	4	187509854	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	336586	187509854	3644422	439	84266											
PLEKHG4B	153478	broad.mit.edu	37	chr5	171386	171386	+	Frame_Shift_Del	DEL	G	-	-																															cctcctacctgctgcggcccGtgcagcgtgtggccaagtac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:171386delG	uc003jak.2	+	14	2859	c.2809delG	c.(2809-2811)GTGfs	p.V937fs		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	937	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GCTGCGGCCCGTGCAGCGTGT	0.687													11	24	---	---	---	---						.	-	171386	-	-	171386	7	5	155	1	0	1	0	1	0	0	0	0	12091	1145	40	0	2863	0	PLEKHG4B	5	171386	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08		171386	180743874	440	84267											
LRRC14B	389257	broad.mit.edu	37	chr5	191707	191707	+	Frame_Shift_Del	DEL	C	-	-																															gcagaagctctggtgtcccaCccccaggtggcccggcagag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:191707delC	uc003jal.1	+	1	82	c.54delC	c.(52-54)CACfs	p.H18fs		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	18										skin(1)	1						TGGTGTCCCACCCCCAGGTGG	0.642													11	18	---	---	---	---						.	-	191707	-	-	191707	7	5	155	1	0	1	0	1	0	0	0	0	8987	506	18	0	56	0	LRRC14B	5	191707	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	20321	191707	180723553	441	84268											
KIAA0947	23379	broad.mit.edu	37	chr5	5464464	5464464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccaggtttctcccttcCgtgaaaccccagtgcctcct	5	12	8	16	1	1	1	0	1	1	0	4	1	3	1	7	2	2	1	7	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:5464464C>T	uc003jdm.3	+	13	5239	c.5017C>T	c.(5017-5019)CGT>TGT	p.R1673C		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1673	Pro-rich.									ovary(1)|central_nervous_system(1)	2						TTCTCCCTTCCGTGAAACCCC	0.567													33	169					0	0	1	0	0		T	5464464	T	T	5464464	3	4	155	1	0	0	0	0	1	0	0	0	8218	652	23	1	5067	1	KIAA0947	5	5464464	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5272757	5464464	175450796	442	84269											
PAPD7	11044	broad.mit.edu	37	chr5	6742688	6742688	+	Missense_Mutation	SNP	A	T	T	1	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	gacgggcgtccgggcagcggAgttcatcaagaattacatga	11	7	14	9	4	2	2	2	1	0	1	3	4	3	3	1	3	2	2	1	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:6742688A>T	uc003jdx.1	+	5	473	c.344A>T	c.(343-345)GAG>GTG	p.E115V	PAPD7_uc011cmn.1_Missense_Mutation_p.E106V	NM_006999	NP_008930	Q5XG87	PAPD7_HUMAN	DNA polymerase sigma	115					cell division|DNA replication|double-strand break repair|mitotic chromosome condensation|response to drug|sister chromatid cohesion	nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|SMC protein binding			ovary(1)	1						CGGGCAGCGGAGTTCATCAAG	0.488													29	58					0	0	1	0	0		T	6742688	T	T	6742688	3	4	155	1	0	0	0	0	1	0	0	0	11445	304	11	5	358	5	PAPD7	5	6742688	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1278224	6742688	174172572	443	84270											
ADCY2	108	broad.mit.edu	37	chr5	7414769	7414769	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatttatcctggtctgcatCgagtctgtgtttaagaagct	9	16	9	7	1	2	1	0	0	2	1	4	2	3	1	1	1	2	3	1	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:7414769C>T	uc003jdz.1	+	2	361	c.294C>T	c.(292-294)ATC>ATT	p.I98I		NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	98					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						TGGTCTGCATCGAGTCTGTGT	0.453													95	169					0	0	1	0	0		T	7414769	T	T	7414769	2	4	155	1	0	0	0	0	0	0	0	1	294	874	31	1		1	ADCY2	5	7414769	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	672081	7414769	173500491	444	84271											
MTRR	4552	broad.mit.edu	37	chr5	7892923	7892923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccacaacagaggttctgcGgaagggagtatgtacaggct	11	8	14	8	1	1	1	0	0	1	1	1	3	1	3	1	4	4	4	1	4	4	3	rs146475928	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:7892923G>A	uc003jed.2	+	11	1565	c.1535G>A	c.(1534-1536)CGG>CAG	p.R512Q	MTRR_uc003jee.3_Missense_Mutation_p.R485Q|MTRR_uc003jef.3_RNA|MTRR_uc003jeg.3_RNA|MTRR_uc010ito.2_RNA	NM_024010	NP_076915	Q9UBK8	MTRR_HUMAN	methionine synthase reductase isoform 2	512	FAD-binding FR-type.				methionine biosynthetic process	cytosol	[methionine synthase] reductase activity|flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding			ovary(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)|L-Methionine(DB00134)	GAGGTTCTGCGGAAGGGAGTA	0.478													68	115					0	0	1	0	0		A	7892923	A	A	7892923	3	1	155	1	0	0	0	0	1	0	0	0	9979	1116	39	1	1577	1	MTRR	5	7892923	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	478154	7892923	173022337	445	84272											
CTNND2	1501	broad.mit.edu	37	chr5	11082809	11082809	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatcagggagaacataccGatgagctccttatttctgac	12	11	9	9	1	2	4	1	3	1	1	3	6	3	4	2	1	3	1	2	1	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:11082809G>A	uc003jfa.1	-	16	2932	c.2787C>T	c.(2785-2787)ATC>ATT	p.I929I	CTNND2_uc010itt.2_Silent_p.I838I|CTNND2_uc011cmy.1_Silent_p.I592I|CTNND2_uc011cmz.1_Silent_p.I496I|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.I521I	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	929					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						AGAACATACCGATGAGCTCCT	0.507													64	83					0	0	1	0	0		A	11082809	A	A	11082809	2	1	155	1	0	0	0	0	0	0	0	1	4023	1072	37	1		1	CTNND2	5	11082809	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3189886	11082809	169832451	446	84273											
CTNND2	1501	broad.mit.edu	37	chr5	11384949	11384949	+	Frame_Shift_Del	DEL	G	-	-																															gagatggtggactgcacggtGgggggcgaggtcacgcggat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:11384949delG	uc003jfa.1	-	7	1150	c.1005delC	c.(1003-1005)CCCfs	p.P335fs	CTNND2_uc010itt.2_Frame_Shift_Del_p.P244fs|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.1_Intron|CTNND2_uc011cmx.1_5'UTR	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	335					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						ACTGCACGGTGGGGGGCGAGG	0.687													11	12	---	---	---	---						.	-	11384949	-	-	11384949	7	5	155	1	0	1	0	1	0	0	0	0	4023	1335	47	0	2736	0	CTNND2	5	11384949	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	302140	11384949	169530311	447	84274											
MYO10	4651	broad.mit.edu	37	chr5	16711279	16711279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccgcatacccagctttgcGgattctcacagtctccagca	9	9	8	15	2	2	0	1	0	2	0	4	2	2	1	3	1	4	3	3	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:16711279G>A	uc003jft.3	-	20	2473	c.2005C>T	c.(2005-2007)CGC>TGC	p.R669C	MYO10_uc011cnd.1_Missense_Mutation_p.R26C|MYO10_uc011cne.1_Missense_Mutation_p.R26C|MYO10_uc010itx.2_Missense_Mutation_p.R292C	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	669	Myosin head-like.				axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CCAGCTTTGCGGATTCTCACA	0.478													17	17					0	0	1	0	0		A	16711279	A	A	16711279	3	1	155	1	0	0	0	0	1	0	0	0	10080	1116	39	1	4259	1	MYO10	5	16711279	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5326330	16711279	164203981	448	84275											
MTMR12	54545	broad.mit.edu	37	chr5	32235098	32235100	+	In_Frame_Del	DEL	GAA	-	-																															tctttttgatgaggtgaattGaagaagaaggtgctaaaaat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:32235098_32235100delGAA	uc003jhq.2	-	14	1650_1652	c.1480_1482delTTC	c.(1480-1482)TTCdel	p.F494del	MTMR12_uc010iuk.2_In_Frame_Del_p.F494del|MTMR12_uc010iul.2_Intron	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	494	Myotubularin phosphatase.|Interaction with MTM1.					cytoplasm	phosphatase activity			ovary(1)	1						GAGGTGAATTGAAGAAGAAGGTG	0.419													49	97	---	---	---	---						.	-	32235100	-	-	32235098	7	5	155	1	0	1	0	1	0	0	0	0	9959	1281	45	0	773	0	MTMR12	5	32235098	In_Frame_Del	DEL	GAA	TCGA-CG-5726-01A-11D-1600-08	15523819	32235098	148680162	449	84276											
ZFR	51663	broad.mit.edu	37	chr5	32406984	32406984	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttggaatggtgcttttttAgtaaaggtggtccctgtcca	7	17	11	6	0	0	0	0	0	0	0	2	1	2	1	2	4	1	2	2	4	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:32406984A>T	uc003jhr.1	-	6	1007	c.927T>A	c.(925-927)ACT>ACA	p.T309T	ZFR_uc010iun.1_Silent_p.T309T	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein	309					multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		GTGCTTTTTTAGTAAAGGTGG	0.294													6	119					0	0	1	0	0		T	32406984	T	T	32406984	2	4	155	1	0	0	0	0	0	0	0	1	17684	407	15	5		5	ZFR	5	32406984	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	171886	32406984	148508276	450	84277											
RXFP3	51289	broad.mit.edu	37	chr5	33937420	33937420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcggctctgaagagccaccGgacccgaggacacggccggg	8	3	15	15	5	1	2	0	1	1	1	2	5	1	4	4	5	1	1	4	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:33937420G>A	uc003jic.1	+	1	932	c.575G>A	c.(574-576)CGG>CAG	p.R192Q		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	192	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						AAGAGCCACCGGACCCGAGGA	0.647													12	23					0	0	1	0	0		A	33937420	A	A	33937420	3	1	155	1	0	0	0	0	1	0	0	0	13786	1116	39	1	577	1	RXFP3	5	33937420	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1530436	33937420	146977840	451	84278											
UGT3A1	133688	broad.mit.edu	37	chr5	35955903	35955903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaccatgggcacaccatgaCggatggcctccattacgctg	9	7	10	15	2	0	1	0	1	0	0	1	2	1	2	5	3	1	2	5	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:35955903C>T	uc003jjv.1	-	6	1296	c.1139G>A	c.(1138-1140)CGT>CAT	p.R380H	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.R380H|UGT3A1_uc011cor.1_Missense_Mutation_p.R346H	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	380	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CACACCATGACGGATGGCCTC	0.493													55	95					0	0	1	0	0		T	35955903	T	T	35955903	3	4	155	1	0	0	0	0	1	0	0	0	16989	536	19	1	440	1	UGT3A1	5	35955903	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2018483	35955903	144959357	452	84279											
RICTOR	253260	broad.mit.edu	37	chr5	38942984	38942984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtatgaacctccgacacGgaagtctgaatgtgcagtgt	10	11	11	9	2	1	2	0	2	1	0	2	4	2	3	2	1	2	2	2	1	4	2	rs77464125	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:38942984G>A	uc003jlp.2	-	37	5027	c.5003C>T	c.(5002-5004)CCG>CTG	p.P1668L	RICTOR_uc003jlo.2_Missense_Mutation_p.P1692L|RICTOR_uc010ivf.2_Missense_Mutation_p.P1345L	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	1668					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					CCTCCGACACGGAAGTCTGAA	0.338													44	61					0	0	1	0	0		A	38942984	A	A	38942984	3	1	155	1	0	0	0	0	1	0	0	0	13383	1116	39	1	131	1	RICTOR	5	38942984	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2987081	38942984	141972276	453	84280											
CARD6	84674	broad.mit.edu	37	chr5	40853916	40853916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccatttgtcagcatgtacagGcctgccctgagagaccacaa	11	8	9	13	0	1	2	1	1	0	1	1	3	1	2	4	1	3	2	4	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:40853916G>A	uc003jmg.2	+	3	2557	c.2482G>A	c.(2482-2484)GCC>ACC	p.A828T		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	828					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						GCATGTACAGGCCTGCCCTGA	0.488													20	524					0	0	1	0	0		A	40853916	A	A	40853916	3	1	155	1	0	0	0	0	1	0	0	0	2653	1203	42	2	2492	2	CARD6	5	40853916	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1910932	40853916	140061344	454	84281											
ESM1	11082	broad.mit.edu	37	chr5	54275251	54275251	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	caatattgccatctccagatGccatgtcatgctctgaaagt	11	12	7	11	0	3	2	1	1	2	1	4	2	3	2	3	0	3	1	3	0	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:54275251G>T	uc003jpk.2	-	3	533	c.464C>A	c.(463-465)GCA>GAA	p.A155E	ESM1_uc010ivt.2_Missense_Mutation_p.A105E	NM_007036	NP_008967	Q9NQ30	ESM1_HUMAN	endothelial cell-specific molecule 1 isoform a	155					angiogenesis|regulation of cell growth	extracellular region	growth factor activity|insulin-like growth factor binding				0		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.116)	Lung(15;0.23)			ATCTCCAGATGCCATGTCATG	0.413													5	163					4.096e-09	4.27776e-09	1	1	0		T	54275251	T	T	54275251	3	4	155	1	0	0	0	0	1	0	0	0	5260	1319	46	5	94	5	ESM1	5	54275251	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	13421335	54275251	126640009	455	84282											
DHX29	54505	broad.mit.edu	37	chr5	54573111	54573111	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacacttctttcatgaacCtagttttaaaaagggaataa	15	13	7	6	0	2	1	1	1	1	0	2	3	2	3	1	2	1	1	1	2	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:54573111C>G	uc003jpx.2	-	13	2230	c.2110_splice	c.e13-1	p.V704_splice	DHX29_uc010ivw.2_Splice_Site	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29								ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				TTTCATGAACCTAGTTTTAAA	0.318													39	72					0	0	1	0	0		G	54573111	G	G	54573111	5	3	155	1	0	0	0	0	0	0	1	0	4509	695	24	5	2060	5	DHX29	5	54573111	Splice_Site	SNP	C	TCGA-CG-5726-01A-11D-1600-08	297860	54573111	126342149	456	84283											
MAP3K1	4214	broad.mit.edu	37	chr5	56177984	56177986	+	In_Frame_Del	DEL	CTT	-	-																															gtttccagccttgtcaacccCttcttcttctaccccatctg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:56177984_56177986delCTT	uc003jqw.3	+	14	3458_3460	c.2957_2959delCTT	c.(2956-2961)CCTTCT>CCT	p.S989del		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	989					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TTGTCAACCCCTTCTTCTTCTAC	0.458													75	129	---	---	---	---						.	-	56177986	-	-	56177984	7	5	155	1	0	1	0	1	0	0	0	0	9261	681	24	0	3011	0	MAP3K1	5	56177984	In_Frame_Del	DEL	CTT	TCGA-CG-5726-01A-11D-1600-08	1604873	56177984	124737276	457	84284											
ACTBL2	345651	broad.mit.edu	37	chr5	56778450	56778450	+	Frame_Shift_Del	DEL	G	-	-																															catggaggggaacacagcccGgggggcatcgtcaccaccaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:56778450delG	uc003jrm.2	-	1	187	c.85delC	c.(85-87)CGGfs	p.R29fs		NM_001017992	NP_001017992	Q562R1	ACTBL_HUMAN	actin, beta-like 2	29						cytoplasm|cytoskeleton	ATP binding			ovary(3)	3		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)		AACACAGCCCGGGGGGCATCG	0.582													24	40	---	---	---	---						.	-	56778450	-	-	56778450	7	5	155	1	0	1	0	1	0	0	0	0	194	1115	39	0	1049	0	ACTBL2	5	56778450	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	600466	56778450	124136810	458	84285											
SLC30A5	64924	broad.mit.edu	37	chr5	68417584	68417584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcctttagccatgcccatAgccatgcccatggagcttct	7	11	9	14	0	1	0	0	0	1	0	1	1	1	1	5	1	6	1	5	1	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:68417584A>G	uc003jvh.2	+	13	1834	c.1633A>G	c.(1633-1635)AGC>GGC	p.S545G	SLC30A5_uc003jvj.2_RNA|SLC30A5_uc003jvk.2_Missense_Mutation_p.S274G|SLC30A5_uc003jvi.2_Missense_Mutation_p.S374G	NM_022902	NP_075053	Q8TAD4	ZNT5_HUMAN	solute carrier family 30 (zinc transporter),	545	Cytoplasmic (Potential).|His-rich loop.				cellular zinc ion homeostasis|cobalt ion transport|regulation of proton transport|response to zinc ion	apical plasma membrane|Golgi apparatus|integral to plasma membrane|membrane fraction|secretory granule membrane	zinc ion binding|zinc ion transmembrane transporter activity			central_nervous_system(1)	1		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)		ccatgcccatagccatgccca	0.393													25	20					0	0	1	0	0		G	68417584	G	G	68417584	3	3	155	1	0	0	0	0	1	0	0	0	14583	420	15	3	1771	3	SLC30A5	5	68417584	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	11639134	68417584	112497676	459	84286											
BDP1	55814	broad.mit.edu	37	chr5	70805815	70805815	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caactggaaatgagagttccCcaagggagaagacaccagag	16	4	12	9	0	0	4	0	1	0	4	1	7	1	5	3	2	1	1	3	2	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:70805815C>A	uc003kbp.1	+	17	3159	c.2896C>A	c.(2896-2898)CCA>ACA	p.P966T	BDP1_uc003kbn.1_Missense_Mutation_p.P966T|BDP1_uc003kbo.2_Missense_Mutation_p.P966T	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	966	3.|9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		TGAGAGTTCCCCAAGGGAGAA	0.448													57	87					5.73376e-24	6.2215e-24	1	1	0		A	70805815	A	A	70805815	3	1	155	1	0	0	0	0	1	0	0	0	1396	623	22	5	2962	5	BDP1	5	70805815	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2388231	70805815	110109445	460	84287											
AP3B1	8546	broad.mit.edu	37	chr5	77536745	77536745	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaacagttcagatgcattttTcccttttgcaatcatctgaa	12	15	5	9	0	3	2	2	1	1	1	4	2	4	2	1	0	3	3	1	0	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:77536745T>C	uc003kfj.2	-	3	345	c.220A>G	c.(220-222)AAA>GAA	p.K74E		NM_003664	NP_003655	O00203	AP3B1_HUMAN	adaptor-related protein complex 3, beta 1	74					endocytosis|melanosome organization	clathrin coated vesicle membrane|Golgi apparatus|membrane coat	protein phosphatase binding|protein transporter activity			central_nervous_system(1)	1		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		GATGCATTTTTCCCTTTTGCA	0.289									Hermansky-Pudlak_syndrome				20	288					0	0	1	0	0		C	77536745	C	C	77536745	3	2	155	1	0	0	0	0	1	0	0	0	744	1792	62	3	3164	3	AP3B1	5	77536745	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	6730930	77536745	103378515	461	84288											
VCAN	1462	broad.mit.edu	37	chr5	82835880	82835880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcacctctccctttctccaCggacatcggacatcctcaaa	9	9	6	17	2	3	0	1	0	2	0	7	2	4	2	4	3	0	1	4	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:82835880C>T	uc003kii.3	+	8	7414	c.7058C>T	c.(7057-7059)ACG>ATG	p.T2353M	VCAN_uc003kij.3_Missense_Mutation_p.T1366M|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.T1017M	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2353	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CCTTTCTCCACGGACATCGGA	0.448													43	75					0	0	1	0	0		T	82835880	T	T	82835880	3	4	155	1	0	0	0	0	1	0	0	0	17164	536	19	1	7084	1	VCAN	5	82835880	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5299135	82835880	98079380	462	84289											
VCAN	1462	broad.mit.edu	37	chr5	82850774	82850774	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggtttcctatcccttaGgtgtgggccatgattatcag	6	15	12	8	0	1	1	1	1	0	0	3	1	3	1	3	3	0	1	3	3	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:82850774G>T	uc003kii.3	+	12	10009	c.9653_splice	c.e12-1	p.R3218_splice	VCAN_uc003kij.3_Splice_Site_p.R2231_splice|VCAN_uc010jau.2_Splice_Site_p.R1464_splice|VCAN_uc003kik.3_Splice_Site_p.R477_splice|VCAN_uc003kil.3_Splice_Site_p.R1882_splice	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor						cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CTATCCCTTAGGTGTGGGCCA	0.393													44	83					2.00842e-17	2.14995e-17	1	1	0		T	82850774	T	T	82850774	5	4	155	1	0	0	0	0	0	0	1	0	17164	1014	35	5	9694	5	VCAN	5	82850774	Splice_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	14894	82850774	98064486	463	84290											
RASA1	5921	broad.mit.edu	37	chr5	86659293	86659293	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctcagtgtatgttctgtcTatgtcgttcatgatagtctc	7	18	8	8	1	5	1	2	1	4	0	8	1	5	1	0	0	0	3	0	0	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:86659293T>C	uc003kiw.2	+	11	1700	c.1582T>C	c.(1582-1584)TAT>CAT	p.Y528H	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.Y351H|RASA1_uc011ctv.1_Missense_Mutation_p.Y361H|RASA1_uc011ctw.1_Missense_Mutation_p.Y362H|RASA1_uc010jaw.2_Missense_Mutation_p.Y350H	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	528	PH.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		ATGTTCTGTCTATGTCGTTCA	0.338													82	113					0	0	1	0	0		C	86659293	C	C	86659293	3	2	155	1	0	0	0	0	1	0	0	0	13085	1522	53	3	1636	3	RASA1	5	86659293	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3808519	86659293	94255967	464	84291											
LYSMD3	116068	broad.mit.edu	37	chr5	89814745	89814748	+	Frame_Shift_Del	DEL	TCTC	-	-																															gcacaattccattttccattTctctctgctgtgatgggggt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:89814745_89814748delTCTC	uc003kjr.2	-	3	957_960	c.809_812delGAGA	c.(808-813)AGAGAAfs	p.R270fs	LYSMD3_uc010jaz.1_Frame_Shift_Del_p.E112fs|LYSMD3_uc003kjs.1_3'UTR	NM_198273	NP_938014	Q7Z3D4	LYSM3_HUMAN	LysM, putative peptidoglycan-binding, domain	270_271	Cytoplasmic (Potential).				cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)		ATTTTCCATTTCTCTCTGCTGTGA	0.373													113	169	---	---	---	---						.	-	89814748	-	-	89814745	7	5	155	1	0	1	0	1	0	0	0	0	9144	1783	62	0	112	0	LYSMD3	5	89814745	Frame_Shift_Del	DEL	TCTC	TCGA-CG-5726-01A-11D-1600-08	3155452	89814745	91100515	465	84292											
GPR98	84059	broad.mit.edu	37	chr5	89939634	89939634	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttagttggatgaacactaCtgggtggtcctcagcagcca	9	11	11	10	0	1	1	1	1	0	0	2	2	2	2	2	3	4	2	2	3	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:89939634C>G	uc003kju.2	+	14	2664	c.2568C>G	c.(2566-2568)TAC>TAG	p.Y856*	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	856	Extracellular (Potential).|Calx-beta 6.				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		ATGAACACTACTGGGTGGTCC	0.353													13	24					0	0	1	0	0		G	89939634	G	G	89939634	4	3	155	1	0	0	0	0	0	1	0	0	6737	576	20	5	2622	5	GPR98	5	89939634	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	124889	89939634	90975626	466	84293											
GPR98	84059	broad.mit.edu	37	chr5	89939651	89939651	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctactgggtggtcctcagcaGccacggagaacgggaaagca	11	5	14	11	2	1	1	1	0	0	1	2	3	2	2	2	4	5	2	2	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:89939651G>T	uc003kju.2	+	14	2681	c.2585G>T	c.(2584-2586)AGC>ATC	p.S862I	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	862	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTCCTCAGCAGCCACGGAGAA	0.363													10	28					0.000673444	0.000683673	1	1	0		T	89939651	T	T	89939651	3	4	155	1	0	0	0	0	1	0	0	0	6737	971	34	5	2639	5	GPR98	5	89939651	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	17	89939651	90975609	467	84294											
GPR98	84059	broad.mit.edu	37	chr5	89949768	89949768	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaaggagaagccattactgaCggtgagggtcatcatcacaa	15	7	11	8	1	3	3	3	2	0	1	3	4	3	3	1	3	2	0	1	3	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:89949768C>T	uc003kju.2	+	20	4473	c.4377C>T	c.(4375-4377)GAC>GAT	p.D1459D	GPR98_uc003kjt.2_Translation_Start_Site	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1459	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		CCATTACTGACGGTGAGGGTC	0.343													3	2					0	0	1	0	0		T	89949768	T	T	89949768	2	4	155	1	0	0	0	0	0	0	0	1	6737	550	19	1		1	GPR98	5	89949768	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	10117	89949768	90965492	468	84295											
APC	324	broad.mit.edu	37	chr5	112176242	112176243	+	Frame_Shift_Del	DEL	TT	-	-																															ttgaagggacacctataaacTtttccacagctacatctcta																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:112176242_112176243delTT	uc010jby.2	+	16	5331_5332	c.4951_4952delTT	c.(4951-4953)TTTfs	p.F1651fs	APC_uc011cvt.1_Frame_Shift_Del_p.F1633fs|APC_uc003kpz.3_Frame_Shift_Del_p.F1651fs|APC_uc003kpy.3_Frame_Shift_Del_p.F1651fs|APC_uc010jbz.2_Frame_Shift_Del_p.F1368fs|APC_uc010jca.2_Frame_Shift_Del_p.F951fs	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1651	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ACCTATAAACTTTTCCACAGCT	0.45		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			70	106	---	---	---	---						.	-	112176243	-	-	112176242	7	5	155	1	0	1	0	1	0	0	0	0	763	1609	56	0	5009	0	APC	5	112176242	Frame_Shift_Del	DEL	TT	TCGA-CG-5726-01A-11D-1600-08	22226474	112176242	68739018	469	84296											
SRP19	6728	broad.mit.edu	37	chr5	112227916	112227916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatttggagacagatgttcaCgtaaacataatttcccaaca	15	11	7	8	1	1	2	1	0	0	2	2	4	2	2	1	1	2	2	1	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:112227916C>T	uc011cvv.1	+	4	910	c.655C>T	c.(655-657)CGT>TGT	p.R219C	SRP19_uc011cvu.1_Missense_Mutation_p.R204C|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_Intron|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		CAGATGTTCACGTAAACATAA	0.443													13	273					0	0	1	0	0		T	112227916	T	T	112227916	3	4	155	1	0	0	0	0	1	0	0	0	15179	551	19	1		1	SRP19	5	112227916	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	51674	112227916	68687344	470	84297											
DCP2	167227	broad.mit.edu	37	chr5	112327834	112327834	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atactcttcagtcattgtccGtttttgctgcctcaaggtga	7	16	8	10	1	4	1	3	1	1	0	5	1	5	1	2	1	3	2	2	1	2	5	rs144025307		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:112327834G>A	uc003kqh.2	+	3	420	c.222G>A	c.(220-222)CCG>CCA	p.P74P	DCP2_uc011cwa.1_Intron|DCP2_uc010jcc.2_5'UTR	NM_152624	NP_689837	Q8IU60	DCP2_HUMAN	DCP2 decapping enzyme	74					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus|RNA-induced silencing complex	exoribonuclease activity, producing 5'-phosphomonoesters|manganese ion binding|protein binding|protein binding|RNA binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		OV - Ovarian serous cystadenocarcinoma(64;6.98e-08)|Epithelial(69;7.87e-08)|all cancers(49;1.06e-05)|COAD - Colon adenocarcinoma(37;0.0123)|Colorectal(14;0.0171)		GTCATTGTCCGTTTTTGCTGC	0.338													117	214					0	0	1	0	0		A	112327834	A	A	112327834	2	1	155	1	0	0	0	0	0	0	0	1	4303	1132	40	1		1	DCP2	5	112327834	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	99918	112327834	68587426	471	84298											
PGGT1B	5229	broad.mit.edu	37	chr5	114573623	114573623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttactcggcttaagtcGtctccaagaataactaagca	13	13	6	9	2	1	1	0	0	1	1	4	1	1	1	1	1	3	2	1	1	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:114573623G>A	uc003kqw.3	-	4	432	c.411C>T	c.(409-411)GAC>GAT	p.D137D	PGGT1B_uc003kqx.3_Silent_p.D14D|PGGT1B_uc010jch.2_Silent_p.D137D	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	137					protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		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)	Pravastatin(DB00175)	GGCTTAAGTCGTCTCCAAGAA	0.418													69	118					0	0	1	0	0		A	114573623	A	A	114573623	2	1	155	1	0	0	0	0	0	0	0	1	11808	1136	40	1		1	PGGT1B	5	114573623	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2245789	114573623	66341637	472	84299											
DMXL1	1657	broad.mit.edu	37	chr5	118486082	118486082	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatacaattgcaactacaagCactgatattggagaaagccg	16	8	9	8	1	0	2	0	1	0	1	0	4	0	2	1	1	6	2	1	1	7	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:118486082C>T	uc003ksd.2	+	18	4741	c.4560C>T	c.(4558-4560)AGC>AGT	p.S1520S	DMXL1_uc010jcl.1_Silent_p.S1520S	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1520										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		CAACTACAAGCACTGATATTG	0.378													100	135					0	0	1	0	0		T	118486082	T	T	118486082	2	4	155	1	0	0	0	0	0	0	0	1	4600	709	25	2		2	DMXL1	5	118486082	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3912459	118486082	62429178	473	84300											
CEP120	153241	broad.mit.edu	37	chr5	122734964	122734964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtccctggggtcaagtccagCcaggatggcaggtactttac	8	9	13	11	0	1	0	1	0	0	0	3	1	3	1	3	5	3	2	3	5	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:122734964C>T	uc003ktk.2	-	6	560	c.478G>A	c.(478-480)GCT>ACT	p.A160T	CEP120_uc011cwq.1_5'UTR|CEP120_uc010jcz.1_Missense_Mutation_p.A134T	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	160						centrosome				ovary(1)	1						TCAAGTCCAGCCAGGATGGCA	0.383													36	65					0	0	1	0	0		T	122734964	T	T	122734964	3	4	155	1	0	0	0	0	1	0	0	0	3249	739	26	2	2546	2	CEP120	5	122734964	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4248882	122734964	58180296	474	84301											
FBN2	2201	broad.mit.edu	37	chr5	127800499	127800499	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacacatctcacagggatgGccccacgcccgtccaatggt	9	6	11	15	2	1	0	1	0	1	0	3	2	2	2	4	4	0	0	4	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:127800499G>A	uc003kuu.2	-	6	1183	c.744C>T	c.(742-744)GGC>GGT	p.G248G	FBN2_uc003kuv.2_Silent_p.G215G|FBN2_uc003kuw.3_Silent_p.G248G|FBN2_uc003kux.1_Silent_p.G248G	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	248	TB 1.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		CACAGGGATGGCCCCACGCCC	0.602													40	64					0	0	1	0	0		A	127800499	A	A	127800499	2	1	155	1	0	0	0	0	0	0	0	1	5717	1190	42	2		2	FBN2	5	127800499	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5065535	127800499	53114761	475	84302											
ADAMTS19	171019	broad.mit.edu	37	chr5	129070744	129070744	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctgcagcatacaggccatgCcatcttcaaccctgcaatga	11	8	7	15	0	2	1	1	1	1	0	2	1	2	1	4	1	6	3	4	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:129070744C>T	uc003kvb.1	+	22	3414	c.3414C>T	c.(3412-3414)TGC>TGT	p.C1138C	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1138	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		ACAGGCCATGCCATCTTCAAC	0.383													24	168					0	0	1	0	0		T	129070744	T	T	129070744	2	4	155	1	0	0	0	0	0	0	0	1	264	747	26	2		2	ADAMTS19	5	129070744	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1270245	129070744	51844516	476	84303											
TXNDC15	79770	broad.mit.edu	37	chr5	134235216	134235216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggtggtaactcaagcCgaccaaataggccctcttcc	11	9	9	12	1	2	0	1	0	1	0	3	1	3	0	4	3	2	1	4	3	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:134235216C>T	uc003lac.1	+	5	1582	c.924C>T	c.(922-924)GCC>GCT	p.A308A	TXNDC15_uc010jdy.1_RNA|TXNDC15_uc011cxv.1_RNA	NM_024715	NP_078991	Q96J42	TXD15_HUMAN	disulfide isomerase precursor	308	Extracellular (Potential).				cell redox homeostasis	integral to membrane				ovary(1)|breast(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TAACTCAAGCCGACCAAATAG	0.378													10	166					0	0	1	0	0		T	134235216	T	T	134235216	2	4	155	1	0	0	0	0	0	0	0	1	16820	639	23	1		1	TXNDC15	5	134235216	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5164472	134235216	46680044	477	84304											
TGFBI	7045	broad.mit.edu	37	chr5	135385251	135385251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgaaccgtatcctgggcGacccagaagccctgagaggt	9	8	12	12	2	0	3	0	2	0	2	1	5	1	3	4	2	2	1	4	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:135385251G>A	uc003lbf.3	+	7	1056	c.895G>A	c.(895-897)GAC>AAC	p.D299N	TGFBI_uc003lbg.3_Missense_Mutation_p.D32N|TGFBI_uc003lbh.3_Missense_Mutation_p.D125N|TGFBI_uc011cyb.1_Missense_Mutation_p.D125N|TGFBI_uc010jed.2_Missense_Mutation_p.D32N	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	299	FAS1 2.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TATCCTGGGCGACCCAGAAGC	0.542													14	18					0	0	1	0	0		A	135385251	A	A	135385251	3	1	155	1	0	0	0	0	1	0	0	0	15845	1058	37	1	921	1	TGFBI	5	135385251	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1150035	135385251	45530009	478	84305											
BRD8	10902	broad.mit.edu	37	chr5	137486467	137486467	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgagtagtccctgaactgtAcaaataactgagggagctga	13	9	12	7	0	0	4	0	4	0	0	1	5	1	5	1	1	4	3	1	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:137486467A>G	uc003lcf.1	-	22	3142	c.3087T>C	c.(3085-3087)TGT>TGC	p.C1029C	BRD8_uc003lcc.1_Intron	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	1029					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CCTGAACTGTACAAATAACTG	0.418													93	161					0	0	1	0	0		G	137486467	G	G	137486467	2	3	155	1	0	0	0	0	0	0	0	1	1509	389	14	3		3	BRD8	5	137486467	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2101216	137486467	43428793	479	84306											
GFRA3	2676	broad.mit.edu	37	chr5	137600037	137600037	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggcacatgcagcctatcaGagagctgttcctgagttgct	8	11	12	10	0	1	2	1	1	0	1	2	3	2	2	2	1	4	6	2	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:137600037G>A	uc003lcn.2	-	2	432	c.292C>T	c.(292-294)CTG>TTG	p.L98L	GFRA3_uc003lco.2_Silent_p.L98L	NM_001496	NP_001487	O60609	GFRA3_HUMAN	GDNF family receptor alpha 3 preproprotein	98					peripheral nervous system development	anchored to membrane|cytoplasm|extrinsic to membrane|intracellular membrane-bounded organelle	receptor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CAGCCTATCAGAGAGCTGTTC	0.597													53	85					0	0	1	0	0		A	137600037	A	A	137600037	2	1	155	1	0	0	0	0	0	0	0	1	6364	933	33	4		4	GFRA3	5	137600037	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	113570	137600037	43315223	480	84307											
SLC23A1	9963	broad.mit.edu	37	chr5	138715466	138715466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttttgggtctgtgggcagcaCgtctgtcaaggtcaggacat	7	12	14	8	1	4	0	2	0	2	0	4	1	4	1	0	4	1	2	0	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:138715466C>T	uc003leh.2	-	8	923	c.826G>A	c.(826-828)GTG>ATG	p.V276M	SLC23A1_uc003leg.2_Missense_Mutation_p.V280M	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	276					brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	GTGGGCAGCACGTCTGTCAAG	0.597													61	113					0	0	1	0	0		T	138715466	T	T	138715466	3	4	155	1	0	0	0	0	1	0	0	0	14487	536	19	1	998	1	SLC23A1	5	138715466	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1115429	138715466	42199794	481	84308											
PSD2	84249	broad.mit.edu	37	chr5	139197119	139197119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcagtttcttcgacttctCgggcttgactctggacggag	5	13	11	12	3	4	1	1	1	3	0	6	4	4	3	1	3	0	2	1	3	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:139197119C>T	uc003leu.1	+	5	1275	c.1070C>T	c.(1069-1071)TCG>TTG	p.S357L		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	357	SEC7.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGACTTCTCGGGCTTGACT	0.483													38	52					0	0	1	0	0		T	139197119	T	T	139197119	3	4	155	1	0	0	0	0	1	0	0	0	12669	893	31	1	1084	1	PSD2	5	139197119	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	481653	139197119	41718141	482	84309											
PCDHA3	56145	broad.mit.edu	37	chr5	140182832	140182832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcctcgtcccaggcgtccGctggcgccacgggcccggaa	5	4	15	17	6	0	0	0	0	0	0	3	1	2	1	5	5	0	1	5	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140182832G>A	uc003lhf.2	+	1	2050	c.2050G>A	c.(2050-2052)GCT>ACT	p.A684T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A684T	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	684	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGGCGTCCGCTGGCGCCAC	0.647													31	32					0	0	1	0	0		A	140182832	A	A	140182832	3	1	155	1	0	0	0	0	1	0	0	0	11544	1087	38	1	2052	1	PCDHA3	5	140182832	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	985713	140182832	40732428	483	84310											
PCDHA4	56144	broad.mit.edu	37	chr5	140189048	140189048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagaggaggccgagggtgtGctctggtgagggcccaccca	7	5	18	11	1	1	2	0	1	1	1	1	4	1	3	3	5	1	2	3	5	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140189048G>A	uc003lhi.2	+	1	2377	c.2276G>A	c.(2275-2277)TGC>TAC	p.C759Y	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.C759Y|PCDHA4_uc011daa.1_Missense_Mutation_p.C759Y	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	759	Cytoplasmic (Potential).|6 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGAGGGTGTGCTCTGGTGAG	0.642													28	111					0	0	1	0	0		A	140189048	A	A	140189048	3	1	155	1	0	0	0	0	1	0	0	0	11545	1319	46	2	2278	2	PCDHA4	5	140189048	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6216	140189048	40726212	484	84311											
PCDHA5	56143	broad.mit.edu	37	chr5	140203040	140203040	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctggacgagaacgacaaCgcgccggcgctgctggtgcc	7	5	16	13	6	0	1	0	0	0	1	0	4	0	2	2	3	5	3	2	3	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140203040C>T	uc003lhl.2	+	1	1680	c.1680C>T	c.(1678-1680)AAC>AAT	p.N560N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.N560N|PCDHA5_uc003lhj.1_Silent_p.N560N	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	560	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAACGACAACGCGCCGGCGC	0.711													34	34					0	0	1	0	0		T	140203040	T	T	140203040	2	4	155	1	0	0	0	0	0	0	0	1	11546	535	19	1		1	PCDHA5	5	140203040	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	13992	140203040	40712220	485	84312											
PCDHA5	56143	broad.mit.edu	37	chr5	140203226	140203226	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agtgcgcgcatcccgttccgCgtggggctgtacacaggcga	6	7	15	13	6	0	0	0	0	0	0	2	1	2	0	2	3	2	4	2	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140203226C>T	uc003lhl.2	+	1	1866	c.1866C>T	c.(1864-1866)CGC>CGT	p.R622R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.R622R|PCDHA5_uc003lhj.1_Silent_p.R622R	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	622	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCCGTTCCGCGTGGGGCTGT	0.637													4	57					0	0	1	0	0		T	140203226	T	T	140203226	2	4	155	1	0	0	0	0	0	0	0	1	11546	755	27	1		1	PCDHA5	5	140203226	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	186	140203226	40712034	486	84313											
PCDHA13	56136	broad.mit.edu	37	chr5	140262616	140262616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtgacggtgttagagaacGccttcaatggaacattagtg	13	10	12	6	2	1	2	1	1	0	1	1	4	1	3	1	2	2	1	1	2	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140262616G>A	uc003lif.2	+	1	763	c.763G>A	c.(763-765)GCC>ACC	p.A255T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A255T|PCDHA13_uc003lid.2_Missense_Mutation_p.A255T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	255	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTAGAGAACGCCTTCAATGG	0.448													59	134					0	0	1	0	0		A	140262616	A	A	140262616	3	1	155	1	0	0	0	0	1	0	0	0	11542	1087	38	1	765	1	PCDHA13	5	140262616	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	59390	140262616	40652644	487	84314											
PCDHB6	56130	broad.mit.edu	37	chr5	140530204	140530204	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcaggcttccttgcgagtCagagatataaatgaccacgc	11	11	9	10	2	2	2	2	1	0	1	3	4	3	2	2	1	1	1	2	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140530204C>T	uc003lir.2	+	1	366	c.366C>T	c.(364-366)GTC>GTT	p.V122V	PCDHB6_uc011dah.1_5'UTR	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	122	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTTGCGAGTCAGAGATATAA	0.473													62	121					0	0	1	0	0		T	140530204	T	T	140530204	2	4	155	1	0	0	0	0	0	0	0	1	11565	813	29	4		4	PCDHB6	5	140530204	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	267588	140530204	40385056	488	84315											
PCDHB12	56124	broad.mit.edu	37	chr5	140588928	140588928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagaacagtcctgttggtgCtgtgttcttgcttgaaagtg	8	14	13	6	0	1	2	0	1	1	1	2	3	2	2	1	1	3	4	1	1	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140588928C>T	uc003liz.2	+	1	638	c.449C>T	c.(448-450)GCT>GTT	p.A150V	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	150	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGTTGGTGCTGTGTTCTTG	0.383													70	123					0	0	1	0	0		T	140588928	T	T	140588928	3	4	155	1	0	0	0	0	1	0	0	0	11556	797	28	2	451	2	PCDHB12	5	140588928	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	58724	140588928	40326332	489	84316											
PCDHB14	56122	broad.mit.edu	37	chr5	140604247	140604247	+	Frame_Shift_Del	DEL	T	-	-																															tctattcaagataacctcccTtttttcctgaaaccgacctt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140604247delT	uc003ljb.2	+	1	1170	c.1170delT	c.(1168-1170)CCTfs	p.P390fs	PCDHB14_uc011dal.1_Frame_Shift_Del_p.P237fs	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	390	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATAACCTCCCTTTTTTCCTGA	0.443													80	183	---	---	---	---						.	-	140604247	-	-	140604247	7	5	155	1	0	1	0	1	0	0	0	0	11558	1596	56	0	1172	0	PCDHB14	5	140604247	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	15319	140604247	40311013	490	84317											
PCDHGB1	56104	broad.mit.edu	37	chr5	140730469	140730469	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcctgactgccatggatggCggggacccgcctctaagcgg	7	7	14	13	3	1	1	0	1	1	0	2	3	2	3	4	5	2	0	4	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140730469C>T	uc003ljo.1	+	1	642	c.642C>T	c.(640-642)GGC>GGT	p.G214G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.G214G	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	214	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCATGGATGGCGGGGACCCGC	0.507													19	39					0	0	1	0	0		T	140730469	T	T	140730469	2	4	155	1	0	0	0	0	0	0	0	1	11581	755	27	1		1	PCDHGB1	5	140730469	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	126222	140730469	40184791	491	84318											
PCDHGA6	56109	broad.mit.edu	37	chr5	140753737	140753737	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtggggggccgcggcagcGcagatccgctactctattcc	5	8	14	14	4	1	1	0	0	1	1	3	1	3	1	3	4	2	3	3	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140753737G>A	uc003ljy.1	+	1	87	c.87G>A	c.(85-87)GCG>GCA	p.A29A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.A29A	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	29					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGCGGCAGCGCAGATCCGCT	0.642													15	18					0	0	1	0	0		A	140753737	A	A	140753737	2	1	155	1	0	0	0	0	0	0	0	1	11577	1074	38	1		1	PCDHGA6	5	140753737	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	23268	140753737	40161523	492	84319											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773115	140773115	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccccggtttttcctcacccGatttaccgagtgaaagtcct	7	12	8	14	3	1	1	1	1	0	0	3	3	3	1	6	1	1	1	6	1	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140773115G>A	uc003lkd.1	+	1	1633	c.735G>A	c.(733-735)CCG>CCA	p.P245P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.P245P	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	245	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCCTCACCCGATTTACCGAG	0.567													81	89					0	0	1	0	0		A	140773115	A	A	140773115	2	1	155	1	0	0	0	0	0	0	0	1	11579	1045	37	1		1	PCDHGA8	5	140773115	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	19378	140773115	40142145	493	84320											
PCDHGB7	56099	broad.mit.edu	37	chr5	140799314	140799314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcgaggtgcgcatggtgCgtgctttgggtgacaaggac	7	8	18	8	3	0	1	0	1	0	0	0	3	0	2	0	5	3	2	0	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:140799314C>T	uc003lkn.1	+	1	2033	c.1888C>T	c.(1888-1890)CGT>TGT	p.R630C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.R630C|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	630	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCATGGTGCGTGCTTTGGG	0.652													21	31					0	0	1	0	0		T	140799314	T	T	140799314	3	4	155	1	0	0	0	0	1	0	0	0	11587	768	27	1	1890	1	PCDHGB7	5	140799314	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	26199	140799314	40115946	494	84321											
KIAA0141	9812	broad.mit.edu	37	chr5	141309272	141309272	+	Nonsense_Mutation	SNP	A	T	T	1	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	acttctcacacaactctttgAgaggagctcgtcctcaggac	10	10	8	13	1	3	1	2	1	2	1	6	4	4	3	1	2	2	1	1	2	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:141309272A>T	uc003lls.2	+	5	660	c.538A>T	c.(538-540)AGA>TGA	p.R180*	KIAA0141_uc003llt.2_Nonsense_Mutation_p.R180*	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	180					apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACTCTTTGAGAGGAGCTCG	0.622													35	41					0	0	1	0	0		T	141309272	T	T	141309272	4	4	155	1	0	0	0	0	0	1	0	0	8172	296	11	5	556	5	KIAA0141	5	141309272	Nonsense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	509958	141309272	39605988	495	84322											
SPRY4	81848	broad.mit.edu	37	chr5	141694197	141694197	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacacttcccacaggcctcGcacagcaagaagtgcttgtc	10	9	8	14	1	0	1	0	0	0	1	3	1	1	1	2	1	3	3	2	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:141694197G>A	uc003lml.2	-	2	736	c.477C>T	c.(475-477)TGC>TGT	p.C159C	SPRY4_uc010jgi.1_Silent_p.C182C	NM_001127496	NP_001120968	Q9C004	SPY4_HUMAN	sprouty homolog 4 isoform 2	159	Cys-rich.				multicellular organismal development	cytoplasm|ruffle membrane	protein binding			ovary(1)|lung(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACAGGCCTCGCACAGCAAGA	0.642									Testicular_Cancer_Familial_Clustering_of				47	90					0	0	1	0	0		A	141694197	A	A	141694197	2	1	155	1	0	0	0	0	0	0	0	1	15133	1079	38	1		1	SPRY4	5	141694197	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	384925	141694197	39221063	496	84323											
POU4F3	5459	broad.mit.edu	37	chr5	145719822	145719822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcgaacggaagcgcaaaCgcacgtccatcgcggcgccg	10	2	14	15	9	0	0	0	0	0	0	2	2	1	1	2	2	4	3	2	2	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:145719822C>T	uc003loa.2	+	2	921	c.832C>T	c.(832-834)CGC>TGC	p.R278C		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	278	Homeobox.				sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAAGCGCAAACGCACGTCCAT	0.612													23	41					0	0	1	0	0		T	145719822	T	T	145719822	3	4	155	1	0	0	0	0	1	0	0	0	12299	536	19	1	838	1	POU4F3	5	145719822	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4025625	145719822	35195438	497	84324											
TCERG1	10915	broad.mit.edu	37	chr5	145843206	145843206	+	Frame_Shift_Del	DEL	G	-	-																															ctgctcctacagccacacctGtgcaaaccgttccccagccg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:145843206delG	uc003lob.2	+	5	1025	c.985delG	c.(985-987)GTGfs	p.V329fs	TCERG1_uc003loc.2_Frame_Shift_Del_p.V329fs|TCERG1_uc011dbt.1_Frame_Shift_Del_p.V329fs	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	329	Pro-rich.|Thr-rich.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		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)			AGCCACACCTGTGCAAACCGT	0.507													110	166	---	---	---	---						.	-	145843206	-	-	145843206	7	5	155	1	0	1	0	1	0	0	0	0	15710	1377	48	0	1003	0	TCERG1	5	145843206	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	123384	145843206	35072054	498	84325											
JAKMIP2	9832	broad.mit.edu	37	chr5	147016599	147016599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttagcacctctgcttggaGctgttcttgagcctggtgaa	6	13	11	11	0	2	2	0	2	2	0	2	3	2	3	3	2	4	4	3	2	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:147016599G>A	uc003loq.1	-	11	1925	c.1543C>T	c.(1543-1545)CTC>TTC	p.L515F	JAKMIP2_uc011dbx.1_Missense_Mutation_p.L473F|JAKMIP2_uc003lor.1_Missense_Mutation_p.L515F|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.L515F	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	515	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTGCTTGGAGCTGTTCTTGA	0.438													8	261					0	0	1	0	0		A	147016599	A	A	147016599	3	1	155	1	0	0	0	0	1	0	0	0	7957	971	34	2	933	2	JAKMIP2	5	147016599	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1173393	147016599	33898661	499	84326											
AFAP1L1	134265	broad.mit.edu	37	chr5	148697298	148697298	+	Missense_Mutation	SNP	T	C	C	0	1	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	attgtctcctccaggctaccTgaacgtgctggtgaaccagg	8	10	11	12	1	1	2	0	2	1	0	3	2	2	2	4	3	4	2	4	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:148697298T>C	uc003lqh.2	+	12	1405	c.1274T>C	c.(1273-1275)CTG>CCG	p.L425P	AFAP1L1_uc010jgy.2_Missense_Mutation_p.L425P|AFAP1L1_uc003lqi.1_Missense_Mutation_p.L40P	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	425	PH 2.						protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGGCTACCTGAACGTGCTG	0.552											OREG0016911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	28					0	0	1	0	0		C	148697298	C	C	148697298	3	2	155	1	0	0	0	0	1	0	0	0	354	1580	55	3	1320	3	AFAP1L1	5	148697298	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1680699	148697298	32217962	500	84327											
GRPEL2	134266	broad.mit.edu	37	chr5	148730613	148730613	+	Frame_Shift_Del	DEL	T	-	-																															ggtcttccgagggttgttgcTtttagaagcaaagctgaaaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:148730613delT	uc003lqj.2	+	4	572	c.446delT	c.(445-447)CTTfs	p.L149fs	GRPEL2_uc011dca.1_Frame_Shift_Del_p.F122fs	NM_152407	NP_689620	Q8TAA5	GRPE2_HUMAN	GrpE-like 2, mitochondrial precursor	149					protein folding	mitochondrial matrix	adenyl-nucleotide exchange factor activity|chaperone binding|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTTGTTGCTTTTAGAAGCA	0.473													97	180	---	---	---	---						.	-	148730613	-	-	148730613	7	5	155	1	0	1	0	1	0	0	0	0	6823	1609	56	0	460	0	GRPEL2	5	148730613	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	33315	148730613	32184647	501	84328											
PDGFRB	5159	broad.mit.edu	37	chr5	149502704	149502704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggaaggtgtgtttgttgCggtgcaggtagtccaccagg	7	10	17	7	1	0	0	0	0	0	0	1	1	1	1	2	5	2	5	2	5	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:149502704C>T	uc003lro.2	-	15	2553	c.2084G>A	c.(2083-2085)CGC>CAC	p.R695H	PDGFRB_uc010jhd.2_Missense_Mutation_p.R534H	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	695	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GTGTTTGTTGCGGTGCAGGTA	0.632			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								18	97					0	0	1	0	0		T	149502704	T	T	149502704	3	4	155	1	0	0	0	0	1	0	0	0	11681	768	27	1	1272	1	PDGFRB	5	149502704	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	772091	149502704	31412556	502	84329											
G3BP1	10146	broad.mit.edu	37	chr5	151179857	151179857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtcaccaactcttcattgGcaacctgcctcatgaagtgg	10	10	8	13	0	4	1	3	1	1	0	4	1	4	1	3	2	3	1	3	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:151179857G>A	uc003lun.2	+	10	1205	c.1034G>A	c.(1033-1035)GGC>GAC	p.G345D	G3BP1_uc003lum.2_Missense_Mutation_p.G345D|G3BP1_uc011dcu.1_Missense_Mutation_p.G163D|G3BP1_uc010jhz.2_Missense_Mutation_p.G163D|G3BP1_uc003luq.2_Missense_Mutation_p.G13D	NM_005754	NP_005745	Q13283	G3BP1_HUMAN	Ras-GTPase-activating protein SH3-domain-binding	345	RRM.				Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			CTCTTCATTGGCAACCTGCCT	0.413													11	160					0	0	1	0	0		A	151179857	A	A	151179857	3	1	155	1	0	0	0	0	1	0	0	0	6155	1203	42	2	1068	2	G3BP1	5	151179857	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1677153	151179857	29735403	503	84330											
GABRG2	2566	broad.mit.edu	37	chr5	161524835	161524835	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aacaggatgctgagaatttgGaatgatggtcgagtgctcta	12	11	13	5	1	1	2	0	2	1	1	2	6	1	4	0	3	3	2	0	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:161524835G>A	uc003lyz.3	+	4	877	c.519G>A	c.(517-519)TGG>TGA	p.W173*	GABRG2_uc010jjc.2_Nonsense_Mutation_p.W173*|GABRG2_uc003lyy.3_Nonsense_Mutation_p.W173*|GABRG2_uc011dej.1_Nonsense_Mutation_p.W78*	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	173	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		TGAGAATTTGGAATGATGGTC	0.403													9	171					0	0	1	0	0		A	161524835	A	A	161524835	4	1	155	1	0	0	0	0	0	1	0	0	6186	1183	41	4	533	4	GABRG2	5	161524835	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	10344978	161524835	19390425	504	84331											
DOCK2	1794	broad.mit.edu	37	chr5	169477281	169477281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaagtgttcatctaccgcGggaaggaatatgagcgaaga	15	7	12	7	3	2	2	1	1	1	1	2	5	2	4	1	2	2	1	1	2	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:169477281G>A	uc003maf.2	+	41	4173	c.4093G>A	c.(4093-4095)GGG>AGG	p.G1365R	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.G857R	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1365	DHR-2.|Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CATCTACCGCGGGAAGGAATA	0.507													125	173					0	0	1	0	0		A	169477281	A	A	169477281	3	1	155	1	0	0	0	0	1	0	0	0	4693	1116	39	1	4255	1	DOCK2	5	169477281	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7952446	169477281	11437979	505	84332											
HRH2	3274	broad.mit.edu	37	chr5	175110616	175110616	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggacccactgcggtaccCtgtgctggtcaccccagttc	6	9	10	16	1	1	0	1	0	0	0	2	1	1	1	4	3	3	3	4	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:175110616C>A	uc003mdd.2	+	1	2153	c.380C>A	c.(379-381)CCT>CAT	p.P127H	HRH2_uc003mdc.3_Missense_Mutation_p.P127H	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	127	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	CTGCGGTACCCTGTGCTGGTC	0.552													30	40					6.38683e-12	6.74614e-12	1	1	0		A	175110616	A	A	175110616	3	1	155	1	0	0	0	0	1	0	0	0	7372	681	24	5	382	5	HRH2	5	175110616	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5633335	175110616	5804644	506	84333											
CDHR2	54825	broad.mit.edu	37	chr5	176004529	176004529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatccgcgctggtggactacGagaggcagacggcgatggcg	8	6	17	10	6	0	2	0	0	0	2	1	5	1	3	1	5	1	2	1	5	2	2	rs114930966	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:176004529G>A	uc003mem.1	+	13	1390	c.1324G>A	c.(1324-1326)GAG>AAG	p.E442K	CDHR2_uc003men.1_Missense_Mutation_p.E442K	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	442	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GGTGGACTACGAGAGGCAGAC	0.701													3	11					0	0	1	0	0		A	176004529	A	A	176004529	3	1	155	1	0	0	0	0	1	0	0	0	3122	1059	37	1	1370	1	CDHR2	5	176004529	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	893913	176004529	4910731	507	84334											
SNCB	6620	broad.mit.edu	37	chr5	176056582	176056582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccgccgcctcggtgaccCcctgcttggttttctccgcg	1	12	10	18	5	2	1	0	1	2	0	5	1	2	1	6	2	1	2	6	2	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:176056582C>T	uc003mep.2	-	3	517	c.74G>A	c.(73-75)GGG>GAG	p.G25E	SNCB_uc003meq.2_Missense_Mutation_p.G25E|SNCB_uc010jke.1_Missense_Mutation_p.G25E|hsa-mir-4281|MI0015885_5'Flank|EIF4E1B_uc010jkf.1_5'Flank	NM_001001502	NP_001001502	Q16143	SYUB_HUMAN	beta-synuclein	25	1.|4 X 11 AA tandem repeats of [EGS]-K-T-K- [EQ]-[GQ]-V-X(4).						calcium ion binding|phospholipase inhibitor activity			ovary(1)	1	all_cancers(89;0.00222)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCGGTGACCCCCTGCTTGGT	0.672													7	5					0	0	1	0	0		T	176056582	T	T	176056582	3	4	155	1	0	0	0	0	1	0	0	0	14867	623	22	4	350	4	SNCB	5	176056582	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	52053	176056582	4858678	508	84335											
FAM193B	54540	broad.mit.edu	37	chr5	176951928	176951928	+	Silent	SNP	T	C	C	0	1	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	tctgaggagccactgaggttTgaggggggtagactctgagg	8	9	18	6	0	2	5	0	4	2	1	2	6	2	6	1	6	1	2	1	6	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:176951928T>C	uc003mhs.3	-	8	3044	c.1455A>G	c.(1453-1455)TCA>TCG	p.S485S	FAM193B_uc003mhr.2_Silent_p.S22S|FAM193B_uc003mht.2_Silent_p.S144S|FAM193B_uc003mhu.2_Silent_p.S197S|FAM193B_uc003mhv.2_Silent_p.S144S|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540	518											0						CACTGAGGTTTGAGGGGGGTA	0.582													15	18					0	0	1	0	0		C	176951928	C	C	176951928	2	2	155	1	0	0	0	0	0	0	0	1	5536	1799	63	3		3	FAM193B	5	176951928	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	895346	176951928	3963332	509	84336											
SQSTM1	8878	broad.mit.edu	37	chr5	179250925	179250925	+	Frame_Shift_Del	DEL	C	-	-																															gcgccccgcaacatggtgcaCcccaatgtgatctgcgatgg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:179250925delC	uc003mkw.3	+	3	464	c.369delC	c.(367-369)CACfs	p.H123fs	SQSTM1_uc011dgr.1_Frame_Shift_Del_p.H39fs|SQSTM1_uc011dgs.1_Frame_Shift_Del_p.H39fs|SQSTM1_uc003mkv.3_Frame_Shift_Del_p.H123fs|SQSTM1_uc003mkx.2_Frame_Shift_Del_p.H39fs	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	123	ZZ-type.|Interaction with GABRR3 (By similarity).				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACATGGTGCACCCCAATGTGA	0.607									Paget_Disease_of_Bone				40	76	---	---	---	---						.	-	179250925	-	-	179250925	7	5	155	1	0	1	0	1	0	0	0	0	15155	506	18	0	379	0	SQSTM1	5	179250925	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	2298997	179250925	1664335	510	84337											
FLT4	2324	broad.mit.edu	37	chr5	180047183	180047183	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggcctcacccaggtgcagCcgctctcgggggaattccca	6	7	12	16	2	2	0	1	0	1	0	4	1	3	1	4	4	2	2	4	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:180047183C>T	uc003mma.3	-	17	2611	c.2532G>A	c.(2530-2532)CGG>CGA	p.R844R	FLT4_uc003mlz.3_Silent_p.R844R|FLT4_uc003mmb.1_Silent_p.R377R	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	844	Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CCAGGTGCAGCCGCTCTCGGG	0.627									Congenital_Hereditary_Lymphedema				9	49					0	0	1	0	0		T	180047183	T	T	180047183	2	4	155	1	0	0	0	0	0	0	0	1	5958	726	26	2		2	FLT4	5	180047183	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	796258	180047183	868077	511	84338											
BTNL3	10917	broad.mit.edu	37	chr5	180432460	180432460	+	Missense_Mutation	SNP	T	A	A	0	1	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	gagatttacaaggaagagtgTggtggcttctcagggtttcc	9	12	14	6	0	1	2	1	0	1	2	3	4	2	3	1	4	1	2	1	4	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr5:180432460T>A	uc003mmr.2	+	8	1117	c.989T>A	c.(988-990)GTG>GAG	p.V330E	BTNL3_uc010jlp.2_Missense_Mutation_p.V115E	NM_197975	NP_932079	Q6UXE8	BTNL3_HUMAN	butyrophilin-like 3 precursor	330	B30.2/SPRY.|Cytoplasmic (Potential).				lipid metabolic process	integral to membrane					0	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;0.00336)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)|all_lung(500;0.248)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000272)			AGGAAGAGTGTGGTGGCTTCT	0.512													70	102					0	0	1	0	0		A	180432460	A	A	180432460	3	1	155	1	0	0	0	0	1	0	0	0	1569	1696	59	5	1019	5	BTNL3	5	180432460	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	385277	180432460	482800	512	84339											
IRF4	3662	broad.mit.edu	37	chr6	401701	401701	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactgggacgggcccctggcGctgtgcaacgaccggcccaa	7	5	14	15	4	0	0	0	0	0	0	0	2	0	1	4	4	3	2	4	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:401701G>A	uc003msz.3	+	7	1136	c.1023G>A	c.(1021-1023)GCG>GCA	p.A341A	IRF4_uc010jne.1_Silent_p.A341A|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Silent_p.A340A|IRF4_uc003mtc.1_Silent_p.A171A	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	341					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		GGCCCCTGGCGCTGTGCAACG	0.592			T	IGH@	MM 								25	46					0	0	1	0	0		A	401701	A	A	401701	2	1	155	1	0	0	0	0	0	0	0	1	7848	1074	38	1		1	IRF4	6	401701	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08		401701	170713366	513	84340											
MYLK4	340156	broad.mit.edu	37	chr6	2749574	2749574	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctggagtgtggttttcGtctccctctgtctccgattt	2	19	9	11	2	4	0	0	0	4	0	7	2	4	1	2	2	0	1	2	2	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:2749574G>A	uc003mty.3	-	2	252	c.-45C>T	c.(-47--43)GACGA>GATGA			NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4								ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				TGTGGTTTTCGTCTCCCTCTG	0.398													67	98					0	0	1	0	0		A	2749574	A	A	2749574	1	1	155	1	0	0	0	0	0	0	0	0	10077	1160	40	1		1	MYLK4	6	2749574	Translation_Start_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2347873	2749574	168365493	514	84341											
BMP6	654	broad.mit.edu	37	chr6	7879334	7879334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagcagtgaattgaaaacagCctgcaggaagcatgagctgt	14	7	12	8	0	0	3	0	3	0	0	0	4	0	4	1	1	6	4	1	1	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:7879334C>T	uc003mxu.3	+	5	1410	c.1232C>T	c.(1231-1233)GCC>GTC	p.A411V		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	411					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					TTGAAAACAGCCTGCAGGAAG	0.433													74	102					0	0	1	0	0		T	7879334	T	T	7879334	3	4	155	1	0	0	0	0	1	0	0	0	1465	739	26	2	1250	2	BMP6	6	7879334	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5129760	7879334	163235733	515	84342											
TXNDC5	81567	broad.mit.edu	37	chr6	7883385	7883385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaactgtgttcctaaagttCgtctttcgcttggctcagga	7	14	9	11	2	2	0	1	0	1	0	5	1	3	1	2	2	1	4	2	2	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:7883385C>T	uc003mxv.2	-	10	1323	c.1291G>A	c.(1291-1293)GAA>AAA	p.E431K	TXNDC5_uc003mxw.2_Missense_Mutation_p.E388K|TXNDC5_uc010jnz.2_Missense_Mutation_p.E323K	NM_030810	NP_110437	Q8NBS9	TXND5_HUMAN	thioredoxin domain containing 5 isoform 1	431	Prevents secretion from ER (Potential).				anti-apoptosis|cell redox homeostasis|cellular membrane organization|glycerol ether metabolic process|post-Golgi vesicle-mediated transport	endoplasmic reticulum lumen|lysosomal lumen	electron carrier activity|isomerase activity|protein disulfide oxidoreductase activity				0	Ovarian(93;0.0398)					TCCTAAAGTTCGTCTTTCGCT	0.557													31	51					0	0	1	0	0		T	7883385	T	T	7883385	3	4	155	1	0	0	0	0	1	0	0	0	16825	893	31	1	11	1	TXNDC5	6	7883385	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4051	7883385	163231682	516	84343											
EEF1E1	9521	broad.mit.edu	37	chr6	8097536	8097536	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgtcatttttactggagtgCccatctacttgagtgaccct	8	15	8	10	0	2	2	1	2	1	0	2	3	2	3	2	1	3	0	2	1	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:8097536C>T	uc003mxz.2	-	2	326	c.252G>A	c.(250-252)GGG>GGA	p.G84G	EEF1E1_uc011dic.1_Silent_p.G84G	NM_004280	NP_004271	O43324	MCA3_HUMAN	eukaryotic translation elongation factor 1	84	GST C-terminal.				negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of DNA damage response, signal transduction by p53 class mediator|tRNA aminoacylation for protein translation	cytosol|nucleus					0	Ovarian(93;0.0398)					TACTGGAGTGCCCATCTACTT	0.418													144	243					0	0	1	0	0		T	8097536	T	T	8097536	2	4	155	1	0	0	0	0	0	0	0	1	4933	726	26	2		2	EEF1E1	6	8097536	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	214151	8097536	163017531	517	84344											
MAK	4117	broad.mit.edu	37	chr6	10830846	10830846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacactcccatacgtgccGtcccccaactgtctcatggt	8	9	7	17	2	1	0	1	0	1	0	4	0	3	0	4	1	4	1	4	1	2	1	rs138352622		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:10830846G>A	uc003mzl.2	-	1	265	c.36C>T	c.(34-36)GAC>GAT	p.D12D	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Silent_p.D12D|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	12	ATP (By similarity).|Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				CATACGTGCCGTCCCCCAACT	0.438													45	64					0	0	1	0	0		A	10830846	A	A	10830846	2	1	155	1	0	0	0	0	0	0	0	1	9215	1136	40	1		1	MAK	6	10830846	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2733310	10830846	160284221	518	84345											
GFOD1	54438	broad.mit.edu	37	chr6	13365208	13365208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtcctggaaggcctggcGcaccgcctgcatcatcttga	6	9	12	14	2	2	1	1	1	1	0	3	2	3	2	4	4	1	2	4	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:13365208G>A	uc003nat.1	-	2	1605	c.940C>T	c.(940-942)CGC>TGC	p.R314C	GFOD1_uc003nas.1_Missense_Mutation_p.R211C	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	314						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			AAGGCCTGGCGCACCGCCTGC	0.677													10	41					0	0	1	0	0		A	13365208	A	A	13365208	3	1	155	1	0	0	0	0	1	0	0	0	6358	1087	38	1	236	1	GFOD1	6	13365208	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2534362	13365208	157749859	519	84346											
RANBP9	10048	broad.mit.edu	37	chr6	13639807	13639807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatctcacctgaaaaatgtgCggtgcttcctttgcctgatg	9	13	9	10	1	1	2	1	2	1	0	3	2	2	2	3	1	3	1	3	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:13639807C>T	uc003nbb.2	-	9	1572	c.1513G>A	c.(1513-1515)GCA>ACA	p.A505T	RANBP9_uc003nba.2_Missense_Mutation_p.A164T	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	505					axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			GAAAAATGTGCGGTGCTTCCT	0.348													56	97					0	0	1	0	0		T	13639807	T	T	13639807	3	4	155	1	0	0	0	0	1	0	0	0	13057	768	27	1	700	1	RANBP9	6	13639807	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	274599	13639807	157475260	520	84347											
JARID2	3720	broad.mit.edu	37	chr6	15520479	15520479	+	Silent	SNP	A	G	G	1	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	aaaagtgcttcgagctcatcAtgaagatgccaacgcccgtg	12	8	10	11	3	2	2	2	1	0	1	3	3	2	2	2	0	4	2	2	0	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:15520479A>G	uc003nbj.2	+	18	3982	c.3738A>G	c.(3736-3738)TCA>TCG	p.S1246S	JARID2_uc011div.1_Silent_p.S1074S	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1246	Poly-Ser.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				cgagctcatcatgaagatgcC	0.348													4	80					0	0	1	0	0		G	15520479	G	G	15520479	2	3	155	1	0	0	0	0	0	0	0	1	7961	204	8	3		3	JARID2	6	15520479	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1880672	15520479	155594588	521	84348											
NHLRC1	378884	broad.mit.edu	37	chr6	18122487	18122487	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccagccgccgaaggtgtgGtggcaggtgagggctccggg	5	5	19	12	3	0	1	0	1	0	0	1	2	1	1	5	6	1	2	5	6	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:18122487G>A	uc003ncl.1	-	1	365	c.351C>T	c.(349-351)CAC>CAT	p.H117H		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	117	NHL 1.				proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			CGAAGGTGTGGTGGCAGGTGA	0.726													8	9					0	0	1	0	0		A	18122487	A	A	18122487	2	1	155	1	0	0	0	0	0	0	0	1	10424	1252	44	4		4	NHLRC1	6	18122487	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2602008	18122487	152992580	522	84349											
MBOAT1	154141	broad.mit.edu	37	chr6	20126880	20126880	+	Missense_Mutation	SNP	A	C	C	1	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	ttacaaggaccagctatgacActcatgaaattgagaaggta	16	9	9	7	0	1	3	1	3	0	1	1	5	1	4	1	2	2	2	1	2	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:20126880A>C	uc003ncx.1	-	7	787	c.582T>G	c.(580-582)AGT>AGG	p.S194R	MBOAT1_uc011dji.1_Missense_Mutation_p.S45R	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	194	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			CAGCTATGACACTCATGAAAT	0.363											OREG0017224	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	162					0	0	1	0	0		C	20126880	C	C	20126880	3	2	155	1	0	0	0	0	1	0	0	0	9374	156	6	5	933	5	MBOAT1	6	20126880	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2004393	20126880	150988187	523	84350											
GPLD1	2822	broad.mit.edu	37	chr6	24436892	24436892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccattatatacatatactCggccgtcttctcccccaatc	9	13	4	15	2	2	0	0	0	2	0	5	0	2	0	4	1	3	0	4	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:24436892C>T	uc003ned.1	-	22	2381	c.2270G>A	c.(2269-2271)CGA>CAA	p.R757Q		NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	757	FG-GAP 6.					extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						TACATATACTCGGCCGTCTTC	0.443													81	96					0	0	1	0	0		T	24436892	T	T	24436892	3	4	155	1	0	0	0	0	1	0	0	0	6629	884	31	1	268	1	GPLD1	6	24436892	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4310012	24436892	146678175	524	84351											
GPLD1	2822	broad.mit.edu	37	chr6	24437377	24437377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtcactcaagtgcagaaCgccaccaaatcgggagaagc	14	4	11	12	2	2	2	2	0	0	2	3	3	2	2	2	2	3	1	2	2	4	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:24437377C>T	uc003ned.1	-	21	2272	c.2161G>A	c.(2161-2163)GTT>ATT	p.V721I		NM_001503	NP_001494	P80108	PHLD_HUMAN	glycosylphosphatidylinositol specific	721	FG-GAP 6.					extracellular region	glycosylphosphatidylinositol phospholipase D activity			ovary(2)|kidney(1)	3						AAGTGCAGAACGCCACCAAAT	0.577													41	85					0	0	1	0	0		T	24437377	T	T	24437377	3	4	155	1	0	0	0	0	1	0	0	0	6629	536	19	1	381	1	GPLD1	6	24437377	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	485	24437377	146677690	525	84352											
HIST1H2BH	8345	broad.mit.edu	37	chr6	26252081	26252081	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcatgaattcctttgtcaAcgatatcttcgagcgcatcg	10	13	8	10	4	3	1	2	1	1	0	6	4	4	1	1	0	2	1	1	0	3	4	rs76321711		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:26252081A>G	uc003nhh.2	+	1	203	c.203A>G	c.(202-204)AAC>AGC	p.N68S	HIST1H3F_uc003nhg.1_5'Flank	NM_003524	NP_003515	Q93079	H2B1H_HUMAN	histone cluster 1, H2bh	68					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(3)	3						TCCTTTGTCAACGATATCTTC	0.562													6	178					0	0	1	0	0		G	26252081	G	G	26252081	3	3	155	1	0	0	0	0	1	0	0	0	7163	43	2	3	205	3	HIST1H2BH	6	26252081	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1814704	26252081	144862986	526	84353											
BTN1A1	696	broad.mit.edu	37	chr6	26509183	26509183	+	Frame_Shift_Del	DEL	C	-	-																															tccaatgtcactttctctggCcccctccggcccttcttttg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:26509183delC	uc003nif.3	+	7	1382	c.1362delC	c.(1360-1362)GGCfs	p.G454fs		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	454	B30.2/SPRY.|Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						CTTTCTCTGGCCCCCTCCGGC	0.478													49	84	---	---	---	---						.	-	26509183	-	-	26509183	7	5	155	1	0	1	0	1	0	0	0	0	1562	726	26	0	1388	0	BTN1A1	6	26509183	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	257102	26509183	144605884	527	84354											
ABT1	29777	broad.mit.edu	37	chr6	26598635	26598635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtgtggaacggggacaacGctttcttgcggccgatgggg	8	8	17	8	4	1	0	0	0	1	0	1	3	1	2	1	6	3	1	1	6	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:26598635G>A	uc003nii.2	+	3	612	c.581G>A	c.(580-582)CGC>CAC	p.R194H		NM_013375	NP_037507	Q9ULW3	ABT1_HUMAN	activator of basal transcription 1	194					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleolus	DNA binding|nucleotide binding|protein binding|RNA binding|transcription coactivator activity			ovary(1)	1						CGGGGACAACGCTTTCTTGCG	0.612													26	51					0	0	1	0	0		A	26598635	A	A	26598635	3	1	155	1	0	0	0	0	1	0	0	0	101	1087	38	1	591	1	ABT1	6	26598635	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	89452	26598635	144516432	528	84355											
HIST1H4K	8362	broad.mit.edu	37	chr6	27799049	27799049	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcttgagcgcgtagaccacaTccatggcggtgaccgtcttg	7	9	13	12	4	1	3	0	2	1	1	2	3	2	3	3	2	1	2	3	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:27799049T>C	uc003njr.2	-	1	257	c.257A>G	c.(256-258)GAT>GGT	p.D86G		NM_003541	NP_003532	P62805	H4_HUMAN	histone cluster 1, H4k	86					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding				0						GTAGACCACATCCATGGCGGT	0.602													5	79					0	0	1	0	0		C	27799049	C	C	27799049	3	2	155	1	0	0	0	0	1	0	0	0	7191	1435	50	3	58	3	HIST1H4K	6	27799049	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1200414	27799049	143316018	529	84356											
HIST1H1B	3009	broad.mit.edu	37	chr6	27835239	27835241	+	In_Frame_Del	DEL	CTT	-	-																															ccggcagccttcttagttgcCttcttcttagccggggattt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:27835239_27835241delCTT	uc003njx.2	-	1	119_121	c.67_69delAAG	c.(67-69)AAGdel	p.K23del		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	23					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						TCTTAGTTGCCTTCTTCTTAGCC	0.606													40	70	---	---	---	---						.	-	27835241	-	-	27835239	7	5	155	1	0	1	0	1	0	0	0	0	7139	680	24	0	615	0	HIST1H1B	6	27835239	In_Frame_Del	DEL	CTT	TCGA-CG-5726-01A-11D-1600-08	36190	27835239	143279828	530	84357											
OR10C1	442194	broad.mit.edu	37	chr6	29408484	29408484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttccggatcccatctgttgCgggccgccgcaaggccttct	4	10	11	16	4	2	0	0	0	2	0	4	1	4	1	5	3	1	2	5	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:29408484C>T	uc011dlp.1	+	1	692	c.692C>T	c.(691-693)GCG>GTG	p.A231V	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	231	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCATCTGTTGCGGGCCGCCGC	0.582													123	207					0	0	1	0	0		T	29408484	T	T	29408484	3	4	155	1	0	0	0	0	1	0	0	0	10917	768	27	1	694	1	OR10C1	6	29408484	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1573245	29408484	141706583	531	84358											
PPP1R10	5514	broad.mit.edu	37	chr6	30571998	30571998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtatctctcgcttagccGcctcaccaaagtccttgatc	9	11	6	15	2	2	1	1	1	1	0	6	1	3	1	4	0	1	2	4	0	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:30571998G>A	uc003nqn.1	-	14	1847	c.1295C>T	c.(1294-1296)GCG>GTG	p.A432V	PPP1R10_uc010jsc.1_Missense_Mutation_p.A86V	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	432	Essential for PPP1CA inhibition (By similarity).|Interaction with WDR82 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TCGCTTAGCCGCCTCACCAAA	0.507													69	95					0	0	1	0	0		A	30571998	A	A	30571998	3	1	155	1	0	0	0	0	1	0	0	0	12374	1087	38	1	1555	1	PPP1R10	6	30571998	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1163514	30571998	140543069	532	84359											
FLOT1	10211	broad.mit.edu	37	chr6	30698338	30698338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaaggcctcagcttccccaCgcatctgagggttaaggatg	10	8	11	12	1	2	1	1	1	1	0	3	2	3	2	3	3	1	3	3	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:30698338C>T	uc003nrm.2	-	11	1120	c.956G>A	c.(955-957)CGT>CAT	p.R319H	FLOT1_uc011dmr.1_Missense_Mutation_p.R271H	NM_005803	NP_005794	O75955	FLOT1_HUMAN	flotillin 1	319						centriolar satellite|endosome|integral to membrane|melanosome|membrane fraction					0						AGCTTCCCCACGCATCTGAGG	0.562													8	195					0	0	1	0	0		T	30698338	T	T	30698338	3	4	155	1	0	0	0	0	1	0	0	0	5950	536	19	1	339	1	FLOT1	6	30698338	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	126340	30698338	140416729	533	84360											
MUC21	394263	broad.mit.edu	37	chr6	30954121	30954121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagtgtgacctccagtgggGtcagcacagccaccatctca	9	7	10	15	0	2	1	2	1	1	0	4	1	3	1	5	2	2	1	5	2	0	0	rs137862032		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:30954121G>A	uc003nsh.2	+	2	420	c.169G>A	c.(169-171)GTC>ATC	p.V57I	MUC21_uc003nsi.1_RNA	NM_001010909	NP_001010909	Q5SSG8	MUC21_HUMAN	mucin 21 precursor	57	Ser-rich.|2.|28 X 15 AA approximate tandem repeats.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CTCCAGTGGGGTCAGCACAGC	0.567													10	171					0	0	1	0	0		A	30954121	A	A	30954121	3	1	155	1	0	0	0	0	1	0	0	0	9995	1261	44	4	175	4	MUC21	6	30954121	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	255783	30954121	140160946	534	84361											
HLA-B	3106	broad.mit.edu	37	chr6	31323280	31323280	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccgctgccaggtcagtgtgaTctccgcagggtagaaaccca	9	7	12	13	2	2	2	1	1	1	1	3	2	2	2	4	2	2	3	4	2	2	1	rs74353323		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31323280T>A	uc003nth.2	-	4	763	c.709A>T	c.(709-711)ATC>TTC	p.I237F	HLA-C_uc003ntb.2_RNA|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_RNA|HLA-B_uc011dnk.1_RNA|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Missense_Mutation_p.I116F|HLA-B_uc003nti.1_RNA|HLA-B_uc010jsn.1_RNA	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	237	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						GTCAGTGTGATCTCCGCAGGG	0.602									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				21	172					0	0	1	0	0		A	31323280	A	A	31323280	3	1	155	1	0	0	0	0	1	0	0	0	7212	1435	50	5	395	5	HLA-B	6	31323280	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	369159	31323280	139791787	535	84362											
MICA	4276	broad.mit.edu	37	chr6	31379126	31379128	+	In_Frame_Del	DEL	GAG	-	-																															ctagaatccggcgtagtcctGaggagaacaggtaccgacgc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31379126_31379128delGAG	uc003ntk.1	+	3	642_644	c.603_605delGAG	c.(601-606)CTGAGG>CTG	p.R203del	MICA_uc003rxz.1_In_Frame_Del_p.R65del					RecName: Full=MHC class I polypeptide-related sequence A;          Short=MIC-A; Flags: Precursor;												0		Ovarian(999;0.0253)				GCGTAGTCCTGAGGAGAACAGGT	0.552													4	7	---	---	---	---						.	-	31379128	-	-	31379126	7	5	155	1	0	1	0	1	0	0	0	0	9586	1277	45	0	613	0	MICA	6	31379126	In_Frame_Del	DEL	GAG	TCGA-CG-5726-01A-11D-1600-08	55846	31379126	139735941	536	84363											
BAT3	7917	broad.mit.edu	37	chr6	31610030	31610031	+	Frame_Shift_Ins	INS	-	A	A																															acaccctgcaccactgaggtINSaaaaaactccggtgacaggc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31610030_31610031insA	uc003nvg.3	-	15	2417_2418	c.2103_2104insT	c.(2101-2106)TTTACCfs	p.F701fs	BAT3_uc003nvf.3_Frame_Shift_Ins_p.F695fs|BAT3_uc003nvh.3_Frame_Shift_Ins_p.F695fs|BAT3_uc003nvi.3_Frame_Shift_Ins_p.F695fs|BAT3_uc011dnw.1_Frame_Shift_Ins_p.F695fs|BAT3_uc011dnx.1_Frame_Shift_Ins_p.F569fs	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	701_702					apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						ACCACTGAGGTAAAAAACTCCG	0.634													13	26	---	---	---	---						.	A	31610031	A	A	31610030	7	5	155	1	0	1	1	0	0	0	0	0	1323	1638	57	0	1338	0	BAT3	6	31610030	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	230904	31610030	139505037	537	84364											
C6orf25	80739	broad.mit.edu	37	chr6	31691442	31691442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacggccgccctggggacCgggtgaatctctcctgcgga	5	7	16	13	4	1	1	0	1	1	0	3	4	2	4	4	6	1	0	4	6	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31691442C>T	uc011doc.1	+	2	88	c.88C>T	c.(88-90)CGG>TGG	p.R30W	LY6G6C_uc003nwh.2_5'Flank|LY6G6C_uc010jtd.2_5'Flank|C6orf25_uc003nwk.2_Missense_Mutation_p.R30W|C6orf25_uc011dod.1_Missense_Mutation_p.R30W|C6orf25_uc011doe.1_Missense_Mutation_p.R30W|C6orf25_uc003nwo.2_Missense_Mutation_p.R30W|C6orf25_uc003nwn.2_Missense_Mutation_p.R30W	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	30	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						CCCTGGGGACCGGGTGAATCT	0.652													16	36					0	0	1	0	0		T	31691442	T	T	31691442	3	4	155	1	0	0	0	0	1	0	0	0	2363	643	23	1	94	1	C6orf25	6	31691442	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	81412	31691442	139423625	538	84365											
VARS	7407	broad.mit.edu	37	chr6	31749307	31749307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggcccagcatgaccatcCgggccacccagaagaagagg	12	3	12	14	1	1	4	1	1	0	3	2	4	2	4	5	3	1	1	5	3	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31749307C>T	uc003nxe.2	-	21	2918	c.2495G>A	c.(2494-2496)CGG>CAG	p.R832Q	VARS_uc003nxf.1_5'Flank	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	832					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CATGACCATCCGGGCCACCCA	0.627													27	30					0	0	1	0	0		T	31749307	T	T	31749307	3	4	155	1	0	0	0	0	1	0	0	0	17149	652	23	1	1339	1	VARS	6	31749307	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	57865	31749307	139365760	539	84366											
HSPA1L	3305	broad.mit.edu	37	chr6	31779305	31779305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agagtcattgaaataggctgGcacggtaatcactgcattgg	12	10	12	7	1	2	2	2	1	0	1	2	2	2	2	0	4	1	4	0	4	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31779305G>A	uc003nxh.2	-	2	628	c.445C>T	c.(445-447)CCA>TCA	p.P149S	HSPA1L_uc010jte.2_Missense_Mutation_p.P149S	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	149					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						AAATAGGCTGGCACGGTAATC	0.483													10	69					0	0	1	0	0		A	31779305	A	A	31779305	3	1	155	1	0	0	0	0	1	0	0	0	7426	1203	42	2	1484	2	HSPA1L	6	31779305	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	29998	31779305	139335762	540	84367											
HSPA1A	3303	broad.mit.edu	37	chr6	31783569	31783569	+	Silent	SNP	C	T	T	0	0	0	1	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	gcgatcggcatcgacctgggCaccacctactcctgcgtggg	6	7	13	15	4	0	0	0	0	0	0	3	2	1	0	4	3	2	2	4	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31783569C>T	uc003nxj.2	+	1	279	c.36C>T	c.(34-36)GGC>GGT	p.G12G	HSPA1L_uc003nxh.2_5'Flank|HSPA1L_uc010jte.2_5'Flank|HSPA1A_uc011doj.1_Silent_p.G12G|HSPA1A_uc003nxi.1_Silent_p.G12G|uc011dok.1_RNA	NM_005345	NP_005336	P08107	HSP71_HUMAN	heat shock 70kDa protein 1A	12					anti-apoptosis|mRNA catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|protein refolding|response to unfolded protein	cytosol|endoplasmic reticulum|inclusion body|mitochondrion|nuclear speck|perinuclear region of cytoplasm|ribonucleoprotein complex	ATP binding|protein binding involved in protein folding|protein N-terminus binding|receptor activity|ubiquitin protein ligase binding|unfolded protein binding			ovary(1)	1						TCGACCTGGGCACCACCTACT	0.647													23	45					0	0	1	0	0		T	31783569	T	T	31783569	2	4	155	1	0	0	0	0	0	0	0	1	7424	697	25	2		2	HSPA1A	6	31783569	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4264	31783569	139331498	541	84368											
ZBTB12	221527	broad.mit.edu	37	chr6	31868445	31868445	+	Missense_Mutation	SNP	A	G	G	1	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	ccacctccagggccgactccAccttgacgatgcagatgtca	9	7	9	16	2	1	2	1	1	0	1	3	4	3	2	6	1	1	1	6	1	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:31868445A>G	uc003nyd.1	-	2	814	c.638T>C	c.(637-639)GTG>GCG	p.V213A	EHMT2_uc003nxz.1_5'Flank|EHMT2_uc003nya.1_5'Flank|EHMT2_uc003nyb.1_5'Flank|C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|C2_uc011dop.1_5'Flank	NM_181842	NP_862825	Q9Y330	ZBT12_HUMAN	zinc finger and BTB domain containing 12	213					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCCGACTCCACCTTGACGAT	0.617													46	68					0	0	1	0	0		G	31868445	G	G	31868445	3	3	155	1	0	0	0	0	1	0	0	0	17550	159	6	3	745	3	ZBTB12	6	31868445	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	84876	31868445	139246622	542	84369											
NOTCH4	4855	broad.mit.edu	37	chr6	32166717	32166717	+	Silent	SNP	G	A	A	0	0	1	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	tctcacttgagaccaatgctGtcctcgcctagtgggggccg	6	10	12	13	2	1	1	1	1	1	1	4	2	2	1	4	2	1	1	4	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:32166717G>A	uc003obb.2	-	24	4660	c.4521C>T	c.(4519-4521)GAC>GAT	p.D1507D	NOTCH4_uc011dpt.1_5'Flank|NOTCH4_uc003oba.2_Silent_p.D170D|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_5'Flank	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1507	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						GACCAATGCTGTCCTCGCCTA	0.557													14	234					0	0	1	0	0		A	32166717	A	A	32166717	2	1	155	1	0	0	0	0	0	0	0	1	10570	1368	48	4		4	NOTCH4	6	32166717	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	298272	32166717	138948350	543	84370											
IP6K3	117283	broad.mit.edu	37	chr6	33694543	33694543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgggtactcggagcacaggCgggtcaggtgggcctggtgg	5	7	20	9	2	1	0	1	0	0	0	2	1	1	1	1	8	2	2	1	8	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:33694543C>T	uc010jvf.2	-	5	1090	c.554G>A	c.(553-555)CGC>CAC	p.R185H	IP6K3_uc003ofb.2_Missense_Mutation_p.R185H	NM_001142883	NP_001136355	Q96PC2	IP6K3_HUMAN	inositol hexakisphosphate kinase 3	185					inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0						GGAGCACAGGCGGGTCAGGTG	0.617													5	62					0	0	1	0	0		T	33694543	T	T	33694543	3	4	155	1	0	0	0	0	1	0	0	0	7806	768	27	1	690	1	IP6K3	6	33694543	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1527826	33694543	137420524	544	84371											
TREM2	54209	broad.mit.edu	37	chr6	41129134	41129134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgccacccagggtatcGtctgtgatggctgtgctccc	6	10	13	12	1	1	2	0	1	1	1	3	2	2	2	3	2	2	3	3	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:41129134G>A	uc003opy.2	-	2	360	c.258C>T	c.(256-258)GAC>GAT	p.D86D	TREM2_uc003opz.2_Silent_p.D116D|TREM2_uc010jxl.1_Silent_p.D116D	NM_018965	NP_061838	Q9NZC2	TREM2_HUMAN	triggering receptor expressed on myeloid cells 2	86	Ig-like V-type.|Extracellular (Potential).				axon guidance|humoral immune response	extracellular region|integral to membrane|plasma membrane	receptor activity			ovary(1)	1	Ovarian(28;0.0418)|Colorectal(47;0.196)					CCAGGGTATCGTCTGTGATGG	0.592													5	101					0	0	1	0	0		A	41129134	A	A	41129134	2	1	155	1	0	0	0	0	0	0	0	1	16497	1136	40	1		1	TREM2	6	41129134	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7434591	41129134	129985933	545	84372											
TFEB	7942	broad.mit.edu	37	chr6	41657522	41657522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaaggacatcgtccagacGcataatgttgtcaatgacat	13	9	9	10	2	1	2	1	1	0	1	3	3	2	3	2	1	0	2	2	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:41657522G>A	uc003oqs.1	-	5	798	c.496C>T	c.(496-498)CGT>TGT	p.R166C	TFEB_uc003oqt.1_Missense_Mutation_p.R166C|TFEB_uc003oqu.1_Missense_Mutation_p.R180C|TFEB_uc003oqv.1_Missense_Mutation_p.R166C|TFEB_uc010jxo.1_Missense_Mutation_p.R166C|TFEB_uc003oqr.1_Missense_Mutation_p.R81C	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	166					embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			TCGTCCAGACGCATAATGTTG	0.547			T	ALPHA	renal (childhood epithelioid)								28	52					0	0	1	0	0		A	41657522	A	A	41657522	3	1	155	1	0	0	0	0	1	0	0	0	15826	1087	38	1	958	1	TFEB	6	41657522	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	528388	41657522	129457545	546	84373											
MRPL14	64928	broad.mit.edu	37	chr6	44081904	44081904	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactgttgtccaccactcgTacccgcgtcatcttctgaat	7	12	7	15	3	3	1	1	1	2	0	5	1	4	1	3	0	1	3	3	0	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:44081904T>C	uc003owp.2	-	3	243	c.114A>G	c.(112-114)GTA>GTG	p.V38V		NM_032111	NP_115487	Q6P1L8	RM14_HUMAN	mitochondrial ribosomal protein L14 precursor	38					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0181)			CCACCACTCGTACCCGCGTCA	0.547													13	382					0	0	1	0	0		C	44081904	C	C	44081904	2	2	155	1	0	0	0	0	0	0	0	1	9797	1625	57	3		3	MRPL14	6	44081904	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2424382	44081904	127033163	547	84374											
CAPN11	11131	broad.mit.edu	37	chr6	44144338	44144338	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgccagggagtgggaagaggTggcctcagacatccagatgc	10	6	16	9	0	1	3	1	0	0	3	2	5	2	5	3	4	2	0	3	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:44144338T>C	uc003owt.1	+	10	1060	c.1022T>C	c.(1021-1023)GTG>GCG	p.V341A	CAPN11_uc011dvn.1_5'UTR	NM_007058	NP_008989	Q9UMQ6	CAN11_HUMAN	calpain 11	341	Calpain catalytic.				proteolysis	acrosomal vesicle	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)|breast(1)	2	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TGGGAAGAGGTGGCCTCAGAC	0.632													25	46					0	0	1	0	0		C	44144338	C	C	44144338	3	2	155	1	0	0	0	0	1	0	0	0	2627	1696	59	3	1060	3	CAPN11	6	44144338	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	62434	44144338	126970729	548	84375											
CAPN11	11131	broad.mit.edu	37	chr6	44145055	44145057	+	In_Frame_Del	DEL	TGT	-	-																															gaggatgacgcagagggcaaTgttgtggtctgcacctgcct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:44145055_44145057delTGT	uc003owt.1	+	12	1352_1354	c.1314_1316delTGT	c.(1312-1317)AATGTT>AAT	p.V441del	CAPN11_uc011dvn.1_In_Frame_Del_p.V95del	NM_007058	NP_008989	Q9UMQ6	CAN11_HUMAN	calpain 11	441	Domain III.				proteolysis	acrosomal vesicle	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)|breast(1)	2	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			CAGAGGGCAATGTTGTGGTCTGC	0.601													21	36	---	---	---	---						.	-	44145057	-	-	44145055	7	5	155	1	0	1	0	1	0	0	0	0	2627	1461	51	0	1360	0	CAPN11	6	44145055	In_Frame_Del	DEL	TGT	TCGA-CG-5726-01A-11D-1600-08	717	44145055	126970012	549	84376											
TCTE1	202500	broad.mit.edu	37	chr6	44249924	44249924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacctgtgacaggagtgtggCggtgggctcagacagctcat	8	8	15	10	1	2	2	2	1	0	1	2	3	2	3	1	4	1	2	1	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:44249924C>T	uc003oxi.2	-	4	1375	c.1219G>A	c.(1219-1221)GCC>ACC	p.A407T	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	407	LRR 4.									ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			AGGAGTGTGGCGGTGGGCTCA	0.602													30	38					0	0	1	0	0		T	44249924	T	T	44249924	3	4	155	1	0	0	0	0	1	0	0	0	15742	768	27	1	294	1	TCTE1	6	44249924	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	104869	44249924	126865143	550	84377											
ENPP5	59084	broad.mit.edu	37	chr6	46135796	46135796	+	Frame_Shift_Del	DEL	A	-	-																															ttagggtaggtttttgtaatAaaaacattagtaacttgctt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:46135796delA	uc003oxz.1	-	2	412	c.204delT	c.(202-204)TTTfs	p.F68fs	ENPP5_uc003oya.1_Frame_Shift_Del_p.F68fs|ENPP5_uc011dvz.1_Intron|ENPP5_uc010jzc.1_Frame_Shift_Del_p.F68fs	NM_021572	NP_067547	Q9UJA9	ENPP5_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	68						extracellular region|integral to membrane	hydrolase activity				0						TTTTTGTAATAAAAACATTAG	0.348													58	67	---	---	---	---						.	-	46135796	-	-	46135796	7	5	155	1	0	1	0	1	0	0	0	0	5141	359	13	0	1241	0	ENPP5	6	46135796	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1885872	46135796	124979271	551	84378											
TDRD6	221400	broad.mit.edu	37	chr6	46660256	46660256	+	Missense_Mutation	SNP	A	C	C	1	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	atgggaagttattcttgctgAtgaacatgggatcatagcag	12	12	12	5	0	2	2	1	2	1	0	2	4	2	4	0	2	3	3	0	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:46660256A>C	uc003oyj.2	+	1	4391	c.4391A>C	c.(4390-4392)GAT>GCT	p.D1464A	TDRD6_uc010jze.2_Missense_Mutation_p.D1458A	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1464					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			ATTCTTGCTGATGAACATGGG	0.373													102	169					0	0	1	0	0		C	46660256	C	C	46660256	3	2	155	1	0	0	0	0	1	0	0	0	15759	333	12	5	4393	5	TDRD6	6	46660256	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	524460	46660256	124454811	552	84379											
GPR110	266977	broad.mit.edu	37	chr6	46968003	46968003	+	Missense_Mutation	SNP	A	G	G	1	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	tagcatgatgttgtcggaggAatctccagtatgagaaaatg	13	11	12	5	1	1	2	0	2	1	1	3	5	1	4	1	2	1	3	1	2	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:46968003A>G	uc003oyt.2	-	15	2888	c.2689T>C	c.(2689-2691)TCC>CCC	p.S897P	GPR110_uc011dwl.1_Missense_Mutation_p.S585P	NM_153840	NP_722582	Q5T601	GP110_HUMAN	G-protein coupled receptor 110 isoform 1	897	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|pancreas(1)	3						TTGTCGGAGGAATCTCCAGTA	0.333													63	116					0	0	1	0	0		G	46968003	G	G	46968003	3	3	155	1	0	0	0	0	1	0	0	0	6642	246	9	3	47	3	GPR110	6	46968003	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	307747	46968003	124147064	553	84380											
PGK2	5232	broad.mit.edu	37	chr6	49753713	49753713	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagctctagactggcaccGcctccagtgctgacatggct	9	8	11	13	1	1	3	0	1	1	2	2	3	2	3	3	2	2	4	3	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:49753713G>A	uc003ozu.2	-	1	1295	c.1188C>T	c.(1186-1188)GGC>GGT	p.G396G		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	396				G -> R (in Ref. 1; CAA28872).	glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					GACTGGCACCGCCTCCAGTGC	0.483													35	152					0	0	1	0	0		A	49753713	A	A	49753713	2	1	155	1	0	0	0	0	0	0	0	1	11810	1074	38	1		1	PGK2	6	49753713	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2785710	49753713	121361354	554	84381											
C6orf142	90523	broad.mit.edu	37	chr6	53989529	53989529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattggcaccgcagctgtcCggcccaagtctctagctatc	7	9	11	14	2	1	0	0	0	1	0	4	1	2	1	3	3	2	4	3	3	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:53989529C>T	uc003pcg.3	+	3	591	c.478C>T	c.(478-480)CGG>TGG	p.R160W	C6orf142_uc003pcf.2_Missense_Mutation_p.R160W|C6orf142_uc003pch.3_Missense_Mutation_p.R98W|C6orf142_uc011dwz.1_Missense_Mutation_p.R119W|C6orf142_uc011dxa.1_Missense_Mutation_p.R171W	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	160						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					CGCAGCTGTCCGGCCCAAGTC	0.532													63	115					0	0	1	0	0		T	53989529	T	T	53989529	3	4	155	1	0	0	0	0	1	0	0	0	2336	643	23	1	488	1	C6orf142	6	53989529	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4235816	53989529	117125538	555	84382											
HMGCLL1	54511	broad.mit.edu	37	chr6	55378884	55378884	+	Silent	SNP	A	G	G	1	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	atgtgtcttgcagacttaacAacctcctcaaattttcccat	11	14	4	12	0	2	1	1	0	1	1	4	1	4	1	3	0	3	1	3	0	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:55378884A>G	uc003pcn.2	-	6	753	c.594T>C	c.(592-594)GTT>GTC	p.V198V	HMGCLL1_uc003pco.2_Silent_p.V168V|HMGCLL1_uc010jzx.2_Silent_p.V69V|HMGCLL1_uc011dxc.1_Silent_p.V136V|HMGCLL1_uc011dxd.1_Intron|HMGCLL1_uc011dxe.1_Intron|HMGCLL1_uc003pcp.2_Silent_p.V136V	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	198							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			CAGACTTAACAACCTCCTCAA	0.348													5	155					0	0	1	0	0		G	55378884	G	G	55378884	2	3	155	1	0	0	0	0	0	0	0	1	7246	117	5	3		3	HMGCLL1	6	55378884	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1389355	55378884	115736183	556	84383											
ZNF451	26036	broad.mit.edu	37	chr6	57013493	57013493	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaagctatcagaatataggTatggctttatagctctatgc	12	14	8	7	0	2	1	1	0	1	1	2	1	2	1	0	2	3	4	0	2	9	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:57013493T>C	uc003pdm.1	+	10	2832	c.2608_splice	c.e10+2	p.E870_splice	ZNF451_uc003pdl.2_Splice_Site_p.E870_splice|ZNF451_uc003pdn.1_Splice_Site_p.G870_splice|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Splice_Site_p.E870_splice	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			AGAATATAGGTATGGCTTTAT	0.348													17	68					0	0	1	0	0		C	57013493	C	C	57013493	5	2	155	1	0	0	0	0	0	0	1	0	17947	1652	57	3	2648	3	ZNF451	6	57013493	Splice_Site	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1634609	57013493	114101574	557	84384											
FAM135A	57579	broad.mit.edu	37	chr6	71235557	71235558	+	Frame_Shift_Ins	INS	-	T	T																															taaagaccctttacaatttgINSttttttcagatgaagagact																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:71235557_71235558insT	uc003pfj.2	+	13	2903_2904	c.2770_2771insT	c.(2770-2772)GTTfs	p.V924fs	FAM135A_uc003pfi.2_Frame_Shift_Ins_p.V728fs|FAM135A_uc003pfh.2_Frame_Shift_Ins_p.V711fs|FAM135A_uc003pfl.2_Frame_Shift_Ins_p.V591fs|FAM135A_uc003pfn.2_Intron|FAM135A_uc003pfo.1_Frame_Shift_Ins_p.V295fs|FAM135A_uc010kan.1_5'Flank	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	924										central_nervous_system(1)	1						TTTACAATTTGTTTTTTCAGAT	0.371													59	112	---	---	---	---						.	T	71235558	T	T	71235557	7	5	155	1	0	1	1	0	0	0	0	0	5459	1377	48	0	2898	0	FAM135A	6	71235557	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	14222064	71235557	99879510	558	84385											
CD109	135228	broad.mit.edu	37	chr6	74472143	74472143	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtgaaaggagacgtaacGcttacatttttacctttatc	12	13	7	9	2	0	2	0	1	0	1	1	3	0	2	2	1	3	2	2	1	5	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:74472143G>A	uc003php.2	+	8	1220	c.795G>A	c.(793-795)ACG>ACA	p.T265T	CD109_uc010kaz.2_Silent_p.T265T|CD109_uc003phq.2_Silent_p.T265T|CD109_uc010kba.2_Silent_p.T188T	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	265						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GAGACGTAACGCTTACATTTT	0.294													20	101					0	0	1	0	0		A	74472143	A	A	74472143	2	1	155	1	0	0	0	0	0	0	0	1	2966	1074	38	1		1	CD109	6	74472143	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3236586	74472143	96642924	559	84386											
IMPG1	3617	broad.mit.edu	37	chr6	76751759	76751760	+	Frame_Shift_Ins	INS	-	T	T																															catagttgacattttgtacaINSttttttcagtactttcagtt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:76751759_76751760insT	uc003pik.1	-	2	281_282	c.151_152insA	c.(151-153)ATGfs	p.M51fs		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	51					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				CATTTTGTACATTTTTTCAGTA	0.356													110	250	---	---	---	---						.	T	76751760	T	T	76751759	7	5	155	1	0	1	1	0	0	0	0	0	7744	217	8	0	2305	0	IMPG1	6	76751759	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	2279616	76751759	94363308	560	84387											
PM20D2	135293	broad.mit.edu	37	chr6	89871856	89871856	+	Silent	SNP	G	A	A	0	0	1	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	gaagctcagttctacactctGcggacggccaaagctctggc	9	8	11	13	2	4	0	1	0	3	0	4	2	4	1	1	3	4	3	1	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:89871856G>A	uc003pmz.2	+	7	1280	c.1185G>A	c.(1183-1185)CTG>CTA	p.L395L		NM_001010853	NP_001010853	Q8IYS1	P20D2_HUMAN	aminoacylase 1-like 2	395							hydrolase activity				0		all_cancers(76;9.47e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00813)		TCTACACTCTGCGGACGGCCA	0.408													65	134					0	0	1	0	0		A	89871856	A	A	89871856	2	1	155	1	0	0	0	0	0	0	0	1	12148	1306	46	2		2	PM20D2	6	89871856	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	13120097	89871856	81243211	561	84388											
MDN1	23195	broad.mit.edu	37	chr6	90354841	90354841	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcaaggaaaaggcctcGcccatcagagactaccagga	13	4	10	14	1	2	1	2	0	0	1	3	4	2	3	4	3	1	0	4	3	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:90354841G>A	uc003pnn.1	-	101	16611	c.16495C>T	c.(16495-16497)CGA>TGA	p.R5499*		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5499	VWFA.				protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		AAAAGGCCTCGCCCATCAGAG	0.443													54	59					0	0	1	0	0		A	90354841	A	A	90354841	4	1	155	1	0	0	0	0	0	1	0	0	9433	1095	38	1	303	1	MDN1	6	90354841	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	482985	90354841	80760226	562	84389											
CASP8AP2	9994	broad.mit.edu	37	chr6	90577656	90577656	+	Silent	SNP	A	G	G	1	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	gtgaaaatacgacgtgcaacAccatctacctcttctggcct	11	10	7	13	2	3	1	0	1	3	0	3	2	3	1	3	1	4	1	3	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:90577656A>G	uc003pnr.2	+	8	4843	c.4647A>G	c.(4645-4647)ACA>ACG	p.T1549T	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Silent_p.T1549T|CASP8AP2_uc011dzz.1_Silent_p.T1549T	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1549					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		GACGTGCAACACCATCTACCT	0.433													7	259					0	0	1	0	0		G	90577656	G	G	90577656	2	3	155	1	0	0	0	0	0	0	0	1	2681	146	6	3		3	CASP8AP2	6	90577656	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	222815	90577656	80537411	563	84390											
C6orf167	253714	broad.mit.edu	37	chr6	97711302	97711302	+	Missense_Mutation	SNP	A	G	G	1	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	aacatggacactggtcactcAttaatgattcagaagaccta	15	10	7	9	0	3	3	3	1	0	2	3	4	3	4	1	2	1	0	1	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:97711302A>G	uc003ppb.2	-	9	1117	c.851T>C	c.(850-852)ATG>ACG	p.M284T	C6orf167_uc011eaf.1_Missense_Mutation_p.M284T|C6orf167_uc010kcn.1_Missense_Mutation_p.M58T|C6orf167_uc010kco.1_Intron|C6orf167_uc003ppc.2_Missense_Mutation_p.M284T	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	284					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		CTGGTCACTCATTAATGATTC	0.318													24	225					0	0	1	0	0		G	97711302	G	G	97711302	3	3	155	1	0	0	0	0	1	0	0	0	2345	217	8	3	2948	3	C6orf167	6	97711302	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	7133646	97711302	73403765	564	84391											
POU3F2	5454	broad.mit.edu	37	chr6	99282812	99282812	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcctccatcgtgcacgcCgagccgcccggcggcatgca	6	4	13	18	7	0	0	0	0	0	0	2	1	1	0	5	2	4	3	5	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:99282812C>T	uc003ppe.2	+	1	233	c.63C>T	c.(61-63)GCC>GCT	p.A21A		NM_005604	NP_005595	P20265	PO3F2_HUMAN	POU domain, class 3, transcription factor 2	21					positive regulation of cell proliferation		identical protein binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(76;1.56e-06)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00893)|Colorectal(196;0.069)|Lung NSC(302;0.197)		BRCA - Breast invasive adenocarcinoma(108;0.0355)		TCGTGCACGCCGAGCCGCCCG	0.697													8	11					0	0	1	0	0		T	99282812	T	T	99282812	2	4	155	1	0	0	0	0	0	0	0	1	12294	639	23	1		1	POU3F2	6	99282812	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1571510	99282812	71832255	565	84392											
PDSS2	57107	broad.mit.edu	37	chr6	107780431	107780431	+	Frame_Shift_Del	DEL	G	-	-																															gggaccaccacaggcgacgcGgggaacccgaggctccaaga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:107780431delG	uc003prt.2	-	1	349	c.59delC	c.(58-60)CCGfs	p.P20fs	PDSS2_uc011eak.1_Intron|PDSS2_uc011eal.1_Frame_Shift_Del_p.P20fs|PDSS2_uc003pru.2_Frame_Shift_Del_p.P20fs|PDSS2_uc003prv.2_Frame_Shift_Del_p.P20fs	NM_020381	NP_065114	Q86YH6	DLP1_HUMAN	prenyl diphosphate synthase, subunit 2	20					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	protein heterodimerization activity			ovary(2)	2	Breast(9;0.0127)	all_cancers(87;3.63e-05)|Acute lymphoblastic leukemia(125;2.86e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.0108)|Colorectal(196;0.156)|Lung NSC(302;0.211)	BRCA - Breast invasive adenocarcinoma(8;0.0101)|all cancers(7;0.243)	BRCA - Breast invasive adenocarcinoma(108;0.112)|OV - Ovarian serous cystadenocarcinoma(136;0.173)|all cancers(137;0.191)		CAGGCGACGCGGGGAACCCGA	0.617											OREG0017595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	70	---	---	---	---						.	-	107780431	-	-	107780431	7	5	155	1	0	1	0	1	0	0	0	0	11713	1116	39	0	1172	0	PDSS2	6	107780431	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	8497619	107780431	63334636	566	84393											
FOXO3	2309	broad.mit.edu	37	chr6	108985249	108985249	+	Frame_Shift_Del	DEL	G	-	-																															catcccagccatcgcccactGggggactcatgcagcggagc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:108985249delG	uc003psk.2	+	3	1529	c.1213delG	c.(1213-1215)GGGfs	p.G405fs	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Frame_Shift_Del_p.G405fs|FOXO3_uc011ean.1_Frame_Shift_Del_p.G185fs|FOXO3_uc010kdj.1_Frame_Shift_Del_p.G185fs	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	405					antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		ATCGCCCACTGGGGGACTCAT	0.587													48	100	---	---	---	---						.	-	108985249	-	-	108985249	7	5	155	1	0	1	0	1	0	0	0	0	6038	1348	47	0	1219	0	FOXO3	6	108985249	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	1204818	108985249	62129818	567	84394											
REV3L	5980	broad.mit.edu	37	chr6	111695978	111695978	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtttatttgtctgatttcGtttgttccttttcttagtaa	6	24	6	5	1	2	1	0	1	2	0	4	1	3	1	1	0	0	4	1	0	4	11			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:111695978G>A	uc003puy.3	-	13	3903	c.3580C>T	c.(3580-3582)CGA>TGA	p.R1194*	REV3L_uc003pux.3_Nonsense_Mutation_p.R1116*|REV3L_uc003puz.3_Nonsense_Mutation_p.R1116*	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1194					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		GTCTGATTTCGTTTGTTCCTT	0.333								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					81	186					0	0	1	0	0		A	111695978	A	A	111695978	4	1	155	1	0	0	0	0	0	1	0	0	13265	1153	40	1	5892	1	REV3L	6	111695978	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2710729	111695978	59419089	568	84395											
GOPC	57120	broad.mit.edu	37	chr6	117894769	117894769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcaggtcccttcatatctCgtcctagcaattgtatctgt	8	14	8	11	1	3	0	1	0	2	0	6	1	5	0	2	1	2	3	2	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:117894769C>T	uc003pxu.2	-	5	907	c.677G>A	c.(676-678)CGA>CAA	p.R226Q	GOPC_uc003pxq.1_5'UTR|GOPC_uc003pxv.2_Missense_Mutation_p.R218Q	NM_020399	NP_065132	Q9HD26	GOPC_HUMAN	golgi associated PDZ and coiled-coil motif	226					apical protein localization|cytoplasmic sequestering of CFTR protein|ER to Golgi vesicle-mediated transport|Golgi to plasma membrane transport|protein homooligomerization|protein transport	cell junction|dendrite|Golgi membrane|postsynaptic density|postsynaptic membrane|trans-Golgi network transport vesicle	cystic fibrosis transmembrane conductance regulator binding			ovary(1)	1		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		CTTCATATCTCGTCCTAGCAA	0.393			O	ROS1	glioblastoma								104	151					0	0	1	0	0		T	117894769	T	T	117894769	3	4	155	1	0	0	0	0	1	0	0	0	6588	884	31	1	731	1	GOPC	6	117894769	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6198791	117894769	53220298	569	84396											
CLVS2	134829	broad.mit.edu	37	chr6	123376954	123376954	+	Frame_Shift_Del	DEL	T	-	-																															tcttcttgcatttatagataTttttgcatggtaacaacctg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:123376954delT	uc003pzi.1	+	5	1548	c.679delT	c.(679-681)TTTfs	p.F227fs		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	227	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						TTTATAGATATTTTTGCATGG	0.438													80	107	---	---	---	---						.	-	123376954	-	-	123376954	7	5	155	1	0	1	0	1	0	0	0	0	3575	1493	52	0	693	0	CLVS2	6	123376954	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	5482185	123376954	47738113	570	84397											
HDDC2	51020	broad.mit.edu	37	chr6	125619868	125619868	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaacactgacctcttctcGcctatgtttttcttctttgg	5	18	6	12	1	5	1	1	1	4	0	6	1	5	1	2	1	1	1	2	1	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:125619868G>A	uc003qaa.1	-	3	505	c.301C>T	c.(301-303)CGA>TGA	p.R101*	HDDC2_uc003qab.1_Intron	NM_016063	NP_057147	Q7Z4H3	HDDC2_HUMAN	HD domain containing 2	101	HD.						metal ion binding|phosphoric diester hydrolase activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0186)		ACCTCTTCTCGCCTATGTTTT	0.274													8	139					0	0	1	0	0		A	125619868	A	A	125619868	4	1	155	1	0	0	0	0	0	1	0	0	7032	1095	38	1	329	1	HDDC2	6	125619868	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2242914	125619868	45495199	571	84398											
LAMA2	3908	broad.mit.edu	37	chr6	129766950	129766950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaattgataaaccaagctcGgaaacaagccaattctgtaa	17	8	8	8	1	1	1	0	1	1	0	2	3	1	3	2	2	4	2	2	2	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:129766950G>A	uc003qbn.2	+	44	6518	c.6413G>A	c.(6412-6414)CGG>CAG	p.R2138Q	LAMA2_uc003qbo.2_Missense_Mutation_p.R2138Q	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2138	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		AACCAAGCTCGGAAACAAGCC	0.378													23	36					0	0	1	0	0		A	129766950	A	A	129766950	3	1	155	1	0	0	0	0	1	0	0	0	8622	1116	39	1	6591	1	LAMA2	6	129766950	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4147082	129766950	41348117	572	84399											
EYA4	2070	broad.mit.edu	37	chr6	133846386	133846386	+	Frame_Shift_Del	DEL	A	-	-																															gtagaagaagaacaggcagcAaaaaaggtaacctgtctcaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:133846386delA	uc003qec.3	+	19	2291	c.1833delA	c.(1831-1833)GCAfs	p.A611fs	EYA4_uc011ecq.1_Intron|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Intron|EYA4_uc003qee.3_Frame_Shift_Del_p.A588fs|EYA4_uc011ecs.1_Frame_Shift_Del_p.A617fs|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	611					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		AACAGGCAGCAAAAAAGGTAA	0.398													38	68	---	---	---	---						.	-	133846386	-	-	133846386	7	5	155	1	0	1	0	1	0	0	0	0	5339	117	5	0	2008	0	EYA4	6	133846386	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	4079436	133846386	37268681	573	84400											
ALDH8A1	64577	broad.mit.edu	37	chr6	135240004	135240004	+	Missense_Mutation	SNP	A	G	G	1	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	ctctcttgacgtaacttctgAcctgcgtgggtaaaaatcat	10	13	8	10	2	3	2	1	2	2	0	4	2	3	2	1	1	2	2	1	1	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:135240004A>G	uc003qew.2	-	7	1066	c.1013T>C	c.(1012-1014)GTC>GCC	p.V338A	ALDH8A1_uc003qex.2_Missense_Mutation_p.V284A|ALDH8A1_uc010kgh.2_Missense_Mutation_p.V116A|ALDH8A1_uc011ecx.1_Missense_Mutation_p.V288A	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	338					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		GTAACTTCTGACCTGCGTGGG	0.468													25	141					0	0	1	0	0		G	135240004	G	G	135240004	3	3	155	1	0	0	0	0	1	0	0	0	505	289	10	3	454	3	ALDH8A1	6	135240004	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1393618	135240004	35875063	574	84401											
MAP3K5	4217	broad.mit.edu	37	chr6	136926362	136926362	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaccttgaacatagctgcTtgtggttctcccagttcata	8	14	9	10	0	2	2	1	2	1	0	3	2	2	2	2	1	3	4	2	1	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:136926362T>C	uc003qhc.2	-	19	3025	c.2664A>G	c.(2662-2664)CAA>CAG	p.Q888Q	MAP3K5_uc011edj.1_Silent_p.Q135Q|MAP3K5_uc011edk.1_Silent_p.Q733Q	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	888	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		ACATAGCTGCTTGTGGTTCTC	0.403													93	146					0	0	1	0	0		C	136926362	C	C	136926362	2	2	155	1	0	0	0	0	0	0	0	1	9271	1606	56	3		3	MAP3K5	6	136926362	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1686358	136926362	34188705	575	84402											
AKAP12	9590	broad.mit.edu	37	chr6	151672225	151672225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcagctgtcgctgacgggaCgagggcagctaccattattg	9	8	14	10	3	0	1	0	1	0	0	1	3	0	2	1	2	4	5	1	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:151672225C>T	uc011eep.1	+	4	2939	c.2699C>T	c.(2698-2700)ACG>ATG	p.T900M	AKAP12_uc003qoe.2_Missense_Mutation_p.T900M|AKAP12_uc003qof.2_Missense_Mutation_p.T802M|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.T795M	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	900					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GCTGACGGGACGAGGGCAGCT	0.522													31	26					0	0	1	0	0		T	151672225	T	T	151672225	3	4	155	1	0	0	0	0	1	0	0	0	448	536	19	1	2738	1	AKAP12	6	151672225	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	14745863	151672225	19442842	576	84403											
C6orf211	79624	broad.mit.edu	37	chr6	151790214	151790214	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtggaccactggaaaatAtggaatatttcagtacgatg	13	11	11	6	1	1	0	1	0	0	0	1	4	1	3	1	4	1	1	1	4	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:151790214A>G	uc003qok.1	+	5	1554	c.1295A>G	c.(1294-1296)TAT>TGT	p.Y432C	C6orf211_uc011ees.1_Missense_Mutation_p.Y313C	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	432							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		ACTGGAAAATATGGAATATTT	0.478													10	50					0	0	1	0	0		G	151790214	G	G	151790214	3	3	155	1	0	0	0	0	1	0	0	0	2357	449	16	3	1313	3	C6orf211	6	151790214	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	117989	151790214	19324853	577	84404											
SYNE1	23345	broad.mit.edu	37	chr6	152540160	152540160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaatgaagtctgctgtttgCagagagcttgctccagggca	9	11	13	8	0	1	2	0	1	1	1	2	3	2	2	1	1	4	7	1	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:152540160C>T	uc010kiw.2	-	120	22624	c.22022G>A	c.(22021-22023)TGC>TAC	p.C7341Y	SYNE1_uc010kiv.2_Missense_Mutation_p.C1865Y|SYNE1_uc003qos.3_Missense_Mutation_p.C1865Y|SYNE1_uc003qot.3_Missense_Mutation_p.C7270Y|SYNE1_uc003qou.3_Missense_Mutation_p.C7341Y|SYNE1_uc003qor.3_Missense_Mutation_p.C241Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7341	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTGCTGTTTGCAGAGAGCTTG	0.438										HNSCC(10;0.0054)			10	228					0	0	1	0	0		T	152540160	T	T	152540160	3	4	155	1	0	0	0	0	1	0	0	0	15470	710	25	2	4552	2	SYNE1	6	152540160	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	749946	152540160	18574907	578	84405											
SYNE1	23345	broad.mit.edu	37	chr6	152623111	152623111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccgtcagcagcatggtggCgtgcttggctttcatcgtca	6	11	12	12	3	3	0	3	0	0	0	4	0	3	0	1	3	3	4	1	3	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:152623111C>T	uc010kiw.2	-	92	18036	c.17434G>A	c.(17434-17436)GCC>ACC	p.A5812T	SYNE1_uc010kiv.2_Missense_Mutation_p.A336T|SYNE1_uc003qos.3_Missense_Mutation_p.A336T|SYNE1_uc003qot.3_Missense_Mutation_p.A5741T|SYNE1_uc003qou.3_Missense_Mutation_p.A5812T|SYNE1_uc010kiy.1_Missense_Mutation_p.A34T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5812	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGCATGGTGGCGTGCTTGGCT	0.587										HNSCC(10;0.0054)			14	62					0	0	1	0	0		T	152623111	T	T	152623111	3	4	155	1	0	0	0	0	1	0	0	0	15470	768	27	1	9252	1	SYNE1	6	152623111	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	82951	152623111	18491956	579	84406											
RBM16	22828	broad.mit.edu	37	chr6	155114112	155114112	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctatgagcaatactccaggTatgttgctttaatatagatt	12	15	8	6	0	0	2	0	1	0	1	1	2	1	2	1	1	3	5	1	1	7	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:155114112T>C	uc003qqa.2	+	6	707	c.475_splice	c.e6+2	p.G159_splice	RBM16_uc011efj.1_Splice_Site_p.G225_splice|RBM16_uc011efk.1_Splice_Site_p.G204_splice|RBM16_uc003qpz.2_Splice_Site_p.G159_splice|RBM16_uc010kji.2_Splice_Site_p.G180_splice	NM_014892	NP_055707	Q9UPN6	SCAF8_HUMAN	RNA-binding motif protein 16						mRNA processing|RNA splicing	nuclear matrix|spliceosomal complex	nucleotide binding|RNA binding|RNA polymerase core enzyme binding				0		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;2.33e-15)|BRCA - Breast invasive adenocarcinoma(81;0.00524)		ATACTCCAGGTATGTTGCTTT	0.398													21	74					0	0	1	0	0		C	155114112	C	C	155114112	5	2	155	1	0	0	0	0	0	0	1	0	13143	1652	57	3	495	3	RBM16	6	155114112	Splice_Site	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2491001	155114112	16000955	580	84407											
TULP4	56995	broad.mit.edu	37	chr6	158925205	158925205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccagattgagttagaggggCggcaggtaagacctcagacc	11	7	14	9	1	1	5	1	1	0	4	2	5	2	5	3	4	0	3	3	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:158925205C>T	uc003qrf.2	+	13	5867	c.4510C>T	c.(4510-4512)CGG>TGG	p.R1504W	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1504	TUB.				intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GTTAGAGGGGCGGCAGGTAAG	0.607													7	7					0	0	1	0	0		T	158925205	T	T	158925205	3	4	155	1	0	0	0	0	1	0	0	0	16802	759	27	1	4560	1	TULP4	6	158925205	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3811093	158925205	12189862	581	84408											
RSPH3	83861	broad.mit.edu	37	chr6	159399331	159399331	+	Frame_Shift_Del	DEL	T	-	-																															caccatgctatattccatggTtttttcaacttcattcatta																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:159399331delT	uc003qrx.2	-	7	1523	c.1333delA	c.(1333-1335)ACCfs	p.T445fs	RSPH3_uc010kju.2_Frame_Shift_Del_p.T349fs	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	445										ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		TATTCCATGGTTTTTTCAACT	0.294													44	59	---	---	---	---						.	-	159399331	-	-	159399331	7	5	155	1	0	1	0	1	0	0	0	0	13730	1725	60	0	357	0	RSPH3	6	159399331	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	474126	159399331	11715736	582	84409											
RPS6KA2	6196	broad.mit.edu	37	chr6	166844007	166844007	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcactggcttcgcgctcCgagaagtatctctgccggag	7	9	12	13	5	2	1	1	0	1	1	5	3	3	2	2	2	1	3	2	2	2	2	rs140163975		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:166844007C>T	uc003qvb.1	-	16	1734	c.1515G>A	c.(1513-1515)TCG>TCA	p.S505S	RPS6KA2_uc011ego.1_Silent_p.S416S|RPS6KA2_uc010kkl.1_Silent_p.S416S|RPS6KA2_uc003qvc.1_Silent_p.S513S|RPS6KA2_uc003qvd.1_Silent_p.S530S	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	505	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		CTTCGCGCTCCGAGAAGTATC	0.602													9	109					0	0	1	0	0		T	166844007	T	T	166844007	2	4	155	1	0	0	0	0	0	0	0	1	13676	639	23	1		1	RPS6KA2	6	166844007	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	7444676	166844007	4271060	583	84410											
WDR27	253769	broad.mit.edu	37	chr6	170059556	170059556	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggactgaccttttgatcCgcagtgcggttcctcagggc	6	11	12	12	2	2	2	2	2	0	0	4	3	4	3	3	3	1	2	3	3	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr6:170059556C>A	uc003qwx.2	-	11	1708	c.1188G>T	c.(1186-1188)GCG>GCT	p.A396A	WDR27_uc003qwv.1_RNA|WDR27_uc010kkw.1_Silent_p.A396A|WDR27_uc003qwy.2_Silent_p.A269A|WDR27_uc003qwz.1_Silent_p.A129A			A2RRH5	WDR27_HUMAN	RecName: Full=WD repeat-containing protein 27;	366										pancreas(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.216)		OV - Ovarian serous cystadenocarcinoma(33;6.48e-20)|BRCA - Breast invasive adenocarcinoma(81;3.56e-07)|GBM - Glioblastoma multiforme(31;0.00168)		CCTTTTGATCCGCAGTGCGGT	0.542													5	14					0.00116845	0.0011826	1	1	0		A	170059556	A	A	170059556	2	1	155	1	0	0	0	0	0	0	0	1	17310	639	23	5		5	WDR27	6	170059556	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3215549	170059556	1055511	584	84411											
C7orf50	84310	broad.mit.edu	37	chr7	1049694	1049694	+	Frame_Shift_Del	DEL	T	-	-																															tctcctctttcttccgttccTttttcagcttcctttccagg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:1049694delT	uc003sju.2	-	3	285	c.215delA	c.(214-216)AAGfs	p.K72fs	C7orf50_uc003sjs.2_RNA|C7orf50_uc011jvt.1_Frame_Shift_Del_p.K72fs|C7orf50_uc011jvu.1_Frame_Shift_Del_p.K72fs	NM_032350	NP_115726	Q9BRJ6	CG050_HUMAN	hypothetical protein LOC84310	72							protein binding				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0216)|OV - Ovarian serous cystadenocarcinoma(56;1.3e-15)		CTTCCGTTCCTTTTTCAGCTT	0.647													34	39	---	---	---	---						.	-	1049694	-	-	1049694	7	5	155	1	0	1	0	1	0	0	0	0	2402	1609	56	0	381	0	C7orf50	7	1049694	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08		1049694	158088969	585	84412											
INTS1	26173	broad.mit.edu	37	chr7	1538951	1538951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgcgatcagcaactccGtctggctgtcctcctcctcc	4	10	7	20	3	2	0	1	0	1	0	8	1	8	0	7	1	2	2	7	1	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:1538951G>A	uc003skn.2	-	7	991	c.890C>T	c.(889-891)ACG>ATG	p.T297M	INTS1_uc003skq.2_Missense_Mutation_p.T297M	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	297					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CAGCAACTCCGTCTGGCTGTC	0.637													22	164					0	0	1	0	0		A	1538951	A	A	1538951	3	1	155	1	0	0	0	0	1	0	0	0	7791	1145	40	1	5850	1	INTS1	7	1538951	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	489257	1538951	157599712	586	84413											
CHST12	55501	broad.mit.edu	37	chr7	2472864	2472864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgcggtgcgccctaccGcgacccgctgcgcatcccgc	4	4	12	21	8	0	0	0	0	0	0	1	1	1	0	5	1	3	3	5	1	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:2472864G>A	uc003smc.2	+	2	725	c.590G>A	c.(589-591)CGC>CAC	p.R197H	CHST12_uc003smd.2_Missense_Mutation_p.R197H	NM_018641	NP_061111	Q9NRB3	CHSTC_HUMAN	carbohydrate sulfotransferase 12	197	Lumenal (Potential).				dermatan sulfate biosynthetic process	integral to Golgi membrane	3'-phosphoadenosine 5'-phosphosulfate binding|chondroitin 4-sulfotransferase activity|protein binding			kidney(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0847)|OV - Ovarian serous cystadenocarcinoma(56;2.25e-13)		GCGCCCTACCGCGACCCGCTG	0.677													20	47					0	0	1	0	0		A	2472864	A	A	2472864	3	1	155	1	0	0	0	0	1	0	0	0	3403	1087	38	1	592	1	CHST12	7	2472864	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	933913	2472864	156665799	587	84414											
IQCE	23288	broad.mit.edu	37	chr7	2618149	2618149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctggcagagaaaaggcccGatgccagttgggtgagtatg	10	8	15	8	1	1	2	0	1	1	1	1	4	1	2	2	3	1	3	2	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:2618149G>A	uc003smo.3	+	8	803	c.619G>A	c.(619-621)GAT>AAT	p.D207N	IQCE_uc010ksm.1_Missense_Mutation_p.D207N|IQCE_uc003sml.1_Missense_Mutation_p.D207N|IQCE_uc011jvy.1_Missense_Mutation_p.D191N|IQCE_uc011jvz.1_Missense_Mutation_p.D142N|IQCE_uc003smk.3_Missense_Mutation_p.D191N|IQCE_uc003smn.3_Missense_Mutation_p.D142N	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	207	Potential.										0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		GAAAAGGCCCGATGCCAGTTG	0.587													92	58					0	0	1	0	0		A	2618149	A	A	2618149	3	1	155	1	0	0	0	0	1	0	0	0	7822	1058	37	1	649	1	IQCE	7	2618149	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	145285	2618149	156520514	588	84415											
SDK1	221935	broad.mit.edu	37	chr7	4198100	4198100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actgaggcccttcacctcctAcaagctgcgcctgaaagcca	10	7	8	16	1	1	2	1	2	0	0	2	2	2	2	5	1	4	1	5	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:4198100A>G	uc003smx.2	+	31	4785	c.4646A>G	c.(4645-4647)TAC>TGC	p.Y1549C	SDK1_uc010kso.2_Missense_Mutation_p.Y825C|SDK1_uc003smy.2_Missense_Mutation_p.Y36C	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1549	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TTCACCTCCTACAAGCTGCGC	0.622													20	49					0	0	1	0	0		G	4198100	G	G	4198100	3	3	155	1	0	0	0	0	1	0	0	0	13993	391	14	3	4768	3	SDK1	7	4198100	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1579951	4198100	154940563	589	84416											
WIPI2	26100	broad.mit.edu	37	chr7	5267771	5267771	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttgttggtgggtgccgcCgacgggtacctgtacatgta	5	11	16	9	4	0	0	0	0	0	0	0	1	0	0	3	4	3	5	3	4	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:5267771C>T	uc003snv.2	+	11	1266	c.1050C>T	c.(1048-1050)GCC>GCT	p.A350A	WIPI2_uc003snw.2_Silent_p.A350A|WIPI2_uc003snx.2_Silent_p.A332A|WIPI2_uc003sny.2_Silent_p.A332A|WIPI2_uc010ksv.2_Silent_p.A206A|WIPI2_uc003soa.2_Silent_p.A291A|WIPI2_uc003sob.2_Silent_p.A93A	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	350	WD 3.				autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		TGGGTGCCGCCGACGGGTACC	0.572													7	52					0	0	1	0	0		T	5267771	T	T	5267771	2	4	155	1	0	0	0	0	0	0	0	1	17397	639	23	1		1	WIPI2	7	5267771	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1069671	5267771	153870892	590	84417											
TNRC18	84629	broad.mit.edu	37	chr7	5347923	5347923	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtcattttcgtccacatgCgaggactggtatagcgcgcg	8	10	12	11	6	1	0	1	0	0	0	3	2	2	1	1	2	2	1	1	2	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:5347923C>T	uc003soi.3	-	30	9070	c.8721G>A	c.(8719-8721)TCG>TCA	p.S2907S		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2907	BAH.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CGTCCACATGCGAGGACTGGT	0.592													6	22					0	0	1	0	0		T	5347923	T	T	5347923	2	4	155	1	0	0	0	0	0	0	0	1	16364	755	27	1		1	TNRC18	7	5347923	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	80152	5347923	153790740	591	84418											
TNRC18	84629	broad.mit.edu	37	chr7	5391519	5391519	+	Frame_Shift_Del	DEL	A	-	-																															ggcctctcgaagcagcagacAaaacggctgcttcctgctgg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:5391519delA	uc003soi.3	-	17	5750	c.5401delT	c.(5401-5403)TGTfs	p.C1801fs	TNRC18_uc003soj.2_Frame_Shift_Del_p.C183fs	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1801							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		AGCAGCAGACAAAACGGCTGC	0.602													35	29	---	---	---	---						.	-	5391519	-	-	5391519	7	5	155	1	0	1	0	1	0	0	0	0	16364	130	5	0	3561	0	TNRC18	7	5391519	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	43596	5391519	153747144	592	84419											
TNRC18	84629	broad.mit.edu	37	chr7	5399108	5399108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttccccattccgatgaggGcatcatgttcctcctcagac	7	12	7	15	1	2	2	2	1	0	1	6	3	6	2	5	1	0	2	5	1	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:5399108G>A	uc003soi.3	-	15	5103	c.4754C>T	c.(4753-4755)GCC>GTC	p.A1585V	TNRC18_uc003soj.2_5'Flank	NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1585							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		TCCGATGAGGGCATCATGTTC	0.532													48	551					0	0	1	0	0		A	5399108	A	A	5399108	3	1	155	1	0	0	0	0	1	0	0	0	16364	1203	42	2	4216	2	TNRC18	7	5399108	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7589	5399108	153739555	593	84420											
COL28A1	340267	broad.mit.edu	37	chr7	7529062	7529062	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatgggtcctggagctccCggtcttccttcttggcctct	3	13	10	15	1	3	0	0	0	3	0	6	1	6	1	5	4	1	1	5	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:7529062C>T	uc003src.1	-	13	1239	c.1122G>A	c.(1120-1122)CCG>CCA	p.P374P	COL28A1_uc011jxe.1_Silent_p.P57P|COL28A1_uc003srd.2_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	374					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CTGGAGCTCCCGGTCTTCCTT	0.383													5	163					0	0	1	0	0		T	7529062	T	T	7529062	2	4	155	1	0	0	0	0	0	0	0	1	3689	639	23	1		1	COL28A1	7	7529062	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2129954	7529062	151609601	594	84421											
THSD7A	221981	broad.mit.edu	37	chr7	11630185	11630185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccctccacagagggccGtctggttgccgcgcctcttg	3	9	12	17	3	2	1	0	0	2	1	3	1	3	1	6	2	2	1	6	2	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:11630185G>A	uc003ssf.3	-	4	1607	c.1355C>T	c.(1354-1356)ACG>ATG	p.T452M		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	452	Extracellular (Potential).|TSP type-1 4.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ACAGAGGGCCGTCTGGTTGCC	0.542										HNSCC(18;0.044)			27	63					0	0	1	0	0		A	11630185	A	A	11630185	3	1	155	1	0	0	0	0	1	0	0	0	15904	1145	40	1	3714	1	THSD7A	7	11630185	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4101123	11630185	147508478	595	84422											
ETV1	2115	broad.mit.edu	37	chr7	13971290	13971290	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtttggctcagacatctgGcgttggtacataggacgtcc	8	12	12	9	2	2	1	1	0	1	1	3	2	3	2	1	4	1	4	1	4	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:13971290G>C	uc011jxq.1	-	9	1378	c.639C>G	c.(637-639)CGC>CGG	p.R213R	ETV1_uc011jxn.1_Silent_p.R173R|ETV1_uc011jxo.1_Silent_p.R110R|ETV1_uc011jxp.1_Silent_p.R155R|ETV1_uc003ssw.3_Silent_p.R213R|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Silent_p.R195R|ETV1_uc011jxs.1_Silent_p.R195R|ETV1_uc010ktv.2_Silent_p.R82R	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	213					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						CAGACATCTGGCGTTGGTACA	0.532			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								48	44					0	0	1	0	0		C	13971290	C	C	13971290	2	2	155	1	0	0	0	0	0	0	0	1	5285	1190	42	5		5	ETV1	7	13971290	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2341105	13971290	145167373	596	84423											
MGC87042	256227	broad.mit.edu	37	chr7	22533351	22533351	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggaaagagttcctgtgcGtgctgaagttctgaagggca	9	11	15	6	1	1	3	0	2	1	1	2	4	2	4	1	2	2	4	1	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:22533351G>A	uc003svh.2	-	3	229	c.132C>T	c.(130-132)CAC>CAT	p.H44H	MGC87042_uc010kum.1_Silent_p.H63H			Q6NZ63	STEAL_HUMAN	SubName: Full=cDNA FLJ60218, highly similar to Six transmembrane epithelial antigen ofprostate 1;	44						integral to membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0						GTTCCTGTGCGTGCTGAAGTT	0.458													87	239					0	0	1	0	0		A	22533351	A	A	22533351	2	1	155	1	0	0	0	0	0	0	0	1	9572	1136	40	1		1	MGC87042	7	22533351	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	8562061	22533351	136605312	597	84424											
HOXA7	3204	broad.mit.edu	37	chr7	27194723	27194723	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcgctcggtgaggcagagCgcgtgggcgatttcaatgcg	6	8	18	9	6	1	2	1	1	0	1	2	3	1	2	0	4	2	2	0	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:27194723C>T	uc003sys.2	-	2	630	c.498G>A	c.(496-498)GCG>GCA	p.A166A	HOXA6_uc003syq.1_5'Flank|uc003syr.1_3'UTR	NM_006896	NP_008827	P31268	HXA7_HUMAN	homeobox A7	166	Homeobox.				angiogenesis|negative regulation of cell-matrix adhesion|negative regulation of keratinocyte differentiation|negative regulation of leukocyte migration|negative regulation of monocyte differentiation|negative regulation of transcription from RNA polymerase II promoter		sequence-specific DNA binding|transcription factor binding				0						TGAGGCAGAGCGCGTGGGCGA	0.617													24	177					0	0	1	0	0		T	27194723	T	T	27194723	2	4	155	1	0	0	0	0	0	0	0	1	7313	755	27	1		1	HOXA7	7	27194723	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4661372	27194723	131943940	598	84425											
ZNRF2	223082	broad.mit.edu	37	chr7	30363271	30363271	+	Silent	SNP	T	G	G	0	1	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	tttttaggatttaagtgcccTgtatgctcaaaatttgtatc	10	18	7	6	0	1	0	1	0	0	0	2	1	1	1	1	1	2	3	1	1	6	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:30363271T>G	uc003tat.2	+	2	1534	c.483T>G	c.(481-483)CCT>CCG	p.P161P		NM_147128	NP_667339	Q8NHG8	ZNRF2_HUMAN	zinc finger/RING finger 2	161						cell junction|endosome membrane|lysosomal membrane|presynaptic membrane	ligase activity|zinc ion binding				0						TTAAGTGCCCTGTATGCTCAA	0.318													79	308					0	0	1	0	0		G	30363271	G	G	30363271	2	3	155	1	0	0	0	0	0	0	0	1	18237	1567	55	5		5	ZNRF2	7	30363271	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3168548	30363271	128775392	599	84426											
CRHR2	1395	broad.mit.edu	37	chr7	30721549	30721549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acgggtcgtgttgtacttgaCgccgttgaagtactcggggc	6	11	15	9	5	0	2	0	2	0	0	2	2	0	2	1	3	2	4	1	3	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:30721549C>T	uc003tbn.2	-	2	455	c.211G>A	c.(211-213)GTC>ATC	p.V71I	CRHR2_uc010kvw.1_Missense_Mutation_p.V71I|CRHR2_uc010kvx.1_Missense_Mutation_p.V71I|CRHR2_uc010kvy.1_5'UTR|CRHR2_uc003tbo.2_Missense_Mutation_p.V57I|CRHR2_uc003tbp.2_Missense_Mutation_p.V98I|CRHR2_uc010kvz.1_RNA|CRHR2_uc003tbq.1_RNA	NM_001883	NP_001874	Q13324	CRFR2_HUMAN	corticotropin releasing hormone receptor 2	71	Extracellular (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(2)|ovary(1)|skin(1)	4						TTGTACTTGACGCCGTTGAAG	0.647													7	37					0	0	1	0	0		T	30721549	T	T	30721549	3	4	155	1	0	0	0	0	1	0	0	0	3875	536	19	1	1068	1	CRHR2	7	30721549	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	358278	30721549	128417114	600	84427											
KBTBD2	25948	broad.mit.edu	37	chr7	32909149	32909149	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atatgctgccgcagagaccaCcggtcaagttccaggtcata	11	8	10	12	2	2	1	2	0	0	1	3	2	3	1	4	2	2	3	4	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:32909149C>T	uc003tdb.2	-	4	2339	c.1680G>A	c.(1678-1680)CGG>CGA	p.R560R	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	560	Kelch 5.										0			GBM - Glioblastoma multiforme(11;0.0499)			GCAGAGACCACCGGTCAAGTT	0.463													80	226					0	0	1	0	0		T	32909149	T	T	32909149	2	4	155	1	0	0	0	0	0	0	0	1	8009	494	18	4		4	KBTBD2	7	32909149	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2187600	32909149	126229514	601	84428											
RP9	6100	broad.mit.edu	37	chr7	33139022	33139022	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcctggtacatctggtatGcaatcttctggcttagtctc	6	16	9	10	0	4	0	0	0	4	0	5	0	4	0	1	3	3	4	1	3	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:33139022G>A	uc003tdm.2	-	3	228	c.210C>T	c.(208-210)TGC>TGT	p.C70C		NM_203288	NP_976033	Q8TA86	RP9_HUMAN	retinitis pigmentosa 9	70	PIM1-binding (By similarity).				RNA splicing	nucleus	nucleic acid binding|protein binding|zinc ion binding				0			GBM - Glioblastoma multiforme(11;0.0403)			CATCTGGTATGCAATCTTCTG	0.488													11	201					0	0	1	0	0		A	33139022	A	A	33139022	2	1	155	1	0	0	0	0	0	0	0	1	13560	1311	46	2		2	RP9	7	33139022	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	229873	33139022	125999641	602	84429											
HERPUD2	64224	broad.mit.edu	37	chr7	35673349	35673349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtattagtgaagtaaagaagGtggtgatgaaagaccaagct	16	9	13	3	0	0	5	0	3	0	2	0	5	0	5	1	2	1	3	1	2	8	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:35673349G>A	uc003tet.2	-	8	1977	c.1172C>T	c.(1171-1173)ACC>ATC	p.T391I	HERPUD2_uc003tes.3_Missense_Mutation_p.T391I	NM_022373	NP_071768	Q9BSE4	HERP2_HUMAN	HERPUD family member 2	391					response to unfolded protein	integral to membrane				ovary(3)	3						AGTAAAGAAGGTGGTGATGAA	0.483													75	192					0	0	1	0	0		A	35673349	A	A	35673349	3	1	155	1	0	0	0	0	1	0	0	0	7080	1261	44	4	52	4	HERPUD2	7	35673349	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2534327	35673349	123465314	603	84430											
STARD3NL	83930	broad.mit.edu	37	chr7	38268436	38268436	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaaacaggacagtgagaAaccacttttagaactatgag	19	7	9	6	0	0	4	0	2	0	3	0	6	0	5	1	1	3	0	1	1	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:38268436A>G	uc003tfr.2	+	8	834	c.686A>G	c.(685-687)AAA>AGA	p.K229R	STARD3NL_uc003tfs.2_Missense_Mutation_p.K229R|STARD3NL_uc003tft.2_Missense_Mutation_p.K211R	NM_032016	NP_114405	O95772	MENTO_HUMAN	MLN64 N-terminal homolog	229	Cytoplasmic (Potential).					integral to membrane|late endosome membrane				ovary(1)	1						GACAGTGAGAAACCACTTTTA	0.333													12	100					0	0	1	0	0		G	38268436	G	G	38268436	3	3	155	1	0	0	0	0	1	0	0	0	15283	14	1	3	712	3	STARD3NL	7	38268436	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2595087	38268436	120870227	604	84431											
GLI3	2737	broad.mit.edu	37	chr7	42004864	42004864	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccggcaccacaggcaccGtcgagtgcaccaggggccac	9	3	12	17	3	0	0	0	0	0	0	2	1	1	0	5	4	1	3	5	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:42004864G>A	uc011kbh.1	-	15	3898	c.3807C>T	c.(3805-3807)GAC>GAT	p.D1269D	GLI3_uc011kbg.1_Silent_p.D1210D	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1269					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CACAGGCACCGTCGAGTGCAC	0.617									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				35	88					0	0	1	0	0		A	42004864	A	A	42004864	2	1	155	1	0	0	0	0	0	0	0	1	6454	1136	40	1		1	GLI3	7	42004864	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3736428	42004864	117133799	605	84432											
HECW1	23072	broad.mit.edu	37	chr7	43447289	43447289	+	Missense_Mutation	SNP	A	G	G	1	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	atggacaggagaggagatccAagatcataggcaacaccgtg	15	5	13	8	1	1	3	1	0	0	3	2	6	2	4	2	4	1	1	2	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:43447289A>G	uc003tid.1	+	8	1365	c.760A>G	c.(760-762)AAG>GAG	p.K254E	HECW1_uc011kbi.1_Missense_Mutation_p.K254E|HECW1_uc003tie.1_Missense_Mutation_p.K286E	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	254	C2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GAGGAGATCCAAGATCATAGG	0.522													31	96					0	0	1	0	0		G	43447289	G	G	43447289	3	3	155	1	0	0	0	0	1	0	0	0	7058	131	5	3	782	3	HECW1	7	43447289	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1442425	43447289	115691374	606	84433											
EGFR	1956	broad.mit.edu	37	chr7	55229284	55229284	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttgccggaatgtcagcCgaggcagggaatgcgtggac	8	8	15	10	3	2	0	1	0	1	0	3	4	2	3	2	4	3	1	2	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:55229284C>T	uc003tqk.2	+	13	1837	c.1591C>T	c.(1591-1593)CGA>TGA	p.R531*	EGFR_uc003tqi.2_Nonsense_Mutation_p.R531*|EGFR_uc003tqj.2_Nonsense_Mutation_p.R531*|EGFR_uc010kzg.1_Nonsense_Mutation_p.R486*|EGFR_uc011kco.1_Nonsense_Mutation_p.R478*|EGFR_uc011kcp.1_Intron|EGFR_uc011kcq.1_Intron	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	531	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GAATGTCAGCCGAGGCAGGGA	0.592		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			78	190					0	0	1	0	0		T	55229284	T	T	55229284	4	4	155	1	0	0	0	0	0	1	0	0	4973	644	23	1	1652	1	EGFR	7	55229284	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	11781995	55229284	103909379	607	84434											
CRCP	27297	broad.mit.edu	37	chr7	65595732	65595732	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttgtatctcctcctaggTatttcagttactaactgatc	8	19	5	9	0	2	1	1	1	1	0	5	1	3	1	2	1	2	3	2	1	5	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:65595732T>C	uc003tus.2	+	3	192	c.47T>C	c.(46-48)GTA>GCA	p.V16A	CRCP_uc003tuv.2_RNA|CRCP_uc011kdw.1_Intron|CRCP_uc003tut.2_Intron|CRCP_uc003tuu.2_Intron	NM_014478	NP_055293	O75575	RPC9_HUMAN	calcitonin gene-related peptide-receptor	16					acrosome reaction|innate immune response|response to virus|transcription from RNA polymerase III promoter	DNA polymerase III complex|nucleus|plasma membrane	calcitonin receptor activity|DNA-directed RNA polymerase activity|nucleotide binding				0						TCCTCCTAGGTATTTCAGTTA	0.348													36	148					0	0	1	0	0		C	65595732	C	C	65595732	3	2	155	1	0	0	0	0	1	0	0	0	3855	1652	57	3	147	3	CRCP	7	65595732	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	10366448	65595732	93542931	608	84435											
AUTS2	26053	broad.mit.edu	37	chr7	69064844	69064844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtcctccgccccgtccCggcccagacccccgcggagg	3	3	11	24	6	0	1	0	0	0	1	3	2	3	2	10	3	0	0	10	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:69064844C>T	uc003tvw.3	+	1	948	c.205C>T	c.(205-207)CGG>TGG	p.R69W	AUTS2_uc003tvv.3_Missense_Mutation_p.R69W|AUTS2_uc003tvx.3_Missense_Mutation_p.R69W	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	69										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CGCCCCGTCCCGGCCCAGACC	0.517													9	31					0	0	1	0	0		T	69064844	T	T	69064844	3	4	155	1	0	0	0	0	1	0	0	0	1226	643	23	1	207	1	AUTS2	7	69064844	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3469112	69064844	90073819	609	84436											
AUTS2	26053	broad.mit.edu	37	chr7	70236607	70236607	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ccactggcccttttggttcaCtacaaggagcatttcagccg	8	11	9	13	1	2	0	2	0	0	0	2	1	2	1	3	3	3	2	3	3	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:70236607C>A	uc003tvw.3	+	11	2550	c.1807C>A	c.(1807-1809)CTA>ATA	p.L603I	AUTS2_uc003tvx.3_Missense_Mutation_p.L603I|AUTS2_uc011keg.1_Missense_Mutation_p.L55I	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	603										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		TTTTGGTTCACTACAAGGAGC	0.557													8	195					0.000157383	0.000160261	1	1	0		A	70236607	A	A	70236607	3	1	155	1	0	0	0	0	1	0	0	0	1226	564	20	5	1994	5	AUTS2	7	70236607	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1171763	70236607	88902056	610	84437											
WBSCR17	64409	broad.mit.edu	37	chr7	70597946	70597946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaggtggccaacctcagcgCgcacagcgccagccccatcc	8	3	11	19	4	1	0	1	0	0	0	2	1	2	0	6	2	4	1	6	2	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:70597946C>T	uc003tvy.2	+	1	158	c.158C>T	c.(157-159)GCG>GTG	p.A53V		NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	53	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				AACCTCAGCGCGCACAGCGCC	0.697													8	9					0	0	1	0	0		T	70597946	T	T	70597946	3	4	155	1	0	0	0	0	1	0	0	0	17290	768	27	1	160	1	WBSCR17	7	70597946	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	361339	70597946	88540717	611	84438											
WBSCR28	135886	broad.mit.edu	37	chr7	73279593	73279593	+	Missense_Mutation	SNP	A	G	G	1	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	gcctgggcctggccttgctcAgtgcctgggagcagctgggc	3	8	17	13	0	1	0	1	0	0	0	1	1	1	1	4	4	4	3	4	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:73279593A>G	uc003tzk.2	+	2	379	c.343A>G	c.(343-345)AGT>GGT	p.S115G	RFC2_uc011kfa.1_Intron|WBSCR28_uc003tzl.2_Missense_Mutation_p.S14G	NM_182504	NP_872310	Q6UE05	WBS28_HUMAN	hypothetical protein LOC135886	115						integral to membrane				breast(1)	1		Lung NSC(55;0.159)				GGCCTTGCTCAGTGCCTGGGA	0.612													12	82					0	0	1	0	0		G	73279593	G	G	73279593	3	3	155	1	0	0	0	0	1	0	0	0	17293	188	7	3	349	3	WBSCR28	7	73279593	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2681647	73279593	85859070	612	84439											
HGF	3082	broad.mit.edu	37	chr7	81372788	81372788	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagcccttgtcgggatatCtgcaaaccacaccaagaaaa	16	6	7	12	1	1	1	0	0	1	1	2	2	1	2	3	1	3	1	3	1	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:81372788C>T	uc003uhl.2	-	7	912	c.747_splice	c.e7-1	p.R249_splice	HGF_uc003uhm.2_Splice_Site_p.R244_splice|HGF_uc003uhn.1_Splice_Site_p.R249_splice|HGF_uc003uho.1_Splice_Site_p.R244_splice	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1						epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						GTCGGGATATCTGCAAACCAC	0.502													7	109					0	0	1	0	0		T	81372788	T	T	81372788	5	4	155	1	0	0	0	0	0	0	1	0	7101	927	32	4	1500	4	HGF	7	81372788	Splice_Site	SNP	C	TCGA-CG-5726-01A-11D-1600-08	8093195	81372788	77765875	613	84440											
PCLO	27445	broad.mit.edu	37	chr7	82785096	82785096	+	Silent	SNP	G	A	A	0	0	1	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	actgattctccccttactatGtctgcctgtttagtctgagg	6	16	8	11	0	3	2	0	2	3	0	4	2	3	2	3	1	2	1	3	1	3	5	rs61744360	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:82785096G>A	uc003uhx.2	-	2	1150	c.861C>T	c.(859-861)GAC>GAT	p.D287D	PCLO_uc003uhv.2_Silent_p.D287D	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	287	Gln-rich.|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCCTTACTATGTCTGCCTGTT	0.512													32	108					0	0	1	0	0		A	82785096	A	A	82785096	2	1	155	1	0	0	0	0	0	0	0	1	11602	1368	48	4		4	PCLO	7	82785096	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1412308	82785096	76353567	614	84441											
MGC26647	219557	broad.mit.edu	37	chr7	88423782	88423782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgactgtgtcacatcgtCgagatacataactggaactt	11	12	9	9	2	1	2	1	1	0	1	3	4	1	3	0	1	3	0	0	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:88423782C>T	uc003ujv.2	-	2	657	c.475G>A	c.(475-477)GAC>AAC	p.D159N	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	159											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			GTCACATCGTCGAGATACATA	0.368													7	373					0	0	1	0	0		T	88423782	T	T	88423782	3	4	155	1	0	0	0	0	1	0	0	0	9568	884	31	1	290	1	MGC26647	7	88423782	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5638686	88423782	70714881	615	84442											
AKAP9	10142	broad.mit.edu	37	chr7	91630782	91630782	+	Silent	SNP	A	G	G	1	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	aaactcaaggaagaactaggActaattttagaagaaaagtg	20	8	9	4	0	1	3	1	0	0	3	1	5	1	5	0	2	2	0	0	2	10	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:91630782A>G	uc003ulg.2	+	8	1776	c.1551A>G	c.(1549-1551)GGA>GGG	p.G517G	AKAP9_uc003ule.2_Silent_p.G529G|AKAP9_uc003ulf.2_Silent_p.G517G|AKAP9_uc003uli.2_Silent_p.G142G	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	529	Glu-rich.|Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AAGAACTAGGACTAATTTTAG	0.343			T	BRAF	papillary thyroid								7	271					0	0	1	0	0		G	91630782	G	G	91630782	2	3	155	1	0	0	0	0	0	0	0	1	459	262	10	3		3	AKAP9	7	91630782	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3207000	91630782	67507881	616	84443											
PEX1	5189	broad.mit.edu	37	chr7	92134057	92134057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatttaccatgagcaagcCgctggctctgcaccgcatca	9	9	9	14	2	2	1	1	1	1	0	2	1	2	1	3	1	5	6	3	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:92134057C>T	uc003uly.2	-	12	2156	c.2060G>A	c.(2059-2061)CGG>CAG	p.R687Q	PEX1_uc011khr.1_Missense_Mutation_p.R479Q|PEX1_uc010ley.2_Intron|PEX1_uc011khs.1_Missense_Mutation_p.R365Q|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	687			Missing (in NALD).		microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ATGAGCAAGCCGCTGGCTCTG	0.483													5	125					0	0	1	0	0		T	92134057	T	T	92134057	3	4	155	1	0	0	0	0	1	0	0	0	11754	652	23	1	1843	1	PEX1	7	92134057	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	503275	92134057	67004606	617	84444											
SAMD9L	219285	broad.mit.edu	37	chr7	92762390	92762390	+	Silent	SNP	T	A	A	0	1	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	attagaagtgtagaataagtTcccatcttgtcttctaagct	12	15	7	7	0	3	2	0	0	3	2	4	2	4	2	1	0	1	3	1	0	6	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:92762390T>A	uc003umh.1	-	5	4111	c.2895A>T	c.(2893-2895)GGA>GGT	p.G965G	SAMD9L_uc003umj.1_Silent_p.G965G|SAMD9L_uc003umi.1_Silent_p.G965G|SAMD9L_uc010lfb.1_Silent_p.G965G|SAMD9L_uc003umk.1_Silent_p.G965G|SAMD9L_uc010lfc.1_Silent_p.G965G|SAMD9L_uc010lfd.1_Silent_p.G965G|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	965										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			TAGAATAAGTTCCCATCTTGT	0.383													10	243					0	0	1	0	0		A	92762390	A	A	92762390	2	1	155	1	0	0	0	0	0	0	0	1	13852	1770	62	5		5	SAMD9L	7	92762390	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	628333	92762390	66376273	618	84445											
COL1A2	1278	broad.mit.edu	37	chr7	94040372	94040372	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttttgaatagggccCtcctggtagtcgtggtgcaa	6	17	11	7	1	0	1	0	1	0	0	2	1	1	1	2	3	1	2	2	3	4	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:94040372C>A	uc003ung.1	+	23	1727	c.1256C>A	c.(1255-1257)CCT>CAT	p.P419H	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	419					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GAATAGGGCCCTCCTGGTAGT	0.522										HNSCC(75;0.22)			26	8					8.88839e-20	9.53918e-20	1	1	0		A	94040372	A	A	94040372	3	1	155	1	0	0	0	0	1	0	0	0	3681	681	24	5	1346	5	COL1A2	7	94040372	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1277982	94040372	65098291	619	84446											
CYP3A7	1551	broad.mit.edu	37	chr7	99313472	99313472	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggattgttgagagagtcGatgctcactccaaatgatgt	10	13	12	6	1	1	3	1	2	0	1	3	6	2	4	1	1	1	2	1	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:99313472G>A	uc003uru.2	-	7	684	c.579C>T	c.(577-579)ATC>ATT	p.I193I	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	193					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					TGAGAGAGTCGATGCTCACTC	0.413													197	128					0	0	1	0	0		A	99313472	A	A	99313472	2	1	155	1	0	0	0	0	0	0	0	1	4184	1048	37	1		1	CYP3A7	7	99313472	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5273100	99313472	59825191	620	84447											
TRIP6	7205	broad.mit.edu	37	chr7	100468329	100468329	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggccagcatttctacgcCgtggagaggagggcatattg	8	8	15	10	4	1	1	0	0	1	1	1	3	1	2	2	4	2	2	2	4	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:100468329C>A	uc003uww.2	+	6	1133	c.963C>A	c.(961-963)GCC>GCA	p.A321A	TRIP6_uc010lhk.1_RNA	NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	321					focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					ATTTCTACGCCGTGGAGAGGA	0.627													21	76					5.26018e-13	5.57372e-13	1	1	0		A	100468329	A	A	100468329	2	1	155	1	0	0	0	0	0	0	0	1	16585	639	23	5		5	TRIP6	7	100468329	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1154857	100468329	58670334	621	84448											
SRRT	51593	broad.mit.edu	37	chr7	100479844	100479844	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	gatgcaggatttcttcctggCgcacaaagatgaggagtggt	10	10	14	7	1	1	2	0	1	1	1	2	5	2	4	1	4	1	2	1	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:100479844C>G	uc003uwy.2	+	6	837	c.569C>G	c.(568-570)GCG>GGG	p.A190G	SRRT_uc010lhl.1_Missense_Mutation_p.A190G|SRRT_uc003uxa.2_Missense_Mutation_p.A190G|SRRT_uc003uwz.2_Missense_Mutation_p.A190G	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	190					cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						TTCTTCCTGGCGCACAAAGAT	0.597													20	72					0	0	1	0	0		G	100479844	G	G	100479844	3	3	155	1	0	0	0	0	1	0	0	0	15197	768	27	5	583	5	SRRT	7	100479844	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	11515	100479844	58658819	622	84449											
ACHE	43	broad.mit.edu	37	chr7	100488859	100488859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcgcgcagcccccgccGcacctccagcggccgcaggt	4	3	14	20	6	0	0	0	0	0	0	1	0	1	0	6	3	2	3	6	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:100488859G>A	uc003uxd.2	-	3	1810	c.1654C>T	c.(1654-1656)CGG>TGG	p.R552W	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Missense_Mutation_p.R552W|ACHE_uc003uxf.2_Missense_Mutation_p.R552W|ACHE_uc003uxg.2_Missense_Mutation_p.R552W|ACHE_uc003uxh.2_Missense_Mutation_p.R464W|ACHE_uc003uxi.2_Missense_Mutation_p.R552W	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	552					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	AGCCCCCGCCGCACCTCCAGC	0.706													8	30					0	0	1	0	0		A	100488859	A	A	100488859	3	1	155	1	0	0	0	0	1	0	0	0	141	1086	38	1	333	1	ACHE	7	100488859	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	9015	100488859	58649804	623	84450											
AP1S1	1174	broad.mit.edu	37	chr7	100800008	100800008	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctggctcgaaagcccaagaTgtgcagcttcctggagtgga	9	8	13	11	1	0	1	0	0	0	1	2	4	1	3	3	3	3	3	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:100800008T>C	uc003uxv.3	+	2	247	c.137T>C	c.(136-138)ATG>ACG	p.M46T		NM_001283	NP_001274	P61966	AP1S1_HUMAN	adaptor-related protein complex 1, sigma 1	46					intracellular protein transport|post-Golgi vesicle-mediated transport|receptor-mediated endocytosis|regulation of defense response to virus by virus|response to virus|viral reproduction	AP-1 adaptor complex|coated pit|cytosol|lysosomal membrane	protein binding|protein transporter activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					AAGCCCAAGATGTGCAGCTTC	0.527													3	14					0	0	1	0	0		C	100800008	C	C	100800008	3	2	155	1	0	0	0	0	1	0	0	0	736	1464	51	3	143	3	AP1S1	7	100800008	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	311149	100800008	58338655	624	84451											
DNAJC2	27000	broad.mit.edu	37	chr7	102962984	102962984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttagcttcttgctccttccGtttagcttctgcttttgctt	2	22	6	11	1	2	0	0	0	2	0	4	0	4	0	2	0	5	6	2	0	2	11			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:102962984G>A	uc003vbo.2	-	9	1158	c.907C>T	c.(907-909)CGG>TGG	p.R303W	PMPCB_uc011kll.1_Intron|DNAJC2_uc003vbn.2_Translation_Start_Site|DNAJC2_uc010lix.2_Missense_Mutation_p.R303W|DNAJC2_uc003vbp.2_Translation_Start_Site	NM_014377	NP_055192	Q99543	DNJC2_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 2	303					'de novo' cotranslational protein folding|chromatin modification|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane	chromatin binding|DNA binding|histone binding|Hsp70 protein binding|ubiquitin binding			kidney(1)	1						tgctccttccgtttagcttct	0.139													13	44					0	0	1	0	0		A	102962984	A	A	102962984	3	1	155	1	0	0	0	0	1	0	0	0	4645	1144	40	1	994	1	DNAJC2	7	102962984	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2162976	102962984	56175679	625	84452											
SRPK2	6733	broad.mit.edu	37	chr7	104783602	104783602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagtttcacctctgggcagTattcgccatcctggtcattg	6	15	9	11	1	3	0	2	0	1	0	5	0	4	0	3	2	0	3	3	2	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:104783602T>C	uc003vct.2	-	9	1143	c.956A>G	c.(955-957)TAC>TGC	p.Y319C	SRPK2_uc003vcu.2_Missense_Mutation_p.Y319C|SRPK2_uc003vcv.2_Missense_Mutation_p.Y330C|SRPK2_uc003vcw.1_Missense_Mutation_p.Y319C	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	319	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CTCTGGGCAGTATTCGCCATC	0.502													10	254					0	0	1	0	0		C	104783602	C	C	104783602	3	2	155	1	0	0	0	0	1	0	0	0	15185	1638	57	3	1138	3	SRPK2	7	104783602	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1820618	104783602	54355061	626	84453											
CDHR3	222256	broad.mit.edu	37	chr7	105656435	105656435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctctcatttttgataggCcatcctatgtatttgatgtg	7	19	7	8	0	1	2	1	2	1	0	4	2	3	2	3	1	0	1	3	1	3	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:105656435C>T	uc003vdl.3	+	11	1498	c.1390C>T	c.(1390-1392)CCA>TCA	p.P464S	CDHR3_uc003vdk.2_Missense_Mutation_p.P112S|CDHR3_uc003vdm.3_Missense_Mutation_p.P451S|CDHR3_uc011klt.1_Missense_Mutation_p.P376S|CDHR3_uc003vdn.2_Missense_Mutation_p.P181S	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	464	Cadherin 4.|Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						TTTTGATAGGCCATCCTATGT	0.388													18	51					0	0	1	0	0		T	105656435	T	T	105656435	3	4	155	1	0	0	0	0	1	0	0	0	3123	739	26	2	1432	2	CDHR3	7	105656435	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	872833	105656435	53482228	627	84454											
NAMPT	10135	broad.mit.edu	37	chr7	105908966	105908966	+	Frame_Shift_Del	DEL	T	-	-																															ggatctttcgttccataataTtttttaattagagcaagtcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:105908966delT	uc003vdq.2	-	6	995	c.687delA	c.(685-687)AAAfs	p.K229fs	NAMPT_uc003vdr.1_Frame_Shift_Del_p.K229fs|NAMPT_uc011klu.1_Frame_Shift_Del_p.K142fs	NM_005746	NP_005737	P43490	NAMPT_HUMAN	nicotinamide phosphoribosyltransferase	229					cell-cell signaling|NAD biosynthetic process|nicotinamide metabolic process|positive regulation of cell proliferation|positive regulation of nitric-oxide synthase biosynthetic process|signal transduction|water-soluble vitamin metabolic process	cytosol	cytokine activity|nicotinamide phosphoribosyltransferase activity|nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			large_intestine(1)	1						TTCCATAATATTTTTTAATTA	0.358													123	94	---	---	---	---						.	-	105908966	-	-	105908966	7	5	155	1	0	1	0	1	0	0	0	0	10167	1490	52	0	812	0	NAMPT	7	105908966	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	252531	105908966	53229697	628	84455											
DOCK4	9732	broad.mit.edu	37	chr7	111540481	111540481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgcaccccggaatttatccaCaggaatgggaagtttcagca	12	9	10	10	1	1	0	1	0	0	0	2	3	2	3	3	3	2	3	3	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:111540481C>T	uc003vfx.2	-	15	1698	c.1429G>A	c.(1429-1431)GTG>ATG	p.V477M	DOCK4_uc003vfy.2_Missense_Mutation_p.V477M|DOCK4_uc003vga.1_Missense_Mutation_p.V82M	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	477	DHR-1.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				AATTTATCCACAGGAATGGGA	0.512													14	25					0	0	1	0	0		T	111540481	T	T	111540481	3	4	155	1	0	0	0	0	1	0	0	0	4695	478	17	4	4623	4	DOCK4	7	111540481	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5631515	111540481	47598182	629	84456											
TMEM168	64418	broad.mit.edu	37	chr7	112423986	112423986	+	Missense_Mutation	SNP	A	G	G	1	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	ccagaaaattccaaaaatggAaaagccaggtattacaaaat	21	7	6	7	0	0	1	0	0	0	1	1	2	1	2	3	2	2	1	3	2	10	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:112423986A>G	uc003vgn.2	-	2	1287	c.895T>C	c.(895-897)TCC>CCC	p.S299P	TMEM168_uc010lju.2_Missense_Mutation_p.S299P|TMEM168_uc011kmr.1_Intron	NM_022484	NP_071929	Q9H0V1	TM168_HUMAN	transmembrane protein 168	299	Helical; (Potential).					integral to membrane|transport vesicle				ovary(1)|central_nervous_system(1)	2						CCAAAAATGGAAAAGCCAGGT	0.318													20	497					0	0	1	0	0		G	112423986	G	G	112423986	3	3	155	1	0	0	0	0	1	0	0	0	16108	246	9	3	1214	3	TMEM168	7	112423986	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	883505	112423986	46714677	630	84457											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432425	117432425	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagagagaggcttggtttGctgtcacttccccttttcag	7	13	12	9	0	2	2	2	0	0	2	3	4	3	3	2	3	1	3	2	3	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:117432425G>A	uc003vjf.2	-	4	917	c.825C>T	c.(823-825)AGC>AGT	p.S275S		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	275	Potential.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GGCTTGGTTTGCTGTCACTTC	0.478													114	82					0	0	1	0	0		A	117432425	A	A	117432425	2	1	155	1	0	0	0	0	0	0	0	1	4048	1310	46	2		2	CTTNBP2	7	117432425	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5008439	117432425	41706238	631	84458											
C7orf58	79974	broad.mit.edu	37	chr7	120629903	120629903	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgcttccttctctctggTaatgcccaggaaaccagaaa	11	10	8	12	0	2	1	0	0	2	1	4	2	3	2	3	2	3	2	3	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:120629903T>C	uc003vjq.3	+	2	675	c.228T>C	c.(226-228)GGT>GGC	p.G76G	C7orf58_uc003vjr.1_Silent_p.G76G|C7orf58_uc003vjs.3_Silent_p.G76G	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	76						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					TTCTCTCTGGTAATGCCCAGG	0.478													132	98					0	0	1	0	0		C	120629903	C	C	120629903	2	2	155	1	0	0	0	0	0	0	0	1	2408	1625	57	3		3	C7orf58	7	120629903	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3197478	120629903	38508760	632	84459											
PTPRZ1	5803	broad.mit.edu	37	chr7	121651782	121651782	+	Silent	SNP	T	C	C	0	1	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	gagacgctggaatttggtagTgaatctggtgttctttataa	10	15	12	4	1	2	2	0	1	2	1	2	4	2	3	0	3	0	3	0	3	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:121651782T>C	uc003vjy.2	+	12	3077	c.2682T>C	c.(2680-2682)AGT>AGC	p.S894S	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	894	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						AATTTGGTAGTGAATCTGGTG	0.473													43	96					0	0	1	0	0		C	121651782	C	C	121651782	2	2	155	1	0	0	0	0	0	0	0	1	12839	1693	59	3		3	PTPRZ1	7	121651782	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1021879	121651782	37486881	633	84460											
CADPS2	93664	broad.mit.edu	37	chr7	122033276	122033276	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcatataaagaaggcatccaCgaagcagtagaaatgttagg	17	8	10	6	1	1	2	1	0	0	2	2	3	2	2	1	2	1	4	1	2	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:122033276C>T	uc010lkp.2	-	21	3145	c.2982G>A	c.(2980-2982)TCG>TCA	p.S994S	CADPS2_uc011knx.1_Silent_p.S369S|CADPS2_uc003vkg.3_Intron|CADPS2_uc010lkq.2_Intron	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	994	Interaction with DRD2.|MHD1.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						AAGGCATCCACGAAGCAGTAG	0.458													69	34					0	0	1	0	0		T	122033276	T	T	122033276	2	4	155	1	0	0	0	0	0	0	0	1	2574	523	19	1		1	CADPS2	7	122033276	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	381494	122033276	37105387	634	84461											
SLC13A1	6561	broad.mit.edu	37	chr7	122808565	122808565	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtattccttaccctggaaCtggttttgttttctctttcc	5	19	6	11	0	1	0	0	0	1	0	4	1	3	1	3	2	2	3	3	2	3	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:122808565C>G	uc003vkm.2	-	5	629	c.604G>C	c.(604-606)GTT>CTT	p.V202L	SLC13A1_uc010lks.2_5'UTR	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	202						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TACCCTGGAACTGGTTTTGTT	0.254													8	112					0	0	1	0	0		G	122808565	G	G	122808565	3	3	155	1	0	0	0	0	1	0	0	0	14416	565	20	5	1227	5	SLC13A1	7	122808565	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	775289	122808565	36330098	635	84462											
IQUB	154865	broad.mit.edu	37	chr7	123152119	123152119	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattgcttttcatgatgttgCggagtatatgaaacttgtct	9	18	9	5	1	2	2	1	2	1	0	2	3	2	3	0	1	3	3	0	1	4	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:123152119C>T	uc003vkn.2	-	2	853	c.276G>A	c.(274-276)CCG>CCA	p.P92P	IQUB_uc003vko.2_Silent_p.P92P|IQUB_uc010lkt.2_RNA|IQUB_uc003vkp.1_Silent_p.P92P|IQUB_uc003vkq.2_Silent_p.P92P	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	92										ovary(3)|large_intestine(1)	4						CATGATGTTGCGGAGTATATG	0.388													9	548					0	0	1	0	0		T	123152119	T	T	123152119	2	4	155	1	0	0	0	0	0	0	0	1	7836	755	27	1		1	IQUB	7	123152119	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	343554	123152119	35986544	636	84463											
GRM8	2918	broad.mit.edu	37	chr7	126746712	126746712	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactcgagagaaaaagtcatAcctggtgttatcacttagct	13	11	8	9	1	2	1	2	0	0	1	3	3	2	1	1	1	2	2	1	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:126746712A>C	uc003vlr.2	-	2	876	c.565T>G	c.(565-567)TAT>GAT	p.Y189D	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.Y189D|GRM8_uc010lkz.1_RNA|GRM8_uc003vlu.1_5'UTR	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	189	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	AAAAAGTCATACCTGGTGTTA	0.478										HNSCC(24;0.065)			65	48					0	0	1	0	0		C	126746712	C	C	126746712	3	2	155	1	0	0	0	0	1	0	0	0	6819	391	14	5	2247	5	GRM8	7	126746712	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3594593	126746712	32391951	637	84464											
ZNF800	168850	broad.mit.edu	37	chr7	127014002	127014002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggccacctgcagccgacGgactagttgatttagggctt	7	10	13	11	2	0	1	0	1	0	0	0	3	0	2	3	3	2	4	3	3	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:127014002G>A	uc003vlx.1	-	5	1651	c.1388C>T	c.(1387-1389)CCG>CTG	p.P463L	ZNF800_uc003vlw.1_Missense_Mutation_p.P366L|ZNF800_uc003vly.1_Missense_Mutation_p.P463L|ZNF800_uc010lla.2_Missense_Mutation_p.P463L	NM_176814	NP_789784	Q2TB10	ZN800_HUMAN	zinc finger protein 800	463					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGCAGCCGACGGACTAGTTGA	0.378													132	119					0	0	1	0	0		A	127014002	A	A	127014002	3	1	155	1	0	0	0	0	1	0	0	0	18194	1116	39	1	614	1	ZNF800	7	127014002	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	267290	127014002	32124661	638	84465											
FLNC	2318	broad.mit.edu	37	chr7	128496836	128496836	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcatcccccacgagaatggCgtccactccatcgatgtcaa	10	9	7	15	3	2	1	2	0	0	1	6	3	5	1	4	1	0	0	4	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:128496836C>T	uc003vnz.3	+	45	7631	c.7422C>T	c.(7420-7422)GGC>GGT	p.G2474G	FLNC_uc003voa.3_Silent_p.G2441G	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2474	Filamin 22.|Interaction with INPPL1.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						ACGAGAATGGCGTCCACTCCA	0.612													44	37					0	0	1	0	0		T	128496836	T	T	128496836	2	4	155	1	0	0	0	0	0	0	0	1	5949	755	27	1		1	FLNC	7	128496836	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1482834	128496836	30641827	639	84466											
LRGUK	136332	broad.mit.edu	37	chr7	133948672	133948672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggtcccagtcatcagtcGcccaggttccaacgtcaaac	9	8	8	16	3	3	0	3	0	0	0	7	0	5	0	3	2	2	1	3	2	2	1	rs138421011		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:133948672G>A	uc003vrm.1	+	20	2439	c.2423G>A	c.(2422-2424)CGC>CAC	p.R808H		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	808							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5						GTCATCAGTCGCCCAGGTTCC	0.468													87	67					0	0	1	0	0		A	133948672	A	A	133948672	3	1	155	1	0	0	0	0	1	0	0	0	8961	1087	38	1	2501	1	LRGUK	7	133948672	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5451836	133948672	25189991	640	84467											
TRIM24	8805	broad.mit.edu	37	chr7	138145487	138145487	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtgccaccagaacatccagaGccgggcgcccaagctgctgc	9	4	12	16	2	0	2	0	0	0	2	1	2	1	2	5	1	6	2	5	1	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:138145487G>A	uc003vuc.2	+	1	409	c.194G>A	c.(193-195)AGC>AAC	p.S65N	TRIM24_uc003vub.2_Missense_Mutation_p.S65N	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	65	RING-type.				cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						AACATCCAGAGCCGGGCGCCC	0.726													34	16					0	0	1	0	0		A	138145487	A	A	138145487	3	1	155	1	0	0	0	0	1	0	0	0	16524	971	34	2	196	2	TRIM24	7	138145487	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4196815	138145487	20993176	641	84468											
ATP6V0A4	50617	broad.mit.edu	37	chr7	138394473	138394473	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaataataaaaaccccgacGattcctccccagcctcgcgt	14	7	5	15	4	0	0	0	0	0	0	3	2	2	0	6	0	2	0	6	0	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:138394473G>A	uc003vuf.2	-	20	2563	c.2325C>T	c.(2323-2325)ATC>ATT	p.I775I	ATP6V0A4_uc003vug.2_Silent_p.I775I|ATP6V0A4_uc003vuh.2_Silent_p.I775I	NM_130841	NP_570856	Q9HBG4	VPP4_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	775	Helical; (Potential).				cellular iron ion homeostasis|excretion|insulin receptor signaling pathway|ossification|regulation of pH|sensory perception of sound|transferrin transport	apical plasma membrane|brush border membrane|endosome membrane|integral to membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1						AAACCCCGACGATTCCTCCCC	0.522													150	126					0	0	1	0	0		A	138394473	A	A	138394473	2	1	155	1	0	0	0	0	0	0	0	1	1171	1048	37	1		1	ATP6V0A4	7	138394473	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	248986	138394473	20744190	642	84469											
ZC3HAV1	56829	broad.mit.edu	37	chr7	138764890	138764890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcaggacctctcagcagacGctgaagcagacgcaagaaat	14	5	11	11	2	1	4	1	1	1	3	2	5	1	5	1	1	3	5	1	1	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:138764890G>A	uc003vun.2	-	4	1185	c.797C>T	c.(796-798)GCG>GTG	p.A266V	ZC3HAV1_uc003vuo.2_5'Flank|ZC3HAV1_uc003vup.2_Missense_Mutation_p.A266V	NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	266					response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						CTCAGCAGACGCTGAAGCAGA	0.532													40	377					0	0	1	0	0		A	138764890	A	A	138764890	3	1	155	1	0	0	0	0	1	0	0	0	17600	1087	38	1	1955	1	ZC3HAV1	7	138764890	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	370417	138764890	20373773	643	84470											
TTC26	79989	broad.mit.edu	37	chr7	138872157	138872157	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgttctcttattcagatgggCcagttttactattctgccaa	8	16	7	10	1	3	1	1	0	2	1	4	1	3	1	2	1	2	2	2	1	4	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:138872157C>T	uc003vus.2	+	17	1539	c.1425C>T	c.(1423-1425)GGC>GGT	p.G475G	TTC26_uc011kqn.1_Intron|TTC26_uc011kqo.1_Silent_p.G444G|TTC26_uc011kqp.1_Silent_p.G370G|TTC26_uc003vut.2_Silent_p.G335G|TTC26_uc011kqq.1_Silent_p.G344G	NM_024926	NP_079202	A0AVF1	TTC26_HUMAN	tetratricopeptide repeat domain 26 isoform 1	475	TPR 4.						binding			ovary(1)	1						TTCAGATGGGCCAGTTTTACT	0.428													16	441					0	0	1	0	0		T	138872157	T	T	138872157	2	4	155	1	0	0	0	0	0	0	0	1	16720	726	26	2		2	TTC26	7	138872157	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	107267	138872157	20266506	644	84471											
LUC7L2	51631	broad.mit.edu	37	chr7	139107068	139107068	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aggaggagctctgaagagcgCgaagcaggggagatctaact	13	5	16	7	2	2	3	0	1	2	2	2	7	2	5	0	4	4	2	0	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:139107068C>T	uc003vux.2	+	10	1535	c.1161C>T	c.(1159-1161)CGC>CGT	p.R387R	LUC7L2_uc011kqs.1_Silent_p.R384R|LUC7L2_uc011kqt.1_Silent_p.R453R|LUC7L2_uc003vuy.2_Silent_p.R386R|LUC7L2_uc003vva.2_Silent_p.R334R	NM_016019	NP_057103	Q9Y383	LC7L2_HUMAN	LUC7-like 2	387	Arg/Ser-rich.						enzyme binding|metal ion binding				0	Melanoma(164;0.242)					CTGAAGAGCGCGAAGCAGGGG	0.473													8	235					0	0	1	0	0		T	139107068	T	T	139107068	2	4	155	1	0	0	0	0	0	0	0	1	9101	755	27	1		1	LUC7L2	7	139107068	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	234911	139107068	20031595	645	84472											
BRAF	673	broad.mit.edu	37	chr7	140500184	140500184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatagagtccgaggcgggtgCggaaggggatgatccagatg	11	6	18	6	3	0	3	0	1	0	2	2	6	2	5	2	5	1	0	2	5	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:140500184C>T	uc003vwc.3	-	7	1019	c.958G>A	c.(958-960)GCA>ACA	p.A320T		NM_004333	NP_004324	P15056	BRAF_HUMAN	B-Raf	320					activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding		KIAA1549/BRAF(229)|AKAP9_ENST00000356239/BRAF(10)|AGTRAP/BRAF(2)|FCHSD1/BRAF(2)|SLC45A3/BRAF(2)	thyroid(8166)|large_intestine(5052)|skin(3798)|NS(368)|central_nervous_system(284)|ovary(236)|lung(78)|eye(53)|prostate(44)|endometrium(30)|biliary_tract(28)|soft_tissue(27)|haematopoietic_and_lymphoid_tissue(22)|breast(18)|upper_aerodigestive_tract(13)|stomach(13)|pancreas(10)|small_intestine(10)|testis(7)|bone(6)|cervix(5)|genital_tract(4)|oesophagus(3)|urinary_tract(3)|adrenal_gland(3)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|meninges(1)|kidney(1)|autonomic_ganglia(1)|pituitary(1)|salivary_gland(1)	18290	Melanoma(164;0.00956)				Sorafenib(DB00398)	GAGGCGGGTGCGGAAGGGGAT	0.493		61	Mis|T|O	AKAP9|KIAA1549	melanoma|colorectal|papillary thyroid|borderline ov|Non small-cell lung cancer (NSCLC)|cholangiocarcinoma|pilocytic astrocytoma		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous_syndrome				29	94					0	0	1	0	0		T	140500184	T	T	140500184	3	4	155	1	0	0	0	0	1	0	0	0	1499	768	27	1	1390	1	BRAF	7	140500184	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1393116	140500184	18638479	646	84473											
OR6V1	346517	broad.mit.edu	37	chr7	142749987	142749987	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgacaatgaacctctcctgCagttgtcatgctctgacact	9	12	8	12	0	3	3	1	3	2	0	4	3	3	3	2	0	3	3	2	0	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:142749987C>T	uc011ksv.1	+	1	550	c.550C>T	c.(550-552)CAG>TAG	p.Q184*		NM_001001667	NP_001001667	Q8N148	OR6V1_HUMAN	olfactory receptor, family 6, subfamily V,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.059)					ACCTCTCCTGCAGTTGTCATG	0.517													10	468					0	0	1	0	0		T	142749987	T	T	142749987	4	4	155	1	0	0	0	0	0	1	0	0	11230	711	25	2	552	2	OR6V1	7	142749987	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2249803	142749987	16388676	647	84474											
EPHA1	2041	broad.mit.edu	37	chr7	143095886	143095886	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caccccacagggctggcaggGccccccgtcctgtgctgtgc	4	6	13	18	1	0	0	0	0	0	0	1	0	1	0	6	3	2	3	6	3	0	0	rs57652656	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:143095886G>C	uc003wcz.2	-	6	1231	c.1144C>G	c.(1144-1146)CCC>GCC	p.P382A		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	382	Extracellular (Potential).|Fibronectin type-III 1.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				GGCTGGCAGGGCCCCCCGTCC	0.647													8	58					0	0	1	0	0		C	143095886	C	C	143095886	3	2	155	1	0	0	0	0	1	0	0	0	5173	1203	42	5	1838	5	EPHA1	7	143095886	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	345899	143095886	16042777	648	84475											
OR2A5	393046	broad.mit.edu	37	chr7	143748348	143748348	+	Missense_Mutation	SNP	T	G	G	0	1	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	cagccttttcaacccgatgcTgaaccccttgatctatagcc	9	11	6	15	1	2	2	1	2	1	0	2	3	2	2	5	0	5	1	5	0	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:143748348T>G	uc011ktw.1	+	1	854	c.854T>G	c.(853-855)CTG>CGG	p.L285R		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	285	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					AACCCGATGCTGAACCCCTTG	0.532													88	99					0	0	1	0	0		G	143748348	G	G	143748348	3	3	155	1	0	0	0	0	1	0	0	0	11000	1580	55	5	856	5	OR2A5	7	143748348	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	652462	143748348	15390315	649	84476											
CNTNAP2	26047	broad.mit.edu	37	chr7	146997331	146997331	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgaagcatcagcagttCgaactaatagtccccttcaa	14	9	8	10	1	2	2	2	1	0	1	4	4	3	2	2	0	3	3	2	0	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:146997331C>A	uc003weu.1	+	9	1963	c.1447C>A	c.(1447-1449)CGA>AGA	p.R483R		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	483	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ATCAGCAGTTCGAACTAATAG	0.423										HNSCC(39;0.1)			146	90					1.26091e-62	1.40185e-62	1	1	0		A	146997331	A	A	146997331	2	1	155	1	0	0	0	0	0	0	0	1	3650	876	31	5		5	CNTNAP2	7	146997331	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3248983	146997331	12141332	650	84477											
ZNF282	8427	broad.mit.edu	37	chr7	148910865	148910865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatacccatggggaccacGcgactcaatggacggagagc	11	4	13	13	3	1	1	1	0	0	1	1	5	1	3	3	4	2	0	3	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:148910865G>A	uc003wfm.2	+	7	1244	c.1139G>A	c.(1138-1140)CGC>CAC	p.R380H	ZNF282_uc011kun.1_Missense_Mutation_p.R380H|ZNF282_uc003wfn.2_Missense_Mutation_p.R320H|ZNF282_uc003wfo.2_Intron	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	380					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		TGGGGACCACGCGACTCAATG	0.527													9	53					0	0	1	0	0		A	148910865	A	A	148910865	3	1	155	1	0	0	0	0	1	0	0	0	17844	1087	38	1	1165	1	ZNF282	7	148910865	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1913534	148910865	10227798	651	84478											
GIMAP1	170575	broad.mit.edu	37	chr7	150417708	150417708	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccaggtggagcagctgctgGggatggtcgagggcttggtg	5	8	20	8	1	0	0	0	0	0	0	1	3	0	2	1	7	3	4	1	7	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:150417708G>T	uc003whq.2	+	3	703	c.616G>T	c.(616-618)GGG>TGG	p.G206W	GIMAP1_uc003whp.2_Missense_Mutation_p.G214W	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	206	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCAGCTGCTGGGGATGGTCGA	0.692													4	21					0.150653	0.151196	1	1	0		T	150417708	T	T	150417708	3	4	155	1	0	0	0	0	1	0	0	0	6394	1232	43	5	622	5	GIMAP1	7	150417708	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1506843	150417708	8720955	652	84479											
NOS3	4846	broad.mit.edu	37	chr7	150711125	150711125	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctaccacgaagacattttCgggctcacgctgcgcaccca	9	7	9	16	5	1	1	1	0	0	1	2	2	1	1	2	1	2	4	2	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:150711125C>T	uc003wif.2	+	27	3776	c.3480C>T	c.(3478-3480)TTC>TTT	p.F1160F	NOS3_uc011kuy.1_Silent_p.F954F|ATG9B_uc003wig.3_Intron|ATG9B_uc011kvc.1_Intron	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	1160					anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	AAGACATTTTCGGGCTCACGC	0.617													17	45					0	0	1	0	0		T	150711125	T	T	150711125	2	4	155	1	0	0	0	0	0	0	0	1	10563	883	31	1		1	NOS3	7	150711125	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	293417	150711125	8427538	653	84480											
CHPF2	54480	broad.mit.edu	37	chr7	150932267	150932267	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcacttccctcggttactcTacttcactgggcagcggggg	6	11	11	13	2	3	0	2	0	1	0	5	0	4	0	1	4	3	2	1	4	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:150932267T>C	uc003wjr.1	+	2	1910	c.397T>C	c.(397-399)TAC>CAC	p.Y133H	CHPF2_uc003wjq.1_Missense_Mutation_p.Y125H	NM_019015	NP_061888	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	133	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(1)	1						TCGGTTACTCTACTTCACTGG	0.647													32	125					0	0	1	0	0		C	150932267	C	C	150932267	3	2	155	1	0	0	0	0	1	0	0	0	3372	1522	53	3	403	3	CHPF2	7	150932267	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	221142	150932267	8206396	654	84481											
CRYGN	155051	broad.mit.edu	37	chr7	151127139	151127139	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatcggttccaggctcagaGgtttgcagtcaggaaaggtg	10	9	14	8	1	2	1	2	0	0	1	4	2	3	2	1	5	1	4	1	5	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:151127139G>T	uc003wke.2	-	4	640	c.544C>A	c.(544-546)CTC>ATC	p.L182I	CRYGN_uc003wkf.2_3'UTR|CRYGN_uc003wkg.2_RNA	NM_144727	NP_653328	Q8WXF5	CRGN_HUMAN	gammaN-crystallin	182											0			OV - Ovarian serous cystadenocarcinoma(82;0.00358)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CAGGCTCAGAGGTTTGCAGTC	0.502													9	201					0.00621372	0.00628518	1	1	0		T	151127139	T	T	151127139	3	4	155	1	0	0	0	0	1	0	0	0	3921	1000	35	5	8	5	CRYGN	7	151127139	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	194872	151127139	8011524	655	84482											
MLL3	58508	broad.mit.edu	37	chr7	151921130	151921132	+	In_Frame_Del	DEL	TCT	-	-																															gtctacattgcagaataagaTcttcttctctatagtttcga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:151921130_151921132delTCT	uc003wla.2	-	20	3510_3512	c.3291_3293delAGA	c.(3289-3294)GAAGAT>GAT	p.E1097del	MLL3_uc003wkz.2_In_Frame_Del_p.E158del	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1097	PHD-type 6.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CAGAATAAGATCTTCTTCTCTAT	0.36			N		medulloblastoma								78	115	---	---	---	---						.	-	151921132	-	-	151921130	7	5	155	1	0	1	0	1	0	0	0	0	9640	1435	50	0	11602	0	MLL3	7	151921130	In_Frame_Del	DEL	TCT	TCGA-CG-5726-01A-11D-1600-08	793991	151921130	7217533	656	84483											
PAXIP1	22976	broad.mit.edu	37	chr7	154754138	154754138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgtgtttaaccagtgtgCagtaacacatctctttcttt	9	16	7	9	0	2	0	0	0	2	0	3	1	2	0	1	0	3	3	1	0	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:154754138C>T	uc003wlp.2	-	10	2063	c.2020G>A	c.(2020-2022)GCA>ACA	p.A674T	PAXIP1_uc003wlq.1_Missense_Mutation_p.A640T|PAXIP1_uc011kvs.1_Missense_Mutation_p.A638T	NM_007349	NP_031375	Q6ZW49	PAXI1_HUMAN	PAX interacting protein 1	674	Interaction with TP53BP1.|BRCT 3.				DNA damage response, signal transduction by p53 class mediator|DNA recombination|DNA repair|histone H3-K4 methylation|positive regulation of histone acetylation|positive regulation of histone H3-K36 methylation|positive regulation of histone H3-K4 methylation|positive regulation of isotype switching|positive regulation of protein ubiquitination|positive regulation of transcription initiation from RNA polymerase II promoter|response to ionizing radiation|transcription, DNA-dependent	histone methyltransferase complex|nuclear matrix				lung(2)|ovary(1)|breast(1)|pancreas(1)	5	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)		AACCAGTGTGCAGTAACACAT	0.413													60	44					0	0	1	0	0		T	154754138	T	T	154754138	3	4	155	1	0	0	0	0	1	0	0	0	11506	710	25	2	1237	2	PAXIP1	7	154754138	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2833008	154754138	4384525	657	84484											
LMBR1	64327	broad.mit.edu	37	chr7	156554834	156554834	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	aattaaatacttactgttggCttcactagcaactgacccat	13	13	5	10	0	1	1	1	1	0	0	1	1	1	1	1	1	4	3	1	1	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:156554834C>A	uc003wmw.3	-	8	893	c.678G>T	c.(676-678)AAG>AAT	p.K226N	LMBR1_uc003wmv.3_Missense_Mutation_p.K74N|LMBR1_uc003wmx.3_Missense_Mutation_p.K74N|LMBR1_uc010lqn.2_Missense_Mutation_p.K226N|LMBR1_uc011kvx.1_Missense_Mutation_p.K205N	NM_022458	NP_071903	Q8WVP7	LMBR1_HUMAN	limb region 1 protein	226	Cytoplasmic (Potential).					integral to membrane	receptor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.208)		TTACTGTTGGCTTCACTAGCA	0.318													70	44					4.52765e-18	4.84981e-18	1	1	0		A	156554834	A	A	156554834	3	1	155	1	0	0	0	0	1	0	0	0	8857	796	28	5	834	5	LMBR1	7	156554834	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1800696	156554834	2583829	658	84485											
NOM1	64434	broad.mit.edu	37	chr7	156746803	156746803	+	Silent	SNP	T	C	C	0	1	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	acaattctctgcaggttgagTgaacccaacatggcttccat	11	11	8	11	0	1	2	0	2	1	0	3	2	2	2	2	2	3	3	2	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:156746803T>C	uc003wmy.2	+	3	1134	c.1119T>C	c.(1117-1119)AGT>AGC	p.S373S		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	373	MIF4G.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GCAGGTTGAGTGAACCCAACA	0.433													75	61					0	0	1	0	0		C	156746803	C	C	156746803	2	2	155	1	0	0	0	0	0	0	0	1	10549	1693	59	3		3	NOM1	7	156746803	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	191969	156746803	2391860	659	84486											
UBE3C	9690	broad.mit.edu	37	chr7	157049683	157049683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttcactgatgaagaaaagcGcaaactgctgaagtttgtaa	15	10	10	6	1	1	4	1	3	0	1	1	4	1	4	0	0	3	5	0	0	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:157049683G>A	uc010lqs.2	+	22	3338	c.3026G>A	c.(3025-3027)CGC>CAC	p.R1009H	UBE3C_uc003wni.3_Missense_Mutation_p.R372H	NM_014671	NP_055486	Q15386	UBE3C_HUMAN	ubiquitin protein ligase E3C	1009	HECT.				protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(2)|large_intestine(1)	5		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)		GAAGAAAAGCGCAAACTGCTG	0.423													32	261					0	0	1	0	0		A	157049683	A	A	157049683	3	1	155	1	0	0	0	0	1	0	0	0	16907	1087	38	1	3112	1	UBE3C	7	157049683	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	302880	157049683	2088980	660	84487											
DNAJB6	10049	broad.mit.edu	37	chr7	157177588	157177588	+	Missense_Mutation	SNP	A	G	G	1	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	ttcatttgggtcactaggtcAcgggggcctcacttcattct	6	14	10	11	1	6	0	5	0	1	0	6	0	6	0	1	4	0	0	1	4	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr7:157177588A>G	uc003wnk.2	+	7	660	c.506A>G	c.(505-507)CAC>CGC	p.H169R	DNAJB6_uc003wnj.2_Missense_Mutation_p.H169R|DNAJB6_uc003wnl.2_Missense_Mutation_p.H156R|DNAJB6_uc011kvy.1_Missense_Mutation_p.H120R|DNAJB6_uc011kvz.1_Intron|DNAJB6_uc010lqt.2_Missense_Mutation_p.H169R	NM_058246	NP_490647	O75190	DNJB6_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 6	169	Gly/Phe-rich.|Interaction with KRT18.				intermediate filament organization|negative regulation of caspase activity|protein folding|response to unfolded protein	nucleus|perinuclear region of cytoplasm	ATPase activator activity|chaperone binding|heat shock protein binding|unfolded protein binding			ovary(2)	2	all_neural(206;0.181)	all_epithelial(9;0.000606)|all_hematologic(28;0.00287)|Acute lymphoblastic leukemia(9;0.0647)|Ovarian(593;0.196)	OV - Ovarian serous cystadenocarcinoma(82;0.00399)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		TCACTAGGTCACGGGGGCCTC	0.383													92	328					0	0	1	0	0		G	157177588	G	G	157177588	3	3	155	1	0	0	0	0	1	0	0	0	4630	159	6	3	528	3	DNAJB6	7	157177588	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	127905	157177588	1961075	661	84488											
MYOM2	9172	broad.mit.edu	37	chr8	2056577	2056577	+	Missense_Mutation	SNP	A	G	G	1	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	atactttttcttcgttttagAgctcgagcgtttgatggcat	7	18	9	7	3	1	2	0	1	1	1	3	3	1	2	0	1	3	4	0	1	2	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:2056577A>G	uc003wpx.3	+	24	3137	c.2999A>G	c.(2998-3000)GAG>GGG	p.E1000G	MYOM2_uc011kwi.1_Missense_Mutation_p.E425G	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1000	Ig-like C2-type 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TTCGTTTTAGAGCTCGAGCGT	0.498													42	196					0	0	1	0	0		G	2056577	G	G	2056577	3	3	155	1	0	0	0	0	1	0	0	0	10110	318	11	3	3089	3	MYOM2	8	2056577	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08		2056577	144307445	662	84489											
CSMD1	64478	broad.mit.edu	37	chr8	2818731	2818731	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgggcaggtgttatgagCaggatctgaaatttgtgatt	9	14	14	4	0	2	3	0	3	2	0	2	4	2	4	0	3	1	3	0	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:2818731C>A	uc011kwk.1	-	62	10027	c.9637G>T	c.(9637-9639)GCT>TCT	p.A3213S	CSMD1_uc011kwj.1_Missense_Mutation_p.A2542S|CSMD1_uc010lrg.2_Missense_Mutation_p.A1104S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3213	Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GTGTTATGAGCAGGATCTGAA	0.368													16	68					3.52763e-06	3.63196e-06	1	1	0		A	2818731	A	A	2818731	3	1	155	1	0	0	0	0	1	0	0	0	3947	710	25	5	1096	5	CSMD1	8	2818731	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	762154	2818731	143545291	663	84490											
CSMD1	64478	broad.mit.edu	37	chr8	2886894	2886894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcccattggcctggcacCgcaggagcctccagccttct	6	8	10	17	2	1	0	0	0	1	0	3	1	3	1	6	3	2	2	6	3	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:2886894C>T	uc011kwk.1	-	51	8195	c.7805G>A	c.(7804-7806)CGG>CAG	p.R2602Q	CSMD1_uc011kwj.1_Missense_Mutation_p.R1931Q|CSMD1_uc010lrg.2_Missense_Mutation_p.R670Q	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2602	Extracellular (Potential).|Sushi 16.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GGCCTGGCACCGCAGGAGCCT	0.537													11	63					0	0	1	0	0		T	2886894	T	T	2886894	3	4	155	1	0	0	0	0	1	0	0	0	3947	652	23	1	2972	1	CSMD1	8	2886894	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	68163	2886894	143477128	664	84491											
CSMD1	64478	broad.mit.edu	37	chr8	3855606	3855606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggagctgctggtcccgcGtaaggttcctccgcaggctc	5	9	14	13	3	0	0	0	0	0	0	4	2	3	1	3	4	2	6	3	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:3855606G>A	uc011kwk.1	-	5	1027	c.637C>T	c.(637-639)CGC>TGC	p.R213C		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	213	Extracellular (Potential).|CUB 2.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CTGGTCCCGCGTAAGGTTCCT	0.567													5	18					0	0	1	0	0		A	3855606	A	A	3855606	3	1	155	1	0	0	0	0	1	0	0	0	3947	1145	40	1	10134	1	CSMD1	8	3855606	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	968712	3855606	142508416	665	84492											
ANGPT2	285	broad.mit.edu	37	chr8	6420295	6420295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtaggggctggaggaagagCggcagttgtccatctctggc	7	8	17	9	2	1	1	0	0	1	1	3	3	2	3	1	6	1	4	1	6	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:6420295C>T	uc003wqj.3	-	1	490	c.161G>A	c.(160-162)CGC>CAC	p.R54H	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.R54H|ANGPT2_uc010lri.2_Missense_Mutation_p.R54H|ANGPT2_uc003wql.3_Missense_Mutation_p.R54H	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	54					angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		GGAGGAAGAGCGGCAGTTGTC	0.552													25	77					0	0	1	0	0		T	6420295	T	T	6420295	3	4	155	1	0	0	0	0	1	0	0	0	611	768	27	1	1365	1	ANGPT2	8	6420295	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2564689	6420295	139943727	666	84493											
SGK223	157285	broad.mit.edu	37	chr8	8185961	8185961	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttggtgggcgagtgagcCagctcagacgagggacctga	8	7	17	9	2	1	3	1	2	0	1	1	6	1	4	2	3	2	2	2	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:8185961C>G	uc003wsh.3	-	4	2331	c.2331G>C	c.(2329-2331)CTG>CTC	p.L777L		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	777							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GCGAGTGAGCCAGCTCAGACG	0.572													22	58					0	0	1	0	0		G	8185961	G	G	8185961	2	3	155	1	0	0	0	0	0	0	0	1	14235	581	21	5		5	SGK223	8	8185961	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1765666	8185961	138178061	667	84494											
SGK223	157285	broad.mit.edu	37	chr8	8234853	8234853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcactctcgaggtgggggaCgaaggggctactggcgccgc	7	6	17	11	4	2	0	1	0	1	0	3	3	2	1	1	6	1	1	1	6	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:8234853C>T	uc003wsh.3	-	2	1066	c.1066G>A	c.(1066-1068)GTC>ATC	p.V356I		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	356							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						AGGTGGGGGACGAAGGGGCTA	0.647													6	20					0	0	1	0	0		T	8234853	T	T	8234853	3	4	155	1	0	0	0	0	1	0	0	0	14235	536	19	1	3158	1	SGK223	8	8234853	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	48892	8234853	138129169	668	84495											
SOX7	83595	broad.mit.edu	37	chr8	10583646	10583646	+	Frame_Shift_Del	DEL	G	-	-																															gccaagggccagggagcccaGggggtggctacagtggagag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:10583646delG	uc003wtf.2	-	2	848	c.769delC	c.(769-771)CTGfs	p.L257fs	SOX7_uc011kwz.1_Frame_Shift_Del_p.L309fs	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	257					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		AGGGAGCCCAGGGGGTGGCTA	0.687													36	82	---	---	---	---						.	-	10583646	-	-	10583646	7	5	155	1	0	1	0	1	0	0	0	0	14981	991	35	0	401	0	SOX7	8	10583646	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	2348793	10583646	135780376	669	84496											
DEFB135	613209	broad.mit.edu	37	chr8	11842062	11842062	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tactatacatttgtgctgtgTaaacccaaaatatttaccta	14	15	4	8	0	0	0	0	0	0	0	0	0	0	0	2	0	5	2	2	0	10	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:11842062T>C	uc003wuw.1	+	2	197	c.197T>C	c.(196-198)GTA>GCA	p.V66A		NM_001033017	NP_001028189	Q30KP9	DB135_HUMAN	beta-defensin 135 precursor	66					defense response to bacterium	extracellular region					0						TTGTGCTGTGTAAACCCAAAA	0.413													6	381					0	0	1	0	0		C	11842062	C	C	11842062	3	2	155	1	0	0	0	0	1	0	0	0	4425	1638	57	3	203	3	DEFB135	8	11842062	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1258416	11842062	134521960	670	84497											
DLC1	10395	broad.mit.edu	37	chr8	12950293	12950293	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcgtcaggcagcagcatgaTggcagccttgatggcctgca	8	8	13	12	1	1	2	1	2	0	0	2	2	1	2	2	3	4	5	2	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:12950293T>A	uc003wwm.2	-	13	4012	c.3568A>T	c.(3568-3570)ATC>TTC	p.I1190F	DLC1_uc003wwk.1_Missense_Mutation_p.I753F|DLC1_uc003wwl.1_Missense_Mutation_p.I787F|DLC1_uc011kxx.1_Missense_Mutation_p.I679F	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1190	Rho-GAP.				actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						AGCAGCATGATGGCAGCCTTG	0.542													18	52					0	0	1	0	0		A	12950293	A	A	12950293	3	1	155	1	0	0	0	0	1	0	0	0	4556	1464	51	5	1042	5	DLC1	8	12950293	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1108231	12950293	133413729	671	84498											
DLC1	10395	broad.mit.edu	37	chr8	12957673	12957673	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttcgtaccatggggacgtTgatgcggttgccattgaggg	6	12	15	8	3	0	2	0	2	0	0	1	3	0	3	2	4	3	3	2	4	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:12957673T>C	uc003wwm.2	-	9	2617	c.2173A>G	c.(2173-2175)AAC>GAC	p.N725D	DLC1_uc003wwk.1_Missense_Mutation_p.N288D|DLC1_uc003wwl.1_Missense_Mutation_p.N322D|DLC1_uc011kxx.1_Missense_Mutation_p.N214D	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	725					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						ATGGGGACGTTGATGCGGTTG	0.607													36	138					0	0	1	0	0		C	12957673	C	C	12957673	3	2	155	1	0	0	0	0	1	0	0	0	4556	1812	63	3	2453	3	DLC1	8	12957673	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	7380	12957673	133406349	672	84499											
LPL	4023	broad.mit.edu	37	chr8	19816811	19816811	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcatttttctgggactgaGagtgaaacccataccaatca	13	12	7	9	0	3	2	2	2	1	1	3	4	3	3	2	1	2	0	2	1	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:19816811G>C	uc003wzk.3	+	7	1429	c.1059G>C	c.(1057-1059)GAG>GAC	p.E353D		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	353	PLAT.|Heparin-binding (By similarity).				fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	CTGGGACTGAGAGTGAAACCC	0.448													34	151					0	0	1	0	0		C	19816811	C	C	19816811	3	2	155	1	0	0	0	0	1	0	0	0	8939	933	33	5	1085	5	LPL	8	19816811	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6859138	19816811	126547211	673	84500											
XPO7	23039	broad.mit.edu	37	chr8	21840230	21840230	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcctctgtgccgtatgtcaAagccacagagccccacatgc	10	7	9	15	1	2	1	1	0	1	1	2	1	2	1	5	0	5	1	5	0	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:21840230A>G	uc003xaa.3	+	11	1286	c.1184A>G	c.(1183-1185)AAA>AGA	p.K395R	XPO7_uc010lti.2_Missense_Mutation_p.K404R|XPO7_uc010ltk.2_Missense_Mutation_p.K396R	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	395				Missing (in Ref. 3; BAA34465).	mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		CCGTATGTCAAAGCCACAGAG	0.498													7	138					0	0	1	0	0		G	21840230	G	G	21840230	3	3	155	1	0	0	0	0	1	0	0	0	17475	14	1	3	1278	3	XPO7	8	21840230	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2023419	21840230	124523792	674	84501											
EGR3	1960	broad.mit.edu	37	chr8	22550362	22550362	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccggagaagaggttgagCgcgctggggatctcctcggg	6	7	18	10	4	1	3	0	1	1	2	3	5	1	4	2	5	2	2	2	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:22550362C>T	uc003xcm.1	-	1	454	c.96G>A	c.(94-96)GCG>GCA	p.A32A	EGR3_uc011kzn.1_5'Flank|EGR3_uc011kzo.1_5'Flank	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	32					circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		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)		AGAGGTTGAGCGCGCTGGGGA	0.453													20	102					0	0	1	0	0		T	22550362	T	T	22550362	2	4	155	1	0	0	0	0	0	0	0	1	4979	755	27	1		1	EGR3	8	22550362	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	710132	22550362	123813660	675	84502											
SLC25A37	51312	broad.mit.edu	37	chr8	23429052	23429052	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaccggacctacaaccCgcagtcccacatcatctcag	10	5	5	21	2	2	0	2	0	1	0	4	1	3	1	6	1	2	1	6	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:23429052C>A	uc003xdo.2	+	4	854	c.701C>A	c.(700-702)CCG>CAG	p.P234Q	SLC25A37_uc003xdp.2_RNA|SLC25A37_uc010ltz.2_RNA|SLC25A37_uc003xdq.2_RNA|SLC25A37_uc003xdr.1_RNA|uc003xds.2_5'Flank	NM_016612	NP_057696	Q9NYZ2	MFRN1_HUMAN	solute carrier family 25, member 37	234	Solcar 3.|Helical; Name=5; (Potential).				ion transport|iron ion homeostasis	integral to membrane|mitochondrial inner membrane					0		Prostate(55;0.114)		Colorectal(74;0.0198)|COAD - Colon adenocarcinoma(73;0.0751)		ACCTACAACCCGCAGTCCCAC	0.622													18	70					5.3912e-06	5.54041e-06	1	1	0		A	23429052	A	A	23429052	3	1	155	1	0	0	0	0	1	0	0	0	14526	652	23	5	715	5	SLC25A37	8	23429052	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	878690	23429052	122934970	676	84503											
DOCK5	80005	broad.mit.edu	37	chr8	25216527	25216527	+	Missense_Mutation	SNP	A	G	G	1	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	tgctgcagcaaatggacgacAgccactatagccactacatc	13	7	8	13	1	0	0	0	0	0	0	1	2	0	1	2	1	6	3	2	1	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:25216527A>G	uc003xeg.2	+	28	3036	c.2899A>G	c.(2899-2901)AGC>GGC	p.S967G	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.S681G|DOCK5_uc003xei.2_Missense_Mutation_p.S537G|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	967						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		AATGGACGACAGCCACTATAG	0.458													5	112					0	0	1	0	0		G	25216527	G	G	25216527	3	3	155	1	0	0	0	0	1	0	0	0	4696	188	7	3	3009	3	DOCK5	8	25216527	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1787475	25216527	121147495	677	84504											
CDCA2	157313	broad.mit.edu	37	chr8	25325861	25325861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgaaggaaaagtaattGgtctccagatattcaatatt	15	13	8	5	0	2	2	1	1	1	1	3	3	2	3	1	2	1	2	1	2	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:25325861G>A	uc003xep.1	+	6	1146	c.667G>A	c.(667-669)GGT>AGT	p.G223S	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_Missense_Mutation_p.G223S|CDCA2_uc003xeq.1_Missense_Mutation_p.G208S|CDCA2_uc003xer.1_5'UTR	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	223					cell division|mitosis	cytoplasm|nucleus					0		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)		AAAAGTAATTGGTCTCCAGAT	0.413													68	282					0	0	1	0	0		A	25325861	A	A	25325861	3	1	155	1	0	0	0	0	1	0	0	0	3089	1348	47	4	685	4	CDCA2	8	25325861	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	109334	25325861	121038161	678	84505											
CDCA2	157313	broad.mit.edu	37	chr8	25364584	25364584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatgtcttaattgaaaataCgaaagaatctaaaagccaga	20	9	7	5	1	2	4	0	1	2	3	2	5	2	4	1	0	2	0	1	0	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:25364584C>T	uc003xep.1	+	15	2881	c.2402C>T	c.(2401-2403)ACG>ATG	p.T801M	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_3'UTR|CDCA2_uc003xeq.1_Missense_Mutation_p.T786M|CDCA2_uc003xer.1_Missense_Mutation_p.T464M	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	801					cell division|mitosis	cytoplasm|nucleus					0		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)		ATTGAAAATACGAAAGAATCT	0.393													7	171					0	0	1	0	0		T	25364584	T	T	25364584	3	4	155	1	0	0	0	0	1	0	0	0	3089	536	19	1	2456	1	CDCA2	8	25364584	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	38723	25364584	120999438	679	84506											
DPYSL2	1808	broad.mit.edu	37	chr8	26481759	26481759	+	Silent	SNP	T	C	C	0	1	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	tgctgtgactactctctgcaTgtggacatcagtgagtggca	8	12	12	9	0	2	2	1	2	1	0	3	3	2	3	0	2	3	3	0	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:26481759T>C	uc003xfb.1	+	4	764	c.414T>C	c.(412-414)CAT>CAC	p.H138H	DPYSL2_uc003xfa.2_Silent_p.H243H|DPYSL2_uc011lag.1_Silent_p.H138H|DPYSL2_uc010luk.1_RNA|DPYSL2_uc011lah.1_Silent_p.H102H	NM_001386	NP_001377	Q16555	DPYL2_HUMAN	dihydropyrimidinase-like 2	138					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	dihydropyrimidinase activity|protein binding			large_intestine(1)	1		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)		ACTCTCTGCATGTGGACATCA	0.552													51	195					0	0	1	0	0		C	26481759	C	C	26481759	2	2	155	1	0	0	0	0	0	0	0	1	4753	1461	51	3		3	DPYSL2	8	26481759	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1117175	26481759	119882263	680	84507											
STMN4	81551	broad.mit.edu	37	chr8	27097516	27097516	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagccgttccaacatggcgGcgaggtgggcctccctgttc	5	8	14	14	3	0	0	0	0	0	0	3	1	2	0	4	4	2	3	4	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:27097516G>T	uc003xfk.2	-	5	596	c.482C>A	c.(481-483)GCC>GAC	p.A161D	STMN4_uc003xfj.2_Missense_Mutation_p.A188D|STMN4_uc011lai.1_Missense_Mutation_p.A188D|STMN4_uc011laj.1_Missense_Mutation_p.A152D|STMN4_uc011lak.1_Missense_Mutation_p.A188D|STMN4_uc010luo.2_Missense_Mutation_p.A161D			Q9H169	STMN4_HUMAN	RecName: Full=Stathmin-4; AltName: Full=Stathmin-like protein B3;          Short=RB3;	161	Potential.				intracellular signal transduction					large_intestine(1)|pancreas(1)	2		Ovarian(32;0.00167)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0214)|Epithelial(17;9.82e-10)|Colorectal(74;0.142)		CAACATGGCGGCGAGGTGGGC	0.527													11	203					5.16669e-11	5.44359e-11	1	1	0		T	27097516	T	T	27097516	3	4	155	1	0	0	0	0	1	0	0	0	15336	1203	42	5	95	5	STMN4	8	27097516	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	615757	27097516	119266506	681	84508											
EPHX2	2053	broad.mit.edu	37	chr8	27398071	27398071	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaagtggctttttttgcagGaggactttttgtaaatagcc	10	15	10	6	0	0	0	0	0	0	0	0	2	0	2	1	3	2	3	1	3	4	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:27398071G>T	uc003xfu.2	+	15	1358	c.1277G>T	c.(1276-1278)GGA>GTA	p.G426V	EPHX2_uc010luu.2_Missense_Mutation_p.G394V|EPHX2_uc010luv.2_Missense_Mutation_p.G360V|EPHX2_uc003xfv.2_Missense_Mutation_p.G373V|EPHX2_uc010luw.2_Missense_Mutation_p.G360V	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	426	Epoxide hydrolase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	TTTTTTGCAGGAGGACTTTTT	0.507													26	94					7.88262e-20	8.47065e-20	1	1	0		T	27398071	T	T	27398071	3	4	155	1	0	0	0	0	1	0	0	0	5188	1188	41	5	1335	5	EPHX2	8	27398071	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	300555	27398071	118965951	682	84509											
ZNF395	55893	broad.mit.edu	37	chr8	28206656	28206656	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctcacctggcaccactctgGgcccggggtggagaagtgac	7	7	14	13	1	2	2	1	1	2	1	3	3	2	2	3	5	0	1	3	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:28206656G>T	uc003xgq.2	-	9	1504	c.1416C>A	c.(1414-1416)GCC>GCA	p.A472A	ZNF395_uc003xgt.2_Silent_p.A472A|ZNF395_uc003xgr.2_Silent_p.A472A|ZNF395_uc003xgs.2_Silent_p.A472A	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	472					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		CACCACTCTGGGCCCGGGGTG	0.637													7	324					5.18039e-06	5.32704e-06	1	1	0		T	28206656	T	T	28206656	2	4	155	1	0	0	0	0	0	0	0	1	17906	1219	43	5		5	ZNF395	8	28206656	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	808585	28206656	118157366	683	84510											
EXTL3	2137	broad.mit.edu	37	chr8	28574452	28574452	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccttctctataacgtcagTactggccgtgccatggtggc	8	11	10	12	2	2	0	1	0	1	0	3	0	2	0	3	3	4	1	3	3	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:28574452T>C	uc003xgz.1	+	3	1469	c.876T>C	c.(874-876)AGT>AGC	p.S292S		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	292	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		ATAACGTCAGTACTGGCCGTG	0.522													7	146					0	0	1	0	0		C	28574452	C	C	28574452	2	2	155	1	0	0	0	0	0	0	0	1	5335	1635	57	3		3	EXTL3	8	28574452	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	367796	28574452	117789570	684	84511											
UBXN8	7993	broad.mit.edu	37	chr8	30620808	30620808	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtagttactgttgctctcCgatgtcccagtgggaatgtc	7	13	12	9	1	1	0	0	0	1	0	4	2	2	1	2	2	2	4	2	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:30620808C>T	uc003xii.2	+	7	606	c.589C>T	c.(589-591)CGA>TGA	p.R197*	UBXN8_uc010lvi.2_Nonsense_Mutation_p.R160*|UBXN8_uc011lbb.1_RNA|UBXN8_uc003xij.2_RNA	NM_005671	NP_005662	O00124	UBXN8_HUMAN	reproduction 8	197	UBX.				single fertilization						0						TGTTGCTCTCCGATGTCCCAG	0.393													30	173					0	0	1	0	0		T	30620808	T	T	30620808	4	4	155	1	0	0	0	0	0	1	0	0	16945	644	23	1	615	1	UBXN8	8	30620808	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2046356	30620808	115743214	685	84512											
PURG	29942	broad.mit.edu	37	chr8	30889958	30889958	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccctagacagtccttcagcTccgctgccacagacagggag	9	6	10	16	1	1	2	1	0	0	2	3	3	3	3	5	1	2	2	5	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:30889958T>C	uc003xin.2	-	1	360	c.341A>G	c.(340-342)GAG>GGG	p.E114G	WRN_uc003xio.3_5'Flank|PURG_uc003xim.1_Missense_Mutation_p.E114G	NM_013357	NP_037489	Q9UJV8	PURG_HUMAN	purine-rich element binding protein G isoform A	114	By similarity.					nucleus	DNA binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.0895)|Kidney(114;0.108)		GTCCTTCAGCTCCGCTGCCAC	0.582													15	188					0	0	1	0	0		C	30889958	C	C	30889958	3	2	155	1	0	0	0	0	1	0	0	0	12854	1551	54	3	815	3	PURG	8	30889958	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	269150	30889958	115474064	686	84513											
UNC5D	137970	broad.mit.edu	37	chr8	35608257	35608257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggtggcggtttttggctGcatgtcctgtaactccctgg	5	13	14	9	1	0	0	0	0	0	0	2	1	2	0	2	5	2	4	2	5	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:35608257G>A	uc003xjr.1	+	13	2421	c.2093G>A	c.(2092-2094)TGC>TAC	p.C698Y	UNC5D_uc003xjs.1_Missense_Mutation_p.C693Y|UNC5D_uc003xju.1_Missense_Mutation_p.C274Y	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	698	Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		GTTTTTGGCTGCATGTCCTGT	0.473													24	514					0	0	1	0	0		A	35608257	A	A	35608257	3	1	155	1	0	0	0	0	1	0	0	0	17021	1319	46	2	2143	2	UNC5D	8	35608257	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4718299	35608257	110755765	687	84514											
PLEKHA2	59339	broad.mit.edu	37	chr8	38775508	38775508	+	Missense_Mutation	SNP	A	G	G	1	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	tggacatcgaggagcatgagAacagcggcaagtttctgcgg	11	7	15	8	3	1	1	0	1	1	1	2	5	1	3	0	4	4	3	0	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:38775508A>G	uc003xmi.3	+	2	295	c.61A>G	c.(61-63)AAC>GAC	p.N21D	PLEKHA2_uc011lce.1_Intron	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	21	PH 1.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			GGAGCATGAGAACAGCGGCAA	0.567													14	67					0	0	1	0	0		G	38775508	G	G	38775508	3	3	155	1	0	0	0	0	1	0	0	0	12075	246	9	3	63	3	PLEKHA2	8	38775508	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3167251	38775508	107588514	688	84515											
TM2D2	83877	broad.mit.edu	37	chr8	38851177	38851177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgctgtaggcctgaccgccGaactgtggaataacaaccaa	12	7	10	12	3	0	1	0	1	0	0	1	3	0	2	4	2	3	2	4	2	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:38851177G>A	uc003xmk.2	-	3	401	c.318C>T	c.(316-318)TTC>TTT	p.F106F	TM2D2_uc003xml.2_Silent_p.F63F|TM2D2_uc003xmm.2_Silent_p.F63F|TM2D2_uc003xmn.2_Silent_p.F63F	NM_078473	NP_510882	Q9BX73	TM2D2_HUMAN	TM2 domain containing 2 isoform a	106						integral to membrane					0		all_lung(54;0.00338)|Lung NSC(58;0.0133)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			CCTGACCGCCGAACTGTGGAA	0.458													26	79					0	0	1	0	0		A	38851177	A	A	38851177	2	1	155	1	0	0	0	0	0	0	0	1	15989	1049	37	1		1	TM2D2	8	38851177	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	75669	38851177	107512845	689	84516											
ANK1	286	broad.mit.edu	37	chr8	41753883	41753883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctcctaccttcttctttCggtcacgggagcggtttctc	3	14	8	16	3	4	0	1	0	3	0	7	1	5	1	4	3	2	1	4	3	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:41753883C>T	uc003xom.2	-	1	398	c.116G>A	c.(115-117)CGA>CAA	p.R39Q		NM_001142446	NP_001135918	P16157	ANK1_HUMAN	ankyrin 1 isoform 9	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CTTCTTCTTTCGGTCACGGGA	0.537													10	35					0	0	1	0	0		T	41753883	T	T	41753883	3	4	155	1	0	0	0	0	1	0	0	0	620	884	31	1	6181	1	ANK1	8	41753883	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2902706	41753883	104610139	690	84517											
MYST3	7994	broad.mit.edu	37	chr8	41792077	41792077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcctcctccttcctctcctCgggtaggggcatgtcttctt	2	15	8	16	1	3	0	0	0	3	0	9	0	7	0	5	3	0	2	5	3	1	4	rs139494583		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:41792077C>T	uc010lxb.2	-	18	4205	c.3661G>A	c.(3661-3663)GAG>AAG	p.E1221K	MYST3_uc010lxc.2_Missense_Mutation_p.E1221K|MYST3_uc003xon.3_Missense_Mutation_p.E1221K	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1221	Glu-rich.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			ttcctctcctcGGGTAGGGGC	0.348													7	162					0	0	1	0	0		T	41792077	T	T	41792077	3	4	155	1	0	0	0	0	1	0	0	0	10122	893	31	1	2357	1	MYST3	8	41792077	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	38194	41792077	104571945	691	84518											
CHRNB3	1142	broad.mit.edu	37	chr8	42587259	42587259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaactttcattatccacatCggtcttggtttctctgacag	10	15	6	10	1	3	1	1	1	2	0	6	1	4	1	1	2	1	1	1	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:42587259C>T	uc003xpi.1	+	5	937	c.809C>T	c.(808-810)TCG>TTG	p.S270L		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	270	Helical; (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			TTATCCACATCGGTCTTGGTT	0.428													87	405					0	0	1	0	0		T	42587259	T	T	42587259	3	4	155	1	0	0	0	0	1	0	0	0	3395	893	31	1	827	1	CHRNB3	8	42587259	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	795182	42587259	103776763	692	84519											
PRKDC	5591	broad.mit.edu	37	chr8	48825013	48825013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagcacaggaaacgtcCgcttatagagctggtacatg	13	7	12	9	2	0	1	0	0	0	1	1	3	1	2	1	2	5	5	1	2	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:48825013C>T	uc003xqi.2	-	25	2948	c.2891G>A	c.(2890-2892)CGG>CAG	p.R964Q	PRKDC_uc003xqj.2_Missense_Mutation_p.R964Q|PRKDC_uc011ldh.1_Missense_Mutation_p.R964Q	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	964					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AGGAAACGTCCGCTTATAGAG	0.443								NHEJ					9	428					0	0	1	0	0		T	48825013	T	T	48825013	3	4	155	1	0	0	0	0	1	0	0	0	12543	652	23	1	9742	1	PRKDC	8	48825013	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6237754	48825013	97539009	693	84520											
NPBWR1	2831	broad.mit.edu	37	chr8	53852514	53852514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggcccgccaacgcatcggGcccggacccggcgctgagct	5	4	14	18	6	0	1	0	1	0	0	1	2	0	2	4	4	2	3	4	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:53852514G>A	uc011ldu.1	+	1	47	c.47G>A	c.(46-48)GGC>GAC	p.G16D		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	16	Extracellular (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				AACGCATCGGGCCCGGACCCG	0.716													6	17					0	0	1	0	0		A	53852514	A	A	53852514	3	1	155	1	0	0	0	0	1	0	0	0	10587	1203	42	2	49	2	NPBWR1	8	53852514	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5027501	53852514	92511508	694	84521											
RP1	6101	broad.mit.edu	37	chr8	55533629	55533629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctcactcatcctgttgtgGccaagcgaatcagtttctac	8	12	8	13	1	4	0	3	0	1	0	5	1	5	0	3	1	2	2	3	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:55533629G>A	uc003xsd.1	+	2	251	c.103G>A	c.(103-105)GCC>ACC	p.A35T	RP1_uc011ldy.1_Missense_Mutation_p.A35T	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	35					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TCCTGTTGTGGCCAAGCGAAT	0.527													74	265					0	0	1	0	0		A	55533629	A	A	55533629	3	1	155	1	0	0	0	0	1	0	0	0	13557	1203	42	2	105	2	RP1	8	55533629	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1681115	55533629	90830393	695	84522											
MOS	4342	broad.mit.edu	37	chr8	57026185	57026185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtgctggcagccaccacGcgcacgatgttatcgtggcg	6	7	14	14	7	0	0	0	0	0	0	1	1	0	0	2	2	2	4	2	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:57026185G>A	uc011leb.1	-	1	357	c.357C>T	c.(355-357)CGC>CGT	p.R119R		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	119	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			CAGCCACCACGCGCACGATGT	0.562													8	272					0	0	1	0	0		A	57026185	A	A	57026185	2	1	155	1	0	0	0	0	0	0	0	1	9730	1074	38	1		1	MOS	8	57026185	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1492556	57026185	89337837	696	84523											
PLAG1	5324	broad.mit.edu	37	chr8	57080054	57080054	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ttttctcaggagaatgagtaGccatgtgcctttaaacacag	12	12	9	8	0	1	2	1	1	1	1	2	3	1	2	2	1	3	1	2	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:57080054G>T	uc003xsq.3	-	3	702	c.251C>A	c.(250-252)GCT>GAT	p.A84D	PLAG1_uc003xsr.3_Missense_Mutation_p.A84D|PLAG1_uc010lyi.2_Missense_Mutation_p.A84D|PLAG1_uc010lyj.2_Missense_Mutation_p.A2D	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	84	Interacts with KPNA2.|C2H2-type 2.|Decreased nuclear import with localization in the nucleus but also in the cytoplasm.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding		CTNNB1/PLAG1(60)|FGFR1_ENST00000447712/PLAG1(28)|CHCHD7/PLAG1(12)|LIFR_ENST00000263409/PLAG1(10)|HAS2/PLAG1(10)|COL1A2/PLAG1(3)|TCEA1_ENST00000521604/PLAG1(3)	salivary_gland(113)|soft_tissue(13)|lung(1)|central_nervous_system(1)|breast(1)	129		all_lung(136;0.0548)|Lung NSC(129;0.0718)|all_epithelial(80;0.125)	Epithelial(17;0.00179)|all cancers(17;0.0125)			AGAATGAGTAGCCATGTGCCT	0.358			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								12	72					0.000151284	0.000154521	1	1	0		T	57080054	T	T	57080054	3	4	155	1	0	0	0	0	1	0	0	0	12037	971	34	5	1255	5	PLAG1	8	57080054	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	53869	57080054	89283968	697	84524											
CYP7A1	1581	broad.mit.edu	37	chr8	59404268	59404268	+	Silent	SNP	T	C	C	0	1	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	tagtaatactttaacttgagTccattacaatagaaggtagt	15	14	7	5	0	0	2	0	1	0	1	1	2	1	2	1	1	3	2	1	1	9	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:59404268T>C	uc003xtm.3	-	6	1344	c.1281A>G	c.(1279-1281)GGA>GGG	p.G427G		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	427					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				TTAACTTGAGTCCATTACAAT	0.358									Neonatal_Giant_Cell_Hepatitis				15	473					0	0	1	0	0		C	59404268	C	C	59404268	2	2	155	1	0	0	0	0	0	0	0	1	4199	1654	58	3		3	CYP7A1	8	59404268	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2324214	59404268	86959754	698	84525											
CSPP1	79848	broad.mit.edu	37	chr8	68062155	68062155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgagaacctagaagatgctGcaaataaaagctcaggtttt	15	10	9	7	0	1	3	1	1	0	3	1	4	1	3	1	1	4	4	1	1	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:68062155G>A	uc003xxi.2	+	18	2234	c.2203G>A	c.(2203-2205)GCA>ACA	p.A735T	CSPP1_uc003xxg.1_Missense_Mutation_p.A727T|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.A700T|CSPP1_uc003xxk.2_Intron	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	735						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			AGAAGATGCTGCAAATAAAAG	0.318													72	458					0	0	1	0	0		A	68062155	A	A	68062155	3	1	155	1	0	0	0	0	1	0	0	0	3965	1319	46	2	2273	2	CSPP1	8	68062155	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	8657887	68062155	78301867	699	84526											
ARFGEF1	10565	broad.mit.edu	37	chr8	68172074	68172074	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaatctttcctcttgatgTaagaattgggcaatatcttc	10	17	6	8	0	4	2	0	1	4	1	6	2	5	2	1	1	0	2	1	1	5	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:68172074T>C	uc003xxo.1	-	15	2601	c.2211A>G	c.(2209-2211)TTA>TTG	p.L737L	ARFGEF1_uc003xxl.1_Silent_p.L191L	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	737	SEC7.				exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			CCTCTTGATGTAAGAATTGGG	0.308													90	328					0	0	1	0	0		C	68172074	C	C	68172074	2	2	155	1	0	0	0	0	0	0	0	1	852	1635	57	3		3	ARFGEF1	8	68172074	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	109919	68172074	78191948	700	84527											
NCOA2	10499	broad.mit.edu	37	chr8	71087086	71087086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatctatgttggcagctgCtgctttctctgcaataaaca	9	15	7	10	0	3	0	1	0	2	0	4	0	3	0	0	1	5	6	0	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:71087086C>T	uc003xyn.1	-	5	430	c.268G>A	c.(268-270)GCA>ACA	p.A90T		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	90					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TTGGCAGCTGCTGCTTTCTCT	0.423			T	RUNXBP2	AML								23	349					0	0	1	0	0		T	71087086	T	T	71087086	3	4	155	1	0	0	0	0	1	0	0	0	10248	797	28	2	4202	2	NCOA2	8	71087086	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2915012	71087086	75276936	701	84528											
ZFHX4	79776	broad.mit.edu	37	chr8	77616635	77616635	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccactgccctaatgcccgCcttcctgtcctgaaggatga	8	9	8	16	1	0	2	0	2	0	0	2	3	2	3	6	1	2	0	6	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:77616635C>T	uc003yav.2	+	2	699	c.312C>T	c.(310-312)CGC>CGT	p.R104R	ZFHX4_uc003yat.1_Silent_p.R104R|ZFHX4_uc003yau.1_Silent_p.R104R|ZFHX4_uc003yaw.1_Silent_p.R104R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	104						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTAATGCCCGCCTTCCTGTCC	0.502										HNSCC(33;0.089)			96	360					0	0	1	0	0		T	77616635	T	T	77616635	2	4	155	1	0	0	0	0	0	0	0	1	17660	726	26	2		2	ZFHX4	8	77616635	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6529549	77616635	68747387	702	84529											
ZFHX4	79776	broad.mit.edu	37	chr8	77763270	77763270	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaaggatgtgaaaatcccCgacacactgcaagatcaatt	16	8	8	9	1	1	2	1	1	0	1	2	4	2	3	2	1	1	2	2	1	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:77763270C>A	uc003yav.2	+	10	4365	c.3978C>A	c.(3976-3978)CCC>CCA	p.P1326P	ZFHX4_uc003yau.1_Silent_p.P1371P|ZFHX4_uc003yaw.1_Silent_p.P1326P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1326						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TGAAAATCCCCGACACACTGC	0.418										HNSCC(33;0.089)			22	80					7.45023e-12	7.86439e-12	1	1	0		A	77763270	A	A	77763270	2	1	155	1	0	0	0	0	0	0	0	1	17660	639	23	5		5	ZFHX4	8	77763270	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	146635	77763270	68600752	703	84530											
CPNE3	8895	broad.mit.edu	37	chr8	87541285	87541285	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaatttggggtttatgacaTcgacaacaaaactattgagc	15	11	9	6	1	0	2	0	2	0	0	1	4	0	2	0	2	3	1	0	2	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:87541285T>C	uc003ydv.2	+	4	407	c.245T>C	c.(244-246)ATC>ACC	p.I82T		NM_003909	NP_003900	O75131	CPNE3_HUMAN	copine III	82	C2 1.				lipid metabolic process|vesicle-mediated transport	cytosol	calcium-dependent phospholipid binding|protein serine/threonine kinase activity|transporter activity			ovary(1)|skin(1)	2						GTTTATGACATCGACAACAAA	0.343													10	536					0	0	1	0	0		C	87541285	C	C	87541285	3	2	155	1	0	0	0	0	1	0	0	0	3816	1435	50	3	251	3	CPNE3	8	87541285	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	9778015	87541285	58822737	704	84531											
GDF6	392255	broad.mit.edu	37	chr8	97157104	97157104	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggcttcttgctgcagcgtAgcctggacttcttgccgtgc	3	12	14	12	2	2	0	0	0	2	0	2	1	2	1	2	3	6	4	2	3	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:97157104A>G	uc003yhp.2	-	2	1155	c.1055T>C	c.(1054-1056)CTA>CCA	p.L352P		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	352					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					GCTGCAGCGTAGCCTGGACTT	0.537													7	49					0	0	1	0	0		G	97157104	G	G	97157104	3	3	155	1	0	0	0	0	1	0	0	0	6332	420	15	3	316	3	GDF6	8	97157104	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	9615819	97157104	49206918	705	84532											
KCNS2	3788	broad.mit.edu	37	chr8	99441238	99441238	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtggggatttccatcttctCcgtggtggcctacaccattg	5	13	11	12	2	2	0	0	0	2	0	4	1	3	1	4	4	1	0	4	4	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:99441238C>A	uc003yin.2	+	2	1381	c.1031C>A	c.(1030-1032)TCC>TAC	p.S344Y		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	344	Helical; Name=Segment S5; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			TCCATCTTCTCCGTGGTGGCC	0.582													46	145					6.31075e-24	6.84313e-24	1	1	0		A	99441238	A	A	99441238	3	1	155	1	0	0	0	0	1	0	0	0	8105	855	30	5	1033	5	KCNS2	8	99441238	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2284134	99441238	46922784	706	84533											
STK3	6788	broad.mit.edu	37	chr8	99468226	99468226	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcttctaaacttagatttttCaactagatacagaaagaaag	17	13	5	6	0	3	4	1	0	2	4	3	4	3	4	0	0	3	0	0	0	8	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:99468226C>T	uc003yip.2	-	11	1461	c.1320G>A	c.(1318-1320)TTG>TTA	p.L440L	STK3_uc003yio.2_Silent_p.L468L	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	440	SARAH.				apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		TTAGATTTTTCAACTAGATAC	0.338													7	41					0	0	1	0	0		T	99468226	T	T	99468226	2	4	155	1	0	0	0	0	0	0	0	1	15320	825	29	4		4	STK3	8	99468226	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	26988	99468226	46895796	707	84534											
RRM2B	50484	broad.mit.edu	37	chr8	103237206	103237206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgaaagccatagaaacagCgagcctctggaacctgcacc	13	7	9	12	1	1	2	0	1	1	1	1	4	1	3	4	1	6	1	4	1	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:103237206C>T	uc003ykn.2	-	4	606	c.362G>A	c.(361-363)CGC>CAC	p.R121H	RRM2B_uc003yko.2_RNA|RRM2B_uc010mbv.1_Missense_Mutation_p.R69H|RRM2B_uc010mbw.1_Intron|RRM2B_uc010mbx.1_Intron|RRM2B_uc010mby.1_Intron	NM_015713	NP_056528	Q7LG56	RIR2B_HUMAN	ribonucleotide reductase M2 B (TP53 inducible)	121			R -> H (in MTDPS8B).		deoxyribonucleoside diphosphate metabolic process|DNA repair|nucleobase, nucleoside and nucleotide interconversion	nucleoplasm	ribonucleoside-diphosphate reductase activity|transition metal ion binding			ovary(2)	2	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000728)			ATAGAAACAGCGAGCCTCTGG	0.408								Direct_reversal_of_damage|Modulation_of_nucleotide_pools					37	72					0	0	1	0	0		T	103237206	T	T	103237206	3	4	155	1	0	0	0	0	1	0	0	0	13708	768	27	1	717	1	RRM2B	8	103237206	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3768980	103237206	43126816	708	84535											
BAALC	79870	broad.mit.edu	37	chr8	104225199	104225199	+	Silent	SNP	A	G	G	1	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	gtgccccgatctacagccccAggtggaatacccaacccaga	11	5	9	16	1	1	1	0	0	1	1	1	3	1	2	6	2	5	0	6	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:104225199A>G	uc003yld.2	+	2	418	c.213A>G	c.(211-213)CCA>CCG	p.P71P	BAALC_uc003yle.2_Intron|uc003ylf.2_Intron|BAALC_uc003ylg.2_Silent_p.P17P|BAALC_uc010mcc.2_5'Flank	NM_024812	NP_079088	Q8WXS3	BAALC_HUMAN	brain and acute leukemia, cytoplasmic isoform 1	106						centrosome|membrane|nucleus					0			OV - Ovarian serous cystadenocarcinoma(57;3.49e-05)|STAD - Stomach adenocarcinoma(118;0.133)			CTACAGCCCCAGGTGGAATAC	0.577													8	377					0	0	1	0	0		G	104225199	G	G	104225199	2	3	155	1	0	0	0	0	0	0	0	1	1280	175	7	3		3	BAALC	8	104225199	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	987993	104225199	42138823	709	84536											
SLC25A32	81034	broad.mit.edu	37	chr8	104415469	104415469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctttatattgtcggtgtgGggagttaacaacagcatcat	10	14	10	7	1	1	0	1	0	0	0	3	1	2	1	1	3	3	2	1	3	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:104415469G>A	uc003yll.2	-	4	778	c.475C>T	c.(475-477)CCA>TCA	p.P159S	SLC25A32_uc011lhr.1_Missense_Mutation_p.P27S	NM_030780	NP_110407	Q9H2D1	MFTC_HUMAN	solute carrier family 25, member 32	159	Solcar 2.				folic acid metabolic process|mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding|folic acid transporter activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)		Folic Acid(DB00158)	TGTCGGTGTGGGGAGTTAACA	0.338													69	244					0	0	1	0	0		A	104415469	A	A	104415469	3	1	155	1	0	0	0	0	1	0	0	0	14521	1232	43	4	488	4	SLC25A32	8	104415469	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	190270	104415469	41948553	710	84537											
RIMS2	9699	broad.mit.edu	37	chr8	105257232	105257232	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaactggatgactcgacaGgcaagccgagagtctacaga	14	5	13	9	2	1	3	0	1	1	2	2	7	1	5	1	3	3	1	1	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:105257232G>T	uc003yls.2	+	24	3718	c.3477G>T	c.(3475-3477)CAG>CAT	p.Q1159H	RIMS2_uc003ylp.2_Missense_Mutation_p.Q1141H|RIMS2_uc003ylw.2_Missense_Mutation_p.Q1148H|RIMS2_uc003ylq.2_Missense_Mutation_p.Q955H|RIMS2_uc003ylr.2_Missense_Mutation_p.Q980H	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1203					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TGACTCGACAGGCAAGCCGAG	0.502										HNSCC(12;0.0054)			36	141					1.42033e-22	1.53418e-22	1	1	0		T	105257232	T	T	105257232	3	4	155	1	0	0	0	0	1	0	0	0	13393	991	35	5	3697	5	RIMS2	8	105257232	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	841763	105257232	41106790	711	84538											
PKHD1L1	93035	broad.mit.edu	37	chr8	110510973	110510973	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	caggaatcatgagttacaatGccatcagtggccttttggac	11	11	10	9	0	2	1	2	1	0	0	2	3	2	3	2	3	2	1	2	3	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:110510973G>A	uc003yne.2	+	67	10905	c.10801G>A	c.(10801-10803)GCC>ACC	p.A3601T		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3601	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GAGTTACAATGCCATCAGTGG	0.408										HNSCC(38;0.096)			16	92					0	0	1	0	0		A	110510973	A	A	110510973	3	1	155	1	0	0	0	0	1	0	0	0	11991	1319	46	2	11067	2	PKHD1L1	8	110510973	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5253741	110510973	35853049	712	84539											
CSMD3	114788	broad.mit.edu	37	chr8	114448952	114448952	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacgaggttccaaaacgtAaatccacttttaatccccat	15	10	5	11	2	0	1	0	0	0	1	3	2	3	1	4	1	1	2	4	1	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:114448952A>G	uc003ynu.2	-	1	291	c.132T>C	c.(130-132)TTT>TTC	p.F44F	CSMD3_uc011lhx.1_Silent_p.F44F|CSMD3_uc010mcx.1_Silent_p.F44F|CSMD3_uc003ynx.3_Silent_p.F44F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	44	Helical; (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TCCAAAACGTAAATCCACTTT	0.493										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			10	566					0	0	1	0	0		G	114448952	G	G	114448952	2	3	155	1	0	0	0	0	0	0	0	1	3949	359	13	3		3	CSMD3	8	114448952	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3937979	114448952	31915070	713	84540											
COLEC10	10584	broad.mit.edu	37	chr8	120118226	120118226	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttctttcgggtgttcattggCgtgaatgaccttgaaaggga	8	14	13	6	2	2	3	1	3	1	0	3	4	2	4	1	3	0	1	1	3	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:120118226C>T	uc003yoo.2	+	6	727	c.630C>T	c.(628-630)GGC>GGT	p.G210G		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	210	C-type lectin.					collagen|cytoplasm	mannose binding			ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			TGTTCATTGGCGTGAATGACC	0.522													20	130					0	0	1	0	0		T	120118226	T	T	120118226	2	4	155	1	0	0	0	0	0	0	0	1	3713	755	27	1		1	COLEC10	8	120118226	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5669274	120118226	26245796	714	84541											
SNTB1	6641	broad.mit.edu	37	chr8	121823609	121823609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccgttcacggacaggatggCgtcgcccacgtacagggctt	7	8	13	13	5	1	0	1	0	0	0	3	2	2	2	2	4	1	3	2	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:121823609C>T	uc010mdg.2	-	1	701	c.475G>A	c.(475-477)GCC>ACC	p.A159T	SNTB1_uc003ype.2_Missense_Mutation_p.A159T	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	159	PH 1.|PDZ.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			GACAGGATGGCGTCGCCCACG	0.642													6	99					0	0	1	0	0		T	121823609	T	T	121823609	3	4	155	1	0	0	0	0	1	0	0	0	14897	768	27	1	1169	1	SNTB1	8	121823609	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1705383	121823609	24540413	715	84542											
ZHX2	22882	broad.mit.edu	37	chr8	123964440	123964440	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagatcctctcgagactcggCggggtggagctcctccaaga	8	7	14	12	3	1	3	0	0	1	3	6	6	4	4	3	4	1	1	3	4	1	0	rs142739771		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:123964440C>T	uc003ypk.1	+	3	1257	c.690C>T	c.(688-690)GGC>GGT	p.G230G		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	230	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			CGAGACTCGGCGGGGTGGAGC	0.577													55	162					0	0	1	0	0		T	123964440	T	T	123964440	2	4	155	1	0	0	0	0	0	0	0	1	17701	755	27	1		1	ZHX2	8	123964440	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2140831	123964440	22399582	716	84543											
KLHL38	340359	broad.mit.edu	37	chr8	124664458	124664458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcaggagggcatcgttggCgatgaagtggtgaaagaagg	11	7	18	5	2	0	3	0	2	0	1	1	5	0	4	0	5	1	3	0	5	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:124664458C>T	uc003yqs.1	-	1	733	c.709G>A	c.(709-711)GCC>ACC	p.A237T		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	237	BACK.										0						GCATCGTTGGCGATGAAGTGG	0.562													7	190					0	0	1	0	0		T	124664458	T	T	124664458	3	4	155	1	0	0	0	0	1	0	0	0	8406	768	27	1	1048	1	KLHL38	8	124664458	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	700018	124664458	21699564	717	84544											
FER1L6	654463	broad.mit.edu	37	chr8	124988326	124988326	+	Splice_Site	SNP	T	C	C	0	1	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	ctcctttgctgggcagatggTgaggaaccattgtcactaac	9	11	11	10	0	1	2	1	1	0	1	2	3	2	3	2	3	3	2	2	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:124988326T>C	uc003yqw.2	+	9	1076	c.870_splice	c.e9+2	p.M290_splice		NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6							integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GGGCAGATGGTGAGGAACCAT	0.463													9	250					0	0	1	0	0		C	124988326	C	C	124988326	5	2	155	1	0	0	0	0	0	0	1	0	5829	1710	59	3	902	3	FER1L6	8	124988326	Splice_Site	SNP	T	TCGA-CG-5726-01A-11D-1600-08	323868	124988326	21375696	718	84545											
ADCY8	114	broad.mit.edu	37	chr8	132052107	132052107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgagatttgaaggagttgCgcagggtggggaaaatgacc	11	7	16	7	2	0	3	0	2	0	1	0	6	0	5	2	4	1	2	2	4	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:132052107C>T	uc003ytd.3	-	1	729	c.473G>A	c.(472-474)CGC>CAC	p.R158H	ADCY8_uc010mds.2_Missense_Mutation_p.R158H	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	158	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GAAGGAGTTGCGCAGGGTGGG	0.552										HNSCC(32;0.087)			13	85					0	0	1	0	0		T	132052107	T	T	132052107	3	4	155	1	0	0	0	0	1	0	0	0	300	768	27	1	3354	1	ADCY8	8	132052107	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	7063781	132052107	14311915	719	84546											
ZFAT	57623	broad.mit.edu	37	chr8	135649909	135649909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttctgtgctggacttcttCgtggaccccttaggcctgcc	3	14	10	14	1	3	0	0	0	3	0	4	2	3	2	4	3	2	1	4	3	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:135649909C>T	uc003yup.2	-	3	418	c.243G>A	c.(241-243)ACG>ACA	p.T81T	ZFAT_uc003yun.2_Silent_p.T69T|ZFAT_uc003yuo.2_Silent_p.T69T|ZFAT_uc010meh.2_Silent_p.T69T|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.T69T|ZFAT_uc010mej.2_Silent_p.T81T|ZFAT_uc003yur.2_Silent_p.T69T	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			TGGACTTCTTCGTGGACCCCT	0.562													83	266					0	0	1	0	0		T	135649909	T	T	135649909	2	4	155	1	0	0	0	0	0	0	0	1	17657	871	31	1		1	ZFAT	8	135649909	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3597802	135649909	10714113	720	84547											
KCNK9	51305	broad.mit.edu	37	chr8	140630506	140630506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccctccccacacctaaaCggacttccggcgtttcatca	8	11	5	17	3	2	0	2	0	0	0	5	1	5	1	5	2	1	1	5	2	2	4	rs149047706		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:140630506C>T	uc003yvf.1	-	2	1184	c.1120G>A	c.(1120-1122)GTT>ATT	p.V374I	KCNK9_uc003yvg.1_Missense_Mutation_p.V374I|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	374	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			CACACCTAAACGGACTTCCGG	0.428													50	235					0	0	1	0	0		T	140630506	T	T	140630506	3	4	155	1	0	0	0	0	1	0	0	0	8088	536	19	1	8	1	KCNK9	8	140630506	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4980597	140630506	5733516	721	84548											
KCNK9	51305	broad.mit.edu	37	chr8	140630715	140630715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcggccgccatagtcctgcGagcggtagcaggtgcaggag	8	5	17	11	4	0	0	0	0	0	0	1	2	1	1	3	4	5	3	3	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:140630715G>A	uc003yvf.1	-	2	975	c.911C>T	c.(910-912)TCG>TTG	p.S304L	KCNK9_uc003yvg.1_Missense_Mutation_p.S304L|KCNK9_uc003yve.1_RNA	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9	304	Cytoplasmic (Potential).					integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			ATAGTCCTGCGAGCGGTAGCA	0.632													23	72					0	0	1	0	0		A	140630715	A	A	140630715	3	1	155	1	0	0	0	0	1	0	0	0	8088	1059	37	1	217	1	KCNK9	8	140630715	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	209	140630715	5733307	722	84549											
PTK2	5747	broad.mit.edu	37	chr8	141799597	141799597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagagacggcgtgtgtccGcatgccttgcttttcgctgt	5	12	12	12	4	0	1	0	0	0	1	2	2	1	1	2	1	2	3	2	1	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:141799597G>A	uc003yvu.2	-	14	1383	c.1153C>T	c.(1153-1155)CGG>TGG	p.R385W	PTK2_uc011ljq.1_Missense_Mutation_p.R46W|PTK2_uc003yvp.2_Missense_Mutation_p.R46W|PTK2_uc003yvq.2_5'UTR|PTK2_uc003yvr.2_Missense_Mutation_p.R284W|PTK2_uc003yvs.2_Missense_Mutation_p.R385W|PTK2_uc003yvt.2_Missense_Mutation_p.R407W|PTK2_uc003yvv.2_Missense_Mutation_p.R272W|PTK2_uc011ljr.1_Missense_Mutation_p.R385W	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	385					axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			GCGTGTGTCCGCATGCCTTGC	0.517													158	528					0	0	1	0	0		A	141799597	A	A	141799597	3	1	155	1	0	0	0	0	1	0	0	0	12785	1086	38	1	2081	1	PTK2	8	141799597	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1168882	141799597	4564425	723	84550											
C8orf73	642475	broad.mit.edu	37	chr8	144650000	144650000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggggtcctgtggactcCgcaggtagccctgggtctgg	4	8	18	11	1	1	0	0	0	1	0	3	1	3	1	3	6	1	3	3	6	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:144650000C>T	uc010mff.2	-	12	1867	c.1823G>A	c.(1822-1824)CGG>CAG	p.R608Q		NM_001100878	NP_001094348	A6NGR9	CH073_HUMAN	hypothetical protein LOC642475	608							binding			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CTGTGGACTCCGCAGGTAGCC	0.682													8	31					0	0	1	0	0		T	144650000	T	T	144650000	3	4	155	1	0	0	0	0	1	0	0	0	2438	652	23	1	348	1	C8orf73	8	144650000	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2850403	144650000	1714022	724	84551											
TSTA3	7264	broad.mit.edu	37	chr8	144695756	144695756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggctgcctccttgatggagaCctcatcttcctcgcccactg	5	11	9	16	1	2	2	1	1	1	1	5	3	4	2	5	2	1	1	5	2	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:144695756C>T	uc003yza.2	-	9	784	c.748G>A	c.(748-750)GTC>ATC	p.V250I	TSTA3_uc003yzb.2_Missense_Mutation_p.V250I	NM_003313	NP_003304	Q13630	FCL_HUMAN	tissue specific transplantation antigen P35B	250					'de novo' GDP-L-fucose biosynthetic process|leukocyte cell-cell adhesion		coenzyme binding|electron carrier activity|GDP-4-dehydro-D-rhamnose reductase activity|GDP-L-fucose synthase activity|isomerase activity			pancreas(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)		NADH(DB00157)	TTGATGGAGACCTCATCTTCC	0.667													8	20					0	0	1	0	0		T	144695756	T	T	144695756	3	4	155	1	0	0	0	0	1	0	0	0	16700	507	18	4	229	4	TSTA3	8	144695756	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	45756	144695756	1668266	725	84552											
TSTA3	7264	broad.mit.edu	37	chr8	144697076	144697076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacgttgtcgttcatgtgcaCgtttttcctctgcaggggtg	4	15	13	9	3	2	0	1	0	1	0	4	1	3	0	1	2	2	5	1	2	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:144697076C>T	uc003yza.2	-	4	307	c.271G>A	c.(271-273)GTG>ATG	p.V91M	TSTA3_uc003yzb.2_Missense_Mutation_p.V91M|TSTA3_uc011lko.1_Missense_Mutation_p.V91M	NM_003313	NP_003304	Q13630	FCL_HUMAN	tissue specific transplantation antigen P35B	91					'de novo' GDP-L-fucose biosynthetic process|leukocyte cell-cell adhesion		coenzyme binding|electron carrier activity|GDP-4-dehydro-D-rhamnose reductase activity|GDP-L-fucose synthase activity|isomerase activity			pancreas(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)		NADH(DB00157)	TTCATGTGCACGTTTTTCCTC	0.607													33	108					0	0	1	0	0		T	144697076	T	T	144697076	3	4	155	1	0	0	0	0	1	0	0	0	16700	536	19	1	726	1	TSTA3	8	144697076	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1320	144697076	1666946	726	84553											
NRBP2	340371	broad.mit.edu	37	chr8	144920885	144920885	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcagcgagtgcctggcGcgagcaatggcctcctctgt	6	9	12	14	3	3	0	2	0	1	0	4	2	4	0	3	2	3	1	3	2	1	0	rs140645302	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:144920885G>A	uc011lkt.1	-	10	947	c.807C>T	c.(805-807)CGC>CGT	p.R269R	NRBP2_uc003yzv.2_Silent_p.R26R|NRBP2_uc003yzz.1_5'Flank|NRBP2_uc003yzw.2_5'Flank|NRBP2_uc010mfl.2_5'Flank|NRBP2_uc010mfm.2_Silent_p.R26R|NRBP2_uc011lks.1_Silent_p.R26R|NRBP2_uc003yzy.2_Silent_p.R26R	NM_178564	NP_848659	Q9NSY0	NRBP2_HUMAN	nuclear receptor binding protein 2	269	Protein kinase.				negative regulation of neuron apoptosis|neuron differentiation	cytoplasm	ATP binding|protein kinase activity	p.R275R(1)		central_nervous_system(2)	2	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)			AGTGCCTGGCGCGAGCAATGG	0.642													7	33					0	0	1	0	0		A	144920885	A	A	144920885	2	1	155	1	0	0	0	0	0	0	0	1	10662	1074	38	1		1	NRBP2	8	144920885	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	223809	144920885	1443137	727	84554											
PLEC	5339	broad.mit.edu	37	chr8	144997254	144997254	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgggccgccacactcagccgCgcggcctcctccgccacctg	4	5	11	21	5	1	0	1	0	0	0	3	0	3	0	8	2	1	0	8	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:144997254C>T	uc003zaf.1	-	31	7424	c.7254G>A	c.(7252-7254)GCG>GCA	p.A2418A	PLEC_uc003zab.1_Silent_p.A2281A|PLEC_uc003zac.1_Silent_p.A2285A|PLEC_uc003zad.2_Silent_p.A2281A|PLEC_uc003zae.1_Silent_p.A2249A|PLEC_uc003zag.1_Silent_p.A2259A|PLEC_uc003zah.2_Silent_p.A2267A|PLEC_uc003zaj.2_Silent_p.A2308A	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2418	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CACTCAGCCGCGCGGCCTCCT	0.642													13	22					0	0	1	0	0		T	144997254	T	T	144997254	2	4	155	1	0	0	0	0	0	0	0	1	12071	755	27	1		1	PLEC	8	144997254	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	76369	144997254	1366768	728	84555											
PARP10	84875	broad.mit.edu	37	chr8	145052082	145052082	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcaggcctcaccgttgcgGccgcagaagctgcggttgaa	7	7	14	13	4	2	2	2	1	0	1	2	2	2	2	3	3	3	5	3	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:145052082G>A	uc003zal.3	-	10	2832	c.2724C>T	c.(2722-2724)GGC>GGT	p.G908G	PLEC_uc003zaj.2_5'Flank|PARP10_uc003zak.3_Silent_p.G605G|PARP10_uc011lku.1_Silent_p.G920G|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Silent_p.G899G	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	908	PARP catalytic.					Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CACCGTTGCGGCCGCAGAAGC	0.721													7	23					0	0	1	0	0		A	145052082	A	A	145052082	2	1	155	1	0	0	0	0	0	0	0	1	11474	1190	42	2		2	PARP10	8	145052082	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	54828	145052082	1311940	729	84556											
HEATR7A	727957	broad.mit.edu	37	chr8	145235115	145235115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggcagcaggcggcgagtgGcgtcctggtggccgtgggaa	5	6	20	10	4	0	0	0	0	0	0	1	2	1	1	2	7	1	2	2	7	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:145235115G>A	uc003zbk.3	+	6	572	c.335G>A	c.(334-336)GGC>GAC	p.G112D	HEATR7A_uc003zbg.2_Missense_Mutation_p.G112D|HEATR7A_uc003zbh.3_Missense_Mutation_p.G112D|HEATR7A_uc003zbi.3_Missense_Mutation_p.G112D|HEATR7A_uc011lla.1_Missense_Mutation_p.G112D|HEATR7A_uc010mft.2_Missense_Mutation_p.G112D	NM_032450	NP_115826	Q8NDA8	HTR7A_HUMAN	HEAT repeat containing 7A isoform 1	112							binding				0						GCGGCGAGTGGCGTCCTGGTG	0.632													33	163					0	0	1	0	0		A	145235115	A	A	145235115	3	1	155	1	0	0	0	0	1	0	0	0	7050	1203	42	2	349	2	HEATR7A	8	145235115	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	183033	145235115	1128907	730	84557											
NFKBIL2	4796	broad.mit.edu	37	chr8	145660224	145660224	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctggcaggccctgcggtAgcggtcagtcaacgggggca	6	6	17	12	3	3	0	2	0	1	0	3	0	3	0	1	6	3	4	1	6	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:145660224A>G	uc011llg.1	-	20	3070	c.3055T>C	c.(3055-3057)TAC>CAC	p.Y1019H	uc011llh.1_5'Flank	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	1019					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GCCCTGCGGTAGCGGTCAGTC	0.657													14	59					0	0	1	0	0		G	145660224	G	G	145660224	3	3	155	1	0	0	0	0	1	0	0	0	10401	420	15	3	1109	3	NFKBIL2	8	145660224	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	425109	145660224	703798	731	84558											
ZNF251	90987	broad.mit.edu	37	chr8	145948631	145948631	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctttgagtttgccctcacgGccccatgcttcccgaaactc	6	12	7	16	2	2	1	1	1	1	0	4	2	3	1	4	1	3	2	4	1	1	3	rs35964302		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr8:145948631G>A	uc003zdv.3	-	5	670	c.414C>T	c.(412-414)GGC>GGT	p.G138G		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	138					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		TGCCCTCACGGCCCCATGCTT	0.458													34	154					0	0	1	0	0		A	145948631	A	A	145948631	2	1	155	1	0	0	0	0	0	0	0	1	17821	1190	42	2		2	ZNF251	8	145948631	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	288407	145948631	415391	732	84559											
DOCK8	81704	broad.mit.edu	37	chr9	312043	312043	+	Silent	SNP	T	C	C	0	1	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	gacctccgcagcctgcagccTgacaagcggctagaaaacct	11	5	10	15	2	0	2	0	1	0	1	1	3	1	2	5	1	5	3	5	1	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:312043T>C	uc003zgf.2	+	6	730	c.618T>C	c.(616-618)CCT>CCC	p.P206P	DOCK8_uc011lls.1_Silent_p.P206P|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Silent_p.P138P|DOCK8_uc010mgt.2_Silent_p.P138P|DOCK8_uc003zgg.2_Silent_p.P138P|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	206					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		GCCTGCAGCCTGACAAGCGGC	0.602													38	44					0	0	1	0	0		C	312043	C	C	312043	2	2	155	1	0	0	0	0	0	0	0	1	4699	1567	55	3		3	DOCK8	9	312043	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08		312043	140901388	733	84560											
DMRT1	1761	broad.mit.edu	37	chr9	841907	841907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacgcccccggggtaccGccgcagggcagagccggggg	5	2	17	17	5	1	1	1	0	0	1	1	1	1	1	6	5	2	3	6	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:841907G>A	uc003zgv.2	+	1	218	c.69G>A	c.(67-69)CCG>CCA	p.P23P	DMRT1_uc003zgu.1_Silent_p.P23P	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor	23					cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		CCGGGGTACCGCCGCAGGGCA	0.716													9	4					0	0	1	0	0		A	841907	A	A	841907	2	1	155	1	0	0	0	0	0	0	0	1	4591	1074	38	1		1	DMRT1	9	841907	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	529864	841907	140371524	734	84561											
KIAA1797	54914	broad.mit.edu	37	chr9	20862680	20862680	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaactattttctctagttcCttccttaacggtcaatacaa	11	16	4	10	1	2	1	1	1	1	0	5	1	4	1	2	1	3	1	2	1	7	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:20862680C>A	uc003zog.1	+	18	2387	c.2024C>A	c.(2023-2025)CCT>CAT	p.P675H	KIAA1797_uc003zoh.1_Missense_Mutation_p.P111H	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	675						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TCTCTAGTTCCTTCCTTAACG	0.418													96	131					1.15966e-41	1.28076e-41	1	1	0		A	20862680	A	A	20862680	3	1	155	1	0	0	0	0	1	0	0	0	8274	681	24	5	2082	5	KIAA1797	9	20862680	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	20020773	20862680	120350751	735	84562											
C9orf72	203228	broad.mit.edu	37	chr9	27556644	27556644	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctctccagaaggctgtcaGctcggatctcatgtatctac	8	11	10	12	1	4	1	2	0	3	1	7	2	4	2	1	3	2	4	1	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:27556644G>C	uc003zqq.2	-	8	1103	c.1006C>G	c.(1006-1008)CTG>GTG	p.L336V		NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	336										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		AAGGCTGTCAGCTCGGATCTC	0.443													8	218					0	0	1	0	0		C	27556644	C	C	27556644	3	2	155	1	0	0	0	0	1	0	0	0	2498	962	34	5	455	5	C9orf72	9	27556644	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6693964	27556644	113656787	736	84563											
RUSC2	9853	broad.mit.edu	37	chr9	35558263	35558263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtacttgtgccctgccGtccgcgccgtgctggaggat	5	10	14	12	4	0	1	0	1	0	0	1	3	1	3	4	2	4	2	4	2	2	2	rs147279845	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:35558263G>A	uc003zww.2	+	7	3385	c.3130G>A	c.(3130-3132)GTC>ATC	p.V1044I	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.V1044I	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	1044	RUN.					cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GTGCCCTGCCGTCCGCGCCGT	0.572													34	51					0	0	1	0	0		A	35558263	A	A	35558263	3	1	155	1	0	0	0	0	1	0	0	0	13776	1145	40	1	3152	1	RUSC2	9	35558263	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	8001619	35558263	105655168	737	84564											
SPAG8	26206	broad.mit.edu	37	chr9	35811534	35811534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccaggaccagagccagagCcagggacagagccacagcca	14	0	13	14	0	0	3	0	0	0	3	0	6	0	5	6	2	4	0	6	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:35811534C>T	uc003zye.2	-	2	624	c.509G>A	c.(508-510)GGC>GAC	p.G170D	SPAG8_uc003zyf.2_Missense_Mutation_p.G87D|SPAG8_uc003zyg.2_Missense_Mutation_p.G170D	NM_172312	NP_758516	Q99932	SPAG8_HUMAN	sperm associated antigen 8 isoform 2	170	Gly-rich.					acrosomal vesicle|membrane				ovary(1)	1	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			agagccagagccagggacaga	0.114													16	11					0	0	1	0	0		T	35811534	T	T	35811534	3	4	155	1	0	0	0	0	1	0	0	0	15009	739	26	2	1223	2	SPAG8	9	35811534	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	253271	35811534	105401897	738	84565											
OR2S2	56656	broad.mit.edu	37	chr9	35957386	35957386	+	Frame_Shift_Del	DEL	T	-	-																															cagagcaggtggagaagaccTttttcctcccctcagctgag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:35957386delT	uc011lpi.1	-	1	766	c.710delA	c.(709-711)AAGfs	p.K237fs		NM_019897	NP_063950	Q9NQN1	OR2S1_HUMAN	olfactory receptor, family 2, subfamily S,	237	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00613)|STAD - Stomach adenocarcinoma(86;0.194)			GGAGAAGACCTTTTTCCTCCC	0.507													53	86	---	---	---	---						.	-	35957386	-	-	35957386	7	5	155	1	0	1	0	1	0	0	0	0	11034	1609	56	0	253	0	OR2S2	9	35957386	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	145852	35957386	105256045	739	84566											
FOXD4L5	653427	broad.mit.edu	37	chr9	70177694	70177694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcatcttcagaggccgccGcagaccttggcggtgccctg	5	7	15	14	3	2	2	1	0	1	2	2	2	2	2	4	4	1	2	4	4	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:70177694G>A	uc010moc.2	-	1	1122	c.290C>T	c.(289-291)GCG>GTG	p.A97V		NM_001126334	NP_001119806	Q5VV16	FX4L5_HUMAN	forkhead box D4-like 5	97					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						AGAGGCCGCCGCAGACCTTGG	0.672													21	82					0	0	1	0	0		A	70177694	A	A	70177694	3	1	155	1	0	0	0	0	1	0	0	0	6016	1087	38	1	964	1	FOXD4L5	9	70177694	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	34220308	70177694	71035737	740	84567											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	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	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													4	87					0	0	1	0	0		G	70993145	G	G	70993145	3	3	155	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	815451	70993145	70220286	741	84568											
APBA1	320	broad.mit.edu	37	chr9	72047539	72047539	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgatttcaatgatccggtgCcccacacggacgcctcctct	7	11	8	15	3	2	2	1	2	1	0	4	3	4	3	5	2	1	0	5	2	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:72047539C>T	uc004ahh.2	-	12	2631	c.2355G>A	c.(2353-2355)GGG>GGA	p.G785G		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	785	PDZ 2.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						TGATCCGGTGCCCCACACGGA	0.577													13	44					0	0	1	0	0		T	72047539	T	T	72047539	2	4	155	1	0	0	0	0	0	0	0	1	756	726	26	2		2	APBA1	9	72047539	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1054394	72047539	69165892	742	84569											
TMC1	117531	broad.mit.edu	37	chr9	75404223	75404223	+	Frame_Shift_Del	DEL	A	-	-																															tgacacccttgggtggtgggAaaaaaatgaagttcgtctct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:75404223delA	uc004aiz.1	+	15	1754	c.1214delA	c.(1213-1215)GAAfs	p.E405fs	TMC1_uc010moz.1_Frame_Shift_Del_p.E363fs|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Frame_Shift_Del_p.E259fs|TMC1_uc010mpa.1_Frame_Shift_Del_p.E259fs	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	405	Extracellular (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						GGGTGGTGGGAAAAAAATGAA	0.428													51	99	---	---	---	---						.	-	75404223	-	-	75404223	7	5	155	1	0	1	0	1	0	0	0	0	16009	246	9	0	1256	0	TMC1	9	75404223	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	3356684	75404223	65809208	743	84570											
KIF27	55582	broad.mit.edu	37	chr9	86465140	86465140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcacgaaccatattatcccGttccagaactttcattttca	11	15	3	12	2	3	1	3	0	0	1	5	2	5	1	3	0	2	1	3	0	4	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:86465140G>A	uc004ana.2	-	16	3574	c.3430C>T	c.(3430-3432)CGG>TGG	p.R1144W	KIF27_uc010mpw.2_Missense_Mutation_p.R1078W|KIF27_uc010mpx.2_Missense_Mutation_p.R1047W	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	1144	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						ATATTATCCCGTTCCAGAACT	0.383													97	119					0	0	1	0	0		A	86465140	A	A	86465140	3	1	155	1	0	0	0	0	1	0	0	0	8312	1144	40	1	787	1	KIF27	9	86465140	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	11060917	86465140	54748291	744	84571											
KIF27	55582	broad.mit.edu	37	chr9	86482717	86482717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagctcctctaattcttggCgttggttcagaactttctct	6	16	7	12	1	4	1	1	0	3	1	6	1	5	1	2	2	2	3	2	2	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:86482717C>T	uc004ana.2	-	13	2960	c.2816G>A	c.(2815-2817)CGC>CAC	p.R939H	KIF27_uc010mpw.2_Missense_Mutation_p.R873H|KIF27_uc010mpx.2_Intron	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	939	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						TAATTCTTGGCGTTGGTTCAG	0.373													84	129					0	0	1	0	0		T	86482717	T	T	86482717	3	4	155	1	0	0	0	0	1	0	0	0	8312	768	27	1	1413	1	KIF27	9	86482717	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	17577	86482717	54730714	745	84572											
HNRNPK	3190	broad.mit.edu	37	chr9	86585818	86585818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagagaacttaccatatcCggagccaccctaaaaacaga	17	5	8	11	1	0	2	0	0	0	2	1	5	1	4	4	2	4	0	4	2	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:86585818C>T	uc004ang.3	-	14	1326	c.1102G>A	c.(1102-1104)GGA>AGA	p.G368R	HNRNPK_uc011lsw.1_Missense_Mutation_p.G128R|HNRNPK_uc004and.3_Missense_Mutation_p.G128R|HNRNPK_uc004ank.3_Intron|HNRNPK_uc004anf.3_Missense_Mutation_p.G368R|HNRNPK_uc004anh.3_Missense_Mutation_p.G344R|HNRNPK_uc011lsx.1_Missense_Mutation_p.G344R|HNRNPK_uc004ani.3_Intron|HNRNPK_uc004anj.3_Intron|HNRNPK_uc004ann.3_Intron|HNRNPK_uc004anl.3_Missense_Mutation_p.G368R|HNRNPK_uc004anm.3_Missense_Mutation_p.G368R|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	368	5 X 4 AA repeats of G-X-G-G.|2 X 22 AA approximate repeats.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						TTACCATATCCGGAGCCACCC	0.279													19	137					0	0	1	0	0		T	86585818	T	T	86585818	3	4	155	1	0	0	0	0	1	0	0	0	7285	661	23	1	343	1	HNRNPK	9	86585818	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	103101	86585818	54627613	746	84573											
NFIL3	4783	broad.mit.edu	37	chr9	94171958	94171958	+	Silent	SNP	T	C	C	0	1	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	ttagatgtcatgtcaataggTgaggaaagtttttgcgtggc	10	14	13	4	1	2	2	2	1	0	1	2	3	2	3	0	3	1	1	0	3	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:94171958T>C	uc004arh.2	-	2	1454	c.1059A>G	c.(1057-1059)TCA>TCG	p.S353S		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	353	Necessary for transcriptional repression and sufficient for interaction with DR1.				circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						TGTCAATAGGTGAGGAAAGTT	0.433													11	334					0	0	1	0	0		C	94171958	C	C	94171958	2	2	155	1	0	0	0	0	0	0	0	1	10392	1683	59	3		3	NFIL3	9	94171958	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	7586140	94171958	47041473	747	84574											
ASPN	54829	broad.mit.edu	37	chr9	95237178	95237178	+	Missense_Mutation	SNP	A	G	G	1	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	ataggagcacatactccttcAtggtgtcttagtgtagaaga	12	12	10	7	0	2	2	1	0	1	2	3	3	3	3	1	2	2	2	1	2	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:95237178A>G	uc004ase.1	-	2	246	c.2T>C	c.(1-3)ATG>ACG	p.M1T	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ASPN_uc010mqy.1_Missense_Mutation_p.M1T	NM_017680	NP_060150	Q9BXN1	ASPN_HUMAN	asporin precursor	1					bone mineralization|negative regulation of tooth mineralization|negative regulation of transforming growth factor beta receptor signaling pathway	proteinaceous extracellular matrix	calcium ion binding				0						ATACTCCTTCATGGTGTCTTA	0.363													5	43					0	0	1	0	0		G	95237178	G	G	95237178	3	3	155	1	0	0	0	0	1	0	0	0	1058	217	8	3	1168	3	ASPN	9	95237178	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1065220	95237178	45976253	748	84575											
BICD2	23299	broad.mit.edu	37	chr9	95482892	95482892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcaggctgttcttctgttcgCgctccgtcttcagggtctcc	2	14	11	14	3	5	0	1	0	4	0	8	0	6	0	2	2	0	5	2	2	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:95482892C>T	uc004aso.1	-	4	809	c.752G>A	c.(751-753)CGC>CAC	p.R251H	BICD2_uc004asp.1_Missense_Mutation_p.R251H	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	251	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						CTTCTGTTCGCGCTCCGTCTT	0.587													40	62					0	0	1	0	0		T	95482892	T	T	95482892	3	4	155	1	0	0	0	0	1	0	0	0	1430	768	27	1	1841	1	BICD2	9	95482892	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	245714	95482892	45730539	749	84576											
WNK2	65268	broad.mit.edu	37	chr9	96080171	96080171	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatggcgccctcggaacCgcccggagaaaccaggtgtg	9	4	14	14	4	0	2	0	0	0	2	1	4	0	3	5	4	2	0	5	4	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:96080171C>T	uc004ati.1	+	30	6756	c.6756C>T	c.(6754-6756)ACC>ACT	p.T2252T	WNK2_uc011lud.1_Intron|WNK2_uc004atj.2_Intron|WNK2_uc004atk.2_3'UTR	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	2252					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CCCTCGGAACCGCCCGGAGAA	0.682													12	12					0	0	1	0	0		T	96080171	T	T	96080171	2	4	155	1	0	0	0	0	0	0	0	1	17404	667	23	1		1	WNK2	9	96080171	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	597279	96080171	45133260	750	84577											
PTCH1	5727	broad.mit.edu	37	chr9	98229700	98229700	+	Missense_Mutation	SNP	A	G	G	1	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	agcccagaaaaaggaagatcAccactacctggaacagaaga	19	3	9	10	0	1	4	1	0	0	4	1	6	1	6	3	2	3	0	3	2	6	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:98229700A>G	uc004avk.3	-	15	2446	c.2258T>C	c.(2257-2259)GTG>GCG	p.V753A	PTCH1_uc010mro.2_Missense_Mutation_p.V602A|PTCH1_uc010mrp.2_Missense_Mutation_p.V602A|PTCH1_uc010mrq.2_Missense_Mutation_p.V602A|PTCH1_uc004avl.3_Missense_Mutation_p.V602A|PTCH1_uc010mrr.2_Missense_Mutation_p.V687A|PTCH1_uc004avm.3_Missense_Mutation_p.V752A	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	753	Helical; (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AAGGAAGATCACCACTACCTG	0.527									Basal_Cell_Nevus_syndrome				20	52					0	0	1	0	0		G	98229700	G	G	98229700	3	3	155	1	0	0	0	0	1	0	0	0	12752	159	6	3	2121	3	PTCH1	9	98229700	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2149529	98229700	42983731	751	84578											
NCBP1	4686	broad.mit.edu	37	chr9	100405604	100405604	+	Missense_Mutation	SNP	T	A	A	0	1	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	tgattcgtcaacttaaagaaTcattgaaagcaaacaattat	18	12	5	6	1	2	3	2	2	0	1	3	3	2	3	0	0	3	1	0	0	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:100405604T>A	uc004axq.2	+	4	802	c.343T>A	c.(343-345)TCA>ACA	p.S115T		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	115	MIF4G.				gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				ACTTAAAGAATCATTGAAAGC	0.353													99	153					0	0	1	0	0		A	100405604	A	A	100405604	3	1	155	1	0	0	0	0	1	0	0	0	10230	1435	50	5	357	5	NCBP1	9	100405604	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2175904	100405604	40807827	752	84579											
RGS3	5998	broad.mit.edu	37	chr9	116269742	116269742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggcacggcctgagcagCgccacagctgccacctggta	8	5	12	16	2	0	1	0	1	0	0	1	1	1	1	5	3	4	4	5	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:116269742C>T	uc004bhq.2	+	14	1470	c.1261C>T	c.(1261-1263)CGC>TGC	p.R421C	RGS3_uc004bhr.2_Missense_Mutation_p.R309C|RGS3_uc004bhs.2_Missense_Mutation_p.R311C|RGS3_uc004bht.2_Missense_Mutation_p.R140C|RGS3_uc010muy.2_Missense_Mutation_p.R140C|RGS3_uc004bhu.2_Missense_Mutation_p.R47C	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	421					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						GCCTGAGCAGCGCCACAGCTG	0.672													4	24					0	0	1	0	0		T	116269742	T	T	116269742	3	4	155	1	0	0	0	0	1	0	0	0	13331	768	27	1	1452	1	RGS3	9	116269742	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	15864138	116269742	24943689	753	84580											
TNC	3371	broad.mit.edu	37	chr9	117848975	117848975	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggcaggcatgtgggcaGgtgggtttcccgcagtcttc	4	11	17	9	1	1	0	0	0	1	0	3	0	2	0	1	5	0	5	1	5	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:117848975G>T	uc004bjj.3	-	3	1397	c.1035C>A	c.(1033-1035)ACC>ACA	p.T345T	TNC_uc010mvf.2_Silent_p.T345T	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	345	EGF-like 7.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CATGTGGGCAGGTGGGTTTCC	0.612													37	40					9.17885e-22	9.89539e-22	1	1	0		T	117848975	T	T	117848975	2	4	155	1	0	0	0	0	0	0	0	1	16295	987	35	5		5	TNC	9	117848975	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1579233	117848975	23364456	754	84581											
CEP110	11064	broad.mit.edu	37	chr9	123898189	123898189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgaagctgagctagaggctCggctaaacctaagggatgct	12	8	13	8	1	0	3	0	2	0	1	1	4	0	4	1	3	4	5	1	3	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:123898189C>T	uc004bkx.1	+	13	2162	c.2131C>T	c.(2131-2133)CGG>TGG	p.R711W	CEP110_uc004bky.1_Missense_Mutation_p.R315W|CEP110_uc004bkz.1_Missense_Mutation_p.R159W|CEP110_uc004bla.1_Missense_Mutation_p.R159W	NM_007018	NP_008949	Q7Z7A1	CNTRL_HUMAN	centrosomal protein 110kDa	711	Potential.				cell division|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding				0						GCTAGAGGCTCGGCTAAACCT	0.498													39	67					0	0	1	0	0		T	123898189	T	T	123898189	3	4	155	1	0	0	0	0	1	0	0	0	3248	875	31	1	2181	1	CEP110	9	123898189	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6049214	123898189	17315242	755	84582											
RC3H2	54542	broad.mit.edu	37	chr9	125643021	125643021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtaatgcttcataactcCgaaattcctccttcagctgc	9	13	6	13	2	2	0	2	0	0	0	5	1	5	0	3	0	5	3	3	0	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:125643021C>T	uc010mwc.1	-	6	1053	c.812G>A	c.(811-813)CGG>CAG	p.R271Q	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.R271Q|RC3H2_uc004bne.3_Missense_Mutation_p.R271Q|RC3H2_uc011lzf.1_Missense_Mutation_p.R8Q|RC3H2_uc011lzg.1_Missense_Mutation_p.R271Q|SNORD90_uc004bnf.1_5'Flank	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	271						cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						TTCATAACTCCGAAATTCCTC	0.413													41	81					0	0	1	0	0		T	125643021	T	T	125643021	3	4	155	1	0	0	0	0	1	0	0	0	13192	652	23	1	2905	1	RC3H2	9	125643021	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1744832	125643021	15570410	756	84583											
WDR38	401551	broad.mit.edu	37	chr9	127616484	127616484	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcttttgtgctgtttctagGtcaactcttctgccttctcc	3	18	7	13	1	5	0	1	0	4	0	6	0	5	0	2	1	3	3	2	1	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:127616484G>C	uc004box.2	+	2	126	c.70G>C	c.(70-72)GTC>CTC	p.V24L	WDR38_uc011lzn.1_Intron|WDR38_uc011lzo.1_Missense_Mutation_p.V24L|WDR38_uc011lzp.1_5'UTR	NM_001045476	NP_001038941	Q5JTN6	WDR38_HUMAN	WD repeat domain 38	24	WD 1.										0						CTGTTTCTAGGTCAACTCTTC	0.587													124	274					0	0	1	0	0		C	127616484	C	C	127616484	3	2	155	1	0	0	0	0	1	0	0	0	17318	1275	44	5	76	5	WDR38	9	127616484	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1973463	127616484	13596947	757	84584											
LMX1B	4010	broad.mit.edu	37	chr9	129453292	129453292	+	Silent	SNP	C	T	T	0	0	0	1	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	cagctgctgtgcaagggtgaCtacgagaaggagaaggacct	12	6	15	8	1	0	3	0	1	0	2	0	6	0	4	1	3	4	3	1	3	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:129453292C>T	uc004bqj.2	+	3	485	c.435C>T	c.(433-435)GAC>GAT	p.D145D	LMX1B_uc004bqi.2_Silent_p.D145D|LMX1B_uc011maa.1_Silent_p.D145D	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	145	LIM zinc-binding 2.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCAAGGGTGACTACGAGAAGG	0.647									Nail-Patella_Syndrome				8	19					0	0	1	0	0		T	129453292	T	T	129453292	2	4	155	1	0	0	0	0	0	0	0	1	8879	564	20	4		4	LMX1B	9	129453292	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1836808	129453292	11760139	758	84585											
SLC25A25	114789	broad.mit.edu	37	chr9	130864731	130864731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccgtggaaaacatccccGagatcatcctctactggaag	12	7	8	14	2	2	1	1	0	1	1	4	4	4	3	5	2	2	0	5	2	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:130864731G>A	uc004bte.2	+	4	486	c.457G>A	c.(457-459)GAG>AAG	p.E153K	SLC25A25_uc004btb.2_Missense_Mutation_p.E187K|SLC25A25_uc004btc.2_Missense_Mutation_p.E173K|SLC25A25_uc004btd.2_Missense_Mutation_p.E185K|SLC25A25_uc004btf.2_Missense_Mutation_p.E50K	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	153	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						AAACATCCCCGAGATCATCCT	0.592													16	31					0	0	1	0	0		A	130864731	A	A	130864731	3	1	155	1	0	0	0	0	1	0	0	0	14513	1059	37	1	959	1	SLC25A25	9	130864731	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1411439	130864731	10348700	759	84586											
SPTAN1	6709	broad.mit.edu	37	chr9	131356530	131356530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaagtttatgttgttcCgtgaagcgaatgaactacag	13	11	11	6	2	0	3	0	2	0	1	1	4	1	3	1	0	3	4	1	0	7	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:131356530C>T	uc004bvl.3	+	24	3405	c.3292C>T	c.(3292-3294)CGT>TGT	p.R1098C	SPTAN1_uc011mbg.1_Missense_Mutation_p.R1078C|SPTAN1_uc011mbh.1_Missense_Mutation_p.R1110C|SPTAN1_uc004bvm.3_Missense_Mutation_p.R1098C|SPTAN1_uc004bvn.3_Missense_Mutation_p.R1078C	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1098	Spectrin 12.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						TATGTTGTTCCGTGAAGCGAA	0.478													10	140					0	0	1	0	0		T	131356530	T	T	131356530	3	4	155	1	0	0	0	0	1	0	0	0	15142	652	23	1	3382	1	SPTAN1	9	131356530	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	491799	131356530	9856901	760	84587											
PKN3	29941	broad.mit.edu	37	chr9	131482711	131482711	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctgctcgcccgcaccatccaGccccccttcgtgcctaccct	4	8	6	23	3	0	0	0	0	0	0	3	0	1	0	8	0	4	2	8	0	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:131482711G>T	uc004bvw.2	+	22	2889	c.2496G>T	c.(2494-2496)CAG>CAT	p.Q832H	PKN3_uc010myh.2_Missense_Mutation_p.A818S|PKN3_uc011mbk.1_Missense_Mutation_p.Q382H	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	832	AGC-kinase C-terminal.				signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						GCACCATCCAGCCCCCCTTCG	0.667													71	106					2.97807e-44	3.2956e-44	1	1	0		T	131482711	T	T	131482711	3	4	155	1	0	0	0	0	1	0	0	0	12000	962	34	5	2582	5	PKN3	9	131482711	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	126181	131482711	9730720	761	84588											
GPR107	57720	broad.mit.edu	37	chr9	132863396	132863396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcttccagtttgaaaggggCgctactcttcatcaccattg	8	13	8	12	1	4	1	2	1	2	0	5	1	5	1	2	2	1	2	2	2	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:132863396C>T	uc004bze.2	+	12	1252	c.1025C>T	c.(1024-1026)GCG>GTG	p.A342V	GPR107_uc004bzb.2_Missense_Mutation_p.A153V|GPR107_uc004bzc.3_RNA|GPR107_uc011mbx.1_Missense_Mutation_p.A342V|GPR107_uc004bzd.2_Missense_Mutation_p.A342V	NM_001136557	NP_001130029	Q5VW38	GP107_HUMAN	G protein-coupled receptor 107 isoform 1	342	Helical; Name=3; (Potential).					integral to membrane				upper_aerodigestive_tract(1)	1		Ovarian(14;0.000531)				TTGAAAGGGGCGCTACTCTTC	0.428													108	197					0	0	1	0	0		T	132863396	T	T	132863396	3	4	155	1	0	0	0	0	1	0	0	0	6638	768	27	1	1071	1	GPR107	9	132863396	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1380685	132863396	8350035	762	84589											
FUBP3	8939	broad.mit.edu	37	chr9	133488372	133488372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggaggtgagcagatttcaCggattcaagcagaatctggt	11	9	15	6	1	3	3	2	1	1	2	3	5	3	5	0	5	2	2	0	5	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:133488372C>T	uc004bzr.1	+	5	412	c.304C>T	c.(304-306)CGG>TGG	p.R102W	FUBP3_uc010mzd.1_Missense_Mutation_p.R42W|FUBP3_uc004bzs.1_Missense_Mutation_p.R15W	NM_003934	NP_003925	Q96I24	FUBP3_HUMAN	far upstream element (FUSE) binding protein 3	102	KH 1.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000279)		GCAGATTTCACGGATTCAAGC	0.383													32	56					0	0	1	0	0		T	133488372	T	T	133488372	3	4	155	1	0	0	0	0	1	0	0	0	6107	527	19	1	322	1	FUBP3	9	133488372	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	624976	133488372	7725059	763	84590											
FIBCD1	84929	broad.mit.edu	37	chr9	133779540	133779540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggaccactccacgccgtCggcataggaggcgtgcgcac	8	4	15	14	5	0	0	0	0	0	0	2	3	1	3	3	5	1	2	3	5	1	1	rs147030133	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:133779540C>T	uc004bzz.2	-	7	1542	c.1297G>A	c.(1297-1299)GAC>AAC	p.D433N	FIBCD1_uc011mcc.1_Missense_Mutation_p.D433N	NM_032843	NP_116232	Q8N539	FBCD1_HUMAN	fibrinogen C domain containing 1	433	Fibrinogen C-terminal.|Extracellular (Potential).				signal transduction	extracellular space|integral to membrane	chitin binding|metal ion binding|receptor binding				0	all_hematologic(7;0.0028)			OV - Ovarian serous cystadenocarcinoma(145;3.52e-05)|Epithelial(140;0.00019)		TCCACGCCGTCGGCATAGGAG	0.642													62	72					0	0	1	0	0		T	133779540	T	T	133779540	3	4	155	1	0	0	0	0	1	0	0	0	5898	884	31	1	92	1	FIBCD1	9	133779540	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	291168	133779540	7433891	764	84591											
NUP214	8021	broad.mit.edu	37	chr9	134072678	134072678	+	Missense_Mutation	SNP	A	G	G	1	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	gggaagcaaaccttcttatgAggccattcctgaaagctcac	12	9	9	11	0	2	2	1	2	1	0	3	3	3	3	3	2	3	2	3	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:134072678A>G	uc004cag.2	+	29	3908	c.3797A>G	c.(3796-3798)GAG>GGG	p.E1266G	NUP214_uc004cah.2_Missense_Mutation_p.E1256G|NUP214_uc004cai.2_Missense_Mutation_p.E696G|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Missense_Mutation_p.E92G|NUP214_uc011mcf.1_Missense_Mutation_p.E43G|NUP214_uc010mzh.1_5'UTR|NUP214_uc010mzi.1_5'UTR	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	1266	Pro/Ser/Thr-rich.|11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CCTTCTTATGAGGCCATTCCT	0.522			T	DEK|SET|ABL1	AML|T-ALL								64	77					0	0	1	0	0		G	134072678	G	G	134072678	3	3	155	1	0	0	0	0	1	0	0	0	10781	304	11	3	3911	3	NUP214	9	134072678	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	293138	134072678	7140753	765	84592											
PPAPDC3	84814	broad.mit.edu	37	chr9	134183576	134183576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccaccacgtcacggacGtcctctccggctttgtcatc	5	9	9	18	5	3	0	2	0	1	0	6	1	4	1	5	2	0	1	5	2	0	1	rs146890476		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:134183576G>A	uc004cal.2	+	2	1022	c.718G>A	c.(718-720)GTC>ATC	p.V240I		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	240	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CGTCACGGACGTCCTCTCCGG	0.662													7	17					0	0	1	0	0		A	134183576	A	A	134183576	3	1	155	1	0	0	0	0	1	0	0	0	12315	1145	40	1	724	1	PPAPDC3	9	134183576	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	110898	134183576	7029855	766	84593											
BAT2L1	84726	broad.mit.edu	37	chr9	134346320	134346320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctacatggacccacgtatcaCgcccactcggaccccggtgg	8	6	10	17	4	1	0	1	0	0	0	2	2	1	2	4	4	1	1	4	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:134346320C>T	uc004can.3	+	13	2112	c.2057C>T	c.(2056-2058)ACG>ATG	p.T686M	BAT2L1_uc010mzj.1_Missense_Mutation_p.T269M|BAT2L1_uc004cao.3_Missense_Mutation_p.T44M	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	686							protein binding				0						CCACGTATCACGCCCACTCGG	0.607													4	28					0	0	1	0	0		T	134346320	T	T	134346320	3	4	155	1	0	0	0	0	1	0	0	0	1321	536	19	1	2107	1	BAT2L1	9	134346320	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	162744	134346320	6867111	767	84594											
POMT1	10585	broad.mit.edu	37	chr9	134385313	134385313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caagtacatgggtgtgttcaCgtacgtgctcgtgctgggtg	6	12	15	8	3	1	0	1	0	0	0	2	0	1	0	0	2	4	5	0	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:134385313C>T	uc004cav.2	+	8	831	c.629C>T	c.(628-630)ACG>ATG	p.T210M	POMT1_uc011mci.1_3'UTR|POMT1_uc004cax.2_Missense_Mutation_p.T210M|POMT1_uc011mcj.1_Intron|POMT1_uc004cau.2_Missense_Mutation_p.T210M|POMT1_uc004caw.2_Missense_Mutation_p.T156M|POMT1_uc011mck.1_Missense_Mutation_p.T93M|POMT1_uc011mcl.1_Missense_Mutation_p.T58M|POMT1_uc011mcm.1_Missense_Mutation_p.T180M|POMT1_uc011mcn.1_Translation_Start_Site	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	210	Helical; (Potential).				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		GGTGTGTTCACGTACGTGCTC	0.512													112	191					0	0	1	0	0		T	134385313	T	T	134385313	3	4	155	1	0	0	0	0	1	0	0	0	12264	536	19	1	655	1	POMT1	9	134385313	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	38993	134385313	6828118	768	84595											
NTNG2	84628	broad.mit.edu	37	chr9	135073412	135073412	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccggacctggcccacccGcccaggctcatgttcgacaa	9	5	9	18	3	1	0	1	0	0	0	2	2	1	1	5	3	1	2	5	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:135073412G>A	uc004cbh.2	+	3	1049	c.273G>A	c.(271-273)CCG>CCA	p.P91P		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	91	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		TGGCCCACCCGCCCAGGCTCA	0.647													16	33					0	0	1	0	0		A	135073412	A	A	135073412	2	1	155	1	0	0	0	0	0	0	0	1	10724	1074	38	1		1	NTNG2	9	135073412	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	688099	135073412	6140019	769	84596											
NTNG2	84628	broad.mit.edu	37	chr9	135073809	135073809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgcttcgccatctttgccGgccccgacctgcgcaacatg	6	8	9	18	5	1	0	0	0	1	0	2	1	1	0	6	1	3	2	6	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:135073809G>A	uc004cbh.2	+	3	1446	c.670G>A	c.(670-672)GGC>AGC	p.G224S		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	224	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CATCTTTGCCGGCCCCGACCT	0.657													24	42					0	0	1	0	0		A	135073809	A	A	135073809	3	1	155	1	0	0	0	0	1	0	0	0	10724	1116	39	1	676	1	NTNG2	9	135073809	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	397	135073809	6139622	770	84597											
DDX31	64794	broad.mit.edu	37	chr9	135487583	135487583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggagggatcggacgtGgaagatgtgcttcagctccc	9	8	16	8	2	1	1	1	0	0	1	3	5	2	5	1	5	2	2	1	5	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:135487583G>A	uc004cbq.1	-	19	2352	c.2200C>T	c.(2200-2202)CAC>TAC	p.H734Y	DDX31_uc010mzu.1_Missense_Mutation_p.H661Y	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	734						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		GATCGGACGTGGAAGATGTGC	0.557													9	131					0	0	1	0	0		A	135487583	A	A	135487583	3	1	155	1	0	0	0	0	1	0	0	0	4359	1348	47	4	363	4	DDX31	9	135487583	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	413774	135487583	5725848	771	84598											
RALGDS	5900	broad.mit.edu	37	chr9	135976954	135976954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccacgtccaggctgacgcGgatgatacagcagtcgccca	9	6	12	14	4	0	2	0	2	0	0	3	3	2	3	3	2	2	2	3	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:135976954G>A	uc004cco.2	-	16	2427	c.2407C>T	c.(2407-2409)CGC>TGC	p.R803C	RALGDS_uc004cct.1_5'Flank|RALGDS_uc004ccn.2_5'UTR|RALGDS_uc004ccp.2_RNA|RALGDS_uc004ccq.2_Missense_Mutation_p.R791C|RALGDS_uc004ccr.2_Missense_Mutation_p.R802C|RALGDS_uc011mcv.1_Missense_Mutation_p.R774C|RALGDS_uc004ccs.2_Missense_Mutation_p.R748C|RALGDS_uc011mcw.1_Missense_Mutation_p.R874C|RALGDS_uc004ccv.1_Missense_Mutation_p.P630L|RALGDS_uc004ccu.1_Missense_Mutation_p.R572C	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	803	Ras-associating.				nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		AGGCTGACGCGGATGATACAG	0.642			T	CIITA	PMBL|Hodgkin Lymphona|								8	148					0	0	1	0	0		A	135976954	A	A	135976954	3	1	155	1	0	0	0	0	1	0	0	0	13041	1116	39	1	349	1	RALGDS	9	135976954	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	489371	135976954	5236477	772	84599											
REXO4	57109	broad.mit.edu	37	chr9	136277417	136277417	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgagctgtggatgacatAccctgcttgaggttctcagg	7	12	12	10	0	1	3	1	3	1	0	3	4	2	4	2	3	3	3	2	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:136277417A>G	uc004cdm.2	-	4	1110	c.910_splice	c.e4+1	p.G304_splice	ADAMTS13_uc004cdp.3_5'Flank|REXO4_uc011mde.1_Splice_Site_p.G167_splice|REXO4_uc011mdf.1_Splice_Site_p.G167_splice|REXO4_uc004cdn.2_Splice_Site_p.G55_splice|REXO4_uc004cdo.2_Intron	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog							nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		TGGATGACATACCCTGCTTGA	0.498													11	349					0	0	1	0	0		G	136277417	G	G	136277417	5	3	155	1	0	0	0	0	0	0	1	0	13268	405	14	3	376	3	REXO4	9	136277417	Splice_Site	SNP	A	TCGA-CG-5726-01A-11D-1600-08	300463	136277417	4936014	773	84600											
KCNT1	57582	broad.mit.edu	37	chr9	138642852	138642852	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgcctgctctacattgtgcgCgtcctgctcgatgacccggc	4	11	11	15	4	1	1	0	1	1	0	3	2	2	1	3	1	5	2	3	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:138642852C>T	uc011mdq.1	+	4	473	c.399C>T	c.(397-399)CGC>CGT	p.R133R	KCNT1_uc011mdr.1_Intron|KCNT1_uc010nbf.2_Silent_p.R85R|KCNT1_uc004cgo.1_5'Flank	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	133						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		ACATTGTGCGCGTCCTGCTCG	0.706													44	50					0	0	1	0	0		T	138642852	T	T	138642852	2	4	155	1	0	0	0	0	0	0	0	1	8107	755	27	1		1	KCNT1	9	138642852	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2365435	138642852	2570579	774	84601											
KCNT1	57582	broad.mit.edu	37	chr9	138670649	138670649	+	Missense_Mutation	SNP	A	G	G	1	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	cggacgccaagaccatcgtcAacgtgcagaccatgttccgg	10	6	11	14	5	1	2	1	0	0	2	3	3	2	3	4	2	2	2	4	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:138670649A>G	uc011mdq.1	+	23	2784	c.2710A>G	c.(2710-2712)AAC>GAC	p.N904D	KCNT1_uc011mdr.1_Missense_Mutation_p.N731D|KCNT1_uc010nbf.2_Missense_Mutation_p.N859D|KCNT1_uc004cgo.1_Missense_Mutation_p.N653D	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	904						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		GACCATCGTCAACGTGCAGAC	0.637													22	14					0	0	1	0	0		G	138670649	G	G	138670649	3	3	155	1	0	0	0	0	1	0	0	0	8107	130	5	3	2800	3	KCNT1	9	138670649	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	27797	138670649	2542782	775	84602											
NOTCH1	4851	broad.mit.edu	37	chr9	139390651	139390651	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccactggtcaggggactcagGggacggggtgaggaaggggt	8	5	21	7	1	2	1	2	1	0	0	2	4	2	4	1	10	0	0	1	10	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:139390651G>T	uc004chz.2	-	34	7540	c.7540C>A	c.(7540-7542)CCT>ACT	p.P2514T		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2514	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.T2512fs*1(1)|p.S2514fs*4(1)|p.S2514F(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GGGGACTCAGGGGACGGGGTG	0.662			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			7	10					8.12818e-05	8.30715e-05	1	1	0		T	139390651	T	T	139390651	3	4	155	1	0	0	0	0	1	0	0	0	10566	1232	43	5	131	5	NOTCH1	9	139390651	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	720002	139390651	1822780	776	84603											
NOTCH1	4851	broad.mit.edu	37	chr9	139391646	139391646	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccttgccgtcctgggacTtcttcctccgtgccttgagg	3	12	11	15	2	1	1	0	1	1	0	4	2	4	2	6	2	3	0	6	2	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:139391646T>C	uc004chz.2	-	34	6545	c.6545A>G	c.(6544-6546)AAG>AGG	p.K2182R		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2182	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTCCTGGGACTTCTTCCTCCG	0.657			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			4	99					0	0	1	0	0		C	139391646	C	C	139391646	3	2	155	1	0	0	0	0	1	0	0	0	10566	1609	56	3	1126	3	NOTCH1	9	139391646	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	995	139391646	1821785	777	84604											
C9orf172	389813	broad.mit.edu	37	chr9	139739734	139739734	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacagaggagccccaaggcTtccggggcagctttgcagcc	9	6	13	13	1	0	1	0	0	0	1	1	2	1	2	4	4	5	4	4	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:139739734T>G	uc011meh.1	+	1	868	c.868T>G	c.(868-870)TTC>GTC	p.F290V	PHPT1_uc004cjp.2_5'Flank	NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	290	Pro-rich.										0						GCCCCAAGGCTTCCGGGGCAG	0.697													6	15					0	0	1	0	0		G	139739734	G	G	139739734	3	3	155	1	0	0	0	0	1	0	0	0	2474	1609	56	5	870	5	C9orf172	9	139739734	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	348088	139739734	1473697	778	84605											
ENTPD2	954	broad.mit.edu	37	chr9	139946009	139946009	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtagaggggtgtgccCgcgtgtctctctttgggcac	4	10	15	12	2	2	1	0	0	2	1	3	1	2	1	2	4	1	2	2	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:139946009C>T	uc004ckw.1	-	3	395	c.339G>A	c.(337-339)GCG>GCA	p.A113A	ENTPD2_uc004ckv.1_5'Flank|ENTPD2_uc004ckx.1_Silent_p.A113A	NM_203468	NP_982293	Q9Y5L3	ENTP2_HUMAN	ectonucleoside triphosphate diphosphohydrolase 2	113	Extracellular (Potential).					integral to membrane	ATP binding				0	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)		GGGGTGTGCCCGCGTGTCTCT	0.622													20	30					0	0	1	0	0		T	139946009	T	T	139946009	2	4	155	1	0	0	0	0	0	0	0	1	5147	639	23	1		1	ENTPD2	9	139946009	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	206275	139946009	1267422	779	84606											
DPP7	29952	broad.mit.edu	37	chr9	140005168	140005168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggctgcctttacccactCgccgatgatggtggcctcca	5	10	10	16	2	0	1	0	1	0	0	2	2	1	1	6	3	2	1	6	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr9:140005168C>T	uc004clh.2	-	13	1441	c.1411G>A	c.(1411-1413)GAG>AAG	p.E471K		NM_013379	NP_037511	Q9UHL4	DPP2_HUMAN	dipeptidyl peptidase 7 preproprotein	471						cytoplasmic membrane-bounded vesicle|extracellular region|lysosome	aminopeptidase activity|protein binding|serine-type peptidase activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;4.25e-05)|Epithelial(140;0.000633)		TTTACCCACTCGCCGATGATG	0.672													22	10					0	0	1	0	0		T	140005168	T	T	140005168	3	4	155	1	0	0	0	0	1	0	0	0	4737	893	31	1	71	1	DPP7	9	140005168	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	59159	140005168	1208263	780	84607											
PITRM1	10531	broad.mit.edu	37	chr10	3193501	3193501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatatcggaaactttcaacGctggcagacaagaggcatct	14	8	9	10	2	2	2	1	0	1	2	3	3	2	3	0	3	2	3	0	3	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:3193501G>A	uc010qah.1	-	14	1612	c.1580C>T	c.(1579-1581)GCG>GTG	p.A527V	PITRM1_uc001igr.1_Missense_Mutation_p.A559V|PITRM1_uc001igt.1_Missense_Mutation_p.A559V|PITRM1_uc009xhv.1_Missense_Mutation_p.A124V|PITRM1_uc001igu.1_Missense_Mutation_p.A551V|PITRM1_uc010qai.1_Missense_Mutation_p.A530V|PITRM1_uc001igw.1_Missense_Mutation_p.A559V			E7ES23	E7ES23_HUMAN	SubName: Full=cDNA FLJ54065, moderately similar to Mus musculus pitrilysin metallepetidase 1 (Pitrm1), mRNA;	527					proteolysis		metalloendopeptidase activity|zinc ion binding			pancreas(1)	1						AACTTTCAACGCTGGCAGACA	0.448													3	26					0	0	1	0	0		A	3193501	A	A	3193501	3	1	155	1	0	0	0	0	1	0	0	0	11972	1087	38	1	1489	1	PITRM1	10	3193501	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08		3193501	132341246	781	84608											
ITIH5	80760	broad.mit.edu	37	chr10	7621950	7621950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacgatgagggacacgctccGgtctccaatgccactgtggg	8	7	14	12	3	1	1	0	1	1	0	3	4	2	2	3	3	1	1	3	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:7621950G>A	uc001ijq.2	-	9	1265	c.1186C>T	c.(1186-1188)CGG>TGG	p.R396W	ITIH5_uc001ijp.2_Missense_Mutation_p.R182W|ITIH5_uc001ijr.1_Missense_Mutation_p.R396W	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	396	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GACACGCTCCGGTCTCCAATG	0.627													7	19					0	0	1	0	0		A	7621950	A	A	7621950	3	1	155	1	0	0	0	0	1	0	0	0	7923	1115	39	1	1789	1	ITIH5	10	7621950	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4428449	7621950	127912797	782	84609											
GATA3	2625	broad.mit.edu	37	chr10	8100470	8100470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggggggccacgccagcccGcacctcttcaccttcccgcc	4	6	10	21	4	2	0	1	0	1	0	4	0	3	0	7	3	1	1	7	3	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:8100470G>A	uc001ika.2	+	3	1001	c.444G>A	c.(442-444)CCG>CCA	p.P148P	GATA3_uc001ijz.2_Silent_p.P148P	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	148					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						ACGCCAGCCCGCACCTCTTCA	0.731			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						23	22					0	0	1	0	0		A	8100470	A	A	8100470	2	1	155	1	0	0	0	0	0	0	0	1	6270	1074	38	1		1	GATA3	10	8100470	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	478520	8100470	127434277	783	84610											
CDNF	441549	broad.mit.edu	37	chr10	14867476	14867476	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacacggggctgtgttatAccatatttcagctcacagat	13	11	8	9	1	2	1	2	0	0	1	2	1	2	1	1	2	3	3	1	2	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:14867476A>G	uc001inb.1	-	3	423	c.385_splice	c.e3+1	p.E129_splice	CDNF_uc010qbv.1_Intron|CDNF_uc001inc.1_Splice_Site_p.E20_splice	NM_001029954	NP_001025125	Q49AH0	CDNF_HUMAN	arginine-rich, mutated in early stage							extracellular region	growth factor activity				0						GCTGTGTTATACCATATTTCA	0.423													95	125					0	0	1	0	0		G	14867476	G	G	14867476	5	3	155	1	0	0	0	0	0	0	1	0	3171	405	14	3	184	3	CDNF	10	14867476	Splice_Site	SNP	A	TCGA-CG-5726-01A-11D-1600-08	6767006	14867476	120667271	784	84611											
MRC1	4360	broad.mit.edu	37	chr10	17865318	17865318	+	Frame_Shift_Del	DEL	A	-	-																															aatttcagaaatgggagtgcAaaaatgacacacttttgggg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:17865318delA	uc001ipk.2	+	2	410	c.307delA	c.(307-309)AAAfs	p.K103fs		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	103	Extracellular (Potential).|Ricin B-type lectin.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						ATGGGAGTGCAAAAATGACAC	0.388													75	155	---	---	---	---						.	-	17865318	-	-	17865318	7	5	155	1	0	1	0	1	0	0	0	0	9774	131	5	0	313	0	MRC1	10	17865318	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	2997842	17865318	117669429	785	84612											
PLXDC2	84898	broad.mit.edu	37	chr10	20453421	20453421	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtcttggtcacacagataAgttcaaccaatcatccagtg	12	11	7	11	0	4	1	3	0	1	1	5	1	5	1	2	1	1	1	2	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:20453421A>T	uc001iqg.1	+	7	1445	c.808A>T	c.(808-810)AGT>TGT	p.S270C	PLXDC2_uc001iqh.1_Missense_Mutation_p.S221C|PLXDC2_uc009xkc.1_RNA	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	270	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						CACACAGATAAGTTCAACCAA	0.428													7	101					0	0	1	0	0		T	20453421	T	T	20453421	3	4	155	1	0	0	0	0	1	0	0	0	12137	72	3	5	834	5	PLXDC2	10	20453421	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2588103	20453421	115081326	786	84613											
NEBL	10529	broad.mit.edu	37	chr10	21117557	21117557	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctctgcttcatctttatActttctctaaaaacataaac	12	17	1	11	0	4	0	1	0	3	0	6	0	4	0	0	0	4	1	0	0	7	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:21117557A>G	uc001iqi.2	-	17	2075	c.1678T>C	c.(1678-1680)TAT>CAT	p.Y560H	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	560	Nebulin 15.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TCATCTTTATACTTTCTCTAA	0.269													18	39					0	0	1	0	0		G	21117557	G	G	21117557	3	3	155	1	0	0	0	0	1	0	0	0	10322	391	14	3	1414	3	NEBL	10	21117557	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	664136	21117557	114417190	787	84614											
PTCHD3	374308	broad.mit.edu	37	chr10	27702960	27702960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcgacggccgggggggtgCatcgtccccctctggcaggg	4	6	17	14	4	1	0	0	0	1	0	4	1	2	0	3	6	1	2	3	6	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:27702960C>T	uc001itu.2	-	1	338	c.220G>A	c.(220-222)GCA>ACA	p.A74T		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	74					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CGGGGGGGTGCATCGTCCCCC	0.716													11	27					0	0	1	0	0		T	27702960	T	T	27702960	3	4	155	1	0	0	0	0	1	0	0	0	12756	710	25	2	2099	2	PTCHD3	10	27702960	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6585403	27702960	107831787	788	84615											
SVIL	6840	broad.mit.edu	37	chr10	29754537	29754537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttacctggctggggcgcGctgtacagatcttcctgcag	5	10	13	13	2	1	1	0	0	1	1	2	1	2	1	3	3	3	4	3	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:29754537G>A	uc001iut.1	-	34	6873	c.6120C>T	c.(6118-6120)AGC>AGT	p.S2040S	LOC387647_uc001iuo.1_Intron|LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Silent_p.S954S|SVIL_uc001iuu.1_Silent_p.S1614S	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	2040	Gelsolin-like 5.				cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				GCTGGGGCGCGCTGTACAGAT	0.537													33	46					0	0	1	0	0		A	29754537	A	A	29754537	2	1	155	1	0	0	0	0	0	0	0	1	15446	1078	38	1		1	SVIL	10	29754537	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2051577	29754537	105780210	789	84616											
HNRNPF	3185	broad.mit.edu	37	chr10	43882582	43882582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtggtgaagccgtagccatCactgaggccactgtactcct	8	9	12	12	1	1	2	1	2	0	0	2	2	2	2	4	3	3	2	4	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:43882582C>T	uc009xmh.1	-	3	1238	c.751G>A	c.(751-753)GAT>AAT	p.D251N	HNRNPF_uc001jar.2_Missense_Mutation_p.D251N|HNRNPF_uc001jas.2_Missense_Mutation_p.D251N|HNRNPF_uc001jat.2_Missense_Mutation_p.D251N|HNRNPF_uc001jav.2_Missense_Mutation_p.D251N|HNRNPF_uc001jau.2_Missense_Mutation_p.D251N|uc010qfa.1_Silent_p.I88I	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	251					regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						CCGTAGCCATCACTGAGGCCA	0.577													22	41					0	0	1	0	0		T	43882582	T	T	43882582	3	4	155	1	0	0	0	0	1	0	0	0	7281	826	29	4	500	4	HNRNPF	10	43882582	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	14128045	43882582	91652165	790	84617											
ZNF239	8187	broad.mit.edu	37	chr10	44052829	44052829	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattgctcacatttgtagggTttttcttctgtgtggtctct	4	20	9	8	0	4	0	1	0	3	0	5	0	4	0	0	2	1	3	0	2	1	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:44052829T>G	uc001jaw.3	-	2	1352	c.699A>C	c.(697-699)AAA>AAC	p.K233N	ZNF239_uc001jax.3_Missense_Mutation_p.K233N|ZNF239_uc009xmj.2_Missense_Mutation_p.K233N|ZNF239_uc009xmk.2_Missense_Mutation_p.K233N	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	233					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						ATTTGTAGGGTTTTTCTTCTG	0.453													5	250					0	0	1	0	0		G	44052829	G	G	44052829	3	3	155	1	0	0	0	0	1	0	0	0	17816	1722	60	5	681	5	ZNF239	10	44052829	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	170247	44052829	91481918	791	84618											
C10orf25	220979	broad.mit.edu	37	chr10	45496243	45496243	+	Frame_Shift_Del	DEL	G	-	-																															cacaggacgccttccgagttGgggggaggagaaaacaaaac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:45496243delG	uc001jbv.1	-	1	94	c.65delC	c.(64-66)CCAfs	p.P22fs	C10orf25_uc010qff.1_RNA|ZNF22_uc001jbw.2_5'Flank	NM_001039380	NP_001034469	Q5T742	CJ025_HUMAN	hypothetical protein LOC220979 precursor	22						extracellular region					0						CTTCCGAGTTGGGGGGAGGAG	0.587													20	36	---	---	---	---						.	-	45496243	-	-	45496243	7	5	155	1	0	1	0	1	0	0	0	0	1601	1348	47	0	311	0	C10orf25	10	45496243	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	1443414	45496243	90038504	792	84619											
ANUBL1	93550	broad.mit.edu	37	chr10	46121505	46121505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttccagagttctgaagcctgCctgccccacgtgtgctctgt	5	12	10	14	1	2	2	0	1	2	1	3	2	3	2	5	0	4	2	5	0	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:46121505C>T	uc001jcp.3	-	7	2008	c.1766G>A	c.(1765-1767)GGC>GAC	p.G589D	ANUBL1_uc001jcl.3_Missense_Mutation_p.G109D|ANUBL1_uc001jcm.3_Missense_Mutation_p.G589D|ANUBL1_uc009xmu.2_Missense_Mutation_p.G515D|ANUBL1_uc001jcn.3_Missense_Mutation_p.G515D|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	589							zinc ion binding				0						CTGAAGCCTGCCTGCCCCACG	0.463													91	164					0	0	1	0	0		T	46121505	T	T	46121505	3	4	155	1	0	0	0	0	1	0	0	0	713	739	26	2	433	2	ANUBL1	10	46121505	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	625262	46121505	89413242	793	84620											
AGAP6	414189	broad.mit.edu	37	chr10	51754188	51754188	+	Missense_Mutation	SNP	A	G	G	1	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	aagaagcaactgtacaaaccAtgtaagtaaacactcaaata	21	7	5	8	0	1	1	1	0	0	1	1	1	1	1	1	0	5	4	1	0	10	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:51754188A>G	uc001jix.3	+	4	793	c.395A>G	c.(394-396)CAT>CGT	p.H132R		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	132					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						TGTACAAACCATGTAAGTAAA	0.299													23	166					0	0	1	0	0		G	51754188	G	G	51754188	3	3	155	1	0	0	0	0	1	0	0	0	372	231	8	3	409	3	AGAP6	10	51754188	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	5632683	51754188	83780559	794	84621											
DKK1	22943	broad.mit.edu	37	chr10	54074209	54074209	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tctgagatgatggctctgggCgcagcgggagctacccgggt	6	8	17	10	3	2	2	0	2	2	1	2	4	2	3	1	4	3	3	1	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:54074209C>T	uc001jjr.2	+	1	169	c.15C>T	c.(13-15)GGC>GGT	p.G5G	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	5					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TGGCTCTGGGCGCAGCGGGAG	0.602											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	82					0	0	1	0	0		T	54074209	T	T	54074209	2	4	155	1	0	0	0	0	0	0	0	1	4550	755	27	1		1	DKK1	10	54074209	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2320021	54074209	81460538	795	84622											
ZWINT	11130	broad.mit.edu	37	chr10	58119262	58119262	+	Missense_Mutation	SNP	A	G	G	1	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	gtagctgccactggttctggActgctctgcgtttctccatg	4	14	11	12	1	3	0	0	0	3	0	4	1	3	1	2	2	4	5	2	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:58119262A>G	uc001jjx.1	-	5	492	c.455T>C	c.(454-456)GTC>GCC	p.V152A	ZWINT_uc001jjy.1_Missense_Mutation_p.V152A|ZWINT_uc001jka.1_Missense_Mutation_p.V152A|ZWINT_uc009xoy.1_RNA	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	152	Interaction with NDC80 and ZW10.|Potential.				cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						CTGGTTCTGGACTGCTCTGCG	0.478													35	48					0	0	1	0	0		G	58119262	G	G	58119262	3	3	155	1	0	0	0	0	1	0	0	0	18274	275	10	3	394	3	ZWINT	10	58119262	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	4045053	58119262	77415485	796	84623											
ANK3	288	broad.mit.edu	37	chr10	61833637	61833637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagcttggttacctttttcGatgtggacttctattatacg	7	18	8	8	2	2	0	1	0	1	0	3	2	2	1	1	2	3	2	1	2	4	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:61833637G>A	uc001jky.2	-	37	7194	c.7002C>T	c.(7000-7002)ATC>ATT	p.I2334I	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2334					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TACCTTTTTCGATGTGGACTT	0.428													15	283					0	0	1	0	0		A	61833637	A	A	61833637	2	1	155	1	0	0	0	0	0	0	0	1	622	1048	37	1		1	ANK3	10	61833637	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3714375	61833637	73701110	797	84624											
ANK3	288	broad.mit.edu	37	chr10	61835708	61835708	+	Frame_Shift_Del	DEL	G	-	-																															tgtttgatttgggggaggcaGggggtgtcatagtaattgat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:61835708delG	uc001jky.2	-	37	5123	c.4931delC	c.(4930-4932)CCTfs	p.P1644fs	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1644	Ser-rich.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GGGGGAGGCAGGGGGTGTCAT	0.418													50	100	---	---	---	---						.	-	61835708	-	-	61835708	7	5	155	1	0	1	0	1	0	0	0	0	622	1000	35	0	8543	0	ANK3	10	61835708	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	2071	61835708	73699039	798	84625											
JMJD1C	221037	broad.mit.edu	37	chr10	64936152	64936152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcaagcagcctttgacGgagctttttgttcacatacc	8	15	7	11	1	3	1	2	1	1	0	3	2	3	2	2	1	4	3	2	1	2	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:64936152G>A	uc001jmn.2	-	24	7606	c.7306C>T	c.(7306-7308)CGT>TGT	p.R2436C	JMJD1C_uc001jml.2_Missense_Mutation_p.R2199C|JMJD1C_uc001jmm.2_Missense_Mutation_p.R2148C|JMJD1C_uc010qiq.1_Missense_Mutation_p.R2254C|JMJD1C_uc009xpi.2_Missense_Mutation_p.R2254C|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmk.2_RNA	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	2436	JmjC.				blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AGCCTTTGACGGAGCTTTTTG	0.393													58	107					0	0	1	0	0		A	64936152	A	A	64936152	3	1	155	1	0	0	0	0	1	0	0	0	7966	1116	39	1	328	1	JMJD1C	10	64936152	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3100444	64936152	70598595	799	84626											
JMJD1C	221037	broad.mit.edu	37	chr10	64958334	64958334	+	Silent	SNP	A	G	G	1	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	actaattgacagaacttatcAcctattatatccaagatata	17	13	3	8	0	1	3	1	1	0	2	2	3	2	3	2	0	1	0	2	0	9	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:64958334A>G	uc001jmn.2	-	12	5730	c.5430T>C	c.(5428-5430)GGT>GGC	p.G1810G	JMJD1C_uc001jml.2_Silent_p.G1591G|JMJD1C_uc001jmm.2_Silent_p.G1522G|JMJD1C_uc010qiq.1_Silent_p.G1628G|JMJD1C_uc009xpi.2_Silent_p.G1628G|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Intron	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1810					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AGAACTTATCACCTATTATAT	0.313													106	186					0	0	1	0	0		G	64958334	G	G	64958334	2	3	155	1	0	0	0	0	0	0	0	1	7966	146	6	3		3	JMJD1C	10	64958334	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	22182	64958334	70576413	800	84627											
HERC4	26091	broad.mit.edu	37	chr10	69792621	69792621	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttagtaaattaggaacatAcctatctgaaaattccaaca	17	12	4	8	0	1	1	0	1	1	0	2	2	2	2	2	1	3	1	2	1	10	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:69792621A>G	uc001jng.3	-	7	1002	c.691T>C	c.(691-693)TAT>CAT	p.Y231H	HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.Y231H|HERC4_uc009xpr.2_Missense_Mutation_p.Y231H|HERC4_uc001jni.3_Intron|HERC4_uc001jnj.2_Missense_Mutation_p.Y231H	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	231	RCC1 5.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						TTAGGAACATACCTATCTGAA	0.323													48	78					0	0	1	0	0		G	69792621	G	G	69792621	3	3	155	1	0	0	0	0	1	0	0	0	7076	391	14	3	2562	3	HERC4	10	69792621	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	4834287	69792621	65742126	801	84628											
HK1	3098	broad.mit.edu	37	chr10	71144668	71144668	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgccagcagacgagtctggaCgcggtgagtctctgttctta	7	11	13	10	3	3	2	0	1	3	1	4	4	3	3	1	2	2	2	1	2	1	2	rs143834023		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:71144668C>T	uc001jpl.3	+	12	1937	c.1836C>T	c.(1834-1836)GAC>GAT	p.D612D	HK1_uc001jpg.3_Silent_p.D600D|HK1_uc001jph.3_Silent_p.D616D|HK1_uc001jpi.3_Silent_p.D616D|HK1_uc001jpj.3_Silent_p.D647D|HK1_uc001jpk.3_Silent_p.D611D|HK1_uc009xqd.2_Silent_p.D490D	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	612	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						CGAGTCTGGACGCGGTGAGTC	0.592													88	114					0	0	1	0	0		T	71144668	T	T	71144668	2	4	155	1	0	0	0	0	0	0	0	1	7206	535	19	1		1	HK1	10	71144668	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1352047	71144668	64390079	802	84629											
H2AFY2	55506	broad.mit.edu	37	chr10	71868937	71868937	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagaagctaaagtccgtCgcgttcccgcctttccccag	9	8	9	15	4	0	1	0	0	0	1	4	2	3	1	5	0	1	2	5	0	4	3	rs116103919	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:71868937C>A	uc001jqm.2	+	8	1386	c.927C>A	c.(925-927)GTC>GTA	p.V309V	H2AFY2_uc001jqn.2_RNA|AIFM2_uc010qjg.1_Intron	NM_018649	NP_061119	Q9P0M6	H2AW_HUMAN	H2A histone family, member Y2	309	Macro.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding			skin(1)	1						TAAAGTCCGTCGCGTTCCCGC	0.547													3	83					0.150653	0.151196	1	1	0		A	71868937	A	A	71868937	2	1	155	1	0	0	0	0	0	0	0	1	6946	871	31	5		5	H2AFY2	10	71868937	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	724269	71868937	63665810	803	84630											
CHST3	9469	broad.mit.edu	37	chr10	73767332	73767332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccggggggcgccaacgcCgcgggctcggccctggtgta	4	4	19	14	6	0	0	0	0	0	0	1	1	0	0	4	6	2	2	4	6	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:73767332C>T	uc001jsn.2	+	3	983	c.543C>T	c.(541-543)GCC>GCT	p.A181A		NM_004273	NP_004264	Q7LGC8	CHST3_HUMAN	chondroitin 6-sulfotransferase 3	181	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity				0						GCGCCAACGCCGCGGGCTCGG	0.652													7	17					0	0	1	0	0		T	73767332	T	T	73767332	2	4	155	1	0	0	0	0	0	0	0	1	3408	639	23	1		1	CHST3	10	73767332	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1898395	73767332	61767415	804	84631											
SEC24C	9632	broad.mit.edu	37	chr10	75530210	75530210	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tttcagcgtctcctccttcaGtcagatcaccagtggtttgg	6	14	9	12	1	5	1	4	0	1	1	7	1	6	1	3	2	1	1	3	2	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:75530210G>A	uc001juw.2	+	22	3214	c.3035G>A	c.(3034-3036)AGT>AAT	p.S1012N	SEC24C_uc001jux.2_Missense_Mutation_p.S1012N|SEC24C_uc010qko.1_Missense_Mutation_p.S893N|SEC24C_uc010qkp.1_Missense_Mutation_p.S260N|SEC24C_uc010qkq.1_Missense_Mutation_p.S260N|FUT11_uc001juy.1_5'Flank|FUT11_uc001juz.1_5'Flank|FUT11_uc001jva.2_5'Flank	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	1012					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					TCCTCCTTCAGTCAGATCACC	0.483													182	366					0	0	1	0	0		A	75530210	A	A	75530210	3	1	155	1	0	0	0	0	1	0	0	0	14021	1029	36	4	3113	4	SEC24C	10	75530210	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1762878	75530210	60004537	805	84632											
KIAA0913	23053	broad.mit.edu	37	chr10	75560431	75560431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggagatgctgggtcgccgggCacacaacgatcaccccaaca	11	4	12	14	3	1	1	1	0	0	1	2	3	1	1	3	3	3	2	3	3	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:75560431C>T	uc009xrl.2	+	24	5077	c.5045C>T	c.(5044-5046)GCA>GTA	p.A1682V	KIAA0913_uc001jve.2_Missense_Mutation_p.A1687V|KIAA0913_uc001jvf.2_Missense_Mutation_p.A1500V|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Missense_Mutation_p.A1109V|KIAA0913_uc010qkr.1_Missense_Mutation_p.A1097V|KIAA0913_uc001jvj.2_Missense_Mutation_p.A1097V|KIAA0913_uc009xrn.1_Missense_Mutation_p.A93V	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1682							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					GGTCGCCGGGCACACAACGAT	0.572													21	50					0	0	1	0	0		T	75560431	T	T	75560431	3	4	155	1	0	0	0	0	1	0	0	0	8216	710	25	2	5154	2	KIAA0913	10	75560431	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	30221	75560431	59974316	806	84633											
VCL	7414	broad.mit.edu	37	chr10	75834640	75834640	+	Silent	SNP	T	C	C	0	1	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	ttacaactcacctcttgggaTgaagatgcctgggccagcaa	11	9	10	11	0	2	2	1	1	1	1	2	3	2	3	3	2	4	1	3	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:75834640T>C	uc001jwd.2	+	6	856	c.762T>C	c.(760-762)GAT>GAC	p.D254D	VCL_uc009xrr.2_5'UTR|VCL_uc010qky.1_Silent_p.D161D|VCL_uc001jwe.2_Silent_p.D254D|VCL_uc010qkz.1_Intron	NM_014000	NP_054706	P18206	VINC_HUMAN	vinculin isoform meta-VCL	254	N-terminal globular head.				adherens junction assembly|apical junction assembly|cell-matrix adhesion|cellular component movement|epithelial cell-cell adhesion|lamellipodium assembly|morphogenesis of an epithelium|muscle contraction|negative regulation of cell migration|platelet activation|platelet degranulation|protein localization at cell surface	costamere|cytosol|extracellular region|focal adhesion	actin binding|alpha-catenin binding|beta-catenin binding|beta-dystroglycan binding|cadherin binding|structural molecule activity		VCL/ALK(4)	kidney(4)|ovary(1)|central_nervous_system(1)	6	Prostate(51;0.0112)					CCTCTTGGGATGAAGATGCCT	0.423													21	149					0	0	1	0	0		C	75834640	C	C	75834640	2	2	155	1	0	0	0	0	0	0	0	1	17165	1461	51	3		3	VCL	10	75834640	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	274209	75834640	59700107	807	84634											
MYST4	23522	broad.mit.edu	37	chr10	76790391	76790391	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cgtctctgtcaccagccgctGccacccatcagtcacaaatc	9	8	6	18	2	4	0	3	0	1	0	6	0	4	0	4	0	2	1	4	0	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:76790391G>A	uc001jwn.1	+	18	6302	c.5809G>A	c.(5809-5811)GCC>ACC	p.A1937T	MYST4_uc001jwo.1_Missense_Mutation_p.A1645T|MYST4_uc001jwp.1_Missense_Mutation_p.A1754T	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1937	Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					ACCAGCCGCTGCCACCCATCA	0.522			T	CREBBP	AML								38	55					0	0	1	0	0		A	76790391	A	A	76790391	3	1	155	1	0	0	0	0	1	0	0	0	10123	1319	46	2	5871	2	MYST4	10	76790391	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	955751	76790391	58744356	808	84635											
KCNMA1	3778	broad.mit.edu	37	chr10	78669765	78669765	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacactgacggcaaatgctgTcccacaggcaaagggctgcg	11	5	13	12	2	0	1	0	1	0	0	1	2	1	1	1	3	2	4	1	3	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:78669765T>C	uc001jxn.2	-	25	3283	c.3106A>G	c.(3106-3108)ACA>GCA	p.T1036A	KCNMA1_uc001jxj.2_Missense_Mutation_p.T982A|KCNMA1_uc001jxk.1_Missense_Mutation_p.T654A|KCNMA1_uc009xrt.1_Missense_Mutation_p.T827A|KCNMA1_uc001jxl.1_Missense_Mutation_p.T661A|KCNMA1_uc001jxo.2_Missense_Mutation_p.T1019A|KCNMA1_uc001jxm.2_Missense_Mutation_p.T978A|KCNMA1_uc001jxq.2_Missense_Mutation_p.T1008A	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1036	Segment S10.|Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	GCAAATGCTGTCCCACAGGCA	0.483													4	60					0	0	1	0	0		C	78669765	C	C	78669765	3	2	155	1	0	0	0	0	1	0	0	0	8089	1667	58	3	649	3	KCNMA1	10	78669765	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1879374	78669765	56864982	809	84636											
DLG5	9231	broad.mit.edu	37	chr10	79567608	79567608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccttcgtgaactcctcagggCggtactgcaccttcaggcgg	6	9	12	14	3	2	1	2	1	0	0	4	1	3	1	3	4	3	2	3	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:79567608C>T	uc001jzk.2	-	25	4812	c.4742G>A	c.(4741-4743)CGC>CAC	p.R1581H	DLG5_uc001jzi.2_Missense_Mutation_p.R336H|DLG5_uc001jzj.2_Missense_Mutation_p.R996H|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1581	PDZ 4.				cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CTCCTCAGGGCGGTACTGCAC	0.587													38	80					0	0	1	0	0		T	79567608	T	T	79567608	3	4	155	1	0	0	0	0	1	0	0	0	4564	768	27	1	1049	1	DLG5	10	79567608	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	897843	79567608	55967139	810	84637											
POLR3A	11128	broad.mit.edu	37	chr10	79745713	79745713	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttttctacttgggtgggggTgatgcggtccagctggtaca	5	13	15	8	1	1	1	0	1	1	0	2	1	2	1	1	5	4	2	1	5	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:79745713T>C	uc001jzn.2	-	23	3113	c.3019A>G	c.(3019-3021)ACC>GCC	p.T1007A		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	1007					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			TGGGTGGGGGTGATGCGGTCC	0.542													60	63					0	0	1	0	0		C	79745713	C	C	79745713	3	2	155	1	0	0	0	0	1	0	0	0	12247	1696	59	3	1189	3	POLR3A	10	79745713	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	178105	79745713	55789034	811	84638											
LRIT2	340745	broad.mit.edu	37	chr10	85984521	85984521	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggaggataggtcaaggtaggTcaggctgaccaagaattgaa	14	7	15	5	0	2	3	2	2	0	1	2	5	2	5	1	6	0	2	1	6	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:85984521T>A	uc001kcy.2	-	2	468	c.460A>T	c.(460-462)ACC>TCC	p.T154S	LRIT2_uc010qmc.1_Missense_Mutation_p.T154S	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	154	LRR 4.					integral to membrane				ovary(2)	2						TCAAGGTAGGTCAGGCTGACC	0.542													10	123					0	0	1	0	0		A	85984521	A	A	85984521	3	1	155	1	0	0	0	0	1	0	0	0	8966	1667	58	5	1200	5	LRIT2	10	85984521	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	6238808	85984521	49550226	812	84639											
WAPAL	23063	broad.mit.edu	37	chr10	88211855	88211855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtgccgattccgagcacTatactccactagatttatca	12	11	6	12	2	1	1	1	0	0	1	3	3	3	1	3	0	3	1	3	0	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:88211855T>C	uc001kdo.2	-	15	3425	c.2983A>G	c.(2983-2985)AGT>GGT	p.S995G	WAPAL_uc009xsv.2_Intron|WAPAL_uc001kdn.2_Missense_Mutation_p.S1032G|WAPAL_uc009xsw.2_Missense_Mutation_p.S989G	NM_015045	NP_055860	Q7Z5K2	WAPL_HUMAN	wings apart-like homolog	995	WAPL.				cell division|interspecies interaction between organisms|mitosis|negative regulation of chromatin binding|negative regulation of DNA replication|negative regulation of sister chromatid cohesion|protein localization to chromatin|regulation of cohesin localization to chromatin	chromatin|cohesin complex|cytoplasm	protein binding			ovary(1)	1						TTCCGAGCACTATACTCCACT	0.383													36	194					0	0	1	0	0		C	88211855	C	C	88211855	3	2	155	1	0	0	0	0	1	0	0	0	17274	1522	53	3	609	3	WAPAL	10	88211855	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2227334	88211855	47322892	813	84640											
GLUD1	2746	broad.mit.edu	37	chr10	88820771	88820771	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catttagcaccaaaacgatgTaaatatctcatagagtgtag	16	11	7	7	1	1	1	1	0	1	1	2	2	1	1	1	0	2	3	1	0	8	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:88820771T>C	uc001keh.2	-	7	1057	c.960A>G	c.(958-960)TTA>TTG	p.L320L	GLUD1_uc001keg.2_Silent_p.L153L|GLUD1_uc010qmp.1_Silent_p.L187L	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	320					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	CAAAACGATGTAAATATCTCA	0.393													38	370					0	0	1	0	0		C	88820771	C	C	88820771	2	2	155	1	0	0	0	0	0	0	0	1	6491	1635	57	3		3	GLUD1	10	88820771	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	608916	88820771	46713976	814	84641											
ACTA2	59	broad.mit.edu	37	chr10	90701123	90701123	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggggacattgtgggtgacaCcatctccagagtccagcacg	9	8	13	11	1	1	2	0	1	1	1	3	3	2	3	3	3	1	1	3	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:90701123C>G	uc001kfp.2	-	6	595	c.479G>C	c.(478-480)GGT>GCT	p.G160A	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Missense_Mutation_p.G115A|ACTA2_uc001kfq.2_Missense_Mutation_p.G160A	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	160					response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		GTGGGTGACACCATCTCCAGA	0.552													33	57					0	0	1	0	0		G	90701123	G	G	90701123	3	3	155	1	0	0	0	0	1	0	0	0	192	507	18	5	670	5	ACTA2	10	90701123	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1880352	90701123	44833624	815	84642											
MYOF	26509	broad.mit.edu	37	chr10	95079635	95079635	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcagagctcacttttttCgcaacgatacagagttgttc	10	15	7	9	2	2	2	2	0	0	2	4	3	2	2	0	0	3	4	0	0	2	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:95079635C>T	uc001kin.2	-	49	5715	c.5592G>A	c.(5590-5592)GCG>GCA	p.A1864A	MYOF_uc001kio.2_Silent_p.A1851A|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1864	Cytoplasmic (Potential).				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						TCACTTTTTTCGCAACGATAC	0.348													34	87					0	0	1	0	0		T	95079635	T	T	95079635	2	4	155	1	0	0	0	0	0	0	0	1	10107	871	31	1		1	MYOF	10	95079635	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4378512	95079635	40455112	816	84643											
GPR120	338557	broad.mit.edu	37	chr10	95347331	95347331	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccattttaacagacacatctGtcaaaagaaatgacttgtcg	15	11	6	9	1	2	3	1	1	1	2	3	3	2	3	1	0	1	0	1	0	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:95347331G>A	uc010qnt.1	+	4	1155	c.1099G>A	c.(1099-1101)GTC>ATC	p.V367I	GPR120_uc010qnu.1_Missense_Mutation_p.V351I	NM_181745	NP_859529	Q5NUL3	O3FA1_HUMAN	G protein-coupled receptor 120	367	Cytoplasmic (Potential).				negative regulation of cytokine secretion|negative regulation of inflammatory response|regulation of glucose transport	integral to membrane|plasma membrane	fatty acid binding				0		Colorectal(252;0.122)				AGACACATCTGTCAAAAGAAA	0.413													31	171					0	0	1	0	0		A	95347331	A	A	95347331	3	1	155	1	0	0	0	0	1	0	0	0	6651	1377	48	4	1113	4	GPR120	10	95347331	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	267696	95347331	40187416	817	84644											
BLNK	29760	broad.mit.edu	37	chr10	97975104	97975104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttcctggaggagaggcggGcgttgaggaatttggcttgg	6	11	19	5	2	0	2	0	1	0	1	1	5	1	4	1	7	0	3	1	7	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:97975104G>A	uc001kls.3	-	8	827	c.649C>T	c.(649-651)CCC>TCC	p.P217S	BLNK_uc001kme.3_Intron|BLNK_uc001klt.3_Intron|BLNK_uc009xvc.2_Intron|BLNK_uc001klu.3_Missense_Mutation_p.P135S|BLNK_uc001klv.3_Intron|BLNK_uc001klw.3_Intron|BLNK_uc001klx.3_Intron|BLNK_uc001kly.3_Missense_Mutation_p.P217S|BLNK_uc001klz.3_Intron|BLNK_uc001kma.3_Intron|BLNK_uc001kmb.3_Missense_Mutation_p.P13S|BLNK_uc001kmc.3_Intron|BLNK_uc001kmd.3_Missense_Mutation_p.P135S|BLNK_uc009xvd.2_Intron	NM_013314	NP_037446	Q8WV28	BLNK_HUMAN	B-cell linker isoform 1	217	Pro-rich.				B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)		GGAGAGGCGGGCGTTGAGGAA	0.353													73	87					0	0	1	0	0		A	97975104	A	A	97975104	3	1	155	1	0	0	0	0	1	0	0	0	1448	1203	42	2	761	2	BLNK	10	97975104	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2627773	97975104	37559643	818	84645											
C10orf12	26148	broad.mit.edu	37	chr10	98743674	98743674	+	Nonsense_Mutation	SNP	A	T	T	1	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	aagagatttggaaaagcaagAaaaggtcacggaaatgtagg	19	6	13	3	1	1	2	1	0	0	2	1	5	1	4	0	4	1	2	0	4	8	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:98743674A>T	uc001kmv.2	+	1	2634	c.2527A>T	c.(2527-2529)AAA>TAA	p.K843*		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	843										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		GAAAAGCAAGAAAAGGTCACG	0.388													48	69					0	0	1	0	0		T	98743674	T	T	98743674	4	4	155	1	0	0	0	0	0	1	0	0	1592	247	9	5	2529	5	C10orf12	10	98743674	Nonsense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	768570	98743674	36791073	819	84646											
C10orf12	26148	broad.mit.edu	37	chr10	98744692	98744692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tattgcctcggaaacactgaCgaaacctgcaaaacagaagg	16	6	9	10	2	0	2	0	1	0	1	1	4	0	3	2	2	5	1	2	2	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:98744692C>T	uc001kmv.2	+	1	3652	c.3545C>T	c.(3544-3546)ACG>ATG	p.T1182M		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	1182										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		GAAACACTGACGAAACCTGCA	0.512													4	73					0	0	1	0	0		T	98744692	T	T	98744692	3	4	155	1	0	0	0	0	1	0	0	0	1592	536	19	1	3547	1	C10orf12	10	98744692	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1018	98744692	36790055	820	84647											
PI4K2A	55361	broad.mit.edu	37	chr10	99416705	99416705	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccagtttgagcggttggtggTgctggattacatcatccgca	7	12	13	9	2	1	1	1	1	0	0	2	2	2	2	2	4	3	4	2	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:99416705T>C	uc001kog.1	+	4	953	c.896T>C	c.(895-897)GTG>GCG	p.V299A	PI4K2A_uc010qoy.1_Missense_Mutation_p.V269A|PI4K2A_uc009xvw.1_Missense_Mutation_p.C31R	NM_018425	NP_060895	Q9BTU6	P4K2A_HUMAN	phosphatidylinositol 4-kinase type 2 alpha	299	PI3K/PI4K.				phosphatidylinositol biosynthetic process	cytoplasm|integral to plasma membrane|membrane raft	1-phosphatidylinositol 4-kinase activity|ATP binding|magnesium ion binding			lung(1)|skin(1)	2		Colorectal(252;0.162)		Epithelial(162;1.24e-10)|all cancers(201;1.2e-08)		CGGTTGGTGGTGCTGGATTAC	0.562													5	134					0	0	1	0	0		C	99416705	C	C	99416705	3	2	155	1	0	0	0	0	1	0	0	0	11890	1696	59	3	910	3	PI4K2A	10	99416705	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	672013	99416705	36118042	821	84648											
ENTPD7	57089	broad.mit.edu	37	chr10	101439083	101439085	+	In_Frame_Del	DEL	TTG	-	-																															cccaaatctgaattatggacTtgttgttgactgtggcagca																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:101439083_101439085delTTG	uc001kqa.3	+	4	435_437	c.257_259delTTG	c.(256-261)CTTGTT>CTT	p.V88del	ENTPD7_uc009xwl.2_In_Frame_Del_p.V90del	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	88	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		AATTATGGACTTGTTGTTGACTG	0.448													53	111	---	---	---	---						.	-	101439085	-	-	101439083	7	5	155	1	0	1	0	1	0	0	0	0	5152	1609	56	0	267	0	ENTPD7	10	101439083	In_Frame_Del	DEL	TTG	TCGA-CG-5726-01A-11D-1600-08	2022378	101439083	34095664	822	84649											
CWF19L1	55280	broad.mit.edu	37	chr10	102016075	102016075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggggatgtgagcaagatatCaacacccttaaactgggagg	13	8	13	7	0	1	2	1	1	0	1	1	4	1	4	1	4	3	1	1	4	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:102016075C>T	uc001kqq.1	-	5	535	c.448G>A	c.(448-450)GAT>AAT	p.D150N	CWF19L1_uc001kqs.1_Intron|CWF19L1_uc001kqr.1_Missense_Mutation_p.D150N|CWF19L1_uc001kqt.1_Intron|CWF19L1_uc010qpn.1_Missense_Mutation_p.D13N	NM_018294	NP_060764	Q69YN2	C19L1_HUMAN	CWF19-like 1, cell cycle control	150							catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)		AGCAAGATATCAACACCCTTA	0.418													6	192					0	0	1	0	0		T	102016075	T	T	102016075	3	4	155	1	0	0	0	0	1	0	0	0	4074	826	29	4	1208	4	CWF19L1	10	102016075	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	576992	102016075	33518672	823	84650											
FAM178A	55719	broad.mit.edu	37	chr10	102676537	102676537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggtatacatgagtcacGtcggccttgtctgtcactag	8	13	10	10	2	4	1	3	1	1	0	5	1	4	1	1	2	1	1	1	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:102676537G>A	uc001krt.3	+	3	937	c.395G>A	c.(394-396)CGT>CAT	p.R132H	FAM178A_uc001krr.1_Missense_Mutation_p.R132H|FAM178A_uc001krs.2_Missense_Mutation_p.R132H|FAM178A_uc001kru.1_Missense_Mutation_p.R68H	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	132											0						CATGAGTCACGTCGGCCTTGT	0.408													73	89					0	0	1	0	0		A	102676537	A	A	102676537	3	1	155	1	0	0	0	0	1	0	0	0	5514	1145	40	1	405	1	FAM178A	10	102676537	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	660462	102676537	32858210	824	84651											
BTRC	8945	broad.mit.edu	37	chr10	103221770	103221770	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agagaagactgtaataatggCgaaccccctaggaagataat	17	7	10	7	1	0	3	0	0	0	3	0	6	0	4	2	2	1	1	2	2	7	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:103221770C>T	uc001kta.2	+	3	302	c.189C>T	c.(187-189)GGC>GGT	p.G63G	BTRC_uc001ksz.1_Intron|BTRC_uc001ktb.2_Silent_p.G27G|BTRC_uc001ktc.2_Intron	NM_033637	NP_378663	Q9Y297	FBW1A_HUMAN	beta-transducin repeat containing protein	63					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|positive regulation of proteolysis|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|viral reproduction|Wnt receptor signaling pathway	cytosol|nucleus|SCF ubiquitin ligase complex				ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;1.05e-08)|all cancers(201;6.59e-07)		GTAATAATGGCGAACCCCCTA	0.353													59	108					0	0	1	0	0		T	103221770	T	T	103221770	2	4	155	1	0	0	0	0	0	0	0	1	1572	755	27	1		1	BTRC	10	103221770	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	545233	103221770	32312977	825	84652											
DPCD	25911	broad.mit.edu	37	chr10	103354447	103354447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcactatttattcccagacGgcaaggaaatggctgaagaa	14	10	9	8	1	1	3	1	1	0	2	2	4	2	4	1	3	0	2	1	3	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:103354447G>A	uc001ktn.2	+	2	102	c.97G>A	c.(97-99)GGC>AGC	p.G33S		NM_015448	NP_056263	Q9BVM2	DPCD_HUMAN	DPCD protein	33							protein binding			skin(1)	1						ATTCCCAGACGGCAAGGAAAT	0.483													6	217					0	0	1	0	0		A	103354447	A	A	103354447	3	1	155	1	0	0	0	0	1	0	0	0	4717	1116	39	1	103	1	DPCD	10	103354447	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	132677	103354447	32180300	826	84653											
MGEA5	10724	broad.mit.edu	37	chr10	103558790	103558790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggcttttcatttggacctgGcacaaactgctccttgtttg	7	15	9	10	0	1	0	1	0	0	0	2	1	2	1	2	3	2	4	2	3	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:103558790G>A	uc001ktv.2	-	9	2061	c.1618C>T	c.(1618-1620)CCA>TCA	p.P540S	MGEA5_uc001ktu.2_RNA|MGEA5_uc010qqe.1_Missense_Mutation_p.P487S|MGEA5_uc009xws.2_Missense_Mutation_p.P487S|MGEA5_uc001ktw.2_Missense_Mutation_p.P540S|MGEA5_uc009xwt.2_Missense_Mutation_p.P303S	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	540					glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		TTTGGACCTGGCACAAACTGC	0.458													30	333					0	0	1	0	0		A	103558790	A	A	103558790	3	1	155	1	0	0	0	0	1	0	0	0	9573	1203	42	2	1164	2	MGEA5	10	103558790	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	204343	103558790	31975957	827	84654											
PSD	5662	broad.mit.edu	37	chr10	104164452	104164452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcggctactacattgatgCgagtgatccaggactgcatc	10	10	11	10	2	0	2	0	2	0	0	2	4	1	3	1	2	5	2	1	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:104164452C>T	uc001kvg.1	-	15	3115	c.2588G>A	c.(2587-2589)CGC>CAC	p.R863H	PSD_uc001kve.1_Missense_Mutation_p.R71H|PSD_uc001kvf.1_Missense_Mutation_p.R232H|PSD_uc001kvh.1_Missense_Mutation_p.R484H|PSD_uc009xxd.1_Missense_Mutation_p.R863H	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	863	PH.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		TACATTGATGCGAGTGATCCA	0.612													70	97					0	0	1	0	0		T	104164452	T	T	104164452	3	4	155	1	0	0	0	0	1	0	0	0	12668	768	27	1	498	1	PSD	10	104164452	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	605662	104164452	31370295	828	84655											
TRIM8	81603	broad.mit.edu	37	chr10	104414974	104414974	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcgagaacgcagcgcaGgcgctgcacctcggggagcg	8	3	17	13	6	0	1	0	0	0	1	1	3	0	2	1	3	6	5	1	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:104414974G>A	uc001kvz.2	+	3	927	c.804G>A	c.(802-804)CAG>CAA	p.Q268Q		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	268						cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		ACGCAGCGCAGGCGCTGCACC	0.617													10	104					0	0	1	0	0		A	104414974	A	A	104414974	2	1	155	1	0	0	0	0	0	0	0	1	16574	991	35	4		4	TRIM8	10	104414974	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	250522	104414974	31119773	829	84656											
SFXN2	118980	broad.mit.edu	37	chr10	104491919	104491919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgccctcagagagctgcggCcataggcatcacccaagtag	10	6	11	14	1	2	1	2	0	0	1	2	2	2	1	3	2	3	3	3	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:104491919C>T	uc001kwb.2	+	8	831	c.665C>T	c.(664-666)GCC>GTC	p.A222V	SFXN2_uc001kwc.2_Intron|SFXN2_uc001kwd.2_Intron	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	222					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		AGAGCTGCGGCCATAGGCATC	0.522													43	81					0	0	1	0	0		T	104491919	T	T	104491919	3	4	155	1	0	0	0	0	1	0	0	0	14220	739	26	2	691	2	SFXN2	10	104491919	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	76945	104491919	31042828	830	84657											
PDCD11	22984	broad.mit.edu	37	chr10	105172931	105172931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgtgcacctgagcctgcGccccatcttcctacagcctg	6	10	9	16	1	1	1	0	1	1	0	2	1	2	1	6	0	5	2	6	0	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:105172931G>A	uc001kwy.1	+	9	1124	c.1037G>A	c.(1036-1038)CGC>CAC	p.R346H		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	346	S1 motif 3.				mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		CTGAGCCTGCGCCCCATCTTC	0.567													44	59					0	0	1	0	0		A	105172931	A	A	105172931	3	1	155	1	0	0	0	0	1	0	0	0	11636	1087	38	1	1067	1	PDCD11	10	105172931	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	681012	105172931	30361816	831	84658											
CALHM1	255022	broad.mit.edu	37	chr10	105215352	105215352	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaggctttggcgtgctcCgtgcacgtctcgtcgaagag	7	9	14	11	5	1	1	0	0	1	1	4	2	2	1	1	2	2	4	1	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:105215352C>T	uc001kxe.2	-	2	848	c.708G>A	c.(706-708)ACG>ACA	p.T236T	CALHM2_uc001kxd.1_5'Flank	NM_001001412	NP_001001412	Q8IU99	CAHM1_HUMAN	calcium homeostasis modulator 1	236						endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel activity|identical protein binding			ovary(1)	1						TGGCGTGCTCCGTGCACGTCT	0.607													13	51					0	0	1	0	0		T	105215352	T	T	105215352	2	4	155	1	0	0	0	0	0	0	0	1	2585	639	23	1		1	CALHM1	10	105215352	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	42421	105215352	30319395	832	84659											
SLK	9748	broad.mit.edu	37	chr10	105727517	105727517	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaaaaatgtccttcttcaAtttccgtaagatcttcaagt	13	14	6	8	1	4	1	2	0	2	1	6	2	6	2	2	1	0	1	2	1	5	5	rs150455513		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:105727517A>T	uc001kxo.1	+	1	48	c.14A>T	c.(13-15)AAT>ATT	p.N5I	SLK_uc001kxp.1_Missense_Mutation_p.N5I	NM_014720	NP_055535	Q9H2G2	SLK_HUMAN	serine/threonine kinase 2	5				N -> S (in Ref. 3; BAA13195).	apoptosis|nucleotide-excision repair	cytoplasm|plasma membrane	ATP binding|DNA binding|nuclease activity|protein serine/threonine kinase activity			ovary(2)|stomach(2)|skin(2)|lung(1)|kidney(1)	8		Colorectal(252;0.178)		Epithelial(162;5.81e-10)|all cancers(201;2.35e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TCCTTCTTCAATTTCCGTAAG	0.408													68	113					0	0	1	0	0		T	105727517	T	T	105727517	3	4	155	1	0	0	0	0	1	0	0	0	14773	101	4	5	16	5	SLK	10	105727517	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	512165	105727517	29807230	833	84660											
CASP7	840	broad.mit.edu	37	chr10	115481532	115481532	+	Frame_Shift_Del	DEL	A	-	-																															ccaagatgcaagatctgcttAaaaaaggtgagtgctgccag																								rs72431166		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:115481532delA	uc001lan.2	+	4	544	c.370delA	c.(370-372)AAAfs	p.K124fs	CASP7_uc001lam.2_Frame_Shift_Del_p.K124fs|CASP7_uc001lao.2_Frame_Shift_Del_p.K157fs|CASP7_uc001lap.2_Frame_Shift_Del_p.K124fs|CASP7_uc001laq.2_Frame_Shift_Del_p.K124fs|CASP7_uc010qsa.1_Frame_Shift_Del_p.K209fs|CASP7_uc010qsb.1_Frame_Shift_Del_p.K99fs	NM_033339	NP_203125	P55210	CASP7_HUMAN	caspase 7 isoform alpha	124					activation of caspase activity by cytochrome c|cellular component disassembly involved in apoptosis|induction of apoptosis by intracellular signals|proteolysis	cytosol|endoplasmic reticulum membrane|mitochondrial membrane|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0946)|Breast(234;0.188)		Epithelial(162;0.012)|all cancers(201;0.014)		AGATCTGCTTAAAAAAGGTGA	0.269													69	137	---	---	---	---						.	-	115481532	-	-	115481532	7	5	155	1	0	1	0	1	0	0	0	0	2679	363	13	0	483	0	CASP7	10	115481532	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	9754015	115481532	20053215	834	84661											
C10orf118	55088	broad.mit.edu	37	chr10	115917415	115917415	+	Silent	SNP	A	G	G	1	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	atgtctacgaagagctcctgAtgcttcttattttctttaat	9	18	6	8	1	3	2	0	1	3	1	4	3	4	2	1	0	3	2	1	0	4	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:115917415A>G	uc001lbb.1	-	3	1309	c.657T>C	c.(655-657)CAT>CAC	p.H219H	C10orf118_uc001lbc.1_Silent_p.H219H|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	219	Potential.									ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		AGAGCTCCTGATGCTTCTTAT	0.274													37	73					0	0	1	0	0		G	115917415	G	G	115917415	2	3	155	1	0	0	0	0	0	0	0	1	1590	330	12	3		3	C10orf118	10	115917415	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	435883	115917415	19617332	835	84662											
AFAP1L2	84632	broad.mit.edu	37	chr10	116057097	116057097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgctgagctccaggtccacgCgcctgctctcctcgccccgg	3	8	11	19	4	1	1	0	1	1	0	5	1	3	1	6	2	3	3	6	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:116057097C>T	uc001lbn.2	-	17	2490	c.2189G>A	c.(2188-2190)CGC>CAC	p.R730H	AFAP1L2_uc001lbo.2_Missense_Mutation_p.R730H|AFAP1L2_uc010qse.1_Missense_Mutation_p.R783H|AFAP1L2_uc001lbp.2_Missense_Mutation_p.R758H|AFAP1L2_uc001lbm.2_Missense_Mutation_p.R169H|AFAP1L2_uc010qsd.1_Missense_Mutation_p.R296H|AFAP1L2_uc001lbq.1_Missense_Mutation_p.R252H	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	730	Potential.				inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		CAGGTCCACGCGCCTGCTCTC	0.597													17	30					0	0	1	0	0		T	116057097	T	T	116057097	3	4	155	1	0	0	0	0	1	0	0	0	355	768	27	1	279	1	AFAP1L2	10	116057097	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	139682	116057097	19477650	836	84663											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118196370	118196370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactatacacaatcccaatgCctatcaggtaagctaacttg	14	10	5	12	0	1	0	1	0	0	0	2	0	2	0	2	1	4	2	2	1	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:118196370C>T	uc001lcl.3	+	2	298	c.197C>T	c.(196-198)GCC>GTC	p.A66V		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	66					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		AATCCCAATGCCTATCAGGTA	0.403													11	230					0	0	1	0	0		T	118196370	T	T	118196370	3	4	155	1	0	0	0	0	1	0	0	0	12171	739	26	2	203	2	PNLIPRP3	10	118196370	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2139273	118196370	17338377	837	84664											
VAX1	11023	broad.mit.edu	37	chr10	118897523	118897523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacccgggcagcctcggcGtccgagtggcatcgaacgtc	7	5	15	14	6	0	1	0	0	0	1	4	4	1	1	3	3	2	2	3	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:118897523G>A	uc009xyx.2	-	1	290	c.45C>T	c.(43-45)GAC>GAT	p.D15D	VAX1_uc001ldb.1_Silent_p.D15D	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	15						nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		CAGCCTCGGCGTCCGAGTGGC	0.483													35	52					0	0	1	0	0		A	118897523	A	A	118897523	2	1	155	1	0	0	0	0	0	0	0	1	17160	1136	40	1		1	VAX1	10	118897523	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	701153	118897523	16637224	838	84665											
RAB11FIP2	22841	broad.mit.edu	37	chr10	119805596	119805596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtaccacttttgccttttgGcttcagatctttggcttgga	5	17	10	9	0	2	1	1	0	1	1	2	2	2	2	2	4	2	3	2	4	1	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:119805596G>A	uc001ldj.1	-	1	519	c.79C>T	c.(79-81)CCA>TCA	p.P27S	RAB11FIP2_uc009xyz.1_Missense_Mutation_p.P27S|CASC2_uc001ldm.3_5'Flank|CASC2_uc009xzc.2_5'Flank|CASC2_uc001ldk.2_5'Flank|CASC2_uc009xza.2_5'Flank|CASC2_uc009xzb.2_5'Flank	NM_014904	NP_055719	Q7L804	RFIP2_HUMAN	RAB11 family interacting protein 2	27	C2.|Necessary for its cellular translocation to the plasma membrane.				protein transport	plasma membrane|recycling endosome membrane	protein homodimerization activity				0		Colorectal(252;0.235)		all cancers(201;0.0238)		TTGCCTTTTGGCTTCAGATCT	0.498													8	318					0	0	1	0	0		A	119805596	A	A	119805596	3	1	155	1	0	0	0	0	1	0	0	0	12919	1203	42	2	1479	2	RAB11FIP2	10	119805596	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	908073	119805596	15729151	839	84666											
PRLHR	2834	broad.mit.edu	37	chr10	120354266	120354266	+	Missense_Mutation	SNP	A	G	G	1	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	tgcgccgcctcagcgggtgcAccagcacgacgtagcggtcc	6	5	14	16	6	1	0	1	0	0	0	2	1	2	0	4	2	5	3	4	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:120354266A>G	uc001ldp.1	-	2	630	c.491T>C	c.(490-492)GTG>GCG	p.V164A		NM_004248	NP_004239	P49683	PRLHR_HUMAN	G protein-coupled receptor 10	164	Cytoplasmic (Potential).				female pregnancy	integral to plasma membrane	neuropeptide Y receptor activity				0		Colorectal(252;0.0429)|Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0166)		CAGCGGGTGCACCAGCACGAC	0.697													8	16					0	0	1	0	0		G	120354266	G	G	120354266	3	3	155	1	0	0	0	0	1	0	0	0	12552	159	6	3	625	3	PRLHR	10	120354266	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	548670	120354266	15180481	840	84667											
TACC2	10579	broad.mit.edu	37	chr10	123847469	123847469	+	Silent	SNP	T	C	C	0	1	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	gctccagaagagctccacacTgacaggtacttaaatgaaaa	16	7	8	10	0	0	4	0	2	0	2	2	4	2	4	2	1	2	3	2	1	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:123847469T>C	uc001lfv.2	+	4	5814	c.5454T>C	c.(5452-5454)ACT>ACC	p.T1818T	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Silent_p.T1818T|TACC2_uc010qtv.1_Silent_p.T1818T	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1818						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				AGCTCCACACTGACAGGTACT	0.502													23	52					0	0	1	0	0		C	123847469	C	C	123847469	2	2	155	1	0	0	0	0	0	0	0	1	15527	1567	55	3		3	TACC2	10	123847469	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3493203	123847469	11687278	841	84668											
IKZF5	64376	broad.mit.edu	37	chr10	124754231	124754231	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaaagatgacatcgatgagGtttttcacctgtttcaaaag	14	12	8	7	1	2	3	2	2	0	1	3	4	2	3	1	1	0	2	1	1	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:124754231G>T	uc001lha.2	-	5	624	c.325C>A	c.(325-327)CCT>ACT	p.P109T	IKZF5_uc001lgz.2_5'Flank	NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	109					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		CATCGATGAGGTTTTTCACCT	0.368													4	172					2.56e-06	2.64386e-06	1	1	0		T	124754231	T	T	124754231	3	4	155	1	0	0	0	0	1	0	0	0	7634	1261	44	5	938	5	IKZF5	10	124754231	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	906762	124754231	10780516	842	84669											
CHST15	51363	broad.mit.edu	37	chr10	125805497	125805498	+	Frame_Shift_Ins	INS	-	C	C																															aaaacgaggctacatcgcttINScccctttttgaagcgcaaaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:125805497_125805498insC	uc001lhl.2	-	1	744_745	c.231_232insG	c.(229-234)GGGAAGfs	p.G77fs	CHST15_uc001lhm.2_Frame_Shift_Ins_p.G77fs|CHST15_uc001lhn.2_Frame_Shift_Ins_p.G77fs|CHST15_uc010que.1_Frame_Shift_Ins_p.G77fs|CHST15_uc001lho.2_Frame_Shift_Ins_p.G77fs	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	77_78	Cytoplasmic (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						CTACATCGCTTCCCCTTTTTGA	0.465													64	91	---	---	---	---						.	C	125805498	C	C	125805497	7	5	155	1	0	1	1	0	0	0	0	0	3406	1792	62	0	1481	0	CHST15	10	125805497	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	1051266	125805497	9729250	843	84670											
FAM53B	9679	broad.mit.edu	37	chr10	126370273	126370273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttgtcgttaaggacacacGgctgggagcggctgcgggaa	8	8	16	9	4	1	0	0	0	1	0	2	3	1	3	0	5	2	3	0	5	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:126370273G>A	uc001lhv.1	-	4	1332	c.809C>T	c.(808-810)CCG>CTG	p.P270L	FAM53B_uc001lhu.1_Missense_Mutation_p.P270L|FAM53B_uc001lhw.2_Missense_Mutation_p.P270L	NM_014661	NP_055476	Q14153	FA53B_HUMAN	hypothetical protein LOC9679	270										ovary(1)|pancreas(1)	2		all_lung(145;0.0191)|Lung NSC(174;0.0301)|Colorectal(57;0.106)|all_neural(114;0.117)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.15)		AAGGACACACGGCTGGGAGCG	0.582													5	9					0	0	1	0	0		A	126370273	A	A	126370273	3	1	155	1	0	0	0	0	1	0	0	0	5594	1116	39	1	467	1	FAM53B	10	126370273	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	564776	126370273	9164474	844	84671											
MKI67	4288	broad.mit.edu	37	chr10	129908709	129908709	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgaaactgttttccaagCaaattctctgaatttgaaat	13	15	5	8	0	1	3	0	3	1	0	3	3	2	3	2	0	2	2	2	0	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:129908709C>G	uc001lke.2	-	12	2544	c.2349G>C	c.(2347-2349)TTG>TTC	p.L783F	MKI67_uc001lkf.2_Missense_Mutation_p.L423F|MKI67_uc009yav.1_Missense_Mutation_p.L358F|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	783					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GTTTTCCAAGCAAATTCTCTG	0.423													12	221					0	0	1	0	0		G	129908709	G	G	129908709	3	3	155	1	0	0	0	0	1	0	0	0	9616	709	25	5	7437	5	MKI67	10	129908709	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3538436	129908709	5626038	845	84672											
BNIP3	664	broad.mit.edu	37	chr10	133784266	133784266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgctgagggtggccgtgcGcttcgggtgtttaaagagga	7	10	17	7	3	0	2	0	1	0	1	1	3	0	3	1	4	2	3	1	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr10:133784266G>A	uc001lkv.1	-	5	541	c.415C>T	c.(415-417)CGC>TGC	p.R139C	BNIP3_uc001lku.1_5'Flank|BNIP3_uc010qut.1_Missense_Mutation_p.R139C	NM_004052	NP_004043	Q12983	BNIP3_HUMAN	BCL2/adenovirus E1B 19kD-interacting protein 3	139					cellular response to cobalt ion|cellular response to hypoxia|cellular response to mechanical stimulus|chromatin remodeling|defense response to virus|DNA fragmentation involved in apoptotic nuclear change|induction of apoptosis|interspecies interaction between organisms|mitochondrial fragmentation involved in apoptosis|negative regulation of membrane potential|negative regulation of mitochondrial fusion|negative regulation of survival gene product expression|neuron apoptosis|positive regulation of mitochondrial fission|positive regulation of protein complex disassembly|positive regulation of release of cytochrome c from mitochondria|reactive oxygen species metabolic process|regulation of mitochondrial membrane permeability	dendrite|integral to mitochondrial outer membrane|nuclear envelope|nucleoplasm	GTPase binding|protein heterodimerization activity|protein homodimerization activity			lung(1)|skin(1)	2		all_cancers(35;4e-11)|all_epithelial(44;5.07e-08)|Ovarian(717;2.61e-05)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Breast(234;0.023)|all_neural(114;0.0299)|Colorectal(31;0.109)|Melanoma(40;0.123)|Glioma(114;0.203)		Epithelial(32;1.59e-12)|all cancers(32;3.75e-11)|OV - Ovarian serous cystadenocarcinoma(35;2.57e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		GTGGCCGTGCGCTTCGGGTGT	0.532													11	68					0	0	1	0	0		A	133784266	A	A	133784266	3	1	155	1	0	0	0	0	1	0	0	0	1479	1087	38	1	177	1	BNIP3	10	133784266	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3875557	133784266	1750481	846	84673											
RNH1	6050	broad.mit.edu	37	chr11	502079	502079	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgaccacttggcactgCtggagcagagggaggagctc	9	7	14	11	0	0	2	0	1	0	1	1	5	0	5	2	4	4	4	2	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:502079C>T	uc001lpk.1	-	1	1492	c.84G>A	c.(82-84)CAG>CAA	p.Q28Q	RNH1_uc001lpl.1_Silent_p.Q28Q|RNH1_uc001lpm.1_Silent_p.Q28Q|RNH1_uc001lpn.1_Silent_p.Q28Q|RNH1_uc001lpo.1_Silent_p.Q28Q|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Silent_p.Q28Q|RNH1_uc001lpt.1_5'UTR|RNH1_uc001lpq.1_Silent_p.Q28Q|RNH1_uc001lpr.1_Silent_p.Q28Q|RNH1_uc001lps.1_Silent_p.Q28Q|RNH1_uc009ybx.1_Silent_p.Q28Q	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	28	LRR 1.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		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;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CTTGGCACTGCTGGAGCAGAG	0.642													15	25					0	0	1	0	0		T	502079	T	T	502079	2	4	155	1	0	0	0	0	0	0	0	1	13529	796	28	2		2	RNH1	11	502079	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08		502079	134504437	847	84674											
PHRF1	57661	broad.mit.edu	37	chr11	596998	596998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcccggaatgtgctgcGcctggtgttgtccttgccgc	2	13	13	13	3	1	0	0	0	1	0	2	1	2	1	4	2	4	2	4	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:596998G>A	uc001lqe.2	+	7	827	c.696G>A	c.(694-696)GCG>GCA	p.A232A	PHRF1_uc010qwc.1_Silent_p.A232A|PHRF1_uc010qwd.1_Silent_p.A231A|PHRF1_uc010qwe.1_Silent_p.A228A|PHRF1_uc009ybz.1_Silent_p.A23A	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	232	PHD-type.						RNA polymerase binding|zinc ion binding				0						AATGTGCTGCGCCTGGTGTTG	0.627													22	54					0	0	1	0	0		A	596998	A	A	596998	2	1	155	1	0	0	0	0	0	0	0	1	11880	1074	38	1		1	PHRF1	11	596998	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	94919	596998	134409518	848	84675											
CDHR5	53841	broad.mit.edu	37	chr11	621608	621608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagaatgtcgtccttgtcgCggtcctcagcctgcagttgc	6	11	11	13	3	1	1	1	0	0	1	5	1	3	1	3	1	3	2	3	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:621608C>T	uc001lqj.2	-	5	566	c.461G>A	c.(460-462)CGC>CAC	p.R154H	CDHR5_uc001lqk.2_Missense_Mutation_p.R154H|CDHR5_uc009ycc.2_5'UTR|CDHR5_uc009ycd.2_Missense_Mutation_p.R154H|CDHR5_uc001lql.2_Missense_Mutation_p.R154H|CDHR5_uc001lqm.2_5'UTR|CDHR5_uc009yce.1_Missense_Mutation_p.R123H	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	154	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GTCCTTGTCGCGGTCCTCAGC	0.637													27	63					0	0	1	0	0		T	621608	T	T	621608	3	4	155	1	0	0	0	0	1	0	0	0	3125	768	27	1	2120	1	CDHR5	11	621608	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	24610	621608	134384908	849	84676											
PNPLA2	57104	broad.mit.edu	37	chr11	821634	821634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gccctgtgccccaggtgaggCtggtgccaagttcattgagg	6	9	15	11	0	1	2	1	2	0	0	1	2	1	2	4	4	2	2	4	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:821634C>T	uc001lrt.2	+	3	396	c.194C>T	c.(193-195)GCT>GTT	p.A65V	PNPLA2_uc009ycl.2_5'Flank	NM_020376	NP_065109	Q96AD5	PLPL2_HUMAN	patatin-like phospholipase domain containing 2	65	Lumenal (Potential).|Patatin.				negative regulation of sequestering of triglyceride|positive regulation of triglyceride catabolic process	integral to membrane|lipid particle|plasma membrane	triglyceride lipase activity				0		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;1.63e-25)|Epithelial(43;1.28e-24)|OV - Ovarian serous cystadenocarcinoma(40;7.09e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCAGGTGAGGCTGGTGCCAAG	0.587													3	44					0	0	1	0	0		T	821634	T	T	821634	3	4	155	1	0	0	0	0	1	0	0	0	12184	797	28	2	200	2	PNPLA2	11	821634	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	200026	821634	134184882	850	84677											
MUC5B	727897	broad.mit.edu	37	chr11	1261421	1261421	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccagcctgcacctgcacCtatgaggacaggacctacag	10	6	9	16	0	0	1	0	1	0	0	1	3	1	3	6	2	4	2	6	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:1261421C>T	uc009ycr.1	+	46	5991	c.5865C>T	c.(5863-5865)ACC>ACT	p.T1955T	MUC5B_uc001ltb.2_Silent_p.T1265T|MUC5B_uc001lta.2_Silent_p.T930T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1262					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCACCTGCACCTATGAGGACA	0.647													5	10					0	0	1	0	0		T	1261421	T	T	1261421	2	4	155	1	0	0	0	0	0	0	0	1	9997	668	24	4		4	MUC5B	11	1261421	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	439787	1261421	133745095	851	84678											
KRTAP5-5	439915	broad.mit.edu	37	chr11	1651497	1651497	+	Frame_Shift_Del	DEL	G	-	-																															aggggggctgtggctcctgtGgggggtccaaggggggctgt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:1651497delG	uc001lty.2	+	1	465	c.427delG	c.(427-429)GGGfs	p.G143fs		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	143	8 X 4 AA repeats of C-C-X-P.					keratin filament				lung(1)	1		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		TGGCTCCTGTGGGGGGTCCAA	0.687													29	38	---	---	---	---						.	-	1651497	-	-	1651497	7	5	155	1	0	1	0	1	0	0	0	0	8580	1348	47	0	429	0	KRTAP5-5	11	1651497	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	390076	1651497	133355019	852	84679											
CARS	833	broad.mit.edu	37	chr11	3023796	3023796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcctgtttcctccgggccGcctcctctttcttcttcctc	0	17	6	18	2	3	0	0	0	3	0	9	0	8	0	7	1	0	2	7	1	0	5	rs141404196		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:3023796G>A	uc001lxh.2	-	20	2077	c.2003C>T	c.(2002-2004)GCG>GTG	p.A668V	CARS_uc009ydu.2_Intron|CARS_uc001lxe.2_Missense_Mutation_p.A658V|CARS_uc001lxf.2_Missense_Mutation_p.A751V|CARS_uc001lxg.2_Missense_Mutation_p.A668V|CARS_uc010qxo.1_Missense_Mutation_p.A751V|CARS_uc010qxp.1_Missense_Mutation_p.A681V	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b	668					cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	CCTCCGGGCCGCCTCCTCTTT	0.572			T	ALK	ALCL								24	342					0	0	1	0	0		A	3023796	A	A	3023796	3	1	155	1	0	0	0	0	1	0	0	0	2660	1087	38	1	263	1	CARS	11	3023796	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1372299	3023796	131982720	853	84680											
STIM1	6786	broad.mit.edu	37	chr11	4080587	4080587	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcatcggcagaagctgcagCtgaaggctctggatacagtg	10	8	14	9	1	2	2	1	1	1	1	3	3	2	3	0	3	4	5	0	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:4080587C>T	uc001lyv.2	+	5	1142	c.574C>T	c.(574-576)CTG>TTG	p.L192L	STIM1_uc009yef.2_Silent_p.L192L|STIM1_uc009yeg.2_Silent_p.L19L	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	192	SAM.|Extracellular (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		GAAGCTGCAGCTGAAGGCTCT	0.532													24	58					0	0	1	0	0		T	4080587	T	T	4080587	2	4	155	1	0	0	0	0	0	0	0	1	15308	796	28	2		2	STIM1	11	4080587	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1056791	4080587	130925929	854	84681											
RRM1	6240	broad.mit.edu	37	chr11	4133248	4133248	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtttactcatgcttcGcccactctcttcaatgctgg	6	14	9	12	1	3	0	2	0	1	0	5	0	3	0	1	3	3	3	1	3	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:4133248G>A	uc001lyw.3	+	7	925	c.606G>A	c.(604-606)TCG>TCA	p.S202S	RRM1_uc009yeh.1_Silent_p.S105S|RRM1_uc009yei.2_Silent_p.S162S|RRM1_uc010qyc.1_Silent_p.S105S	NM_001033	NP_001024	P23921	RIR1_HUMAN	ribonucleoside-diphosphate reductase M1 chain	202		Substrate (By similarity).			deoxyribonucleotide biosynthetic process|DNA replication|nucleobase, nucleoside and nucleotide interconversion	cytosol|nucleoplasm|ribonucleoside-diphosphate reductase complex	ATP binding|ribonucleoside-diphosphate reductase activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00502)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0848)|LUSC - Lung squamous cell carcinoma(625;0.205)	Clofarabine(DB00631)|Fludarabine(DB01073)|Gemcitabine(DB00441)|Hydroxyurea(DB01005)	CTCATGCTTCGCCCACTCTCT	0.428													5	120					0	0	1	0	0		A	4133248	A	A	4133248	2	1	155	1	0	0	0	0	0	0	0	1	13706	1074	38	1		1	RRM1	11	4133248	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	52661	4133248	130873268	855	84682											
OR51V1	283111	broad.mit.edu	37	chr11	5221605	5221605	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaccatggatgaaataggacTgggcaatgcaggaatccaag	15	6	13	7	0	0	1	0	1	0	0	1	5	1	4	2	4	1	2	2	4	5	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:5221605T>C	uc010qyz.1	-	1	326	c.326A>G	c.(325-327)CAG>CGG	p.Q109R		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAAATAGGACTGGGCAATGCA	0.522													7	69					0	0	1	0	0		C	5221605	C	C	5221605	3	2	155	1	0	0	0	0	1	0	0	0	11126	1580	55	3	642	3	OR51V1	11	5221605	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1088357	5221605	129784911	856	84683											
TRIM5	85363	broad.mit.edu	37	chr11	5701141	5701141	+	Frame_Shift_Del	DEL	C	-	-																															gcacaatgatcaactttctgCccctctgggctcaacttgac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:5701141delC	uc001mbm.1	-	2	524	c.267delG	c.(265-267)GGGfs	p.G89fs	TRIM5_uc001mbq.1_Frame_Shift_Del_p.G89fs|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Frame_Shift_Del_p.G89fs|TRIM5_uc001mbo.2_Frame_Shift_Del_p.G89fs|TRIM5_uc001mbp.2_Frame_Shift_Del_p.G89fs	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	89					interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		CAACTTTCTGCCCCTCTGGGC	0.532													70	143	---	---	---	---						.	-	5701141	-	-	5701141	7	5	155	1	0	1	0	1	0	0	0	0	16551	726	26	0	1481	0	TRIM5	11	5701141	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	479536	5701141	129305375	857	84684											
DCHS1	8642	broad.mit.edu	37	chr11	6655386	6655386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgaagtcaaagcttgagGgcccctggtcacggtccagg	8	8	14	11	1	2	2	2	2	0	0	3	2	3	2	3	4	1	1	3	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:6655386G>T	uc001mem.1	-	3	2359	c.1949C>A	c.(1948-1950)CCC>CAC	p.P650H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	650	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAGCTTGAGGGCCCCTGGTC	0.597													30	133					1.38854e-25	1.51058e-25	1	1	0		T	6655386	T	T	6655386	3	4	155	1	0	0	0	0	1	0	0	0	4290	1232	43	5	8023	5	DCHS1	11	6655386	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	954245	6655386	128351130	858	84685											
NLRP10	338322	broad.mit.edu	37	chr11	7981709	7981709	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttccccagccggctttGgtcctctttcaccaggtaag	5	12	8	16	1	2	0	1	0	1	0	5	0	5	0	6	3	1	2	6	3	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:7981709G>T	uc001mfv.1	-	2	1467	c.1450C>A	c.(1450-1452)CAA>AAA	p.Q484K		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	484	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AGCCGGCTTTGGTCCTCTTTC	0.507													11	208					1.58986e-06	1.64296e-06	1	1	0		T	7981709	T	T	7981709	3	4	155	1	0	0	0	0	1	0	0	0	10491	1357	47	5	521	5	NLRP10	11	7981709	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1326323	7981709	127024807	859	84686											
NLRP10	338322	broad.mit.edu	37	chr11	7982707	7982707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaaatagagcctccaccGtgacagactccagctcctgc	12	7	7	15	1	1	3	1	1	0	2	4	3	4	3	5	0	3	1	5	0	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:7982707G>A	uc001mfv.1	-	2	469	c.452C>T	c.(451-453)ACG>ATG	p.T151M		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	151							ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AGCCTCCACCGTGACAGACTC	0.582													38	78					0	0	1	0	0		A	7982707	A	A	7982707	3	1	155	1	0	0	0	0	1	0	0	0	10491	1145	40	1	1519	1	NLRP10	11	7982707	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	998	7982707	127023809	860	84687											
STK33	65975	broad.mit.edu	37	chr11	8496404	8496404	+	Missense_Mutation	SNP	A	G	G	1	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	atctttctgagaagcagatgAacagtcggggcattttgtgg	10	12	13	6	1	2	3	0	2	2	2	3	4	2	3	0	3	2	2	0	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:8496404A>G	uc001mgi.1	-	1	968	c.49T>C	c.(49-51)TCA>CCA	p.S17P	STK33_uc001mgj.1_Missense_Mutation_p.S17P|STK33_uc001mgk.1_Missense_Mutation_p.S17P|STK33_uc010rbn.1_Intron|STK33_uc001mgl.3_Intron|STK33_uc009yfp.2_Intron	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	17						Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		GAAGCAGATGAACAGTCGGGG	0.398													106	224					0	0	1	0	0		G	8496404	G	G	8496404	3	3	155	1	0	0	0	0	1	0	0	0	15325	246	9	3	1543	3	STK33	11	8496404	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	513697	8496404	126510112	861	84688											
NRIP3	56675	broad.mit.edu	37	chr11	9005478	9005478	+	Frame_Shift_Del	DEL	C	-	-																															atttcttccttgtctgtcttCcccatgatcagccggtgctt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:9005478delC	uc001mhg.2	-	6	768	c.654delG	c.(652-654)GGGfs	p.G218fs	NRIP3_uc010rbu.1_3'UTR	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	218					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		TGTCTGTCTTCCCCATGATCA	0.438													101	138	---	---	---	---						.	-	9005478	-	-	9005478	7	5	155	1	0	1	0	1	0	0	0	0	10673	842	30	0	79	0	NRIP3	11	9005478	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	509074	9005478	126001038	862	84689											
ZNF143	7702	broad.mit.edu	37	chr11	9499965	9499965	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccagagtgcattacaggcGgttcagctggaagatggtac	11	8	14	8	1	1	2	1	0	0	2	1	4	1	3	1	4	4	4	1	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:9499965G>A	uc001mhr.2	+	6	520	c.402G>A	c.(400-402)GCG>GCA	p.A134A	ZNF143_uc009yfu.2_Silent_p.A133A|ZNF143_uc010rby.1_Silent_p.A103A	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	134					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		CATTACAGGCGGTTCAGCTGG	0.433													74	79					0	0	1	0	0		A	9499965	A	A	9499965	2	1	155	1	0	0	0	0	0	0	0	1	17757	1103	39	1		1	ZNF143	11	9499965	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	494487	9499965	125506551	863	84690											
AMPD3	272	broad.mit.edu	37	chr11	10508889	10508889	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgaagagtaacccccaccGggacttctataacgtgagaa	13	8	10	10	2	1	3	0	2	1	2	1	5	1	4	3	1	2	2	3	1	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:10508889G>T	uc001mio.1	+	6	1252	c.917G>T	c.(916-918)CGG>CTG	p.R306L	AMPD3_uc010rbz.1_Missense_Mutation_p.R147L|AMPD3_uc001min.1_Missense_Mutation_p.R315L|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.R313L|AMPD3_uc009yfy.2_Missense_Mutation_p.R306L	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	306					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		AACCCCCACCGGGACTTCTAT	0.532													100	127					2.12943e-44	2.35804e-44	1	1	0		T	10508889	T	T	10508889	3	4	155	1	0	0	0	0	1	0	0	0	587	1116	39	5	986	5	AMPD3	11	10508889	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1008924	10508889	124497627	864	84691											
GALNTL4	374378	broad.mit.edu	37	chr11	11643032	11643032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccccgcacatacacgctggCgatgtagttggtgacccagc	8	7	11	15	3	0	1	0	1	0	0	0	2	0	1	3	2	2	4	3	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:11643032C>T	uc001mjo.2	-	1	530	c.109G>A	c.(109-111)GCC>ACC	p.A37T		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	37	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		TACACGCTGGCGATGTAGTTG	0.572													13	68					0	0	1	0	0		T	11643032	T	T	11643032	3	4	155	1	0	0	0	0	1	0	0	0	6238	768	27	1	1758	1	GALNTL4	11	11643032	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1134143	11643032	123363484	865	84692											
PSMA1	5682	broad.mit.edu	37	chr11	14529273	14529273	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcatcatcatcatagattgTaaactccaagtctttaccaa	15	13	3	10	0	5	1	4	0	1	1	6	1	6	1	2	0	2	1	2	0	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:14529273T>C	uc001mlk.2	-	9	810	c.664A>G	c.(664-666)ACA>GCA	p.T222A	PSMA1_uc001mll.2_Missense_Mutation_p.T228A|PSMA1_uc010rcp.1_RNA|PSMA1_uc001mlj.2_Missense_Mutation_p.T197A	NM_002786	NP_002777	P25786	PSA1_HUMAN	proteasome alpha 1 subunit isoform 2	222					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|polysome|proteasome core complex, alpha-subunit complex	protein binding|RNA binding|threonine-type endopeptidase activity			upper_aerodigestive_tract(1)|skin(1)	2						TCATAGATTGTAAACTCCAAG	0.343													59	93					0	0	1	0	0		C	14529273	C	C	14529273	3	2	155	1	0	0	0	0	1	0	0	0	12688	1638	57	3	135	3	PSMA1	11	14529273	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2886241	14529273	120477243	866	84693											
ABCC8	6833	broad.mit.edu	37	chr11	17449860	17449860	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacagcagttgtcagcatcGccatctgcactggggaccag	10	7	11	13	1	2	0	1	0	1	0	3	1	2	1	2	2	3	4	2	2	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:17449860G>A	uc001mnc.2	-	14	2142	c.2016C>T	c.(2014-2016)GGC>GGT	p.G672G		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	672	Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	TGTCAGCATCGCCATCTGCAC	0.652													100	150					0	0	1	0	0		A	17449860	A	A	17449860	2	1	155	1	0	0	0	0	0	0	0	1	58	1074	38	1		1	ABCC8	11	17449860	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2920587	17449860	117556656	867	84694											
SERGEF	26297	broad.mit.edu	37	chr11	17809839	17809839	+	Silent	SNP	G	T	T	0	0	1	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	aaggagtggccagccccacaGcccacaaggagtcctgacga	12	3	12	14	1	0	1	0	1	0	0	1	4	1	3	5	3	2	0	5	3	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:17809839G>T	uc001mnm.2	-	11	1250	c.1170C>A	c.(1168-1170)GGC>GGA	p.G390G	SERGEF_uc009yhd.2_RNA|SERGEF_uc001mnn.2_3'UTR	NM_012139	NP_036271	Q9UGK8	SRGEF_HUMAN	deafness locus associated putative guanine	390	RCC1 7.				negative regulation of protein secretion|signal transduction	cytoplasm|nucleus	protein binding|Ran guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1						CAGCCCCACAGCCCACAAGGA	0.627													22	30					7.88262e-20	8.47065e-20	1	1	0		T	17809839	T	T	17809839	2	4	155	1	0	0	0	0	0	0	0	1	14102	958	34	5		5	SERGEF	11	17809839	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	359979	17809839	117196677	868	84695											
E2F8	79733	broad.mit.edu	37	chr11	19256510	19256510	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttttgttgagattgtgtcGcccgtgccaagtgtacctgt	5	15	13	8	2	0	1	0	1	0	1	1	2	0	1	3	1	2	3	3	1	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:19256510G>A	uc001mpm.2	-	5	1069	c.547C>T	c.(547-549)CGA>TGA	p.R183*	E2F8_uc009yhv.2_RNA|E2F8_uc001mpn.3_Nonsense_Mutation_p.R183*	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	183					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						AGATTGTGTCGCCCGTGCCAA	0.463													5	98					0	0	1	0	0		A	19256510	A	A	19256510	4	1	155	1	0	0	0	0	0	1	0	0	4879	1095	38	1	2092	1	E2F8	11	19256510	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1446671	19256510	115750006	869	84696											
NAV2	89797	broad.mit.edu	37	chr11	20066528	20066528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttaggaaaaacagacgacGcaaaggtgtctgagaaagga	17	6	12	6	2	2	2	0	1	2	2	2	6	2	4	0	3	1	1	0	3	5	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:20066528G>A	uc010rdm.1	+	15	3644	c.3283G>A	c.(3283-3285)GCA>ACA	p.A1095T	NAV2_uc001mpp.2_Missense_Mutation_p.A1008T|NAV2_uc001mpr.3_Missense_Mutation_p.A1072T|NAV2_uc001mpt.2_Missense_Mutation_p.A158T|NAV2_uc009yhx.2_Missense_Mutation_p.A158T|NAV2_uc009yhy.1_Missense_Mutation_p.A71T	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1095						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						AACAGACGACGCAAAGGTGTC	0.517													17	20					0	0	1	0	0		A	20066528	A	A	20066528	3	1	155	1	0	0	0	0	1	0	0	0	10202	1087	38	1	3377	1	NAV2	11	20066528	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	810018	20066528	114939988	870	84697											
ANO3	63982	broad.mit.edu	37	chr11	26529809	26529809	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcttgatgttggagaaggaGgtaggtgctttactattatt	9	15	14	3	0	0	2	0	1	0	1	0	4	0	3	0	5	2	4	0	5	5	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:26529809G>A	uc001mqt.3	+	5	736	c.591G>A	c.(589-591)GAG>GAA	p.E197E	ANO3_uc010rdr.1_Silent_p.E181E|ANO3_uc010rds.1_Silent_p.E51E|ANO3_uc010rdt.1_Silent_p.E51E	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	197	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGGAGAAGGAGGTAGGTGCTT	0.294													39	67					0	0	1	0	0		A	26529809	A	A	26529809	2	1	155	1	0	0	0	0	0	0	0	1	698	1014	35	4		4	ANO3	11	26529809	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6463281	26529809	108476707	871	84698											
KIF18A	81930	broad.mit.edu	37	chr11	28112174	28112174	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctcttacttggaaaacaGcatgagaacgagaagatgtg	14	8	12	7	1	1	3	0	1	1	3	1	6	1	4	1	2	4	1	1	2	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:28112174G>T	uc001msc.2	-	5	871	c.689C>A	c.(688-690)GCT>GAT	p.A230D		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	230	Kinesin-motor.				blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						TTGGAAAACAGCATGAGAACG	0.328													60	130					5.10652e-33	5.61382e-33	1	1	0		T	28112174	T	T	28112174	3	4	155	1	0	0	0	0	1	0	0	0	8296	971	34	5	2059	5	KIF18A	11	28112174	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1582365	28112174	106894342	872	84699											
EXT2	2132	broad.mit.edu	37	chr11	44129758	44129758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttaaccagaacacactgCgcatcaaggagacagcacaa	16	5	8	12	1	1	2	1	0	0	2	1	3	1	2	1	1	5	3	1	1	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:44129758C>T	uc001mxz.2	+	2	830	c.496C>T	c.(496-498)CGC>TGC	p.R166C	EXT2_uc010rfo.1_Missense_Mutation_p.R194C|EXT2_uc001mxy.2_Missense_Mutation_p.R179C|EXT2_uc009ykt.2_Missense_Mutation_p.R166C|EXT2_uc001mya.2_Missense_Mutation_p.R199C	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	166	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						GAACACACTGCGCATCAAGGA	0.532			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				4	50					0	0	1	0	0		T	44129758	T	T	44129758	3	4	155	1	0	0	0	0	1	0	0	0	5332	768	27	1	601	1	EXT2	11	44129758	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	16017584	44129758	90876758	873	84700											
CHST1	8534	broad.mit.edu	37	chr11	45671728	45671728	+	Missense_Mutation	SNP	T	C	C	0	1	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	gccgccagagccggtacgtgTcgcggaaggtctcgctgcgc	5	6	16	14	7	1	1	0	0	1	1	3	2	1	2	3	3	3	2	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:45671728T>C	uc001mys.1	-	4	1417	c.746A>G	c.(745-747)GAC>GGC	p.D249G		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	249	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CCGGTACGTGTCGCGGAAGGT	0.647													25	36					0	0	1	0	0		C	45671728	C	C	45671728	3	2	155	1	0	0	0	0	1	0	0	0	3400	1667	58	3	493	3	CHST1	11	45671728	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1541970	45671728	89334788	874	84701											
AMBRA1	55626	broad.mit.edu	37	chr11	46419362	46419362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacgatgatgttgttgcCgaagccgcccatggaggcca	8	8	14	11	3	0	2	0	2	0	0	0	5	0	3	4	2	2	3	4	2	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:46419362C>T	uc010rgu.1	-	18	3895	c.3535G>A	c.(3535-3537)GGC>AGC	p.G1179S	AMBRA1_uc010rgt.1_3'UTR|AMBRA1_uc009ylc.1_Missense_Mutation_p.G1150S|AMBRA1_uc001ncu.1_Missense_Mutation_p.G1089S|AMBRA1_uc001ncv.2_Missense_Mutation_p.G1182S|AMBRA1_uc001ncw.2_Missense_Mutation_p.G1060S|AMBRA1_uc001ncx.2_Missense_Mutation_p.G1119S	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1179					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		ATGTTGTTGCCGAAGCCGCCC	0.657													9	22					0	0	1	0	0		T	46419362	T	T	46419362	3	4	155	1	0	0	0	0	1	0	0	0	565	652	23	1	365	1	AMBRA1	11	46419362	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	747634	46419362	88587154	875	84702											
KIAA0652	9776	broad.mit.edu	37	chr11	46690085	46690085	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatataccctttgccatgTttgctcccaagaatttggag	9	14	9	9	0	0	1	0	0	0	1	1	3	1	3	3	2	3	2	3	2	4	5	rs141181676		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:46690085T>C	uc009yld.2	+	15	1873	c.1189T>C	c.(1189-1191)TTT>CTT	p.F397L	KIAA0652_uc001nda.2_Missense_Mutation_p.F430L|KIAA0652_uc001ndb.2_Missense_Mutation_p.F397L|KIAA0652_uc001ncz.2_Missense_Mutation_p.F360L|KIAA0652_uc001ndc.2_Missense_Mutation_p.F360L|KIAA0652_uc010rgv.1_Missense_Mutation_p.F281L	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1	397					autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		CTTTGCCATGTTTGCTCCCAA	0.507													27	123					0	0	1	0	0		C	46690085	C	C	46690085	3	2	155	1	0	0	0	0	1	0	0	0	8204	1725	60	3	1239	3	KIAA0652	11	46690085	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	270723	46690085	88316431	876	84703											
F2	2147	broad.mit.edu	37	chr11	46744981	46744981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacaggagaatttctgcCgcaaccccgacagcagcacc	12	5	8	16	2	1	1	0	0	1	1	1	3	1	1	5	1	5	3	5	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:46744981C>T	uc001ndf.3	+	6	515	c.472C>T	c.(472-474)CGC>TGC	p.R158C	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	158	Kringle 1.				activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	GAATTTCTGCCGCAACCCCGA	0.592													7	52					0	0	1	0	0		T	46744981	T	T	46744981	3	4	155	1	0	0	0	0	1	0	0	0	5350	652	23	1	494	1	F2	11	46744981	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	54896	46744981	88261535	877	84704											
PSMC3	5702	broad.mit.edu	37	chr11	47445735	47445735	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggagtctttgttcacaccCtaaggacacagcacagggcc	11	8	10	12	0	2	0	1	0	1	0	2	2	2	2	2	3	1	2	2	3	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:47445735C>A	uc001nfh.2	-	6	648	c.454_splice	c.e6-1	p.G152_splice	PSMC3_uc009ylr.1_Splice_Site_p.G110_splice	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TGTTCACACCCTAAGGACACA	0.572													83	135					9.59524e-27	1.04658e-26	1	1	0		A	47445735	A	A	47445735	5	1	155	1	0	0	0	0	0	0	1	0	12709	695	24	5	894	5	PSMC3	11	47445735	Splice_Site	SNP	C	TCGA-CG-5726-01A-11D-1600-08	700754	47445735	87560781	878	84705											
OR4C46	119749	broad.mit.edu	37	chr11	51515297	51515297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatacatggagaataggaatAacatgacagagtttgttttg	16	12	10	3	0	0	3	0	1	0	2	0	5	0	4	0	2	2	2	0	2	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:51515297A>G	uc010ric.1	+	1	16	c.16A>G	c.(16-18)AAC>GAC	p.N6D		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GAATAGGAATAACATGACAGA	0.299													32	153					0	0	1	0	0		G	51515297	G	G	51515297	3	3	155	1	0	0	0	0	1	0	0	0	11070	362	13	3	18	3	OR4C46	11	51515297	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	4069562	51515297	83491219	879	84706											
OR5D18	219438	broad.mit.edu	37	chr11	55587636	55587638	+	In_Frame_Del	DEL	CTT	-	-																															ggtttcaacacaatcaatcaCttcttctgtgagttctcctc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:55587636_55587638delCTT	uc010rin.1	+	1	531_533	c.531_533delCTT	c.(529-534)CACTTC>CAC	p.F179del		NM_001001952	NP_001001952	Q8NGL1	OR5DI_HUMAN	olfactory receptor, family 5, subfamily D,	179	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3		all_epithelial(135;0.208)				CAATCAATCACTTCTTCTGTGAG	0.433													135	291	---	---	---	---						.	-	55587638	-	-	55587636	7	5	155	1	0	1	0	1	0	0	0	0	11176	564	20	0	533	0	OR5D18	11	55587636	In_Frame_Del	DEL	CTT	TCGA-CG-5726-01A-11D-1600-08	4072339	55587636	79418880	880	84707											
SPRYD5	84767	broad.mit.edu	37	chr11	55656478	55656478	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggagacatattacacagGtgagtgcacaccaagatttt	13	12	9	7	0	0	3	0	1	0	2	0	4	0	3	1	2	2	1	1	2	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:55656478G>C	uc010rip.1	+	5	853	c.761_splice	c.e5+1	p.R254_splice	SPRYD5_uc010riq.1_Splice_Site_p.R111_splice	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5							intracellular	zinc ion binding				0		all_epithelial(135;0.226)				TATTACACAGGTGAGTGCACA	0.368													10	150					0	0	1	0	0		C	55656478	C	C	55656478	5	2	155	1	0	0	0	0	0	0	1	0	15136	1275	44	5	776	5	SPRYD5	11	55656478	Splice_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	68842	55656478	79350038	881	84708											
OR8I2	120586	broad.mit.edu	37	chr11	55861672	55861672	+	Frame_Shift_Del	DEL	A	-	-																															gtctgaggaacaaagatgtgAaaaatgctcttctgagagtc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:55861672delA	uc010rix.1	+	1	889	c.889delA	c.(889-891)AAAfs	p.K297fs		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CAAAGATGTGAAAAATGCTCT	0.393													36	48	---	---	---	---						.	-	55861672	-	-	55861672	7	5	155	1	0	1	0	1	0	0	0	0	11259	247	9	0	891	0	OR8I2	11	55861672	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	205194	55861672	79144844	882	84709											
OR5J2	282775	broad.mit.edu	37	chr11	55944701	55944701	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgttgctgttaaccttctCcggagtcattgccatggcca	6	14	10	11	1	2	0	1	0	1	0	3	1	2	1	4	2	3	4	4	2	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:55944701C>A	uc010rjb.1	+	1	608	c.608C>A	c.(607-609)TCC>TAC	p.S203Y		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	203	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					TTAACCTTCTCCGGAGTCATT	0.463													86	102					2.35699e-46	2.61175e-46	1	1	0		A	55944701	A	A	55944701	3	1	155	1	0	0	0	0	1	0	0	0	11184	855	30	5	610	5	OR5J2	11	55944701	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	83029	55944701	79061815	883	84710											
OR5AP2	338675	broad.mit.edu	37	chr11	56409724	56409724	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctactgagaaagaaatacatGggggtgtggagacagagatc	15	7	14	5	0	0	4	0	1	0	4	1	7	0	4	0	3	2	0	0	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:56409724G>T	uc001njb.1	-	1	192	c.192C>A	c.(190-192)CCC>CCA	p.P64P		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						AGAAATACATGGGGGTGTGGA	0.438													8	121					0.000157383	0.000160261	1	1	0		T	56409724	T	T	56409724	2	4	155	1	0	0	0	0	0	0	0	1	11163	1335	47	5		5	OR5AP2	11	56409724	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	465023	56409724	78596792	884	84711											
APLNR	187	broad.mit.edu	37	chr11	57004323	57004323	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccggctgctccgaaacacGgtccagagcaccagaccgtt	9	6	10	16	4	0	2	0	0	0	2	3	3	3	2	5	2	3	4	5	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:57004323G>A	uc001njo.2	-	1	605	c.156C>T	c.(154-156)ACC>ACT	p.T52T	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	52	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity	p.T52N(1)		lung(5)|ovary(1)	6						TCCGAAACACGGTCCAGAGCA	0.612													46	80					0	0	1	0	0		A	57004323	A	A	57004323	2	1	155	1	0	0	0	0	0	0	0	1	777	1103	39	1		1	APLNR	11	57004323	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	594599	57004323	78002193	885	84712											
MS4A8B	83661	broad.mit.edu	37	chr11	60468386	60468386	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	caattctgtgttggtggtggCaccccacaatggttatcctg	7	13	11	10	0	1	0	0	0	1	0	2	0	2	0	3	4	0	3	3	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:60468386C>A	uc001npv.2	+	2	256	c.53C>A	c.(52-54)GCA>GAA	p.A18E	MS4A8B_uc009yne.1_Missense_Mutation_p.A18E	NM_031457	NP_113645	Q9BY19	M4A8B_HUMAN	membrane-spanning 4-domains, subfamily A, member	18	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						TTGGTGGTGGCACCCCACAAT	0.507													96	150					1.00528e-58	1.11691e-58	1	1	0		A	60468386	A	A	60468386	3	1	155	1	0	0	0	0	1	0	0	0	9885	710	25	5	55	5	MS4A8B	11	60468386	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3464063	60468386	74538130	886	84713											
DAGLA	747	broad.mit.edu	37	chr11	61511425	61511425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccctgggcagtggcggcGtcactcctgagcggcccccc	3	5	15	18	4	1	1	1	1	0	0	2	1	2	1	5	5	1	1	5	5	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:61511425G>A	uc001nsa.2	+	20	2704	c.2593G>A	c.(2593-2595)GTC>ATC	p.V865I		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	865	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CAGTGGCGGCGTCACTCCTGA	0.731													54	50					0	0	1	0	0		A	61511425	A	A	61511425	3	1	155	1	0	0	0	0	1	0	0	0	4229	1145	40	1	2667	1	DAGLA	11	61511425	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1043039	61511425	73495091	887	84714											
INCENP	3619	broad.mit.edu	37	chr11	61897562	61897562	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatgtcacccagctcatgtCcaccgagcctctgccccgca	7	7	8	19	2	3	0	2	0	1	0	4	1	4	0	6	0	3	3	6	0	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:61897562C>A	uc001nsw.1	+	4	765	c.563C>A	c.(562-564)TCC>TAC	p.S188Y	INCENP_uc009ynv.2_Missense_Mutation_p.S188Y|INCENP_uc009ynw.1_Missense_Mutation_p.S188Y|INCENP_uc001nsx.1_Missense_Mutation_p.S188Y	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	188					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						CAGCTCATGTCCACCGAGCCT	0.602													26	39					4.87955e-14	5.18026e-14	1	1	0		A	61897562	A	A	61897562	3	1	155	1	0	0	0	0	1	0	0	0	7749	855	30	5	573	5	INCENP	11	61897562	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	386137	61897562	73108954	888	84715											
METTL12	751071	broad.mit.edu	37	chr11	62434402	62434402	+	Missense_Mutation	SNP	A	G	G	1	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	gattcagttctcagatgaggAccctgatgtgcgactgccct	8	11	11	11	1	2	3	2	2	1	1	3	6	2	4	2	1	2	1	2	1	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:62434402A>G	uc001nug.1	+	3	861	c.602A>G	c.(601-603)GAC>GGC	p.D201G	C11orf48_uc001nue.2_Intron|C11orf48_uc001nuf.2_Intron|METTL12_uc001nuh.2_3'UTR|METTL12_uc010rmc.1_RNA	NM_001043229	NP_001036694	A8MUP2	MTL12_HUMAN	methyltransferase like 12 precursor	201						mitochondrion	methyltransferase activity				0						TCAGATGAGGACCCTGATGTG	0.567													6	141					0	0	1	0	0		G	62434402	G	G	62434402	3	3	155	1	0	0	0	0	1	0	0	0	9514	275	10	3	608	3	METTL12	11	62434402	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	536840	62434402	72572114	889	84716											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62482999	62482999	+	Silent	SNP	T	C	C	0	1	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	ttgtattgtctgtaatagtcTctgtatctgttgtactcata	8	20	7	6	0	4	0	1	0	3	0	5	0	4	0	0	0	1	5	0	0	6	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:62482999T>C	uc001nuw.2	-	13	2329	c.2136A>G	c.(2134-2136)AGA>AGG	p.R712R	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	712	Tyr-rich.				cell killing	nucleus	ATP binding|nucleic acid binding				0						TGTAATAGTCTCTGTATCTGT	0.428													9	141					0	0	1	0	0		C	62482999	C	C	62482999	2	2	155	1	0	0	0	0	0	0	0	1	7291	1548	54	3		3	HNRNPUL2	11	62482999	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	48597	62482999	72523517	890	84717											
NRXN2	9379	broad.mit.edu	37	chr11	64419616	64419616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccccgcaaacagcgtttcGgggcctttacctgcggcacc	6	8	11	16	4	0	0	0	0	0	0	1	0	0	0	5	3	5	3	5	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:64419616G>A	uc001oar.2	-	14	2866	c.2427C>T	c.(2425-2427)CCC>CCT	p.P809P	NRXN2_uc001oas.2_Silent_p.P769P|NRXN2_uc001oaq.2_Silent_p.P476P	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	170	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane		p.P809P(1)		upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						ACAGCGTTTCGGGGCCTTTAC	0.572													20	23					0	0	1	0	0		A	64419616	A	A	64419616	2	1	155	1	0	0	0	0	0	0	0	1	10685	1103	39	1		1	NRXN2	11	64419616	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1936617	64419616	70586900	891	84718											
LTBP3	4054	broad.mit.edu	37	chr11	65315174	65315174	+	Frame_Shift_Del	DEL	C	-	-																															cgctcacccacgcacgagcgCcccccggcgcccacgtgcag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:65315174delC	uc001oej.2	-	13	2234	c.1965delG	c.(1963-1965)GGGfs	p.G655fs	LTBP3_uc001oeg.2_5'Flank|LTBP3_uc001oeh.2_Frame_Shift_Del_p.G85fs|LTBP3_uc010roi.1_Frame_Shift_Del_p.G538fs|LTBP3_uc001oei.2_Frame_Shift_Del_p.G655fs|LTBP3_uc010roj.1_Frame_Shift_Del_p.G356fs|LTBP3_uc010rok.1_Frame_Shift_Del_p.G566fs	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	655	EGF-like 4; calcium-binding (Potential).|Cys-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						CGCACGAGCGCCCCCCGGCGC	0.736													6	8	---	---	---	---						.	-	65315174	-	-	65315174	7	5	155	1	0	1	0	1	0	0	0	0	9093	726	26	0	2010	0	LTBP3	11	65315174	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	895558	65315174	69691342	892	84719											
MAP3K11	4296	broad.mit.edu	37	chr11	65365835	65365835	+	Frame_Shift_Del	DEL	C	-	-																															gtgccctgcagtcctgggggCccccctggaaggggttggca																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:65365835delC	uc001oew.2	-	10	2964	c.2471delG	c.(2470-2472)GGCfs	p.G824fs	KCNK7_uc001oeq.2_5'Flank|KCNK7_uc001oer.2_5'Flank|KCNK7_uc001oes.2_5'Flank|KCNK7_uc001oeu.2_5'Flank|MAP3K11_uc001oev.2_Frame_Shift_Del_p.G240fs|MAP3K11_uc010rol.1_Frame_Shift_Del_p.G567fs|MAP3K11_uc001oex.1_Frame_Shift_Del_p.G313fs	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	824	Pro-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						GTCCTGGGGGCCCCCCTGGAA	0.701													11	22	---	---	---	---						.	-	65365835	-	-	65365835	7	5	155	1	0	1	0	1	0	0	0	0	9263	739	26	0	76	0	MAP3K11	11	65365835	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	50661	65365835	69640681	893	84720											
SF3B2	10992	broad.mit.edu	37	chr11	65822610	65822610	+	Frame_Shift_Del	DEL	C	-	-																															ctctgcagcctcctccgccaCccccaccacctccaccaggc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:65822610delC	uc001ogy.1	+	4	362	c.322delC	c.(322-324)CCCfs	p.P108fs	SF3B2_uc001ogx.1_Frame_Shift_Del_p.P108fs	NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	108	Poly-Pro.				interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						TCCTCCGCCACCCCCACCACC	0.597													36	65	---	---	---	---						.	-	65822610	-	-	65822610	7	5	155	1	0	1	0	1	0	0	0	0	14176	507	18	0	336	0	SF3B2	11	65822610	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	456775	65822610	69183906	894	84721											
SPTBN2	6712	broad.mit.edu	37	chr11	66457628	66457628	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcagcagctgccggcgggCggcagagcttccctgaagct	7	5	15	14	3	0	2	0	1	0	1	1	2	1	2	2	3	6	6	2	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:66457628C>T	uc001ojd.2	-	27	5764	c.5692G>A	c.(5692-5694)GCC>ACC	p.A1898T	SPTBN2_uc001ojc.1_5'Flank	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1898	Spectrin 15.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TGCCGGCGGGCGGCAGAGCTT	0.642													4	53					0	0	1	0	0		T	66457628	T	T	66457628	3	4	155	1	0	0	0	0	1	0	0	0	15145	768	27	1	1524	1	SPTBN2	11	66457628	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	635018	66457628	68548888	895	84722											
LRFN4	78999	broad.mit.edu	37	chr11	66625774	66625774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttattgacgcactgcccccaGgcgccttcgcccagctcggt	5	9	10	17	4	0	1	0	1	0	0	2	1	0	1	4	2	2	2	4	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:66625774G>A	uc001ojr.2	+	1	899	c.559G>A	c.(559-561)GGC>AGC	p.G187S	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojq.1_Missense_Mutation_p.G187S|LRFN4_uc001ojs.2_Missense_Mutation_p.G187S	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	187	Extracellular (Potential).|LRR 6.					integral to membrane					0						ACTGCCCCCAGGCGCCTTCGC	0.672													18	18					0	0	1	0	0		A	66625774	A	A	66625774	3	1	155	1	0	0	0	0	1	0	0	0	8958	1000	35	4	561	4	LRFN4	11	66625774	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	168146	66625774	68380742	896	84723											
ADRBK1	156	broad.mit.edu	37	chr11	67048958	67048958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagtgcctggacaaaaagCgcatcaagatgaagcagggg	15	5	14	7	1	1	3	1	2	0	1	1	4	1	4	1	3	3	2	1	3	5	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:67048958C>T	uc009yrn.1	+	9	942	c.676C>T	c.(676-678)CGC>TGC	p.R226C	ADRBK1_uc009yrm.1_Missense_Mutation_p.R226C	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	226	Protein kinase.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	GGACAAAAAGCGCATCAAGAT	0.657													15	38					0	0	1	0	0		T	67048958	T	T	67048958	3	4	155	1	0	0	0	0	1	0	0	0	343	768	27	1	710	1	ADRBK1	11	67048958	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	423184	67048958	67957558	897	84724											
SUV420H1	51111	broad.mit.edu	37	chr11	67925991	67925991	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacttctttttggacatgcCtgtgtcactcttatgacact	7	17	7	10	0	3	2	1	2	2	0	3	3	3	3	1	1	1	0	1	1	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:67925991C>A	uc001onm.1	-	11	2078	c.1822G>T	c.(1822-1824)GGC>TGC	p.G608C	SUV420H1_uc009yse.1_Missense_Mutation_p.G194C|SUV420H1_uc001onn.1_Missense_Mutation_p.G436C|SUV420H1_uc009ysf.2_Missense_Mutation_p.G368C	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	608					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						TTGGACATGCCTGTGTCACTC	0.483													12	120					7.03913e-09	7.3469e-09	1	1	0		A	67925991	A	A	67925991	3	1	155	1	0	0	0	0	1	0	0	0	15439	681	24	5	839	5	SUV420H1	11	67925991	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	877033	67925991	67080525	898	84725											
IGHMBP2	3508	broad.mit.edu	37	chr11	68707031	68707031	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcggtgagagggctcgcgcCcatgcccggcagagaatcag	8	5	16	12	4	1	2	1	1	0	2	2	4	1	2	2	3	2	2	2	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:68707031C>A	uc001ook.1	+	15	2916	c.2814C>A	c.(2812-2814)GCC>GCA	p.A938A	IGHMBP2_uc001ool.1_Silent_p.A562A	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	938	AN1-type.				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GGGCTCGCGCCCATGCCCGGC	0.642													10	47					0.000978159	0.000992413	1	1	0		A	68707031	A	A	68707031	2	1	155	1	0	0	0	0	0	0	0	1	7607	610	22	5		5	IGHMBP2	11	68707031	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	781040	68707031	66299485	899	84726											
PPFIA1	8500	broad.mit.edu	37	chr11	70194330	70194330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaagaaaatacagagcagcGggcagaggagattgaaagtc	19	4	13	5	1	0	5	0	1	0	4	1	6	0	5	0	2	3	2	0	2	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:70194330G>A	uc001opo.2	+	16	2165	c.1967G>A	c.(1966-1968)CGG>CAG	p.R656Q	PPFIA1_uc001opn.1_Missense_Mutation_p.R656Q|PPFIA1_uc001opp.2_RNA|PPFIA1_uc001opq.1_RNA	NM_003626	NP_003617	Q13136	LIPA1_HUMAN	PTPRF interacting protein alpha 1 isoform b	656	Potential.				cell-matrix adhesion	cytoplasm	protein binding|signal transducer activity			lung(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(2;1.04e-44)|LUSC - Lung squamous cell carcinoma(11;1.46e-14)|STAD - Stomach adenocarcinoma(18;0.0513)			ACAGAGCAGCGGGCAGAGGAG	0.438													32	194					0	0	1	0	0		A	70194330	A	A	70194330	3	1	155	1	0	0	0	0	1	0	0	0	12328	1116	39	1	2025	1	PPFIA1	11	70194330	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1487299	70194330	64812186	900	84727											
NADSYN1	55191	broad.mit.edu	37	chr11	71201915	71201915	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggctacctgaccaagtaCgactgctccagtgcggacat	9	8	11	13	2	0	1	0	1	0	0	1	3	1	2	3	2	4	3	3	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:71201915C>T	uc001oqn.2	+	17	1713	c.1587C>T	c.(1585-1587)TAC>TAT	p.Y529Y	NADSYN1_uc001oqo.2_Silent_p.Y269Y|NADSYN1_uc001oqp.2_Silent_p.Y158Y	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	529	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TGACCAAGTACGACTGCTCCA	0.632													7	94					0	0	1	0	0		T	71201915	T	T	71201915	2	4	155	1	0	0	0	0	0	0	0	1	10156	547	19	1		1	NADSYN1	11	71201915	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1007585	71201915	63804601	901	84728											
WNT11	7481	broad.mit.edu	37	chr11	75898133	75898133	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagacatagcgctccacGgtacgctcacacctgcggca	9	7	10	15	4	1	1	1	0	0	1	2	1	2	1	2	2	4	5	2	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:75898133G>A	uc001oxe.2	-	5	1164	c.1041C>T	c.(1039-1041)ACC>ACT	p.T347T		NM_004626	NP_004617	O96014	WNT11_HUMAN	wingless-type MMTV integration site family,	347					adrenal gland development|anterior/posterior pattern formation|artery morphogenesis|axis specification|bone mineralization|cellular response to retinoic acid|cloacal septation|embryonic skeletal system development|endoderm development|lung-associated mesenchyme development|mesonephric duct development|negative regulation of apoptosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell migration|negative regulation of transcription, DNA-dependent|neuroendocrine cell differentiation|neuron differentiation|osteoblast differentiation|outflow tract morphogenesis|palate development|positive regulation of cell migration|positive regulation of protein kinase C signaling cascade|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor-beta2 production|protein localization at cell surface|protein phosphorylation|tight junction assembly|ureteric bud morphogenesis|ventricular septum morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|protein kinase activator activity|Ras GTPase activator activity|transcription regulatory region DNA binding			lung(1)|skin(1)	2						AGCGCTCCACGGTACGCTCAC	0.662													16	32					0	0	1	0	0		A	75898133	A	A	75898133	2	1	155	1	0	0	0	0	0	0	0	1	17410	1103	39	1		1	WNT11	11	75898133	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4696218	75898133	59108383	902	84729											
DLG2	1740	broad.mit.edu	37	chr11	83641443	83641443	+	Missense_Mutation	SNP	T	A	A																															ctgagaggaggaagcttttgTcacactcaacaggggaatag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:83641443T>A	uc001paj.2	-	10	1412	c.1109A>T	c.(1108-1110)GAC>GTC	p.D370V	DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Missense_Mutation_p.D337V|DLG2_uc010rsz.1_Missense_Mutation_p.D370V|DLG2_uc010rta.1_Missense_Mutation_p.D370V|DLG2_uc001pak.2_Missense_Mutation_p.D475V|DLG2_uc010rtb.1_Missense_Mutation_p.D337V|DLG2_uc001pal.1_Missense_Mutation_p.D370V|DLG2_uc001pam.1_Missense_Mutation_p.D409V	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	370						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GAAGCTTTTGTCACACTCAAC	0.512													5	186					0	0	1	0	0		A	83641443	A	A	83641443	3	1	155	1	0	0	0	0	1	0	0	0	4561	1667	58	5	1609	5	DLG2	11	83641443	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	7743310	83641443	51365073	903	84730	160	2									
DLG2	1740	broad.mit.edu	37	chr11	83641447	83641447	+	Missense_Mutation	SNP	A	T	T																															gaggaggaagcttttgtcacActcaacaggggaatagtgcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:83641447A>T	uc001paj.2	-	10	1408	c.1105T>A	c.(1105-1107)TGT>AGT	p.C369S	DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Missense_Mutation_p.C336S|DLG2_uc010rsz.1_Missense_Mutation_p.C369S|DLG2_uc010rta.1_Missense_Mutation_p.C369S|DLG2_uc001pak.2_Missense_Mutation_p.C474S|DLG2_uc010rtb.1_Missense_Mutation_p.C336S|DLG2_uc001pal.1_Missense_Mutation_p.C369S|DLG2_uc001pam.1_Missense_Mutation_p.C408S	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	369						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CTTTTGTCACACTCAACAGGG	0.517													5	179					0	0	1	0	0		T	83641447	T	T	83641447	3	4	155	1	0	0	0	0	1	0	0	0	4561	159	6	5	1613	5	DLG2	11	83641447	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	4	83641447	51365069	904	84731	160	2									
DLG2	1740	broad.mit.edu	37	chr11	83641517	83641517	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacagtgctgtaaacaggTtccggaggcctggtgataca	10	10	12	9	1	1	1	1	1	0	0	2	2	2	2	2	4	3	3	2	4	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:83641517T>C	uc001paj.2	-	10	1338	c.1035A>G	c.(1033-1035)GAA>GAG	p.E345E	DLG2_uc001pai.2_Intron|DLG2_uc010rsy.1_Silent_p.E312E|DLG2_uc010rsz.1_Silent_p.E345E|DLG2_uc010rta.1_Silent_p.E345E|DLG2_uc001pak.2_Silent_p.E450E|DLG2_uc010rtb.1_Silent_p.E312E|DLG2_uc001pal.1_Silent_p.E345E|DLG2_uc001pam.1_Silent_p.E384E	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	345						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				TGTAAACAGGTTCCGGAGGCC	0.473													4	148					0	0	1	0	0		C	83641517	C	C	83641517	2	2	155	1	0	0	0	0	0	0	0	1	4561	1722	60	3		3	DLG2	11	83641517	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	70	83641517	51364999	905	84732											
ME3	10873	broad.mit.edu	37	chr11	86267648	86267648	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caggccagccccacggtaggCgtgtacacgattggcatgaa	10	6	13	12	3	0	1	0	1	0	0	0	2	0	1	3	4	2	3	3	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:86267648C>T	uc001pbz.2	-	3	668	c.414G>A	c.(412-414)ACG>ACA	p.T138T	ME3_uc001pca.2_Silent_p.T138T|ME3_uc009yvk.2_Silent_p.T138T|ME3_uc010rtr.1_RNA	NM_001014811	NP_001014811	Q16798	MAON_HUMAN	mitochondrial malic enzyme 3 precursor	138					aerobic respiration|malate metabolic process|oxygen metabolic process|pyruvate metabolic process	mitochondrial matrix	malate dehydrogenase (oxaloacetate-decarboxylating) (NADP+) activity|metal ion binding|NAD binding			ovary(1)	1		Acute lymphoblastic leukemia(157;4.34e-06)|all_hematologic(158;0.00252)			NADH(DB00157)	CCACGGTAGGCGTGTACACGA	0.592													28	51					0	0	1	0	0		T	86267648	T	T	86267648	2	4	155	1	0	0	0	0	0	0	0	1	9437	755	27	1		1	ME3	11	86267648	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2626131	86267648	48738868	906	84733											
GRM5	2915	broad.mit.edu	37	chr11	88386447	88386447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtttcggtggtttgtttctgGccggagcttcagataataat	7	16	12	6	2	2	1	1	0	1	1	3	2	2	2	1	4	1	4	1	4	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:88386447G>A	uc001pcq.2	-	3	1236	c.1036C>T	c.(1036-1038)CCA>TCA	p.P346S	GRM5_uc009yvm.2_Missense_Mutation_p.P346S	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	346	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TTTGTTTCTGGCCGGAGCTTC	0.458													57	80					0	0	1	0	0		A	88386447	A	A	88386447	3	1	155	1	0	0	0	0	1	0	0	0	6816	1203	42	2	2630	2	GRM5	11	88386447	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2118799	88386447	46620069	907	84734											
NAALAD2	10003	broad.mit.edu	37	chr11	89892496	89892496	+	Missense_Mutation	SNP	A	G	G	1	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	acctggctttacagggagtgAttctttcaggtaattttgca	9	15	10	7	0	2	1	1	1	1	0	2	2	2	2	1	3	2	3	1	3	2	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:89892496A>G	uc001pdf.3	+	8	1089	c.980A>G	c.(979-981)GAT>GGT	p.D327G	NAALAD2_uc009yvx.2_Intron|NAALAD2_uc009yvy.2_Intron|NAALAD2_uc001pdd.2_3'UTR|NAALAD2_uc001pde.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	327	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				ACAGGGAGTGATTCTTTCAGG	0.373													47	99					0	0	1	0	0		G	89892496	G	G	89892496	3	3	155	1	0	0	0	0	1	0	0	0	10146	333	12	3	1010	3	NAALAD2	11	89892496	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1506049	89892496	45114020	908	84735											
FAT3	120114	broad.mit.edu	37	chr11	92538325	92538325	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttaactgcaggaggaaAccctcgaggaaggtttgctc	10	12	11	8	1	0	0	0	0	0	0	2	4	0	3	1	4	4	3	1	4	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:92538325A>G	uc001pdj.3	+	10	8920	c.8903A>G	c.(8902-8904)AAC>AGC	p.N2968S		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2968	Cadherin 27.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCAGGAGGAAACCCTCGAGGA	0.438										TCGA Ovarian(4;0.039)			18	54					0	0	1	0	0		G	92538325	G	G	92538325	3	3	155	1	0	0	0	0	1	0	0	0	5705	43	2	3	8941	3	FAT3	11	92538325	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2645829	92538325	42468191	909	84736											
FAT3	120114	broad.mit.edu	37	chr11	92539641	92539641	+	Silent	SNP	T	C	C	0	1	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	tatatacgatactcactctaTggatctggaaacagtgaatt	14	13	7	7	1	3	1	1	1	2	0	3	4	3	3	0	2	3	0	0	2	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:92539641T>C	uc001pdj.3	+	11	9224	c.9207T>C	c.(9205-9207)TAT>TAC	p.Y3069Y		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3069	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACTCACTCTATGGATCTGGAA	0.323										TCGA Ovarian(4;0.039)			4	4					0	0	1	0	0		C	92539641	C	C	92539641	2	2	155	1	0	0	0	0	0	0	0	1	5705	1471	51	3		3	FAT3	11	92539641	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1316	92539641	42466875	910	84737											
PIWIL4	143689	broad.mit.edu	37	chr11	94353244	94353244	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgtcatctatgatgacaaCggcttgaagcccgaccatat	13	10	8	10	2	2	3	1	3	1	0	2	4	2	3	2	1	2	1	2	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:94353244C>T	uc001pfa.2	+	19	2587	c.2376C>T	c.(2374-2376)AAC>AAT	p.N792N	PIWIL4_uc009ywk.1_RNA	NM_152431	NP_689644	Q7Z3Z4	PIWL4_HUMAN	piwi-like 4	792	Piwi.				cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|meiosis|multicellular organismal development|piRNA metabolic process|regulation of translation|spermatogenesis	nucleus|piP-body	piRNA binding			skin(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				ATGATGACAACGGCTTGAAGC	0.443													49	71					0	0	1	0	0		T	94353244	T	T	94353244	2	4	155	1	0	0	0	0	0	0	0	1	11979	535	19	1		1	PIWIL4	11	94353244	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1813603	94353244	40653272	911	84738											
PGR	5241	broad.mit.edu	37	chr11	100998808	100998808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctggcagccccggcccCgccgtcgtaactttcgtctt	3	9	12	17	6	1	0	0	0	1	0	3	0	1	0	5	3	2	3	5	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:100998808C>T	uc001pgh.2	-	1	1737	c.994G>A	c.(994-996)GGG>AGG	p.G332R	PGR_uc001pgi.2_Missense_Mutation_p.G332R|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	332	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	GCCCCGGCCCCGCCGTCGTAA	0.662													6	2					0	0	1	0	0		T	100998808	T	T	100998808	3	4	155	1	0	0	0	0	1	0	0	0	11824	652	23	1	1839	1	PGR	11	100998808	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6645564	100998808	34007708	912	84739											
MMP27	64066	broad.mit.edu	37	chr11	102562575	102562575	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactcttatgatacaatatCtttatgcctcctgaatgtgc	12	15	5	9	0	2	2	0	2	2	0	3	2	3	2	2	0	4	0	2	0	7	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:102562575C>A	uc001phd.1	-	10	1487	c.1464G>T	c.(1462-1464)AAG>AAT	p.K488N		NM_022122	NP_071405	Q9H306	MMP27_HUMAN	matrix metalloproteinase 27 precursor	488					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3	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)		GATACAATATCTTTATGCCTC	0.299													78	107					9.42754e-34	1.03709e-33	1	1	0		A	102562575	A	A	102562575	3	1	155	1	0	0	0	0	1	0	0	0	9682	912	32	5	81	5	MMP27	11	102562575	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1563767	102562575	32443941	913	84740											
MMP12	4321	broad.mit.edu	37	chr11	102738724	102738724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtaggtggggaacattacGgcctttggatcactagaatg	10	12	13	6	1	1	1	1	0	0	1	1	3	1	3	1	5	2	1	1	5	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:102738724G>A	uc001phk.2	-	6	747	c.702C>T	c.(700-702)GCC>GCT	p.A234A		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	234					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	GGAACATTACGGCCTTTGGAT	0.453													13	13					0	0	1	0	0		A	102738724	A	A	102738724	2	1	155	1	0	0	0	0	0	0	0	1	9669	1116	39	1		1	MMP12	11	102738724	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	176149	102738724	32267792	914	84741											
DCUN1D5	84259	broad.mit.edu	37	chr11	102953515	102953515	+	Frame_Shift_Del	DEL	A	-	-																															tttaaccattcttccttggtAaaaaatcccatgctttcagc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:102953515delA	uc001phm.2	-	4	571	c.303delT	c.(301-303)TTTfs	p.F101fs	DCUN1D5_uc010ruw.1_Frame_Shift_Del_p.F32fs	NM_032299	NP_115675	Q9BTE7	DCNL5_HUMAN	DCN1, defective in cullin neddylation 1, domain	101	DCUN1.										0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.00032)|Epithelial(105;0.0689)|all cancers(92;0.186)		CTTCCTTGGTAAAAAATCCCA	0.318													58	126	---	---	---	---						.	-	102953515	-	-	102953515	7	5	155	1	0	1	0	1	0	0	0	0	4320	359	13	0	430	0	DCUN1D5	11	102953515	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	214791	102953515	32053001	915	84742											
DRD2	1813	broad.mit.edu	37	chr11	113287617	113287617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtccgaagaggagtgggcagGagatggtgaaggacaggacc	12	4	19	6	1	0	3	0	1	0	2	1	8	1	6	2	6	0	1	2	6	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:113287617G>A	uc001pnz.2	-	3	821	c.500C>T	c.(499-501)TCC>TTC	p.S167F	DRD2_uc010rwv.1_Missense_Mutation_p.S166F|DRD2_uc001poa.3_Missense_Mutation_p.S167F|DRD2_uc001pob.3_Missense_Mutation_p.S167F|DRD2_uc009yyr.1_Missense_Mutation_p.S167F	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	167	Helical; Name=4; (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		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)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	GAGTGGGCAGGAGATGGTGAA	0.592													10	15					0	0	1	0	0		A	113287617	A	A	113287617	3	1	155	1	0	0	0	0	1	0	0	0	4763	1174	41	4	851	4	DRD2	11	113287617	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	10334102	113287617	21718899	916	84743											
APOA1	335	broad.mit.edu	37	chr11	116706810	116706810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgggcgcgcgcgcggtcgCgcatctcctcgcccagtggg	3	6	16	16	8	1	0	0	0	1	0	4	0	1	0	2	3	0	1	2	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:116706810C>T	uc001ppu.1	-	4	597	c.518G>A	c.(517-519)CGC>CAC	p.R173H	APOA1_uc001ppv.1_Missense_Mutation_p.R173H	NM_000039	NP_000030	P02647	APOA1_HUMAN	apolipoprotein A-I preproprotein	173	6.|10 X approximate tandem repeats.				Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|cholesterol import|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|negative regulation of cytokine secretion involved in immune response|negative regulation of interleukin-1 beta secretion|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid efflux|platelet activation|platelet degranulation|positive regulation of cholesterol esterification|positive regulation of hydrolase activity|protein stabilization|reverse cholesterol transport	endocytic vesicle|endoplasmic reticulum lumen|plasma membrane|spherical high-density lipoprotein particle|stored secretory granule|very-low-density lipoprotein particle	apolipoprotein A-I receptor binding|beta-amyloid binding|cholesterol binding|cholesterol transporter activity|enzyme binding|high-density lipoprotein particle receptor binding|identical protein binding|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding				0	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)		CGCGCGGTCGCGCATCTCCTC	0.711													14	21					0	0	1	0	0		T	116706810	T	T	116706810	3	4	155	1	0	0	0	0	1	0	0	0	780	768	27	1	289	1	APOA1	11	116706810	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3419193	116706810	18299706	917	84744											
DSCAML1	57453	broad.mit.edu	37	chr11	117389401	117389401	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcggggcgcccttggcCgcacacatcagtgagaactg	7	5	17	12	3	1	1	1	1	0	1	1	2	1	1	2	5	1	1	2	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:117389401C>T	uc001prh.1	-	7	1472	c.1470G>A	c.(1468-1470)GCG>GCA	p.A490A	DSCAML1_uc001pri.1_Silent_p.A294A	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	430	Extracellular (Potential).|Ig-like C2-type 5.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CGCCCTTGGCCGCACACATCA	0.672													14	29					0	0	1	0	0		T	117389401	T	T	117389401	2	4	155	1	0	0	0	0	0	0	0	1	4775	639	23	1		1	DSCAML1	11	117389401	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	682591	117389401	17617115	918	84745											
AMICA1	120425	broad.mit.edu	37	chr11	118074193	118074193	+	Missense_Mutation	SNP	A	T	T	1	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	caatggttttcttgaacaccAggttccctaggtggatactg	9	13	10	9	0	1	1	0	1	1	0	2	2	2	2	2	4	2	2	2	4	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:118074193A>T	uc001psk.2	-	6	896	c.722T>A	c.(721-723)CTG>CAG	p.L241Q	AMICA1_uc001psg.2_Missense_Mutation_p.L51Q|AMICA1_uc001psh.2_Missense_Mutation_p.L202Q|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.L231Q|AMICA1_uc001psj.2_Missense_Mutation_p.L230Q|AMICA1_uc010rxw.1_Missense_Mutation_p.L202Q|AMICA1_uc010rxx.1_Missense_Mutation_p.L241Q|AMICA1_uc001psl.1_Missense_Mutation_p.L197Q	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	241	Ig-like V-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CTTGAACACCAGGTTCCCTAG	0.527													179	268					0	0	1	0	0		T	118074193	T	T	118074193	3	4	155	1	0	0	0	0	1	0	0	0	574	188	7	5	482	5	AMICA1	11	118074193	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	684792	118074193	16932323	919	84746											
AMICA1	120425	broad.mit.edu	37	chr11	118074310	118074310	+	Missense_Mutation	SNP	A	T	T	1	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	ccaggttcacacgattctggAagtggccccagctctgggag	8	8	13	12	1	3	0	1	0	2	0	3	3	3	2	3	4	1	2	3	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:118074310A>T	uc001psk.2	-	6	779	c.605T>A	c.(604-606)TTC>TAC	p.F202Y	AMICA1_uc001psg.2_Missense_Mutation_p.F12Y|AMICA1_uc001psh.2_Missense_Mutation_p.F163Y|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Missense_Mutation_p.F192Y|AMICA1_uc001psj.2_Missense_Mutation_p.F191Y|AMICA1_uc010rxw.1_Missense_Mutation_p.F163Y|AMICA1_uc010rxx.1_Missense_Mutation_p.F202Y|AMICA1_uc001psl.1_Missense_Mutation_p.F158Y	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	202	Ig-like V-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		ACGATTCTGGAAGTGGCCCCA	0.473													115	180					0	0	1	0	0		T	118074310	T	T	118074310	3	4	155	1	0	0	0	0	1	0	0	0	574	246	9	5	599	5	AMICA1	11	118074310	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	117	118074310	16932206	920	84747											
CD3E	916	broad.mit.edu	37	chr11	118184512	118184512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggggcttgctgctgctggTttactactggagcaagaata	8	12	14	7	0	0	1	0	0	0	1	0	2	0	2	0	4	6	6	0	4	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:118184512T>C	uc001psq.3	+	7	699	c.443T>C	c.(442-444)GTT>GCT	p.V148A		NM_000733	NP_000724	P07766	CD3E_HUMAN	CD3E antigen, epsilon polypeptide precursor	148	Helical; (Potential).				G-protein coupled receptor protein signaling pathway|signal complex assembly|T cell costimulation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	external side of plasma membrane|integral to plasma membrane	protein heterodimerization activity|protein kinase binding|receptor signaling complex scaffold activity|receptor signaling protein activity|SH3 domain binding|T cell receptor binding|transmembrane receptor activity			ovary(2)	2	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.09e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0251)	Muromonab(DB00075)	CTGCTGCTGGTTTACTACTGG	0.567													13	79					0	0	1	0	0		C	118184512	C	C	118184512	3	2	155	1	0	0	0	0	1	0	0	0	3014	1725	60	3	465	3	CD3E	11	118184512	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	110202	118184512	16822004	921	84748											
MLL	4297	broad.mit.edu	37	chr11	118354898	118354898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcatcttttgtctccttagGaaaaaccacctccggtcaat	10	14	5	12	1	4	0	2	0	2	0	6	1	5	1	4	2	1	0	4	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:118354898G>A	uc001pta.2	+	9	4110	c.4087G>A	c.(4087-4089)GAA>AAA	p.E1363K	MLL_uc001ptb.2_Missense_Mutation_p.E1363K|MLL_uc001pte.1_RNA|MLL_uc009zab.1_Missense_Mutation_p.E64K	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1363		Breakpoint for translocation to form MLL- AF3P21 and MLL-CASC5 oncogenes.|Breakpoint for translocation to form MLL- CENPK oncogene.			apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		GTCTCCTTAGGAAAAACCACC	0.368			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								52	105					0	0	1	0	0		A	118354898	A	A	118354898	3	1	155	1	0	0	0	0	1	0	0	0	9638	1188	41	4	4121	4	MLL	11	118354898	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	170386	118354898	16651618	922	84749											
BCL9L	283149	broad.mit.edu	37	chr11	118771337	118771337	+	Missense_Mutation	SNP	T	G	G	0	1	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	aattgactcaccctgttccaTgttgctcagggtggtggaag	8	12	12	9	0	2	1	2	1	0	0	3	2	3	2	2	3	1	3	2	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:118771337T>G	uc001pug.2	-	6	4080	c.3115A>C	c.(3115-3117)ATG>CTG	p.M1039L	BCL9L_uc009zal.2_Missense_Mutation_p.M1034L	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1039	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CCCTGTTCCATGTTGCTCAGG	0.512													31	44					0	0	1	0	0		G	118771337	G	G	118771337	3	3	155	1	0	0	0	0	1	0	0	0	1383	1464	51	5	1396	5	BCL9L	11	118771337	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	416439	118771337	16235179	923	84750											
TECTA	7007	broad.mit.edu	37	chr11	121036077	121036077	+	Frame_Shift_Del	DEL	C	-	-																															tgtgtggctgcatcgagccaCccccctatggaaatagtgag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:121036077delC	uc010rzo.1	+	16	5368	c.5368delC	c.(5368-5370)CCCfs	p.P1790fs		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1790					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CATCGAGCCACCCCCCTATGG	0.592													5	9	---	---	---	---						.	-	121036077	-	-	121036077	7	5	155	1	0	1	0	1	0	0	0	0	15772	507	18	0	5430	0	TECTA	11	121036077	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	2264740	121036077	13970439	924	84751											
UBASH3B	84959	broad.mit.edu	37	chr11	122526825	122526825	+	Frame_Shift_Del	DEL	C	-	-																															ggagctgtacagcaaagtcaCcccccggaggaaccgccaac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:122526825delC	uc001pyi.3	+	1	428	c.68delC	c.(67-69)ACCfs	p.T23fs		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	23						cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		AGCAAAGTCACCCCCCGGAGG	0.672													5	7	---	---	---	---						.	-	122526825	-	-	122526825	7	5	155	1	0	1	0	1	0	0	0	0	16866	507	18	0	70	0	UBASH3B	11	122526825	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	1490748	122526825	12479691	925	84752											
OR8D4	338662	broad.mit.edu	37	chr11	123777411	123777411	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttatgcagagatagatcCatctcctattctggatgcat	10	16	7	8	0	2	2	0	0	2	2	4	4	3	3	2	1	2	2	2	1	3	6	rs150083489		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:123777411C>T	uc010saa.1	+	1	273	c.273C>T	c.(271-273)TCC>TCT	p.S91S		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		GAGATAGATCCATCTCCTATT	0.403													171	385					0	0	1	0	0		T	123777411	T	T	123777411	2	4	155	1	0	0	0	0	0	0	0	1	11252	581	21	4		4	OR8D4	11	123777411	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1250586	123777411	11229105	926	84753											
STT3A	3703	broad.mit.edu	37	chr11	125478022	125478022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcctgtcctttcatcagagCacatggcagcctttggggtc	7	11	11	12	0	2	1	2	0	0	1	4	1	3	1	3	3	3	2	3	3	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:125478022C>T	uc001qcd.2	+	9	909	c.799C>T	c.(799-801)CAC>TAC	p.H267Y	STT3A_uc009zbm.2_Missense_Mutation_p.H267Y|STT3A_uc001qce.2_Missense_Mutation_p.H267Y|STT3A_uc010sbg.1_Missense_Mutation_p.H175Y|STT3A_uc009zbn.2_Missense_Mutation_p.H41Y	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	267	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		TTCATCAGAGCACATGGCAGC	0.428													162	232					0	0	1	0	0		T	125478022	T	T	125478022	3	4	155	1	0	0	0	0	1	0	0	0	15358	710	25	2	829	2	STT3A	11	125478022	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1700611	125478022	9528494	927	84754											
PUS3	83480	broad.mit.edu	37	chr11	125765842	125765842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttatctgttctcccacatCggtgatagttggatgtctgt	6	17	9	9	1	3	1	0	1	3	0	5	2	3	2	1	2	0	2	1	2	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:125765842C>T	uc001qcy.2	-	2	436	c.338G>A	c.(337-339)CGA>CAA	p.R113Q	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	113						nucleus	RNA binding			ovary(1)	1	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)		TCTCCCACATCGGTGATAGTT	0.408													212	407					0	0	1	0	0		T	125765842	T	T	125765842	3	4	155	1	0	0	0	0	1	0	0	0	12857	884	31	1	1119	1	PUS3	11	125765842	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	287820	125765842	9240674	928	84755											
PRDM10	56980	broad.mit.edu	37	chr11	129784663	129784663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggccagacgccgactgcGacacagggatgtactgaatt	11	6	14	10	3	0	2	0	1	0	1	0	6	0	4	2	3	2	1	2	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:129784663G>A	uc001qfm.2	-	18	3021	c.2789C>T	c.(2788-2790)TCG>TTG	p.S930L	PRDM10_uc001qfj.2_Missense_Mutation_p.S844L|PRDM10_uc001qfk.2_Missense_Mutation_p.S840L|PRDM10_uc001qfl.2_Missense_Mutation_p.S844L|PRDM10_uc010sbx.1_Missense_Mutation_p.S840L|PRDM10_uc001qfn.2_Missense_Mutation_p.S926L|PRDM10_uc009zcs.1_Missense_Mutation_p.S113L	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	930	Gln-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		CGCCGACTGCGACACAGGGAT	0.542													18	258					0	0	1	0	0		A	129784663	A	A	129784663	3	1	155	1	0	0	0	0	1	0	0	0	12473	1059	37	1	713	1	PRDM10	11	129784663	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4018821	129784663	5221853	929	84756											
APLP2	334	broad.mit.edu	37	chr11	129993525	129993525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agctgtctgctcccaggaggCgatgacggggccctgccggg	5	6	17	13	3	1	1	0	1	1	0	2	3	2	2	3	5	3	2	3	5	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:129993525C>T	uc010sby.1	+	7	1098	c.941C>T	c.(940-942)GCG>GTG	p.A314V	APLP2_uc001qfp.2_Missense_Mutation_p.A314V|APLP2_uc001qfq.2_Intron|APLP2_uc010sbz.1_Intron|APLP2_uc001qfr.2_Intron|APLP2_uc001qfs.2_Intron|APLP2_uc001qfv.2_Intron	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	314	BPTI/Kunitz inhibitor.|Extracellular (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)		TCCCAGGAGGCGATGACGGGG	0.587													30	59					0	0	1	0	0		T	129993525	T	T	129993525	3	4	155	1	0	0	0	0	1	0	0	0	779	768	27	1	967	1	APLP2	11	129993525	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	208862	129993525	5012991	930	84757											
SNX19	399979	broad.mit.edu	37	chr11	130784286	130784286	+	Missense_Mutation	SNP	T	C	C	0	1	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	actgcttaggggctcaaagcTgaaggtggctgagctgagag	10	8	16	7	0	1	3	1	3	0	1	1	4	1	3	0	4	3	5	0	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:130784286T>C	uc001qgk.3	-	1	2097	c.1549A>G	c.(1549-1551)AGC>GGC	p.S517G	SNX19_uc010sce.1_Intron|SNX19_uc010scf.1_Intron|SNX19_uc010scg.1_Intron|SNX19_uc001qgl.3_Missense_Mutation_p.S517G|SNX19_uc009zcx.1_Intron	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	517					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		GGCTCAAAGCTGAAGGTGGCT	0.537													45	80					0	0	1	0	0		C	130784286	C	C	130784286	3	2	155	1	0	0	0	0	1	0	0	0	14915	1580	55	3	1473	3	SNX19	11	130784286	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	790761	130784286	4222230	931	84758											
NCAPD3	23310	broad.mit.edu	37	chr11	134050984	134050984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcttaccaacaggtcttcGtccatattccctgttccatt	7	15	5	14	2	1	0	0	0	1	0	6	0	4	0	4	1	2	2	4	1	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:134050984G>A	uc001qhd.1	-	20	3153	c.2547C>T	c.(2545-2547)GAC>GAT	p.D849D	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	849					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		ACAGGTCTTCGTCCATATTCC	0.468													23	52					0	0	1	0	0		A	134050984	A	A	134050984	2	1	155	1	0	0	0	0	0	0	0	1	10225	1136	40	1		1	NCAPD3	11	134050984	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3266698	134050984	955532	932	84759											
NCAPD3	23310	broad.mit.edu	37	chr11	134079287	134079287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaaaaattctttaaaaggtGaaagatggcatttcgaattt	17	14	7	3	1	1	2	0	1	1	1	2	3	1	2	0	2	0	1	0	2	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:134079287G>A	uc001qhd.1	-	5	1258	c.652C>T	c.(652-654)CAC>TAC	p.H218Y	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	218					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		TTTAAAAGGTGAAAGATGGCA	0.333													38	106					0	0	1	0	0		A	134079287	A	A	134079287	3	1	155	1	0	0	0	0	1	0	0	0	10225	1290	45	4	3968	4	NCAPD3	11	134079287	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	28303	134079287	927229	933	84760											
THYN1	29087	broad.mit.edu	37	chr11	134118831	134118831	+	Missense_Mutation	SNP	A	G	G	1	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	ggggaatgaaacgtttcatcAtccgaacaaactgtacatcc	14	9	8	10	2	2	1	2	1	0	0	4	3	4	2	2	2	4	2	2	2	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr11:134118831A>G	uc001qhf.2	-	7	605	c.503T>C	c.(502-504)ATG>ACG	p.M168T	THYN1_uc001qhg.2_Missense_Mutation_p.M168T|THYN1_uc001qhh.2_Missense_Mutation_p.M168T|THYN1_uc001qhi.2_Intron|THYN1_uc001qhj.2_Intron	NM_001037305	NP_001032382	Q9P016	THYN1_HUMAN	thymocyte nuclear protein 1 isoform 1	168						nucleus					0	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;1.68e-10)|all cancers(11;1.95e-09)|BRCA - Breast invasive adenocarcinoma(10;8.45e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.00148)|Lung(977;0.207)		ACGTTTCATCATCCGAACAAA	0.463													43	194					0	0	1	0	0		G	134118831	G	G	134118831	3	3	155	1	0	0	0	0	1	0	0	0	15911	217	8	3	182	3	THYN1	11	134118831	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	39544	134118831	887685	934	84761											
EFCAB4B	84766	broad.mit.edu	37	chr12	3757704	3757704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaggccagtgcccaccgacGcaccttaggaaatccagctg	11	5	10	15	2	0	0	0	0	0	0	1	2	1	1	5	2	2	2	5	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:3757704G>A	uc001qmj.2	-	11	1694	c.1122C>T	c.(1120-1122)TGC>TGT	p.C374C	EFCAB4B_uc010sen.1_Intron|EFCAB4B_uc010seo.1_Intron|EFCAB4B_uc001qmi.1_RNA	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	374					activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			GCCCACCGACGCACCTTAGGA	0.597													30	39					0	0	1	0	0		A	3757704	A	A	3757704	2	1	155	1	0	0	0	0	0	0	0	1	4943	1079	38	1		1	EFCAB4B	12	3757704	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08		3757704	130094191	935	84762											
PLEKHG6	55200	broad.mit.edu	37	chr12	6424299	6424299	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgacagtggcctgaccatCgagaagtcctggagggagct	9	6	16	10	2	0	2	0	1	0	1	2	6	1	4	3	4	1	1	3	4	1	0	rs143574959		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:6424299C>T	uc001qnr.2	+	4	571	c.423C>T	c.(421-423)ATC>ATT	p.I141I	PLEKHG6_uc001qns.2_Silent_p.I141I|PLEKHG6_uc010sew.1_Silent_p.I141I|PLEKHG6_uc010sex.1_Silent_p.I109I	NM_018173	NP_060643	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain-containing family G	141					regulation of Rho protein signal transduction	cleavage furrow|cytoplasm|spindle pole	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity	p.I141I(1)		large_intestine(1)|skin(1)	2						GCCTGACCATCGAGAAGTCCT	0.612													14	29					0	0	1	0	0		T	6424299	T	T	6424299	2	4	155	1	0	0	0	0	0	0	0	1	12093	874	31	1		1	PLEKHG6	12	6424299	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2666595	6424299	127427596	936	84763											
LTBR	4055	broad.mit.edu	37	chr12	6497628	6497630	+	In_Frame_Del	DEL	CTC	-	-																															ctgctccttgccaccgtcttCtcctgcatctggaagagcca																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:6497628_6497630delCTC	uc001qny.1	+	7	900_902	c.732_734delCTC	c.(730-735)TTCTCC>TTC	p.S245del	LTBR_uc010sfc.1_In_Frame_Del_p.S226del|LTBR_uc001qnz.1_In_Frame_Del_p.S240del	NM_002342	NP_002333	P36941	TNR3_HUMAN	lymphotoxin beta receptor precursor	245	Helical; (Potential).				apoptosis|cellular response to mechanical stimulus|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	protein binding|receptor activity			lung(2)	2						CCACCGTCTTCTCCTGCATCTGG	0.576													31	68	---	---	---	---						.	-	6497630	-	-	6497628	7	5	155	1	0	1	0	1	0	0	0	0	9095	912	32	0	758	0	LTBR	12	6497628	In_Frame_Del	DEL	CTC	TCGA-CG-5726-01A-11D-1600-08	73329	6497628	127354267	937	84764											
CD4	920	broad.mit.edu	37	chr12	6926429	6926429	+	Silent	SNP	T	C	C	0	1	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	gcggtgtgggtgctgaacccTgaggcggggatgtggcagtg	5	8	21	7	2	0	2	0	2	0	0	0	3	0	3	1	6	2	2	1	6	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:6926429T>C	uc001qqv.1	+	7	1334	c.1089T>C	c.(1087-1089)CCT>CCC	p.P363P	CD4_uc010sfj.1_Silent_p.P90P|CD4_uc009zfc.1_Silent_p.P184P|CD4_uc010sfk.1_Silent_p.P90P|CD4_uc010sfl.1_Silent_p.P90P|CD4_uc010sfm.1_Silent_p.P90P	NM_000616	NP_000607	P01730	CD4_HUMAN	CD4 antigen precursor	363	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion|entry into host cell|immune response|induction by virus of host cell-cell fusion|initiation of viral infection|maintenance of protein location in cell|positive regulation of interleukin-2 biosynthetic process|positive regulation of protein kinase activity|protein palmitoleylation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|T cell selection|transmembrane receptor protein tyrosine kinase signaling pathway	early endosome|endoplasmic reticulum membrane|integral to membrane|T cell receptor complex	coreceptor activity|extracellular matrix structural constituent|glycoprotein binding|MHC class II protein binding|protein homodimerization activity|protein kinase binding|transmembrane receptor activity|zinc ion binding				0		Myeloproliferative disorder(1001;0.0122)				TGCTGAACCCTGAGGCGGGGA	0.587													8	20					0	0	1	0	0		C	6926429	C	C	6926429	2	2	155	1	0	0	0	0	0	0	0	1	3017	1567	55	3		3	CD4	12	6926429	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	428801	6926429	126925466	938	84765											
CD163	9332	broad.mit.edu	37	chr12	7651478	7651478	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttacttgagcaaatcactCcagcatcctcagcatgatca	12	10	5	14	0	3	2	3	2	0	0	5	2	5	2	3	0	4	3	3	0	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:7651478C>A	uc001qsz.3	-	4	892	c.764G>T	c.(763-765)GGA>GTA	p.G255V	CD163_uc001qta.3_Missense_Mutation_p.G255V|CD163_uc009zfw.2_Missense_Mutation_p.G255V	NM_004244	NP_004235	Q86VB7	C163A_HUMAN	CD163 antigen isoform a	255	SRCR 2.|Extracellular (Potential).				acute-phase response	extracellular region|integral to plasma membrane	protein binding|scavenger receptor activity			ovary(6)|pancreas(1)|skin(1)	8						GCAAATCACTCCAGCATCCTC	0.418													10	271					4.68919e-08	4.88506e-08	1	1	0		A	7651478	A	A	7651478	3	1	155	1	0	0	0	0	1	0	0	0	2970	855	30	5	2758	5	CD163	12	7651478	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	725049	7651478	126200417	939	84766											
A2ML1	144568	broad.mit.edu	37	chr12	9020604	9020604	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggataccctgcccaatgtccCtggaatgtacacgttggagg	9	9	12	11	1	0	0	0	0	0	0	1	3	1	3	3	4	3	2	3	4	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:9020604C>A	uc001quz.3	+	30	3982	c.3884C>A	c.(3883-3885)CCT>CAT	p.P1295H	A2ML1_uc001qva.1_Missense_Mutation_p.P875H|A2ML1_uc010sgm.1_Missense_Mutation_p.P795H|A2ML1_uc001qvb.1_RNA	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	1139						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						CCCAATGTCCCTGGAATGTAC	0.483													53	84					3.76997e-23	4.08006e-23	1	1	0		A	9020604	A	A	9020604	3	1	155	1	0	0	0	0	1	0	0	0	5	681	24	5	4002	5	A2ML1	12	9020604	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1369126	9020604	124831291	940	84767											
GABARAPL1	23710	broad.mit.edu	37	chr12	10373153	10373153	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgctaccatgggccaactgtAtgaggtaatggttctggttg	8	13	13	7	0	1	1	0	1	1	0	1	1	1	1	2	4	3	5	2	4	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:10373153A>G	uc001qxs.2	+	3	524	c.284A>G	c.(283-285)TAT>TGT	p.Y95C	GABARAPL1_uc010shb.1_Missense_Mutation_p.Y95C|GABARAPL1_uc001qxt.2_RNA|GABARAPL1_uc001qxu.2_RNA	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1	95						autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0						GGCCAACTGTATGAGGTAATG	0.488													28	54					0	0	1	0	0		G	10373153	G	G	10373153	3	3	155	1	0	0	0	0	1	0	0	0	6167	449	16	3	294	3	GABARAPL1	12	10373153	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1352549	10373153	123478742	941	84768											
KLRC1	3821	broad.mit.edu	37	chr12	10601870	10601870	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatctatagaaagcagactgGagttcttcgaagtacaggcc	13	10	10	8	1	2	2	0	0	2	2	3	4	2	3	1	2	2	3	1	2	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:10601870G>T	uc001qyl.2	-	5	619	c.455C>A	c.(454-456)TCC>TAC	p.S152Y	KLRC1_uc009zhm.1_Missense_Mutation_p.S152Y|KLRC1_uc001qym.2_Missense_Mutation_p.S134Y|KLRC1_uc001qyn.2_Missense_Mutation_p.S152Y|KLRC1_uc001qyo.2_Missense_Mutation_p.S134Y	NM_002259	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C,	152	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						AAGCAGACTGGAGTTCTTCGA	0.303													143	297					3.38734e-80	3.77098e-80	1	1	0		T	10601870	T	T	10601870	3	4	155	1	0	0	0	0	1	0	0	0	8431	1174	41	5	258	5	KLRC1	12	10601870	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	228717	10601870	123250025	942	84769											
TAS2R43	259289	broad.mit.edu	37	chr12	11244407	11244407	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttatcacaaaaagatgacaaGccaaaaatagcaaaggcccc	20	5	6	10	0	1	2	1	1	0	1	1	2	1	2	3	1	2	1	3	1	8	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:11244407G>A	uc001qzq.1	-	1	506	c.422C>T	c.(421-423)GCT>GTT	p.A141V	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176884	NP_795365	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	141	Helical; Name=4; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	cilium membrane|motile cilium	bitter taste receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		AAGATGACAAGCCAAAAATAG	0.358													61	48					0	0	1	0	0		A	11244407	A	A	11244407	3	1	155	1	0	0	0	0	1	0	0	0	15606	971	34	2	511	2	TAS2R43	12	11244407	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	642537	11244407	122607488	943	84770											
ATF7IP	55729	broad.mit.edu	37	chr12	14650878	14650878	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcccttgcccatggcatgTactctcacccagtttgtatc	6	14	6	15	0	1	0	1	0	1	0	4	0	2	0	3	1	2	4	3	1	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:14650878T>C	uc001rbw.2	+	15	3842	c.3684T>C	c.(3682-3684)TGT>TGC	p.C1228C	ATF7IP_uc001rbx.2_Silent_p.C1227C|ATF7IP_uc001rby.3_Silent_p.C1228C|ATF7IP_uc001rca.2_Silent_p.C1228C	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1228	Interaction with MBD1.|Fibronectin type-III.				DNA methylation|interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|regulation of RNA polymerase II transcriptional preinitiation complex assembly|transcription, DNA-dependent		protein binding			lung(3)|ovary(1)|skin(1)	5						CCATGGCATGTACTCTCACCC	0.478													11	214					0	0	1	0	0		C	14650878	C	C	14650878	2	2	155	1	0	0	0	0	0	0	0	1	1088	1644	57	3		3	ATF7IP	12	14650878	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3406471	14650878	119201017	944	84771											
KIAA0528	9847	broad.mit.edu	37	chr12	22631335	22631335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agatgtgttgttcatatgagCcatcattaggagtcttccca	10	14	9	8	0	3	2	2	1	1	1	4	3	4	3	2	1	1	2	2	1	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:22631335C>T	uc001rfq.2	-	15	2042	c.1814G>A	c.(1813-1815)GGC>GAC	p.G605D	KIAA0528_uc010sir.1_Missense_Mutation_p.G420D|KIAA0528_uc010sis.1_Missense_Mutation_p.G605D|KIAA0528_uc010sit.1_Missense_Mutation_p.G607D|KIAA0528_uc010siu.1_Missense_Mutation_p.G605D|KIAA0528_uc001rfr.2_Missense_Mutation_p.G596D|KIAA0528_uc009ziy.1_Missense_Mutation_p.G607D	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	605							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						TTCATATGAGCCATCATTAGG	0.363													6	106					0	0	1	0	0		T	22631335	T	T	22631335	3	4	155	1	0	0	0	0	1	0	0	0	8198	739	26	2	1232	2	KIAA0528	12	22631335	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	7980457	22631335	111220560	945	84772											
LRMP	4033	broad.mit.edu	37	chr12	25232195	25232195	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaggagaatggtgttgaacgCgtgtgtcctgagagcctgct	9	10	15	7	2	0	3	0	2	0	2	1	5	1	3	2	2	3	2	2	2	3	1	rs114104872	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:25232195C>T	uc001rgh.2	+	6	1076	c.42C>T	c.(40-42)CGC>CGT	p.R14R	LRMP_uc001rgg.1_RNA|LRMP_uc010sja.1_Silent_p.R14R|LRMP_uc010sjb.1_5'UTR|LRMP_uc001rgi.2_RNA|LRMP_uc010sjc.1_Silent_p.R14R|LRMP_uc010sjd.1_5'UTR	NM_006152	NP_006143	Q12912	LRMP_HUMAN	lymphoid-restricted membrane protein	70	Cytoplasmic (Potential).				vesicle fusion|vesicle targeting	endoplasmic reticulum membrane|integral to plasma membrane				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Colorectal(261;0.11)					GTGTTGAACGCGTGTGTCCTG	0.373													116	218					0	0	1	0	0		T	25232195	T	T	25232195	2	4	155	1	0	0	0	0	0	0	0	1	8968	755	27	1		1	LRMP	12	25232195	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2600860	25232195	108619700	946	84773											
PPFIBP1	8496	broad.mit.edu	37	chr12	27820253	27820253	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacacaagtgttcccgaagaGgtattaatagactttcagta	15	11	8	7	1	1	2	1	0	0	2	2	3	2	2	1	1	1	3	1	1	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:27820253G>T	uc001ric.1	+	13	1574	c.1197G>T	c.(1195-1197)GAG>GAT	p.E399D	PPFIBP1_uc010sjr.1_Missense_Mutation_p.E230D|PPFIBP1_uc001rib.1_Missense_Mutation_p.E382D|PPFIBP1_uc001ria.2_Missense_Mutation_p.E368D|PPFIBP1_uc001rid.1_Missense_Mutation_p.E246D	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	399	Potential.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					TTCCCGAAGAGGTATTAATAG	0.403													16	135					7.07596e-05	7.24062e-05	1	1	0		T	27820253	T	T	27820253	3	4	155	1	0	0	0	0	1	0	0	0	12332	1014	35	5	1230	5	PPFIBP1	12	27820253	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2588058	27820253	106031642	947	84774											
KIF21A	55605	broad.mit.edu	37	chr12	39763645	39763645	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaacagctcgagaaataatAcccagttcttcctcaacaat	15	11	4	11	1	2	1	1	0	1	1	4	2	3	1	2	0	4	2	2	0	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:39763645A>G	uc001rly.2	-	3	482	c.336T>C	c.(334-336)GGT>GGC	p.G112G	KIF21A_uc001rlx.2_Silent_p.G112G|KIF21A_uc001rlz.2_Silent_p.G112G|KIF21A_uc010skl.1_Silent_p.G112G|KIF21A_uc001rma.1_Silent_p.G112G	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	112	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				GAGAAATAATACCCAGTTCTT	0.343													6	138					0	0	1	0	0		G	39763645	G	G	39763645	2	3	155	1	0	0	0	0	0	0	0	1	8304	378	14	3		3	KIF21A	12	39763645	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	11943392	39763645	94088250	948	84775											
CNTN1	1272	broad.mit.edu	37	chr12	41408095	41408095	+	Missense_Mutation	SNP	T	C	C	0	1	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	acagagagctgaccataacaTgggcggtaagtattgatgag	14	8	13	6	1	0	4	0	3	0	1	0	5	0	4	1	2	2	3	1	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:41408095T>C	uc001rmm.1	+	18	2292	c.2179T>C	c.(2179-2181)TGG>CGG	p.W727R	CNTN1_uc001rmn.1_Missense_Mutation_p.W716R	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	727	Fibronectin type-III 2.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GACCATAACATGGGCGGTAAG	0.378													37	49					0	0	1	0	0		C	41408095	C	C	41408095	3	2	155	1	0	0	0	0	1	0	0	0	3643	1464	51	3	2245	3	CNTN1	12	41408095	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1644450	41408095	92443800	949	84776											
PDZRN4	29951	broad.mit.edu	37	chr12	41967474	41967474	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgccgtgagttcatgatgCgaagcaggttagagtgtctc	8	11	14	8	3	2	3	1	2	1	1	4	4	2	3	1	1	2	3	1	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:41967474C>T	uc010skn.1	+	10	2364	c.2296C>T	c.(2296-2298)CGA>TGA	p.R766*	PDZRN4_uc001rmq.3_Nonsense_Mutation_p.R707*|PDZRN4_uc009zjz.2_Nonsense_Mutation_p.R705*|PDZRN4_uc001rmr.2_Nonsense_Mutation_p.R592*	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	965							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GTTCATGATGCGAAGCAGGTT	0.507													17	38					0	0	1	0	0		T	41967474	T	T	41967474	4	4	155	1	0	0	0	0	0	1	0	0	11729	760	27	1	3004	1	PDZRN4	12	41967474	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	559379	41967474	91884421	950	84777											
PPHLN1	51535	broad.mit.edu	37	chr12	42835202	42835202	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attagaaaagtctatacagtTtgcattgaggcagaatttac	15	13	8	5	0	1	3	0	1	1	2	1	3	1	3	0	1	3	3	0	1	7	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:42835202T>A	uc001rng.1	+	10	1100	c.995T>A	c.(994-996)TTT>TAT	p.F332Y	PPHLN1_uc001rmy.2_Missense_Mutation_p.F350Y|PPHLN1_uc001rne.2_Missense_Mutation_p.F320Y|PPHLN1_uc001rnb.2_Missense_Mutation_p.F339Y|PPHLN1_uc001rnd.2_Missense_Mutation_p.F284Y|PPHLN1_uc001rnc.2_Missense_Mutation_p.F332Y|PPHLN1_uc001rnf.2_Missense_Mutation_p.F313Y|PPHLN1_uc010skq.1_Missense_Mutation_p.F258Y|PPHLN1_uc010skr.1_Missense_Mutation_p.F277Y|PPHLN1_uc010sks.1_Missense_Mutation_p.F258Y|PPHLN1_uc010skt.1_Missense_Mutation_p.F212Y|PPHLN1_uc001rni.1_Missense_Mutation_p.F277Y|PPHLN1_uc001rnh.1_RNA|PPHLN1_uc010sku.1_Missense_Mutation_p.F265Y	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	332					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		TCTATACAGTTTGCATTGAGG	0.378													80	119					0	0	1	0	0		A	42835202	A	A	42835202	3	1	155	1	0	0	0	0	1	0	0	0	12334	1841	64	5	1066	5	PPHLN1	12	42835202	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	867728	42835202	91016693	951	84778											
ANO6	196527	broad.mit.edu	37	chr12	45784262	45784262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatacggataaccctctgtgCcagtgctgtctttttctggg	6	15	10	10	1	3	0	0	0	3	0	3	1	3	1	2	2	4	1	2	2	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:45784262C>T	uc001roo.2	+	12	1702	c.1367C>T	c.(1366-1368)GCC>GTC	p.A456V	ANO6_uc010sld.1_Missense_Mutation_p.A456V|ANO6_uc010sle.1_Missense_Mutation_p.A456V|ANO6_uc010slf.1_Missense_Mutation_p.A477V|ANO6_uc010slg.1_Missense_Mutation_p.A438V	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	456	Helical; (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						ACCCTCTGTGCCAGTGCTGTC	0.299													110	203					0	0	1	0	0		T	45784262	T	T	45784262	3	4	155	1	0	0	0	0	1	0	0	0	701	739	26	2	1433	2	ANO6	12	45784262	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2949060	45784262	88067633	952	84779											
C12orf41	54934	broad.mit.edu	37	chr12	49048764	49048764	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagcaatttctttgactaaaTgatcttcaagggttagtgaa	13	14	8	6	0	3	3	1	3	2	0	3	3	3	3	0	1	1	2	0	1	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:49048764T>C	uc001rrx.2	-	9	1382	c.1307A>G	c.(1306-1308)CAT>CGT	p.H436R	C12orf41_uc001rrw.2_Missense_Mutation_p.H207R|C12orf41_uc001rrz.2_Missense_Mutation_p.H619R|C12orf41_uc001rry.2_RNA|C12orf41_uc001rru.2_Missense_Mutation_p.H67R|C12orf41_uc001rrv.2_Missense_Mutation_p.H120R|SNORA34_uc001rsa.1_5'Flank|MIR1291_hsa-mir-1291|MI0006353_5'Flank	NM_017822	NP_060292	Q9H9L4	CL041_HUMAN	hypothetical protein LOC54934	436										ovary(2)	2						TTTGACTAAATGATCTTCAAG	0.453													4	16					0	0	1	0	0		C	49048764	C	C	49048764	3	2	155	1	0	0	0	0	1	0	0	0	1690	1464	51	3	179	3	C12orf41	12	49048764	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3264502	49048764	84803131	953	84780											
ADCY6	112	broad.mit.edu	37	chr12	49169835	49169835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccttccatggagttggcccGagtccgctgcagcttggcca	5	9	12	15	2	0	0	0	0	0	0	2	2	2	1	5	3	2	4	5	3	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:49169835G>A	uc001rsh.3	-	8	2377	c.1717C>T	c.(1717-1719)CGG>TGG	p.R573W	ADCY6_uc001rsj.3_Missense_Mutation_p.R573W|ADCY6_uc001rsi.3_Missense_Mutation_p.R573W|ADCY6_uc010slw.1_5'Flank	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	573	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						GAGTTGGCCCGAGTCCGCTGC	0.652													9	19					0	0	1	0	0		A	49169835	A	A	49169835	3	1	155	1	0	0	0	0	1	0	0	0	298	1057	37	1	1845	1	ADCY6	12	49169835	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	121071	49169835	84682060	954	84781											
DDX23	9416	broad.mit.edu	37	chr12	49230468	49230468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatgctgtagtcctcacGgaagatccgccagtccctgt	7	10	12	12	2	1	2	1	1	0	1	4	3	4	3	4	2	1	2	4	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:49230468G>A	uc001rsm.2	-	10	1211	c.1120C>T	c.(1120-1122)CGT>TGT	p.R374C		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	374						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding	p.R374C(1)		kidney(3)|ovary(1)|lung(1)|skin(1)	6						TAGTCCTCACGGAAGATCCGC	0.522													86	128					0	0	1	0	0		A	49230468	A	A	49230468	3	1	155	1	0	0	0	0	1	0	0	0	4353	1116	39	1	1374	1	DDX23	12	49230468	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	60633	49230468	84621427	955	84782											
MLL2	8085	broad.mit.edu	37	chr12	49425937	49425937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgattccaaccccaggcagaCcctgcccagactggaggaca	11	5	10	15	0	0	3	0	1	0	2	1	5	1	5	5	3	2	1	5	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:49425937C>T	uc001rta.3	-	39	12551	c.12551G>A	c.(12550-12552)GGT>GAT	p.G4184D		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4184	Gln-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CCCAGGCAGACCCTGCCCAGA	0.587			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			7	121					0	0	1	0	0		T	49425937	T	T	49425937	3	4	155	1	0	0	0	0	1	0	0	0	9639	507	18	4	4126	4	MLL2	12	49425937	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	195469	49425937	84425958	956	84783											
MLL2	8085	broad.mit.edu	37	chr12	49435088	49435088	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgaggaagagctcaccaggCgagtcagggccaggcaccga	11	4	15	11	2	2	2	2	1	0	1	2	5	2	3	3	4	1	2	3	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:49435088C>T	uc001rta.3	-	31	6465	c.6465G>A	c.(6463-6465)TCG>TCA	p.S2155S		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2155	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GCTCACCAGGCGAGTCAGGGC	0.682			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			3	2					0	0	1	0	0		T	49435088	T	T	49435088	2	4	155	1	0	0	0	0	0	0	0	1	9639	755	27	1		1	MLL2	12	49435088	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	9151	49435088	84416807	957	84784											
DIP2B	57609	broad.mit.edu	37	chr12	51112539	51112539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaatctggttgctggaaaaCgtatagcacaagctgctgga	12	9	13	7	1	1	0	0	0	1	0	1	3	1	3	0	4	5	6	0	4	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:51112539C>T	uc001rwv.2	+	24	3055	c.2899C>T	c.(2899-2901)CGT>TGT	p.R967C	DIP2B_uc009zlt.2_Missense_Mutation_p.R397C	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	967						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						TGCTGGAAAACGTATAGCACA	0.448													23	43					0	0	1	0	0		T	51112539	T	T	51112539	3	4	155	1	0	0	0	0	1	0	0	0	4534	536	19	1	2993	1	DIP2B	12	51112539	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1677451	51112539	82739356	958	84785											
KRT18	3875	broad.mit.edu	37	chr12	53344642	53344642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcagctggagacagagatCgaggctctcaaggaggagct	11	6	15	9	1	1	2	1	0	1	2	3	7	1	4	0	4	3	4	0	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:53344642C>T	uc001sbe.2	+	4	678	c.609C>T	c.(607-609)ATC>ATT	p.I203I	KRT18_uc009zmn.1_Silent_p.I203I|KRT18_uc001sbf.1_Silent_p.I30I|KRT18_uc001sbg.2_Silent_p.I203I|KRT18_uc009zmo.2_Silent_p.I203I|KRT8_uc009zml.1_5'Flank|KRT8_uc009zmm.1_5'Flank	NM_199187	NP_954657	P05783	K1C18_HUMAN	keratin 18	203	Coil 1B.|Rod.|Necessary for interaction with PNN.				anatomical structure morphogenesis|cell cycle|Golgi to plasma membrane CFTR protein transport|interspecies interaction between organisms|negative regulation of apoptosis	centriolar satellite|keratin filament|perinuclear region of cytoplasm	protein binding|structural molecule activity			skin(1)	1						AGACAGAGATCGAGGCTCTCA	0.572													20	8					0	0	1	0	0		T	53344642	T	T	53344642	2	4	155	1	0	0	0	0	0	0	0	1	8471	874	31	1		1	KRT18	12	53344642	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2232103	53344642	80507253	959	84786											
ESPL1	9700	broad.mit.edu	37	chr12	53679780	53679780	+	Missense_Mutation	SNP	A	G	G	1	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	gaaggggaagcagcaggcccAggtcccctgtcctccacagc	9	4	13	15	0	0	0	0	0	0	0	3	2	3	1	5	4	3	2	5	4	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:53679780A>G	uc001sck.2	+	18	3351	c.3260A>G	c.(3259-3261)CAG>CGG	p.Q1087R	ESPL1_uc001scj.2_Missense_Mutation_p.Q762R|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1087					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CAGCAGGCCCAGGTCCCCTGT	0.597													9	177					0	0	1	0	0		G	53679780	G	G	53679780	3	3	155	1	0	0	0	0	1	0	0	0	5261	188	7	3	3326	3	ESPL1	12	53679780	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	335138	53679780	80172115	960	84787											
ESPL1	9700	broad.mit.edu	37	chr12	53686642	53686642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgatgggcaggctgtcctgCggctgagctgtcgggcagtg	4	10	18	9	2	0	2	0	2	0	0	2	2	1	2	1	4	2	5	1	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:53686642C>T	uc001sck.2	+	30	6140	c.6049C>T	c.(6049-6051)CGG>TGG	p.R2017W	ESPL1_uc001scj.2_Missense_Mutation_p.R1692W|PFDN5_uc001scl.2_5'Flank|PFDN5_uc001scm.2_5'Flank|PFDN5_uc001scn.2_5'Flank|PFDN5_uc001sco.2_5'Flank	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	2017					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						GGCTGTCCTGCGGCTGAGCTG	0.612													36	58					0	0	1	0	0		T	53686642	T	T	53686642	3	4	155	1	0	0	0	0	1	0	0	0	5261	759	27	1	6163	1	ESPL1	12	53686642	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6862	53686642	80165253	961	84788											
OR6C74	254783	broad.mit.edu	37	chr12	55641767	55641767	+	Frame_Shift_Del	DEL	A	-	-																															ataccttcttctcaacagagAaaaaaagcattttctacatg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:55641767delA	uc010spg.1	+	1	696	c.696delA	c.(694-696)AGAfs	p.R232fs		NM_001005490	NP_001005490	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						CTCAACAGAGAAAAAAAGCAT	0.398													80	119	---	---	---	---						.	-	55641767	-	-	55641767	7	5	155	1	0	1	0	1	0	0	0	0	11217	243	9	0	698	0	OR6C74	12	55641767	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1955125	55641767	78210128	962	84789											
ERBB3	2065	broad.mit.edu	37	chr12	56482369	56482369	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgtgtcagggcctgtcCtcctgacaagatggaagtag	9	10	12	10	0	1	2	1	1	0	1	4	3	4	3	4	2	0	1	4	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:56482369C>A	uc001sjh.2	+	8	1110	c.917C>A	c.(916-918)CCT>CAT	p.P306H	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.P247H|ERBB3_uc001sji.2_5'UTR	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	306	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			AGGGCCTGTCCTCCTGACAAG	0.478													149	238					1.49586e-50	1.65865e-50	1	1	0		A	56482369	A	A	56482369	3	1	155	1	0	0	0	0	1	0	0	0	5216	681	24	5	1078	5	ERBB3	12	56482369	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	840602	56482369	77369526	963	84790											
GLS2	27165	broad.mit.edu	37	chr12	56868375	56868375	+	Missense_Mutation	SNP	T	C	C	0	1	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	atacatgccgcaggaatgcaTgaggctgagggtgttgcgca	10	8	15	8	2	0	2	0	2	0	0	0	3	0	3	1	3	4	5	1	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:56868375T>C	uc001slj.2	-	12	1456	c.1177A>G	c.(1177-1179)ATG>GTG	p.M393V	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_Missense_Mutation_p.M128V|GLS2_uc009zot.2_Missense_Mutation_p.M54V	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	393					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAGGAATGCATGAGGCTGAGG	0.567													45	95					0	0	1	0	0		C	56868375	C	C	56868375	3	2	155	1	0	0	0	0	1	0	0	0	6479	1464	51	3	659	3	GLS2	12	56868375	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	386006	56868375	76983520	964	84791											
ATP5B	506	broad.mit.edu	37	chr12	57036610	57036610	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatttgaccatataccagCgctacctgcagtaatcatac	12	12	5	12	1	2	1	2	1	0	0	2	1	2	1	3	0	5	3	3	0	5	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:57036610C>T	uc001slr.2	-	6	903	c.798G>A	c.(796-798)GCG>GCA	p.A266A		NM_001686	NP_001677	P06576	ATPB_HUMAN	mitochondrial ATP synthase beta subunit	266					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			ovary(1)	1						CATATACCAGCGCTACCTGCA	0.478													13	94					0	0	1	0	0		T	57036610	T	T	57036610	2	4	155	1	0	0	0	0	0	0	0	1	1149	755	27	1		1	ATP5B	12	57036610	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	168235	57036610	76815285	965	84792											
TAC3	6866	broad.mit.edu	37	chr12	57406624	57406624	+	Missense_Mutation	SNP	T	C	C	0	1	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	acctggctggacgctcctctTgcccataagtcccacaaaga	10	8	8	15	1	1	1	0	0	1	1	3	2	3	2	4	2	1	2	4	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:57406624T>C	uc001smp.2	-	5	434	c.274A>G	c.(274-276)AAG>GAG	p.K92E	TAC3_uc001smr.2_RNA|TAC3_uc001smq.2_RNA|TAC3_uc001smt.2_RNA|TAC3_uc001sms.2_RNA|TAC3_uc010sqy.1_RNA|TAC3_uc001smu.2_Intron|TAC3_uc001smv.2_Intron|TAC3_uc001smo.2_Intron	NM_013251	NP_037383	Q9UHF0	TKNK_HUMAN	tachykinin 3 precursor	92					female pregnancy|neuropeptide signaling pathway|tachykinin receptor signaling pathway	extracellular space|soluble fraction	receptor binding			ovary(1)|skin(1)	2						ACGCTCCTCTTGCCCATAAGT	0.512													63	96					0	0	1	0	0		C	57406624	C	C	57406624	3	2	155	1	0	0	0	0	1	0	0	0	15524	1821	63	3	99	3	TAC3	12	57406624	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	370014	57406624	76445271	966	84793											
MYO1A	4640	broad.mit.edu	37	chr12	57432281	57432281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccccagcagtcggggggcGtttgagagatgcctgcttag	6	8	17	10	2	0	2	0	1	0	1	1	3	0	2	3	4	3	3	3	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:57432281G>A	uc001smw.3	-	17	1918	c.1675C>T	c.(1675-1677)CGC>TGC	p.R559C	MYO1A_uc010sqz.1_Missense_Mutation_p.R397C|MYO1A_uc009zpd.2_Missense_Mutation_p.R559C	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	559	Myosin head-like.				sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						GTCGGGGGGCGTTTGAGAGAT	0.562													39	60					0	0	1	0	0		A	57432281	A	A	57432281	3	1	155	1	0	0	0	0	1	0	0	0	10086	1145	40	1	1504	1	MYO1A	12	57432281	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	25657	57432281	76419614	967	84794											
GLI1	2735	broad.mit.edu	37	chr12	57861144	57861144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccggaagtcatactcacGcctcgaaaacctgaagacgc	12	6	10	13	4	2	2	2	1	0	1	3	4	2	3	3	1	3	0	3	1	5	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:57861144G>A	uc001snx.2	+	9	1019	c.941G>A	c.(940-942)CGC>CAC	p.R314H	GLI1_uc009zpq.2_Missense_Mutation_p.R186H	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	314	C2H2-type 3.				epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			TCATACTCACGCCTCGAAAAC	0.542													21	24					0	0	1	0	0		A	57861144	A	A	57861144	3	1	155	1	0	0	0	0	1	0	0	0	6452	1087	38	1	971	1	GLI1	12	57861144	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	428863	57861144	75990751	968	84795											
GEFT	115557	broad.mit.edu	37	chr12	58006732	58006732	+	Silent	SNP	C	A	A	0	0	0	1	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	gaatcctattccattgcgggCagtgaggggagtatatcggc	9	10	14	8	2	0	1	0	1	0	0	3	3	2	2	2	4	1	2	2	4	4	5	rs147842061		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:58006732C>A	uc001spb.2	+	2	577	c.117C>A	c.(115-117)GGC>GGA	p.G39G	GEFT_uc009zpy.2_Silent_p.G78G|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Intron|uc001spc.2_RNA|GEFT_uc001spd.2_5'Flank	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	39					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					CCATTGCGGGCAGTGAGGGGA	0.498													101	185					2.9551e-36	3.25509e-36	1	1	0		A	58006732	A	A	58006732	2	1	155	1	0	0	0	0	0	0	0	1	6343	697	25	5		5	GEFT	12	58006732	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	145588	58006732	75845163	969	84796											
GNS	2799	broad.mit.edu	37	chr12	65113930	65113930	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgttagtgatctggtctggGtctgcagtcagattatagac	9	14	12	6	0	4	3	1	1	3	2	4	3	4	3	0	2	1	2	0	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:65113930G>A	uc001ssg.3	-	13	1622	c.1452C>T	c.(1450-1452)GAC>GAT	p.D484D	GNS_uc001ssf.2_Silent_p.D428D|GNS_uc010ssq.1_Silent_p.D516D|GNS_uc010ssr.1_Silent_p.D464D	NM_002076	NP_002067	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase precursor	484						lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		TCTGGTCTGGGTCTGCAGTCA	0.413													193	297					0	0	1	0	0		A	65113930	A	A	65113930	2	1	155	1	0	0	0	0	0	0	0	1	6565	1252	44	4		4	GNS	12	65113930	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7107198	65113930	68737965	970	84797											
MDM1	56890	broad.mit.edu	37	chr12	68709980	68709980	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggtcccgagaaaaatgCgtcccctgaactcgcttcct	10	9	9	13	3	0	3	0	1	0	2	4	4	3	3	4	1	2	1	4	1	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:68709980C>T	uc001stz.2	-	8	1195	c.1059G>A	c.(1057-1059)ACG>ACA	p.T353T	MDM1_uc010stc.1_Silent_p.T318T|MDM1_uc009zqv.1_Silent_p.T73T	NM_017440	NP_059136	Q8TC05	MDM1_HUMAN	mouse Mdm1 nuclear protein homolog isoform 1	353						nucleus				ovary(3)|skin(2)	5			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000174)		GAGAAAAATGCGTCCCCTGAA	0.418													31	61					0	0	1	0	0		T	68709980	T	T	68709980	2	4	155	1	0	0	0	0	0	0	0	1	9430	755	27	1		1	MDM1	12	68709980	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3596050	68709980	65141915	971	84798											
LYZ	4069	broad.mit.edu	37	chr12	69744010	69744010	+	Frame_Shift_Del	DEL	A	-	-																															gctactggtgtaatgatggcAaaaccccaggagcagttaat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:69744010delA	uc001suw.2	+	2	314	c.259delA	c.(259-261)AAAfs	p.K87fs		NM_000239	NP_000230	P61626	LYSC_HUMAN	lysozyme precursor	87					cell wall macromolecule catabolic process|cytolysis|defense response to bacterium|inflammatory response	extracellular space	lysozyme activity|protein binding				0	all_epithelial(5;2.98e-35)|Lung NSC(4;9.93e-33)|all_lung(4;5.66e-31)|Breast(13;2.56e-06)|Esophageal squamous(21;0.187)		Epithelial(6;8.26e-19)|BRCA - Breast invasive adenocarcinoma(5;8.5e-10)|Lung(24;9.68e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00503)|OV - Ovarian serous cystadenocarcinoma(12;0.00691)|LUSC - Lung squamous cell carcinoma(43;0.24)|Kidney(9;0.241)			TAATGATGGCAAAACCCCAGG	0.408													67	149	---	---	---	---						.	-	69744010	-	-	69744010	7	5	155	1	0	1	0	1	0	0	0	0	9148	131	5	0	265	0	LYZ	12	69744010	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1034030	69744010	64107885	972	84799											
KCNC2	3747	broad.mit.edu	37	chr12	75601374	75601374	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcctcgaagagcggcccGcacacgtctgcggggcagtg	6	6	14	15	5	1	1	0	0	1	1	4	2	3	1	3	3	2	2	3	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:75601374G>A	uc001sxg.1	-	2	934	c.390C>T	c.(388-390)TGC>TGT	p.C130C	KCNC2_uc009zry.2_Silent_p.C130C|KCNC2_uc001sxe.2_Silent_p.C130C|KCNC2_uc001sxf.2_Silent_p.C130C|KCNC2_uc010stw.1_Silent_p.C130C	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	130	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						AGAGCGGCCCGCACACGTCTG	0.677													12	19					0	0	1	0	0		A	75601374	A	A	75601374	2	1	155	1	0	0	0	0	0	0	0	1	8031	1079	38	1		1	KCNC2	12	75601374	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5857364	75601374	58250521	973	84800											
CSRP2	1466	broad.mit.edu	37	chr12	77254062	77254062	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaattccaaatagcactttAcctttccagctccaattatc	12	15	2	12	0	0	0	0	0	0	0	4	0	3	0	4	0	3	2	4	0	6	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:77254062A>G	uc001syl.1	-	4	494	c.411_splice	c.e4+1	p.K137_splice		NM_001321	NP_001312	Q16527	CSRP2_HUMAN	cysteine and glycine-rich protein 2						multicellular organismal development	nucleus	zinc ion binding			ovary(1)	1						ATAGCACTTTACCTTTCCAGC	0.418													57	114					0	0	1	0	0		G	77254062	G	G	77254062	5	3	155	1	0	0	0	0	0	0	1	0	3970	405	14	3	180	3	CSRP2	12	77254062	Splice_Site	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1652688	77254062	56597833	974	84801											
NAV3	89795	broad.mit.edu	37	chr12	78553055	78553055	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tgcaaagtctaactatgacaGcggaacaaaaggtatgttca	16	9	9	7	1	2	1	1	1	1	0	2	2	2	2	0	2	4	3	0	2	7	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:78553055G>T	uc001syp.2	+	23	5031	c.4858G>T	c.(4858-4860)GCG>TCG	p.A1620S	NAV3_uc001syo.2_Missense_Mutation_p.A1620S|NAV3_uc010sub.1_Missense_Mutation_p.A1106S|NAV3_uc009zsf.2_Missense_Mutation_p.A451S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1620	Potential.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AACTATGACAGCGGAACAAAA	0.383										HNSCC(70;0.22)			25	52					1.17739e-12	1.24599e-12	1	1	0		T	78553055	T	T	78553055	3	4	155	1	0	0	0	0	1	0	0	0	10203	971	34	5	4948	5	NAV3	12	78553055	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1298993	78553055	55298840	975	84802											
PPFIA2	8499	broad.mit.edu	37	chr12	81839361	81839364	+	Frame_Shift_Del	DEL	CAAA	-	-																															atccaaggccttgtggtgctCaaacaaagatttcagtgcct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:81839361_81839364delCAAA	uc001szo.1	-	6	702_705	c.541_544delTTTG	c.(541-546)TTTGAGfs	p.F181fs	PPFIA2_uc010sue.1_Frame_Shift_Del_p.F81fs|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	107_108										ovary(3)|lung(2)|pancreas(1)	6						TTGTGGTGCTCAAACAAAGATTTC	0.422													62	101	---	---	---	---						.	-	81839364	-	-	81839361	7	5	155	1	0	1	0	1	0	0	0	0	12329	835	29	0	3337	0	PPFIA2	12	81839361	Frame_Shift_Del	DEL	CAAA	TCGA-CG-5726-01A-11D-1600-08	3286306	81839361	52012534	976	84803											
LRRIQ1	84125	broad.mit.edu	37	chr12	85518280	85518280	+	Silent	SNP	T	C	C	0	1	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	ctgaggaatcaccaaaatatTgagcctagtgaaaaaatgta	18	9	8	6	0	1	3	1	3	0	0	1	4	1	4	2	1	1	1	2	1	9	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:85518280T>C	uc001tac.2	+	17	4101	c.3990T>C	c.(3988-3990)ATT>ATC	p.I1330I	LRRIQ1_uc001tab.1_Silent_p.I1330I	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1330										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		ACCAAAATATTGAGCCTAGTG	0.323													124	200					0	0	1	0	0		C	85518280	C	C	85518280	2	2	155	1	0	0	0	0	0	0	0	1	9047	1800	63	3		3	LRRIQ1	12	85518280	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3678919	85518280	48333615	977	84804											
EPYC	1833	broad.mit.edu	37	chr12	91371989	91371989	+	Silent	SNP	T	C	C	0	1	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	gccttctcaggctgtgggggTggagtgaggagctctctgtt	4	12	17	8	0	2	1	1	1	2	0	4	3	2	3	1	5	1	3	1	5	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:91371989T>C	uc001tbk.2	-	3	309	c.216A>G	c.(214-216)CCA>CCG	p.P72P		NM_004950	NP_004941	Q99645	EPYC_HUMAN	dermatan sulfate proteoglycan 3 precursor	72					female pregnancy	proteinaceous extracellular matrix	glycosaminoglycan binding			skin(1)	1						GCTGTGGGGGTGGAGTGAGGA	0.498											OREG0022019	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	236					0	0	1	0	0		C	91371989	C	C	91371989	2	2	155	1	0	0	0	0	0	0	0	1	5209	1683	59	3		3	EPYC	12	91371989	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	5853709	91371989	42479906	978	84805											
GOLGA2B	55592	broad.mit.edu	37	chr12	100551322	100551322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcacccacagcttctccatgGccccctgcagggcctggtgg	5	8	11	17	0	2	0	1	0	1	0	3	0	2	0	5	4	2	2	5	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:100551322G>A	uc001tgs.2	-	4	718	c.274C>T	c.(274-276)CCA>TCA	p.P92S	GOLGA2B_uc001tgt.2_RNA|GOLGA2B_uc001tgu.2_Missense_Mutation_p.P92S|uc001tgx.2_5'Flank	NM_017600	NP_060070			golgi autoantigen, golgin subfamily a, 2-like 1												0						CTTCTCCATGGCCCCCTGCAG	0.617													12	93					0	0	1	0	0		A	100551322	A	A	100551322	3	1	155	1	0	0	0	0	1	0	0	0	6568	1203	42	2	172	2	GOLGA2B	12	100551322	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	9179333	100551322	33300573	979	84806											
C12orf45	121053	broad.mit.edu	37	chr12	105388388	105388388	+	Missense_Mutation	SNP	A	G	G	1	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	gcatcccatctgaagtcaccAtagataacattaagcttccc	13	10	5	13	0	2	2	1	1	1	1	4	2	4	2	3	0	2	2	3	0	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:105388388A>G	uc001tlb.2	+	4	505	c.472A>G	c.(472-474)ATA>GTA	p.I158V		NM_152318	NP_689531	Q8N5I9	CL045_HUMAN	hypothetical protein LOC121053	158											0						TGAAGTCACCATAGATAACAT	0.274													23	35					0	0	1	0	0		G	105388388	G	G	105388388	3	3	155	1	0	0	0	0	1	0	0	0	1694	217	8	3	486	3	C12orf45	12	105388388	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	4837066	105388388	28463507	980	84807											
KIAA1033	23325	broad.mit.edu	37	chr12	105553918	105553918	+	Frame_Shift_Del	DEL	C	-	-																															gaaatttctatataattgttCcccctctggtgagtatttcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:105553918delC	uc001tld.2	+	29	3139	c.3052delC	c.(3052-3054)CCCfs	p.P1018fs	KIAA1033_uc010swr.1_Frame_Shift_Del_p.P1019fs|KIAA1033_uc010sws.1_Frame_Shift_Del_p.P830fs	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	1018					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						TATAATTGTTCCCCCTCTGGT	0.343													114	186	---	---	---	---						.	-	105553918	-	-	105553918	7	5	155	1	0	1	0	1	0	0	0	0	8222	855	30	0	3166	0	KIAA1033	12	105553918	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	165530	105553918	28297977	981	84808											
NUAK1	9891	broad.mit.edu	37	chr12	106460846	106460846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggacagcacgctgtcatCgctgatgacactggaagggc	9	7	14	11	2	1	2	1	2	0	0	2	4	1	4	0	3	1	4	0	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:106460846C>T	uc001tlj.1	-	7	3100	c.1720G>A	c.(1720-1722)GAT>AAT	p.D574N		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	574							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						ACGCTGTCATCGCTGATGACA	0.607													23	17					0	0	1	0	0		T	106460846	T	T	106460846	3	4	155	1	0	0	0	0	1	0	0	0	10731	884	31	1	269	1	NUAK1	12	106460846	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	906928	106460846	27391049	982	84809											
ASCL4	121549	broad.mit.edu	37	chr12	108169061	108169061	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgcgcaccgcgcccctgggCgttccggggaccctgcccgg	2	5	15	19	6	0	0	0	0	0	0	1	1	1	1	6	4	2	2	6	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:108169061C>T	uc001tmr.2	+	1	900	c.69C>T	c.(67-69)GGC>GGT	p.G23G		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	22					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						CGCCCCTGGGCGTTCCGGGGA	0.697													18	88					0	0	1	0	0		T	108169061	T	T	108169061	2	4	155	1	0	0	0	0	0	0	0	1	1037	755	27	1		1	ASCL4	12	108169061	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1708215	108169061	25682834	983	84810											
ASCL4	121549	broad.mit.edu	37	chr12	108169097	108169097	+	Frame_Shift_Del	DEL	C	-	-																															cccggactcccgcggagggaCcccctcagggtcgccctgcg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:108169097delC	uc001tmr.2	+	1	936	c.105delC	c.(103-105)GACfs	p.D35fs		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	34					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						CGCGGAGGGACCCCCTCAGGG	0.741													31	46	---	---	---	---						.	-	108169097	-	-	108169097	7	5	155	1	0	1	0	1	0	0	0	0	1037	506	18	0	107	0	ASCL4	12	108169097	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	36	108169097	25682798	984	84811											
ACAD10	80724	broad.mit.edu	37	chr12	112167624	112167624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgcaggggactatattccaCgccaggtacgaacctgggtt	9	8	12	12	3	0	0	0	0	0	0	1	2	1	1	4	4	2	3	4	4	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:112167624C>T	uc001tsq.2	+	10	1458	c.1258C>T	c.(1258-1260)CGC>TGC	p.R420C	ACAD10_uc001tsp.2_Missense_Mutation_p.R420C|ACAD10_uc009zvx.2_Missense_Mutation_p.R451C|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	420							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						CTATATTCCACGCCAGGTACG	0.473													35	46					0	0	1	0	0		T	112167624	T	T	112167624	3	4	155	1	0	0	0	0	1	0	0	0	108	536	19	1	1389	1	ACAD10	12	112167624	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3998527	112167624	21684271	985	84812											
RPL6	6128	broad.mit.edu	37	chr12	112846235	112846235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcccttaccttggatttagCggctgagtacttcctcttgt	5	17	8	11	1	1	1	0	1	1	0	3	2	3	2	3	2	3	2	3	2	3	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:112846235C>T	uc001ttu.2	-	2	455	c.226G>A	c.(226-228)GCT>ACT	p.A76T	RPL6_uc001ttv.2_Missense_Mutation_p.A76T|RPL6_uc009zwd.1_Missense_Mutation_p.A76T	NM_001024662	NP_001019833	Q02878	RL6_HUMAN	ribosomal protein L6	76					endocrine pancreas development|regulation of transcription, DNA-dependent|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	DNA binding|RNA binding|structural constituent of ribosome			large_intestine(1)	1						TTGGATTTAGCGGCTGAGTAC	0.463													80	161					0	0	1	0	0		T	112846235	T	T	112846235	3	4	155	1	0	0	0	0	1	0	0	0	13623	768	27	1	664	1	RPL6	12	112846235	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	678611	112846235	21005660	986	84813											
OAS3	4940	broad.mit.edu	37	chr12	113386827	113386827	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccactggggcagccagcatCgtcccctctgtgccgggaat	6	7	12	16	2	1	0	0	0	1	0	3	1	2	1	5	3	3	2	5	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:113386827C>T	uc001tug.2	+	6	1278	c.1191C>T	c.(1189-1191)ATC>ATT	p.I397I		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	397	Linker.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						CAGCCAGCATCGTCCCCTCTG	0.622													18	28					0	0	1	0	0		T	113386827	T	T	113386827	2	4	155	1	0	0	0	0	0	0	0	1	10820	874	31	1		1	OAS3	12	113386827	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	540592	113386827	20465068	987	84814											
TPCN1	53373	broad.mit.edu	37	chr12	113698206	113698206	+	Frame_Shift_Del	DEL	C	-	-																															tgccatccacgactcccaggCccccagtctcagctctgggg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:113698206delC	uc001tuw.2	+	3	443	c.146delC	c.(145-147)GCCfs	p.A49fs	TPCN1_uc001tux.2_Frame_Shift_Del_p.A121fs|TPCN1_uc010syt.1_5'UTR	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	49	Cytoplasmic (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						GACTCCCAGGCCCCCAGTCTC	0.562													36	65	---	---	---	---						.	-	113698206	-	-	113698206	7	5	155	1	0	1	0	1	0	0	0	0	16421	739	26	0	372	0	TPCN1	12	113698206	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	311379	113698206	20153689	988	84815											
MED13L	23389	broad.mit.edu	37	chr12	116446528	116446528	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctctgtttcctgacctcGtggctgagggctgagtgttg	4	14	13	10	1	1	3	0	3	1	0	4	3	2	3	2	2	0	4	2	2	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:116446528G>A	uc001tvw.2	-	10	1745	c.1690C>T	c.(1690-1692)CGA>TGA	p.R564*		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	564					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		TCCTGACCTCGTGGCTGAGGG	0.498													27	45					0	0	1	0	0		A	116446528	A	A	116446528	4	1	155	1	0	0	0	0	0	1	0	0	9449	1153	40	1	5030	1	MED13L	12	116446528	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2748322	116446528	17405367	989	84816											
ANAPC5	51433	broad.mit.edu	37	chr12	121756174	121756174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggagcatgggcagcGcgatggtaggggaggaagat	10	5	19	7	2	0	1	0	0	0	1	0	5	0	4	1	6	3	4	1	6	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:121756174G>A	uc001uag.2	-	15	1921	c.1799C>T	c.(1798-1800)GCG>GTG	p.A600V	ANAPC5_uc010szu.1_Missense_Mutation_p.A266V|ANAPC5_uc001uae.2_Missense_Mutation_p.A164V|ANAPC5_uc010szv.1_Missense_Mutation_p.A202V|ANAPC5_uc001uaf.2_RNA|ANAPC5_uc001uah.2_Missense_Mutation_p.A488V|ANAPC5_uc001uai.1_Intron	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	600	TPR 3.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CATGGGCAGCGCGATGGTAGG	0.552													50	60					0	0	1	0	0		A	121756174	A	A	121756174	3	1	155	1	0	0	0	0	1	0	0	0	605	1087	38	1	480	1	ANAPC5	12	121756174	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5309646	121756174	12095721	990	84817											
ORAI1	84876	broad.mit.edu	37	chr12	122078974	122078974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggaggtgcagctggacGctgaccacgactacccaccg	8	6	14	13	3	0	1	0	1	0	0	0	4	0	3	3	4	3	3	3	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:122078974G>A	uc010szz.1	+	3	524	c.331G>A	c.(331-333)GCT>ACT	p.A111T		NM_032790	NP_116179	Q96D31	CRCM1_HUMAN	calcium release-activated calcium channel	111	Extracellular (Potential).				platelet activation|positive regulation of calcium ion transport	integral to plasma membrane	protein binding|store-operated calcium channel activity				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000415)|Epithelial(86;0.00148)		GCAGCTGGACGCTGACCACGA	0.577													15	18					0	0	1	0	0		A	122078974	A	A	122078974	3	1	155	1	0	0	0	0	1	0	0	0	11276	1087	38	1	343	1	ORAI1	12	122078974	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	322800	122078974	11772921	991	84818											
CCDC62	84660	broad.mit.edu	37	chr12	123307941	123307941	+	Frame_Shift_Del	DEL	A	-	-																															ggtcccagaagagtcagctcAaaaaaatacctttgtcagtt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:123307941delA	uc001udc.2	+	12	2175	c.2030delA	c.(2029-2031)CAAfs	p.Q677fs	CCDC62_uc010tah.1_Intron|CCDC62_uc001udf.2_Intron|CCDC62_uc001ude.2_Frame_Shift_Del_p.Q438fs	NM_201435	NP_958843	Q6P9F0	CCD62_HUMAN	coiled-coil domain containing 62 isoform b	677						cytoplasm|nucleus				ovary(2)|large_intestine(1)|pancreas(1)|skin(1)	5	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.51e-06)|Epithelial(86;2.65e-05)|BRCA - Breast invasive adenocarcinoma(302;0.206)		GAGTCAGCTCAAAAAAATACC	0.353													120	224	---	---	---	---						.	-	123307941	-	-	123307941	7	5	155	1	0	1	0	1	0	0	0	0	2836	130	5	0	2076	0	CCDC62	12	123307941	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1228967	123307941	10543954	992	84819											
ABCB9	23457	broad.mit.edu	37	chr12	123419951	123419951	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgatggagcgggcgaacaGcacgggctcctggctcacca	8	5	15	13	4	1	1	1	1	0	0	2	3	2	2	2	4	3	3	2	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:123419951G>A	uc001udm.3	-	10	2081	c.1771C>T	c.(1771-1773)CTG>TTG	p.L591L	ABCB9_uc010tai.1_Silent_p.L198L|ABCB9_uc009zxr.2_Intron|ABCB9_uc001udo.3_Silent_p.L548L|ABCB9_uc010taj.1_Silent_p.L528L|ABCB9_uc001udp.2_Silent_p.L591L|ABCB9_uc001udq.2_Silent_p.L310L	NM_019625	NP_062571	Q9NP78	ABCB9_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	591	ABC transporter.				positive regulation of T cell mediated cytotoxicity|protein transport	lysosomal membrane|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding				0	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)		CGGGCGAACAGCACGGGCTCC	0.622													13	100					0	0	1	0	0		A	123419951	A	A	123419951	2	1	155	1	0	0	0	0	0	0	0	1	48	962	34	2		2	ABCB9	12	123419951	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	112010	123419951	10431944	993	84820											
DNAH10	196385	broad.mit.edu	37	chr12	124359903	124359903	+	Silent	SNP	A	G	G	1	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	gaccttggctttattgctgcAatgggaaaggctggaggagg	9	10	16	6	0	0	0	0	0	0	0	0	4	0	3	1	6	2	4	1	6	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:124359903A>G	uc001uft.3	+	46	7735	c.7710A>G	c.(7708-7710)GCA>GCG	p.A2570A		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2570	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TTATTGCTGCAATGGGAAAGG	0.463													26	38					0	0	1	0	0		G	124359903	G	G	124359903	2	3	155	1	0	0	0	0	0	0	0	1	4604	117	5	3		3	DNAH10	12	124359903	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	939952	124359903	9491992	994	84821											
NCOR2	9612	broad.mit.edu	37	chr12	124915272	124915272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgggggttgttctcgatgCgctccaccttcttctcccag	3	12	11	15	3	3	0	0	0	3	0	6	1	4	0	4	2	1	3	4	2	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:124915272C>T	uc010tba.1	-	9	1061	c.944G>A	c.(943-945)CGC>CAC	p.R315H	NCOR2_uc010tay.1_Missense_Mutation_p.R315H|NCOR2_uc010taz.1_Missense_Mutation_p.R315H|NCOR2_uc010tbb.1_Missense_Mutation_p.R315H|NCOR2_uc010tbc.1_Missense_Mutation_p.R315H|NCOR2_uc001ugj.1_Missense_Mutation_p.R315H|NCOR2_uc001ugk.1_Missense_Mutation_p.R315H	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	315					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GTTCTCGATGCGCTCCACCTT	0.637													67	88					0	0	1	0	0		T	124915272	T	T	124915272	3	4	155	1	0	0	0	0	1	0	0	0	10255	768	27	1	6780	1	NCOR2	12	124915272	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	555369	124915272	8936623	995	84822											
ULK1	8408	broad.mit.edu	37	chr12	132393481	132393481	+	Missense_Mutation	SNP	A	G	G	1	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	ggtacctccagagcaacatgAtggcggccacactctgcggc	9	6	12	14	2	1	2	0	1	1	1	2	2	2	2	3	4	4	2	3	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:132393481A>G	uc001uje.2	+	7	797	c.529A>G	c.(529-531)ATG>GTG	p.M177V		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	177	Protein kinase.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		GAGCAACATGATGGCGGCCAC	0.512													4	40					0	0	1	0	0		G	132393481	G	G	132393481	3	3	155	1	0	0	0	0	1	0	0	0	17001	333	12	3	555	3	ULK1	12	132393481	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	7478209	132393481	1458414	996	84823											
ULK1	8408	broad.mit.edu	37	chr12	132394489	132394489	+	Silent	SNP	C	T	T	0	0	0	1	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	cccgggagacctcggccccgCtgcggcagctgctcctggcc	3	5	14	19	4	0	1	0	0	0	1	2	2	1	1	6	4	3	4	6	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:132394489C>T	uc001uje.2	+	10	1019	c.751C>T	c.(751-753)CTG>TTG	p.L251L		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	251	Protein kinase.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		CTCGGCCCCGCTGCGGCAGCT	0.716													5	7					0	0	1	0	0		T	132394489	T	T	132394489	2	4	155	1	0	0	0	0	0	0	0	1	17001	796	28	2		2	ULK1	12	132394489	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1008	132394489	1457406	997	84824											
GALNT9	50614	broad.mit.edu	37	chr12	132688118	132688118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccacacctcggcggcgcGcagggcgttgcgcttggcat	5	7	14	15	6	0	0	0	0	0	0	2	0	1	0	2	4	1	4	2	4	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:132688118G>A	uc001ukc.3	-	7	1311	c.1195C>T	c.(1195-1197)CGC>TGC	p.R399C	GALNT9_uc009zyr.2_Missense_Mutation_p.R173C|GALNT9_uc001ukb.2_Missense_Mutation_p.R256C|GALNT9_uc001uka.2_Missense_Mutation_p.R33C	NM_001122636	NP_001116108	Q9HCQ5	GALT9_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	399	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.49e-08)|Epithelial(86;3.55e-07)|all cancers(50;2.09e-05)		TCGGCGGCGCGCAGGGCGTTG	0.642													26	59					0	0	1	0	0		A	132688118	A	A	132688118	3	1	155	1	0	0	0	0	1	0	0	0	6235	1087	38	1	636	1	GALNT9	12	132688118	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	293629	132688118	1163777	998	84825											
POLE	5426	broad.mit.edu	37	chr12	133210876	133210876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccacgttggattcctccGcctcttcctcctcctcccca	3	12	4	22	2	1	0	0	0	1	0	8	1	8	1	10	1	0	1	10	1	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr12:133210876G>A	uc001uks.1	-	43	5944	c.5900C>T	c.(5899-5901)GCG>GTG	p.A1967V	POLE_uc001ukq.1_Missense_Mutation_p.A177V|POLE_uc001ukr.1_Missense_Mutation_p.A771V|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1967					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GGATtcctccgcctcttcctc	0.313								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					61	68					0	0	1	0	0		A	133210876	A	A	133210876	3	1	155	1	0	0	0	0	1	0	0	0	12215	1087	38	1	988	1	POLE	12	133210876	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	522758	133210876	641019	999	84826											
ZMYM5	9205	broad.mit.edu	37	chr13	20398930	20398930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaccatttggaagaatcCgtgtataataagtttctgaa	13	15	7	6	1	2	2	1	1	1	1	3	3	3	3	2	1	0	2	2	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:20398930C>T	uc010tcn.1	-	8	1962	c.1697G>A	c.(1696-1698)CGG>CAG	p.R566Q	ZMYM5_uc001umm.1_Missense_Mutation_p.R390Q	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	566						nucleus	zinc ion binding				0		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)		tggaagaatccgtgtataata	0													9	21					0	0	1	0	0		T	20398930	T	T	20398930	3	4	155	1	0	0	0	0	1	0	0	0	17728	652	23	1	316	1	ZMYM5	13	20398930	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08		20398930	94770948	1000	84827											
ZMYM5	9205	broad.mit.edu	37	chr13	20411871	20411871	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agattccagttgttttcacaGggagacaaacaagatgtact	14	11	9	7	0	1	3	1	0	0	3	2	4	2	3	1	1	2	3	1	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:20411871G>T	uc010tcn.1	-	6	1228	c.963C>A	c.(961-963)CCC>CCA	p.P321P	ZMYM5_uc001umm.1_Silent_p.P145P|ZMYM5_uc001umn.2_Silent_p.P321P|ZMYM5_uc001umo.2_3'UTR	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	321	MYM-type 2.					nucleus	zinc ion binding				0		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)		TGTTTTCACAGGGAGACAAAC	0.328													51	59					5.7616e-29	6.30907e-29	1	1	0		T	20411871	T	T	20411871	2	4	155	1	0	0	0	0	0	0	0	1	17728	987	35	5		5	ZMYM5	13	20411871	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	12941	20411871	94758007	1001	84828											
SACS	26278	broad.mit.edu	37	chr13	23910322	23910322	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatgctgtctaggatcaaAcacaaaacagatttctgtcg	13	11	9	8	1	3	1	1	0	2	1	4	3	3	3	0	2	3	1	0	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:23910322A>G	uc001uon.2	-	10	8282	c.7693T>C	c.(7693-7695)TTT>CTT	p.F2565L	SACS_uc001uoo.2_Missense_Mutation_p.F2418L|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2565					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CTAGGATCAAACACAAAACAG	0.398													8	233					0	0	1	0	0		G	23910322	G	G	23910322	3	3	155	1	0	0	0	0	1	0	0	0	13829	43	2	3	6050	3	SACS	13	23910322	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3498451	23910322	91259556	1002	84829											
SACS	26278	broad.mit.edu	37	chr13	23911920	23911920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcaaatcctaattttaccGaagaaggaagttcaacagca	16	10	6	9	1	2	1	2	0	0	1	3	3	3	2	2	1	3	2	2	1	7	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:23911920G>A	uc001uon.2	-	10	6684	c.6095C>T	c.(6094-6096)TCG>TTG	p.S2032L	SACS_uc001uoo.2_Missense_Mutation_p.S1885L|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2032			Missing (in SACS).		cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TAATTTTACCGAAGAAGGAAG	0.348													40	73					0	0	1	0	0		A	23911920	A	A	23911920	3	1	155	1	0	0	0	0	1	0	0	0	13829	1059	37	1	7648	1	SACS	13	23911920	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1598	23911920	91257958	1003	84830											
SACS	26278	broad.mit.edu	37	chr13	23913665	23913665	+	Silent	SNP	T	A	A	0	1	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	ctttgtcctgactgctcaaaTcccatgttttcaggatttat	8	17	6	10	0	2	1	2	1	0	0	4	2	4	2	2	1	1	2	2	1	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:23913665T>A	uc001uon.2	-	10	4939	c.4350A>T	c.(4348-4350)GGA>GGT	p.G1450G	SACS_uc001uoo.2_Silent_p.G1303G|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1450					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		ACTGCTCAAATCCCATGTTTT	0.363													8	282					0	0	1	0	0		A	23913665	A	A	23913665	2	1	155	1	0	0	0	0	0	0	0	1	13829	1422	50	5		5	SACS	13	23913665	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1745	23913665	91256213	1004	84831											
SACS	26278	broad.mit.edu	37	chr13	23928948	23928948	+	Silent	SNP	A	G	G	1	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	acattccctggtaccttggcAatctgcttccctgagctctg	6	13	8	14	0	2	1	0	1	2	0	4	1	4	1	3	2	3	4	3	2	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:23928948A>G	uc001uon.2	-	8	2392	c.1803T>C	c.(1801-1803)ATT>ATC	p.I601I	SACS_uc001uoo.2_Silent_p.I454I|SACS_uc001uop.1_Silent_p.I388I|SACS_uc001uoq.1_Silent_p.I454I	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	601					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GTACCTTGGCAATCTGCTTCC	0.532													49	70					0	0	1	0	0		G	23928948	G	G	23928948	2	3	155	1	0	0	0	0	0	0	0	1	13829	126	5	3		3	SACS	13	23928948	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	15283	23928948	91240930	1005	84832											
SACS	26278	broad.mit.edu	37	chr13	23942624	23942624	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcgttgtctgaccaaatcGacctaaaatacggagcacat	13	9	9	10	3	1	1	0	1	1	0	2	3	1	2	2	2	2	2	2	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:23942624G>A	uc001uon.2	-	5	851	c.262C>T	c.(262-264)CGA>TGA	p.R88*	SACS_uc001uoo.2_5'UTR|SACS_uc001uoq.1_5'UTR	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	88					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TGACCAAATCGACCTAAAATA	0.393													17	22					0	0	1	0	0		A	23942624	A	A	23942624	4	1	155	1	0	0	0	0	0	1	0	0	13829	1066	37	1	13501	1	SACS	13	23942624	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	13676	23942624	91227254	1006	84833											
MTMR6	9107	broad.mit.edu	37	chr13	25832819	25832819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccagctgctctgttggcCattgcattcagctaaaatta	9	15	7	10	0	2	0	1	0	1	0	3	0	3	0	2	1	4	5	2	1	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:25832819C>T	uc001uqf.3	-	7	1057	c.738G>A	c.(736-738)ATG>ATA	p.M246I	MTMR6_uc001uqe.1_Missense_Mutation_p.M246I	NM_004685	NP_004676	Q9Y217	MTMR6_HUMAN	myotubularin related protein 6	246	Myotubularin phosphatase.					cytoplasm|nuclear envelope	calcium-activated potassium channel activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			ovary(2)|skin(2)	4		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)		CTCTGTTGGCCATTGCATTCA	0.279													40	58					0	0	1	0	0		T	25832819	T	T	25832819	3	4	155	1	0	0	0	0	1	0	0	0	9965	594	21	4	1159	4	MTMR6	13	25832819	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1890195	25832819	89337059	1007	84834											
PAN3	255967	broad.mit.edu	37	chr13	28834653	28834653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatgcaaccgaaagcaaacGcaccttccttcttcatggct	12	10	6	13	2	2	0	1	0	1	0	3	1	3	0	3	1	4	4	3	1	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:28834653G>A	uc001urz.2	+	7	888	c.880G>A	c.(880-882)GCA>ACA	p.A294T	PAN3_uc010tdo.1_Missense_Mutation_p.A440T|PAN3_uc001ury.2_Missense_Mutation_p.A128T|PAN3_uc001urx.2_Missense_Mutation_p.A240T	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	440	Interaction with polyadenylate-binding protein.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GAAAGCAAACGCACCTTCCTT	0.418													100	156					0	0	1	0	0		A	28834653	A	A	28834653	3	1	155	1	0	0	0	0	1	0	0	0	11434	1087	38	1	1348	1	PAN3	13	28834653	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3001834	28834653	86335225	1008	84835											
DGKH	160851	broad.mit.edu	37	chr13	42772702	42772702	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgatccttttggtgccacGccgtttattgacccggatct	6	15	9	11	3	1	2	0	2	1	0	2	3	2	3	4	2	1	1	4	2	1	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:42772702G>A	uc001uyl.1	+	18	2277	c.2256G>A	c.(2254-2256)ACG>ACA	p.T752T	DGKH_uc010tfh.1_Silent_p.T752T|DGKH_uc001uym.1_Silent_p.T752T|DGKH_uc010tfi.1_Silent_p.T507T|DGKH_uc010tfj.1_Silent_p.T607T|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Silent_p.T607T|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	752					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		TTGGTGCCACGCCGTTTATTG	0.373													32	171					0	0	1	0	0		A	42772702	A	A	42772702	2	1	155	1	0	0	0	0	0	0	0	1	4476	1074	38	1		1	DGKH	13	42772702	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	13938049	42772702	72397176	1009	84836											
ENOX1	55068	broad.mit.edu	37	chr13	43900635	43900635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctttttgtctggtagaagCgttgaaaacggccacaatct	11	12	10	8	2	2	2	0	1	2	1	2	2	2	2	1	2	3	3	1	2	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:43900635C>T	uc001uza.3	-	10	1363	c.1063G>A	c.(1063-1065)GCT>ACT	p.A355T	ENOX1_uc001uzb.3_Missense_Mutation_p.A355T|ENOX1_uc001uzc.3_Missense_Mutation_p.A355T|ENOX1_uc001uyz.3_Intron|ENOX1_uc010tfm.1_Missense_Mutation_p.A168T	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	355					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		CTGGTAGAAGCGTTGAAAACG	0.408													9	172					0	0	1	0	0		T	43900635	T	T	43900635	3	4	155	1	0	0	0	0	1	0	0	0	5134	768	27	1	900	1	ENOX1	13	43900635	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1127933	43900635	71269243	1010	84837											
SLC25A30	253512	broad.mit.edu	37	chr13	45976499	45976499	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggtgttgctttgcgcttgcaTccgaatctagagattatttt	7	17	10	7	2	1	1	0	0	1	1	2	3	2	1	1	1	3	4	1	1	3	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:45976499T>A	uc001vag.2	-	6	537	c.400A>T	c.(400-402)ATG>TTG	p.M134L	SLC25A30_uc010tfs.1_Missense_Mutation_p.M59L|SLC25A30_uc001vah.2_Missense_Mutation_p.M59L|SLC25A30_uc010tft.1_Missense_Mutation_p.M83L|SLC25A30_uc001vaf.2_5'UTR	NM_001010875	NP_001010875	Q5SVS4	KMCP1_HUMAN	solute carrier family 25, member 30	134	Solcar 2.				mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding			breast(1)	1		Lung NSC(96;0.00227)|Prostate(109;0.00578)|Breast(56;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.95e-05)		TGCGCTTGCATCCGAATCTAG	0.443													58	115					0	0	1	0	0		A	45976499	A	A	45976499	3	1	155	1	0	0	0	0	1	0	0	0	14519	1435	50	5	495	5	SLC25A30	13	45976499	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2075864	45976499	69193379	1011	84838											
LCP1	3936	broad.mit.edu	37	chr13	46721114	46721114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtatctgttaaagaggttgGcaataaaagccaagttcaac	15	10	10	6	0	2	1	1	0	1	1	2	1	2	1	1	3	2	5	1	3	8	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:46721114G>A	uc001vaz.3	-	10	1229	c.1103C>T	c.(1102-1104)GCC>GTC	p.A368V	LCP1_uc001vay.3_5'Flank|LCP1_uc001vba.3_Missense_Mutation_p.A368V	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	368	CH 2.|Actin-binding 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		AAAGAGGTTGGCAATAAAAGC	0.527			T	BCL6	NHL 								7	175					0	0	1	0	0		A	46721114	A	A	46721114	3	1	155	1	0	0	0	0	1	0	0	0	8707	1203	42	2	808	2	LCP1	13	46721114	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	744615	46721114	68448764	1012	84839											
C13orf18	80183	broad.mit.edu	37	chr13	46946248	46946248	+	Silent	SNP	A	G	G	1	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	gagaagctgctactcttttcActcgagccatggggagaagc	10	9	12	10	1	2	2	1	0	1	2	3	5	2	2	1	2	5	2	1	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:46946248A>G	uc010acl.2	-	3	968	c.363T>C	c.(361-363)AGT>AGC	p.S121S	C13orf18_uc001vbf.3_Silent_p.S54S|C13orf18_uc001vbg.3_5'UTR|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_5'UTR|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Silent_p.S121S|C13orf18_uc001vbh.3_Silent_p.S121S|C13orf18_uc001vbi.3_Intron|C13orf18_uc010aco.1_Silent_p.S121S|C13orf18_uc010tga.1_Silent_p.S54S	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	121	Ser-rich.										0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		TACTCTTTTCACTCGAGCCAT	0.577													20	20					0	0	1	0	0		G	46946248	G	G	46946248	2	3	155	1	0	0	0	0	0	0	0	1	1723	156	6	3		3	C13orf18	13	46946248	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	225134	46946248	68223630	1013	84840											
CAB39L	81617	broad.mit.edu	37	chr13	49918315	49918315	+	Silent	SNP	A	G	G	1	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	taaaaatgatttctacttacAgtgtcgtaattttgttctaa	13	18	5	5	1	2	1	0	1	2	0	3	1	2	1	0	0	2	2	0	0	7	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:49918315A>G	uc001vcw.2	-	6	1122	c.624T>C	c.(622-624)ACT>ACC	p.T208T	CAB39L_uc001vcx.2_Silent_p.T208T|CAB39L_uc010adf.2_Silent_p.T205T	NM_030925	NP_112187	Q9H9S4	CB39L_HUMAN	calcium binding protein 39-like	208					cell cycle arrest|insulin receptor signaling pathway|regulation of fatty acid oxidation	cytosol	protein binding				0		Lung NSC(96;2.11e-05)|Breast(56;0.00017)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;3.66e-09)|COAD - Colon adenocarcinoma(199;0.226)		TTCTACTTACAGTGTCGTAAT	0.353													5	99					0	0	1	0	0		G	49918315	G	G	49918315	2	3	155	1	0	0	0	0	0	0	0	1	2529	202	7	3		3	CAB39L	13	49918315	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2972067	49918315	65251563	1014	84841											
PHF11	51131	broad.mit.edu	37	chr13	50097359	50097359	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcataagacaagtgaaagaaGagcatggcagacacacaggt	18	5	11	7	0	1	5	1	1	0	4	1	5	1	5	0	2	1	2	0	2	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:50097359G>T	uc001vdb.2	+	7	956	c.619G>T	c.(619-621)GAG>TAG	p.E207*	PHF11_uc001vdc.2_Nonsense_Mutation_p.E168*|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	207					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		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)		AGTGAAAGAAGAGCATGGCAG	0.348													7	95					0.000157383	0.000160261	1	1	0		T	50097359	T	T	50097359	4	4	155	1	0	0	0	0	0	1	0	0	11841	943	33	5	645	5	PHF11	13	50097359	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	179044	50097359	65072519	1015	84842											
SUGT1	10910	broad.mit.edu	37	chr13	53254127	53254129	+	In_Frame_Del	DEL	CAT	-	-																															agatgtaaagaacctatatcCatcatcatctccttatacaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:53254127_53254129delCAT	uc001vhc.2	+	13	1058_1060	c.833_835delCAT	c.(832-837)CCATCA>CCA	p.S281del	SUGT1_uc001vha.2_RNA|SUGT1_uc001vhb.2_In_Frame_Del_p.S249del|SUGT1_uc010thb.1_In_Frame_Del_p.S193del|SUGT1_uc001vhd.2_In_Frame_Del_p.S138del	NM_001130912	NP_001124384	Q9Y2Z0	SUGT1_HUMAN	suppressor of G2 allele of SKP1 isoform a	281	SGS.				mitosis	kinetochore|ubiquitin ligase complex	binding				0		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.25e-08)		AACCTATATCCATCATCATCTCC	0.315													53	106	---	---	---	---						.	-	53254129	-	-	53254127	7	5	155	1	0	1	0	1	0	0	0	0	15394	594	21	0	883	0	SUGT1	13	53254127	In_Frame_Del	DEL	CAT	TCGA-CG-5726-01A-11D-1600-08	3156768	53254127	61915751	1016	84843											
PCDH17	27253	broad.mit.edu	37	chr13	58207120	58207120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catctcggagaacgctgctcCgggcacccgcttccccctca	6	7	9	19	4	2	1	1	0	1	1	5	2	4	1	4	2	2	4	4	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:58207120C>T	uc001vhq.1	+	1	1332	c.440C>T	c.(439-441)CCG>CTG	p.P147L	PCDH17_uc010aec.1_Missense_Mutation_p.P147L	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	147	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		AACGCTGCTCCGGGCACCCGC	0.617													7	18					0	0	1	0	0		T	58207120	T	T	58207120	3	4	155	1	0	0	0	0	1	0	0	0	11531	652	23	1	442	1	PCDH17	13	58207120	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4952993	58207120	56962758	1017	84844											
MYCBP2	23077	broad.mit.edu	37	chr13	77632491	77632491	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttcgtttttaacacccccGcatggatggccacaaggatg	9	11	9	12	2	1	0	0	0	1	0	2	2	1	2	3	3	1	2	3	3	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:77632491G>A	uc001vkf.2	-	79	13168	c.13077C>T	c.(13075-13077)TGC>TGT	p.C4359C	MYCBP2_uc010aev.2_Silent_p.C3763C|MYCBP2_uc001vke.2_Silent_p.C976C	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	4359					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TAACACCCCCGCATGGATGGC	0.448													66	80					0	0	1	0	0		A	77632491	A	A	77632491	2	1	155	1	0	0	0	0	0	0	0	1	10036	1079	38	1		1	MYCBP2	13	77632491	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	19425371	77632491	37537387	1018	84845											
MYCBP2	23077	broad.mit.edu	37	chr13	77725048	77725048	+	Frame_Shift_Del	DEL	T	-	-																															ttgatcttgttgtaaagacaTttttttctgagaaacaggga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:77725048delT	uc001vkf.2	-	48	6929	c.6838delA	c.(6838-6840)ATGfs	p.M2280fs	MYCBP2_uc010aev.2_Frame_Shift_Del_p.M1684fs	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TGTAAAGACATTTTTTTCTGA	0.368													76	154	---	---	---	---						.	-	77725048	-	-	77725048	7	5	155	1	0	1	0	1	0	0	0	0	10036	1493	52	0	7232	0	MYCBP2	13	77725048	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	92557	77725048	37444830	1019	84846											
MYCBP2	23077	broad.mit.edu	37	chr13	77862444	77862444	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgtacattacagtaaataTtgaaagcagaaggattgcta	16	10	10	5	1	0	2	0	1	0	1	0	3	0	3	0	2	4	4	0	2	8	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:77862444T>C	uc001vkf.2	-	4	423	c.332A>G	c.(331-333)AAT>AGT	p.N111S	MYCBP2_uc010aev.2_5'UTR	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	111					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ACAGTAAATATTGAAAGCAGA	0.363													5	210					0	0	1	0	0		C	77862444	C	C	77862444	3	2	155	1	0	0	0	0	1	0	0	0	10036	1493	52	3	13914	3	MYCBP2	13	77862444	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	137396	77862444	37307434	1020	84847											
SLITRK1	114798	broad.mit.edu	37	chr13	84453682	84453682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcggacgcggaggagttgGcatctcgtctcttggaccgc	5	10	14	12	5	3	0	0	0	3	0	6	4	3	4	1	5	0	2	1	5	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:84453682G>A	uc001vlk.2	-	1	2847	c.1961C>T	c.(1960-1962)GCC>GTC	p.A654V		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	654	Cytoplasmic (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GGAGGAGTTGGCATCTCGTCT	0.562													27	44					0	0	1	0	0		A	84453682	A	A	84453682	3	1	155	1	0	0	0	0	1	0	0	0	14767	1203	42	2	133	2	SLITRK1	13	84453682	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6591238	84453682	30716196	1021	84848											
SLITRK1	114798	broad.mit.edu	37	chr13	84454544	84454544	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgggcttcaaatcagccaAgctgctcacgttcctgttgt	7	13	9	12	1	3	0	3	0	0	0	4	0	4	0	2	1	3	5	2	1	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:84454544A>C	uc001vlk.2	-	1	1985	c.1099T>G	c.(1099-1101)TTG>GTG	p.L367V		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	367	Extracellular (Potential).|LRRNT 2.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		AAATCAGCCAAGCTGCTCACG	0.502													11	157					0	0	1	0	0		C	84454544	C	C	84454544	3	2	155	1	0	0	0	0	1	0	0	0	14767	69	3	5	995	5	SLITRK1	13	84454544	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	862	84454544	30715334	1022	84849											
SLITRK1	114798	broad.mit.edu	37	chr13	84455457	84455457	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattgccatgcagaaataaAtggtaaaactgggaagtcgg	16	8	12	5	1	0	1	0	0	0	1	1	3	0	2	1	3	3	2	1	3	7	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:84455457A>G	uc001vlk.2	-	1	1072	c.186T>C	c.(184-186)CAT>CAC	p.H62H		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	62	LRR 1.|Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GCAGAAATAAATGGTAAAACT	0.443													64	90					0	0	1	0	0		G	84455457	G	G	84455457	2	3	155	1	0	0	0	0	0	0	0	1	14767	98	4	3		3	SLITRK1	13	84455457	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	913	84455457	30714421	1023	84850											
DCT	1638	broad.mit.edu	37	chr13	95131277	95131277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcacggtcatcctggtttCgtaggatgtagggaccactc	7	11	12	11	2	2	0	2	0	0	0	5	2	3	2	2	4	0	4	2	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:95131277C>T	uc001vlv.3	-	1	660	c.233G>A	c.(232-234)CGA>CAA	p.R78Q	DCT_uc010afh.2_Missense_Mutation_p.R78Q	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	78	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		ATCCTGGTTTCGTAGGATGTA	0.612													52	79					0	0	1	0	0		T	95131277	T	T	95131277	3	4	155	1	0	0	0	0	1	0	0	0	4307	884	31	1	1465	1	DCT	13	95131277	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	10675820	95131277	20038601	1024	84851											
ABCC4	10257	broad.mit.edu	37	chr13	95686970	95686970	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatacggctcatcatattcTttcagtcttcctgaatctaa	11	15	4	11	1	6	1	3	1	3	0	7	1	7	1	1	1	1	1	1	1	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:95686970T>A	uc001vmd.3	-	30	3878	c.3759A>T	c.(3757-3759)AAA>AAT	p.K1253N	ABCC4_uc010afj.2_Missense_Mutation_p.K44N|ABCC4_uc010afk.2_Missense_Mutation_p.K1206N	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	1253	ABC transporter 2.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	CATCATATTCTTTCAGTCTTC	0.388													13	212					0	0	1	0	0		A	95686970	A	A	95686970	3	1	155	1	0	0	0	0	1	0	0	0	55	1606	56	5	226	5	ABCC4	13	95686970	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	555693	95686970	19482908	1025	84852											
UBAC2	337867	broad.mit.edu	37	chr13	99992580	99992580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtttttcttctagatgtccGgtctgtgctacgacagcaaa	8	14	9	10	3	3	1	0	0	3	1	4	2	4	1	1	1	3	3	1	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:99992580G>A	uc001voa.3	+	7	1052	c.568G>A	c.(568-570)GGT>AGT	p.G190S	UBAC2_uc010tiu.1_Missense_Mutation_p.G212S|UBAC2_uc001vob.3_Missense_Mutation_p.G163S|UBAC2_uc010tiv.1_Intron|UBAC2_uc001vod.2_Missense_Mutation_p.G77S|UBAC2_uc001voc.2_Missense_Mutation_p.G155S|UBAC2_uc010tiw.1_RNA|UBAC2_uc001voh.2_5'UTR	NM_001144072	NP_001137544	Q8NBM4	UBAC2_HUMAN	UBA domain containing 2 isoform 1	190	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTAGATGTCCGGTCTGTGCTA	0.423													8	178					0	0	1	0	0		A	99992580	A	A	99992580	3	1	155	1	0	0	0	0	1	0	0	0	16861	1116	39	1	754	1	UBAC2	13	99992580	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4305610	99992580	15177298	1026	84853											
PCCA	5095	broad.mit.edu	37	chr13	100909900	100909900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggtgggaaaggcatgcGcattgcttgggatgatgaag	9	10	18	4	1	0	2	0	2	0	0	0	4	0	4	0	5	2	3	0	5	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:100909900G>A	uc001voo.2	+	9	727	c.689G>A	c.(688-690)CGC>CAC	p.R230H	PCCA_uc010aga.2_Missense_Mutation_p.R204H|PCCA_uc010tiz.1_Missense_Mutation_p.R230H	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	230	ATP-grasp.|Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	AAAGGCATGCGCATTGCTTGG	0.443													31	36					0	0	1	0	0		A	100909900	A	A	100909900	3	1	155	1	0	0	0	0	1	0	0	0	11523	1087	38	1	723	1	PCCA	13	100909900	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	917320	100909900	14259978	1027	84854											
COL4A2	1284	broad.mit.edu	37	chr13	111156281	111156281	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagtgggtccccaggggaGgcgaggcccccctggggcac	6	3	18	14	1	0	0	0	0	0	0	1	3	1	1	5	7	0	1	5	7	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:111156281G>T	uc001vqx.2	+	44	4515	c.4226G>T	c.(4225-4227)AGG>ATG	p.R1409M		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1409	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CCCCAGGGGAGGCGAGGCCCC	0.721													14	60					7.93312e-07	8.2082e-07	1	1	0		T	111156281	T	T	111156281	3	4	155	1	0	0	0	0	1	0	0	0	3693	1000	35	5	4396	5	COL4A2	13	111156281	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	10246381	111156281	4013597	1028	84855											
ING1	3621	broad.mit.edu	37	chr13	111372042	111372042	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgagaggcgtcccctgcCgacctccccatcgaccccaa	8	4	10	19	4	0	1	0	0	0	1	3	5	2	1	8	1	2	0	8	1	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:111372042C>T	uc001vri.2	+	2	1464	c.1032C>T	c.(1030-1032)GCC>GCT	p.A344A	ING1_uc001vrf.2_Silent_p.A157A|ING1_uc001vrg.2_Silent_p.A132A|ING1_uc001vrh.2_Silent_p.A201A	NM_005537	NP_005528	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1 isoform D	344					cell cycle|negative regulation of cell growth|negative regulation of cell proliferation	nucleus	zinc ion binding			ovary(1)	1	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)			CGTCCCCTGCCGACCTCCCCA	0.627													3	74					0	0	1	0	0		T	111372042	T	T	111372042	2	4	155	1	0	0	0	0	0	0	0	1	7751	639	23	1		1	ING1	13	111372042	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	215761	111372042	3797836	1029	84856											
C13orf28	122258	broad.mit.edu	37	chr13	113030776	113030776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagaaactgagctccggcCgagaaccgtgattccaggta	12	6	12	11	3	0	4	0	2	0	2	2	5	2	4	4	2	3	3	4	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:113030776C>T	uc001vsd.1	+	1	108	c.77C>T	c.(76-78)CCG>CTG	p.P26L		NM_145248	NP_660291	Q96KW9	SPAC7_HUMAN	hypothetical protein LOC122258 precursor	26						extracellular region					0	all_lung(23;0.000633)|Lung NSC(43;0.0161)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0997)|Medulloblastoma(90;0.163)					GAGCTCCGGCCGAGAACCGTG	0.602													14	15					0	0	1	0	0		T	113030776	T	T	113030776	3	4	155	1	0	0	0	0	1	0	0	0	1727	652	23	1	79	1	C13orf28	13	113030776	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1658734	113030776	2139102	1030	84857											
LAMP1	3916	broad.mit.edu	37	chr13	113975961	113975961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacgcggaggagcacgtcCgtgtcacgaaggcgttttca	9	7	14	11	6	2	0	2	0	0	0	3	3	3	2	1	3	2	3	1	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:113975961C>T	uc001vtm.1	+	8	1314	c.1033C>T	c.(1033-1035)CGT>TGT	p.R345C	LAMP1_uc010tka.1_Missense_Mutation_p.R292C	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	345	Lumenal (Potential).|Second lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			GGAGCACGTCCGTGTCACGAA	0.567													63	90					0	0	1	0	0		T	113975961	T	T	113975961	3	4	155	1	0	0	0	0	1	0	0	0	8633	652	23	1	1063	1	LAMP1	13	113975961	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	945185	113975961	1193917	1031	84858											
GRTP1	79774	broad.mit.edu	37	chr13	114005253	114005253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggtccgtggtcttccGgaacttcacgttgtcgggga	5	10	16	10	4	2	0	1	0	1	0	5	2	4	2	2	6	1	2	2	6	1	3	rs146277531	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:114005253G>A	uc001vtn.2	-	4	473	c.376C>T	c.(376-378)CGG>TGG	p.R126W	GRTP1_uc010tkb.1_Missense_Mutation_p.R48W|GRTP1_uc010tkc.1_Missense_Mutation_p.R126W|GRTP1_uc010agv.1_RNA	NM_024719	NP_078995	Q5TC63	GRTP1_HUMAN	growth hormone regulated TBC protein 1	126	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0314)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0978)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			GTGGTCTTCCGGAACTTCACG	0.582													113	159					0	0	1	0	0		A	114005253	A	A	114005253	3	1	155	1	0	0	0	0	1	0	0	0	6826	1115	39	1	654	1	GRTP1	13	114005253	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	29292	114005253	1164625	1032	84859											
FAM70B	348013	broad.mit.edu	37	chr13	114469190	114469190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggctgccaccaccaggaCggagaatgtgaccgttgggg	8	6	16	11	2	0	2	0	1	0	1	0	4	0	3	4	5	1	3	4	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr13:114469190C>T	uc001vuh.2	+	2	176	c.149C>T	c.(148-150)ACG>ATG	p.T50M	FAM70B_uc010tkh.1_Missense_Mutation_p.T50M	NM_182614	NP_872420	Q8WV15	FA70B_HUMAN	family with sequence similarity 70, member B	50						integral to membrane					0	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.123)|all_epithelial(44;0.133)	all cancers(43;0.181)			ACCACCAGGACGGAGAATGTG	0.652													32	65					0	0	1	0	0		T	114469190	T	T	114469190	3	4	155	1	0	0	0	0	1	0	0	0	5620	536	19	1	155	1	FAM70B	13	114469190	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	463937	114469190	700688	1033	84860											
PARP2	10038	broad.mit.edu	37	chr14	20824816	20824817	+	Frame_Shift_Ins	INS	-	C	C																															gagccatgggcttcgaattgINSccccacctgaagctcccatc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:20824816_20824817insC	uc001vxc.2	+	13	1364_1365	c.1336_1337insC	c.(1336-1338)GCCfs	p.A446fs	PARP2_uc001vxd.2_Frame_Shift_Ins_p.A433fs|PARP2_uc001vxb.1_Frame_Shift_Ins_p.A446fs|PARP2_uc010tle.1_Frame_Shift_Ins_p.A196fs	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	446	PARP catalytic.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		GCTTCGAATTGCCCCACCTGAA	0.46								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					133	230	---	---	---	---						.	C	20824817	C	C	20824816	7	5	155	1	0	1	1	0	0	0	0	0	11480	1319	46	0	1386	0	PARP2	14	20824816	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08		20824816	86524724	1034	84861											
RNASE7	84659	broad.mit.edu	37	chr14	21511371	21511371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcaacaccttcctgcacGagcctttctccagtgtggcc	7	10	7	17	1	2	0	1	0	1	0	4	1	3	0	6	1	3	1	6	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:21511371G>A	uc001vzk.3	+	2	477	c.220G>A	c.(220-222)GAG>AAG	p.E74K	NDRG2_uc010tll.1_Intron|RNASE7_uc001vzl.2_RNA	NM_032572	NP_115961	Q9H1E1	RNAS7_HUMAN	ribonuclease, RNase A family, 7 precursor	74					defense response to bacterium|innate immune response	extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(1)	1	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;3.42e-11)|Epithelial(56;5.57e-09)|all cancers(55;2.36e-08)	GBM - Glioblastoma multiforme(265;0.0191)		CTTCCTGCACGAGCCTTTCTC	0.542													48	49					0	0	1	0	0		A	21511371	A	A	21511371	3	1	155	1	0	0	0	0	1	0	0	0	13433	1059	37	1	222	1	RNASE7	14	21511371	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	686555	21511371	85838169	1035	84862											
FLJ10357	55701	broad.mit.edu	37	chr14	21542132	21542132	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttccatgaggggtggccGctctgcctgcatgaacaggt	6	11	13	11	1	2	2	0	2	2	0	3	2	3	2	3	4	3	2	3	4	1	2	rs114625560	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:21542132G>A	uc001vzp.2	+	3	272	c.243G>A	c.(241-243)CCG>CCA	p.P81P	FLJ10357_uc001vzn.1_Silent_p.P81P|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_5'UTR	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	81					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		AGGGGTGGCCGCTCTGCCTGC	0.617													38	61					0	0	1	0	0		A	21542132	A	A	21542132	2	1	155	1	0	0	0	0	0	0	0	1	5940	1074	38	1		1	FLJ10357	14	21542132	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	30761	21542132	85807408	1036	84863											
PRMT5	10419	broad.mit.edu	37	chr14	23397733	23397733	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagcagtaggtctgatcGtgtctggggaccgggccgat	7	9	16	9	3	2	2	0	2	2	0	3	4	2	3	2	4	1	2	2	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:23397733G>A	uc001whm.1	-	2	293	c.202C>T	c.(202-204)CGA>TGA	p.R68*	PRMT5_uc001whl.1_Nonsense_Mutation_p.R51*|PRMT5_uc010akd.1_RNA|PRMT5_uc010tnf.1_Intron|PRMT5_uc010tng.1_Nonsense_Mutation_p.R51*|PRMT5_uc010tnh.1_Nonsense_Mutation_p.R68*|PRMT5_uc001whn.1_Nonsense_Mutation_p.R51*	NM_006109	NP_006100	O14744	ANM5_HUMAN	protein arginine methyltransferase 5 isoform a	68					cell proliferation|histone H4-R3 methylation|ncRNA metabolic process|regulation of mitosis|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	histone-arginine N-methyltransferase activity|protein binding|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding			ovary(1)	1	all_cancers(95;2.76e-05)			GBM - Glioblastoma multiforme(265;0.0126)		AGGTCTGATCGTGTCTGGGGA	0.507													10	134					0	0	1	0	0		A	23397733	A	A	23397733	4	1	155	1	0	0	0	0	0	1	0	0	12561	1153	40	1	1775	1	PRMT5	14	23397733	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1855601	23397733	83951807	1037	84864											
MYH7	4625	broad.mit.edu	37	chr14	23898199	23898199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcgatgtccaggactcCtatgaagtactggcgtggct	8	9	13	11	2	0	1	0	1	0	0	2	3	2	2	3	3	2	2	3	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:23898199C>T	uc001wjx.2	-	14	1478	c.1372G>A	c.(1372-1374)GGA>AGA	p.G458R		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	458	Myosin head-like.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TCCAGGACTCCTATGAAGTAC	0.522													27	54					0	0	1	0	0		T	23898199	T	T	23898199	3	4	155	1	0	0	0	0	1	0	0	0	10057	690	24	4	4543	4	MYH7	14	23898199	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	500466	23898199	83451341	1038	84865											
RNF31	55072	broad.mit.edu	37	chr14	24620520	24620520	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cctgtcaggaggcccggagaGcctggctggatcgtcatggc	6	7	16	12	2	2	1	2	0	0	1	3	4	2	3	3	6	1	1	3	6	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:24620520G>T	uc001wmn.1	+	9	1918	c.1669G>T	c.(1669-1671)GCC>TCC	p.A557S	RNF31_uc001wml.1_Missense_Mutation_p.A406S|RNF31_uc001wmm.1_Intron|RNF31_uc010alg.1_Missense_Mutation_p.A316S|RNF31_uc001wmo.1_Missense_Mutation_p.A24S|RNF31_uc001wmp.2_RNA	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	557					CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		GGCCCGGAGAGCCTGGCTGGA	0.602													30	40					1.56442e-22	1.68872e-22	1	1	0		T	24620520	T	T	24620520	3	4	155	1	0	0	0	0	1	0	0	0	13512	971	34	5	1703	5	RNF31	14	24620520	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	722321	24620520	82729020	1039	84866											
REC8	9985	broad.mit.edu	37	chr14	24641958	24641958	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcagccggttggtgaagcgCgaatacctgagggtgaatgt	9	8	17	7	3	0	3	0	3	0	0	0	4	0	3	2	4	3	2	2	4	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:24641958C>T	uc001wmr.2	+	3	520	c.93C>T	c.(91-93)CGC>CGT	p.R31R	REC8_uc001wms.2_Silent_p.R31R	NM_005132	NP_005123	O95072	REC8_HUMAN	REC8 homolog	31					mitotic metaphase/anaphase transition|mitotic prometaphase|reciprocal meiotic recombination|sister chromatid cohesion	nucleoplasm					0				GBM - Glioblastoma multiforme(265;0.00839)		TGGTGAAGCGCGAATACCTGA	0.637													9	35					0	0	1	0	0		T	24641958	T	T	24641958	2	4	155	1	0	0	0	0	0	0	0	1	13224	755	27	1		1	REC8	14	24641958	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	21438	24641958	82707582	1040	84867											
NYNRIN	57523	broad.mit.edu	37	chr14	24884675	24884675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgcctcccggaccactgcGgaccctgaggtgcgggaggg	6	6	16	13	3	0	1	0	1	0	0	1	4	1	4	4	5	3	0	4	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:24884675G>A	uc001wpf.3	+	9	4038	c.3720G>A	c.(3718-3720)GCG>GCA	p.A1240A		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1240					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						GGACCACTGCGGACCCTGAGG	0.617													21	47					0	0	1	0	0		A	24884675	A	A	24884675	2	1	155	1	0	0	0	0	0	0	0	1	10815	1103	39	1		1	NYNRIN	14	24884675	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	242717	24884675	82464865	1041	84868											
CBLN3	643866	broad.mit.edu	37	chr14	24898055	24898055	+	Frame_Shift_Del	DEL	G	-	-																															cagcaaatgccactcgcccaGggggtgcctctcccagggct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:24898055delG	uc001wpg.3	-	1	677	c.206delC	c.(205-207)CCTfs	p.P69fs	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	69	C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		CACTCGCCCAGGGGGTGCCTC	0.677													12	22	---	---	---	---						.	-	24898055	-	-	24898055	7	5	155	1	0	1	0	1	0	0	0	0	2709	1000	35	0	423	0	CBLN3	14	24898055	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	13380	24898055	82451485	1042	84869											
NPAS3	64067	broad.mit.edu	37	chr14	34269448	34269448	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccccaacagtgcctcggtGctcaagatcaagacggagat	11	7	10	13	2	2	3	2	0	0	3	4	4	3	3	3	2	3	1	3	2	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:34269448G>C	uc001wru.2	+	12	1999	c.1935G>C	c.(1933-1935)GTG>GTC	p.V645V	NPAS3_uc001wrs.2_Silent_p.V632V|NPAS3_uc001wrt.2_Silent_p.V613V|NPAS3_uc001wrv.2_Silent_p.V615V	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	645					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GTGCCTCGGTGCTCAAGATCA	0.657													3	44					0	0	1	0	0		C	34269448	C	C	34269448	2	2	155	1	0	0	0	0	0	0	0	1	10583	1306	46	5		5	NPAS3	14	34269448	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	9371393	34269448	73080092	1043	84870											
PAX9	5083	broad.mit.edu	37	chr14	37132207	37132207	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggaactggcccaactgggcaTccgaccgtgtgacatcagcc	9	6	12	14	2	1	1	1	1	0	0	2	3	2	2	4	3	3	1	4	3	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:37132207T>C	uc001wty.3	+	3	827	c.110T>C	c.(109-111)ATC>ACC	p.I37T	PAX9_uc010amq.2_5'Flank	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	37	Paired.				multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		CAACTGGGCATCCGACCGTGT	0.652													4	46					0	0	1	0	0		C	37132207	C	C	37132207	3	2	155	1	0	0	0	0	1	0	0	0	11505	1435	50	3	116	3	PAX9	14	37132207	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2862759	37132207	70217333	1044	84871											
NIN	51199	broad.mit.edu	37	chr14	51224918	51224918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccctcagttcccttttgtGactgctcttcagctcaagta	6	15	6	14	0	4	1	3	1	1	0	6	1	6	1	2	0	2	4	2	0	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:51224918G>A	uc001wym.2	-	18	3021	c.2830C>T	c.(2830-2832)CAC>TAC	p.H944Y	NIN_uc001wyi.2_Missense_Mutation_p.H944Y|NIN_uc001wyj.2_Intron|NIN_uc001wyk.2_Intron|NIN_uc010tqp.1_Missense_Mutation_p.H950Y|NIN_uc001wyo.2_Missense_Mutation_p.H944Y	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	944	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TCCCTTTTGTGACTGCTCTTC	0.542			T	PDGFRB	MPD								11	285					0	0	1	0	0		A	51224918	A	A	51224918	3	1	155	1	0	0	0	0	1	0	0	0	10436	1290	45	4	3775	4	NIN	14	51224918	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	14092711	51224918	56124622	1045	84872											
PELI2	57161	broad.mit.edu	37	chr14	56755227	56755227	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggcagccagaacacggacGaagcccagatcacacagagc	14	2	11	14	2	1	3	1	0	0	3	1	5	1	4	2	2	4	1	2	2	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:56755227G>A	uc001xch.2	+	4	668	c.382G>A	c.(382-384)GAA>AAA	p.E128K		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	128					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						GAACACGGACGAAGCCCAGAT	0.507													19	42					0	0	1	0	0		A	56755227	A	A	56755227	3	1	155	1	0	0	0	0	1	0	0	0	11741	1059	37	1	396	1	PELI2	14	56755227	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5530309	56755227	50594313	1046	84873											
MUDENG	55745	broad.mit.edu	37	chr14	57741440	57741440	+	Missense_Mutation	SNP	A	G	G	1	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	agaattcattagataataccAattttgcatctgtgactcag	14	14	6	7	0	3	3	2	1	1	2	3	3	3	3	1	0	2	1	1	0	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:57741440A>G	uc001xcv.2	+	2	980	c.553A>G	c.(553-555)AAT>GAT	p.N185D	MUDENG_uc001xcu.3_Missense_Mutation_p.N185D|MUDENG_uc010tri.1_Intron|MUDENG_uc010trj.1_Missense_Mutation_p.N82D	NM_018229	NP_060699	Q9H0R1	MUDEN_HUMAN	Mu-2 related death-inducing protein	185					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex				ovary(1)	1						AGATAATACCAATTTTGCATC	0.393													46	100					0	0	1	0	0		G	57741440	G	G	57741440	3	3	155	1	0	0	0	0	1	0	0	0	10001	130	5	3	559	3	MUDENG	14	57741440	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	986213	57741440	49608100	1047	84874											
ACTR10	55860	broad.mit.edu	37	chr14	58678087	58678087	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattctgccatggtcctagaTtgtggatatagggaaagcct	11	12	11	7	0	1	1	0	0	1	1	2	3	2	3	3	3	2	0	3	3	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:58678087T>A	uc001xdf.2	+	5	523	c.420T>A	c.(418-420)GAT>GAA	p.D140E	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_Translation_Start_Site|ACTR10_uc001xdh.2_Translation_Start_Site|ACTR10_uc010trp.1_5'Flank|ACTR10_uc010apc.2_5'Flank	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	140						cytoplasm				central_nervous_system(1)	1						TGGTCCTAGATTGTGGATATA	0.378													179	196					0	0	1	0	0		A	58678087	A	A	58678087	3	1	155	1	0	0	0	0	1	0	0	0	208	1490	52	5	438	5	ACTR10	14	58678087	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	936647	58678087	48671453	1048	84875											
PSMA3	5684	broad.mit.edu	37	chr14	58718839	58718839	+	Frame_Shift_Del	DEL	C	-	-																															ttcttctccttgtttcagtaCagctattggaatcagatgca																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:58718839delC	uc001xdj.1	+	3	153	c.107delC	c.(106-108)ACAfs	p.T36fs	C14orf37_uc010tro.1_Intron|PSMA3_uc001xdk.1_Frame_Shift_Del_p.T36fs	NM_002788	NP_002779	P25788	PSA3_HUMAN	proteasome alpha 3 subunit isoform 1	36					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	protein binding|threonine-type endopeptidase activity				0						TGTTTCAGTACAGCTATTGGA	0.284													88	183	---	---	---	---						.	-	58718839	-	-	58718839	7	5	155	1	0	1	0	1	0	0	0	0	12690	478	17	0	117	0	PSMA3	14	58718839	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	40752	58718839	48630701	1049	84876											
RTN1	6252	broad.mit.edu	37	chr14	60072086	60072086	+	Frame_Shift_Del	DEL	T	-	-																															aacagcttaagcaactatacTtttaaggaatccaccaggtc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:60072086delT	uc001xen.1	-	5	2321	c.2112delA	c.(2110-2112)AAAfs	p.K704fs	RTN1_uc001xem.1_Frame_Shift_Del_p.K284fs|RTN1_uc001xek.1_Frame_Shift_Del_p.K136fs|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Frame_Shift_Del_p.K121fs	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	704	Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GCAACTATACTTTTAAGGAAT	0.418													67	96	---	---	---	---						.	-	60072086	-	-	60072086	7	5	155	1	0	1	0	1	0	0	0	0	13750	1623	56	0	238	0	RTN1	14	60072086	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	1353247	60072086	47277454	1050	84877											
SNAPC1	6617	broad.mit.edu	37	chr14	62248987	62248987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaaatcaagaaggcatcGtcaagtcaaactcgactctt	15	9	6	11	2	4	1	3	0	1	1	7	2	5	1	1	1	1	1	1	1	5	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:62248987G>A	uc001xft.2	+	8	952	c.848G>A	c.(847-849)CGT>CAT	p.R283H		NM_003082	NP_003073	Q16533	SNPC1_HUMAN	small nuclear RNA activating complex,	283					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0639)|BRCA - Breast invasive adenocarcinoma(234;0.186)		AGAAGGCATCGTCAAGTCAAA	0.353													54	79					0	0	1	0	0		A	62248987	A	A	62248987	3	1	155	1	0	0	0	0	1	0	0	0	14859	1145	40	1	878	1	SNAPC1	14	62248987	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2176901	62248987	45100553	1051	84878											
SYNE2	23224	broad.mit.edu	37	chr14	64522715	64522715	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctataaagaagcagtcacCagggcagtggagagcatcac	14	5	12	10	1	2	2	2	0	0	2	2	3	2	2	1	2	2	4	1	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:64522715C>T	uc001xgm.2	+	49	10028	c.9798C>T	c.(9796-9798)ACC>ACT	p.T3266T	SYNE2_uc001xgl.2_Silent_p.T3266T|SYNE2_uc010apw.1_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3266	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AAGCAGTCACCAGGGCAGTGG	0.393													30	51					0	0	1	0	0		T	64522715	T	T	64522715	2	4	155	1	0	0	0	0	0	0	0	1	15471	581	21	4		4	SYNE2	14	64522715	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2273728	64522715	42826825	1052	84879											
TMEM229B	161145	broad.mit.edu	37	chr14	67940344	67940344	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtagtcccaggggcaggcGttgaactggcgcaggatgaa	10	6	17	8	2	0	2	0	2	0	0	1	4	1	3	1	5	1	4	1	5	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:67940344G>A	uc001xjk.2	-	3	707	c.297C>T	c.(295-297)AAC>AAT	p.N99N	TMEM229B_uc001xjj.1_RNA	NM_182526	NP_872332	Q8NBD8	T229B_HUMAN	transmembrane protein 229B	99	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						AGGGGCAGGCGTTGAACTGGC	0.647													3	8					0	0	1	0	0		A	67940344	A	A	67940344	2	1	155	1	0	0	0	0	0	0	0	1	16173	1136	40	1		1	TMEM229B	14	67940344	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3417629	67940344	39409196	1053	84880											
ZFYVE26	23503	broad.mit.edu	37	chr14	68249547	68249547	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctttatgctgctcaaatcgTccacatctcgcccgtacact	8	12	5	16	3	2	0	1	0	1	0	5	0	3	0	3	0	3	3	3	0	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:68249547T>C	uc001xka.2	-	21	4461	c.4322A>G	c.(4321-4323)GAC>GGC	p.D1441G	ZFYVE26_uc010tsz.1_Intron|ZFYVE26_uc001xkc.3_Missense_Mutation_p.D1441G	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1441					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GCTCAAATCGTCCACATCTCG	0.502													7	359					0	0	1	0	0		C	68249547	C	C	68249547	3	2	155	1	0	0	0	0	1	0	0	0	17693	1667	58	3	3385	3	ZFYVE26	14	68249547	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	309203	68249547	39099993	1054	84881											
DCAF5	8816	broad.mit.edu	37	chr14	69521972	69521972	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtggaaggcgttgtcGgcagactcatctactgtggg	7	9	15	10	2	2	1	1	0	1	1	3	2	2	2	1	5	1	2	1	5	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:69521972G>A	uc001xkp.2	-	9	1650	c.1431C>T	c.(1429-1431)GCC>GCT	p.A477A	DCAF5_uc001xkq.2_Silent_p.A476A	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	477						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						AGGCGTTGTCGGCAGACTCAT	0.627													21	42					0	0	1	0	0		A	69521972	A	A	69521972	2	1	155	1	0	0	0	0	0	0	0	1	4276	1103	39	1		1	DCAF5	14	69521972	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1272425	69521972	37827568	1055	84882											
SLC39A9	55334	broad.mit.edu	37	chr14	69890833	69890833	+	Frame_Shift_Del	DEL	T	-	-																															acgactgaagctggtgactgTtttgggtgctggccttctct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:69890833delT	uc001xle.2	+	2	799	c.119delT	c.(118-120)GTTfs	p.V40fs	SLC39A9_uc001xld.3_RNA|SLC39A9_uc010aqx.2_Frame_Shift_Del_p.V40fs|SLC39A9_uc001xlf.3_Frame_Shift_Del_p.V40fs|SLC39A9_uc001xlg.3_RNA	NM_018375	NP_060845	Q9NUM3	S39A9_HUMAN	solute carrier family 39 (zinc transporter),	40	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity				0				all cancers(60;0.00299)|BRCA - Breast invasive adenocarcinoma(234;0.0145)|OV - Ovarian serous cystadenocarcinoma(108;0.0373)		CTGGTGACTGTTTTGGGTGCT	0.428													39	68	---	---	---	---						.	-	69890833	-	-	69890833	7	5	155	1	0	1	0	1	0	0	0	0	14650	1725	60	0	125	0	SLC39A9	14	69890833	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	368861	69890833	37458707	1056	84883											
SIPA1L1	26037	broad.mit.edu	37	chr14	72190527	72190527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttttaccctcgccagggcGctactagcaagtacctgatt	8	12	9	12	2	0	1	0	1	0	0	1	1	0	1	3	1	4	4	3	1	5	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:72190527G>A	uc001xms.2	+	16	4783	c.4435G>A	c.(4435-4437)GCT>ACT	p.A1479T	SIPA1L1_uc001xmt.2_Missense_Mutation_p.A1458T|SIPA1L1_uc001xmu.2_Missense_Mutation_p.A1458T|SIPA1L1_uc001xmv.2_Missense_Mutation_p.A1479T|SIPA1L1_uc010ttm.1_Missense_Mutation_p.A933T|SIPA1L1_uc001xmw.2_Missense_Mutation_p.A244T	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1479	Ser-rich.				actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		TCGCCAGGGCGCTACTAGCAA	0.428													86	125					0	0	1	0	0		A	72190527	A	A	72190527	3	1	155	1	0	0	0	0	1	0	0	0	14354	1087	38	1	4493	1	SIPA1L1	14	72190527	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2299694	72190527	35159013	1057	84884											
DCAF4	26094	broad.mit.edu	37	chr14	73425339	73425339	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggccaggactgctacacGagaatctggagcctccacga	10	6	13	12	2	1	1	0	0	1	1	2	5	2	3	3	3	3	1	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:73425339G>A	uc001xng.2	+	14	1534	c.1314G>A	c.(1312-1314)ACG>ACA	p.T438T	DCAF4_uc001xnj.2_Silent_p.T432T|DCAF4_uc010ttr.1_Silent_p.T417T|DCAF4_uc001xnh.2_Silent_p.T338T|DCAF4_uc010tts.1_Silent_p.T378T|DCAF4_uc010ttt.1_Silent_p.T224T|DCAF4_uc001xni.2_Silent_p.T268T	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1	438	WD 2.					CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						ACTGCTACACGAGAATCTGGA	0.567													29	51					0	0	1	0	0		A	73425339	A	A	73425339	2	1	155	1	0	0	0	0	0	0	0	1	4273	1045	37	1		1	DCAF4	14	73425339	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1234812	73425339	33924201	1058	84885											
PAPLN	89932	broad.mit.edu	37	chr14	73727431	73727431	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctaggtacgggtgctgccCtgacagggtatctgtcgctg	5	10	15	11	2	1	1	0	1	1	0	2	1	1	1	2	3	3	4	2	3	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:73727431C>A	uc010ttx.1	+	16	2163	c.2000C>A	c.(1999-2001)CCT>CAT	p.P667H	PAPLN_uc001xnw.3_Missense_Mutation_p.P640H|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.P667H|PAPLN_uc010arm.2_Translation_Start_Site|PAPLN_uc010arn.2_5'Flank	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	667						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GGGTGCTGCCCTGACAGGGTA	0.657													10	29					6.94344e-10	7.27429e-10	1	1	0		A	73727431	A	A	73727431	3	1	155	1	0	0	0	0	1	0	0	0	11447	681	24	5	1977	5	PAPLN	14	73727431	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	302092	73727431	33622109	1059	84886											
NUMB	8650	broad.mit.edu	37	chr14	73789849	73789849	+	Frame_Shift_Del	DEL	T	-	-																															aatacatacagctttcaatcTttttacagcatcttcacaga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:73789849delT	uc001xny.1	-	5	510	c.190delA	c.(190-192)AGAfs	p.R64fs	NUMB_uc010aro.1_Frame_Shift_Del_p.R64fs|NUMB_uc010arp.1_Frame_Shift_Del_p.R64fs|NUMB_uc010arq.1_Frame_Shift_Del_p.R64fs|NUMB_uc010arr.1_Frame_Shift_Del_p.R64fs|NUMB_uc001xoa.1_Frame_Shift_Del_p.R64fs|NUMB_uc001xnz.1_Frame_Shift_Del_p.R64fs|NUMB_uc001xob.1_Frame_Shift_Del_p.R64fs|NUMB_uc001xod.1_Frame_Shift_Del_p.R64fs|NUMB_uc001xoc.1_Frame_Shift_Del_p.R64fs|NUMB_uc010ars.1_Frame_Shift_Del_p.R64fs|NUMB_uc001xof.1_Intron|NUMB_uc001xog.2_Frame_Shift_Del_p.R64fs|NUMB_uc001xoh.1_Frame_Shift_Del_p.R64fs	NM_001005743	NP_001005743	P49757	NUMB_HUMAN	numb homolog isoform 1	64	PID.				axon guidance|lateral ventricle development|neuroblast division in subventricular zone|positive regulation of neurogenesis	integral to plasma membrane				ovary(2)|central_nervous_system(1)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00471)|OV - Ovarian serous cystadenocarcinoma(108;0.161)		GCTTTCAATCTTTTTACAGCA	0.353													55	81	---	---	---	---						.	-	73789849	-	-	73789849	7	5	155	1	0	1	0	1	0	0	0	0	10770	1617	56	0	1801	0	NUMB	14	73789849	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	62418	73789849	33559691	1060	84887											
ZNF410	57862	broad.mit.edu	37	chr14	74371775	74371775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacctgaagaaccaccggcGcatccacacaggtgtgtgca	13	5	10	13	2	0	2	0	1	0	1	1	2	1	2	4	2	3	2	4	2	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:74371775G>A	uc001xoz.1	+	7	1084	c.902G>A	c.(901-903)CGC>CAC	p.R301H	ZNF410_uc001xoy.1_RNA|ZNF410_uc010ary.1_RNA|ZNF410_uc010tuf.1_RNA|ZNF410_uc010tug.1_Missense_Mutation_p.R32H|ZNF410_uc010tuh.1_Missense_Mutation_p.R228H|ZNF410_uc010tui.1_RNA|ZNF410_uc010arz.1_Missense_Mutation_p.R318H|ZNF410_uc001xpa.1_Missense_Mutation_p.R105H|ZNF410_uc001xpb.1_Missense_Mutation_p.R301H|ZNF410_uc001xpc.1_Missense_Mutation_p.R248H|ZNF410_uc010tuj.1_Missense_Mutation_p.R105H	NM_021188	NP_067011	Q86VK4	ZN410_HUMAN	zinc finger protein 410	301	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00369)		AACCACCGGCGCATCCACACA	0.517													34	42					0	0	1	0	0		A	74371775	A	A	74371775	3	1	155	1	0	0	0	0	1	0	0	0	17915	1087	38	1	924	1	ZNF410	14	74371775	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	581926	74371775	32977765	1061	84888											
RPS6KL1	83694	broad.mit.edu	37	chr14	75373815	75373815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccaggcgccgggtaggctCgaactgcagcagctgcagag	8	4	16	13	3	0	1	0	0	0	1	1	2	0	1	2	3	5	6	2	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:75373815C>T	uc010tux.1	-	11	2080	c.1552G>A	c.(1552-1554)GAG>AAG	p.E518K	RPS6KL1_uc001xqx.1_3'UTR|RPS6KL1_uc001xqw.2_Missense_Mutation_p.E487K|RPS6KL1_uc010asd.1_RNA	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	518	Protein kinase.					ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		CGGGTAGGCTCGAACTGCAGC	0.597													65	69					0	0	1	0	0		T	75373815	T	T	75373815	3	4	155	1	0	0	0	0	1	0	0	0	13684	893	31	1	174	1	RPS6KL1	14	75373815	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1002040	75373815	31975725	1062	84889											
MLH3	27030	broad.mit.edu	37	chr14	75509174	75509174	+	Missense_Mutation	SNP	T	G	G	0	1	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	taaaaggttgacacctgtacTgagaccctaaatataagaaa	18	9	7	7	0	0	3	0	2	0	2	0	4	0	3	2	1	1	2	2	1	8	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:75509174T>G	uc001xrd.1	-	3	3503	c.3287A>C	c.(3286-3288)CAG>CCG	p.Q1096P	MLH3_uc001xre.1_Missense_Mutation_p.Q1096P|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	1096					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		ACACCTGTACTGAGACCCTAA	0.378								MMR					8	165					0	0	1	0	0		G	75509174	G	G	75509174	3	3	155	1	0	0	0	0	1	0	0	0	9636	1580	55	5	1118	5	MLH3	14	75509174	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	135359	75509174	31840366	1063	84890											
TTLL5	23093	broad.mit.edu	37	chr14	76249812	76249812	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accattggtcccttttcttcCttccaaagtgctgcacacat	8	14	5	14	0	1	0	0	0	1	0	4	0	4	0	4	1	2	2	4	1	1	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:76249812C>A	uc001xrx.2	+	26	3130	c.2925C>A	c.(2923-2925)TCC>TCA	p.S975S	TTLL5_uc010ask.1_Silent_p.S989S|TTLL5_uc001xrz.2_Silent_p.S550S|TTLL5_uc001xsa.2_Silent_p.S48S|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	975					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		CCTTTTCTTCCTTCCAAAGTG	0.537													56	85					3.48956e-15	3.71878e-15	1	1	0		A	76249812	A	A	76249812	2	1	155	1	0	0	0	0	0	0	0	1	16756	668	24	5		5	TTLL5	14	76249812	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	740638	76249812	31099728	1064	84891											
SPTLC2	9517	broad.mit.edu	37	chr14	78063576	78063576	+	Missense_Mutation	SNP	A	G	G	1	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	gtgacacttttcaattctccAatacctcaagaaatctcgaa	14	12	4	11	1	4	2	2	1	2	1	6	3	4	2	2	0	1	0	2	0	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:78063576A>G	uc001xub.2	-	2	468	c.280T>C	c.(280-282)TGG>CGG	p.W94R		NM_004863	NP_004854	O15270	SPTC2_HUMAN	serine palmitoyltransferase, long chain base	94						integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			upper_aerodigestive_tract(1)|ovary(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0346)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	TCAATTCTCCAATACCTCAAG	0.393													41	57					0	0	1	0	0		G	78063576	G	G	78063576	3	3	155	1	0	0	0	0	1	0	0	0	15149	130	5	3	1452	3	SPTLC2	14	78063576	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1813764	78063576	29285964	1065	84892											
C14orf156	81892	broad.mit.edu	37	chr14	78174534	78174534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttttgtgagaagaattcCttggactgcggcgtcgagtg	7	13	14	7	3	0	2	0	1	0	2	2	5	1	3	1	2	2	1	1	2	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:78174534C>T	uc001xue.3	+	1	110	c.80C>T	c.(79-81)CCT>CTT	p.P27L	ALKBH1_uc001xuc.1_5'Flank|ALKBH1_uc001xud.1_5'Flank	NM_031210	NP_112487	Q9GZT3	SLIRP_HUMAN	SRA stem-loop-interacting RNA-binding protein	27	RRM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	nucleotide binding|RNA binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0276)		AGAAGAATTCCTTGGACTGCG	0.502													30	42					0	0	1	0	0		T	78174534	T	T	78174534	3	4	155	1	0	0	0	0	1	0	0	0	1757	681	24	4	82	4	C14orf156	14	78174534	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	110958	78174534	29175006	1066	84893											
NRXN3	9369	broad.mit.edu	37	chr14	79181439	79181439	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctggaaccgcttcatctgCgactgcaccggcaccggata	8	7	12	14	4	2	0	1	0	1	0	2	3	2	2	3	4	3	4	3	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:79181439C>T	uc001xun.2	+	5	1373	c.882C>T	c.(880-882)TGC>TGT	p.C294C	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Silent_p.C428C	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	667	EGF-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GCTTCATCTGCGACTGCACCG	0.572													30	52					0	0	1	0	0		T	79181439	T	T	79181439	2	4	155	1	0	0	0	0	0	0	0	1	10686	776	27	1		1	NRXN3	14	79181439	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1006905	79181439	28168101	1067	84894											
STON2	85439	broad.mit.edu	37	chr14	81744393	81744393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgtcacgaggctgggacCgtgctgatccaggcgggtga	7	6	16	12	4	1	2	1	2	0	0	2	4	2	3	3	4	1	2	3	4	0	0	rs150621878		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:81744393C>T	uc010tvu.1	-	4	1463	c.1262G>A	c.(1261-1263)CGG>CAG	p.R421Q	STON2_uc001xvk.1_Missense_Mutation_p.R421Q|STON2_uc010tvt.1_Missense_Mutation_p.R218Q	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	421					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		AGGCTGGGACCGTGCTGATCC	0.527													93	133					0	0	1	0	0		T	81744393	T	T	81744393	3	4	155	1	0	0	0	0	1	0	0	0	15343	652	23	1	1461	1	STON2	14	81744393	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2562954	81744393	25605147	1068	84895											
STON2	85439	broad.mit.edu	37	chr14	81744680	81744680	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaagggttgataggggaGggctgtacatcctgcagagt	10	9	16	6	0	0	3	0	2	0	1	1	4	1	4	1	4	2	4	1	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:81744680G>T	uc010tvu.1	-	4	1176	c.975C>A	c.(973-975)CCC>CCA	p.P325P	STON2_uc001xvk.1_Silent_p.P325P|STON2_uc010tvt.1_Silent_p.P122P	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	325					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		TGATAGGGGAGGGCTGTACAT	0.507													65	112					6.20203e-27	6.76917e-27	1	1	0		T	81744680	T	T	81744680	2	4	155	1	0	0	0	0	0	0	0	1	15343	987	35	5		5	STON2	14	81744680	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	287	81744680	25604860	1069	84896											
TTC7B	145567	broad.mit.edu	37	chr14	91142989	91142989	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ttcaggtatcctgctcagcaCagcgtcccggttggcctgaa	7	10	11	13	2	2	1	2	1	0	0	4	1	4	1	3	3	3	4	3	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:91142989C>A	uc001xyp.2	-	9	1152	c.1030G>T	c.(1030-1032)GTG>TTG	p.V344L	TTC7B_uc010ats.2_RNA	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	344							binding			ovary(2)	2		Melanoma(154;0.222)				CTGCTCAGCACAGCGTCCCGG	0.537													3	81					1	1	1	1	0		A	91142989	A	A	91142989	3	1	155	1	0	0	0	0	1	0	0	0	16739	478	17	5	1549	5	TTC7B	14	91142989	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	9398309	91142989	16206551	1070	84897											
RIN3	79890	broad.mit.edu	37	chr14	93142923	93142923	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagtacatgatggagctCatggaccccgccctgcagct	8	8	13	12	1	1	1	1	1	0	0	1	4	1	4	3	3	4	4	3	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:93142923C>A	uc001yap.2	+	8	2591	c.2439C>A	c.(2437-2439)CTC>CTA	p.L813L	RIN3_uc010auk.2_Silent_p.L475L|RIN3_uc001yaq.2_Silent_p.L738L|RIN3_uc001yas.1_Silent_p.L475L	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	813	VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				TGATGGAGCTCATGGACCCCG	0.617													27	42					5.77227e-19	6.18696e-19	1	1	0		A	93142923	A	A	93142923	2	1	155	1	0	0	0	0	0	0	0	1	13398	813	29	5		5	RIN3	14	93142923	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1999934	93142923	14206617	1071	84898											
BTBD7	55727	broad.mit.edu	37	chr14	93760502	93760502	+	Frame_Shift_Del	DEL	A	-	-																															ctcctttgtaataaatttcgAaaaaatggggaccgtgcaga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:93760502delA	uc001ybo.2	-	3	1190	c.864delT	c.(862-864)TTTfs	p.F288fs	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Frame_Shift_Del_p.F203fs|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_Frame_Shift_Del_p.F203fs|BTBD7_uc001ybr.2_Frame_Shift_Del_p.F288fs	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	288	BTB 2.									pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		ATAAATTTCGAAAAAATGGGG	0.403													63	82	---	---	---	---						.	-	93760502	-	-	93760502	7	5	155	1	0	1	0	1	0	0	0	0	1549	243	9	0	2645	0	BTBD7	14	93760502	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	617579	93760502	13589038	1072	84899											
EML1	2009	broad.mit.edu	37	chr14	100380563	100380563	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acagtggccgaggggaaaggCgatgtgatcttgattggcac	10	8	16	7	2	1	2	0	2	1	0	1	5	1	3	1	5	0	1	1	5	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:100380563C>T	uc001ygs.2	+	14	1611	c.1542C>T	c.(1540-1542)GGC>GGT	p.G514G	EML1_uc010tww.1_Silent_p.G502G|EML1_uc001ygr.2_Silent_p.G533G	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	514						cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				AGGGGAAAGGCGATGTGATCT	0.468													61	104					0	0	1	0	0		T	100380563	T	T	100380563	2	4	155	1	0	0	0	0	0	0	0	1	5104	755	27	1		1	EML1	14	100380563	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	6620061	100380563	6968977	1073	84900											
DYNC1H1	1778	broad.mit.edu	37	chr14	102472436	102472436	+	Frame_Shift_Del	DEL	C	-	-																															tcaggacaaactggtccagaCccccctcactgaccgctgct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:102472436delC	uc001yks.2	+	27	5809	c.5645delC	c.(5644-5646)ACCfs	p.T1882fs		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1882	AAA 1 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CTGGTCCAGACCCCCCTCACT	0.483													99	172	---	---	---	---						.	-	102472436	-	-	102472436	7	5	155	1	0	1	0	1	0	0	0	0	4847	507	18	0	5751	0	DYNC1H1	14	102472436	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	2091873	102472436	4877104	1074	84901											
TECPR2	9895	broad.mit.edu	37	chr14	102916927	102916927	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaatcatgtggttccccgtgGgacagcttctgctacaaaat	10	11	10	10	1	2	0	1	0	1	0	3	2	3	1	2	2	3	3	2	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:102916927G>T	uc001ylw.1	+	15	3495	c.3347G>T	c.(3346-3348)GGG>GTG	p.G1116V	TECPR2_uc010awl.2_Missense_Mutation_p.G1116V|TECPR2_uc010txx.1_Missense_Mutation_p.G279V	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1116							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GTTCCCCGTGGGACAGCTTCT	0.463													8	89					3.09899e-07	3.2184e-07	1	1	0		T	102916927	T	T	102916927	3	4	155	1	0	0	0	0	1	0	0	0	15769	1232	43	5	3401	5	TECPR2	14	102916927	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	444491	102916927	4432613	1075	84902											
PPP1R13B	23368	broad.mit.edu	37	chr14	104204115	104204115	+	Missense_Mutation	SNP	A	C	C	1	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	ttcaatgtcgcttatggttgAggcaaaaatggcggcaccac	11	10	11	9	2	1	1	1	1	0	0	2	1	1	1	1	4	0	4	1	4	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:104204115A>C	uc001yof.1	-	15	3230	c.2947T>G	c.(2947-2949)TCA>GCA	p.S983A	PPP1R13B_uc010awv.1_Intron	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	983	ANK 2.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				CTTATGGTTGAGGCAAAAATG	0.552													12	37					0	0	1	0	0		C	104204115	C	C	104204115	3	2	155	1	0	0	0	0	1	0	0	0	12379	304	11	5	337	5	PPP1R13B	14	104204115	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1287188	104204115	3145425	1076	84903											
INF2	64423	broad.mit.edu	37	chr14	105178032	105178032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaacagccctcgcaagcaGcagggtaggtagctcctgcc	9	6	13	13	1	0	0	0	0	0	0	2	1	1	1	3	3	6	6	3	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:105178032G>A	uc001ypb.2	+	16	2628	c.2485G>A	c.(2485-2487)GCA>ACA	p.A829T	INF2_uc010tyi.1_Missense_Mutation_p.A829T|INF2_uc001ypc.2_Missense_Mutation_p.A829T|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	829	FH2.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		CTCGCAAGCAGCAGGGTAGGT	0.667													19	21					0	0	1	0	0		A	105178032	A	A	105178032	3	1	155	1	0	0	0	0	1	0	0	0	7750	971	34	2	2547	2	INF2	14	105178032	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	973917	105178032	2171508	1077	84904											
AHNAK2	113146	broad.mit.edu	37	chr14	105406621	105406621	+	Frame_Shift_Del	DEL	C	-	-																															tttctgtgtcttgaaagctaCcccctgctgtggcactagaa																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:105406621delC	uc010axc.1	-	7	15287	c.15167delG	c.(15166-15168)GGTfs	p.G5056fs	AHNAK2_uc001ypx.2_Frame_Shift_Del_p.G4956fs	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5056						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TTGAAAGCTACCCCCTGCTGT	0.547													70	140	---	---	---	---						.	-	105406621	-	-	105406621	7	5	155	1	0	1	0	1	0	0	0	0	415	507	18	0	2224	0	AHNAK2	14	105406621	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	228589	105406621	1942919	1078	84905											
AHNAK2	113146	broad.mit.edu	37	chr14	105418613	105418613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttcacatccacctggtcagCctggaccttcaggtcagtag	8	10	9	14	0	4	0	4	0	0	0	5	1	5	1	4	3	1	1	4	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:105418613C>T	uc010axc.1	-	7	3295	c.3175G>A	c.(3175-3177)GCT>ACT	p.A1059T	AHNAK2_uc001ypx.2_Missense_Mutation_p.A959T	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1059						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			ACCTGGTCAGCCTGGACCTTC	0.612													94	120					0	0	1	0	0		T	105418613	T	T	105418613	3	4	155	1	0	0	0	0	1	0	0	0	415	739	26	2	14216	2	AHNAK2	14	105418613	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	11992	105418613	1930927	1079	84906											
AHNAK2	113146	broad.mit.edu	37	chr14	105419812	105419812	+	Frame_Shift_Del	DEL	T	-	-																															tttctgtcagaatttgttccTtttttaagcgtttttcatcg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:105419812delT	uc010axc.1	-	7	2096	c.1976delA	c.(1975-1977)AAGfs	p.K659fs	AHNAK2_uc001ypx.2_Frame_Shift_Del_p.K559fs	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	659						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			AATTTGTTCCTTTTTTAAGCG	0.423													237	335	---	---	---	---						.	-	105419812	-	-	105419812	7	5	155	1	0	1	0	1	0	0	0	0	415	1609	56	0	15415	0	AHNAK2	14	105419812	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	1199	105419812	1929728	1080	84907											
PACS2	23241	broad.mit.edu	37	chr14	105818792	105818794	+	In_Frame_Del	DEL	CTT	-	-																															gagacagacctggccctgacCttctccttgcaggtgagtct																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:105818792_105818794delCTT	uc001yqt.2	+	3	460_462	c.285_287delCTT	c.(283-288)ACCTTC>ACC	p.F96del	PACS2_uc001yqs.2_In_Frame_Del_p.F29del|PACS2_uc001yqv.2_In_Frame_Del_p.F96del|PACS2_uc001yqu.2_In_Frame_Del_p.F96del	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	96					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		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)		TGGCCCTGACCTTCTCCTTGCAG	0.606											OREG0022968	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	63	130	---	---	---	---						.	-	105818794	-	-	105818792	7	5	155	1	0	1	0	1	0	0	0	0	11392	668	24	0	295	0	PACS2	14	105818792	In_Frame_Del	DEL	CTT	TCGA-CG-5726-01A-11D-1600-08	398980	105818792	1530748	1081	84908											
PACS2	23241	broad.mit.edu	37	chr14	105849842	105849842	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctacatgcgcttcctggtcaTcccactgggtgagcaccacg	7	9	10	15	2	1	1	1	1	0	0	3	1	3	1	3	2	3	2	3	2	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr14:105849842T>A	uc001yqt.2	+	16	1935	c.1760T>A	c.(1759-1761)ATC>AAC	p.I587N	PACS2_uc001yqs.2_Missense_Mutation_p.I512N|PACS2_uc001yqv.2_Missense_Mutation_p.I591N|PACS2_uc001yqu.2_Missense_Mutation_p.I591N	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	587					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		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)		TTCCTGGTCATCCCACTGGGT	0.507													10	17					0	0	1	0	0		A	105849842	A	A	105849842	3	1	155	1	0	0	0	0	1	0	0	0	11392	1435	50	5	1834	5	PACS2	14	105849842	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	31050	105849842	1499698	1082	84909											
HERC2	8924	broad.mit.edu	37	chr15	28443768	28443768	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tataagttccacatgaatgtAcctaacccagtaggtgcccc	12	10	7	12	0	0	1	0	1	0	0	1	1	1	1	5	1	3	3	5	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:28443768A>T	uc001zbj.2	-	49	7970	c.7864T>A	c.(7864-7866)TAC>AAC	p.Y2622N	HERC2_uc001zbk.1_Missense_Mutation_p.Y157N	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2622					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACATGAATGTACCTAACCCAG	0.398													75	125					0	0	1	0	0		T	28443768	T	T	28443768	3	4	155	1	0	0	0	0	1	0	0	0	7074	391	14	5	6820	5	HERC2	15	28443768	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08		28443768	74087624	1083	84910											
HERC2	8924	broad.mit.edu	37	chr15	28446681	28446681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtacgtctggctctccGtcacaacagcaccagtagac	9	11	8	13	2	3	1	1	0	2	1	4	1	3	1	2	1	3	4	2	1	3	4	rs138887223		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:28446681G>A	uc001zbj.2	-	48	7743	c.7637C>T	c.(7636-7638)ACG>ATG	p.T2546M	HERC2_uc001zbk.1_Missense_Mutation_p.T81M	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2546					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CTGGCTCTCCGTCACAACAGC	0.353													67	109					0	0	1	0	0		A	28446681	A	A	28446681	3	1	155	1	0	0	0	0	1	0	0	0	7074	1145	40	1	7051	1	HERC2	15	28446681	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2913	28446681	74084711	1084	84911											
APBA2	321	broad.mit.edu	37	chr15	29406137	29406137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcgtccgtgtgggccaccGcatcatcgagatcaacgggc	7	6	15	13	5	2	1	2	0	0	1	4	2	3	1	3	3	1	1	3	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:29406137G>A	uc001zck.2	+	13	2303	c.2096G>A	c.(2095-2097)CGC>CAC	p.R699H	APBA2_uc010uat.1_Missense_Mutation_p.R687H|APBA2_uc001zcl.2_Missense_Mutation_p.R687H	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	699	PDZ 2.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		GTGGGCCACCGCATCATCGAG	0.607													29	44					0	0	1	0	0		A	29406137	A	A	29406137	3	1	155	1	0	0	0	0	1	0	0	0	757	1087	38	1	2138	1	APBA2	15	29406137	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	959456	29406137	73125255	1085	84912											
FMN1	342184	broad.mit.edu	37	chr15	33359153	33359153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggacttctgcacaggctgCgtcaatttgagcaaagctaa	13	9	10	9	1	2	1	1	1	1	0	2	2	2	2	0	2	4	4	0	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:33359153C>T	uc001zhf.3	-	1	933	c.933G>A	c.(931-933)ACG>ACA	p.T311T	FMN1_uc001zhg.2_Silent_p.T311T	NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		GCACAGGCTGCGTCAATTTGA	0.547													34	45					0	0	1	0	0		T	33359153	T	T	33359153	2	4	155	1	0	0	0	0	0	0	0	1	5963	755	27	1		1	FMN1	15	33359153	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3953016	33359153	69172239	1086	84913											
RYR3	6263	broad.mit.edu	37	chr15	34049794	34049794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taaggagaaagaaatggtggCcgggtgagtctacaagataa	16	7	14	4	1	1	4	0	1	1	3	1	5	1	4	1	4	1	0	1	4	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:34049794C>T	uc001zhi.2	+	60	8772	c.8702C>T	c.(8701-8703)GCC>GTC	p.A2901V	RYR3_uc010bar.2_Missense_Mutation_p.A2901V	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2901	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GAAATGGTGGCCGGGTGAGTC	0.483													3	12					0	0	1	0	0		T	34049794	T	T	34049794	3	4	155	1	0	0	0	0	1	0	0	0	13795	739	26	2	8940	2	RYR3	15	34049794	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	690641	34049794	68481598	1087	84914											
C15orf29	79768	broad.mit.edu	37	chr15	34445168	34445168	+	Frame_Shift_Del	DEL	T	-	-																															cccccacttccaggggactgTttttttctgtaacaaggatt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:34445168delT	uc001zhp.2	-	4	421	c.261delA	c.(259-261)AAAfs	p.K87fs	C15orf29_uc010ubz.1_5'UTR|C15orf29_uc010uca.1_Frame_Shift_Del_p.K87fs	NM_024713	NP_078989	Q9H079	CO029_HUMAN	hypothetical protein LOC79768	87						nucleolus				ovary(1)	1		all_lung(180;1.86e-06)		all cancers(64;5.49e-18)|GBM - Glioblastoma multiforme(113;8.91e-07)|BRCA - Breast invasive adenocarcinoma(123;0.026)|Lung(196;0.229)		CAGGGGACTGTTTTTTTCTGT	0.423													147	275	---	---	---	---						.	-	34445168	-	-	34445168	7	5	155	1	0	1	0	1	0	0	0	0	1792	1722	60	0	681	0	C15orf29	15	34445168	Frame_Shift_Del	DEL	T	TCGA-CG-5726-01A-11D-1600-08	395374	34445168	68086224	1088	84915											
AQR	9716	broad.mit.edu	37	chr15	35182476	35182476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccaagacgcagtaggtggCgctcatcaatgtctaatgcc	11	8	11	11	2	3	1	2	0	1	1	3	2	3	1	2	2	1	3	2	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:35182476C>T	uc001ziv.2	-	24	2802	c.2621G>A	c.(2620-2622)CGC>CAC	p.R874H		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	874						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		CAGTAGGTGGCGCTCATCAAT	0.433													40	260					0	0	1	0	0		T	35182476	T	T	35182476	3	4	155	1	0	0	0	0	1	0	0	0	835	768	27	1	1884	1	AQR	15	35182476	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	737308	35182476	67348916	1089	84916											
RASGRP1	10125	broad.mit.edu	37	chr15	38786607	38786607	+	Silent	SNP	C	T	T	0	0	0	1	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	tccagttcttggtaggtaggCagtctgaggtgacggagctc	7	11	15	8	1	2	2	0	2	2	0	4	3	3	3	1	5	1	5	1	5	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:38786607C>T	uc001zke.3	-	16	2413	c.2235G>A	c.(2233-2235)CTG>CTA	p.L745L	RASGRP1_uc010bbe.2_RNA|RASGRP1_uc010bbf.2_Intron|RASGRP1_uc010bbg.2_Intron|RASGRP1_uc001zkd.3_Silent_p.L710L	NM_005739	NP_005730	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 isoform a	745	PT region; mediates the BCR-dependent translocation to plasma membrane (By similarity).				cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			large_intestine(1)|ovary(1)	2		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		GGTAGGTAGGCAGTCTGAGGT	0.468													19	35					0	0	1	0	0		T	38786607	T	T	38786607	2	4	155	1	0	0	0	0	0	0	0	1	13099	697	25	2		2	RASGRP1	15	38786607	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3604131	38786607	63744785	1090	84917											
BMF	90427	broad.mit.edu	37	chr15	40396430	40396430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcaatgcactgaagctttCgggcaatctgtacctctgct	8	12	9	12	1	2	1	0	1	2	0	3	1	2	1	1	1	5	6	1	1	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:40396430C>T	uc001zkv.2	-	3	490	c.404G>A	c.(403-405)CGA>CAA	p.R135Q	BMF_uc001zkt.2_Intron|BMF_uc001zku.2_Intron|BMF_uc001zkw.2_Missense_Mutation_p.R135Q	NM_033503	NP_277038	Q96LC9	BMF_HUMAN	Bcl2 modifying factor isoform bmf-1	135	BH3.				activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria	cytosol|mitochondrial outer membrane|myosin complex|plasma membrane	protein binding			ovary(1)	1		all_cancers(109;4.18e-18)|all_epithelial(112;6.15e-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;1.29e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0516)		CTGAAGCTTTCGGGCAATCTG	0.597													45	264					0	0	1	0	0		T	40396430	T	T	40396430	3	4	155	1	0	0	0	0	1	0	0	0	1455	884	31	1	158	1	BMF	15	40396430	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1609823	40396430	62134962	1091	84918											
BUB1B	701	broad.mit.edu	37	chr15	40504822	40504822	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggctgtattgtttggcaCcaatatataaactgcttcac	11	14	8	8	0	1	0	1	0	0	0	1	1	1	0	1	2	2	5	1	2	6	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:40504822C>T	uc001zkx.3	+	19	2720	c.2508C>T	c.(2506-2508)CAC>CAT	p.H836H		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	836	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-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;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		TTGTTTGGCACCAATATATAA	0.328			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				5	145					0	0	1	0	0		T	40504822	T	T	40504822	2	4	155	1	0	0	0	0	0	0	0	1	1574	506	18	4		4	BUB1B	15	40504822	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	108392	40504822	62026570	1092	84919											
VPS18	57617	broad.mit.edu	37	chr15	41191717	41191717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcttccagttcataggccGagcagcagagggggctgagg	8	7	15	11	1	2	2	1	1	1	1	3	3	3	2	3	4	2	4	3	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:41191717G>A	uc001zne.2	+	4	1040	c.701G>A	c.(700-702)CGA>CAA	p.R234Q		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	234					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		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)		TTCATAGGCCGAGCAGCAGAG	0.627													80	103					0	0	1	0	0		A	41191717	A	A	41191717	3	1	155	1	0	0	0	0	1	0	0	0	17220	1058	37	1	715	1	VPS18	15	41191717	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	686895	41191717	61339675	1093	84920											
VPS18	57617	broad.mit.edu	37	chr15	41192111	41192111	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcctggagaaatttgggccGctgaagcacatggtgaagga	11	9	14	7	1	0	3	0	2	0	1	1	5	1	4	2	4	1	2	2	4	3	2	rs140464667	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:41192111G>A	uc001zne.2	+	4	1434	c.1095G>A	c.(1093-1095)CCG>CCA	p.P365P		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	365					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		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)		AATTTGGGCCGCTGAAGCACA	0.617													5	84					0	0	1	0	0		A	41192111	A	A	41192111	2	1	155	1	0	0	0	0	0	0	0	1	17220	1074	38	1		1	VPS18	15	41192111	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	394	41192111	61339281	1094	84921											
VPS18	57617	broad.mit.edu	37	chr15	41192635	41192635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagtggctctttgccagccGggcctctatccatgagctgc	6	10	12	13	1	2	2	0	1	2	1	3	2	3	2	4	2	4	2	4	2	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:41192635G>A	uc001zne.2	+	4	1958	c.1619G>A	c.(1618-1620)CGG>CAG	p.R540Q		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	540					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		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)		TTTGCCAGCCGGGCCTCTATC	0.577													46	85					0	0	1	0	0		A	41192635	A	A	41192635	3	1	155	1	0	0	0	0	1	0	0	0	17220	1116	39	1	1633	1	VPS18	15	41192635	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	524	41192635	61338757	1095	84922											
RTF1	23168	broad.mit.edu	37	chr15	41770764	41770764	+	Frame_Shift_Del	DEL	A	-	-																															aggctgaaagtcacaacatgAaaaaccaacagatggatccc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:41770764delA	uc001zny.2	+	15	1771	c.1759delA	c.(1759-1761)AAAfs	p.K587fs		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	587					histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		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)		TCACAACATGAAAAACCAACA	0.468													141	255	---	---	---	---						.	-	41770764	-	-	41770764	7	5	155	1	0	1	0	1	0	0	0	0	13746	247	9	0	1817	0	RTF1	15	41770764	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	578129	41770764	60760628	1096	84923											
MGA	23269	broad.mit.edu	37	chr15	42041783	42041783	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcaagaaacgaagaaggTtctacagtcagaaggagagg	18	4	14	5	1	2	5	1	0	1	5	2	7	2	5	0	3	3	2	0	3	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:42041783T>G	uc010ucy.1	+	17	6159	c.5978T>G	c.(5977-5979)GTT>GGT	p.V1993G	MGA_uc010ucz.1_Missense_Mutation_p.V1784G|MGA_uc010uda.1_Missense_Mutation_p.V609G|MGA_uc001zoi.2_Missense_Mutation_p.V207G	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	1954	Basic motif.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		ACGAAGAAGGTTCTACAGTCA	0.413													44	73					0	0	1	0	0		G	42041783	G	G	42041783	3	3	155	1	0	0	0	0	1	0	0	0	9558	1725	60	5	6040	5	MGA	15	42041783	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	271019	42041783	60489609	1097	84924											
ZFP106	64397	broad.mit.edu	37	chr15	42734523	42734523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggagtgggcagcagtgcggCatcaatggatgtttgagatc	9	9	17	6	1	1	1	1	1	0	1	2	4	1	3	0	4	2	4	0	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:42734523C>T	uc001zpw.2	-	7	3777	c.3442G>A	c.(3442-3444)GCC>ACC	p.A1148T	ZFP106_uc001zpu.2_Missense_Mutation_p.A333T|ZFP106_uc001zpv.2_Missense_Mutation_p.A333T|ZFP106_uc001zpx.2_Missense_Mutation_p.A376T	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1148						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		AGCAGTGCGGCATCAATGGAT	0.507													5	152					0	0	1	0	0		T	42734523	T	T	42734523	3	4	155	1	0	0	0	0	1	0	0	0	17662	710	25	2	2261	2	ZFP106	15	42734523	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	692740	42734523	59796869	1098	84925											
MAP1A	4130	broad.mit.edu	37	chr15	43819801	43819801	+	Frame_Shift_Del	DEL	C	-	-																															ccctggcaggacccactgtaCccccaaggccagagccaggg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:43819801delC	uc001zrt.2	+	4	6597	c.6130delC	c.(6130-6132)CCCfs	p.P2044fs		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	2044						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	ACCCACTGTACCCCCAAGGCC	0.607													39	81	---	---	---	---						.	-	43819801	-	-	43819801	7	5	155	1	0	1	0	1	0	0	0	0	9245	507	18	0	6132	0	MAP1A	15	43819801	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	1085278	43819801	58711591	1099	84926											
SERINC4	619189	broad.mit.edu	37	chr15	44087241	44087241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggggatatgatgcggtggCggcggcgcctcaagataagg	8	7	18	8	4	1	2	1	1	0	1	1	3	1	3	1	7	1	0	1	7	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:44087241C>T	uc010bds.1	-	9	1250	c.782G>A	c.(781-783)CGC>CAC	p.R261H	ELL3_uc001zsx.1_Intron|SERF2_uc010uee.1_3'UTR|C15orf63_uc001ztb.2_Intron|SERF2_uc001zsz.3_3'UTR|MIR1282_hsa-mir-1282|MI0006429_5'Flank|SERINC4_uc001ztc.1_RNA|SERINC4_uc001ztd.1_3'UTR|SERINC4_uc001zte.1_Missense_Mutation_p.R261H	NM_001033517	NP_001028689	A6NH21	SERC4_HUMAN	serine incorporator 4	505					phospholipid biosynthetic process	integral to membrane					0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		GBM - Glioblastoma multiforme(94;7.81e-07)		GATGCGGTGGCGGCGGCGCCT	0.557													43	72					0	0	1	0	0		T	44087241	T	T	44087241	3	4	155	1	0	0	0	0	1	0	0	0	14107	768	27	1	46	1	SERINC4	15	44087241	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	267440	44087241	58444151	1100	84927											
MFAP1	4236	broad.mit.edu	37	chr15	44105302	44105302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catccaatgcagccagggatCgcttgttctcttccagctct	7	12	8	14	1	2	0	0	0	2	0	6	1	4	1	3	1	3	4	3	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:44105302C>T	uc001zth.1	-	6	954	c.770G>A	c.(769-771)CGA>CAA	p.R257Q		NM_005926	NP_005917	P55081	MFAP1_HUMAN	microfibrillar-associated protein 1	257						microfibril				skin(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.33e-07)		AGCCAGGGATCGCTTGTTCTC	0.438													14	546					0	0	1	0	0		T	44105302	T	T	44105302	3	4	155	1	0	0	0	0	1	0	0	0	9531	884	31	1	565	1	MFAP1	15	44105302	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	18061	44105302	58426090	1101	84928											
C15orf43	145645	broad.mit.edu	37	chr15	45249094	45249094	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgtgctcttacctccacagTggctgaagggggaacgatca	9	9	12	11	1	2	1	1	1	1	0	3	3	3	2	2	3	3	2	2	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:45249094T>C	uc001zuk.2	+	2	82	c.65T>C	c.(64-66)GTG>GCG	p.V22A		NM_152448	NP_689661	Q8NHR7	CO043_HUMAN	hypothetical protein LOC145645	22											0		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)		ACCTCCACAGTGGCTGAAGGG	0.602													11	91					0	0	1	0	0		C	45249094	C	C	45249094	3	2	155	1	0	0	0	0	1	0	0	0	1800	1710	59	3	71	3	C15orf43	15	45249094	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1143792	45249094	57282298	1102	84929											
CEP152	22995	broad.mit.edu	37	chr15	49030679	49030679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtatggagtttgataacGctgacatttcattgtttgac	10	15	10	6	1	1	3	1	3	0	0	1	4	1	4	0	2	1	4	0	2	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:49030679G>A	uc001zwy.2	-	26	4766	c.4732C>T	c.(4732-4734)CGT>TGT	p.R1578C	CEP152_uc001zwz.2_Missense_Mutation_p.R1634C	NM_014985	NP_055800	O94986	CE152_HUMAN	centrosomal protein 152kDa	1578					centrosome duplication|G2/M transition of mitotic cell cycle	centrosome|cytosol	protein kinase binding			lung(2)	2		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		GTTTGATAACGCTGACATTTC	0.383													9	288					0	0	1	0	0		A	49030679	A	A	49030679	3	1	155	1	0	0	0	0	1	0	0	0	3251	1087	38	1	236	1	CEP152	15	49030679	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3781585	49030679	53500713	1103	84930											
HDC	3067	broad.mit.edu	37	chr15	50534778	50534778	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttggtggcatctggggcCtcttctgaaaagcagtcatc	7	12	12	10	0	4	1	1	1	3	0	5	1	4	1	1	4	2	3	1	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:50534778C>T	uc001zxz.2	-	12	1774	c.1668G>A	c.(1666-1668)GAG>GAA	p.E556E	HDC_uc001zxy.2_Silent_p.E299E|HDC_uc010uff.1_Silent_p.E523E	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	556					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	CATCTGGGGCCTCTTCTGAAA	0.537													76	120					0	0	1	0	0		T	50534778	T	T	50534778	2	4	155	1	0	0	0	0	0	0	0	1	7031	680	24	4		4	HDC	15	50534778	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1504099	50534778	51996614	1104	84931											
TRPM7	54822	broad.mit.edu	37	chr15	50867312	50867312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggtgaactctcttccaaacGatacactgtgacaggctccc	10	9	9	13	1	1	2	0	2	1	0	4	3	3	2	2	2	3	1	2	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:50867312G>A	uc001zyt.3	-	34	5020	c.4756C>T	c.(4756-4758)CGT>TGT	p.R1586C	TRPM7_uc001zyr.2_Missense_Mutation_p.R23C	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	1586	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		TCTTCCAAACGATACACTGTG	0.363													5	150					0	0	1	0	0		A	50867312	A	A	50867312	3	1	155	1	0	0	0	0	1	0	0	0	16617	1058	37	1	865	1	TRPM7	15	50867312	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	332534	50867312	51664080	1105	84932											
CYP19A1	1588	broad.mit.edu	37	chr15	51504657	51504657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcatcttctaaggctttgcGcatgaccaagtccacgacag	11	10	8	12	2	3	1	1	1	2	0	4	2	4	1	2	1	1	2	2	1	2	3	rs121434536		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:51504657G>A	uc001zyz.3	-	10	1374	c.1123C>T	c.(1123-1125)CGC>TGC	p.R375C	CYP19A1_uc001zza.3_Missense_Mutation_p.R375C|CYP19A1_uc001zzb.2_Missense_Mutation_p.R375C	NM_031226	NP_112503	P11511	CP19A_HUMAN	cytochrome P450, family 19	375			R -> L.|R -> C (in AROD).		estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			skin(3)	3				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	AAGGCTTTGCGCATGACCAAG	0.408													93	170					0	0	1	0	0		A	51504657	A	A	51504657	3	1	155	1	0	0	0	0	1	0	0	0	4151	1087	38	1	396	1	CYP19A1	15	51504657	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	637345	51504657	51026735	1106	84933											
LEO1	123169	broad.mit.edu	37	chr15	52244164	52244164	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctatgtgtggcactgtcCgtagagtgaggtctgccagg	6	13	14	8	1	2	2	0	1	2	1	3	2	3	2	2	3	1	2	2	3	2	3	rs142218056		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:52244164C>T	uc002abo.2	-	9	1504	c.1488G>A	c.(1486-1488)ACG>ACA	p.T496T	LEO1_uc010bfd.2_Silent_p.T436T	NM_138792	NP_620147	Q8WVC0	LEO1_HUMAN	Leo1, Paf1/RNA polymerase II complex component,	496					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding				0				all cancers(107;0.00264)		TGGCACTGTCCGTAGAGTGAG	0.448													75	117					0	0	1	0	0		T	52244164	T	T	52244164	2	4	155	1	0	0	0	0	0	0	0	1	8742	639	23	1		1	LEO1	15	52244164	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	739507	52244164	50287228	1107	84934											
MYO5A	4644	broad.mit.edu	37	chr15	52606371	52606371	+	Silent	SNP	T	C	C	0	1	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	ctttcttcaaactcattaacTggagtatacaaattcaacac	15	13	3	10	0	4	0	3	0	1	0	4	1	4	1	0	1	4	1	0	1	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:52606371T>C	uc002aby.2	-	40	5608	c.5364A>G	c.(5362-5364)CCA>CCG	p.P1788P	MYO5A_uc002abx.3_Silent_p.P1761P|MYO5A_uc010ugd.1_Silent_p.P510P	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1788	Dilute.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		ACTCATTAACTGGAGTATACA	0.348													41	83					0	0	1	0	0		C	52606371	C	C	52606371	2	2	155	1	0	0	0	0	0	0	0	1	10096	1567	55	3		3	MYO5A	15	52606371	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	362207	52606371	49925021	1108	84935											
UNC13C	440279	broad.mit.edu	37	chr15	54586261	54586261	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggatgtctggtacaacttAggtgatttttttttttatct	8	21	8	4	0	2	1	0	1	2	0	2	2	2	2	0	3	2	1	0	3	4	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:54586261A>C	uc002ack.2	+	9	3987	c.3987A>C	c.(3985-3987)TTA>TTC	p.L1329F	UNC13C_uc002acl.2_Missense_Mutation_p.L159F	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1329					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GGTACAACTTAGGTGATTTTT	0.353													12	218					0	0	1	0	0		C	54586261	C	C	54586261	3	2	155	1	0	0	0	0	1	0	0	0	17012	434	15	5	4021	5	UNC13C	15	54586261	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1979890	54586261	47945131	1109	84936											
TLN2	83660	broad.mit.edu	37	chr15	63044602	63044602	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	attgcatccaaggctctctgTgggctgacagaggctgcagc	8	9	13	11	0	1	2	0	1	1	1	3	2	2	2	1	3	3	5	1	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:63044602T>A	uc002alb.3	+	32	4308	c.4308T>A	c.(4306-4308)TGT>TGA	p.C1436*	TLN2_uc002alc.3_5'UTR	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1436					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AGGCTCTCTGTGGGCTGACAG	0.597													39	55					0	0	1	0	0		A	63044602	A	A	63044602	4	1	155	1	0	0	0	0	0	1	0	0	15973	1702	59	5	4434	5	TLN2	15	63044602	Nonsense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	8458341	63044602	39486790	1110	84937											
TLN2	83660	broad.mit.edu	37	chr15	63053883	63053883	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttttctcccatcaggccCtggatggggatttctctgaa	6	14	10	11	0	3	1	1	1	2	0	5	3	3	3	2	4	0	1	2	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:63053883C>A	uc002alb.3	+	35	4642	c.4642C>A	c.(4642-4644)CTG>ATG	p.L1548M	TLN2_uc002alc.3_Translation_Start_Site|TLN2_uc002ald.2_Translation_Start_Site	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1548					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						CCATCAGGCCCTGGATGGGGA	0.493													11	173					1.58986e-06	1.64296e-06	1	1	0		A	63053883	A	A	63053883	3	1	155	1	0	0	0	0	1	0	0	0	15973	680	24	5	4780	5	TLN2	15	63053883	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	9281	63053883	39477509	1111	84938											
TPM1	7168	broad.mit.edu	37	chr15	63356328	63356328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctggaccacgctctcaacGatatgacttccatgtaaacg	12	9	8	12	3	1	1	1	1	1	0	3	3	2	2	2	1	3	3	2	1	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:63356328G>A	uc002alg.2	+	9	1029	c.838G>A	c.(838-840)GAT>AAT	p.D280N	TPM1_uc002alh.2_Missense_Mutation_p.D280N|TPM1_uc010bgn.2_Intron|TPM1_uc002ali.2_Intron|TPM1_uc002alj.2_Intron|TPM1_uc002alk.2_Intron|TPM1_uc002all.2_Intron|TPM1_uc002alm.2_Intron|TPM1_uc010uie.1_Missense_Mutation_p.D280N|TPM1_uc002alp.2_Missense_Mutation_p.D280N|TPM1_uc002alr.2_Intron|TPM1_uc002als.2_Intron|TPM1_uc010uig.1_Intron|TPM1_uc002alt.2_Intron|TPM1_uc010bgp.2_Intron	NM_001018005	NP_001018005	P09493	TPM1_HUMAN	tropomyosin 1 alpha chain isoform 1	280	By similarity.				cardiac muscle contraction|cellular component movement|cellular response to reactive oxygen species|muscle filament sliding|negative regulation of cell migration|positive regulation of ATPase activity|positive regulation of cell adhesion|positive regulation of heart rate by epinephrine|positive regulation of stress fiber assembly|regulation of muscle contraction|ruffle organization|sarcomere organization|ventricular cardiac muscle tissue morphogenesis|wound healing	bleb|cytosol|muscle thin filament tropomyosin|ruffle membrane|stress fiber	actin binding|structural constituent of cytoskeleton|structural constituent of muscle				0						CGCTCTCAACGATATGACTTC	0.498													13	19					0	0	1	0	0		A	63356328	A	A	63356328	3	1	155	1	0	0	0	0	1	0	0	0	16431	1058	37	1	1218	1	TPM1	15	63356328	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	302445	63356328	39175064	1112	84939											
ZNF609	23060	broad.mit.edu	37	chr15	64792134	64792134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagcaagaaggagagaagCgaaggagtggggacttgttc	15	5	17	4	1	0	3	0	0	0	3	1	8	0	6	0	4	2	2	0	4	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:64792134C>T	uc002ann.2	+	1	516	c.516C>T	c.(514-516)AGC>AGT	p.S172S	ZNF609_uc010bgy.2_Silent_p.S172S	NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	172						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						AGGAGAGAAGCGAAGGAGTGG	0.557													4	35					0	0	1	0	0		T	64792134	T	T	64792134	2	4	155	1	0	0	0	0	0	0	0	1	18060	767	27	1		1	ZNF609	15	64792134	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1435806	64792134	37739258	1113	84940											
PIF1	80119	broad.mit.edu	37	chr15	65110214	65110214	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccgactgaggagctggccCccggtggcctgcaccgtcca	5	6	14	16	3	0	1	0	1	0	0	1	3	1	2	6	4	3	2	6	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:65110214C>T	uc002ant.2	-	11	1671	c.1605G>A	c.(1603-1605)GGG>GGA	p.G535G	PIF1_uc002anr.2_Silent_p.G83G|PIF1_uc002ans.2_Silent_p.G226G|PIF1_uc010uiq.1_Silent_p.G535G	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	535	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						GGAGCTGGCCCCCGGTGGCCT	0.667													10	5					0	0	1	0	0		T	65110214	T	T	65110214	2	4	155	1	0	0	0	0	0	0	0	1	11902	610	22	4		4	PIF1	15	65110214	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	318080	65110214	37421178	1114	84941											
IGDCC3	9543	broad.mit.edu	37	chr15	65621335	65621335	+	Frame_Shift_Del	DEL	G	-	-																															ggaggccagggcctccatctGggggtggtggggcagccgcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:65621335delG	uc002aos.2	-	14	2609	c.2357delC	c.(2356-2358)CCAfs	p.P786fs	IGDCC3_uc002aor.1_Frame_Shift_Del_p.P72fs	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	786	Poly-Pro.|Cytoplasmic (Potential).									ovary(3)	3						GCCTCCATCTGGGGGTGGTGG	0.697													12	14	---	---	---	---						.	-	65621335	-	-	65621335	7	5	155	1	0	1	0	1	0	0	0	0	7584	1348	47	0	91	0	IGDCC3	15	65621335	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	511121	65621335	36910057	1115	84942											
CORO2B	10391	broad.mit.edu	37	chr15	69011561	69011561	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccggatgaatggctgggaGgcatcaaccgaggtaccaca	11	5	13	12	2	1	1	1	1	0	0	1	4	1	3	4	5	2	3	4	5	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:69011561G>T	uc002arj.3	+	10	1188	c.1159G>T	c.(1159-1161)GGC>TGC	p.G387C	CORO2B_uc010bic.2_Missense_Mutation_p.G382C|CORO2B_uc002ark.2_Missense_Mutation_p.G154C	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	387					actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						ATGGCTGGGAGGCATCAACCG	0.602													36	60					4.3949e-29	4.81566e-29	1	1	0		T	69011561	T	T	69011561	3	4	155	1	0	0	0	0	1	0	0	0	3760	1000	35	5	1197	5	CORO2B	15	69011561	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3390226	69011561	33519831	1116	84943											
KIF23	9493	broad.mit.edu	37	chr15	69733281	69733281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagtcacatctattgcaaggCgtaggcagcaggagccagga	13	6	13	9	1	2	0	1	0	1	0	2	2	2	2	1	4	3	4	1	4	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:69733281C>T	uc002asb.2	+	18	2359	c.2242C>T	c.(2242-2244)CGT>TGT	p.R748C	KIF23_uc002asc.2_Intron|KIF23_uc010bii.2_Missense_Mutation_p.R638C|KIF23_uc010ukc.1_Intron	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	748					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						TATTGCAAGGCGTAGGCAGCA	0.483													38	41					0	0	1	0	0		T	69733281	T	T	69733281	3	4	155	1	0	0	0	0	1	0	0	0	8307	768	27	1	2312	1	KIF23	15	69733281	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	721720	69733281	32798111	1117	84944											
ARIH1	25820	broad.mit.edu	37	chr15	72873215	72873215	+	Silent	SNP	T	C	C	0	1	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	cagcacaacatgtcctggatTgaggtgcagttcctgaagaa	12	9	11	9	0	0	3	0	2	0	1	2	4	2	4	2	2	3	3	2	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:72873215T>C	uc002aut.3	+	12	1673	c.1359T>C	c.(1357-1359)ATT>ATC	p.I453I		NM_005744	NP_005735	Q9Y4X5	ARI1_HUMAN	ariadne ubiquitin-conjugating enzyme E2 binding	453					ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding				0						TGTCCTGGATTGAGGTGCAGT	0.468													7	186					0	0	1	0	0		C	72873215	C	C	72873215	2	2	155	1	0	0	0	0	0	0	0	1	923	1800	63	3		3	ARIH1	15	72873215	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3139934	72873215	29658177	1118	84945											
ISLR	3671	broad.mit.edu	37	chr15	74467395	74467395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaaccggctgccaggcttgCcggagggtgccttcagggag	6	6	16	13	2	1	0	1	0	0	0	1	2	1	2	5	5	4	2	5	5	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:74467395C>A	uc002axg.1	+	2	478	c.196C>A	c.(196-198)CCG>ACG	p.P66T	ISLR_uc002axh.1_Missense_Mutation_p.P66T	NM_005545	NP_005536	O14498	ISLR_HUMAN	immunoglobulin superfamily containing	66	LRR 1.				cell adhesion	extracellular region				large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						GCCAGGCTTGCCGGAGGGTGC	0.667													18	90					6.94344e-10	7.27429e-10	1	1	0		A	74467395	A	A	74467395	3	1	155	1	0	0	0	0	1	0	0	0	7874	739	26	5	198	5	ISLR	15	74467395	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1594180	74467395	28063997	1119	84946											
CLK3	1198	broad.mit.edu	37	chr15	74920982	74920982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacctggtgatgatggagaAgatcctagggcccatcccat	10	8	12	11	0	0	4	0	2	0	2	2	5	2	4	4	3	0	1	4	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:74920982A>C	uc010uln.1	+	11	2068	c.1607A>C	c.(1606-1608)AAG>ACG	p.K536T	CLK3_uc002ayg.3_Missense_Mutation_p.K388T|CLK3_uc002ayh.3_Missense_Mutation_p.K167T|CLK3_uc002ayj.3_Missense_Mutation_p.K365T|CLK3_uc002ayk.3_Missense_Mutation_p.K315T|CLK3_uc002ayl.3_Missense_Mutation_p.K221T	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	536	Protein kinase.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						ATGATGGAGAAGATCCTAGGG	0.542													21	43					0	0	1	0	0		C	74920982	C	C	74920982	3	2	155	1	0	0	0	0	1	0	0	0	3541	72	3	5	1649	5	CLK3	15	74920982	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	453587	74920982	27610410	1120	84947											
SIN3A	25942	broad.mit.edu	37	chr15	75664509	75664509	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccatttatctacccaggcCtggaatctctgatgtagacg	9	12	9	11	1	2	2	0	1	2	1	4	3	3	3	3	2	1	1	3	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:75664509C>A	uc002bai.2	-	21	3892	c.3633G>T	c.(3631-3633)CAG>CAT	p.Q1211H	SIN3A_uc002baj.2_Missense_Mutation_p.Q1211H|SIN3A_uc010uml.1_Missense_Mutation_p.Q1211H	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1211					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						CTACCCAGGCCTGGAATCTCT	0.493													81	121					5.30062e-26	5.77402e-26	1	1	0		A	75664509	A	A	75664509	3	1	155	1	0	0	0	0	1	0	0	0	14350	680	24	5	192	5	SIN3A	15	75664509	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	743527	75664509	26866883	1121	84948											
NRG4	145957	broad.mit.edu	37	chr15	76301629	76301629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgggaccacagggctcttCgtgatctagaacacatacat	12	9	9	11	1	2	2	0	1	2	1	3	3	2	3	1	2	2	1	1	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:76301629C>T	uc002bbo.2	-	3	200	c.16G>A	c.(16-18)GAA>AAA	p.E6K	NRG4_uc010bkm.1_RNA|NRG4_uc002bbn.2_RNA|NRG4_uc010bkn.2_RNA|NRG4_uc010bko.2_RNA|NRG4_uc002bbp.2_RNA	NM_138573	NP_612640	Q8WWG1	NRG4_HUMAN	neuregulin 4	6	Extracellular (Potential).|EGF-like.					extracellular region|integral to membrane|plasma membrane	growth factor activity				0						CAGGGCTCTTCGTGATCTAGA	0.383													4	106					0	0	1	0	0		T	76301629	T	T	76301629	3	4	155	1	0	0	0	0	1	0	0	0	10669	893	31	1	347	1	NRG4	15	76301629	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	637120	76301629	26229763	1122	84949											
SGK269	79834	broad.mit.edu	37	chr15	77471360	77471360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctctgtgaaccagtgatggCgctgaactggaggaggaggc	9	7	16	9	1	1	3	0	3	1	0	1	6	1	6	2	5	2	1	2	5	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:77471360C>T	uc002bcm.2	-	3	3217	c.2909G>A	c.(2908-2910)CGC>CAC	p.R970H	SGK269_uc002bcn.2_Missense_Mutation_p.R970H	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	970					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CCAGTGATGGCGCTGAACTGG	0.537													13	78					0	0	1	0	0		T	77471360	T	T	77471360	3	4	155	1	0	0	0	0	1	0	0	0	14236	768	27	1	2347	1	SGK269	15	77471360	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1169731	77471360	25060032	1123	84950											
CHRNA3	1136	broad.mit.edu	37	chr15	78894269	78894269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtagaacaagggcaggcGccggatgtacagcgagtatg	11	6	17	7	3	0	1	0	0	0	1	0	3	0	2	1	4	3	4	1	4	5	3	rs61737495		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:78894269G>A	uc002bec.2	-	5	901	c.715C>T	c.(715-717)CGC>TGC	p.R239C	CHRNA3_uc002bea.2_RNA|CHRNA3_uc002beb.2_Missense_Mutation_p.R239C	NM_000743	NP_000734	P32297	ACHA3_HUMAN	cholinergic receptor, nicotinic, alpha 3	239	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|behavioral response to nicotine|locomotory behavior|regulation of acetylcholine secretion|regulation of dendrite morphogenesis|regulation of excitatory postsynaptic membrane potential|regulation of smooth muscle contraction|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|dendrite|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic density|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(3)|ovary(1)	4						AAGGGCAGGCGCCGGATGTAC	0.557													25	33					0	0	1	0	0		A	78894269	A	A	78894269	3	1	155	1	0	0	0	0	1	0	0	0	3387	1087	38	1	895	1	CHRNA3	15	78894269	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1422909	78894269	23637123	1124	84951											
KIAA1199	57214	broad.mit.edu	37	chr15	81176550	81176550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatccaagaaagagagtgaaCgtctggtccagtatttgaac	14	9	11	7	1	1	4	0	2	1	2	3	6	3	4	2	1	2	1	2	1	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:81176550C>T	uc002bfw.1	+	6	912	c.652C>T	c.(652-654)CGT>TGT	p.R218C	KIAA1199_uc010unn.1_Missense_Mutation_p.R218C	NM_018689	NP_061159	Q8WUJ3	K1199_HUMAN	KIAA1199 precursor	218										upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						AGAGAGTGAACGTCTGGTCCA	0.473													43	230					0	0	1	0	0		T	81176550	T	T	81176550	3	4	155	1	0	0	0	0	1	0	0	0	8229	536	19	1	670	1	KIAA1199	15	81176550	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2282281	81176550	21354842	1125	84952											
EFTUD1	79631	broad.mit.edu	37	chr15	82444436	82444436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaatcatgtgagtattttCaccctcattcaaagaggatg	13	13	8	7	0	4	3	4	2	0	1	4	4	4	4	1	1	0	1	1	1	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:82444436C>T	uc002bgt.1	-	18	2528	c.2359G>A	c.(2359-2361)GAA>AAA	p.E787K	EFTUD1_uc002bgs.1_Missense_Mutation_p.E158K|EFTUD1_uc002bgu.1_Missense_Mutation_p.E736K	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	787					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TGAGTATTTTCACCCTCATTC	0.423													67	125					0	0	1	0	0		T	82444436	T	T	82444436	3	4	155	1	0	0	0	0	1	0	0	0	4966	835	29	4	1015	4	EFTUD1	15	82444436	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1267886	82444436	20086956	1126	84953											
FSD2	123722	broad.mit.edu	37	chr15	83451733	83451733	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaagtgtttccaagatctcGttgtaatgtgactcaaagtt	11	14	9	7	1	2	2	1	1	1	1	4	2	3	2	1	0	0	5	1	0	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:83451733G>A	uc002bjd.2	-	4	947	c.780C>T	c.(778-780)AAC>AAT	p.N260N	FSD2_uc010uol.1_Silent_p.N260N|FSD2_uc010uom.1_Silent_p.N260N	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	260	Potential.									central_nervous_system(1)	1						CCAAGATCTCGTTGTAATGTG	0.383													146	227					0	0	1	0	0		A	83451733	A	A	83451733	2	1	155	1	0	0	0	0	0	0	0	1	6085	1136	40	1		1	FSD2	15	83451733	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1007297	83451733	19079659	1127	84954											
WHAMM	123720	broad.mit.edu	37	chr15	83499687	83499687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccccaccccctcctctcCgtgctctgtcctcatcctct	2	11	4	24	2	4	0	1	0	3	0	8	0	7	0	8	0	1	1	8	0	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:83499687C>T	uc002bje.2	+	9	2484	c.1978C>T	c.(1978-1980)CGT>TGT	p.R660C		NM_001080435	NP_001073904	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi	660						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding				0						CCCTCCTCTCCGTGCTCTGTC	0.368													17	21					0	0	1	0	0		T	83499687	T	T	83499687	3	4	155	1	0	0	0	0	1	0	0	0	17387	652	23	1	2012	1	WHAMM	15	83499687	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	47954	83499687	19031705	1128	84955											
KLHL25	64410	broad.mit.edu	37	chr15	86312998	86312998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgacgttcatggaccccGtgctgctccgcgacttgcgg	4	9	15	13	5	1	1	1	1	0	0	2	3	2	2	3	3	3	3	3	3	0	2	rs149329403	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:86312998G>A	uc002bly.2	-	2	247	c.44C>T	c.(43-45)ACG>ATG	p.T15M		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	15						cytoplasm				ovary(2)	2						CATGGACCCCGTGCTGCTCCG	0.622													25	37					0	0	1	0	0		A	86312998	A	A	86312998	3	1	155	1	0	0	0	0	1	0	0	0	8396	1145	40	1	1729	1	KLHL25	15	86312998	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2813311	86312998	16218394	1129	84956											
AEN	64782	broad.mit.edu	37	chr15	89173290	89173290	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgttggctctcgtcagtaggTgggccagcacgggcactcat	6	10	14	11	2	3	0	2	0	1	0	4	0	3	0	1	4	1	5	1	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:89173290T>C	uc002bmt.2	+	4	894	c.743T>C	c.(742-744)GTG>GCG	p.V248A	AEN_uc010bnm.1_Missense_Mutation_p.V248A	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	248	Exonuclease.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						CGTCAGTAGGTGGGCCAGCAC	0.617													14	40					0	0	1	0	0		C	89173290	C	C	89173290	3	2	155	1	0	0	0	0	1	0	0	0	351	1710	59	3	753	3	AEN	15	89173290	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2860292	89173290	13358102	1130	84957											
SEMA4B	10509	broad.mit.edu	37	chr15	90763066	90763066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatcctcctgccgctcagCggcagtcacctgttcacctg	7	9	9	16	2	3	1	3	0	0	1	5	1	5	1	5	1	2	3	5	1	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:90763066C>T	uc002boy.2	+	5	709	c.426C>T	c.(424-426)AGC>AGT	p.S142S	SEMA4B_uc002boz.2_Silent_p.S142S|SEMA4B_uc010uqd.1_5'UTR|SEMA4B_uc002bpa.2_5'UTR|SEMA4B_uc010bnv.1_5'Flank	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			TGCCGCTCAGCGGCAGTCACC	0.612											OREG0023468	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	38					0	0	1	0	0		T	90763066	T	T	90763066	2	4	155	1	0	0	0	0	0	0	0	1	14057	767	27	1		1	SEMA4B	15	90763066	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1589776	90763066	11768326	1131	84958											
TTLL13	440307	broad.mit.edu	37	chr15	90800434	90800434	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgatcacatcctgtgaccCtctccggatcttcacatatg	8	12	6	15	1	4	2	2	2	2	0	6	3	5	3	4	1	0	0	4	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:90800434C>A	uc002bpd.1	+	7	1058	c.770C>A	c.(769-771)CCT>CAT	p.P257H	TTLL13_uc002bpe.1_RNA	NM_001029964	NP_001025135	A6NNM8	TTL13_HUMAN	tubulin tyrosine ligase-like family, member 13	257	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			TCCTGTGACCCTCTCCGGATC	0.517													6	148					0.217242	0.217503	1	1	0		A	90800434	A	A	90800434	3	1	155	1	0	0	0	0	1	0	0	0	16752	681	24	5	792	5	TTLL13	15	90800434	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	37368	90800434	11730958	1132	84959											
IGF1R	3480	broad.mit.edu	37	chr15	99491899	99491899	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cttcgcttcgtcatggagggCggccttctggacaagccaga	7	9	13	12	3	2	1	1	0	1	1	4	3	2	3	2	4	1	1	2	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:99491899C>T	uc002bul.2	+	20	3734	c.3684C>T	c.(3682-3684)GGC>GGT	p.G1228G	IGF1R_uc010bon.2_Silent_p.G1227G	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1228	Protein kinase.|Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	TCATGGAGGGCGGCCTTCTGG	0.572													26	154					0	0	1	0	0		T	99491899	T	T	99491899	2	4	155	1	0	0	0	0	0	0	0	1	7587	755	27	1		1	IGF1R	15	99491899	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	8691465	99491899	3039493	1133	84960											
ADAMTS17	170691	broad.mit.edu	37	chr15	100649204	100649204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtacgtcacctggcacttgCcgtgcacgcagagatcagtc	9	8	11	13	3	2	1	2	0	0	1	3	2	2	1	2	1	3	4	2	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:100649204C>T	uc002bvv.1	-	14	2085	c.2006G>A	c.(2005-2007)GGC>GAC	p.G669D	ADAMTS17_uc002bvx.1_Missense_Mutation_p.G426D	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	669	Cys-rich.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CTGGCACTTGCCGTGCACGCA	0.632													16	104					0	0	1	0	0		T	100649204	T	T	100649204	3	4	155	1	0	0	0	0	1	0	0	0	262	739	26	2	1317	2	ADAMTS17	15	100649204	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1157305	100649204	1882188	1134	84961											
ADAMTS17	170691	broad.mit.edu	37	chr15	100692868	100692868	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaacaggatctggcactgCtcgttggcactgtagtgcat	9	10	11	11	1	1	0	0	0	1	0	2	1	1	1	1	3	3	6	1	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:100692868C>T	uc002bvv.1	-	10	1501	c.1422G>A	c.(1420-1422)GAG>GAA	p.E474E	ADAMTS17_uc002bvx.1_Silent_p.E231E	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	474	Disintegrin.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TCTGGCACTGCTCGTTGGCAC	0.597													14	130					0	0	1	0	0		T	100692868	T	T	100692868	2	4	155	1	0	0	0	0	0	0	0	1	262	796	28	2		2	ADAMTS17	15	100692868	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	43664	100692868	1838524	1135	84962											
LRRK1	79705	broad.mit.edu	37	chr15	101565157	101565157	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggccaacctccagttctgGctgctcaacatcgaggtgag	8	9	12	12	1	2	1	1	1	1	0	4	2	3	1	3	3	3	3	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr15:101565157G>T	uc002bwr.2	+	16	2536	c.2217G>T	c.(2215-2217)TGG>TGT	p.W739C	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	739	Roc.				small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TCCAGTTCTGGCTGCTCAACA	0.617													8	180					0.000274275	0.000278949	1	1	0		T	101565157	T	T	101565157	3	4	155	1	0	0	0	0	1	0	0	0	9050	1212	42	5	2275	5	LRRK1	15	101565157	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	872289	101565157	966235	1136	84963											
PDIA2	64714	broad.mit.edu	37	chr16	334457	334457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgccgtgctcgcggcCgagtcaatggtggtcacgct	5	8	15	13	5	2	0	2	0	0	0	3	1	2	0	2	3	3	4	2	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:334457C>T	uc002cgn.1	+	7	1378	c.270C>T	c.(268-270)GCC>GCT	p.A90A	PDIA2_uc010bqt.1_5'UTR|PDIA2_uc002cgo.1_Silent_p.A90A	NM_006849	NP_006840	Q13087	PDIA2_HUMAN	protein disulfide isomerase A2 precursor	90	Thioredoxin 1.				apoptosis|cell redox homeostasis|glycerol ether metabolic process|protein folding|protein retention in ER lumen|response to hypoxia	endoplasmic reticulum lumen	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity|steroid binding			central_nervous_system(1)|skin(1)	2		all_cancers(16;6.71e-07)|all_epithelial(16;1.59e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00769)|all_lung(18;0.0186)				TGCTCGCGGCCGAGTCAATGG	0.682													2	3					0	0	1	0	0		T	334457	T	T	334457	2	4	155	1	0	0	0	0	0	0	0	1	11687	639	23	1		1	PDIA2	16	334457	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08		334457	90020296	1137	84964											
TMEM8A	58986	broad.mit.edu	37	chr16	426284	426285	+	Frame_Shift_Ins	INS	-	C	C																															cgacaccacgtccatgtcctINScccgcgtgactgggtagttt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:426284_426285insC	uc002cgu.3	-	6	1204_1205	c.1075_1076insG	c.(1075-1077)GAGfs	p.E359fs	TMEM8A_uc002cgv.3_Frame_Shift_Ins_p.E166fs	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	359	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						GTCCATGTCCTCCCGCGTGACT	0.668													39	60	---	---	---	---						.	C	426285	C	C	426284	7	5	155	1	0	1	1	0	0	0	0	0	16239	1551	54	0	1271	0	TMEM8A	16	426284	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	91827	426284	89928469	1138	84965											
CCDC78	124093	broad.mit.edu	37	chr16	774189	774189	+	Frame_Shift_Del	DEL	G	-	-																															ggctatgtcaaaaatagcttGggggttcccaggtgccctgt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:774189delG	uc002cjg.2	-	10	1076	c.970delC	c.(970-972)CAAfs	p.Q324fs	CCDC78_uc002cjf.2_Frame_Shift_Del_p.Q173fs|CCDC78_uc002cji.3_3'UTR|CCDC78_uc002cjj.3_3'UTR|CCDC78_uc002cjh.2_Frame_Shift_Del_p.Q83fs|HAGHL_uc002cjl.1_5'Flank|HAGHL_uc002cjm.1_5'Flank|HAGHL_uc002cjn.1_5'Flank	NM_001031737	NP_001026907	A2IDD5	CCD78_HUMAN	coiled-coil domain containing 78	324										central_nervous_system(1)	1		Hepatocellular(780;0.0218)				AAAATAGCTTGGGGGTTCCCA	0.592													44	81	---	---	---	---						.	-	774189	-	-	774189	7	5	155	1	0	1	0	1	0	0	0	0	2855	1357	47	0	366	0	CCDC78	16	774189	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	347905	774189	89580564	1139	84966											
CCDC78	124093	broad.mit.edu	37	chr16	774354	774354	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtagctcttcatgcctgcgGctcagatccaccagcctctt	7	11	8	15	1	4	1	2	0	2	1	5	1	5	1	4	1	4	3	4	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:774354G>A	uc002cjg.2	-	9	1027	c.921C>T	c.(919-921)AGC>AGT	p.S307S	CCDC78_uc002cjf.2_Silent_p.S156S|CCDC78_uc002cji.3_3'UTR|CCDC78_uc002cjj.3_3'UTR|CCDC78_uc002cjh.2_Silent_p.S66S|CCDC78_uc010uuo.1_3'UTR|HAGHL_uc002cjl.1_5'Flank|HAGHL_uc002cjm.1_5'Flank|HAGHL_uc002cjn.1_5'Flank|HAGHL_uc002cjo.1_5'Flank|HAGHL_uc010uup.1_5'Flank	NM_001031737	NP_001026907	A2IDD5	CCD78_HUMAN	coiled-coil domain containing 78	307										central_nervous_system(1)	1		Hepatocellular(780;0.0218)				CATGCCTGCGGCTCAGATCCA	0.647													35	46					0	0	1	0	0		A	774354	A	A	774354	2	1	155	1	0	0	0	0	0	0	0	1	2855	1194	42	2		2	CCDC78	16	774354	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	165	774354	89580399	1140	84967											
CHTF18	63922	broad.mit.edu	37	chr16	846041	846041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgacctaccgccaggagcGcacgcccgatggccagtaca	9	4	11	17	4	0	1	0	1	0	0	0	3	0	2	6	2	3	2	6	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:846041G>A	uc002cke.3	+	18	2483	c.2420G>A	c.(2419-2421)CGC>CAC	p.R807H	CHTF18_uc002ckf.3_Missense_Mutation_p.R835H|CHTF18_uc010brf.2_Missense_Mutation_p.R389H|CHTF18_uc002ckg.3_Missense_Mutation_p.R325H	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	807					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				CGCCAGGAGCGCACGCCCGAT	0.637													3	3					0	0	1	0	0		A	846041	A	A	846041	3	1	155	1	0	0	0	0	1	0	0	0	3417	1087	38	1	2490	1	CHTF18	16	846041	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	71687	846041	89508712	1141	84968											
CACNA1H	8912	broad.mit.edu	37	chr16	1255203	1255203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgaagctgctggcctgCggccctctgggctacatccg	4	9	13	15	2	1	1	0	1	1	0	2	1	2	1	3	3	5	4	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:1255203C>T	uc002cks.2	+	11	2789	c.2541C>T	c.(2539-2541)TGC>TGT	p.C847C	CACNA1H_uc002ckt.2_Silent_p.C847C	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	847	II.|Helical; Name=S2 of repeat II; (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	TGCTGGCCTGCGGCCCTCTGG	0.612													18	24					0	0	1	0	0		T	1255203	T	T	1255203	2	4	155	1	0	0	0	0	0	0	0	1	2548	776	27	1		1	CACNA1H	16	1255203	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	409162	1255203	89099550	1142	84969											
CACNA1H	8912	broad.mit.edu	37	chr16	1257402	1257402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctcttcaacctgctggtggCcatcctcgtggagggcttcc	4	11	12	14	1	2	0	1	0	1	0	5	1	4	1	4	4	2	3	4	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:1257402C>T	uc002cks.2	+	14	3283	c.3035C>T	c.(3034-3036)GCC>GTC	p.A1012V	CACNA1H_uc002ckt.2_Missense_Mutation_p.A1012V|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1012	II.|Helical; Name=S6 of repeat II; (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CTGCTGGTGGCCATCCTCGTG	0.647													5	18					0	0	1	0	0		T	1257402	T	T	1257402	3	4	155	1	0	0	0	0	1	0	0	0	2548	739	26	2	3085	2	CACNA1H	16	1257402	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2199	1257402	89097351	1143	84970											
IGFALS	3483	broad.mit.edu	37	chr16	1842147	1842147	+	Frame_Shift_Del	DEL	G	-	-																															agaggttctggaaggctgccGgggggacggacgagaggttg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:1842147delG	uc002cmy.2	-	2	353	c.272delC	c.(271-273)CCGfs	p.P91fs	IGFALS_uc010uvn.1_Frame_Shift_Del_p.P129fs|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	91	LRR 1.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						GAAGGCTGCCGGGGGGACGGA	0.682													7	13	---	---	---	---						.	-	1842147	-	-	1842147	7	5	155	1	0	1	0	1	0	0	0	0	7593	1116	39	0	1549	0	IGFALS	16	1842147	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	584745	1842147	88512606	1144	84971											
PKD1	5310	broad.mit.edu	37	chr16	2140354	2140354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caactccaccatctcgtagtCctggggctcccaggccggcc	6	7	10	18	2	1	0	0	0	1	0	5	0	4	0	6	4	1	2	6	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:2140354C>T	uc002cos.1	-	45	12585	c.12376G>A	c.(12376-12378)GAC>AAC	p.D4126N	PKD1_uc002cot.1_Missense_Mutation_p.D4125N|MIR1225_hsa-mir-1225|MI0006311_5'Flank	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	4126	Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						ATCTCGTAGTCCTGGGGCTCC	0.677													20	40					0	0	1	0	0		T	2140354	T	T	2140354	3	4	155	1	0	0	0	0	1	0	0	0	11982	855	30	4	543	4	PKD1	16	2140354	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	298207	2140354	88214399	1145	84972											
PKD1	5310	broad.mit.edu	37	chr16	2164381	2164381	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccaggggcagccgggcacGaaggtggccaccagggcagg	8	2	18	13	2	0	0	0	0	0	0	1	1	1	0	4	7	1	3	4	7	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:2164381G>A	uc002cos.1	-	11	2852	c.2643C>T	c.(2641-2643)TTC>TTT	p.F881F	PKD1_uc002cot.1_Silent_p.F881F	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	881	Extracellular (Potential).|PKD 3.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGCCGGGCACGAAGGTGGCCA	0.662													11	14					0	0	1	0	0		A	2164381	A	A	2164381	2	1	155	1	0	0	0	0	0	0	0	1	11982	1049	37	1		1	PKD1	16	2164381	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	24027	2164381	88190372	1146	84973											
E4F1	1877	broad.mit.edu	37	chr16	2282806	2282806	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagagcttccgggagtcGggtgcactgacccggcacct	8	6	15	12	3	0	2	0	1	0	1	2	4	1	4	3	4	2	3	3	4	1	1	rs139438270	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:2282806G>A	uc002cpm.2	+	6	828	c.780G>A	c.(778-780)TCG>TCA	p.S260S	E4F1_uc010bsi.2_Silent_p.S260S|E4F1_uc010bsj.2_Silent_p.S260S	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	260	Mediates dimerization, DNA-binding, transcription repression of CCNA2 and interaction with HMGA2.|C2H2-type 3; degenerate.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						TCCGGGAGTCGGGTGCACTGA	0.602													4	84					0	0	1	0	0		A	2282806	A	A	2282806	2	1	155	1	0	0	0	0	0	0	0	1	4880	1103	39	1		1	E4F1	16	2282806	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	118425	2282806	88071947	1147	84974											
THOC6	79228	broad.mit.edu	37	chr16	3077501	3077501	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgccgcgcctgagtgcaaGgtgggtccggcaggggccgc	4	5	18	14	4	0	1	0	1	0	0	1	1	1	1	5	5	2	2	5	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:3077501G>A	uc002ctb.2	+	12	1241	c.945G>A	c.(943-945)AAG>AAA	p.K315K	THOC6_uc002ctd.2_Intron|THOC6_uc002ctc.2_Silent_p.K291K|THOC6_uc002cta.2_Silent_p.K291K	NM_024339	NP_077315	Q86W42	THOC6_HUMAN	WD repeat domain 58 isoform 1	315	WD 7.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	RNA binding			ovary(1)|central_nervous_system(1)	2						CTGAGTGCAAGGTGGGTCCGG	0.701													4	6					0	0	1	0	0		A	3077501	A	A	3077501	2	1	155	1	0	0	0	0	0	0	0	1	15894	1014	35	4		4	THOC6	16	3077501	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	794695	3077501	87277252	1148	84975											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139421	3139421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggttggagctattgcGgaaacggtggccgcaggtgt	7	8	18	8	3	0	0	0	0	0	0	0	2	0	2	2	7	3	3	2	7	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:3139421G>A	uc002ctv.1	-	5	1937	c.1849C>T	c.(1849-1851)CGC>TGC	p.R617C	ZSCAN10_uc002cty.1_Missense_Mutation_p.R278C|ZSCAN10_uc002ctw.1_Missense_Mutation_p.R535C|ZSCAN10_uc002ctx.1_Missense_Mutation_p.R545C	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	617	C2H2-type 11.				negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GAGCTATTGCGGAAACGGTGG	0.701													3	16					0	0	1	0	0		A	3139421	A	A	3139421	3	1	155	1	0	0	0	0	1	0	0	0	18252	1116	39	1	332	1	ZSCAN10	16	3139421	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	61920	3139421	87215332	1149	84976											
ZNF213	7760	broad.mit.edu	37	chr16	3188482	3188482	+	Frame_Shift_Del	DEL	C	-	-																															gatcccaggccacggggcctCccccgacggtgggggcacgg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:3188482delC	uc010uws.1	+	3	910	c.463delC	c.(463-465)CCCfs	p.P155fs	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Frame_Shift_Del_p.P155fs|ZNF213_uc010uwt.1_Frame_Shift_Del_p.P155fs	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	155					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CACGGGGCCTCCCCCGACGGT	0.677													23	48	---	---	---	---						.	-	3188482	-	-	3188482	7	5	155	1	0	1	0	1	0	0	0	0	17794	855	30	0	469	0	ZNF213	16	3188482	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	49061	3188482	87166271	1150	84977											
CLUAP1	23059	broad.mit.edu	37	chr16	3562425	3562425	+	Missense_Mutation	SNP	A	G	G	1	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	ggcagcttgcgtctgaaatcAcctccaaaggagcatctctg	10	9	10	12	1	3	1	1	1	2	0	5	2	4	2	2	2	3	3	2	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:3562425A>G	uc002cvk.1	+	5	547	c.442A>G	c.(442-444)ACC>GCC	p.T148A	CLUAP1_uc002cvj.1_Missense_Mutation_p.T148A|CLUAP1_uc002cvl.1_Missense_Mutation_p.T148A|CLUAP1_uc002cvm.1_Intron	NM_015041	NP_055856	Q96AJ1	CLUA1_HUMAN	clusterin associated protein 1 isoform 1	148						nucleus	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GTCTGAAATCACCTCCAAAGG	0.413													31	84					0	0	1	0	0		G	3562425	G	G	3562425	3	3	155	1	0	0	0	0	1	0	0	0	3572	159	6	3	460	3	CLUAP1	16	3562425	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	373943	3562425	86792328	1151	84978											
TRAP1	10131	broad.mit.edu	37	chr16	3740865	3740865	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgctgataatcgagtgcagGggttcctccttgtcctcggc	5	12	12	12	2	0	1	0	1	0	0	5	2	3	1	3	3	2	3	3	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:3740865G>T	uc002cvt.3	-	2	299	c.210C>A	c.(208-210)CCC>CCA	p.P70P	TRAP1_uc010uxf.1_Intron	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	70					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				TCGAGTGCAGGGGTTCCTCCT	0.617											OREG0023572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	127					0.0293803	0.0296286	1	1	0		T	3740865	T	T	3740865	2	4	155	1	0	0	0	0	0	0	0	1	16481	1219	43	5		5	TRAP1	16	3740865	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	178440	3740865	86613888	1152	84979											
SRL	6345	broad.mit.edu	37	chr16	4292031	4292031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgtcctgagaacaggagcGaggccaggaggcagccgagc	10	4	16	11	2	0	1	0	1	0	1	1	6	1	3	3	4	4	1	3	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:4292031G>A	uc002cvz.3	-	1	51	c.38C>T	c.(37-39)TCG>TTG	p.S13L	SRL_uc002cvy.3_RNA	NM_001098814	NP_001092284	Q86TD4	SRCA_HUMAN	sarcalumenin	13						sarcoplasmic reticulum lumen	GTP binding|GTPase activity			ovary(3)|skin(2)	5						GAACAGGAGCGAGGCCAGGAG	0.632													6	17					0	0	1	0	0		A	4292031	A	A	4292031	3	1	155	1	0	0	0	0	1	0	0	0	15175	1059	37	1	1407	1	SRL	16	4292031	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	551166	4292031	86062722	1153	84980											
UBN1	29855	broad.mit.edu	37	chr16	4924216	4924216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgttttcctttaggaatCgtctacgaagcctgataaaa	11	15	7	8	2	2	1	0	1	2	0	4	3	3	2	2	1	2	1	2	1	6	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:4924216C>T	uc002cyb.2	+	15	2144	c.1805C>T	c.(1804-1806)TCG>TTG	p.S602L	UBN1_uc010uxw.1_Missense_Mutation_p.S602L|UBN1_uc002cyc.2_Missense_Mutation_p.S602L	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	602					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CTTTAGGAATCGTCTACGAAG	0.443													54	308					0	0	1	0	0		T	4924216	T	T	4924216	3	4	155	1	0	0	0	0	1	0	0	0	16918	893	31	1	1859	1	UBN1	16	4924216	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	632185	4924216	85430537	1154	84981											
UBN1	29855	broad.mit.edu	37	chr16	4925259	4925259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggccaccagccgacccGtcccaagttcagcagggaaa	12	3	11	15	2	1	0	1	0	0	0	2	3	2	1	5	2	2	2	5	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:4925259G>A	uc002cyb.2	+	15	3187	c.2848G>A	c.(2848-2850)GTC>ATC	p.V950I	UBN1_uc010uxw.1_Missense_Mutation_p.V950I|UBN1_uc002cyc.2_Missense_Mutation_p.V950I	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	950	Ser-rich.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CAGCCGACCCGTCCCAAGTTC	0.602													42	26					0	0	1	0	0		A	4925259	A	A	4925259	3	1	155	1	0	0	0	0	1	0	0	0	16918	1145	40	1	2902	1	UBN1	16	4925259	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1043	4925259	85429494	1155	84982											
PPL	5493	broad.mit.edu	37	chr16	4943363	4943363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagctgccgcccctgtaggtCagaggcatctgtggagggag	7	7	16	11	1	2	1	1	0	1	1	2	3	2	3	3	4	2	3	3	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:4943363C>T	uc002cyd.1	-	14	1591	c.1501G>A	c.(1501-1503)GAC>AAC	p.D501N		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	501					keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						CCCTGTAGGTCAGAGGCATCT	0.677													8	11					0	0	1	0	0		T	4943363	T	T	4943363	3	4	155	1	0	0	0	0	1	0	0	0	12356	826	29	4	3805	4	PPL	16	4943363	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	18104	4943363	85411390	1156	84983											
C16orf68	79091	broad.mit.edu	37	chr16	8722842	8722842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtggtgagaagaccacgagCcgcctctgattccaacccag	10	6	11	14	3	1	3	0	2	1	2	2	5	2	3	5	1	2	0	5	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:8722842C>T	uc002cyz.2	+	3	665	c.389C>T	c.(388-390)GCC>GTC	p.A130V	C16orf68_uc002cza.2_Intron	NM_024109	NP_077014	Q9BUU2	MET22_HUMAN	hypothetical protein LOC79091	130							methyltransferase activity				0						AGACCACGAGCCGCCTCTGAT	0.582													89	118					0	0	1	0	0		T	8722842	T	T	8722842	3	4	155	1	0	0	0	0	1	0	0	0	1830	739	26	2	395	2	C16orf68	16	8722842	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3779479	8722842	81631911	1157	84984											
KIAA0430	9665	broad.mit.edu	37	chr16	15719582	15719582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaattatcggacaggcGtctgagcctgttgctgacgc	9	9	11	12	3	1	2	0	2	1	0	2	3	1	3	2	2	2	2	2	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:15719582G>A	uc002ddr.2	-	8	1793	c.1600C>T	c.(1600-1602)CGC>TGC	p.R534C	KIAA0430_uc002ddq.2_Intron|KIAA0430_uc010uzv.1_Missense_Mutation_p.R530C|KIAA0430_uc010uzw.1_Missense_Mutation_p.R532C	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	533						peroxisome	nucleotide binding|RNA binding				0						TCGGACAGGCGTCTGAGCCTG	0.488													61	64					0	0	1	0	0		A	15719582	A	A	15719582	3	1	155	1	0	0	0	0	1	0	0	0	8193	1145	40	1	3711	1	KIAA0430	16	15719582	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6996740	15719582	74635171	1158	84985											
ABCC6	368	broad.mit.edu	37	chr16	16291913	16291913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagcagaccacgatccagaCgagaggcagccacagcccgt	13	2	12	14	3	0	3	0	0	0	3	1	6	1	3	4	1	3	2	4	1	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:16291913C>T	uc002den.3	-	10	1340	c.1303G>A	c.(1303-1305)GTC>ATC	p.V435I	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Missense_Mutation_p.V447I	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	435	ABC transmembrane type-1 1.|Helical; Name=8; (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		ACGATCCAGACGAGAGGCAGC	0.507													6	11					0	0	1	0	0		T	16291913	T	T	16291913	3	4	155	1	0	0	0	0	1	0	0	0	57	536	19	1	3296	1	ABCC6	16	16291913	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	572331	16291913	74062840	1159	84986											
XYLT1	64131	broad.mit.edu	37	chr16	17202787	17202787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccacctgggcggggttgatgGgcaggctgaggacggggttt	5	8	20	8	2	0	2	0	2	0	0	0	3	0	3	2	8	0	4	2	8	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:17202787G>A	uc002dfa.2	-	12	2730	c.2645C>T	c.(2644-2646)CCC>CTC	p.P882L		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	882	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						GGGGTTGATGGGCAGGCTGAG	0.632													5	128					0	0	1	0	0		A	17202787	A	A	17202787	3	1	155	1	0	0	0	0	1	0	0	0	17489	1232	43	4	238	4	XYLT1	16	17202787	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	910874	17202787	73151966	1160	84987											
ARL6IP1	23204	broad.mit.edu	37	chr16	18806827	18806827	+	Missense_Mutation	SNP	A	G	G	1	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	tagtgtgaagaggcgtttccAccaacccacagctctgcgtc	9	9	10	13	2	1	2	0	1	1	1	3	2	2	2	3	1	3	2	3	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:18806827A>G	uc002dfl.1	-	4	436	c.367T>C	c.(367-369)TGG>CGG	p.W123R	ARL6IP1_uc010van.1_Missense_Mutation_p.W94R|ARL6IP1_uc010bvz.1_Intron	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	123						integral to membrane	protein binding				0						AGGCGTTTCCACCAACCCACA	0.378													7	136					0	0	1	0	0		G	18806827	G	G	18806827	3	3	155	1	0	0	0	0	1	0	0	0	943	159	6	3	256	3	ARL6IP1	16	18806827	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1604040	18806827	71547926	1161	84988											
TMC7	79905	broad.mit.edu	37	chr16	19033117	19033117	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcattcctttcaaagacatGggtgagtgtaaggcctggtt	9	13	11	8	0	2	2	2	1	0	1	3	2	3	2	2	3	0	2	2	3	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:19033117G>T	uc002dfq.2	+	4	757	c.627G>T	c.(625-627)ATG>ATT	p.M209I	TMC7_uc010vao.1_Missense_Mutation_p.M209I|TMC7_uc002dfp.2_Missense_Mutation_p.M209I|TMC7_uc010vap.1_Missense_Mutation_p.M99I	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	209	Cytoplasmic (Potential).					integral to membrane				skin(2)|ovary(1)	3						TCAAAGACATGGGTGAGTGTA	0.398													55	75					7.89702e-26	8.59669e-26	1	1	0		T	19033117	T	T	19033117	3	4	155	1	0	0	0	0	1	0	0	0	16015	1362	47	5	641	5	TMC7	16	19033117	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	226290	19033117	71321636	1162	84989											
DNAH3	55567	broad.mit.edu	37	chr16	21109957	21109957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaaactctgcaaacgcccGatttaggttctttgaaagct	11	12	7	11	2	3	1	1	1	2	0	3	2	3	1	1	1	4	3	1	1	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:21109957G>A	uc010vbe.1	-	17	2500	c.2500C>T	c.(2500-2502)CGG>TGG	p.R834W		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	834	Stem (By similarity).|Potential.				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GCAAACGCCCGATTTAGGTTC	0.418													127	208					0	0	1	0	0		A	21109957	A	A	21109957	3	1	155	1	0	0	0	0	1	0	0	0	4609	1057	37	1	10033	1	DNAH3	16	21109957	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2076840	21109957	69244796	1163	84990											
ANKS4B	257629	broad.mit.edu	37	chr16	21245076	21245076	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaatgtctactcgttaccaCcaagctgctagtgatagtta	13	12	7	9	1	1	1	0	1	1	0	2	1	1	1	2	0	4	4	2	0	8	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:21245076C>T	uc010bwp.1	+	1	61	c.18C>T	c.(16-18)CAC>CAT	p.H6H		NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	6										ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		CTCGTTACCACCAAGCTGCTA	0.488													112	209					0	0	1	0	0		T	21245076	T	T	21245076	2	4	155	1	0	0	0	0	0	0	0	1	691	506	18	4		4	ANKS4B	16	21245076	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	135119	21245076	69109677	1164	84991											
METTL9	51108	broad.mit.edu	37	chr16	21624076	21624076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaacagcattgagaaatcGggctggctatttatccaatt	14	11	8	8	1	0	1	0	1	0	1	2	2	1	1	1	2	3	3	1	2	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:21624076G>A	uc002dje.2	+	2	475	c.276G>A	c.(274-276)TCG>TCA	p.S92S	uc002diq.3_Intron|METTL9_uc002djf.2_Silent_p.S92S	NM_016025	NP_057109	Q9H1A3	METL9_HUMAN	methyltransferase like 9 isoform 1	92										ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0759)		TTGAGAAATCGGGCTGGCTAT	0.373													65	95					0	0	1	0	0		A	21624076	A	A	21624076	2	1	155	1	0	0	0	0	0	0	0	1	9526	1103	39	1		1	METTL9	16	21624076	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	379000	21624076	68730677	1165	84992											
USP31	57478	broad.mit.edu	37	chr16	23119471	23119471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcatcatgttgggaatttcCccggtactgcagtgcattct	7	13	11	10	1	2	0	1	0	1	0	3	1	3	1	2	3	3	5	2	3	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:23119471C>T	uc002dll.2	-	2	667	c.667G>A	c.(667-669)GGA>AGA	p.G223R		NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	223					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		TGGGAATTTCCCCGGTACTGC	0.448													38	67					0	0	1	0	0		T	23119471	T	T	23119471	3	4	155	1	0	0	0	0	1	0	0	0	17088	632	22	4	3451	4	USP31	16	23119471	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1495395	23119471	67235282	1166	84993											
RBBP6	5930	broad.mit.edu	37	chr16	24582802	24582802	+	Missense_Mutation	SNP	A	T	T	1	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	agacttcactcccaatagagAcaaaaaaactgactatgaca	19	7	5	10	0	1	4	1	2	0	2	2	5	2	4	1	0	1	0	1	0	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:24582802A>T	uc002dmh.2	+	18	5455	c.4415A>T	c.(4414-4416)GAC>GTC	p.D1472V	RBBP6_uc002dmi.2_Missense_Mutation_p.D1438V|RBBP6_uc010bxr.2_Missense_Mutation_p.D632V|RBBP6_uc002dmk.2_Missense_Mutation_p.D1305V	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1472	Interaction with p53 (By similarity).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		CCCAATAGAGACAAAAAAACT	0.363													5	75					0	0	1	0	0		T	24582802	T	T	24582802	3	4	155	1	0	0	0	0	1	0	0	0	13128	275	10	5	4539	5	RBBP6	16	24582802	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1463331	24582802	65771951	1167	84994											
TNRC6A	27327	broad.mit.edu	37	chr16	24817979	24817979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtgaagcagcagactccaCcatctcagcagcagccactc	11	6	9	15	0	1	2	1	1	1	1	4	2	2	2	3	1	5	4	3	1	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:24817979C>T	uc002dmm.2	+	17	4528	c.4414C>T	c.(4414-4416)CCA>TCA	p.P1472S	TNRC6A_uc010bxs.2_Missense_Mutation_p.P1219S|TNRC6A_uc002dmn.2_Missense_Mutation_p.P1170S|TNRC6A_uc002dmo.2_Missense_Mutation_p.P1111S|TNRC6A_uc002dmp.2_Missense_Mutation_p.P73S|TNRC6A_uc002dmq.2_Missense_Mutation_p.P139S	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1472					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GCAGACTCCACCATCTCAGCA	0.483													40	54					0	0	1	0	0		T	24817979	T	T	24817979	3	4	155	1	0	0	0	0	1	0	0	0	16365	507	18	4	4480	4	TNRC6A	16	24817979	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	235177	24817979	65536774	1168	84995											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25258441	25258441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgaagtgtttcataaaagCgagactctttgagaattgcc	12	12	9	8	1	2	3	1	2	1	2	2	5	2	3	2	0	2	1	2	0	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:25258441C>T	uc002dod.3	-	5	1483	c.1076G>A	c.(1075-1077)CGC>CAC	p.R359H	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.R155H|ZKSCAN2_uc002doe.2_Missense_Mutation_p.R359H	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	359					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		TTCATAAAAGCGAGACTCTTT	0.473													93	115					0	0	1	0	0		T	25258441	T	T	25258441	3	4	155	1	0	0	0	0	1	0	0	0	17712	768	27	1	1839	1	ZKSCAN2	16	25258441	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	440462	25258441	65096312	1169	84996											
CD19	930	broad.mit.edu	37	chr16	28943679	28943679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctccacagagggagataacgCtgtgctgcagtgcctcaagg	10	7	13	11	1	1	2	1	0	0	2	2	3	2	2	2	2	4	3	2	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:28943679C>T	uc002drs.2	+	2	163	c.101C>T	c.(100-102)GCT>GTT	p.A34V	uc010vct.1_Intron|CD19_uc010byo.1_Missense_Mutation_p.A34V	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	34	Extracellular (Potential).|Ig-like C2-type 1.				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						GGAGATAACGCTGTGCTGCAG	0.612													10	28					0	0	1	0	0		T	28943679	T	T	28943679	3	4	155	1	0	0	0	0	1	0	0	0	2976	797	28	2	107	2	CD19	16	28943679	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3685238	28943679	61411074	1170	84997											
MAZ	4150	broad.mit.edu	37	chr16	29820043	29820043	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccagggtcctcaccatgtCtgtgagctctgcaacaaagg	10	8	11	12	0	3	1	1	1	2	0	4	1	4	1	3	2	4	2	3	2	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:29820043C>T	uc002dty.2	+	4	1428	c.1260C>T	c.(1258-1260)GTC>GTT	p.V420V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Silent_p.V397V|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Silent_p.V420V|MAZ_uc010bzg.2_Silent_p.V115V|MAZ_uc002dtz.1_3'UTR|MAZ_uc002dua.2_Silent_p.V21V|MAZ_uc010vdy.1_Silent_p.V21V|uc002duc.1_RNA	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	420					regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						CTCACCATGTCTGTGAGCTCT	0.602													19	26					0	0	1	0	0		T	29820043	T	T	29820043	2	4	155	1	0	0	0	0	0	0	0	1	9358	900	32	4		4	MAZ	16	29820043	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	876364	29820043	60534710	1171	84998											
SEZ6L2	26470	broad.mit.edu	37	chr16	29888190	29888190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggtgagcaccgtgcccCggatcaggtccccgtgggat	6	7	16	12	3	1	1	1	1	0	0	2	3	2	3	5	5	2	2	5	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:29888190C>T	uc002duq.3	-	12	2231	c.1991G>A	c.(1990-1992)CGG>CAG	p.R664Q	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.R594Q|SEZ6L2_uc002dur.3_Missense_Mutation_p.R594Q|SEZ6L2_uc002dus.3_Missense_Mutation_p.R550Q|SEZ6L2_uc010vec.1_Missense_Mutation_p.R664Q|SEZ6L2_uc010ved.1_Missense_Mutation_p.R620Q	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	664	Sushi 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CACCGTGCCCCGGATCAGGTC	0.687													11	13					0	0	1	0	0		T	29888190	T	T	29888190	3	4	155	1	0	0	0	0	1	0	0	0	14169	652	23	1	808	1	SEZ6L2	16	29888190	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	68147	29888190	60466563	1172	84999											
ASPHD1	253982	broad.mit.edu	37	chr16	29913086	29913086	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccggtgccaacccagcaactGccgccggtgcccgggggcct	5	4	14	18	4	0	0	0	0	0	0	0	0	0	0	7	4	6	1	7	4	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:29913086G>A	uc002dut.2	+	1	940	c.794G>A	c.(793-795)TGC>TAC	p.C265Y	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_5'Flank|SEZ6L2_uc002dur.3_5'Flank|SEZ6L2_uc002duq.3_5'Flank|SEZ6L2_uc002dus.3_5'Flank|SEZ6L2_uc010vec.1_5'Flank|SEZ6L2_uc010ved.1_5'Flank|ASPHD1_uc002duu.3_RNA|ASPHD1_uc010bzi.2_RNA	NM_181718	NP_859069	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	265	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity				0						CCCAGCAACTGCCGCCGGTGC	0.672													9	14					0	0	1	0	0		A	29913086	A	A	29913086	3	1	155	1	0	0	0	0	1	0	0	0	1055	1319	46	2	796	2	ASPHD1	16	29913086	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	24896	29913086	60441667	1173	85000											
SRCAP	10847	broad.mit.edu	37	chr16	30749660	30749660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaaaggaactggtgcggcggCggcggcagcagcggggagct	9	3	20	9	5	0	0	0	0	0	0	0	2	0	2	0	8	5	3	0	8	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:30749660C>T	uc002dze.1	+	34	8684	c.8299C>T	c.(8299-8301)CGG>TGG	p.R2767W	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R2562W	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2767	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GGTGCGGCGGCGGCGGCAGCA	0.652													7	7					0	0	1	0	0		T	30749660	T	T	30749660	3	4	155	1	0	0	0	0	1	0	0	0	15160	759	27	1	8425	1	SRCAP	16	30749660	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	836574	30749660	59605093	1174	85001											
RNF40	9810	broad.mit.edu	37	chr16	30779458	30779458	+	Frame_Shift_Del	DEL	C	-	-																															cagtggctctgcccactccaCccccaacctgggccacccag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:30779458delC	uc002dzq.2	+	13	1709	c.1586delC	c.(1585-1587)ACCfs	p.T529fs	RNF40_uc010caa.2_Frame_Shift_Del_p.T529fs|RNF40_uc010cab.2_Frame_Shift_Del_p.T429fs|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Frame_Shift_Del_p.T529fs|RNF40_uc010vfb.1_Frame_Shift_Del_p.T221fs|RNF40_uc010vfc.1_5'Flank	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	529					histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			GCCCACTCCACCCCCAACCTG	0.617													71	151	---	---	---	---						.	-	30779458	-	-	30779458	7	5	155	1	0	1	0	1	0	0	0	0	13518	507	18	0	1632	0	RNF40	16	30779458	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	29798	30779458	59575295	1175	85002											
BCL7C	9274	broad.mit.edu	37	chr16	30904250	30904250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgggatctctctgccccgCcacctgcccgccttcgctcc	3	8	8	22	4	2	0	0	0	2	0	5	1	3	1	7	1	2	1	7	1	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:30904250C>T	uc002dzv.2	-	3	325	c.191G>A	c.(190-192)GGC>GAC	p.G64D	BCL7C_uc002dzt.1_Missense_Mutation_p.G64D|uc002dzu.2_Intron|MIR762_hsa-mir-762|MI0003892_5'Flank	NM_004765	NP_004756	Q8WUZ0	BCL7C_HUMAN	B-cell CLL/lymphoma 7C	64					apoptosis						0			Colorectal(24;0.198)			CTCTGCCCCGCCACCTGCCCG	0.617													5	70					0	0	1	0	0		T	30904250	T	T	30904250	3	4	155	1	0	0	0	0	1	0	0	0	1381	739	26	2	478	2	BCL7C	16	30904250	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	124792	30904250	59450503	1176	85003											
FBXL19	54620	broad.mit.edu	37	chr16	30941646	30941646	+	Frame_Shift_Del	DEL	G	-	-																															ctggcgagaaggagaaccgtGgggggcggcgggctgtgcgc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:30941646delG	uc002eab.2	+	7	1260	c.1102delG	c.(1102-1104)GGGfs	p.G368fs	FBXL19_uc002dzz.1_Frame_Shift_Del_p.G56fs|FBXL19_uc002eaa.1_Frame_Shift_Del_p.G267fs	NM_001099784	NP_001093254	Q6PCT2	FXL19_HUMAN	F-box and leucine-rich repeat protein 19	368							DNA binding|zinc ion binding			ovary(2)|lung(1)|breast(1)	4						GGAGAACCGTGGGGGGCGGCG	0.746													11	13	---	---	---	---						.	-	30941646	-	-	30941646	7	5	155	1	0	1	0	1	0	0	0	0	5729	1348	47	0	1128	0	FBXL19	16	30941646	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	37396	30941646	59413107	1177	85004											
PRSS36	146547	broad.mit.edu	37	chr16	31154711	31154711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctttcagacaccagcGccccatggcagggtctggat	8	7	11	15	1	2	1	1	0	1	1	2	2	2	2	4	3	2	2	4	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:31154711G>A	uc002ebd.2	-	8	1111	c.1052C>T	c.(1051-1053)GCG>GTG	p.A351V	PRSS36_uc010vff.1_Missense_Mutation_p.A126V|PRSS36_uc010vfg.1_Missense_Mutation_p.A351V|PRSS36_uc010vfh.1_Missense_Mutation_p.A351V	NM_173502	NP_775773	Q5K4E3	POLS2_HUMAN	protease, serine, 36 precursor	351	Peptidase S1 2.				proteolysis	cytoplasm|proteinaceous extracellular matrix	serine-type endopeptidase activity			ovary(1)	1						AGACACCAGCGCCCCATGGCA	0.642													17	72					0	0	1	0	0		A	31154711	A	A	31154711	3	1	155	1	0	0	0	0	1	0	0	0	12647	1087	38	1	1547	1	PRSS36	16	31154711	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	213065	31154711	59200042	1178	85005											
VPS35	55737	broad.mit.edu	37	chr16	46715400	46715400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaagtagtgcagttcatcaGaaatggccatatcttttaat	13	13	7	8	0	3	1	2	0	1	1	3	1	3	1	2	1	1	3	2	1	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:46715400G>A	uc002eef.3	-	4	311	c.212C>T	c.(211-213)TCT>TTT	p.S71F	VPS35_uc002eed.2_5'Flank|VPS35_uc002eee.2_Missense_Mutation_p.S32F	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	71					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				CAGTTCATCAGAAATGGCCAT	0.363													50	89					0	0	1	0	0		A	46715400	A	A	46715400	3	1	155	1	0	0	0	0	1	0	0	0	17229	942	33	4	2234	4	VPS35	16	46715400	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	15560689	46715400	43639353	1179	85006											
BRD7	29117	broad.mit.edu	37	chr16	50357571	50357571	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaactatctgccatgacaTacggataatcttggcacgtg	12	11	9	9	2	2	1	0	1	2	0	2	2	2	2	1	2	3	2	1	2	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:50357571T>A	uc002egf.1	-	13	1437	c.1370A>T	c.(1369-1371)TAT>TTT	p.Y457F	BRD7_uc002ege.1_Missense_Mutation_p.Y457F	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	457					cell cycle|negative regulation of cell proliferation|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of histone acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|nucleus	histone acetyl-lysine binding|p53 binding|transcription coactivator activity|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding				0		all_cancers(37;0.0127)				TGCCATGACATACGGATAATC	0.443													51	83					0	0	1	0	0		A	50357571	A	A	50357571	3	1	155	1	0	0	0	0	1	0	0	0	1508	1406	49	5	612	5	BRD7	16	50357571	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3642171	50357571	39997182	1180	85007											
SALL1	6299	broad.mit.edu	37	chr16	51175249	51175249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgtgccaatccagctgctGctgccagctgctgagataaa	9	10	10	12	0	1	1	0	1	1	1	2	2	2	1	3	0	7	5	3	0	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:51175249G>A	uc010vgs.1	-	2	915	c.884C>T	c.(883-885)GCA>GTA	p.A295V	SALL1_uc010vgr.1_Missense_Mutation_p.A198V|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	295	Poly-Ala.				adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TCCAGCTGCTGCTGCCAGCTG	0.527													33	67					0	0	1	0	0		A	51175249	A	A	51175249	3	1	155	1	0	0	0	0	1	0	0	0	13835	1319	46	2	3098	2	SALL1	16	51175249	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	817678	51175249	39179504	1181	85008											
IRX6	79190	broad.mit.edu	37	chr16	55363164	55363164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggactaccgctgaactgtgCgccgtgcccgcggaggagcg	6	5	17	13	6	0	1	0	1	0	0	0	4	0	4	3	3	5	1	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:55363164C>T	uc002ehy.2	+	5	1807	c.1274C>T	c.(1273-1275)GCG>GTG	p.A425V	IRX6_uc002ehx.2_Missense_Mutation_p.A425V	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	425						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CTGAACTGTGCGCCGTGCCCG	0.617													25	36					0	0	1	0	0		T	55363164	T	T	55363164	3	4	155	1	0	0	0	0	1	0	0	0	7864	768	27	1	1292	1	IRX6	16	55363164	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4187915	55363164	34991589	1182	85009											
MMP2	4313	broad.mit.edu	37	chr16	55527106	55527106	+	Frame_Shift_Del	DEL	C	-	-																															tgaccttggcaccggccccaCccccacgctgggccctgtca																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:55527106delC	uc002ehz.3	+	9	1684	c.1373delC	c.(1372-1374)ACCfs	p.T458fs	MMP2_uc010vhd.1_Frame_Shift_Del_p.T382fs|MMP2_uc010ccc.2_Frame_Shift_Del_p.T408fs|MMP2_uc002eia.3_5'UTR	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	458	Required for inhibitor TIMP2 binding.|Collagenase-like 2.				angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	ACCGGCCCCACCCCCACGCTG	0.582													86	108	---	---	---	---						.	-	55527106	-	-	55527106	7	5	155	1	0	1	0	1	0	0	0	0	9676	507	18	0	1414	0	MMP2	16	55527106	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	163942	55527106	34827647	1183	85010											
SLC6A2	6530	broad.mit.edu	37	chr16	55690817	55690817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttcctgctgtccgtagtcGgcttcgcagtggacctggcc	4	11	12	14	3	0	0	0	0	0	0	4	1	2	1	4	3	1	4	4	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:55690817G>A	uc002eif.2	+	2	322	c.211G>A	c.(211-213)GGC>AGC	p.G71S	SLC6A2_uc010ccd.2_Missense_Mutation_p.G71S|SLC6A2_uc002eig.2_Missense_Mutation_p.G71S|SLC6A2_uc002eih.2_Missense_Mutation_p.G71S	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	71	Helical; Name=1; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	GTCCGTAGTCGGCTTCGCAGT	0.672													32	59					0	0	1	0	0		A	55690817	A	A	55690817	3	1	155	1	0	0	0	0	1	0	0	0	14708	1116	39	1	213	1	SLC6A2	16	55690817	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	163711	55690817	34663936	1184	85011											
CDH8	1006	broad.mit.edu	37	chr16	61687979	61687979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttcatttttatgccgccGtagagttacaaacagcacca	11	12	8	10	2	1	1	1	0	0	1	1	1	1	1	3	1	4	4	3	1	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:61687979G>A	uc002eog.1	-	12	2185	c.1933C>T	c.(1933-1935)CGG>TGG	p.R645W		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	645	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TTATGCCGCCGTAGAGTTACA	0.383													63	84					0	0	1	0	0		A	61687979	A	A	61687979	3	1	155	1	0	0	0	0	1	0	0	0	3119	1144	40	1	470	1	CDH8	16	61687979	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5997162	61687979	28666774	1185	85012											
CDH5	1003	broad.mit.edu	37	chr16	66426078	66426078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcaatacagcttcatcGtcgaggccacagaccccacc	11	6	7	17	2	1	1	1	0	0	1	4	2	2	1	5	1	3	2	5	1	2	2	rs147523967		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:66426078G>A	uc002eom.3	+	7	1165	c.1009G>A	c.(1009-1011)GTC>ATC	p.V337I	CDH5_uc002eon.1_Missense_Mutation_p.V337I	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	337	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		CAGCTTCATCGTCGAGGCCAC	0.433													105	138					0	0	1	0	0		A	66426078	A	A	66426078	3	1	155	1	0	0	0	0	1	0	0	0	3116	1145	40	1	1031	1	CDH5	16	66426078	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4738099	66426078	23928675	1186	85013											
B3GNT9	84752	broad.mit.edu	37	chr16	67183811	67183811	+	Missense_Mutation	SNP	A	T	T	1	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	tgtcgtcgaaggcccagagcAggatgtccgcatacgcaagg	10	6	14	11	4	0	1	0	0	0	1	3	3	1	2	2	3	2	3	2	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:67183811A>T	uc002erf.2	-	2	899	c.578T>A	c.(577-579)CTG>CAG	p.L193Q	uc002erg.1_Missense_Mutation_p.R72W	NM_033309	NP_171608	Q6UX72	B3GN9_HUMAN	UDP-GlcNAc:betaGal	193	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0						GGCCCAGAGCAGGATGTCCGC	0.642													4	15					0	0	1	0	0		T	67183811	T	T	67183811	3	4	155	1	0	0	0	0	1	0	0	0	1265	188	7	5	634	5	B3GNT9	16	67183811	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	757733	67183811	23170942	1187	85014											
PLEKHG4	25894	broad.mit.edu	37	chr16	67322195	67322195	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtccctcaacctgcacCtgtacagagacccagctctt	8	9	9	15	0	2	1	1	0	1	1	3	2	3	1	4	2	4	3	4	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:67322195C>A	uc002eso.3	+	19	5881	c.3346C>A	c.(3346-3348)CTG>ATG	p.L1116M	PLEKHG4_uc002esp.3_Missense_Mutation_p.L923M|PLEKHG4_uc002esq.3_Missense_Mutation_p.L1116M|PLEKHG4_uc010cef.2_Missense_Mutation_p.L1116M|PLEKHG4_uc002ess.3_Missense_Mutation_p.L1116M|PLEKHG4_uc010ceg.2_Missense_Mutation_p.L1035M	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	1116					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		CAACCTGCACCTGTACAGAGA	0.632													10	174					3.07112e-06	3.16389e-06	1	1	0		A	67322195	A	A	67322195	3	1	155	1	0	0	0	0	1	0	0	0	12090	680	24	5	3420	5	PLEKHG4	16	67322195	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	138384	67322195	23032558	1188	85015											
TSNAXIP1	55815	broad.mit.edu	37	chr16	67859956	67859956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgcacttccacgccgcGgcctgactggaccaagtgca	8	5	11	17	4	0	1	0	1	0	0	1	2	1	2	5	2	2	2	5	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:67859956G>A	uc002euj.2	+	9	1353	c.959G>A	c.(958-960)CGG>CAG	p.R320Q	TSNAXIP1_uc010cep.2_3'UTR|TSNAXIP1_uc010vjz.1_Missense_Mutation_p.R197Q|TSNAXIP1_uc002euf.3_Missense_Mutation_p.R28Q|TSNAXIP1_uc010vka.1_Missense_Mutation_p.R374Q|TSNAXIP1_uc010vkb.1_Missense_Mutation_p.R305Q|TSNAXIP1_uc002eug.3_Missense_Mutation_p.R28Q|TSNAXIP1_uc002euh.3_Missense_Mutation_p.R28Q|TSNAXIP1_uc002eui.3_Missense_Mutation_p.R28Q|TSNAXIP1_uc002euk.2_Missense_Mutation_p.R28Q	NM_018430	NP_060900	Q2TAA8	TXIP1_HUMAN	translin-associated factor X interacting protein	320					cell differentiation|multicellular organismal development|spermatogenesis	perinuclear region of cytoplasm					0		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00432)|Epithelial(162;0.0192)|all cancers(182;0.125)		TCCACGCCGCGGCCTGACTGG	0.607													29	27					0	0	1	0	0		A	67859956	A	A	67859956	3	1	155	1	0	0	0	0	1	0	0	0	16658	1116	39	1	985	1	TSNAXIP1	16	67859956	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	537761	67859956	22494797	1189	85016											
PLA2G15	23659	broad.mit.edu	37	chr16	68289275	68289275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctccctatgactggcgccGagccccaagtaagcaggcac	9	5	12	15	2	0	1	0	1	0	0	1	2	1	1	4	3	2	4	4	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:68289275G>A	uc002evr.2	+	4	577	c.494G>A	c.(493-495)CGA>CAA	p.R165Q	PLA2G15_uc010vld.1_Missense_Mutation_p.R165Q|PLA2G15_uc010vle.1_Missense_Mutation_p.E113K|PLA2G15_uc010vlf.1_Intron|PLA2G15_uc002evs.2_5'UTR	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	165					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						GACTGGCGCCGAGCCCCAAGT	0.612													6	39					0	0	1	0	0		A	68289275	A	A	68289275	3	1	155	1	0	0	0	0	1	0	0	0	12011	1058	37	1	508	1	PLA2G15	16	68289275	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	429319	68289275	22065478	1190	85017											
ZFP90	146198	broad.mit.edu	37	chr16	68597365	68597365	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctttattcatagatcatcGcttactaaacatgagaaaac	15	12	5	9	1	2	2	2	1	0	2	3	3	2	2	1	0	3	1	1	0	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:68597365G>T	uc010cff.2	+	5	967	c.675G>T	c.(673-675)TCG>TCT	p.S225S	ZFP90_uc002ewb.2_Missense_Mutation_p.R31L|ZFP90_uc002ewc.2_Missense_Mutation_p.R31L|ZFP90_uc002ewd.2_Silent_p.S225S|ZFP90_uc002ewe.2_Silent_p.S225S	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90	225	C2H2-type 1.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		ATAGATCATCGCTTACTAAAC	0.348													92	134					4.35598e-54	4.83644e-54	1	1	0		T	68597365	T	T	68597365	2	4	155	1	0	0	0	0	0	0	0	1	17679	1074	38	5		5	ZFP90	16	68597365	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	308090	68597365	21757388	1191	85018											
CDH3	1001	broad.mit.edu	37	chr16	68732231	68732231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgaccaagaccaagattaCgattatctgaacgagtgggg	13	8	11	9	3	1	3	0	1	1	2	2	6	2	3	3	2	2	0	3	2	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:68732231C>T	uc002ewf.2	+	16	3550	c.2418C>T	c.(2416-2418)TAC>TAT	p.Y806Y	CDH3_uc010vli.1_Silent_p.Y751Y	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	806	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		ACCAAGATTACGATTATCTGA	0.632													38	63					0	0	1	0	0		T	68732231	T	T	68732231	2	4	155	1	0	0	0	0	0	0	0	1	3114	547	19	1		1	CDH3	16	68732231	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	134866	68732231	21622522	1192	85019											
TMED6	146456	broad.mit.edu	37	chr16	69377541	69377541	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcaccttttgtgtgccGtcctatgagagagacaattt	8	15	9	9	1	1	2	0	1	1	2	2	4	2	2	3	0	2	1	3	0	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:69377541G>A	uc002exc.1	-	4	525	c.492C>T	c.(490-492)GAC>GAT	p.D164D		NM_144676	NP_653277	Q8WW62	TMED6_HUMAN	transmembrane emp24 protein transport domain	164	Lumenal (Potential).				transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1						TTTGTGTGCCGTCCTATGAGA	0.428													94	145					0	0	1	0	0		A	69377541	A	A	69377541	2	1	155	1	0	0	0	0	0	0	0	1	16033	1136	40	1		1	TMED6	16	69377541	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	645310	69377541	20977212	1193	85020											
DDX19A	55308	broad.mit.edu	37	chr16	70400155	70400155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccaagatcagagcatcCgcatccagaggtagggatct	12	6	11	12	1	2	3	1	0	1	3	4	4	4	4	4	2	1	3	4	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:70400155C>T	uc002eyv.2	+	8	843	c.772C>T	c.(772-774)CGC>TGC	p.R258C	DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Missense_Mutation_p.R259C|DDX19A_uc010cfq.1_Missense_Mutation_p.R13C|DDX19A_uc010cfr.2_Missense_Mutation_p.R108C|DDX19A_uc010cfs.2_Missense_Mutation_p.R81C|DDX19A_uc010vlz.1_Missense_Mutation_p.R227C|DDX19A_uc010vma.1_Missense_Mutation_p.R168C	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	258	Helicase ATP-binding.				mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				TCAGAGCATCCGCATCCAGAG	0.537													18	35					0	0	1	0	0		T	70400155	T	T	70400155	3	4	155	1	0	0	0	0	1	0	0	0	4349	652	23	1	802	1	DDX19A	16	70400155	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1022614	70400155	19954598	1194	85021											
HYDIN	54768	broad.mit.edu	37	chr16	70917932	70917932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacactttcccatggcGtcagccacacagtcaacgtt	9	10	6	16	2	3	0	3	0	0	0	5	0	5	0	3	1	2	1	3	1	1	2	rs141625832	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:70917932G>A	uc002ezr.2	-	59	9995	c.9867C>T	c.(9865-9867)GAC>GAT	p.D3289D		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3290										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TTCCCATGGCGTCAGCCACAC	0.567													20	25					0	0	1	0	0		A	70917932	A	A	70917932	2	1	155	1	0	0	0	0	0	0	0	1	7483	1136	40	1		1	HYDIN	16	70917932	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	517777	70917932	19436821	1195	85022											
HYDIN	54768	broad.mit.edu	37	chr16	71163613	71163613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccagcctcctctgattcGcaaaggttcgggacagaaca	11	7	10	13	2	1	2	0	1	1	1	4	3	2	3	3	2	2	3	3	2	2	2	rs150136432	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:71163613G>A	uc002ezr.2	-	9	1285	c.1157C>T	c.(1156-1158)GCG>GTG	p.A386V	HYDIN_uc010cfz.1_Missense_Mutation_p.A131V|HYDIN_uc002ezv.2_Missense_Mutation_p.A386V|HYDIN_uc010vmc.1_Missense_Mutation_p.A403V|HYDIN_uc010vmd.1_Missense_Mutation_p.A413V|HYDIN_uc002ezw.3_Missense_Mutation_p.A403V	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	386										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CCTCTGATTCGCAAAGGTTCG	0.448													33	47					0	0	1	0	0		A	71163613	A	A	71163613	3	1	155	1	0	0	0	0	1	0	0	0	7483	1087	38	1	14529	1	HYDIN	16	71163613	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	245681	71163613	19191140	1196	85023											
PHLPP2	23035	broad.mit.edu	37	chr16	71683907	71683907	+	Missense_Mutation	SNP	A	C	C	1	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	ggtagaggtatgtacagcccAgcatccgggtacagcaggtt	10	8	14	9	1	0	1	0	0	0	1	1	1	1	1	2	4	5	7	2	4	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:71683907A>C	uc002fax.2	-	18	2864	c.2858T>G	c.(2857-2859)CTG>CGG	p.L953R	PHLPP2_uc002fav.2_Intron|PHLPP2_uc010cgf.2_Missense_Mutation_p.L886R	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	953	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TGTACAGCCCAGCATCCGGGT	0.483													33	50					0	0	1	0	0		C	71683907	C	C	71683907	3	2	155	1	0	0	0	0	1	0	0	0	11874	188	7	5	1117	5	PHLPP2	16	71683907	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	520294	71683907	18670846	1197	85024											
ZFHX3	463	broad.mit.edu	37	chr16	72991924	72991924	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccagccgggggtggggctgCccgcttttgcagtagacaca	6	7	16	12	2	0	1	0	0	0	1	0	1	0	1	3	4	3	4	3	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:72991924C>T	uc002fck.2	-	2	2794	c.2121G>A	c.(2119-2121)GGG>GGA	p.G707G	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	707					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GGTGGGGCTGCCCGCTTTTGC	0.597													6	135					0	0	1	0	0		T	72991924	T	T	72991924	2	4	155	1	0	0	0	0	0	0	0	1	17659	726	26	2		2	ZFHX3	16	72991924	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1308017	72991924	17362829	1198	85025											
ZFHX3	463	broad.mit.edu	37	chr16	72993370	72993370	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggaagctgtgcaggacgggGctgagccccgccagggctga	7	4	18	12	3	0	2	0	2	0	0	0	4	0	4	3	5	3	4	3	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:72993370G>A	uc002fck.2	-	2	1348	c.675C>T	c.(673-675)AGC>AGT	p.S225S	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	225					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCAGGACGGGGCTGAGCCCCG	0.557													76	155					0	0	1	0	0		A	72993370	A	A	72993370	2	1	155	1	0	0	0	0	0	0	0	1	17659	1194	42	2		2	ZFHX3	16	72993370	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1446	72993370	17361383	1199	85026											
CHST6	4166	broad.mit.edu	37	chr16	75513508	75513508	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agggtggtccacacgtgccaCgcgggctccattaggtagaa	9	7	14	11	3	0	1	0	0	0	1	2	1	2	1	3	4	1	2	3	4	3	2	rs140123684		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:75513508C>T	uc002fef.2	-	3	399	c.219G>A	c.(217-219)GCG>GCA	p.A73A	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Silent_p.A73A	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	73	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						ACACGTGCCACGCGGGCTCCA	0.657													11	21					0	0	1	0	0		T	75513508	T	T	75513508	2	4	155	1	0	0	0	0	0	0	0	1	3411	523	19	1		1	CHST6	16	75513508	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2520138	75513508	14841245	1200	85027											
ADAMTS18	170692	broad.mit.edu	37	chr16	77401409	77401409	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgtctctcgactctgaGatgcatggggaatgtgactt	8	13	11	9	1	3	2	0	2	3	1	5	5	3	3	0	2	1	1	0	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:77401409G>T	uc002ffc.3	-	4	1126	c.707C>A	c.(706-708)TCT>TAT	p.S236Y	ADAMTS18_uc002ffe.1_5'UTR|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	236					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCGACTCTGAGATGCATGGGG	0.478													45	102					5.34276e-22	5.76355e-22	1	1	0		T	77401409	T	T	77401409	3	4	155	1	0	0	0	0	1	0	0	0	263	942	33	5	3038	5	ADAMTS18	16	77401409	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1887901	77401409	12953344	1201	85028											
PLCG2	5336	broad.mit.edu	37	chr16	81944273	81944273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgcgctgcgccgagttcGagctgcggctcacggaccct	5	7	13	16	6	1	0	1	0	0	0	2	3	1	1	3	2	4	4	3	2	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:81944273G>A	uc002fgt.2	+	18	2034	c.1882G>A	c.(1882-1884)GAG>AAG	p.E628K	PLCG2_uc010chg.1_Missense_Mutation_p.E628K	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	628	SH2 1.				intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						CGCCGAGTTCGAGCTGCGGCT	0.627													81	125					0	0	1	0	0		A	81944273	A	A	81944273	3	1	155	1	0	0	0	0	1	0	0	0	12055	1059	37	1	1948	1	PLCG2	16	81944273	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4542864	81944273	8410480	1202	85029											
MBTPS1	8720	broad.mit.edu	37	chr16	84096957	84096957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattggagtccccatacagtAcaatccggcctccaccctca	11	8	6	16	1	1	0	1	0	0	0	4	1	4	1	6	2	2	1	6	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:84096957A>G	uc002fhi.2	-	19	3027	c.2525T>C	c.(2524-2526)GTA>GCA	p.V842A	MBTPS1_uc002fhh.2_Missense_Mutation_p.V346A	NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	842	Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						CCCATACAGTACAATCCGGCC	0.478											OREG0023981	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	57	69					0	0	1	0	0		G	84096957	G	G	84096957	3	3	155	1	0	0	0	0	1	0	0	0	9379	391	14	3	653	3	MBTPS1	16	84096957	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2152684	84096957	6257796	1203	85030											
KCNG4	93107	broad.mit.edu	37	chr16	84256395	84256395	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaccagccccaccttctCcaggtaggagctcccgctcg	7	6	10	18	2	1	0	0	0	1	0	4	2	2	2	6	3	2	3	6	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:84256395C>A	uc010voc.1	-	3	1109	c.988G>T	c.(988-990)GAG>TAG	p.E330*		NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	330						voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						CCCACCTTCTCCAGGTAGGAG	0.677													3	26					1	1	1	1	0		A	84256395	A	A	84256395	4	1	155	1	0	0	0	0	0	1	0	0	8046	864	30	5	573	5	KCNG4	16	84256395	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	159438	84256395	6098358	1204	85031											
CRISPLD2	83716	broad.mit.edu	37	chr16	84940242	84940242	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttccggatctttgctgtcagGcagtgaatttccagcaccag	8	12	10	11	1	2	1	1	1	1	0	4	2	4	2	3	2	2	3	3	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:84940242G>A	uc010voh.1	+	15	1715	c.1488G>A	c.(1486-1488)AGG>AGA	p.R496R	CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Silent_p.R495R	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	496						extracellular region|transport vesicle					0						TTGCTGTCAGGCAGTGAATTT	0.517													67	118					0	0	1	0	0		A	84940242	A	A	84940242	2	1	155	1	0	0	0	0	0	0	0	1	3886	1194	42	2		2	CRISPLD2	16	84940242	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	683847	84940242	5414511	1205	85032											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445308	87445308	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatgggtggcacggcaaAcgtggactgcccactcagga	9	6	14	12	2	1	0	1	0	0	0	1	2	1	2	1	5	3	3	1	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:87445308A>G	uc002fjz.1	-	12	2635	c.2608T>C	c.(2608-2610)TTT>CTT	p.F870L	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.F646L	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	870					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GGCACGGCAAACGTGGACTGC	0.632													16	34					0	0	1	0	0		G	87445308	G	G	87445308	3	3	155	1	0	0	0	0	1	0	0	0	17608	43	2	3	249	3	ZCCHC14	16	87445308	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2505066	87445308	2909445	1206	85033											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445883	87445883	+	Frame_Shift_Del	DEL	G	-	-																															aggcaactttggtgttggctGtgtacagagcagtccggggg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:87445883delG	uc002fjz.1	-	12	2060	c.2033delC	c.(2032-2034)ACAfs	p.T678fs	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Frame_Shift_Del_p.T454fs	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	678					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GGTGTTGGCTGTGTACAGAGC	0.522													73	128	---	---	---	---						.	-	87445883	-	-	87445883	7	5	155	1	0	1	0	1	0	0	0	0	17608	1377	48	0	824	0	ZCCHC14	16	87445883	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	575	87445883	2908870	1207	85034											
ZNF778	197320	broad.mit.edu	37	chr16	89291990	89291990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttaaaaccaaagggccagCacttcggcaggatagatctt	14	8	9	10	1	1	1	0	0	1	1	2	2	1	2	2	3	2	2	2	3	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:89291990C>T	uc002fmv.2	+	5	611	c.272C>T	c.(271-273)GCA>GTA	p.A91V	ZNF778_uc010vpf.1_RNA|ZNF778_uc002fmw.1_Missense_Mutation_p.A49V|ZNF778_uc010vpg.1_5'UTR	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	91	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		AAAGGGCCAGCACTTCGGCAG	0.363													3	30					0	0	1	0	0		T	89291990	T	T	89291990	3	4	155	1	0	0	0	0	1	0	0	0	18176	710	25	2	286	2	ZNF778	16	89291990	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1846107	89291990	1062763	1208	85035											
TUBB3	10381	broad.mit.edu	37	chr16	90002143	90002143	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccagcagtaccaggacgcCacggccgaggaagagggcga	12	2	15	12	4	0	1	0	0	0	1	0	5	0	3	4	4	3	2	4	4	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr16:90002143C>T	uc002fph.1	+	4	1349	c.1284C>T	c.(1282-1284)GCC>GCT	p.A428A	TUBB3_uc002fpf.2_Silent_p.A775A|TUBB3_uc010ciz.1_Silent_p.A356A|TUBB3_uc002fpg.1_Silent_p.A282A|TUBB3_uc002fpi.1_Silent_p.A356A|TUBB3_uc002fpj.1_Silent_p.A356A|TUBB3_uc010cjb.1_Silent_p.A282A|TUBB3_uc002fpk.1_Silent_p.A282A	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	428					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		ACCAGGACGCCACGGCCGAGG	0.632													50	52					0	0	1	0	0		T	90002143	T	T	90002143	2	4	155	1	0	0	0	0	0	0	0	1	16783	581	21	4		4	TUBB3	16	90002143	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	710153	90002143	352610	1209	85036											
ABR	29	broad.mit.edu	37	chr17	970393	970393	+	Missense_Mutation	SNP	A	G	G	1	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	catggtctgggaaggggtgcAcctgggggctggcctcagac	6	7	18	10	0	2	1	1	0	1	1	2	2	2	2	2	7	1	2	2	7	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:970393A>G	uc002fsd.2	-	10	1216	c.1106T>C	c.(1105-1107)GTG>GCG	p.V369A	ABR_uc002fse.2_Missense_Mutation_p.V323A|ABR_uc010vqg.1_Missense_Mutation_p.V151A|ABR_uc002fsg.2_Missense_Mutation_p.V332A|ABR_uc002fsh.1_Missense_Mutation_p.V253A	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	369	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		GAAGGGGTGCACCTGGGGGCT	0.567													11	54					0	0	1	0	0		G	970393	G	G	970393	3	3	155	1	0	0	0	0	1	0	0	0	99	159	6	3	1529	3	ABR	17	970393	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08		970393	80224817	1210	85037											
PITPNA	5306	broad.mit.edu	37	chr17	1456410	1456410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acccgtttcatttttactggCctcagccacagaatacagct	10	12	6	13	1	2	1	2	0	0	1	2	1	2	1	3	1	4	2	3	1	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:1456410C>T	uc002fst.3	-	3	341	c.85G>A	c.(85-87)GCC>ACC	p.A29T	PITPNA_uc010cjt.2_5'UTR|PITPNA_uc010cju.2_5'UTR|PITPNA_uc010vqn.1_RNA	NM_006224	NP_006215	Q00169	PIPNA_HUMAN	phosphatidylinositol transfer protein, alpha	29					axon guidance|lipid metabolic process|visual perception	cytoplasm	phosphatidylcholine transmembrane transporter activity|phosphatidylinositol transporter activity|protein binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0845)		TTTTTACTGGCCTCAGCCACA	0.507													18	81					0	0	1	0	0		T	1456410	T	T	1456410	3	4	155	1	0	0	0	0	1	0	0	0	11966	739	26	2	763	2	PITPNA	17	1456410	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	486017	1456410	79738800	1211	85038											
KIAA0664	23277	broad.mit.edu	37	chr17	2595920	2595920	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaccagcagcatgaggtagCgggcgcggtacagcaggctc	10	4	15	12	3	0	1	0	1	0	0	1	1	0	1	1	4	5	6	1	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:2595920C>T	uc002fuy.1	-	21	3352	c.3266G>A	c.(3265-3267)CGC>CAC	p.R1089H	KIAA0664_uc002fux.1_Missense_Mutation_p.R1022H|KIAA0664_uc010ckc.1_Missense_Mutation_p.R75H	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	1089							binding			breast(2)	2						CATGAGGTAGCGGGCGCGGTA	0.701													5	8					0	0	1	0	0		T	2595920	T	T	2595920	3	4	155	1	0	0	0	0	1	0	0	0	8205	768	27	1	687	1	KIAA0664	17	2595920	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1139510	2595920	78599290	1212	85039											
OR1A1	8383	broad.mit.edu	37	chr17	3119822	3119822	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggctgccctgcggaaactctTcaacaagagaatctcctcgt	10	9	9	13	2	3	1	1	0	2	1	5	3	3	2	2	2	4	1	2	2	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:3119822T>C	uc010vrc.1	+	1	908	c.908T>C	c.(907-909)TTC>TCC	p.F303S		NM_014565	NP_055380	Q9P1Q5	OR1A1_HUMAN	olfactory receptor, family 1, subfamily A,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CGGAAACTCTTCAACAAGAGA	0.413													4	179					0	0	1	0	0		C	3119822	C	C	3119822	3	2	155	1	0	0	0	0	1	0	0	0	10968	1783	62	3	910	3	OR1A1	17	3119822	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	523902	3119822	78075388	1213	85040											
ATP2A3	489	broad.mit.edu	37	chr17	3846007	3846007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagggtgaactccttccGcatcagctgcttgatgacct	7	11	9	14	1	1	3	1	3	0	0	4	3	4	3	4	1	3	3	4	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:3846007G>A	uc002fxb.1	-	12	1589	c.1438C>T	c.(1438-1440)CGG>TGG	p.R480W	ATP2A3_uc002fwx.1_Missense_Mutation_p.R480W|ATP2A3_uc002fwy.1_Missense_Mutation_p.R480W|ATP2A3_uc002fwz.1_Missense_Mutation_p.R480W|ATP2A3_uc002fxa.1_Missense_Mutation_p.R480W|ATP2A3_uc002fxc.1_Missense_Mutation_p.R480W|ATP2A3_uc002fxd.1_Missense_Mutation_p.R480W	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	480	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		AACTCCTTCCGCATCAGCTGC	0.617													5	110					0	0	1	0	0		A	3846007	A	A	3846007	3	1	155	1	0	0	0	0	1	0	0	0	1139	1086	38	1	1812	1	ATP2A3	17	3846007	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	726185	3846007	77349203	1214	85041											
ANKFY1	51479	broad.mit.edu	37	chr17	4086805	4086805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgacatggtgtcattgatggCggctccagagcccagcagct	8	8	13	12	2	1	2	1	1	0	1	2	3	2	2	2	3	3	3	2	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:4086805C>T	uc002fxq.1	-	14	1878	c.1840G>A	c.(1840-1842)GCC>ACC	p.A614T	ANKFY1_uc002fxn.2_Missense_Mutation_p.A656T|ANKFY1_uc002fxo.2_Missense_Mutation_p.A614T|ANKFY1_uc002fxp.2_Missense_Mutation_p.A613T|ANKFY1_uc010ckp.2_Missense_Mutation_p.A555T	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	614	ANK 8.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						TCATTGATGGCGGCTCCAGAG	0.597													13	85					0	0	1	0	0		T	4086805	T	T	4086805	3	4	155	1	0	0	0	0	1	0	0	0	626	768	27	1	1720	1	ANKFY1	17	4086805	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	240798	4086805	77108405	1215	85042											
MYBBP1A	10514	broad.mit.edu	37	chr17	4451551	4451551	+	Silent	SNP	A	G	G	1	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	tggtaggtccagggctgcccAccctgggtctggcccggtgc	3	8	16	14	1	1	0	0	0	1	0	2	0	2	0	4	6	2	2	4	6	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:4451551A>G	uc002fyb.3	-	12	1673	c.1611T>C	c.(1609-1611)GGT>GGC	p.G537G	MYBBP1A_uc002fxz.3_Silent_p.G537G	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	537	Interaction with MYB (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						AGGGCTGCCCACCCTGGGTCT	0.622													45	69					0	0	1	0	0		G	4451551	G	G	4451551	2	3	155	1	0	0	0	0	0	0	0	1	10026	146	6	3		3	MYBBP1A	17	4451551	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	364746	4451551	76743659	1216	85043											
PLD2	5338	broad.mit.edu	37	chr17	4722789	4722789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgagctggccgtgctgatcGaggacacagagacggaacca	11	5	15	10	3	0	3	0	2	0	1	1	7	0	5	2	3	3	2	2	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:4722789G>A	uc002fzc.2	+	23	2475	c.2374G>A	c.(2374-2376)GAG>AAG	p.E792K	PLD2_uc002fzd.2_Missense_Mutation_p.E792K	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	792					cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	CGTGCTGATCGAGGACACAGA	0.607													22	19					0	0	1	0	0		A	4722789	A	A	4722789	3	1	155	1	0	0	0	0	1	0	0	0	12065	1059	37	1	2460	1	PLD2	17	4722789	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	271238	4722789	76472421	1217	85044											
ENO3	2027	broad.mit.edu	37	chr17	4856581	4856581	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttccagaaactaagcgttgtGgatcaagaaaaagttgacaa	17	9	9	6	1	1	3	1	1	0	2	2	4	2	4	1	1	2	2	1	1	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:4856581G>A	uc002gab.3	+	5	349	c.255G>A	c.(253-255)GCG>GCA	p.A85A	ENO3_uc010vsr.1_5'UTR|ENO3_uc002gac.3_Silent_p.A85A|ENO3_uc010vss.1_Intron|ENO3_uc010vst.1_5'Flank	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	85					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						TAAGCGTTGTGGATCAAGAAA	0.478													114	172					0	0	1	0	0		A	4856581	A	A	4856581	2	1	155	1	0	0	0	0	0	0	0	1	5131	1335	47	4		4	ENO3	17	4856581	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	133792	4856581	76338629	1218	85045											
CAMTA2	23125	broad.mit.edu	37	chr17	4876881	4876881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctgcccttgctcaccGccactggctcagggtctcga	5	8	10	18	2	3	0	2	0	1	0	4	1	3	0	4	2	3	3	4	2	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:4876881G>A	uc002gah.1	-	13	2308	c.2200C>T	c.(2200-2202)CGG>TGG	p.R734W	CAMTA2_uc010cku.1_Missense_Mutation_p.R757W|CAMTA2_uc002gag.1_Missense_Mutation_p.R733W|CAMTA2_uc002gai.1_Missense_Mutation_p.R736W|CAMTA2_uc010ckv.1_Missense_Mutation_p.R381W	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	734	ANK 1.				cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						CTTGCTCACCGCCACTGGCTC	0.647													4	10					0	0	1	0	0		A	4876881	A	A	4876881	3	1	155	1	0	0	0	0	1	0	0	0	2617	1101	38	1	1502	1	CAMTA2	17	4876881	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	20300	4876881	76318329	1219	85046											
KIF1C	10749	broad.mit.edu	37	chr17	4906103	4906103	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	catcgtcttcacacagcgctGccatgaccagctcacggggc	8	7	10	16	3	3	1	2	1	1	0	4	1	3	1	2	2	3	2	2	2	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:4906103G>T	uc002gan.1	+	8	1012	c.686G>T	c.(685-687)TGC>TTC	p.C229F		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	229	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						ACACAGCGCTGCCATGACCAG	0.607													39	54					6.1207e-33	6.72431e-33	1	1	0		T	4906103	T	T	4906103	3	4	155	1	0	0	0	0	1	0	0	0	8301	1319	46	5	708	5	KIF1C	17	4906103	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	29222	4906103	76289107	1220	85047											
PITPNM3	83394	broad.mit.edu	37	chr17	6374548	6374548	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgctgtgggagctcccctcGctcatcctccgtcctgggcg	2	10	12	17	4	1	0	1	0	0	0	7	1	5	1	5	2	1	3	5	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:6374548G>A	uc002gdd.3	-	12	1708	c.1557C>T	c.(1555-1557)AGC>AGT	p.S519S	PITPNM3_uc010cln.2_Silent_p.S483S|PITPNM3_uc010clm.2_Silent_p.S2S|PITPNM3_uc002gdc.3_Silent_p.S110S	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	519	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		AGCTCCCCTCGCTCATCCTCC	0.687													9	20					0	0	1	0	0		A	6374548	A	A	6374548	2	1	155	1	0	0	0	0	0	0	0	1	11971	1078	38	1		1	PITPNM3	17	6374548	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1468445	6374548	74820662	1221	85048											
TP53	7157	broad.mit.edu	37	chr17	7577022	7577022	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcctgcttgcttacctcGcttagtgctccctgggggca	3	14	11	13	1	0	0	0	0	0	0	3	0	2	0	3	2	4	5	3	2	2	4	rs121913344		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:7577022G>A	uc002gim.2	-	8	1110	c.916C>T	c.(916-918)CGA>TGA	p.R306*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Nonsense_Mutation_p.R306*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R174*|TP53_uc010cng.1_Nonsense_Mutation_p.R174*|TP53_uc002gii.1_Nonsense_Mutation_p.R174*|TP53_uc010cnh.1_Nonsense_Mutation_p.R306*|TP53_uc010cni.1_Nonsense_Mutation_p.R306*|TP53_uc002gij.2_Nonsense_Mutation_p.R306*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	306	Bipartite nuclear localization signal.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.		R -> Q (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R306*(99)|p.0?(7)|p.?(3)|p.R306R(2)|p.R306fs*39(2)|p.K305fs*1(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGCTTACCTCGCTTAGTGCTC	0.562	R306*(MFE296_ENDOMETRIUM)|R306*(HCC1937_BREAST)|R306*(MOLT4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R306*(RCM1_LARGE_INTESTINE)|R306*(JURLMK1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			7	144					0	0	1	0	0		A	7577022	A	A	7577022	4	1	155	1	0	0	0	0	0	1	0	0	16407	1095	38	1	370	1	TP53	17	7577022	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1202474	7577022	73618188	1222	85049											
DNAH2	146754	broad.mit.edu	37	chr17	7671512	7671512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaaattattgaaaccactCgctcaaaaatagagcagttc	16	9	8	8	1	1	2	1	1	0	1	3	3	1	3	1	1	2	3	1	1	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:7671512C>T	uc002giu.1	+	23	3882	c.3868C>T	c.(3868-3870)CGC>TGC	p.R1290C		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1290	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TGAAACCACTCGCTCAAAAAT	0.552													123	170					0	0	1	0	0		T	7671512	T	T	7671512	3	4	155	1	0	0	0	0	1	0	0	0	4608	884	31	1	3958	1	DNAH2	17	7671512	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	94490	7671512	73523698	1223	85050											
PER1	5187	broad.mit.edu	37	chr17	8052938	8052938	+	Missense_Mutation	SNP	A	G	G	1	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	ctgcctgctccgaaatgtagAcgattcggcccgtcaggaag	9	8	12	12	4	1	1	1	0	0	1	3	4	2	2	3	2	2	2	3	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:8052938A>G	uc002gkd.2	-	6	933	c.695T>C	c.(694-696)GTC>GCC	p.V232A	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Missense_Mutation_p.V216A|PER1_uc010vus.1_Missense_Mutation_p.V232A	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	232	PAS 1.				circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						CGAAATGTAGACGATTCGGCC	0.612			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					4	87					0	0	1	0	0		G	8052938	G	G	8052938	3	3	155	1	0	0	0	0	1	0	0	0	11748	275	10	3	3249	3	PER1	17	8052938	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	381426	8052938	73142272	1224	85051											
MYH13	8735	broad.mit.edu	37	chr17	10214487	10214487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctagcttcttggtcttttccGcttcctgaagattcttgcca	5	17	7	12	1	3	2	0	1	3	1	5	2	5	2	3	1	2	2	3	1	2	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:10214487G>A	uc002gmk.1	-	33	4679	c.4589C>T	c.(4588-4590)GCG>GTG	p.A1530V		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1530	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GGTCTTTTCCGCTTCCTGAAG	0.448													51	93					0	0	1	0	0		A	10214487	A	A	10214487	3	1	155	1	0	0	0	0	1	0	0	0	10050	1087	38	1	1263	1	MYH13	17	10214487	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2161549	10214487	70980723	1225	85052											
MYH8	4626	broad.mit.edu	37	chr17	10309612	10309612	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggtatgtccaaatttataTtgagtatgatcaatatcaat	14	17	6	4	0	2	2	2	2	0	0	3	2	3	2	1	1	0	2	1	1	8	8	rs145901155	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:10309612T>C	uc002gmm.2	-	20	2369	c.2274A>G	c.(2272-2274)CAA>CAG	p.Q758Q	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	758	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CAAATTTATATTGAGTATGAT	0.373									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				6	101					0	0	1	0	0		C	10309612	C	C	10309612	2	2	155	1	0	0	0	0	0	0	0	1	10059	1490	52	3		3	MYH8	17	10309612	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	95125	10309612	70885598	1226	85053											
MYH2	4620	broad.mit.edu	37	chr17	10427956	10427956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggtcctcctggctccGgagagcatcatccaggtgga	7	9	12	13	1	2	1	2	0	0	1	6	3	6	2	4	5	1	2	4	5	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:10427956G>A	uc010coi.2	-	35	5130	c.5002C>T	c.(5002-5004)CGG>TGG	p.R1668W	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R1668W|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1668	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TCCTGGCTCCGGAGAGCATCA	0.572													37	70					0	0	1	0	0		A	10427956	A	A	10427956	3	1	155	1	0	0	0	0	1	0	0	0	10053	1115	39	1	847	1	MYH2	17	10427956	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	118344	10427956	70767254	1227	85054											
MYH3	4621	broad.mit.edu	37	chr17	10535238	10535238	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcagctcctccacctcGgcctgcagcaggttggctct	4	8	11	18	2	1	0	0	0	1	0	4	0	3	0	5	3	3	6	5	3	0	1	rs149260479		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:10535238G>A	uc002gmq.1	-	34	5129	c.5052C>T	c.(5050-5052)GCC>GCT	p.A1684A		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1684	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CCTCCACCTCGGCCTGCAGCA	0.657													8	69					0	0	1	0	0		A	10535238	A	A	10535238	2	1	155	1	0	0	0	0	0	0	0	1	10054	1103	39	1		1	MYH3	17	10535238	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	107282	10535238	70659972	1228	85055											
SCO1	6341	broad.mit.edu	37	chr17	10600694	10600694	+	Missense_Mutation	SNP	A	T	T	1	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	cctccgcttgccgcgcgcagAactgcctcagcaagactctc	7	7	9	18	4	2	2	1	0	1	2	4	2	3	2	4	0	4	3	4	0	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:10600694A>T	uc002gmr.3	-	1	192	c.131T>A	c.(130-132)TTC>TAC	p.F44Y	SCO1_uc002gms.3_Missense_Mutation_p.F44Y|C17orf48_uc002gmt.2_5'Flank|C17orf48_uc002gmu.2_5'Flank|C17orf48_uc002gmv.2_5'Flank	NM_004589	NP_004580	O75880	SCO1_HUMAN	cytochrome oxidase deficient homolog 1	44					cellular copper ion homeostasis|copper ion transport|generation of precursor metabolites and energy|respiratory chain complex IV assembly	mitochondrial inner membrane	copper ion binding				0						CCGCGCGCAGAACTGCCTCAG	0.697													5	10					0	0	1	0	0		T	10600694	T	T	10600694	3	4	155	1	0	0	0	0	1	0	0	0	13956	246	9	5	798	5	SCO1	17	10600694	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	65456	10600694	70594516	1229	85056											
CDRT4	284040	broad.mit.edu	37	chr17	15341260	15341260	+	Missense_Mutation	SNP	A	T	T	1	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	gccccacattgataacgtggAttctgacagcgtgtccctga	9	10	10	12	2	1	3	0	3	1	0	2	4	2	4	3	1	2	0	3	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:15341260A>T	uc002gop.1	-	4	567	c.286T>A	c.(286-288)TCC>ACC	p.S96T	CDRT4_uc010vvw.1_3'UTR	NM_173622	NP_775893	Q8N9R6	CDRT4_HUMAN	CMT1A duplicated region transcript 4	96											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0874)		GATAACGTGGATTCTGACAGC	0.507													27	137					0	0	1	0	0		T	15341260	T	T	15341260	3	4	155	1	0	0	0	0	1	0	0	0	3179	333	12	5	173	5	CDRT4	17	15341260	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	4740566	15341260	65853950	1230	85057											
PIGL	9487	broad.mit.edu	37	chr17	16221154	16221154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acatctcccttctggatctgCccttgtctctgcttcatacg	5	15	6	15	1	5	0	1	0	4	0	7	1	5	1	2	1	3	1	2	1	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:16221154C>T	uc002gpv.2	+	6	624	c.592C>T	c.(592-594)CCC>TCC	p.P198S		NM_004278	NP_004269	Q9Y2B2	PIGL_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	198	Cytoplasmic (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	N-acetylglucosaminylphosphatidylinositol deacetylase activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0934)		TCTGGATCTGCCCTTGTCTCT	0.527													44	122					0	0	1	0	0		T	16221154	T	T	16221154	3	4	155	1	0	0	0	0	1	0	0	0	11910	739	26	2	614	2	PIGL	17	16221154	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	879894	16221154	64974056	1231	85058											
MPRIP	23164	broad.mit.edu	37	chr17	17062044	17062044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcacggaggcgggaggagCgccgcaagcgcttcgggatg	7	4	20	10	6	0	0	0	0	0	0	1	4	0	4	1	5	3	3	1	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:17062044C>T	uc002gqu.1	+	14	1830	c.1774C>T	c.(1774-1776)CGC>TGC	p.R592C	MPRIP_uc002gqv.1_Missense_Mutation_p.R592C|MPRIP_uc002gqw.1_Missense_Mutation_p.R347C	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	592	Interaction with RHOA.					cytoplasm|cytoskeleton	actin binding				0						GCGGGAGGAGCGCCGCAAGCG	0.736													10	19					0	0	1	0	0		T	17062044	T	T	17062044	3	4	155	1	0	0	0	0	1	0	0	0	9761	768	27	1	1828	1	MPRIP	17	17062044	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	840890	17062044	64133166	1232	85059											
TOM1L2	146691	broad.mit.edu	37	chr17	17772673	17772673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctctcgtatcgaaggaagaCgttgttgaggtcatcgttca	9	12	11	9	4	3	2	2	1	1	1	6	4	3	3	1	2	0	4	1	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:17772673C>T	uc002grz.3	-	8	1049	c.892G>A	c.(892-894)GTC>ATC	p.V298I	TOM1L2_uc002gry.3_Missense_Mutation_p.V248I|TOM1L2_uc010vwy.1_Missense_Mutation_p.V245I|TOM1L2_uc010cpr.2_Missense_Mutation_p.V253I|TOM1L2_uc010vwz.1_Missense_Mutation_p.V150I|TOM1L2_uc010vxa.1_Missense_Mutation_p.V200I|TOM1L2_uc010vxb.1_Missense_Mutation_p.V248I|TOM1L2_uc002grv.3_Missense_Mutation_p.V31I	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	298	GAT.				intracellular protein transport	intracellular					0	all_neural(463;0.228)					CGAAGGAAGACGTTGTTGAGG	0.488													18	40					0	0	1	0	0		T	17772673	T	T	17772673	3	4	155	1	0	0	0	0	1	0	0	0	16378	536	19	1	663	1	TOM1L2	17	17772673	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	710629	17772673	63422537	1233	85060											
LRRC48	83450	broad.mit.edu	37	chr17	17900948	17900948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgaggagaagcacttgtcGgtaggccccgagcctcctga	8	8	13	12	3	0	2	0	1	0	1	3	5	1	2	4	3	2	2	4	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:17900948G>A	uc010vxd.1	+	10	1378	c.999G>A	c.(997-999)TCG>TCA	p.S333S	LRRC48_uc002gsa.2_Silent_p.S333S|LRRC48_uc010vxc.1_Silent_p.S333S|LRRC48_uc002gsb.2_Silent_p.S333S|LRRC48_uc010vxe.1_RNA	NM_001130090	NP_001123562	Q9H069	LRC48_HUMAN	leucine rich repeat containing 48 isoform a	333						cytoplasm				pancreas(1)	1	all_neural(463;0.228)					AGCACTTGTCGGTAGGCCCCG	0.587													6	8					0	0	1	0	0		A	17900948	A	A	17900948	2	1	155	1	0	0	0	0	0	0	0	1	9023	1130	39	1		1	LRRC48	17	17900948	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	128275	17900948	63294262	1234	85061											
MYO15A	51168	broad.mit.edu	37	chr17	18023744	18023744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcgccagcgcaacctccagCgcgcgctgtcggccttcggc	4	5	13	19	8	0	0	0	0	0	0	3	0	1	0	4	2	3	2	4	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:18023744C>T	uc010vxh.1	+	2	1968	c.1630C>T	c.(1630-1632)CGC>TGC	p.R544C		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	544	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CAACCTCCAGCGCGCGCTGTC	0.716													5	5					0	0	1	0	0		T	18023744	T	T	18023744	3	4	155	1	0	0	0	0	1	0	0	0	10081	768	27	1	1632	1	MYO15A	17	18023744	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	122796	18023744	63171466	1235	85062											
AKAP10	11216	broad.mit.edu	37	chr17	19827816	19827816	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagtattttaatactggcTtttttcacactggactacaa	11	17	5	8	0	2	0	2	0	0	0	2	1	2	1	0	2	2	2	0	2	5	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:19827816T>C	uc002gwo.2	-	11	1793	c.1656A>G	c.(1654-1656)AAA>AAG	p.K552K	AKAP10_uc002gwp.1_Silent_p.K552K|AKAP10_uc010cqw.1_Silent_p.K494K	NM_007202	NP_009133	O43572	AKA10_HUMAN	A-kinase anchor protein 10 precursor	552					blood coagulation|protein localization	cytosol|mitochondrion|plasma membrane	signal transducer activity			skin(1)	1	all_cancers(12;2.08e-05)|all_epithelial(12;0.00158)|Breast(13;0.165)					TAATACTGGCTTTTTTCACAC	0.348													6	53					0	0	1	0	0		C	19827816	C	C	19827816	2	2	155	1	0	0	0	0	0	0	0	1	446	1606	56	3		3	AKAP10	17	19827816	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1804072	19827816	61367394	1236	85063											
SLC13A2	9058	broad.mit.edu	37	chr17	26817568	26817568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacctgcataaacgcatcGccctccgtgtcctcctcatc	8	9	7	17	3	1	0	1	0	0	0	6	1	4	1	5	1	3	2	5	1	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:26817568G>A	uc002hbh.2	+	3	395	c.328G>A	c.(328-330)GCC>ACC	p.A110T	SLC13A2_uc010wal.1_Missense_Mutation_p.A67T|SLC13A2_uc010wam.1_Missense_Mutation_p.A66T|SLC13A2_uc010wan.1_Missense_Mutation_p.A159T|SLC13A2_uc010wao.1_Missense_Mutation_p.A67T|SLC13A2_uc002hbi.2_Missense_Mutation_p.A39T	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	110						integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	TAAACGCATCGCCCTCCGTGT	0.607													37	84					0	0	1	0	0		A	26817568	A	A	26817568	3	1	155	1	0	0	0	0	1	0	0	0	14417	1087	38	1	485	1	SLC13A2	17	26817568	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6989752	26817568	54377642	1237	85064											
KIAA0100	9703	broad.mit.edu	37	chr17	26942696	26942696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggatacctgggcaaccagggCtttgcggctgtcccttttga	6	11	13	11	1	0	1	0	1	0	0	1	2	1	2	3	4	3	3	3	4	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:26942696C>T	uc002hbu.2	-	38	6610	c.6511G>A	c.(6511-6513)GCC>ACC	p.A2171T	SGK494_uc010waq.1_5'Flank|SGK494_uc010war.1_5'Flank|SGK494_uc002hbr.1_5'Flank|uc002hbs.1_Intron|KIAA0100_uc002hbt.2_Missense_Mutation_p.A500T	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	2171						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GCAACCAGGGCTTTGCGGCTG	0.547													29	49					0	0	1	0	0		T	26942696	T	T	26942696	3	4	155	1	0	0	0	0	1	0	0	0	8170	797	28	2	204	2	KIAA0100	17	26942696	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	125128	26942696	54252514	1238	85065											
RHBDL3	162494	broad.mit.edu	37	chr17	30648240	30648240	+	Frame_Shift_Del	DEL	C	-	-																															tggacttaaagctgccgcctCccccctgagggctggaggcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:30648240delC	uc002hhe.1	+	9	1221	c.1207delC	c.(1207-1209)CCCfs	p.P403fs	RHBDL3_uc010csw.1_Frame_Shift_Del_p.P395fs|RHBDL3_uc010csx.1_Frame_Shift_Del_p.S369fs|RHBDL3_uc010csy.1_Frame_Shift_Del_p.P305fs|RHBDL3_uc002hhf.1_Frame_Shift_Del_p.P305fs	NM_138328	NP_612201	P58872	RHBL3_HUMAN	rhomboid protease 3	403					proteolysis	integral to membrane	calcium ion binding|serine-type endopeptidase activity			ovary(1)	1		Breast(31;0.116)|Ovarian(249;0.182)				GCTGCCGCCTCCCCCCTGAGG	0.592													23	50	---	---	---	---						.	-	30648240	-	-	30648240	7	5	155	1	0	1	0	1	0	0	0	0	13348	855	30	0	1241	0	RHBDL3	17	30648240	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	3705544	30648240	50546970	1239	85066											
CDK5R1	8851	broad.mit.edu	37	chr17	30814938	30814938	+	Silent	SNP	G	A	A	0	0	1	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	aacctgtccacattcgcccaGcccccaccggcccagccgcc	7	4	7	23	3	0	0	0	0	0	0	2	0	1	0	9	1	3	0	9	1	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:30814938G>A	uc002hhn.2	+	2	521	c.300G>A	c.(298-300)CAG>CAA	p.Q100Q	CDK5R1_uc010wca.1_Silent_p.Q100Q|CDK5R1_uc010ctc.2_5'UTR	NM_003885	NP_003876	Q15078	CD5R1_HUMAN	cyclin-dependent kinase 5, regulatory subunit 1	100					axon guidance|axonal fasciculation|brain development|cell proliferation|embryo development|ionotropic glutamate receptor signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of transcription, DNA-dependent|neuron cell-cell adhesion|neuron migration|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of neuron apoptosis|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation	axon|contractile fiber|cyclin-dependent protein kinase 5 holoenzyme complex|cytosol|dendritic spine|growth cone|neuromuscular junction|neuronal cell body|perinuclear region of cytoplasm|plasma membrane	cadherin binding|calcium ion binding|protein kinase binding			ovary(1)	1		Breast(31;0.159)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.0938)			CATTCGCCCAGCCCCCACCGG	0.642													9	53					0	0	1	0	0		A	30814938	A	A	30814938	2	1	155	1	0	0	0	0	0	0	0	1	3146	962	34	2		2	CDK5R1	17	30814938	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	166698	30814938	50380272	1240	85067											
CCL11	6356	broad.mit.edu	37	chr17	32614701	32614701	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaaaatctccaactccaAagccataaataatcaccatt	19	8	1	13	0	2	0	1	0	1	0	4	0	3	0	5	0	2	0	5	0	7	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:32614701A>G	uc002hia.1	+	3	427	c.286A>G	c.(286-288)AAG>GAG	p.K96E		NM_002986	NP_002977	P51671	CCL11_HUMAN	small inducible cytokine A11 precursor	96					cell adhesion|cellular calcium ion homeostasis|immune response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|protein phosphorylation|response to radiation|response to virus|signal transduction	extracellular space	chemokine activity				0	Breast(3;0.00224)	Breast(31;0.151)|Ovarian(249;0.17)		BRCA - Breast invasive adenocarcinoma(366;0.155)		TCCAACTCCAAAGCCATAAAT	0.428													8	38					0	0	1	0	0		G	32614701	G	G	32614701	3	3	155	1	0	0	0	0	1	0	0	0	2886	15	1	3	296	3	CCL11	17	32614701	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1799763	32614701	48580509	1241	85068											
SLFN11	91607	broad.mit.edu	37	chr17	33690471	33690471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggcggggcttgacagagCgatcttcagggaaagggcca	12	5	16	8	2	2	2	1	1	1	1	2	4	2	3	1	5	1	1	1	5	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:33690471C>T	uc010ctp.2	-	4	798	c.356G>A	c.(355-357)CGC>CAC	p.R119H	SLFN11_uc010ctq.2_Missense_Mutation_p.R119H|SLFN11_uc002hjh.3_Missense_Mutation_p.R119H|SLFN11_uc002hjg.3_Missense_Mutation_p.R119H|SLFN11_uc010ctr.2_Missense_Mutation_p.R119H	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	119						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CTTGACAGAGCGATCTTCAGG	0.473													46	65					0	0	1	0	0		T	33690471	T	T	33690471	3	4	155	1	0	0	0	0	1	0	0	0	14758	768	27	1	2365	1	SLFN11	17	33690471	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1075770	33690471	47504739	1242	85069											
MYO19	80179	broad.mit.edu	37	chr17	34856778	34856778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccagcacccgggcacGcccacattccagaagctcca	9	5	8	19	2	0	1	0	0	0	1	3	1	3	1	5	1	3	4	5	1	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:34856778G>A	uc010wcy.1	-	24	3261	c.2269C>T	c.(2269-2271)CGT>TGT	p.R757C	MYO19_uc002hmw.2_Missense_Mutation_p.R557C|MYO19_uc010cuu.2_RNA	NM_001163735	NP_001157207	Q96H55	MYO19_HUMAN	myosin XIX isoform 2	757						mitochondrial outer membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)	1		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		ACCCGGGCACGCCCACATTCC	0.662													19	28					0	0	1	0	0		A	34856778	A	A	34856778	3	1	155	1	0	0	0	0	1	0	0	0	10085	1087	38	1	659	1	MYO19	17	34856778	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1166307	34856778	46338432	1243	85070											
GGNBP2	79893	broad.mit.edu	37	chr17	34943636	34943636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagaaacgttgtttggtccCgattccggaaaaggtgccaa	12	9	11	9	3	0	1	0	0	0	1	2	3	2	2	3	3	2	2	3	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:34943636C>T	uc002hnb.2	+	13	2100	c.1851C>T	c.(1849-1851)CCC>CCT	p.P617P		NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	617					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		TGTTTGGTCCCGATTCCGGAA	0.478													161	293					0	0	1	0	0		T	34943636	T	T	34943636	2	4	155	1	0	0	0	0	0	0	0	1	6374	639	23	1		1	GGNBP2	17	34943636	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	86858	34943636	46251574	1244	85071											
ACACA	31	broad.mit.edu	37	chr17	35445936	35445936	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgttttcctctattaccgagTgaacaccatcctcctctgtc	7	15	5	14	1	2	1	0	1	2	0	6	2	5	1	5	0	2	1	5	0	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:35445936T>C	uc002hnm.2	-	55	7045	c.6854A>G	c.(6853-6855)CAC>CGC	p.H2285R	ACACA_uc002hnk.2_Missense_Mutation_p.H2207R|ACACA_uc002hnl.2_Missense_Mutation_p.H2227R|ACACA_uc002hnn.2_Missense_Mutation_p.H2285R|ACACA_uc002hno.2_Missense_Mutation_p.H2322R|ACACA_uc010cuy.2_Missense_Mutation_p.H930R|ACACA_uc010wdb.1_Missense_Mutation_p.H323R|ACACA_uc010wdc.1_Missense_Mutation_p.H411R	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	2285					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	TATTACCGAGTGAACACCATC	0.483													137	162					0	0	1	0	0		C	35445936	C	C	35445936	3	2	155	1	0	0	0	0	1	0	0	0	106	1696	59	3	194	3	ACACA	17	35445936	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	502300	35445936	45749274	1245	85072											
ACACA	31	broad.mit.edu	37	chr17	35583264	35583264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacaaatgtccttacctggCgtgctcgaagtgctactttg	9	12	9	11	2	0	0	0	0	0	0	2	1	1	0	2	1	5	2	2	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:35583264C>T	uc002hnm.2	-	26	3436	c.3245G>A	c.(3244-3246)CGC>CAC	p.R1082H	ACACA_uc002hnk.2_Missense_Mutation_p.R1004H|ACACA_uc002hnl.2_Missense_Mutation_p.R1024H|ACACA_uc002hnn.2_Missense_Mutation_p.R1082H|ACACA_uc002hno.2_Missense_Mutation_p.R1119H|ACACA_uc010cuz.2_Missense_Mutation_p.R1082H	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1082					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CCTTACCTGGCGTGCTCGAAG	0.448													252	361					0	0	1	0	0		T	35583264	T	T	35583264	3	4	155	1	0	0	0	0	1	0	0	0	106	768	27	1	3919	1	ACACA	17	35583264	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	137328	35583264	45611946	1246	85073											
ACACA	31	broad.mit.edu	37	chr17	35591892	35591892	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaaaaatggtactcacaaTaagcattgtgaccagaagat	17	9	8	7	0	1	4	1	2	0	2	1	4	1	4	1	1	2	2	1	1	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:35591892T>C	uc002hnm.2	-	25	3324	c.3133A>G	c.(3133-3135)ATT>GTT	p.I1045V	ACACA_uc002hnk.2_Missense_Mutation_p.I967V|ACACA_uc002hnl.2_Missense_Mutation_p.I987V|ACACA_uc002hnn.2_Missense_Mutation_p.I1045V|ACACA_uc002hno.2_Missense_Mutation_p.I1082V|ACACA_uc010cuz.2_Missense_Mutation_p.I1045V	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1045					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	GTACTCACAATAAGCATTGTG	0.388													8	160					0	0	1	0	0		C	35591892	C	C	35591892	3	2	155	1	0	0	0	0	1	0	0	0	106	1406	49	3	4035	3	ACACA	17	35591892	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	8628	35591892	45603318	1247	85074											
GPR179	440435	broad.mit.edu	37	chr17	36482648	36482648	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggtttttcaggagctgtGgggaaaaattctctccgagt	9	13	13	6	1	2	0	1	0	1	0	4	3	3	2	1	4	1	2	1	4	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:36482648G>A	uc002hpz.2	-	11	6825	c.6804C>T	c.(6802-6804)CCC>CCT	p.P2268P		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	2268	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CAGGAGCTGTGGGGAAAAATT	0.522													71	110					0	0	1	0	0		A	36482648	A	A	36482648	2	1	155	1	0	0	0	0	0	0	0	1	6689	1335	47	4		4	GPR179	17	36482648	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	890756	36482648	44712562	1248	85075											
PSMB3	5691	broad.mit.edu	37	chr17	36912143	36912143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctacctcagtgcccagCgcctcaagttccggctgaac	7	9	8	17	2	3	1	2	1	1	0	5	1	4	1	5	1	4	2	5	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:36912143C>T	uc002hqr.2	+	3	274	c.196C>T	c.(196-198)CGC>TGC	p.R66C		NM_002795	NP_002786	P49720	PSB3_HUMAN	proteasome beta 3 subunit	66					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity				0						CAGTGCCCAGCGCCTCAAGTT	0.468													44	58					0	0	1	0	0		T	36912143	T	T	36912143	3	4	155	1	0	0	0	0	1	0	0	0	12700	768	27	1	206	1	PSMB3	17	36912143	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	429495	36912143	44283067	1249	85076											
SMARCE1	6605	broad.mit.edu	37	chr17	38792665	38792665	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttttctgcttcgtattcGtttaaatattcttgtttttc	6	23	4	8	2	2	0	0	0	2	0	5	0	2	0	1	0	1	4	1	0	4	12	rs149613910	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:38792665G>A	uc002hux.2	-	6	475	c.351C>T	c.(349-351)AAC>AAT	p.N117N	SMARCE1_uc010wff.1_Silent_p.N82N|SMARCE1_uc010wfg.1_Silent_p.N47N|SMARCE1_uc002huy.2_Silent_p.N82N|SMARCE1_uc010wfh.1_Silent_p.N47N|SMARCE1_uc010wfi.1_Silent_p.N99N|SMARCE1_uc002huz.1_Silent_p.N82N|SMARCE1_uc010wfj.1_Silent_p.N99N	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated	117	HMG box.				chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				CTTCGTATTCGTTTAAATATT	0.378													23	515					0	0	1	0	0		A	38792665	A	A	38792665	2	1	155	1	0	0	0	0	0	0	0	1	14805	1136	40	1		1	SMARCE1	17	38792665	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1880522	38792665	42402545	1250	85077											
KRT27	342574	broad.mit.edu	37	chr17	38936701	38936701	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtgaagcgctagctcgtTttcaaaccttagaaaagtat	12	12	9	8	2	1	2	1	1	0	1	2	2	1	2	1	1	3	4	1	1	7	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:38936701T>C	uc002hvg.2	-	3	576	c.535A>G	c.(535-537)AAC>GAC	p.N179D		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	179	Rod.|Coil 1B.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				GCTAGCTCGTTTTCAAACCTT	0.448													7	35					0	0	1	0	0		C	38936701	C	C	38936701	3	2	155	1	0	0	0	0	1	0	0	0	8480	1841	64	3	868	3	KRT27	17	38936701	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	144036	38936701	42258509	1251	85078											
KRT28	162605	broad.mit.edu	37	chr17	38955765	38955765	+	Silent	SNP	A	G	G	1	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	tcaagtccacggcaagatccAggtccgtatttttcatacca	11	11	7	12	2	2	1	2	0	0	1	5	1	5	1	4	2	1	2	4	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:38955765A>G	uc002hvh.1	-	1	447	c.381T>C	c.(379-381)CCT>CCC	p.P127P		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	127	Rod.|Linker 1.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GGCAAGATCCAGGTCCGTATT	0.423													10	364					0	0	1	0	0		G	38955765	G	G	38955765	2	3	155	1	0	0	0	0	0	0	0	1	8481	175	7	3		3	KRT28	17	38955765	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	19064	38955765	42239445	1252	85079											
KRT12	3859	broad.mit.edu	37	chr17	39020028	39020028	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catactgcgcccgcatatcaTtgaggagcctggtgaggtcc	8	9	12	12	2	1	2	1	2	0	0	2	3	2	3	3	3	3	1	3	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:39020028T>A	uc002hvk.2	-	4	920	c.896A>T	c.(895-897)AAT>ATT	p.N299I		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	299	Rod.|Coil 2.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CCGCATATCATTGAGGAGCCT	0.562													13	53					0	0	1	0	0		A	39020028	A	A	39020028	3	1	155	1	0	0	0	0	1	0	0	0	8465	1493	52	5	608	5	KRT12	17	39020028	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	64263	39020028	42175182	1253	85080											
KRTAP4-12	83755	broad.mit.edu	37	chr17	39279857	39279857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtggtgtggcaggagactCggccacagactggacgcagg	10	5	17	9	2	0	2	0	0	0	2	1	4	0	3	1	6	0	2	1	6	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:39279857C>T	uc002hwa.2	-	1	563	c.518G>A	c.(517-519)CGA>CAA	p.R173Q		NM_031854	NP_114060	Q9BQ66	KR412_HUMAN	keratin associated protein 4-12	173						keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			GCAGGAGACTCGGCCACAGAC	0.363													4	7					0	0	1	0	0		T	39279857	T	T	39279857	3	4	155	1	0	0	0	0	1	0	0	0	8566	884	31	1	91	1	KRTAP4-12	17	39279857	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	259829	39279857	41915353	1254	85081											
NKIRAS2	28511	broad.mit.edu	37	chr17	40174474	40174474	+	Frame_Shift_Del	DEL	G	-	-																															gggctccattgagacagaccGgggggtgcgagagcaggtgc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:40174474delG	uc002hyq.2	+	3	217	c.152delG	c.(151-153)CGGfs	p.R51fs	NKIRAS2_uc010wgd.1_Frame_Shift_Del_p.R51fs|NKIRAS2_uc002hyr.2_Frame_Shift_Del_p.R51fs|NKIRAS2_uc002hys.2_Frame_Shift_Del_p.R51fs|NKIRAS2_uc010wge.1_Frame_Shift_Del_p.R51fs|NKIRAS2_uc002hyt.2_Frame_Shift_Del_p.R51fs	NM_001001349	NP_001001349	Q9NYR9	KBRS2_HUMAN	NFKB inhibitor interacting Ras-like 2 isoform a	51	Small GTPase-like.				I-kappaB kinase/NF-kappaB cascade|small GTPase mediated signal transduction	cytoplasm	GTP binding|GTPase activity			ovary(1)	1		all_cancers(22;1.1e-05)|Breast(137;0.000143)|all_epithelial(22;0.000319)				GAGACAGACCGGGGGGTGCGA	0.567													28	47	---	---	---	---						.	-	40174474	-	-	40174474	7	5	155	1	0	1	0	1	0	0	0	0	10464	1116	39	0	158	0	NKIRAS2	17	40174474	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	894617	40174474	41020736	1255	85082											
CNTNAP1	8506	broad.mit.edu	37	chr17	40843980	40843980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccttactgccagtggcGccgaccttatgtgcgggtgg	4	9	16	12	3	0	0	0	0	0	0	0	1	0	0	4	4	3	0	4	4	2	2	rs142029931	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:40843980G>A	uc002iay.2	+	16	2717	c.2501G>A	c.(2500-2502)CGC>CAC	p.R834H	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	834	Laminin G-like 3.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		TGCCAGTGGCGCCGACCTTAT	0.602													100	148					0	0	1	0	0		A	40843980	A	A	40843980	3	1	155	1	0	0	0	0	1	0	0	0	3649	1087	38	1	2563	1	CNTNAP1	17	40843980	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	669506	40843980	40351230	1256	85083											
WNK4	65266	broad.mit.edu	37	chr17	40936583	40936583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgccgcgcaaatctacCgcaaggtcacttcggtgaga	12	7	11	11	4	2	2	1	1	1	2	3	3	2	2	2	2	2	2	2	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:40936583C>T	uc002ibj.2	+	4	1177	c.1156C>T	c.(1156-1158)CGC>TGC	p.R386C	WNK4_uc010wgx.1_Silent_p.T79T|WNK4_uc002ibk.1_Missense_Mutation_p.R158C|WNK4_uc010wgy.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	386	Protein kinase.				intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		GCAAATCTACCGCAAGGTCAC	0.617													9	21					0	0	1	0	0		T	40936583	T	T	40936583	3	4	155	1	0	0	0	0	1	0	0	0	17406	652	23	1	1170	1	WNK4	17	40936583	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	92603	40936583	40258627	1257	85084											
G6PC	2538	broad.mit.edu	37	chr17	41063035	41063035	+	Silent	SNP	A	T	T	1	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	ctgttcagcttcgccatcggAttttatctgctgctcaaggg	6	14	10	11	2	3	0	2	0	1	0	5	1	3	1	1	2	3	4	1	2	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:41063035A>T	uc002icb.1	+	5	745	c.666A>T	c.(664-666)GGA>GGT	p.G222G	G6PC_uc010whf.1_3'UTR	NM_000151	NP_000142	P35575	G6PC_HUMAN	glucose-6-phosphatase, catalytic subunit	222	Helical; (Potential).		G -> R (in GSD1A).		gluconeogenesis|glucose homeostasis|transmembrane transport	integral to endoplasmic reticulum membrane	glucose-6-phosphatase activity|phosphate binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.113)		TCGCCATCGGATTTTATCTGC	0.493									Glycogen_Storage_Disease_type_Ia				52	76					0	0	1	0	0		T	41063035	T	T	41063035	2	4	155	1	0	0	0	0	0	0	0	1	6157	320	12	5		5	G6PC	17	41063035	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	126452	41063035	40132175	1258	85085											
FZD2	2535	broad.mit.edu	37	chr17	42636437	42636437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggagcggctcatggtgCgcatcggcgtcttctccgtg	4	10	15	12	5	3	0	1	0	2	0	5	1	3	1	1	4	3	3	1	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:42636437C>T	uc002igx.1	+	1	1513	c.1381C>T	c.(1381-1383)CGC>TGC	p.R461C		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	461	Cytoplasmic (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GCTCATGGTGCGCATCGGCGT	0.627													21	55					0	0	1	0	0		T	42636437	T	T	42636437	3	4	155	1	0	0	0	0	1	0	0	0	6144	768	27	1	1383	1	FZD2	17	42636437	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1573402	42636437	38558773	1259	85086											
PLEKHM1	9842	broad.mit.edu	37	chr17	43545801	43545801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagttccagaggctgcctggGcaggaaggggctctgcaggt	7	7	18	9	0	1	1	0	0	1	1	2	3	2	2	2	6	2	5	2	6	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:43545801G>A	uc002ija.2	-	5	1252	c.1082C>T	c.(1081-1083)GCC>GTC	p.A361V	PLEKHM1_uc010wjm.1_Missense_Mutation_p.A333V|PLEKHM1_uc002ijb.2_Intron|PLEKHM1_uc010wjn.1_Missense_Mutation_p.A310V	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	361					intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					GGCTGCCTGGGCAGGAAGGGG	0.627													18	22					0	0	1	0	0		A	43545801	A	A	43545801	3	1	155	1	0	0	0	0	1	0	0	0	12099	1203	42	2	2120	2	PLEKHM1	17	43545801	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	909364	43545801	37649409	1260	85087											
NSF	4905	broad.mit.edu	37	chr17	44770370	44770370	+	Silent	SNP	T	G	G	0	1	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	agcacgggagttcatgacacTgttgtcaaccagttgctgtc	9	11	11	10	1	2	1	2	1	0	0	3	2	2	2	1	1	3	5	1	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:44770370T>G	uc002iku.2	+	10	1151	c.1047T>G	c.(1045-1047)ACT>ACG	p.T349T	NSF_uc010wke.1_Silent_p.T255T|NSF_uc010wkf.1_Silent_p.T255T|NSF_uc010wkg.1_Silent_p.T344T	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	349					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		TTCATGACACTGTTGTCAACC	0.418													5	62					0	0	1	0	0		G	44770370	G	G	44770370	2	3	155	1	0	0	0	0	0	0	0	1	10690	1567	55	5		5	NSF	17	44770370	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1224569	44770370	36424840	1261	85088											
KPNB1	3837	broad.mit.edu	37	chr17	45748109	45748109	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctgcttatgaagctgcagaCgttgctgatgatcaggaaga	11	10	13	7	1	1	5	1	3	0	2	1	6	1	6	0	1	4	6	0	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:45748109C>T	uc002ilt.1	+	12	1794	c.1458C>T	c.(1456-1458)GAC>GAT	p.D486D	KPNB1_uc010wkw.1_Silent_p.D341D|KPNB1_uc010wkx.1_Silent_p.D270D	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	486					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						AAGCTGCAGACGTTGCTGATG	0.423													81	123					0	0	1	0	0		T	45748109	T	T	45748109	2	4	155	1	0	0	0	0	0	0	0	1	8451	535	19	1		1	KPNB1	17	45748109	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	977739	45748109	35447101	1262	85089											
RSAD1	55316	broad.mit.edu	37	chr17	48559584	48559584	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	tgatgctggggctgccggcaCagcaggtggggccgtggctt	4	8	19	10	2	0	1	0	1	0	0	0	1	0	1	2	7	3	5	2	7	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:48559584C>T	uc002iqw.1	+	4	663	c.607C>T	c.(607-609)CAG>TAG	p.Q203*	RSAD1_uc010wmq.1_RNA	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	203					porphyrin biosynthetic process	mitochondrion	4 iron, 4 sulfur cluster binding|coproporphyrinogen oxidase activity|metal ion binding				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			GCTGCCGGCACAGCAGGTGGG	0.682											OREG0024567	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	33					0	0	1	0	0		T	48559584	T	T	48559584	4	4	155	1	0	0	0	0	0	1	0	0	13719	479	17	4	621	4	RSAD1	17	48559584	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2811475	48559584	32635626	1263	85090											
MKS1	54903	broad.mit.edu	37	chr17	56291179	56291179	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttactgtgatcacaccattGctatccaccttcagagtaca	11	13	5	12	0	2	2	2	1	0	1	3	2	3	2	3	0	3	2	3	0	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:56291179G>A	uc002ivr.1	-	7	771	c.696C>T	c.(694-696)AGC>AGT	p.S232S	MKS1_uc010wnq.1_Silent_p.S29S|MKS1_uc002ivs.1_Silent_p.S232S	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	232					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						TCACACCATTGCTATCCACCT	0.483													13	127					0	0	1	0	0		A	56291179	A	A	56291179	2	1	155	1	0	0	0	0	0	0	0	1	9627	1310	46	2		2	MKS1	17	56291179	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7731595	56291179	24904031	1264	85091											
HSF5	124535	broad.mit.edu	37	chr17	56536295	56536295	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactggtctggcattttatGttggcatccacctaaaatat	11	14	8	8	0	1	0	0	0	1	0	2	1	2	0	2	3	1	3	2	3	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:56536295G>T	uc002iwi.1	-	5	1678	c.1554C>A	c.(1552-1554)AAC>AAA	p.N518K		NM_001080439	NP_001073908	Q4G112	HSF5_HUMAN	heat shock transcription factor family member 5	518						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GGCATTTTATGTTGGCATCCA	0.388													146	245					4.77687e-79	5.31435e-79	1	1	0		T	56536295	T	T	56536295	3	4	155	1	0	0	0	0	1	0	0	0	7415	1368	48	5	244	5	HSF5	17	56536295	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	245116	56536295	24658915	1265	85092											
TEX14	56155	broad.mit.edu	37	chr17	56707884	56707884	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaacaaaaagtgctgtttgGcccaaggagttaactgcatc	13	9	10	9	0	0	0	0	0	0	0	1	1	0	1	1	2	4	5	1	2	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:56707884G>A	uc010dcz.1	-	3	286	c.168C>T	c.(166-168)GGC>GGT	p.G56G	TEX14_uc002iwr.1_Silent_p.G56G|TEX14_uc002iws.1_Silent_p.G56G|TEX14_uc010dda.1_5'UTR	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	56	ANK 2.					cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GTGCTGTTTGGCCCAAGGAGT	0.393													4	85					0	0	1	0	0		A	56707884	A	A	56707884	2	1	155	1	0	0	0	0	0	0	0	1	15803	1190	42	2		2	TEX14	17	56707884	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	171589	56707884	24487326	1266	85093											
PPM1E	22843	broad.mit.edu	37	chr17	57050270	57050270	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtgaatggaagtctgtcGgtttccagagctattggtag	9	12	15	5	1	1	2	0	1	1	1	3	3	2	3	1	4	1	3	1	4	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:57050270G>A	uc002iwx.2	+	6	1321	c.1194G>A	c.(1192-1194)TCG>TCA	p.S398S	PPM1E_uc010ddd.2_Silent_p.S161S	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	407	PP2C-like.				protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			GAAGTCTGTCGGTTTCCAGAG	0.438													52	70					0	0	1	0	0		A	57050270	A	A	57050270	2	1	155	1	0	0	0	0	0	0	0	1	12360	1103	39	1		1	PPM1E	17	57050270	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	342386	57050270	24144940	1267	85094											
BCAS3	54828	broad.mit.edu	37	chr17	58988001	58988001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccatccacagtaattcacggCggagtcctttggtcccaggc	8	9	10	14	2	1	0	1	0	0	0	4	1	4	1	4	4	0	1	4	4	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:58988001C>T	uc002iyv.3	+	12	1040	c.931C>T	c.(931-933)CGG>TGG	p.R311W	BCAS3_uc010wow.1_Missense_Mutation_p.R98W|BCAS3_uc002iyu.3_Missense_Mutation_p.R311W|BCAS3_uc002iyw.3_Missense_Mutation_p.R307W|BCAS3_uc002iyx.1_Missense_Mutation_p.R126W|BCAS3_uc002iyy.3_Missense_Mutation_p.R82W	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	311						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TAATTCACGGCGGAGTCCTTT	0.502													9	174					0	0	1	0	0		T	58988001	T	T	58988001	3	4	155	1	0	0	0	0	1	0	0	0	1353	759	27	1	973	1	BCAS3	17	58988001	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1937731	58988001	22207209	1268	85095											
TLK2	11011	broad.mit.edu	37	chr17	60558534	60558534	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacgacggcaggaattattGgaggccaggtttactggagt	10	9	14	8	2	0	0	0	0	0	0	0	4	0	3	2	6	1	2	2	6	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:60558534G>A	uc010ddp.2	+	2	316	c.48G>A	c.(46-48)TTG>TTA	p.L16L	TLK2_uc002izx.3_5'UTR|TLK2_uc002izz.3_Silent_p.L16L|TLK2_uc002jaa.3_Silent_p.L16L|TLK2_uc010wpd.1_Silent_p.L16L	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	16					cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						AGGAATTATTGGAGGCCAGGT	0.358													36	70					0	0	1	0	0		A	60558534	A	A	60558534	2	1	155	1	0	0	0	0	0	0	0	1	15969	1339	47	4		4	TLK2	17	60558534	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1570533	60558534	20636676	1269	85096											
TLK2	11011	broad.mit.edu	37	chr17	60679539	60679539	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacaaggtgctggtacttaTtggtaggtatccaggagctc	9	12	12	8	0	1	0	1	0	0	0	3	1	2	1	1	5	3	5	1	5	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:60679539T>C	uc010ddp.2	+	20	2191	c.1923T>C	c.(1921-1923)TAT>TAC	p.Y641Y	TLK2_uc002izx.3_Silent_p.Y467Y|TLK2_uc002izz.3_Silent_p.Y619Y|TLK2_uc002jaa.3_Silent_p.Y587Y|TLK2_uc010wpd.1_Silent_p.Y587Y	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A	641	Protein kinase.				cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						CTGGTACTTATTGGTAGGTAT	0.413													4	75					0	0	1	0	0		C	60679539	C	C	60679539	2	2	155	1	0	0	0	0	0	0	0	1	15969	1500	52	3		3	TLK2	17	60679539	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	121005	60679539	20515671	1270	85097											
ACE	1636	broad.mit.edu	37	chr17	61557223	61557223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggcatcccgctgaaacCgctgtacgaggatttcactg	8	9	12	12	4	1	1	1	1	0	0	2	3	2	2	2	2	3	4	2	2	2	2	rs148460287	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:61557223C>T	uc002jau.1	+	4	627	c.605C>T	c.(604-606)CCG>CTG	p.P202L	ACE_uc010wpi.1_Missense_Mutation_p.P202L|ACE_uc010ddu.1_Missense_Mutation_p.P19L	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	202	Extracellular (Potential).|Peptidase M2 1.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	CCGCTGAAACCGCTGTACGAG	0.602													28	31					0	0	1	0	0		T	61557223	T	T	61557223	3	4	155	1	0	0	0	0	1	0	0	0	136	652	23	1	619	1	ACE	17	61557223	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	877684	61557223	19637987	1271	85098											
KCNH6	81033	broad.mit.edu	37	chr17	61619795	61619795	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtcaccttcaacctgcgggaCgtgagtcagggccaggtggg	7	7	16	11	2	3	1	3	1	0	0	3	2	3	2	3	4	2	0	3	4	1	1	rs75754003		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:61619795C>T	uc002jay.2	+	9	2228	c.2148C>T	c.(2146-2148)GAC>GAT	p.D716D	KCNH6_uc010wpl.1_Silent_p.D593D|KCNH6_uc010wpm.1_Silent_p.D716D|KCNH6_uc002jaz.1_Silent_p.D663D	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	716	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	ACCTGCGGGACGTGAGTCAGG	0.617													25	35					0	0	1	0	0		T	61619795	T	T	61619795	2	4	155	1	0	0	0	0	0	0	0	1	8052	550	19	1		1	KCNH6	17	61619795	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	62572	61619795	19575415	1272	85099											
KCNH6	81033	broad.mit.edu	37	chr17	61620997	61620997	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagccaagaccaccaaggtTtctttctcagtgacaaccag	12	8	8	13	0	2	2	1	1	2	1	3	2	2	2	4	1	2	2	4	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:61620997T>C	uc002jay.2	+	10	2289	c.2209T>C	c.(2209-2211)TTC>CTC	p.F737L	KCNH6_uc010wpl.1_Missense_Mutation_p.F614L|KCNH6_uc010wpm.1_Missense_Mutation_p.F737L|KCNH6_uc002jaz.1_Missense_Mutation_p.F684L	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	737	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	CCACCAAGGTTTCTTTCTCAG	0.602													27	50					0	0	1	0	0		C	61620997	C	C	61620997	3	2	155	1	0	0	0	0	1	0	0	0	8052	1841	64	3	2247	3	KCNH6	17	61620997	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1202	61620997	19574213	1273	85100											
SCN4A	6329	broad.mit.edu	37	chr17	62025282	62025282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagtcgagccagcaccaggCgttggtgaagtacaccttaa	12	7	12	10	2	0	1	0	1	0	0	1	3	0	1	3	2	3	3	3	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:62025282C>T	uc002jds.1	-	17	3363	c.3286G>A	c.(3286-3288)GCC>ACC	p.A1096T		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1096	III.|Helical; Name=S3 of repeat III; (Potential).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CAGCACCAGGCGTTGGTGAAG	0.562													17	25					0	0	1	0	0		T	62025282	T	T	62025282	3	4	155	1	0	0	0	0	1	0	0	0	13945	768	27	1	2256	1	SCN4A	17	62025282	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	404285	62025282	19169928	1274	85101											
TEX2	55852	broad.mit.edu	37	chr17	62291193	62291193	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacacagccaatggcactgTacttaatacttgtgctgctg	10	11	10	10	0	0	0	0	0	0	0	0	1	0	1	1	2	5	4	1	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:62291193T>C	uc002jec.2	-	2	558	c.385A>G	c.(385-387)ACA>GCA	p.T129A	TEX2_uc002jed.2_Missense_Mutation_p.T129A|TEX2_uc002jee.2_Missense_Mutation_p.T129A	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	129					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		AATGGCACTGTACTTAATACT	0.547													32	154					0	0	1	0	0		C	62291193	C	C	62291193	3	2	155	1	0	0	0	0	1	0	0	0	15806	1638	57	3	3063	3	TEX2	17	62291193	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	265911	62291193	18904017	1275	85102											
AXIN2	8313	broad.mit.edu	37	chr17	63554010	63554010	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagccaaccacggttggcgaAagtttgcacttgaagtcggc	11	8	12	10	3	0	1	0	1	0	0	1	2	0	1	2	3	3	3	2	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:63554010A>G	uc002jfi.2	-	2	1018	c.729T>C	c.(727-729)CTT>CTC	p.L243L	AXIN2_uc010den.1_Silent_p.L243L|AXIN2_uc002jfh.2_Silent_p.L243L|AXIN2_uc002jfj.1_Silent_p.L243L	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	243					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						CGGTTGGCGAAAGTTTGCACT	0.532									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				10	148					0	0	1	0	0		G	63554010	G	G	63554010	2	3	155	1	0	0	0	0	0	0	0	1	1238	1	1	3		3	AXIN2	17	63554010	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1262817	63554010	17641200	1276	85103											
HELZ	9931	broad.mit.edu	37	chr17	65105425	65105425	+	Frame_Shift_Del	DEL	A	-	-																															cgatgagcaactgcactattAaaaaaagcattgttgggtcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:65105425delA	uc010wqk.1	-	29	4486	c.4299delT	c.(4297-4299)TTTfs	p.F1433fs	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Frame_Shift_Del_p.F1432fs|HELZ_uc010der.2_5'UTR	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CTGCACTATTAAAAAAAGCAT	0.537													33	72	---	---	---	---						.	-	65105425	-	-	65105425	7	5	155	1	0	1	0	1	0	0	0	0	7065	359	13	0	1552	0	HELZ	17	65105425	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1551415	65105425	16089785	1277	85104											
KCNJ2	3759	broad.mit.edu	37	chr17	68171571	68171571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgaggtcaacagcttcacgGctgccttcctcttctccatt	6	12	7	16	2	4	0	2	0	2	0	6	1	5	0	4	2	3	2	4	2	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:68171571G>A	uc010dfg.2	+	2	792	c.391G>A	c.(391-393)GCT>ACT	p.A131T	KCNJ2_uc002jir.2_Missense_Mutation_p.A131T	NM_000891	NP_000882	P63252	IRK2_HUMAN	potassium inwardly-rectifying channel J2	131					synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity|protein binding				0	Breast(10;1.64e-08)					CAGCTTCACGGCTGCCTTCCT	0.498													84	141					0	0	1	0	0		A	68171571	A	A	68171571	3	1	155	1	0	0	0	0	1	0	0	0	8067	1203	42	2	393	2	KCNJ2	17	68171571	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3066146	68171571	13023639	1278	85105											
TTYH2	94015	broad.mit.edu	37	chr17	72227069	72227069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatggaaacagcgagaccaaCgatggggcgtaccagctgat	13	6	13	9	3	0	2	0	1	0	1	0	5	0	3	2	3	5	2	2	3	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:72227069C>T	uc002jkc.2	+	3	376	c.345C>T	c.(343-345)AAC>AAT	p.N115N	TTYH2_uc010wqw.1_Silent_p.N94N	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	115	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						GCGAGACCAACGATGGGGCGT	0.542													30	49					0	0	1	0	0		T	72227069	T	T	72227069	2	4	155	1	0	0	0	0	0	0	0	1	16766	535	19	1		1	TTYH2	17	72227069	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4055498	72227069	8968141	1279	85106											
SLC25A19	60386	broad.mit.edu	37	chr17	73282486	73282486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctgcctagaggcctggaGgatgccatggtactttgcgc	8	10	13	10	1	1	1	0	0	1	1	1	3	1	3	3	4	4	1	3	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:73282486G>A	uc002jns.3	-	2	1097	c.187C>T	c.(187-189)CTC>TTC	p.L63F	SLC25A19_uc010dge.2_Missense_Mutation_p.L63F|SLC25A19_uc002jnv.3_Missense_Mutation_p.L63F|SLC25A19_uc002jnu.3_Missense_Mutation_p.L63F|SLC25A19_uc002jnw.3_Missense_Mutation_p.L63F|SLC25A19_uc002jnt.3_Missense_Mutation_p.L63F	NM_021734	NP_068380	Q9HC21	TPC_HUMAN	solute carrier family 25, member 19	63	Solcar 1.					integral to membrane|mitochondrial inner membrane	binding|deoxynucleotide transmembrane transporter activity			ovary(1)	1	all_cancers(13;5.98e-08)|all_epithelial(9;1.16e-08)|Breast(9;3.1e-08)		all cancers(21;6.82e-07)|Epithelial(20;6.86e-06)			GAGGCCTGGAGGATGCCATGG	0.547													4	154					0	0	1	0	0		A	73282486	A	A	73282486	3	1	155	1	0	0	0	0	1	0	0	0	14506	1000	35	4	795	4	SLC25A19	17	73282486	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1055417	73282486	7912724	1280	85107											
TNRC6C	57690	broad.mit.edu	37	chr17	76046405	76046405	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaacgggagaaggccgaaGgcgagataaagggattatag	16	4	17	4	3	0	2	0	0	0	2	0	7	0	4	1	5	1	0	1	5	7	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:76046405G>T	uc002jud.2	+	4	1862	c.1262G>T	c.(1261-1263)AGG>ATG	p.R421M	TNRC6C_uc002juf.2_Missense_Mutation_p.R421M|TNRC6C_uc002jue.2_Missense_Mutation_p.R421M	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	421	Sufficient for interaction with argonaute family proteins.|Gly-rich.				gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			GAAGGCCGAAGGCGAGATAAA	0.502													5	159					0.000602214	0.000611733	1	1	0		T	76046405	T	T	76046405	3	4	155	1	0	0	0	0	1	0	0	0	16367	1000	35	5	1264	5	TNRC6C	17	76046405	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2763919	76046405	5148805	1281	85108											
DNAH17	8632	broad.mit.edu	37	chr17	76557880	76557880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catttgagctgcccggccacGggaggcatgtttttgtggat	6	12	14	9	2	0	1	0	1	0	0	0	3	0	3	2	4	2	3	2	4	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:76557880G>A	uc002jvv.1	-	8	964	c.858C>T	c.(856-858)CCC>CCT	p.P286P						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GCCCGGCCACGGGAGGCATGT	0.577													13	12					0	0	1	0	0		A	76557880	A	A	76557880	2	1	155	1	0	0	0	0	0	0	0	1	4607	1103	39	1		1	DNAH17	17	76557880	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	511475	76557880	4637330	1282	85109											
GAA	2548	broad.mit.edu	37	chr17	78090907	78090907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacatggtacgacctgcagaCggtgagtctggggaccctaa	10	7	13	11	2	1	2	0	1	1	1	1	4	1	3	2	4	2	2	2	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:78090907C>T	uc002jxo.2	+	17	2512	c.2330C>T	c.(2329-2331)ACG>ATG	p.T777M	GAA_uc002jxp.2_Missense_Mutation_p.T777M|GAA_uc002jxq.2_Missense_Mutation_p.T777M	NM_001079803	NP_001073271	P10253	LYAG_HUMAN	acid alpha-glucosidase preproprotein	777					cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	GACCTGCAGACGGTGAGTCTG	0.662													16	22					0	0	1	0	0		T	78090907	T	T	78090907	3	4	155	1	0	0	0	0	1	0	0	0	6161	550	19	1	2388	1	GAA	17	78090907	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1533027	78090907	3104303	1283	85110											
RNF213	57674	broad.mit.edu	37	chr17	78351588	78351588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacggccatccttgctccGtgggagaggtgagtcttggt	6	10	14	11	2	1	2	0	1	1	1	3	3	3	2	4	4	2	1	4	4	1	2	rs148541222	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:78351588G>A	uc002jyh.1	+	29	7979	c.7756G>A	c.(7756-7758)GTG>ATG	p.V2586M	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.V968M	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TCCTTGCTCCGTGGGAGAGGT	0.537													148	213					0	0	1	0	0		A	78351588	A	A	78351588	3	1	155	1	0	0	0	0	1	0	0	0	13502	1145	40	1	14066	1	RNF213	17	78351588	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	260681	78351588	2843622	1284	85111											
RNF213	57674	broad.mit.edu	37	chr17	78356807	78356807	+	Silent	SNP	A	G	G	1	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	aattttgacacagaattgtcAactaaagaaatgaggaacaa	20	9	7	5	0	1	4	1	2	0	2	1	5	1	5	0	1	2	0	0	1	8	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:78356807A>G	uc002jyh.1	+	33	8449	c.8226A>G	c.(8224-8226)TCA>TCG	p.S2742S	uc002jyi.1_Intron|RNF213_uc010dhw.1_3'UTR	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			CAGAATTGTCAACTAAAGAAA	0.428													28	38					0	0	1	0	0		G	78356807	G	G	78356807	2	3	155	1	0	0	0	0	0	0	0	1	13502	117	5	3		3	RNF213	17	78356807	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	5219	78356807	2838403	1285	85112											
RNF213	57674	broad.mit.edu	37	chr17	78363150	78363150	+	Missense_Mutation	SNP	A	G	G	1	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	tcctgcaaatgggtgatcagAcgattcacgtgttaaaggtg	11	11	12	7	2	2	2	2	1	0	1	3	3	3	2	1	2	1	2	1	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:78363150A>G	uc002jyh.1	+	40	9620	c.9397A>G	c.(9397-9399)ACG>GCG	p.T3133A	uc002jyi.1_Intron|RNF213_uc010dhx.1_Missense_Mutation_p.T77A	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GGGTGATCAGACGATTCACGT	0.522													4	60					0	0	1	0	0		G	78363150	G	G	78363150	3	3	155	1	0	0	0	0	1	0	0	0	13502	275	10	3	15751	3	RNF213	17	78363150	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	6343	78363150	2832060	1286	85113											
GPS1	2873	broad.mit.edu	37	chr17	80014934	80014934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctcccctgcagtccccGcccagagaagggagccaggg	7	6	13	15	1	1	1	0	0	1	1	3	3	2	2	6	2	2	1	6	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:80014934G>A	uc002kdl.1	+	13	1452	c.1407G>A	c.(1405-1407)CCG>CCA	p.P469P	GPS1_uc002kdk.1_Silent_p.P505P|GPS1_uc010dij.1_Silent_p.P504P|GPS1_uc002kdm.1_Silent_p.P449P|GPS1_uc002kdn.1_Silent_p.P465P|GPS1_uc002kdo.1_Silent_p.P468P|GPS1_uc010wvh.1_Silent_p.P461P	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	469					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	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)			TGCAGTCCCCGCCCAGAGAAG	0.652													15	48					0	0	1	0	0		A	80014934	A	A	80014934	2	1	155	1	0	0	0	0	0	0	0	1	6748	1074	38	1		1	GPS1	17	80014934	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1651784	80014934	1180276	1287	85114											
FASN	2194	broad.mit.edu	37	chr17	80039558	80039558	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccttctcagccagcacaaAgctgctcaggaccatgtggg	10	7	11	13	0	2	0	2	0	1	0	3	1	2	1	3	2	5	3	3	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:80039558A>G	uc002kdu.2	-	37	6442	c.6325T>C	c.(6325-6327)TTT>CTT	p.F2109L	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2109	Beta-ketoacyl reductase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GCCAGCACAAAGCTGCTCAGG	0.642													4	85					0	0	1	0	0		G	80039558	G	G	80039558	3	3	155	1	0	0	0	0	1	0	0	0	5697	72	3	3	1238	3	FASN	17	80039558	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	24624	80039558	1155652	1288	85115											
ZNF750	79755	broad.mit.edu	37	chr17	80789385	80789385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaaaatccgtaaggaatcgGcaggttagagggatattgct	13	10	13	5	2	0	1	0	0	0	1	2	3	1	3	1	4	1	5	1	4	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr17:80789385G>A	uc002kga.2	-	2	1257	c.946C>T	c.(946-948)CCG>TCG	p.P316S	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	316						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TAAGGAATCGGCAGGTTAGAG	0.542													11	231					0	0	1	0	0		A	80789385	A	A	80789385	3	1	155	1	0	0	0	0	1	0	0	0	18157	1203	42	2	1233	2	ZNF750	17	80789385	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	749827	80789385	405825	1289	85116											
COLEC12	81035	broad.mit.edu	37	chr18	335158	335158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccccttctctcctttctgtCccttgttgccagttgggcca	2	15	7	17	0	2	0	0	0	2	0	5	0	4	0	6	1	1	2	6	1	0	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:335158C>T	uc002kkm.2	-	6	1615	c.1400G>A	c.(1399-1401)GGA>GAA	p.G467E		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	467	Collagen-like 1.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TCCTTTCTGTCCCTTGTTGCC	0.622													26	56					0	0	1	0	0		T	335158	T	T	335158	3	4	155	1	0	0	0	0	1	0	0	0	3715	855	30	4	848	4	COLEC12	18	335158	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08		335158	77742090	1290	85117											
MYOM1	8736	broad.mit.edu	37	chr18	3187584	3187584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgataaactcaggagcatGgagaagatggtcttcattca	15	10	10	6	0	4	3	3	1	1	2	4	5	4	4	0	3	2	1	0	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:3187584G>A	uc002klp.2	-	5	1157	c.823C>T	c.(823-825)CAT>TAT	p.H275Y	MYOM1_uc002klq.2_Missense_Mutation_p.H275Y	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	275						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TCAGGAGCATGGAGAAGATGG	0.403													4	117					0	0	1	0	0		A	3187584	A	A	3187584	3	1	155	1	0	0	0	0	1	0	0	0	10109	1348	47	4	4370	4	MYOM1	18	3187584	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2852426	3187584	74889664	1291	85118											
ANKRD12	23253	broad.mit.edu	37	chr18	9263859	9263861	+	In_Frame_Del	DEL	ACT	-	-																															caggaagttgtaaggatgaaActacgtttgcaacacagtat																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:9263859_9263861delACT	uc002knv.2	+	10	5993_5995	c.5736_5738delACT	c.(5734-5739)AAACTA>AAA	p.L1913del	ANKRD12_uc002knw.2_In_Frame_Del_p.L1890del|ANKRD12_uc002knx.2_In_Frame_Del_p.L1890del	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1913						nucleus				ovary(2)|central_nervous_system(1)	3						TAAGGATGAAACTACGTTTGCAA	0.296													64	129	---	---	---	---						.	-	9263861	-	-	9263859	7	5	155	1	0	1	0	1	0	0	0	0	640	40	2	0	5770	0	ANKRD12	18	9263859	In_Frame_Del	DEL	ACT	TCGA-CG-5726-01A-11D-1600-08	6076275	9263859	68813389	1292	85119											
TUBB6	84617	broad.mit.edu	37	chr18	12325459	12325459	+	Missense_Mutation	SNP	A	T	T	1	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	gacaacgcccacctacggggAcctcaaccacctggtgtccg	9	5	10	17	3	1	0	1	0	0	0	2	2	2	1	6	3	3	0	6	3	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:12325459A>T	uc002kqw.2	+	4	716	c.671A>T	c.(670-672)GAC>GTC	p.D224V	TUBB6_uc002kqv.2_Missense_Mutation_p.D152V|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Missense_Mutation_p.D187V|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	224					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		ACCTACGGGGACCTCAACCAC	0.607													28	73					0	0	1	0	0		T	12325459	T	T	12325459	3	4	155	1	0	0	0	0	1	0	0	0	16786	275	10	5	685	5	TUBB6	18	12325459	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3061600	12325459	65751789	1293	85120											
ABHD3	171586	broad.mit.edu	37	chr18	19282375	19282375	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aataagatagtaggtctggtGctggcatccatataacacgt	13	11	10	7	1	1	1	0	0	1	1	2	1	2	1	1	3	2	3	1	3	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:19282375G>A	uc002ktl.2	-	3	551	c.411C>T	c.(409-411)AGC>AGT	p.S137S	ABHD3_uc002ktm.2_Silent_p.S137S|ABHD3_uc010xao.1_RNA|MIB1_uc002ktp.2_5'Flank|ABHD3_uc002kto.2_Silent_p.S137S	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein	137						integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						TAGGTCTGGTGCTGGCATCCA	0.398													36	60					0	0	1	0	0		A	19282375	A	A	19282375	2	1	155	1	0	0	0	0	0	0	0	1	83	1310	46	2		2	ABHD3	18	19282375	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6956916	19282375	58794873	1294	85121											
MIB1	57534	broad.mit.edu	37	chr18	19395628	19395628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcttttggagatgaaggcGctgttatagaagtactacat	12	12	11	6	1	0	3	0	1	0	2	0	4	0	3	0	2	3	4	0	2	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:19395628G>A	uc002ktq.2	+	11	1531	c.1531G>A	c.(1531-1533)GCT>ACT	p.A511T	MIB1_uc002ktp.2_Missense_Mutation_p.A150T	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	511	ANK 3.				Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			AGATGAAGGCGCTGTTATAGA	0.378													10	120					0	0	1	0	0		A	19395628	A	A	19395628	3	1	155	1	0	0	0	0	1	0	0	0	9584	1087	38	1	1573	1	MIB1	18	19395628	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	113253	19395628	58681620	1295	85122											
RBBP8	5932	broad.mit.edu	37	chr18	20573294	20573294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgattttcagctattcagCgtcaagagaaaagccaagga	15	9	9	8	2	3	1	3	0	0	1	4	4	3	2	1	1	3	1	1	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:20573294C>T	uc002ktw.2	+	11	1835	c.1504C>T	c.(1504-1506)CGT>TGT	p.R502C	RBBP8_uc002kty.2_Missense_Mutation_p.R502C|RBBP8_uc002ktz.2_Missense_Mutation_p.R502C|RBBP8_uc002kua.2_Missense_Mutation_p.R502C|RBBP8_uc002ktx.1_Missense_Mutation_p.R502C	NM_002894	NP_002885	Q99708	COM1_HUMAN	retinoblastoma binding protein 8 isoform a	502					cell cycle checkpoint|DNA double-strand break processing involved in repair via single-strand annealing|meiosis|regulation of transcription from RNA polymerase II promoter	nucleus	damaged DNA binding|protein binding|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)|lung(1)|skin(1)	3	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)			AGCTATTCAGCGTCAAGAGAA	0.398								Direct_reversal_of_damage|Homologous_recombination					6	157					0	0	1	0	0		T	20573294	T	T	20573294	3	4	155	1	0	0	0	0	1	0	0	0	13130	768	27	1	1542	1	RBBP8	18	20573294	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1177666	20573294	57503954	1296	85123											
ZNF521	25925	broad.mit.edu	37	chr18	22804681	22804681	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattctttgaggcaagatgcGcacttatacagtttttggac	11	14	9	7	1	1	2	0	1	1	1	1	3	1	3	0	2	2	3	0	2	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:22804681G>A	uc002kvk.2	-	4	3448	c.3201C>T	c.(3199-3201)TGC>TGT	p.C1067C	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.C1067C|ZNF521_uc002kvl.2_Silent_p.C847C	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1067	C2H2-type 25; degenerate.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GGCAAGATGCGCACTTATACA	0.498			T	PAX5	ALL								53	55					0	0	1	0	0		A	22804681	A	A	22804681	2	1	155	1	0	0	0	0	0	0	0	1	17990	1079	38	1		1	ZNF521	18	22804681	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2231387	22804681	55272567	1297	85124											
AQP4	361	broad.mit.edu	37	chr18	24442217	24442217	+	Frame_Shift_Del	DEL	C	-	-																															gattcctgctccaatgatggCccccaggcactgggctgcga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:24442217delC	uc002kwa.2	-	2	439	c.376delG	c.(376-378)GCCfs	p.A126fs	AQP4_uc002kvz.2_Frame_Shift_Del_p.A104fs	NM_001650	NP_001641	P55087	AQP4_HUMAN	aquaporin 4 isoform a	126	Helical; (Potential).				cellular response to interferon-gamma|excretion|nervous system development	cytoplasm|external side of plasma membrane|integral to plasma membrane	water channel activity				0	all_cancers(21;0.0172)|Lung NSC(5;0.00299)|all_lung(6;0.00747)|Ovarian(20;0.124)					CCAATGATGGCCCCCAGGCAC	0.557													64	85	---	---	---	---						.	-	24442217	-	-	24442217	7	5	155	1	0	1	0	1	0	0	0	0	828	739	26	0	611	0	AQP4	18	24442217	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	1637536	24442217	53635031	1298	85125											
CDH2	1000	broad.mit.edu	37	chr18	25543417	25543417	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtctttcatccattcgtcgGattcccacaggcttgatggc	6	13	10	12	2	2	1	1	1	1	0	6	2	4	2	2	4	0	1	2	4	0	4	rs144671067		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:25543417G>A	uc002kwg.2	-	15	2877	c.2418C>T	c.(2416-2418)ATC>ATT	p.I806I	CDH2_uc010xbn.1_Silent_p.I775I	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	806	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						CCATTCGTCGGATTCCCACAG	0.537													10	58					0	0	1	0	0		A	25543417	A	A	25543417	2	1	155	1	0	0	0	0	0	0	0	1	3108	1164	41	4		4	CDH2	18	25543417	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1101200	25543417	52533831	1299	85126											
DSG2	1829	broad.mit.edu	37	chr18	29111033	29111033	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcacaagtcgattaggagTaaatacaagcctacacccat	15	10	6	10	1	1	0	1	0	0	0	2	2	1	1	2	1	3	1	2	1	7	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:29111033T>C	uc002kwu.3	+	9	1286	c.1098T>C	c.(1096-1098)AGT>AGC	p.S366S		NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	366	Extracellular (Potential).|Cadherin 3.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			CGATTAGGAGTAAATACAAGC	0.363													11	219					0	0	1	0	0		C	29111033	C	C	29111033	2	2	155	1	0	0	0	0	0	0	0	1	4783	1635	57	3		3	DSG2	18	29111033	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	3567616	29111033	48966215	1300	85127											
ELP2	55250	broad.mit.edu	37	chr18	33718382	33718382	+	Silent	SNP	T	C	C	0	1	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	cgactctggtctaaaaagggTccagaaggtaggtttggaga	12	9	14	6	1	2	2	0	0	2	2	3	4	3	2	1	5	0	2	1	5	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:33718382T>C	uc002kzk.1	+	4	448	c.438T>C	c.(436-438)GGT>GGC	p.G146G	ELP2_uc010xcg.1_Silent_p.G146G|ELP2_uc002kzl.1_RNA|ELP2_uc002kzm.1_Silent_p.G146G|ELP2_uc010xch.1_Silent_p.G146G|ELP2_uc002kzn.1_Silent_p.G146G|ELP2_uc002kzo.1_Silent_p.G146G	NM_018255	NP_060725	Q6IA86	ELP2_HUMAN	elongator protein 2	146	WD 3.				regulation of transcription from RNA polymerase II promoter	Golgi apparatus|transcription elongation factor complex				breast(2)|ovary(1)|skin(1)	4						CTAAAAAGGGTCCAGAAGGTA	0.383													37	66					0	0	1	0	0		C	33718382	C	C	33718382	2	2	155	1	0	0	0	0	0	0	0	1	5088	1654	58	3		3	ELP2	18	33718382	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	4607349	33718382	44358866	1301	85128											
SETBP1	26040	broad.mit.edu	37	chr18	42281711	42281711	+	Missense_Mutation	SNP	A	G	G	1	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	ctgagatcaagatcaccatcAagcagtctggggaccagaag	14	6	11	10	0	4	3	3	1	1	3	4	5	4	4	2	2	1	1	2	2	3	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:42281711A>G	uc010dni.2	+	2	696	c.400A>G	c.(400-402)AAG>GAG	p.K134E	SETBP1_uc002lay.2_Missense_Mutation_p.K134E	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	134						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GATCACCATCAAGCAGTCTGG	0.473									Schinzel-Giedion_syndrome				13	82					0	0	1	0	0		G	42281711	G	G	42281711	3	3	155	1	0	0	0	0	1	0	0	0	14154	131	5	3	402	3	SETBP1	18	42281711	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	8563329	42281711	35795537	1302	85129											
SETBP1	26040	broad.mit.edu	37	chr18	42532057	42532057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagaaccggcatggccacCggcaaaagcatctcattgtg	13	6	10	12	2	1	1	1	0	1	1	2	1	1	1	3	3	2	3	3	3	4	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:42532057C>T	uc010dni.2	+	4	3048	c.2752C>T	c.(2752-2754)CGG>TGG	p.R918W		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	918						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GCATGGCCACCGGCAAAAGCA	0.537									Schinzel-Giedion_syndrome				8	61					0	0	1	0	0		T	42532057	T	T	42532057	3	4	155	1	0	0	0	0	1	0	0	0	14154	643	23	1	2955	1	SETBP1	18	42532057	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	250346	42532057	35545191	1303	85130											
SIGLEC15	284266	broad.mit.edu	37	chr18	43418864	43418864	+	Silent	SNP	G	A	A	0	0	1	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	cacctagtgaccgccgaactGcccgcactgacccatgacgg	9	5	10	17	4	0	3	0	3	0	0	0	4	0	3	5	1	2	1	5	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:43418864G>A	uc002lbl.1	+	4	827	c.678G>A	c.(676-678)CTG>CTA	p.L226L	SIGLEC15_uc010xcp.1_RNA	NM_213602	NP_998767	Q6ZMC9	SIG15_HUMAN	sialic acid binding Ig-like lectin 15 precursor	226	Extracellular (Potential).|Ig-like C2-type.					integral to membrane					0						CCGCCGAACTGCCCGCACTGA	0.731													6	2					0	0	1	0	0		A	43418864	A	A	43418864	2	1	155	1	0	0	0	0	0	0	0	1	14335	1306	46	2		2	SIGLEC15	18	43418864	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	886807	43418864	34658384	1304	85131											
MYO5B	4645	broad.mit.edu	37	chr18	47438517	47438517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgaccagcacccgatacCggttgaaaaagtcatggtag	12	9	10	10	2	2	2	1	2	1	0	2	3	2	2	3	2	2	3	3	2	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:47438517C>T	uc002leb.2	-	18	2405	c.2117G>A	c.(2116-2118)CGG>CAG	p.R706Q		NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	706	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CACCCGATACCGGTTGAAAAA	0.557													12	316					0	0	1	0	0		T	47438517	T	T	47438517	3	4	155	1	0	0	0	0	1	0	0	0	10097	652	23	1	3521	1	MYO5B	18	47438517	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4019653	47438517	30638731	1305	85132											
CCDC11	220136	broad.mit.edu	37	chr18	47788456	47788456	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaatcttgcagtcattgtgcTggtcccactcagctttcaag	9	13	8	11	0	4	0	3	0	1	0	5	0	5	0	1	1	3	3	1	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:47788456T>C	uc002lee.2	-	2	294	c.203A>G	c.(202-204)CAG>CGG	p.Q68R		NM_145020	NP_659457	Q96M91	CCD11_HUMAN	coiled-coil domain containing 11	68										ovary(1)|pancreas(1)|skin(1)	3				STAD - Stomach adenocarcinoma(97;2.66e-05)|Colorectal(21;7.57e-05)|Lung(128;0.00932)|READ - Rectum adenocarcinoma(32;0.164)		GTCATTGTGCTGGTCCCACTC	0.438													85	147					0	0	1	0	0		C	47788456	C	C	47788456	3	2	155	1	0	0	0	0	1	0	0	0	2749	1580	55	3	1369	3	CCDC11	18	47788456	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	349939	47788456	30288792	1306	85133											
CXXC1	30827	broad.mit.edu	37	chr18	47812478	47812478	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggccccaacccctgtccCtgaccctgcccggcgctgca	5	6	9	21	2	0	1	0	1	0	0	1	1	1	1	7	2	3	2	7	2	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:47812478C>A	uc002leq.3	-	4	1106	c.373G>T	c.(373-375)GGG>TGG	p.G125W	CXXC1_uc002lep.3_Translation_Start_Site|CXXC1_uc002ler.3_Missense_Mutation_p.G125W|CXXC1_uc010doy.2_Missense_Mutation_p.G125W|CXXC1_uc002les.2_Missense_Mutation_p.G125W	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	125					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ACCCCTGTCCCTGACCCTGCC	0.677													21	99					1.28384e-07	1.3358e-07	1	1	0		A	47812478	A	A	47812478	3	1	155	1	0	0	0	0	1	0	0	0	4100	681	24	5	1657	5	CXXC1	18	47812478	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	24022	47812478	30264770	1307	85134											
DCC	1630	broad.mit.edu	37	chr18	50976988	50976988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtgctggtagtggtcatCgtggctgtgatttgcacccg	6	12	14	9	2	1	1	1	1	0	0	2	1	1	1	1	3	2	4	1	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:50976988C>T	uc002lfe.1	+	23	3935	c.3348C>T	c.(3346-3348)ATC>ATT	p.I1116I	DCC_uc010dpf.1_Silent_p.I751I	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1116	Helical; (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TAGTGGTCATCGTGGCTGTGA	0.512													19	48					0	0	1	0	0		T	50976988	T	T	50976988	2	4	155	1	0	0	0	0	0	0	0	1	4285	874	31	1		1	DCC	18	50976988	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3164510	50976988	27100260	1308	85135											
C18orf26	284254	broad.mit.edu	37	chr18	52262284	52262284	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggggtctgcgtgaacccaGgaatccttgcacattcaaga	10	9	11	11	1	2	2	1	1	1	1	3	3	3	3	2	3	3	1	2	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:52262284G>T	uc002lfq.1	+	2	296	c.250G>T	c.(250-252)GGA>TGA	p.G84*	C18orf26_uc002lfp.1_Intron	NM_173629	NP_775900	Q8N1N2	CR026_HUMAN	hypothetical protein LOC284254	84						integral to membrane					0				Colorectal(16;0.0193)|READ - Rectum adenocarcinoma(59;0.178)		CGTGAACCCAGGAATCCTTGC	0.443													10	294					0.000442599	0.000449868	1	1	0		T	52262284	T	T	52262284	4	4	155	1	0	0	0	0	0	1	0	0	1903	1001	35	5	256	5	C18orf26	18	52262284	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1285296	52262284	25814964	1309	85136											
TCF4	6925	broad.mit.edu	37	chr18	52899750	52899750	+	Splice_Site	SNP	A	T	T	1	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	atactgttacctagatcttgAcctagtaattgatttgatat	12	17	6	6	0	1	4	0	3	1	1	1	4	1	4	2	0	2	2	2	0	6	9			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:52899750A>T	uc002lfz.2	-	17	2249	c.1637_splice	c.e17+1	p.S546_splice	TCF4_uc002lfw.3_Missense_Mutation_p.S387T|TCF4_uc010xdu.1_Splice_Site_p.S416_splice|TCF4_uc010xdv.1_Splice_Site_p.S416_splice|TCF4_uc002lfx.2_Missense_Mutation_p.S476T|TCF4_uc010xdw.1_Splice_Site_p.S416_splice|TCF4_uc002lfy.2_Splice_Site_p.S504_splice|TCF4_uc010xdx.1_Splice_Site_p.S522_splice|TCF4_uc010dph.1_Missense_Mutation_p.S547T|TCF4_uc010xdy.1_Missense_Mutation_p.S523T|TCF4_uc002lga.2_Missense_Mutation_p.S649T|TCF4_uc002lgb.1_Splice_Site_p.S386_splice|TCF4_uc010dpi.2_Missense_Mutation_p.S553T|TCF4_uc002lfv.2_Splice_Site_p.S329_splice	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b						positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		CTAGATCTTGACCTAGTAATT	0.373													19	149					0	0	1	0	0		T	52899750	T	T	52899750	5	4	155	1	0	0	0	0	0	0	1	0	15720	289	10	5	388	5	TCF4	18	52899750	Splice_Site	SNP	A	TCGA-CG-5726-01A-11D-1600-08	637466	52899750	25177498	1310	85137											
ATP8B1	5205	broad.mit.edu	37	chr18	55319829	55319829	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagataagctccaagaggtaTgaagaagaggatcatcgatg	16	7	12	6	1	1	5	1	1	0	4	3	7	2	6	1	2	1	2	1	2	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:55319829T>C	uc002lgw.2	-	24	3148	c.3148A>G	c.(3148-3150)ATA>GTA	p.I1050V	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	1050	Helical; (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CCAAGAGGTATGAAGAAGAGG	0.448									Byler_disease				8	156					0	0	1	0	0		C	55319829	C	C	55319829	3	2	155	1	0	0	0	0	1	0	0	0	1195	1464	51	3	623	3	ATP8B1	18	55319829	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2420079	55319829	22757419	1311	85138											
ZNF532	55205	broad.mit.edu	37	chr18	56651281	56651281	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagcaatcactcaaccactGaaaaagctgaaaatcaatgt	18	7	7	9	0	3	2	3	2	0	0	3	3	3	3	1	1	3	2	1	1	7	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:56651281G>A	uc002lho.2	+	11	4036	c.3489G>A	c.(3487-3489)CTG>CTA	p.L1163L	ZNF532_uc002lhp.2_Silent_p.L1161L|ZNF532_uc010xeg.1_Silent_p.L1161L|ZNF532_uc002lhr.2_Silent_p.L1161L|ZNF532_uc002lhs.2_Silent_p.L1161L|ZNF532_uc010xeh.1_Silent_p.L251L	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CTCAACCACTGAAAAAGCTGA	0.493													15	99					0	0	1	0	0		A	56651281	A	A	56651281	2	1	155	1	0	0	0	0	0	0	0	1	17997	1277	45	4		4	ZNF532	18	56651281	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1331452	56651281	21425967	1312	85139											
KIAA1468	57614	broad.mit.edu	37	chr18	59933944	59933944	+	Missense_Mutation	SNP	A	G	G	1	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	ggttgcttaggtaaaacctcAgttccaggagattttaagac	12	12	10	7	0	1	2	1	0	0	2	2	3	2	2	2	3	2	4	2	3	4	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:59933944A>G	uc002lil.2	+	19	2857	c.2642A>G	c.(2641-2643)CAG>CGG	p.Q881R	KIAA1468_uc002lik.1_Missense_Mutation_p.Q881R|KIAA1468_uc010xel.1_Missense_Mutation_p.Q881R|KIAA1468_uc002lim.2_Missense_Mutation_p.Q525R	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	881							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				GTAAAACCTCAGTTCCAGGAG	0.308													4	92					0	0	1	0	0		G	59933944	G	G	59933944	3	3	155	1	0	0	0	0	1	0	0	0	8252	188	7	3	2716	3	KIAA1468	18	59933944	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3282663	59933944	18143304	1313	85140											
DSEL	92126	broad.mit.edu	37	chr18	65179868	65179869	+	Frame_Shift_Ins	INS	-	T	T																															ttaacaaattgagtccatcgINSttttttaaattcagcagctt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:65179868_65179869insT	uc002lke.1	-	2	3231_3232	c.2007_2008insA	c.(2005-2010)AAACGAfs	p.K669fs		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	659_660						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				TGAGTCCATCGTTTTTTAAATT	0.391													62	131	---	---	---	---						.	T	65179869	T	T	65179868	7	5	155	1	0	1	1	0	0	0	0	0	4781	1153	40	0	1664	0	DSEL	18	65179868	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	5245924	65179868	12897380	1314	85141											
RTTN	25914	broad.mit.edu	37	chr18	67836277	67836277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aggagaaataatgctgttgaCataggctctgataaaaactc	16	10	9	6	0	1	3	0	2	1	1	2	4	1	3	0	2	2	3	0	2	6	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:67836277C>T	uc002lkp.2	-	12	1571	c.1503G>A	c.(1501-1503)ATG>ATA	p.M501I	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Intron|RTTN_uc002lkq.1_Missense_Mutation_p.M501I	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	501							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				ATGCTGTTGACATAGGCTCTG	0.303													10	85					0	0	1	0	0		T	67836277	T	T	67836277	3	4	155	1	0	0	0	0	1	0	0	0	13762	478	17	4	5329	4	RTTN	18	67836277	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2656409	67836277	10240971	1315	85142											
ADNP2	22850	broad.mit.edu	37	chr18	77893685	77893685	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagaatgttccatgcacCtgtccggaaagtccagaact	11	10	8	12	1	1	2	1	0	0	2	4	3	4	3	4	1	2	2	4	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr18:77893685C>A	uc002lnw.2	+	4	844	c.389C>A	c.(388-390)CCT>CAT	p.P130H		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	130					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		TTCCATGCACCTGTCCGGAAA	0.413													9	139					7.48243e-07	7.75629e-07	1	1	0		A	77893685	A	A	77893685	3	1	155	1	0	0	0	0	1	0	0	0	324	681	24	5	399	5	ADNP2	18	77893685	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	10057408	77893685	183563	1316	85143											
GZMM	3004	broad.mit.edu	37	chr19	549785	549785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggtcaccggccgatcGgcctgatgccctggggtgat	7	7	16	11	3	1	2	1	2	0	0	2	4	1	3	4	6	1	0	4	6	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:549785G>A	uc002low.1	+	5	813	c.768G>A	c.(766-768)TCG>TCA	p.S256S		NM_005317	NP_005308	P51124	GRAM_HUMAN	granzyme M precursor	256					apoptosis|cytolysis|innate immune response|proteolysis	extracellular region	serine-type endopeptidase activity				0		all_cancers(10;1.94e-35)|all_epithelial(18;5.94e-23)|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)		CCGGCCGATCGGCCTGATGCC	0.662													4	62					0	0	1	0	0		A	549785	A	A	549785	2	1	155	1	0	0	0	0	0	0	0	1	6935	1103	39	1		1	GZMM	19	549785	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08		549785	58579198	1317	85144											
TLE2	7089	broad.mit.edu	37	chr19	3005766	3005766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaccacaatgttgccatcGctgcagcaggagaagcaaac	14	5	10	12	1	0	2	0	0	0	2	1	3	0	2	2	1	5	5	2	1	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:3005766G>A	uc002lww.2	-	16	1964	c.1701C>T	c.(1699-1701)AGC>AGT	p.S567S	TLE2_uc010xhb.1_Silent_p.S234S|TLE2_uc010dth.2_Silent_p.S568S|TLE2_uc010xhc.1_Silent_p.S445S|TLE2_uc010dti.2_Silent_p.S581S	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	567	WD 3.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				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)		TGTTGCCATCGCTGCAGCAGG	0.662													29	34					0	0	1	0	0		A	3005766	A	A	3005766	2	1	155	1	0	0	0	0	0	0	0	1	15964	1078	38	1		1	TLE2	19	3005766	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2455981	3005766	56123217	1318	85145											
C19orf29	58509	broad.mit.edu	37	chr19	3619215	3619215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcgatgggcttggcccGcccgtcccggatgcggatct	4	8	15	14	5	1	0	0	0	1	0	3	3	2	2	3	5	1	1	3	5	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:3619215G>A	uc002lyh.2	-	5	963	c.910C>T	c.(910-912)CGG>TGG	p.R304W	C19orf29_uc010xho.1_5'UTR|C19orf29_uc010dtn.2_Missense_Mutation_p.R152W|C19orf29_uc002lyi.3_Missense_Mutation_p.R304W|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	304						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCTTGGCCCGCCCGTCCCGG	0.627													9	13					0	0	1	0	0		A	3619215	A	A	3619215	3	1	155	1	0	0	0	0	1	0	0	0	1921	1086	38	1	1390	1	C19orf29	19	3619215	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	613449	3619215	55509768	1319	85146											
CREB3L3	84699	broad.mit.edu	37	chr19	4154961	4154961	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctggatctcctgtttgaCcggcaggacggcatcctgag	6	10	12	13	2	1	2	0	2	1	0	4	4	3	4	4	4	0	3	4	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:4154961C>A	uc002lzl.2	+	2	209	c.93C>A	c.(91-93)GAC>GAA	p.D31E	CREB3L3_uc002lzm.2_Missense_Mutation_p.D22E|CREB3L3_uc010xib.1_Missense_Mutation_p.D22E|CREB3L3_uc010xic.1_Missense_Mutation_p.D22E	NM_032607	NP_115996	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like	31	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCTGTTTGACCGGCAGGACG	0.622													57	82					9.12251e-31	1.00024e-30	1	1	0		A	4154961	A	A	4154961	3	1	155	1	0	0	0	0	1	0	0	0	3861	506	18	5	99	5	CREB3L3	19	4154961	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	535746	4154961	54974022	1320	85147											
SH3GL1	6455	broad.mit.edu	37	chr19	4363832	4363832	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccctgccgcttcttcttgTagtcaaagtccaggcggcgg	5	11	12	13	3	3	0	1	0	2	0	4	0	4	0	3	3	2	2	3	3	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:4363832T>C	uc002maj.2	-	6	615	c.509A>G	c.(508-510)TAC>TGC	p.Y170C	SH3GL1_uc002mak.2_Missense_Mutation_p.Y106C|SH3GL1_uc010xig.1_Missense_Mutation_p.Y122C	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	170	Potential.|BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		CTTCTTCTTGTAGTCAAAGTC	0.622			T	MLL	AL								3	45					0	0	1	0	0		C	4363832	C	C	4363832	3	2	155	1	0	0	0	0	1	0	0	0	14275	1638	57	3	617	3	SH3GL1	19	4363832	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	208871	4363832	54765151	1321	85148											
PLIN4	729359	broad.mit.edu	37	chr19	4511671	4511671	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcccctgtgagcccagtGgacacagcatctttagtgcc	9	8	10	14	0	1	1	0	1	1	0	1	2	1	2	4	1	4	1	4	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:4511671G>A	uc002mar.1	-	3	2259	c.2259C>T	c.(2257-2259)TCC>TCT	p.S753S	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	753	27 X 33 AA approximate tandem repeat.|20.					lipid particle|plasma membrane					0						TGAGCCCAGTGGACACAGCAT	0.577													44	74					0	0	1	0	0		A	4511671	A	A	4511671	2	1	155	1	0	0	0	0	0	0	0	1	12111	1335	47	4		4	PLIN4	19	4511671	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	147839	4511671	54617312	1322	85149											
PLIN5	440503	broad.mit.edu	37	chr19	4523866	4523866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcagctcgtccacgcaggCgtgcgcgtgggccacgcgac	6	4	15	16	7	0	0	0	0	0	0	2	1	1	0	2	2	3	3	2	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:4523866C>T	uc002mas.2	-	8	1119	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T		NM_001013706	NP_001013728	Q00G26	PLIN5_HUMAN	lipid storage droplet protein 5	356						lipid particle					0						TCCACGCAGGCGTGCGCGTGG	0.736													6	6					0	0	1	0	0		T	4523866	T	T	4523866	3	4	155	1	0	0	0	0	1	0	0	0	12112	768	27	1	329	1	PLIN5	19	4523866	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	12195	4523866	54605117	1323	85150											
PLIN3	10226	broad.mit.edu	37	chr19	4852236	4852236	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgacaattgggtggccacCgtgtccttggcgctagacac	7	9	12	13	3	0	1	0	0	0	1	2	2	2	1	4	3	0	1	4	3	2	3	rs35640392		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:4852236C>T	uc002mbj.2	-	5	603	c.426G>A	c.(424-426)ACG>ACA	p.T142T	PLIN3_uc002mbk.2_Silent_p.T130T|PLIN3_uc002mbl.3_Silent_p.T142T	NM_005817	NP_005808	O60664	PLIN3_HUMAN	mannose 6 phosphate receptor binding protein 1	142					vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)	GGGTGGCCACCGTGTCCTTGG	0.632											OREG0025175	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	28					0	0	1	0	0		T	4852236	T	T	4852236	2	4	155	1	0	0	0	0	0	0	0	1	12110	639	23	1		1	PLIN3	19	4852236	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	328370	4852236	54276747	1324	85151											
PTPRS	5802	broad.mit.edu	37	chr19	5212459	5212459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccatggtccggccacgccGtaaactggaactggcggacc	8	5	13	15	5	0	0	0	0	0	0	1	2	1	2	5	5	2	1	5	5	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:5212459G>A	uc002mbv.2	-	31	4892	c.4658C>T	c.(4657-4659)ACG>ATG	p.T1553M	PTPRS_uc002mbu.1_Missense_Mutation_p.T1122M|PTPRS_uc010xin.1_Missense_Mutation_p.T1095M|PTPRS_uc002mbw.2_Missense_Mutation_p.T1515M|PTPRS_uc002mbx.2_Missense_Mutation_p.T1110M|PTPRS_uc002mby.2_Missense_Mutation_p.T1106M	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1553	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CGGCCACGCCGTAAACTGGAA	0.547													3	8					0	0	1	0	0		A	5212459	A	A	5212459	3	1	155	1	0	0	0	0	1	0	0	0	12836	1145	40	1	1220	1	PTPRS	19	5212459	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	360223	5212459	53916524	1325	85152											
ACSBG2	81616	broad.mit.edu	37	chr19	6182910	6182910	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcgtgtgggcaagaaacaTtggcttcaaggtcaactcaa	13	10	10	8	1	3	1	3	0	0	1	4	1	3	1	0	3	2	2	0	3	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:6182910T>C	uc002mef.1	+	9	1282	c.1055T>C	c.(1054-1056)ATT>ACT	p.I352T	ACSBG2_uc002mee.1_Missense_Mutation_p.I165T|ACSBG2_uc002meg.1_Missense_Mutation_p.I352T|ACSBG2_uc002meh.1_Missense_Mutation_p.I352T|ACSBG2_uc002mei.1_Missense_Mutation_p.I302T|ACSBG2_uc010xiz.1_Missense_Mutation_p.I352T	NM_030924	NP_112186	Q5FVE4	ACBG2_HUMAN	bubblegum-related acyl-CoA synthetase 2	352					cell differentiation|fatty acid metabolic process|multicellular organismal development|spermatogenesis	membrane|microsome|mitochondrion	acyl-CoA thioesterase activity|ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1						GCAAGAAACATTGGCTTCAAG	0.502													3	83					0	0	1	0	0		C	6182910	C	C	6182910	3	2	155	1	0	0	0	0	1	0	0	0	174	1493	52	3	1085	3	ACSBG2	19	6182910	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	970451	6182910	52946073	1326	85153											
TRIP10	9322	broad.mit.edu	37	chr19	6742993	6742993	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cccagattcagccagcaacaGtccttcgtacagattctcca	11	9	6	15	1	2	2	1	0	1	2	5	2	3	2	4	0	4	2	4	0	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:6742993G>T	uc002mfs.2	+	4	279	c.213G>T	c.(211-213)CAG>CAT	p.Q71H	TRIP10_uc010dux.1_Missense_Mutation_p.Q71H|TRIP10_uc002mfr.2_Missense_Mutation_p.Q71H|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_Intron	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	71	Required for podosome formation and interaction with AKAP9 and microtubules.|Induction of membrane tubulation.|Required for translocation to the plasma membrane in response to insulin (By similarity).				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						GCCAGCAACAGTCCTTCGTAC	0.587													6	121					0.00116845	0.0011826	1	1	0		T	6742993	T	T	6742993	3	4	155	1	0	0	0	0	1	0	0	0	16580	1020	36	5	227	5	TRIP10	19	6742993	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	560083	6742993	52385990	1327	85154											
PNPLA6	10908	broad.mit.edu	37	chr19	7621376	7621376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaacctgtgttggacctcaCgtacccagtcacctccatgt	8	10	9	14	1	2	0	2	0	0	0	3	2	3	2	5	2	2	2	5	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:7621376C>T	uc010xjq.1	+	27	3356	c.3161C>T	c.(3160-3162)ACG>ATG	p.T1054M	PNPLA6_uc002mgq.1_Missense_Mutation_p.T1006M|PNPLA6_uc010xjp.1_Missense_Mutation_p.T979M|PNPLA6_uc002mgr.1_Missense_Mutation_p.T1006M|PNPLA6_uc002mgs.2_Missense_Mutation_p.T1044M|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	1045	Patatin.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						TTGGACCTCACGTACCCAGTC	0.542													75	143					0	0	1	0	0		T	7621376	T	T	7621376	3	4	155	1	0	0	0	0	1	0	0	0	12188	536	19	1	3263	1	PNPLA6	19	7621376	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	878383	7621376	51507607	1328	85155											
XAB2	56949	broad.mit.edu	37	chr19	7692684	7692684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcagggtcggtcacacagCgatgcttcacctgtgcccga	8	7	13	13	3	2	0	2	0	0	0	3	2	2	0	2	3	3	2	2	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:7692684C>T	uc002mgx.2	-	3	280	c.254G>A	c.(253-255)CGC>CAC	p.R85H	uc010dvi.1_5'Flank	NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	85					transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						GGTCACACAGCGATGCTTCAC	0.552								Direct_reversal_of_damage|NER					29	72					0	0	1	0	0		T	7692684	T	T	7692684	3	4	155	1	0	0	0	0	1	0	0	0	17444	768	27	1	2381	1	XAB2	19	7692684	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	71308	7692684	51436299	1329	85156											
MARCH2	51257	broad.mit.edu	37	chr19	8491690	8491690	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcgacccctcacagaggTacccttaagagtctgagact	10	8	9	14	1	2	3	1	1	1	3	3	5	2	3	4	1	1	1	4	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:8491690T>C	uc002mjv.2	+	4	813	c.372_splice	c.e4+2	p.E124_splice	MARCH2_uc002mjw.2_Splice_Site_p.E124_splice|MARCH2_uc002mjx.2_Splice_Site_p.E124_splice	NM_016496	NP_057580	Q9P0N8	MARH2_HUMAN	membrane-associated ring finger (C3HC4) 2						endocytosis	cytoplasmic vesicle|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						CTCACAGAGGTACCCTTAAGA	0.607													17	37					0	0	1	0	0		C	8491690	C	C	8491690	5	2	155	1	0	0	0	0	0	0	1	0	9319	1652	57	3	380	3	MARCH2	19	8491690	Splice_Site	SNP	T	TCGA-CG-5726-01A-11D-1600-08	799006	8491690	50637293	1330	85157											
MUC16	94025	broad.mit.edu	37	chr19	9083944	9083944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaaatttagaaggtggcGtggacacagttgaaaacaag	15	9	13	4	1	0	2	0	1	0	1	0	4	0	4	0	4	1	1	0	4	6	4	rs144088703	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:9083944G>A	uc002mkp.2	-	1	8075	c.7871C>T	c.(7870-7872)ACG>ATG	p.T2624M		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2624	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGAAGGTGGCGTGGACACAGT	0.493													27	45					0	0	1	0	0		A	9083944	A	A	9083944	3	1	155	1	0	0	0	0	1	0	0	0	9991	1145	40	1	35988	1	MUC16	19	9083944	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	592254	9083944	50045039	1331	85158											
DNMT1	1786	broad.mit.edu	37	chr19	10257153	10257153	+	Missense_Mutation	SNP	A	G	G	1	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	gctgctccaggaccctggggAtttctttttgcctcatctca	5	14	9	13	0	3	0	2	0	2	0	5	2	4	2	3	3	2	2	3	3	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:10257153A>G	uc002mng.2	-	27	2900	c.2720T>C	c.(2719-2721)ATC>ACC	p.I907T	DNMT1_uc002mnf.2_5'Flank|DNMT1_uc010xlc.1_Missense_Mutation_p.I923T|DNMT1_uc002mnh.2_Missense_Mutation_p.I802T|DNMT1_uc010xld.1_Missense_Mutation_p.I907T	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	907					chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	GACCCTGGGGATTTCTTTTTG	0.562													32	54					0	0	1	0	0		G	10257153	G	G	10257153	3	3	155	1	0	0	0	0	1	0	0	0	4681	333	12	3	2186	3	DNMT1	19	10257153	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1173209	10257153	48871830	1332	85159											
ICAM4	3386	broad.mit.edu	37	chr19	10398355	10398355	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcatctattccgaaagcCtggagcgcttcaccggcctg	7	9	12	13	3	3	0	2	0	1	0	4	2	4	1	4	3	2	1	4	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:10398355C>A	uc002mns.1	+	2	577	c.538C>A	c.(538-540)CTG>ATG	p.L180M	ICAM4_uc002mnr.1_Missense_Mutation_p.P154H|ICAM4_uc002mnt.1_Missense_Mutation_p.L180M|ICAM5_uc002mnu.3_5'Flank	NM_001544	NP_001535	Q14773	ICAM4_HUMAN	intercellular adhesion molecule 4 isoform 1	180	Ig-like C2-type 2.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	extracellular region|integral to membrane|plasma membrane	integrin binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			TTCCGAAAGCCTGGAGCGCTT	0.617													5	54					0.184627	0.185181	1	1	0		A	10398355	A	A	10398355	3	1	155	1	0	0	0	0	1	0	0	0	7498	681	24	5	544	5	ICAM4	19	10398355	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	141202	10398355	48730628	1333	85160											
TYK2	7297	broad.mit.edu	37	chr19	10479000	10479000	+	Silent	SNP	A	G	G	1	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	aaatatagcatcaggcttgcAtctctggggatctctaggat	11	12	10	8	0	3	0	1	0	2	0	5	2	3	2	0	4	2	3	0	4	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:10479000A>G	uc002moc.3	-	4	666	c.288T>C	c.(286-288)GAT>GAC	p.D96D	TYK2_uc010dxe.2_Intron|TYK2_uc002mod.2_Silent_p.D96D	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	96	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			TCAGGCTTGCATCTCTGGGGA	0.537													8	264					0	0	1	0	0		G	10479000	G	G	10479000	2	3	155	1	0	0	0	0	0	0	0	1	16836	214	8	3		3	TYK2	19	10479000	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	80645	10479000	48649983	1334	85161											
SMARCA4	6597	broad.mit.edu	37	chr19	11145784	11145784	+	Silent	SNP	A	G	G	1	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	gaggtggactacagcgactcActgacggagaagcagtggct	11	6	15	9	2	1	2	1	1	0	1	1	6	1	3	0	4	3	2	0	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:11145784A>G	uc002mqf.3	+	29	4430	c.4146A>G	c.(4144-4146)TCA>TCG	p.S1382S	SMARCA4_uc010dxp.2_Silent_p.S1382S|SMARCA4_uc010dxo.2_Silent_p.S1382S|SMARCA4_uc010dxq.2_Silent_p.S1349S|SMARCA4_uc010dxr.2_Silent_p.S1349S|SMARCA4_uc002mqj.3_Silent_p.S1349S|SMARCA4_uc010dxs.2_Silent_p.S1349S|SMARCA4_uc010dxt.1_Silent_p.S569S|SMARCA4_uc002mqh.3_Silent_p.S472S|SMARCA4_uc002mqi.1_Silent_p.S552S	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1382					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity			lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				ACAGCGACTCACTGACGGAGA	0.667			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				4	9					0	0	1	0	0		G	11145784	G	G	11145784	2	3	155	1	0	0	0	0	0	0	0	1	14795	146	6	3		3	SMARCA4	19	11145784	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	666784	11145784	47983199	1335	85162											
KANK2	25959	broad.mit.edu	37	chr19	11303705	11303705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggctctgggcccgctgtgCgggggcgccagcggctgtgc	2	6	19	14	4	1	0	0	0	1	0	1	0	1	0	2	5	3	3	2	5	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:11303705C>T	uc010dxv.2	-	6	1609	c.1051G>A	c.(1051-1053)GCA>ACA	p.A351T	KANK2_uc002mqm.2_Missense_Mutation_p.A351T|KANK2_uc002mqo.3_Missense_Mutation_p.A351T|KANK2_uc002mqp.1_Missense_Mutation_p.A160T|KANK2_uc002mqq.2_Missense_Mutation_p.A351T	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	351											0						GCCCGCTGTGCGGGGGCGCCA	0.711													4	30					0	0	1	0	0		T	11303705	T	T	11303705	3	4	155	1	0	0	0	0	1	0	0	0	7993	768	27	1	1568	1	KANK2	19	11303705	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	157921	11303705	47825278	1336	85163											
ELAVL3	1995	broad.mit.edu	37	chr19	11569310	11569310	+	Silent	SNP	G	A	A	0	0	1	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	aggatgcgggacgtgatgatGcggccgtactgggagaagag	10	6	19	6	4	0	4	0	2	0	2	0	7	0	6	1	4	3	1	1	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:11569310G>A	uc002mry.1	-	4	830	c.450C>T	c.(448-450)CGC>CGT	p.R150R	ELAVL3_uc002mrx.1_Silent_p.R150R	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	150	RRM 2.				cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						ACGTGATGATGCGGCCGTACT	0.627													64	96					0	0	1	0	0		A	11569310	A	A	11569310	2	1	155	1	0	0	0	0	0	0	0	1	5059	1306	46	2		2	ELAVL3	19	11569310	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	265605	11569310	47559673	1337	85164											
MAN2B1	4125	broad.mit.edu	37	chr19	12772078	12772078	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtaggcgcactgacctgcGcatttaccagccggatgagc	8	7	14	12	3	0	2	0	2	0	0	0	3	0	3	3	3	4	3	3	3	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:12772078G>A	uc002mub.2	-	7	1098	c.1022C>T	c.(1021-1023)GCG>GTG	p.A341V	MAN2B1_uc010dyv.1_Missense_Mutation_p.A341V	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	341					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						ACTGACCTGCGCATTTACCAG	0.517													26	130					0	0	1	0	0		A	12772078	A	A	12772078	3	1	155	1	0	0	0	0	1	0	0	0	9234	1087	38	1	2085	1	MAN2B1	19	12772078	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1202768	12772078	46356905	1338	85165											
HOOK2	29911	broad.mit.edu	37	chr19	12883718	12883718	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcttctgacacaggatgCgccaggacctggggagaagg	9	7	15	10	1	2	2	0	1	2	1	2	5	2	4	2	5	2	1	2	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:12883718C>T	uc002muy.2	-	5	435	c.264G>A	c.(262-264)GCG>GCA	p.A88A	HOOK2_uc002muz.2_Silent_p.A88A	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	88	Sufficient for interaction with microtubules.|Required for localization to the centrosome and induction of aggresome formation.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						ACACAGGATGCGCCAGGACCT	0.592													31	75					0	0	1	0	0		T	12883718	T	T	12883718	2	4	155	1	0	0	0	0	0	0	0	1	7299	755	27	1		1	HOOK2	19	12883718	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	111640	12883718	46245265	1339	85166											
SYCE2	256126	broad.mit.edu	37	chr19	13010838	13010838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctgagaagtagtttcagccaCagaagaaacgaacacgtctg	15	7	10	9	2	2	3	1	1	1	3	2	5	2	3	1	0	3	2	1	0	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:13010838C>T	uc002mvr.2	-	5	607	c.592G>A	c.(592-594)GTG>ATG	p.V198M		NM_001105578	NP_001099048	Q6PIF2	SYCE2_HUMAN	synaptonemal complex central element protein 2	198					cell division	central element					0						GTTTCAGCCACAGAAGAAACG	0.552													7	28					0	0	1	0	0		T	13010838	T	T	13010838	3	4	155	1	0	0	0	0	1	0	0	0	15454	478	17	4	72	4	SYCE2	19	13010838	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	127120	13010838	46118145	1340	85167											
RFX1	5989	broad.mit.edu	37	chr19	14090271	14090271	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacacacctcttgagccacGtggactggctggaggccctg	8	7	12	14	1	1	1	0	1	1	0	1	3	1	3	3	4	1	1	3	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:14090271G>A	uc002mxv.2	-	7	1094	c.822C>T	c.(820-822)CAC>CAT	p.H274H	RFX1_uc010dzi.2_Silent_p.H274H	NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	274					immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			CTTGAGCCACGTGGACTGGCT	0.701													29	40					0	0	1	0	0		A	14090271	A	A	14090271	2	1	155	1	0	0	0	0	0	0	0	1	13287	1136	40	1		1	RFX1	19	14090271	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1079433	14090271	45038712	1341	85168											
LPHN1	22859	broad.mit.edu	37	chr19	14273457	14273457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgaactccaggctgtagcGcaccacgaaatagttgttcc	10	8	9	14	3	0	0	0	0	0	0	2	2	2	0	4	1	2	5	4	1	4	4	rs138963845		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:14273457G>A	uc010xnn.1	-	6	1467	c.1171C>T	c.(1171-1173)CGC>TGC	p.R391C	LPHN1_uc010xno.1_Missense_Mutation_p.R386C|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	391	Olfactomedin-like.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			ovary(2)|lung(2)|central_nervous_system(1)	5						AGGCTGTAGCGCACCACGAAA	0.607													64	100					0	0	1	0	0		A	14273457	A	A	14273457	3	1	155	1	0	0	0	0	1	0	0	0	8933	1087	38	1	3329	1	LPHN1	19	14273457	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	183186	14273457	44855526	1342	85169											
SLC1A6	6511	broad.mit.edu	37	chr19	15082660	15082660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcggtaggtgagctgatatgGgcgcagggcaaaggccaggc	9	5	19	8	2	0	2	0	2	0	0	0	2	0	2	1	6	1	4	1	6	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:15082660G>A	uc002naa.1	-	2	240	c.232C>T	c.(232-234)CCA>TCA	p.P78S	SLC1A6_uc010dzu.1_Missense_Mutation_p.P78S|SLC1A6_uc010xod.1_Missense_Mutation_p.P82L|SLC1A6_uc002nab.2_Missense_Mutation_p.P78S|SLC1A6_uc002nac.2_Missense_Mutation_p.P78S|SLC1A6_uc002nad.1_Missense_Mutation_p.P78S	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	78					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	AGCTGATATGGGCGCAGGGCA	0.468													58	85					0	0	1	0	0		A	15082660	A	A	15082660	3	1	155	1	0	0	0	0	1	0	0	0	14461	1232	43	4	1494	4	SLC1A6	19	15082660	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	809203	15082660	44046323	1343	85170											
SYDE1	85360	broad.mit.edu	37	chr19	15224480	15224480	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaagtggtgactcggccccgCggtcgaggaggccccgaaag	8	4	17	12	5	0	1	0	1	0	0	2	5	0	2	4	5	0	0	4	5	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:15224480C>T	uc002nah.1	+	8	1945	c.1914C>T	c.(1912-1914)CGC>CGT	p.R638R	SYDE1_uc002nai.1_Silent_p.R571R|SYDE1_uc002naj.1_Silent_p.R295R	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	638					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						CTCGGCCCCGCGGTCGAGGAG	0.682													10	71					0	0	1	0	0		T	15224480	T	T	15224480	2	4	155	1	0	0	0	0	0	0	0	1	15460	755	27	1		1	SYDE1	19	15224480	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	141820	15224480	43904503	1344	85171											
AKAP8	10270	broad.mit.edu	37	chr19	15479059	15479059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcacctgtcggctgcacGgtcccgcgtcctgtctcttc	2	11	10	18	4	2	0	1	0	1	0	7	0	4	0	4	2	1	2	4	2	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:15479059G>A	uc002nav.2	-	9	1208	c.1147C>T	c.(1147-1149)CGT>TGT	p.R383C	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.R197C	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	383					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TCGGCTGCACGGTCCCGCGtc	0.453													29	23					0	0	1	0	0		A	15479059	A	A	15479059	3	1	155	1	0	0	0	0	1	0	0	0	457	1116	39	1	955	1	AKAP8	19	15479059	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	254579	15479059	43649924	1345	85172											
PGLYRP2	114770	broad.mit.edu	37	chr19	15582709	15582709	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcccctcctacctgtagccGatgtctccccagccttgcgt	4	10	9	18	2	1	0	0	0	1	0	3	1	2	0	8	1	4	1	8	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:15582709G>A	uc002nbf.3	-	3	1468	c.1335C>T	c.(1333-1335)ATC>ATT	p.I445I	PGLYRP2_uc002nbg.3_Silent_p.I445I	NM_052890	NP_443122	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2 precursor	445					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptide amidation|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)	3						ACCTGTAGCCGATGTCTCCCC	0.692													6	23					0	0	1	0	0		A	15582709	A	A	15582709	2	1	155	1	0	0	0	0	0	0	0	1	11813	1048	37	1		1	PGLYRP2	19	15582709	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	103650	15582709	43546274	1346	85173											
CYP4F22	126410	broad.mit.edu	37	chr19	15640536	15640536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagtaccttccaaatgaggCgggccttcaagatgagaaga	13	7	12	9	1	1	4	1	2	0	3	2	5	2	4	3	2	1	2	3	2	4	3	rs116743462	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:15640536C>T	uc002nbh.3	+	4	406	c.239C>T	c.(238-240)GCG>GTG	p.A80V		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	80						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						CCAAATGAGGCGGGCCTTCAA	0.557													10	54					0	0	1	0	0		T	15640536	T	T	15640536	3	4	155	1	0	0	0	0	1	0	0	0	4192	768	27	1	245	1	CYP4F22	19	15640536	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	57827	15640536	43488447	1347	85174											
OR10H5	284433	broad.mit.edu	37	chr19	15905054	15905054	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtacctcttcctgtgtgccCtctccatcaccgagatcctc	5	13	6	17	1	3	1	1	0	2	1	7	2	5	1	6	0	2	1	6	0	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:15905054C>A	uc010xos.1	+	1	196	c.196C>A	c.(196-198)CTC>ATC	p.L66I		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CCTGTGTGCCCTCTCCATCAC	0.627													43	94					1.8453e-21	1.98807e-21	1	1	0		A	15905054	A	A	15905054	3	1	155	1	0	0	0	0	1	0	0	0	10928	681	24	5	198	5	OR10H5	19	15905054	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	264518	15905054	43223929	1348	85175											
EPS15L1	58513	broad.mit.edu	37	chr19	16528865	16528865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgaaatacatagctaacGcgaattggtctttgcttaac	14	12	8	7	2	1	1	0	1	1	0	1	3	1	1	0	1	5	2	0	1	7	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:16528865G>A	uc002ndz.1	-	11	1007	c.1001C>T	c.(1000-1002)GCG>GTG	p.A334V	EPS15L1_uc002ndx.2_Missense_Mutation_p.A334V|EPS15L1_uc002ndy.2_RNA|EPS15L1_uc010xpe.1_Missense_Mutation_p.A224V|EPS15L1_uc010xpf.1_Missense_Mutation_p.A237V|EPS15L1_uc002nea.1_Missense_Mutation_p.A334V|EPS15L1_uc010eah.1_Missense_Mutation_p.A334V|EPS15L1_uc002neb.1_Missense_Mutation_p.A180V|EPS15L1_uc002nec.1_Missense_Mutation_p.A334V	NM_021235	NP_067058	Q9UBC2	EP15R_HUMAN	epidermal growth factor receptor pathway	334	EH 3.				endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	coated pit|nucleus|plasma membrane	calcium ion binding			ovary(3)|skin(2)	5						CATAGCTAACGCGAATTGGTC	0.562											OREG0025334	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	99					0	0	1	0	0		A	16528865	A	A	16528865	3	1	155	1	0	0	0	0	1	0	0	0	5201	1087	38	1	1645	1	EPS15L1	19	16528865	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	623811	16528865	42600118	1349	85176											
NWD1	284434	broad.mit.edu	37	chr19	16860457	16860457	+	Frame_Shift_Del	DEL	C	-	-																															cgatgacagcaagcagcacaCccccctggtactctttgggc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:16860457delC	uc002neu.3	+	6	1426	c.1004delC	c.(1003-1005)ACCfs	p.T335fs	NWD1_uc002net.3_Frame_Shift_Del_p.T200fs|NWD1_uc002nev.3_Frame_Shift_Del_p.T129fs			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	335	NACHT.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						AAGCAGCACACCCCCCTGGTA	0.617													29	63	---	---	---	---						.	-	16860457	-	-	16860457	7	5	155	1	0	1	0	1	0	0	0	0	10800	507	18	0	605	0	NWD1	19	16860457	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	331592	16860457	42268526	1350	85177											
CPAMD8	27151	broad.mit.edu	37	chr19	17036177	17036177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttcagggttggccccatgaCgtcccctggtgggaaggaga	7	8	16	10	1	1	2	1	1	0	1	2	4	2	3	4	5	0	2	4	5	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:17036177C>T	uc002nfb.2	-	26	3549	c.3517G>A	c.(3517-3519)GTC>ATC	p.V1173I		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1126						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GGCCCCATGACGTCCCCTGGT	0.557													30	48					0	0	1	0	0		T	17036177	T	T	17036177	3	4	155	1	0	0	0	0	1	0	0	0	3798	536	19	1	2349	1	CPAMD8	19	17036177	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	175720	17036177	42092806	1351	85178											
MYO9B	4650	broad.mit.edu	37	chr19	17298813	17298813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggcatgctggagaccgtgCgcatccggaggtcagggtac	7	6	16	12	4	1	1	1	0	0	1	2	3	2	2	3	5	3	4	3	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:17298813C>T	uc010eak.2	+	19	2799	c.2647C>T	c.(2647-2649)CGC>TGC	p.R883C	MYO9B_uc002nfi.2_Missense_Mutation_p.R883C|MYO9B_uc002nfj.1_Missense_Mutation_p.R883C	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	883	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						GGAGACCGTGCGCATCCGGAG	0.577													12	10					0	0	1	0	0		T	17298813	T	T	17298813	3	4	155	1	0	0	0	0	1	0	0	0	10103	768	27	1	2717	1	MYO9B	19	17298813	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	262636	17298813	41830170	1352	85179											
ARRDC2	27106	broad.mit.edu	37	chr19	18120836	18120836	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	tgccgcgttctacacgtggaCtacgcactcaaggtagggca	9	8	12	12	4	2	0	1	0	1	0	2	1	2	1	1	3	3	4	1	3	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:18120836C>G	uc002nhv.2	+	5	980	c.837C>G	c.(835-837)GAC>GAG	p.D279E	ARRDC2_uc002nhu.2_Missense_Mutation_p.D274E	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	279										pancreas(1)	1						TACACGTGGACTACGCACTCA	0.672													6	108					0	0	1	0	0		G	18120836	G	G	18120836	3	3	155	1	0	0	0	0	1	0	0	0	984	564	20	5	1118	5	ARRDC2	19	18120836	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	822023	18120836	41008147	1353	85180											
KLHL26	55295	broad.mit.edu	37	chr19	18779651	18779651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaggccctgcactgctacGaccccgtggccgaccagtgg	8	5	13	15	3	0	1	0	0	0	1	0	3	0	1	5	3	3	2	5	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:18779651G>A	uc002njz.1	+	3	1471	c.1444G>A	c.(1444-1446)GAC>AAC	p.D482N		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	482	Kelch 4.									ovary(1)	1						GCACTGCTACGACCCCGTGGC	0.692													17	26					0	0	1	0	0		A	18779651	A	A	18779651	3	1	155	1	0	0	0	0	1	0	0	0	8397	1058	37	1	1454	1	KLHL26	19	18779651	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	658815	18779651	40349332	1354	85181											
SF4	57794	broad.mit.edu	37	chr19	19388563	19388563	+	Silent	SNP	G	A	A	0	0	1	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	ttgttcactgggttcttgatGccctggccctctgagcccag	4	13	11	13	0	3	2	1	2	2	0	3	2	3	2	3	2	2	2	3	2	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:19388563G>A	uc002nmh.2	-	12	1763	c.1761C>T	c.(1759-1761)GGC>GGT	p.G587G	SF4_uc002nmf.2_Silent_p.G137G|SF4_uc002nmg.2_Silent_p.G137G|SF4_uc002nmi.2_Silent_p.G377G|SF4_uc002nmj.2_Silent_p.G377G|SF4_uc002nme.2_Silent_p.G137G	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	587	G-patch.				nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						GGTTCTTGATGCCCTGGCCCT	0.597													8	37					0	0	1	0	0		A	19388563	A	A	19388563	2	1	155	1	0	0	0	0	0	0	0	1	14180	1306	46	2		2	SF4	19	19388563	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	608912	19388563	39740420	1355	85182											
CILP2	148113	broad.mit.edu	37	chr19	19654065	19654065	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgccatccaggttccacaAtgggaccctgctggacaggc	8	7	11	15	0	0	0	0	0	0	0	2	2	2	2	5	4	2	2	5	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:19654065A>G	uc002nmv.3	+	7	1071	c.986A>G	c.(985-987)AAT>AGT	p.N329S	CILP2_uc002nmw.3_Missense_Mutation_p.N335S	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	329	Ig-like C2-type.					proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						AGGTTCCACAATGGGACCCTG	0.652													31	37					0	0	1	0	0		G	19654065	G	G	19654065	3	3	155	1	0	0	0	0	1	0	0	0	3433	101	4	3	1012	3	CILP2	19	19654065	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	265502	19654065	39474918	1356	85183											
GMIP	51291	broad.mit.edu	37	chr19	19741100	19741100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggcggctgaagtggccaCgagactgtgtccccaggagt	7	7	16	11	2	0	2	0	1	0	1	1	4	1	3	3	4	0	2	3	4	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:19741100C>T	uc002nnd.2	-	21	2702	c.2585G>A	c.(2584-2586)CGT>CAT	p.R862H	LPAR2_uc002nnb.3_5'Flank|LPAR2_uc002nna.3_5'Flank|LPAR2_uc002nnc.3_5'Flank|GMIP_uc010xrb.1_Missense_Mutation_p.R836H|GMIP_uc010xrc.1_Missense_Mutation_p.R833H	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	862					negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						GAAGTGGCCACGAGACTGTGT	0.622													12	13					0	0	1	0	0		T	19741100	T	T	19741100	3	4	155	1	0	0	0	0	1	0	0	0	6506	536	19	1	331	1	GMIP	19	19741100	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	87035	19741100	39387883	1357	85184											
ZNF675	171392	broad.mit.edu	37	chr19	23836431	23836431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcagtaagttttgaggatCggttaaaagctttgccacat	11	14	10	6	1	1	1	1	1	0	0	2	2	1	2	1	2	2	5	1	2	3	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:23836431C>T	uc002nri.2	-	4	1486	c.1304G>A	c.(1303-1305)CGA>CAA	p.R435Q		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	435	C2H2-type 11.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				TTTTGAGGATCGGTTAAAAGC	0.378													43	80					0	0	1	0	0		T	23836431	T	T	23836431	3	4	155	1	0	0	0	0	1	0	0	0	18107	884	31	1	406	1	ZNF675	19	23836431	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4095331	23836431	35292552	1358	85185											
UQCRFS1	7386	broad.mit.edu	37	chr19	29698468	29698468	+	Missense_Mutation	SNP	A	G	G	1	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	aagtctcttaaccaacaatcAccatatcgtcactggtgaac	14	10	5	12	1	3	1	2	1	1	0	5	1	3	1	2	1	3	0	2	1	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:29698468A>G	uc002nsd.2	-	2	923	c.812T>C	c.(811-813)GTG>GCG	p.V271A		NM_006003	NP_005994	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske	271	Rieske.				respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex III	2 iron, 2 sulfur cluster binding|metal ion binding|ubiquinol-cytochrome-c reductase activity				0	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			ACCAACAATCACCATATCGTC	0.463													11	74					0	0	1	0	0		G	29698468	G	G	29698468	3	3	155	1	0	0	0	0	1	0	0	0	17047	159	6	3	16	3	UQCRFS1	19	29698468	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	5862037	29698468	29430515	1359	85186											
LRP3	4037	broad.mit.edu	37	chr19	33693789	33693789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggagcagcacacggagCggcgtggggtcatctacagc	9	5	16	11	3	2	0	1	0	1	0	2	2	2	2	0	5	6	3	0	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:33693789C>T	uc010edh.2	+	3	250	c.157C>T	c.(157-159)CGG>TGG	p.R53W	LRP3_uc010xrp.1_5'UTR|LRP3_uc002nuk.3_5'Flank	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	53	Extracellular (Potential).|CUB 1.				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					GCACACGGAGCGGCGTGGGGT	0.652													8	14					0	0	1	0	0		T	33693789	T	T	33693789	3	4	155	1	0	0	0	0	1	0	0	0	8976	759	27	1	167	1	LRP3	19	33693789	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3995321	33693789	25435194	1360	85187											
CHST8	64377	broad.mit.edu	37	chr19	34263795	34263795	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccgcgcgccgcggaacCtgaccttcccccggttcaag	6	7	10	18	6	2	1	2	1	0	0	4	2	4	2	6	2	1	1	6	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:34263795C>A	uc002nus.3	+	5	1607	c.1102C>A	c.(1102-1104)CTG>ATG	p.L368M	CHST8_uc002nut.3_Missense_Mutation_p.L368M|CHST8_uc002nuu.2_Missense_Mutation_p.L368M	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	368	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					GCCGCGGAACCTGACCTTCCC	0.632													6	44					0.00116845	0.0011826	1	1	0		A	34263795	A	A	34263795	3	1	155	1	0	0	0	0	1	0	0	0	3413	680	24	5	1112	5	CHST8	19	34263795	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	570006	34263795	24865188	1361	85188											
KCTD15	79047	broad.mit.edu	37	chr19	34292185	34292186	+	Missense_Mutation	DNP	CG	TA	TA																															tccaatgcacctgtgcacatCgatgtgggcggccacatgta																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:34292185_34292186CG>TA	uc002nuy.3	+	4	448_449	c.180_181CG>TA	c.(178-183)ATCGAT>ATTAAT	p.D61N	KCTD15_uc002nuv.2_Missense_Mutation_p.D61N|KCTD15_uc002nuw.3_Missense_Mutation_p.D61N|KCTD15_uc010xrt.1_Missense_Mutation_p.D61N|KCTD15_uc002nux.3_Missense_Mutation_p.D61N	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	61	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					CTGTGCACATCGATGTGGGCGG	0.619													26	46					0	0	1	0	0		TA	34292186	TA	TA	34292185	3	4	155	1	0	0	0	0	1	0	0	0	8118	874	31	1	186	1	KCTD15	19	34292185	Missense_Mutation	DNP	CG	TCGA-CG-5726-01A-11D-1600-08	28390	34292185	24836798	1362	85189											
KIAA0355	9710	broad.mit.edu	37	chr19	34791601	34791601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacactactcctatcgccGacatccagcagggcatctcc	9	7	6	19	2	1	0	0	0	1	0	5	1	3	0	5	1	2	2	5	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:34791601G>A	uc002nvd.3	+	2	1082	c.223G>A	c.(223-225)GAC>AAC	p.D75N	KIAA0355_uc010edk.1_Missense_Mutation_p.D65N	NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	75										ovary(1)	1	Esophageal squamous(110;0.162)					TCCTATCGCCGACATCCAGCA	0.602													34	45					0	0	1	0	0		A	34791601	A	A	34791601	3	1	155	1	0	0	0	0	1	0	0	0	8186	1058	37	1	225	1	KIAA0355	19	34791601	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	499416	34791601	24337382	1363	85190											
ATP4A	495	broad.mit.edu	37	chr19	36049337	36049337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccggtagcccatggcgttgCccagcgtcagctccgagaac	7	6	12	16	4	1	1	1	0	0	1	2	2	2	1	4	2	5	3	4	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:36049337C>T	uc002oal.1	-	10	1456	c.1427G>A	c.(1426-1428)GGC>GAC	p.G476D	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	476	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	CATGGCGTTGCCCAGCGTCAG	0.657													5	3					0	0	1	0	0		T	36049337	T	T	36049337	3	4	155	1	0	0	0	0	1	0	0	0	1146	739	26	2	1732	2	ATP4A	19	36049337	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1257736	36049337	23079646	1364	85191											
MLL4	9757	broad.mit.edu	37	chr19	36215889	36215889	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccccacctttcctccccaGgatgctttggcccctggccc	3	10	7	21	0	0	0	0	0	0	0	3	1	3	1	9	3	1	1	9	3	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:36215889G>T	uc010eei.2	+	11	3430	c.3430_splice	c.e11-1	p.D1144_splice		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4						chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TTCCTCCCCAGGATGCTTTGG	0.597													22	34					1.10513e-12	1.17026e-12	1	1	0		T	36215889	T	T	36215889	5	4	155	1	0	0	0	0	0	0	1	0	9641	1014	35	5	3467	5	MLL4	19	36215889	Splice_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	166552	36215889	22913094	1365	85192											
MLL4	9757	broad.mit.edu	37	chr19	36223476	36223476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttccaggaagagattgtagCcgctggggccatggggagca	9	7	16	9	1	0	1	0	0	0	1	1	4	1	3	3	5	2	3	3	5	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:36223476C>T	uc010eei.2	+	29	6026	c.6026C>T	c.(6025-6027)GCC>GTC	p.A2009V		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2009					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GAGATTGTAGCCGCTGGGGCC	0.657													9	2					0	0	1	0	0		T	36223476	T	T	36223476	3	4	155	1	0	0	0	0	1	0	0	0	9641	739	26	2	6136	2	MLL4	19	36223476	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	7587	36223476	22905507	1366	85193											
MLL4	9757	broad.mit.edu	37	chr19	36223858	36223858	+	Frame_Shift_Del	DEL	C	-	-																															ggccctagagaggagtcactCcccccggcgcctcccctggc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:36223858delC	uc010eei.2	+	29	6408	c.6408delC	c.(6406-6408)CTCfs	p.L2136fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2136					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGAGTCACTCCCCCCGGCGC	0.662													6	10	---	---	---	---						.	-	36223858	-	-	36223858	7	5	155	1	0	1	0	1	0	0	0	0	9641	842	30	0	6518	0	MLL4	19	36223858	Frame_Shift_Del	DEL	C	TCGA-CG-5726-01A-11D-1600-08	382	36223858	22905125	1367	85194											
LRFN3	79414	broad.mit.edu	37	chr19	36430917	36430917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgctggcttctgtgcccgCcggcgctttttcccgcctgc	0	12	11	18	4	1	0	0	0	1	0	2	0	2	0	5	2	3	3	5	2	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:36430917C>T	uc002oco.2	+	2	1042	c.590C>T	c.(589-591)GCC>GTC	p.A197V		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	197	Extracellular (Potential).|LRR 6.			Missing (in Ref. 2; AAQ88494).	cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TCTGTGCCCGCCGGCGCTTTT	0.667													37	64					0	0	1	0	0		T	36430917	T	T	36430917	3	4	155	1	0	0	0	0	1	0	0	0	8957	739	26	2	592	2	LRFN3	19	36430917	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	207059	36430917	22698066	1368	85195											
ZNF382	84911	broad.mit.edu	37	chr19	37117434	37117434	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaagctccagagcaaccatTtgaccataatgaatgtgaaa	16	9	7	9	0	1	4	1	3	0	1	2	4	2	4	3	0	3	2	3	0	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:37117434T>C	uc002oek.2	+	5	748	c.635T>C	c.(634-636)TTT>TCT	p.F212S	ZNF382_uc010efa.2_Missense_Mutation_p.F163S|ZNF382_uc010efb.2_Missense_Mutation_p.F211S|ZNF382_uc002oel.2_Missense_Mutation_p.F211S	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	212	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			GAGCAACCATTTGACCATAAT	0.378													7	194					0	0	1	0	0		C	37117434	C	C	37117434	3	2	155	1	0	0	0	0	1	0	0	0	17898	1841	64	3	645	3	ZNF382	19	37117434	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	686517	37117434	22011549	1369	85196											
ZNF568	374900	broad.mit.edu	37	chr19	37488248	37488248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtggctcagaacttacccGacatcagagagctcatactg	11	9	9	12	2	3	2	3	0	0	2	4	4	3	2	1	1	4	2	1	1	3	2	rs148872903	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:37488248G>A	uc010efg.2	+	10	2170	c.1613G>A	c.(1612-1614)CGA>CAA	p.R538Q	ZNF568_uc010xtn.1_Missense_Mutation_p.R476Q|uc010efi.2_Missense_Mutation_p.R356Q|uc010efj.2_Missense_Mutation_p.R356Q			Q3ZCX4	ZN568_HUMAN	SubName: Full=cDNA FLJ57578, moderately similar to Mus musculus zinc finger protein 568 (Zfp568), mRNA;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GAACTTACCCGACATCAGAGA	0.438													7	16					0	0	1	0	0		A	37488248	A	A	37488248	3	1	155	1	0	0	0	0	1	0	0	0	18024	1073	37	1		1	ZNF568	19	37488248	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	370814	37488248	21640735	1370	85197											
ZNF585A	199704	broad.mit.edu	37	chr19	37647242	37647242	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaatcgatagccacatcccTgaaggacactgatccctgta	13	8	8	12	1	0	2	0	2	0	0	3	5	2	3	3	1	1	1	3	1	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:37647242T>C	uc002ofo.1	-	3	319	c.88A>G	c.(88-90)AGG>GGG	p.R30G	ZNF585A_uc002ofm.1_5'UTR|ZNF585A_uc002ofn.1_5'UTR	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	30	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GCCACATCCCTGAAGGACACT	0.488													31	46					0	0	1	0	0		C	37647242	C	C	37647242	3	2	155	1	0	0	0	0	1	0	0	0	18042	1595	55	3		3	ZNF585A	19	37647242	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	158994	37647242	21481741	1371	85198											
ZNF585B	92285	broad.mit.edu	37	chr19	37676764	37676764	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtattgatttctggttgaAggctttcccacattcgtggc	7	15	11	8	1	1	2	0	2	1	0	3	3	2	2	1	3	0	3	1	3	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:37676764A>G	uc002ofq.2	-	5	1929	c.1675T>C	c.(1675-1677)TTC>CTC	p.F559L	uc002ofp.1_5'Flank|ZNF585B_uc002ofr.1_Missense_Mutation_p.F373L	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	559	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTCTGGTTGAAGGCTTTCCCA	0.388													56	86					0	0	1	0	0		G	37676764	G	G	37676764	3	3	155	1	0	0	0	0	1	0	0	0	18043	72	3	3	638	3	ZNF585B	19	37676764	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	29522	37676764	21452219	1372	85199											
SIPA1L3	23094	broad.mit.edu	37	chr19	38597247	38597247	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcatgttccatgtctccacCctgctcccttacacccccaa	8	11	3	19	0	2	0	1	0	1	0	5	0	4	0	6	0	2	2	6	0	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:38597247C>A	uc002ohk.2	+	7	2609	c.2100C>A	c.(2098-2100)ACC>ACA	p.T700T		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	700	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			ATGTCTCCACCCTGCTCCCTT	0.572													60	106					1.53716e-24	1.669e-24	1	1	0		A	38597247	A	A	38597247	2	1	155	1	0	0	0	0	0	0	0	1	14356	610	22	5		5	SIPA1L3	19	38597247	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	920483	38597247	20531736	1373	85200											
LGALS7B	653499	broad.mit.edu	37	chr19	39281375	39281375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcagggctccgatgccGccctgcatttcaacccccgg	7	6	12	16	3	1	0	1	0	0	0	2	2	2	1	5	3	4	3	5	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:39281375G>A	uc002ojf.3	+	3	159	c.142G>A	c.(142-144)GCC>ACC	p.A48T		NM_001042507	NP_001035972	P47929	LEG7_HUMAN	galectin-7B	48	Galectin.				apoptosis|heterophilic cell-cell adhesion	cytoplasm|extracellular space|nucleus	sugar binding				0						CTCCGATGCCGCCCTGCATTT	0.637													4	55					0	0	1	0	0		A	39281375	A	A	39281375	3	1	155	1	0	0	0	0	1	0	0	0	8762	1087	38	1	152	1	LGALS7B	19	39281375	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	684128	39281375	19847608	1374	85201											
NCCRP1	342897	broad.mit.edu	37	chr19	39690989	39690989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgactccgcctgcaggttCgaggacagccggctggatgc	6	8	14	13	3	0	1	0	1	0	0	2	4	1	3	3	4	3	3	3	4	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:39690989C>T	uc002okq.1	+	5	571	c.552C>T	c.(550-552)TTC>TTT	p.F184F		NM_001001414	NP_001001414	Q6ZVX7	NCRP1_HUMAN	non-specific cytotoxic cell receptor protein 1	184	FBA.				protein catabolic process					ovary(1)	1						CCTGCAGGTTCGAGGACAGCC	0.592													46	65					0	0	1	0	0		T	39690989	T	T	39690989	2	4	155	1	0	0	0	0	0	0	0	1	10232	883	31	1		1	NCCRP1	19	39690989	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	409614	39690989	19437994	1375	85202											
DYRK1B	9149	broad.mit.edu	37	chr19	40321029	40321029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacctggccaaaggagcCtttgccaatgagcgagtcaa	12	6	10	13	1	1	1	1	1	0	0	1	3	1	2	5	2	3	0	5	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:40321029C>A	uc002omj.2	-	4	638	c.358G>T	c.(358-360)GGC>TGC	p.G120C	DYRK1B_uc002omi.2_Missense_Mutation_p.G120C|DYRK1B_uc002omk.2_Missense_Mutation_p.G120C|DYRK1B_uc002oml.2_Missense_Mutation_p.G120C	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	120	ATP (By similarity).|Protein kinase.				positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	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)			CCAAAGGAGCCTTTGCCAATG	0.517													38	42					8.73648e-17	9.34613e-17	1	1	0		A	40321029	A	A	40321029	3	1	155	1	0	0	0	0	1	0	0	0	4861	681	24	5	1563	5	DYRK1B	19	40321029	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	630040	40321029	18807954	1376	85203											
DYRK1B	9149	broad.mit.edu	37	chr19	40321086	40321086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagcgctcgccactgcgcaCgatgtagtcatggttgtcgt	6	10	12	13	5	1	0	1	0	0	0	3	1	1	0	2	1	2	4	2	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:40321086C>T	uc002omj.2	-	4	581	c.301G>A	c.(301-303)GTG>ATG	p.V101M	DYRK1B_uc002omi.2_Missense_Mutation_p.V101M|DYRK1B_uc002omk.2_Missense_Mutation_p.V101M|DYRK1B_uc002oml.2_Missense_Mutation_p.V101M	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	101					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	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)			CCACTGCGCACGATGTAGTCA	0.597													37	68					0	0	1	0	0		T	40321086	T	T	40321086	3	4	155	1	0	0	0	0	1	0	0	0	4861	536	19	1	1620	1	DYRK1B	19	40321086	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	57	40321086	18807897	1377	85204											
DYRK1B	9149	broad.mit.edu	37	chr19	40321350	40321350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaggtccacagagagcttaCgcagcggggctgaggttgca	9	7	16	9	2	0	3	0	2	0	1	1	4	1	3	1	4	4	5	1	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:40321350C>T	uc002omj.2	-	3	417	c.137G>A	c.(136-138)CGT>CAT	p.R46H	DYRK1B_uc002omi.2_Missense_Mutation_p.R46H|DYRK1B_uc002omk.2_Missense_Mutation_p.R46H|DYRK1B_uc002oml.2_Missense_Mutation_p.R46H	NM_004714	NP_004705	Q9Y463	DYR1B_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	46					positive regulation of transcription, DNA-dependent	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|transcription coactivator activity			ovary(4)|stomach(1)|central_nervous_system(1)|skin(1)	7	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)			AGAGAGCTTACGCAGCGGGGC	0.647													26	45					0	0	1	0	0		T	40321350	T	T	40321350	3	4	155	1	0	0	0	0	1	0	0	0	4861	536	19	1	1788	1	DYRK1B	19	40321350	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	264	40321350	18807633	1378	85205											
FCGBP	8857	broad.mit.edu	37	chr19	40434017	40434017	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaccatgaccgactccccGggcctcactgtgaccttctt	6	11	8	16	2	2	3	1	3	1	0	3	4	3	3	6	1	0	0	6	1	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:40434017G>A	uc002omp.3	-	2	260	c.252C>T	c.(250-252)CCC>CCT	p.P84P		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	84	IgGFc-binding.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCGACTCCCCGGGCCTCACTG	0.562													55	82					0	0	1	0	0		A	40434017	A	A	40434017	2	1	155	1	0	0	0	0	0	0	0	1	5792	1103	39	1		1	FCGBP	19	40434017	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	112667	40434017	18694966	1379	85206											
ZNF780B	163131	broad.mit.edu	37	chr19	40541678	40541678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccttcccgcattccctgCattcaaagggcttctcaccc	7	10	7	17	1	2	0	2	0	1	0	5	0	4	0	4	2	1	3	4	2	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:40541678C>T	uc002omu.2	-	5	1153	c.1088G>A	c.(1087-1089)TGC>TAC	p.C363Y	ZNF780B_uc002omv.2_Missense_Mutation_p.C215Y	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	363	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GCATTCCCTGCATTCAAAGGG	0.413													9	152					0	0	1	0	0		T	40541678	T	T	40541678	3	4	155	1	0	0	0	0	1	0	0	0	18178	710	25	2	1417	2	ZNF780B	19	40541678	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	107661	40541678	18587305	1380	85207											
PRX	57716	broad.mit.edu	37	chr19	40900414	40900414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catggttgcccccggatggcGagagctccacgtcgggcagt	6	7	15	13	4	0	1	0	0	0	1	2	3	1	2	3	4	2	3	3	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:40900414G>A	uc002onr.2	-	7	4114	c.3845C>T	c.(3844-3846)TCG>TTG	p.S1282L	PRX_uc002onq.2_Missense_Mutation_p.S1143L|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1282					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCCGGATGGCGAGAGCTCCAC	0.697													4	8					0	0	1	0	0		A	40900414	A	A	40900414	3	1	155	1	0	0	0	0	1	0	0	0	12664	1059	37	1	544	1	PRX	19	40900414	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	358736	40900414	18228569	1381	85208											
LTBP4	8425	broad.mit.edu	37	chr19	41113279	41113279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctcgcagcccaacacGtgatctcagaggccaaaggg	10	6	11	14	2	1	2	1	1	1	1	4	2	2	2	3	2	3	2	3	2	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:41113279G>A	uc002ooh.1	+	10	1201	c.1201G>A	c.(1201-1203)GTG>ATG	p.V401M	LTBP4_uc002oog.1_Missense_Mutation_p.V364M|LTBP4_uc002ooi.1_Missense_Mutation_p.V334M|LTBP4_uc002ooj.1_5'Flank|LTBP4_uc010xvo.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	401					growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGCCCAACACGTGATCTCAGA	0.607													9	13					0	0	1	0	0		A	41113279	A	A	41113279	3	1	155	1	0	0	0	0	1	0	0	0	9094	1145	40	1	1532	1	LTBP4	19	41113279	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	212865	41113279	18015704	1382	85209											
CYP2F1	1572	broad.mit.edu	37	chr19	41627521	41627521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatgagcagcccctggggcGaggtcagccaactgagtcca	9	6	13	13	1	2	2	2	2	0	0	3	3	3	2	4	3	4	1	4	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:41627521G>A	uc002opu.1	+	5	699	c.643G>A	c.(643-645)GAG>AAG	p.E215K	CYP2F1_uc010xvw.1_Intron|CYP2F1_uc010xvv.1_Missense_Mutation_p.E215K|CYP2F1_uc002opv.1_RNA	NM_000774	NP_000765	P24903	CP2F1_HUMAN	cytochrome P450, family 2, subfamily F,	215					naphthalene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0						CCCCTGGGGCGAGGTCAGCCA	0.587													82	114					0	0	1	0	0		A	41627521	A	A	41627521	3	1	155	1	0	0	0	0	1	0	0	0	4174	1059	37	1	657	1	CYP2F1	19	41627521	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	514242	41627521	17501462	1383	85210											
EXOSC5	56915	broad.mit.edu	37	chr19	41893465	41893465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggacatcagcagcttcCgttccacgctgtccagggca	7	9	11	14	2	1	0	1	0	0	0	4	1	4	1	3	2	3	6	3	2	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:41893465C>T	uc002oqo.2	-	5	592	c.569G>A	c.(568-570)CGG>CAG	p.R190Q	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Intron	NM_020158	NP_064543	Q9NQT4	EXOS5_HUMAN	exosome component Rrp46	190					DNA deamination|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|transcriptionally active chromatin	3'-5'-exoribonuclease activity|protein binding|RNA binding				0						CAGCAGCTTCCGTTCCACGCT	0.582													3	7					0	0	1	0	0		T	41893465	T	T	41893465	3	4	155	1	0	0	0	0	1	0	0	0	5326	652	23	1	146	1	EXOSC5	19	41893465	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	265944	41893465	17235518	1384	85211											
ARHGEF1	9138	broad.mit.edu	37	chr19	42406477	42406479	+	In_Frame_Del	DEL	GAG	-	-																															aggagagtggctacctcatcGaggagatcggagacgtgctg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:42406477_42406479delGAG	uc002orx.2	+	16	1577_1579	c.1468_1470delGAG	c.(1468-1470)GAGdel	p.E491del	ARHGEF1_uc002ory.2_In_Frame_Del_p.E458del|ARHGEF1_uc002orz.2_In_Frame_Del_p.E329del|ARHGEF1_uc002osa.2_In_Frame_Del_p.E506del|ARHGEF1_uc002osb.2_In_Frame_Del_p.E473del|ARHGEF1_uc002osc.2_In_Frame_Del_p.E245del|ARHGEF1_uc002osd.2_In_Frame_Del_p.E150del|ARHGEF1_uc002ose.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	491	DH.				cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		CTACCTCATCGAGGAGATCGGAG	0.64													18	37	---	---	---	---						.	-	42406479	-	-	42406477	7	5	155	1	0	1	0	1	0	0	0	0	893	1059	37	0	1575	0	ARHGEF1	19	42406477	In_Frame_Del	DEL	GAG	TCGA-CG-5726-01A-11D-1600-08	513012	42406477	16722506	1385	85212											
ATP1A3	478	broad.mit.edu	37	chr19	42473602	42473602	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcacccactgctgcccgtaActgtcttccaggtcattgac	7	11	7	16	1	3	1	2	1	1	0	4	1	4	1	3	1	3	2	3	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:42473602A>T	uc002osg.2	-	19	2827	c.2673T>A	c.(2671-2673)AGT>AGA	p.S891R	ATP1A3_uc010xwf.1_Missense_Mutation_p.S902R|ATP1A3_uc010xwg.1_Missense_Mutation_p.S861R|ATP1A3_uc010xwh.1_Missense_Mutation_p.S904R|ATP1A3_uc002osh.2_Missense_Mutation_p.S891R	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	891	Extracellular (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						GCTGCCCGTAACTGTCTTCCA	0.587													44	122					0	0	1	0	0		T	42473602	T	T	42473602	3	4	155	1	0	0	0	0	1	0	0	0	1131	40	2	5	388	5	ATP1A3	19	42473602	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	67125	42473602	16655381	1386	85213											
POU2F2	5452	broad.mit.edu	37	chr19	42596301	42596302	+	Frame_Shift_Ins	INS	-	G	G																															ttgtgctgttggtggtggccINSgggggtgggggagtgacaga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:42596301_42596302insG	uc002osp.2	-	13	1386_1387	c.1319_1320insC	c.(1318-1320)CCGfs	p.P440fs	POU2F2_uc002osn.2_Frame_Shift_Ins_p.P424fs|POU2F2_uc002oso.2_Frame_Shift_Ins_p.P213fs|POU2F2_uc002osq.2_Intron|POU2F2_uc002osr.1_Frame_Shift_Ins_p.P440fs	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	440					humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				TGGTGGTGGCCGGGGGTGGGGG	0.569													7	10	---	---	---	---						.	G	42596302	G	G	42596301	7	5	155	1	0	1	1	0	0	0	0	0	12291	639	23	0	127	0	POU2F2	19	42596301	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	122699	42596301	16532682	1387	85214											
PSG2	5670	broad.mit.edu	37	chr19	43576030	43576030	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggtgggttagagttcgcGaagcaagacaagtagaggtt	11	8	16	6	3	0	3	0	0	0	3	1	4	0	3	1	3	1	5	1	3	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:43576030G>A	uc002ovr.2	-	4	879	c.786C>T	c.(784-786)TTC>TTT	p.F262F	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Silent_p.F262F|PSG2_uc010eiq.1_Silent_p.F262F|PSG2_uc002ovs.3_Silent_p.F262F|PSG2_uc002ovt.3_Silent_p.F262F	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	262	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				TAGAGTTCGCGAAGCAAGACA	0.438													139	229					0	0	1	0	0		A	43576030	A	A	43576030	2	1	155	1	0	0	0	0	0	0	0	1	12677	1049	37	1		1	PSG2	19	43576030	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	979729	43576030	15552953	1388	85215											
OPA3	80207	broad.mit.edu	37	chr19	46087972	46087972	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaagcggcttgctgacctgCcggatgcccaagtatagcag	9	7	13	12	2	0	1	0	1	0	0	0	2	0	2	3	2	5	5	3	2	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:46087972C>T	uc002pck.3	-	1	151	c.51G>A	c.(49-51)CGG>CGA	p.R17R	OPA3_uc002pcj.3_Silent_p.R17R|OPA3_uc010xxk.1_Intron	NM_025136	NP_079412	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform b	17					response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		TGCTGACCTGCCGGATGCCCA	0.632													16	38					0	0	1	0	0		T	46087972	T	T	46087972	2	4	155	1	0	0	0	0	0	0	0	1	10891	726	26	2		2	OPA3	19	46087972	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2511942	46087972	13041011	1389	85216											
EML2	24139	broad.mit.edu	37	chr19	46128026	46128026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcccccgtgaccacgtcGccaccttccaaaaaggtcac	10	6	8	17	3	1	1	1	1	0	0	4	2	3	1	6	1	0	0	6	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:46128026G>A	uc002pcn.2	-	9	827	c.792C>T	c.(790-792)GGC>GGT	p.G264G	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Silent_p.G148G|EML2_uc010xxl.1_Silent_p.G411G|EML2_uc010xxm.1_Silent_p.G465G|EML2_uc010xxn.1_RNA|EML2_uc010xxo.1_Silent_p.G264G|EML2_uc010ekj.2_Intron|EML2_uc010ekk.1_RNA	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	264	WD 4.				sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		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)		TGACCACGTCGCCACCTTCCA	0.527													5	38					0	0	1	0	0		A	46128026	A	A	46128026	2	1	155	1	0	0	0	0	0	0	0	1	5105	1074	38	1		1	EML2	19	46128026	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	40054	46128026	13000957	1390	85217											
SNRPD2	6633	broad.mit.edu	37	chr19	46190926	46190926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggacttcttcttgcccttgCcactcttgggtacctcagtc	4	15	8	14	0	4	0	1	0	3	0	5	1	4	1	3	2	3	1	3	2	1	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:46190926C>T	uc002pcw.2	-	3	539	c.242G>A	c.(241-243)GGC>GAC	p.G81D	SNRPD2_uc002pcv.2_Missense_Mutation_p.G71D	NM_004597	NP_004588	P62316	SMD2_HUMAN	small nuclear ribonucleoprotein D2 isoform 1	81					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	catalytic step 2 spliceosome|cytosol|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	protein binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00546)|GBM - Glioblastoma multiforme(486;0.0807)|Epithelial(262;0.194)		CTTGCCCTTGCCACTCTTGGG	0.597													6	90					0	0	1	0	0		T	46190926	T	T	46190926	3	4	155	1	0	0	0	0	1	0	0	0	14890	739	26	2	118	2	SNRPD2	19	46190926	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	62900	46190926	12938057	1391	85218											
PRKD2	25865	broad.mit.edu	37	chr19	47197162	47197162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggcctggggcgctgggtgCgtcctgaaggatgacgggca	5	7	20	9	3	0	2	0	2	0	0	1	3	1	3	2	6	1	2	2	6	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:47197162C>T	uc002pfh.2	-	11	1888	c.1546G>A	c.(1546-1548)GCA>ACA	p.A516T	PRKD2_uc010ekt.2_5'Flank|PRKD2_uc002pfe.2_Missense_Mutation_p.A36T|PRKD2_uc002pff.2_Missense_Mutation_p.A36T|PRKD2_uc002pfg.2_Missense_Mutation_p.A359T|PRKD2_uc002pfi.2_Missense_Mutation_p.A516T|PRKD2_uc002pfj.2_Missense_Mutation_p.A516T|PRKD2_uc010xye.1_Missense_Mutation_p.A516T|PRKD2_uc002pfk.2_Missense_Mutation_p.A359T	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	516					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GCGCTGGGTGCGTCCTGAAGG	0.682													38	76					0	0	1	0	0		T	47197162	T	T	47197162	3	4	155	1	0	0	0	0	1	0	0	0	12541	768	27	1	1126	1	PRKD2	19	47197162	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1006236	47197162	11931821	1392	85219											
ZC3H4	23211	broad.mit.edu	37	chr19	47597337	47597337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgctagaagaagcatggcGctgtaatgacaggggaagga	14	6	15	6	2	0	3	0	1	0	2	1	5	0	5	0	4	1	4	0	4	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:47597337G>A	uc002pga.3	-	4	420	c.382C>T	c.(382-384)CGC>TGC	p.R128C	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	128	Potential.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		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)		GAAGCATGGCGCTGTAATGAC	0.567													20	40					0	0	1	0	0		A	47597337	A	A	47597337	3	1	155	1	0	0	0	0	1	0	0	0	17595	1101	38	1	3577	1	ZC3H4	19	47597337	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	400175	47597337	11531646	1393	85220											
GLTSCR2	29997	broad.mit.edu	37	chr19	48254791	48254791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagaccccctggacaggCcgttggttggccaggatgag	8	6	14	13	1	0	2	0	1	0	1	0	4	0	4	5	5	0	2	5	5	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:48254791C>T	uc002phm.2	+	5	637	c.613C>T	c.(613-615)CCG>TCG	p.P205S	GLTSCR2_uc002phk.2_Missense_Mutation_p.P205S|GLTSCR2_uc002phl.2_Missense_Mutation_p.P205S|GLTSCR2_uc010elj.2_Missense_Mutation_p.P205S|GLTSCR2_uc010elk.1_RNA	NM_015710	NP_056525	Q9NZM5	GSCR2_HUMAN	glioma tumor suppressor candidate region gene 2	205				SDNPLDRPLVGQDEFFLE -> LNNPDKPVVWPGCLFPG (in Ref. 3; AAG30413).		nucleolus				central_nervous_system(1)	1		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)		CCTGGACAGGCCGTTGGTTGG	0.582													7	41					0	0	1	0	0		T	48254791	T	T	48254791	3	4	155	1	0	0	0	0	1	0	0	0	6490	739	26	2	631	2	GLTSCR2	19	48254791	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	657454	48254791	10874192	1394	85221											
PLA2G4C	8605	broad.mit.edu	37	chr19	48558274	48558274	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggggaaaggggatcttgtgGcggcggcagtagtcagtggt	7	9	20	5	2	2	0	1	0	1	0	2	2	2	2	0	8	0	2	0	8	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:48558274G>A	uc002phx.2	-	15	1688	c.1290C>T	c.(1288-1290)CGC>CGT	p.R430R	PLA2G4C_uc002phv.2_RNA|PLA2G4C_uc002phw.2_Silent_p.R365R|PLA2G4C_uc010elr.2_Silent_p.R430R|PLA2G4C_uc010xzd.1_Silent_p.R440R	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	430	PLA2c.		R -> C.		arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		GGATCTTGTGGCGGCGGCAGT	0.572													21	106					0	0	1	0	0		A	48558274	A	A	48558274	2	1	155	1	0	0	0	0	0	0	0	1	12022	1190	42	2		2	PLA2G4C	19	48558274	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	303483	48558274	10570709	1395	85222											
LIG1	3978	broad.mit.edu	37	chr19	48654587	48654587	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgaggctttctttcgggGtctcctcttctgacgataga	5	15	11	10	2	4	3	0	2	4	1	6	4	4	3	1	3	0	1	1	3	1	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:48654587G>T	uc002pia.1	-	7	596	c.476C>A	c.(475-477)ACC>AAC	p.T159N	LIG1_uc010xze.1_5'UTR|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Intron|LIG1_uc010xzg.1_Missense_Mutation_p.T128N|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	159					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	TTCTTTCGGGGTCTCCTCTTC	0.537								NER					72	127					2.10938e-32	2.31436e-32	1	1	0		T	48654587	T	T	48654587	3	4	155	1	0	0	0	0	1	0	0	0	8797	1261	44	5	2371	5	LIG1	19	48654587	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	96313	48654587	10474396	1396	85223											
GYS1	2997	broad.mit.edu	37	chr19	49494706	49494706	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattcgtcccctgtcaccttCgccttcgtctgcagcaccgt	4	12	7	18	4	2	0	1	0	1	0	6	0	3	0	5	0	2	2	5	0	0	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:49494706C>T	uc002plp.2	-	2	394	c.153G>A	c.(151-153)GCG>GCA	p.A51A	GYS1_uc010xzy.1_Intron|GYS1_uc010emm.2_Silent_p.A51A|GYS1_uc010xzz.1_Intron|GYS1_uc010yaa.1_Intron|RUVBL2_uc002plq.1_5'Flank|RUVBL2_uc010yab.1_5'Flank|RUVBL2_uc002plr.1_5'Flank|RUVBL2_uc002pls.1_5'Flank|RUVBL2_uc010emn.1_5'Flank	NM_002103	NP_002094	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle) isoform 1	51					glucose metabolic process|glycogen biosynthetic process	cytosol	glycogen (starch) synthase activity|protein binding			ovary(2)	2		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)		CTGTCACCTTCGCCTTCGTCT	0.677													23	145					0	0	1	0	0		T	49494706	T	T	49494706	2	4	155	1	0	0	0	0	0	0	0	1	6928	871	31	1		1	GYS1	19	49494706	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	840119	49494706	9634277	1397	85224											
RUVBL2	10856	broad.mit.edu	37	chr19	49510289	49510289	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggcatggcgcaggccCtgggccctgacacgccattc	6	6	12	17	2	0	1	0	1	0	0	2	1	1	1	4	4	0	2	4	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:49510289C>A	uc002plr.1	+	5	293	c.280C>A	c.(280-282)CTG>ATG	p.L94M	RUVBL2_uc002plq.1_Missense_Mutation_p.L49M|RUVBL2_uc010yab.1_Missense_Mutation_p.L94M|RUVBL2_uc002pls.1_RNA|RUVBL2_uc010emn.1_Missense_Mutation_p.L49M|RUVBL2_uc010yac.1_Missense_Mutation_p.L49M	NM_006666	NP_006657	Q9Y230	RUVB2_HUMAN	RuvB-like 2	94					cellular response to UV|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|protein folding|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|membrane|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|ATP-dependent DNA helicase activity|damaged DNA binding|identical protein binding|unfolded protein binding				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000449)|OV - Ovarian serous cystadenocarcinoma(262;0.000555)|GBM - Glioblastoma multiforme(486;0.00585)|Epithelial(262;0.047)		GGCGCAGGCCCTGGGCCCTGA	0.627													31	30					2.80507e-11	2.95914e-11	1	1	0		A	49510289	A	A	49510289	3	1	155	1	0	0	0	0	1	0	0	0	13778	680	24	5	298	5	RUVBL2	19	49510289	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	15583	49510289	9618694	1398	85225											
DKKL1	27120	broad.mit.edu	37	chr19	49878158	49878158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccgcctgcaggccatccGggatggactccgcaagggga	9	4	14	14	3	0	0	0	0	0	0	2	3	2	3	5	5	1	2	5	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:49878158G>A	uc002pnk.2	+	5	816	c.602G>A	c.(601-603)CGG>CAG	p.R201Q		NM_014419	NP_055234	Q9UK85	DKKL1_HUMAN	dickkopf-like 1 precursor	201					anatomical structure morphogenesis	extracellular space	protein binding|signal transducer activity				0		all_lung(116;1.66e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0456)		CAGGCCATCCGGGATGGACTC	0.647													21	34					0	0	1	0	0		A	49878158	A	A	49878158	3	1	155	1	0	0	0	0	1	0	0	0	4554	1116	39	1	620	1	DKKL1	19	49878158	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	367869	49878158	9250825	1399	85226											
LRRC4B	94030	broad.mit.edu	37	chr19	51021955	51021955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccggcgggcgcatgacagcGggcgcagcacgtcgtgttgc	5	5	18	13	7	0	1	0	1	0	0	1	1	0	1	1	3	3	4	1	3	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:51021955G>A	uc002pss.2	-	3	1152	c.1015C>T	c.(1015-1017)CGC>TGC	p.R339C		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	339	LRRCT.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GCATGACAGCGGGCGCAGCAC	0.657													13	15					0	0	1	0	0		A	51021955	A	A	51021955	3	1	155	1	0	0	0	0	1	0	0	0	9025	1116	39	1	1130	1	LRRC4B	19	51021955	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1143797	51021955	8107028	1400	85227											
SHANK1	50944	broad.mit.edu	37	chr19	51169796	51169796	+	Frame_Shift_Del	DEL	G	-	-																															ccccccgccacgcctgccgtGgggggtcctgaacaagcacg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:51169796delG	uc002psx.1	-	22	5440	c.5421delC	c.(5419-5421)CCCfs	p.P1807fs	SHANK1_uc002psw.1_Frame_Shift_Del_p.P1191fs	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1807					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CGCCTGCCGTGGGGGGTCCTG	0.711													6	6	---	---	---	---						.	-	51169796	-	-	51169796	7	5	155	1	0	1	0	1	0	0	0	0	14289	1335	47	0	1072	0	SHANK1	19	51169796	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	147841	51169796	7959187	1401	85228											
SIGLEC9	27180	broad.mit.edu	37	chr19	51628989	51628989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggatagggacctccgtgtCccccctggacccctccacca	6	7	9	19	1	0	0	0	0	0	0	3	3	3	3	9	3	0	0	9	3	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:51628989C>T	uc002pvu.2	+	2	624	c.557C>T	c.(556-558)TCC>TTC	p.S186F	SIGLEC9_uc010yct.1_Missense_Mutation_p.S186F	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	186	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		ACCTCCGTGTCCCCCCTGGAC	0.667													12	114					0	0	1	0	0		T	51628989	T	T	51628989	3	4	155	1	0	0	0	0	1	0	0	0	14340	855	30	4	563	4	SIGLEC9	19	51628989	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	459193	51628989	7499994	1402	85229											
SIGLEC6	946	broad.mit.edu	37	chr19	52033142	52033142	+	Missense_Mutation	SNP	T	C	C	0	1	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	agccctggaaccagctcaggTgtgcaggggggttgccgtca	7	7	16	11	1	2	0	2	0	0	0	2	1	2	1	3	5	5	3	3	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:52033142T>C	uc002pwy.2	-	5	1010	c.848A>G	c.(847-849)CAC>CGC	p.H283R	SIGLEC6_uc002pwz.2_Missense_Mutation_p.H267R|SIGLEC6_uc002pxa.2_Missense_Mutation_p.H283R|SIGLEC6_uc010ydb.1_Missense_Mutation_p.H220R|SIGLEC6_uc010ydc.1_Missense_Mutation_p.H283R|SIGLEC6_uc010eoz.1_Missense_Mutation_p.H261R|SIGLEC6_uc010epb.1_Missense_Mutation_p.H236R|SIGLEC6_uc010epa.1_Missense_Mutation_p.H272R	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	283	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		CCAGCTCAGGTGTGCAGGGGG	0.617													28	68					0	0	1	0	0		C	52033142	C	C	52033142	3	2	155	1	0	0	0	0	1	0	0	0	14337	1696	59	3	529	3	SIGLEC6	19	52033142	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	404153	52033142	7095841	1403	85230											
ZNF616	90317	broad.mit.edu	37	chr19	52618234	52618234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttgctgagggaaaacaacCgcccaaaggctttgccacat	12	8	10	11	1	0	1	0	1	0	0	0	2	0	2	3	2	4	3	3	2	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:52618234C>T	uc002pym.2	-	4	2466	c.2183G>A	c.(2182-2184)CGG>CAG	p.R728Q	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	728	C2H2-type 20.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		GGAAAACAACCGCCCAAAGGC	0.408													115	136					0	0	1	0	0		T	52618234	T	T	52618234	3	4	155	1	0	0	0	0	1	0	0	0	18066	652	23	1	166	1	ZNF616	19	52618234	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	585092	52618234	6510749	1404	85231											
ZNF28	7576	broad.mit.edu	37	chr19	53304072	53304072	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaattatagtatgttttgcTaggtatgaattacatgtgaa	13	17	9	2	0	0	3	0	3	0	0	0	3	0	3	0	1	2	4	0	1	9	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:53304072T>C	uc002qad.2	-	4	1146	c.1026A>G	c.(1024-1026)CTA>CTG	p.L342L	ZNF28_uc002qac.2_Silent_p.L289L|ZNF28_uc010eqe.2_Silent_p.L288L	NM_006969	NP_008900	P17035	ZNF28_HUMAN	zinc finger protein 28	342	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(134;0.0386)|Lung(386;0.145)		TATGTTTTGCTAGGTATGAAT	0.383													89	154					0	0	1	0	0		C	53304072	C	C	53304072	2	2	155	1	0	0	0	0	0	0	0	1	17838	1509	53	3		3	ZNF28	19	53304072	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	685838	53304072	5824911	1405	85232											
CACNG7	59284	broad.mit.edu	37	chr19	54416192	54416192	+	Missense_Mutation	SNP	T	C	C	0	1	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	cactgactactggctgtacaTggaagaaggcacagtgctac	12	8	11	10	0	0	2	0	1	0	1	0	3	0	3	0	3	4	4	0	3	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:54416192T>C	uc002qcr.1	+	1	122	c.107T>C	c.(106-108)ATG>ACG	p.M36T	CACNG7_uc010era.1_Missense_Mutation_p.M36T	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	36					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		TGGCTGTACATGGAAGAAGGC	0.627													16	34					0	0	1	0	0		C	54416192	C	C	54416192	3	2	155	1	0	0	0	0	1	0	0	0	2565	1464	51	3	109	3	CACNG7	19	54416192	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1112120	54416192	4712791	1406	85233											
CACNG7	59284	broad.mit.edu	37	chr19	54445306	54445306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcagggggccggcgtgatgtCcgtgtacctgttcaccaagc	6	8	15	12	3	1	1	1	1	0	0	2	1	2	1	4	3	2	3	4	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:54445306C>T	uc002qcr.1	+	5	602	c.587C>T	c.(586-588)TCC>TTC	p.S196F		NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	196	Helical; (Potential).			GAGVMSVYLFTKRYAEEEMYRPHPAFYRPRLSDCSDYSGQF LQPEAWRRGRSPSDISSDVSIQMTQNYPPAIKYPDHLHIST SPC -> VTSVGPRL (in Ref. 1; AAK20030).	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		GGCGTGATGTCCGTGTACCTG	0.677													3	9					0	0	1	0	0		T	54445306	T	T	54445306	3	4	155	1	0	0	0	0	1	0	0	0	2565	855	30	4	605	4	CACNG7	19	54445306	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	29114	54445306	4683677	1407	85234											
CACNG8	59283	broad.mit.edu	37	chr19	54466537	54466537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgactactggctctacacGcgcgccctcatctgcaacac	9	8	7	17	3	3	1	1	1	2	0	3	1	3	1	1	1	4	2	1	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:54466537G>A	uc002qcs.1	+	1	244	c.138G>A	c.(136-138)ACG>ACA	p.T46T		NM_031895	NP_114101	Q8WXS5	CCG8_HUMAN	voltage-dependent calcium channel gamma-8	47					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic density|postsynaptic membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(19;0.0385)|all_epithelial(19;0.0207)|all_lung(19;0.145)|Lung NSC(19;0.168)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.162)		GGCTCTACACGCGCGCCCTCA	0.711													12	2					0	0	1	0	0		A	54466537	A	A	54466537	2	1	155	1	0	0	0	0	0	0	0	1	2566	1074	38	1		1	CACNG8	19	54466537	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	21231	54466537	4662446	1408	85235											
LENG8	114823	broad.mit.edu	37	chr19	54967827	54967827	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctaggcacgatctggcGcccaccaagcgcagtcgaaa	10	6	10	15	4	1	0	0	0	1	0	3	2	2	0	3	2	1	2	3	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:54967827G>A	uc002qfv.1	+	10	1491	c.1347G>A	c.(1345-1347)GCG>GCA	p.A449A	LENG8_uc002qfw.2_Silent_p.A486A			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	449							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		ACGATCTGGCGCCCACCAAGC	0.662													3	10					0	0	1	0	0		A	54967827	A	A	54967827	2	1	155	1	0	0	0	0	0	0	0	1	8740	1074	38	1		1	LENG8	19	54967827	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	501290	54967827	4161156	1409	85236											
KIR2DS4	3809	broad.mit.edu	37	chr19	55354348	55354348	+	Silent	SNP	A	G	G	1	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	ccttcaaatagttggccttcAcccactgaaccaagctccaa	12	9	5	15	0	2	1	2	1	0	0	3	1	3	1	5	1	2	2	5	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:55354348A>G	uc002qhm.1	+	6	736	c.690A>G	c.(688-690)TCA>TCG	p.S230S	KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Intron|KIR2DS4_uc002qhn.1_Intron	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	230	Extracellular (Potential).					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		GTTGGCCTTCACCCACTGAAC	0.493													120	243					0	0	1	0	0		G	55354348	G	G	55354348	2	3	155	1	0	0	0	0	0	0	0	1	8335	146	6	3		3	KIR2DS4	19	55354348	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	386521	55354348	3774635	1410	85237											
EPS8L1	54869	broad.mit.edu	37	chr19	55597494	55597494	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcaggagggatatgtgccCtacaacatcctgacacccta	11	7	11	12	0	0	1	0	1	0	0	1	3	1	3	3	3	3	1	3	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:55597494C>A	uc002qis.3	+	16	1688	c.1584C>A	c.(1582-1584)CCC>CCA	p.P528P	EPS8L1_uc010ess.1_Silent_p.P542P|EPS8L1_uc010yfr.1_Silent_p.P464P|EPS8L1_uc002qiu.2_Silent_p.P401P|EPS8L1_uc002qiv.2_Silent_p.P206P|EPS8L1_uc002qiw.2_Silent_p.P307P	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	528	SH3.					cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GATATGTGCCCTACAACATCC	0.627													12	100					2.27111e-07	2.36009e-07	1	1	0		A	55597494	A	A	55597494	2	1	155	1	0	0	0	0	0	0	0	1	5203	668	24	5		5	EPS8L1	19	55597494	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	243146	55597494	3531489	1411	85238											
SAPS1	22870	broad.mit.edu	37	chr19	55752707	55752707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgaccacgtgcagccgcGtgttgcccagaggcggagcc	6	6	15	14	4	0	2	0	1	0	1	0	3	0	3	4	2	4	3	4	2	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:55752707G>A	uc002qjw.3	-	9	1303	c.1061C>T	c.(1060-1062)ACG>ATG	p.T354M	SAPS1_uc002qjv.2_Missense_Mutation_p.T416M	NM_014931	NP_055746	Q9UPN7	PP6R1_HUMAN	SAPS domain family, member 1	354	Interaction with PPP6C.				regulation of phosphoprotein phosphatase activity	cytoplasm	protein phosphatase binding				0		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		GTGCAGCCGCGTGTTGCCCAG	0.632													4	45					0	0	1	0	0		A	55752707	A	A	55752707	3	1	155	1	0	0	0	0	1	0	0	0	13861	1145	40	1	1648	1	SAPS1	19	55752707	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	155213	55752707	3376276	1412	85239											
ZNF580	51157	broad.mit.edu	37	chr19	56153895	56153895	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgctgctgctgccgccgcgGccaccccaccctcggtcctc	3	7	10	21	4	0	0	0	0	0	0	3	0	1	0	7	2	4	3	7	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:56153895G>A	uc002qlo.2	+	2	191	c.21G>A	c.(19-21)CGG>CGA	p.R7R	ZNF580_uc002qlm.2_Silent_p.R20R|ZNF581_uc002qln.2_Intron|ZNF580_uc002qlp.2_Silent_p.R7R|ZNF580_uc010ygd.1_Silent_p.R7R|ZNF581_uc002qlq.2_5'Flank	NM_207115	NP_996998	Q9UK33	ZN580_HUMAN	zinc finger protein 580	7	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TGCCGCCGCGGCCACCCCACC	0.627													4	4					0	0	1	0	0		A	56153895	A	A	56153895	2	1	155	1	0	0	0	0	0	0	0	1	18037	1190	42	2		2	ZNF580	19	56153895	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	401188	56153895	2975088	1413	85240											
NLRP13	126204	broad.mit.edu	37	chr19	56423928	56423929	+	Frame_Shift_Del	DEL	AG	-	-																															gggggcactgcaggaatgaaAgagagtttcgttttttctta																								rs61742912		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:56423928_56423929delAG	uc010ygg.1	-	5	1279_1280	c.1254_1255delCT	c.(1252-1257)CTCTTTfs	p.L418fs		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	418_419	NACHT.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		CAGGAATGAAAGAGAGTTTCGT	0.47													68	118	---	---	---	---						.	-	56423929	-	-	56423928	7	5	155	1	0	1	0	1	0	0	0	0	10494	72	3	0	1902	0	NLRP13	19	56423928	Frame_Shift_Del	DEL	AG	TCGA-CG-5726-01A-11D-1600-08	270033	56423928	2705055	1414	85241											
NLRP8	126205	broad.mit.edu	37	chr19	56459621	56459621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaatgtgtgttgtagtccGcagagagataaatggtgagt	13	12	13	3	1	0	3	0	1	0	2	1	4	1	3	1	1	0	3	1	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:56459621G>A	uc002qmh.2	+	1	424	c.353G>A	c.(352-354)CGC>CAC	p.R118H	NLRP8_uc010etg.2_Missense_Mutation_p.R118H	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	118	DAPIN.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		GTTGTAGTCCGCAGAGAGATA	0.473													22	52					0	0	1	0	0		A	56459621	A	A	56459621	3	1	155	1	0	0	0	0	1	0	0	0	10502	1087	38	1	355	1	NLRP8	19	56459621	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	35693	56459621	2669362	1415	85242											
ZNF71	58491	broad.mit.edu	37	chr19	57133281	57133281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtgcaccagcgcacgcacaCgggcgagaagccgtatgtgt	9	6	14	12	5	0	1	0	0	0	1	0	2	0	1	2	1	3	4	2	1	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:57133281C>T	uc002qnm.3	+	3	864	c.626C>T	c.(625-627)ACG>ATG	p.T209M		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	209						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CGCACGCACACGGGCGAGAAG	0.652													10	22					0	0	1	0	0		T	57133281	T	T	57133281	3	4	155	1	0	0	0	0	1	0	0	0	18139	536	19	1	628	1	ZNF71	19	57133281	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	673660	57133281	1995702	1416	85243											
ZNF749	388567	broad.mit.edu	37	chr19	57955692	57955692	+	Silent	SNP	T	C	C	0	1	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	atatgtggaaaattctttagTcaccgctccacactcaatat	13	13	5	10	1	3	0	2	0	1	0	4	1	4	1	2	1	0	1	2	1	6	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:57955692T>C	uc002qoq.2	+	3	1430	c.1176T>C	c.(1174-1176)AGT>AGC	p.S392S	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	392	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		AATTCTTTAGTCACCGCTCCA	0.428													20	134					0	0	1	0	0		C	57955692	C	C	57955692	2	2	155	1	0	0	0	0	0	0	0	1	18156	1664	58	3		3	ZNF749	19	57955692	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	822411	57955692	1173291	1417	85244											
ZNF551	90233	broad.mit.edu	37	chr19	58199066	58199066	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacactggtgataggcctTatgagtgcagtgaatgtgag	10	12	13	6	0	1	4	1	4	0	0	1	4	1	4	1	2	1	1	1	2	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:58199066T>C	uc002qpw.3	+	3	1598	c.1375T>C	c.(1375-1377)TAT>CAT	p.Y459H	ZNF551_uc002qpv.3_Missense_Mutation_p.Y402H|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	475	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		TGATAGGCCTTATGAGTGCAG	0.423													67	103					0	0	1	0	0		C	58199066	C	C	58199066	3	2	155	1	0	0	0	0	1	0	0	0	18008	1754	61	3	1385	3	ZNF551	19	58199066	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	243374	58199066	929917	1418	85245											
ZNF154	7710	broad.mit.edu	37	chr19	58213902	58213902	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttaccgctgaatgcttttgTgtgttctccacagttgtaat	7	18	8	8	1	1	1	0	1	1	0	2	1	1	1	2	0	2	5	2	0	3	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:58213902T>C	uc010euf.2	-	3	655	c.415A>G	c.(415-417)ACA>GCA	p.T139A	ZNF776_uc002qpx.2_Intron|ZNF154_uc002qpy.2_RNA	NM_001085384	NP_001078853	Q13106	ZN154_HUMAN	zinc finger protein 154	139	C2H2-type 2; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		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)		AATGCTTTTGTGTGTTCTCCA	0.458													10	573					0	0	1	0	0		C	58213902	C	C	58213902	3	2	155	1	0	0	0	0	1	0	0	0	17760	1696	59	3	902	3	ZNF154	19	58213902	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	14836	58213902	915081	1419	85246											
ZNF552	79818	broad.mit.edu	37	chr19	58320135	58320135	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactgaagacagatgactccCctgacacatgcaacttacac	14	7	6	14	0	0	5	0	3	0	2	1	5	1	5	2	0	3	1	2	0	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:58320135C>A	uc002qqg.2	-	3	667	c.497G>T	c.(496-498)GGG>GTG	p.G166V	ZNF587_uc002qqb.2_Intron|ZNF552_uc010yhg.1_Missense_Mutation_p.G162V	NM_024762	NP_079038	Q9H707	ZN552_HUMAN	zinc finger protein 552	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		AGATGACTCCCCTGACACATG	0.483													77	123					2.01788e-20	2.1726e-20	1	1	0		A	58320135	A	A	58320135	3	1	155	1	0	0	0	0	1	0	0	0	18009	623	22	5	730	5	ZNF552	19	58320135	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	106233	58320135	808848	1420	85247											
ZNF418	147686	broad.mit.edu	37	chr19	58439171	58439171	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaggtactgattctggtgCggacggtttgaactatcata	10	12	11	8	2	2	2	1	2	1	0	2	3	2	3	1	4	3	2	1	4	5	5	rs141826842	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:58439171C>T	uc002qqs.1	-	4	670	c.378G>A	c.(376-378)CCG>CCA	p.P126P	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Silent_p.P41P	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		GATTCTGGTGCGGACGGTTTG	0.453													19	292					0	0	1	0	0		T	58439171	T	T	58439171	2	4	155	1	0	0	0	0	0	0	0	1	17920	755	27	1		1	ZNF418	19	58439171	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	119036	58439171	689812	1421	85248											
ZSCAN1	284312	broad.mit.edu	37	chr19	58565294	58565294	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccacccagggatggagccCagggcccagtggcccctcgc	6	4	13	18	1	0	0	0	0	0	0	2	2	1	2	6	4	1	0	6	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:58565294C>A	uc002qrc.1	+	6	1349	c.1102C>A	c.(1102-1104)CAG>AAG	p.Q368K		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	368					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		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;0.0152)		GGATGGAGCCCAGGGCCCAGT	0.657													10	14					1.61879e-10	1.70126e-10	1	1	0		A	58565294	A	A	58565294	3	1	155	1	0	0	0	0	1	0	0	0	18251	595	21	5	1116	5	ZSCAN1	19	58565294	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	126123	58565294	563689	1422	85249											
ZNF8	7554	broad.mit.edu	37	chr19	58797158	58797158	+	Missense_Mutation	SNP	A	G	G	1	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	agctggaccctacccagaggAtcctctaccgtgacgtgatg	9	8	11	13	2	1	3	0	2	1	1	2	5	2	5	4	2	3	1	4	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:58797158A>G	uc002qry.1	+	2	272	c.142A>G	c.(142-144)ATC>GTC	p.I48V	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	48	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		TACCCAGAGGATCCTCTACCG	0.527													68	104					0	0	1	0	0		G	58797158	G	G	58797158	3	3	155	1	0	0	0	0	1	0	0	0	18192	333	12	3	148	3	ZNF8	19	58797158	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	231864	58797158	331825	1423	85250											
MZF1	7593	broad.mit.edu	37	chr19	59073814	59073816	+	In_Frame_Del	DEL	GAG	-	-																															ctctgatgacgcgtgagcttGaggcgctggctgaagcgctg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr19:59073814_59073816delGAG	uc002qto.2	-	6	2389_2391	c.1828_1830delCTC	c.(1828-1830)CTCdel	p.L610del	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_In_Frame_Del_p.L610del	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	610	C2H2-type 9.				viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		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)		GCGTGAGCTTGAGGCGCTGGCTG	0.67													6	7	---	---	---	---						.	-	59073816	-	-	59073814	7	5	155	1	0	1	0	1	0	0	0	0	10126	1277	45	0	378	0	MZF1	19	59073814	In_Frame_Del	DEL	GAG	TCGA-CG-5726-01A-11D-1600-08	276656	59073814	55169	1424	85251											
SIRPB1	10326	broad.mit.edu	37	chr20	1559137	1559137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgtttctctttgtgagttCtgaaacagttgttacccgtg	6	18	10	7	1	2	2	0	2	2	0	3	2	2	2	1	0	2	5	1	0	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:1559137C>T	uc010gai.2	-	2	379	c.280G>A	c.(280-282)GAA>AAA	p.E94K	SIRPB1_uc002wfk.3_Missense_Mutation_p.E94K	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	94	Extracellular (Potential).|Ig-like V-type.				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						TTTGTGAGTTCTGAAACAGTT	0.512													13	366					0	0	1	0	0		T	1559137	T	T	1559137	3	4	155	1	0	0	0	0	1	0	0	0	14358	922	32	4	932	4	SIRPB1	20	1559137	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08		1559137	61466383	1425	85252											
TGM3	7053	broad.mit.edu	37	chr20	2308960	2308960	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtacatcagcaccaaggcgGtgggcagcaatgctcgcatg	10	6	14	11	2	1	0	1	0	0	0	2	0	1	0	1	4	4	6	1	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:2308960G>C	uc002wfx.3	+	9	1379	c.1282G>C	c.(1282-1284)GTG>CTG	p.V428L		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	428					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	CACCAAGGCGGTGGGCAGCAA	0.577													23	71					0	0	1	0	0		C	2308960	C	C	2308960	3	2	155	1	0	0	0	0	1	0	0	0	15856	1261	44	5	1316	5	TGM3	20	2308960	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	749823	2308960	60716560	1426	85253											
CPXM1	56265	broad.mit.edu	37	chr20	2777036	2777036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagcagaagcaactcccGccccagggcctcgttcccat	9	5	10	17	2	0	1	0	0	0	1	3	2	2	2	5	2	3	3	5	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:2777036G>A	uc002wgu.2	-	9	1163	c.1099C>T	c.(1099-1101)CGG>TGG	p.R367W	CPXM1_uc010gas.2_Missense_Mutation_p.R367W	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	367					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						AGCAACTCCCGCCCCAGGGCC	0.652													50	121					0	0	1	0	0		A	2777036	A	A	2777036	3	1	155	1	0	0	0	0	1	0	0	0	3840	1086	38	1	1129	1	CPXM1	20	2777036	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	468076	2777036	60248484	1427	85254											
SLC4A11	83959	broad.mit.edu	37	chr20	3212106	3212106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgaattcctcctctgtgCgggtctccaggagcttctgg	4	13	11	13	1	3	1	0	1	3	0	6	2	5	2	4	3	2	1	4	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:3212106C>T	uc002wig.2	-	7	914	c.866G>A	c.(865-867)CGC>CAC	p.R289H	SLC4A11_uc010zqe.1_Missense_Mutation_p.R316H|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.R273H	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	289	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						CTCCTCTGTGCGGGTCTCCAG	0.592													19	146					0	0	1	0	0		T	3212106	T	T	3212106	3	4	155	1	0	0	0	0	1	0	0	0	14677	768	27	1	1861	1	SLC4A11	20	3212106	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	435070	3212106	59813414	1428	85255											
SLC4A11	83959	broad.mit.edu	37	chr20	3215425	3215425	+	Frame_Shift_Del	DEL	A	-	-																															atctcaaggttgacattgacAaaaaaacggatactctcgcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:3215425delA	uc002wig.2	-	2	300	c.252delT	c.(250-252)TTTfs	p.F84fs	SLC4A11_uc010zqe.1_Frame_Shift_Del_p.F111fs|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Frame_Shift_Del_p.F68fs	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	84	Cytoplasmic (Potential).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						TGACATTGACAAAAAAACGGA	0.587													39	88	---	---	---	---						.	-	3215425	-	-	3215425	7	5	155	1	0	1	0	1	0	0	0	0	14677	127	5	0	2495	0	SLC4A11	20	3215425	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	3319	3215425	59810095	1429	85256											
C20orf194	25943	broad.mit.edu	37	chr20	3329232	3329232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttctgtgtcaaaattagcGaagaagctagtccactgatg	13	12	9	7	1	2	2	1	1	1	1	3	3	3	2	1	0	2	1	1	0	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:3329232G>A	uc002wii.2	-	8	780	c.729C>T	c.(727-729)TTC>TTT	p.F243F	C20orf194_uc002wik.2_5'UTR|C20orf194_uc010gay.1_RNA	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	243											0						CAAAATTAGCGAAGAAGCTAG	0.388													42	117					0	0	1	0	0		A	3329232	A	A	3329232	2	1	155	1	0	0	0	0	0	0	0	1	2102	1049	37	1		1	C20orf194	20	3329232	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	113807	3329232	59696288	1430	85257											
CDC25B	994	broad.mit.edu	37	chr20	3782594	3782594	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcgtcatgtacagcaagtgCcagcggctcttccgctctcc	6	10	9	16	3	3	0	1	0	2	0	6	0	4	0	3	1	4	4	3	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:3782594C>A	uc002wjn.2	+	10	1723	c.945C>A	c.(943-945)TGC>TGA	p.C315*	CDC25B_uc010zqk.1_Nonsense_Mutation_p.C251*|CDC25B_uc010zql.1_Nonsense_Mutation_p.C237*|CDC25B_uc010zqm.1_Nonsense_Mutation_p.C224*|CDC25B_uc002wjl.2_Nonsense_Mutation_p.C203*|CDC25B_uc002wjm.2_Nonsense_Mutation_p.C203*|CDC25B_uc002wjo.2_Nonsense_Mutation_p.C301*|CDC25B_uc002wjp.2_Nonsense_Mutation_p.C274*|CDC25B_uc002wjq.2_Nonsense_Mutation_p.C115*|CDC25B_uc010gbc.2_5'Flank	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	315					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						ACAGCAAGTGCCAGCGGCTCT	0.637													4	25					1.06961e-07	1.1136e-07	1	1	0		A	3782594	A	A	3782594	4	1	155	1	0	0	0	0	0	1	0	0	3066	747	26	5	983	5	CDC25B	20	3782594	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	453362	3782594	59242926	1431	85258											
CHGB	1114	broad.mit.edu	37	chr20	5903916	5903916	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatacagggctccaagacctCagagtgaggagagttgggat	13	7	14	7	0	1	4	1	1	0	3	2	6	2	5	2	3	1	2	2	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:5903916C>T	uc002wmg.2	+	4	1432	c.1126C>T	c.(1126-1128)CAG>TAG	p.Q376*	CHGB_uc010zqz.1_Nonsense_Mutation_p.Q59*	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	376						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						TCCAAGACCTCAGAGTGAGGA	0.512													52	159					0	0	1	0	0		T	5903916	T	T	5903916	4	4	155	1	0	0	0	0	0	1	0	0	3342	827	29	4	1140	4	CHGB	20	5903916	Nonsense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2121322	5903916	57121604	1432	85259											
PLCB1	23236	broad.mit.edu	37	chr20	8755367	8755367	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcgagaacatattaaactgGtgagcctgagaaacatgatt	16	9	10	6	1	0	4	0	3	0	2	0	6	0	4	1	1	5	0	1	1	5	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:8755367G>A	uc002wnb.2	+	27	3114	c.3111_splice	c.e27+1	p.L1037_splice	PLCB1_uc010zrb.1_Splice_Site_p.L936_splice|PLCB1_uc002wna.2_Splice_Site_p.L1037_splice|PLCB1_uc002wnc.1_Splice_Site_p.L936_splice|PLCB1_uc002wnd.1_Splice_Site_p.L614_splice	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1						activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TATTAAACTGGTGAGCCTGAG	0.388													10	117					0	0	1	0	0		A	8755367	A	A	8755367	5	1	155	1	0	0	0	0	0	0	1	0	12046	1275	44	4	3218	4	PLCB1	20	8755367	Splice_Site	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2851451	8755367	54270153	1433	85260											
ISM1	140862	broad.mit.edu	37	chr20	13279916	13279916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggggcaagggggcgggcaCgcccaacctcatcagcaccg	9	2	15	15	3	2	0	2	0	0	0	2	0	2	0	3	5	2	3	3	5	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:13279916C>T	uc010gce.1	+	6	1211	c.1205C>T	c.(1204-1206)ACG>ATG	p.T402M	TASP1_uc010zri.1_Intron	NM_080826	NP_543016	B1AKI9	ISM1_HUMAN	isthmin 1 homolog precursor	402	AMOP.					extracellular region					0						GGGGCGGGCACGCCCAACCTC	0.622													15	13					0	0	1	0	0		T	13279916	T	T	13279916	3	4	155	1	0	0	0	0	1	0	0	0	7876	536	19	1	1227	1	ISM1	20	13279916	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4524549	13279916	49745604	1434	85261											
MACROD2	140733	broad.mit.edu	37	chr20	15948247	15948247	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcggtgaagtgacagatcaTtctgtgcgtgaccaagatca	11	9	13	8	2	3	5	2	3	1	2	3	5	3	5	1	2	1	0	1	2	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:15948247T>C	uc002wou.2	+	13	1221	c.957T>C	c.(955-957)CAT>CAC	p.H319H	MACROD2_uc002wot.2_Silent_p.H319H|MACROD2_uc002woz.2_Silent_p.H84H|MACROD2_uc002wpb.2_Silent_p.H84H	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	319	Glu-rich.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				TGACAGATCATTCTGTGCGTG	0.343													9	223					0	0	1	0	0		C	15948247	C	C	15948247	2	2	155	1	0	0	0	0	0	0	0	1	9164	1490	52	3		3	MACROD2	20	15948247	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2668331	15948247	47077273	1435	85262											
CSRP2BP	57325	broad.mit.edu	37	chr20	18143418	18143418	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactgattgtcagacaagcGaaaagggataggggattacc	16	7	12	6	1	1	2	1	1	0	1	1	5	1	4	1	3	3	0	1	3	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:18143418G>A	uc002wqj.2	+	7	2122	c.1500G>A	c.(1498-1500)GCG>GCA	p.A500A	CSRP2BP_uc002wqk.2_Silent_p.A372A|CSRP2BP_uc010zru.1_Silent_p.A371A	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	500					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						TCAGACAAGCGAAAAGGGATA	0.468													80	234					0	0	1	0	0		A	18143418	A	A	18143418	2	1	155	1	0	0	0	0	0	0	0	1	3971	1045	37	1		1	CSRP2BP	20	18143418	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2195171	18143418	44882102	1436	85263											
SLC24A3	57419	broad.mit.edu	37	chr20	19646521	19646521	+	Frame_Shift_Del	DEL	A	-	-																															ttcacagtttatttatgatgAaaaagtttcctggtaagtac																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:19646521delA	uc002wrl.2	+	8	898	c.701delA	c.(700-702)GAAfs	p.E234fs		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	234	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						ATTTATGATGAAAAAGTTTCC	0.279													37	83	---	---	---	---						.	-	19646521	-	-	19646521	7	5	155	1	0	1	0	1	0	0	0	0	14492	246	9	0	731	0	SLC24A3	20	19646521	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	1503103	19646521	43378999	1437	85264											
GZF1	64412	broad.mit.edu	37	chr20	23346237	23346237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatgagggcggcggcgagcGgcaccgctgcggccagtgcg	5	3	20	13	7	0	1	0	1	0	0	0	2	0	1	2	5	3	3	2	5	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:23346237G>A	uc010gdb.2	+	3	1391	c.1217G>A	c.(1216-1218)CGG>CAG	p.R406Q	GZF1_uc002wsy.2_Missense_Mutation_p.R406Q|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.R406Q	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	406					transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GGCGGCGAGCGGCACCGCTGC	0.677													27	47					0	0	1	0	0		A	23346237	A	A	23346237	3	1	155	1	0	0	0	0	1	0	0	0	6930	1116	39	1	1219	1	GZF1	20	23346237	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3699716	23346237	39679283	1438	85265											
ABHD12	26090	broad.mit.edu	37	chr20	25300924	25300924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctggtctttgccttgggcGttcttccaccagactgcagg	5	13	11	12	1	3	1	0	0	3	1	4	1	4	1	3	3	2	2	3	3	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:25300924G>A	uc002wus.1	-	4	591	c.453C>T	c.(451-453)AAC>AAT	p.N151N	ABHD12_uc002wuq.2_Silent_p.N151N|ABHD12_uc002wur.2_Silent_p.N151N|ABHD12_uc002wut.1_Silent_p.N151N|ABHD12_uc002wuu.1_Intron	NM_001042472	NP_001035937	Q8N2K0	ABD12_HUMAN	abhydrolase domain containing 12 isoform a	151	Extracellular (Potential).					integral to membrane	acylglycerol lipase activity			skin(1)	1						TGCCTTGGGCGTTCTTCCACC	0.582													47	106					0	0	1	0	0		A	25300924	A	A	25300924	2	1	155	1	0	0	0	0	0	0	0	1	76	1136	40	1		1	ABHD12	20	25300924	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1954687	25300924	37724596	1439	85266											
NINL	22981	broad.mit.edu	37	chr20	25456719	25456719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatgtttctccagagcccGgacgacgtcttccagatgta	9	11	9	12	3	2	2	0	0	2	2	4	4	3	3	3	1	2	2	3	1	2	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:25456719G>A	uc002wux.1	-	17	3282	c.3208C>T	c.(3208-3210)CGG>TGG	p.R1070W	NINL_uc010gdn.1_Intron	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1070	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TCCAGAGCCCGGACGACGTCT	0.463													66	233					0	0	1	0	0		A	25456719	A	A	25456719	3	1	155	1	0	0	0	0	1	0	0	0	10439	1115	39	1	972	1	NINL	20	25456719	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	155795	25456719	37568801	1440	85267											
FOXS1	2307	broad.mit.edu	37	chr20	30432967	30432967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggtccacggcgtgccttggCggggccccgggtgccctcag	2	6	18	15	4	1	0	1	0	0	0	2	0	2	0	5	6	2	0	5	6	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:30432967C>T	uc002wwt.1	-	1	454	c.379G>A	c.(379-381)GCC>ACC	p.A127T		NM_004118	NP_004109	O43638	FOXS1_HUMAN	forkhead box S1	127					anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|insulin receptor signaling pathway|lymphangiogenesis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|neural crest cell fate commitment|neuromuscular process controlling balance|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of multicellular organism growth|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|somitogenesis|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)	1						CGTGCCTTGGCGGGGCCCCGG	0.701													7	13					0	0	1	0	0		T	30432967	T	T	30432967	3	4	155	1	0	0	0	0	1	0	0	0	6049	768	27	1	617	1	FOXS1	20	30432967	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4976248	30432967	32592553	1441	85268											
C20orf186	149954	broad.mit.edu	37	chr20	31671314	31671314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagctggggggcaaataccGatatggtgagatccttgagt	10	10	14	7	1	1	2	1	2	0	1	2	4	2	2	2	4	2	2	2	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:31671314G>A	uc010zue.1	+	3	326	c.311G>A	c.(310-312)CGA>CAA	p.R104Q		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	104						cytoplasm|extracellular region	lipid binding				0						GGCAAATACCGATATGGTGAG	0.537													62	120					0	0	1	0	0		A	31671314	A	A	31671314	3	1	155	1	0	0	0	0	1	0	0	0	2101	1058	37	1	321	1	C20orf186	20	31671314	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1238347	31671314	31354206	1442	85269											
ITCH	83737	broad.mit.edu	37	chr20	33068914	33068914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttggaaatgtacttctccGttgacaaagaaattctaggt	13	14	8	6	1	2	2	0	1	2	1	3	3	2	3	1	2	1	2	1	2	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:33068914G>A	uc010geu.1	+	21	2311	c.2119G>A	c.(2119-2121)GTT>ATT	p.V707I	ITCH_uc002xak.2_Missense_Mutation_p.V666I|ITCH_uc010zuj.1_Missense_Mutation_p.V556I	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	707	HECT.				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6						GTACTTCTCCGTTGACAAAGA	0.318													7	276					0	0	1	0	0		A	33068914	A	A	33068914	3	1	155	1	0	0	0	0	1	0	0	0	7884	1145	40	1	2066	1	ITCH	20	33068914	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1397600	33068914	29956606	1443	85270											
NCOA6	23054	broad.mit.edu	37	chr20	33330511	33330511	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagggaatttacagggggTtgctggggagttgcaccttg	7	10	18	6	0	0	0	0	0	0	0	0	2	0	2	1	6	3	5	1	6	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:33330511T>C	uc002xav.2	-	12	6120	c.3549A>G	c.(3547-3549)CAA>CAG	p.Q1183Q	NCOA6_uc002xaw.2_Silent_p.Q1183Q	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1183	NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TTACAGGGGGTTGCTGGGGAG	0.547													61	139					0	0	1	0	0		C	33330511	C	C	33330511	2	2	155	1	0	0	0	0	0	0	0	1	10252	1722	60	3		3	NCOA6	20	33330511	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	261597	33330511	29695009	1444	85271											
CEP250	11190	broad.mit.edu	37	chr20	34059927	34059927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatctcttagtaggaatgCgcaagaggagaagttgtctt	12	11	12	6	1	2	2	0	0	2	2	3	4	2	3	0	2	2	4	0	2	5	4	rs116166982	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:34059927C>T	uc002xcm.2	+	12	1672	c.1001C>T	c.(1000-1002)GCG>GTG	p.A334V	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_RNA	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	334	Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			AGTAGGAATGCGCAAGAGGAG	0.458													9	420					0	0	1	0	0		T	34059927	T	T	34059927	3	4	155	1	0	0	0	0	1	0	0	0	3255	768	27	1	1031	1	CEP250	20	34059927	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	729416	34059927	28965593	1445	85272											
C20orf132	140699	broad.mit.edu	37	chr20	35783525	35783525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccatgctggccgtggcccGttcccgctcatggtctttga	4	11	12	14	3	2	1	1	1	1	0	3	1	3	1	4	3	2	3	4	3	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:35783525G>A	uc010zvu.1	-	11	1136	c.1045C>T	c.(1045-1047)CGG>TGG	p.R349W	C20orf132_uc002xgk.2_Intron|C20orf132_uc002xgm.2_Missense_Mutation_p.R349W|C20orf132_uc002xgn.2_Intron	NM_152503	NP_689716	Q9H579	CT132_HUMAN	hypothetical protein LOC140699 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment											0		Myeloproliferative disorder(115;0.00878)				GCCGTGGCCCGTTCCCGCTCA	0.502													65	170					0	0	1	0	0		A	35783525	A	A	35783525	3	1	155	1	0	0	0	0	1	0	0	0	2089	1144	40	1	2189	1	C20orf132	20	35783525	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1723598	35783525	27241995	1446	85273											
CHD6	84181	broad.mit.edu	37	chr20	40122502	40122502	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaggcaaatacccacctccCctgtttctgcatccttggtg	8	11	8	14	0	1	1	0	0	1	1	3	1	3	1	5	2	2	3	5	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:40122502C>A	uc002xka.1	-	9	1353	c.1175G>T	c.(1174-1176)GGG>GTG	p.G392V	CHD6_uc002xkd.2_Missense_Mutation_p.G370V	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	392	Chromo 2.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				ACCCACCTCCCCTGTTTCTGC	0.458													28	115					2.61193e-14	2.77466e-14	1	1	0		A	40122502	A	A	40122502	3	1	155	1	0	0	0	0	1	0	0	0	3332	623	22	5	7088	5	CHD6	20	40122502	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4338977	40122502	22903018	1447	85274											
CHD6	84181	broad.mit.edu	37	chr20	40143482	40143482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggactcctcaggactccGcagagatgggttcgtcaggc	8	8	14	11	2	2	1	2	0	0	1	5	4	4	3	2	4	0	2	2	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:40143482G>A	uc002xka.1	-	4	842	c.664C>T	c.(664-666)CGG>TGG	p.R222W	CHD6_uc002xkd.2_Missense_Mutation_p.R200W|CHD6_uc002xkc.2_Missense_Mutation_p.R257W	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	222					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCAGGACTCCGCAGAGATGGG	0.537													52	145					0	0	1	0	0		A	40143482	A	A	40143482	3	1	155	1	0	0	0	0	1	0	0	0	3332	1086	38	1	7619	1	CHD6	20	40143482	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	20980	40143482	22882038	1448	85275											
PTPRT	11122	broad.mit.edu	37	chr20	41408874	41408874	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttactgcatggatgagcaagGacccggacctcgtccacggc	9	7	12	13	3	0	1	0	1	0	0	2	4	1	4	3	4	3	2	3	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:41408874G>A	uc002xkg.2	-	4	736	c.552C>T	c.(550-552)GTC>GTT	p.V184V	PTPRT_uc010ggj.2_Silent_p.V184V	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	184	Extracellular (Potential).|MAM.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GATGAGCAAGGACCCGGACCT	0.517													37	131					0	0	1	0	0		A	41408874	A	A	41408874	2	1	155	1	0	0	0	0	0	0	0	1	12837	1161	41	4		4	PTPRT	20	41408874	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1265392	41408874	21616646	1449	85276											
STK4	6789	broad.mit.edu	37	chr20	43703810	43703810	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taagaagagacggcaacaaaActtctgagcaaggccaggct	16	5	11	9	1	1	3	0	1	1	2	1	4	1	3	1	3	3	3	1	3	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:43703810A>C	uc002xnb.2	+	11	1547	c.1457A>C	c.(1456-1458)AAC>ACC	p.N486T	STK4_uc010ggx.2_3'UTR|STK4_uc010ggy.2_Missense_Mutation_p.N431T	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4	486					apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				CGGCAACAAAACTTCTGAGCA	0.552													6	36					0	0	1	0	0		C	43703810	C	C	43703810	3	2	155	1	0	0	0	0	1	0	0	0	15331	43	2	5	1499	5	STK4	20	43703810	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	2294936	43703810	19321710	1450	85277											
ZNFX1	57169	broad.mit.edu	37	chr20	47865238	47865238	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcctgggcaaggatgcccGcagtccaagatagtgccaca	11	5	13	12	1	0	1	0	0	0	1	1	3	1	2	4	2	3	2	4	2	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:47865238G>A	uc002xui.2	-	14	4570	c.4323C>T	c.(4321-4323)TGC>TGT	p.C1441C		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1441	NF-X1-type 4.						metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			AAGGATGCCCGCAGTCCAAGA	0.557													17	48					0	0	1	0	0		A	47865238	A	A	47865238	2	1	155	1	0	0	0	0	0	0	0	1	18230	1079	38	1		1	ZNFX1	20	47865238	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4161428	47865238	15160282	1451	85278											
ADNP	23394	broad.mit.edu	37	chr20	49508350	49508350	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcagatggagaagcaccGtctttccactcaacaacatc	12	9	6	14	1	3	2	2	0	2	2	6	3	4	2	2	1	3	1	2	1	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:49508350G>A	uc002xvt.1	-	5	3246	c.2901C>T	c.(2899-2901)GAC>GAT	p.D967D	ADNP_uc002xvu.1_Silent_p.D967D	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	967						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						GAGAAGCACCGTCTTTCCACT	0.453													117	303					0	0	1	0	0		A	49508350	A	A	49508350	2	1	155	1	0	0	0	0	0	0	0	1	323	1136	40	1		1	ADNP	20	49508350	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1643112	49508350	13517170	1452	85279											
ADNP	23394	broad.mit.edu	37	chr20	49510942	49510943	+	Frame_Shift_Ins	INS	-	T	T																															ggcaattaaggagaatcctaINSttttcaaagtcttcactatg																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:49510942_49510943insT	uc002xvt.1	-	5	653_654	c.308_309insA	c.(307-309)AATfs	p.N103fs	ADNP_uc002xvu.1_Frame_Shift_Ins_p.N103fs	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	103						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						GGAGAATCCTATTTTCAAAGTC	0.416													99	219	---	---	---	---						.	T	49510943	T	T	49510942	7	5	155	1	0	1	1	0	0	0	0	0	323	446	16	0	3003	0	ADNP	20	49510942	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	2592	49510942	13514578	1453	85280											
ATP9A	10079	broad.mit.edu	37	chr20	50245609	50245609	+	Silent	SNP	A	G	G	1	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	gtaatttctccagttgattcAtcctagagagggaggccgga	10	11	12	8	1	2	2	1	1	1	1	4	5	3	4	3	3	0	2	3	3	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:50245609A>G	uc002xwg.1	-	16	1671	c.1671T>C	c.(1669-1671)GAT>GAC	p.D557D	ATP9A_uc010gih.1_Silent_p.D421D|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	557	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CAGTTGATTCATCCTAGAGAG	0.483													72	192					0	0	1	0	0		G	50245609	G	G	50245609	2	3	155	1	0	0	0	0	0	0	0	1	1199	214	8	3		3	ATP9A	20	50245609	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	734667	50245609	12779911	1454	85281											
ZFP64	55734	broad.mit.edu	37	chr20	50768713	50768713	+	Missense_Mutation	SNP	A	T	T	1	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	gaatggagtcggcgggacagAgcaaagctggatgggctgcc	10	5	18	8	2	0	1	0	0	0	1	1	5	0	4	1	5	3	3	1	5	2	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:50768713A>T	uc002xwl.2	-	6	2367	c.2018T>A	c.(2017-2019)CTC>CAC	p.L673H	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.L671H|ZFP64_uc002xwn.2_Missense_Mutation_p.L619H	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	673					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GGCGGGACAGAGCAAAGCTGG	0.488													13	130					0	0	1	0	0		T	50768713	T	T	50768713	3	4	155	1	0	0	0	0	1	0	0	0	17677	304	11	5	1222	5	ZFP64	20	50768713	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	523104	50768713	12256807	1455	85282											
CSTF1	1477	broad.mit.edu	37	chr20	54972482	54972482	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctactgggtctgctgatgCttcgataaagatacttgaca	11	12	10	8	1	1	3	0	2	1	1	2	4	1	3	0	1	5	3	0	1	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:54972482C>T	uc002xxl.1	+	3	589	c.389C>T	c.(388-390)GCT>GTT	p.A130V	CSTF1_uc002xxm.1_Missense_Mutation_p.A130V|CSTF1_uc002xxn.1_Missense_Mutation_p.A130V|CSTF1_uc002xxo.1_Missense_Mutation_p.A73V	NM_001033521	NP_001028693	Q05048	CSTF1_HUMAN	cleavage stimulation factor subunit 1	130	WD 1.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding			central_nervous_system(1)	1			Colorectal(105;0.202)			TCTGCTGATGCTTCGATAAAG	0.413													97	265					0	0	1	0	0		T	54972482	T	T	54972482	3	4	155	1	0	0	0	0	1	0	0	0	3986	797	28	2	395	2	CSTF1	20	54972482	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	4203769	54972482	8053038	1456	85283											
GNAS	2778	broad.mit.edu	37	chr20	57485424	57485424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggacccacgcgtgaccCgggccaagtacttcattcga	10	6	12	13	4	1	2	1	1	0	1	2	5	1	3	3	2	1	1	3	2	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:57485424C>T	uc002xzw.2	+	12	3220	c.2935C>T	c.(2935-2937)CGG>TGG	p.R979W	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R277W|GNAS_uc002xzx.2_Missense_Mutation_p.R277W|GNAS_uc010gjr.2_Missense_Mutation_p.R227W|GNAS_uc002xzy.2_Missense_Mutation_p.R262W|GNAS_uc002yaa.2_Missense_Mutation_p.R322W|GNAS_uc010zzt.1_Missense_Mutation_p.R337W|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Missense_Mutation_p.R227W|GNAS_uc002yae.2_Missense_Mutation_p.R261W	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	336					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			ACGCGTGACCCGGGCCAAGTA	0.443			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			11	157					0	0	1	0	0		T	57485424	T	T	57485424	3	4	155	1	0	0	0	0	1	0	0	0	6525	643	23	1	3869	1	GNAS	20	57485424	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2512942	57485424	5540096	1457	85284											
ZNF831	128611	broad.mit.edu	37	chr20	57766113	57766113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgccctgcccctcctgcGagggaccagccagctcccac	6	5	9	21	1	0	0	0	0	0	0	2	2	2	1	8	1	5	1	8	1	0	0	rs148289392	by1000genomes	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:57766113G>A	uc002yan.2	+	1	39	c.39G>A	c.(37-39)GCG>GCA	p.A13A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	13	Pro-rich.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CCCCTCCTGCGAGGGACCAGC	0.637													19	31					0	0	1	0	0		A	57766113	A	A	57766113	2	1	155	1	0	0	0	0	0	0	0	1	18210	1045	37	1		1	ZNF831	20	57766113	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	280689	57766113	5259407	1458	85285											
PPP1R3D	5509	broad.mit.edu	37	chr20	58514315	58514315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcggggcctgcgggcccGcgccaccgcgccaccgcctc	2	3	13	23	7	0	0	0	0	0	0	2	0	0	0	8	3	1	0	8	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:58514315G>A	uc002ybb.2	-	1	1038	c.672C>T	c.(670-672)CGC>CGT	p.R224R	C20orf177_uc002yba.2_Intron|C20orf177_uc010zzx.1_5'Flank|C20orf177_uc002ybc.2_5'Flank	NM_006242	NP_006233	O95685	PPR3D_HUMAN	protein phosphatase 1, regulatory subunit 3D	224	CBM21.				glycogen metabolic process		protein binding|protein serine/threonine phosphatase activity				0	all_lung(29;0.00391)		BRCA - Breast invasive adenocarcinoma(7;5.12e-09)			CTGCGGGCCCGCGCCACCGCG	0.692													19	33					0	0	1	0	0		A	58514315	A	A	58514315	2	1	155	1	0	0	0	0	0	0	0	1	12396	1074	38	1		1	PPP1R3D	20	58514315	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	748202	58514315	4511205	1459	85286											
CDH4	1002	broad.mit.edu	37	chr20	60499487	60499487	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggaccgtgagtccctctAcaccaaaaacaacgtctacg	12	7	8	14	3	2	1	0	1	2	0	3	2	3	2	3	1	4	1	3	1	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:60499487A>G	uc002ybn.1	+	11	1738	c.1724A>G	c.(1723-1725)TAC>TGC	p.Y575C	CDH4_uc002ybp.1_Missense_Mutation_p.Y501C	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	575	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GAGTCCCTCTACACCAAAAAC	0.627													7	72					0	0	1	0	0		G	60499487	G	G	60499487	3	3	155	1	0	0	0	0	1	0	0	0	3115	391	14	3	1766	3	CDH4	20	60499487	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1985172	60499487	2526033	1460	85287											
HRH3	11255	broad.mit.edu	37	chr20	60791877	60791877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctgcccccggacaggtactCccagctcaggatggctggtc	6	7	13	15	1	1	0	1	0	0	0	3	2	2	2	3	5	3	4	3	5	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:60791877C>T	uc002ycf.2	-	3	820	c.523G>A	c.(523-525)GAG>AAG	p.E175K	HRH3_uc002ycg.2_Missense_Mutation_p.E175K|HRH3_uc002ych.2_Missense_Mutation_p.E175K|HRH3_uc002yci.2_Missense_Mutation_p.E175K	NM_007232	NP_009163	Q9Y5N1	HRH3_HUMAN	histamine receptor H3	175	Helical; Name=4; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|neurotransmitter secretion	integral to plasma membrane	histamine receptor activity				0	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;7.08e-07)		Histamine Phosphate(DB00667)	GACAGGTACTCCCAGCTCAGG	0.627													20	48					0	0	1	0	0		T	60791877	T	T	60791877	3	4	155	1	0	0	0	0	1	0	0	0	7373	864	30	4	818	4	HRH3	20	60791877	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	292390	60791877	2233643	1461	85288											
YTHDF1	54915	broad.mit.edu	37	chr20	61833652	61833652	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcctcaccttgcgcaccaccTcctcctcctcctggcgcttc	3	10	6	22	2	1	0	1	0	0	0	6	0	5	0	8	1	1	2	8	1	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:61833652T>A	uc002yeh.2	-	4	1934	c.1640A>T	c.(1639-1641)GAG>GTG	p.E547V	YTHDF1_uc011aaq.1_Missense_Mutation_p.E497V	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	547										ovary(2)	2						GCGCACCACCTCCTCCTCCTC	0.552													50	134					0	0	1	0	0		A	61833652	A	A	61833652	3	1	155	1	0	0	0	0	1	0	0	0	17524	1551	54	5	47	5	YTHDF1	20	61833652	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1041775	61833652	1191868	1462	85289											
YTHDF1	54915	broad.mit.edu	37	chr20	61845261	61845261	+	Silent	SNP	A	C	C	1	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	ggctcaaagtcattgtcatgAactgtatccttctgatgtaa	11	14	8	8	0	4	2	3	2	1	0	5	2	5	2	1	1	1	3	1	1	4	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:61845261A>C	uc002yeh.2	-	3	381	c.87T>G	c.(85-87)GTT>GTG	p.V29V		NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	29										ovary(2)	2						CATTGTCATGAACTGTATCCT	0.313													52	140					0	0	1	0	0		C	61845261	C	C	61845261	2	2	155	1	0	0	0	0	0	0	0	1	17524	233	9	5		5	YTHDF1	20	61845261	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	11609	61845261	1180259	1463	85290											
CHRNA4	1137	broad.mit.edu	37	chr20	61981128	61981128	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgctgcgggtcttgacCgtggcgctcggggacaccga	4	9	17	11	5	1	1	0	1	1	0	2	3	1	2	2	5	2	2	2	5	0	2	rs121912283		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:61981128C>T	uc002yes.2	-	5	1813	c.1635G>A	c.(1633-1635)ACG>ACA	p.T545T	CHRNA4_uc002yet.1_Silent_p.T369T|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Silent_p.T474T|CHRNA4_uc002yev.1_Silent_p.T369T|CHRNA4_uc010gkf.1_Silent_p.T369T	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	545	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GGGTCTTGACCGTGGCGCTCG	0.682													17	22					0	0	1	0	0		T	61981128	T	T	61981128	2	4	155	1	0	0	0	0	0	0	0	1	3388	639	23	1		1	CHRNA4	20	61981128	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	135867	61981128	1044392	1464	85291											
GMEB2	26205	broad.mit.edu	37	chr20	62223462	62223462	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaccaggtccagcatgcCgaagttctgcacgatgttgt	8	11	10	12	2	2	0	1	0	1	0	3	2	3	0	3	1	3	4	3	1	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:62223462C>A	uc002yfp.1	-	8	1344	c.865G>T	c.(865-867)GGC>TGC	p.G289C	GMEB2_uc002yfo.1_Missense_Mutation_p.G211C|GMEB2_uc002yfq.1_Missense_Mutation_p.G289C	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	289					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			TCCAGCATGCCGAAGTTCTGC	0.597													12	76					3.07112e-06	3.16389e-06	1	1	0		A	62223462	A	A	62223462	3	1	155	1	0	0	0	0	1	0	0	0	6503	652	23	5	735	5	GMEB2	20	62223462	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	242334	62223462	802058	1465	85292											
ZBTB46	140685	broad.mit.edu	37	chr20	62407140	62407140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttactcatgagcgccgcGcgcaggttggccaccgcggt	5	9	13	14	6	2	1	1	1	1	0	2	1	2	1	3	3	2	2	3	3	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:62407140G>A	uc002ygv.1	-	3	1314	c.1113C>T	c.(1111-1113)CGC>CGT	p.R371R	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	371					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					TGAGCGCCGCGCGCAGGTTGG	0.667													47	101					0	0	1	0	0		A	62407140	A	A	62407140	2	1	155	1	0	0	0	0	0	0	0	1	17572	1074	38	1		1	ZBTB46	20	62407140	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	183678	62407140	618380	1466	85293											
ZBTB46	140685	broad.mit.edu	37	chr20	62421310	62421310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgattcttccttcggccCgtgggctgccaggcatcacc	4	11	10	16	3	2	0	1	0	1	0	5	1	4	0	5	3	1	2	5	3	0	4	rs116858325	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:62421310C>T	uc002ygv.1	-	2	1002	c.801G>A	c.(799-801)ACG>ACA	p.T267T	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	267					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					TCCTTCGGCCCGTGGGCTGCC	0.607													35	89					0	0	1	0	0		T	62421310	T	T	62421310	2	4	155	1	0	0	0	0	0	0	0	1	17572	639	23	1		1	ZBTB46	20	62421310	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	14170	62421310	604210	1467	85294											
DNAJC5	80331	broad.mit.edu	37	chr20	62559804	62559804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgacattaaaaagtcctatCggtaagtggacaagtgtggc	14	10	11	6	1	0	1	0	1	0	0	2	2	1	2	1	3	0	1	1	3	6	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:62559804C>T	uc002yhf.2	+	2	276	c.106C>T	c.(106-108)CGG>TGG	p.R36W	DNAJC5_uc002yhg.1_Missense_Mutation_p.R36W|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	36	J.				neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					AAAGTCCTATCGGTAAGTGGA	0.498													21	86					0	0	1	0	0		T	62559804	T	T	62559804	3	4	155	1	0	0	0	0	1	0	0	0	4656	898	31	1	108	1	DNAJC5	20	62559804	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	138494	62559804	465716	1468	85295											
MYT1	4661	broad.mit.edu	37	chr20	62871228	62871228	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	gagccaggccctcatccaaaGtctcgccaatatccgccttc	9	8	7	17	2	2	0	1	0	1	0	6	1	4	0	6	1	1	0	6	1	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr20:62871228G>C	uc002yii.2	+	22	3573	c.3209G>C	c.(3208-3210)AGT>ACT	p.S1070T	MYT1_uc002yij.2_Missense_Mutation_p.S729T|MYT1_uc002yik.2_Missense_Mutation_p.S36T	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	1070					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					CTCATCCAAAGTCTCGCCAAT	0.602													45	168					0	0	1	0	0		C	62871228	C	C	62871228	3	2	155	1	0	0	0	0	1	0	0	0	10124	1029	36	5	3287	5	MYT1	20	62871228	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	311424	62871228	154292	1469	85296											
RBM11	54033	broad.mit.edu	37	chr21	15591970	15591970	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgctttaaacacccagaAtcggtgtcttatgccatagc	10	12	8	11	1	2	1	0	0	2	1	3	1	2	1	2	1	4	1	2	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:15591970A>C	uc002yjo.3	+	2	225	c.183A>C	c.(181-183)GAA>GAC	p.E61D	RBM11_uc002yjn.3_5'UTR|RBM11_uc002yjp.3_Intron	NM_144770	NP_658983	P57052	RBM11_HUMAN	RNA binding motif protein 11	61	RRM.						nucleotide binding|RNA binding				0				Epithelial(23;0.000314)|COAD - Colon adenocarcinoma(22;0.00242)|Colorectal(24;0.0129)|Lung(58;0.141)		AACACCCAGAATCGGTGTCTT	0.403													5	51					0	0	1	0	0		C	15591970	C	C	15591970	3	2	155	1	0	0	0	0	1	0	0	0	13137	98	4	5	189	5	RBM11	21	15591970	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08		15591970	32537925	1470	85297											
NCAM2	4685	broad.mit.edu	37	chr21	22664432	22664432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttctttccagatcggttcGctatgttagcaaacaataac	11	14	6	10	2	1	1	0	0	1	1	4	1	2	1	1	1	3	4	1	1	5	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:22664432G>A	uc002yld.1	+	5	739	c.490G>A	c.(490-492)GCT>ACT	p.A164T	NCAM2_uc011acb.1_Missense_Mutation_p.A22T|NCAM2_uc011acc.1_Missense_Mutation_p.A189T	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	164	Ig-like C2-type 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AGATCGGTTCGCTATGTTAGC	0.393													53	63					0	0	1	0	0		A	22664432	A	A	22664432	3	1	155	1	0	0	0	0	1	0	0	0	10222	1087	38	1	508	1	NCAM2	21	22664432	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	7072462	22664432	25465463	1471	85298											
ADAMTS5	11096	broad.mit.edu	37	chr21	28296534	28296534	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgggcccgtgacccactgCggctgcgaagtgtgtgatcc	6	8	14	13	3	0	2	0	2	0	0	1	3	1	2	3	2	2	1	3	2	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:28296534C>T	uc002ymg.2	-	8	3360	c.2631G>A	c.(2629-2631)CCG>CCA	p.P877P		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	877	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TGACCCACTGCGGCTGCGAAG	0.522													29	73					0	0	1	0	0		T	28296534	T	T	28296534	2	4	155	1	0	0	0	0	0	0	0	1	269	755	27	1		1	ADAMTS5	21	28296534	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5632102	28296534	19833361	1472	85299											
RWDD2B	10069	broad.mit.edu	37	chr21	30380870	30380870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcaccagggaacatactgGctagcaggtctaactcagca	12	8	9	12	0	3	0	2	0	2	0	4	1	3	1	1	3	5	3	1	3	4	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:30380870G>A	uc002yms.2	-	2	227	c.140C>T	c.(139-141)GCC>GTC	p.A47V	RWDD2B_uc002ymt.2_Missense_Mutation_p.A18V|RWDD2B_uc002ymu.2_RNA|RWDD2B_uc002ymv.2_5'UTR	NM_016940	NP_058636	P57060	RWD2B_HUMAN	RWD domain containing 2B	47	RWD.										0						GAACATACTGGCTAGCAGGTC	0.453													9	121					0	0	1	0	0		A	30380870	A	A	30380870	3	1	155	1	0	0	0	0	1	0	0	0	13781	1203	42	2	835	2	RWDD2B	21	30380870	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2084336	30380870	17749025	1473	85300											
KRTAP19-1	337882	broad.mit.edu	37	chr21	31852411	31852411	+	Missense_Mutation	SNP	A	G	G	1	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	tccattgtacgatgggcggcAgcagccatatccatagcctc	9	9	10	13	2	0	0	0	0	0	0	3	1	2	0	4	2	4	3	4	2	3	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:31852411A>G	uc011acx.1	-	1	226	c.226T>C	c.(226-228)TGC>CGC	p.C76R		NM_181607	NP_853638	Q8IUB9	KR191_HUMAN	keratin associated protein 19-1	76	26 X 2 AA repeats of G-[YCGS].					intermediate filament					0						GATGGGCGGCAGCAGCCATAT	0.488													8	220					0	0	1	0	0		G	31852411	G	G	31852411	3	3	155	1	0	0	0	0	1	0	0	0	8544	188	7	3	48	3	KRTAP19-1	21	31852411	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1471541	31852411	16277484	1474	85301											
SFRS15	57466	broad.mit.edu	37	chr21	33044468	33044468	+	Silent	SNP	G	A	A	0	0	1	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	tgaggtggaggcatcgcaaaGccccctggtcctggcggtgg	6	7	17	11	2	0	1	0	1	0	0	2	2	1	2	3	7	1	2	3	7	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:33044468G>A	uc002ypd.2	-	20	3114	c.2688C>T	c.(2686-2688)GGC>GGT	p.G896G	SFRS15_uc002ype.2_Silent_p.G874G|SFRS15_uc010glu.2_Silent_p.G881G	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	896						nucleus	nucleotide binding|RNA binding				0						GCATCGCAAAGCCCCCTGGTC	0.647													5	56					0	0	1	0	0		A	33044468	A	A	33044468	2	1	155	1	0	0	0	0	0	0	0	1	14196	958	34	2		2	SFRS15	21	33044468	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1192057	33044468	15085427	1475	85302											
ITSN1	6453	broad.mit.edu	37	chr21	35138206	35138206	+	Frame_Shift_Del	DEL	A	-	-																															tctgacattgatcaagatggAaaacttacagcagaggaatt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:35138206delA	uc002yta.1	+	10	1084	c.816delA	c.(814-816)GGAfs	p.G272fs	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Frame_Shift_Del_p.G272fs|ITSN1_uc010gmg.2_Frame_Shift_Del_p.G235fs|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Frame_Shift_Del_p.G272fs|ITSN1_uc010gmi.2_Frame_Shift_Del_p.G235fs|ITSN1_uc010gmj.2_Frame_Shift_Del_p.G156fs|ITSN1_uc002ysy.2_Frame_Shift_Del_p.G272fs|ITSN1_uc002ysx.2_Frame_Shift_Del_p.G235fs|ITSN1_uc002ytb.1_Frame_Shift_Del_p.G272fs|ITSN1_uc002ytc.1_Frame_Shift_Del_p.G272fs|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Frame_Shift_Del_p.G235fs|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Frame_Shift_Del_p.G272fs|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Frame_Shift_Del_p.G206fs	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	272	EF-hand 2.|EH 2.|2 (Potential).				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						ATCAAGATGGAAAACTTACAG	0.383													68	120	---	---	---	---						.	-	35138206	-	-	35138206	7	5	155	1	0	1	0	1	0	0	0	0	7942	233	9	0	850	0	ITSN1	21	35138206	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	2093738	35138206	12991689	1476	85303											
TTC3	7267	broad.mit.edu	37	chr21	38555103	38555103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agacggaattagattggttcCttcaagatttggaaagagaa	15	11	11	4	1	1	4	1	0	0	4	2	7	2	6	1	3	0	1	1	3	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:38555103C>T	uc002yvz.2	+	36	4750	c.4645C>T	c.(4645-4647)CTT>TTT	p.L1549F	TTC3_uc002ywa.2_Missense_Mutation_p.L1549F|TTC3_uc002ywb.2_Missense_Mutation_p.L1549F|TTC3_uc010gnf.2_Missense_Mutation_p.L1314F|TTC3_uc002ywc.2_Missense_Mutation_p.L1239F|TTC3_uc002ywd.1_Missense_Mutation_p.L613F	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1549					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AGATTGGTTCCTTCAAGATTT	0.274													20	26					0	0	1	0	0		T	38555103	T	T	38555103	3	4	155	1	0	0	0	0	1	0	0	0	16723	681	24	4	4783	4	TTC3	21	38555103	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3416897	38555103	9574792	1477	85304											
TRAPPC10	7109	broad.mit.edu	37	chr21	45479047	45479047	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgccctggtgcagtacgacGaactggacgccctcttctct	7	9	10	15	4	2	0	0	0	2	0	3	3	2	1	2	2	3	2	2	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:45479047G>A	uc002zea.2	+	6	911	c.742G>A	c.(742-744)GAA>AAA	p.E248K	TRAPPC10_uc010gpo.2_5'UTR|TRAPPC10_uc002zdz.2_Missense_Mutation_p.E248K	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	248					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						GCAGTACGACGAACTGGACGC	0.498													29	44					0	0	1	0	0		A	45479047	A	A	45479047	3	1	155	1	0	0	0	0	1	0	0	0	16483	1059	37	1	764	1	TRAPPC10	21	45479047	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6923944	45479047	2650848	1478	85305											
PFKL	5211	broad.mit.edu	37	chr21	45745850	45745850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacctgtttccagggtggcGctccaaccccctttgaccgg	5	10	10	16	2	1	1	1	1	0	0	3	1	3	1	6	3	1	2	6	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:45745850G>A	uc002zel.2	+	20	2055	c.1996G>A	c.(1996-1998)GCT>ACT	p.A666T	PFKL_uc002zek.2_Missense_Mutation_p.A713T|PFKL_uc002zem.2_Missense_Mutation_p.A253T|PFKL_uc002zen.2_Missense_Mutation_p.A253T	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase	666					fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		CCAGGGTGGCGCTCCAACCCC	0.652													8	15					0	0	1	0	0		A	45745850	A	A	45745850	3	1	155	1	0	0	0	0	1	0	0	0	11783	1087	38	1	2074	1	PFKL	21	45745850	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	266803	45745850	2384045	1479	85306											
POFUT2	23275	broad.mit.edu	37	chr21	46703299	46703299	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagcagcctcagcaggcaccTgtagtactcgtgcttgtcct	7	10	11	13	1	1	0	1	0	0	0	3	1	2	0	3	1	5	6	3	1	2	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:46703299T>C	uc002zhc.2	-	3	551	c.526A>G	c.(526-528)AGA>GGA	p.R176G	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Missense_Mutation_p.R176G|POFUT2_uc011afp.1_Missense_Mutation_p.R176G	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	176					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		AGCAGGCACCTGTAGTACTCG	0.408													8	135					0	0	1	0	0		C	46703299	C	C	46703299	3	2	155	1	0	0	0	0	1	0	0	0	12203	1594	55	3	930	3	POFUT2	21	46703299	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	957449	46703299	1426596	1480	85307											
PCNT	5116	broad.mit.edu	37	chr21	47808787	47808787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgacgcgggcgcaggcctgGccctgtcgacaggtgagtgt	6	7	17	11	4	0	2	0	2	0	0	1	3	0	2	2	4	0	1	2	4	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:47808787G>A	uc002zji.3	+	18	3702	c.3595G>A	c.(3595-3597)GCC>ACC	p.A1199T	PCNT_uc002zjj.2_Missense_Mutation_p.A1081T	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1199					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CGCAGGCCTGGCCCTGTCGAC	0.682													9	5					0	0	1	0	0		A	47808787	A	A	47808787	3	1	155	1	0	0	0	0	1	0	0	0	11609	1203	42	2	3665	2	PCNT	21	47808787	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1105488	47808787	321108	1481	85308											
DIP2A	23181	broad.mit.edu	37	chr21	47953472	47953472	+	Silent	SNP	C	A	A	0	0	0	1	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	caggttgggtttctgctgggCagctgtggagtcttcttggc	3	14	16	8	0	3	0	0	0	3	0	3	1	3	1	0	5	2	5	0	5	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr21:47953472C>A	uc002zjo.2	+	11	1524	c.1341C>A	c.(1339-1341)GGC>GGA	p.G447G	DIP2A_uc011afy.1_Silent_p.G383G|DIP2A_uc011afz.1_Silent_p.G443G|DIP2A_uc002zjl.2_Silent_p.G447G|DIP2A_uc002zjm.2_Silent_p.G447G|DIP2A_uc010gql.2_Silent_p.G404G|DIP2A_uc002zjn.2_Silent_p.G447G|DIP2A_uc002zjp.1_Silent_p.G192G	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	447					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TTCTGCTGGGCAGCTGTGGAG	0.617													22	24					6.33239e-15	6.73976e-15	1	1	0		A	47953472	A	A	47953472	2	1	155	1	0	0	0	0	0	0	0	1	4533	697	25	5		5	DIP2A	21	47953472	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	144685	47953472	176423	1482	85309											
MICAL3	57553	broad.mit.edu	37	chr22	18324702	18324702	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgcctcagggacaggcggTagttctccagctcgatccgc	6	8	12	15	3	2	0	1	0	1	0	5	2	3	1	4	3	2	3	4	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:18324702T>C	uc002zng.3	-	20	3040	c.2687A>G	c.(2686-2688)TAC>TGC	p.Y896C	MICAL3_uc011agl.1_Missense_Mutation_p.Y896C|MICAL3_uc002znh.2_Missense_Mutation_p.Y896C|MICAL3_uc002znj.1_Missense_Mutation_p.Y624C|MICAL3_uc002znk.1_Missense_Mutation_p.Y896C|MICAL3_uc002znl.1_Missense_Mutation_p.Y529C	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	896	Glu-rich.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GGACAGGCGGTAGTTCTCCAG	0.662													2	4					0	0	1	0	0		C	18324702	C	C	18324702	3	2	155	1	0	0	0	0	1	0	0	0	9589	1638	57	3	3477	3	MICAL3	22	18324702	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08		18324702	32979864	1483	85310											
TUBA8	51807	broad.mit.edu	37	chr22	18613670	18613670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagacctggccaaggtgcagCgggccgtctgcatgctcagc	7	6	15	13	2	2	1	1	0	1	1	2	2	2	1	3	3	5	3	3	3	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:18613670C>T	uc002znv.1	+	5	1190	c.1117C>T	c.(1117-1119)CGG>TGG	p.R373W	TUBA8_uc002znr.2_Missense_Mutation_p.R307W|TUBA8_uc002znw.1_Missense_Mutation_p.R397W|TUBA8_uc002znx.1_Missense_Mutation_p.R220W	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	373					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						CAAGGTGCAGCGGGCCGTCTG	0.637													38	52					0	0	1	0	0		T	18613670	T	T	18613670	3	4	155	1	0	0	0	0	1	0	0	0	16776	759	27	1	1135	1	TUBA8	22	18613670	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	288968	18613670	32690896	1484	85311											
HIRA	7290	broad.mit.edu	37	chr22	19398237	19398237	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctttattccataaacatAccttgtcctccagttgcgaa	10	16	4	11	1	1	0	0	0	1	0	4	1	4	0	4	0	3	1	4	0	5	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:19398237A>G	uc002zpf.1	-	2	320	c.100_splice	c.e2+1	p.G34_splice	HIRA_uc011agx.1_Splice_Site|HIRA_uc010grn.1_Splice_Site_p.G34_splice|HIRA_uc010gro.1_Splice_Site|HIRA_uc010grp.2_Splice_Site	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective						chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CCATAAACATACCTTGTCCTC	0.408													8	435					0	0	1	0	0		G	19398237	G	G	19398237	5	3	155	1	0	0	0	0	0	0	1	0	7136	405	14	3	3047	3	HIRA	22	19398237	Splice_Site	SNP	A	TCGA-CG-5726-01A-11D-1600-08	784567	19398237	31906329	1485	85312											
GNB1L	54584	broad.mit.edu	37	chr22	19808240	19808240	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgtgtaccaggccactCtgagacctgtttcagacaag	11	9	10	11	0	2	3	1	1	1	3	2	4	2	3	3	1	1	2	3	1	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:19808240C>A	uc002zqe.1	-	3	529	c.135G>T	c.(133-135)CAG>CAT	p.Q45H	GNB1L_uc002zqd.1_Intron|GNB1L_uc002zqf.1_Missense_Mutation_p.Q45H	NM_053004	NP_443730	Q9BYB4	GNB1L_HUMAN	guanine nucleotide binding protein	45	WD 1.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	internal side of plasma membrane|intracellular				breast(1)	1	Colorectal(54;0.0993)					CCAGGCCACTCTGAGACCTGT	0.647													27	33					4.43304e-23	4.79456e-23	1	1	0		A	19808240	A	A	19808240	3	1	155	1	0	0	0	0	1	0	0	0	6531	912	32	5	868	5	GNB1L	22	19808240	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	410003	19808240	31496326	1486	85313											
KLHL22	84861	broad.mit.edu	37	chr22	20819222	20819222	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacgaagttgttgagcacCgcgatgccctggttggacat	9	11	12	9	3	0	1	0	1	0	0	0	4	0	2	2	2	3	4	2	2	3	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:20819222C>T	uc002zsl.1	-	4	1144	c.1035G>A	c.(1033-1035)GCG>GCA	p.A345A	KLHL22_uc011ahr.1_Silent_p.A202A|KLHL22_uc002zsm.1_Silent_p.A345A	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	345	Kelch 1.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TGTTGAGCACCGCGATGCCCT	0.567													7	176					0	0	1	0	0		T	20819222	T	T	20819222	2	4	155	1	0	0	0	0	0	0	0	1	8393	639	23	1		1	KLHL22	22	20819222	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1010982	20819222	30485344	1487	85314											
PI4KA	5297	broad.mit.edu	37	chr22	21097019	21097019	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaggtcagacatctggcCtgtggtgcctgagaaccgaa	9	9	13	10	1	3	2	2	1	1	2	3	4	3	2	3	3	2	1	3	3	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:21097019C>A	uc002zsz.3	-	31	3547	c.3316G>T	c.(3316-3318)GGC>TGC	p.G1106C		NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1106					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GACATCTGGCCTGTGGTGCCT	0.478													58	115					4.96213e-28	5.42297e-28	1	1	0		A	21097019	A	A	21097019	3	1	155	1	0	0	0	0	1	0	0	0	11892	681	24	5	2918	5	PI4KA	22	21097019	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	277797	21097019	30207547	1488	85315											
LZTR1	8216	broad.mit.edu	37	chr22	21348214	21348216	+	In_Frame_Del	DEL	AGG	-	-																															tgcatcattctttgtgcagaAggaggagtgcgtgcagggcc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:21348214_21348216delAGG	uc002zto.2	+	13	1458_1460	c.1355_1357delAGG	c.(1354-1359)AAGGAG>AAG	p.E454del	LZTR1_uc002ztn.2_In_Frame_Del_p.E413del|LZTR1_uc011ahy.1_In_Frame_Del_p.E435del|LZTR1_uc010gsr.1_In_Frame_Del_p.E325del|LZTR1_uc002ztp.2_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	454	BTB 1.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-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;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TTTGTGCAGAAGGAGGAGTGCGT	0.645													7	12	---	---	---	---						.	-	21348216	-	-	21348214	7	5	155	1	0	1	0	1	0	0	0	0	9155	86	3	0	1405	0	LZTR1	22	21348214	In_Frame_Del	DEL	AGG	TCGA-CG-5726-01A-11D-1600-08	251195	21348214	29956352	1489	85316											
GNAZ	2781	broad.mit.edu	37	chr22	23438056	23438056	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgaagatcatccacagCggcggcttcaacctggaggc	11	6	12	12	2	2	3	2	1	0	2	3	4	3	4	2	4	2	1	2	4	2	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:23438056C>T	uc002zwu.1	+	2	711	c.174C>T	c.(172-174)AGC>AGT	p.S58S	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	58						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		TCATCCACAGCGGCGGCTTCA	0.602													37	59					0	0	1	0	0		T	23438056	T	T	23438056	2	4	155	1	0	0	0	0	0	0	0	1	6529	767	27	1		1	GNAZ	22	23438056	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	2089842	23438056	27866510	1490	85317											
BCR	613	broad.mit.edu	37	chr22	23631789	23631789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagactgtccacagcattccGctgaccatcaataaggaagg	13	7	9	12	1	1	2	1	1	0	1	3	3	3	3	3	2	1	2	3	2	3	2	rs56090728		TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:23631789G>A	uc002zww.2	+	13	3284	c.2688G>A	c.(2686-2688)CCG>CCA	p.P896P	BCR_uc002zwx.2_Silent_p.P896P|BCR_uc011aiy.1_Silent_p.P485P|BCR_uc002zwy.1_Silent_p.P182P	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	896	C2.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						ACAGCATTCCGCTGACCATCA	0.577			T	ABL1| FGFR1|JAK2 	CML|ALL|AML						OREG0026390	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	30					0	0	1	0	0		A	23631789	A	A	23631789	2	1	155	1	0	0	0	0	0	0	0	1	1389	1074	38	1		1	BCR	22	23631789	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	193733	23631789	27672777	1491	85318											
CYTSA	23384	broad.mit.edu	37	chr22	24718011	24718011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtgcagtgaggtctaccagCccctcacatcgagcgatgat	10	8	11	12	2	2	2	1	2	1	0	3	4	2	2	3	1	4	1	3	1	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:24718011C>T	uc002zzw.2	+	5	1370	c.1063C>T	c.(1063-1065)CCC>TCC	p.P355S	CYTSA_uc002zzv.3_Missense_Mutation_p.P355S|CYTSA_uc011ajq.1_Missense_Mutation_p.P355S	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	355					cell cycle|cell division						0						GGTCTACCAGCCCCTCACATC	0.542													36	63					0	0	1	0	0		T	24718011	T	T	24718011	3	4	155	1	0	0	0	0	1	0	0	0	4212	739	26	2	1073	2	CYTSA	22	24718011	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1086222	24718011	26586555	1492	85319											
ASPHD2	57168	broad.mit.edu	37	chr22	26830109	26830109	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgacctgcccaccacGccctatttctcccgggacgc	5	7	8	21	4	1	0	0	0	1	0	2	2	1	1	6	1	2	0	6	1	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:26830109G>A	uc003acg.2	+	2	925	c.528G>A	c.(526-528)ACG>ACA	p.T176T		NM_020437	NP_065170	Q6ICH7	ASPH2_HUMAN	aspartate beta-hydroxylase domain containing 2	176	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity			ovary(1)	1						TGCCCACCACGCCCTATTTCT	0.592													20	29					0	0	1	0	0		A	26830109	A	A	26830109	2	1	155	1	0	0	0	0	0	0	0	1	1056	1074	38	1		1	ASPHD2	22	26830109	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2112098	26830109	24474457	1493	85320											
MN1	4330	broad.mit.edu	37	chr22	28193239	28193239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgagggcgggcgggggcGccttcggtccgtgttccccg	1	6	20	14	7	0	0	0	0	0	0	3	1	2	0	5	6	0	1	5	6	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:28193239G>A	uc003adj.2	-	1	4248	c.3293C>T	c.(3292-3294)GCG>GTG	p.A1098V		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	1098							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GGGCGGGGGCGCCTTCGGTCC	0.711			T	ETV6	AML|meningioma								3	4					0	0	1	0	0		A	28193239	A	A	28193239	3	1	155	1	0	0	0	0	1	0	0	0	9691	1087	38	1	677	1	MN1	22	28193239	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1363130	28193239	23111327	1494	85321											
CHEK2	11200	broad.mit.edu	37	chr22	29115460	29115460	+	Frame_Shift_Del	DEL	A	-	-																															tgatcatctacagtcagatcAaaaaagacaaaaactaagga																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:29115460delA	uc003adu.1	-	5	678	c.606delT	c.(604-606)TTTfs	p.F202fs	CHEK2_uc003ads.1_5'UTR|CHEK2_uc010gvh.1_Frame_Shift_Del_p.F111fs|CHEK2_uc010gvi.1_Frame_Shift_Del_p.F202fs|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_Intron|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Frame_Shift_Del_p.F245fs|CHEK2_uc003adv.1_Frame_Shift_Del_p.F202fs|CHEK2_uc003adw.1_Frame_Shift_Del_p.F202fs|CHEK2_uc003adx.1_5'UTR|CHEK2_uc003ady.1_Frame_Shift_Del_p.F202fs|CHEK2_uc003adz.1_Frame_Shift_Del_p.F6fs	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	202					cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						CAGTCAGATCAAAAAAGACAA	0.289			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				10	22	---	---	---	---						.	-	29115460	-	-	29115460	7	5	155	1	0	1	0	1	0	0	0	0	3338	127	5	0	1069	0	CHEK2	22	29115460	Frame_Shift_Del	DEL	A	TCGA-CG-5726-01A-11D-1600-08	922221	29115460	22189106	1495	85322											
AP1B1	162	broad.mit.edu	37	chr22	29727880	29727880	+	Frame_Shift_Del	DEL	G	-	-																															gagtggcgcgtggacctggaGgggggtggcgggggccaggc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:29727880delG	uc003afj.2	-	18	2519	c.2335delC	c.(2335-2337)CTCfs	p.L779fs	AP1B1_uc003afi.2_Frame_Shift_Del_p.L772fs|AP1B1_uc003afk.2_Frame_Shift_Del_p.L772fs|AP1B1_uc003afl.2_Frame_Shift_Del_p.L752fs|AP1B1_uc003afh.2_5'UTR|AP1B1_uc011ako.1_Frame_Shift_Del_p.L332fs	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	779					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						TGGACCTGGAGGGGGGTGGCG	0.652													19	28	---	---	---	---						.	-	29727880	-	-	29727880	7	5	155	1	0	1	0	1	0	0	0	0	731	1000	35	0	538	0	AP1B1	22	29727880	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	612420	29727880	21576686	1496	85323											
ASCC2	84164	broad.mit.edu	37	chr22	30185156	30185156	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgccggccactgctgttGagctgtcatgccggtacctg	4	10	14	13	2	1	1	1	1	0	0	1	1	1	1	4	3	5	5	4	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:30185156G>T	uc003agr.2	-	20	2225	c.2120C>A	c.(2119-2121)TCA>TAA	p.S707*	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Nonsense_Mutation_p.S707*|ASCC2_uc011akr.1_Nonsense_Mutation_p.S631*	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	707					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			CACTGCTGTTGAGCTGTCATG	0.637													10	361					2.80697e-09	2.93337e-09	1	1	0		T	30185156	T	T	30185156	4	4	155	1	0	0	0	0	0	1	0	0	1033	1294	45	5	157	5	ASCC2	22	30185156	Nonsense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	457276	30185156	21119410	1497	85324											
GAL3ST1	9514	broad.mit.edu	37	chr22	30951194	30951194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgcagatggtccgcatgcGctcgttggcatggcgcaggg	6	8	17	10	4	0	1	0	0	0	1	2	2	1	1	1	4	2	6	1	4	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:30951194G>A	uc003aig.1	-	4	1158	c.1018C>T	c.(1018-1020)CGC>TGC	p.R340C	GAL3ST1_uc003aih.1_Missense_Mutation_p.R340C|GAL3ST1_uc003aii.1_Missense_Mutation_p.R340C|GAL3ST1_uc010gvz.1_Missense_Mutation_p.R340C	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	340	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0						GTCCGCATGCGCTCGTTGGCA	0.711													11	15					0	0	1	0	0		A	30951194	A	A	30951194	3	1	155	1	0	0	0	0	1	0	0	0	6212	1087	38	1	257	1	GAL3ST1	22	30951194	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	766038	30951194	20353372	1498	85325											
PES1	23481	broad.mit.edu	37	chr22	30976107	30976107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtgatgcgggagtctgtgaCgtcataggtggccccaatgc	7	9	16	9	2	2	2	1	2	1	0	2	3	2	3	2	4	2	0	2	4	2	1	rs149717169	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:30976107C>T	uc003aij.1	-	11	1176	c.1102G>A	c.(1102-1104)GTC>ATC	p.V368I	PES1_uc003aik.1_Missense_Mutation_p.V363I|PES1_uc003ail.1_Missense_Mutation_p.V351I|PES1_uc003aim.1_Missense_Mutation_p.V368I|PES1_uc003ain.1_Missense_Mutation_p.V229I|PES1_uc003aio.1_Missense_Mutation_p.V229I	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain	368	Sufficient for interaction with MAP1B (By similarity).|BRCT.				cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						GAGTCTGTGACGTCATAGGTG	0.577													65	104					0	0	1	0	0		T	30976107	T	T	30976107	3	4	155	1	0	0	0	0	1	0	0	0	11752	536	19	1	684	1	PES1	22	30976107	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	24913	30976107	20328459	1499	85326											
DRG1	4733	broad.mit.edu	37	chr22	31822637	31822637	+	Silent	SNP	T	C	C	0	1	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	atctatgtgttaaataagatTgaccaaatctccattgagga	15	13	7	6	0	2	3	0	2	2	1	3	4	2	4	2	1	0	1	2	1	5	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:31822637T>C	uc003aku.2	+	7	881	c.750T>C	c.(748-750)ATT>ATC	p.I250I		NM_004147	NP_004138	Q9Y295	DRG1_HUMAN	developmentally regulated GTP binding protein 1	250	GTP (By similarity).				multicellular organismal development|transcription, DNA-dependent	cytoplasm|intermediate filament cytoskeleton|nucleus	GTP binding|transcription factor binding			central_nervous_system(1)	1						TAAATAAGATTGACCAAATCT	0.398													88	148					0	0	1	0	0		C	31822637	C	C	31822637	2	2	155	1	0	0	0	0	0	0	0	1	4767	1800	63	3		3	DRG1	22	31822637	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	846530	31822637	19481929	1500	85327											
SFI1	9814	broad.mit.edu	37	chr22	31979888	31979888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acaggttctggaacctctggCggtctcagattgagcagaaa	11	9	12	9	1	3	3	1	1	3	2	4	4	3	4	1	4	2	2	1	4	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:31979888C>T	uc003ale.2	+	13	1669	c.1276C>T	c.(1276-1278)CGG>TGG	p.R426W	SFI1_uc003ald.1_Missense_Mutation_p.R402W|SFI1_uc003alf.2_Missense_Mutation_p.R395W|SFI1_uc003alg.2_Missense_Mutation_p.R344W|SFI1_uc011alp.1_Missense_Mutation_p.R344W|SFI1_uc011alq.1_Missense_Mutation_p.R371W|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	426	HAT 5.				G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						GAACCTCTGGCGGTCTCAGAT	0.498													55	302					0	0	1	0	0		T	31979888	T	T	31979888	3	4	155	1	0	0	0	0	1	0	0	0	14181	759	27	1	1322	1	SFI1	22	31979888	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	157251	31979888	19324678	1501	85328											
DEPDC5	9681	broad.mit.edu	37	chr22	32302250	32302250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctcagggcagcagcggcggCggcggaactccaccagctcc	7	4	14	16	4	1	0	1	0	1	0	4	1	3	1	3	5	4	3	3	5	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:32302250C>T	uc003als.2	+	42	4628	c.4486C>T	c.(4486-4488)CGG>TGG	p.R1496W	DEPDC5_uc011als.1_Missense_Mutation_p.R1427W|DEPDC5_uc011alu.1_Missense_Mutation_p.R1527W|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.R1518W|DEPDC5_uc003alu.2_Missense_Mutation_p.R945W|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Missense_Mutation_p.R794W|DEPDC5_uc011alx.1_Missense_Mutation_p.R344W|DEPDC5_uc010gwk.2_Missense_Mutation_p.A531V|DEPDC5_uc011aly.1_Missense_Mutation_p.R344W	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1496					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GCAGCGGCGGCGGCGGAACTC	0.607													10	15					0	0	1	0	0		T	32302250	T	T	32302250	3	4	155	1	0	0	0	0	1	0	0	0	4448	759	27	1	4736	1	DEPDC5	22	32302250	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	322362	32302250	19002316	1502	85329											
C22orf28	51493	broad.mit.edu	37	chr22	32797740	32797740	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtgtgctcttacttggcaTtcattgggatgacacctttt	7	16	9	9	1	2	1	1	1	1	0	2	2	2	2	1	2	2	2	1	2	1	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:32797740T>C	uc003amm.2	-	5	622	c.491A>G	c.(490-492)AAT>AGT	p.N164S	C22orf28_uc011ama.1_Intron	NM_014306	NP_055121	Q9Y3I0	RTCB_HUMAN	hypothetical protein LOC51493	164					cell-matrix adhesion|substrate adhesion-dependent cell spreading|tRNA splicing, via endonucleolytic cleavage and ligation	cytoplasm|tRNA-splicing ligase complex	ATP binding|metal ion binding|RNA ligase (ATP) activity|vinculin binding				0						TTACTTGGCATTCATTGGGAT	0.473													93	100					0	0	1	0	0		C	32797740	C	C	32797740	3	2	155	1	0	0	0	0	1	0	0	0	2143	1493	52	3	1058	3	C22orf28	22	32797740	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	495490	32797740	18506826	1503	85330											
APOL3	80833	broad.mit.edu	37	chr22	36537601	36537601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaatggtttgtgtggcttCgtaataattattaagaaggg	11	14	11	5	1	0	1	0	0	0	1	1	1	0	1	1	3	0	3	1	3	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:36537601C>T	uc003aot.2	-	3	894	c.856G>A	c.(856-858)GAA>AAA	p.E286K	APOL3_uc003aoq.2_Missense_Mutation_p.E215K|APOL3_uc003aor.2_Missense_Mutation_p.E215K|APOL3_uc003aos.2_Missense_Mutation_p.E215K|APOL3_uc003aou.2_Missense_Mutation_p.E86K|APOL3_uc003aov.2_Missense_Mutation_p.E86K	NM_145640	NP_663615	O95236	APOL3_HUMAN	apolipoprotein L3 isoform 1	286					inflammatory response|lipoprotein metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	lipid binding|lipid transporter activity|signal transducer activity				0						TGTGTGGCTTCGTAATAATTA	0.502													69	98					0	0	1	0	0		T	36537601	T	T	36537601	3	4	155	1	0	0	0	0	1	0	0	0	807	893	31	1	356	1	APOL3	22	36537601	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3739861	36537601	14766965	1504	85331											
CSF2RB	1439	broad.mit.edu	37	chr22	37319309	37319309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatcccgctgcagaccctgCgctgctacaacgactacacc	9	6	7	19	3	0	1	0	0	0	1	1	2	1	1	4	0	6	4	4	0	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:37319309C>T	uc003aqa.3	+	3	317	c.100C>T	c.(100-102)CGC>TGC	p.R34C	CSF2RB_uc003aqc.3_Missense_Mutation_p.R34C	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	34	Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	GCAGACCCTGCGCTGCTACAA	0.607													23	40					0	0	1	0	0		T	37319309	T	T	37319309	3	4	155	1	0	0	0	0	1	0	0	0	3938	768	27	1	106	1	CSF2RB	22	37319309	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	781708	37319309	13985257	1505	85332											
CSF2RB	1439	broad.mit.edu	37	chr22	37325759	37325759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcccagcagcacctacgtgGcccgagtacggacccgcctg	7	5	12	17	4	0	0	0	0	0	0	0	2	0	1	5	2	5	3	5	2	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:37325759G>A	uc003aqa.3	+	6	845	c.628G>A	c.(628-630)GCC>ACC	p.A210T	CSF2RB_uc003aqc.3_Missense_Mutation_p.A210T	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	210	Fibronectin type-III 1.|Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	CACCTACGTGGCCCGAGTACG	0.652													24	36					0	0	1	0	0		A	37325759	A	A	37325759	3	1	155	1	0	0	0	0	1	0	0	0	3938	1203	42	2	646	2	CSF2RB	22	37325759	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	6450	37325759	13978807	1506	85333											
MFNG	4242	broad.mit.edu	37	chr22	37870636	37870636	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctgcaggcggccgcccaGcttgcactcaatgatatagc	8	7	13	13	2	1	1	1	1	0	0	1	1	1	1	2	3	4	4	2	3	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:37870636G>A	uc003ass.1	-	6	897	c.727C>T	c.(727-729)CTG>TTG	p.L243L	MFNG_uc011ani.1_Silent_p.L121L|MFNG_uc011anj.1_Silent_p.L229L|MFNG_uc003asr.1_5'Flank	NM_002405	NP_002396	O00587	MFNG_HUMAN	O-fucosylpeptide	243	Lumenal (Potential).				pattern specification process	extracellular space|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			lung(1)	1	Melanoma(58;0.0574)					CGGCCGCCCAGCTTGCACTCA	0.612													8	34					0	0	1	0	0		A	37870636	A	A	37870636	2	1	155	1	0	0	0	0	0	0	0	1	9543	962	34	2		2	MFNG	22	37870636	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	544877	37870636	13433930	1507	85334											
NPTXR	23467	broad.mit.edu	37	chr22	39219123	39219123	+	Missense_Mutation	SNP	T	C	C	0	1	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	gataaggatcccatgaggctTgatggggtgccaggcagcca	10	7	15	9	0	0	2	0	2	0	0	1	4	1	3	3	5	2	2	3	5	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:39219123T>C	uc003awk.2	-	4	1397	c.1243A>G	c.(1243-1245)AAG>GAG	p.K415E		NM_014293	NP_055108	O95502	NPTXR_HUMAN	neuronal pentraxin receptor	415	Pentaxin.|Extracellular (Potential).					integral to membrane	metal ion binding			central_nervous_system(2)|skin(1)	3	Melanoma(58;0.04)					CCATGAGGCTTGATGGGGTGC	0.502													37	72					0	0	1	0	0		C	39219123	C	C	39219123	3	2	155	1	0	0	0	0	1	0	0	0	10623	1821	63	3	267	3	NPTXR	22	39219123	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	1348487	39219123	12085443	1508	85335											
PDGFB	5155	broad.mit.edu	37	chr22	39621845	39621845	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atggtcacccgagtttggggCgttttggctgcacaagaaaa	10	10	13	8	2	1	1	1	0	0	1	1	2	1	1	1	4	1	4	1	4	3	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:39621845C>T	uc003axf.2	-	6	1598	c.609G>A	c.(607-609)ACG>ACA	p.T203T	PDGFB_uc003axe.2_Silent_p.T188T	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	203					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	GAGTTTGGGGCGTTTTGGCTG	0.592			T	COL1A1	DFSP								21	37					0	0	1	0	0		T	39621845	T	T	39621845	2	4	155	1	0	0	0	0	0	0	0	1	11677	755	27	1		1	PDGFB	22	39621845	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	402722	39621845	11682721	1509	85336											
PDGFB	5155	broad.mit.edu	37	chr22	39631786	39631786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggattccatttacctcCggggtctccgtgcagcaggc	6	9	13	13	3	1	0	0	0	1	0	4	2	3	1	4	4	3	2	4	4	1	3	rs148252800	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:39631786C>T	uc003axf.2	-	2	1146	c.157G>A	c.(157-159)GGA>AGA	p.G53R	PDGFB_uc003axe.2_Missense_Mutation_p.G38R	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	53					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	CATTTACCTCCGGGGTCTCCG	0.612			T	COL1A1	DFSP								15	25					0	0	1	0	0		T	39631786	T	T	39631786	3	4	155	1	0	0	0	0	1	0	0	0	11677	661	23	1	588	1	PDGFB	22	39631786	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	9941	39631786	11672780	1510	85337											
FAM83F	113828	broad.mit.edu	37	chr22	40417473	40417473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttactcctccactgtggctcGaaagcttatcaaccccaagt	10	11	6	14	1	1	0	1	0	0	0	4	1	3	0	4	1	3	2	4	1	5	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:40417473G>A	uc003ayk.1	+	4	1053	c.959G>A	c.(958-960)CGA>CAA	p.R320Q		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	320										breast(1)	1						ACTGTGGCTCGAAAGCTTATC	0.662													21	138					0	0	1	0	0		A	40417473	A	A	40417473	3	1	155	1	0	0	0	0	1	0	0	0	5652	1058	37	1	973	1	FAM83F	22	40417473	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	785687	40417473	10887093	1511	85338											
A4GALT	53947	broad.mit.edu	37	chr22	43088985	43088985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacgtggcctcgaaccGcgtgccctggctcttcttgt	3	11	12	15	4	2	0	0	0	2	0	3	2	2	1	4	3	2	1	4	3	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:43088985G>A	uc003bdb.2	-	3	1234	c.973C>T	c.(973-975)CGG>TGG	p.R325W	A4GALT_uc010gzd.2_Missense_Mutation_p.R325W	NM_017436	NP_059132	Q9NPC4	A4GAT_HUMAN	alpha 1,4-galactosyltransferase	325	Lumenal (Potential).				glycosphingolipid biosynthetic process|plasma membrane organization	Golgi stack|integral to Golgi membrane|membrane fraction	lactosylceramide 4-alpha-galactosyltransferase activity			central_nervous_system(2)	2						GCCTCGAACCGCGTGCCCTGG	0.627													23	29					0	0	1	0	0		A	43088985	A	A	43088985	3	1	155	1	0	0	0	0	1	0	0	0	6	1086	38	1	92	1	A4GALT	22	43088985	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2671512	43088985	8215581	1512	85339											
ARFGAP3	26286	broad.mit.edu	37	chr22	43219661	43219661	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	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	tataaagtacataatactcaCgccttttttagcttgatttg	12	17	5	7	1	1	1	1	1	0	0	1	1	1	1	1	0	3	2	1	0	7	10			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:43219661C>T	uc003bdd.2	-	8	892	c.672_splice	c.e8+1	p.G224_splice	ARFGAP3_uc010gzf.2_Splice_Site_p.G180_splice|ARFGAP3_uc011apu.1_Splice_Site_p.G152_splice	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating						intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						ATAATACTCACGCCTTTTTTA	0.259													9	20					0	0	1	0	0		T	43219661	T	T	43219661	5	4	155	1	0	0	0	0	0	0	1	0	851	550	19	1	913	1	ARFGAP3	22	43219661	Splice_Site	SNP	C	TCGA-CG-5726-01A-11D-1600-08	130676	43219661	8084905	1513	85340											
CELSR1	9620	broad.mit.edu	37	chr22	46929835	46929835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcggctcaccagcggagccGacgtggcctgcaccaccagc	7	4	12	18	4	1	0	1	0	0	0	2	2	1	1	5	3	4	2	5	3	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:46929835G>A	uc003bhw.1	-	1	3233	c.3233C>T	c.(3232-3234)TCG>TTG	p.S1078L		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1078	Extracellular (Potential).|Cadherin 8.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGCGGAGCCGACGTGGCCTG	0.607													44	57					0	0	1	0	0		A	46929835	A	A	46929835	3	1	155	1	0	0	0	0	1	0	0	0	3224	1059	37	1	5951	1	CELSR1	22	46929835	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	3710174	46929835	4374731	1514	85341											
TBC1D22A	25771	broad.mit.edu	37	chr22	47569223	47569223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctggccgaggcctaccGcctcaagtttgcttttgccg	4	12	12	13	3	1	0	1	0	0	0	1	1	1	0	5	2	4	4	5	2	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:47569223G>A	uc003bib.2	+	13	1643	c.1508G>A	c.(1507-1509)CGC>CAC	p.R503H	TBC1D22A_uc010haf.2_Missense_Mutation_p.R473H|TBC1D22A_uc003bic.2_Missense_Mutation_p.R444H|TBC1D22A_uc003bie.2_Missense_Mutation_p.R425H|TBC1D22A_uc003bid.2_RNA|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.R456H	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	503						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		GAGGCCTACCGCCTCAAGTTT	0.627													5	107					0	0	1	0	0		A	47569223	A	A	47569223	3	1	155	1	0	0	0	0	1	0	0	0	15636	1087	38	1	1558	1	TBC1D22A	22	47569223	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	639388	47569223	3735343	1515	85342											
MLC1	23209	broad.mit.edu	37	chr22	50521523	50521523	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgcttacagagcctgcaGcacagcgcaagtaatccatc	12	7	9	13	1	0	1	0	0	0	1	2	1	1	1	2	0	7	6	2	0	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:50521523G>T	uc003bjg.1	-	3	530	c.257C>A	c.(256-258)GCT>GAT	p.A86D	MLC1_uc011arl.1_Missense_Mutation_p.A86D|MLC1_uc003bjh.1_Missense_Mutation_p.A86D|MLC1_uc011arm.1_Intron|MLC1_uc011arn.1_Missense_Mutation_p.A7D|MLC1_uc011aro.1_Missense_Mutation_p.A86D	NM_139202	NP_631941	Q15049	MLC1_HUMAN	megalencephalic leukoencephalopathy with	86	Helical; (Potential).					basolateral plasma membrane|endosome|integral to membrane|integral to membrane of membrane fraction	ion channel activity			pancreas(1)	1		all_cancers(38;7.69e-11)|all_epithelial(38;9.52e-10)|all_lung(38;3.67e-05)|Breast(42;0.000776)|Lung NSC(38;0.000946)|Ovarian(80;0.0365)|Lung SC(80;0.113)		READ - Rectum adenocarcinoma(2;0.000669)|Colorectal(2;0.00242)|LUAD - Lung adenocarcinoma(64;0.0695)|BRCA - Breast invasive adenocarcinoma(115;0.216)		AGAGCCTGCAGCACAGCGCAA	0.577													4	92					0.150653	0.151196	1	1	0		T	50521523	T	T	50521523	3	4	155	1	0	0	0	0	1	0	0	0	9630	971	34	5	916	5	MLC1	22	50521523	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2952300	50521523	783043	1516	85343											
SBF1	6305	broad.mit.edu	37	chr22	50886875	50886875	+	Splice_Site	SNP	T	G	G	0	1	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	ggagggagctaggggtgcccTgggaacaggaggttgggact	8	6	21	6	0	0	0	0	0	0	0	0	5	0	5	1	8	3	2	1	8	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:50886875T>G	uc003blh.2	-	38	5347	c.5152_splice	c.e38-1	p.G1718_splice	SBF1_uc003ble.2_Splice_Site_p.G182_splice|SBF1_uc003blf.2_Splice_Site_p.G194_splice|SBF1_uc011arx.1_Splice_Site_p.G1356_splice	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1						protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		AGGGGTGCCCTGGGAACAGGA	0.667													19	32					0	0	1	0	0		G	50886875	G	G	50886875	5	3	155	1	0	0	0	0	0	0	1	0	13883	1594	55	5	547	5	SBF1	22	50886875	Splice_Site	SNP	T	TCGA-CG-5726-01A-11D-1600-08	365352	50886875	417691	1517	85344											
SHANK3	85358	broad.mit.edu	37	chr22	51115076	51115076	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacaagcggcgagtttatgcCcagaacctcatcgatgataa	13	9	9	10	3	1	2	1	1	0	1	2	4	1	2	2	1	4	1	2	1	5	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chr22:51115076C>A	uc003bne.1	+	3	294	c.294C>A	c.(292-294)GCC>GCA	p.A98A		NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	98										central_nervous_system(1)	1		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)		GAGTTTATGCCCAGAACCTCA	0.532													8	23					0.000274275	0.000278949	1	1	0		A	51115076	A	A	51115076	2	1	155	1	0	0	0	0	0	0	0	1	14291	610	22	5		5	SHANK3	22	51115076	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	228201	51115076	189490	1518	85345											
PLCXD1	55344	broad.mit.edu	37	chrX	209708	209708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggtcctttgcaggaggtgCcgacactgcggcagctgtgg	5	9	16	11	2	0	0	0	0	0	0	1	2	1	1	2	5	4	3	2	5	0	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:209708C>T	uc004cpc.2	+	6	868	c.556C>T	c.(556-558)CCG>TCG	p.P186S	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	186	PI-PLC X-box.				intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GCAGGAGGTGCCGACACTGCG	0.667													9	8					0	0	1	0	0		T	209708	T	T	209708	3	4	155	1	0	0	0	0	1	0	0	0	12060	739	26	2	574	2	PLCXD1	23	209708	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08		209708	155060852	1519	85346											
IL3RA	3563	broad.mit.edu	37	chrX	1471336	1471336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagttcccacatcctggtgCggggcaggagcgcagccttc	8	7	13	13	2	0	0	0	0	0	0	3	1	2	1	3	4	3	3	3	4	1	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:1471336C>T	uc004cps.2	+	6	902	c.553C>T	c.(553-555)CGG>TGG	p.R185W	IL3RA_uc011mhd.1_Missense_Mutation_p.R107W	NM_002183	NP_002174	P26951	IL3RA_HUMAN	interleukin 3 receptor, alpha precursor	185	Extracellular (Potential).					integral to membrane|plasma membrane	interleukin-3 receptor activity	p.R185P(1)		skin(2)|lung(1)	3		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CATCCTGGTGCGGGGCAGGAG	0.547													4	75					0	0	1	0	0		T	1471336	T	T	1471336	3	4	155	1	0	0	0	0	1	0	0	0	7711	759	27	1	571	1	IL3RA	23	1471336	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1261628	1471336	153799224	1520	85347											
SFRS17A	8227	broad.mit.edu	37	chrX	1712814	1712814	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacaccatccacctggagggGctgccctgcaagtggttcgc	7	7	13	14	1	0	0	0	0	0	0	2	2	1	1	4	4	2	3	4	4	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:1712814G>A	uc004cqa.2	+	2	655	c.459G>A	c.(457-459)GGG>GGA	p.G153G	SFRS17A_uc010ncx.1_Silent_p.G153G|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	153	RRM.				B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				ACCTGGAGGGGCTGCCCTGCA	0.647													82	36					0	0	1	0	0		A	1712814	A	A	1712814	2	1	155	1	0	0	0	0	0	0	0	1	14198	1190	42	2		2	SFRS17A	23	1712814	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	241478	1712814	153557746	1521	85348											
ASMT	438	broad.mit.edu	37	chrX	1748728	1748728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccaggtccgagggcgagcGgctacagttcatgcaagctc	8	7	14	12	3	1	0	1	0	0	0	3	2	2	0	2	3	5	4	2	3	2	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:1748728G>A	uc004cqd.2	+	6	603	c.458G>A	c.(457-459)CGG>CAG	p.R153Q	ASMT_uc010ncy.2_Missense_Mutation_p.R153Q|ASMT_uc004cqe.2_Missense_Mutation_p.R153Q	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	153					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAGGGCGAGCGGCTACAGTTC	0.567													76	44					0	0	1	0	0		A	1748728	A	A	1748728	3	1	155	1	0	0	0	0	1	0	0	0	1046	1116	39	1	476	1	ASMT	23	1748728	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	35914	1748728	153521832	1522	85349											
ARSF	416	broad.mit.edu	37	chrX	3030448	3030448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgccctgaaggaacacCaggaaaccatcgtgcctgtg	12	5	10	14	2	0	1	0	1	0	0	1	3	0	3	5	2	4	0	5	2	4	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:3030448C>A	uc004cre.1	+	11	1845	c.1624C>A	c.(1624-1626)CAG>AAG	p.Q542K	ARSF_uc004crf.1_Missense_Mutation_p.Q542K	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	542						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAAGGAACACCAGGAAACCAT	0.547													4	62					0.150653	0.151196	1	1	0		A	3030448	A	A	3030448	3	1	155	1	0	0	0	0	1	0	0	0	992	595	21	5	1662	5	ARSF	23	3030448	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1281720	3030448	152240112	1523	85350											
MXRA5	25878	broad.mit.edu	37	chrX	3238600	3238600	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttccaactgggtttcttgccTcagggatgttgttatttcca	6	17	9	9	0	2	0	1	0	1	0	4	1	4	1	3	2	2	3	3	2	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:3238600T>A	uc004crg.3	-	5	5283	c.5126A>T	c.(5125-5127)GAG>GTG	p.E1709V		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1709						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GTTTCTTGCCTCAGGGATGTT	0.428													5	149					0	0	1	0	0		A	3238600	A	A	3238600	3	1	155	1	0	0	0	0	1	0	0	0	10021	1551	54	5	3372	5	MXRA5	23	3238600	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	208152	3238600	152031960	1524	85351											
FRMPD4	9758	broad.mit.edu	37	chrX	12728602	12728602	+	Missense_Mutation	SNP	A	G	G	1	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	accggctgcttgttgattccAggaggtcgatatttaacatg	9	13	11	8	2	0	1	0	1	0	0	2	3	1	2	2	3	2	3	2	3	2	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:12728602A>G	uc004cuz.1	+	14	2061	c.1555A>G	c.(1555-1557)AGG>GGG	p.R519G	FRMPD4_uc011mij.1_Missense_Mutation_p.R511G	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	519	FERM.				positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						TGTTGATTCCAGGAGGTCGAT	0.488													124	45					0	0	1	0	0		G	12728602	G	G	12728602	3	3	155	1	0	0	0	0	1	0	0	0	6073	179	7	3	1609	3	FRMPD4	23	12728602	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	9490002	12728602	142541958	1525	85352											
FIGF	2277	broad.mit.edu	37	chrX	15402024	15402024	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccctgcaccagctggacGtacaacatcatgaaaacatt	14	7	8	12	1	1	1	1	1	0	0	1	3	1	2	2	1	6	3	2	1	4	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:15402024G>A	uc004cwt.1	-	1	554	c.45C>T	c.(43-45)TAC>TAT	p.Y15Y		NM_004469	NP_004460	O43915	VEGFD_HUMAN	vascular endothelial growth factor D	15					angiogenesis|cell differentiation|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of mast cell chemotaxis|vascular endothelial growth factor receptor signaling pathway	extracellular space|membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity|platelet-derived growth factor receptor binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					CCAGCTGGACGTACAACATCA	0.408													58	24					0	0	1	0	0		A	15402024	A	A	15402024	2	1	155	1	0	0	0	0	0	0	0	1	5903	1140	40	1		1	FIGF	23	15402024	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	2673422	15402024	139868536	1526	85353											
NHS	4810	broad.mit.edu	37	chrX	17739629	17739629	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaaaaacccaatacacaaTatcccttccacactggacaa	17	6	3	15	1	0	0	0	0	0	0	2	2	2	1	4	1	2	0	4	1	7	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:17739629T>C	uc004cxx.2	+	4	1259	c.921T>C	c.(919-921)AAT>AAC	p.N307N	NHS_uc011mix.1_Silent_p.N328N|NHS_uc004cxy.2_Silent_p.N151N|NHS_uc004cxz.2_Silent_p.N130N|NHS_uc004cya.2_Silent_p.N30N	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	307						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					CAATACACAATATCCCTTCCA	0.483													4	59					0	0	1	0	0		C	17739629	C	C	17739629	2	2	155	1	0	0	0	0	0	0	0	1	10430	1403	49	3		3	NHS	23	17739629	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	2337605	17739629	137530931	1527	85354											
GPR64	10149	broad.mit.edu	37	chrX	19013015	19013015	+	Missense_Mutation	SNP	A	T	T	1	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	tatattgagacatacataccAttcccgcttgcgtgtactga	11	13	7	10	2	0	2	0	2	0	1	1	3	1	2	2	0	4	2	2	0	5	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:19013015A>T	uc004cyx.2	-	28	3032	c.2868T>A	c.(2866-2868)AAT>AAA	p.N956K	GPR64_uc004cyy.2_Missense_Mutation_p.N953K|GPR64_uc004cyz.2_Missense_Mutation_p.N942K|GPR64_uc004czb.2_Intron|GPR64_uc004czc.2_Missense_Mutation_p.N940K|GPR64_uc004czd.2_Missense_Mutation_p.N932K|GPR64_uc004cze.2_Missense_Mutation_p.N926K|GPR64_uc004czf.2_Missense_Mutation_p.N918K|GPR64_uc004cza.2_Missense_Mutation_p.N934K|GPR64_uc004cyw.2_Intron|GPR64_uc010nfj.2_Missense_Mutation_p.N837K	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	956	Cytoplasmic (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					CATACATACCATTCCCGCTTG	0.368													134	32					0	0	1	0	0		T	19013015	T	T	19013015	3	4	155	1	0	0	0	0	1	0	0	0	6720	231	8	5	193	5	GPR64	23	19013015	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	1273386	19013015	136257545	1528	85355											
CXorf23	256643	broad.mit.edu	37	chrX	19983736	19983736	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggcttccactttgggttccTggcaggctctctgctttcat	4	15	10	12	0	2	0	1	0	1	0	5	0	4	0	2	4	1	5	2	4	0	4			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:19983736T>C	uc004czp.2	-	3	700	c.700A>G	c.(700-702)AGG>GGG	p.R234G	CXorf23_uc010nfn.2_RNA|CXorf23_uc011mjg.1_5'UTR|CXorf23_uc004czo.2_Missense_Mutation_p.R184G	NM_198279	NP_938020	A2AJT9	CX023_HUMAN	hypothetical protein LOC256643	234						mitochondrion				lung(1)|skin(1)	2						TTTGGGTTCCTGGCAGGCTCT	0.493													7	153					0	0	1	0	0		C	19983736	C	C	19983736	3	2	155	1	0	0	0	0	1	0	0	0	4106	1579	55	3	1384	3	CXorf23	23	19983736	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	970721	19983736	135286824	1529	85356											
TAB3	257397	broad.mit.edu	37	chrX	30870901	30870901	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aacagatcacttaccgtaggGatcgcagtggtgcagctgac	11	8	12	10	2	1	2	1	1	0	1	2	3	1	3	1	2	4	4	1	2	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:30870901G>A	uc004dcj.2	-	7	2367	c.1704C>T	c.(1702-1704)ATC>ATT	p.I568I	TAB3_uc004dck.2_Silent_p.I568I|TAB3_uc010ngl.2_Silent_p.I568I	NM_152787	NP_690000	Q8N5C8	TAB3_HUMAN	mitogen-activated protein kinase kinase kinase 7	568					activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein binding|zinc ion binding			ovary(1)	1						TTACCGTAGGGATCGCAGTGG	0.468													15	56					0	0	1	0	0		A	30870901	A	A	30870901	2	1	155	1	0	0	0	0	0	0	0	1	15522	1164	41	4		4	TAB3	23	30870901	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	10887165	30870901	124399659	1530	85357											
CXorf22	170063	broad.mit.edu	37	chrX	35969947	35969947	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattcaacaaagaacagatAttgctttaaataatctcacc	18	12	3	8	0	2	2	2	0	1	2	3	2	2	2	1	0	3	1	1	0	8	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:35969947A>T	uc004ddj.2	+	6	972	c.913A>T	c.(913-915)ATT>TTT	p.I305F	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	305										large_intestine(1)|lung(1)|ovary(1)	3						AAGAACAGATATTGCTTTAAA	0.284													3	72					0	0	1	0	0		T	35969947	T	T	35969947	3	4	155	1	0	0	0	0	1	0	0	0	4105	449	16	5	935	5	CXorf22	23	35969947	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	5099046	35969947	119300613	1531	85358											
CASK	8573	broad.mit.edu	37	chrX	41469154	41469159	+	Splice_Site	DEL	TACATC	-	-																															gaataataaaaagacagactTacatctagtagtgtgtgaag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:41469154_41469159delTACATC	uc004dfl.3	-	12	1201	c.1155_splice	c.e12+1	p.D385_splice	CASK_uc004dfk.3_Splice_Site_p.D200_splice|CASK_uc004dfm.3_Splice_Site_p.D385_splice|CASK_uc004dfn.3_Splice_Site_p.D379_splice	NM_003688	NP_003679	O14936	CSKP_HUMAN	calcium/calmodulin-dependent serine protein						cell adhesion	actin cytoskeleton|cytoplasm|nucleus|plasma membrane	ATP binding|calmodulin binding|guanylate kinase activity|protein serine/threonine kinase activity			ovary(3)|lung(2)|stomach(1)	6						AAGACAGACTTACATCTAGTAGTGTG	0.277													46	16	---	---	---	---						.	-	41469159	-	-	41469154	8	5	155	1	0	1	0	1	0	0	1	0	2668	1769	61	0		0	CASK	23	41469154	Splice_Site	DEL	TACATC	TCGA-CG-5726-01A-11D-1600-08	5499207	41469154	113801406	1532	85359											
DUSP21	63904	broad.mit.edu	37	chrX	44703614	44703614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttaccgatgctcgtgactCgcgtctctacgacttttttg	5	16	9	11	5	1	1	0	1	1	0	4	3	1	1	1	0	3	2	1	0	2	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:44703614C>T	uc004dgd.2	+	1	366	c.236C>T	c.(235-237)TCG>TTG	p.S79L		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	79	Tyrosine-protein phosphatase.|Sufficient for mitochondrial localization (By similarity).					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						GCTCGTGACTCGCGTCTCTAC	0.527													85	14					0	0	1	0	0		T	44703614	T	T	44703614	3	4	155	1	0	0	0	0	1	0	0	0	4826	893	31	1	238	1	DUSP21	23	44703614	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	3234460	44703614	110566946	1533	85360											
KDM6A	7403	broad.mit.edu	37	chrX	44879953	44879953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcttatgttcaaagtgaacaCagactatgagtctagtttaa	14	13	8	6	0	2	3	1	2	1	1	2	3	2	3	0	0	1	3	0	0	6	6			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:44879953C>T	uc004dge.3	+	6	917	c.542C>T	c.(541-543)ACA>ATA	p.T181I	KDM6A_uc010nhk.2_Missense_Mutation_p.T181I|KDM6A_uc011mkz.1_Missense_Mutation_p.T181I|KDM6A_uc011mla.1_Missense_Mutation_p.T181I|KDM6A_uc011mlb.1_Missense_Mutation_p.T181I|KDM6A_uc011mlc.1_Intron	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	181	TPR 3.				histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	p.0(4)|p.?(1)		kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						AAAGTGAACACAGACTATGAG	0.343			D|N|F|S		renal|oesophageal SCC|MM								41	169					0	0	1	0	0		T	44879953	T	T	44879953	3	4	155	1	0	0	0	0	1	0	0	0	8153	478	17	4	564	4	KDM6A	23	44879953	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	176339	44879953	110390607	1534	85361											
FOXP3	50943	broad.mit.edu	37	chrX	49110450	49110450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctgtcaggggcctcccGggggccagaccaggctggga	6	4	18	13	1	1	1	1	0	0	1	2	2	2	2	4	7	0	2	4	7	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:49110450G>A	uc004dnf.3	-	9	1083	c.895C>T	c.(895-897)CGG>TGG	p.R299W	FOXP3_uc011mnb.1_Missense_Mutation_p.R322W|FOXP3_uc011mnc.1_Missense_Mutation_p.R272W|FOXP3_uc004dne.3_Missense_Mutation_p.R264W|FOXP3_uc010niq.1_Missense_Mutation_p.R264W	NM_014009	NP_054728	Q9BZS1	FOXP3_HUMAN	forkhead box P3 isoform a	299					B cell homeostasis|cerebellum development|chromatin remodeling|embryo development|myeloid cell homeostasis|negative regulation of activated T cell proliferation|negative regulation of chronic inflammatory response|negative regulation of CREB transcription factor activity|negative regulation of cytokine secretion|negative regulation of histone acetylation|negative regulation of histone deacetylation|negative regulation of interferon-gamma biosynthetic process|negative regulation of interferon-gamma production|negative regulation of interleukin-10 production|negative regulation of interleukin-2 biosynthetic process|negative regulation of interleukin-2 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of interleukin-6 production|negative regulation of isotype switching to IgE isotypes|negative regulation of NF-kappaB transcription factor activity|negative regulation of T cell cytokine production|negative regulation of tumor necrosis factor production|pattern specification process|positive regulation of CD4-positive, CD25-positive, alpha-beta regulatory T cell differentiation|positive regulation of histone acetylation|positive regulation of immature T cell proliferation in thymus|positive regulation of peripheral T cell tolerance induction|positive regulation of T cell anergy|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transforming growth factor-beta1 production|post-embryonic development|regulation of isotype switching to IgG isotypes|response to virus|T cell homeostasis|T cell receptor signaling pathway|tolerance induction to self antigen	cytoplasm|cytoplasm|nucleus|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|histone acetyltransferase binding|histone deacetylase binding|NF-kappaB binding|NFAT protein binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription corepressor activity|zinc ion binding				0	Ovarian(276;0.236)					GGGGCCTCCCGGGGGCCAGAC	0.637													5	11					0	0	1	0	0		A	49110450	A	A	49110450	3	1	155	1	0	0	0	0	1	0	0	0	6042	1115	39	1	416	1	FOXP3	23	49110450	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4230497	49110450	106160110	1535	85362											
MSN	4478	broad.mit.edu	37	chrX	64959042	64959042	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagaagaatgagcgtgtgCagaagcacctgaaggtatac	15	6	13	7	1	0	5	0	2	0	3	0	6	0	5	1	1	4	3	1	1	6	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:64959042C>A	uc004dwf.2	+	12	1753	c.1555C>A	c.(1555-1557)CAG>AAG	p.Q519K		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	519					leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						TGAGCGTGTGCAGAAGCACCT	0.532			T	ALK	ALCL								15	3					7.93312e-07	8.2082e-07	1	1	0		A	64959042	A	A	64959042	3	1	155	1	0	0	0	0	1	0	0	0	9903	711	25	5	1601	5	MSN	23	64959042	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	15848592	64959042	90311518	1536	85363											
P2RY4	5030	broad.mit.edu	37	chrX	69478799	69478799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggcaagggctgatacaggcGacgagccatgagtccatagc	11	6	14	10	2	0	2	0	2	0	0	1	4	1	2	2	3	3	2	2	3	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:69478799G>A	uc004dxz.1	-	1	856	c.676C>T	c.(676-678)CGC>TGC	p.R226C		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	226	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1						TGATACAGGCGACGAGCCATG	0.577													7	9					0	0	1	0	0		A	69478799	A	A	69478799	3	1	155	1	0	0	0	0	1	0	0	0	11372	1058	37	1	425	1	P2RY4	23	69478799	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	4519757	69478799	85791761	1537	85364											
MED12	9968	broad.mit.edu	37	chrX	70340970	70340970	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcaatccggcagtgggatTacaccgagaagctggccatg	10	7	14	10	2	0	1	0	0	0	1	1	3	1	2	3	4	2	3	3	4	3	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:70340970T>C	uc004dyy.2	+	5	902	c.703T>C	c.(703-705)TAC>CAC	p.Y235H	MED12_uc011mpq.1_Missense_Mutation_p.Y235H|MED12_uc004dyz.2_Missense_Mutation_p.Y235H|MED12_uc004dza.2_Missense_Mutation_p.Y82H	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	235					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GCAGTGGGATTACACCGAGAA	0.562													56	23					0	0	1	0	0		C	70340970	C	C	70340970	3	2	155	1	0	0	0	0	1	0	0	0	9446	1754	61	3	721	3	MED12	23	70340970	Missense_Mutation	SNP	T	TCGA-CG-5726-01A-11D-1600-08	862171	70340970	84929590	1538	85365											
ZMYM3	9203	broad.mit.edu	37	chrX	70472962	70472963	+	Frame_Shift_Ins	INS	-	G	G																															ccgaggatggagaagggccaINSgggggggcccatcctcgagt																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:70472962_70472963insG	uc004dzh.1	-	2	230_231	c.143_144insC	c.(142-144)CCTfs	p.P48fs	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Frame_Shift_Ins_p.P48fs|ZMYM3_uc004dzj.1_Frame_Shift_Ins_p.P48fs|ZMYM3_uc011mpu.1_5'Flank|ZMYM3_uc004dzk.3_Frame_Shift_Ins_p.P48fs|ZMYM3_uc004dzl.3_Frame_Shift_Ins_p.P48fs|ZMYM3_uc004dzm.3_Frame_Shift_Ins_p.P48fs	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	48					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					GAGAAGGGCCAGGGGGGGCCCA	0.609											OREG0019858	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	8	---	---	---	---						.	G	70472963	G	G	70472962	7	5	155	1	0	1	1	0	0	0	0	0	17726	175	7	0	4082	0	ZMYM3	23	70472962	Frame_Shift_Ins	INS	-	TCGA-CG-5726-01A-11D-1600-08	131992	70472962	84797598	1539	85366											
MAGEE2	139599	broad.mit.edu	37	chrX	75004754	75004754	+	Frame_Shift_Del	DEL	G	-	-																															gattggcgcctgagggcactGgggggcatcaacgactagca																								rs61732441	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:75004754delG	uc004ecj.1	-	1	318	c.133delC	c.(133-135)CAGfs	p.Q45fs		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	45										ovary(1)|skin(1)	2						TGAGGGCACTGGGGGGCATCA	0.587													23	15	---	---	---	---						.	-	75004754	-	-	75004754	7	5	155	1	0	1	0	1	0	0	0	0	9204	1357	47	0	1442	0	MAGEE2	23	75004754	Frame_Shift_Del	DEL	G	TCGA-CG-5726-01A-11D-1600-08	4531792	75004754	80265806	1540	85367											
TAF9B	51616	broad.mit.edu	37	chrX	77387116	77387118	+	In_Frame_Del	DEL	ATC	-	-																															gactatattccttacataatAtcattgtcatcatcatcttc																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:77387116_77387118delATC	uc004eda.2	-	7	816_818	c.745_747delGAT	c.(745-747)GATdel	p.D249del		NM_015975	NP_057059	Q9HBM6	TAF9B_HUMAN	transcription associated factor 9B	249	Poly-Asp.				negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell growth|transcription initiation, DNA-dependent	transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding				0						CTTACATAATATCATTGTCATCA	0.355													114	30	---	---	---	---						.	-	77387118	-	-	77387116	7	5	155	1	0	1	0	1	0	0	0	0	15561	446	16	0	12	0	TAF9B	23	77387116	In_Frame_Del	DEL	ATC	TCGA-CG-5726-01A-11D-1600-08	2382362	77387116	77883444	1541	85368											
GPR174	84636	broad.mit.edu	37	chrX	78426931	78426931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	acatcagcattgctggctggCtgatcatctgccttgcctgt	6	13	10	12	0	3	1	2	1	1	0	3	1	3	1	2	2	4	4	2	2	0	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:78426931C>A	uc004edg.1	+	1	463	c.427C>A	c.(427-429)CTG>ATG	p.L143M		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	143	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						TGCTGGCTGGCTGATCATCTG	0.478										HNSCC(63;0.18)			107	31					3.28517e-43	3.63304e-43	1	1	0		A	78426931	A	A	78426931	3	1	155	1	0	0	0	0	1	0	0	0	6687	796	28	5	429	5	GPR174	23	78426931	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	1039815	78426931	76843629	1542	85369											
TCEAL1	9338	broad.mit.edu	37	chrX	102884959	102884973	+	In_Frame_Del	DEL	TCGGAGGAGCAGTCC	-	-																															agtcccccgaggagcagtctTcggaggagcagtcctcggag																										TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:102884959_102884973delTCGGAGGAGCAGTCC	uc004eks.2	+	3	289_303	c.115_129delTCGGAGGAGCAGTCC	c.(115-129)TCGGAGGAGCAGTCCdel	p.SEEQS39del	TCEAL1_uc004ekt.2_In_Frame_Del_p.SEEQS39del|TCEAL1_uc004eku.2_In_Frame_Del_p.SEEQS39del	NM_001006640	NP_001006641	Q15170	TCAL1_HUMAN	transcription elongation factor A (SII)-like 1	48_52	Arg/Ser-rich.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity	p.S39S(1)		ovary(1)	1						GGAGCAGTCTTCGGAGGAGCAGTCCTCGGAGGAGG	0.614													25	7	---	---	---	---						.	-	102884973	-	-	102884959	7	5	155	1	0	1	0	1	0	0	0	0	15695	1783	62	0	117	0	TCEAL1	23	102884959	In_Frame_Del	DEL	TCGGAGGAGCAGTCC	TCGA-CG-5726-01A-11D-1600-08	24458028	102884959	52385601	1543	85370											
IRS4	8471	broad.mit.edu	37	chrX	107978669	107978669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccagagctctcccggaccGatgacagtggacctgcctac	9	7	10	15	2	1	2	0	1	1	1	3	5	2	4	5	2	3	1	5	2	1	1			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:107978669G>A	uc004eoc.2	-	1	939	c.906C>T	c.(904-906)ATC>ATT	p.I302I		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	302	IRS-type PTB.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTCCCGGACCGATGACAGTGG	0.547													111	27					0	0	1	0	0		A	107978669	A	A	107978669	2	1	155	1	0	0	0	0	0	0	0	1	7858	1048	37	1		1	IRS4	23	107978669	Silent	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5093710	107978669	47291891	1544	85371											
IL13RA2	3598	broad.mit.edu	37	chrX	114239869	114239869	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagcaaagttttcttcgatAggtcttcacctaggattaaa	12	14	8	7	1	3	0	1	0	2	0	4	2	3	1	1	2	1	3	1	2	6	8			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:114239869A>G	uc004epx.2	-	9	1132	c.1007T>C	c.(1006-1008)CTA>CCA	p.L336P	IL13RA2_uc010nqd.1_Missense_Mutation_p.L336P	NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	336	Extracellular (Potential).|Fibronectin type-III 3.					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						TTTCTTCGATAGGTCTTCACC	0.353													6	99					0	0	1	0	0		G	114239869	G	G	114239869	3	3	155	1	0	0	0	0	1	0	0	0	7646	420	15	3	143	3	IL13RA2	23	114239869	Missense_Mutation	SNP	A	TCGA-CG-5726-01A-11D-1600-08	6261200	114239869	41030691	1545	85372											
RHOXF2B	727940	broad.mit.edu	37	chrX	119293252	119293252	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaacgcgcagcagcccaaCgtccacgccttcaccccatt	9	5	8	19	4	1	0	1	0	0	0	2	0	2	0	5	1	4	3	5	1	2	2	rs142963365	byFrequency	TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:119293252C>T	uc004esl.3	+	2	601	c.411C>T	c.(409-411)AAC>AAT	p.N137N		NM_001099685	NP_001093155	P0C7M4	RHF2B_HUMAN	Rhox homeobox family, member 2B	137	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCAGCCCAACGTCCACGCCT	0.637													14	13					0	0	1	0	0		T	119293252	T	T	119293252	2	4	155	1	0	0	0	0	0	0	0	1	13374	535	19	1		1	RHOXF2B	23	119293252	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	5053383	119293252	35977308	1546	85373											
GRIA3	2892	broad.mit.edu	37	chrX	122551612	122551612	+	Silent	SNP	A	C	C	1	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	ggtgcctttatgcagcaaggAtgtgatatttctccaaggtt	9	14	11	7	0	1	1	0	1	1	0	2	2	1	2	2	3	3	3	2	3	4	5			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:122551612A>C	uc004etq.3	+	12	2153	c.1860A>C	c.(1858-1860)GGA>GGC	p.G620G	GRIA3_uc004etr.3_Silent_p.G620G|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Silent_p.G604G	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	620	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TGCAGCAAGGATGTGATATTT	0.393													14	155					0	0	1	0	0		C	122551612	C	C	122551612	2	2	155	1	0	0	0	0	0	0	0	1	6785	320	12	5		5	GRIA3	23	122551612	Silent	SNP	A	TCGA-CG-5726-01A-11D-1600-08	3258360	122551612	32718948	1547	85374											
SLC9A6	10479	broad.mit.edu	37	chrX	135080679	135080679	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgggtctatcctagcataCgcttttcttggaacagcaat	9	14	8	10	1	2	0	0	0	2	0	3	1	3	1	1	2	4	3	1	2	5	7			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:135080679C>T	uc004ezj.2	+	4	622	c.546C>T	c.(544-546)TAC>TAT	p.Y182Y	SLC9A6_uc004ezk.2_Silent_p.Y214Y|SLC9A6_uc011mvx.1_Silent_p.Y162Y	NM_006359	NP_006350	Q92581	SL9A6_HUMAN	solute carrier family 9 (sodium/hydrogen	182	Helical; (Potential).				regulation of pH	early endosome membrane|endoplasmic reticulum membrane|integral to membrane|microsome|plasma membrane|recycling endosome membrane	sodium:hydrogen antiporter activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					TCCTAGCATACGCTTTTCTTG	0.279													22	71					0	0	1	0	0		T	135080679	T	T	135080679	2	4	155	1	0	0	0	0	0	0	0	1	14743	547	19	1		1	SLC9A6	23	135080679	Silent	SNP	C	TCGA-CG-5726-01A-11D-1600-08	12529067	135080679	20189881	1548	85375											
MAP7D3	79649	broad.mit.edu	37	chrX	135314105	135314105	+	Silent	SNP	T	C	C	0	1	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	tccacgctcaccacagggaaTgagtccgtgctcacctcagg	9	7	10	15	2	3	1	3	1	0	0	5	2	5	2	4	2	1	2	4	2	1	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:135314105T>C	uc004ezt.2	-	8	1102	c.1011A>G	c.(1009-1011)TCA>TCG	p.S337S	MAP7D3_uc004ezs.2_Silent_p.S301S|MAP7D3_uc011mwc.1_Silent_p.S319S|MAP7D3_uc010nsa.1_Silent_p.S295S	NM_024597	NP_078873	Q8IWC1	MA7D3_HUMAN	MAP7 domain containing 3	337						cytoplasm|spindle				ovary(2)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;0.000127)					CCACAGGGAATGAGTCCGTGC	0.577													113	29					0	0	1	0	0		C	135314105	C	C	135314105	2	2	155	1	0	0	0	0	0	0	0	1	9287	1451	51	3		3	MAP7D3	23	135314105	Silent	SNP	T	TCGA-CG-5726-01A-11D-1600-08	233426	135314105	19956455	1549	85376											
MAGEC1	9947	broad.mit.edu	37	chrX	140995606	140995606	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	agagtcctcctgaggggcctGcccagtctcctctccagagt	6	9	11	15	0	2	3	0	1	2	2	6	3	4	3	6	2	1	0	6	2	0	0			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:140995606G>T	uc004fbt.2	+	4	2702	c.2416G>T	c.(2416-2418)GCC>TCC	p.A806S	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	806							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TGAGGGGCCTGCCCAGTCTCC	0.562										HNSCC(15;0.026)			201	48					3.7197e-126	4.14374e-126	1	1	0		T	140995606	T	T	140995606	3	4	155	1	0	0	0	0	1	0	0	0	9198	1319	46	5	2422	5	MAGEC1	23	140995606	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	5681501	140995606	14274954	1550	85377											
HCFC1	3054	broad.mit.edu	37	chrX	153215718	153215718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagccacctcacttgtgtggCcgggccatagcccttctcat	6	10	9	16	1	2	0	2	0	1	0	3	0	2	0	5	2	2	0	5	2	1	3			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:153215718C>T	uc004fjp.2	-	24	6508	c.5980G>A	c.(5980-5982)GCC>ACC	p.A1994T		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1994					cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	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)					ACTTGTGTGGCCGGGCCATAG	0.627													43	14					0	0	1	0	0		T	153215718	T	T	153215718	3	4	155	1	0	0	0	0	1	0	0	0	7007	739	26	2	139	2	HCFC1	23	153215718	Missense_Mutation	SNP	C	TCGA-CG-5726-01A-11D-1600-08	12220112	153215718	2054842	1551	85378											
FUNDC2	65991	broad.mit.edu	37	chrX	154255299	154255299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccgcgcagatcctctacGtgtgtcctcgcgagacaagc	8	8	10	15	5	1	2	0	0	1	2	4	3	3	2	3	0	3	1	3	0	3	2			TCGA-CG-5726-01A-11D-1600-08	TCGA-CG-5726-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	2f7072be-c58c-4821-a33c-d0717bea6d97	c5dc8974-70d2-4fca-bb42-4ec9091b24ac	g.chrX:154255299G>A	uc004fmw.2	+	1	236	c.86G>A	c.(85-87)CGT>CAT	p.R29H	F8_uc011mzx.1_5'Flank	NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	29						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					GATCCTCTACGTGTGTCCTCG	0.542													3	3					0	0	1	0	0		A	154255299	A	A	154255299	3	1	155	1	0	0	0	0	1	0	0	0	6112	1145	40	1	88	1	FUNDC2	23	154255299	Missense_Mutation	SNP	G	TCGA-CG-5726-01A-11D-1600-08	1039581	154255299	1015261	1552	85379											
SCNN1D	6339	broad.mit.edu	37	chr1	1222237	1222237	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caacgtcaacctcagcaaagGcagagccgccctctccgcca	11	4	8	18	3	3	1	2	0	1	1	4	1	3	1	5	1	4	2	5	1	3	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:1222237G>T	uc001adu.1	+	7	1133	c.509G>T	c.(508-510)GGC>GTC	p.G170V	SCNN1D_uc001adt.1_Missense_Mutation_p.G334V|SCNN1D_uc001adw.2_Missense_Mutation_p.G236V|SCNN1D_uc001adx.2_5'UTR|SCNN1D_uc001adv.2_Missense_Mutation_p.G170V	NM_002978	NP_002969			sodium channel, nonvoltage-gated 1, delta												0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		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)		CTCAGCAAAGGCAGAGCCGCC	0.667													15	38					6.49762e-13	7.08534e-13	0.006122	1	0		T	1222237	T	T	1222237	3	4	156	1	0	0	0	0	1	0	0	0	13954	1203	42	5	725	5	SCNN1D	1	1222237	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08		1222237	248028384	1	85380											
DMBX1	127343	broad.mit.edu	37	chr1	46972811	46972811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccggccttcagtgcatgcGcttacattggctgagcgcct	6	11	11	13	3	1	1	1	1	0	0	1	1	1	1	3	2	5	3	3	2	2	4	rs145308708	byFrequency	TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:46972811G>A	uc001cpx.2	+	1	144	c.129G>A	c.(127-129)GCG>GCA	p.A43A	DMBX1_uc001cpw.2_Silent_p.A43A	NM_147192	NP_671725	Q8NFW5	DMBX1_HUMAN	diencephalon/mesencephalon homeobox 1 isoform b	43	Interacts with OXT2 and is required for repressor activity (By similarity).				brain development|developmental growth|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CAGTGCATGCGCTTACATTGG	0.637													9	44					0	0	0.006214	0	0		A	46972811	A	A	46972811	2	1	156	1	0	0	0	0	0	0	0	1	4584	1074	38	1		1	DMBX1	1	46972811	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	45750574	46972811	202277810	2	85381											
BEND5	79656	broad.mit.edu	37	chr1	49193689	49193689	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcagtttcatccacagtttCttgtgctattctgtcataca	8	18	5	10	0	5	0	3	0	2	0	6	0	6	0	1	0	2	3	1	0	2	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:49193689C>G	uc001crx.3	-	6	1179	c.1135G>C	c.(1135-1137)GAA>CAA	p.E379Q	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Missense_Mutation_p.E210Q	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	379	BEN.									skin(1)	1						TCCACAGTTTCTTGTGCTATT	0.353													15	101					0	0	0.003163	0	0		G	49193689	G	G	49193689	3	3	156	1	0	0	0	0	1	0	0	0	1402	922	32	5	134	5	BEND5	1	49193689	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	2220878	49193689	200056932	3	85382											
BEND5	79656	broad.mit.edu	37	chr1	49208340	49208340	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatgacaggcgcaggagcGgggtaataggacgacgtatt	11	7	15	8	4	0	1	0	1	0	0	1	4	1	3	1	5	1	3	1	5	3	4	rs146041042		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:49208340G>A	uc001crx.3	-	4	893	c.849C>T	c.(847-849)CCC>CCT	p.P283P	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.P114P	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	283										skin(1)	1						GCGCAGGAGCGGGGTAATAGG	0.468													46	208					0	0	0.01441	0	0		A	49208340	A	A	49208340	2	1	156	1	0	0	0	0	0	0	0	1	1402	1103	39	1		1	BEND5	1	49208340	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	14651	49208340	200042281	4	85383											
BARHL2	343472	broad.mit.edu	37	chr1	91178119	91178119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaacatcctctgcagcgccGagtagttccctgcctcggcc	7	8	10	16	3	1	0	0	0	1	0	4	2	3	0	5	1	4	3	5	1	2	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:91178119G>A	uc001dns.2	-	3	956	c.914C>T	c.(913-915)TCG>TTG	p.S305L		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	305						nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		CTGCAGCGCCGAGTAGTTCCC	0.627													11	26					0	0	0.010729	0	0		A	91178119	A	A	91178119	3	1	156	1	0	0	0	0	1	0	0	0	1315	1059	37	1	253	1	BARHL2	1	91178119	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	41969779	91178119	158072502	5	85384											
CDC7	8317	broad.mit.edu	37	chr1	91977205	91977205	+	Silent	SNP	T	C	C	0	1	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	tgctttaggaagaatgatcaTgtagttattgctatgccata	12	15	9	5	0	1	2	1	1	0	1	1	3	1	3	1	1	3	4	1	1	7	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:91977205T>C	uc001doe.2	+	5	552	c.387T>C	c.(385-387)CAT>CAC	p.H129H	CDC7_uc001dof.2_Silent_p.H129H|CDC7_uc010osw.1_Silent_p.H101H|CDC7_uc009wdc.2_Silent_p.H129H	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	129	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		AGAATGATCATGTAGTTATTG	0.333													60	213					0	0	0.01441	0	0		C	91977205	C	C	91977205	2	2	156	1	0	0	0	0	0	0	0	1	3087	1461	51	3		3	CDC7	1	91977205	Silent	SNP	T	TCGA-CG-5727-01A-11D-1600-08	799086	91977205	157273416	6	85385											
GFI1	2672	broad.mit.edu	37	chr1	92941605	92941605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatttgagcccatgctgcGtctcccggtgccttcggagg	4	11	12	14	3	2	1	1	1	1	0	4	2	2	2	3	3	4	1	3	3	0	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:92941605G>A	uc001dou.3	-	7	1414	c.1250C>T	c.(1249-1251)ACG>ATG	p.T417M	GFI1_uc001dov.3_Missense_Mutation_p.T417M|GFI1_uc001dow.3_Missense_Mutation_p.T417M	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	417	C2H2-type 6.				negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		CCCATGCTGCGTCTCCCGGTG	0.612													16	17					0	0	0.00499	0	0		A	92941605	A	A	92941605	3	1	156	1	0	0	0	0	1	0	0	0	6354	1145	40	1	22	1	GFI1	1	92941605	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	964400	92941605	156309016	7	85386											
COL11A1	1301	broad.mit.edu	37	chr1	103387081	103387081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcagagttcttacatcagctCcattgggaccttgagggcct	8	12	10	11	0	3	2	2	1	1	1	4	3	4	3	3	2	2	2	3	2	1	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:103387081C>T	uc001dul.2	-	48	4019	c.3701G>A	c.(3700-3702)GGA>GAA	p.G1234E	COL11A1_uc001duk.2_Missense_Mutation_p.G430E|COL11A1_uc001dum.2_Missense_Mutation_p.G1246E|COL11A1_uc001dun.2_Missense_Mutation_p.G1195E|COL11A1_uc009weh.2_Missense_Mutation_p.G1118E	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1234	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TACATCAGCTCCATTGGGACC	0.363													24	122					0	0	0.021523	0	0		T	103387081	T	T	103387081	3	4	156	1	0	0	0	0	1	0	0	0	3670	855	30	4	1799	4	COL11A1	1	103387081	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	10445476	103387081	145863540	8	85387											
NOTCH2	4853	broad.mit.edu	37	chr1	120529603	120529603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtccattgtgggggacagCggcagttgtaagtgttgacc	7	11	15	8	1	0	1	0	1	0	0	1	2	1	2	2	3	1	4	2	3	1	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:120529603C>T	uc001eik.2	-	5	1110	c.854G>A	c.(853-855)CGC>CAC	p.R285H	NOTCH2_uc001eil.2_Missense_Mutation_p.R285H|NOTCH2_uc001eim.3_Missense_Mutation_p.R202H	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	285	EGF-like 7; calcium-binding (Potential).|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGGGGGACAGCGGCAGTTGTA	0.468			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				12	76					0	0	0.020292	0	0		T	120529603	T	T	120529603	3	4	156	1	0	0	0	0	1	0	0	0	10567	768	27	1	6681	1	NOTCH2	1	120529603	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	17142522	120529603	128721018	9	85388											
HIST2H2AB	317772	broad.mit.edu	37	chr1	149859253	149859253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcgtcttcttgttgtcccGagccgcgttgcccgccagct	2	11	12	16	6	2	0	0	0	2	0	3	1	3	0	4	0	3	3	4	0	0	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:149859253G>A	uc001ete.2	-	1	214	c.214C>T	c.(214-216)CGG>TGG	p.R72W	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	72					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			TTGTTGTCCCGAGCCGCGTTG	0.632													9	56					0	0	0.006214	0	0		A	149859253	A	A	149859253	3	1	156	1	0	0	0	0	1	0	0	0	7193	1057	37	1	182	1	HIST2H2AB	1	149859253	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	29329650	149859253	99391368	10	85389											
SELENBP1	8991	broad.mit.edu	37	chr1	151337403	151337403	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccatgtgtctgcttctcaccTgatgagatcagggtaaaact	10	12	9	10	0	3	2	2	2	2	1	4	3	3	2	2	1	2	2	2	1	2	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:151337403T>C	uc001exx.2	-	11	1302	c.1255A>G	c.(1255-1257)AGG>GGG	p.R419G	SELENBP1_uc010pcy.1_Missense_Mutation_p.R461G|SELENBP1_uc001exy.2_Missense_Mutation_p.R316G|SELENBP1_uc001exz.2_Missense_Mutation_p.R316G|SELENBP1_uc010pcz.1_Missense_Mutation_p.R357G|SELENBP1_uc009wms.2_Missense_Mutation_p.R255G|SELENBP1_uc009wmt.2_Missense_Mutation_p.R316G|SELENBP1_uc001eya.2_Missense_Mutation_p.R355G|SELENBP1_uc009wmu.2_3'UTR	NM_003944	NP_003935	Q13228	SBP1_HUMAN	selenium binding protein 1	419					protein transport	cytosol|membrane|nucleolus	protein binding|selenium binding				0	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)			GCTTCTCACCTGATGAGATCA	0.572													3	37					0	0	0.004672	0	0		C	151337403	C	C	151337403	3	2	156	1	0	0	0	0	1	0	0	0	14039	1594	55	3	171	3	SELENBP1	1	151337403	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	1478150	151337403	97913218	11	85390											
FLG	2312	broad.mit.edu	37	chr1	152275879	152275879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaagcttcatggtgacgcGaccctgagtgcctggagccg	7	8	15	11	3	1	2	1	2	0	0	1	5	1	4	3	3	3	1	3	3	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:152275879G>A	uc001ezu.1	-	3	11519	c.11483C>T	c.(11482-11484)TCG>TTG	p.S3828L		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3828	Filaggrin 23.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGGTGACGCGACCCTGAGTG	0.592									Ichthyosis				182	310					0	0	0.01441	0	0		A	152275879	A	A	152275879	3	1	156	1	0	0	0	0	1	0	0	0	5936	1059	37	1	706	1	FLG	1	152275879	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	938476	152275879	96974742	12	85391											
ADAR	103	broad.mit.edu	37	chr1	154570392	154570392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acactcaagcagtgtggtgaCggggctcttcccagaaaaga	12	7	12	10	1	2	3	1	1	1	2	3	3	3	3	1	3	1	2	1	3	3	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:154570392C>T	uc001ffh.2	-	4	2046	c.1846G>A	c.(1846-1848)GTC>ATC	p.V616I	ADAR_uc001ffj.2_Missense_Mutation_p.V616I|ADAR_uc001ffi.2_Missense_Mutation_p.V616I|ADAR_uc001ffk.2_Missense_Mutation_p.V321I	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	616	DRBM 2.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		AGTGTGGTGACGGGGCTCTTC	0.502													34	52					0	0	0.013726	0	0		T	154570392	T	T	154570392	3	4	156	1	0	0	0	0	1	0	0	0	281	536	19	1	1882	1	ADAR	1	154570392	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	2294513	154570392	94680229	13	85392											
CADM3	57863	broad.mit.edu	37	chr1	159169578	159169578	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	tcctcctccagcacctaccaCgccatcatcggtgggatcgt	7	9	8	17	3	1	0	1	0	0	0	6	1	4	1	6	2	2	1	6	2	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:159169578C>G	uc001ftl.2	+	8	1132	c.990C>G	c.(988-990)CAC>CAG	p.H330Q	CADM3_uc001ftk.2_Missense_Mutation_p.H364Q|uc001ftm.1_RNA	NM_001127173	NP_001120645	Q8N126	CADM3_HUMAN	cell adhesion molecule 3 isoform 2	330	Extracellular (Potential).				adherens junction organization|cell junction assembly|heterophilic cell-cell adhesion|homophilic cell adhesion	cell-cell junction|integral to membrane	protein homodimerization activity			ovary(2)	2	all_hematologic(112;0.0429)					GCACCTACCACGCCATCATCG	0.542													5	106					0	0	0.001168	0	0		G	159169578	G	G	159169578	3	3	156	1	0	0	0	0	1	0	0	0	2571	535	19	5	1126	5	CADM3	1	159169578	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	4599186	159169578	90081043	14	85393											
DDR2	4921	broad.mit.edu	37	chr1	162740230	162740230	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	acgatcgcatctttccccttCgccctgactaccaggagcca	8	9	7	17	3	1	1	0	1	1	0	4	3	2	2	5	1	2	1	5	1	1	3	rs34869543		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:162740230C>G	uc001gcf.2	+	13	1897	c.1432C>G	c.(1432-1434)CGC>GGC	p.R478G	DDR2_uc001gcg.2_Missense_Mutation_p.R478G	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	478	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			CTTTCCCCTTCGCCCTGACTA	0.532													33	128					0	0	0.012213	0	0		G	162740230	G	G	162740230	3	3	156	1	0	0	0	0	1	0	0	0	4340	884	31	5	1470	5	DDR2	1	162740230	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	3570652	162740230	86510391	15	85394											
RASAL2	9462	broad.mit.edu	37	chr1	178427010	178427010	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacactcatgctgctcaagtGgagcatgcatctgtcatgct	9	11	10	11	0	4	0	3	0	1	0	4	2	4	1	0	1	5	5	0	1	1	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:178427010G>A	uc001glr.2	+	12	2285	c.2160G>A	c.(2158-2160)GTG>GTA	p.V720V	RASAL2_uc001glq.2_Silent_p.V861V|RASAL2_uc009wxc.2_Silent_p.V234V	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	720					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CTGCTCAAGTGGAGCATGCAT	0.517													48	80					0	0	0.01441	0	0		A	178427010	A	A	178427010	2	1	156	1	0	0	0	0	0	0	0	1	13089	1335	47	4		4	RASAL2	1	178427010	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	15686780	178427010	70823611	16	85395											
MOSC1	64757	broad.mit.edu	37	chr1	220971337	220971337	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcccaatattgtaatttcagGatgcgatgtctatgcagagg	11	12	11	7	1	2	1	1	0	1	1	2	3	2	2	1	2	2	2	1	2	4	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:220971337G>T	uc001hms.2	+	4	982	c.734G>T	c.(733-735)GGA>GTA	p.G245V	MOSC1_uc001hmt.2_Missense_Mutation_p.G245V	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	245	MOSC.						molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		GTAATTTCAGGATGCGATGTC	0.423													15	320					2.23348e-06	2.297e-06	0.004007	1	0		T	220971337	T	T	220971337	3	4	156	1	0	0	0	0	1	0	0	0	9731	1174	41	5	748	5	MOSC1	1	220971337	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	42544327	220971337	28279284	17	85396											
ARID4B	51742	broad.mit.edu	37	chr1	235345675	235345675	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttgctactgttttccatGcaaagtgattctttgttctt	6	20	7	8	0	2	1	0	1	2	0	3	1	3	1	1	0	3	5	1	0	2	8			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr1:235345675G>A	uc001hwq.2	-	20	3057	c.2559C>T	c.(2557-2559)TGC>TGT	p.C853C	ARID4B_uc001hwr.2_Silent_p.C767C|ARID4B_uc001hws.3_Silent_p.C767C|ARID4B_uc001hwp.2_RNA|ARID4B_uc001hwt.3_Silent_p.C534C	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	853					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			TGTTTTCCATGCAAAGTGATT	0.368													53	251					0	0	0.01441	0	0		A	235345675	A	A	235345675	2	1	156	1	0	0	0	0	0	0	0	1	920	1311	46	2		2	ARID4B	1	235345675	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	14374338	235345675	13904946	18	85397											
PROKR1	10887	broad.mit.edu	37	chr2	68882420	68882420	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctacgtgctatgctgggcGcccttctacggcttcaccat	5	11	10	15	3	2	0	1	0	1	0	2	0	2	0	3	2	4	3	3	2	3	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:68882420G>A	uc010yqj.1	+	2	894	c.894G>A	c.(892-894)GCG>GCA	p.A298A	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	298	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						TATGCTGGGCGCCCTTCTACG	0.592													5	76					0	0	0.001984	0	0		A	68882420	A	A	68882420	2	1	156	1	0	0	0	0	0	0	0	1	12574	1074	38	1		1	PROKR1	2	68882420	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08		68882420	174316953	19	85398											
ANXA4	307	broad.mit.edu	37	chr2	70015260	70015260	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagaccctgaggaaggcCatgaaagggctcggtatgtg	10	6	15	10	1	0	3	0	2	0	1	1	4	0	4	3	4	0	2	3	4	3	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:70015260C>T	uc002sfr.3	+	3	311	c.84C>T	c.(82-84)GCC>GCT	p.A28A	ANXA4_uc010yqn.1_RNA|ANXA4_uc002sfs.3_Silent_p.A28A|ANXA4_uc010yqo.1_Intron	NM_001153	NP_001144	P09525	ANXA4_HUMAN	annexin IV	26	Annexin 1.				anti-apoptosis|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity				0						TGAGGAAGGCCATGAAAGGGC	0.537													28	66					0	0	0.00632	0	0		T	70015260	T	T	70015260	2	4	156	1	0	0	0	0	0	0	0	1	720	581	21	4		4	ANXA4	2	70015260	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	1132840	70015260	173184113	20	85399											
DYSF	8291	broad.mit.edu	37	chr2	71780317	71780317	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tacagccgtgcagtctttgaCggtgaggcagtgctcctggc	6	10	14	11	2	1	2	0	2	1	0	2	2	2	2	2	3	4	3	2	3	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:71780317C>T	uc002sie.2	+	20	2305	c.1929C>T	c.(1927-1929)GAC>GAT	p.D643D	DYSF_uc010feg.2_Silent_p.D674D|DYSF_uc010feh.2_Silent_p.D629D|DYSF_uc002sig.3_Silent_p.D629D|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.D643D|DYSF_uc010fef.2_Silent_p.D660D|DYSF_uc010fei.2_Silent_p.D660D|DYSF_uc010fek.2_Silent_p.D661D|DYSF_uc010fej.2_Silent_p.D630D|DYSF_uc010fel.2_Silent_p.D630D|DYSF_uc010feo.2_Silent_p.D675D|DYSF_uc010fem.2_Silent_p.D644D|DYSF_uc010fen.2_Silent_p.D661D|DYSF_uc002sif.2_Silent_p.D644D	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	643	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CAGTCTTTGACGGTGAGGCAG	0.587													23	74					0	0	0.01892	0	0		T	71780317	T	T	71780317	2	4	156	1	0	0	0	0	0	0	0	1	4865	550	19	1		1	DYSF	2	71780317	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	1765057	71780317	171419056	21	85400											
DYSF	8291	broad.mit.edu	37	chr2	71825803	71825803	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcttctacgagatcgagatCtttggcgagccggccacagt	9	10	11	11	4	3	2	0	0	3	2	4	5	3	2	2	2	2	0	2	2	1	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:71825803C>T	uc002sie.2	+	33	4006	c.3630C>T	c.(3628-3630)ATC>ATT	p.I1210I	DYSF_uc010feg.2_Silent_p.I1241I|DYSF_uc010feh.2_Silent_p.I1196I|DYSF_uc002sig.3_Silent_p.I1196I|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.I1210I|DYSF_uc010fef.2_Silent_p.I1227I|DYSF_uc010fei.2_Silent_p.I1227I|DYSF_uc010fek.2_Silent_p.I1228I|DYSF_uc010fej.2_Silent_p.I1197I|DYSF_uc010fel.2_Silent_p.I1197I|DYSF_uc010feo.2_Silent_p.I1242I|DYSF_uc010fem.2_Silent_p.I1211I|DYSF_uc010fen.2_Silent_p.I1228I|DYSF_uc002sif.2_Silent_p.I1211I|DYSF_uc010yqy.1_Silent_p.I91I	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1210	Cytoplasmic (Potential).|C2 4.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						AGATCGAGATCTTTGGCGAGC	0.582													26	52					0	0	0.007291	0	0		T	71825803	T	T	71825803	2	4	156	1	0	0	0	0	0	0	0	1	4865	903	32	4		4	DYSF	2	71825803	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	45486	71825803	171373570	22	85401											
TSGA10	80705	broad.mit.edu	37	chr2	99636757	99636757	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcacattttattttctgcCaaacaaaggtgttctttaag	12	16	5	8	0	3	0	1	0	2	0	3	0	3	0	1	1	2	1	1	1	4	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:99636757C>T	uc002szg.3	-	16	2431	c.1803G>A	c.(1801-1803)TTG>TTA	p.L601L	TSGA10_uc002szh.3_Silent_p.L601L|TSGA10_uc002szi.3_Silent_p.L601L|TSGA10_uc010fin.1_Silent_p.L601L	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	601	Interaction with HIF1A (By similarity).				spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						TATTTTCTGCCAAACAAAGGT	0.308													39	106					0	0	0.00623	0	0		T	99636757	T	T	99636757	2	4	156	1	0	0	0	0	0	0	0	1	16643	593	21	4		4	TSGA10	2	99636757	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	27810954	99636757	143562616	23	85402											
IL1F5	26525	broad.mit.edu	37	chr2	113818509	113818509	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcatgcagggaaggtcaTtaaaggttggtgatgaaaca	13	9	14	5	0	1	2	1	2	0	0	1	3	1	3	0	4	3	4	0	4	4	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:113818509T>C	uc002tis.2	+	3	243	c.110T>C	c.(109-111)ATT>ACT	p.I37T	IL1F5_uc002tit.2_Missense_Mutation_p.I37T	NM_173170	NP_775262	Q9UBH0	I36RA_HUMAN	interleukin 1 family, member 5	37						extracellular space	cytokine activity|interleukin-1 receptor antagonist activity				0						GGGAAGGTCATTAAAGGTTGG	0.473													37	148					0	0	0.019004	0	0		C	113818509	C	C	113818509	3	2	156	1	0	0	0	0	1	0	0	0	7669	1493	52	3	116	3	IL1F5	2	113818509	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	14181752	113818509	129380864	24	85403											
ZEB2	9839	broad.mit.edu	37	chr2	145157076	145157076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccaaatctattaaagtacGtagcttctctttctttatat	12	17	4	8	1	3	0	0	0	3	0	4	1	3	0	1	0	2	3	1	0	8	9			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:145157076G>A	uc002tvu.2	-	8	2158	c.1678C>T	c.(1678-1680)CGT>TGT	p.R560C	ZEB2_uc002tvv.2_Missense_Mutation_p.R554C|ZEB2_uc010zbm.1_Missense_Mutation_p.R531C|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.R589C	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	560						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATTAAAGTACGTAGCTTCTCT	0.393													30	211					0	0	0.007291	0	0		A	145157076	A	A	145157076	3	1	156	1	0	0	0	0	1	0	0	0	17649	1145	40	1	1978	1	ZEB2	2	145157076	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	31338567	145157076	98042297	25	85404											
SCN2A	6326	broad.mit.edu	37	chr2	166187901	166187901	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaatttgctaatatgtgtttGatttgggactgttgtaaacc	11	17	9	4	0	0	1	0	1	0	0	0	2	0	2	1	1	2	4	1	1	5	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:166187901G>C	uc002udc.2	+	14	2501	c.2211G>C	c.(2209-2211)TTG>TTC	p.L737F	SCN2A_uc002udd.2_Missense_Mutation_p.L737F|SCN2A_uc002ude.2_Missense_Mutation_p.L737F	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	737					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ATATGTGTTTGATTTGGGACT	0.398													78	128					0	0	0.01441	0	0		C	166187901	C	C	166187901	3	2	156	1	0	0	0	0	1	0	0	0	13941	1281	45	5	2357	5	SCN2A	2	166187901	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	21030825	166187901	77011472	26	85405											
SCN2A	6326	broad.mit.edu	37	chr2	166221688	166221688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttcatctgaaggcagcacGgttgatattggagctcccgc	9	10	12	10	2	2	2	1	2	1	0	3	3	3	3	1	3	2	5	1	3	2	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:166221688G>A	uc002udc.2	+	18	3725	c.3435G>A	c.(3433-3435)ACG>ACA	p.T1145T	SCN2A_uc002udd.2_Silent_p.T1145T|SCN2A_uc002ude.2_Silent_p.T1145T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	1145					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AAGGCAGCACGGTTGATATTG	0.363													18	91					0	0	0.008871	0	0		A	166221688	A	A	166221688	2	1	156	1	0	0	0	0	0	0	0	1	13941	1103	39	1		1	SCN2A	2	166221688	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	33787	166221688	76977685	27	85406											
TTN	7273	broad.mit.edu	37	chr2	179581831	179581831	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctaacaagtaccttgtacacCcagctgagcagaacaagagt	15	7	8	11	0	0	3	0	1	0	2	0	3	0	3	2	0	6	4	2	0	6	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:179581831C>G	uc010zfg.1	-	85	22122	c.21898G>C	c.(21898-21900)GGT>CGT	p.G7300R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.G3961R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8227							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCTTGTACACCCAGCTGAGCA	0.458													12	65					0	0	0.020292	0	0		G	179581831	G	G	179581831	3	3	156	1	0	0	0	0	1	0	0	0	16761	623	22	5	78999	5	TTN	2	179581831	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	13360143	179581831	63617542	28	85407											
DNAH7	56171	broad.mit.edu	37	chr2	196877523	196877523	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	acctttacattttaagtagaGtctctttggcagagtccatg	10	15	8	8	0	1	2	0	0	1	2	3	2	2	2	2	1	1	2	2	1	3	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:196877523G>C	uc002utj.3	-	10	1078	c.977C>G	c.(976-978)ACT>AGT	p.T326S		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	326	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TTTAAGTAGAGTCTCTTTGGC	0.333													30	141					0	0	0.012213	0	0		C	196877523	C	C	196877523	3	2	156	1	0	0	0	0	1	0	0	0	4612	1029	36	5	11321	5	DNAH7	2	196877523	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	17295692	196877523	46321850	29	85408											
ALS2	57679	broad.mit.edu	37	chr2	202626541	202626541	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaagctgtagacctcaccaTctgaaggttaaaaaaaagaa	19	7	7	8	0	2	3	1	1	1	2	2	3	2	3	2	1	1	3	2	1	8	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:202626541T>C	uc002uyo.2	-	4	532	c.176A>G	c.(175-177)GAT>GGT	p.D59G	ALS2_uc002uyp.3_Missense_Mutation_p.D59G|ALS2_uc002uyq.2_Missense_Mutation_p.D59G|ALS2_uc002uyr.2_Missense_Mutation_p.D59G	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	59	RCC1 1.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						GACCTCACCATCTGAAGGTTa	0.358													46	87					0	0	0.011902	0	0		C	202626541	C	C	202626541	3	2	156	1	0	0	0	0	1	0	0	0	550	1449	50	3	4999	3	ALS2	2	202626541	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	5749018	202626541	40572832	30	85409											
PTPRN	5798	broad.mit.edu	37	chr2	220168525	220168525	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctcctgagagatcacataCtgggtgaggtcatcgtgcca	10	10	11	10	1	3	3	2	2	1	1	5	4	3	3	2	2	2	0	2	2	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr2:220168525C>G	uc002vkz.2	-	4	398	c.309G>C	c.(307-309)CAG>CAC	p.Q103H	PTPRN_uc010zlc.1_Missense_Mutation_p.Q13H|PTPRN_uc002vla.2_Missense_Mutation_p.Q103H	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	103	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		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)		AGATCACATACTGGGTGAGGT	0.572													4	83					0	0	0.009096	0	0		G	220168525	G	G	220168525	3	3	156	1	0	0	0	0	1	0	0	0	12832	564	20	5	2710	5	PTPRN	2	220168525	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	17541984	220168525	23030848	31	85410											
CPNE9	151835	broad.mit.edu	37	chr3	9746659	9746659	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actatttctttgaggaaaagCaaaatctgcgcttcgatgtg	12	13	9	7	2	2	1	0	1	2	0	3	3	2	2	0	1	2	2	0	1	5	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:9746659C>T	uc003bsd.2	+	4	412	c.241C>T	c.(241-243)CAA>TAA	p.Q81*		NM_153635	NP_705899	Q8IYJ1	CPNE9_HUMAN	copine-like protein	81	C2 1.									ovary(2)	2	Medulloblastoma(99;0.227)					TGAGGAAAAGCAAAATCTGCG	0.602													5	28					0	0	0.014758	0	0		T	9746659	T	T	9746659	4	4	156	1	0	0	0	0	0	1	0	0	3822	711	25	2	255	2	CPNE9	3	9746659	Nonsense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08		9746659	188275771	32	85411											
BRPF1	7862	broad.mit.edu	37	chr3	9788874	9788874	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctgcccaggaccaagctGgttcctctgggtgtgaacca	7	9	13	12	0	1	1	0	1	1	0	2	2	2	2	4	4	3	3	4	4	2	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:9788874G>C	uc003bse.2	+	14	3885	c.3486G>C	c.(3484-3486)CTG>CTC	p.L1162L	BRPF1_uc003bsf.2_Silent_p.L1168L|BRPF1_uc003bsg.2_Silent_p.L1161L|BRPF1_uc011ati.1_Silent_p.L1067L|OGG1_uc003bsh.2_5'Flank|OGG1_uc003bsi.2_5'Flank|OGG1_uc003bsj.2_5'Flank|OGG1_uc003bsk.2_5'Flank|OGG1_uc003bsl.2_5'Flank|OGG1_uc003bsm.2_5'Flank|OGG1_uc003bsn.2_5'Flank|OGG1_uc003bso.2_5'Flank	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	1162	PWWP.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GGACCAAGCTGGTTCCTCTGG	0.522													58	179					0	0	0.01441	0	0		C	9788874	C	C	9788874	2	2	156	1	0	0	0	0	0	0	0	1	1523	1335	47	5		5	BRPF1	3	9788874	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	42215	9788874	188233556	33	85412											
CAPN7	23473	broad.mit.edu	37	chr3	15270563	15270563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttaataagaagttaattaCcgggtaaaaatgtgtctctc	14	15	7	5	1	1	1	0	0	1	1	3	1	1	1	1	1	1	2	1	1	8	6	rs140855092		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:15270563C>T	uc003bzn.2	+	8	1205	c.935C>T	c.(934-936)ACC>ATC	p.T312I		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	312	Calpain catalytic.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						AAGTTAATTACCGGGTAAAAA	0.348													14	314					0	0	0.003163	0	0		T	15270563	T	T	15270563	3	4	156	1	0	0	0	0	1	0	0	0	2634	507	18	4	965	4	CAPN7	3	15270563	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	5481689	15270563	182751867	34	85413											
CTNNB1	1499	broad.mit.edu	37	chr3	41266113	41266113	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctggactctggaatccattCtggtgccactaccacagctc	8	10	8	15	0	2	0	0	0	2	0	4	2	3	2	4	3	3	1	4	3	2	2	rs121913403		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:41266113C>G	uc010hia.1	+	4	266	c.110C>G	c.(109-111)TCT>TGT	p.S37C	CTNNB1_uc003ckp.2_Missense_Mutation_p.S37C|CTNNB1_uc003ckq.2_Missense_Mutation_p.S37C|CTNNB1_uc003ckr.2_Missense_Mutation_p.S37C|CTNNB1_uc011azf.1_Missense_Mutation_p.S30C|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	37			S -> C (in PTR, hepatoblastoma and ovarian cancer).|SG -> W (in hepatocellular carcinoma).|S -> F (in PTR).|S -> A (in MDB and hepatocellular carcinoma; enhances transactivation of target genes).|S -> Y (in hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.S37F(147)|p.S37C(124)|p.A5_A80del(63)|p.S37A(59)|p.S37Y(23)|p.S37P(16)|p.H24_S47del(9)|p.A5_A80>D(7)|p.A5_Q143del(7)|p.Q28_H134del(5)|p.W25_I140del(4)|p.V22_G38del(3)|p.T3_A126del(2)|p.M5_N141>D(2)|p.D32_S47del(2)|p.V22_L139>V(2)|p.A5_Y142>D(2)|p.A5fs*7(2)|p.?(2)|p.L10_N141del(2)|p.D6_A43del(1)|p.E9_S47del(1)|p.Q28_Q61del(1)|p.A20_R151del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.H24_G38del(1)|p.Y30_A97del(1)|p.A20_A80del(1)|p.Q28_A43del(1)|p.E15_I140>V(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.A20_L148del(1)|p.V22_A80del(1)|p.V22_G80>NNNNN(1)|p.GIHS34?(1)|p.A20_Q143del(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.M1_A87del(1)|p.V22_T102del(1)|p.S23_A39del(1)|p.A21_A80del(1)|p.P16_K133del(1)|p.D6_I140del(1)|p.Q28_I140del(1)|p.E9_A80del(1)|p.G34_S37del(1)|p.I35_S37>T(1)|p.I35_K170del(1)|p.M14_S45del(1)|p.M8_G50del(1)|p.A5_G80>(1)|p.S37S(1)|p.S37T(1)|p.V22_S71>A(1)|p.A5_T59del(1)|p.M1_V173del(1)|p.A5_R90del(1)|p.V22_Y64del(1)|p.M8_A80del(1)|p.S33_S37del(1)|p.E9_I140del(1)|p.Y30_T40del(1)|p.M1_T42del(1)|p.S37_G38>W(1)|p.A5_Q143>E(1)|p.I35_G38del(1)|p.H36_E53>L(1)|p.A5_Q72del(1)|p.Y30_A80del(1)|p.D32fs*9(1)|p.S37_A39>S(1)|p.D6_K133del(1)|p.A5_T42del(1)|p.A5_D144>D(1)|p.A5_T40del(1)|p.D17_A126del(1)|p.A5_E54del(1)|p.I35_T41del(1)|p.W25_A80del(1)|p.A20_Q72del(1)|p.A20_S111del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GGAATCCATTCTGGTGCCACT	0.498	S37F(HUTU80_SMALL_INTESTINE)|S37C(SNU398_LIVER)|S37C(JHUEM2_ENDOMETRIUM)	15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				21	39					0	0	0.008871	0	0		G	41266113	G	G	41266113	3	3	156	1	0	0	0	0	1	0	0	0	4019	913	32	5	116	5	CTNNB1	3	41266113	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	25995550	41266113	156756317	35	85414											
ALS2CL	259173	broad.mit.edu	37	chr3	46718164	46718164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagctgcagggccttgggctCccggtgctgcagcagctcct	4	8	14	15	1	0	0	0	0	0	0	2	0	2	0	3	3	6	7	3	3	0	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:46718164C>T	uc003cqa.1	-	18	2186	c.1996G>A	c.(1996-1998)GAG>AAG	p.E666K	ALS2CL_uc003cpx.1_Missense_Mutation_p.E13K|ALS2CL_uc003cpy.1_RNA|ALS2CL_uc003cpz.1_Missense_Mutation_p.E181K|ALS2CL_uc003cqb.1_Missense_Mutation_p.E666K|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	666					endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		GCCTTGGGCTCCCGGTGCTGC	0.637													11	58					0	0	0.00499	0	0		T	46718164	T	T	46718164	3	4	156	1	0	0	0	0	1	0	0	0	551	864	30	4	901	4	ALS2CL	3	46718164	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	5452051	46718164	151304266	36	85415											
DHX30	22907	broad.mit.edu	37	chr3	47888357	47888357	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacaggggacaatgagcgcTtctcccgatactttggtggc	8	9	12	12	2	1	1	0	1	1	0	2	3	1	2	2	4	2	1	2	4	2	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:47888357T>A	uc003cru.2	+	11	2221	c.1795T>A	c.(1795-1797)TTC>ATC	p.F599I	DHX30_uc003crt.2_Missense_Mutation_p.F560I|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	599	Helicase ATP-binding.					mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		CAATGAGCGCTTCTCCCGATA	0.592													7	17					0	0	0.00308	0	0		A	47888357	A	A	47888357	3	1	156	1	0	0	0	0	1	0	0	0	4510	1609	56	5	1840	5	DHX30	3	47888357	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	1170193	47888357	150134073	37	85416											
MITF	4286	broad.mit.edu	37	chr3	69988303	69988303	+	Missense_Mutation	SNP	A	G	G	1	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	agagcgagtgcccaggcatgAacacacattcacgagcgtcc	12	5	11	13	3	1	2	1	1	0	1	2	4	2	2	2	1	4	1	2	1	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:69988303A>G	uc003dnz.2	+	4	753	c.637A>G	c.(637-639)AAC>GAC	p.N213D	MITF_uc011bgb.1_Missense_Mutation_p.N161D|MITF_uc003doa.2_Missense_Mutation_p.N212D|MITF_uc003dob.2_Missense_Mutation_p.N197D|MITF_uc003dod.2_Missense_Mutation_p.N188D|MITF_uc003doe.2_Missense_Mutation_p.N106D|MITF_uc003dof.2_Missense_Mutation_p.N106D	NM_198159	NP_937802	O75030	MITF_HUMAN	microphthalmia-associated transcription factor	213					melanocyte differentiation|multicellular organismal development|protein complex assembly	nucleus|protein complex	DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			ovary(2)	2		Lung NSC(201;0.0384)|Prostate(884;0.0526)		BRCA - Breast invasive adenocarcinoma(55;3.07e-05)|Epithelial(33;0.000138)|LUSC - Lung squamous cell carcinoma(21;0.008)|Lung(16;0.0107)|KIRC - Kidney renal clear cell carcinoma(39;0.204)|Kidney(39;0.239)		CCCAGGCATGAACACACATTC	0.428			A		melanoma 		Waardenburg syndrome type 2|Tietz syndrome						5	57					0	0	0.001168	0	0		G	69988303	G	G	69988303	3	3	156	1	0	0	0	0	1	0	0	0	9614	246	9	3	872	3	MITF	3	69988303	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	22099946	69988303	128034127	38	85417											
MYH15	22989	broad.mit.edu	37	chr3	108195277	108195277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacctctggtaacatattcGttaccaactttgattctagg	10	15	7	9	1	2	2	0	2	2	0	3	2	2	2	2	2	3	2	2	2	5	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:108195277G>A	uc003dxa.1	-	13	1317	c.1260C>T	c.(1258-1260)AAC>AAT	p.N420N		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	420	Myosin head-like.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TAACATATTCGTTACCAACTT	0.358													24	72					0	0	0.01892	0	0		A	108195277	A	A	108195277	2	1	156	1	0	0	0	0	0	0	0	1	10052	1136	40	1		1	MYH15	3	108195277	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	38206974	108195277	89827153	39	85418											
ZBBX	79740	broad.mit.edu	37	chr3	166960346	166960346	+	Silent	SNP	T	G	G	0	1	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	tgtgaggtcttaaggaaatcTgtggaaatctgacttatatt	12	15	10	4	0	3	2	0	2	3	0	3	4	3	4	0	3	0	0	0	3	5	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:166960346T>G	uc003fep.2	-	20	2546	c.2223A>C	c.(2221-2223)ACA>ACC	p.T741T	ZBBX_uc011bpc.1_Silent_p.T780T|ZBBX_uc003feq.2_Silent_p.T712T	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	741						intracellular	zinc ion binding			ovary(2)	2						TAAGGAAATCTGTGGAAATCT	0.358													18	63					0	0	0.008871	0	0		G	166960346	G	G	166960346	2	3	156	1	0	0	0	0	0	0	0	1	17542	1567	55	5		5	ZBBX	3	166960346	Silent	SNP	T	TCGA-CG-5727-01A-11D-1600-08	58765069	166960346	31062084	40	85419											
KLHL24	54800	broad.mit.edu	37	chr3	183368270	183368270	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatgagttttttgacttCtcttcaggatcatcccatgc	7	16	8	10	0	4	2	3	2	1	0	6	3	5	3	1	2	1	1	1	2	0	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:183368270C>A	uc003flv.2	+	3	421	c.126C>A	c.(124-126)TTC>TTA	p.F42L	KLHL24_uc003flw.2_Missense_Mutation_p.F42L|KLHL24_uc003flx.2_Missense_Mutation_p.F42L	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	42						axon|cytoplasm|perikaryon				ovary(1)	1	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)			TTTTTGACTTCTCTTCAGGAT	0.408													10	275					1.08611e-07	1.1331e-07	0.010729	1	0		A	183368270	A	A	183368270	3	1	156	1	0	0	0	0	1	0	0	0	8395	912	32	5	128	5	KLHL24	3	183368270	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	16407924	183368270	14654160	41	85420											
EIF4A2	1974	broad.mit.edu	37	chr3	186504980	186504980	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattacacaggctgttatttTtctcaatacgaggcgcaagg	11	12	9	9	2	1	0	1	0	1	0	2	1	1	0	0	3	2	3	0	3	5	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr3:186504980T>C	uc003fqs.2	+	8	875	c.836T>C	c.(835-837)TTT>TCT	p.F279S	EIF4A2_uc003fqt.2_RNA|EIF4A2_uc003fqu.2_Missense_Mutation_p.F280S|EIF4A2_uc003fqv.2_Missense_Mutation_p.F184S|EIF4A2_uc003fqw.2_Missense_Mutation_p.F184S|EIF4A2_uc011bsb.1_Missense_Mutation_p.F152S|SNORA63_uc010hyw.1_5'Flank|SNORA4_uc010hyx.1_5'Flank	NM_001967	NP_001958	Q14240	IF4A2_HUMAN	eukaryotic translation initiation factor 4A2	279	Helicase C-terminal.				interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|protein binding|translation initiation factor activity			ovary(2)|breast(2)	4	all_cancers(143;2.68e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.07e-20)	GBM - Glioblastoma multiforme(93;0.0704)		GCTGTTATTTTTCTCAATACG	0.413			T	BCL6	NHL								80	124					0	0	0.01441	0	0		C	186504980	C	C	186504980	3	2	156	1	0	0	0	0	1	0	0	0	5033	1841	64	3	866	3	EIF4A2	3	186504980	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	3136710	186504980	11517450	42	85421											
UGDH	7358	broad.mit.edu	37	chr4	39505505	39505505	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgattacctggaagccaAtggtttgtagttcattgtgg	9	15	11	6	0	2	1	2	1	0	0	2	2	2	2	2	3	2	3	2	3	4	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:39505505A>G	uc003guk.1	-	11	1680	c.1364T>C	c.(1363-1365)ATT>ACT	p.I455T	UGDH_uc011byp.1_Missense_Mutation_p.I358T|UGDH_uc003gul.1_Missense_Mutation_p.I388T	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase	455					glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	CTGGAAGCCAATGGTTTGTAG	0.308													17	64					0	0	0.007413	0	0		G	39505505	G	G	39505505	3	3	156	1	0	0	0	0	1	0	0	0	16966	101	4	3	128	3	UGDH	4	39505505	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08		39505505	151648771	43	85422											
RBM47	54502	broad.mit.edu	37	chr4	40439969	40439969	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtccacgggcttggccagCgtgacctccaggcacgagcc	6	7	13	15	3	0	1	0	1	0	0	2	2	2	1	5	3	2	2	5	3	0	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:40439969C>T	uc003gvc.2	-	4	1652	c.942G>A	c.(940-942)ACG>ACA	p.T314T	RBM47_uc003gvd.2_Silent_p.T314T|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Silent_p.T276T|RBM47_uc003gvg.1_Silent_p.T314T	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	314	RRM 3.					nucleus	nucleotide binding|RNA binding			breast(3)	3						GCTTGGCCAGCGTGACCTCCA	0.662													26	44					0	0	0.004656	0	0		T	40439969	T	T	40439969	2	4	156	1	0	0	0	0	0	0	0	1	13166	755	27	1		1	RBM47	4	40439969	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	934464	40439969	150714307	44	85423											
EPHA5	2044	broad.mit.edu	37	chr4	66509144	66509144	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgtgaatccaataaattCactgaaaagaaaagaacaaa	21	7	7	6	1	1	4	1	2	0	2	2	4	2	4	1	0	2	0	1	0	10	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:66509144C>A	uc003hcy.2	-	2	376	c.183G>T	c.(181-183)GTG>GTT	p.V61V	EPHA5_uc003hcx.2_5'UTR|EPHA5_uc003hcz.2_Silent_p.V61V|EPHA5_uc011cah.1_Silent_p.V61V|EPHA5_uc011cai.1_Silent_p.V61V|EPHA5_uc003hda.2_Silent_p.V61V	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	61	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CCAATAAATTCACTGAAAAGA	0.294										TSP Lung(17;0.13)			19	78					7.41877e-09	7.93041e-09	0.012319	1	0		A	66509144	A	A	66509144	2	1	156	1	0	0	0	0	0	0	0	1	5178	840	29	5		5	EPHA5	4	66509144	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	26069175	66509144	124645132	45	85424											
C4orf26	152816	broad.mit.edu	37	chr4	76489343	76489343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacaagaagaggtatttacGcctcctggagattcacaaaa	15	8	10	8	1	1	3	1	0	0	3	2	5	2	4	2	3	1	1	2	3	6	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:76489343G>A	uc003hip.1	+	2	122	c.87G>A	c.(85-87)ACG>ACA	p.T29T	C4orf26_uc011cbn.1_RNA|C4orf26_uc011cbo.1_Missense_Mutation_p.R44H	NM_178497	NP_848592	Q17RF5	CD026_HUMAN	hypothetical protein LOC152816 precursor	29						extracellular region					0			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			AGGTATTTACGCCTCCTGGAG	0.532													30	96					0	0	0.008361	0	0		A	76489343	A	A	76489343	2	1	156	1	0	0	0	0	0	0	0	1	2260	1074	38	1		1	C4orf26	4	76489343	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	9980199	76489343	114664933	46	85425											
FAT4	79633	broad.mit.edu	37	chr4	126372210	126372210	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagtcgaaagaagggtttcCagatcaataagaagactgga	17	8	11	5	1	1	4	1	0	0	4	3	6	2	5	1	2	0	1	1	2	6	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:126372210C>A	uc003ifj.3	+	9	10039	c.10039C>A	c.(10039-10041)CAG>AAG	p.Q3347K	FAT4_uc011cgp.1_Missense_Mutation_p.Q1645K|FAT4_uc003ifi.1_Missense_Mutation_p.Q825K	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3347	Cadherin 32.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAAGGGTTTCCAGATCAATAA	0.408													93	118					5.48297e-45	6.5735e-45	0.01441	1	0		A	126372210	A	A	126372210	3	1	156	1	0	0	0	0	1	0	0	0	5706	595	21	5	10073	5	FAT4	4	126372210	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	49882867	126372210	64782066	47	85426											
FAT4	79633	broad.mit.edu	37	chr4	126411351	126411351	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgcccagactcgcacacGggaaggacctgtgagatggt	10	6	14	11	2	0	2	0	1	0	2	1	5	0	4	2	3	2	2	2	3	1	0	rs146914959		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:126411351G>A	uc003ifj.3	+	17	13374	c.13374G>A	c.(13372-13374)ACG>ACA	p.T4458T	FAT4_uc011cgp.1_Silent_p.T2699T|FAT4_uc003ifi.1_Silent_p.T1935T	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4458	EGF-like 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACTCGCACACGGGAAGGACCT	0.627													32	72					0	0	0.012213	0	0		A	126411351	A	A	126411351	2	1	156	1	0	0	0	0	0	0	0	1	5706	1103	39	1		1	FAT4	4	126411351	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	39141	126411351	64742925	48	85427											
GLRB	2743	broad.mit.edu	37	chr4	158060076	158060076	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagatattgaatatggtaaCtgtacaaaatactataaagg	19	11	8	3	0	0	2	0	1	0	1	0	3	0	2	0	2	3	2	0	2	12	8			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:158060076C>A	uc003ipj.2	+	7	928	c.726C>A	c.(724-726)AAC>AAA	p.N242K		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	242	Extracellular (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	AATATGGTAACTGTACAAAAT	0.308													7	104					2.7689e-08	2.91675e-08	0.001984	1	0		A	158060076	A	A	158060076	3	1	156	1	0	0	0	0	1	0	0	0	6473	564	20	5	748	5	GLRB	4	158060076	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	31648725	158060076	33094200	49	85428											
MARCH1	55016	broad.mit.edu	37	chr4	164506905	164506905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatggatactgtaccttcCggaggggtttgagcttggtc	6	13	13	9	1	0	1	0	1	0	0	2	3	1	3	3	5	3	3	3	5	3	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr4:164506905C>T	uc003iqs.1	-	6	1396	c.419G>A	c.(418-420)CGG>CAG	p.R140Q	MARCH1_uc003iqr.1_Missense_Mutation_p.R123Q	NM_017923	NP_060393	Q8TCQ1	MARH1_HUMAN	membrane-associated RING-CH protein I	140					antigen processing and presentation of peptide antigen via MHC class II|immune response	cytoplasmic vesicle membrane|early endosome membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|plasma membrane	MHC protein binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				CTGTACCTTCCGGAGGGGTTT	0.453													9	154					0	0	0.006214	0	0		T	164506905	T	T	164506905	3	4	156	1	0	0	0	0	1	0	0	0	9316	652	23	1	462	1	MARCH1	4	164506905	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	6446829	164506905	26647371	50	85429											
SDHA	6389	broad.mit.edu	37	chr5	256491	256491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatcgacaaaactttgaacGaggctgactgtgccaccgtc	11	9	10	11	3	0	3	0	3	0	0	2	5	0	3	2	1	3	1	2	1	3	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:256491G>A	uc003jao.3	+	15	2066	c.1951G>A	c.(1951-1953)GAG>AAG	p.E651K	SDHA_uc011clw.1_Missense_Mutation_p.E603K|SDHA_uc003jap.3_Missense_Mutation_p.E570K|SDHA_uc003jaq.3_Missense_Mutation_p.E426K|SDHA_uc003jar.3_Missense_Mutation_p.E245K	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	651					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	AACTTTGAACGAGGCTGACTG	0.428									Familial_Paragangliomas				26	95					0	0	0.005443	0	0		A	256491	A	A	256491	3	1	156	1	0	0	0	0	1	0	0	0	13988	1059	37	1	2009	1	SDHA	5	256491	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08		256491	180658769	51	85430											
SV2C	22987	broad.mit.edu	37	chr5	75587088	75587088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacaaatagatgagctgattGaaattgagagtgacacagga	18	8	11	4	0	0	6	0	5	0	2	0	8	0	7	0	1	2	1	0	1	4	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:75587088G>A	uc003kei.1	+	7	1314	c.1180G>A	c.(1180-1182)GAA>AAA	p.E394K		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	394	Cytoplasmic (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		TGAGCTGATTGAAATTGAGAG	0.423													4	64					0	0	0.009096	0	0		A	75587088	A	A	75587088	3	1	156	1	0	0	0	0	1	0	0	0	15444	1291	45	4	1202	4	SV2C	5	75587088	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	75330597	75587088	105328172	52	85431											
YTHDC2	64848	broad.mit.edu	37	chr5	112868662	112868662	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagacgattggcagctatCgctgtggctgaaagagttgc	10	9	13	9	2	0	3	0	1	0	2	1	4	0	3	1	2	2	5	1	2	3	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:112868662C>T	uc003kqn.2	+	5	945	c.762C>T	c.(760-762)ATC>ATT	p.I254I	YTHDC2_uc010jce.1_Silent_p.I254I|YTHDC2_uc010jcf.1_5'UTR	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	254	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		TGGCAGCTATCGCTGTGGCTG	0.408													34	137					0	0	0.006999	0	0		T	112868662	T	T	112868662	2	4	156	1	0	0	0	0	0	0	0	1	17523	874	31	1		1	YTHDC2	5	112868662	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	37281574	112868662	68046598	53	85432											
TCF7	6932	broad.mit.edu	37	chr5	133478792	133478792	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagcgcgggacaactacGtgagtgcctagtgacacaca	11	6	13	11	3	1	2	1	2	0	0	1	3	1	3	1	2	4	0	1	2	3	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:133478792G>A	uc003kyt.2	+	8	1222	c.1026_splice	c.e8+1	p.Y342_splice	TCF7_uc003kyu.1_Splice_Site_p.Y227_splice|TCF7_uc003kyv.2_Splice_Site_p.Y227_splice|TCF7_uc003kyw.2_Splice_Site_p.Y227_splice|TCF7_uc003kyx.2_Splice_Site_p.Y140_splice|TCF7_uc003kyy.2_Splice_Site_p.Y227_splice|TCF7_uc003kyz.2_Splice_Site_p.Y227_splice|TCF7_uc003kza.2_Splice_Site_p.Y227_splice|TCF7_uc003kzb.2_Splice_Site_p.Y156_splice|TCF7_uc010jdu.2_5'Flank	NM_003202	NP_003193	P36402	TCF7_HUMAN	transcription factor 7 (T-cell specific,						cellular response to interleukin-4|immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription regulatory region DNA binding				0		Breast(839;0.058)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGACAACTACGTGAGTGCCTA	0.587													4	6					0	0	0.009096	0	0		A	133478792	A	A	133478792	5	1	156	1	0	0	0	0	0	0	1	0	15721	1159	40	1	1057	1	TCF7	5	133478792	Splice_Site	SNP	G	TCGA-CG-5727-01A-11D-1600-08	20610130	133478792	47436468	54	85433											
PCDHA9	9752	broad.mit.edu	37	chr5	140229470	140229470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccgagtacacggtgttcGtgaaggagaacaacccgccg	11	6	13	11	5	0	2	0	1	0	1	2	4	1	2	3	2	3	2	3	2	4	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:140229470G>A	uc003lhu.2	+	1	2114	c.1390G>A	c.(1390-1392)GTG>ATG	p.V464M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.V464M	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	464	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACGGTGTTCGTGAAGGAGAA	0.662													22	91					0	0	0.014323	0	0		A	140229470	A	A	140229470	3	1	156	1	0	0	0	0	1	0	0	0	11550	1145	40	1	1392	1	PCDHA9	5	140229470	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	6750678	140229470	40685790	55	85434											
PCDHA12	56137	broad.mit.edu	37	chr5	140256833	140256833	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgcgggccacgtggtggcGaaagtgcgcgcggtggacgc	5	5	21	10	7	0	0	0	0	0	0	0	2	0	1	1	6	2	0	1	6	1	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:140256833G>A	uc003lic.2	+	1	1903	c.1776G>A	c.(1774-1776)GCG>GCA	p.A592A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.A592A	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	592	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGTGGTGGCGAAAGTGCGCG	0.697													12	60					0	0	0.013537	0	0		A	140256833	A	A	140256833	2	1	156	1	0	0	0	0	0	0	0	1	11541	1045	37	1		1	PCDHA12	5	140256833	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	27363	140256833	40658427	56	85435											
PCDHB13	56123	broad.mit.edu	37	chr5	140595315	140595315	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagaccacggctccccggcGctgagcagcgaggcgctggt	6	5	15	15	5	1	2	1	1	0	1	2	3	2	2	3	4	2	4	3	4	0	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:140595315G>A	uc003lja.1	+	1	1807	c.1620G>A	c.(1618-1620)GCG>GCA	p.A540A		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	540	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCCCCGGCGCTGAGCAGCG	0.697													13	47					0	0	0.013537	0	0		A	140595315	A	A	140595315	2	1	156	1	0	0	0	0	0	0	0	1	11557	1074	38	1		1	PCDHB13	5	140595315	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	338482	140595315	40319945	57	85436											
FGF1	2246	broad.mit.edu	37	chr5	141993608	141993608	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccgttgctacagtagaGgagtttgggcttcttgtaat	7	13	12	9	1	1	1	0	0	1	1	1	2	1	2	2	2	2	6	2	2	3	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:141993608G>T	uc003lmm.2	-	2	165	c.85C>A	c.(85-87)CTC>ATC	p.L29I	FGF1_uc011dbi.1_Missense_Mutation_p.L29I|FGF1_uc003lmn.3_Missense_Mutation_p.L29I|FGF1_uc003lmp.3_Missense_Mutation_p.L29I|FGF1_uc003lmq.2_Missense_Mutation_p.L29I|FGF1_uc010jgj.2_Missense_Mutation_p.L29I|FGF1_uc003lmr.2_Missense_Mutation_p.L29I|FGF1_uc003lms.3_Missense_Mutation_p.L29I	NM_001144892	NP_001138364	P05230	FGF1_HUMAN	fibroblast growth factor 1 (acidic) isoform 1	29					angiogenesis|cellular response to heat|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of angiogenesis|positive regulation of cell division|positive regulation of cell migration|positive regulation of cholesterol biosynthetic process|positive regulation of intracellular protein kinase cascade|positive regulation of transcription from RNA polymerase II promoter	cell cortex|cytosol|extracellular space	fibroblast growth factor receptor binding|growth factor activity|heparin binding|S100 alpha binding				0		all_neural(839;0.0416)|Ovarian(839;0.0955)|all_hematologic(541;0.1)|Prostate(461;0.157)|Lung NSC(810;0.21)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.00032)	Pentosan Polysulfate(DB00686)	CTACAGTAGAGGAGTTTGGGC	0.552													23	119					8.04996e-18	9.14576e-18	0.012319	1	0		T	141993608	T	T	141993608	3	4	156	1	0	0	0	0	1	0	0	0	5852	1000	35	5	394	5	FGF1	5	141993608	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	1398293	141993608	38921652	58	85437											
FAT2	2196	broad.mit.edu	37	chr5	150891882	150891882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tagagcctcttcgttgaccaCgacagcatccaggcagcctt	9	9	9	14	2	1	2	0	1	1	1	3	3	2	2	4	1	3	3	4	1	1	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:150891882C>T	uc003lue.3	-	20	11762	c.11749G>A	c.(11749-11751)GTG>ATG	p.V3917M	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.V524M	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3917	Extracellular (Potential).|Laminin G-like.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCGTTGACCACGACAGCATCC	0.592													24	117					0	0	0.021523	0	0		T	150891882	T	T	150891882	3	4	156	1	0	0	0	0	1	0	0	0	5704	536	19	1	1316	1	FAT2	5	150891882	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	8898274	150891882	30023378	59	85438											
SLIT3	6586	broad.mit.edu	37	chr5	168175345	168175345	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatgcctctggggagggcGcggagccccttgttgctgca	4	8	17	12	2	1	0	0	0	1	0	1	2	1	2	3	5	4	4	3	5	0	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:168175345G>A	uc003mab.2	-	20	2652	c.2232C>T	c.(2230-2232)CGC>CGT	p.R744R	SLIT3_uc010jjg.2_Silent_p.R744R	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	744	LRRNT 4.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGGGGAGGGCGCGGAGCCCCT	0.632													34	117					0	0	0.013726	0	0		A	168175345	A	A	168175345	2	1	156	1	0	0	0	0	0	0	0	1	14766	1074	38	1		1	SLIT3	5	168175345	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	17283463	168175345	12739915	60	85439											
GFPT2	9945	broad.mit.edu	37	chr5	179763495	179763495	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttactgtaaagttcttcatcGagagccttgactttccccct	8	15	6	12	1	2	2	1	1	1	1	4	3	3	2	3	0	2	2	3	0	3	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr5:179763495G>A	uc003mlw.1	-	3	296	c.198C>T	c.(196-198)CTC>CTT	p.L66L		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	66	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	GTTCTTCATCGAGAGCCTTGA	0.522													128	253					0	0	0.01441	0	0		A	179763495	A	A	179763495	2	1	156	1	0	0	0	0	0	0	0	1	6361	1045	37	1		1	GFPT2	5	179763495	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	11588150	179763495	1151765	61	85440											
KIAA0319	9856	broad.mit.edu	37	chr6	24559301	24559301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccttctcctttgagagccGcatgtgcagatttcgggcca	7	11	11	12	2	1	2	0	1	1	2	3	3	1	2	4	1	3	2	4	1	0	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:24559301G>A	uc011djo.1	-	17	2911	c.2674C>T	c.(2674-2676)CGG>TGG	p.R892W	KIAA0319_uc011djp.1_Missense_Mutation_p.R847W|KIAA0319_uc003neh.1_Missense_Mutation_p.R892W|KIAA0319_uc011djq.1_Missense_Mutation_p.R883W|KIAA0319_uc011djr.1_Missense_Mutation_p.R892W|KIAA0319_uc010jpt.1_Missense_Mutation_p.R303W	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	892	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						TTTGAGAGCCGCATGTGCAGA	0.473													3	21					0	0	0.004672	0	0		A	24559301	A	A	24559301	3	1	156	1	0	0	0	0	1	0	0	0	8184	1086	38	1	564	1	KIAA0319	6	24559301	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08		24559301	146555766	62	85441											
DST	667	broad.mit.edu	37	chr6	56462620	56462620	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtctccaacaggttaccaTtaacttcatcctcttctcca	10	13	3	15	0	4	0	1	0	3	0	7	0	5	0	4	1	3	1	4	1	3	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:56462620T>C	uc003pdf.2	-	41	5784	c.5756A>G	c.(5755-5757)AAT>AGT	p.N1919S	DST_uc003pcz.3_Missense_Mutation_p.N1741S|DST_uc011dxj.1_Missense_Mutation_p.N1770S|DST_uc011dxk.1_Missense_Mutation_p.N1781S|DST_uc003pcy.3_Missense_Mutation_p.N1415S|DST_uc010kaa.1_RNA	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	3827					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CAGGTTACCATTAACTTCATC	0.423													75	136					0	0	0.01441	0	0		C	56462620	C	C	56462620	3	2	156	1	0	0	0	0	1	0	0	0	4789	1493	52	3	11499	3	DST	6	56462620	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	31903319	56462620	114652447	63	85442											
KIAA1586	57691	broad.mit.edu	37	chr6	56919487	56919487	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttaacaatagatcatgtAtcagatttaatgacaataaa	19	13	5	4	0	2	3	2	1	0	2	2	3	2	3	0	0	1	2	0	0	8	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:56919487A>T	uc003pdj.2	+	4	2360	c.2190A>T	c.(2188-2190)GTA>GTT	p.V730V	KIAA1586_uc011dxm.1_Silent_p.V703V	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	730							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			tagatcatgtatcagatttaa	0.085													4	4					0	0	0.009096	0	0		T	56919487	T	T	56919487	2	4	156	1	0	0	0	0	0	0	0	1	8261	436	16	5		5	KIAA1586	6	56919487	Silent	SNP	A	TCGA-CG-5727-01A-11D-1600-08	456867	56919487	114195580	64	85443											
COL12A1	1303	broad.mit.edu	37	chr6	75797371	75797371	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacctgggggtcctcGgatacctgagtttccaggac	8	8	15	10	1	0	1	0	1	0	0	3	5	2	5	4	6	1	1	4	6	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:75797371G>A	uc003phs.2	-	65	9269	c.9103C>T	c.(9103-9105)CGA>TGA	p.R3035*	COL12A1_uc003pht.2_Nonsense_Mutation_p.R1871*	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	3035	Triple-helical region (COL1) with 2 imperfections.			R -> Q (in Ref. 1; AAC51244).	cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GGGGGTCCTCGGATACCTGAG	0.572													69	75					0	0	0.01441	0	0		A	75797371	A	A	75797371	4	1	156	1	0	0	0	0	0	1	0	0	3672	1124	39	1	96	1	COL12A1	6	75797371	Nonsense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	18877884	75797371	95317696	65	85444											
TTK	7272	broad.mit.edu	37	chr6	80745071	80745071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaagaaaaaatccattgatCcatgggaacgcaagagttac	19	7	8	7	1	0	3	0	1	0	2	2	4	2	4	2	1	2	2	2	1	8	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:80745071C>T	uc003pjc.2	+	16	1935	c.1861C>T	c.(1861-1863)CCA>TCA	p.P621S	TTK_uc003pjb.3_Missense_Mutation_p.P620S	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	621	Protein kinase.				mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.T621R(1)		ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		ATCCATTGATCCATGGGAACG	0.328													42	132					0	0	0.009718	0	0		T	80745071	T	T	80745071	3	4	156	1	0	0	0	0	1	0	0	0	16746	855	30	4	1919	4	TTK	6	80745071	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	4947700	80745071	90369996	66	85445											
CYB5R4	51167	broad.mit.edu	37	chr6	84646074	84646074	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccactggactcttcacaccaGagcttgatcgtcttcagatt	9	12	7	13	1	4	3	2	1	2	2	5	4	4	4	2	1	1	1	2	1	0	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:84646074G>C	uc003pkf.2	+	12	1219	c.1087G>C	c.(1087-1089)GAG>CAG	p.E363Q		NM_016230	NP_057314	Q7L1T6	NB5R4_HUMAN	cytochrome b5 reductase 4	363	FAD-binding FR-type.				cell development|detection of oxygen|generation of precursor metabolites and energy|glucose homeostasis|insulin secretion|response to antibiotic|superoxide metabolic process	endoplasmic reticulum|perinuclear region of cytoplasm	cytochrome-b5 reductase activity|heme binding|NAD(P)H oxidase activity			breast(2)	2		all_cancers(76;7e-07)|Acute lymphoblastic leukemia(125;2.69e-07)|all_hematologic(105;0.000151)|all_epithelial(107;0.00128)		BRCA - Breast invasive adenocarcinoma(397;0.0871)		CTTCACACCAGAGCTTGATCG	0.259													19	91					0	0	0.010504	0	0		C	84646074	C	C	84646074	3	2	156	1	0	0	0	0	1	0	0	0	4132	943	33	5	1133	5	CYB5R4	6	84646074	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	3901003	84646074	86468993	67	85446											
NCOA7	135112	broad.mit.edu	37	chr6	126249822	126249822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagatgctgatttataccacGgacgaagcaactcttgcagc	12	10	9	10	2	1	2	0	1	1	1	1	4	1	3	1	1	6	3	1	1	5	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:126249822G>A	uc010kes.2	+	18	3183	c.2734G>A	c.(2734-2736)GGA>AGA	p.G912R	NCOA7_uc003qae.3_Missense_Mutation_p.G912R|NCOA7_uc003qah.2_Missense_Mutation_p.G901R|NCOA7_uc003qai.2_Missense_Mutation_p.G912R|NCOA7_uc010ket.2_Missense_Mutation_p.G797R|NCOA7_uc003qak.2_Missense_Mutation_p.G189R	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	912	TLD.				cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		TTTATACCACGGACGAAGCAA	0.358													32	180					0	0	0.012213	0	0		A	126249822	A	A	126249822	3	1	156	1	0	0	0	0	1	0	0	0	10253	1117	39	1	2792	1	NCOA7	6	126249822	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	41603748	126249822	44865245	68	85447											
PERP	64065	broad.mit.edu	37	chr6	138413398	138413398	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	attaccagggagatgatctgGaacacagctaaagggaagaa	17	6	12	6	0	1	3	0	1	1	2	1	6	1	5	1	3	3	1	1	3	6	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:138413398G>C	uc003qht.2	-	3	546	c.363C>G	c.(361-363)TTC>TTG	p.F121L		NM_022121	NP_071404	Q96FX8	PERP_HUMAN	PERP, TP53 apoptosis effector	121	Helical; (Potential).				apoptosis|cell adhesion	desmosome|Golgi apparatus|integral to membrane|nucleus					0	Breast(32;0.0799)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000878)|OV - Ovarian serous cystadenocarcinoma(155;0.000997)		AGATGATCTGGAACACAGCTA	0.453													11	64					0	0	0.010729	0	0		C	138413398	C	C	138413398	3	2	156	1	0	0	0	0	1	0	0	0	11751	1165	41	5	222	5	PERP	6	138413398	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	12163576	138413398	32701669	69	85448											
SNX9	51429	broad.mit.edu	37	chr6	158296134	158296134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgtggaaattcagtggctGaccaagccttccttgattct	8	14	9	10	0	2	2	1	2	1	0	3	3	3	3	3	2	1	1	3	2	2	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:158296134G>A	uc003qqv.1	+	4	399	c.226G>A	c.(226-228)GAC>AAC	p.D76N		NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	sorting nexin 9	76					cell communication|intracellular protein transport|lipid tube assembly|positive regulation of GTPase activity|positive regulation of protein oligomerization|receptor-mediated endocytosis	clathrin-coated vesicle|cytoplasmic vesicle membrane|extrinsic to internal side of plasma membrane|ruffle|trans-Golgi network	1-phosphatidylinositol binding|protein homodimerization activity|ubiquitin protein ligase binding				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.167)		OV - Ovarian serous cystadenocarcinoma(65;8.06e-18)|BRCA - Breast invasive adenocarcinoma(81;4.48e-05)		TTCAGTGGCTGACCAAGCCTT	0.463													25	75					0	0	0.004656	0	0		A	158296134	A	A	158296134	3	1	156	1	0	0	0	0	1	0	0	0	14934	1290	45	4	240	4	SNX9	6	158296134	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	19882736	158296134	12818933	70	85449											
IGF2R	3482	broad.mit.edu	37	chr6	160526045	160526045	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagtccagctctgcacagCagaagacagtgagctccacc	12	5	11	13	0	1	3	0	1	1	2	3	4	3	4	3	1	4	4	3	1	2	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr6:160526045C>T	uc003qta.2	+	48	7553	c.7405C>T	c.(7405-7407)CAG>TAG	p.Q2469*		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	2469	Cytoplasmic (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		CTCTGCACAGCAGAAGACAGT	0.597													18	20					0	0	0.006122	0	0		T	160526045	T	T	160526045	4	4	156	1	0	0	0	0	0	1	0	0	7592	711	25	2	7595	2	IGF2R	6	160526045	Nonsense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	2229911	160526045	10589022	71	85450											
DNAH11	8701	broad.mit.edu	37	chr7	21598554	21598554	+	Silent	SNP	T	G	G	0	1	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	ggcaaaatgtctagaagaacTcttctaccaattcccactgt	13	11	6	11	0	3	2	0	0	3	2	4	2	4	2	2	1	2	1	2	1	7	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:21598554T>G	uc003svc.2	+	3	661	c.630T>G	c.(628-630)ACT>ACG	p.T210T		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	210	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTAGAAGAACTCTTCTACCAA	0.348									Kartagener_syndrome				25	14					0	0	0.01892	0	0		G	21598554	G	G	21598554	2	3	156	1	0	0	0	0	0	0	0	1	4605	1538	54	5		5	DNAH11	7	21598554	Silent	SNP	T	TCGA-CG-5727-01A-11D-1600-08		21598554	137540109	72	85451											
TRIM50	135892	broad.mit.edu	37	chr7	72734221	72734221	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctgcttcagctcagaGatgagggctgcgagctcctc	6	10	12	13	1	2	2	2	1	0	1	5	4	4	2	2	1	5	5	2	1	0	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:72734221G>T	uc010lbd.1	-	3	545	c.420C>A	c.(418-420)ATC>ATA	p.I140I	FKBP6_uc003twz.2_Intron|TRIM50_uc003txy.1_Silent_p.I140I|TRIM50_uc003txz.1_Silent_p.I140I	NM_178125	NP_835226	Q86XT4	TRI50_HUMAN	tripartite motif protein 50A	140	Potential.					cytoplasm|intracellular membrane-bounded organelle	ligase activity|zinc ion binding			skin(1)	1						TCAGCTCAGAGATGAGGGCTG	0.587													32	176					7.11191e-15	7.95507e-15	0.013726	1	0		T	72734221	T	T	72734221	2	4	156	1	0	0	0	0	0	0	0	1	16552	932	33	5		5	TRIM50	7	72734221	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	51135667	72734221	86404442	73	85452											
PCLO	27445	broad.mit.edu	37	chr7	82544530	82544530	+	Missense_Mutation	SNP	A	G	G	1	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	cagtcctgtgccaagagaagAtcccataaatttttgttggt	11	13	9	8	0	0	2	0	0	0	2	2	3	2	2	3	1	1	1	3	1	4	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:82544530A>G	uc003uhx.2	-	7	13061	c.12772T>C	c.(12772-12774)TCT>CCT	p.S4258P	PCLO_uc003uhv.2_Missense_Mutation_p.S4258P|PCLO_uc010lec.2_Missense_Mutation_p.S1223P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4189					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCAAGAGAAGATCCCATAAAT	0.438													7	59					0	0	0.001984	0	0		G	82544530	G	G	82544530	3	3	156	1	0	0	0	0	1	0	0	0	11602	333	12	3	2749	3	PCLO	7	82544530	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	9810309	82544530	76594133	74	85453											
ABCB4	5244	broad.mit.edu	37	chr7	87074291	87074291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattaggattgaaaaaaaaaCctgagcaaaataacatgagg	22	7	8	4	0	0	3	0	3	0	0	0	4	0	4	1	2	3	1	1	2	9	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:87074291C>A	uc003uiv.1	-	10	1082	c.1006G>T	c.(1006-1008)GTT>TTT	p.V336F	ABCB4_uc003uiw.1_Missense_Mutation_p.V336F|ABCB4_uc003uix.1_Missense_Mutation_p.V336F	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	336	Helical; (By similarity).|ABC transmembrane type-1 1.				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					GAAAAAAAAACCTGAGCAAAA	0.353													31	40					1.61788e-16	1.82854e-16	0.012213	1	0		A	87074291	A	A	87074291	3	1	156	1	0	0	0	0	1	0	0	0	43	521	18	5	2930	5	ABCB4	7	87074291	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	4529761	87074291	72064372	75	85454											
ABCB1	5243	broad.mit.edu	37	chr7	87174159	87174159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagcctctttggtactaaGctttctgtcttgggcttgtg	5	16	11	9	0	3	1	0	0	3	1	3	1	3	1	1	2	3	3	1	2	2	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:87174159G>A	uc003uiz.1	-	17	2462	c.2044C>T	c.(2044-2046)CTT>TTT	p.L682F	ABCB1_uc011khc.1_Missense_Mutation_p.L618F	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	682	Cytoplasmic (Potential).				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	TTGGTACTAAGCTTTCTGTCT	0.443													235	164					0	0	0.01441	0	0		A	87174159	A	A	87174159	3	1	156	1	0	0	0	0	1	0	0	0	40	971	34	2	1850	2	ABCB1	7	87174159	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	99868	87174159	71964504	76	85455											
KCND2	3751	broad.mit.edu	37	chr7	120387763	120387763	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttaaatgccaaaatggaaGagtgtgttaaactaaactgt	16	12	9	4	0	0	1	0	0	0	1	0	2	0	2	1	1	3	2	1	1	9	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:120387763G>T	uc003vjj.1	+	6	2709	c.1744G>T	c.(1744-1746)GAG>TAG	p.E582*		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	582	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CAAAATGGAAGAGTGTGTTAA	0.353													45	99					8.94452e-30	1.04917e-29	0.01441	1	0		T	120387763	T	T	120387763	4	4	156	1	0	0	0	0	0	1	0	0	8035	943	33	5	1766	5	KCND2	7	120387763	Nonsense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	33213604	120387763	38750900	77	85456											
SMO	6608	broad.mit.edu	37	chr7	128846389	128846389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcgtgctggccccaatcGgcctggtgctcatcgtggga	4	10	14	13	3	1	0	1	0	0	0	4	1	1	1	3	4	2	3	3	4	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:128846389G>A	uc003vor.2	+	6	1505	c.1225G>A	c.(1225-1227)GGC>AGC	p.G409S	SMO_uc003vos.2_Missense_Mutation_p.G84S	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	409	Helical; Name=5; (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						GGCCCCAATCGGCCTGGTGCT	0.577			Mis		skin basal cell 								279	165					0	0	0.01441	0	0		A	128846389	A	A	128846389	3	1	156	1	0	0	0	0	1	0	0	0	14825	1116	39	1	1247	1	SMO	7	128846389	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	8458626	128846389	30292274	78	85457											
CNTNAP2	26047	broad.mit.edu	37	chr7	147844745	147844745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctaccgcagcagatccGcaaggccccaacagaaggcc	11	2	11	17	3	0	2	0	0	0	2	1	2	1	2	6	3	3	4	6	3	4	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:147844745G>A	uc003weu.1	+	17	3233	c.2717G>A	c.(2716-2718)CGC>CAC	p.R906H		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	906	Laminin G-like 3.|Extracellular (Potential).		R -> H.		behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CAGCAGATCCGCAAGGCCCCA	0.557										HNSCC(39;0.1)			40	39					0	0	0.01441	0	0		A	147844745	A	A	147844745	3	1	156	1	0	0	0	0	1	0	0	0	3650	1087	38	1	2783	1	CNTNAP2	7	147844745	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	18998356	147844745	11293918	79	85458											
ZNF746	155061	broad.mit.edu	37	chr7	149191094	149191094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacccagggagaccagcGtctcgtagttgcccctcatc	7	9	9	16	2	2	1	1	0	1	1	4	2	2	1	5	1	3	2	5	1	2	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr7:149191094G>A	uc003wfw.2	-	3	663	c.392C>T	c.(391-393)ACG>ATG	p.T131M	ZNF746_uc010lpi.2_Missense_Mutation_p.T131M	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	131	KRAB.				negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GGAGACCAGCGTCTCGTAGTT	0.507													182	55					0	0	0.01441	0	0		A	149191094	A	A	149191094	3	1	156	1	0	0	0	0	1	0	0	0	18154	1145	40	1	1565	1	ZNF746	7	149191094	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	1346349	149191094	9947569	80	85459											
TUSC3	7991	broad.mit.edu	37	chr8	15601095	15601095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctaaatgaagcagcaacttCgaaaggcgatgttggaaaaa	17	8	10	6	2	1	1	0	1	1	0	2	4	1	2	0	2	3	3	0	2	7	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr8:15601095C>T	uc003wwt.2	+	8	1121	c.911C>T	c.(910-912)TCG>TTG	p.S304L	TUSC3_uc003wwu.2_Missense_Mutation_p.S304L|TUSC3_uc003wwv.2_Missense_Mutation_p.S304L|TUSC3_uc003www.2_Missense_Mutation_p.S304L|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_3'UTR	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	304					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GCAGCAACTTCGAAAGGCGAT	0.378													15	211					0	0	0.003163	0	0		T	15601095	T	T	15601095	3	4	156	1	0	0	0	0	1	0	0	0	16804	893	31	1	941	1	TUSC3	8	15601095	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08		15601095	130762927	81	85460											
SULF1	23213	broad.mit.edu	37	chr8	70512983	70512983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtcagtggatgattctgtgGagagggtaagcacatgaacc	11	10	14	6	0	2	3	1	2	1	1	2	5	2	4	1	3	2	2	1	3	2	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr8:70512983G>A	uc010lza.1	+	9	1597	c.880G>A	c.(880-882)GAG>AAG	p.E294K	SULF1_uc003xyd.2_Missense_Mutation_p.E294K|SULF1_uc003xye.2_Missense_Mutation_p.E294K|SULF1_uc003xyf.2_Missense_Mutation_p.E294K|SULF1_uc003xyg.2_Missense_Mutation_p.E294K|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	294					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TGATTCTGTGGAGAGGGTAAG	0.443													124	192					0	0	0.01441	0	0		A	70512983	A	A	70512983	3	1	156	1	0	0	0	0	1	0	0	0	15395	1175	41	4	898	4	SULF1	8	70512983	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	54911888	70512983	75851039	82	85461											
LRP12	29967	broad.mit.edu	37	chr8	105509670	105509670	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaaacagaacccatctacTtggtaagtagcattaaatcc	15	9	7	10	0	1	1	0	0	1	1	2	1	2	1	2	2	4	4	2	2	7	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr8:105509670T>G	uc003yma.2	-	5	1205	c.1110A>C	c.(1108-1110)CAA>CAC	p.Q370H	LRP12_uc003ymb.2_Missense_Mutation_p.Q351H|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	370	Extracellular (Potential).|CUB 2.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ACCCATCTACTTGGTAAGTAG	0.448													141	164					0	0	0.01441	0	0		G	105509670	G	G	105509670	3	3	156	1	0	0	0	0	1	0	0	0	8972	1606	56	5	1481	5	LRP12	8	105509670	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	34996687	105509670	40854352	83	85462											
CSMD3	114788	broad.mit.edu	37	chr8	113392635	113392635	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgatgtctgattgaaaatTtagatacagattattagacg	15	14	8	4	1	1	6	0	3	1	3	1	6	1	6	0	0	1	0	0	0	6	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr8:113392635T>G	uc003ynu.2	-	38	6241	c.6082A>C	c.(6082-6084)AAT>CAT	p.N2028H	CSMD3_uc003yns.2_Missense_Mutation_p.N1230H|CSMD3_uc003ynt.2_Missense_Mutation_p.N1988H|CSMD3_uc011lhx.1_Missense_Mutation_p.N1924H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2028	Extracellular (Potential).|CUB 11.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GATTGAAAATTTAGATACAGA	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			51	267					0	0	0.01441	0	0		G	113392635	G	G	113392635	3	3	156	1	0	0	0	0	1	0	0	0	3949	1841	64	5	5177	5	CSMD3	8	113392635	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	7882965	113392635	32971387	84	85463											
SVEP1	79987	broad.mit.edu	37	chr9	113234518	113234518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgaggacttggcattgccGatgcttgtggctgtttcttg	4	15	14	8	2	1	1	0	1	1	0	1	3	1	2	1	3	2	4	1	3	0	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr9:113234518G>A	uc010mtz.2	-	15	3022	c.2685C>T	c.(2683-2685)ATC>ATT	p.I895I	SVEP1_uc010mua.1_Silent_p.I895I	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	895					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TGGCATTGCCGATGCTTGTGG	0.443													127	172					0	0	0.01441	0	0		A	113234518	A	A	113234518	2	1	156	1	0	0	0	0	0	0	0	1	15445	1048	37	1		1	SVEP1	9	113234518	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08		113234518	27978913	85	85464											
PAPPA	5069	broad.mit.edu	37	chr9	119097300	119097300	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcgacaactttgacccCgtcaccctgagcagctgcca	8	9	7	17	2	1	2	1	2	0	0	3	3	2	2	5	0	4	2	5	0	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr9:119097300C>T	uc004bjn.2	+	13	3939	c.3558C>T	c.(3556-3558)CCC>CCT	p.P1186P	PAPPA_uc011lxp.1_Silent_p.P881P|PAPPA_uc011lxq.1_Silent_p.P561P	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1186					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						ACTTTGACCCCGTCACCCTGA	0.647													23	110					0	0	0.012319	0	0		T	119097300	T	T	119097300	2	4	156	1	0	0	0	0	0	0	0	1	11451	639	23	1		1	PAPPA	9	119097300	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	5862782	119097300	22116131	86	85465											
PRRX2	51450	broad.mit.edu	37	chr9	132484623	132484623	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accacagccaggtgcctacgGtgaactgaagtccagtccca	11	6	10	14	1	0	2	0	2	0	0	2	2	2	2	5	2	4	0	5	2	3	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr9:132484623G>T	uc004byh.2	+	4	981	c.754G>T	c.(754-756)GTG>TTG	p.V252L		NM_016307	NP_057391	Q99811	PRRX2_HUMAN	paired related homeobox 2	252						nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		Ovarian(14;0.00556)				GGTGCCTACGGTGAACTGAAG	0.622													11	44					2.27111e-07	2.35804e-07	0.013537	1	0		T	132484623	T	T	132484623	3	4	156	1	0	0	0	0	1	0	0	0	12635	1261	44	5	768	5	PRRX2	9	132484623	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	13387323	132484623	8728808	87	85466											
LAMC3	10319	broad.mit.edu	37	chr9	133963174	133963174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcactggagaaggacatcGagaccttgtcagagctgctt	10	10	11	10	1	2	3	2	0	1	3	4	6	2	4	1	2	2	2	1	2	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr9:133963174G>A	uc004caa.1	+	27	4545	c.4447G>A	c.(4447-4449)GAG>AAG	p.E1483K	LAMC3_uc010mze.1_Missense_Mutation_p.E171K	NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1483	Domain II and I.|Potential.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GAAGGACATCGAGACCTTGTC	0.602													20	48					0	0	0.008871	0	0		A	133963174	A	A	133963174	3	1	156	1	0	0	0	0	1	0	0	0	8632	1059	37	1	4553	1	LAMC3	9	133963174	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	1478551	133963174	7250257	88	85467											
CACNA1B	774	broad.mit.edu	37	chr9	141016271	141016271	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgaggacactctcactttCgaggaggctgtggccaccaa	9	8	11	13	1	1	1	1	1	1	0	3	4	1	3	3	4	0	1	3	4	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr9:141016271C>T	uc004cog.2	+	46	6985	c.6840C>T	c.(6838-6840)TTC>TTT	p.F2280F	CACNA1B_uc004coi.2_Silent_p.F1492F	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	2280	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	CTCTCACTTTCGAGGAGGCTG	0.652													7	51					0	0	0.006214	0	0		T	141016271	T	T	141016271	2	4	156	1	0	0	0	0	0	0	0	1	2542	883	31	1		1	CACNA1B	9	141016271	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	7053097	141016271	197160	89	85468											
SLC39A12	221074	broad.mit.edu	37	chr10	18250745	18250745	+	Missense_Mutation	SNP	A	G	G	1	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	ttcacagaatgagacagaagAtatcttggctttcaccaggc	13	10	9	9	0	3	4	2	1	1	4	3	5	3	4	1	2	0	1	1	2	3	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr10:18250745A>G	uc001ipo.2	+	3	770	c.497A>G	c.(496-498)GAT>GGT	p.D166G	SLC39A12_uc001ipn.2_Missense_Mutation_p.D166G|SLC39A12_uc001ipp.2_Missense_Mutation_p.D166G|SLC39A12_uc010qck.1_Missense_Mutation_p.D32G	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	166	Extracellular (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						GAGACAGAAGATATCTTGGCT	0.423													58	99					0	0	0.01441	0	0		G	18250745	G	G	18250745	3	3	156	1	0	0	0	0	1	0	0	0	14640	333	12	3	503	3	SLC39A12	10	18250745	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08		18250745	117284002	90	85469											
ZEB1	6935	broad.mit.edu	37	chr10	31812911	31812911	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtatcaaatgtagaggatcaGaatgactctgattctacacc	14	11	8	8	0	4	4	2	2	2	2	4	5	4	5	1	1	1	2	1	1	5	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr10:31812911G>C	uc001ivs.3	+	8	2715	c.2652G>C	c.(2650-2652)CAG>CAC	p.Q884H	ZEB1_uc001ivr.3_Missense_Mutation_p.Q666H|ZEB1_uc010qee.1_Missense_Mutation_p.Q666H|ZEB1_uc010qef.1_Missense_Mutation_p.Q666H|ZEB1_uc009xlk.1_Missense_Mutation_p.Q666H|ZEB1_uc001ivt.3_Missense_Mutation_p.Q666H|ZEB1_uc001ivu.3_Missense_Mutation_p.Q885H|ZEB1_uc001ivv.3_Missense_Mutation_p.Q864H|ZEB1_uc010qeh.1_Missense_Mutation_p.Q817H|ZEB1_uc009xlp.2_Missense_Mutation_p.Q868H	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	884					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				TAGAGGATCAGAATGACTCTG	0.358													9	154					0	0	0.004482	0	0		C	31812911	C	C	31812911	3	2	156	1	0	0	0	0	1	0	0	0	17648	933	33	5	2696	5	ZEB1	10	31812911	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	13562166	31812911	103721836	91	85470											
PRKG1	5592	broad.mit.edu	37	chr10	53893600	53893600	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtctctatttttcacatagGgaagatgtgagaacagcaaa	14	12	9	6	0	2	2	1	1	1	2	3	4	2	3	0	1	2	1	0	1	5	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr10:53893600G>T	uc001jjm.2	+	8	1085	c.891G>T	c.(889-891)GGG>GGT	p.G297G	PRKG1_uc001jjo.2_Silent_p.G312G|PRKG1_uc009xow.1_Missense_Mutation_p.R15S	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	297	cGMP 2.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TTTCACATAGGGAAGATGTGA	0.318													32	53					1.45844e-13	1.6065e-13	0.013726	1	0		T	53893600	T	T	53893600	2	4	156	1	0	0	0	0	0	0	0	1	12544	1246	43	5		5	PRKG1	10	53893600	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	22080689	53893600	81641147	92	85471											
PCDH15	65217	broad.mit.edu	37	chr10	55663110	55663110	+	Missense_Mutation	SNP	T	C	C	0	1	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	attttcatcctgaatctcaaTgtatactttagctgtattgc	10	18	5	8	0	2	1	2	1	1	0	4	1	3	1	1	0	3	3	1	0	6	8			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr10:55663110T>C	uc001jju.1	-	26	3789	c.3394A>G	c.(3394-3396)ATT>GTT	p.I1132V	PCDH15_uc010qhq.1_Missense_Mutation_p.I1137V|PCDH15_uc010qhr.1_Missense_Mutation_p.I1132V|PCDH15_uc010qhs.1_Missense_Mutation_p.I1144V|PCDH15_uc010qht.1_Missense_Mutation_p.I1139V|PCDH15_uc010qhu.1_Missense_Mutation_p.I1132V|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.I1132V|PCDH15_uc010qhw.1_Missense_Mutation_p.I1095V|PCDH15_uc010qhx.1_Missense_Mutation_p.I1061V|PCDH15_uc010qhy.1_Missense_Mutation_p.I1137V|PCDH15_uc010qhz.1_Missense_Mutation_p.I1132V|PCDH15_uc010qia.1_Missense_Mutation_p.I1110V|PCDH15_uc010qib.1_Missense_Mutation_p.I1110V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1132	Cadherin 10.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TGAATCTCAATGTATACTTTA	0.368										HNSCC(58;0.16)			19	113					0	0	0.008871	0	0		C	55663110	C	C	55663110	3	2	156	1	0	0	0	0	1	0	0	0	11530	1464	51	3	4124	3	PCDH15	10	55663110	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	1769510	55663110	79871637	93	85472											
BICC1	80114	broad.mit.edu	37	chr10	60556153	60556153	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaaatatgtatgaagcaagGaaatgtctcctcggacttga	14	12	9	6	1	1	2	0	2	1	0	3	4	1	4	1	2	1	2	1	2	7	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr10:60556153G>T	uc001jki.1	+	10	1233	c.1233G>T	c.(1231-1233)AGG>AGT	p.R411S	BICC1_uc001jkj.1_Missense_Mutation_p.R52S	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	411					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						ATGAAGCAAGGAAATGTCTCC	0.473													17	118					1.33834e-09	1.44487e-09	0.007413	1	0		T	60556153	T	T	60556153	3	4	156	1	0	0	0	0	1	0	0	0	1428	1165	41	5	1271	5	BICC1	10	60556153	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	4893043	60556153	74978594	94	85473											
HERC4	26091	broad.mit.edu	37	chr10	69700775	69700775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttcttatataaagccaaagGaaaatggaggtccacaatgg	16	10	9	6	0	1	0	0	0	1	0	2	2	2	2	2	4	1	0	2	4	8	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr10:69700775G>A	uc001jng.3	-	21	2760	c.2449C>T	c.(2449-2451)CCT>TCT	p.P817S	HERC4_uc009xpq.2_Missense_Mutation_p.P350S|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.P809S|HERC4_uc009xpr.2_Intron|HERC4_uc001jni.3_Missense_Mutation_p.P553S	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	817	HECT.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						AAAGCCAAAGGAAAATGGAGG	0.338													24	176					0	0	0.01892	0	0		A	69700775	A	A	69700775	3	1	156	1	0	0	0	0	1	0	0	0	7076	1174	41	4	748	4	HERC4	10	69700775	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	9144622	69700775	65833972	95	85474											
ABCC8	6833	broad.mit.edu	37	chr11	17450207	17450207	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggacaggaactcgcttaGcttttgcacgctgctcggga	8	10	12	11	3	0	0	0	0	0	0	2	3	0	3	0	3	4	5	0	3	2	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:17450207G>A	uc001mnc.2	-	13	1954	c.1828C>T	c.(1828-1830)CTA>TTA	p.L610L		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	610	Cytoplasmic (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	AACTCGCTTAGCTTTTGCACG	0.642													25	43					0	0	0.021523	0	0		A	17450207	A	A	17450207	2	1	156	1	0	0	0	0	0	0	0	1	58	962	34	2		2	ABCC8	11	17450207	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08		17450207	117556309	96	85475											
ABCC8	6833	broad.mit.edu	37	chr11	17482049	17482049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcctaccttgggctggaagaCgtcgttctccttcccaaggt	6	11	11	13	2	1	1	0	0	1	1	4	2	2	2	4	3	1	2	4	3	3	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:17482049C>T	uc001mnc.2	-	6	1123	c.997G>A	c.(997-999)GTC>ATC	p.V333I	ABCC8_uc010rcy.1_Missense_Mutation_p.V332I	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	333	Extracellular (By similarity).|ABC transmembrane type-1 1.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	GGCTGGAAGACGTCGTTCTCC	0.587													28	146					0	0	0.007291	0	0		T	17482049	T	T	17482049	3	4	156	1	0	0	0	0	1	0	0	0	58	536	19	1	3884	1	ABCC8	11	17482049	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	31842	17482049	117524467	97	85476											
DBX1	120237	broad.mit.edu	37	chr11	20180794	20180794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccttcgaagtagggaaaggCgaaggtcttgggagggacgc	10	6	17	8	3	1	0	0	0	1	0	2	5	1	3	1	5	0	1	1	5	4	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:20180794C>T	uc001mpw.1	-	2	412	c.412G>A	c.(412-414)GCC>ACC	p.A138T		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	138					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TAGGGAAAGGCGAAGGTCTTG	0.567													16	84					0	0	0.006122	0	0		T	20180794	T	T	20180794	3	4	156	1	0	0	0	0	1	0	0	0	4262	768	27	1	748	1	DBX1	11	20180794	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	2698745	20180794	114825722	98	85477											
ANO3	63982	broad.mit.edu	37	chr11	26538454	26538454	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcaagtatgcagagaggctGaatatcaggatgcccttcag	12	9	12	8	0	2	2	2	1	0	1	2	4	2	3	1	2	3	4	1	2	4	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:26538454G>A	uc001mqt.3	+	6	817	c.672G>A	c.(670-672)CTG>CTA	p.L224L	ANO3_uc010rdr.1_Silent_p.L208L|ANO3_uc010rds.1_Silent_p.L78L|ANO3_uc010rdt.1_Silent_p.L78L	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	224	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CAGAGAGGCTGAATATCAGGA	0.358													34	44					0	0	0.013726	0	0		A	26538454	A	A	26538454	2	1	156	1	0	0	0	0	0	0	0	1	698	1277	45	4		4	ANO3	11	26538454	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	6357660	26538454	108468062	99	85478											
AGBL2	79841	broad.mit.edu	37	chr11	47681771	47681771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgggtatgccgccatggcaGcacagcctctctttgtggca	7	10	12	12	1	1	0	0	0	1	0	2	0	1	0	3	3	3	4	3	3	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:47681771G>A	uc001ngg.2	-	18	2763	c.2663C>T	c.(2662-2664)GCT>GTT	p.A888V	AGBL2_uc001ngf.2_RNA	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	888					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						CGCCATGGCAGCACAGCCTCT	0.527													15	79					0	0	0.017118	0	0		A	47681771	A	A	47681771	3	1	156	1	0	0	0	0	1	0	0	0	376	971	34	2	49	2	AGBL2	11	47681771	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	21143317	47681771	87324745	100	85479											
PTPRJ	5795	broad.mit.edu	37	chr11	48177607	48177607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactttgaaagatttttggcGtatggtttgggagaaaaatg	12	14	12	3	1	0	3	0	1	0	2	0	4	0	3	0	3	0	2	0	3	4	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:48177607G>A	uc001ngp.3	+	21	3729	c.3374G>A	c.(3373-3375)CGT>CAT	p.R1125H		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	1125	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GATTTTTGGCGTATGGTTTGG	0.333													15	268					0	0	0.004007	0	0		A	48177607	A	A	48177607	3	1	156	1	0	0	0	0	1	0	0	0	12829	1145	40	1	3465	1	PTPRJ	11	48177607	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	495836	48177607	86828909	101	85480											
OR8J3	81168	broad.mit.edu	37	chr11	55904988	55904988	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtagagttgccaagattGatgatagctagatgtctcag	13	11	11	6	0	1	5	1	2	1	3	2	5	1	5	1	0	2	3	1	0	4	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:55904988G>T	uc010riz.1	-	1	207	c.207C>A	c.(205-207)ATC>ATA	p.I69I		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TGCCAAGATTGATGATAGCTA	0.448													73	136					1.15074e-40	1.37204e-40	0.01441	1	0		T	55904988	T	T	55904988	2	4	156	1	0	0	0	0	0	0	0	1	11261	1280	45	5		5	OR8J3	11	55904988	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	7727381	55904988	79101528	102	85481											
OR5T1	390155	broad.mit.edu	37	chr11	56043418	56043418	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaatttcctggcaaaaaatAaatctatttcatttcttgga	14	16	4	7	0	4	0	2	0	2	0	5	1	5	1	1	2	0	1	1	2	7	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:56043418A>G	uc001nio.1	+	1	304	c.304A>G	c.(304-306)AAA>GAA	p.K102E		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	102	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					GGCAAAAAATAAATCTATTTC	0.373													124	198					0	0	0.01441	0	0		G	56043418	G	G	56043418	3	3	156	1	0	0	0	0	1	0	0	0	11200	363	13	3	306	3	OR5T1	11	56043418	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	138430	56043418	78963098	103	85482											
ACTN3	89	broad.mit.edu	37	chr11	66330604	66330604	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacaagggatccggggccccGgctggagccctggactacgt	7	6	15	13	3	0	0	0	0	0	0	1	3	1	3	4	6	3	1	4	6	3	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:66330604G>A	uc001oio.1	+	22	2664	c.2646G>A	c.(2644-2646)CCG>CCA	p.P882P	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	882					focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						CCGGGGCCCCGGCTGGAGCCC	0.627													20	47					0	0	0.014323	0	0		A	66330604	A	A	66330604	2	1	156	1	0	0	0	0	0	0	0	1	206	1103	39	1		1	ACTN3	11	66330604	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	10287186	66330604	68675912	104	85483											
DLG2	1740	broad.mit.edu	37	chr11	83182758	83182758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccaggataatcaccggcCgggtgtagtttactgcagaa	10	8	12	11	2	1	1	1	0	0	1	1	2	1	2	4	3	2	3	4	3	4	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:83182758C>T	uc001paj.2	-	19	2345	c.2042G>A	c.(2041-2043)CGG>CAG	p.R681Q	DLG2_uc001pai.2_Missense_Mutation_p.R560Q|DLG2_uc010rsy.1_Missense_Mutation_p.R630Q|DLG2_uc010rsz.1_Missense_Mutation_p.R677Q|DLG2_uc010rta.1_Missense_Mutation_p.R663Q|DLG2_uc001pak.2_Missense_Mutation_p.R786Q|DLG2_uc010rtb.1_Missense_Mutation_p.R648Q|DLG2_uc010rsw.1_Missense_Mutation_p.R145Q|DLG2_uc010rsx.1_Missense_Mutation_p.R158Q	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	681	Guanylate kinase-like.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				AATCACCGGCCGGGTGTAGTT	0.453													14	63					0	0	0.003163	0	0		T	83182758	T	T	83182758	3	4	156	1	0	0	0	0	1	0	0	0	4561	652	23	1	590	1	DLG2	11	83182758	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	16852154	83182758	51823758	105	85484											
ANKRD49	54851	broad.mit.edu	37	chr11	94231299	94231299	+	Silent	SNP	T	C	C	0	1	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	gtgaacactagggatgaagaTgagtatacccctcttcatcg	12	10	10	9	1	2	4	1	3	1	1	3	5	2	5	2	1	2	1	2	1	5	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:94231299T>C	uc001pew.2	+	3	460	c.321T>C	c.(319-321)GAT>GAC	p.D107D	ANKRD49_uc001pex.2_3'UTR|ANKRD49_uc001pey.2_RNA	NM_017704	NP_060174	Q8WVL7	ANR49_HUMAN	fetal globin inducing factor	107	ANK 2.				positive regulation of transcription, DNA-dependent					central_nervous_system(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GGGATGAAGATGAGTATACCC	0.463													16	93					0	0	0.006122	0	0		C	94231299	C	C	94231299	2	2	156	1	0	0	0	0	0	0	0	1	675	1461	51	3		3	ANKRD49	11	94231299	Silent	SNP	T	TCGA-CG-5727-01A-11D-1600-08	11048541	94231299	40775217	106	85485											
C11orf87	399947	broad.mit.edu	37	chr11	109294891	109294891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtccccaaggagcacacGcagcttcctcctgtttggac	8	8	9	16	1	0	0	0	0	0	0	3	2	3	2	5	2	2	4	5	2	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:109294891G>A	uc001pkn.2	+	2	906	c.532G>A	c.(532-534)GCA>ACA	p.A178T	C11orf87_uc010rwb.1_RNA	NM_207645	NP_997528	Q6NUJ2	CK087_HUMAN	hypothetical protein LOC399947 precursor	178	Cytoplasmic (Potential).					integral to membrane				ovary(2)	2						AGGAGCACACGCAGCTTCCTC	0.642													20	35					0	0	0.004656	0	0		A	109294891	A	A	109294891	3	1	156	1	0	0	0	0	1	0	0	0	1672	1087	38	1	534	1	C11orf87	11	109294891	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	15063592	109294891	25711625	107	85486											
CLDN25	644672	broad.mit.edu	37	chr11	113650534	113650534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactatggcctggagtttccGtgcaaaagtccagctcgggg	8	9	14	10	2	0	0	0	0	0	0	3	2	2	1	3	4	2	3	3	4	3	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr11:113650534G>A	uc009yyw.1	+	1	17	c.17G>A	c.(16-18)CGT>CAT	p.R6H		NM_001101389	NP_001094859	C9JDP6	CLD25_HUMAN	claudin 25	6	Cytoplasmic (Potential).					integral to membrane|tight junction	structural molecule activity				0						TGGAGTTTCCGTGCAAAAGTC	0.542													21	102					0	0	0.014323	0	0		A	113650534	A	A	113650534	3	1	156	1	0	0	0	0	1	0	0	0	3488	1145	40	1	19	1	CLDN25	11	113650534	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	4355643	113650534	21355982	108	85487											
VWF	7450	broad.mit.edu	37	chr12	6103071	6103071	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaacgcagaccccgttggtCcgacagaggtgggcataaga	11	6	13	11	3	1	3	1	0	0	3	2	4	2	3	3	3	1	3	3	3	2	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:6103071C>A	uc001qnn.1	-	37	6805	c.6555G>T	c.(6553-6555)CGG>CGT	p.R2185R	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2185					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CCCCGTTGGTCCGACAGAGGT	0.517													33	85					1.36161e-19	1.57165e-19	0.019004	1	0		A	6103071	A	A	6103071	2	1	156	1	0	0	0	0	0	0	0	1	17272	842	30	5		5	VWF	12	6103071	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08		6103071	127748824	109	85488											
SLC2A3	6515	broad.mit.edu	37	chr12	8077053	8077053	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggaacaaaaagccatccCtccaaggcctatcatatgca	14	7	7	13	1	1	0	1	0	0	0	3	1	3	1	4	2	3	1	4	2	6	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:8077053C>A	uc001qtr.2	-	8	1283	c.1021G>T	c.(1021-1023)GGG>TGG	p.G341W		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	341	Helical; Name=9; (Potential).				carbohydrate metabolic process|water-soluble vitamin metabolic process	integral to membrane|plasma membrane	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			ovary(3)|pancreas(1)	4				Kidney(36;0.0866)		AAAGCCATCCCTCCAAGGCCT	0.428													31	164					3.61183e-13	3.95842e-13	0.01441	1	0		A	8077053	A	A	8077053	3	1	156	1	0	0	0	0	1	0	0	0	14570	681	24	5	481	5	SLC2A3	12	8077053	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	1973982	8077053	125774842	110	85489											
TAS2R13	50838	broad.mit.edu	37	chr12	11060990	11060990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaattgtgagtttctcatCgtttagcccataccttagct	9	16	7	9	1	1	2	1	2	1	0	3	2	1	2	2	0	3	3	2	0	4	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:11060990C>T	uc001qzg.1	-	1	1172	c.908G>A	c.(907-909)CGA>CAA	p.R303Q	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron	NM_023920	NP_076409	Q9NYV9	T2R13_HUMAN	taste receptor, type 2, member 13	303	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			breast(1)|skin(1)	2						AGTTTCTCATCGTTTAGCCCA	0.398													22	127					0	0	0.016522	0	0		T	11060990	T	T	11060990	3	4	156	1	0	0	0	0	1	0	0	0	15592	884	31	1	7	1	TAS2R13	12	11060990	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	2983937	11060990	122790905	111	85490											
KRAS	3845	broad.mit.edu	37	chr12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactcttgcctacgccaCcagctccaactaccacaagt	11	7	6	17	1	1	0	0	0	1	0	2	0	2	0	5	1	5	2	5	1	4	3	rs121913529		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			19	40					0	0	0.010504	0	0		T	25398284	T	T	25398284	3	4	156	1	0	0	0	0	1	0	0	0	8454	507	18	4	671	4	KRAS	12	25398284	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	14337294	25398284	108453611	112	85491											
BICD1	636	broad.mit.edu	37	chr12	32458680	32458680	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	taagcgatttgaggaggagaCggtactgctgaacagccagc	12	7	14	8	2	0	3	0	2	0	1	0	6	0	4	1	3	6	2	1	3	3	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:32458680C>A	uc001rku.2	+	4	710	c.629C>A	c.(628-630)ACG>AAG	p.T210K	BICD1_uc001rkv.2_Missense_Mutation_p.T210K|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	210	Potential.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			GAGGAGGAGACGGTACTGCTG	0.418													18	67					3.32936e-07	3.44034e-07	0.006122	1	0		A	32458680	A	A	32458680	3	1	156	1	0	0	0	0	1	0	0	0	1429	536	19	5	643	5	BICD1	12	32458680	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	7060396	32458680	101393215	113	85492											
KRT84	3890	broad.mit.edu	37	chr12	52775182	52775182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcagcatcagcccggctgCgcctggccacctcctcatac	6	7	8	20	2	3	0	3	0	0	0	4	0	4	0	6	2	4	2	6	2	1	1	rs146876431		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:52775182C>T	uc001sah.1	-	5	1088	c.1040G>A	c.(1039-1041)CGC>CAC	p.R347H		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	347	Rod.|Coil 2.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		AGCCCGGCTGCGCCTGGCCAC	0.562													107	188					0	0	0.01441	0	0		T	52775182	T	T	52775182	3	4	156	1	0	0	0	0	1	0	0	0	8514	768	27	1	782	1	KRT84	12	52775182	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	20316502	52775182	81076713	114	85493											
KRT2	3849	broad.mit.edu	37	chr12	53042031	53042031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atactgggccttgacctcggCgatgatgctatccaagtcca	9	10	10	12	2	0	2	0	2	0	0	3	3	2	2	4	2	2	1	4	2	3	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:53042031C>T	uc001sat.2	-	5	1081	c.1048G>A	c.(1048-1050)GCC>ACC	p.A350T		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	350	Coil 2.|Rod.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		TTGACCTCGGCGATGATGCTA	0.537													59	142					0	0	0.01441	0	0		T	53042031	T	T	53042031	3	4	156	1	0	0	0	0	1	0	0	0	8473	768	27	1	891	1	KRT2	12	53042031	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	266849	53042031	80809864	115	85494											
NPFF	8620	broad.mit.edu	37	chr12	53900562	53900562	+	Nonstop_Mutation	SNP	A	T	T	1	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	atatcaagggatgacatgtcActtcttcccaaagcgttgag	12	11	9	9	1	3	2	2	2	1	0	4	3	4	3	1	1	1	1	1	1	3	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:53900562A>T	uc001sdw.1	-	3	504	c.340T>A	c.(340-342)TGA>AGA	p.*114R		NM_003717	NP_003708	O15130	NPFF_HUMAN	neuropeptide FF-amide peptide preproprotein	114					neuropeptide signaling pathway|synaptic transmission	extracellular region|soluble fraction	neuropeptide hormone activity				0						ATGACATGTCACTTCTTCCCA	0.527													60	138					0	0	0.01441	0	0		T	53900562	T	T	53900562	4	4	156	1	0	0	0	0	0	0	0	0	10595	172	6	5	5	5	NPFF	12	53900562	Nonstop_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	858531	53900562	79951333	116	85495											
ITGA5	3678	broad.mit.edu	37	chr12	54790125	54790125	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgagctttttccatggcGgtgccatatgggagggagcg	7	10	16	8	2	0	1	0	1	0	0	1	3	1	3	2	4	4	2	2	4	1	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:54790125G>A	uc001sga.2	-	30	3170	c.3102C>T	c.(3100-3102)ACC>ACT	p.T1034T		NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	1034	Cytoplasmic (Potential).				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						TTTCCATGGCGGTGCCATATG	0.517													28	51					0	0	0.007291	0	0		A	54790125	A	A	54790125	2	1	156	1	0	0	0	0	0	0	0	1	7895	1103	39	1		1	ITGA5	12	54790125	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	889563	54790125	79061770	117	85496											
NAV3	89795	broad.mit.edu	37	chr12	78594292	78594292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgccccatggatgtagaagGttctagagtatggttcatgg	9	13	13	6	0	2	2	1	0	1	2	2	3	2	3	2	4	1	4	2	4	4	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:78594292G>A	uc001syp.2	+	38	6928	c.6755G>A	c.(6754-6756)GGT>GAT	p.G2252D	NAV3_uc001syo.2_Missense_Mutation_p.G2230D|NAV3_uc010sub.1_Missense_Mutation_p.G1709D|NAV3_uc009zsf.2_Missense_Mutation_p.G1061D	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2252						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GATGTAGAAGGTTCTAGAGTA	0.348										HNSCC(70;0.22)			32	172					0	0	0.015359	0	0		A	78594292	A	A	78594292	3	1	156	1	0	0	0	0	1	0	0	0	10203	1261	44	4	6835	4	NAV3	12	78594292	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	23804167	78594292	55257603	118	85497											
GAS2L3	283431	broad.mit.edu	37	chr12	101017746	101017746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatcccaagctcaagtcttCaaaaggcataacgaagaaac	17	7	6	11	1	4	1	3	0	1	1	5	2	5	1	1	1	3	2	1	1	7	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:101017746C>T	uc001thu.2	+	10	1389	c.1163C>T	c.(1162-1164)TCA>TTA	p.S388L	GAS2L3_uc009zty.2_Missense_Mutation_p.S388L|GAS2L3_uc001thv.2_Missense_Mutation_p.S284L	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	388					cell cycle arrest					skin(1)	1						CTCAAGTCTTCAAAAGGCATA	0.428													28	203					0	0	0.00632	0	0		T	101017746	T	T	101017746	3	4	156	1	0	0	0	0	1	0	0	0	6263	838	29	4	1193	4	GAS2L3	12	101017746	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	22423454	101017746	32834149	119	85498											
TCHP	84260	broad.mit.edu	37	chr12	110345342	110345342	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttgtagcaagaagccacCgcagagcaagagaacaaacg	16	3	10	12	2	0	3	0	0	0	3	0	4	0	3	3	0	5	4	3	0	6	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:110345342C>T	uc001tpn.2	+	6	690	c.537C>T	c.(535-537)ACC>ACT	p.T179T	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Silent_p.T179T	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	179	Glu-rich.|Interaction with keratin proteins.|Potential.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						AAGAAGCCACCGCAGAGCAAG	0.517													35	119					0	0	0.00874	0	0		T	110345342	T	T	110345342	2	4	156	1	0	0	0	0	0	0	0	1	15727	639	23	1		1	TCHP	12	110345342	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	9327596	110345342	23506553	120	85499											
EP400	57634	broad.mit.edu	37	chr12	132464291	132464291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggccggaagcacagtagagaCggacctgtttaagaggcagc	12	5	15	9	2	0	2	0	0	0	2	0	5	0	4	2	4	2	4	2	4	3	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr12:132464291C>T	uc001ujn.2	+	2	1423	c.1388C>T	c.(1387-1389)ACG>ATG	p.T463M	EP400_uc001ujl.2_Missense_Mutation_p.T462M|EP400_uc001ujm.2_Missense_Mutation_p.T463M|EP400_uc001ujj.1_Missense_Mutation_p.T462M|EP400_uc001ujk.2_Missense_Mutation_p.T499M	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	499					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		ACAGTAGAGACGGACCTGTTT	0.577													12	28					0	0	0.003163	0	0		T	132464291	T	T	132464291	3	4	156	1	0	0	0	0	1	0	0	0	5157	536	19	1	1391	1	EP400	12	132464291	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	22118949	132464291	1387604	121	85500											
EDNRB	1910	broad.mit.edu	37	chr13	78492731	78492731	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctacctgctccagaaggcGtccggtggccgctccgcagt	5	8	13	15	4	0	1	0	0	0	1	3	1	3	1	5	3	3	4	5	3	2	1	rs12868905		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr13:78492731G>A	uc001vko.2	-	1	236	c.-22C>T	c.(-24--20)GACGC>GATGC		uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Translation_Start_Site|EDNRB_uc010aez.1_Translation_Start_Site|EDNRB_uc001vkp.1_Missense_Mutation_p.T76M|EDNRB_uc010afa.1_Translation_Start_Site	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	TCCAGAAGGCGTCCGGTGGCC	0.632											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	14					0	0	0.014758	0	0		A	78492731	A	A	78492731	1	1	156	1	0	0	0	0	0	0	0	0	4926	1160	40	1		1	EDNRB	13	78492731	Translation_Start_Site	SNP	G	TCGA-CG-5727-01A-11D-1600-08		78492731	36677147	122	85501											
SLITRK6	84189	broad.mit.edu	37	chr13	86369237	86369237	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtggtaaaacttggaggagGttgttatttaaatacaggac	13	12	13	3	0	0	0	0	0	0	0	0	3	0	3	0	6	2	3	0	6	6	7			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr13:86369237G>T	uc001vll.1	-	2	1866	c.1407C>A	c.(1405-1407)AAC>AAA	p.N469K	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	469	Extracellular (Potential).|LRR 10.			N -> H (in Ref. 1).		integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		CTTGGAGGAGGTTGTTATTTA	0.328													75	130					7.33394e-39	8.69652e-39	0.01441	1	0		T	86369237	T	T	86369237	3	4	156	1	0	0	0	0	1	0	0	0	14772	1252	44	5	1122	5	SLITRK6	13	86369237	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	7876506	86369237	28800641	123	85502											
SLITRK5	26050	broad.mit.edu	37	chr13	88328906	88328906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatctgacagagaactacatCgctgtcgtgcgcaggacaga	12	8	11	10	3	1	3	0	1	1	2	3	5	1	4	0	1	3	2	0	1	3	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr13:88328906C>T	uc001vln.2	+	2	1482	c.1263C>T	c.(1261-1263)ATC>ATT	p.I421I	SLITRK5_uc010tic.1_Silent_p.I180I	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	421	LRR 7.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					AGAACTACATCGCTGTCGTGC	0.572													10	55					0	0	0.006214	0	0		T	88328906	T	T	88328906	2	4	156	1	0	0	0	0	0	0	0	1	14771	874	31	1		1	SLITRK5	13	88328906	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	1959669	88328906	26840972	124	85503											
ADCK1	57143	broad.mit.edu	37	chr14	78374153	78374153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcctatcccaggtcccccGaatccactgggacctgtcca	7	9	7	18	1	0	0	0	0	0	0	5	2	5	1	7	2	0	0	7	2	2	2	rs140603078		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr14:78374153G>A	uc001xui.2	+	7	848	c.749G>A	c.(748-750)CGA>CAA	p.R250Q	ADCK1_uc010tvo.1_RNA|ADCK1_uc001xuj.2_Missense_Mutation_p.R182Q|ADCK1_uc001xuk.1_Missense_Mutation_p.R124Q	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	257	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		CAGGTCCCCCGAATCCACTGG	0.582													9	35					0	0	0.006214	0	0		A	78374153	A	A	78374153	3	1	156	1	0	0	0	0	1	0	0	0	288	1058	37	1	771	1	ADCK1	14	78374153	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08		78374153	28975387	125	85504											
SERPINA3	12	broad.mit.edu	37	chr14	95088714	95088714	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacctgccaaagttttccatCtcgagggactataacctgaa	12	11	7	11	1	1	1	0	1	1	0	3	3	2	2	4	1	3	1	4	1	5	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr14:95088714C>T	uc001ydp.2	+	4	1033	c.954C>T	c.(952-954)ATC>ATT	p.I318I	SERPINA3_uc001ydo.3_Silent_p.I343I|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Silent_p.I318I|SERPINA3_uc001yds.2_Silent_p.I318I|SERPINA3_uc010avg.2_Silent_p.I318I	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	318					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		AGTTTTCCATCTCGAGGGACT	0.502													48	99					0	0	0.01441	0	0		T	95088714	T	T	95088714	2	4	156	1	0	0	0	0	0	0	0	1	14115	903	32	4		4	SERPINA3	14	95088714	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	16714561	95088714	12260826	126	85505											
TECPR2	9895	broad.mit.edu	37	chr14	102918810	102918810	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacagtcgcggccctccacGgtgcagctgcctcccgaagc	6	5	12	18	4	0	0	0	0	0	0	3	1	2	0	4	2	4	3	4	2	1	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr14:102918810G>A	uc001ylw.1	+	16	3634	c.3486G>A	c.(3484-3486)ACG>ACA	p.T1162T	TECPR2_uc010awl.2_Silent_p.T1162T|TECPR2_uc010txx.1_Silent_p.T325T	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1162							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GGCCCTCCACGGTGCAGCTGC	0.657													6	9					0	0	0.00308	0	0		A	102918810	A	A	102918810	2	1	156	1	0	0	0	0	0	0	0	1	15769	1103	39	1		1	TECPR2	14	102918810	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	7830096	102918810	4430730	127	85506											
AHNAK2	113146	broad.mit.edu	37	chr14	105415602	105415602	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttgaggccagctccctcGggcacgtggccctccgggag	4	7	14	16	3	0	1	0	1	0	0	3	2	2	2	5	4	1	2	5	4	0	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr14:105415602G>A	uc010axc.1	-	7	6306	c.6186C>T	c.(6184-6186)CCC>CCT	p.P2062P	AHNAK2_uc001ypx.2_Silent_p.P1962P	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2062						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CAGCTCCCTCGGGCACGTGGC	0.632													58	65					0	0	0.01441	0	0		A	105415602	A	A	105415602	2	1	156	1	0	0	0	0	0	0	0	1	415	1103	39	1		1	AHNAK2	14	105415602	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	2496792	105415602	1933938	128	85507											
NDN	4692	broad.mit.edu	37	chr15	23931569	23931569	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttggtgatttcgcggctggCccgggagccccaaaagaact	8	8	13	12	3	0	2	0	1	0	1	1	3	0	3	3	4	2	1	3	4	3	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr15:23931569C>G	uc001ywk.2	-	1	882	c.796G>C	c.(796-798)GCC>CCC	p.A266P		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	266	MAGE.				negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCGCGGCTGGCCCGGGAGCCC	0.557									Prader-Willi_syndrome				6	85					0	0	0.001168	0	0		G	23931569	G	G	23931569	3	3	156	1	0	0	0	0	1	0	0	0	10266	739	26	5	173	5	NDN	15	23931569	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08		23931569	78599823	129	85508											
NOX5	79400	broad.mit.edu	37	chr15	69339812	69339812	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctttgcctctgagcatgcCgtgctcatcggggcaggcat	6	11	12	12	2	3	1	1	1	2	0	4	1	3	1	2	3	4	4	2	3	0	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr15:69339812C>T	uc002ars.1	+	12	1772	c.1752C>T	c.(1750-1752)GCC>GCT	p.A584A	NOX5_uc002arp.1_Silent_p.A566A|NOX5_uc002arq.1_Silent_p.A538A|NOX5_uc010bid.1_Silent_p.A549A|NOX5_uc002arr.1_Silent_p.A556A|NOX5_uc010bie.1_Silent_p.A384A|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	584	Helical; (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						CTGAGCATGCCGTGCTCATCG	0.582													40	62					0	0	0.00874	0	0		T	69339812	T	T	69339812	2	4	156	1	0	0	0	0	0	0	0	1	10578	639	23	1		1	NOX5	15	69339812	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	45408243	69339812	33191580	130	85509											
C15orf26	161502	broad.mit.edu	37	chr15	81440853	81440853	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgagccatggagcaggcCatgggccttgacacgcagta	10	6	13	12	2	0	1	0	1	0	0	1	3	0	2	3	3	2	3	3	3	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr15:81440853C>A	uc002bgb.2	+	7	912	c.885C>A	c.(883-885)GCC>GCA	p.A295A		NM_173528	NP_775799	Q6P656	CO026_HUMAN	hypothetical protein LOC161502	295											0						TGGAGCAGGCCATGGGCCTTG	0.527													37	98					2.13883e-14	2.38013e-14	0.01441	1	0		A	81440853	A	A	81440853	2	1	156	1	0	0	0	0	0	0	0	1	1790	581	21	5		5	C15orf26	15	81440853	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	12101041	81440853	21090539	131	85510											
ST8SIA2	8128	broad.mit.edu	37	chr15	92988117	92988117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcaccacgtcaacgtgcGcactgcatacccctcgctgc	9	6	9	17	4	1	0	1	0	0	0	2	1	1	0	3	0	6	4	3	0	3	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr15:92988117G>A	uc002bra.2	+	5	955	c.800G>A	c.(799-801)CGC>CAC	p.R267H	ST8SIA2_uc002brb.2_Missense_Mutation_p.R246H	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	267	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			GTCAACGTGCGCACTGCATAC	0.617													75	121					0	0	0.01441	0	0		A	92988117	A	A	92988117	3	1	156	1	0	0	0	0	1	0	0	0	15257	1087	38	1	818	1	ST8SIA2	15	92988117	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	11547264	92988117	9543275	132	85511											
CHSY1	22856	broad.mit.edu	37	chr15	101717818	101717818	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacgtcttcaaacctgcctgGacaaccttgttgaaaaggtc	12	10	8	11	1	2	1	1	1	1	0	3	2	2	2	3	2	4	1	3	2	5	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr15:101717818G>T	uc002bwt.1	-	4	2667	c.2184C>A	c.(2182-2184)GTC>GTA	p.V728V	CHSY1_uc010usd.1_Silent_p.V456V	NM_014918	NP_055733	Q86X52	CHSS1_HUMAN	chondroitin sulfate synthase 1	728	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity				0	Lung NSC(78;0.00217)|all_lung(78;0.00271)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			AACCTGCCTGGACAACCTTGT	0.488													65	143					4.79706e-38	5.65741e-38	0.01441	1	0		T	101717818	T	T	101717818	2	4	156	1	0	0	0	0	0	0	0	1	3415	1161	41	5		5	CHSY1	15	101717818	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	8729701	101717818	813574	133	85512											
ABCA3	21	broad.mit.edu	37	chr16	2329025	2329025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacgcaggccccgatgtggCgctcagggatgccccggagc	6	4	15	16	4	1	0	1	0	0	0	1	3	1	2	5	4	2	2	5	4	0	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr16:2329025C>T	uc002cpy.1	-	29	5178	c.4466G>A	c.(4465-4467)CGC>CAC	p.R1489H	ABCA3_uc010bsk.1_Missense_Mutation_p.R1431H	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1489	ABC transporter 2.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CCCGATGTGGCGCTCAGGGAT	0.652													40	53					0	0	0.005524	0	0		T	2329025	T	T	2329025	3	4	156	1	0	0	0	0	1	0	0	0	33	768	27	1	668	1	ABCA3	16	2329025	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08		2329025	88025728	134	85513											
VASN	114990	broad.mit.edu	37	chr16	4431585	4431585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgagtgccacctgtgatccGaggcctccggggcctgacgc	5	6	15	15	4	0	2	0	2	0	0	2	4	2	2	6	3	1	0	6	3	0	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr16:4431585G>A	uc002cwj.1	+	2	862	c.707G>A	c.(706-708)CGA>CAA	p.R236Q	CORO7_uc002cwe.2_Intron|CORO7_uc002cwf.2_Intron|CORO7_uc002cwg.3_Intron|CORO7_uc002cwh.3_Intron|CORO7_uc010uxh.1_Intron|CORO7_uc010uxi.1_Intron|CORO7_uc002cwi.1_Intron|CORO7_uc010uxj.1_Intron|CORO7_uc010btp.1_Intron	NM_138440	NP_612449	Q6EMK4	VASN_HUMAN	slit-like 2 precursor	236	Extracellular (Potential).|LRR 8.					extracellular region|integral to membrane					0						CCTGTGATCCGAGGCCTCCGG	0.711													4	5					0	0	0.009096	0	0		A	4431585	A	A	4431585	3	1	156	1	0	0	0	0	1	0	0	0	17153	1058	37	1	709	1	VASN	16	4431585	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	2102560	4431585	85923168	135	85514											
CES7	221223	broad.mit.edu	37	chr16	55883653	55883653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcactgaggccggtgccGaaactcatagaagtagacag	15	5	12	9	2	1	3	1	1	0	2	1	4	1	3	2	2	3	2	2	2	5	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr16:55883653G>A	uc002eip.2	-	11	1455	c.1306C>T	c.(1306-1308)CGG>TGG	p.R436W	CES7_uc002eio.2_Intron|CES7_uc002eiq.2_Missense_Mutation_p.R197W|CES7_uc002eir.2_Missense_Mutation_p.R330W	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	436						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		GGCCGGTGCCGAAACTCATAG	0.572													15	77					0	0	0.010504	0	0		A	55883653	A	A	55883653	3	1	156	1	0	0	0	0	1	0	0	0	3275	1057	37	1	433	1	CES7	16	55883653	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	51452068	55883653	34471100	136	85515											
SPG7	6687	broad.mit.edu	37	chr16	89623299	89623299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgcctgttctttctagctggCaaacgcccttctggaaaagg	8	12	10	11	1	3	0	0	0	3	0	3	1	3	1	2	3	3	3	2	3	4	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr16:89623299C>T	uc002fnj.2	+	17	2207	c.2186C>T	c.(2185-2187)GCA>GTA	p.A729V	SPG7_uc002fnl.2_Missense_Mutation_p.A138V	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	729	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		TTCTAGCTGGCAAACGCCCTT	0.562													12	173					0	0	0.010729	0	0		T	89623299	T	T	89623299	3	4	156	1	0	0	0	0	1	0	0	0	15069	710	25	2	2402	2	SPG7	16	89623299	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	33739646	89623299	731454	137	85516											
SLC43A2	124935	broad.mit.edu	37	chr17	1478995	1478995	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgctccagctggcgccggTagcagatcaggtagagcggg	7	5	17	12	4	1	2	1	0	0	2	2	2	2	2	3	4	3	5	3	4	2	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:1478995T>C	uc002fsv.2	-	14	1702	c.1613A>G	c.(1612-1614)TAC>TGC	p.Y538C	SLC43A2_uc002fsu.2_Missense_Mutation_p.Y542C	NM_152346	NP_689559	Q8N370	LAT4_HUMAN	solute carrier family 43, member 2	538					cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0883)		CTGGCGCCGGTAGCAGATCAG	0.637													4	12					0	0	0.004482	0	0		C	1478995	C	C	1478995	3	2	156	1	0	0	0	0	1	0	0	0	14658	1638	57	3	100	3	SLC43A2	17	1478995	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08		1478995	79716215	138	85517											
TP53	7157	broad.mit.edu	37	chr17	7577130	7577130	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcacaaacacgcacctcaaAgctgttccgtcccagtagat	12	7	8	14	2	1	1	1	0	0	1	3	1	3	1	3	1	2	5	3	1	3	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:7577130A>G	uc002gim.2	-	8	1002	c.808T>C	c.(808-810)TTT>CTT	p.F270L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.F270L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.F138L|TP53_uc010cng.1_Missense_Mutation_p.F138L|TP53_uc002gii.1_Missense_Mutation_p.F138L|TP53_uc010cnh.1_Missense_Mutation_p.F270L|TP53_uc010cni.1_Missense_Mutation_p.F270L|TP53_uc002gij.2_Missense_Mutation_p.F270L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	270	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		F -> L (in sporadic cancers; somatic mutation).|F -> Y (in sporadic cancers; somatic mutation).|F -> C (in sporadic cancers; somatic mutation).|F -> V (in sporadic cancers; somatic mutation).|F -> S (in sporadic cancers; somatic mutation).|F -> I (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.F270L(22)|p.F270C(15)|p.F270V(8)|p.0?(7)|p.F270S(7)|p.F270Y(5)|p.F270I(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.G262_F270delGNLLGRNSF(2)|p.F270fs*72(1)|p.S269fs*75(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.E258fs*71(1)|p.S269fs*34(1)|p.F270_D281del12(1)|p.S269_F270insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGCACCTCAAAGCTGTTCCGT	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	25					0	0	0.007413	0	0		G	7577130	G	G	7577130	3	3	156	1	0	0	0	0	1	0	0	0	16407	72	3	3	478	3	TP53	17	7577130	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	6098135	7577130	73618080	139	85518											
CWC25	54883	broad.mit.edu	37	chr17	36971114	36971114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctagccccccattagtacCtgatgatgaagagtgggtcc	9	10	10	12	0	0	4	0	3	0	1	2	4	2	4	6	1	2	1	6	1	4	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:36971114C>T	uc002hqu.2	-	3	581	c.428G>A	c.(427-429)AGG>AAG	p.R143K	CWC25_uc010wdv.1_Missense_Mutation_p.R80K|CWC25_uc010wdw.1_RNA|CWC25_uc010wdx.1_RNA	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	143											0						CCATTAGTACCTGATGATGAA	0.488													8	26					0	0	0.004482	0	0		T	36971114	T	T	36971114	3	4	156	1	0	0	0	0	1	0	0	0	4072	695	24	4	881	4	CWC25	17	36971114	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	29393984	36971114	44224096	140	85519											
PLEKHH3	79990	broad.mit.edu	37	chr17	40820258	40820258	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcatggaggagaagagctgcTgcagggcctctcgggggagg	8	5	20	8	1	1	2	0	0	1	2	2	5	1	4	1	6	3	4	1	6	1	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:40820258T>A	uc002iau.2	-	13	2736	c.2269A>T	c.(2269-2271)AGC>TGC	p.S757C	PLEKHH3_uc010cyl.1_RNA|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Missense_Mutation_p.S118C|PLEKHH3_uc002iaw.2_3'UTR	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	757	Poly-Ser.				signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		GAAGAGCTGCTGCAGGGCCTC	0.647													4	14					0	0	0.014758	0	0		A	40820258	A	A	40820258	3	1	156	1	0	0	0	0	1	0	0	0	12097	1580	55	5	116	5	PLEKHH3	17	40820258	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08	3849144	40820258	40374952	141	85520											
SEPT4	5414	broad.mit.edu	37	chr17	56598621	56598621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcagtgctttaccttccaCgatgccccaggggtagagtc	7	10	11	13	1	1	1	1	0	0	1	3	2	2	1	4	2	3	3	4	2	2	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:56598621C>T	uc002iwm.1	-	9	1236	c.1108G>A	c.(1108-1110)GTG>ATG	p.V370M	SEPT4_uc002iwk.1_Missense_Mutation_p.V223M|SEPT4_uc010wnw.1_Missense_Mutation_p.V223M|SEPT4_uc002iwl.1_Missense_Mutation_p.V223M|SEPT4_uc002iwn.1_Missense_Mutation_p.V271M|SEPT4_uc002iwo.1_Missense_Mutation_p.V351M|SEPT4_uc002iwp.1_3'UTR|SEPT4_uc010wnx.1_Missense_Mutation_p.V385M|SEPT4_uc010wny.1_Missense_Mutation_p.V362M|SEPT4_uc010dcy.1_3'UTR	NM_004574	NP_004565	O43236	SEPT4_HUMAN	septin 4 isoform 1	370					apoptosis|cell cycle|cytokinesis|regulation of apoptosis	cytoskeleton|mitochondrion|nucleus	GTP binding|GTPase activity|protein binding|structural molecule activity				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TTACCTTCCACGATGCCCCAG	0.577											OREG0024614	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	79					0	0	0.003163	0	0		T	56598621	T	T	56598621	3	4	156	1	0	0	0	0	1	0	0	0	14091	536	19	1	344	1	SEPT4	17	56598621	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	15778363	56598621	24596589	142	85521											
BCAS3	54828	broad.mit.edu	37	chr17	59093117	59093117	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttctctttgtagggaaaCtgaacagccaagactcctat	11	14	7	9	0	1	2	0	1	1	1	3	3	2	3	2	1	3	1	2	1	5	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:59093117C>G	uc002iyv.3	+	16	1601	c.1492C>G	c.(1492-1494)CTG>GTG	p.L498V	BCAS3_uc010wow.1_Missense_Mutation_p.L285V|BCAS3_uc002iyu.3_Missense_Mutation_p.L498V|BCAS3_uc002iyw.3_Missense_Mutation_p.L494V|BCAS3_uc002iyy.3_Missense_Mutation_p.L269V|BCAS3_uc002iyz.3_Missense_Mutation_p.L52V|BCAS3_uc002iza.3_Missense_Mutation_p.L52V	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	498						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TGTAGGGAAACTGAACAGCCA	0.448													59	251					0	0	0.01441	0	0		G	59093117	G	G	59093117	3	3	156	1	0	0	0	0	1	0	0	0	1353	564	20	5	1550	5	BCAS3	17	59093117	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	2494496	59093117	22102093	143	85522											
GH2	2689	broad.mit.edu	37	chr17	61949672	61949672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagtccggcggctgccGtcttccagcctctgcaaagt	5	9	11	16	3	2	0	0	0	2	0	4	0	4	0	5	2	4	2	5	2	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:61949672G>A	uc002jcj.2	-	5	526	c.464C>T	c.(463-465)ACG>ATG	p.T155M	CSH2_uc002jcg.2_Silent_p.D61D|CSH2_uc002jch.2_Silent_p.D156D|CSH2_uc002jci.2_3'UTR|CSH2_uc002jck.2_Silent_p.D156D	NM_022557	NP_072051	P01242	SOM2_HUMAN	growth hormone 2 isoform 2	Error:Variant_position_missing_in_P01242_after_alignment						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						GGCGGCTGCCGTCTTCCAGCC	0.552													16	58					0	0	0.010818	0	0		A	61949672	A	A	61949672	3	1	156	1	0	0	0	0	1	0	0	0	6383	1136	40	1		1	GH2	17	61949672	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	2856555	61949672	19245538	144	85523											
KIF19	124602	broad.mit.edu	37	chr17	72350375	72350375	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgctcgcgggccctgggaAccgaggggcgacacctgctg	5	4	18	14	5	0	0	0	0	0	0	1	3	0	1	3	5	2	2	3	5	1	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr17:72350375A>C	uc002jkm.3	+	18	2521	c.2383A>C	c.(2383-2385)ACC>CCC	p.T795P		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	795					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						GGCCCTGGGAACCGAGGGGCG	0.697													11	26					0	0	0.013537	0	0		C	72350375	C	C	72350375	3	2	156	1	0	0	0	0	1	0	0	0	8298	43	2	5	2453	5	KIF19	17	72350375	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	10400703	72350375	8844835	145	85524											
SS18	6760	broad.mit.edu	37	chr18	23615079	23615079	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcatcttgctgttggccaTactgtgaatttcctacagga	9	14	9	9	0	1	1	0	1	1	0	2	2	2	2	2	2	4	3	2	2	3	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr18:23615079T>G	uc002kvm.2	-	9	1064	c.986A>C	c.(985-987)TAT>TCT	p.Y329S	SS18_uc002kvn.2_Missense_Mutation_p.Y298S|SS18_uc010xbf.1_Missense_Mutation_p.Y247S|SS18_uc010xbg.1_Missense_Mutation_p.Y246S|SS18_uc010xbh.1_Missense_Mutation_p.Y246S|SS18_uc010xbi.1_Missense_Mutation_p.Y306S|SS18_uc010dlz.1_Missense_Mutation_p.Y277S	NM_001007559	NP_001007560	Q15532	SSXT_HUMAN	synovial sarcoma translocation, chromosome 18	329	Gln-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	ligand-dependent nuclear receptor transcription coactivator activity|protein binding		SS18/SSX1(1169)|SS18/SSX2(702)|SS18/SSX4(12)	soft_tissue(1883)|ovary(1)	1884	all_cancers(21;0.000194)|Lung NSC(5;0.000413)|all_lung(6;0.00118)|Ovarian(20;0.124)					CTGTTGGCCATACTGTGAATT	0.473			T	SSX1| SSX2	synovial sarcoma								32	167					0	0	0.015359	0	0		G	23615079	G	G	23615079	3	3	156	1	0	0	0	0	1	0	0	0	15200	1406	49	5	282	5	SS18	18	23615079	Missense_Mutation	SNP	T	TCGA-CG-5727-01A-11D-1600-08		23615079	54462169	146	85525											
NARS	4677	broad.mit.edu	37	chr18	55268941	55268941	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacacgtctcggatgtgataCctattcagaatccacgttaa	12	11	7	11	3	2	2	1	1	1	1	4	3	3	3	2	1	1	1	2	1	4	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr18:55268941C>A	uc002lgs.2	-	14	1818	c.1590G>T	c.(1588-1590)AGG>AGT	p.R530S	NARS_uc002lgt.2_Missense_Mutation_p.R529S|NARS_uc010xea.1_Missense_Mutation_p.R281S	NM_004539	NP_004530	O43776	SYNC_HUMAN	asparaginyl-tRNA synthetase	530					asparaginyl-tRNA aminoacylation	cytosol|soluble fraction	asparagine-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding				0		Colorectal(73;0.227)			L-Asparagine(DB00174)	GGATGTGATACCTATTCAGAA	0.428													45	192					5.20837e-25	6.04394e-25	0.00874	1	0		A	55268941	A	A	55268941	3	1	156	1	0	0	0	0	1	0	0	0	10188	506	18	5	60	5	NARS	18	55268941	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	31653862	55268941	22808307	147	85526											
C19orf26	255057	broad.mit.edu	37	chr19	1235849	1235849	+	Silent	SNP	G	T	T	0	0	1	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	ccagacaacaccaccagcgtGccccccacgaacagcgacat	13	2	7	19	3	0	1	0	0	0	1	0	3	0	1	6	0	5	0	6	0	2	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:1235849G>T	uc002lrm.2	-	3	431	c.156C>A	c.(154-156)GGC>GGA	p.G52G		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	52	Helical; (Potential).					integral to membrane					0		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)		CCACCAGCGTGCCCCCCACGA	0.677										HNSCC(14;0.022)			35	61					2.75727e-19	3.16576e-19	0.021022	1	0		T	1235849	T	T	1235849	2	4	156	1	0	0	0	0	0	0	0	1	1919	1306	46	5		5	C19orf26	19	1235849	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08		1235849	57893134	148	85527											
C3	718	broad.mit.edu	37	chr19	6680225	6680225	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggataagctctacattaAagtattggtgaactttgaaa	14	13	9	5	0	1	2	0	2	1	0	1	3	1	3	0	2	3	3	0	2	7	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:6680225A>T	uc002mfm.2	-	36	4462	c.4400T>A	c.(4399-4401)TTT>TAT	p.F1467Y	C3_uc002mfl.2_Missense_Mutation_p.F203Y	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1467					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CTCTACATTAAAGTATTGGTG	0.542													22	103					0	0	0.016522	0	0		T	6680225	T	T	6680225	3	4	156	1	0	0	0	0	1	0	0	0	2207	14	1	5	615	5	C3	19	6680225	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	5444376	6680225	52448758	149	85528											
C3	718	broad.mit.edu	37	chr19	6711199	6711199	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgagagctcctgcttcttCgtgcgcacctgggtggggaa	5	10	14	12	3	1	1	0	0	1	1	4	3	3	2	3	3	3	3	3	3	1	2	rs138824784		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:6711199C>T	uc002mfm.2	-	12	1340	c.1278G>A	c.(1276-1278)ACG>ACA	p.T426T		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	426					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		CCTGCTTCTTCGTGCGCACCT	0.423													16	59					0	0	0.004007	0	0		T	6711199	T	T	6711199	2	4	156	1	0	0	0	0	0	0	0	1	2207	871	31	1		1	C3	19	6711199	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	30974	6711199	52417784	150	85529											
OR10H5	284433	broad.mit.edu	37	chr19	15905399	15905399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccatttcttctgccacGtgccacctctgttgaagttg	6	14	7	14	1	3	1	0	1	3	0	4	1	4	1	5	0	2	2	5	0	1	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:15905399G>A	uc010xos.1	+	1	541	c.541G>A	c.(541-543)GTG>ATG	p.V181M		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTTCTGCCACGTGCCACCTCT	0.582													19	103					0	0	0.010504	0	0		A	15905399	A	A	15905399	3	1	156	1	0	0	0	0	1	0	0	0	10928	1145	40	1	543	1	OR10H5	19	15905399	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	9194200	15905399	43223584	151	85530											
UNC13A	23025	broad.mit.edu	37	chr19	17737485	17737485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggctgcaacacattgtccgCgtcctgggccacgctgctgc	5	8	13	15	3	0	0	0	0	0	0	2	0	2	0	3	2	4	4	3	2	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:17737485C>T	uc002nhd.2	-	34	4294	c.4294G>A	c.(4294-4296)GCG>ACG	p.A1432T		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1344					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ACATTGTCCGCGTCCTGGGCC	0.617													3	3					0	0	0.014758	0	0		T	17737485	T	T	17737485	3	4	156	1	0	0	0	0	1	0	0	0	17010	768	27	1	1121	1	UNC13A	19	17737485	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	1832086	17737485	41391498	152	85531											
SF4	57794	broad.mit.edu	37	chr19	19414582	19414582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catagctactttttctaactCggggcctccttctgccacaa	8	13	6	14	1	2	0	0	0	2	0	4	0	3	0	3	2	4	1	3	2	4	6	rs150375001		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:19414582C>T	uc002nmh.2	-	5	615	c.613G>A	c.(613-615)GAG>AAG	p.E205K	SF4_uc002nmf.2_5'Flank|SF4_uc002nmg.2_5'UTR|SF4_uc002nmi.2_5'UTR|SF4_uc002nmj.2_5'UTR|SF4_uc010xqr.1_RNA|SF4_uc010xqs.1_Intron	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	205	SURP motif 1.				nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						TTTTCTAACTCGGGGCCTCCT	0.527													63	323					0	0	0.01441	0	0		T	19414582	T	T	19414582	3	4	156	1	0	0	0	0	1	0	0	0	14180	893	31	1	1364	1	SF4	19	19414582	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	1677097	19414582	39714401	153	85532											
TSHZ3	57616	broad.mit.edu	37	chr19	31769042	31769042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgttgggaagttggtaggCggcatggatgctgggatagc	8	10	18	5	1	0	0	0	0	0	0	0	3	0	3	0	6	2	5	0	6	3	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:31769042C>T	uc002nsy.3	-	2	1722	c.1657G>A	c.(1657-1659)GCC>ACC	p.A553T		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	553					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					AGTTGGTAGGCGGCATGGATG	0.552													38	177					0	0	0.006999	0	0		T	31769042	T	T	31769042	3	4	156	1	0	0	0	0	1	0	0	0	16651	768	27	1	1592	1	TSHZ3	19	31769042	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	12354460	31769042	27359941	154	85533											
DPY19L3	147991	broad.mit.edu	37	chr19	32930708	32930709	+	Missense_Mutation	DNP	AT	TA	TA																															acacttcttgccattttcatAtcaacttttctctttagtct																										TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:32930708_32930709AT>TA	uc002ntg.2	+	8	923_924	c.747_748AT>TA	c.(745-750)ATATCA>ATTACA	p.S250T	DPY19L3_uc002nth.1_Missense_Mutation_p.S250T|DPY19L3_uc002nti.1_RNA	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	250	Helical; (Potential).					integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					CCATTTTCATATCAACTTTTCT	0.371													10	141					0	0	0.004672	0	0		TA	32930709	TA	TA	32930708	3	4	156	1	0	0	0	0	1	0	0	0	4748	439	16	5	773	5	DPY19L3	19	32930708	Missense_Mutation	DNP	AT	TCGA-CG-5727-01A-11D-1600-08	1161666	32930708	26198275	155	85534											
SIPA1L3	23094	broad.mit.edu	37	chr19	38573359	38573359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcggccatggcctccctcaCggcctcgcgggcccacagcc	4	5	11	21	4	1	0	1	0	0	0	4	0	2	0	6	4	1	0	6	4	0	0	rs141710131		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:38573359C>T	uc002ohk.2	+	3	1663	c.1154C>T	c.(1153-1155)ACG>ATG	p.T385M		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	385					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCCTCCCTCACGGCCTCGCGG	0.692													7	12					0	0	0.008291	0	0		T	38573359	T	T	38573359	3	4	156	1	0	0	0	0	1	0	0	0	14356	536	19	1	1156	1	SIPA1L3	19	38573359	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	5642651	38573359	20555624	156	85535											
RYR1	6261	broad.mit.edu	37	chr19	38976356	38976356	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcgcacgctctgtgcagccaCgtagaccaagctcagctgct	8	7	11	15	3	2	1	1	0	1	1	2	1	2	1	2	0	5	7	2	0	2	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:38976356C>T	uc002oit.2	+	34	5191	c.5061C>T	c.(5059-5061)CAC>CAT	p.H1687H	RYR1_uc002oiu.2_Silent_p.H1687H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1687	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TGTGCAGCCACGTAGACCAAG	0.662													29	68					0	0	0.00632	0	0		T	38976356	T	T	38976356	2	4	156	1	0	0	0	0	0	0	0	1	13793	535	19	1		1	RYR1	19	38976356	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	402997	38976356	20152627	157	85536											
ERF	2077	broad.mit.edu	37	chr19	42753352	42753352	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtcctcagggctgaaGgagaagtgggagcctccccc	8	8	13	12	0	2	2	2	1	0	1	4	4	4	3	4	3	1	1	4	3	2	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:42753352G>A	uc002ote.3	-	4	1070	c.912C>T	c.(910-912)TCC>TCT	p.S304S	ERF_uc002otd.3_Silent_p.S35S	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	304					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CAGGGCTGAAGGAGAAGTGGG	0.677													4	24					0	0	0.014758	0	0		A	42753352	A	A	42753352	2	1	156	1	0	0	0	0	0	0	0	1	5229	987	35	4		4	ERF	19	42753352	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	3776996	42753352	16375631	158	85537											
PPP2R1A	5518	broad.mit.edu	37	chr19	52714526	52714526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacagccaccgctggagtCgctggccacagtggaggaga	10	4	14	13	2	0	1	0	0	0	1	1	4	0	3	4	4	1	2	4	4	0	0	rs148604195		TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:52714526C>T	uc002pyp.2	+	4	443	c.284C>T	c.(283-285)TCG>TTG	p.S95L	PPP2R1A_uc010ydk.1_Missense_Mutation_p.S40L|PPP2R1A_uc010epm.1_Missense_Mutation_p.S135L|PPP2R1A_uc002pyq.2_5'UTR	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	95	PP2A subunit B binding.|SV40 small T antigen binding.|HEAT 3.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CCGCTGGAGTCGCTGGCCACA	0.627			Mis		clear cell ovarian carcinoma								14	25					0	0	0.004007	0	0		T	52714526	T	T	52714526	3	4	156	1	0	0	0	0	1	0	0	0	12404	893	31	1	298	1	PPP2R1A	19	52714526	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	9961174	52714526	6414457	159	85538											
ZNF578	147660	broad.mit.edu	37	chr19	53014551	53014551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatccctgacatgccatcGtagatgtcacactggtgaga	10	10	10	11	1	2	3	2	2	0	2	4	4	3	3	2	1	1	1	2	1	1	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:53014551G>A	uc002pzp.3	+	6	1161	c.917G>A	c.(916-918)CGT>CAT	p.R306H		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	81	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		ACATGCCATCGTAGATGTCAC	0.433													28	161					0	0	0.005443	0	0		A	53014551	A	A	53014551	3	1	156	1	0	0	0	0	1	0	0	0	18035	1145	40	1	927	1	ZNF578	19	53014551	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	300025	53014551	6114432	160	85539											
ZNF331	55422	broad.mit.edu	37	chr19	54080995	54080995	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtgggaaggctttcatttAtggatcgagcctcgtgaaac	9	12	13	7	2	1	1	1	1	0	0	3	4	1	3	1	3	2	1	1	3	3	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:54080995A>G	uc002qbx.1	+	7	2615	c.1181A>G	c.(1180-1182)TAT>TGT	p.Y394C	ZNF331_uc002qby.1_Missense_Mutation_p.Y394C|ZNF331_uc002qbz.1_Missense_Mutation_p.Y394C|ZNF331_uc002qca.1_Missense_Mutation_p.Y394C|ZNF331_uc010eqr.1_Missense_Mutation_p.Y394C|ZNF331_uc002qcb.1_Missense_Mutation_p.Y394C|ZNF331_uc002qcc.1_Missense_Mutation_p.Y394C|ZNF331_uc002qcd.1_Missense_Mutation_p.Y394C	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	394	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		GCTTTCATTTATGGATCGAGC	0.488			T	?	follicular thyroid adenoma								15	54					0	0	0.004007	0	0		G	54080995	G	G	54080995	3	3	156	1	0	0	0	0	1	0	0	0	17874	449	16	3	1191	3	ZNF331	19	54080995	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	1066444	54080995	5047988	161	85540											
KIR2DL4	3805	broad.mit.edu	37	chr19	55316320	55316320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacacgtgactcttcGgtgtcactatcgtcgtgggt	7	11	14	9	4	2	1	1	1	1	0	5	3	2	3	0	4	0	0	0	4	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:55316320G>A	uc010yfm.1	+	3	189	c.149G>A	c.(148-150)CGG>CAG	p.R50Q	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL4_uc010yfl.1_Missense_Mutation_p.R45Q|KIR2DL4_uc002qhg.2_Missense_Mutation_p.R50Q|KIR2DL4_uc002qhi.2_Missense_Mutation_p.R50Q|KIR2DL4_uc002qhh.2_Intron|KIR2DL4_uc002qhj.2_Missense_Mutation_p.R50Q|KIR2DL4_uc002qhf.2_Intron|KIR2DL4_uc010esd.2_Missense_Mutation_p.R50Q|KIR2DL4_uc010ese.2_5'Flank	NM_002255	NP_002246	Q99706	KI2L4_HUMAN	killer cell immunoglobulin-like receptor, two	50	Ig-like C2-type 1.|Extracellular (Potential).				cellular defense response|regulation of immune response	integral to plasma membrane	protein binding|transmembrane receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0192)		GTGACTCTTCGGTGTCACTAT	0.547													33	37					0	0	0.019004	0	0		A	55316320	A	A	55316320	3	1	156	1	0	0	0	0	1	0	0	0	8334	1116	39	1	159	1	KIR2DL4	19	55316320	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	1235325	55316320	3812663	162	85541											
ZNF71	58491	broad.mit.edu	37	chr19	57133750	57133750	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcggcaaggccttcagcaaGaactcctcgctcacgcagca	10	6	10	15	3	2	1	2	0	0	1	4	1	3	1	2	2	4	5	2	2	3	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:57133750G>C	uc002qnm.3	+	3	1333	c.1095G>C	c.(1093-1095)AAG>AAC	p.K365N		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	365	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CCTTCAGCAAGAACTCCTCGC	0.622													17	59					0	0	0.006122	0	0		C	57133750	C	C	57133750	3	2	156	1	0	0	0	0	1	0	0	0	18139	933	33	5	1097	5	ZNF71	19	57133750	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	1817430	57133750	1995233	163	85542											
ZNF264	9422	broad.mit.edu	37	chr19	57705342	57705342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtaccaggaggtgatgctgGaaaactgtgggctcctggtg	8	10	16	7	0	0	1	0	1	0	0	1	3	1	3	2	5	3	3	2	5	3	1			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr19:57705342G>A	uc002qob.2	+	2	546	c.133G>A	c.(133-135)GAA>AAA	p.E45K		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	45	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		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)		GGTGATGCTGGAAAACTGTGG	0.577													29	116					0	0	0.008361	0	0		A	57705342	A	A	57705342	3	1	156	1	0	0	0	0	1	0	0	0	17829	1175	41	4	139	4	ZNF264	19	57705342	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	571592	57705342	1423641	164	85543											
RBCK1	10616	broad.mit.edu	37	chr20	409672	409672	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aagaaggacggctgcgactgGatccgctgcaccgtctgcca	9	6	13	13	4	1	1	0	0	1	1	2	4	2	3	3	3	3	3	3	3	2	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:409672G>C	uc002wdp.3	+	11	2079	c.1386G>C	c.(1384-1386)TGG>TGC	p.W462C	RBCK1_uc002wdq.3_Missense_Mutation_p.W420C|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_Missense_Mutation_p.W292C	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	462	IBR-type 2.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				GCTGCGACTGGATCCGCTGCA	0.667													4	55					0	0	0.014758	0	0		C	409672	C	C	409672	3	2	156	1	0	0	0	0	1	0	0	0	13132	1183	41	5	1447	5	RBCK1	20	409672	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08		409672	62615848	165	85544											
RASSF2	9770	broad.mit.edu	37	chr20	4771170	4771170	+	Missense_Mutation	SNP	A	G	G	1	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	gctggtcactaggcgtcctcAcattgccacggcgacgcacc	7	7	11	16	4	2	0	2	0	0	0	3	1	3	0	3	3	1	2	3	3	1	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:4771170A>G	uc002wld.2	-	6	518	c.464T>C	c.(463-465)GTG>GCG	p.V155A	RASSF2_uc002wlc.2_RNA|RASSF2_uc002wle.2_RNA|RASSF2_uc002wlf.2_Missense_Mutation_p.V155A	NM_170774	NP_739580	P50749	RASF2_HUMAN	Ras association domain family 2	155					cell cycle|signal transduction	nucleus	protein binding			ovary(3)|lung(2)|large_intestine(1)	6						AGGCGTCCTCACATTGCCACG	0.617													23	71					0	0	0.01892	0	0		G	4771170	G	G	4771170	3	3	156	1	0	0	0	0	1	0	0	0	13111	159	6	3	540	3	RASSF2	20	4771170	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	4361498	4771170	58254350	166	85545											
SPTLC3	55304	broad.mit.edu	37	chr20	13098334	13098334	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatgggcacattcaccaaaAgttttggagcttcaggaggt	11	11	11	8	0	3	0	3	0	0	0	3	2	3	2	1	4	1	3	1	4	2	4			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:13098334A>C	uc002wod.1	+	8	1403	c.1114A>C	c.(1114-1116)AGT>CGT	p.S372R		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	372					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	ATTCACCAAAAGTTTTGGAGC	0.542													53	289					0	0	0.01441	0	0		C	13098334	C	C	13098334	3	2	156	1	0	0	0	0	1	0	0	0	15150	72	3	5	1144	5	SPTLC3	20	13098334	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	8327164	13098334	49927186	167	85546											
CST2	1470	broad.mit.edu	37	chr20	23807102	23807102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtagcacccgcagcaggcGtctgtagtactcatcttcag	8	10	10	13	3	4	0	2	0	2	0	5	0	4	0	1	1	3	6	1	1	3	4	rs112783512	byFrequency	TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:23807102G>A	uc002wtq.1	-	1	211	c.196C>T	c.(196-198)CGC>TGC	p.R66C		NM_001322	NP_001313	P09228	CYTT_HUMAN	cystatin SA precursor	66						extracellular region	cysteine-type endopeptidase inhibitor activity				0						CGCAGCAGGCGTCTGTAGTAC	0.557													24	60					0	0	0.01892	0	0		A	23807102	A	A	23807102	3	1	156	1	0	0	0	0	1	0	0	0	3975	1145	40	1	241	1	CST2	20	23807102	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	10708768	23807102	39218418	168	85547											
DYNLRB1	83658	broad.mit.edu	37	chr20	33122521	33122521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaaggcacggagcaccGtgcgtgacatcgacccccag	9	5	12	15	4	0	2	0	2	0	0	2	4	1	3	4	2	2	2	4	2	1	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:33122521G>A	uc002xal.2	+	3	229	c.169G>A	c.(169-171)GTG>ATG	p.V57M	DYNLRB1_uc010zuk.1_Missense_Mutation_p.V57M|DYNLRB1_uc002xam.2_RNA|DYNLRB1_uc002xan.2_RNA	NM_014183	NP_054902	Q9NP97	DLRB1_HUMAN	Roadblock-1	57					microtubule-based movement|transport|visual behavior	centrosome|cytoplasmic dynein complex|microtubule	microtubule motor activity				0						ACGGAGCACCGTGCGTGACAT	0.547													24	134					0	0	0.01892	0	0		A	33122521	A	A	33122521	3	1	156	1	0	0	0	0	1	0	0	0	4856	1145	40	1	179	1	DYNLRB1	20	33122521	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	9315419	33122521	29902999	169	85548											
PTPRT	11122	broad.mit.edu	37	chr20	41100955	41100955	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgctctccattcggccctcGgggttagacagcaagagtcg	7	9	12	13	4	1	2	0	0	1	2	6	2	1	2	2	3	1	3	2	3	2	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:41100955G>A	uc002xkg.2	-	8	1585	c.1401C>T	c.(1399-1401)CCC>CCT	p.P467P	PTPRT_uc010ggj.2_Silent_p.P467P	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	467	Extracellular (Potential).|Fibronectin type-III 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TTCGGCCCTCGGGGTTAGACA	0.587													43	144					0	0	0.006999	0	0		A	41100955	A	A	41100955	2	1	156	1	0	0	0	0	0	0	0	1	12837	1103	39	1		1	PTPRT	20	41100955	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	7978434	41100955	21924565	170	85549											
SEMG1	6406	broad.mit.edu	37	chr20	43836661	43836661	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaacctcactctgtcctgcGcaccaagacaaactccaaca	14	6	4	17	1	2	1	1	0	1	1	4	1	4	1	4	0	4	1	4	0	4	0			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:43836661G>A	uc002xni.2	+	2	780	c.723G>A	c.(721-723)GCG>GCA	p.A241A	SEMG1_uc002xnj.2_Silent_p.A241A|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Silent_p.A241A	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	241	42 AA repeat 2.				insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				TCTGTCCTGCGCACCAAGACA	0.378													34	316					0	0	0.013726	0	0		A	43836661	A	A	43836661	2	1	156	1	0	0	0	0	0	0	0	1	14069	1074	38	1		1	SEMG1	20	43836661	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	2735706	43836661	19188859	171	85550											
ZNF217	7764	broad.mit.edu	37	chr20	52192732	52192732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggtttcaattttgtctcGggtctttttgtcttatccgg	5	19	10	7	2	4	1	1	0	3	1	6	1	5	1	1	3	0	1	1	3	2	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr20:52192732G>A	uc002xwq.3	-	3	2842	c.2571C>T	c.(2569-2571)CCC>CCT	p.P857P	ZNF217_uc010gij.1_Silent_p.P849P	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	857					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			ATTTTGTCTCGGGTCTTTTTG	0.532													41	369					0	0	0.006999	0	0		A	52192732	A	A	52192732	2	1	156	1	0	0	0	0	0	0	0	1	17797	1103	39	1		1	ZNF217	20	52192732	Silent	SNP	G	TCGA-CG-5727-01A-11D-1600-08	8356071	52192732	10832788	172	85551											
TPTE	7179	broad.mit.edu	37	chr21	10941947	10941947	+	Silent	SNP	T	C	C	0	1	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	aaagactgccttccagaagaTggaaatgacatagcaataat	18	8	8	7	0	0	4	0	1	0	3	1	5	1	5	2	1	2	1	2	1	6	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr21:10941947T>C	uc002yip.1	-	14	1124	c.756A>G	c.(754-756)CCA>CCG	p.P252P	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.P234P|TPTE_uc002yir.1_Silent_p.P214P|TPTE_uc010gkv.1_Silent_p.P114P	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	252	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTCCAGAAGATGGAAATGACA	0.289													32	470					0	0	0.010818	0	0		C	10941947	C	C	10941947	2	2	156	1	0	0	0	0	0	0	0	1	16456	1451	51	3		3	TPTE	21	10941947	Silent	SNP	T	TCGA-CG-5727-01A-11D-1600-08		10941947	37187948	173	85552											
KRTAP13-1	140258	broad.mit.edu	37	chr21	31768846	31768846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatggcgttggattctgcCgcccaacctacttggcttct	5	13	10	13	2	2	0	0	0	2	0	2	1	2	1	3	3	3	3	3	3	3	6			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr21:31768846C>T	uc002yoa.2	+	1	455	c.442C>T	c.(442-444)CGC>TGC	p.R148C		NM_181599	NP_853630	Q8IUC0	KR131_HUMAN	keratin associated protein 13-1	148						intermediate filament				ovary(1)	1						TGGATTCTGCCGCCCAACCTA	0.522													8	32					0	0	0.00308	0	0		T	31768846	T	T	31768846	3	4	156	1	0	0	0	0	1	0	0	0	8538	652	23	1	444	1	KRTAP13-1	21	31768846	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	20826899	31768846	16361049	174	85553											
SON	6651	broad.mit.edu	37	chr21	34924449	34924449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcacctagaccctacaGgatagcacccaggtcctata	12	8	8	13	0	1	1	1	0	0	1	2	3	2	2	4	2	2	1	4	2	5	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr21:34924449G>A	uc002yse.1	+	3	2961	c.2912G>A	c.(2911-2913)AGG>AAG	p.R971K	SON_uc002ysb.1_Missense_Mutation_p.R971K|SON_uc002ysc.2_Missense_Mutation_p.R971K|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	971	11 X 7 AA tandem repeats of [DR]-P-Y-R- [LI][AG][QHP].				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AGACCCTACAGGATAGCACCC	0.468													52	220					0	0	0.01441	0	0		A	34924449	A	A	34924449	3	1	156	1	0	0	0	0	1	0	0	0	14951	1000	35	4	2922	4	SON	21	34924449	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08	3155603	34924449	13205446	175	85554											
ZNF295	49854	broad.mit.edu	37	chr21	43413582	43413582	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagaactatctttcggcCaactcttttcagttaatgac	11	13	5	12	1	3	2	1	1	2	1	4	2	3	2	2	1	2	1	2	1	4	5			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr21:43413582C>A	uc002zab.3	-	3	837	c.623G>T	c.(622-624)TGG>TTG	p.W208L	ZNF295_uc002yzz.3_Missense_Mutation_p.W208L|ZNF295_uc002yzy.3_Missense_Mutation_p.W208L|ZNF295_uc002zaa.3_Missense_Mutation_p.W208L|ZNF295_uc010gov.1_Missense_Mutation_p.W208L|ZNF295_uc002zac.2_Missense_Mutation_p.W208L	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	208					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						ATCTTTCGGCCAACTCTTTTC	0.408													28	240					2.44723e-14	2.70943e-14	0.004656	1	0		A	43413582	A	A	43413582	3	1	156	1	0	0	0	0	1	0	0	0	17852	595	21	5	2581	5	ZNF295	21	43413582	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	8489133	43413582	4716313	176	85555											
PRMT2	3275	broad.mit.edu	37	chr21	48081793	48081793	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtttagcgtccacttcCagagcctgcaggaggggcag	7	8	14	12	1	0	1	0	0	0	1	2	2	2	2	4	4	3	3	4	4	1	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr21:48081793C>T	uc002zjx.2	+	10	1356	c.1042C>T	c.(1042-1044)CAG>TAG	p.Q348*	PRMT2_uc002zjy.2_Nonsense_Mutation_p.Q348*|PRMT2_uc010gqm.2_Nonsense_Mutation_p.Q246*|PRMT2_uc011aga.1_Intron|PRMT2_uc011agb.1_Intron|PRMT2_uc011agc.1_Intron|PRMT2_uc002zjz.1_3'UTR	NM_206962	NP_996845	P55345	ANM2_HUMAN	HMT1 hnRNP methyltransferase-like 1	348					developmental cell growth|induction of apoptosis|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of androgen receptor signaling pathway	cytosol|nucleus	androgen receptor binding|estrogen receptor binding|histone-arginine N-methyltransferase activity|peroxisome proliferator activated receptor binding|progesterone receptor binding|protein homodimerization activity|retinoic acid receptor binding|signal transducer activity|thyroid hormone receptor binding|transcription coactivator activity			ovary(1)	1	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)		CGTCCACTTCCAGAGCCTGCA	0.542													4	9					0	0	0.001168	0	0		T	48081793	T	T	48081793	4	4	156	1	0	0	0	0	0	1	0	0	12559	595	21	4	1072	4	PRMT2	21	48081793	Nonsense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08	4668211	48081793	48102	177	85556											
PVALB	5816	broad.mit.edu	37	chr22	37209779	37209779	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acaggtctctggcatctgggGagaagccttttaggatgaat	10	11	13	7	0	2	2	0	1	2	1	3	4	2	3	1	5	1	1	1	5	3	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chr22:37209779G>T	uc010gwz.2	-	3	245	c.215C>A	c.(214-216)TCC>TAC	p.S72Y	PVALB_uc003apx.2_Missense_Mutation_p.S72Y	NM_002854	NP_002845	P20472	PRVA_HUMAN	parvalbumin	72	EF-hand 1.						calcium ion binding			skin(1)	1						GGCATCTGGGGAGAAGCCTTT	0.567													49	203					9.57592e-29	1.11719e-28	0.01441	1	0		T	37209779	T	T	37209779	3	4	156	1	0	0	0	0	1	0	0	0	12861	1174	41	5	125	5	PVALB	22	37209779	Missense_Mutation	SNP	G	TCGA-CG-5727-01A-11D-1600-08		37209779	14094787	178	85557											
STARD8	9754	broad.mit.edu	37	chrX	67940949	67940949	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagctcaccaccactttcCtccagatctaccagcgtgag	10	8	7	16	1	2	2	1	1	1	1	4	2	4	2	5	0	3	2	5	0	2	2			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chrX:67940949C>A	uc004dxa.2	+	8	2365	c.1993C>A	c.(1993-1995)CTC>ATC	p.L665I	STARD8_uc004dxb.2_Missense_Mutation_p.L745I|STARD8_uc004dxc.3_Missense_Mutation_p.L665I	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	665	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						CACCACTTTCCTCCAGATCTA	0.557													6	64					4.096e-09	4.40016e-09	0.001168	1	0		A	67940949	A	A	67940949	3	1	156	1	0	0	0	0	1	0	0	0	15288	681	24	5	2267	5	STARD8	23	67940949	Missense_Mutation	SNP	C	TCGA-CG-5727-01A-11D-1600-08		67940949	87329611	179	85558											
DLG3	1741	broad.mit.edu	37	chrX	69719090	69719090	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtcaatgatgacctgatCtccgaatttccacataaatt	13	12	6	10	2	2	3	1	3	1	0	4	5	3	3	3	0	0	0	3	0	4	3			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chrX:69719090C>A	uc004dyi.1	+	15	2263	c.1935C>A	c.(1933-1935)ATC>ATA	p.I645I	DLG3_uc004dyj.1_Silent_p.I340I|DLG3_uc011mpn.1_Silent_p.I193I	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	645	Guanylate kinase-like.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					ATGACCTGATCTCCGAATTTC	0.512													23	37					9.57634e-11	1.03903e-10	0.01892	1	0		A	69719090	A	A	69719090	2	1	156	1	0	0	0	0	0	0	0	1	4562	903	32	5		5	DLG3	23	69719090	Silent	SNP	C	TCGA-CG-5727-01A-11D-1600-08	1778141	69719090	85551470	180	85559											
ATP11C	286410	broad.mit.edu	37	chrX	138864763	138864763	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtctcaatatcatcgaaaActttttccattttttcttct	9	21	2	9	1	4	0	2	0	3	0	7	1	5	0	1	0	1	0	1	0	4	8			TCGA-CG-5727-01A-11D-1600-08	TCGA-CG-5727-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	6fd34ee1-9c24-4672-be2b-cf82c1ac6bc2	248d27c2-beda-4902-9cfb-97806336b105	g.chrX:138864763A>G	uc004faz.2	-	18	2003	c.1904T>C	c.(1903-1905)GTT>GCT	p.V635A	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.V635A	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	635	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					ATCATCGAAAACTTTTTCCAT	0.333													19	79					0	0	0.008871	0	0		G	138864763	G	G	138864763	3	3	156	1	0	0	0	0	1	0	0	0	1122	43	2	3	1609	3	ATP11C	23	138864763	Missense_Mutation	SNP	A	TCGA-CG-5727-01A-11D-1600-08	69145673	138864763	16405797	181	85560											
UBE2J2	118424	broad.mit.edu	37	chr1	1192586	1192586	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggcccctccaggcaccttAcctggtgttgcacttaaacc	7	9	9	16	1	0	0	0	0	0	0	1	0	1	0	6	3	3	3	6	3	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:1192586A>G	uc001adn.2	-	4	585	c.275_splice	c.e4+1	p.R92_splice	UBE2J2_uc001adm.2_Splice_Site_p.R57_splice|UBE2J2_uc001ado.2_Splice_Site_p.R108_splice|UBE2J2_uc001adp.2_Splice_Site_p.R92_splice|UBE2J2_uc001adq.2_Splice_Site_p.R40_splice|UBE2J2_uc001adr.2_Splice_Site_p.R40_splice|UBE2J2_uc001ads.2_Splice_Site_p.R40_splice	NM_194458	NP_919440	Q8N2K1	UB2J2_HUMAN	ubiquitin conjugating enzyme E2, J2 isoform 3						response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;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;6.66e-35)|OV - Ovarian serous cystadenocarcinoma(86;3.53e-21)|Colorectal(212;0.00019)|COAD - Colon adenocarcinoma(227;0.000215)|Kidney(185;0.00255)|BRCA - Breast invasive adenocarcinoma(365;0.00266)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0371)|Lung(427;0.205)		CAGGCACCTTACCTGGTGTTG	0.512													18	81					0	0	0.007413	0	0		G	1192586	G	G	1192586	5	3	157	1	0	0	0	0	0	0	1	0	16887	405	14	3	518	3	UBE2J2	1	1192586	Splice_Site	SNP	A	TCGA-CG-5728-01A-11D-1600-08		1192586	248058035	1	85561											
CCNL2	81669	broad.mit.edu	37	chr1	1326184	1326184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagataaatgcaggcacaggCgatgctctctggctggaacc	12	7	12	10	1	1	1	0	0	1	1	2	3	1	2	1	4	3	4	1	4	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:1326184C>T	uc001afi.2	-	6	753	c.721G>A	c.(721-723)GCC>ACC	p.A241T	CCNL2_uc010nym.1_RNA|CCNL2_uc001aff.1_Missense_Mutation_p.A19T|CCNL2_uc001afg.1_Missense_Mutation_p.A19T|CCNL2_uc001afh.2_3'UTR|CCNL2_uc001afj.2_3'UTR|CCNL2_uc001afk.2_3'UTR	NM_030937	NP_112199	Q96S94	CCNL2_HUMAN	cyclin L2 isoform A	241	Cyclin-like 2.				regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			ovary(2)|central_nervous_system(1)	3	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;2.03e-36)|OV - Ovarian serous cystadenocarcinoma(86;4.17e-22)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.0023)|BRCA - Breast invasive adenocarcinoma(365;0.00465)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.146)		CAGGCACAGGCGATGCTCTCT	0.522													20	74					0	0	0.014323	0	0		T	1326184	T	T	1326184	3	4	157	1	0	0	0	0	1	0	0	0	2935	768	27	1	865	1	CCNL2	1	1326184	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	133598	1326184	247924437	2	85562											
MIB2	142678	broad.mit.edu	37	chr1	1563724	1563724	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggaggacggcttcacggcgcTgcatctggctgccctcaaca	7	7	13	14	3	3	0	2	0	1	0	3	2	3	2	1	5	3	4	1	5	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:1563724T>C	uc001agg.2	+	15	2214	c.2087T>C	c.(2086-2088)CTG>CCG	p.L696P	MIB2_uc001agh.2_Missense_Mutation_p.L682P|MIB2_uc001agi.2_Missense_Mutation_p.L692P|MIB2_uc001agj.2_Missense_Mutation_p.L537P|MIB2_uc001agk.2_Missense_Mutation_p.L631P|MIB2_uc001agl.1_Missense_Mutation_p.L652P|MIB2_uc001agm.2_Missense_Mutation_p.L573P|MIB2_uc010nyq.1_Missense_Mutation_p.L652P|MIB2_uc009vkh.2_Missense_Mutation_p.L502P|MIB2_uc001agn.2_Missense_Mutation_p.L328P|MIB2_uc001ago.2_5'Flank	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	696	ANK 6.				Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-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;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		TTCACGGCGCTGCATCTGGCT	0.677													9	20					0	0	0.004482	0	0		C	1563724	C	C	1563724	3	2	157	1	0	0	0	0	1	0	0	0	9585	1580	55	3	2316	3	MIB2	1	1563724	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	237540	1563724	247686897	3	85563											
KIAA1751	85452	broad.mit.edu	37	chr1	1905549	1905549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcgcgcacctggagccGccgccccgtggcctccacct	3	5	13	20	5	0	0	0	0	0	0	1	1	1	1	8	3	2	2	8	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:1905549G>A	uc001aim.1	-	7	745	c.589C>T	c.(589-591)CGG>TGG	p.R197W	KIAA1751_uc009vkz.1_Missense_Mutation_p.R197W	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	197										pancreas(1)	1	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;6.04e-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)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		ACCTGGAGCCGCCGCCCCGTG	0.657													14	32					0	0	0.00245	0	0		A	1905549	A	A	1905549	3	1	157	1	0	0	0	0	1	0	0	0	8272	1086	38	1	1747	1	KIAA1751	1	1905549	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	341825	1905549	247345072	4	85564											
SKI	6497	broad.mit.edu	37	chr1	2237529	2237529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggccaagcgtaacctgcGgaaggagatcgagcgtctcc	10	5	15	11	4	1	1	0	0	1	1	3	5	1	3	3	4	4	1	3	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:2237529G>A	uc001aja.3	+	6	1910	c.1838G>A	c.(1837-1839)CGG>CAG	p.R613Q		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	613	Potential.				anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	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)		CGTAACCTGCGGAAGGAGATC	0.667													4	5					0	0	0.009096	0	0		A	2237529	A	A	2237529	3	1	157	1	0	0	0	0	1	0	0	0	14382	1116	39	1	1860	1	SKI	1	2237529	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	331980	2237529	247013092	5	85565											
PANK4	55229	broad.mit.edu	37	chr1	2445527	2445527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacggtcagggtcccataggCgctggggacagacacggcag	9	4	16	12	3	1	1	1	0	0	1	2	2	2	2	1	6	0	2	1	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:2445527C>T	uc001ajm.1	-	12	1498	c.1489G>A	c.(1489-1491)GCC>ACC	p.A497T	PANK4_uc010nza.1_Missense_Mutation_p.A458T	NM_018216	NP_060686	Q9NVE7	PANK4_HUMAN	pantothenate kinase 4	497					coenzyme A biosynthetic process	cytoplasm	ATP binding|pantothenate kinase activity			upper_aerodigestive_tract(1)|large_intestine(1)|ovary(1)	3	all_cancers(77;0.000158)|all_epithelial(69;8.01e-05)|all_lung(157;0.0212)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;3.18e-20)|all_lung(118;1.67e-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)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;1.54e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.95e-23)|GBM - Glioblastoma multiforme(42;2.81e-08)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.00445)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		GTCCCATAGGCGCTGGGGACA	0.652													15	169					0	0	0.00245	0	0		T	2445527	T	T	2445527	3	4	157	1	0	0	0	0	1	0	0	0	11438	782	27	1	864	1	PANK4	1	2445527	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	207998	2445527	246805094	6	85566											
ACTRT2	140625	broad.mit.edu	37	chr1	2938781	2938781	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagggttactccctgccccaCgcagtcaccaagctccacgt	8	7	9	17	2	1	0	1	0	0	0	3	1	3	0	5	1	3	3	5	1	2	1	rs149989896		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:2938781C>T	uc001ajz.2	+	1	736	c.531C>T	c.(529-531)CAC>CAT	p.H177H		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	177						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CCCTGCCCCACGCAGTCACCA	0.657													14	58					0	0	0.003163	0	0		T	2938781	T	T	2938781	2	4	157	1	0	0	0	0	0	0	0	1	219	535	19	1		1	ACTRT2	1	2938781	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	493254	2938781	246311840	7	85567											
TNFRSF9	3604	broad.mit.edu	37	chr1	7993307	7993307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaacagcaggaagagcaaCgcagtcgacgtcagcgcaag	16	2	13	10	4	1	2	1	0	0	2	2	4	1	3	0	1	5	4	0	1	5	0	rs143532137		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:7993307C>T	uc001aot.2	-	7	722	c.594G>A	c.(592-594)GCG>GCA	p.A198A		NM_001561	NP_001552	Q07011	TNR9_HUMAN	tumor necrosis factor receptor superfamily,	198	Helical; (Potential).				induction of apoptosis|negative regulation of cell proliferation	integral to plasma membrane	binding|receptor activity			large_intestine(1)|lung(1)|ovary(1)|skin(1)	4	Ovarian(185;0.0634)|all_lung(157;0.151)	all_epithelial(116;9.63e-21)|all_lung(118;1.29e-06)|Lung NSC(185;7.5e-06)|Renal(390;0.000147)|Breast(348;0.000625)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;2.93e-71)|GBM - Glioblastoma multiforme(8;3.72e-37)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;7.71e-06)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000419)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00103)|READ - Rectum adenocarcinoma(331;0.0649)		GGAAGAGCAACGCAGTCGACG	0.448													9	48					0	0	0.004482	0	0		T	7993307	T	T	7993307	2	4	157	1	0	0	0	0	0	0	0	1	16325	523	19	1		1	TNFRSF9	1	7993307	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5054526	7993307	241257314	8	85568											
CASZ1	54897	broad.mit.edu	37	chr1	10700075	10700075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctcgatgatccagaagcGctttttggcccccgaggctg	6	10	12	13	3	0	2	0	1	0	1	3	4	2	2	4	2	1	2	4	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:10700075G>A	uc001aro.2	-	21	4524	c.4204C>T	c.(4204-4206)CGC>TGC	p.R1402C		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1402					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		ATCCAGAAGCGCTTTTTGGCC	0.637													19	77					0	0	0.010504	0	0		A	10700075	A	A	10700075	3	1	157	1	0	0	0	0	1	0	0	0	2688	1087	38	1	1079	1	CASZ1	1	10700075	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2706768	10700075	238550546	9	85569											
CASZ1	54897	broad.mit.edu	37	chr1	10713999	10713999	+	Silent	SNP	C	T	T	0	0	0	1	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	gcgcccagcagcgagggcggCagccccagcgcgcccgagga	7	0	17	17	6	0	0	0	0	0	0	0	3	0	1	4	3	4	2	4	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:10713999C>T	uc001aro.2	-	11	2435	c.2115G>A	c.(2113-2115)CTG>CTA	p.L705L	CASZ1_uc001arp.1_Silent_p.L705L|CASZ1_uc009vmx.2_Silent_p.L729L	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	705					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GCGAGGGCGGCAGCCCCAGCG	0.667													7	54					0	0	0.001984	0	0		T	10713999	T	T	10713999	2	4	157	1	0	0	0	0	0	0	0	1	2688	697	25	2		2	CASZ1	1	10713999	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	13924	10713999	238536622	10	85570											
CASZ1	54897	broad.mit.edu	37	chr1	10720396	10720396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcatacttagagaaccGcgcccgcttgctgagggtat	8	10	10	13	3	1	2	1	1	0	1	2	3	2	2	3	1	3	3	3	1	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:10720396G>A	uc001aro.2	-	6	1023	c.703C>T	c.(703-705)CGG>TGG	p.R235W	CASZ1_uc001arp.1_Missense_Mutation_p.R235W|CASZ1_uc009vmx.2_Missense_Mutation_p.R259W|CASZ1_uc001arq.1_Missense_Mutation_p.R94W	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		TTAGAGAACCGCGCCCGCTTG	0.647													16	39					0	0	0.010504	0	0		A	10720396	A	A	10720396	3	1	157	1	0	0	0	0	1	0	0	0	2688	1086	38	1	4644	1	CASZ1	1	10720396	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6397	10720396	238530225	11	85571											
VPS13D	55187	broad.mit.edu	37	chr1	12460264	12460264	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcagctcattggtaccacGcagcccttcatgctctatgt	9	12	7	13	1	4	0	3	0	1	0	4	0	4	0	2	1	4	4	2	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:12460264G>A	uc001atv.2	+	61	11802	c.11661G>A	c.(11659-11661)ACG>ACA	p.T3887T	VPS13D_uc001atw.2_Silent_p.T3862T|VPS13D_uc001atx.2_Silent_p.T3074T|VPS13D_uc009vnl.2_RNA	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3886					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTGGTACCACGCAGCCCTTCA	0.493													19	115					0	0	0.010504	0	0		A	12460264	A	A	12460264	2	1	157	1	0	0	0	0	0	0	0	1	17218	1074	38	1		1	VPS13D	1	12460264	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1739868	12460264	236790357	12	85572											
KAZ	23254	broad.mit.edu	37	chr1	15386668	15386668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctgtccctgctttccagCggtcagggtgagcccctgcc	4	9	12	16	1	1	1	1	1	0	0	3	1	3	1	5	2	5	2	5	2	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:15386668C>T	uc001avm.3	+	6	1198	c.917C>T	c.(916-918)GCG>GTG	p.A306V	KAZ_uc009vog.1_Missense_Mutation_p.A306V|KAZ_uc010obj.1_Missense_Mutation_p.A306V|KAZ_uc001avo.2_Missense_Mutation_p.A300V|KAZ_uc001avp.2_Missense_Mutation_p.A212V|KAZ_uc001avq.2_Missense_Mutation_p.A212V|KAZ_uc001avr.2_Missense_Mutation_p.A209V	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	306	Interaction with PPL.				keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						TGCTTTCCAGCGGTCAGGGTG	0.517													21	71					0	0	0.012319	0	0		T	15386668	T	T	15386668	3	4	157	1	0	0	0	0	1	0	0	0	8004	782	27	1	1151	1	KAZ	1	15386668	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2926404	15386668	233863953	13	85573											
AGMAT	79814	broad.mit.edu	37	chr1	15905525	15905525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccgtgtgcgcatccacGtgcagcagccccactgggcc	5	7	13	16	3	0	0	0	0	0	0	2	0	2	0	5	1	4	3	5	1	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:15905525G>A	uc001awv.1	-	4	692	c.549C>T	c.(547-549)CAC>CAT	p.H183H	DNAJC16_uc001awu.2_Intron	NM_024758	NP_079034	Q9BSE5	SPEB_HUMAN	agmatine ureohydrolase (agmatinase) precursor	183					putrescine biosynthetic process|spermidine biosynthetic process	mitochondrion	agmatinase activity|metal ion binding			skin(1)	1		Breast(348;0.000207)|Colorectal(325;0.000258)|Lung NSC(340;0.000359)|all_lung(284;0.000486)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.93e-07)|COAD - Colon adenocarcinoma(227;3.91e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000121)|KIRC - Kidney renal clear cell carcinoma(229;0.00257)|STAD - Stomach adenocarcinoma(313;0.00734)|READ - Rectum adenocarcinoma(331;0.0649)		GCGCATCCACGTGCAGCAGCC	0.647													9	45					0	0	0.004482	0	0		A	15905525	A	A	15905525	2	1	157	1	0	0	0	0	0	0	0	1	385	1136	40	1		1	AGMAT	1	15905525	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	518857	15905525	233345096	14	85574											
SPEN	23013	broad.mit.edu	37	chr1	16199371	16199371	+	Silent	SNP	T	C	C	0	1	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	ggatctgaaggaggagtggcTgcctttgtggattttgtgga	7	13	17	4	0	1	1	0	1	1	0	1	6	1	6	1	6	1	1	1	6	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:16199371T>C	uc001axk.1	+	2	348	c.144T>C	c.(142-144)GCT>GCC	p.A48A	SPEN_uc010obp.1_5'Flank	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	48	By similarity.|RRM 1.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding	p.A48T(1)		ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAGGAGTGGCTGCCTTTGTGG	0.438													21	65					0	0	0.014323	0	0		C	16199371	C	C	16199371	2	2	157	1	0	0	0	0	0	0	0	1	15063	1567	55	3		3	SPEN	1	16199371	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	293846	16199371	233051250	15	85575											
SPEN	23013	broad.mit.edu	37	chr1	16261133	16261133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacgatcgtccggcagacGcgggctcaggggcggggctg	5	5	19	12	7	1	1	1	0	0	1	4	3	2	1	1	6	0	3	1	6	0	0	rs140025266	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:16261133G>A	uc001axk.1	+	11	8602	c.8398G>A	c.(8398-8400)GCG>ACG	p.A2800T	SPEN_uc010obp.1_Missense_Mutation_p.A2759T	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2800	Interaction with RBPSUH (By similarity).				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TCCGGCAGACGCGGGCTCAGG	0.592													4	40					0	0	0.009096	0	0		A	16261133	A	A	16261133	3	1	157	1	0	0	0	0	1	0	0	0	15063	1087	38	1	8440	1	SPEN	1	16261133	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	61762	16261133	232989488	16	85576											
CLCNKA	1187	broad.mit.edu	37	chr1	16350339	16350339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtgttccgcctgggagaaGactggtacttcctgatgacc	8	10	13	10	1	0	4	0	2	0	2	2	5	2	4	4	3	1	2	4	3	2	3	rs139165394		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:16350339G>A	uc001axu.2	+	3	225	c.145G>A	c.(145-147)GAC>AAC	p.D49N	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.D49N|CLCNKA_uc010obw.1_Missense_Mutation_p.D49N|CLCNKB_uc001axw.3_Intron	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	49					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	CCTGGGAGAAGACTGGTACTT	0.602													3	77					0	0	0.004672	0	0		A	16350339	A	A	16350339	3	1	157	1	0	0	0	0	1	0	0	0	3472	942	33	4	151	4	CLCNKA	1	16350339	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	89206	16350339	232900282	17	85577											
CLCNKB	1188	broad.mit.edu	37	chr1	16377403	16377403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcatctggactcgctgttcGacaaccactcctgggcgctg	7	9	11	14	3	1	0	0	0	1	0	4	2	2	1	2	2	2	4	2	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:16377403G>A	uc001axw.3	+	12	1167	c.1087G>A	c.(1087-1089)GAC>AAC	p.D363N	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.D363N|CLCNKB_uc001axy.3_Missense_Mutation_p.D194N	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	363					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		CTCGCTGTTCGACAACCACTC	0.672													8	36					0	0	0.00308	0	0		A	16377403	A	A	16377403	3	1	157	1	0	0	0	0	1	0	0	0	3473	1058	37	1	1277	1	CLCNKB	1	16377403	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	27064	16377403	232873218	18	85578											
CLCNKB	1188	broad.mit.edu	37	chr1	16378782	16378782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccagatagtgcatgcactgCccgtgctgatggcggtgctg	6	9	15	11	2	0	2	0	1	0	1	0	2	0	2	2	2	5	4	2	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:16378782C>T	uc001axw.3	+	15	1578	c.1498C>T	c.(1498-1500)CCC>TCC	p.P500S	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.P500S|CLCNKB_uc001axy.3_Missense_Mutation_p.P331S	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	500	Helical; (Potential).				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		GCATGCACTGCCCGTGCTGAT	0.627													14	59					0	0	0.010504	0	0		T	16378782	T	T	16378782	3	4	157	1	0	0	0	0	1	0	0	0	3473	739	26	2	1700	2	CLCNKB	1	16378782	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1379	16378782	232871839	19	85579											
SDHB	6390	broad.mit.edu	37	chr1	17371343	17371343	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggcaaatttcttgataCggggagctgtggctgcagct	9	11	14	7	1	1	2	0	1	1	1	1	3	1	3	0	4	4	5	0	4	2	3	rs143058777		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:17371343C>T	uc001bae.2	-	2	264	c.113G>A	c.(112-114)CGT>CAT	p.R38H		NM_003000	NP_002991	P21912	DHSB_HUMAN	succinate dehydrogenase complex, subunit B, iron	38					respiratory electron transport chain|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	2 iron, 2 sulfur cluster binding|3 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|protein binding|succinate dehydrogenase (ubiquinone) activity|ubiquinone binding			breast(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0049)|COAD - Colon adenocarcinoma(227;1.18e-05)|BRCA - Breast invasive adenocarcinoma(304;2.41e-05)|Kidney(64;0.000188)|KIRC - Kidney renal clear cell carcinoma(64;0.00273)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.19)	Succinic acid(DB00139)	TTTCTTGATACGGGGAGCTGT	0.413			Mis|N|F			paraganglioma|pheochromocytoma			Familial_Paragangliomas|Carney-Stratakis_syndrome|Cowden_syndrome				17	79					0	0	0.010504	0	0		T	17371343	T	T	17371343	3	4	157	1	0	0	0	0	1	0	0	0	13990	536	19	1	757	1	SDHB	1	17371343	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	992561	17371343	231879278	20	85580											
SH2D5	400745	broad.mit.edu	37	chr1	21051063	21051063	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctggctgtgcccgctcCtcagggtgctgcaagaggta	5	9	15	12	1	2	1	1	0	1	1	3	1	3	1	2	4	3	6	2	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:21051063C>T	uc001bdt.1	-	5	829	c.204G>A	c.(202-204)GAG>GAA	p.E68E	SH2D5_uc009vpy.1_Silent_p.E152E|SH2D5_uc001bdu.1_RNA	NM_001103160	NP_001096630	Q6ZV89	SH2D5_HUMAN	SH2 domain containing 5 isoform 2	68											0		Colorectal(325;3.46e-05)|all_lung(284;5.32e-05)|Lung NSC(340;5.51e-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;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000142)|GBM - Glioblastoma multiforme(114;0.000465)|Kidney(64;0.000476)|STAD - Stomach adenocarcinoma(196;0.00303)|KIRC - Kidney renal clear cell carcinoma(64;0.00634)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GTGCCCGCTCCTCAGGGTGCT	0.687													5	14					0	0	0.001168	0	0		T	21051063	T	T	21051063	2	4	157	1	0	0	0	0	0	0	0	1	14262	680	24	4		4	SH2D5	1	21051063	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3679720	21051063	228199558	21	85581											
ALPL	249	broad.mit.edu	37	chr1	21890655	21890655	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgccccctgaggccttgagCcagggctgtaaggacatcgc	8	7	13	13	1	0	2	0	2	0	0	1	3	0	3	4	3	2	2	4	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:21890655C>T	uc001bet.2	+	6	851	c.594C>T	c.(592-594)AGC>AGT	p.S198S	ALPL_uc010odn.1_Silent_p.S146S|ALPL_uc010odo.1_Silent_p.S143S|ALPL_uc010odp.1_Silent_p.S121S|ALPL_uc001beu.3_Silent_p.S198S	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	198					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	AGGCCTTGAGCCAGGGCTGTA	0.657													7	55					0	0	0.001984	0	0		T	21890655	T	T	21890655	2	4	157	1	0	0	0	0	0	0	0	1	547	738	26	2		2	ALPL	1	21890655	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	839592	21890655	227359966	22	85582											
HSPG2	3339	broad.mit.edu	37	chr1	22206641	22206641	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacaggagctggcatggcCattgcaattgcaaccagagc	11	7	12	11	0	1	1	1	0	0	1	1	2	1	2	2	3	5	4	2	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:22206641C>A	uc001bfj.2	-	17	2342	c.2302G>T	c.(2302-2304)GGC>TGC	p.G768C	HSPG2_uc009vqd.2_Missense_Mutation_p.G769C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	768	Laminin EGF-like 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CTGGCATGGCCATTGCAATTG	0.552													12	66					9.31168e-06	9.72656e-06	0.001855	1	0		A	22206641	A	A	22206641	3	1	157	1	0	0	0	0	1	0	0	0	7446	594	21	5	11197	5	HSPG2	1	22206641	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	315986	22206641	227043980	23	85583											
LUZP1	7798	broad.mit.edu	37	chr1	23419294	23419294	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcttggaagtccccttccaCgctttactgtgctcctgagc	5	12	10	14	1	0	1	0	1	0	0	3	2	3	2	4	2	3	3	4	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:23419294C>T	uc001bgk.2	-	4	1845	c.1461G>A	c.(1459-1461)GCG>GCA	p.A487A	LUZP1_uc010odv.1_Silent_p.A487A|LUZP1_uc001bgl.2_Silent_p.A487A|LUZP1_uc001bgm.1_Silent_p.A487A	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	487						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		TCCCCTTCCACGCTTTACTGT	0.582													65	281					0	0	0.01441	0	0		T	23419294	T	T	23419294	2	4	157	1	0	0	0	0	0	0	0	1	9104	523	19	1		1	LUZP1	1	23419294	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1212653	23419294	225831327	24	85584											
RUNX3	864	broad.mit.edu	37	chr1	25245743	25245743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacttacgtctgggctcccGgggtccgtccacggtcacct	4	9	12	16	4	2	0	1	0	1	0	5	0	5	0	4	4	1	2	4	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:25245743G>A	uc001bjq.2	-	3	943	c.532C>T	c.(532-534)CGG>TGG	p.R178W	RUNX3_uc010oen.1_Missense_Mutation_p.R178W|RUNX3_uc009vrj.2_Missense_Mutation_p.R192W|RUNX3_uc001bjr.2_Missense_Mutation_p.R192W	NM_004350	NP_004341	Q13761	RUNX3_HUMAN	runt-related transcription factor 3 isoform 2	178	Runt.				cell proliferation|induction of apoptosis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|protein phosphorylation|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00131)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.85e-26)|Colorectal(126;4.35e-08)|COAD - Colon adenocarcinoma(152;1.92e-06)|GBM - Glioblastoma multiforme(114;0.000102)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00148)|BRCA - Breast invasive adenocarcinoma(304;0.00173)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.136)		CTGGGCTCCCGGGGTCCGTCC	0.652													11	41					0	0	0.001855	0	0		A	25245743	A	A	25245743	3	1	157	1	0	0	0	0	1	0	0	0	13774	1115	39	1	727	1	RUNX3	1	25245743	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1826449	25245743	224004878	25	85585											
RPS6KA1	6195	broad.mit.edu	37	chr1	26881655	26881655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctgcagtttgagatgctgaCgggctccctgcccttccagg	5	11	12	13	1	1	2	0	2	1	1	3	3	3	2	3	2	3	4	3	2	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:26881655C>T	uc001bmr.1	+	10	933	c.770C>T	c.(769-771)ACG>ATG	p.T257M	RPS6KA1_uc010ofe.1_Missense_Mutation_p.T165M|RPS6KA1_uc010off.1_Missense_Mutation_p.T241M|RPS6KA1_uc001bms.1_Missense_Mutation_p.T266M|RPS6KA1_uc009vsl.1_Missense_Mutation_p.T100M	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	257	Protein kinase 1.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		GAGATGCTGACGGGCTCCCTG	0.587													8	53					0	0	0.00308	0	0		T	26881655	T	T	26881655	3	4	157	1	0	0	0	0	1	0	0	0	13675	536	19	1	947	1	RPS6KA1	1	26881655	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1635912	26881655	222368966	26	85586											
SLC9A1	6548	broad.mit.edu	37	chr1	27426921	27426921	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcgggggtgaagacatcGtcggttcctggggacgaagt	7	7	19	8	5	0	2	0	1	0	1	3	4	1	3	1	6	0	1	1	6	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:27426921G>A	uc001bnm.2	-	12	2951	c.2325C>T	c.(2323-2325)GAC>GAT	p.D775D	SLC9A1_uc001bnl.2_Silent_p.D279D|SLC9A1_uc010ofk.1_Silent_p.D436D	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	775	Cytoplasmic (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	TGAAGACATCGTCGGTTCCTG	0.642													22	101					0	0	0.00333	0	0		A	27426921	A	A	27426921	2	1	157	1	0	0	0	0	0	0	0	1	14734	1136	40	1		1	SLC9A1	1	27426921	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	545266	27426921	221823700	27	85587											
SLC9A1	6548	broad.mit.edu	37	chr1	27436222	27436222	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgaggaagatgtccacgatgCccacgtgttcgtagttggca	9	9	13	10	4	0	1	0	0	0	1	2	4	1	2	2	2	1	4	2	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:27436222C>T	uc001bnm.2	-	3	1486	c.860G>A	c.(859-861)GGC>GAC	p.G287D	SLC9A1_uc010ofk.1_5'UTR|SLC9A1_uc001bnn.2_Missense_Mutation_p.G287D	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	287	Extracellular (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	GTCCACGATGCCCACGTGTTC	0.637													16	114					0	0	0.004007	0	0		T	27436222	T	T	27436222	3	4	157	1	0	0	0	0	1	0	0	0	14734	739	26	2	1627	2	SLC9A1	1	27436222	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	9301	27436222	221814399	28	85588											
PTAFR	5724	broad.mit.edu	37	chr1	28476770	28476770	+	Missense_Mutation	SNP	A	G	G	1	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	gcccagctcagcaagggtccAgggcagctgcaccacgtggt	8	5	14	14	1	1	0	1	0	0	0	2	0	2	0	3	3	4	5	3	3	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:28476770A>G	uc001bpl.2	-	2	890	c.763T>C	c.(763-765)TGG>CGG	p.W255R	PTAFR_uc001bpm.3_Missense_Mutation_p.W255R|PTAFR_uc009vte.2_Missense_Mutation_p.W255R	NM_000952	NP_000943	P25105	PTAFR_HUMAN	platelet-activating factor receptor	255	Extracellular (Potential).				chemotaxis|inflammatory response|interferon-gamma-mediated signaling pathway|phosphatidylinositol-mediated signaling	integral to plasma membrane|nucleus	phospholipid binding|platelet activating factor receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.00357)|Lung NSC(340;0.00715)|all_lung(284;0.00732)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0545)|all_neural(195;0.0557)		UCEC - Uterine corpus endometrioid carcinoma (279;0.215)|OV - Ovarian serous cystadenocarcinoma(117;6e-22)|Colorectal(126;3.04e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00279)|BRCA - Breast invasive adenocarcinoma(304;0.00595)|STAD - Stomach adenocarcinoma(196;0.00678)|READ - Rectum adenocarcinoma(331;0.0649)		GCAAGGGTCCAGGGCAGCTGC	0.592													12	58					0	0	0.003163	0	0		G	28476770	G	G	28476770	3	3	157	1	0	0	0	0	1	0	0	0	12745	188	7	3	269	3	PTAFR	1	28476770	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1040548	28476770	220773851	29	85589											
PTPRU	10076	broad.mit.edu	37	chr1	29587410	29587410	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cctcatcagccgcaccaaatGcgcaggtgggtgcagcagct	9	6	12	14	2	2	0	2	0	0	0	2	0	2	0	3	2	5	5	3	2	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:29587410G>A	uc001bru.2	+	7	1249	c.1139G>A	c.(1138-1140)TGC>TAC	p.C380Y	PTPRU_uc001brv.2_Missense_Mutation_p.C380Y|PTPRU_uc001brw.2_Missense_Mutation_p.C380Y|PTPRU_uc009vtq.2_Missense_Mutation_p.C380Y|PTPRU_uc009vtr.2_Missense_Mutation_p.C380Y	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	380	Extracellular (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CGCACCAAATGCGCAGGTGGG	0.662													8	28					0	0	0.010729	0	0		A	29587410	A	A	29587410	3	1	157	1	0	0	0	0	1	0	0	0	12838	1319	46	2	1165	2	PTPRU	1	29587410	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1110640	29587410	219663211	30	85590											
COL16A1	1307	broad.mit.edu	37	chr1	32148593	32148593	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccggtggctcctttcaccCctggagatccctgtgtaaga	6	11	11	13	1	1	2	1	0	0	2	4	3	4	2	5	3	0	2	5	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:32148593C>A	uc001btk.1	-	37	2845	c.2480G>T	c.(2479-2481)GGG>GTG	p.G827V	COL16A1_uc001btj.1_Missense_Mutation_p.G656V|COL16A1_uc001btl.3_Missense_Mutation_p.G827V	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	827	Triple-helical region 5 (COL5) with 3 imperfections.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		TCCTTTCACCCCTGGAGATCC	0.562													22	71					7.41877e-09	7.89589e-09	0.012319	1	0		A	32148593	A	A	32148593	3	1	157	1	0	0	0	0	1	0	0	0	3676	623	22	5	2474	5	COL16A1	1	32148593	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2561183	32148593	217102028	31	85591											
BAI2	576	broad.mit.edu	37	chr1	32221745	32221745	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtggtggtggtggagccGgcccccgcctctccagggca	4	7	17	13	2	1	0	0	0	1	0	2	2	1	1	5	6	1	1	5	6	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:32221745G>A	uc001btn.2	-	4	1047	c.693C>T	c.(691-693)GCC>GCT	p.A231A	BAI2_uc010ogp.1_Silent_p.A219A|BAI2_uc010ogq.1_Silent_p.A231A|BAI2_uc001bto.2_Silent_p.A231A|BAI2_uc001btq.1_Silent_p.A219A|BAI2_uc010ogr.1_Silent_p.A219A	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	231	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		TGGTGGAGCCGGCCCCCGCCT	0.716													5	13					0	0	0.001984	0	0		A	32221745	A	A	32221745	2	1	157	1	0	0	0	0	0	0	0	1	1300	1103	39	1		1	BAI2	1	32221745	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	73152	32221745	217028876	32	85592											
SPOCD1	90853	broad.mit.edu	37	chr1	32280436	32280436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actcattccaccgtctctggCctccctgggcctgaggcagc	5	9	10	17	1	2	1	1	1	1	0	5	1	4	1	5	3	1	1	5	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:32280436C>T	uc001bts.1	-	2	557	c.499G>A	c.(499-501)GCC>ACC	p.A167T	SPOCD1_uc001btu.2_Missense_Mutation_p.A167T|SPOCD1_uc001btv.2_Intron	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	167					transcription, DNA-dependent					ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)		STAD - Stomach adenocarcinoma(196;0.18)		CCGTCTCTGGCCTCCCTGGGC	0.617													34	112					0	0	0.012213	0	0		T	32280436	T	T	32280436	3	4	157	1	0	0	0	0	1	0	0	0	15103	739	26	2	3211	2	SPOCD1	1	32280436	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	58691	32280436	216970185	33	85593											
KHDRBS1	10657	broad.mit.edu	37	chr1	32508218	32508218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagagcacccatatggacGttattaaaaacaaacatgag	18	7	8	8	1	0	2	0	1	0	1	0	4	0	3	1	1	3	2	1	1	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:32508218G>A	uc001bub.2	+	9	1431	c.1325G>A	c.(1324-1326)CGT>CAT	p.R442H	KHDRBS1_uc001bua.1_Missense_Mutation_p.R403H|KHDRBS1_uc001buc.1_RNA	NM_006559	NP_006550	Q07666	KHDR1_HUMAN	KH domain containing, RNA binding, signal	442					cell cycle arrest|cell proliferation|cell surface receptor linked signaling pathway|G2/M transition of mitotic cell cycle|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of RNA export from nucleus|transcription, DNA-dependent	membrane|nucleus	DNA binding|RNA binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CCATATGGACGTTATTAAAAA	0.493													12	58					0	0	0.010729	0	0		A	32508218	A	A	32508218	3	1	157	1	0	0	0	0	1	0	0	0	8162	1145	40	1	1359	1	KHDRBS1	1	32508218	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	227782	32508218	216742403	34	85594											
TMEM39B	55116	broad.mit.edu	37	chr1	32566073	32566073	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaatgcatgtggccgcagggCgtgctggtgaagcacagcaa	10	6	16	9	2	0	1	0	1	0	0	0	2	0	1	1	3	4	5	1	3	3	0	rs148218352	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:32566073C>T	uc010ogv.1	+	8	1292	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	TMEM39B_uc010ogt.1_RNA|TMEM39B_uc010ogu.1_Silent_p.G255G|TMEM39B_uc001bue.3_Silent_p.G383G|TMEM39B_uc001buf.3_Silent_p.G183G|TMEM39B_uc010ogw.1_Silent_p.G183G	NM_018056	NP_060526	Q9GZU3	TM39B_HUMAN	transmembrane protein 39B	382						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GGCCGCAGGGCGTGCTGGTGA	0.537													10	44					0	0	0.010729	0	0		T	32566073	T	T	32566073	2	4	157	1	0	0	0	0	0	0	0	1	16187	755	27	1		1	TMEM39B	1	32566073	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	57855	32566073	216684548	35	85595											
TMEM39B	55116	broad.mit.edu	37	chr1	32568262	32568262	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccagagagacctggaccaCcgtttctcctgagccctggg	7	7	11	16	1	1	3	0	1	1	2	2	5	1	4	7	2	1	1	7	2	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:32568262C>T	uc010ogv.1	+	9	1613	c.1467C>T	c.(1465-1467)CAC>CAT	p.H489H	TMEM39B_uc001bue.3_Silent_p.H490H|TMEM39B_uc001buf.3_Silent_p.H290H|TMEM39B_uc010ogw.1_Silent_p.H290H	NM_018056	NP_060526	Q9GZU3	TM39B_HUMAN	transmembrane protein 39B	489						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				ACCTGGACCACCGTTTCTCCT	0.607													19	69					0	0	0.008871	0	0		T	32568262	T	T	32568262	2	4	157	1	0	0	0	0	0	0	0	1	16187	506	18	4		4	TMEM39B	1	32568262	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2189	32568262	216682359	36	85596											
YARS	8565	broad.mit.edu	37	chr1	33276252	33276252	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctccaagggcacaccaatgCtctccagcattgctttgatc	9	11	7	14	0	2	1	0	1	2	0	5	1	2	1	3	1	3	4	3	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:33276252C>A	uc001bvy.1	-	3	1108	c.320G>T	c.(319-321)AGC>ATC	p.S107I		NM_003680	NP_003671	P54577	SYYC_HUMAN	tyrosyl-tRNA synthetase	107					apoptosis|tyrosyl-tRNA aminoacylation	cytosol|extracellular space|nucleus|soluble fraction	ATP binding|interleukin-8 receptor binding|signal transducer activity|tRNA binding|tyrosine-tRNA ligase activity			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)			L-Tyrosine(DB00135)	CACACCAATGCTCTCCAGCAT	0.498													29	150					9.39395e-14	1.01843e-13	0.00632	1	0		A	33276252	A	A	33276252	3	1	157	1	0	0	0	0	1	0	0	0	17493	797	28	5	1310	5	YARS	1	33276252	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	707990	33276252	215974369	37	85597											
CSMD2	114784	broad.mit.edu	37	chr1	34042964	34042964	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgggtacagatggccatgCtgtgtcccaccaggcggtag	7	7	15	12	2	0	1	0	0	0	1	1	1	1	1	4	4	2	3	4	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:34042964C>A	uc001bxn.1	-	50	7543	c.7514G>T	c.(7513-7515)AGC>ATC	p.S2505I	CSMD2_uc001bxm.1_Missense_Mutation_p.S2503I	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2505	Sushi 14.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GATGGCCATGCTGTGTCCCAC	0.637													21	79					3.6726e-16	4.02555e-16	0.003954	1	0		A	34042964	A	A	34042964	3	1	157	1	0	0	0	0	1	0	0	0	3948	797	28	5	3029	5	CSMD2	1	34042964	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	766712	34042964	215207657	38	85598											
CSMD2	114784	broad.mit.edu	37	chr1	34209180	34209180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagacaggacaaccccagacGggctggtgaagttgaagaag	14	4	15	8	1	0	5	0	2	0	3	0	7	0	6	2	3	1	2	2	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:34209180G>A	uc001bxn.1	-	14	1783	c.1754C>T	c.(1753-1755)CCG>CTG	p.P585L	CSMD2_uc001bxm.1_Missense_Mutation_p.P625L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	585	Extracellular (Potential).|CUB 4.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AACCCCAGACGGGCTGGTGAA	0.592													15	58					0	0	0.00499	0	0		A	34209180	A	A	34209180	3	1	157	1	0	0	0	0	1	0	0	0	3948	1116	39	1	8933	1	CSMD2	1	34209180	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	166216	34209180	215041441	39	85599											
DLGAP3	58512	broad.mit.edu	37	chr1	35370066	35370066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcagcggccttccgaccCgcccgagcgccccttgaagc	7	4	12	18	5	0	1	0	1	0	0	1	3	1	1	6	2	3	1	6	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:35370066C>T	uc001byc.2	-	1	919	c.919G>A	c.(919-921)GGG>AGG	p.G307R		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	307					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CCTTCCGACCCGCCCGAGCGC	0.662													10	69					0	0	0.013537	0	0		T	35370066	T	T	35370066	3	4	157	1	0	0	0	0	1	0	0	0	4567	652	23	1	2060	1	DLGAP3	1	35370066	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1160886	35370066	213880555	40	85600											
ADPRHL2	54936	broad.mit.edu	37	chr1	36557382	36557382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atggaggtgccatgcgggtgGctggcatctccctggcctat	5	10	15	11	1	1	0	0	0	1	0	2	1	1	1	3	6	2	2	3	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:36557382G>A	uc001bzt.2	+	3	525	c.472G>A	c.(472-474)GCT>ACT	p.A158T	ADPRHL2_uc001bzu.2_Missense_Mutation_p.A4T	NM_017825	NP_060295	Q9NX46	ARHL2_HUMAN	ADP-ribosylhydrolase like 2	158						cytoplasm|nucleus	metal ion binding|poly(ADP-ribose) glycohydrolase activity			pancreas(1)	1		Myeloproliferative disorder(586;0.0393)				CATGCGGGTGGCTGGCATCTC	0.592													13	40					0	0	0.001855	0	0		A	36557382	A	A	36557382	3	1	157	1	0	0	0	0	1	0	0	0	333	1203	42	2	482	2	ADPRHL2	1	36557382	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1187316	36557382	212693239	41	85601											
C1orf113	79729	broad.mit.edu	37	chr1	36785329	36785329	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tctgtgaagagaacccccatGccggacaagactgccacccc	11	5	9	16	1	1	3	0	1	1	2	1	5	1	4	6	1	3	0	6	1	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:36785329G>A	uc010oia.1	+	14	1093	c.1065G>A	c.(1063-1065)ATG>ATA	p.M355I	C1orf113_uc010oib.1_Missense_Mutation_p.M244I|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_Missense_Mutation_p.M1I	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	239											0		Myeloproliferative disorder(586;0.0393)				GAACCCCCATGCCGGACAAGA	0.617													7	20					0	0	0.006214	0	0		A	36785329	A	A	36785329	3	1	157	1	0	0	0	0	1	0	0	0	1989	1319	46	2	1119	2	C1orf113	1	36785329	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	227947	36785329	212465292	42	85602											
ZC3H12A	80149	broad.mit.edu	37	chr1	37948726	37948726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaggattgcctggactcGggcattggctccctggagag	6	9	14	12	1	0	1	0	0	0	1	3	4	2	3	3	5	1	2	3	5	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:37948726G>A	uc001cbb.3	+	6	1464	c.1314G>A	c.(1312-1314)TCG>TCA	p.S438S	ZC3H12A_uc001cbc.1_Silent_p.S233S	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	438					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GCCTGGACTCGGGCATTGGCT	0.662													6	32					0	0	0.001984	0	0		A	37948726	A	A	37948726	2	1	157	1	0	0	0	0	0	0	0	1	17586	1103	39	1		1	ZC3H12A	1	37948726	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1163397	37948726	211301895	43	85603											
INPP5B	3633	broad.mit.edu	37	chr1	38338648	38338648	+	Missense_Mutation	SNP	A	G	G	1	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	ggtccaagattggctctctcAtgtaacacagtgtatgaatg	11	12	10	8	0	2	2	1	1	1	1	4	2	3	2	1	2	1	3	1	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:38338648A>G	uc001ccg.1	-	19	2235	c.2141T>C	c.(2140-2142)ATG>ACG	p.M714T	INPP5B_uc009vvk.1_Missense_Mutation_p.M655T|INPP5B_uc001ccf.1_Missense_Mutation_p.M550T	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	794					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				TGGCTCTCTCATGTAACACAG	0.458													19	91					0	0	0.008871	0	0		G	38338648	G	G	38338648	3	3	157	1	0	0	0	0	1	0	0	0	7771	217	8	3	624	3	INPP5B	1	38338648	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	389922	38338648	210911973	44	85604											
KCNQ4	9132	broad.mit.edu	37	chr1	41284205	41284205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttcgtggcctcggtggcCgtcatcgccgcgggtaccca	3	9	15	14	6	1	0	1	0	0	0	4	0	1	0	4	4	1	2	4	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:41284205C>T	uc001cgh.1	+	4	643	c.561C>T	c.(559-561)GCC>GCT	p.A187A	KCNQ4_uc001cgi.1_Silent_p.A187A	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	187	Helical; Name=Segment S3; (Potential).				sensory perception of sound	basal plasma membrane|voltage-gated potassium channel complex				central_nervous_system(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.38e-17)			CCTCGGTGGCCGTCATCGCCG	0.706													4	26					0	0	0.00308	0	0		T	41284205	T	T	41284205	2	4	157	1	0	0	0	0	0	0	0	1	8101	639	23	1		1	KCNQ4	1	41284205	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2945557	41284205	207966416	45	85605											
FOXJ3	22887	broad.mit.edu	37	chr1	42657107	42657107	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggactggagctggctgtgTtgctgtgggtgtggtgctgg	2	12	22	5	0	0	0	0	0	0	0	0	2	0	2	0	7	3	5	0	7	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:42657107T>C	uc001che.2	-	11	1530	c.1218A>G	c.(1216-1218)CAA>CAG	p.Q406Q	FOXJ3_uc001chf.2_Silent_p.Q406Q|FOXJ3_uc001chg.2_Silent_p.Q406Q|FOXJ3_uc001chh.1_Silent_p.Q372Q	NM_014947	NP_055762	Q9UPW0	FOXJ3_HUMAN	forkhead box J3	406					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)	2	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GCTGGCTGTGTTGCTGTGGGT	0.587													6	99					0	0	0.001984	0	0		C	42657107	C	C	42657107	2	2	157	1	0	0	0	0	0	0	0	1	6027	1722	60	3		3	FOXJ3	1	42657107	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1372902	42657107	206593514	46	85606											
WDR65	149465	broad.mit.edu	37	chr1	43664312	43664312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatactctgttagaggatgcGgagaggtaaaaaaaaaactg	18	8	11	4	1	1	2	0	0	1	2	1	4	1	3	0	3	3	2	0	3	8	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:43664312G>A	uc001cip.1	+	8	1544	c.1423G>A	c.(1423-1425)GGA>AGA	p.G475R	EBNA1BP2_uc001cio.2_Intron|WDR65_uc010ojz.1_Missense_Mutation_p.G464R|WDR65_uc001ciq.1_Missense_Mutation_p.G475R	NM_152498	NP_689711	Q96MR6	WDR65_HUMAN	WD repeat domain 65	475	WD 7.									skin(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TAGAGGATGCGGAGAGGTAAA	0.408													17	73					0	0	0.004007	0	0		A	43664312	A	A	43664312	3	1	157	1	0	0	0	0	1	0	0	0	17342	1117	39	1	1449	1	WDR65	1	43664312	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1007205	43664312	205586309	47	85607											
EIF2B3	8891	broad.mit.edu	37	chr1	45407190	45407190	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttccttacctgcttttttttTccccttttgaccgggaacag	5	18	6	12	1	0	1	0	1	0	0	2	2	2	2	5	1	3	1	5	1	2	8	rs151056457		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:45407190T>C	uc001cmt.1	-	4	569	c.442A>G	c.(442-444)AAA>GAA	p.K148E	EIF2B3_uc001cmu.1_Missense_Mutation_p.K148E|EIF2B3_uc001cmv.1_Missense_Mutation_p.K148E|EIF2B3_uc001cmw.2_Missense_Mutation_p.K148E	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	148					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GCTTTTTTTTTCCCCTTTTGA	0.338													42	198					0	0	0.00874	0	0		C	45407190	C	C	45407190	3	2	157	1	0	0	0	0	1	0	0	0	5008	1792	62	3	989	3	EIF2B3	1	45407190	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1742878	45407190	203843431	48	85608											
UROD	7389	broad.mit.edu	37	chr1	45480642	45480642	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggaagacggtgacattgcaGggcaacctggacccctgtgc	9	6	15	11	1	0	2	0	1	0	1	0	4	0	4	3	4	3	2	3	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:45480642G>T	uc001cna.1	+	9	1014	c.906G>T	c.(904-906)CAG>CAT	p.Q302H	UROD_uc001cnb.1_Missense_Mutation_p.Q267H|UROD_uc001cnc.1_Missense_Mutation_p.Q207H	NM_000374	NP_000365	P06132	DCUP_HUMAN	uroporphyrinogen decarboxylase	302						cytosol|microtubule cytoskeleton|nucleus	uroporphyrinogen decarboxylase activity				0	Acute lymphoblastic leukemia(166;0.155)					TGACATTGCAGGGCAACCTGG	0.577									Porphyria_Cutanea_Tarda_Type_II		OREG0013449	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	135					3.80469e-20	4.21412e-20	0.009535	1	0		T	45480642	T	T	45480642	3	4	157	1	0	0	0	0	1	0	0	0	17055	991	35	5	940	5	UROD	1	45480642	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	73452	45480642	203769979	49	85609											
MMACHC	25974	broad.mit.edu	37	chr1	45973071	45973071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccagccttccacctacCgctgccaggacctaccctgg	6	7	8	20	1	0	0	0	0	0	0	2	1	2	1	9	2	4	1	9	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:45973071C>T	uc009vxv.2	+	2	274	c.125C>T	c.(124-126)CCG>CTG	p.P42L	MMACHC_uc001cny.2_RNA	NM_015506	NP_056321	Q9Y4U1	MMAC_HUMAN	methylmalonic aciduria (cobalamin deficiency)	42							cobalamin binding				0	Acute lymphoblastic leukemia(166;0.155)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TTCCACCTACCGCTGCCAGGA	0.607													7	60					0	0	0.001984	0	0		T	45973071	T	T	45973071	3	4	157	1	0	0	0	0	1	0	0	0	9659	652	23	1	131	1	MMACHC	1	45973071	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	492429	45973071	203277550	50	85610											
MAST2	23139	broad.mit.edu	37	chr1	46496962	46496962	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcagtggttccagtccaGgtatggcccagtgggcggcc	6	7	17	11	1	0	0	0	0	0	0	2	1	2	1	4	6	1	3	4	6	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:46496962G>T	uc001cov.2	+	23	3275	c.2992G>T	c.(2992-2994)GCT>TCT	p.A998S	MAST2_uc001cow.2_Missense_Mutation_p.A998S|MAST2_uc001coy.1_3'UTR|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	998					regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					TTCCAGTCCAGGTATGGCCCA	0.617													14	35					2.32078e-09	2.47629e-09	0.003163	1	0		T	46496962	T	T	46496962	3	4	157	1	0	0	0	0	1	0	0	0	9343	1014	35	5	3082	5	MAST2	1	46496962	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	523891	46496962	202753659	51	85611											
SPATA6	54558	broad.mit.edu	37	chr1	48771536	48771536	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagttcatcatctttctcTaggtctctctcatcctgaaa	8	16	4	13	0	6	1	3	1	4	0	11	1	8	1	2	1	0	1	2	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:48771536T>C	uc001crr.1	-	12	1374	c.1209A>G	c.(1207-1209)CTA>CTG	p.L403L	SPATA6_uc001crs.1_Silent_p.L387L|SPATA6_uc010omv.1_Silent_p.L389L	NM_019073	NP_061946	Q9NWH7	SPAT6_HUMAN	spermatogenesis associated 6 precursor	403					cell differentiation|multicellular organismal development|spermatogenesis	extracellular region				ovary(1)	1						CATCTTTCTCTAGGTCTCTCT	0.358													13	207					0	0	0.001855	0	0		C	48771536	C	C	48771536	2	2	157	1	0	0	0	0	0	0	0	1	15038	1509	53	3		3	SPATA6	1	48771536	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2274574	48771536	200479085	52	85612											
ZCCHC11	23318	broad.mit.edu	37	chr1	52991321	52991321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtctgttgcttctgagatCgtggtgagttttgcagagca	7	15	13	6	1	2	3	0	2	2	2	3	4	2	3	0	1	3	5	0	1	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:52991321C>T	uc001ctx.2	-	2	866	c.632G>A	c.(631-633)CGA>CAA	p.R211Q	ZCCHC11_uc001cty.2_Missense_Mutation_p.R211Q|ZCCHC11_uc001ctz.2_Missense_Mutation_p.R211Q|ZCCHC11_uc009vze.1_Missense_Mutation_p.R211Q|ZCCHC11_uc009vzf.1_Intron|ZCCHC11_uc001cub.2_Missense_Mutation_p.R211Q|ZCCHC11_uc001cuc.2_RNA|ZCCHC11_uc001cud.2_Missense_Mutation_p.R211Q	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	211					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						CTTCTGAGATCGTGGTGAGTT	0.383													10	455					0	0	0.010729	0	0		T	52991321	T	T	52991321	3	4	157	1	0	0	0	0	1	0	0	0	17605	884	31	1	4421	1	ZCCHC11	1	52991321	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4219785	52991321	196259300	53	85613											
INADL	10207	broad.mit.edu	37	chr1	62237151	62237151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atattggccattaatcacacGccattggatcagaacatttc	13	12	6	10	1	2	1	2	0	0	1	3	2	2	2	2	2	1	0	2	2	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:62237151G>A	uc001dab.2	+	6	687	c.573G>A	c.(571-573)ACG>ACA	p.T191T	INADL_uc009waf.1_Silent_p.T191T|INADL_uc001daa.2_Silent_p.T191T|INADL_uc001dad.3_5'UTR	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	191	PDZ 1.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						TTAATCACACGCCATTGGATC	0.353													4	107					0	0	0.009096	0	0		A	62237151	A	A	62237151	2	1	157	1	0	0	0	0	0	0	0	1	7747	1074	38	1		1	INADL	1	62237151	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	9245830	62237151	187013470	54	85614											
PDE4B	5142	broad.mit.edu	37	chr1	66834549	66834549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtatcggcaatggacagaccGcatcatggaggaatttttcc	11	10	11	9	2	1	1	1	0	0	1	3	4	2	4	2	4	0	3	2	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:66834549G>A	uc001dcn.2	+	16	1933	c.1742G>A	c.(1741-1743)CGC>CAC	p.R581H	PDE4B_uc009war.2_Missense_Mutation_p.R489H|PDE4B_uc001dco.2_Missense_Mutation_p.R581H|PDE4B_uc001dcp.2_Missense_Mutation_p.R566H|PDE4B_uc001dcq.2_Missense_Mutation_p.R409H|PDE4B_uc009was.2_Missense_Mutation_p.R348H	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	581					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	TGGACAGACCGCATCATGGAG	0.478													33	126					0	0	0.013726	0	0		A	66834549	A	A	66834549	3	1	157	1	0	0	0	0	1	0	0	0	11659	1087	38	1	2158	1	PDE4B	1	66834549	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4597398	66834549	182416072	55	85615											
PTGFR	5737	broad.mit.edu	37	chr1	78958817	78958817	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttctaggcagtgtgatggCcattgagcggtgtattggag	7	13	15	6	1	2	2	0	2	2	0	2	3	2	3	1	4	1	2	1	4	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:78958817C>A	uc001din.2	+	2	655	c.389C>A	c.(388-390)GCC>GAC	p.A130D	PTGFR_uc001dim.2_Missense_Mutation_p.A130D	NM_000959	NP_000950	P43088	PF2R_HUMAN	prostaglandin F receptor isoform a precursor	130	Helical; Name=3; (Potential).				parturition	extracellular region|integral to plasma membrane	prostaglandin F receptor activity			ovary(3)|breast(2)|skin(1)	6				Colorectal(170;0.248)	Bimatoprost(DB00905)|Latanoprost(DB00654)|Travoprost(DB00287)	AGTGTGATGGCCATTGAGCGG	0.408													9	230					1.12685e-05	1.1756e-05	0.004482	1	0		A	78958817	A	A	78958817	3	1	157	1	0	0	0	0	1	0	0	0	12772	739	26	5	391	5	PTGFR	1	78958817	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	12124268	78958817	170291804	56	85616											
GBP6	163351	broad.mit.edu	37	chr1	89849285	89849285	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcttgcagtcagataaagcCctcactgatagagagaaggc	14	8	10	9	0	3	4	2	1	1	3	3	5	3	4	1	1	2	1	1	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:89849285C>T	uc001dnf.2	+	9	1714	c.1440C>T	c.(1438-1440)GCC>GCT	p.A480A	GBP6_uc010ost.1_Silent_p.A350A	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	480							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		CAGATAAAGCCCTCACTGATA	0.473													26	99					0	0	0.007291	0	0		T	89849285	T	T	89849285	2	4	157	1	0	0	0	0	0	0	0	1	6293	610	22	4		4	GBP6	1	89849285	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	10890468	89849285	159401336	57	85617											
LRRC8D	55144	broad.mit.edu	37	chr1	90398726	90398726	+	Silent	SNP	T	C	C	0	1	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	tttatggattacctagctgtTgttatgttaatggtagccat	9	18	9	5	0	0	0	0	0	0	0	0	1	0	1	2	2	3	5	2	2	6	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:90398726T>C	uc001dnm.2	+	3	524	c.99T>C	c.(97-99)GTT>GTC	p.V33V	LRRC8D_uc001dnn.2_Silent_p.V33V	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	33	Helical; (Potential).					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		ACCTAGCTGTTGTTATGTTAA	0.428													44	151					0	0	0.013114	0	0		C	90398726	C	C	90398726	2	2	157	1	0	0	0	0	0	0	0	1	9042	1799	63	3		3	LRRC8D	1	90398726	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	549441	90398726	158851895	58	85618											
LRRC8D	55144	broad.mit.edu	37	chr1	90400443	90400443	+	Missense_Mutation	SNP	A	G	G	1	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	tgaccaaagttccctccaacAttacagatgtggctccacat	12	10	6	13	0	0	2	0	1	0	1	3	2	3	2	4	1	2	2	4	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:90400443A>G	uc001dnm.2	+	3	2241	c.1816A>G	c.(1816-1818)ATT>GTT	p.I606V	LRRC8D_uc001dnn.2_Missense_Mutation_p.I606V	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	606	LRR 4.					integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		TCCCTCCAACATTACAGATGT	0.413													14	180					0	0	0.00245	0	0		G	90400443	G	G	90400443	3	3	157	1	0	0	0	0	1	0	0	0	9042	217	8	3	1818	3	LRRC8D	1	90400443	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1717	90400443	158850178	59	85619											
EVI5	7813	broad.mit.edu	37	chr1	92979232	92979232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcagacagtggttgaatacGactctcttcttctcgggggc	7	12	12	10	2	4	2	1	1	3	1	6	3	4	2	0	3	1	1	0	3	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:92979232G>A	uc001dox.2	-	18	2424	c.2414C>T	c.(2413-2415)TCG>TTG	p.S805L	EVI5_uc010otf.1_Missense_Mutation_p.S816L	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	805	Targeting to the centrosomes.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		GGTTGAATACGACTCTCTTCT	0.448													39	178					0	0	0.010771	0	0		A	92979232	A	A	92979232	3	1	157	1	0	0	0	0	1	0	0	0	5297	1059	37	1	22	1	EVI5	1	92979232	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2578789	92979232	156271389	60	85620											
RPL5	6125	broad.mit.edu	37	chr1	93303108	93303108	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccagaatgttgcagattacaTgcgctacttaatggaagaag	14	10	10	7	1	0	3	0	0	0	3	0	4	0	4	1	1	4	3	1	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:93303108T>C	uc001doz.2	+	6	701	c.623T>C	c.(622-624)ATG>ACG	p.M208T	FAM69A_uc001dpc.2_Intron|RPL5_uc001dpa.2_RNA|RPL5_uc001dpb.2_Missense_Mutation_p.M158T|RPL5_uc001dpd.2_Missense_Mutation_p.M9T	NM_000969	NP_000960	P46777	RL5_HUMAN	ribosomal protein L5	208					endocrine pancreas development|ribosomal large subunit biogenesis|rRNA processing|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	5S rRNA binding|protein binding|structural constituent of ribosome				0		all_lung(203;0.00265)|Lung NSC(277;0.0056)|all_neural(321;0.185)|Melanoma(281;0.192)|Glioma(108;0.203)		GBM - Glioblastoma multiforme(16;0.000305)|all cancers(265;0.000343)|Epithelial(280;0.0927)		GCAGATTACATGCGCTACTTA	0.378													5	72					0	0	0.000602	0	0		C	93303108	C	C	93303108	3	2	157	1	0	0	0	0	1	0	0	0	13622	1464	51	3	645	3	RPL5	1	93303108	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	323876	93303108	155947513	61	85621											
CNN3	1266	broad.mit.edu	37	chr1	95368702	95368702	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccagttcagtgaggactcGttgaccttcttcactgagcc	7	11	11	12	1	3	3	2	3	1	0	4	4	3	4	3	2	1	2	3	2	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:95368702G>A	uc010otw.1	-	4	304	c.222C>T	c.(220-222)AAC>AAT	p.N74N	CNN3_uc010otv.1_Silent_p.N33N|CNN3_uc001dqz.3_Silent_p.N74N|CNN3_uc010otx.1_Silent_p.N74N	NM_001839	NP_001830	Q15417	CNN3_HUMAN	calponin 3	74	CH.				actomyosin structure organization|smooth muscle contraction		actin binding|calmodulin binding|tropomyosin binding|troponin C binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00948)		all cancers(265;0.0325)|Epithelial(280;0.0861)		GTGAGGACTCGTTGACCTTCT	0.403													19	56					0	0	0.008871	0	0		A	95368702	A	A	95368702	2	1	157	1	0	0	0	0	0	0	0	1	3614	1136	40	1		1	CNN3	1	95368702	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2065594	95368702	153881919	62	85622											
PRMT6	55170	broad.mit.edu	37	chr1	107599519	107599519	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttcggtccacgaggagatgaTcgcggaccgcgtccgcaccg	7	6	14	14	8	0	2	0	1	0	1	4	5	2	3	4	3	0	1	4	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:107599519T>A	uc010ous.1	+	1	253	c.182T>A	c.(181-183)ATC>AAC	p.I61N		NM_018137	NP_060607	Q96LA8	ANM6_HUMAN	protein arginine methyltransferase 6	61					base-excision repair|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone binding|histone methyltransferase activity (H2A-R3 specific)|histone methyltransferase activity (H3-R2 specific)|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity				0		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)		GAGGAGATGATCGCGGACCGC	0.677													5	41					0	0	0.000602	0	0		A	107599519	A	A	107599519	3	1	157	1	0	0	0	0	1	0	0	0	12562	1435	50	5	184	5	PRMT6	1	107599519	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	12230817	107599519	141651102	63	85623											
VAV3	10451	broad.mit.edu	37	chr1	108303435	108303435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggtggtactttaaaacacGttgcataggaaccacaagca	16	8	9	8	1	0	0	0	0	0	0	0	1	0	1	1	3	5	4	1	3	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:108303435G>A	uc001dvk.1	-	10	1042	c.988C>T	c.(988-990)CGT>TGT	p.R330C	VAV3_uc010ouw.1_Missense_Mutation_p.R330C|VAV3_uc001dvl.1_Missense_Mutation_p.R154C|VAV3_uc010oux.1_Missense_Mutation_p.R330C	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	330	DH.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TTTAAAACACGTTGCATAGGA	0.279													15	70					0	0	0.003163	0	0		A	108303435	A	A	108303435	3	1	157	1	0	0	0	0	1	0	0	0	17159	1145	40	1	1652	1	VAV3	1	108303435	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	703916	108303435	140947186	64	85624											
AMPD2	271	broad.mit.edu	37	chr1	110170866	110170866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatgaatctcacggcctaCgacctgagtgtggacacgct	10	8	11	12	3	1	2	1	2	1	0	2	4	1	3	2	2	2	2	2	2	2	1	rs114727970	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:110170866C>T	uc009wfh.1	+	11	1946	c.1404C>T	c.(1402-1404)TAC>TAT	p.Y468Y	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Silent_p.Y387Y|AMPD2_uc001dyc.1_Silent_p.Y468Y|AMPD2_uc010ovr.1_Silent_p.Y393Y|AMPD2_uc010ovs.1_Silent_p.Y350Y|AMPD2_uc001dyd.1_Silent_p.Y349Y|AMPD2_uc001dye.1_5'Flank	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	468					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		TCACGGCCTACGACCTGAGTG	0.622													18	54					0	0	0.00499	0	0		T	110170866	T	T	110170866	2	4	157	1	0	0	0	0	0	0	0	1	586	547	19	1		1	AMPD2	1	110170866	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1867431	110170866	139079755	65	85625											
AMPD2	271	broad.mit.edu	37	chr1	110173650	110173650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccaatgtgccagacatccGcgtgggctaccgctacgaga	10	6	12	13	4	0	2	0	0	0	2	1	4	1	2	4	1	3	2	4	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:110173650G>A	uc009wfh.1	+	19	3058	c.2516G>A	c.(2515-2517)CGC>CAC	p.R839H	AMPD2_uc001dyb.1_Missense_Mutation_p.R758H|AMPD2_uc001dyc.1_Missense_Mutation_p.R839H|AMPD2_uc010ovr.1_Missense_Mutation_p.R764H|AMPD2_uc001dyd.1_Missense_Mutation_p.R720H|AMPD2_uc001dye.1_Missense_Mutation_p.R108H	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	839					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		CCAGACATCCGCGTGGGCTAC	0.617													7	18					0	0	0.00308	0	0		A	110173650	A	A	110173650	3	1	157	1	0	0	0	0	1	0	0	0	586	1087	38	1	2627	1	AMPD2	1	110173650	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2784	110173650	139076971	66	85626											
KCNA3	3738	broad.mit.edu	37	chr1	111217053	111217053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtcgcccagcagcgtctCggggaactggcaaagggtct	7	6	17	11	3	2	0	0	0	2	0	4	1	2	1	1	6	3	2	1	6	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:111217053C>T	uc001dzv.1	-	1	603	c.379G>A	c.(379-381)GAG>AAG	p.E127K		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	127						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGCAGCGTCTCGGGGAACTGG	0.672													10	52					0	0	0.013537	0	0		T	111217053	T	T	111217053	3	4	157	1	0	0	0	0	1	0	0	0	8020	893	31	1	1352	1	KCNA3	1	111217053	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1043403	111217053	138033568	67	85627											
CHIA	27159	broad.mit.edu	37	chr1	111857901	111857901	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccctcagtttcactgcCatggtttctactcctgagaa	7	14	7	13	0	4	1	2	1	2	1	6	2	5	1	3	1	2	2	3	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:111857901C>T	uc001eas.2	+	6	427	c.324C>T	c.(322-324)GCC>GCT	p.A108A	CHIA_uc001ear.2_5'UTR|CHIA_uc001eaq.2_5'UTR|CHIA_uc009wgc.2_5'UTR|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_5'UTR|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	108					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		GTTTCACTGCCATGGTTTCTA	0.517													56	258					0	0	0.01441	0	0		T	111857901	T	T	111857901	2	4	157	1	0	0	0	0	0	0	0	1	3345	581	21	4		4	CHIA	1	111857901	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	640848	111857901	137392720	68	85628											
DDX20	11218	broad.mit.edu	37	chr1	112305362	112305362	+	Missense_Mutation	SNP	T	C	C	0	1	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	atctggatgtaccattggatTgggagacatacatgcatcgg	11	11	12	7	1	1	1	0	0	1	1	2	4	1	3	1	4	3	2	1	4	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:112305362T>C	uc001ebs.2	+	9	1525	c.1168T>C	c.(1168-1170)TGG>CGG	p.W390R	DDX20_uc010owf.1_Missense_Mutation_p.W152R|DDX20_uc001ebt.2_5'UTR	NM_007204	NP_009135	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	390	Helicase C-terminal.				assembly of spliceosomal tri-snRNP|ncRNA metabolic process	Cajal body|cytoskeleton|cytosol|spliceosomal complex	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding			lung(1)|kidney(1)	2		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)		ACCATTGGATTGGGAGACATA	0.383													15	208					0	0	0.003163	0	0		C	112305362	C	C	112305362	3	2	157	1	0	0	0	0	1	0	0	0	4351	1812	63	3	1202	3	DDX20	1	112305362	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	447461	112305362	136945259	69	85629											
PPM1J	333926	broad.mit.edu	37	chr1	113253204	113253204	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacatcatctgggcagtgCtcatattgtgtcaggtcata	10	12	10	9	0	5	0	4	0	1	0	5	0	5	0	0	2	2	3	0	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:113253204C>T	uc001ect.1	-	9	1275	c.1248G>A	c.(1246-1248)GAG>GAA	p.E416E	PPM1J_uc009wgl.1_RNA|PPM1J_uc001ecs.1_Silent_p.E210E	NM_005167	NP_005158	Q5JR12	PPM1J_HUMAN	protein phosphatase 1J (PP2C domain containing)	416	PP2C-like.									breast(2)|central_nervous_system(1)	3	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)		CTGGGCAGTGCTCATATTGTG	0.547													52	186					0	0	0.01441	0	0		T	113253204	T	T	113253204	2	4	157	1	0	0	0	0	0	0	0	1	12364	796	28	2		2	PPM1J	1	113253204	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	947842	113253204	135997417	70	85630											
VANGL1	81839	broad.mit.edu	37	chr1	116206712	116206712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtccgcattttggactctcGggaccggaattaccagggca	8	9	13	11	3	1	0	0	0	1	0	3	3	2	3	3	5	1	2	3	5	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:116206712G>A	uc001efv.1	+	4	906	c.635G>A	c.(634-636)CGG>CAG	p.R212Q	VANGL1_uc009wgy.1_Missense_Mutation_p.R210Q|VANGL1_uc001efw.1_Missense_Mutation_p.R212Q	NM_138959	NP_620409	Q8TAA9	VANG1_HUMAN	vang-like 1	212	Extracellular (Potential).				multicellular organismal development	integral to membrane	protein binding	p.R212W(1)		central_nervous_system(1)	1	Lung SC(450;0.211)	all_cancers(81;1.24e-06)|all_epithelial(167;1.02e-06)|all_lung(203;7.95e-06)|Lung NSC(69;4.97e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		TTGGACTCTCGGGACCGGAAT	0.517													57	230					0	0	0.01441	0	0		A	116206712	A	A	116206712	3	1	157	1	0	0	0	0	1	0	0	0	17145	1116	39	1	645	1	VANGL1	1	116206712	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2953508	116206712	133043909	71	85631											
IGSF3	3321	broad.mit.edu	37	chr1	117122481	117122481	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggcattggggaccactgtgTccacctgcagggaagcatct	8	9	13	11	0	1	0	0	0	1	0	2	2	2	2	3	4	2	3	3	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:117122481T>G	uc001egr.1	-	10	3572	c.2867A>C	c.(2866-2868)GAC>GCC	p.D956A	IGSF3_uc001egq.1_Missense_Mutation_p.D976A	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	956	Ig-like C2-type 8.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		GACCACTGTGTCCACCTGCAG	0.473													7	36					0	0	0.00308	0	0		G	117122481	G	G	117122481	3	3	157	1	0	0	0	0	1	0	0	0	7617	1667	58	5	725	5	IGSF3	1	117122481	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	915769	117122481	132128140	72	85632											
NOTCH2	4853	broad.mit.edu	37	chr1	120465373	120465373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcttgaacacactggcGgttgtcaatttccagaaaga	12	11	10	8	1	2	4	1	2	1	2	3	4	3	4	1	2	1	1	1	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:120465373G>A	uc001eik.2	-	27	5144	c.4888C>T	c.(4888-4890)CGC>TGC	p.R1630C		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1630	Negative regulatory region (NRR).|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity	p.R1630L(1)		lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACACACTGGCGGTTGTCAATT	0.542			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				33	152					0	0	0.003271	0	0		A	120465373	A	A	120465373	3	1	157	1	0	0	0	0	1	0	0	0	10567	1116	39	1	2559	1	NOTCH2	1	120465373	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3342892	120465373	128785248	73	85633											
PPIAL4G	644591	broad.mit.edu	37	chr1	143767651	143767651	+	Silent	SNP	G	A	A	0	0	1	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	gtgccattagggtgtgtgaaGtcaccaccctgacacataaa	12	9	10	10	0	1	2	1	2	0	0	1	2	1	2	3	1	1	0	3	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:143767651G>A	uc001ejt.2	-	1	231	c.198C>T	c.(196-198)GAC>GAT	p.D66D		NM_001123068	NP_001116540	A2BFH1	PAL4G_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	66	PPIase cyclophilin-type.				protein folding	cytoplasm	peptidyl-prolyl cis-trans isomerase activity				0						GGTGTGTGAAGTCACCACCCT	0.458													63	454					0	0	0.01441	0	0		A	143767651	A	A	143767651	2	1	157	1	0	0	0	0	0	0	0	1	12340	1020	36	4		4	PPIAL4G	1	143767651	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	23302278	143767651	105482970	74	85634											
PDE4DIP	9659	broad.mit.edu	37	chr1	145015864	145015864	+	Missense_Mutation	SNP	T	C	C	0	1	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	cactcacatgacttaccttcTcaaagtctcgaagagcctgg	11	10	7	13	1	3	2	2	1	2	1	5	3	3	2	2	1	2	0	2	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:145015864T>C	uc001elx.3	-	3	559	c.224A>G	c.(223-225)GAG>GGG	p.E75G	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_5'UTR|PDE4DIP_uc001eln.3_Missense_Mutation_p.E75G|PDE4DIP_uc001elo.2_Missense_Mutation_p.E146G|PDE4DIP_uc001emh.2_Missense_Mutation_p.E146G|uc001emj.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACTTACCTTCTCAAAGTCTCG	0.438			T	PDGFRB	MPD								58	869					0	0	0.01441	0	0		C	145015864	C	C	145015864	3	2	157	1	0	0	0	0	1	0	0	0	11662	1551	54	3	8367	3	PDE4DIP	1	145015864	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1248213	145015864	104234757	75	85635											
HIST2H3D	653604	broad.mit.edu	37	chr1	149784833	149784833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaaatatgccttaggccCgctccccgcggatgcggcgg	8	8	12	13	5	0	0	0	0	0	0	1	1	1	1	4	4	2	1	4	4	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:149784833C>T	uc010pbl.1	-	1	404	c.404G>A	c.(403-405)CGG>CAG	p.R135Q	HIST2H2BF_uc010pbj.1_5'Flank|HIST2H2BF_uc010pbk.1_5'Flank|HIST2H2BF_uc001esr.2_5'Flank	NM_001123375	NP_001116847	Q71DI3	H32_HUMAN	histone cluster 2, H3d	135					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding|protein binding				0						GCCTTAGGCCCGCTCCCCGCG	0.572													10	57					0	0	0.006122	0	0		T	149784833	T	T	149784833	3	4	157	1	0	0	0	0	1	0	0	0	7197	652	23	1	8	1	HIST2H3D	1	149784833	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4768969	149784833	99465788	76	85636											
LASS2	29956	broad.mit.edu	37	chr1	150940936	150940936	+	Silent	SNP	G	A	A	0	0	1	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	ggcgttgggaggtgcccgcaGccgagttttctcctttatgt	4	13	14	10	3	1	0	0	0	1	0	2	2	1	1	3	3	2	3	3	3	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:150940936G>A	uc001evy.2	-	3	613	c.226C>T	c.(226-228)CTG>TTG	p.L76L	LASS2_uc001evz.2_Silent_p.L76L|LASS2_uc009wmh.2_5'UTR	NM_181746	NP_859530	Q96G23	CERS2_HUMAN	LAG1 longevity assurance 2	76	Cytoplasmic (Potential).|Homeobox.					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0	all_lung(15;8.07e-35)|Lung NSC(24;7.93e-31)|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)			GGTGCCCGCAGCCGAGTTTTC	0.552													6	66					0	0	0.001168	0	0		A	150940936	A	A	150940936	2	1	157	1	0	0	0	0	0	0	0	1	8655	962	34	2		2	LASS2	1	150940936	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1156103	150940936	98309685	77	85637											
ANXA9	8416	broad.mit.edu	37	chr1	150959137	150959137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagaacaagatgtccaGgtgagcagggggtttaggag	11	7	17	6	0	0	3	0	1	0	2	1	4	1	4	1	5	2	3	1	5	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:150959137G>T	uc001ewa.2	+	9	1082	c.612G>T	c.(610-612)CAG>CAT	p.Q204H		NM_003568	NP_003559	O76027	ANXA9_HUMAN	annexin A9	204	Annexin 3.				cell-cell adhesion	cell surface|cytosol	acetylcholine receptor activity|calcium ion binding|calcium-dependent phospholipid binding|phosphatidylserine binding|protein homodimerization activity				0	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			AAGATGTCCAGGTGAGCAGGG	0.527													7	70					0.00307968	0.00313351	0.00308	1	0		T	150959137	T	T	150959137	3	4	157	1	0	0	0	0	1	0	0	0	725	1014	35	5	638	5	ANXA9	1	150959137	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	18201	150959137	98291484	78	85638											
FAM63A	55793	broad.mit.edu	37	chr1	150971889	150971889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggttgtttcggaaaaagaCgctaagttcaccctccttag	10	12	10	9	2	1	1	1	0	0	1	3	2	2	2	2	2	0	4	2	2	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:150971889C>T	uc001ewf.2	-	8	2621	c.937G>A	c.(937-939)GTC>ATC	p.V313I	FAM63A_uc001ewc.2_Missense_Mutation_p.V171I|FAM63A_uc010pcm.1_Missense_Mutation_p.V218I|FAM63A_uc001ewd.2_Missense_Mutation_p.V171I|FAM63A_uc001ewe.2_Missense_Mutation_p.V147I|FAM63A_uc010pcn.1_Missense_Mutation_p.V361I|FAM63A_uc001ewg.2_Missense_Mutation_p.V313I	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	313							protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CGGAAAAAGACGCTAAGTTCA	0.542													59	274					0	0	0.01441	0	0		T	150971889	T	T	150971889	3	4	157	1	0	0	0	0	1	0	0	0	5610	536	19	1	488	1	FAM63A	1	150971889	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	12752	150971889	98278732	79	85639											
PIP5K1A	8394	broad.mit.edu	37	chr1	151206963	151206963	+	Silent	SNP	T	C	C	0	1	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	ctctgtaagaccctgcagcgTgactgtttggtgagtttgtt	6	15	12	8	1	1	3	0	2	1	1	1	3	1	3	1	1	2	5	1	1	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:151206963T>C	uc001exj.2	+	8	1382	c.930T>C	c.(928-930)CGT>CGC	p.R310R	PIP5K1A_uc001exi.2_Silent_p.R297R|PIP5K1A_uc010pcu.1_Silent_p.R298R|PIP5K1A_uc001exk.2_Silent_p.R297R|PIP5K1A_uc010pcv.1_Silent_p.R67R	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	310	PIPK.				phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.181)			CCCTGCAGCGTGACTGTTTGG	0.403													32	148					0	0	0.009535	0	0		C	151206963	C	C	151206963	2	2	157	1	0	0	0	0	0	0	0	1	11958	1683	59	3		3	PIP5K1A	1	151206963	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	235074	151206963	98043658	80	85640											
ZNF687	57592	broad.mit.edu	37	chr1	151259493	151259493	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caacaaggctcaggctccagCcctaaggccacggacatccc	11	4	9	17	1	1	0	1	0	0	0	3	1	3	1	4	4	2	2	4	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:151259493C>T	uc001exq.2	+	2	824	c.726C>T	c.(724-726)AGC>AGT	p.S242S	ZNF687_uc001exp.1_Silent_p.S251S|ZNF687_uc009wmo.2_Silent_p.S242S|ZNF687_uc009wmp.2_Silent_p.S242S	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	242	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			CAGGCTCCAGCCCTAAGGCCA	0.642													15	129					0	0	0.004007	0	0		T	151259493	T	T	151259493	2	4	157	1	0	0	0	0	0	0	0	1	18117	738	26	2		2	ZNF687	1	151259493	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	52530	151259493	97991128	81	85641											
RORC	6097	broad.mit.edu	37	chr1	151785515	151785515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagaagtcaaagatggagCtgatgagctcgctgcagcct	11	7	15	8	1	1	4	1	2	0	2	2	6	1	5	1	2	4	4	1	2	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:151785515C>T	uc001ezh.2	-	9	1301	c.1193G>A	c.(1192-1194)AGC>AAC	p.S398N	RORC_uc001ezg.2_Missense_Mutation_p.S377N|RORC_uc010pdo.1_Missense_Mutation_p.S452N|RORC_uc010pdp.1_Missense_Mutation_p.S386N	NM_005060	NP_005051	P51449	RORG_HUMAN	RAR-related orphan receptor C isoform a	398	Ligand-binding.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			AAAGATGGAGCTGATGAGCTC	0.527													23	54					0	0	0.014323	0	0		T	151785515	T	T	151785515	3	4	157	1	0	0	0	0	1	0	0	0	13555	797	28	2	375	2	RORC	1	151785515	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	526022	151785515	97465106	82	85642											
NUP210L	91181	broad.mit.edu	37	chr1	154042791	154042791	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatcatcttttgctaccaTttccactgatttataatctt	9	18	3	11	0	3	1	1	1	2	0	4	1	4	1	3	0	2	1	3	0	3	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:154042791T>C	uc001fdw.2	-	17	2584	c.2512A>G	c.(2512-2514)ATG>GTG	p.M838V	NUP210L_uc009woq.2_Intron|NUP210L_uc010peh.1_Missense_Mutation_p.M838V	NM_207308	NP_997191	Q5VU65	P210L_HUMAN	nucleoporin 210kDa-like isoform 1	838						integral to membrane				skin(5)|ovary(4)|large_intestine(1)|central_nervous_system(1)	11	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)		LUSC - Lung squamous cell carcinoma(543;0.151)|Colorectal(543;0.198)			TTTGCTACCATTTCCACTGAT	0.338													37	225					0	0	0.011902	0	0		C	154042791	C	C	154042791	3	2	157	1	0	0	0	0	1	0	0	0	10780	1493	52	3	3250	3	NUP210L	1	154042791	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2257276	154042791	95207830	83	85643											
ZBTB7B	51043	broad.mit.edu	37	chr1	154987838	154987838	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccatcccttgacctatgaGgaggaggaggtggcgggcag	8	6	17	10	1	0	2	0	2	0	0	1	5	1	5	3	6	0	1	3	6	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:154987838G>T	uc001fgk.3	+	3	860	c.702G>T	c.(700-702)GAG>GAT	p.E234D	ZBTB7B_uc009wpa.2_Missense_Mutation_p.E234D|ZBTB7B_uc001fgj.3_Missense_Mutation_p.E268D|ZBTB7B_uc010peq.1_Missense_Mutation_p.E268D|ZBTB7B_uc001fgl.3_Missense_Mutation_p.E234D	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	234					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			TGACCTATGAGGAGGAGGAGG	0.672													8	21					2.17888e-05	2.26196e-05	0.006214	1	0		T	154987838	T	T	154987838	3	4	157	1	0	0	0	0	1	0	0	0	17579	991	35	5	704	5	ZBTB7B	1	154987838	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	945047	154987838	94262783	84	85644											
YY1AP1	55249	broad.mit.edu	37	chr1	155629928	155629928	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagggttaaccaagagggtGgcgatgggaatagtctgggg	10	8	19	4	1	1	1	0	0	1	1	1	3	1	2	1	6	1	2	1	6	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:155629928G>A	uc001fln.2	-	11	1935	c.1911C>T	c.(1909-1911)GCC>GCT	p.A637A	YY1AP1_uc001flg.2_Silent_p.A376A|YY1AP1_uc010pgg.1_Silent_p.A476A|YY1AP1_uc010pgh.1_Silent_p.A580A|YY1AP1_uc010pgi.1_Silent_p.A729A|YY1AP1_uc001flh.2_Silent_p.A709A|YY1AP1_uc009wqt.2_Silent_p.A560A|YY1AP1_uc001flk.2_Silent_p.A580A|YY1AP1_uc001fll.2_Silent_p.A591A|YY1AP1_uc009wqv.2_Silent_p.A308A|YY1AP1_uc001flm.2_Silent_p.A580A|YY1AP1_uc001fli.2_Silent_p.A591A|YY1AP1_uc009wqu.2_Silent_p.A424A|YY1AP1_uc001flj.2_Silent_p.A571A|YY1AP1_uc009wqw.2_Silent_p.A560A|YY1AP1_uc001flo.2_Silent_p.A525A|YY1AP1_uc001flp.2_Silent_p.A591A	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	637					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					CCAAGAGGGTGGCGATGGGAA	0.537													19	65					0	0	0.010504	0	0		A	155629928	A	A	155629928	2	1	157	1	0	0	0	0	0	0	0	1	17534	1335	47	4		4	YY1AP1	1	155629928	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	642090	155629928	93620693	85	85645											
GON4L	54856	broad.mit.edu	37	chr1	155726824	155726824	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatcttgggaggctcctcCtcttcttccacatcaggcag	6	12	10	13	0	4	0	1	0	3	0	7	1	7	1	3	4	0	3	3	4	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:155726824C>T	uc001flz.2	-	27	5539	c.5442G>A	c.(5440-5442)GAG>GAA	p.E1814E	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Silent_p.E1814E|GON4L_uc009wrh.1_Silent_p.E1814E|GON4L_uc001fma.1_Silent_p.E1814E|GON4L_uc001fmb.3_Silent_p.E1010E	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1814					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					GAGGCTCCTCCTCTTCTTCCA	0.448													24	103					0	0	0.004656	0	0		T	155726824	T	T	155726824	2	4	157	1	0	0	0	0	0	0	0	1	6587	680	24	4		4	GON4L	1	155726824	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	96896	155726824	93523797	86	85646											
MEX3A	92312	broad.mit.edu	37	chr1	156047022	156047022	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctccccgccaggaagtcGttttcattgttgtactcgag	6	12	12	11	3	1	0	1	0	0	0	4	2	2	1	3	2	1	4	3	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:156047022G>A	uc001fnd.3	-	2	906	c.906C>T	c.(904-906)AAC>AAT	p.N302N		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	302						cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					CCAGGAAGTCGTTTTCATTGT	0.657													15	61					0	0	0.003163	0	0		A	156047022	A	A	156047022	2	1	157	1	0	0	0	0	0	0	0	1	9527	1136	40	1		1	MEX3A	1	156047022	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	320198	156047022	93203599	87	85647											
BCAN	63827	broad.mit.edu	37	chr1	156616629	156616629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtgcgcatcgcgggcgacgCgccactgcagggcgtgctcg	4	5	17	15	9	0	0	0	0	0	0	2	1	0	0	1	2	3	3	1	2	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:156616629C>T	uc001fpp.2	+	3	464	c.128C>T	c.(127-129)GCG>GTG	p.A43V	BCAN_uc001fpo.2_Missense_Mutation_p.A43V	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	43	Ig-like V-type.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCGGGCGACGCGCCACTGCAG	0.721													8	35					0	0	0.00308	0	0		T	156616629	T	T	156616629	3	4	157	1	0	0	0	0	1	0	0	0	1346	768	27	1	134	1	BCAN	1	156616629	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	569607	156616629	92633992	88	85648											
BCAN	63827	broad.mit.edu	37	chr1	156621265	156621265	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagactcggcccagccttctGccatccctgaggcctccaac	7	7	8	19	1	1	2	0	1	1	1	4	2	3	2	6	2	3	0	6	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:156621265G>A	uc001fpp.2	+	7	1417	c.1081G>A	c.(1081-1083)GCC>ACC	p.A361T	BCAN_uc001fpo.2_Missense_Mutation_p.A361T	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	361					cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCAGCCTTCTGCCATCCCTGA	0.478													10	32					0	0	0.013537	0	0		A	156621265	A	A	156621265	3	1	157	1	0	0	0	0	1	0	0	0	1346	1319	46	2	1103	2	BCAN	1	156621265	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4636	156621265	92629356	89	85649											
NES	10763	broad.mit.edu	37	chr1	156641614	156641614	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatctcctggtcaagagacTtcagtggttctagatccact	9	13	8	11	0	4	2	2	0	2	2	6	3	5	2	2	2	0	1	2	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:156641614T>G	uc001fpq.2	-	4	2499	c.2366A>C	c.(2365-2367)AAG>ACG	p.K789T		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	789	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCAAGAGACTTCAGTGGTTC	0.423													45	133					0	0	0.013114	0	0		G	156641614	G	G	156641614	3	3	157	1	0	0	0	0	1	0	0	0	10356	1609	56	5	2503	5	NES	1	156641614	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	20349	156641614	92609007	90	85650											
INSRR	3645	broad.mit.edu	37	chr1	156821927	156821927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcagccccccaggcattCggtgtggcagcactcgcccc	5	6	12	18	2	0	0	0	0	0	0	2	0	0	0	5	3	3	5	5	3	0	1	rs140347940		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:156821927C>T	uc010pht.1	-	3	948	c.694G>A	c.(694-696)GAA>AAA	p.E232K	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Missense_Mutation_p.E232K	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	232					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCCAGGCATTCGGTGTGGCAG	0.672													9	25					0	0	0.010729	0	0		T	156821927	T	T	156821927	3	4	157	1	0	0	0	0	1	0	0	0	7790	893	31	1	3278	1	INSRR	1	156821927	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	180313	156821927	92428694	91	85651											
CD5L	922	broad.mit.edu	37	chr1	157803265	157803265	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctccagtcgcccagagcaGaggttgtctcctcctactag	8	9	9	15	1	1	2	0	0	1	2	5	2	3	2	5	1	2	2	5	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:157803265G>T	uc001frk.3	-	5	899	c.756C>A	c.(754-756)CTC>CTA	p.L252L		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	252	SRCR 3.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			GCCCAGAGCAGAGGTTGTCTC	0.537													20	124					3.51602e-12	3.79236e-12	0.008871	1	0		T	157803265	T	T	157803265	2	4	157	1	0	0	0	0	0	0	0	1	3030	929	33	5		5	CD5L	1	157803265	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	981338	157803265	91447356	92	85652											
KIRREL	55243	broad.mit.edu	37	chr1	158063221	158063221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggtattcttcctctacCggcgccgcaaaggcagtgag	7	10	11	13	3	2	1	0	1	2	0	3	1	3	1	4	3	1	3	4	3	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:158063221C>T	uc001frn.3	+	12	1968	c.1564C>T	c.(1564-1566)CGG>TGG	p.R522W	KIRREL_uc010pib.1_Missense_Mutation_p.R422W|KIRREL_uc009wsq.2_Missense_Mutation_p.R358W|KIRREL_uc001fro.3_Missense_Mutation_p.R336W	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	522	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					CTTCCTCTACCGGCGCCGCAA	0.592													35	92					0	0	0.013726	0	0		T	158063221	T	T	158063221	3	4	157	1	0	0	0	0	1	0	0	0	8340	643	23	1	1610	1	KIRREL	1	158063221	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	259956	158063221	91187400	93	85653											
CASQ1	844	broad.mit.edu	37	chr1	160165298	160165298	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggagtttcatccctacatcCccttcttcgccaccttcgac	7	12	5	17	2	2	0	1	0	1	0	6	2	4	1	5	1	1	1	5	1	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:160165298C>A	uc010pja.1	+	5	882	c.625C>A	c.(625-627)CCC>ACC	p.P209T		NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1	209						mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCCCTACATCCCCTTCTTCGC	0.562													21	86					7.45023e-12	8.0204e-12	0.010504	1	0		A	160165298	A	A	160165298	3	1	157	1	0	0	0	0	1	0	0	0	2683	623	22	5	643	5	CASQ1	1	160165298	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2102077	160165298	89085323	94	85654											
ARHGAP30	257106	broad.mit.edu	37	chr1	161026241	161026241	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttctctgaaataggccttGcacagggaggagacgcagtg	11	8	14	8	1	1	2	0	1	1	1	2	4	1	3	1	3	1	3	1	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:161026241G>A	uc001fxl.2	-	3	628	c.282C>T	c.(280-282)TGC>TGT	p.C94C	ARHGAP30_uc001fxk.2_Silent_p.C94C|ARHGAP30_uc001fxm.2_Intron|ARHGAP30_uc009wtx.2_5'UTR|ARHGAP30_uc001fxn.1_5'UTR	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	94	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			AATAGGCCTTGCACAGGGAGG	0.577													13	37					0	0	0.001855	0	0		A	161026241	A	A	161026241	2	1	157	1	0	0	0	0	0	0	0	1	879	1311	46	2		2	ARHGAP30	1	161026241	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	860943	161026241	88224380	95	85655											
FCRLB	127943	broad.mit.edu	37	chr1	161697329	161697329	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgctcaaaggccttctgagCcgggtggtcctggaattaaa	9	10	12	10	1	2	1	1	1	1	0	3	2	3	2	3	4	2	1	3	4	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:161697329C>T	uc001gbh.2	+	8	1392	c.1158C>T	c.(1156-1158)AGC>AGT	p.S386S	FCRLB_uc009wus.2_Silent_p.S386S|FCRLB_uc001gbj.2_3'UTR|FCRLB_uc001gbk.2_3'UTR|FCRLB_uc001gbl.2_3'UTR|FCRLB_uc001gbm.2_3'UTR|FCRLB_uc001gbi.2_Silent_p.S386S|FCRLB_uc001gbn.3_3'UTR	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	386						endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			GCCTTCTGAGCCGGGTGGTCC	0.642													12	58					0	0	0.010729	0	0		T	161697329	T	T	161697329	2	4	157	1	0	0	0	0	0	0	0	1	5815	738	26	2		2	FCRLB	1	161697329	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	671088	161697329	87553292	96	85656											
PBX1	5087	broad.mit.edu	37	chr1	164768972	164768972	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacccacgtgatgaatctcCtgcgagagcaaagccggacc	11	5	10	15	3	1	3	0	2	1	1	2	5	1	4	5	1	3	1	5	1	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:164768972C>A	uc001gct.2	+	4	805	c.547C>A	c.(547-549)CTG>ATG	p.L183M	PBX1_uc010pku.1_Missense_Mutation_p.L183M|PBX1_uc010pkv.1_Missense_Mutation_p.L100M|PBX1_uc001gcs.2_Missense_Mutation_p.L183M|PBX1_uc010pkw.1_Missense_Mutation_p.L73M	NM_002585	NP_002576	P40424	PBX1_HUMAN	pre-B-cell leukemia homeobox 1	183					negative regulation of sequence-specific DNA binding transcription factor activity|sex differentiation|steroid biosynthetic process	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription factor binding		EWSR1/PBX1(3)	soft_tissue(3)|lung(1)|skin(1)	5						GATGAATCTCCTGCGAGAGCA	0.547			T	TCF3|EWSR1	pre B-ALL|myoepithelioma								8	92					0.00307968	0.00313351	0.00308	1	0		A	164768972	A	A	164768972	3	1	157	1	0	0	0	0	1	0	0	0	11511	680	24	5	561	5	PBX1	1	164768972	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3071643	164768972	84481649	97	85657											
LMX1A	4009	broad.mit.edu	37	chr1	165182974	165182974	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacgtttggggcgcttatgGtccttgccttcctcagcagt	4	13	13	11	2	1	0	1	0	0	0	3	1	3	1	3	4	2	3	3	4	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:165182974G>A	uc001gcy.1	-	4	794	c.573C>T	c.(571-573)GAC>GAT	p.D191D	LMX1A_uc001gcz.1_Silent_p.D191D|LMX1A_uc001gcw.1_5'Flank|LMX1A_uc001gcx.1_5'Flank	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	191						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					GGCGCTTATGGTCCTTGCCTT	0.488													53	312					0	0	0.01441	0	0		A	165182974	A	A	165182974	2	1	157	1	0	0	0	0	0	0	0	1	8878	1252	44	4		4	LMX1A	1	165182974	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	414002	165182974	84067647	98	85658											
GPA33	10223	broad.mit.edu	37	chr1	167024259	167024259	+	Missense_Mutation	SNP	A	G	G	1	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	gttgtcgtccttccctcggcAgcagcagcagtagatgatga	8	10	12	11	2	0	3	0	2	0	1	4	3	2	3	2	1	3	6	2	1	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:167024259A>G	uc001gea.1	-	6	1125	c.781T>C	c.(781-783)TGC>CGC	p.C261R		NM_005814	NP_005805	Q99795	GPA33_HUMAN	transmembrane glycoprotein A33 precursor	261	Cytoplasmic (Potential).|Poly-Cys.					integral to plasma membrane	receptor activity				0						TTCCCTCGGCAGCAGCAGCAG	0.567													20	85					0	0	0.012319	0	0		G	167024259	G	G	167024259	3	3	157	1	0	0	0	0	1	0	0	0	6601	188	7	3	186	3	GPA33	1	167024259	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1841285	167024259	82226362	99	85659											
ADCY10	55811	broad.mit.edu	37	chr1	167792355	167792355	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagcacctggatcaattgCgggtatctatggaaaagaaa	14	8	10	9	1	2	1	1	0	1	1	2	3	2	3	2	3	2	2	2	3	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:167792355C>T	uc001ger.2	-	29	4357	c.4059G>A	c.(4057-4059)CCG>CCA	p.P1353P	ADCY10_uc009wvj.2_RNA|ADCY10_uc009wvk.2_Silent_p.P1261P|ADCY10_uc010plj.1_Silent_p.P1200P	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	1353					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						GGATCAATTGCGGGTATCTAT	0.343													15	49					0	0	0.006122	0	0		T	167792355	T	T	167792355	2	4	157	1	0	0	0	0	0	0	0	1	293	755	27	1		1	ADCY10	1	167792355	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	768096	167792355	81458266	100	85660											
GPR161	23432	broad.mit.edu	37	chr1	168054846	168054846	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctggctcacaagagttctgcTgcctcggcggcccccgaagc	6	7	12	16	3	2	1	1	0	1	1	3	2	2	1	3	3	3	3	3	3	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:168054846T>C	uc001gfc.2	-	8	1827	c.1513A>G	c.(1513-1515)AGC>GGC	p.S505G	GPR161_uc001gfb.2_Missense_Mutation_p.S373G|GPR161_uc010pll.1_Missense_Mutation_p.S415G|GPR161_uc010plm.1_Missense_Mutation_p.S391G|GPR161_uc009wvo.2_Missense_Mutation_p.S522G|GPR161_uc001gfd.2_Missense_Mutation_p.S505G|GPR161_uc010pln.1_Missense_Mutation_p.S525G	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	505	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					AGAGTTCTGCTGCCTCGGCGG	0.612													19	108					0	0	0.00623	0	0		C	168054846	C	C	168054846	3	2	157	1	0	0	0	0	1	0	0	0	6680	1580	55	3	80	3	GPR161	1	168054846	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	262491	168054846	81195775	101	85661											
SCYL3	57147	broad.mit.edu	37	chr1	169823669	169823669	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcttgtgatgacacttttggCggctcgatttggtctgcgtc	4	16	12	9	3	2	2	0	2	2	0	4	3	2	2	0	3	1	1	0	3	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:169823669C>T	uc001ggs.2	-	13	2109	c.1911G>A	c.(1909-1911)CCG>CCA	p.P637P	SCYL3_uc010plw.1_Silent_p.P229P|SCYL3_uc001ggt.2_Silent_p.P583P|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	637	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ACACTTTTGGCGGCTCGATTT	0.438													6	164					0	0	0.004482	0	0		T	169823669	T	T	169823669	2	4	157	1	0	0	0	0	0	0	0	1	13974	755	27	1		1	SCYL3	1	169823669	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1768823	169823669	79426952	102	85662											
TNR	7143	broad.mit.edu	37	chr1	175372559	175372559	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgttgggcaccggagttcGgaacagtcatccccgctgta	7	10	12	12	3	2	0	1	0	1	0	4	2	3	2	3	3	1	5	3	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:175372559G>A	uc001gkp.1	-	2	774	c.693C>T	c.(691-693)TCC>TCT	p.S231S	TNR_uc009wwu.1_Silent_p.S231S|TNR_uc010pmz.1_Silent_p.S231S	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	231	Cys-rich.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACCGGAGTTCGGAACAGTCAT	0.637													25	151					0	0	0.003954	0	0		A	175372559	A	A	175372559	2	1	157	1	0	0	0	0	0	0	0	1	16363	1103	39	1		1	TNR	1	175372559	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5548890	175372559	73878062	103	85663											
PAPPA2	60676	broad.mit.edu	37	chr1	176525653	176525653	+	Missense_Mutation	SNP	T	G	G	0	1	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	cccagagcttctccacagcaTcacctctttggagtctaccc	8	10	6	17	0	4	1	1	0	3	1	5	2	4	2	4	1	3	2	4	1	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:176525653T>G	uc001gkz.2	+	2	1359	c.195T>G	c.(193-195)CAT>CAG	p.H65Q	PAPPA2_uc001gky.1_Missense_Mutation_p.H65Q|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	65					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CTCCACAGCATCACCTCTTTG	0.552													57	206					0	0	0.01441	0	0		G	176525653	G	G	176525653	3	3	157	1	0	0	0	0	1	0	0	0	11452	1432	50	5	197	5	PAPPA2	1	176525653	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1153094	176525653	72724968	104	85664											
PAPPA2	60676	broad.mit.edu	37	chr1	176659457	176659457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacctctgtgccgacacCgcccccactcccaagagtga	9	5	10	17	2	1	3	0	1	1	2	2	5	2	3	6	1	1	0	6	1	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:176659457C>T	uc001gkz.2	+	5	3486	c.2322C>T	c.(2320-2322)ACC>ACT	p.T774T	PAPPA2_uc001gky.1_Silent_p.T774T|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	774					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GTGCCGACACCGCCCCCACTC	0.562													31	138					0	0	0.010818	0	0		T	176659457	T	T	176659457	2	4	157	1	0	0	0	0	0	0	0	1	11452	639	23	1		1	PAPPA2	1	176659457	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	133804	176659457	72591164	105	85665											
ASTN1	460	broad.mit.edu	37	chr1	177001708	177001708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actccctctgcagatggtggCgcagatcagtgatgtcatac	9	10	11	11	1	3	3	2	1	1	2	4	3	4	3	1	2	2	2	1	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:177001708C>T	uc001glc.2	-	3	961	c.749G>A	c.(748-750)CGC>CAC	p.R250H	ASTN1_uc001glb.1_Missense_Mutation_p.R250H|ASTN1_uc001gld.1_Missense_Mutation_p.R250H|ASTN1_uc009wwx.1_Missense_Mutation_p.R250H|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	250					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CAGATGGTGGCGCAGATCAGT	0.617													29	113					0	0	0.008361	0	0		T	177001708	T	T	177001708	3	4	157	1	0	0	0	0	1	0	0	0	1065	768	27	1	3223	1	ASTN1	1	177001708	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	342251	177001708	72248913	106	85666											
LHX4	89884	broad.mit.edu	37	chr1	180243505	180243505	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctccatatcgtccctgccaTcccacgctcctttgctcaat	6	12	4	19	2	1	0	1	0	0	0	6	0	5	0	6	0	2	2	6	0	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:180243505T>C	uc001goe.1	+	6	1187	c.964T>C	c.(964-966)TCC>CCC	p.S322P	uc001gof.1_Intron	NM_033343	NP_203129	Q969G2	LHX4_HUMAN	LIM homeobox protein 4	322						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GTCCCTGCCATCCCACGCTCC	0.562													84	298					0	0	0.01441	0	0		C	180243505	C	C	180243505	3	2	157	1	0	0	0	0	1	0	0	0	8789	1435	50	3	986	3	LHX4	1	180243505	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3241797	180243505	69007116	107	85667											
MR1	3140	broad.mit.edu	37	chr1	181018395	181018395	+	Missense_Mutation	SNP	A	G	G	1	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	tcagctgctgaggggctggcAgcagatgttcaaggtggaac	9	8	16	8	0	2	2	2	1	0	1	2	3	2	3	0	5	4	6	0	5	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:181018395A>G	uc001goq.1	+	2	280	c.275A>G	c.(274-276)CAG>CGG	p.Q92R	MR1_uc001gop.2_Missense_Mutation_p.Q92R|MR1_uc001gor.1_Missense_Mutation_p.Q92R|MR1_uc001gos.1_Missense_Mutation_p.Q92R|MR1_uc010pns.1_Missense_Mutation_p.Q92R	NM_001531	NP_001522	Q95460	HMR1_HUMAN	major histocompatibility complex, class	92	Extracellular (Potential).|Ligand-binding.|Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|immune response	endoplasmic reticulum|extracellular region|integral to membrane|MHC class I protein complex	MHC class I receptor activity			skin(1)	1						AGGGGCTGGCAGCAGATGTTC	0.607													11	32					0	0	0.013537	0	0		G	181018395	G	G	181018395	3	3	157	1	0	0	0	0	1	0	0	0	9770	188	7	3	281	3	MR1	1	181018395	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	774890	181018395	68232226	108	85668											
RNASEL	6041	broad.mit.edu	37	chr1	182555837	182555837	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaccaggtcaacatcttcGttttgaacagctttaatcag	11	13	8	9	1	3	1	2	1	1	0	4	2	3	2	1	2	3	2	1	2	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:182555837G>A	uc001gpj.1	-	1	272	c.105C>T	c.(103-105)AAC>AAT	p.N35N	RNASEL_uc009wxz.1_Silent_p.N35N|RNASEL_uc001gpk.2_Silent_p.N35N|RNASEL_uc009wya.1_Silent_p.N35N	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	35	ANK 1.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						CAACATCTTCGTTTTGAACAG	0.512									Hereditary_Prostate_Cancer				48	144					0	0	0.013114	0	0		A	182555837	A	A	182555837	2	1	157	1	0	0	0	0	0	0	0	1	13441	1136	40	1		1	RNASEL	1	182555837	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1537442	182555837	66694784	109	85669											
GLT25D2	23127	broad.mit.edu	37	chr1	183920195	183920195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcctgttcatacagtgtgCgcagcatccggtcccgcctg	5	11	10	15	3	2	0	1	0	1	0	5	0	4	0	4	1	3	3	4	1	1	2	rs150214481		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:183920195C>T	uc001gqr.2	-	8	1454	c.1082G>A	c.(1081-1083)CGC>CAC	p.R361H	GLT25D2_uc010poj.1_Missense_Mutation_p.R361H|GLT25D2_uc001gqq.2_Missense_Mutation_p.R98H|GLT25D2_uc001gqs.2_Missense_Mutation_p.R241H	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	361					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						ATACAGTGTGCGCAGCATCCG	0.448													59	209					0	0	0.01441	0	0		T	183920195	T	T	183920195	3	4	157	1	0	0	0	0	1	0	0	0	6482	768	27	1	818	1	GLT25D2	1	183920195	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1364358	183920195	65330426	110	85670											
HMCN1	83872	broad.mit.edu	37	chr1	185962394	185962394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gatgtatctttgtgttgccaCaaatattgctgggaatgtga	10	15	11	5	0	1	1	0	1	1	0	1	3	1	2	1	1	2	3	1	1	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:185962394C>T	uc001grq.1	+	23	3687	c.3458C>T	c.(3457-3459)ACA>ATA	p.T1153I	HMCN1_uc001grr.1_Missense_Mutation_p.T494I	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1153	Ig-like C2-type 8.			T -> I (in Ref. 2; BAB71216).	response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGTGTTGCCACAAATATTGCT	0.413													33	109					0	0	0.010818	0	0		T	185962394	T	T	185962394	3	4	157	1	0	0	0	0	1	0	0	0	7236	478	17	4	3548	4	HMCN1	1	185962394	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2042199	185962394	63288227	111	85671											
HMCN1	83872	broad.mit.edu	37	chr1	186114613	186114613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcagatgcggcggtaccGcacatgtgataaccctcctc	9	7	12	13	3	0	2	0	1	0	1	2	2	1	2	3	3	3	3	3	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:186114613G>A	uc001grq.1	+	92	14574	c.14345G>A	c.(14344-14346)CGC>CAC	p.R4782H	HMCN1_uc001grs.1_Missense_Mutation_p.R351H	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4782	TSP type-1 5.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CGGCGGTACCGCACATGTGAT	0.572													22	76					0	0	0.012319	0	0		A	186114613	A	A	186114613	3	1	157	1	0	0	0	0	1	0	0	0	7236	1087	38	1	14711	1	HMCN1	1	186114613	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	152219	186114613	63136008	112	85672											
FAM5C	339479	broad.mit.edu	37	chr1	190067293	190067293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagagaaaagatctagacgaCgctgaccaggtggggagagt	15	5	15	6	2	1	5	0	1	1	4	1	8	1	5	1	3	0	1	1	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:190067293C>T	uc001gse.1	-	8	2388	c.2156G>A	c.(2155-2157)CGT>CAT	p.R719H	FAM5C_uc010pot.1_Missense_Mutation_p.R617H	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	719						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					ATCTAGACGACGCTGACCAGG	0.483													43	156					0	0	0.013114	0	0		T	190067293	T	T	190067293	3	4	157	1	0	0	0	0	1	0	0	0	5608	536	19	1	148	1	FAM5C	1	190067293	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3952680	190067293	59183328	113	85673											
CDC73	79577	broad.mit.edu	37	chr1	193205392	193205392	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttttctacttgtagggaccgCgttgtagccgtttttgtgca	5	17	11	8	3	1	0	0	0	1	0	1	1	1	1	2	1	3	5	2	1	3	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:193205392C>T	uc001gtb.2	+	15	1566	c.1323C>T	c.(1321-1323)CGC>CGT	p.R441R		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	441					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						GTAGGGACCGCGTTGTAGCCG	0.463									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				52	183					0	0	0.01441	0	0		T	193205392	T	T	193205392	2	4	157	1	0	0	0	0	0	0	0	1	3088	755	27	1		1	CDC73	1	193205392	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3138099	193205392	56045229	114	85674											
CFH	3075	broad.mit.edu	37	chr1	196706662	196706662	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaaccattaattcatccaGgtcttcacaagaaagttatg	14	11	7	9	1	3	1	2	0	1	1	4	2	4	2	2	2	1	1	2	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:196706662G>T	uc001gtj.3	+	17	2894	c.2654G>T	c.(2653-2655)AGG>ATG	p.R885M		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	885	Sushi 15.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						AATTCATCCAGGTCTTCACAA	0.343													24	53					6.32553e-13	6.83141e-13	0.004656	1	0		T	196706662	T	T	196706662	3	4	157	1	0	0	0	0	1	0	0	0	3286	1000	35	5	2738	5	CFH	1	196706662	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3501270	196706662	52543959	115	85675											
ZNF281	23528	broad.mit.edu	37	chr1	200377909	200377909	+	Missense_Mutation	SNP	T	G	G	0	1	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	cttctctctactatgaatttTctcatgtctctgtagtaggt	7	19	6	9	0	4	1	1	1	4	0	7	1	4	1	0	1	1	2	0	1	5	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:200377909T>G	uc001gve.2	-	2	1032	c.925A>C	c.(925-927)AAA>CAA	p.K309Q	ZNF281_uc001gvf.1_Missense_Mutation_p.K309Q|ZNF281_uc001gvg.1_Missense_Mutation_p.K273Q	NM_012482	NP_036614	Q9Y2X9	ZN281_HUMAN	zinc finger protein 281	309	C2H2-type 2.				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CTATGAATTTTCTCATGTCTC	0.428													92	324					0	0	0.01441	0	0		G	200377909	G	G	200377909	3	3	157	1	0	0	0	0	1	0	0	0	17843	1792	62	5	1766	5	ZNF281	1	200377909	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3671247	200377909	48872712	116	85676											
DDX59	83479	broad.mit.edu	37	chr1	200635401	200635401	+	Silent	SNP	A	G	G	1	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	ttcagtggagactctggctcAgaatcagccttctgtggatt	8	13	11	9	0	5	2	3	0	2	2	5	4	5	3	1	3	1	1	1	3	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:200635401A>G	uc009wzk.2	-	2	711	c.468T>C	c.(466-468)TCT>TCC	p.S156S	DDX59_uc010ppl.1_Silent_p.S156S	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	156						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ACTCTGGCTCAGAATCAGCCT	0.408													40	138					0	0	0.010771	0	0		G	200635401	G	G	200635401	2	3	157	1	0	0	0	0	0	0	0	1	4379	175	7	3		3	DDX59	1	200635401	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	257492	200635401	48615220	117	85677											
LAD1	3898	broad.mit.edu	37	chr1	201356058	201356058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttcccgactcagtctcCggcgaggtgggatttccagt	5	11	13	12	3	2	0	1	0	1	0	5	3	4	1	3	3	0	2	3	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:201356058C>T	uc001gwm.2	-	3	666	c.431G>A	c.(430-432)CGG>CAG	p.R144Q	LAD1_uc009wzu.1_Missense_Mutation_p.R166Q	NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	144						basement membrane	structural molecule activity				0						ACTCAGTCTCCGGCGAGGTGG	0.617													17	136					0	0	0.006122	0	0		T	201356058	T	T	201356058	3	4	157	1	0	0	0	0	1	0	0	0	8615	652	23	1	1154	1	LAD1	1	201356058	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	720657	201356058	47894563	118	85678											
KDM5B	10765	broad.mit.edu	37	chr1	202722105	202722105	+	Silent	SNP	C	T	T	0	0	0	1	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	tggaggagatccggctgggaCacaaagagttctggagctag	11	7	16	7	1	1	2	0	0	1	2	2	6	2	5	1	5	1	3	1	5	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:202722105C>T	uc001gyf.2	-	12	1745	c.1629G>A	c.(1627-1629)GTG>GTA	p.V543V	KDM5B_uc009xag.2_Silent_p.V579V|KDM5B_uc001gyg.1_Silent_p.V385V	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	543	JmjC.				negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CCGGCTGGGACACAAAGAGTT	0.493													20	83					0	0	0.014323	0	0		T	202722105	T	T	202722105	2	4	157	1	0	0	0	0	0	0	0	1	8150	465	17	4		4	KDM5B	1	202722105	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1366047	202722105	46528516	119	85679											
MDM4	4194	broad.mit.edu	37	chr1	204518448	204518448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaccatttcggctcctgtcGttagacctaaagatgcgtat	10	12	9	10	3	0	2	0	0	0	2	3	3	1	2	3	1	2	3	3	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:204518448G>A	uc001hba.2	+	11	1273	c.1111G>A	c.(1111-1113)GTT>ATT	p.V371I	MDM4_uc001hbd.1_RNA|MDM4_uc010pqw.1_RNA|MDM4_uc010pqx.1_Missense_Mutation_p.V244I|MDM4_uc001hay.1_Missense_Mutation_p.V321I|MDM4_uc001hbb.2_Missense_Mutation_p.V244I|MDM4_uc010pqy.1_Intron|MDM4_uc001hbc.2_RNA|MDM4_uc009xbe.1_RNA	NM_002393	NP_002384	O15151	MDM4_HUMAN	mouse double minute 4 homolog	371					apoptosis|cell proliferation|cellular response to hypoxia|G0 to G1 transition|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of protein catabolic process|negative regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization	nucleus	enzyme binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(21;0.00146)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.112)|all_epithelial(62;0.118)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;3.15e-47)|all cancers(3;3.56e-32)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|Epithelial(59;0.143)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GGCTCCTGTCGTTAGACCTAA	0.418			A		GBM|bladder|retinoblastoma								63	182					0	0	0.01441	0	0		A	204518448	A	A	204518448	3	1	157	1	0	0	0	0	1	0	0	0	9432	1145	40	1	1149	1	MDM4	1	204518448	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1796343	204518448	44732173	120	85680											
CNTN2	6900	broad.mit.edu	37	chr1	205031109	205031109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgcgctggctgcggaacGgggagcctctggcctcccag	5	6	16	14	3	1	0	0	0	1	0	2	2	2	2	3	5	4	2	3	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:205031109G>A	uc001hbr.2	+	9	1359	c.1090G>A	c.(1090-1092)GGG>AGG	p.G364R	CNTN2_uc001hbq.1_Missense_Mutation_p.G255R|CNTN2_uc009xbi.2_Missense_Mutation_p.G255R|CNTN2_uc001hbs.2_Missense_Mutation_p.G152R	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	364	Ig-like C2-type 4.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	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)			GCTGCGGAACGGGGAGCCTCT	0.642											OREG0014144	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	11					0	0	0.00245	0	0		A	205031109	A	A	205031109	3	1	157	1	0	0	0	0	1	0	0	0	3644	1116	39	1	1120	1	CNTN2	1	205031109	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	512661	205031109	44219512	121	85681											
TMEM81	388730	broad.mit.edu	37	chr1	205053001	205053001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagagtcatactcctgagCatatttaaacttcacaaagt	14	11	5	11	0	2	2	2	1	0	1	3	2	3	2	2	0	3	1	2	0	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:205053001C>T	uc001hbt.2	-	1	588	c.448G>A	c.(448-450)GCT>ACT	p.A150T		NM_203376	NP_976310	Q6P7N7	TMM81_HUMAN	transmembrane protein 81 precursor	150	Ig-like.|Extracellular (Potential).					integral to membrane					0	all_cancers(21;0.144)|Breast(84;0.0437)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			TACTCCTGAGCATATTTAAAC	0.478													10	153					0	0	0.008291	0	0		T	205053001	T	T	205053001	3	4	157	1	0	0	0	0	1	0	0	0	16230	710	25	2	323	2	TMEM81	1	205053001	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	21892	205053001	44197620	122	85682											
PIGR	5284	broad.mit.edu	37	chr1	207111045	207111045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggcagttgatggtcaccGttctgcccaggtccactgtg	7	10	13	11	1	2	1	1	1	1	0	3	1	3	1	3	3	1	3	3	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:207111045G>A	uc001hez.2	-	4	624	c.440C>T	c.(439-441)ACG>ATG	p.T147M	PIGR_uc009xbz.2_Missense_Mutation_p.T147M	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	147	Ig-like V-type 2.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GATGGTCACCGTTCTGCCCAG	0.522													11	31					0	0	0.013537	0	0		A	207111045	A	A	207111045	3	1	157	1	0	0	0	0	1	0	0	0	11916	1145	40	1	1886	1	PIGR	1	207111045	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2058044	207111045	42139576	123	85683											
CR1	1378	broad.mit.edu	37	chr1	207787831	207787831	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcagtgttccagtgtgtGaacgtgagtagaaagaacta	14	10	12	5	1	0	4	0	2	0	2	1	4	1	4	1	0	3	3	1	0	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:207787831G>T	uc001hfy.2	+	32	5448	c.5308G>T	c.(5308-5310)GAA>TAA	p.E1770*	CR1_uc001hfx.2_Nonsense_Mutation_p.E2220*	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1770	Extracellular (Potential).|Sushi 27.				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TCCAGTGTGTGAACGTGAGTA	0.408													8	101					0.00448238	0.0045525	0.004482	1	0		T	207787831	T	T	207787831	4	4	157	1	0	0	0	0	0	1	0	0	3843	1291	45	5	6816	5	CR1	1	207787831	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	676786	207787831	41462790	124	85684											
LAMB3	3914	broad.mit.edu	37	chr1	209803987	209803987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcatgggcgtcctggccctCcgccggtctccagggccggt	2	9	14	16	4	2	0	1	0	1	0	5	0	4	0	6	5	0	0	6	5	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:209803987C>T	uc001hhg.2	-	8	1306	c.916G>A	c.(916-918)GAG>AAG	p.E306K	LAMB3_uc009xco.2_Missense_Mutation_p.E306K|LAMB3_uc001hhh.2_Missense_Mutation_p.E306K|LAMB3_uc010psl.1_RNA|LAMB3_uc009xcp.1_Missense_Mutation_p.E242K	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	306	Laminin EGF-like 1.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		TCCTGGCCCTCCGCCGGTCTC	0.612													23	38					0	0	0.00278	0	0		T	209803987	T	T	209803987	3	4	157	1	0	0	0	0	1	0	0	0	8628	864	30	4	2662	4	LAMB3	1	209803987	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2016156	209803987	39446634	125	85685											
HHAT	55733	broad.mit.edu	37	chr1	210637863	210637863	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tttcaggaggactggcgttaGcccaggtgctctttttctac	6	14	11	10	1	3	0	1	0	2	0	3	2	3	2	1	4	3	2	1	4	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:210637863G>A	uc009xcx.2	+	8	1037	c.871G>A	c.(871-873)GCC>ACC	p.A291T	HHAT_uc010psq.1_Missense_Mutation_p.A154T|HHAT_uc001hhz.3_Missense_Mutation_p.A291T|HHAT_uc010psr.1_Missense_Mutation_p.A292T|HHAT_uc010pss.1_Missense_Mutation_p.A246T|HHAT_uc009xcy.2_Missense_Mutation_p.A226T|HHAT_uc010pst.1_Missense_Mutation_p.A228T|HHAT_uc010psu.1_Missense_Mutation_p.A226T|HHAT_uc001hia.3_5'UTR	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	291	Helical; (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		ACTGGCGTTAGCCCAGGTGCT	0.567													79	289					0	0	0.01441	0	0		A	210637863	A	A	210637863	3	1	157	1	0	0	0	0	1	0	0	0	7105	971	34	2	995	2	HHAT	1	210637863	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	833876	210637863	38612758	126	85686											
RCOR3	55758	broad.mit.edu	37	chr1	211444604	211444604	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtacacagataaagacaatgGagggatgcttgtatggtctc	13	10	12	6	0	1	2	0	0	1	2	2	4	1	4	0	3	2	3	0	3	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:211444604G>T	uc001hig.2	+	2	249	c.80G>T	c.(79-81)GGA>GTA	p.G27V	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Missense_Mutation_p.G85V|RCOR3_uc010psw.1_Missense_Mutation_p.G85V|RCOR3_uc001hif.2_Missense_Mutation_p.G85V	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	27	ELM2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		AAAGACAATGGAGGGATGCTT	0.353													18	140					8.34094e-07	8.79419e-07	0.008871	1	0		T	211444604	T	T	211444604	3	4	157	1	0	0	0	0	1	0	0	0	13209	1174	41	5	264	5	RCOR3	1	211444604	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	806741	211444604	37806017	127	85687											
RPS6KC1	26750	broad.mit.edu	37	chr1	213445950	213445950	+	Silent	SNP	T	C	C	0	1	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	tctcatccattttttaccccTgtggattgggcagaactgat	8	15	8	10	0	1	2	1	1	1	1	3	3	2	3	3	2	2	1	3	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:213445950T>C	uc010ptr.1	+	15	3333	c.3174T>C	c.(3172-3174)CCT>CCC	p.P1058P	RPS6KC1_uc001hkd.2_Silent_p.P1046P|RPS6KC1_uc010pts.1_Silent_p.P846P|RPS6KC1_uc010ptt.1_Silent_p.P846P|RPS6KC1_uc010ptu.1_Silent_p.P877P|RPS6KC1_uc010ptv.1_Silent_p.P593P|RPS6KC1_uc001hke.2_Silent_p.P877P	NM_012424	NP_036556	Q96S38	KS6C1_HUMAN	ribosomal protein S6 kinase, 52kDa, polypeptide	1058					cell communication|signal transduction	early endosome|membrane	ATP binding|phosphatidylinositol binding|protein binding|protein serine/threonine kinase activity			lung(4)|ovary(3)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(81;0.00705)|all cancers(67;0.016)|GBM - Glioblastoma multiforme(131;0.0663)|Epithelial(68;0.145)		TTTTTACCCCTGTGGATTGGG	0.458													25	90					0	0	0.008361	0	0		C	213445950	C	C	213445950	2	2	157	1	0	0	0	0	0	0	0	1	13683	1567	55	3		3	RPS6KC1	1	213445950	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2001346	213445950	35804671	128	85688											
PTPN14	5784	broad.mit.edu	37	chr1	214638039	214638039	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgtgctttccaccgacagCgtgcactcgataacattgct	8	11	8	14	3	0	0	0	0	0	0	2	2	1	0	3	0	5	3	3	0	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:214638039C>T	uc001hkk.1	-	2	379	c.108G>A	c.(106-108)ACG>ACA	p.T36T	PTPN14_uc010pty.1_Intron	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	36	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CCACCGACAGCGTGCACTCGA	0.597													8	76					0	0	0.00308	0	0		T	214638039	T	T	214638039	2	4	157	1	0	0	0	0	0	0	0	1	12806	755	27	1		1	PTPN14	1	214638039	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1192089	214638039	34612582	129	85689											
ESRRG	2104	broad.mit.edu	37	chr1	216850489	216850489	+	Missense_Mutation	SNP	A	G	G	1	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	catagtggtacccagaagcgAtgtcaccacacactaaacac	15	6	7	13	1	1	1	1	0	0	1	1	2	1	1	2	1	3	1	2	1	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:216850489A>G	uc001hkw.1	-	2	567	c.401T>C	c.(400-402)ATC>ACC	p.I134T	ESRRG_uc001hky.1_Missense_Mutation_p.I111T|ESRRG_uc009xdp.1_Missense_Mutation_p.I111T|ESRRG_uc001hkz.1_Missense_Mutation_p.I111T|ESRRG_uc010puc.1_Missense_Mutation_p.I111T|ESRRG_uc001hla.1_Missense_Mutation_p.I111T|ESRRG_uc001hlb.1_Missense_Mutation_p.I111T|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Missense_Mutation_p.I111T|ESRRG_uc001hld.1_Missense_Mutation_p.I111T|ESRRG_uc001hkx.1_Missense_Mutation_p.I139T|ESRRG_uc009xdo.1_Missense_Mutation_p.I111T|ESRRG_uc001hle.1_Missense_Mutation_p.I111T	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	134	Nuclear receptor.|NR C4-type.				positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CCCAGAAGCGATGTCACCACA	0.488													49	161					0	0	0.01441	0	0		G	216850489	G	G	216850489	3	3	157	1	0	0	0	0	1	0	0	0	5270	333	12	3	999	3	ESRRG	1	216850489	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2212450	216850489	32400132	130	85690											
DISP1	84976	broad.mit.edu	37	chr1	223176686	223176686	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaattacgttttgatggtCacatggcttccagcagttgt	8	15	11	7	1	1	2	1	2	0	0	2	2	2	2	1	2	2	4	1	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:223176686C>T	uc001hnu.1	+	8	2094	c.1947C>T	c.(1945-1947)GTC>GTT	p.V649V		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	649	Helical; (Potential).|SSD.				diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TTTTGATGGTCACATGGCTTC	0.413													40	196					0	0	0.010771	0	0		T	223176686	T	T	223176686	2	4	157	1	0	0	0	0	0	0	0	1	4545	813	29	4		4	DISP1	1	223176686	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6326197	223176686	26073935	131	85691											
DISP1	84976	broad.mit.edu	37	chr1	223178672	223178672	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tttgtccagatccaaaacggCgtggcacctctgaaggccac	10	8	10	13	2	1	2	0	1	1	1	3	2	3	2	4	3	1	1	4	3	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:223178672C>T	uc001hnu.1	+	8	4080	c.3933C>T	c.(3931-3933)GGC>GGT	p.G1311G		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1311					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		TCCAAAACGGCGTGGCACCTC	0.577													29	116					0	0	0.009535	0	0		T	223178672	T	T	223178672	2	4	157	1	0	0	0	0	0	0	0	1	4545	755	27	1		1	DISP1	1	223178672	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1986	223178672	26071949	132	85692											
SUSD4	55061	broad.mit.edu	37	chr1	223465929	223465929	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcaaagaaaacccctccGctgggggtcctgaagccatt	10	8	9	14	1	1	2	1	1	0	1	3	2	3	2	6	2	2	1	6	2	4	2	rs148470082		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:223465929G>A	uc001hnx.2	-	2	847	c.213C>T	c.(211-213)AGC>AGT	p.S71S	SUSD4_uc001hny.3_Silent_p.S71S|SUSD4_uc010puw.1_5'UTR|SUSD4_uc001hnz.2_Silent_p.S71S|SUSD4_uc010pux.1_Intron	NM_017982	NP_060452	Q5VX71	SUSD4_HUMAN	sushi domain containing 4 isoform a	71	Sushi 1.|Extracellular (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)		AAACCCCTCCGCTGGGGGTCC	0.498													25	93					0	0	0.005443	0	0		A	223465929	A	A	223465929	2	1	157	1	0	0	0	0	0	0	0	1	15435	1078	38	1		1	SUSD4	1	223465929	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	287257	223465929	25784692	133	85693											
CABC1	56997	broad.mit.edu	37	chr1	227171262	227171262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacccccacagtaccctggcGtggcccagagcatcaacagt	10	6	9	16	1	1	1	1	0	0	1	1	1	1	1	4	2	4	2	4	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:227171262G>A	uc001hqm.1	+	14	4509	c.1090G>A	c.(1090-1092)GTG>ATG	p.V364M	CABC1_uc001hqn.1_Missense_Mutation_p.V364M|CABC1_uc009xeq.1_Missense_Mutation_p.V312M|CABC1_uc010pvq.1_Missense_Mutation_p.V85M|CABC1_uc010pvr.1_Missense_Mutation_p.V38M|CABC1_uc001hqo.1_Missense_Mutation_p.V85M|CABC1_uc009xer.1_Translation_Start_Site	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	364	Protein kinase.				cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				GTACCCTGGCGTGGCCCAGAG	0.612													22	73					0	0	0.004656	0	0		A	227171262	A	A	227171262	3	1	157	1	0	0	0	0	1	0	0	0	2530	1145	40	1	1120	1	CABC1	1	227171262	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3705333	227171262	22079359	134	85694											
OBSCN	84033	broad.mit.edu	37	chr1	228466971	228466971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacctccatcccctcagtgCggccacctaagtggctcctg	7	8	9	17	1	1	1	1	0	0	1	4	1	4	1	7	2	1	1	7	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:228466971C>T	uc009xez.1	+	27	7266	c.7222C>T	c.(7222-7224)CGG>TGG	p.R2408W	OBSCN_uc001hsn.2_Missense_Mutation_p.R2408W|OBSCN_uc001hsp.1_Missense_Mutation_p.R107W|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2408					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCCCTCAGTGCGGCCACCTAA	0.642													9	40					0	0	0.004482	0	0		T	228466971	T	T	228466971	3	4	157	1	0	0	0	0	1	0	0	0	10831	759	27	1	7324	1	OBSCN	1	228466971	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1295709	228466971	20783650	135	85695											
OBSCN	84033	broad.mit.edu	37	chr1	228495060	228495060	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatgcagagtcgggggcCgtggtgcaatggctcaagga	9	7	18	7	2	1	2	1	1	0	1	2	3	1	3	1	5	2	3	1	5	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:228495060C>T	uc009xez.1	+	46	12338	c.12294C>T	c.(12292-12294)GCC>GCT	p.A4098A	OBSCN_uc001hsn.2_Silent_p.A4098A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4098	Ig-like 42.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGTCGGGGGCCGTGGTGCAAT	0.647													13	20					0	0	0.001855	0	0		T	228495060	T	T	228495060	2	4	157	1	0	0	0	0	0	0	0	1	10831	639	23	1		1	OBSCN	1	228495060	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	28089	228495060	20755561	136	85696											
ACTA1	58	broad.mit.edu	37	chr1	229568041	229568041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcacgaaggagtagccacGctcagtgaggatcttcatca	11	8	12	10	2	5	1	4	1	1	0	5	4	5	3	1	3	1	2	1	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:229568041G>A	uc001htm.2	-	4	697	c.592C>T	c.(592-594)CGT>TGT	p.R198C		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	198			R -> L (in NEM3).		muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	GAGTAGCCACGCTCAGTGAGG	0.483													5	22					0	0	0.004482	0	0		A	229568041	A	A	229568041	3	1	157	1	0	0	0	0	1	0	0	0	191	1087	38	1	557	1	ACTA1	1	229568041	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1072981	229568041	19682580	137	85697											
URB2	9816	broad.mit.edu	37	chr1	229772467	229772467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatccaaagtttgaggtgcGatgctgcctttattattggt	8	15	10	8	1	0	1	0	1	0	0	1	2	1	1	3	2	3	2	3	2	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:229772467G>A	uc001hts.1	+	4	2243	c.2107G>A	c.(2107-2109)GAT>AAT	p.D703N	URB2_uc009xfd.1_Missense_Mutation_p.D703N	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	703						nucleolus				central_nervous_system(2)|ovary(1)	3						TTTGAGGTGCGATGCTGCCTT	0.463													37	258					0	0	0.00623	0	0		A	229772467	A	A	229772467	3	1	157	1	0	0	0	0	1	0	0	0	17051	1058	37	1	2117	1	URB2	1	229772467	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	204426	229772467	19478154	138	85698											
AGT	183	broad.mit.edu	37	chr1	230841785	230841785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggatcagcagcaggcaggCgctctcagtgaagggcactt	9	7	14	11	1	2	1	2	1	1	0	3	2	2	2	0	4	2	5	0	4	1	1	rs143215026		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:230841785C>T	uc001hty.3	-	3	1526	c.1018G>A	c.(1018-1020)GCC>ACC	p.A340T	AGT_uc009xfe.2_Missense_Mutation_p.A340T|AGT_uc009xff.2_Missense_Mutation_p.A312T	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	340					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	AGCAGGCAGGCGCTCTCAGTG	0.547													11	106					0	0	0.008291	0	0		T	230841785	T	T	230841785	3	4	157	1	0	0	0	0	1	0	0	0	399	768	27	1	451	1	AGT	1	230841785	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1069318	230841785	18408836	139	85699											
SIPA1L2	57568	broad.mit.edu	37	chr1	232649957	232649957	+	Missense_Mutation	SNP	A	G	G	1	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	gctccctaaaggggactcacAgttgcctgtctggcccgtag	7	9	12	13	1	2	0	1	0	1	0	3	1	3	1	3	3	1	3	3	3	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:232649957A>G	uc001hvg.2	-	1	1287	c.1129T>C	c.(1129-1131)TGT>CGT	p.C377R		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	377					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GGGGACTCACAGTTGCCTGTC	0.537													17	192					0	0	0.00499	0	0		G	232649957	G	G	232649957	3	3	157	1	0	0	0	0	1	0	0	0	14355	188	7	3	4123	3	SIPA1L2	1	232649957	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1808172	232649957	16600664	140	85700											
RYR2	6262	broad.mit.edu	37	chr1	237777646	237777646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgaagagcatcaccctgttcCctgatgagaacaaaaaacac	16	6	7	12	1	1	3	1	2	0	2	2	5	2	3	2	0	3	2	2	0	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:237777646C>T	uc001hyl.1	+	37	5338	c.5218C>T	c.(5218-5220)CCT>TCT	p.P1740S		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1740	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CACCCTGTTCCCTGATGAGAA	0.527													12	46					0	0	0.010729	0	0		T	237777646	T	T	237777646	3	4	157	1	0	0	0	0	1	0	0	0	13794	623	22	4	5364	4	RYR2	1	237777646	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5127689	237777646	11472975	141	85701											
ZNF238	10472	broad.mit.edu	37	chr1	244218598	244218598	+	Missense_Mutation	SNP	A	G	G	1	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	tggtgaactccttgtcggtcAaaagcgaagcactgagcttg	10	10	12	9	2	1	2	1	2	0	0	3	3	2	2	1	2	4	2	1	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:244218598A>G	uc001iae.2	+	1	2017	c.1495A>G	c.(1495-1497)AAA>GAA	p.K499E	ZNF238_uc001iad.3_Missense_Mutation_p.K508E|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	499					negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CTTGTCGGTCAAAAGCGAAGC	0.453													41	139					0	0	0.01441	0	0		G	244218598	G	G	244218598	3	3	157	1	0	0	0	0	1	0	0	0	17815	131	5	3	1528	3	ZNF238	1	244218598	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6440952	244218598	5032023	142	85702											
OR2B11	127623	broad.mit.edu	37	chr1	247614857	247614857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacgagctgctgacagagaGcacggtgcatgagaacggca	12	4	14	11	3	0	3	0	2	0	2	0	6	0	3	1	2	5	5	1	2	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:247614857G>A	uc010pyx.1	-	1	428	c.428C>T	c.(427-429)GCT>GTT	p.A143V		NM_001004492	NP_001004492	Q5JQS5	OR2BB_HUMAN	olfactory receptor, family 2, subfamily B,	143	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			upper_aerodigestive_tract(1)	1	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)			CTGACAGAGAGCACGGTGCAT	0.642													10	85					0	0	0.013537	0	0		A	247614857	A	A	247614857	3	1	157	1	0	0	0	0	1	0	0	0	11007	971	34	2	528	2	OR2B11	1	247614857	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3396259	247614857	1635764	143	85703											
OR2W5	441932	broad.mit.edu	37	chr1	247654874	247654874	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgcagctggtgactgtggccTggtgctgtggcttcctaaac	5	12	14	10	0	0	1	0	1	0	0	1	1	1	1	2	4	4	4	2	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr1:247654874T>C	uc001icz.1	+	1	445	c.445T>C	c.(445-447)TGG>CGG	p.W149R		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GACTGTGGCCTGGTGCTGTGG	0.597													17	60					0	0	0.004656	0	0		C	247654874	C	C	247654874	3	2	157	1	0	0	0	0	1	0	0	0	11053	1580	55	3	447	3	OR2W5	1	247654874	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	40017	247654874	1595747	144	85704											
TSSC1	7260	broad.mit.edu	37	chr2	3261132	3261132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctccagggtctgtgcagtGctggatgaatcatcagggga	9	9	15	8	0	3	1	2	1	1	0	4	3	4	3	1	4	3	3	1	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:3261132G>A	uc002qxj.2	-	4	547	c.354C>T	c.(352-354)AGC>AGT	p.S118S	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	118							protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		TCTGTGCAGTGCTGGATGAAT	0.547													16	59					0	0	0.00499	0	0		A	3261132	A	A	3261132	2	1	157	1	0	0	0	0	0	0	0	1	16692	1310	46	2		2	TSSC1	2	3261132	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08		3261132	239938241	145	85705											
ASAP2	8853	broad.mit.edu	37	chr2	9491025	9491025	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctttgacctcatttcacGtaaggctccctctgagatgc	7	13	9	12	1	3	2	2	2	1	1	4	3	4	2	2	1	2	3	2	1	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:9491025G>A	uc002qzh.2	+	12	1451	c.1111_splice	c.e12+1	p.H371_splice	ASAP2_uc002qzi.2_Splice_Site_p.H371_splice	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH						regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						CTCATTTCACGTAAGGCTCCC	0.507													11	32					0	0	0.008291	0	0		A	9491025	A	A	9491025	5	1	157	1	0	0	0	0	0	0	1	0	1012	1159	40	1	1158	1	ASAP2	2	9491025	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6229893	9491025	233708348	146	85706											
TAF1B	9014	broad.mit.edu	37	chr2	10045054	10045054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacatttttagatttgcctCgttttccagacataactgaa	12	15	6	8	1	0	3	0	1	0	2	2	4	1	3	2	0	3	1	2	0	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:10045054C>T	uc002qzz.2	+	9	974	c.874C>T	c.(874-876)CGT>TGT	p.R292C	TAF1B_uc010exc.2_Missense_Mutation_p.R292C|TAF1B_uc002qzy.3_Missense_Mutation_p.R292C|TAF1B_uc010yja.1_Missense_Mutation_p.R37C|TAF1B_uc010exd.2_Missense_Mutation_p.R37C	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	292					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					AGATTTGCCTCGTTTTCCAGA	0.378													27	104					0	0	0.003755	0	0		T	10045054	T	T	10045054	3	4	157	1	0	0	0	0	1	0	0	0	15545	884	31	1	908	1	TAF1B	2	10045054	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	554029	10045054	233154319	147	85707											
RAD51AP2	729475	broad.mit.edu	37	chr2	17696566	17696566	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttggtgacttttgcccatAttaggacctgctatagtatc	8	16	8	9	0	0	1	0	1	0	0	1	2	0	2	2	2	2	2	2	2	5	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:17696566A>G	uc002rcl.1	-	1	3141	c.3117T>C	c.(3115-3117)AAT>AAC	p.N1039N	RAD51AP2_uc010exn.1_Silent_p.N1030N	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	1039										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTTTGCCCATATTAGGACCTG	0.368													9	153					0	0	0.004482	0	0		G	17696566	G	G	17696566	2	3	157	1	0	0	0	0	0	0	0	1	13012	446	16	3		3	RAD51AP2	2	17696566	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	7651512	17696566	225502807	148	85708											
MSGN1	343930	broad.mit.edu	37	chr2	17997959	17997959	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgctggaatcctattcttcTtctccctgtccagctgtggc	4	15	8	14	1	3	0	0	0	3	0	7	1	5	1	3	2	1	2	3	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:17997959T>G	uc010yjt.1	+	1	174	c.174T>G	c.(172-174)TCT>TCG	p.S58S		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	58					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CCTATTCTTCTTCTCCCTGTC	0.652													19	76					0	0	0.003954	0	0		G	17997959	G	G	17997959	2	3	157	1	0	0	0	0	0	0	0	1	9887	1596	56	5		5	MSGN1	2	17997959	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	301393	17997959	225201414	149	85709											
NT5C1B	93034	broad.mit.edu	37	chr2	18765855	18765855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtaggcagcctcgtagtcGtcctcgtcctcccgctgctg	4	10	11	16	4	0	0	0	0	0	0	6	0	3	0	4	1	2	5	4	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:18765855G>A	uc002rcz.2	-	5	932	c.828C>T	c.(826-828)GAC>GAT	p.D276D	NT5C1B_uc002rcy.2_Silent_p.D276D|NT5C1B_uc010exr.2_Silent_p.D218D|NT5C1B_uc010yju.1_Silent_p.D216D|NT5C1B_uc002rda.2_Silent_p.D216D|NT5C1B_uc010yjv.1_Silent_p.D293D|NT5C1B_uc010yjw.1_Silent_p.D259D|NT5C1B_uc010exs.2_Silent_p.D278D|NT5C1B_uc002rdb.1_Silent_p.D68D	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	276					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				CCTCGTAGTCGTCCTCGTCCT	0.682													4	6					0	0	0.009096	0	0		A	18765855	A	A	18765855	2	1	157	1	0	0	0	0	0	0	0	1	10705	1136	40	1		1	NT5C1B	2	18765855	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	767896	18765855	224433518	150	85710											
NCOA1	8648	broad.mit.edu	37	chr2	24929854	24929854	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaggcccaggatgccaaaCaattcctttcctcctaatat	13	10	5	13	0	0	0	0	0	0	0	3	1	3	1	5	2	2	0	5	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:24929854C>T	uc002rfk.2	+	11	1773	c.1515C>T	c.(1513-1515)AAC>AAT	p.N505N	NCOA1_uc010eye.2_Silent_p.N505N|NCOA1_uc002rfi.2_Silent_p.N354N|NCOA1_uc002rfj.2_Silent_p.N505N|NCOA1_uc002rfl.2_Silent_p.N505N	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	505	Interaction with STAT3.|Ser-rich.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGATGCCAAACAATTCCTTTC	0.418			T	PAX3	alveolar rhadomyosarcoma								45	154					0	0	0.010771	0	0		T	24929854	T	T	24929854	2	4	157	1	0	0	0	0	0	0	0	1	10247	477	17	4		4	NCOA1	2	24929854	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6163999	24929854	218269519	151	85711											
NCOA1	8648	broad.mit.edu	37	chr2	24974860	24974860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaatttacaggaatggttcCccaaggtgaggccaactttg	11	11	10	9	0	1	1	1	1	0	0	2	2	2	2	3	4	2	1	3	4	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:24974860C>T	uc002rfk.2	+	18	3974	c.3716C>T	c.(3715-3717)CCC>CTC	p.P1239L	NCOA1_uc010eye.2_Missense_Mutation_p.P1239L|NCOA1_uc002rfi.2_Missense_Mutation_p.P1088L|NCOA1_uc002rfj.2_Missense_Mutation_p.P1239L|NCOA1_uc002rfl.2_Missense_Mutation_p.P1239L|NCOA1_uc010eyf.2_Missense_Mutation_p.P132L	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	1239									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAATGGTTCCCCAAGGTGAG	0.418			T	PAX3	alveolar rhadomyosarcoma								22	85					0	0	0.014323	0	0		T	24974860	T	T	24974860	3	4	157	1	0	0	0	0	1	0	0	0	10247	623	22	4	3778	4	NCOA1	2	24974860	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	45006	24974860	218224513	152	85712											
ASXL2	55252	broad.mit.edu	37	chr2	25964955	25964955	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggccgatgcaatcatcatgGcagaaagcgccacagccttt	11	7	11	12	2	2	1	2	0	0	1	2	2	2	1	3	2	3	2	3	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:25964955G>A	uc002rgs.2	-	12	4472	c.4251C>T	c.(4249-4251)TGC>TGT	p.C1417C	ASXL2_uc002rgt.1_Silent_p.C900C	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1417	PHD-type; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AATCATCATGGCAGAAAGCGC	0.517													41	135					0	0	0.00874	0	0		A	25964955	A	A	25964955	2	1	157	1	0	0	0	0	0	0	0	1	1068	1195	42	2		2	ASXL2	2	25964955	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	990095	25964955	217234418	153	85713											
SLC5A6	8884	broad.mit.edu	37	chr2	27423438	27423438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcaggaaacaggccagtgtCgaggtggtcctgcaaacaca	12	6	12	11	1	1	0	1	0	0	0	3	2	2	1	2	4	3	1	2	4	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:27423438C>T	uc002rjd.2	-	17	2165	c.1774G>A	c.(1774-1776)GAC>AAC	p.D592N	SLC5A6_uc010eyv.1_Missense_Mutation_p.D592N	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	592					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	AGGCCAGTGTCGAGGTGGTCC	0.587													11	46					0	0	0.008291	0	0		T	27423438	T	T	27423438	3	4	157	1	0	0	0	0	1	0	0	0	14694	884	31	1	137	1	SLC5A6	2	27423438	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1458483	27423438	215775935	154	85714											
FOSL2	2355	broad.mit.edu	37	chr2	28631709	28631709	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagtgccggaaccgacgccgGgagctgacagagaagctgca	12	3	15	11	4	0	2	0	1	0	1	0	6	0	4	3	2	5	3	3	2	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:28631709G>T	uc002rma.2	+	3	1247	c.438G>T	c.(436-438)CGG>CGT	p.R146R	FOSL2_uc010ymi.1_Silent_p.R107R	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	146	Basic motif.				cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					ACCGACGCCGGGAGCTGACAG	0.642													5	20					0.00116845	0.00119319	0.001168	1	0		T	28631709	T	T	28631709	2	4	157	1	0	0	0	0	0	0	0	1	6002	1219	43	5		5	FOSL2	2	28631709	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1208271	28631709	214567664	155	85715											
BIRC6	57448	broad.mit.edu	37	chr2	32800338	32800338	+	Silent	SNP	T	C	C	0	1	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	cccctttctacagagaacggTgaagaggaagaagaacagtc	15	6	11	9	1	1	5	0	1	1	4	2	7	1	6	2	2	3	0	2	2	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:32800338T>C	uc010ezu.2	+	66	13394	c.13260T>C	c.(13258-13260)GGT>GGC	p.G4420G		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4420					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CAGAGAACGGTGAAGAGGAAG	0.468													32	267					0	0	0.010818	0	0		C	32800338	C	C	32800338	2	2	157	1	0	0	0	0	0	0	0	1	1439	1683	59	3		3	BIRC6	2	32800338	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4168629	32800338	210399035	156	85716											
VIT	5212	broad.mit.edu	37	chr2	37035765	37035765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcggctgacattggcttcGtcatcgacggctccagcagt	7	10	11	13	4	1	1	1	1	0	0	5	2	2	1	1	3	1	4	1	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:37035765G>A	uc002rpl.2	+	15	1761	c.1540G>A	c.(1540-1542)GTC>ATC	p.V514I	VIT_uc002rpm.2_Missense_Mutation_p.V492I|VIT_uc010ezv.2_Missense_Mutation_p.V470I|VIT_uc010ezw.2_Missense_Mutation_p.V471I	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	499	VWFA 2.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				CATTGGCTTCGTCATCGACGG	0.597													4	43					0	0	0.001168	0	0		A	37035765	A	A	37035765	3	1	157	1	0	0	0	0	1	0	0	0	17197	1145	40	1	1719	1	VIT	2	37035765	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4235427	37035765	206163608	157	85717											
STRN	6801	broad.mit.edu	37	chr2	37129804	37129804	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtcatcttccctgtcCgtgacatcacttgaaaagcc	8	15	6	12	1	3	2	2	2	1	0	5	2	5	2	3	0	1	0	3	0	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:37129804C>T	uc002rpn.2	-	5	591	c.582G>A	c.(580-582)ACG>ACA	p.T194T	STRN_uc010ezx.2_Silent_p.T194T	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	194					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CTTCCCTGTCCGTGACATCAC	0.418													46	288					0	0	0.01441	0	0		T	37129804	T	T	37129804	2	4	157	1	0	0	0	0	0	0	0	1	15354	639	23	1		1	STRN	2	37129804	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	94039	37129804	206069569	158	85718											
HEATR5B	54497	broad.mit.edu	37	chr2	37208833	37208833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcattaaattctggagtgCaaactcatgaagatctttgg	13	13	9	6	0	3	2	1	1	2	1	3	3	3	3	0	2	3	2	0	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:37208833C>T	uc002rpp.1	-	36	6112	c.6016G>A	c.(6016-6018)GCA>ACA	p.A2006T	HEATR5B_uc002rpo.1_Missense_Mutation_p.A318T|HEATR5B_uc010ezy.1_Missense_Mutation_p.A501T	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	2006							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				TTCTGGAGTGCAAACTCATGA	0.433													5	142					0	0	0.000602	0	0		T	37208833	T	T	37208833	3	4	157	1	0	0	0	0	1	0	0	0	7048	710	25	2	203	2	HEATR5B	2	37208833	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	79029	37208833	205990540	159	85719											
EIF2AK2	5610	broad.mit.edu	37	chr2	37334430	37334430	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggctctaacatgtgtgtcGttcatttttctctgggcttt	5	18	10	8	1	3	0	1	0	2	0	5	0	3	0	0	2	1	3	0	2	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:37334430G>A	uc010ynh.1	-	17	2199	c.1642C>T	c.(1642-1644)CGA>TGA	p.R548*	EIF2AK2_uc010fab.1_Nonsense_Mutation_p.R507*|EIF2AK2_uc010yng.1_Nonsense_Mutation_p.R505*|EIF2AK2_uc010fac.2_Nonsense_Mutation_p.R548*	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	548					evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				CATGTGTGTCGTTCATTTTTC	0.363													27	101					0	0	0.009535	0	0		A	37334430	A	A	37334430	4	1	157	1	0	0	0	0	0	1	0	0	5003	1153	40	1	17	1	EIF2AK2	2	37334430	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	125597	37334430	205864943	160	85720											
CEBPZ	10153	broad.mit.edu	37	chr2	37454928	37454928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttttttgacacaagtccGaaaaaagcaaaagtaaacag	18	11	6	6	1	0	1	0	1	0	0	1	2	1	1	1	0	2	2	1	0	8	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:37454928G>A	uc002rpz.2	-	2	1438	c.1408C>T	c.(1408-1410)CGG>TGG	p.R470W		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	470					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				ACACAAGTCCGAAAAAAGCAA	0.348													25	113					0	0	0.00278	0	0		A	37454928	A	A	37454928	3	1	157	1	0	0	0	0	1	0	0	0	3207	1057	37	1	1816	1	CEBPZ	2	37454928	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	120498	37454928	205744445	161	85721											
TSPYL6	388951	broad.mit.edu	37	chr2	54483258	54483258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagagcatagtcgagagtagCggggctgtgaggactctccg	9	7	16	9	3	1	3	0	1	1	2	3	5	1	4	1	3	2	3	1	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:54483258C>T	uc002rxr.2	-	1	152	c.31G>A	c.(31-33)GCT>ACT	p.A11T	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	11					nucleosome assembly	nucleus					0						TCGAGAGTAGCGGGGCTGTGA	0.597													7	139					0	0	0.004482	0	0		T	54483258	T	T	54483258	3	4	157	1	0	0	0	0	1	0	0	0	16689	768	27	1	1205	1	TSPYL6	2	54483258	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	17028330	54483258	188716115	162	85722											
SPTBN1	6711	broad.mit.edu	37	chr2	54877104	54877104	+	Missense_Mutation	SNP	A	T	T	1	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	gcacactacatttgagcatgAcatccaggctctgggcacac	11	8	9	13	0	1	2	0	2	1	0	2	2	2	2	1	2	2	4	1	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:54877104A>T	uc002rxu.2	+	26	5804	c.5555A>T	c.(5554-5556)GAC>GTC	p.D1852V	SPTBN1_uc002rxx.2_Missense_Mutation_p.D1839V|SPTBN1_uc002rxy.2_5'Flank	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	1852	Interaction with ANK2.|Spectrin 15.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			TTTGAGCATGACATCCAGGCT	0.517													29	168					0	0	0.013726	0	0		T	54877104	T	T	54877104	3	4	157	1	0	0	0	0	1	0	0	0	15144	275	10	5	5766	5	SPTBN1	2	54877104	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	393846	54877104	188322269	163	85723											
C2orf86	51057	broad.mit.edu	37	chr2	63540407	63540407	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtcacgagcaccaacGtcaacagctaggagaaatgc	16	4	11	10	2	2	2	2	0	0	2	2	4	2	2	1	2	5	2	1	2	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:63540407G>A	uc002sch.2	-	13	2234	c.1788C>T	c.(1786-1788)GAC>GAT	p.D596D	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Silent_p.D437D|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Silent_p.D404D	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	596					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						GAGCACCAACGTCAACAGCTA	0.373													8	44					0	0	0.006214	0	0		A	63540407	A	A	63540407	2	1	157	1	0	0	0	0	0	0	0	1	2204	1136	40	1		1	C2orf86	2	63540407	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8663303	63540407	179658966	164	85724											
MDH1	4190	broad.mit.edu	37	chr2	63824675	63824675	+	Silent	SNP	A	C	C	1	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	atcttcaaatcccagggtgcAgccttagataaatacgccaa	14	9	7	11	1	2	1	1	0	1	1	3	1	3	1	3	1	3	1	3	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:63824675A>C	uc002scj.1	+	4	398	c.342A>C	c.(340-342)GCA>GCC	p.A114A	MDH1_uc010ypv.1_Silent_p.A132A|MDH1_uc010ypw.1_Silent_p.A19A	NM_005917	NP_005908	P40925	MDHC_HUMAN	cytosolic malate dehydrogenase	114					gluconeogenesis|tricarboxylic acid cycle	centrosome|cytosol	L-malate dehydrogenase activity|malic enzyme activity			kidney(2)	2					NADH(DB00157)	CCCAGGGTGCAGCCTTAGATA	0.388													10	76					0	0	0.010729	0	0		C	63824675	C	C	63824675	2	2	157	1	0	0	0	0	0	0	0	1	9426	175	7	5		5	MDH1	2	63824675	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	284268	63824675	179374698	165	85725											
ARHGAP25	9938	broad.mit.edu	37	chr2	69045039	69045039	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacagctgaactgtgctgttAacaagatgagtgtggacaac	13	10	11	7	0	0	3	0	2	0	1	0	4	0	4	0	1	6	3	0	1	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:69045039A>G	uc002seu.2	+	8	1277	c.913A>G	c.(913-915)AAC>GAC	p.N305D	ARHGAP25_uc010fdg.2_Missense_Mutation_p.N306D|ARHGAP25_uc010yql.1_Missense_Mutation_p.N266D|ARHGAP25_uc002sev.2_Missense_Mutation_p.N299D|ARHGAP25_uc002sew.2_Missense_Mutation_p.N298D|ARHGAP25_uc002sex.2_Missense_Mutation_p.N299D|ARHGAP25_uc010fdh.1_RNA|ARHGAP25_uc002sey.2_Missense_Mutation_p.N32D	NM_001007231	NP_001007232	P42331	RHG25_HUMAN	Rho GTPase activating protein 25 isoform a	305	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|breast(2)	4						CTGTGCTGTTAACAAGATGAG	0.493													5	72					0	0	0.000602	0	0		G	69045039	G	G	69045039	3	3	157	1	0	0	0	0	1	0	0	0	874	362	13	3	986	3	ARHGAP25	2	69045039	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	5220364	69045039	174154334	166	85726											
CYP26B1	56603	broad.mit.edu	37	chr2	72362528	72362528	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taactctccagggcctcgtgGctgaagatcttggagaagac	10	9	12	10	1	2	4	0	1	2	3	4	5	2	4	2	3	1	1	2	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:72362528G>A	uc002sih.1	-	3	450	c.450C>T	c.(448-450)AGC>AGT	p.S150S	CYP26B1_uc010yra.1_Silent_p.S133S|CYP26B1_uc010yrb.1_Silent_p.S75S	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	150					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						GGGCCTCGTGGCTGAAGATCT	0.617													25	126					0	0	0.003954	0	0		A	72362528	A	A	72362528	2	1	157	1	0	0	0	0	0	0	0	1	4159	1194	42	2		2	CYP26B1	2	72362528	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3317489	72362528	170836845	167	85727											
EGR4	1961	broad.mit.edu	37	chr2	73518651	73518651	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgagccgctcctcggcgcgCgccttctgcttgaggtgcac	3	10	13	15	5	1	2	0	2	1	0	3	2	2	2	3	2	3	3	3	2	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:73518651C>T	uc010yrj.1	-	2	1779	c.1704G>A	c.(1702-1704)GCG>GCA	p.A568A	EGR4_uc010yrk.1_Silent_p.A567A	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	464						intracellular	nucleic acid binding|zinc ion binding				0						CCTCGGCGCGCGCCTTCTGCT	0.642													8	15					0	0	0.00308	0	0		T	73518651	T	T	73518651	2	4	157	1	0	0	0	0	0	0	0	1	4980	755	27	1		1	EGR4	2	73518651	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1156123	73518651	169680722	168	85728											
C2orf78	388960	broad.mit.edu	37	chr2	74043913	74043913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacttcagcctccaacccCgtccatggaggaaacccact	12	6	7	16	1	1	1	1	0	0	1	3	3	3	3	6	2	3	0	6	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:74043913C>T	uc002sjr.1	+	3	2684	c.2563C>T	c.(2563-2565)CGT>TGT	p.R855C		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	855										ovary(2)	2						CCTCCAACCCCGTCCATGGAG	0.537													15	85					0	0	0.00499	0	0		T	74043913	T	T	74043913	3	4	157	1	0	0	0	0	1	0	0	0	2198	652	23	1	2573	1	C2orf78	2	74043913	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	525262	74043913	169155460	169	85729											
CTNNA2	1496	broad.mit.edu	37	chr2	80136908	80136908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgctccaggacctgctcagCgagtacatgaataatgtaag	12	8	11	10	2	1	1	1	1	0	0	2	3	2	2	2	1	3	4	2	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:80136908C>T	uc010ysh.1	+	6	1046	c.1041C>T	c.(1039-1041)AGC>AGT	p.S347S	CTNNA2_uc010yse.1_Silent_p.S347S|CTNNA2_uc010ysf.1_Silent_p.S347S|CTNNA2_uc010ysg.1_Silent_p.S347S	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	347					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						ACCTGCTCAGCGAGTACATGA	0.562													8	45					0	0	0.00308	0	0		T	80136908	T	T	80136908	2	4	157	1	0	0	0	0	0	0	0	1	4016	767	27	1		1	CTNNA2	2	80136908	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6092995	80136908	163062465	170	85730											
SFTPB	6439	broad.mit.edu	37	chr2	85890587	85890587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggtggcactcagagtctCgcggcagccattctcctgtc	7	9	12	13	2	3	2	1	0	2	2	6	2	3	2	2	3	1	2	2	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:85890587C>T	uc002sqh.2	-	8	890	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	SFTPB_uc002sqi.2_Missense_Mutation_p.R303Q|SFTPB_uc002sqj.2_Missense_Mutation_p.R295Q|SFTPB_uc010ysw.1_5'Flank	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	295	Saposin B-type 3.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						CTCAGAGTCTCGCGGCAGCCA	0.612													7	21					0	0	0.004482	0	0		T	85890587	T	T	85890587	3	4	157	1	0	0	0	0	1	0	0	0	14216	884	31	1	273	1	SFTPB	2	85890587	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5753679	85890587	157308786	171	85731											
SFTPB	6439	broad.mit.edu	37	chr2	85894899	85894899	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accagaactcagggccctggGcacaggccaaggatgaggtg	11	4	15	11	0	1	2	1	1	0	1	1	3	1	3	3	5	1	1	3	5	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:85894899G>C	uc002sqh.2	-	2	104	c.98C>G	c.(97-99)GCC>GGC	p.A33G	SFTPB_uc002sqi.2_Missense_Mutation_p.A45G|SFTPB_uc002sqj.2_Missense_Mutation_p.A33G	NM_198843	NP_942140	P07988	PSPB_HUMAN	surfactant, pulmonary-associated protein B	33	Saposin A-type.				organ morphogenesis|respiratory gaseous exchange|sphingolipid metabolic process	extracellular space|lysosome				ovary(1)|central_nervous_system(1)	2						AGGGCCCTGGGCACAGGCCAA	0.587													25	85					0	0	0.003954	0	0		C	85894899	C	C	85894899	3	2	157	1	0	0	0	0	1	0	0	0	14216	1203	42	5	1083	5	SFTPB	2	85894899	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4312	85894899	157304474	172	85732											
POLR1A	25885	broad.mit.edu	37	chr2	86292506	86292506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctccatatagtgctccCgggtgaaaaagcaaccccga	12	6	9	14	2	0	1	0	1	0	0	2	2	2	1	5	1	4	3	5	1	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:86292506C>T	uc002sqs.2	-	14	2328	c.1949G>A	c.(1948-1950)CGG>CAG	p.R650Q	POLR1A_uc010ytb.1_Missense_Mutation_p.R16Q	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	650					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						ATAGTGCTCCCGGGTGAAAAA	0.547													39	173					0	0	0.00623	0	0		T	86292506	T	T	86292506	3	4	157	1	0	0	0	0	1	0	0	0	12228	652	23	1	3297	1	POLR1A	2	86292506	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	397607	86292506	156906867	173	85733											
TEKT4	150483	broad.mit.edu	37	chr2	95539788	95539788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaacatcgacgagacctgCgggcgccaccacagccagag	12	3	11	15	4	0	2	0	0	0	2	1	4	0	2	4	1	4	0	4	1	2	1	rs147190189		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:95539788C>T	uc002stw.1	+	3	741	c.648C>T	c.(646-648)TGC>TGT	p.C216C	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	216					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						ACGAGACCTGCGGGCGCCACC	0.657													11	55					0	0	0.006122	0	0		T	95539788	T	T	95539788	2	4	157	1	0	0	0	0	0	0	0	1	15780	776	27	1		1	TEKT4	2	95539788	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	9247282	95539788	147659585	174	85734											
SNRNP200	23020	broad.mit.edu	37	chr2	96944058	96944058	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgatctcgataagccctcGcaccttggtcttggcattga	8	12	10	11	2	2	2	0	2	2	0	4	4	2	2	2	2	1	2	2	2	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:96944058G>A	uc002svu.2	-	39	5613	c.5527C>T	c.(5527-5529)CGA>TGA	p.R1843*	SNRNP200_uc002svt.2_Nonsense_Mutation_p.R453*|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1843	SEC63 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						ATAAGCCCTCGCACCTTGGTC	0.507													24	102					0	0	0.00333	0	0		A	96944058	A	A	96944058	4	1	157	1	0	0	0	0	0	1	0	0	14877	1095	38	1	911	1	SNRNP200	2	96944058	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1404270	96944058	146255315	175	85735											
FER1L5	90342	broad.mit.edu	37	chr2	97365388	97365388	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgataagataggaaccacagTcatcgaccttgaaaaccgac	16	7	8	10	2	1	3	1	2	0	1	2	6	1	4	3	1	2	0	3	1	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:97365388T>C	uc010fia.2	+	42	4793	c.4793T>C	c.(4792-4794)GTC>GCC	p.V1598A	FER1L5_uc002sws.3_Missense_Mutation_p.V316A|FER1L5_uc002swt.3_Missense_Mutation_p.V316A|FER1L5_uc010yus.1_Missense_Mutation_p.V315A	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1598	C2 5.					integral to membrane				ovary(1)	1						GGAACCACAGTCATCGACCTT	0.502													19	263					0	0	0.010504	0	0		C	97365388	C	C	97365388	3	2	157	1	0	0	0	0	1	0	0	0	5828	1667	58	3	4959	3	FER1L5	2	97365388	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	421330	97365388	145833985	176	85736											
ANKRD23	200539	broad.mit.edu	37	chr2	97505471	97505471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccacactcaccgcgttcCgcacccccagctcggcccca	6	4	7	24	5	1	0	1	0	0	0	3	0	2	0	7	1	1	3	7	1	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:97505471C>T	uc002sxa.2	-	8	844	c.815G>A	c.(814-816)CGG>CAG	p.R272Q	ANKRD23_uc002sxb.2_RNA|ANKRD23_uc002sxc.2_Missense_Mutation_p.R230Q	NM_144994	NP_659431	Q86SG2	ANR23_HUMAN	diabetes related ankyrin repeat protein	272						nucleus				ovary(1)	1						CACCGCGTTCCGCACCCCCAG	0.682													8	26					0	0	0.00308	0	0		T	97505471	T	T	97505471	3	4	157	1	0	0	0	0	1	0	0	0	652	652	23	1	110	1	ANKRD23	2	97505471	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	140083	97505471	145693902	177	85737											
RANBP2	5903	broad.mit.edu	37	chr2	109382947	109382947	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttattctcatcacaatacggTaaaatggccaataaagcaaa	18	10	5	8	1	2	0	2	0	1	0	3	0	2	0	1	2	2	2	1	2	9	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:109382947T>C	uc002tem.3	+	20	6078	c.5952T>C	c.(5950-5952)GGT>GGC	p.G1984G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1984					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CACAATACGGTAAAATGGCCA	0.393													49	593					0	0	0.01441	0	0		C	109382947	C	C	109382947	2	2	157	1	0	0	0	0	0	0	0	1	13053	1625	57	3		3	RANBP2	2	109382947	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	11877476	109382947	133816426	178	85738											
DDX18	8886	broad.mit.edu	37	chr2	118583908	118583909	+	Frame_Shift_Ins	INS	-	T	T																															gagagggcatgccttgctcaINSttttgcgcccagaagaattg																										TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:118583908_118583909insT	uc002tlh.1	+	11	1684_1685	c.1585_1586insT	c.(1585-1587)ATTfs	p.I529fs		NM_006773	NP_006764	Q9NVP1	DDX18_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 18	529	Helicase C-terminal.						ATP binding|ATP-dependent RNA helicase activity|RNA binding			breast(2)|ovary(1)|lung(1)	4						TGCCTTGCTCATTTTGCGCCCA	0.436													17	37	---	---	---	---						.	T	118583909	T	T	118583908	7	5	157	1	0	1	1	0	0	0	0	0	4348	217	8	0	1627	0	DDX18	2	118583908	Frame_Shift_Ins	INS	-	TCGA-CG-5728-01A-11D-1600-08	9200961	118583908	124615465	179	85739											
SCTR	6344	broad.mit.edu	37	chr2	120231031	120231031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggttgacaggcttacccGcttctcgttggaagagtcgt	7	11	14	9	3	1	2	0	1	1	1	3	4	1	4	1	4	1	4	1	4	2	4	rs144705246	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:120231031G>A	uc002tma.2	-	4	629	c.403C>T	c.(403-405)CGG>TGG	p.R135W	SCTR_uc002tlz.2_5'UTR	NM_002980	NP_002971	P47872	SCTR_HUMAN	secretin receptor precursor	135	Extracellular (Potential).				digestion|excretion	integral to plasma membrane	secretin receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3					Secretin(DB00021)	AGGCTTACCCGCTTCTCGTTG	0.592													16	54					0	0	0.006122	0	0		A	120231031	A	A	120231031	3	1	157	1	0	0	0	0	1	0	0	0	13968	1086	38	1	959	1	SCTR	2	120231031	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1647123	120231031	122968342	180	85740											
SCTR	6344	broad.mit.edu	37	chr2	120236486	120236486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttatgttgtcccacatccCctcacaacctgccaagaaaa	12	9	5	15	0	1	1	1	0	0	1	3	1	3	1	5	0	2	2	5	0	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:120236486C>A	uc002tma.2	-	3	428	c.202G>T	c.(202-204)GGG>TGG	p.G68W	SCTR_uc002tlz.2_5'UTR	NM_002980	NP_002971	P47872	SCTR_HUMAN	secretin receptor precursor	68	Extracellular (Potential).				digestion|excretion	integral to plasma membrane	secretin receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3					Secretin(DB00021)	TCCCACATCCCCTCACAACCT	0.597													4	55					8.12818e-05	8.40194e-05	0.001984	1	0		A	120236486	A	A	120236486	3	1	157	1	0	0	0	0	1	0	0	0	13968	623	22	5	1164	5	SCTR	2	120236486	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5455	120236486	122962887	181	85741											
TMEM177	80775	broad.mit.edu	37	chr2	120439310	120439310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttaccctacaccacccGccgggactctgtgctgcaga	9	8	8	16	2	1	1	0	0	1	1	1	2	1	2	4	1	4	2	4	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:120439310G>A	uc010flg.1	+	2	1354	c.881G>A	c.(880-882)CGC>CAC	p.R294H	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.R294H|TMEM177_uc002tmd.2_Missense_Mutation_p.R294H|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	294						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					TACACCACCCGCCGGGACTCT	0.577													11	118					0	0	0.013537	0	0		A	120439310	A	A	120439310	3	1	157	1	0	0	0	0	1	0	0	0	16119	1087	38	1	883	1	TMEM177	2	120439310	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	202824	120439310	122760063	182	85742											
MBD5	55777	broad.mit.edu	37	chr2	149226158	149226158	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagaaatctccattccgtGgcagccatggaggcctgccc	9	7	11	14	1	1	1	0	0	1	1	3	3	2	2	5	3	2	1	5	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:149226158G>T	uc002twm.3	+	9	1634	c.646G>T	c.(646-648)GGC>TGC	p.G216C	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.G216C|MBD5_uc002twn.1_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	216						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TCCATTCCGTGGCAGCCATGG	0.532													8	121					0.000157383	0.000162287	0.00308	1	0		T	149226158	T	T	149226158	3	4	157	1	0	0	0	0	1	0	0	0	9365	1348	47	5	660	5	MBD5	2	149226158	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	28786848	149226158	93973215	183	85743											
MBD5	55777	broad.mit.edu	37	chr2	149240765	149240765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgttcttcaagatggcGtcatagtcaccactgcagct	9	12	8	12	1	5	1	3	0	2	1	5	1	5	1	1	1	2	3	1	1	2	3	rs116207524	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:149240765G>A	uc002twm.3	+	10	3593	c.2605G>A	c.(2605-2607)GTC>ATC	p.V869I	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.V869I|MBD5_uc002two.2_5'Flank|MBD5_uc002twp.2_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	869						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		TCAAGATGGCGTCATAGTCAC	0.493													37	125					0	0	0.005524	0	0		A	149240765	A	A	149240765	3	1	157	1	0	0	0	0	1	0	0	0	9365	1145	40	1	2623	1	MBD5	2	149240765	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	14607	149240765	93958608	184	85744											
NEB	4703	broad.mit.edu	37	chr2	152544188	152544188	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccaacaggggaatggcGtccactttaatgtcaaactt	11	10	10	10	1	1	0	1	0	0	0	2	1	2	1	2	3	3	1	2	3	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:152544188G>A	uc010fnx.2	-	26	2666	c.2475C>T	c.(2473-2475)GAC>GAT	p.D825D		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	825	Nebulin 19.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGGGAATGGCGTCCACTTTAA	0.493													3	31					0	0	0.004672	0	0		A	152544188	A	A	152544188	2	1	157	1	0	0	0	0	0	0	0	1	10321	1136	40	1		1	NEB	2	152544188	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3303423	152544188	90655185	185	85745											
GALNT13	114805	broad.mit.edu	37	chr2	155102337	155102337	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctctgcaggaaaacggttgtCtgccctatcattgatgtgat	9	13	10	9	1	3	2	1	2	2	0	3	3	3	3	1	2	3	2	1	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:155102337C>T	uc002tyr.3	+	7	1266	c.699C>T	c.(697-699)GTC>GTT	p.V233V	GALNT13_uc002tyt.3_Silent_p.V233V|GALNT13_uc010foc.1_Silent_p.V52V|GALNT13_uc010fod.2_5'UTR	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	233	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AAACGGTTGTCTGCCCTATCA	0.348													31	160					0	0	0.010818	0	0		T	155102337	T	T	155102337	2	4	157	1	0	0	0	0	0	0	0	1	6226	900	32	4		4	GALNT13	2	155102337	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2558149	155102337	88097036	186	85746											
ACVR1C	130399	broad.mit.edu	37	chr2	158390497	158390497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taatacgaagagcagttaggCgggccgctccgttggcatac	10	8	13	10	4	0	1	0	0	0	1	1	2	1	1	2	3	3	5	2	3	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:158390497C>T	uc002tzk.3	-	9	1658	c.1415G>A	c.(1414-1416)CGC>CAC	p.R472H	ACVR1C_uc002tzl.3_Missense_Mutation_p.R392H|ACVR1C_uc010fof.2_Missense_Mutation_p.R315H|ACVR1C_uc010foe.2_Missense_Mutation_p.R422H	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	472	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						AGCAGTTAGGCGGGCCGCTCC	0.388													37	114					0	0	0.005524	0	0		T	158390497	T	T	158390497	3	4	157	1	0	0	0	0	1	0	0	0	222	768	27	1	70	1	ACVR1C	2	158390497	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3288160	158390497	84808876	187	85747											
BAZ2B	29994	broad.mit.edu	37	chr2	160239212	160239212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcccttccttcttcgcttgCgtcctggagtgggtgtgccc	1	14	11	15	2	1	0	0	0	1	0	5	1	4	1	4	2	2	1	4	2	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:160239212C>T	uc002uao.2	-	25	4215	c.3863G>A	c.(3862-3864)CGC>CAC	p.R1288H	BAZ2B_uc002uap.2_Missense_Mutation_p.R1252H	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TCTTCGCTTGCGTCCTGGAGT	0.338													4	81					0	0	0.009096	0	0		T	160239212	T	T	160239212	3	4	157	1	0	0	0	0	1	0	0	0	1333	768	27	1	2695	1	BAZ2B	2	160239212	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1848715	160239212	82960161	188	85748											
BAZ2B	29994	broad.mit.edu	37	chr2	160295638	160295638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcatctgaatcactgctaCtaatgccttcacttgaggtg	10	13	8	10	0	4	2	3	2	1	0	4	3	4	2	1	1	3	1	1	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:160295638C>T	uc002uao.2	-	7	1134	c.782G>A	c.(781-783)AGT>AAT	p.S261N	BAZ2B_uc002uap.2_Missense_Mutation_p.S259N|BAZ2B_uc002uas.1_Missense_Mutation_p.S198N|BAZ2B_uc002uau.1_Missense_Mutation_p.S259N|BAZ2B_uc002uaq.1_Missense_Mutation_p.S189N|BAZ2B_uc002uat.3_Missense_Mutation_p.S198N|BAZ2B_uc010fop.1_Missense_Mutation_p.S259N	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	261	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						ATCACTGCTACTAATGCCTTC	0.348													28	343					0	0	0.007291	0	0		T	160295638	T	T	160295638	3	4	157	1	0	0	0	0	1	0	0	0	1333	565	20	4	5848	4	BAZ2B	2	160295638	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	56426	160295638	82903735	189	85749											
LY75	4065	broad.mit.edu	37	chr2	160755441	160755441	+	Missense_Mutation	SNP	A	G	G	1	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	tttgggagtgcaaatgaaagAgccgatgctgggacacccac	12	7	13	9	1	0	2	0	1	0	1	0	5	0	4	2	2	3	2	2	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:160755441A>G	uc002ubc.3	-	2	293	c.224T>C	c.(223-225)CTC>CCC	p.L75P	LY75_uc002ubb.3_Missense_Mutation_p.L75P|LY75_uc010fos.2_Missense_Mutation_p.L75P|LY75_uc010fot.1_Missense_Mutation_p.L75P	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	75	Extracellular (Potential).|Ricin B-type lectin.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		CAAATGAAAGAGCCGATGCTG	0.493													32	149					0	0	0.009535	0	0		G	160755441	G	G	160755441	3	3	157	1	0	0	0	0	1	0	0	0	9117	304	11	3	5080	3	LY75	2	160755441	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	459803	160755441	82443932	190	85750											
RBMS1	5937	broad.mit.edu	37	chr2	161157216	161157216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaaaatgaccaataacagCttcacatttttctgttgatt	14	16	4	7	0	2	2	1	2	1	0	2	2	2	2	1	0	2	2	1	0	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:161157216C>T	uc002ubo.2	-	6	1030	c.586G>A	c.(586-588)GCT>ACT	p.A196T	RBMS1_uc002ubj.2_Missense_Mutation_p.A163T|RBMS1_uc002ubk.2_Missense_Mutation_p.A163T|RBMS1_uc002ubl.2_Missense_Mutation_p.A194T|RBMS1_uc002ubn.2_Missense_Mutation_p.A196T|RBMS1_uc002ubi.3_Missense_Mutation_p.A196T|RBMS1_uc002ubm.2_Missense_Mutation_p.A163T|RBMS1_uc002ubp.2_Missense_Mutation_p.A196T|RBMS1_uc010fox.2_Missense_Mutation_p.A196T	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	196	RRM 2.				DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						CCAATAACAGCTTCACATTTT	0.284													3	97					0	0	0.004672	0	0		T	161157216	T	T	161157216	3	4	157	1	0	0	0	0	1	0	0	0	13173	797	28	2	666	2	RBMS1	2	161157216	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	401775	161157216	82042157	191	85751											
GCA	25801	broad.mit.edu	37	chr2	163215634	163215634	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattttctttgatgattatGttgcttgctgtgtgaagctt	7	20	10	4	0	1	3	0	3	1	0	1	4	1	3	0	0	3	4	0	0	3	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:163215634G>T	uc002ucg.2	+	6	711	c.535G>T	c.(535-537)GTT>TTT	p.V179F	GCA_uc010zcu.1_Missense_Mutation_p.V160F	NM_012198	NP_036330	P28676	GRAN_HUMAN	grancalcin, EF-hand calcium binding protein	179	EF-hand 4.				cellular membrane fusion	cytoplasm|plasma membrane	calcium ion binding|protein homodimerization activity				0						TGATGATTATGTTGCTTGCTG	0.313													43	188					2.51966e-14	2.74046e-14	0.01441	1	0		T	163215634	T	T	163215634	3	4	157	1	0	0	0	0	1	0	0	0	6298	1377	48	5	557	5	GCA	2	163215634	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2058418	163215634	79983739	192	85752											
COBLL1	22837	broad.mit.edu	37	chr2	165551064	165551064	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagctatgggaggaggggaGgcttcagcaggagcctgacc	9	5	19	8	0	1	1	1	1	0	0	1	6	1	6	2	7	3	3	2	7	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:165551064G>T	uc010zcw.1	-	15	3277	c.3153C>A	c.(3151-3153)GCC>GCA	p.A1051A	COBLL1_uc002ucp.2_Silent_p.A984A|COBLL1_uc002ucq.2_Silent_p.A946A|COBLL1_uc010zcx.1_Silent_p.A992A|COBLL1_uc002ucn.2_Silent_p.A412A|COBLL1_uc002uco.2_Silent_p.A715A	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1022										ovary(2)|pancreas(1)	3						GAGGAGGGGAGGCTTCAGCAG	0.468													15	87					1.49906e-05	1.5591e-05	0.00245	1	0		T	165551064	T	T	165551064	2	4	157	1	0	0	0	0	0	0	0	1	3657	987	35	5		5	COBLL1	2	165551064	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2335430	165551064	77648309	193	85753											
SCN3A	6328	broad.mit.edu	37	chr2	165986605	165986605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtcgttcatgtgccaccGtgggagcgtacagtcatcat	9	10	12	10	3	3	0	3	0	0	0	4	2	3	1	2	1	3	2	2	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:165986605G>A	uc002ucx.2	-	17	3259	c.2767C>T	c.(2767-2769)CGG>TGG	p.R923W	SCN3A_uc002ucy.2_Missense_Mutation_p.R874W|SCN3A_uc002ucz.2_Missense_Mutation_p.R874W|SCN3A_uc002uda.1_Missense_Mutation_p.R743W|SCN3A_uc002udb.1_Missense_Mutation_p.R743W	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	923						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ATGTGCCACCGTGGGAGCGTA	0.512													24	275					0	0	0.00333	0	0		A	165986605	A	A	165986605	3	1	157	1	0	0	0	0	1	0	0	0	13943	1144	40	1	3283	1	SCN3A	2	165986605	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	435541	165986605	77212768	194	85754											
XIRP2	129446	broad.mit.edu	37	chr2	168106895	168106895	+	Missense_Mutation	SNP	A	G	G	1	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	taagagagaatatgcagttcAcattgccatggagaataatt	16	11	9	5	0	1	3	1	0	0	3	1	5	1	3	1	1	2	2	1	1	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:168106895A>G	uc002udx.2	+	8	9011	c.8993A>G	c.(8992-8994)CAC>CGC	p.H2998R	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.H2823R|XIRP2_uc010fpq.2_Missense_Mutation_p.H2776R|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.H344R	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2823	Potential.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TATGCAGTTCACATTGCCATG	0.328													34	181					0	0	0.012213	0	0		G	168106895	G	G	168106895	3	3	157	1	0	0	0	0	1	0	0	0	17456	159	6	3	9023	3	XIRP2	2	168106895	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2120290	168106895	75092478	195	85755											
LRP2	4036	broad.mit.edu	37	chr2	170055371	170055371	+	Missense_Mutation	SNP	A	T	T	1	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	caaataaacgcgaggaatacAaatatttgaattatgacatt	19	11	6	5	2	0	2	0	2	0	0	0	4	0	3	0	1	2	0	0	1	9	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:170055371A>T	uc002ues.2	-	45	8716	c.8503T>A	c.(8503-8505)TGT>AGT	p.C2835S		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2835	LDL-receptor class A 19.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CGAGGAATACAAATATTTGAA	0.353													4	103					0	0	0.009096	0	0		T	170055371	T	T	170055371	3	4	157	1	0	0	0	0	1	0	0	0	8974	130	5	5	5604	5	LRP2	2	170055371	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1948476	170055371	73144002	196	85756											
LRP2	4036	broad.mit.edu	37	chr2	170101368	170101368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatccacacagtcgttgcGtttgtcacagcgccagtgtg	7	10	11	13	3	1	0	1	0	0	0	3	0	2	0	3	0	2	2	3	0	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:170101368G>A	uc002ues.2	-	22	3478	c.3265C>T	c.(3265-3267)CGC>TGC	p.R1089C	LRP2_uc010zdf.1_Missense_Mutation_p.R952C	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1089	LDL-receptor class A 9.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAGTCGTTGCGTTTGTCACAG	0.512													38	235					0	0	0.00623	0	0		A	170101368	A	A	170101368	3	1	157	1	0	0	0	0	1	0	0	0	8974	1145	40	1	10934	1	LRP2	2	170101368	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	45997	170101368	73098005	197	85757											
DYNC1I2	1781	broad.mit.edu	37	chr2	172583353	172583353	+	Missense_Mutation	SNP	A	C	C	1	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	caatgaagatgcccctcatgAgcctgatggtgtggcccttg	8	10	12	11	0	1	4	1	3	0	1	1	4	1	4	4	2	2	0	4	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:172583353A>C	uc002uha.1	+	11	1088	c.923A>C	c.(922-924)GAG>GCG	p.E308A	DYNC1I2_uc002uhc.2_Missense_Mutation_p.E282A|DYNC1I2_uc002uhb.1_Missense_Mutation_p.E282A|DYNC1I2_uc010zds.1_Missense_Mutation_p.E300A|DYNC1I2_uc002uhd.1_Missense_Mutation_p.E302A|DYNC1I2_uc002uhe.1_Missense_Mutation_p.E308A|DYNC1I2_uc002uhf.1_Missense_Mutation_p.E282A|DYNC1I2_uc010zdt.1_Missense_Mutation_p.E300A|DYNC1I2_uc002uhg.1_Missense_Mutation_p.E223A|DYNC1I2_uc010zdu.1_Missense_Mutation_p.E31A	NM_001378	NP_001369	Q13409	DC1I2_HUMAN	dynein, cytoplasmic 1, intermediate chain 2	308	WD 1.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|microtubule-based movement|transport	centrosome|cytosol|dynein complex|microtubule|vesicle	microtubule motor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.198)			GCCCCTCATGAGCCTGATGGT	0.418													21	84					0	0	0.012319	0	0		C	172583353	C	C	172583353	3	2	157	1	0	0	0	0	1	0	0	0	4849	304	11	5	961	5	DYNC1I2	2	172583353	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2481985	172583353	70616020	198	85758											
CHN1	1123	broad.mit.edu	37	chr2	175664964	175664964	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataagggtgggtccaaagacGattccaaggttctctgcatt	11	11	11	8	1	1	1	0	0	1	1	4	2	3	1	2	3	1	2	2	3	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:175664964G>A	uc002uji.2	-	13	1790	c.1260C>T	c.(1258-1260)ATC>ATT	p.I420I	CHN1_uc010zeq.1_Silent_p.I394I|CHN1_uc002ujj.2_Silent_p.I195I|CHN1_uc002ujg.2_Silent_p.I295I	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	420	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			GTCCAAAGACGATTCCAAGGT	0.428			T	TAF15	extraskeletal myxoid chondrosarcoma								9	129					0	0	0.010729	0	0		A	175664964	A	A	175664964	2	1	157	1	0	0	0	0	0	0	0	1	3365	1048	37	1		1	CHN1	2	175664964	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3081611	175664964	67534409	199	85759											
TTN	7273	broad.mit.edu	37	chr2	179428524	179428524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attccatatttattcacagcCatgacacggaaaatgtactc	14	12	5	10	1	1	1	1	1	0	0	3	2	2	2	2	1	2	1	2	1	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179428524C>T	uc010zfg.1	-	275	74855	c.74631G>A	c.(74629-74631)ATG>ATA	p.M24877I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.M18572I|TTN_uc010zfi.1_Missense_Mutation_p.M18505I|TTN_uc010zfj.1_Missense_Mutation_p.M18380I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25804							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TATTCACAGCCATGACACGGA	0.468													35	151					0	0	0.003271	0	0		T	179428524	T	T	179428524	3	4	157	1	0	0	0	0	1	0	0	0	16761	594	21	4	25792	4	TTN	2	179428524	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3763560	179428524	63770849	200	85760											
TTN	7273	broad.mit.edu	37	chr2	179434204	179434204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcaattatagctgcatctCggatttcaccatccaccttt	10	14	4	13	1	3	0	2	0	1	0	5	1	4	1	3	1	2	2	3	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179434204C>T	uc010zfg.1	-	275	69175	c.68951G>A	c.(68950-68952)CGA>CAA	p.R22984Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R16679Q|TTN_uc010zfi.1_Missense_Mutation_p.R16612Q|TTN_uc010zfj.1_Missense_Mutation_p.R16487Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23911							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGCTGCATCTCGGATTTCACC	0.388													6	86					0	0	0.001984	0	0		T	179434204	T	T	179434204	3	4	157	1	0	0	0	0	1	0	0	0	16761	884	31	1	31472	1	TTN	2	179434204	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5680	179434204	63765169	201	85761											
TTN	7273	broad.mit.edu	37	chr2	179460530	179460530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggtgttccaacgggacctGgaacatctggaaataagaag	14	8	12	7	1	1	1	0	0	1	1	2	4	2	4	2	4	2	1	2	4	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179460530G>A	uc010zfg.1	-	244	50071	c.49847C>T	c.(49846-49848)CCA>CTA	p.P16616L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.P10311L|TTN_uc010zfi.1_Missense_Mutation_p.P10244L|TTN_uc010zfj.1_Missense_Mutation_p.P10119L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17543							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACGGGACCTGGAACATCTGG	0.393													3	9					0	0	0.004672	0	0		A	179460530	A	A	179460530	3	1	157	1	0	0	0	0	1	0	0	0	16761	1348	47	4	50700	4	TTN	2	179460530	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	26326	179460530	63738843	202	85762											
TTN	7273	broad.mit.edu	37	chr2	179472135	179472135	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacattccttaccaaaaacTtctaccctggctgctgcaaa	13	10	4	14	0	1	0	0	0	1	0	2	0	2	0	3	1	6	3	3	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179472135T>G	uc010zfg.1	-	226	45800	c.45576A>C	c.(45574-45576)GAA>GAC	p.E15192D	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E8887D|TTN_uc010zfi.1_Missense_Mutation_p.E8820D|TTN_uc010zfj.1_Missense_Mutation_p.E8695D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16119							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACCAAAAACTTCTACCCTGG	0.383													61	211					0	0	0.01441	0	0		G	179472135	G	G	179472135	3	3	157	1	0	0	0	0	1	0	0	0	16761	1606	56	5	54757	5	TTN	2	179472135	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	11605	179472135	63727238	203	85763											
TTN	7273	broad.mit.edu	37	chr2	179552924	179552924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acacaccttcctcctcttctGagtaactccattcctcctct	7	14	2	18	0	3	1	0	1	3	0	8	1	8	1	6	0	1	1	6	0	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179552924G>A	uc010zfg.1	-	124	28717	c.28493C>T	c.(28492-28494)TCA>TTA	p.S9498L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S6159L|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10425							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCCTCTTCTGAGTAACTCCA	0.393													38	178					0	0	0.006999	0	0		A	179552924	A	A	179552924	3	1	157	1	0	0	0	0	1	0	0	0	16761	1294	45	4	72248	4	TTN	2	179552924	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	80789	179552924	63646449	204	85764											
TTN	7273	broad.mit.edu	37	chr2	179605532	179605532	+	Missense_Mutation	SNP	A	G	G	1	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	ggttgggagatggttccttgAgaggctgaaagtgaatactg	10	11	16	4	0	0	4	0	3	0	2	1	6	1	4	1	4	1	3	1	4	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179605532A>G	uc010zfh.1	-	46	12139	c.11915T>C	c.(11914-11916)CTC>CCC	p.L3972P	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.L3905P|TTN_uc010zfj.1_Missense_Mutation_p.L3780P|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGTTCCTTGAGAGGCTGAAA	0.468													20	256					0	0	0.012319	0	0		G	179605532	G	G	179605532	3	3	157	1	0	0	0	0	1	0	0	0	16761	304	11	3	92361	3	TTN	2	179605532	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	52608	179605532	63593841	205	85765											
TTN	7273	broad.mit.edu	37	chr2	179628939	179628939	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggcattgaaaacgggctggcTgcccttcagaagtgacagtg	10	8	14	9	1	1	3	1	2	0	1	1	3	1	3	1	3	2	3	1	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179628939T>C	uc010zfg.1	-	43	10303	c.10079A>G	c.(10078-10080)CAG>CGG	p.Q3360R	TTN_uc010zfh.1_Missense_Mutation_p.Q3314R|TTN_uc010zfi.1_Missense_Mutation_p.Q3314R|TTN_uc010zfj.1_Missense_Mutation_p.Q3314R|TTN_uc002umz.1_Missense_Mutation_p.Q21R|TTN_uc002unb.2_Missense_Mutation_p.Q3360R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACGGGCTGGCTGCCCTTCAGA	0.443													6	147					0	0	0.00308	0	0		C	179628939	C	C	179628939	3	2	157	1	0	0	0	0	1	0	0	0	16761	1580	55	3	101189	3	TTN	2	179628939	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	23407	179628939	63570434	206	85766											
SESTD1	91404	broad.mit.edu	37	chr2	179986571	179986571	+	Missense_Mutation	SNP	A	T	T	1	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	tctttattttcaatggttacAtcctttccataggcccagga	9	16	6	10	0	2	0	1	0	1	0	4	1	4	1	3	3	1	1	3	3	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:179986571A>T	uc002uni.3	-	13	1518	c.1368T>A	c.(1366-1368)GAT>GAA	p.D456E	SESTD1_uc002unh.3_5'UTR	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	456	Spectrin 2.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			CAATGGTTACATCCTTTCCAT	0.393													39	120					0	0	0.005524	0	0		T	179986571	T	T	179986571	3	4	157	1	0	0	0	0	1	0	0	0	14152	214	8	5	746	5	SESTD1	2	179986571	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	357632	179986571	63212802	207	85767											
SSFA2	6744	broad.mit.edu	37	chr2	182786912	182786912	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcaaggaagaaagtgttcCgagcatcggtggctctaacg	11	8	14	8	3	1	1	0	0	1	1	3	3	2	2	1	4	2	4	1	4	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:182786912C>T	uc002uoi.2	+	16	3770	c.3448C>T	c.(3448-3450)CGA>TGA	p.R1150*	SSFA2_uc002uoh.2_Nonsense_Mutation_p.R1150*|SSFA2_uc002uoj.2_Nonsense_Mutation_p.R1128*|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Nonsense_Mutation_p.R975*|SSFA2_uc002uol.2_Nonsense_Mutation_p.R997*|SSFA2_uc002uom.2_Nonsense_Mutation_p.R614*	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	1150						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			GAAAGTGTTCCGAGCATCGGT	0.498													9	175					0	0	0.008291	0	0		T	182786912	T	T	182786912	4	4	157	1	0	0	0	0	0	1	0	0	15208	644	23	1	3510	1	SSFA2	2	182786912	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2800341	182786912	60412461	208	85768											
PPP1R1C	151242	broad.mit.edu	37	chr2	182852584	182852584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatcaggaaaagaagacctAcaccagcatcacttgtgatt	16	8	8	9	0	2	4	2	1	0	3	2	5	2	5	2	1	2	1	2	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:182852584A>G	uc002uoo.2	+	2	387	c.100A>G	c.(100-102)ACA>GCA	p.T34A	PPP1R1C_uc002uon.2_Intron|PPP1R1C_uc002uop.1_Missense_Mutation_p.T34A|PPP1R1C_uc010frm.1_Missense_Mutation_p.T41A|PPP1R1C_uc010frn.1_RNA	NM_001080545	NP_001074014	Q8WVI7	PPR1C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	34					signal transduction	cytoplasm	protein phosphatase inhibitor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0628)			AAGAAGACCTACACCAGCATC	0.428													34	253					0	0	0.003271	0	0		G	182852584	G	G	182852584	3	3	157	1	0	0	0	0	1	0	0	0	12391	391	14	3	106	3	PPP1R1C	2	182852584	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	65672	182852584	60346789	209	85769											
NCKAP1	10787	broad.mit.edu	37	chr2	183822241	183822241	+	Silent	SNP	A	G	G	1	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	acacctggtttctccctttcAggttcccctttcttaccagt	5	16	5	15	0	3	0	1	0	2	0	5	0	4	0	5	2	1	2	5	2	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:183822241A>G	uc002upc.2	-	19	2367	c.1965T>C	c.(1963-1965)CCT>CCC	p.P655P	NCKAP1_uc002upb.2_Silent_p.P661P	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	655					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TCTCCCTTTCAGGTTCCCCTT	0.383													61	180					0	0	0.01441	0	0		G	183822241	G	G	183822241	2	3	157	1	0	0	0	0	0	0	0	1	10240	175	7	3		3	NCKAP1	2	183822241	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	969657	183822241	59377132	210	85770											
ANKRD44	91526	broad.mit.edu	37	chr2	197878289	197878289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctttcacaaagatggatgCgccctgattgataagcgctt	10	12	10	9	2	2	3	1	2	1	1	2	4	2	4	1	1	2	1	1	1	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:197878289C>T	uc002uua.1	-	18	1872	c.1795G>A	c.(1795-1797)GCA>ACA	p.A599T	ANKRD44_uc002utz.3_Missense_Mutation_p.A331T	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	624	ANK 18.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			AAGATGGATGCGCCCTGATTG	0.498													60	269					0	0	0.01441	0	0		T	197878289	T	T	197878289	3	4	157	1	0	0	0	0	1	0	0	0	672	768	27	1	1000	1	ANKRD44	2	197878289	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	14056048	197878289	45321084	211	85771											
TRAK2	66008	broad.mit.edu	37	chr2	202272204	202272204	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccgctggtgtggagactgagTccagtcttgattttcatata	8	14	11	8	1	2	3	1	2	1	1	3	4	3	3	2	2	0	1	2	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:202272204T>C	uc002uyb.3	-	3	654	c.208A>G	c.(208-210)ACT>GCT	p.T70A	TRAK2_uc002uyc.2_Missense_Mutation_p.T70A	NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	70						early endosome|plasma membrane	GABA receptor binding				0						GGAGACTGAGTCCAGTCTTGA	0.438													12	85					0	0	0.001855	0	0		C	202272204	C	C	202272204	3	2	157	1	0	0	0	0	1	0	0	0	16476	1667	58	3	2592	3	TRAK2	2	202272204	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4393915	202272204	40927169	212	85772											
BMPR2	659	broad.mit.edu	37	chr2	203384875	203384875	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctcttgccgtcttgctcaTtctgttactagaggactggc	6	14	10	11	1	4	1	1	0	3	1	4	2	4	2	1	2	4	3	1	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:203384875T>G	uc002uzf.3	+	7	2066	c.918T>G	c.(916-918)CAT>CAG	p.H306Q	BMPR2_uc010ftr.2_Missense_Mutation_p.H306Q	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	306	Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						GTCTTGCTCATTCTGTTACTA	0.383													7	67					0	0	0.001984	0	0		G	203384875	G	G	203384875	3	3	157	1	0	0	0	0	1	0	0	0	1472	1490	52	5	944	5	BMPR2	2	203384875	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1112671	203384875	39814498	213	85773											
NBEAL1	65065	broad.mit.edu	37	chr2	204045236	204045236	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttttggaaaatcaaaatcGtaagaaatagaggattaaaa	20	11	8	2	1	1	2	1	0	0	2	2	4	1	4	0	2	0	2	0	2	9	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:204045236G>A	uc002uzt.3	+	42	6841	c.6508_splice	c.e42+1	p.Q2170_splice	NBEAL1_uc002uzs.3_Splice_Site_p.Q880_splice	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3								binding			ovary(1)|skin(1)	2						AATCAAAATCGTAAGAAATAG	0.338													15	53					0	0	0.00245	0	0		A	204045236	A	A	204045236	5	1	157	1	0	0	0	0	0	0	1	0	10206	1159	40	1	6671	1	NBEAL1	2	204045236	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	660361	204045236	39154137	214	85774											
NBEAL1	65065	broad.mit.edu	37	chr2	204075771	204075771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcagatatatgtataatcGgagaacacattgtcacaggc	15	11	8	7	1	2	2	2	0	0	2	3	3	2	2	0	2	1	1	0	2	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:204075771G>A	uc002uzt.3	+	53	8122	c.7789G>A	c.(7789-7791)GGA>AGA	p.G2597R	NBEAL1_uc002uzs.3_Missense_Mutation_p.G1238R|NBEAL1_uc002uzu.2_Missense_Mutation_p.G92R	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	2597							binding			ovary(1)|skin(1)	2						ATGTATAATCGGAGAACACAT	0.348													28	101					0	0	0.008361	0	0		A	204075771	A	A	204075771	3	1	157	1	0	0	0	0	1	0	0	0	10206	1117	39	1	7995	1	NBEAL1	2	204075771	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	30535	204075771	39123602	215	85775											
ABCA12	26154	broad.mit.edu	37	chr2	215823039	215823039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgttacccagtagcatgtcaCgccaatgcctgaaatgtgct	10	11	9	11	1	1	1	1	1	0	0	1	1	1	1	3	0	4	4	3	0	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:215823039C>T	uc002vew.2	-	41	6299	c.6079G>A	c.(6079-6081)GTG>ATG	p.V2027M	ABCA12_uc002vev.2_Missense_Mutation_p.V1709M|ABCA12_uc010zjn.1_Missense_Mutation_p.V954M	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2027					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TAGCATGTCACGCCAATGCCT	0.428													50	207					0	0	0.01441	0	0		T	215823039	T	T	215823039	3	4	157	1	0	0	0	0	1	0	0	0	30	536	19	1	1760	1	ABCA12	2	215823039	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	11747268	215823039	27376334	216	85776											
FN1	2335	broad.mit.edu	37	chr2	216226782	216226782	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggttcacccccaggtctgcgGcagttgtcacagcgccagcc	6	7	12	16	2	3	0	2	0	1	0	3	0	3	0	4	3	3	3	4	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:216226782G>A	uc002vfa.2	-	45	7538	c.7272C>T	c.(7270-7272)TGC>TGT	p.C2424C	FN1_uc002vfb.2_Silent_p.C2212C|FN1_uc002vfc.2_Silent_p.C2187C|FN1_uc002vfd.2_Silent_p.C2368C|FN1_uc002vfe.2_Silent_p.C2302C|FN1_uc002vff.2_Silent_p.C2277C|FN1_uc002vfg.2_Silent_p.C2243C|FN1_uc002vfh.2_Silent_p.C2123C|FN1_uc002vfi.2_Silent_p.C2393C|FN1_uc002vfj.2_Silent_p.C2214C|FN1_uc002vez.2_Silent_p.C587C|FN1_uc010zjp.1_Silent_p.C961C	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	2333	Fibrin-binding 2.|Fibronectin type-I 12.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAGGTCTGCGGCAGTTGTCAC	0.478													11	51					0	0	0.013537	0	0		A	216226782	A	A	216226782	2	1	157	1	0	0	0	0	0	0	0	1	5976	1195	42	2		2	FN1	2	216226782	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	403743	216226782	26972591	217	85777											
FN1	2335	broad.mit.edu	37	chr2	216229623	216229623	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctggcctccaaagcatgtGcaggagcaaatggcaccgag	11	5	13	12	2	0	0	0	0	0	0	1	2	1	1	3	3	3	5	3	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:216229623G>A	uc002vfa.2	-	44	7496	c.7230C>T	c.(7228-7230)TGC>TGT	p.C2410C	FN1_uc002vfb.2_Silent_p.C2198C|FN1_uc002vfc.2_Silent_p.C2173C|FN1_uc002vfd.2_Silent_p.C2354C|FN1_uc002vfe.2_Silent_p.C2288C|FN1_uc002vff.2_Silent_p.C2263C|FN1_uc002vfg.2_Silent_p.C2229C|FN1_uc002vfh.2_Silent_p.C2109C|FN1_uc002vfi.2_Silent_p.C2379C|FN1_uc002vfj.2_Silent_p.C2200C|FN1_uc002vez.2_Silent_p.C573C|FN1_uc010zjp.1_Silent_p.C947C|FN1_uc002vfk.1_RNA|FN1_uc010fva.1_RNA|FN1_uc010fvb.1_RNA	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	2319	Fibrin-binding 2.|Fibronectin type-I 12.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CAAAGCATGTGCAGGAGCAAA	0.498													3	7					0	0	0.004672	0	0		A	216229623	A	A	216229623	2	1	157	1	0	0	0	0	0	0	0	1	5976	1311	46	2		2	FN1	2	216229623	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2841	216229623	26969750	218	85778											
FN1	2335	broad.mit.edu	37	chr2	216248175	216248175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgctgttgtcctgaacatcGgtcacttgcatctgggatgg	7	13	12	9	1	2	1	1	1	1	0	4	2	3	2	1	3	3	3	1	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:216248175G>A	uc002vfa.2	-	31	5192	c.4926C>T	c.(4924-4926)ACC>ACT	p.T1642T	FN1_uc002vfb.2_Silent_p.T1551T|FN1_uc002vfc.2_Silent_p.T1551T|FN1_uc002vfd.2_Silent_p.T1642T|FN1_uc002vfe.2_Silent_p.T1551T|FN1_uc002vff.2_Silent_p.T1551T|FN1_uc002vfg.2_Silent_p.T1551T|FN1_uc002vfh.2_Silent_p.T1551T|FN1_uc002vfi.2_Silent_p.T1642T|FN1_uc002vfj.2_Silent_p.T1642T|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Silent_p.T269T|FN1_uc010fvc.1_Silent_p.T4T|FN1_uc010fvd.1_Silent_p.T4T	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1641	Fibronectin type-III 12; extra domain.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCTGAACATCGGTCACTTGCA	0.473													47	141					0	0	0.013114	0	0		A	216248175	A	A	216248175	2	1	157	1	0	0	0	0	0	0	0	1	5976	1103	39	1		1	FN1	2	216248175	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	18552	216248175	26951198	219	85779											
FN1	2335	broad.mit.edu	37	chr2	216262429	216262429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactttgtttacaattggcGcatctctttcctgtccatct	6	17	5	13	1	2	0	0	0	2	0	5	0	4	0	3	1	1	2	3	1	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:216262429G>A	uc002vfa.2	-	22	3757	c.3491C>T	c.(3490-3492)GCG>GTG	p.A1164V	FN1_uc002vfb.2_Missense_Mutation_p.A1164V|FN1_uc002vfc.2_Missense_Mutation_p.A1164V|FN1_uc002vfd.2_Missense_Mutation_p.A1164V|FN1_uc002vfe.2_Missense_Mutation_p.A1164V|FN1_uc002vff.2_Missense_Mutation_p.A1164V|FN1_uc002vfg.2_Missense_Mutation_p.A1164V|FN1_uc002vfh.2_Missense_Mutation_p.A1164V|FN1_uc002vfi.2_Missense_Mutation_p.A1164V|FN1_uc002vfj.2_Missense_Mutation_p.A1164V	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1164	|Fibronectin type-III 6.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TACAATTGGCGCATCTCTTTC	0.403													40	207					0	0	0.006999	0	0		A	216262429	A	A	216262429	3	1	157	1	0	0	0	0	1	0	0	0	5976	1087	38	1	4042	1	FN1	2	216262429	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	14254	216262429	26936944	220	85780											
SMARCAL1	50485	broad.mit.edu	37	chr2	217285159	217285159	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctttcatttgtcaaagggCgatgcatgctcatctccagg	8	12	9	12	1	4	0	3	0	1	0	5	1	4	0	2	2	2	2	2	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:217285159C>T	uc002vgc.3	+	5	1330	c.1000C>T	c.(1000-1002)CGA>TGA	p.R334*	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Nonsense_Mutation_p.R334*|SMARCAL1_uc010fvg.2_Nonsense_Mutation_p.R334*	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	334					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		TGTCAAAGGGCGATGCATGCT	0.527									Schimke_Immuno-Osseous_Dysplasia				10	102					0	0	0.008291	0	0		T	217285159	T	T	217285159	4	4	157	1	0	0	0	0	0	1	0	0	14798	760	27	1	1010	1	SMARCAL1	2	217285159	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1022730	217285159	25914214	221	85781											
TNS1	7145	broad.mit.edu	37	chr2	218713378	218713378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtccaggatgtctgtctccCgctcagatgctaacgcccca	7	9	9	16	3	3	1	1	0	2	1	5	2	4	2	4	1	2	2	4	1	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:218713378C>T	uc002vgt.2	-	17	1885	c.1487G>A	c.(1486-1488)CGG>CAG	p.R496Q	TNS1_uc002vgr.2_Missense_Mutation_p.R496Q|TNS1_uc002vgs.2_Missense_Mutation_p.R496Q|TNS1_uc010zjv.1_Missense_Mutation_p.R496Q|TNS1_uc010fvj.1_Missense_Mutation_p.R564Q|TNS1_uc010fvk.1_Missense_Mutation_p.R621Q|TNS1_uc010fvi.1_Missense_Mutation_p.R183Q	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	496						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		GTCTGTCTCCCGCTCAGATGC	0.617													21	107					0	0	0.008871	0	0		T	218713378	T	T	218713378	3	4	157	1	0	0	0	0	1	0	0	0	16368	652	23	1	3788	1	TNS1	2	218713378	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1428219	218713378	24485995	222	85782											
PAX3	5077	broad.mit.edu	37	chr2	223159014	223159014	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttctcaggatgcggctgatgGaactcactgggggcgggagg	7	8	18	8	2	2	1	2	1	1	0	3	4	2	4	0	7	2	1	0	7	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:223159014G>T	uc010fwo.2	-	4	824	c.458C>A	c.(457-459)TCC>TAC	p.S153Y	PAX3_uc002vmt.1_Missense_Mutation_p.S153Y|PAX3_uc002vmy.1_Missense_Mutation_p.S152Y|PAX3_uc002vmv.1_Missense_Mutation_p.S153Y|PAX3_uc002vmw.1_Missense_Mutation_p.S153Y|PAX3_uc002vmx.1_Missense_Mutation_p.S153Y|PAX3_uc002vmz.1_Missense_Mutation_p.S153Y|PAX3_uc002vna.1_Missense_Mutation_p.S153Y	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	153	Paired.				apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		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)		GCGGCTGATGGAACTCACTGG	0.592			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						10	56					0.00010058	0.000103904	0.013537	1	0		T	223159014	T	T	223159014	3	4	157	1	0	0	0	0	1	0	0	0	11499	1174	41	5	1216	5	PAX3	2	223159014	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4445636	223159014	20040359	223	85783											
FARSB	10056	broad.mit.edu	37	chr2	223505594	223505594	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattacctcttctgtgataAtcaatttctggatttttcca	9	20	4	8	0	4	1	1	1	3	0	5	2	5	2	2	1	1	0	2	1	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:223505594A>C	uc002vne.1	-	4	361	c.326T>G	c.(325-327)ATT>AGT	p.I109S	FARSB_uc010zlq.1_Missense_Mutation_p.I129S|FARSB_uc002vnf.1_Missense_Mutation_p.I10S	NM_005687	NP_005678	Q9NSD9	SYFB_HUMAN	phenylalanyl-tRNA synthetase, beta subunit	109					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|RNA binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(121;3.47e-10)|all cancers(144;1.86e-07)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.011)	L-Phenylalanine(DB00120)	TTCTGTGATAATCAATTTCTG	0.289													11	43					0	0	0.013537	0	0		C	223505594	C	C	223505594	3	2	157	1	0	0	0	0	1	0	0	0	5694	101	4	5	1499	5	FARSB	2	223505594	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	346580	223505594	19693779	224	85784											
SCG2	7857	broad.mit.edu	37	chr2	224463172	224463172	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcatctcatcgttgatttGttcatttttttctatattct	6	25	3	7	1	5	1	3	1	3	0	7	1	5	1	0	0	0	2	0	0	2	10			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:224463172G>C	uc002vnm.2	-	2	962	c.829C>G	c.(829-831)CAA>GAA	p.Q277E		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	277					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		TCGTTGATTTGTTCATTTTTT	0.448													32	430					0	0	0.009535	0	0		C	224463172	C	C	224463172	3	2	157	1	0	0	0	0	1	0	0	0	13916	1386	48	5	1028	5	SCG2	2	224463172	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	957578	224463172	18736201	225	85785											
FAM124B	79843	broad.mit.edu	37	chr2	225265913	225265913	+	Silent	SNP	C	T	T	0	0	0	1	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	tccactgacattcccgggggCagctgcttcagggagagctg	7	8	14	12	1	1	2	1	1	0	1	3	3	3	2	2	3	3	4	2	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:225265913C>T	uc002vnx.2	-	1	799	c.573G>A	c.(571-573)CTG>CTA	p.L191L	FAM124B_uc002vnw.2_Silent_p.L191L	NM_001122779	NP_001116251	Q9H5Z6	F124B_HUMAN	hypothetical protein LOC79843 isoform a	191							protein binding			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0126)|Lung NSC(271;0.0161)|all_hematologic(139;0.138)		Epithelial(121;4.4e-10)|all cancers(144;2.02e-07)|Lung(261;0.00766)|LUSC - Lung squamous cell carcinoma(224;0.00825)		TTCCCGGGGGCAGCTGCTTCA	0.522													13	81					0	0	0.001855	0	0		T	225265913	T	T	225265913	2	4	157	1	0	0	0	0	0	0	0	1	5437	697	25	2		2	FAM124B	2	225265913	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	802741	225265913	17933460	226	85786											
COL4A3	1285	broad.mit.edu	37	chr2	228153918	228153918	+	Silent	SNP	A	G	G	1	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	agaggcgttccagggatgccAggtttaaagggcctcaaagg	11	7	15	8	1	1	1	1	0	0	1	2	2	2	2	3	5	1	2	3	5	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:228153918A>G	uc002vom.1	+	35	3096	c.2934A>G	c.(2932-2934)CCA>CCG	p.P978P	COL4A3_uc002von.1_Silent_p.P978P|COL4A3_uc002voo.1_Silent_p.P978P|COL4A3_uc002vop.1_Silent_p.P978P|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	978	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		CAGGGATGCCAGGTTTAAAGG	0.403													6	26					0	0	0.001168	0	0		G	228153918	G	G	228153918	2	3	157	1	0	0	0	0	0	0	0	1	3694	175	7	3		3	COL4A3	2	228153918	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2888005	228153918	15045455	227	85787											
MFF	56947	broad.mit.edu	37	chr2	228211948	228211948	+	Silent	SNP	A	G	G	1	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	gcttgtgtaaacagtgtgacAccatcgccacaacaggctcg	11	8	10	12	2	0	1	0	1	0	0	2	1	0	1	2	1	2	3	2	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:228211948A>G	uc002vos.2	+	8	1018	c.600A>G	c.(598-600)ACA>ACG	p.T200T	MFF_uc002vot.2_Silent_p.T149T|MFF_uc002vou.2_Intron|MFF_uc002vov.2_Intron|MFF_uc002vow.2_Intron|MFF_uc002vox.2_Intron|MFF_uc002voy.2_Silent_p.T200T|MFF_uc002voz.2_Intron|MFF_uc002vpa.2_5'UTR	NM_020194	NP_064579	Q9GZY8	MFF_HUMAN	mitochondrial fission factor	200	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane				large_intestine(1)	1						ACAGTGTGACACCATCGCCAC	0.418													39	143					0	0	0.010771	0	0		G	228211948	G	G	228211948	2	3	157	1	0	0	0	0	0	0	0	1	9537	146	6	3		3	MFF	2	228211948	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	58030	228211948	14987425	228	85788											
TM4SF20	79853	broad.mit.edu	37	chr2	228228629	228228629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctagatgctctccagccactCgccatggtgtcgttactggt	6	12	10	13	2	1	1	0	0	1	1	4	1	1	1	3	2	3	2	3	2	2	2	rs141014397		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:228228629C>T	uc002vpb.2	-	4	539	c.501G>A	c.(499-501)GCG>GCA	p.A167A		NM_024795	NP_079071	Q53R12	T4S20_HUMAN	transmembrane 4 L six family member 20	167	Extracellular (Potential).					integral to membrane|plasma membrane					0		Renal(207;0.025)|all_lung(227;0.123)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;3.8e-11)|all cancers(144;2.57e-08)|Lung(261;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0115)		TCCAGCCACTCGCCATGGTGT	0.423													35	83					0	0	0.013114	0	0		T	228228629	T	T	228228629	2	4	157	1	0	0	0	0	0	0	0	1	15994	871	31	1		1	TM4SF20	2	228228629	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	16681	228228629	14970744	229	85789											
PID1	55022	broad.mit.edu	37	chr2	229890462	229890462	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaggcctccatcatggcGtgggccagtttcttggcctc	5	11	12	13	1	2	1	1	1	1	0	4	1	3	1	4	4	0	1	4	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:229890462G>A	uc002vpr.3	-	3	677	c.639C>T	c.(637-639)CAC>CAT	p.H213H	PID1_uc002vps.3_Silent_p.H211H|PID1_uc002vpt.3_Silent_p.H180H|PID1_uc002vpu.3_Silent_p.H131H	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	213	PID.					cytoplasm				breast(3)|skin(1)	4		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)		CCATCATGGCGTGGGCCAGTT	0.567													33	129					0	0	0.003755	0	0		A	229890462	A	A	229890462	2	1	157	1	0	0	0	0	0	0	0	1	11901	1136	40	1		1	PID1	2	229890462	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1661833	229890462	13308911	230	85790											
PID1	55022	broad.mit.edu	37	chr2	230020592	230020592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtcgtgcacagctcaatgGcctccggctcatggaagatg	8	9	13	11	2	2	1	2	0	0	1	4	2	3	2	2	4	2	3	2	4	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:230020592G>A	uc002vpr.3	-	2	256	c.218C>T	c.(217-219)GCC>GTC	p.A73V	PID1_uc002vps.3_Missense_Mutation_p.A71V|PID1_uc002vpt.3_Missense_Mutation_p.A40V|PID1_uc002vpu.3_Intron	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	73						cytoplasm				breast(3)|skin(1)	4		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)		CAGCTCAATGGCCTCCGGCTC	0.517													33	136					0	0	0.012213	0	0		A	230020592	A	A	230020592	3	1	157	1	0	0	0	0	1	0	0	0	11901	1203	42	2	542	2	PID1	2	230020592	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	130130	230020592	13178781	231	85791											
SP100	6672	broad.mit.edu	37	chr2	231313824	231313824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactggtgaaaactcttttcGaagcctgacttggccacctt	10	12	8	11	1	1	2	0	2	1	0	2	3	1	2	3	2	3	0	3	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:231313824G>A	uc002vqt.2	+	6	686	c.545G>A	c.(544-546)CGA>CAA	p.R182Q	SP100_uc002vqs.2_Missense_Mutation_p.R182Q|SP100_uc002vqu.1_Missense_Mutation_p.R182Q|SP100_uc010zmb.1_Missense_Mutation_p.R182Q|SP100_uc002vqq.1_Missense_Mutation_p.R182Q|SP100_uc002vqr.1_Missense_Mutation_p.R157Q|SP100_uc010zmc.1_Missense_Mutation_p.R157Q|SP100_uc002vqv.1_Missense_Mutation_p.R146Q	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	182					DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		AACTCTTTTCGAAGCCTGACT	0.448													32	164					0	0	0.013726	0	0		A	231313824	A	A	231313824	3	1	157	1	0	0	0	0	1	0	0	0	14985	1058	37	1	567	1	SP100	2	231313824	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1293232	231313824	11885549	232	85792											
B3GNT7	93010	broad.mit.edu	37	chr2	232263030	232263030	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctacgaagaccgcctctaCggcgacatcctgcagtgggg	8	6	13	14	4	1	1	0	0	1	1	2	3	2	1	4	3	3	1	4	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:232263030C>T	uc002vrs.2	+	2	780	c.600C>T	c.(598-600)TAC>TAT	p.Y200Y		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	200	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)		ACCGCCTCTACGGCGACATCC	0.637													26	96					0	0	0.005443	0	0		T	232263030	T	T	232263030	2	4	157	1	0	0	0	0	0	0	0	1	1263	547	19	1		1	B3GNT7	2	232263030	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	949206	232263030	10936343	233	85793											
GBX2	2637	broad.mit.edu	37	chr2	237074908	237074908	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccgcggcgccgctgctcggCggggtctcctccagcgcgtg	1	6	16	18	8	1	0	0	0	1	0	4	0	2	0	4	4	2	2	4	4	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:237074908C>T	uc002vvw.1	-	2	734	c.696G>A	c.(694-696)CCG>CCA	p.P232P	GBX2_uc010zng.1_3'UTR	NM_001485	NP_001476	P52951	GBX2_HUMAN	gastrulation brain homeo box 2	232				QAAHKEEDPGHALEETPPSSGA -> PGSSQGGRPGPRGGG DPAEQRR (in Ref. 6).		nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		CGCTGCTCGGCGGGGTCTCCT	0.667													17	51					0	0	0.006122	0	0		T	237074908	T	T	237074908	2	4	157	1	0	0	0	0	0	0	0	1	6296	755	27	1		1	GBX2	2	237074908	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4811878	237074908	6124465	234	85794											
COL6A3	1293	broad.mit.edu	37	chr2	238253469	238253469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggctagttctgttgggaagaCggggcactccaggggccctg	6	8	17	10	1	1	1	0	0	1	1	2	2	2	2	2	6	0	4	2	6	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:238253469C>T	uc002vwl.2	-	36	7477	c.7192G>A	c.(7192-7194)GTC>ATC	p.V2398I	COL6A3_uc002vwo.2_Missense_Mutation_p.V2192I|COL6A3_uc010znj.1_Missense_Mutation_p.V1791I|COL6A3_uc002vwj.2_5'Flank|COL6A3_uc002vwp.1_Missense_Mutation_p.V219I	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2398	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GTTGGGAAGACGGGGCACTCC	0.498													24	145					0	0	0.00333	0	0		T	238253469	T	T	238253469	3	4	157	1	0	0	0	0	1	0	0	0	3704	536	19	1	2377	1	COL6A3	2	238253469	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1178561	238253469	4945904	235	85795											
COL6A3	1293	broad.mit.edu	37	chr2	238277420	238277420	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatgcccgaggaacggatCacctgggcgaacctggacac	12	4	12	13	3	1	0	1	0	0	0	1	5	1	3	3	4	3	0	3	4	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:238277420C>A	uc002vwl.2	-	10	4971	c.4686G>T	c.(4684-4686)GTG>GTT	p.V1562V	COL6A3_uc002vwo.2_Silent_p.V1356V|COL6A3_uc010znj.1_Silent_p.V955V	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1562	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGAACGGATCACCTGGGCGA	0.572													63	215					1.55088e-19	1.7144e-19	0.01441	1	0		A	238277420	A	A	238277420	2	1	157	1	0	0	0	0	0	0	0	1	3704	813	29	5		5	COL6A3	2	238277420	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	23951	238277420	4921953	236	85796											
PER2	8864	broad.mit.edu	37	chr2	239167156	239167156	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgatgacgctgtccaagCagctgatctgctggtaggag	9	9	13	10	1	1	3	0	3	1	0	2	4	2	4	2	2	3	5	2	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:239167156C>A	uc002vyc.2	-	15	1994	c.1757G>T	c.(1756-1758)TGC>TTC	p.C586F	PER2_uc010znv.1_Missense_Mutation_p.C586F	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	586	CSNK1E binding domain (By similarity).				circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		GCTGTCCAAGCAGCTGATCTG	0.582													9	40					2.80697e-09	2.99316e-09	0.010729	1	0		A	239167156	A	A	239167156	3	1	157	1	0	0	0	0	1	0	0	0	11749	710	25	5	2046	5	PER2	2	239167156	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	889736	239167156	4032217	237	85797											
HDLBP	3069	broad.mit.edu	37	chr2	242194469	242194469	+	Silent	SNP	T	C	C	0	1	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	gaaaaacgtgtccttaccttTggcatctgctgagtgatttt	9	15	9	8	1	1	2	0	2	1	0	2	3	2	2	2	1	3	2	2	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr2:242194469T>C	uc002waz.2	-	9	1413	c.1185A>G	c.(1183-1185)CCA>CCG	p.P395P	HDLBP_uc002wba.2_Silent_p.P395P|HDLBP_uc002wbb.2_Silent_p.P347P|HDLBP_uc010fzn.1_Silent_p.P124P	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	395	KH 4.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TCCTTACCTTTGGCATCTGCT	0.463													22	342					0	0	0.014323	0	0		C	242194469	C	C	242194469	2	2	157	1	0	0	0	0	0	0	0	1	7041	1799	63	3		3	HDLBP	2	242194469	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3027313	242194469	1004904	238	85798											
CHL1	10752	broad.mit.edu	37	chr3	439979	439979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaatagaggtatttgagcCgggagctgaacatatagttc	12	10	11	8	1	0	3	0	2	0	1	1	4	0	4	2	2	3	3	2	2	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:439979C>T	uc003bou.2	+	24	3387	c.3116C>T	c.(3115-3117)CCG>CTG	p.P1039L	CHL1_uc003bot.2_Missense_Mutation_p.P1055L|CHL1_uc003bow.1_Missense_Mutation_p.P1039L|CHL1_uc011asi.1_Intron	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	1039	Extracellular (Potential).	Cleavage; by ADAM8 (By similarity).			axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		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)		GTATTTGAGCCGGGAGCTGAA	0.383													5	94					0	0	0.001168	0	0		T	439979	T	T	439979	3	4	157	1	0	0	0	0	1	0	0	0	3352	652	23	1	3254	1	CHL1	3	439979	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08		439979	197582451	239	85799											
ARPC4	10093	broad.mit.edu	37	chr3	9839372	9839372	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcccctacctgagtgcCgtgcgggccacattgcaggc	5	7	12	17	3	0	1	0	1	0	0	1	1	1	1	6	2	4	1	6	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:9839372C>T	uc003bsz.1	+	2	612	c.33C>T	c.(31-33)GCC>GCT	p.A11A	ARPC4_uc003bta.1_5'UTR|ARPC4_uc003btb.1_5'UTR|ARPC4_uc003btc.1_5'UTR|TTLL3_uc003btd.3_5'UTR	NM_005718	NP_005709	P59998	ARPC4_HUMAN	actin related protein 2/3 complex subunit 4	11					actin filament polymerization|actin nucleation	Arp2/3 protein complex|cell projection|cytoplasm	actin binding				0	Medulloblastoma(99;0.227)					ACCTGAGTGCCGTGCGGGCCA	0.552													22	110					0	0	0.00632	0	0		T	9839372	T	T	9839372	2	4	157	1	0	0	0	0	0	0	0	1	974	639	23	1		1	ARPC4	3	9839372	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	9399393	9839372	188183058	240	85800											
PPARG	5468	broad.mit.edu	37	chr3	12421297	12421297	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaagaccactcccactcCtttgatatcaagcccttcac	11	10	5	15	0	2	2	2	1	0	1	4	3	4	3	4	1	1	0	4	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:12421297C>A	uc003bwx.2	+	2	268	c.177C>A	c.(175-177)TCC>TCA	p.S59S	PPARG_uc003bwr.2_Silent_p.S31S|PPARG_uc003bws.2_Silent_p.S31S|PPARG_uc003bwu.2_Silent_p.S31S|PPARG_uc003bwv.2_Silent_p.S31S|PPARG_uc010hea.1_RNA|PPARG_uc003bwq.1_Silent_p.S31S|PPARG_uc010hdz.1_RNA|PPARG_uc003bwt.1_Silent_p.S31S|PPARG_uc003bww.1_Silent_p.S59S	NM_015869	NP_056953	P37231	PPARG_HUMAN	peroxisome proliferative activated receptor	59					activation of caspase activity|cell fate commitment|cell maturation|cellular response to insulin stimulus|epithelial cell differentiation|glucose homeostasis|induction of apoptosis|innate immune response|lipid homeostasis|lipoprotein transport|long-chain fatty acid transport|low-density lipoprotein particle receptor biosynthetic process|monocyte differentiation|negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|placenta development|positive regulation of fat cell differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to lipid|response to low-density lipoprotein particle stimulus|white fat cell differentiation	cytosol|nucleoplasm	activating transcription factor binding|arachidonic acid binding|drug binding|enzyme binding|prostaglandin receptor activity|retinoid X receptor binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|kidney(1)	2					Atorvastatin(DB01076)|Icosapent(DB00159)|Pioglitazone(DB01132)|Rosiglitazone(DB00412)|Troglitazone(DB00197)	ACTCCCACTCCTTTGATATCA	0.463			T	PAX8	follicular thyroid		Insulin resistance ; lipodystrophy|familial partial L;diabetes mellitus|insulin-resistantI|with acanthosis nigricans and hypertension						46	168					3.54909e-21	3.93359e-21	0.011902	1	0		A	12421297	A	A	12421297	2	1	157	1	0	0	0	0	0	0	0	1	12318	668	24	5		5	PPARG	3	12421297	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2581925	12421297	185601133	241	85801											
CAND2	23066	broad.mit.edu	37	chr3	12856772	12856772	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccactgcaccctggcacctgTgctcatccgccgcttcaaag	7	8	8	18	2	2	0	2	0	0	0	3	0	3	0	5	1	2	4	5	1	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:12856772T>C	uc003bxk.2	+	8	1188	c.1139T>C	c.(1138-1140)GTG>GCG	p.V380A	CAND2_uc003bxj.2_Missense_Mutation_p.V287A	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	380	HEAT 9.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						CTGGCACCTGTGCTCATCCGC	0.617													15	61					0	0	0.003163	0	0		C	12856772	C	C	12856772	3	2	157	1	0	0	0	0	1	0	0	0	2619	1696	59	3	1169	3	CAND2	3	12856772	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	435475	12856772	185165658	242	85802											
KCNH8	131096	broad.mit.edu	37	chr3	19575324	19575324	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccacattcagattctacGttgacgcctctgcagtccat	8	13	6	14	2	4	2	1	1	3	1	6	2	5	2	3	0	2	2	3	0	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:19575324G>A	uc003cbk.1	+	16	3252	c.3057G>A	c.(3055-3057)ACG>ACA	p.T1019T	KCNH8_uc010hex.1_Silent_p.T480T	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	1019	Ser-rich.|Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						CAGATTCTACGTTGACGCCTC	0.458													22	394					0	0	0.014323	0	0		A	19575324	A	A	19575324	2	1	157	1	0	0	0	0	0	0	0	1	8054	1132	40	1		1	KCNH8	3	19575324	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6718552	19575324	178447106	243	85803											
TOP2B	7155	broad.mit.edu	37	chr3	25650830	25650830	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtaggtgtttttctcactcTggtacctaaagcaaaagaat	12	14	8	7	0	2	1	1	0	2	1	3	1	2	1	1	2	2	4	1	2	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:25650830T>C	uc003cdj.2	-	30	3922	c.3922A>G	c.(3922-3924)AGA>GGA	p.R1308G	TOP2B_uc011awm.1_Missense_Mutation_p.R165G|TOP2B_uc010hff.1_Missense_Mutation_p.R174G	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	1313					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						TTTCTCACTCTGGTACCTAAA	0.308													4	18					0	0	0.009096	0	0		C	25650830	C	C	25650830	3	2	157	1	0	0	0	0	1	0	0	0	16392	1588	55	3	971	3	TOP2B	3	25650830	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	6075506	25650830	172371600	244	85804											
TOP2B	7155	broad.mit.edu	37	chr3	25668765	25668765	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaatattcctttgcttcTttagctgtactagtacccaa	11	15	5	10	0	1	0	0	0	1	0	2	0	2	0	2	0	4	5	2	0	8	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:25668765T>A	uc011awn.1	-	16	1972	c.1929A>T	c.(1927-1929)AAA>AAT	p.K643N	TOP2B_uc003cdj.2_Missense_Mutation_p.K638N	NM_001068	NP_001059	Q02880	TOP2B_HUMAN	DNA topoisomerase II, beta isozyme	643					DNA topological change|DNA-dependent DNA replication|mitotic cell cycle G2/M transition decatenation checkpoint|mitotic recombination|resolution of meiotic recombination intermediates|sister chromatid segregation	cytosol|DNA topoisomerase complex (ATP-hydrolyzing)|nucleolus|nucleoplasm|synaptonemal complex|WINAC complex	ATP binding|chromatin binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA-dependent ATPase activity|histone deacetylase binding|protein C-terminus binding|protein heterodimerization activity|protein kinase C binding|sequence-specific DNA binding transcription factor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						CCTTTGCTTCTTTAGCTGTAC	0.338													48	176					0	0	0.01441	0	0		A	25668765	A	A	25668765	3	1	157	1	0	0	0	0	1	0	0	0	16392	1606	56	5	3035	5	TOP2B	3	25668765	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	17935	25668765	172353665	245	85805											
RBMS3	27303	broad.mit.edu	37	chr3	29938929	29938929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gattccacagacatctatcaCgccattcattgctgcttccc	9	12	5	15	1	3	1	2	0	1	1	5	2	5	1	3	0	2	2	3	0	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:29938929C>T	uc003cel.2	+	9	1081	c.851C>T	c.(850-852)ACG>ATG	p.T284M	RBMS3_uc003cek.2_Missense_Mutation_p.T284M|RBMS3_uc010hfq.2_Missense_Mutation_p.T297M|RBMS3_uc003cem.2_Missense_Mutation_p.T283M|RBMS3_uc010hfr.2_Missense_Mutation_p.T284M	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	284						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				ACATCTATCACGCCATTCATT	0.418													36	219					0	0	0.010771	0	0		T	29938929	T	T	29938929	3	4	157	1	0	0	0	0	1	0	0	0	13175	536	19	1	928	1	RBMS3	3	29938929	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4270164	29938929	168083501	246	85806											
TRIM71	131405	broad.mit.edu	37	chr3	32932817	32932817	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactacccttgggatgtggcGgtgaattctgagggcaagat	10	10	14	7	1	1	3	0	2	1	1	1	4	1	4	1	4	2	1	1	4	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:32932817G>A	uc003cff.2	+	4	2184	c.2121G>A	c.(2119-2121)GCG>GCA	p.A707A		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	707	NHL 3.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						GGGATGTGGCGGTGAATTCTG	0.522													15	48					0	0	0.003163	0	0		A	32932817	A	A	32932817	2	1	157	1	0	0	0	0	0	0	0	1	16570	1103	39	1		1	TRIM71	3	32932817	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2993888	32932817	165089613	247	85807											
CLASP2	23122	broad.mit.edu	37	chr3	33543196	33543196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagttcatcaccaattaccGcatgaacagccaccaggcag	13	8	7	13	1	2	1	2	1	0	0	2	1	2	1	4	1	3	3	4	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:33543196G>A	uc003cfu.2	-	37	4736	c.4382C>T	c.(4381-4383)GCG>GTG	p.A1461V	CLASP2_uc003cfs.2_Missense_Mutation_p.A668V|CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	1470										ovary(3)|central_nervous_system(1)	4						ACCAATTACCGCATGAACAGC	0.438													20	131					0	0	0.014323	0	0		A	33543196	A	A	33543196	3	1	157	1	0	0	0	0	1	0	0	0	3458	1087	38	1	146	1	CLASP2	3	33543196	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	610379	33543196	164479234	248	85808											
CLASP2	23122	broad.mit.edu	37	chr3	33729800	33729800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcaataagacacagacacaCgccttctcgagatcgaaaat	16	8	6	11	3	2	3	1	0	1	3	4	5	2	3	1	0	0	0	1	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:33729800C>T	uc003cfu.2	-	4	793	c.439G>A	c.(439-441)GTG>ATG	p.V147M	CLASP2_uc010hgb.2_RNA	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	147										ovary(3)|central_nervous_system(1)	4						CACAGACACACGCCTTCTCGA	0.303													4	15					0	0	0.009096	0	0		T	33729800	T	T	33729800	3	4	157	1	0	0	0	0	1	0	0	0	3458	536	19	1	4221	1	CLASP2	3	33729800	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	186604	33729800	164292630	249	85809											
TRANK1	9881	broad.mit.edu	37	chr3	36874710	36874710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcaatacttggcatccaCctgggaaatcccaaaaaact	14	8	7	12	0	0	0	0	0	0	0	2	1	2	1	3	3	2	2	3	3	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:36874710C>T	uc003cgj.2	-	12	4884	c.4582G>A	c.(4582-4584)GTG>ATG	p.V1528M		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2078					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TTGGCATCCACCTGGGAAATC	0.418													12	48					0	0	0.010729	0	0		T	36874710	T	T	36874710	3	4	157	1	0	0	0	0	1	0	0	0	16480	507	18	4	2557	4	TRANK1	3	36874710	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3144910	36874710	161147720	250	85810											
TRANK1	9881	broad.mit.edu	37	chr3	36897192	36897192	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaatcagtgcagggttgtAggcagtcctccctttggtca	8	11	11	11	0	2	0	2	0	0	0	4	0	4	0	3	3	1	4	3	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:36897192A>G	uc003cgj.2	-	3	2541	c.2239T>C	c.(2239-2241)TAC>CAC	p.Y747H		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1297					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						GCAGGGTTGTAGGCAGTCCTC	0.453													76	323					0	0	0.01441	0	0		G	36897192	G	G	36897192	3	3	157	1	0	0	0	0	1	0	0	0	16480	420	15	3	4936	3	TRANK1	3	36897192	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	22482	36897192	161125238	251	85811											
LRRFIP2	9209	broad.mit.edu	37	chr3	37162993	37162993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaataccaaccctgtgactgCcaacacttcgaatggacaat	15	8	6	12	1	0	1	0	1	0	0	1	3	0	2	3	1	4	0	3	1	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:37162993C>T	uc003cgp.2	-	7	743	c.320G>A	c.(319-321)GGC>GAC	p.G107D	LRRFIP2_uc011ayf.1_Missense_Mutation_p.G90D|LRRFIP2_uc003cgr.2_Intron|LRRFIP2_uc003cgs.3_Intron|LRRFIP2_uc003cgt.3_Intron	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	107	DVL3-binding.				Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						CCTGTGACTGCCAACACTTCG	0.358													5	81					0	0	0.001168	0	0		T	37162993	T	T	37162993	3	4	157	1	0	0	0	0	1	0	0	0	9046	739	26	2	1937	2	LRRFIP2	3	37162993	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	265801	37162993	160859437	252	85812											
GOLGA4	2803	broad.mit.edu	37	chr3	37292888	37292888	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataatttttaaatctaggcGtcctccaattcttcaacacc	13	14	3	11	1	3	0	1	0	2	0	5	0	5	0	3	1	1	0	3	1	7	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:37292888G>A	uc003cgv.2	+	2	379	c.75G>A	c.(73-75)GCG>GCA	p.A25A	GOLGA4_uc010hgr.1_Silent_p.A25A|GOLGA4_uc003cgw.2_Silent_p.A25A|GOLGA4_uc010hgs.2_Silent_p.A25A|GOLGA4_uc003cgu.1_Silent_p.A25A	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	25					Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						AAATCTAGGCGTCCTCCAATT	0.388													10	87					0	0	0.006214	0	0		A	37292888	A	A	37292888	2	1	157	1	0	0	0	0	0	0	0	1	6570	1132	40	1		1	GOLGA4	3	37292888	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	129895	37292888	160729542	253	85813											
VILL	50853	broad.mit.edu	37	chr3	38037234	38037234	+	Missense_Mutation	SNP	A	G	G	1	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	gctattcccacctcagctacAggaagggaggcctagcatct	10	8	10	13	0	2	0	1	0	1	0	3	2	3	2	3	3	3	3	3	3	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:38037234A>G	uc003chj.2	+	5	632	c.346A>G	c.(346-348)AGG>GGG	p.R116G	VILL_uc003chk.1_Missense_Mutation_p.R116G|VILL_uc003chl.2_Missense_Mutation_p.R116G|VILL_uc010hgu.2_5'UTR	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	116					actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		CCTCAGCTACAGGAAGGGAGG	0.507													15	71					0	0	0.00245	0	0		G	38037234	G	G	38037234	3	3	157	1	0	0	0	0	1	0	0	0	17191	179	7	3	360	3	VILL	3	38037234	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	744346	38037234	159985196	254	85814											
SCN5A	6331	broad.mit.edu	37	chr3	38601896	38601896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgatggacgggatggcGcccaccagggcattgaccac	9	7	13	12	2	1	2	1	2	0	0	1	4	1	4	3	4	0	1	3	4	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:38601896G>A	uc003cio.2	-	23	4181	c.3987C>T	c.(3985-3987)GGC>GGT	p.G1329G	SCN5A_uc003cin.2_Silent_p.G1328G|SCN5A_uc003cil.3_Silent_p.G1329G|SCN5A_uc010hhi.2_Silent_p.G1329G|SCN5A_uc010hhk.2_Silent_p.G1328G|SCN5A_uc011ayr.1_Silent_p.G1275G|SCN5A_uc010hhj.1_Silent_p.G939G	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1329					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	ACGGGATGGCGCCCACCAGGG	0.592													6	42					0	0	0.001984	0	0		A	38601896	A	A	38601896	2	1	157	1	0	0	0	0	0	0	0	1	13947	1074	38	1		1	SCN5A	3	38601896	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	564662	38601896	159420534	255	85815											
SCN5A	6331	broad.mit.edu	37	chr3	38608015	38608015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catatgtgaacatcttgtcgGcatactcaagcagaaccttg	12	11	8	10	1	2	2	1	1	1	1	3	2	2	2	1	1	4	2	1	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:38608015G>A	uc003cio.2	-	21	3919	c.3725C>T	c.(3724-3726)GCC>GTC	p.A1242V	SCN5A_uc003cin.2_Missense_Mutation_p.A1241V|SCN5A_uc003cil.3_Missense_Mutation_p.A1242V|SCN5A_uc010hhi.2_Missense_Mutation_p.A1242V|SCN5A_uc010hhk.2_Missense_Mutation_p.A1241V|SCN5A_uc011ayr.1_Missense_Mutation_p.A1188V|SCN5A_uc010hhj.1_Missense_Mutation_p.A852V	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1242	Helical; Name=S2 of repeat III; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CATCTTGTCGGCATACTCAAG	0.537													35	136					0	0	0.003271	0	0		A	38608015	A	A	38608015	3	1	157	1	0	0	0	0	1	0	0	0	13947	1203	42	2	2357	2	SCN5A	3	38608015	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6119	38608015	159414415	256	85816											
SCN5A	6331	broad.mit.edu	37	chr3	38620974	38620974	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctctgggccaccggacacagGctgggattcctgctgaaaag	9	7	13	12	1	1	1	0	1	1	0	2	3	2	3	3	4	1	2	3	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:38620974G>C	uc003cio.2	-	18	3435	c.3241C>G	c.(3241-3243)CCT>GCT	p.P1081A	SCN5A_uc003cin.2_Missense_Mutation_p.P1080A|SCN5A_uc003cil.3_Missense_Mutation_p.P1081A|SCN5A_uc010hhi.2_Missense_Mutation_p.P1081A|SCN5A_uc010hhk.2_Missense_Mutation_p.P1080A|SCN5A_uc011ayr.1_Intron|SCN5A_uc010hhj.1_Missense_Mutation_p.P691A	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1081					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CCGGACACAGGCTGGGATTCC	0.657													6	17					0	0	0.00308	0	0		C	38620974	C	C	38620974	3	2	157	1	0	0	0	0	1	0	0	0	13947	1203	42	5	2853	5	SCN5A	3	38620974	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	12959	38620974	159401456	257	85817											
SCN5A	6331	broad.mit.edu	37	chr3	38639229	38639229	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcccttaccaggtttccGacctgcagcatctcctcgaa	8	9	8	16	2	1	0	0	0	1	0	4	2	2	0	5	1	4	4	5	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:38639229G>A	uc003cio.2	-	14	2447	c.2253C>T	c.(2251-2253)GTC>GTT	p.V751V	SCN5A_uc003cin.2_Silent_p.V751V|SCN5A_uc003cil.3_Silent_p.V751V|SCN5A_uc010hhi.2_Silent_p.V751V|SCN5A_uc010hhk.2_Silent_p.V751V|SCN5A_uc011ayr.1_Silent_p.V751V|SCN5A_uc010hhj.1_Silent_p.V362V	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	751	Helical; Name=S2 of repeat II; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CCAGGTTTCCGACCTGCAGCA	0.547													24	80					0	0	0.00333	0	0		A	38639229	A	A	38639229	2	1	157	1	0	0	0	0	0	0	0	1	13947	1045	37	1		1	SCN5A	3	38639229	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	18255	38639229	159383201	258	85818											
SCN10A	6336	broad.mit.edu	37	chr3	38739639	38739639	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctacggctgggctcccacagTcccctctggtgccattgctg	4	10	11	16	1	1	0	0	0	1	0	3	0	3	0	4	3	3	3	4	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:38739639T>C	uc003ciq.2	-	27	5072	c.5072A>G	c.(5071-5073)GAC>GGC	p.D1691G		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1691	IV.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GCTCCCACAGTCCCCTCTGGT	0.572													18	70					0	0	0.008871	0	0		C	38739639	C	C	38739639	3	2	157	1	0	0	0	0	1	0	0	0	13937	1667	58	3	802	3	SCN10A	3	38739639	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	100410	38739639	159282791	259	85819											
CX3CR1	1524	broad.mit.edu	37	chr3	39307753	39307753	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agtgagtccagaagggcaaaGtggctacaaacagcagatca	16	5	12	8	0	1	3	1	1	0	2	2	3	2	3	1	2	3	3	1	2	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:39307753G>A	uc003cjl.2	-	2	340	c.248C>T	c.(247-249)ACT>ATT	p.T83I		NM_001337	NP_001328	P49238	CX3C1_HUMAN	chemokine (C-X3-C motif) receptor 1	83	Helical; Name=2; (Potential).				cell adhesion|cellular defense response|chemotaxis|interspecies interaction between organisms|response to wounding	integral to plasma membrane	chemokine receptor activity			lung(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0557)|Kidney(284;0.0699)		GAAGGGCAAAGTGGCTACAAA	0.473													10	149					0	0	0.008291	0	0		A	39307753	A	A	39307753	3	1	157	1	0	0	0	0	1	0	0	0	4078	1029	36	4	823	4	CX3CR1	3	39307753	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	568114	39307753	158714677	260	85820											
MYRIP	25924	broad.mit.edu	37	chr3	40251387	40251387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacatcagcaatgaggctCgggatccccagactctcaca	12	6	9	14	1	2	3	2	1	1	2	5	4	3	4	2	2	1	2	2	2	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:40251387C>T	uc003cka.2	+	11	1843	c.1708C>T	c.(1708-1710)CGG>TGG	p.R570W	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Missense_Mutation_p.R570W|MYRIP_uc010hhw.2_Missense_Mutation_p.R481W|MYRIP_uc011ayz.1_Missense_Mutation_p.R383W|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	570	Actin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		CAATGAGGCTCGGGATCCCCA	0.478													27	96					0	0	0.004656	0	0		T	40251387	T	T	40251387	3	4	157	1	0	0	0	0	1	0	0	0	10118	875	31	1	1746	1	MYRIP	3	40251387	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	943634	40251387	157771043	261	85821											
HHATL	57467	broad.mit.edu	37	chr3	42740589	42740589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagagggcaaagatgatgaCgttgcgaaaggaggtgaacc	14	5	17	5	2	0	5	0	3	0	2	0	8	0	6	1	4	2	2	1	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:42740589C>T	uc003clw.2	-	5	370	c.223G>A	c.(223-225)GTC>ATC	p.V75I	HHATL_uc003clx.2_Missense_Mutation_p.V75I	NM_020707	NP_065758	Q9HCP6	HHATL_HUMAN	hedgehog acyltransferase-like	75	Helical; (Potential).				negative regulation of N-terminal protein palmitoylation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm				ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.215)		AAGATGATGACGTTGCGAAAG	0.612													21	79					0	0	0.012319	0	0		T	42740589	T	T	42740589	3	4	157	1	0	0	0	0	1	0	0	0	7106	536	19	1	1327	1	HHATL	3	42740589	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2489202	42740589	155281841	262	85822											
ZNF167	55888	broad.mit.edu	37	chr3	44612251	44612251	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccacactggggagaagcCttatgagtgtagtgaatgtg	12	10	13	6	0	0	3	0	2	0	1	1	4	1	3	2	2	1	1	2	2	5	2	rs145479931	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:44612251C>A	uc010hin.2	+	6	2037	c.1649C>A	c.(1648-1650)CCT>CAT	p.P550H	ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.P550H|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	550					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		GGGGAGAAGCCTTATGAGTGT	0.433													42	162					6.5261e-18	7.18595e-18	0.00874	1	0		A	44612251	A	A	44612251	3	1	157	1	0	0	0	0	1	0	0	0	17766	681	24	5	1667	5	ZNF167	3	44612251	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1871662	44612251	153410179	263	85823											
FYCO1	79443	broad.mit.edu	37	chr3	46008705	46008705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgcagctgctgacactcGccctccttgctctgtagaat	6	11	8	16	2	1	2	0	1	1	1	4	2	3	2	3	0	3	5	3	0	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:46008705G>A	uc003cpb.3	-	8	2327	c.2121C>T	c.(2119-2121)GGC>GGT	p.G707G	FYCO1_uc011bal.1_Silent_p.G707G	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	707	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCTGACACTCGCCCTCCTTGC	0.612													18	213					0	0	0.012319	0	0		A	46008705	A	A	46008705	2	1	157	1	0	0	0	0	0	0	0	1	6139	1074	38	1		1	FYCO1	3	46008705	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1396454	46008705	152013725	264	85824											
LTF	4057	broad.mit.edu	37	chr3	46482949	46482949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatctttcacaaatgcaaCgtctccagcattctcagcca	12	10	5	14	1	4	0	2	0	3	0	6	1	4	0	2	0	4	2	2	0	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:46482949C>T	uc003cpq.2	-	14	1719	c.1681G>A	c.(1681-1683)GTT>ATT	p.V561I	LTF_uc003fzr.2_Missense_Mutation_p.V517I|LTF_uc010hjh.2_Missense_Mutation_p.V559I|LTF_uc003cpr.2_Missense_Mutation_p.V548I	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	561	Transferrin-like 2.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	ACAAATGCAACGTCTCCAGCA	0.393													39	102					0	0	0.007835	0	0		T	46482949	T	T	46482949	3	4	157	1	0	0	0	0	1	0	0	0	9097	536	19	1	467	1	LTF	3	46482949	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	474244	46482949	151539481	265	85825											
SCAP	22937	broad.mit.edu	37	chr3	47462130	47462130	+	Missense_Mutation	SNP	A	T	T	1	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	ccgcaggtttcggaaggaagAcggctgcaacgtgatggtgt	9	8	16	8	4	0	2	0	1	0	1	1	4	0	4	1	5	2	4	1	5	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:47462130A>T	uc003crh.1	-	12	1732	c.1477T>A	c.(1477-1479)TCT>ACT	p.S493T	SCAP_uc011baz.1_Missense_Mutation_p.S238T|SCAP_uc003crg.2_Missense_Mutation_p.S101T	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	493	Cytoplasmic (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		CGGAAGGAAGACGGCTGCAAC	0.667											OREG0015548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	22					0	0	0.010729	0	0		T	47462130	T	T	47462130	3	4	157	1	0	0	0	0	1	0	0	0	13902	275	10	5	2410	5	SCAP	3	47462130	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	979181	47462130	150560300	266	85826											
SCAP	22937	broad.mit.edu	37	chr3	47467488	47467488	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctccctgccatgaacctacgCgtggagaagtagatgtaggc	10	8	12	11	2	0	3	0	1	0	2	1	4	1	3	3	2	3	2	3	2	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:47467488C>T	uc003crh.1	-	7	1164	c.909G>A	c.(907-909)ACG>ACA	p.T303T	SCAP_uc011baz.1_Silent_p.T48T|SCAP_uc003crg.2_Intron	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	303	Cytoplasmic (By similarity).|SSD.				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		TGAACCTACGCGTGGAGAAGT	0.557													5	34					0	0	0.001168	0	0		T	47467488	T	T	47467488	2	4	157	1	0	0	0	0	0	0	0	1	13902	782	27	1		1	SCAP	3	47467488	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5358	47467488	150554942	267	85827											
CSPG5	10675	broad.mit.edu	37	chr3	47619165	47619165	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagggcctgggcatcgccGctgcccgcctctgcggtcac	4	6	15	16	4	2	0	1	0	1	0	3	1	2	1	4	4	2	2	4	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:47619165G>A	uc003crp.3	-	2	527	c.351C>T	c.(349-351)AGC>AGT	p.S117S	CSPG5_uc003crn.2_5'UTR|CSPG5_uc003cro.3_Silent_p.S117S|CSPG5_uc011bbb.1_5'UTR	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	117	Extracellular (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GGGCATCGCCGCTGCCCGCCT	0.692													21	42					0	0	0.00333	0	0		A	47619165	A	A	47619165	2	1	157	1	0	0	0	0	0	0	0	1	3964	1078	38	1		1	CSPG5	3	47619165	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	151677	47619165	150403265	268	85828											
CELSR3	1951	broad.mit.edu	37	chr3	48698284	48698284	+	Missense_Mutation	SNP	A	G	G	1	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	tctcgccagtgaggctgtcgAtggcaaagtgtccacggcta	8	9	13	11	3	1	1	0	1	1	0	4	2	2	1	2	3	0	3	2	3	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:48698284A>G	uc003cul.2	-	1	2065	c.1784T>C	c.(1783-1785)ATC>ACC	p.I595T	CELSR3_uc003cuf.1_Missense_Mutation_p.I665T	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	595	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GAGGCTGTCGATGGCAAAGTG	0.607													7	44					0	0	0.00308	0	0		G	48698284	G	G	48698284	3	3	157	1	0	0	0	0	1	0	0	0	3226	333	12	3	8294	3	CELSR3	3	48698284	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1079119	48698284	149324146	269	85829											
CCDC71	64925	broad.mit.edu	37	chr3	49201445	49201445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccatagacatcaccactgCgcaggatggtaggttggaag	12	7	13	9	1	1	1	1	0	0	1	1	3	1	3	2	4	2	3	2	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:49201445C>T	uc003cwg.3	-	2	335	c.197G>A	c.(196-198)CGC>CAC	p.R66H		NM_022903	NP_075054	Q8IV32	CCD71_HUMAN	coiled-coil domain containing 71	66										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		ATCACCACTGCGCAGGATGGT	0.557													26	87					0	0	0.003954	0	0		T	49201445	T	T	49201445	3	4	157	1	0	0	0	0	1	0	0	0	2847	768	27	1	1210	1	CCDC71	3	49201445	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	503161	49201445	148820985	270	85830											
KLHDC8B	200942	broad.mit.edu	37	chr3	49212181	49212181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattccattgacagggggccGccagggcaagctcccggtga	9	6	14	12	2	0	2	0	2	0	0	2	2	2	2	4	4	1	2	4	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:49212181G>A	uc003cwh.2	+	4	733	c.548G>A	c.(547-549)CGC>CAC	p.R183H	KLHDC8B_uc003cwi.1_Missense_Mutation_p.R56H	NM_173546	NP_775817	Q8IXV7	KLD8B_HUMAN	kelch domain containing 8B	183	Kelch 5.					cytoplasm					0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		ACAGGGGGCCGCCAGGGCAAG	0.622													8	27					0	0	0.00308	0	0		A	49212181	A	A	49212181	3	1	157	1	0	0	0	0	1	0	0	0	8379	1087	38	1	558	1	KLHDC8B	3	49212181	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	10736	49212181	148810249	271	85831											
USP4	7375	broad.mit.edu	37	chr3	49332009	49332009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacacattccgagccatccaCggaagtgctgcagacctcgt	10	7	10	14	3	0	1	0	0	0	1	3	4	2	2	4	1	3	2	4	1	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:49332009C>T	uc003cwq.2	-	14	1793	c.1714G>A	c.(1714-1716)GTG>ATG	p.V572M	USP4_uc003cwo.2_Missense_Mutation_p.V284M|USP4_uc003cwp.2_Missense_Mutation_p.V302M|USP4_uc003cwr.2_Missense_Mutation_p.V525M	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	572					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		GAGCCATCCACGGAAGTGCTG	0.532													12	77					0	0	0.00245	0	0		T	49332009	T	T	49332009	3	4	157	1	0	0	0	0	1	0	0	0	17097	536	19	1	1213	1	USP4	3	49332009	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	119828	49332009	148690421	272	85832											
DAG1	1605	broad.mit.edu	37	chr3	49548116	49548116	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaaccagcttgaggcatccaTgcactcagtgctctcagacc	11	8	8	14	0	2	2	2	1	1	1	4	2	3	2	3	1	4	4	3	1	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:49548116T>C	uc003cxc.3	+	2	567	c.149T>C	c.(148-150)ATG>ACG	p.M50T		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	50	Required for laminin recognition.|O-glycosylated at one site.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GAGGCATCCATGCACTCAGTG	0.577													20	61					0	0	0.012319	0	0		C	49548116	C	C	49548116	3	2	157	1	0	0	0	0	1	0	0	0	4228	1464	51	3	151	3	DAG1	3	49548116	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	216107	49548116	148474314	273	85833											
APEH	327	broad.mit.edu	37	chr3	49713595	49713595	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tttcagaccaaagccttggaCgtcagtgccagcgatgatga	11	9	11	10	2	2	3	2	2	0	1	2	5	2	4	3	1	3	0	3	1	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:49713595C>T	uc003cxf.2	+	6	949	c.549C>T	c.(547-549)GAC>GAT	p.D183D	APEH_uc010hkw.1_Silent_p.D183D	NM_001640	NP_001631	P13798	ACPH_HUMAN	N-acylaminoacyl-peptide hydrolase	183					proteolysis	cytoplasm|nuclear membrane	serine-type endopeptidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		AAGCCTTGGACGTCAGTGCCA	0.587													17	63					0	0	0.00499	0	0		T	49713595	T	T	49713595	2	4	157	1	0	0	0	0	0	0	0	1	768	535	19	1		1	APEH	3	49713595	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	165479	49713595	148308835	274	85834											
MST1	4485	broad.mit.edu	37	chr3	49723549	49723549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtagcaaaaggccgcgcGcatgccgggccgcagtgtga	8	5	16	12	5	0	1	0	1	0	0	0	1	0	1	3	3	2	4	3	3	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:49723549G>A	uc003cxg.2	-	9	1165	c.1093C>T	c.(1093-1095)CGC>TGC	p.R365C	MST1_uc011bcs.1_Silent_p.C403C|MST1_uc010hkx.2_3'UTR|MST1_uc011bct.1_3'UTR	NM_020998	NP_066278	P26927	HGFL_HUMAN	macrophage stimulating 1 (hepatocyte growth	351	Kringle 3.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		AAGGCCGCGCGCATGCCGGGC	0.672													3	14					0	0	0.004672	0	0		A	49723549	A	A	49723549	3	1	157	1	0	0	0	0	1	0	0	0	9908	1087	38	1	1124	1	MST1	3	49723549	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	9954	49723549	148298881	275	85835											
MST1R	4486	broad.mit.edu	37	chr3	49936356	49936356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acgactgacatcccgctgcaCgggctgcccactgtcaccca	8	6	9	18	3	1	1	1	1	0	0	2	2	2	1	3	1	2	3	3	1	0	0	rs148258933		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:49936356C>T	uc003cxy.3	-	3	1756	c.1492G>A	c.(1492-1494)GTG>ATG	p.V498M	MST1R_uc011bdd.1_Missense_Mutation_p.V498M|MST1R_uc011bde.1_Missense_Mutation_p.V498M|MST1R_uc011bdf.1_Intron|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	498	Extracellular (Potential).|Sema.				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		TCCCGCTGCACGGGCTGCCCA	0.592													6	125					0	0	0.001168	0	0		T	49936356	T	T	49936356	3	4	157	1	0	0	0	0	1	0	0	0	9909	536	19	1	2782	1	MST1R	3	49936356	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	212807	49936356	148086074	276	85836											
RBM5	10181	broad.mit.edu	37	chr3	50155809	50155809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctaggagccaaaggcagcGcatatggtttgtcgggcgcc	8	7	15	11	3	0	0	0	0	0	0	1	1	0	1	3	4	2	3	3	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:50155809G>A	uc003cyg.2	+	25	2516	c.2368G>A	c.(2368-2370)GCA>ACA	p.A790T	RBM5_uc011bdk.1_Missense_Mutation_p.A618T|RBM5_uc003cyh.2_Missense_Mutation_p.A247T|uc003cyi.1_Intron	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	790	Required for interaction with U2AF2.				apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAAAGGCAGCGCATATGGTTT	0.498													4	41					0	0	0.009096	0	0		A	50155809	A	A	50155809	3	1	157	1	0	0	0	0	1	0	0	0	13168	1087	38	1	2462	1	RBM5	3	50155809	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	219453	50155809	147866621	277	85837											
VPRBP	9730	broad.mit.edu	37	chr3	51458110	51458110	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtttactgatgatctgccGgacagtgctactgcgagaca	10	10	11	10	2	1	3	0	2	1	1	1	5	1	4	1	1	5	2	1	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:51458110G>T	uc003dbe.1	-	14	2482	c.2314C>A	c.(2314-2316)CGG>AGG	p.R772R	VPRBP_uc003dbf.1_Silent_p.R48R	NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	772					interspecies interaction between organisms	cytoplasm|nucleus	protein binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000272)|Kidney(197;0.000729)|KIRC - Kidney renal clear cell carcinoma(197;0.000875)		ATGATCTGCCGGACAGTGCTA	0.557													36	117					4.92203e-23	5.46604e-23	0.00623	1	0		T	51458110	T	T	51458110	2	4	157	1	0	0	0	0	0	0	0	1	17211	1115	39	5		5	VPRBP	3	51458110	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1302301	51458110	146564320	278	85838											
STAB1	23166	broad.mit.edu	37	chr3	52551965	52551965	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccagaggacatgtacctgCgacacagcccacaccgtggg	10	4	13	14	2	0	1	0	0	0	1	0	3	0	2	4	3	3	1	4	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:52551965C>T	uc003dej.2	+	45	4781	c.4707C>T	c.(4705-4707)TGC>TGT	p.C1569C	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1569	Extracellular (Potential).|EGF-like 13.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CATGTACCTGCGACACAGCCC	0.602													18	73					0	0	0.007413	0	0		T	52551965	T	T	52551965	2	4	157	1	0	0	0	0	0	0	0	1	15262	776	27	1		1	STAB1	3	52551965	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1093855	52551965	145470465	279	85839											
PDHB	5162	broad.mit.edu	37	chr3	58414314	58414314	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctatggtttccatgtccaTtggtctaatggtacgcatat	8	17	8	8	1	2	0	0	0	2	0	4	0	4	0	2	3	1	3	2	3	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:58414314T>C	uc003dkf.3	-	9	849	c.820A>G	c.(820-822)ATG>GTG	p.M274V	PDHB_uc003dke.3_Missense_Mutation_p.M232V|PDHB_uc003dkg.3_Missense_Mutation_p.M256V|PDHB_uc010hnl.2_Missense_Mutation_p.M256V|PDHB_uc011bff.1_Missense_Mutation_p.M256V	NM_000925	NP_000916	P11177	ODPB_HUMAN	pyruvate dehydrogenase (lipoamide) beta	274					glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(55;0.000179)|Kidney(10;0.00231)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.187)	NADH(DB00157)|Pyruvic acid(DB00119)	TCCATGTCCATTGGTCTAATG	0.408													26	88					0	0	0.00333	0	0		C	58414314	C	C	58414314	3	2	157	1	0	0	0	0	1	0	0	0	11685	1493	52	3	267	3	PDHB	3	58414314	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5862349	58414314	139608116	280	85840											
CADPS	8618	broad.mit.edu	37	chr3	62423862	62423862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcggacgaaagtcacgtaggCgtcggccacgtccatcccgg	8	5	14	14	7	1	0	1	0	0	0	4	2	3	1	3	4	0	1	3	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:62423862C>T	uc003dll.2	-	28	4054	c.3694G>A	c.(3694-3696)GCC>ACC	p.A1232T	CADPS_uc003dlj.1_Missense_Mutation_p.A187T|CADPS_uc003dlk.1_Missense_Mutation_p.A680T|CADPS_uc003dlm.2_Missense_Mutation_p.A1193T|CADPS_uc003dln.2_Missense_Mutation_p.A1153T	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1232	Mediates targeting and association with DCVs (By similarity).				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		GTCACGTAGGCGTCGGCCACG	0.443													6	65					0	0	0.001168	0	0		T	62423862	T	T	62423862	3	4	157	1	0	0	0	0	1	0	0	0	2573	768	27	1	379	1	CADPS	3	62423862	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4009548	62423862	135598568	281	85841											
PRICKLE2	166336	broad.mit.edu	37	chr3	64133159	64133159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgccaattttggcactgCgccgggactccttggccctg	4	12	11	14	2	1	0	0	0	1	0	2	1	2	1	4	3	2	1	4	3	1	4	rs147289291	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:64133159C>T	uc003dmf.2	-	7	1593	c.1007G>A	c.(1006-1008)CGC>CAC	p.R336H		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	336						cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		TTTGGCACTGCGCCGGGACTC	0.587													53	187					0	0	0.01441	0	0		T	64133159	T	T	64133159	3	4	157	1	0	0	0	0	1	0	0	0	12509	768	27	1	1535	1	PRICKLE2	3	64133159	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1709297	64133159	133889271	282	85842											
ADAMTS9	56999	broad.mit.edu	37	chr3	64592738	64592738	+	Silent	SNP	T	A	A	0	1	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	gctcttagctggtatccctgTccacaagtgacactgcactg	8	11	9	13	0	1	1	0	1	1	0	3	1	3	1	2	1	2	4	2	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:64592738T>A	uc003dmg.2	-	23	3404	c.3372A>T	c.(3370-3372)GGA>GGT	p.G1124G	ADAMTS9_uc011bfo.1_Silent_p.G1096G|ADAMTS9_uc003dmh.1_Silent_p.G953G|ADAMTS9_uc011bfp.1_Silent_p.G35G	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1124	TSP type-1 6.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GGTATCCCTGTCCACAAGTGA	0.428													43	167					0	0	0.011902	0	0		A	64592738	A	A	64592738	2	1	157	1	0	0	0	0	0	0	0	1	273	1654	58	5		5	ADAMTS9	3	64592738	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	459579	64592738	133429692	283	85843											
EPHA3	2042	broad.mit.edu	37	chr3	89259309	89259309	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accattgcagctgatgaaagTttcactcaaatggatcttgg	12	12	9	8	0	3	2	2	2	1	0	3	3	3	3	1	2	2	3	1	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:89259309T>C	uc003dqy.2	+	3	678	c.453T>C	c.(451-453)AGT>AGC	p.S151S	EPHA3_uc003dqx.1_Silent_p.S151S|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	151	Extracellular (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CTGATGAAAGTTTCACTCAAA	0.408										TSP Lung(6;0.00050)			52	244					0	0	0.01441	0	0		C	89259309	C	C	89259309	2	2	157	1	0	0	0	0	0	0	0	1	5176	1722	60	3		3	EPHA3	3	89259309	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	24666571	89259309	108763121	284	85844											
GABRR3	200959	broad.mit.edu	37	chr3	97711889	97711889	+	Missense_Mutation	SNP	A	T	T	1	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	acatggtcagcactgtggtgAttcctgccatttgagaatag	10	12	11	8	0	1	2	1	2	0	1	2	3	2	2	2	2	2	1	2	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:97711889A>T	uc011bgr.1	-	8	911	c.911T>A	c.(910-912)ATC>AAC	p.I304N		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	304	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						CACTGTGGTGATTCCTGCCAT	0.502													21	50					0	0	0.014323	0	0		T	97711889	T	T	97711889	3	4	157	1	0	0	0	0	1	0	0	0	6192	333	12	5	499	5	GABRR3	3	97711889	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	8452580	97711889	100310541	285	85845											
IMPG2	50939	broad.mit.edu	37	chr3	100964765	100964765	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taacctctaaaacctctgggGaagagctgaggcccatcttc	11	9	9	12	0	3	2	0	1	3	1	4	3	3	3	3	3	3	1	3	3	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:100964765G>T	uc003duq.1	-	12	1627	c.1424C>A	c.(1423-1425)TCC>TAC	p.S475Y	IMPG2_uc011bhe.1_Missense_Mutation_p.S338Y	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	475	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AACCTCTGGGGAAGAGCTGAG	0.522													36	138					1.836e-18	2.0256e-18	0.003755	1	0		T	100964765	T	T	100964765	3	4	157	1	0	0	0	0	1	0	0	0	7745	1174	41	5	2333	5	IMPG2	3	100964765	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3252876	100964765	97057665	286	85846											
FAM55C	91775	broad.mit.edu	37	chr3	101520160	101520160	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtgacaggaattagcCgaaatccctactgtggctat	11	9	10	11	1	0	1	0	1	0	0	1	3	1	2	3	3	2	1	3	3	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:101520160C>T	uc003dvn.2	+	5	812	c.175C>T	c.(175-177)CGA>TGA	p.R59*	FAM55C_uc010hpn.2_Nonsense_Mutation_p.R59*	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	59						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						AGGAATTAGCCGAAATCCCTA	0.527													16	264					0	0	0.003163	0	0		T	101520160	T	T	101520160	4	4	157	1	0	0	0	0	0	1	0	0	5600	644	23	1	181	1	FAM55C	3	101520160	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	555395	101520160	96502270	287	85847											
FAM55C	91775	broad.mit.edu	37	chr3	101540650	101540650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggacaccatccttcggaGgatgttctcaggggttggag	7	10	15	9	1	1	0	1	0	1	0	4	4	2	4	2	6	0	3	2	6	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:101540650G>A	uc003dvn.2	+	8	2169	c.1532G>A	c.(1531-1533)AGG>AAG	p.R511K	FAM55C_uc010hpn.2_Missense_Mutation_p.R511K	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	511						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						ATCCTTCGGAGGATGTTCTCA	0.542													55	122					0	0	0.01441	0	0		A	101540650	A	A	101540650	3	1	157	1	0	0	0	0	1	0	0	0	5600	1000	35	4	1550	4	FAM55C	3	101540650	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	20490	101540650	96481780	288	85848											
TMPRSS7	344805	broad.mit.edu	37	chr3	111766741	111766741	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tcaagtccatccaaatcgaaGccgacaactgtgtcactgac	13	8	7	13	2	2	1	2	1	0	0	5	3	4	1	3	0	2	0	3	0	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:111766741G>A	uc010hqb.2	+	5	678	c.508G>A	c.(508-510)GCC>ACC	p.A170T	TMPRSS7_uc011bhr.1_Missense_Mutation_p.A25T	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	296	Extracellular (Potential).|CUB 1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						CCAAATCGAAGCCGACAACTG	0.522													21	90					0	0	0.012319	0	0		A	111766741	A	A	111766741	3	1	157	1	0	0	0	0	1	0	0	0	16277	971	34	2	522	2	TMPRSS7	3	111766741	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	10226091	111766741	86255689	289	85849											
KIAA2018	205717	broad.mit.edu	37	chr3	113375850	113375850	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcatttgttgctgcatctgcTgatggtggggatgtggctgg	4	14	17	6	0	1	1	0	1	1	0	1	2	1	2	0	5	3	6	0	5	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:113375850T>C	uc003eam.2	-	7	5090	c.4679A>G	c.(4678-4680)CAG>CGG	p.Q1560R	KIAA2018_uc003eal.2_Missense_Mutation_p.Q1504R	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1560	Gln-rich.				regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						CTGCATCTGCTGATGGTGGGG	0.517													18	97					0	0	0.004656	0	0		C	113375850	C	C	113375850	3	2	157	1	0	0	0	0	1	0	0	0	8284	1580	55	3	2062	3	KIAA2018	3	113375850	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1609109	113375850	84646580	290	85850											
KIAA1407	57577	broad.mit.edu	37	chr3	113753973	113753973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtactccagttctttctcaCgtcttaagcgattttctttt	6	19	6	10	2	4	0	1	0	4	0	6	1	5	0	1	1	2	2	1	1	2	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:113753973C>T	uc003eax.2	-	6	764	c.617G>A	c.(616-618)CGT>CAT	p.R206H	KIAA1407_uc011bin.1_RNA|KIAA1407_uc011bio.1_Missense_Mutation_p.R184H|KIAA1407_uc011bip.1_Missense_Mutation_p.R193H	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	206	Potential.									ovary(2)	2						TTCTTTCTCACGTCTTAAGCG	0.383													14	175					0	0	0.00245	0	0		T	113753973	T	T	113753973	3	4	157	1	0	0	0	0	1	0	0	0	8245	536	19	1	2241	1	KIAA1407	3	113753973	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	378123	113753973	84268457	291	85851											
ARHGAP31	57514	broad.mit.edu	37	chr3	119120974	119120974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtatgttctacacttcgaacGacagccctagcaaatccgtc	11	10	7	13	3	1	0	0	0	1	0	4	2	2	0	2	0	4	3	2	0	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:119120974G>A	uc003ecj.3	+	10	1907	c.1375G>A	c.(1375-1377)GAC>AAC	p.D459N		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	459					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						CACTTCGAACGACAGCCCTAG	0.592													13	140					0	0	0.00245	0	0		A	119120974	A	A	119120974	3	1	157	1	0	0	0	0	1	0	0	0	880	1058	37	1	1413	1	ARHGAP31	3	119120974	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5367001	119120974	78901456	292	85852											
GTF2E1	2960	broad.mit.edu	37	chr3	120469477	120469477	+	Nonsense_Mutation	SNP	T	G	G	0	1	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	tatgtgatccggggattttaTggcattgagcatgccttggc	7	14	13	7	1	0	2	0	2	0	0	1	3	1	3	2	4	2	2	2	4	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:120469477T>G	uc003edz.3	+	2	192	c.78T>G	c.(76-78)TAT>TAG	p.Y26*	GTF2E1_uc003edy.2_Nonsense_Mutation_p.Y26*	NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	26	HTH TFE/IIEalpha-type.				interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		GGGGATTTTATGGCATTGAGC	0.483													10	180					0	0	0.006214	0	0		G	120469477	G	G	120469477	4	3	157	1	0	0	0	0	0	1	0	0	6872	1471	51	5	80	5	GTF2E1	3	120469477	Nonsense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1348503	120469477	77552953	293	85853											
POLQ	10721	broad.mit.edu	37	chr3	121179017	121179017	+	Silent	SNP	A	G	G	1	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	acttgaatgagacgacgatcAtgggataaatgagccaagat	16	8	11	6	2	1	4	1	3	0	2	1	8	1	5	1	1	1	0	1	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:121179017A>G	uc003eee.3	-	25	7161	c.7032T>C	c.(7030-7032)CAT>CAC	p.H2344H	POLQ_uc003eed.2_Silent_p.H1516H	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2344					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		GACGACGATCATGGGATAAAT	0.443								DNA_polymerases_(catalytic_subunits)					26	97					0	0	0.003954	0	0		G	121179017	G	G	121179017	2	3	157	1	0	0	0	0	0	0	0	1	12227	214	8	3		3	POLQ	3	121179017	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	709540	121179017	76843413	294	85854											
POLQ	10721	broad.mit.edu	37	chr3	121206610	121206610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactatattactttctttaCgaggtaagagggatgaggtt	12	14	10	5	1	1	2	0	1	1	1	1	4	1	3	0	3	3	2	0	3	6	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:121206610C>T	uc003eee.3	-	16	5297	c.5168G>A	c.(5167-5169)CGT>CAT	p.R1723H	POLQ_uc003eed.2_Missense_Mutation_p.R895H	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1723					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		ACTTTCTTTACGAGGTAAGAG	0.373								DNA_polymerases_(catalytic_subunits)					22	171					0	0	0.012319	0	0		T	121206610	T	T	121206610	3	4	157	1	0	0	0	0	1	0	0	0	12227	536	19	1	2664	1	POLQ	3	121206610	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	27593	121206610	76815820	295	85855											
GOLGB1	2804	broad.mit.edu	37	chr3	121411357	121411357	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgttttccccctgtagagtaTcacagaccttctgctgaagc	8	13	8	12	0	2	3	1	1	1	2	3	3	3	3	3	0	2	4	3	0	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:121411357T>C	uc003eei.3	-	14	6965	c.6839A>G	c.(6838-6840)GAT>GGT	p.D2280G	GOLGB1_uc010hrc.2_Missense_Mutation_p.D2285G|GOLGB1_uc003eej.3_Missense_Mutation_p.D2246G	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2280	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTGTAGAGTATCACAGACCTT	0.453													8	135					0	0	0.004482	0	0		C	121411357	C	C	121411357	3	2	157	1	0	0	0	0	1	0	0	0	6580	1435	50	3	2976	3	GOLGB1	3	121411357	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	204747	121411357	76611073	296	85856											
HSPBAP1	79663	broad.mit.edu	37	chr3	122512524	122512524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtcgcctcggagcctgctgCcatggctaccgcaaggcggg	5	6	16	14	4	0	0	0	0	0	0	2	1	0	1	4	5	4	3	4	5	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:122512524C>T	uc003efu.1	-	1	127	c.4G>A	c.(4-6)GCA>ACA	p.A2T	DIRC2_uc003efw.3_5'Flank|DIRC2_uc010hrl.2_5'Flank|DIRC2_uc010hrm.2_5'Flank|HSPBAP1_uc003efv.1_Missense_Mutation_p.A2T	NM_024610	NP_078886	Q96EW2	HBAP1_HUMAN	Hspb associated protein 1	2						cytoplasm				ovary(1)|lung(1)	2				GBM - Glioblastoma multiforme(114;0.0531)		GAGCCTGCTGCCATGGCTACC	0.662													20	41					0	0	0.012213	0	0		T	122512524	T	T	122512524	3	4	157	1	0	0	0	0	1	0	0	0	7441	739	26	2	1494	2	HSPBAP1	3	122512524	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1101167	122512524	75509906	297	85857											
SEMA5B	54437	broad.mit.edu	37	chr3	122646807	122646807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgggtcataggggcagcggGccacaccattgatcttctca	8	9	13	11	1	3	1	2	1	2	0	4	1	3	1	2	4	1	1	2	4	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:122646807G>A	uc003efz.1	-	8	984	c.680C>T	c.(679-681)GCC>GTC	p.A227V	SEMA5B_uc011bju.1_Missense_Mutation_p.A169V|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.A227V|SEMA5B_uc010hro.1_Missense_Mutation_p.A169V|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	227	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GGGGCAGCGGGCCACACCATT	0.612													10	99					0	0	0.008291	0	0		A	122646807	A	A	122646807	3	1	157	1	0	0	0	0	1	0	0	0	14063	1203	42	2	2839	2	SEMA5B	3	122646807	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	134283	122646807	75375623	298	85858											
KALRN	8997	broad.mit.edu	37	chr3	124438126	124438126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatcttacaggaagattttCggaggcggcccacagcagcc	10	8	12	11	2	1	2	0	1	1	1	2	4	1	4	2	4	3	1	2	4	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:124438126C>T	uc003ehg.2	+	60	8897	c.8770C>T	c.(8770-8772)CGG>TGG	p.R2924W	KALRN_uc003ehk.2_Missense_Mutation_p.R1227W	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2923	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GGAAGATTTTCGGAGGCGGCC	0.532													18	61					0	0	0.012319	0	0		T	124438126	T	T	124438126	3	4	157	1	0	0	0	0	1	0	0	0	7991	875	31	1	9164	1	KALRN	3	124438126	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1791319	124438126	73584304	299	85859											
ITGB5	3693	broad.mit.edu	37	chr3	124578267	124578267	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctcagatcacaccgagaGgtgatggaccgtgggcttcc	8	7	13	13	2	2	3	2	1	0	2	3	5	3	4	4	3	0	1	4	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:124578267G>T	uc003eho.2	-	3	480	c.183C>A	c.(181-183)ACC>ACA	p.T61T		NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	61	Extracellular (Potential).|PSI.				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		CACACCGAGAGGTGATGGACC	0.572													19	65					1.01871e-10	1.09458e-10	0.008871	1	0		T	124578267	T	T	124578267	2	4	157	1	0	0	0	0	0	0	0	1	7914	987	35	5		5	ITGB5	3	124578267	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	140141	124578267	73444163	300	85860											
ZXDC	79364	broad.mit.edu	37	chr3	126185161	126185161	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacgagcggagaacctcgcGcaacatcctggaacaaaaag	15	4	10	12	4	0	1	0	0	0	1	2	4	1	2	2	2	5	1	2	2	6	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:126185161G>A	uc003eiv.2	-	5	1332	c.1278C>T	c.(1276-1278)TGC>TGT	p.C426C	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Silent_p.C426C	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	426	C2H2-type 9.				positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		AGAACCTCGCGCAACATCCTG	0.502													11	41					0	0	0.010729	0	0		A	126185161	A	A	126185161	2	1	157	1	0	0	0	0	0	0	0	1	18277	1079	38	1		1	ZXDC	3	126185161	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1606894	126185161	71837269	301	85861											
PLXNA1	5361	broad.mit.edu	37	chr3	126730890	126730890	+	Silent	SNP	G	A	A	0	0	1	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	gccgcacggaacctgccacaGccacagtcaggccagcgtgg	9	3	13	16	3	1	0	1	0	0	0	1	1	1	1	5	3	4	1	5	3	1	0	rs144586368		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:126730890G>A	uc003ejg.2	+	9	2137	c.2133G>A	c.(2131-2133)CAG>CAA	p.Q711Q		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	734	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACCTGCCACAGCCACAGTCAG	0.642													10	26					0	0	0.006122	0	0		A	126730890	A	A	126730890	2	1	157	1	0	0	0	0	0	0	0	1	12138	962	34	2		2	PLXNA1	3	126730890	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	545729	126730890	71291540	302	85862											
KBTBD12	166348	broad.mit.edu	37	chr3	127642914	127642914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aaataatactataattgtggCtggagaagcaagtgcctcta	15	11	9	6	0	1	1	0	0	1	1	1	2	1	1	1	2	3	2	1	2	8	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:127642914C>T	uc010hsr.2	+	1	1013	c.1010C>T	c.(1009-1011)GCT>GTT	p.A337V	KBTBD12_uc003ejy.3_Intron|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Intron|KBTBD12_uc003ejz.2_Missense_Mutation_p.A337V	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	337										ovary(1)	1						ATAATTGTGGCTGGAGAAGCA	0.358													36	146					0	0	0.004289	0	0		T	127642914	T	T	127642914	3	4	157	1	0	0	0	0	1	0	0	0	8007	797	28	2	1012	2	KBTBD12	3	127642914	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	912024	127642914	70379516	303	85863											
EEFSEC	60678	broad.mit.edu	37	chr3	128127069	128127069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actttcaagcgttatgtcttCgacacccacaagcgcatggt	10	11	8	12	3	2	0	1	0	1	0	3	1	2	0	1	1	2	2	1	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:128127069C>T	uc003eki.2	+	7	1796	c.1758C>T	c.(1756-1758)TTC>TTT	p.F586F	EEFSEC_uc003ekj.2_3'UTR	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	586						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						GTTATGTCTTCGACACCCACA	0.647													21	71					0	0	0.00278	0	0		T	128127069	T	T	128127069	2	4	157	1	0	0	0	0	0	0	0	1	4937	883	31	1		1	EEFSEC	3	128127069	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	484155	128127069	69895361	304	85864											
PLXND1	23129	broad.mit.edu	37	chr3	129290521	129290521	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggcggggtgccagtctcaccTgacagggctgcggcggggac	5	5	19	12	3	1	1	1	1	1	0	2	2	1	2	2	7	2	1	2	7	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:129290521T>C	uc003emx.2	-	16	3344	c.3244A>G	c.(3244-3246)AGT>GGT	p.S1082G		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1082	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CAGTCTCACCTGACAGGGCTG	0.657													25	56					0	0	0.003271	0	0		C	129290521	C	C	129290521	3	2	157	1	0	0	0	0	1	0	0	0	12146	1594	55	3	2617	3	PLXND1	3	129290521	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1163452	129290521	68731909	305	85865											
ACAD11	84129	broad.mit.edu	37	chr3	132324009	132324009	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccactgtttcttctgttcCtcacttccatacaggtgcag	7	14	7	13	0	3	0	1	0	2	0	5	0	5	0	3	1	3	3	3	1	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:132324009C>A	uc003eov.3	-	12	1835	c.1455G>T	c.(1453-1455)GAG>GAT	p.E485D	ACAD11_uc011blr.1_Missense_Mutation_p.E96D	NM_032169	NP_115545	Q709F0	ACD11_HUMAN	putative acyl-CoA dehydrogenase	485						peroxisome	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|transferase activity, transferring phosphorus-containing groups			ovary(1)	1						TCTTCTGTTCCTCACTTCCAT	0.403													19	113					1.9806e-07	2.09477e-07	0.014323	1	0		A	132324009	A	A	132324009	3	1	157	1	0	0	0	0	1	0	0	0	109	680	24	5	923	5	ACAD11	3	132324009	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3033488	132324009	65698421	306	85866											
CLSTN2	64084	broad.mit.edu	37	chr3	140251228	140251228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcctgtggtaaccttataCatggatggagcaacatatga	12	13	9	7	0	0	1	0	1	0	0	1	3	1	3	2	3	4	2	2	3	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:140251228C>T	uc003etn.2	+	9	1597	c.1407C>T	c.(1405-1407)TAC>TAT	p.Y469Y	CLSTN2_uc003etm.2_Silent_p.Y469Y	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	469	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TAACCTTATACATGGATGGAG	0.428										HNSCC(16;0.037)			33	144					0	0	0.010818	0	0		T	140251228	T	T	140251228	2	4	157	1	0	0	0	0	0	0	0	1	3565	489	17	4		4	CLSTN2	3	140251228	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7927219	140251228	57771202	307	85867											
CHST2	9435	broad.mit.edu	37	chr3	142840665	142840665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttggtgcgtgatccccgcgCggtggcgagttcacggatcc	4	9	15	13	6	1	1	1	1	0	0	3	3	3	2	3	4	1	1	3	4	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:142840665C>T	uc003evm.2	+	2	1896	c.1007C>T	c.(1006-1008)GCG>GTG	p.A336V		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	336	Lumenal (Potential).|PAPS (Probable).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						GATCCCCGCGCGGTGGCGAGT	0.667													4	21					0	0	0.000602	0	0		T	142840665	T	T	142840665	3	4	157	1	0	0	0	0	1	0	0	0	3407	768	27	1	1009	1	CHST2	3	142840665	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2589437	142840665	55181765	308	85868											
GYG1	2992	broad.mit.edu	37	chr3	148714687	148714687	+	Silent	SNP	T	C	C	0	1	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	gcttctgagcaaggtagtttTgatggtatgtatttgctatc	8	17	11	5	0	1	2	0	2	1	0	2	2	1	2	0	2	2	7	0	2	5	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:148714687T>C	uc003ewn.2	+	4	530	c.477T>C	c.(475-477)TTT>TTC	p.F159F	GYG1_uc011bnp.1_Intron|GYG1_uc003ewo.2_Silent_p.F159F|GYG1_uc003ewp.2_Silent_p.F159F	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	159					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			AAGGTAGTTTTGATGGTATGT	0.413													19	136					0	0	0.008871	0	0		C	148714687	C	C	148714687	2	2	157	1	0	0	0	0	0	0	0	1	6921	1809	63	3		3	GYG1	3	148714687	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5874022	148714687	49307743	309	85869											
FAM194A	131831	broad.mit.edu	37	chr3	150387141	150387141	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggaatccagcactgctaGgatagcagggttagtgggca	12	7	15	7	0	0	1	0	0	0	1	1	3	1	3	1	4	3	5	1	4	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:150387141G>T	uc003eyg.2	-	12	1498	c.1441C>A	c.(1441-1443)CTA>ATA	p.L481I	FAM194A_uc003eyh.2_Missense_Mutation_p.L335I	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	481										skin(2)|ovary(1)	3						AGCACTGCTAGGATAGCAGGG	0.463													37	147					2.42023e-17	2.65973e-17	0.003271	1	0		T	150387141	T	T	150387141	3	4	157	1	0	0	0	0	1	0	0	0	5537	991	35	5	562	5	FAM194A	3	150387141	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1672454	150387141	47635289	310	85870											
SGEF	26084	broad.mit.edu	37	chr3	153839836	153839836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagcataacccctttgtggCggaggcggtcgattcctcag	8	9	12	12	3	1	0	1	0	0	0	3	2	2	1	3	4	2	1	3	4	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:153839836C>T	uc011bog.1	+	2	266	c.55C>T	c.(55-57)CGG>TGG	p.R19W	uc003ezu.1_5'Flank|SGEF_uc011boh.1_Missense_Mutation_p.R19W	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	19					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CCCTTTGTGGCGGAGGCGGTC	0.607													8	25					0	0	0.004482	0	0		T	153839836	T	T	153839836	3	4	157	1	0	0	0	0	1	0	0	0	14230	759	27	1	57	1	SGEF	3	153839836	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3452695	153839836	44182594	311	85871											
PLCH1	23007	broad.mit.edu	37	chr3	155282736	155282736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagccctcttgcagcaccCgtgcatacatatccactttg	9	10	7	15	1	1	0	0	0	1	0	2	1	2	0	3	0	5	3	3	0	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:155282736C>T	uc011bok.1	-	7	1278	c.1001G>A	c.(1000-1002)CGG>CAG	p.R334Q	PLCH1_uc011boj.1_Missense_Mutation_p.R334Q|PLCH1_uc011bol.1_Missense_Mutation_p.R316Q	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	334	PI-PLC X-box.				lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TTGCAGCACCCGTGCATACAT	0.507													27	81					0	0	0.004656	0	0		T	155282736	T	T	155282736	3	4	157	1	0	0	0	0	1	0	0	0	12056	652	23	1	4163	1	PLCH1	3	155282736	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1442900	155282736	42739694	312	85872											
MFSD1	64747	broad.mit.edu	37	chr3	158537447	158537447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttatttagggggtataaCgtgtattctttcactaatct	9	20	7	5	1	3	0	1	0	2	0	3	0	3	0	0	2	1	2	0	2	6	11			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:158537447C>T	uc003fcl.1	+	8	692	c.662C>T	c.(661-663)ACG>ATG	p.T221M	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Missense_Mutation_p.T124M|MFSD1_uc011bow.1_Missense_Mutation_p.T182M|MFSD1_uc011box.1_Missense_Mutation_p.T148M	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	221	Helical; (Potential).				transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GGGGGTATAACGTGTATTCTT	0.343													12	62					0	0	0.010729	0	0		T	158537447	T	T	158537447	3	4	157	1	0	0	0	0	1	0	0	0	9545	536	19	1	839	1	MFSD1	3	158537447	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3254711	158537447	39484983	313	85873											
SI	6476	broad.mit.edu	37	chr3	164735854	164735854	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccataggaattaagtttgtActgaaatacgaaaaataagc	18	11	7	5	1	0	1	0	1	0	0	1	3	1	2	1	1	3	2	1	1	9	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:164735854A>G	uc003fei.2	-	29	3486	c.3424T>C	c.(3424-3426)TAC>CAC	p.Y1142H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1142	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTAAGTTTGTACTGAAATACG	0.308										HNSCC(35;0.089)			21	77					0	0	0.012319	0	0		G	164735854	G	G	164735854	3	3	157	1	0	0	0	0	1	0	0	0	14322	405	14	3	2139	3	SI	3	164735854	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6198407	164735854	33286576	314	85874											
WDR49	151790	broad.mit.edu	37	chr3	167272480	167272480	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cataatcatacctctcccagCctgtaaccagtattttcttc	10	14	3	14	0	3	0	1	0	2	0	5	0	3	0	4	0	3	2	4	0	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:167272480C>A	uc003fev.1	-	6	1064	c.758G>T	c.(757-759)GGC>GTC	p.G253V	WDR49_uc003feu.1_Missense_Mutation_p.G78V|WDR49_uc011bpd.1_Missense_Mutation_p.G306V|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	253										large_intestine(1)|ovary(1)|skin(1)	3						CCTCTCCCAGCCTGTAACCAG	0.328													19	154					3.99206e-14	4.33629e-14	0.007413	1	0		A	167272480	A	A	167272480	3	1	157	1	0	0	0	0	1	0	0	0	17328	739	26	5	1375	5	WDR49	3	167272480	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2536626	167272480	30749950	315	85875											
SAMD7	344658	broad.mit.edu	37	chr3	169642898	169642898	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagtggccagaaggaatgaAatgattcaacggcatcatac	15	7	11	8	1	2	3	2	2	0	1	2	4	2	4	1	3	2	2	1	3	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:169642898A>G	uc003fgd.2	+	5	531	c.264A>G	c.(262-264)GAA>GAG	p.E88E	SAMD7_uc003fge.2_Silent_p.E88E|SAMD7_uc011bpo.1_5'UTR	NM_182610	NP_872416	Q7Z3H4	SAMD7_HUMAN	sterile alpha motif domain containing 7	88										skin(1)	1	all_cancers(22;1.55e-22)|all_epithelial(15;2.41e-27)|all_lung(20;3.52e-17)|Lung NSC(18;1.44e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0106)			GAAGGAATGAAATGATTCAAC	0.353													18	60					0	0	0.010504	0	0		G	169642898	G	G	169642898	2	3	157	1	0	0	0	0	0	0	0	1	13849	11	1	3		3	SAMD7	3	169642898	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2370418	169642898	28379532	316	85876											
SLC7A14	57709	broad.mit.edu	37	chr3	170201230	170201230	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatttggcagcatagaaccCatgagccacaaacatctcca	15	7	7	12	0	1	2	0	1	1	1	2	3	1	2	3	1	4	2	3	1	4	2	rs2276717	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:170201230C>A	uc003fgz.2	-	6	1304	c.988G>T	c.(988-990)GGG>TGG	p.G330W	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	330						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GCATAGAACCCATGAGCCACA	0.498											OREG0015917	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	153					1.85244e-09	1.97906e-09	0.00333	1	0		A	170201230	A	A	170201230	3	1	157	1	0	0	0	0	1	0	0	0	14721	594	21	5	1339	5	SLC7A14	3	170201230	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	558332	170201230	27821200	317	85877											
TNIK	23043	broad.mit.edu	37	chr3	170857333	170857333	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcctcctctaactgtcGcctgatgtattcctggagag	6	13	9	13	1	1	2	0	1	1	1	5	3	4	2	4	1	2	2	4	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:170857333G>A	uc003fhh.2	-	14	1690	c.1345C>T	c.(1345-1347)CGA>TGA	p.R449*	TNIK_uc003fhi.2_Nonsense_Mutation_p.R449*|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Nonsense_Mutation_p.R449*|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Nonsense_Mutation_p.R449*|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	449	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			TCTAACTGTCGCCTGATGTAT	0.468													40	170					0	0	0.006999	0	0		A	170857333	A	A	170857333	4	1	157	1	0	0	0	0	0	1	0	0	16338	1095	38	1	2817	1	TNIK	3	170857333	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	656103	170857333	27165097	318	85878											
PIK3CA	5290	broad.mit.edu	37	chr3	178916876	178916876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttttgatgaaacaagacGactttgtgaccttcggcttt	10	16	8	7	2	0	4	0	3	0	1	1	5	0	4	1	1	1	1	1	1	2	6	rs121913287		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:178916876G>A	uc003fjk.2	+	2	420	c.263G>A	c.(262-264)CGA>CAA	p.R88Q		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	88	PI3K-ABD.		R -> Q (in cancer; may disrupt the interaction between the PI3K-ABD domain and the N-terminal lobe of PI3K/PI4K kinase domain possibly affecting the conformation of the kinase domain).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R88Q(26)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAAACAAGACGACTTTGTGAC	0.363	R88Q(SKUT1_SOFT_TISSUE)|R88Q(JHUEM1_ENDOMETRIUM)|R88Q(SNGM_ENDOMETRIUM)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			24	183					0	0	0.00333	0	0		A	178916876	A	A	178916876	3	1	157	1	0	0	0	0	1	0	0	0	11932	1058	37	1	265	1	PIK3CA	3	178916876	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8059543	178916876	19105554	319	85879											
MCF2L2	23101	broad.mit.edu	37	chr3	183017896	183017896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcctgagctccacacacCggggcctgatggcatctgct	6	8	13	14	1	1	2	0	2	1	0	2	2	2	2	4	4	3	3	4	4	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:183017896C>T	uc003fli.1	-	11	1292	c.1202G>A	c.(1201-1203)CGG>CAG	p.R401Q	MCF2L2_uc003flj.1_Missense_Mutation_p.R401Q|MCF2L2_uc011bqr.1_RNA|MCF2L2_uc003flp.1_3'UTR	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	401	Spectrin.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CTCCACACACCGGGGCCTGAT	0.512													28	68					0	0	0.007291	0	0		T	183017896	T	T	183017896	3	4	157	1	0	0	0	0	1	0	0	0	9398	652	23	1	2222	1	MCF2L2	3	183017896	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4101020	183017896	15004534	320	85880											
TPRG1	285386	broad.mit.edu	37	chr3	189028328	189028328	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattccttgaaatttgcaaGgtaggaggcatcttgggtat	12	13	11	5	0	1	1	0	1	1	0	2	2	2	2	1	4	1	4	1	4	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:189028328G>T	uc003frv.1	+	10	1860	c.633G>T	c.(631-633)AAG>AAT	p.K211N	TPRG1_uc003frw.1_Missense_Mutation_p.K211N	NM_198485	NP_940887	Q6ZUI0	TPRG1_HUMAN	tumor protein p63 regulated 1	211											0	all_cancers(143;6.12e-12)|all_hematologic(3;0.0359)|Ovarian(172;0.0925)	all_lung(153;8.23e-09)|Lung NSC(153;3.55e-06)|all_neural(597;0.0019)|Myeloproliferative disorder(1037;0.0255)	Lung(62;6.93e-06)	GBM - Glioblastoma multiforme(93;4.77e-14)		AAATTTGCAAGGTAGGAGGCA	0.398													26	153					1.5548e-18	1.71648e-18	0.005443	1	0		T	189028328	T	T	189028328	3	4	157	1	0	0	0	0	1	0	0	0	16444	1014	35	5	647	5	TPRG1	3	189028328	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6010432	189028328	8994102	321	85881											
GP5	2814	broad.mit.edu	37	chr3	194118298	194118298	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaggtttgggagccggtcGaaggccccgggtgcgatgga	6	7	19	9	4	0	1	0	1	0	0	1	5	0	3	3	6	2	1	3	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:194118298G>A	uc003ftv.1	-	2	745	c.714C>T	c.(712-714)TTC>TTT	p.F238F		NM_004488	NP_004479	P40197	GPV_HUMAN	glycoprotein V (platelet) precursor	238	Extracellular (Potential).|LRR 7.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane				skin(2)|breast(1)	3	all_cancers(143;6.64e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;7.38e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.06e-05)		GGAGCCGGTCGAAGGCCCCGG	0.567													41	186					0	0	0.007835	0	0		A	194118298	A	A	194118298	2	1	157	1	0	0	0	0	0	0	0	1	6598	1049	37	1		1	GP5	3	194118298	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5089970	194118298	3904132	322	85882											
ACAP2	23527	broad.mit.edu	37	chr3	195022892	195022892	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cctgtggatggagatgatttCttatccagcttctaaaagaa	12	13	9	7	0	2	3	0	1	2	2	3	5	3	4	2	2	1	1	2	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:195022892C>G	uc003fun.3	-	14	1369	c.1128G>C	c.(1126-1128)AAG>AAC	p.K376N		NM_012287	NP_036419	Q15057	ACAP2_HUMAN	centaurin, beta 2	376					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)	2						GAGATGATTTCTTATCCAGCT	0.363													64	193					0	0	0.01441	0	0		G	195022892	G	G	195022892	3	3	157	1	0	0	0	0	1	0	0	0	119	912	32	5	1248	5	ACAP2	3	195022892	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	904594	195022892	2999538	323	85883											
MUC4	4585	broad.mit.edu	37	chr3	195497165	195497165	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctggccttgtagcccccGttgtttgtcatctttctaat	5	16	7	13	1	3	0	1	0	2	0	3	0	3	0	4	1	1	3	4	1	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:195497165G>A	uc011bto.1	-	7	13396	c.12936C>T	c.(12934-12936)AAC>AAT	p.N4312N	MUC4_uc003fuz.2_Intron|MUC4_uc003fva.2_Translation_Start_Site|MUC4_uc003fvb.2_Translation_Start_Site|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Translation_Start_Site|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.N4N|MUC4_uc011bti.1_Silent_p.N4N|MUC4_uc011btj.1_Silent_p.N181N|MUC4_uc011btk.1_Translation_Start_Site|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Silent_p.N204N|MUC4_uc003fvp.2_Silent_p.N153N|MUC4_uc010hzu.1_Silent_p.N1052N	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1197	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGTAGCCCCCGTTGTTTGTCA	0.567													23	48					0	0	0.00333	0	0		A	195497165	A	A	195497165	2	1	157	1	0	0	0	0	0	0	0	1	9996	1136	40	1		1	MUC4	3	195497165	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	474273	195497165	2525265	324	85884											
LRCH3	84859	broad.mit.edu	37	chr3	197547200	197547200	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatcttttcgaaataggatgTgagctgcaatgaaattcaaa	15	13	8	5	1	2	2	1	2	1	0	3	4	2	3	0	1	2	2	0	1	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr3:197547200T>C	uc011bul.1	+	4	544	c.539T>C	c.(538-540)GTG>GCG	p.V180A	LRCH3_uc003fyj.1_Missense_Mutation_p.V180A|LRCH3_uc011bum.1_Missense_Mutation_p.V180A|LRCH3_uc011bun.1_Intron	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	180	LRR 5.					extracellular region				ovary(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;4.82e-24)|all cancers(36;3.61e-22)|OV - Ovarian serous cystadenocarcinoma(49;7.08e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.119)		AAATAGGATGTGAGCTGCAAT	0.348													22	111					0	0	0.014323	0	0		C	197547200	C	C	197547200	3	2	157	1	0	0	0	0	1	0	0	0	8952	1696	59	3	553	3	LRCH3	3	197547200	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2050035	197547200	475230	325	85885											
ZNF718	255403	broad.mit.edu	37	chr4	155880	155880	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtactccaaccttcctcaaCataagagaactcatactgga	15	9	5	12	0	2	1	2	0	0	1	4	3	4	2	3	1	5	1	3	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:155880C>A	uc003fzt.3	+	8	1538	c.1405C>A	c.(1405-1407)CAT>AAT	p.H469N	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_3'UTR	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	469	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		CCTTCCTCAACATAAGAGAAC	0.358													6	23					0.00116845	0.00119319	0.001168	1	0		A	155880	A	A	155880	3	1	157	1	0	0	0	0	1	0	0	0	18145	478	17	5	1419	5	ZNF718	4	155880	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08		155880	190998396	326	85886											
WHSC1	7468	broad.mit.edu	37	chr4	1962797	1962797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtacgttggggagctgatCgacgaggaggagtgcatggc	9	7	19	6	3	0	1	0	1	0	0	1	7	0	4	0	5	3	4	0	5	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:1962797C>T	uc003gdz.3	+	18	3467	c.3291C>T	c.(3289-3291)ATC>ATT	p.I1097I	WHSC1_uc003geb.3_Silent_p.I1097I|WHSC1_uc003gec.3_Silent_p.I1097I|WHSC1_uc003ged.3_Silent_p.I1097I|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gei.3_Silent_p.I316I|WHSC1_uc011bvh.1_Silent_p.I158I|WHSC1_uc010icf.2_Silent_p.I445I	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	1097	SET.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		GGGAGCTGATCGACGAGGAGG	0.512			T	IGH@	MM								42	151					0	0	0.009718	0	0		T	1962797	T	T	1962797	2	4	157	1	0	0	0	0	0	0	0	1	17388	874	31	1		1	WHSC1	4	1962797	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1806917	1962797	189191479	327	85887											
ADD1	118	broad.mit.edu	37	chr4	2899982	2899982	+	Silent	SNP	T	C	C	0	1	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	cttggagaagtggcttatcaTgactaccatggcattctggt	9	13	11	8	0	2	2	1	1	1	1	2	3	2	2	1	4	1	2	1	4	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:2899982T>C	uc003gfr.2	+	7	1001	c.813T>C	c.(811-813)CAT>CAC	p.H271H	ADD1_uc003gfn.2_Intron|ADD1_uc010ico.1_Silent_p.H271H|ADD1_uc003gfo.2_Silent_p.H271H|ADD1_uc003gfp.2_Silent_p.H271H|ADD1_uc003gfq.2_Silent_p.H271H|ADD1_uc003gfs.2_Silent_p.H271H|ADD1_uc003gft.3_Silent_p.H271H|ADD1_uc003gfu.2_Silent_p.H21H	NM_001119	NP_001110	P35611	ADDA_HUMAN	adducin 1 (alpha) isoform a	271					actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TGGCTTATCATGACTACCATG	0.453													7	136					0	0	0.004482	0	0		C	2899982	C	C	2899982	2	2	157	1	0	0	0	0	0	0	0	1	304	1461	51	3		3	ADD1	4	2899982	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	937185	2899982	188254294	328	85888											
EVC	2121	broad.mit.edu	37	chr4	5785435	5785435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagctggggaagtcaaatCgcttccggaggcagcagtgg	9	6	17	9	2	1	0	1	0	0	0	3	2	2	2	1	6	2	5	1	6	2	1	rs141820870		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:5785435C>T	uc003gil.1	+	12	1904	c.1720C>T	c.(1720-1722)CGC>TGC	p.R574C	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	574					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GAAGTCAAATCGCTTCCGGAG	0.597													17	48					0	0	0.00499	0	0		T	5785435	T	T	5785435	3	4	157	1	0	0	0	0	1	0	0	0	5293	884	31	1	1766	1	EVC	4	5785435	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2885453	5785435	185368841	329	85889											
EVC	2121	broad.mit.edu	37	chr4	5806514	5806514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaactcagcaacccttcgtCgggcagcaggacggcaggtg	10	5	14	12	3	1	1	1	0	0	1	3	2	1	2	1	4	4	4	1	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:5806514C>T	uc003gil.1	+	17	2691	c.2507C>T	c.(2506-2508)TCG>TTG	p.S836L	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	836					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				AACCCTTCGTCGGGCAGCAGG	0.552													10	62					0	0	0.00245	0	0		T	5806514	T	T	5806514	3	4	157	1	0	0	0	0	1	0	0	0	5293	893	31	1	2573	1	EVC	4	5806514	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	21079	5806514	185347762	330	85890											
C4orf50	389197	broad.mit.edu	37	chr4	5982061	5982061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacctcggcctctgagtccCggagctgcggaaatcacaga	10	7	11	13	3	2	2	1	1	1	1	4	4	3	4	3	3	3	1	3	3	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:5982061C>T	uc003git.1	-	2	98	c.8G>A	c.(7-9)CGG>CAG	p.R3Q		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	3										pancreas(2)|breast(1)	3						CTCTGAGTCCCGGAGCTGCGG	0.562													4	16					0	0	0.000602	0	0		T	5982061	T	T	5982061	3	4	157	1	0	0	0	0	1	0	0	0	2279	652	23	1	846	1	C4orf50	4	5982061	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	175547	5982061	185172215	331	85891											
MRFAP1L1	114932	broad.mit.edu	37	chr4	6711156	6711156	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaggcctccacctgcgttttGatctggataagcatattgtc	8	13	10	10	1	1	1	0	1	1	0	3	3	2	2	3	2	2	2	3	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:6711156G>C	uc003gjn.2	-	1	441	c.201C>G	c.(199-201)ATC>ATG	p.I67M	MRFAP1L1_uc003gjo.2_Missense_Mutation_p.I67M	NM_203462	NP_982287	Q96HT8	MR1L1_HUMAN	Morf4 family associated protein 1-like 1	67											0						CCTGCGTTTTGATCTGGATAA	0.607													27	156					0	0	0.005443	0	0		C	6711156	C	C	6711156	3	2	157	1	0	0	0	0	1	0	0	0	9780	1280	45	5	186	5	MRFAP1L1	4	6711156	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	729095	6711156	184443120	332	85892											
KIAA0232	9778	broad.mit.edu	37	chr4	6862970	6862970	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagattcgccctcgctcGtggtcttctggctccagtga	6	11	12	12	3	2	2	0	1	2	1	6	3	3	3	2	3	0	2	2	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:6862970G>A	uc003gjr.3	+	7	1324	c.861G>A	c.(859-861)TCG>TCA	p.S287S	KIAA0232_uc003gjq.3_Silent_p.S287S	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	287							ATP binding			ovary(2)	2						GCCCTCGCTCGTGGTCTTCTG	0.428													3	70					0	0	0.004672	0	0		A	6862970	A	A	6862970	2	1	157	1	0	0	0	0	0	0	0	1	8179	1132	40	1		1	KIAA0232	4	6862970	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	151814	6862970	184291306	333	85893											
KIAA0232	9778	broad.mit.edu	37	chr4	6864819	6864819	+	Missense_Mutation	SNP	T	A	A	0	1	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	catttgcttctagtgagctaTcaaacgtggatggtggtgat	9	14	12	6	1	2	2	1	2	1	0	2	3	2	3	0	3	3	2	0	3	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:6864819T>A	uc003gjr.3	+	7	3173	c.2710T>A	c.(2710-2712)TCA>ACA	p.S904T	KIAA0232_uc003gjq.3_Missense_Mutation_p.S904T	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	904							ATP binding			ovary(2)	2						TAGTGAGCTATCAAACGTGGA	0.468													13	102					0	0	0.013537	0	0		A	6864819	A	A	6864819	3	1	157	1	0	0	0	0	1	0	0	0	8179	1435	50	5	2728	5	KIAA0232	4	6864819	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1849	6864819	184289457	334	85894											
ACOX3	8310	broad.mit.edu	37	chr4	8411994	8411994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctggcacacacagcttaGcaaacaccaccgcgtgagtg	11	5	9	16	2	0	1	0	1	0	0	0	1	0	1	4	1	3	3	4	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:8411994G>A	uc010idk.2	-	6	777	c.632C>T	c.(631-633)GCT>GTT	p.A211V	ACOX3_uc003glc.3_Missense_Mutation_p.A211V|ACOX3_uc003gld.3_Missense_Mutation_p.A211V|ACOX3_uc003gle.1_Missense_Mutation_p.A116V	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	211					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						ACACAGCTTAGCAAACACCAC	0.463													25	59					0	0	0.009535	0	0		A	8411994	A	A	8411994	3	1	157	1	0	0	0	0	1	0	0	0	160	971	34	2	1522	2	ACOX3	4	8411994	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1547175	8411994	182742282	335	85895											
LDB2	9079	broad.mit.edu	37	chr4	16900030	16900030	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagattcggtactctggctGtaccatgtatggtgtatgcc	8	14	11	8	1	1	1	0	0	1	1	2	1	1	1	2	3	3	5	2	3	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:16900030G>A	uc003goz.2	-	1	395	c.79C>T	c.(79-81)CAG>TAG	p.Q27*	LDB2_uc003gpa.2_Nonsense_Mutation_p.Q27*|LDB2_uc003gpb.2_Nonsense_Mutation_p.Q27*|LDB2_uc011bxh.1_Nonsense_Mutation_p.Q27*|LDB2_uc010iee.2_Nonsense_Mutation_p.Q27*	NM_001290	NP_001281	O43679	LDB2_HUMAN	LIM domain binding 2 isoform a	27							LIM domain binding|transcription cofactor activity				0						TACTCTGGCTGTACCATGTAT	0.443													10	152					0	0	0.006214	0	0		A	16900030	A	A	16900030	4	1	157	1	0	0	0	0	0	1	0	0	8712	1386	48	4	1183	4	LDB2	4	16900030	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8488036	16900030	174254246	336	85896											
SLIT2	9353	broad.mit.edu	37	chr4	20620460	20620460	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctatgctgcttgccaaaCaaccaagaaggtgtcccgat	11	8	11	11	1	0	1	0	0	0	1	1	2	1	1	3	2	5	3	3	2	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:20620460C>G	uc003gpr.1	+	37	4622	c.4418C>G	c.(4417-4419)ACA>AGA	p.T1473R	SLIT2_uc003gps.1_Missense_Mutation_p.T1465R	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1473	CTCK.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GCTTGCCAAACAACCAAGAAG	0.483													23	87					0	0	0.012319	0	0		G	20620460	G	G	20620460	3	3	157	1	0	0	0	0	1	0	0	0	14765	478	17	5	4564	5	SLIT2	4	20620460	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3720430	20620460	170533816	337	85897											
GPR125	166647	broad.mit.edu	37	chr4	22415322	22415322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggaaaaagctttccattgCggaatgcaatgagttgaagc	13	10	11	7	1	0	2	0	2	0	0	1	4	1	4	1	2	4	3	1	2	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:22415322C>T	uc003gqm.1	-	13	2190	c.1925G>A	c.(1924-1926)CGC>CAC	p.R642H	GPR125_uc010ieo.1_Missense_Mutation_p.R498H	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	642	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				CTTTCCATTGCGGAATGCAAT	0.423													28	101					0	0	0.005443	0	0		T	22415322	T	T	22415322	3	4	157	1	0	0	0	0	1	0	0	0	6654	768	27	1	2068	1	GPR125	4	22415322	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1794862	22415322	168738954	338	85898											
PPARGC1A	10891	broad.mit.edu	37	chr4	23830129	23830129	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtgtgaggagggtcatcGtttgtggtcagatatttgag	7	15	16	3	1	2	3	2	2	0	1	3	4	2	4	0	4	0	1	0	4	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:23830129G>A	uc003gqs.2	-	5	771	c.651C>T	c.(649-651)AAC>AAT	p.N217N	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	217					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GAGGGTCATCGTTTGTGGTCA	0.468													68	268					0	0	0.01441	0	0		A	23830129	A	A	23830129	2	1	157	1	0	0	0	0	0	0	0	1	12319	1136	40	1		1	PPARGC1A	4	23830129	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1414807	23830129	167324147	339	85899											
FAM114A1	92689	broad.mit.edu	37	chr4	38910256	38910256	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccttgatgcgttggaattcaTcggcaagaaaaccatgaatg	13	10	10	8	2	1	3	1	2	0	1	2	4	1	4	2	2	2	2	2	2	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:38910256T>C	uc003gtn.2	+	7	877	c.701T>C	c.(700-702)ATC>ACC	p.I234T	FAM114A1_uc011byh.1_Missense_Mutation_p.I27T	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	234						cytoplasm				ovary(1)	1						TTGGAATTCATCGGCAAGAAA	0.458													18	80					0	0	0.006122	0	0		C	38910256	C	C	38910256	3	2	157	1	0	0	0	0	1	0	0	0	5414	1435	50	3	719	3	FAM114A1	4	38910256	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	15080127	38910256	152244020	340	85900											
FAM114A1	92689	broad.mit.edu	37	chr4	38910296	38910296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccttgcagaaagtgacccGggctttaagcggaccaagac	11	7	12	11	2	0	3	0	1	0	2	1	4	1	4	3	2	2	2	3	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:38910296G>A	uc003gtn.2	+	7	917	c.741G>A	c.(739-741)CCG>CCA	p.P247P	FAM114A1_uc011byh.1_Silent_p.P40P	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	247						cytoplasm				ovary(1)	1						AAAGTGACCCGGGCTTTAAGC	0.418													6	92					0	0	0.001984	0	0		A	38910296	A	A	38910296	2	1	157	1	0	0	0	0	0	0	0	1	5414	1103	39	1		1	FAM114A1	4	38910296	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	40	38910296	152243980	341	85901											
KLHL5	51088	broad.mit.edu	37	chr4	39104951	39104951	+	Missense_Mutation	SNP	A	G	G	1	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	atctccgtacaaatatgtggActccagtagcaaatatgaat	15	11	7	8	1	1	1	0	1	1	0	3	2	2	2	2	1	2	3	2	1	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:39104951A>G	uc003gts.2	+	7	1558	c.1483A>G	c.(1483-1485)ACT>GCT	p.T495A	KLHL5_uc003gtp.2_Missense_Mutation_p.T449A|KLHL5_uc003gtq.2_Missense_Mutation_p.T308A|KLHL5_uc003gtr.1_Missense_Mutation_p.T495A|KLHL5_uc003gtt.2_Missense_Mutation_p.T434A	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	495	Kelch 1.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1						AAATATGTGGACTCCAGTAGC	0.373													5	52					0	0	0.00308	0	0		G	39104951	G	G	39104951	3	3	157	1	0	0	0	0	1	0	0	0	8408	275	10	3	1509	3	KLHL5	4	39104951	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	194655	39104951	152049325	342	85902											
UGDH	7358	broad.mit.edu	37	chr4	39512462	39512462	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcctttccccattccatagGtttttgttggagtattcacc	6	16	8	11	0	1	0	1	0	0	0	3	1	3	1	5	3	0	3	5	3	2	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:39512462G>T	uc003guk.1	-	4	600	c.284C>A	c.(283-285)ACC>AAC	p.T95N	UGDH_uc011byp.1_5'UTR|UGDH_uc003gul.1_Intron	NM_003359	NP_003350	O60701	UGDH_HUMAN	UDP-glucose dehydrogenase	95					glycosaminoglycan biosynthetic process|UDP-glucose metabolic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	cytosol	electron carrier activity|NAD binding|UDP-glucose 6-dehydrogenase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4					NADH(DB00157)	CATTCCATAGGTTTTTGTTGG	0.413													40	148					6.1244e-12	6.60153e-12	0.007835	1	0		T	39512462	T	T	39512462	3	4	157	1	0	0	0	0	1	0	0	0	16966	1261	44	5	1236	5	UGDH	4	39512462	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	407511	39512462	151641814	343	85903											
LIMCH1	22998	broad.mit.edu	37	chr4	41687824	41687824	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaagcattaaccatcagatCgagtctcccagtgaaaggcg	15	7	9	10	2	2	2	1	1	1	1	4	3	2	2	2	1	2	1	2	1	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:41687824C>T	uc003gvu.3	+	23	2967	c.2913C>T	c.(2911-2913)ATC>ATT	p.I971I	LIMCH1_uc003gvv.3_Silent_p.I971I|LIMCH1_uc003gvw.3_Silent_p.I970I|LIMCH1_uc003gvx.3_Silent_p.I983I|LIMCH1_uc003gwe.3_Silent_p.I894I|LIMCH1_uc003gvy.3_Silent_p.I799I|LIMCH1_uc003gwa.3_Silent_p.I811I|LIMCH1_uc003gvz.3_Silent_p.I1355I|LIMCH1_uc011byu.1_Silent_p.I804I|LIMCH1_uc003gwc.3_Silent_p.I816I|LIMCH1_uc003gwd.3_Silent_p.I804I|LIMCH1_uc011byv.1_Silent_p.I721I|LIMCH1_uc011byw.1_Silent_p.I270I	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	971					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						ACCATCAGATCGAGTCTCCCA	0.428													16	71					0	0	0.006122	0	0		T	41687824	T	T	41687824	2	4	157	1	0	0	0	0	0	0	0	1	8813	874	31	1		1	LIMCH1	4	41687824	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2175362	41687824	149466452	344	85904											
LIMCH1	22998	broad.mit.edu	37	chr4	41691639	41691639	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctcaatctctattttcacaTccagtgtttcagggtacgta	9	15	6	11	1	4	0	3	0	1	0	6	0	5	0	2	1	1	3	2	1	4	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:41691639T>C	uc003gvu.3	+	25	3164	c.3110T>C	c.(3109-3111)ATC>ACC	p.I1037T	LIMCH1_uc003gvv.3_Missense_Mutation_p.I1011T|LIMCH1_uc003gvw.3_Missense_Mutation_p.I1010T|LIMCH1_uc003gvx.3_Missense_Mutation_p.I1023T|LIMCH1_uc003gwe.3_Missense_Mutation_p.I934T|LIMCH1_uc003gvy.3_Missense_Mutation_p.I839T|LIMCH1_uc003gwa.3_Missense_Mutation_p.I851T|LIMCH1_uc003gvz.3_Missense_Mutation_p.I1421T|LIMCH1_uc011byu.1_Missense_Mutation_p.I870T|LIMCH1_uc003gwc.3_Missense_Mutation_p.I856T|LIMCH1_uc003gwd.3_Missense_Mutation_p.I844T|LIMCH1_uc011byv.1_Missense_Mutation_p.I787T|LIMCH1_uc011byw.1_Missense_Mutation_p.I310T	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	1037	LIM zinc-binding.				actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						TATTTTCACATCCAGTGTTTC	0.453													27	138					0	0	0.004656	0	0		C	41691639	C	C	41691639	3	2	157	1	0	0	0	0	1	0	0	0	8813	1435	50	3	3236	3	LIMCH1	4	41691639	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3815	41691639	149462637	345	85905											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984149	41984149	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatcccttcgttccacGtgtacgtgctcagaaacctc	9	11	8	13	3	1	3	1	1	0	2	5	3	3	3	3	0	3	3	3	0	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:41984149G>T	uc003gwk.2	+	1	437	c.340G>T	c.(340-342)GTG>TTG	p.V114L		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	114										skin(1)	1						TTCGTTCCACGTGTACGTGCT	0.557													25	109					2.39556e-15	2.6156e-15	0.00278	1	0		T	41984149	T	T	41984149	3	4	157	1	0	0	0	0	1	0	0	0	4274	1145	40	5	342	5	DCAF4L1	4	41984149	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	292510	41984149	149170127	346	85906											
PDGFRA	5156	broad.mit.edu	37	chr4	54244047	54244047	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctagtgtcggagctgagCggcgggaccggaggggatga	7	5	20	9	5	0	2	0	2	0	0	1	6	0	6	2	6	2	1	2	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:54244047C>T	uc003haa.2	+	1	228	c.42C>T	c.(40-42)AGC>AGT	p.S14S	FIP1L1_uc003gzx.3_Silent_p.S14S|FIP1L1_uc011bzt.1_Silent_p.S14S|FIP1L1_uc003gzy.2_Silent_p.S14S|FIP1L1_uc011bzu.1_Silent_p.S14S|FIP1L1_uc003gzz.2_Silent_p.S14S|FIP1L1_uc003hab.2_5'UTR	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	Error:Variant_position_missing_in_P16234_after_alignment					cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	CGGAGCTGAGCGGCGGGACCG	0.652			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			4	6					0	0	0.000602	0	0		T	54244047	T	T	54244047	2	4	157	1	0	0	0	0	0	0	0	1	11680	767	27	1		1	PDGFRA	4	54244047	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	12259898	54244047	136910229	347	85907											
GSX2	170825	broad.mit.edu	37	chr4	54967794	54967794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caatggcaagaggatgaggaCggcgttcactagcacgcaac	13	5	13	10	3	1	2	1	1	0	1	1	4	1	4	0	4	2	4	0	4	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:54967794C>T	uc010igp.1	+	2	884	c.620C>T	c.(619-621)ACG>ATG	p.T207M	PDGFRA_uc003haa.2_Intron	NM_133267	NP_573574	Q9BZM3	GSX2_HUMAN	GS homeobox 2	207	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(7;0.00671)|Lung NSC(11;0.0154)|all_neural(26;0.0209)|Glioma(25;0.08)|all_epithelial(27;0.147)		LUSC - Lung squamous cell carcinoma(32;0.00216)			AGGATGAGGACGGCGTTCACT	0.577													18	101					0	0	0.010504	0	0		T	54967794	T	T	54967794	3	4	157	1	0	0	0	0	1	0	0	0	6866	536	19	1	626	1	GSX2	4	54967794	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	723747	54967794	136186482	348	85908											
KIT	3815	broad.mit.edu	37	chr4	55569973	55569973	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgttgactatcagttcagcGagagttaatgattctggagt	11	13	11	6	2	3	3	2	2	1	1	3	5	3	4	0	1	1	3	0	1	2	5	rs142772432		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:55569973G>A	uc010igr.2	+	5	927	c.840G>A	c.(838-840)GCG>GCA	p.A280A	KIT_uc010igs.2_Silent_p.A280A	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	280	Extracellular (Potential).|Ig-like C2-type 3.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TCAGTTCAGCGAGAGTTAATG	0.388		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				48	190					0	0	0.01441	0	0		A	55569973	A	A	55569973	2	1	157	1	0	0	0	0	0	0	0	1	8345	1045	37	1		1	KIT	4	55569973	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	602179	55569973	135584303	349	85909											
EPHA5	2044	broad.mit.edu	37	chr4	66356166	66356166	+	Missense_Mutation	SNP	A	T	T	1	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	tcaagtcggacactccattcActgcctcaatctcaaaggta	12	10	6	13	1	4	0	4	0	1	0	7	1	5	1	2	2	1	1	2	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:66356166A>T	uc003hcy.2	-	5	1524	c.1331T>A	c.(1330-1332)GTG>GAG	p.V444E	EPHA5_uc003hcx.2_Missense_Mutation_p.V375E|EPHA5_uc003hcz.2_Missense_Mutation_p.V444E|EPHA5_uc011cah.1_Missense_Mutation_p.V444E|EPHA5_uc011cai.1_Missense_Mutation_p.V444E|EPHA5_uc003hda.2_Missense_Mutation_p.V444E	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	444	Fibronectin type-III 1.|Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CACTCCATTCACTGCCTCAAT	0.498										TSP Lung(17;0.13)			4	95					0	0	0.009096	0	0		T	66356166	T	T	66356166	3	4	157	1	0	0	0	0	1	0	0	0	5178	159	6	5	1838	5	EPHA5	4	66356166	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	10786193	66356166	124798110	350	85910											
TMPRSS11A	339967	broad.mit.edu	37	chr4	68812182	68812182	+	Missense_Mutation	SNP	T	C	C	0	1	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	acctaccaaatactaggaagTgaaccaggagacctatggtc	15	7	9	10	0	0	2	0	1	0	1	1	4	0	3	4	3	3	0	4	3	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:68812182T>C	uc003hdr.1	-	2	240	c.119A>G	c.(118-120)CAC>CGC	p.H40R	LOC550112_uc003hdl.3_Intron|TMPRSS11A_uc003hds.1_Missense_Mutation_p.H40R	NM_182606	NP_872412	Q6ZMR5	TM11A_HUMAN	transmembrane protease, serine 11A isoform 1	40	Extracellular (Potential).				cell cycle|proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			skin(1)	1						TACTAGGAAGTGAACCAGGAG	0.388													20	68					0	0	0.008871	0	0		C	68812182	C	C	68812182	3	2	157	1	0	0	0	0	1	0	0	0	16264	1696	59	3	1182	3	TMPRSS11A	4	68812182	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2456016	68812182	122342094	351	85911											
SULT1E1	6783	broad.mit.edu	37	chr4	70719960	70719960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatccttttcccaaaatgagGcaggaagaagttcaggtggc	13	9	11	8	0	1	2	1	1	0	1	3	3	3	3	2	4	0	2	2	4	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:70719960G>A	uc003heo.2	-	4	457	c.344C>T	c.(343-345)GCC>GTC	p.A115V	SULT1E1_uc010ihv.1_Missense_Mutation_p.A115V	NM_005420	NP_005411	P49888	ST1E1_HUMAN	estrogen sulfotransferase	115					3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol|nuclear membrane	estrone sulfotransferase activity|flavonol 3-sulfotransferase activity|steroid binding|steroid sulfotransferase activity			ovary(1)	1						CCAAAATGAGGCAGGAAGAAG	0.353													12	97					0	0	0.001855	0	0		A	70719960	A	A	70719960	3	1	157	1	0	0	0	0	1	0	0	0	15405	1203	42	2	560	2	SULT1E1	4	70719960	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1907778	70719960	120434316	352	85912											
AMBN	258	broad.mit.edu	37	chr4	71472342	71472342	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttccaggaagaagcaacCatggataccacgatggcccc	13	6	10	12	1	0	1	0	0	0	1	1	5	1	3	5	3	3	1	5	3	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:71472342C>T	uc003hfl.2	+	13	1314	c.1239C>T	c.(1237-1239)ACC>ACT	p.T413T		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	413					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			AAGAAGCAACCATGGATACCA	0.517													7	123					0	0	0.001984	0	0		T	71472342	T	T	71472342	2	4	157	1	0	0	0	0	0	0	0	1	563	581	21	4		4	AMBN	4	71472342	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	752382	71472342	119681934	353	85913											
SLC4A4	8671	broad.mit.edu	37	chr4	72338444	72338444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttgactatttggagtttCgcctttggattggcctgtgg	5	18	12	6	1	0	1	0	1	0	0	1	3	0	3	2	4	0	1	2	4	1	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:72338444C>T	uc003hfy.2	+	14	1777	c.1660C>T	c.(1660-1662)CGC>TGC	p.R554C	SLC4A4_uc010iic.2_Missense_Mutation_p.R554C|SLC4A4_uc010iib.2_Missense_Mutation_p.R554C|SLC4A4_uc003hfz.2_Missense_Mutation_p.R554C|SLC4A4_uc003hgc.3_Missense_Mutation_p.R510C|SLC4A4_uc010iid.2_Intron|SLC4A4_uc003hga.2_Missense_Mutation_p.R432C|SLC4A4_uc003hgb.3_Missense_Mutation_p.R510C	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	554	Cytoplasmic (Potential).		R -> H (in pRTA-OA; mistargeting and altered function).	R->D: Prevents membrane targeting.		basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			TTTGGAGTTTCGCCTTTGGAT	0.408													74	301					0	0	0.01441	0	0		T	72338444	T	T	72338444	3	4	157	1	0	0	0	0	1	0	0	0	14681	884	31	1	1831	1	SLC4A4	4	72338444	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	866102	72338444	118815832	354	85914											
NAAA	27163	broad.mit.edu	37	chr4	76836121	76836121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctaccggcgctcattaccGtagtataaattgtgaagctg	10	11	11	9	3	1	1	1	1	0	0	1	1	1	1	2	2	3	5	2	2	7	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:76836121G>A	uc003hjb.2	-	10	1080	c.1016C>T	c.(1015-1017)ACG>ATG	p.T339M	NAAA_uc003hja.2_Intron	NM_014435	NP_055250	Q02083	NAAA_HUMAN	N-acylethanolamine acid amidase isoform 1	339					lipid metabolic process	lysosome	hydrolase activity			skin(1)	1						GCTCATTACCGTAGTATAAAT	0.423													29	145					0	0	0.00632	0	0		A	76836121	A	A	76836121	3	1	157	1	0	0	0	0	1	0	0	0	10145	1145	40	1	74	1	NAAA	4	76836121	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4497677	76836121	114318155	355	85915											
GK2	2712	broad.mit.edu	37	chr4	80329115	80329115	+	Silent	SNP	A	G	G	1	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	gcttttatgttggatatatcAatattcagttcgtcaagttt	10	19	7	5	1	3	0	3	0	0	0	4	1	3	1	0	1	0	4	0	1	6	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:80329115A>G	uc003hlu.2	-	1	258	c.240T>C	c.(238-240)ATT>ATC	p.I80I		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	80					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						TGGATATATCAATATTCAGTT	0.428													65	271					0	0	0.01441	0	0		G	80329115	G	G	80329115	2	3	157	1	0	0	0	0	0	0	0	1	6436	126	5	3		3	GK2	4	80329115	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	3492994	80329115	110825161	356	85916											
PRDM8	56978	broad.mit.edu	37	chr4	81123201	81123201	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccaagacgaacaaggcggCggcgtgggcaccaaggacca	12	1	14	14	4	0	1	0	0	0	1	0	3	0	2	4	5	1	1	4	5	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:81123201C>T	uc010ijo.2	+	8	1424	c.585C>T	c.(583-585)GGC>GGT	p.G195G	PRDM8_uc003hmb.3_Silent_p.G195G|PRDM8_uc003hmc.3_Silent_p.G195G	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	195	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						AACAAggcggcggcgtgggca	0.343											OREG0016246	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	74					0	0	0.008871	0	0		T	81123201	T	T	81123201	2	4	157	1	0	0	0	0	0	0	0	1	12484	755	27	1		1	PRDM8	4	81123201	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	794086	81123201	110031075	357	85917											
RASGEF1B	153020	broad.mit.edu	37	chr4	82355838	82355838	+	Silent	SNP	A	G	G	1	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	aggcggttggcacaaccctcAttgaggaaataaatatcttt	13	11	9	8	1	2	1	1	1	1	0	2	2	2	2	1	4	1	2	1	4	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:82355838A>G	uc003hmi.1	-	11	1299	c.1155T>C	c.(1153-1155)AAT>AAC	p.N385N	RASGEF1B_uc003hmj.1_Silent_p.N384N|RASGEF1B_uc010ijq.1_Silent_p.N343N	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	385	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						CACAACCCTCATTGAGGAAAT	0.413													13	33					0	0	0.00245	0	0		G	82355838	G	G	82355838	2	3	157	1	0	0	0	0	0	0	0	1	13095	214	8	3		3	RASGEF1B	4	82355838	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1232637	82355838	108798438	358	85918											
WDFY3	23001	broad.mit.edu	37	chr4	85609395	85609395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgctgtggcgcaggtgacGgtatcagtgtggcccagtaa	8	9	16	8	2	1	1	1	1	0	0	1	2	1	1	1	4	1	4	1	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:85609395G>A	uc003hpd.2	-	62	9795	c.9387C>T	c.(9385-9387)ACC>ACT	p.T3129T		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	3129	WD 2.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CGCAGGTGACGGTATCAGTGT	0.463													22	96					0	0	0.00278	0	0		A	85609395	A	A	85609395	2	1	157	1	0	0	0	0	0	0	0	1	17296	1103	39	1		1	WDFY3	4	85609395	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3253557	85609395	105544881	359	85919											
WDFY3	23001	broad.mit.edu	37	chr4	85722917	85722917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgcacctctgcagcagtCgtgcatgaagaccagcttca	10	8	9	14	1	2	2	1	1	1	1	3	2	2	2	2	0	5	5	2	0	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:85722917C>T	uc003hpd.2	-	17	3116	c.2708G>A	c.(2707-2709)CGA>CAA	p.R903Q		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	903						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		CTGCAGCAGTCGTGCATGAAG	0.522													28	77					0	0	0.005443	0	0		T	85722917	T	T	85722917	3	4	157	1	0	0	0	0	1	0	0	0	17296	884	31	1	8080	1	WDFY3	4	85722917	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	113522	85722917	105431359	360	85920											
C4orf36	132989	broad.mit.edu	37	chr4	87808959	87808959	+	Missense_Mutation	SNP	A	G	G	1	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	aaccggctggcctttccctcAggagaagctgaatttcctta	9	11	9	12	1	1	2	1	1	0	1	3	3	3	2	4	3	2	2	4	3	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:87808959A>G	uc003hqe.3	-	4	621	c.308T>C	c.(307-309)CTG>CCG	p.L103P		NM_144645	NP_653246	Q96KX1	CD036_HUMAN	hypothetical protein LOC132989	103											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00141)		CCTTTCCCTCAGGAGAAGCTG	0.408													24	86					0	0	0.014323	0	0		G	87808959	G	G	87808959	3	3	157	1	0	0	0	0	1	0	0	0	2269	188	7	3	49	3	C4orf36	4	87808959	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2086042	87808959	103345317	361	85921											
AFF1	4299	broad.mit.edu	37	chr4	87968255	87968255	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgaccgaagagctgacGgagaccactgtgcttcggtg	10	7	15	9	3	0	4	0	2	0	2	1	6	0	4	2	3	2	2	2	3	2	1	rs148083475		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:87968255G>T	uc003hqj.3	+	3	954	c.547G>T	c.(547-549)GGA>TGA	p.G183*	AFF1_uc011ccx.1_Nonsense_Mutation_p.G124*|AFF1_uc003hqh.1_Nonsense_Mutation_p.G190*|AFF1_uc011ccy.1_Nonsense_Mutation_p.G190*|AFF1_uc011ccz.1_Nonsense_Mutation_p.G190*|AFF1_uc003hqk.3_Nonsense_Mutation_p.G183*|AFF1_uc011cda.1_Intron	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	183						nucleus	sequence-specific DNA binding transcription factor activity			breast(1)	1		Acute lymphoblastic leukemia(40;0.0935)|all_hematologic(202;0.111)|Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000233)		AAGAGCTGACGGAGACCACTG	0.567													36	121					1.90571e-15	2.08344e-15	0.004289	1	0		T	87968255	T	T	87968255	4	4	157	1	0	0	0	0	0	1	0	0	356	1117	39	5	599	5	AFF1	4	87968255	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	159296	87968255	103186021	362	85922											
MMRN1	22915	broad.mit.edu	37	chr4	90830464	90830464	+	Missense_Mutation	SNP	A	G	G	1	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	tacataccaggttatctcccAcagtgatattggacaaccag	13	10	7	11	0	1	1	0	1	1	0	2	2	1	2	3	2	3	1	3	2	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:90830464A>G	uc003hst.2	+	2	732	c.661A>G	c.(661-663)ACA>GCA	p.T221A	MMRN1_uc010iku.2_Missense_Mutation_p.T187A|MMRN1_uc011cds.1_5'UTR	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	221	EMI.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GTTATCTCCCACAGTGATATT	0.403													25	128					0	0	0.003954	0	0		G	90830464	G	G	90830464	3	3	157	1	0	0	0	0	1	0	0	0	9688	159	6	3	667	3	MMRN1	4	90830464	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2862209	90830464	100323812	363	85923											
SMARCAD1	56916	broad.mit.edu	37	chr4	95199819	95199819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattgagttgtgtgcaatgtCggagaagcaggagcaactct	12	10	13	6	1	1	2	0	1	1	1	2	4	1	3	0	2	4	4	0	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:95199819C>T	uc003htc.3	+	18	2486	c.2231C>T	c.(2230-2232)TCG>TTG	p.S744L	SMARCAD1_uc003htb.3_Missense_Mutation_p.S744L|SMARCAD1_uc003htd.3_Missense_Mutation_p.S744L|SMARCAD1_uc010ila.2_Missense_Mutation_p.S607L|SMARCAD1_uc011cdw.1_Missense_Mutation_p.S314L	NM_020159	NP_064544	Q9H4L7	SMRCD_HUMAN	SWI/SNF-related, matrix-associated	744					chromatin modification|nucleotide metabolic process|positive regulation of transcription, DNA-dependent|protein homooligomerization|regulation of DNA recombination	nuclear matrix	ATP binding|DNA binding|helicase activity			skin(2)|ovary(1)|breast(1)	4				OV - Ovarian serous cystadenocarcinoma(123;4.33e-08)		TGTGCAATGTCGGAGAAGCAG	0.343													36	172					0	0	0.004878	0	0		T	95199819	T	T	95199819	3	4	157	1	0	0	0	0	1	0	0	0	14797	893	31	1	2297	1	SMARCAD1	4	95199819	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4369355	95199819	95954457	364	85924											
METAP1	23173	broad.mit.edu	37	chr4	99962266	99962266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactgaagaaatagatcacGctgtacacttagtaagaact	16	10	7	8	1	1	4	1	1	0	3	1	4	1	4	0	0	3	3	0	0	8	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:99962266G>A	uc003huf.3	+	6	622	c.505G>A	c.(505-507)GCT>ACT	p.A169T	METAP1_uc003hug.2_RNA	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	169					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)		AATAGATCACGCTGTACACTT	0.333													6	28					0	0	0.001168	0	0		A	99962266	A	A	99962266	3	1	157	1	0	0	0	0	1	0	0	0	9504	1087	38	1	527	1	METAP1	4	99962266	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4762447	99962266	91192010	365	85925											
NPNT	255743	broad.mit.edu	37	chr4	106863655	106863655	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaagccaacaacaagacctAcaccaaagccaacaccaatt	19	4	3	15	0	0	1	0	0	0	1	0	1	0	1	5	0	6	0	5	0	8	3	rs144959760	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:106863655A>G	uc003hya.2	+	8	1160	c.955A>G	c.(955-957)ACA>GCA	p.T319A	NPNT_uc011cfc.1_Missense_Mutation_p.T336A|NPNT_uc011cfd.1_Missense_Mutation_p.T349A|NPNT_uc011cfe.1_Missense_Mutation_p.T349A|NPNT_uc010ilt.1_Missense_Mutation_p.T319A|NPNT_uc011cff.1_Missense_Mutation_p.T319A|NPNT_uc010ilu.1_Missense_Mutation_p.T215A	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	319	Pro-rich.				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		AACAAGACCTACACCAAAGCC	0.502													6	152					0	0	0.001168	0	0		G	106863655	G	G	106863655	3	3	157	1	0	0	0	0	1	0	0	0	10609	391	14	3	1134	3	NPNT	4	106863655	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6901389	106863655	84290621	366	85926											
ENPEP	2028	broad.mit.edu	37	chr4	111397859	111397859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actttcgactgccggacttcGtcaacccagtccactacgac	9	9	7	16	4	1	0	1	0	0	0	4	3	2	1	3	1	3	0	3	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:111397859G>A	uc003iab.3	+	1	631	c.289G>A	c.(289-291)GTC>ATC	p.V97I		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	97	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	GCCGGACTTCGTCAACCCAGT	0.627													39	152					0	0	0.006999	0	0		A	111397859	A	A	111397859	3	1	157	1	0	0	0	0	1	0	0	0	5136	1145	40	1	291	1	ENPEP	4	111397859	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4534204	111397859	79756417	367	85927											
NDST3	9348	broad.mit.edu	37	chr4	118975701	118975701	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcttccaagcttgaaaaAggttctttacctggaactga	14	12	7	8	0	2	2	0	2	2	0	3	3	3	3	2	2	3	2	2	2	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:118975701A>G	uc003ibx.2	+	2	1039	c.636A>G	c.(634-636)AAA>AAG	p.K212K	NDST3_uc011cgf.1_Silent_p.K212K|NDST3_uc003ibw.2_Silent_p.K212K	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	212	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						AGCTTGAAAAAGGTTCTTTAC	0.363													65	273					0	0	0.01441	0	0		G	118975701	G	G	118975701	2	3	157	1	0	0	0	0	0	0	0	1	10276	69	3	3		3	NDST3	4	118975701	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	7577842	118975701	72178575	368	85928											
PRSS12	8492	broad.mit.edu	37	chr4	119237471	119237471	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcccacctgcaagtctgatGaccccatctgtgataaagag	11	10	8	12	0	2	4	0	3	2	1	3	4	3	4	4	0	1	1	4	0	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:119237471G>A	uc003ica.1	-	6	1205	c.1158C>T	c.(1156-1158)GTC>GTT	p.V386V		NM_003619	NP_003610	P56730	NETR_HUMAN	neurotrypsin precursor	386						membrane	scavenger receptor activity			skin(1)	1						CAAGTCTGATGACCCCATCTG	0.443													18	77					0	0	0.006122	0	0		A	119237471	A	A	119237471	2	1	157	1	0	0	0	0	0	0	0	1	12637	1277	45	4		4	PRSS12	4	119237471	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	261770	119237471	71916805	369	85929											
EXOSC9	5393	broad.mit.edu	37	chr4	122731160	122731160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccaatgaacgagaagaacGtgtgatggatggcttgctgg	11	9	14	7	2	0	4	0	2	0	2	1	6	1	5	1	3	3	2	1	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:122731160G>A	uc003iea.2	+	7	752	c.644G>A	c.(643-645)CGT>CAT	p.R215H	EXOSC9_uc003idz.2_Missense_Mutation_p.R215H|EXOSC9_uc003ieb.2_Missense_Mutation_p.R199H|EXOSC9_uc010inp.1_RNA	NM_005033	NP_005024	Q06265	EXOS9_HUMAN	exosome component 9 isoform 2	215	ARE binding.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|immune response|nuclear mRNA surveillance|nuclear polyadenylation-dependent rRNA catabolic process|positive regulation of cell growth|rRNA processing	cytosol|nuclear exosome (RNase complex)|nucleolus|nucleolus|nucleus	3'-5'-exoribonuclease activity|AU-rich element binding|protein binding				0						CGAGAAGAACGTGTGATGGAT	0.403													41	208					0	0	0.00623	0	0		A	122731160	A	A	122731160	3	1	157	1	0	0	0	0	1	0	0	0	5329	1145	40	1	670	1	EXOSC9	4	122731160	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3493689	122731160	68423116	370	85930											
KIAA1109	84162	broad.mit.edu	37	chr4	123171679	123171679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgataatcttccatgtgaccGgacaagcccttcctcagact	10	11	7	13	1	2	3	1	2	1	1	4	4	4	4	4	1	1	0	4	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:123171679G>A	uc003ieh.2	+	35	5918	c.5873G>A	c.(5872-5874)CGG>CAG	p.R1958Q	KIAA1109_uc003iek.2_Missense_Mutation_p.R577Q	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1958					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CCATGTGACCGGACAAGCCCT	0.383													24	136					0	0	0.003954	0	0		A	123171679	A	A	123171679	3	1	157	1	0	0	0	0	1	0	0	0	8224	1116	39	1	6011	1	KIAA1109	4	123171679	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	440519	123171679	67982597	371	85931											
FAT4	79633	broad.mit.edu	37	chr4	126328095	126328095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgatgatagttttcgcatcGacccagaatccggagatctg	10	11	10	10	3	1	4	0	2	1	2	4	6	2	4	2	1	0	2	2	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:126328095G>A	uc003ifj.3	+	3	5368	c.5368G>A	c.(5368-5370)GAC>AAC	p.D1790N	FAT4_uc011cgp.1_Missense_Mutation_p.D88N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1790	Cadherin 17.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTTTCGCATCGACCCAGAATC	0.473													58	188					0	0	0.01441	0	0		A	126328095	A	A	126328095	3	1	157	1	0	0	0	0	1	0	0	0	5706	1058	37	1	5378	1	FAT4	4	126328095	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3156416	126328095	64826181	372	85932											
PCDH10	57575	broad.mit.edu	37	chr4	134072881	134072881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggctacttgtacgccctgcGctccttcgactatgagcagc	6	10	10	15	4	0	1	0	1	0	0	2	2	1	1	2	1	5	4	2	1	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:134072881G>A	uc003iha.2	+	1	2412	c.1586G>A	c.(1585-1587)CGC>CAC	p.R529H	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.R529H	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	529	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TACGCCCTGCGCTCCTTCGAC	0.577													30	92					0	0	0.009535	0	0		A	134072881	A	A	134072881	3	1	157	1	0	0	0	0	1	0	0	0	11526	1087	38	1	1588	1	PCDH10	4	134072881	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7744786	134072881	57081395	373	85933											
NAA15	80155	broad.mit.edu	37	chr4	140275179	140275179	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttgtgtgtttgtactctaGgtggcaatcatagaagagtt	9	16	12	4	0	2	2	1	0	1	2	2	2	2	2	0	2	1	5	0	2	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:140275179G>T	uc003ihu.1	+	10	1271	c.1015_splice	c.e10-1	p.V339_splice		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1						angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						TTGTACTCTAGGTGGCAATCA	0.313													41	130					6.5261e-18	7.18595e-18	0.00874	1	0		T	140275179	T	T	140275179	5	4	157	1	0	0	0	0	0	0	1	0	10136	1014	35	5	1052	5	NAA15	4	140275179	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6202298	140275179	50879097	374	85934											
ARHGAP10	79658	broad.mit.edu	37	chr4	148984398	148984398	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctctttcacccgggtcGtcccctttccccttttctcc	3	14	4	20	2	3	0	1	0	2	0	7	0	5	0	7	1	0	0	7	1	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:148984398G>A	uc003ilf.2	+	21	2127	c.2127G>A	c.(2125-2127)TCG>TCA	p.S709S	ARHGAP10_uc003ilg.2_Intron|ARHGAP10_uc003ilh.2_Silent_p.S290S|ARHGAP10_uc003ili.2_Silent_p.S142S	NM_024605	NP_078881	A1A4S6	RHG10_HUMAN	Rho GTPase activating protein 10	709					apoptosis|filopodium assembly|regulation of apoptosis|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm|plasma membrane	cytoskeletal adaptor activity|SH3 domain binding			skin(2)|pancreas(1)|lung(1)	4	all_hematologic(180;0.151)	Renal(17;0.0166)		GBM - Glioblastoma multiforme(119;0.0423)		CACCCGGGTCGTCCCCTTTCC	0.557													20	71					0	0	0.008871	0	0		A	148984398	A	A	148984398	2	1	157	1	0	0	0	0	0	0	0	1	862	1132	40	1		1	ARHGAP10	4	148984398	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8709219	148984398	42169878	375	85935											
DCLK2	166614	broad.mit.edu	37	chr4	151169505	151169505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttgaagctcggtgtaccGcgggacaaatcctgagtcac	10	9	12	10	3	1	2	1	2	0	0	3	3	2	3	2	2	2	3	2	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:151169505G>A	uc003ilm.3	+	14	2024	c.1924G>A	c.(1924-1926)GCG>ACG	p.A642T	DCLK2_uc003iln.3_Missense_Mutation_p.A641T|DCLK2_uc003ilo.3_Missense_Mutation_p.A659T|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	642	Protein kinase.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					TCGGTGTACCGCGGGACAAAT	0.493													8	144					0	0	0.004482	0	0		A	151169505	A	A	151169505	3	1	157	1	0	0	0	0	1	0	0	0	4295	1087	38	1	1978	1	DCLK2	4	151169505	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2185107	151169505	39984771	376	85936											
TIGD4	201798	broad.mit.edu	37	chr4	153691221	153691221	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatagctatacatttggaAgataaacatgatggaaagaa	18	11	8	4	0	1	3	1	1	0	2	1	5	1	5	0	2	3	1	0	2	8	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:153691221A>G	uc003imy.2	-	2	1718	c.936T>C	c.(934-936)TCT>TCC	p.S312S		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	312	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					TACATTTGGAAGATAAACATG	0.343													27	249					0	0	0.004656	0	0		G	153691221	G	G	153691221	2	3	157	1	0	0	0	0	0	0	0	1	15923	59	3	3		3	TIGD4	4	153691221	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2521716	153691221	37463055	377	85937											
GRIA2	2891	broad.mit.edu	37	chr4	158224771	158224771	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaagaagtctgtaaatacCatcacatcattttgcggaac	15	10	7	9	1	3	1	2	0	1	1	3	3	3	2	1	1	3	1	1	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:158224771C>A	uc003ipm.3	+	3	756	c.297C>A	c.(295-297)ACC>ACA	p.T99T	GRIA2_uc011cit.1_Silent_p.T52T|GRIA2_uc003ipl.3_Silent_p.T99T|GRIA2_uc003ipk.3_Silent_p.T52T|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	99	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	CTGTAAATACCATCACATCAT	0.418													17	231					0.000422831	0.000434942	0.004007	1	0		A	158224771	A	A	158224771	2	1	157	1	0	0	0	0	0	0	0	1	6784	581	21	5		5	GRIA2	4	158224771	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4533550	158224771	32929505	378	85938											
CCDC111	201973	broad.mit.edu	37	chr4	185599425	185599425	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaactttcggctatataaatCatcaaaaattggaaagcgtg	17	11	7	6	2	2	0	2	0	0	0	3	1	2	1	0	2	2	1	0	2	8	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr4:185599425C>A	uc003iwk.2	+	8	1317	c.884C>A	c.(883-885)TCA>TAA	p.S295*	CCDC111_uc010isd.1_RNA|CCDC111_uc003iwj.2_Nonsense_Mutation_p.S295*|CCDC111_uc003iwl.2_Nonsense_Mutation_p.S295*|CCDC111_uc003iwm.2_Nonsense_Mutation_p.S166*|CCDC111_uc003iwn.2_Intron	NM_152683	NP_689896	Q96LW4	CC111_HUMAN	coiled-coil domain containing 111	295					DNA replication, synthesis of RNA primer		DNA primase activity			central_nervous_system(1)	1		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.00531)|Hepatocellular(41;0.00932)|Renal(120;0.0246)|Prostate(90;0.0283)|all_hematologic(60;0.0749)|all_neural(102;0.131)		all cancers(43;5.84e-27)|Epithelial(43;2.2e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.28e-11)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.03e-05)|Colorectal(24;7.57e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000249)|COAD - Colon adenocarcinoma(29;0.000502)|LUSC - Lung squamous cell carcinoma(40;0.00995)|READ - Rectum adenocarcinoma(43;0.173)		CTATATAAATCATCAAAAATT	0.289													11	45					3.86212e-05	4.00692e-05	0.008291	1	0		A	185599425	A	A	185599425	4	1	157	1	0	0	0	0	0	1	0	0	2751	838	29	5	906	5	CCDC111	4	185599425	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	27374654	185599425	5554851	379	85939											
AHRR	57491	broad.mit.edu	37	chr5	424025	424025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcacgcccaccgagtactCggccttcctgacccgctgct	6	7	10	18	4	0	1	0	1	0	0	2	2	1	1	5	2	2	4	5	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:424025C>T	uc003jav.2	+	7	697	c.653C>T	c.(652-654)TCG>TTG	p.S218L	AHRR_uc003jaw.2_Missense_Mutation_p.S214L|AHRR_uc010isy.2_Missense_Mutation_p.S64L|AHRR_uc010isz.2_Missense_Mutation_p.S214L|AHRR_uc003jax.2_5'UTR|AHRR_uc003jay.2_Missense_Mutation_p.S74L	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	218					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			ACCGAGTACTCGGCCTTCCTG	0.687													11	65					0	0	0.010729	0	0		T	424025	T	T	424025	3	4	157	1	0	0	0	0	1	0	0	0	417	893	31	1	679	1	AHRR	5	424025	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08		424025	180491235	380	85940											
TRIP13	9319	broad.mit.edu	37	chr5	908507	908507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgcccgaaatgcctgcagggCgggcaccgagccatcagatg	9	4	14	14	4	1	1	1	0	0	1	1	3	1	1	4	2	3	2	4	2	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:908507C>T	uc003jbr.2	+	9	907	c.797C>T	c.(796-798)GCG>GTG	p.A266V	TRIP13_uc010ite.1_Missense_Mutation_p.A266V	NM_004237	NP_004228	Q15645	PCH2_HUMAN	thyroid hormone receptor interactor 13	266					double-strand break repair|reciprocal meiotic recombination|synaptonemal complex assembly|transcription from RNA polymerase II promoter		ATP binding|identical protein binding|nucleoside-triphosphatase activity|transcription cofactor activity				0			Epithelial(17;0.00147)|OV - Ovarian serous cystadenocarcinoma(19;0.00271)|all cancers(22;0.00622)|Lung(60;0.165)			GCCTGCAGGGCGGGCACCGAG	0.562													5	103					0	0	0.001168	0	0		T	908507	T	T	908507	3	4	157	1	0	0	0	0	1	0	0	0	16583	768	27	1	831	1	TRIP13	5	908507	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	484482	908507	180006753	381	85941											
IRX4	50805	broad.mit.edu	37	chr5	1879766	1879766	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccttcttgaggcgccggcgCgcgttggcgaaccaggtgga	5	8	16	12	6	1	1	0	1	1	0	2	3	2	2	3	5	1	1	3	5	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:1879766C>T	uc003jcz.2	-	4	707	c.588G>A	c.(586-588)GCG>GCA	p.A196A	IRX4_uc011cmf.1_Silent_p.A57A	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	196	Homeobox; TALE-type.				heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		GGCGCCGGCGCGCGTTGGCGA	0.552													26	87					0	0	0.003954	0	0		T	1879766	T	T	1879766	2	4	157	1	0	0	0	0	0	0	0	1	7862	755	27	1		1	IRX4	5	1879766	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	971259	1879766	179035494	382	85942											
CCT5	22948	broad.mit.edu	37	chr5	10264815	10264815	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgattggcaaaaagcaaCagatatctcttgcaacacaa	16	9	6	10	0	1	2	0	1	1	1	2	2	1	2	1	1	4	3	1	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:10264815C>T	uc003jeq.2	+	11	1717	c.1546C>T	c.(1546-1548)CAG>TAG	p.Q516*	CCT5_uc003jer.2_3'UTR|CCT5_uc010its.2_3'UTR|CCT5_uc011cmr.1_Nonsense_Mutation_p.Q461*|CCT5_uc011cms.1_Nonsense_Mutation_p.Q478*|CCT5_uc011cmt.1_Nonsense_Mutation_p.Q423*	NM_012073	NP_036205	P48643	TCPE_HUMAN	chaperonin containing TCP1, subunit 5 (epsilon)	516					'de novo' posttranslational protein folding|response to virus	microtubule organizing center|nucleolus	ATP binding|unfolded protein binding			ovary(2)	2						CAAAAAGCAACAGATATCTCT	0.333													48	210					0	0	0.01441	0	0		T	10264815	T	T	10264815	4	4	157	1	0	0	0	0	0	1	0	0	2959	479	17	4	1588	4	CCT5	5	10264815	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	8385049	10264815	170650445	383	85943											
DNAH5	1767	broad.mit.edu	37	chr5	13786321	13786321	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accatggcatctgcaaagaaCaccatgtccatgccggcgcc	11	6	9	15	2	1	1	0	0	1	1	2	1	2	1	5	2	3	2	5	2	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:13786321C>T	uc003jfd.2	-	52	8829	c.8787G>A	c.(8785-8787)GTG>GTA	p.V2929V		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2929	AAA 4 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTGCAAAGAACACCATGTCCA	0.473									Kartagener_syndrome				14	53					0	0	0.001855	0	0		T	13786321	T	T	13786321	2	4	157	1	0	0	0	0	0	0	0	1	4610	465	17	4		4	DNAH5	5	13786321	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3521506	13786321	167128939	384	85944											
TRIO	7204	broad.mit.edu	37	chr5	14419959	14419959	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaacgagctgaccatcCgacggggccagaccgtggaa	12	3	13	13	4	0	2	0	1	0	1	1	5	1	3	4	3	3	2	4	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:14419959C>T	uc003jff.2	+	34	5038	c.5032C>T	c.(5032-5034)CGA>TGA	p.R1678*	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Nonsense_Mutation_p.R1327*	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1678	SH3 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GCTGACCATCCGACGGGGCCA	0.617													11	37					0	0	0.001855	0	0		T	14419959	T	T	14419959	4	4	157	1	0	0	0	0	0	1	0	0	16578	644	23	1	5166	1	TRIO	5	14419959	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	633638	14419959	166495301	385	85945											
BASP1	10409	broad.mit.edu	37	chr5	17275415	17275415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaaggccgagggcgcggcGacggaagaggaggggacccc	11	0	20	10	5	0	2	0	0	0	2	0	7	0	5	3	7	0	0	3	7	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:17275415G>A	uc003jfx.2	+	2	269	c.90G>A	c.(88-90)GCG>GCA	p.A30A		NM_006317	NP_006308	P80723	BASP1_HUMAN	brain abundant, membrane attached signal protein	30					glomerular visceral epithelial cell differentiation|negative regulation of transcription, DNA-dependent	cytoplasm|cytoskeleton|growth cone|nuclear speck|plasma membrane	protein domain specific binding|transcription corepressor activity|transcription regulatory region DNA binding				0						AGGGCGCGGCGACGGAAGAGG	0.632													12	32					0	0	0.013537	0	0		A	17275415	A	A	17275415	2	1	157	1	0	0	0	0	0	0	0	1	1318	1045	37	1		1	BASP1	5	17275415	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2855456	17275415	163639845	386	85946											
CDH18	1016	broad.mit.edu	37	chr5	19591227	19591227	+	Missense_Mutation	SNP	A	G	G	1	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	tggagattgagaatattcccAtgccatcaccatttatgatg	12	13	8	8	0	1	3	1	2	0	2	2	5	2	3	3	1	1	0	3	1	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:19591227A>G	uc003jgc.2	-	6	1315	c.938T>C	c.(937-939)ATG>ACG	p.M313T	CDH18_uc003jgd.2_Missense_Mutation_p.M313T|CDH18_uc011cnm.1_Missense_Mutation_p.M313T	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	313	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GAATATTCCCATGCCATCACC	0.408													29	142					0	0	0.00632	0	0		G	19591227	G	G	19591227	3	3	157	1	0	0	0	0	1	0	0	0	3106	217	8	3	1462	3	CDH18	5	19591227	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2315812	19591227	161324033	387	85947											
CDH12	1010	broad.mit.edu	37	chr5	21842351	21842351	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	tccggctaatcctccaagctGtcctcccatatccttggctt	6	13	6	16	1	0	0	0	0	0	0	6	0	6	0	6	2	1	3	6	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:21842351G>A	uc010iuc.2	-	5	1191	c.733C>T	c.(733-735)CAG>TAG	p.Q245*	CDH12_uc011cno.1_Nonsense_Mutation_p.Q205*|CDH12_uc003jgk.2_Nonsense_Mutation_p.Q245*	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	245	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CCTCCAAGCTGTCCTCCCATA	0.423										HNSCC(59;0.17)			45	192					0	0	0.011902	0	0		A	21842351	A	A	21842351	4	1	157	1	0	0	0	0	0	1	0	0	3101	1386	48	4	1683	4	CDH12	5	21842351	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2251124	21842351	159072909	388	85948											
RNASEN	29102	broad.mit.edu	37	chr5	31526774	31526774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggggggaagagggccttgcGctgacggaggcatgggtggg	7	5	23	6	2	0	2	0	1	0	1	0	4	0	4	1	8	1	2	1	8	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:31526774G>A	uc003jhg.2	-	4	625	c.266C>T	c.(265-267)GCG>GTG	p.A89V	RNASEN_uc003jhh.2_Missense_Mutation_p.A89V|RNASEN_uc003jhi.2_Missense_Mutation_p.A89V|RNASEN_uc010iui.1_Missense_Mutation_p.A80V	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	89	Pro-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						AGGGCCTTGCGCTGACGGAGG	0.602													12	20					0	0	0.001855	0	0		A	31526774	A	A	31526774	3	1	157	1	0	0	0	0	1	0	0	0	13442	1087	38	1	3986	1	RNASEN	5	31526774	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	9684423	31526774	149388486	389	85949											
PDZD2	23037	broad.mit.edu	37	chr5	32058117	32058117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccagtgggggagcctcagCgggaggttccgatgaaggca	9	6	17	9	2	1	1	1	1	0	0	2	4	2	3	3	5	3	2	3	5	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:32058117C>T	uc003jhl.2	+	12	2496	c.2108C>T	c.(2107-2109)GCG>GTG	p.A703V	PDZD2_uc003jhm.2_Missense_Mutation_p.A703V|PDZD2_uc011cnx.1_Missense_Mutation_p.A529V	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	703					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGAGCCTCAGCGGGAGGTTCC	0.582													10	46					0	0	0.008291	0	0		T	32058117	T	T	32058117	3	4	157	1	0	0	0	0	1	0	0	0	11720	768	27	1	2150	1	PDZD2	5	32058117	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	531343	32058117	148857143	390	85950											
AMACR	23600	broad.mit.edu	37	chr5	33989221	33989221	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagactagcttttaccttatTactttcaatgattttatctg	10	19	5	7	0	2	2	1	1	1	1	2	3	2	2	1	0	3	1	1	0	6	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:33989221T>C	uc003jig.2	-	5	1208	c.1126A>G	c.(1126-1128)AAT>GAT	p.N376D	AMACR_uc003jih.2_3'UTR|AMACR_uc003jii.2_Missense_Mutation_p.N361D|AMACR_uc003jij.2_Missense_Mutation_p.N376D	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	376					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						TTTACCTTATTACTTTCAATG	0.383													23	77					0	0	0.014323	0	0		C	33989221	C	C	33989221	3	2	157	1	0	0	0	0	1	0	0	0	562	1754	61	3	84	3	AMACR	5	33989221	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1931104	33989221	146926039	391	85951											
C1QTNF3	114899	broad.mit.edu	37	chr5	34033499	34033499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccaggtcacctttgtcGcccttctcacctttggctcc	3	12	8	18	1	2	0	2	0	1	0	5	0	3	0	6	3	0	1	6	3	0	3	rs147942281	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:34033499G>A	uc003jin.2	-	3	348	c.261C>T	c.(259-261)GGC>GGT	p.G87G	C1QTNF3_uc003jio.2_Silent_p.G160G	NM_030945	NP_112207	Q9BXJ4	C1QT3_HUMAN	C1q and tumor necrosis factor related protein 3	87	Collagen-like.					collagen					0	all_lung(31;0.0207)					CACCTTTGTCGCCCTTCTCAC	0.542													47	101					0	0	0.01441	0	0		A	34033499	A	A	34033499	2	1	157	1	0	0	0	0	0	0	0	1	1967	1074	38	1		1	C1QTNF3	5	34033499	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	44278	34033499	146881761	392	85952											
NIPBL	25836	broad.mit.edu	37	chr5	37000602	37000602	+	Silent	SNP	T	C	C	0	1	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	agaaggagttcaggtggtggTcgttatcgaaaccgaagtcc	11	9	14	7	3	1	1	1	0	0	1	4	4	2	2	2	4	1	2	2	4	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:37000602T>C	uc003jkl.3	+	12	3931	c.3432T>C	c.(3430-3432)GGT>GGC	p.G1144G	NIPBL_uc003jkk.3_Silent_p.G1144G	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1144					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			CAGGTGGTGGTCGTTATCGAA	0.463													22	118					0	0	0.00278	0	0		C	37000602	C	C	37000602	2	2	157	1	0	0	0	0	0	0	0	1	10447	1654	58	3		3	NIPBL	5	37000602	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2967103	37000602	143914658	393	85953											
C5orf42	65250	broad.mit.edu	37	chr5	37196010	37196010	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggtctccagctgctccaGgtctaaaaaatgcgatacct	10	11	9	11	1	2	0	0	0	2	0	4	1	3	0	3	2	4	2	3	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:37196010G>C	uc011cpa.1	-	21	3992	c.3761C>G	c.(3760-3762)CCT>CGT	p.P1254R	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.P329R|C5orf42_uc011cpb.1_Missense_Mutation_p.P135R	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1254										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			AGCTGCTCCAGGTCTAAAAAA	0.378													5	128					0	0	0.001168	0	0		C	37196010	C	C	37196010	3	2	157	1	0	0	0	0	1	0	0	0	2304	1000	35	5	5960	5	C5orf42	5	37196010	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	195408	37196010	143719250	394	85954											
NUP155	9631	broad.mit.edu	37	chr5	37350336	37350336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgagtggtttattttcCtacatctttggctaaaccac	8	18	6	9	0	2	1	0	1	2	0	3	1	3	1	2	2	2	2	2	2	4	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:37350336C>T	uc003jku.1	-	7	873	c.755G>A	c.(754-756)AGG>AAG	p.R252K	NUP155_uc003jkt.1_Missense_Mutation_p.R193K|NUP155_uc010iuz.1_Missense_Mutation_p.R252K	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	252					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GTTTATTTTCCTACATCTTTG	0.358													7	182					0	0	0.00308	0	0		T	37350336	T	T	37350336	3	4	157	1	0	0	0	0	1	0	0	0	10775	681	24	4	3536	4	NUP155	5	37350336	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	154326	37350336	143564924	395	85955											
GDNF	2668	broad.mit.edu	37	chr5	37815867	37815867	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctgcaacatgcctgcccTactttgtcactcaccagcct	7	11	7	16	0	3	0	2	0	1	0	3	0	3	0	4	1	6	1	4	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:37815867T>C	uc011cpi.1	-	3	722	c.522A>G	c.(520-522)GTA>GTG	p.V174V	GDNF_uc011cpc.1_Silent_p.V96V|GDNF_uc011cpd.1_Silent_p.V122V|GDNF_uc011cpe.1_Silent_p.V148V|GDNF_uc011cpf.1_Silent_p.V148V|GDNF_uc011cpg.1_Silent_p.V191V|GDNF_uc011cph.1_Silent_p.V165V	NM_000514	NP_000505	P39905	GDNF_HUMAN	glial cell derived neurotrophic factor isoform 1	174					adult locomotory behavior|anti-apoptosis|axon guidance|branching involved in ureteric bud morphogenesis|enteric nervous system development|mRNA stabilization|negative regulation of neuron apoptosis|neural crest cell migration|peristalsis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of dopamine secretion|positive regulation of monooxygenase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|postganglionic parasympathetic nervous system development|regulation of dopamine uptake|signal transduction|sympathetic nervous system development	extracellular region	growth factor activity|protein homodimerization activity				0	all_lung(31;0.00118)					ATGCCTGCCCTACTTTGTCAC	0.428													12	238					0	0	0.001855	0	0		C	37815867	C	C	37815867	2	2	157	1	0	0	0	0	0	0	0	1	6337	1509	53	3		3	GDNF	5	37815867	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	465531	37815867	143099393	396	85956											
C6	729	broad.mit.edu	37	chr5	41149542	41149542	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggtgaagtaaagtaatcGttggagtctgtgtcaaacac	12	10	13	6	2	2	1	1	1	1	0	3	2	2	2	0	2	1	3	0	2	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:41149542G>A	uc003jmk.2	-	17	2634	c.2424C>T	c.(2422-2424)AAC>AAT	p.N808N	C6_uc003jml.1_Silent_p.N808N	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	808	C5b-binding domain.|Complement control factor I module 1.|Kazal-like 1.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				TAAAGTAATCGTTGGAGTCTG	0.423													65	221					0	0	0.01441	0	0		A	41149542	A	A	41149542	2	1	157	1	0	0	0	0	0	0	0	1	2318	1136	40	1		1	C6	5	41149542	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3333675	41149542	139765718	397	85957											
GPBP1	65056	broad.mit.edu	37	chr5	56527097	56527097	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacatacctgacaatgaaacCgggaggaaagaagacaagag	20	3	11	7	1	0	5	0	2	0	3	0	7	0	7	2	2	3	0	2	2	7	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:56527097C>T	uc003jrh.3	+	5	1634	c.360C>T	c.(358-360)ACC>ACT	p.T120T	GPBP1_uc010iwg.2_Silent_p.T120T|GPBP1_uc003jri.3_5'UTR|GPBP1_uc003jrj.3_Silent_p.T127T|GPBP1_uc003jrk.3_Silent_p.T127T|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	120					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		ACAATGAAACCGGGAGGAAAG	0.393													13	51					0	0	0.001855	0	0		T	56527097	T	T	56527097	2	4	157	1	0	0	0	0	0	0	0	1	6610	639	23	1		1	GPBP1	5	56527097	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	15377555	56527097	124388163	398	85958											
GPBP1	65056	broad.mit.edu	37	chr5	56546783	56546783	+	Silent	SNP	T	C	C	0	1	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	taactctctaaaaatcaggaTgacgactcatttaatttaca	16	13	4	8	1	3	1	2	1	1	0	4	3	3	2	0	1	2	0	0	1	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:56546783T>C	uc003jrh.3	+	10	2249	c.975T>C	c.(973-975)GAT>GAC	p.D325D	GPBP1_uc010iwg.2_Silent_p.D345D|GPBP1_uc003jri.3_Silent_p.D154D|GPBP1_uc003jrj.3_Silent_p.D317D|GPBP1_uc003jrk.3_Silent_p.D332D|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	325					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		AAAATCAGGATGACGACTCAT	0.294													19	79					0	0	0.006122	0	0		C	56546783	C	C	56546783	2	2	157	1	0	0	0	0	0	0	0	1	6610	1461	51	3		3	GPBP1	5	56546783	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	19686	56546783	124368477	399	85959											
HTR1A	3350	broad.mit.edu	37	chr5	63256803	63256803	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacactcttcttgggctgCggggcgggagatgctccatg	5	11	14	11	2	3	1	1	0	2	1	4	2	4	1	1	4	2	2	1	4	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:63256803C>T	uc011cqt.1	-	1	744	c.744G>A	c.(742-744)CCG>CCA	p.P248P		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	248	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TCTTGGGCTGCGGGGCGGGAG	0.642													12	78					0	0	0.006122	0	0		T	63256803	T	T	63256803	2	4	157	1	0	0	0	0	0	0	0	1	7452	755	27	1		1	HTR1A	5	63256803	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6710020	63256803	117658457	400	85960											
TRIM23	373	broad.mit.edu	37	chr5	64910016	64910016	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagctccaataaagcaaaaTtttttttcaatccccagaca	17	11	3	10	0	1	1	1	0	0	1	3	1	3	1	3	0	2	2	3	0	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:64910016T>A	uc003jty.2	-	3	361	c.275A>T	c.(274-276)AAT>ATT	p.N92I	TRIM23_uc003jtw.2_Missense_Mutation_p.N92I|TRIM23_uc003jtx.2_Missense_Mutation_p.N92I	NM_001656	NP_001647	P36406	TRI23_HUMAN	ADP-ribosylation factor domain protein 1 isoform	92					interspecies interaction between organisms|small GTPase mediated signal transduction	Golgi membrane|lysosomal membrane	enzyme activator activity|GDP binding|GTP binding|GTPase activity|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Lung NSC(167;3.24e-06)|Prostate(74;0.0138)|Breast(144;0.0433)|Ovarian(174;0.0545)|Colorectal(97;0.234)		Lung(70;0.00473)		TAAAGCAAAATTTTTTTTCAA	0.358													31	185					0	0	0.009535	0	0		A	64910016	A	A	64910016	3	1	157	1	0	0	0	0	1	0	0	0	16523	1493	52	5	1552	5	TRIM23	5	64910016	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1653213	64910016	116005244	401	85961											
ERBB2IP	55914	broad.mit.edu	37	chr5	65320250	65320250	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacctcctattatcaagcaaTtcacttcagcagcttcctga	11	12	5	13	0	3	1	3	1	0	0	5	2	5	1	3	0	3	3	3	0	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:65320250T>G	uc003juk.1	+	10	1097	c.789T>G	c.(787-789)AAT>AAG	p.N263K	ERBB2IP_uc003juh.1_Missense_Mutation_p.N263K|ERBB2IP_uc003jui.1_Missense_Mutation_p.N263K|ERBB2IP_uc003juj.1_Missense_Mutation_p.N263K|ERBB2IP_uc011cqx.1_Missense_Mutation_p.N263K|ERBB2IP_uc011cqy.1_Missense_Mutation_p.N263K|ERBB2IP_uc011cqz.1_Missense_Mutation_p.N263K|ERBB2IP_uc010iwx.1_Missense_Mutation_p.N263K|ERBB2IP_uc003jul.1_Missense_Mutation_p.N263K	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	263	LRR 11.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		TATCAAGCAATTCACTTCAGC	0.303													11	137					0	0	0.001855	0	0		G	65320250	G	G	65320250	3	3	157	1	0	0	0	0	1	0	0	0	5215	1490	52	5	819	5	ERBB2IP	5	65320250	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	410234	65320250	115595010	402	85962											
MAST4	375449	broad.mit.edu	37	chr5	66448592	66448592	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgccagtccacatcagccGattgtgatccacagttcggg	8	10	10	13	2	2	1	1	1	1	0	5	2	4	1	4	1	2	1	4	1	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:66448592G>A	uc003jut.1	+	24	2924	c.2856G>A	c.(2854-2856)CCG>CCA	p.P952P	MAST4_uc003juw.2_Silent_p.P880P	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1144	PDZ.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CACATCAGCCGATTGTGATCC	0.537													30	83					0	0	0.005524	0	0		A	66448592	A	A	66448592	2	1	157	1	0	0	0	0	0	0	0	1	9345	1045	37	1		1	MAST4	5	66448592	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1128342	66448592	114466668	403	85963											
MAP1B	4131	broad.mit.edu	37	chr5	71491093	71491093	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagctgccaaggagaagacGgtgaaaaaggaaacaaaggt	20	3	13	5	1	0	3	0	1	0	2	0	5	0	4	1	4	3	1	1	4	7	0	rs140902387	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:71491093G>A	uc003kbw.3	+	5	2152	c.1911G>A	c.(1909-1911)ACG>ACA	p.T637T	MAP1B_uc010iyw.1_Silent_p.T654T|MAP1B_uc010iyx.1_Silent_p.T511T|MAP1B_uc010iyy.1_Silent_p.T511T	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	637	Lys-rich (highly basic, contains many KKEE and KKEI/V repeats).					microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		AGGAGAAGACGGTGAAAAAGG	0.453													6	23					0	0	0.006214	0	0		A	71491093	A	A	71491093	2	1	157	1	0	0	0	0	0	0	0	1	9246	1103	39	1		1	MAP1B	5	71491093	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5042501	71491093	109424167	404	85964											
RGNEF	64283	broad.mit.edu	37	chr5	73163798	73163798	+	Silent	SNP	A	T	T	1	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	ggaaggagggagactgtgggAcaggtccatccattgtccag	10	7	16	8	0	0	1	0	0	0	1	3	5	3	4	3	5	0	0	3	5	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:73163798A>T	uc011csq.1	+	18	2261	c.2250A>T	c.(2248-2250)GGA>GGT	p.G750G	RGNEF_uc003kcx.2_Silent_p.G750G|RGNEF_uc010izf.2_Silent_p.G750G|RGNEF_uc011csr.1_Silent_p.G437G	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	750					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		AGACTGTGGGACAGGTCCATC	0.517													10	49					0	0	0.008291	0	0		T	73163798	T	T	73163798	2	4	157	1	0	0	0	0	0	0	0	1	13308	262	10	5		5	RGNEF	5	73163798	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1672705	73163798	107751462	405	85965											
AGGF1	55109	broad.mit.edu	37	chr5	76344774	76344774	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tctgcagagaaaaggatatgGaacatactctccgaatccct	14	9	8	10	1	2	1	0	0	2	1	4	5	3	3	2	2	3	1	2	2	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:76344774G>C	uc003ket.2	+	8	1687	c.1327G>C	c.(1327-1329)GAA>CAA	p.E443Q		NM_018046	NP_060516	Q8N302	AGGF1_HUMAN	angiogenic factor VG5Q	443	FHA.				angiogenesis|cell adhesion|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|RNA processing|vasculogenesis	extracellular region|perinuclear region of cytoplasm	eukaryotic cell surface binding|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;4.51e-51)|Epithelial(54;2.2e-45)|all cancers(79;6.68e-41)		AAAGGATATGGAACATACTCT	0.289													45	148					0	0	0.01441	0	0		C	76344774	C	C	76344774	3	2	157	1	0	0	0	0	1	0	0	0	382	1175	41	5	1357	5	AGGF1	5	76344774	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3180976	76344774	104570486	406	85966											
SCAMP1	9522	broad.mit.edu	37	chr5	77717683	77717683	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcttggttttgtgttgaTtctgcaagagcggttgattt	5	19	13	4	1	1	3	0	2	1	1	1	3	1	3	0	3	2	5	0	3	1	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:77717683T>C	uc003kfl.2	+	6	688	c.531T>C	c.(529-531)GAT>GAC	p.D177D	SCAMP1_uc010jaa.2_Intron|SCAMP1_uc011ctc.1_RNA|SCAMP1_uc011ctd.1_RNA|SCAMP1_uc003kfm.2_RNA	NM_004866	NP_004857	O15126	SCAM1_HUMAN	secretory carrier membrane protein 1	177	Lumenal (Potential).				post-Golgi vesicle-mediated transport|protein transport	integral to membrane|recycling endosome membrane|trans-Golgi network	protein binding				0		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)		TTTGTGTTGATTCTGCAAGAG	0.373													45	269					0	0	0.01441	0	0		C	77717683	C	C	77717683	2	2	157	1	0	0	0	0	0	0	0	1	13895	1490	52	3		3	SCAMP1	5	77717683	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1372909	77717683	103197577	407	85967											
CMYA5	202333	broad.mit.edu	37	chr5	79031505	79031505	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaatgaacataaactcagTagttacttctgctgatggtg	13	12	10	6	0	2	2	1	2	1	0	2	3	2	3	0	2	4	3	0	2	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:79031505T>C	uc003kgc.2	+	2	6989	c.6917T>C	c.(6916-6918)GTA>GCA	p.V2306A		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2306						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ATAAACTCAGTAGTTACTTCT	0.363													23	123					0	0	0.00333	0	0		C	79031505	C	C	79031505	3	2	157	1	0	0	0	0	1	0	0	0	3593	1638	57	3	6923	3	CMYA5	5	79031505	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1313822	79031505	101883755	408	85968											
XRCC4	7518	broad.mit.edu	37	chr5	82400785	82400785	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgtttctgaacccagtaTaactcattttctacaagtat	11	16	4	10	0	3	1	1	1	2	0	3	1	3	1	2	0	3	3	2	0	6	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:82400785T>A	uc003kib.2	+	2	175	c.47T>A	c.(46-48)ATA>AAA	p.I16K	XRCC4_uc003kia.1_Missense_Mutation_p.I16K|XRCC4_uc003kid.2_Missense_Mutation_p.I16K|XRCC4_uc003kic.2_Missense_Mutation_p.I16K|XRCC4_uc003kie.2_Missense_Mutation_p.I16K|XRCC4_uc003kif.1_Missense_Mutation_p.I16K	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	16					DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		GAACCCAGTATAACTCATTTT	0.338								NHEJ					13	184					0	0	0.001855	0	0		A	82400785	A	A	82400785	3	1	157	1	0	0	0	0	1	0	0	0	17481	1406	49	5	49	5	XRCC4	5	82400785	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3369280	82400785	98514475	409	85969											
EDIL3	10085	broad.mit.edu	37	chr5	83360539	83360539	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgacagttcacagccaagaAgttccattcgcaaagtgcaa	14	7	8	12	2	1	1	1	0	0	1	3	2	2	1	3	0	2	4	3	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:83360539A>C	uc003kio.1	-	8	1351	c.932T>G	c.(931-933)CTT>CGT	p.L311R	EDIL3_uc003kip.1_Missense_Mutation_p.L301R|EDIL3_uc011ctt.1_Missense_Mutation_p.L88R	NM_005711	NP_005702	O43854	EDIL3_HUMAN	EGF-like repeats and discoidin I-like	311	F5/8 type C 1.				cell adhesion|multicellular organismal development	extracellular region	calcium ion binding|integrin binding			skin(2)	2		Lung NSC(167;0.000121)|all_lung(232;0.000154)|Ovarian(174;0.0425)		OV - Ovarian serous cystadenocarcinoma(54;4.3e-40)|Epithelial(54;4.79e-32)|all cancers(79;1.54e-26)		ACAGCCAAGAAGTTCCATTCG	0.373													26	93					0	0	0.004656	0	0		C	83360539	C	C	83360539	3	2	157	1	0	0	0	0	1	0	0	0	4921	72	3	5	526	5	EDIL3	5	83360539	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	959754	83360539	97554721	410	85970											
GPR98	84059	broad.mit.edu	37	chr5	89924611	89924611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacttcaaattctgcctcatAcaatacgaggaggtgcagaa	14	10	8	9	1	3	1	2	0	1	1	3	3	3	2	1	2	5	1	1	2	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:89924611A>G	uc003kju.2	+	8	1567	c.1471A>G	c.(1471-1473)ACA>GCA	p.T491A	GPR98_uc003kjt.2_Translation_Start_Site	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	491	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TCTGCCTCATACAATACGAGG	0.423													4	85					0	0	0.009096	0	0		G	89924611	G	G	89924611	3	3	157	1	0	0	0	0	1	0	0	0	6737	391	14	3	1501	3	GPR98	5	89924611	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6564072	89924611	90990649	411	85971											
FAM172A	83989	broad.mit.edu	37	chr5	93386492	93386492	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtaaatcttcccggtagtTaaaaacaaatggttccccag	13	11	8	9	1	1	0	0	0	1	0	3	0	3	0	3	2	1	4	3	2	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:93386492T>G	uc010jbd.2	-	4	460	c.253A>C	c.(253-255)AAC>CAC	p.N85H	FAM172A_uc011cuf.1_Missense_Mutation_p.N39H|FAM172A_uc011cug.1_Missense_Mutation_p.N39H|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron|FAM172A_uc003kkm.3_Missense_Mutation_p.N85H	NM_032042	NP_114431	Q8WUF8	F172A_HUMAN	hypothetical protein LOC83989 isoform 1	85						endoplasmic reticulum|extracellular region					0						TCCCGGTAGTTAAAAACAAAT	0.323													41	252					0	0	0.00874	0	0		G	93386492	G	G	93386492	3	3	157	1	0	0	0	0	1	0	0	0	5503	1754	61	5	1029	5	FAM172A	5	93386492	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3461881	93386492	87528768	412	85972											
TSLP	85480	broad.mit.edu	37	chr5	110409325	110409325	+	Silent	SNP	A	G	G	1	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	gccttagctatctggtgcccAggctattcggaaactcaggt	8	11	11	11	1	2	0	1	0	1	0	3	1	2	1	2	4	3	2	2	4	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:110409325A>G	uc003kpb.2	+	3	532	c.333A>G	c.(331-333)CCA>CCG	p.P111P	TSLP_uc003kpa.2_RNA|TSLP_uc010jbt.1_Silent_p.P15P	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1	111						extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		TCTGGTGCCCAGGCTATTCGG	0.527													21	129					0	0	0.010504	0	0		G	110409325	G	G	110409325	2	3	157	1	0	0	0	0	0	0	0	1	16654	175	7	3		3	TSLP	5	110409325	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	17022833	110409325	70505935	413	85973											
FAM170A	340069	broad.mit.edu	37	chr5	118970280	118970280	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagagagcacccaagatgaGcaggaggaggaaaatggaaa	18	3	14	6	0	1	3	1	1	0	2	1	8	1	7	1	4	2	2	1	4	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:118970280G>A	uc003ksm.2	+	3	1047	c.837G>A	c.(835-837)GAG>GAA	p.E279E	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Silent_p.E279E|FAM170A_uc003kso.2_Silent_p.E232E	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	279	Glu-rich.					intracellular	zinc ion binding			skin(1)	1						CCCaagatgagcaggaggagg	0.333													50	175					0	0	0.01441	0	0		A	118970280	A	A	118970280	2	1	157	1	0	0	0	0	0	0	0	1	5500	962	34	2		2	FAM170A	5	118970280	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8560955	118970280	61944980	414	85974											
SRFBP1	153443	broad.mit.edu	37	chr5	121309939	121309939	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattcgagttttagttatcCgaaaacttgtcaggagtgtt	11	15	10	5	2	1	0	1	0	0	0	3	4	2	1	1	1	1	3	1	1	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:121309939C>T	uc003kst.1	+	2	157	c.85C>T	c.(85-87)CGA>TGA	p.R29*		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	29					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		TTTAGTTATCCGAAAACTTGT	0.318													8	53					0	0	0.00308	0	0		T	121309939	T	T	121309939	4	4	157	1	0	0	0	0	0	1	0	0	15169	644	23	1	91	1	SRFBP1	5	121309939	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2339659	121309939	59605321	415	85975											
ZNF474	133923	broad.mit.edu	37	chr5	121488306	121488306	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttctgatcatcttactggCctcaagaaagcttgtagtgg	10	13	10	8	0	4	2	2	1	2	1	4	2	4	2	1	2	2	3	1	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:121488306C>T	uc003ksv.2	+	2	997	c.621C>T	c.(619-621)GGC>GGT	p.G207G		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	207						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		ATCTTACTGGCCTCAAGAAAG	0.488													16	98					0	0	0.00499	0	0		T	121488306	T	T	121488306	2	4	157	1	0	0	0	0	0	0	0	1	17957	726	26	2		2	ZNF474	5	121488306	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	178367	121488306	59426954	416	85976											
FBN2	2201	broad.mit.edu	37	chr5	127728848	127728848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttagtccagtgatgataggtCcctgtcccccggcccccaca	7	9	9	16	1	0	2	0	2	0	0	3	2	3	2	6	2	0	0	6	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:127728848C>T	uc003kuu.2	-	10	1884	c.1445G>A	c.(1444-1446)GGA>GAA	p.G482E	FBN2_uc003kuv.2_Missense_Mutation_p.G449E	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	482					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GATGATAGGTCCCTGTCCCCC	0.498													26	137					0	0	0.009535	0	0		T	127728848	T	T	127728848	3	4	157	1	0	0	0	0	1	0	0	0	5717	855	30	4	7517	4	FBN2	5	127728848	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6240542	127728848	53186412	417	85977											
SLC22A5	6584	broad.mit.edu	37	chr5	131726528	131726528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcaatatttgccccggcGctattccatggccactgccc	6	10	9	16	2	0	0	0	0	0	0	1	0	1	0	5	2	3	3	5	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:131726528G>A	uc003kww.3	+	7	1463	c.1199G>A	c.(1198-1200)CGC>CAC	p.R400H	SLC22A5_uc003kwx.3_Missense_Mutation_p.R424H|SLC22A5_uc010jdr.1_Missense_Mutation_p.R20H	NM_003060	NP_003051	O76082	S22A5_HUMAN	solute carrier family 22 member 5	400	Cytoplasmic (Potential).				positive regulation of intestinal epithelial structure maintenance|quorum sensing involved in interaction with host|sodium ion transport|sodium-dependent organic cation transport	apical plasma membrane|brush border membrane|integral to membrane	ATP binding|carnitine transporter activity|PDZ domain binding|symporter activity				0		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	TTGCCCCGGCGCTATTCCATG	0.547													22	94					0	0	0.014323	0	0		A	131726528	A	A	131726528	3	1	157	1	0	0	0	0	1	0	0	0	14482	1087	38	1	1225	1	SLC22A5	5	131726528	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3997680	131726528	49188732	418	85978											
PHF15	23338	broad.mit.edu	37	chr5	133914938	133914938	+	Silent	SNP	T	C	C	0	1	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	gatgtagaggccgaggacggTggggtgcagcggggtccccg	6	5	21	9	4	0	1	0	0	0	1	1	4	1	2	3	7	2	2	3	7	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:133914938T>C	uc003kzo.1	+	11	2483	c.2304T>C	c.(2302-2304)GGT>GGC	p.G768G	PHF15_uc011cxt.1_Silent_p.G812G|PHF15_uc003kzk.2_Silent_p.G828G|PHF15_uc003kzm.2_Silent_p.G769G|PHF15_uc003kzn.2_3'UTR	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	768					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCGAGGACGGTGGGGTGCAGC	0.642													14	48					0	0	0.00499	0	0		C	133914938	C	C	133914938	2	2	157	1	0	0	0	0	0	0	0	1	11845	1683	59	3		3	PHF15	5	133914938	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2188410	133914938	47000322	419	85979											
PITX1	5307	broad.mit.edu	37	chr5	134364597	134364597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttgcacgtgtcccggtagaCgctgtagggcgaggcgggag	6	7	19	9	5	0	1	0	0	0	1	1	3	1	2	1	4	1	5	1	4	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:134364597C>T	uc010jea.2	-	3	1210	c.817G>A	c.(817-819)GTC>ATC	p.V273I	PITX1_uc011cxy.1_Missense_Mutation_p.V273I	NM_002653	NP_002644	P78337	PITX1_HUMAN	paired-like homeodomain transcription factor 1	273	Interacts with PIT-1 (By similarity).					nucleolus	sequence-specific DNA binding	p.V273I(1)		ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	READ - Rectum adenocarcinoma(2;0.0607)		TCCCGGTAGACGCTGTAGGGC	0.672													6	17					0	0	0.001168	0	0		T	134364597	T	T	134364597	3	4	157	1	0	0	0	0	1	0	0	0	11973	536	19	1	131	1	PITX1	5	134364597	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	449659	134364597	46550663	420	85980											
FBXL21	26223	broad.mit.edu	37	chr5	135272337	135272337	+	Silent	SNP	A	C	C	1	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	attgtccagttgtcaggagcAgcgaaacagccaaaagttgg	13	8	12	8	1	1	0	1	0	0	0	2	2	2	1	2	2	4	3	2	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:135272337A>C	uc010jec.1	+	1	75	c.54A>C	c.(52-54)GCA>GCC	p.A18A	FBXL21_uc003lbc.2_Intron	NM_012159	NP_036291	Q9UKT6	FXL21_HUMAN	F-box and leucine-rich repeat protein 21	18					rhythmic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TGTCAGGAGCAGCGAAACAGC	0.393													32	197					0	0	0.009535	0	0		C	135272337	C	C	135272337	2	2	157	1	0	0	0	0	0	0	0	1	5732	175	7	5		5	FBXL21	5	135272337	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	907740	135272337	45642923	421	85981											
KDM3B	51780	broad.mit.edu	37	chr5	137715371	137715371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccatcaggactccatcactCgtcttatggaggtgtctgta	8	12	10	11	1	4	0	2	0	2	0	6	2	5	2	2	3	0	1	2	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:137715371C>T	uc003lcy.1	+	5	879	c.679C>T	c.(679-681)CGT>TGT	p.R227C	KDM3B_uc010jew.1_5'UTR	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	227					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						CTCCATCACTCGTCTTATGGA	0.463													27	124					0	0	0.009535	0	0		T	137715371	T	T	137715371	3	4	157	1	0	0	0	0	1	0	0	0	8143	884	31	1	697	1	KDM3B	5	137715371	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2443034	137715371	43199889	422	85982											
CTNNA1	1495	broad.mit.edu	37	chr5	138119057	138119057	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtagaagatgttcgaaaAcaaggtaggtcattactgct	13	11	11	6	1	1	2	1	0	0	2	2	3	1	2	0	2	3	5	0	2	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:138119057A>G	uc003ldh.2	+	3	392	c.297A>G	c.(295-297)AAA>AAG	p.K99K	CTNNA1_uc011cyx.1_Intron|CTNNA1_uc011cyy.1_Intron|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Silent_p.K99K	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	99	Interaction with JUP and CTNNB1.|Involved in homodimerization.				adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ATGTTCGAAAACAAGGTAGGT	0.403													3	90					0	0	0.009096	0	0		G	138119057	G	G	138119057	2	3	157	1	0	0	0	0	0	0	0	1	4015	40	2	3		3	CTNNA1	5	138119057	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	403686	138119057	42796203	423	85983											
PSD2	84249	broad.mit.edu	37	chr5	139193918	139193918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accacctcgagggcttccagCgctgtgatgtggcccggcag	6	7	14	14	3	0	1	0	1	0	0	2	2	1	1	4	3	1	3	4	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:139193918C>T	uc003leu.1	+	4	1190	c.985C>T	c.(985-987)CGC>TGC	p.R329C		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	329	SEC7.				regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCTTCCAGCGCTGTGATGT	0.642													9	49					0	0	0.004482	0	0		T	139193918	T	T	139193918	3	4	157	1	0	0	0	0	1	0	0	0	12669	768	27	1	995	1	PSD2	5	139193918	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1074861	139193918	41721342	424	85984											
ANKHD1-EIF4EBP3	404734	broad.mit.edu	37	chr5	139884482	139884482	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttacacctgaatcctgttcGcagactacaagcaatgtggc	11	10	8	12	1	0	2	0	1	0	1	2	2	1	2	2	1	3	3	2	1	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:139884482G>A	uc003lfs.1	+	16	3205	c.3081G>A	c.(3079-3081)TCG>TCA	p.S1027S	ANKHD1_uc003lfq.1_Silent_p.S1046S|ANKHD1_uc003lfr.2_Silent_p.S1027S|ANKHD1_uc003lft.1_Silent_p.S238S|ANKHD1_uc003lfu.1_Silent_p.S507S|ANKHD1_uc003lfv.1_Silent_p.S104S	NM_020690	NP_065741	Q8IWZ2	Q8IWZ2_HUMAN	ANKHD1-EIF4EBP3 protein	1027						cytoplasm|nucleus	RNA binding			ovary(6)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATCCTGTTCGCAGACTACAA	0.418													7	197					0	0	0.001984	0	0		A	139884482	A	A	139884482	2	1	157	1	0	0	0	0	0	0	0	1	629	1074	38	1		1	ANKHD1-EIF4EBP3	5	139884482	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	690564	139884482	41030778	425	85985											
CD14	929	broad.mit.edu	37	chr5	140011637	140011637	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtcaggctgcggcgccCtgttcagtctgttgcagctg	3	11	14	13	3	3	0	2	0	1	0	4	0	3	0	1	2	3	6	1	2	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140011637C>A	uc003lgi.1	-	2	1286	c.932G>T	c.(931-933)AGG>ATG	p.R311M	CD14_uc003lgj.1_Missense_Mutation_p.R311M	NM_000591	NP_000582	P08571	CD14_HUMAN	CD14 antigen precursor	311	LRR 10.				apoptosis|cellular response to lipopolysaccharide|cellular response to lipoteichoic acid|inflammatory response|innate immune response|phagocytosis|positive regulation of tumor necrosis factor production|Toll signaling pathway	anchored to membrane|plasma membrane	lipopolysaccharide binding|lipoteichoic acid binding|opsonin receptor activity|peptidoglycan receptor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCGGCGCCCTGTTCAGTCT	0.607													17	49					1.2644e-06	1.3316e-06	0.010504	1	0		A	140011637	A	A	140011637	3	1	157	1	0	0	0	0	1	0	0	0	2967	681	24	5	199	5	CD14	5	140011637	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	127155	140011637	40903623	426	85986											
PCDHA4	56144	broad.mit.edu	37	chr5	140186806	140186806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaagcggccaggaatccCggcgtctgctgctcttactt	6	9	14	12	3	2	0	0	0	2	0	3	2	3	2	2	5	4	2	2	5	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140186806C>T	uc003lhi.2	+	1	135	c.34C>T	c.(34-36)CGG>TGG	p.R12W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.R12W|PCDHA4_uc011daa.1_Missense_Mutation_p.R12W	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	12					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGGAATCCCGGCGTCTGCT	0.512													38	160					0	0	0.006999	0	0		T	140186806	T	T	140186806	3	4	157	1	0	0	0	0	1	0	0	0	11545	643	23	1	36	1	PCDHA4	5	140186806	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	175169	140186806	40728454	427	85987											
PCDHA4	56144	broad.mit.edu	37	chr5	140188497	140188497	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgggcgggtggcactggtggCgcagtgagcgagctggtgcc	4	6	21	10	4	0	1	0	1	0	0	0	2	0	1	1	6	3	3	1	6	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140188497C>T	uc003lhi.2	+	1	1826	c.1725C>T	c.(1723-1725)GGC>GGT	p.G575G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.G575G|PCDHA4_uc011daa.1_Silent_p.G575G	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	575	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCACTGGTGGCGCAGTGAGCG	0.662													10	44					0	0	0.010729	0	0		T	140188497	T	T	140188497	2	4	157	1	0	0	0	0	0	0	0	1	11545	755	27	1		1	PCDHA4	5	140188497	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1691	140188497	40726763	428	85988											
PCDHA6	56142	broad.mit.edu	37	chr5	140207942	140207942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattttgtttgtgaattctcGgatcgaccgcgaggagctgt	7	14	12	8	4	1	1	0	1	1	0	3	5	1	3	1	2	1	2	1	2	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140207942G>A	uc003lho.2	+	1	293	c.266G>A	c.(265-267)CGG>CAG	p.R89Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.R89Q|PCDHA6_uc011dab.1_Missense_Mutation_p.R89Q	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	89	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGAATTCTCGGATCGACCGC	0.607													71	260					0	0	0.01441	0	0		A	140207942	A	A	140207942	3	1	157	1	0	0	0	0	1	0	0	0	11547	1116	39	1	268	1	PCDHA6	5	140207942	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	19445	140207942	40707318	429	85989											
PCDHA6	56142	broad.mit.edu	37	chr5	140208825	140208825	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcgattcaggtgccaacggGcaggtgaactgctcgctgac	8	8	13	12	3	1	2	1	2	0	0	3	3	1	2	1	3	4	3	1	3	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140208825G>A	uc003lho.2	+	1	1176	c.1149G>A	c.(1147-1149)GGG>GGA	p.G383G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.G383G|PCDHA6_uc011dab.1_Silent_p.G383G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	383	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCCAACGGGCAGGTGAACT	0.537													71	261					0	0	0.01441	0	0		A	140208825	A	A	140208825	2	1	157	1	0	0	0	0	0	0	0	1	11547	1190	42	2		2	PCDHA6	5	140208825	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	883	140208825	40706435	430	85990											
PCDHA7	56141	broad.mit.edu	37	chr5	140215089	140215089	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgtcatcacattgattagcgTgtttgaccgagattttggag	9	14	11	7	3	2	3	2	2	0	1	2	5	2	4	1	1	1	1	1	1	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140215089T>C	uc003lhq.2	+	1	1121	c.1121T>C	c.(1120-1122)GTG>GCG	p.V374A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.V374A	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	374	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGATTAGCGTGTTTGACCGA	0.498													38	182					0	0	0.007835	0	0		C	140215089	C	C	140215089	3	2	157	1	0	0	0	0	1	0	0	0	11548	1696	59	3	1123	3	PCDHA7	5	140215089	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	6264	140215089	40700171	431	85991											
PCDHA11	56138	broad.mit.edu	37	chr5	140248987	140248987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagctgtgcgggcagagcgCggagtgcagcatccacctgg	7	5	18	11	3	0	1	0	0	0	1	1	3	1	3	2	4	5	4	2	4	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140248987C>T	uc003lia.2	+	1	1157	c.299C>T	c.(298-300)GCG>GTG	p.A100V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A100V	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	100	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCAGAGCGCGGAGTGCAGC	0.562													17	317					0	0	0.006122	0	0		T	140248987	T	T	140248987	3	4	157	1	0	0	0	0	1	0	0	0	11540	768	27	1	301	1	PCDHA11	5	140248987	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	33898	140248987	40666273	432	85992											
PCDHA11	56138	broad.mit.edu	37	chr5	140249919	140249919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgttggtgctggacagcGccctggaccgcgagaacgtg	7	7	15	12	5	0	1	0	0	0	1	1	4	0	3	2	3	3	2	2	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140249919G>A	uc003lia.2	+	1	2089	c.1231G>A	c.(1231-1233)GCC>ACC	p.A411T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A411T	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	411	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGGACAGCGCCCTGGACCG	0.617													40	149					0	0	0.007835	0	0		A	140249919	A	A	140249919	3	1	157	1	0	0	0	0	1	0	0	0	11540	1087	38	1	1233	1	PCDHA11	5	140249919	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	932	140249919	40665341	433	85993											
PCDHAC1	56135	broad.mit.edu	37	chr5	140306856	140306856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcacctctctttcctgccGgcgacgtgcagctgcacatc	6	10	8	17	3	2	0	1	0	1	0	5	1	3	0	3	1	4	3	3	1	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140306856G>A	uc003lih.2	+	1	555	c.379G>A	c.(379-381)GGC>AGC	p.G127S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.G127S	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	127	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTTCCTGCCGGCGACGTGCA	0.587													16	58					0	0	0.008871	0	0		A	140306856	A	A	140306856	3	1	157	1	0	0	0	0	1	0	0	0	11551	1116	39	1	381	1	PCDHAC1	5	140306856	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	56937	140306856	40608404	434	85994											
PCDHAC2	56134	broad.mit.edu	37	chr5	140347356	140347356	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcctaccagatctatgtGcaggcgactgaccggggtcc	7	9	11	14	2	1	2	0	1	1	1	4	3	4	2	5	3	2	1	5	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140347356G>A	uc003lii.2	+	1	1245	c.1005G>A	c.(1003-1005)GTG>GTA	p.V335V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Silent_p.V335V	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	335	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGATCTATGTGCAGGCGACTG	0.592													9	43					0	0	0.003163	0	0		A	140347356	A	A	140347356	2	1	157	1	0	0	0	0	0	0	0	1	11552	1306	46	2		2	PCDHAC2	5	140347356	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	40500	140347356	40567904	435	85995											
PCDHB5	26167	broad.mit.edu	37	chr5	140517107	140517107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcattggcctcggtgtcGtcgctcttcctcttttcggt	1	16	12	12	4	2	0	0	0	2	0	7	0	3	0	2	4	0	2	2	4	0	4	rs61745780		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140517107G>A	uc003liq.2	+	1	2308	c.2091G>A	c.(2089-2091)TCG>TCA	p.S697S		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	697	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTCGGTGTCGTCGCTCTTCC	0.706													46	160					0	0	0.01441	0	0		A	140517107	A	A	140517107	2	1	157	1	0	0	0	0	0	0	0	1	11564	1132	40	1		1	PCDHB5	5	140517107	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	169751	140517107	40398153	436	85996											
PCDHB6	56130	broad.mit.edu	37	chr5	140531423	140531423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtctttcgagttccgcGtgggcgccacagaccgcggc	5	8	14	14	6	1	1	0	0	1	1	3	2	2	1	3	2	1	2	3	2	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140531423G>A	uc003lir.2	+	1	1585	c.1585G>A	c.(1585-1587)GTG>ATG	p.V529M	PCDHB6_uc011dah.1_Missense_Mutation_p.V393M	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	529	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGAGTTCCGCGTGGGCGCCAC	0.662													28	79					0	0	0.007291	0	0		A	140531423	A	A	140531423	3	1	157	1	0	0	0	0	1	0	0	0	11565	1145	40	1	1587	1	PCDHB6	5	140531423	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	14316	140531423	40383837	437	85997											
PCDHB6	56130	broad.mit.edu	37	chr5	140531506	140531506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacgccaacgacaactcGcccttcgtgttgtacccgct	7	9	9	16	5	0	0	0	0	0	0	2	2	0	1	3	1	3	3	3	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140531506G>A	uc003lir.2	+	1	1668	c.1668G>A	c.(1666-1668)TCG>TCA	p.S556S	PCDHB6_uc011dah.1_Silent_p.S420S	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	556	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACGACAACTCGCCCTTCGTGT	0.706													14	37					0	0	0.007413	0	0		A	140531506	A	A	140531506	2	1	157	1	0	0	0	0	0	0	0	1	11565	1074	38	1		1	PCDHB6	5	140531506	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	83	140531506	40383754	438	85998											
PCDHB8	56128	broad.mit.edu	37	chr5	140559225	140559225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggtgggcgcttcagaccGcggctccccggctttgagca	4	7	15	15	5	1	2	1	1	0	1	2	2	2	2	4	4	1	4	4	4	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140559225G>A	uc011dai.1	+	1	1796	c.1610G>A	c.(1609-1611)CGC>CAC	p.R537H	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTTCAGACCGCGGCTCCCCG	0.662													30	176					0	0	0.008361	0	0		A	140559225	A	A	140559225	3	1	157	1	0	0	0	0	1	0	0	0	11567	1087	38	1	1612	1	PCDHB8	5	140559225	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	27719	140559225	40356035	439	85999											
PCDHB12	56124	broad.mit.edu	37	chr5	140589745	140589745	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtacaacatcaccatcacCgtcaccgacttggggacccc	11	6	8	16	2	3	0	3	0	0	0	3	3	3	1	5	2	2	1	5	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140589745C>T	uc003liz.2	+	1	1455	c.1266C>T	c.(1264-1266)ACC>ACT	p.T422T	PCDHB12_uc011dak.1_Silent_p.T85T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	422	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCACCATCACCGTCACCGACT	0.517													8	104					0	0	0.00308	0	0		T	140589745	T	T	140589745	2	4	157	1	0	0	0	0	0	0	0	1	11556	639	23	1		1	PCDHB12	5	140589745	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	30520	140589745	40325515	440	86000											
PCDHB14	56122	broad.mit.edu	37	chr5	140605165	140605165	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtggcattggcctcGgtgtcgtcgctcttcctctt	1	15	13	12	3	2	0	0	0	2	0	6	0	3	0	2	5	0	2	2	5	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140605165G>A	uc003ljb.2	+	1	2088	c.2088G>A	c.(2086-2088)TCG>TCA	p.S696S	PCDHB14_uc011dal.1_Silent_p.S543S	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	696	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CATTGGCCTCGGTGTCGTCGC	0.711													37	150					0	0	0.01441	0	0		A	140605165	A	A	140605165	2	1	157	1	0	0	0	0	0	0	0	1	11558	1103	39	1		1	PCDHB14	5	140605165	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	15420	140605165	40310095	441	86001											
PCDHGB2	56103	broad.mit.edu	37	chr5	140740782	140740782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcccctaccggaggattcGccaccaggaacagtgatcgc	10	6	10	15	3	0	1	0	1	0	0	3	4	1	4	5	3	2	0	5	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140740782G>A	uc003ljs.1	+	1	1080	c.1080G>A	c.(1078-1080)TCG>TCA	p.S360S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Silent_p.S360S	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	360	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGAGGATTCGCCACCAGGAA	0.443													16	90					0	0	0.00499	0	0		A	140740782	A	A	140740782	2	1	157	1	0	0	0	0	0	0	0	1	11582	1074	38	1		1	PCDHGB2	5	140740782	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	135617	140740782	40174478	442	86002											
PCDHGA8	9708	broad.mit.edu	37	chr5	140772638	140772638	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcggcagcttgatcacCgcgggcaggatagatcggga	9	5	16	11	5	1	2	1	1	0	1	2	4	1	4	1	4	2	4	1	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140772638C>T	uc003lkd.1	+	1	1156	c.258C>T	c.(256-258)ACC>ACT	p.T86T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.T86T	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	86	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTTGATCACCGCGGGCAGGA	0.587													3	51					0	0	0.009096	0	0		T	140772638	T	T	140772638	2	4	157	1	0	0	0	0	0	0	0	1	11579	639	23	1		1	PCDHGA8	5	140772638	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	31856	140772638	40142622	443	86003											
PCDHGA10	56106	broad.mit.edu	37	chr5	140793360	140793360	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggagcactccctagatcgCgaggaagaggccattcacca	11	6	11	13	2	1	2	1	0	0	2	3	5	2	4	3	3	1	1	3	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140793360C>T	uc003lkl.1	+	1	618	c.618C>T	c.(616-618)CGC>CGT	p.R206R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.R206R	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	206	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTAGATCGCGAGGAAGAGG	0.582													4	81					0	0	0.000602	0	0		T	140793360	T	T	140793360	2	4	157	1	0	0	0	0	0	0	0	1	11570	755	27	1		1	PCDHGA10	5	140793360	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	20722	140793360	40121900	444	86004											
PCDHGB7	56099	broad.mit.edu	37	chr5	140798770	140798770	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attactgacgtcaatgacaaCgcgccggttttcggacagtc	10	10	10	11	5	1	2	1	2	0	0	3	3	1	3	1	2	2	1	1	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:140798770C>T	uc003lkn.1	+	1	1489	c.1344C>T	c.(1342-1344)AAC>AAT	p.N448N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.N448N|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	448	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAATGACAACGCGCCGGTTT	0.572													17	63					0	0	0.00499	0	0		T	140798770	T	T	140798770	2	4	157	1	0	0	0	0	0	0	0	1	11587	535	19	1		1	PCDHGB7	5	140798770	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5410	140798770	40116490	445	86005											
HDAC3	8841	broad.mit.edu	37	chr5	141014481	141014481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagtcctcggagtggaagcGgcacatgtcatgttgggagg	8	9	17	7	2	1	0	1	0	0	0	3	3	2	3	1	5	1	3	1	5	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:141014481G>A	uc003llf.2	-	3	244	c.178C>T	c.(178-180)CGC>TGC	p.R60C	HDAC3_uc003lle.1_Missense_Mutation_p.R3C|HDAC3_uc010jgd.1_Intron|HDAC3_uc010jge.1_Intron|RELL2_uc003lli.2_5'Flank|RELL2_uc003llh.2_5'Flank|RELL2_uc003llg.2_5'Flank|RELL2_uc010jgf.2_5'Flank	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	60	Histone deacetylase.				anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	GAGTGGAAGCGGCACATGTCA	0.552													20	124					0	0	0.00278	0	0		A	141014481	A	A	141014481	3	1	157	1	0	0	0	0	1	0	0	0	7024	1116	39	1	1160	1	HDAC3	5	141014481	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	215711	141014481	39900779	446	86006											
ARAP3	64411	broad.mit.edu	37	chr5	141051787	141051787	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatcttctcagccacctcGtagtcagacagggtctcggt	8	10	10	13	2	4	2	2	0	3	2	7	2	4	2	2	2	1	1	2	2	1	2	rs149846650	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:141051787G>A	uc003llm.2	-	10	1545	c.1467C>T	c.(1465-1467)TAC>TAT	p.Y489Y	ARAP3_uc011dbe.1_Silent_p.Y151Y|ARAP3_uc003lln.2_Silent_p.Y411Y|ARAP3_uc003llo.1_Silent_p.Y489Y	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	489	Arf-GAP.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						CAGCCACCTCGTAGTCAGACA	0.632													14	211					0	0	0.004007	0	0		A	141051787	A	A	141051787	2	1	157	1	0	0	0	0	0	0	0	1	840	1140	40	1		1	ARAP3	5	141051787	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	37306	141051787	39863473	447	86007											
SPRY4	81848	broad.mit.edu	37	chr5	141694062	141694062	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagtggtagaagatgccCtgcaccaaacacatgcacgt	12	7	11	11	1	0	2	0	0	0	2	0	2	0	2	2	1	5	4	2	1	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:141694062C>A	uc003lml.2	-	2	871	c.612G>T	c.(610-612)CAG>CAT	p.Q204H	SPRY4_uc010jgi.1_Missense_Mutation_p.Q227H	NM_001127496	NP_001120968	Q9C004	SPY4_HUMAN	sprouty homolog 4 isoform 2	204	Cys-rich.|SPR.				multicellular organismal development	cytoplasm|ruffle membrane	protein binding			ovary(1)|lung(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAAGATGCCCTGCACCAAAC	0.622									Testicular_Cancer_Familial_Clustering_of				20	67					8.10497e-08	8.58832e-08	0.010504	1	0		A	141694062	A	A	141694062	3	1	157	1	0	0	0	0	1	0	0	0	15133	680	24	5	291	5	SPRY4	5	141694062	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	642275	141694062	39221198	448	86008											
DPYSL3	1809	broad.mit.edu	37	chr5	146781177	146781177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatgtcacaaatgcagcCgccttggcccagttcttgct	7	10	12	12	1	2	0	1	0	1	0	2	1	2	1	3	3	3	3	3	3	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:146781177C>T	uc003lon.1	-	9	1004	c.894G>A	c.(892-894)GCG>GCA	p.A298A	DPYSL3_uc003loo.2_Silent_p.A412A	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	298					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAATGCAGCCGCCTTGGCCC	0.562													15	29					0	0	0.00499	0	0		T	146781177	T	T	146781177	2	4	157	1	0	0	0	0	0	0	0	1	4754	639	23	1		1	DPYSL3	5	146781177	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5087115	146781177	34134083	449	86009											
FBXO38	81545	broad.mit.edu	37	chr5	147805103	147805103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacccagtggtcttcagcGtgtagtaaaaccaacctcaa	13	8	9	11	1	3	0	2	0	1	0	3	1	3	1	3	2	3	2	3	2	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:147805103G>A	uc003lpf.1	+	14	1877	c.1757G>A	c.(1756-1758)CGT>CAT	p.R586H	FBXO38_uc003lpg.1_Missense_Mutation_p.R586H|FBXO38_uc003lph.2_Missense_Mutation_p.R586H	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	586						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCTTCAGCGTGTAGTAAAA	0.408													25	119					0	0	0.003954	0	0		A	147805103	A	A	147805103	3	1	157	1	0	0	0	0	1	0	0	0	5760	1145	40	1	1807	1	FBXO38	5	147805103	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1023926	147805103	33110157	450	86010											
SH3TC2	79628	broad.mit.edu	37	chr5	148406585	148406585	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaagttcacaatagagtcGtacagcctgcaggagatagt	13	9	11	8	1	1	3	1	1	0	2	2	4	1	3	1	1	3	3	1	1	5	4	rs80338931	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:148406585G>A	uc003lpu.2	-	11	2862	c.2710C>T	c.(2710-2712)CGA>TGA	p.R904*	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Nonsense_Mutation_p.R548*|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Nonsense_Mutation_p.R451*|SH3TC2_uc010jgx.2_Nonsense_Mutation_p.R897*|SH3TC2_uc003lpv.1_Nonsense_Mutation_p.R451*|SH3TC2_uc011dbz.1_Nonsense_Mutation_p.R789*	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	904							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAATAGAGTCGTACAGCCTGC	0.517													70	239					0	0	0.01441	0	0		A	148406585	A	A	148406585	4	1	157	1	0	0	0	0	0	1	0	0	14287	1153	40	1	1184	1	SH3TC2	5	148406585	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	601482	148406585	32508675	451	86011											
ARHGEF37	389337	broad.mit.edu	37	chr5	149006814	149006814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccaaaggcaacagcggccGctggctggtggacaccgggg	9	3	16	13	3	0	0	0	0	0	0	0	1	0	1	3	7	2	3	3	7	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:149006814G>A	uc003lra.1	+	11	1704	c.1640G>A	c.(1639-1641)CGC>CAC	p.R547H		NM_001001669	NP_001001669	A1IGU5	ARH37_HUMAN	hypothetical protein LOC389337	547	SH3 1.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0						AACAGCGGCCGCTGGCTGGTG	0.607													25	95					0	0	0.007291	0	0		A	149006814	A	A	149006814	3	1	157	1	0	0	0	0	1	0	0	0	906	1087	38	1	1678	1	ARHGEF37	5	149006814	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	600229	149006814	31908446	452	86012											
CSF1R	1436	broad.mit.edu	37	chr5	149453020	149453020	+	Missense_Mutation	SNP	A	G	G	1	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	ccacggtcacctcctggatgAggttctgctcagagctcaag	8	9	11	13	1	4	2	3	1	1	1	5	3	5	3	3	3	2	3	3	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:149453020A>G	uc003lrl.2	-	6	1121	c.926T>C	c.(925-927)CTC>CCC	p.L309P	CSF1R_uc011dcd.1_Missense_Mutation_p.L161P|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.L309P|CSF1R_uc011dce.1_Intron	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	309	Extracellular (Potential).|Ig-like C2-type 4.				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	CTCCTGGATGAGGTTCTGCTC	0.517													52	181					0	0	0.01441	0	0		G	149453020	G	G	149453020	3	3	157	1	0	0	0	0	1	0	0	0	3935	304	11	3	2056	3	CSF1R	5	149453020	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	446206	149453020	31462240	453	86013											
ARSI	340075	broad.mit.edu	37	chr5	149677808	149677808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatagaggaagaggggacGctgagggctgtggctggcca	10	5	18	8	1	0	3	0	1	0	2	0	5	0	5	1	6	0	3	1	6	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:149677808G>A	uc003lrv.2	-	2	1268	c.679C>T	c.(679-681)CGT>TGT	p.R227C		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	227						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAGAGGGGACGCTGAGGGCTG	0.632													5	34					0	0	0.008291	0	0		A	149677808	A	A	149677808	3	1	157	1	0	0	0	0	1	0	0	0	995	1087	38	1	1034	1	ARSI	5	149677808	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	224788	149677808	31237452	454	86014											
GRIA1	2890	broad.mit.edu	37	chr5	152873596	152873596	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccagattgatattgtgaacaTcagcgacagctttgagatga	13	11	10	7	1	1	5	1	4	0	2	1	7	1	5	1	0	3	1	1	0	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:152873596T>C	uc003lva.3	+	2	556	c.191T>C	c.(190-192)ATC>ACC	p.I64T	GRIA1_uc003luy.3_Missense_Mutation_p.I64T|GRIA1_uc003luz.3_5'UTR|GRIA1_uc011dcv.1_Intron|GRIA1_uc011dcw.1_Missense_Mutation_p.I64T|GRIA1_uc011dcx.1_5'UTR|GRIA1_uc011dcy.1_Missense_Mutation_p.I74T|GRIA1_uc011dcz.1_Missense_Mutation_p.I74T|GRIA1_uc010jia.1_Missense_Mutation_p.I44T	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	64	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	ATTGTGAACATCAGCGACAGC	0.463													14	148					0	0	0.001855	0	0		C	152873596	C	C	152873596	3	2	157	1	0	0	0	0	1	0	0	0	6783	1435	50	3	197	3	GRIA1	5	152873596	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3195788	152873596	28041664	455	86015											
GRIA1	2890	broad.mit.edu	37	chr5	153085355	153085355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtttggggatctccatcatGattaaaaaaccacagaaatc	16	10	7	8	0	2	2	1	1	1	1	4	3	2	3	2	2	1	1	2	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:153085355G>A	uc003lva.3	+	11	1916	c.1551G>A	c.(1549-1551)ATG>ATA	p.M517I	GRIA1_uc003luy.3_Missense_Mutation_p.M517I|GRIA1_uc003luz.3_Missense_Mutation_p.M422I|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.M437I|GRIA1_uc011dcx.1_Missense_Mutation_p.M448I|GRIA1_uc011dcy.1_Missense_Mutation_p.M527I|GRIA1_uc011dcz.1_Missense_Mutation_p.M527I|GRIA1_uc010jia.1_Missense_Mutation_p.M497I	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	517	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TCTCCATCATGATTAAAAAAC	0.428													49	199					0	0	0.01441	0	0		A	153085355	A	A	153085355	3	1	157	1	0	0	0	0	1	0	0	0	6783	1290	45	4	1593	4	GRIA1	5	153085355	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	211759	153085355	27829905	456	86016											
GRIA1	2890	broad.mit.edu	37	chr5	153144175	153144175	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacgctggaagcaggatctActaaggagttcttcagggta	11	9	14	7	1	3	0	1	0	2	0	3	4	3	4	0	5	2	4	0	5	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:153144175A>G	uc003lva.3	+	12	2370	c.2005A>G	c.(2005-2007)ACT>GCT	p.T669A	GRIA1_uc003luy.3_Missense_Mutation_p.T669A|GRIA1_uc003luz.3_Missense_Mutation_p.T574A|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.T589A|GRIA1_uc011dcx.1_Missense_Mutation_p.T600A|GRIA1_uc011dcy.1_Missense_Mutation_p.T679A|GRIA1_uc011dcz.1_Missense_Mutation_p.T679A	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	669	Glutamate binding (By similarity).|Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AGCAGGATCTACTAAGGAGTT	0.493													6	42					0	0	0.004482	0	0		G	153144175	G	G	153144175	3	3	157	1	0	0	0	0	1	0	0	0	6783	391	14	3	2051	3	GRIA1	5	153144175	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	58820	153144175	27771085	457	86017											
KIF4B	285643	broad.mit.edu	37	chr5	154396385	154396385	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcttctccaagagaatgaaaTcatcaagcagaaactgatcc	16	8	7	10	0	3	4	2	2	1	2	5	5	4	4	2	0	2	2	2	0	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:154396385T>C	uc010jih.1	+	1	3126	c.2966T>C	c.(2965-2967)ATC>ACC	p.I989T		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	989	Interaction with PRC1 (By similarity).|Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GAGAATGAAATCATCAAGCAG	0.443													13	194					0	0	0.001855	0	0		C	154396385	C	C	154396385	3	2	157	1	0	0	0	0	1	0	0	0	8320	1435	50	3	2968	3	KIF4B	5	154396385	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1252210	154396385	26518875	458	86018											
CLINT1	9685	broad.mit.edu	37	chr5	157214796	157214796	+	Missense_Mutation	SNP	A	G	G	1	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	acatccctatgttcatgttcAtgcccatcatgctctggttc	7	15	6	13	0	4	0	3	0	1	0	6	0	5	0	2	1	2	4	2	1	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:157214796A>G	uc003lxj.1	-	12	1926	c.1736T>C	c.(1735-1737)ATG>ACG	p.M579T	CLINT1_uc003lxg.1_Missense_Mutation_p.M116T|CLINT1_uc003lxh.1_Missense_Mutation_p.M153T|CLINT1_uc003lxi.1_Missense_Mutation_p.M579T|CLINT1_uc011ddv.1_Missense_Mutation_p.M597T	NM_014666	NP_055481	Q14677	EPN4_HUMAN	epsin 4	579	Met-rich.				endocytosis|post-Golgi vesicle-mediated transport	clathrin-coated vesicle|cytosol|Golgi apparatus|membrane|perinuclear region of cytoplasm	clathrin binding|lipid binding			ovary(2)|pancreas(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTTCATGTTCATGCCCATCAT	0.542													28	182					0	0	0.005443	0	0		G	157214796	G	G	157214796	3	3	157	1	0	0	0	0	1	0	0	0	3534	217	8	3	145	3	CLINT1	5	157214796	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2818411	157214796	23700464	459	86019											
ODZ2	57451	broad.mit.edu	37	chr5	167674458	167674458	+	Missense_Mutation	SNP	A	G	G	1	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	atgagatgttccggtccctcAtgtactggatgacggtgcaa	9	11	12	9	2	1	2	1	2	0	1	3	4	3	3	2	3	2	3	2	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:167674458A>G	uc010jjd.2	+	27	6487	c.6487A>G	c.(6487-6489)ATG>GTG	p.M2163V	ODZ2_uc003lzr.3_Missense_Mutation_p.M1933V|ODZ2_uc003lzt.3_Missense_Mutation_p.M1536V|ODZ2_uc010jje.2_Missense_Mutation_p.M1427V	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		CCGGTCCCTCATGTACTGGAT	0.522													27	79					0	0	0.007291	0	0		G	167674458	G	G	167674458	3	3	157	1	0	0	0	0	1	0	0	0	10854	217	8	3	6593	3	ODZ2	5	167674458	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	10459662	167674458	13240802	460	86020											
RANBP17	64901	broad.mit.edu	37	chr5	170632540	170632540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgacagcgtatgttgatcGggctggcaagagatcttcga	10	10	13	8	3	1	3	0	2	1	1	3	5	1	3	0	2	1	4	0	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:170632540G>A	uc003mba.2	+	20	2171	c.2155G>A	c.(2155-2157)GGG>AGG	p.G719R	RANBP17_uc003mbb.2_Missense_Mutation_p.G44R|RANBP17_uc003mbd.2_Missense_Mutation_p.G82R|RANBP17_uc010jjs.2_RNA|RANBP17_uc003mbc.2_Missense_Mutation_p.G82R	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	719					mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TATGTTGATCGGGCTGGCAAG	0.438			T	TRD@	ALL								23	72					0	0	0.003954	0	0		A	170632540	A	A	170632540	3	1	157	1	0	0	0	0	1	0	0	0	13052	1116	39	1	2233	1	RANBP17	5	170632540	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2958082	170632540	10282720	461	86021											
UNC5A	90249	broad.mit.edu	37	chr5	176295907	176295907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacacggccaactacacctgCgtggccaagaacatcgtggc	11	5	11	14	3	0	1	0	0	0	1	1	2	0	1	3	3	4	0	3	3	4	1	rs144713374		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:176295907C>T	uc003mey.2	+	5	855	c.663C>T	c.(661-663)TGC>TGT	p.C221C	UNC5A_uc003mex.1_Silent_p.C221C|UNC5A_uc010jkg.1_Silent_p.C181C	NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	221	Ig-like C2-type.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACTACACCTGCGTGGCCAAGA	0.667													9	62					0	0	0.004482	0	0		T	176295907	T	T	176295907	2	4	157	1	0	0	0	0	0	0	0	1	17017	776	27	1		1	UNC5A	5	176295907	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5663367	176295907	4619353	462	86022											
N4BP3	23138	broad.mit.edu	37	chr5	177548793	177548793	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctgagctgctgcaggagCgacttcggggccaggagcag	7	5	19	10	2	0	1	0	1	0	0	1	4	0	3	1	5	5	5	1	5	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:177548793C>T	uc003mik.1	+	5	1673	c.1426C>T	c.(1426-1428)CGA>TGA	p.R476*	N4BP3_uc003mil.1_Nonsense_Mutation_p.R145*	NM_015111	NP_055926	O15049	N4BP3_HUMAN	Nedd4 binding protein 3	476	Potential.					cytoplasmic vesicle membrane					0	all_cancers(89;0.00294)|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)			GCTGCAGGAGCGACTTCGGGG	0.672													3	11					0	0	0.004672	0	0		T	177548793	T	T	177548793	4	4	157	1	0	0	0	0	0	1	0	0	10131	760	27	1	1440	1	N4BP3	5	177548793	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1252886	177548793	3366467	463	86023											
GRM6	2916	broad.mit.edu	37	chr5	178408747	178408747	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttcgcttctgcacattctGctctggatggaagaggatga	8	13	11	9	1	3	2	0	1	3	1	4	5	3	5	0	3	2	3	0	3	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:178408747G>A	uc003mjr.2	-	10	2724	c.2545C>T	c.(2545-2547)CAG>TAG	p.Q849*	GRM6_uc003mjq.2_Nonsense_Mutation_p.Q252*	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	849	Cytoplasmic (Potential).				detection of visible light|visual perception	integral to plasma membrane				lung(4)|ovary(2)|breast(1)|pancreas(1)	8	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)		TGCACATTCTGCTCTGGATGG	0.607													29	132					0	0	0.010818	0	0		A	178408747	A	A	178408747	4	1	157	1	0	0	0	0	0	1	0	0	6817	1328	46	2	92	2	GRM6	5	178408747	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	859954	178408747	2506513	464	86024											
MAML1	9794	broad.mit.edu	37	chr5	179201712	179201712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgcacccaggcctaccCtgtgcggaccgcgggccagg	6	4	14	17	3	0	0	0	0	0	0	0	1	0	1	5	4	3	2	5	4	1	1	rs142452741		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:179201712C>A	uc003mkm.2	+	5	3148	c.2885C>A	c.(2884-2886)CCT>CAT	p.P962H	MAML1_uc003mkn.1_Intron	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	962					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGGCCTACCCTGTGCGGACC	0.687													12	50					7.93312e-07	8.37468e-07	0.00245	1	0		A	179201712	A	A	179201712	3	1	157	1	0	0	0	0	1	0	0	0	9223	681	24	5	2903	5	MAML1	5	179201712	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	792965	179201712	1713548	465	86025											
CNOT6	57472	broad.mit.edu	37	chr5	179991555	179991555	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaacaagacggctgctgaActatttgcttgataatttgt	11	14	10	6	1	0	3	0	2	0	1	0	4	0	4	0	2	4	3	0	2	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr5:179991555A>G	uc003mlx.2	+	5	801	c.452A>G	c.(451-453)AAC>AGC	p.N151S	CNOT6_uc010jld.2_Missense_Mutation_p.N151S|CNOT6_uc010jle.2_Missense_Mutation_p.N151S	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	151					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		CGGCTGCTGAACTATTTGCTT	0.328													31	164					0	0	0.003755	0	0		G	179991555	G	G	179991555	3	3	157	1	0	0	0	0	1	0	0	0	3625	43	2	3	466	3	CNOT6	5	179991555	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	789843	179991555	923705	466	86026											
EXOC2	55770	broad.mit.edu	37	chr6	599181	599181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaatctgccttgtctttccGacctaatacttcttgaaaca	10	14	6	11	1	3	1	0	1	3	0	4	3	4	2	3	1	3	0	3	1	4	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:599181G>A	uc003mtd.2	-	8	921	c.787C>T	c.(787-789)CGG>TGG	p.R263W	EXOC2_uc003mte.2_Missense_Mutation_p.R263W|EXOC2_uc011dho.1_Intron	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	263					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		TTGTCTTTCCGACCTAATACT	0.338													32	287					0	0	0.010818	0	0		A	599181	A	A	599181	3	1	157	1	0	0	0	0	1	0	0	0	5310	1057	37	1	2071	1	EXOC2	6	599181	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08		599181	170515886	467	86027											
PRPF4B	8899	broad.mit.edu	37	chr6	4037685	4037685	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaagatcaaaagatgccagCcccatcaatagatggtctcc	15	7	8	11	0	3	3	2	0	1	3	4	4	3	3	4	1	2	0	4	1	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:4037685C>T	uc003mvv.2	+	3	1384	c.1293C>T	c.(1291-1293)AGC>AGT	p.S431S	PRPF4B_uc003mvw.2_RNA|PRPF4B_uc011dhv.1_RNA	NM_003913	NP_003904	Q13523	PRP4B_HUMAN	serine/threonine-protein kinase PRP4K	431	Arg/Lys-rich (basic).					catalytic step 2 spliceosome	ATP binding|protein binding|protein serine/threonine kinase activity			breast(5)	5	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				AAGATGCCAGCCCCATCAATA	0.428													12	52					0	0	0.013537	0	0		T	4037685	T	T	4037685	2	4	157	1	0	0	0	0	0	0	0	1	12595	738	26	2		2	PRPF4B	6	4037685	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3438504	4037685	167077382	468	86028											
PECI	10455	broad.mit.edu	37	chr6	4117629	4117629	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaacttcagtaacaagtccTtgagcacatgcctctcccgc	12	9	6	14	1	2	1	1	1	1	0	4	1	3	1	3	0	4	2	3	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:4117629T>C	uc003mwf.2	-	9	979	c.942A>G	c.(940-942)CAA>CAG	p.Q314Q	C6orf201_uc003mwa.3_Intron|C6orf201_uc003mvz.3_Intron|C6orf201_uc011dhw.1_Intron|C6orf201_uc003mwb.3_Intron|PECI_uc003mwc.2_Silent_p.Q147Q|PECI_uc003mwd.2_Silent_p.Q284Q|PECI_uc003mwe.2_Silent_p.Q161Q|PECI_uc010jnr.1_RNA	NM_206836	NP_996667	O75521	ECI2_HUMAN	peroxisomal D3,D2-enoyl-CoA isomerase isoform 2	314	ECH-like.				fatty acid metabolic process	mitochondrion|peroxisomal matrix	dodecenoyl-CoA delta-isomerase activity|fatty-acyl-CoA binding				0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				TAACAAGTCCTTGAGCACATG	0.403													35	146					0	0	0.003755	0	0		C	4117629	C	C	4117629	2	2	157	1	0	0	0	0	0	0	0	1	11735	1606	56	3		3	PECI	6	4117629	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	79944	4117629	166997438	469	86029											
CDYL	9425	broad.mit.edu	37	chr6	4892486	4892486	+	Silent	SNP	A	G	G	1	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	gcagcggaaaagccggtcggAgctttattgggccccggtgc	7	7	16	11	4	0	0	0	0	0	0	1	2	0	2	3	5	4	2	3	5	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:4892486A>G	uc003mwi.2	+	4	857	c.726A>G	c.(724-726)GGA>GGG	p.G242G	CDYL_uc003mwj.2_Silent_p.G188G|CDYL_uc003mwk.2_Intron|CDYL_uc011dhx.1_Silent_p.G56G|CDYL_uc011dhy.1_Silent_p.G56G	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	242					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		AGCCGGTCGGAGCTTTATTGG	0.652													9	45					0	0	0.008291	0	0		G	4892486	G	G	4892486	2	3	157	1	0	0	0	0	0	0	0	1	3188	291	11	3		3	CDYL	6	4892486	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	774857	4892486	166222581	470	86030											
MAK	4117	broad.mit.edu	37	chr6	10796519	10796519	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcctaatacctgaccaacTtgaaaatatgggtgtttcaa	13	11	9	8	0	1	2	1	2	0	0	1	2	1	2	3	2	2	1	3	2	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:10796519T>G	uc003mzl.2	-	8	1084	c.855A>C	c.(853-855)CAA>CAC	p.Q285H	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.Q285H|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	285					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				CCTGACCAACTTGAAAATATG	0.373													30	89					0	0	0.007291	0	0		G	10796519	G	G	10796519	3	3	157	1	0	0	0	0	1	0	0	0	9215	1606	56	5	1040	5	MAK	6	10796519	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5904033	10796519	160318548	471	86031											
SIRT5	23408	broad.mit.edu	37	chr6	13584404	13584404	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatattgtggcctgaagcCtccagcgtccacacgaaacc	10	8	9	14	2	0	1	0	1	0	0	2	2	2	1	5	1	3	1	5	1	4	3	rs113600137		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:13584404C>A	uc003nay.2	+	3	358	c.62C>A	c.(61-63)CCT>CAT	p.P21H	SIRT5_uc003naw.2_Missense_Mutation_p.P21H|SIRT5_uc003nax.2_5'UTR|SIRT5_uc011dit.1_Missense_Mutation_p.P21H	NM_012241	NP_036373	Q9NXA8	SIRT5_HUMAN	sirtuin 5 isoform 1	21					chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)	GGCCTGAAGCCTCCAGCGTCC	0.488													33	109					2.47316e-13	2.67608e-13	0.003271	1	0		A	13584404	A	A	13584404	3	1	157	1	0	0	0	0	1	0	0	0	14366	681	24	5	64	5	SIRT5	6	13584404	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2787885	13584404	157530663	472	86032											
JARID2	3720	broad.mit.edu	37	chr6	15496926	15496926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgaagaaggaagtgccGgagcgcagtctggagaggaa	13	4	17	7	3	1	3	0	1	1	2	1	7	1	6	1	4	2	1	1	4	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:15496926G>A	uc003nbj.2	+	7	1714	c.1470G>A	c.(1468-1470)CCG>CCA	p.P490P	JARID2_uc011diu.1_Silent_p.P354P|JARID2_uc011div.1_Silent_p.P318P|JARID2_uc011diw.1_Silent_p.P452P	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	490					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				AGGAAGTGCCGGAGCGCAGTC	0.657													6	25					0	0	0.00308	0	0		A	15496926	A	A	15496926	2	1	157	1	0	0	0	0	0	0	0	1	7961	1103	39	1		1	JARID2	6	15496926	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1912522	15496926	155618141	473	86033											
LRRC16A	55604	broad.mit.edu	37	chr6	25515955	25515955	+	Missense_Mutation	SNP	T	C	C	0	1	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	actcaagactgaggtcaccaTcatcatcaatgccctgggaa	13	8	8	12	0	5	2	5	1	0	1	5	3	5	3	2	2	1	0	2	2	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:25515955T>C	uc011djw.1	+	21	2061	c.1685T>C	c.(1684-1686)ATC>ACC	p.I562T	LRRC16A_uc010jpx.2_Missense_Mutation_p.I562T|LRRC16A_uc010jpy.2_Missense_Mutation_p.I562T	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	562	LRR 8.				actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						GAGGTCACCATCATCATCAAT	0.552													9	15					0	0	0.010729	0	0		C	25515955	C	C	25515955	3	2	157	1	0	0	0	0	1	0	0	0	8989	1435	50	3	1767	3	LRRC16A	6	25515955	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	10019029	25515955	145599112	474	86034											
SLC17A2	10246	broad.mit.edu	37	chr6	25921412	25921412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagtatctggatacctgggCcatgccctggactgtccgaa	10	9	11	11	1	1	0	0	0	1	0	2	3	2	2	4	3	2	1	4	3	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:25921412C>T	uc011dkb.1	-	3	552	c.469G>A	c.(469-471)GCC>ACC	p.A157T	SLC17A2_uc011dkc.1_Missense_Mutation_p.A157T|SLC17A2_uc003nfl.2_Missense_Mutation_p.A157T			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	157					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						GATACCTGGGCCATGCCCTGG	0.448													7	88					0	0	0.001984	0	0		T	25921412	T	T	25921412	3	4	157	1	0	0	0	0	1	0	0	0	14442	739	26	2	873	2	SLC17A2	6	25921412	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	405457	25921412	145193655	475	86035											
BTN3A3	10384	broad.mit.edu	37	chr6	26452153	26452153	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagaggaaaaaaggttgggtCaaaatgacaccggagaacgg	17	4	15	5	2	1	3	1	1	0	2	1	6	1	4	1	5	1	1	1	5	6	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:26452153C>T	uc003nhz.2	+	11	1449	c.1269C>T	c.(1267-1269)GTC>GTT	p.V423V	BTN3A3_uc003nia.2_Silent_p.V381V|BTN3A3_uc011dkn.1_Silent_p.V374V	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	423	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane					0						AAGGTTGGGTCAAAATGACAC	0.498													27	77					0	0	0.007291	0	0		T	26452153	T	T	26452153	2	4	157	1	0	0	0	0	0	0	0	1	1567	813	29	4		4	BTN3A3	6	26452153	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	530741	26452153	144662914	476	86036											
SCAND3	114821	broad.mit.edu	37	chr6	28547153	28547153	+	Missense_Mutation	SNP	A	G	G	1	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	ttgcagaatccagagggatcAtttcttccatagaaacttcc	12	12	7	10	0	2	3	1	0	1	3	5	4	5	4	3	1	2	1	3	1	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:28547153A>G	uc003nlo.2	-	2	1082	c.464T>C	c.(463-465)ATG>ACG	p.M155T		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	155					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CAGAGGGATCATTTCTTCCAT	0.433													43	166					0	0	0.00874	0	0		G	28547153	G	G	28547153	3	3	157	1	0	0	0	0	1	0	0	0	13901	217	8	3	3525	3	SCAND3	6	28547153	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2095000	28547153	142567914	477	86037											
ZNF311	282890	broad.mit.edu	37	chr6	28964030	28964030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaagtttttgccacacctgGcacattcatggagtttctgt	8	15	9	9	0	2	1	1	1	1	0	2	2	2	2	2	2	1	3	2	2	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:28964030G>A	uc003nlu.2	-	7	1262	c.749C>T	c.(748-750)GCC>GTC	p.A250V	ZNF311_uc011dlk.1_Missense_Mutation_p.A158V|ZNF311_uc003nlv.2_Missense_Mutation_p.A158V	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	250	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GCCACACCTGGCACATTCATG	0.383													42	152					0	0	0.006999	0	0		A	28964030	A	A	28964030	3	1	157	1	0	0	0	0	1	0	0	0	17859	1203	42	2	1255	2	ZNF311	6	28964030	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	416877	28964030	142151037	478	86038											
TRIM26	7726	broad.mit.edu	37	chr6	30166679	30166679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggctggccagttgccacaCgggtcggatgttctccttct	5	11	12	13	2	2	0	0	0	2	0	4	1	2	1	3	4	1	3	3	4	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:30166679C>T	uc003npr.2	-	3	411	c.202G>A	c.(202-204)GTG>ATG	p.V68M	TRIM26_uc003nps.2_Missense_Mutation_p.V68M|TRIM26_uc010jry.2_Translation_Start_Site|TRIM26_uc003npt.2_Missense_Mutation_p.V68M|TRIM26_uc003npu.1_Missense_Mutation_p.V68M	NM_003449	NP_003440	Q12899	TRI26_HUMAN	tripartite motif-containing 26	68							DNA binding|zinc ion binding			ovary(2)|lung(1)	3						AGTTGCCACACGGGTCGGATG	0.622													5	74					0	0	0.000602	0	0		T	30166679	T	T	30166679	3	4	157	1	0	0	0	0	1	0	0	0	16526	536	19	1	1445	1	TRIM26	6	30166679	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1202649	30166679	140948388	479	86039											
PPP1R10	5514	broad.mit.edu	37	chr6	30571948	30571948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgttatcatggctcagacGccgcgctgtctcaaatgcat	9	11	9	12	3	3	1	3	0	1	1	4	1	3	1	1	1	1	4	1	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:30571948G>A	uc003nqn.1	-	14	1897	c.1345C>T	c.(1345-1347)CGT>TGT	p.R449C	PPP1R10_uc010jsc.1_Missense_Mutation_p.R103C	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	449	Essential for PPP1CA inhibition (By similarity).|Interaction with WDR82 (By similarity).				protein import into nucleus|transcription, DNA-dependent	PTW/PP1 phosphatase complex	DNA binding|protein phosphatase inhibitor activity|RNA binding|zinc ion binding			ovary(2)|lung(1)|kidney(1)	4						TGGCTCAGACGCCGCGCTGTC	0.557													54	180					0	0	0.01441	0	0		A	30571948	A	A	30571948	3	1	157	1	0	0	0	0	1	0	0	0	12374	1087	38	1	1505	1	PPP1R10	6	30571948	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	405269	30571948	140543119	480	86040											
MDC1	9656	broad.mit.edu	37	chr6	30673671	30673671	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtggaaaggctccagctCtgaggacaagggagcctctg	9	7	16	9	0	2	1	0	1	2	0	3	4	3	4	2	5	2	2	2	5	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:30673671C>A	uc003nrg.3	-	10	3729	c.3289G>T	c.(3289-3291)GAG>TAG	p.E1097*	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Nonsense_Mutation_p.E704*	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1097	Pro-rich.			Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						GGCTCCAGCTCTGAGGACAAG	0.547								Other_conserved_DNA_damage_response_genes					74	279					1.64915e-30	1.8399e-30	0.01441	1	0		A	30673671	A	A	30673671	4	1	157	1	0	0	0	0	0	1	0	0	9421	922	32	5	3004	5	MDC1	6	30673671	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	101723	30673671	140441396	481	86041											
POU5F1	5460	broad.mit.edu	37	chr6	31133735	31133735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagggtgagccccacatcGgcctgtgtatatcccagggt	7	8	12	14	1	0	1	0	1	0	0	2	1	1	1	5	3	1	1	5	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:31133735G>A	uc003nsv.2	-	2	549	c.495C>T	c.(493-495)GCC>GCT	p.A165A	POU5F1_uc003nsu.2_Silent_p.A70A|uc011dnf.1_RNA	NM_002701	NP_002692	Q01860	PO5F1_HUMAN	POU domain, class 5, transcription factor 1	165	POU-specific.				anatomical structure morphogenesis|blastocyst development|BMP signaling pathway involved in heart induction|cardiac cell fate determination|cell fate commitment involved in formation of primary germ layers|mRNA transcription from RNA polymerase II promoter|negative regulation of gene silencing by miRNA|positive regulation of catenin import into nucleus|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|regulation of asymmetric cell division|regulation of heart induction by regulation of canonical Wnt receptor signaling pathway|regulation of methylation-dependent chromatin silencing|response to wounding|somatic stem cell maintenance|somatic stem cell maintenance	cytosol|nucleoplasm|transcription factor complex	miRNA binding|sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|ubiquitin protein ligase binding		EWSR1/POU5F1(10)	skin(7)|salivary_gland(2)|bone(2)|lung(1)|ovary(1)	13						GCCCCACATCGGCCTGTGTAT	0.532			T	EWSR1	sarcoma								6	76					0	0	0.001984	0	0		A	31133735	A	A	31133735	2	1	157	1	0	0	0	0	0	0	0	1	12300	1103	39	1		1	POU5F1	6	31133735	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	460064	31133735	139981332	482	86042											
HLA-B	3106	broad.mit.edu	37	chr6	31322412	31322412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacccccaccacttacacGcagcctgagagtagctccct	9	6	6	20	1	0	1	0	1	0	1	1	2	1	1	6	0	3	3	6	0	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:31322412G>A	uc003nth.2	-	6	1097	c.1043C>T	c.(1042-1044)GCG>GTG	p.A348V	HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Missense_Mutation_p.A227V|HLA-B_uc003nti.1_RNA	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	348	Cytoplasmic (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						CCACTTACACGCAGCCTGAGA	0.572									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				11	69					0	0	0.007413	0	0		A	31322412	A	A	31322412	3	1	157	1	0	0	0	0	1	0	0	0	7212	1087	38	1	53	1	HLA-B	6	31322412	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	188677	31322412	139792655	483	86043											
AIF1	199	broad.mit.edu	37	chr6	31583458	31583458	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cctccatagcaattcctagaCgatcccaaatatagcagtga	14	9	6	12	1	0	2	0	1	0	1	3	3	3	2	4	0	2	2	4	0	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:31583458C>T	uc003nuy.2	+	3	173	c.99C>T	c.(97-99)GAC>GAT	p.D33D	AIF1_uc010jsy.2_Translation_Start_Site|AIF1_uc003nva.2_5'Flank	NM_001623	NP_001614	P55008	AIF1_HUMAN	allograft inflammatory factor 1 isoform 3	33				D -> H (in Ref. 2; AAA92457).	actin filament bundle assembly|cell cycle arrest|inflammatory response|negative regulation of cell proliferation	nucleus|ruffle membrane	actin filament binding|calcium ion binding			ovary(1)	1						AATTCCTAGACGATCCCAAAT	0.562													11	30					0	0	0.010729	0	0		T	31583458	T	T	31583458	2	4	157	1	0	0	0	0	0	0	0	1	424	535	19	1		1	AIF1	6	31583458	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	261046	31583458	139531609	484	86044											
C2	717	broad.mit.edu	37	chr6	31868916	31868916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaactggtcccgcaggaagGgtgagcaggcggccaagatg	10	4	18	9	2	0	2	0	1	0	1	1	4	1	4	2	6	2	2	2	6	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:31868916G>T	uc011dop.1	+	1	141	c.73G>T	c.(73-75)GCT>TCT	p.A25S	C2_uc003nyc.2_Intron|C2_uc011doo.1_Intron|ZBTB12_uc003nyd.1_Missense_Mutation_p.P56H	NM_001145903	NP_001139375	P06681	CO2_HUMAN	complement component 2 isoform 2 preproprotein	148					complement activation, classical pathway|innate immune response|proteolysis	extracellular space	serine-type endopeptidase activity			ovary(1)|skin(1)	2		Ovarian(999;0.00965)		LUAD - Lung adenocarcinoma(999;0.247)		CCGCAGGAAGGGTGAGCAGGC	0.622													18	55					6.49762e-13	7.01278e-13	0.006122	1	0		T	31868916	T	T	31868916	3	4	157	1	0	0	0	0	1	0	0	0	2077	1246	43	5	75	5	C2	6	31868916	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	285458	31868916	139246151	485	86045											
TNXB	7148	broad.mit.edu	37	chr6	32011609	32011609	+	Missense_Mutation	SNP	A	T	T	1	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	cctcatagcgagcgcctgggAtcagcccctggagtttctgg	6	9	13	13	2	3	0	2	0	1	0	3	3	3	2	4	3	3	1	4	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:32011609A>T	uc003nzl.2	-	35	11643	c.11441T>A	c.(11440-11442)ATC>AAC	p.I3814N	TNXB_uc003nzg.1_Missense_Mutation_p.I245N|TNXB_uc003nzh.1_Missense_Mutation_p.I283N	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	3861	Fibronectin type-III 30.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						AGCGCCTGGGATCAGCCCCTG	0.622													31	159					0	0	0.013726	0	0		T	32011609	T	T	32011609	3	4	157	1	0	0	0	0	1	0	0	0	16371	333	12	5	3312	5	TNXB	6	32011609	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	142693	32011609	139103458	486	86046											
PRRT1	80863	broad.mit.edu	37	chr6	32117369	32117369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccagaagcaacagatggtgGtcagcaccgcgatgggcatg	11	5	15	10	2	1	2	1	0	0	2	1	3	1	2	2	3	3	3	2	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:32117369G>A	uc003nzt.2	-	3	805	c.689C>T	c.(688-690)ACC>ATC	p.T230I	PRRT1_uc003nzs.2_Missense_Mutation_p.T271I|PRRT1_uc003nzu.2_Silent_p.D122D	NM_030651	NP_085154	Q99946	PRRT1_HUMAN	NG5 protein	230	Helical; (Potential).				response to biotic stimulus	integral to membrane				breast(1)	1						ACAGATGGTGGTCAGCACCGC	0.672													9	47					0	0	0.010729	0	0		A	32117369	A	A	32117369	3	1	157	1	0	0	0	0	1	0	0	0	12631	1261	44	4	239	4	PRRT1	6	32117369	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	105760	32117369	138997698	487	86047											
EGFL8	80864	broad.mit.edu	37	chr6	32134513	32134513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgtggcgggaggtgaggcGggaggttcagcagacccatg	8	7	19	7	2	1	2	1	1	0	1	1	4	1	4	1	6	1	2	1	6	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:32134513G>A	uc003oab.1	+	4	318	c.260G>A	c.(259-261)CGG>CAG	p.R87Q	PPT2_uc003nzy.1_RNA|EGFL8_uc003oac.1_Missense_Mutation_p.R87Q	NM_030652	NP_085155	Q99944	EGFL8_HUMAN	NG3 protein precursor	87	EMI.					extracellular region|integral to membrane	calcium ion binding				0						GAGGTGAGGCGGGAGGTTCAG	0.652													11	40					0	0	0.010729	0	0		A	32134513	A	A	32134513	3	1	157	1	0	0	0	0	1	0	0	0	4971	1116	39	1	270	1	EGFL8	6	32134513	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	17144	32134513	138980554	488	86048											
IP6K3	117283	broad.mit.edu	37	chr6	33693227	33693227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgacctacctgcatgccGcagatgcgcacacccaggca	9	5	10	17	3	0	1	0	0	0	1	0	2	0	1	4	1	5	4	4	1	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:33693227G>A	uc010jvf.2	-	6	1292	c.756C>T	c.(754-756)TGC>TGT	p.C252C	IP6K3_uc003ofb.2_Silent_p.C252C	NM_001142883	NP_001136355	Q96PC2	IP6K3_HUMAN	inositol hexakisphosphate kinase 3	252					inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0						CCTGCATGCCGCAGATGCGCA	0.667													11	32					0	0	0.001855	0	0		A	33693227	A	A	33693227	2	1	157	1	0	0	0	0	0	0	0	1	7806	1079	38	1		1	IP6K3	6	33693227	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1558714	33693227	137421840	489	86049											
IP6K3	117283	broad.mit.edu	37	chr6	33703227	33703227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcctgccctcatgtccccGgcgtctgcgctgttttgcac	3	11	10	17	4	2	0	1	0	1	0	3	0	3	0	4	1	3	3	4	1	0	2	rs150212654		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:33703227G>A	uc010jvf.2	-	3	563	c.27C>T	c.(25-27)GCC>GCT	p.A9A	IP6K3_uc003ofb.2_Silent_p.A9A	NM_001142883	NP_001136355	Q96PC2	IP6K3_HUMAN	inositol hexakisphosphate kinase 3	9					inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0						TCATGTCCCCGGCGTCTGCGC	0.617													14	33					0	0	0.001855	0	0		A	33703227	A	A	33703227	2	1	157	1	0	0	0	0	0	0	0	1	7806	1103	39	1		1	IP6K3	6	33703227	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	10000	33703227	137411840	490	86050											
LHFPL5	222662	broad.mit.edu	37	chr6	35773664	35773664	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctactgcgtgggtaacgtgCtgtcctccgagctcatctgc	5	11	11	14	3	2	0	1	0	1	0	4	1	4	0	3	1	6	3	3	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:35773664C>A	uc003olg.1	+	1	594	c.217C>A	c.(217-219)CTG>ATG	p.L73M		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	73	Helical; (Potential).					integral to membrane				skin(1)	1						GGGTAACGTGCTGTCCTCCGA	0.587													43	195					1.48734e-19	1.64523e-19	0.013114	1	0		A	35773664	A	A	35773664	3	1	157	1	0	0	0	0	1	0	0	0	8784	796	28	5	219	5	LHFPL5	6	35773664	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2070437	35773664	135341403	491	86051											
BRPF3	27154	broad.mit.edu	37	chr6	36198280	36198280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcaagatgctggaaggccGcaagaccagcatccgcaagt	12	5	12	12	2	1	2	1	0	0	2	2	3	2	3	3	2	2	5	3	2	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:36198280G>A	uc003olv.3	+	13	3736	c.3512G>A	c.(3511-3513)CGC>CAC	p.R1171H	BRPF3_uc010jwb.2_Missense_Mutation_p.R901H|BRPF3_uc011dtj.1_RNA|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Missense_Mutation_p.R837H|BRPF3_uc010jwd.2_Missense_Mutation_p.R73H	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	1171					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						CTGGAAGGCCGCAAGACCAGC	0.582													3	45					0	0	0.004672	0	0		A	36198280	A	A	36198280	3	1	157	1	0	0	0	0	1	0	0	0	1524	1087	38	1	3558	1	BRPF3	6	36198280	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	424616	36198280	134916787	492	86052											
ZFAND3	60685	broad.mit.edu	37	chr6	38120049	38120049	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatcgcctccccgagcagCacgactgcacattcgaccac	10	6	7	18	4	0	0	0	0	0	0	3	3	1	0	4	0	4	3	4	0	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:38120049C>T	uc003onx.2	+	6	983	c.568C>T	c.(568-570)CAC>TAC	p.H190Y		NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3	190	AN1-type.						DNA binding|zinc ion binding			ovary(1)	1						CCCCGAGCAGCACGACTGCAC	0.597													33	129					0	0	0.012213	0	0		T	38120049	T	T	38120049	3	4	157	1	0	0	0	0	1	0	0	0	17654	710	25	2	590	2	ZFAND3	6	38120049	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1921769	38120049	132995018	493	86053											
KCNK5	8645	broad.mit.edu	37	chr6	39159505	39159505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacgaagtagcggtacagggCgtggtagttggcgctggggt	7	8	19	7	4	0	0	0	0	0	0	0	1	0	0	0	6	2	5	0	6	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:39159505C>T	uc003oon.2	-	5	1025	c.661G>A	c.(661-663)GCC>ACC	p.A221T		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	221					excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						CGGTACAGGGCGTGGTAGTTG	0.567													28	133					0	0	0.007291	0	0		T	39159505	T	T	39159505	3	4	157	1	0	0	0	0	1	0	0	0	8085	768	27	1	842	1	KCNK5	6	39159505	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1039456	39159505	131955562	494	86054											
KIF6	221458	broad.mit.edu	37	chr6	39693056	39693056	+	Silent	SNP	T	G	G	0	1	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	ccggacagggggcttcacccTcgcgaatatctggatagtct	8	9	12	12	3	3	0	1	0	2	0	4	3	3	2	2	4	0	1	2	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:39693056T>G	uc003oot.2	-	1	126	c.31A>C	c.(31-33)AGG>CGG	p.R11R	KIF6_uc011dua.1_Silent_p.R11R|KIF6_uc010jxb.1_Silent_p.R11R	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	11	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						GGCTTCACCCTCGCGAATATC	0.552													43	180					0	0	0.01441	0	0		G	39693056	G	G	39693056	2	3	157	1	0	0	0	0	0	0	0	1	8324	1550	54	5		5	KIF6	6	39693056	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	533551	39693056	131422011	495	86055											
CUL7	9820	broad.mit.edu	37	chr6	43017887	43017887	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgggcctccagcgccaGgcaggcagggctgtgaaaat	9	6	15	11	1	1	1	1	1	0	0	2	1	2	1	3	4	1	3	3	4	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:43017887G>A	uc003otq.2	-	6	1686	c.1383C>T	c.(1381-1383)GCC>GCT	p.A461A	CUL7_uc011dvb.1_Silent_p.A545A|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	461					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			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)			TCCAGCGCCAGGCAGGCAGGG	0.577													9	198					0	0	0.006214	0	0		A	43017887	A	A	43017887	2	1	157	1	0	0	0	0	0	0	0	1	4063	987	35	4		4	CUL7	6	43017887	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3324831	43017887	128097180	496	86056											
CUL9	23113	broad.mit.edu	37	chr6	43181612	43181612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtattctcaaagcccatGgggaaaagggcctccacatt	11	10	9	11	1	1	0	1	0	1	0	4	1	2	1	3	3	1	1	3	3	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:43181612G>A	uc003ouk.2	+	29	5725	c.5650G>A	c.(5650-5652)GGG>AGG	p.G1884R	CUL9_uc003oul.2_Missense_Mutation_p.G1856R|CUL9_uc010jyk.2_Missense_Mutation_p.G1036R|CUL9_uc003oun.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1884					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CAAAGCCCATGGGGAAAAGGG	0.532													32	114					0	0	0.004289	0	0		A	43181612	A	A	43181612	3	1	157	1	0	0	0	0	1	0	0	0	4064	1348	47	4	5760	4	CUL9	6	43181612	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	163725	43181612	127933455	497	86057											
RUNX2	860	broad.mit.edu	37	chr6	45390650	45390650	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acttcctgtgctcggtgctgCcctcgcactggcgctgcaac	4	10	11	16	3	0	0	0	0	0	0	3	0	1	0	2	2	5	5	2	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:45390650C>A	uc011dvx.1	+	3	589	c.379C>A	c.(379-381)CCC>ACC	p.P127T	RUNX2_uc011dvy.1_Missense_Mutation_p.P127T|RUNX2_uc003oxt.2_Missense_Mutation_p.P113T	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	127	Runt.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						CTCGGTGCTGCCCTCGCACTG	0.572													3	27					0.00909568	0.00919923	0.009096	1	0		A	45390650	A	A	45390650	3	1	157	1	0	0	0	0	1	0	0	0	13773	739	26	5	401	5	RUNX2	6	45390650	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2209038	45390650	125724417	498	86058											
TFAP2D	83741	broad.mit.edu	37	chr6	50696582	50696582	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaaggtggcacctgtgtGgtcaaccccacagacttatt	9	10	9	13	0	1	1	1	0	0	1	2	1	2	1	4	3	1	1	4	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:50696582G>A	uc003paf.2	+	4	1124	c.612G>A	c.(610-612)GTG>GTA	p.V204V	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	204							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					GCACCTGTGTGGTCAACCCCA	0.443													43	160					0	0	0.013114	0	0		A	50696582	A	A	50696582	2	1	157	1	0	0	0	0	0	0	0	1	15815	1335	47	4		4	TFAP2D	6	50696582	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5305932	50696582	120418485	499	86059											
DST	667	broad.mit.edu	37	chr6	56382399	56382399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtaatccaggataactcaGcatcagctgcttggtcaaac	13	9	8	11	0	3	0	3	0	0	0	4	1	4	1	1	2	5	4	1	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:56382399G>A	uc003pdf.2	-	64	11820	c.11792C>T	c.(11791-11793)GCT>GTT	p.A3931V	DST_uc003pcz.3_Missense_Mutation_p.A3753V|DST_uc011dxj.1_Missense_Mutation_p.A3782V|DST_uc011dxk.1_Missense_Mutation_p.A3793V|DST_uc003pcy.3_Missense_Mutation_p.A3427V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5839	Spectrin 10.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GGATAACTCAGCATCAGCTGC	0.393													22	40					0	0	0.014323	0	0		A	56382399	A	A	56382399	3	1	157	1	0	0	0	0	1	0	0	0	4789	971	34	2	5371	2	DST	6	56382399	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5685817	56382399	114732668	500	86060											
KHDRBS2	202559	broad.mit.edu	37	chr6	62887178	62887178	+	Missense_Mutation	SNP	T	A	A	0	1	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	caagatacttcttttcttcgTcttccttttttccatcagaa	8	19	3	11	1	4	2	1	0	3	2	7	2	6	2	2	0	1	0	2	0	3	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:62887178T>A	uc003peg.2	-	2	378	c.131A>T	c.(130-132)GAC>GTC	p.D44V		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	44					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		CTTTTCTTCGTCTTCCTTTTT	0.338													15	50					0	0	0.00245	0	0		A	62887178	A	A	62887178	3	1	157	1	0	0	0	0	1	0	0	0	8163	1667	58	5	950	5	KHDRBS2	6	62887178	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	6504779	62887178	108227889	501	86061											
COL9A1	1297	broad.mit.edu	37	chr6	71004218	71004218	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcttccagtcattcgaaaCgtcgtcaagaaggagtattc	11	11	10	9	3	2	1	2	0	0	1	6	3	3	2	1	1	2	2	1	1	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:71004218C>T	uc003pfg.3	-	5	507	c.348G>A	c.(346-348)ACG>ACA	p.T116T		NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	116	Nonhelical region (NC4).|TSP N-terminal.				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						TCATTCGAAACGTCGTCAAGA	0.393													52	216					0	0	0.01441	0	0		T	71004218	T	T	71004218	2	4	157	1	0	0	0	0	0	0	0	1	3710	523	19	1		1	COL9A1	6	71004218	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	8117040	71004218	100110849	502	86062											
RNGTT	8732	broad.mit.edu	37	chr6	89614482	89614482	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaagaagcacttgacccGggttctgattccttctttcc	9	12	7	13	1	2	3	0	2	2	1	4	3	4	3	4	1	1	2	4	1	3	5	rs144619191	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:89614482G>A	uc003pmr.2	-	6	856	c.636C>T	c.(634-636)CCC>CCT	p.P212P	RNGTT_uc003pms.2_Silent_p.P212P|RNGTT_uc011dzu.1_Silent_p.P152P|RNGTT_uc003pmt.2_Silent_p.P212P	NM_003800	NP_003791	O60942	MCE1_HUMAN	RNA guanylyltransferase and 5'-phosphatase	212	TPase.			P -> T (in Ref. 6; AAH19954).	interspecies interaction between organisms|mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	GTP binding|mRNA guanylyltransferase activity|polynucleotide 5'-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;4.07e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;6.86e-05)		BRCA - Breast invasive adenocarcinoma(108;0.151)		CACTTGACCCGGGTTCTGATT	0.393													33	129					0	0	0.004289	0	0		A	89614482	A	A	89614482	2	1	157	1	0	0	0	0	0	0	0	1	13528	1103	39	1		1	RNGTT	6	89614482	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	18610264	89614482	81500585	503	86063											
BACH2	60468	broad.mit.edu	37	chr6	90661494	90661494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcaggaactcagcacagcGgatgacctcgcggatgtttt	9	8	13	11	4	1	1	1	1	0	0	2	4	1	4	1	3	3	3	1	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:90661494G>A	uc011eab.1	-	7	1140	c.331C>T	c.(331-333)CGC>TGC	p.R111C	BACH2_uc003pnw.2_Missense_Mutation_p.R111C|BACH2_uc010kch.2_Missense_Mutation_p.R111C	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	111						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TCAGCACAGCGGATGACCTCG	0.562													24	64					0	0	0.00333	0	0		A	90661494	A	A	90661494	3	1	157	1	0	0	0	0	1	0	0	0	1285	1116	39	1	2206	1	BACH2	6	90661494	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1047012	90661494	80453573	504	86064											
SIM1	6492	broad.mit.edu	37	chr6	100838484	100838484	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtggtctcctgctgtctgaTgaggagatatatccgaatgc	8	12	13	8	1	2	3	0	2	2	1	4	5	3	3	2	3	2	1	2	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:100838484T>C	uc003pqj.3	-	11	2261	c.2054A>G	c.(2053-2055)CAT>CGT	p.H685R	SIM1_uc010kcu.2_Missense_Mutation_p.H685R	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	685	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TGCTGTCTGATGAGGAGATAT	0.463													32	142					0	0	0.009535	0	0		C	100838484	C	C	100838484	3	2	157	1	0	0	0	0	1	0	0	0	14348	1464	51	3	250	3	SIM1	6	100838484	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	10176990	100838484	70276583	505	86065											
HACE1	57531	broad.mit.edu	37	chr6	105198303	105198303	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcattgatctgaggctgaatGgctcttgtcattcgaagttc	8	14	11	8	1	3	3	1	3	2	0	5	4	3	3	0	2	0	4	0	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:105198303G>T	uc003pqu.1	-	20	2533	c.2256C>A	c.(2254-2256)GCC>GCA	p.A752A	HACE1_uc010kcy.1_Silent_p.A234A|HACE1_uc010kcz.1_Silent_p.A537A|HACE1_uc010kcx.1_Silent_p.A161A|HACE1_uc003pqt.1_Silent_p.A405A	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	752	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		GAGGCTGAATGGCTCTTGTCA	0.373													10	47					0.00621372	0.00629577	0.006214	1	0		T	105198303	T	T	105198303	2	4	157	1	0	0	0	0	0	0	0	1	6956	1335	47	5		5	HACE1	6	105198303	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4359819	105198303	65916764	506	86066											
SEC63	11231	broad.mit.edu	37	chr6	108222672	108222672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaagtgcagtagagtgtgaCgatctgattcttttaaactc	11	13	11	6	1	2	3	0	2	2	1	3	5	2	4	0	1	2	2	0	1	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:108222672C>T	uc003psc.3	-	13	1528	c.1259G>A	c.(1258-1260)CGT>CAT	p.R420H	SEC63_uc003psb.3_Missense_Mutation_p.R280H	NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	420	SEC63 1.|Cytoplasmic (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)		TAGAGTGTGACGATCTGATTC	0.328													13	89					0	0	0.013537	0	0		T	108222672	T	T	108222672	3	4	157	1	0	0	0	0	1	0	0	0	14030	536	19	1	1059	1	SEC63	6	108222672	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3024369	108222672	62892395	507	86067											
FOXO3	2309	broad.mit.edu	37	chr6	108985139	108985139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacggtggaactgccacGgctgactgatatggcaggca	9	7	15	10	2	0	2	0	2	0	0	0	3	0	3	1	5	3	4	1	5	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:108985139G>A	uc003psk.2	+	3	1419	c.1103G>A	c.(1102-1104)CGG>CAG	p.R368Q	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Missense_Mutation_p.R368Q|FOXO3_uc011ean.1_Missense_Mutation_p.R148Q|FOXO3_uc010kdj.1_Missense_Mutation_p.R148Q	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	368					antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		GAACTGCCACGGCTGACTGAT	0.572													5	33					0	0	0.008291	0	0		A	108985139	A	A	108985139	3	1	157	1	0	0	0	0	1	0	0	0	6038	1116	39	1	1109	1	FOXO3	6	108985139	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	762467	108985139	62129928	508	86068											
ARMC2	84071	broad.mit.edu	37	chr6	109294701	109294701	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccttcctggaacccctgcCcattccctctttctaacatg	7	12	4	18	0	2	0	0	0	2	0	4	1	4	1	6	1	3	0	6	1	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:109294701C>A	uc003pss.3	+	18	2762	c.2588C>A	c.(2587-2589)CCC>CAC	p.P863H	ARMC2_uc011eao.1_Missense_Mutation_p.P698H	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	863							binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		GAACCCCTGCCCATTCCCTCT	0.418													41	228					2.59497e-14	2.82055e-14	0.007835	1	0		A	109294701	A	A	109294701	3	1	157	1	0	0	0	0	1	0	0	0	952	623	22	5	2654	5	ARMC2	6	109294701	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	309562	109294701	61820366	509	86069											
GJA1	2697	broad.mit.edu	37	chr6	121768103	121768103	+	Missense_Mutation	SNP	T	C	C	0	1	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	cattttccgaatcctgctgcTggggacagcggttgagtcag	7	11	13	10	2	1	1	1	1	0	0	3	3	3	2	2	3	3	3	2	3	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:121768103T>C	uc003pyr.2	+	2	360	c.110T>C	c.(109-111)CTG>CCG	p.L37P	GJA1_uc011ebo.1_Intron|GJA1_uc011ebp.1_5'UTR	NM_000165	NP_000156	P17302	CXA1_HUMAN	connexin 43	37	Extracellular (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|heart development|muscle contraction|positive regulation of I-kappaB kinase/NF-kappaB cascade	connexon complex|Golgi-associated vesicle membrane|integral to plasma membrane|membrane raft	ion transmembrane transporter activity|signal transducer activity			ovary(2)	2				GBM - Glioblastoma multiforme(226;0.00252)	Carvedilol(DB01136)	ATCCTGCTGCTGGGGACAGCG	0.507													19	118					0	0	0.006122	0	0		C	121768103	C	C	121768103	3	2	157	1	0	0	0	0	1	0	0	0	6415	1580	55	3	112	3	GJA1	6	121768103	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	12473402	121768103	49346964	510	86070											
PTPRK	5796	broad.mit.edu	37	chr6	128316642	128316642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attaatataatctgaggaagGatcatcctctacgggttgca	13	12	9	7	1	3	1	1	1	2	0	4	3	4	3	1	3	2	2	1	3	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:128316642G>A	uc003qbk.2	-	18	3173	c.2806C>T	c.(2806-2808)CCT>TCT	p.P936S	PTPRK_uc003qbj.2_Missense_Mutation_p.P937S|PTPRK_uc010kfc.2_Missense_Mutation_p.P937S|PTPRK_uc011ebu.1_Missense_Mutation_p.P953S	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	936	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TCTGAGGAAGGATCATCCTCT	0.294													9	70					0	0	0.004482	0	0		A	128316642	A	A	128316642	3	1	157	1	0	0	0	0	1	0	0	0	12830	1174	41	4	1587	4	PTPRK	6	128316642	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6548539	128316642	42798425	511	86071											
LAMA2	3908	broad.mit.edu	37	chr6	129419458	129419458	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacacggagtgcctaacgctTtacaatatttatccccgcac	11	10	7	13	3	0	0	0	0	0	0	1	2	1	1	3	1	3	2	3	1	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:129419458T>C	uc003qbn.2	+	4	642	c.537T>C	c.(535-537)CTT>CTC	p.L179L	LAMA2_uc003qbo.2_Silent_p.L179L	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	179	Laminin N-terminal.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GCCTAACGCTTTACAATATTT	0.483													27	108					0	0	0.004656	0	0		C	129419458	C	C	129419458	2	2	157	1	0	0	0	0	0	0	0	1	8622	1828	64	3		3	LAMA2	6	129419458	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1102816	129419458	41695609	512	86072											
LAMA2	3908	broad.mit.edu	37	chr6	129813110	129813110	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgacagttgaacagcctAtcgaagttaaaaagcttttc	14	11	7	9	1	0	2	0	2	0	0	2	3	0	2	2	0	3	3	2	0	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:129813110A>G	uc003qbn.2	+	56	8068	c.7963A>G	c.(7963-7965)ATC>GTC	p.I2655V	LAMA2_uc003qbo.2_Missense_Mutation_p.I2651V|uc003qbq.2_Intron	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	2655	Laminin G-like 3.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		TGAACAGCCTATCGAAGTTAA	0.373													23	69					0	0	0.00278	0	0		G	129813110	G	G	129813110	3	3	157	1	0	0	0	0	1	0	0	0	8622	449	16	3	8189	3	LAMA2	6	129813110	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	393652	129813110	41301957	513	86073											
MAP3K5	4217	broad.mit.edu	37	chr6	136913687	136913687	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgggtgaaactgagccgtActcactgctgctgctggtgt	6	11	14	10	2	1	2	1	2	0	0	2	2	1	2	1	2	6	4	1	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:136913687A>G	uc003qhc.2	-	22	3305	c.2944T>C	c.(2944-2946)TAC>CAC	p.Y982H	MAP3K5_uc011edj.1_Missense_Mutation_p.Y229H|MAP3K5_uc011edk.1_Missense_Mutation_p.Y828H	NM_005923	NP_005914	Q99683	M3K5_HUMAN	mitogen-activated protein kinase kinase kinase	982					activation of JUN kinase activity|activation of MAPKK activity|cellular response to hydrogen peroxide|induction of apoptosis by extracellular signals|interspecies interaction between organisms		ATP binding|caspase activator activity|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein phosphatase binding			ovary(2)|skin(2)|lung(1)	5	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00137)|OV - Ovarian serous cystadenocarcinoma(155;0.00569)		ACTGAGCCGTACTCACTGCTG	0.502													7	110					0	0	0.001984	0	0		G	136913687	G	G	136913687	3	3	157	1	0	0	0	0	1	0	0	0	9271	391	14	3	1216	3	MAP3K5	6	136913687	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	7100577	136913687	34201380	514	86074											
IL20RA	53832	broad.mit.edu	37	chr6	137329811	137329811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggacgaaggactccacgtGtacgcagtaaagagtgttcg	11	8	14	8	4	0	1	0	0	0	1	2	4	1	3	1	2	1	4	1	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:137329811G>A	uc003qhj.2	-	5	1082	c.649C>T	c.(649-651)CAC>TAC	p.H217Y	IL20RA_uc011edl.1_Missense_Mutation_p.H168Y|IL20RA_uc003qhk.2_Missense_Mutation_p.H106Y|IL20RA_uc003qhi.2_5'UTR	NM_014432	NP_055247	Q9UHF4	I20RA_HUMAN	interleukin 20 receptor, alpha precursor	217	Extracellular (Potential).|Fibronectin type-III 2.					integral to membrane	receptor activity			ovary(2)|skin(2)	4	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000351)|OV - Ovarian serous cystadenocarcinoma(155;0.00459)		GACTCCACGTGTACGCAGTAA	0.532													10	208					0	0	0.006214	0	0		A	137329811	A	A	137329811	3	1	157	1	0	0	0	0	1	0	0	0	7684	1377	48	4	1024	4	IL20RA	6	137329811	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	416124	137329811	33785256	515	86075											
TNFAIP3	7128	broad.mit.edu	37	chr6	138201244	138201244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggaaagtcagtcccacagCgtccaggttccagaacacca	13	5	10	13	1	1	1	1	0	0	1	4	2	4	2	4	2	2	1	4	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:138201244C>T	uc003qhr.2	+	8	2009	c.1943C>T	c.(1942-1944)GCG>GTG	p.A648V	TNFAIP3_uc003qhs.2_Missense_Mutation_p.A648V	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	648	Interaction with NAF1 (By similarity).				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		AGTCCCACAGCGTCCAGGTTC	0.517			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								14	87					0	0	0.00245	0	0		T	138201244	T	T	138201244	3	4	157	1	0	0	0	0	1	0	0	0	16299	768	27	1	1969	1	TNFAIP3	6	138201244	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	871433	138201244	32913823	516	86076											
FBXO30	84085	broad.mit.edu	37	chr6	146126057	146126057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagcccaagtgtctgaaaCggacttggatttgaaagctg	11	10	11	9	1	1	2	0	2	1	0	2	4	2	4	2	2	3	1	2	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:146126057C>T	uc003qla.2	-	2	1684	c.1485G>A	c.(1483-1485)CCG>CCA	p.P495P	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	495							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		GTGTCTGAAACGGACTTGGAT	0.433													35	136					0	0	0.003271	0	0		T	146126057	T	T	146126057	2	4	157	1	0	0	0	0	0	0	0	1	5754	523	19	1		1	FBXO30	6	146126057	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7924813	146126057	24989010	517	86077											
GRM1	2911	broad.mit.edu	37	chr6	146480484	146480484	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctgattgtttctggacagGgaattatggggagagcggaa	10	11	16	4	1	1	2	0	1	1	1	1	6	1	5	0	5	2	2	0	5	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:146480484G>T	uc010khw.1	+	3	1171	c.701G>T	c.(700-702)GGG>GTG	p.G234V	GRM1_uc010khu.1_Missense_Mutation_p.G234V|GRM1_uc010khv.1_Missense_Mutation_p.G234V|GRM1_uc003qll.2_Missense_Mutation_p.G234V|GRM1_uc011edz.1_Missense_Mutation_p.G234V|GRM1_uc011eea.1_Missense_Mutation_p.G234V	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	234	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TTCTGGACAGGGAATTATGGG	0.478													36	134					5.43694e-19	6.00625e-19	0.005524	1	0		T	146480484	T	T	146480484	3	4	157	1	0	0	0	0	1	0	0	0	6812	1246	43	5	707	5	GRM1	6	146480484	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	354427	146480484	24634583	518	86078											
C6orf97	80129	broad.mit.edu	37	chr6	151857487	151857487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctttcggaagtcccggtcaCgcgggagcagttaaaccact	9	9	11	12	4	2	0	1	0	1	0	4	2	3	2	2	3	2	2	2	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:151857487C>T	uc003qol.2	+	2	181	c.92C>T	c.(91-93)ACG>ATG	p.T31M		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	31	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		GTCCCGGTCACGCGGGAGCAG	0.433													20	140					0	0	0.010504	0	0		T	151857487	T	T	151857487	3	4	157	1	0	0	0	0	1	0	0	0	2377	536	19	1	98	1	C6orf97	6	151857487	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5377003	151857487	19257580	519	86079											
SYNE1	23345	broad.mit.edu	37	chr6	152776602	152776602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctctggatcccccttttcctCcaggccctcctgagcaatcc	5	11	6	19	0	1	1	0	1	1	0	6	2	6	2	7	2	1	1	7	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:152776602C>T	uc010kiw.2	-	24	3453	c.2851G>A	c.(2851-2853)GAG>AAG	p.E951K	SYNE1_uc003qot.3_Missense_Mutation_p.E958K|SYNE1_uc003qou.3_Missense_Mutation_p.E951K|SYNE1_uc010kjb.1_Missense_Mutation_p.E934K|SYNE1_uc003qow.2_Missense_Mutation_p.E246K|SYNE1_uc003qox.1_Missense_Mutation_p.E467K|SYNE1_uc003qoz.2_Missense_Mutation_p.E383K|SYNE1_uc003qoy.2_Missense_Mutation_p.E518K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	951	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCCTTTTCCTCCAGGCCCTCC	0.522										HNSCC(10;0.0054)			35	115					0	0	0.003271	0	0		T	152776602	T	T	152776602	3	4	157	1	0	0	0	0	1	0	0	0	15470	864	30	4	24107	4	SYNE1	6	152776602	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	919115	152776602	18338465	520	86080											
TIAM2	26230	broad.mit.edu	37	chr6	155577810	155577810	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaatacccacaccccggctTggcagattttgccgacaatc	11	8	8	14	2	0	1	0	0	0	1	1	3	0	1	4	2	2	2	4	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:155577810T>C	uc003qqb.2	+	29	5934	c.4661T>C	c.(4660-4662)TTG>TCG	p.L1554S	TIAM2_uc003qqe.2_Missense_Mutation_p.L1554S|TIAM2_uc010kjj.2_Missense_Mutation_p.L1116S|TIAM2_uc003qqf.2_Missense_Mutation_p.L930S|TIAM2_uc011efl.1_Missense_Mutation_p.L898S|TIAM2_uc003qqg.2_Missense_Mutation_p.L866S|TIAM2_uc003qqh.2_Missense_Mutation_p.L479S|uc003qqi.1_RNA	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1554					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CACCCCGGCTTGGCAGATTTT	0.587													7	36					0	0	0.006214	0	0		C	155577810	C	C	155577810	3	2	157	1	0	0	0	0	1	0	0	0	15916	1821	63	3	4755	3	TIAM2	6	155577810	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2801208	155577810	15537257	521	86081											
TFB1M	51106	broad.mit.edu	37	chr6	155581523	155581523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggagtgaagtgcaccacGcccacgtccaccttcgttgt	9	8	11	13	3	0	1	0	1	0	0	2	2	1	2	4	1	1	2	4	1	2	2	rs149796947	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:155581523G>A	uc003qqj.3	-	6	742	c.678C>T	c.(676-678)GGC>GGT	p.G226G	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	226					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		AGTGCACCACGCCCACGTCCA	0.438													30	65					0	0	0.007291	0	0		A	155581523	A	A	155581523	2	1	157	1	0	0	0	0	0	0	0	1	15818	1074	38	1		1	TFB1M	6	155581523	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3713	155581523	15533544	522	86082											
ARID1B	57492	broad.mit.edu	37	chr6	157522620	157522620	+	Missense_Mutation	SNP	T	A	A	0	1	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	aaagattacctccaaagataTcggtaagaattccaaagctt	17	10	6	8	1	0	3	0	0	0	3	3	3	2	3	3	1	2	2	3	1	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:157522620T>A	uc003qqn.2	+	18	4990	c.4838T>A	c.(4837-4839)ATC>AAC	p.I1613N	ARID1B_uc003qqo.2_Missense_Mutation_p.I1573N|ARID1B_uc003qqp.2_Missense_Mutation_p.I1560N	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1618					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TCCAAAGATATCGGTAAGAAT	0.408													35	171					0	0	0.004878	0	0		A	157522620	A	A	157522620	3	1	157	1	0	0	0	0	1	0	0	0	914	1435	50	5	4962	5	ARID1B	6	157522620	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1941097	157522620	13592447	523	86083											
SYNJ2	8871	broad.mit.edu	37	chr6	158499313	158499313	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctacaagcgtctgatcacaGgtgaggtcctgacttccatg	9	10	11	11	1	2	3	1	3	1	0	4	3	4	3	2	2	2	1	2	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:158499313G>T	uc003qqx.1	+	18	2642	c.2567G>T	c.(2566-2568)AGA>ATA	p.R856I	SYNJ2_uc003qqw.1_Missense_Mutation_p.R856I|SYNJ2_uc003qqy.1_Missense_Mutation_p.R569I|SYNJ2_uc003qqz.1_Missense_Mutation_p.R473I|SYNJ2_uc003qra.1_Missense_Mutation_p.R199I	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	856	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		TCTGATCACAGGTGAGGTCCT	0.542													52	165					2.81731e-22	3.12664e-22	0.01441	1	0		T	158499313	T	T	158499313	3	4	157	1	0	0	0	0	1	0	0	0	15478	1014	35	5	2637	5	SYNJ2	6	158499313	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	976693	158499313	12615754	524	86084											
SYNJ2	8871	broad.mit.edu	37	chr6	158509770	158509770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagtattcaattttgcagaCggcaagacttctaccaggag	13	10	9	9	1	2	2	1	0	1	2	2	3	2	3	1	2	2	3	1	2	4	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:158509770C>T	uc003qqx.1	+	24	3497	c.3422C>T	c.(3421-3423)ACG>ATG	p.T1141M	SYNJ2_uc003qqw.1_Missense_Mutation_p.T1141M|SYNJ2_uc003qqy.1_Missense_Mutation_p.T854M|SYNJ2_uc003qqz.1_Missense_Mutation_p.T758M|SYNJ2_uc003qra.1_Missense_Mutation_p.T484M|SYNJ2_uc010kjp.1_Missense_Mutation_p.T24M	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	1141	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		ATTTTGCAGACGGCAAGACTT	0.502													26	106					0	0	0.007291	0	0		T	158509770	T	T	158509770	3	4	157	1	0	0	0	0	1	0	0	0	15478	536	19	1	3516	1	SYNJ2	6	158509770	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	10457	158509770	12605297	525	86085											
TULP4	56995	broad.mit.edu	37	chr6	158834150	158834150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaactggccacgtgcgatgcGgacggaggcatattcgtgtg	9	8	15	9	5	0	0	0	0	0	0	1	3	0	2	1	4	3	1	1	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:158834150G>A	uc003qrf.2	+	2	1663	c.306G>A	c.(304-306)GCG>GCA	p.A102A	TULP4_uc011efo.1_Silent_p.A102A|TULP4_uc003qrg.2_Silent_p.A102A	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	102	WD 1.				intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CGTGCGATGCGGACGGAGGCA	0.567													14	43					0	0	0.004007	0	0		A	158834150	A	A	158834150	2	1	157	1	0	0	0	0	0	0	0	1	16802	1103	39	1		1	TULP4	6	158834150	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	324380	158834150	12280917	526	86086											
FNDC1	84624	broad.mit.edu	37	chr6	159654471	159654471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agggtccacagaccgccacgCgtcccctgctcgtccgcccg	5	5	11	20	6	0	1	0	0	0	1	4	1	3	1	7	1	1	1	7	1	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:159654471C>T	uc010kjv.2	+	11	3127	c.2927C>T	c.(2926-2928)GCG>GTG	p.A976V	FNDC1_uc010kjw.1_Missense_Mutation_p.A861V	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	976						extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		GACCGCCACGCGTCCCCTGCT	0.662													3	16					0	0	0.004672	0	0		T	159654471	T	T	159654471	3	4	157	1	0	0	0	0	1	0	0	0	5982	768	27	1	2969	1	FNDC1	6	159654471	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	820321	159654471	11460596	527	86087											
PLG	5340	broad.mit.edu	37	chr6	161135861	161135861	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggagaaaactatgacGgcaaaatttccaagaccatg	16	7	10	8	1	0	3	0	1	0	2	1	4	1	3	2	2	1	2	2	2	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:161135861G>T	uc003qtm.3	+	6	646	c.583G>T	c.(583-585)GGC>TGC	p.G195C		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	195	Kringle 2.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	AAACTATGACGGCAAAATTTC	0.473													6	102					5.18039e-06	5.42127e-06	0.00308	1	0		T	161135861	T	T	161135861	3	4	157	1	0	0	0	0	1	0	0	0	12105	1116	39	5	609	5	PLG	6	161135861	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1481390	161135861	9979206	528	86088											
PLG	5340	broad.mit.edu	37	chr6	161139823	161139823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggagtactgtaagatacCgtcctgtgactcctccccag	8	10	11	12	1	0	2	0	1	0	1	3	3	3	3	5	1	2	2	5	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:161139823C>T	uc003qtm.3	+	9	1112	c.1049C>T	c.(1048-1050)CCG>CTG	p.P350L		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	350	Kringle 3.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TGTAAGATACCGTCCTGTGAC	0.502													11	55					0	0	0.001855	0	0		T	161139823	T	T	161139823	3	4	157	1	0	0	0	0	1	0	0	0	12105	652	23	1	1087	1	PLG	6	161139823	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3962	161139823	9975244	529	86089											
CCR6	1235	broad.mit.edu	37	chr6	167549868	167549868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctccaggctatttgtaccGattgcctactccttgatctg	6	16	7	12	1	2	1	0	1	2	0	4	2	3	1	4	1	3	2	4	1	3	7	rs145186145		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:167549868G>A	uc003qvl.2	+	13	2626	c.150G>A	c.(148-150)CCG>CCA	p.P50P	CCR6_uc010kkm.2_Silent_p.P50P|CCR6_uc003qvn.3_Silent_p.P50P|CCR6_uc003qvm.3_Silent_p.P50P	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	50	Helical; Name=1; (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		TATTTGTACCGATTGCCTACT	0.438													39	169					0	0	0.007835	0	0		A	167549868	A	A	167549868	2	1	157	1	0	0	0	0	0	0	0	1	2948	1045	37	1		1	CCR6	6	167549868	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6410045	167549868	3565199	530	86090											
MLLT4	4301	broad.mit.edu	37	chr6	168319457	168319457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtggctgaaaacactgccGatgagctggcccgcagtgat	9	8	13	11	2	0	3	0	3	0	0	0	4	0	3	2	2	3	3	2	2	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr6:168319457G>A	uc003qwd.2	+	20	2870	c.2728G>A	c.(2728-2730)GAT>AAT	p.D910N	MLLT4_uc003qwb.1_Missense_Mutation_p.D895N|MLLT4_uc003qwc.1_Missense_Mutation_p.D911N|MLLT4_uc003qwg.1_Missense_Mutation_p.D220N	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	911					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		AAACACTGCCGATGAGCTGGC	0.463			T	MLL	AL								8	54					0	0	0.004482	0	0		A	168319457	A	A	168319457	3	1	157	1	0	0	0	0	1	0	0	0	9647	1058	37	1	2809	1	MLLT4	6	168319457	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	769589	168319457	2795610	531	86091											
GPER	2852	broad.mit.edu	37	chr7	1132152	1132152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgctccgcatgatcctcgCggtggtgctggtcttcttcg	2	12	14	13	5	2	1	0	1	2	0	6	1	4	1	2	4	1	3	2	4	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:1132152C>T	uc010ksd.1	+	2	1177	c.788C>T	c.(787-789)GCG>GTG	p.A263V	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.A263V|GPER_uc003ska.1_Missense_Mutation_p.A263V|GPER_uc003skb.2_Missense_Mutation_p.A263V	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	263	Helical; Name=6; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		ATGATCCTCGCGGTGGTGCTG	0.687													6	31					0	0	0.004482	0	0		T	1132152	T	T	1132152	3	4	157	1	0	0	0	0	1	0	0	0	6622	768	27	1	790	1	GPER	7	1132152	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08		1132152	158006511	532	86092											
MICALL2	79778	broad.mit.edu	37	chr7	1484922	1484922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctggaatccacacccatggCccctggctgtcgggggacca	7	6	12	16	1	0	0	0	0	0	0	2	2	1	2	6	5	0	1	6	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:1484922C>T	uc003skj.3	-	6	931	c.784G>A	c.(784-786)GCC>ACC	p.A262T	MICALL2_uc003ski.3_5'Flank	NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	262						cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		ACACCCATGGCCCCTGGCTGT	0.687													3	36					0	0	0.009096	0	0		T	1484922	T	T	1484922	3	4	157	1	0	0	0	0	1	0	0	0	9592	739	26	2	1978	2	MICALL2	7	1484922	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	352770	1484922	157653741	533	86093											
TMEM184A	202915	broad.mit.edu	37	chr7	1588314	1588314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggtcacatagaggtagcCgctgcggacactaggacaga	12	5	15	9	2	1	2	1	0	0	2	1	5	1	4	1	4	2	2	1	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:1588314C>T	uc003skv.3	-	7	972	c.655G>A	c.(655-657)GGC>AGC	p.G219S	TMEM184A_uc003skt.3_Missense_Mutation_p.G198S|TMEM184A_uc003skw.3_Missense_Mutation_p.G24S	NM_001097620	NP_001091089	Q6ZMB5	T184A_HUMAN	transmembrane protein 184A	219						integral to membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;5.88e-15)		TAGAGGTAGCCGCTGCGGACA	0.657													3	25					0	0	0.000602	0	0		T	1588314	T	T	1588314	3	4	157	1	0	0	0	0	1	0	0	0	16129	652	23	1	598	1	TMEM184A	7	1588314	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	103392	1588314	157550349	534	86094											
EIF3B	8662	broad.mit.edu	37	chr7	2402723	2402723	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	aggtatatgacgatcagtgaCgagtgggatattccagagaa	14	9	13	5	2	1	3	1	2	0	1	2	7	2	4	1	2	0	1	1	2	4	4	rs145413649		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:2402723C>G	uc003slx.2	+	4	914	c.831C>G	c.(829-831)GAC>GAG	p.D277E	EIF3B_uc003sly.2_Missense_Mutation_p.D277E|EIF3B_uc003slz.1_Missense_Mutation_p.D238E|EIF3B_uc003sma.2_Missense_Mutation_p.D5E	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	277	Sufficient for interaction with EIF3E.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		CGATCAGTGACGAGTGGGATA	0.473													19	356					0	0	0.010504	0	0		G	2402723	G	G	2402723	3	3	157	1	0	0	0	0	1	0	0	0	5019	535	19	5	845	5	EIF3B	7	2402723	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	814409	2402723	156735940	535	86095											
TTYH3	80727	broad.mit.edu	37	chr7	2687619	2687619	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggctacctgggcctgctgcTgctggacgtcatcatctgcc	4	10	13	14	1	3	0	2	0	1	0	3	1	3	1	3	3	5	4	3	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:2687619T>C	uc003smp.2	+	5	840	c.653T>C	c.(652-654)CTG>CCG	p.L218P	TTYH3_uc010ksn.2_Intron|TTYH3_uc003smq.2_Missense_Mutation_p.L47P	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3	218	Helical; Name=3; (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		GGCCTGCTGCTGCTGGACGTC	0.706													17	59					0	0	0.007413	0	0		C	2687619	C	C	2687619	3	2	157	1	0	0	0	0	1	0	0	0	16767	1580	55	3	671	3	TTYH3	7	2687619	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	284896	2687619	156451044	536	86096											
SLC29A4	222962	broad.mit.edu	37	chr7	5330864	5330864	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgcacaccaggatcacCgcaggtgcgctgggccccgc	7	4	12	18	3	1	0	1	0	0	0	1	1	1	1	5	3	2	3	5	3	0	0	rs145785340		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:5330864C>T	uc003sod.2	+	4	572	c.411C>T	c.(409-411)ACC>ACT	p.T137T	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.T137T|SLC29A4_uc003soe.2_Silent_p.T137T	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	137	Extracellular (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		CCAGGATCACCGCAGGTGCGC	0.423													5	17					0	0	0.000602	0	0		T	5330864	T	T	5330864	2	4	157	1	0	0	0	0	0	0	0	1	14562	639	23	1		1	SLC29A4	7	5330864	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2643245	5330864	153807799	537	86097											
KDELR2	11014	broad.mit.edu	37	chr7	6505847	6505847	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcacgatagaggcccaggaaGaacaggtagtgggtggtgat	12	6	17	6	1	0	3	0	1	0	2	0	5	0	4	1	5	1	2	1	5	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:6505847G>A	uc003sqe.3	-	4	620	c.459C>T	c.(457-459)TTC>TTT	p.F153F	DAGLB_uc003sqd.3_Intron|KDELR2_uc003sqf.3_Intron	NM_006854	NP_006845	P33947	ERD22_HUMAN	KDEL receptor 2 isoform 1	153	Helical; (Potential).				intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	KDEL sequence binding|protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		GGCCCAGGAAGAACAGGTAGT	0.542													22	99					0	0	0.004656	0	0		A	6505847	A	A	6505847	2	1	157	1	0	0	0	0	0	0	0	1	8136	933	33	4		4	KDELR2	7	6505847	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1174983	6505847	152632816	538	86098											
TMEM106B	54664	broad.mit.edu	37	chr7	12263969	12263969	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgtaaaatcagcctatgtCagttatgatgttcagaagcg	12	12	11	6	1	3	2	3	1	0	1	3	2	3	2	1	1	2	3	1	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:12263969C>T	uc011jxk.1	+	5	799	c.399C>T	c.(397-399)GTC>GTT	p.V133V	TMEM106B_uc003ssh.2_Silent_p.V133V	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	133						integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		CAGCCTATGTCAGTTATGATG	0.338													56	285					0	0	0.01441	0	0		T	12263969	T	T	12263969	2	4	157	1	0	0	0	0	0	0	0	1	16046	813	29	4		4	TMEM106B	7	12263969	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5758122	12263969	146874694	539	86099											
SNX13	23161	broad.mit.edu	37	chr7	17908067	17908067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gattaatataatcaggatcaCtgagttgatttattaatgga	15	15	8	3	0	2	2	2	2	0	0	2	5	2	4	0	2	0	1	0	2	5	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:17908067C>T	uc003stw.1	-	9	1013	c.800G>A	c.(799-801)AGT>AAT	p.S267N	SNX13_uc003stv.2_Missense_Mutation_p.S267N|SNX13_uc010kuc.2_Missense_Mutation_p.S64N|SNX13_uc003stx.1_Missense_Mutation_p.S187N			Q9Y5W8	SNX13_HUMAN	SubName: Full=Putative uncharacterized protein SNX13; SubName: Full=Sorting nexin 13, isoform CRA_g;	267	PXA.				cell communication|intracellular protein transport|negative regulation of signal transduction|positive regulation of GTPase activity	early endosome membrane	phosphatidylinositol binding|signal transducer activity			central_nervous_system(2)|kidney(1)	3	Lung NSC(10;0.0261)|all_lung(11;0.0521)					ATCAGGATCACTGAGTTGATT	0.264													13	40					0	0	0.004007	0	0		T	17908067	T	T	17908067	3	4	157	1	0	0	0	0	1	0	0	0	14909	565	20	4	2145	4	SNX13	7	17908067	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5644098	17908067	141230596	540	86100											
TWIST1	7291	broad.mit.edu	37	chr7	19156576	19156576	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcgaacgcctcgttcagCgactgggtgcgctggcgctc	4	7	16	14	7	1	0	1	0	0	0	3	2	1	0	1	3	3	3	1	3	1	1	rs144664279	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:19156576C>T	uc003sum.2	-	1	720	c.369G>A	c.(367-369)TCG>TCA	p.S123S		NM_000474	NP_000465	Q15672	TWST1_HUMAN	twist	123	Helix-loop-helix motif.				aortic valve morphogenesis|cellular response to hypoxia|embryonic camera-type eye formation|embryonic cranial skeleton morphogenesis|eyelid development in camera-type eye|muscle organ development|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of histone phosphorylation|negative regulation of osteoblast differentiation|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of cell motility|positive regulation of epithelial to mesenchymal transition|positive regulation of fatty acid beta-oxidation|positive regulation of monocyte chemotactic protein-1 production|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of tumor necrosis factor production|regulation of bone mineralization	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding RNA polymerase II transcription factor activity				0						CCTCGTTCAGCGACTGGGTGC	0.572									Saethre-Chotzen_syndrome				7	35					0	0	0.001984	0	0		T	19156576	T	T	19156576	2	4	157	1	0	0	0	0	0	0	0	1	16809	755	27	1		1	TWIST1	7	19156576	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1248509	19156576	139982087	541	86101											
ABCB5	340273	broad.mit.edu	37	chr7	20785017	20785017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagatgagatcaaagaagccGcaaatgcagcaaatatccat	18	7	8	8	1	1	3	1	1	0	3	2	4	2	3	2	0	3	3	2	0	6	2	rs146066744	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:20785017G>A	uc003suw.3	+	17	2596	c.2050G>A	c.(2050-2052)GCA>ACA	p.A684T	ABCB5_uc010kuh.2_Missense_Mutation_p.A1129T	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	684	Cytoplasmic (Potential).|ABC transporter 2.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						CAAAGAAGCCGCAAATGCAGC	0.433													17	61					0	0	0.007291	0	0		A	20785017	A	A	20785017	3	1	157	1	0	0	0	0	1	0	0	0	44	1087	38	1	3524	1	ABCB5	7	20785017	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1628441	20785017	138353646	542	86102											
CDCA7L	55536	broad.mit.edu	37	chr7	21946056	21946056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccctccgagaaggcccGcctcactgtcttcttcctct	4	12	7	18	2	4	1	1	0	3	1	7	2	7	1	5	1	0	0	5	1	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:21946056G>A	uc010kuk.2	-	6	892	c.772C>T	c.(772-774)CGG>TGG	p.R258W	CDCA7L_uc003sve.3_Missense_Mutation_p.R224W|CDCA7L_uc010kul.2_Missense_Mutation_p.R212W|CDCA7L_uc003svf.3_Missense_Mutation_p.R257W	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	258					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						GAGAAGGCCCGCCTCACTGTC	0.542													8	145					0	0	0.006214	0	0		A	21946056	A	A	21946056	3	1	157	1	0	0	0	0	1	0	0	0	3094	1086	38	1	612	1	CDCA7L	7	21946056	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1161039	21946056	137192607	543	86103											
RAPGEF5	9771	broad.mit.edu	37	chr7	22197498	22197498	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtggtgaatattcatctAcagtgctgaaaggaaaaatg	14	13	10	4	0	2	2	1	2	1	0	2	3	2	3	0	2	2	1	0	2	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:22197498A>G	uc003svg.2	-	15	1386	c.1073T>C	c.(1072-1074)GTA>GCA	p.V358A	RAPGEF5_uc011jyl.1_Missense_Mutation_p.V39A	NM_012294	NP_036426	Q92565	RPGF5_HUMAN	Rap guanine nucleotide exchange factor (GEF) 5	208					nervous system development|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	nucleus	GTP-dependent protein binding|Rap guanyl-nucleotide exchange factor activity			ovary(1)	1						ATATTCATCTACAGTGCTGAA	0.418													7	62					0	0	0.00308	0	0		G	22197498	G	G	22197498	3	3	157	1	0	0	0	0	1	0	0	0	13072	391	14	3	1167	3	RAPGEF5	7	22197498	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	251442	22197498	136941165	544	86104											
FAM126A	84668	broad.mit.edu	37	chr7	23018028	23018028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactgctcctctccactgcGatagaattcaaagagctggt	11	10	8	12	1	2	2	1	0	1	2	4	3	3	2	2	1	4	2	2	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:23018028G>A	uc003svm.3	-	4	448	c.193C>T	c.(193-195)CGC>TGC	p.R65C	FAM126A_uc003svn.3_5'UTR|FAM126A_uc011jyr.1_Missense_Mutation_p.R31C	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A	65						cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						TCTCCACTGCGATAGAATTCA	0.413													15	75					0	0	0.00245	0	0		A	23018028	A	A	23018028	3	1	157	1	0	0	0	0	1	0	0	0	5440	1058	37	1	1404	1	FAM126A	7	23018028	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	820530	23018028	136120635	545	86105											
NOD1	10392	broad.mit.edu	37	chr7	30465314	30465314	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctcctctggttttatcagGtttccatttaggctgttgaa	6	17	9	9	0	2	1	1	1	1	0	4	1	4	1	3	3	0	4	3	3	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:30465314G>A	uc003tav.2	-	14	3325	c.2802C>T	c.(2800-2802)AAC>AAT	p.N934N		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	934	LRR 9.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						GTTTTATCAGGTTTCCATTTA	0.453													11	134					0	0	0.010729	0	0		A	30465314	A	A	30465314	2	1	157	1	0	0	0	0	0	0	0	1	10535	1252	44	4		4	NOD1	7	30465314	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7447286	30465314	128673349	546	86106											
BBS9	27241	broad.mit.edu	37	chr7	33195315	33195315	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgtgtctactctgtctcagGtaagaaatatttttaccaat	11	17	6	7	0	3	1	1	0	3	1	4	1	3	1	1	1	2	1	1	1	6	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:33195315G>A	uc003tdn.1	+	4	841	c.328_splice	c.e4+1	p.G110_splice	BBS9_uc003tdo.1_Splice_Site_p.G110_splice|BBS9_uc003tdp.1_Splice_Site_p.G110_splice|BBS9_uc003tdq.1_Splice_Site_p.G110_splice|BBS9_uc010kwn.1_Splice_Site|BBS9_uc011kan.1_Splice_Site_p.G110_splice|BBS9_uc011kao.1_5'Flank	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2						fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			TCTGTCTCAGGTAAGAAATAT	0.318									Bardet-Biedl_syndrome				6	42					0	0	0.00308	0	0		A	33195315	A	A	33195315	5	1	157	1	0	0	0	0	0	0	1	0	1343	1275	44	4	339	4	BBS9	7	33195315	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2730001	33195315	125943348	547	86107											
C7orf10	79783	broad.mit.edu	37	chr7	40899966	40899966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagaggccaggccgccccCgctgctcgggcagcacacaa	8	3	13	17	3	1	1	1	0	0	1	2	1	1	1	4	3	2	4	4	3	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:40899966C>T	uc003thn.1	+	14	1250	c.1205C>T	c.(1204-1206)CCG>CTG	p.P402L	C7orf10_uc003thm.1_Missense_Mutation_p.P398L|C7orf10_uc003tho.1_Missense_Mutation_p.P354L|C7orf10_uc003thp.1_RNA	NM_024728	NP_079004	Q9HAC7	CG010_HUMAN	dermal papilla derived protein 13	409							transferase activity			ovary(2)	2						AGGCCGCCCCCGCTGCTCGGG	0.577													37	179					0	0	0.004289	0	0		T	40899966	T	T	40899966	3	4	157	1	0	0	0	0	1	0	0	0	2379	652	23	1	1251	1	C7orf10	7	40899966	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7704651	40899966	118238697	548	86108											
GLI3	2737	broad.mit.edu	37	chr7	42004994	42004994	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggagcatcaagtgctctGggccaccgtaggggttgctg	6	10	16	9	1	2	0	1	0	1	0	2	1	2	1	2	4	3	5	2	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:42004994G>T	uc011kbh.1	-	15	3768	c.3677C>A	c.(3676-3678)CCA>CAA	p.P1226Q	GLI3_uc011kbg.1_Missense_Mutation_p.P1167Q	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1226					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CAAGTGCTCTGGGCCACCGTA	0.617									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				16	82					2.23348e-06	2.3446e-06	0.004007	1	0		T	42004994	T	T	42004994	3	4	157	1	0	0	0	0	1	0	0	0	6454	1348	47	5	1069	5	GLI3	7	42004994	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1105028	42004994	117133669	549	86109											
STK17A	9263	broad.mit.edu	37	chr7	43635706	43635706	+	Missense_Mutation	SNP	T	G	G	0	1	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	atcagaaatgatcttagttcTggaatagtaagtattgtctt	13	16	8	4	0	4	2	1	1	3	1	4	3	4	3	0	1	0	3	0	1	6	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:43635706T>G	uc003tih.2	+	2	564	c.413T>G	c.(412-414)CTG>CGG	p.L138R		NM_004760	NP_004751	Q9UEE5	ST17A_HUMAN	serine/threonine kinase 17a	138	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			skin(2)	2						ATCTTAGTTCTGGAATAGTAA	0.363													48	161					0	0	0.01441	0	0		G	43635706	G	G	43635706	3	3	157	1	0	0	0	0	1	0	0	0	15315	1580	55	5	419	5	STK17A	7	43635706	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1630712	43635706	115502957	550	86110											
POLM	27434	broad.mit.edu	37	chr7	44113278	44113278	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacaggcccttctccttccgGctgaagcggcgcagctcccg	5	7	11	18	4	1	1	0	1	1	0	4	1	3	1	4	3	2	3	4	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:44113278G>A	uc003tjt.2	-	10	1436	c.1344C>T	c.(1342-1344)AGC>AGT	p.S448S	POLM_uc003tjw.1_Silent_p.S67S|POLM_uc003tju.2_Silent_p.S411S|POLM_uc003tjx.2_Silent_p.S368S|POLM_uc003tjv.2_RNA|POLM_uc011kbt.1_Silent_p.S98S	NM_013284	NP_037416	Q9NP87	DPOLM_HUMAN	DNA-directed DNA polymerase mu	448					DNA recombination|DNA repair	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						TCTCCTTCCGGCTGAAGCGGC	0.652								DNA_polymerases_(catalytic_subunits)					17	88					0	0	0.014323	0	0		A	44113278	A	A	44113278	2	1	157	1	0	0	0	0	0	0	0	1	12225	1194	42	2		2	POLM	7	44113278	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	477572	44113278	115025385	551	86111											
AEBP1	165	broad.mit.edu	37	chr7	44151594	44151594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctggtgcaggacacacGcatccacctggtgccctcac	8	6	10	17	1	1	0	1	0	0	0	2	1	2	1	4	3	3	2	4	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:44151594G>A	uc003tkb.2	+	16	2287	c.1982G>A	c.(1981-1983)CGC>CAC	p.R661H	AEBP1_uc003tkc.3_Missense_Mutation_p.R236H|AEBP1_uc003tkd.2_5'UTR	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	661	Interaction with PTEN (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CAGGACACACGCATCCACCTG	0.647													9	44					0	0	0.008291	0	0		A	44151594	A	A	44151594	3	1	157	1	0	0	0	0	1	0	0	0	349	1087	38	1	2044	1	AEBP1	7	44151594	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	38316	44151594	114987069	552	86112											
CCM2	83605	broad.mit.edu	37	chr7	45103550	45103550	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacgtccataccaggatacCtgaatccctccagtaggact	12	9	7	13	1	0	1	0	1	0	0	3	3	3	3	5	2	3	1	5	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:45103550C>A	uc003tmo.2	+	3	384	c.238C>A	c.(238-240)CTG>ATG	p.L80M	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Missense_Mutation_p.L22M|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Missense_Mutation_p.L80M|CCM2_uc011kcb.1_Missense_Mutation_p.L43M|CCM2_uc011kcc.1_Intron|CCM2_uc003tms.2_Missense_Mutation_p.L101M	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	80	PID.				endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						ACCAGGATACCTGAATCCCTC	0.468									Familial_Cerebral_Cavernous_Angioma				25	127					7.38237e-10	7.907e-10	0.00632	1	0		A	45103550	A	A	45103550	3	1	157	1	0	0	0	0	1	0	0	0	2911	680	24	5	345	5	CCM2	7	45103550	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	951956	45103550	114035113	553	86113											
TBRG4	9238	broad.mit.edu	37	chr7	45142994	45142994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcgcaaaagccagaagtaCgctgcacaggtggggcaggg	12	3	16	10	3	0	1	0	0	0	1	0	1	0	1	1	4	3	5	1	4	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:45142994C>T	uc003tmv.2	-	6	1240	c.1114G>A	c.(1114-1116)GTA>ATA	p.V372I	TBRG4_uc003tmu.2_Missense_Mutation_p.V197I|TBRG4_uc003tmw.2_Missense_Mutation_p.V262I|TBRG4_uc003tmx.2_Missense_Mutation_p.V262I|TBRG4_uc011kcd.1_Missense_Mutation_p.V383I	NM_004749	NP_004740	Q969Z0	TBRG4_HUMAN	cell cycle progression 2 protein isoform 1	372					apoptosis|cell cycle arrest|cellular respiration|G1 phase of mitotic cell cycle|positive regulation of cell proliferation	mitochondrion	ATP binding|protein binding|protein kinase activity				0						GCCAGAAGTACGCTGCACAGG	0.572													4	31					0	0	0.000602	0	0		T	45142994	T	T	45142994	3	4	157	1	0	0	0	0	1	0	0	0	15674	536	19	1	805	1	TBRG4	7	45142994	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	39444	45142994	113995669	554	86114											
ADCY1	107	broad.mit.edu	37	chr7	45748012	45748012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccattgagatgtttgacGttctggatgaaatcaactac	11	14	9	7	1	2	3	1	3	1	1	2	5	2	4	1	1	3	2	1	1	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:45748012G>A	uc003tne.3	+	18	2899	c.2881G>A	c.(2881-2883)GTT>ATT	p.V961I		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	961	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GATGTTTGACGTTCTGGATGA	0.488													17	83					0	0	0.006122	0	0		A	45748012	A	A	45748012	3	1	157	1	0	0	0	0	1	0	0	0	292	1145	40	1	2951	1	ADCY1	7	45748012	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	605018	45748012	113390651	555	86115											
SUN3	256979	broad.mit.edu	37	chr7	48068665	48068665	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	tataatgtcttcttcctccaCgggtgtttcttcttgaagac	7	17	7	10	1	4	2	0	1	4	1	6	2	6	2	2	1	0	1	2	1	3	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:48068665C>T	uc003tof.2	-	1	52	c.-45G>A	c.(-47--43)CCGTG>CCATG		SUN3_uc003tog.2_Translation_Start_Site|SUN3_uc011kcf.1_Translation_Start_Site	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1							integral to membrane				central_nervous_system(1)	1						TCTTCCTCCACGGGTGTTTCT	0.398													4	17					0	0	0.009096	0	0		T	48068665	T	T	48068665	1	4	157	1	0	0	0	0	0	0	0	0	15418	551	19	1		1	SUN3	7	48068665	Translation_Start_Site	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2320653	48068665	111069998	556	86116											
VSTM2A	222008	broad.mit.edu	37	chr7	54610361	54610361	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	gagcctgccatccactcgcaCgcctttctttcagggctttt	5	13	8	15	2	2	0	1	0	1	0	4	1	3	0	4	1	2	2	4	1	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:54610361C>T	uc010kzf.2	+	1	343	c.-62C>T	c.(-64--60)CACGC>CATGC		VSTM2A_uc010kze.2_Translation_Start_Site|VSTM2A_uc003tqc.3_Translation_Start_Site	NM_182546	NP_872352	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2							extracellular region					0			STAD - Stomach adenocarcinoma(5;0.0525)			TCCACTCGCACGCCTTTCTTT	0.547													14	48					0	0	0.006122	0	0		T	54610361	T	T	54610361	1	4	157	1	0	0	0	0	0	0	0	0	17255	551	19	1		1	VSTM2A	7	54610361	Translation_Start_Site	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6541696	54610361	104528302	557	86117											
EGFR	1956	broad.mit.edu	37	chr7	55240694	55240694	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcctaagatcccgtccatCgccactgggatggtgggggc	7	7	15	12	2	0	1	0	0	0	1	3	2	2	2	4	5	0	0	4	5	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:55240694C>T	uc003tqk.2	+	17	2184	c.1938C>T	c.(1936-1938)ATC>ATT	p.I646I	EGFR_uc010kzg.1_Silent_p.I601I|EGFR_uc011kco.1_Silent_p.I593I	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	646	Helical; (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TCCCGTCCATCGCCACTGGGA	0.617		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			23	98					0	0	0.00333	0	0		T	55240694	T	T	55240694	2	4	157	1	0	0	0	0	0	0	0	1	4973	874	31	1		1	EGFR	7	55240694	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	630333	55240694	103897969	558	86118											
CCT6A	908	broad.mit.edu	37	chr7	56126071	56126071	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagagaagtgaattctggcTttttttacaagagtgcagaa	14	13	10	4	0	1	4	0	1	1	3	1	5	1	4	0	1	2	2	0	1	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:56126071T>G	uc003trl.1	+	7	906	c.742T>G	c.(742-744)TTT>GTT	p.F248V	PSPH_uc003trj.2_Intron|CCT6A_uc003trm.1_Missense_Mutation_p.F203V|CCT6A_uc011kcu.1_Missense_Mutation_p.F217V|SNORA15_uc003trn.1_5'Flank	NM_001762	NP_001753	P40227	TCPZ_HUMAN	chaperonin containing TCP1, subunit 6A isoform	248					'de novo' posttranslational protein folding	cytosol	ATP binding|unfolded protein binding			upper_aerodigestive_tract(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GAATTCTGGCTTTTTTTACAA	0.313													3	48					0	0	0.009096	0	0		G	56126071	G	G	56126071	3	3	157	1	0	0	0	0	1	0	0	0	2960	1609	56	5	768	5	CCT6A	7	56126071	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	885377	56126071	103012592	559	86119											
AUTS2	26053	broad.mit.edu	37	chr7	70252292	70252292	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcaccgaacgcctccgtcGttcccgacccctccgccctg	4	7	8	22	6	0	0	0	0	0	0	4	2	3	0	8	0	2	2	8	0	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:70252292G>A	uc003tvw.3	+	18	3149	c.2406G>A	c.(2404-2406)TCG>TCA	p.S802S	AUTS2_uc003tvx.3_Silent_p.S778S|AUTS2_uc011keg.1_Silent_p.S254S	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	802										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CGCCTCCGTCGTTCCCGACCC	0.602													9	40					0	0	0.001855	0	0		A	70252292	A	A	70252292	2	1	157	1	0	0	0	0	0	0	0	1	1226	1132	40	1		1	AUTS2	7	70252292	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	14126221	70252292	88886371	560	86120											
WBSCR17	64409	broad.mit.edu	37	chr7	71142200	71142200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtctattcttgcagcttcGcaacaacaaggcaaaagacg	13	10	8	10	2	2	1	0	0	2	1	3	1	2	1	0	1	4	4	0	1	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:71142200G>A	uc003tvy.2	+	9	1409	c.1409G>A	c.(1408-1410)CGC>CAC	p.R470H	WBSCR17_uc003tvz.2_Missense_Mutation_p.R169H	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	470	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TTGCAGCTTCGCAACAACAAG	0.532													92	329					0	0	0.01441	0	0		A	71142200	A	A	71142200	3	1	157	1	0	0	0	0	1	0	0	0	17290	1087	38	1	1443	1	WBSCR17	7	71142200	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	889908	71142200	87996463	561	86121											
TRIM50	135892	broad.mit.edu	37	chr7	72738518	72738518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcgggttccggtggtgcaCgcagaccttgggctccgggt	4	8	18	11	4	0	1	0	0	0	1	2	2	2	1	3	5	2	4	3	5	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:72738518C>T	uc010lbd.1	-	2	393	c.268G>A	c.(268-270)GTG>ATG	p.V90M	FKBP6_uc003twz.2_Intron|TRIM50_uc003txy.1_Missense_Mutation_p.V90M|TRIM50_uc003txz.1_Missense_Mutation_p.V90M	NM_178125	NP_835226	Q86XT4	TRI50_HUMAN	tripartite motif protein 50A	90	B box-type.					cytoplasm|intracellular membrane-bounded organelle	ligase activity|zinc ion binding			skin(1)	1						CGGTGGTGCACGCAGACCTTG	0.682											OREG0018105	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	105					0	0	0.005443	0	0		T	72738518	T	T	72738518	3	4	157	1	0	0	0	0	1	0	0	0	16552	536	19	1	1219	1	TRIM50	7	72738518	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1596318	72738518	86400145	562	86122											
CLDN4	1364	broad.mit.edu	37	chr7	73245910	73245910	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcgggcgtggtgttcctgTtggccggccttatggtgata	3	13	17	8	3	0	1	0	1	0	0	1	1	1	1	3	6	0	2	3	6	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:73245910T>A	uc003tzi.3	+	1	718	c.379T>A	c.(379-381)TTG>ATG	p.L127M	RFC2_uc011kfa.1_Intron|CLDN4_uc003tzh.1_RNA	NM_001305	NP_001296	O14493	CLD4_HUMAN	claudin 4	127	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				GGTGTTCCTGTTGGCCGGCCT	0.617													4	28					0	0	0.000602	0	0		A	73245910	A	A	73245910	3	1	157	1	0	0	0	0	1	0	0	0	3490	1722	60	5	381	5	CLDN4	7	73245910	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	507392	73245910	85892753	563	86123											
EIF4H	7458	broad.mit.edu	37	chr7	73604058	73604058	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttaaggaagccttgacataCgatggtgcagtaagtatcct	12	11	10	8	1	0	1	0	1	0	0	1	3	1	2	2	2	3	3	2	2	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:73604058C>T	uc003uad.1	+	3	311	c.303C>T	c.(301-303)TAC>TAT	p.Y101Y	RFC2_uc011kfa.1_Intron|EIF4H_uc011kfg.1_Silent_p.Y101Y|EIF4H_uc010lbm.2_Silent_p.Y101Y|EIF4H_uc003uae.1_Silent_p.Y101Y|EIF4H_uc003uaf.1_RNA|MIR590_hsa-mir-590|MI0003602_5'Flank	NM_022170	NP_071496	Q15056	IF4H_HUMAN	eukaryotic translation initiation factor 4H	101	RRM.				interspecies interaction between organisms|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0						CCTTGACATACGATGGTGCAG	0.403													29	130					0	0	0.00632	0	0		T	73604058	T	T	73604058	2	4	157	1	0	0	0	0	0	0	0	1	5047	547	19	1		1	EIF4H	7	73604058	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	358148	73604058	85534605	564	86124											
LAT2	7462	broad.mit.edu	37	chr7	73638506	73638506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcatccatccatcagtggCgcgagtccaggaaggtcatg	10	7	12	12	2	2	0	2	0	0	0	5	2	5	1	3	3	1	1	3	3	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:73638506C>T	uc003uag.2	+	12	1157	c.607C>T	c.(607-609)CGC>TGC	p.R203C	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Missense_Mutation_p.R203C|LAT2_uc003uai.2_Missense_Mutation_p.R203C|LAT2_uc010lbo.2_RNA	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	203	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0						CCATCAGTGGCGCGAGTCCAG	0.587													26	132					0	0	0.007291	0	0		T	73638506	T	T	73638506	3	4	157	1	0	0	0	0	1	0	0	0	8661	768	27	1	645	1	LAT2	7	73638506	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	34448	73638506	85500157	565	86125											
GTF2I	2969	broad.mit.edu	37	chr7	74148279	74148279	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcagacatgagcttctgaAttcaacacgtgaagatttac	13	13	7	8	1	3	5	2	3	1	2	3	5	3	5	0	0	3	1	0	0	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:74148279A>G	uc003uau.2	+	16	1689	c.1319A>G	c.(1318-1320)AAT>AGT	p.N440S	GTF2I_uc003uav.2_Missense_Mutation_p.N419S|GTF2I_uc003uaw.2_Missense_Mutation_p.N420S|GTF2I_uc003uay.2_Missense_Mutation_p.N418S|GTF2I_uc003uax.2_Missense_Mutation_p.N399S	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	440	GTF2I-like 2.				negative regulation of angiogenesis|signal transduction|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0						GAGCTTCTGAATTCAACACGT	0.358													4	216					0	0	0.009096	0	0		G	74148279	G	G	74148279	3	3	157	1	0	0	0	0	1	0	0	0	6883	101	4	3	1377	3	GTF2I	7	74148279	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	509773	74148279	84990384	566	86126											
C7orf23	79161	broad.mit.edu	37	chr7	86827314	86827314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcaaagaatatattcaaCggttttggaggtagttgagg	14	11	12	4	1	1	2	1	1	0	1	1	3	1	3	0	4	2	4	0	4	6	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:86827314C>T	uc003uio.2	-	3	389	c.177G>A	c.(175-177)CCG>CCA	p.P59P		NM_024315	NP_077291	Q9BU79	CG023_HUMAN	chromosome 7 open reading frame 23	59						integral to membrane					0	Esophageal squamous(14;0.0058)|all_lung(186;0.191)|Lung NSC(181;0.192)					ATATATTCAACGGTTTTGGAG	0.363										HNSCC(41;0.11)			34	158					0	0	0.004878	0	0		T	86827314	T	T	86827314	2	4	157	1	0	0	0	0	0	0	0	1	2382	523	19	1		1	C7orf23	7	86827314	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	12679035	86827314	72311349	567	86127											
STEAP4	79689	broad.mit.edu	37	chr7	87912268	87912268	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttcataaacataagggtaGattacgtctcttataacaca	15	14	5	7	1	2	1	1	0	1	1	3	1	2	1	0	1	3	1	0	1	7	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:87912268G>C	uc003ujs.2	-	3	777	c.672C>G	c.(670-672)ATC>ATG	p.I224M	STEAP4_uc010lek.2_Intron|STEAP4_uc003ujt.2_Missense_Mutation_p.I224M	NM_024636	NP_078912	Q687X5	STEA4_HUMAN	tumor necrosis factor, alpha-induced protein 9	224					fat cell differentiation|ion transport|iron ion homeostasis	Golgi membrane|integral to membrane|plasma membrane	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity				0	Esophageal squamous(14;0.00802)					CATAAGGGTAGATTACGTCTC	0.383													20	112					0	0	0.007413	0	0		C	87912268	C	C	87912268	3	2	157	1	0	0	0	0	1	0	0	0	15305	932	33	5	719	5	STEAP4	7	87912268	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1084954	87912268	71226395	568	86128											
ZNF804B	219578	broad.mit.edu	37	chr7	88963633	88963633	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactaccttttctccacgTtcaaagcaaggatggccaca	12	9	6	14	1	2	0	1	0	1	0	3	1	2	1	4	2	2	2	4	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:88963633T>G	uc011khi.1	+	4	1875	c.1337T>G	c.(1336-1338)GTT>GGT	p.V446G		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	446						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTTCTCCACGTTCAAAGCAAG	0.403										HNSCC(36;0.09)			24	94					0	0	0.00278	0	0		G	88963633	G	G	88963633	3	3	157	1	0	0	0	0	1	0	0	0	18196	1725	60	5	1351	5	ZNF804B	7	88963633	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1051365	88963633	70175030	569	86129											
KRIT1	889	broad.mit.edu	37	chr7	91852279	91852279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccatccattctgtatattCgaactttttcatactacaag	12	15	3	11	1	2	0	1	0	1	0	4	1	3	0	2	0	3	1	2	0	6	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:91852279C>T	uc003ulq.1	-	11	1439	c.1268G>A	c.(1267-1269)CGA>CAA	p.R423Q	KRIT1_uc010lev.1_Missense_Mutation_p.R180Q|KRIT1_uc003ulr.1_Missense_Mutation_p.R423Q|KRIT1_uc003uls.1_Missense_Mutation_p.R423Q|KRIT1_uc003ult.1_Missense_Mutation_p.R375Q|KRIT1_uc003ulu.1_Missense_Mutation_p.R423Q|KRIT1_uc003ulv.1_Missense_Mutation_p.R423Q	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	423	FERM.				angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TCTGTATATTCGAACTTTTTC	0.343									Familial_Cerebral_Cavernous_Angioma				6	101					0	0	0.001168	0	0		T	91852279	T	T	91852279	3	4	157	1	0	0	0	0	1	0	0	0	8461	884	31	1	970	1	KRIT1	7	91852279	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2888646	91852279	67286384	570	86130											
ANKIB1	54467	broad.mit.edu	37	chr7	92027163	92027163	+	Missense_Mutation	SNP	A	G	G	1	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	cagtcgctctgaaaaccaggActctcttcaggtagcctttc	9	11	8	13	1	3	1	1	1	2	0	6	2	3	2	2	2	2	2	2	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:92027163A>G	uc003ulw.2	+	19	2898	c.2522A>G	c.(2521-2523)GAC>GGC	p.D841G	ANKIB1_uc010lew.1_Missense_Mutation_p.D110G	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	841							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAAAACCAGGACTCTCTTCAG	0.507													29	162					0	0	0.010818	0	0		G	92027163	G	G	92027163	3	3	157	1	0	0	0	0	1	0	0	0	630	275	10	3	2592	3	ANKIB1	7	92027163	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	174884	92027163	67111500	571	86131											
ZNF394	84124	broad.mit.edu	37	chr7	99091276	99091276	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacatttgtaaggcttttccCcagtgtgaattctctggtgt	7	16	10	8	0	1	1	0	1	1	0	3	2	2	1	2	2	0	2	2	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:99091276C>A	uc003uqs.2	-	3	1723	c.1562G>T	c.(1561-1563)GGG>GTG	p.G521V	ZNF394_uc003uqt.2_Missense_Mutation_p.G314V	NM_032164	NP_115540	Q53GI3	ZN394_HUMAN	zinc finger protein 394	521					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					AGGCTTTTCCCCAGTGTGAAT	0.428													50	244					1.83081e-24	2.03584e-24	0.01441	1	0		A	99091276	A	A	99091276	3	1	157	1	0	0	0	0	1	0	0	0	17905	623	22	5	127	5	ZNF394	7	99091276	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7064113	99091276	60047387	572	86132											
MCM7	4176	broad.mit.edu	37	chr7	99690627	99690627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcatattcatccagagcCgcctggaactgggcgggtgt	7	10	12	12	2	2	1	2	0	0	1	4	2	4	2	4	3	2	0	4	3	2	2	rs139468339		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:99690627C>T	uc003usw.1	-	15	2598	c.2088G>A	c.(2086-2088)GCG>GCA	p.A696A	MCM7_uc003usv.1_Silent_p.A520A|MCM7_uc003usx.1_Silent_p.A520A	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	696	Interaction with ATRIP.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	CATCCAGAGCCGCCTGGAACT	0.592													9	61					0	0	0.004482	0	0		T	99690627	T	T	99690627	2	4	157	1	0	0	0	0	0	0	0	1	9410	639	23	1		1	MCM7	7	99690627	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	599351	99690627	59448036	573	86133											
PVRIG	79037	broad.mit.edu	37	chr7	99818219	99818219	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attctgcgggcagacctggcCgggatcttgggggtctcagg	5	9	17	10	2	3	1	1	0	3	1	4	2	3	2	2	6	1	1	2	6	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:99818219C>T	uc003uue.2	+	5	891	c.519C>T	c.(517-519)GCC>GCT	p.A173A	GATS_uc003uty.3_Intron|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|GATS_uc011kjl.1_Intron|GATS_uc010lgu.2_Intron|PVRIG_uc003uuf.1_Silent_p.A173A	NM_024070	NP_076975	Q6DKI7	PVRIG_HUMAN	poliovirus receptor related immunoglobulin	173	Helical; (Potential).					integral to membrane				skin(2)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CAGACCTGGCCGGGATCTTGG	0.647													17	84					0	0	0.008871	0	0		T	99818219	T	T	99818219	2	4	157	1	0	0	0	0	0	0	0	1	12863	639	23	1		1	PVRIG	7	99818219	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	127592	99818219	59320444	574	86134											
FBXO24	26261	broad.mit.edu	37	chr7	100192158	100192158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagagcagcaccctctacGtcacaggtatggaccacctc	11	6	8	16	1	2	1	1	0	1	1	3	2	2	2	4	2	3	3	4	2	2	2	rs140728414		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:100192158G>A	uc003uvm.1	+	6	1239	c.946G>A	c.(946-948)GTC>ATC	p.V316I	FBXO24_uc003uvl.1_Missense_Mutation_p.V302I|FBXO24_uc003uvn.1_Missense_Mutation_p.V11I|uc011kjy.1_Intron|FBXO24_uc011kjz.1_Missense_Mutation_p.V354I|FBXO24_uc011kka.1_Missense_Mutation_p.V304I	NM_033506	NP_277041	O75426	FBX24_HUMAN	F-box only protein 24 isoform 1	316						ubiquitin ligase complex	ubiquitin-protein ligase activity			ovary(3)|skin(1)	4	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CACCCTCTACGTCACAGGTAT	0.597													11	34					0	0	0.008291	0	0		A	100192158	A	A	100192158	3	1	157	1	0	0	0	0	1	0	0	0	5749	1145	40	1	1125	1	FBXO24	7	100192158	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	373939	100192158	58946505	575	86135											
GIGYF1	64599	broad.mit.edu	37	chr7	100282113	100282113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccctggggcaaagggcacgCggccccacatcttgatcacc	8	5	12	16	2	2	1	1	1	1	0	2	1	2	1	4	4	0	2	4	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:100282113C>T	uc003uwg.1	-	13	2598	c.1589G>A	c.(1588-1590)CGC>CAC	p.R530H		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	530										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					AAAGGGCACGCGGCCCCACAT	0.667													12	28					0	0	0.003163	0	0		T	100282113	T	T	100282113	3	4	157	1	0	0	0	0	1	0	0	0	6392	768	27	1	1566	1	GIGYF1	7	100282113	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	89955	100282113	58856550	576	86136											
GIGYF1	64599	broad.mit.edu	37	chr7	100283673	100283673	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttggaagtccagctcctgCtcctcaggaatgggctcctt	6	11	10	14	0	1	0	1	0	0	0	5	2	5	2	5	3	2	3	5	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:100283673C>T	uc003uwg.1	-	9	1987	c.978G>A	c.(976-978)GAG>GAA	p.E326E		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	326										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					CCAGCTCCTGCTCCTCAGGAA	0.677													4	48					0	0	0.001168	0	0		T	100283673	T	T	100283673	2	4	157	1	0	0	0	0	0	0	0	1	6392	796	28	2		2	GIGYF1	7	100283673	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1560	100283673	58854990	577	86137											
EPHB4	2050	broad.mit.edu	37	chr7	100403278	100403278	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggtgggacagtctgggggCgggggcagccggtagtcctg	5	6	22	8	2	1	0	0	0	1	0	2	2	2	1	2	7	1	2	2	7	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:100403278C>T	uc003uwn.1	-	15	3014	c.2523G>A	c.(2521-2523)CCG>CCA	p.P841P	EPHB4_uc003uwm.1_Silent_p.P748P|EPHB4_uc010lhj.1_Silent_p.P841P	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	841	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					AGTCTGGGGGCGGGGGCAGCC	0.617													25	62					0	0	0.004878	0	0		T	100403278	T	T	100403278	2	4	157	1	0	0	0	0	0	0	0	1	5185	755	27	1		1	EPHB4	7	100403278	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	119605	100403278	58735385	578	86138											
SLC12A9	56996	broad.mit.edu	37	chr7	100454739	100454739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaatggctcctccctgcCgccccggtttggccacttca	4	9	8	20	2	1	0	1	0	0	0	3	0	3	0	8	3	1	2	8	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:100454739C>T	uc003uwp.2	+	5	840	c.698C>T	c.(697-699)CCG>CTG	p.P233L	SLC12A9_uc003uwo.1_Missense_Mutation_p.P144L|SLC12A9_uc003uwq.2_Missense_Mutation_p.P144L|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'UTR|SLC12A9_uc003uws.2_5'UTR|SLC12A9_uc003uwt.2_5'UTR|SLC12A9_uc003uwv.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	233	Extracellular (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCCTCCCTGCCGCCCCGGTTT	0.647													24	71					0	0	0.004656	0	0		T	100454739	T	T	100454739	3	4	157	1	0	0	0	0	1	0	0	0	14415	652	23	1	712	1	SLC12A9	7	100454739	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	51461	100454739	58683924	579	86139											
TRIM56	81844	broad.mit.edu	37	chr7	100732369	100732369	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcctctcccaggccagccaCgcggtggcggcactgcctag	6	5	13	17	3	1	0	0	0	1	0	2	0	1	0	5	4	3	1	5	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:100732369C>T	uc003uxq.2	+	3	2007	c.1776C>T	c.(1774-1776)CAC>CAT	p.H592H	TRIM56_uc003uxr.2_Intron	NM_030961	NP_112223	Q9BRZ2	TRI56_HUMAN	tripartite motif-containing 56	592					defense response to virus|interferon-beta production|protein K63-linked ubiquitination|response to type I interferon	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			kidney(1)|central_nervous_system(1)|skin(1)	3	Lung NSC(181;0.136)|all_lung(186;0.182)					AGGCCAGCCACGCGGTGGCGG	0.677													13	30					0	0	0.007413	0	0		T	100732369	T	T	100732369	2	4	157	1	0	0	0	0	0	0	0	1	16556	535	19	1		1	TRIM56	7	100732369	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	277630	100732369	58406294	580	86140											
CUX1	1523	broad.mit.edu	37	chr7	101845475	101845475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcatctgccagagaatcttCggggagaaggtaagggatct	11	8	15	7	1	3	2	0	0	3	2	4	5	3	3	1	5	1	2	1	5	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:101845475C>T	uc003uyx.3	+	18	2936	c.2898C>T	c.(2896-2898)TTC>TTT	p.F966F	CUX1_uc003uys.3_Silent_p.F977F|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	966	CUT 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						AGAGAATCTTCGGGGAGAAGG	0.557													35	93					0	0	0.004289	0	0		T	101845475	T	T	101845475	2	4	157	1	0	0	0	0	0	0	0	1	4067	883	31	1		1	CUX1	7	101845475	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1113106	101845475	57293188	581	86141											
LRRC17	10234	broad.mit.edu	37	chr7	102574619	102574619	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaggatttgctgcacatgCtgctagcaagaaacaagatc	13	9	9	10	0	1	2	1	0	0	2	2	3	1	3	0	1	6	5	0	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:102574619C>T	uc003vau.2	+	2	648	c.259C>T	c.(259-261)CTG>TTG	p.L87L	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_Silent_p.L87L	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	87	LRR 1.				bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						GCTGCACATGCTGCTAGCAAG	0.398													16	111					0	0	0.006122	0	0		T	102574619	T	T	102574619	2	4	157	1	0	0	0	0	0	0	0	1	8991	796	28	2		2	LRRC17	7	102574619	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	729144	102574619	56564044	582	86142											
PRKAR2B	5577	broad.mit.edu	37	chr7	106791470	106791470	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attccttaaatctttggaggTaagtatatgtttatgctttt	10	20	7	4	0	1	0	0	0	1	0	2	1	2	1	1	2	1	4	1	2	6	10			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:106791470T>C	uc003vdx.2	+	7	1018	c.843_splice	c.e7+2	p.E281_splice		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						TCTTTGGAGGTAAGTATATGT	0.269													10	45					0	0	0.010729	0	0		C	106791470	C	C	106791470	5	2	157	1	0	0	0	0	0	0	1	0	12528	1652	57	3	871	3	PRKAR2B	7	106791470	Splice_Site	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4216851	106791470	52347193	583	86143											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519436	113519436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gattgcccgggtggggattgCggtatgttcgctcagcagag	6	10	17	8	3	1	1	1	0	0	1	2	3	1	2	1	4	3	4	1	4	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:113519436C>T	uc010ljy.1	-	4	1742	c.1711G>A	c.(1711-1713)GCA>ACA	p.A571T		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	571					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GTGGGGATTGCGGTATGTTCG	0.473													37	155					0	0	0.004878	0	0		T	113519436	T	T	113519436	3	4	157	1	0	0	0	0	1	0	0	0	12393	768	27	1	1661	1	PPP1R3A	7	113519436	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6727966	113519436	45619227	584	86144											
CFTR	1080	broad.mit.edu	37	chr7	117171005	117171005	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaagaatcatagcttcctAtgacccggataacaaggagg	14	7	12	8	1	1	2	1	1	0	1	2	5	2	5	2	4	2	1	2	4	6	4	rs121909031		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:117171005A>G	uc003vjd.2	+	4	458	c.326A>G	c.(325-327)TAT>TGT	p.Y109C	CFTR_uc011knq.1_5'UTR	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	109	ABC transmembrane type-1 1.|Extracellular (Potential).		Y -> C (in CF).		respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	ATAGCTTCCTATGACCCGGAT	0.418									Cystic_Fibrosis				10	53					0	0	0.006214	0	0		G	117171005	G	G	117171005	3	3	157	1	0	0	0	0	1	0	0	0	3297	449	16	3	340	3	CFTR	7	117171005	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	3651569	117171005	41967658	585	86145											
KCND2	3751	broad.mit.edu	37	chr7	119915439	119915439	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttcgcctggctgcagcGcctagtcgttaccgttttgt	3	15	11	12	4	0	0	0	0	0	0	2	0	0	0	3	1	4	5	3	1	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:119915439G>A	uc003vjj.1	+	1	1718	c.753G>A	c.(751-753)GCG>GCA	p.A251A		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	251	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TGGCTGCAGCGCCTAGTCGTT	0.532													13	56					0	0	0.001855	0	0		A	119915439	A	A	119915439	2	1	157	1	0	0	0	0	0	0	0	1	8035	1074	38	1		1	KCND2	7	119915439	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2744434	119915439	39223224	586	86146											
C7orf58	79974	broad.mit.edu	37	chr7	120781026	120781026	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	attggagtggaaactcctaaGtgtctgtgcaaggtgcacct	10	11	12	8	0	1	0	0	0	1	0	2	2	2	2	2	3	3	2	2	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:120781026G>C	uc003vjq.3	+	15	2292	c.1845G>C	c.(1843-1845)AAG>AAC	p.K615N	C7orf58_uc003vjs.3_Missense_Mutation_p.K615N|C7orf58_uc003vjt.3_Missense_Mutation_p.K395N	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	615						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AAACTCCTAAGTGTCTGTGCA	0.438													5	87					0	0	0.001168	0	0		C	120781026	C	C	120781026	3	2	157	1	0	0	0	0	1	0	0	0	2408	1020	36	5	1899	5	C7orf58	7	120781026	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	865587	120781026	38357637	587	86147											
HYAL4	23553	broad.mit.edu	37	chr7	123508820	123508820	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	actcaaaagatgtttacagaCagaagtcaagaaagcttatt	18	10	7	6	0	2	4	2	0	0	4	2	4	2	4	0	0	2	2	0	0	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:123508820C>A	uc003vlc.2	+	3	1131	c.493C>A	c.(493-495)CAG>AAG	p.Q165K	HYAL4_uc011knz.1_Missense_Mutation_p.Q165K	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	165	Extracellular (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						TGTTTACAGACAGAAGTCAAG	0.403													12	174					3.07112e-06	3.21791e-06	0.010729	1	0		A	123508820	A	A	123508820	3	1	157	1	0	0	0	0	1	0	0	0	7482	479	17	5	495	5	HYAL4	7	123508820	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2727794	123508820	35629843	588	86148											
GCC1	79571	broad.mit.edu	37	chr7	127223030	127223030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caggtcacagagcttctccaCatccagggtcacctggcttt	8	10	9	14	0	3	1	2	0	1	1	5	1	4	1	3	3	1	2	3	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:127223030C>T	uc003vma.2	-	2	1784	c.1366G>A	c.(1366-1368)GTG>ATG	p.V456M		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	456	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						AGCTTCTCCACATCCAGGGTC	0.532													34	147					0	0	0.013726	0	0		T	127223030	T	T	127223030	3	4	157	1	0	0	0	0	1	0	0	0	6300	478	17	4	965	4	GCC1	7	127223030	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3714210	127223030	31915633	589	86149											
FSCN3	29999	broad.mit.edu	37	chr7	127235709	127235709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgaccccactatgggcCgcatctgggtggacgcagca	7	6	15	13	2	1	1	0	1	1	0	1	2	1	2	3	4	1	4	3	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:127235709C>T	uc003vmd.1	+	2	712	c.493C>T	c.(493-495)CGC>TGC	p.R165C	FSCN3_uc003vmc.1_Missense_Mutation_p.R120C|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Missense_Mutation_p.R31C|FSCN3_uc010llc.1_Missense_Mutation_p.R165C	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	165						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						CACTATGGGCCGCATCTGGGT	0.607													18	83					0	0	0.007413	0	0		T	127235709	T	T	127235709	3	4	157	1	0	0	0	0	1	0	0	0	6083	652	23	1	499	1	FSCN3	7	127235709	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	12679	127235709	31902954	590	86150											
FLNC	2318	broad.mit.edu	37	chr7	128483862	128483862	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cccaacagggcaacatggcaGtgacagtgacttatggcggg	11	6	14	10	1	0	2	0	2	0	0	0	2	0	2	1	4	2	2	1	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:128483862G>A	uc003vnz.3	+	19	3033	c.2824G>A	c.(2824-2826)GTG>ATG	p.V942M	FLNC_uc003voa.3_Missense_Mutation_p.V942M	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	942	Filamin 7.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CAACATGGCAGTGACAGTGAC	0.527													17	268					0	0	0.004007	0	0		A	128483862	A	A	128483862	3	1	157	1	0	0	0	0	1	0	0	0	5949	1029	36	4	2898	4	FLNC	7	128483862	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1248153	128483862	30654801	591	86151											
FLNC	2318	broad.mit.edu	37	chr7	128494555	128494555	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgtcgagggcgaggacagCgcctacagcgtgcgctttgt	7	8	15	11	6	0	0	0	0	0	0	2	3	0	1	1	2	4	1	1	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:128494555C>T	uc003vnz.3	+	41	7025	c.6816C>T	c.(6814-6816)AGC>AGT	p.S2272S	FLNC_uc003voa.3_Silent_p.S2239S	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2272	Filamin 20.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCGAGGACAGCGCCTACAGCG	0.637													3	6					0	0	0.004672	0	0		T	128494555	T	T	128494555	2	4	157	1	0	0	0	0	0	0	0	1	5949	767	27	1		1	FLNC	7	128494555	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	10693	128494555	30644108	592	86152											
FAM40B	57464	broad.mit.edu	37	chr7	129122851	129122851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccatttaccagaaagtgCgtcaccgcatgaacgatgac	13	7	9	12	3	1	3	1	2	0	1	1	4	1	3	3	0	4	1	3	0	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:129122851C>T	uc011koy.1	+	20	2258	c.2218C>T	c.(2218-2220)CGT>TGT	p.R740C	FAM40B_uc003vow.2_Missense_Mutation_p.R740C|FAM40B_uc011koz.1_Missense_Mutation_p.R232C	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	740											0						CCAGAAAGTGCGTCACCGCAT	0.448													7	66					0	0	0.001984	0	0		T	129122851	T	T	129122851	3	4	157	1	0	0	0	0	1	0	0	0	5575	768	27	1	2296	1	FAM40B	7	129122851	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	628296	129122851	30015812	593	86153											
COPG2	26958	broad.mit.edu	37	chr7	130351756	130351756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggattgattggagtttcaTtgaatatacgagcctatgaa	12	15	10	4	1	1	3	1	3	0	0	1	6	1	5	1	2	2	1	1	2	5	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:130351756T>C	uc003vqh.1	-	3	194	c.104A>G	c.(103-105)AAT>AGT	p.N35S		NM_012133	NP_036265	Q9UBF2	COPG2_HUMAN	coatomer protein complex, subunit gamma 2	35					intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat	protein binding|structural molecule activity				0	Melanoma(18;0.0435)					TGGAGTTTCATTGAATATACG	0.279													7	13					0	0	0.00308	0	0		C	130351756	C	C	130351756	3	2	157	1	0	0	0	0	1	0	0	0	3735	1493	52	3	1146	3	COPG2	7	130351756	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1228905	130351756	28786907	594	86154											
PLXNA4	91584	broad.mit.edu	37	chr7	131895805	131895805	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcgtagccacgctgcccaGactggggctgggggaggttc	6	8	16	11	2	0	1	0	0	0	1	2	2	0	2	2	5	2	4	2	5	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:131895805G>T	uc003vra.3	-	10	2424	c.2195C>A	c.(2194-2196)TCT>TAT	p.S732Y		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	732	Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ACGCTGCCCAGACTGGGGCTG	0.627													7	17					0.00448238	0.0045525	0.004482	1	0		T	131895805	T	T	131895805	3	4	157	1	0	0	0	0	1	0	0	0	12141	942	33	5	3581	5	PLXNA4	7	131895805	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1544049	131895805	27242858	595	86155											
CHCHD3	54927	broad.mit.edu	37	chr7	132659927	132659927	+	Splice_Site	SNP	A	G	G	1	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	ctcctacatttttaatactcAccaggtgctttgccttagcg	8	15	6	12	1	1	0	1	0	0	0	2	0	2	0	3	1	5	1	3	1	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:132659927A>G	uc003vre.2	-	4	505	c.369_splice	c.e4+1	p.L123_splice	CHCHD3_uc010lmi.2_Splice_Site|CHCHD3_uc003vrf.2_Missense_Mutation_p.V124A|CHCHD3_uc010lmj.2_5'UTR|CHCHD3_uc011kpn.1_Splice_Site_p.L123_splice	NM_017812	NP_060282	Q9NX63	CHCH3_HUMAN	coiled-coil-helix-coiled-coil-helix domain						inner mitochondrial membrane organization|mitochondrial fusion	mitochondrial inner membrane	protein complex scaffold				0						TTTAATACTCACCAGGTGCTT	0.463													27	106					0	0	0.004656	0	0		G	132659927	G	G	132659927	5	3	157	1	0	0	0	0	0	0	1	0	3320	173	6	3	332	3	CHCHD3	7	132659927	Splice_Site	SNP	A	TCGA-CG-5728-01A-11D-1600-08	764122	132659927	26478736	596	86156											
CNOT4	4850	broad.mit.edu	37	chr7	135079001	135079001	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagttctgaagagatgtgggCgaaagggaaggttggtcttg	10	10	18	3	1	2	2	0	1	2	1	2	6	2	3	0	4	0	2	0	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:135079001C>T	uc003vsv.1	-	10	1603	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	CNOT4_uc003vss.2_Silent_p.S429S|CNOT4_uc011kpz.1_Silent_p.S429S|CNOT4_uc003vst.2_Silent_p.S432S|CNOT4_uc003vsu.1_Silent_p.S429S|CNOT4_uc011kpy.1_Silent_p.S432S	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	432					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						GAGATGTGGGCGAAAGGGAAG	0.498													40	113					0	0	0.005524	0	0		T	135079001	T	T	135079001	2	4	157	1	0	0	0	0	0	0	0	1	3624	755	27	1		1	CNOT4	7	135079001	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2419074	135079001	24059662	597	86157											
DGKI	9162	broad.mit.edu	37	chr7	137270094	137270094	+	Splice_Site	SNP	T	C	C	0	1	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	caggttcatcagtgtagcccTgaggaatcagagaacatatc	13	9	10	9	0	3	2	3	1	0	1	4	4	3	3	1	2	2	2	1	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:137270094T>C	uc003vtt.2	-	14	1427	c.1426_splice	c.e14-1	p.G476_splice	DGKI_uc003vtu.2_Splice_Site_p.G176_splice	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						AGTGTAGCCCTGAGGAATCAG	0.448													19	92					0	0	0.007413	0	0		C	137270094	C	C	137270094	5	2	157	1	0	0	0	0	0	0	1	0	4477	1594	55	3	1857	3	DGKI	7	137270094	Splice_Site	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2191093	137270094	21868569	598	86158											
ZC3HAV1	56829	broad.mit.edu	37	chr7	138758625	138758625	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctccatactgaatccatgTgccagattcattcttccaat	10	15	4	12	0	3	2	1	1	2	1	6	2	5	2	4	0	2	0	4	0	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:138758625T>C	uc003vun.2	-	7	2237	c.1849A>G	c.(1849-1851)ACA>GCA	p.T617A	ZC3HAV1_uc003vuo.2_Missense_Mutation_p.T78A|ZC3HAV1_uc003vup.2_Missense_Mutation_p.T617A	NM_020119	NP_064504	Q7Z2W4	ZCCHV_HUMAN	zinc finger antiviral protein isoform 1	617	WWE.				response to virus	cytoplasm|nucleus	NAD+ ADP-ribosyltransferase activity|RNA binding|zinc ion binding			ovary(1)	1						TGAATCCATGTGCCAGATTCA	0.428													26	138					0	0	0.009535	0	0		C	138758625	C	C	138758625	3	2	157	1	0	0	0	0	1	0	0	0	17600	1696	59	3	891	3	ZC3HAV1	7	138758625	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1488531	138758625	20380038	599	86159											
UBN2	254048	broad.mit.edu	37	chr7	138969097	138969097	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcaggccccctcaaagcTaacaaactcatcatccactg	12	9	4	16	0	5	0	4	0	1	0	6	0	6	0	3	1	3	1	3	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:138969097T>C	uc011kqr.1	+	15	3446	c.3446T>C	c.(3445-3447)CTA>CCA	p.L1149P		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1149	Ser-rich.									ovary(1)|skin(1)	2						CCCTCAAAGCTAACAAACTCA	0.473													3	104					0	0	0.004672	0	0		C	138969097	C	C	138969097	3	2	157	1	0	0	0	0	1	0	0	0	16919	1522	53	3	3504	3	UBN2	7	138969097	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	210472	138969097	20169566	600	86160											
HIPK2	28996	broad.mit.edu	37	chr7	139268623	139268623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgggttttcaggggtggcaCgatgatggttcgggggttcc	4	12	18	7	2	1	1	1	1	0	0	3	2	2	1	1	7	0	4	1	7	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:139268623C>T	uc003vvf.3	-	13	3079	c.2905G>A	c.(2905-2907)GTG>ATG	p.V969M	HIPK2_uc003vvd.3_Missense_Mutation_p.V942M	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	969	Required for localization to nuclear speckles (By similarity).|Interaction with AXIN1 (By similarity).				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					AGGGGTGGCACGATGATGGTT	0.592													5	14					0	0	0.000602	0	0		T	139268623	T	T	139268623	3	4	157	1	0	0	0	0	1	0	0	0	7133	536	19	1	703	1	HIPK2	7	139268623	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	299526	139268623	19870040	601	86161											
HIPK2	28996	broad.mit.edu	37	chr7	139315949	139315949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatggtgagtccgtgtcacGgttgaaaaacctagttgtct	10	13	11	7	2	2	2	1	2	1	0	3	2	3	2	2	2	1	2	2	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:139315949G>A	uc003vvf.3	-	4	1483	c.1309C>T	c.(1309-1311)CGT>TGT	p.R437C	HIPK2_uc003vvd.3_Missense_Mutation_p.R437C	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform	437	Protein kinase.|Interaction with DAXX.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					TCCGTGTCACGGTTGAAAAAC	0.478													9	36					0	0	0.008291	0	0		A	139315949	A	A	139315949	3	1	157	1	0	0	0	0	1	0	0	0	7133	1116	39	1	2335	1	HIPK2	7	139315949	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	47326	139315949	19822714	602	86162											
DENND2A	27147	broad.mit.edu	37	chr7	140255465	140255465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggctgaagcatcccaggcGgctcacaatgcagtaaactt	12	7	11	11	1	1	1	1	1	0	0	2	2	2	1	1	3	3	5	1	3	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:140255465G>A	uc010lnj.2	-	10	2153	c.2008C>T	c.(2008-2010)CGC>TGC	p.R670C	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.R670C|DENND2A_uc003vvw.2_Missense_Mutation_p.R670C|DENND2A_uc003vvx.2_Missense_Mutation_p.R670C	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	670	DENN.									ovary(3)|breast(1)	4	Melanoma(164;0.00956)					CATCCCAGGCGGCTCACAATG	0.527													7	149					0	0	0.00308	0	0		A	140255465	A	A	140255465	3	1	157	1	0	0	0	0	1	0	0	0	4435	1116	39	1	1057	1	DENND2A	7	140255465	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	939516	140255465	18883198	603	86163											
ADCK2	90956	broad.mit.edu	37	chr7	140379077	140379077	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagaagtcttggtggaaacGtatgaagtaagagtgatggc	14	9	15	3	1	1	4	0	2	1	2	1	6	1	5	0	3	1	2	0	3	5	3	rs141910091		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:140379077G>A	uc003vvy.1	+	3	1381	c.1203G>A	c.(1201-1203)ACG>ACA	p.T401T	ADCK2_uc003vvz.2_Silent_p.T401T	NM_052853	NP_443085	Q7Z695	ADCK2_HUMAN	aarF domain containing kinase 2	401	Protein kinase.					integral to membrane	ATP binding|protein serine/threonine kinase activity				0	Melanoma(164;0.00956)					TGGTGGAAACGTATGAAGTAA	0.537													14	75					0	0	0.001855	0	0		A	140379077	A	A	140379077	2	1	157	1	0	0	0	0	0	0	0	1	289	1132	40	1		1	ADCK2	7	140379077	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	123612	140379077	18759586	604	86164											
AGK	55750	broad.mit.edu	37	chr7	141351372	141351372	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcacgtggagggcacggagtGtctccaagccagccagtgca	9	5	15	12	2	1	0	0	0	1	0	2	2	1	2	3	3	3	3	3	3	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:141351372G>A	uc003vwi.2	+	15	1265	c.1094G>A	c.(1093-1095)TGT>TAT	p.C365Y	AGK_uc011krg.1_RNA	NM_018238	NP_060708	Q53H12	AGK_HUMAN	acylglycerol kinase precursor	365					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway	mitochondrial membrane	acylglycerol kinase activity|ATP binding|diacylglycerol kinase activity|NAD+ kinase activity			ovary(1)|breast(1)	2	Melanoma(164;0.0171)					GGCACGGAGTGTCTCCAAGCC	0.557													7	36					0	0	0.00308	0	0		A	141351372	A	A	141351372	3	1	157	1	0	0	0	0	1	0	0	0	383	1377	48	4	1148	4	AGK	7	141351372	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	972295	141351372	17787291	605	86165											
KIAA1147	57189	broad.mit.edu	37	chr7	141386388	141386388	+	Silent	SNP	A	G	G	1	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	gattggattttatgggacccActggccatagacttgaactc	10	12	10	9	0	0	2	0	1	0	1	1	5	0	4	2	3	1	0	2	3	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:141386388A>G	uc003vwk.2	-	2	339	c.339T>C	c.(337-339)AGT>AGC	p.S113S		NM_001080392	NP_001073861	A4D1U4	LCHN_HUMAN	hypothetical protein LOC57189	113										ovary(1)	1	Melanoma(164;0.0171)					TATGGGACCCACTGGCCATAG	0.443													8	28					0	0	0.00308	0	0		G	141386388	G	G	141386388	2	3	157	1	0	0	0	0	0	0	0	1	8226	156	6	3		3	KIAA1147	7	141386388	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	35016	141386388	17752275	606	86166											
EPHB6	2051	broad.mit.edu	37	chr7	142568426	142568426	+	Missense_Mutation	SNP	A	G	G	1	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	taccttcagtgatgtggctcAgctcagcctagagtaagcag	10	10	11	10	0	3	2	3	1	0	1	3	2	3	2	2	1	4	4	2	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:142568426A>G	uc011kst.1	+	19	3732	c.2945A>G	c.(2944-2946)CAG>CGG	p.Q982R	EPHB6_uc011ksu.1_Missense_Mutation_p.Q982R|EPHB6_uc003wbs.2_Missense_Mutation_p.Q690R|EPHB6_uc003wbt.2_Missense_Mutation_p.Q456R|EPHB6_uc003wbu.2_Missense_Mutation_p.Q690R|EPHB6_uc003wbv.2_Missense_Mutation_p.Q366R	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	982	SAM.|Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					GATGTGGCTCAGCTCAGCCTA	0.592													30	139					0	0	0.005524	0	0		G	142568426	G	G	142568426	3	3	157	1	0	0	0	0	1	0	0	0	5186	188	7	3	3003	3	EPHB6	7	142568426	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1182038	142568426	16570237	607	86167											
TAS2R60	338398	broad.mit.edu	37	chr7	143140741	143140741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttagcctaggggcctctCgcttctgtctgcagtcagtg	4	13	13	11	1	4	0	1	0	3	0	5	0	4	0	2	3	2	3	2	3	2	3	rs148979644		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:143140741C>T	uc011ktg.1	+	1	196	c.196C>T	c.(196-198)CGC>TGC	p.R66C	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	66	Extracellular (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					AGGGGCCTCTCGCTTCTGTCT	0.498													49	141					0	0	0.01441	0	0		T	143140741	T	T	143140741	3	4	157	1	0	0	0	0	1	0	0	0	15610	884	31	1	198	1	TAS2R60	7	143140741	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	572315	143140741	15997922	608	86168											
OR6B1	135946	broad.mit.edu	37	chr7	143701922	143701922	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttccatcttctatgccaTtgtcactccttctctcaacc	7	17	2	15	0	5	0	2	0	3	0	8	0	7	0	4	0	2	0	4	0	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:143701922T>C	uc003wdt.1	+	1	833	c.833T>C	c.(832-834)ATT>ACT	p.I278T		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					TTCTATGCCATTGTCACTCCT	0.423													39	165					0	0	0.004878	0	0		C	143701922	C	C	143701922	3	2	157	1	0	0	0	0	1	0	0	0	11206	1493	52	3	835	3	OR6B1	7	143701922	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	561181	143701922	15436741	609	86169											
OR2A14	135941	broad.mit.edu	37	chr7	143826976	143826976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggcagcgccattgtcacGtacatggcccccaagtcccg	7	9	10	15	3	1	0	1	0	0	0	2	0	2	0	4	2	2	2	4	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:143826976G>A	uc011kua.1	+	1	771	c.771G>A	c.(769-771)ACG>ACA	p.T257T		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					CCATTGTCACGTACATGGCCC	0.552													46	208					0	0	0.011902	0	0		A	143826976	A	A	143826976	2	1	157	1	0	0	0	0	0	0	0	1	10995	1132	40	1		1	OR2A14	7	143826976	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	125054	143826976	15311687	610	86170											
ZNF786	136051	broad.mit.edu	37	chr7	148768017	148768017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actggaagggcctctctcccGtgtgcaggcgctgatggctg	5	9	15	12	2	1	1	0	1	1	0	3	2	2	2	2	4	1	3	2	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:148768017G>A	uc003wfh.2	-	4	1984	c.1847C>T	c.(1846-1848)ACG>ATG	p.T616M	ZNF786_uc011kuk.1_Missense_Mutation_p.T579M|ZNF786_uc003wfi.2_Missense_Mutation_p.T530M	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	616					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CCTCTCTCCCGTGTGCAGGCG	0.647													17	36					0	0	0.008871	0	0		A	148768017	A	A	148768017	3	1	157	1	0	0	0	0	1	0	0	0	18183	1145	40	1	505	1	ZNF786	7	148768017	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4941041	148768017	10370646	611	86171											
MLL3	58508	broad.mit.edu	37	chr7	151856005	151856005	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagcttgtttctcctcttcGtcctttttccttttctttga	3	23	4	11	1	3	1	0	1	3	0	7	1	5	1	3	0	1	2	3	0	1	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:151856005G>A	uc003wla.2	-	44	11832	c.11613C>T	c.(11611-11613)GAC>GAT	p.D3871D	MLL3_uc003wkz.2_Silent_p.D2932D|MLL3_uc003wkx.2_5'Flank|MLL3_uc003wky.2_Silent_p.D1380D	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3871					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		TCTCCTCTTCGTCCTTTTTCC	0.458			N		medulloblastoma								108	348					0	0	0.01441	0	0		A	151856005	A	A	151856005	2	1	157	1	0	0	0	0	0	0	0	1	9640	1136	40	1		1	MLL3	7	151856005	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3087988	151856005	7282658	612	86172											
DPP6	1804	broad.mit.edu	37	chr7	154263935	154263935	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttcttttaggaatcattAagagccatcagatatgaaat	14	16	6	5	0	3	3	2	1	1	2	3	4	3	4	1	1	1	0	1	1	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:154263935A>T	uc003wlk.2	+	5	690	c.561A>T	c.(559-561)TTA>TTT	p.L187F	DPP6_uc003wli.2_Missense_Mutation_p.L123F|DPP6_uc003wlj.2_Missense_Mutation_p.L187F|DPP6_uc003wlm.2_Missense_Mutation_p.L125F|DPP6_uc011kvq.1_Missense_Mutation_p.L125F	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	187	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			AGGAATCATTAAGAGCCATCA	0.303													16	56					0	0	0.003163	0	0		T	154263935	T	T	154263935	3	4	157	1	0	0	0	0	1	0	0	0	4736	359	13	5	695	5	DPP6	7	154263935	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2407930	154263935	4874728	613	86173											
VIPR2	7434	broad.mit.edu	37	chr7	158896468	158896468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgctctcatcctccgggtCgctgtagccacaggcatcga	6	10	10	15	3	1	0	1	0	1	0	6	1	3	0	3	2	2	4	3	2	1	2	rs149519347		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr7:158896468C>T	uc003woh.2	-	4	523	c.337G>A	c.(337-339)GAC>AAC	p.D113N	VIPR2_uc010lqx.2_RNA|VIPR2_uc010lqy.2_RNA	NM_003382	NP_003373	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2	113	Extracellular (Potential).				cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		TCCTCCGGGTCGCTGTAGCCA	0.532													12	77					0	0	0.00245	0	0		T	158896468	T	T	158896468	3	4	157	1	0	0	0	0	1	0	0	0	17196	884	31	1	1019	1	VIPR2	7	158896468	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4632533	158896468	242195	614	86174											
CSMD1	64478	broad.mit.edu	37	chr8	3245111	3245111	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	accccgggtcacagctgaaaGtcactgtggacctgatgcca	10	7	11	13	1	2	2	2	2	0	0	2	3	2	3	4	2	2	1	4	2	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:3245111G>T	uc011kwk.1	-	18	3080	c.2690C>A	c.(2689-2691)ACT>AAT	p.T897N	CSMD1_uc011kwj.1_Missense_Mutation_p.T289N|CSMD1_uc003wqe.2_Missense_Mutation_p.T53N	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	897	Extracellular (Potential).|Sushi 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ACAGCTGAAAGTCACTGTGGA	0.612													4	24					0.00024832	0.000255744	0.009096	1	0		T	3245111	T	T	3245111	3	4	157	1	0	0	0	0	1	0	0	0	3947	1029	36	5	8219	5	CSMD1	8	3245111	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08		3245111	143118911	615	86175											
DEFA4	1669	broad.mit.edu	37	chr8	6794409	6794409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagaatagcagcgaggagggCgataatcctcatggctgggg	11	6	17	7	2	1	1	1	0	0	1	2	5	2	2	1	5	2	2	1	5	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:6794409C>T	uc003wqu.1	-	2	64	c.13G>A	c.(13-15)GCC>ACC	p.A5T		NM_001925	NP_001916	P12838	DEF4_HUMAN	defensin, alpha 4 preproprotein	5					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space				large_intestine(1)	1				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		GCGAGGAGGGCGATAATCCTC	0.617													13	44					0	0	0.013537	0	0		T	6794409	T	T	6794409	3	4	157	1	0	0	0	0	1	0	0	0	4394	768	27	1	288	1	DEFA4	8	6794409	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3549298	6794409	139569613	616	86176											
TNKS	8658	broad.mit.edu	37	chr8	9590873	9590873	+	Silent	SNP	T	C	C	0	1	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	aggcatggggcttctgtcaaTgtggcggacttatggaaatt	9	12	14	6	1	2	0	1	0	1	0	2	2	2	2	0	6	0	2	0	6	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:9590873T>C	uc003wss.2	+	15	2237	c.2232T>C	c.(2230-2232)AAT>AAC	p.N744N	TNKS_uc011kww.1_Silent_p.N507N|TNKS_uc010lrt.1_5'Flank	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	744	ANK 11.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CTTCTGTCAATGTGGCGGACT	0.413													9	240					0	0	0.008291	0	0		C	9590873	C	C	9590873	2	2	157	1	0	0	0	0	0	0	0	1	16344	1461	51	3		3	TNKS	8	9590873	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2796464	9590873	136773149	617	86177											
TNKS	8658	broad.mit.edu	37	chr8	9609295	9609295	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctttagcagagttggcCgtaggaggagcctccaatgc	8	8	14	11	1	0	1	0	0	0	1	1	3	1	3	4	4	3	3	4	4	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:9609295C>T	uc003wss.2	+	19	3014	c.3009C>T	c.(3007-3009)GCC>GCT	p.A1003A	TNKS_uc011kww.1_Silent_p.A766A|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	1003					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		CAGAGTTGGCCGTAGGAGGAG	0.547													13	156					0	0	0.013537	0	0		T	9609295	T	T	9609295	2	4	157	1	0	0	0	0	0	0	0	1	16344	639	23	1		1	TNKS	8	9609295	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	18422	9609295	136754727	618	86178											
RP1L1	94137	broad.mit.edu	37	chr8	10469597	10469597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggctgtgggtgtccttgcGgtagtgagaatgcctgggat	5	12	18	6	1	0	1	0	1	0	1	1	3	1	2	2	4	2	2	2	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:10469597G>A	uc003wtc.2	-	4	2240	c.2011C>T	c.(2011-2013)CGC>TGC	p.R671C		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	671					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GTGTCCTTGCGGTAGTGAGAA	0.642													20	190					0	0	0.012319	0	0		A	10469597	A	A	10469597	3	1	157	1	0	0	0	0	1	0	0	0	13558	1116	39	1	5195	1	RP1L1	8	10469597	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	860302	10469597	135894425	619	86179											
FAM86B1	85002	broad.mit.edu	37	chr8	12044028	12044028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggagctgctcgaggaccCggctgtgagggtcgctgaag	6	7	17	11	4	0	2	0	2	0	0	3	5	0	4	1	4	2	4	1	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:12044028C>T	uc010lse.2	-	5	518	c.473G>A	c.(472-474)CGG>CAG	p.R158Q	FAM66D_uc011kxp.1_Intron|FAM86B1_uc003wvf.3_Intron|FAM86B1_uc003wvi.3_Intron|FAM86B1_uc010lsd.2_Intron|FAM86B1_uc003wvh.3_Intron|FAM86B1_uc011kxq.1_Intron|FAM86B1_uc010lsf.2_Intron|FAM86B1_uc003wvj.3_Missense_Mutation_p.R92Q|FAM86B1_uc003wvk.3_Missense_Mutation_p.R192Q|FAM86B1_uc010lsg.2_Intron|FAM86B1_uc003wvl.3_Intron	NM_001083537	NP_001077006	Q8N7N1	F86B1_HUMAN	hypothetical protein LOC85002	158											0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.0965)		CTCGAGGACCCGGCTGTGAGG	0.607													9	65					0	0	0.010729	0	0		T	12044028	T	T	12044028	3	4	157	1	0	0	0	0	1	0	0	0	5658	652	23	1	429	1	FAM86B1	8	12044028	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1574431	12044028	134319994	620	86180											
SGCZ	137868	broad.mit.edu	37	chr8	13965704	13965704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggctctgctctgatgtgCggcgtctccacagagtgccc	5	10	13	13	2	3	2	0	1	3	1	4	3	3	2	2	2	3	2	2	2	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:13965704C>T	uc003wwq.2	-	6	1248	c.588G>A	c.(586-588)CCG>CCA	p.P196P	SGCZ_uc010lss.2_Silent_p.P149P	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	183	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		CTCTGATGTGCGGCGTCTCCA	0.463													9	64					0	0	0.010729	0	0		T	13965704	T	T	13965704	2	4	157	1	0	0	0	0	0	0	0	1	14229	755	27	1		1	SGCZ	8	13965704	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1921676	13965704	132398318	621	86181											
MTUS1	57509	broad.mit.edu	37	chr8	17503472	17503472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggctagggaaggagcccGaattccttggtgactgcaaa	10	8	15	8	1	0	1	0	1	0	0	1	4	1	3	2	5	2	2	2	5	4	3	rs148435996	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:17503472G>A	uc003wxv.2	-	15	4250	c.3776C>T	c.(3775-3777)TCG>TTG	p.S1259L	MTUS1_uc003wxt.2_Missense_Mutation_p.S506L|MTUS1_uc011kyg.1_Missense_Mutation_p.S404L|MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.S1205L|MTUS1_uc003wxs.2_Missense_Mutation_p.S425L	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	1259						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		GAAGGAGCCCGAATTCCTTGG	0.552													9	39					0	0	0.006214	0	0		A	17503472	A	A	17503472	3	1	157	1	0	0	0	0	1	0	0	0	9983	1059	37	1	40	1	MTUS1	8	17503472	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3537768	17503472	128860550	622	86182											
MTUS1	57509	broad.mit.edu	37	chr8	17611433	17611433	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaaacaacgcagaaacggaCccggtctcgcatgctgagtt	12	7	11	11	4	1	3	0	2	1	1	2	4	1	4	1	2	4	4	1	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:17611433C>T	uc003wxv.2	-	2	2358	c.1884G>A	c.(1882-1884)GGG>GGA	p.G628G	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Silent_p.G628G|MTUS1_uc010lsz.2_Silent_p.G628G	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	628						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		CAGAAACGGACCCGGTCTCGC	0.433													80	347					0	0	0.01441	0	0		T	17611433	T	T	17611433	2	4	157	1	0	0	0	0	0	0	0	1	9983	494	18	4		4	MTUS1	8	17611433	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	107961	17611433	128752589	623	86183											
MTUS1	57509	broad.mit.edu	37	chr8	17612446	17612446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcagaaactggtgttagtgCttgtgtctccttttctccaa	8	16	8	9	0	3	1	1	0	2	1	5	1	3	1	2	1	2	2	2	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:17612446C>T	uc003wxv.2	-	2	1345	c.871G>A	c.(871-873)GCA>ACA	p.A291T	MTUS1_uc010lsy.2_RNA|MTUS1_uc003wxw.2_Missense_Mutation_p.A291T|MTUS1_uc010lsz.2_Missense_Mutation_p.A291T	NM_001001924	NP_001001924	Q9ULD2	MTUS1_HUMAN	mitochondrial tumor suppressor 1 isoform 1	291						Golgi apparatus|microtubule|microtubule organizing center|mitochondrion|nucleus|plasma membrane|spindle				ovary(1)|skin(1)	2				Colorectal(111;0.0778)		GGTGTTAGTGCTTGTGTCTCC	0.413													25	545					0	0	0.005443	0	0		T	17612446	T	T	17612446	3	4	157	1	0	0	0	0	1	0	0	0	9983	797	28	2	3316	2	MTUS1	8	17612446	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1013	17612446	128751576	624	86184											
CSGALNACT1	55790	broad.mit.edu	37	chr8	19277935	19277935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaagagaaggacgttgcTtcccttccagaagcgggctc	12	7	12	10	2	0	2	0	0	0	2	3	5	2	3	2	2	2	3	2	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:19277935T>C	uc011kyn.1	-	7	2112	c.1048A>G	c.(1048-1050)AGC>GGC	p.S350G	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.S350G|CSGALNACT1_uc003wzg.2_RNA|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.S349G	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	350	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)		AGGACGTTGCTTCCCTTCCAG	0.463													55	272					0	0	0.01441	0	0		C	19277935	C	C	19277935	3	2	157	1	0	0	0	0	1	0	0	0	3941	1609	56	3	566	3	CSGALNACT1	8	19277935	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1665489	19277935	127086087	625	86185											
NPM2	10361	broad.mit.edu	37	chr8	21882970	21882970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgagctcagtcaggagaggCggacttggaccttcagaccc	9	6	14	12	2	3	2	3	0	0	2	3	6	3	4	2	4	1	1	2	4	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:21882970C>T	uc003xab.2	+	3	740	c.82C>T	c.(82-84)CGG>TGG	p.R28W	NPM2_uc003xac.2_Missense_Mutation_p.R28W|NPM2_uc003xad.2_Missense_Mutation_p.R28W|NPM2_uc003xae.2_Missense_Mutation_p.R28W|NPM2_uc003xaf.2_Missense_Mutation_p.R28W	NM_182795	NP_877724	Q86SE8	NPM2_HUMAN	nucleoplasmin 2	28					chromatin remodeling|embryo development|oocyte differentiation|positive regulation of meiosis|regulation of exit from mitosis|single fertilization	cytoplasmic chromatin|nuclear chromatin	histone binding|nucleic acid binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		TCAGGAGAGGCGGACTTGGAC	0.622													17	77					0	0	0.007413	0	0		T	21882970	T	T	21882970	3	4	157	1	0	0	0	0	1	0	0	0	10607	759	27	1	88	1	NPM2	8	21882970	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2605035	21882970	124481052	626	86186											
PDLIM2	64236	broad.mit.edu	37	chr8	22452116	22452116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggtggagggcgccaagcGgagggacaggaggaagacca	12	2	20	7	2	0	1	0	0	0	1	0	7	0	6	2	7	1	0	2	7	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:22452116G>A	uc003xcc.1	+	10	1189	c.1055G>A	c.(1054-1056)CGG>CAG	p.R352Q		NM_176871	NP_789847	Q96JY6	PDLI2_HUMAN	PDZ and LIM domain 2 isoform 1	Error:Variant_position_missing_in_Q96JY6_after_alignment						actin cytoskeleton|cell surface|cytoplasm|focal adhesion|nucleus	zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00579)|Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0626)		GGCGCCAAGCGGAGGGACAGG	0.597													31	127					0	0	0.008361	0	0		A	22452116	A	A	22452116	3	1	157	1	0	0	0	0	1	0	0	0	11699	1116	39	1	1171	1	PDLIM2	8	22452116	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	569146	22452116	123911906	627	86187											
CHMP7	91782	broad.mit.edu	37	chr8	23106740	23106740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgaggggagctgcagcGggagtcagacttcatggcca	9	6	16	10	2	2	1	2	0	0	1	3	4	2	3	1	4	3	2	1	4	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:23106740G>A	uc003xdc.2	+	3	965	c.317G>A	c.(316-318)CGG>CAG	p.R106Q	CHMP7_uc011kzs.1_Intron|CHMP7_uc003xdd.2_5'UTR	NM_152272	NP_689485	Q8WUX9	CHMP7_HUMAN	CHMP family, member 7	106					cellular membrane organization|late endosome to vacuole transport	cytosol|ESCRT III complex	protein transporter activity				0		Prostate(55;0.0513)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		GAGCTGCAGCGGGAGTCAGAC	0.532													20	87					0	0	0.014323	0	0		A	23106740	A	A	23106740	3	1	157	1	0	0	0	0	1	0	0	0	3364	1116	39	1	323	1	CHMP7	8	23106740	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	654624	23106740	123257282	628	86188											
ENTPD4	9583	broad.mit.edu	37	chr8	23291937	23291937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttatagttgacaggaaaCgaaaagcccctatgaaacac	16	9	7	9	1	0	2	0	2	0	0	0	4	0	3	2	1	3	1	2	1	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:23291937C>T	uc003xdl.2	-	12	1679	c.1515G>A	c.(1513-1515)TCG>TCA	p.S505S	ENTPD4_uc011kzu.1_Silent_p.S497S|ENTPD4_uc003xdm.2_Silent_p.S497S|ENTPD4_uc011kzv.1_Silent_p.S505S	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	505	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		TGACAGGAAACGAAAAGCCCC	0.478													19	133					0	0	0.007413	0	0		T	23291937	T	T	23291937	2	4	157	1	0	0	0	0	0	0	0	1	5149	523	19	1		1	ENTPD4	8	23291937	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	185197	23291937	123072085	629	86189											
ENTPD4	9583	broad.mit.edu	37	chr8	23292942	23292942	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatgagaggcgtacagtcCtcggtcaaagcgttcccgca	10	7	12	12	4	1	1	1	1	0	1	4	2	3	1	2	2	3	4	2	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:23292942C>T	uc003xdl.2	-	11	1587	c.1423G>A	c.(1423-1425)GGA>AGA	p.G475R	ENTPD4_uc011kzu.1_Missense_Mutation_p.G467R|ENTPD4_uc003xdm.2_Missense_Mutation_p.G467R|ENTPD4_uc011kzv.1_Missense_Mutation_p.G475R	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	475	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		GCGTACAGTCCTCGGTCAAAG	0.438													7	73					0	0	0.001984	0	0		T	23292942	T	T	23292942	3	4	157	1	0	0	0	0	1	0	0	0	5149	690	24	4	439	4	ENTPD4	8	23292942	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1005	23292942	123071080	630	86190											
ADAM28	10863	broad.mit.edu	37	chr8	24171018	24171018	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgaaaagaattatgacagCacctgtgggatggatggtgt	13	10	14	4	0	0	3	0	2	0	1	0	6	0	5	1	3	1	1	1	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:24171018C>T	uc003xdy.2	+	6	584	c.501C>T	c.(499-501)AGC>AGT	p.S167S	ADAM28_uc003xdx.2_Silent_p.S167S|ADAM28_uc011kzz.1_Intron|ADAM28_uc011laa.1_RNA	NM_014265	NP_055080	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28 isoform 1	167	Cysteine switch (By similarity).				proteolysis|spermatogenesis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|lung(1)|central_nervous_system(1)	5		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)		ATTATGACAGCACCTGTGGGA	0.433													34	219					0	0	0.013726	0	0		T	24171018	T	T	24171018	2	4	157	1	0	0	0	0	0	0	0	1	246	709	25	2		2	ADAM28	8	24171018	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	878076	24171018	122193004	631	86191											
ADAM28	10863	broad.mit.edu	37	chr8	24187564	24187564	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgggccacaactttggaAtgtttcatgacgactattct	12	13	8	8	1	2	1	1	1	1	0	2	3	2	2	1	2	1	1	1	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:24187564A>T	uc003xdy.2	+	11	1122	c.1039A>T	c.(1039-1041)ATG>TTG	p.M347L	ADAM28_uc003xdx.2_Missense_Mutation_p.M347L|ADAM28_uc011kzz.1_Missense_Mutation_p.M114L|ADAM28_uc011laa.1_RNA|ADAM28_uc010lua.2_Missense_Mutation_p.M34L	NM_014265	NP_055080	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28 isoform 1	347	Peptidase M12B.|Extracellular (Potential).				proteolysis|spermatogenesis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|lung(1)|central_nervous_system(1)	5		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)		CAACTTTGGAATGTTTCATGA	0.443													36	180					0	0	0.005524	0	0		T	24187564	T	T	24187564	3	4	157	1	0	0	0	0	1	0	0	0	246	101	4	5	1081	5	ADAM28	8	24187564	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	16546	24187564	122176458	632	86192											
HMBOX1	79618	broad.mit.edu	37	chr8	28902895	28902895	+	Missense_Mutation	SNP	A	G	G	1	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	cagttacttcaatgagaatcAatacccagatgaagcaaaga	18	8	7	8	0	2	4	2	2	0	3	2	5	2	4	1	0	3	2	1	0	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:28902895A>G	uc003xhd.3	+	7	1211	c.869A>G	c.(868-870)CAA>CGA	p.Q290R	HMBOX1_uc010lvd.2_Missense_Mutation_p.Q290R|HMBOX1_uc003xhc.3_Missense_Mutation_p.Q290R|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Missense_Mutation_p.Q290R|HMBOX1_uc011lay.1_Missense_Mutation_p.Q290R|HMBOX1_uc003xhf.2_Missense_Mutation_p.Q278R|HMBOX1_uc003xhg.2_Missense_Mutation_p.Q278R	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	290	Homeobox.				negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		AATGAGAATCAATACCCAGAT	0.403													10	186					0	0	0.006214	0	0		G	28902895	G	G	28902895	3	3	157	1	0	0	0	0	1	0	0	0	7234	130	5	3	891	3	HMBOX1	8	28902895	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	4715331	28902895	117461127	633	86193											
TEX15	56154	broad.mit.edu	37	chr8	30702292	30702292	+	Silent	SNP	T	C	C	0	1	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	cttttatcttcttcagttccTgatgctacatccaactcata	9	17	3	12	0	4	1	2	1	2	0	6	1	6	1	2	0	3	2	2	0	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:30702292T>C	uc003xil.2	-	1	4242	c.4242A>G	c.(4240-4242)TCA>TCG	p.S1414S		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1414										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CTTCAGTTCCTGATGCTACAT	0.368													12	283					0	0	0.013537	0	0		C	30702292	C	C	30702292	2	2	157	1	0	0	0	0	0	0	0	1	15804	1567	55	3		3	TEX15	8	30702292	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1799397	30702292	115661730	634	86194											
UNC5D	137970	broad.mit.edu	37	chr8	35544067	35544067	+	Silent	SNP	T	C	C	0	1	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	ttgtttccctttgaagtggaTgggagctgggaagtgtggag	7	13	17	4	0	0	1	0	1	0	0	1	5	1	5	1	4	1	2	1	4	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:35544067T>C	uc003xjr.1	+	7	1252	c.924T>C	c.(922-924)GAT>GAC	p.D308D	UNC5D_uc003xjs.1_Silent_p.D303D|UNC5D_uc003xjt.1_Silent_p.D77D	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	308	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TTGAAGTGGATGGGAGCTGGG	0.517													34	106					0	0	0.013726	0	0		C	35544067	C	C	35544067	2	2	157	1	0	0	0	0	0	0	0	1	17021	1461	51	3		3	UNC5D	8	35544067	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4841775	35544067	110819955	635	86195											
ASH2L	9070	broad.mit.edu	37	chr8	37967974	37967974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggaatacctatttcctccGgaagcaagcaagtaagaaca	15	8	9	9	1	0	1	0	0	0	1	2	3	2	3	3	2	4	3	3	2	8	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:37967974G>A	uc003xkt.3	+	4	537	c.479G>A	c.(478-480)CGG>CAG	p.R160Q	ASH2L_uc011lbk.1_Missense_Mutation_p.R21Q|ASH2L_uc003xku.3_Missense_Mutation_p.R66Q|ASH2L_uc010lwa.2_Missense_Mutation_p.R66Q	NM_004674	NP_004665	Q9UBL3	ASH2L_HUMAN	ash2-like isoform a	160					hemopoiesis|histone H3-K4 methylation|positive regulation of cell proliferation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription from RNA polymerase II promoter	Set1C/COMPASS complex	metal ion binding|protein binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2	Colorectal(12;0.000501)	Lung NSC(58;0.0295)|all_lung(54;0.0413)				TATTTCCTCCGGAAGCAAGCA	0.443													22	141					0	0	0.014323	0	0		A	37967974	A	A	37967974	3	1	157	1	0	0	0	0	1	0	0	0	1043	1116	39	1	493	1	ASH2L	8	37967974	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2423907	37967974	108396048	636	86196											
FGFR1	2260	broad.mit.edu	37	chr8	38282177	38282177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggccactgttttgttggcGggcaaccctgcttgcaggat	6	11	14	10	1	0	0	0	0	0	0	0	1	0	1	2	4	3	5	2	4	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:38282177G>A	uc003xlp.2	-	7	1728	c.786C>T	c.(784-786)CCC>CCT	p.P262P	FGFR1_uc011lbo.1_Silent_p.P260P|FGFR1_uc011lbp.1_Silent_p.P173P|FGFR1_uc011lbq.1_Silent_p.P171P|FGFR1_uc010lwk.2_Silent_p.P254P|FGFR1_uc011lbr.1_RNA|FGFR1_uc011lbs.1_Silent_p.P102P|FGFR1_uc011lbt.1_Silent_p.P171P|FGFR1_uc011lbu.1_Silent_p.P293P|FGFR1_uc011lbv.1_Silent_p.P260P|FGFR1_uc011lbw.1_Silent_p.P173P|FGFR1_uc011lbx.1_Silent_p.P173P|FGFR1_uc003xlv.2_Silent_p.P173P|FGFR1_uc003xlu.2_Silent_p.P171P	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	262	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	TTTTGTTGGCGGGCAACCCTG	0.587		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						8	160					0	0	0.00308	0	0		A	38282177	A	A	38282177	2	1	157	1	0	0	0	0	0	0	0	1	5877	1103	39	1		1	FGFR1	8	38282177	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	314203	38282177	108081845	637	86197											
HTRA4	203100	broad.mit.edu	37	chr8	38840069	38840069	+	Silent	SNP	T	C	C	0	1	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	ctgcaaatgctgtccctcacTgtgccgtaagcatgtgtttg	7	13	10	11	1	1	0	1	0	0	0	2	0	2	0	2	0	4	5	2	0	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:38840069T>C	uc003xmj.2	+	7	1282	c.1167T>C	c.(1165-1167)ACT>ACC	p.T389T		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	389	PDZ.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			TGTCCCTCACTGTGCCGTAAG	0.418													38	203					0	0	0.006999	0	0		C	38840069	C	C	38840069	2	2	157	1	0	0	0	0	0	0	0	1	7472	1567	55	3		3	HTRA4	8	38840069	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	557892	38840069	107523953	638	86198											
ADAM32	203102	broad.mit.edu	37	chr8	39131867	39131867	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcactcagacatatgccagCcagtaagtaggttagaagag	15	7	11	8	0	1	3	1	0	0	3	1	3	1	3	2	1	3	4	2	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:39131867C>T	uc003xmt.3	+	21	2483	c.2238C>T	c.(2236-2238)AGC>AGT	p.S746S	ADAM32_uc011lch.1_Silent_p.S647S|ADAM32_uc003xmu.3_Intron|ADAM32_uc003xmv.2_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	746	Cytoplasmic (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			CATATGCCAGCCAGTAAGTAG	0.303													28	90					0	0	0.00632	0	0		T	39131867	T	T	39131867	2	4	157	1	0	0	0	0	0	0	0	1	249	738	26	2		2	ADAM32	8	39131867	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	291798	39131867	107232155	639	86199											
HOOK3	84376	broad.mit.edu	37	chr8	42812253	42812253	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctgatgagtaaagaatCtcctgtctctgctggaaatg	11	12	10	8	0	3	3	1	2	2	1	5	4	3	4	1	1	2	3	1	1	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:42812253C>A	uc003xpr.2	+	7	727	c.485C>A	c.(484-486)TCT>TAT	p.S162Y	HOOK3_uc010lxq.1_Missense_Mutation_p.S162Y	NM_032410	NP_115786	Q86VS8	HOOK3_HUMAN	golgi-associated microtubule-binding protein	162	Sufficient for interaction with microtubules.				cytoplasmic microtubule organization|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|Golgi localization|interkinetic nuclear migration|lysosome organization|microtubule anchoring|negative regulation of neurogenesis|protein localization to centrosome|protein transport	cis-Golgi network|FHF complex|microtubule|pericentriolar material	identical protein binding|microtubule binding			ovary(1)|breast(1)	2	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)			AGTAAAGAATCTCCTGTCTCT	0.308			T	RET	papillary thyroid								13	93					0.00498961	0.00506157	0.00499	1	0		A	42812253	A	A	42812253	3	1	157	1	0	0	0	0	1	0	0	0	7300	913	32	5	511	5	HOOK3	8	42812253	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3680386	42812253	103551769	640	86200											
HGSNAT	138050	broad.mit.edu	37	chr8	43048942	43048942	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgaccccgagggcatcCtgggcaccatcaactccatc	9	7	8	17	1	1	1	1	1	0	0	4	2	3	1	6	2	1	2	6	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:43048942C>A	uc003xpx.3	+	14	1468	c.1420C>A	c.(1420-1422)CTG>ATG	p.L474M		NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase	502	Helical; (Potential).				lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			CGAGGGCATCCTGGGCACCAT	0.428													24	172					3.96558e-24	4.40678e-24	0.004656	1	0		A	43048942	A	A	43048942	3	1	157	1	0	0	0	0	1	0	0	0	7104	680	24	5	1474	5	HGSNAT	8	43048942	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	236689	43048942	103315080	641	86201											
KIAA0146	23514	broad.mit.edu	37	chr8	48641512	48641512	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagaggcgccttttcctgtgGggactgctcccgggtggtca	4	10	15	12	2	1	1	1	0	0	1	3	2	3	2	3	5	1	1	3	5	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:48641512G>T	uc003xqd.2	+	18	2462	c.2453G>T	c.(2452-2454)GGG>GTG	p.G818V	KIAA0146_uc011ldc.1_Missense_Mutation_p.G748V|KIAA0146_uc011ldd.1_Missense_Mutation_p.G758V|KIAA0146_uc003xqe.2_Missense_Mutation_p.G293V|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc010lxt.2_Intron|KIAA0146_uc011ldf.1_Missense_Mutation_p.G323V|KIAA0146_uc011ldg.1_Missense_Mutation_p.G308V|KIAA0146_uc003xqg.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	818											0		Lung NSC(58;0.175)				TTTTCCTGTGGGGACTGCTCC	0.547													12	125					5.50884e-06	5.76141e-06	0.013537	1	0		T	48641512	T	T	48641512	3	4	157	1	0	0	0	0	1	0	0	0	8173	1232	43	5	2523	5	KIAA0146	8	48641512	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5592570	48641512	97722510	642	86202											
SNAI2	6591	broad.mit.edu	37	chr8	49832564	49832564	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaatatgcatcttcagggcGcccaggctcacatattcctt	9	11	8	13	2	3	0	2	0	1	0	4	1	4	0	2	2	1	2	2	2	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:49832564G>A	uc003xqp.2	-	2	680	c.516C>T	c.(514-516)GGC>GGT	p.G172G		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	172	C2H2-type 2.				canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TCTTCAGGGCGCCCAGGCTCA	0.483													33	118					0	0	0.009535	0	0		A	49832564	A	A	49832564	2	1	157	1	0	0	0	0	0	0	0	1	14852	1074	38	1		1	SNAI2	8	49832564	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1191052	49832564	96531458	643	86203											
RP1	6101	broad.mit.edu	37	chr8	55542602	55542602	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggattcaaatacacaagacCtcagcggtcagacaaatgaa	17	7	8	9	1	3	3	3	1	0	2	3	4	3	4	1	2	2	0	1	2	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:55542602C>G	uc003xsd.1	+	4	6308	c.6160C>G	c.(6160-6162)CTC>GTC	p.L2054V	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	2054					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TACACAAGACCTCAGCGGTCA	0.343													10	160					0	0	0.006214	0	0		G	55542602	G	G	55542602	3	3	157	1	0	0	0	0	1	0	0	0	13557	681	24	5	6170	5	RP1	8	55542602	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5710038	55542602	90821420	644	86204											
TGS1	96764	broad.mit.edu	37	chr8	56723563	56723563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctggcttcttttttaaAggctgatgttgtgttcctca	5	18	10	8	0	2	1	1	1	1	0	3	1	3	1	1	2	1	6	1	2	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:56723563A>G	uc003xsj.3	+	11	2654	c.2267A>G	c.(2266-2268)AAG>AGG	p.K756R	TGS1_uc010lyh.2_Intron	NM_024831	NP_079107	Q96RS0	TGS1_HUMAN	trimethylguanosine synthase homolog	756	Sufficient for catalytic activity.				cellular lipid metabolic process|ncRNA metabolic process|regulation of transcription, DNA-dependent|RNA capping|spliceosomal snRNP assembly|transcription, DNA-dependent	Cajal body|cytosol	RNA trimethylguanosine synthase activity			ovary(1)|lung(1)|breast(1)	3		all_lung(136;0.119)|all_epithelial(80;0.125)|Lung NSC(129;0.147)	Epithelial(17;0.00027)|all cancers(17;0.00251)			TCTTTTTTAAAGGCTGATGTT	0.448													56	267					0	0	0.01441	0	0		G	56723563	G	G	56723563	3	3	157	1	0	0	0	0	1	0	0	0	15862	72	3	3	2309	3	TGS1	8	56723563	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1180961	56723563	89640459	645	86205											
NSMAF	8439	broad.mit.edu	37	chr8	59512542	59512542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttacctctttaaaatccGttgcaccatccagacagttt	10	14	5	12	1	1	1	0	0	1	1	3	1	3	1	4	0	3	4	4	0	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:59512542G>A	uc003xtt.2	-	17	1533	c.1319C>T	c.(1318-1320)ACG>ATG	p.T440M	NSMAF_uc011lee.1_Missense_Mutation_p.T471M	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	440	BEACH.				ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				TTTAAAATCCGTTGCACCATC	0.318													35	162					0	0	0.00623	0	0		A	59512542	A	A	59512542	3	1	157	1	0	0	0	0	1	0	0	0	10693	1145	40	1	1494	1	NSMAF	8	59512542	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2788979	59512542	86851480	646	86206											
TOX	9760	broad.mit.edu	37	chr8	59872540	59872540	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtcctggctcggctctgtcaTgctcatatacatgttctcac	6	14	8	13	1	4	0	3	0	2	0	7	0	5	0	1	2	2	4	1	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:59872540T>G	uc003xtw.1	-	2	351	c.130A>C	c.(130-132)ATG>CTG	p.M44L		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	44						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				GGCTCTGTCATGCTCATATAC	0.358													12	54					0	0	0.010729	0	0		G	59872540	G	G	59872540	3	3	157	1	0	0	0	0	1	0	0	0	16403	1464	51	5	1482	5	TOX	8	59872540	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	359998	59872540	86491482	647	86207											
CHD7	55636	broad.mit.edu	37	chr8	61769375	61769375	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcctcccatgaagaggagGcggggaaggaggaaaaatgt	14	4	17	6	1	0	2	0	1	0	1	1	7	1	6	2	6	1	0	2	6	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:61769375G>A	uc003xue.2	+	34	8013	c.7536G>A	c.(7534-7536)AGG>AGA	p.R2512R		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2512					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TGAAGAGGAGGCGGGGAAGGA	0.542													17	200					0	0	0.004007	0	0		A	61769375	A	A	61769375	2	1	157	1	0	0	0	0	0	0	0	1	3333	1194	42	2		2	CHD7	8	61769375	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1896835	61769375	84594647	648	86208											
CYP7B1	9420	broad.mit.edu	37	chr8	65527711	65527711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccatagcttctgggtgcCgcagaagataatacattgcc	10	10	10	11	1	1	2	0	0	1	2	1	2	1	2	3	1	5	2	3	1	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:65527711C>T	uc003xvj.2	-	4	1133	c.929G>A	c.(928-930)CGG>CAG	p.R310Q		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	310					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TTCTGGGTGCCGCAGAAGATA	0.473													6	67					0	0	0.00308	0	0		T	65527711	T	T	65527711	3	4	157	1	0	0	0	0	1	0	0	0	4200	652	23	1	603	1	CYP7B1	8	65527711	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3758336	65527711	80836311	649	86209											
ADHFE1	137872	broad.mit.edu	37	chr8	67369066	67369066	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctagccatggaatgtcttAcccaatttcaggtttagtga	10	15	8	8	0	3	1	1	1	2	0	3	2	3	2	2	2	2	1	2	2	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:67369066A>G	uc003xwb.3	+	11	1035	c.1001A>G	c.(1000-1002)TAC>TGC	p.Y334C	ADHFE1_uc003xwd.3_RNA|ADHFE1_uc003xwc.3_Missense_Mutation_p.Y286C|ADHFE1_uc003xwe.3_RNA|ADHFE1_uc003xwf.3_RNA|ADHFE1_uc011les.1_Missense_Mutation_p.Y264C	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1	334					2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		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)			GGAATGTCTTACCCAATTTCA	0.313													13	96					0	0	0.00245	0	0		G	67369066	G	G	67369066	3	3	157	1	0	0	0	0	1	0	0	0	314	391	14	3	1043	3	ADHFE1	8	67369066	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1841355	67369066	78994956	650	86210											
C8orf44	56260	broad.mit.edu	37	chr8	67590095	67590095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatcccagcactttgggaggCcaaggcaggcagatcacctg	11	6	12	12	0	1	1	1	0	0	1	2	2	2	2	3	4	1	3	3	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:67590095C>T	uc003xwo.1	+	2	305	c.152C>T	c.(151-153)GCC>GTC	p.A51V	SGK3_uc003xwp.2_Intron|C8orf44_uc003xwq.1_Missense_Mutation_p.A51V	NM_019607	NP_062553	Q96CB5	CH044_HUMAN	hypothetical protein LOC56260	51											0	Breast(64;0.186)		Epithelial(68;0.000959)|OV - Ovarian serous cystadenocarcinoma(28;0.00318)|all cancers(69;0.00363)|BRCA - Breast invasive adenocarcinoma(89;0.149)			ctttgggaggccaaggcaggc	0.149													4	46					0	0	0.009096	0	0		T	67590095	T	T	67590095	3	4	157	1	0	0	0	0	1	0	0	0	2432	739	26	2	154	2	C8orf44	8	67590095	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	221029	67590095	78773927	651	86211											
ARFGEF1	10565	broad.mit.edu	37	chr8	68170430	68170430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatacgaagggctgaaacGaagtcttttcctgaaaagtc	15	9	9	8	2	1	2	0	2	1	0	3	4	2	2	1	1	3	1	1	1	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:68170430G>A	uc003xxo.1	-	16	2721	c.2331C>T	c.(2329-2331)TTC>TTT	p.F777F	ARFGEF1_uc003xxl.1_Silent_p.F231F	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	777	SEC7.				exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GGGCTGAAACGAAGTCTTTTC	0.383													26	119					0	0	0.008361	0	0		A	68170430	A	A	68170430	2	1	157	1	0	0	0	0	0	0	0	1	852	1049	37	1		1	ARFGEF1	8	68170430	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	580335	68170430	78193592	652	86212											
KCNB2	9312	broad.mit.edu	37	chr8	73849681	73849681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcagtctgacaatgccacCgacagtcctaagagctctct	10	10	8	13	1	2	2	0	1	2	1	4	3	3	2	3	0	3	2	3	0	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:73849681C>T	uc003xzb.2	+	3	2679	c.2091C>T	c.(2089-2091)ACC>ACT	p.T697T		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	697	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			ACAATGCCACCGACAGTCCTA	0.517													18	121					0	0	0.007413	0	0		T	73849681	T	T	73849681	2	4	157	1	0	0	0	0	0	0	0	1	8029	639	23	1		1	KCNB2	8	73849681	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5679251	73849681	72514341	653	86213											
TCEB1	6921	broad.mit.edu	37	chr8	74859040	74859040	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aattgacctcattggtttcgTtctcagcaaactgacctgta	10	14	7	10	1	2	2	2	2	1	0	4	2	2	2	2	1	2	4	2	1	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:74859040T>C	uc003xzx.1	-	4	249	c.164A>G	c.(163-165)AAC>AGC	p.N55S	TCEB1_uc003xzy.1_Missense_Mutation_p.N55S|TCEB1_uc003xzz.1_Missense_Mutation_p.N39S|TCEB1_uc003yaa.1_Missense_Mutation_p.N55S	NM_005648	NP_005639	Q15369	ELOC_HUMAN	elongin C	55					interspecies interaction between organisms|positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|ubiquitin-dependent protein catabolic process|viral reproduction	cytosol|nucleoplasm	protein binding				0	Breast(64;0.0311)		Epithelial(68;0.0136)|all cancers(69;0.0431)|BRCA - Breast invasive adenocarcinoma(89;0.0499)			ATTGGTTTCGTTCTCAGCAAA	0.264													25	108					0	0	0.00632	0	0		C	74859040	C	C	74859040	3	2	157	1	0	0	0	0	1	0	0	0	15704	1725	60	3	178	3	TCEB1	8	74859040	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1009359	74859040	71504982	654	86214											
HNF4G	3174	broad.mit.edu	37	chr8	76456166	76456166	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccagctgtgatgggtgcaAgggtttcttcagacgcagca	9	10	13	9	1	2	2	1	1	1	1	3	2	3	2	1	2	3	5	1	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:76456166A>C	uc003yaq.2	+	3	368	c.98A>C	c.(97-99)AAG>ACG	p.K33T	HNF4G_uc003yap.1_Missense_Mutation_p.K33T|HNF4G_uc003yar.2_Missense_Mutation_p.K70T	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	33	Nuclear receptor.				endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			GATGGGTGCAAGGGTTTCTTC	0.448													38	216					0	0	0.006999	0	0		C	76456166	C	C	76456166	3	2	157	1	0	0	0	0	1	0	0	0	7270	72	3	5	215	5	HNF4G	8	76456166	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1597126	76456166	69907856	655	86215											
ZFHX4	79776	broad.mit.edu	37	chr8	77766792	77766792	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatttgaccccaacaatccGctgatgactggacaactgct	12	10	7	12	1	0	3	0	3	0	0	1	4	1	4	3	1	3	2	3	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:77766792G>A	uc003yav.2	+	10	7887	c.7500G>A	c.(7498-7500)CCG>CCA	p.P2500P	ZFHX4_uc003yau.1_Silent_p.P2545P|ZFHX4_uc003yaw.1_Silent_p.P2500P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2500						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CCAACAATCCGCTGATGACTG	0.537										HNSCC(33;0.089)			34	145					0	0	0.012213	0	0		A	77766792	A	A	77766792	2	1	157	1	0	0	0	0	0	0	0	1	17660	1074	38	1		1	ZFHX4	8	77766792	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1310626	77766792	68597230	656	86216											
ZFHX4	79776	broad.mit.edu	37	chr8	77767737	77767737	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacctaccacggaggtctgCgatgacaaatttctcttttc	10	12	7	12	2	2	1	0	1	2	0	4	3	2	2	2	2	2	0	2	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:77767737C>T	uc003yav.2	+	10	8832	c.8445C>T	c.(8443-8445)TGC>TGT	p.C2815C	ZFHX4_uc003yau.1_Silent_p.C2860C|ZFHX4_uc003yaw.1_Silent_p.C2815C	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2815						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CGGAGGTCTGCGATGACAAAT	0.483										HNSCC(33;0.089)			11	64					0	0	0.008291	0	0		T	77767737	T	T	77767737	2	4	157	1	0	0	0	0	0	0	0	1	17660	776	27	1		1	ZFHX4	8	77767737	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	945	77767737	68596285	657	86217											
ZFHX4	79776	broad.mit.edu	37	chr8	77768336	77768336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cacggttcggcagctgatggCacagcaagaacttgatcgta	11	8	12	10	3	0	3	0	2	0	1	2	3	0	3	0	3	3	6	0	3	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:77768336C>T	uc003yav.2	+	10	9431	c.9044C>T	c.(9043-9045)GCA>GTA	p.A3015V	ZFHX4_uc003yau.1_Missense_Mutation_p.A3060V|ZFHX4_uc003yaw.1_Missense_Mutation_p.A3015V	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3015						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CAGCTGATGGCACAGCAAGAA	0.527										HNSCC(33;0.089)			18	122					0	0	0.012319	0	0		T	77768336	T	T	77768336	3	4	157	1	0	0	0	0	1	0	0	0	17660	710	25	2	9213	2	ZFHX4	8	77768336	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	599	77768336	68595686	658	86218											
STMN2	11075	broad.mit.edu	37	chr8	80567284	80567284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctagctgctattattgaacGtctgcaggaaaaggtaatct	12	13	9	7	1	3	1	0	1	3	0	3	2	3	2	0	2	4	4	0	2	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:80567284G>A	uc003ybj.2	+	4	518	c.467G>A	c.(466-468)CGT>CAT	p.R156H	STMN2_uc010lzp.2_RNA|STMN2_uc011lfn.1_Intron	NM_007029	NP_008960	Q93045	STMN2_HUMAN	superiorcervical ganglia, neural specific 10	156	Potential.				intracellular signal transduction|negative regulation of microtubule depolymerization|negative regulation of microtubule polymerization|negative regulation of neuron projection development|neuron differentiation|positive regulation of microtubule depolymerization|positive regulation of neuron projection development	axon|growth cone|membrane|membrane fraction|perinuclear region of cytoplasm|soluble fraction	protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(9;8.34e-05)		Epithelial(68;0.0229)|all cancers(69;0.0874)			ATTATTGAACGTCTGCAGGAA	0.443													11	68					0	0	0.013537	0	0		A	80567284	A	A	80567284	3	1	157	1	0	0	0	0	1	0	0	0	15334	1145	40	1	481	1	STMN2	8	80567284	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2798948	80567284	65796738	659	86219											
ZBTB10	65986	broad.mit.edu	37	chr8	81411872	81411872	+	Silent	SNP	A	G	G	1	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	gtcagcattgtggtaagcggAaaaatcttcaaagctcataa	15	10	9	7	1	4	0	3	0	1	0	4	1	4	1	0	2	3	3	0	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:81411872A>G	uc003ybx.3	+	2	1714	c.1116A>G	c.(1114-1116)GGA>GGG	p.G372G	ZBTB10_uc003ybv.3_Silent_p.G80G|ZBTB10_uc003ybw.3_Silent_p.G372G|ZBTB10_uc010lzt.2_Silent_p.G372G	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform	372	BTB.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			TGGTAAGCGGAAAAATCTTCA	0.373													16	132					0	0	0.003163	0	0		G	81411872	G	G	81411872	2	3	157	1	0	0	0	0	0	0	0	1	17548	233	9	3		3	ZBTB10	8	81411872	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	844588	81411872	64952150	660	86220											
PAG1	55824	broad.mit.edu	37	chr8	81888852	81888852	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgttctcctttgggacgagaCcgtggtggccattggtcccc	4	11	13	13	3	1	1	0	0	1	1	3	3	2	2	5	4	0	1	5	4	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:81888852C>G	uc003ybz.2	-	9	1937	c.1226G>C	c.(1225-1227)GGT>GCT	p.G409A		NM_018440	NP_060910	Q9NWQ8	PAG1_HUMAN	phosphoprotein associated with glycosphingolipid	409	Cytoplasmic (Potential).				epidermal growth factor receptor signaling pathway|intracellular signal transduction|T cell receptor signaling pathway	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding|SH3/SH2 adaptor activity				0	Lung NSC(7;5.76e-06)|all_lung(9;2e-05)		BRCA - Breast invasive adenocarcinoma(6;0.0567)|Epithelial(68;0.0634)|all cancers(69;0.197)			TGGGACGAGACCGTGGTGGCC	0.557													4	159					0	0	0.000602	0	0		G	81888852	G	G	81888852	3	3	157	1	0	0	0	0	1	0	0	0	11407	507	18	5	76	5	PAG1	8	81888852	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	476980	81888852	64475170	661	86221											
WWP1	11059	broad.mit.edu	37	chr8	87473498	87473498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagaatgcgactattgcagTtcgtcactggaacctgccgt	10	11	10	10	3	1	1	1	0	0	1	2	3	1	2	2	1	4	2	2	1	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:87473498T>C	uc003ydt.2	+	23	2825	c.2545T>C	c.(2545-2547)TTC>CTC	p.F849L		NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	849	HECT.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						ACTATTGCAGTTCGTCACTGG	0.343													22	173					0	0	0.012319	0	0		C	87473498	C	C	87473498	3	2	157	1	0	0	0	0	1	0	0	0	17441	1725	60	3	2627	3	WWP1	8	87473498	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5584646	87473498	58890524	662	86222											
MMP16	4325	broad.mit.edu	37	chr8	89198806	89198806	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgtctggtcaggtacaccGcatcggggcttcttcatcca	6	12	10	13	2	4	0	2	0	2	0	6	0	5	0	2	4	1	3	2	4	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:89198806G>A	uc003yeb.3	-	3	585	c.303C>T	c.(301-303)TGC>TGT	p.C101C	MMP16_uc003yec.2_Silent_p.C101C	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	101	Cysteine switch (By similarity).	Zinc; in inhibited form (By similarity).			collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						CAGGTACACCGCATCGGGGCT	0.373													79	267					0	0	0.01441	0	0		A	89198806	A	A	89198806	2	1	157	1	0	0	0	0	0	0	0	1	9673	1079	38	1		1	MMP16	8	89198806	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1725308	89198806	57165216	663	86223											
KLF10	7071	broad.mit.edu	37	chr8	103663847	103663847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagacctgcagatgaccGtctctgaggaaggcacagaa	12	6	13	10	1	1	5	0	3	1	3	2	7	1	6	2	2	1	3	2	2	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:103663847G>A	uc011lhk.1	-	3	867	c.713C>T	c.(712-714)ACG>ATG	p.T238M	KLF10_uc011lhj.1_Missense_Mutation_p.T227M	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	238					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	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)			GCAGATGACCGTCTCTGAGGA	0.522											OREG0018913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	31	87					0	0	0.010818	0	0		A	103663847	A	A	103663847	3	1	157	1	0	0	0	0	1	0	0	0	8354	1145	40	1	737	1	KLF10	8	103663847	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	14465041	103663847	42700175	664	86224											
ZFPM2	23414	broad.mit.edu	37	chr8	106813836	106813836	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttcccccaagatatcaccaTggtccctcaagcttcagaga	11	10	6	14	0	3	2	3	0	0	2	5	3	5	2	4	1	1	1	4	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:106813836T>C	uc003ymd.2	+	8	1549	c.1526T>C	c.(1525-1527)ATG>ACG	p.M509T	ZFPM2_uc011lhs.1_Missense_Mutation_p.M240T	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	509					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GATATCACCATGGTCCCTCAA	0.507													24	365					0	0	0.003954	0	0		C	106813836	C	C	106813836	3	2	157	1	0	0	0	0	1	0	0	0	17683	1464	51	3	1556	3	ZFPM2	8	106813836	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3149989	106813836	39550186	665	86225											
OXR1	55074	broad.mit.edu	37	chr8	107763096	107763096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagccattcttgtaaaaCgtttgggaatcgtacacttt	13	13	8	7	2	1	1	0	0	1	1	2	2	1	2	1	1	3	3	1	1	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:107763096C>T	uc011lht.1	+	16	2651	c.2552C>T	c.(2551-2553)ACG>ATG	p.T851M	OXR1_uc003ymf.2_Missense_Mutation_p.T823M|OXR1_uc011lhu.1_Missense_Mutation_p.T816M|OXR1_uc010mcg.2_RNA|OXR1_uc010mch.2_Missense_Mutation_p.T479M|OXR1_uc003ymk.2_Missense_Mutation_p.T220M|OXR1_uc003yml.2_Missense_Mutation_p.T193M	NM_018002	NP_060472	Q8N573	OXR1_HUMAN	oxidation resistance 1 isoform 1	851					cell wall macromolecule catabolic process|response to oxidative stress	mitochondrion					0			OV - Ovarian serous cystadenocarcinoma(57;1.81e-09)			TCTTGTAAAACGTTTGGGAAT	0.353													13	234					0	0	0.004007	0	0		T	107763096	T	T	107763096	3	4	157	1	0	0	0	0	1	0	0	0	11353	536	19	1	2729	1	OXR1	8	107763096	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	949260	107763096	38600926	666	86226											
PKHD1L1	93035	broad.mit.edu	37	chr8	110432768	110432768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcccaagagaagacttcCtgcattagcaaataaaggaa	18	7	8	8	0	0	2	0	0	0	2	1	4	1	3	2	1	3	2	2	1	8	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:110432768C>T	uc003yne.2	+	23	2650	c.2546C>T	c.(2545-2547)CCT>CTT	p.P849L		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	849	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGAAGACTTCCTGCATTAGCA	0.264										HNSCC(38;0.096)			7	66					0	0	0.00308	0	0		T	110432768	T	T	110432768	3	4	157	1	0	0	0	0	1	0	0	0	11991	681	24	4	2636	4	PKHD1L1	8	110432768	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2669672	110432768	35931254	667	86227											
CSMD3	114788	broad.mit.edu	37	chr8	113529433	113529433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcatggggacccctgggtcaCgacacgcagtggcaacagaa	11	5	13	12	2	2	1	2	0	0	1	2	3	2	2	2	4	1	2	2	4	2	0	rs138068999		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:113529433C>T	uc003ynu.2	-	28	4745	c.4586G>A	c.(4585-4587)CGT>CAT	p.R1529H	CSMD3_uc003yns.2_Missense_Mutation_p.R801H|CSMD3_uc003ynt.2_Missense_Mutation_p.R1489H|CSMD3_uc011lhx.1_Missense_Mutation_p.R1425H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1529	Extracellular (Potential).|Sushi 8.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCCTGGGTCACGACACGCAGT	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			16	96					0	0	0.004007	0	0		T	113529433	T	T	113529433	3	4	157	1	0	0	0	0	1	0	0	0	3949	536	19	1	6713	1	CSMD3	8	113529433	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3096665	113529433	32834589	668	86228											
TRPS1	7227	broad.mit.edu	37	chr8	116426706	116426706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggatttggtaggccaggcaCgtgactcaagtagtgcggat	10	9	15	7	2	1	1	1	1	0	0	1	3	1	3	1	5	1	3	1	5	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:116426706C>T	uc003ynz.2	-	6	3850	c.3391G>A	c.(3391-3393)GTG>ATG	p.V1131M	TRPS1_uc011lhy.1_Missense_Mutation_p.V1135M|TRPS1_uc003yny.2_Missense_Mutation_p.V1144M|TRPS1_uc010mcy.2_Missense_Mutation_p.V1131M	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1131	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AGGCCAGGCACGTGACTCAAG	0.468									Langer-Giedion_syndrome				9	58					0	0	0.004482	0	0		T	116426706	T	T	116426706	3	4	157	1	0	0	0	0	1	0	0	0	16619	536	19	1	458	1	TRPS1	8	116426706	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2897273	116426706	29937316	669	86229											
TRPS1	7227	broad.mit.edu	37	chr8	116430602	116430602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacgcgttgcatacatatcCgccatttgcattctttcgcc	8	13	6	14	4	1	0	0	0	1	0	3	0	2	0	3	0	3	3	3	0	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:116430602C>T	uc003ynz.2	-	5	3199	c.2740G>A	c.(2740-2742)GGA>AGA	p.G914R	TRPS1_uc011lhy.1_Missense_Mutation_p.G918R|TRPS1_uc003yny.2_Missense_Mutation_p.G927R|TRPS1_uc010mcy.2_Missense_Mutation_p.G914R	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	914	GATA-type.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CATACATATCCGCCATTTGCA	0.478									Langer-Giedion_syndrome				41	243					0	0	0.013114	0	0		T	116430602	T	T	116430602	3	4	157	1	0	0	0	0	1	0	0	0	16619	661	23	1	1113	1	TRPS1	8	116430602	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3896	116430602	29933420	670	86230											
C8orf85	441376	broad.mit.edu	37	chr8	117950492	117950492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctccgcgatgggccccGgggacttccgccgctgcaga	4	6	15	16	6	1	1	0	0	1	1	3	3	2	2	5	3	1	2	5	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:117950492G>A	uc003yof.2	+	1	29	c.10G>A	c.(10-12)GGG>AGG	p.G4R		NM_001025357	NP_001020528	Q4LEZ3	AARD_HUMAN	alanine and arginine-rich domain-containing	4											0						GATGGGCCCCGGGGACTTCCG	0.627													3	21					0	0	0.004672	0	0		A	117950492	A	A	117950492	3	1	157	1	0	0	0	0	1	0	0	0	2444	1116	39	1	12	1	C8orf85	8	117950492	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1519890	117950492	28413530	671	86231											
EXT1	2131	broad.mit.edu	37	chr8	119123086	119123086	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttttccaattgatcccaaGgaacgaaggggcgcagagcg	11	7	13	10	4	0	2	0	1	0	1	2	4	2	3	2	3	2	2	2	3	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:119123086G>T	uc003yok.1	-	1	973	c.200C>A	c.(199-201)CCT>CAT	p.P67H		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	67	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TTGATCCCAAGGAACGAAGGG	0.582			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				24	122					9.86323e-18	1.08534e-17	0.003954	1	0		T	119123086	T	T	119123086	3	4	157	1	0	0	0	0	1	0	0	0	5331	1000	35	5	2084	5	EXT1	8	119123086	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1172594	119123086	27240936	672	86232											
ZHX1	11244	broad.mit.edu	37	chr8	124267604	124267604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttatgatgaactgcaatccGtttattttccactttatttt	9	20	5	7	1	0	2	0	2	0	0	2	2	2	2	2	0	2	3	2	0	5	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:124267604G>A	uc003yqe.2	-	3	1013	c.583C>T	c.(583-585)CGG>TGG	p.R195W	C8orf76_uc003yqd.2_Intron|ZHX1_uc003yqf.2_Missense_Mutation_p.R195W|ZHX1_uc003yqg.2_Intron|ZHX1_uc010mdi.2_Missense_Mutation_p.R195W	NM_007222	NP_009153	Q9UKY1	ZHX1_HUMAN	zinc fingers and homeoboxes 1	195					negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			ACTGCAATCCGTTTATTTTCC	0.358													48	284					0	0	0.01441	0	0		A	124267604	A	A	124267604	3	1	157	1	0	0	0	0	1	0	0	0	17700	1144	40	1	2042	1	ZHX1	8	124267604	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5144518	124267604	22096418	673	86233											
KLHL38	340359	broad.mit.edu	37	chr8	124663913	124663913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggggtggagcacccccacGggcatgctggccatactctc	6	6	14	15	2	1	0	0	0	1	0	2	1	1	1	3	5	3	3	3	5	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:124663913G>A	uc003yqs.1	-	1	1278	c.1254C>T	c.(1252-1254)CCC>CCT	p.P418P		NM_001081675	NP_001075144	Q2WGJ6	KLH38_HUMAN	kelch-like 38	418	Kelch 3.										0						GCACCCCCACGGGCATGCTGG	0.557													10	119					0	0	0.008291	0	0		A	124663913	A	A	124663913	2	1	157	1	0	0	0	0	0	0	0	1	8406	1103	39	1		1	KLHL38	8	124663913	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	396309	124663913	21700109	674	86234											
ZFAT	57623	broad.mit.edu	37	chr8	135596140	135596140	+	Missense_Mutation	SNP	A	G	G	1	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	atttgaatttcttgccacacAtgtcacataggtgggttttc	9	16	8	8	0	2	1	1	1	1	0	3	1	2	1	1	2	1	1	1	2	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:135596140A>G	uc003yup.2	-	10	2997	c.2822T>C	c.(2821-2823)ATG>ACG	p.M941T	ZFAT_uc003yun.2_Missense_Mutation_p.M929T|ZFAT_uc003yuo.2_Missense_Mutation_p.M929T|ZFAT_uc010meh.2_Missense_Mutation_p.M929T|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.M929T|ZFAT_uc010mej.2_Missense_Mutation_p.M879T	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	941	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CTTGCCACACATGTCACATAG	0.443													5	48					0	0	0.000602	0	0		G	135596140	G	G	135596140	3	3	157	1	0	0	0	0	1	0	0	0	17657	217	8	3	937	3	ZFAT	8	135596140	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	10932227	135596140	10767882	675	86235											
ZFAT	57623	broad.mit.edu	37	chr8	135612794	135612794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtgtttctgaattacgtggCgtttaaggcagtttttggtg	6	18	13	4	2	1	1	0	1	1	0	1	1	1	1	0	3	1	4	0	3	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:135612794C>T	uc003yup.2	-	7	2535	c.2360G>A	c.(2359-2361)CGC>CAC	p.R787H	ZFAT_uc003yun.2_Missense_Mutation_p.R775H|ZFAT_uc003yuo.2_Missense_Mutation_p.R775H|ZFAT_uc010meh.2_Missense_Mutation_p.R775H|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.R775H|ZFAT_uc010mej.2_Missense_Mutation_p.R725H|ZFAT_uc003yur.2_Missense_Mutation_p.R775H|ZFATAS_uc003yus.1_RNA	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	787	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			AATTACGTGGCGTTTAAGGCA	0.428													37	249					0	0	0.003271	0	0		T	135612794	T	T	135612794	3	4	157	1	0	0	0	0	1	0	0	0	17657	768	27	1	1411	1	ZFAT	8	135612794	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	16654	135612794	10751228	676	86236											
FAM135B	51059	broad.mit.edu	37	chr8	139164785	139164785	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctccctcagggtagaacTtagtggatcacagggctcag	9	8	14	10	0	3	1	3	0	0	1	4	2	4	2	1	4	1	3	1	4	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:139164785T>G	uc003yuy.2	-	13	2104	c.1933A>C	c.(1933-1935)AGT>CGT	p.S645R	FAM135B_uc003yux.2_Missense_Mutation_p.S546R|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.S207R|FAM135B_uc003yvb.2_Missense_Mutation_p.S207R	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	645										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			AGGGTAGAACTTAGTGGATCA	0.488										HNSCC(54;0.14)			12	193					0	0	0.010729	0	0		G	139164785	G	G	139164785	3	3	157	1	0	0	0	0	1	0	0	0	5460	1609	56	5	2319	5	FAM135B	8	139164785	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3551991	139164785	7199237	677	86237											
COL22A1	169044	broad.mit.edu	37	chr8	139833475	139833475	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggtagtgtctgcaccagCgcacagtcaatgtgcaggga	10	8	14	9	1	2	0	1	0	1	0	2	1	2	1	1	2	3	4	1	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:139833475C>T	uc003yvd.2	-	7	1596	c.1149G>A	c.(1147-1149)GCG>GCA	p.A383A		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	383	TSP N-terminal.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			TCTGCACCAGCGCACAGTCAA	0.567										HNSCC(7;0.00092)			11	102					0	0	0.010729	0	0		T	139833475	T	T	139833475	2	4	157	1	0	0	0	0	0	0	0	1	3684	755	27	1		1	COL22A1	8	139833475	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	668690	139833475	6530547	678	86238											
SLC45A4	57210	broad.mit.edu	37	chr8	142221699	142221699	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accacattgtggaaaagaaaAttttttttctaaaataatca	18	14	4	5	0	2	1	1	0	1	1	2	2	2	2	1	1	0	0	1	1	7	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:142221699A>T	uc003ywd.1	-	8	2547	c.2239T>A	c.(2239-2241)TTT>ATT	p.F747I	SLC45A4_uc003ywc.1_3'UTR|SLC45A4_uc010meq.1_Missense_Mutation_p.I747N	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	Error:Variant_position_missing_in_Q5BKX6_after_alignment					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGAAAAGAAAATTTTTTTTCT	0.448													8	151					0	0	0.004482	0	0		T	142221699	T	T	142221699	3	4	157	1	0	0	0	0	1	0	0	0	14668	101	4	5	161	5	SLC45A4	8	142221699	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2388224	142221699	4142323	679	86239											
TSNARE1	203062	broad.mit.edu	37	chr8	143399948	143399948	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggccatctgcttcacggagCtggcgctggctgcaatggtc	5	9	14	13	3	2	0	1	0	1	0	3	1	2	1	1	5	3	5	1	5	1	1	rs149572193		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:143399948C>G	uc003ywk.2	-	7	1059	c.941G>C	c.(940-942)AGC>ACC	p.S314T	TSNARE1_uc011lju.1_Missense_Mutation_p.S314T|TSNARE1_uc003ywj.2_Missense_Mutation_p.S314T|TSNARE1_uc003ywl.3_Missense_Mutation_p.S95T	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1	314					vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CTTCACGGAGCTGGCGCTGGC	0.657													8	160					0	0	0.006214	0	0		G	143399948	G	G	143399948	3	3	157	1	0	0	0	0	1	0	0	0	16656	797	28	5	628	5	TSNARE1	8	143399948	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1178249	143399948	2964074	680	86240											
JRK	8629	broad.mit.edu	37	chr8	143747230	143747230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgctccagcttgggcGtgtgcagcgtgcgccgctgc	3	8	16	14	4	0	0	0	0	0	0	1	0	1	0	3	2	6	4	3	2	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:143747230G>A	uc003ywo.2	-	2	762	c.248C>T	c.(247-249)ACG>ATG	p.T83M	JRK_uc003ywp.2_Missense_Mutation_p.T83M|JRK_uc010mew.1_Missense_Mutation_p.T83M	NM_001077527	NP_001070995			jerky isoform b												0	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)				cagcttgggcgtgtgcagcgt	0													4	16					0	0	0.009096	0	0		A	143747230	A	A	143747230	3	1	157	1	0	0	0	0	1	0	0	0	7980	1145	40	1	1558	1	JRK	8	143747230	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	347282	143747230	2616792	681	86241											
CYP11B1	1584	broad.mit.edu	37	chr8	143957721	143957721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcatctggcgacagttccGcattcaacaggagctccgcc	8	8	11	14	3	2	0	1	0	1	0	4	2	4	1	3	3	2	4	3	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:143957721G>A	uc003yxi.2	-	5	897	c.890C>T	c.(889-891)GCG>GTG	p.A297V	CYP11B1_uc010mex.2_5'Flank|CYP11B1_uc003yxh.2_5'UTR|CYP11B1_uc003yxj.2_Missense_Mutation_p.A297V|CYP11B1_uc010mey.2_Missense_Mutation_p.A368V	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	297					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	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)				Mitotane(DB00648)	CGACAGTTCCGCATTCAACAG	0.587									Familial_Hyperaldosteronism_type_I				12	48					0	0	0.013537	0	0		A	143957721	A	A	143957721	3	1	157	1	0	0	0	0	1	0	0	0	4148	1087	38	1	641	1	CYP11B1	8	143957721	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	210491	143957721	2406301	682	86242											
TOP1MT	116447	broad.mit.edu	37	chr8	144406745	144406745	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccacgtgacggtgttatcGgagcgcacctccttccactg	7	9	11	14	4	0	1	0	1	0	0	3	2	2	2	4	2	2	2	4	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:144406745G>A	uc003yxz.2	-	6	745	c.726C>T	c.(724-726)TCC>TCT	p.S242S	TOP1MT_uc011lkd.1_Silent_p.S144S|TOP1MT_uc011lke.1_Silent_p.S144S|TOP1MT_uc010mfb.2_Silent_p.S144S|TOP1MT_uc011lkf.1_Silent_p.S37S|TOP1MT_uc010mfd.1_Silent_p.S37S	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	242					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	CGGTGTTATCGGAGCGCACCT	0.577													25	131					0	0	0.009535	0	0		A	144406745	A	A	144406745	2	1	157	1	0	0	0	0	0	0	0	1	16390	1103	39	1		1	TOP1MT	8	144406745	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	449024	144406745	1957277	683	86243											
FAM83H	286077	broad.mit.edu	37	chr8	144810854	144810854	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctctccttggaacacgtgCgccaggctgcggtggatctt	6	10	13	12	3	2	0	0	0	2	0	3	2	2	2	2	4	4	2	2	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:144810854C>T	uc003yzk.2	-	5	846	c.777G>A	c.(775-777)GCG>GCA	p.A259A	FAM83H_uc010mfk.1_5'Flank	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	259					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		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)			GGAACACGTGCGCCAGGCTGC	0.667													8	32					0	0	0.006214	0	0		T	144810854	T	T	144810854	2	4	157	1	0	0	0	0	0	0	0	1	5654	755	27	1		1	FAM83H	8	144810854	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	404109	144810854	1553168	684	86244											
PLEC	5339	broad.mit.edu	37	chr8	144993399	144993399	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgtctcggggtcctccacGcaccgctccagcagctgcct	4	7	10	20	4	1	0	0	0	1	0	5	0	4	0	6	2	3	4	6	2	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:144993399G>A	uc003zaf.1	-	32	11171	c.11001C>T	c.(10999-11001)TGC>TGT	p.C3667C	PLEC_uc003zab.1_Silent_p.C3530C|PLEC_uc003zac.1_Silent_p.C3534C|PLEC_uc003zad.2_Silent_p.C3530C|PLEC_uc003zae.1_Silent_p.C3498C|PLEC_uc003zag.1_Silent_p.C3508C|PLEC_uc003zah.2_Silent_p.C3516C|PLEC_uc003zaj.2_Silent_p.C3557C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3667	Globular 2.|Plectin 16.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGTCCTCCACGCACCGCTCCA	0.627													11	98					0	0	0.001855	0	0		A	144993399	A	A	144993399	2	1	157	1	0	0	0	0	0	0	0	1	12071	1079	38	1		1	PLEC	8	144993399	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	182545	144993399	1370623	685	86245											
GRINA	2907	broad.mit.edu	37	chr8	145066190	145066190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttcatctctctcatcGtcctcagctgttgtggggac	4	16	8	13	1	6	0	3	0	4	0	10	1	7	1	1	2	1	2	1	2	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:145066190G>A	uc003zan.1	+	4	803	c.637G>A	c.(637-639)GTC>ATC	p.V213I	GRINA_uc003zao.1_Missense_Mutation_p.V213I|GRINA_uc003zap.1_Missense_Mutation_p.V213I	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	213	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	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)			CTCTCTCATCGTCCTCAGCTG	0.552													43	178					0	0	0.00874	0	0		A	145066190	A	A	145066190	3	1	157	1	0	0	0	0	1	0	0	0	6801	1145	40	1	647	1	GRINA	8	145066190	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	72791	145066190	1297832	686	86246											
GPR172A	79581	broad.mit.edu	37	chr8	145583773	145583773	+	Silent	SNP	A	G	G	1	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	actgcccttctggtcgcttcAgctgctgccttccagggtct	3	13	10	15	1	3	0	1	0	2	0	5	0	4	0	3	2	4	3	3	2	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:145583773A>G	uc003zcc.1	+	3	778	c.621A>G	c.(619-621)TCA>TCG	p.S207S	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Silent_p.S207S|GPR172A_uc003zce.1_Silent_p.S207S|GPR172A_uc010mfy.1_Silent_p.S207S|GPR172A_uc003zcf.1_Silent_p.S207S|GPR172A_uc011llc.1_Silent_p.S119S	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	207	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;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)			TGGTCGCTTCAGCTGCTGCCT	0.642													7	117					0	0	0.004482	0	0		G	145583773	G	G	145583773	2	3	157	1	0	0	0	0	0	0	0	1	6684	175	7	3		3	GPR172A	8	145583773	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	517583	145583773	780249	687	86247											
NFKBIL2	4796	broad.mit.edu	37	chr8	145666225	145666225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatggcccgctcagcacccGgtctgtccagcagctcagca	7	7	11	16	2	3	1	2	1	1	0	4	1	4	1	3	2	4	5	3	2	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:145666225G>A	uc011llg.1	-	9	1055	c.1040C>T	c.(1039-1041)CCG>CTG	p.P347L		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	347					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CTCAGCACCCGGTCTGTCCAG	0.657													5	68					0	0	0.00308	0	0		A	145666225	A	A	145666225	3	1	157	1	0	0	0	0	1	0	0	0	10401	1116	39	1	3168	1	NFKBIL2	8	145666225	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	82452	145666225	697797	688	86248											
ARHGAP39	80728	broad.mit.edu	37	chr8	145770865	145770865	+	Silent	SNP	T	C	C	0	1	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	acctccagggccacgtgcagTgggtcggccttggcccgccg	4	6	15	16	4	0	0	0	0	0	0	2	0	1	0	6	4	1	1	6	4	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:145770865T>C	uc003zdt.1	-	7	2844	c.2289A>G	c.(2287-2289)CCA>CCG	p.P763P	ARHGAP39_uc011llk.1_Silent_p.P763P|ARHGAP39_uc003zds.1_Silent_p.P763P	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	763	MyTH4.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						CCACGTGCAGTGGGTCGGCCT	0.647													8	43					0	0	0.006214	0	0		C	145770865	C	C	145770865	2	2	157	1	0	0	0	0	0	0	0	1	884	1683	59	3		3	ARHGAP39	8	145770865	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	104640	145770865	593157	689	86249											
ARHGAP39	80728	broad.mit.edu	37	chr8	145773530	145773530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtactccactgggggctcctCgtagagcgggggttcatagc	6	9	15	11	2	1	1	1	0	0	1	4	1	3	1	2	4	3	4	2	4	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:145773530C>T	uc003zdt.1	-	6	1495	c.940G>A	c.(940-942)GAG>AAG	p.E314K	ARHGAP39_uc011llk.1_Missense_Mutation_p.E314K|ARHGAP39_uc003zds.1_Missense_Mutation_p.E314K	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	314	Pro-rich.				axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GGGGGCTCCTCGTAGAGCGGG	0.706													11	57					0	0	0.001855	0	0		T	145773530	T	T	145773530	3	4	157	1	0	0	0	0	1	0	0	0	884	893	31	1	2436	1	ARHGAP39	8	145773530	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2665	145773530	590492	690	86250											
ZNF34	80778	broad.mit.edu	37	chr8	145999295	145999295	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgataaatcagggaagagtAggcgctaaagtgcttcccac	13	8	12	8	1	1	2	1	1	0	1	2	3	2	3	1	2	1	3	1	2	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:145999295A>G	uc003zdy.3	-	6	1141	c.1039T>C	c.(1039-1041)TAC>CAC	p.Y347H	ZNF34_uc010mgb.2_Missense_Mutation_p.Y244H|ZNF34_uc003zdx.3_Missense_Mutation_p.Y326H	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	347	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		AGGGAAGAGTAGGCGCTAAAG	0.507													12	88					0	0	0.001855	0	0		G	145999295	G	G	145999295	3	3	157	1	0	0	0	0	1	0	0	0	17881	420	15	3	647	3	ZNF34	8	145999295	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	225765	145999295	364727	691	86251											
ZNF16	7564	broad.mit.edu	37	chr8	146156790	146156790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttccacatacattacacacGtgaggcttttctccagtgtg	9	14	7	11	1	1	1	0	1	1	0	3	1	2	1	2	1	2	1	2	1	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:146156790G>A	uc003zet.2	-	4	1570	c.1383C>T	c.(1381-1383)CAC>CAT	p.H461H	ZNF16_uc003zeu.2_Silent_p.H461H	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	461	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		CATTACACACGTGAGGCTTTT	0.483													17	197					0	0	0.004007	0	0		A	146156790	A	A	146156790	2	1	157	1	0	0	0	0	0	0	0	1	17763	1136	40	1		1	ZNF16	8	146156790	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	157495	146156790	207232	692	86252											
ZNF16	7564	broad.mit.edu	37	chr8	146157713	146157713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actgtcaaaaccattacagtCcagatctttctcccctaagg	12	11	5	13	0	3	1	1	0	2	1	5	1	4	1	4	1	2	0	4	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr8:146157713C>T	uc003zet.2	-	4	647	c.460G>A	c.(460-462)GAC>AAC	p.D154N	ZNF16_uc003zeu.2_Missense_Mutation_p.D154N	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		CCATTACAGTCCAGATCTTTC	0.572													68	275					0	0	0.01441	0	0		T	146157713	T	T	146157713	3	4	157	1	0	0	0	0	1	0	0	0	17763	855	30	4	1592	4	ZNF16	8	146157713	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	923	146157713	206309	693	86253											
DOCK8	81704	broad.mit.edu	37	chr9	311983	311983	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccacttaaacgtgctgtgCgacgtgtctgggaaaggccc	8	8	13	12	4	1	0	0	0	1	0	1	2	1	1	2	2	3	1	2	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:311983C>T	uc003zgf.2	+	6	670	c.558C>T	c.(556-558)TGC>TGT	p.C186C	DOCK8_uc011lls.1_Silent_p.C186C|DOCK8_uc010mgu.2_5'UTR|DOCK8_uc010mgv.2_Silent_p.C118C|DOCK8_uc010mgt.2_Silent_p.C118C|DOCK8_uc003zgg.2_Silent_p.C118C|DOCK8_uc003zgh.2_RNA	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	186					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		ACGTGCTGTGCGACGTGTCTG	0.557													22	114					0	0	0.010771	0	0		T	311983	T	T	311983	2	4	157	1	0	0	0	0	0	0	0	1	4699	776	27	1		1	DOCK8	9	311983	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08		311983	140901448	694	86254											
SMARCA2	6595	broad.mit.edu	37	chr9	2076291	2076291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atactcctggatccaaatagCgaagaagtttctgagaagga	15	9	10	7	1	1	2	0	1	1	2	3	6	3	4	2	2	2	1	2	2	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:2076291C>T	uc003zhc.2	+	13	2097	c.1998C>T	c.(1996-1998)AGC>AGT	p.S666S	SMARCA2_uc003zhd.2_Silent_p.S666S|SMARCA2_uc010mha.2_Silent_p.S657S	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	666					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		ATCCAAATAGCGAAGAAGTTT	0.388													7	189					0	0	0.004482	0	0		T	2076291	T	T	2076291	2	4	157	1	0	0	0	0	0	0	0	1	14794	767	27	1		1	SMARCA2	9	2076291	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1764308	2076291	139137140	695	86255											
GLIS3	169792	broad.mit.edu	37	chr9	4118541	4118541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtattgaaatctatccCgatgccatcggacagcgggg	10	9	13	9	3	1	1	0	1	1	0	3	4	2	2	2	4	2	1	2	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:4118541C>T	uc003zhw.1	-	3	666	c.472G>A	c.(472-474)GGG>AGG	p.G158R	GLIS3_uc003zhx.1_Missense_Mutation_p.G313R|GLIS3_uc003zic.1_Missense_Mutation_p.G313R|GLIS3_uc003zie.1_Missense_Mutation_p.G313R|GLIS3_uc010mhh.1_Missense_Mutation_p.G188R|GLIS3_uc003zid.1_Missense_Mutation_p.G91R|GLIS3_uc010mhi.1_Missense_Mutation_p.G120R|GLIS3_uc003zif.1_Missense_Mutation_p.G91R|GLIS3_uc003zig.1_Missense_Mutation_p.G157R|GLIS3_uc003zih.1_Missense_Mutation_p.G91R|GLIS3_uc003zhy.1_Missense_Mutation_p.G91R|GLIS3_uc003zhz.1_Missense_Mutation_p.G91R|GLIS3_uc003zib.1_Missense_Mutation_p.G157R|GLIS3_uc010mhg.1_Missense_Mutation_p.G91R	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	158					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		AAATCTATCCCGATGCCATCG	0.627													27	108					0	0	0.007291	0	0		T	4118541	T	T	4118541	3	4	157	1	0	0	0	0	1	0	0	0	6462	652	23	1	1887	1	GLIS3	9	4118541	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2042250	4118541	137094890	696	86256											
JAK2	3717	broad.mit.edu	37	chr9	5065030	5065030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatacaaagcaactgtcatGgcccaatttcgtgagtaata	15	11	7	8	1	1	1	1	1	0	0	2	1	1	1	1	1	3	2	1	1	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:5065030G>A	uc010mhm.2	+	8	1317	c.1204G>A	c.(1204-1206)GGC>AGC	p.G402S	JAK2_uc003ziw.2_Missense_Mutation_p.G402S	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	402	SH2; atypical.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		CAACTGTCATGGCCCAATTTC	0.328		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				21	81					0	0	0.00278	0	0		A	5065030	A	A	5065030	3	1	157	1	0	0	0	0	1	0	0	0	7954	1348	47	4	1230	4	JAK2	9	5065030	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	946489	5065030	136148401	697	86257											
RLN1	6013	broad.mit.edu	37	chr9	5335449	5335449	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaagctaagattggaatcCtttaatgcaggtacatactg	14	12	8	7	0	1	1	1	0	0	1	2	2	2	2	1	2	4	3	1	2	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:5335449C>T	uc003zjb.1	-	2	487	c.360G>A	c.(358-360)AAG>AAA	p.K120K		NM_006911	NP_008842	P04808	REL1_HUMAN	relaxin 1 preproprotein	120					female pregnancy|signal transduction	extracellular region	hormone activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.02)|Lung(218;0.0984)		GATTGGAATCCTTTAATGCAG	0.418													73	116					0	0	0.01441	0	0		T	5335449	T	T	5335449	2	4	157	1	0	0	0	0	0	0	0	1	13416	680	24	4		4	RLN1	9	5335449	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	270419	5335449	135877982	698	86258											
C9orf123	90871	broad.mit.edu	37	chr9	7798583	7798583	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggtggtactttcaaacaacgCggtaggccttccctttgggg	7	11	13	10	2	1	0	1	0	0	0	2	0	2	0	2	6	3	2	2	6	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:7798583C>T	uc003zki.2	-	2	287	c.243G>A	c.(241-243)CCG>CCA	p.P81P	C9orf123_uc003zkj.2_Missense_Mutation_p.R110H			Q96GE9	CI123_HUMAN	Homo sapiens cDNA FLJ46908 fis, clone FEBRA2004867.	78						integral to membrane					0		all_cancers(3;0.0539)|Lung NSC(3;3.36e-05)|all_lung(3;0.000156)|all_epithelial(3;0.0356)		GBM - Glioblastoma multiforme(50;0.0561)		TCAAACAACGCGGTAGGCCTT	0.413													19	90					0	0	0.012319	0	0		T	7798583	T	T	7798583	2	4	157	1	0	0	0	0	0	0	0	1	2456	768	27	1		1	C9orf123	9	7798583	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2463134	7798583	133414848	699	86259											
PTPRD	5789	broad.mit.edu	37	chr9	8465548	8465548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgtttgtaaatccaccaTaatgcttgtcatcccccagg	9	13	7	12	0	1	0	1	0	0	0	3	0	3	0	4	1	1	4	4	1	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:8465548T>C	uc003zkk.2	-	31	4343	c.3632A>G	c.(3631-3633)TAT>TGT	p.Y1211C	PTPRD_uc003zkp.2_Missense_Mutation_p.Y800C|PTPRD_uc003zkq.2_Missense_Mutation_p.Y800C|PTPRD_uc003zkr.2_Missense_Mutation_p.Y795C|PTPRD_uc003zks.2_Missense_Mutation_p.Y790C|PTPRD_uc003zkl.2_Missense_Mutation_p.Y1202C|PTPRD_uc003zkm.2_Missense_Mutation_p.Y1198C|PTPRD_uc003zkn.2_Missense_Mutation_p.Y800C|PTPRD_uc003zko.2_Missense_Mutation_p.Y797C	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1211	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		AAATCCACCATAATGCTTGTC	0.413										TSP Lung(15;0.13)			57	205					0	0	0.01441	0	0		C	8465548	C	C	8465548	3	2	157	1	0	0	0	0	1	0	0	0	12824	1406	49	3	2231	3	PTPRD	9	8465548	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	666965	8465548	132747883	700	86260											
C9orf93	203238	broad.mit.edu	37	chr9	15678851	15678851	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttcaaagagactccagtAtaatgaaaaaagttgcagtg	16	10	8	7	0	1	2	1	1	0	1	2	3	2	2	2	0	1	3	2	0	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:15678851A>G	uc003zmd.2	+	10	1487	c.1172A>G	c.(1171-1173)TAT>TGT	p.Y391C	C9orf93_uc010mih.1_Missense_Mutation_p.Y391C|C9orf93_uc003zme.2_Missense_Mutation_p.Y298C|C9orf93_uc011lmu.1_Missense_Mutation_p.Y391C	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	391	Potential.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		AGACTCCAGTATAATGAAAAA	0.303													15	64					0	0	0.00245	0	0		G	15678851	G	G	15678851	3	3	157	1	0	0	0	0	1	0	0	0	2509	449	16	3	1206	3	C9orf93	9	15678851	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	7213303	15678851	125534580	701	86261											
BNC2	54796	broad.mit.edu	37	chr9	16582983	16582983	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcccagattttcctcaccaTgtgccacccagccatgttta	9	11	6	15	0	1	1	1	0	0	1	2	1	2	1	6	0	3	1	6	0	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:16582983T>C	uc003zml.2	-	4	571	c.431A>G	c.(430-432)CAT>CGT	p.H144R	BNC2_uc011lmw.1_Missense_Mutation_p.H49R|BNC2_uc003zmm.2_Missense_Mutation_p.H102R|BNC2_uc003zmq.1_Missense_Mutation_p.H158R|BNC2_uc003zmr.1_Missense_Mutation_p.H181R|BNC2_uc003zmp.1_Missense_Mutation_p.H172R|BNC2_uc010mij.1_Missense_Mutation_p.H66R|BNC2_uc003zmu.1_RNA|BNC2_uc010mim.1_RNA|BNC2_uc010min.1_RNA|BNC2_uc003zmo.1_Missense_Mutation_p.H66R|BNC2_uc003zms.1_RNA|BNC2_uc010mik.1_RNA|BNC2_uc010mil.1_RNA|BNC2_uc003zmt.1_RNA	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	144					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		TTCCTCACCATGTGCCACCCA	0.348													48	192					0	0	0.01441	0	0		C	16582983	C	C	16582983	3	2	157	1	0	0	0	0	1	0	0	0	1476	1464	51	3	2884	3	BNC2	9	16582983	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	904132	16582983	124630448	702	86262											
DENND4C	55667	broad.mit.edu	37	chr9	19346646	19346646	+	Missense_Mutation	SNP	T	G	G	0	1	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	agctatatgaacctaaaaagTcccctaggtagtaaatcttc	15	11	6	9	0	1	1	0	1	1	0	3	1	2	1	3	1	2	3	3	1	10	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:19346646T>G	uc003znq.2	+	18	3057	c.3024T>G	c.(3022-3024)AGT>AGG	p.S1008R	DENND4C_uc011lnc.1_Missense_Mutation_p.S338R|DENND4C_uc011lnd.1_Missense_Mutation_p.S296R|DENND4C_uc003znr.2_Missense_Mutation_p.S296R|DENND4C_uc003zns.2_Missense_Mutation_p.S190R|DENND4C_uc003znt.2_Missense_Mutation_p.S190R	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1008						integral to membrane				ovary(1)|skin(1)	2						ACCTAAAAAGTCCCCTAGGTA	0.383													41	125					0	0	0.006999	0	0		G	19346646	G	G	19346646	3	3	157	1	0	0	0	0	1	0	0	0	4441	1664	58	5	3094	5	DENND4C	9	19346646	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2763663	19346646	121866785	703	86263											
KIAA1797	54914	broad.mit.edu	37	chr9	20988400	20988400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatgttgcttaccagtcaaCatcctttcacaatacggctc	12	12	5	12	1	2	0	2	0	0	0	4	0	3	0	2	1	4	3	2	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:20988400C>T	uc003zog.1	+	43	5339	c.4976C>T	c.(4975-4977)ACA>ATA	p.T1659I	KIAA1797_uc003zoh.1_Missense_Mutation_p.T1095I	NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	1659						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		TACCAGTCAACATCCTTTCAC	0.323													33	95					0	0	0.013726	0	0		T	20988400	T	T	20988400	3	4	157	1	0	0	0	0	1	0	0	0	8274	478	17	4	5134	4	KIAA1797	9	20988400	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1641754	20988400	120225031	704	86264											
TMEM215	401498	broad.mit.edu	37	chr9	32784413	32784413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacgagctgctgtgggtcCgcaaattgccctgcttccgg	7	9	13	12	3	0	1	0	0	0	1	2	2	2	1	3	2	5	4	3	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:32784413C>T	uc003zri.3	+	2	597	c.232C>T	c.(232-234)CGC>TGC	p.R78C		NM_212558	NP_997723	Q68D42	TM215_HUMAN	transmembrane protein 215	78						integral to membrane					0						GCTGTGGGTCCGCAAATTGCC	0.597													22	92					0	0	0.014323	0	0		T	32784413	T	T	32784413	3	4	157	1	0	0	0	0	1	0	0	0	16163	652	23	1	234	1	TMEM215	9	32784413	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	11796013	32784413	108429018	705	86265											
KIF24	347240	broad.mit.edu	37	chr9	34269331	34269331	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccttgcatctgctgctcttTcactgccagccaagtcaata	8	12	6	15	0	4	0	2	0	2	0	4	0	4	0	3	0	5	3	3	0	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:34269331T>C	uc003zua.3	-	8	1487	c.1367A>G	c.(1366-1368)GAA>GGA	p.E456G	KIF24_uc010mkb.2_Missense_Mutation_p.E487G	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	456	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			TGCTGCTCTTTCACTGCCAGC	0.353													24	114					0	0	0.00623	0	0		C	34269331	C	C	34269331	3	2	157	1	0	0	0	0	1	0	0	0	8308	1783	62	3	2763	3	KIF24	9	34269331	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1484918	34269331	106944100	706	86266											
KIAA1161	57462	broad.mit.edu	37	chr9	34371111	34371111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtgccacaagcgaggcccGcagggcggcgaacttctgcg	7	4	16	14	6	1	0	0	0	1	0	1	2	1	0	2	4	4	1	2	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:34371111G>A	uc003zue.3	-	3	1998	c.1831C>T	c.(1831-1833)CGG>TGG	p.R611W		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	611	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		AGCGAGGCCCGCAGGGCGGCG	0.677													4	12					0	0	0.000602	0	0		A	34371111	A	A	34371111	3	1	157	1	0	0	0	0	1	0	0	0	8227	1086	38	1	317	1	KIAA1161	9	34371111	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	101780	34371111	106842320	707	86267											
FBXO10	26267	broad.mit.edu	37	chr9	37532017	37532017	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagcgaagaaagatgcctgaCgctcggcagcggtaaatgtc	13	6	13	9	4	0	3	0	1	0	2	2	4	0	3	1	2	3	3	1	2	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:37532017C>T	uc004aab.2	-	4	1507	c.1458G>A	c.(1456-1458)GCG>GCA	p.A486A	FBXO10_uc004aac.2_Silent_p.A502A|FBXO10_uc004aad.2_Silent_p.A36A	NM_012166	NP_036298	Q9UK96	FBX10_HUMAN	F-box protein 10	486	PbH1 5.					ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(5)	5				GBM - Glioblastoma multiforme(29;0.0107)		AGATGCCTGACGCTCGGCAGC	0.458													7	52					0	0	0.00308	0	0		T	37532017	T	T	37532017	2	4	157	1	0	0	0	0	0	0	0	1	5740	523	19	1		1	FBXO10	9	37532017	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3160906	37532017	103681414	708	86268											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	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	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													6	118					0	0	0.001168	0	0		G	70993145	G	G	70993145	3	3	157	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	33461128	70993145	70220286	709	86269											
TMC1	117531	broad.mit.edu	37	chr9	75420425	75420425	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggacttggagtatggatAtgtaagtatgatgttaattt	11	16	12	2	0	0	1	0	1	0	0	0	4	0	4	0	3	0	4	0	3	5	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:75420425A>G	uc004aiz.1	+	18	2234	c.1694A>G	c.(1693-1695)TAT>TGT	p.Y565C	TMC1_uc010moz.1_Missense_Mutation_p.Y523C|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.Y419C|TMC1_uc010mpa.1_Missense_Mutation_p.Y419C	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	565	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						GAGTATGGATATGTAAGTATG	0.259													76	242					0	0	0.01441	0	0		G	75420425	G	G	75420425	3	3	157	1	0	0	0	0	1	0	0	0	16009	463	16	3	1748	3	TMC1	9	75420425	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	4427280	75420425	65793006	710	86270											
ALDH1A1	216	broad.mit.edu	37	chr9	75555148	75555148	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgccactcactgaatcatgCcattcattgtttatgaagat	11	15	6	9	0	3	3	3	2	0	1	3	3	3	3	2	0	2	1	2	0	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:75555148C>T	uc004ajd.2	-	2	140	c.87G>A	c.(85-87)TGG>TGA	p.W29*	ALDH1A1_uc011lsh.1_5'UTR	NM_000689	NP_000680	P00352	AL1A1_HUMAN	aldehyde dehydrogenase 1A1	29					cellular aldehyde metabolic process|ethanol oxidation|xenobiotic metabolic process	cytosol	aldehyde dehydrogenase (NAD) activity|androgen binding|Ras GTPase activator activity|retinal dehydrogenase activity			ovary(3)|lung(1)	4					NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CTGAATCATGCCATTCATTGT	0.368													22	125					0	0	0.014323	0	0		T	75555148	T	T	75555148	4	4	157	1	0	0	0	0	0	1	0	0	490	740	26	2	1466	2	ALDH1A1	9	75555148	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	134723	75555148	65658283	711	86271											
C9orf95	54981	broad.mit.edu	37	chr9	77681726	77681726	+	Missense_Mutation	SNP	T	C	C	0	1	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	catatacttgcaaaaagaggTcctcttcagattttgttcca	12	14	6	9	0	2	2	1	0	1	2	4	2	4	2	2	1	2	2	2	1	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:77681726T>C	uc004aju.2	-	8	1125	c.527A>G	c.(526-528)GAC>GGC	p.D176G	C9orf95_uc004ajs.3_Missense_Mutation_p.D180G|C9orf95_uc004ajr.3_Missense_Mutation_p.D176G|C9orf95_uc004ajt.3_Missense_Mutation_p.D152G	NM_017881	NP_060351	Q9NWW6	NRK1_HUMAN	nicotinamide riboside kinase 1 isoform 1	176					pyridine nucleotide biosynthetic process		ATP binding|metal ion binding|ribosylnicotinamide kinase activity				0						CAAAAAGAGGTCCTCTTCAGA	0.383													38	164					0	0	0.006999	0	0		C	77681726	C	C	77681726	3	2	157	1	0	0	0	0	1	0	0	0	2510	1667	58	3	80	3	C9orf95	9	77681726	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2126578	77681726	63531705	712	86272											
PRUNE2	158471	broad.mit.edu	37	chr9	79322121	79322121	+	Missense_Mutation	SNP	T	C	C	0	1	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	actcttcaccaccgacactgTcatcatcagaacctgagctt	11	10	5	15	1	5	2	4	1	1	1	5	3	5	2	3	0	2	1	3	0	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:79322121T>C	uc010mpk.2	-	8	5193	c.5069A>G	c.(5068-5070)GAC>GGC	p.D1690G		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1690					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						ACCGACACTGTCATCATCAGA	0.468													18	83					0	0	0.008871	0	0		C	79322121	C	C	79322121	3	2	157	1	0	0	0	0	1	0	0	0	12663	1667	58	3	4245	3	PRUNE2	9	79322121	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1640395	79322121	61891310	713	86273											
KIF27	55582	broad.mit.edu	37	chr9	86457221	86457221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtttcttcttatgatcccGgctggttttcttatagaaat	9	18	7	7	1	3	2	0	1	3	1	4	2	4	2	1	2	0	3	1	2	5	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:86457221G>A	uc004ana.2	-	17	3796	c.3652C>T	c.(3652-3654)CGG>TGG	p.R1218W	KIF27_uc010mpw.2_Missense_Mutation_p.R1152W|KIF27_uc010mpx.2_Missense_Mutation_p.R1121W	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	1218	Potential.				cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						TTATGATCCCGGCTGGTTTTC	0.378													25	84					0	0	0.010818	0	0		A	86457221	A	A	86457221	3	1	157	1	0	0	0	0	1	0	0	0	8312	1115	39	1	561	1	KIF27	9	86457221	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7135100	86457221	54756210	714	86274											
CENPP	401541	broad.mit.edu	37	chr9	95099824	95099824	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtttttctgctttacaggTattagaaaagttctacagag	11	17	8	5	0	2	2	0	0	2	2	2	2	2	2	0	1	3	4	0	1	6	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:95099824T>C	uc004arz.2	+	3	831	c.291T>C	c.(289-291)AGT>AGC	p.S97S	CENPP_uc010mqx.2_5'UTR|CENPP_uc004ary.1_Silent_p.S97S	NM_001012267	NP_001012267	Q6IPU0	CENPP_HUMAN	centromere protein P	97					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	chromosome, centromeric region|cytosol|nucleoplasm				ovary(2)	2						GCTTTACAGGTATTAGAAAAG	0.294													6	265					0	0	0.00308	0	0		C	95099824	C	C	95099824	2	2	157	1	0	0	0	0	0	0	0	1	3243	1652	57	3		3	CENPP	9	95099824	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	8642603	95099824	46113607	715	86275											
BICD2	23299	broad.mit.edu	37	chr9	95481509	95481509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggccctcagcctcatagCggcccttctcctcggcgtgc	3	9	10	19	3	3	0	2	0	1	0	5	0	3	0	5	3	3	0	5	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:95481509C>T	uc004aso.1	-	5	1475	c.1418G>A	c.(1417-1419)CGC>CAC	p.R473H	BICD2_uc004asp.1_Missense_Mutation_p.R473H	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	473	Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						AGCCTCATAGCGGCCCTTCTC	0.682													17	42					0	0	0.004007	0	0		T	95481509	T	T	95481509	3	4	157	1	0	0	0	0	1	0	0	0	1430	768	27	1	1171	1	BICD2	9	95481509	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	381685	95481509	45731922	716	86276											
ZNF484	83744	broad.mit.edu	37	chr9	95610559	95610559	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatggggtctttttcttgaGgaaaccaggtgtgtgtttac	7	17	12	5	0	2	1	0	1	2	0	2	2	2	2	1	4	2	1	1	4	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:95610559G>T	uc004asu.1	-	5	659	c.510C>A	c.(508-510)TCC>TCA	p.S170S	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.S172S|ZNF484_uc010mrb.1_Silent_p.S134S|ZNF484_uc004asv.1_Silent_p.S134S	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	170					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTTTCTTGAGGAAACCAGGT	0.353													14	323					2.32078e-09	2.47629e-09	0.003163	1	0		T	95610559	T	T	95610559	2	4	157	1	0	0	0	0	0	0	0	1	17962	987	35	5		5	ZNF484	9	95610559	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	129050	95610559	45602872	717	86277											
FGD3	89846	broad.mit.edu	37	chr9	95784667	95784667	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaaggcagttcgggtgcagCaggggtaagtgccccatgct	8	7	16	10	2	0	0	0	0	0	0	1	1	0	0	2	4	4	6	2	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:95784667C>G	uc004asw.2	+	14	2181	c.1553C>G	c.(1552-1554)GCA>GGA	p.A518G	FGD3_uc004asx.2_Missense_Mutation_p.A518G|FGD3_uc004asz.2_Missense_Mutation_p.A518G|FGD3_uc011luc.1_Missense_Mutation_p.A121G	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	518					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						TCGGGTGCAGCAGGGGTAAGT	0.612													4	73					0	0	0.000602	0	0		G	95784667	G	G	95784667	3	3	157	1	0	0	0	0	1	0	0	0	5848	710	25	5	1599	5	FGD3	9	95784667	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	174108	95784667	45428764	718	86278											
TDRD7	23424	broad.mit.edu	37	chr9	100245161	100245161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatgaaaccagagggatcGcacatgtttatttatttacc	12	13	9	7	1	0	2	0	1	0	1	1	4	0	4	2	2	2	2	2	2	4	6	rs142092319	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:100245161G>A	uc004axj.2	+	15	2668	c.2443G>A	c.(2443-2445)GCA>ACA	p.A815T	TDRD7_uc011lux.1_Missense_Mutation_p.A741T|TDRD7_uc010msp.1_Missense_Mutation_p.A67T|TDRD7_uc011luy.1_Missense_Mutation_p.A135T	NM_014290	NP_055105	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	815					lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			ovary(2)|pancreas(1)	3		Acute lymphoblastic leukemia(62;0.158)				CAGAGGGATCGCACATGTTTA	0.363													26	147					0	0	0.005443	0	0		A	100245161	A	A	100245161	3	1	157	1	0	0	0	0	1	0	0	0	15760	1087	38	1	2497	1	TDRD7	9	100245161	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4460494	100245161	40968270	719	86279											
ANKS6	203286	broad.mit.edu	37	chr9	101552841	101552841	+	Missense_Mutation	SNP	T	C	C	0	1	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	gccggttctgggcattgacaTcagccccgtgatccaacagg	8	8	12	13	2	2	2	1	2	1	0	3	2	3	2	4	3	2	2	4	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:101552841T>C	uc004ayu.2	-	2	428	c.407A>G	c.(406-408)GAT>GGT	p.D136G	ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	136	ANK 3.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				GGCATTGACATCAGCCCCGTG	0.602													15	34					0	0	0.003163	0	0		C	101552841	C	C	101552841	3	2	157	1	0	0	0	0	1	0	0	0	692	1435	50	3	2264	3	ANKS6	9	101552841	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1307680	101552841	39660590	720	86280											
COL15A1	1306	broad.mit.edu	37	chr9	101787222	101787222	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaccaggaactgatgttTtcatgggaccccctggatct	11	10	10	10	0	2	1	1	1	1	0	2	5	2	4	3	3	2	1	3	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:101787222T>C	uc004azb.1	+	15	2127	c.1921T>C	c.(1921-1923)TTC>CTC	p.F641L		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	641	Triple-helical region 2 (COL2).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				AACTGATGTTTTCATGGGACC	0.567													21	95					0	0	0.008871	0	0		C	101787222	C	C	101787222	3	2	157	1	0	0	0	0	1	0	0	0	3675	1841	64	3	1979	3	COL15A1	9	101787222	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	234381	101787222	39426209	721	86281											
KIAA0368	23392	broad.mit.edu	37	chr9	114137450	114137450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaacctaggaactagctcGcccagcactgacacatcaag	14	5	7	15	1	1	1	1	1	0	0	2	2	1	2	2	1	4	2	2	1	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:114137450G>A	uc004bfe.1	-	39	4587	c.4587C>T	c.(4585-4587)GGC>GGT	p.G1529G		NM_001080398	NP_001073867			KIAA0368 protein												0						GAACTAGCTCGCCCAGCACTG	0.408													22	55					0	0	0.003954	0	0		A	114137450	A	A	114137450	2	1	157	1	0	0	0	0	0	0	0	1	8187	1074	38	1		1	KIAA0368	9	114137450	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	12350228	114137450	27075981	722	86282											
KIAA1958	158405	broad.mit.edu	37	chr9	115421992	115421992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccctactttgcccggacGgacagcgtcaagcgggagag	9	5	14	13	4	1	1	1	0	0	1	1	4	1	3	2	3	5	0	2	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:115421992G>A	uc004bgf.1	+	4	1969	c.1794G>A	c.(1792-1794)ACG>ACA	p.T598T	KIAA1958_uc011lwx.1_Silent_p.T626T	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	598										skin(1)	1						TTGCCCGGACGGACAGCGTCA	0.582													13	44					0	0	0.001855	0	0		A	115421992	A	A	115421992	2	1	157	1	0	0	0	0	0	0	0	1	8280	1103	39	1		1	KIAA1958	9	115421992	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1284542	115421992	25791439	723	86283											
RGS3	5998	broad.mit.edu	37	chr9	116246469	116246469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaccagaagacgcagaccGttccagactgcagagacccg	12	3	11	15	3	0	5	0	0	0	5	1	6	1	5	5	0	1	3	5	0	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:116246469G>A	uc004bhq.2	+	7	786	c.577G>A	c.(577-579)GTT>ATT	p.V193I	RGS3_uc004bhr.2_Missense_Mutation_p.V81I|RGS3_uc004bhs.2_Missense_Mutation_p.V83I	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	193	C2.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						GACGCAGACCGTTCCAGACTG	0.498													23	91					0	0	0.008361	0	0		A	116246469	A	A	116246469	3	1	157	1	0	0	0	0	1	0	0	0	13331	1145	40	1	682	1	RGS3	9	116246469	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	824477	116246469	24966962	724	86284											
TNC	3371	broad.mit.edu	37	chr9	117786296	117786296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccccatcaggttgacacGgtgacagttcctgtaccaga	9	10	9	13	1	2	3	1	2	1	1	4	3	3	3	4	2	1	3	4	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:117786296G>A	uc004bjj.3	-	27	6813	c.6451C>T	c.(6451-6453)CGT>TGT	p.R2151C	TNC_uc010mvf.2_Missense_Mutation_p.R1878C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	2151	Fibrinogen C-terminal.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						AGGTTGACACGGTGACAGTTC	0.547													46	178					0	0	0.01441	0	0		A	117786296	A	A	117786296	3	1	157	1	0	0	0	0	1	0	0	0	16295	1116	39	1	162	1	TNC	9	117786296	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1539827	117786296	23427135	725	86285											
ASTN2	23245	broad.mit.edu	37	chr9	119188284	119188284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatagggcactgtttccacgCggctctggatgtaggcactc	7	10	13	11	2	1	0	0	0	1	0	3	2	2	1	1	4	0	5	1	4	2	3	rs139072409	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:119188284C>T	uc004bjs.1	-	23	3967	c.3866G>A	c.(3865-3867)CGC>CAC	p.R1289H	ASTN2_uc004bjr.1_Missense_Mutation_p.R1285H|ASTN2_uc004bjt.1_Missense_Mutation_p.R1238H|ASTN2_uc004bjp.1_Missense_Mutation_p.R382H|ASTN2_uc004bjq.1_Missense_Mutation_p.R341H|ASTN2_uc011lxr.1_Missense_Mutation_p.R341H|ASTN2_uc011lxs.1_Missense_Mutation_p.R341H|ASTN2_uc011lxt.1_Missense_Mutation_p.R341H|ASTN2_uc004bjo.1_Missense_Mutation_p.R70H	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1289	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						TGTTTCCACGCGGCTCTGGAT	0.582													7	22					0	0	0.004482	0	0		T	119188284	T	T	119188284	3	4	157	1	0	0	0	0	1	0	0	0	1066	768	27	1	198	1	ASTN2	9	119188284	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1401988	119188284	22025147	726	86286											
OR1L8	138881	broad.mit.edu	37	chr9	125330568	125330568	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgagagacagaaaactcaaGaagaaatacataggggtctg	18	6	12	5	0	2	5	1	1	1	4	2	6	2	5	0	2	2	0	0	2	7	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:125330568G>C	uc004bmp.1	-	1	189	c.189C>G	c.(187-189)TTC>TTG	p.F63L		NM_001004454	NP_001004454	Q8NGR8	OR1L8_HUMAN	olfactory receptor, family 1, subfamily L,	63	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3						GAAAACTCAAGAAGAAATACA	0.458													21	89					0	0	0.010504	0	0		C	125330568	C	C	125330568	3	2	157	1	0	0	0	0	1	0	0	0	10986	933	33	5	744	5	OR1L8	9	125330568	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6142284	125330568	15882863	727	86287											
RABGAP1	23637	broad.mit.edu	37	chr9	125748541	125748541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtggccgatgaggacagcGtagttttcagtaaactgact	11	10	12	8	2	1	2	1	2	0	0	1	4	1	3	1	2	2	3	1	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:125748541G>A	uc011lzh.1	+	4	567	c.433G>A	c.(433-435)GTA>ATA	p.V145I	RABGAP1_uc004bnl.3_RNA|RABGAP1_uc004bnm.1_Missense_Mutation_p.V145I	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	145	PID.				cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						TGAGGACAGCGTAGTTTTCAG	0.423													40	124					0	0	0.00874	0	0		A	125748541	A	A	125748541	3	1	157	1	0	0	0	0	1	0	0	0	12989	1145	40	1	443	1	RABGAP1	9	125748541	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	417973	125748541	15464890	728	86288											
CRB2	286204	broad.mit.edu	37	chr9	126125190	126125190	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgtgcctcagacccgtgCgctccagggaccgagtgcca	6	6	13	16	3	1	1	1	0	0	1	2	3	2	2	6	1	3	1	6	1	0	0	rs138658467		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:126125190C>T	uc004bnx.1	+	2	233	c.141C>T	c.(139-141)TGC>TGT	p.C47C	CRB2_uc004bnw.1_Silent_p.C47C	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	47	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						CAGACCCGTGCGCTCCAGGGA	0.652													34	115					0	0	0.00623	0	0		T	126125190	T	T	126125190	2	4	157	1	0	0	0	0	0	0	0	1	3852	776	27	1		1	CRB2	9	126125190	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	376649	126125190	15088241	729	86289											
NR6A1	2649	broad.mit.edu	37	chr9	127495601	127495601	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttactagtgcctgggtcaAgctctgccaattcatcctga	9	12	8	12	0	3	1	2	1	1	0	4	1	4	1	3	1	4	1	3	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:127495601A>G	uc004bor.1	-	2	306	c.128T>C	c.(127-129)CTT>CCT	p.L43P	NR6A1_uc004boq.1_Missense_Mutation_p.L43P|NR6A1_uc010mwq.1_Missense_Mutation_p.L43P	NM_033334	NP_201591	Q15406	NR6A1_HUMAN	nuclear receptor subfamily 6, group A, member 1	43					cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						GCCTGGGTCAAGCTCTGCCAA	0.333													34	156					0	0	0.006999	0	0		G	127495601	G	G	127495601	3	3	157	1	0	0	0	0	1	0	0	0	10656	72	3	3	1350	3	NR6A1	9	127495601	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1370411	127495601	13717830	730	86290											
RABEPK	10244	broad.mit.edu	37	chr9	127994881	127994881	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttctcttggcaggtgacaTgaaatggcagaagctaaatc	12	11	10	8	0	1	3	0	2	1	1	3	3	1	3	0	3	1	3	0	3	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:127994881T>C	uc004bpi.2	+	8	856	c.683T>C	c.(682-684)ATG>ACG	p.M228T	RABEPK_uc004bpj.2_Missense_Mutation_p.M177T|RABEPK_uc004bpk.2_Missense_Mutation_p.M228T|RABEPK_uc004bpl.1_Missense_Mutation_p.M177T|RABEPK_uc004bpm.2_Missense_Mutation_p.M228T	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	228	Kelch 4.				receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						GCAGGTGACATGAAATGGCAG	0.483													6	85					0	0	0.006214	0	0		C	127994881	C	C	127994881	3	2	157	1	0	0	0	0	1	0	0	0	12988	1464	51	3	705	3	RABEPK	9	127994881	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	499280	127994881	13218550	731	86291											
ST6GALNAC6	30815	broad.mit.edu	37	chr9	130656852	130656852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcttgaggttgacaggtCggcggctacggccccgcagg	6	8	15	12	4	1	2	0	2	1	0	2	2	1	2	2	6	1	3	2	6	1	4	rs139501224	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:130656852C>T	uc004bso.1	-	4	355	c.236G>A	c.(235-237)CGA>CAA	p.R79Q	ST6GALNAC6_uc004bsn.1_Missense_Mutation_p.R45Q|ST6GALNAC6_uc011man.1_Missense_Mutation_p.D15N|ST6GALNAC6_uc004bsp.1_Missense_Mutation_p.R79Q|ST6GALNAC6_uc004bsq.1_Missense_Mutation_p.R45Q|ST6GALNAC6_uc004bsr.2_Missense_Mutation_p.R45Q|ST6GALNAC6_uc010mxp.1_RNA	NM_013443	NP_038471	Q969X2	SIA7F_HUMAN	sialytransferase 7F	79	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane|plasma membrane					0						GTTGACAGGTCGGCGGCTACG	0.577													6	80					0	0	0.013537	0	0		T	130656852	T	T	130656852	3	4	157	1	0	0	0	0	1	0	0	0	15253	884	31	1	781	1	ST6GALNAC6	9	130656852	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2661971	130656852	10556579	732	86292											
WDR34	89891	broad.mit.edu	37	chr9	131399202	131399202	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgctgccactcaccggccGtaggcacaggccaccacaga	9	3	10	19	3	1	1	1	0	0	1	1	1	1	1	6	3	1	3	6	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:131399202G>A	uc004bvq.1	-	3	664	c.540C>T	c.(538-540)TAC>TAT	p.Y180Y	WDR34_uc004bvs.1_Silent_p.Y171Y|WDR34_uc004bvr.1_Silent_p.Y180Y|WDR34_uc011mbi.1_Silent_p.Y63Y	NM_052844	NP_443076	Q96EX3	WDR34_HUMAN	WD repeat domain 34	180						cytoplasm				central_nervous_system(2)|skin(1)	3						CTCACCGGCCGTAGGCACAGG	0.642													4	17					0	0	0.000602	0	0		A	131399202	A	A	131399202	2	1	157	1	0	0	0	0	0	0	0	1	17314	1140	40	1		1	WDR34	9	131399202	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	742350	131399202	9814229	733	86293											
SET	6418	broad.mit.edu	37	chr9	131456213	131456213	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaaggagaaggagaagaAgatgatgatgatgatgaaga	20	5	16	0	0	0	11	0	5	0	6	0	14	0	11	0	2	0	0	0	2	6	0	rs145251942	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:131456213A>T	uc004bvt.3	+	7	982	c.741A>T	c.(739-741)GAA>GAT	p.E247D	SET_uc004bvu.3_Missense_Mutation_p.E234D|SET_uc010myg.2_RNA|SET_uc011mbj.1_Missense_Mutation_p.E223D	NM_001122821	NP_001116293	Q01105	SET_HUMAN	SET translocation (myeloid leukemia-associated)	247	Asp/Glu-rich (highly acidic).				DNA replication|mRNA metabolic process|negative regulation of histone acetylation|negative regulation of neuron apoptosis|negative regulation of transcription, DNA-dependent|nucleocytoplasmic transport|nucleosome assembly|nucleosome disassembly	cytosol|endoplasmic reticulum|nucleoplasm|perinuclear region of cytoplasm|protein complex	histone binding|protein phosphatase inhibitor activity|protein phosphatase type 2A regulator activity				0		Myeloproliferative disorder(178;0.204)		GBM - Glioblastoma multiforme(294;3.1e-09)		aaggagaagaagatgatgatg	0.134			T	NUP214	AML								27	91					0	0	0.004656	0	0		T	131456213	T	T	131456213	3	4	157	1	0	0	0	0	1	0	0	0	14153	69	3	5	844	5	SET	9	131456213	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	57011	131456213	9757218	734	86294											
SH3GLB2	56904	broad.mit.edu	37	chr9	131784632	131784632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttcttggtgctgtctgccCgggccagaaggttttcaaag	7	12	13	9	1	3	1	1	0	2	1	3	1	3	1	2	3	2	3	2	3	2	4	rs138289691		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:131784632C>T	uc004bwv.2	-	2	280	c.134G>A	c.(133-135)CGG>CAG	p.R45Q	SH3GLB2_uc004bww.2_Missense_Mutation_p.R45Q|SH3GLB2_uc004bwx.1_Missense_Mutation_p.R45Q|SH3GLB2_uc011mbm.1_Missense_Mutation_p.R45Q	NM_020145	NP_064530	Q9NR46	SHLB2_HUMAN	SH3-domain GRB2-like endophilin B2	45	BAR.				filopodium assembly|signal transduction	cytoplasm|nucleus	cytoskeletal adaptor activity|SH3 domain binding				0						GCTGTCTGCCCGGGCCAGAAG	0.597													8	34					0	0	0.006214	0	0		T	131784632	T	T	131784632	3	4	157	1	0	0	0	0	1	0	0	0	14279	652	23	1	1093	1	SH3GLB2	9	131784632	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	328419	131784632	9428799	735	86295											
DOLPP1	57171	broad.mit.edu	37	chr9	131847046	131847046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atttaagcgggagctgcacaCggtgagtctgtcttgcccac	8	10	12	11	2	2	1	0	1	2	0	2	2	2	2	1	2	4	2	1	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:131847046C>T	uc004bxc.2	+	2	204	c.176C>T	c.(175-177)ACG>ATG	p.T59M	DOLPP1_uc004bxd.2_Missense_Mutation_p.T59M|DOLPP1_uc004bxe.2_RNA|DOLPP1_uc004bxf.2_5'Flank	NM_020438	NP_065171	Q86YN1	DOPP1_HUMAN	dolichyl pyrophosphate phosphatase 1 isoform a	59					dolichyl diphosphate biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to endoplasmic reticulum membrane	dolichyldiphosphatase activity			skin(1)	1						GAGCTGCACACGGTGAGTCTG	0.612													64	215					0	0	0.01441	0	0		T	131847046	T	T	131847046	3	4	157	1	0	0	0	0	1	0	0	0	4710	550	19	1	182	1	DOLPP1	9	131847046	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	62414	131847046	9366385	736	86296											
ASB6	140459	broad.mit.edu	37	chr9	132400635	132400635	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaagcagaagcggttgatcaTctgggcctcctctttgtccc	7	11	11	12	1	3	2	1	1	2	1	5	3	5	2	3	2	2	2	3	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:132400635T>C	uc004byf.1	-	6	866	c.700A>G	c.(700-702)ATG>GTG	p.M234V	ASB6_uc004bye.1_Missense_Mutation_p.M159V|ASB6_uc004byg.1_Silent_p.R197R|ASB6_uc011mbt.1_Missense_Mutation_p.M155V|ASB6_uc010myx.1_Missense_Mutation_p.M205V	NM_017873	NP_060343	Q9NWX5	ASB6_HUMAN	ankyrin repeat and SOCS box-containing 6 isoform	234	ANK 5.				intracellular signal transduction	cytoplasm					0		Ovarian(14;0.00556)				CGGTTGATCATCTGGGCCTCC	0.617													16	87					0	0	0.004007	0	0		C	132400635	C	C	132400635	3	2	157	1	0	0	0	0	1	0	0	0	1028	1435	50	3	569	3	ASB6	9	132400635	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	553589	132400635	8812796	737	86297											
FIBCD1	84929	broad.mit.edu	37	chr9	133779552	133779552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacgccgtcggcataggaggCgtgcgcaccgcgcaggtact	7	5	15	14	7	0	0	0	0	0	0	1	1	0	1	2	4	2	4	2	4	2	2	rs143570837	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:133779552C>T	uc004bzz.2	-	7	1530	c.1285G>A	c.(1285-1287)GCC>ACC	p.A429T	FIBCD1_uc011mcc.1_Missense_Mutation_p.A429T	NM_032843	NP_116232	Q8N539	FBCD1_HUMAN	fibrinogen C domain containing 1	429	Fibrinogen C-terminal.|Extracellular (Potential).				signal transduction	extracellular space|integral to membrane	chitin binding|metal ion binding|receptor binding				0	all_hematologic(7;0.0028)			OV - Ovarian serous cystadenocarcinoma(145;3.52e-05)|Epithelial(140;0.00019)		GCATAGGAGGCGTGCGCACCG	0.627													29	110					0	0	0.008361	0	0		T	133779552	T	T	133779552	3	4	157	1	0	0	0	0	1	0	0	0	5898	768	27	1	104	1	FIBCD1	9	133779552	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1378917	133779552	7433879	738	86298											
PPAPDC3	84814	broad.mit.edu	37	chr9	134165480	134165480	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccagccccccaaggggggCccggagccccgcagctcggg	7	1	15	18	3	0	0	0	0	0	0	1	1	0	1	7	5	4	2	7	5	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:134165480C>G	uc004cal.2	+	1	400	c.96C>G	c.(94-96)GGC>GGG	p.G32G		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	32	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CCAAGGGGGGCCCGGAGCCCC	0.706													8	28					0	0	0.00308	0	0		G	134165480	G	G	134165480	2	3	157	1	0	0	0	0	0	0	0	1	12315	726	26	5		5	PPAPDC3	9	134165480	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	385928	134165480	7047951	739	86299											
TTF1	7270	broad.mit.edu	37	chr9	135251548	135251548	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgtctcataaaggtagtcGatgatctctacagaaaagaa	15	10	9	7	2	2	3	1	1	2	2	6	4	2	3	0	1	1	1	0	1	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:135251548G>A	uc004cbl.2	-	11	2524	c.2472C>T	c.(2470-2472)ATC>ATT	p.I824I	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Silent_p.I309I	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	824					negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		AAAGGTAGTCGATGATCTCTA	0.408													26	80					0	0	0.005443	0	0		A	135251548	A	A	135251548	2	1	157	1	0	0	0	0	0	0	0	1	16744	1048	37	1		1	TTF1	9	135251548	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1086068	135251548	5961883	740	86300											
GTF3C4	9329	broad.mit.edu	37	chr9	135553527	135553527	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagctggtctcccatgggttGcgatgctaatggcaggtgcc	6	10	14	11	1	1	0	0	0	1	0	2	1	1	0	2	4	4	4	2	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:135553527G>A	uc010mzv.2	+	2	779	c.521G>A	c.(520-522)TGC>TAC	p.C174Y	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	174					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		CCCATGGGTTGCGATGCTAAT	0.532													26	94					0	0	0.013726	0	0		A	135553527	A	A	135553527	3	1	157	1	0	0	0	0	1	0	0	0	6891	1319	46	2	527	2	GTF3C4	9	135553527	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	301979	135553527	5659904	741	86301											
CEL	1056	broad.mit.edu	37	chr9	135946427	135946427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactgggaaccctacactaCggaaaacagcggctacctgg	13	5	10	13	2	0	0	0	0	0	0	0	2	0	2	2	4	6	1	2	4	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:135946427C>T	uc010naa.1	+	11	1563	c.1547C>T	c.(1546-1548)ACG>ATG	p.T516M		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	513					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		CCCTACACTACGGAAAACAGC	0.607													5	37					0	0	0.001168	0	0		T	135946427	T	T	135946427	3	4	157	1	0	0	0	0	1	0	0	0	3212	536	19	1	1589	1	CEL	9	135946427	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	392900	135946427	5267004	742	86302											
ADAMTS13	11093	broad.mit.edu	37	chr9	136304557	136304557	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccaaccacaggcctctcttCacacacttgggtgagttgac	9	9	9	14	0	2	2	1	2	1	0	3	2	2	2	3	2	1	1	3	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:136304557C>T	uc004cdv.3	+	15	2220	c.1776C>T	c.(1774-1776)TTC>TTT	p.F592F	ADAMTS13_uc004cdp.3_5'UTR|ADAMTS13_uc004cdt.1_Silent_p.F592F|ADAMTS13_uc004cdu.1_Silent_p.F561F|ADAMTS13_uc004cdw.3_Silent_p.F592F|ADAMTS13_uc004cdx.3_Silent_p.F561F|ADAMTS13_uc004cdy.1_RNA|ADAMTS13_uc004cdz.3_Silent_p.F262F|ADAMTS13_uc004cds.1_Silent_p.F117F|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	592	Spacer.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		GGCCTCTCTTCACACACTTGG	0.333													34	160					0	0	0.004878	0	0		T	136304557	T	T	136304557	2	4	157	1	0	0	0	0	0	0	0	1	258	825	29	4		4	ADAMTS13	9	136304557	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	358130	136304557	4908874	743	86303											
TMEM8C	389827	broad.mit.edu	37	chr9	136389958	136389958	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagcagcttggccaccagCgtccccatgggccaggagga	9	4	15	13	1	0	0	0	0	0	0	1	3	1	3	5	5	3	2	5	5	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:136389958C>T	uc011mdk.1	-	1	9	c.9G>A	c.(7-9)ACG>ACA	p.T3T		NM_001080483	NP_001073952	A6NI61	TMM8C_HUMAN	transmembrane protein 8C	3						integral to membrane					0						TGGCCACCAGCGTCCCCATGG	0.667													15	55					0	0	0.006122	0	0		T	136389958	T	T	136389958	2	4	157	1	0	0	0	0	0	0	0	1	16241	755	27	1		1	TMEM8C	9	136389958	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	85401	136389958	4823473	744	86304											
SARDH	1757	broad.mit.edu	37	chr9	136577755	136577755	+	Silent	SNP	A	G	G	1	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	acttacctgatgtcatagccAtgcatgtccttctccgggcg	7	12	9	13	2	2	1	1	1	1	0	4	1	3	1	4	1	3	1	4	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:136577755A>G	uc004cep.3	-	10	1448	c.1314T>C	c.(1312-1314)CAT>CAC	p.H438H	SARDH_uc004ceo.2_Silent_p.H438H|SARDH_uc011mdn.1_Silent_p.H438H|SARDH_uc011mdo.1_Silent_p.H270H	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	438					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		TGTCATAGCCATGCATGTCCT	0.617													15	37					0	0	0.00499	0	0		G	136577755	G	G	136577755	2	3	157	1	0	0	0	0	0	0	0	1	13866	214	8	3		3	SARDH	9	136577755	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	187797	136577755	4635676	745	86305											
COL5A1	1289	broad.mit.edu	37	chr9	137660308	137660308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtgctgacggaccccCggtgagtagccctgcccacc	5	5	13	18	3	0	2	0	2	0	0	0	3	0	3	6	3	3	2	6	3	1	1	rs138259992		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:137660308C>T	uc004cfe.2	+	25	2667	c.2285C>T	c.(2284-2286)CCG>CTG	p.P762L		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	762	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GACGGACCCCCGGTGAGTAGC	0.627													13	117					0	0	0.00245	0	0		T	137660308	T	T	137660308	3	4	157	1	0	0	0	0	1	0	0	0	3699	666	23	1	2383	1	COL5A1	9	137660308	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1082553	137660308	3553123	746	86306											
NOTCH1	4851	broad.mit.edu	37	chr9	139407849	139407849	+	Missense_Mutation	SNP	A	G	G	1	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	gcgcagcccactcaccgctgAagccctcccggcaggtgcac	7	4	11	19	3	1	1	1	1	0	0	2	1	2	1	4	2	3	4	4	2	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:139407849A>G	uc004chz.2	-	14	2348	c.2348T>C	c.(2347-2349)TTC>TCC	p.F783S	NOTCH1_uc004cia.1_Missense_Mutation_p.F13S	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	783	Extracellular (Potential).|EGF-like 20.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CTCACCGCTGAAGCCCTCCCG	0.607			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			8	15					0	0	0.008291	0	0		G	139407849	G	G	139407849	3	3	157	1	0	0	0	0	1	0	0	0	10566	246	9	3	5403	3	NOTCH1	9	139407849	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1747541	139407849	1805582	747	86307											
NELF	26012	broad.mit.edu	37	chr9	140344457	140344457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggttcactttgctcatcaggCggctcagccgcttccagaag	7	10	11	13	2	4	1	4	0	0	1	5	1	5	1	2	3	2	4	2	3	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr9:140344457C>T	uc004cna.2	-	14	1569	c.1337G>A	c.(1336-1338)CGC>CAC	p.R446H	C9orf167_uc011mew.1_Intron|NELF_uc011mex.1_Missense_Mutation_p.R243H|NELF_uc010nci.2_Missense_Mutation_p.R190H|NELF_uc011mey.1_RNA|NELF_uc011mez.1_Missense_Mutation_p.R423H|NELF_uc004cmz.2_Missense_Mutation_p.R444H|NELF_uc004cnc.2_Missense_Mutation_p.R421H|NELF_uc004cnb.2_Missense_Mutation_p.R416H	NM_001130969	NP_001124441	Q6X4W1	NELF_HUMAN	nasal embryonic LHRH factor isoform a	446						nucleus|plasma membrane					0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000222)|Epithelial(140;0.000888)		GCTCATCAGGCGGCTCAGCCG	0.622													26	99					0	0	0.00632	0	0		T	140344457	T	T	140344457	3	4	157	1	0	0	0	0	1	0	0	0	10351	768	27	1	267	1	NELF	9	140344457	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	936608	140344457	868974	748	86308											
TUBB8	347688	broad.mit.edu	37	chr10	93721	93721	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatgtcatacagagcttcgTtatctatgcaaaaggtctca	13	13	7	8	1	3	1	2	0	2	1	5	1	3	1	0	1	3	3	0	1	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:93721T>A	uc001ifi.2	-	4	611	c.611A>T	c.(610-612)AAC>ATC	p.N204I	TUBB8_uc009xhe.2_Missense_Mutation_p.N167I|TUBB8_uc010pzs.1_Missense_Mutation_p.N132I	NM_177987	NP_817124	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 isoform 1	204					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		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)		CAGAGCTTCGTTATCTATGCA	0.542													12	194					0	0	0.010729	0	0		A	93721	A	A	93721	3	1	157	1	0	0	0	0	1	0	0	0	16787	1725	60	5	727	5	TUBB8	10	93721	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08		93721	135441026	749	86309											
ANKRD16	54522	broad.mit.edu	37	chr10	5931081	5931081	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtctcggtggcccatggaGgccgcctcgtgcagaggccg	5	6	16	14	4	1	1	0	0	1	1	3	2	1	2	4	5	1	1	4	5	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:5931081G>T	uc010qat.1	-	1	780	c.237C>A	c.(235-237)GCC>GCA	p.A79A	ANKRD16_uc009xie.2_Silent_p.A79A|ANKRD16_uc009xif.2_Silent_p.A79A|ANKRD16_uc001iiq.2_Silent_p.A79A|FBXO18_uc001iir.2_5'Flank|FBXO18_uc001iis.2_5'Flank|FBXO18_uc009xig.2_5'Flank	NM_019046	NP_061919	Q6P6B7	ANR16_HUMAN	ankyrin repeat domain 16 isoform a	79	ANK 2.										0						GGCCCATGGAGGCCGCCTCGT	0.682													3	22					6.4e-05	6.62773e-05	0.004672	1	0		T	5931081	T	T	5931081	2	4	157	1	0	0	0	0	0	0	0	1	645	987	35	5		5	ANKRD16	10	5931081	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5837360	5931081	129603666	750	86310											
ITIH5	80760	broad.mit.edu	37	chr10	7618870	7618870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatgatgatctccgagccGttgaagtagttggggaacag	11	9	14	7	2	1	3	0	3	1	0	2	5	1	4	2	2	2	4	2	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:7618870G>A	uc001ijq.2	-	10	1603	c.1524C>T	c.(1522-1524)AAC>AAT	p.N508N	ITIH5_uc001ijp.2_Silent_p.N294N|ITIH5_uc001ijr.1_Silent_p.N508N	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	508					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						TCTCCGAGCCGTTGAAGTAGT	0.557													19	67					0	0	0.010504	0	0		A	7618870	A	A	7618870	2	1	157	1	0	0	0	0	0	0	0	1	7923	1136	40	1		1	ITIH5	10	7618870	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1687789	7618870	127915877	751	86311											
CDNF	441549	broad.mit.edu	37	chr10	14867588	14867588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcacttaggatctttgtgGctgcgtcttttgtggctcct	3	18	10	10	1	3	0	1	0	2	0	4	1	4	1	1	3	1	2	1	3	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:14867588G>A	uc001inb.1	-	3	313	c.275C>T	c.(274-276)GCC>GTC	p.A92V	CDNF_uc010qbv.1_Missense_Mutation_p.A92V|CDNF_uc001inc.1_5'UTR	NM_001029954	NP_001025125	Q49AH0	CDNF_HUMAN	arginine-rich, mutated in early stage	92						extracellular region	growth factor activity				0						GATCTTTGTGGCTGCGTCTTT	0.423													30	166					0	0	0.012213	0	0		A	14867588	A	A	14867588	3	1	157	1	0	0	0	0	1	0	0	0	3171	1203	42	2	296	2	CDNF	10	14867588	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7248718	14867588	120667159	752	86312											
FAM171A1	221061	broad.mit.edu	37	chr10	15256478	15256478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggccagggaattctgacGctcggcgtgaaaacagcaag	11	5	15	10	4	1	2	0	2	1	0	2	3	1	3	1	3	2	2	1	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:15256478G>A	uc001iob.2	-	8	1116	c.1109C>T	c.(1108-1110)GCG>GTG	p.A370V		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	370	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						GAATTCTGACGCTCGGCGTGA	0.572													16	44					0	0	0.00499	0	0		A	15256478	A	A	15256478	3	1	157	1	0	0	0	0	1	0	0	0	5501	1087	38	1	1567	1	FAM171A1	10	15256478	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	388890	15256478	120278269	753	86313											
MLLT10	8028	broad.mit.edu	37	chr10	21823702	21823702	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aacccgctggtttattgcgaCgggcacggctgcagcgtcgc	6	8	14	13	6	0	0	0	0	0	0	1	1	0	0	1	3	4	5	1	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:21823702C>T	uc001iqs.2	+	2	477	c.129C>T	c.(127-129)GAC>GAT	p.D43D	MLLT10_uc001iqt.2_Silent_p.D43D|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Silent_p.D43D|MLLT10_uc001iqr.1_Silent_p.D43D|MLLT10_uc001iqq.1_Silent_p.D43D|MLLT10_uc001iqu.1_Silent_p.D43D|MLLT10_uc009xke.1_RNA|MLLT10_uc001iqw.1_Silent_p.D43D|MLLT10_uc001iqx.1_RNA|MLLT10_uc009xkf.1_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	43	PHD-type 1.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						TTTATTGCGACGGGCACGGCT	0.453			T	MLL|PICALM|CDK6	AL								13	62					0	0	0.001855	0	0		T	21823702	T	T	21823702	2	4	157	1	0	0	0	0	0	0	0	1	9644	535	19	1		1	MLLT10	10	21823702	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6567224	21823702	113711045	754	86314											
ANKRD30A	91074	broad.mit.edu	37	chr10	37508154	37508154	+	Missense_Mutation	SNP	A	G	G	1	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	gtgggcagcttaaagttctgAtagctgagaacacaatgctc	12	10	11	8	0	1	2	0	2	1	1	2	3	1	2	0	1	4	5	0	1	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:37508154A>G	uc001iza.1	+	34	3445	c.3346A>G	c.(3346-3348)ATA>GTA	p.I1116V		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1172	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TAAAGTTCTGATAGCTGAGAA	0.368													70	199					0	0	0.01441	0	0		G	37508154	G	G	37508154	3	3	157	1	0	0	0	0	1	0	0	0	658	333	12	3	3480	3	ANKRD30A	10	37508154	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	15684452	37508154	98026593	755	86315											
BMS1	9790	broad.mit.edu	37	chr10	43287077	43287077	+	Silent	SNP	T	G	G	0	1	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	ttttcctctaatgtttagggTgccaagctgttctacctttc	6	18	7	10	0	2	0	0	0	2	0	4	0	3	0	3	1	3	3	3	1	4	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:43287077T>G	uc001jaj.2	+	6	997	c.639T>G	c.(637-639)GGT>GGG	p.G213G		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	213					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						ATGTTTAGGGTGCCAAGCTGT	0.333													15	177					0	0	0.004007	0	0		G	43287077	G	G	43287077	2	3	157	1	0	0	0	0	0	0	0	1	1473	1683	59	5		5	BMS1	10	43287077	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5778923	43287077	92247670	756	86316											
BMS1	9790	broad.mit.edu	37	chr10	43326431	43326431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccaagcagaaggaggaggagGagaagctgaagcggcagaag	16	1	18	6	1	0	4	0	1	0	3	0	8	0	7	1	5	3	3	1	5	5	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:43326431G>A	uc001jaj.2	+	23	4094	c.3736G>A	c.(3736-3738)GAG>AAG	p.E1246K		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	1246					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						GGAGGAGGAGGAGAAGCTGAA	0.527													8	22					0	0	0.00308	0	0		A	43326431	A	A	43326431	3	1	157	1	0	0	0	0	1	0	0	0	1473	1175	41	4	3822	4	BMS1	10	43326431	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	39354	43326431	92208316	757	86317											
GDF2	2658	broad.mit.edu	37	chr10	48414360	48414360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagaacatcataaatgaccaCgcttcctttcaggtcatgag	13	10	7	11	1	3	3	3	2	0	1	4	3	4	3	2	1	1	1	2	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:48414360C>T	uc001jfa.1	-	2	671	c.508G>A	c.(508-510)GTG>ATG	p.V170M		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	170					activin receptor signaling pathway|BMP signaling pathway|cartilage development|cellular iron ion homeostasis|growth|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of DNA replication|negative regulation of endothelial cell proliferation|ossification|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(2)|skin(1)	3						TAAATGACCACGCTTCCTTTC	0.517													24	81					0	0	0.014323	0	0		T	48414360	T	T	48414360	3	4	157	1	0	0	0	0	1	0	0	0	6329	536	19	1	785	1	GDF2	10	48414360	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5087929	48414360	87120387	758	86318											
ERCC6	2074	broad.mit.edu	37	chr10	50667115	50667115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcttcctgcaggtgccCgctttcactttctaaacgct	8	12	8	13	2	2	1	1	0	1	1	3	1	3	1	2	1	4	4	2	1	3	4	rs4253229	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:50667115C>T	uc001jhs.3	-	21	4382	c.4228G>A	c.(4228-4230)GGG>AGG	p.G1410R	ERCC6_uc009xod.2_Missense_Mutation_p.G570R|ERCC6_uc010qgr.1_Missense_Mutation_p.G780R|ERCC6_uc001jhr.3_Missense_Mutation_p.G778R	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	1410	Ubiquitin-binding domain (UBD).				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						TGCAGGTGCCCGCTTTCACTT	0.542								Direct_reversal_of_damage|NER					52	155					0	0	0.01441	0	0		T	50667115	T	T	50667115	3	4	157	1	0	0	0	0	1	0	0	0	5225	652	23	1	257	1	ERCC6	10	50667115	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2252755	50667115	84867632	759	86319											
ERCC6	2074	broad.mit.edu	37	chr10	50682250	50682250	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagaaaagagatcagggtgGttgcaaatttttcttagggc	12	11	12	6	0	2	2	1	0	1	2	2	3	2	2	1	3	1	2	1	3	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:50682250G>A	uc001jhs.3	-	13	2575	c.2421C>T	c.(2419-2421)AAC>AAT	p.N807N	ERCC6_uc009xod.2_5'UTR|ERCC6_uc010qgr.1_Silent_p.N177N|ERCC6_uc001jhr.3_Silent_p.N175N	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	807					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GATCAGGGTGGTTGCAAATTT	0.423								Direct_reversal_of_damage|NER					36	165					0	0	0.004878	0	0		A	50682250	A	A	50682250	2	1	157	1	0	0	0	0	0	0	0	1	5225	1252	44	4		4	ERCC6	10	50682250	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	15135	50682250	84852497	760	86320											
ERCC6	2074	broad.mit.edu	37	chr10	50686478	50686478	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtaggtatggatttatggtAtctcgtaagacacatgcaca	13	12	10	6	1	1	1	0	0	1	1	2	2	1	2	0	3	1	5	0	3	5	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:50686478A>G	uc001jhs.3	-	11	2362	c.2208T>C	c.(2206-2208)GAT>GAC	p.D736D	ERCC6_uc009xod.2_5'Flank|ERCC6_uc010qgr.1_Silent_p.D106D|ERCC6_uc001jhr.3_Silent_p.D136D	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	736					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GATTTATGGTATCTCGTAAGA	0.378								Direct_reversal_of_damage|NER					66	345					0	0	0.01441	0	0		G	50686478	G	G	50686478	2	3	157	1	0	0	0	0	0	0	0	1	5225	446	16	3		3	ERCC6	10	50686478	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	4228	50686478	84848269	761	86321											
CHAT	1103	broad.mit.edu	37	chr10	50863468	50863468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctgaaggatgccatcCgtgcccagactgcatacaca	10	8	9	14	1	0	2	0	1	0	1	2	3	2	3	4	1	5	2	4	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:50863468C>T	uc001jhz.2	+	13	1966	c.1813C>T	c.(1813-1815)CGT>TGT	p.R605C	CHAT_uc001jhv.1_Missense_Mutation_p.R487C|CHAT_uc001jhx.1_Missense_Mutation_p.R487C|CHAT_uc001jhy.1_Missense_Mutation_p.R487C|CHAT_uc001jia.2_Missense_Mutation_p.R487C|CHAT_uc010qgs.1_Missense_Mutation_p.R487C	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	605					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	GGATGCCATCCGTGCCCAGAC	0.577													39	177					0	0	0.00623	0	0		T	50863468	T	T	50863468	3	4	157	1	0	0	0	0	1	0	0	0	3316	652	23	1	1907	1	CHAT	10	50863468	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	176990	50863468	84671279	762	86322											
DKK1	22943	broad.mit.edu	37	chr10	54074806	54074806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgccgaaaacgctgcatgCgtcacgctatgtgctgcccc	8	7	11	15	5	1	0	1	0	0	0	1	1	1	0	3	0	6	4	3	0	3	1	rs138015066		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:54074806C>T	uc001jjr.2	+	2	521	c.367C>T	c.(367-369)CGT>TGT	p.R123C	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	123	DKK-type Cys-1.				negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						ACGCTGCATGCGTCACGCTAT	0.562											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	36					0	0	0.00499	0	0		T	54074806	T	T	54074806	3	4	157	1	0	0	0	0	1	0	0	0	4550	768	27	1	373	1	DKK1	10	54074806	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3211338	54074806	81459941	763	86323											
ANK3	288	broad.mit.edu	37	chr10	61941099	61941099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtatacctttgtctgggcGtccacatgagccccttggtt	5	13	10	13	2	1	1	0	1	1	0	2	1	2	1	5	2	2	2	5	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:61941099G>A	uc001jky.2	-	18	2364	c.2172C>T	c.(2170-2172)GAC>GAT	p.D724D	ANK3_uc010qih.1_Silent_p.D707D|ANK3_uc001jkz.3_Silent_p.D718D|ANK3_uc001jlb.1_Silent_p.D253D|ANK3_uc001jlc.1_Silent_p.D385D	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	724	ANK 20.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTGTCTGGGCGTCCACATGAG	0.493													19	249					0	0	0.008871	0	0		A	61941099	A	A	61941099	2	1	157	1	0	0	0	0	0	0	0	1	622	1136	40	1		1	ANK3	10	61941099	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7866293	61941099	73593648	764	86324											
HKDC1	80201	broad.mit.edu	37	chr10	71020998	71020998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgagggcagatttcagagCgtctccggaccaggggcatc	8	7	14	12	3	2	2	1	0	1	2	5	4	3	3	3	4	1	2	3	4	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:71020998C>T	uc001jpf.3	+	16	2453	c.2320C>T	c.(2320-2322)CGT>TGT	p.R774C	HKDC1_uc010qje.1_Missense_Mutation_p.R637C|HKDC1_uc009xqb.2_RNA	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1	774					glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						GATTTCAGAGCGTCTCCGGAC	0.542													17	75					0	0	0.004007	0	0		T	71020998	T	T	71020998	3	4	157	1	0	0	0	0	1	0	0	0	7209	768	27	1	2382	1	HKDC1	10	71020998	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	9079899	71020998	64513749	765	86325											
HK1	3098	broad.mit.edu	37	chr10	71139778	71139778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgccatcttgaaccgcctgCgtgataacaagggcacaccc	10	6	10	15	3	1	2	0	2	1	0	1	2	1	2	4	1	3	1	4	1	3	2	rs142724189		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:71139778C>T	uc001jpl.3	+	9	1293	c.1192C>T	c.(1192-1194)CGT>TGT	p.R398C	HK1_uc001jpg.3_Missense_Mutation_p.R386C|HK1_uc001jph.3_Missense_Mutation_p.R402C|HK1_uc001jpi.3_Missense_Mutation_p.R402C|HK1_uc001jpj.3_Missense_Mutation_p.R433C|HK1_uc001jpk.3_Missense_Mutation_p.R397C|HK1_uc009xqd.2_Missense_Mutation_p.R276C	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	398	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						GAACCGCCTGCGTGATAACAA	0.562													4	127					0	0	0.001984	0	0		T	71139778	T	T	71139778	3	4	157	1	0	0	0	0	1	0	0	0	7206	768	27	1	1404	1	HK1	10	71139778	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	118780	71139778	64394969	766	86326											
PSAP	5660	broad.mit.edu	37	chr10	73577214	73577214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcctagttccacacatggCgtttgcaatgctcgacagcc	8	10	8	15	2	0	0	0	0	0	0	3	1	2	0	4	1	3	4	4	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:73577214C>T	uc001jsm.2	-	14	1663	c.1559G>A	c.(1558-1560)CGC>CAC	p.R520H	PSAP_uc001jsl.2_Missense_Mutation_p.R244H	NM_002778	NP_002769	P07602	SAP_HUMAN	prosaposin isoform a preproprotein	520	Saposin A-type 2.				glycosphingolipid metabolic process|lipid transport|platelet activation|platelet degranulation	extracellular space|Golgi apparatus|integral to membrane|lysosomal lumen	enzyme activator activity|lipid binding			ovary(1)	1						CCACACATGGCGTTTGCAATG	0.483													29	200					0	0	0.00632	0	0		T	73577214	T	T	73577214	3	4	157	1	0	0	0	0	1	0	0	0	12665	768	27	1	19	1	PSAP	10	73577214	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2437436	73577214	61957533	767	86327											
CBARA1	10367	broad.mit.edu	37	chr10	74135630	74135630	+	Missense_Mutation	SNP	A	G	G	1	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	tggccacctgctgcatggtcActgaaaaaagaaagaggtgc	13	7	12	9	0	1	3	1	1	0	2	1	3	1	3	2	3	3	2	2	3	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:74135630A>G	uc001jtb.1	-	12	1320	c.1187T>C	c.(1186-1188)GTG>GCG	p.V396A	CBARA1_uc010qjw.1_Missense_Mutation_p.V196A|CBARA1_uc010qjx.1_Missense_Mutation_p.V196A|CBARA1_uc009xqo.1_RNA	NM_006077	NP_006068	Q9BPX6	MICU1_HUMAN	calcium binding atopy-related autoantigen 1	394					calcium ion import|defense response|elevation of mitochondrial calcium ion concentration	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			ovary(1)	1						CTGCATGGTCACTGAAAAAAG	0.463													3	20					0	0	0.004672	0	0		G	74135630	G	G	74135630	3	3	157	1	0	0	0	0	1	0	0	0	2699	173	6	3	257	3	CBARA1	10	74135630	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	558416	74135630	61399117	768	86328											
USP54	159195	broad.mit.edu	37	chr10	75296060	75296060	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgtagcatgtcctgctgtAtgactggaactcagcttggg	7	12	13	9	1	1	1	1	1	0	0	3	2	2	2	1	2	4	5	1	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:75296060A>G	uc001juo.2	-	9	1128	c.1111T>C	c.(1111-1113)TAC>CAC	p.Y371H	USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Missense_Mutation_p.Y371H|USP54_uc010qkl.1_Missense_Mutation_p.Y371H|USP54_uc001juq.1_Missense_Mutation_p.Y164H	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	371					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					GTCCTGCTGTATGACTGGAAC	0.547													18	77					0	0	0.006122	0	0		G	75296060	G	G	75296060	3	3	157	1	0	0	0	0	1	0	0	0	17111	449	16	3	3999	3	USP54	10	75296060	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1160430	75296060	60238687	769	86329											
ADK	132	broad.mit.edu	37	chr10	76074474	76074474	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcgaatatcatgctggtggcTctacccagaattcaattaaa	13	12	7	9	1	3	1	2	0	1	1	4	2	3	1	1	2	2	2	1	2	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:76074474T>G	uc001jwi.2	+	4	316	c.244T>G	c.(244-246)TCT>GCT	p.S82A	ADK_uc010qlb.1_Missense_Mutation_p.S82A|ADK_uc001jwj.2_Missense_Mutation_p.S65A|ADK_uc010qlc.1_Missense_Mutation_p.S47A	NM_006721	NP_006712	P55263	ADK_HUMAN	adenosine kinase isoform b	82					purine base metabolic process|purine ribonucleoside salvage	cytosol	adenosine kinase activity|ATP binding|metal ion binding|phosphotransferase activity, alcohol group as acceptor			ovary(1)|skin(1)	2	Prostate(51;0.0112)|Ovarian(15;0.148)				Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Pegademase bovine(DB00061)|Ribavirin(DB00811)	TGCTGGTGGCTCTACCCAGAA	0.323													22	60					0	0	0.012319	0	0		G	76074474	G	G	76074474	3	3	157	1	0	0	0	0	1	0	0	0	320	1551	54	5	276	5	ADK	10	76074474	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	778414	76074474	59460273	770	86330											
MYST4	23522	broad.mit.edu	37	chr10	76784854	76784854	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	atgaagagaggccaatgccaCagctggagcctacctgtgag	12	6	13	10	0	0	3	0	2	0	1	0	5	0	4	4	2	4	1	4	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:76784854C>T	uc001jwn.1	+	17	4004	c.3511C>T	c.(3511-3513)CAG>TAG	p.Q1171*	MYST4_uc001jwo.1_Nonsense_Mutation_p.Q879*|MYST4_uc001jwp.1_Nonsense_Mutation_p.Q988*	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1171					histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					GCCAATGCCACAGCTGGAGCC	0.488			T	CREBBP	AML								8	75					0	0	0.004482	0	0		T	76784854	T	T	76784854	4	4	157	1	0	0	0	0	0	1	0	0	10123	479	17	4	3569	4	MYST4	10	76784854	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	710380	76784854	58749893	771	86331											
SAMD8	142891	broad.mit.edu	37	chr10	76910646	76910646	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagctttcccatgactgtgaCggacccataactgacttgaa	11	10	9	11	1	0	4	0	4	0	0	1	6	1	5	2	1	2	1	2	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:76910646C>T	uc001jwx.1	+	2	463	c.360C>T	c.(358-360)GAC>GAT	p.D120D	SAMD8_uc001jwy.1_Silent_p.D120D	NM_144660	NP_653261	Q96LT4	SAMD8_HUMAN	sterile alpha motif domain containing 8	120					sphingomyelin biosynthetic process	integral to membrane					0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					ATGACTGTGACGGACCCATAA	0.453													17	140					0	0	0.004007	0	0		T	76910646	T	T	76910646	2	4	157	1	0	0	0	0	0	0	0	1	13850	535	19	1		1	SAMD8	10	76910646	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	125792	76910646	58624101	772	86332											
ACTA2	59	broad.mit.edu	37	chr10	90699305	90699305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtctctgggcagcggaaaCgttcatttccgatggtgatc	7	11	14	9	3	2	1	1	1	1	0	5	3	3	2	1	4	2	2	1	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:90699305C>T	uc001kfp.2	-	7	883	c.767G>A	c.(766-768)CGT>CAT	p.R256H	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Missense_Mutation_p.R211H|ACTA2_uc001kfq.2_Missense_Mutation_p.R256H|uc001kfo.1_RNA	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	256					response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		GCAGCGGAAACGTTCATTTCC	0.517													34	141					0	0	0.003271	0	0		T	90699305	T	T	90699305	3	4	157	1	0	0	0	0	1	0	0	0	192	536	19	1	378	1	ACTA2	10	90699305	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	13788659	90699305	44835442	773	86333											
IFIT2	3433	broad.mit.edu	37	chr10	91066258	91066258	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctggactggcaatagcaaGctaccgtctggacaactggc	10	8	11	12	1	2	0	0	0	2	0	2	2	2	2	1	4	4	3	1	4	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:91066258G>T	uc009xts.2	+	2	720	c.545G>T	c.(544-546)AGC>ATC	p.S182I	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron	NM_001547	NP_001538	P09913	IFIT2_HUMAN	interferon-induced protein with	182	TPR 3.				negative regulation of protein binding|response to virus|type I interferon-mediated signaling pathway		protein binding			ovary(1)|skin(1)	2		Colorectal(252;0.0161)				GCAATAGCAAGCTACCGTCTG	0.502													8	58					1.06961e-07	1.13269e-07	0.00308	1	0		T	91066258	T	T	91066258	3	4	157	1	0	0	0	0	1	0	0	0	7539	971	34	5	551	5	IFIT2	10	91066258	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	366953	91066258	44468489	774	86334											
KIF20B	9585	broad.mit.edu	37	chr10	91478615	91478615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgtattgaagttctccGccattgcacaaaaagtaaat	15	12	6	8	1	2	1	1	1	1	0	3	1	2	1	2	0	1	4	2	0	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:91478615G>A	uc001kgs.1	+	12	1492	c.1420G>A	c.(1420-1422)GCC>ACC	p.A474T	KIF20B_uc001kgr.1_Missense_Mutation_p.A474T	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	474					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						GAAGTTCTCCGCCATTGCACA	0.254													25	87					0	0	0.00333	0	0		A	91478615	A	A	91478615	3	1	157	1	0	0	0	0	1	0	0	0	8303	1087	38	1	1462	1	KIF20B	10	91478615	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	412357	91478615	44056132	775	86335											
ANKRD1	27063	broad.mit.edu	37	chr10	92672639	92672639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcctcagaatgtagctatgCgagaggtcttgtaggagttc	9	12	13	7	1	2	2	1	0	1	2	3	4	2	3	1	2	3	4	1	2	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:92672639C>T	uc001khe.1	-	9	1192	c.944G>A	c.(943-945)CGC>CAC	p.R315H		NM_014391	NP_055206	Q15327	ANKR1_HUMAN	cardiac ankyrin repeat protein	315	ANK 5.				cellular lipid metabolic process|defense response|signal transduction		DNA binding				0		Colorectal(252;0.0475)				TGTAGCTATGCGAGAGGTCTT	0.468													55	277					0	0	0.01441	0	0		T	92672639	T	T	92672639	3	4	157	1	0	0	0	0	1	0	0	0	637	768	27	1	19	1	ANKRD1	10	92672639	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1194024	92672639	42862108	776	86336											
HHEX	3087	broad.mit.edu	37	chr10	94452213	94452213	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctccaacgaccagaccatCgagctggagaagaaattcga	14	7	9	11	3	1	3	0	0	1	3	4	7	1	3	3	1	2	1	3	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:94452213C>T	uc001kid.2	+	2	513	c.450C>T	c.(448-450)ATC>ATT	p.I150I		NM_002729	NP_002720	Q03014	HHEX_HUMAN	hematopoietically expressed homeobox	150	Homeobox.				anterior/posterior pattern formation|B cell differentiation|cell cycle|DNA conformation change|negative regulation of angiogenesis|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of vascular endothelial growth factor receptor signaling pathway|poly(A)+ mRNA export from nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein localization to nucleus|Wnt receptor signaling pathway	cytoplasm|nucleus|protein-DNA complex	DNA bending activity|eukaryotic initiation factor 4E binding|protein homodimerization activity|repressing transcription factor binding|sequence-specific DNA binding|TBP-class protein binding|transcription regulatory region DNA binding			ovary(1)	1						ACCAGACCATCGAGCTGGAGA	0.572													8	51					0	0	0.004482	0	0		T	94452213	T	T	94452213	2	4	157	1	0	0	0	0	0	0	0	1	7107	874	31	1		1	HHEX	10	94452213	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1779574	94452213	41082534	777	86337											
MYOF	26509	broad.mit.edu	37	chr10	95111464	95111464	+	Silent	SNP	A	G	G	1	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	tccatgataactttgggtggAttctgtagaactgtttgggg	8	15	13	5	0	1	2	0	1	1	1	2	3	2	3	1	4	2	2	1	4	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:95111464A>G	uc001kin.2	-	33	3744	c.3621T>C	c.(3619-3621)AAT>AAC	p.N1207N	MYOF_uc001kio.2_Silent_p.N1194N|MYOF_uc009xue.2_RNA	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a	1207	Cytoplasmic (Potential).|C2 4.				blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						CTTTGGGTGGATTCTGTAGAA	0.408													11	136					0	0	0.010729	0	0		G	95111464	G	G	95111464	2	3	157	1	0	0	0	0	0	0	0	1	10107	330	12	3		3	MYOF	10	95111464	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	659251	95111464	40423283	778	86338											
LGI1	9211	broad.mit.edu	37	chr10	95518094	95518094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatccattccacgcaccGttcctcctgatgttatctca	8	12	5	16	2	1	2	1	1	1	1	6	2	5	2	6	0	0	3	6	0	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:95518094G>A	uc001kjc.3	+	1	529	c.193G>A	c.(193-195)GTT>ATT	p.V65I	LGI1_uc010qnv.1_Missense_Mutation_p.V65I|LGI1_uc001kjd.3_Missense_Mutation_p.V65I|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_RNA	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	65	LRRNT.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				TCCACGCACCGTTCCTCCTGA	0.438													47	160					0	0	0.01441	0	0		A	95518094	A	A	95518094	3	1	157	1	0	0	0	0	1	0	0	0	8767	1145	40	1	195	1	LGI1	10	95518094	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	406630	95518094	40016653	779	86339											
COX15	1355	broad.mit.edu	37	chr10	101486739	101486739	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttacctggaagcagacgaGgccacagagggcaagaacac	14	4	12	11	1	1	3	0	0	1	3	1	5	1	4	2	3	3	2	2	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:101486739G>T	uc001kqb.3	-	4	1185	c.568C>A	c.(568-570)CTC>ATC	p.L190I	COX15_uc001kqc.3_Missense_Mutation_p.L190I|COX15_uc010qpj.1_Missense_Mutation_p.L11I	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	190	Helical; (Potential).				heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		AAGCAGACGAGGCCACAGAGG	0.458													10	84					4.68919e-08	4.97508e-08	0.008291	1	0		T	101486739	T	T	101486739	3	4	157	1	0	0	0	0	1	0	0	0	3767	1000	35	5	758	5	COX15	10	101486739	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5968645	101486739	34048008	780	86340											
COX15	1355	broad.mit.edu	37	chr10	101489383	101489383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccatcggcccaccacccGctcagcagcctttgagggaa	9	5	11	16	2	1	1	1	1	0	0	2	3	1	2	5	2	3	2	5	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:101489383G>A	uc001kqb.3	-	2	816	c.199C>T	c.(199-201)CGG>TGG	p.R67W	COX15_uc001kqc.3_Missense_Mutation_p.R67W|COX15_uc010qpj.1_5'UTR|CUTC_uc010qpk.1_5'Flank|CUTC_uc001kqd.3_5'Flank|CUTC_uc001kqe.3_5'Flank	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	67					heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		CCCACCACCCGCTCAGCAGCC	0.542													44	168					0	0	0.01441	0	0		A	101489383	A	A	101489383	3	1	157	1	0	0	0	0	1	0	0	0	3767	1086	38	1	1135	1	COX15	10	101489383	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2644	101489383	34045364	781	86341											
LBX1	10660	broad.mit.edu	37	chr10	102987152	102987152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgcccggggccttcggggCgcctggggggaggaccggag	4	3	22	12	5	0	0	0	0	0	0	1	3	0	3	4	9	1	0	4	9	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:102987152C>T	uc001ksx.2	-	2	866	c.721G>A	c.(721-723)GCC>ACC	p.A241T	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	241					muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		GCCTTCGGGGCGCCTGGGGGG	0.751													4	11					0	0	0.009096	0	0		T	102987152	T	T	102987152	3	4	157	1	0	0	0	0	1	0	0	0	8669	768	27	1	128	1	LBX1	10	102987152	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1497769	102987152	32547595	782	86342											
NFKB2	4791	broad.mit.edu	37	chr10	104160088	104160088	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgagtgtggtgagctttctGctgcgggtaggtgcagaccc	6	10	16	9	2	1	2	0	1	1	1	1	3	1	2	1	3	4	4	1	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:104160088G>T	uc001kvb.2	+	16	1903	c.1638G>T	c.(1636-1638)CTG>CTT	p.L546L	NFKB2_uc001kva.2_Silent_p.L546L|NFKB2_uc001kvd.2_Silent_p.L546L|NFKB2_uc009xxc.2_Silent_p.L546L	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	546	ANK 2.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		TGAGCTTTCTGCTGCGGGTAG	0.657			T	IGH@	B-NHL								14	97					1.00905e-13	1.09324e-13	0.008871	1	0		T	104160088	T	T	104160088	2	4	157	1	0	0	0	0	0	0	0	1	10395	1306	46	5		5	NFKB2	10	104160088	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1172936	104160088	31374659	783	86343											
CNNM2	54805	broad.mit.edu	37	chr10	104678648	104678648	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggagcgcgggctggggggCcccgcgccgccagagccgga	4	1	22	14	6	0	1	0	0	0	1	0	3	0	3	5	7	2	1	5	7	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:104678648C>G	uc001kwm.2	+	1	535	c.411C>G	c.(409-411)GGC>GGG	p.G137G	CNNM2_uc001kwn.2_Silent_p.G137G|CNNM2_uc001kwl.2_Silent_p.G137G	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	137					ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		ggctggggggccccgcgccgc	0.522													11	21					0	0	0.010729	0	0		G	104678648	G	G	104678648	2	3	157	1	0	0	0	0	0	0	0	1	3616	726	26	5		5	CNNM2	10	104678648	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	518560	104678648	30856099	784	86344											
CALHM1	255022	broad.mit.edu	37	chr10	105215212	105215212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttctccctttcctcctccGcaccatcgggggtcgtgggg	2	11	12	16	3	1	0	0	0	1	0	7	0	4	0	5	4	0	2	5	4	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:105215212G>A	uc001kxe.2	-	2	988	c.848C>T	c.(847-849)GCG>GTG	p.A283V	CALHM2_uc001kxd.1_5'Flank	NM_001001412	NP_001001412	Q8IU99	CAHM1_HUMAN	calcium homeostasis modulator 1	283						endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel activity|identical protein binding			ovary(1)	1						TTCCTCCTCCGCACCATCGGG	0.642													5	26					0	0	0.000602	0	0		A	105215212	A	A	105215212	3	1	157	1	0	0	0	0	1	0	0	0	2585	1087	38	1	196	1	CALHM1	10	105215212	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	536564	105215212	30319535	785	86345											
COL17A1	1308	broad.mit.edu	37	chr10	105809853	105809853	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgacagactgacctgtgaGgcctcgaggtcctttctcac	8	10	10	13	1	1	4	1	3	1	1	4	5	2	4	3	2	0	0	3	2	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:105809853G>T	uc001kxr.2	-	28	2327	c.2158C>A	c.(2158-2160)CTC>ATC	p.L720I	MIR936_hsa-mir-936|MI0005758_5'Flank	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	720	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		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)		TGACCTGTGAGGCCTCGAGGT	0.463													12	42					1.49906e-05	1.5591e-05	0.00245	1	0		T	105809853	T	T	105809853	3	4	157	1	0	0	0	0	1	0	0	0	3677	1000	35	5	2451	5	COL17A1	10	105809853	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	594641	105809853	29724894	786	86346											
SORCS1	114815	broad.mit.edu	37	chr10	108923852	108923852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggctttgtccgggtcccGctcccgagtcccaggctcct	2	10	13	16	3	0	0	0	0	0	0	5	1	5	0	5	4	0	3	5	4	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:108923852G>A	uc001kym.2	-	1	441	c.433C>T	c.(433-435)CGG>TGG	p.R145W	SORCS1_uc001kyl.2_Missense_Mutation_p.R145W|SORCS1_uc009xxs.2_Missense_Mutation_p.R145W|SORCS1_uc001kyn.1_Missense_Mutation_p.R145W|SORCS1_uc001kyo.2_Missense_Mutation_p.R145W	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	145	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCCGGGTCCCGCTCCCGAGTC	0.657													27	40					0	0	0.009535	0	0		A	108923852	A	A	108923852	3	1	157	1	0	0	0	0	1	0	0	0	14955	1086	38	1	3411	1	SORCS1	10	108923852	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3113999	108923852	26610895	787	86347											
ADD3	120	broad.mit.edu	37	chr10	111878421	111878421	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaccatacaggattcagtcCccatgctgcaatctattcaa	12	11	6	12	0	3	1	2	1	1	0	4	2	4	2	3	1	3	2	3	1	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:111878421C>A	uc001kyt.3	+	7	958	c.644C>A	c.(643-645)CCC>CAC	p.P215H	ADD3_uc001kys.3_Missense_Mutation_p.P215H|ADD3_uc001kyu.2_Missense_Mutation_p.P215H|ADD3_uc001kyv.2_Missense_Mutation_p.P215H|ADD3_uc001kyw.2_Missense_Mutation_p.P215H	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	215						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		GGATTCAGTCCCCATGCTGCA	0.403													50	96					1.61863e-15	1.77073e-15	0.01441	1	0		A	111878421	A	A	111878421	3	1	157	1	0	0	0	0	1	0	0	0	306	623	22	5	662	5	ADD3	10	111878421	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2954569	111878421	23656326	788	86348											
SMC3	9126	broad.mit.edu	37	chr10	112338430	112338430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaaagcgctggtttttctcGaagcaatccttattatattg	10	16	8	7	2	1	1	0	1	1	0	3	2	2	1	1	1	2	3	1	1	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:112338430G>A	uc001kze.2	+	7	521	c.395G>A	c.(394-396)CGA>CAA	p.R132Q		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	132					cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		GGTTTTTCTCGAAGCAATCCT	0.303													10	37					0	0	0.008291	0	0		A	112338430	A	A	112338430	3	1	157	1	0	0	0	0	1	0	0	0	14809	1058	37	1	421	1	SMC3	10	112338430	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	460009	112338430	23196317	789	86349											
PNLIPRP2	5408	broad.mit.edu	37	chr10	118404543	118404543	+	Splice_Site	SNP	A	G	G	1	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	ctgacaatcttttcctccacAggtataatttttgtagcagc	10	15	6	10	0	1	1	0	1	1	0	3	1	3	1	2	1	2	3	2	1	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:118404543A>G	uc001lcq.2	+	16	1373	c.1350_splice	c.e16-2	p.E450_splice		NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2						galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		TTTCCTCCACAGGTATAATTT	0.438													18	35					0	0	0.00278	0	0		G	118404543	G	G	118404543	5	3	157	1	0	0	0	0	0	0	1	0	12170	202	7	3	1397	3	PNLIPRP2	10	118404543	Splice_Site	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6066113	118404543	17130204	790	86350											
KIAA1598	57698	broad.mit.edu	37	chr10	118700118	118700118	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagcttgttttgctcaatGaacatctgcaaaagtttgtt	10	18	7	6	0	2	1	1	1	1	0	2	1	2	1	0	0	4	6	0	0	5	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:118700118G>T	uc009xyw.2	-	9	1215	c.717C>A	c.(715-717)TTC>TTA	p.F239L	KIAA1598_uc001lcz.3_Missense_Mutation_p.F239L|KIAA1598_uc010qso.1_Missense_Mutation_p.F179L|KIAA1598_uc010qsp.1_Missense_Mutation_p.F239L|KIAA1598_uc010qsq.1_Missense_Mutation_p.F179L|KIAA1598_uc001lcy.3_Missense_Mutation_p.F209L	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	239	Potential.				axon guidance	axon					0				all cancers(201;0.00494)		TTTGCTCAATGAACATCTGCA	0.368													20	125					1.64113e-05	1.70581e-05	0.010504	1	0		T	118700118	T	T	118700118	3	4	157	1	0	0	0	0	1	0	0	0	8262	1281	45	5	1214	5	KIAA1598	10	118700118	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	295575	118700118	16834629	791	86351											
VAX1	11023	broad.mit.edu	37	chr10	118896101	118896101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccgcggtgaaggacgtgCgcgtcctcttaggccggtcc	4	8	15	14	6	1	1	0	1	1	0	4	2	4	2	4	4	1	1	4	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:118896101C>T	uc009xyx.2	-	2	556	c.311G>A	c.(310-312)CGC>CAC	p.R104H	VAX1_uc001ldb.1_Missense_Mutation_p.R104H	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	104	Homeobox.					nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		GAAGGACGTGCGCGTCCTCTT	0.652													13	45					0	0	0.013537	0	0		T	118896101	T	T	118896101	3	4	157	1	0	0	0	0	1	0	0	0	17160	768	27	1	841	1	VAX1	10	118896101	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	195983	118896101	16638646	792	86352											
EIF3A	8661	broad.mit.edu	37	chr10	120796733	120796733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcatccctctcacggcgacGgtcatccctatccctatcgt	6	11	7	17	4	3	0	3	0	1	0	8	1	6	0	3	2	0	0	3	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:120796733G>A	uc001ldu.2	-	21	3963	c.3817C>T	c.(3817-3819)CGT>TGT	p.R1273C	EIF3A_uc010qsu.1_Missense_Mutation_p.R1239C	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1273	Asp-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		TCACGGCGACGGTCATCCCTA	0.542													16	234					0	0	0.003163	0	0		A	120796733	A	A	120796733	3	1	157	1	0	0	0	0	1	0	0	0	5018	1116	39	1	339	1	EIF3A	10	120796733	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1900632	120796733	14738014	793	86353											
RGS10	6001	broad.mit.edu	37	chr10	121275031	121275031	+	Missense_Mutation	SNP	A	G	G	1	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	gtcgggttacctggtcctggAgtttctggaacatcagaggg	7	11	15	8	1	2	1	1	0	1	1	4	3	3	3	2	5	2	2	2	5	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:121275031A>G	uc001lee.2	-	3	365	c.365T>C	c.(364-366)CTC>CCC	p.L122P	RGS10_uc001lef.2_Missense_Mutation_p.L116P|RGS10_uc001leg.2_Missense_Mutation_p.L130P	NM_002925	NP_002916	O43665	RGS10_HUMAN	regulator of G-protein signaling 10 isoform b	122	RGS.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|protein binding|signal transducer activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.00105)|GBM - Glioblastoma multiforme(135;0.195)		CTGGTCCTGGAGTTTCTGGAA	0.507													20	68					0	0	0.010504	0	0		G	121275031	G	G	121275031	3	3	157	1	0	0	0	0	1	0	0	0	13318	304	11	3	164	3	RGS10	10	121275031	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	478298	121275031	14259716	794	86354											
C10orf119	79892	broad.mit.edu	37	chr10	121618608	121618608	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcccatgtaaaactcagggTcaaacatatcctgaatcatg	14	10	6	11	0	3	1	3	1	0	0	5	1	5	1	2	1	2	1	2	1	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:121618608T>C	uc001ler.2	-	3	528	c.230A>G	c.(229-231)GAC>GGC	p.D77G	C10orf119_uc001les.1_5'UTR	NM_024834	NP_079110	Q9BTE3	MCMBP_HUMAN	chromosome 10 open reading frame 119	77					cell division|DNA-dependent DNA replication|mitosis|S phase of mitotic cell cycle|sister chromatid cohesion	nucleus	chromatin binding				0		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.0044)		AAACTCAGGGTCAAACATATC	0.333													18	95					0	0	0.006122	0	0		C	121618608	C	C	121618608	3	2	157	1	0	0	0	0	1	0	0	0	1591	1667	58	3	1754	3	C10orf119	10	121618608	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	343577	121618608	13916139	795	86355											
FGFR2	2263	broad.mit.edu	37	chr10	123279676	123279676	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tggaggatgggccggtgaggCgatcgctctggtggagagag	7	7	21	6	3	1	2	0	1	1	1	2	7	1	5	1	7	0	1	1	7	0	0	rs138769323		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:123279676C>T	uc010qtk.1	-	7	1403	c.756G>A	c.(754-756)TCG>TCA	p.S252S	FGFR2_uc010qtg.1_Intron|FGFR2_uc010qth.1_Silent_p.S137S|FGFR2_uc010qti.1_Silent_p.S163S|FGFR2_uc010qtj.1_Silent_p.S252S|FGFR2_uc010qtl.1_Silent_p.S252S|FGFR2_uc010qtm.1_Silent_p.S137S|FGFR2_uc001lfl.3_Silent_p.S252S|FGFR2_uc001lfm.2_Silent_p.S163S|FGFR2_uc001lfn.3_RNA|FGFR2_uc010qtn.1_Silent_p.S271S|FGFR2_uc010qto.1_Silent_p.S156S|FGFR2_uc001lfo.1_Silent_p.S271S|FGFR2_uc010qtp.1_Silent_p.S271S|FGFR2_uc001lfg.3_5'Flank	NM_000141	NP_000132	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 1	252	Extracellular (Potential).		S -> W (in APRS and PS; common mutation).|S -> F (in APRS; requires 2 nucleotide substitutions).|S -> L (in CS).|SP -> FS (in PS).		angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of mesenchymal cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding	p.S252W(19)		endometrium(44)|skin(28)|lung(11)|ovary(4)|cervix(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|soft_tissue(1)|central_nervous_system(1)	96		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Palifermin(DB00039)	GCCGGTGAGGCGATCGCTCTG	0.562		5	Mis		gastric. NSCLC|endometrial		Crouzon|Pfeiffer|and Apert syndromes		Apert_syndrome|Saethre-Chotzen_syndrome				3	40					0	0	0.004672	0	0		T	123279676	T	T	123279676	2	4	157	1	0	0	0	0	0	0	0	1	5880	755	27	1		1	FGFR2	10	123279676	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1661068	123279676	12255071	796	86356											
TACC2	10579	broad.mit.edu	37	chr10	123843197	123843197	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gttgtctgtgtggcagcaggCggccagcccgaagggggttt	5	9	18	9	2	1	0	0	0	1	0	1	1	1	0	2	5	2	4	2	5	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:123843197C>T	uc001lfv.2	+	4	1542	c.1182C>T	c.(1180-1182)GGC>GGT	p.G394G	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Silent_p.G394G|TACC2_uc010qtv.1_Silent_p.G394G	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	394						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				TGGCAGCAGGCGGCCAGCCCG	0.592													22	75					0	0	0.010504	0	0		T	123843197	T	T	123843197	2	4	157	1	0	0	0	0	0	0	0	1	15527	755	27	1		1	TACC2	10	123843197	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	563521	123843197	11691550	797	86357											
C10orf90	118611	broad.mit.edu	37	chr10	128150089	128150089	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgctggggagggctcaggtgTggtggggtcctcactcttct	3	12	17	9	0	4	0	2	0	2	0	5	1	5	1	1	7	1	2	1	7	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:128150089T>C	uc001ljq.2	-	5	1721	c.1600A>G	c.(1600-1602)ACA>GCA	p.T534A	C10orf90_uc001ljp.2_Missense_Mutation_p.T390A|C10orf90_uc010qum.1_Missense_Mutation_p.T631A|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	534										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GGCTCAGGTGTGGTGGGGTCC	0.542													8	38					0	0	0.00308	0	0		C	128150089	C	C	128150089	3	2	157	1	0	0	0	0	1	0	0	0	1626	1696	59	3	519	3	C10orf90	10	128150089	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4306892	128150089	7384658	798	86358											
MKI67	4288	broad.mit.edu	37	chr10	129903773	129903773	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgcttgttggagtgtccaTtgattctggtggtggagatt	5	17	15	4	0	1	2	0	1	1	1	2	4	2	3	1	4	1	2	1	4	0	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:129903773T>C	uc001lke.2	-	13	6526	c.6331A>G	c.(6331-6333)ATG>GTG	p.M2111V	MKI67_uc001lkf.2_Missense_Mutation_p.M1751V|MKI67_uc009yav.1_Missense_Mutation_p.M1686V|MKI67_uc009yaw.1_Missense_Mutation_p.M1261V	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2111	16 X 122 AA approximate repeats.|10.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GGAGTGTCCATTGATTCTGGT	0.498													40	681					0	0	0.01441	0	0		C	129903773	C	C	129903773	3	2	157	1	0	0	0	0	1	0	0	0	9616	1493	52	3	3451	3	MKI67	10	129903773	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1753684	129903773	5630974	799	86359											
MKI67	4288	broad.mit.edu	37	chr10	129904519	129904519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtccgctgggtctgattgcGgagatttgcagagtattttt	6	16	13	6	2	1	3	0	1	1	2	2	4	2	3	1	2	2	3	1	2	1	5	rs138689138		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:129904519G>A	uc001lke.2	-	13	5780	c.5585C>T	c.(5584-5586)CCG>CTG	p.P1862L	MKI67_uc001lkf.2_Missense_Mutation_p.P1502L|MKI67_uc009yav.1_Missense_Mutation_p.P1437L|MKI67_uc009yaw.1_Missense_Mutation_p.P1012L	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1862	16 X 122 AA approximate repeats.|8.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GTCTGATTGCGGAGATTTGCA	0.458													114	468					0	0	0.01441	0	0		A	129904519	A	A	129904519	3	1	157	1	0	0	0	0	1	0	0	0	9616	1116	39	1	4197	1	MKI67	10	129904519	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	746	129904519	5630228	800	86360											
CYP2E1	1571	broad.mit.edu	37	chr10	135347279	135347279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaaagcacagtgcagagcGcttgtacacaatggacggta	14	6	13	8	2	0	1	0	0	0	1	0	3	0	3	0	3	4	5	0	3	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:135347279G>A	uc001lnj.1	+	6	878	c.845G>A	c.(844-846)CGC>CAC	p.R282H	CYP2E1_uc001lnk.1_Missense_Mutation_p.R145H|CYP2E1_uc009ybl.1_Missense_Mutation_p.R83H|CYP2E1_uc009ybm.1_Intron|CYP2E1_uc001lnl.1_Missense_Mutation_p.R83H	NM_000773	NP_000764	P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E,	282					drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|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|oxygen binding			central_nervous_system(3)	3		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)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	AGTGCAGAGCGCTTGTACACA	0.562									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				25	106					0	0	0.004656	0	0		A	135347279	A	A	135347279	3	1	157	1	0	0	0	0	1	0	0	0	4173	1087	38	1	867	1	CYP2E1	10	135347279	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5442760	135347279	187468	801	86361											
FRG2B	441581	broad.mit.edu	37	chr10	135438851	135438851	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtaagtggagaatggatctGctgtgcccacacctgggcta	9	9	14	9	0	1	1	0	0	1	1	1	3	1	2	2	4	2	3	2	4	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr10:135438851G>T	uc010qvg.1	-	4	642	c.589C>A	c.(589-591)CAG>AAG	p.Q197K		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	197						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		GAATGGATCTGCTGTGCCCAC	0.557													25	137					9.80776e-20	1.08561e-19	0.00632	1	0		T	135438851	T	T	135438851	3	4	157	1	0	0	0	0	1	0	0	0	6061	1328	46	5	250	5	FRG2B	10	135438851	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	91572	135438851	95896	802	86362											
ANO9	338440	broad.mit.edu	37	chr11	429820	429821	+	Splice_Site	INS	-	G	G																															gtcaaagaggtgggtgagctINSgggggggtgataggtgggcc																										TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:429820_429821insG	uc001lpi.2	-	10	857	c.772_splice	c.e10-1	p.L258_splice	ANO9_uc001lph.2_5'UTR|ANO9_uc010qvv.1_Splice_Site_p.L114_splice	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5							chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						gtgggtgagctgggggggtgat	0.267													7	15	---	---	---	---						.	G	429821	G	G	429820	8	5	157	1	0	1	1	0	0	0	1	0	704	1594	55	0	1634	0	ANO9	11	429820	Splice_Site	INS	-	TCGA-CG-5728-01A-11D-1600-08		429820	134576696	803	86363											
RNH1	6050	broad.mit.edu	37	chr11	498463	498463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagccacactcaccacagcGactccagctggcagccaggt	11	4	9	17	1	1	0	1	0	0	0	2	1	2	0	4	2	4	2	4	2	0	0	rs150334174	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:498463G>A	uc001lpk.1	-	6	2358	c.950C>T	c.(949-951)TCG>TTG	p.S317L	RNH1_uc001lpl.1_Missense_Mutation_p.S317L|RNH1_uc001lpm.1_Missense_Mutation_p.S317L|RNH1_uc001lpn.1_Missense_Mutation_p.S317L|RNH1_uc001lpo.1_Missense_Mutation_p.S317L|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Missense_Mutation_p.S317L|RNH1_uc001lpt.1_Missense_Mutation_p.S74L|RNH1_uc001lpq.1_Missense_Mutation_p.S317L|RNH1_uc001lpr.1_Missense_Mutation_p.S317L|RNH1_uc001lps.1_Missense_Mutation_p.S317L	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	317	LRR 11.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		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;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TCACCACAGCGACTCCAGCTG	0.672													15	52					0	0	0.010504	0	0		A	498463	A	A	498463	3	1	157	1	0	0	0	0	1	0	0	0	13529	1059	37	1	451	1	RNH1	11	498463	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	68643	498463	134508053	804	86364											
DRD4	1815	broad.mit.edu	37	chr11	640597	640597	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaaggccctgcgtgcctgCtgctgagccgggcacccccg	4	5	14	18	4	0	1	0	1	0	0	0	1	0	1	5	2	5	4	5	2	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:640597C>G	uc001lqp.1	+	4	1254	c.1254C>G	c.(1252-1254)TGC>TGG	p.C418W		NM_000797	NP_000788	P21917	DRD4_HUMAN	dopamine receptor D4	466	Cytoplasmic (Potential).				activation of MAPK activity|adult locomotory behavior|arachidonic acid secretion|behavioral fear response|behavioral response to cocaine|behavioral response to ethanol|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of protein secretion|positive regulation of sodium:hydrogen antiporter activity|regulation of dopamine metabolic process|regulation of inhibitory postsynaptic membrane potential|response to amphetamine|response to histamine|social behavior	integral to plasma membrane	dopamine D4 receptor activity|drug binding|potassium channel regulator activity|SH3 domain binding				0		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)	Apomorphine(DB00714)|Clozapine(DB00363)|Olanzapine(DB00334)|Pramipexole(DB00413)|Promazine(DB00420)|Propiomazine(DB00777)|Ropinirole(DB00268)|Thiethylperazine(DB00372)|Ziprasidone(DB00246)	TGCGTGCCTGCTGCTGAGCCG	0.622													18	46					0	0	0.008871	0	0		G	640597	G	G	640597	3	3	157	1	0	0	0	0	1	0	0	0	4765	805	28	5	1268	5	DRD4	11	640597	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	142134	640597	134365919	805	86365											
MUC2	4583	broad.mit.edu	37	chr11	1075884	1075884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcaaggatgacaccatcTacctcacccgccacctggct	10	7	6	18	1	3	1	2	1	1	0	3	2	3	2	6	2	1	1	6	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:1075884T>C	uc001lsx.1	+	2	337	c.310T>C	c.(310-312)TAC>CAC	p.Y104H		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	104	VWFD 1.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	TGACACCATCTACCTCACCCG	0.632													5	7					0	0	0.001168	0	0		C	1075884	C	C	1075884	3	2	157	1	0	0	0	0	1	0	0	0	9993	1522	53	3	316	3	MUC2	11	1075884	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	435287	1075884	133930632	806	86366											
MUC2	4583	broad.mit.edu	37	chr11	1082685	1082685	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgcaccgccaagggcgtcaTgctgtggggctggcgggagc	5	6	18	12	3	1	0	1	0	0	0	1	1	1	1	2	5	3	3	2	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:1082685T>C	uc001lsx.1	+	15	1961	c.1934T>C	c.(1933-1935)ATG>ACG	p.M645T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	645						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AAGGGCGTCATGCTGTGGGGC	0.657													3	12					0	0	0.001984	0	0		C	1082685	C	C	1082685	3	2	157	1	0	0	0	0	1	0	0	0	9993	1464	51	3	1992	3	MUC2	11	1082685	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	6801	1082685	133923831	807	86367											
OR51B4	79339	broad.mit.edu	37	chr11	5322905	5322905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggtgaaacaggcagcatggGcaatctccctctggtctagc	9	8	13	11	0	3	1	0	1	3	0	4	1	3	1	1	4	3	3	1	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:5322905G>A	uc010qza.1	-	1	272	c.272C>T	c.(271-273)GCC>GTC	p.A91V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGCAGCATGGGCAATCTCCCT	0.502													13	127					0	0	0.00245	0	0		A	5322905	A	A	5322905	3	1	157	1	0	0	0	0	1	0	0	0	11109	1203	42	2	663	2	OR51B4	11	5322905	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4240220	5322905	129683611	808	86368											
UBQLN3	50613	broad.mit.edu	37	chr11	5528897	5528897	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcctgaagattggcttcaCgattcagaaagcccatggac	11	8	12	10	1	2	3	2	1	0	2	2	5	2	4	2	3	1	1	2	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:5528897C>T	uc001may.1	-	2	1978	c.1892G>A	c.(1891-1893)CGT>CAT	p.R631H	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	631	UBA.							p.R631G(1)		ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATTGGCTTCACGATTCAGAAA	0.527													19	70					0	0	0.008871	0	0		T	5528897	T	T	5528897	3	4	157	1	0	0	0	0	1	0	0	0	16924	536	19	1	79	1	UBQLN3	11	5528897	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	205992	5528897	129477619	809	86369											
UBQLN3	50613	broad.mit.edu	37	chr11	5529850	5529850	+	Silent	SNP	T	C	C	0	1	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	tgccttccttgcctgctaccTgagcctccatgtgtggaagt	5	13	10	13	0	0	1	0	1	0	0	2	2	2	2	6	1	5	1	6	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:5529850T>C	uc001may.1	-	2	1025	c.939A>G	c.(937-939)TCA>TCG	p.S313S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	313										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCTGCTACCTGAGCCTCCAT	0.507													30	132					0	0	0.010818	0	0		C	5529850	C	C	5529850	2	2	157	1	0	0	0	0	0	0	0	1	16924	1567	55	3		3	UBQLN3	11	5529850	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	953	5529850	129476666	810	86370											
CNGA4	1262	broad.mit.edu	37	chr11	6260711	6260711	+	Missense_Mutation	SNP	T	G	G	0	1	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	ataacctcatcatcctcgtgTgcaggtatggcagcggtgct	8	11	11	11	2	2	0	2	0	0	0	4	0	3	0	2	3	4	4	2	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:6260711T>G	uc001mco.2	+	2	267	c.160T>G	c.(160-162)TGC>GGC	p.C54G	CNGA4_uc010raa.1_Missense_Mutation_p.C14G|CNGA4_uc001mcn.2_Missense_Mutation_p.C14G	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	54	Helical; Name=H1; (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATCCTCGTGTGCAGGTATGG	0.547													11	213					0	0	0.010729	0	0		G	6260711	G	G	6260711	3	3	157	1	0	0	0	0	1	0	0	0	3602	1696	59	5	166	5	CNGA4	11	6260711	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	730861	6260711	128745805	811	86371											
SMPD1	6609	broad.mit.edu	37	chr11	6412983	6412983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagacccactgtgctgcCgccggggttctggcctgccg	3	8	15	15	3	1	1	0	0	1	1	1	1	1	1	5	3	4	3	5	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:6412983C>T	uc001mcw.2	+	2	862	c.688C>T	c.(688-690)CGC>TGC	p.R230C	SMPD1_uc001mcv.1_Intron|SMPD1_uc009yex.2_RNA|SMPD1_uc001mcx.2_Missense_Mutation_p.R230C|SMPD1_uc009yew.2_Missense_Mutation_p.R229C	NM_000543	NP_000534	P17405	ASM_HUMAN	sphingomyelin phosphodiesterase 1, acid	228			R -> C (in NPDB).|R -> H (in NPDA/NPDB; intermediate form).		cell death|ceramide biosynthetic process|negative regulation of MAP kinase activity|nervous system development|positive regulation of protein dephosphorylation|signal transduction|sphingomyelin catabolic process|termination of signal transduction	lysosome	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;4.9e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)	Desipramine(DB01151)	ACTGTGCTGCCGCCGGGGTTC	0.652													19	64					0	0	0.008871	0	0		T	6412983	T	T	6412983	3	4	157	1	0	0	0	0	1	0	0	0	14829	652	23	1	694	1	SMPD1	11	6412983	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	152272	6412983	128593533	812	86372											
DCHS1	8642	broad.mit.edu	37	chr11	6646598	6646598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagacacggcctccatagCggccaacactgaagggatcc	11	4	13	13	2	0	2	0	1	0	1	2	4	2	3	4	4	2	0	4	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:6646598C>T	uc001mem.1	-	19	7387	c.6977G>A	c.(6976-6978)CGC>CAC	p.R2326H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2326	Cadherin 22.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCTCCATAGCGGCCAACACT	0.602													25	68					0	0	0.00278	0	0		T	6646598	T	T	6646598	3	4	157	1	0	0	0	0	1	0	0	0	4290	768	27	1	2931	1	DCHS1	11	6646598	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	233615	6646598	128359918	813	86373											
DCHS1	8642	broad.mit.edu	37	chr11	6648368	6648368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcctgggcggggcagacGtaggcgcagaggactggtgg	6	4	23	8	3	0	2	0	0	0	2	0	3	0	3	1	9	0	3	1	9	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:6648368G>A	uc001mem.1	-	14	6312	c.5902C>T	c.(5902-5904)CGT>TGT	p.R1968C		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1968	Cadherin 19.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGGGGCAGACGTAGGCGCAGA	0.607													4	87					0	0	0.009096	0	0		A	6648368	A	A	6648368	3	1	157	1	0	0	0	0	1	0	0	0	4290	1145	40	1	4026	1	DCHS1	11	6648368	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1770	6648368	128358148	814	86374											
ST5	6764	broad.mit.edu	37	chr11	8739392	8739392	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattttcgtcctgctcttcGgctctttaagtccacatcct	5	16	7	13	2	2	0	0	0	2	0	7	1	5	1	3	2	1	2	3	2	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:8739392G>A	uc001mgt.2	-	5	1711	c.1525C>T	c.(1525-1527)CGA>TGA	p.R509*	ST5_uc009yfr.2_Nonsense_Mutation_p.R89*|ST5_uc001mgu.2_Nonsense_Mutation_p.R89*|ST5_uc001mgv.2_Nonsense_Mutation_p.R509*|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Nonsense_Mutation_p.R22*	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	509					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		CCTGCTCTTCGGCTCTTTAAG	0.522													10	80					0	0	0.008291	0	0		A	8739392	A	A	8739392	4	1	157	1	0	0	0	0	0	1	0	0	15245	1124	39	1	1952	1	ST5	11	8739392	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2091024	8739392	126267124	815	86375											
DENND5A	23258	broad.mit.edu	37	chr11	9202415	9202415	+	Missense_Mutation	SNP	T	C	C	0	1	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	atgcaaaggggagccagcaaTgttcccattcctcttgtccg	9	10	10	12	1	1	0	0	0	1	0	4	1	4	1	4	2	3	3	4	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:9202415T>C	uc001mhl.2	-	6	1609	c.1354A>G	c.(1354-1356)ATT>GTT	p.I452V	DENND5A_uc010rbw.1_Missense_Mutation_p.I452V|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	452										liver(1)	1						GAGCCAGCAATGTTCCCATTC	0.527													34	215					0	0	0.004289	0	0		C	9202415	C	C	9202415	3	2	157	1	0	0	0	0	1	0	0	0	4442	1464	51	3	2581	3	DENND5A	11	9202415	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	463023	9202415	125804101	816	86376											
FAR1	84188	broad.mit.edu	37	chr11	13750163	13750163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgatttgctttccaggttgCggaatatacgttatggtttt	7	19	10	5	2	0	1	0	1	0	0	1	2	1	2	1	3	3	4	1	3	4	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:13750163C>T	uc001mld.2	+	12	1545	c.1390C>T	c.(1390-1392)CGG>TGG	p.R464W		NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	464					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						TTCCAGGTTGCGGAATATACG	0.333													54	227					0	0	0.01441	0	0		T	13750163	T	T	13750163	3	4	157	1	0	0	0	0	1	0	0	0	5688	759	27	1	1432	1	FAR1	11	13750163	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4547748	13750163	121256353	817	86377											
SOX6	55553	broad.mit.edu	37	chr11	16340017	16340017	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcagtccgagtcatttcCtcaagcttcttctgtttcag	6	17	7	11	1	6	0	4	0	2	0	8	1	8	0	2	0	1	3	2	0	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:16340017C>A	uc001mme.2	-	3	492	c.459G>T	c.(457-459)GAG>GAT	p.E153D	SOX6_uc001mmd.2_Missense_Mutation_p.E143D|SOX6_uc001mmf.2_Missense_Mutation_p.E140D|SOX6_uc001mmg.2_Missense_Mutation_p.E140D|SOX6_uc001mmh.1_RNA|SOX6_uc009ygs.2_RNA|SOX6_uc001mmi.3_Missense_Mutation_p.E140D|SOX6_uc001mmj.2_Missense_Mutation_p.E140D	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	140					muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						GAGTCATTTCCTCAAGCTTCT	0.448													37	161					5.04308e-16	5.52415e-16	0.00623	1	0		A	16340017	A	A	16340017	3	1	157	1	0	0	0	0	1	0	0	0	14980	680	24	5	2164	5	SOX6	11	16340017	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2589854	16340017	118666499	818	86378											
ABCC8	6833	broad.mit.edu	37	chr11	17414551	17414551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggcaggtcacttgtctgcaCggacgaaggaggcgaagacg	10	6	16	9	4	2	1	1	0	1	1	2	5	2	3	0	5	1	2	0	5	2	1	rs143557848		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:17414551C>T	uc001mnc.2	-	39	4859	c.4733G>A	c.(4732-4734)CGT>CAT	p.R1578H		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1578	Cytoplasmic (By similarity).|ABC transporter 2.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CTTGTCTGCACGGACGAAGGA	0.552													8	111					0	0	0.006214	0	0		T	17414551	T	T	17414551	3	4	157	1	0	0	0	0	1	0	0	0	58	536	19	1	16	1	ABCC8	11	17414551	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1074534	17414551	117591965	819	86379											
ABCC8	6833	broad.mit.edu	37	chr11	17418493	17418493	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcgatgagggcattgacGtgcttcagcaccggcttcag	7	8	16	10	3	2	2	2	2	0	0	2	3	2	2	1	4	2	4	1	4	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:17418493G>A	uc001mnc.2	-	33	4215	c.4089C>T	c.(4087-4089)CAC>CAT	p.H1363H		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1363	Cytoplasmic (By similarity).|ABC transporter 2.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	GGGCATTGACGTGCTTCAGCA	0.617													7	77					0	0	0.00308	0	0		A	17418493	A	A	17418493	2	1	157	1	0	0	0	0	0	0	0	1	58	1136	40	1		1	ABCC8	11	17418493	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3942	17418493	117588023	820	86380											
TSG101	7251	broad.mit.edu	37	chr11	18531139	18531139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gataggatgccgaaataggaCgagagaagactggaggttca	15	6	15	5	2	1	2	1	0	0	2	1	9	1	5	1	4	1	1	1	4	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:18531139C>T	uc001mor.2	-	5	557	c.431G>A	c.(430-432)CGT>CAT	p.R144H	TSG101_uc001mos.1_Missense_Mutation_p.R92H|TSG101_uc009yhs.1_RNA	NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101	144	UEV.				cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						CGAAATAGGACGAGAGAAGAC	0.398													17	68					0	0	0.004007	0	0		T	18531139	T	T	18531139	3	4	157	1	0	0	0	0	1	0	0	0	16642	536	19	1	765	1	TSG101	11	18531139	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1112646	18531139	116475377	821	86381											
NAV2	89797	broad.mit.edu	37	chr11	20078096	20078096	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aatcatgggagaaaagttctGtggacaactttgtcagccgt	12	11	11	7	1	3	1	2	0	1	1	3	3	3	2	1	2	2	1	1	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:20078096G>A	uc010rdm.1	+	21	5282	c.4921G>A	c.(4921-4923)GTG>ATG	p.V1641M	NAV2_uc001mpp.2_Intron|NAV2_uc001mpr.3_Intron|NAV2_uc001mpt.2_Intron|NAV2_uc009yhx.2_Intron|NAV2_uc009yhy.1_Intron|NAV2_uc009yhz.2_Intron|NAV2_uc001mpu.2_Intron	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1641	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GAAAAGTTCTGTGGACAACTT	0.388													27	78					0	0	0.005443	0	0		A	20078096	A	A	20078096	3	1	157	1	0	0	0	0	1	0	0	0	10202	1392	48	4		4	NAV2	11	20078096	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1546957	20078096	114928420	822	86382											
LGR4	55366	broad.mit.edu	37	chr11	27390022	27390022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attggtgaagattagccaagCgacatgcttaatcatgctag	13	11	10	7	1	1	2	1	1	0	1	1	3	1	2	1	1	4	2	1	1	5	4	rs149204548	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:27390022C>T	uc001mrj.3	-	18	2733	c.2248G>A	c.(2248-2250)GCT>ACT	p.A750T	LGR4_uc001mrk.3_Missense_Mutation_p.A726T	NM_018490	NP_060960	Q9BXB1	LGR4_HUMAN	leucine-rich repeat-containing G protein-coupled	750	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			ovary(1)	1						ATTAGCCAAGCGACATGCTTA	0.388													79	221					0	0	0.01441	0	0		T	27390022	T	T	27390022	3	4	157	1	0	0	0	0	1	0	0	0	8772	768	27	1	611	1	LGR4	11	27390022	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7311926	27390022	107616494	823	86383											
HIPK3	10114	broad.mit.edu	37	chr11	33308272	33308272	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcacagcaagctcacgtGcaggcacctcagattggggc	10	5	13	13	1	2	1	2	0	0	1	2	1	2	1	1	4	3	5	1	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:33308272G>A	uc001mul.1	+	2	582	c.312G>A	c.(310-312)GTG>GTA	p.V104V	HIPK3_uc001mum.1_Silent_p.V104V|HIPK3_uc009yjv.1_Silent_p.V104V	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	104					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						AAGCTCACGTGCAGGCACCTC	0.498													23	86					0	0	0.014323	0	0		A	33308272	A	A	33308272	2	1	157	1	0	0	0	0	0	0	0	1	7134	1306	46	2		2	HIPK3	11	33308272	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5918250	33308272	101698244	824	86384											
LDLRAD3	143458	broad.mit.edu	37	chr11	36057669	36057669	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagagccagctgctcccCgggaacaacttcaccaatga	13	5	9	14	1	1	2	1	1	0	1	2	4	2	3	4	1	5	2	4	1	3	1	rs149080200		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:36057669C>T	uc001mwk.1	+	2	100	c.63C>T	c.(61-63)CCC>CCT	p.P21P	LDLRAD3_uc010rey.1_Intron|LDLRAD3_uc010rez.1_Intron	NM_174902	NP_777562	Q86YD5	LRAD3_HUMAN	low density lipoprotein receptor class A domain	21	Extracellular (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1	all_lung(20;0.089)|Lung NSC(22;0.175)|all_epithelial(35;0.177)	all_hematologic(20;0.124)				AGCTGCTCCCCGGGAACAACT	0.592													6	75					0	0	0.001168	0	0		T	36057669	T	T	36057669	2	4	157	1	0	0	0	0	0	0	0	1	8723	639	23	1		1	LDLRAD3	11	36057669	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2749397	36057669	98948847	825	86385											
COMMD9	29099	broad.mit.edu	37	chr11	36293368	36293368	+	RNA	SNP	C	T	T	0	0	0	1	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	cctcatcatcactggcctggCtgtcagagcctagaggcagg	8	8	12	13	0	4	2	4	0	0	2	4	2	4	2	3	4	1	2	3	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:36293368C>T	uc009yki.1	-	2		c.204G>A						Q9P000	COMD9_HUMAN	Homo sapiens cDNA FLJ45212 fis, clone BRCAN2018667.											ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				ACTGGCCTGGCTGTCAGAGCC	0.522													15	71					0	0	0.003163	0	0		T	36293368	T	T	36293368	1	4	157	0	1	0	0	0	0	0	0	0	3726	812	28	2		2	COMMD9	11	36293368	RNA	SNP	C	TCGA-CG-5728-01A-11D-1600-08	235699	36293368	98713148	826	86386											
API5	8539	broad.mit.edu	37	chr11	43364043	43364043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacacgaggaaatcgtagtCggggaagactctactgaata	14	7	12	8	3	1	2	0	1	1	1	3	5	1	4	0	3	1	2	0	3	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:43364043C>T	uc010rfh.1	+	14	1731	c.1558C>T	c.(1558-1560)CGG>TGG	p.R520W	API5_uc010rfg.1_Missense_Mutation_p.R509W|API5_uc001mxf.2_3'UTR|API5_uc010rfi.1_3'UTR	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	Error:Variant_position_missing_in_Q9BZZ5_after_alignment					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						AAATCGTAGTCGGGGAAGACT	0.473													18	66					0	0	0.007413	0	0		T	43364043	T	T	43364043	3	4	157	1	0	0	0	0	1	0	0	0	773	875	31	1	1612	1	API5	11	43364043	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7070675	43364043	91642473	827	86387											
HSD17B12	51144	broad.mit.edu	37	chr11	43876365	43876365	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgaagtctgcaattaaaaCagtcggcctgcaatcccgaa	13	9	9	10	2	1	1	0	1	1	0	3	2	2	1	2	1	3	2	2	1	6	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:43876365C>A	uc001mxq.3	+	10	1020	c.785C>A	c.(784-786)ACA>AAA	p.T262K		NM_016142	NP_057226	Q53GQ0	DHB12_HUMAN	hydroxysteroid (17-beta) dehydrogenase 12	262					long-chain fatty-acyl-CoA biosynthetic process|steroid biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	estradiol 17-beta-dehydrogenase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity				0						GCAATTAAAACAGTCGGCCTG	0.443													30	105					8.16721e-17	8.96375e-17	0.010818	1	0		A	43876365	A	A	43876365	3	1	157	1	0	0	0	0	1	0	0	0	7397	478	17	5	823	5	HSD17B12	11	43876365	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	512322	43876365	91130151	828	86388											
ACCS	84680	broad.mit.edu	37	chr11	44102795	44102795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggatgtggccactgccGtggcttccctctgccgctac	5	9	11	16	2	1	0	0	0	1	0	2	1	2	1	5	3	3	2	5	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:44102795G>A	uc009yks.1	+	12	1180	c.1036G>A	c.(1036-1038)GTG>ATG	p.V346M	EXT2_uc010rfo.1_Intron|ACCS_uc001mxx.2_Missense_Mutation_p.V346M	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	346							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						GGCCACTGCCGTGGCTTCCCT	0.642													13	37					0	0	0.003954	0	0		A	44102795	A	A	44102795	3	1	157	1	0	0	0	0	1	0	0	0	133	1145	40	1	1078	1	ACCS	11	44102795	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	226430	44102795	90903721	829	86389											
PEX16	9409	broad.mit.edu	37	chr11	45935754	45935754	+	Missense_Mutation	SNP	A	G	G	1	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	cccacaggcccaggctgagcActgacggccaaggcgtcaag	10	3	13	15	2	1	2	1	2	0	0	1	2	1	2	3	4	1	2	3	4	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:45935754A>G	uc001nbu.2	-	8	1007	c.695T>C	c.(694-696)TTG>TCG	p.L232S	PEX16_uc001nbt.2_Missense_Mutation_p.L232S	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	232	Interaction with PEX19.|Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		CAGGCTGAGCACTGACGGCCA	0.652													10	14					0	0	0.006214	0	0		G	45935754	G	G	45935754	3	3	157	1	0	0	0	0	1	0	0	0	11762	173	6	3	424	3	PEX16	11	45935754	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1832959	45935754	89070762	830	86390											
FNBP4	23360	broad.mit.edu	37	chr11	47746252	47746252	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacaggaacatttgactgaAggagggtccagaatggagta	14	7	14	6	0	0	3	0	2	0	1	1	6	1	6	1	4	1	2	1	4	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:47746252A>C	uc009ylv.2	-	13	2240	c.2087T>G	c.(2086-2088)CTT>CGT	p.L696R	FNBP4_uc001ngi.2_Missense_Mutation_p.L10R|FNBP4_uc001ngj.2_Missense_Mutation_p.L603R|FNBP4_uc001ngl.2_RNA	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	696										ovary(1)	1						ATTTGACTGAAGGAGGGTCCA	0.323													20	59					0	0	0.007413	0	0		C	47746252	C	C	47746252	3	2	157	1	0	0	0	0	1	0	0	0	5981	72	3	5	986	5	FNBP4	11	47746252	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1810498	47746252	87260264	831	86391											
FOLH1	2346	broad.mit.edu	37	chr11	49190753	49190753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaacgatattcaccttctaTagatgagtcagcattaatat	14	13	5	9	1	3	2	2	1	1	1	3	3	3	2	2	0	2	1	2	0	6	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:49190753T>C	uc001ngy.2	-	12	1627	c.1366A>G	c.(1366-1368)ATA>GTA	p.I456V	FOLH1_uc001ngz.2_Missense_Mutation_p.I456V|FOLH1_uc009yly.2_Missense_Mutation_p.I441V|FOLH1_uc009ylz.2_Missense_Mutation_p.I441V|FOLH1_uc009yma.2_Missense_Mutation_p.I148V	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	456	NAALADase.|Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	TCACCTTCTATAGATGAGTCA	0.343													7	100					0	0	0.001984	0	0		C	49190753	C	C	49190753	3	2	157	1	0	0	0	0	1	0	0	0	5993	1406	49	3	918	3	FOLH1	11	49190753	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1444501	49190753	85815763	832	86392											
FOLH1	2346	broad.mit.edu	37	chr11	49208219	49208219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcctctgaaaactttccCatatctggcaattacaattt	12	16	3	10	0	2	1	0	1	2	0	4	1	4	1	2	1	2	1	2	1	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:49208219C>T	uc001ngy.2	-	5	877	c.616G>A	c.(616-618)GGG>AGG	p.G206R	FOLH1_uc001ngz.2_Missense_Mutation_p.G206R|FOLH1_uc009yly.2_Missense_Mutation_p.G191R|FOLH1_uc009ylz.2_Missense_Mutation_p.G191R|FOLH1_uc009yma.2_5'UTR	NM_004476	NP_004467	Q04609	FOLH1_HUMAN	folate hydrolase 1 isoform 1	206	Extracellular (Probable).				proteolysis	cytoplasm|integral to plasma membrane|membrane fraction|nucleus	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity			large_intestine(1)|ovary(1)|skin(1)	3					Capromab(DB00089)|L-Glutamic Acid(DB00142)	AAAACTTTCCCATATCTGGCA	0.338													8	159					0	0	0.00308	0	0		T	49208219	T	T	49208219	3	4	157	1	0	0	0	0	1	0	0	0	5993	594	21	4	1696	4	FOLH1	11	49208219	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	17466	49208219	85798297	833	86393											
OR10AG1	282770	broad.mit.edu	37	chr11	55735845	55735845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagtattatgatgccattgCacatcaggatcatcaaatac	14	12	7	8	0	3	1	3	1	0	0	3	2	3	2	1	1	3	3	1	1	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:55735845C>T	uc010rit.1	-	1	95	c.95G>A	c.(94-96)TGC>TAC	p.C32Y		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					GATGCCATTGCACATCAGGAT	0.328													32	92					0	0	0.010818	0	0		T	55735845	T	T	55735845	3	4	157	1	0	0	0	0	1	0	0	0	10916	710	25	2	813	2	OR10AG1	11	55735845	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6527626	55735845	79270671	834	86394											
OR8H3	390152	broad.mit.edu	37	chr11	55890069	55890069	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcatttattgacctcagttActcaactgtcgtcacaccta	10	14	5	12	1	4	1	4	1	0	0	5	1	4	1	2	0	2	1	2	0	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:55890069A>C	uc001nii.1	+	1	221	c.221A>C	c.(220-222)TAC>TCC	p.Y74S		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					GACCTCAGTTACTCAACTGTC	0.448													102	611					0	0	0.01441	0	0		C	55890069	C	C	55890069	3	2	157	1	0	0	0	0	1	0	0	0	11258	391	14	5	223	5	OR8H3	11	55890069	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	154224	55890069	79116447	835	86395											
OR5J2	282775	broad.mit.edu	37	chr11	55944465	55944465	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggcctatgaccgctatgtGgccattgtgagtcccttgct	6	13	11	11	1	0	2	0	2	0	0	1	2	1	2	4	2	1	2	4	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:55944465G>T	uc010rjb.1	+	1	372	c.372G>T	c.(370-372)GTG>GTT	p.V124V		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					ACCGCTATGTGGCCATTGTGA	0.443													26	142					7.92952e-12	8.53093e-12	0.003954	1	0		T	55944465	T	T	55944465	2	4	157	1	0	0	0	0	0	0	0	1	11184	1335	47	5		5	OR5J2	11	55944465	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	54396	55944465	79062051	836	86396											
P2RX3	5024	broad.mit.edu	37	chr11	57115716	57115716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatccagggctggtgccccaCggaggtggacacagtggaaa	10	5	16	10	1	0	0	0	0	0	0	1	4	1	3	3	6	1	1	3	6	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:57115716C>T	uc001nju.2	+	5	540	c.464C>T	c.(463-465)ACG>ATG	p.T155M		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	155	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						TGGTGCCCCACGGAGGTGGAC	0.627													3	14					0	0	0.004672	0	0		T	57115716	T	T	57115716	3	4	157	1	0	0	0	0	1	0	0	0	11360	536	19	1	482	1	P2RX3	11	57115716	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1171251	57115716	77890800	837	86397											
OR10W1	81341	broad.mit.edu	37	chr11	58035201	58035201	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggatgtgcatagacaggTttctgtgtgaatggacacca	11	11	12	7	0	1	2	0	1	1	1	1	4	1	4	1	3	1	2	1	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:58035201T>C	uc001nmq.1	-	1	532	c.130A>G	c.(130-132)ACC>GCC	p.T44A		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	44	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				CATAGACAGGTTTCTGTGTGA	0.488													11	87					0	0	0.004007	0	0		C	58035201	C	C	58035201	3	2	157	1	0	0	0	0	1	0	0	0	10940	1725	60	3	791	3	OR10W1	11	58035201	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	919485	58035201	76971315	838	86398											
TMEM132A	54972	broad.mit.edu	37	chr11	60704345	60704345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggaccctgaggagcttcGcaactacatggagaggatcc	12	6	13	10	1	0	2	0	1	0	1	2	7	1	5	2	4	3	2	2	4	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:60704345G>A	uc001nqj.2	+	11	3231	c.3038G>A	c.(3037-3039)CGC>CAC	p.R1013H	TMEM132A_uc001nqi.2_Missense_Mutation_p.R1014H|TMEM132A_uc001nqm.2_Missense_Mutation_p.R223H	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	1013	Cytoplasmic (Potential).|Confers cellular localization similar to full-length form (By similarity).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GAGGAGCTTCGCAACTACATG	0.647													11	34					0	0	0.008291	0	0		A	60704345	A	A	60704345	3	1	157	1	0	0	0	0	1	0	0	0	16070	1087	38	1	3083	1	TMEM132A	11	60704345	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2669144	60704345	74302171	839	86399											
C11orf66	220004	broad.mit.edu	37	chr11	61257273	61257273	+	Missense_Mutation	SNP	A	G	G	1	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	ggtactttgagaacatccccAagggtctagaccaggaaggc	12	7	12	10	0	1	2	0	1	1	2	2	4	2	3	3	4	2	1	3	4	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:61257273A>G	uc001nru.1	+	12	1188	c.1063A>G	c.(1063-1065)AAG>GAG	p.K355E	C11orf66_uc009ynq.1_Missense_Mutation_p.K335E	NM_145017	NP_659454	Q7Z5V6	CK066_HUMAN	IIIG9 protein	355										ovary(1)	1						GAACATCCCCAAGGGTCTAGA	0.637													7	85					0	0	0.00308	0	0		G	61257273	G	G	61257273	3	3	157	1	0	0	0	0	1	0	0	0	1659	131	5	3	1105	3	C11orf66	11	61257273	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	552928	61257273	73749243	840	86400											
DAGLA	747	broad.mit.edu	37	chr11	61504660	61504660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcggtctccagggccgcGgaaccaaacactacggcctg	8	6	11	16	4	2	0	0	0	2	0	4	1	2	1	4	4	3	0	4	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:61504660G>A	uc001nsa.2	+	14	1489	c.1378G>A	c.(1378-1380)GGA>AGA	p.G460R		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	460	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CCAGGGCCGCGGAACCAAACA	0.632													9	180					0	0	0.010729	0	0		A	61504660	A	A	61504660	3	1	157	1	0	0	0	0	1	0	0	0	4229	1117	39	1	1428	1	DAGLA	11	61504660	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	247387	61504660	73501856	841	86401											
INCENP	3619	broad.mit.edu	37	chr11	61919240	61919240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctcctgcaggcacccCgctcagccaggctatcattc	6	9	10	16	1	3	0	2	0	1	0	5	0	3	0	4	3	2	4	4	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:61919240C>T	uc001nsw.1	+	19	2751	c.2549C>T	c.(2548-2550)CCG>CTG	p.P850L	INCENP_uc001nsx.1_Missense_Mutation_p.P846L|INCENP_uc001nsy.1_Missense_Mutation_p.P264L	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	850					chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						GCAGGCACCCCGCTCAGCCAG	0.572													15	90					0	0	0.00245	0	0		T	61919240	T	T	61919240	3	4	157	1	0	0	0	0	1	0	0	0	7749	652	23	1	2619	1	INCENP	11	61919240	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	414580	61919240	73087276	842	86402											
AHNAK	79026	broad.mit.edu	37	chr11	62287437	62287437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcacatctggaatatcaaCgtccaccttgggtcccgaga	11	10	8	12	2	3	1	2	0	1	1	5	3	5	2	3	2	1	0	3	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:62287437C>T	uc001ntl.2	-	5	14752	c.14452G>A	c.(14452-14454)GTT>ATT	p.V4818I	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4818					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGAATATCAACGTCCACCTTG	0.493													69	259					0	0	0.01441	0	0		T	62287437	T	T	62287437	3	4	157	1	0	0	0	0	1	0	0	0	414	536	19	1	3340	1	AHNAK	11	62287437	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	368197	62287437	72719079	843	86403											
LRRN4CL	221091	broad.mit.edu	37	chr11	62455710	62455710	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ctcttcggccgcaatgcgcaCttctcccatgcgcggcgggt	4	9	12	16	6	2	0	0	0	2	0	4	0	2	0	2	3	2	2	2	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:62455710C>A	uc001nun.2	-	2	578	c.271G>T	c.(271-273)GTG>TTG	p.V91L		NM_203422	NP_981967	Q8ND94	LRN4L_HUMAN	LRRN4 C-terminal like precursor	91	Fibronectin type-III.|Extracellular (Potential).					integral to membrane					0						GCAATGCGCACTTCTCCCATG	0.721													5	19					0.000157383	0.000162287	0.00308	1	0		A	62455710	A	A	62455710	3	1	157	1	0	0	0	0	1	0	0	0	9056	565	20	5	449	5	LRRN4CL	11	62455710	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	168273	62455710	72550806	844	86404											
HNRNPUL2	221092	broad.mit.edu	37	chr11	62483058	62483058	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcatagtctcccctgtatcGatcatagaaattacggtaac	13	12	6	10	2	3	1	2	0	1	1	5	2	3	1	2	1	2	2	2	1	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:62483058G>A	uc001nuw.2	-	13	2270	c.2077C>T	c.(2077-2079)CGA>TGA	p.R693*	HNRNPUL2_uc001nuu.1_RNA	NM_001079559	NP_001073027	Q1KMD3	HNRL2_HUMAN	heterogeneous nuclear ribonucleoprotein U-like	693	Tyr-rich.				cell killing	nucleus	ATP binding|nucleic acid binding				0						CCCCTGTATCGATCATAGAAA	0.418													8	139					0	0	0.00308	0	0		A	62483058	A	A	62483058	4	1	157	1	0	0	0	0	0	1	0	0	7291	1066	37	1	174	1	HNRNPUL2	11	62483058	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	27348	62483058	72523458	845	86405											
SLC22A6	9356	broad.mit.edu	37	chr11	62744711	62744711	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcccagggtctctggcaGgaggacagtgacagcgctgg	7	6	17	11	1	1	1	0	1	1	0	2	3	1	3	1	6	1	2	1	6	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:62744711G>A	uc001nwk.2	-	9	1817	c.1510C>T	c.(1510-1512)CTG>TTG	p.L504L	SLC22A6_uc001nwl.2_Silent_p.L460L|SLC22A6_uc001nwj.2_Silent_p.L504L|SLC22A6_uc001nwm.2_Silent_p.L460L	NM_004790	NP_004781	Q4U2R8	S22A6_HUMAN	solute carrier family 22 member 6 isoform a	504	Helical; (Potential).				alpha-ketoglutarate transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|protein binding				0						GTCTCTGGCAGGAGGACAGTG	0.542													24	70					0	0	0.005443	0	0		A	62744711	A	A	62744711	2	1	157	1	0	0	0	0	0	0	0	1	14483	991	35	4		4	SLC22A6	11	62744711	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	261653	62744711	72261805	846	86406											
MARK2	2011	broad.mit.edu	37	chr11	63666286	63666286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caggatgaaagaaaaagaggCtcgagccaaattccgccagg	16	4	12	9	2	0	3	0	1	0	2	2	5	1	4	3	3	1	1	3	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:63666286C>T	uc001nxw.2	+	6	1034	c.455C>T	c.(454-456)GCT>GTT	p.A152V	MARK2_uc001nxx.2_Missense_Mutation_p.A152V|MARK2_uc001nxy.2_Missense_Mutation_p.A152V|MARK2_uc001nxv.3_Missense_Mutation_p.A152V|MARK2_uc001nxz.3_Missense_Mutation_p.A119V|MARK2_uc009yoy.2_Missense_Mutation_p.A119V	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	152	Protein kinase.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						GAAAAAGAGGCTCGAGCCAAA	0.517													14	51					0	0	0.003163	0	0		T	63666286	T	T	63666286	3	4	157	1	0	0	0	0	1	0	0	0	9331	797	28	2	477	2	MARK2	11	63666286	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	921575	63666286	71340230	847	86407											
MARK2	2011	broad.mit.edu	37	chr11	63669730	63669730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatctgaccaatagcagcGccccatccccatcccacaag	11	6	6	18	1	1	2	0	2	1	0	3	2	3	2	6	0	2	1	6	0	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:63669730G>A	uc001nxw.2	+	12	1741	c.1162G>A	c.(1162-1164)GCC>ACC	p.A388T	MARK2_uc001nxx.2_Missense_Mutation_p.A388T|MARK2_uc001nxy.2_Missense_Mutation_p.A388T|MARK2_uc001nxv.3_Missense_Mutation_p.A388T|MARK2_uc001nxz.3_Missense_Mutation_p.A355T|MARK2_uc009yoy.2_Missense_Mutation_p.A355T	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	388					cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						CAATAGCAGCGCCCCATCCCC	0.572											OREG0021038	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	60					0	0	0.014323	0	0		A	63669730	A	A	63669730	3	1	157	1	0	0	0	0	1	0	0	0	9331	1087	38	1	1208	1	MARK2	11	63669730	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3444	63669730	71336786	848	86408											
MACROD1	28992	broad.mit.edu	37	chr11	63782731	63782731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtccactcaccgccaccGcctccgagcagggagctgtt	8	6	11	16	3	1	0	1	0	0	0	3	2	3	1	6	2	2	3	6	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:63782731G>A	uc001nyh.2	-	4	659	c.540C>T	c.(538-540)GGC>GGT	p.G180G		NM_014067	NP_054786	Q9BQ69	MACD1_HUMAN	MACRO domain containing 1	180	Macro.										0						CACCGCCACCGCCTCCGAGCA	0.657													5	11					0	0	0.001984	0	0		A	63782731	A	A	63782731	2	1	157	1	0	0	0	0	0	0	0	1	9163	1074	38	1		1	MACROD1	11	63782731	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	113001	63782731	71223785	849	86409											
GPR137	56834	broad.mit.edu	37	chr11	64054328	64054328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctgcagttcttcaccttgaCgcttatgaacctctactttg	7	15	6	13	1	3	2	1	2	2	0	3	2	3	2	3	0	3	3	3	0	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:64054328C>T	uc001nzg.1	+	2	640	c.332C>T	c.(331-333)ACG>ATG	p.T111M	BAD_uc001nzd.2_5'Flank|BAD_uc001nzc.2_5'Flank|GPR137_uc009ypj.1_Missense_Mutation_p.T117M|BAD_uc009ypk.2_5'Flank|GPR137_uc010rni.1_Missense_Mutation_p.T169M|GPR137_uc001nze.1_Missense_Mutation_p.T111M|GPR137_uc001nzf.2_Missense_Mutation_p.T111M|GPR137_uc001nzh.1_Missense_Mutation_p.T111M|GPR137_uc001nzi.2_Missense_Mutation_p.T111M|GPR137_uc010rnj.1_Missense_Mutation_p.T111M	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	111	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1						TTCACCTTGACGCTTATGAAC	0.607													10	185					0	0	0.006214	0	0		T	64054328	T	T	64054328	3	4	157	1	0	0	0	0	1	0	0	0	6660	536	19	1	516	1	GPR137	11	64054328	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	271597	64054328	70952188	850	86410											
CDC42BPG	55561	broad.mit.edu	37	chr11	64604405	64604405	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagtaccttggtgcttcCtgctcagctccaccttctcc	4	13	6	18	0	2	0	1	0	1	0	6	0	5	0	6	1	4	4	6	1	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:64604405C>A	uc001obs.3	-	10	1292	c.1292G>T	c.(1291-1293)AGG>ATG	p.R431M		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	431	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						TTGGTGCTTCCTGCTCAGCTC	0.652													17	77					0.00400662	0.00407421	0.004007	1	0		A	64604405	A	A	64604405	3	1	157	1	0	0	0	0	1	0	0	0	3077	681	24	5	3475	5	CDC42BPG	11	64604405	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	550077	64604405	70402111	851	86411											
ATG2A	23130	broad.mit.edu	37	chr11	64677365	64677365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagagagccgaaataccGtctgctgctccatcgccggc	8	7	12	14	4	1	1	0	0	1	1	3	3	2	1	4	1	5	3	4	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:64677365G>A	uc001obx.2	-	14	2010	c.1895C>T	c.(1894-1896)ACG>ATG	p.T632M		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	632							protein binding			ovary(1)|central_nervous_system(1)	2						CCGAAATACCGTCTGCTGCTC	0.711													6	28					0	0	0.006214	0	0		A	64677365	A	A	64677365	3	1	157	1	0	0	0	0	1	0	0	0	1094	1145	40	1	4033	1	ATG2A	11	64677365	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	72960	64677365	70329151	852	86412											
NAALADL1	10004	broad.mit.edu	37	chr11	64825848	64825848	+	Missense_Mutation	SNP	A	G	G	1	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	tgtgggcatccagctgccccAtgacggtctccaggatctcc	6	9	11	15	1	2	1	0	1	2	0	5	2	3	2	5	3	2	2	5	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:64825848A>G	uc001ocn.2	-	1	162	c.146T>C	c.(145-147)ATG>ACG	p.M49T	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	49	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						CAGCTGCCCCATGACGGTCTC	0.632													14	65					0	0	0.00245	0	0		G	64825848	G	G	64825848	3	3	157	1	0	0	0	0	1	0	0	0	10147	217	8	3	2148	3	NAALADL1	11	64825848	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	148483	64825848	70180668	853	86413											
CD248	57124	broad.mit.edu	37	chr11	66083272	66083272	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgggaagctcggtctataGgccagggcaaagtcaggcgg	9	7	16	9	2	3	0	1	0	2	0	4	1	3	1	1	6	1	2	1	6	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:66083272G>T	uc001ohm.1	-	1	1244	c.1227C>A	c.(1225-1227)GCC>GCA	p.A409A		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	409	Pro-rich.|Extracellular (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	TCGGTCTATAGGCCAGGGCAA	0.637													9	137					0.000673444	0.000690209	0.008291	1	0		T	66083272	T	T	66083272	2	4	157	1	0	0	0	0	0	0	0	1	2992	987	35	5		5	CD248	11	66083272	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1257424	66083272	68923244	854	86414											
PELI3	246330	broad.mit.edu	37	chr11	66238785	66238785	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcactgagccgccggtcgcaCgccaacggggtgaagccaga	9	3	15	14	5	0	3	0	2	0	1	1	3	0	3	4	3	3	2	4	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:66238785C>T	uc001oic.3	+	4	461	c.297C>T	c.(295-297)CAC>CAT	p.H99H	PELI3_uc001oib.2_Silent_p.H99H|PELI3_uc001oid.3_Silent_p.H75H|PELI3_uc001oie.3_Translation_Start_Site|PELI3_uc010rpd.1_5'Flank	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	99						cytosol	protein binding			ovary(1)	1						GCCGGTCGCACGCCAACGGGG	0.632													16	60					0	0	0.010818	0	0		T	66238785	T	T	66238785	2	4	157	1	0	0	0	0	0	0	0	1	11742	535	19	1		1	PELI3	11	66238785	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	155513	66238785	68767731	855	86415											
CCS	9973	broad.mit.edu	37	chr11	66373260	66373260	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggcctcaccatctgggaGgagcgaggccggcccatcgc	7	5	15	14	3	2	0	1	0	1	0	3	4	2	2	4	5	1	0	4	5	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:66373260G>T	uc001oir.2	+	8	802	c.759G>T	c.(757-759)GAG>GAT	p.E253D	CCS_uc001ois.2_RNA	NM_005125	NP_005116	O14618	CCS_HUMAN	copper chaperone for superoxide dismutase	253					intracellular copper ion transport|oxidation-reduction process|removal of superoxide radicals	cytosol|mitochondrial inner membrane|nucleus|soluble fraction	copper ion transmembrane transporter activity|protein binding|superoxide dismutase copper chaperone activity|zinc ion binding				0						CCATCTGGGAGGAGCGAGGCC	0.622													8	49					1.12685e-05	1.1756e-05	0.004482	1	0		T	66373260	T	T	66373260	3	4	157	1	0	0	0	0	1	0	0	0	2955	991	35	5	789	5	CCS	11	66373260	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	134475	66373260	68633256	856	86416											
ANKRD13D	338692	broad.mit.edu	37	chr11	67069033	67069033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcgtgctgggcatggagCgcaacgagcccctccgggac	8	4	15	14	4	0	0	0	0	0	0	1	3	1	2	3	3	5	3	3	3	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:67069033C>T	uc001okc.1	+	14	1673	c.1162C>T	c.(1162-1164)CGC>TGC	p.R388C	ANKRD13D_uc001okd.1_Missense_Mutation_p.R475C|ANKRD13D_uc001oke.1_Missense_Mutation_p.R388C|ANKRD13D_uc001okg.1_Missense_Mutation_p.R171C|ANKRD13D_uc001okh.1_Missense_Mutation_p.R171C|ANKRD13D_uc001oki.1_Missense_Mutation_p.R125C|SSH3_uc001okj.2_5'Flank|SSH3_uc001okk.2_5'Flank|SSH3_uc001okl.2_5'Flank	NM_207354	NP_997237	Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	388										ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			GGGCATGGAGCGCAACGAGCC	0.662													17	52					0	0	0.007413	0	0		T	67069033	T	T	67069033	3	4	157	1	0	0	0	0	1	0	0	0	644	768	27	1	1473	1	ANKRD13D	11	67069033	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	695773	67069033	67937483	857	86417											
SSH3	54961	broad.mit.edu	37	chr11	67075730	67075730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccagatgctgctgctggtggCacagcgggaccgagcctccc	6	6	14	15	2	0	1	0	0	0	1	1	3	1	2	4	3	5	4	4	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:67075730C>T	uc001okj.2	+	9	1149	c.971C>T	c.(970-972)GCA>GTA	p.A324V	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Missense_Mutation_p.A178V	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	324					regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			CTGCTGGTGGCACAGCGGGAC	0.682													16	77					0	0	0.00333	0	0		T	67075730	T	T	67075730	3	4	157	1	0	0	0	0	1	0	0	0	15211	710	25	2	1005	2	SSH3	11	67075730	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6697	67075730	67930786	858	86418											
PITPNM1	9600	broad.mit.edu	37	chr11	67267200	67267200	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcggtatctttacctggcgTtccctctgcctccactgggg	3	12	12	14	2	2	0	0	0	2	0	4	0	4	0	4	5	2	2	4	5	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:67267200T>C	uc001olx.2	-	7	1354	c.1165A>G	c.(1165-1167)ACG>GCG	p.T389A	PITPNM1_uc001olw.2_5'Flank|PITPNM1_uc001oly.2_Missense_Mutation_p.T389A|PITPNM1_uc001olz.2_Missense_Mutation_p.T389A	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	389				T->A: No detectable effect on phosphorylation; when associated with A- 793 and A-1222. Strongly reduced phosphorylation; when associated with A- 287. Loss of threonine phosphorylation; when associated with A-287; A-794 and A- 1222.	brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity	p.T389M(1)		lung(2)|central_nervous_system(1)	3						TTACCTGGCGTTCCCTCTGCC	0.542													10	49					0	0	0.006214	0	0		C	67267200	C	C	67267200	3	2	157	1	0	0	0	0	1	0	0	0	11969	1725	60	3	2637	3	PITPNM1	11	67267200	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	191470	67267200	67739316	859	86419											
MTL5	9633	broad.mit.edu	37	chr11	68517872	68517872	+	Frame_Shift_Del	DEL	C	-	-																															gctccccgccgtcgctgtcgCcccccgcgagcttcgccttg																										TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:68517872delC	uc001ooc.2	-	2	397	c.257delG	c.(256-258)GGCfs	p.G86fs	MTL5_uc001ood.1_Frame_Shift_Del_p.G86fs|MTL5_uc009ysi.1_Frame_Shift_Del_p.G86fs|MTL5_uc001ooe.2_Frame_Shift_Del_p.G86fs	NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	86					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			GTCGCTGTCGCCCCCCGCGAG	0.751													4	5	---	---	---	---						.	-	68517872	-	-	68517872	7	5	157	1	0	1	0	1	0	0	0	0	9954	739	26	0	1309	0	MTL5	11	68517872	Frame_Shift_Del	DEL	C	TCGA-CG-5728-01A-11D-1600-08	1250672	68517872	66488644	860	86420											
TPCN2	219931	broad.mit.edu	37	chr11	68840103	68840103	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttttccctgcagagttggggTgaagccccagaacttgctgc	7	11	12	11	0	0	3	0	1	0	2	1	3	1	3	3	2	5	3	3	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:68840103T>C	uc001oos.2	+	12	1186	c.1070T>C	c.(1069-1071)GTG>GCG	p.V357A	TPCN2_uc009ysk.1_RNA|TPCN2_uc001oor.2_Missense_Mutation_p.V272A|TPCN2_uc010rqg.1_Missense_Mutation_p.V357A|TPCN2_uc001oot.2_5'Flank	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	357	Cytoplasmic (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			AGAGTTGGGGTGAAGCCCCAG	0.637													7	35					0	0	0.001984	0	0		C	68840103	C	C	68840103	3	2	157	1	0	0	0	0	1	0	0	0	16422	1696	59	3	1116	3	TPCN2	11	68840103	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	322231	68840103	66166413	861	86421											
ORAOV1	220064	broad.mit.edu	37	chr11	69488006	69488006	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagacccgattttggctccaTgcagcgtgccatgctgcctt	6	11	10	14	2	0	1	0	0	0	1	1	2	1	1	4	1	5	3	4	1	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:69488006T>C	uc001opc.2	-	2	292	c.134A>G	c.(133-135)CAT>CGT	p.H45R	ORAOV1_uc010rqi.1_Missense_Mutation_p.H45R|ORAOV1_uc009ysm.2_RNA|ORAOV1_uc001opd.2_Intron|ORAOV1_uc001ope.1_Missense_Mutation_p.H45R	NM_153451	NP_703152	Q8WV07	ORAV1_HUMAN	oral cancer overexpressed 1	45											0	all_cancers(3;5.53e-114)|all_epithelial(3;1.34e-121)|Breast(3;9.28e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;6.15e-15)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;5.64e-57)|all cancers(3;5.98e-51)|BRCA - Breast invasive adenocarcinoma(2;5.49e-48)|Lung(3;1.13e-16)|LUSC - Lung squamous cell carcinoma(11;3.74e-15)|STAD - Stomach adenocarcinoma(18;0.0278)|LUAD - Lung adenocarcinoma(13;0.0537)			TTTGGCTCCATGCAGCGTGCC	0.468													29	89					0	0	0.009535	0	0		C	69488006	C	C	69488006	3	2	157	1	0	0	0	0	1	0	0	0	11279	1464	51	3	295	3	ORAOV1	11	69488006	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	647903	69488006	65518510	862	86422											
SHANK2	22941	broad.mit.edu	37	chr11	70333142	70333142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgcttctcacggtcgcggaCggctccggcgatggcggcgg	3	6	17	15	9	1	0	1	0	1	0	4	2	2	1	2	7	0	2	2	7	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:70333142C>T	uc001oqc.2	-	21	3334	c.3256G>A	c.(3256-3258)GTC>ATC	p.V1086I	SHANK2_uc010rqn.1_Missense_Mutation_p.V498I|SHANK2_uc001opz.2_Missense_Mutation_p.V491I|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	707					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			CGGTCGCGGACGGCTCCGGCG	0.711													6	26					0	0	0.001855	0	0		T	70333142	T	T	70333142	3	4	157	1	0	0	0	0	1	0	0	0	14290	536	19	1	2301	1	SHANK2	11	70333142	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	845136	70333142	64673374	863	86423											
SERPINH1	871	broad.mit.edu	37	chr11	75282937	75282937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtgttccacgccaccGcctttgagttggacacagat	8	9	10	14	3	0	2	0	1	0	1	1	3	1	3	5	1	1	2	5	1	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:75282937G>A	uc001owr.2	+	5	1295	c.1066G>A	c.(1066-1068)GCC>ACC	p.A356T	SERPINH1_uc009yug.2_Missense_Mutation_p.A356T|SERPINH1_uc001ows.2_Missense_Mutation_p.A356T|SERPINH1_uc001owt.2_Missense_Mutation_p.A139T	NM_001235	NP_001226	P50454	SERPH_HUMAN	serine (or cysteine) proteinase inhibitor, clade	356					regulation of proteolysis|response to unfolded protein	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	collagen binding|serine-type endopeptidase inhibitor activity			ovary(2)	2	Ovarian(111;0.11)					CCACGCCACCGCCTTTGAGTT	0.602													6	31					0	0	0.001168	0	0		A	75282937	A	A	75282937	3	1	157	1	0	0	0	0	1	0	0	0	14142	1087	38	1	1080	1	SERPINH1	11	75282937	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4949795	75282937	59723579	864	86424											
MAP6	4135	broad.mit.edu	37	chr11	75298694	75298694	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgctgggactatgggacCttcacccttgacaggtgctg	7	10	14	10	0	1	1	1	1	0	0	1	3	1	3	2	4	2	2	2	4	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:75298694C>A	uc001owu.2	-	4	1917	c.1852G>T	c.(1852-1854)GGT>TGT	p.G618C		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	618	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					ACTATGGGACCTTCACCCTTG	0.537													67	233					1.42676e-28	1.58969e-28	0.01441	1	0		A	75298694	A	A	75298694	3	1	157	1	0	0	0	0	1	0	0	0	9282	681	24	5	593	5	MAP6	11	75298694	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	15757	75298694	59707822	865	86425											
ODZ4	26011	broad.mit.edu	37	chr11	78440583	78440583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaggttgaaggggatggtcgGgtgggtgaggctgatcctca	7	9	20	5	1	1	3	1	3	0	0	3	5	2	4	1	7	0	2	1	7	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:78440583G>A	uc001ozl.3	-	22	3707	c.3244C>T	c.(3244-3246)CCG>TCG	p.P1082S		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1082	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GGGATGGTCGGGTGGGTGAGG	0.582													4	42					0	0	0.000602	0	0		A	78440583	A	A	78440583	3	1	157	1	0	0	0	0	1	0	0	0	10856	1232	43	4	5117	4	ODZ4	11	78440583	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3141889	78440583	56565933	866	86426											
RAB38	23682	broad.mit.edu	37	chr11	87883091	87883091	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccatagcttctcggtaatAgaccctcgtcatgtttccaa	10	12	6	13	2	2	1	1	0	1	1	5	1	3	1	3	1	1	3	3	1	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:87883091A>G	uc001pcj.1	-	2	282	c.235T>C	c.(235-237)TAT>CAT	p.Y79H		NM_022337	NP_071732	P57729	RAB38_HUMAN	RAB38	79					protein transport|small GTPase mediated signal transduction	melanosome|plasma membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TCTCGGTAATAGACCCTCGTC	0.358													93	328					0	0	0.01441	0	0		G	87883091	G	G	87883091	3	3	157	1	0	0	0	0	1	0	0	0	12953	420	15	3	408	3	RAB38	11	87883091	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	9442508	87883091	47123425	867	86427											
CTSC	1075	broad.mit.edu	37	chr11	88027300	88027300	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctgtttttaacaatccaGtaatccatcccagaggctga	12	11	7	11	0	0	2	0	1	0	1	3	2	3	2	3	1	2	4	3	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:88027300G>A	uc001pck.3	-	7	1367	c.1266C>T	c.(1264-1266)TAC>TAT	p.Y422Y	CTSC_uc001pcl.3_Silent_p.Y274Y	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	422					immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TAACAATCCAGTAATCCATCC	0.517													7	86					0	0	0.006214	0	0		A	88027300	A	A	88027300	2	1	157	1	0	0	0	0	0	0	0	1	4034	1024	36	4		4	CTSC	11	88027300	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	144209	88027300	46979216	868	86428											
FAT3	120114	broad.mit.edu	37	chr11	92532253	92532253	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcttaaacccaggaaataAgttcaagataaaatctacct	18	10	4	9	0	3	1	1	0	2	1	3	2	3	2	2	1	2	1	2	1	8	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:92532253A>C	uc001pdj.3	+	9	6091	c.6074A>C	c.(6073-6075)AAG>ACG	p.K2025T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2025	Extracellular (Potential).|Cadherin 18.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCAGGAAATAAGTTCAAGATA	0.423										TCGA Ovarian(4;0.039)			22	125					0	0	0.012319	0	0		C	92532253	C	C	92532253	3	2	157	1	0	0	0	0	1	0	0	0	5705	72	3	5	6108	5	FAT3	11	92532253	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	4504953	92532253	42474263	869	86429											
FAT3	120114	broad.mit.edu	37	chr11	92577560	92577560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggcgcaccctgcggaatgCagtcctcacccagaagcagg	9	4	12	16	3	1	1	1	0	0	1	2	2	2	2	4	3	3	3	4	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:92577560C>T	uc001pdj.3	+	18	11044	c.11027C>T	c.(11026-11028)GCA>GTA	p.A3676V	FAT3_uc001pdi.3_Missense_Mutation_p.A116V	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3676	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CTGCGGAATGCAGTCCTCACC	0.592										TCGA Ovarian(4;0.039)			13	60					0	0	0.013537	0	0		T	92577560	T	T	92577560	3	4	157	1	0	0	0	0	1	0	0	0	5705	710	25	2	11097	2	FAT3	11	92577560	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	45307	92577560	42428956	870	86430											
MRE11A	4361	broad.mit.edu	37	chr11	94180539	94180539	+	Silent	SNP	A	G	G	1	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	aaatctatactcataaggtcAtcagcactaaaggcagaagc	17	8	7	9	0	4	1	3	0	1	1	4	1	4	1	0	2	3	2	0	2	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:94180539A>G	uc001peu.2	-	15	1818	c.1629T>C	c.(1627-1629)GAT>GAC	p.D543D	MRE11A_uc001pev.2_Silent_p.D543D|MRE11A_uc009ywj.2_Silent_p.D546D	NM_005591	NP_005582	P49959	MRE11_HUMAN	meiotic recombination 11 homolog A isoform 1	543					DNA duplex unwinding|double-strand break repair via homologous recombination|double-strand break repair via nonhomologous end joining|negative regulation of DNA endoreduplication|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|sister chromatid cohesion|telomere maintenance via telomerase	Mre11 complex|nucleoplasm	3'-5' exonuclease activity|double-stranded DNA binding|manganese ion binding|protein C-terminus binding|single-stranded DNA specific endodeoxyribonuclease activity			breast(4)|lung(1)	5		Acute lymphoblastic leukemia(157;2.37e-05)|all_hematologic(158;0.00824)				TCATAAGGTCATCAGCACTAA	0.473								Homologous_recombination	Ataxia-Telangiectasia-Like_Disorder				33	161					0	0	0.010818	0	0		G	94180539	G	G	94180539	2	3	157	1	0	0	0	0	0	0	0	1	9777	214	8	3		3	MRE11A	11	94180539	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1602979	94180539	40825977	871	86431											
DYNC2H1	79659	broad.mit.edu	37	chr11	102992131	102992131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agactttgagaatcggtgccGaggaattcctggtgatgcat	10	11	13	7	2	0	3	0	2	0	2	2	6	1	4	2	3	2	1	2	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:102992131G>A	uc001pho.2	+	10	1535	c.1391G>A	c.(1390-1392)CGA>CAA	p.R464Q	DYNC2H1_uc001phn.1_Missense_Mutation_p.R464Q|DYNC2H1_uc009yxe.1_Missense_Mutation_p.R464Q	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	464	Stem (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AATCGGTGCCGAGGAATTCCT	0.353													5	47					0	0	0.001168	0	0		A	102992131	A	A	102992131	3	1	157	1	0	0	0	0	1	0	0	0	4852	1058	37	1	1429	1	DYNC2H1	11	102992131	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8811592	102992131	32014385	872	86432											
DYNC2H1	79659	broad.mit.edu	37	chr11	103041640	103041640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgatgtgaagtcaatgggacGaatatttgttggtttggtga	10	14	14	3	2	1	2	1	2	0	0	1	5	1	3	0	3	0	2	0	3	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:103041640G>A	uc001pho.2	+	34	5321	c.5177G>A	c.(5176-5178)CGA>CAA	p.R1726Q	DYNC2H1_uc001phn.1_Missense_Mutation_p.R1726Q|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	1726	AAA 1 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TCAATGGGACGAATATTTGTT	0.318													5	33					0	0	0.001984	0	0		A	103041640	A	A	103041640	3	1	157	1	0	0	0	0	1	0	0	0	4852	1058	37	1	5311	1	DYNC2H1	11	103041640	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	49509	103041640	31964876	873	86433											
NPAT	4863	broad.mit.edu	37	chr11	108040522	108040522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttctgagattttggagggaCggggaattgagggatacttc	9	12	15	5	1	1	2	0	2	1	1	2	7	1	6	0	5	1	0	0	5	2	6	rs62642487		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:108040522C>T	uc001pjz.3	-	15	3061	c.2959G>A	c.(2959-2961)GTC>ATC	p.V987I	NPAT_uc010rvv.1_Missense_Mutation_p.V43I	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	987					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TTTGGAGGGACGGGGAATTGA	0.368													62	208					0	0	0.01441	0	0		T	108040522	T	T	108040522	3	4	157	1	0	0	0	0	1	0	0	0	10585	536	19	1	1340	1	NPAT	11	108040522	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4998882	108040522	26965994	874	86434											
ATM	472	broad.mit.edu	37	chr11	108160489	108160489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcttgggcctttgttcttcGagacgttatttatactttga	7	18	9	7	2	1	2	0	1	1	1	2	3	1	2	1	1	2	3	1	1	3	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:108160489G>A	uc001pkb.1	+	29	4782	c.4397G>A	c.(4396-4398)CGA>CAA	p.R1466Q	ATM_uc009yxr.1_Missense_Mutation_p.R1466Q|ATM_uc001pkd.3_Missense_Mutation_p.R118Q|ATM_uc001pke.1_Missense_Mutation_p.R118Q|ATM_uc010rvw.1_Missense_Mutation_p.R118Q|ATM_uc001pkf.2_Missense_Mutation_p.R118Q	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1466					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTTGTTCTTCGAGACGTTATT	0.308			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)			20	72					0	0	0.012319	0	0		A	108160489	A	A	108160489	3	1	157	1	0	0	0	0	1	0	0	0	1110	1058	37	1	4507	1	ATM	11	108160489	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	119967	108160489	26846027	875	86435											
KDELC2	143888	broad.mit.edu	37	chr11	108351905	108351905	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagaagactcaaatgcatAccttaaagaaatcaaagaaa	23	6	6	6	0	2	5	2	0	0	5	2	5	2	5	1	0	2	1	1	0	9	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:108351905A>G	uc001pkj.2	-	5	1164	c.1098_splice	c.e5+1	p.K366_splice	KDELC2_uc001pki.2_Splice_Site_p.K310_splice	NM_153705	NP_714916	Q7Z4H8	KDEL2_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 2 precursor							endoplasmic reticulum lumen				ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;6.93e-06)|BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|all cancers(92;0.00016)|OV - Ovarian serous cystadenocarcinoma(223;0.132)|Colorectal(284;0.14)		TCAAATGCATACCTTAAAGAA	0.363													66	195					0	0	0.01441	0	0		G	108351905	G	G	108351905	5	3	157	1	0	0	0	0	0	0	1	0	8134	405	14	3	439	3	KDELC2	11	108351905	Splice_Site	SNP	A	TCGA-CG-5728-01A-11D-1600-08	191416	108351905	26654611	876	86436											
NCAM1	4684	broad.mit.edu	37	chr11	113126681	113126681	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aacctgatcaagcaggatgaCggcggctcccccatcagaca	12	5	10	14	2	2	3	2	2	0	1	3	4	3	4	3	3	2	2	3	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:113126681C>T	uc001pns.2	+	1	83	c.51C>T	c.(49-51)GAC>GAT	p.D17D				P13591	NCAM1_HUMAN	SubName: Full=cDNA FLJ52974, highly similar to Neural cell adhesion molecule 1, 140 kDa isoform;	637	Extracellular (Potential).|Fibronectin type-III 2.				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		AGCAGGATGACGGCGGCTCCC	0.552													7	16					0	0	0.001984	0	0		T	113126681	T	T	113126681	2	4	157	1	0	0	0	0	0	0	0	1	10221	535	19	1		1	NCAM1	11	113126681	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4774776	113126681	21879835	877	86437											
TTC12	54970	broad.mit.edu	37	chr11	113196305	113196305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attatgaaacagctatcctgCgctacagtgagggtttggag	11	11	12	7	1	0	2	0	2	0	0	1	3	1	3	1	2	4	3	1	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:113196305C>T	uc001pnu.2	+	6	487	c.382C>T	c.(382-384)CGC>TGC	p.R128C	TTC12_uc001pnv.2_Missense_Mutation_p.R128C|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_5'UTR	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	128	TPR 1.						binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		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)		AGCTATCCTGCGCTACAGTGA	0.478													23	85					0	0	0.014323	0	0		T	113196305	T	T	113196305	3	4	157	1	0	0	0	0	1	0	0	0	16705	768	27	1	400	1	TTC12	11	113196305	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	69624	113196305	21810211	878	86438											
MLL	4297	broad.mit.edu	37	chr11	118375926	118375926	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgacccaaaaaatccaaTtgacctcttctgttagttct	12	13	6	10	0	3	2	0	2	3	0	4	3	4	2	3	0	0	2	3	0	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:118375926T>C	uc001pta.2	+	27	9333	c.9310T>C	c.(9310-9312)TTG>CTG	p.L3104L	MLL_uc001ptb.2_Silent_p.L3107L	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3104					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AAAAATCCAATTGACCTCTTC	0.453			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								71	330					0	0	0.01441	0	0		C	118375926	C	C	118375926	2	2	157	1	0	0	0	0	0	0	0	1	9638	1490	52	3		3	MLL	11	118375926	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5179621	118375926	16630590	879	86439											
MLL	4297	broad.mit.edu	37	chr11	118379858	118379858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtttttatttaggcaagtcGctgttcttccggaagttcag	7	16	11	7	2	2	0	1	0	1	0	4	1	3	1	1	3	0	5	1	3	4	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:118379858G>A	uc001pta.2	+	29	10857	c.10834G>A	c.(10834-10836)GCT>ACT	p.A3612T	MLL_uc001ptb.2_Missense_Mutation_p.A3615T	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3612					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TAGGCAAGTCGCTGTTCTTCC	0.328			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								6	51					0	0	0.001984	0	0		A	118379858	A	A	118379858	3	1	157	1	0	0	0	0	1	0	0	0	9638	1087	38	1	10948	1	MLL	11	118379858	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3932	118379858	16626658	880	86440											
IFT46	56912	broad.mit.edu	37	chr11	118427698	118427698	+	Silent	SNP	A	G	G	1	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	gatgaatcatcatcatcatcAtcgtcatcctcattttcact	11	15	3	12	1	8	1	8	1	0	0	10	2	9	1	1	0	0	0	1	0	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:118427698A>G	uc001ptp.1	-	4	486	c.108T>C	c.(106-108)GAT>GAC	p.D36D	IFT46_uc001pto.1_Silent_p.D87D|IFT46_uc009zaf.1_Silent_p.D87D	NM_020153	NP_064538	Q9NQC8	IFT46_HUMAN	IFT46	36	Asp/Glu-rich (highly acidic).				flagellum assembly|intraflagellar transport|protein stabilization	microtubule basal body|microtubule-based flagellum|nucleus	protein C-terminus binding				0						catcatcatcatcgtcatcct	0.408													43	135					0	0	0.00874	0	0		G	118427698	G	G	118427698	2	3	157	1	0	0	0	0	0	0	0	1	7576	214	8	3		3	IFT46	11	118427698	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	47840	118427698	16578818	881	86441											
PDZD3	79849	broad.mit.edu	37	chr11	119057184	119057184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctgctgcccacctcaccctCcagatccctggagcctggag	6	8	9	18	0	2	1	1	0	1	1	4	3	4	3	6	2	3	1	6	2	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:119057184C>T	uc001pwb.2	+	2	837	c.313C>T	c.(313-315)CCA>TCA	p.P105S	PDZD3_uc001pvy.2_Intron|PDZD3_uc001pvz.2_Intron|PDZD3_uc010rzd.1_Intron|PDZD3_uc001pwa.2_Intron			Q86UT5	NHRF4_HUMAN	RecName: Full=Na(+)/H(+) exchange regulatory cofactor NHE-RF4;          Short=NHERF-4; AltName: Full=PDZ domain-containing protein 3; AltName: Full=PDZ domain-containing protein 2; AltName: Full=Intestinal and kidney-enriched PDZ protein; AltName: Full=Sodium-hydrogen exchanger regulatory factor 4;	105					cGMP-mediated signaling|ion transport|negative regulation of cGMP biosynthetic process|response to toxin|water transport	apical part of cell|brush border|cytosol|membrane fraction|subapical complex	guanylate cyclase inhibitor activity|ion channel inhibitor activity|protein C-terminus binding			breast(1)	1	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;7.52e-05)		ACCTCACCCTCCAGATCCCTG	0.627													24	80					0	0	0.005443	0	0		T	119057184	T	T	119057184	3	4	157	1	0	0	0	0	1	0	0	0	11721	870	30	4		4	PDZD3	11	119057184	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	629486	119057184	15949332	882	86442											
ARHGEF12	23365	broad.mit.edu	37	chr11	120298860	120298860	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgactctgaagtagagccGtcagtcattggacatatgtc	10	10	11	10	2	3	2	2	1	1	1	4	4	3	3	2	1	1	1	2	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:120298860G>A	uc001pxl.1	+	8	496	c.489G>A	c.(487-489)CCG>CCA	p.P163P	ARHGEF12_uc009zat.2_Silent_p.P144P|ARHGEF12_uc010rzn.1_Silent_p.P60P|ARHGEF12_uc009zau.1_Silent_p.P60P	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	163					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		AAGTAGAGCCGTCAGTCATTG	0.542			T	MLL	AML								70	240					0	0	0.01441	0	0		A	120298860	A	A	120298860	2	1	157	1	0	0	0	0	0	0	0	1	897	1132	40	1		1	ARHGEF12	11	120298860	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1241676	120298860	14707656	883	86443											
TECTA	7007	broad.mit.edu	37	chr11	121037453	121037453	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattttatctcctttcagatCaacaacaccaaagggaattg	14	12	6	9	0	3	1	2	0	1	1	4	3	3	2	2	1	2	0	2	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:121037453C>A	uc010rzo.1	+	17	5550	c.5550C>A	c.(5548-5550)ATC>ATA	p.I1850I		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1850	ZP.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CCTTTCAGATCAACAACACCA	0.507													21	75					3.62473e-10	3.88726e-10	0.012319	1	0		A	121037453	A	A	121037453	2	1	157	1	0	0	0	0	0	0	0	1	15772	816	29	5		5	TECTA	11	121037453	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	738593	121037453	13969063	884	86444											
SORL1	6653	broad.mit.edu	37	chr11	121460806	121460806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagtttcggtgtgagaatgGccactgcatccccaacagat	10	9	10	12	1	0	2	0	1	0	2	2	3	1	2	4	2	2	2	4	2	2	1	rs148551848	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:121460806G>A	uc001pxx.2	+	30	4216	c.4136G>A	c.(4135-4137)GGC>GAC	p.G1379D	SORL1_uc010rzp.1_Missense_Mutation_p.G225D|SORL1_uc010rzq.1_5'Flank	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1379	Extracellular (Potential).|LDL-receptor class A 8.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TGTGAGAATGGCCACTGCATC	0.547													53	205					0	0	0.01441	0	0		A	121460806	A	A	121460806	3	1	157	1	0	0	0	0	1	0	0	0	14959	1203	42	2	4254	2	SORL1	11	121460806	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	423353	121460806	13545710	885	86445											
UBASH3B	84959	broad.mit.edu	37	chr11	122659877	122659877	+	Missense_Mutation	SNP	A	G	G	1	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	agctggtccccggggacttcAtcttcatgtctccaatggag	7	11	11	12	1	4	0	2	0	2	0	6	2	5	2	3	4	1	1	3	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:122659877A>G	uc001pyi.3	+	6	1201	c.841A>G	c.(841-843)ATC>GTC	p.I281V		NM_032873	NP_116262	Q8TF42	UBS3B_HUMAN	ubiquitin associated and SH3 domain containing,	281	SH3.					cytoplasm|nucleus	protein tyrosine phosphatase activity			central_nervous_system(1)	1		Breast(109;0.00254)|Medulloblastoma(222;0.00877)|Lung NSC(97;0.0183)|all_lung(97;0.0186)|all_neural(223;0.0381)|all_hematologic(192;0.104)		BRCA - Breast invasive adenocarcinoma(274;1.37e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0463)		CGGGGACTTCATCTTCATGTC	0.542													72	337					0	0	0.01441	0	0		G	122659877	G	G	122659877	3	3	157	1	0	0	0	0	1	0	0	0	16866	217	8	3	863	3	UBASH3B	11	122659877	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1199071	122659877	12346639	886	86446											
ASAM	79827	broad.mit.edu	37	chr11	122944466	122944466	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tttcacaagacgggcttttgGagcttcagcatcttctctga	8	14	9	10	1	4	2	2	1	2	1	5	3	4	3	0	2	2	3	0	2	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:122944466G>C	uc001pyt.2	-	7	1197	c.838C>G	c.(838-840)CCA>GCA	p.P280A		NM_024769	NP_079045	Q9H6B4	CLMP_HUMAN	adipocyte-specific adhesion molecule precursor	280	Cytoplasmic (Potential).					integral to membrane|tight junction					0		Breast(109;0.0025)|Lung NSC(97;0.0179)|all_lung(97;0.0182)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.73e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0446)		CGGGCTTTTGGAGCTTCAGCA	0.498													32	128					0	0	0.008361	0	0		C	122944466	C	C	122944466	3	2	157	1	0	0	0	0	1	0	0	0	1010	1174	41	5	287	5	ASAM	11	122944466	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	284589	122944466	12062050	887	86447											
ZNF202	7753	broad.mit.edu	37	chr11	123597620	123597620	+	Silent	SNP	T	C	C	0	1	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	gtctggtgaatttctggttcTcccaaaacaggcctgtgtat	8	14	10	9	0	3	1	0	1	3	0	4	1	3	1	2	3	1	2	2	3	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:123597620T>C	uc001pzd.1	-	9	1432	c.1032A>G	c.(1030-1032)GGA>GGG	p.G344G	ZNF202_uc001pzc.1_Silent_p.G120G|ZNF202_uc001pze.1_Silent_p.G344G|ZNF202_uc001pzf.1_Silent_p.G344G	NM_003455	NP_003446	O95125	ZN202_HUMAN	zinc finger protein 202	344					lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.03)		TTTCTGGTTCTCCCAAAACAG	0.418													33	528					0	0	0.003271	0	0		C	123597620	C	C	123597620	2	2	157	1	0	0	0	0	0	0	0	1	17788	1538	54	3		3	ZNF202	11	123597620	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	653154	123597620	11408896	888	86448											
ESAM	90952	broad.mit.edu	37	chr11	124626554	124626554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctggagaccctccagccGcagggacaggttccgggagg	7	5	15	14	2	0	1	0	0	0	1	3	4	3	3	5	5	1	2	5	5	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:124626554G>A	uc001qav.3	-	3	507	c.334C>T	c.(334-336)CGG>TGG	p.R112W	ESAM_uc010sao.1_Intron|ESAM_uc001qau.3_Missense_Mutation_p.R39W|ESAM_uc001qaw.3_RNA|ESAM_uc001qax.3_RNA|ESAM_uc009zbi.2_Missense_Mutation_p.R112W	NM_138961	NP_620411	Q96AP7	ESAM_HUMAN	endothelial cell adhesion molecule precursor	112	Extracellular (Potential).|Ig-like V-type.				blood coagulation|leukocyte migration	adherens junction|integral to membrane|tight junction					0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.022)		CCCTCCAGCCGCAGGGACAGG	0.542													6	67					0	0	0.001855	0	0		A	124626554	A	A	124626554	3	1	157	1	0	0	0	0	1	0	0	0	5255	1086	38	1	858	1	ESAM	11	124626554	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1028934	124626554	10379962	889	86449											
ROBO3	64221	broad.mit.edu	37	chr11	124749423	124749423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggaccccgtgctcgattcCggaagaaacccaaggctctt	11	7	10	13	3	1	1	0	0	1	1	3	4	2	3	4	3	2	2	4	3	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:124749423C>T	uc001qbc.2	+	25	3940	c.3748C>T	c.(3748-3750)CGG>TGG	p.R1250W	ROBO3_uc001qbd.2_Missense_Mutation_p.R175W|ROBO3_uc010sar.1_Missense_Mutation_p.R299W|ROBO3_uc001qbe.2_Missense_Mutation_p.R175W|ROBO3_uc001qbf.1_Missense_Mutation_p.R134W	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	1250	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		TGCTCGATTCCGGAAGAAACC	0.607													4	38					0	0	0.000602	0	0		T	124749423	T	T	124749423	3	4	157	1	0	0	0	0	1	0	0	0	13540	643	23	1	3846	1	ROBO3	11	124749423	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	122869	124749423	10257093	890	86450											
STT3A	3703	broad.mit.edu	37	chr11	125472242	125472242	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcctggctgaggaggggtTttataaattccataactggt	9	14	12	6	0	0	1	0	1	0	0	2	2	2	2	2	5	1	3	2	5	4	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:125472242T>C	uc001qcd.2	+	4	304	c.194T>C	c.(193-195)TTT>TCT	p.F65S	STT3A_uc009zbm.2_Missense_Mutation_p.F65S|STT3A_uc001qce.2_Missense_Mutation_p.F65S|STT3A_uc010sbg.1_5'UTR	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	65	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		GAGGAGGGGTTTTATAAATTC	0.413													10	56					0	0	0.010729	0	0		C	125472242	C	C	125472242	3	2	157	1	0	0	0	0	1	0	0	0	15358	1841	64	3	204	3	STT3A	11	125472242	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	722819	125472242	9534274	891	86451											
GLB1L2	89944	broad.mit.edu	37	chr11	134238664	134238664	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccatgactacaagtcagatgTcaccagctatggcaagtatt	13	10	8	10	0	2	2	2	1	0	1	2	2	2	2	2	1	2	3	2	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr11:134238664T>C	uc001qhp.2	+	10	1204	c.1016T>C	c.(1015-1017)GTC>GCC	p.V339A	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	339					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		AAGTCAGATGTCACCAGCTAT	0.547													17	47					0	0	0.006122	0	0		C	134238664	C	C	134238664	3	2	157	1	0	0	0	0	1	0	0	0	6444	1667	58	3	1054	3	GLB1L2	11	134238664	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	8766422	134238664	767852	892	86452											
WNT5B	81029	broad.mit.edu	37	chr12	1748923	1748923	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccatcagccgggcctgccgCgagggcgagctctccacctg	5	5	14	17	4	2	0	1	0	1	0	3	2	2	0	6	2	3	1	6	2	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:1748923C>T	uc009zdq.2	+	4	644	c.402C>T	c.(400-402)CGC>CGT	p.R134R	WNT5B_uc001qjj.2_Silent_p.R134R|WNT5B_uc001qjk.2_Silent_p.R134R|WNT5B_uc001qjl.2_Silent_p.R134R	NM_032642	NP_116031	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family,	134				R -> S (in Ref. 1; AAG38659).	angiogenesis|anterior/posterior pattern formation|cell migration involved in gastrulation|cellular response to retinoic acid|chondrocyte differentiation|convergent extension involved in axis elongation|convergent extension involved in gastrulation|dorsal/ventral axis specification|endocrine pancreas development|fat cell differentiation|lens fiber cell development|negative regulation of canonical Wnt receptor signaling pathway|neuron differentiation|positive regulation of cell migration|positive regulation of fat cell differentiation|respiratory system development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			GGGCCTGCCGCGAGGGCGAGC	0.731													4	12					0	0	0.001984	0	0		T	1748923	T	T	1748923	2	4	157	1	0	0	0	0	0	0	0	1	17418	755	27	1		1	WNT5B	12	1748923	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08		1748923	132102972	893	86453											
CACNA2D4	93589	broad.mit.edu	37	chr12	1983828	1983828	+	Missense_Mutation	SNP	A	G	G	1	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	tacctgtttccctattgatcAtggctgttctcagcttcagg	6	16	8	11	0	3	1	3	1	1	0	5	1	4	1	2	2	2	4	2	2	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:1983828A>G	uc001qjp.2	-	18	2051	c.1820T>C	c.(1819-1821)ATG>ACG	p.M607T	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Intron	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	607	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CCTATTGATCATGGCTGTTCT	0.483													11	63					0	0	0.013537	0	0		G	1983828	G	G	1983828	3	3	157	1	0	0	0	0	1	0	0	0	2554	217	8	3	1677	3	CACNA2D4	12	1983828	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	234905	1983828	131868067	894	86454											
KCNA1	3736	broad.mit.edu	37	chr12	5021148	5021148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggacttcacgggcaccGtccaccgcatcgacaacacc	12	4	8	17	4	1	0	1	0	0	0	3	2	2	1	4	2	1	2	4	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:5021148G>A	uc001qnh.2	+	2	1709	c.604G>A	c.(604-606)GTC>ATC	p.V202I		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	202					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CACGGGCACCGTCCACCGCAT	0.532													26	63					0	0	0.00632	0	0		A	5021148	A	A	5021148	3	1	157	1	0	0	0	0	1	0	0	0	8017	1145	40	1	606	1	KCNA1	12	5021148	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3037320	5021148	128830747	895	86455											
ANO2	57101	broad.mit.edu	37	chr12	5721879	5721879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttccccaacatgatgatgCtgagctgaatgcagagctcc	10	9	10	12	0	0	5	0	4	0	1	2	5	2	5	3	0	5	5	3	0	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:5721879C>T	uc001qnm.2	-	20	2102	c.2030G>A	c.(2029-2031)AGC>AAC	p.S677N		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	682	Extracellular (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						CATGATGATGCTGAGCTGAAT	0.507													10	50					0	0	0.006214	0	0		T	5721879	T	T	5721879	3	4	157	1	0	0	0	0	1	0	0	0	697	797	28	2	994	2	ANO2	12	5721879	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	700731	5721879	128130016	896	86456											
VWF	7450	broad.mit.edu	37	chr12	6092336	6092336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggtgaagttgggtctgCactcgccagggttggtcagt	6	10	16	9	2	2	1	1	1	1	0	3	1	2	1	1	4	1	4	1	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:6092336C>T	uc001qnn.1	-	41	7311	c.7061G>A	c.(7060-7062)TGC>TAC	p.C2354Y	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2354					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GTTGGGTCTGCACTCGCCAGG	0.622													3	20					0	0	0.000602	0	0		T	6092336	T	T	6092336	3	4	157	1	0	0	0	0	1	0	0	0	17272	710	25	2	1428	2	VWF	12	6092336	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	370457	6092336	127759559	897	86457											
C12orf53	196500	broad.mit.edu	37	chr12	6806618	6806618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccgggattggcagagttggGgtcccctccatcctctcgag	5	10	13	13	2	1	1	0	0	1	1	6	3	5	2	5	4	0	2	5	4	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:6806618G>A	uc001qqf.1	-	3	434	c.358C>T	c.(358-360)CCC>TCC	p.P120S	C12orf53_uc001qqg.1_Missense_Mutation_p.P120S	NM_153685	NP_710152	Q8IYJ0	CL053_HUMAN	hypothetical protein LOC196500 precursor	120	Extracellular (Potential).					integral to membrane					0						GCAGAGTTGGGGTCCCCTCCA	0.617													13	43					0	0	0.003163	0	0		A	6806618	A	A	6806618	3	1	157	1	0	0	0	0	1	0	0	0	1701	1232	43	4	506	4	C12orf53	12	6806618	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	714282	6806618	127045277	898	86458											
CLSTN3	9746	broad.mit.edu	37	chr12	7293944	7293944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccctcatccatgacaatgGcctcatccacccaccccgaa	10	7	5	19	1	2	1	2	1	0	0	4	2	4	1	7	1	1	0	7	1	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:7293944G>A	uc001qsr.2	+	9	1708	c.1430G>A	c.(1429-1431)GGC>GAC	p.G477D	CLSTN3_uc001qss.2_Missense_Mutation_p.G489D	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	477	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CATGACAATGGCCTCATCCAC	0.562											OREG0021650	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	366					0	0	0.001855	0	0		A	7293944	A	A	7293944	3	1	157	1	0	0	0	0	1	0	0	0	3566	1203	42	2	1464	2	CLSTN3	12	7293944	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	487326	7293944	126557951	899	86459											
GDF3	9573	broad.mit.edu	37	chr12	7842986	7842986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaataacccgaaatttttccGggggttgtcattccaatcct	10	13	8	10	2	1	0	1	0	0	0	4	2	4	0	4	2	1	1	4	2	4	5	rs112895783	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:7842986G>A	uc001qte.2	-	2	619	c.583C>T	c.(583-585)CGG>TGG	p.R195W		NM_020634	NP_065685	Q9NR23	GDF3_HUMAN	growth differentiation factor 3 precursor	195			R -> Q (in MCOP7).		eye development|growth|skeletal system development	extracellular space	cytokine activity|growth factor activity			skin(3)|ovary(1)|lung(1)|central_nervous_system(1)	6						AAATTTTTCCGGGGGTTGTCA	0.473													8	135					0	0	0.004482	0	0		A	7842986	A	A	7842986	3	1	157	1	0	0	0	0	1	0	0	0	6330	1115	39	1	515	1	GDF3	12	7842986	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	549042	7842986	126008909	900	86460											
CLEC1A	51267	broad.mit.edu	37	chr12	10225945	10225945	+	Silent	SNP	A	C	C	1	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	agccaggccttgccactgtcAgggcgcaaaagccctgtcca	9	6	11	15	1	1	0	1	0	0	0	2	0	2	0	5	2	3	1	5	2	2	1	rs34926270		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:10225945A>C	uc001qxb.2	-	5	693	c.609T>G	c.(607-609)CCT>CCG	p.P203P	CLEC1A_uc009zhf.2_Silent_p.P115P|CLEC1A_uc001qxc.2_Silent_p.P115P|CLEC1A_uc001qxd.2_Silent_p.P160P|CLEC1A_uc010sgx.1_Silent_p.P101P	NM_016511	NP_057595	Q8NC01	CLC1A_HUMAN	C-type lectin-like receptor-1	203	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane|intracellular	sugar binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2						TGCCACTGTCAGGGCGCAAAA	0.443													8	108					0	0	0.004482	0	0		C	10225945	C	C	10225945	2	2	157	1	0	0	0	0	0	0	0	1	3508	175	7	5		5	CLEC1A	12	10225945	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2382959	10225945	123625950	901	86461											
TAS2R30	259293	broad.mit.edu	37	chr12	11286356	11286356	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	tcctcaatttgatcttccaaGtcacgtttccttcatattct	8	18	3	12	1	5	1	3	1	2	0	8	1	8	1	3	0	0	1	3	0	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:11286356G>C	uc009zhs.1	-	1	488	c.488C>G	c.(487-489)ACT>AGT	p.T163S	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_001097643	NP_001091112			type 2 taste receptor member 30												0						GATCTTCCAAGTCACGTTTCC	0.393													49	208					0	0	0.01441	0	0		C	11286356	C	C	11286356	3	2	157	1	0	0	0	0	1	0	0	0	15598	1029	36	5	475	5	TAS2R30	12	11286356	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1060411	11286356	122565539	902	86462											
DUSP16	80824	broad.mit.edu	37	chr12	12629784	12629784	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcaggagacctcaatgaTttccatgctgcccgaaaagc	11	10	8	12	1	2	2	2	1	1	1	4	4	3	2	3	1	3	1	3	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:12629784T>G	uc001rao.1	-	7	2613	c.1981A>C	c.(1981-1983)ATC>CTC	p.I661L	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Missense_Mutation_p.I513L	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	661					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		ACCTCAATGATTTCCATGCTG	0.403													56	182					0	0	0.01441	0	0		G	12629784	G	G	12629784	3	3	157	1	0	0	0	0	1	0	0	0	4822	1493	52	5	20	5	DUSP16	12	12629784	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1343428	12629784	121222111	903	86463											
PLBD1	79887	broad.mit.edu	37	chr12	14706188	14706188	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgatctcattgctcagggTttgagagccatagccagctc	9	11	11	10	0	2	2	2	2	1	1	4	4	2	2	2	1	4	3	2	1	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:14706188T>G	uc001rcc.1	-	2	435	c.274A>C	c.(274-276)ACC>CCC	p.T92P		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	92					lipid catabolic process	extracellular region	hydrolase activity				0						TTGCTCAGGGTTTGAGAGCCA	0.507													6	92					0	0	0.001168	0	0		G	14706188	G	G	14706188	3	3	157	1	0	0	0	0	1	0	0	0	12044	1725	60	5	1427	5	PLBD1	12	14706188	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2076404	14706188	119145707	904	86464											
GUCY2C	2984	broad.mit.edu	37	chr12	14781623	14781623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcaatttttttgaaatctgGtctcttttctggatcttcct	6	21	5	9	0	5	1	1	1	4	0	7	2	6	2	1	2	0	0	1	2	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:14781623G>A	uc001rcd.2	-	20	2343	c.2206C>T	c.(2206-2208)CCA>TCA	p.P736S		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	736	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TTGAAATCTGGTCTCTTTTCT	0.328													38	134					0	0	0.00623	0	0		A	14781623	A	A	14781623	3	1	157	1	0	0	0	0	1	0	0	0	6912	1261	44	4	1047	4	GUCY2C	12	14781623	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	75435	14781623	119070272	905	86465											
GUCY2C	2984	broad.mit.edu	37	chr12	14794028	14794028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatgtaccattccggtcccGacagctcaaagtgtagaagg	12	8	11	10	2	1	2	1	0	0	2	3	3	3	2	3	2	2	3	3	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:14794028G>A	uc001rcd.2	-	18	2193	c.2056C>T	c.(2056-2058)CGG>TGG	p.R686W		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	686	Cytoplasmic (Potential).|Protein kinase.				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TTCCGGTCCCGACAGCTCAAA	0.502													21	79					0	0	0.014323	0	0		A	14794028	A	A	14794028	3	1	157	1	0	0	0	0	1	0	0	0	6912	1057	37	1	1205	1	GUCY2C	12	14794028	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	12405	14794028	119057867	906	86466											
KIAA0528	9847	broad.mit.edu	37	chr12	22624384	22624384	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaaaatttacatggcaaagGcagcaggggatcatagatcg	15	8	12	6	1	1	1	1	0	0	1	2	2	1	2	0	4	2	4	0	4	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:22624384G>T	uc001rfq.2	-	20	2535	c.2307C>A	c.(2305-2307)TGC>TGA	p.C769*	KIAA0528_uc010sir.1_Nonsense_Mutation_p.C584*|KIAA0528_uc010sis.1_Nonsense_Mutation_p.C769*|KIAA0528_uc010sit.1_Nonsense_Mutation_p.C771*|KIAA0528_uc010siu.1_Nonsense_Mutation_p.C769*|KIAA0528_uc001rfr.2_Nonsense_Mutation_p.C760*	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	769							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CATGGCAAAGGCAGCAGGGGA	0.284													14	112					4.7546e-09	5.06358e-09	0.004007	1	0		T	22624384	T	T	22624384	4	4	157	1	0	0	0	0	0	1	0	0	8198	1195	42	5	719	5	KIAA0528	12	22624384	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7830356	22624384	111227511	907	86467											
ITPR2	3709	broad.mit.edu	37	chr12	26572039	26572039	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatgcaaaccaggacataCgccacgtgatagagaaaggc	16	4	11	10	2	0	2	0	1	0	1	0	4	0	3	2	2	4	2	2	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:26572039C>T	uc001rhg.2	-	50	7470	c.7053G>A	c.(7051-7053)GCG>GCA	p.A2351A	ITPR2_uc009zjg.1_Silent_p.A502A	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2351	Extracellular (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					CCAGGACATACGCCACGTGAT	0.448													14	58					0	0	0.001855	0	0		T	26572039	T	T	26572039	2	4	157	1	0	0	0	0	0	0	0	1	7937	523	19	1		1	ITPR2	12	26572039	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3947655	26572039	107279856	908	86468											
KLHDC5	57542	broad.mit.edu	37	chr12	27950767	27950767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagagaccatctacatcGtgggggggtgtctccacgag	9	8	15	9	2	2	1	0	0	2	1	4	4	2	2	2	4	1	0	2	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:27950767G>A	uc001rij.2	+	3	1263	c.1186G>A	c.(1186-1188)GTG>ATG	p.V396M	KLHDC5_uc009zjj.2_RNA	NM_020782	NP_065833	Q9P2K6	KLDC5_HUMAN	kelch domain containing 5	396	Kelch 5.									ovary(1)|central_nervous_system(1)	2	Lung SC(9;0.0873)					CATCTACATCGTGGGGGGGTG	0.597													48	171					0	0	0.01441	0	0		A	27950767	A	A	27950767	3	1	157	1	0	0	0	0	1	0	0	0	8375	1145	40	1	1196	1	KLHDC5	12	27950767	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1378728	27950767	105901128	909	86469											
PTHLH	5744	broad.mit.edu	37	chr12	28122392	28122392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagctcagcaggaacacCgcgacgctccactgctgaac	10	5	11	15	4	1	1	1	1	0	0	2	3	2	2	2	1	5	5	2	1	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:28122392C>T	uc001rik.2	-	2	339	c.36G>A	c.(34-36)GCG>GCA	p.A12A	PTHLH_uc001ril.2_Silent_p.A12A|PTHLH_uc001rim.2_Silent_p.A12A|PTHLH_uc001rin.2_Silent_p.A12A	NM_198966	NP_945317	P12272	PTHR_HUMAN	parathyroid hormone-like hormone isoform 1	12					activation of adenylate cyclase activity by G-protein signaling pathway|cAMP metabolic process|cell-cell signaling|epidermis development|female pregnancy|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation	cytoplasm|extracellular space|nucleus	hormone activity|peptide hormone receptor binding			breast(1)	1	Lung SC(9;0.184)					GCAGGAACACCGCGACGCTCC	0.677													6	5					0	0	0.001168	0	0		T	28122392	T	T	28122392	2	4	157	1	0	0	0	0	0	0	0	1	12784	639	23	1		1	PTHLH	12	28122392	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	171625	28122392	105729503	910	86470											
IPO8	10526	broad.mit.edu	37	chr12	30784848	30784848	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgccaccgtccgtcggtgCtctgccagtgtgtacacctc	4	10	10	17	3	1	0	0	0	1	0	4	0	2	0	6	1	4	2	6	1	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:30784848C>T	uc001rjd.2	-	24	3167	c.2997G>A	c.(2995-2997)GAG>GAA	p.E999E	IPO8_uc001rje.1_Silent_p.E488E|IPO8_uc010sjt.1_Silent_p.E794E	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	999					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					TCCGTCGGTGCTCTGCCAGTG	0.587													24	55					0	0	0.008361	0	0		T	30784848	T	T	30784848	2	4	157	1	0	0	0	0	0	0	0	1	7814	796	28	2		2	IPO8	12	30784848	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2662456	30784848	103067047	911	86471											
LRRK2	120892	broad.mit.edu	37	chr12	40717061	40717061	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgcctagaaatattatgtTgaataatgatgagttggaat	14	14	9	4	0	0	4	0	3	0	1	0	5	0	5	2	1	1	2	2	1	7	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:40717061T>C	uc001rmg.3	+	38	5730	c.5609T>C	c.(5608-5610)TTG>TCG	p.L1870S	LRRK2_uc009zjw.2_Missense_Mutation_p.L708S|LRRK2_uc001rmi.2_Missense_Mutation_p.L703S	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1870			L -> F.		activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AATATTATGTTGAATAATGAT	0.353													22	101					0	0	0.014323	0	0		C	40717061	C	C	40717061	3	2	157	1	0	0	0	0	1	0	0	0	9051	1821	63	3	5759	3	LRRK2	12	40717061	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	9932213	40717061	93134834	912	86472											
NELL2	4753	broad.mit.edu	37	chr12	45269072	45269072	+	Silent	SNP	C	T	T	0	0	0	1	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	tgacgcactccggtcgtggaCtccccaagttctaactctgt	7	11	9	14	3	2	1	0	1	2	0	5	2	4	2	3	2	1	2	3	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:45269072C>T	uc001rog.2	-	2	715	c.120G>A	c.(118-120)GAG>GAA	p.E40E	NELL2_uc001rof.3_Silent_p.E39E|NELL2_uc001roh.2_Silent_p.E40E|NELL2_uc009zkd.2_Silent_p.E39E|NELL2_uc010skz.1_Silent_p.E90E|NELL2_uc010sla.1_Silent_p.E63E|NELL2_uc001roi.1_Silent_p.E40E|NELL2_uc010slb.1_Silent_p.E39E|NELL2_uc001roj.2_Silent_p.E40E	NM_001145108	NP_001138580	Q99435	NELL2_HUMAN	NEL-like protein 2 isoform b precursor	40	TSP N-terminal.				cell adhesion	extracellular region	calcium ion binding|protein binding|structural molecule activity			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4	Lung SC(27;0.192)	Lung NSC(34;0.144)		GBM - Glioblastoma multiforme(48;0.092)		CGGTCGTGGACTCCCCAAGTT	0.547													11	42					0	0	0.008291	0	0		T	45269072	T	T	45269072	2	4	157	1	0	0	0	0	0	0	0	1	10353	564	20	4		4	NELL2	12	45269072	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4552011	45269072	88582823	913	86473											
SENP1	29843	broad.mit.edu	37	chr12	48477525	48477525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgatggtttgactttcccGcaaaactgtttgataatcca	11	14	8	8	1	0	3	0	3	0	0	2	3	2	3	2	1	1	3	2	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:48477525G>A	uc001rqx.2	-	6	847	c.401C>T	c.(400-402)GCG>GTG	p.A134V	SENP1_uc001rqw.2_Missense_Mutation_p.A134V|SENP1_uc001rqy.2_5'UTR|SENP1_uc001rqz.2_5'UTR|SENP1_uc009zkx.2_Missense_Mutation_p.A134V	NM_014554	NP_055369	Q9P0U3	SENP1_HUMAN	sentrin/SUMO-specific protease 1	134	Ser-rich.				activation of caspase activity|induction of apoptosis by extracellular signals|protein desumoylation|proteolysis	cytoplasm|nucleus	endopeptidase activity|SUMO-specific protease activity			pancreas(2)|lung(1)	3		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)				TGACTTTCCCGCAAAACTGTT	0.333													22	106					0	0	0.014323	0	0		A	48477525	A	A	48477525	3	1	157	1	0	0	0	0	1	0	0	0	14071	1087	38	1	1582	1	SENP1	12	48477525	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3208453	48477525	85374370	914	86474											
MLL2	8085	broad.mit.edu	37	chr12	49445038	49445038	+	Missense_Mutation	SNP	T	C	C	0	1	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	agacaggtgcggctcctcagTctggggggacaggtgcaatt	8	8	16	9	1	2	1	1	0	1	1	3	2	3	2	1	6	2	2	1	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:49445038T>C	uc001rta.3	-	10	2428	c.2428A>G	c.(2428-2430)ACT>GCT	p.T810A		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	810	Pro-rich.			Missing (in Ref. 1; AAC51734).	chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGCTCCTCAGTCTGGGGGGAC	0.632			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			8	44					0	0	0.004482	0	0		C	49445038	C	C	49445038	3	2	157	1	0	0	0	0	1	0	0	0	9639	1667	58	3	14365	3	MLL2	12	49445038	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	967513	49445038	84406857	915	86475											
KCNH3	23416	broad.mit.edu	37	chr12	49948198	49948198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccgacgtgaaggggctgaCgtactgcgtcctgcagtgtc	6	9	15	11	4	0	2	0	2	0	0	2	3	1	2	2	2	4	3	2	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:49948198C>T	uc001ruh.1	+	11	2257	c.1997C>T	c.(1996-1998)ACG>ATG	p.T666M	KCNH3_uc010smj.1_Missense_Mutation_p.T606M	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	666	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						AAGGGGCTGACGTACTGCGTC	0.662													21	91					0	0	0.003954	0	0		T	49948198	T	T	49948198	3	4	157	1	0	0	0	0	1	0	0	0	8049	536	19	1	2039	1	KCNH3	12	49948198	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	503160	49948198	83903697	916	86476											
AQP6	363	broad.mit.edu	37	chr12	50369275	50369275	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gggtggggcccctgatgggaGccctcctggcctcactgatc	4	8	15	14	0	1	2	1	2	0	0	3	3	2	3	5	5	1	0	5	5	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:50369275G>A	uc001rvr.1	+	4	1007	c.670G>A	c.(670-672)GCC>ACC	p.A224T	AQP6_uc001rvp.1_Missense_Mutation_p.A50T|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	224	Helical; (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						CCTGATGGGAGCCCTCCTGGC	0.642													62	251					0	0	0.01441	0	0		A	50369275	A	A	50369275	3	1	157	1	0	0	0	0	1	0	0	0	830	971	34	2	684	2	AQP6	12	50369275	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	421077	50369275	83482620	917	86477											
DIP2B	57609	broad.mit.edu	37	chr12	51054033	51054033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcataaagaacagaagatgGctttgcccatgccaaccaaa	17	6	8	10	0	0	3	0	0	0	3	0	3	0	3	3	1	5	2	3	1	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:51054033G>A	uc001rwv.2	+	4	514	c.358G>A	c.(358-360)GCT>ACT	p.A120T	DIP2B_uc001rwu.2_Missense_Mutation_p.A120T|DIP2B_uc009zls.1_Missense_Mutation_p.A2T	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	120						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						ACAGAAGATGGCTTTGCCCAT	0.453													50	165					0	0	0.01441	0	0		A	51054033	A	A	51054033	3	1	157	1	0	0	0	0	1	0	0	0	4534	1203	42	2	372	2	DIP2B	12	51054033	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	684758	51054033	82797862	918	86478											
KRT73	319101	broad.mit.edu	37	chr12	53009982	53009982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctccaccacttcgcgcacGctcctcagctccgagtccag	6	8	7	20	4	1	0	1	0	0	0	7	1	6	0	6	0	1	3	6	0	0	1	rs116369374	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:53009982G>A	uc001sas.2	-	2	665	c.630C>T	c.(628-630)AGC>AGT	p.S210S		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	210	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTTCGCGCACGCTCCTCAGCT	0.622													15	170					0	0	0.00245	0	0		A	53009982	A	A	53009982	2	1	157	1	0	0	0	0	0	0	0	1	8502	1078	38	1		1	KRT73	12	53009982	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1955949	53009982	80841913	919	86479											
KRT3	3850	broad.mit.edu	37	chr12	53189265	53189265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttgcccaatctgggggtCgatctccacattgaggggct	7	11	12	11	1	2	1	0	1	2	0	4	2	2	1	2	4	2	1	2	4	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:53189265C>T	uc001say.2	-	1	628	c.562G>A	c.(562-564)GAC>AAC	p.D188N		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	188	Head.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						ATCTGGGGGTCGATCTCCACA	0.537													14	70					0	0	0.00245	0	0		T	53189265	T	T	53189265	3	4	157	1	0	0	0	0	1	0	0	0	8482	884	31	1	1360	1	KRT3	12	53189265	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	179283	53189265	80662630	920	86480											
TENC1	23371	broad.mit.edu	37	chr12	53448186	53448186	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggggccacctgcgcgagctGgcccatgtgctgcaatccaa	7	6	13	15	3	0	0	0	0	0	0	1	1	1	0	4	3	4	3	4	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:53448186G>A	uc001sbp.2	+	7	618	c.483G>A	c.(481-483)CTG>CTA	p.L161L	uc001sbk.1_RNA|TENC1_uc001sbl.2_Silent_p.L37L|TENC1_uc001sbm.2_Silent_p.L171L|TENC1_uc001sbn.2_Silent_p.L171L|TENC1_uc001sbo.1_Silent_p.L161L	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	161	Phosphatase tensin-type.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						TGCGCGAGCTGGCCCATGTGC	0.672													5	32					0	0	0.00308	0	0		A	53448186	A	A	53448186	2	1	157	1	0	0	0	0	0	0	0	1	15783	1335	47	4		4	TENC1	12	53448186	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	258921	53448186	80403709	921	86481											
ITGB7	3695	broad.mit.edu	37	chr12	53586138	53586138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttggggtctcactctgagcaCgaccgtgcctctggcgtcat	5	11	12	13	3	4	1	2	1	3	0	5	2	4	1	2	3	2	1	2	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:53586138C>T	uc009zmv.2	-	13	2202	c.2131G>A	c.(2131-2133)GTG>ATG	p.V711M	ITGB7_uc001scc.2_Missense_Mutation_p.V711M|ITGB7_uc010snz.1_RNA	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	711	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						ACTCTGAGCACGACCGTGCCT	0.562													21	106					0	0	0.010504	0	0		T	53586138	T	T	53586138	3	4	157	1	0	0	0	0	1	0	0	0	7916	536	19	1	277	1	ITGB7	12	53586138	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	137952	53586138	80265757	922	86482											
ESPL1	9700	broad.mit.edu	37	chr12	53679949	53679949	+	Silent	SNP	A	G	G	1	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	cccaacttcctgtcccattcAcccacctgtgactgctcgct	6	11	5	19	1	1	1	1	1	0	0	4	1	3	1	5	0	2	2	5	0	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:53679949A>G	uc001sck.2	+	18	3520	c.3429A>G	c.(3427-3429)TCA>TCG	p.S1143S	ESPL1_uc001scj.2_Silent_p.S818S|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1143					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TGTCCCATTCACCCACCTGTG	0.617													27	145					0	0	0.010818	0	0		G	53679949	G	G	53679949	2	3	157	1	0	0	0	0	0	0	0	1	5261	146	6	3		3	ESPL1	12	53679949	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	93811	53679949	80171946	923	86483											
AMHR2	269	broad.mit.edu	37	chr12	53818998	53818998	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctggggctgttcctcctcctCctgctgctgctgggcagcat	2	12	12	15	0	0	0	0	0	0	0	4	0	4	0	4	3	4	7	4	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:53818998C>G	uc001scx.1	+	4	552	c.474C>G	c.(472-474)CTC>CTG	p.L158L	AMHR2_uc009zmy.1_Silent_p.L158L	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	158	Helical; (Potential).				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	TCCTCCTCCTCCTGCTGCTGC	0.582									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				23	119					0	0	0.005443	0	0		G	53818998	G	G	53818998	2	3	157	1	0	0	0	0	0	0	0	1	573	842	30	5		5	AMHR2	12	53818998	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	139049	53818998	80032897	924	86484											
HOXC13	3229	broad.mit.edu	37	chr12	54338951	54338951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccacgaacctctctgagCgccaggtaaccatctggttc	9	8	8	16	2	2	1	0	1	2	0	4	2	2	1	5	2	3	2	5	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:54338951C>T	uc001sei.2	+	2	1019	c.904C>T	c.(904-906)CGC>TGC	p.R302C	HOXC13_uc010sop.1_RNA	NM_017410	NP_059106	P31276	HXC13_HUMAN	homeobox C13	302	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						CCTCTCTGAGCGCCAGGTAAC	0.572			T	NUP98	AML								14	59					0	0	0.004007	0	0		T	54338951	T	T	54338951	3	4	157	1	0	0	0	0	1	0	0	0	7328	768	27	1	910	1	HOXC13	12	54338951	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	519953	54338951	79512944	925	86485											
HOXC10	3226	broad.mit.edu	37	chr12	54379398	54379398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatgtacagcgcagagaagCgggcgaaaagtggccccgag	12	3	16	10	4	0	1	0	0	0	1	0	4	0	1	2	2	3	3	2	2	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:54379398C>T	uc001sen.2	+	1	453	c.355C>T	c.(355-357)CGG>TGG	p.R119W		NM_017409	NP_059105	Q9NYD6	HXC10_HUMAN	homeobox C10	119					positive regulation of cell proliferation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1						CGCAGAGAAGCGGGCGAAAAG	0.627													12	64					0	0	0.00245	0	0		T	54379398	T	T	54379398	3	4	157	1	0	0	0	0	1	0	0	0	7325	759	27	1	357	1	HOXC10	12	54379398	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	40447	54379398	79472497	926	86486											
HOXC5	3222	broad.mit.edu	37	chr12	54427288	54427288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcaggcgcagacagggcagCccgccggactgagccagcca	10	1	15	15	3	0	2	0	1	0	1	0	3	0	3	4	3	4	3	4	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:54427288C>T	uc001sew.2	+	1	457	c.382C>T	c.(382-384)CCC>TCC	p.P128S	HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron|MIR615_hsa-mir-615|MI0003628_5'Flank	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	128					regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GACAGGGCAGCCCGCCGGACT	0.617													5	3					0	0	0.000602	0	0		T	54427288	T	T	54427288	3	4	157	1	0	0	0	0	1	0	0	0	7330	739	26	2	384	2	HOXC5	12	54427288	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	47890	54427288	79424607	927	86487											
HOXC5	3222	broad.mit.edu	37	chr12	54428259	54428259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaagattccaaaatgaaaAgcaaagaggctctttagagg	19	7	10	5	0	1	5	0	1	1	4	2	5	2	5	1	2	1	2	1	2	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:54428259A>G	uc001sew.2	+	2	727	c.652A>G	c.(652-654)AGC>GGC	p.S218G	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	218					regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CAAAATGAAAAGCAAAGAGGC	0.522													15	43					0	0	0.00245	0	0		G	54428259	G	G	54428259	3	3	157	1	0	0	0	0	1	0	0	0	7330	72	3	3	658	3	HOXC5	12	54428259	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	971	54428259	79423636	928	86488											
SMUG1	23583	broad.mit.edu	37	chr12	54576034	54576034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagagcccgtcgtgccCgctgctctgccagtcgccca	4	7	11	19	4	1	1	0	0	1	1	3	1	1	1	5	0	5	2	5	0	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:54576034C>T	uc001sff.1	-	4	788	c.659G>A	c.(658-660)CGG>CAG	p.R220Q	SMUG1_uc001sfa.1_RNA|SMUG1_uc001sfe.1_3'UTR|SMUG1_uc001sfg.1_Missense_Mutation_p.R220Q|SMUG1_uc009znf.1_Missense_Mutation_p.R220Q|SMUG1_uc001sfb.3_Intron|SMUG1_uc001sfc.3_Intron|SMUG1_uc001sfd.3_Intron	NM_014311	NP_055126	Q53HV7	SMUG1_HUMAN	single-strand-selective monofunctional	220					depyrimidination	nucleolus|nucleoplasm	DNA binding|protein binding|single-strand selective uracil DNA N-glycosylase activity				0						CCGTCGTGCCCGCTGCTCTGC	0.667								BER_DNA_glycosylases					12	37					0	0	0.00499	0	0		T	54576034	T	T	54576034	3	4	157	1	0	0	0	0	1	0	0	0	14843	652	23	1	157	1	SMUG1	12	54576034	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	147775	54576034	79275861	929	86489											
SLC39A5	283375	broad.mit.edu	37	chr12	56629008	56629008	+	Silent	SNP	G	A	A	0	0	1	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	cccctatccctgctgctgctGcggctcctgggacctcgtct	2	11	10	18	2	1	0	0	0	1	0	4	1	3	1	5	2	4	4	5	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:56629008G>A	uc010sqj.1	+	7	959	c.702G>A	c.(700-702)CTG>CTA	p.L234L	SLC39A5_uc010sqi.1_Silent_p.L125L|SLC39A5_uc010sqk.1_Silent_p.L234L	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	234	Cytoplasmic (Potential).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						TGCTGCTGCTGCGGCTCCTGG	0.637													12	215					0	0	0.010504	0	0		A	56629008	A	A	56629008	2	1	157	1	0	0	0	0	0	0	0	1	14646	1306	46	2		2	SLC39A5	12	56629008	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2052974	56629008	77222887	930	86490											
SLC39A5	283375	broad.mit.edu	37	chr12	56630979	56630979	+	Missense_Mutation	SNP	T	G	G	0	1	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	agggctgtcctttcggcggcTgctgctgctgagcctcgtgt	2	12	15	12	3	0	1	0	1	0	0	3	1	1	1	2	3	4	5	2	3	0	1	rs145213363		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:56630979T>G	uc010sqj.1	+	12	1591	c.1334T>G	c.(1333-1335)CTG>CGG	p.L445R	SLC39A5_uc010sqk.1_Missense_Mutation_p.L445R	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	445	Helical; (Potential).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						TTTCGGCGGCTGCTGCTGCTG	0.642													7	39					0	0	0.006122	0	0		G	56630979	G	G	56630979	3	3	157	1	0	0	0	0	1	0	0	0	14646	1580	55	5	1368	5	SLC39A5	12	56630979	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1971	56630979	77220916	931	86491											
ANKRD52	283373	broad.mit.edu	37	chr12	56639302	56639302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaggtgaatgggcgtgcGgcccttaaagtctcggcaca	8	7	15	11	3	1	1	0	1	1	0	2	1	1	1	2	5	1	1	2	5	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:56639302G>A	uc001skm.3	-	21	2353	c.2263C>T	c.(2263-2265)CGC>TGC	p.R755C		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	755	ANK 22.						protein binding			ovary(2)	2						ATGGGCGTGCGGCCCTTAAAG	0.632													17	55					0	0	0.006122	0	0		A	56639302	A	A	56639302	3	1	157	1	0	0	0	0	1	0	0	0	678	1116	39	1	999	1	ANKRD52	12	56639302	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8323	56639302	77212593	932	86492											
APOF	319	broad.mit.edu	37	chr12	56755073	56755073	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgattatggcccacccccagTagggagctgaacttactact	10	10	9	12	0	0	2	0	2	0	0	0	3	0	3	3	2	4	2	3	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:56755073T>C	uc001sle.1	-	2	971	c.917A>G	c.(916-918)TAC>TGC	p.Y306C		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	306					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						CCACCCCCAGTAGGGAGCTGA	0.443													29	88					0	0	0.00632	0	0		C	56755073	C	C	56755073	3	2	157	1	0	0	0	0	1	0	0	0	803	1638	57	3	67	3	APOF	12	56755073	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	115771	56755073	77096822	933	86493											
LRP1	4035	broad.mit.edu	37	chr12	57567028	57567028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatgcatccccctgcggtggCgctgcgatggggacactgac	6	8	14	13	3	0	1	0	1	0	0	1	3	1	2	2	4	3	2	2	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:57567028C>T	uc001snd.2	+	21	3707	c.3241C>T	c.(3241-3243)CGC>TGC	p.R1081C		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	1081	Extracellular (Potential).|LDL-receptor class A 8.				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	CCTGCGGTGGCGCTGCGATGG	0.627											OREG0021936	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	45					0	0	0.008291	0	0		T	57567028	T	T	57567028	3	4	157	1	0	0	0	0	1	0	0	0	8969	768	27	1	3323	1	LRP1	12	57567028	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	811955	57567028	76284867	934	86494											
DPY19L2	283417	broad.mit.edu	37	chr12	63976277	63976277	+	Missense_Mutation	SNP	A	G	G	1	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	aaatggcaagggcagtaaacActaacaactgcaatgtgtga	17	7	10	7	0	0	1	0	1	0	0	0	1	0	1	0	2	4	4	0	2	7	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:63976277A>G	uc001srp.1	-	18	1815	c.1634T>C	c.(1633-1635)GTG>GCG	p.V545A	DPY19L2_uc010sso.1_5'UTR	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	545	Helical; (Potential).				multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		GGCAGTAAACACTAACAACTG	0.328													6	52					0	0	0.00308	0	0		G	63976277	G	G	63976277	3	3	157	1	0	0	0	0	1	0	0	0	4747	159	6	3	662	3	DPY19L2	12	63976277	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6409249	63976277	69875618	935	86495											
DPY19L2	283417	broad.mit.edu	37	chr12	64061905	64061905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccttttcccggagctgcGccagggaattacggacgaac	9	7	12	13	4	0	0	0	0	0	0	1	4	1	3	3	3	4	2	3	3	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:64061905G>A	uc001srp.1	-	1	450	c.269C>T	c.(268-270)GCG>GTG	p.A90V	DPY19L2_uc009zqk.1_RNA	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	90					multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		CCGGAGCTGCGCCAGGGAATT	0.602													34	124					0	0	0.003271	0	0		A	64061905	A	A	64061905	3	1	157	1	0	0	0	0	1	0	0	0	4747	1087	38	1	2095	1	DPY19L2	12	64061905	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	85628	64061905	69789990	936	86496											
GRIP1	23426	broad.mit.edu	37	chr12	66990656	66990656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgtctcctcacagccaacGctccatcaggcggctttgtc	6	11	8	16	2	4	0	2	0	2	0	7	0	5	0	3	2	2	2	3	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:66990656G>A	uc001stk.2	-	2	348	c.107C>T	c.(106-108)GCG>GTG	p.A36V	GRIP1_uc010sta.1_Intron|GRIP1_uc001stm.2_Missense_Mutation_p.A36V	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	36					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		CACAGCCAACGCTCCATCAGG	0.428													23	77					0	0	0.005443	0	0		A	66990656	A	A	66990656	3	1	157	1	0	0	0	0	1	0	0	0	6803	1087	38	1	3215	1	GRIP1	12	66990656	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2928751	66990656	66861239	937	86497											
CAND1	55832	broad.mit.edu	37	chr12	67706561	67706561	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggcggctatctttgaaagtaTccagaaagattcatcatcta	13	12	8	8	1	4	3	2	1	2	2	5	3	5	3	1	2	0	2	1	2	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:67706561T>C	uc001stn.2	+	15	4081	c.3644T>C	c.(3643-3645)ATC>ACC	p.I1215T	CAND1_uc001sto.2_Missense_Mutation_p.I725T	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	1215					cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		TTTGAAAGTATCCAGAAAGAT	0.423													29	116					0	0	0.009535	0	0		C	67706561	C	C	67706561	3	2	157	1	0	0	0	0	1	0	0	0	2618	1435	50	3	3702	3	CAND1	12	67706561	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	715905	67706561	66145334	938	86498											
YEATS4	8089	broad.mit.edu	37	chr12	69753804	69753804	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actccggcgggagagtaaagGtcagtgcccggaccgcccct	8	5	14	14	4	1	1	1	0	0	1	2	3	2	2	5	4	1	1	5	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:69753804G>A	uc001sux.2	+	1	272	c.51_splice	c.e1+1	p.K17_splice		NM_006530	NP_006521	O95619	YETS4_HUMAN	glioma-amplified sequence-41						histone H2A acetylation|histone H4 acetylation|mitosis|positive regulation of transcription, DNA-dependent|regulation of growth	NuA4 histone acetyltransferase complex|nuclear matrix	DNA binding|protein C-terminus binding|sequence-specific DNA binding transcription factor activity|structural constituent of cytoskeleton				0	all_epithelial(5;9.25e-35)|Breast(13;9.83e-07)|Esophageal squamous(21;0.187)		Epithelial(6;6.89e-18)|BRCA - Breast invasive adenocarcinoma(5;3.14e-09)|Lung(24;9.68e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|OV - Ovarian serous cystadenocarcinoma(12;0.00691)|STAD - Stomach adenocarcinoma(21;0.0151)|LUSC - Lung squamous cell carcinoma(43;0.24)|Kidney(9;0.241)			GAGAGTAAAGGTCAGTGCCCG	0.662													6	25					0	0	0.001168	0	0		A	69753804	A	A	69753804	5	1	157	1	0	0	0	0	0	0	1	0	17499	1275	44	4	54	4	YEATS4	12	69753804	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2047243	69753804	64098091	939	86499											
TRHDE	29953	broad.mit.edu	37	chr12	73050744	73050744	+	Missense_Mutation	SNP	A	G	G	1	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	ttatgaattccaaactcatcAgtggtgtcacagaatttctt	12	15	6	8	0	4	2	3	1	1	1	5	2	5	2	1	1	1	0	1	1	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:73050744A>G	uc001sxa.2	+	18	2917	c.2887A>G	c.(2887-2889)AGT>GGT	p.S963G		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	963	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CAAACTCATCAGTGGTGTCAC	0.259													40	155					0	0	0.01441	0	0		G	73050744	G	G	73050744	3	3	157	1	0	0	0	0	1	0	0	0	16505	188	7	3	2957	3	TRHDE	12	73050744	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	3296940	73050744	60801151	940	86500											
NAV3	89795	broad.mit.edu	37	chr12	78569092	78569092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctctattgctagatcttcGcatcagaagacagcattcct	10	12	6	13	1	3	3	1	0	2	3	5	3	4	3	2	0	2	3	2	0	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:78569092G>A	uc001syp.2	+	25	5161	c.4988G>A	c.(4987-4989)CGC>CAC	p.R1663H	NAV3_uc001syo.2_Missense_Mutation_p.R1663H|NAV3_uc010sub.1_Missense_Mutation_p.R1149H|NAV3_uc009zsf.2_Missense_Mutation_p.R494H	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1663						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTAGATCTTCGCATCAGAAGA	0.428										HNSCC(70;0.22)			20	93					0	0	0.008871	0	0		A	78569092	A	A	78569092	3	1	157	1	0	0	0	0	1	0	0	0	10203	1087	38	1	5086	1	NAV3	12	78569092	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5518348	78569092	55282803	941	86501											
TMTC2	160335	broad.mit.edu	37	chr12	83455558	83455558	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttttacagacaggctagccTcaatgaagcagctgagaagt	13	9	10	9	0	1	3	1	2	0	2	1	4	1	3	1	1	4	3	1	1	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:83455558T>C	uc001szt.2	+	11	2711	c.2279T>C	c.(2278-2280)CTC>CCC	p.L760P	TMTC2_uc010suk.1_Missense_Mutation_p.L515P	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	760	TPR 9.					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2						CAGGCTAGCCTCAATGAAGCA	0.328													5	111					0	0	0.013537	0	0		C	83455558	C	C	83455558	3	2	157	1	0	0	0	0	1	0	0	0	16286	1551	54	3	2321	3	TMTC2	12	83455558	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4886466	83455558	50396337	942	86502											
POC1B	282809	broad.mit.edu	37	chr12	89864258	89864258	+	Silent	SNP	T	C	C	0	1	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	tggaatgatatgcaattaacTccaccgctgtgaactgattt	12	13	8	8	1	0	3	0	3	0	0	1	4	1	4	2	1	3	2	2	1	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:89864258T>C	uc001tbc.2	-	7	795	c.690A>G	c.(688-690)GGA>GGG	p.G230G	POC1B_uc001tba.2_Silent_p.G188G|POC1B_uc001tbb.2_Silent_p.G100G|POC1B_uc010sun.1_RNA|POC1B_uc009zsp.2_RNA|POC1B_uc009zsq.2_Intron	NM_172240	NP_758440	Q8TC44	POC1B_HUMAN	WD repeat domain 51B	230	WD 6.				cell projection organization	centriole|microtubule basal body				ovary(1)	1						TGCAATTAACTCCACCGCTGT	0.388													5	103					0	0	0.001984	0	0		C	89864258	C	C	89864258	2	2	157	1	0	0	0	0	0	0	0	1	12195	1538	54	3		3	POC1B	12	89864258	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	6408700	89864258	43987637	943	86503											
NR2C1	7181	broad.mit.edu	37	chr12	95443007	95443007	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cttttgcaagagtgtcaaatGccctgtatgaagacatcaga	13	11	9	8	0	2	4	2	1	0	3	2	4	2	4	1	0	2	2	1	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:95443007G>A	uc001tdm.3	-	9	1224	c.968C>T	c.(967-969)GCA>GTA	p.A323V	NR2C1_uc010suu.1_Missense_Mutation_p.A323V|NR2C1_uc001tdo.3_Missense_Mutation_p.A323V|NR2C1_uc001tdn.3_Missense_Mutation_p.A323V	NM_003297	NP_003288	P13056	NR2C1_HUMAN	nuclear receptor subfamily 2, group C, member 1	323					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	PML body	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1						AGTGTCAAATGCCCTGTATGA	0.423													37	125					0	0	0.004289	0	0		A	95443007	A	A	95443007	3	1	157	1	0	0	0	0	1	0	0	0	10641	1319	46	2	945	2	NR2C1	12	95443007	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5578749	95443007	38408888	944	86504											
FGD6	55785	broad.mit.edu	37	chr12	95604038	95604038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctactgtctgaattccccGgttcttcagtgctttcacta	7	15	7	12	1	4	1	2	1	2	0	5	1	5	1	2	1	3	3	2	1	3	6	rs150209312		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:95604038G>A	uc001tdp.3	-	2	1246	c.1022C>T	c.(1021-1023)CCG>CTG	p.P341L	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	341					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						TGAATTCCCCGGTTCTTCAGT	0.413													52	207					0	0	0.01441	0	0		A	95604038	A	A	95604038	3	1	157	1	0	0	0	0	1	0	0	0	5851	1116	39	1	3350	1	FGD6	12	95604038	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	161031	95604038	38247857	945	86505											
AMDHD1	144193	broad.mit.edu	37	chr12	96350720	96350720	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcatctcggctacctactgCggggctcattcagtgcctaa	7	10	11	13	2	3	0	2	0	1	0	4	0	3	0	2	4	4	3	2	4	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:96350720C>T	uc001tel.1	+	4	673	c.567C>T	c.(565-567)TGC>TGT	p.C189C	AMDHD1_uc009zth.1_Silent_p.C80C	NM_152435	NP_689648	Q96NU7	HUTI_HUMAN	amidohydrolase domain containing 1	189					histidine catabolic process to glutamate and formamide	cytosol	imidazolonepropionase activity|metal ion binding			central_nervous_system(1)	1						CTACCTACTGCGGGGCTCATT	0.597													33	156					0	0	0.010818	0	0		T	96350720	T	T	96350720	2	4	157	1	0	0	0	0	0	0	0	1	567	776	27	1		1	AMDHD1	12	96350720	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	746682	96350720	37501175	946	86506											
ELK3	2004	broad.mit.edu	37	chr12	96641215	96641215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgctgccagtatttcatcCgcctcacccttctcatctcg	7	12	5	17	3	4	0	3	0	2	0	7	0	5	0	4	0	2	2	4	0	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:96641215C>T	uc001teo.1	+	3	984	c.705C>T	c.(703-705)TCC>TCT	p.S235S		NM_005230	NP_005221	P41970	ELK3_HUMAN	ELK3 protein	235					negative regulation of transcription, DNA-dependent|signal transduction	mitochondrion	protein binding|purine-rich negative regulatory element binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	all_cancers(2;0.00173)					GTATTTCATCCGCCTCACCCT	0.617													42	150					0	0	0.010771	0	0		T	96641215	T	T	96641215	2	4	157	1	0	0	0	0	0	0	0	1	5068	639	23	1		1	ELK3	12	96641215	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	290495	96641215	37210680	947	86507											
IGF1	3479	broad.mit.edu	37	chr12	102813396	102813396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccttagatcacagctcCggaagcagcactcatccacg	10	7	8	16	2	2	1	2	0	0	1	5	2	5	2	4	1	3	3	4	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:102813396C>T	uc001tjp.3	-	3	512	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	IGF1_uc001tjn.2_Missense_Mutation_p.R82Q|IGF1_uc001tjm.2_Missense_Mutation_p.R98Q|IGF1_uc001tjo.2_Missense_Mutation_p.R98Q	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	98	A.				anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						ATCACAGCTCCGGAAGCAGCA	0.597													17	43					0	0	0.004007	0	0		T	102813396	T	T	102813396	3	4	157	1	0	0	0	0	1	0	0	0	7586	652	23	1	366	1	IGF1	12	102813396	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6172181	102813396	31038499	948	86508											
KIAA1033	23325	broad.mit.edu	37	chr12	105540906	105540906	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaattcgaacacatggcacGggaattatgaatacaactgt	15	10	8	8	2	1	1	1	1	0	0	2	3	1	2	0	2	3	1	0	2	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:105540906G>A	uc001tld.2	+	24	2583	c.2496G>A	c.(2494-2496)ACG>ACA	p.T832T	KIAA1033_uc010swr.1_Silent_p.T833T|KIAA1033_uc010sws.1_Silent_p.T644T	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	832					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						CACATGGCACGGGAATTATGA	0.353													30	99					0	0	0.010818	0	0		A	105540906	A	A	105540906	2	1	157	1	0	0	0	0	0	0	0	1	8222	1103	39	1		1	KIAA1033	12	105540906	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2727510	105540906	28310989	949	86509											
ASCL4	121549	broad.mit.edu	37	chr12	108169016	108169016	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggagacgcgtaaaccggcGgaacggctggccttgccata	10	6	14	11	5	0	1	0	0	0	1	0	3	0	2	3	5	3	2	3	5	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:108169016G>A	uc001tmr.2	+	1	855	c.24G>A	c.(22-24)GCG>GCA	p.A8A		NM_203436	NP_982260	Q6XD76	ASCL4_HUMAN	achaete-scute complex-like 4	7					regulation of transcription from RNA polymerase II promoter|skin development|transcription, DNA-dependent	nucleus	DNA binding			central_nervous_system(1)	1						GTAAACCGGCGGAACGGCTGG	0.607													10	128					0	0	0.00245	0	0		A	108169016	A	A	108169016	2	1	157	1	0	0	0	0	0	0	0	1	1037	1103	39	1		1	ASCL4	12	108169016	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2628110	108169016	25682879	950	86510											
SELPLG	6404	broad.mit.edu	37	chr12	109017999	109017999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggggacccaaggctttctCggcttcatctgcccaggtgt	6	10	12	13	1	3	0	1	0	2	0	4	1	3	1	2	5	1	2	2	5	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:109017999C>T	uc001tni.2	-	2	245	c.85G>A	c.(85-87)GAG>AAG	p.E29K	SELPLG_uc001tnh.2_Missense_Mutation_p.E29K|SELPLG_uc010sxe.1_Missense_Mutation_p.E45K	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	29	Extracellular (Potential).			Missing (in Ref. 3; BAC05283).	blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						AAGGCTTTCTCGGCTTCATCT	0.572													18	92					0	0	0.007413	0	0		T	109017999	T	T	109017999	3	4	157	1	0	0	0	0	1	0	0	0	14045	893	31	1	1131	1	SELPLG	12	109017999	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	848983	109017999	24833896	951	86511											
ACACB	32	broad.mit.edu	37	chr12	109674983	109674983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctacagtttgcagaagatcGcatttaccgtcacttggaac	11	11	8	11	2	1	2	1	0	0	2	2	3	1	3	2	1	4	3	2	1	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:109674983G>A	uc001tob.2	+	34	4579	c.4460G>A	c.(4459-4461)CGC>CAC	p.R1487H	ACACB_uc001toc.2_Missense_Mutation_p.R1487H|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.R153H	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1487					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	GCAGAAGATCGCATTTACCGT	0.557													5	141					0	0	0.000602	0	0		A	109674983	A	A	109674983	3	1	157	1	0	0	0	0	1	0	0	0	107	1087	38	1	4590	1	ACACB	12	109674983	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	656984	109674983	24176912	952	86512											
UBE3B	89910	broad.mit.edu	37	chr12	109972426	109972426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactctgggcagcgtcctcCggggcttcttcaccatccgc	5	9	10	17	3	3	0	1	0	2	0	6	0	6	0	4	3	1	2	4	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:109972426C>T	uc001top.2	+	28	3649	c.3046C>T	c.(3046-3048)CGG>TGG	p.R1016W	UBE3B_uc001toq.2_Missense_Mutation_p.R1016W|UBE3B_uc001tos.2_Missense_Mutation_p.R443W|UBE3B_uc001tot.2_Missense_Mutation_p.R134W|UBE3B_uc010sxp.1_3'UTR	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	1016	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						CAGCGTCCTCCGGGGCTTCTT	0.632													15	29					0	0	0.007413	0	0		T	109972426	T	T	109972426	3	4	157	1	0	0	0	0	1	0	0	0	16906	643	23	1	3148	1	UBE3B	12	109972426	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	297443	109972426	23879469	953	86513											
TRPV4	59341	broad.mit.edu	37	chr12	110238533	110238533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacgtagtgtttgcagcgaCgctcaatggcgatgtgcagg	8	9	14	10	4	1	0	1	0	0	0	1	2	1	0	1	2	3	5	1	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:110238533C>T	uc001tpj.1	-	4	838	c.743G>A	c.(742-744)CGT>CAT	p.R248H	TRPV4_uc001tpg.1_Missense_Mutation_p.R214H|TRPV4_uc001tph.1_Intron|TRPV4_uc001tpi.1_Intron|TRPV4_uc001tpk.1_Missense_Mutation_p.R248H|TRPV4_uc001tpl.1_Missense_Mutation_p.R248H	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	248	Cytoplasmic (Potential).|ANK 1.				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						TTTGCAGCGACGCTCAATGGC	0.662													5	105					0	0	0.001168	0	0		T	110238533	T	T	110238533	3	4	157	1	0	0	0	0	1	0	0	0	16624	536	19	1	1920	1	TRPV4	12	110238533	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	266107	110238533	23613362	954	86514											
ANKRD13A	88455	broad.mit.edu	37	chr12	110457005	110457005	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtcaccaccgaacgcttCgacctttcccaagaaatgga	11	8	9	13	3	1	1	1	0	0	1	3	4	2	2	4	2	1	1	4	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:110457005C>T	uc001tpx.2	+	6	865	c.606C>T	c.(604-606)TTC>TTT	p.F202F	ANKRD13A_uc009zvl.1_RNA|ANKRD13A_uc009zvm.1_Silent_p.F202F|ANKRD13A_uc010sxw.1_Silent_p.F202F	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13	202											0						CCGAACGCTTCGACCTTTCCC	0.488													35	149					0	0	0.003755	0	0		T	110457005	T	T	110457005	2	4	157	1	0	0	0	0	0	0	0	1	641	883	31	1		1	ANKRD13A	12	110457005	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	218472	110457005	23394890	955	86515											
ATXN2	6311	broad.mit.edu	37	chr12	111954043	111954043	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacgggggtctggatggccgCgaggggggcctggagggcgg	4	4	25	8	4	1	0	0	0	1	0	1	4	1	2	2	10	0	0	2	10	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:111954043C>T	uc001tsj.2	-	10	1932	c.1770G>A	c.(1768-1770)TCG>TCA	p.S590S	ATXN2_uc001tsh.2_Silent_p.S325S|ATXN2_uc001tsi.2_Silent_p.S301S|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsm.1_Silent_p.S325S	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	590	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TGGATGGCCGCGAGGGGGGCC	0.602													11	22					0	0	0.010729	0	0		T	111954043	T	T	111954043	2	4	157	1	0	0	0	0	0	0	0	1	1212	755	27	1		1	ATXN2	12	111954043	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1497038	111954043	21897852	956	86516											
ANAPC5	51433	broad.mit.edu	37	chr12	121775094	121775094	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattctgggaaagacttacCgcttcagcaaaatcaggatt	15	10	8	8	1	3	1	2	0	1	1	3	3	3	3	1	2	2	2	1	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:121775094C>T	uc001uag.2	-	6	881	c.759G>A	c.(757-759)GCG>GCA	p.A253A	ANAPC5_uc001uae.2_5'Flank|ANAPC5_uc010szv.1_5'Flank|ANAPC5_uc001uaf.2_RNA|ANAPC5_uc001uah.2_Silent_p.A154A|ANAPC5_uc001uai.1_5'UTR	NM_016237	NP_057321	Q9UJX4	APC5_HUMAN	anaphase-promoting complex subunit 5 isoform a	253					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G2/M transition of mitotic cell cycle|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding|ubiquitin-protein ligase activity			skin(3)|breast(2)|kidney(1)	6	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AAAGACTTACCGCTTCAGCAA	0.303													37	145					0	0	0.004289	0	0		T	121775094	T	T	121775094	2	4	157	1	0	0	0	0	0	0	0	1	605	666	23	1		1	ANAPC5	12	121775094	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	9821051	121775094	12076801	957	86517											
KDM2B	84678	broad.mit.edu	37	chr12	122016853	122016853	+	Splice_Site	SNP	T	C	C	0	1	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	gctggcggtcaatcgggcgcTgcgaggacccaaaccagaga	10	4	15	12	4	1	1	1	0	0	1	2	4	1	2	2	4	2	2	2	4	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:122016853T>C	uc001uat.2	-	2	231	c.127_splice	c.e2-1	p.R43_splice	KDM2B_uc001uas.2_Splice_Site_p.R12_splice|KDM2B_uc001uau.2_Splice_Site|KDM2B_uc001uav.3_Splice_Site_p.R43_splice	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform						embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						AATCGGGCGCTGCGAGGACCC	0.647													7	67					0	0	0.00308	0	0		C	122016853	C	C	122016853	5	2	157	1	0	0	0	0	0	0	1	0	8141	1594	55	3	4025	3	KDM2B	12	122016853	Splice_Site	SNP	T	TCGA-CG-5728-01A-11D-1600-08	241759	122016853	11835042	958	86518											
RSRC2	65117	broad.mit.edu	37	chr12	122992836	122992836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatttcattggattaacagCggctgggttatagtagctag	12	13	11	5	1	1	0	1	0	0	0	1	1	1	1	0	3	3	4	0	3	6	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:122992836C>T	uc001ucr.2	-	8	1110	c.964G>A	c.(964-966)GCT>ACT	p.A322T	RSRC2_uc001uco.2_Missense_Mutation_p.A91T|RSRC2_uc001ucp.2_Missense_Mutation_p.A263T|RSRC2_uc001ucq.2_Missense_Mutation_p.A90T|RSRC2_uc001ucs.2_Missense_Mutation_p.A91T|RSRC2_uc001uct.2_Missense_Mutation_p.A274T|RSRC2_uc001ucu.2_Missense_Mutation_p.A323T	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	322										ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		GGATTAACAGCGGCTGGGTTA	0.448													22	92					0	0	0.007291	0	0		T	122992836	T	T	122992836	3	4	157	1	0	0	0	0	1	0	0	0	13740	768	27	1	352	1	RSRC2	12	122992836	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	975983	122992836	10859059	959	86519											
P2RX2	22953	broad.mit.edu	37	chr12	133197083	133197083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagcgctgcacgttccacGaggcctccgacctctactgc	7	8	10	16	4	1	1	0	1	1	0	3	3	3	1	4	1	4	3	4	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:133197083G>A	uc001ukj.1	+	7	688	c.688G>A	c.(688-690)GAG>AAG	p.E230K	P2RX2_uc001uki.1_Missense_Mutation_p.E230K|P2RX2_uc001ukk.1_Missense_Mutation_p.E230K|P2RX2_uc001ukl.1_Missense_Mutation_p.E206K|P2RX2_uc001ukm.1_Missense_Mutation_p.E158K|P2RX2_uc001ukn.1_Missense_Mutation_p.E138K|P2RX2_uc009zyt.1_Missense_Mutation_p.E230K|P2RX2_uc001uko.1_Missense_Mutation_p.R194Q	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	230	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		CACGTTCCACGAGGCCTCCGA	0.627													14	77					0	0	0.003163	0	0		A	133197083	A	A	133197083	3	1	157	1	0	0	0	0	1	0	0	0	11359	1059	37	1	714	1	P2RX2	12	133197083	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	10204247	133197083	654812	960	86520											
POLE	5426	broad.mit.edu	37	chr12	133256104	133256104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagcagagctgtgtacGcgtcgctggcgtgatcctgc	7	9	15	10	4	0	2	0	1	0	1	2	3	1	3	1	2	4	4	1	2	2	1	rs151325267	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:133256104G>A	uc001uks.1	-	6	601	c.557C>T	c.(556-558)GCG>GTG	p.A186V	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.A159V	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	186					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		AGCTGTGTACGCGTCGCTGGC	0.517								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					12	221					0	0	0.010729	0	0		A	133256104	A	A	133256104	3	1	157	1	0	0	0	0	1	0	0	0	12215	1087	38	1	6479	1	POLE	12	133256104	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	59021	133256104	595791	961	86521											
ANKLE2	23141	broad.mit.edu	37	chr12	133319798	133319798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttacaatcaaatggtgtgacGaaagcacgttgactacatct	14	11	8	8	2	2	2	1	2	1	0	2	3	2	2	0	1	3	2	0	1	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:133319798G>A	uc001ukx.2	-	6	1362	c.1295C>T	c.(1294-1296)TCG>TTG	p.S432L	ANKLE2_uc001uky.3_Missense_Mutation_p.S370L	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	432	ANK.					cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		ATGGTGTGACGAAAGCACGTT	0.353													19	82					0	0	0.006122	0	0		A	133319798	A	A	133319798	3	1	157	1	0	0	0	0	1	0	0	0	633	1059	37	1	1553	1	ANKLE2	12	133319798	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	63694	133319798	532097	962	86522											
GOLGA3	2802	broad.mit.edu	37	chr12	133374948	133374948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgccctgcagctgtgccGcgatgcgccccttctccttc	4	10	9	18	3	1	0	0	0	1	0	3	1	1	0	5	0	5	2	5	0	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr12:133374948G>A	uc001ukz.1	-	9	2475	c.1916C>T	c.(1915-1917)GCG>GTG	p.A639V	GOLGA3_uc001ula.1_Missense_Mutation_p.A639V|GOLGA3_uc001ulb.2_Missense_Mutation_p.A639V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	639	Gln-rich.|Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CAGCTGTGCCGCGATGCGCCC	0.577													34	135					0	0	0.004878	0	0		A	133374948	A	A	133374948	3	1	157	1	0	0	0	0	1	0	0	0	6569	1087	38	1	2782	1	GOLGA3	12	133374948	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	55150	133374948	476947	963	86523											
IFT88	8100	broad.mit.edu	37	chr13	21264849	21264849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttcgtgttttcagatagtGgccagaactatagtgccagt	9	15	10	7	1	1	2	1	0	0	2	2	2	1	2	2	1	2	1	2	1	4	7	rs138716049		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:21264849G>A	uc001unh.2	+	27	2671	c.2275G>A	c.(2275-2277)GGC>AGC	p.G759S	IFT88_uc001uni.2_Missense_Mutation_p.G750S|IFT88_uc001unj.2_Missense_Mutation_p.G749S|IFT88_uc010tcq.1_Missense_Mutation_p.G730S	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	759					cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		TTCAGATAGTGGCCAGAACTA	0.348													34	129					0	0	0.003755	0	0		A	21264849	A	A	21264849	3	1	157	1	0	0	0	0	1	0	0	0	7582	1348	47	4	2373	4	IFT88	13	21264849	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08		21264849	93905029	964	86524											
PARP4	143	broad.mit.edu	37	chr13	25009229	25009229	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggaggagcagctgaaccGaaactagctacctgacgata	13	6	12	10	2	0	2	0	2	0	0	0	6	0	4	2	2	6	3	2	2	5	3	rs145651021	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:25009229G>A	uc001upl.2	-	31	4156	c.4050C>T	c.(4048-4050)TTC>TTT	p.F1350F		NM_006437	NP_006428	Q9UKK3	PARP4_HUMAN	poly (ADP-ribose) polymerase family, member 4	1350					cell death|DNA repair|inflammatory response|protein ADP-ribosylation|response to drug|transport	cytoplasm|nucleus|ribonucleoprotein complex|spindle microtubule	DNA binding|enzyme binding|NAD+ ADP-ribosyltransferase activity			ovary(3)|skin(1)	4		all_epithelial(30;7.67e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.000127)|Epithelial(112;0.000778)|Kidney(163;0.039)|OV - Ovarian serous cystadenocarcinoma(117;0.0578)|KIRC - Kidney renal clear cell carcinoma(186;0.135)|Lung(94;0.195)		CAGCTGAACCGAAACTAGCTA	0.557													29	88					0	0	0.010818	0	0		A	25009229	A	A	25009229	2	1	157	1	0	0	0	0	0	0	0	1	11482	1049	37	1		1	PARP4	13	25009229	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3744380	25009229	90160649	965	86525											
ATP8A2	51761	broad.mit.edu	37	chr13	26273359	26273359	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcactgaccttgggaatttgCtgggcaaggaaaatgacgtg	11	9	14	7	1	0	2	0	2	0	0	0	4	0	4	1	3	1	3	1	3	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:26273359C>T	uc001uqk.2	+	25	2402	c.2260C>T	c.(2260-2262)CTG>TTG	p.L754L	ATP8A2_uc010tdi.1_Silent_p.L714L|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Silent_p.L304L	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	714	Cytoplasmic (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		TGGGAATTTGCTGGGCAAGGA	0.488													23	107					0	0	0.00278	0	0		T	26273359	T	T	26273359	2	4	157	1	0	0	0	0	0	0	0	1	1194	796	28	2		2	ATP8A2	13	26273359	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1264130	26273359	88896519	966	86526											
WASF3	10810	broad.mit.edu	37	chr13	27255288	27255288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctatgcagctggtgacGtgccaccacacgggcctgca	7	8	11	15	2	0	1	0	1	0	0	1	1	1	1	4	2	4	3	4	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:27255288G>A	uc001uqv.2	+	8	1039	c.814G>A	c.(814-816)GTG>ATG	p.V272M	WASF3_uc001uqw.2_Missense_Mutation_p.V269M	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	272					actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		AGCTGGTGACGTGCCACCACA	0.632													27	97					0	0	0.013726	0	0		A	27255288	A	A	27255288	3	1	157	1	0	0	0	0	1	0	0	0	17280	1145	40	1	836	1	WASF3	13	27255288	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	981929	27255288	87914590	967	86527											
FLT1	2321	broad.mit.edu	37	chr13	28908179	28908179	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tacctttcagcattttcacaGccacagtccggcacgtaggt	9	11	8	13	2	2	0	2	0	0	0	3	0	3	0	3	2	3	3	3	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:28908179G>A	uc001usb.3	-	18	2861	c.2576C>T	c.(2575-2577)GCT>GTT	p.A859V	FLT1_uc001usa.3_Missense_Mutation_p.A77V	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	859	Cytoplasmic (Potential).|Protein kinase.				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CATTTTCACAGCCACAGTCCG	0.423													55	242					0	0	0.01441	0	0		A	28908179	A	A	28908179	3	1	157	1	0	0	0	0	1	0	0	0	5955	971	34	2	1492	2	FLT1	13	28908179	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1652891	28908179	86261699	968	86528											
FRY	10129	broad.mit.edu	37	chr13	32705925	32705925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgggcatgaaattctttcGaattaagatgtatccagtgg	13	13	10	5	1	1	2	0	1	1	1	3	3	2	2	1	2	0	2	1	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:32705925G>A	uc001utx.2	+	8	1329	c.833G>A	c.(832-834)CGA>CAA	p.R278Q	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	278					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		AAATTCTTTCGAATTAAGATG	0.408													38	143					0	0	0.005524	0	0		A	32705925	A	A	32705925	3	1	157	1	0	0	0	0	1	0	0	0	6077	1058	37	1	863	1	FRY	13	32705925	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3797746	32705925	82463953	969	86529											
BRCA2	675	broad.mit.edu	37	chr13	32914985	32914985	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaacaagacaaacaacagTtggtattaggaaccaaagtg	18	8	8	7	0	1	1	1	0	0	1	1	2	1	2	1	2	4	2	1	2	8	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:32914985T>C	uc001uub.1	+	11	6720	c.6493T>C	c.(6493-6495)TTG>CTG	p.L2165L		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2165					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CAAACAACAGTTGGTATTAGG	0.318			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			18	74					0	0	0.006122	0	0		C	32914985	C	C	32914985	2	2	157	1	0	0	0	0	0	0	0	1	1502	1722	60	3		3	BRCA2	13	32914985	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	209060	32914985	82254893	970	86530											
STARD13	90627	broad.mit.edu	37	chr13	33700225	33700225	+	Missense_Mutation	SNP	A	G	G	1	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	gttacagccctacctgatcgAggcagttgctgcgtagatat	9	11	11	10	2	0	2	0	1	0	1	1	3	0	2	2	1	5	5	2	1	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:33700225A>G	uc001uuw.2	-	7	2201	c.2075T>C	c.(2074-2076)CTC>CCC	p.L692P	STARD13_uc001uuu.2_Missense_Mutation_p.L684P|STARD13_uc001uuv.2_Missense_Mutation_p.L574P|STARD13_uc001uux.2_Missense_Mutation_p.L657P|STARD13_uc010tec.1_RNA	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	692	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		TACCTGATCGAGGCAGTTGCT	0.557													8	139					0	0	0.00308	0	0		G	33700225	G	G	33700225	3	3	157	1	0	0	0	0	1	0	0	0	15281	304	11	3	1298	3	STARD13	13	33700225	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	785240	33700225	81469653	971	86531											
DCLK1	9201	broad.mit.edu	37	chr13	36396959	36396959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtacagcatcccactggcGtctctctcggtgtatttgtt	5	16	9	11	2	2	0	0	0	2	0	5	0	3	0	1	2	2	4	1	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:36396959G>A	uc001uvf.2	-	11	1694	c.1461C>T	c.(1459-1461)GAC>GAT	p.D487D	DCLK1_uc001uve.3_Silent_p.D180D|DCLK1_uc010teh.1_Silent_p.D180D|DCLK1_uc010abk.2_Intron	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	487	Protein kinase.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		TCCCACTGGCGTCTCTCTCGG	0.507													22	103					0	0	0.012319	0	0		A	36396959	A	A	36396959	2	1	157	1	0	0	0	0	0	0	0	1	4294	1136	40	1		1	DCLK1	13	36396959	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2696734	36396959	78772919	972	86532											
FAM48A	55578	broad.mit.edu	37	chr13	37599472	37599472	+	Silent	SNP	T	C	C	0	1	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	cacacatctgtttctttcccTggagaaacctgactcagact	10	12	6	13	0	3	3	1	1	2	2	4	4	4	3	2	1	1	1	2	1	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:37599472T>C	uc001uwg.2	-	17	1562	c.1314A>G	c.(1312-1314)CCA>CCG	p.P438P	FAM48A_uc010abt.2_Silent_p.P439P|FAM48A_uc001uwh.2_Silent_p.P439P|FAM48A_uc001uwi.2_Silent_p.P438P|FAM48A_uc001uwj.2_Silent_p.P439P|FAM48A_uc001uwk.2_Silent_p.P438P|FAM48A_uc010tes.1_Silent_p.P402P|FAM48A_uc001uwl.1_Silent_p.P438P|FAM48A_uc001uwd.2_5'Flank|FAM48A_uc001uwe.2_5'Flank|FAM48A_uc001uwf.2_Silent_p.P16P	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	438					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		TTTCTTTCCCTGGAGAAACCT	0.393													18	97					0	0	0.007413	0	0		C	37599472	C	C	37599472	2	2	157	1	0	0	0	0	0	0	0	1	5586	1567	55	3		3	FAM48A	13	37599472	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1202513	37599472	77570406	973	86533											
NAA16	79612	broad.mit.edu	37	chr13	41894849	41894849	+	Silent	SNP	T	C	C	0	1	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	cgttctgataaaaaatatgaTgaagctataaaatgttaccg	17	12	7	5	2	1	3	0	3	1	0	1	3	1	3	1	0	2	3	1	0	9	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:41894849T>C	uc001uyf.2	+	4	615	c.291T>C	c.(289-291)GAT>GAC	p.D97D	NAA16_uc010tfg.1_RNA|NAA16_uc001uye.3_Silent_p.D97D|NAA16_uc001uyd.3_Silent_p.D97D	NM_024561	NP_078837	Q6N069	NAA16_HUMAN	NMDA receptor regulated 1-like protein isoform	97	TPR 2.				N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent	cytoplasm|transcription factor complex	binding			central_nervous_system(1)	1						AAAAATATGATGAAGCTATAA	0.353													28	107					0	0	0.005443	0	0		C	41894849	C	C	41894849	2	2	157	1	0	0	0	0	0	0	0	1	10137	1461	51	3		3	NAA16	13	41894849	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4295377	41894849	73275029	974	86534											
AKAP11	11215	broad.mit.edu	37	chr13	42873557	42873557	+	Silent	SNP	T	C	C	0	1	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	gcttcccagacggttactggTcatcatttagaaacccatga	11	11	8	11	1	2	3	2	1	0	2	3	3	3	3	2	2	2	2	2	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:42873557T>C	uc001uys.1	+	8	850	c.675T>C	c.(673-675)GGT>GGC	p.G225G		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	225					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		CGGTTACTGGTCATCATTTAG	0.398													11	111					0	0	0.00245	0	0		C	42873557	C	C	42873557	2	2	157	1	0	0	0	0	0	0	0	1	447	1654	58	3		3	AKAP11	13	42873557	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	978708	42873557	72296321	975	86535											
ENOX1	55068	broad.mit.edu	37	chr13	43930086	43930086	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccagcagagcggcttcGtgctccgagtagtgcattat	8	10	12	11	3	1	1	1	0	0	1	3	2	2	1	2	1	5	5	2	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:43930086G>A	uc001uza.3	-	8	1092	c.792C>T	c.(790-792)CAC>CAT	p.H264H	ENOX1_uc001uzb.3_Silent_p.H264H|ENOX1_uc001uzc.3_Silent_p.H264H|ENOX1_uc001uyz.3_Translation_Start_Site|ENOX1_uc010tfm.1_Silent_p.H77H	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	264					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		GAGCGGCTTCGTGCTCCGAGT	0.637													8	170					0	0	0.003163	0	0		A	43930086	A	A	43930086	2	1	157	1	0	0	0	0	0	0	0	1	5134	1136	40	1		1	ENOX1	13	43930086	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1056529	43930086	71239792	976	86536											
CPB2	1361	broad.mit.edu	37	chr13	46661878	46661878	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acataaattagggagaaattAcctcatatgttgtagtaaga	17	12	8	4	0	1	2	1	0	0	2	1	3	1	2	1	1	1	3	1	1	8	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:46661878A>G	uc001vaw.2	-	2	217	c.150_splice	c.e2+1	p.E50_splice	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Splice_Site_p.E50_splice	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a						blood coagulation|fibrinolysis|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(96;4.21e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|all_neural(104;0.235)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.44e-05)		GGGAGAAATTACCTCATATGT	0.383													17	69					0	0	0.006122	0	0		G	46661878	G	G	46661878	5	3	157	1	0	0	0	0	0	0	1	0	3800	405	14	3	1159	3	CPB2	13	46661878	Splice_Site	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2731792	46661878	68508000	977	86537											
FAM124A	220108	broad.mit.edu	37	chr13	51854975	51854975	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccatcgatgacctagagggGgcccaggagacagacgtgga	11	5	15	10	2	0	4	0	1	0	3	2	7	1	5	3	4	0	0	3	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:51854975G>T	uc001vfg.1	+	4	1355	c.1224G>T	c.(1222-1224)GGG>GGT	p.G408G	FAM124A_uc001vff.1_Silent_p.G444G	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	408										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		ACCTAGAGGGGGCCCAGGAGA	0.597													13	70					1.49906e-05	1.5591e-05	0.00245	1	0		T	51854975	T	T	51854975	2	4	157	1	0	0	0	0	0	0	0	1	5436	1219	43	5		5	FAM124A	13	51854975	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5193097	51854975	63314903	978	86538											
THSD1	55901	broad.mit.edu	37	chr13	52960165	52960165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagcaagaatacctaccaGcacactcctccagggaacac	15	4	8	14	0	0	1	0	0	0	1	2	3	2	3	4	2	5	2	4	2	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:52960165G>A	uc001vgo.2	-	4	1723	c.1178C>T	c.(1177-1179)GCT>GTT	p.A393V	THSD1_uc001vgp.2_Intron|THSD1_uc010tgz.1_Missense_Mutation_p.A14V|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	393	Extracellular (Potential).|TSP type-1.					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		ATACCTACCAGCACACTCCTC	0.552													21	61					0	0	0.008871	0	0		A	52960165	A	A	52960165	3	1	157	1	0	0	0	0	1	0	0	0	15902	971	34	2	1388	2	THSD1	13	52960165	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1105190	52960165	62209713	979	86539											
SCEL	8796	broad.mit.edu	37	chr13	78176201	78176201	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccccaatgttgtaaagaAtccaaagccttggaagtccg	12	10	8	11	1	0	1	0	0	0	1	3	2	3	2	5	1	1	2	5	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:78176201A>G	uc001vki.2	+	16	1089	c.919A>G	c.(919-921)ATC>GTC	p.I307V	SCEL_uc001vkj.2_Missense_Mutation_p.I287V|SCEL_uc010thx.1_Missense_Mutation_p.I285V	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1	307	16 X approximate tandem repeats.|4.				embryo development|keratinocyte differentiation	cornified envelope|cytoplasm|membrane	protein binding|zinc ion binding			ovary(4)|breast(1)	5		Acute lymphoblastic leukemia(28;0.0282)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0233)		GTTGTAAAGAATCCAAAGCCT	0.398													8	84					0	0	0.004482	0	0		G	78176201	G	G	78176201	3	3	157	1	0	0	0	0	1	0	0	0	13913	115	4	3	977	3	SCEL	13	78176201	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	25216036	78176201	36993677	980	86540											
SLAIN1	122060	broad.mit.edu	37	chr13	78318470	78318470	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtcatctatcgacagtgaGctgagtacttcagaattgga	12	11	10	8	1	3	3	2	2	1	1	4	5	3	4	0	1	2	2	0	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:78318470G>A	uc010thy.1	+	3	370	c.327G>A	c.(325-327)GAG>GAA	p.E109E	SLAIN1_uc001vkk.1_Silent_p.E32E|SLAIN1_uc001vkl.1_5'UTR|SLAIN1_uc010thz.1_5'UTR|SLAIN1_uc010aex.1_5'UTR|SLAIN1_uc010aey.1_5'UTR|SLAIN1_uc001vkm.2_5'UTR	NM_144595	NP_653196	Q8ND83	SLAI1_HUMAN	SLAIN motif family, member 1 B	251										ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0853)		TCGACAGTGAGCTGAGTACTT	0.453													8	106					0	0	0.004482	0	0		A	78318470	A	A	78318470	2	1	157	1	0	0	0	0	0	0	0	1	14390	962	34	2		2	SLAIN1	13	78318470	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	142269	78318470	36851408	981	86541											
SLITRK5	26050	broad.mit.edu	37	chr13	88329581	88329581	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtccggttgaatagcacCggggcccccgcgagcttggg	5	6	17	13	5	0	1	0	1	0	0	1	2	1	1	4	5	2	3	4	5	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:88329581C>T	uc001vln.2	+	2	2157	c.1938C>T	c.(1936-1938)ACC>ACT	p.T646T	SLITRK5_uc010tic.1_Silent_p.T405T	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	646	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TGAATAGCACCGGGGCCCCCG	0.612													7	75					0	0	0.00308	0	0		T	88329581	T	T	88329581	2	4	157	1	0	0	0	0	0	0	0	1	14771	639	23	1		1	SLITRK5	13	88329581	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	10011111	88329581	26840297	982	86542											
GPC5	2262	broad.mit.edu	37	chr13	92345891	92345891	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagatgcaatactgccCgcactgccaaggcctggcgc	9	6	11	15	2	0	2	0	1	0	1	0	2	0	2	4	2	4	2	4	2	4	1	rs141328977		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:92345891C>A	uc010tif.1	+	3	1142	c.776C>A	c.(775-777)CCG>CAG	p.P259Q		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	259						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CAATACTGCCCGCACTGCCAA	0.552													16	85					0.00074312	0.000761157	0.006122	1	0		A	92345891	A	A	92345891	3	1	157	1	0	0	0	0	1	0	0	0	6616	652	23	5	786	5	GPC5	13	92345891	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4016310	92345891	22823987	983	86543											
ABCC4	10257	broad.mit.edu	37	chr13	95714990	95714990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacatcttcttccttaaatCgtgaagtccaatttcagttg	10	16	6	9	1	3	2	1	2	2	0	6	2	5	2	2	0	0	1	2	0	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:95714990C>T	uc001vmd.3	-	26	3453	c.3334G>A	c.(3334-3336)GAT>AAT	p.D1112N	ABCC4_uc010afj.2_5'UTR|ABCC4_uc010afk.2_Missense_Mutation_p.D1065N	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	1112	ABC transporter 2.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	TTCCTTAAATCGTGAAGTCCA	0.383													14	262					0	0	0.001855	0	0		T	95714990	T	T	95714990	3	4	157	1	0	0	0	0	1	0	0	0	55	884	31	1	667	1	ABCC4	13	95714990	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3369099	95714990	19454888	984	86544											
UGGT2	55757	broad.mit.edu	37	chr13	96529620	96529620	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttaattgaaaataccccTtttaagatgagaaaaaaata	19	13	4	5	0	0	3	0	2	0	2	0	4	0	3	2	0	1	0	2	0	9	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:96529620T>C	uc001vmt.2	-	29	3558	c.3388_splice	c.e29-1	p.G1130_splice	UGGT2_uc001vmu.1_3'UTR	NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						AAAATACCCCTTTTAAGATGA	0.318													23	96					0	0	0.00278	0	0		C	96529620	C	C	96529620	5	2	157	1	0	0	0	0	0	0	1	0	16968	1623	56	3	1208	3	UGGT2	13	96529620	Splice_Site	SNP	T	TCGA-CG-5728-01A-11D-1600-08	814630	96529620	18640258	985	86545											
FARP1	10160	broad.mit.edu	37	chr13	99087849	99087849	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgctttggcagagatcacGgagatggtggcacagctcca	9	7	14	11	2	1	2	1	0	0	2	2	4	2	2	2	4	1	4	2	4	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:99087849G>T	uc001vnj.2	+	19	2499	c.2163G>T	c.(2161-2163)ACG>ACT	p.T721T	FARP1_uc001vnh.2_Silent_p.T721T	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	721	DH.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			CAGAGATCACGGAGATGGTGG	0.522													28	71					2.44723e-14	2.6634e-14	0.004656	1	0		T	99087849	T	T	99087849	2	4	157	1	0	0	0	0	0	0	0	1	5690	1103	39	5		5	FARP1	13	99087849	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2558229	99087849	16082029	986	86546											
DOCK9	23348	broad.mit.edu	37	chr13	99515326	99515326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcacattgatccgctggaCgttttcaatcagcagaccaa	11	10	7	13	2	3	2	3	1	0	1	4	3	4	3	3	1	1	3	3	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:99515326C>T	uc001vnt.2	-	32	3584	c.3529G>A	c.(3529-3531)GTC>ATC	p.V1177I	DOCK9_uc001vnw.2_Missense_Mutation_p.V1176I|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.V1177I|DOCK9_uc010tis.1_Missense_Mutation_p.V1176I|DOCK9_uc010tit.1_Missense_Mutation_p.V1177I|DOCK9_uc010tiq.1_Missense_Mutation_p.V155I|DOCK9_uc010afu.1_Missense_Mutation_p.V1023I	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1177					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ATCCGCTGGACGTTTTCAATC	0.517													3	24					0	0	0.004672	0	0		T	99515326	T	T	99515326	3	4	157	1	0	0	0	0	1	0	0	0	4700	536	19	1	2841	1	DOCK9	13	99515326	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	427477	99515326	15654552	987	86547											
TMTC4	84899	broad.mit.edu	37	chr13	101277913	101277913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctatgcctagattcatccacGcagcggcaaagtctggccta	10	9	9	13	2	2	1	1	0	1	1	3	1	3	1	3	2	2	2	3	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:101277913G>A	uc001vou.2	-	14	1815	c.1655C>T	c.(1654-1656)GCG>GTG	p.A552V	TMTC4_uc001vot.2_Missense_Mutation_p.A571V|TMTC4_uc010tja.1_Missense_Mutation_p.A441V|TMTC4_uc001vov.1_Missense_Mutation_p.A297V|TMTC4_uc001vow.1_Missense_Mutation_p.A335V	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	552	TPR 4.					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ATTCATCCACGCAGCGGCAAA	0.453													6	63					0	0	0.001168	0	0		A	101277913	A	A	101277913	3	1	157	1	0	0	0	0	1	0	0	0	16288	1087	38	1	590	1	TMTC4	13	101277913	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1762587	101277913	13891965	988	86548											
COL4A2	1284	broad.mit.edu	37	chr13	111109772	111109772	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggagcccgcggaccaaaGgggtggaaaggtaagaacat	13	4	15	9	2	0	1	0	0	0	1	0	4	0	4	3	6	2	1	3	6	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:111109772G>T	uc001vqx.2	+	21	1711	c.1422G>T	c.(1420-1422)AAG>AAT	p.K474N		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	474	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GCGGACCAAAGGGGTGGAAAG	0.582													5	41					0.000602214	0.000617581	0.000602	1	0		T	111109772	T	T	111109772	3	4	157	1	0	0	0	0	1	0	0	0	3693	991	35	5	1500	5	COL4A2	13	111109772	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	9831859	111109772	4060106	989	86549											
MCF2L	23263	broad.mit.edu	37	chr13	113740563	113740563	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcgctatcaccggctatgaCgtaaggcgcccagatgcccg	9	7	11	14	5	1	2	1	1	0	1	2	2	1	2	3	2	1	3	3	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:113740563C>T	uc001vsu.2	+	21	2566	c.2544C>T	c.(2542-2544)GAC>GAT	p.D848D	MCF2L_uc001vsq.2_Silent_p.D848D|MCF2L_uc010tjr.1_Silent_p.D791D|MCF2L_uc001vsr.2_Silent_p.D795D|MCF2L_uc001vss.3_Silent_p.D789D|MCF2L_uc010tjs.1_Silent_p.D789D|MCF2L_uc001vst.1_Silent_p.D753D	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	821					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CCGGCTATGACGTAAGGCGCC	0.652													5	61					0	0	0.000602	0	0		T	113740563	T	T	113740563	2	4	157	1	0	0	0	0	0	0	0	1	9397	550	19	1		1	MCF2L	13	113740563	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2630791	113740563	1429315	990	86550											
F10	2159	broad.mit.edu	37	chr13	113803259	113803259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacggagcaggaggagggcGgtgaggcggtgcacgaggtg	9	3	22	7	4	0	1	0	1	0	0	0	5	0	4	0	8	2	2	0	8	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:113803259G>A	uc001vsx.2	+	8	952	c.895G>A	c.(895-897)GGT>AGT	p.G299S	F10_uc001vsy.2_Silent_p.A295A|F10_uc001vsz.2_Silent_p.A297A	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	299	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGAGGAGGGCGGTGAGGCGGT	0.602													52	157					0	0	0.01441	0	0		A	113803259	A	A	113803259	3	1	157	1	0	0	0	0	1	0	0	0	5344	1116	39	1	925	1	F10	13	113803259	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	62696	113803259	1366619	991	86551											
PCID2	55795	broad.mit.edu	37	chr13	113833353	113833353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacctgcatgaacttcaagGcaaccagaaaagcatccaga	16	5	7	13	0	1	3	1	1	0	2	2	3	2	3	4	1	4	3	4	1	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr13:113833353G>A	uc010tju.1	-	13	1118	c.1037C>T	c.(1036-1038)GCC>GTC	p.A346V	PCID2_uc001vtb.2_Missense_Mutation_p.A179V|PCID2_uc010tjv.1_Missense_Mutation_p.A346V|PCID2_uc010tjw.1_Missense_Mutation_p.A346V|PCID2_uc001vte.2_Missense_Mutation_p.A239V|PCID2_uc001vtd.2_Missense_Mutation_p.A239V|PCID2_uc001vtf.2_Missense_Mutation_p.A239V	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2	346	PCI.				negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			GAACTTCAAGGCAACCAGAAA	0.458													25	82					0	0	0.00333	0	0		A	113833353	A	A	113833353	3	1	157	1	0	0	0	0	1	0	0	0	11598	1203	42	2	170	2	PCID2	13	113833353	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	30094	113833353	1336525	992	86552											
POTEG	404785	broad.mit.edu	37	chr14	19553784	19553784	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgggcccttggggagactAcgacgacagcgctttcatgg	8	8	15	10	3	1	1	1	0	0	1	1	4	1	1	1	4	2	1	1	4	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:19553784A>G	uc001vuz.1	+	1	420	c.368A>G	c.(367-369)TAC>TGC	p.Y123C	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	123										ovary(1)	1						TGGGGAGACTACGACGACAGC	0.592													46	493					0	0	0.01441	0	0		G	19553784	G	G	19553784	3	3	157	1	0	0	0	0	1	0	0	0	12285	391	14	3	370	3	POTEG	14	19553784	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08		19553784	87795756	993	86553											
PARP2	10038	broad.mit.edu	37	chr14	20813247	20813247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gacagaagacaagcaagatgGtatgccaggaaggtcatggg	15	5	15	6	0	1	3	1	0	0	3	1	5	1	4	1	4	2	2	1	4	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:20813247G>A	uc001vxc.2	+	2	231	c.203G>A	c.(202-204)GGT>GAT	p.G68D	RPPH1_uc001vxa.1_5'Flank|PARP2_uc001vxd.2_Splice_Site_p.E68_splice|PARP2_uc001vxb.1_Missense_Mutation_p.G68D	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	68	Potential.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		AAGCAAGATGGTATGCCAGGA	0.478								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					9	49					0	0	0.006214	0	0		A	20813247	A	A	20813247	3	1	157	1	0	0	0	0	1	0	0	0	11480	1275	44	4	209	4	PARP2	14	20813247	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1259463	20813247	86536293	994	86554											
TMEM55B	90809	broad.mit.edu	37	chr14	20928395	20928395	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttgggatgtcactttgcaGataaggagacagttacaggg	11	10	14	6	1	1	2	1	0	0	2	1	4	1	3	0	3	2	3	0	3	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:20928395G>T	uc001vxl.2	-	3	549	c.396C>A	c.(394-396)ATC>ATA	p.I132I	TMEM55B_uc001vxk.2_Silent_p.I139I	NM_144568	NP_653169	Q86T03	TM55B_HUMAN	transmembrane protein 55B isoform 2	132						integral to membrane|late endosome membrane|lysosomal membrane	hydrolase activity				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0224)|READ - Rectum adenocarcinoma(17;0.193)		TCACTTTGCAGATAAGGAGAC	0.483													16	82					2.48551e-13	2.68772e-13	0.00499	1	0		T	20928395	T	T	20928395	2	4	157	1	0	0	0	0	0	0	0	1	16207	932	33	5		5	TMEM55B	14	20928395	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	115148	20928395	86421145	995	86555											
TPPP2	122664	broad.mit.edu	37	chr14	21498712	21498712	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	tcacccccaagtgtctcccaCgactgccctccccgacctct	6	8	5	22	2	3	0	1	0	2	0	5	2	4	0	7	0	1	0	7	0	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:21498712C>T	uc001vzh.2	+	2	160	c.-28C>T	c.(-30--26)CACGA>CATGA		NDRG2_uc010tll.1_Intron	NM_173846	NP_776245	P59282	TPPP2_HUMAN	tubulin polymerization-promoting protein family							cytoplasm					0	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GTGTCTCCCACGACTGCCCTC	0.527													5	20					0	0	0.000602	0	0		T	21498712	T	T	21498712	1	4	157	1	0	0	0	0	0	0	0	0	16440	551	19	1		1	TPPP2	14	21498712	Translation_Start_Site	SNP	C	TCGA-CG-5728-01A-11D-1600-08	570317	21498712	85850828	996	86556											
CHD8	57680	broad.mit.edu	37	chr14	21871355	21871355	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctctaactcgcccatcaaTacgttcatataagtacctgt	11	12	5	13	2	3	0	2	0	1	0	4	0	3	0	3	0	3	2	3	0	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:21871355T>C	uc001was.1	-	18	2792	c.2698A>G	c.(2698-2700)ATT>GTT	p.I900V	CHD8_uc001war.1_Missense_Mutation_p.I796V|CHD8_uc001wav.1_Missense_Mutation_p.I342V	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1179	Helicase C-terminal.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CGCCCATCAATACGTTCATAT	0.483													14	57					0	0	0.003163	0	0		C	21871355	C	C	21871355	3	2	157	1	0	0	0	0	1	0	0	0	3334	1406	49	3	4294	3	CHD8	14	21871355	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	372643	21871355	85478185	997	86557											
ACIN1	22985	broad.mit.edu	37	chr14	23549510	23549510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcagtttgctctggcagcGctacaagtgaggccttcttt	6	13	12	10	1	2	1	0	1	2	0	2	1	2	1	1	3	3	5	1	3	2	4	rs12589748	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:23549510G>A	uc001wit.3	-	6	1536	c.1208C>T	c.(1207-1209)GCG>GTG	p.A403V	ACIN1_uc001wis.3_Missense_Mutation_p.A85V|ACIN1_uc010akg.2_Missense_Mutation_p.A403V|ACIN1_uc010tnj.1_Missense_Mutation_p.A363V	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	403	Glu-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		CTCTGGCAGCGCTACAAGTGA	0.478													28	83					0	0	0.00632	0	0		A	23549510	A	A	23549510	3	1	157	1	0	0	0	0	1	0	0	0	142	1087	38	1	3020	1	ACIN1	14	23549510	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1678155	23549510	83800030	998	86558											
CPNE6	9362	broad.mit.edu	37	chr14	24546935	24546935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgactcccagccctagccCgtgactgcctccctccggac	6	7	8	20	3	0	1	0	1	0	0	3	3	3	2	6	1	4	0	6	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:24546935C>T	uc001wll.2	+	16	1769	c.1670C>T	c.(1669-1671)CCG>CTG	p.P557L	CPNE6_uc010tnv.1_Missense_Mutation_p.P612L|CPNE6_uc001wlm.2_Missense_Mutation_p.P382L|CPNE6_uc001wln.2_3'UTR	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	557					lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		AGCCCTAGCCCGTGACTGCCT	0.657													6	33					0	0	0.013537	0	0		T	24546935	T	T	24546935	3	4	157	1	0	0	0	0	1	0	0	0	3819	652	23	1	1728	1	CPNE6	14	24546935	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	997425	24546935	82802605	999	86559											
PSME2	5721	broad.mit.edu	37	chr14	24613431	24613431	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtctggaaagcttccactTtggtcttgacggcattcacc	7	14	9	11	1	3	1	1	1	2	0	4	2	4	2	2	3	1	2	2	3	1	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:24613431T>C	uc001wmj.2	-	8	532	c.467A>G	c.(466-468)AAA>AGA	p.K156R	FAM158A_uc001wmi.2_5'Flank|PSME2_uc001wmk.2_Missense_Mutation_p.K79R|RNF31_uc001wml.1_5'Flank	NM_002818	NP_002809	Q9UL46	PSME2_HUMAN	proteasome activator subunit 2	156					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome activator complex					0				GBM - Glioblastoma multiforme(265;0.00839)		AGCTTCCACTTTGGTCTTGAC	0.542													41	219					0	0	0.011902	0	0		C	24613431	C	C	24613431	3	2	157	1	0	0	0	0	1	0	0	0	12729	1841	64	3	268	3	PSME2	14	24613431	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	66496	24613431	82736109	1000	86560											
FOXG1	2290	broad.mit.edu	37	chr14	29237480	29237480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagttacaacggcaccacgtCggcctaccccagccacccca	10	4	8	19	3	0	0	0	0	0	0	1	1	0	0	7	2	4	2	7	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:29237480C>T	uc001wqe.2	+	1	1194	c.995C>T	c.(994-996)TCG>TTG	p.S332L		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	332					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GGCACCACGTCGGCCTACCCC	0.647													20	89					0	0	0.010504	0	0		T	29237480	T	T	29237480	3	4	157	1	0	0	0	0	1	0	0	0	6021	893	31	1	997	1	FOXG1	14	29237480	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4624049	29237480	78112060	1001	86561											
BRMS1L	84312	broad.mit.edu	37	chr14	36300660	36300660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaagaagaatggaatgtttgGatgaaatgtccaatcttgaa	16	11	11	3	0	1	4	0	2	1	2	2	7	2	6	1	2	0	1	1	2	7	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:36300660G>A	uc001wtl.2	+	2	313	c.187G>A	c.(187-189)GAT>AAT	p.D63N	BRMS1L_uc010tpx.1_Missense_Mutation_p.D15N	NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like	63	Potential.				regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	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)		GGAATGTTTGGATGAAATGTC	0.318													6	114					0	0	0.001984	0	0		A	36300660	A	A	36300660	3	1	157	1	0	0	0	0	1	0	0	0	1520	1174	41	4	193	4	BRMS1L	14	36300660	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7063180	36300660	71048880	1002	86562											
MBIP	51562	broad.mit.edu	37	chr14	36780790	36780790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcttacctgtctgtaacCgcaagtgggcctcaatattt	8	15	8	10	1	2	0	1	0	1	0	2	0	2	0	3	1	3	3	3	1	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:36780790C>T	uc001wtm.2	-	6	867	c.779G>A	c.(778-780)CGG>CAG	p.R260Q	MBIP_uc001wto.2_Missense_Mutation_p.R260Q|MBIP_uc010tpy.1_Missense_Mutation_p.R119Q|MBIP_uc001wtn.2_Missense_Mutation_p.R260Q	NM_016586	NP_057670	Q9NS73	MBIP1_HUMAN	MAP3K12 binding inhibitory protein 1 isoform 1	260	Interaction with MAP3K12.				histone H3 acetylation|inactivation of MAPK activity involved in osmosensory signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm|nucleolus	identical protein binding|protein kinase inhibitor activity				0	all_cancers(3;1.55e-52)|all_epithelial(1;2.69e-62)|Breast(36;0.0505)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.28e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.0303)|all cancers(34;0.0781)	GBM - Glioblastoma multiforme(112;0.0191)		TGTCTGTAACCGCAAGTGGGC	0.408													15	114					0	0	0.004007	0	0		T	36780790	T	T	36780790	3	4	157	1	0	0	0	0	1	0	0	0	9367	652	23	1	271	1	MBIP	14	36780790	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	480130	36780790	70568750	1003	86563											
PAX9	5083	broad.mit.edu	37	chr14	37132270	37132270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcgtcagcaagatcctggCgcgatacaacgagacgggct	10	6	13	12	5	1	2	1	0	0	2	2	4	2	2	1	2	4	2	1	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:37132270C>T	uc001wty.3	+	3	890	c.173C>T	c.(172-174)GCG>GTG	p.A58V	PAX9_uc010amq.2_5'Flank	NM_006194	NP_006185	P55771	PAX9_HUMAN	paired box 9	58	Paired.				multicellular organismal development|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.218)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.00998)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0181)		AAGATCCTGGCGCGATACAAC	0.637													9	54					0	0	0.008291	0	0		T	37132270	T	T	37132270	3	4	157	1	0	0	0	0	1	0	0	0	11505	768	27	1	179	1	PAX9	14	37132270	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	351480	37132270	70217270	1004	86564											
SEC23A	10484	broad.mit.edu	37	chr14	39532546	39532546	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgattgacaacctcaaaAtatatggctaaggttgtagt	14	12	8	7	0	1	2	1	2	0	0	1	2	1	2	2	2	1	3	2	2	7	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:39532546A>G	uc001wup.1	-	12	1603	c.1380T>C	c.(1378-1380)TAT>TAC	p.Y460Y	SEC23A_uc010tqa.1_Silent_p.Y322Y|SEC23A_uc010tqb.1_Silent_p.Y431Y|SEC23A_uc010tqc.1_Silent_p.Y322Y	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	460					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		CAACCTCAAAATATATGGCTA	0.348													21	49					0	0	0.005443	0	0		G	39532546	G	G	39532546	2	3	157	1	0	0	0	0	0	0	0	1	14016	108	4	3		3	SEC23A	14	39532546	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2400276	39532546	67816994	1005	86565											
SEC23A	10484	broad.mit.edu	37	chr14	39565194	39565194	+	Silent	SNP	T	C	C	0	1	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	tcaggtctctctttcagtggTgtaaacagggctgccacagg	8	11	12	10	0	4	0	2	0	2	0	5	0	4	0	1	4	2	2	1	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:39565194T>C	uc001wup.1	-	2	352	c.129A>G	c.(127-129)ACA>ACG	p.T43T	SEC23A_uc010tqa.1_Intron|SEC23A_uc010tqb.1_Silent_p.T43T	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	43					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		CTTTCAGTGGTGTAAACAGGG	0.433													33	119					0	0	0.009535	0	0		C	39565194	C	C	39565194	2	2	157	1	0	0	0	0	0	0	0	1	14016	1683	59	3		3	SEC23A	14	39565194	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	32648	39565194	67784346	1006	86566											
FAM179B	23116	broad.mit.edu	37	chr14	45475281	45475281	+	Silent	SNP	A	C	C	1	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	agatcgccatcttcccgacgAggtctaaatgggacaaagcc	12	7	10	12	3	2	1	0	0	2	1	4	4	3	2	3	2	1	0	3	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:45475281A>C	uc001wvv.2	+	5	2924	c.2715A>C	c.(2713-2715)CGA>CGC	p.R905R	FAM179B_uc001wvw.2_Silent_p.R905R|FAM179B_uc010anc.2_RNA|FAM179B_uc001wvu.2_Silent_p.R905R	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	905							binding			skin(2)|upper_aerodigestive_tract(1)	3						CTTCCCGACGAGGTCTAAATG	0.428													43	218					0	0	0.009718	0	0		C	45475281	C	C	45475281	2	2	157	1	0	0	0	0	0	0	0	1	5517	291	11	5		5	FAM179B	14	45475281	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	5910087	45475281	61874259	1007	86567											
CDKL1	8814	broad.mit.edu	37	chr14	50863894	50863894	+	Silent	SNP	T	C	C	0	1	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	acgcctgcgctaggagccccTcctgagcggtccacatttcc	6	8	10	17	3	0	1	0	1	0	0	3	2	3	2	6	2	3	1	6	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:50863894T>C	uc010anu.1	-	4	396	c.396A>G	c.(394-396)GGA>GGG	p.G132G	CDKL1_uc001wxz.2_5'Flank	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					TAGGAGCCCCTCCTGAGCGGT	0.597													13	33					0	0	0.001855	0	0		C	50863894	C	C	50863894	2	2	157	1	0	0	0	0	0	0	0	1	3156	1566	54	3		3	CDKL1	14	50863894	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5388613	50863894	56485646	1008	86568											
FRMD6	122786	broad.mit.edu	37	chr14	52186842	52186842	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggaccagctggaaaaacGgtcgcgggccagcgggagca	11	3	16	11	4	0	0	0	0	0	0	1	3	0	3	2	5	4	2	2	5	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:52186842G>T	uc001wzd.2	+	11	1379	c.1094G>T	c.(1093-1095)CGG>CTG	p.R365L	FRMD6_uc001wzb.2_Missense_Mutation_p.R357L|FRMD6_uc001wzc.2_Missense_Mutation_p.R357L|FRMD6_uc001wze.2_Missense_Mutation_p.R288L|FRMD6_uc001wzf.2_Missense_Mutation_p.R58L|FRMD6_uc001wzg.2_Missense_Mutation_p.R7L	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	365						cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					CTGGAAAAACGGTCGCGGGCC	0.577													20	55					2.54575e-18	2.80681e-18	0.010504	1	0		T	52186842	T	T	52186842	3	4	157	1	0	0	0	0	1	0	0	0	6068	1116	39	5	1108	5	FRMD6	14	52186842	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1322948	52186842	55162698	1009	86569											
BMP4	652	broad.mit.edu	37	chr14	54418806	54418806	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatggctctgccctgagcgGcgtcctcccgcgtggccctg	2	9	13	17	4	2	1	1	1	1	0	4	1	4	1	4	3	2	1	4	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:54418806G>T	uc001xal.3	-	2	322	c.135C>A	c.(133-135)CGC>CGA	p.R45R	BMP4_uc010aoh.2_Silent_p.R45R|BMP4_uc001xao.3_Silent_p.R45R|BMP4_uc001xan.3_Silent_p.R45R	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	45					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						GCCCTGAGCGGCGTCCTCCCG	0.612													25	83					6.32553e-13	6.83141e-13	0.004656	1	0		T	54418806	T	T	54418806	2	4	157	1	0	0	0	0	0	0	0	1	1463	1190	42	5		5	BMP4	14	54418806	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2231964	54418806	52930734	1010	86570											
EXOC5	10640	broad.mit.edu	37	chr14	57698340	57698340	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaatatagttctccaaataGgaaatgaaaatggatttgat	17	13	7	4	0	2	2	1	2	1	0	3	4	2	4	1	2	0	1	1	2	8	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:57698340G>T	uc001xct.2	-	11	1283	c.1032C>A	c.(1030-1032)TCC>TCA	p.S344S	EXOC5_uc001xcs.2_Silent_p.S23S|EXOC5_uc010trg.1_Silent_p.S289S|EXOC5_uc010trh.1_Silent_p.S279S	NM_006544	NP_006535	O00471	EXOC5_HUMAN	SEC10 protein	344					exocytosis|post-Golgi vesicle-mediated transport|protein transport|vesicle docking	cytoplasm				ovary(2)|breast(1)	3						TCTCCAAATAGGAAATGAAAA	0.353													14	101					9.31168e-06	9.72656e-06	0.001855	1	0		T	57698340	T	T	57698340	2	4	157	1	0	0	0	0	0	0	0	1	5315	987	35	5		5	EXOC5	14	57698340	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3279534	57698340	49651200	1011	86571											
SFRS5	6430	broad.mit.edu	37	chr14	70235592	70235592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgaccgttttagtagtcGcagacctcgaaatgatagac	11	11	9	10	3	1	4	0	2	1	2	3	5	1	4	2	0	0	3	2	0	4	4	rs149440957	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:70235592G>A	uc001xll.2	+	5	1726	c.275G>A	c.(274-276)CGC>CAC	p.R92H	SFRS5_uc001xlm.2_RNA|SFRS5_uc001xln.1_Missense_Mutation_p.R92H|SFRS5_uc001xlo.2_Missense_Mutation_p.R92H|SFRS5_uc001xlp.2_Missense_Mutation_p.R92H|SFRS5_uc001xlq.2_Missense_Mutation_p.R89H	NM_006925	NP_008856	Q13243	SRSF5_HUMAN	splicing factor, arginine/serine-rich 5	92					mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|protein binding|RNA binding				0				all cancers(60;0.00144)|BRCA - Breast invasive adenocarcinoma(234;0.0132)|OV - Ovarian serous cystadenocarcinoma(108;0.0154)		TTTAGTAGTCGCAGACCTCGA	0.443													22	110					0	0	0.003954	0	0		A	70235592	A	A	70235592	3	1	157	1	0	0	0	0	1	0	0	0	14205	1087	38	1	285	1	SFRS5	14	70235592	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	12537252	70235592	37113948	1012	86572											
ADAM21	8747	broad.mit.edu	37	chr14	70925078	70925078	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatggaaacaaatcagtcttTcccagctacagcatgatgct	14	10	7	10	0	2	1	1	1	1	0	3	2	3	2	1	1	5	3	1	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:70925078T>C	uc001xmd.2	+	1	862	c.862T>C	c.(862-864)TCC>CCC	p.S288P		NM_003813	NP_003804	Q9UKJ8	ADA21_HUMAN	ADAM metallopeptidase domain 21 preproprotein	288	Peptidase M12B.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			pancreas(1)|skin(1)	2				all cancers(60;0.00326)|BRCA - Breast invasive adenocarcinoma(234;0.00646)|OV - Ovarian serous cystadenocarcinoma(108;0.0401)		AATCAGTCTTTCCCAGCTACA	0.373													18	270					0	0	0.006122	0	0		C	70925078	C	C	70925078	3	2	157	1	0	0	0	0	1	0	0	0	243	1783	62	3	864	3	ADAM21	14	70925078	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	689486	70925078	36424462	1013	86573											
RGS6	9628	broad.mit.edu	37	chr14	73029147	73029147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcgctggcgggcaagcGcctcacgggcctgatgcagt	8	6	15	12	4	1	1	1	1	0	0	2	1	1	1	2	3	2	3	2	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:73029147G>A	uc001xna.3	+	17	1914	c.1391G>A	c.(1390-1392)CGC>CAC	p.R464H	RGS6_uc010ttn.1_Missense_Mutation_p.R482H|RGS6_uc001xmx.3_Missense_Mutation_p.R464H|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.R482H|RGS6_uc001xmz.1_Intron	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	464					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GCGGGCAAGCGCCTCACGGGC	0.672													9	46					0	0	0.006214	0	0		A	73029147	A	A	73029147	3	1	157	1	0	0	0	0	1	0	0	0	13334	1087	38	1	1453	1	RGS6	14	73029147	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2104069	73029147	34320393	1014	86574											
C14orf169	79697	broad.mit.edu	37	chr14	73959137	73959137	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcagattctaaggatccGcgaagaaccgctttcatgga	12	10	9	10	3	3	2	2	0	1	2	4	5	4	4	2	2	1	1	2	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:73959137G>A	uc001xok.1	+	3	1495	c.1416G>A	c.(1414-1416)CCG>CCA	p.P472P	HEATR4_uc010tua.1_Intron	NM_024644	NP_078920	Q9H6W3	NO66_HUMAN	chromosome 14 open reading frame 169	472					negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K4 specific)|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.215)		CTAAGGATCCGCGAAGAACCG	0.557													10	43					0	0	0.006214	0	0		A	73959137	A	A	73959137	2	1	157	1	0	0	0	0	0	0	0	1	1761	1087	38	1		1	C14orf169	14	73959137	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	929990	73959137	33390403	1015	86575											
COQ6	51004	broad.mit.edu	37	chr14	74424920	74424920	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgtccatttcctatggccgaCtccagcccttgggttcatat	6	14	8	13	1	1	0	1	0	0	0	4	1	4	0	5	2	1	1	5	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:74424920C>A	uc001xph.2	+	5	632	c.552C>A	c.(550-552)GAC>GAA	p.D184E	ENTPD5_uc001xpi.2_3'UTR|COQ6_uc001xpe.2_Missense_Mutation_p.D109E|COQ6_uc001xpf.2_Missense_Mutation_p.D109E|COQ6_uc010tuk.1_Missense_Mutation_p.D159E|COQ6_uc010tul.1_Missense_Mutation_p.D129E|COQ6_uc010tum.1_Missense_Mutation_p.D184E|COQ6_uc010tun.1_Missense_Mutation_p.D129E|COQ6_uc001xpg.2_Missense_Mutation_p.D184E	NM_182476	NP_872282	Q9Y2Z9	COQ6_HUMAN	coenzyme Q6 homolog isoform a	184					ubiquinone biosynthetic process	mitochondrion	flavin adenine dinucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.00337)		CTATGGCCGACTCCAGCCCTT	0.468													7	190					2.0095e-06	2.11079e-06	0.001984	1	0		A	74424920	A	A	74424920	3	1	157	1	0	0	0	0	1	0	0	0	3752	564	20	5	570	5	COQ6	14	74424920	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	465783	74424920	32924620	1016	86576											
LTBP2	4053	broad.mit.edu	37	chr14	74969608	74969608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcccgctctgcctcaatgcGagccacgttgcacagctgag	7	8	10	16	3	2	1	1	1	1	0	3	2	3	1	3	0	5	4	3	0	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:74969608G>A	uc001xqa.2	-	34	5305	c.4918C>T	c.(4918-4920)CGC>TGC	p.R1640C		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1640					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GCCTCAATGCGAGCCACGTTG	0.617													9	66					0	0	0.003163	0	0		A	74969608	A	A	74969608	3	1	157	1	0	0	0	0	1	0	0	0	9092	1058	37	1	559	1	LTBP2	14	74969608	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	544688	74969608	32379932	1017	86577											
ANGEL1	23357	broad.mit.edu	37	chr14	77257053	77257053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgacctctgggcggccacGctggggcaggaagtgggtat	7	7	18	9	2	1	1	0	1	1	0	1	2	1	2	2	6	0	3	2	6	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:77257053G>A	uc001xsv.2	-	9	1866	c.1753C>T	c.(1753-1755)CGT>TGT	p.R585C	ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	585										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		GGGCGGCCACGCTGGGGCAGG	0.502													16	65					0	0	0.004007	0	0		A	77257053	A	A	77257053	3	1	157	1	0	0	0	0	1	0	0	0	608	1087	38	1	267	1	ANGEL1	14	77257053	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2287445	77257053	30092487	1018	86578											
ADCK1	57143	broad.mit.edu	37	chr14	78397874	78397874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcaggacttagagattcGcaacaacgcggccaactacc	12	7	9	13	3	1	1	1	0	0	1	2	3	1	2	2	2	4	2	2	2	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:78397874G>A	uc001xui.2	+	10	1319	c.1220G>A	c.(1219-1221)CGC>CAC	p.R407H	ADCK1_uc001xuj.2_Missense_Mutation_p.R339H|ADCK1_uc001xul.2_Missense_Mutation_p.R114H	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	414	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		TTAGAGATTCGCAACAACGCG	0.597													28	62					0	0	0.005443	0	0		A	78397874	A	A	78397874	3	1	157	1	0	0	0	0	1	0	0	0	288	1087	38	1	1254	1	ADCK1	14	78397874	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1140821	78397874	28951666	1019	86579											
NRXN3	9369	broad.mit.edu	37	chr14	78710088	78710088	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgctttctcctggacGgccaccccacctgtgactgt	5	11	10	15	1	2	1	0	1	2	0	3	3	2	3	5	3	1	1	5	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:78710088G>A	uc001xum.1	+	2		c.1445G>A						Q9Y4C0	NRX3A_HUMAN	Homo sapiens mRNA for KIAA0743 protein, partial cds.						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TCTCCTGGACGGCCACCCCAC	0.607													11	66					0	0	0.00245	0	0		A	78710088	A	A	78710088	1	1	157	0	1	0	0	0	0	0	0	0	10686	1131	39	1		1	NRXN3	14	78710088	RNA	SNP	G	TCGA-CG-5728-01A-11D-1600-08	312214	78710088	28639452	1020	86580											
C14orf145	145508	broad.mit.edu	37	chr14	81366324	81366324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgttgaaatcatctccaaggCgaatttgttcactgctgagg	10	13	10	8	1	3	2	2	2	1	0	4	3	3	2	1	2	1	3	1	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:81366324C>T	uc001xux.2	-	6	701	c.530G>A	c.(529-531)CGC>CAC	p.R177H	C14orf145_uc001xuz.2_Missense_Mutation_p.R177H|C14orf145_uc001xva.1_Missense_Mutation_p.R177H|C14orf145_uc001xuy.1_Missense_Mutation_p.R35H	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	177						centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)		ATCTCCAAGGCGAATTTGTTC	0.408													26	107					0	0	0.00333	0	0		T	81366324	T	T	81366324	3	4	157	1	0	0	0	0	1	0	0	0	1752	768	27	1	2830	1	C14orf145	14	81366324	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2656236	81366324	25983216	1021	86581											
SLC24A4	123041	broad.mit.edu	37	chr14	92905714	92905714	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgccttggccatagtgtgCgatgacttctttgttccgtc	5	16	10	10	2	1	1	0	1	1	0	3	2	2	1	3	1	2	1	3	1	2	6	rs146323738	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:92905714C>T	uc001yak.2	+	4	327	c.303C>T	c.(301-303)TGC>TGT	p.C101C	SLC24A4_uc001yai.2_Silent_p.C54C|SLC24A4_uc010twm.1_Silent_p.C118C|SLC24A4_uc001yaj.2_Silent_p.C101C|SLC24A4_uc010auj.2_Silent_p.C9C	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	118	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		CCATAGTGTGCGATGACTTCT	0.527													18	241					0	0	0.007413	0	0		T	92905714	T	T	92905714	2	4	157	1	0	0	0	0	0	0	0	1	14493	776	27	1		1	SLC24A4	14	92905714	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	11539390	92905714	14443826	1022	86582											
RIN3	79890	broad.mit.edu	37	chr14	93125676	93125676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctaggtgtgaccaccagcGtgccggaggtgcccatgatg	8	7	14	12	2	0	2	0	2	0	0	0	3	0	3	5	3	3	0	5	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:93125676G>A	uc001yap.2	+	7	2349	c.2197G>A	c.(2197-2199)GTG>ATG	p.V733M	RIN3_uc010auk.2_Missense_Mutation_p.V395M|RIN3_uc001yaq.2_Missense_Mutation_p.V658M|RIN3_uc001yar.1_Missense_Mutation_p.V395M|RIN3_uc001yas.1_Missense_Mutation_p.V395M	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	733	VPS9.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				GACCACCAGCGTGCCGGAGGT	0.557													40	130					0	0	0.010771	0	0		A	93125676	A	A	93125676	3	1	157	1	0	0	0	0	1	0	0	0	13398	1145	40	1	2223	1	RIN3	14	93125676	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	219962	93125676	14223864	1023	86583											
KIAA1409	57578	broad.mit.edu	37	chr14	94158100	94158100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttccttttcagacctcCgtgctgcacatgtgctccct	4	15	6	16	1	2	1	1	0	1	1	5	1	5	1	4	0	3	3	4	0	0	4	rs151304420		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:94158100C>T	uc001ybv.1	+	45	7013	c.6930C>T	c.(6928-6930)TCC>TCT	p.S2310S	KIAA1409_uc001ybs.1_Silent_p.S2288S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2465						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TTCAGACCTCCGTGCTGCACA	0.552													24	105					0	0	0.003954	0	0		T	94158100	T	T	94158100	2	4	157	1	0	0	0	0	0	0	0	1	8246	639	23	1		1	KIAA1409	14	94158100	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1032424	94158100	13191440	1024	86584											
SERPINA6	866	broad.mit.edu	37	chr14	94776106	94776106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggaccacctgttaatcGtgtcccggctcagtgcagcg	6	9	12	14	4	1	0	1	0	0	0	3	1	2	1	3	2	3	3	3	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:94776106G>A	uc001ycv.2	-	3	955	c.851C>T	c.(850-852)ACG>ATG	p.T284M	SERPINA6_uc010auv.2_RNA	NM_001756	NP_001747	P08185	CBG_HUMAN	corticosteroid binding globulin precursor	284					regulation of proteolysis|transport	extracellular space	serine-type endopeptidase inhibitor activity|steroid binding			skin(3)|ovary(1)|central_nervous_system(1)	5		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)	CCTGTTAATCGTGTCCCGGCT	0.552													37	119					0	0	0.003271	0	0		A	94776106	A	A	94776106	3	1	157	1	0	0	0	0	1	0	0	0	14118	1145	40	1	378	1	SERPINA6	14	94776106	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	618006	94776106	12573434	1025	86585											
C14orf49	161176	broad.mit.edu	37	chr14	95921913	95921913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcctcctcccagagggcgCgcagcttctccagaactttc	6	9	8	18	2	1	2	0	0	1	2	6	2	4	2	5	1	2	2	5	1	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:95921913C>T	uc001yei.3	-	5	953	c.938G>A	c.(937-939)CGC>CAC	p.R313H	C14orf49_uc010avi.2_Missense_Mutation_p.R313H|C14orf49_uc001yej.1_Missense_Mutation_p.R313H	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	313	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		CCAGAGGGCGCGCAGCTTCTC	0.617													31	160					0	0	0.003271	0	0		T	95921913	T	T	95921913	3	4	157	1	0	0	0	0	1	0	0	0	1779	768	27	1	2041	1	C14orf49	14	95921913	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1145807	95921913	11427627	1026	86586											
C14orf49	161176	broad.mit.edu	37	chr14	95923557	95923557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgggcagcttgcagttcCgccccaggcagccattcacc	7	8	11	15	1	1	1	1	1	0	0	2	1	2	1	5	2	3	5	5	2	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:95923557C>T	uc001yei.3	-	4	761	c.746G>A	c.(745-747)CGG>CAG	p.R249Q	C14orf49_uc010avi.2_Missense_Mutation_p.R249Q|C14orf49_uc001yej.1_Missense_Mutation_p.R249Q	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	249	Spectrin 1.|Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		CTTGCAGTTCCGCCCCAGGCA	0.627													17	159					0	0	0.00499	0	0		T	95923557	T	T	95923557	3	4	157	1	0	0	0	0	1	0	0	0	1779	652	23	1	2237	1	C14orf49	14	95923557	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1644	95923557	11425983	1027	86587											
C14orf129	51527	broad.mit.edu	37	chr14	96851949	96851949	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttggatacactcagcccCgcctaccgagaagcatttgg	9	10	10	12	2	1	1	1	0	0	1	1	3	1	2	4	2	4	2	4	2	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:96851949C>T	uc001yfj.3	+	4	493	c.348C>T	c.(346-348)CCC>CCT	p.P116P	C14orf129_uc001yfl.2_Silent_p.P116P	NM_016472	NP_057556	Q9P0R6	GSKIP_HUMAN	chromosome 14 open reading frame 129	116	Interaction with GSK3B.					cytoplasm	protein binding				0		Melanoma(154;0.226)		Epithelial(152;0.109)|COAD - Colon adenocarcinoma(157;0.205)		CACTCAGCCCCGCCTACCGAG	0.463													39	179					0	0	0.00623	0	0		T	96851949	T	T	96851949	2	4	157	1	0	0	0	0	0	0	0	1	1747	639	23	1		1	C14orf129	14	96851949	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	928392	96851949	10497591	1028	86588											
PAPOLA	10914	broad.mit.edu	37	chr14	96986463	96986463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcattacttctcctatcaGcttagcagcccccaaggaga	10	10	8	13	0	2	1	1	0	1	1	3	2	2	1	3	2	4	3	3	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:96986463G>A	uc001yfq.2	+	2	290	c.80G>A	c.(79-81)AGC>AAC	p.S27N	PAPOLA_uc001yfo.2_Missense_Mutation_p.S27N|PAPOLA_uc001yfp.2_Missense_Mutation_p.S27N|PAPOLA_uc001yfr.2_Missense_Mutation_p.S27N|PAPOLA_uc010twv.1_Missense_Mutation_p.S27N|PAPOLA_uc010avp.2_5'UTR	NM_032632	NP_116021	P51003	PAPOA_HUMAN	poly(A) polymerase alpha	27					mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	cytoplasm|nucleoplasm	ATP binding|magnesium ion binding|manganese ion binding|polynucleotide adenylyltransferase activity|RNA binding				0		all_cancers(154;0.0555)|all_epithelial(191;0.149)|Melanoma(154;0.155)		COAD - Colon adenocarcinoma(157;0.213)		TCTCCTATCAGCTTAGCAGCC	0.443													11	181					0	0	0.013537	0	0		A	96986463	A	A	96986463	3	1	157	1	0	0	0	0	1	0	0	0	11448	971	34	2	86	2	PAPOLA	14	96986463	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	134514	96986463	10363077	1029	86589											
CCNK	8812	broad.mit.edu	37	chr14	99969288	99969288	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cccaagaaaccctctccgcaGcccagttctccccgacaggt	9	6	7	19	2	2	1	0	0	2	1	4	2	2	1	6	1	2	2	6	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:99969288G>T	uc001ygi.3	+	8	1108	c.978G>T	c.(976-978)CAG>CAT	p.Q326H	CCNK_uc001ygg.3_Intron	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	326					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				CCTCTCCGCAGCCCAGTTCTC	0.632													18	67					6.94344e-10	7.44161e-10	0.006122	1	0		T	99969288	T	T	99969288	3	4	157	1	0	0	0	0	1	0	0	0	2933	962	34	5	1004	5	CCNK	14	99969288	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2982825	99969288	7380252	1030	86590											
WARS	7453	broad.mit.edu	37	chr14	100808882	100808882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccgatcctgggggcgacGtcccttgtcattctaaagta	8	11	11	11	3	2	0	1	0	1	0	4	2	4	0	3	2	1	1	3	2	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:100808882G>A	uc001yhf.1	-	8	1050	c.966C>T	c.(964-966)GAC>GAT	p.D322D	WARS_uc001yhe.1_Silent_p.D128D|WARS_uc001yhg.1_Silent_p.D322D|WARS_uc001yhh.1_Silent_p.D322D|WARS_uc001yhi.1_Silent_p.D281D|WARS_uc001yhj.1_Silent_p.D281D|WARS_uc001yhk.1_Silent_p.D281D|WARS_uc001yhl.1_Silent_p.D322D	NM_173701	NP_776049	P23381	SYWC_HUMAN	tryptophanyl-tRNA synthetase isoform a	322					angiogenesis|negative regulation of cell proliferation|regulation of angiogenesis|tryptophanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|protein binding|tryptophan-tRNA ligase activity			breast(1)	1		all_cancers(154;0.00223)|all_lung(585;2.48e-06)|all_epithelial(191;0.000564)|Melanoma(154;0.152)			L-Tryptophan(DB00150)	TGGGGGCGACGTCCCTTGTCA	0.587													11	42					0	0	0.013537	0	0		A	100808882	A	A	100808882	2	1	157	1	0	0	0	0	0	0	0	1	17275	1136	40	1		1	WARS	14	100808882	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	839594	100808882	6540658	1031	86591											
XRCC3	7517	broad.mit.edu	37	chr14	104165790	104165790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagatgcctggccctgggggCggaggcctggctgtcaaatt	6	8	16	11	1	1	1	1	0	0	1	1	2	1	2	3	6	1	1	3	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:104165790C>T	uc001yny.3	-	8	1065	c.685G>A	c.(685-687)GCC>ACC	p.A229T	KLC1_uc010tyf.1_Intron|KLC1_uc001yno.2_Intron|KLC1_uc001yns.2_Intron|XRCC3_uc001ynx.3_Missense_Mutation_p.A229T|XRCC3_uc001ynz.3_Missense_Mutation_p.A229T|XRCC3_uc001yoa.3_Missense_Mutation_p.A229T	NM_005432	NP_005423	O43542	XRCC3_HUMAN	X-ray repair cross complementing protein 3	229					DNA recombination|DNA repair	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0		Melanoma(154;0.155)|all_epithelial(191;0.19)		Epithelial(152;0.239)		GCCCTGGGGGCGGAGGCCTGG	0.642								Direct_reversal_of_damage|Homologous_recombination					6	47					0	0	0.001984	0	0		T	104165790	T	T	104165790	3	4	157	1	0	0	0	0	1	0	0	0	17480	768	27	1	367	1	XRCC3	14	104165790	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3356908	104165790	3183750	1032	86592											
AHNAK2	113146	broad.mit.edu	37	chr14	105414613	105414613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttgaggccggctccctccGgcacggggccctctgggagt	3	8	15	15	3	1	1	0	1	1	0	3	2	3	2	4	6	0	2	4	6	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:105414613G>A	uc010axc.1	-	7	7295	c.7175C>T	c.(7174-7176)CCG>CTG	p.P2392L	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2292L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2392						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GGCTCCCTCCGGCACGGGGCC	0.622													41	159					0	0	0.010771	0	0		A	105414613	A	A	105414613	3	1	157	1	0	0	0	0	1	0	0	0	415	1116	39	1	10216	1	AHNAK2	14	105414613	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1248823	105414613	1934927	1033	86593											
GPR132	29933	broad.mit.edu	37	chr14	105517868	105517868	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagccaacggtgaacctGgcgtagtagtacccggcaat	12	6	12	11	3	0	1	0	1	0	0	0	1	0	1	3	3	4	5	3	3	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:105517868G>T	uc001yqd.2	-	4	1505	c.606C>A	c.(604-606)GCC>GCA	p.A202A	GPR132_uc001yqc.2_Silent_p.A14A|GPR132_uc001yqe.2_Silent_p.A193A	NM_013345	NP_037477	Q9UNW8	GP132_HUMAN	G protein-coupled receptor 132	202	Helical; Name=5; (Potential).				response to stress	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.0953)|Melanoma(154;0.155)|all_epithelial(191;0.219)	OV - Ovarian serous cystadenocarcinoma(23;0.00778)|all cancers(16;0.00936)|Epithelial(46;0.0227)	Epithelial(152;0.02)|all cancers(159;0.0419)|OV - Ovarian serous cystadenocarcinoma(161;0.0521)		CGGTGAACCTGGCGTAGTAGT	0.562													23	49					1.96895e-08	2.0903e-08	0.00278	1	0		T	105517868	T	T	105517868	2	4	157	1	0	0	0	0	0	0	0	1	6657	1335	47	5		5	GPR132	14	105517868	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	103255	105517868	1831672	1034	86594											
BTBD6	90135	broad.mit.edu	37	chr14	105716569	105716569	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccccgcagaggtgccacCgattccagtcttctgcctac	6	9	9	17	3	2	1	0	0	2	1	4	2	3	1	6	1	3	1	6	1	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr14:105716569C>T	uc010tyq.1	+	5	1126	c.1018C>T	c.(1018-1020)CGA>TGA	p.R340*	BRF1_uc010tyo.1_Intron|BRF1_uc010typ.1_Intron|BRF1_uc001yql.2_5'Flank|BRF1_uc001yqo.2_5'Flank|BRF1_uc010axg.1_Intron|BRF1_uc001yqp.2_Intron|BRF1_uc001yqn.2_5'Flank|BRF1_uc010axh.1_5'Flank|BRF1_uc010axj.1_5'Flank	NM_033271	NP_150374	Q96KE9	BTBD6_HUMAN	BTB domain protein BDPL	340						cytoplasmic mRNA processing body					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.0163)|Epithelial(46;0.0391)	Epithelial(152;0.18)		GAGGTGCCACCGATTCCAGTC	0.617													8	60					0	0	0.00308	0	0		T	105716569	T	T	105716569	4	4	157	1	0	0	0	0	0	1	0	0	1548	644	23	1	1032	1	BTBD6	14	105716569	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	198701	105716569	1632971	1035	86595											
NIPA1	123606	broad.mit.edu	37	chr15	23048857	23048857	+	Missense_Mutation	SNP	A	G	G	1	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	ttttcatattagatttgttcAtctccccaaggttgaaattg	10	18	6	7	0	3	2	2	1	1	1	4	2	3	2	2	1	0	2	2	1	4	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:23048857A>G	uc001yvc.2	-	5	987	c.962T>C	c.(961-963)ATG>ACG	p.M321T	NIPA1_uc001yvd.2_Missense_Mutation_p.M151T|NIPA1_uc001yve.2_Missense_Mutation_p.M246T	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	321	Cytoplasmic (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		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;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		AGATTTGTTCATCTCCCCAAG	0.468													38	112					0	0	0.007835	0	0		G	23048857	G	G	23048857	3	3	157	1	0	0	0	0	1	0	0	0	10441	217	8	3	31	3	NIPA1	15	23048857	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08		23048857	79482535	1036	86596											
NIPA1	123606	broad.mit.edu	37	chr15	23048996	23048996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggaagaggatggctgaggCcagcaggaccagcgtggtaa	11	4	17	9	2	0	2	0	1	0	1	0	5	0	5	3	6	2	3	3	6	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:23048996C>T	uc001yvc.2	-	5	848	c.823G>A	c.(823-825)GCC>ACC	p.A275T	NIPA1_uc001yvd.2_Missense_Mutation_p.A105T|NIPA1_uc001yve.2_Missense_Mutation_p.A200T	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	275	Helical; (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		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;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		ATGGCTGAGGCCAGCAGGACC	0.587													5	50					0	0	0.001168	0	0		T	23048996	T	T	23048996	3	4	157	1	0	0	0	0	1	0	0	0	10441	739	26	2	170	2	NIPA1	15	23048996	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	139	23048996	79482396	1037	86597											
NIPA1	123606	broad.mit.edu	37	chr15	23049218	23049218	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttggtggaaggcacggtgaAactgcccagcaaggagcaga	12	5	15	9	1	0	2	0	1	0	1	0	4	0	4	1	5	4	3	1	5	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:23049218A>C	uc001yvc.2	-	5	626	c.601T>G	c.(601-603)TTC>GTC	p.F201V	NIPA1_uc001yvd.2_Missense_Mutation_p.F31V|NIPA1_uc001yve.2_Missense_Mutation_p.F126V	NM_144599	NP_653200	Q7RTP0	NIPA1_HUMAN	non-imprinted in Prader-Willi/Angelman syndrome	201	Helical; (Potential).				cell death	early endosome|integral to membrane|plasma membrane					0		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;4.18e-06)|Epithelial(43;3.97e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00165)		GGCACGGTGAAACTGCCCAGC	0.602													8	69					0	0	0.006214	0	0		C	23049218	C	C	23049218	3	2	157	1	0	0	0	0	1	0	0	0	10441	14	1	5	392	5	NIPA1	15	23049218	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	222	23049218	79482174	1038	86598											
NDN	4692	broad.mit.edu	37	chr15	23932081	23932081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttctgcaccagctgcgccGgggctggcggtgccgggccc	2	6	16	17	4	1	0	0	0	1	0	1	0	1	0	5	5	4	3	5	5	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:23932081G>A	uc001ywk.2	-	1	370	c.284C>T	c.(283-285)CCG>CTG	p.P95L		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	95					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		CAGCTGCGCCGGGGCTGGCGG	0.677									Prader-Willi_syndrome				16	52					0	0	0.007413	0	0		A	23932081	A	A	23932081	3	1	157	1	0	0	0	0	1	0	0	0	10266	1116	39	1	685	1	NDN	15	23932081	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	882863	23932081	78599311	1039	86599											
GABRG3	2567	broad.mit.edu	37	chr15	27777969	27777969	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcgtactcccgggtcttttTccccacgtccttcctgctct	2	15	6	18	3	2	0	0	0	2	0	7	0	6	0	5	1	2	2	5	1	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:27777969T>C	uc001zbg.1	+	10	1512	c.1346T>C	c.(1345-1347)TTC>TCC	p.F449S		NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	449	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		CGGGTCTTTTTCCCCACGTCC	0.473													4	61					0	0	0.009096	0	0		C	27777969	C	C	27777969	3	2	157	1	0	0	0	0	1	0	0	0	6187	1783	62	3	1384	3	GABRG3	15	27777969	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3845888	27777969	74753423	1040	86600											
OCA2	4948	broad.mit.edu	37	chr15	28090167	28090167	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatccctgcacacacgacGtttgccgacgcgccaatcag	10	6	9	16	5	1	0	1	0	0	0	2	2	2	0	3	0	2	3	3	0	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:28090167G>A	uc001zbh.3	-	23	2480	c.2370C>T	c.(2368-2370)AAC>AAT	p.N790N	OCA2_uc010ayv.2_Silent_p.N766N	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	790	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CACACACGACGTTTGCCGACG	0.398									Oculocutaneous_Albinism				12	64					0	0	0.001855	0	0		A	28090167	A	A	28090167	2	1	157	1	0	0	0	0	0	0	0	1	10834	1136	40	1		1	OCA2	15	28090167	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	312198	28090167	74441225	1041	86601											
APBA2	321	broad.mit.edu	37	chr15	29346438	29346438	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagagggcatggactgcaaCggggaggagtacctggccca	10	5	16	10	1	0	1	0	0	0	1	0	4	0	4	2	6	3	3	2	6	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:29346438C>T	uc001zck.2	+	3	558	c.351C>T	c.(349-351)AAC>AAT	p.N117N	APBA2_uc010azj.2_Silent_p.N117N|APBA2_uc010uat.1_Silent_p.N117N|APBA2_uc001zcl.2_Silent_p.N117N|APBA2_uc010uas.1_Silent_p.N117N	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	117					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		TGGACTGCAACGGGGAGGAGT	0.647													37	124					0	0	0.005524	0	0		T	29346438	T	T	29346438	2	4	157	1	0	0	0	0	0	0	0	1	757	535	19	1		1	APBA2	15	29346438	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1256271	29346438	73184954	1042	86602											
RYR3	6263	broad.mit.edu	37	chr15	33873743	33873743	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcttaaattgcattgaccGcttaaatgtctacaatagcg	12	14	7	8	2	2	1	0	1	2	0	2	1	2	1	1	0	3	2	1	0	7	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:33873743G>A	uc001zhi.2	+	14	1542	c.1472G>A	c.(1471-1473)CGC>CAC	p.R491H	RYR3_uc010bar.2_Missense_Mutation_p.R491H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	491	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGCATTGACCGCTTAAATGTC	0.438													42	168					0	0	0.011902	0	0		A	33873743	A	A	33873743	3	1	157	1	0	0	0	0	1	0	0	0	13795	1087	38	1	1526	1	RYR3	15	33873743	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4527305	33873743	68657649	1043	86603											
EIF2AK4	440275	broad.mit.edu	37	chr15	40308866	40308866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgaagaaactcggcatcaAgttacaggtttggcaacagt	13	10	11	7	1	1	2	1	1	0	1	2	2	1	2	0	3	3	5	0	3	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:40308866A>G	uc001zkm.1	+	28	3973	c.3923A>G	c.(3922-3924)AAG>AGG	p.K1308R	EIF2AK4_uc010bbj.1_Missense_Mutation_p.K1009R|EIF2AK4_uc001zkn.1_Missense_Mutation_p.K408R|EIF2AK4_uc001zko.1_Intron|EIF2AK4_uc010bbk.1_RNA	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	1308	Histidyl-tRNA synthetase-like.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		CTCGGCATCAAGTTACAGGTT	0.378													29	100					0	0	0.008361	0	0		G	40308866	G	G	40308866	3	3	157	1	0	0	0	0	1	0	0	0	5005	72	3	3	4033	3	EIF2AK4	15	40308866	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6435123	40308866	62222526	1044	86604											
FAM82A2	55177	broad.mit.edu	37	chr15	41029864	41029864	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggcatcttccacagtggcacTgagagggctttcaagcaagg	10	8	13	10	0	2	1	1	1	1	1	3	2	3	1	1	4	1	4	1	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:41029864T>C	uc001zmo.1	-	10	1330	c.1186A>G	c.(1186-1188)AGT>GGT	p.S396G	FAM82A2_uc001zmp.1_Missense_Mutation_p.S396G|FAM82A2_uc001zmq.1_Missense_Mutation_p.S396G	NM_018145	NP_060615	Q96TC7	RMD3_HUMAN	family with sequence similarity 82, member A2	396					apoptosis|cell differentiation	integral to membrane|microtubule|mitochondrial membrane|nucleus|spindle pole	protein binding				0						ACAGTGGCACTGAGAGGGCTT	0.468													23	102					0	0	0.012319	0	0		C	41029864	C	C	41029864	3	2	157	1	0	0	0	0	1	0	0	0	5645	1580	55	3	242	3	FAM82A2	15	41029864	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	720998	41029864	61501528	1045	86605											
INO80	54617	broad.mit.edu	37	chr15	41362706	41362706	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaatgctctgtactgtttTaccaaggcccatttcatcag	9	13	8	11	0	3	0	2	0	1	0	3	0	3	0	2	2	3	4	2	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:41362706T>C	uc001zni.2	-	13	1858	c.1645A>G	c.(1645-1647)AAA>GAA	p.K549E	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	549	ATP (By similarity).|Helicase ATP-binding.|Assembles INO80 complex module consisting of conserved components INO80B, INO80C, ACTR5, RVBL1, RVBL2.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TGTACTGTTTTACCAAGGCCC	0.403													21	120					0	0	0.014323	0	0		C	41362706	C	C	41362706	3	2	157	1	0	0	0	0	1	0	0	0	7762	1763	61	3	3121	3	INO80	15	41362706	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	332842	41362706	61168686	1046	86606											
ITPKA	3706	broad.mit.edu	37	chr15	41794637	41794637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaccgacttcaagactaCgcgaagccgagagcaggtgc	12	4	12	13	4	1	2	1	0	0	2	1	5	1	2	2	1	5	2	2	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:41794637C>T	uc001znz.2	+	5	1057	c.1046C>T	c.(1045-1047)ACG>ATG	p.T349M		NM_002220	NP_002211	P23677	IP3KA_HUMAN	1D-myo-inositol-trisphosphate 3-kinase A	349					signal transduction		ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0		all_cancers(109;1.89e-19)|all_epithelial(112;2.28e-16)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.172)		OV - Ovarian serous cystadenocarcinoma(18;7.63e-17)|GBM - Glioblastoma multiforme(113;1.34e-06)|Colorectal(105;0.0148)|BRCA - Breast invasive adenocarcinoma(123;0.113)		TTCAAGACTACGCGAAGCCGA	0.607													7	55					0	0	0.006214	0	0		T	41794637	T	T	41794637	3	4	157	1	0	0	0	0	1	0	0	0	7933	536	19	1	1064	1	ITPKA	15	41794637	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	431931	41794637	60736755	1047	86607											
VPS39	23339	broad.mit.edu	37	chr15	42459039	42459039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttgtgagccttctttagcaCgtgctcgctctcctcgatgt	4	15	9	13	3	2	1	0	1	2	0	5	2	2	1	2	0	3	3	2	0	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:42459039C>T	uc001zpd.2	-	15	1634	c.1483G>A	c.(1483-1485)GTG>ATG	p.V495M	VPS39_uc001zpc.2_Missense_Mutation_p.V484M|VPS39_uc001zpb.2_5'Flank	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	495					protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-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;3.05e-06)		TTCTTTAGCACGTGCTCGCTC	0.542													46	188					0	0	0.010771	0	0		T	42459039	T	T	42459039	3	4	157	1	0	0	0	0	1	0	0	0	17235	536	19	1	1225	1	VPS39	15	42459039	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	664402	42459039	60072353	1048	86608											
ZFP106	64397	broad.mit.edu	37	chr15	42743481	42743481	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcgagtaagccttctgaaGgaaatttatcacttgtaaat	14	13	8	6	1	2	1	1	1	1	0	3	3	2	2	1	1	1	2	1	1	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:42743481G>T	uc001zpw.2	-	2	1255	c.920C>A	c.(919-921)CCT>CAT	p.P307H	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.P90H|ZFP106_uc001zpy.1_Missense_Mutation_p.P330H	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	307						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GCCTTCTGAAGGAAATTTATC	0.413													35	119					3.86903e-22	4.29101e-22	0.013726	1	0		T	42743481	T	T	42743481	3	4	157	1	0	0	0	0	1	0	0	0	17662	1000	35	5	4803	5	ZFP106	15	42743481	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	284442	42743481	59787911	1049	86609											
DUOX2	50506	broad.mit.edu	37	chr15	45388103	45388103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtggtccagggccccactgCccggatgtgcaggctgagtg	6	7	16	12	1	0	1	0	1	0	0	1	2	1	2	4	4	2	2	4	4	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:45388103C>T	uc010bea.2	-	30	4206	c.4003G>A	c.(4003-4005)GCA>ACA	p.A1335T	DUOX2_uc001zun.2_Missense_Mutation_p.A1335T	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1335	Cytoplasmic (Potential).|FAD-binding FR-type.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GGCCCCACTGCCCGGATGTGC	0.647													16	75					0	0	0.004007	0	0		T	45388103	T	T	45388103	3	4	157	1	0	0	0	0	1	0	0	0	4807	739	26	2	663	2	DUOX2	15	45388103	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2644622	45388103	57143289	1050	86610											
DUOXA1	90527	broad.mit.edu	37	chr15	45410244	45410244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctcggacatccgcaggcaCcagggaaagtctcctggggc	8	5	14	14	2	1	0	0	0	1	0	4	2	2	2	4	5	0	2	4	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:45410244C>T	uc001zup.2	-	10	1415	c.1015G>A	c.(1015-1017)GTG>ATG	p.V339M	DUOXA2_uc001zuo.2_3'UTR|DUOXA2_uc010beb.2_RNA|DUOXA1_uc010uem.1_Missense_Mutation_p.V294M|DUOXA1_uc010bec.2_Missense_Mutation_p.V339M	NM_144565	NP_653166	Q1HG43	DOXA1_HUMAN	Numb-interacting protein	Error:Variant_position_missing_in_Q1HG43_after_alignment					protein transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)	1		all_cancers(109;6.02e-08)|all_epithelial(112;1.83e-06)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.82e-18)|GBM - Glioblastoma multiforme(94;4.39e-07)|COAD - Colon adenocarcinoma(120;0.0676)|Colorectal(133;0.0686)		TCCGCAGGCACCAGGGAAAGT	0.562											OREG0023102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	61					0	0	0.004672	0	0		T	45410244	T	T	45410244	3	4	157	1	0	0	0	0	1	0	0	0	4808	507	18	4	444	4	DUOXA1	15	45410244	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	22141	45410244	57121148	1051	86611											
FBN1	2200	broad.mit.edu	37	chr15	48752456	48752456	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactcaccaacgggtaaaccGgtataaatgtcgatgacaaa	16	7	9	9	3	1	1	1	1	0	0	2	3	1	1	2	2	2	2	2	2	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:48752456G>C	uc001zwx.1	-	43	5611	c.5283C>G	c.(5281-5283)ACC>ACG	p.T1761T	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1761					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CGGGTAAACCGGTATAAATGT	0.418													13	54					0	0	0.00245	0	0		C	48752456	C	C	48752456	2	2	157	1	0	0	0	0	0	0	0	1	5716	1103	39	5		5	FBN1	15	48752456	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3342212	48752456	53778936	1052	86612											
NEDD4	4734	broad.mit.edu	37	chr15	56134223	56134223	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaactcctccataatccaAtcccttttcaccatcaaact	12	11	2	16	0	2	0	2	0	0	0	6	0	6	0	5	1	2	1	5	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:56134223A>T	uc002adj.2	-	15	3304	c.3004T>A	c.(3004-3006)TTG>ATG	p.L1002M	NEDD4_uc002adl.2_Missense_Mutation_p.L583M|NEDD4_uc002adi.2_Missense_Mutation_p.L930M|NEDD4_uc010ugj.1_Missense_Mutation_p.L986M|NEDD4_uc010bfm.2_Missense_Mutation_p.L985M|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	1002	HECT.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		CCATAATCCAATCCCTTTTCA	0.423													14	175					0	0	0.003163	0	0		T	56134223	T	T	56134223	3	4	157	1	0	0	0	0	1	0	0	0	10329	98	4	5	999	5	NEDD4	15	56134223	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	7381767	56134223	46397169	1053	86613											
VPS13C	54832	broad.mit.edu	37	chr15	62209578	62209578	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatatgggagaagattccGcaaagtgagagaaggataaa	18	6	14	3	1	0	4	0	1	0	3	1	8	1	6	1	3	0	1	1	3	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:62209578G>T	uc002agz.2	-	60	8091	c.8017C>A	c.(8017-8019)CGG>AGG	p.R2673R	VPS13C_uc002aha.2_Silent_p.R2630R|VPS13C_uc002ahb.1_Silent_p.R2673R|VPS13C_uc002ahc.1_Silent_p.R2630R|VPS13C_uc002ahd.1_Silent_p.R50R	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2673					protein localization					ovary(2)	2						AGAAGATTCCGCAAAGTGAGA	0.363													18	64					2.5808e-16	2.83066e-16	0.006122	1	0		T	62209578	T	T	62209578	2	4	157	1	0	0	0	0	0	0	0	1	17217	1086	38	5		5	VPS13C	15	62209578	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6075355	62209578	40321814	1054	86614											
TLN2	83660	broad.mit.edu	37	chr15	63000709	63000709	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtctcacttcaggttgtgagCcccactattagctcccctgt	6	13	8	14	0	2	1	2	1	1	0	4	1	3	1	4	1	2	2	4	1	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:63000709C>T	uc002alb.3	+	18	2181	c.2181C>T	c.(2179-2181)AGC>AGT	p.S727S		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	727					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						AGGTTGTGAGCCCCACTATTA	0.597													22	97					0	0	0.00278	0	0		T	63000709	T	T	63000709	2	4	157	1	0	0	0	0	0	0	0	1	15973	738	26	2		2	TLN2	15	63000709	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	791131	63000709	39530683	1055	86615											
PARP16	54956	broad.mit.edu	37	chr15	65553245	65553245	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgggtggcttctgtgaatAcaccaggaggtacttcactc	8	12	11	10	0	2	1	1	1	1	0	3	2	2	2	1	4	2	2	1	4	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:65553245A>G	uc002aoo.2	-	5	1065	c.811T>C	c.(811-813)TAT>CAT	p.Y271H	PARP16_uc002aop.2_Missense_Mutation_p.Y156H|PARP16_uc002aoq.2_Missense_Mutation_p.Y271H	NM_017851	NP_060321	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	271	PARP catalytic.					integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2						TTCTGTGAATACACCAGGAGG	0.498													21	263					0	0	0.014323	0	0		G	65553245	G	G	65553245	3	3	157	1	0	0	0	0	1	0	0	0	11479	391	14	3	168	3	PARP16	15	65553245	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2552536	65553245	36978147	1056	86616											
GLCE	26035	broad.mit.edu	37	chr15	69561347	69561347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcaaggtccttgtatgagCgtggcatggaatctcttaaa	12	11	11	7	1	1	1	0	1	1	0	3	2	2	2	1	3	2	3	1	3	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:69561347C>T	uc002ary.1	+	5	1846	c.1618C>T	c.(1618-1620)CGT>TGT	p.R540C		NM_015554	NP_056369	O94923	GLCE_HUMAN	D-glucuronyl C5-epimerase	540	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|heparin biosynthetic process	Golgi membrane|integral to membrane	UDP-glucuronate 5'-epimerase activity			ovary(2)	2						CTTGTATGAGCGTGGCATGGA	0.433													44	157					0	0	0.009718	0	0		T	69561347	T	T	69561347	3	4	157	1	0	0	0	0	1	0	0	0	6447	768	27	1	1628	1	GLCE	15	69561347	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4008102	69561347	32970045	1057	86617											
LRRC49	54839	broad.mit.edu	37	chr15	71276445	71276445	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcataggagaagaaaaggTtaacaattaacaacgtagct	18	10	8	5	1	1	2	1	0	0	2	1	3	1	2	0	2	4	3	0	2	9	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:71276445T>C	uc002asw.2	+	11	1265	c.1018T>C	c.(1018-1020)TTA>CTA	p.L340L	LRRC49_uc002asu.2_Silent_p.L330L|LRRC49_uc002asx.2_Silent_p.L296L|LRRC49_uc010ukf.1_Silent_p.L345L|LRRC49_uc002asy.2_Silent_p.L46L|LRRC49_uc002asz.2_Silent_p.L312L	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	340	Potential.					cytoplasm|microtubule				ovary(1)	1						GAAGAAAAGGTTAACAATTAA	0.363													17	48					0	0	0.004007	0	0		C	71276445	C	C	71276445	2	2	157	1	0	0	0	0	0	0	0	1	9024	1722	60	3		3	LRRC49	15	71276445	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1715098	71276445	31254947	1058	86618											
THSD4	79875	broad.mit.edu	37	chr15	72063445	72063445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttcgggtccgggaagtgCggtgtctgtctgatgacatg	5	12	16	8	3	2	2	0	2	2	0	4	3	3	3	1	3	1	1	1	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:72063445C>T	uc002atb.1	+	16	2891	c.2812C>T	c.(2812-2814)CGG>TGG	p.R938W	THSD4_uc002ate.2_Missense_Mutation_p.R578W|THSD4_uc002atg.1_Missense_Mutation_p.R141W	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	938	TSP type-1 6.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						CCGGGAAGTGCGGTGTCTGTC	0.502													59	232					0	0	0.01441	0	0		T	72063445	T	T	72063445	3	4	157	1	0	0	0	0	1	0	0	0	15903	759	27	1	2874	1	THSD4	15	72063445	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	787000	72063445	30467947	1059	86619											
PKM2	5315	broad.mit.edu	37	chr15	72501132	72501132	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcctggatgtccttctcCgacacagcaggcaagtccac	10	8	9	14	1	1	1	0	0	1	1	5	3	4	2	4	2	1	2	4	2	1	1	rs11558356		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:72501132C>T	uc002atx.1	-	6	907	c.666G>A	c.(664-666)TCG>TCA	p.S222S	PKM2_uc002ats.1_5'Flank|PKM2_uc002att.1_5'UTR|PKM2_uc002atu.1_5'UTR|PKM2_uc010bit.1_Silent_p.S227S|PKM2_uc010uki.1_Silent_p.S296S|PKM2_uc002atv.1_Silent_p.S257S|PKM2_uc002atw.1_Silent_p.S222S|PKM2_uc002aty.1_Silent_p.S222S|PKM2_uc010ukj.1_Silent_p.S207S|PKM2_uc010ukk.1_Silent_p.S148S|PKM2_uc010biu.1_Silent_p.S243S|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	222					glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	TGTCCTTCTCCGACACAGCAG	0.542													42	118					0	0	0.00623	0	0		T	72501132	T	T	72501132	2	4	157	1	0	0	0	0	0	0	0	1	11996	639	23	1		1	PKM2	15	72501132	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	437687	72501132	30030260	1060	86620											
CSPG4	1464	broad.mit.edu	37	chr15	75981164	75981164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtcgtaagcgtggtgctgtgGgtcagtgctcaggtacctca	6	11	15	9	2	3	0	3	0	0	0	4	0	3	0	1	3	4	4	1	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:75981164G>A	uc002baw.2	-	3	2335	c.2242C>T	c.(2242-2244)CCA>TCA	p.P748S		NM_001897	NP_001888	Q6UVK1	CSPG4_HUMAN	chondroitin sulfate proteoglycan 4 precursor	748	CSPG 3.|Extracellular (Potential).|Gly/Ser-rich (glycosaminoglycan attachment domain).|Interaction with COL5A1 (By similarity).|Interaction with COL6A2 (By similarity).				angiogenesis|cell differentiation|intracellular signal transduction|positive regulation of peptidyl-tyrosine phosphorylation|tissue remodeling	apical plasma membrane|cell surface|integral to plasma membrane|intracellular|lamellipodium membrane	protein kinase binding|signal transducer activity			ovary(2)|pancreas(1)	3						TGGTGCTGTGGGTCAGTGCTC	0.652													4	74					0	0	0.009096	0	0		A	75981164	A	A	75981164	3	1	157	1	0	0	0	0	1	0	0	0	3963	1232	43	4	4758	4	CSPG4	15	75981164	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3480032	75981164	26550228	1061	86621											
CIB2	10518	broad.mit.edu	37	chr15	78401632	78401632	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggggagccgactcgcagagCacggaaaacatgtccacaaa	14	3	12	12	4	0	1	0	0	0	1	2	4	1	3	2	3	3	2	2	3	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:78401632C>T	uc002bdb.1	-	4	612	c.291G>A	c.(289-291)GTG>GTA	p.V97V	CIB2_uc002bdc.1_Silent_p.V54V|CIB2_uc010ums.1_Silent_p.V97V	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	97	EF-hand 1.						calcium ion binding				0						ACTCGCAGAGCACGGAAAACA	0.537													16	63					0	0	0.004007	0	0		T	78401632	T	T	78401632	2	4	157	1	0	0	0	0	0	0	0	1	3424	697	25	2		2	CIB2	15	78401632	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2420468	78401632	24129760	1062	86622											
CRABP1	1381	broad.mit.edu	37	chr15	78633393	78633393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctgcgcaggtgtgaacGccatgctgaggaaagtggcc	9	6	14	12	2	0	2	0	2	0	0	0	3	0	3	3	3	3	2	3	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:78633393G>A	uc002bdp.2	+	2	184	c.79G>A	c.(79-81)GCC>ACC	p.A27T		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	27	Nuclear localization signal (By similarity).				multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	AGGTGTGAACGCCATGCTGAG	0.617													3	7					0	0	0.000602	0	0		A	78633393	A	A	78633393	3	1	157	1	0	0	0	0	1	0	0	0	3846	1087	38	1	85	1	CRABP1	15	78633393	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	231761	78633393	23897999	1063	86623											
RASGRF1	5923	broad.mit.edu	37	chr15	79264215	79264215	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggcacagcttacctttgctTggtgctctattttgtaggca	7	15	10	9	0	1	0	0	0	1	0	1	0	1	0	1	3	4	6	1	3	3	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:79264215T>C	uc002beq.2	-	27	4097	c.3722A>G	c.(3721-3723)CAA>CGA	p.Q1241R	RASGRF1_uc002bep.2_Missense_Mutation_p.Q1225R|RASGRF1_uc002beo.2_Missense_Mutation_p.Q457R	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	1243	Ras-GEF.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						TACCTTTGCTTGGTGCTCTAT	0.488													4	173					0	0	0.009096	0	0		C	79264215	C	C	79264215	3	2	157	1	0	0	0	0	1	0	0	0	13097	1812	63	3	107	3	RASGRF1	15	79264215	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	630822	79264215	23267177	1064	86624											
AP3B2	8120	broad.mit.edu	37	chr15	83346060	83346060	+	Missense_Mutation	SNP	A	T	T	1	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	taagctttgccaagtgtttgAtgatctctccatgttgtgct	7	17	9	8	0	1	2	0	2	1	0	3	2	2	2	2	0	3	4	2	0	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:83346060A>T	uc010uoh.1	-	13	1631	c.1454T>A	c.(1453-1455)ATC>AAC	p.I485N	AP3B2_uc010uoi.1_Missense_Mutation_p.I485N|AP3B2_uc010uoj.1_Missense_Mutation_p.I453N|AP3B2_uc010uog.1_Missense_Mutation_p.I121N	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	485					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			CAAGTGTTTGATGATCTCTCC	0.448													6	33					0	0	0.00308	0	0		T	83346060	T	T	83346060	3	4	157	1	0	0	0	0	1	0	0	0	745	333	12	5	1850	5	AP3B2	15	83346060	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	4081845	83346060	19185332	1065	86625											
FSD2	123722	broad.mit.edu	37	chr15	83430979	83430979	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctcatccacctccacctcCcagtaatggtgccctcggac	7	9	7	18	1	1	0	1	0	0	0	5	1	4	1	6	2	2	2	6	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:83430979C>A	uc002bjd.2	-	12	2039	c.1872G>T	c.(1870-1872)TGG>TGT	p.W624C	FSD2_uc010uol.1_Missense_Mutation_p.W579C|FSD2_uc010uom.1_Missense_Mutation_p.W579C	NM_001007122	NP_001007123	A1L4K1	FSD2_HUMAN	fibronectin type III and SPRY domain containing	624	B30.2/SPRY.									central_nervous_system(1)	1						CCTCCACCTCCCAGTAATGGT	0.522													8	47					5.18039e-06	5.42127e-06	0.00308	1	0		A	83430979	A	A	83430979	3	1	157	1	0	0	0	0	1	0	0	0	6085	624	22	5	385	5	FSD2	15	83430979	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	84919	83430979	19100413	1066	86626											
ZNF774	342132	broad.mit.edu	37	chr15	90904478	90904478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagagcttccgtcagaaagCgcatcttttatgccatcaaa	13	10	7	11	2	3	2	2	0	1	2	4	2	4	2	2	0	3	2	2	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:90904478C>T	uc002bpk.3	+	4	1601	c.1415C>T	c.(1414-1416)GCG>GTG	p.A472V		NM_001004309	NP_001004309	Q6NX45	ZN774_HUMAN	zinc finger protein 774	472	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0158)|all_lung(78;0.0331)		BRCA - Breast invasive adenocarcinoma(143;0.0224)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			CGTCAGAAAGCGCATCTTTTA	0.433													53	179					0	0	0.01441	0	0		T	90904478	T	T	90904478	3	4	157	1	0	0	0	0	1	0	0	0	18172	768	27	1	1425	1	ZNF774	15	90904478	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7473499	90904478	11626914	1067	86627											
SYNM	23336	broad.mit.edu	37	chr15	99670499	99670499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagaaaacatcgttaccaGtatcctgaagcagttcactc	14	9	7	11	1	1	2	1	1	0	1	4	2	2	2	2	0	4	5	2	0	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr15:99670499G>A	uc002bup.2	+	6	2054	c.1934G>A	c.(1933-1935)AGT>AAT	p.S645N	SYNM_uc002buo.2_Missense_Mutation_p.S645N|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	645	Tail.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						ATCGTTACCAGTATCCTGAAG	0.493													7	42					0	0	0.004482	0	0		A	99670499	A	A	99670499	3	1	157	1	0	0	0	0	1	0	0	0	15480	1029	36	4	1947	4	SYNM	15	99670499	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8766021	99670499	2860893	1068	86628											
MSLNL	401827	broad.mit.edu	37	chr16	830412	830412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgtaggtgacagtgtgcaCgtgtaagtgacagtgtgcac	10	10	14	7	1	0	2	0	2	0	0	0	2	0	2	0	1	2	4	0	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:830412C>T	uc002cjz.1	-	3	589	c.589G>A	c.(589-591)GTG>ATG	p.V197M		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	Error:Variant_position_missing_in_Q96KJ4_after_alignment					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						ACAGTGTGCACGTGTAAGTGA	0.592													32	139					0	0	0.003271	0	0		T	830412	T	T	830412	3	4	157	1	0	0	0	0	1	0	0	0	9900	536	19	1	2628	1	MSLNL	16	830412	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08		830412	89524341	1069	86629											
TELO2	9894	broad.mit.edu	37	chr16	1551487	1551487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcctgcgggtgacggcGcctcggaggcggggtgaggg	4	4	21	12	5	0	2	0	2	0	0	1	3	0	3	3	7	2	0	3	7	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:1551487G>A	uc002cly.2	+	10	1639	c.1348G>A	c.(1348-1350)GCC>ACC	p.A450T		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	450						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				GGGTGACGGCGCCTCGGAGGC	0.687													4	13					0	0	0.001168	0	0		A	1551487	A	A	1551487	3	1	157	1	0	0	0	0	1	0	0	0	15782	1087	38	1	1382	1	TELO2	16	1551487	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	721075	1551487	88803266	1070	86630											
TELO2	9894	broad.mit.edu	37	chr16	1556320	1556320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcttccccctccttcagCgctttgacaggtgagtgggt	4	14	10	13	1	3	2	1	2	2	0	5	2	5	2	3	2	1	1	3	2	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:1556320C>T	uc002cly.2	+	17	2407	c.2116C>T	c.(2116-2118)CGC>TGC	p.R706C		NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	706						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				CCTCCTTCAGCGCTTTGACAG	0.632													14	69					0	0	0.003163	0	0		T	1556320	T	T	1556320	3	4	157	1	0	0	0	0	1	0	0	0	15782	768	27	1	2178	1	TELO2	16	1556320	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4833	1556320	88798433	1071	86631											
CRAMP1L	57585	broad.mit.edu	37	chr16	1709952	1709952	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaggagcagtcgatgacGcccccagggaaggtggtgac	10	4	17	10	2	0	2	0	2	0	0	1	6	0	5	2	5	1	1	2	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:1709952G>A	uc010uvh.1	+	10	2301	c.2301G>A	c.(2299-2301)ACG>ACA	p.T767T	CRAMP1L_uc002cmf.2_RNA	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	767						nucleus	DNA binding				0						AGTCGATGACGCCCCCAGGGA	0.627													4	59					0	0	0.001168	0	0		A	1709952	A	A	1709952	2	1	157	1	0	0	0	0	0	0	0	1	3849	1074	38	1		1	CRAMP1L	16	1709952	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	153632	1709952	88644801	1072	86632											
RPL3L	6123	broad.mit.edu	37	chr16	2004000	2004000	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagggtgtgggtcatgccCgccttgtagcccaggaaggc	6	7	16	12	2	1	0	1	0	0	0	1	1	1	1	3	4	2	2	3	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:2004000C>T	uc002cnh.2	-	2	200	c.153G>A	c.(151-153)GCG>GCA	p.A51A		NM_005061	NP_005052	Q92901	RL3L_HUMAN	ribosomal protein L3-like	51					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome				0						GGGTCATGCCCGCCTTGTAGC	0.687													5	16					0	0	0.000602	0	0		T	2004000	T	T	2004000	2	4	157	1	0	0	0	0	0	0	0	1	13619	639	23	1		1	RPL3L	16	2004000	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	294048	2004000	88350753	1073	86633											
CCDC64B	146439	broad.mit.edu	37	chr16	3085468	3085468	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccctgagagcggcccggaCgggaagctgggcccatctgg	6	4	16	15	3	1	1	0	1	1	1	1	4	1	3	4	5	2	1	4	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:3085468C>T	uc002ctf.3	-	1	75	c.30G>A	c.(28-30)CCG>CCA	p.P10P	CCDC64B_uc002cte.3_5'Flank	NM_001103175	NP_001096645	A1A5D9	BICR2_HUMAN	coiled-coil domain containing 64B	10											0						GCGGCCCGGACGGGAAGCTGG	0.692													8	29					0	0	0.008291	0	0		T	3085468	T	T	3085468	2	4	157	1	0	0	0	0	0	0	0	1	2839	523	19	1		1	CCDC64B	16	3085468	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1081468	3085468	87269285	1074	86634											
ZNF205	7755	broad.mit.edu	37	chr16	3169295	3169295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagggtgcagacctcatccGtggcagcccttgggaatgtg	8	8	15	10	1	1	2	1	0	0	2	2	3	2	3	3	3	2	2	3	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:3169295G>A	uc002cub.2	+	7	769	c.634G>A	c.(634-636)GTG>ATG	p.V212M	ZNF205_uc002cua.2_Missense_Mutation_p.V212M	NM_001042428	NP_001035893	O95201	ZN205_HUMAN	zinc finger protein 205	212					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						GACCTCATCCGTGGCAGCCCT	0.642													26	73					0	0	0.010818	0	0		A	3169295	A	A	3169295	3	1	157	1	0	0	0	0	1	0	0	0	17789	1145	40	1	656	1	ZNF205	16	3169295	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	83827	3169295	87185458	1075	86635											
BTBD12	84464	broad.mit.edu	37	chr16	3640549	3640549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aataggaagcggcacgggtgCggtggagatgcctgccaggg	9	5	19	8	3	0	1	0	0	0	1	0	3	0	2	2	6	4	1	2	6	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:3640549C>T	uc002cvp.2	-	12	3717	c.3090G>A	c.(3088-3090)CCG>CCA	p.P1030P		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1030	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GGCACGGGTGCGGTGGAGATG	0.652								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				7	98					0	0	0.004482	0	0		T	3640549	T	T	3640549	2	4	157	1	0	0	0	0	0	0	0	1	1543	755	27	1		1	BTBD12	16	3640549	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	471254	3640549	86714204	1076	86636											
BTBD12	84464	broad.mit.edu	37	chr16	3658536	3658536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatctggagcagaggcaaGcacacccccctccccattca	10	6	9	16	0	2	1	1	0	1	1	3	3	3	3	5	3	2	3	5	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:3658536G>A	uc002cvp.2	-	2	1057	c.430C>T	c.(430-432)CTT>TTT	p.L144F	BTBD12_uc002cvq.1_Missense_Mutation_p.L144F	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	144	Interaction with C20orf94, ERCC4 and MSH2.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GCAGAGGCAAGCACACCCCCC	0.557								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				32	85					0	0	0.012213	0	0		A	3658536	A	A	3658536	3	1	157	1	0	0	0	0	1	0	0	0	1543	971	34	2	5130	2	BTBD12	16	3658536	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	17987	3658536	86696217	1077	86637											
C16orf5	29965	broad.mit.edu	37	chr16	4562627	4562627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcagctggggcatgtgtgCgtcacatccttgaagtcatt	7	13	12	9	1	2	1	2	1	0	0	3	1	3	1	1	2	3	3	1	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:4562627C>T	uc002cwu.2	-	5	868	c.573G>A	c.(571-573)ACG>ACA	p.T191T	C16orf5_uc002cwv.2_Silent_p.T191T|C16orf5_uc002cww.2_Silent_p.T191T|C16orf5_uc010uxl.1_Silent_p.T152T|C16orf5_uc010uxm.1_Silent_p.T112T|C16orf5_uc010btu.2_RNA	NM_013399	NP_037531	Q9H305	LITFL_HUMAN	cell death inducing protein	191					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|tumor necrosis factor-mediated signaling pathway	nucleus				ovary(1)	1		Ovarian(90;0.17)				GGCATGTGTGCGTCACATCCT	0.592													15	62					0	0	0.00245	0	0		T	4562627	T	T	4562627	2	4	157	1	0	0	0	0	0	0	0	1	1820	755	27	1		1	C16orf5	16	4562627	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	904091	4562627	85792126	1078	86638											
MGRN1	23295	broad.mit.edu	37	chr16	4723609	4723609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgcctctgtacctcctgCgccgacacgctgcgctacca	5	9	9	18	4	1	0	0	0	1	0	2	1	2	0	5	0	5	3	5	0	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:4723609C>T	uc002cwz.2	+	10	1042	c.906C>T	c.(904-906)TGC>TGT	p.C302C	MGRN1_uc002cxa.2_Silent_p.C302C|MGRN1_uc010btx.2_Silent_p.C303C|MGRN1_uc010btw.2_Silent_p.C303C|MGRN1_uc002cxb.2_Silent_p.C341C|MGRN1_uc010uxo.1_Silent_p.C302C|MGRN1_uc010uxp.1_Silent_p.C302C|MGRN1_uc010uxq.1_RNA	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	302	RING-type.				endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						GTACCTCCTGCGCCGACACGC	0.632													16	46					0	0	0.00632	0	0		T	4723609	T	T	4723609	2	4	157	1	0	0	0	0	0	0	0	1	9577	776	27	1		1	MGRN1	16	4723609	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	160982	4723609	85631144	1079	86639											
USP7	7874	broad.mit.edu	37	chr16	8987926	8987926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggggctttgttgaagtggtCgagccctagccaaggccgag	7	9	16	9	2	0	1	0	1	0	0	1	3	0	1	3	4	2	2	3	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:8987926C>T	uc002czl.2	-	31	3437	c.3238G>A	c.(3238-3240)GAC>AAC	p.D1080N	USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Missense_Mutation_p.D981N|USP7_uc002czk.2_Missense_Mutation_p.D1064N	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	1080					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						TTGAAGTGGTCGAGCCCTAGC	0.522													40	117					0	0	0.006999	0	0		T	8987926	T	T	8987926	3	4	157	1	0	0	0	0	1	0	0	0	17114	884	31	1	74	1	USP7	16	8987926	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4264317	8987926	81366827	1080	86640											
CIITA	4261	broad.mit.edu	37	chr16	11017143	11017143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acctgcaacaacaggattcaCggatcagcctgagatgatcc	13	7	9	12	1	2	2	2	2	0	1	3	5	3	4	3	2	4	1	3	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:11017143C>T	uc002dai.3	+	19	3509	c.3376C>T	c.(3376-3378)CGG>TGG	p.R1126W	CIITA_uc002daj.3_Missense_Mutation_p.R1127W|CIITA_uc002dak.3_Missense_Mutation_p.R542W	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	1126					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						ACAGGATTCACGGATCAGCCT	0.592			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								29	124					0	0	0.008361	0	0		T	11017143	T	T	11017143	3	4	157	1	0	0	0	0	1	0	0	0	3431	527	19	1	3450	1	CIITA	16	11017143	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2029217	11017143	79337610	1081	86641											
SNX29	92017	broad.mit.edu	37	chr16	12162983	12162983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcccagatcctggacttcGgtacaggttaatattgagaa	11	12	9	9	1	1	2	0	1	1	2	4	4	2	3	2	3	1	2	2	3	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:12162983G>A	uc002dby.3	+	3	214	c.158G>A	c.(157-159)CGG>CAG	p.R53Q	SNX29_uc010uyx.1_Missense_Mutation_p.R80Q	NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	53					cell communication		phosphatidylinositol binding			ovary(1)	1						CCTGGACTTCGGTACAGGTTA	0.483													7	118					0	0	0.00308	0	0		A	12162983	A	A	12162983	3	1	157	1	0	0	0	0	1	0	0	0	14923	1116	39	1	164	1	SNX29	16	12162983	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1145840	12162983	78191770	1082	86642											
GPR139	124274	broad.mit.edu	37	chr16	20084900	20084900	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgggggaccaccaagacagCgagctgttggctgcgaggtg	8	5	17	11	3	0	1	0	0	0	1	0	4	0	2	3	4	3	3	3	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:20084900C>T	uc002dgu.1	-	1	201	c.39G>A	c.(37-39)TCG>TCA	p.S13S	GPR139_uc010vaw.1_5'UTR	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	13	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(2)	2						ACCAAGACAGCGAGCTGTTGG	0.697													3	13					0	0	0.000602	0	0		T	20084900	T	T	20084900	2	4	157	1	0	0	0	0	0	0	0	1	6663	755	27	1		1	GPR139	16	20084900	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7921917	20084900	70269853	1083	86643											
PDILT	204474	broad.mit.edu	37	chr16	20386166	20386166	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttttgaacaccaggacgctgTcaagggtgacgtggaaacgc	11	8	13	9	3	1	2	1	2	0	0	1	4	1	4	1	3	2	1	1	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:20386166T>A	uc002dhc.1	-	5	882	c.659A>T	c.(658-660)GAC>GTC	p.D220V		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	220					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						CAGGACGCTGTCAAGGGTGAC	0.378													34	212					0	0	0.004289	0	0		A	20386166	A	A	20386166	3	1	157	1	0	0	0	0	1	0	0	0	11693	1667	58	5	1127	5	PDILT	16	20386166	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	301266	20386166	69968587	1084	86644											
DNAH3	55567	broad.mit.edu	37	chr16	20974905	20974905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttccaaatgctccatcaggCcatgcagtttgggtaaggca	10	10	11	10	0	1	0	1	0	0	0	3	0	3	0	3	3	2	6	3	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:20974905C>T	uc010vbe.1	-	53	10301	c.10301G>A	c.(10300-10302)GGC>GAC	p.G3434D	DNAH3_uc010vbd.1_Missense_Mutation_p.G869D	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3434					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTCCATCAGGCCATGCAGTTT	0.547													17	89					0	0	0.00499	0	0		T	20974905	T	T	20974905	3	4	157	1	0	0	0	0	1	0	0	0	4609	739	26	2	2088	2	DNAH3	16	20974905	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	588739	20974905	69379848	1085	86645											
EARS2	124454	broad.mit.edu	37	chr16	23563615	23563615	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagtgcggaggccacccagGtgcaagaagcctggagaaga	12	3	16	10	1	0	3	0	0	0	3	0	5	0	4	3	4	3	2	3	4	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:23563615G>A	uc002dlt.3	-	2	182	c.150C>T	c.(148-150)CAC>CAT	p.H50H	EARS2_uc002dlr.3_5'Flank|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Silent_p.H50H	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	50	HIGH region.	ATP (By similarity).			glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	GGCCACCCAGGTGCAAGAAGC	0.507													13	90					0	0	0.00245	0	0		A	23563615	A	A	23563615	2	1	157	1	0	0	0	0	0	0	0	1	4884	1252	44	4		4	EARS2	16	23563615	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2588710	23563615	66791138	1086	86646											
RBBP6	5930	broad.mit.edu	37	chr16	24581665	24581665	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagagaaactgggaagaaAattggaagtacagaaaatat	22	6	10	3	0	0	3	0	0	0	3	0	6	0	5	0	2	3	1	0	2	10	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:24581665A>C	uc002dmh.2	+	17	4694	c.3654A>C	c.(3652-3654)AAA>AAC	p.K1218N	RBBP6_uc010vcb.1_Missense_Mutation_p.K1085N|RBBP6_uc002dmi.2_Missense_Mutation_p.K1184N|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.K1051N	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1218					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)		CTGGGAAGAAAATTGGAAGTA	0.348													16	63					0	0	0.00499	0	0		C	24581665	C	C	24581665	3	2	157	1	0	0	0	0	1	0	0	0	13128	11	1	5	3774	5	RBBP6	16	24581665	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1018050	24581665	65773088	1087	86647											
GTF3C1	2975	broad.mit.edu	37	chr16	27503681	27503681	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggggtgttgaggcagacGcactgcaggtcaaaccagta	11	7	15	8	1	1	2	1	1	0	1	1	2	1	2	1	4	2	5	1	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:27503681G>A	uc002dov.1	-	19	3169	c.3129C>T	c.(3127-3129)TGC>TGT	p.C1043C	GTF3C1_uc002dou.2_Silent_p.C1043C	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1043						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TGAGGCAGACGCACTGCAGGT	0.552													6	95					0	0	0.00308	0	0		A	27503681	A	A	27503681	2	1	157	1	0	0	0	0	0	0	0	1	6888	1079	38	1		1	GTF3C1	16	27503681	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2922016	27503681	62851072	1088	86648											
KIF22	3835	broad.mit.edu	37	chr16	29814245	29814245	+	Missense_Mutation	SNP	A	G	G	1	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	gaagacagtggaagagaaggAcctagagattgaggtacgtg	15	6	16	4	1	0	4	0	1	0	3	0	9	0	6	1	3	1	1	1	3	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:29814245A>G	uc002dts.3	+	9	1460	c.1436A>G	c.(1435-1437)GAC>GGC	p.D479G	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|KIF22_uc010vdv.1_Missense_Mutation_p.D411G|KIF22_uc010vdw.1_Missense_Mutation_p.D411G|KIF22_uc010bzf.2_Missense_Mutation_p.D411G|KIF22_uc002dtt.1_5'Flank|KIF22_uc002frc.1_5'Flank	NM_007317	NP_015556	Q14807	KIF22_HUMAN	kinesin family member 22	479	Potential.				blood coagulation|DNA repair|microtubule-based movement|mitosis	cytosol|kinetochore|microtubule|nucleus	ATP binding|DNA binding|microtubule motor activity|protein binding				0						GAAGAGAAGGACCTAGAGATT	0.547													23	61					0	0	0.003954	0	0		G	29814245	G	G	29814245	3	3	157	1	0	0	0	0	1	0	0	0	8306	275	10	3	1470	3	KIF22	16	29814245	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2310564	29814245	60540508	1089	86649											
DOC2A	8448	broad.mit.edu	37	chr16	30018218	30018218	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtagctgagactcagcaGgatgcggccacgctcctcca	8	7	12	14	2	1	1	1	1	0	1	3	3	3	2	3	2	3	5	3	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:30018218G>A	uc002dvm.2	-	8	866	c.766C>T	c.(766-768)CTG>TTG	p.L256L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|DOC2A_uc002dvl.2_Silent_p.L254L|DOC2A_uc002dvn.2_Silent_p.L256L|DOC2A_uc010vef.1_RNA|DOC2A_uc002dvo.2_Silent_p.L256L|DOC2A_uc002dvp.2_Silent_p.L256L|DOC2A_uc002dvq.2_Silent_p.L256L	NM_003586	NP_003577	Q14183	DOC2A_HUMAN	double C2-like domains, alpha	256	C2 2.|Interaction with UNC13D.				nervous system development|regulation of calcium ion-dependent exocytosis	cell junction|lysosome|synaptic vesicle membrane|synaptosome	calcium-dependent phospholipid binding|protein binding|transporter activity			ovary(2)	2						AGACTCAGCAGGATGCGGCCA	0.692													3	10					0	0	0.004672	0	0		A	30018218	A	A	30018218	2	1	157	1	0	0	0	0	0	0	0	1	4689	991	35	4		4	DOC2A	16	30018218	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	203973	30018218	60336535	1090	86650											
ITGAX	3687	broad.mit.edu	37	chr16	31373185	31373185	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacaagcagtagctccttCgaattggagatggcacagga	13	7	11	10	1	0	1	0	0	0	1	2	4	1	2	2	3	2	4	2	3	3	3	rs138230749	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:31373185C>T	uc002ebu.1	+	10	1108	c.1041C>T	c.(1039-1041)TTC>TTT	p.F347F	ITGAX_uc002ebt.2_Silent_p.F347F|ITGAX_uc010vfk.1_5'UTR	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	347	FG-GAP 3.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GTAGCTCCTTCGAATTGGAGA	0.602													39	143					0	0	0.00874	0	0		T	31373185	T	T	31373185	2	4	157	1	0	0	0	0	0	0	0	1	7905	883	31	1		1	ITGAX	16	31373185	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1354967	31373185	58981568	1091	86651											
TGFB1I1	7041	broad.mit.edu	37	chr16	31485238	31485238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggtgtcttgggtaccGggctctgtgagctagatcgg	5	10	16	10	3	2	2	0	1	2	1	3	2	2	2	2	4	3	3	2	4	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:31485238G>A	uc002ecd.1	+	4	291	c.265G>A	c.(265-267)GGG>AGG	p.G89R	TGFB1I1_uc002ece.1_Missense_Mutation_p.G72R|TGFB1I1_uc010caq.1_5'UTR	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	89	Transcription activation (By similarity).|Interaction with PTK2 (By similarity).|Interaction with PTK2B.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						CTTGGGTACCGGGCTCTGTGA	0.592													30	117					0	0	0.013726	0	0		A	31485238	A	A	31485238	3	1	157	1	0	0	0	0	1	0	0	0	15842	1116	39	1	279	1	TGFB1I1	16	31485238	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	112053	31485238	58869515	1092	86652											
SLC5A2	6524	broad.mit.edu	37	chr16	31500366	31500366	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgtgccgcgcgttaatgaGcaggtgagcggcacgcgcgt	6	8	16	11	8	0	2	0	2	0	0	1	2	0	2	1	2	3	3	1	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:31500366G>T	uc002ecf.3	+	11	1465	c.1446G>T	c.(1444-1446)GAG>GAT	p.E482D	SLC5A2_uc010car.2_Intron|C16orf58_uc002ecg.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	482	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						GCGTTAATGAGCAGGTGAGCG	0.652													12	40					0.000422831	0.000434942	0.004007	1	0		T	31500366	T	T	31500366	3	4	157	1	0	0	0	0	1	0	0	0	14690	962	34	5	1488	5	SLC5A2	16	31500366	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	15128	31500366	58854387	1093	86653											
VPS35	55737	broad.mit.edu	37	chr16	46705645	46705645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggtcagggtcctcagagCgcagcagatgaatgaagcgg	10	6	16	9	2	2	4	2	2	0	2	3	4	3	4	1	3	3	3	1	3	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:46705645C>T	uc002eef.3	-	12	1595	c.1496G>A	c.(1495-1497)CGC>CAC	p.R499H	VPS35_uc002eed.2_Missense_Mutation_p.R320H|VPS35_uc002eee.2_Missense_Mutation_p.R460H	NM_018206	NP_060676	Q96QK1	VPS35_HUMAN	vacuolar protein sorting 35	499					protein transport|retrograde transport, endosome to Golgi	cytosol|endosome|membrane	protein binding				0		all_cancers(37;7.65e-05)|all_epithelial(9;0.000154)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				GTCCTCAGAGCGCAGCAGATG	0.463													20	66					0	0	0.008871	0	0		T	46705645	T	T	46705645	3	4	157	1	0	0	0	0	1	0	0	0	17229	768	27	1	918	1	VPS35	16	46705645	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	15205279	46705645	43649108	1094	86654											
ADCY7	113	broad.mit.edu	37	chr16	50347950	50347950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagctgcagggctcagcGtcgcctcagggcacgagaac	8	5	15	13	3	2	1	2	0	0	1	3	2	2	1	1	3	4	5	1	3	1	0	rs150764665		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:50347950G>A	uc002egd.1	+	22	3101	c.2833G>A	c.(2833-2835)GTC>ATC	p.V945I		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	945	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	AGGGCTCAGCGTCGCCTCAGG	0.552													16	47					0	0	0.006122	0	0		A	50347950	A	A	50347950	3	1	157	1	0	0	0	0	1	0	0	0	299	1145	40	1	2919	1	ADCY7	16	50347950	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3642305	50347950	40006803	1095	86655											
OGFOD1	55239	broad.mit.edu	37	chr16	56485619	56485619	+	Missense_Mutation	SNP	A	G	G	1	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	gttttcggacgctgttacggAagaaaccttgaaaaagcagg	13	9	12	7	3	0	2	0	1	0	1	1	4	0	4	1	3	3	4	1	3	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:56485619A>G	uc002ejb.2	+	1	196	c.95A>G	c.(94-96)GAA>GGA	p.E32G	OGFOD1_uc002ejc.2_Intron|NUDT21_uc002eja.2_5'Flank	NM_018233	NP_060703	Q8N543	OGFD1_HUMAN	2-oxoglutarate and iron-dependent oxygenase	32							iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)	1					Vitamin C(DB00126)	GCTGTTACGGAAGAAACCTTG	0.622													6	82					0	0	0.001984	0	0		G	56485619	G	G	56485619	3	3	157	1	0	0	0	0	1	0	0	0	10860	246	9	3	97	3	OGFOD1	16	56485619	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6137669	56485619	33869134	1096	86656											
NUP93	9688	broad.mit.edu	37	chr16	56864512	56864512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtggagacctgcttgccGcttcacaggtagttaatcga	8	11	12	10	2	1	1	1	0	0	1	2	3	1	1	2	2	2	5	2	2	2	4	rs145578512		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:56864512G>A	uc002eka.2	+	10	1121	c.1000G>A	c.(1000-1002)GCT>ACT	p.A334T	NUP93_uc002ekb.2_Missense_Mutation_p.A211T|NUP93_uc010vhi.1_Missense_Mutation_p.A211T	NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	334					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						CCTGCTTGCCGCTTCACAGGT	0.502													48	155					0	0	0.01441	0	0		A	56864512	A	A	56864512	3	1	157	1	0	0	0	0	1	0	0	0	10791	1087	38	1	1034	1	NUP93	16	56864512	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	378893	56864512	33490241	1097	86657											
DOK4	55715	broad.mit.edu	37	chr16	57509501	57509501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtctccttggggagccgcGtaacacacttgacgttgctg	6	11	13	11	3	1	1	0	1	1	0	2	2	1	2	2	3	3	3	2	3	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:57509501G>A	uc010cdb.2	-	3	504	c.206C>T	c.(205-207)ACG>ATG	p.T69M	DOK4_uc002elu.1_Missense_Mutation_p.T69M|DOK4_uc002elv.3_Missense_Mutation_p.T69M	NM_018110	NP_060580	Q8TEW6	DOK4_HUMAN	docking protein 4	69	PH.						insulin receptor binding			skin(1)	1						GGGGAGCCGCGTAACACACTT	0.502													4	14					0	0	0.001168	0	0		A	57509501	A	A	57509501	3	1	157	1	0	0	0	0	1	0	0	0	4705	1145	40	1	798	1	DOK4	16	57509501	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	644989	57509501	32845252	1098	86658											
KATNB1	10300	broad.mit.edu	37	chr16	57789830	57789830	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacatcgtcaaccagaaagcGtaagtggctgcagaggggga	14	5	14	8	2	1	2	1	0	0	2	2	3	1	3	1	3	4	3	1	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:57789830G>A	uc002eml.1	+	17	2017	c.1643_splice	c.e17+1	p.A548_splice		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1						cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				ACCAGAAAGCGTAAGTGGCTG	0.622													4	30					0	0	0.000602	0	0		A	57789830	A	A	57789830	5	1	157	1	0	0	0	0	0	0	1	0	8003	1159	40	1	1706	1	KATNB1	16	57789830	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	280329	57789830	32564923	1099	86659											
PRSS54	221191	broad.mit.edu	37	chr16	58318533	58318533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctctttcgtgtggctgccGcattctgtcttctggagttt	2	18	10	11	2	4	0	0	0	4	0	6	1	5	1	2	2	1	3	2	2	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:58318533G>A	uc002enf.2	-	6	1010	c.615C>T	c.(613-615)TGC>TGT	p.C205C	PRSS54_uc002eng.2_Silent_p.C205C|PRSS54_uc010vie.1_Silent_p.C106C	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	205	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TGTGGCTGCCGCATTCTGTCT	0.473													22	99					0	0	0.005524	0	0		A	58318533	A	A	58318533	2	1	157	1	0	0	0	0	0	0	0	1	12655	1079	38	1		1	PRSS54	16	58318533	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	528703	58318533	32036220	1100	86660											
NDRG4	65009	broad.mit.edu	37	chr16	58537768	58537768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggctcccccaaggggaacCgcccagccatcctcacctac	8	4	10	19	1	1	0	1	0	0	0	3	1	3	1	7	4	3	1	7	4	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:58537768C>T	uc002eno.2	+	2	194	c.88C>T	c.(88-90)CGC>TGC	p.R30C	NDRG4_uc002enk.2_Missense_Mutation_p.R62C|NDRG4_uc002enm.2_Missense_Mutation_p.R82C|NDRG4_uc010vif.1_Missense_Mutation_p.R62C|NDRG4_uc010cdk.2_Missense_Mutation_p.R30C|NDRG4_uc010vig.1_Missense_Mutation_p.R60C|NDRG4_uc010vih.1_5'UTR|NDRG4_uc010vii.1_Missense_Mutation_p.R48C|NDRG4_uc002enp.2_Missense_Mutation_p.R30C|NDRG4_uc002enq.1_5'Flank	NM_022910	NP_075061	Q9ULP0	NDRG4_HUMAN	NDRG family member 4 isoform 1	30					cell differentiation|cell growth|multicellular organismal development|response to stress	cytoplasm				skin(1)	1						CAAGGGGAACCGCCCAGCCAT	0.627													8	35					0	0	0.00308	0	0		T	58537768	T	T	58537768	3	4	157	1	0	0	0	0	1	0	0	0	10273	652	23	1	258	1	NDRG4	16	58537768	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	219235	58537768	31816985	1101	86661											
CMTM4	146223	broad.mit.edu	37	chr16	66670346	66670346	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggatcctcatgtgcaGgttgagactgaacataatca	11	10	12	8	0	2	2	2	2	0	1	3	4	3	3	1	3	2	2	1	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:66670346G>T	uc002epz.2	-	2	507	c.325C>A	c.(325-327)CTG>ATG	p.L109M	CMTM4_uc002eqa.2_Missense_Mutation_p.L109M	NM_178818	NP_848933	Q8IZR5	CKLF4_HUMAN	chemokine-like factor superfamily 4 isoform 1	109	MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity			pancreas(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0811)|Epithelial(162;0.214)		CTCATGTGCAGGTTGAGACTG	0.517													18	72					1.33834e-09	1.43072e-09	0.007413	1	0		T	66670346	T	T	66670346	3	4	157	1	0	0	0	0	1	0	0	0	3588	991	35	5	399	5	CMTM4	16	66670346	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8132578	66670346	23684407	1102	86662											
B3GNT9	84752	broad.mit.edu	37	chr16	67183705	67183705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgaacacatctgcgtcGcccttaaaaacgaagcgcac	13	7	7	14	5	2	0	1	0	1	0	3	2	2	0	1	0	4	1	1	0	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:67183705G>A	uc002erf.2	-	2	1005	c.684C>T	c.(682-684)GGC>GGT	p.G228G	uc002erg.1_Silent_p.S36S	NM_033309	NP_171608	Q6UX72	B3GN9_HUMAN	UDP-GlcNAc:betaGal	228	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0						CATCTGCGTCGCCCTTAAAAA	0.577													6	27					0	0	0.001168	0	0		A	67183705	A	A	67183705	2	1	157	1	0	0	0	0	0	0	0	1	1265	1074	38	1		1	B3GNT9	16	67183705	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	513359	67183705	23171048	1103	86663											
ELMO3	79767	broad.mit.edu	37	chr16	67235944	67235944	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctggccctggacaacatgtTgtacttctccagaaacgcgc	9	9	10	13	2	1	1	0	0	1	1	2	2	1	2	2	2	3	3	2	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:67235944T>C	uc002esa.2	+	12	1317	c.1274T>C	c.(1273-1275)TTG>TCG	p.L425S	ELMO3_uc002esb.2_Missense_Mutation_p.L408S|ELMO3_uc002esc.2_Missense_Mutation_p.L259S	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	372	ELMO.				apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		GACAACATGTTGTACTTCTCC	0.662													12	118					0	0	0.013537	0	0		C	67235944	C	C	67235944	3	2	157	1	0	0	0	0	1	0	0	0	5075	1821	63	3	1320	3	ELMO3	16	67235944	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	52239	67235944	23118809	1104	86664											
SLC9A5	6553	broad.mit.edu	37	chr16	67290816	67290816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctccctcccgctgtaggcGtagtcctgcagacctgggtg	4	9	13	15	2	0	1	0	0	0	1	3	1	3	1	5	2	1	4	5	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:67290816G>A	uc002esm.2	+	7	1198	c.1135G>A	c.(1135-1137)GTA>ATA	p.V379I	SLC9A5_uc010cee.2_Missense_Mutation_p.V84I|SLC9A5_uc010vji.1_5'UTR	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	379	Helical; (Potential).				regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		CGCTGTAGGCGTAGTCCTGCA	0.622													20	88					0	0	0.008871	0	0		A	67290816	A	A	67290816	3	1	157	1	0	0	0	0	1	0	0	0	14742	1145	40	1	1161	1	SLC9A5	16	67290816	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	54872	67290816	23063937	1105	86665											
PRMT7	54496	broad.mit.edu	37	chr16	68373230	68373230	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaatataaacttaggaaaaTtgtgaggccgtgccccacag	14	10	9	8	1	0	1	0	1	0	0	0	2	0	2	3	2	2	0	3	2	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:68373230T>A	uc002evy.1	+	8	786	c.510T>A	c.(508-510)AAT>AAA	p.N170K	PRMT7_uc002evx.1_Missense_Mutation_p.N170K|PRMT7_uc010vlg.1_Missense_Mutation_p.N120K|PRMT7_uc002evz.1_Missense_Mutation_p.N16K	NM_019023	NP_061896	Q9NVM4	ANM7_HUMAN	protein arginine methyltransferase 7	170					cell differentiation|DNA methylation involved in gamete generation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|spliceosomal snRNP assembly|transcription, DNA-dependent	cytosol|nucleus	[myelin basic protein]-arginine N-methyltransferase activity|histone methyltransferase activity (H4-R3 specific)|protein-arginine omega-N monomethyltransferase activity|protein-arginine omega-N symmetric methyltransferase activity|ribonucleoprotein binding				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0155)|Epithelial(162;0.0629)		CTTAGGAAAATTGTGAGGCCG	0.443													24	84					0	0	0.00278	0	0		A	68373230	A	A	68373230	3	1	157	1	0	0	0	0	1	0	0	0	12563	1490	52	5	532	5	PRMT7	16	68373230	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1082414	68373230	21981523	1106	86666											
CHTF8	54921	broad.mit.edu	37	chr16	69155070	69155070	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgccaggcctccagccctCgcactgcaagcaaagggctg	8	6	11	16	1	1	0	0	0	1	0	3	0	2	0	4	2	4	4	4	2	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:69155070C>T	uc002ewn.1	-	3	128	c.27G>A	c.(25-27)GCG>GCA	p.A9A	CHTF8_uc002ewm.1_5'UTR|CHTF8_uc002ewo.1_5'UTR|CHTF8_uc002ewp.1_Silent_p.A9A	NM_001040146	NP_001035236	P0CG13	CTF8_HUMAN	chromosome transmission fidelity factor 8	9					cell cycle|DNA replication	nucleus	DNA binding				0						CTCCAGCCCTCGCACTGCAAG	0.547													30	178					0	0	0.004289	0	0		T	69155070	T	T	69155070	2	4	157	1	0	0	0	0	0	0	0	1	3418	871	31	1		1	CHTF8	16	69155070	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	781840	69155070	21199683	1107	86667											
NFAT5	10725	broad.mit.edu	37	chr16	69681374	69681374	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agaggccgggggtcaaacgaCgagattgtgaagaatctaat	14	7	14	6	3	2	4	1	1	1	3	2	6	2	4	1	3	1	0	1	3	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:69681374C>T	uc002exm.1	+	3	1851	c.643C>T	c.(643-645)CGA>TGA	p.R215*	NFAT5_uc002exh.1_Intron|NFAT5_uc002exi.2_Nonsense_Mutation_p.R139*|NFAT5_uc002exj.1_Nonsense_Mutation_p.R139*|NFAT5_uc002exk.1_Nonsense_Mutation_p.R139*|NFAT5_uc002exl.1_Nonsense_Mutation_p.R233*|NFAT5_uc002exn.1_Nonsense_Mutation_p.R233*	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	215					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GGTCAAACGACGAGATTGTGA	0.448													22	90					0	0	0.014323	0	0		T	69681374	T	T	69681374	4	4	157	1	0	0	0	0	0	1	0	0	10379	528	19	1	711	1	NFAT5	16	69681374	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	526304	69681374	20673379	1108	86668											
DHX38	9785	broad.mit.edu	37	chr16	72141255	72141255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggctctacacccagagcGcctacaagaatgagctcctg	11	6	10	14	1	1	3	0	1	1	2	2	3	2	3	3	1	4	3	3	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:72141255G>A	uc002fcb.2	+	20	2972	c.2617G>A	c.(2617-2619)GCC>ACC	p.A873T	DHX38_uc010vmp.1_Missense_Mutation_p.A185T	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	873	Helicase C-terminal.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				CACCCAGAGCGCCTACAAGAA	0.592													14	66					0	0	0.001855	0	0		A	72141255	A	A	72141255	3	1	157	1	0	0	0	0	1	0	0	0	4517	1087	38	1	2691	1	DHX38	16	72141255	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2459881	72141255	18213498	1109	86669											
ZFHX3	463	broad.mit.edu	37	chr16	72821896	72821896	+	Missense_Mutation	SNP	T	G	G	0	1	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	gggggacacctcacggggggTgtttttctgttcttctggtt	3	15	15	8	1	4	0	1	0	3	0	4	1	4	1	1	6	0	3	1	6	0	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:72821896T>G	uc002fck.2	-	10	10952	c.10279A>C	c.(10279-10281)ACC>CCC	p.T3427P	ZFHX3_uc002fcl.2_Missense_Mutation_p.T2513P	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3427					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TCACGGGGGGTGTTTTTCTGT	0.547													9	92					0	0	0.00499	0	0		G	72821896	G	G	72821896	3	3	157	1	0	0	0	0	1	0	0	0	17659	1696	59	5	836	5	ZFHX3	16	72821896	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	680641	72821896	17532857	1110	86670											
ZFHX3	463	broad.mit.edu	37	chr16	72834006	72834006	+	Missense_Mutation	SNP	A	G	G	1	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	ggaggaacatgctgcttggcAtcaccatctcaggggtggtc	8	9	14	10	0	2	0	2	0	1	0	4	2	2	2	1	6	3	3	1	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:72834006A>G	uc002fck.2	-	8	4560	c.3887T>C	c.(3886-3888)ATG>ACG	p.M1296T	ZFHX3_uc002fcl.2_Missense_Mutation_p.M382T	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1296					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCTGCTTGGCATCACCATCTC	0.443													10	110					0	0	0.010729	0	0		G	72834006	G	G	72834006	3	3	157	1	0	0	0	0	1	0	0	0	17659	217	8	3	7236	3	ZFHX3	16	72834006	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	12110	72834006	17520747	1111	86671											
ZFHX3	463	broad.mit.edu	37	chr16	72993954	72993954	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgggtttgtcagggaggtGggtgctgttgagttcagtcc	5	13	17	6	0	2	1	2	1	0	0	3	2	3	2	1	4	1	4	1	4	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:72993954G>T	uc002fck.2	-	2	764	c.91C>A	c.(91-93)CAC>AAC	p.H31N	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	31					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TCAGGGAGGTGGGTGCTGTTG	0.622													25	98					5.45024e-15	5.94316e-15	0.00333	1	0		T	72993954	T	T	72993954	3	4	157	1	0	0	0	0	1	0	0	0	17659	1348	47	5	11056	5	ZFHX3	16	72993954	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	159948	72993954	17360799	1112	86672											
WWOX	51741	broad.mit.edu	37	chr16	79245555	79245555	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctgtcccagaactggaGggtctgggagggatgtactt	7	10	16	8	0	1	1	0	0	1	1	2	4	2	4	1	4	3	3	1	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:79245555G>A	uc002ffk.2	+	9	1232	c.1107G>A	c.(1105-1107)GAG>GAA	p.E369E	WWOX_uc010vnk.1_Silent_p.E256E|WWOX_uc002ffl.2_Silent_p.E189E|WWOX_uc010che.2_Missense_Mutation_p.G154R	NM_016373	NP_057457	Q9NZC7	WWOX_HUMAN	WW domain-containing oxidoreductase isoform 1	369	Interaction with MAPT (By similarity).				apoptosis|negative regulation of Wnt receptor signaling pathway|steroid metabolic process|Wnt receptor signaling pathway	Golgi apparatus|mitochondrion|nucleus	coenzyme binding|oxidoreductase activity|protein dimerization activity				0		all_cancers(2;1.97e-181)|all_epithelial(2;3.85e-160)|all_lung(2;2.03e-39)|Lung NSC(2;7.16e-35)|Colorectal(2;6.96e-21)|all_hematologic(2;1.13e-16)|Melanoma(2;5.16e-06)|all_neural(2;8.84e-06)|Renal(2;5.26e-05)|Medulloblastoma(2;0.00498)|Breast(2;0.00631)|Lung SC(2;0.0261)|Prostate(104;0.167)		UCEC - Uterine corpus endometrioid carcinoma (2;0.012)|Epithelial(1;2.65e-39)|all cancers(1;3.26e-34)|STAD - Stomach adenocarcinoma(1;5.1e-20)|COAD - Colon adenocarcinoma(1;1.04e-11)|Colorectal(1;3.4e-11)|OV - Ovarian serous cystadenocarcinoma(1;1.01e-10)|BRCA - Breast invasive adenocarcinoma(1;0.00196)|Kidney(780;0.232)		CAGAACTGGAGGGTCTGGGAG	0.537													6	107					0	0	0.00308	0	0		A	79245555	A	A	79245555	2	1	157	1	0	0	0	0	0	0	0	1	17440	991	35	4		4	WWOX	16	79245555	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6251601	79245555	11109198	1113	86673											
CDYL2	124359	broad.mit.edu	37	chr16	80638416	80638416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgatttcaggaagctccGcacgaggcatttggactcct	9	10	10	12	2	1	1	1	1	0	0	3	4	3	3	2	3	1	3	2	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:80638416G>A	uc002ffs.2	-	7	1495	c.1390C>T	c.(1390-1392)CGG>TGG	p.R464W		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	464						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						AGGAAGCTCCGCACGAGGCAT	0.547													41	180					0	0	0.00874	0	0		A	80638416	A	A	80638416	3	1	157	1	0	0	0	0	1	0	0	0	3189	1086	38	1	134	1	CDYL2	16	80638416	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1392861	80638416	9716337	1114	86674											
GAN	8139	broad.mit.edu	37	chr16	81398967	81398967	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttcaggtttggagcggtGgcctgtggagttgctatgga	5	13	16	7	1	1	0	1	0	0	0	1	3	1	3	2	6	2	3	2	6	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:81398967G>A	uc002fgo.2	+	9	1534	c.1386G>A	c.(1384-1386)GTG>GTA	p.V462V		NM_022041	NP_071324	Q9H2C0	GAN_HUMAN	gigaxonin	462	Kelch 4.				cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)				TTGGAGCGGTGGCCTGTGGAG	0.542													72	303					0	0	0.01441	0	0		A	81398967	A	A	81398967	2	1	157	1	0	0	0	0	0	0	0	1	6247	1335	47	4		4	GAN	16	81398967	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	760551	81398967	8955786	1115	86675											
TAF1C	9013	broad.mit.edu	37	chr16	84217343	84217343	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagaggcccaggggttgcCggctcccacagcaggtcctt	6	6	16	13	1	0	1	0	0	0	1	2	2	2	1	4	6	2	3	4	6	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:84217343C>T	uc002fhn.2	-	3	408	c.180G>A	c.(178-180)CCG>CCA	p.P60P	TAF1C_uc002fhm.2_5'UTR|TAF1C_uc010vnx.1_Silent_p.P60P|TAF1C_uc010vny.1_5'UTR|TAF1C_uc010vnz.1_Intron|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Intron|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Silent_p.P60P	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	60					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						CAGGGGTTGCCGGCTCCCACA	0.527													14	62					0	0	0.00245	0	0		T	84217343	T	T	84217343	2	4	157	1	0	0	0	0	0	0	0	1	15546	639	23	1		1	TAF1C	16	84217343	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2818376	84217343	6137410	1116	86676											
FOXF1	2294	broad.mit.edu	37	chr16	86544680	86544680	+	Missense_Mutation	SNP	A	G	G	1	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	gcttcaaccacctcccggacAcctacggcttccagggctcg	7	7	9	18	3	1	0	1	0	0	0	4	1	3	1	5	3	2	3	5	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:86544680A>G	uc002fjl.2	+	1	548	c.505A>G	c.(505-507)ACC>GCC	p.T169A	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	169					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CCTCCCGGACACCTACGGCTT	0.687													6	33					0	0	0.004482	0	0		G	86544680	G	G	86544680	3	3	157	1	0	0	0	0	1	0	0	0	6019	159	6	3	507	3	FOXF1	16	86544680	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2327337	86544680	3810073	1117	86677											
MTHFSD	64779	broad.mit.edu	37	chr16	86575788	86575788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcatggcatattccagatcGgcgtagccttctcccttccc	7	12	7	15	2	2	1	1	0	1	1	6	1	4	1	4	2	1	2	4	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:86575788G>A	uc002fjn.2	-	6	525	c.474C>T	c.(472-474)GCC>GCT	p.A158A	MTHFSD_uc010voo.1_Silent_p.A138A|MTHFSD_uc002fjo.2_5'UTR|MTHFSD_uc002fjm.2_Silent_p.A157A|MTHFSD_uc010vop.1_5'UTR|MTHFSD_uc010voq.1_Silent_p.A157A|MTHFSD_uc010vor.1_Silent_p.A158A|MTHFSD_uc002fjp.2_Silent_p.A138A	NM_001159377	NP_001152849	Q2M296	MTHSD_HUMAN	methenyltetrahydrofolate synthetase domain	158					folic acid-containing compound biosynthetic process		5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|RNA binding				0						ATTCCAGATCGGCGTAGCCTT	0.567													21	65					0	0	0.012319	0	0		A	86575788	A	A	86575788	2	1	157	1	0	0	0	0	0	0	0	1	9951	1103	39	1		1	MTHFSD	16	86575788	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	31108	86575788	3778965	1118	86678											
ZC3H18	124245	broad.mit.edu	37	chr16	88695190	88695190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgataaaggaagcaggaagCgctatgaaccatcagacaag	17	5	11	8	1	1	3	1	2	0	1	1	5	1	5	1	2	3	2	1	2	7	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:88695190C>T	uc002fky.2	+	16	2694	c.2494C>T	c.(2494-2496)CGC>TGC	p.R832C	ZC3H18_uc010voz.1_Missense_Mutation_p.R856C|ZC3H18_uc010chw.2_RNA|ZC3H18_uc002fkz.2_Missense_Mutation_p.R102C	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	832						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		AAGCAGGAAGCGCTATGAACC	0.642													11	118					0	0	0.008291	0	0		T	88695190	T	T	88695190	3	4	157	1	0	0	0	0	1	0	0	0	17593	768	27	1	2552	1	ZC3H18	16	88695190	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2119402	88695190	1659563	1119	86679											
SNAI3	333929	broad.mit.edu	37	chr16	88748042	88748042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggctggggaaggtcacCgggcacagaaggggcctcct	8	4	17	12	1	1	1	1	0	0	1	2	2	2	2	4	7	0	2	4	7	2	0	rs45506693		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr16:88748042C>T	uc002flj.2	-	2	225	c.157G>A	c.(157-159)GGT>AGT	p.G53S	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	53					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)		GGAAGGTCACCGGGCACAGAA	0.687													4	21					0	0	0.000602	0	0		T	88748042	T	T	88748042	3	4	157	1	0	0	0	0	1	0	0	0	14853	652	23	1	729	1	SNAI3	16	88748042	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	52852	88748042	1606711	1120	86680											
GLOD4	51031	broad.mit.edu	37	chr17	679152	679152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctggctagaagcgagcGtgattccctacaacaaacaa	14	6	9	12	2	0	2	0	1	0	1	1	3	1	2	2	1	6	1	2	1	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:679152G>A	uc002frv.2	-	5	390	c.314C>T	c.(313-315)ACG>ATG	p.T105M	GLOD4_uc002frt.2_Missense_Mutation_p.T34M|GLOD4_uc002fru.2_Missense_Mutation_p.T90M|GLOD4_uc010vqc.1_Missense_Mutation_p.T81M	NM_016080	NP_057164	Q9HC38	GLOD4_HUMAN	glyoxalase domain containing 4	105						mitochondrion					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		AGAAGCGAGCGTGATTCCCTA	0.493													20	101					0	0	0.008871	0	0		A	679152	A	A	679152	3	1	157	1	0	0	0	0	1	0	0	0	6465	1145	40	1	651	1	GLOD4	17	679152	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08		679152	80516058	1121	86681											
YWHAE	7531	broad.mit.edu	37	chr17	1264466	1264466	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacctaagcgaataggatgCgttggtggaagttctgtcat	11	11	13	6	2	2	1	1	0	1	1	2	4	2	3	1	3	2	2	1	3	4	4	rs146808095	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:1264466C>T	uc002fsj.2	-	4	650	c.498G>A	c.(496-498)ACG>ACA	p.T166T	YWHAE_uc002fsk.2_Silent_p.T144T|YWHAE_uc010vqh.1_RNA|YWHAE_uc010vqi.1_Intron	NM_006761	NP_006752	P62258	1433E_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	166					apoptosis|G2/M transition of mitotic cell cycle|induction of apoptosis by extracellular signals|interspecies interaction between organisms|intracellular signal transduction|nerve growth factor receptor signaling pathway	cytosol|melanosome	histone deacetylase binding|phosphoserine binding			lung(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(18;0.203)	UCEC - Uterine corpus endometrioid carcinoma (25;0.0887)		GAATAGGATGCGTTGGTGGAA	0.463													51	205					0	0	0.01441	0	0		T	1264466	T	T	1264466	2	4	157	1	0	0	0	0	0	0	0	1	17528	755	27	1		1	YWHAE	17	1264466	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	585314	1264466	79930744	1122	86682											
MYO1C	4641	broad.mit.edu	37	chr17	1373490	1373490	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcacgcagggcaggtgggggCgtgggccacgaggtgtccag	6	5	20	10	3	1	0	1	0	0	0	2	1	2	0	2	6	0	2	2	6	0	0	rs139792172		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:1373490C>T	uc002fsp.2	-	24	2725	c.2505G>A	c.(2503-2505)ACG>ACA	p.T835T	MYO1C_uc002fsn.2_Silent_p.T816T|MYO1C_uc002fso.2_Silent_p.T800T|MYO1C_uc010vqj.1_Silent_p.T800T	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	835					mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CAGGTGGGGGCGTGGGCCACG	0.597													3	16					0	0	0.004672	0	0		T	1373490	T	T	1373490	2	4	157	1	0	0	0	0	0	0	0	1	10088	755	27	1		1	MYO1C	17	1373490	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	109024	1373490	79821720	1123	86683											
RILP	83547	broad.mit.edu	37	chr17	1549887	1549887	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcatcctcagaggattcaGctttaccccgataccatagg	10	11	7	13	1	3	1	3	0	1	1	5	3	4	2	4	2	3	1	4	2	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:1549887G>T	uc002ftd.2	-	8	1349	c.1055C>A	c.(1054-1056)GCT>GAT	p.A352D	SCARF1_uc002fsy.1_5'Flank|SCARF1_uc002fsz.1_5'Flank|SCARF1_uc002fta.1_5'Flank|SCARF1_uc010cjv.1_5'Flank	NM_031430	NP_113618	Q96NA2	RILP_HUMAN	Rab interacting lysosomal protein	352					endosome to lysosome transport|protein transport	late endosome membrane|lysosomal membrane|phagocytic vesicle membrane	Rab GTPase binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		AGAGGATTCAGCTTTACCCCG	0.582													40	187					4.00102e-26	4.45496e-26	0.00623	1	0		T	1549887	T	T	1549887	3	4	157	1	0	0	0	0	1	0	0	0	13385	971	34	5	154	5	RILP	17	1549887	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	176397	1549887	79645323	1124	86684											
WDR81	124997	broad.mit.edu	37	chr17	1637274	1637274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagagcttcccgggccactCgggggccgtcaagtgcgtgg	5	6	17	13	4	1	1	1	0	0	1	3	1	2	1	3	4	2	2	3	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:1637274C>T	uc002fti.2	+	7	1523	c.1262C>T	c.(1261-1263)TCG>TTG	p.S421L	WDR81_uc002fth.2_Missense_Mutation_p.S597L|WDR81_uc010vqp.1_Missense_Mutation_p.S445L|WDR81_uc002ftj.2_Missense_Mutation_p.S1648L|WDR81_uc010vqq.1_Missense_Mutation_p.S279L	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	421										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CCGGGCCACTCGGGGGCCGTC	0.637													19	83					0	0	0.012319	0	0		T	1637274	T	T	1637274	3	4	157	1	0	0	0	0	1	0	0	0	17356	893	31	1	5031	1	WDR81	17	1637274	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	87387	1637274	79557936	1125	86685											
SRR	63826	broad.mit.edu	37	chr17	2222212	2222212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtcaattgtatactgtgaaCctagtgatgaggtaaggaga	13	11	12	5	1	1	4	1	3	0	1	1	5	1	4	1	2	2	2	1	2	6	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:2222212C>T	uc002fue.1	+	4	456	c.388C>T	c.(388-390)CCT>TCT	p.P130S	SRR_uc002fui.1_5'UTR	NM_021947	NP_068766	Q9GZT4	SRR_HUMAN	serine racemase	130					D-serine biosynthetic process|L-serine metabolic process|protein homotetramerization|pyruvate biosynthetic process|response to lipopolysaccharide	cytoplasm|neuronal cell body|soluble fraction	ATP binding|calcium ion binding|D-serine ammonia-lyase activity|glycine binding|L-serine ammonia-lyase activity|magnesium ion binding|PDZ domain binding|protein homodimerization activity|pyridoxal phosphate binding|serine racemase activity|threonine racemase activity				0		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;3.24e-06)|READ - Rectum adenocarcinoma(1115;0.0649)	L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	ATACTGTGAACCTAGTGATGA	0.378													13	171					0	0	0.00245	0	0		T	2222212	T	T	2222212	3	4	157	1	0	0	0	0	1	0	0	0	15191	507	18	4	398	4	SRR	17	2222212	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	584938	2222212	78972998	1126	86686											
TRPV3	162514	broad.mit.edu	37	chr17	3432285	3432285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtcagcatctcatgcCggttctaggggtagaatgcc	8	9	13	11	1	3	1	2	0	2	1	4	1	3	1	3	4	3	3	3	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:3432285C>T	uc002fvt.1	-	10	1569	c.1247G>A	c.(1246-1248)CGG>CAG	p.R416Q	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.R400Q|TRPV3_uc010vri.1_Missense_Mutation_p.R371Q|TRPV3_uc010vrj.1_Missense_Mutation_p.R400Q|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.R400Q|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.R416Q|TRPV3_uc002fvu.2_Missense_Mutation_p.R416Q|TRPV3_uc010vrn.1_5'UTR	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	416	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	CATCTCATGCCGGTTCTAGGG	0.532													6	132					0	0	0.001984	0	0		T	3432285	T	T	3432285	3	4	157	1	0	0	0	0	1	0	0	0	16623	652	23	1	1161	1	TRPV3	17	3432285	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1210073	3432285	77762925	1127	86687											
ATP2A3	489	broad.mit.edu	37	chr17	3850844	3850844	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcatgtagtgatgacagcCgggaggccctcggggatggc	8	6	18	9	2	0	2	0	2	0	0	1	4	0	4	2	6	1	2	2	6	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:3850844C>T	uc002fxb.1	-	8	1087	c.936G>A	c.(934-936)CCG>CCA	p.P312P	ATP2A3_uc002fwx.1_Silent_p.P312P|ATP2A3_uc002fwy.1_Silent_p.P312P|ATP2A3_uc002fwz.1_Silent_p.P312P|ATP2A3_uc002fxa.1_Silent_p.P312P|ATP2A3_uc002fxc.1_Silent_p.P312P|ATP2A3_uc002fxd.1_Silent_p.P312P	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	312	Helical; Name=4; (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		TGATGACAGCCGGGAGGCCCT	0.697													17	45					0	0	0.004007	0	0		T	3850844	T	T	3850844	2	4	157	1	0	0	0	0	0	0	0	1	1139	639	23	1		1	ATP2A3	17	3850844	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	418559	3850844	77344366	1128	86688											
CAMTA2	23125	broad.mit.edu	37	chr17	4883674	4883674	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcttgaagaaccccctcGagaagtgggagggctaggtc	9	8	13	11	1	1	3	0	1	1	2	4	5	2	4	3	3	1	1	3	3	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:4883674G>A	uc002gah.1	-	9	1051	c.943C>T	c.(943-945)CGA>TGA	p.R315*	CAMTA2_uc010cku.1_Nonsense_Mutation_p.R338*|CAMTA2_uc002gag.1_Nonsense_Mutation_p.R314*|CAMTA2_uc002gai.1_Nonsense_Mutation_p.R317*|CAMTA2_uc010ckv.1_5'UTR|CAMTA2_uc010vsu.1_Nonsense_Mutation_p.R128*	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	315					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						GAACCCCCTCGAGAAGTGGGA	0.592											OREG0024111	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	38					0	0	0.001168	0	0		A	4883674	A	A	4883674	4	1	157	1	0	0	0	0	0	1	0	0	2617	1066	37	1	2775	1	CAMTA2	17	4883674	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1032830	4883674	76311536	1129	86689											
C1QBP	708	broad.mit.edu	37	chr17	5337060	5337060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attctttataacttcaaccaCgaaattgggagttgatgtca	13	14	7	7	1	3	1	2	1	1	0	3	3	3	2	1	1	2	1	1	1	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:5337060C>T	uc002gby.1	-	4	583	c.505G>A	c.(505-507)GTG>ATG	p.V169M		NM_001212	NP_001203	Q07021	C1QBP_HUMAN	complement component 1, q subcomponent binding	169					blood coagulation, intrinsic pathway|immune response|interspecies interaction between organisms	mitochondrial matrix|nucleus|plasma membrane				ovary(1)	1						ACTTCAACCACGAAATTGGGA	0.473													42	153					0	0	0.006999	0	0		T	5337060	T	T	5337060	3	4	157	1	0	0	0	0	1	0	0	0	1959	536	19	1	355	1	C1QBP	17	5337060	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	453386	5337060	75858150	1130	86690											
NLRP1	22861	broad.mit.edu	37	chr17	5418368	5418368	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacaaagtgcagcaactgCggggcatccagaggtgaagg	12	5	14	10	1	0	2	0	1	0	1	2	2	2	2	2	4	4	3	2	4	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:5418368C>T	uc002gci.2	-	17	4683	c.4128G>A	c.(4126-4128)CCG>CCA	p.P1376P	NLRP1_uc002gcg.1_Intron|NLRP1_uc002gck.2_Silent_p.P1332P|NLRP1_uc002gcj.2_Silent_p.P1346P|NLRP1_uc002gcl.2_Silent_p.P1302P|NLRP1_uc002gch.3_Silent_p.P1332P	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1376	CARD.				defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GCAGCAACTGCGGGGCATCCA	0.562													11	49					0	0	0.008291	0	0		T	5418368	T	T	5418368	2	4	157	1	0	0	0	0	0	0	0	1	10490	755	27	1		1	NLRP1	17	5418368	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	81308	5418368	75776842	1131	86691											
CHD3	1107	broad.mit.edu	37	chr17	7794025	7794025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaggagaagaagacaaagcGgcggaaaaagggggagggag	19	0	19	3	2	0	3	0	0	0	3	0	7	0	6	0	6	1	0	0	6	6	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:7794025G>A	uc002gje.2	+	3	500	c.350G>A	c.(349-351)CGG>CAG	p.R117Q	CHD3_uc002gjd.2_Missense_Mutation_p.R176Q|CHD3_uc002gjf.2_Missense_Mutation_p.R117Q|CHD3_uc002gjg.1_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	117					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				AAGACAAAGCGGCGGAAAAAG	0.517													4	15					0	0	0.000602	0	0		A	7794025	A	A	7794025	3	1	157	1	0	0	0	0	1	0	0	0	3329	1116	39	1	641	1	CHD3	17	7794025	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2375657	7794025	73401185	1132	86692											
CHD3	1107	broad.mit.edu	37	chr17	7803219	7803219	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taattatgttggcagagggaGgcacaggtgaagttccatgt	11	11	14	5	0	0	2	0	1	0	1	1	3	1	3	1	4	0	4	1	4	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:7803219G>T	uc002gje.2	+	16	2700	c.2550G>T	c.(2548-2550)GAG>GAT	p.E850D	CHD3_uc002gjd.2_Missense_Mutation_p.E909D|CHD3_uc002gjf.2_Missense_Mutation_p.E850D	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	850	Helicase ATP-binding.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GGCAGAGGGAGGCACAGGTGA	0.527													9	112					3.07112e-06	3.21791e-06	0.010729	1	0		T	7803219	T	T	7803219	3	4	157	1	0	0	0	0	1	0	0	0	3329	991	35	5	2893	5	CHD3	17	7803219	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	9194	7803219	73391991	1133	86693											
ARHGEF15	22899	broad.mit.edu	37	chr17	8215418	8215418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccccctcggatcatcCgcccccgccctccttctcgt	5	8	7	21	4	2	1	1	0	1	1	6	2	4	2	7	1	1	0	7	1	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:8215418C>T	uc002glc.2	+	2	182	c.61C>T	c.(61-63)CGC>TGC	p.R21C	ARHGEF15_uc002glb.1_Missense_Mutation_p.R21C|ARHGEF15_uc002gld.2_Missense_Mutation_p.R21C|ARHGEF15_uc010vuw.1_Missense_Mutation_p.R21C	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	21	Pro-rich.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						TCGGATCATCCGCCCCCGCCC	0.622													22	50					0	0	0.00278	0	0		T	8215418	T	T	8215418	3	4	157	1	0	0	0	0	1	0	0	0	898	652	23	1	63	1	ARHGEF15	17	8215418	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	412199	8215418	72979792	1134	86694											
MYH10	4628	broad.mit.edu	37	chr17	8404186	8404186	+	Silent	SNP	T	C	C	0	1	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	tctgagagctcctccagggcTgttgcgtgtctttgtctcat	4	15	11	11	1	3	1	1	1	3	1	6	2	5	1	2	1	2	3	2	1	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:8404186T>C	uc002gll.2	-	27	3705	c.3609A>G	c.(3607-3609)ACA>ACG	p.T1203T	MYH10_uc002glm.2_Silent_p.T1234T|MYH10_uc010cnx.2_Silent_p.T1212T	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1203	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CCTCCAGGGCTGTTGCGTGTC	0.542													38	180					0	0	0.007835	0	0		C	8404186	C	C	8404186	2	2	157	1	0	0	0	0	0	0	0	1	10048	1567	55	3		3	MYH10	17	8404186	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	188768	8404186	72791024	1135	86695											
RCVRN	5957	broad.mit.edu	37	chr17	9804356	9804356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttctcggctcgcttttccGgcgtgttttcatcgtctgga	2	17	10	12	5	4	0	1	0	3	0	8	1	5	1	1	3	0	3	1	3	0	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:9804356G>A	uc002gme.1	-	2	630	c.443C>T	c.(442-444)CCG>CTG	p.P148L		NM_002903	NP_002894	P35243	RECO_HUMAN	recoverin	148	EF-hand 4.				visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						TCGCTTTTCCGGCGTGTTTTC	0.433													21	70					0	0	0.012319	0	0		A	9804356	A	A	9804356	3	1	157	1	0	0	0	0	1	0	0	0	13211	1116	39	1	167	1	RCVRN	17	9804356	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1400170	9804356	71390854	1136	86696											
DNAH9	1770	broad.mit.edu	37	chr17	11648122	11648122	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgcccacaggatcactaCgactggggcctacgggccat	9	6	11	15	2	1	0	1	0	0	0	1	2	1	1	3	4	3	0	3	4	2	2	rs138108837	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:11648122C>T	uc002gne.2	+	31	6188	c.6120C>T	c.(6118-6120)TAC>TAT	p.Y2040Y	DNAH9_uc010coo.2_Silent_p.Y1334Y	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2040	AAA 1 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AGGATCACTACGACTGGGGCC	0.552													21	72					0	0	0.012319	0	0		T	11648122	T	T	11648122	2	4	157	1	0	0	0	0	0	0	0	1	4614	547	19	1		1	DNAH9	17	11648122	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1843766	11648122	69547088	1137	86697											
MAP2K4	6416	broad.mit.edu	37	chr17	12016623	12016623	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacttcggcatcagtggacaGcttgtggactctattgccaa	9	11	11	10	1	2	0	1	0	1	0	3	3	2	2	1	3	2	2	1	3	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:12016623G>A	uc002gnj.2	+	7	828	c.759G>A	c.(757-759)CAG>CAA	p.Q253Q	MAP2K4_uc002gnk.2_Silent_p.Q264Q|MAP2K4_uc010vvi.1_Silent_p.Q135Q|MAP2K4_uc010vvj.1_Silent_p.Q125Q	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	253	Protein kinase.				cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(1)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		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)		TCAGTGGACAGCTTGTGGACT	0.428			D|Mis|N		pancreatic|breast|colorectal								30	136					0	0	0.008361	0	0		A	12016623	A	A	12016623	2	1	157	1	0	0	0	0	0	0	0	1	9257	962	34	2		2	MAP2K4	17	12016623	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	368501	12016623	69178587	1138	86698											
MAP2K4	6416	broad.mit.edu	37	chr17	12028690	12028690	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtttggggatcacattggTatgtttatgctgattcaacc	9	15	11	6	0	2	1	2	1	0	0	2	3	2	2	1	3	2	4	1	3	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:12028690T>C	uc002gnj.2	+	8	960	c.891_splice	c.e8+2	p.L297_splice	MAP2K4_uc002gnk.2_Splice_Site_p.L308_splice|MAP2K4_uc010vvi.1_Splice_Site_p.L179_splice|MAP2K4_uc010vvj.1_Splice_Site_p.L169_splice	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4						cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(1)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		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)		ATCACATTGGTATGTTTATGC	0.403			D|Mis|N		pancreatic|breast|colorectal								20	110					0	0	0.012319	0	0		C	12028690	C	C	12028690	5	2	157	1	0	0	0	0	0	0	1	0	9257	1652	57	3	923	3	MAP2K4	17	12028690	Splice_Site	SNP	T	TCGA-CG-5728-01A-11D-1600-08	12067	12028690	69166520	1139	86699											
COX10	1352	broad.mit.edu	37	chr17	14110390	14110390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatctcctacctcggcttcCgcttctacgtggacgcagac	7	10	8	16	4	2	1	0	0	2	1	5	2	3	2	3	2	2	3	3	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:14110390C>T	uc002gof.3	+	7	1396	c.1192C>T	c.(1192-1194)CGC>TGC	p.R398C	COX10_uc010vvs.1_Missense_Mutation_p.R181C|COX10_uc010vvt.1_Missense_Mutation_p.R206C	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	398					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		CCTCGGCTTCCGCTTCTACGT	0.622													25	86					0	0	0.00632	0	0		T	14110390	T	T	14110390	3	4	157	1	0	0	0	0	1	0	0	0	3765	652	23	1	1218	1	COX10	17	14110390	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2081700	14110390	67084820	1140	86700											
C17orf76	388341	broad.mit.edu	37	chr17	16365691	16365691	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtctagcgaggtcgactccaTgcccaggtcctgcaagagca	9	7	12	13	2	1	1	0	0	1	1	4	3	3	1	3	2	4	2	3	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:16365691T>C	uc010cph.1	-	2	432	c.256A>G	c.(256-258)ATG>GTG	p.M86V	C17orf76_uc002gqh.2_Missense_Mutation_p.M86V|NCRNA00188_uc010vwl.1_Intron|NCRNA00188_uc010vwm.1_Intron|NCRNA00188_uc010vwn.1_Intron|NCRNA00188_uc010cpe.2_Intron|NCRNA00188_uc010vwo.1_Intron|NCRNA00188_uc010vwp.1_Intron	NM_001113567	NP_001107039	Q8NAA5	CQ076_HUMAN	hypothetical protein LOC388341 isoform 1	86											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0887)		GTCGACTCCATGCCCAGGTCC	0.612													9	31					0	0	0.008291	0	0		C	16365691	C	C	16365691	3	2	157	1	0	0	0	0	1	0	0	0	1884	1464	51	3	790	3	C17orf76	17	16365691	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2255301	16365691	64829519	1141	86701											
MYO15A	51168	broad.mit.edu	37	chr17	18062941	18062941	+	Missense_Mutation	SNP	A	G	G	1	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	tgtaatgaggttcatgggggAtgccccactgaagggccaga	10	8	15	8	0	1	3	1	2	0	1	1	4	1	4	3	4	1	2	3	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:18062941A>G	uc010vxh.1	+	54	9589	c.9251A>G	c.(9250-9252)GAT>GGT	p.D3084G	MYO15A_uc010vxi.1_Missense_Mutation_p.D348G|MYO15A_uc010vxk.1_Intron|MYO15A_uc010vxl.1_Missense_Mutation_p.D73G|MYO15A_uc002gsl.2_Missense_Mutation_p.D6G|MYO15A_uc010vxm.1_Missense_Mutation_p.D6G|MYO15A_uc002gsm.1_5'Flank|MYO15A_uc010cpv.2_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	3084	Tail.|MyTH4 2.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					TTCATGGGGGATGCCCCACTG	0.587													9	65					0	0	0.008291	0	0		G	18062941	G	G	18062941	3	3	157	1	0	0	0	0	1	0	0	0	10081	333	12	3	9461	3	MYO15A	17	18062941	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1697250	18062941	63132269	1142	86702											
SMCR8	140775	broad.mit.edu	37	chr17	18219725	18219725	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acttggattacaccaggacaGtgctacacacagaaacggag	15	6	10	10	1	0	1	0	0	0	1	0	4	0	4	1	3	4	1	1	3	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:18219725G>A	uc002gsy.3	+	1	1132	c.622G>A	c.(622-624)GTG>ATG	p.V208M		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	208										central_nervous_system(1)	1						CACCAGGACAGTGCTACACAC	0.458													25	80					0	0	0.00278	0	0		A	18219725	A	A	18219725	3	1	157	1	0	0	0	0	1	0	0	0	14817	1029	36	4	624	4	SMCR8	17	18219725	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	156784	18219725	62975485	1143	86703											
AKAP10	11216	broad.mit.edu	37	chr17	19839741	19839741	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtggcttggagggagaagTacctatggtaaaaagatatc	13	10	14	4	0	0	2	0	0	0	2	1	4	0	3	1	4	1	3	1	4	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:19839741T>C	uc002gwo.2	-	9	1462	c.1325A>G	c.(1324-1326)TAC>TGC	p.Y442C	AKAP10_uc002gwp.1_Missense_Mutation_p.Y442C|AKAP10_uc010cqw.1_Missense_Mutation_p.Y442C	NM_007202	NP_009133	O43572	AKA10_HUMAN	A-kinase anchor protein 10 precursor	442	RGS 2.				blood coagulation|protein localization	cytosol|mitochondrion|plasma membrane	signal transducer activity			skin(1)	1	all_cancers(12;2.08e-05)|all_epithelial(12;0.00158)|Breast(13;0.165)					GAGGGAGAAGTACCTATGGTA	0.413													5	54					0	0	0.000602	0	0		C	19839741	C	C	19839741	3	2	157	1	0	0	0	0	1	0	0	0	446	1638	57	3	691	3	AKAP10	17	19839741	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1620016	19839741	61355469	1144	86704											
SUPT6H	6830	broad.mit.edu	37	chr17	27016406	27016406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagtccttgatggttccCgtgtccaccctgagacttat	7	14	9	11	1	0	3	0	3	0	1	3	4	3	3	4	1	0	1	4	1	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:27016406C>T	uc002hby.2	+	25	3259	c.3169C>T	c.(3169-3171)CGT>TGT	p.R1057C	SUPT6H_uc010crt.2_Missense_Mutation_p.R1057C|SUPT6H_uc002hbz.1_5'UTR	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1057					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					TGATGGTTCCCGTGTCCACCC	0.448													35	149					0	0	0.005524	0	0		T	27016406	T	T	27016406	3	4	157	1	0	0	0	0	1	0	0	0	15425	652	23	1	3263	1	SUPT6H	17	27016406	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	7176665	27016406	54178804	1145	86705											
RAB34	83871	broad.mit.edu	37	chr17	27042506	27042506	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agagatgccacatcattcagGttgaagacaatgatgatggc	14	9	11	7	0	2	5	2	3	0	2	2	6	2	5	1	2	1	1	1	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:27042506G>T	uc002hce.2	-	6	1023	c.399C>A	c.(397-399)AAC>AAA	p.N133K	RAB34_uc002hcg.2_Missense_Mutation_p.N133K|RAB34_uc002hcf.2_Missense_Mutation_p.N134K|RAB34_uc010was.1_Missense_Mutation_p.N190K|RAB34_uc010wat.1_Missense_Mutation_p.N190K|RAB34_uc002hch.2_Missense_Mutation_p.N133K|RAB34_uc010wau.1_Missense_Mutation_p.N111K|RAB34_uc010wav.1_Missense_Mutation_p.N191K	NM_031934	NP_114140	Q9BZG1	RAB34_HUMAN	Ras-related protein RAB34 isoform 1	133					protein transport|small GTPase mediated signal transduction	Golgi apparatus	GTP binding				0	Lung NSC(42;0.00431)					CATCATTCAGGTTGAAGACAA	0.498													18	78					2.39556e-15	2.6156e-15	0.00278	1	0		T	27042506	T	T	27042506	3	4	157	1	0	0	0	0	1	0	0	0	12949	1252	44	5	464	5	RAB34	17	27042506	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	26100	27042506	54152704	1146	86706											
C17orf79	55352	broad.mit.edu	37	chr17	30183884	30183884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcagctgtagcaaagccagCctgcaggaagaagaaatgat	15	6	12	8	0	1	3	1	1	0	2	1	4	1	4	2	1	5	4	2	1	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:30183884C>T	uc002hgp.2	-	2	208	c.100G>A	c.(100-102)GCT>ACT	p.A34T	C17orf79_uc010css.2_RNA	NM_018405	NP_060875	Q9NQ92	COPR5_HUMAN	chromosome 17 open reading frame 79	34					histone H4-R3 methylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone binding				0		all_cancers(10;4.54e-07)|all_hematologic(16;0.0216)|Acute lymphoblastic leukemia(14;0.0255)|Myeloproliferative disorder(56;0.0393)|Ovarian(249;0.1)				GCAAAGCCAGCCTGCAGGAAG	0.378													39	452					0	0	0.00874	0	0		T	30183884	T	T	30183884	3	4	157	1	0	0	0	0	1	0	0	0	1887	753	26	2	466	2	C17orf79	17	30183884	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3141378	30183884	51011326	1147	86707											
MYO1D	4642	broad.mit.edu	37	chr17	31048090	31048090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcaaatcctgcccgacGcactctcacattttccagta	11	9	7	14	2	1	0	1	0	1	0	4	2	3	0	3	1	1	3	3	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:31048090G>A	uc002hho.1	-	15	1876	c.1864C>T	c.(1864-1866)CGT>TGT	p.R622C	MYO1D_uc002hhp.1_Missense_Mutation_p.R622C	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	622	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CCTGCCCGACGCACTCTCACA	0.453													16	287					0	0	0.00499	0	0		A	31048090	A	A	31048090	3	1	157	1	0	0	0	0	1	0	0	0	10089	1087	38	1	1188	1	MYO1D	17	31048090	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	864206	31048090	50147120	1148	86708											
AP2B1	163	broad.mit.edu	37	chr17	33954650	33954650	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccacttcctgggtttaacagGttctggcagaactgaaagaa	12	10	10	9	0	1	3	0	1	1	2	2	3	2	3	2	3	2	3	2	3	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:33954650G>A	uc002hjr.2	+	9	1249	c.1060G>A	c.(1060-1062)GTT>ATT	p.V354I	AP2B1_uc002hjq.2_Missense_Mutation_p.V354I|AP2B1_uc010wci.1_Missense_Mutation_p.V316I|AP2B1_uc002hjs.2_Missense_Mutation_p.V297I|AP2B1_uc002hjt.2_Missense_Mutation_p.V354I|AP2B1_uc010ctv.2_Missense_Mutation_p.V354I|AP2B1_uc010wcj.1_Missense_Mutation_p.V91I	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	354					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		GGTTTAACAGGTTCTGGCAGA	0.448													34	109					0	0	0.012213	0	0		A	33954650	A	A	33954650	3	1	157	1	0	0	0	0	1	0	0	0	741	1275	44	4	1090	4	AP2B1	17	33954650	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2906560	33954650	47240560	1149	86709											
C17orf66	256957	broad.mit.edu	37	chr17	34182245	34182245	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggttcagctttgcaagtCgaaagtcttgaatagttaac	12	12	11	6	1	2	1	1	1	1	0	3	2	2	1	0	2	3	4	0	2	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:34182245C>A	uc002hke.1	-	15	1684	c.1535G>T	c.(1534-1536)CGA>CTA	p.R512L	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Missense_Mutation_p.R472L	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	512							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		CTTTGCAAGTCGAAAGTCTTG	0.468													56	261					7.50695e-29	8.36971e-29	0.01441	1	0		A	34182245	A	A	34182245	3	1	157	1	0	0	0	0	1	0	0	0	1877	884	31	5	181	5	C17orf66	17	34182245	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	227595	34182245	47012965	1150	86710											
ACACA	31	broad.mit.edu	37	chr17	35486328	35486328	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctagcatccatcgaggatcGtatggggtctttgtgggaac	8	11	14	8	2	1	0	0	0	1	0	4	3	2	2	1	4	2	3	1	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:35486328G>A	uc002hnm.2	-	47	5987	c.5796C>T	c.(5794-5796)TAC>TAT	p.Y1932Y	ACACA_uc002hnk.2_Silent_p.Y1854Y|ACACA_uc002hnl.2_Silent_p.Y1874Y|ACACA_uc002hnn.2_Silent_p.Y1932Y|ACACA_uc002hno.2_Silent_p.Y1969Y|ACACA_uc010cuy.2_Silent_p.Y577Y|ACACA_uc010wdc.1_Silent_p.Y58Y	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	1932	Carboxyltransferase.				acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	ATCGAGGATCGTATGGGGTCT	0.458													21	63					0	0	0.010504	0	0		A	35486328	A	A	35486328	2	1	157	1	0	0	0	0	0	0	0	1	106	1140	40	1		1	ACACA	17	35486328	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1304083	35486328	45708882	1151	86711											
MLLT6	4302	broad.mit.edu	37	chr17	36861965	36861965	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccgctggtctactgcgatgGgcacgcgtgcagcgtggtcg	4	8	16	13	6	1	0	0	0	1	0	2	1	1	0	1	3	4	3	1	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:36861965G>T	uc002hqi.3	+	1	93	c.80G>T	c.(79-81)GGG>GTG	p.G27V	MLLT6_uc010wdr.1_Missense_Mutation_p.G27V|MLLT6_uc010cvm.1_Missense_Mutation_p.G27V	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	27	PHD-type 1.				regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					TACTGCGATGGGCACGCGTGC	0.438			T	MLL	AL								10	59					1.58986e-06	1.67104e-06	0.008291	1	0		T	36861965	T	T	36861965	3	4	157	1	0	0	0	0	1	0	0	0	9648	1232	43	5	82	5	MLLT6	17	36861965	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1375637	36861965	44333245	1152	86712											
PCGF2	7703	broad.mit.edu	37	chr17	36896593	36896593	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtcgatgaagtaccccccGcagagggcacacatgaggtg	10	5	14	12	3	0	3	0	2	0	1	1	4	0	3	3	2	1	3	3	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:36896593G>A	uc002hqp.1	-	3	306	c.63C>T	c.(61-63)TGC>TGT	p.C21C	PCGF2_uc002hqn.1_Silent_p.C21C|PCGF2_uc002hqo.1_Silent_p.C21C|PCGF2_uc010cvo.1_Intron|PCGF2_uc002hqq.1_Silent_p.C21C	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110	21	RING-type.				negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					AGTACCCCCCGCAGAGGGCAC	0.627													14	83					0	0	0.006122	0	0		A	36896593	A	A	36896593	2	1	157	1	0	0	0	0	0	0	0	1	11594	1079	38	1		1	PCGF2	17	36896593	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	34628	36896593	44298617	1153	86713											
ZPBP2	124626	broad.mit.edu	37	chr17	38026975	38026975	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtagagttacatcaaaaTagtccagtccttatctgtat	13	15	6	7	0	2	1	1	0	1	1	4	1	4	1	2	0	1	3	2	0	8	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:38026975T>A	uc002hte.2	+	3	300	c.147T>A	c.(145-147)AAT>AAA	p.N49K	ZPBP2_uc002htf.2_Missense_Mutation_p.N27K	NM_199321	NP_955353	Q6X784	ZPBP2_HUMAN	zona pellucida binding protein 2 isoform 2	49					binding of sperm to zona pellucida	extracellular region				ovary(1)	1	Colorectal(19;0.000442)		Lung(15;0.00849)|LUSC - Lung squamous cell carcinoma(15;0.171)			TACATCAAAATAGTCCAGTCC	0.294													11	87					0	0	0.008291	0	0		A	38026975	A	A	38026975	3	1	157	1	0	0	0	0	1	0	0	0	18245	1403	49	5	157	5	ZPBP2	17	38026975	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1130382	38026975	43168235	1154	86714											
CDC6	990	broad.mit.edu	37	chr17	38449747	38449747	+	Missense_Mutation	SNP	A	C	C	1	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	aaactatcatgctgaattgcAtgtccttgaggactgcccag	11	11	9	10	0	1	2	1	2	0	0	2	3	2	3	2	1	4	2	2	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:38449747A>C	uc002huj.1	+	5	910	c.700A>C	c.(700-702)ATG>CTG	p.M234L		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	234					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						GCTGAATTGCATGTCCTTGAG	0.418													5	115					0	0	0.001984	0	0		C	38449747	C	C	38449747	3	2	157	1	0	0	0	0	1	0	0	0	3086	217	8	5	714	5	CDC6	17	38449747	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	422772	38449747	42745463	1155	86715											
SMARCE1	6605	broad.mit.edu	37	chr17	38793825	38793825	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtgataccagaggatgcCtacgaaagagttaaatacat	16	9	9	7	2	0	3	0	1	0	2	1	5	0	4	2	1	4	1	2	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:38793825C>A	uc002hux.2	-	5	281	c.157_splice	c.e5-1	p.A53_splice	SMARCE1_uc010wff.1_Splice_Site_p.A18_splice|SMARCE1_uc010wfg.1_Splice_Site|SMARCE1_uc002huy.2_Splice_Site_p.A18_splice|SMARCE1_uc010wfh.1_Splice_Site|SMARCE1_uc010wfi.1_Splice_Site_p.A35_splice|SMARCE1_uc002huz.1_Splice_Site_p.A18_splice|SMARCE1_uc010wfj.1_Splice_Site_p.A35_splice	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated						chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				CAGAGGATGCCTACGAAAGAG	0.433													33	120					1.45844e-13	1.57911e-13	0.013726	1	0		A	38793825	A	A	38793825	5	1	157	1	0	0	0	0	0	0	1	0	14805	695	24	5	1107	5	SMARCE1	17	38793825	Splice_Site	SNP	C	TCGA-CG-5728-01A-11D-1600-08	344078	38793825	42401385	1156	86716											
KRT25	147183	broad.mit.edu	37	chr17	38907553	38907553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacgttcacgttgcctccaGctgcgcactgcagaacttgc	7	9	9	16	3	1	1	1	0	0	1	2	1	2	1	3	0	6	5	3	0	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:38907553G>A	uc002hve.2	-	4	756	c.695C>T	c.(694-696)GCT>GTT	p.A232V		NM_181534	NP_853512	Q7Z3Z0	K1C25_HUMAN	keratin 25	232	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity			ovary(2)	2		Breast(137;0.00526)				GTTGCCTCCAGCTGCGCACTG	0.488													4	59					0	0	0.009096	0	0		A	38907553	A	A	38907553	3	1	157	1	0	0	0	0	1	0	0	0	8478	971	34	2	677	2	KRT25	17	38907553	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	113728	38907553	42287657	1157	86717											
KRT27	342574	broad.mit.edu	37	chr17	38935850	38935850	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggtggcgccagcgtcGtcagagatctgctgctgcag	6	8	17	10	3	2	1	1	0	1	1	3	3	2	1	1	3	4	3	1	3	0	0	rs116084493	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:38935850G>A	uc002hvg.2	-	5	917	c.876C>T	c.(874-876)GAC>GAT	p.D292D		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	292	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				CGCCAGCGTCGTCAGAGATCT	0.607													12	48					0	0	0.001855	0	0		A	38935850	A	A	38935850	2	1	157	1	0	0	0	0	0	0	0	1	8480	1136	40	1		1	KRT27	17	38935850	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	28297	38935850	42259360	1158	86718											
KRTAP3-3	85293	broad.mit.edu	37	chr17	39150246	39150246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accaaactgtgtgtgggcagGtgctgggcaggcagactcca	9	7	15	10	0	0	1	0	0	0	1	1	1	1	1	2	4	2	4	2	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:39150246G>A	uc002hvr.1	-	1	140	c.104C>T	c.(103-105)ACC>ATC	p.T35I		NM_033185	NP_149441	Q9BYR6	KRA33_HUMAN	keratin associated protein 3-3	35	3 X 5 AA repeats of C-C-X(3).					keratin filament	structural molecule activity				0		Breast(137;0.00043)				GTGTGGGCAGGTGCTGGGCAG	0.632													19	105					0	0	0.00632	0	0		A	39150246	A	A	39150246	3	1	157	1	0	0	0	0	1	0	0	0	8563	1261	44	4	196	4	KRTAP3-3	17	39150246	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	214396	39150246	42044964	1159	86719											
KRTAP4-1	85285	broad.mit.edu	37	chr17	39340883	39340883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggacacaccacagctggggCggcaggtggtctgacaacag	10	5	15	11	1	1	1	0	1	1	0	1	2	1	2	1	6	2	2	1	6	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:39340883C>T	uc002hwe.3	-	1	265	c.224G>A	c.(223-225)CGC>CAC	p.R75H	KRTAP4-1_uc010cxm.1_RNA	NM_033060	NP_149049	Q9BYQ7	KRA41_HUMAN	keratin associated protein 4-1	75	18 X 5 AA repeats of C-C-[GRQC]-[SPT]- [VSTL].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			ACAGCTGGGGCGGCAGGTGGT	0.642													4	23					0	0	0.009096	0	0		T	39340883	T	T	39340883	3	4	157	1	0	0	0	0	1	0	0	0	8564	768	27	1	167	1	KRTAP4-1	17	39340883	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	190637	39340883	41854327	1160	86720											
KRT38	8687	broad.mit.edu	37	chr17	39596889	39596889	+	Silent	SNP	A	G	G	1	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	ccattcagggtgttttcaccAtaggccccacagattccaat	10	11	7	13	0	2	1	2	0	0	1	3	1	3	1	5	2	0	1	5	2	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:39596889A>G	uc002hwq.1	-	1	708	c.285T>C	c.(283-285)TAT>TAC	p.Y95Y		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	95	Head.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				TGTTTTCACCATAGGCCCCAC	0.597													29	114					0	0	0.009535	0	0		G	39596889	G	G	39596889	2	3	157	1	0	0	0	0	0	0	0	1	8491	224	8	3		3	KRT38	17	39596889	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	256006	39596889	41598321	1161	86721											
KRT38	8687	broad.mit.edu	37	chr17	39596907	39596907	+	Silent	SNP	A	G	G	1	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	ccataggccccacagattccAatgttgccaggaatgtggca	11	8	10	12	0	0	1	0	0	0	1	1	2	1	2	5	3	1	2	5	3	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:39596907A>G	uc002hwq.1	-	1	690	c.267T>C	c.(265-267)ATT>ATC	p.I89I		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	89	Head.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				CACAGATTCCAATGTTGCCAG	0.602													26	83					0	0	0.00632	0	0		G	39596907	G	G	39596907	2	3	157	1	0	0	0	0	0	0	0	1	8491	126	5	3		3	KRT38	17	39596907	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	18	39596907	41598303	1162	86722											
KRT15	3866	broad.mit.edu	37	chr17	39674627	39674627	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagtattggctgtagtcGcattctgggctggttggggt	5	15	16	5	1	1	1	0	1	1	0	2	1	1	1	0	5	0	6	0	5	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:39674627G>A	uc002hwy.2	-	1	644	c.453C>T	c.(451-453)TGC>TGT	p.C151C	KRT15_uc002hwz.2_Missense_Mutation_p.A14V|KRT15_uc002hxa.2_Missense_Mutation_p.A14V|KRT15_uc002hxb.1_Missense_Mutation_p.A14V	NM_002275	NP_002266	P19012	K1C15_HUMAN	keratin 15	151	Rod.|Linker 1.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000286)				GGCTGTAGTCGCATTCTGGGC	0.562													29	62					0	0	0.003271	0	0		A	39674627	A	A	39674627	2	1	157	1	0	0	0	0	0	0	0	1	8468	1079	38	1		1	KRT15	17	39674627	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	77720	39674627	41520583	1163	86723											
KLHL11	55175	broad.mit.edu	37	chr17	40011390	40011390	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaatgagatggaaaggtaaCgtataaaattcttcatcctg	15	12	8	6	1	2	1	1	1	1	1	3	3	3	2	1	2	1	2	1	2	6	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:40011390C>T	uc002hyf.1	-	2	735	c.729G>A	c.(727-729)ACG>ACA	p.T243T		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	243	BACK.					extracellular region					0		Breast(137;0.00156)				GGAAAGGTAACGTATAAAATT	0.398													39	120					0	0	0.004289	0	0		T	40011390	T	T	40011390	2	4	157	1	0	0	0	0	0	0	0	1	8383	523	19	1		1	KLHL11	17	40011390	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	336763	40011390	41183820	1164	86724											
DHX58	79132	broad.mit.edu	37	chr17	40253855	40253855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggcacggagaagggcacgCgggaccactttttggcctgg	8	6	16	11	3	0	1	0	0	0	1	0	3	0	2	2	6	0	2	2	6	1	2	rs117253612	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:40253855C>T	uc002hyw.3	-	14	2184	c.1961G>A	c.(1960-1962)CGC>CAC	p.R654H	DHX58_uc002hyv.3_RNA	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	654	RNA-binding.				innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GAAGGGCACGCGGGACCACTT	0.592											OREG0024418	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	85					0	0	0.003163	0	0		T	40253855	T	T	40253855	3	4	157	1	0	0	0	0	1	0	0	0	4520	768	27	1	79	1	DHX58	17	40253855	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	242465	40253855	40941355	1165	86725											
STAT5B	6777	broad.mit.edu	37	chr17	40371806	40371806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttctgctggagggccGtctcccggctcagacgctcc	3	9	12	17	3	3	1	1	0	2	1	5	2	4	2	4	3	2	4	4	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:40371806G>A	uc002hzh.2	-	6	774	c.605C>T	c.(604-606)ACG>ATG	p.T202M	STAT5B_uc002hzi.3_Missense_Mutation_p.T202M	NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	202					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		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)	CTGGAGGGCCGTCTCCCGGCT	0.652													12	20					0	0	0.008871	0	0		A	40371806	A	A	40371806	3	1	157	1	0	0	0	0	1	0	0	0	15294	1145	40	1	1814	1	STAT5B	17	40371806	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	117951	40371806	40823404	1166	86726											
STAT5A	6776	broad.mit.edu	37	chr17	40459717	40459717	+	Missense_Mutation	SNP	A	G	G	1	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	actcagaaatcgggggcatcAccatcgcctggaagtttgac	11	8	11	11	2	2	2	2	1	0	1	4	3	2	3	2	3	0	2	2	3	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:40459717A>G	uc002hzj.1	+	16	2524	c.1882A>G	c.(1882-1884)ACC>GCC	p.T628A	STAT5A_uc010cya.1_Missense_Mutation_p.T628A|STAT5A_uc010cyb.1_Missense_Mutation_p.T597A|STAT5A_uc010cyc.1_Missense_Mutation_p.T598A|STAT5A_uc010cyd.1_Missense_Mutation_p.T116A|STAT5A_uc010cye.1_Missense_Mutation_p.T116A	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	628	SH2.				2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CGGGGGCATCACCATCGCCTG	0.587													13	50					0	0	0.00245	0	0		G	40459717	G	G	40459717	3	3	157	1	0	0	0	0	1	0	0	0	15293	159	6	3	1936	3	STAT5A	17	40459717	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	87911	40459717	40735493	1167	86727											
COASY	80347	broad.mit.edu	37	chr17	40716828	40716828	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgactgaagggcctgggggcGtttgtcattgacagtgacca	8	9	15	9	2	1	3	1	3	0	0	1	4	1	3	2	3	0	1	2	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:40716828G>A	uc002hzz.2	+	5	1306	c.1149G>A	c.(1147-1149)GCG>GCA	p.A383A	COASY_uc010cyj.2_Silent_p.A412A|COASY_uc002iab.2_Silent_p.A88A|COASY_uc002iad.2_Silent_p.A383A|COASY_uc002iac.2_Silent_p.A383A|COASY_uc002iae.2_Silent_p.A178A|MLX_uc002iaf.2_5'Flank|MLX_uc002iag.2_5'Flank|MLX_uc002iah.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	383	DPCK.				coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		GCCTGGGGGCGTTTGTCATTG	0.577													32	125					0	0	0.010818	0	0		A	40716828	A	A	40716828	2	1	157	1	0	0	0	0	0	0	0	1	3655	1132	40	1		1	COASY	17	40716828	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	257111	40716828	40478382	1168	86728											
BRCA1	672	broad.mit.edu	37	chr17	41246445	41246445	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtgttatccaaggaacatctTcagtatctctaggattctct	10	15	7	9	0	4	0	1	0	3	0	7	2	5	2	1	2	1	2	1	2	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:41246445T>C	uc002icq.2	-	10	1335	c.1103A>G	c.(1102-1104)GAA>GGA	p.E368G	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.E297G|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.E321G|BRCA1_uc002ict.2_Missense_Mutation_p.E368G|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.E368G|BRCA1_uc002ide.1_Missense_Mutation_p.E199G|BRCA1_uc010cyy.1_Missense_Mutation_p.E368G|BRCA1_uc010whs.1_Missense_Mutation_p.E368G|BRCA1_uc010cyz.2_Missense_Mutation_p.E321G|BRCA1_uc010cza.2_Missense_Mutation_p.E342G|BRCA1_uc010wht.1_Missense_Mutation_p.E72G	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	368					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		AGGAACATCTTCAGTATCTCT	0.403			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			36	497					0	0	0.004878	0	0		C	41246445	C	C	41246445	3	2	157	1	0	0	0	0	1	0	0	0	1501	1783	62	3	4614	3	BRCA1	17	41246445	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	529617	41246445	39948765	1169	86729											
MPP3	4356	broad.mit.edu	37	chr17	41908667	41908667	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttggactttgcctttcaTaatagcgaagcttctcatga	9	14	10	8	1	2	1	2	1	1	0	3	3	2	2	1	2	3	2	1	2	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:41908667T>C	uc002iei.3	-	5	333	c.167A>G	c.(166-168)TAT>TGT	p.Y56C	MPP3_uc002ieh.2_Missense_Mutation_p.Y81C|MPP3_uc002iej.2_RNA|MPP3_uc010czi.1_Missense_Mutation_p.Y56C|MPP3_uc010wik.1_Missense_Mutation_p.Y81C|MPP3_uc010czj.1_Missense_Mutation_p.Y56C	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	56	L27 1.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		TTGCCTTTCATAATAGCGAAG	0.557													30	90					0	0	0.010818	0	0		C	41908667	C	C	41908667	3	2	157	1	0	0	0	0	1	0	0	0	9753	1406	49	3	1654	3	MPP3	17	41908667	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	662222	41908667	39286543	1170	86730											
SLC25A39	51629	broad.mit.edu	37	chr17	42397752	42397752	+	Missense_Mutation	SNP	A	G	G	1	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	cctccatcgctcccagagcgAcctggcgttgggtctttacc	5	10	10	16	3	1	1	0	0	1	1	4	2	3	1	5	2	2	2	5	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:42397752A>G	uc002ign.2	-	10	1008	c.854T>C	c.(853-855)GTC>GCC	p.V285A	SLC25A39_uc002igm.2_Missense_Mutation_p.V277A|SLC25A39_uc002igo.2_Missense_Mutation_p.V277A|SLC25A39_uc010wiw.1_Missense_Mutation_p.V262A|SLC25A39_uc010czu.2_Missense_Mutation_p.V153A	NM_001143780	NP_001137252	Q9BZJ4	S2539_HUMAN	solute carrier family 25, member 39 isoform a	285	Solcar 3.				heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane				upper_aerodigestive_tract(1)	1		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		TCCCAGAGCGACCTGGCGTTG	0.662													5	45					0	0	0.000602	0	0		G	42397752	G	G	42397752	3	3	157	1	0	0	0	0	1	0	0	0	14528	275	10	3	237	3	SLC25A39	17	42397752	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	489085	42397752	38797458	1171	86731											
GPATCH8	23131	broad.mit.edu	37	chr17	42475537	42475537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggctggctttccagggggGccagtgaagcatcctcagcc	6	8	15	12	0	1	1	1	1	0	0	3	1	3	1	4	5	2	3	4	5	1	1	rs34826608		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:42475537G>A	uc002igw.1	-	8	3972	c.3908C>T	c.(3907-3909)GCC>GTC	p.A1303V	GPATCH8_uc002igv.1_Missense_Mutation_p.A1225V|GPATCH8_uc010wiz.1_Missense_Mutation_p.A1225V	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1303						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		TTCCAGGGGGGCCAGTGAAGC	0.562													9	180					0	0	0.006214	0	0		A	42475537	A	A	42475537	3	1	157	1	0	0	0	0	1	0	0	0	6609	1203	42	2	604	2	GPATCH8	17	42475537	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	77785	42475537	38719673	1172	86732											
GPATCH8	23131	broad.mit.edu	37	chr17	42476193	42476193	+	Silent	SNP	G	A	A	0	0	1	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	ttggcagtgacagagttcttGtcttcaggactgcagtcacc	8	12	11	10	0	4	2	2	1	2	1	4	3	4	3	1	2	1	3	1	2	0	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:42476193G>A	uc002igw.1	-	8	3316	c.3252C>T	c.(3250-3252)GAC>GAT	p.D1084D	GPATCH8_uc002igv.1_Silent_p.D1006D|GPATCH8_uc010wiz.1_Silent_p.D1006D	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1084						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CAGAGTTCTTGTCTTCAGGAC	0.507													17	89					0	0	0.008871	0	0		A	42476193	A	A	42476193	2	1	157	1	0	0	0	0	0	0	0	1	6609	1368	48	4		4	GPATCH8	17	42476193	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	656	42476193	38719017	1173	86733											
PLEKHM1	9842	broad.mit.edu	37	chr17	43531400	43531400	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcgtcctgggaggaggcGcgcagggccagcttcttgcc	4	8	16	13	3	1	0	0	0	1	0	3	2	2	2	3	4	2	3	3	4	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:43531400G>A	uc002ija.2	-	7	1988	c.1818C>T	c.(1816-1818)CGC>CGT	p.R606R	PLEKHM1_uc010wjm.1_Silent_p.R578R|PLEKHM1_uc002ijb.2_Silent_p.R81R|PLEKHM1_uc010wjn.1_Silent_p.R555R|PLEKHM1_uc002ijc.2_Silent_p.R60R	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	606	PH 1.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					GGGAGGAGGCGCGCAGGGCCA	0.642													8	56					0	0	0.00308	0	0		A	43531400	A	A	43531400	2	1	157	1	0	0	0	0	0	0	0	1	12099	1074	38	1		1	PLEKHM1	17	43531400	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1055207	43531400	37663810	1174	86734											
PLEKHM1	9842	broad.mit.edu	37	chr17	43553069	43553069	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccgtgttgacaaacgtcaggTgctccaactctgagatgatg	10	10	11	10	2	2	3	1	3	1	1	3	4	3	3	2	1	3	2	2	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:43553069T>C	uc002ija.2	-	4	490	c.320A>G	c.(319-321)CAC>CGC	p.H107R	PLEKHM1_uc010wjm.1_Missense_Mutation_p.H79R|PLEKHM1_uc002ijb.2_5'UTR|PLEKHM1_uc010wjn.1_Missense_Mutation_p.H56R|hsa-mir-4315-1|MI0015844_5'Flank	NM_014798	NP_055613	Q9Y4G2	PKHM1_HUMAN	pleckstrin homology domain containing, family M	107	RUN.				intracellular signal transduction	cytoplasm	metal ion binding				0	Renal(3;0.0405)					AAACGTCAGGTGCTCCAACTC	0.552													4	20					0	0	0.009096	0	0		C	43553069	C	C	43553069	3	2	157	1	0	0	0	0	1	0	0	0	12099	1696	59	3	2886	3	PLEKHM1	17	43553069	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	21669	43553069	37642141	1175	86735											
CRHR1	1394	broad.mit.edu	37	chr17	43906680	43906680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcctttgtcctctttctgCggctcaggtgagaagacccc	5	12	11	13	1	3	2	1	1	2	2	4	3	4	2	4	3	1	1	4	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:43906680C>T	uc010dap.2	+	5	692	c.427C>T	c.(427-429)CGG>TGG	p.R143W	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_Missense_Mutation_p.R42W|CRHR1_uc002ijm.2_Missense_Mutation_p.R143W|CRHR1_uc002ijn.2_Missense_Mutation_p.R103W|CRHR1_uc010dar.2_Missense_Mutation_p.R143W|CRHR1_uc010dao.2_Missense_Mutation_p.R42W|CRHR1_uc010daq.2_5'UTR|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_RNA	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	143	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CCTCTTTCTGCGGCTCAGGTG	0.577													14	30					0	0	0.00245	0	0		T	43906680	T	T	43906680	3	4	157	1	0	0	0	0	1	0	0	0	3874	759	27	1	445	1	CRHR1	17	43906680	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	353611	43906680	37288530	1176	86736											
ITGB3	3690	broad.mit.edu	37	chr17	45377889	45377889	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaccggggagccctacatgaCgaaaatacctgcaaccgtta	13	6	10	12	3	0	1	0	1	0	0	0	4	0	2	4	2	5	2	4	2	6	3	rs112717328	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:45377889C>T	uc002ilj.2	+	12	1979	c.1959C>T	c.(1957-1959)GAC>GAT	p.D653D	ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	653	Extracellular (Potential).			GALHD -> EPYMT (in Ref. 1; AAA52589, 2; AAA60122 and 4; AAB71380).	activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	CCCTACATGACGAAAATACCT	0.463													5	40					0	0	0.001168	0	0		T	45377889	T	T	45377889	2	4	157	1	0	0	0	0	0	0	0	1	7911	535	19	1		1	ITGB3	17	45377889	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1471209	45377889	35817321	1177	86737											
NGFR	4804	broad.mit.edu	37	chr17	47587858	47587858	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaggagcctgaggcacCtccagaacaagacctcatag	13	4	9	15	0	1	3	1	1	0	2	2	4	2	4	5	2	2	1	5	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:47587858C>A	uc002ioz.3	+	4	778	c.653C>A	c.(652-654)CCT>CAT	p.P218H		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	218	Ser/Thr-rich.|Extracellular (Potential).				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					CCTGAGGCACCTCCAGAACAA	0.642													13	75					7.93312e-07	8.37468e-07	0.00245	1	0		A	47587858	A	A	47587858	3	1	157	1	0	0	0	0	1	0	0	0	10415	681	24	5	667	5	NGFR	17	47587858	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2209969	47587858	33607352	1178	86738											
XYLT2	64132	broad.mit.edu	37	chr17	48433494	48433494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcctgtgagaccctcGtggacaacaacctgcgggtc	7	7	13	14	2	0	1	0	1	0	1	2	3	0	2	4	3	3	0	4	3	2	0	rs139052712		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:48433494G>A	uc002iqo.2	+	7	1463	c.1354G>A	c.(1354-1356)GTG>ATG	p.V452M	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	452	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					TGAGACCCTCGTGGACAACAA	0.602													15	54					0	0	0.008871	0	0		A	48433494	A	A	48433494	3	1	157	1	0	0	0	0	1	0	0	0	17490	1145	40	1	1380	1	XYLT2	17	48433494	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	845636	48433494	32761716	1179	86739											
XYLT2	64132	broad.mit.edu	37	chr17	48435836	48435836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actccttcagttctgggaacCgctgggtgagacccgcttcc	6	10	11	14	2	2	1	1	1	1	1	4	3	4	2	4	2	1	3	4	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:48435836C>T	uc002iqo.2	+	10	2319	c.2210C>T	c.(2209-2211)CCG>CTG	p.P737L	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	737	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					TTCTGGGAACCGCTGGGTGAG	0.587													10	47					0	0	0.008291	0	0		T	48435836	T	T	48435836	3	4	157	1	0	0	0	0	1	0	0	0	17490	652	23	1	2248	1	XYLT2	17	48435836	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2342	48435836	32759374	1180	86740											
RSAD1	55316	broad.mit.edu	37	chr17	48561095	48561095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttttggccctggggctaCgcaccgatgtggggatcact	7	10	14	10	2	1	0	1	0	0	0	1	2	1	1	2	5	1	3	2	5	2	3	rs148371199		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:48561095C>T	uc002iqw.1	+	7	1137	c.1081C>T	c.(1081-1083)CGC>TGC	p.R361C	RSAD1_uc010wmq.1_Intron	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	361					porphyrin biosynthetic process	mitochondrion	4 iron, 4 sulfur cluster binding|coproporphyrinogen oxidase activity|metal ion binding				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CCTGGGGCTACGCACCGATGT	0.537													14	61					0	0	0.003163	0	0		T	48561095	T	T	48561095	3	4	157	1	0	0	0	0	1	0	0	0	13719	536	19	1	1107	1	RSAD1	17	48561095	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	125259	48561095	32634115	1181	86741											
SPAG9	9043	broad.mit.edu	37	chr17	49098699	49098699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtggtagctttagatcCgccttggctaacatcagaaa	11	11	11	8	1	1	2	1	0	0	2	2	3	2	3	2	3	2	3	2	3	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:49098699C>T	uc002itc.2	-	7	1020	c.811G>A	c.(811-813)GGA>AGA	p.G271R	SPAG9_uc002itb.2_Missense_Mutation_p.G257R|SPAG9_uc002itd.2_Missense_Mutation_p.G257R|SPAG9_uc002itf.2_Missense_Mutation_p.G92R|SPAG9_uc002ita.2_Missense_Mutation_p.G114R|SPAG9_uc002ite.2_Missense_Mutation_p.G101R	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	271					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			GCTTTAGATCCGCCTTGGCTA	0.348													9	239					0	0	0.004482	0	0		T	49098699	T	T	49098699	3	4	157	1	0	0	0	0	1	0	0	0	15010	661	23	1	3250	1	SPAG9	17	49098699	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	537604	49098699	32096511	1182	86742											
NME1-NME2	654364	broad.mit.edu	37	chr17	49247316	49247316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtctgggaggggctgaacGtggtgaagacaggccgagtg	9	6	20	6	2	1	3	0	2	1	1	1	5	1	4	1	6	1	1	1	6	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:49247316G>A	uc002itk.2	+	8	920	c.667G>A	c.(667-669)GTG>ATG	p.V223M	NME1-NME2_uc002itj.2_Missense_Mutation_p.V198M|NME2_uc002itl.2_Missense_Mutation_p.V83M|NME2_uc002itm.2_Missense_Mutation_p.V83M|NME2_uc002itn.2_Missense_Mutation_p.V83M|NME2_uc002ito.2_Missense_Mutation_p.V83M	NM_002512	NP_002503	P22392	NDKB_HUMAN	nucleoside diphosphate kinase B	83					cell adhesion|CTP biosynthetic process|GTP biosynthetic process|negative regulation of apoptosis|nucleobase, nucleoside and nucleotide interconversion|positive regulation of epithelial cell proliferation|positive regulation of keratinocyte differentiation|UTP biosynthetic process	cytosol|lamellipodium|nucleus|ruffle	ATP binding|DNA binding|metal ion binding|nucleoside diphosphate kinase activity|protein binding|protein histidine kinase activity|sequence-specific DNA binding transcription factor activity				0			BRCA - Breast invasive adenocarcinoma(22;1.54e-08)			GGGGCTGAACGTGGTGAAGAC	0.512													13	83					0	0	0.001855	0	0		A	49247316	A	A	49247316	3	1	157	1	0	0	0	0	1	0	0	0	10509	1145	40	1	614	1	NME1-NME2	17	49247316	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	148617	49247316	31947894	1183	86743											
KIF2B	84643	broad.mit.edu	37	chr17	51900915	51900915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggagatccgagctagacGcgccctcgatgtcaatacca	11	6	11	13	4	1	2	1	0	0	2	3	5	2	2	3	1	2	2	3	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:51900915G>A	uc002iua.2	+	1	677	c.521G>A	c.(520-522)CGC>CAC	p.R174H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	174	Potential.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CGAGCTAGACGCGCCCTCGAT	0.547													6	113					0	0	0.001984	0	0		A	51900915	A	A	51900915	3	1	157	1	0	0	0	0	1	0	0	0	8314	1087	38	1	523	1	KIF2B	17	51900915	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2653599	51900915	29294295	1184	86744											
MPO	4353	broad.mit.edu	37	chr17	56348170	56348170	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atccggggcaatgagatctgGgccagggcctgtcgctgctg	6	8	16	11	2	1	1	0	1	1	1	3	2	2	1	3	4	1	3	3	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:56348170G>T	uc002ivu.1	-	12	2262	c.2085C>A	c.(2083-2085)GCC>GCA	p.A695A		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	695					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	ATGAGATCTGGGCCAGGGCCT	0.547													8	93					0.000157383	0.000162287	0.00308	1	0		T	56348170	T	T	56348170	2	4	157	1	0	0	0	0	0	0	0	1	9750	1219	43	5		5	MPO	17	56348170	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4447255	56348170	24847040	1185	86745											
MTMR4	9110	broad.mit.edu	37	chr17	56584616	56584616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactcatcatcagcattgcGccagccccaccagctgatct	9	9	7	16	1	4	1	3	1	1	0	4	1	4	1	4	0	5	3	4	0	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:56584616G>A	uc002iwj.2	-	9	840	c.730C>T	c.(730-732)CGC>TGC	p.R244C		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	244	Myotubularin phosphatase.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCAGCATTGCGCCAGCCCCAC	0.597													4	45					0	0	0.009096	0	0		A	56584616	A	A	56584616	3	1	157	1	0	0	0	0	1	0	0	0	9964	1087	38	1	2901	1	MTMR4	17	56584616	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	236446	56584616	24610594	1186	86746											
C17orf47	284083	broad.mit.edu	37	chr17	56620624	56620624	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgatactaagacctttgcGgagggcttggtttcaggata	10	12	13	6	1	1	2	1	1	0	1	1	5	1	4	1	4	2	2	1	4	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:56620624G>A	uc002iwq.1	-	1	1060	c.924C>T	c.(922-924)TCC>TCT	p.S308S	SEPT4_uc010wnx.1_5'Flank|SEPT4_uc010wny.1_5'Flank	NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	308										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGACCTTTGCGGAGGGCTTGG	0.527													39	101					0	0	0.004289	0	0		A	56620624	A	A	56620624	2	1	157	1	0	0	0	0	0	0	0	1	1861	1103	39	1		1	C17orf47	17	56620624	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	36008	56620624	24574586	1187	86747											
CLTC	1213	broad.mit.edu	37	chr17	57760780	57760780	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcagaacaagctcatctttgGgcagaactggtgtttttgta	10	13	11	7	0	2	2	1	0	1	2	2	2	2	2	0	2	3	5	0	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:57760780G>A	uc002ixq.1	+	26	4517	c.4074G>A	c.(4072-4074)TGG>TGA	p.W1358*	CLTC_uc002ixp.2_Nonsense_Mutation_p.W1358*|CLTC_uc002ixr.1_Nonsense_Mutation_p.W1362*	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	1358	Heavy chain arm.|Proximal segment.|Involved in binding clathrin light chain (By similarity).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CTCATCTTTGGGCAGAACTGG	0.363			T	ALK|TFE3	ALCL|renal 								6	112					0	0	0.001168	0	0		A	57760780	A	A	57760780	4	1	157	1	0	0	0	0	0	1	0	0	3569	1241	43	4	4176	4	CLTC	17	57760780	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1140156	57760780	23434430	1188	86748											
USP32	84669	broad.mit.edu	37	chr17	58343335	58343335	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacatacacaatcataacttAcaggaatatcatcagtgcgg	16	9	7	9	1	3	0	3	0	0	0	3	2	3	1	0	2	4	0	0	2	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:58343335A>G	uc002iyo.1	-	8	1213	c.927_splice	c.e8+1	p.P309_splice	USP32_uc010wov.1_Splice_Site_p.P309_splice	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32						protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			ATCATAACTTACAGGAATATC	0.383													27	100					0	0	0.005443	0	0		G	58343335	G	G	58343335	5	3	157	1	0	0	0	0	0	0	1	0	17089	405	14	3	3993	3	USP32	17	58343335	Splice_Site	SNP	A	TCGA-CG-5728-01A-11D-1600-08	582555	58343335	22851875	1189	86749											
BCAS3	54828	broad.mit.edu	37	chr17	59001795	59001795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagtgaggattctgacagtGatggcattgtggcccacttc	8	12	13	8	0	1	4	0	4	1	0	2	5	1	5	1	3	0	1	1	3	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:59001795G>A	uc002iyv.3	+	13	1130	c.1021G>A	c.(1021-1023)GAT>AAT	p.D341N	BCAS3_uc010wow.1_Missense_Mutation_p.D128N|BCAS3_uc002iyu.3_Missense_Mutation_p.D341N|BCAS3_uc002iyw.3_Missense_Mutation_p.D337N|BCAS3_uc002iyx.1_Missense_Mutation_p.D156N|BCAS3_uc002iyy.3_Missense_Mutation_p.D112N	NM_001099432	NP_001092902	Q9H6U6	BCAS3_HUMAN	breast carcinoma amplified sequence 3 isoform 1	341						nucleus				ovary(2)|central_nervous_system(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(1;3.11e-12)|Epithelial(12;8.2e-07)|all cancers(12;5.33e-06)			TTCTGACAGTGATGGCATTGT	0.408													5	113					0	0	0.000602	0	0		A	59001795	A	A	59001795	3	1	157	1	0	0	0	0	1	0	0	0	1353	1290	45	4	1067	4	BCAS3	17	59001795	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	658460	59001795	22193415	1190	86750											
TBX4	9496	broad.mit.edu	37	chr17	59560552	59560552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagacgatggagactgtgcCgtaccagcccttccccacgc	8	6	11	16	3	0	2	0	0	0	2	1	4	1	2	5	1	3	2	5	1	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:59560552C>T	uc002izi.2	+	8	1358	c.1313C>T	c.(1312-1314)CCG>CTG	p.P438L	TBX4_uc010ddo.2_Missense_Mutation_p.P439L|TBX4_uc010woy.1_Missense_Mutation_p.P439L	NM_018488	NP_060958	P57082	TBX4_HUMAN	T-box 4	438					leg morphogenesis|skeletal system morphogenesis	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						GAGACTGTGCCGTACCAGCCC	0.627													17	80					0	0	0.007413	0	0		T	59560552	T	T	59560552	3	4	157	1	0	0	0	0	1	0	0	0	15685	652	23	1	1343	1	TBX4	17	59560552	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	558757	59560552	21634658	1191	86751											
MED13	9969	broad.mit.edu	37	chr17	60059688	60059688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtcattgcaacagtcacGctcttcaacacgtacccaat	12	9	6	14	2	4	0	3	0	1	0	4	0	4	0	1	0	4	4	1	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:60059688G>A	uc002izo.2	-	16	3753	c.3676C>T	c.(3676-3678)CGT>TGT	p.R1226C		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1226					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						CAACAGTCACGCTCTTCAACA	0.418													57	215					0	0	0.01441	0	0		A	60059688	A	A	60059688	3	1	157	1	0	0	0	0	1	0	0	0	9448	1087	38	1	2908	1	MED13	17	60059688	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	499136	60059688	21135522	1192	86752											
TANC2	26115	broad.mit.edu	37	chr17	61466684	61466684	+	Missense_Mutation	SNP	A	G	G	1	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	tctaggtcagccgactgctgAttttgggaggtgccaatatt	8	13	12	8	1	2	1	1	1	1	0	2	3	2	2	2	3	3	1	2	3	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:61466684A>G	uc002jal.3	+	15	2631	c.2608A>G	c.(2608-2610)ATT>GTT	p.I870V	TANC2_uc010wpe.1_Missense_Mutation_p.I780V|TANC2_uc002jan.1_Missense_Mutation_p.I21V|TANC2_uc002jao.3_5'UTR|TANC2_uc002jam.1_Missense_Mutation_p.I237V	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	870	ANK 1.						binding			ovary(2)	2						CCGACTGCTGATTTTGGGAGG	0.368													26	49					0	0	0.00333	0	0		G	61466684	G	G	61466684	3	3	157	1	0	0	0	0	1	0	0	0	15570	333	12	3	2666	3	TANC2	17	61466684	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1406996	61466684	19728526	1193	86753											
KCNH6	81033	broad.mit.edu	37	chr17	61611294	61611294	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagtacaagctgcaggcGccgcgcatccaccgctggac	8	4	13	16	5	0	0	0	0	0	0	1	2	1	2	4	3	3	5	4	3	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:61611294G>A	uc002jay.2	+	5	803	c.723G>A	c.(721-723)GCG>GCA	p.A241A	KCNH6_uc002jax.1_Silent_p.A241A|KCNH6_uc010wpl.1_Silent_p.A118A|KCNH6_uc010wpm.1_Silent_p.A241A|KCNH6_uc002jaz.1_Silent_p.A241A	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	241	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	AGCTGCAGGCGCCGCGCATCC	0.672													27	86					0	0	0.003954	0	0		A	61611294	A	A	61611294	2	1	157	1	0	0	0	0	0	0	0	1	8052	1074	38	1		1	KCNH6	17	61611294	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	144610	61611294	19583916	1194	86754											
MAP3K3	4215	broad.mit.edu	37	chr17	61710073	61710073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattgaactcaatcatgaacGatctggtggccctccagatg	11	10	9	11	1	3	3	2	2	1	1	4	4	4	3	2	2	2	0	2	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:61710073G>A	uc002jbg.2	+	2	356	c.37G>A	c.(37-39)GAT>AAT	p.D13N	MAP3K3_uc002jbe.2_Missense_Mutation_p.D13N|MAP3K3_uc002jbf.2_Missense_Mutation_p.D13N|MAP3K3_uc002jbh.2_Missense_Mutation_p.D13N|MAP3K3_uc010wpo.1_5'UTR|MAP3K3_uc010wpp.1_Missense_Mutation_p.D13N	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	13					MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						AATCATGAACGATCTGGTGGC	0.473													17	92					0	0	0.00499	0	0		A	61710073	A	A	61710073	3	1	157	1	0	0	0	0	1	0	0	0	9269	1058	37	1	43	1	MAP3K3	17	61710073	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	98779	61710073	19485137	1195	86755											
PSMC5	5705	broad.mit.edu	37	chr17	61908237	61908237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggctgtggctcatcatacGgactgtacctttattcgtgt	6	14	11	10	3	2	0	2	0	0	0	3	1	2	1	1	3	2	3	1	3	3	5	rs138950745	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:61908237G>A	uc002jcb.2	+	7	662	c.621G>A	c.(619-621)ACG>ACA	p.T207T	PSMC5_uc010ddy.2_Silent_p.T184T|PSMC5_uc010ddz.2_Silent_p.T128T|PSMC5_uc002jcc.2_Silent_p.T199T|PSMC5_uc002jcd.2_Silent_p.T199T	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	207					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding			large_intestine(1)	1						CTCATCATACGGACTGTACCT	0.532													5	68					0	0	0.000602	0	0		A	61908237	A	A	61908237	2	1	157	1	0	0	0	0	0	0	0	1	12712	1103	39	1		1	PSMC5	17	61908237	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	198164	61908237	19286973	1196	86756											
CSHL1	1444	broad.mit.edu	37	chr17	61987659	61987659	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccgcgactcgatgagcaGcagggagatgtggagcagct	10	5	16	10	3	0	2	0	1	0	1	1	6	0	3	1	2	5	4	1	2	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:61987659G>A	uc002jda.1	-	4	396	c.334C>T	c.(334-336)CTG>TTG	p.L112L	CSHL1_uc002jcz.1_Silent_p.L89L|CSHL1_uc002jdb.1_Silent_p.L18L|CSHL1_uc002jdc.1_Silent_p.L29L|CSHL1_uc002jdd.1_Silent_p.L50L|CSHL1_uc002jde.2_3'UTR|CSHL1_uc002jdf.2_Silent_p.L29L|CSHL1_uc002jdg.2_3'UTR|CSHL1_uc002jdh.2_Silent_p.L18L	NM_022579	NP_072101	Q14406	CSHL_HUMAN	chorionic somatomammotropin hormone-like 1	112						extracellular region	hormone activity|metal ion binding				0						TCGATGAGCAGCAGGGAGATG	0.622													7	69					0	0	0.00308	0	0		A	61987659	A	A	61987659	2	1	157	1	0	0	0	0	0	0	0	1	3945	962	34	2		2	CSHL1	17	61987659	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	79422	61987659	19207551	1197	86757											
APOH	350	broad.mit.edu	37	chr17	64216830	64216830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacacgaagtgttgcaaacGtaggtatggatggtggaggg	13	8	16	4	2	0	0	0	0	0	0	0	3	0	2	0	5	3	4	0	5	5	3	rs113544357		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:64216830G>A	uc002jfn.3	-	5	505	c.446C>T	c.(445-447)ACG>ATG	p.T149M		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	149	Sushi 3.				blood coagulation, intrinsic pathway|negative regulation of angiogenesis|negative regulation of blood coagulation|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of myeloid cell apoptosis|negative regulation of smooth muscle cell apoptosis|plasminogen activation|positive regulation of lipoprotein lipase activity|triglyceride metabolic process|triglyceride transport	cell surface|chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	eukaryotic cell surface binding|glycoprotein binding|heparin binding|lipoprotein lipase activator activity|phospholipid binding				0			BRCA - Breast invasive adenocarcinoma(6;9.74e-08)			TGTTGCAAACGTAGGTATGGA	0.393													41	133					0	0	0.007835	0	0		A	64216830	A	A	64216830	3	1	157	1	0	0	0	0	1	0	0	0	804	1145	40	1	607	1	APOH	17	64216830	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2229171	64216830	16978380	1198	86758											
PITPNC1	26207	broad.mit.edu	37	chr17	65628318	65628318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctttattgatattgcctgCgatgaaattccagagcgcta	10	14	9	8	2	0	3	0	2	0	1	1	4	1	3	2	0	4	2	2	0	4	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:65628318C>T	uc002jgc.2	+	6	773	c.426C>T	c.(424-426)TGC>TGT	p.C142C	PITPNC1_uc002jgb.2_Silent_p.C142C	NM_012417	NP_036549	Q9UKF7	PITC1_HUMAN	phosphatidylinositol transfer protein,	142					signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)		BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)			ATATTGCCTGCGATGAAATTC	0.363													7	77					0	0	0.004482	0	0		T	65628318	T	T	65628318	2	4	157	1	0	0	0	0	0	0	0	1	11968	776	27	1		1	PITPNC1	17	65628318	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1411488	65628318	15566892	1199	86759											
KPNA2	3838	broad.mit.edu	37	chr17	66039402	66039402	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttactgatggtccaaatgaaCgaattggcatggtggtgaaa	13	11	12	5	1	0	3	0	3	0	0	1	4	1	3	1	4	2	1	1	4	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:66039402C>T	uc002jgk.2	+	7	985	c.853C>T	c.(853-855)CGA>TGA	p.R285*	KPNA2_uc002jgl.2_Nonsense_Mutation_p.R285*	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	285	ARM 6.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			TCCAAATGAACGAATTGGCAT	0.428													92	391					0	0	0.01441	0	0		T	66039402	T	T	66039402	4	4	157	1	0	0	0	0	0	1	0	0	8446	528	19	1	875	1	KPNA2	17	66039402	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	411084	66039402	15155808	1200	86760											
ABCA8	10351	broad.mit.edu	37	chr17	66924149	66924149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgctacaatgagatttgagCcgtccgatggatgaggaaat	12	11	12	6	2	0	3	0	3	0	1	1	7	1	5	2	2	3	1	2	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:66924149C>T	uc002jhp.2	-	9	1360	c.1181G>A	c.(1180-1182)GGC>GAC	p.G394D	ABCA8_uc002jhq.2_Missense_Mutation_p.G394D|ABCA8_uc010wqq.1_Missense_Mutation_p.G394D|ABCA8_uc010wqr.1_Missense_Mutation_p.G333D|ABCA8_uc002jhr.2_Missense_Mutation_p.G394D	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	394						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					GAGATTTGAGCCGTCCGATGG	0.333													18	68					0	0	0.012319	0	0		T	66924149	T	T	66924149	3	4	157	1	0	0	0	0	1	0	0	0	38	739	26	2	3684	2	ABCA8	17	66924149	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	884747	66924149	14271061	1201	86761											
KIAA0195	9772	broad.mit.edu	37	chr17	73491708	73491708	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctagtgccccttttcacCgactgcaccccagagagtga	8	9	9	15	1	1	2	1	1	0	1	1	4	1	2	5	0	3	2	5	0	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:73491708C>T	uc002jnz.3	+	22	3203	c.2928C>T	c.(2926-2928)ACC>ACT	p.T976T	KIAA0195_uc010wsa.1_Silent_p.T986T|KIAA0195_uc010wsb.1_Silent_p.T616T|KIAA0195_uc002job.3_5'UTR	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	976					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	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)			CCCTTTTCACCGACTGCACCC	0.637													67	216					0	0	0.01441	0	0		T	73491708	T	T	73491708	2	4	157	1	0	0	0	0	0	0	0	1	8176	639	23	1		1	KIAA0195	17	73491708	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6567559	73491708	7703502	1202	86762											
TRIM65	201292	broad.mit.edu	37	chr17	73888555	73888555	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctgaacttgccggagacCcaggaggccaagatgcaggc	10	5	14	12	1	0	3	0	1	0	2	0	5	0	4	3	4	4	2	3	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:73888555C>A	uc002jpx.2	-	3	573	c.537G>T	c.(535-537)TGG>TGT	p.W179C		NM_173547	NP_775818	Q6PJ69	TRI65_HUMAN	tripartite motif-containing 65	179	Potential.					intracellular	zinc ion binding				0			Epithelial(20;7.53e-06)|all cancers(21;9.11e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGCCGGAGACCCAGGAGGCCA	0.652													7	30					0.00198382	0.00202093	0.001984	1	0		A	73888555	A	A	73888555	3	1	157	1	0	0	0	0	1	0	0	0	16565	624	22	5	1032	5	TRIM65	17	73888555	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	396847	73888555	7306655	1203	86763											
FBF1	85302	broad.mit.edu	37	chr17	73919411	73919411	+	Missense_Mutation	SNP	A	G	G	1	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	tctcctccttggaggctcgcAgcttggaagcctggctggct	4	11	13	13	1	1	0	0	0	1	0	4	2	2	2	3	5	2	5	3	5	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:73919411A>G	uc002jqc.2	-	13	1509	c.1235T>C	c.(1234-1236)CTG>CCG	p.L412P	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Missense_Mutation_p.L403P|FBF1_uc002jqd.1_Missense_Mutation_p.L413P|FBF1_uc010dgr.1_5'Flank	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	412											0						GGAGGCTCGCAGCTTGGAAGC	0.647													2	7					0	0	0.004672	0	0		G	73919411	G	G	73919411	3	3	157	1	0	0	0	0	1	0	0	0	5709	188	7	3	2234	3	FBF1	17	73919411	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	30856	73919411	7275799	1204	86764											
ACOX1	51	broad.mit.edu	37	chr17	73947496	73947496	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagaccaaactcatacCtcaggcagttcactcaggtc	13	8	8	12	0	4	1	4	1	0	1	5	3	4	1	2	2	2	2	2	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:73947496C>A	uc002jqf.2	-	8	1397	c.1107G>T	c.(1105-1107)GAG>GAT	p.E369D	ACOX1_uc010wsq.1_Missense_Mutation_p.E331D|ACOX1_uc002jqe.2_Missense_Mutation_p.E369D|ACOX1_uc010wsr.1_Missense_Mutation_p.E301D	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	369					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						AAACTCATACCTCAGGCAGTT	0.488													40	94					1.59361e-14	1.73549e-14	0.006999	1	0		A	73947496	A	A	73947496	3	1	157	1	0	0	0	0	1	0	0	0	158	695	24	5	903	5	ACOX1	17	73947496	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	28085	73947496	7247714	1205	86765											
CCDC40	55036	broad.mit.edu	37	chr17	78023884	78023884	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggctaccaagcagagcCgagcccagcggcaggagctg	9	5	15	12	2	0	1	0	0	0	1	0	3	0	2	3	3	6	4	3	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:78023884C>A	uc010dht.2	+	7	988	c.961C>A	c.(961-963)CGA>AGA	p.R321R	CCDC40_uc010wub.1_Silent_p.R321R|CCDC40_uc002jxm.3_Silent_p.R104R	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	321					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CAAGCAGAGCCGAGCCCAGCG	0.602													5	30					0.00198382	0.00202093	0.001984	1	0		A	78023884	A	A	78023884	2	1	157	1	0	0	0	0	0	0	0	1	2815	644	23	5		5	CCDC40	17	78023884	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4076388	78023884	3171326	1206	86766											
C17orf70	80233	broad.mit.edu	37	chr17	79508401	79508401	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgctggagccctgggtGgcctgctctgtcaccatcgt	4	9	15	13	2	2	0	1	0	1	0	3	2	2	2	3	4	3	2	3	4	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:79508401G>A	uc002kaq.2	-	8	2503	c.2448C>T	c.(2446-2448)GCC>GCT	p.A816A	C17orf70_uc002kao.1_Silent_p.A465A|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Silent_p.A665A	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	816					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			AGCCCTGGGTGGCCTGCTCTG	0.672													7	10					0	0	0.004482	0	0		A	79508401	A	A	79508401	2	1	157	1	0	0	0	0	0	0	0	1	1880	1335	47	4		4	C17orf70	17	79508401	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1484517	79508401	1686809	1207	86767											
C17orf70	80233	broad.mit.edu	37	chr17	79517607	79517607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagtcacagtgcacatcctCgtcaggcagaaaattctctg	11	9	9	12	1	3	1	2	0	1	1	6	1	4	1	1	1	1	3	1	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:79517607C>T	uc002kaq.2	-	3	968	c.913G>A	c.(913-915)GAG>AAG	p.E305K	C17orf70_uc002kao.1_5'Flank|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Missense_Mutation_p.E154K	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	305					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			TGCACATCCTCGTCAGGCAGA	0.592													27	85					0	0	0.007291	0	0		T	79517607	T	T	79517607	3	4	157	1	0	0	0	0	1	0	0	0	1880	893	31	1	1760	1	C17orf70	17	79517607	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	9206	79517607	1677603	1208	86768											
RAC3	5881	broad.mit.edu	37	chr17	79991663	79991663	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgcgcggtgctctgcccGcccccagtgaagaagccggg	6	5	14	16	5	1	2	0	1	1	1	2	2	2	2	5	2	3	1	5	2	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:79991663G>A	uc002kdf.2	+	6	643	c.537G>A	c.(535-537)CCG>CCA	p.P179P		NM_005052	NP_005043	P60763	RAC3_HUMAN	ras-related C3 botulinum toxin substrate 3 (rho	179					actin cytoskeleton organization|cell projection assembly|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endomembrane system|filamentous actin|growth cone|lamellipodium|neuronal cell body|plasma membrane	GTP binding|GTPase activity|protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			TGCTCTGCCCGCCCCCAGTGA	0.667													5	13					0	0	0.000602	0	0		A	79991663	A	A	79991663	2	1	157	1	0	0	0	0	0	0	0	1	13001	1074	38	1		1	RAC3	17	79991663	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	474056	79991663	1203547	1209	86769											
DUS1L	64118	broad.mit.edu	37	chr17	80017938	80017938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagggcccgcttgctgcgcgCacctgccttctccttgctcc	2	10	10	19	3	1	0	0	0	1	0	3	0	2	0	5	1	4	4	5	1	0	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr17:80017938C>T	uc002kdq.2	-	10	1473	c.1054G>A	c.(1054-1056)GCG>ACG	p.A352T	DUS1L_uc002kdp.2_Missense_Mutation_p.A221T|DUS1L_uc002kdr.2_Missense_Mutation_p.A352T|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	352					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	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)			TTGCTGCGCGCACCTGCCTTC	0.657													8	30					0	0	0.004482	0	0		T	80017938	T	T	80017938	3	4	157	1	0	0	0	0	1	0	0	0	4811	710	25	2	383	2	DUS1L	17	80017938	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	26275	80017938	1177272	1210	86770											
EPB41L3	23136	broad.mit.edu	37	chr18	5443867	5443867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttttttatttccttagcagGgtccaaccaattctgaaaag	11	16	6	8	0	1	1	0	1	1	0	3	1	3	1	3	1	2	1	3	1	6	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:5443867G>T	uc002kmt.1	-	5	585	c.499C>A	c.(499-501)CCT>ACT	p.P167T	EPB41L3_uc010wzh.1_Missense_Mutation_p.P167T|EPB41L3_uc002kmu.1_Missense_Mutation_p.P167T|EPB41L3_uc010dkq.1_Missense_Mutation_p.P58T|EPB41L3_uc010dks.1_Missense_Mutation_p.P189T|EPB41L3_uc002kmv.1_Missense_Mutation_p.P58T	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	167	FERM.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TCCTTAGCAGGGTCCAACCAA	0.343													35	135					5.8336e-16	6.38594e-16	0.003271	1	0		T	5443867	T	T	5443867	3	4	157	1	0	0	0	0	1	0	0	0	5162	1232	43	5	2836	5	EPB41L3	18	5443867	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08		5443867	72633381	1211	86771											
TMEM200C	645369	broad.mit.edu	37	chr18	5891983	5891983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcttggctttccgcttgCgcttgggtatctggcttggg	1	17	13	10	2	3	0	0	0	3	0	4	0	4	0	1	4	1	5	1	4	1	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:5891983C>T	uc002kmx.1	-	1	121	c.80G>A	c.(79-81)CGC>CAC	p.R27H		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	27						integral to membrane					0						TTTCCGCTTGCGCTTGGGTAT	0.612													12	42					0	0	0.010729	0	0		T	5891983	T	T	5891983	3	4	157	1	0	0	0	0	1	0	0	0	16150	768	27	1	1789	1	TMEM200C	18	5891983	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	448116	5891983	72185265	1212	86772											
PTPRM	5797	broad.mit.edu	37	chr18	8370934	8370934	+	Missense_Mutation	SNP	A	G	G	1	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	tgacacagagatatataaagAcattaaagttaccctaatag	19	10	6	6	0	0	3	0	1	0	2	0	4	0	3	1	0	1	1	1	0	9	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:8370934A>G	uc002knn.3	+	22	3565	c.3062A>G	c.(3061-3063)GAC>GGC	p.D1021G	PTPRM_uc010dkv.2_Missense_Mutation_p.D1034G|PTPRM_uc010wzl.1_Missense_Mutation_p.D808G	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1021	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ATATATAAAGACATTAAAGTT	0.318													37	145					0	0	0.004289	0	0		G	8370934	G	G	8370934	3	3	157	1	0	0	0	0	1	0	0	0	12831	275	10	3	3195	3	PTPRM	18	8370934	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2478951	8370934	69706314	1213	86773											
TXNDC2	84203	broad.mit.edu	37	chr18	9887504	9887504	+	Missense_Mutation	SNP	A	G	G	1	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	catccagcctaaggagggtgAcatccccaagtccccagaag	12	5	10	14	0	0	2	0	1	0	1	3	3	3	3	6	2	1	0	6	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:9887504A>G	uc002koi.3	+	2	1477	c.1028A>G	c.(1027-1029)GAC>GGC	p.D343G	TXNDC2_uc010wzq.1_RNA|TXNDC2_uc002koh.3_Missense_Mutation_p.D276G	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	343	22 X 15 AA approximate tandem repeat of Q-P-K-X-G-D-I-P-K-S-[PS]-E-[KE]-X-I.|16.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						AAGGAGGGTGACATCCCCAAG	0.577													31	151					0	0	0.010818	0	0		G	9887504	G	G	9887504	3	3	157	1	0	0	0	0	1	0	0	0	16823	275	10	3	1034	3	TXNDC2	18	9887504	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1516570	9887504	68189744	1214	86774											
TXNDC2	84203	broad.mit.edu	37	chr18	9887579	9887579	+	Missense_Mutation	SNP	A	T	T	1	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	gtccccagaagaagccatccAgcccaaggagggtgacattc	12	5	11	13	0	0	3	0	1	0	2	3	4	2	4	5	2	2	0	5	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:9887579A>T	uc002koi.3	+	2	1552	c.1103A>T	c.(1102-1104)CAG>CTG	p.Q368L	TXNDC2_uc010wzq.1_RNA|TXNDC2_uc002koh.3_Missense_Mutation_p.Q301L	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	368	22 X 15 AA approximate tandem repeat of Q-P-K-X-G-D-I-P-K-S-[PS]-E-[KE]-X-I.|18.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						GAAGCCATCCAGCCCAAGGAG	0.567													26	152					0	0	0.004656	0	0		T	9887579	T	T	9887579	3	4	157	1	0	0	0	0	1	0	0	0	16823	188	7	5	1109	5	TXNDC2	18	9887579	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	75	9887579	68189669	1215	86775											
TUBB6	84617	broad.mit.edu	37	chr18	12308711	12308711	+	Missense_Mutation	SNP	A	G	G	1	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	ggaagtgatcagcgatgagcAcggcatcgacccggccggag	10	4	16	11	5	1	2	1	2	0	0	2	6	1	4	2	4	2	2	2	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:12308711A>G	uc002kqw.2	+	2	128	c.83A>G	c.(82-84)CAC>CGC	p.H28R	TUBB6_uc002kqv.2_5'UTR|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Missense_Mutation_p.H28R|TUBB6_uc002kqy.2_Missense_Mutation_p.H28R	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	28					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		AGCGATGAGCACGGCATCGAC	0.647													4	74					0	0	0.001984	0	0		G	12308711	G	G	12308711	3	3	157	1	0	0	0	0	1	0	0	0	16786	159	6	3	89	3	TUBB6	18	12308711	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2421132	12308711	65768537	1216	86776											
SPIRE1	56907	broad.mit.edu	37	chr18	12454398	12454398	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atactgttggtatttttccaGctctgccttcaccaggacct	7	15	7	12	0	2	0	1	0	1	0	3	1	3	1	4	2	3	3	4	2	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:12454398G>C	uc002kre.2	-	13	1770	c.1723C>G	c.(1723-1725)CTG>GTG	p.L575V	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Missense_Mutation_p.L441V|SPIRE1_uc010wzx.1_Missense_Mutation_p.L364V|SPIRE1_uc010wzy.1_Missense_Mutation_p.L561V	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	575	Spir-box.					cytoskeleton|perinuclear region of cytoplasm	actin binding				0						TATTTTTCCAGCTCTGCCTTC	0.433													69	244					0	0	0.01441	0	0		C	12454398	C	C	12454398	3	2	157	1	0	0	0	0	1	0	0	0	15096	962	34	5	567	5	SPIRE1	18	12454398	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	145687	12454398	65622850	1217	86777											
PTPN2	5771	broad.mit.edu	37	chr18	12830993	12830993	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaactgctttggtcttctgCtgccaaaccataagccagaa	12	10	7	12	0	2	1	0	0	2	1	2	1	2	1	3	1	6	2	3	1	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:12830993C>T	uc002krp.2	-	4	503	c.309G>A	c.(307-309)CAG>CAA	p.Q103Q	PTPN2_uc002krl.2_Silent_p.Q103Q|PTPN2_uc002krn.2_Silent_p.Q103Q|PTPN2_uc002kro.2_Silent_p.Q103Q|PTPN2_uc002krm.2_Silent_p.Q103Q	NM_002828	NP_002819	P17706	PTN2_HUMAN	protein tyrosine phosphatase, non-receptor type	103	Tyrosine-protein phosphatase.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway	endoplasmic reticulum|nucleoplasm	protein binding			skin(2)	2		Lung NSC(161;8.94e-06)				TGGTCTTCTGCTGCCAAACCA	0.428													5	48					0	0	0.001168	0	0		T	12830993	T	T	12830993	2	4	157	1	0	0	0	0	0	0	0	1	12808	796	28	2		2	PTPN2	18	12830993	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	376595	12830993	65246255	1218	86778											
POTEC	388468	broad.mit.edu	37	chr18	14542736	14542736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcttgtccagatcttctCgacggacgtggtacctcggc	6	10	13	12	4	2	1	0	0	2	1	5	4	3	3	2	4	2	2	2	4	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:14542736C>T	uc010dln.2	-	1	864	c.410G>A	c.(409-411)CGA>CAA	p.R137Q	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	137										skin(3)	3						CAGATCTTCTCGACGGACGTG	0.607													37	153					0	0	0.010771	0	0		T	14542736	T	T	14542736	3	4	157	1	0	0	0	0	1	0	0	0	12281	884	31	1	1262	1	POTEC	18	14542736	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1711743	14542736	63534512	1219	86779											
CHST9	83539	broad.mit.edu	37	chr18	24722722	24722722	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagctactccaaatatcaGcacagagaggaagacttgtt	14	8	8	11	0	1	2	1	0	0	2	2	4	2	3	2	1	3	3	2	1	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:24722722G>A	uc002kwd.2	-	1	250	c.52C>T	c.(52-54)CTG>TTG	p.L18L	C18orf16_uc010xbm.1_Intron|CHST9_uc002kwe.2_Silent_p.L18L	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	18	Helical; Signal-anchor for type II membrane protein; (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					CCAAATATCAGCACAGAGAGG	0.388													36	169					0	0	0.004289	0	0		A	24722722	A	A	24722722	2	1	157	1	0	0	0	0	0	0	0	1	3414	962	34	2		2	CHST9	18	24722722	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	10179986	24722722	53354526	1220	86780											
MOCOS	55034	broad.mit.edu	37	chr18	33775270	33775270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgttctcccagagccagCtcgaaagcttcactagtgat	9	11	8	13	1	2	2	1	1	1	1	4	3	2	2	3	0	3	3	3	0	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:33775270C>T	uc002kzq.3	+	2	216	c.193C>T	c.(193-195)CTC>TTC	p.L65F		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	65					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	CCAGAGCCAGCTCGAAAGCTT	0.393													41	152					0	0	0.011902	0	0		T	33775270	T	T	33775270	3	4	157	1	0	0	0	0	1	0	0	0	9707	797	28	2	199	2	MOCOS	18	33775270	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	9052548	33775270	44301978	1221	86781											
CELF4	56853	broad.mit.edu	37	chr18	34854283	34854283	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccacttactgcctgagcGtaggcgccgtaggccccgaa	7	7	12	15	4	0	1	0	1	0	0	0	2	0	1	5	2	4	2	5	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:34854283G>A	uc002lae.2	-	6	1188	c.792C>T	c.(790-792)TAC>TAT	p.Y264Y	CELF4_uc010dnd.1_Silent_p.Y263Y|CELF4_uc002lag.2_Silent_p.Y254Y|CELF4_uc002laf.2_Silent_p.Y259Y|CELF4_uc002lai.2_Silent_p.Y249Y|CELF4_uc002lah.1_5'Flank|CELF4_uc002laj.1_Missense_Mutation_p.R100C	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	264	Sufficient for RNA-binding and MSE- dependent splicing activity.|Ala-rich.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						CTGCCTGAGCGTAGGCGCCGT	0.607													11	120					0	0	0.010729	0	0		A	34854283	A	A	34854283	2	1	157	1	0	0	0	0	0	0	0	1	3221	1140	40	1		1	CELF4	18	34854283	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1079013	34854283	43222965	1222	86782											
PIK3C3	5289	broad.mit.edu	37	chr18	39570520	39570520	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattgtttattatgaaaaggTatttcccttggaactgtttt	10	20	7	4	0	0	1	0	1	0	0	1	2	1	2	1	2	1	3	1	2	7	10			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:39570520T>C	uc002lap.2	+	6	772	c.714_splice	c.e6+2	p.K238_splice	PIK3C3_uc010xcl.1_Splice_Site_p.K175_splice	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3						cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						TATGAAAAGGTATTTCCCTTG	0.353										TSP Lung(28;0.18)			7	81					0	0	0.00308	0	0		C	39570520	C	C	39570520	5	2	157	1	0	0	0	0	0	0	1	0	11931	1652	57	3	738	3	PIK3C3	18	39570520	Splice_Site	SNP	T	TCGA-CG-5728-01A-11D-1600-08	4716237	39570520	38506728	1223	86783											
SETBP1	26040	broad.mit.edu	37	chr18	42531185	42531185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taagaaaagaaagcgacgacGcaatttagcgaagttggccc	16	6	11	8	4	0	2	0	0	0	2	0	5	0	2	1	1	2	2	1	1	7	4	rs138819848	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:42531185G>A	uc010dni.2	+	4	2176	c.1880G>A	c.(1879-1881)CGC>CAC	p.R627H		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	627						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AAGCGACGACGCAATTTAGCG	0.517									Schinzel-Giedion_syndrome				22	77					0	0	0.012319	0	0		A	42531185	A	A	42531185	3	1	157	1	0	0	0	0	1	0	0	0	14154	1087	38	1	2083	1	SETBP1	18	42531185	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2960665	42531185	35546063	1224	86784											
SLC14A1	6563	broad.mit.edu	37	chr18	43328373	43328373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctatcttggagtcggcatgGcaaactttatggctgaggtg	8	12	13	8	1	1	1	0	1	1	0	2	2	1	2	1	5	1	3	1	5	3	4	rs147114544	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:43328373G>A	uc010xcn.1	+	10	1298	c.979G>A	c.(979-981)GCA>ACA	p.A327T	SLC14A1_uc010dnk.2_Missense_Mutation_p.A383T|SLC14A1_uc002lbf.3_Missense_Mutation_p.A327T|SLC14A1_uc002lbg.3_RNA|SLC14A1_uc010xco.1_Missense_Mutation_p.A222T|SLC14A1_uc002lbh.3_Missense_Mutation_p.A219T|SLC14A1_uc002lbi.3_Missense_Mutation_p.A195T|SLC14A1_uc002lbj.3_Missense_Mutation_p.A383T|SLC14A1_uc002lbk.3_Missense_Mutation_p.A327T	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	327	Helical; (Potential).					integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						AGTCGGCATGGCAAACTTTAT	0.443													65	234					0	0	0.01441	0	0		A	43328373	A	A	43328373	3	1	157	1	0	0	0	0	1	0	0	0	14421	1203	42	2	1177	2	SLC14A1	18	43328373	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	797188	43328373	34748875	1225	86785											
CDH20	28316	broad.mit.edu	37	chr18	59221564	59221564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccgaggccttcgacatcgCggccatgtggaacccccggg	7	5	13	16	5	0	0	0	0	0	0	2	3	0	1	5	4	1	0	5	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:59221564C>T	uc010dps.1	+	11	2054	c.2042C>T	c.(2041-2043)GCG>GTG	p.A681V	CDH20_uc002lif.2_Missense_Mutation_p.A675V	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	681	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				TTCGACATCGCGGCCATGTGG	0.667													24	66					0	0	0.003954	0	0		T	59221564	T	T	59221564	3	4	157	1	0	0	0	0	1	0	0	0	3109	768	27	1	2084	1	CDH20	18	59221564	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	15893191	59221564	18855684	1226	86786											
PHLPP1	23239	broad.mit.edu	37	chr18	60609077	60609077	+	Silent	SNP	G	A	A	0	0	1	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	agcctcacagacaaatgtgtGcccttgttaacgggacaccc	11	8	9	13	1	1	1	1	0	0	1	1	2	1	2	3	1	3	1	3	1	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:60609077G>A	uc002lis.2	+	12	1729	c.1551G>A	c.(1549-1551)GTG>GTA	p.V517V		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1029	LRR 16.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						ACAAATGTGTGCCCTTGTTAA	0.448													10	70					0	0	0.008291	0	0		A	60609077	A	A	60609077	2	1	157	1	0	0	0	0	0	0	0	1	11873	1306	46	2		2	PHLPP1	18	60609077	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1387513	60609077	17468171	1227	86787											
SERPINB8	5271	broad.mit.edu	37	chr18	61654298	61654298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacttttctggaatgtcaaCtgagaagaatgtgcctctgt	11	13	10	7	0	3	3	1	1	2	3	3	5	3	4	1	1	2	0	1	1	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:61654298C>T	uc002ljv.2	+	7	1080	c.911C>T	c.(910-912)ACT>ATT	p.T304I	SERPINB8_uc002lju.2_Missense_Mutation_p.T304I|SERPINB8_uc010xex.1_Missense_Mutation_p.T122I	NM_198833	NP_942130	P50452	SPB8_HUMAN	serine (or cysteine) proteinase inhibitor, clade	304					regulation of proteolysis	cytosol	protein binding|serine-type endopeptidase inhibitor activity			skin(1)	1		Esophageal squamous(42;0.129)				GGAATGTCAACTGAGAAGAAT	0.498													22	104					0	0	0.00333	0	0		T	61654298	T	T	61654298	3	4	157	1	0	0	0	0	1	0	0	0	14132	565	20	4	946	4	SERPINB8	18	61654298	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1045221	61654298	16422950	1228	86788											
CD226	10666	broad.mit.edu	37	chr18	67563239	67563239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacattctttccaggttccGaaacaatgtggctatttgat	10	15	8	8	1	1	2	0	2	1	0	3	3	3	2	2	2	1	2	2	2	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:67563239G>A	uc010dqo.2	-	3	872	c.425C>T	c.(424-426)TCG>TTG	p.S142L	CD226_uc002lkm.3_Missense_Mutation_p.S142L	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	142	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				TCCAGGTTCCGAAACAATGTG	0.478													4	72					0	0	0.009096	0	0		A	67563239	A	A	67563239	3	1	157	1	0	0	0	0	1	0	0	0	2989	1059	37	1	601	1	CD226	18	67563239	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5908941	67563239	10514009	1229	86789											
C18orf55	29090	broad.mit.edu	37	chr18	71825638	71825638	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagtggtgaatatgattttCgatatatatttgtagaaatt	14	17	9	1	1	0	3	0	2	0	1	1	5	0	3	0	1	0	1	0	1	8	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:71825638C>T	uc010dqr.1	+	6	968	c.670C>T	c.(670-672)CGA>TGA	p.R224*		NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	224					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				ATATGATTTTCGATATATATT	0.333													8	34					0	0	0.008291	0	0		T	71825638	T	T	71825638	4	4	157	1	0	0	0	0	0	1	0	0	1908	876	31	1	692	1	C18orf55	18	71825638	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4262399	71825638	6251610	1230	86790											
ZNF236	7776	broad.mit.edu	37	chr18	74639309	74639309	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctcacgggggagcctggccTggccccacagaacagctctc	7	5	13	16	1	2	1	1	0	1	1	3	2	2	2	4	4	3	2	4	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:74639309T>C	uc002lmi.2	+	24	4442	c.4244T>C	c.(4243-4245)CTG>CCG	p.L1415P	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1415					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GAGCCTGGCCTGGCCCCACAG	0.582													15	66					0	0	0.006122	0	0		C	74639309	C	C	74639309	3	2	157	1	0	0	0	0	1	0	0	0	17814	1580	55	3	4338	3	ZNF236	18	74639309	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2813671	74639309	3437939	1231	86791											
SALL3	27164	broad.mit.edu	37	chr18	76757103	76757103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctcgccatgaagaacaaCgagatctccgtcatccagaa	13	6	10	12	3	2	4	1	1	1	3	5	5	3	4	3	1	2	1	3	1	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:76757103C>T	uc002lmt.2	+	3	3684	c.3684C>T	c.(3682-3684)AAC>AAT	p.N1228N	SALL3_uc010dra.2_Silent_p.N763N	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1228					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TGAAGAACAACGAGATCTCCG	0.612													28	89					0	0	0.003271	0	0		T	76757103	T	T	76757103	2	4	157	1	0	0	0	0	0	0	0	1	13837	535	19	1		1	SALL3	18	76757103	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2117794	76757103	1320145	1232	86792											
NFATC1	4772	broad.mit.edu	37	chr18	77170868	77170868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caactactcgtacccgtacgCgtccccccagacgtcgccat	8	7	7	19	6	0	1	0	0	0	1	3	1	1	1	5	0	4	2	5	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:77170868C>T	uc010xfg.1	+	2	1046	c.593C>T	c.(592-594)GCG>GTG	p.A198V	NFATC1_uc002lnc.1_Missense_Mutation_p.A198V|NFATC1_uc010xff.1_Missense_Mutation_p.A198V|NFATC1_uc002lnd.2_Missense_Mutation_p.A198V|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Missense_Mutation_p.A198V|NFATC1_uc010xfi.1_Missense_Mutation_p.A185V|NFATC1_uc010xfj.1_Intron|NFATC1_uc002lnf.2_Missense_Mutation_p.A185V|NFATC1_uc002lng.2_Missense_Mutation_p.A185V|NFATC1_uc010xfk.1_Missense_Mutation_p.A185V	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	198	Trans-activation domain A (TAD-A).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		TACCCGTACGCGTCCCCCCAG	0.677													27	109					0	0	0.013726	0	0		T	77170868	T	T	77170868	3	4	157	1	0	0	0	0	1	0	0	0	10380	768	27	1	691	1	NFATC1	18	77170868	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	413765	77170868	906380	1233	86793											
NFATC1	4772	broad.mit.edu	37	chr18	77287538	77287538	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttacagtaaatgaaatAatacgaaatgacctctccag	16	12	5	8	1	2	2	0	2	2	0	3	3	2	2	2	0	2	1	2	0	7	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:77287538A>G	uc010xfg.1	+	10	3246	c.2793A>G	c.(2791-2793)ATA>ATG	p.I931M	NFATC1_uc002lnd.2_3'UTR|NFATC1_uc002lne.2_3'UTR|NFATC1_uc010xfh.1_Missense_Mutation_p.I701M|NFATC1_uc010xfj.1_Missense_Mutation_p.I459M|NFATC1_uc002lnf.2_Missense_Mutation_p.I918M|NFATC1_uc002lng.2_3'UTR|NFATC1_uc010xfk.1_Missense_Mutation_p.I688M|NFATC1_uc010drc.2_RNA	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	931	Nuclear export signal.|Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		TAAATGAAATAATACGAAATG	0.438													8	121					0	0	0.004482	0	0		G	77287538	G	G	77287538	3	3	157	1	0	0	0	0	1	0	0	0	10380	352	13	3	2982	3	NFATC1	18	77287538	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	116670	77287538	789710	1234	86794											
CTDP1	9150	broad.mit.edu	37	chr18	77475153	77475153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacagaacagcgagctgtcgGgggtcactgcgggtgagtcc	8	6	16	11	3	1	2	1	1	0	1	3	3	2	2	1	3	4	1	1	3	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr18:77475153G>A	uc002lnh.1	+	8	1840	c.1693G>A	c.(1693-1695)GGG>AGG	p.G565R	CTDP1_uc002lni.1_Missense_Mutation_p.G565R|CTDP1_uc010drd.1_Missense_Mutation_p.G565R	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	565					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		CGAGCTGTCGGGGGTCACTGC	0.582													6	20					0	0	0.001168	0	0		A	77475153	A	A	77475153	3	1	157	1	0	0	0	0	1	0	0	0	4005	1232	43	4	1723	4	CTDP1	18	77475153	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	187615	77475153	602095	1235	86795											
PPAP2C	8612	broad.mit.edu	37	chr19	287508	287508	+	Missense_Mutation	SNP	A	G	G	1	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	atcagcagggtttcccctgcAcaccttctccagctgcacat	8	10	7	16	0	2	0	1	0	1	0	4	0	3	0	4	1	4	5	4	1	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:287508A>G	uc002loi.2	-	3	547	c.448T>C	c.(448-450)TGC>CGC	p.C150R	PPAP2C_uc002loh.2_Missense_Mutation_p.C171R|PPAP2C_uc002loj.2_Missense_Mutation_p.C94R	NM_003712	NP_003703	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C isoform 1	150					sphingolipid metabolic process	integral to membrane|plasma membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTTCCCCTGCACACCTTCTCC	0.602													36	158					0	0	0.004289	0	0		G	287508	G	G	287508	3	3	157	1	0	0	0	0	1	0	0	0	12311	159	6	3	434	3	PPAP2C	19	287508	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08		287508	58841475	1236	86796											
PPAP2C	8612	broad.mit.edu	37	chr19	287537	287537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctgcacatagaccgagCagttgacccggctccagtcg	9	6	11	15	3	0	2	0	1	0	1	2	3	1	2	4	1	3	5	4	1	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:287537C>T	uc002loi.2	-	3	518	c.419G>A	c.(418-420)TGC>TAC	p.C140Y	PPAP2C_uc002loh.2_Missense_Mutation_p.C161Y|PPAP2C_uc002loj.2_Missense_Mutation_p.C84Y	NM_003712	NP_003703	O43688	LPP2_HUMAN	phosphatidic acid phosphatase type 2C isoform 1	140					sphingolipid metabolic process	integral to membrane|plasma membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|sphingosine-1-phosphate phosphatase activity			central_nervous_system(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATAGACCGAGCAGTTGACCCG	0.612													11	183					0	0	0.008291	0	0		T	287537	T	T	287537	3	4	157	1	0	0	0	0	1	0	0	0	12311	710	25	2	463	2	PPAP2C	19	287537	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	29	287537	58841446	1237	86797											
FGF22	27006	broad.mit.edu	37	chr19	643535	643535	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgctggacaggagggggggGccccggccaggcggccggac	5	1	22	13	4	0	0	0	0	0	0	0	3	0	3	4	10	0	1	4	10	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:643535G>C	uc010xfq.1	+	3	444	c.444G>C	c.(442-444)GGG>GGC	p.G148G	FGF22_uc010xfr.1_Missense_Mutation_p.A141P	NM_020637	NP_065688	Q9HCT0	FGF22_HUMAN	fibroblast growth factor 22 precursor	148					cell differentiation|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular space	growth factor activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAggggggggccccggccag	0.572													2	4					0	0	0.004672	0	0		C	643535	C	C	643535	2	2	157	1	0	0	0	0	0	0	0	1	5865	1190	42	5		5	FGF22	19	643535	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	355998	643535	58485448	1238	86798											
FSTL3	10272	broad.mit.edu	37	chr19	681536	681536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggccgctccatcggcGtgcgccacgcgggcagctgc	3	6	15	17	6	0	0	0	0	0	0	3	0	2	0	4	3	3	3	4	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:681536G>A	uc002lpk.1	+	4	744	c.709G>A	c.(709-711)GTG>ATG	p.V237M	FSTL3_uc010drt.1_RNA	NM_005860	NP_005851	O95633	FSTL3_HUMAN	follistatin-like 3 glycoprotein precursor	237	Kazal-like 2.				hemopoietic progenitor cell differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of osteoclast differentiation|ossification|positive regulation of cell-cell adhesion|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	extracellular space|nucleus	activin binding|fibronectin binding				0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCATCGGCGTGCGCCACGC	0.697			T	CCND1	B-CLL								5	12					0	0	0.000602	0	0		A	681536	A	A	681536	3	1	157	1	0	0	0	0	1	0	0	0	6092	1145	40	1	723	1	FSTL3	19	681536	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	38001	681536	58447447	1239	86799											
GRIN3B	116444	broad.mit.edu	37	chr19	1004645	1004645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacccacggggcgccccggCctgggccacggtgggcagct	4	3	18	16	4	0	0	0	0	0	0	0	1	0	1	5	7	1	2	5	7	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:1004645C>T	uc002lqo.1	+	3	1145	c.1145C>T	c.(1144-1146)GCC>GTC	p.A382V		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	382	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	GGCGCCCCGGCCTGGGCCACG	0.736													3	7					0	0	0.001168	0	0		T	1004645	T	T	1004645	3	4	157	1	0	0	0	0	1	0	0	0	6800	739	26	2	1155	2	GRIN3B	19	1004645	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	323109	1004645	58124338	1240	86800											
APC2	10297	broad.mit.edu	37	chr19	1468467	1468467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcctgtccttcgtatccGggctgtcagtgggatccacc	5	11	10	15	2	1	0	1	0	0	0	6	1	5	1	6	2	0	2	6	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:1468467G>A	uc002lsr.1	+	15	5375	c.5167G>A	c.(5167-5169)GGG>AGG	p.G1723R	APC2_uc002lss.1_Missense_Mutation_p.G1305R|APC2_uc002lst.1_Missense_Mutation_p.G1723R|APC2_uc002lsu.1_Missense_Mutation_p.G1722R|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	1723					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTCGTATCCGGGCTGTCAGT	0.657													3	26					0	0	0.004672	0	0		A	1468467	A	A	1468467	3	1	157	1	0	0	0	0	1	0	0	0	764	1116	39	1	5221	1	APC2	19	1468467	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	463822	1468467	57660516	1241	86801											
TCF3	6929	broad.mit.edu	37	chr19	1619109	1619109	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcccaagctcaagggcttaCcactgtaggagtcgggaggc	9	7	14	11	1	1	0	1	0	0	0	3	2	2	2	2	4	2	3	2	4	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:1619109C>T	uc002ltr.2	-	16	1517	c.1450_splice	c.e16+1	p.G484_splice	TCF3_uc002lto.2_Splice_Site_p.G245_splice|TCF3_uc002ltt.3_Splice_Site_p.G484_splice|TCF3_uc002ltq.2_Splice_Site_p.G433_splice|TCF3_uc002lts.1_Splice_Site_p.G400_splice	NM_003200	NP_003191	P15923	TFE2_HUMAN	transcription factor 3 isoform E12						B cell lineage commitment|B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			lung(2)|breast(2)|ovary(1)|large_intestine(1)|skin(1)	7		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)		CAAGGGCTTACCACTGTAGGA	0.657			T	PBX1|HLF|TFPT	pre B-ALL								9	63					0	0	0.006214	0	0		T	1619109	T	T	1619109	5	4	157	1	0	0	0	0	0	0	1	0	15719	521	18	4	760	4	TCF3	19	1619109	Splice_Site	SNP	C	TCGA-CG-5728-01A-11D-1600-08	150642	1619109	57509874	1242	86802											
SLC39A3	29985	broad.mit.edu	37	chr19	2737213	2737213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcagcatgaagaagaacaCgcccaccatgcacaggattt	15	5	10	11	1	0	3	0	1	0	2	0	5	0	4	2	1	4	3	2	1	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:2737213C>T	uc002lwg.2	-	2	297	c.43G>A	c.(43-45)GTG>ATG	p.V15M	SLC39A3_uc010xgy.1_Missense_Mutation_p.V15M|SLC39A3_uc002lwh.2_Missense_Mutation_p.V15M	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	15	Helical; (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGAAGAACACGCCCACCATG	0.557													4	43					0	0	0.000602	0	0		T	2737213	T	T	2737213	3	4	157	1	0	0	0	0	1	0	0	0	14644	536	19	1	1017	1	SLC39A3	19	2737213	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1118104	2737213	56391770	1243	86803											
ZNF556	80032	broad.mit.edu	37	chr19	2877353	2877353	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagaaagactcgaaattgtAatcgtcatctgcgcaagaat	15	10	8	8	3	3	3	2	0	1	3	5	4	3	3	0	0	1	2	0	0	5	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:2877353A>G	uc002lwp.1	+	4	484	c.397A>G	c.(397-399)AAT>GAT	p.N133D	ZNF556_uc002lwq.2_Missense_Mutation_p.N132D	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	133					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCGAAATTGTAATCGTCATCT	0.423													24	101					0	0	0.014323	0	0		G	2877353	G	G	2877353	3	3	157	1	0	0	0	0	1	0	0	0	18012	362	13	3	411	3	ZNF556	19	2877353	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	140140	2877353	56251630	1244	86804											
NFIC	4782	broad.mit.edu	37	chr19	3382066	3382066	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggcggacaaggtgtggcgGctggacctggtcatggtcat	7	8	17	9	2	2	0	2	0	0	0	2	2	2	2	1	8	0	1	1	8	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:3382066G>A	uc010xhi.1	+	2	449	c.387G>A	c.(385-387)CGG>CGA	p.R129R	NFIC_uc002lxo.2_Silent_p.R120R|NFIC_uc010xhh.1_Silent_p.R120R|NFIC_uc002lxp.2_Silent_p.R129R|NFIC_uc010xhj.1_Silent_p.R129R|NFIC_uc002lxq.1_Silent_p.R81R	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	129	CTF/NF-I.				DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		AGGTGTGGCGGCTGGACCTGG	0.672													27	79					0	0	0.00632	0	0		A	3382066	A	A	3382066	2	1	157	1	0	0	0	0	0	0	0	1	10391	1190	42	2		2	NFIC	19	3382066	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	504713	3382066	55746917	1245	86805											
ZFR2	23217	broad.mit.edu	37	chr19	3834969	3834969	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtgggcaggggaagggtCggaggctgggcgctagaacc	9	4	20	8	2	0	1	0	0	0	1	1	3	0	3	1	7	1	3	1	7	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:3834969C>T	uc002lyw.2	-	2	78	c.66G>A	c.(64-66)CCG>CCA	p.P22P	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	22						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		GGGGAAGGGTCGGAGGCTGGG	0.627													5	16					0	0	0.001984	0	0		T	3834969	T	T	3834969	2	4	157	1	0	0	0	0	0	0	0	1	17685	871	31	1		1	ZFR2	19	3834969	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	452903	3834969	55294014	1246	86806											
PIAS4	51588	broad.mit.edu	37	chr19	4024034	4024034	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaccccgtgtttgtcttcagTcccacagaacaacgagaagc	11	8	9	13	2	2	2	1	0	1	2	3	4	3	2	3	0	3	1	3	0	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:4024034T>C	uc002lzg.2	+	3	465	c.455T>C	c.(454-456)GTC>GCC	p.V152A		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	152	PINIT.				positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGTCTTCAGTCCCACAGAAC	0.607													7	50					0	0	0.004482	0	0		C	4024034	C	C	4024034	3	2	157	1	0	0	0	0	1	0	0	0	11897	1681	58	3	465	3	PIAS4	19	4024034	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	189065	4024034	55104949	1247	86807											
SH3GL1	6455	broad.mit.edu	37	chr19	4361746	4361746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccagctccccgtcgttctCgggctcgaagtcgtacagcg	5	8	12	16	6	1	0	0	0	1	0	6	1	2	0	3	1	3	4	3	1	2	2	rs146842065		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:4361746C>T	uc002maj.2	-	10	1064	c.958G>A	c.(958-960)GAG>AAG	p.E320K	SH3GL1_uc002mak.2_Missense_Mutation_p.E256K|SH3GL1_uc010xig.1_Missense_Mutation_p.E272K	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	320	SH3.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		CCGTCGTTCTCGGGCTCGAAG	0.687			T	MLL	AL								17	43					0	0	0.008871	0	0		T	4361746	T	T	4361746	3	4	157	1	0	0	0	0	1	0	0	0	14275	893	31	1	152	1	SH3GL1	19	4361746	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	337712	4361746	54767237	1248	86808											
SH3GL1	6455	broad.mit.edu	37	chr19	4361778	4361778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtacagcgccttgcagctcGgctggtccaggggcgctggg	4	7	17	13	4	0	0	0	0	0	0	2	0	1	0	2	5	4	5	2	5	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:4361778G>A	uc002maj.2	-	10	1032	c.926C>T	c.(925-927)CCG>CTG	p.P309L	SH3GL1_uc002mak.2_Missense_Mutation_p.P245L|SH3GL1_uc010xig.1_Missense_Mutation_p.P261L	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	309	SH3.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		CTTGCAGCTCGGCTGGTCCAG	0.677			T	MLL	AL								4	34					0	0	0.009096	0	0		A	4361778	A	A	4361778	3	1	157	1	0	0	0	0	1	0	0	0	14275	1116	39	1	184	1	SH3GL1	19	4361778	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	32	4361778	54767205	1249	86809											
CHAF1A	10036	broad.mit.edu	37	chr19	4428859	4428859	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtccggacccacgcacgttTccacccggaatgcagatatt	9	8	10	14	4	0	1	0	0	0	1	2	3	2	3	4	3	1	3	4	3	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:4428859T>C	uc002mal.2	+	8	1676	c.1576T>C	c.(1576-1578)TCC>CCC	p.S526P		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	526					cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding	p.S526F(1)		ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CACGCACGTTTCCACCCGGAA	0.602								Chromatin_Structure					14	52					0	0	0.003163	0	0		C	4428859	C	C	4428859	3	2	157	1	0	0	0	0	1	0	0	0	3314	1783	62	3	1606	3	CHAF1A	19	4428859	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	67081	4428859	54700124	1250	86810											
PLIN4	729359	broad.mit.edu	37	chr19	4511362	4511362	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggccactttcgcagcaccGgtcaccccactgccaagggt	7	8	10	16	2	1	0	1	0	0	0	2	0	1	0	5	3	2	2	5	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:4511362G>A	uc002mar.1	-	3	2568	c.2568C>T	c.(2566-2568)ACC>ACT	p.T856T	PLIN4_uc010dub.1_Intron	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	856	27 X 33 AA approximate tandem repeat.|24.					lipid particle|plasma membrane					0						TCGCAGCACCGGTCACCCCAC	0.587													32	121					0	0	0.013726	0	0		A	4511362	A	A	4511362	2	1	157	1	0	0	0	0	0	0	0	1	12111	1103	39	1		1	PLIN4	19	4511362	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	82503	4511362	54617621	1251	86811											
KDM4B	23030	broad.mit.edu	37	chr19	5047640	5047640	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccgaggacatggacctgTacagcatcaactacctgcac	13	6	8	14	1	1	0	1	0	0	0	1	3	1	2	3	2	5	3	3	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:5047640T>C	uc002mbq.3	+	6	812	c.586T>C	c.(586-588)TAC>CAC	p.Y196H	KDM4B_uc010xil.1_Missense_Mutation_p.Y196H|KDM4B_uc010xim.1_Missense_Mutation_p.Y196H	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	196	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CATGGACCTGTACAGCATCAA	0.632													13	82					0	0	0.013537	0	0		C	5047640	C	C	5047640	3	2	157	1	0	0	0	0	1	0	0	0	8145	1638	57	3	600	3	KDM4B	19	5047640	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	536278	5047640	54081343	1252	86812											
SAFB2	9667	broad.mit.edu	37	chr19	5587937	5587937	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatggcaccctgccaggcGcgtgcctggtgctcctctag	4	9	12	16	2	1	0	0	0	1	0	3	0	3	0	5	3	3	2	5	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:5587937G>A	uc002mcd.2	-	19	2792	c.2580C>T	c.(2578-2580)CGC>CGT	p.R860R		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	860	Interacts with SAFB1.|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CCTGCCAGGCGCGTGCCTGGT	0.662													5	11					0	0	0.000602	0	0		A	5587937	A	A	5587937	2	1	157	1	0	0	0	0	0	0	0	1	13832	1074	38	1		1	SAFB2	19	5587937	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	540297	5587937	53541046	1253	86813											
DENND1C	79958	broad.mit.edu	37	chr19	6475354	6475354	+	Silent	SNP	C	T	T	0	0	0	1	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	gctttgaggaagagacgggaCaccccttccccgggggccag	8	5	15	13	2	0	2	0	1	0	1	1	5	1	4	5	4	0	1	5	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:6475354C>T	uc002mfe.2	-	14	1076	c.984G>A	c.(982-984)GTG>GTA	p.V328V	DENND1C_uc002mfb.2_5'UTR|DENND1C_uc002mfc.2_5'UTR|DENND1C_uc002mfd.2_5'UTR|DENND1C_uc010xje.1_Silent_p.V284V	NM_024898	NP_079174	Q8IV53	DEN1C_HUMAN	DENN/MADD domain containing 1C	328	dDENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1						AGAGACGGGACACCCCTTCCC	0.701													4	25					0	0	0.009096	0	0		T	6475354	T	T	6475354	2	4	157	1	0	0	0	0	0	0	0	1	4434	465	17	4		4	DENND1C	19	6475354	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	887417	6475354	52653629	1254	86814											
C3	718	broad.mit.edu	37	chr19	6678248	6678248	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttcagggcttctctgcactTgatggggctgatgaacgtgc	6	12	13	10	1	2	3	1	3	1	0	3	3	2	3	0	3	3	3	0	3	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:6678248T>C	uc002mfm.2	-	40	4827	c.4765A>G	c.(4765-4767)AAG>GAG	p.K1589E	C3_uc002mfl.2_Missense_Mutation_p.K325E	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1589	NTR.				complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TCTCTGCACTTGATGGGGCTG	0.582													19	66					0	0	0.006122	0	0		C	6678248	C	C	6678248	3	2	157	1	0	0	0	0	1	0	0	0	2207	1821	63	3	234	3	C3	19	6678248	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	202894	6678248	52450735	1255	86815											
C3	718	broad.mit.edu	37	chr19	6690640	6690640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagatggagggcacttacGttgacctgctcctcgcaaat	10	9	12	10	2	0	2	0	1	0	1	2	4	1	4	2	3	2	4	2	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:6690640G>A	uc002mfm.2	-	27	3551	c.3489C>T	c.(3487-3489)AAC>AAT	p.N1163N	C3_uc002mfl.2_5'UTR	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1163				N->A: No effect on binding of C3d to CR2. Impaired binding of C3d to CR2; when associated with 1108-R-R-1109.|N->R: Impaired binding of C3d to CR2.	complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		GGGCACTTACGTTGACCTGCT	0.537													11	83					0	0	0.013537	0	0		A	6690640	A	A	6690640	2	1	157	1	0	0	0	0	0	0	0	1	2207	1159	40	1		1	C3	19	6690640	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	12392	6690640	52438343	1256	86816											
ARHGEF18	23370	broad.mit.edu	37	chr19	7523449	7523449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agctcatcgtgagggaagtgGccaacgaggagaaagcgatg	13	5	16	7	3	1	2	1	1	0	1	2	6	1	3	1	3	3	1	1	3	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:7523449G>A	uc002mgi.2	+	9	1922	c.1669G>A	c.(1669-1671)GCC>ACC	p.A557T	ARHGEF18_uc010xjm.1_Missense_Mutation_p.A399T|ARHGEF18_uc002mgh.2_Missense_Mutation_p.A399T|ARHGEF18_uc002mgj.1_Missense_Mutation_p.A200T	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	557	PH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				GAGGGAAGTGGCCAACGAGGA	0.542													13	77					0	0	0.00245	0	0		A	7523449	A	A	7523449	3	1	157	1	0	0	0	0	1	0	0	0	901	1203	42	2	1703	2	ARHGEF18	19	7523449	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	832809	7523449	51605534	1257	86817											
MUC16	94025	broad.mit.edu	37	chr19	9049967	9049967	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaacagatggggttgtcCtgggaagagctgtgctggtt	9	11	16	5	0	0	3	0	1	0	2	1	4	1	4	1	4	3	4	1	4	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:9049967C>A	uc002mkp.2	-	5	31868	c.31664G>T	c.(31663-31665)AGG>ATG	p.R10555M		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10557	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGGGGTTGTCCTGGGAAGAGC	0.483													16	279					9.16793e-09	9.7514e-09	0.00499	1	0		A	9049967	A	A	9049967	3	1	157	1	0	0	0	0	1	0	0	0	9991	681	24	5	12179	5	MUC16	19	9049967	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1526518	9049967	50079016	1258	86818											
MUC16	94025	broad.mit.edu	37	chr19	9083647	9083647	+	Missense_Mutation	SNP	T	C	C	0	1	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	agggggaagtggaagaaggaTggagtggactttctgttact	11	10	17	3	0	1	1	0	0	1	1	1	6	1	6	0	6	1	1	0	6	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:9083647T>C	uc002mkp.2	-	1	8372	c.8168A>G	c.(8167-8169)CAT>CGT	p.H2723R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2723	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAAGAAGGATGGAGTGGACT	0.468													41	134					0	0	0.006999	0	0		C	9083647	C	C	9083647	3	2	157	1	0	0	0	0	1	0	0	0	9991	1464	51	3	35691	3	MUC16	19	9083647	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	33680	9083647	50045336	1259	86819											
SMARCA4	6597	broad.mit.edu	37	chr19	11097631	11097631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccctcgggcgtgccccccGggatgccaggccagcctcct	4	5	13	19	3	0	0	0	0	0	0	2	2	1	1	8	3	3	0	8	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:11097631G>A	uc002mqf.3	+	5	1095	c.811G>A	c.(811-813)GGG>AGG	p.G271R	SMARCA4_uc010dxp.2_Missense_Mutation_p.G271R|SMARCA4_uc010dxo.2_Missense_Mutation_p.G271R|SMARCA4_uc002mqg.1_Missense_Mutation_p.G271R|SMARCA4_uc010dxq.2_Missense_Mutation_p.G271R|SMARCA4_uc010dxr.2_Missense_Mutation_p.G271R|SMARCA4_uc002mqj.3_Missense_Mutation_p.G271R|SMARCA4_uc010dxs.2_Missense_Mutation_p.G271R|SMARCA4_uc002mqe.2_Missense_Mutation_p.G271R	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	271	Necessary for interaction with SS18L1/CREST (By similarity).				chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CGTGCCCCCCGGGATGCCAGG	0.617			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				8	53					0	0	0.008291	0	0		A	11097631	A	A	11097631	3	1	157	1	0	0	0	0	1	0	0	0	14795	1116	39	1	825	1	SMARCA4	19	11097631	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2013984	11097631	48031352	1260	86820											
RGL3	57139	broad.mit.edu	37	chr19	11527510	11527510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttatggttcgctactgacCcgggaggtgggggcggtggc	4	9	20	8	3	0	1	0	1	0	0	1	2	0	2	1	8	1	3	1	8	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:11527510C>T	uc002mrp.2	-	3	435	c.371G>A	c.(370-372)GGG>GAG	p.G124E	RGL3_uc002mrn.2_5'UTR|RGL3_uc002mrm.2_5'UTR|RGL3_uc002mro.2_Missense_Mutation_p.G124E|RGL3_uc002mrq.2_Missense_Mutation_p.G124E	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	124	N-terminal Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CGCTACTGACCCGGGAGGTGG	0.622													9	59					0	0	0.010504	0	0		T	11527510	T	T	11527510	3	4	157	1	0	0	0	0	1	0	0	0	13303	637	22	4	1847	4	RGL3	19	11527510	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	429879	11527510	47601473	1261	86821											
PRKCSH	5589	broad.mit.edu	37	chr19	11552119	11552119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcacccgcgaagggttcCgtctgaagaagatccttatt	10	10	11	10	3	2	3	1	1	1	2	4	4	4	3	3	2	0	1	3	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:11552119C>T	uc002mrt.2	+	6	751	c.415C>T	c.(415-417)CGT>TGT	p.R139C	PRKCSH_uc002mru.2_Missense_Mutation_p.R139C|PRKCSH_uc010xlz.1_Missense_Mutation_p.R139C|PRKCSH_uc010dya.2_Silent_p.S107S|PRKCSH_uc002mrv.1_Missense_Mutation_p.R139C|PRKCSH_uc010dyb.2_Missense_Mutation_p.R139C	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	139					innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						CGAAGGGTTCCGTCTGAAGAA	0.627													42	179					0	0	0.006999	0	0		T	11552119	T	T	11552119	3	4	157	1	0	0	0	0	1	0	0	0	12538	652	23	1	433	1	PRKCSH	19	11552119	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	24609	11552119	47576864	1262	86822											
RAD23A	5886	broad.mit.edu	37	chr19	13063564	13063564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagccccctggggagctggCggacatctcagatgtggagg	7	6	17	11	2	1	1	1	0	1	1	2	5	1	4	2	6	2	1	2	6	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:13063564C>T	uc002mvw.1	+	8	984	c.875C>T	c.(874-876)GCG>GTG	p.A292V	RAD23A_uc002mvx.1_Missense_Mutation_p.A291V|RAD23A_uc002mvz.1_Missense_Mutation_p.A291V|RAD23A_uc002mwa.1_Intron|RAD23A_uc002mvy.1_Missense_Mutation_p.A126V|RAD23A_uc010xmw.1_Missense_Mutation_p.A127V	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	292					interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						GGGGAGCTGGCGGACATCTCA	0.602								NER					14	49					0	0	0.004007	0	0		T	13063564	T	T	13063564	3	4	157	1	0	0	0	0	1	0	0	0	13007	768	27	1	905	1	RAD23A	19	13063564	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1511445	13063564	46065419	1263	86823											
OR7C1	26664	broad.mit.edu	37	chr19	14910551	14910551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgggggttcatgatgaccGtatagtgcagggggtgacag	8	9	18	6	1	1	3	1	3	0	0	1	3	1	3	1	4	1	4	1	4	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:14910551G>A	uc010xnz.1	-	1	398	c.398C>T	c.(397-399)ACG>ATG	p.T133M		NM_198944	NP_945182	O76099	OR7C1_HUMAN	olfactory receptor, family 7, subfamily C,	133	Cytoplasmic (Potential).				sensory perception of smell|spermatogenesis	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						CATGATGACCGTATAGTGCAG	0.522													28	123					0	0	0.005443	0	0		A	14910551	A	A	14910551	3	1	157	1	0	0	0	0	1	0	0	0	11236	1145	40	1	566	1	OR7C1	19	14910551	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1846987	14910551	44218432	1264	86824											
CYP4F3	4051	broad.mit.edu	37	chr19	15752380	15752380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgcctccggtgtttccCgcaacccccgaaacggaatt	7	8	9	17	5	0	0	0	0	0	0	2	2	2	1	6	2	3	2	6	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:15752380C>T	uc002nbj.2	+	2	205	c.155C>T	c.(154-156)CCG>CTG	p.P52L	CYP4F3_uc010xok.1_Missense_Mutation_p.P52L|CYP4F3_uc010xol.1_Missense_Mutation_p.P52L|CYP4F3_uc010xom.1_5'UTR|CYP4F3_uc002nbk.2_Missense_Mutation_p.P52L	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	52					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						CGGTGTTTCCCGCAACCCCCG	0.637													13	77					0	0	0.003163	0	0		T	15752380	T	T	15752380	3	4	157	1	0	0	0	0	1	0	0	0	4193	652	23	1	157	1	CYP4F3	19	15752380	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	841829	15752380	43376603	1265	86825											
OR10H2	26538	broad.mit.edu	37	chr19	15839703	15839703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacctacgcagtcctcacgCccttcctcagccccatcatc	7	8	4	22	2	3	0	3	0	0	0	6	0	5	0	7	0	2	1	7	0	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:15839703C>T	uc002nbm.2	+	1	870	c.850C>T	c.(850-852)CCC>TCC	p.P284S		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	284	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					AGTCCTCACGCCCTTCCTCAG	0.552													7	112					0	0	0.004482	0	0		T	15839703	T	T	15839703	3	4	157	1	0	0	0	0	1	0	0	0	10925	739	26	2	852	2	OR10H2	19	15839703	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	87323	15839703	43289280	1266	86826											
CYP4F2	8529	broad.mit.edu	37	chr19	16003188	16003188	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgttgaaatggaaggcaggCgtcagcatccgacggtggcg	10	7	16	8	4	1	1	1	1	0	0	2	3	2	2	1	5	1	3	1	5	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:16003188C>T	uc002nbs.1	-	5	506	c.456G>A	c.(454-456)ACG>ACA	p.T152T	CYP4F2_uc010xot.1_Silent_p.T3T|CYP4F2_uc010xou.1_Silent_p.T3T	NM_001082	NP_001073	P78329	CP4F2_HUMAN	cytochrome P450, family 4, subfamily F,	152					leukotriene metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding|protein binding			ovary(1)|skin(1)	2						GGAAGGCAGGCGTCAGCATCC	0.552													17	113					0	0	0.006122	0	0		T	16003188	T	T	16003188	2	4	157	1	0	0	0	0	0	0	0	1	4191	755	27	1		1	CYP4F2	19	16003188	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	163485	16003188	43125795	1267	86827											
CHERP	10523	broad.mit.edu	37	chr19	16632356	16632356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggcctgtcgtgggacGgggggctgtagaaggcctcc	4	8	18	11	2	0	1	0	0	0	1	3	2	2	2	4	6	0	2	4	6	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:16632356G>A	uc002nei.1	-	12	2164	c.2090C>T	c.(2089-2091)CCG>CTG	p.P697L	MED26_uc002nee.2_Intron|CHERP_uc010xpg.1_Missense_Mutation_p.P236L	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	697					cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						GTCGTGGGACGGGGGGCTGTA	0.667													3	12					0	0	0.004672	0	0		A	16632356	A	A	16632356	3	1	157	1	0	0	0	0	1	0	0	0	3339	1116	39	1	684	1	CHERP	19	16632356	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	629168	16632356	42496627	1268	86828											
MED26	9441	broad.mit.edu	37	chr19	16689216	16689216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaccgccaccatgttcCggatctgtggaaataaaaag	13	7	9	12	2	1	0	0	0	1	0	2	2	2	2	5	2	1	2	5	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:16689216C>T	uc002nen.1	-	2	338	c.77G>A	c.(76-78)CGG>CAG	p.R26Q	MED26_uc002nee.2_RNA	NM_004831	NP_004822	O95402	MED26_HUMAN	mediator complex subunit 26	26	TFIIS N-terminal.				regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|RNA polymerase II transcription cofactor activity|transcription coactivator activity			ovary(2)	2						CACCATGTTCCGGATCTGTGG	0.557													21	68					0	0	0.00632	0	0		T	16689216	T	T	16689216	3	4	157	1	0	0	0	0	1	0	0	0	9462	652	23	1	1733	1	MED26	19	16689216	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	56860	16689216	42439767	1269	86829											
NWD1	284434	broad.mit.edu	37	chr19	16874647	16874647	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctctgccaggtggccccGcagcctctgtggttctcaca	4	10	10	17	1	3	0	1	0	3	0	5	0	4	0	5	3	2	2	5	3	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:16874647G>A	uc002neu.3	+	9	2564	c.2142G>A	c.(2140-2142)CCG>CCA	p.P714P	NWD1_uc002net.3_Silent_p.P579P|NWD1_uc002nev.3_Silent_p.P508P			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	714							ATP binding			skin(3)|ovary(2)|pancreas(2)	7						AGGTGGCCCCGCAGCCTCTGT	0.572													19	77					0	0	0.008871	0	0		A	16874647	A	A	16874647	2	1	157	1	0	0	0	0	0	0	0	1	10800	1074	38	1		1	NWD1	19	16874647	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	185431	16874647	42254336	1270	86830											
PLVAP	83483	broad.mit.edu	37	chr19	17476311	17476311	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttctccaccttctgtttCgcctcctgactggcccgcag	3	13	7	18	2	2	1	0	1	2	0	6	1	4	1	6	1	0	2	6	1	0	3	rs150210307		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:17476311C>T	uc002ngk.1	-	3	1013	c.963G>A	c.(961-963)GCG>GCA	p.A321A		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	321	Potential.|Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						CCTTCTGTTTCGCCTCCTGAC	0.667													14	56					0	0	0.004007	0	0		T	17476311	T	T	17476311	2	4	157	1	0	0	0	0	0	0	0	1	12135	871	31	1		1	PLVAP	19	17476311	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	601664	17476311	41652672	1271	86831											
KIAA1683	80726	broad.mit.edu	37	chr19	18368203	18368203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgctttgtcctggcgatgCggctgcctgggactcagggc	3	9	16	13	3	1	0	1	0	0	0	2	2	2	1	3	4	2	2	3	4	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:18368203C>T	uc002nin.2	-	4	3546	c.3330G>A	c.(3328-3330)CCG>CCA	p.P1110P	PDE4C_uc002nil.3_5'Flank|KIAA1683_uc010ebn.2_Silent_p.P1297P|KIAA1683_uc010xqe.1_Silent_p.P1064P|KIAA1683_uc010xqf.1_RNA	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	1110						mitochondrion				ovary(2)	2						CCTGGCGATGCGGCTGCCTGG	0.662													5	23					0	0	0.000602	0	0		T	18368203	T	T	18368203	2	4	157	1	0	0	0	0	0	0	0	1	8267	755	27	1		1	KIAA1683	19	18368203	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	891892	18368203	40760780	1272	86832											
KIAA1683	80726	broad.mit.edu	37	chr19	18368702	18368702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgccacagccggatcctgCgacgcgccaggtagccacgg	7	4	15	15	5	0	0	0	0	0	0	1	2	1	1	5	4	4	1	5	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:18368702C>T	uc002nin.2	-	4	3047	c.2831G>A	c.(2830-2832)CGC>CAC	p.R944H	PDE4C_uc002nil.3_5'Flank|KIAA1683_uc010ebn.2_Missense_Mutation_p.R1131H|KIAA1683_uc010xqe.1_Missense_Mutation_p.R898H|KIAA1683_uc010xqf.1_RNA	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	944	IQ 2.					mitochondrion				ovary(2)	2						CCGGATCCTGCGACGCGCCAG	0.672													6	51					0	0	0.00308	0	0		T	18368702	T	T	18368702	3	4	157	1	0	0	0	0	1	0	0	0	8267	768	27	1	715	1	KIAA1683	19	18368702	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	499	18368702	40760281	1273	86833											
ZNF101	94039	broad.mit.edu	37	chr19	19790992	19790992	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	aaaccctttgattgtaaacaGtgtggtaaagtctttacttt	12	16	7	6	0	1	1	0	1	1	0	1	1	1	1	1	1	3	2	1	1	6	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:19790992G>C	uc002nni.1	+	4	1304	c.1194G>C	c.(1192-1194)CAG>CAC	p.Q398H	ZNF101_uc010ecg.1_Missense_Mutation_p.Q278H|ZNF101_uc002nnj.1_Missense_Mutation_p.Q278H	NM_033204	NP_149981	Q8IZC7	ZN101_HUMAN	zinc finger protein 101	398	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ATTGTAAACAGTGTGGTAAAG	0.348													17	67					0	0	0.00499	0	0		C	19790992	C	C	19790992	3	2	157	1	0	0	0	0	1	0	0	0	17739	1020	36	5	1208	5	ZNF101	19	19790992	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1422290	19790992	39337991	1274	86834											
ZNF676	163223	broad.mit.edu	37	chr19	22363169	22363169	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttgccacattcttcacaTttgtagggtttctctccagc	6	16	7	12	0	3	0	1	0	2	0	5	0	4	0	2	1	2	3	2	1	1	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:22363169T>C	uc002nqs.1	-	3	1668	c.1350A>G	c.(1348-1350)AAA>AAG	p.K450K		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	450	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				ATTCTTCACATTTGTAGGGTT	0.438													18	238					0	0	0.007413	0	0		C	22363169	C	C	22363169	2	2	157	1	0	0	0	0	0	0	0	1	18108	1490	52	3		3	ZNF676	19	22363169	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2572177	22363169	36765814	1275	86835											
ZNF676	163223	broad.mit.edu	37	chr19	22363511	22363511	+	Silent	SNP	G	A	A																															ccgcattcttcacatttgtaGggtttctctccagcatgaat																										TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:22363511G>A	uc002nqs.1	-	3	1326	c.1008C>T	c.(1006-1008)CCC>CCT	p.P336P		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	336					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CACATTTGTAGGGTTTCTCTC	0.408													8	212					0	0	0.014323	0	0		A	22363511	A	A	22363511	2	1	157	1	0	0	0	0	0	0	0	1	18108	987	35	4		4	ZNF676	19	22363511	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	342	22363511	36765472	1276	86836	161	2									
ZNF676	163223	broad.mit.edu	37	chr19	22363521	22363521	+	Missense_Mutation	SNP	C	G	G																															cacatttgtagggtttctctCcagcatgaattctcttgtgt																										TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:22363521C>G	uc002nqs.1	-	3	1316	c.998G>C	c.(997-999)GGA>GCA	p.G333A		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	333					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GGGTTTCTCTCCAGCATGAAT	0.403													5	217					0	0	0.00278	0	0		G	22363521	G	G	22363521	3	3	157	1	0	0	0	0	1	0	0	0	18108	855	30	5	772	5	ZNF676	19	22363521	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	10	22363521	36765462	1277	86837	161	2									
ZNF676	163223	broad.mit.edu	37	chr19	22375886	22375886	+	Missense_Mutation	SNP	A	T	T	1	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	ttccttgctccagaaaaatgAtcaggtctggcttaaaggca	12	11	9	9	0	2	2	1	1	1	1	4	2	4	2	2	3	1	3	2	3	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:22375886A>T	uc002nqs.1	-	2	380	c.62T>A	c.(61-63)ATC>AAC	p.I21N		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	21	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				CAGAAAAATGATCAGGTCTGG	0.403													9	145					0	0	0.008291	0	0		T	22375886	T	T	22375886	3	4	157	1	0	0	0	0	1	0	0	0	18108	333	12	5	1712	5	ZNF676	19	22375886	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	12365	22375886	36753097	1278	86838											
ZNF91	7644	broad.mit.edu	37	chr19	23543818	23543818	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttacatttgtagggtttctCtccagtatgaattctcttat	8	20	6	7	0	2	1	0	1	2	0	5	1	3	1	1	1	1	3	1	1	5	8			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:23543818C>G	uc002nre.2	-	4	2076	c.1963G>C	c.(1963-1965)GAG>CAG	p.E655Q	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Missense_Mutation_p.E623Q	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	655						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				TAGGGTTTCTCTCCAGTATGA	0.388													10	179					0	0	0.010729	0	0		G	23543818	G	G	23543818	3	3	157	1	0	0	0	0	1	0	0	0	18225	922	32	5	1616	5	ZNF91	19	23543818	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1167932	23543818	35585165	1279	86839											
ZNF681	148213	broad.mit.edu	37	chr19	23927062	23927062	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtttgaggattggttagaAgctttgccacatttttcaca	10	15	10	6	0	1	2	1	1	0	1	1	3	1	3	1	3	2	3	1	3	2	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:23927062A>C	uc002nrk.3	-	4	1432	c.1290T>G	c.(1288-1290)GCT>GCG	p.A430A	ZNF681_uc002nrl.3_Silent_p.A361A|ZNF681_uc002nrj.3_Silent_p.A361A	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	430	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				ATTGGTTAGAAGCTTTGCCAC	0.373													10	54					0	0	0.008291	0	0		C	23927062	C	C	23927062	2	2	157	1	0	0	0	0	0	0	0	1	18113	59	3	5		5	ZNF681	19	23927062	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	383244	23927062	35201921	1280	86840											
CCNE1	898	broad.mit.edu	37	chr19	30313408	30313408	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatggttccatttgccatGgttataagggagacggggag	9	11	16	5	1	0	1	0	0	0	1	1	4	1	3	2	6	1	2	2	6	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:30313408G>T	uc002nsn.2	+	11	1191	c.1008G>T	c.(1006-1008)ATG>ATT	p.M336I	CCNE1_uc002nso.2_Missense_Mutation_p.M321I|CCNE1_uc002nsp.2_Missense_Mutation_p.M83I	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	336					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			CATTTGCCATGGTTATAAGGG	0.502													38	166					4.32679e-17	4.75187e-17	0.006999	1	0		T	30313408	T	T	30313408	3	4	157	1	0	0	0	0	1	0	0	0	2923	1348	47	5	1046	5	CCNE1	19	30313408	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6386346	30313408	28815575	1281	86841											
MAG	4099	broad.mit.edu	37	chr19	35791095	35791095	+	Missense_Mutation	SNP	A	T	T	1	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	ctcctcggtggaggccatcgAgggctcccacgtgagcctgc	5	7	14	15	3	0	1	0	1	0	0	4	3	2	2	4	4	2	1	4	4	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:35791095A>T	uc002nyy.1	+	6	907	c.758A>T	c.(757-759)GAG>GTG	p.E253V	MAG_uc002nyx.1_Missense_Mutation_p.E253V|MAG_uc010eds.1_Missense_Mutation_p.E228V|MAG_uc002nyz.1_Missense_Mutation_p.E253V	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	253	Ig-like C2-type 2.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GAGGCCATCGAGGGCTCCCAC	0.682													3	9					0	0	0.004672	0	0		T	35791095	T	T	35791095	3	4	157	1	0	0	0	0	1	0	0	0	9180	304	11	5	772	5	MAG	19	35791095	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	5477687	35791095	23337888	1282	86842											
COX6B1	1340	broad.mit.edu	37	chr19	36149530	36149530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgagcaacgggctgaaggcaCgtttcccgggaagatctgaa	11	7	14	9	3	1	4	0	3	1	1	2	5	2	5	1	3	2	4	1	3	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:36149530C>T	uc002oav.2	+	4	404	c.242C>T	c.(241-243)ACG>ATG	p.T81M		NM_001863	NP_001854	P14854	CX6B1_HUMAN	cytochrome c oxidase subunit VIb polypeptide 1	81					respiratory electron transport chain	mitochondrial inner membrane|mitochondrial intermembrane space	cytochrome-c oxidase activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCTGAAGGCACGTTTCCCGGG	0.552													12	85					0	0	0.013537	0	0		T	36149530	T	T	36149530	3	4	157	1	0	0	0	0	1	0	0	0	3779	536	19	1	252	1	COX6B1	19	36149530	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	358435	36149530	22979453	1283	86843											
ARHGAP33	115703	broad.mit.edu	37	chr19	36276343	36276343	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acaccgtcacactgagatctGccaagagcgaggagtctctg	11	7	11	12	2	3	2	1	1	2	2	4	5	3	3	2	1	2	0	2	1	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:36276343G>A	uc002obr.1	+	19	1985	c.1900G>A	c.(1900-1902)GCC>ACC	p.A634T	ARHGAP33_uc002obs.1_Missense_Mutation_p.A634T|ARHGAP33_uc002obt.1_Missense_Mutation_p.A498T|ARHGAP33_uc010eel.2_Missense_Mutation_p.A222T|ARHGAP33_uc002obv.1_Missense_Mutation_p.A222T	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	634					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						ACTGAGATCTGCCAAGAGCGA	0.657													25	73					0	0	0.00632	0	0		A	36276343	A	A	36276343	3	1	157	1	0	0	0	0	1	0	0	0	882	1319	46	2	1974	2	ARHGAP33	19	36276343	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	126813	36276343	22852640	1284	86844											
ARHGAP33	115703	broad.mit.edu	37	chr19	36277956	36277956	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agatgtgcagcaagctccggGgagcccagggcccactcggt	8	5	15	13	2	0	1	0	0	0	1	2	2	1	2	3	4	4	3	3	4	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:36277956G>T	uc002obr.1	+	20	2669	c.2584G>T	c.(2584-2586)GGA>TGA	p.G862*	ARHGAP33_uc002obs.1_Nonsense_Mutation_p.G701*|ARHGAP33_uc002obt.1_Nonsense_Mutation_p.G726*|ARHGAP33_uc010eel.2_Nonsense_Mutation_p.G450*|ARHGAP33_uc002obv.1_Nonsense_Mutation_p.G450*	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	862					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CAAGCTCCGGGGAGCCCAGGG	0.701													3	22					0.004672	0.00474223	0.004672	1	0		T	36277956	T	T	36277956	4	4	157	1	0	0	0	0	0	1	0	0	882	1233	43	5	2662	5	ARHGAP33	19	36277956	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1613	36277956	22851027	1285	86845											
PRODH2	58510	broad.mit.edu	37	chr19	36293120	36293120	+	Missense_Mutation	SNP	T	C	C	0	1	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	tagagagacgtggtcacacaTgcccagaagttgtccgaaac	13	7	11	10	2	1	3	1	0	0	3	2	5	2	3	2	1	2	1	2	1	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:36293120T>C	uc002obx.1	-	10	1417	c.1399A>G	c.(1399-1401)ATG>GTG	p.M467V		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	467					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGGTCACACATGCCCAGAAGT	0.562													24	132					0	0	0.00333	0	0		C	36293120	C	C	36293120	3	2	157	1	0	0	0	0	1	0	0	0	12571	1464	51	3	219	3	PRODH2	19	36293120	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	15164	36293120	22835863	1286	86846											
APLP1	333	broad.mit.edu	37	chr19	36369799	36369799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctcccccaggtgaatgCgtctgttccaaggggtttcc	5	11	11	14	1	1	1	0	1	1	0	4	1	4	1	5	3	2	3	5	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:36369799C>T	uc002oce.2	+	15	1793	c.1655C>T	c.(1654-1656)GCG>GTG	p.A552V	APLP1_uc010xsz.1_Missense_Mutation_p.A513V|APLP1_uc002ocf.2_Missense_Mutation_p.A553V|APLP1_uc002ocg.2_Missense_Mutation_p.A456V|APLP1_uc010xta.1_Missense_Mutation_p.A546V	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	552	Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	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)			CAGGTGAATGCGTCTGTTCCA	0.527													10	161					0	0	0.006214	0	0		T	36369799	T	T	36369799	3	4	157	1	0	0	0	0	1	0	0	0	778	768	27	1	1716	1	APLP1	19	36369799	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	76679	36369799	22759184	1287	86847											
ZNF527	84503	broad.mit.edu	37	chr19	37871245	37871245	+	Missense_Mutation	SNP	A	C	C	1	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	gaaggaaccgtggatggtggAgagaaagatgtcacagggtc	13	6	17	5	1	1	2	1	0	0	2	2	7	1	5	1	5	1	0	1	5	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:37871245A>C	uc010efk.1	+	4	338	c.227A>C	c.(226-228)GAG>GCG	p.E76A	ZNF527_uc002ogf.3_Intron|ZNF527_uc010xtq.1_RNA|ZNF527_uc002oge.2_Missense_Mutation_p.E76A	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	76	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TGGATGGTGGAGAGAAAGATG	0.478													12	58					0	0	0.013537	0	0		C	37871245	C	C	37871245	3	2	157	1	0	0	0	0	1	0	0	0	17993	304	11	5	237	5	ZNF527	19	37871245	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1501446	37871245	21257738	1288	86848											
GGN	199720	broad.mit.edu	37	chr19	38876360	38876360	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgggcgcagccgcgggtgcGggcgcggacacaggcggcga	6	2	21	12	8	0	0	0	0	0	0	0	2	0	1	1	6	2	1	1	6	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:38876360G>A	uc002oij.1	-	3	1677	c.1542C>T	c.(1540-1542)CCC>CCT	p.P514P	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Silent_p.P431P	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	514	Interactions with ZNF403/GGNBP2 and OAZ3 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ccgcgggtgcgggcgcggaca	0.264													4	9					0	0	0.00308	0	0		A	38876360	A	A	38876360	2	1	157	1	0	0	0	0	0	0	0	1	6373	1103	39	1		1	GGN	19	38876360	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1005115	38876360	20252623	1289	86849											
SUPT5H	6829	broad.mit.edu	37	chr19	39964163	39964163	+	Splice_Site	SNP	T	C	C	0	1	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	accccaacacgccgtcacggTgagtccagggttccccaggt	8	6	11	16	3	1	1	1	1	0	0	3	1	3	1	6	3	1	1	6	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:39964163T>C	uc002olo.3	+	25	2671	c.2492_splice	c.e25+2	p.R831_splice	SUPT5H_uc002olp.3_Splice_Site_p.R831_splice|SUPT5H_uc002olq.3_Splice_Site_p.R827_splice|SUPT5H_uc002oln.3_Splice_Site_p.R831_splice|SUPT5H_uc002olr.3_Splice_Site_p.R831_splice|SUPT5H_uc002ols.1_Splice_Site_p.R454_splice	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a						cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GCCGTCACGGTGAGTCCAGGG	0.642													10	58					0	0	0.008291	0	0		C	39964163	C	C	39964163	5	2	157	1	0	0	0	0	0	0	1	0	15424	1710	59	3	2588	3	SUPT5H	19	39964163	Splice_Site	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1087803	39964163	19164820	1290	86850											
C19orf47	126526	broad.mit.edu	37	chr19	40832280	40832280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggatcttgcgggtgcGgggtgtggtgcctttgggca	3	11	18	9	2	1	0	0	0	1	0	2	1	2	1	2	6	3	1	2	6	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:40832280G>A	uc002oni.3	-	7	665	c.664C>T	c.(664-666)CGC>TGC	p.R222C	C19orf47_uc002ong.2_Missense_Mutation_p.R81C|C19orf47_uc002onh.2_Missense_Mutation_p.R155C	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	222										ovary(1)|skin(1)	2			Lung(22;0.000636)			TTGCGGGTGCGGGGTGTGGTG	0.637													24	60					0	0	0.00333	0	0		A	40832280	A	A	40832280	3	1	157	1	0	0	0	0	1	0	0	0	1933	1116	39	1	616	1	C19orf47	19	40832280	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	868117	40832280	18296703	1291	86851											
SPTBN4	57731	broad.mit.edu	37	chr19	40993644	40993644	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagaaaaccttcaccaagtgGgtgaactcgcacctcgcccg	12	6	9	14	3	1	2	1	1	0	1	3	2	1	2	4	1	2	1	4	1	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:40993644G>T	uc002ony.2	+	3	296	c.210G>T	c.(208-210)TGG>TGT	p.W70C	SPTBN4_uc002onx.2_Missense_Mutation_p.W70C|SPTBN4_uc002onz.2_Missense_Mutation_p.W70C	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	70	CH 1.|Actin-binding.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCACCAAGTGGGTGAACTCGC	0.652													10	50					1.58986e-06	1.67104e-06	0.008291	1	0		T	40993644	T	T	40993644	3	4	157	1	0	0	0	0	1	0	0	0	15146	1241	43	5	216	5	SPTBN4	19	40993644	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	161364	40993644	18135339	1292	86852											
SHKBP1	92799	broad.mit.edu	37	chr19	41086826	41086826	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgggctctgcaggcggaaggCggtggctccgagataggtat	7	8	18	8	3	1	1	0	0	1	1	2	3	2	2	1	7	1	4	1	7	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:41086826C>T	uc002oob.2	+	9	877	c.828C>T	c.(826-828)GGC>GGT	p.G276G	SHKBP1_uc002ooc.2_Silent_p.G276G|SHKBP1_uc002ood.2_Silent_p.G276G|SHKBP1_uc010xvl.1_Silent_p.G199G|SHKBP1_uc002ooe.2_Silent_p.G113G|SHKBP1_uc002oof.2_Silent_p.G113G|SHKBP1_uc010xvm.1_Silent_p.G113G|SHKBP1_uc010xvn.1_Silent_p.G154G	NM_138392	NP_612401	Q8TBC3	SHKB1_HUMAN	SH3KBP1 binding protein 1	276	WD 1.					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|pancreas(1)	2			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGGCGGAAGGCGGTGGCTCCG	0.547													10	110					0	0	0.008291	0	0		T	41086826	T	T	41086826	2	4	157	1	0	0	0	0	0	0	0	1	14309	755	27	1		1	SHKBP1	19	41086826	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	93182	41086826	18042157	1293	86853											
RABAC1	10567	broad.mit.edu	37	chr19	42462889	42462889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggcccgggaggcactcacaCacagtacaggatgaggccca	11	3	14	13	1	1	1	1	1	0	0	1	3	1	3	2	5	1	2	2	5	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:42462889C>T	uc002osf.2	-	2	352	c.268G>A	c.(268-270)GTG>ATG	p.V90M		NM_006423	NP_006414	Q9UI14	PRAF1_HUMAN	Rab acceptor 1	90	Helical; (By similarity).					cell junction|Golgi apparatus|integral to membrane|synaptic vesicle	identical protein binding				0						GGCACTCACACACAGTACAGG	0.353													3	14					0	0	0.004672	0	0		T	42462889	T	T	42462889	3	4	157	1	0	0	0	0	1	0	0	0	12985	492	17	4	305	4	RABAC1	19	42462889	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1376063	42462889	16666094	1294	86854											
ERF	2077	broad.mit.edu	37	chr19	42752808	42752808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtcttcactccagcgccGcttaaagcgtagcttgaggg	9	9	11	12	3	2	1	1	1	1	0	3	1	3	1	2	1	3	3	2	1	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:42752808G>A	uc002ote.3	-	4	1614	c.1456C>T	c.(1456-1458)CGG>TGG	p.R486W	ERF_uc002otd.3_Missense_Mutation_p.R217W	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	486					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				CTCCAGCGCCGCTTAAAGCGT	0.682													17	72					0	0	0.00499	0	0		A	42752808	A	A	42752808	3	1	157	1	0	0	0	0	1	0	0	0	5229	1086	38	1	194	1	ERF	19	42752808	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	289919	42752808	16376175	1295	86855											
ERF	2077	broad.mit.edu	37	chr19	42752834	42752834	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtagcttgaggggcatgCactgggatgccccgggtgcc	6	7	17	11	2	0	1	0	1	0	0	0	2	0	2	3	4	5	4	3	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:42752834C>T	uc002ote.3	-	4	1588	c.1430G>A	c.(1429-1431)TGC>TAC	p.C477Y	ERF_uc002otd.3_Missense_Mutation_p.C208Y	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	477					cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				GAGGGGCATGCACTGGGATGC	0.662													17	87					0	0	0.004007	0	0		T	42752834	T	T	42752834	3	4	157	1	0	0	0	0	1	0	0	0	5229	710	25	2	220	2	ERF	19	42752834	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	26	42752834	16376149	1296	86856											
MEGF8	1954	broad.mit.edu	37	chr19	42848707	42848707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcaccctgggctggtgcGtgcacaatgagagctgcctc	6	8	14	13	1	0	1	0	1	0	1	1	2	0	1	2	3	4	4	2	3	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:42848707G>A	uc002otl.3	+	11	2538	c.1903G>A	c.(1903-1905)GTG>ATG	p.V635M	MEGF8_uc002otm.3_Missense_Mutation_p.V176M	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	675	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GGGCTGGTGCGTGCACAATGA	0.721													10	19					0	0	0.001855	0	0		A	42848707	A	A	42848707	3	1	157	1	0	0	0	0	1	0	0	0	9481	1145	40	1	1945	1	MEGF8	19	42848707	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	95873	42848707	16280276	1297	86857											
LIPE	3991	broad.mit.edu	37	chr19	42914843	42914843	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggccggctccagccccagCgcctgctcccgtacaccggc	5	4	12	20	4	0	0	0	0	0	0	2	0	2	0	7	3	4	3	7	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:42914843C>T	uc002otr.2	-	2	1312	c.1035G>A	c.(1033-1035)GCG>GCA	p.A345A	uc010eif.1_Intron|LIPE_uc002ots.1_Silent_p.A90A	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	345					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CCAGCCCCAGCGCCTGCTCCC	0.667													6	14					0	0	0.00308	0	0		T	42914843	T	T	42914843	2	4	157	1	0	0	0	0	0	0	0	1	8838	755	27	1		1	LIPE	19	42914843	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	66136	42914843	16214140	1298	86858											
PSG1	5669	broad.mit.edu	37	chr19	43372462	43372462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagaggacttctcctgaaCggtaataggtgaatgaaggg	13	9	14	5	1	1	4	0	3	1	1	2	5	1	5	1	4	1	2	1	4	6	4	rs1058748		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:43372462C>T	uc002ovb.2	-	5	1172	c.1034G>A	c.(1033-1035)CGT>CAT	p.R345H	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG1_uc002oun.2_Intron|PSG1_uc002our.1_Missense_Mutation_p.R345H|PSG1_uc010eio.1_Missense_Mutation_p.R345H|PSG1_uc002oux.1_Missense_Mutation_p.R274H|PSG1_uc002ouy.1_Missense_Mutation_p.R252H|PSG1_uc002ouz.1_Missense_Mutation_p.R345H|PSG1_uc002ova.1_Missense_Mutation_p.R252H|PSG1_uc002ovc.2_Missense_Mutation_p.R252H|PSG1_uc002ovd.1_Missense_Mutation_p.R345H	NM_006905	NP_008836	P11464	PSG1_HUMAN	pregnancy specific beta-1-glycoprotein 1	345	Ig-like C2-type 3.				female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)				TTCTCCTGAACGGTAATAGGT	0.468													31	123					0	0	0.01441	0	0		T	43372462	T	T	43372462	3	4	157	1	0	0	0	0	1	0	0	0	12675	536	19	1	286	1	PSG1	19	43372462	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	457619	43372462	15756521	1299	86859											
IRGQ	126298	broad.mit.edu	37	chr19	44096566	44096568	+	In_Frame_Del	DEL	GCC	-	-																															agcccagccctgggagtggtGccgccgccgccgccagacta																										TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:44096566_44096568delGCC	uc002oww.2	-	2	1600_1602	c.1482_1484delGGC	c.(1480-1485)GCGGCA>GCA	p.494_495AA>A	IRGQ_uc010eiv.2_In_Frame_Del_p.494_495AA>A	NM_001007561	NP_001007562	Q8WZA9	IRGQ_HUMAN	immunity-related GTPase family, Q	494_495	Ala-rich.						protein binding			ovary(1)|pancreas(1)	2		Prostate(69;0.0199)				TGGGAGTGGTGCCGCCGCCGCCG	0.729													3	6	---	---	---	---						.	-	44096568	-	-	44096566	7	5	157	1	0	1	0	1	0	0	0	0	7855	1319	46	0	391	0	IRGQ	19	44096566	In_Frame_Del	DEL	GCC	TCGA-CG-5728-01A-11D-1600-08	724104	44096566	15032417	1300	86860											
IRGC	56269	broad.mit.edu	37	chr19	44223764	44223764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctctattcccagtcgtccGacggcgccatgcgggtggcc	4	8	14	15	5	1	0	0	0	1	0	4	1	3	0	4	4	1	1	4	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:44223764G>A	uc002oxh.2	+	2	1201	c.1054G>A	c.(1054-1056)GAC>AAC	p.D352N		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	352						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				CCAGTCGTCCGACGGCGCCAT	0.657													15	29					0	0	0.004007	0	0		A	44223764	A	A	44223764	3	1	157	1	0	0	0	0	1	0	0	0	7854	1058	37	1	1056	1	IRGC	19	44223764	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	127198	44223764	14905219	1301	86861											
PVR	5817	broad.mit.edu	37	chr19	45162145	45162145	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttcccgtgaggtcctttGgcactgtcatctgtgtccct	4	15	10	12	1	2	1	1	1	1	0	5	1	5	1	3	2	0	2	3	2	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:45162145G>T	uc002ozm.2	+	6	1426	c.1127G>T	c.(1126-1128)TGG>TTG	p.W376L	PVR_uc010ejs.2_Missense_Mutation_p.W376L|PVR_uc010xxb.1_Intron|PVR_uc010xxc.1_Intron|PVR_uc002ozn.2_Missense_Mutation_p.W321L	NM_006505	NP_006496	P15151	PVR_HUMAN	poliovirus receptor isoform alpha	376	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly|interspecies interaction between organisms|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity	cell junction|cell surface|cytoplasm|extracellular space|integral to membrane|nucleus	cell adhesion molecule binding|receptor activity				0	Lung NSC(12;0.00608)|all_lung(12;0.0148)	Medulloblastoma(540;0.0425)|Ovarian(192;0.0728)|Prostate(69;0.081)|all_neural(266;0.112)		Epithelial(262;0.000601)		GAGGTCCTTTGGCACTGTCAT	0.338													31	202					1.16021e-09	1.24187e-09	0.007291	1	0		T	45162145	T	T	45162145	3	4	157	1	0	0	0	0	1	0	0	0	12862	1357	47	5	1149	5	PVR	19	45162145	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	938381	45162145	13966838	1302	86862											
BCAM	4059	broad.mit.edu	37	chr19	45322873	45322873	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccaggctggagtggccgtCatggccgtggccgtcagcgt	4	8	16	13	4	2	0	2	0	0	0	3	1	3	1	4	5	1	1	4	5	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:45322873C>T	uc002ozu.2	+	13	1697	c.1653C>T	c.(1651-1653)GTC>GTT	p.V551V	BCAM_uc002ozt.1_Silent_p.V551V	NM_005581	NP_005572	P50895	BCAM_HUMAN	basal cell adhesion molecule isoform 1	551	Helical; (Potential).				cell-matrix adhesion	integral to plasma membrane	laminin binding|laminin receptor activity			skin(1)	1	Lung NSC(12;0.000789)|all_lung(12;0.00218)	Ovarian(192;0.0728)|all_neural(266;0.112)				GAGTGGCCGTCATGGCCGTGG	0.692													5	19					0	0	0.006214	0	0		T	45322873	T	T	45322873	2	4	157	1	0	0	0	0	0	0	0	1	1345	813	29	4		4	BCAM	19	45322873	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	160728	45322873	13806110	1303	86863											
ERCC2	2068	broad.mit.edu	37	chr19	45856040	45856040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgtagacgtaggggacGccaaacatgatgacggcccg	10	7	15	9	4	0	3	0	2	0	1	0	4	0	4	2	3	1	2	2	3	3	2	rs16979773	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:45856040G>A	uc002pbj.2	-	20	1913	c.1866C>T	c.(1864-1866)GGC>GGT	p.G622G	ERCC2_uc002pbh.2_Silent_p.G185G|ERCC2_uc002pbi.2_Silent_p.G315G|ERCC2_uc010ejz.2_Silent_p.G544G|ERCC2_uc002pbk.2_Silent_p.G598G	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	622	Mediates interaction with MMS19.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		CGTAGGGGACGCCAAACATGA	0.617			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				15	56					0	0	0.003163	0	0		A	45856040	A	A	45856040	2	1	157	1	0	0	0	0	0	0	0	1	5221	1074	38	1		1	ERCC2	19	45856040	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	533167	45856040	13272943	1304	86864											
ZNF114	163071	broad.mit.edu	37	chr19	48789060	48789060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagacgcaacccctcagcCggatattcttcctaaaagaa	15	7	6	13	2	2	2	1	0	1	2	3	3	3	3	4	1	2	1	4	1	6	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:48789060C>T	uc002pil.1	+	6	676	c.179C>T	c.(178-180)CCG>CTG	p.P60L	ZNF114_uc010elv.1_Missense_Mutation_p.P60L|ZNF114_uc002pim.1_Missense_Mutation_p.P60L|ZNF114_uc002pin.2_Missense_Mutation_p.P26L	NM_153608	NP_705836	Q8NC26	ZN114_HUMAN	zinc finger protein 114	60	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_epithelial(76;8.01e-05)|all_lung(116;0.000112)|Lung NSC(112;0.000192)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;7.56e-05)|all cancers(93;0.000113)|Epithelial(262;0.00962)|GBM - Glioblastoma multiforme(486;0.0153)		ACCCCTCAGCCGGATATTCTT	0.443													41	138					0	0	0.01441	0	0		T	48789060	T	T	48789060	3	4	157	1	0	0	0	0	1	0	0	0	17741	652	23	1	189	1	ZNF114	19	48789060	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2933020	48789060	10339923	1305	86865											
IZUMO1	284359	broad.mit.edu	37	chr19	49245072	49245072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtgaaaattgatgatcgtgGctgggctggaattcacagag	11	10	14	6	2	1	4	1	3	0	1	2	5	1	5	0	3	0	2	0	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:49245072G>A	uc002pkj.2	-	8	1276	c.728C>T	c.(727-729)GCC>GTC	p.A243V	RASIP1_uc002pki.2_5'Flank|IZUMO1_uc010eme.2_RNA|IZUMO1_uc010emf.2_RNA	NM_182575	NP_872381	Q8IYV9	IZUM1_HUMAN	izumo sperm-egg fusion 1 precursor	243	Ig-like C2-type.|Extracellular (Potential).				fusion of sperm to egg plasma membrane	integral to membrane		p.A243A(1)		ovary(1)	1		all_lung(116;0.000156)|Lung NSC(112;0.000251)|all_epithelial(76;0.000761)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		GATGATCGTGGCTGGGCTGGA	0.622													4	29					0	0	0.009096	0	0		A	49245072	A	A	49245072	3	1	157	1	0	0	0	0	1	0	0	0	7949	1203	42	2	336	2	IZUMO1	19	49245072	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	456012	49245072	9883911	1306	86866											
SNRNP70	6625	broad.mit.edu	37	chr19	49601926	49601926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacaacagaatccaagctcCggagagagtttgaggtgtac	14	7	11	9	1	0	3	0	1	0	2	2	5	2	4	2	2	3	3	2	2	4	2	rs11539820		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:49601926C>T	uc002pmk.2	+	6	797	c.358C>T	c.(358-360)CGG>TGG	p.R120W	SNRNP70_uc002pmh.1_RNA|SNRNP70_uc002pmi.1_Missense_Mutation_p.R120W|SNRNP70_uc002pml.2_5'UTR|SNRNP70_uc002pmm.2_RNA	NM_003089	NP_003080	P08621	RU17_HUMAN	U1 small nuclear ribonucleoprotein 70 kDa	120	RRM.				nuclear mRNA splicing, via spliceosome|regulation of RNA splicing	nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0						ATCCAAGCTCCGGAGAGAGTT	0.502											OREG0025616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	165					0	0	0.013726	0	0		T	49601926	T	T	49601926	3	4	157	1	0	0	0	0	1	0	0	0	14883	643	23	1	376	1	SNRNP70	19	49601926	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	356854	49601926	9527057	1307	86867											
IL4I1	259307	broad.mit.edu	37	chr19	50399296	50399296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaggaggatggggacgaggaCgaggaggtgcagggctggga	10	3	24	4	2	0	0	0	0	0	0	0	9	0	6	0	9	1	2	0	9	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:50399296C>T	uc002pqt.1	-	3	106	c.28G>A	c.(28-30)GTC>ATC	p.V10I	IL4I1_uc002pqv.1_Missense_Mutation_p.V19I|IL4I1_uc010eno.1_Missense_Mutation_p.V18I|IL4I1_uc002pqw.1_Missense_Mutation_p.V18I|IL4I1_uc002pqu.1_Missense_Mutation_p.V32I	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	10						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		gggacgaggacgaggaggtgc	0.458													9	38					0	0	0.004482	0	0		T	50399296	T	T	50399296	3	4	157	1	0	0	0	0	1	0	0	0	7713	536	19	1	1699	1	IL4I1	19	50399296	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	797370	50399296	8729687	1308	86868											
NUP62	23636	broad.mit.edu	37	chr19	50412020	50412020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctgctggaggaagtgccGctcctggtcctctagctcca	5	9	13	14	1	1	0	0	0	1	0	4	2	4	2	5	4	3	3	5	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:50412020G>A	uc002pqx.2	-	2	1149	c.1045C>T	c.(1045-1047)CGG>TGG	p.R349W	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Missense_Mutation_p.R349W|NUP62_uc002pqz.2_Missense_Mutation_p.R349W|NUP62_uc002pra.2_Missense_Mutation_p.R349W|NUP62_uc002prb.2_Missense_Mutation_p.R349W|NUP62_uc002prc.2_Intron	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	349	Potential.				carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		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)		AGGAAGTGCCGCTCCTGGTCC	0.642													14	215					0	0	0.00245	0	0		A	50412020	A	A	50412020	3	1	157	1	0	0	0	0	1	0	0	0	10787	1086	38	1	527	1	NUP62	19	50412020	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	12724	50412020	8716963	1309	86869											
MYH14	79784	broad.mit.edu	37	chr19	50735186	50735186	+	Splice_Site	SNP	G	A	A	0	0	1	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	ccccactcattgtccctgcaGccgacctcctcctcgagccc	5	8	6	22	2	1	0	1	0	0	0	5	2	4	0	8	0	3	1	8	0	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:50735186G>A	uc002prr.1	+	9	997	c.950_splice	c.e9-1	p.A317_splice	MYH14_uc010enu.1_Splice_Site_p.A325_splice|MYH14_uc002prq.1_Splice_Site_p.A325_splice	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2						axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		TGTCCCTGCAGCCGACCTCCT	0.607													8	41					0	0	0.00308	0	0		A	50735186	A	A	50735186	5	1	157	1	0	0	0	0	0	0	1	0	10051	985	34	2	1007	2	MYH14	19	50735186	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	323166	50735186	8393797	1310	86870											
MYBPC2	4606	broad.mit.edu	37	chr19	50951604	50951604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggtataagaatggggtcGaggtgcggcccagcaagagg	11	6	18	6	2	0	2	0	0	0	2	1	3	0	2	1	6	2	2	1	6	4	2	rs144074433	by1000genomes	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:50951604G>A	uc002psf.2	+	13	1480	c.1429G>A	c.(1429-1431)GAG>AAG	p.E477K		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	477	Ig-like C2-type 4.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		GAATGGGGTCGAGGTGCGGCC	0.527													34	140					0	0	0.003755	0	0		A	50951604	A	A	50951604	3	1	157	1	0	0	0	0	1	0	0	0	10030	1059	37	1	1479	1	MYBPC2	19	50951604	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	216418	50951604	8177379	1311	86871											
LRRC4B	94030	broad.mit.edu	37	chr19	51021132	51021132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttgatgatctccacggtgCgcgtgggcccgtggtgcttg	3	11	16	11	5	1	2	0	2	1	0	2	2	1	2	2	3	2	2	2	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:51021132C>T	uc002pss.2	-	3	1975	c.1838G>A	c.(1837-1839)CGC>CAC	p.R613H		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	613	Cytoplasmic (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		CTCCACGGTGCGCGTGGGCCC	0.706													6	26					0	0	0.001984	0	0		T	51021132	T	T	51021132	3	4	157	1	0	0	0	0	1	0	0	0	9025	768	27	1	307	1	LRRC4B	19	51021132	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	69528	51021132	8107851	1312	86872											
KLK13	26085	broad.mit.edu	37	chr19	51561877	51561877	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgggtagacttgacgacacTcctcatctgagcgaagttgg	9	10	12	10	2	2	3	1	2	1	1	3	5	3	3	1	2	1	2	1	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:51561877T>C	uc002pvn.2	-	4	606	c.563A>G	c.(562-564)GAG>GGG	p.E188G	KLK13_uc002pvl.2_RNA|KLK13_uc002pvm.2_RNA|KLK13_uc002pvo.2_RNA|KLK13_uc002pvp.2_RNA|KLK13_uc010eon.2_Missense_Mutation_p.E115G|KLK13_uc002pvq.2_RNA|KLK13_uc010eoo.2_Missense_Mutation_p.E36G	NM_015596	NP_056411	Q9UKR3	KLK13_HUMAN	kallikrein 13 precursor	188	Peptidase S1.				proteolysis		protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00432)		TTGACGACACTCCTCATCTGA	0.512													78	264					0	0	0.01441	0	0		C	51561877	C	C	51561877	3	2	157	1	0	0	0	0	1	0	0	0	8417	1551	54	3	278	3	KLK13	19	51561877	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	540745	51561877	7567106	1313	86873											
FPR2	2358	broad.mit.edu	37	chr19	52272775	52272775	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctggttaacccaacgagCtccctggccttcttcaacag	9	10	7	15	1	2	0	1	0	1	0	4	1	4	0	4	2	4	2	4	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:52272775C>T	uc002pxr.2	+	2	909	c.864C>T	c.(862-864)AGC>AGT	p.S288S	FPR2_uc002pxs.3_Silent_p.S288S|FPR2_uc010epf.2_Silent_p.S288S	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	288	Helical; Name=7; (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						ACCCAACGAGCTCCCTGGCCT	0.522													14	114					0	0	0.004007	0	0		T	52272775	T	T	52272775	2	4	157	1	0	0	0	0	0	0	0	1	6053	796	28	2		2	FPR2	19	52272775	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	710898	52272775	6856208	1314	86874											
ZNF616	90317	broad.mit.edu	37	chr19	52619216	52619216	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctacagtgtgaattcGtcgatgcactgcaagacttg	9	14	9	9	2	1	2	0	1	1	1	4	3	1	2	0	0	3	2	0	0	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:52619216G>A	uc002pym.2	-	4	1484	c.1201C>T	c.(1201-1203)CGA>TGA	p.R401*	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	401	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		GTGTGAATTCGTCGATGCACT	0.423													68	333					0	0	0.01441	0	0		A	52619216	A	A	52619216	4	1	157	1	0	0	0	0	0	1	0	0	18066	1153	40	1	1148	1	ZNF616	19	52619216	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	346441	52619216	6509767	1315	86875											
ZNF808	388558	broad.mit.edu	37	chr19	53050886	53050886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gaactacaggaacctggaggCtgtgggtgaggaaaatgtcc	12	7	15	7	0	0	1	0	1	0	0	1	5	1	4	2	5	3	1	2	5	5	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:53050886C>T	uc010epq.1	+	4	362	c.185C>T	c.(184-186)GCT>GTT	p.A62V	ZNF808_uc002pzq.2_Intron	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	62	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		AACCTGGAGGCTGTGGGTGAG	0.483													57	206					0	0	0.01441	0	0		T	53050886	T	T	53050886	3	4	157	1	0	0	0	0	1	0	0	0	18198	797	28	2	191	2	ZNF808	19	53050886	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	431670	53050886	6078097	1316	86876											
ZNF808	388558	broad.mit.edu	37	chr19	53067360	53067360	+	RNA	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagactttcaggattaagcGgtttctggccaacaaccaaa	14	9	8	10	1	2	1	1	0	1	1	2	2	2	2	2	3	3	1	2	3	5	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:53067360G>T	uc002pzq.2	+	4		c.3872G>T						Q8N4W9	ZN808_HUMAN	Homo sapiens zinc finger protein 808, mRNA (cDNA clone IMAGE:3542548), complete cds.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		AGGATTAAGCGGTTTCTGGCC	0.433													3	42					6.4e-05	6.62773e-05	0.004672	1	0		T	53067360	T	T	53067360	1	4	157	0	1	0	0	0	0	0	0	0	18198	1131	39	5		5	ZNF808	19	53067360	RNA	SNP	G	TCGA-CG-5728-01A-11D-1600-08	16474	53067360	6061623	1317	86877											
ZNF600	162966	broad.mit.edu	37	chr19	53269926	53269926	+	Silent	SNP	A	G	G	1	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	ctgaaggtcttgccacactcAttacacttgtaagttttctc	9	15	6	11	0	3	1	1	1	2	0	4	1	3	1	1	1	2	2	1	1	3	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:53269926A>G	uc002qab.3	-	3	1369	c.1083T>C	c.(1081-1083)AAT>AAC	p.N361N		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	361	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		TGCCACACTCATTACACTTGT	0.403													68	268					0	0	0.01441	0	0		G	53269926	G	G	53269926	2	3	157	1	0	0	0	0	0	0	0	1	18055	214	8	3		3	ZNF600	19	53269926	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	202566	53269926	5859057	1318	86878											
ZNF320	162967	broad.mit.edu	37	chr19	53385079	53385079	+	Silent	SNP	C	T	T	0	0	0	1	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	tttgtttcatcttcttgccaCtgaaacacaaagtcatgaat	12	15	5	9	0	4	2	2	2	2	0	4	2	4	2	1	0	2	1	1	0	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:53385079C>T	uc002qag.2	-	4	491	c.300G>A	c.(298-300)CAG>CAA	p.Q100Q	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Silent_p.Q46Q|ZNF320_uc002qai.2_Silent_p.Q100Q	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	100					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		CTTCTTGCCACTGAAACACAA	0.403													77	296					0	0	0.01441	0	0		T	53385079	T	T	53385079	2	4	157	1	0	0	0	0	0	0	0	1	17864	564	20	4		4	ZNF320	19	53385079	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	115153	53385079	5743904	1319	86879											
ZNF765	91661	broad.mit.edu	37	chr19	53911017	53911017	+	Missense_Mutation	SNP	A	G	G	1	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	aggcaatagagaagtgttccAtgcagggacatctcaaagac	15	7	11	8	0	1	2	1	0	1	2	3	4	2	3	1	2	1	3	1	2	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:53911017A>G	uc010ydx.1	+	6	536	c.209A>G	c.(208-210)CAT>CGT	p.H70R	ZNF765_uc002qbm.2_Missense_Mutation_p.H70R|ZNF765_uc002qbn.2_Intron	NM_001040185	NP_001035275	Q7L2R6	ZN765_HUMAN	zinc finger protein 765	70	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00379)		GAAGTGTTCCATGCAGGGACA	0.363													16	95					0	0	0.003163	0	0		G	53911017	G	G	53911017	3	3	157	1	0	0	0	0	1	0	0	0	18164	217	8	3	219	3	ZNF765	19	53911017	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	525938	53911017	5217966	1320	86880											
SBK2	646643	broad.mit.edu	37	chr19	56042650	56042650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgagagccccacacagaactCgtacaggaagccacggaggg	13	2	13	13	3	0	2	0	0	0	2	1	5	0	4	3	3	4	1	3	3	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:56042650C>T	uc010ygc.1	-	2	316	c.316G>A	c.(316-318)GAG>AAG	p.E106K		NM_001101401	NP_001094871	P0C263	SBK2_HUMAN	SH3-binding domain kinase family, member 2	106	Protein kinase.						ATP binding|protein serine/threonine kinase activity				0						ACACAGAACTCGTACAGGAAG	0.657													4	22					0	0	0.000602	0	0		T	56042650	T	T	56042650	3	4	157	1	0	0	0	0	1	0	0	0	13886	893	31	1	737	1	SBK2	19	56042650	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2131633	56042650	3086333	1321	86881											
ZNF71	58491	broad.mit.edu	37	chr19	57133126	57133126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccacacgggagaaaagccGtttgagtgtgacacctgtgg	11	8	13	9	2	0	3	0	2	0	1	1	4	1	3	3	2	1	1	3	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:57133126G>A	uc002qnm.3	+	3	709	c.471G>A	c.(469-471)CCG>CCA	p.P157P		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	157						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		GAGAAAAGCCGTTTGAGTGTG	0.587													23	81					0	0	0.014323	0	0		A	57133126	A	A	57133126	2	1	157	1	0	0	0	0	0	0	0	1	18139	1132	40	1		1	ZNF71	19	57133126	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1090476	57133126	1995857	1322	86882											
ZSCAN4	201516	broad.mit.edu	37	chr19	58189820	58189820	+	Silent	SNP	T	C	C	0	1	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	caaccagagcagtcctccccTgagtctgcccttacccacca	9	7	6	19	0	1	2	0	1	1	1	3	2	3	2	7	0	4	1	7	0	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:58189820T>C	uc002qpu.2	+	5	1546	c.849T>C	c.(847-849)CCT>CCC	p.P283P		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	283					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AGTCCTCCCCTGAGTCTGCCC	0.478													13	161					0	0	0.00245	0	0		C	58189820	C	C	58189820	2	2	157	1	0	0	0	0	0	0	0	1	18262	1567	55	3		3	ZSCAN4	19	58189820	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1056694	58189820	939163	1323	86883											
ZNF497	162968	broad.mit.edu	37	chr19	58867595	58867595	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcactcgccgcaagcgtaGggcctctcgcccgtgtgcgt	4	7	13	17	7	1	0	0	0	1	0	3	0	1	0	4	1	2	3	4	1	2	1	rs143724070		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:58867595G>A	uc002qsh.1	-	3	1596	c.1407C>T	c.(1405-1407)CCC>CCT	p.P469P	A1BG_uc002qsd.3_5'Flank|A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Silent_p.P469P|uc002qsj.1_5'Flank|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	469					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		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)		CGCAAGCGTAGGGCCTCTCGC	0.687													2	5					0	0	0.004672	0	0		A	58867595	A	A	58867595	2	1	157	1	0	0	0	0	0	0	0	1	17971	987	35	4		4	ZNF497	19	58867595	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	677775	58867595	261388	1324	86884											
RPS5	6193	broad.mit.edu	37	chr19	58904820	58904820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cgggactgtgagacgacaggCtgtggatgtgtcccccctgc	6	8	15	12	2	0	1	0	1	0	1	1	5	1	3	3	3	1	1	3	3	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:58904820C>T	uc002qsn.2	+	4	485	c.413C>T	c.(412-414)GCT>GTT	p.A138V	RPS5_uc002qso.2_Missense_Mutation_p.A138V	NM_001009	NP_001000	P46782	RS5_HUMAN	ribosomal protein S5	138					endocrine pancreas development|regulation of translational fidelity|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	mRNA binding|structural constituent of ribosome				0		all_cancers(17;1.71e-22)|all_epithelial(17;1.69e-16)|Lung NSC(17;2.25e-06)|all_lung(17;9.97e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Breast(46;0.0194)|Ovarian(87;0.0443)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.171)|GBM - Glioblastoma multiforme(193;0.0323)|Lung(386;0.0543)|LUSC - Lung squamous cell carcinoma(496;0.176)		AGACGACAGGCTGTGGATGTG	0.647													19	82					0	0	0.008871	0	0		T	58904820	T	T	58904820	3	4	157	1	0	0	0	0	1	0	0	0	13673	797	28	2	423	2	RPS5	19	58904820	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	37225	58904820	224163	1325	86885											
ZNF324	25799	broad.mit.edu	37	chr19	58980635	58980635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagggccctgtaccgccGcgtgatgctagacaacttcg	8	7	12	14	4	0	3	0	1	0	2	1	3	0	3	4	1	3	2	4	1	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:58980635G>A	uc002qsw.1	+	2	177	c.83G>A	c.(82-84)CGC>CAC	p.R28H	ZNF324_uc002qsx.1_5'Flank	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	28	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		CTGTACCGCCGCGTGATGCTA	0.577													10	48					0	0	0.006214	0	0		A	58980635	A	A	58980635	3	1	157	1	0	0	0	0	1	0	0	0	17869	1087	38	1	85	1	ZNF324	19	58980635	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	75815	58980635	148348	1326	86886											
MZF1	7593	broad.mit.edu	37	chr19	59082545	59082545	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtacctctggacgcagccacTggcgacacagctctcggagc	8	6	12	15	3	2	0	0	0	2	0	3	3	2	2	2	3	4	3	2	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr19:59082545T>C	uc002qto.2	-	2	773	c.212A>G	c.(211-213)CAG>CGG	p.Q71R	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_Missense_Mutation_p.Q71R|MZF1_uc010euu.1_Missense_Mutation_p.Q112R	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	71	SCAN box.				viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		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)		ACGCAGCCACTGGCGACACAG	0.667													3	20					0	0	0.009096	0	0		C	59082545	C	C	59082545	3	2	157	1	0	0	0	0	1	0	0	0	10126	1580	55	3	2012	3	MZF1	19	59082545	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	101910	59082545	46438	1327	86887											
DEFB126	81623	broad.mit.edu	37	chr20	126315	126315	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgatggctcctaccccCgtttctcccactggttgaac	5	13	7	16	2	2	1	0	1	2	0	5	2	3	1	4	2	2	3	4	2	2	4	rs11467417		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:126315C>T	uc002wcx.2	+	2	336	c.318C>T	c.(316-318)CCC>CCT	p.P106P		NM_030931	NP_112193	Q9BYW3	DB126_HUMAN	defensin, beta 126 preproprotein	106					defense response to bacterium	extracellular region					0		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.122)			CTCCTACCCCCGTTTCTCCCA	0.388													41	159					0	0	0.010771	0	0		T	126315	T	T	126315	2	4	157	1	0	0	0	0	0	0	0	1	4417	639	23	1		1	DEFB126	20	126315	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08		126315	62899205	1328	86888											
SIGLEC1	6614	broad.mit.edu	37	chr20	3669851	3669851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccgaattctcgcccatgCtctgcttacaaacacgcctc	9	9	5	18	3	2	0	0	0	2	0	4	1	2	0	4	0	4	2	4	0	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:3669851C>T	uc002wja.2	-	20	5021	c.5021G>A	c.(5020-5022)AGC>AAC	p.S1674N	SIGLEC1_uc002wjb.1_3'UTR|SIGLEC1_uc002wiz.3_Intron	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1674	Cytoplasmic (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CTCGCCCATGCTCTGCTTACA	0.572													56	209					0	0	0.01441	0	0		T	3669851	T	T	3669851	3	4	157	1	0	0	0	0	1	0	0	0	14330	797	28	2	116	2	SIGLEC1	20	3669851	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3543536	3669851	59355669	1329	86889											
MAVS	57506	broad.mit.edu	37	chr20	3846576	3846576	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagggcacctttgggatcCacgtggctgagaaccccagc	8	6	13	14	2	0	1	0	1	0	1	1	4	1	2	5	3	2	2	5	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:3846576C>A	uc002wjw.3	+	7	1574	c.1405C>A	c.(1405-1407)CAC>AAC	p.H469N	MAVS_uc002wjx.3_Missense_Mutation_p.H328N|MAVS_uc002wjy.3_Missense_Mutation_p.H167N	NM_020746	NP_065797	Q7Z434	MAVS_HUMAN	virus-induced signaling adapter	469	Cytoplasmic (Probable).				activation of innate immune response|cellular response to exogenous dsRNA|defense response to bacterium|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of chemokine (C-C motif) ligand 5 production|positive regulation of defense response to virus by host|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interleukin-8 production|positive regulation of IP-10 production|positive regulation of protein import into nucleus, translocation|positive regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of type I interferon-mediated signaling pathway|response to virus	integral to membrane|mitochondrial outer membrane	CARD domain binding|protein kinase binding|signal transducer activity				0						CTTTGGGATCCACGTGGCTGA	0.642													19	77					4.35082e-09	4.63648e-09	0.010504	1	0		A	3846576	A	A	3846576	3	1	157	1	0	0	0	0	1	0	0	0	9356	594	21	5	1427	5	MAVS	20	3846576	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	176725	3846576	59178944	1330	86890											
LRRN4	164312	broad.mit.edu	37	chr20	6021879	6021879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcttggtggtgaaggcggcgCacgggctcctccagcccgaa	6	6	16	13	4	0	1	0	1	0	0	2	2	2	1	3	5	1	3	3	5	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:6021879C>T	uc002wmo.2	-	5	2236	c.2012G>A	c.(2011-2013)TGC>TAC	p.C671Y		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	671	Extracellular (Potential).					integral to membrane				skin(3)	3						GAAGGCGGCGCACGGGCTCCT	0.711													4	14					0	0	0.009096	0	0		T	6021879	T	T	6021879	3	4	157	1	0	0	0	0	1	0	0	0	9055	710	25	2	214	2	LRRN4	20	6021879	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2175303	6021879	57003641	1331	86891											
JAG1	182	broad.mit.edu	37	chr20	10625879	10625879	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caggtgccaccgttgttgcaCgtggcctcatcacactgact	7	10	10	14	2	2	1	2	1	0	0	2	1	2	1	3	2	2	3	3	2	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:10625879C>T	uc002wnw.2	-	17	2655	c.2139G>A	c.(2137-2139)ACG>ACA	p.T713T	JAG1_uc010gcd.1_Silent_p.T271T	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	713	Extracellular (Potential).|EGF-like 13.				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						CGTTGTTGCACGTGGCCTCAT	0.527									Alagille_Syndrome				24	102					0	0	0.005443	0	0		T	10625879	T	T	10625879	2	4	157	1	0	0	0	0	0	0	0	1	7950	523	19	1		1	JAG1	20	10625879	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	4604000	10625879	52399641	1332	86892											
JAG1	182	broad.mit.edu	37	chr20	10628735	10628735	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccgttctggcagggattAggctcacaataatcgatgtc	10	10	11	10	2	2	0	1	0	1	0	4	2	2	1	1	3	0	4	1	3	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:10628735A>G	uc002wnw.2	-	13	2109	c.1593T>C	c.(1591-1593)CCT>CCC	p.P531P	JAG1_uc010gcd.1_Silent_p.P89P	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	531	Extracellular (Potential).|EGF-like 9.				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						GGCAGGGATTAGGCTCACAAT	0.512									Alagille_Syndrome				10	67					0	0	0.008291	0	0		G	10628735	G	G	10628735	2	3	157	1	0	0	0	0	0	0	0	1	7950	407	15	3		3	JAG1	20	10628735	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	2856	10628735	52396785	1333	86893											
SPTLC3	55304	broad.mit.edu	37	chr20	13098152	13098152	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatttctccttctgccctaGcatggaaggttccatcgtgc	6	13	9	13	1	2	0	0	0	2	0	5	1	3	1	3	2	3	3	3	2	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:13098152G>A	uc002wod.1	+	8	1222	c.933_splice	c.e8-1	p.S311_splice		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base						sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TTCTGCCCTAGCATGGAAGGT	0.473													58	232					0	0	0.01441	0	0		A	13098152	A	A	13098152	5	1	157	1	0	0	0	0	0	0	1	0	15150	985	34	2	962	2	SPTLC3	20	13098152	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2469417	13098152	49927368	1334	86894											
XRN2	22803	broad.mit.edu	37	chr20	21329003	21329003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaccactagaacaacttatgGgggtatttccagctgcaagt	13	10	9	9	0	0	1	0	0	0	1	1	1	1	1	2	2	5	3	2	2	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:21329003G>A	uc002wsf.1	+	19	1893	c.1798G>A	c.(1798-1800)GGG>AGG	p.G600R	XRN2_uc002wsg.1_Missense_Mutation_p.G524R|XRN2_uc010zsk.1_Missense_Mutation_p.G546R	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	600					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						ACAACTTATGGGGGTATTTCC	0.368													11	280					0	0	0.008291	0	0		A	21329003	A	A	21329003	3	1	157	1	0	0	0	0	1	0	0	0	17486	1232	43	4	1872	4	XRN2	20	21329003	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	8230851	21329003	41696517	1335	86895											
XRN2	22803	broad.mit.edu	37	chr20	21346276	21346276	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggacggcagtggaagcCtcagcttggctttaaccgtg	9	9	13	10	2	1	0	1	0	0	0	1	2	1	2	2	4	3	3	2	4	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:21346276C>G	uc002wsf.1	+	26	2485	c.2390C>G	c.(2389-2391)CCT>CGT	p.P797R	XRN2_uc002wsg.1_Missense_Mutation_p.P721R|XRN2_uc010zsk.1_Missense_Mutation_p.P743R	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	797					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						CAGTGGAAGCCTCAGCTTGGC	0.483													21	82					0	0	0.007291	0	0		G	21346276	G	G	21346276	3	3	157	1	0	0	0	0	1	0	0	0	17486	681	24	5	2492	5	XRN2	20	21346276	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	17273	21346276	41679244	1336	86896											
NAPB	63908	broad.mit.edu	37	chr20	23377795	23377795	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgaagctgcatgtggagcTtggctgcctgacaaaatgcg	9	10	13	9	1	1	2	0	2	1	0	1	3	1	3	1	2	5	4	1	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:23377795T>C	uc002wta.2	-	3	326	c.209A>G	c.(208-210)AAG>AGG	p.K70R	NAPB_uc002wtc.2_5'UTR|NAPB_uc002wtb.2_Missense_Mutation_p.K74R|NAPB_uc002wtd.3_RNA|NAPB_uc010zss.1_5'Flank|NAPB_uc010zst.1_Intron	NM_022080	NP_071363	Q9H115	SNAB_HUMAN	N-ethylmaleimide-sensitive factor attachment	70					intracellular protein transport|vesicle-mediated transport	membrane				ovary(1)	1	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)					CATGTGGAGCTTGGCTGCCTG	0.502													21	92					0	0	0.008871	0	0		C	23377795	C	C	23377795	3	2	157	1	0	0	0	0	1	0	0	0	10180	1609	56	3	723	3	NAPB	20	23377795	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2031519	23377795	39647725	1337	86897											
CST9L	128821	broad.mit.edu	37	chr20	23545639	23545639	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgaactgagtcatccaGggcctggtgctgatggtgaa	9	9	15	8	0	1	4	1	4	0	0	2	4	2	4	2	4	2	2	2	4	2	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:23545639G>T	uc002wtk.3	-	3	689	c.390C>A	c.(388-390)CCC>CCA	p.P130P		NM_080610	NP_542177	Q9H4G1	CST9L_HUMAN	cystatin 9-like precursor	130						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					GAGTCATCCAGGGCCTGGTGC	0.552													6	153					8.12818e-05	8.40194e-05	0.001984	1	0		T	23545639	T	T	23545639	2	4	157	1	0	0	0	0	0	0	0	1	3983	987	35	5		5	CST9L	20	23545639	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	167844	23545639	39479881	1338	86898											
KIF3B	9371	broad.mit.edu	37	chr20	30897800	30897800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagcagtttgaactgtacGatgagacgttccgaccactt	11	10	9	11	3	0	2	0	2	0	1	1	5	1	2	3	0	3	4	3	0	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:30897800G>A	uc002wxq.2	+	2	387	c.220G>A	c.(220-222)GAT>AAT	p.D74N	KIF3B_uc010ztv.1_Missense_Mutation_p.D74N|KIF3B_uc010ztw.1_Missense_Mutation_p.D74N	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	74	Kinesin-motor.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TGAACTGTACGATGAGACGTT	0.488													32	157					0	0	0.012213	0	0		A	30897800	A	A	30897800	3	1	157	1	0	0	0	0	1	0	0	0	8317	1058	37	1	222	1	KIF3B	20	30897800	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7352161	30897800	32127720	1339	86899											
KIF3B	9371	broad.mit.edu	37	chr20	30898711	30898711	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaacggtccattggtaggagGaagaggcgagagaagcggag	14	4	18	5	3	0	2	0	0	0	2	1	7	1	5	1	6	2	1	1	6	4	2	rs1923098		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:30898711G>T	uc002wxq.2	+	2	1298	c.1131G>T	c.(1129-1131)AGG>AGT	p.R377S	KIF3B_uc010ztv.1_Intron|KIF3B_uc010ztw.1_Intron	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B	377	Potential.				anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			TTGGTAGGAGGAAGAGGCGAG	0.448													17	42					5.01169e-05	5.1964e-05	0.00499	1	0		T	30898711	T	T	30898711	3	4	157	1	0	0	0	0	1	0	0	0	8317	1165	41	5	1133	5	KIF3B	20	30898711	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	911	30898711	32126809	1340	86900											
NCOA6	23054	broad.mit.edu	37	chr20	33337956	33337956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgctgggaaagcatctgcTtgggtggggtcatcctttgg	5	12	15	9	0	2	0	1	0	1	0	3	1	3	1	2	5	3	3	2	5	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:33337956T>C	uc002xav.2	-	10	4613	c.2042A>G	c.(2041-2043)AAG>AGG	p.K681R	NCOA6_uc002xaw.2_Missense_Mutation_p.K681R	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	681	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						AAGCATCTGCTTGGGTGGGGT	0.567													27	96					0	0	0.004656	0	0		C	33337956	C	C	33337956	3	2	157	1	0	0	0	0	1	0	0	0	10252	1609	56	3	4177	3	NCOA6	20	33337956	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2439245	33337956	29687564	1341	86901											
NCOA6	23054	broad.mit.edu	37	chr20	33345770	33345770	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgttgctgctgctgctGcagctggggaaaattagctg	6	14	14	7	0	0	0	0	0	0	0	0	1	0	1	0	2	7	9	0	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:33345770G>A	uc002xav.2	-	8	3352	c.781C>T	c.(781-783)CAG>TAG	p.Q261*	NCOA6_uc002xaw.2_Nonsense_Mutation_p.Q261*|NCOA6_uc010gew.1_Nonsense_Mutation_p.Q218*	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	261	TBP/GTF2A-binding region.|NCOA1-binding region.|Gln-rich.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						tgctgctgctgcagctgGGGA	0.308													5	28					0	0	0.00308	0	0		A	33345770	A	A	33345770	4	1	157	1	0	0	0	0	0	1	0	0	10252	1328	46	2	5446	2	NCOA6	20	33345770	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7814	33345770	29679750	1342	86902											
MYH7B	57644	broad.mit.edu	37	chr20	33584501	33584501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagggtgacctgaagctgaCgcaggagtcggtggctgatg	8	7	19	7	2	0	4	0	4	0	0	1	6	0	6	1	5	1	3	1	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:33584501C>T	uc002xbi.1	+	28	3424	c.3332C>T	c.(3331-3333)ACG>ATG	p.T1111M		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1069	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CTGAAGCTGACGCAGGAGTCG	0.622													4	23					0	0	0.001168	0	0		T	33584501	T	T	33584501	3	4	157	1	0	0	0	0	1	0	0	0	10058	536	19	1	3442	1	MYH7B	20	33584501	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	238731	33584501	29441019	1343	86903											
RBL1	5933	broad.mit.edu	37	chr20	35689589	35689589	+	Silent	SNP	T	C	C	0	1	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	cggctcacactttgggtggcTgatgcaacaggagtaatgac	10	9	13	9	1	1	2	1	2	0	0	1	3	1	3	0	4	2	4	0	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:35689589T>C	uc002xgi.2	-	9	1246	c.1167A>G	c.(1165-1167)TCA>TCG	p.S389S	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Silent_p.S389S|RBL1_uc010gfv.1_RNA	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	389	Domain A.|Pocket; binds T and E1A.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				TTTGGGTGGCTGATGCAACAG	0.408													31	85					0	0	0.009535	0	0		C	35689589	C	C	35689589	2	2	157	1	0	0	0	0	0	0	0	1	13134	1567	55	3		3	RBL1	20	35689589	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2105088	35689589	27335931	1344	86904											
FAM83D	81610	broad.mit.edu	37	chr20	37580194	37580194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttaagttttacatggacGgatggcaaattaaacagcag	14	12	9	6	1	1	0	0	0	1	0	1	2	1	2	0	3	3	3	0	3	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:37580194G>A	uc002xjg.2	+	4	920	c.879G>A	c.(877-879)ACG>ACA	p.T293T		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	263					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				TTACATGGACGGATGGCAAAT	0.398													6	83					0	0	0.001984	0	0		A	37580194	A	A	37580194	2	1	157	1	0	0	0	0	0	0	0	1	5650	1103	39	1		1	FAM83D	20	37580194	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1890605	37580194	25445326	1345	86905											
DHX35	60625	broad.mit.edu	37	chr20	37639048	37639048	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaggttccacttcatgtcgGtaagtcctgcctgctgtctg	5	14	10	12	1	3	0	2	0	1	0	6	0	5	0	3	2	2	3	3	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:37639048G>A	uc002xjh.2	+	13	1358	c.1347_splice	c.e13+1	p.S449_splice	DHX35_uc010zwa.1_Splice_Site_p.S294_splice|DHX35_uc010zwb.1_Splice_Site_p.S294_splice|DHX35_uc010zwc.1_Splice_Site_p.S418_splice	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35							catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CTTCATGTCGGTAAGTCCTGC	0.522													17	69					0	0	0.00499	0	0		A	37639048	A	A	37639048	5	1	157	1	0	0	0	0	0	0	1	0	4514	1275	44	4	1398	4	DHX35	20	37639048	Splice_Site	SNP	G	TCGA-CG-5728-01A-11D-1600-08	58854	37639048	25386472	1346	86906											
DHX35	60625	broad.mit.edu	37	chr20	37650575	37650575	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccccaaaccagaagtctcaCgcagtaagtcagctctgtcc	11	7	7	16	1	3	1	2	0	2	1	5	1	4	1	4	0	2	3	4	0	3	1	rs141540547	byFrequency	TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:37650575C>T	uc002xjh.2	+	16	1601	c.1590C>T	c.(1588-1590)CAC>CAT	p.H530H	DHX35_uc010zwa.1_Silent_p.H375H|DHX35_uc010zwb.1_Silent_p.H375H|DHX35_uc010zwc.1_Silent_p.H499H	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	530						catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AGAAGTCTCACGCAGTAAGTC	0.478													14	218					0	0	0.001855	0	0		T	37650575	T	T	37650575	2	4	157	1	0	0	0	0	0	0	0	1	4514	535	19	1		1	DHX35	20	37650575	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	11527	37650575	25374945	1347	86907											
PTPRT	11122	broad.mit.edu	37	chr20	40944615	40944615	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttctgaagtcgctcctcCttgacaaccagctgataaac	11	10	7	13	1	1	3	0	3	1	0	4	4	3	3	3	0	3	2	3	0	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:40944615C>A	uc002xkg.2	-	12	2071	c.1887G>T	c.(1885-1887)AAG>AAT	p.K629N	PTPRT_uc010ggj.2_Missense_Mutation_p.K629N	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	629	Extracellular (Potential).|Fibronectin type-III 4.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GTCGCTCCTCCTTGACAACCA	0.498													9	103					2.17888e-05	2.26196e-05	0.006214	1	0		A	40944615	A	A	40944615	3	1	157	1	0	0	0	0	1	0	0	0	12837	680	24	5	2579	5	PTPRT	20	40944615	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3294040	40944615	22080905	1348	86908											
PIGT	51604	broad.mit.edu	37	chr20	44052984	44052984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcgctgctgaagtggaccGagtacacgccagatcctaac	10	6	13	12	3	0	2	0	1	0	1	1	4	1	3	3	2	3	3	3	2	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:44052984G>A	uc002xoh.1	+	10	1436	c.1363G>A	c.(1363-1365)GAG>AAG	p.E455K	PIGT_uc010ghf.1_Missense_Mutation_p.E408K|PIGT_uc002xoj.1_Missense_Mutation_p.E388K|PIGT_uc002xok.1_Missense_Mutation_p.E420K|PIGT_uc010zwu.1_Missense_Mutation_p.E193K|PIGT_uc002xoi.1_RNA|PIGT_uc010zwv.1_Missense_Mutation_p.E193K|PIGT_uc010zww.1_Missense_Mutation_p.E399K|PIGT_uc010zwx.1_Missense_Mutation_p.E290K|PIGT_uc010zwy.1_Missense_Mutation_p.E353K|PIGT_uc010zwz.1_Missense_Mutation_p.E193K|PIGT_uc010zxa.1_Missense_Mutation_p.E293K|PIGT_uc002xol.1_Missense_Mutation_p.E244K|PIGT_uc010zxb.1_Missense_Mutation_p.E131K|PIGT_uc002xom.1_Missense_Mutation_p.E47K	NM_015937	NP_057021	Q969N2	PIGT_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	455	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				GAAGTGGACCGAGTACACGCC	0.602													11	61					0	0	0.013537	0	0		A	44052984	A	A	44052984	3	1	157	1	0	0	0	0	1	0	0	0	11918	1059	37	1	1401	1	PIGT	20	44052984	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3108369	44052984	18972536	1349	86909											
ZSWIM3	140831	broad.mit.edu	37	chr20	44506069	44506069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacccttcattccattaccGggctatcctgcaggagatct	8	11	9	13	1	2	1	1	0	1	1	4	3	4	2	4	3	2	2	4	3	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:44506069G>A	uc002xqd.2	+	2	1075	c.872G>A	c.(871-873)CGG>CAG	p.R291Q	ZSWIM3_uc010zxg.1_Missense_Mutation_p.R285Q	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	291							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				TTCCATTACCGGGCTATCCTG	0.512													35	86					0	0	0.003271	0	0		A	44506069	A	A	44506069	3	1	157	1	0	0	0	0	1	0	0	0	18267	1116	39	1	878	1	ZSWIM3	20	44506069	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	453085	44506069	18519451	1350	86910											
MMP9	4318	broad.mit.edu	37	chr20	44640898	44640898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagatgggcgcctctggtgcGctaccacctcgaactttgac	7	9	12	13	3	1	2	0	1	1	1	2	4	1	2	3	2	3	1	3	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:44640898G>A	uc002xqz.2	+	7	1139	c.1120G>A	c.(1120-1122)GCT>ACT	p.A374T		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	374	Fibronectin type-II 3.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CCTCTGGTGCGCTACCACCTC	0.657													21	124					0	0	0.00333	0	0		A	44640898	A	A	44640898	3	1	157	1	0	0	0	0	1	0	0	0	9687	1087	38	1	1146	1	MMP9	20	44640898	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	134829	44640898	18384622	1351	86911											
EYA2	2139	broad.mit.edu	37	chr20	45811964	45811964	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagctgcttcgagaggatAatgcagagattcggcagaaa	14	7	14	6	2	0	4	0	0	0	4	2	8	0	5	0	2	3	4	0	2	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:45811964A>G	uc002xsm.2	+	15	1835	c.1461A>G	c.(1459-1461)ATA>ATG	p.I487M	EYA2_uc010ghp.2_Missense_Mutation_p.I408M|EYA2_uc002xsn.2_Missense_Mutation_p.I492M|EYA2_uc002xso.2_Missense_Mutation_p.I487M|EYA2_uc002xsp.2_Missense_Mutation_p.I487M|EYA2_uc002xsq.2_Missense_Mutation_p.I457M	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	487					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				TCGAGAGGATAATGCAGAGAT	0.353													12	134					0	0	0.001855	0	0		G	45811964	G	G	45811964	3	3	157	1	0	0	0	0	1	0	0	0	5337	352	13	3	1515	3	EYA2	20	45811964	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1171066	45811964	17213556	1352	86912											
ZMYND8	23613	broad.mit.edu	37	chr20	45891150	45891150	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gataaactccctgcttgtccCgtcttggtggaggctggtga	6	12	13	10	1	1	1	0	1	1	0	3	3	3	2	2	4	2	2	2	4	2	3	rs145166978		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:45891150C>T	uc002xta.1	-	12	1697	c.1443G>A	c.(1441-1443)ACG>ACA	p.T481T	ZMYND8_uc010ghq.1_Silent_p.T158T|ZMYND8_uc010ghr.1_Silent_p.T456T|ZMYND8_uc002xst.1_Intron|ZMYND8_uc002xsu.1_Silent_p.T481T|ZMYND8_uc002xsv.1_Intron|ZMYND8_uc002xsw.1_Silent_p.T233T|ZMYND8_uc002xsx.1_Silent_p.T233T|ZMYND8_uc002xsy.1_Silent_p.T456T|ZMYND8_uc002xsz.1_Silent_p.T418T|ZMYND8_uc010zxy.1_Silent_p.T508T|ZMYND8_uc002xtb.1_Silent_p.T501T|ZMYND8_uc002xss.2_Silent_p.T481T|ZMYND8_uc010zxz.1_Silent_p.T476T|ZMYND8_uc002xtc.1_Silent_p.T501T|ZMYND8_uc002xtd.1_Silent_p.T476T|ZMYND8_uc002xte.1_Silent_p.T481T|ZMYND8_uc010zya.1_Silent_p.T481T|ZMYND8_uc002xtf.1_Silent_p.T501T|ZMYND8_uc002xtg.2_Silent_p.T475T|ZMYND8_uc010ghs.1_Silent_p.T475T	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	481							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CTGCTTGTCCCGTCTTGGTGG	0.493													26	104					0	0	0.00632	0	0		T	45891150	T	T	45891150	2	4	157	1	0	0	0	0	0	0	0	1	17736	639	23	1		1	ZMYND8	20	45891150	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	79186	45891150	17134370	1353	86913											
ZFP64	55734	broad.mit.edu	37	chr20	50701307	50701307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagcggaaggccctctgcGtcacgatcttggccacgtgc	7	7	12	15	4	3	0	1	0	2	0	3	2	3	1	2	3	3	0	2	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:50701307G>A	uc002xwk.2	-	9	2076	c.1727C>T	c.(1726-1728)ACG>ATG	p.T576M	ZFP64_uc002xwj.2_Missense_Mutation_p.T357M	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GGCCCTCTGCGTCACGATCTT	0.617													17	63					0	0	0.004007	0	0		A	50701307	A	A	50701307	3	1	157	1	0	0	0	0	1	0	0	0	17677	1145	40	1	214	1	ZFP64	20	50701307	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	4810157	50701307	12324213	1354	86914											
ZFP64	55734	broad.mit.edu	37	chr20	50768705	50768705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctaatctggaatggagtcggCgggacagagcaaagctggat	12	7	15	7	2	1	1	0	0	1	1	2	5	1	5	0	5	2	2	0	5	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:50768705C>T	uc002xwl.2	-	6	2375	c.2026G>A	c.(2026-2028)GCC>ACC	p.A676T	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.A674T|ZFP64_uc002xwn.2_Missense_Mutation_p.A622T	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	676					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ATGGAGTCGGCGGGACAGAGC	0.473													5	94					0	0	0.000602	0	0		T	50768705	T	T	50768705	3	4	157	1	0	0	0	0	1	0	0	0	17677	768	27	1	1214	1	ZFP64	20	50768705	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	67398	50768705	12256815	1355	86915											
GNAS	2778	broad.mit.edu	37	chr20	57415346	57415346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcggctgcccaacagcgccGgagcttccttaacgcccacc	7	5	10	19	5	0	0	0	0	0	0	1	1	1	1	5	2	5	2	5	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:57415346G>A	uc002xzt.2	+	1	552	c.185G>A	c.(184-186)CGG>CAG	p.R62Q	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	62					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CAACAGCGCCGGAGCTTCCTT	0.692			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			12	75					0	0	0.013537	0	0		A	57415346	A	A	57415346	3	1	157	1	0	0	0	0	1	0	0	0	6525	1116	39	1	187	1	GNAS	20	57415346	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6646641	57415346	5610174	1356	86916											
TAF4	6874	broad.mit.edu	37	chr20	60589624	60589624	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtacggtggagatctggacGggaggggcacttgtgggggt	6	9	21	5	2	1	1	0	0	1	1	1	4	1	3	0	8	1	2	0	8	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:60589624G>A	uc002ybs.2	-	2	1500	c.1500C>T	c.(1498-1500)CCC>CCT	p.P500P		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	500					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			AGATCTGGACGGGAGGGGCAC	0.667													6	15					0	0	0.00308	0	0		A	60589624	A	A	60589624	2	1	157	1	0	0	0	0	0	0	0	1	15551	1103	39	1		1	TAF4	20	60589624	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3174278	60589624	2435896	1357	86917											
LAMA5	3911	broad.mit.edu	37	chr20	60921226	60921226	+	Missense_Mutation	SNP	A	G	G	1	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	ggcagtagcatcgacccgtcAggtcctcgcaggtgccatcc	7	7	12	15	3	1	0	1	0	0	0	5	1	3	0	4	3	2	4	4	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:60921226A>G	uc002ycq.2	-	10	1395	c.1328T>C	c.(1327-1329)CTG>CCG	p.L443P		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	443	Laminin EGF-like 3.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCGACCCGTCAGGTCCTCGCA	0.657													3	30					0	0	0.000602	0	0		G	60921226	G	G	60921226	3	3	157	1	0	0	0	0	1	0	0	0	8625	188	7	3	10043	3	LAMA5	20	60921226	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	331602	60921226	2104294	1358	86918											
COL9A3	1299	broad.mit.edu	37	chr20	61472005	61472005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattggggcccaggggacacCggggatctgcgacacctcag	8	5	15	13	2	2	0	1	0	1	0	2	3	2	2	3	6	1	0	3	6	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:61472005C>T	uc002ydm.2	+	32	1979	c.1976C>T	c.(1975-1977)CCG>CTG	p.P659L	COL9A3_uc002ydn.2_Missense_Mutation_p.P153L	NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	659	Triple-helical region 1 (COL1).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					CAGGGGACACCGGGGATCTGC	0.647													3	5					0	0	0.009096	0	0		T	61472005	T	T	61472005	3	4	157	1	0	0	0	0	1	0	0	0	3712	652	23	1	2102	1	COL9A3	20	61472005	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	550779	61472005	1553515	1359	86919											
BHLHE23	128408	broad.mit.edu	37	chr20	61637673	61637673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgatcttggagagcttgcGcaccgacgggctgtgcgcgt	5	8	17	11	6	1	1	0	0	1	1	1	4	1	1	1	3	3	3	1	3	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:61637673G>A	uc002yeb.2	-	1	715	c.406C>T	c.(406-408)CGC>TGC	p.R136C		NM_080606	NP_542173	Q8NDY6	BHE23_HUMAN	basic helix-loop-helix domain containing, class	136	Helix-loop-helix motif.				transcription, DNA-dependent	nucleus	DNA binding				0						GAGAGCTTGCGCACCGACGGG	0.552													11	20					0	0	0.00245	0	0		A	61637673	A	A	61637673	3	1	157	1	0	0	0	0	1	0	0	0	1423	1087	38	1	275	1	BHLHE23	20	61637673	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	165668	61637673	1387847	1360	86920											
CHRNA4	1137	broad.mit.edu	37	chr20	61981656	61981656	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcatggactcgatgagccgCcggcaattgtccttgaccac	8	9	11	13	3	0	2	0	2	0	0	2	4	1	3	4	2	2	2	4	2	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:61981656C>T	uc002yes.2	-	5	1285	c.1107G>A	c.(1105-1107)CGG>CGA	p.R369R	CHRNA4_uc002yet.1_Silent_p.R193R|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Silent_p.R298R|CHRNA4_uc002yev.1_Silent_p.R193R|CHRNA4_uc010gkf.1_Silent_p.R193R	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	369	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	CGATGAGCCGCCGGCAATTGT	0.667													6	26					0	0	0.001984	0	0		T	61981656	T	T	61981656	2	4	157	1	0	0	0	0	0	0	0	1	3388	726	26	2		2	CHRNA4	20	61981656	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	343983	61981656	1043864	1361	86921											
PRPF6	24148	broad.mit.edu	37	chr20	62663288	62663288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggctgttttggagtcagcGgaagatcaccaaggccaggg	10	7	15	9	1	2	1	2	0	0	1	2	3	2	3	2	5	1	2	2	5	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:62663288G>A	uc002yho.2	+	20	2732	c.2564G>A	c.(2563-2565)CGG>CAG	p.R855Q	PRPF6_uc002yhp.2_Missense_Mutation_p.R815Q|NCRNA00176_uc002yhq.2_5'Flank|NCRNA00176_uc011abq.1_5'Flank	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	855	HAT 9.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					TGGAGTCAGCGGAAGATCACC	0.577													33	124					0	0	0.004289	0	0		A	62663288	A	A	62663288	3	1	157	1	0	0	0	0	1	0	0	0	12596	1116	39	1	2642	1	PRPF6	20	62663288	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	681632	62663288	362232	1362	86922											
MYT1	4661	broad.mit.edu	37	chr20	62871235	62871235	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctcatccaaagtctcgcCaatatccgccttccgcacat	9	9	5	18	3	2	0	1	0	1	0	6	0	5	0	6	0	0	1	6	0	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr20:62871235C>T	uc002yii.2	+	22	3580	c.3216C>T	c.(3214-3216)GCC>GCT	p.A1072A	MYT1_uc002yij.2_Silent_p.A731A|MYT1_uc002yik.2_Silent_p.A38A	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	1072					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					AAAGTCTCGCCAATATCCGCC	0.607													30	138					0	0	0.010818	0	0		T	62871235	T	T	62871235	2	4	157	1	0	0	0	0	0	0	0	1	10124	581	21	4		4	MYT1	20	62871235	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	207947	62871235	154285	1363	86923											
TPTE	7179	broad.mit.edu	37	chr21	10969092	10969092	+	Silent	SNP	C	T	T	0	0	0	1	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	cacctttcactgataggtgaCacccgggctgctcctttaaa	9	11	8	13	1	1	2	1	2	0	0	2	2	2	2	3	2	1	2	3	2	3	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:10969092C>T	uc002yip.1	-	7	524	c.156G>A	c.(154-156)GTG>GTA	p.V52V	TPTE_uc002yis.1_Intron|TPTE_uc002yiq.1_Intron|TPTE_uc002yir.1_Intron|TPTE_uc010gkv.1_Intron	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	52					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TGATAGGTGACACCCGGGCTG	0.333													36	205					0	0	0.004878	0	0		T	10969092	T	T	10969092	2	4	157	1	0	0	0	0	0	0	0	1	16456	465	17	4		4	TPTE	21	10969092	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08		10969092	37160803	1364	86924											
NRIP1	8204	broad.mit.edu	37	chr21	16337566	16337566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagtggaactgtacatcagtCcatttaaagaagaaatgcta	16	10	9	6	0	1	2	1	0	0	2	2	4	2	3	1	1	3	2	1	1	7	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:16337566C>T	uc002yjx.2	-	4	3546	c.2948G>A	c.(2947-2949)GGA>GAA	p.G983E		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	983					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		GTACATCAGTCCATTTAAAGA	0.423													24	126					0	0	0.014323	0	0		T	16337566	T	T	16337566	3	4	157	1	0	0	0	0	1	0	0	0	10671	855	30	4	532	4	NRIP1	21	16337566	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5368474	16337566	31792329	1365	86925											
NCAM2	4685	broad.mit.edu	37	chr21	22658687	22658687	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcagttcacctgcacctgctGtcagctggttgtatcataat	8	13	9	11	0	3	0	3	0	0	0	3	0	3	0	2	1	3	7	2	1	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:22658687G>A	uc002yld.1	+	4	685	c.436G>A	c.(436-438)GTC>ATC	p.V146I	NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Missense_Mutation_p.V171I	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	146	Ig-like C2-type 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		TGCACCTGCTGTCAGCTGGTT	0.393													8	104					0	0	0.004482	0	0		A	22658687	A	A	22658687	3	1	157	1	0	0	0	0	1	0	0	0	10222	1377	48	4	450	4	NCAM2	21	22658687	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	6321121	22658687	25471208	1366	86926											
ADAMTS5	11096	broad.mit.edu	37	chr21	28337870	28337870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggccccggccatacaaccGcgccatggacgcgtcagcca	9	3	11	18	5	1	0	1	0	0	0	1	1	1	1	6	3	3	0	6	3	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:28337870G>A	uc002ymg.2	-	1	1570	c.841C>T	c.(841-843)CGG>TGG	p.R281W		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	281	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CCATACAACCGCGCCATGGAC	0.682													10	23					0	0	0.008291	0	0		A	28337870	A	A	28337870	3	1	157	1	0	0	0	0	1	0	0	0	269	1086	38	1	1983	1	ADAMTS5	21	28337870	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5679183	28337870	19792025	1367	86927											
USP16	10600	broad.mit.edu	37	chr21	30407165	30407165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgatttttttagggctgtgGcagaaattctcaggagcagc	10	13	12	6	0	1	2	1	1	1	1	2	3	1	3	0	3	2	3	0	3	2	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:30407165G>A	uc002ymy.2	+	4	450	c.248G>A	c.(247-249)GGC>GAC	p.G83D	USP16_uc002ymx.2_Missense_Mutation_p.G83D|USP16_uc002ymw.2_Missense_Mutation_p.G83D|USP16_uc011acm.1_Missense_Mutation_p.G69D|USP16_uc011acn.1_Intron	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	83	UBP-type.				cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						TAGGGCTGTGGCAGAAATTCT	0.423													16	71					0	0	0.003163	0	0		A	30407165	A	A	30407165	3	1	157	1	0	0	0	0	1	0	0	0	17073	1203	42	2	258	2	USP16	21	30407165	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2069295	30407165	17722730	1368	86928											
C21orf63	59271	broad.mit.edu	37	chr21	33840140	33840140	+	Silent	SNP	G	A	A	0	0	1	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	atctgctcctccaaggcagaGcggctcccccctttcggtat	6	10	9	16	2	1	1	0	0	1	1	5	1	4	1	5	3	2	4	5	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:33840140G>A	uc002ypr.1	+	4	1028	c.618G>A	c.(616-618)GAG>GAA	p.E206E	C21orf63_uc002ypq.1_Silent_p.E206E|C21orf63_uc002yps.1_RNA|C21orf63_uc010glw.1_Silent_p.E206E|C21orf63_uc002ypt.1_RNA|C21orf63_uc002ypu.1_Silent_p.E111E	NM_058187	NP_478067	P58658	CU063_HUMAN	hypothetical protein LOC59271 precursor	206	SUEL-type lectin 2.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(2)|pancreas(1)	3						CCAAGGCAGAGCGGCTCCCCC	0.368													20	35					0	0	0.007413	0	0		A	33840140	A	A	33840140	2	1	157	1	0	0	0	0	0	0	0	1	2134	962	34	2		2	C21orf63	21	33840140	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	3432975	33840140	14289755	1369	86929											
KCNJ6	3763	broad.mit.edu	37	chr21	38997732	38997732	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggacaggtgtgaaccggTaaccccacaggatctcactg	11	7	11	12	1	2	1	2	1	1	0	3	3	2	3	3	4	2	1	3	4	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:38997732T>C	uc011aej.1	-	4	1054	c.1001A>G	c.(1000-1002)TAC>TGC	p.Y334C	KCNJ6_uc002ywo.2_Missense_Mutation_p.Y334C	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	334	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	TGTGAACCGGTAACCCCACAG	0.527													8	72					0	0	0.006214	0	0		C	38997732	C	C	38997732	3	2	157	1	0	0	0	0	1	0	0	0	8071	1638	57	3	274	3	KCNJ6	21	38997732	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	5157592	38997732	9132163	1370	86930											
HSF2BP	11077	broad.mit.edu	37	chr21	45076572	45076572	+	Missense_Mutation	SNP	A	G	G	1	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	cttcagttgtcagccgttccAgatccttctttctgacttta	6	17	6	12	1	4	2	2	1	2	1	6	2	6	2	3	0	1	2	3	0	1	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:45076572A>G	uc002zdi.2	-	3	415	c.83T>C	c.(82-84)CTG>CCG	p.L28P	RRP1B_uc002zdk.2_5'Flank|HSF2BP_uc011aey.1_Intron	NM_007031	NP_008962	O75031	HSF2B_HUMAN	heat shock transcription factor 2 binding	28					spermatogenesis|transcription from RNA polymerase II promoter	cytosol	binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.18)		CAGCCGTTCCAGATCCTTCTT	0.373													41	149					0	0	0.007835	0	0		G	45076572	G	G	45076572	3	3	157	1	0	0	0	0	1	0	0	0	7413	188	7	3	949	3	HSF2BP	21	45076572	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	6078840	45076572	3053323	1371	86931											
C21orf29	54084	broad.mit.edu	37	chr21	45947252	45947252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatgagacgaacttctcttCggtccacttgtagacggcgg	9	11	11	10	4	1	2	0	1	1	2	4	4	2	2	1	3	1	1	1	3	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr21:45947252C>T	uc002zfe.1	-	7	1138	c.1072G>A	c.(1072-1074)GAA>AAA	p.E358K	C21orf29_uc010gpv.1_Missense_Mutation_p.E290K	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	358	EAR 1.				cell adhesion	extracellular region	structural molecule activity				0						AACTTCTCTTCGGTCCACTTG	0.552													32	108					0	0	0.003755	0	0		T	45947252	T	T	45947252	3	4	157	1	0	0	0	0	1	0	0	0	2127	893	31	1	961	1	C21orf29	21	45947252	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	870680	45947252	2182643	1372	86932											
GAB4	128954	broad.mit.edu	37	chr22	17473042	17473042	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctagtctggcccctccgcaGgataaaccagcgtttcctcc	7	9	9	16	2	1	0	0	0	1	0	4	1	4	1	6	2	2	3	6	2	3	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:17473042G>T	uc002zlw.2	-	2	307	c.199C>A	c.(199-201)CTG>ATG	p.L67M	GAB4_uc010gqs.1_Missense_Mutation_p.L67M	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	67	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				CCCCTCCGCAGGATAAACCAG	0.488													62	240					7.41606e-26	8.25201e-26	0.01441	1	0		T	17473042	T	T	17473042	3	4	157	1	0	0	0	0	1	0	0	0	6165	991	35	5	1561	5	GAB4	22	17473042	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08		17473042	33831524	1373	86933											
DGCR14	8220	broad.mit.edu	37	chr22	19124850	19124850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccaccttaaaagctgggcCgggtgtcctgtccacgtagg	8	8	12	13	2	0	0	0	0	0	0	2	0	2	0	5	3	1	2	5	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:19124850C>T	uc002zou.2	-	8	1058	c.1021G>A	c.(1021-1023)GGC>AGC	p.G341S	DGCR14_uc002zot.2_Missense_Mutation_p.G262S|DGCR14_uc002zov.2_RNA	NM_022719	NP_073210	Q96DF8	DGC14_HUMAN	DiGeorge syndrome critical region protein 14	341					nervous system development	catalytic step 2 spliceosome				ovary(1)	1	Colorectal(54;0.0993)					AAAGCTGGGCCGGGTGTCCTG	0.607													48	220					0	0	0.01441	0	0		T	19124850	T	T	19124850	3	4	157	1	0	0	0	0	1	0	0	0	4466	652	23	1	421	1	DGCR14	22	19124850	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1651808	19124850	32179716	1374	86934											
CLTCL1	8218	broad.mit.edu	37	chr22	19207438	19207438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggttggtctcctcaaggaCgtgagcccagagctccggat	7	9	14	11	2	2	2	1	1	1	1	4	4	3	4	3	4	2	2	3	4	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:19207438C>T	uc002zpb.2	-	18	2950	c.2875G>A	c.(2875-2877)GTC>ATC	p.V959I	CLTCL1_uc011agv.1_Missense_Mutation_p.V959I|CLTCL1_uc011agw.1_Missense_Mutation_p.V959I	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	959	Proximal segment.|Heavy chain arm.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					TCCTCAAGGACGTGAGCCCAG	0.522			T	?	ALCL								40	94					0	0	0.00623	0	0		T	19207438	T	T	19207438	3	4	157	1	0	0	0	0	1	0	0	0	3570	536	19	1	2107	1	CLTCL1	22	19207438	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	82588	19207438	32097128	1375	86935											
HIRA	7290	broad.mit.edu	37	chr22	19381879	19381879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcaccacgacagtcacagCtttccggtgcccaacaaagt	12	7	7	15	2	2	0	2	0	0	0	3	1	3	0	3	1	3	1	3	1	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:19381879C>T	uc002zpf.1	-	8	1028	c.808G>A	c.(808-810)GCT>ACT	p.A270T	HIRA_uc011agx.1_Missense_Mutation_p.A136T|HIRA_uc010grn.1_Missense_Mutation_p.A270T|HIRA_uc010gro.1_Missense_Mutation_p.A226T|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	270	WD 6.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					ACAGTCACAGCTTTCCGGTGC	0.483													5	91					0	0	0.000602	0	0		T	19381879	T	T	19381879	3	4	157	1	0	0	0	0	1	0	0	0	7136	797	28	2	2317	2	HIRA	22	19381879	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	174441	19381879	31922687	1376	86936											
GNB1L	54584	broad.mit.edu	37	chr22	19808148	19808148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcgcccctggggcagcGtctgcagccaggtcacacac	6	5	14	16	2	2	0	1	0	1	0	2	0	2	0	3	4	3	3	3	4	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:19808148G>A	uc002zqe.1	-	3	621	c.227C>T	c.(226-228)ACG>ATG	p.T76M	GNB1L_uc002zqd.1_Intron|GNB1L_uc002zqf.1_Missense_Mutation_p.T76M	NM_053004	NP_443730	Q9BYB4	GNB1L_HUMAN	guanine nucleotide binding protein	76	WD 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	internal side of plasma membrane|intracellular				breast(1)	1	Colorectal(54;0.0993)					CTGGGGCAGCGTCTGCAGCCA	0.652													8	37					0	0	0.006214	0	0		A	19808148	A	A	19808148	3	1	157	1	0	0	0	0	1	0	0	0	6531	1145	40	1	776	1	GNB1L	22	19808148	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	426269	19808148	31496418	1377	86937											
ARVCF	421	broad.mit.edu	37	chr22	19960457	19960457	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggaagccgcacctggaagcgCgccttggtccaaccatcttt	8	8	11	14	3	1	0	0	0	1	0	2	2	2	2	5	3	3	1	5	3	3	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:19960457C>T	uc002zqz.2	-	15	2812	c.2541G>A	c.(2539-2541)GCG>GCA	p.A847A	ARVCF_uc002zqy.2_Silent_p.A363A	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	847					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CCTGGAAGCGCGCCTTGGTCC	0.567													22	126					0	0	0.00632	0	0		T	19960457	T	T	19960457	2	4	157	1	0	0	0	0	0	0	0	1	1004	755	27	1		1	ARVCF	22	19960457	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	152309	19960457	31344109	1378	86938											
MED15	51586	broad.mit.edu	37	chr22	20920907	20920907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcagcagccacagcctccgCcctcccaggctctgccccag	6	5	9	21	1	1	0	0	0	1	0	3	0	3	0	7	1	5	3	7	1	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:20920907C>T	uc002zsp.2	+	7	924	c.844C>T	c.(844-846)CCC>TCC	p.P282S	MED15_uc002zso.2_Missense_Mutation_p.P211S|MED15_uc002zsq.2_Missense_Mutation_p.P282S|MED15_uc010gso.2_Missense_Mutation_p.P282S|MED15_uc002zsr.2_Missense_Mutation_p.P256S|MED15_uc011ahs.1_Missense_Mutation_p.P256S|MED15_uc002zss.2_Missense_Mutation_p.P201S|MED15_uc011ahu.1_Missense_Mutation_p.P8S	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	282	Pro-rich.			Missing (in Ref. 3; BAB85034).	regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			ACAGCCTCCGCCCTCCCAGGC	0.512													6	75					0	0	0.001984	0	0		T	20920907	T	T	20920907	3	4	157	1	0	0	0	0	1	0	0	0	9451	739	26	2	870	2	MED15	22	20920907	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	960450	20920907	30383659	1379	86939											
HIC2	23119	broad.mit.edu	37	chr22	21800421	21800421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagacagtgcgcagagcGggagcgaggggggcagcggc	9	2	22	8	4	0	3	0	1	0	2	0	5	0	4	0	5	4	2	0	5	1	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:21800421G>A	uc002zur.3	+	3	1467	c.1237G>A	c.(1237-1239)GGG>AGG	p.G413R	HIC2_uc002zus.3_Missense_Mutation_p.G413R	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	413					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				TGCGCAGAGCGGGAGCGAGGG	0.647													7	62					0	0	0.004482	0	0		A	21800421	A	A	21800421	3	1	157	1	0	0	0	0	1	0	0	0	7118	1116	39	1	1243	1	HIC2	22	21800421	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	879514	21800421	29504145	1380	86940											
CCDC116	164592	broad.mit.edu	37	chr22	21988657	21988657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccggcaccgtgtacggcCgaccctctgcactggacacc	8	5	10	18	4	1	0	0	0	1	0	1	2	1	1	5	3	2	3	5	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:21988657C>T	uc002zve.2	+	3	512	c.419C>T	c.(418-420)CCG>CTG	p.P140L	CCDC116_uc011aih.1_Missense_Mutation_p.P140L	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	140										ovary(1)|skin(1)	2	Colorectal(54;0.105)					CGTGTACGGCCGACCCTCTGC	0.662													21	116					0	0	0.005443	0	0		T	21988657	T	T	21988657	3	4	157	1	0	0	0	0	1	0	0	0	2756	652	23	1	425	1	CCDC116	22	21988657	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	188236	21988657	29315909	1381	86941											
ZNF280A	129025	broad.mit.edu	37	chr22	22868374	22868374	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggaatctctagtgttcatAgccgtcttctttttagtttt	6	20	7	8	1	4	0	1	0	3	0	5	1	4	1	1	1	1	2	1	1	4	9			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:22868374A>G	uc002zwe.2	-	2	1834	c.1581T>C	c.(1579-1581)GCT>GCC	p.A527A	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		tagtgttcatagccgtcttct	0.154													32	146					0	0	0.004878	0	0		G	22868374	G	G	22868374	2	3	157	1	0	0	0	0	0	0	0	1	17839	407	15	3		3	ZNF280A	22	22868374	Silent	SNP	A	TCGA-CG-5728-01A-11D-1600-08	879717	22868374	28436192	1382	86942											
BCR	613	broad.mit.edu	37	chr22	23603147	23603147	+	Missense_Mutation	SNP	A	G	G	1	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	tctcctgcagagtgagctggActtggaaaagggcttggaga	10	9	15	7	0	1	3	0	1	1	2	2	6	1	5	1	4	2	3	1	4	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:23603147A>G	uc002zww.2	+	3	2068	c.1472A>G	c.(1471-1473)GAC>GGC	p.D491G	BCR_uc002zwx.2_Missense_Mutation_p.D491G|BCR_uc011aiy.1_Missense_Mutation_p.D80G|BCR_uc010gtx.1_5'UTR|uc010gty.2_5'Flank	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	491					regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						AGTGAGCTGGACTTGGAAAAG	0.567			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								13	64					0	0	0.00245	0	0		G	23603147	G	G	23603147	3	3	157	1	0	0	0	0	1	0	0	0	1389	275	10	3	1482	3	BCR	22	23603147	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	734773	23603147	27701419	1383	86943											
SEZ6L	23544	broad.mit.edu	37	chr22	26688613	26688613	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcccgccccaagcacgcCttgccccccaagaagaaact	11	3	9	18	2	0	2	0	0	0	2	0	3	0	2	7	1	3	1	7	1	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:26688613C>T	uc003acb.2	+	2	492	c.336C>T	c.(334-336)GCC>GCT	p.A112A	SEZ6L_uc003acc.2_Silent_p.A112A|SEZ6L_uc011akc.1_Silent_p.A112A|SEZ6L_uc003acd.2_Silent_p.A112A|SEZ6L_uc011akd.1_Silent_p.A112A|SEZ6L_uc003ace.2_Silent_p.A112A|SEZ6L_uc003acf.1_5'UTR|SEZ6L_uc010gvc.1_5'UTR	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	112	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CCAAGCACGCCTTGCCCCCCA	0.647													4	22					0	0	0.009096	0	0		T	26688613	T	T	26688613	2	4	157	1	0	0	0	0	0	0	0	1	14168	668	24	4		4	SEZ6L	22	26688613	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3085466	26688613	24615953	1384	86944											
C1QTNF6	114904	broad.mit.edu	37	chr22	37578651	37578651	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcgaagaagcgcttctggcaCggggcgccggggctgcccat	6	5	17	13	5	1	1	0	0	1	1	1	2	1	1	2	5	2	3	2	5	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:37578651C>T	uc003aqw.1	-	2	862	c.357G>A	c.(355-357)CCG>CCA	p.P119P	C1QTNF6_uc003aqx.1_Silent_p.P138P|C1QTNF6_uc003aqy.1_Silent_p.P138P|C1QTNF6_uc003aqz.1_Intron	NM_182486	NP_872292	Q9BXI9	C1QT6_HUMAN	C1q and tumor necrosis factor related protein 6	119	Collagen-like.					collagen					0						GCTTCTGGCACGGGGCGCCGG	0.672													14	56					0	0	0.00245	0	0		T	37578651	T	T	37578651	2	4	157	1	0	0	0	0	0	0	0	1	1970	523	19	1		1	C1QTNF6	22	37578651	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	10890038	37578651	13725915	1385	86945											
PDGFB	5155	broad.mit.edu	37	chr22	39626130	39626130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcttcgggtcacaggcCgtgcagctgccactgtctca	5	8	13	15	3	2	0	2	0	1	0	4	0	2	0	3	3	3	3	3	3	0	1	rs146204796		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:39626130C>T	uc003axf.2	-	5	1549	c.560G>A	c.(559-561)CGG>CAG	p.R187Q	PDGFB_uc003axe.2_Missense_Mutation_p.R172Q	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	187					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	GGTCACAGGCCGTGCAGCTGC	0.617			T	COL1A1	DFSP								8	47					0	0	0.003163	0	0		T	39626130	T	T	39626130	3	4	157	1	0	0	0	0	1	0	0	0	11677	652	23	1	173	1	PDGFB	22	39626130	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2047479	39626130	11678436	1386	86946											
MGAT3	4248	broad.mit.edu	37	chr22	39884756	39884756	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggctggttcgacggcacGcagcaggagtacccgcctgc	6	5	17	13	4	0	0	0	0	0	0	1	2	0	1	2	5	3	6	2	5	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:39884756G>A	uc003axv.3	+	2	1643	c.1404G>A	c.(1402-1404)ACG>ACA	p.T468T	MGAT3_uc010gxy.2_Silent_p.T468T	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	468	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					TCGACGGCACGCAGCAGGAGT	0.632													3	16					0	0	0.004672	0	0		A	39884756	A	A	39884756	2	1	157	1	0	0	0	0	0	0	0	1	9562	1074	38	1		1	MGAT3	22	39884756	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	258626	39884756	11419810	1387	86947											
TNRC6B	23112	broad.mit.edu	37	chr22	40662758	40662758	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcttctggttcgtggggaGgcccacccccaccacctcca	6	7	11	17	1	1	0	0	0	1	0	3	1	2	1	6	5	0	2	6	5	0	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:40662758G>T	uc011aor.1	+	5	2735	c.2524G>T	c.(2524-2526)GGC>TGC	p.G842C	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Missense_Mutation_p.G842C|TNRC6B_uc003ayo.2_Missense_Mutation_p.G646C	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	842	Pro-rich.				gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						TTCGTGGGGAGGCCCACCCCC	0.622													6	17					1.58986e-06	1.67104e-06	0.008291	1	0		T	40662758	T	T	40662758	3	4	157	1	0	0	0	0	1	0	0	0	16366	1000	35	5	2663	5	TNRC6B	22	40662758	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	778002	40662758	10641808	1388	86948											
MKL1	57591	broad.mit.edu	37	chr22	40814610	40814610	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccggggccacagcacaaGggtctatgtggttggtggct	6	8	16	11	1	1	0	0	0	1	0	1	0	1	0	3	6	1	3	3	6	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:40814610G>T	uc003ayv.1	-	9	2039	c.1832C>A	c.(1831-1833)CCT>CAT	p.P611H	MKL1_uc003ayw.1_Missense_Mutation_p.P611H|MKL1_uc010gye.1_Missense_Mutation_p.P611H|MKL1_uc010gyf.1_Missense_Mutation_p.P561H	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	611	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CACAGCACAAGGGTCTATGTG	0.697			T	RBM15	acute megakaryocytic leukemia								4	24					0.000602214	0.000617581	0.000602	1	0		T	40814610	T	T	40814610	3	4	157	1	0	0	0	0	1	0	0	0	9619	1000	35	5	979	5	MKL1	22	40814610	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	151852	40814610	10489956	1389	86949											
TOB2	10766	broad.mit.edu	37	chr22	41832815	41832815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttggtggcagcgaaggaggCggtggtgaaggtgatgggct	7	9	21	4	2	0	2	0	2	0	0	0	4	0	3	0	8	1	2	0	8	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:41832815C>T	uc003azz.1	-	2	1242	c.535G>A	c.(535-537)GCC>ACC	p.A179T		NM_016272	NP_057356	Q14106	TOB2_HUMAN	transducer of ERBB2, 2	179					female gamete generation|negative regulation of cell proliferation	cytoplasm|nucleus				ovary(1)	1						GCGAAGGAGGCGGTGGTGAAG	0.637													13	40					0	0	0.013537	0	0		T	41832815	T	T	41832815	3	4	157	1	0	0	0	0	1	0	0	0	16373	768	27	1	503	1	TOB2	22	41832815	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1018205	41832815	9471751	1390	86950											
TTLL1	25809	broad.mit.edu	37	chr22	43435868	43435868	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaccctgacggcttctcaGctcccggtcagccccgtcac	5	8	9	19	3	3	2	3	2	1	0	5	2	4	2	4	2	2	2	4	2	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:43435868G>T	uc003bdi.2	-	11	1427	c.1186C>A	c.(1186-1188)CTG>ATG	p.L396M	TTLL1_uc010gzh.2_Missense_Mutation_p.L367M|TTLL1_uc003bdj.2_Missense_Mutation_p.L282M|TTLL1_uc003bdh.2_Missense_Mutation_p.L358M	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	396					protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		CGGCTTCTCAGCTCCCGGTCA	0.617													18	134					1.33834e-09	1.43072e-09	0.007413	1	0		T	43435868	T	T	43435868	3	4	157	1	0	0	0	0	1	0	0	0	16748	962	34	5	89	5	TTLL1	22	43435868	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1603053	43435868	7868698	1391	86951											
EFCAB6	64800	broad.mit.edu	37	chr22	44011785	44011785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaagctagttctgaatccGcaaccttctgttttggtctt	8	15	7	11	1	3	1	0	1	3	0	4	1	4	1	2	1	2	4	2	1	4	6			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:44011785G>A	uc003bdy.1	-	21	2698	c.2483C>T	c.(2482-2484)GCG>GTG	p.A828V	EFCAB6_uc003bdz.1_Missense_Mutation_p.A676V|EFCAB6_uc010gzi.1_Missense_Mutation_p.A676V|EFCAB6_uc010gzj.1_Intron	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	828					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TTCTGAATCCGCAACCTTCTG	0.368													4	56					0	0	0.000602	0	0		A	44011785	A	A	44011785	3	1	157	1	0	0	0	0	1	0	0	0	4945	1087	38	1	2070	1	EFCAB6	22	44011785	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	575917	44011785	7292781	1392	86952											
PNPLA5	150379	broad.mit.edu	37	chr22	44287040	44287040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagccgctgggaggccaggaCgtgggcgtcggggggcagag	6	3	22	10	4	0	1	0	0	0	1	1	3	0	3	2	7	1	2	2	7	0	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:44287040C>T	uc003beg.2	-	2	425	c.328G>A	c.(328-330)GTC>ATC	p.V110I	PNPLA5_uc011aqc.1_5'UTR|PNPLA5_uc003beh.2_Intron	NM_138814	NP_620169	Q7Z6Z6	PLPL5_HUMAN	patatin-like phospholipase domain containing 5	110	Patatin.				lipid catabolic process		hydrolase activity				0		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				GAGGCCAGGACGTGGGCGTCG	0.657													3	8					0	0	0.004672	0	0		T	44287040	T	T	44287040	3	4	157	1	0	0	0	0	1	0	0	0	12187	536	19	1	993	1	PNPLA5	22	44287040	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	275255	44287040	7017526	1393	86953											
FBLN1	2192	broad.mit.edu	37	chr22	45970515	45970515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcgctgcctaccttccgcGagttcacccgccctgaaggt	5	10	9	17	4	2	1	1	1	1	0	4	2	3	1	5	1	2	2	5	1	2	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:45970515G>A	uc003bgj.1	+	15	1969	c.1822G>A	c.(1822-1824)GAG>AAG	p.E608K		NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	608					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		TACCTTCCGCGAGTTCACCCG	0.647													9	30					0	0	0.004482	0	0		A	45970515	A	A	45970515	3	1	157	1	0	0	0	0	1	0	0	0	5712	1059	37	1	2360	1	FBLN1	22	45970515	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1683475	45970515	5334051	1394	86954											
PPARA	5465	broad.mit.edu	37	chr22	46631044	46631044	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactagatcgtcctggccttCtaaacgtaggacacattgaa	12	10	9	10	2	1	2	0	1	1	1	3	4	2	3	2	2	1	1	2	2	5	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:46631044C>A	uc003bgw.1	+	9	1440	c.1174C>A	c.(1174-1176)CTA>ATA	p.L392I	PPARA_uc003bgx.1_Missense_Mutation_p.L392I|PPARA_uc010hab.1_Missense_Mutation_p.L392I|PPARA_uc003bhb.1_Missense_Mutation_p.L392I|PPARA_uc010hac.1_Missense_Mutation_p.L189I	NM_005036	NP_005027	Q07869	PPARA_HUMAN	peroxisome proliferative activated receptor,	392	Ligand-binding.|Required for heterodimerization with RXRA.				fatty acid metabolic process|fatty acid transport|negative regulation of appetite|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fatty acid beta-oxidation|regulation of cellular ketone metabolic process by positive regulation of transcription from an RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|ligand-regulated transcription factor activity|lipid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|ubiquitin conjugating enzyme binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00522)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Clofibrate(DB00636)|Fenofibrate(DB01039)|Gemfibrozil(DB01241)|Simvastatin(DB00641)	TCCTGGCCTTCTAAACGTAGG	0.448													30	92					8.4185e-14	9.13854e-14	0.012213	1	0		A	46631044	A	A	46631044	3	1	157	1	0	0	0	0	1	0	0	0	12316	912	32	5	1196	5	PPARA	22	46631044	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	660529	46631044	4673522	1395	86955											
CELSR1	9620	broad.mit.edu	37	chr22	46794456	46794456	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaatccacggcgcacggagaCcttgtcttcagaggcgcctc	8	7	12	14	4	2	2	1	0	1	2	4	4	3	2	3	3	0	1	3	3	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:46794456C>G	uc003bhw.1	-	11	5491	c.5491G>C	c.(5491-5493)GTC>CTC	p.V1831L	CELSR1_uc011arc.1_Missense_Mutation_p.V152L	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1831	Extracellular (Potential).|Laminin G-like 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CGCACGGAGACCTTGTCTTCA	0.692													15	37					0	0	0.00245	0	0		G	46794456	G	G	46794456	3	3	157	1	0	0	0	0	1	0	0	0	3224	507	18	5	3653	5	CELSR1	22	46794456	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	163412	46794456	4510110	1396	86956											
ALG12	79087	broad.mit.edu	37	chr22	50301584	50301584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtagaagtaccacagcagCggggaggtctgcgggctggg	9	5	19	8	2	1	1	0	0	1	1	1	3	1	2	1	5	4	4	1	5	3	2	rs138060012		TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:50301584C>T	uc003biy.2	-	7	1051	c.777G>A	c.(775-777)CCG>CCA	p.P259P		NM_024105	NP_077010	Q9BV10	ALG12_HUMAN	alpha-1,6-mannosyltransferase ALG12	259					dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane					0		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)		BRCA - Breast invasive adenocarcinoma(115;0.199)|LUAD - Lung adenocarcinoma(64;0.247)		ACCACAGCAGCGGGGAGGTCT	0.657													4	52					0	0	0.009096	0	0		T	50301584	T	T	50301584	2	4	157	1	0	0	0	0	0	0	0	1	514	755	27	1		1	ALG12	22	50301584	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	3507128	50301584	1002982	1397	86957											
HDAC10	83933	broad.mit.edu	37	chr22	50686680	50686680	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggaggctcttccagtgcGgggcctgggcagcacgggca	5	6	18	12	2	1	0	0	0	1	0	2	1	2	1	2	6	2	5	2	6	0	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:50686680G>T	uc003bkg.2	-	12	1428	c.1055C>A	c.(1054-1056)CCG>CAG	p.P352Q	HDAC10_uc003bke.2_Missense_Mutation_p.P78Q|HDAC10_uc003bkf.2_Missense_Mutation_p.P78Q|HDAC10_uc010hav.2_Missense_Mutation_p.P332Q|HDAC10_uc003bkh.2_Missense_Mutation_p.P145Q|HDAC10_uc003bki.2_Missense_Mutation_p.P302Q|HDAC10_uc003bkj.2_RNA|HDAC10_uc003bkk.1_5'UTR	NM_032019	NP_114408	Q969S8	HDA10_HUMAN	histone deacetylase 10 isoform 1	352					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nucleus	histone deacetylase activity|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CTTCCAGTGCGGGGCCTGGGC	0.652													17	75					1.5739e-10	1.69004e-10	0.004007	1	0		T	50686680	T	T	50686680	3	4	157	1	0	0	0	0	1	0	0	0	7021	1116	39	5	990	5	HDAC10	22	50686680	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	385096	50686680	617886	1398	86958											
PLXNB2	23654	broad.mit.edu	37	chr22	50714329	50714329	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaccctacctcgtcatagtActtctgcgtgtattggtaga	8	14	9	10	2	2	2	1	1	1	1	3	2	2	2	2	1	3	3	2	1	5	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chr22:50714329A>G	uc003bkv.3	-	36	5507	c.5401T>C	c.(5401-5403)TAC>CAC	p.Y1801H	PLXNB2_uc003bkt.1_Missense_Mutation_p.Y593H|PLXNB2_uc003bku.1_Missense_Mutation_p.Y786H	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1801	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TCGTCATAGTACTTCTGCGTG	0.647											OREG0026679	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	35					0	0	0.001168	0	0		G	50714329	G	G	50714329	3	3	157	1	0	0	0	0	1	0	0	0	12143	391	14	3	123	3	PLXNB2	22	50714329	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	27649	50714329	590237	1399	86959											
NLGN4X	57502	broad.mit.edu	37	chrX	5827153	5827153	+	Missense_Mutation	SNP	A	C	C	1	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	gaggccccagcccccgagccAaagatggtcactctcttggg	8	6	12	15	1	2	1	1	0	1	1	3	3	2	1	5	3	2	0	5	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:5827153A>C	uc010ndh.2	-	4	1254	c.753T>G	c.(751-753)TTT>TTG	p.F251L	NLGN4X_uc004crp.2_Missense_Mutation_p.F271L|NLGN4X_uc004crq.2_Missense_Mutation_p.F251L|NLGN4X_uc010ndi.2_Missense_Mutation_p.F288L|NLGN4X_uc004crr.2_Missense_Mutation_p.F251L|NLGN4X_uc010ndj.2_Missense_Mutation_p.F251L	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	251	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CCCCCGAGCCAAAGATGGTCA	0.577													17	59					0	0	0.00499	0	0		C	5827153	C	C	5827153	3	2	157	1	0	0	0	0	1	0	0	0	10483	127	5	5	1709	5	NLGN4X	23	5827153	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08		5827153	149443407	1400	86960											
AP1S2	8905	broad.mit.edu	37	chrX	15870579	15870579	+	Silent	SNP	T	G	G	0	1	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	atctttttcttctctttgtcTgatagtgggacataccattt	7	20	6	8	0	4	1	0	1	4	0	5	2	4	2	1	1	1	0	1	1	2	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:15870579T>G	uc004cxi.2	-	2	359	c.69A>C	c.(67-69)TCA>TCC	p.S23S	AP1S2_uc004cxh.2_Silent_p.S23S|AP1S2_uc010nex.2_Silent_p.S65S|AP1S2_uc011mis.1_Silent_p.S65S|AP1S2_uc011mit.1_Silent_p.S65S|AP1S2_uc011miu.1_Silent_p.S65S	NM_003916	NP_003907	P56377	AP1S2_HUMAN	adaptor-related protein complex 1 sigma 2	23					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	AP-type membrane coat adaptor complex|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein transporter activity				0	Hepatocellular(33;0.183)					tctctttgtctgatagtggga	0.254													20	71					0	0	0.014323	0	0		G	15870579	G	G	15870579	2	3	157	1	0	0	0	0	0	0	0	1	737	1567	55	5		5	AP1S2	23	15870579	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	10043426	15870579	139399981	1401	86961											
PHKA2	5256	broad.mit.edu	37	chrX	18913264	18913264	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctcatcgtacctctcgggTcgtcgaggatgggaggacat	7	11	13	10	4	2	0	1	0	2	0	7	4	2	3	1	4	1	1	1	4	1	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:18913264T>C	uc004cyv.3	-	31	3758	c.3328A>G	c.(3328-3330)ACC>GCC	p.T1110A	PHKA2_uc004cyu.3_Missense_Mutation_p.T416A|PHKA2_uc010nfe.1_Missense_Mutation_p.T142A|PHKA2_uc010nff.1_RNA	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	1110					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					ACCTCTCGGGTCGTCGAGGAT	0.532													32	124					0	0	0.004878	0	0		C	18913264	C	C	18913264	3	2	157	1	0	0	0	0	1	0	0	0	11863	1667	58	3	391	3	PHKA2	23	18913264	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	3042685	18913264	136357296	1402	86962											
ZFX	7543	broad.mit.edu	37	chrX	24229411	24229411	+	Missense_Mutation	SNP	A	G	G	1	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	agactatcctcaccggtgtgAgtactgcaagaaaggcttcc	11	9	10	11	1	1	3	1	1	0	2	3	3	3	3	3	2	2	3	3	2	4	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:24229411A>G	uc004dbf.2	+	9	2594	c.2336A>G	c.(2335-2337)GAG>GGG	p.E779G	ZFX_uc004dbe.2_3'UTR|ZFX_uc011mjv.1_Missense_Mutation_p.E818G|ZFX_uc010nfz.2_Missense_Mutation_p.E435G	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	779	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						CACCGGTGTGAGTACTGCAAG	0.448													59	137					0	0	0.01441	0	0		G	24229411	G	G	24229411	3	3	157	1	0	0	0	0	1	0	0	0	17686	304	11	3	2421	3	ZFX	23	24229411	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	5316147	24229411	131041149	1403	86963											
MAGEB1	4112	broad.mit.edu	37	chrX	30268697	30268697	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagggtctcaaggttgctcaCgccactgcagcagagaaaga	12	6	12	11	1	2	2	2	0	1	2	3	3	2	2	1	2	3	4	1	2	2	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:30268697C>T	uc004dcc.2	+	4	407	c.87C>T	c.(85-87)CAC>CAT	p.H29H	MAGEB1_uc004dcd.2_Silent_p.H29H|MAGEB1_uc004dce.2_Silent_p.H29H	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	29											0						AGGTTGCTCACGCCACTGCAG	0.602													6	13					0	0	0.001168	0	0		T	30268697	T	T	30268697	2	4	157	1	0	0	0	0	0	0	0	1	9190	535	19	1		1	MAGEB1	23	30268697	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	6039286	30268697	125001863	1404	86964											
DMD	1756	broad.mit.edu	37	chrX	31164461	31164461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagcagcataggctgactgCtgtcggacctctgtagagag	9	8	15	9	1	1	2	0	1	1	1	2	5	1	4	1	3	3	5	1	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:31164461C>T	uc004dda.1	-	76	11112	c.10868G>A	c.(10867-10869)AGC>AAC	p.S3623N	DMD_uc004dcq.1_Missense_Mutation_p.S894N|DMD_uc004dcr.1_Missense_Mutation_p.S1043N|DMD_uc004dcs.1_Missense_Mutation_p.S1053N|DMD_uc004dct.1_Missense_Mutation_p.S1163N|DMD_uc004dcu.1_Missense_Mutation_p.S1163N|DMD_uc004dcv.1_Missense_Mutation_p.S1150N|DMD_uc004dcw.2_Missense_Mutation_p.S2279N|DMD_uc004dcx.2_Missense_Mutation_p.S2282N|DMD_uc004dcz.2_Missense_Mutation_p.S3500N|DMD_uc004dcy.1_Missense_Mutation_p.S3619N|DMD_uc004ddb.1_Missense_Mutation_p.S3615N|DMD_uc004dcm.1_Missense_Mutation_p.S555N|DMD_uc004dcn.1_Missense_Mutation_p.S542N|DMD_uc004dco.1_Missense_Mutation_p.S555N|DMD_uc004dcp.1_Missense_Mutation_p.S542N|DMD_uc011mkb.1_Missense_Mutation_p.S445N	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3623					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGGCTGACTGCTGTCGGACCT	0.493													31	66					0	0	0.013726	0	0		T	31164461	T	T	31164461	3	4	157	1	0	0	0	0	1	0	0	0	4586	797	28	2	291	2	DMD	23	31164461	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	895764	31164461	124106099	1405	86965											
CXorf36	79742	broad.mit.edu	37	chrX	45051067	45051067	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgttttccgcaggacacGctcaatgctgcaggtctttg	6	13	10	12	2	3	0	1	0	2	0	4	1	4	1	1	2	2	5	1	2	1	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:45051067G>T	uc004dgg.2	-	2	502	c.427C>A	c.(427-429)CGT>AGT	p.R143S	CXorf36_uc004dgi.3_Missense_Mutation_p.R143S	NM_176819	NP_789789	Q9H7Y0	CX036_HUMAN	hypothetical protein LOC79742 isoform 1	143						extracellular region				lung(1)	1						CGCAGGACACGCTCAATGCTG	0.557													27	116					6.38683e-12	6.88001e-12	0.008361	1	0		T	45051067	T	T	45051067	3	4	157	1	0	0	0	0	1	0	0	0	4109	1087	38	5	945	5	CXorf36	23	45051067	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	13886606	45051067	110219493	1406	86966											
SLC9A7	84679	broad.mit.edu	37	chrX	46513103	46513103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacatgaggaagaacagcGccgtctccagcagggggaag	13	3	16	9	2	1	2	0	1	1	1	2	5	1	5	2	4	3	1	2	4	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:46513103G>A	uc004dgu.1	-	8	1093	c.1085C>T	c.(1084-1086)GCG>GTG	p.A362V		NM_032591	NP_115980	Q96T83	SL9A7_HUMAN	solute carrier family 9, member 7	362	Helical; (Potential).				regulation of pH	Golgi membrane|integral to membrane|recycling endosome membrane|trans-Golgi network	potassium:hydrogen antiporter activity|protein homodimerization activity|sodium:hydrogen antiporter activity			ovary(2)	2						GAAGAACAGCGCCGTCTCCAG	0.527													23	83					0	0	0.003954	0	0		A	46513103	A	A	46513103	3	1	157	1	0	0	0	0	1	0	0	0	14744	1087	38	1	1132	1	SLC9A7	23	46513103	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1462036	46513103	108757457	1407	86967											
CDK16	5127	broad.mit.edu	37	chrX	47085414	47085414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgggaacatcatcaacatGcacaacgtgaaagtgggtgt	13	9	12	7	1	2	1	2	1	0	0	2	2	2	2	0	2	4	1	0	2	4	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:47085414G>A	uc004dho.2	+	8	1176	c.780G>A	c.(778-780)ATG>ATA	p.M260I	CDK16_uc011mli.1_Missense_Mutation_p.M266I|CDK16_uc011mlj.1_Missense_Mutation_p.M260I|CDK16_uc011mlk.1_Missense_Mutation_p.M260I|CDK16_uc011mll.1_Missense_Mutation_p.M334I	NM_006201	NP_006192	Q00536	CDK16_HUMAN	PCTAIRE protein kinase 1 isoform 1	260	Protein kinase.						ATP binding|cyclin-dependent protein kinase activity|protein binding			lung(1)	1						TCATCAACATGCACAACGTGA	0.542													4	15					0	0	0.009096	0	0		A	47085414	A	A	47085414	3	1	157	1	0	0	0	0	1	0	0	0	3135	1319	46	2	1048	2	CDK16	23	47085414	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	572311	47085414	108185146	1408	86968											
MAGED1	9500	broad.mit.edu	37	chrX	51638686	51638686	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaggccccaacagctgatAcccagacccagaatgtaaat	15	6	7	13	0	0	3	0	1	0	2	0	3	0	3	4	1	3	2	4	1	6	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:51638686A>G	uc004dpm.2	+	3	678	c.583A>G	c.(583-585)ACC>GCC	p.T195A	MAGED1_uc004dpn.2_Missense_Mutation_p.T251A|MAGED1_uc004dpo.2_Missense_Mutation_p.T195A	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	195					apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					AACAGCTGATACCCAGACCCA	0.517										Multiple Myeloma(10;0.10)			6	17					0	0	0.001168	0	0		G	51638686	G	G	51638686	3	3	157	1	0	0	0	0	1	0	0	0	9201	391	14	3	761	3	MAGED1	23	51638686	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	4553272	51638686	103631874	1409	86969											
SSX7	280658	broad.mit.edu	37	chrX	52677309	52677309	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcccgaattctttcctcttAccggatgtcttgttaatctt	6	19	5	11	2	4	0	0	0	4	0	6	2	6	1	3	1	1	1	3	1	3	7			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:52677309A>G	uc004dqx.1	-	6	625	c.466_splice	c.e6+1	p.G156_splice		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					CTTTCCTCTTACCGGATGTCT	0.537													60	168					0	0	0.01441	0	0		G	52677309	G	G	52677309	5	3	157	1	0	0	0	0	0	0	1	0	15234	405	14	3	106	3	SSX7	23	52677309	Splice_Site	SNP	A	TCGA-CG-5728-01A-11D-1600-08	1038623	52677309	102593251	1410	86970											
LAS1L	81887	broad.mit.edu	37	chrX	64749749	64749749	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggagccaatccaggacaAagtagcagcctagagggggg	12	5	15	9	0	1	1	0	0	1	1	2	3	2	3	3	5	3	2	3	5	4	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:64749749A>G	uc004dwa.1	-	5	596	c.524T>C	c.(523-525)TTT>TCT	p.F175S	LAS1L_uc004dwc.1_Missense_Mutation_p.F175S|LAS1L_uc004dwd.1_Missense_Mutation_p.F133S	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	175						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						ATCCAGGACAAAGTAGCAGCC	0.572													11	62					0	0	0.007413	0	0		G	64749749	G	G	64749749	3	3	157	1	0	0	0	0	1	0	0	0	8652	14	1	3	1720	3	LAS1L	23	64749749	Missense_Mutation	SNP	A	TCGA-CG-5728-01A-11D-1600-08	12072440	64749749	90520811	1411	86971											
IL2RG	3561	broad.mit.edu	37	chrX	70327614	70327614	+	Frame_Shift_Del	DEL	G	-	-																															caggctttagggtgtaacatGggggggcccagtaggggcta																										TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:70327614delG	uc004dyw.1	-	8	1096	c.1082delC	c.(1081-1083)CCAfs	p.P361fs	CXorf65_uc011mpo.1_5'Flank|CXorf65_uc011mpp.1_5'Flank|IL2RG_uc004dyv.1_Frame_Shift_Del_p.P90fs|IL2RG_uc004dyx.1_Frame_Shift_Del_p.P171fs	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor	361	Cytoplasmic (Potential).				immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	GGTGTAACATGGGGGGGCCCA	0.582									Severe_Combined_Immunodeficiency_X-linked				13	29	---	---	---	---						.	-	70327614	-	-	70327614	7	5	157	1	0	1	0	1	0	0	0	0	7704	1348	47	0	31	0	IL2RG	23	70327614	Frame_Shift_Del	DEL	G	TCGA-CG-5728-01A-11D-1600-08	5577865	70327614	84942946	1412	86972											
MAGEE1	57692	broad.mit.edu	37	chrX	75650564	75650564	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgagtcaagattggagagCaaggcaaggaagctggtgca	13	6	15	7	0	1	3	1	1	0	2	1	5	1	4	1	4	3	4	1	4	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:75650564C>T	uc004ecm.1	+	1	2448	c.2241C>T	c.(2239-2241)AGC>AGT	p.S747S		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	747	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GATTGGAGAGCAAGGCAAGGA	0.468													5	111					0	0	0.000602	0	0		T	75650564	T	T	75650564	2	4	157	1	0	0	0	0	0	0	0	1	9203	709	25	2		2	MAGEE1	23	75650564	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	5322950	75650564	79619996	1413	86973											
PGAM4	441531	broad.mit.edu	37	chrX	77224579	77224579	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgccctggaggctgttgccaTgggctgcaatcagtacacgt	7	10	13	11	1	1	0	1	0	0	0	1	1	1	1	2	3	4	5	2	3	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:77224579T>C	uc004ecy.1	-	1	557	c.557A>G	c.(556-558)CAT>CGT	p.H186R	ATP7A_uc004ecw.2_Intron|ATP7A_uc004ecx.3_Intron	NM_001029891	NP_001025062	Q8N0Y7	PGAM4_HUMAN	bisphosphoglycerate mutase 4	186		By similarity.			glycolysis		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						GCTGTTGCCATGGGCTGCAAT	0.512													62	150					0	0	0.01441	0	0		C	77224579	C	C	77224579	3	2	157	1	0	0	0	0	1	0	0	0	11794	1464	51	3	211	3	PGAM4	23	77224579	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	1574015	77224579	78045981	1414	86974											
CYLC1	1538	broad.mit.edu	37	chrX	83141586	83141586	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccgtggattcataagctGctttaaagaacaactgagca	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	5	4	1	1	5	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:83141586G>T	uc004eei.1	+	5	1971	c.1950G>T	c.(1948-1950)CTG>CTT	p.L650L		NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	650	Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TTCATAAGCTGCTTTAAAGAA	0.388													26	112					9.39395e-14	1.01843e-13	0.00632	1	0		T	83141586	T	T	83141586	2	4	157	1	0	0	0	0	0	0	0	1	4144	1306	46	5		5	CYLC1	23	83141586	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5917007	83141586	72128974	1415	86975											
PCDH11X	27328	broad.mit.edu	37	chrX	91133388	91133388	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttcgttacagcattgtaGgaggaaacacaagagatctg	14	9	12	6	1	1	1	0	0	1	1	2	4	1	3	0	3	3	4	0	3	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:91133388G>T	uc004efk.1	+	2	2994	c.2149G>T	c.(2149-2151)GGA>TGA	p.G717*	PCDH11X_uc004efl.1_Nonsense_Mutation_p.G717*|PCDH11X_uc004efo.1_Nonsense_Mutation_p.G717*|PCDH11X_uc010nmv.1_Nonsense_Mutation_p.G717*|PCDH11X_uc004efm.1_Nonsense_Mutation_p.G717*|PCDH11X_uc004efn.1_Nonsense_Mutation_p.G717*|PCDH11X_uc004efh.1_Nonsense_Mutation_p.G717*|PCDH11X_uc004efj.1_Nonsense_Mutation_p.G717*	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	717	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CAGCATTGTAGGAGGAAACAC	0.428													33	109					4.78724e-31	5.34449e-31	0.01441	1	0		T	91133388	T	T	91133388	4	4	157	1	0	0	0	0	0	1	0	0	11527	1001	35	5	2155	5	PCDH11X	23	91133388	Nonsense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	7991802	91133388	64137172	1416	86976											
ARL13A	392509	broad.mit.edu	37	chrX	100243452	100243452	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagaaggtgaatgttctaGgagaatgagagctcagaata	17	8	13	3	0	2	5	1	2	1	4	2	8	2	5	0	2	1	2	0	2	7	3			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:100243452G>C	uc004ego.2	+	8	946	c.830G>C	c.(829-831)AGG>ACG	p.R277T	ARL13A_uc011mrf.1_Missense_Mutation_p.R277T|ARL13A_uc010nng.2_Intron	NM_001012990	NP_001013008	Q5H913	AR13A_HUMAN	ADP-ribosylation factor-like 13 isoform a	277							GTP binding			ovary(1)	1						GAATGTTCTAGGAGAATGAGA	0.373													7	20					0	0	0.001984	0	0		C	100243452	C	C	100243452	3	2	157	1	0	0	0	0	1	0	0	0	928	1000	35	5	856	5	ARL13A	23	100243452	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	9110064	100243452	55027108	1417	86977											
BHLHB9	80823	broad.mit.edu	37	chrX	102004167	102004167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcagagcctaagactctgGgcaaagccatgggagatttc	11	9	12	9	0	2	3	1	0	1	3	3	4	2	3	2	2	2	1	2	2	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:102004167G>A	uc010nog.2	+	4	815	c.244G>A	c.(244-246)GGC>AGC	p.G82S	BHLHB9_uc011mrq.1_Missense_Mutation_p.G82S|BHLHB9_uc011mrr.1_Missense_Mutation_p.G82S|BHLHB9_uc011mrs.1_Missense_Mutation_p.G82S|BHLHB9_uc011mrt.1_Missense_Mutation_p.G82S|BHLHB9_uc004ejo.2_Missense_Mutation_p.G82S|BHLHB9_uc011mru.1_Missense_Mutation_p.G82S|BHLHB9_uc011mrv.1_Missense_Mutation_p.G82S	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	82						cytoplasm|nucleus	binding			ovary(2)	2						TAAGACTCTGGGCAAAGCCAT	0.517													18	70					0	0	0.006122	0	0		A	102004167	A	A	102004167	3	1	157	1	0	0	0	0	1	0	0	0	1421	1232	43	4	246	4	BHLHB9	23	102004167	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1760715	102004167	53266393	1418	86978											
ZCCHC12	170261	broad.mit.edu	37	chrX	117959502	117959502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctgcccgcgaggtcatgCgtgtgcttcaggcgaccaac	6	7	13	15	4	2	0	2	0	0	0	2	2	2	0	3	2	4	1	3	2	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:117959502C>T	uc004equ.2	+	4	768	c.295C>T	c.(295-297)CGT>TGT	p.R99C		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	99					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						cgaggtcatgcgtgtgcttca	0													24	252					0	0	0.014323	0	0		T	117959502	T	T	117959502	3	4	157	1	0	0	0	0	1	0	0	0	17606	768	27	1	297	1	ZCCHC12	23	117959502	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	15955335	117959502	37311058	1419	86979											
C1GALT1C1	29071	broad.mit.edu	37	chrX	119760722	119760722	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actttaacattttcagaactGaagaactctgctttgtcaca	13	14	5	9	0	3	3	2	1	1	2	3	3	3	3	0	0	4	1	0	0	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:119760722G>A	uc004esy.2	-	3	647	c.300C>T	c.(298-300)TTC>TTT	p.F100F	C1GALT1C1_uc004esz.2_Silent_p.F100F	NM_152692	NP_689905	Q96EU7	C1GLC_HUMAN	C1GALT1-specific chaperone 1	100	Lumenal (Potential).					integral to membrane					0						TTTCAGAACTGAAGAACTCTG	0.358													17	171					0	0	0.006122	0	0		A	119760722	A	A	119760722	2	1	157	1	0	0	0	0	0	0	0	1	1956	1281	45	4		4	C1GALT1C1	23	119760722	Silent	SNP	G	TCGA-CG-5728-01A-11D-1600-08	1801220	119760722	35509838	1420	86980											
THOC2	57187	broad.mit.edu	37	chrX	122759791	122759791	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaaagaagtgtggaaaaaTttggagttttctgttgatgt	13	14	12	2	0	1	2	0	1	1	1	1	4	1	4	0	2	1	3	0	2	4	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:122759791T>A	uc004etu.2	-	25	3061	c.3029A>T	c.(3028-3030)AAT>ATT	p.N1010I	THOC2_uc004etw.1_5'Flank	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1010					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TGTGGAAAAATTTGGAGTTTT	0.313													35	129					0	0	0.00874	0	0		A	122759791	A	A	122759791	3	1	157	1	0	0	0	0	1	0	0	0	15890	1493	52	5	1808	5	THOC2	23	122759791	Missense_Mutation	SNP	T	TCGA-CG-5728-01A-11D-1600-08	2999069	122759791	32510769	1421	86981											
ODZ1	10178	broad.mit.edu	37	chrX	123695633	123695633	+	Silent	SNP	T	C	C	0	1	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	ccattttgatccagggtacaTcgtccatttccaaagcagag	11	11	8	11	1	0	2	0	1	0	1	4	2	3	2	4	1	2	2	4	1	2	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:123695633T>C	uc004euj.2	-	14	2386	c.2322A>G	c.(2320-2322)CGA>CGG	p.R774R	ODZ1_uc011muj.1_Silent_p.R773R|ODZ1_uc010nqy.2_Silent_p.R774R	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	774	EGF-like 8.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CCAGGGTACATCGTCCATTTC	0.478													41	128					0	0	0.009718	0	0		C	123695633	C	C	123695633	2	2	157	1	0	0	0	0	0	0	0	1	10853	1422	50	3		3	ODZ1	23	123695633	Silent	SNP	T	TCGA-CG-5728-01A-11D-1600-08	935842	123695633	31574927	1422	86982											
XPNPEP2	7512	broad.mit.edu	37	chrX	128896746	128896746	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtagaagcaaagaccaaGgtaaactgccaccaggatgg	15	5	13	8	0	0	2	0	0	0	2	0	3	0	3	3	4	3	3	3	4	6	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:128896746G>T	uc004eut.1	+	19	1984	c.1740G>T	c.(1738-1740)AAG>AAT	p.K580N		NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	580					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						CAAAGACCAAGGTAAACTGCC	0.527													4	87					0.00909568	0.00919923	0.009096	1	0		T	128896746	T	T	128896746	3	4	157	1	0	0	0	0	1	0	0	0	17469	1014	35	5	1814	5	XPNPEP2	23	128896746	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	5201113	128896746	26373814	1423	86983											
AIFM1	9131	broad.mit.edu	37	chrX	129272624	129272624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagcccccaccgataatcGtaattgatttgacttcccgt	10	11	8	12	3	0	2	0	2	0	0	2	4	1	3	4	1	1	1	4	1	3	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:129272624G>A	uc004evg.2	-	9	1089	c.911C>T	c.(910-912)ACG>ATG	p.T304M	AIFM1_uc011mur.1_5'Flank|AIFM1_uc011mus.1_Missense_Mutation_p.T304M|AIFM1_uc004evh.2_Missense_Mutation_p.T300M|AIFM1_uc004evi.2_Intron|AIFM1_uc004evk.2_RNA	NM_004208	NP_004199	O95831	AIFM1_HUMAN	programmed cell death 8 isoform 1	304	FAD-dependent oxidoreductase (By similarity).				activation of caspase activity|apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change	cytosol|mitochondrial inner membrane|mitochondrial intermembrane space|nucleus|perinuclear region of cytoplasm	DNA binding|electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			ovary(4)|central_nervous_system(1)	5						ACCGATAATCGTAATTGATTT	0.438													25	63					0	0	0.012213	0	0		A	129272624	A	A	129272624	3	1	157	1	0	0	0	0	1	0	0	0	426	1145	40	1	974	1	AIFM1	23	129272624	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	375878	129272624	25997936	1424	86984											
USP26	83844	broad.mit.edu	37	chrX	132161368	132161368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccaaattggggaggccgtggCatattttctctggaaataat	11	12	11	7	1	1	0	0	0	1	0	2	2	1	2	2	5	0	1	2	5	4	5			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:132161368C>T	uc010nrm.1	-	6	1351	c.881G>A	c.(880-882)TGC>TAC	p.C294Y	USP26_uc011mvf.1_Missense_Mutation_p.C294Y	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	294					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					GAGGCCGTGGCATATTTTCTC	0.353													11	131					0	0	0.008291	0	0		T	132161368	T	T	132161368	3	4	157	1	0	0	0	0	1	0	0	0	17083	710	25	2	1863	2	USP26	23	132161368	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	2888744	132161368	23109192	1425	86985											
FAM127A	8933	broad.mit.edu	37	chrX	134166475	134166475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgatccggcctgcgacgcGtcgctggaggaacccgattc	6	6	14	15	7	0	0	0	0	0	0	3	5	1	2	4	3	2	1	4	3	1	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:134166475G>A	uc004eyd.2	+	1	143	c.62G>A	c.(61-63)CGT>CAT	p.R21H	uc004eye.1_RNA	NM_001078171	NP_001071639	A6ZKI3	F127A_HUMAN	family with sequence similarity 127, member A	21											0	Acute lymphoblastic leukemia(192;0.000127)					CCTGCGACGCGTCGCTGGAGG	0.637													6	68					0	0	0.001168	0	0		A	134166475	A	A	134166475	3	1	157	1	0	0	0	0	1	0	0	0	5442	1145	40	1	64	1	FAM127A	23	134166475	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	2005107	134166475	21104085	1426	86986											
ZNF449	203523	broad.mit.edu	37	chrX	134494414	134494414	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaggagagaaacctcacCgatgtcctcagtgtggaaaa	13	7	11	10	1	2	1	2	0	0	1	4	5	4	3	4	2	1	0	4	2	3	0			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:134494414C>T	uc004eys.2	+	5	1135	c.970C>T	c.(970-972)CGA>TGA	p.R324*	ZNF449_uc004eyt.2_Nonsense_Mutation_p.R204*|ZNF449_uc004eyu.2_Nonsense_Mutation_p.R130*	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	324	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GAAACCTCACCGATGTCCTCA	0.483													22	90					0	0	0.010504	0	0		T	134494414	T	T	134494414	4	4	157	1	0	0	0	0	0	1	0	0	17945	644	23	1	984	1	ZNF449	23	134494414	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	327939	134494414	20776146	1427	86987											
GPR112	139378	broad.mit.edu	37	chrX	135494507	135494507	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctctgctgtgggtggttgCgattggataactcttctggt	5	15	13	8	1	3	0	0	0	3	0	3	2	3	1	1	4	3	2	1	4	1	4			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:135494507C>T	uc004ezu.1	+	24	9310	c.9019C>T	c.(9019-9021)CGA>TGA	p.R3007*	GPR112_uc010nsb.1_Nonsense_Mutation_p.R2802*	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	3007	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					TGGGTGGTTGCGATTGGATAA	0.398													5	62					0	0	0.000602	0	0		T	135494507	T	T	135494507	4	4	157	1	0	0	0	0	0	1	0	0	6644	760	27	1	9101	1	GPR112	23	135494507	Nonsense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	1000093	135494507	19776053	1428	86988											
GABRA3	2556	broad.mit.edu	37	chrX	151366116	151366116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcactcaccaaagactgtaCgggcaggaacagactctctg	13	7	9	12	1	3	2	2	0	1	2	4	3	3	3	1	2	2	2	1	2	3	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:151366116C>T	uc010ntk.1	-	8	1160	c.920G>A	c.(919-921)CGT>CAT	p.R307H		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	307	Helical; (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AAAGACTGTACGGGCAGGAAC	0.463													22	69					0	0	0.012319	0	0		T	151366116	T	T	151366116	3	4	157	1	0	0	0	0	1	0	0	0	6176	536	19	1	570	1	GABRA3	23	151366116	Missense_Mutation	SNP	C	TCGA-CG-5728-01A-11D-1600-08	15871609	151366116	3904444	1429	86989											
PNMA3	29944	broad.mit.edu	37	chrX	152226635	152226635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgaggctcaagaaaacGgaaacgccacacattctgct	13	7	8	13	3	3	1	1	0	2	1	4	3	3	2	1	2	3	2	1	2	4	1			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:152226635G>A	uc004fhc.2	+	2	1559	c.1223G>A	c.(1222-1224)CGG>CAG	p.R408Q	PNMA5_uc004fha.3_5'Flank|PNMA3_uc004fhd.2_5'Flank	NM_013364	NP_037496	Q9UL41	PNMA3_HUMAN	paraneoplastic cancer-testis-brain antigen	408	Arg-rich.				apoptosis	nucleolus	nucleic acid binding|zinc ion binding			skin(2)|large_intestine(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TCAAGAAAACGGAAACGCCAC	0.582													32	79					0	0	0.009535	0	0		A	152226635	A	A	152226635	3	1	157	1	0	0	0	0	1	0	0	0	12174	1116	39	1	1225	1	PNMA3	23	152226635	Missense_Mutation	SNP	G	TCGA-CG-5728-01A-11D-1600-08	860519	152226635	3043925	1430	86990											
HAUS7	55559	broad.mit.edu	37	chrX	152721027	152721027	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggaagtcagattctggtgCgtggcctggatgatggggcc	7	10	17	7	1	2	2	1	1	1	1	2	4	2	4	2	6	1	0	2	6	2	2			TCGA-CG-5728-01A-11D-1600-08	TCGA-CG-5728-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	49bb40de-9ebf-441a-b9e1-0916ed9db4b0	173dbb7e-7f46-4581-aaf6-7f5b7f734788	g.chrX:152721027C>T	uc004fho.1	-	8	1491	c.933G>A	c.(931-933)ACG>ACA	p.T311T	HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_RNA|HAUS7_uc004fhn.1_Silent_p.T311T|HAUS7_uc004fhp.1_RNA	NM_017518	NP_059988	Q99871	HAUS7_HUMAN	HAUS augmin-like complex subunit 7	311					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleolus|plasma membrane|spindle	thioesterase binding				0						GATTCTGGTGCGTGGCCTGGA	0.602													12	28					0	0	0.013537	0	0		T	152721027	T	T	152721027	2	4	157	1	0	0	0	0	0	0	0	1	6987	755	27	1		1	HAUS7	23	152721027	Silent	SNP	C	TCGA-CG-5728-01A-11D-1600-08	494392	152721027	2549533	1431	86991											
USP48	84196	broad.mit.edu	37	chr1	22032676	22032676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacgatgtagaggacatccGtatcctagaacacaaaaatc	17	7	7	10	2	0	2	0	0	0	2	3	4	2	3	2	1	1	2	2	1	6	3	rs150117994		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:22032676G>A	uc001bfb.2	-	18	2454	c.2216C>T	c.(2215-2217)ACG>ATG	p.T739M	USP48_uc001bfa.2_Missense_Mutation_p.T277M|USP48_uc010odq.1_Missense_Mutation_p.T751M|USP48_uc009vqc.2_Missense_Mutation_p.T673M|USP48_uc001bfc.2_Missense_Mutation_p.T739M|USP48_uc001bfd.1_5'Flank	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	739	DUSP 3.				ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		GAGGACATCCGTATCCTAGAA	0.338													26	46					0	0	0.030593	0	0		A	22032676	A	A	22032676	3	1	158	1	0	0	0	0	1	0	0	0	17105	1145	40	1	931	1	USP48	1	22032676	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		22032676	227217945	1	86992											
ZDHHC18	84243	broad.mit.edu	37	chr1	27176839	27176839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggcaactgtgtggggagaCggaactatcgcttcttctac	8	11	13	9	2	2	1	0	0	2	1	3	3	2	2	0	4	3	2	0	4	4	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:27176839C>T	uc001bnb.2	+	4	789	c.694C>T	c.(694-696)CGG>TGG	p.R232W	ZDHHC18_uc010ofh.1_Missense_Mutation_p.R97W	NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18	232	DHHC-type.					integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|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)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		TGTGGGGAGACGGAACTATCG	0.577													39	54					0	0	0.069456	0	0		T	27176839	T	T	27176839	3	4	158	1	0	0	0	0	1	0	0	0	17633	527	19	1	708	1	ZDHHC18	1	27176839	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	5144163	27176839	222073782	2	86993											
GPR3	2827	broad.mit.edu	37	chr1	27721178	27721178	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccacctacaactccatgatCaaccctatcatctacgcctt	11	10	3	17	1	3	1	2	1	1	0	4	1	4	1	5	0	4	0	5	0	5	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:27721178C>T	uc001bod.2	+	2	971	c.876C>T	c.(874-876)ATC>ATT	p.I292I		NM_005281	NP_005272	P46089	GPR3_HUMAN	G protein-coupled receptor 3	292	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane				ovary(1)	1		Breast(348;1.53e-05)|Ovarian(437;0.0606)|all_lung(284;0.157)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;2.81e-26)|Colorectal(126;1.24e-08)|KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;4.45e-06)|Lung(427;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|LUSC - Lung squamous cell carcinoma(448;0.008)|READ - Rectum adenocarcinoma(331;0.0419)		ACTCCATGATCAACCCTATCA	0.557													20	153					0	0	0.069288	0	0		T	27721178	T	T	27721178	2	4	158	1	0	0	0	0	0	0	0	1	6701	816	29	4		4	GPR3	1	27721178	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	544339	27721178	221529443	3	86994											
CSMD2	114784	broad.mit.edu	37	chr1	34238227	34238227	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttttggcatgtgattgcctTctgtcccaccagctcaaagg	7	13	9	12	0	2	1	1	1	1	0	3	1	3	1	3	2	2	2	3	2	1	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:34238227T>C	uc001bxn.1	-	13	1698	c.1669A>G	c.(1669-1671)AAG>GAG	p.K557E	CSMD2_uc001bxm.1_Missense_Mutation_p.K597E	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	557	Sushi 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GTGATTGCCTTCTGTCCCACC	0.572													28	60					0	0	0.045705	0	0		C	34238227	C	C	34238227	3	2	158	1	0	0	0	0	1	0	0	0	3948	1792	62	3	9022	3	CSMD2	1	34238227	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	6517049	34238227	215012394	4	86995											
INPP5B	3633	broad.mit.edu	37	chr1	38351367	38351367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggctgacaaaactgcattCgagaacaaatgtccttatag	15	9	8	9	1	0	2	0	1	0	1	2	3	1	2	1	1	3	2	1	1	6	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:38351367C>T	uc001ccg.1	-	13	1356	c.1262G>A	c.(1261-1263)CGA>CAA	p.R421Q	INPP5B_uc009vvk.1_Missense_Mutation_p.R362Q|INPP5B_uc001ccf.1_Missense_Mutation_p.R257Q|INPP5B_uc010oij.1_Intron	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	501					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AAACTGCATTCGAGAACAAAT	0.507													47	104					0	0	0.048971	0	0		T	38351367	T	T	38351367	3	4	158	1	0	0	0	0	1	0	0	0	7771	884	31	1	1527	1	INPP5B	1	38351367	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	4113140	38351367	210899254	5	86996											
HIVEP3	59269	broad.mit.edu	37	chr1	42050416	42050416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctttggtcagccgcttcCggggacttccctcagccttc	3	12	9	17	2	2	0	2	0	0	0	6	1	5	1	5	3	2	1	5	3	0	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:42050416C>T	uc001cgz.3	-	4	1266	c.53G>A	c.(52-54)CGG>CAG	p.R18Q	HIVEP3_uc001cha.3_Missense_Mutation_p.R18Q|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	18					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				CAGCCGCTTCCGGGGACTTCC	0.582													76	224					0	0	0.048971	0	0		T	42050416	T	T	42050416	3	4	158	1	0	0	0	0	1	0	0	0	7204	652	23	1	7191	1	HIVEP3	1	42050416	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	3699049	42050416	207200205	6	86997											
SLC2A1	6513	broad.mit.edu	37	chr1	43393459	43393459	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggccacgatgctcagataGgacatccagggtagctgctc	10	8	12	11	1	1	1	1	0	0	1	3	3	2	2	2	3	3	4	2	3	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:43393459G>T	uc001cik.2	-	9	1620	c.1095C>A	c.(1093-1095)TCC>TCA	p.S365S		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	365	Extracellular (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	TGCTCAGATAGGACATCCAGG	0.547													7	23					0.00198382	0.00201773	0.02938	1	0		T	43393459	T	T	43393459	2	4	158	1	0	0	0	0	0	0	0	1	14563	987	35	5		5	SLC2A1	1	43393459	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	1343043	43393459	205857162	7	86998											
C1orf168	199920	broad.mit.edu	37	chr1	57257958	57257958	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgggttcctctggagtaagCcccatgcctttttgcccttc	4	14	9	14	0	1	0	0	0	1	0	3	1	2	1	5	2	3	2	5	2	1	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:57257958C>A	uc001cym.3	-	2	934	c.528G>T	c.(526-528)GGG>GGT	p.G176G	C1orf168_uc009vzu.1_RNA|C1orf168_uc009vzv.1_Silent_p.G176G	NM_001004303	NP_001004303	Q5VWT5	CA168_HUMAN	hypothetical protein LOC199920	176										ovary(3)|skin(2)	5						CTGGAGTAAGCCCCATGCCTT	0.488													48	106					2.64894e-19	2.94602e-19	0.048971	1	0		A	57257958	A	A	57257958	2	1	158	1	0	0	0	0	0	0	0	1	2015	726	26	5		5	C1orf168	1	57257958	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	13864499	57257958	191992663	8	86999											
CELSR2	1952	broad.mit.edu	37	chr1	109801247	109801247	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccacgtggtggtcttcaaCgtacagcgggacaccgacgc	9	6	13	13	5	2	0	1	0	1	0	2	3	2	1	2	3	3	1	2	3	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:109801247C>T	uc001dxa.3	+	2	3565	c.3504C>T	c.(3502-3504)AAC>AAT	p.N1168N		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	1168	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		TGGTCTTCAACGTACAGCGGG	0.607													3	1					0	0	0.004672	0	0		T	109801247	T	T	109801247	2	4	158	1	0	0	0	0	0	0	0	1	3225	535	19	1		1	CELSR2	1	109801247	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	52543289	109801247	139449374	9	87000											
SPAG17	200162	broad.mit.edu	37	chr1	118566057	118566057	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ataagacctgaattgggactCctgctcacagcaccatctgc	11	9	8	13	0	2	2	1	1	1	1	3	3	3	3	3	1	3	2	3	1	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:118566057C>T	uc001ehk.2	-	28	4007	c.3939G>A	c.(3937-3939)AGG>AGA	p.R1313R		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1313						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		AATTGGGACTCCTGCTCACAG	0.423													7	65					0	0	0.058154	0	0		T	118566057	T	T	118566057	2	4	158	1	0	0	0	0	0	0	0	1	15004	854	30	4		4	SPAG17	1	118566057	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	8764810	118566057	130684564	10	87001											
POLR3C	10623	broad.mit.edu	37	chr1	145608249	145608249	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtgtgtgtctgccagtcGcacaaatgtgtttgatactt	10	14	10	7	1	1	1	0	1	1	0	2	1	1	1	1	0	2	2	1	0	3	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:145608249G>A	uc001eoh.2	-	4	609	c.448C>T	c.(448-450)CGA>TGA	p.R150*	NBPF10_uc001emp.3_Intron|RNF115_uc001eoj.2_5'Flank|RNF115_uc001eok.2_5'Flank|RNF115_uc009wiy.2_5'Flank|POLR3C_uc001eog.2_Nonsense_Mutation_p.R163*|POLR3C_uc001eoi.2_RNA|POLR3C_uc009wix.2_Nonsense_Mutation_p.R150*	NM_006468	NP_006459	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	150					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			TCTGCCAGTCGCACAAATGTG	0.498													4	149					0	0	0.014758	0	0		A	145608249	A	A	145608249	4	1	158	1	0	0	0	0	0	1	0	0	12249	1095	38	1	1204	1	POLR3C	1	145608249	Nonsense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	27042192	145608249	103642372	11	87002											
SF3B4	10262	broad.mit.edu	37	chr1	149895490	149895490	+	Missense_Mutation	SNP	T	A	A	0	1	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	gggaactggtggccggggagTgggtctgggtggagggagag	6	6	25	4	1	1	1	0	0	1	1	1	5	1	4	1	9	1	0	1	9	1	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:149895490T>A	uc001etj.1	-	6	1270	c.1219A>T	c.(1219-1221)ACT>TCT	p.T407S	SF3B4_uc001eti.1_Missense_Mutation_p.T171S|SF3B4_uc001etk.1_Missense_Mutation_p.T407S	NM_005850	NP_005841	Q15427	SF3B4_HUMAN	splicing factor 3b, subunit 4	407						nucleoplasm|U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding			ovary(1)	1	Breast(34;0.0009)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			GGCCGGGGAGTGGGTCTGGGT	0.602													5	6					0	0	0.02938	0	0		A	149895490	A	A	149895490	3	1	158	1	0	0	0	0	1	0	0	0	14178	1696	59	5	59	5	SF3B4	1	149895490	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	4287241	149895490	99355131	12	87003											
FLG	2312	broad.mit.edu	37	chr1	152277533	152277533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggaagtctctgcgtgacGagtgcctgattgtctggagc	8	10	15	8	2	2	3	0	2	2	1	3	6	2	5	1	2	3	0	1	2	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:152277533G>A	uc001ezu.1	-	3	9865	c.9829C>T	c.(9829-9831)CGT>TGT	p.R3277C		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3277	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGCGTGACGAGTGCCTGAT	0.602									Ichthyosis				87	663					0	0	0.048971	0	0		A	152277533	A	A	152277533	3	1	158	1	0	0	0	0	1	0	0	0	5936	1058	37	1	2360	1	FLG	1	152277533	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2382043	152277533	96973088	13	87004											
ADAM15	8751	broad.mit.edu	37	chr1	155028289	155028289	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggatgtggtaacagagacCaagactgtggagttggtgat	11	9	16	5	1	0	3	0	1	0	2	0	6	0	5	1	4	1	2	1	4	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:155028289C>G	uc001fgr.1	+	7	737	c.636C>G	c.(634-636)ACC>ACG	p.T212T	ADAM15_uc001fgq.1_5'UTR|ADAM15_uc009wpc.1_RNA|ADAM15_uc010pet.1_Silent_p.T196T|ADAM15_uc010peu.1_Silent_p.T229T|ADAM15_uc001fgt.1_Silent_p.T212T|ADAM15_uc010pev.1_Silent_p.T222T|ADAM15_uc001fgs.1_Silent_p.T212T|ADAM15_uc001fgu.1_Silent_p.T212T|ADAM15_uc001fgw.1_Silent_p.T212T|ADAM15_uc001fgv.1_Silent_p.T212T|ADAM15_uc001fgx.1_Silent_p.T212T|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	212	Extracellular (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			TAACAGAGACCAAGACTGTGG	0.592													14	64					0	0	0.076483	0	0		G	155028289	G	G	155028289	2	3	158	1	0	0	0	0	0	0	0	1	237	581	21	5		5	ADAM15	1	155028289	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2750756	155028289	94222332	14	87005											
ATP1A2	477	broad.mit.edu	37	chr1	160105320	160105320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcatctctggctctgacGtctctaagcaggcagccgac	7	9	12	13	2	3	1	0	1	3	0	5	2	3	1	1	3	2	4	1	3	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:160105320G>A	uc001fvc.2	+	16	2344	c.2212G>A	c.(2212-2214)GTC>ATC	p.V738I	ATP1A2_uc001fvb.2_Missense_Mutation_p.V738I|ATP1A2_uc001fvd.2_Missense_Mutation_p.V474I	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	738	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	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)			TGGCTCTGACGTCTCTAAGCA	0.597													73	27					0	0	0.048971	0	0		A	160105320	A	A	160105320	3	1	158	1	0	0	0	0	1	0	0	0	1130	1145	40	1	2274	1	ATP1A2	1	160105320	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	5077031	160105320	89145301	15	87006											
SLAMF1	6504	broad.mit.edu	37	chr1	160607204	160607204	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccagtgattttgccattgtGacgacaatgtggatgctttt	8	16	10	7	1	0	2	0	2	0	0	1	4	1	3	2	1	2	1	2	1	1	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:160607204G>A	uc001fwl.3	-	2	538	c.192C>T	c.(190-192)GTC>GTT	p.V64V	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA|SLAMF1_uc001fwm.2_Silent_p.V64V	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	64	Extracellular (Potential).				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			TTGCCATTGTGACGACAATGT	0.463													28	145					0	0	0.037714	0	0		A	160607204	A	A	160607204	2	1	158	1	0	0	0	0	0	0	0	1	14392	1277	45	4		4	SLAMF1	1	160607204	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	501884	160607204	88643417	16	87007											
OLFML2B	25903	broad.mit.edu	37	chr1	161954658	161954658	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgtagtaatagttggttacGtaaatccgctcatccttggc	9	13	9	10	3	1	0	1	0	0	0	3	0	3	0	3	2	1	6	3	2	6	7	rs138789156	by1000genomes	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:161954658G>A	uc001gbu.2	-	7	2011	c.1587C>T	c.(1585-1587)TAC>TAT	p.Y529Y	OLFML2B_uc001gbt.2_Silent_p.Y12Y|OLFML2B_uc010pkq.1_Silent_p.Y530Y	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	529	Olfactomedin-like.									skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			AGTTGGTTACGTAAATCCGCT	0.527													75	245					0	0	0.048971	0	0		A	161954658	A	A	161954658	2	1	158	1	0	0	0	0	0	0	0	1	10877	1140	40	1		1	OLFML2B	1	161954658	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	1347454	161954658	87295963	17	87008											
CEP350	9857	broad.mit.edu	37	chr1	180062030	180062030	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaataaaagaaatagagtatAcaaaattgaagaagagtaag	25	7	8	1	0	0	5	0	1	0	4	0	5	0	5	0	0	1	2	0	0	12	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:180062030A>G	uc001gnt.2	+	34	7173	c.6790A>G	c.(6790-6792)ACA>GCA	p.T2264A	CEP350_uc009wxl.2_Missense_Mutation_p.T2263A|CEP350_uc001gnv.2_Missense_Mutation_p.T399A|CEP350_uc001gnw.1_Missense_Mutation_p.T21A|CEP350_uc001gnx.1_Missense_Mutation_p.T21A	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	2264						centrosome|nucleus|spindle				ovary(4)	4						AATAGAGTATACAAAATTGAA	0.313													7	10					0	0	0.02938	0	0		G	180062030	G	G	180062030	3	3	158	1	0	0	0	0	1	0	0	0	3257	391	14	3	6920	3	CEP350	1	180062030	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	18107372	180062030	69188591	18	87009											
HMCN1	83872	broad.mit.edu	37	chr1	186055473	186055473	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	aggtctctggttttccacctCctgacctcagctggctcaag	6	12	9	14	0	3	1	2	1	1	0	6	1	5	1	4	3	1	3	4	3	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:186055473C>G	uc001grq.1	+	58	9209	c.8980C>G	c.(8980-8982)CCT>GCT	p.P2994A		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2994	Ig-like C2-type 28.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TTTTCCACCTCCTGACCTCAG	0.418													36	141					0	0	0.064281	0	0		G	186055473	G	G	186055473	3	3	158	1	0	0	0	0	1	0	0	0	7236	855	30	5	9210	5	HMCN1	1	186055473	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	5993443	186055473	63195148	19	87010											
LGTN	1939	broad.mit.edu	37	chr1	206776401	206776401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttgtcttcacgtgcctggtGaacctccccattctcctctt	4	15	6	16	1	4	1	1	1	3	0	6	1	5	1	5	1	2	0	5	1	1	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:206776401G>A	uc001heh.2	-	6	897	c.688C>T	c.(688-690)CAC>TAC	p.H230Y	LGTN_uc009xbw.2_Intron	NM_006893	NP_008824	P41214	EIF2D_HUMAN	ligatin	230					intracellular protein transport	cytoplasm	protein binding|receptor activity|translation initiation factor activity				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			CGTGCCTGGTGAACCTCCCCA	0.552													59	205					0	0	0.048971	0	0		A	206776401	A	A	206776401	3	1	158	1	0	0	0	0	1	0	0	0	8776	1290	45	4	1106	4	LGTN	1	206776401	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	20720928	206776401	42474220	20	87011											
TTC13	79573	broad.mit.edu	37	chr1	231056309	231056309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taccttttccagggcttcccGaacttccagcaatcctttag	8	13	6	14	1	0	0	0	0	0	0	4	1	4	0	5	1	3	2	5	1	4	7			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:231056309G>A	uc001huf.3	-	17	1961	c.1930C>T	c.(1930-1932)CGG>TGG	p.R644W	TTC13_uc009xfi.2_Missense_Mutation_p.R591W|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.R591W|TTC13_uc009xfk.1_Missense_Mutation_p.R534W	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	644							binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		AGGGCTTCCCGAACTTCCAGC	0.373													51	202					0	0	0.048971	0	0		A	231056309	A	A	231056309	3	1	158	1	0	0	0	0	1	0	0	0	16706	1057	37	1	680	1	TTC13	1	231056309	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	24279908	231056309	18194312	21	87012											
RYR2	6262	broad.mit.edu	37	chr1	237886549	237886549	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatatagcaaatgtgctttTtcatcttgaacaggtcaggc	11	13	10	7	0	3	1	2	1	1	0	3	2	3	2	0	3	3	2	0	3	4	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:237886549T>C	uc001hyl.1	+	74	10796	c.10676T>C	c.(10675-10677)TTT>TCT	p.F3559S	RYR2_uc010pxz.1_Missense_Mutation_p.F514S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3559					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AATGTGCTTTTTCATCTTGAA	0.353													56	102					0	0	0.048971	0	0		C	237886549	C	C	237886549	3	2	158	1	0	0	0	0	1	0	0	0	13794	1841	64	3	10970	3	RYR2	1	237886549	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	6830240	237886549	11364072	22	87013											
RYR2	6262	broad.mit.edu	37	chr1	237961336	237961336	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctttttctcataccccaaGgttatggataaatatggaga	12	14	8	7	0	1	1	1	0	1	1	2	3	1	2	2	3	2	2	2	3	6	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr1:237961336G>A	uc001hyl.1	+	97	14077	c.13957_splice	c.e97-1	p.V4653_splice	RYR2_uc010pyb.1_Splice_Site_p.V86_splice	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor						cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CATACCCCAAGGTTATGGATA	0.363													8	27					0	0	0.038147	0	0		A	237961336	A	A	237961336	5	1	158	1	0	0	0	0	0	0	1	0	13794	1014	35	4	14342	4	RYR2	1	237961336	Splice_Site	SNP	G	TCGA-CG-5730-01A-11D-1600-08	74787	237961336	11289285	23	87014											
TSSC1	7260	broad.mit.edu	37	chr2	3196198	3196198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttacttctcttcagaacGgtggtcctcctggtcactga	6	13	8	14	1	3	2	2	1	1	1	6	2	5	2	3	3	2	0	3	3	2	3	rs141014675	by1000genomes	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:3196198G>A	uc002qxj.2	-	8	1169	c.976C>T	c.(976-978)CGT>TGT	p.R326C	TSSC1_uc002qxi.2_RNA	NM_003310	NP_003301	Q53HC9	TSSC1_HUMAN	tumor suppressing subtransferable candidate 1	326							protein binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.212)		OV - Ovarian serous cystadenocarcinoma(76;0.00877)|Epithelial(75;0.0283)|all cancers(51;0.0464)		TCTTCAGAACGGTGGTCCTCC	0.567													20	44					0	0	0.062417	0	0		A	3196198	A	A	3196198	3	1	158	1	0	0	0	0	1	0	0	0	16692	1116	39	1	195	1	TSSC1	2	3196198	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		3196198	240003175	24	87015											
PLB1	151056	broad.mit.edu	37	chr2	28785965	28785965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agccctgggtgactctctcaCggtaagtgaccctgatgcag	8	9	12	12	1	2	3	1	3	1	0	3	3	2	3	2	2	2	2	2	2	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:28785965C>T	uc002rmb.1	+	18	1205	c.1205C>T	c.(1204-1206)ACG>ATG	p.T402M	PLB1_uc010ezj.1_Missense_Mutation_p.T413M|PLB1_uc002rmc.2_Missense_Mutation_p.T90M	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	402	4 X 308-326 AA approximate repeats.|2.|Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					GACTCTCTCACGGTAAGTGAC	0.502													31	62					0	0	0.037714	0	0		T	28785965	T	T	28785965	3	4	158	1	0	0	0	0	1	0	0	0	12043	550	19	1	1308	1	PLB1	2	28785965	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	25589767	28785965	214413408	25	87016											
SLC30A6	55676	broad.mit.edu	37	chr2	32399183	32399183	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgatatgtactggcttcCtgcttatgtggtgcagttct	6	17	10	8	0	1	1	0	1	1	0	2	1	2	1	1	2	3	5	1	2	3	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:32399183C>T	uc002roe.1	+	3	179	c.142C>T	c.(142-144)CTG>TTG	p.L48L	SLC30A6_uc002rof.1_Silent_p.L48L|SLC30A6_uc010ymw.1_Silent_p.L19L|SLC30A6_uc010ezr.1_Silent_p.L48L|SLC30A6_uc002rog.1_5'UTR|SLC30A6_uc010ezs.1_Intron|SLC30A6_uc002roh.1_Intron	NM_017964	NP_060434	Q6NXT4	ZNT6_HUMAN	solute carrier family 30 (zinc transporter),	48	Helical; (Potential).					Golgi membrane|integral to membrane	zinc ion transmembrane transporter activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TACTGGCTTCCTGCTTATGTG	0.318													52	210					0	0	0.048971	0	0		T	32399183	T	T	32399183	2	4	158	1	0	0	0	0	0	0	0	1	14584	680	24	4		4	SLC30A6	2	32399183	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	3613218	32399183	210800190	26	87017											
FSHR	2492	broad.mit.edu	37	chr2	49195900	49195900	+	Missense_Mutation	SNP	A	T	T	1	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	aggtgaggctggcttccatgAgggcgacaagcttttccaga	9	9	14	9	1	0	3	0	2	0	1	2	4	2	3	2	4	1	3	2	4	1	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:49195900A>T	uc002rww.2	-	9	865	c.791T>A	c.(790-792)CTC>CAC	p.L264H	FSHR_uc002rwx.2_Intron|FSHR_uc010fbn.2_Missense_Mutation_p.L238H	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	264	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	GGCTTCCATGAGGGCGACAAG	0.502									Gonadal_Dysgenesis_46_XX				10	75					0	0	0.080935	0	0		T	49195900	T	T	49195900	3	4	158	1	0	0	0	0	1	0	0	0	6087	304	11	5	1304	5	FSHR	2	49195900	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	16796717	49195900	194003473	27	87018											
NCAPH	23397	broad.mit.edu	37	chr2	97031660	97031660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgacttatttgtgggacCtgttgggaactctgacctct	7	14	12	8	0	2	2	0	2	2	0	2	5	2	5	2	3	1	1	2	3	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:97031660C>T	uc002svz.1	+	14	1829	c.1745C>T	c.(1744-1746)CCT>CTT	p.P582L	NCAPH_uc010fhv.1_Missense_Mutation_p.P571L|NCAPH_uc010yum.1_Missense_Mutation_p.P558L|NCAPH_uc010fhw.1_Missense_Mutation_p.P571L|NCAPH_uc010yun.1_Missense_Mutation_p.P446L|NCAPH_uc002swa.1_Missense_Mutation_p.P177L	NM_015341	NP_056156	Q15003	CND2_HUMAN	non-SMC condensin I complex, subunit H	582					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|microtubule cytoskeleton|nucleus				urinary_tract(1)|skin(1)	2		Ovarian(717;0.0221)				TTTGTGGGACCTGTTGGGAAC	0.488													89	311					0	0	0.048971	0	0		T	97031660	T	T	97031660	3	4	158	1	0	0	0	0	1	0	0	0	10228	681	24	4	1799	4	NCAPH	2	97031660	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	47835760	97031660	146167713	28	87019											
TBC1D8	11138	broad.mit.edu	37	chr2	101654162	101654162	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	atgcttgttgaatgaaacacGagtgaagcctgcacagcaag	14	8	11	8	1	0	3	0	3	0	0	0	4	0	3	1	0	5	4	1	0	4	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:101654162G>C	uc010fiv.2	-	8	1370	c.1239C>G	c.(1237-1239)CTC>CTG	p.L413L	TBC1D8_uc010yvw.1_Silent_p.L428L|TBC1D8_uc002tau.3_Silent_p.L170L	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	413					blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						AATGAAACACGAGTGAAGCCT	0.468													27	58					0	0	0.030593	0	0		C	101654162	C	C	101654162	2	2	158	1	0	0	0	0	0	0	0	1	15650	1045	37	5		5	TBC1D8	2	101654162	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	4622502	101654162	141545211	29	87020											
MAP4K4	9448	broad.mit.edu	37	chr2	102505356	102505356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggtgtgttcatgcacaaaAgggctcaaagactaaaattc	15	10	9	7	0	2	1	2	0	0	1	3	1	2	1	0	2	1	3	0	2	5	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:102505356A>G	uc002tbg.2	+	29	3650	c.3595A>G	c.(3595-3597)AGG>GGG	p.R1199G	MAP4K4_uc002tbc.2_Missense_Mutation_p.R1280G|MAP4K4_uc002tbd.2_Missense_Mutation_p.R1172G|MAP4K4_uc002tbe.2_Missense_Mutation_p.R1126G|MAP4K4_uc002tbf.2_Missense_Mutation_p.R1233G|MAP4K4_uc010yvy.1_Missense_Mutation_p.R1195G|MAP4K4_uc002tbh.2_Missense_Mutation_p.R1125G|MAP4K4_uc002tbi.2_Missense_Mutation_p.R1002G|MAP4K4_uc010yvz.1_Missense_Mutation_p.R1239G|MAP4K4_uc002tbk.2_Missense_Mutation_p.R654G|MAP4K4_uc002tbl.2_Missense_Mutation_p.R385G	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	1199	CNH.|Mediates interaction with RAP2A.				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CATGCACAAAAGGGCTCAAAG	0.403													3	65					0	0	0.004672	0	0		G	102505356	G	G	102505356	3	3	158	1	0	0	0	0	1	0	0	0	9280	63	3	3	3984	3	MAP4K4	2	102505356	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	851194	102505356	140694017	30	87021											
SULT1C4	27233	broad.mit.edu	37	chr2	108999963	108999963	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttctatgaggacatgaaGaaggtgagcacagtgccatc	12	9	11	9	0	2	4	0	3	2	1	3	5	2	5	1	2	2	1	1	2	3	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:108999963G>A	uc002tea.1	+	5	985	c.612G>A	c.(610-612)AAG>AAA	p.K204K	SULT1C4_uc010ywr.1_RNA|SULT1C4_uc002teb.1_Silent_p.K129K	NM_006588	NP_006579	O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member	204	PAPS.				3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol	sulfotransferase activity				0						AGGACATGAAGAAGGTGAGCA	0.478													16	56					0	0	0.038395	0	0		A	108999963	A	A	108999963	2	1	158	1	0	0	0	0	0	0	0	1	15404	933	33	4		4	SULT1C4	2	108999963	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	6494607	108999963	134199410	31	87022											
BUB1	699	broad.mit.edu	37	chr2	111399257	111399257	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagagctctcctactaataCactgccattctggaataagt	12	12	7	10	0	2	1	0	0	2	1	3	2	2	2	2	1	4	2	2	1	6	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:111399257C>G	uc002tgc.2	-	21	2699	c.2587G>C	c.(2587-2589)GTA>CTA	p.V863L	BUB1_uc010yxh.1_Missense_Mutation_p.V843L|BUB1_uc010fkb.2_Missense_Mutation_p.V863L	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	863	Protein kinase.				apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		CCTACTAATACACTGCCATTC	0.373													66	192					0	0	0.048971	0	0		G	111399257	G	G	111399257	3	3	158	1	0	0	0	0	1	0	0	0	1573	478	17	5	690	5	BUB1	2	111399257	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2399294	111399257	131800116	32	87023											
RAB3GAP1	22930	broad.mit.edu	37	chr2	135848643	135848643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttcaagttctcagtcactCatcattatcttgtacaagag	12	14	5	10	0	6	1	5	0	2	1	7	1	6	1	0	0	1	2	0	0	4	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:135848643C>T	uc002tuj.2	+	4	251	c.226C>T	c.(226-228)CAT>TAT	p.H76Y	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.H76Y|RAB3GAP1_uc010fng.2_5'UTR|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	76						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		CTCAGTCACTCATCATTATCT	0.328													56	148					0	0	0.048971	0	0		T	135848643	T	T	135848643	3	4	158	1	0	0	0	0	1	0	0	0	12960	826	29	4	240	4	RAB3GAP1	2	135848643	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	24449386	135848643	107350730	33	87024											
LCT	3938	broad.mit.edu	37	chr2	136575399	136575399	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcccagatgctcacccCtctcccaccctcggcccagc	6	7	7	21	1	2	1	1	0	1	1	5	2	3	2	6	2	2	1	6	2	0	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:136575399C>G	uc002tuu.1	-	6	1230	c.1219G>C	c.(1219-1221)GGG>CGG	p.G407R		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	407	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		ATGCTCACCCCTCTCCCACCC	0.617													30	90					0	0	0.041601	0	0		G	136575399	G	G	136575399	3	3	158	1	0	0	0	0	1	0	0	0	8709	681	24	5	4612	5	LCT	2	136575399	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	726756	136575399	106623974	34	87025											
LRP1B	53353	broad.mit.edu	37	chr2	141459402	141459402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccccttctgacagacccGtttgcatgtgctctgccaaa	7	11	9	14	1	2	2	0	1	2	1	2	2	2	2	4	1	3	3	4	1	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:141459402G>A	uc002tvj.1	-	40	7287	c.6315C>T	c.(6313-6315)AAC>AAT	p.N2105N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2105	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TGACAGACCCGTTTGCATGTG	0.428										TSP Lung(27;0.18)			77	78					0	0	0.048971	0	0		A	141459402	A	A	141459402	2	1	158	1	0	0	0	0	0	0	0	1	8973	1136	40	1		1	LRP1B	2	141459402	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	4884003	141459402	101739971	35	87026											
GPR155	151556	broad.mit.edu	37	chr2	175346609	175346609	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	attagtggaattaaatccatGcgttactgctgtaggcaaag	13	12	10	6	1	0	0	0	0	0	0	1	1	1	1	1	2	3	4	1	2	7	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:175346609G>T	uc002uit.2	-	3	467	c.76C>A	c.(76-78)CAT>AAT	p.H26N	GPR155_uc002uiu.2_Missense_Mutation_p.H26N|GPR155_uc002uiv.2_Missense_Mutation_p.H26N|GPR155_uc010fqs.2_Missense_Mutation_p.H26N	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	26					intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						TTAAATCCATGCGTTACTGCT	0.418													45	212					6.34439e-16	6.92644e-16	0.048971	1	0		T	175346609	T	T	175346609	3	4	158	1	0	0	0	0	1	0	0	0	6675	1319	46	5	2596	5	GPR155	2	175346609	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	33887207	175346609	67852764	36	87027											
TTN	7273	broad.mit.edu	37	chr2	179410279	179410279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttgttgacacgtgtccagCgcaggctcttcttctcacgt	5	14	9	13	3	3	1	1	1	3	0	5	1	4	1	1	1	1	3	1	1	0	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:179410279C>T	uc010zfg.1	-	293	88078	c.87854G>A	c.(87853-87855)CGC>CAC	p.R29285H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R22980H|TTN_uc010zfi.1_Missense_Mutation_p.R22913H|TTN_uc010zfj.1_Missense_Mutation_p.R22788H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30212							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACGTGTCCAGCGCAGGCTCTT	0.488													17	601					0	0	0.043863	0	0		T	179410279	T	T	179410279	3	4	158	1	0	0	0	0	1	0	0	0	16761	768	27	1	12497	1	TTN	2	179410279	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	4063670	179410279	63789094	37	87028											
TTN	7273	broad.mit.edu	37	chr2	179456552	179456552	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccatcacgatccggcttattCcagactagggagacttcagt	10	10	9	12	2	2	2	2	0	0	2	4	4	4	2	3	2	0	1	3	2	2	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:179456552C>T	uc010zfg.1	-	252	52514	c.52290G>A	c.(52288-52290)TGG>TGA	p.W17430*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.W11125*|TTN_uc010zfi.1_Nonsense_Mutation_p.W11058*|TTN_uc010zfj.1_Nonsense_Mutation_p.W10933*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18357							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCGGCTTATTCCAGACTAGGG	0.433													30	86					0	0	0.034045	0	0		T	179456552	T	T	179456552	4	4	158	1	0	0	0	0	0	1	0	0	16761	856	30	4	48225	4	TTN	2	179456552	Nonsense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	46273	179456552	63742821	38	87029											
TTN	7273	broad.mit.edu	37	chr2	179489303	179489303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttctgaccctgccatcagCaacaatttcatacttcttgc	9	15	4	13	0	4	1	2	1	2	0	4	1	4	1	2	0	5	1	2	0	3	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:179489303C>T	uc010zfg.1	-	191	37224	c.37000G>A	c.(37000-37002)GCT>ACT	p.A12334T	TTN_uc010zfh.1_Missense_Mutation_p.A6029T|TTN_uc010zfi.1_Missense_Mutation_p.A5962T|TTN_uc010zfj.1_Missense_Mutation_p.A5837T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13261							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGCCATCAGCAACAATTTCA	0.398													70	72					0	0	0.048971	0	0		T	179489303	T	T	179489303	3	4	158	1	0	0	0	0	1	0	0	0	16761	710	25	2	63473	2	TTN	2	179489303	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	32751	179489303	63710070	39	87030											
NCKAP1	10787	broad.mit.edu	37	chr2	183846105	183846105	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atattaattcagcaatgtgcCttttttaaaatttcaagaaa	16	16	4	5	0	2	1	2	0	0	1	2	1	2	1	1	0	2	1	1	0	7	7			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:183846105C>T	uc002upc.2	-	13	1611	c.1209_splice	c.e13-1	p.K403_splice	NCKAP1_uc002upb.2_Splice_Site_p.K409_splice	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1						apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			AGCAATGTGCCTTTTTTAAAA	0.289													3	39					0	0	0.004672	0	0		T	183846105	T	T	183846105	5	4	158	1	0	0	0	0	0	0	1	0	10240	695	24	4	2254	4	NCKAP1	2	183846105	Splice_Site	SNP	C	TCGA-CG-5730-01A-11D-1600-08	4356802	183846105	59353268	40	87031											
ITGAV	3685	broad.mit.edu	37	chr2	187490295	187490295	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggaacaaagactgttgaGtatgctccatgtagatcacg	13	10	11	7	1	1	3	1	1	0	2	2	5	2	4	1	1	2	4	1	1	4	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:187490295G>T	uc002upq.2	+	4	780	c.504G>T	c.(502-504)GAG>GAT	p.E168D	ITGAV_uc010frs.2_Missense_Mutation_p.E168D|ITGAV_uc010zfv.1_Missense_Mutation_p.E122D	NM_002210	NP_002201	P06756	ITAV_HUMAN	integrin alpha-V isoform 1 precursor	168	FG-GAP 2.|Extracellular (Potential).				angiogenesis|axon guidance|blood coagulation|cell-matrix adhesion|entry of bacterium into host cell|entry of symbiont into host cell by promotion of host phagocytosis|entry of virus into host cell|ERK1 and ERK2 cascade|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|positive regulation of cell adhesion|positive regulation of cell proliferation|regulation of apoptotic cell clearance	integrin complex	receptor activity|transforming growth factor beta binding			ovary(2)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0185)|Epithelial(96;0.072)|all cancers(119;0.189)	STAD - Stomach adenocarcinoma(3;0.106)|COAD - Colon adenocarcinoma(31;0.108)		AGACTGTTGAGTATGCTCCAT	0.388													20	41					1.01871e-10	1.07757e-10	0.049695	1	0		T	187490295	T	T	187490295	3	4	158	1	0	0	0	0	1	0	0	0	7904	1020	36	5	569	5	ITGAV	2	187490295	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	3644190	187490295	55709078	41	87032											
OBSL1	23363	broad.mit.edu	37	chr2	220421289	220421289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcggcttgaaccattctggGccatctccacctggggccct	5	10	11	15	1	2	1	0	1	2	0	3	1	2	1	5	4	2	1	5	4	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:220421289G>A	uc010fwk.2	-	13	4280	c.4223C>T	c.(4222-4224)GCC>GTC	p.A1408V	OBSL1_uc002vmh.1_Missense_Mutation_p.A307V|OBSL1_uc010zli.1_Missense_Mutation_p.A215V|OBSL1_uc010fwl.1_Missense_Mutation_p.A883V	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1408	Ig-like 12.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		ACCATTCTGGGCCATCTCCAC	0.637													24	52					0	0	0.099896	0	0		A	220421289	A	A	220421289	3	1	158	1	0	0	0	0	1	0	0	0	10832	1203	42	2	1526	2	OBSL1	2	220421289	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	32930994	220421289	22778084	42	87033											
HJURP	55355	broad.mit.edu	37	chr2	234750099	234750099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggactcaggcaatattcccGatgaagctgatcaaatcgga	13	8	11	9	2	2	2	2	2	0	0	4	5	3	4	1	3	1	2	1	3	4	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr2:234750099G>A	uc002vvg.2	-	8	1393	c.1327C>T	c.(1327-1329)CGG>TGG	p.R443W	HJURP_uc010znd.1_Missense_Mutation_p.R382W|HJURP_uc010zne.1_Missense_Mutation_p.R351W	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	443					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		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)		CAATATTCCCGATGAAGCTGA	0.527													34	131					0	0	0.074837	0	0		A	234750099	A	A	234750099	3	1	158	1	0	0	0	0	1	0	0	0	7205	1057	37	1	927	1	HJURP	2	234750099	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	14328810	234750099	8449274	43	87034											
MTMR14	64419	broad.mit.edu	37	chr3	9704013	9704013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgcagcaagatggcccGgtgcagaggacggtttgtct	8	7	14	12	3	1	2	0	0	1	2	1	3	1	3	3	4	2	4	3	4	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:9704013G>A	uc003brz.2	+	3	495	c.371G>A	c.(370-372)CGG>CAG	p.R124Q	MTMR14_uc003bsa.2_Missense_Mutation_p.R124Q|MTMR14_uc003bsb.2_Missense_Mutation_p.R124Q|MTMR14_uc011ath.1_Intron|MTMR14_uc010hcl.2_Intron	NM_001077525	NP_001070993	Q8NCE2	MTMRE_HUMAN	jumpy isoform 2	124						perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)					AAGATGGCCCGGTGCAGAGGA	0.532													42	34					0	0	0.104719	0	0		A	9704013	A	A	9704013	3	1	158	1	0	0	0	0	1	0	0	0	9960	1116	39	1	381	1	MTMR14	3	9704013	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		9704013	188318417	44	87035											
ATP2B2	491	broad.mit.edu	37	chr3	10400407	10400407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgggtcctcgatgcccaccaCgcagatgcaggtgagttcgt	7	8	13	13	4	0	2	0	1	0	1	3	3	1	2	3	2	2	3	3	2	0	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:10400407C>T	uc003bvt.2	-	14	2543	c.2104G>A	c.(2104-2106)GTG>ATG	p.V702M	ATP2B2_uc003bvv.2_Missense_Mutation_p.V657M|ATP2B2_uc003bvw.2_Missense_Mutation_p.V657M|ATP2B2_uc010hdo.2_Missense_Mutation_p.V407M	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	702	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ATGCCCACCACGCAGATGCAG	0.637													13	27					0	0	0.105934	0	0		T	10400407	T	T	10400407	3	4	158	1	0	0	0	0	1	0	0	0	1141	536	19	1	1667	1	ATP2B2	3	10400407	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	696394	10400407	187622023	45	87036											
CCDC13	152206	broad.mit.edu	37	chr3	42794186	42794186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacaattttggtggcgaccaCgtctccggctacaccggctg	7	9	11	14	4	1	0	0	0	1	0	2	1	1	0	3	4	1	2	3	4	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:42794186C>T	uc003cly.3	-	4	478	c.394G>A	c.(394-396)GTG>ATG	p.V132M	CCDC13_uc003clz.2_Missense_Mutation_p.V132M|CCDC13_uc011azq.1_Missense_Mutation_p.V132M	NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	132										ovary(1)	1						GTGGCGACCACGTCTCCGGCT	0.483													20	29					0	0	0.062417	0	0		T	42794186	T	T	42794186	3	4	158	1	0	0	0	0	1	0	0	0	2768	536	19	1	1805	1	CCDC13	3	42794186	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	32393779	42794186	155228244	46	87037											
ZNF167	55888	broad.mit.edu	37	chr3	44611508	44611509	+	Frame_Shift_Ins	INS	-	G	G																															ggacatcagggggactctttINSggggtggttcctggggcagc																										TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:44611508_44611509insG	uc010hin.2	+	6	1294_1295	c.906_907insG	c.(904-909)TTTGGGfs	p.F302fs	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Intron|ZNF167_uc010hio.2_Frame_Shift_Ins_p.F151fs|ZNF167_uc003cnj.2_Frame_Shift_Ins_p.F302fs|ZNF167_uc003cnk.2_Intron	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	302_303	KRAB.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		GGGGACTCTTTGGGGTGGTTCC	0.465													60	120	---	---	---	---						.	G	44611509	G	G	44611508	7	5	158	1	0	1	1	0	0	0	0	0	17766	1809	63	0	924	0	ZNF167	3	44611508	Frame_Shift_Ins	INS	-	TCGA-CG-5730-01A-11D-1600-08	1817322	44611508	153410922	47	87038											
XCR1	2829	broad.mit.edu	37	chr3	46062453	46062453	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcagtagaaggaggcGccctcataggcgaaggcacc	10	4	13	14	2	2	1	2	0	0	1	2	3	2	2	4	4	0	2	4	4	4	2	rs148878887	byFrequency	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:46062453G>A	uc003cpe.2	-	3	1211	c.987C>T	c.(985-987)GGC>GGT	p.G329G	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Silent_p.G329G	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	329	Cytoplasmic (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		AGAAGGAGGCGCCCTCATAGG	0.647													4	9					0	0	0.021553	0	0		A	46062453	A	A	46062453	2	1	158	1	0	0	0	0	0	0	0	1	17451	1074	38	1		1	XCR1	3	46062453	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	1450945	46062453	151959977	48	87039											
DNAH1	25981	broad.mit.edu	37	chr3	52420183	52420183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcccatccccaggtggataCggccatcgccgaggagaccc	8	5	11	17	3	0	1	0	0	0	1	3	4	2	2	6	4	1	0	6	4	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:52420183C>T	uc011bef.1	+	55	8894	c.8633C>T	c.(8632-8634)ACG>ATG	p.T2878M	DNAH1_uc003ddv.2_Translation_Start_Site	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2878	Potential.|Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CAGGTGGATACGGCCATCGCC	0.403													6	15					0	0	0.021553	0	0		T	52420183	T	T	52420183	3	4	158	1	0	0	0	0	1	0	0	0	4603	536	19	1	8847	1	DNAH1	3	52420183	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	6357730	52420183	145602247	49	87040											
CADPS	8618	broad.mit.edu	37	chr3	62467417	62467417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccgcatcatatatagcagCcatccatgacggtgccgaaa	12	8	8	13	3	1	1	1	1	0	0	3	2	3	1	4	1	3	2	4	1	4	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:62467417C>T	uc003dll.2	-	22	3514	c.3154G>A	c.(3154-3156)GCT>ACT	p.A1052T	CADPS_uc003dlj.1_Missense_Mutation_p.A2T|CADPS_uc003dlk.1_Intron|CADPS_uc003dlm.2_Intron|CADPS_uc003dln.2_Intron	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1052	MHD1.|Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		TATATAGCAGCCATCCATGAC	0.398													52	102					0	0	0.048971	0	0		T	62467417	T	T	62467417	3	4	158	1	0	0	0	0	1	0	0	0	2573	739	26	2	943	2	CADPS	3	62467417	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	10047234	62467417	135555013	50	87041											
MYH15	22989	broad.mit.edu	37	chr3	108107879	108107879	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcccctctgggcctctgcacTgcgacggatttcaccctcca	5	10	8	18	2	3	0	1	0	2	0	5	2	5	1	5	2	2	1	5	2	0	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:108107879T>C	uc003dxa.1	-	39	5590	c.5533A>G	c.(5533-5535)AGT>GGT	p.S1845G		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1845	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						GCCTCTGCACTGCGACGGATT	0.552													8	115					0	0	0.047766	0	0		C	108107879	C	C	108107879	3	2	158	1	0	0	0	0	1	0	0	0	10052	1580	55	3	323	3	MYH15	3	108107879	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	45640462	108107879	89914551	51	87042											
SIDT1	54847	broad.mit.edu	37	chr3	113334964	113334964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagatttgggaattttccggCgggctgccatggtgttctac	6	13	13	9	2	1	1	0	0	1	1	2	2	2	2	2	4	2	2	2	4	2	5	rs140834549		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:113334964C>T	uc003eak.2	+	20	2635	c.1984C>T	c.(1984-1986)CGG>TGG	p.R662W	SIDT1_uc011big.1_Missense_Mutation_p.R415W|SIDT1_uc011bii.1_Missense_Mutation_p.R115W	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	662	Cytoplasmic (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						AATTTTCCGGCGGGCTGCCAT	0.458													5	189					0	0	0.014758	0	0		T	113334964	T	T	113334964	3	4	158	1	0	0	0	0	1	0	0	0	14327	759	27	1	2062	1	SIDT1	3	113334964	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	5227085	113334964	84687466	52	87043											
SIAH2	6478	broad.mit.edu	37	chr3	150480301	150480301	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcagggcgcccctgcacgtCgggcagcagctcaacttctg	6	7	13	15	3	3	0	2	0	1	0	4	0	3	0	2	2	4	4	2	2	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:150480301C>T	uc003eyi.2	-	1	963	c.336G>A	c.(334-336)CCG>CCA	p.P112P		NM_005067	NP_005058	O43255	SIAH2_HUMAN	seven in absentia homolog 2	112	RING-type.				apoptosis|axon guidance|cell cycle|negative regulation of canonical Wnt receptor signaling pathway|small GTPase mediated signal transduction|ubiquitin-dependent protein catabolic process	cytosol|nucleus	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			CCCTGCACGTCGGGCAGCAGC	0.617													9	22					0	0	0.058154	0	0		T	150480301	T	T	150480301	2	4	158	1	0	0	0	0	0	0	0	1	14325	871	31	1		1	SIAH2	3	150480301	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	37145337	150480301	47542129	53	87044											
PEX5L	51555	broad.mit.edu	37	chr3	179525543	179525543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgaatctccagtgctcgcGtataggcctccacggcttcc	6	10	10	15	3	1	1	0	1	1	0	5	1	3	1	4	2	1	4	4	2	3	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:179525543G>A	uc003fki.1	-	14	1725	c.1595C>T	c.(1594-1596)ACG>ATG	p.T532M	PEX5L_uc011bqd.1_Missense_Mutation_p.T489M|PEX5L_uc011bqe.1_Missense_Mutation_p.T340M|PEX5L_uc011bqf.1_Missense_Mutation_p.T424M|PEX5L_uc003fkj.1_Missense_Mutation_p.T497M|PEX5L_uc010hxd.1_Missense_Mutation_p.T530M|PEX5L_uc011bqg.1_Missense_Mutation_p.T508M|PEX5L_uc011bqh.1_Missense_Mutation_p.T473M	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	532	TPR 4.				protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			CAGTGCTCGCGTATAGGCCTC	0.547													79	184					0	0	0.048971	0	0		A	179525543	A	A	179525543	3	1	158	1	0	0	0	0	1	0	0	0	11768	1145	40	1	293	1	PEX5L	3	179525543	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	29045242	179525543	18496887	54	87045											
CCDC39	339829	broad.mit.edu	37	chr3	180359946	180359946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgaagcatttctcgagtaCgcttaacttcaagttttaaa	12	15	7	7	2	2	1	1	1	1	0	3	2	2	1	0	0	3	4	0	0	6	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr3:180359946C>T	uc010hxe.2	-	13	1824	c.1709G>A	c.(1708-1710)CGT>CAT	p.R570H	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	570	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TTCTCGAGTACGCTTAACTTC	0.323													18	68					0	0	0.0333	0	0		T	180359946	T	T	180359946	3	4	158	1	0	0	0	0	1	0	0	0	2814	536	19	1	1148	1	CCDC39	3	180359946	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	834403	180359946	17662484	55	87046											
SLIT2	9353	broad.mit.edu	37	chr4	20525651	20525651	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaaggcatttggcccagaAcccctttatttgtgactgcc	9	11	8	13	0	0	2	0	1	0	1	0	2	0	2	5	2	2	1	5	2	3	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr4:20525651A>C	uc003gpr.1	+	14	1493	c.1289A>C	c.(1288-1290)AAC>ACC	p.N430T	SLIT2_uc003gps.1_Missense_Mutation_p.N430T	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	430	LRRCT 2.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TTGGCCCAGAACCCCTTTATT	0.483													58	120					0	0	0.048971	0	0		C	20525651	C	C	20525651	3	2	158	1	0	0	0	0	1	0	0	0	14765	43	2	5	1343	5	SLIT2	4	20525651	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08		20525651	170628625	56	87047											
FRYL	285527	broad.mit.edu	37	chr4	48578238	48578238	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttagcattgatggggcTactaaggaaaaaaaaagaaa	18	10	9	4	0	1	2	0	1	1	1	1	3	1	3	0	3	2	2	0	3	8	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr4:48578238T>A	uc003gyh.1	-	24	3135	c.2530A>T	c.(2530-2532)AGC>TGC	p.S844C	FRYL_uc003gyk.2_Missense_Mutation_p.S844C	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	844					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TTGATGGGGCTACTAAGGAAA	0.318													31	82					0	0	0.041601	0	0		A	48578238	A	A	48578238	3	1	158	1	0	0	0	0	1	0	0	0	6078	1536	53	5	6675	5	FRYL	4	48578238	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	28052587	48578238	142576038	57	87048											
C4orf37	285555	broad.mit.edu	37	chr4	98633896	98633896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctttggactcttcaaagCgctttgatgctttcacaaat	9	16	6	10	1	4	1	2	1	2	0	5	2	4	2	0	1	2	2	0	1	2	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr4:98633896C>T	uc003htt.1	-	10	1364	c.1274G>A	c.(1273-1275)CGC>CAC	p.R425H		NM_174952	NP_777612	Q8N412	CD037_HUMAN	hypothetical protein LOC285555	425											0				OV - Ovarian serous cystadenocarcinoma(123;2.27e-08)		CTCTTCAAAGCGCTTTGATGC	0.373													18	50					0	0	0.043863	0	0		T	98633896	T	T	98633896	3	4	158	1	0	0	0	0	1	0	0	0	2270	768	27	1	113	1	C4orf37	4	98633896	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	50055658	98633896	92520380	58	87049											
FAT4	79633	broad.mit.edu	37	chr4	126411278	126411278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggactgtgcctcccaccCgtgccagaatggtggcagct	6	8	14	13	1	0	1	0	0	0	1	1	2	1	2	4	4	3	2	4	4	1	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr4:126411278C>T	uc003ifj.3	+	17	13301	c.13301C>T	c.(13300-13302)CCG>CTG	p.P4434L	FAT4_uc011cgp.1_Missense_Mutation_p.P2675L|FAT4_uc003ifi.1_Missense_Mutation_p.P1911L	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4434	EGF-like 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCCTCCCACCCGTGCCAGAAT	0.607													34	60					0	0	0.054565	0	0		T	126411278	T	T	126411278	3	4	158	1	0	0	0	0	1	0	0	0	5706	652	23	1	13367	1	FAT4	4	126411278	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	27777382	126411278	64742998	59	87050											
PLK4	10733	broad.mit.edu	37	chr4	128807158	128807158	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttatcgggagaccacccttCgacactgacacagtcaagaa	13	7	8	13	2	1	3	1	1	0	2	3	5	1	3	2	1	0	0	2	1	3	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr4:128807158C>T	uc003ifo.2	+	5	878	c.633C>T	c.(631-633)TTC>TTT	p.F211F	PLK4_uc011cgs.1_Silent_p.F179F|PLK4_uc011cgt.1_Silent_p.F170F	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4	211	Protein kinase.				G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						GACCACCCTTCGACACTGACA	0.413													67	117					0	0	0.048971	0	0		T	128807158	T	T	128807158	2	4	158	1	0	0	0	0	0	0	0	1	12117	883	31	1		1	PLK4	4	128807158	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2395880	128807158	62347118	60	87051											
SMAD1	4086	broad.mit.edu	37	chr4	146467918	146467918	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgtctactatgagctcaAcaatcgtgtgggtgaagcgt	10	13	11	7	2	2	2	1	2	1	0	3	2	2	2	0	1	4	1	0	1	6	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr4:146467918A>G	uc003ikc.2	+	5	1255	c.839A>G	c.(838-840)AAC>AGC	p.N280S	SMAD1_uc003ikd.2_Missense_Mutation_p.N280S|SMAD1_uc010iov.2_Missense_Mutation_p.N280S|SMAD1_uc011cic.1_Missense_Mutation_p.N241S	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	280	MH2.				BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					TATGAGCTCAACAATCGTGTG	0.453													6	202					0	0	0.021553	0	0		G	146467918	G	G	146467918	3	3	158	1	0	0	0	0	1	0	0	0	14782	43	2	3	853	3	SMAD1	4	146467918	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	17660760	146467918	44686358	61	87052											
ADAMTS16	170690	broad.mit.edu	37	chr5	5237152	5237152	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttctttgtcaaataaagtCaaagatgggactccatgctc	12	14	7	8	0	3	1	2	0	1	1	5	2	4	2	1	1	1	1	1	1	4	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:5237152C>T	uc003jdl.2	+	14	2232	c.2094C>T	c.(2092-2094)GTC>GTT	p.V698V	ADAMTS16_uc003jdk.1_Silent_p.V698V|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	698	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CAAATAAAGTCAAAGATGGGA	0.318													15	307					0	0	0.024245	0	0		T	5237152	T	T	5237152	2	4	158	1	0	0	0	0	0	0	0	1	261	813	29	4		4	ADAMTS16	5	5237152	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08		5237152	175678108	62	87053											
SEMA5A	9037	broad.mit.edu	37	chr5	9227046	9227046	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaataaccggtcgccacccaCcagaagcacccggatgtagt	12	5	10	14	3	0	1	0	0	0	1	1	3	0	2	5	2	2	2	5	2	4	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:9227046C>A	uc003jek.2	-	7	1079	c.367G>T	c.(367-369)GTG>TTG	p.V123L		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	123	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TCGCCACCCACCAGAAGCACC	0.393													23	115					4.16121e-05	4.26883e-05	0.076483	1	0		A	9227046	A	A	9227046	3	1	158	1	0	0	0	0	1	0	0	0	14062	507	18	5	2925	5	SEMA5A	5	9227046	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	3989894	9227046	171688214	63	87054											
BASP1	10409	broad.mit.edu	37	chr5	17275368	17275368	+	Missense_Mutation	SNP	A	T	T	1	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	agaagaagggctacaatgtgAacgacgagaaagccaaggag	18	3	14	6	2	0	4	0	1	0	3	0	7	0	5	1	2	3	1	1	2	7	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:17275368A>T	uc003jfx.2	+	2	222	c.43A>T	c.(43-45)AAC>TAC	p.N15Y		NM_006317	NP_006308	P80723	BASP1_HUMAN	brain abundant, membrane attached signal protein	15					glomerular visceral epithelial cell differentiation|negative regulation of transcription, DNA-dependent	cytoplasm|cytoskeleton|growth cone|nuclear speck|plasma membrane	protein domain specific binding|transcription corepressor activity|transcription regulatory region DNA binding				0						CTACAATGTGAACGACGAGAA	0.562													12	59					0	0	0.105934	0	0		T	17275368	T	T	17275368	3	4	158	1	0	0	0	0	1	0	0	0	1318	246	9	5	45	5	BASP1	5	17275368	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	8048322	17275368	163639892	64	87055											
GHR	2690	broad.mit.edu	37	chr5	42629152	42629152	+	Missense_Mutation	SNP	T	A	A	0	1	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	tgtttcagccacagcagctaTccttagcagagcaccctgga	10	9	9	13	0	1	1	1	0	0	1	2	2	2	2	3	1	5	5	3	1	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:42629152T>A	uc003jmt.2	+	3	126	c.83T>A	c.(82-84)ATC>AAC	p.I28N	GHR_uc011cpq.1_5'UTR	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	28	Extracellular (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	ACAGCAGCTATCCTTAGCAGA	0.353													40	63					0	0	0.09836	0	0		A	42629152	A	A	42629152	3	1	158	1	0	0	0	0	1	0	0	0	6386	1435	50	5	89	5	GHR	5	42629152	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	25353784	42629152	138286108	65	87056											
PCSK1	5122	broad.mit.edu	37	chr5	95748060	95748060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaagccttctgggctagccGgccaggcccctccacagttt	8	8	10	15	1	1	0	0	0	1	0	2	0	2	0	6	3	2	2	6	3	3	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:95748060G>A	uc003kls.1	-	7	1050	c.844C>T	c.(844-846)CGG>TGG	p.R282W	PCSK1_uc010jbi.1_Missense_Mutation_p.R43W	NM_000439	NP_000430	P29120	NEC1_HUMAN	proprotein convertase subtilisin/kexin type 1	282	Catalytic.				cell-cell signaling|cellular nitrogen compound metabolic process|energy reserve metabolic process|hormone biosynthetic process|peptide biosynthetic process|peptide hormone processing|regulation of insulin secretion	extracellular space|stored secretory granule|transport vesicle	serine-type endopeptidase activity			ovary(2)	2		all_cancers(142;2.67e-06)|all_epithelial(76;6.92e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0112)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;3.44e-16)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGGGCTAGCCGGCCAGGCCCC	0.478													27	79					0	0	0.039052	0	0		A	95748060	A	A	95748060	3	1	158	1	0	0	0	0	1	0	0	0	11619	1115	39	1	1449	1	PCSK1	5	95748060	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	53118908	95748060	85167200	66	87057											
LNPEP	4012	broad.mit.edu	37	chr5	96320901	96320901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagggatgagcaatacacCgctttatcaaatatgcctaa	16	10	7	8	1	1	1	1	1	0	0	1	2	1	2	2	1	3	2	2	1	7	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:96320901C>T	uc003kmv.1	+	3	1492	c.978C>T	c.(976-978)ACC>ACT	p.T326T	LNPEP_uc003kmw.1_Silent_p.T312T	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	326	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		AGCAATACACCGCTTTATCAA	0.373													82	182					0	0	0.048971	0	0		T	96320901	T	T	96320901	2	4	158	1	0	0	0	0	0	0	0	1	8881	639	23	1		1	LNPEP	5	96320901	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	572841	96320901	84594359	67	87058											
PCDHA2	56146	broad.mit.edu	37	chr5	140175691	140175691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcggatcgcgactctggtaCgaatggacatgtcacctgct	8	10	12	11	4	2	0	1	0	1	0	4	4	2	2	1	3	2	2	1	3	2	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:140175691C>T	uc003lhd.2	+	1	1248	c.1142C>T	c.(1141-1143)ACG>ATG	p.T381M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.T381M|PCDHA2_uc011czy.1_Missense_Mutation_p.T381M	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	381	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACTCTGGTACGAATGGACAT	0.552													128	28					0	0	0.048971	0	0		T	140175691	T	T	140175691	3	4	158	1	0	0	0	0	1	0	0	0	11543	536	19	1	1144	1	PCDHA2	5	140175691	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	43854790	140175691	40739569	68	87059											
GPR151	134391	broad.mit.edu	37	chr5	145894703	145894705	+	In_Frame_Del	DEL	ATC	-	-																															cagttggaggttttttggttAtcatccatttccatacacct																										TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:145894703_145894705delATC	uc003lod.1	-	1	972_974	c.972_974delGAT	c.(970-975)ATGATA>ATA	p.M324del		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	324	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TTTTTTGGTTATCATCCATTTCC	0.458													34	44	---	---	---	---						.	-	145894705	-	-	145894703	7	5	158	1	0	1	0	1	0	0	0	0	6672	449	16	0	289	0	GPR151	5	145894703	In_Frame_Del	DEL	ATC	TCGA-CG-5730-01A-11D-1600-08	5719012	145894703	35020557	69	87060											
ADAMTS2	9509	broad.mit.edu	37	chr5	178555091	178555091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcatgtatttgtacgtcagtGagacccgggtgtctcccacc	7	12	10	12	2	3	1	2	1	1	1	4	2	3	1	3	1	1	2	3	1	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr5:178555091G>A	uc003mjw.2	-	17	2486	c.2486C>T	c.(2485-2487)TCA>TTA	p.S829L		NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	829	Spacer.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		GTACGTCAGTGAGACCCGGGT	0.572													5	158					0	0	0.014758	0	0		A	178555091	A	A	178555091	3	1	158	1	0	0	0	0	1	0	0	0	265	1294	45	4	1173	4	ADAMTS2	5	178555091	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	32660388	178555091	2360169	70	87061											
DEK	7913	broad.mit.edu	37	chr6	18256032	18256032	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttcactatttacacctgatCtctccaaatcaagaacctca	13	12	3	13	0	4	2	3	1	1	1	6	2	5	2	3	0	2	1	3	0	5	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:18256032C>G	uc003ncr.1	-	6	696	c.503G>C	c.(502-504)AGA>ACA	p.R168T	DEK_uc011djf.1_Missense_Mutation_p.R134T|DEK_uc011djg.1_RNA	NM_003472	NP_003463	P35659	DEK_HUMAN	DEK oncogene isoform 1	168	SAP.				chromatin modification|regulation of transcription from RNA polymerase II promoter|signal transduction|transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|histone binding			kidney(1)	1	Ovarian(93;0.00769)|Breast(50;0.0495)	all_hematologic(90;0.053)	OV - Ovarian serous cystadenocarcinoma(7;0.00291)|all cancers(50;0.031)|Epithelial(50;0.0332)			TACACCTGATCTCTCCAAATC	0.338			T	NUP214	AML								42	98					0	0	0.092188	0	0		G	18256032	G	G	18256032	3	3	158	1	0	0	0	0	1	0	0	0	4430	913	32	5	648	5	DEK	6	18256032	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08		18256032	152859035	71	87062											
NKAPL	222698	broad.mit.edu	37	chr6	28227362	28227362	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttagtcgctctgggtcGcgagggcggctcccaagatt	5	10	13	13	4	1	1	0	0	1	1	4	2	2	1	2	3	0	2	2	3	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:28227362G>A	uc003nkt.2	+	1	265	c.213G>A	c.(211-213)TCG>TCA	p.S71S	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	71										upper_aerodigestive_tract(1)|ovary(1)	2						GCTCTGGGTCGCGAGGGCGGC	0.607													61	36					0	0	0.048971	0	0		A	28227362	A	A	28227362	2	1	158	1	0	0	0	0	0	0	0	1	10459	1074	38	1		1	NKAPL	6	28227362	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	9971330	28227362	142887705	72	87063											
TNXB	7148	broad.mit.edu	37	chr6	32029299	32029299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgctctcctcgcccccaacaCgcaccacctggggccgcccg	5	4	9	23	5	1	0	0	0	1	0	3	0	1	0	7	2	1	2	7	2	1	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:32029299C>T	uc003nzl.2	-	21	7569	c.7367G>A	c.(7366-7368)CGT>CAT	p.R2456H		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2516	Fibronectin type-III 17.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						GCCCCCAACACGCACCACCTG	0.692													17	49					0	0	0.043863	0	0		T	32029299	T	T	32029299	3	4	158	1	0	0	0	0	1	0	0	0	16371	536	19	1	7442	1	TNXB	6	32029299	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	3801937	32029299	139085768	73	87064											
C6orf1	221491	broad.mit.edu	37	chr6	34214426	34214426	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcagtgaggtgatggtgagGgcatgggaagcagatgctgc	9	7	20	5	0	0	4	0	3	0	1	0	5	0	5	0	5	3	4	0	5	1	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:34214426G>A	uc003ojf.2	-	5	937	c.345C>T	c.(343-345)GCC>GCT	p.A115A	uc003oje.1_5'Flank|C6orf1_uc003ojg.2_Silent_p.A115A|C6orf1_uc003ojh.2_Silent_p.A115A|C6orf1_uc003oji.2_RNA	NM_178508	NP_848603	Q86T20	CF001_HUMAN	hypothetical protein LOC221491 precursor	115						extracellular region					0		Ovarian(999;0.0228)		BRCA - Breast invasive adenocarcinoma(397;1.11e-10)		TGATGGTGAGGGCATGGGAAG	0.627											OREG0017364	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	29					0	0	0.047766	0	0		A	34214426	A	A	34214426	2	1	158	1	0	0	0	0	0	0	0	1	2319	1219	43	4		4	C6orf1	6	34214426	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2185127	34214426	136900641	74	87065											
TULP1	7287	broad.mit.edu	37	chr6	35466196	35466196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccggtagtctagggtgaaggCgtcctccgccacgcggccga	6	6	15	14	6	1	1	0	1	1	0	3	2	3	1	5	4	0	1	5	4	3	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:35466196C>T	uc003okv.3	-	15	1549	c.1537G>A	c.(1537-1539)GCC>ACC	p.A513T	TEAD3_uc003oku.3_5'Flank|TEAD3_uc010jvx.2_5'Flank|TULP1_uc003okw.3_Missense_Mutation_p.A460T	NM_003322	NP_003313	O00294	TULP1_HUMAN	tubby like protein 1	513					dendrite development|eye photoreceptor cell development|phagocytosis|photoreceptor cell maintenance|positive regulation of phagocytosis	cell junction|cytoplasm|extracellular region|photoreceptor inner segment|photoreceptor outer segment|synapse	actin filament binding|phosphatidylinositol-4,5-bisphosphate binding			ovary(2)|central_nervous_system(1)	3						AGGGTGAAGGCGTCCTCCGCC	0.667													7	18					0	0	0.02938	0	0		T	35466196	T	T	35466196	3	4	158	1	0	0	0	0	1	0	0	0	16799	768	27	1	95	1	TULP1	6	35466196	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	1251770	35466196	135648871	75	87066											
DEFB110	245913	broad.mit.edu	37	chr6	49976943	49976943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatattcctctcactttttCgcatctttcaaatctatact	10	18	1	12	1	4	0	2	0	3	0	7	0	5	0	1	0	1	1	1	0	4	7			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:49976943C>T	uc011dwr.1	-	2	143	c.97G>A	c.(97-99)GAA>AAA	p.E33K		NM_001037728	NP_001032817	Q30KQ9	DB110_HUMAN	beta-defensin 110 isoform b	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					defense response to bacterium	extracellular region				ovary(1)	1	Lung NSC(77;0.042)					CTCACTTTTTCGCATCTTTCA	0.328													6	127					0	0	0.038147	0	0		T	49976943	T	T	49976943	3	4	158	1	0	0	0	0	1	0	0	0	4405	893	31	1	93	1	DEFB110	6	49976943	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	14510747	49976943	121138124	76	87067											
BAI3	577	broad.mit.edu	37	chr6	69772895	69772895	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacccaaaacaaccgattcGtttctggagatagaactagc	15	8	8	10	2	1	2	0	0	1	2	2	5	1	2	2	1	5	1	2	1	7	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:69772895G>A	uc003pev.3	+	16	2851	c.2403G>A	c.(2401-2403)TCG>TCA	p.S801S	BAI3_uc010kak.2_Silent_p.S801S	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	801	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CAACCGATTCGTTTCTGGAGA	0.368													46	110					0	0	0.048971	0	0		A	69772895	A	A	69772895	2	1	158	1	0	0	0	0	0	0	0	1	1301	1132	40	1		1	BAI3	6	69772895	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	19795952	69772895	101342172	77	87068											
SLC22A1	6580	broad.mit.edu	37	chr6	160543066	160543066	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgtcggctgcctttgcGcccatctgtgtgggcatcgt	2	13	13	13	3	1	0	0	0	1	0	3	0	1	0	2	2	3	3	2	2	0	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:160543066G>A	uc003qtc.2	+	1	204	c.99G>A	c.(97-99)GCG>GCA	p.A33A	SLC22A1_uc003qtd.2_Silent_p.A33A	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	33	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		CTGCCTTTGCGCCCATCTGTG	0.607													34	127					0	0	0.092188	0	0		A	160543066	A	A	160543066	2	1	158	1	0	0	0	0	0	0	0	1	14465	1074	38	1		1	SLC22A1	6	160543066	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	90770171	160543066	10572001	78	87069											
SMOC2	64094	broad.mit.edu	37	chr6	169051367	169051367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgtttttcaggttgtcCgggtgccaaaaagcatgagt	9	12	12	8	2	1	1	1	1	0	0	2	1	2	1	2	2	2	3	2	2	2	3	rs148223188		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr6:169051367C>T	uc003qws.1	+	10	934	c.914C>T	c.(913-915)CCG>CTG	p.P305L	SMOC2_uc003qwr.1_Missense_Mutation_p.P316L|SMOC2_uc011egu.1_5'UTR	NM_022138	NP_071421	Q9H3U7	SMOC2_HUMAN	SPARC related modular calcium binding 2	305					signal transduction	basement membrane	calcium ion binding			ovary(1)	1		Breast(66;0.000141)|Esophageal squamous(34;0.222)|Ovarian(120;0.231)		OV - Ovarian serous cystadenocarcinoma(33;1.31e-19)|BRCA - Breast invasive adenocarcinoma(81;3.06e-06)|GBM - Glioblastoma multiforme(31;0.00109)		TCAGGTTGTCCGGGTGCCAAA	0.473													26	34					0	0	0.083992	0	0		T	169051367	T	T	169051367	3	4	158	1	0	0	0	0	1	0	0	0	14827	652	23	1	985	1	SMOC2	6	169051367	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	8508301	169051367	2063700	79	87070											
TMEM195	392636	broad.mit.edu	37	chr7	15425182	15425182	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaagggaacttctttgccGgtgacctagggagacaagaa	13	7	14	7	1	1	4	0	1	1	3	1	7	1	5	2	3	2	0	2	3	5	3	rs137980424	byFrequency	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:15425182G>A	uc003stb.1	-	10	1133	c.963C>T	c.(961-963)ACC>ACT	p.T321T		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	321					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						CTTCTTTGCCGGTGACCTAGG	0.358													37	120					0	0	0.080422	0	0		A	15425182	A	A	15425182	2	1	158	1	0	0	0	0	0	0	0	1	16142	1103	39	1		1	TMEM195	7	15425182	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08		15425182	143713481	80	87071											
GGCT	79017	broad.mit.edu	37	chr7	30544315	30544315	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgacgtccttgcagcccGagttggccatatcccactac	7	9	9	16	3	0	1	0	1	0	0	2	2	2	1	5	1	3	2	5	1	2	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:30544315G>T	uc003tba.2	-	1	138	c.11C>A	c.(10-12)TCG>TAG	p.S4*	GGCT_uc003tbb.2_Nonsense_Mutation_p.S4*|GGCT_uc003tbc.2_RNA	NM_024051	NP_076956	O75223	GGCT_HUMAN	gamma-glutamyl cyclotransferase	4					release of cytochrome c from mitochondria	cytosol	acyltransferase activity|gamma-glutamylcyclotransferase activity|protein homodimerization activity				0						CTTGCAGCCCGAGTTGGCCAT	0.607													37	109					3.54561e-26	3.96176e-26	0.11126	1	0		T	30544315	T	T	30544315	4	4	158	1	0	0	0	0	0	1	0	0	6370	1059	37	5	571	5	GGCT	7	30544315	Nonsense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	15119133	30544315	128594348	81	87072											
GLI3	2737	broad.mit.edu	37	chr7	42004251	42004251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagtaactcagagtttttggCgctggtcccctgtagcaggc	8	11	12	10	1	1	1	1	0	0	1	2	1	2	1	2	3	2	5	2	3	3	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:42004251C>T	uc011kbh.1	-	15	4511	c.4420G>A	c.(4420-4422)GCC>ACC	p.A1474T	GLI3_uc011kbg.1_Missense_Mutation_p.A1415T	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1474					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GAGTTTTTGGCGCTGGTCCCC	0.522									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				17	49					0	0	0.028581	0	0		T	42004251	T	T	42004251	3	4	158	1	0	0	0	0	1	0	0	0	6454	768	27	1	326	1	GLI3	7	42004251	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	11459936	42004251	117134412	82	87073											
STAG3L4	64940	broad.mit.edu	37	chr7	66774084	66774084	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctcactggcttctcaGactcacaagtctgcgccttc	6	11	7	17	1	4	1	3	0	2	1	6	1	4	1	2	1	2	2	2	1	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:66774084G>T	uc003tvt.3	+	3	517	c.250G>T	c.(250-252)GAC>TAC	p.D84Y	STAG3L4_uc010laj.2_RNA	NM_022906	NP_075057	Q8TBR4	STG34_HUMAN	stromal antigen 3-like 4	84											0		Lung NSC(55;0.0839)|all_lung(88;0.181)				TGGCTTCTCAGACTCACAAGT	0.507													34	82					2.20474e-14	2.38512e-14	0.064281	1	0		T	66774084	T	T	66774084	3	4	158	1	0	0	0	0	1	0	0	0	15272	942	33	5	256	5	STAG3L4	7	66774084	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	24769833	66774084	92364579	83	87074											
LAT2	7462	broad.mit.edu	37	chr7	73638356	73638356	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctctctgcaggtgcccagCaggagggcataggtggcctc	6	7	14	14	0	1	0	0	0	1	0	3	1	1	1	3	5	3	3	3	5	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:73638356C>T	uc003uag.2	+	12	1007	c.457C>T	c.(457-459)CAG>TAG	p.Q153*	RFC2_uc011kfa.1_Intron|LAT2_uc003uah.2_Nonsense_Mutation_p.Q153*|LAT2_uc003uai.2_Nonsense_Mutation_p.Q153*|LAT2_uc010lbo.2_RNA	NM_032464	NP_115853	Q9GZY6	NTAL_HUMAN	linker for activation of T cells family member	153	Cytoplasmic (Potential).				B cell activation|B cell receptor signaling pathway|calcium-mediated signaling|mast cell degranulation	integral to membrane|intracellular|membrane raft|plasma membrane	SH2 domain binding				0						AGGTGCCCAGCAGGAGGGCAT	0.637													9	25					0	0	0.047766	0	0		T	73638356	T	T	73638356	4	4	158	1	0	0	0	0	0	1	0	0	8661	711	25	2	495	2	LAT2	7	73638356	Nonsense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	6864272	73638356	85500307	84	87075											
UPK3B	80761	broad.mit.edu	37	chr7	76140158	76140158	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccccctccgattgggagaGgcagccccagggacccccac	7	3	12	19	1	0	1	0	0	0	1	1	4	1	2	8	3	1	1	8	3	0	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:76140158G>A	uc003ufq.2	+	1	414	c.189G>A	c.(187-189)GAG>GAA	p.E63E	UPK3B_uc003ufo.2_Intron|UPK3B_uc010ldk.1_Intron	NM_030570	NP_085047	Q9BT76	UPK3B_HUMAN	uroplakin 3B isoform a	63	Lumenal (Potential).				negative regulation of gene expression	integral to membrane|plasma membrane				central_nervous_system(1)	1		Myeloproliferative disorder(862;0.204)				GATTGGGAGAGGCAGCCCCAG	0.687													7	5					0	0	0.02938	0	0		A	76140158	A	A	76140158	2	1	158	1	0	0	0	0	0	0	0	1	17037	991	35	4		4	UPK3B	7	76140158	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2501802	76140158	82998505	85	87076											
TECPR1	25851	broad.mit.edu	37	chr7	97860371	97860371	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatggaccagatggcctgCggggacgggcggccctgcac	6	5	18	12	3	0	2	0	1	0	1	0	4	0	4	3	6	2	1	3	6	0	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:97860371C>T	uc003upg.2	-	15	2389	c.2184G>A	c.(2182-2184)CCG>CCA	p.P728P	TECPR1_uc003uph.1_Silent_p.P658P	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	728						integral to membrane	protein binding			pancreas(1)	1						AGATGGCCTGCGGGGACGGGC	0.642													10	10					0	0	0.069234	0	0		T	97860371	T	T	97860371	2	4	158	1	0	0	0	0	0	0	0	1	15768	755	27	1		1	TECPR1	7	97860371	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	21720213	97860371	61278292	86	87077											
SLC12A9	56996	broad.mit.edu	37	chr7	100454554	100454554	+	Silent	SNP	C	T	T	0	0	0	1	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	ggctggaacctgctgtatggCtccctgctgctgggccttgt	3	12	14	12	0	0	0	0	0	0	0	1	1	1	1	3	4	4	6	3	4	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:100454554C>T	uc003uwp.2	+	5	655	c.513C>T	c.(511-513)GGC>GGT	p.G171G	SLC12A9_uc003uwo.1_Silent_p.G82G|SLC12A9_uc003uwq.2_Silent_p.G82G|SLC12A9_uc011kki.1_Intron|SLC12A9_uc003uwr.2_5'UTR|SLC12A9_uc003uws.2_5'UTR|SLC12A9_uc003uwt.2_5'UTR|SLC12A9_uc003uwv.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	171	Helical; (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					TGCTGTATGGCTCCCTGCTGC	0.657													21	41					0	0	0.069288	0	0		T	100454554	T	T	100454554	2	4	158	1	0	0	0	0	0	0	0	1	14415	784	28	2		2	SLC12A9	7	100454554	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2594183	100454554	58684109	87	87078											
DOCK4	9732	broad.mit.edu	37	chr7	111386415	111386415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcatcagctctcttaatCgtgcaattttctccccatct	9	14	4	14	1	4	0	1	0	3	0	7	0	4	0	2	0	3	3	2	0	3	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:111386415C>T	uc003vfx.2	-	43	4894	c.4625G>A	c.(4624-4626)CGA>CAA	p.R1542Q	DOCK4_uc011kml.1_Missense_Mutation_p.R423Q|DOCK4_uc011kmm.1_Missense_Mutation_p.R449Q|DOCK4_uc003vfw.2_Missense_Mutation_p.R992Q|DOCK4_uc003vfy.2_Missense_Mutation_p.R1587Q	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1542	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CTCTCTTAATCGTGCAATTTT	0.448													11	25					0	0	0.105934	0	0		T	111386415	T	T	111386415	3	4	158	1	0	0	0	0	1	0	0	0	4695	884	31	1	1315	1	DOCK4	7	111386415	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	10931861	111386415	47752248	88	87079											
C7orf53	286006	broad.mit.edu	37	chr7	112129968	112129968	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacatgatcgtaaagcgactCaaccaactcaaccaactgga	17	6	6	12	2	2	1	2	1	0	0	3	3	2	2	2	1	6	1	2	1	7	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:112129968C>T	uc011kmq.1	+	4	495	c.360C>T	c.(358-360)CTC>CTT	p.L120L	C7orf53_uc003vgl.2_RNA|C7orf53_uc003vgm.2_Silent_p.L120L	NM_001134468	NP_001127940	Q8N8F7	CG053_HUMAN	hypothetical protein LOC286006	120	Potential.					integral to membrane				ovary(1)	1						TAAAGCGACTCAACCAACTCA	0.388													57	163					0	0	0.048971	0	0		T	112129968	T	T	112129968	2	4	158	1	0	0	0	0	0	0	0	1	2405	813	29	4		4	C7orf53	7	112129968	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	743553	112129968	47008695	89	87080											
PTPRZ1	5803	broad.mit.edu	37	chr7	121694004	121694004	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatcattacccagcaccCtctccttcataccatcaagg	11	11	3	16	0	5	0	4	0	1	0	6	0	5	0	4	1	3	1	4	1	3	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr7:121694004C>A	uc003vjy.2	+	26	6688	c.6293C>A	c.(6292-6294)CCT>CAT	p.P2098H	PTPRZ1_uc003vjz.2_Missense_Mutation_p.P1231H|PTPRZ1_uc011knt.1_Missense_Mutation_p.P688H	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	2098	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						ACCCAGCACCCTCTCCTTCAT	0.423													31	316					1.39806e-14	1.51935e-14	0.037714	1	0		A	121694004	A	A	121694004	3	1	158	1	0	0	0	0	1	0	0	0	12839	681	24	5	6395	5	PTPRZ1	7	121694004	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	9564036	121694004	37444659	90	87081											
C8orf22	492307	broad.mit.edu	37	chr8	49985432	49985432	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgccttctagccagaaatCagtattatcgaagtaagttg	12	13	9	7	1	2	1	1	0	1	1	3	2	2	1	2	0	2	4	2	0	6	7			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr8:49985432C>A	uc003xqq.3	+	2	226	c.43C>A	c.(43-45)CAG>AAG	p.Q15K		NM_001007176	NP_001007177	Q8WWR9	PDPFL_HUMAN	hypothetical protein LOC492307	15											0		all_cancers(86;0.0452)|all_epithelial(80;0.000863)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				AGCCAGAAATCAGTATTATCG	0.423													33	147					1.96642e-18	2.17678e-18	0.092188	1	0		A	49985432	A	A	49985432	3	1	158	1	0	0	0	0	1	0	0	0	2422	827	29	5	45	5	C8orf22	8	49985432	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08		49985432	96378590	91	87082											
KCNB2	9312	broad.mit.edu	37	chr8	73849466	73849466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctgccgccgccctccGcctctcacttgcagatgaag	5	7	10	19	5	1	2	1	1	1	1	3	2	2	2	6	0	2	2	6	0	1	1	rs139648032		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr8:73849466G>A	uc003xzb.2	+	3	2464	c.1876G>A	c.(1876-1878)GCC>ACC	p.A626T		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	626	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GCCGCCCTCCGCCTCTCACTT	0.582													75	91					0	0	0.048971	0	0		A	73849466	A	A	73849466	3	1	158	1	0	0	0	0	1	0	0	0	8029	1087	38	1	1882	1	KCNB2	8	73849466	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	23864034	73849466	72514556	92	87083											
CRISPLD1	83690	broad.mit.edu	37	chr8	75927099	75927099	+	Missense_Mutation	SNP	T	A	A	0	1	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	atgggcggccctgttctgctTgcccacctagttttggaggg	4	12	14	11	1	1	0	0	0	1	0	1	1	1	1	3	4	2	3	3	4	1	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr8:75927099T>A	uc003yan.2	+	6	1054	c.679T>A	c.(679-681)TGC>AGC	p.C227S	CRISPLD1_uc011lfk.1_Missense_Mutation_p.C39S|CRISPLD1_uc011lfl.1_Missense_Mutation_p.C39S	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	227						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			CTGTTCTGCTTGCCCACCTAG	0.428													6	88					0	0	0.02938	0	0		A	75927099	A	A	75927099	3	1	158	1	0	0	0	0	1	0	0	0	3885	1812	63	5	697	5	CRISPLD1	8	75927099	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	2077633	75927099	70436923	93	87084											
WWP1	11059	broad.mit.edu	37	chr8	87470223	87470223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtttatcgacattatacaaGaaacagcaagcaaatcattt	17	12	5	7	1	1	1	1	0	0	1	2	2	1	1	0	0	4	3	0	0	7	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr8:87470223G>A	uc003ydt.2	+	22	2748	c.2468G>A	c.(2467-2469)AGA>AAA	p.R823K		NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	823	HECT.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						CATTATACAAGAAACAGCAAG	0.363													13	202					0	0	0.020292	0	0		A	87470223	A	A	87470223	3	1	158	1	0	0	0	0	1	0	0	0	17441	942	33	4	2546	4	WWP1	8	87470223	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	11543124	87470223	58893799	94	87085											
CNGB3	54714	broad.mit.edu	37	chr8	87656093	87656093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagcaagtatccagttgttCgaataactctgtcagagaga	14	10	9	8	1	2	2	1	0	1	2	4	4	3	2	1	0	2	4	1	0	4	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr8:87656093C>T	uc003ydx.2	-	10	1110	c.1064G>A	c.(1063-1065)CGA>CAA	p.R355Q	CNGB3_uc010maj.2_Missense_Mutation_p.R217Q	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	355	Extracellular (Potential).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TCCAGTTGTTCGAATAACTCT	0.358													45	152					0	0	0.042209	0	0		T	87656093	T	T	87656093	3	4	158	1	0	0	0	0	1	0	0	0	3604	884	31	1	1401	1	CNGB3	8	87656093	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	185870	87656093	58707929	95	87086											
CSMD3	114788	broad.mit.edu	37	chr8	114031299	114031299	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtattccataagtataccttGatagggagcactaaatccac	14	11	7	9	0	0	1	0	1	0	0	2	2	2	2	3	1	2	3	3	1	7	8			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr8:114031299G>C	uc003ynu.2	-	6	1186	c.1027C>G	c.(1027-1029)CAA>GAA	p.Q343E	CSMD3_uc003ynt.2_Missense_Mutation_p.Q303E|CSMD3_uc011lhx.1_Missense_Mutation_p.Q343E|CSMD3_uc010mcx.1_Missense_Mutation_p.Q343E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	343	Extracellular (Potential).|CUB 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGTATACCTTGATAGGGAGCA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			152	133					0	0	0.048971	0	0		C	114031299	C	C	114031299	3	2	158	1	0	0	0	0	1	0	0	0	3949	1299	45	5	10360	5	CSMD3	8	114031299	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	26375206	114031299	32332723	96	87087											
TRAPPC9	83696	broad.mit.edu	37	chr8	141034153	141034153	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccgggcctccagagtatttGaaattcaggacagcttccag	10	9	10	12	1	1	2	1	1	0	1	3	3	3	3	4	2	1	2	4	2	2	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr8:141034153G>A	uc003yvj.2	-	18	2714	c.2580C>T	c.(2578-2580)TTC>TTT	p.F860F	TRAPPC9_uc003yvh.2_Silent_p.F958F|TRAPPC9_uc010mel.1_Silent_p.F281F|TRAPPC9_uc003yvi.1_Silent_p.F851F	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	860					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CAGAGTATTTGAAATTCAGGA	0.458													37	146					0	0	0.092188	0	0		A	141034153	A	A	141034153	2	1	158	1	0	0	0	0	0	0	0	1	16491	1281	45	4		4	TRAPPC9	8	141034153	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	27002854	141034153	5329869	97	87088											
INSL6	11172	broad.mit.edu	37	chr9	5185416	5185416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggcctgtgcaatcaaccGtgagaaaggggtttcctcct	9	9	12	11	2	1	1	1	1	0	1	3	3	3	1	4	3	2	2	4	3	3	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr9:5185416G>A	uc003zix.2	-	1	203	c.187C>T	c.(187-189)CGG>TGG	p.R63W		NM_007179	NP_009110	Q9Y581	INSL6_HUMAN	insulin-like 6 precursor	63						extracellular region	hormone activity				0	all_hematologic(13;0.137)	Breast(48;0.147)|Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.0128)|Lung(218;0.145)		GCAATCAACCGTGAGAAAGGG	0.572													128	45					0	0	0.048971	0	0		A	5185416	A	A	5185416	3	1	158	1	0	0	0	0	1	0	0	0	7786	1144	40	1	462	1	INSL6	9	5185416	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		5185416	136028015	98	87089											
MLLT3	4300	broad.mit.edu	37	chr9	20413763	20413763	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccacatctgaatcattggGatccacaatatcatcaaatg	14	11	5	11	0	4	1	3	1	1	0	6	2	6	2	2	1	0	0	2	1	4	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr9:20413763G>T	uc003zoe.2	-	5	1340	c.1081C>A	c.(1081-1083)CCC>ACC	p.P361T	MLLT3_uc011lne.1_Missense_Mutation_p.P329T|MLLT3_uc011lnf.1_Missense_Mutation_p.P358T|MLLT3_uc003zof.2_Missense_Mutation_p.P162T	NM_004529	NP_004520	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	361					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		GAATCATTGGGATCCACAATA	0.353			T	MLL	ALL								67	31					1.15074e-40	1.29799e-40	0.048971	1	0		T	20413763	T	T	20413763	3	4	158	1	0	0	0	0	1	0	0	0	9646	1174	41	5	653	5	MLLT3	9	20413763	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	15228347	20413763	120799668	99	87090											
C9orf79	286234	broad.mit.edu	37	chr9	90500615	90500615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggacatcacgaccctaaatCccttctggaacgtgtcaacc	11	8	8	14	2	3	0	2	0	1	0	4	3	4	2	3	2	2	0	3	2	4	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr9:90500615C>T	uc004app.3	+	4	1248	c.1213C>T	c.(1213-1215)CCC>TCC	p.P405S	C9orf79_uc004apo.1_Missense_Mutation_p.P217S	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	405						integral to membrane				ovary(3)	3						GACCCTAAATCCCTTCTGGAA	0.562													28	65					0	0	0.108266	0	0		T	90500615	T	T	90500615	3	4	158	1	0	0	0	0	1	0	0	0	2500	855	30	4	1227	4	C9orf79	9	90500615	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	70086852	90500615	50712816	100	87091											
PHF19	26147	broad.mit.edu	37	chr9	123624899	123624899	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcctctcttacgcagctcaGaggaggcgctgttctcattt	6	14	9	12	2	3	1	2	0	2	1	6	2	4	2	1	2	2	4	1	2	1	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr9:123624899G>A	uc004bks.1	-	11	1350	c.1097C>T	c.(1096-1098)TCT>TTT	p.S366F	PHF19_uc011lyf.1_Missense_Mutation_p.S157F|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	366					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						ACGCAGCTCAGAGGAGGCGCT	0.612													16	220					0	0	0.0333	0	0		A	123624899	A	A	123624899	3	1	158	1	0	0	0	0	1	0	0	0	11848	942	33	4	665	4	PHF19	9	123624899	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	33124284	123624899	17588532	101	87092											
OR1N2	138882	broad.mit.edu	37	chr9	125315995	125315995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacactgttgctgacccgcGtggctttctgtgcccagaaa	8	10	10	13	2	1	2	0	1	1	1	1	2	1	2	2	1	2	3	2	1	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr9:125315995G>A	uc011lyx.1	+	1	547	c.547G>A	c.(547-549)GTG>ATG	p.V183M		NM_001004457	NP_001004457	Q8NGR9	OR1N2_HUMAN	olfactory receptor, family 1, subfamily N,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4						GCTGACCCGCGTGGCTTTCTG	0.527													54	63					0	0	0.048971	0	0		A	125315995	A	A	125315995	3	1	158	1	0	0	0	0	1	0	0	0	10989	1145	40	1	549	1	OR1N2	9	125315995	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	1691096	125315995	15897436	102	87093											
ERCC6	2074	broad.mit.edu	37	chr10	50732109	50732109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcttataataatcttcatctCcatcatctcggtatcttccc	9	16	3	13	1	6	0	2	0	4	0	9	0	7	0	2	1	0	2	2	1	4	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr10:50732109C>T	uc001jhs.3	-	5	1521	c.1367G>A	c.(1366-1368)GGA>GAA	p.G456E	PGBD3_uc001jht.2_5'UTR|PGBD3_uc009xoe.2_Missense_Mutation_p.G456E|PGBD3_uc001jhu.2_Missense_Mutation_p.G456E	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	456					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						ATCTTCATCTCCATCATCTCG	0.423								Direct_reversal_of_damage|NER					59	90					0	0	0.048971	0	0		T	50732109	T	T	50732109	3	4	158	1	0	0	0	0	1	0	0	0	5225	855	30	4	3182	4	ERCC6	10	50732109	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08		50732109	84802638	103	87094											
GLUD1	2746	broad.mit.edu	37	chr10	88818962	88818962	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggtcaaacggccatagctGacatgatttagattcttcag	13	11	9	8	1	3	3	2	2	1	1	3	3	3	3	1	2	2	1	1	2	4	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr10:88818962G>A	uc001keh.2	-	10	1444	c.1347C>T	c.(1345-1347)GTC>GTT	p.V449V	GLUD1_uc001keg.2_Silent_p.V282V|GLUD1_uc010qmp.1_Silent_p.V316V	NM_005271	NP_005262	P00367	DHE3_HUMAN	glutamate dehydrogenase 1 precursor	449					glutamate biosynthetic process|glutamate catabolic process|positive regulation of insulin secretion	mitochondrial matrix	ADP binding|ATP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|identical protein binding|leucine binding|NAD+ binding				0					L-Glutamic Acid(DB00142)|NADH(DB00157)	GGCCATAGCTGACATGATTTA	0.383													8	237					0	0	0.047766	0	0		A	88818962	A	A	88818962	2	1	158	1	0	0	0	0	0	0	0	1	6491	1277	45	4		4	GLUD1	10	88818962	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	38086853	88818962	46715785	104	87095											
DCLRE1A	9937	broad.mit.edu	37	chr10	115608783	115608783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgtcttttttcttgatcctCctacattagatgactctggg	7	18	7	9	0	3	3	0	2	3	1	5	3	5	3	2	1	1	0	2	1	2	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr10:115608783C>T	uc001law.2	-	2	2999	c.2081G>A	c.(2080-2082)GGA>GAA	p.G694E		NM_014881	NP_055696	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	694					cell division|mitosis	nucleus	hydrolase activity			skin(2)	2				Epithelial(162;0.0157)|all cancers(201;0.0171)		TCTTGATCCTCCTACATTAGA	0.363								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					123	472					0	0	0.048971	0	0		T	115608783	T	T	115608783	3	4	158	1	0	0	0	0	1	0	0	0	4297	855	30	4	1073	4	DCLRE1A	10	115608783	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	26789821	115608783	19925964	105	87096											
TCERG1L	256536	broad.mit.edu	37	chr10	132965080	132965080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttgtcttctttgtctccatCccggctcttctgggcccgca	2	15	8	16	2	5	0	0	0	5	0	7	0	6	0	3	2	0	2	3	2	0	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr10:132965080C>T	uc001lkp.2	-	5	1011	c.925G>A	c.(925-927)GAT>AAT	p.D309N	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	309										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		TTGTCTCCATCCCGGCTCTTC	0.577													13	43					0	0	0.105934	0	0		T	132965080	T	T	132965080	3	4	158	1	0	0	0	0	1	0	0	0	15711	855	30	4	867	4	TCERG1L	10	132965080	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	17356297	132965080	2569667	106	87097											
EPS8L2	64787	broad.mit.edu	37	chr11	724768	724768	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggccaagtacgtcaagatccTgtatgacttcacagcccgaa	12	8	9	12	2	2	2	2	1	0	1	3	3	3	2	3	1	2	2	3	1	5	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:724768T>G	uc001lqt.2	+	16	1746	c.1499T>G	c.(1498-1500)CTG>CGG	p.L500R	EPS8L2_uc001lqu.2_Missense_Mutation_p.L500R|EPS8L2_uc010qwk.1_Missense_Mutation_p.L516R|EPS8L2_uc001lqv.2_Missense_Mutation_p.L455R|EPS8L2_uc001lqw.2_Missense_Mutation_p.L112R|EPS8L2_uc001lqx.2_Missense_Mutation_p.L112R|EPS8L2_uc001lqy.2_Missense_Mutation_p.L8R	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	500	SH3.					cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTCAAGATCCTGTATGACTTC	0.597													8	16					0	0	0.080935	0	0		G	724768	G	G	724768	3	3	158	1	0	0	0	0	1	0	0	0	5204	1580	55	5	1557	5	EPS8L2	11	724768	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08		724768	134281748	107	87098											
OR52R1	119695	broad.mit.edu	37	chr11	4825678	4825678	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	gatgataacaatcaaaacaaGtgttattattatatacaagg	19	12	6	4	0	1	1	1	1	0	0	1	2	1	1	0	1	3	1	0	1	11	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:4825678G>C	uc010qym.1	-	1	170	c.170C>G	c.(169-171)ACT>AGT	p.T57S		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	Error:Variant_position_missing_in_Q8NGF1_after_alignment					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATCAAAACAAGTGTTATTATT	0.368													38	86					0	0	0.039052	0	0		C	4825678	C	C	4825678	3	2	158	1	0	0	0	0	1	0	0	0	11150	1044	36	5		5	OR52R1	11	4825678	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	4100910	4825678	130180838	108	87099											
OR51B6	390058	broad.mit.edu	37	chr11	5373309	5373309	+	Frame_Shift_Del	DEL	C	-	-																															gctagcctgtgctgacatcaCcttcaaccgtctctatccag																								rs115333544	byFrequency	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:5373309delC	uc010qzb.1	+	1	572	c.572delC	c.(571-573)ACCfs	p.T191fs	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCTGACATCACCTTCAACCGT	0.433													47	89	---	---	---	---						.	-	5373309	-	-	5373309	7	5	158	1	0	1	0	1	0	0	0	0	11111	507	18	0	574	0	OR51B6	11	5373309	Frame_Shift_Del	DEL	C	TCGA-CG-5730-01A-11D-1600-08	547631	5373309	129633207	109	87100											
HTATIP2	10553	broad.mit.edu	37	chr11	20403748	20403748	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtagaagccaaggttgaaGaattaaaatttgatcgttac	17	11	9	4	1	0	4	0	2	0	2	1	4	0	4	1	1	2	3	1	1	9	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:20403748G>T	uc009yia.1	+	5	532	c.466G>T	c.(466-468)GAA>TAA	p.E156*	HTATIP2_uc009yib.1_Nonsense_Mutation_p.E156*|HTATIP2_uc001mpx.2_Nonsense_Mutation_p.E190*|HTATIP2_uc001mpz.2_Nonsense_Mutation_p.E156*	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform	156					angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						CAAGGTTGAAGAATTAAAATT	0.338													21	47					1.10513e-12	1.18478e-12	0.069288	1	0		T	20403748	T	T	20403748	4	4	158	1	0	0	0	0	0	1	0	0	7448	943	33	5	685	5	HTATIP2	11	20403748	Nonsense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	15030439	20403748	114602768	110	87101											
KIF18A	81930	broad.mit.edu	37	chr11	28098559	28098559	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaattgttaattaccttttCtactttgtcttcagaacaca	13	17	3	8	0	3	1	1	0	2	1	3	1	3	1	1	0	3	1	1	0	6	8			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:28098559C>G	uc001msc.2	-	10	1602	c.1420G>C	c.(1420-1422)GAA>CAA	p.E474Q		NM_031217	NP_112494	Q8NI77	KI18A_HUMAN	kinesin family member 18A	474					blood coagulation|microtubule depolymerization|microtubule-based movement|mitotic metaphase plate congression|mitotic prometaphase|protein transport	caveola|cytosol|kinetochore microtubule|microtubule organizing center|nucleus|ruffle	actin binding|ATP binding|microtubule plus-end binding|plus-end-directed microtubule motor activity|tubulin-dependent ATPase activity|ubiquitin binding			ovary(2)	2						attaCCTTTTCTACTTTGTCT	0.209													9	19					0	0	0.047766	0	0		G	28098559	G	G	28098559	3	3	158	1	0	0	0	0	1	0	0	0	8296	922	32	5	1308	5	KIF18A	11	28098559	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	7694811	28098559	106907957	111	87102											
GLYAT	10249	broad.mit.edu	37	chr11	58477536	58477536	+	Silent	SNP	C	T	T	0	0	0	1	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	ggaaaggtctgaatgcagcgCtcaatgaatctctggctcct	10	10	11	10	1	3	2	1	2	2	0	5	3	4	3	1	3	2	3	1	3	4	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:58477536C>T	uc001nnb.2	-	6	749	c.594G>A	c.(592-594)GAG>GAA	p.E198E		NM_201648	NP_964011	Q6IB77	GLYAT_HUMAN	glycine-N-acyltransferase isoform a	198					acyl-CoA metabolic process|response to toxin|xenobiotic metabolic process	mitochondrial matrix	glycine N-acyltransferase activity|glycine N-benzoyltransferase activity				0		Breast(21;0.0044)|all_epithelial(135;0.0157)			Glycine(DB00145)	GAATGCAGCGCTCAATGAATC	0.498													37	142					0	0	0.086207	0	0		T	58477536	T	T	58477536	2	4	158	1	0	0	0	0	0	0	0	1	6494	796	28	2		2	GLYAT	11	58477536	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	30378977	58477536	76528980	112	87103											
CTSW	1521	broad.mit.edu	37	chr11	65649722	65649722	+	Silent	SNP	T	A	A	0	1	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	atgggcagagaaataaggtcTgaagagccagaggagtcagt	15	6	15	5	0	2	4	1	1	1	3	2	6	2	5	1	3	1	1	1	3	3	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:65649722T>A	uc001ogc.1	+	4	405	c.363T>A	c.(361-363)TCT>TCA	p.S121S	CTSW_uc001ogb.1_Silent_p.S121S	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	121					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		AAATAAGGTCTGAAGAGCCAG	0.597													22	51					0	0	0.083992	0	0		A	65649722	A	A	65649722	2	1	158	1	0	0	0	0	0	0	0	1	4045	1567	55	5		5	CTSW	11	65649722	Silent	SNP	T	TCGA-CG-5730-01A-11D-1600-08	7172186	65649722	69356794	113	87104											
FGF3	2248	broad.mit.edu	37	chr11	69625121	69625121	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagtctcgaagcctgaacGtgagagggctccaggttatc	9	8	12	12	2	1	2	0	2	1	1	4	4	2	2	3	2	2	2	3	2	3	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:69625121G>A	uc001oph.2	-	3	1163	c.672C>T	c.(670-672)CAC>CAT	p.H224H		NM_005247	NP_005238	P11487	FGF3_HUMAN	fibroblast growth factor 3 precursor	224					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of cardiac muscle tissue development|positive regulation of cell division|positive regulation of cell proliferation	extracellular region	growth factor activity			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(11;5.05e-15)|STAD - Stomach adenocarcinoma(18;0.0278)			AAGCCTGAACGTGAGAGGGCT	0.687													3	8					0	0	0.014758	0	0		A	69625121	A	A	69625121	2	1	158	1	0	0	0	0	0	0	0	1	5867	1136	40	1		1	FGF3	11	69625121	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	3975399	69625121	65381395	114	87105											
CXCR5	643	broad.mit.edu	37	chr11	118764730	118764730	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgccgtccatgcctaccgCcaccgccgcctcctctccat	5	7	6	23	5	1	0	0	0	1	0	4	0	3	0	10	0	2	0	10	0	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:118764730C>T	uc001pue.3	+	2	587	c.477C>T	c.(475-477)CGC>CGT	p.R159R	CXCR5_uc001puf.2_Silent_p.R114R	NM_001716	NP_001707	P32302	CXCR5_HUMAN	Burkitt lymphoma receptor 1 isoform 1	159	Cytoplasmic (Potential).				B cell activation|cellular component movement	integral to plasma membrane	C-X-C chemokine receptor activity			breast(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		ATGCCTACCGCCACCGCCGCC	0.612													7	34					0	0	0.09319	0	0		T	118764730	T	T	118764730	2	4	158	1	0	0	0	0	0	0	0	1	4097	726	26	2		2	CXCR5	11	118764730	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	49139609	118764730	16241786	115	87106											
BCL9L	283149	broad.mit.edu	37	chr11	118772974	118772974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgccccatgtccccacccGgggggtgcccaggcacttca	5	6	12	18	1	1	0	1	0	0	0	2	0	2	0	6	4	2	2	6	4	0	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:118772974G>A	uc001pug.2	-	6	2443	c.1478C>T	c.(1477-1479)CCG>CTG	p.P493L	BCL9L_uc009zal.2_Missense_Mutation_p.P488L	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	493	Pro-rich.|Necessary for interaction with CTNNB1 (By similarity).				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GTCCCCACCCGGGGGGTGCCC	0.622													38	123					0	0	0.039052	0	0		A	118772974	A	A	118772974	3	1	158	1	0	0	0	0	1	0	0	0	1383	1116	39	1	3033	1	BCL9L	11	118772974	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	8244	118772974	16233542	116	87107											
OR10G8	219869	broad.mit.edu	37	chr11	123900713	123900713	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctggccatcagttacccGctcaggtacaccagcatgat	10	9	8	14	1	2	1	2	1	0	0	2	1	2	1	4	2	4	4	4	2	3	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr11:123900713G>A	uc001pzp.1	+	1	384	c.384G>A	c.(382-384)CCG>CCA	p.P128P		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		TCAGTTACCCGCTCAGGTACA	0.557													51	145					0	0	0.048971	0	0		A	123900713	A	A	123900713	2	1	158	1	0	0	0	0	0	0	0	1	10922	1074	38	1		1	OR10G8	11	123900713	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	5127739	123900713	11105803	117	87108											
VWF	7450	broad.mit.edu	37	chr12	6103352	6103352	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgaagtcattggctcCgttctcatcacagatcccta	10	11	7	13	1	3	2	3	1	1	1	6	2	5	2	2	1	1	3	2	1	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr12:6103352C>T	uc001qnn.1	-	37	6524	c.6274G>A	c.(6274-6276)GGA>AGA	p.G2092R	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2092	VWFD 4.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	TCATTGGCTCCGTTCTCATCA	0.493													21	76					0	0	0.055883	0	0		T	6103352	T	T	6103352	3	4	158	1	0	0	0	0	1	0	0	0	17272	661	23	1	2231	1	VWF	12	6103352	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08		6103352	127748543	118	87109											
FGD6	55785	broad.mit.edu	37	chr12	95602789	95602789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaagttctcgtactctggTatttcctcataatggcgtat	8	15	9	9	2	3	0	1	0	2	0	5	0	4	0	1	3	1	5	1	3	5	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr12:95602789T>C	uc001tdp.3	-	2	2495	c.2271A>G	c.(2269-2271)ATA>ATG	p.I757M	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	757					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						CGTACTCTGGTATTTCCTCAT	0.453													58	150					0	0	0.048971	0	0		C	95602789	C	C	95602789	3	2	158	1	0	0	0	0	1	0	0	0	5851	1628	57	3	2101	3	FGD6	12	95602789	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	89499437	95602789	38249106	119	87110											
BRAP	8315	broad.mit.edu	37	chr12	112119630	112119630	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctttcttccactgtagttTttagttcatctttcaccagt	6	20	4	11	0	4	0	2	0	2	0	6	0	6	0	3	0	0	3	3	0	2	8			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr12:112119630T>A	uc001tsn.3	-	3	448	c.254A>T	c.(253-255)AAA>ATA	p.K85I	BRAP_uc010syh.1_5'UTR|BRAP_uc009zvv.2_Missense_Mutation_p.K55I	NM_006768	NP_006759	Q7Z569	BRAP_HUMAN	BRCA1 associated protein	85					MAPKKK cascade|negative regulation of signal transduction|Ras protein signal transduction	cytoplasm|ubiquitin ligase complex	identical protein binding|nuclear localization sequence binding|nucleotide binding|ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1						CACTGTAGTTTTTAGTTCATC	0.383													34	93					0	0	0.064281	0	0		A	112119630	A	A	112119630	3	1	158	1	0	0	0	0	1	0	0	0	1500	1841	64	5	1564	5	BRAP	12	112119630	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	16516841	112119630	21732265	120	87111											
SRRM4	84530	broad.mit.edu	37	chr12	119592119	119592119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgagcgcgtcggagacgtcGgtcctactcgcctatgagaa	8	7	14	12	7	0	2	0	1	0	2	4	5	1	2	2	2	2	0	2	2	3	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr12:119592119G>A	uc001txa.1	+	12	1755	c.1463G>A	c.(1462-1464)CGG>CAG	p.R488Q		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	488	Ser-rich.|Arg-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						CGGAGACGTCGGTCCTACTCG	0.672													3	11					0	0	0.009096	0	0		A	119592119	A	A	119592119	3	1	158	1	0	0	0	0	1	0	0	0	15196	1116	39	1	1509	1	SRRM4	12	119592119	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	7472489	119592119	14259776	121	87112											
KNTC1	9735	broad.mit.edu	37	chr12	123087726	123087726	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accatcgaatcctgcttactCtctatagtcaacccagagtg	11	11	6	13	1	2	1	1	0	1	1	5	2	3	1	3	0	3	1	3	0	5	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr12:123087726C>T	uc001ucv.2	+	48	5200	c.5037C>T	c.(5035-5037)CTC>CTT	p.L1679L	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore	1679					cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		CCTGCTTACTCTCTATAGTCA	0.408													13	28					0	0	0.105934	0	0		T	123087726	T	T	123087726	2	4	158	1	0	0	0	0	0	0	0	1	8444	900	32	4		4	KNTC1	12	123087726	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	3495607	123087726	10764169	122	87113											
FZD10	11211	broad.mit.edu	37	chr12	130647946	130647946	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatggaggcgcccaacaaCggctcggacgagcccacccg	9	3	13	16	5	0	0	0	0	0	0	1	3	0	2	3	4	4	2	3	4	2	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr12:130647946C>T	uc001uii.2	+	1	915	c.459C>T	c.(457-459)AAC>AAT	p.N153N	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	153	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		CGCCCAACAACGGCTCGGACG	0.637													4	75					0	0	0.009096	0	0		T	130647946	T	T	130647946	2	4	158	1	0	0	0	0	0	0	0	1	6143	535	19	1		1	FZD10	12	130647946	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	7560220	130647946	3203949	123	87114											
KBTBD7	84078	broad.mit.edu	37	chr13	41768160	41768160	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaggaaaagaggcgaccCgtgccaggcccgctgccagg	9	4	15	13	3	0	1	0	0	0	1	0	3	0	2	4	4	3	2	4	4	2	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr13:41768160C>T	uc001uxw.1	-	1	543	c.234G>A	c.(232-234)ACG>ACA	p.T78T	uc001uxv.1_Intron	NM_032138	NP_115514	Q8WVZ9	KBTB7_HUMAN	kelch repeat and BTB (POZ) domain containing 7	78	BTB.						protein binding			ovary(1)	1		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)		AGAGGCGACCCGTGCCAGGCC	0.612													7	88					0	0	0.02938	0	0		T	41768160	T	T	41768160	2	4	158	1	0	0	0	0	0	0	0	1	8014	639	23	1		1	KBTBD7	13	41768160	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08		41768160	73401718	124	87115											
PCDH17	27253	broad.mit.edu	37	chr13	58207716	58207716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaagctcatcgaccgcaacGacaatgcgccgtccatcggt	10	7	9	15	6	2	0	2	0	0	0	5	2	3	0	3	1	3	2	3	1	3	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr13:58207716G>A	uc001vhq.1	+	1	1928	c.1036G>A	c.(1036-1038)GAC>AAC	p.D346N	PCDH17_uc010aec.1_Missense_Mutation_p.D346N	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	346	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CGACCGCAACGACAATGCGCC	0.662													14	62					0	0	0.024245	0	0		A	58207716	A	A	58207716	3	1	158	1	0	0	0	0	1	0	0	0	11531	1058	37	1	1038	1	PCDH17	13	58207716	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	16439556	58207716	56962162	125	87116											
MYCBP2	23077	broad.mit.edu	37	chr13	77785411	77785411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccactttatttatcagaaGgcatttaaatggaggaggtt	13	14	9	5	0	1	1	1	0	0	1	2	3	2	3	1	4	0	2	1	4	5	7			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr13:77785411G>A	uc001vkf.2	-	24	3284	c.3193C>T	c.(3193-3195)CTT>TTT	p.L1065F	MYCBP2_uc010aev.2_Missense_Mutation_p.L469F	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1065					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TTTATCAGAAGGCATTTAAAT	0.289													34	180					0	0	0.059317	0	0		A	77785411	A	A	77785411	3	1	158	1	0	0	0	0	1	0	0	0	10036	1000	35	4	10973	4	MYCBP2	13	77785411	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	19577695	77785411	37384467	126	87117											
GPC6	10082	broad.mit.edu	37	chr13	95050742	95050742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttgcctgagatcatgaatGatgggctcaccaaccagatc	12	9	9	11	0	2	4	2	3	0	2	3	5	2	4	3	1	2	1	3	1	2	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr13:95050742G>A	uc001vlt.2	+	8	1944	c.1312G>A	c.(1312-1314)GAT>AAT	p.D438N		NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	438						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				GATCATGAATGATGGGCTCAC	0.498													6	121					0	0	0.021553	0	0		A	95050742	A	A	95050742	3	1	158	1	0	0	0	0	1	0	0	0	6617	1290	45	4	1342	4	GPC6	13	95050742	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	17265331	95050742	20119136	127	87118											
MYO16	23026	broad.mit.edu	37	chr13	109475609	109475609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcattcacgatcttccCgtactgtcgagtaagctgta	10	12	9	10	3	3	1	2	0	1	1	5	4	4	1	1	0	2	4	1	0	3	5	rs141132835	byFrequency	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr13:109475609C>T	uc001vqt.1	+	9	1140	c.1014C>T	c.(1012-1014)CCC>CCT	p.P338P	MYO16_uc010agk.1_Silent_p.P360P|MYO16_uc001vqu.1_Silent_p.P138P	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	338					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity	p.P338T(1)		ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			ACGATCTTCCCGTACTGTCGA	0.428													20	346					0	0	0.049695	0	0		T	109475609	T	T	109475609	2	4	158	1	0	0	0	0	0	0	0	1	10082	639	23	1		1	MYO16	13	109475609	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	14424867	109475609	5694269	128	87119											
TEP1	7011	broad.mit.edu	37	chr14	20876371	20876371	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaggcactggttctccaaGgagaggatgtctgggtgggc	7	8	17	9	0	2	1	0	0	2	1	3	3	2	2	2	6	0	2	2	6	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr14:20876371G>A	uc001vxe.2	-	2	268	c.228C>T	c.(226-228)TCC>TCT	p.S76S	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.S76S	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	76	TEP1 N-terminal 3.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		GGTTCTCCAAGGAGAGGATGT	0.522													45	135					0	0	0.048971	0	0		A	20876371	A	A	20876371	2	1	158	1	0	0	0	0	0	0	0	1	15784	987	35	4		4	TEP1	14	20876371	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08		20876371	86473169	129	87120											
FAM179B	23116	broad.mit.edu	37	chr14	45431744	45431744	+	Silent	SNP	C	T	T	0	0	0	1	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	gatgatagtcgagttgggggCattatgagaggagagaaaaa	15	8	16	2	1	0	3	0	2	0	2	1	8	0	4	0	3	0	2	0	3	4	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr14:45431744C>T	uc001wvv.2	+	1	329	c.120C>T	c.(118-120)GGC>GGT	p.G40G	FAM179B_uc001wvw.2_Silent_p.G40G|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Silent_p.G40G|FAM179B_uc001wvu.2_Silent_p.G40G	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	40							binding			skin(2)|upper_aerodigestive_tract(1)	3						GAGTTGGGGGCATTATGAGAG	0.602													6	38					0	0	0.02938	0	0		T	45431744	T	T	45431744	2	4	158	1	0	0	0	0	0	0	0	1	5517	697	25	2		2	FAM179B	14	45431744	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	24555373	45431744	61917796	130	87121											
PYGL	5836	broad.mit.edu	37	chr14	51390727	51390727	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccggtgttggtgtgttctActtttccatagaagtgcaca	7	15	10	9	1	1	1	0	0	1	1	3	1	3	1	2	2	2	3	2	2	3	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr14:51390727A>G	uc001wyu.2	-	5	747	c.620T>C	c.(619-621)GTA>GCA	p.V207A	PYGL_uc010tqq.1_Missense_Mutation_p.V173A|PYGL_uc001wyv.2_5'UTR|PYGL_uc010anz.1_Missense_Mutation_p.V10A|PYGL_uc001wyw.3_Missense_Mutation_p.V207A	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	207					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	GGTGTGTTCTACTTTTCCATA	0.443													45	116					0	0	0.048971	0	0		G	51390727	G	G	51390727	3	3	158	1	0	0	0	0	1	0	0	0	12886	391	14	3	1987	3	PYGL	14	51390727	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	5958983	51390727	55958813	131	87122											
TRIM9	114088	broad.mit.edu	37	chr14	51561331	51561331	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggtgacaagtgggtggcCggtggcggcatagccggggg	5	5	22	9	4	0	1	0	1	0	0	0	1	0	1	3	8	1	1	3	8	2	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr14:51561331C>T	uc001wyx.3	-	1	1092	c.327G>A	c.(325-327)CCG>CCA	p.P109P	TRIM9_uc001wyy.2_Silent_p.P109P|TRIM9_uc001wyz.3_Silent_p.P109P	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	109					proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					AGTGGGTGGCCGGTGGCGGCA	0.711													4	12					0	0	0.009096	0	0		T	51561331	T	T	51561331	2	4	158	1	0	0	0	0	0	0	0	1	16575	639	23	1		1	TRIM9	14	51561331	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	170604	51561331	55788209	132	87123											
ADAM20	8748	broad.mit.edu	37	chr14	70991149	70991149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacataaccatggtagtagCagtcatcctggatgaagggc	12	8	11	10	0	1	1	1	1	0	0	2	2	2	2	3	3	2	3	3	3	4	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr14:70991149C>T	uc001xme.2	-	2	721	c.476G>A	c.(475-477)TGC>TAC	p.C159Y		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	109				C -> W (in Ref. 1; AAC52041).	proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		ATGGTAGTAGCAGTCATCCTG	0.502													30	110					0	0	0.037714	0	0		T	70991149	T	T	70991149	3	4	158	1	0	0	0	0	1	0	0	0	242	710	25	2	1858	2	ADAM20	14	70991149	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	19429818	70991149	36358391	133	87124											
UBE3A	7337	broad.mit.edu	37	chr15	25605639	25605639	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccacatacaactgcttcttCaagtctgcaggattttccat	10	14	5	12	0	3	0	1	0	2	0	5	1	5	1	2	1	4	2	2	1	3	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr15:25605639C>T	uc001zaq.2	-	5	1653	c.1653G>A	c.(1651-1653)TTG>TTA	p.L551L	uc001zae.2_Intron|UBE3A_uc001zar.2_Silent_p.L528L|UBE3A_uc001zas.2_Silent_p.L548L|UBE3A_uc001zat.2_Silent_p.L528L	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	551					brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		ACTGCTTCTTCAAGTCTGCAG	0.363													6	75					0	0	0.021553	0	0		T	25605639	T	T	25605639	2	4	158	1	0	0	0	0	0	0	0	1	16905	825	29	4		4	UBE3A	15	25605639	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08		25605639	76925753	134	87125											
MYEF2	50804	broad.mit.edu	37	chr15	48451038	48451038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgctcttgccatctttgtCttctttaatatctgcccgct	4	19	5	13	1	6	0	0	0	6	0	6	0	6	0	2	0	3	2	2	0	2	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr15:48451038C>T	uc001zwi.3	-	7	923	c.799G>A	c.(799-801)GAC>AAC	p.D267N	MYEF2_uc001zwj.3_Missense_Mutation_p.D267N|MYEF2_uc001zwl.2_Missense_Mutation_p.D107N	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	267	RRM 2.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		CCATCTTTGTCTTCTTTAATA	0.383													65	198					0	0	0.048971	0	0		T	48451038	T	T	48451038	3	4	158	1	0	0	0	0	1	0	0	0	10042	913	32	4	1047	4	MYEF2	15	48451038	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	22845399	48451038	54080354	135	87126											
MPI	4351	broad.mit.edu	37	chr15	75183769	75183769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaagatccttgacaaccGcatctcacagaagaccctaa	14	7	6	14	1	1	4	1	1	1	3	3	4	2	4	4	0	2	1	4	0	4	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr15:75183769G>A	uc002azc.1	+	3	199	c.194G>A	c.(193-195)CGC>CAC	p.R65H	MPI_uc010ulv.1_Missense_Mutation_p.R65H|MPI_uc010ulw.1_Missense_Mutation_p.R15H|MPI_uc002azd.1_Missense_Mutation_p.R65H|MPI_uc010ulx.1_Missense_Mutation_p.R15H|MPI_uc002aze.1_Missense_Mutation_p.R65H	NM_002435	NP_002426	P34949	MPI_HUMAN	mannose-6- phosphate isomerase	65					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	mannose-6-phosphate isomerase activity|zinc ion binding			ovary(2)	2						CTTGACAACCGCATCTCACAG	0.552													5	205					0	0	0.014758	0	0		A	75183769	A	A	75183769	3	1	158	1	0	0	0	0	1	0	0	0	9747	1087	38	1	204	1	MPI	15	75183769	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	26732731	75183769	27347623	136	87127											
C15orf42	90381	broad.mit.edu	37	chr15	90169262	90169262	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgctgctgttccaggggaaaAcaccttcctctcagagcaaa	11	8	9	13	1	1	1	1	0	1	1	4	2	3	2	3	2	3	4	3	2	3	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr15:90169262A>T	uc002boe.2	+	21	5572	c.5572A>T	c.(5572-5574)ACA>TCA	p.T1858S	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1858					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CCAGGGGAAAACACCTTCCTC	0.577													4	98					0	0	0.009096	0	0		T	90169262	T	T	90169262	3	4	158	1	0	0	0	0	1	0	0	0	1799	43	2	5	5654	5	C15orf42	15	90169262	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	14985493	90169262	12362130	137	87128											
TRAF7	84231	broad.mit.edu	37	chr16	2226124	2226124	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accgtgtatgccctggcggtCatctcgacgccagaccagac	8	7	11	15	4	2	2	1	0	1	2	3	3	2	2	4	2	1	1	4	2	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr16:2226124C>T	uc002cow.2	+	19	1920	c.1821C>T	c.(1819-1821)GTC>GTT	p.V607V		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	607	WD 6.				activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCCTGGCGGTCATCTCGACGC	0.667													3	30					0	0	0.021553	0	0		T	2226124	T	T	2226124	2	4	158	1	0	0	0	0	0	0	0	1	16472	813	29	4		4	TRAF7	16	2226124	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08		2226124	88128629	138	87129											
NAGPA	51172	broad.mit.edu	37	chr16	5077160	5077160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaaaggagagttctcccGccctcagggtggcttcaggt	9	9	13	10	1	3	2	2	1	1	1	4	3	3	2	2	4	0	2	2	4	2	2	rs145106222		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr16:5077160G>A	uc002cyg.2	-	9	1337	c.1316C>T	c.(1315-1317)GCG>GTG	p.A439V	NAGPA_uc010buc.2_Missense_Mutation_p.A136V|NAGPA_uc002cyf.2_Intron|NAGPA_uc002cyh.2_RNA|NAGPA_uc002cyi.2_Missense_Mutation_p.A214V	NM_016256	NP_057340	Q9UK23	NAGPA_HUMAN	N-acetylglucosamine-1-phosphodiester	439	Lumenal (Potential).				carbohydrate metabolic process|lysosome organization|protein modification process|protein targeting to lysosome	Golgi cisterna membrane|integral to membrane	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase activity				0					N-Acetyl-D-glucosamine(DB00141)	GAGTTCTCCCGCCCTCAGGGT	0.622													25	40					0	0	0.0918	0	0		A	5077160	A	A	5077160	3	1	158	1	0	0	0	0	1	0	0	0	10162	1087	38	1	239	1	NAGPA	16	5077160	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2851036	5077160	85277593	139	87130											
MAZ	4150	broad.mit.edu	37	chr16	29818144	29818144	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagggtcacgcccagaaccCcctgcaggtcggggctgagc	7	5	14	15	2	2	2	2	1	0	1	3	2	2	2	3	4	3	2	3	4	1	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr16:29818144C>G	uc002dty.2	+	1	290	c.122C>G	c.(121-123)CCC>CGC	p.P41R	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Missense_Mutation_p.P18R|MAZ_uc010vdx.1_Missense_Mutation_p.P18R|MAZ_uc002dtw.2_Missense_Mutation_p.P41R|MAZ_uc002dtx.2_Missense_Mutation_p.P41R|MAZ_uc010bzg.2_Missense_Mutation_p.P41R|MAZ_uc002dtz.1_5'Flank|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	41					regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						GCCCAGAACCCCCTGCAGGTC	0.617													5	31					0	0	0.02938	0	0		G	29818144	G	G	29818144	3	3	158	1	0	0	0	0	1	0	0	0	9358	623	22	5	124	5	MAZ	16	29818144	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	24740984	29818144	60536609	140	87131											
MVD	4597	broad.mit.edu	37	chr16	88722698	88722698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actctccacgccgtagacacGggccagggtgtaggctgcag	8	6	14	13	3	1	1	0	0	1	1	2	1	1	1	3	3	1	4	3	3	2	2	rs143689631		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr16:88722698G>A	uc002flg.1	-	5	425	c.418C>T	c.(418-420)CGT>TGT	p.R140C	MVD_uc002flf.1_Missense_Mutation_p.R9C	NM_002461	NP_002452	P53602	MVD1_HUMAN	diphosphomevalonate decarboxylase	140					cholesterol biosynthetic process|positive regulation of cell proliferation	cytosol	ATP binding|diphosphomevalonate decarboxylase activity|Hsp70 protein binding|kinase activity|protein homodimerization activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)		CCGTAGACACGGGCCAGGGTG	0.667													10	54					0	0	0.024245	0	0		A	88722698	A	A	88722698	3	1	158	1	0	0	0	0	1	0	0	0	10012	1116	39	1	808	1	MVD	16	88722698	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	58904554	88722698	1632055	141	87132											
POLR2A	5430	broad.mit.edu	37	chr17	7416391	7416391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcacctgcctacgagccccGctctcctgggggctacacac	6	7	10	18	2	2	0	1	0	1	0	3	1	2	0	5	2	4	2	5	2	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:7416391G>A	uc002ghf.3	+	29	5042	c.4808G>A	c.(4807-4809)CGC>CAC	p.R1603H		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1603	2; approximate.|52 X 7 AA approximate tandem repeats of Y-[ST]-P-[STQ]-[ST]-P-[SRTEVKGN].				mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				TACGAGCCCCGCTCTCCTGGG	0.582													58	89					0	0	0.048971	0	0		A	7416391	A	A	7416391	3	1	158	1	0	0	0	0	1	0	0	0	12233	1087	38	1	4922	1	POLR2A	17	7416391	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		7416391	73778819	142	87133											
TP53	7157	broad.mit.edu	37	chr17	7578190	7578190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagacctcaggcggctcaTagggcaccaccacactatgt	11	6	9	15	1	2	1	2	0	0	1	2	1	2	1	4	3	0	2	4	3	2	2	rs121912666		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:7578190T>C	uc002gim.2	-	6	853	c.659A>G	c.(658-660)TAT>TGT	p.Y220C	TP53_uc002gig.1_Missense_Mutation_p.Y220C|TP53_uc002gih.2_Missense_Mutation_p.Y220C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y88C|TP53_uc010cng.1_Missense_Mutation_p.Y88C|TP53_uc002gii.1_Missense_Mutation_p.Y88C|TP53_uc010cnh.1_Missense_Mutation_p.Y220C|TP53_uc010cni.1_Missense_Mutation_p.Y220C|TP53_uc002gij.2_Missense_Mutation_p.Y220C|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.Y127C|TP53_uc002gio.2_Missense_Mutation_p.Y88C|TP53_uc010vug.1_Missense_Mutation_p.Y181C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	220	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> N (in sporadic cancers; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> S (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).|Y -> F (in a sporadic cancer; somatic mutation).|Y -> D (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Y220C(205)|p.Y220N(12)|p.Y220H(9)|p.Y220S(9)|p.0?(7)|p.Y220fs*27(4)|p.Y220*(3)|p.Y220D(2)|p.Y127C(2)|p.D208fs*1(1)|p.Y220_P223delYEPP(1)|p.?(1)|p.V218_E224delVPYEPPE(1)|p.V218_E221delVPYE(1)|p.V218_Y220delVPY(1)|p.Y220fs*25(1)|p.V216_Y220delVVVPY(1)|p.Y220fs*1(1)|p.Y220fs*2(1)|p.V218fs*26(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			27	5					0	0	0.099896	0	0		C	7578190	C	C	7578190	3	2	158	1	0	0	0	0	1	0	0	0	16407	1406	49	3	635	3	TP53	17	7578190	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08	161799	7578190	73617020	143	87134											
SLFN5	162394	broad.mit.edu	37	chr17	33591890	33591890	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccggctaacattctctacatCtgtgaaaaccagcccctgaa	12	9	6	14	1	2	2	0	2	2	0	3	2	2	2	4	1	4	1	4	1	5	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:33591890C>T	uc002hjf.3	+	4	1944	c.1827C>T	c.(1825-1827)ATC>ATT	p.I609I	SLFN5_uc010wcg.1_Intron	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	609					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		TTCTCTACATCTGTGAAAACC	0.448													11	902					0	0	0.09319	0	0		T	33591890	T	T	33591890	2	4	158	1	0	0	0	0	0	0	0	1	14762	903	32	4		4	SLFN5	17	33591890	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	26013700	33591890	47603320	144	87135											
SLFN12	55106	broad.mit.edu	37	chr17	33749495	33749495	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaagttctgttctatcaaAaaaaaccccggccaaggcct	14	9	6	12	1	4	0	2	0	2	0	4	0	4	0	4	2	1	2	4	2	7	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:33749495A>T	uc002hji.3	-	2	930	c.553T>A	c.(553-555)TTT>ATT	p.F185I	SLFN12_uc002hjj.3_Missense_Mutation_p.F185I|SLFN12_uc010cts.2_Missense_Mutation_p.F185I	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	185							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GTTCTATCAAAAAAAACCCCG	0.373													49	721					0	0	0.048971	0	0		T	33749495	T	T	33749495	3	4	158	1	0	0	0	0	1	0	0	0	14759	14	1	5	1195	5	SLFN12	17	33749495	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	157605	33749495	47445715	145	87136											
GAS2L2	246176	broad.mit.edu	37	chr17	34073428	34073428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggatgagagacctctcctggCacctgaaagggagaatcaca	13	6	12	10	0	2	4	1	2	1	2	3	7	2	5	3	3	0	1	3	3	2	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:34073428C>T	uc002hjv.1	-	6	1116	c.1088G>A	c.(1087-1089)TGC>TAC	p.C363Y		NM_139285	NP_644814	Q8NHY3	GA2L2_HUMAN	growth arrest-specific 2 like 2	363					cell cycle arrest	cytoplasm|cytoskeleton				ovary(1)|skin(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		CCTCTCCTGGCACCTGAAAGG	0.592													24	303					0	0	0.083992	0	0		T	34073428	T	T	34073428	3	4	158	1	0	0	0	0	1	0	0	0	6262	710	25	2	1558	2	GAS2L2	17	34073428	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	323933	34073428	47121782	146	87137											
MMP28	79148	broad.mit.edu	37	chr17	34100224	34100224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcccagcccatcgttgtggtCcccttggaagaaggtgagcc	7	8	13	13	1	0	2	0	1	0	1	2	3	1	3	5	3	2	1	5	3	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:34100224C>T	uc002hjy.1	-	6	824	c.565G>A	c.(565-567)GAC>AAC	p.D189N	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	189					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TCGTTGTGGTCCCCTTGGAAG	0.637													4	82					0	0	0.014758	0	0		T	34100224	T	T	34100224	3	4	158	1	0	0	0	0	1	0	0	0	9683	842	30	4	1017	4	MMP28	17	34100224	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	26796	34100224	47094986	147	87138											
TAF15	8148	broad.mit.edu	37	chr17	34171858	34171858	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggaggttatggaggagatCgaggaggctatggaggagac	12	6	20	3	1	0	2	0	0	0	2	1	10	0	6	0	8	0	2	0	8	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:34171858C>T	uc002hkd.2	+	15	1641	c.1555C>T	c.(1555-1557)CGA>TGA	p.R519*	TAF15_uc002hkc.2_Nonsense_Mutation_p.R516*	NM_139215	NP_631961	Q92804	RBP56_HUMAN	TBP-associated factor 15 isoform 1	519	Arg/Gly-rich.|15.|21 X approximate tandem repeats of D-R- [S,G](0,3)-G-G-Y-G-G.				positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		TAF15/NR4A3(33)	bone(33)|lung(1)|skin(1)	35		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		tggaggagatcgaggaggcta	0.259			T	TEC|CHN1|ZNF384	extraskeletal myxoid chondrosarcomas|ALL								15	148					0	0	0.020292	0	0		T	34171858	T	T	34171858	4	4	158	1	0	0	0	0	0	1	0	0	15543	876	31	1	1613	1	TAF15	17	34171858	Nonsense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	71634	34171858	47023352	148	87139											
LYZL6	57151	broad.mit.edu	37	chr17	34263807	34263807	+	Missense_Mutation	SNP	A	C	C	1	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	caatcctttttgcgcagtggAtgcctgcaagaaggttggga	9	11	13	8	1	0	1	0	0	0	1	1	3	1	3	2	3	3	3	2	3	3	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:34263807A>C	uc002hkj.1	-	3	479	c.329T>G	c.(328-330)ATC>AGC	p.I110S	LYZL6_uc002hkk.1_Missense_Mutation_p.I110S	NM_020426	NP_065159	O75951	LYZL6_HUMAN	lysozyme-like 6 precursor	110					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TGCGCAGTGGATGCCTGCAAG	0.577													8	361					0	0	0.038147	0	0		C	34263807	C	C	34263807	3	2	158	1	0	0	0	0	1	0	0	0	9152	333	12	5	125	5	LYZL6	17	34263807	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	91949	34263807	46931403	149	87140											
STARD3	10948	broad.mit.edu	37	chr17	37815008	37815008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggttgctgttgcccgtgGacccctgctgttctccggtg	2	12	13	14	2	1	0	0	0	1	0	2	1	1	1	5	3	3	5	5	3	0	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:37815008G>T	uc002hsd.2	+	7	705	c.581G>T	c.(580-582)GGA>GTA	p.G194V	STARD3_uc010weg.1_3'UTR|STARD3_uc010weh.1_RNA|STARD3_uc002hse.2_Missense_Mutation_p.G176V|STARD3_uc010wei.1_Missense_Mutation_p.G194V|STARD3_uc002hsf.2_Missense_Mutation_p.G60V|STARD3_uc002hsg.2_Intron	NM_006804	NP_006795	Q14849	STAR3_HUMAN	StAR-related lipid transfer (START) domain	194	MENTAL.|Cytoplasmic (Potential).				cholesterol metabolic process|mitochondrial transport|steroid biosynthetic process	integral to membrane|late endosome membrane	cholesterol binding|cholesterol transporter activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;1.04e-44)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GTTGCCCGTGGACCCCTGCTG	0.627													369	142					4.35355e-177	4.93403e-177	0.048971	1	0		T	37815008	T	T	37815008	3	4	158	1	0	0	0	0	1	0	0	0	15282	1174	41	5	616	5	STARD3	17	37815008	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	3551201	37815008	43380202	150	87141											
ERBB2	2064	broad.mit.edu	37	chr17	37868208	37868208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctttctacggacgtgggatCctgcaccctcgtctgccccc	4	10	9	18	3	2	0	0	0	2	0	4	2	3	2	5	2	3	1	5	2	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:37868208C>T	uc002hso.2	+	8	1167	c.929C>T	c.(928-930)TCC>TTC	p.S310F	ERBB2_uc002hsm.2_Missense_Mutation_p.S280F|ERBB2_uc010cwa.2_Missense_Mutation_p.S295F|ERBB2_uc002hsp.2_Missense_Mutation_p.S113F|ERBB2_uc010cwb.2_Missense_Mutation_p.S310F|ERBB2_uc010wek.1_Missense_Mutation_p.S34F|ERBB2_uc002hsl.2_Missense_Mutation_p.S280F|ERBB2_uc002hsn.1_Missense_Mutation_p.S310F	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	310	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.S310F(2)|p.S310Y(1)		lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	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)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GACGTGGGATCCTGCACCCTC	0.582		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			886	38					0	0	0.048971	0	0		T	37868208	T	T	37868208	3	4	158	1	0	0	0	0	1	0	0	0	5214	855	30	4	959	4	ERBB2	17	37868208	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	53200	37868208	43327002	151	87142											
KRT38	8687	broad.mit.edu	37	chr17	39596697	39596697	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccttctgttggagctcCtcgatggtgtggaagtaaga	8	12	12	9	1	2	1	1	0	1	1	4	4	3	3	2	3	1	3	2	3	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:39596697C>T	uc002hwq.1	-	1	900	c.477G>A	c.(475-477)GAG>GAA	p.E159E		NM_006771	NP_006762	O76015	KRT38_HUMAN	keratin 38	159	Rod.|Coil 1B.					intermediate filament	structural molecule activity			skin(2)	2		Breast(137;0.000496)				GTTGGAGCTCCTCGATGGTGT	0.567													21	841					0	0	0.0333	0	0		T	39596697	T	T	39596697	2	4	158	1	0	0	0	0	0	0	0	1	8491	680	24	4		4	KRT38	17	39596697	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	1728489	39596697	41598513	152	87143											
HDAC5	10014	broad.mit.edu	37	chr17	42171083	42171083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgcagttgctgctcccGcagtgtggggtccacagagc	5	9	14	13	1	0	1	0	0	0	1	2	1	2	1	2	2	5	6	2	2	0	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:42171083G>A	uc002ifd.1	-	4	425	c.214C>T	c.(214-216)CGG>TGG	p.R72W	HDAC5_uc002ife.1_Missense_Mutation_p.R72W|HDAC5_uc002iff.1_Missense_Mutation_p.R73W|HDAC5_uc010czp.1_Missense_Mutation_p.R72W|HDAC5_uc002ifh.2_Missense_Mutation_p.R72W	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	72					B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		tgctgctcccgcAGTGTGGGG	0.438													6	9					0	0	0.038147	0	0		A	42171083	A	A	42171083	3	1	158	1	0	0	0	0	1	0	0	0	7026	1086	38	1	3250	1	HDAC5	17	42171083	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2574386	42171083	39024127	153	87144											
TBKBP1	9755	broad.mit.edu	37	chr17	45776813	45776813	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcagctccaggccgagtgCgagcggctgcagggggagct	7	4	19	11	3	0	0	0	0	0	0	1	4	1	1	2	4	6	5	2	4	0	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:45776813C>T	uc002ilu.2	+	5	1611	c.762C>T	c.(760-762)TGC>TGT	p.C254C		NM_014726	NP_055541	A7MCY6	TBKB1_HUMAN	TBK1 binding protein 1	254	Potential.				innate immune response						0						AGGCCGAGTGCGAGCGGCTGC	0.701											OREG0024498	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	8					0	0	0.009096	0	0		T	45776813	T	T	45776813	2	4	158	1	0	0	0	0	0	0	0	1	15663	776	27	1		1	TBKBP1	17	45776813	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	3605730	45776813	35418397	154	87145											
ABCA5	23461	broad.mit.edu	37	chr17	67280173	67280173	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaacaccataagaaatGacacccaaatttgaatgact	19	8	6	8	0	0	4	0	3	0	1	0	5	0	5	2	1	1	0	2	1	5	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:67280173G>T	uc002jif.2	-	17	3531	c.2313C>A	c.(2311-2313)GTC>GTA	p.V771V	ABCA5_uc002jic.2_5'UTR|ABCA5_uc002jid.2_5'UTR|ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Silent_p.V771V|ABCA5_uc002jih.2_Silent_p.V771V|ABCA5_uc010dfe.2_Silent_p.V771V	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	771					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					CATAAGAAATGACACCCAAAT	0.303													19	344					2.94398e-08	3.05969e-08	0.043863	1	0		T	67280173	T	T	67280173	2	4	158	1	0	0	0	0	0	0	0	1	35	1277	45	5		5	ABCA5	17	67280173	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	21503360	67280173	13915037	155	87146											
GGA3	23163	broad.mit.edu	37	chr17	73235959	73235959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatggtgcccagggactgcGggctcaacttttggggccaa	7	8	14	12	1	1	0	1	0	0	0	1	1	1	1	3	5	3	1	3	5	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:73235959G>A	uc002jni.1	-	13	1503	c.1494C>T	c.(1492-1494)CCC>CCT	p.P498P	GGA3_uc002jnj.1_Silent_p.P465P|GGA3_uc010wrw.1_Silent_p.P376P|GGA3_uc002jnk.1_Silent_p.P426P|GGA3_uc010wrx.1_Silent_p.P376P|GGA3_uc010wry.1_Silent_p.P426P	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	498	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			CAGGGACTGCGGGCTCAACTT	0.617													11	200					0	0	0.080935	0	0		A	73235959	A	A	73235959	2	1	158	1	0	0	0	0	0	0	0	1	6369	1103	39	1		1	GGA3	17	73235959	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	5955786	73235959	7959251	156	87147											
EVPL	2125	broad.mit.edu	37	chr17	74003189	74003189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctccttggcccgtgtcagcGaagggagcgcgggacggtgg	5	6	19	11	5	1	0	1	0	0	0	2	3	2	2	2	5	2	1	2	5	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr17:74003189G>A	uc002jqi.2	-	22	6325	c.6097C>T	c.(6097-6099)CGC>TGC	p.R2033C	EVPL_uc010wss.1_Missense_Mutation_p.R2055C|EVPL_uc010wst.1_Missense_Mutation_p.R1503C	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	2033	Globular 2.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CCGTGTCAGCGAAGGGAGCGC	0.677													10	8					0	0	0.028581	0	0		A	74003189	A	A	74003189	3	1	158	1	0	0	0	0	1	0	0	0	5300	1058	37	1	8	1	EVPL	17	74003189	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	767230	74003189	7192021	157	87148											
THOC1	9984	broad.mit.edu	37	chr18	265478	265478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccaggtacctggctgaagGtacttaacaatggcttgatg	10	11	12	8	0	0	2	0	2	0	0	0	2	0	2	2	4	4	4	2	4	5	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr18:265478G>A	uc002kkj.3	-	2	147	c.107C>T	c.(106-108)ACC>ATC	p.T36I	THOC1_uc002kkk.3_RNA|THOC1_uc002kkl.2_Missense_Mutation_p.T36I	NM_005131	NP_005122	Q96FV9	THOC1_HUMAN	THO complex 1	36					apoptosis|intronless viral mRNA export from host nucleus|mRNA processing|regulation of transcription elongation, DNA-dependent|RNA splicing|signal transduction|transcription, DNA-dependent	cytoplasm|nuclear matrix|nuclear speck|THO complex part of transcription export complex	DNA binding|protein binding|RNA binding			ovary(1)	1		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				CTGGCTGAAGGTACTTAACAA	0.343													6	16					0	0	0.058154	0	0		A	265478	A	A	265478	3	1	158	1	0	0	0	0	1	0	0	0	15889	1261	44	4	1946	4	THOC1	18	265478	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		265478	77811770	158	87149											
ASXL3	80816	broad.mit.edu	37	chr18	31324706	31324706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgggttcaagtaaacaaaaaGaatatctagagcaaagctgt	18	8	9	6	1	2	2	1	0	1	2	2	2	2	2	0	1	3	4	0	1	9	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr18:31324706G>A	uc010dmg.1	+	12	4949	c.4894G>A	c.(4894-4896)GAA>AAA	p.E1632K	ASXL3_uc002kxq.2_Missense_Mutation_p.E1339K	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1632					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						TAAACAAAAAGAATATCTAGA	0.428											OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	32					0	0	0.080935	0	0		A	31324706	A	A	31324706	3	1	158	1	0	0	0	0	1	0	0	0	1069	943	33	4	4940	4	ASXL3	18	31324706	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	31059228	31324706	46752542	159	87150											
PIK3C3	5289	broad.mit.edu	37	chr18	39575919	39575919	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agaagtggaccttctgaccaCgatctgaaacccaatgctgc	12	8	9	12	1	2	3	0	2	2	1	2	5	2	4	3	1	3	1	3	1	3	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr18:39575919C>T	uc002lap.2	+	8	910	c.852C>T	c.(850-852)CAC>CAT	p.H284H	PIK3C3_uc010xcl.1_Silent_p.H221H	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	284					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						CTTCTGACCACGATCTGAAAC	0.343										TSP Lung(28;0.18)			17	40					0	0	0.049695	0	0		T	39575919	T	T	39575919	2	4	158	1	0	0	0	0	0	0	0	1	11931	535	19	1		1	PIK3C3	18	39575919	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	8251213	39575919	38501329	160	87151											
CASP14	23581	broad.mit.edu	37	chr19	15166303	15166303	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagaccctggtggatgtgTtcacgaagaggaaaggacat	12	8	13	8	1	1	2	1	0	0	2	2	6	2	5	2	4	0	1	2	4	2	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:15166303T>A	uc010dzv.1	+	6	891	c.583T>A	c.(583-585)TTC>ATC	p.F195I	CASP14_uc002naf.2_Missense_Mutation_p.F195I	NM_012114	NP_036246	P31944	CASPE_HUMAN	caspase 14 precursor	195					apoptosis|cell differentiation|epidermis development|proteolysis	cytoplasm|nucleus	cysteine-type endopeptidase activity	p.F195Y(1)		skin(2)|ovary(1)|lung(1)	4						GGTGGATGTGTTCACGAAGAG	0.542													44	64					0	0	0.048971	0	0		A	15166303	A	A	15166303	3	1	158	1	0	0	0	0	1	0	0	0	2673	1725	60	5	601	5	CASP14	19	15166303	Missense_Mutation	SNP	T	TCGA-CG-5730-01A-11D-1600-08		15166303	43962680	161	87152											
ZNF99	7652	broad.mit.edu	37	chr19	22940729	22940729	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatgtctagtaaggtgtgagGaccacttaaaagctttacca	13	12	9	7	0	1	1	0	1	1	0	1	2	1	2	2	2	2	2	2	2	6	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:22940729G>T	uc010xrh.1	-	5	1709	c.1709C>A	c.(1708-1710)TCC>TAC	p.S570Y		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				AAGGTGTGAGGACCACTTAAA	0.378													20	139					4.35082e-09	4.58183e-09	0.055883	1	0		T	22940729	T	T	22940729	3	4	158	1	0	0	0	0	1	0	0	0	18229	1174	41	5	1415	5	ZNF99	19	22940729	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	7774426	22940729	36188254	162	87153											
PSG5	5673	broad.mit.edu	37	chr19	43680066	43680066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgcgcatgccaccatctCggtcccgtatttcacattca	8	11	6	16	3	3	0	2	0	1	0	5	0	4	0	3	1	2	2	3	1	1	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:43680066C>T	uc002ovu.2	-	3	796	c.665G>A	c.(664-666)CGA>CAA	p.R222Q	PSG6_uc010xwk.1_Intron|PSG5_uc010eir.2_Intron|PSG5_uc002ovx.2_Missense_Mutation_p.R222Q|PSG5_uc002ovv.2_Missense_Mutation_p.R315Q|PSG5_uc002ovw.2_Intron	NM_002781	NP_002772	Q15238	PSG5_HUMAN	pregnancy specific beta-1-glycoprotein 5	222	Ig-like C2-type 1.				female pregnancy	extracellular region				skin(3)	3		Prostate(69;0.00899)				GCCACCATCTCGGTCCCGTAT	0.493													50	249					0	0	0.048971	0	0		T	43680066	T	T	43680066	3	4	158	1	0	0	0	0	1	0	0	0	12680	884	31	1	354	1	PSG5	19	43680066	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	20739337	43680066	15448917	163	87154											
GEMIN7	79760	broad.mit.edu	37	chr19	45593700	45593700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acgtgtcacagctgcagactCccataggtgtgcaagcagag	11	7	12	11	1	1	2	1	0	0	2	2	2	2	2	1	1	4	4	1	1	2	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:45593700C>T	uc002pap.1	+	3	479	c.328C>T	c.(328-330)CCC>TCC	p.P110S	uc002pas.2_5'Flank|GEMIN7_uc002paq.1_Missense_Mutation_p.P110S|GEMIN7_uc002par.1_Missense_Mutation_p.P110S	NM_001007270	NP_001007271	Q9H840	GEMI7_HUMAN	gemin 7	110					ncRNA metabolic process|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0131)		GCTGCAGACTCCCATAGGTGT	0.517													37	127					0	0	0.074837	0	0		T	45593700	T	T	45593700	3	4	158	1	0	0	0	0	1	0	0	0	6348	855	30	4	330	4	GEMIN7	19	45593700	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	1913634	45593700	13535283	164	87155											
RTN2	6253	broad.mit.edu	37	chr19	45997638	45997638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctggggagtcaagacctcGggcgatgagggctgagcaag	10	5	18	8	2	1	3	1	2	0	1	2	5	1	4	1	4	2	3	1	4	2	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:45997638G>A	uc002pcb.2	-	4	828	c.600C>T	c.(598-600)CCC>CCT	p.P200P	RTN2_uc002pcc.2_Silent_p.P200P|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	200						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		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)		TCAAGACCTCGGGCGATGAGG	0.617													7	96					0	0	0.038147	0	0		A	45997638	A	A	45997638	2	1	158	1	0	0	0	0	0	0	0	1	13751	1103	39	1		1	RTN2	19	45997638	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	403938	45997638	13131345	165	87156											
CABP5	56344	broad.mit.edu	37	chr19	48543884	48543884	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcatgcggatttgctggccGagctcaatcagttccatctc	7	13	9	12	2	4	0	3	0	1	0	6	2	5	1	2	2	3	3	2	2	1	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:48543884G>A	uc002phu.1	-	3	341	c.216C>T	c.(214-216)CTC>CTT	p.L72L		NM_019855	NP_062829	Q9NP86	CABP5_HUMAN	calcium binding protein 5	72	EF-hand 2.				signal transduction	cytoplasm	calcium ion binding			skin(1)	1		all_cancers(25;1.86e-08)|all_lung(116;1.14e-06)|all_epithelial(76;1.16e-06)|Lung NSC(112;2.54e-06)|all_neural(266;0.0138)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;4.09e-05)|all cancers(93;0.000322)|Epithelial(262;0.01)|GBM - Glioblastoma multiforme(486;0.058)		TTTGCTGGCCGAGCTCAATCA	0.532													64	59					0	0	0.048971	0	0		A	48543884	A	A	48543884	2	1	158	1	0	0	0	0	0	0	0	1	2537	1045	37	1		1	CABP5	19	48543884	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2546246	48543884	10585099	166	87157											
DKKL1	27120	broad.mit.edu	37	chr19	49867939	49867939	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctcctatccatgatgctgaCgcccaagagagctccttggg	8	9	11	13	1	0	3	0	2	0	1	3	4	3	3	4	1	2	3	4	1	2	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:49867939C>T	uc002pnk.2	+	2	325	c.111C>T	c.(109-111)GAC>GAT	p.D37D	TEAD2_uc002pni.2_5'Flank|TEAD2_uc002pnj.2_5'Flank|TEAD2_uc010yao.1_5'Flank|TEAD2_uc010emw.2_5'Flank	NM_014419	NP_055234	Q9UK85	DKKL1_HUMAN	dickkopf-like 1 precursor	37					anatomical structure morphogenesis	extracellular space	protein binding|signal transducer activity				0		all_lung(116;1.66e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0456)		ATGATGCTGACGCCCAAGAGA	0.627													19	100					0	0	0.049695	0	0		T	49867939	T	T	49867939	2	4	158	1	0	0	0	0	0	0	0	1	4554	535	19	1		1	DKKL1	19	49867939	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	1324055	49867939	9261044	167	87158											
PRR12	57479	broad.mit.edu	37	chr19	50103130	50103130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggccgcccttggcccccgCggctgcagttccagggccac	3	6	14	18	3	0	0	0	0	0	0	1	0	1	0	6	4	1	3	6	4	0	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:50103130C>T	uc002poo.3	+	5	4280	c.4280C>T	c.(4279-4281)GCG>GTG	p.A1427V		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	606	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		TTGGCCCCCGCGGCTGCAGTT	0.662													16	50					0	0	0.024245	0	0		T	50103130	T	T	50103130	3	4	158	1	0	0	0	0	1	0	0	0	12606	768	27	1	4298	1	PRR12	19	50103130	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	235191	50103130	9025853	168	87159											
ZNF578	147660	broad.mit.edu	37	chr19	53015310	53015310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatctggcaaaccatactaGaattcatagcggagagaaac	16	9	8	8	1	2	2	1	0	1	2	2	4	2	3	1	2	4	1	1	2	7	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:53015310G>A	uc002pzp.3	+	6	1920	c.1676G>A	c.(1675-1677)AGA>AAA	p.R559K		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	334	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		AACCATACTAGAATTCATAGC	0.393													11	136					0	0	0.080935	0	0		A	53015310	A	A	53015310	3	1	158	1	0	0	0	0	1	0	0	0	18035	942	33	4	1686	4	ZNF578	19	53015310	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2912180	53015310	6113673	169	87160											
ZNF583	147949	broad.mit.edu	37	chr19	56925784	56925784	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccctggatggtgaagaaGgagggaacaagaggcccatg	13	4	17	7	0	0	3	0	1	0	2	0	7	0	6	2	5	2	0	2	5	4	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:56925784G>A	uc010ygl.1	+	4	372	c.207G>A	c.(205-207)AAG>AAA	p.K69K	ZNF583_uc002qnc.2_Silent_p.K69K|ZNF583_uc010ygm.1_Silent_p.K69K	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	69	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		TGGTGAAGAAGGAGGGAACAA	0.448													59	85					0	0	0.048971	0	0		A	56925784	A	A	56925784	2	1	158	1	0	0	0	0	0	0	0	1	18040	991	35	4		4	ZNF583	19	56925784	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	3910474	56925784	2203199	170	87161											
ZNF211	10520	broad.mit.edu	37	chr19	58152366	58152366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttatgtggacactgcctCgtttacacagagttgcatag	11	12	10	8	1	0	1	0	0	0	1	1	2	0	2	1	1	3	4	1	1	4	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr19:58152366C>T	uc002qpq.2	+	3	692	c.512C>T	c.(511-513)TCG>TTG	p.S171L	ZNF211_uc010yhb.1_Missense_Mutation_p.S175L|ZNF211_uc002qpp.2_Missense_Mutation_p.S184L|ZNF211_uc002qpr.2_Missense_Mutation_p.S235L|ZNF211_uc002qps.2_Missense_Mutation_p.S236L|ZNF211_uc002qpt.2_Missense_Mutation_p.S183L|ZNF211_uc010yhc.1_Missense_Mutation_p.S183L|ZNF211_uc010yhd.1_Missense_Mutation_p.S110L|ZNF211_uc010yhe.1_Missense_Mutation_p.S162L	NM_198855	NP_942152	Q13398	ZN211_HUMAN	zinc finger protein 211 isoform 2	171						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GACACTGCCTCGTTTACACAG	0.468													29	96					0	0	0.037714	0	0		T	58152366	T	T	58152366	3	4	158	1	0	0	0	0	1	0	0	0	17792	893	31	1	565	1	ZNF211	19	58152366	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	1226582	58152366	976617	171	87162											
FAM110A	83541	broad.mit.edu	37	chr20	826057	826057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcagccgctgatctcgagCgcttttttaacttctgcggc	5	12	12	12	4	2	1	0	1	2	0	3	2	2	1	1	2	4	3	1	2	1	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:826057C>T	uc002wef.1	+	2	946	c.610C>T	c.(610-612)CGC>TGC	p.R204C	FAM110A_uc002weg.1_Missense_Mutation_p.R204C|FAM110A_uc002weh.1_Missense_Mutation_p.R204C|FAM110A_uc010fzz.2_RNA	NM_001042353	NP_001035812	Q9BQ89	F110A_HUMAN	hypothetical protein LOC83541	204						microtubule organizing center|spindle pole	protein binding				0						TGATCTCGAGCGCTTTTTTAA	0.537													5	15					0	0	0.038147	0	0		T	826057	T	T	826057	3	4	158	1	0	0	0	0	1	0	0	0	5407	768	27	1	612	1	FAM110A	20	826057	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08		826057	62199463	172	87163											
AVP	551	broad.mit.edu	37	chr20	3065299	3065299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagtaggccgaggaagcaggCgggcagcatggtgtcaggca	10	4	18	9	2	1	0	1	0	0	0	1	2	1	1	1	6	2	5	1	6	2	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:3065299C>T	uc002whu.2	-	1	72	c.22G>A	c.(22-24)GCC>ACC	p.A8T		NM_000490	NP_000481	P01185	NEU2_HUMAN	arginine vasopressin-neurophysin II	8					cell-cell signaling|ERK1 and ERK2 cascade|generation of precursor metabolites and energy|negative regulation of apoptosis|negative regulation of release of cytochrome c from mitochondria|positive regulation of gene expression|positive regulation of peptidyl-serine phosphorylation|protein kinase C signaling cascade|sodium-independent organic anion transport|transmembrane transport|vasoconstriction|water transport	cytosol|soluble fraction	caspase inhibitor activity|neurohypophyseal hormone activity|protein kinase activity|signal transducer activity|V1A vasopressin receptor binding				0				COAD - Colon adenocarcinoma(99;0.00643)		AGGAAGCAGGCGGGCAGCATG	0.627													103	143					0	0	0.048971	0	0		T	3065299	T	T	3065299	3	4	158	1	0	0	0	0	1	0	0	0	1230	768	27	1	484	1	AVP	20	3065299	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2239242	3065299	59960221	173	87164											
CHGB	1114	broad.mit.edu	37	chr20	5905665	5905665	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatttggaactacagaaGatagctgagaaattcagcca	16	9	10	6	0	1	3	1	1	0	3	1	6	1	5	1	2	4	1	1	2	5	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:5905665G>T	uc002wmg.2	+	5	2310	c.2004G>T	c.(2002-2004)AAG>AAT	p.K668N	CHGB_uc010zqz.1_Missense_Mutation_p.K351N	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	668						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						AACTACAGAAGATAGCTGAGA	0.438													8	58					1.76689e-08	1.84439e-08	0.058154	1	0		T	5905665	T	T	5905665	3	4	158	1	0	0	0	0	1	0	0	0	3342	933	33	5	2022	5	CHGB	20	5905665	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	2840366	5905665	57119855	174	87165											
C20orf12	55184	broad.mit.edu	37	chr20	18395078	18395078	+	Missense_Mutation	SNP	A	G	G	1	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	ggacttcacacaaataccacAggagccacagaatcgggcag	15	4	10	12	1	1	1	1	0	0	1	2	3	1	3	2	3	2	1	2	3	3	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:18395078A>G	uc010zsa.1	-	12	1422	c.1213T>C	c.(1213-1215)TGT>CGT	p.C405R	C20orf12_uc010zrz.1_5'Flank|C20orf12_uc002wqp.3_Missense_Mutation_p.C96R|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Missense_Mutation_p.C272R|C20orf12_uc002wqq.3_Missense_Mutation_p.C386R|C20orf12_uc002wqu.1_RNA|C20orf12_uc010gct.1_RNA	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	213						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				CAAATACCACAGGAGCCACAG	0.522													4	27					0	0	0.020292	0	0		G	18395078	G	G	18395078	3	3	158	1	0	0	0	0	1	0	0	0	2088	188	7	3	1142	3	C20orf12	20	18395078	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	12489413	18395078	44630442	175	87166											
TMEM90B	79953	broad.mit.edu	37	chr20	24524024	24524024	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcatcctctattcagagggCgtgctgcgctcctgggggga	6	10	14	11	2	3	1	2	0	1	1	5	2	5	2	2	4	2	2	2	4	1	2	rs146291718	byFrequency	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:24524024C>T	uc002wtw.1	+	2	924	c.291C>T	c.(289-291)GGC>GGT	p.G97G		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	97	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						ATTCAGAGGGCGTGCTGCGCT	0.652													29	107					0	0	0.054565	0	0		T	24524024	T	T	24524024	2	4	158	1	0	0	0	0	0	0	0	1	16244	755	27	1		1	TMEM90B	20	24524024	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	6128946	24524024	38501496	176	87167											
EMILIN3	90187	broad.mit.edu	37	chr20	39992409	39992409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgaggtgctcagggcagCgtttcccagtgaagccggga	7	7	16	11	3	1	2	1	2	0	0	2	3	2	3	3	3	3	3	3	3	1	1	rs143410015		TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:39992409C>T	uc002xjy.1	-	3	607	c.383G>A	c.(382-384)CGC>CAC	p.R128H		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	128	EMI.					proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				CTCAGGGCAGCGTTTCCCAGT	0.632													11	148					0	0	0.09319	0	0		T	39992409	T	T	39992409	3	4	158	1	0	0	0	0	1	0	0	0	5103	768	27	1	1925	1	EMILIN3	20	39992409	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	15468385	39992409	23033111	177	87168											
PI3	5266	broad.mit.edu	37	chr20	43804672	43804672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccattatcttgatccggtgcGccatgttgaatccccctaac	8	12	7	14	2	1	2	0	2	1	0	3	2	3	2	5	1	2	1	5	1	3	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:43804672G>A	uc002xng.2	+	2	274	c.250G>A	c.(250-252)GCC>ACC	p.A84T		NM_002638	NP_002629	P19957	ELAF_HUMAN	elafin preproprotein	84	WAP.				copulation	proteinaceous extracellular matrix	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				GATCCGGTGCGCCATGTTGAA	0.512													42	117					0	0	0.11126	0	0		A	43804672	A	A	43804672	3	1	158	1	0	0	0	0	1	0	0	0	11889	1087	38	1	256	1	PI3	20	43804672	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	3812263	43804672	19220848	178	87169											
GATA5	140628	broad.mit.edu	37	chr20	61040939	61040939	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttggcttccgcttccgtgtCtggatgctttccttcttcat	2	19	8	12	2	3	0	1	0	2	0	6	1	6	1	3	2	1	3	3	2	0	6			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr20:61040939C>T	uc002ycx.1	-	5	926	c.864G>A	c.(862-864)CAG>CAA	p.Q288Q		NM_080473	NP_536721	Q9BWX5	GATA5_HUMAN	GATA binding protein 5	288					blood coagulation|intestinal epithelial cell differentiation|positive regulation of transcription from RNA polymerase II promoter	nucleoplasm	sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding				0	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;3.08e-06)			GCTTCCGTGTCTGGATGCTTT	0.682													3	10					0	0	0.009096	0	0		T	61040939	T	T	61040939	2	4	158	1	0	0	0	0	0	0	0	1	6272	912	32	4		4	GATA5	20	61040939	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	17236267	61040939	1984581	179	87170											
RSPH1	89765	broad.mit.edu	37	chr21	43912907	43912907	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggatatataaaagtgccttGaccgtgctttttatttctaa	11	17	7	6	1	1	1	0	1	1	0	1	2	1	2	2	1	2	1	2	1	6	9			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr21:43912907G>C	uc002zbg.2	-	3	340	c.235C>G	c.(235-237)CAA>GAA	p.Q79E		NM_080860	NP_543136	Q8WYR4	RSPH1_HUMAN	testis-specific gene A2	79	MORN 3.				meiosis	cytosol|nucleus				ovary(1)	1						AAAGTGCCTTGACCGTGCTTT	0.318													6	190					0	0	0.021553	0	0		C	43912907	C	C	43912907	3	2	158	1	0	0	0	0	1	0	0	0	13727	1299	45	5	722	5	RSPH1	21	43912907	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		43912907	4216988	180	87171											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047148	46047148	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	tccgactcctggcaggtggaCgactgcccagagagctgctg	7	7	14	13	2	0	1	0	0	0	1	2	5	2	2	3	3	3	3	3	3	0	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr21:46047148C>G	uc002zfp.3	+	1	109	c.60C>G	c.(58-60)GAC>GAG	p.D20E	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	20						keratin filament					0						GGCAGGTGGACGACTGCCCAG	0.667													13	31					0	0	0.020292	0	0		G	46047148	G	G	46047148	3	3	158	1	0	0	0	0	1	0	0	0	8532	535	19	5	62	5	KRTAP10-9	21	46047148	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2134241	46047148	2082747	181	87172											
FBLN1	2192	broad.mit.edu	37	chr22	45914594	45914594	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tcctcctggaggcctgctgtGcggacggacaccggatggcc	5	7	15	14	3	0	0	0	0	0	0	2	4	2	4	5	6	2	1	5	6	0	0			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chr22:45914594G>A	uc003bgj.1	+	2	259	c.112G>A	c.(112-114)GCG>ACG	p.A38T	FBLN1_uc003bgg.1_Missense_Mutation_p.A38T|FBLN1_uc003bgh.2_Missense_Mutation_p.A38T|FBLN1_uc010gzz.2_Missense_Mutation_p.A38T|FBLN1_uc003bgi.1_Missense_Mutation_p.A38T	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	38	Anaphylatoxin-like 1.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GGCCTGCTGTGCGGACGGACA	0.597													4	8					0	0	0.014758	0	0		A	45914594	A	A	45914594	3	1	158	1	0	0	0	0	1	0	0	0	5712	1319	46	2	118	2	FBLN1	22	45914594	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		45914594	5389972	182	87173											
HCCS	3052	broad.mit.edu	37	chrX	11136637	11136637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaggtggaagtggaaggatGaggatatcagtcagaaggat	14	8	16	3	0	2	2	2	1	0	1	2	7	2	7	0	6	0	0	0	6	5	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:11136637G>A	uc004cuk.2	+	5	684	c.418G>A	c.(418-420)GAG>AAG	p.E140K	HCCS_uc004cuj.2_Missense_Mutation_p.E140K|HCCS_uc004cul.1_Missense_Mutation_p.E140K	NM_005333	NP_005324	P53701	CCHL_HUMAN	holocytochrome c synthase	140					organ morphogenesis|oxidation-reduction process	mitochondrial inner membrane	holocytochrome-c synthase activity|metal ion binding				0						GTGGAAGGATGAGGATATCAG	0.353													44	229					0	0	0.039052	0	0		A	11136637	A	A	11136637	3	1	158	1	0	0	0	0	1	0	0	0	7006	1291	45	4	432	4	HCCS	23	11136637	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08		11136637	144133923	183	87174											
MAGEB6	158809	broad.mit.edu	37	chrX	26212461	26212461	+	Silent	SNP	T	C	C	0	1	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	ggtgtttcaggctcaaaataTgatgtggctgccgagggtga	9	11	15	6	1	2	2	2	2	0	0	2	3	2	2	1	4	1	3	1	4	3	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:26212461T>C	uc004dbr.2	+	2	647	c.498T>C	c.(496-498)TAT>TAC	p.Y166Y	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	166										ovary(3)	3						GCTCAAAATATGATGTGGCTG	0.493													13	56					0	0	0.038395	0	0		C	26212461	C	C	26212461	2	2	158	1	0	0	0	0	0	0	0	1	9197	1471	51	3		3	MAGEB6	23	26212461	Silent	SNP	T	TCGA-CG-5730-01A-11D-1600-08	15075824	26212461	129058099	184	87175											
PORCN	64840	broad.mit.edu	37	chrX	48372643	48372643	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggtggctgcgagcctaCgagagtgctgtctccttcca	6	9	12	14	2	1	1	0	0	1	1	3	3	2	1	4	2	4	2	4	2	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:48372643C>T	uc010nie.1	+	9	893	c.735C>T	c.(733-735)TAC>TAT	p.Y245Y	PORCN_uc004djr.1_Silent_p.Y240Y|PORCN_uc004djs.1_Silent_p.Y234Y|PORCN_uc004djt.1_Silent_p.Y163Y|PORCN_uc011mlx.1_Silent_p.Y163Y|PORCN_uc004dju.1_Silent_p.Y103Y|PORCN_uc004djv.1_Silent_p.Y245Y|PORCN_uc004djw.1_Silent_p.Y239Y	NM_203475	NP_982301	Q9H237	PORCN_HUMAN	porcupine isoform D	245	Extracellular (Potential).				Wnt receptor signaling pathway	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(2)|central_nervous_system(1)	3						TGCGAGCCTACGAGAGTGCTG	0.602													42	94					0	0	0.048971	0	0		T	48372643	T	T	48372643	2	4	158	1	0	0	0	0	0	0	0	1	12277	547	19	1		1	PORCN	23	48372643	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	22160182	48372643	106897917	185	87176											
GATA1	2623	broad.mit.edu	37	chrX	48652490	48652490	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttccctggacccctactGggctcacccacgggctcctt	4	10	8	19	1	1	0	1	0	0	0	3	1	3	1	6	3	1	2	6	3	1	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:48652490G>T	uc004dkq.3	+	6	1252	c.1161G>T	c.(1159-1161)CTG>CTT	p.L387L		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	387					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						GACCCCTACTGGGCTCACCCA	0.662			Mis|F		megakaryoblastic leukemia of Downs Syndrome								21	36					7.45023e-12	7.95136e-12	0.055883	1	0		T	48652490	T	T	48652490	2	4	158	1	0	0	0	0	0	0	0	1	6268	1335	47	5		5	GATA1	23	48652490	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	279847	48652490	106618070	186	87177											
PHF8	23133	broad.mit.edu	37	chrX	54043133	54043133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcatcttgcagtcagcctggCgggtcacatcaatcacatca	10	10	8	13	1	7	0	6	0	1	0	7	0	7	0	1	2	2	1	1	2	1	1			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:54043133C>T	uc004dsu.2	-	6	672	c.599G>A	c.(598-600)CGC>CAC	p.R200H	PHF8_uc004dst.2_Missense_Mutation_p.R164H|PHF8_uc004dsv.2_Missense_Mutation_p.R30H|PHF8_uc004dsw.2_Missense_Mutation_p.R164H|PHF8_uc004dsx.2_5'Flank|PHF8_uc004dsy.2_Missense_Mutation_p.R164H	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	200					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						GTCAGCCTGGCGGGTCACATC	0.448													96	104					0	0	0.048971	0	0		T	54043133	T	T	54043133	3	4	158	1	0	0	0	0	1	0	0	0	11859	768	27	1	2821	1	PHF8	23	54043133	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	5390643	54043133	101227427	187	87178											
ATRX	546	broad.mit.edu	37	chrX	76939715	76939715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctttgggcacaattagtgCggaataagagtaggttacag	12	11	12	6	1	1	1	0	0	1	1	1	2	1	2	0	3	2	3	0	3	6	5	rs149249195	byFrequency	TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:76939715C>T	uc004ecp.3	-	9	1265	c.1033G>A	c.(1033-1035)GCA>ACA	p.A345T	ATRX_uc004ecq.3_Missense_Mutation_p.A307T|ATRX_uc004eco.3_Missense_Mutation_p.A130T|ATRX_uc004ecr.2_Missense_Mutation_p.A306T|ATRX_uc010nlx.1_Missense_Mutation_p.A345T|ATRX_uc010nly.1_Missense_Mutation_p.A290T	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	345					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	ACAATTAGTGCGGAATAAGAG	0.363			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						9	286					0	0	0.058154	0	0		T	76939715	T	T	76939715	3	4	158	1	0	0	0	0	1	0	0	0	1209	768	27	1	6553	1	ATRX	23	76939715	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	22896582	76939715	78330845	188	87179											
DACH2	117154	broad.mit.edu	37	chrX	86069820	86069820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agccaccactagtgacagtgGcctgaggatgttaaaaggta	13	8	12	8	0	0	2	0	2	0	0	0	3	0	3	3	3	1	2	3	3	4	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:86069820G>T	uc004eew.2	+	10	1837	c.1667G>T	c.(1666-1668)GGC>GTC	p.G556V	DACH2_uc004eex.2_Missense_Mutation_p.G543V|DACH2_uc010nmq.2_Missense_Mutation_p.G422V|DACH2_uc011mra.1_Missense_Mutation_p.G389V|DACH2_uc010nmr.2_Missense_Mutation_p.G337V|DACH2_uc004eey.2_Missense_Mutation_p.G249V|DACH2_uc004eez.2_Missense_Mutation_p.G239V	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	556					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						AGTGACAGTGGCCTGAGGATG	0.363													6	73					8.12818e-05	8.30261e-05	0.02938	1	0		T	86069820	T	T	86069820	3	4	158	1	0	0	0	0	1	0	0	0	4224	1203	42	5	1705	5	DACH2	23	86069820	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	9130105	86069820	69200740	189	87180											
ARMCX2	9823	broad.mit.edu	37	chrX	100911039	100911039	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagatagcaaacggaaaaaGtttgcaatggaattgacaag	18	8	11	4	1	0	2	0	2	0	1	0	5	0	4	0	2	3	3	0	2	7	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:100911039G>A	uc004eid.2	-	3	1891	c.1536C>T	c.(1534-1536)AAC>AAT	p.N512N	ARMCX2_uc004eie.3_Silent_p.N512N|ARMCX2_uc004eif.3_Silent_p.N512N|ARMCX2_uc004eig.3_Silent_p.N512N|ARMCX2_uc010nnt.2_Silent_p.N512N	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	512	ARM 3.					integral to membrane	binding			ovary(6)	6						AACGGAAAAAGTTTGCAATGG	0.363													7	422					0	0	0.02938	0	0		A	100911039	A	A	100911039	2	1	158	1	0	0	0	0	0	0	0	1	961	1020	36	4		4	ARMCX2	23	100911039	Silent	SNP	G	TCGA-CG-5730-01A-11D-1600-08	14841219	100911039	54359521	190	87181											
TRPC5	7224	broad.mit.edu	37	chrX	111078194	111078194	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcatagcaatcagcatgttCagcagcactaccagggagat	14	8	9	10	0	3	1	3	0	0	1	3	2	3	1	1	1	5	5	1	1	3	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:111078194C>T	uc004epl.1	-	7	2770	c.1851G>A	c.(1849-1851)CTG>CTA	p.L617L	TRPC5_uc004epm.1_Silent_p.L617L	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	617	Helical; (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						TCAGCATGTTCAGCAGCACTA	0.438													137	567					0	0	0.048971	0	0		T	111078194	T	T	111078194	2	4	158	1	0	0	0	0	0	0	0	1	16608	813	29	4		4	TRPC5	23	111078194	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	10167155	111078194	44192366	191	87182											
MAGEC1	9947	broad.mit.edu	37	chrX	140995050	140995050	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcctcttcagggggaggaAttccagtcttctctccagag	8	11	11	11	0	4	1	1	0	3	1	8	3	7	3	3	3	0	0	3	3	1	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:140995050A>T	uc004fbt.2	+	4	2146	c.1860A>T	c.(1858-1860)GAA>GAT	p.E620D	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	620							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGGGAGGAATTCCAGTCTT	0.562										HNSCC(15;0.026)			177	633					0	0	0.048971	0	0		T	140995050	T	T	140995050	3	4	158	1	0	0	0	0	1	0	0	0	9198	98	4	5	1866	5	MAGEC1	23	140995050	Missense_Mutation	SNP	A	TCGA-CG-5730-01A-11D-1600-08	29916856	140995050	14275510	192	87183											
SLITRK4	139065	broad.mit.edu	37	chrX	142718454	142718454	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcattaagaatgagaactttCagtttgtggagcttattgaa	13	15	9	4	0	2	3	2	2	0	2	2	5	2	4	0	1	2	2	0	1	5	5			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:142718454C>T	uc004fbx.2	-	2	847	c.471G>A	c.(469-471)CTG>CTA	p.L157L	SLITRK4_uc004fby.2_Silent_p.L157L	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	157	Extracellular (Potential).|LRR 5.					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGAGAACTTTCAGTTTGTGGA	0.393													60	282					0	0	0.048971	0	0		T	142718454	T	T	142718454	2	4	158	1	0	0	0	0	0	0	0	1	14770	813	29	4		4	SLITRK4	23	142718454	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	1723404	142718454	12552106	193	87184											
AFF2	2334	broad.mit.edu	37	chrX	148037715	148037715	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctcgggaattcattgaaacaGattcatctacatctgactcc	12	12	6	11	1	4	3	2	2	2	1	6	4	5	4	1	1	2	0	1	1	3	4			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:148037715G>C	uc004fcp.2	+	11	2619	c.2140G>C	c.(2140-2142)GAT>CAT	p.D714H	AFF2_uc004fcq.2_Missense_Mutation_p.D704H|AFF2_uc004fcr.2_Missense_Mutation_p.D675H|AFF2_uc011mxb.1_Missense_Mutation_p.D679H|AFF2_uc004fcs.2_Missense_Mutation_p.D681H|AFF2_uc011mxc.1_Missense_Mutation_p.D355H	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	714					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CATTGAAACAGATTCATCTAC	0.458													120	174					0	0	0.048971	0	0		C	148037715	C	C	148037715	3	2	158	1	0	0	0	0	1	0	0	0	357	942	33	5	2237	5	AFF2	23	148037715	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	5319261	148037715	7232845	194	87185											
MAMLD1	10046	broad.mit.edu	37	chrX	149641985	149641985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtttgcatggacttctgcaGctagctcggtgaagccccag	7	11	12	11	1	1	1	0	1	1	0	2	2	1	2	2	2	5	5	2	2	2	3			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:149641985G>A	uc004fee.1	+	4	2027	c.1951G>A	c.(1951-1953)GCT>ACT	p.A651T	MAMLD1_uc011mxu.1_Intron|MAMLD1_uc011mxv.1_Missense_Mutation_p.A626T|MAMLD1_uc011mxw.1_Intron	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	651					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					GACTTCTGCAGCTAGCTCGGT	0.542													59	196					0	0	0.048971	0	0		A	149641985	A	A	149641985	3	1	158	1	0	0	0	0	1	0	0	0	9226	971	34	2	1965	2	MAMLD1	23	149641985	Missense_Mutation	SNP	G	TCGA-CG-5730-01A-11D-1600-08	1604270	149641985	5628575	195	87186											
MAGEA1	4100	broad.mit.edu	37	chrX	152482314	152482314	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagcttcctgggctcccCataggcactgtgctccctcc	5	9	10	17	0	0	0	0	0	0	0	4	1	4	0	5	2	3	5	5	2	1	2			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:152482314C>A	uc004fhf.2	-	3	917	c.697G>T	c.(697-699)GGG>TGG	p.G233W		NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	233	MAGE.					cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CTGGGCTCCCCATAGGCACTG	0.577													69	224					6.66389e-18	7.34262e-18	0.048971	1	0		A	152482314	A	A	152482314	3	1	158	1	0	0	0	0	1	0	0	0	9181	594	21	5	236	5	MAGEA1	23	152482314	Missense_Mutation	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2840329	152482314	2788246	196	87187											
TMLHE	55217	broad.mit.edu	37	chrX	154743754	154743754	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagttttgcagaaacttcttCagtccctcgttggtttctaa	9	16	7	9	1	3	1	1	0	2	1	5	1	4	1	1	1	2	4	1	1	3	7			TCGA-CG-5730-01A-11D-1600-08	TCGA-CG-5730-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	26ed0dd6-fcf5-4b45-a3a9-6f813d5fbaf7	432f25db-bdbb-4b92-89c0-7f179f3927ed	g.chrX:154743754C>T	uc004fnn.2	-	4	697	c.531G>A	c.(529-531)CTG>CTA	p.L177L	TMLHE_uc004fno.2_Silent_p.L177L|TMLHE_uc004fnp.3_Silent_p.L177L	NM_018196	NP_060666	Q9NVH6	TMLH_HUMAN	trimethyllysine hydroxylase, epsilon	177					carnitine biosynthetic process	mitochondrial matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|trimethyllysine dioxygenase activity			ovary(1)	1	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Succinic acid(DB00139)|Vitamin C(DB00126)	GAAACTTCTTCAGTCCCTCGT	0.448													26	347					0	0	0.099896	0	0		T	154743754	T	T	154743754	2	4	158	1	0	0	0	0	0	0	0	1	16257	813	29	4		4	TMLHE	23	154743754	Silent	SNP	C	TCGA-CG-5730-01A-11D-1600-08	2261440	154743754	526806	197	87188											
PRAMEF10	343071	broad.mit.edu	37	chr1	12954419	12954419	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcaccatcatttcttacctGagcaggtgctccaggtgctc	7	12	8	14	0	3	1	2	1	1	0	5	1	4	1	3	2	4	3	3	2	1	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr1:12954419G>A	uc001auo.2	-	3	937	c.864C>T	c.(862-864)CTC>CTT	p.L288L		NM_001039361	NP_001034450	O60809	PRA10_HUMAN	PRAME family member 10	288											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TTTCTTACCTGAGCAGGTGCT	0.343													31	70					0	0	0.080422	0	0		A	12954419	A	A	12954419	2	1	159	1	0	0	0	0	0	0	0	1	12448	1277	45	4		4	PRAMEF10	1	12954419	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08		12954419	236296202	1	87189											
HS2ST1	9653	broad.mit.edu	37	chr1	87570372	87570372	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tgaaaagatttaccctaagtCgaactgagtataaggtgtga	15	11	10	5	1	0	4	0	3	0	1	1	5	0	4	1	1	2	1	1	1	7	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr1:87570372C>G	uc010osk.1	+	7	1449	c.1064C>G	c.(1063-1065)TCG>TGG	p.S355W	LOC339524_uc001dme.1_Intron	NM_012262	NP_036394	Q7LGA3	HS2ST_HUMAN	heparan sulfate 2-O-sulfotransferase 1 isoform	355	Lumenal (Potential).					Golgi membrane|integral to membrane				central_nervous_system(1)	1		Lung NSC(277;0.153)		all cancers(265;0.00699)|Epithelial(280;0.0261)		TACCCTAAGTCGAACTGAGTA	0.423													3	69					0	0	0.004672	0	0		G	87570372	G	G	87570372	3	3	159	1	0	0	0	0	1	0	0	0	7378	893	31	5	1094	5	HS2ST1	1	87570372	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	74615953	87570372	161680249	2	87190											
FLG	2312	broad.mit.edu	37	chr1	152280076	152280076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagtgctggtcccggtccgtCcatgggcggactcagactgt	5	9	14	13	3	1	1	1	0	0	1	4	2	4	2	3	4	1	1	3	4	0	0			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr1:152280076C>T	uc001ezu.1	-	3	7322	c.7286G>A	c.(7285-7287)GGA>GAA	p.G2429E		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2429	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCGGTCCGTCCATGGGCGGA	0.592									Ichthyosis				151	407					0	0	0.048971	0	0		T	152280076	T	T	152280076	3	4	159	1	0	0	0	0	1	0	0	0	5936	855	30	4	4903	4	FLG	1	152280076	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	64709704	152280076	96970545	3	87191											
FLG	2312	broad.mit.edu	37	chr1	152281163	152281163	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttgtggctctgctgatgggGcccagcttttccctgtgctg	2	15	13	11	0	1	1	0	1	1	0	2	1	2	1	2	3	3	4	2	3	0	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr1:152281163G>T	uc001ezu.1	-	3	6235	c.6199C>A	c.(6199-6201)CCC>ACC	p.P2067T		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2067	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCTGATGGGGCCCAGCTTTT	0.562									Ichthyosis				57	563					9.72345e-25	1.09781e-24	0.048971	1	0		T	152281163	T	T	152281163	3	4	159	1	0	0	0	0	1	0	0	0	5936	1203	42	5	5990	5	FLG	1	152281163	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	1087	152281163	96969458	4	87192											
DARC	2532	broad.mit.edu	37	chr1	159175316	159175316	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatgtatggaattcttcCtatggtgtgaatgattcctt	10	16	10	5	0	1	3	0	2	1	1	3	5	3	4	2	2	0	1	2	2	5	6			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr1:159175316C>A	uc001fto.2	+	2	327	c.87C>A	c.(85-87)TCC>TCA	p.S29S	DARC_uc001ftp.3_Silent_p.S31S	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	29	Extracellular (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					GGAATTCTTCCTATGGTGTGA	0.537													32	73					3.67414e-24	4.10409e-24	0.050027	1	0		A	159175316	A	A	159175316	2	1	159	1	0	0	0	0	0	0	0	1	4243	668	24	5		5	DARC	1	159175316	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08	6894153	159175316	90075305	5	87193											
KIAA1614	57710	broad.mit.edu	37	chr1	180885845	180885845	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccatgacagaggtccgctGctggggcccagctctttgca	7	8	13	13	1	1	2	0	1	1	1	2	3	2	2	3	3	3	4	3	3	0	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr1:180885845G>A	uc001gok.2	+	2	673	c.606G>A	c.(604-606)CTG>CTA	p.L202L		NM_020950	NP_066001	Q5VZ46	K1614_HUMAN	hypothetical protein LOC57710	202										ovary(3)|skin(1)	4						GAGGTCCGCTGCTGGGGCCCA	0.612													50	127					0	0	0.048971	0	0		A	180885845	A	A	180885845	2	1	159	1	0	0	0	0	0	0	0	1	8264	1306	46	2		2	KIAA1614	1	180885845	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08	21710529	180885845	68364776	6	87194											
RYR2	6262	broad.mit.edu	37	chr1	237947621	237947621	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctttgaaatgcagctggcGgctcagatctcggagtcgga	9	10	13	9	3	3	2	1	1	2	1	5	4	3	4	0	4	2	3	0	4	1	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr1:237947621G>T	uc001hyl.1	+	90	12729	c.12609G>T	c.(12607-12609)GCG>GCT	p.A4203A	RYR2_uc010pya.1_Silent_p.A618A	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4203					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TGCAGCTGGCGGCTCAGATCT	0.517													4	96					0.00909568	0.0092723	0.009096	1	0		T	237947621	T	T	237947621	2	4	159	1	0	0	0	0	0	0	0	1	13794	1103	39	5		5	RYR2	1	237947621	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08	57061776	237947621	11303000	7	87195											
FSHR	2492	broad.mit.edu	37	chr2	49295370	49295370	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtacatacattttctccaggTccccaaatcctgaaaatgca	13	11	5	12	0	1	1	0	1	1	0	4	1	3	1	4	1	3	2	4	1	5	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:49295370T>C	uc002rww.2	-	2	286	c.212A>G	c.(211-213)GAC>GGC	p.D71G	FSHR_uc002rwx.2_Missense_Mutation_p.D71G|FSHR_uc010fbn.2_Missense_Mutation_p.D71G|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	71	Extracellular (Potential).|LRR 1.				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	TTTCTCCAGGTCCCCAAATCC	0.443									Gonadal_Dysgenesis_46_XX				10	149					0	0	0.058154	0	0		C	49295370	C	C	49295370	3	2	159	1	0	0	0	0	1	0	0	0	6087	1667	58	3	1911	3	FSHR	2	49295370	Missense_Mutation	SNP	T	TCGA-CG-5732-01A-11D-1600-08		49295370	193904003	8	87196											
CCDC85A	114800	broad.mit.edu	37	chr2	56420153	56420153	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccccagatcgccccaaagCactcaaaggacctagcccgg	13	3	8	17	2	1	1	1	0	0	1	2	2	1	2	6	2	3	1	6	2	4	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:56420153C>G	uc002rzn.2	+	2	1320	c.818C>G	c.(817-819)GCA>GGA	p.A273G		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	273	His-rich.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CGCCCCAAAGCACTCAAAGGA	0.662													9	50					0	0	0.047766	0	0		G	56420153	G	G	56420153	3	3	159	1	0	0	0	0	1	0	0	0	2862	710	25	5	824	5	CCDC85A	2	56420153	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	7124783	56420153	186779220	9	87197											
LRP1B	53353	broad.mit.edu	37	chr2	141283892	141283892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacaagtcccatctgcacagCggaactcaaccgtggcacag	12	6	9	14	2	2	0	1	0	1	0	3	1	3	1	2	2	5	2	2	2	4	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:141283892C>T	uc002tvj.1	-	48	8762	c.7790G>A	c.(7789-7791)CGC>CAC	p.R2597H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2597	Extracellular (Potential).|LDL-receptor class A 13.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATCTGCACAGCGGAACTCAAC	0.403										TSP Lung(27;0.18)			15	70					0	0	0.024245	0	0		T	141283892	T	T	141283892	3	4	159	1	0	0	0	0	1	0	0	0	8973	768	27	1	6185	1	LRP1B	2	141283892	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	84863739	141283892	101915481	10	87198											
SCN9A	6335	broad.mit.edu	37	chr2	167055546	167055546	+	Missense_Mutation	SNP	A	C	C	1	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	ctttggaaggatttgcagacAtgaacctttcttccatctgt	9	15	8	9	0	2	2	0	1	2	1	3	4	3	4	2	2	2	1	2	2	2	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:167055546A>C	uc010fpl.2	-	27	5911	c.5570T>G	c.(5569-5571)ATG>AGG	p.M1857R	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1868						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ATTTGCAGACATGAACCTTTC	0.433													15	200					0	0	0.024245	0	0		C	167055546	C	C	167055546	3	2	159	1	0	0	0	0	1	0	0	0	13950	217	8	5	367	5	SCN9A	2	167055546	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	25771654	167055546	76143827	11	87199											
LRP2	4036	broad.mit.edu	37	chr2	170060760	170060760	+	Silent	SNP	A	C	C	1	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	tcacgatccacgcccgtcagAgtgctgcgttcaatcctctg	7	10	9	15	4	4	1	3	0	1	1	6	2	6	1	3	0	2	2	3	0	1	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:170060760A>C	uc002ues.2	-	42	7950	c.7737T>G	c.(7735-7737)ACT>ACG	p.T2579T		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2579	LDL-receptor class B 28.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CGCCCGTCAGAGTGCTGCGTT	0.438													15	271					0	0	0.024245	0	0		C	170060760	C	C	170060760	2	2	159	1	0	0	0	0	0	0	0	1	8974	291	11	5		5	LRP2	2	170060760	Silent	SNP	A	TCGA-CG-5732-01A-11D-1600-08	3005214	170060760	73138613	12	87200											
TTN	7273	broad.mit.edu	37	chr2	179654210	179654210	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagacaaggcagttttctcGgcttcctttctcatctgatt	7	16	8	10	1	3	2	1	1	3	1	6	2	4	2	1	2	0	4	1	2	2	6			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:179654210G>A	uc010zfg.1	-	13	2177	c.1953C>T	c.(1951-1953)GCC>GCT	p.A651A	TTN_uc010zfh.1_Silent_p.A605A|TTN_uc010zfi.1_Silent_p.A605A|TTN_uc010zfj.1_Silent_p.A605A|TTN_uc002unb.2_Silent_p.A651A|TTN_uc010frg.1_Silent_p.A233A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	651							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGTTTTCTCGGCTTCCTTTC	0.403													50	110					0	0	0.048971	0	0		A	179654210	A	A	179654210	2	1	159	1	0	0	0	0	0	0	0	1	16761	1103	39	1		1	TTN	2	179654210	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08	9593450	179654210	63545163	13	87201											
IRS1	3667	broad.mit.edu	37	chr2	227662755	227662755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgcatccagaactcccCgggccccgtcacggcagaac	9	4	9	19	3	1	2	1	0	0	2	3	2	3	2	6	2	3	2	6	2	2	0			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:227662755C>T	uc002voh.3	-	1	752	c.700G>A	c.(700-702)GGG>AGG	p.G234R		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	234	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CAGAACTCCCCGGGCCCCGTC	0.627											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	110					0	0	0.009096	0	0		T	227662755	T	T	227662755	3	4	159	1	0	0	0	0	1	0	0	0	7856	652	23	1	3032	1	IRS1	2	227662755	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	48008545	227662755	15536618	14	87202											
SP110	3431	broad.mit.edu	37	chr2	231067427	231067427	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gagcttcttttggattccgtGtctagatgaggctgtccctg	5	15	12	9	1	2	2	0	1	2	1	4	4	4	3	2	2	1	2	2	2	1	5	rs148304482		TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr2:231067427G>A	uc002vqh.3	-	9	1156	c.916C>T	c.(916-918)CAC>TAC	p.H306Y	SP110_uc002vqg.3_Missense_Mutation_p.H306Y|SP110_uc002vqi.3_Missense_Mutation_p.H306Y|SP110_uc010fxk.2_Missense_Mutation_p.H304Y|SP110_uc010fxj.2_Intron	NM_004509	NP_004500	Q9HB58	SP110_HUMAN	SP110 nuclear body protein isoform a	306					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|signal transducer activity|zinc ion binding			ovary(2)|breast(2)	4		Renal(207;0.0112)|all_lung(227;0.0223)|Lung NSC(271;0.0983)|all_hematologic(139;0.104)|Acute lymphoblastic leukemia(138;0.169)		Epithelial(121;2.61e-12)|all cancers(144;6.39e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.0097)		TGGATTCCGTGTCTAGATGAG	0.458													87	242					0	0	0.048971	0	0		A	231067427	A	A	231067427	3	1	159	1	0	0	0	0	1	0	0	0	14986	1377	48	4	1333	4	SP110	2	231067427	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	3404672	231067427	12131946	15	87203											
PLXNB1	5364	broad.mit.edu	37	chr3	48448490	48448490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatacagaagtttgttgatCggggagtcctggacatagca	11	10	13	7	1	0	2	0	1	0	1	2	4	1	4	1	3	2	4	1	3	3	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr3:48448490C>T	uc003csw.2	-	35	6366	c.6096G>A	c.(6094-6096)CCG>CCA	p.P2032P	PLXNB1_uc003cst.2_Silent_p.P482P|PLXNB1_uc003csu.2_Silent_p.P1849P|PLXNB1_uc003csx.2_Silent_p.P2032P	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	2032	Cytoplasmic (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTTTGTTGATCGGGGAGTCCT	0.473													5	98					0	0	0.014758	0	0		T	48448490	T	T	48448490	2	4	159	1	0	0	0	0	0	0	0	1	12142	871	31	1		1	PLXNB1	3	48448490	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08		48448490	149573940	16	87204											
CACNA2D3	55799	broad.mit.edu	37	chr3	55107475	55107475	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcttgttccaacaggtcCtttgtcatccagcaaatccc	9	12	5	15	0	2	0	1	0	1	0	6	0	6	0	5	1	2	2	5	1	2	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr3:55107475C>G	uc003dhf.2	+	36	3039	c.2991C>G	c.(2989-2991)TCC>TCG	p.S997S	CACNA2D3_uc003dhg.1_Silent_p.S903S|CACNA2D3_uc003dhh.1_RNA	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	997	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		CCAACAGGTCCTTTGTCATCC	0.512													23	65					0	0	0.0918	0	0		G	55107475	G	G	55107475	2	3	159	1	0	0	0	0	0	0	0	1	2553	668	24	5		5	CACNA2D3	3	55107475	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08	6658985	55107475	142914955	17	87205											
OR5K4	403278	broad.mit.edu	37	chr3	98072767	98072767	+	Missense_Mutation	SNP	A	G	G	1	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	ttacaaattatccagagctgAagacgcttctgtttgtggtg	10	14	10	7	1	1	3	0	1	1	2	2	3	2	3	1	1	2	3	1	1	4	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr3:98072767A>G	uc011bgv.1	+	1	70	c.70A>G	c.(70-72)AAG>GAG	p.K24E		NM_001005517	NP_001005517	A6NMS3	OR5K4_HUMAN	olfactory receptor, family 5, subfamily K,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TCCAGAGCTGAAGACGCTTCT	0.438													8	334					0	0	0.038147	0	0		G	98072767	G	G	98072767	3	3	159	1	0	0	0	0	1	0	0	0	11188	247	9	3	72	3	OR5K4	3	98072767	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	42965292	98072767	99949663	18	87206											
SLC15A2	6565	broad.mit.edu	37	chr3	121648191	121648191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccaatgggatgacaaccGtgaggtttgaatgtcaatga	14	9	11	7	1	1	4	1	4	0	0	1	5	1	5	2	2	2	1	2	2	5	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr3:121648191G>A	uc003eep.2	+	17	1702	c.1549G>A	c.(1549-1551)GTG>ATG	p.V517M	SLC15A2_uc011bjn.1_Missense_Mutation_p.V486M	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	517					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	GATGACAACCGTGAGGTTTGA	0.398													19	144					0	0	0.062417	0	0		A	121648191	A	A	121648191	3	1	159	1	0	0	0	0	1	0	0	0	14424	1145	40	1	1615	1	SLC15A2	3	121648191	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	23575424	121648191	76374239	19	87207											
NAALADL2	254827	broad.mit.edu	37	chr3	175473204	175473204	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcaccaccaggtttttaTaggtaggatgcatgtctcaa	11	11	10	9	0	1	0	1	0	1	0	2	1	1	1	2	4	1	4	2	4	4	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr3:175473204T>C	uc003fit.2	+	13	2274	c.2187T>C	c.(2185-2187)TAT>TAC	p.Y729Y		NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	729	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		CAGGTTTTTATAGGTAGGATG	0.393													6	20					0	0	0.021553	0	0		C	175473204	C	C	175473204	2	2	159	1	0	0	0	0	0	0	0	1	10148	1413	49	3		3	NAALADL2	3	175473204	Silent	SNP	T	TCGA-CG-5732-01A-11D-1600-08	53825013	175473204	22549226	20	87208											
PDHA2	5161	broad.mit.edu	37	chr4	96761832	96761832	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgggcgctggcattgctctGgcctgtaaatataaaggaaa	11	10	12	8	1	1	0	0	0	1	0	1	1	1	1	1	4	1	4	1	4	6	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr4:96761832G>A	uc003htr.3	+	1	594	c.531G>A	c.(529-531)CTG>CTA	p.L177L		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	177					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	GCATTGCTCTGGCCTGTAAAT	0.498													10	95					0	0	0.020292	0	0		A	96761832	A	A	96761832	2	1	159	1	0	0	0	0	0	0	0	1	11684	1335	47	4		4	PDHA2	4	96761832	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08		96761832	94392444	21	87209											
MARVELD2	153562	broad.mit.edu	37	chr5	68716051	68716051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcatgtccatgtattaccGgaccattcttctggactcta	8	14	8	11	1	3	0	0	0	3	0	4	2	4	2	3	3	1	2	3	3	3	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:68716051G>A	uc003jwq.2	+	2	898	c.839G>A	c.(838-840)CGG>CAG	p.R280Q	MARVELD2_uc010ixf.2_Missense_Mutation_p.R280Q|MARVELD2_uc003jwr.1_Missense_Mutation_p.R280Q|MARVELD2_uc003jws.1_Intron	NM_001038603	NP_001033692	Q8N4S9	MALD2_HUMAN	MARVEL domain containing 2 isoform 1	280	MARVEL.|Extracellular (Potential).				sensory perception of sound	integral to membrane|tight junction					0		Lung NSC(167;0.000937)|Prostate(74;0.0187)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;7.31e-57)|Epithelial(20;1.05e-52)|all cancers(19;2.63e-48)|Lung(70;0.0183)		ATGTATTACCGGACCATTCTT	0.433													9	364					0	0	0.047766	0	0		A	68716051	A	A	68716051	3	1	159	1	0	0	0	0	1	0	0	0	9336	1116	39	1	841	1	MARVELD2	5	68716051	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08		68716051	112199209	22	87210											
TNPO1	3842	broad.mit.edu	37	chr5	72178338	72178338	+	Missense_Mutation	SNP	A	G	G	1	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	catgaagtactcagacatagAtattatcctacttaaggtaa	16	12	6	7	0	1	3	1	1	0	2	2	3	2	3	1	1	2	2	1	1	8	7			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:72178338A>G	uc003kck.3	+	10	1112	c.965A>G	c.(964-966)GAT>GGT	p.D322G	TNPO1_uc011csi.1_RNA|TNPO1_uc011csj.1_Missense_Mutation_p.D272G|TNPO1_uc003kch.2_Missense_Mutation_p.D314G|TNPO1_uc003kci.3_Missense_Mutation_p.D314G|TNPO1_uc003kcg.3_Missense_Mutation_p.D314G	NM_002270	NP_002261	Q92973	TNPO1_HUMAN	transportin 1 isoform 1	322					interspecies interaction between organisms|mRNA metabolic process|protein import into nucleus, translocation	cytosol|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			skin(3)|urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)	7		Lung NSC(167;0.0053)|Ovarian(174;0.0175)		OV - Ovarian serous cystadenocarcinoma(47;6.14e-54)		TCAGACATAGATATTATCCTA	0.303													17	674					0	0	0.038395	0	0		G	72178338	G	G	72178338	3	3	159	1	0	0	0	0	1	0	0	0	16360	333	12	3	1003	3	TNPO1	5	72178338	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	3462287	72178338	108736922	23	87211											
CRHBP	1393	broad.mit.edu	37	chr5	76249963	76249963	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cccgaggagttcattaccatCcactacgaccaggtctccat	10	9	7	15	2	2	0	1	0	1	0	4	3	3	1	5	2	2	1	5	2	2	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:76249963C>T	uc003ker.2	+	3	565	c.285C>T	c.(283-285)ATC>ATT	p.I95I	CRHBP_uc010izx.2_Silent_p.I95I	NM_001882	NP_001873	P24387	CRHBP_HUMAN	corticotropin releasing hormone binding protein	95					female pregnancy|learning or memory|signal transduction	soluble fraction					0		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-51)|Epithelial(54;8.79e-46)|all cancers(79;2.49e-41)		TCATTACCATCCACTACGACC	0.652													26	105					0	0	0.099896	0	0		T	76249963	T	T	76249963	2	4	159	1	0	0	0	0	0	0	0	1	3873	845	30	4		4	CRHBP	5	76249963	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08	4071625	76249963	104665297	24	87212											
EPB41L4A	64097	broad.mit.edu	37	chr5	111601943	111601943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctacactggatggcataCgctcccagctgagcagcagt	10	7	10	14	1	0	1	0	1	0	0	1	2	1	2	2	2	5	5	2	2	2	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:111601943C>T	uc003kpv.1	-	5	694	c.420G>A	c.(418-420)GCG>GCA	p.A140A	EPB41L4A_uc003kpw.1_Silent_p.A140A	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	140	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		GGATGGCATACGCTCCCAGCT	0.433													23	18					0	0	0.069288	0	0		T	111601943	T	T	111601943	2	4	159	1	0	0	0	0	0	0	0	1	5163	523	19	1		1	EPB41L4A	5	111601943	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08	35351980	111601943	69313317	25	87213											
AFF4	27125	broad.mit.edu	37	chr5	132272875	132272875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcacattccggtcttcacGgttcatgttgctatgaaaag	10	12	9	10	2	3	1	2	1	1	0	4	1	4	1	1	2	2	4	1	2	3	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:132272875G>A	uc003kyd.2	-	2	415	c.7C>T	c.(7-9)CGT>TGT	p.R3C	AFF4_uc011cxk.1_5'UTR|AFF4_uc003kye.1_Missense_Mutation_p.R3C|AFF4_uc003kyf.3_Missense_Mutation_p.R3C	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	3					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CGGTCTTCACGGTTCATGTTG	0.413													15	68					0	0	0.020292	0	0		A	132272875	A	A	132272875	3	1	159	1	0	0	0	0	1	0	0	0	359	1116	39	1	3564	1	AFF4	5	132272875	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	20670932	132272875	48642385	26	87214											
NR3C1	2908	broad.mit.edu	37	chr5	142689712	142689712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ttcgatagcggcatgctgggCagttttttcttcgaatttta	7	17	10	7	3	1	0	0	0	1	0	3	2	1	0	0	2	2	4	0	2	3	8			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:142689712C>A	uc003lmz.2	-	4	1910	c.1418G>T	c.(1417-1419)TGC>TTC	p.C473F	NR3C1_uc003lmy.2_Missense_Mutation_p.C474F|NR3C1_uc003lna.2_Missense_Mutation_p.C473F|NR3C1_uc003lnb.2_Missense_Mutation_p.C473F|NR3C1_uc011dbk.1_Missense_Mutation_p.C76F|NR3C1_uc003lnc.2_Missense_Mutation_p.C473F|NR3C1_uc003lnd.2_Missense_Mutation_p.C473F|NR3C1_uc003lne.2_Missense_Mutation_p.C473F|NR3C1_uc003lnf.2_Missense_Mutation_p.C474F	NM_000176	NP_000167	P04150	GCR_HUMAN	glucocorticoid receptor isoform alpha	473	NR C4-type.|Nuclear receptor.				chromatin modification|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus|transcription from RNA polymerase II promoter	mitochondrial matrix|nucleoplasm	glucocorticoid receptor activity|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			ovary(2)	2		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)		Amcinonide(DB00288)|Betamethasone(DB00443)|Budesonide(DB01222)|Dexamethasone(DB01234)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluticasone Propionate(DB00588)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Loteprednol Etabonate(DB00873)|Methylprednisolone(DB00959)|Mifepristone(DB00834)|Mometasone(DB00764)|Prednisone(DB00635)	GCATGCTGGGCAGTTTTTTCT	0.363													14	107					3.27435e-08	3.58132e-08	0.020292	1	0		A	142689712	A	A	142689712	3	1	159	1	0	0	0	0	1	0	0	0	10649	710	25	5	991	5	NR3C1	5	142689712	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	10416837	142689712	38225548	27	87215											
SAP30L	79685	broad.mit.edu	37	chr5	153833058	153833058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaataaggcccagttagcaGaagtaggtagacaaaattgc	16	8	10	7	0	1	2	1	0	0	2	1	2	1	2	1	2	2	4	1	2	8	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:153833058G>A	uc003lvk.2	+	3	1069	c.421G>A	c.(421-423)GAA>AAA	p.E141K	SAP30L_uc003lvm.3_RNA|SAP30L_uc011ddc.1_Missense_Mutation_p.E100K|SAP30L_uc011ddd.1_Missense_Mutation_p.E95K	NM_024632	NP_078908	Q9HAJ7	SP30L_HUMAN	SAP30-like isoform 1	141					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|metal ion binding				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			CCAGTTAGCAGAAGTAGGTAG	0.463													24	63					0	0	0.0918	0	0		A	153833058	A	A	153833058	3	1	159	1	0	0	0	0	1	0	0	0	13860	943	33	4	431	4	SAP30L	5	153833058	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	11143346	153833058	27082202	28	87216											
FBXW11	23291	broad.mit.edu	37	chr5	171305130	171305130	+	Missense_Mutation	SNP	A	G	G	1	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	ttccaggctggttttatcccAtatctattgagacaagatta	11	15	7	8	0	1	2	0	1	1	2	3	3	3	2	2	2	0	2	2	2	5	7			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr5:171305130A>G	uc003mbm.1	-	7	1164	c.793T>C	c.(793-795)TGG>CGG	p.W265R	FBXW11_uc011dey.1_Missense_Mutation_p.W233R|FBXW11_uc003mbl.1_Missense_Mutation_p.W252R|FBXW11_uc003mbn.1_Missense_Mutation_p.W231R	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	265	WD 1.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GTTTTATCCCATATCTATTGA	0.373													16	64					0	0	0.028581	0	0		G	171305130	G	G	171305130	3	3	159	1	0	0	0	0	1	0	0	0	5778	217	8	3	859	3	FBXW11	5	171305130	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	17472072	171305130	9610130	29	87217											
MSH5	4439	broad.mit.edu	37	chr6	31729612	31729612	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaccatggagacctgtgaGgatggcaacgatcttgtctt	11	10	12	8	1	2	3	0	1	2	2	2	6	2	4	2	3	1	1	2	3	2	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr6:31729612G>A	uc003nwv.1	+	23	2278	c.2199G>A	c.(2197-2199)GAG>GAA	p.E733E	MSH5_uc003nwt.1_Silent_p.E750E|MSH5_uc003nwu.1_Silent_p.E734E|MSH5_uc003nww.1_Silent_p.E733E|MSH5_uc003nwx.1_Silent_p.E751E|MSH5_uc011dof.1_Silent_p.E432E|MSH5_uc003nwy.1_Silent_p.E407E|MSH5_uc003nwz.3_RNA|C6orf26_uc003nxa.3_5'Flank	NM_172166	NP_751898	O43196	MSH5_HUMAN	mutS homolog 5 isoform c	733					chiasma assembly|homologous chromosome segregation|meiotic prophase II|mismatch repair|reciprocal meiotic recombination	synaptonemal complex	ATP binding|DNA-dependent ATPase activity|mismatched DNA binding			ovary(2)|breast(1)	3						AGACCTGTGAGGATGGCAACG	0.522								Direct_reversal_of_damage|MMR					37	433					0	0	0.069456	0	0		A	31729612	A	A	31729612	2	1	159	1	0	0	0	0	0	0	0	1	9891	991	35	4		4	MSH5	6	31729612	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08		31729612	139385455	30	87218											
MAGI2	9863	broad.mit.edu	37	chr7	77998505	77998505	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgccataaatgggatcatcGattttttcccagccatatgg	10	13	9	9	1	1	0	1	0	0	0	3	2	2	1	3	2	2	0	3	2	3	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr7:77998505G>A	uc003ugx.2	-	7	1325	c.1071C>T	c.(1069-1071)ATC>ATT	p.I357I	MAGI2_uc003ugy.2_Silent_p.I357I|MAGI2_uc010ldx.1_5'UTR|MAGI2_uc010ldy.1_5'UTR|MAGI2_uc011kgr.1_Silent_p.I189I|MAGI2_uc011kgs.1_Silent_p.I194I	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	357	WW 2.|Interaction with DDN.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGGGATCATCGATTTTTTCCC	0.244													17	36					0	0	0.038395	0	0		A	77998505	A	A	77998505	2	1	159	1	0	0	0	0	0	0	0	1	9209	1048	37	1		1	MAGI2	7	77998505	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08		77998505	81140158	31	87219											
KRIT1	889	broad.mit.edu	37	chr7	91864762	91864762	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaacaaagggttgtaaatAcaggtatctgctttctctag	13	12	8	8	0	2	0	0	0	2	0	3	0	2	0	1	2	3	4	1	2	7	6			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr7:91864762A>G	uc003ulq.1	-	6	855	c.684T>C	c.(682-684)TGT>TGC	p.C228C	KRIT1_uc010lev.1_Silent_p.C21C|KRIT1_uc003ulr.1_Silent_p.C228C|KRIT1_uc003uls.1_Silent_p.C228C|KRIT1_uc003ult.1_Silent_p.C228C|KRIT1_uc003ulu.1_Silent_p.C228C|KRIT1_uc003ulv.1_Silent_p.C228C	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	228					angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GGTTGTAAATACAGGTATCTG	0.353									Familial_Cerebral_Cavernous_Angioma				16	184					0	0	0.0333	0	0		G	91864762	G	G	91864762	2	3	159	1	0	0	0	0	0	0	0	1	8461	389	14	3		3	KRIT1	7	91864762	Silent	SNP	A	TCGA-CG-5732-01A-11D-1600-08	13866257	91864762	67273901	32	87220											
PILRB	29990	broad.mit.edu	37	chr7	99956991	99956991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaccacctggaggcccagCagcacaaccaccatagccgg	12	2	9	18	1	0	0	0	0	0	0	0	1	0	1	7	3	4	2	7	3	2	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr7:99956991C>T	uc003uuk.2	+	17	2982	c.486C>T	c.(484-486)AGC>AGT	p.S162S	PILRB_uc003uul.2_Nonsense_Mutation_p.Q93*|PILRB_uc003uun.2_Silent_p.S162S	NM_013440	NP_038468	Q9UKJ0	PILRB_HUMAN	paired immunoglobulin-like type 2 receptor beta	162	Extracellular (Potential).				activation of transmembrane receptor protein tyrosine kinase activity	integral to plasma membrane	protein binding|receptor activity				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGAGGCCCAGCAGCACAACCA	0.572													4	74					0	0	0.021553	0	0		T	99956991	T	T	99956991	2	4	159	1	0	0	0	0	0	0	0	1	11945	711	25	2		2	PILRB	7	99956991	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08	8092229	99956991	59181672	33	87221											
PTPRZ1	5803	broad.mit.edu	37	chr7	121608163	121608163	+	Missense_Mutation	SNP	A	C	C	1	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	catcattggaaaacacattcAttcataacactgggaaaaca	18	9	5	9	0	3	0	3	0	0	0	3	2	3	2	0	2	3	0	0	2	5	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr7:121608163A>C	uc003vjy.2	+	3	678	c.283A>C	c.(283-285)ATT>CTT	p.I95L	PTPRZ1_uc003vjz.2_Missense_Mutation_p.I95L	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	95	Extracellular (Potential).|Alpha-carbonic anhydrase.				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						AAACACATTCATTCATAACAC	0.303													11	176					0	0	0.09319	0	0		C	121608163	C	C	121608163	3	2	159	1	0	0	0	0	1	0	0	0	12839	217	8	5	293	5	PTPRZ1	7	121608163	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	21651172	121608163	37530500	34	87222											
PINX1	54984	broad.mit.edu	37	chr8	10623284	10623284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttttacgttccacctgcGtctcagaaatgtcagaccct	8	12	6	15	2	2	2	2	0	1	2	4	2	3	2	4	0	2	1	4	0	2	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr8:10623284G>A	uc003wth.2	-	7	647	c.614C>T	c.(613-615)ACG>ATG	p.T205M	SOX7_uc011kwz.1_Intron|PINX1_uc003wti.2_3'UTR	NM_017884	NP_060354	Q96BK5	PINX1_HUMAN	PIN2-interacting protein 1	205				T -> A (in Ref. 6; AAS19507).	mitotic metaphase plate congression|negative regulation of cell proliferation	chromosome, telomeric region|condensed chromosome kinetochore|mitochondrion|nuclear chromosome|nucleolus|spindle	protein binding|telomerase inhibitor activity|telomeric RNA binding			lung(1)|kidney(1)|skin(1)	3				Kidney(29;0.0595)|COAD - Colon adenocarcinoma(149;0.105)|KIRC - Kidney renal clear cell carcinoma(542;0.201)		TTCCACCTGCGTCTCAGAAAT	0.522													18	322					0	0	0.055883	0	0		A	10623284	A	A	10623284	3	1	159	1	0	0	0	0	1	0	0	0	11952	1145	40	1	376	1	PINX1	8	10623284	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08		10623284	135740738	35	87223											
CHRNA6	8973	broad.mit.edu	37	chr8	42611522	42611522	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagcaggactgaaatacaaaGcgtcactttttcaccacagt	15	9	7	10	1	2	1	2	1	0	0	2	2	2	2	1	1	3	1	1	1	4	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr8:42611522G>A	uc003xpj.2	-	5	866	c.820C>T	c.(820-822)CTT>TTT	p.L274F	CHRNA6_uc011lcw.1_Missense_Mutation_p.L259F	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	274	Helical; (Potential).					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GAAATACAAAGCGTCACTTTT	0.438													5	117					0	0	0.014758	0	0		A	42611522	A	A	42611522	3	1	159	1	0	0	0	0	1	0	0	0	3390	971	34	2	672	2	CHRNA6	8	42611522	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	31988238	42611522	103752500	36	87224											
CSMD3	114788	broad.mit.edu	37	chr8	113276010	113276010	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttccttccagccttccattAgagatctggggaggagttgg	7	12	13	9	0	1	1	0	0	1	1	4	4	4	3	4	4	1	2	4	4	1	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr8:113276010A>G	uc003ynu.2	-	61	9879	c.9720T>C	c.(9718-9720)TCT>TCC	p.S3240S	CSMD3_uc003yns.2_Silent_p.S2442S|CSMD3_uc003ynt.2_Silent_p.S3200S|CSMD3_uc011lhx.1_Silent_p.S3071S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3240	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GCCTTCCATTAGAGATCTGGG	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	130					0	0	0.021553	0	0		G	113276010	G	G	113276010	2	3	159	1	0	0	0	0	0	0	0	1	3949	407	15	3		3	CSMD3	8	113276010	Silent	SNP	A	TCGA-CG-5732-01A-11D-1600-08	70664488	113276010	33088012	37	87225											
TRPS1	7227	broad.mit.edu	37	chr8	116426974	116426974	+	Missense_Mutation	SNP	A	C	C	1	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	tctccagtactttcctgaggActttttatctgaatgtgcaa	9	16	7	9	0	2	2	0	2	2	0	4	3	3	3	2	1	2	2	2	1	4	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr8:116426974A>C	uc003ynz.2	-	6	3582	c.3123T>G	c.(3121-3123)AGT>AGG	p.S1041R	TRPS1_uc011lhy.1_Missense_Mutation_p.S1045R|TRPS1_uc003yny.2_Missense_Mutation_p.S1054R|TRPS1_uc010mcy.2_Missense_Mutation_p.S1041R	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1041	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TTTCCTGAGGACTTTTTATCT	0.438									Langer-Giedion_syndrome				16	261					0	0	0.0333	0	0		C	116426974	C	C	116426974	3	2	159	1	0	0	0	0	1	0	0	0	16619	272	10	5	726	5	TRPS1	8	116426974	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	3150964	116426974	29937048	38	87226											
PTPRD	5789	broad.mit.edu	37	chr9	8518230	8518230	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccctgaattcataatcCgagtagggacttagtccagc	13	9	8	11	1	1	1	1	1	0	0	3	3	3	2	3	1	2	1	3	1	5	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr9:8518230C>T	uc003zkk.2	-	20	1872	c.1161G>A	c.(1159-1161)TCG>TCA	p.S387S	PTPRD_uc003zkp.2_Silent_p.S387S|PTPRD_uc003zkq.2_Silent_p.S387S|PTPRD_uc003zkr.2_Silent_p.S381S|PTPRD_uc003zks.2_Silent_p.S377S|PTPRD_uc003zkl.2_Silent_p.S387S|PTPRD_uc003zkm.2_Silent_p.S374S|PTPRD_uc003zkn.2_Silent_p.S387S|PTPRD_uc003zko.2_Silent_p.S384S	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	387	Fibronectin type-III 1.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		ATTCATAATCCGAGTAGGGAC	0.488										TSP Lung(15;0.13)			42	199					0	0	0.11126	0	0		T	8518230	T	T	8518230	2	4	159	1	0	0	0	0	0	0	0	1	12824	639	23	1		1	PTPRD	9	8518230	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08		8518230	132695201	39	87227											
TNC	3371	broad.mit.edu	37	chr9	117792587	117792587	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacttccagcgcctcagcCttatcaccattcagataaat	13	10	5	13	1	3	2	3	0	0	2	4	2	4	2	4	0	2	0	4	0	4	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr9:117792587C>A	uc004bjj.3	-	24	6380	c.6018G>T	c.(6016-6018)AAG>AAT	p.K2006N	TNC_uc010mvf.2_Missense_Mutation_p.K1733N	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	2006	Fibrinogen C-terminal.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						GCGCCTCAGCCTTATCACCAT	0.552													7	252					0.00198382	0.00208301	0.02938	1	0		A	117792587	A	A	117792587	3	1	159	1	0	0	0	0	1	0	0	0	16295	680	24	5	607	5	TNC	9	117792587	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	109274357	117792587	23420844	40	87228											
ABL1	25	broad.mit.edu	37	chr9	133760856	133760856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagcgcagtgctggaggccgGcaaaaacctctacacgttct	10	7	11	13	3	2	0	0	0	2	0	2	1	2	1	2	3	4	4	2	3	3	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr9:133760856G>A	uc004bzw.2	+	11	3182	c.3179G>A	c.(3178-3180)GGC>GAC	p.G1060D	ABL1_uc004bzv.2_Missense_Mutation_p.G1079D	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	1060	F-actin-binding.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding			haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	CTGGAGGCCGGCAAAAACCTC	0.557			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								4	66					0	0	0.009096	0	0		A	133760856	A	A	133760856	3	1	159	1	0	0	0	0	1	0	0	0	92	1203	42	2	3361	2	ABL1	9	133760856	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	15968269	133760856	7452575	41	87229											
GLT6D1	360203	broad.mit.edu	37	chr9	138516144	138516144	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caagctgctgaggtcggcctCctctcataagggaagttctt	8	11	11	11	1	2	1	1	1	2	0	5	2	3	2	2	3	2	3	2	3	3	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr9:138516144C>G	uc010nbd.1	-	5	884	c.630G>C	c.(628-630)AGG>AGC	p.R210S		NM_182974	NP_892019	Q7Z4J2	GL6D1_HUMAN	glycosyltransferase 6 domain containing 1	210	Lumenal (Potential).				carbohydrate metabolic process	integral to membrane	transferase activity, transferring hexosyl groups			ovary(1)	1		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;4.3e-07)|Epithelial(140;1.58e-06)|all cancers(34;5.36e-05)		AGGTCGGCCTCCTCTCATAAG	0.517													4	165					0	0	0.009096	0	0		G	138516144	G	G	138516144	3	3	159	1	0	0	0	0	1	0	0	0	6483	854	30	5	204	5	GLT6D1	9	138516144	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	4755288	138516144	2697287	42	87230											
PNPLA7	375775	broad.mit.edu	37	chr9	140437210	140437210	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctgcacaaagacgatgtgttTgcaaagctccaggaacagcg	13	7	11	10	2	0	1	0	0	0	1	1	3	1	2	1	1	5	4	1	1	3	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr9:140437210T>G	uc004cnf.2	-	6	812	c.475A>C	c.(475-477)AAA>CAA	p.K159Q	PNPLA7_uc010ncj.1_Missense_Mutation_p.K184Q	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	159	cNMP 1.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		ACGATGTGTTTGCAAAGCTCC	0.642													4	62					0	0	0.021553	0	0		G	140437210	G	G	140437210	3	3	159	1	0	0	0	0	1	0	0	0	12189	1821	63	5	3594	5	PNPLA7	9	140437210	Missense_Mutation	SNP	T	TCGA-CG-5732-01A-11D-1600-08	1921066	140437210	776221	43	87231											
YME1L1	10730	broad.mit.edu	37	chr10	27400956	27400956	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	aacaatttgaatctctttggCatccaaagtctcataggtca	13	13	6	9	0	3	1	2	1	2	0	6	1	4	1	1	2	1	1	1	2	5	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr10:27400956C>G	uc001iti.2	-	20	2454	c.2272G>C	c.(2272-2274)GCC>CCC	p.A758P	YME1L1_uc001itj.2_Missense_Mutation_p.A701P|YME1L1_uc010qdl.1_Missense_Mutation_p.A668P|YME1L1_uc009xkv.2_RNA	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	758					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						ATCTCTTTGGCATCCAAAGTC	0.373													33	129					0	0	0.050027	0	0		G	27400956	G	G	27400956	3	3	159	1	0	0	0	0	1	0	0	0	17513	710	25	5	53	5	YME1L1	10	27400956	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08		27400956	108133791	44	87232											
JMJD1C	221037	broad.mit.edu	37	chr10	64967507	64967507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttgtactagaagatggacGcacaatgacagatgccatag	14	10	10	7	1	0	4	0	1	0	3	0	5	0	5	1	1	2	2	1	1	5	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr10:64967507G>A	uc001jmn.2	-	10	4222	c.3922C>T	c.(3922-3924)CGT>TGT	p.R1308C	JMJD1C_uc001jml.2_Missense_Mutation_p.R1089C|JMJD1C_uc001jmm.2_Missense_Mutation_p.R1020C|JMJD1C_uc010qiq.1_Missense_Mutation_p.R1126C|JMJD1C_uc009xpi.2_Missense_Mutation_p.R1126C|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc009xpk.1_Missense_Mutation_p.R345C	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	1308					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					GAAGATGGACGCACAATGACA	0.423													10	304					0	0	0.069234	0	0		A	64967507	A	A	64967507	3	1	159	1	0	0	0	0	1	0	0	0	7966	1087	38	1	3768	1	JMJD1C	10	64967507	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	37566551	64967507	70567240	45	87233											
NT5C2	22978	broad.mit.edu	37	chr10	104859733	104859733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacatcctggaacatactccGgtaggacatgaagaggtccc	12	8	10	11	1	0	2	0	1	0	1	3	4	3	4	3	4	3	1	3	4	5	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr10:104859733G>A	uc001kwo.2	-	9	769	c.583C>T	c.(583-585)CGG>TGG	p.R195W	NT5C2_uc010qqp.1_Missense_Mutation_p.R166W|NT5C2_uc001kwq.2_Missense_Mutation_p.R195W|NT5C2_uc001kwp.2_Missense_Mutation_p.R42W	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	195					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	AACATACTCCGGTAGGACATG	0.393													56	211					0	0	0.048971	0	0		A	104859733	A	A	104859733	3	1	159	1	0	0	0	0	1	0	0	0	10706	1115	39	1	1146	1	NT5C2	10	104859733	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	39892226	104859733	30675014	46	87234											
TDRD1	56165	broad.mit.edu	37	chr10	115963311	115963311	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggaagtttgtattgccaaGtacactgttgatcaggtaac	11	12	12	6	0	1	1	1	1	0	0	1	2	1	2	1	3	3	5	1	3	5	6			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr10:115963311G>C	uc001lbg.1	+	8	1119	c.966G>C	c.(964-966)AAG>AAC	p.K322N	TDRD1_uc001lbf.2_Missense_Mutation_p.K313N|TDRD1_uc001lbh.1_Missense_Mutation_p.K313N|TDRD1_uc001lbi.1_Missense_Mutation_p.K313N|TDRD1_uc010qsc.1_Missense_Mutation_p.K31N|TDRD1_uc001lbj.2_Missense_Mutation_p.K31N	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	322	Tudor 1.				DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GTATTGCCAAGTACACTGTTG	0.353													8	167					0	0	0.047766	0	0		C	115963311	C	C	115963311	3	2	159	1	0	0	0	0	1	0	0	0	15755	1020	36	5	992	5	TDRD1	10	115963311	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	11103578	115963311	19571436	47	87235											
TCERG1L	256536	broad.mit.edu	37	chr10	132944909	132944909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaactcggtcatcgcccGtccagaccacacacctgttt	11	8	7	15	3	1	2	1	0	0	2	4	2	2	2	4	1	1	1	4	1	2	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr10:132944909G>A	uc001lkp.2	-	7	1135	c.1049C>T	c.(1048-1050)ACG>ATG	p.T350M	TCERG1L_uc009yax.1_RNA	NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	350	WW 2.									large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		GTCATCGCCCGTCCAGACCAC	0.502													15	72					0	0	0.024245	0	0		A	132944909	A	A	132944909	3	1	159	1	0	0	0	0	1	0	0	0	15711	1145	40	1	735	1	TCERG1L	10	132944909	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	16981598	132944909	2589838	48	87236											
OR5D13	390142	broad.mit.edu	37	chr11	55541123	55541123	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccttagtcacttgtccttGacagacttctgtttttccac	6	18	5	12	0	2	2	1	1	1	1	5	2	5	2	3	0	0	1	3	0	1	7			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr11:55541123G>T	uc010ril.1	+	1	210	c.210G>T	c.(208-210)TTG>TTT	p.L70F		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				ACTTGTCCTTGACAGACTTCT	0.393													8	310					0.00307968	0.00320165	0.038147	1	0		T	55541123	T	T	55541123	3	4	159	1	0	0	0	0	1	0	0	0	11173	1281	45	5	212	5	OR5D13	11	55541123	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08		55541123	79465393	49	87237											
KDM4D	55693	broad.mit.edu	37	chr11	94731792	94731792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcactgctacgcagccccGggctgctgctgtccacagct	5	8	12	16	2	0	0	0	0	0	0	1	0	1	0	3	2	6	7	3	2	1	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr11:94731792G>A	uc001pfe.2	+	3	2088	c.1256G>A	c.(1255-1257)CGG>CAG	p.R419Q		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	419					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						ACGCAGCCCCGGGCTGCTGCT	0.602													6	119					0	0	0.02938	0	0		A	94731792	A	A	94731792	3	1	159	1	0	0	0	0	1	0	0	0	8147	1116	39	1	1258	1	KDM4D	11	94731792	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	39190669	94731792	40274724	50	87238											
CWF19L2	143884	broad.mit.edu	37	chr11	107299860	107299860	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagagggtctcaagaatttAgctctcaaattgccaaaaga	15	10	8	8	0	3	3	3	0	2	3	5	3	3	3	1	1	2	1	1	1	6	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr11:107299860A>G	uc010rvp.1	-	8	1128	c.1098T>C	c.(1096-1098)GCT>GCC	p.A366A	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	366							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TCAAGAATTTAGCTCTCAAAT	0.398													34	136					0	0	0.050027	0	0		G	107299860	G	G	107299860	2	3	159	1	0	0	0	0	0	0	0	1	4075	407	15	3		3	CWF19L2	11	107299860	Silent	SNP	A	TCGA-CG-5732-01A-11D-1600-08	12568068	107299860	27706656	51	87239											
SIDT2	51092	broad.mit.edu	37	chr11	117059426	117059426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccctgccctttccaggcCgctcctttgaacctgtaggt	4	12	8	17	1	0	1	0	1	0	0	3	1	3	1	7	2	2	2	7	2	2	3	rs141277106		TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr11:117059426C>T	uc001pqh.1	+	13	1203	c.1162C>T	c.(1162-1164)CGC>TGC	p.R388C	SIDT2_uc010rxe.1_Missense_Mutation_p.R388C|SIDT2_uc001pqg.2_Missense_Mutation_p.R409C|SIDT2_uc001pqi.1_Intron	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	388	Cytoplasmic (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		CTTTCCAGGCCGCTCCTTTGA	0.557													5	71					0	0	0.014758	0	0		T	117059426	T	T	117059426	3	4	159	1	0	0	0	0	1	0	0	0	14328	652	23	1	1212	1	SIDT2	11	117059426	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	9759566	117059426	17947090	52	87240											
CD163L1	283316	broad.mit.edu	37	chr12	7559293	7559293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagccagcgaagtgaagtgCggttccacatcccaactgct	11	7	10	13	2	0	1	0	1	0	0	2	2	2	1	3	1	5	2	3	1	4	1	rs148507764		TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr12:7559293C>T	uc001qsy.2	-	5	948	c.922G>A	c.(922-924)GCA>ACA	p.A308T	CD163L1_uc010sge.1_Missense_Mutation_p.A318T	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	308	SRCR 3.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						AAGTGAAGTGCGGTTCCACAT	0.502													5	127					0	0	0.014758	0	0		T	7559293	T	T	7559293	3	4	159	1	0	0	0	0	1	0	0	0	2971	768	27	1	3499	1	CD163L1	12	7559293	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08		7559293	126292602	53	87241											
PDZRN4	29951	broad.mit.edu	37	chr12	41967067	41967067	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcagcgaacacatcccttAcctctctccttaccacagct	10	10	4	17	1	2	0	1	0	1	0	5	1	4	0	4	0	5	1	4	0	3	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr12:41967067A>T	uc010skn.1	+	10	1957	c.1889A>T	c.(1888-1890)TAC>TTC	p.Y630F	PDZRN4_uc001rmq.3_Missense_Mutation_p.Y571F|PDZRN4_uc009zjz.2_Missense_Mutation_p.Y569F|PDZRN4_uc001rmr.2_Missense_Mutation_p.Y456F	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	829							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				CACATCCCTTACCTCTCTCCT	0.463													26	274					0	0	0.099896	0	0		T	41967067	T	T	41967067	3	4	159	1	0	0	0	0	1	0	0	0	11729	391	14	5	2597	5	PDZRN4	12	41967067	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	34407774	41967067	91884828	54	87242											
KIAA0748	9840	broad.mit.edu	37	chr12	55356738	55356738	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccatcacttccaacacaActtggtccaaactgttcctt	10	13	4	14	0	1	0	1	0	0	0	5	0	5	0	4	1	3	1	4	1	3	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr12:55356738A>C	uc001sgn.3	-	9	1054	c.944T>G	c.(943-945)GTT>GGT	p.V315G	KIAA0748_uc001sgl.3_Missense_Mutation_p.V177G|KIAA0748_uc001sgm.3_Missense_Mutation_p.V62G|KIAA0748_uc010spb.1_Missense_Mutation_p.V62G|KIAA0748_uc010spc.1_Missense_Mutation_p.V177G|KIAA0748_uc010spd.1_Missense_Mutation_p.V315G|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	315										ovary(1)|central_nervous_system(1)	2						TTCCAACACAACTTGGTCCAA	0.532													24	60					0	0	0.099896	0	0		C	55356738	C	C	55356738	3	2	159	1	0	0	0	0	1	0	0	0	8206	43	2	5	629	5	KIAA0748	12	55356738	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08	13389671	55356738	78495157	55	87243											
CUX2	23316	broad.mit.edu	37	chr12	111785892	111785892	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tcctcaccaggcctcatgatGtctgtgtcacctgtcccctc	5	12	7	17	0	4	1	3	1	1	0	7	1	6	1	6	1	0	0	6	1	0	0			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr12:111785892G>T	uc001tsa.1	+	22	4377	c.4224G>T	c.(4222-4224)ATG>ATT	p.M1408I		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1408	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GCCTCATGATGTCTGTGTCAC	0.632													5	75					1.23904e-05	1.31413e-05	0.014758	1	0		T	111785892	T	T	111785892	3	4	159	1	0	0	0	0	1	0	0	0	4068	1377	48	5	4310	5	CUX2	12	111785892	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	56429154	111785892	22066003	56	87244											
ZMYM2	7750	broad.mit.edu	37	chr13	20568054	20568054	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatctgcaactcatcataAtcctggtaagcagtaagaga	16	9	8	8	0	3	2	2	0	1	2	4	3	4	2	1	1	3	4	1	1	5	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr13:20568054A>G	uc001umr.2	+	4	1140	c.842A>G	c.(841-843)AAT>AGT	p.N281S	ZMYM2_uc001umq.2_Missense_Mutation_p.N194S|ZMYM2_uc001ums.2_Missense_Mutation_p.N281S|ZMYM2_uc001umt.2_Missense_Mutation_p.N281S|ZMYM2_uc009zzn.1_Missense_Mutation_p.N216S	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	281					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		ACTCATCATAATCCTGGTAAG	0.368													8	321					0	0	0.09319	0	0		G	20568054	G	G	20568054	3	3	159	1	0	0	0	0	1	0	0	0	17725	101	4	3	844	3	ZMYM2	13	20568054	Missense_Mutation	SNP	A	TCGA-CG-5732-01A-11D-1600-08		20568054	94601824	57	87245											
KIAA0564	23078	broad.mit.edu	37	chr13	42442545	42442545	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgggacacatggttttcCatcatcttctctacttttac	7	17	6	11	0	3	0	1	0	2	0	5	1	4	1	1	2	2	2	1	2	2	7	rs144180077	byFrequency	TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr13:42442545C>G	uc001uyj.2	-	10	1219	c.1149G>C	c.(1147-1149)ATG>ATC	p.M383I	KIAA0564_uc001uyk.2_Missense_Mutation_p.M383I	NM_015058	NP_055873	A3KMH1	K0564_HUMAN	hypothetical protein LOC23078 isoform a	383						extracellular region	ATP binding|ATPase activity			ovary(3)|upper_aerodigestive_tract(1)|kidney(1)|skin(1)	6		Lung NSC(96;4.61e-06)|Prostate(109;0.0167)|Lung SC(185;0.0262)|Breast(139;0.0854)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000368)|GBM - Glioblastoma multiforme(144;0.0033)|BRCA - Breast invasive adenocarcinoma(63;0.0969)		CATGGTTTTCCATCATCTTCT	0.363													6	180					0	0	0.02938	0	0		G	42442545	G	G	42442545	3	3	159	1	0	0	0	0	1	0	0	0	8201	594	21	5	4716	5	KIAA0564	13	42442545	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	21874491	42442545	72727333	58	87246											
SLC15A1	6564	broad.mit.edu	37	chr13	99362010	99362010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctacctgcatctgatcggGctgaatttcaagagctccct	8	13	8	12	1	3	3	1	2	2	1	5	3	4	3	2	1	3	3	2	1	3	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr13:99362010G>A	uc001vno.2	-	13	1041	c.964C>T	c.(964-966)CCC>TCC	p.P322S		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	322	Extracellular (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	ATCTGATCGGGCTGAATTTCA	0.423													4	145					0	0	0.009096	0	0		A	99362010	A	A	99362010	3	1	159	1	0	0	0	0	1	0	0	0	14423	1203	42	2	1206	2	SLC15A1	13	99362010	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	56919465	99362010	15807868	59	87247											
TTLL5	23093	broad.mit.edu	37	chr14	76245989	76245989	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgctagtgtcttcctggggaCtcactctaaaatttctaaga	10	14	8	9	0	4	1	1	0	3	1	5	2	5	2	1	2	1	1	1	2	4	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr14:76245989C>A	uc001xrx.2	+	24	2664	c.2459C>A	c.(2458-2460)ACT>AAT	p.T820N	TTLL5_uc010ask.1_Missense_Mutation_p.T834N|TTLL5_uc001xrz.2_Missense_Mutation_p.T395N|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	820					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		TTCCTGGGGACTCACTCTAAA	0.383													22	103					2.70639e-06	2.89971e-06	0.069288	1	0		A	76245989	A	A	76245989	3	1	159	1	0	0	0	0	1	0	0	0	16756	565	20	5	2549	5	TTLL5	14	76245989	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08		76245989	31103551	60	87248											
TRIP11	9321	broad.mit.edu	37	chr14	92471128	92471128	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcttgtatctccaaatcTttctgctgaataatctgagt	11	15	7	8	0	4	3	0	2	4	1	5	3	4	3	1	0	2	3	1	0	4	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr14:92471128T>G	uc001xzy.2	-	11	3980	c.3192A>C	c.(3190-3192)AAA>AAC	p.K1064N	TRIP11_uc010auf.1_Missense_Mutation_p.K800N	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1064	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|skin(2)|kidney(2)|central_nervous_system(1)|lung(1)|breast(1)	13				COAD - Colon adenocarcinoma(157;0.223)		TCTCCAAATCTTTCTGCTGAA	0.333			T	PDGFRB	AML								9	294					0	0	0.047766	0	0		G	92471128	G	G	92471128	3	3	159	1	0	0	0	0	1	0	0	0	16581	1606	56	5	2791	5	TRIP11	14	92471128	Missense_Mutation	SNP	T	TCGA-CG-5732-01A-11D-1600-08	16225139	92471128	14878412	61	87249											
DLK1	8788	broad.mit.edu	37	chr14	101193435	101193435	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	accgaagccctcctgcgcgtCctcttgctcctgctggcttt	3	12	9	17	3	1	0	0	0	1	0	4	1	4	0	5	1	4	3	5	1	1	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr14:101193435C>T	uc001yhs.3	+	1	183	c.30C>T	c.(28-30)GTC>GTT	p.V10V	DLK1_uc001yhu.3_Silent_p.V10V	NM_003836	NP_003827	P80370	DLK1_HUMAN	delta-like 1 homolog precursor	10					multicellular organismal development	extracellular space|integral to membrane|soluble fraction				ovary(2)|breast(1)|skin(1)	4		Melanoma(154;0.155)				TCCTGCGCGTCCTCTTGCTCC	0.706													6	11					0	0	0.02938	0	0		T	101193435	T	T	101193435	2	4	159	1	0	0	0	0	0	0	0	1	4570	842	30	4		4	DLK1	14	101193435	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08	8722307	101193435	6156105	62	87250											
TTBK2	146057	broad.mit.edu	37	chr15	43067923	43067923	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgcattttctccaggcTtaaggaaatggaaagaagtt	12	14	9	6	0	2	1	0	0	2	1	3	3	2	3	1	3	1	3	1	3	4	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr15:43067923T>C	uc001zqo.2	-	13	1849	c.1410_splice	c.e13-1	p.C470_splice	TTBK2_uc010bcy.2_Splice_Site_p.C401_splice	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2						cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		TTCTCCAGGCTTAAGGAAATG	0.393													29	62					0	0	0.030593	0	0		C	43067923	C	C	43067923	5	2	159	1	0	0	0	0	0	0	1	0	16703	1623	56	3	2338	3	TTBK2	15	43067923	Splice_Site	SNP	T	TCGA-CG-5732-01A-11D-1600-08		43067923	59463469	63	87251											
FBN1	2200	broad.mit.edu	37	chr15	48788332	48788332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatcaggtttgtagataaatCccttggggcaggtacagaca	12	10	12	7	0	1	2	1	0	0	2	2	3	2	2	1	4	1	4	1	4	4	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr15:48788332C>T	uc001zwx.1	-	20	2712	c.2384G>A	c.(2383-2385)GGA>GAA	p.G795E		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	795	EGF-like 12; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GTAGATAAATCCCTTGGGGCA	0.358													11	167					0	0	0.080935	0	0		T	48788332	T	T	48788332	3	4	159	1	0	0	0	0	1	0	0	0	5716	855	30	4	6419	4	FBN1	15	48788332	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	5720409	48788332	53743060	64	87252											
AEN	64782	broad.mit.edu	37	chr15	89172456	89172456	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gactcctctttctgctcacaGatccttaagctcctgaaggg	8	12	8	13	0	3	2	1	1	2	1	6	3	6	2	3	1	2	2	3	1	2	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr15:89172456G>C	uc002bmt.2	+	3	692	c.541_splice	c.e3-1	p.I181_splice	AEN_uc010bnm.1_Splice_Site_p.I181_splice	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene						apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						TCTGCTCACAGATCCTTAAGC	0.602													5	210					0	0	0.038147	0	0		C	89172456	C	C	89172456	5	2	159	1	0	0	0	0	0	0	1	0	351	956	33	5	546	5	AEN	15	89172456	Splice_Site	SNP	G	TCGA-CG-5732-01A-11D-1600-08	40384124	89172456	13358936	65	87253											
PPL	5493	broad.mit.edu	37	chr16	4934484	4934484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgcgccggcgctgcagcCgccgcagctctgcccgcagc	3	4	15	19	7	1	0	0	0	1	0	1	0	1	0	4	2	6	5	4	2	0	0			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr16:4934484C>T	uc002cyd.1	-	22	4262	c.4172G>A	c.(4171-4173)CGG>CAG	p.R1391Q		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1391	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						GCGCTGCAGCCGCCGCAGCTC	0.706													20	58					0	0	0.11126	0	0		T	4934484	T	T	4934484	3	4	159	1	0	0	0	0	1	0	0	0	12356	652	23	1	1102	1	PPL	16	4934484	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08		4934484	85420269	66	87254											
ERN2	10595	broad.mit.edu	37	chr16	23706580	23706580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggaactggggtccccgctCggtgcagaagtagcggagca	8	6	17	10	3	0	1	0	0	0	1	2	3	1	3	2	5	4	4	2	5	3	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr16:23706580C>T	uc002dma.3	-	15	2054	c.1885G>A	c.(1885-1887)GAG>AAG	p.E629K	ERN2_uc010bxp.2_Missense_Mutation_p.E577K	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	581	Protein kinase.|Cytoplasmic (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity	p.E580*(1)		large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		GGTCCCCGCTCGGTGCAGAAG	0.632													12	53					0	0	0.020292	0	0		T	23706580	T	T	23706580	3	4	159	1	0	0	0	0	1	0	0	0	5246	893	31	1	1071	1	ERN2	16	23706580	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	18772096	23706580	66648173	67	87255											
TP53	7157	broad.mit.edu	37	chr17	7577594	7577595	+	Frame_Shift_Del	DEL	AC	-	-																															tagttgtagtggatggtggtAcagtcagagccaacctagga																										TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr17:7577594_7577595delAC	uc002gim.2	-	7	880_881	c.686_687delGT	c.(685-687)TGTfs	p.C229fs	TP53_uc002gig.1_Frame_Shift_Del_p.C229fs|TP53_uc002gih.2_Frame_Shift_Del_p.C229fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.C97fs|TP53_uc010cng.1_Frame_Shift_Del_p.C97fs|TP53_uc002gii.1_Frame_Shift_Del_p.C97fs|TP53_uc010cnh.1_Frame_Shift_Del_p.C229fs|TP53_uc010cni.1_Frame_Shift_Del_p.C229fs|TP53_uc002gij.2_Frame_Shift_Del_p.C229fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.C136fs|TP53_uc002gio.2_Frame_Shift_Del_p.C97fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	229	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		C -> Y (in sporadic cancers; somatic mutation).|C -> G (in a sporadic cancer; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C229fs*10(10)|p.0?(7)|p.C229*(3)|p.C229S(2)|p.C229R(2)|p.C229Y(2)|p.C229_H233delCTTIH(2)|p.T230fs*9(1)|p.C229fs*1(1)|p.C229fs*18(1)|p.C229_T230insX(1)|p.C229C(1)|p.V225fs*23(1)|p.D228fs*12(1)|p.C229G(1)|p.C229_I232del(1)|p.S227_I232delSDCTTI(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGATGGTGGTACAGTCAGAGCC	0.525		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			21	27	---	---	---	---						.	-	7577595	-	-	7577594	7	5	159	1	0	1	0	1	0	0	0	0	16407	389	14	0	603	0	TP53	17	7577594	Frame_Shift_Del	DEL	AC	TCGA-CG-5732-01A-11D-1600-08		7577594	73617616	68	87256											
STAT5B	6777	broad.mit.edu	37	chr17	40375558	40375558	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	acatggcatcagcaaggcttCcagctggagagctaccctgg	10	7	12	12	0	1	1	1	0	0	1	2	2	2	1	2	4	4	5	2	4	2	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr17:40375558C>G	uc002hzh.2	-	5	561	c.392G>C	c.(391-393)GGA>GCA	p.G131A	STAT5B_uc002hzi.3_Missense_Mutation_p.G131A	NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	131					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		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)	AGCAAGGCTTCCAGCTGGAGA	0.542													3	73					0	0	0.004672	0	0		G	40375558	G	G	40375558	3	3	159	1	0	0	0	0	1	0	0	0	15294	855	30	5	2031	5	STAT5B	17	40375558	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	32797964	40375558	40819652	69	87257											
CCDC47	57003	broad.mit.edu	37	chr17	61830101	61830101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggacccagaatacttacCattaaatgtaaacaacagtg	19	8	6	8	0	0	1	0	0	0	1	0	2	0	2	2	1	4	1	2	1	9	4			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr17:61830101C>T	uc002jbs.3	-	10	1429	c.1093G>A	c.(1093-1095)GTG>ATG	p.V365M	CCDC47_uc010ddx.2_Missense_Mutation_p.V365M|CCDC47_uc002jbt.2_Missense_Mutation_p.V365M	NM_020198	NP_064583	Q96A33	CCD47_HUMAN	coiled-coil domain containing 47 precursor	365						integral to membrane	protein binding				0						GAATACTTACCATTAAATGTA	0.373											OREG0031500	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	8	254					0	0	0.038147	0	0		T	61830101	T	T	61830101	3	4	159	1	0	0	0	0	1	0	0	0	2821	608	21	4	374	4	CCDC47	17	61830101	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	21454543	61830101	19365109	70	87258											
ABCA8	10351	broad.mit.edu	37	chr17	66899633	66899633	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttgtacttctcccaaaatAgcaatgtctgcaaaacataa	15	11	5	10	0	2	0	0	0	2	0	3	0	2	0	1	0	4	4	1	0	8	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr17:66899633A>G	uc002jhp.2	-	18	2465	c.2286T>C	c.(2284-2286)GCT>GCC	p.A762A	ABCA8_uc002jhq.2_Silent_p.A802A|ABCA8_uc010wqq.1_Silent_p.A802A|ABCA8_uc010wqr.1_Silent_p.A741A|ABCA8_uc002jhr.2_Silent_p.A802A	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	762						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CTCCCAAAATAGCAATGTCTG	0.388													5	142					0	0	0.014758	0	0		G	66899633	G	G	66899633	2	3	159	1	0	0	0	0	0	0	0	1	38	407	15	3		3	ABCA8	17	66899633	Silent	SNP	A	TCGA-CG-5732-01A-11D-1600-08	5069532	66899633	14295577	71	87259											
SERPINB8	5271	broad.mit.edu	37	chr18	61649024	61649024	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctttgctgaagacactGaagagtgcaggaagcatata	13	10	11	7	0	0	4	0	2	0	2	1	5	1	5	1	1	3	3	1	1	5	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr18:61649024G>T	uc002ljv.2	+	4	545	c.376G>T	c.(376-378)GAA>TAA	p.E126*	SERPINB8_uc002ljs.1_Nonsense_Mutation_p.E126*|SERPINB8_uc002ljt.2_Nonsense_Mutation_p.E126*|SERPINB8_uc002lju.2_Nonsense_Mutation_p.E126*|SERPINB8_uc010xex.1_5'UTR	NM_198833	NP_942130	P50452	SPB8_HUMAN	serine (or cysteine) proteinase inhibitor, clade	126					regulation of proteolysis	cytosol	protein binding|serine-type endopeptidase inhibitor activity			skin(1)	1		Esophageal squamous(42;0.129)				TGAAGACACTGAAGAGTGCAG	0.418													85	189					1.68136e-41	1.91895e-41	0.048971	1	0		T	61649024	T	T	61649024	4	4	159	1	0	0	0	0	0	1	0	0	14132	1291	45	5	386	5	SERPINB8	18	61649024	Nonsense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08		61649024	16428224	72	87260											
DPF1	8193	broad.mit.edu	37	chr19	38709248	38709248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttcttcctcctgggaatgtCatcctccaagtcttccacct	6	14	6	15	0	3	0	1	0	2	0	8	1	8	1	6	1	0	1	6	1	2	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr19:38709248C>T	uc002ohl.2	-	5	589	c.562G>A	c.(562-564)GAC>AAC	p.D188N	DPF1_uc002ohm.2_Missense_Mutation_p.D188N|DPF1_uc002ohn.2_Missense_Mutation_p.D106N|DPF1_uc010xtu.1_Missense_Mutation_p.D162N|DPF1_uc010xtv.1_Missense_Mutation_p.D162N|DPF1_uc010xtw.1_Missense_Mutation_p.D162N	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	188					induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CTGGGAATGTCATCCTCCAAG	0.478													61	76					0	0	0.048971	0	0		T	38709248	T	T	38709248	3	4	159	1	0	0	0	0	1	0	0	0	4722	826	29	4	744	4	DPF1	19	38709248	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08		38709248	20419735	73	87261											
TRPM4	54795	broad.mit.edu	37	chr19	49671854	49671854	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tggcgcggtgacccggaggaCggggtccagtttcccctgga	5	7	17	12	4	0	1	0	1	0	0	2	4	2	4	4	7	0	1	4	7	0	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr19:49671854C>T	uc002pmw.2	+	6	729	c.657C>T	c.(655-657)GAC>GAT	p.D219D	TRPM4_uc010emu.2_Silent_p.D219D|TRPM4_uc010yak.1_Translation_Start_Site|TRPM4_uc002pmx.2_Silent_p.D45D|TRPM4_uc010emv.2_Silent_p.D104D|TRPM4_uc010yal.1_Translation_Start_Site	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	219	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		ACCCGGAGGACGGGGTCCAGT	0.562													3	47					0	0	0.004672	0	0		T	49671854	T	T	49671854	2	4	159	1	0	0	0	0	0	0	0	1	16614	535	19	1		1	TRPM4	19	49671854	Silent	SNP	C	TCGA-CG-5732-01A-11D-1600-08	10962606	49671854	9457129	74	87262											
TSHZ2	128553	broad.mit.edu	37	chr20	51872060	51872060	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcgccaaccacgccccggCcctgccatgcatcaacccac	8	4	6	23	3	1	0	1	0	0	0	2	0	1	0	8	1	4	1	8	1	2	0			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr20:51872060C>A	uc002xwo.2	+	2	3019	c.2063C>A	c.(2062-2064)GCC>GAC	p.A688D		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	688					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CACGCCCCGGCCCTGCCATGC	0.632													9	120					0.00621372	0.00639647	0.058154	1	0		A	51872060	A	A	51872060	3	1	159	1	0	0	0	0	1	0	0	0	16650	739	26	5	2069	5	TSHZ2	20	51872060	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08		51872060	11153460	75	87263											
TIAM1	7074	broad.mit.edu	37	chr21	32617948	32617948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctatcccagacctgccGtcgctctcgtagaaaaatag	10	10	9	12	3	2	2	0	0	2	2	5	2	3	2	3	1	1	2	3	1	5	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr21:32617948G>A	uc002yow.1	-	7	1912	c.1440C>T	c.(1438-1440)GAC>GAT	p.D480D	TIAM1_uc011adk.1_Silent_p.D480D|TIAM1_uc011adl.1_Silent_p.D480D|TIAM1_uc002yox.1_Silent_p.D88D	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	480	PH 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						CAGACCTGCCGTCGCTCTCGT	0.527													12	24					0	0	0.105934	0	0		A	32617948	A	A	32617948	2	1	159	1	0	0	0	0	0	0	0	1	15915	1136	40	1		1	TIAM1	21	32617948	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08		32617948	15511947	76	87264											
TTC3	7267	broad.mit.edu	37	chr21	38538093	38538093	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acattaaaacaaaagtagaaGaaatttcaaaagcaggggag	22	6	9	4	0	1	2	1	0	0	2	1	3	1	3	0	2	2	2	0	2	9	3			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr21:38538093G>C	uc002yvz.2	+	33	3682	c.3577G>C	c.(3577-3579)GAA>CAA	p.E1193Q	TTC3_uc011aee.1_Missense_Mutation_p.E883Q|TTC3_uc002ywa.2_Missense_Mutation_p.E1193Q|TTC3_uc002ywb.2_Missense_Mutation_p.E1193Q|TTC3_uc010gnf.2_Missense_Mutation_p.E958Q|TTC3_uc002ywc.2_Missense_Mutation_p.E883Q|TTC3_uc002ywd.1_Missense_Mutation_p.E257Q	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	1193					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AAAAGTAGAAGAAATTTCAAA	0.373													23	207					0	0	0.062417	0	0		C	38538093	C	C	38538093	3	2	159	1	0	0	0	0	1	0	0	0	16723	943	33	5	3703	5	TTC3	21	38538093	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	5920145	38538093	9591802	77	87265											
GTPBP1	9567	broad.mit.edu	37	chr22	39122390	39122390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaatccatccatcgcaagcGcatgcctgtcaaggaggtgc	11	7	10	13	2	1	0	1	0	0	0	4	1	3	1	3	2	3	2	3	2	3	0			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chr22:39122390G>A	uc003awg.2	+	8	1500	c.1346G>A	c.(1345-1347)CGC>CAC	p.R449H		NM_004286	NP_004277	O00178	GTPB1_HUMAN	GTP binding protein 1	449					immune response|positive regulation of mRNA catabolic process|signal transduction	cytoplasmic exosome (RNase complex)|cytosol	GTP binding|GTPase activity			ovary(1)	1	Melanoma(58;0.04)					CATCGCAAGCGCATGCCTGTC	0.552													3	55					0	0	0.004672	0	0		A	39122390	A	A	39122390	3	1	159	1	0	0	0	0	1	0	0	0	6894	1087	38	1	1376	1	GTPBP1	22	39122390	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08		39122390	12182176	78	87266											
ASMT	438	broad.mit.edu	37	chrX	1743214	1743214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctgaccacggtcagcccGacgtcacaatgcagcatgct	10	7	9	15	3	2	1	2	1	0	0	2	2	2	1	3	1	5	3	3	1	2	1			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chrX:1743214G>A	uc004cqd.2	+	4	442	c.297G>A	c.(295-297)CCG>CCA	p.P99P	ASMT_uc010ncy.2_Silent_p.P99P|ASMT_uc004cqe.2_Silent_p.P99P	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	99					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGGTCAGCCCGACGTCACAAT	0.567													59	121					0	0	0.048971	0	0		A	1743214	A	A	1743214	2	1	159	1	0	0	0	0	0	0	0	1	1046	1045	37	1		1	ASMT	23	1743214	Silent	SNP	G	TCGA-CG-5732-01A-11D-1600-08		1743214	153527346	79	87267											
HEPH	9843	broad.mit.edu	37	chrX	65476001	65476001	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctgccaaaagggcatcctgGagccccatggaggacggagt	10	6	14	11	1	1	0	0	0	1	0	2	4	2	4	4	5	2	1	4	5	2	0			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chrX:65476001G>T	uc011moz.1	+	17	2794	c.2734G>T	c.(2734-2736)GAG>TAG	p.E912*	HEPH_uc004dwn.2_Nonsense_Mutation_p.E912*|HEPH_uc004dwo.2_Nonsense_Mutation_p.E642*|HEPH_uc010nkr.2_Nonsense_Mutation_p.E720*|HEPH_uc011mpa.1_Nonsense_Mutation_p.E912*|HEPH_uc010nks.2_Nonsense_Mutation_p.E201*	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	909	Extracellular (Potential).				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GGGCATCCTGGAGCCCCATGG	0.483													5	54					5.9392e-07	6.42903e-07	0.021553	1	0		T	65476001	T	T	65476001	4	4	159	1	0	0	0	0	0	1	0	0	7070	1175	41	5	2953	5	HEPH	23	65476001	Nonsense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	63732787	65476001	89794559	80	87268											
SEPT6	23157	broad.mit.edu	37	chrX	118767373	118767373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttctctttgactcgctggaCgaacatctgtctcatctcct	6	16	6	13	2	4	1	1	1	4	0	8	3	4	2	1	1	1	1	1	1	1	2			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chrX:118767373C>T	uc004erv.2	-	8	1304	c.1039G>A	c.(1039-1041)GTC>ATC	p.V347I	SEPT6_uc010nqk.2_Intron|SEPT6_uc004ers.2_Missense_Mutation_p.V347I|SEPT6_uc004ert.2_Missense_Mutation_p.V347I|SEPT6_uc004eru.2_Missense_Mutation_p.V347I|SEPT6_uc004erw.2_Missense_Mutation_p.V289I|SEPT6_uc011mtv.1_Missense_Mutation_p.V289I|SEPT6_uc011mtw.1_Missense_Mutation_p.V377I	NM_015129	NP_055944	Q14141	SEPT6_HUMAN	septin 6 isoform B	347	Potential.				cell cycle|cytokinesis|interspecies interaction between organisms	cleavage furrow|condensed chromosome kinetochore|midbody|septin complex|spindle	GTP binding|protein binding			lung(1)|ovary(1)|prostate(1)|kidney(1)	4						ACTCGCTGGACGAACATCTGT	0.388													135	187					0	0	0.048971	0	0		T	118767373	T	T	118767373	3	4	159	1	0	0	0	0	1	0	0	0	14093	536	19	1	299	1	SEPT6	23	118767373	Missense_Mutation	SNP	C	TCGA-CG-5732-01A-11D-1600-08	53291372	118767373	36503187	81	87269											
GLUD2	2747	broad.mit.edu	37	chrX	120182259	120182259	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cctggattgctgatacctatGccagcaccatagggcactat	10	10	9	12	0	0	1	0	1	0	0	0	2	0	2	4	2	4	3	4	2	4	5			TCGA-CG-5732-01A-11D-1600-08	TCGA-CG-5732-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	9f9d3009-0ba7-40d5-a7fc-7314d364501e	247876be-3fc0-4bfc-b0c0-a1a9b184879d	g.chrX:120182259G>A	uc004eto.2	+	1	798	c.721G>A	c.(721-723)GCC>ACC	p.A241T		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	241					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGATACCTATGCCAGCACCAT	0.527													19	91					0	0	0.055883	0	0		A	120182259	A	A	120182259	3	1	159	1	0	0	0	0	1	0	0	0	6492	1319	46	2	723	2	GLUD2	23	120182259	Missense_Mutation	SNP	G	TCGA-CG-5732-01A-11D-1600-08	1414886	120182259	35088301	82	87270											
SCNN1D	6339	broad.mit.edu	37	chr1	1225650	1225650	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcatcccccctgtccccaGgcctgcctggtgtcctgctt	2	11	9	19	0	1	0	1	0	0	0	4	0	4	0	8	2	2	2	8	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:1225650G>T	uc001adu.1	+	12	1795	c.1171_splice	c.e12-1	p.A391_splice	SCNN1D_uc001adt.1_Splice_Site_p.A555_splice|SCNN1D_uc001adw.2_Splice_Site_p.A457_splice|SCNN1D_uc001adx.2_Splice_Site_p.A180_splice|SCNN1D_uc001adv.2_Splice_Site_p.A391_splice	NM_002978	NP_002969			sodium channel, nonvoltage-gated 1, delta												0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		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)		CCTGTCCCCAGGCCTGCCTGG	0.522													12	25					9.31168e-06	9.76997e-06	0.001855	1	0		T	1225650	T	T	1225650	5	4	160	1	0	0	0	0	0	0	1	0	13954	1014	35	5	1406	5	SCNN1D	1	1225650	Splice_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08		1225650	248024971	1	87271											
GLTPD1	80772	broad.mit.edu	37	chr1	1262694	1262694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagctgcggatcatggagCgcctcaggggcggcccgcag	7	4	16	14	4	2	0	2	0	0	0	2	2	2	2	3	5	3	2	3	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:1262694C>T	uc001aeo.2	+	3	611	c.196C>T	c.(196-198)CGC>TGC	p.R66C	CPSF3L_uc001aee.1_5'Flank|CPSF3L_uc001aef.1_5'Flank|CPSF3L_uc009vjz.1_5'Flank|CPSF3L_uc010nyj.1_5'Flank|CPSF3L_uc001aeg.1_5'Flank|CPSF3L_uc001aeh.1_5'Flank|CPSF3L_uc001aei.1_5'Flank|CPSF3L_uc001aej.1_5'Flank|CPSF3L_uc001aek.1_5'Flank|CPSF3L_uc001aem.1_5'Flank|CPSF3L_uc001ael.1_5'Flank|CPSF3L_uc001aen.1_5'Flank	NM_001029885	NP_001025056	Q5TA50	GLTD1_HUMAN	glycolipid transfer protein domain containing 1	66						cytoplasm	glycolipid binding|glycolipid transporter activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;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;4.95e-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;0.199)		GATCATGGAGCGCCTCAGGGG	0.657													11	24					0	0	0.010729	0	0		T	1262694	T	T	1262694	3	4	160	1	0	0	0	0	1	0	0	0	6487	768	27	1	202	1	GLTPD1	1	1262694	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	37044	1262694	247987927	2	87272											
MIB2	142678	broad.mit.edu	37	chr1	1560532	1560532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgggcgaggcagcgggcGgcttctactacaaggaccac	8	6	16	11	3	1	0	0	0	1	0	1	2	1	1	1	5	3	2	1	5	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:1560532G>A	uc001agg.2	+	6	989	c.862G>A	c.(862-864)GGC>AGC	p.G288S	MIB2_uc001agh.2_Missense_Mutation_p.G274S|MIB2_uc001agi.2_Missense_Mutation_p.G288S|MIB2_uc001agj.2_Missense_Mutation_p.G129S|MIB2_uc001agk.2_Intron|MIB2_uc001agl.1_Missense_Mutation_p.G244S|MIB2_uc001agm.2_Intron|MIB2_uc010nyq.1_Missense_Mutation_p.G244S|MIB2_uc009vkh.2_Missense_Mutation_p.G129S|MIB2_uc001agn.2_5'UTR	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	288					Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-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;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGCAGCGGGCGGCTTCTACTA	0.627													26	56					0	0	0.00632	0	0		A	1560532	A	A	1560532	3	1	160	1	0	0	0	0	1	0	0	0	9585	1116	39	1	1055	1	MIB2	1	1560532	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	297838	1560532	247690089	3	87273											
SKI	6497	broad.mit.edu	37	chr1	2234480	2234480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacctcttcccagtcccccGcgccttccgaaaaggacaag	10	6	7	18	3	1	0	0	0	1	0	4	2	4	1	6	1	0	0	6	1	3	2	rs150934009		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:2234480G>A	uc001aja.3	+	2	1105	c.1033G>A	c.(1033-1035)GCG>ACG	p.A345T		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	345					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	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)		CCAGTCCCCCGCGCCTTCCGA	0.597													31	60					0	0	0.004289	0	0		A	2234480	A	A	2234480	3	1	160	1	0	0	0	0	1	0	0	0	14382	1087	38	1	1039	1	SKI	1	2234480	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	673948	2234480	247016141	4	87274											
CCDC27	148870	broad.mit.edu	37	chr1	3688087	3688087	+	Nonstop_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaaggggacctccaagtaGgcccagccaggcccccaaat	13	3	11	14	0	0	1	0	0	0	1	1	2	1	2	6	4	1	1	6	4	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:3688087G>T	uc001akv.2	+	12	2052	c.1971G>T	c.(1969-1971)TAG>TAT	p.*657Y	LOC388588_uc001akw.3_5'Flank	NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	657										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CCTCCAAGTAGGCCCAGCCAG	0.597													18	61					1.56452e-12	1.68552e-12	0.007413	1	0		T	3688087	T	T	3688087	4	4	160	1	0	0	0	0	0	0	0	0	2804	995	35	5	2017	5	CCDC27	1	3688087	Nonstop_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1453607	3688087	245562534	5	87275											
ACOT7	11332	broad.mit.edu	37	chr1	6393549	6393549	+	Silent	SNP	C	T	T	0	0	0	1	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	caccttaccacaacaggaggCacctcgaggaccttgtccac	11	6	8	16	1	0	0	0	0	0	0	2	3	1	2	5	3	2	1	5	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:6393549C>T	uc001ams.2	-	4	685	c.528G>A	c.(526-528)GTG>GTA	p.V176V	ACOT7_uc010nzq.1_Silent_p.V61V|ACOT7_uc001amt.2_Silent_p.V166V|ACOT7_uc001amu.2_RNA|ACOT7_uc001amv.2_RNA|ACOT7_uc001amq.2_Silent_p.V125V|ACOT7_uc001amr.2_Silent_p.V146V	NM_181864	NP_863654	O00154	BACH_HUMAN	acyl-CoA thioesterase 7 isoform hBACHb	176						mitochondrion|nucleus	carboxylesterase activity|fatty-acyl-CoA binding|palmitoyl-CoA hydrolase activity				0	Ovarian(185;0.0634)|all_lung(157;0.175)	all_cancers(23;1.42e-38)|all_epithelial(116;3.96e-23)|all_lung(118;3.69e-08)|Lung NSC(185;8.52e-07)|all_hematologic(16;6.92e-06)|Colorectal(325;4.53e-05)|Acute lymphoblastic leukemia(12;5e-05)|all_neural(13;0.000164)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0393)|Medulloblastoma(700;0.211)		Epithelial(90;9.16e-37)|GBM - Glioblastoma multiforme(13;5.89e-29)|OV - Ovarian serous cystadenocarcinoma(86;7.63e-19)|Colorectal(212;1.27e-07)|COAD - Colon adenocarcinoma(227;2.06e-05)|Kidney(185;7.74e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00129)|BRCA - Breast invasive adenocarcinoma(365;0.00132)|STAD - Stomach adenocarcinoma(132;0.00195)|READ - Rectum adenocarcinoma(331;0.0481)		CAACAGGAGGCACCTCGAGGA	0.522													12	43					0	0	0.00245	0	0		T	6393549	T	T	6393549	2	4	160	1	0	0	0	0	0	0	0	1	155	697	25	2		2	ACOT7	1	6393549	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2705462	6393549	242857072	6	87276											
TAS1R1	80835	broad.mit.edu	37	chr1	6639380	6639380	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgggtaaggacttgccagaGaactacaacgaggccaaatg	14	6	12	9	1	0	1	0	0	0	1	0	4	0	2	2	3	4	1	2	3	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:6639380G>A	uc001ant.2	+	6	2262	c.2262G>A	c.(2260-2262)GAG>GAA	p.E754E	TAS1R1_uc001anu.2_Silent_p.E500E|TAS1R1_uc001anv.2_Missense_Mutation_p.R286K|TAS1R1_uc001anw.2_3'UTR|ZBTB48_uc009vmc.1_5'Flank|ZBTB48_uc001anx.2_5'Flank|ZBTB48_uc009vmd.1_5'Flank	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	754	Cytoplasmic (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	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)		ACTTGCCAGAGAACTACAACG	0.557													24	63					0	0	0.003954	0	0		A	6639380	A	A	6639380	2	1	160	1	0	0	0	0	0	0	0	1	15587	942	33	4		4	TAS1R1	1	6639380	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	245831	6639380	242611241	7	87277											
SLC45A1	50651	broad.mit.edu	37	chr1	8390958	8390958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccggaggagggggtcccGaaaccagcaggagaaggaat	13	2	17	9	2	0	1	0	0	0	1	1	6	1	4	3	6	3	1	3	6	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:8390958G>A	uc001apb.2	+	4	1405	c.1405G>A	c.(1405-1407)GAA>AAA	p.E469K	SLC45A1_uc001apc.2_Missense_Mutation_p.E167K	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	469					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		AGGGGGTCCCGAAACCAGCAG	0.612													31	63					0	0	0.003271	0	0		A	8390958	A	A	8390958	3	1	160	1	0	0	0	0	1	0	0	0	14665	1059	37	1	1419	1	SLC45A1	1	8390958	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1751578	8390958	240859663	8	87278											
UBE4B	10277	broad.mit.edu	37	chr1	10231281	10231281	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtgacctgaaagttgaaaAccctgagaaatacggctttg	13	9	10	9	2	0	4	0	4	0	1	0	5	0	4	3	1	2	2	3	1	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:10231281A>C	uc001aqs.3	+	25	4132	c.3419A>C	c.(3418-3420)AAC>ACC	p.N1140T	UBE4B_uc001aqr.3_Missense_Mutation_p.N1011T|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Missense_Mutation_p.N595T|UBE4B_uc001aqu.2_Missense_Mutation_p.N21T	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	1140					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		AAAGTTGAAAACCCTGAGAAA	0.488													71	172					0	0	0.01441	0	0		C	10231281	C	C	10231281	3	2	160	1	0	0	0	0	1	0	0	0	16909	43	2	5	3517	5	UBE4B	1	10231281	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1840323	10231281	239019340	9	87279											
PTCHD2	57540	broad.mit.edu	37	chr1	11596562	11596562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcgtgtccatcctctacaCgctgaccgtcagcaccgccc	6	7	10	18	4	2	1	1	1	1	0	4	1	4	1	5	1	2	2	5	1	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:11596562C>T	uc001ash.3	+	21	4136	c.3998C>T	c.(3997-3999)ACG>ATG	p.T1333M		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1333	Helical; (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		ATCCTCTACACGCTGACCGTC	0.617													18	36					0	0	0.008871	0	0		T	11596562	T	T	11596562	3	4	160	1	0	0	0	0	1	0	0	0	12755	536	19	1	4076	1	PTCHD2	1	11596562	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1365281	11596562	237654059	10	87280											
PRAMEF8	391002	broad.mit.edu	37	chr1	12979762	12979762	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctctcttggtgcccgagcatCcgtcaattaaaggagctgga	9	10	11	11	2	2	0	1	0	1	0	4	3	3	2	2	3	3	2	2	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:12979762C>T	uc001aup.2	+	4	1037	c.954C>T	c.(952-954)ATC>ATT	p.I318I		NM_001012276	NP_001012276	Q5VWM4	PRAM8_HUMAN	PRAME family member 8	318	LRR 1.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCCCGAGCATCCGTCAATTAA	0.582													43	123					0	0	0.01441	0	0		T	12979762	T	T	12979762	2	4	160	1	0	0	0	0	0	0	0	1	12462	845	30	4		4	PRAMEF8	1	12979762	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1383200	12979762	236270859	11	87281											
SPEN	23013	broad.mit.edu	37	chr1	16263839	16263839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgggagtagagcagcctcGcctcccagctggacctgcaa	9	5	13	14	2	0	1	0	0	0	1	2	4	1	3	4	2	4	4	4	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:16263839G>A	uc001axk.1	+	12	10412	c.10208G>A	c.(10207-10209)CGC>CAC	p.R3403H	SPEN_uc010obp.1_Missense_Mutation_p.R3362H	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3403	Pro-rich.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		GAGCAGCCTCGCCTCCCAGCT	0.647													9	38					0	0	0.006214	0	0		A	16263839	A	A	16263839	3	1	160	1	0	0	0	0	1	0	0	0	15063	1087	38	1	10254	1	SPEN	1	16263839	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3284077	16263839	232986782	12	87282											
EPHA2	1969	broad.mit.edu	37	chr1	16458607	16458607	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctccagcacgcgggacagGccaaagtcagacaccttgca	11	5	10	15	2	1	1	1	0	0	1	3	2	3	2	4	2	2	2	4	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:16458607G>A	uc001aya.1	-	13	2414	c.2277C>T	c.(2275-2277)GGC>GGT	p.G759G		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	759	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	CGCGGGACAGGCCAAAGTCAG	0.602													32	89					0	0	0.003755	0	0		A	16458607	A	A	16458607	2	1	160	1	0	0	0	0	0	0	0	1	5175	1190	42	2		2	EPHA2	1	16458607	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	194768	16458607	232792014	13	87283											
NBPF1	55672	broad.mit.edu	37	chr1	16893734	16893734	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtaaaaggcacttctgtAgggctggcatgagtcagtca	11	11	12	7	0	3	1	2	1	1	0	3	1	3	1	0	3	0	5	0	3	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:16893734A>G	uc009vos.1	-	26	3892	c.3004T>C	c.(3004-3006)TAC>CAC	p.Y1002H	NBPF1_uc009vot.1_Missense_Mutation_p.Y385H|NBPF1_uc001ayz.1_Missense_Mutation_p.Y385H|NBPF1_uc010oce.1_Missense_Mutation_p.Y656H	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	1002	NBPF 6.					cytoplasm					0				UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.52e-06)|COAD - Colon adenocarcinoma(227;1.05e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.179)		GCACTTCTGTAGGGCTGGCAT	0.473													20	928					0	0	0.001855	0	0		G	16893734	G	G	16893734	3	3	160	1	0	0	0	0	1	0	0	0	10210	420	15	3	665	3	NBPF1	1	16893734	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	435127	16893734	232356887	14	87284											
ATP13A2	23400	broad.mit.edu	37	chr1	17331307	17331307	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tctgcctgggactgtggggaCggctccaggctggggaagca	6	7	18	10	1	1	0	0	0	1	0	2	3	2	3	2	7	2	3	2	7	1	0	rs141777915		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:17331307C>T	uc001baa.2	-	5	547	c.357G>A	c.(355-357)CCG>CCA	p.P119P	ATP13A2_uc001bab.2_Silent_p.P119P|ATP13A2_uc001bac.2_Silent_p.P119P	NM_022089	NP_071372	Q9NQ11	AT132_HUMAN	ATPase type 13A2 isoform 1	119	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;0.000147)|Breast(348;0.00104)|Renal(390;0.00145)|Lung NSC(340;0.00566)|all_lung(284;0.00797)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|COAD - Colon adenocarcinoma(227;1.11e-05)|BRCA - Breast invasive adenocarcinoma(304;1.99e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00645)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.182)		ACTGTGGGGACGGCTCCAGGC	0.662													26	88					0	0	0.010818	0	0		T	17331307	T	T	17331307	2	4	160	1	0	0	0	0	0	0	0	1	1125	523	19	1		1	ATP13A2	1	17331307	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	437573	17331307	231919314	15	87285											
UBR4	23352	broad.mit.edu	37	chr1	19431150	19431150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcctccagggccagcagaCgagctatttcctaaacagga	11	7	9	14	1	0	1	0	0	0	1	3	3	3	2	5	2	3	2	5	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:19431150C>T	uc001bbi.2	-	86	12660	c.12656G>A	c.(12655-12657)CGT>CAT	p.R4219H	UBR4_uc001bbg.2_5'UTR|UBR4_uc001bbh.2_5'UTR	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	4219					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GGCCAGCAGACGAGCTATTTC	0.527													11	23					0	0	0.010729	0	0		T	19431150	T	T	19431150	3	4	160	1	0	0	0	0	1	0	0	0	16930	536	19	1	2979	1	UBR4	1	19431150	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2099843	19431150	229819471	16	87286											
UBR4	23352	broad.mit.edu	37	chr1	19481550	19481550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggacacaccaccgcccGccacctggctgttactgtcc	8	6	8	19	3	0	0	0	0	0	0	1	1	1	1	6	2	1	2	6	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:19481550G>A	uc001bbi.2	-	44	6324	c.6320C>T	c.(6319-6321)GCG>GTG	p.A2107V	UBR4_uc001bbl.1_Missense_Mutation_p.A44V|UBR4_uc001bbm.1_Missense_Mutation_p.A1319V	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2107					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		ACCACCGCCCGCCACCTGGCT	0.483													55	110					0	0	0.01441	0	0		A	19481550	A	A	19481550	3	1	160	1	0	0	0	0	1	0	0	0	16930	1087	38	1	9483	1	UBR4	1	19481550	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	50400	19481550	229769071	17	87287											
KIAA0090	23065	broad.mit.edu	37	chr1	19553887	19553887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgtttccccttcaccttgaCgatccgctgtacttctgggg	4	13	10	14	3	2	1	1	1	1	0	4	2	4	1	4	2	1	3	4	2	1	5	rs139714938		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:19553887C>T	uc001bbo.2	-	18	2165	c.2122G>A	c.(2122-2124)GTC>ATC	p.V708I	KIAA0090_uc001bbp.2_Missense_Mutation_p.V707I|KIAA0090_uc001bbq.2_Missense_Mutation_p.V707I|KIAA0090_uc001bbr.2_Missense_Mutation_p.V686I	NM_015047	NP_055862	Q8N766	K0090_HUMAN	hypothetical protein LOC23065 precursor	708	Extracellular (Potential).					integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)		TTCACCTTGACGATCCGCTGT	0.557													19	50					0	0	0.006122	0	0		T	19553887	T	T	19553887	3	4	160	1	0	0	0	0	1	0	0	0	8169	536	19	1	883	1	KIAA0090	1	19553887	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	72337	19553887	229696734	18	87288											
DDOST	1650	broad.mit.edu	37	chr1	20987835	20987835	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcccgggccgcggtgctGggctccatcttcctcctcct	3	9	11	18	3	1	0	0	0	1	0	5	0	5	0	6	3	2	2	6	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:20987835G>A	uc001bdo.1	-	1	203	c.60C>T	c.(58-60)CCC>CCT	p.P20P	DDOST_uc009vpw.1_Silent_p.P20P|DDOST_uc010odd.1_5'UTR|DDOST_uc010ode.1_Silent_p.P20P	NM_005216	NP_005207	P39656	OST48_HUMAN	dolichyl-diphosphooligosaccharide-protein	20					innate immune response|post-translational protein modification|response to cytokine stimulus|T cell activation	integral to membrane|microsome|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0		all_lung(284;2.98e-05)|Lung NSC(340;3.25e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|COAD - Colon adenocarcinoma(152;1.17e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000141)|Kidney(64;0.000177)|GBM - Glioblastoma multiforme(114;0.00046)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCGCGGTGCTGGGCTCCATCT	0.662											OREG0013196	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	12					0	0	0.000602	0	0		A	20987835	A	A	20987835	2	1	160	1	0	0	0	0	0	0	0	1	4338	1335	47	4		4	DDOST	1	20987835	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1433948	20987835	228262786	19	87289											
EIF4G3	8672	broad.mit.edu	37	chr1	21220047	21220047	+	Missense_Mutation	SNP	T	C	C	0	1	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	caggtgtctgccttccaaaaTcagcaaaggctggtgtaaag	12	9	11	9	0	2	0	1	0	1	0	3	0	3	0	2	3	2	3	2	3	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:21220047T>C	uc001bec.2	-	13	2304	c.2048A>G	c.(2047-2049)GAT>GGT	p.D683G	EIF4G3_uc010odi.1_Missense_Mutation_p.D287G|EIF4G3_uc010odj.1_Missense_Mutation_p.D682G|EIF4G3_uc009vpz.2_Missense_Mutation_p.D403G|EIF4G3_uc001bed.2_Missense_Mutation_p.D683G|EIF4G3_uc001bef.2_Missense_Mutation_p.D682G|EIF4G3_uc001bee.2_Missense_Mutation_p.D689G	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	683					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity			skin(1)	1		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)		CCTTCCAAAATCAGCAAAGGC	0.468													5	141					0	0	0.000602	0	0		C	21220047	C	C	21220047	3	2	160	1	0	0	0	0	1	0	0	0	5046	1435	50	3	2789	3	EIF4G3	1	21220047	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	232212	21220047	228030574	20	87290											
ECE1	1889	broad.mit.edu	37	chr1	21554468	21554468	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcctgcaggatcccggcCggaaacacaatctcattctt	9	9	10	13	2	2	0	1	0	2	0	4	2	3	2	3	4	3	1	3	4	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:21554468C>T	uc001bek.2	-	15	1812	c.1737G>A	c.(1735-1737)CCG>CCA	p.P579P	ECE1_uc001bem.2_Silent_p.P563P|ECE1_uc001bej.2_Silent_p.P567P|ECE1_uc001bei.2_Silent_p.P576P|ECE1_uc010odl.1_Silent_p.P579P	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	579	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		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)		GGATCCCGGCCGGAAACACAA	0.607													2	4					0	0	0.004672	0	0		T	21554468	T	T	21554468	2	4	160	1	0	0	0	0	0	0	0	1	4895	639	23	1		1	ECE1	1	21554468	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	334421	21554468	227696153	21	87291											
EPHB2	2048	broad.mit.edu	37	chr1	23111124	23111124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgaggctgactttgactcGgccaccaagaccttccccaa	10	9	8	14	1	0	4	0	3	0	1	2	4	1	4	5	2	0	1	5	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:23111124G>A	uc009vqj.1	+	3	511	c.366G>A	c.(364-366)TCG>TCA	p.S122S	EPHB2_uc001bge.2_Silent_p.S122S|EPHB2_uc001bgf.2_Silent_p.S122S|EPHB2_uc010odu.1_Silent_p.S122S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	122	Extracellular (Potential).				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		ACTTTGACTCGGCCACCAAGA	0.572									Hereditary_Prostate_Cancer				15	26					0	0	0.00245	0	0		A	23111124	A	A	23111124	2	1	160	1	0	0	0	0	0	0	0	1	5183	1103	39	1		1	EPHB2	1	23111124	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1556656	23111124	226139497	22	87292											
LUZP1	7798	broad.mit.edu	37	chr1	23419547	23419547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagagcaaactccctgttcCggagtcgttcccgcttatgc	7	11	10	13	3	0	1	0	1	0	1	4	3	3	2	3	1	3	4	3	1	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:23419547C>T	uc001bgk.2	-	4	1592	c.1208G>A	c.(1207-1209)CGG>CAG	p.R403Q	LUZP1_uc010odv.1_Missense_Mutation_p.R403Q|LUZP1_uc001bgl.2_Missense_Mutation_p.R403Q|LUZP1_uc001bgm.1_Missense_Mutation_p.R403Q	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	403						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		CTCCCTGTTCCGGAGTCGTTC	0.507													98	250					0	0	0.01441	0	0		T	23419547	T	T	23419547	3	4	160	1	0	0	0	0	1	0	0	0	9104	652	23	1	2030	1	LUZP1	1	23419547	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	308423	23419547	225831074	23	87293											
MYOM3	127294	broad.mit.edu	37	chr1	24406652	24406652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaccagggatgtggcccGcacctcggatgcccgtacat	8	6	12	15	3	0	0	0	0	0	0	1	2	0	2	4	3	3	3	4	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:24406652G>A	uc001bin.3	-	20	2603	c.2440C>T	c.(2440-2442)CGG>TGG	p.R814W	MYOM3_uc001bim.3_Missense_Mutation_p.R471W|MYOM3_uc001bio.2_Missense_Mutation_p.R814W	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	814	Fibronectin type-III 5.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GATGTGGCCCGCACCTCGGAT	0.517													25	70					0	0	0.00333	0	0		A	24406652	A	A	24406652	3	1	160	1	0	0	0	0	1	0	0	0	10111	1086	38	1	1945	1	MYOM3	1	24406652	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	987105	24406652	224843969	24	87294											
GRHL3	57822	broad.mit.edu	37	chr1	24669404	24669404	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagggctgcctgctgtcGggcttcaggggcaatgagac	7	8	16	10	1	2	1	2	1	0	1	3	2	2	1	1	4	2	4	1	4	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:24669404G>A	uc001biy.2	+	11	1369	c.1323G>A	c.(1321-1323)TCG>TCA	p.S441S	GRHL3_uc001bix.2_Silent_p.S436S|GRHL3_uc001biz.2_Silent_p.S343S	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	436					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		GCCTGCTGTCGGGCTTCAGGG	0.617													49	125					0	0	0.01441	0	0		A	24669404	A	A	24669404	2	1	160	1	0	0	0	0	0	0	0	1	6781	1103	39	1		1	GRHL3	1	24669404	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	262752	24669404	224581217	25	87295											
FGR	2268	broad.mit.edu	37	chr1	27943449	27943449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcccatgtccagtttgcGgatcttgtaatgcttcacat	7	13	9	12	2	2	0	1	0	1	0	3	1	3	1	3	1	2	3	3	1	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:27943449G>A	uc001boj.2	-	5	747	c.601C>T	c.(601-603)CGC>TGC	p.R201C	FGR_uc001boi.2_5'Flank|FGR_uc001bok.2_Missense_Mutation_p.R201C|FGR_uc001bol.2_Missense_Mutation_p.R201C|FGR_uc001bom.2_Missense_Mutation_p.R201C	NM_005248	NP_005239	P09769	FGR_HUMAN	proto-oncogene tyrosine-protein kinase FGR	201	SH2.				platelet activation|response to virus	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity			skin(2)	2		all_lung(284;2.05e-05)|Colorectal(325;3.46e-05)|Lung NSC(340;3.67e-05)|Renal(390;0.00121)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.25e-24)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00244)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		TCCAGTTTGCGGATCTTGTAA	0.507													72	163					0	0	0.01441	0	0		A	27943449	A	A	27943449	3	1	160	1	0	0	0	0	1	0	0	0	5888	1116	39	1	1016	1	FGR	1	27943449	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3274045	27943449	221307172	26	87296											
PUM1	9698	broad.mit.edu	37	chr1	31437642	31437642	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagaggaggaaaagctaagGccgttataaaaactgtgtcc	15	7	13	6	1	0	1	0	0	0	1	1	4	1	3	2	4	2	2	2	4	7	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:31437642G>A	uc001bsi.1	-	14	2315	c.2202C>T	c.(2200-2202)GGC>GGT	p.G734G	PUM1_uc001bsf.1_Silent_p.G400G|PUM1_uc001bsg.1_Intron|PUM1_uc001bsh.1_Silent_p.G734G|PUM1_uc001bsj.1_Silent_p.G708G|PUM1_uc010oga.1_Silent_p.G590G|PUM1_uc001bsk.1_Silent_p.G770G|PUM1_uc010ogb.1_Silent_p.G675G	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	734	Ser-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		AAAAGCTAAGGCCGTTATAAA	0.557													85	187					0	0	0.01441	0	0		A	31437642	A	A	31437642	2	1	160	1	0	0	0	0	0	0	0	1	12850	1190	42	2		2	PUM1	1	31437642	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3494193	31437642	217812979	27	87297											
PEF1	553115	broad.mit.edu	37	chr1	32096305	32096305	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgtccttctcccggaaggccTctgtcagcacctgcagctgg	5	10	11	15	1	3	0	1	0	2	0	5	1	4	1	4	3	3	3	4	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:32096305T>G	uc001bth.1	-	5	776	c.764A>C	c.(763-765)GAG>GCG	p.E255A	HCRTR1_uc010ogl.1_Intron|PEF1_uc001bte.1_3'UTR|PEF1_uc001btf.1_Missense_Mutation_p.E94A|PEF1_uc001btg.1_Missense_Mutation_p.E185A	NM_012392	NP_036524	Q9UBV8	PEF1_HUMAN	penta-EF-hand domain containing 1	255	EF-hand 5.|Required for interaction with PDCD6.				response to calcium ion	cytoplasm|membrane	calcium ion binding|protein heterodimerization activity				0		Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)|all_neural(195;0.186)		STAD - Stomach adenocarcinoma(196;0.0546)		CCGGAAGGCCTCTGTCAGCAC	0.582													20	47					0	0	0.008871	0	0		G	32096305	G	G	32096305	3	3	160	1	0	0	0	0	1	0	0	0	11737	1551	54	5	94	5	PEF1	1	32096305	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	658663	32096305	217154316	28	87298											
PSMB2	5690	broad.mit.edu	37	chr1	36074928	36074928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aaaaggggccttggccaaggCtgccaggtagtccatgtaat	11	8	13	9	0	0	0	0	0	0	0	1	0	1	0	4	5	1	3	4	5	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:36074928C>T	uc001bzf.1	-	4	477	c.367G>A	c.(367-369)GCC>ACC	p.A123T	PSMB2_uc001bzd.1_Missense_Mutation_p.A123T|PSMB2_uc010ohz.1_Missense_Mutation_p.A98T|PSMB2_uc001bzg.1_Missense_Mutation_p.A123T	NM_002794	NP_002785	P49721	PSB2_HUMAN	proteasome beta 2 subunit	123					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)			Bortezomib(DB00188)	TTGGCCAAGGCTGCCAGGTAG	0.512													31	60					0	0	0.010818	0	0		T	36074928	T	T	36074928	3	4	160	1	0	0	0	0	1	0	0	0	12699	797	28	2	250	2	PSMB2	1	36074928	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3978623	36074928	213175693	29	87299											
THRAP3	9967	broad.mit.edu	37	chr1	36769406	36769406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcccctcagcatgatgacCgtgaaggcgaaggcagtgac	10	8	12	11	2	1	4	1	4	0	0	2	5	2	4	3	2	1	2	3	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:36769406C>T	uc001cae.3	+	12	2880	c.2656C>T	c.(2656-2658)CGT>TGT	p.R886C	THRAP3_uc001caf.3_Missense_Mutation_p.R886C|C1orf113_uc010oia.1_5'Flank	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	886					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GCATGATGACCGTGAAGGCGA	0.582			T	USP6	aneurysmal bone cysts								30	82					0	0	0.010818	0	0		T	36769406	T	T	36769406	3	4	160	1	0	0	0	0	1	0	0	0	15899	652	23	1	2694	1	THRAP3	1	36769406	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	694478	36769406	212481215	30	87300											
GRIK3	2899	broad.mit.edu	37	chr1	37356650	37356650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tcgaaaggcatgctcctcggCattcatgacctgggcgttgg	7	10	13	11	3	1	1	1	1	0	0	4	2	2	1	2	4	1	4	2	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:37356650C>T	uc001caz.2	-	2	298	c.163G>A	c.(163-165)GCC>ACC	p.A55T	GRIK3_uc001cba.1_Missense_Mutation_p.A55T	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	55	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	TGCTCCTCGGCATTCATGACC	0.507													104	249					0	0	0.01441	0	0		T	37356650	T	T	37356650	3	4	160	1	0	0	0	0	1	0	0	0	6791	710	25	2	2656	2	GRIK3	1	37356650	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	587244	37356650	211893971	31	87301											
EPHA10	284656	broad.mit.edu	37	chr1	38227403	38227403	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtccgatctcgcgcacctctGtgttcagcttcatcttgcgc	4	13	9	15	4	5	0	2	0	3	0	7	1	6	0	2	0	2	3	2	0	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:38227403G>A	uc009vvi.2	-	3	610	c.524C>T	c.(523-525)ACA>ATA	p.T175I	EPHA10_uc001cbw.3_Missense_Mutation_p.T175I	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	175	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GCGCACCTCTGTGTTCAGCTT	0.672													21	55					0	0	0.014323	0	0		A	38227403	A	A	38227403	3	1	160	1	0	0	0	0	1	0	0	0	5174	1377	48	4	2600	4	EPHA10	1	38227403	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	870753	38227403	211023218	32	87302											
SLC6A9	6536	broad.mit.edu	37	chr1	44463398	44463398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtctctgcttggctttgtgGcatttttcaaacgctgcatg	6	16	10	9	1	2	0	1	0	1	0	3	0	2	0	0	2	3	5	0	2	1	4	rs146175246		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:44463398G>A	uc001cll.2	-	14	2132	c.1940C>T	c.(1939-1941)GCC>GTC	p.A647V	SLC6A9_uc009vxe.2_Intron|SLC6A9_uc010okm.1_Intron|SLC6A9_uc001clm.2_Missense_Mutation_p.A593V|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.A578V|SLC6A9_uc001cln.2_Missense_Mutation_p.A574V|SLC6A9_uc010oko.1_Missense_Mutation_p.A463V	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	647	Cytoplasmic (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	TGGCTTTGTGGCATTTTTCAA	0.647													44	132					0	0	0.013114	0	0		A	44463398	A	A	44463398	3	1	160	1	0	0	0	0	1	0	0	0	14716	1203	42	2	184	2	SLC6A9	1	44463398	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6235995	44463398	204787223	33	87303											
RNF220	55182	broad.mit.edu	37	chr1	45115605	45115605	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgttggcacgtgcactgCgaggagtgctggctgcggac	6	8	17	10	3	0	0	0	0	0	0	0	3	0	2	0	4	4	5	0	4	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:45115605C>T	uc001clv.1	+	14	1965	c.1605C>T	c.(1603-1605)TGC>TGT	p.C535C	RNF220_uc001clw.1_Silent_p.C535C|RNF220_uc010oky.1_Silent_p.C322C|RNF220_uc010okz.1_Silent_p.C277C|RNF220_uc001clx.1_Silent_p.C251C|RNF220_uc001cly.1_Silent_p.C215C|RNF220_uc001clz.1_Silent_p.C214C|RNF220_uc001cma.1_Silent_p.C214C|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	535	RING-type.				protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ACGTGCACTGCGAGGAGTGCT	0.647													27	85					0	0	0.00632	0	0		T	45115605	T	T	45115605	2	4	160	1	0	0	0	0	0	0	0	1	13508	776	27	1		1	RNF220	1	45115605	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	652207	45115605	204135016	34	87304											
TMEM53	79639	broad.mit.edu	37	chr1	45120473	45120473	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagcctgtcatagaagtGggtgtggaagagggctgtga	9	10	17	5	0	1	3	1	1	0	2	1	4	1	4	1	3	1	2	1	3	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:45120473G>T	uc001cmc.2	-	3	628	c.592C>A	c.(592-594)CAC>AAC	p.H198N	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Missense_Mutation_p.H125N|TMEM53_uc009vxh.1_Missense_Mutation_p.H81N|TMEM53_uc010ola.1_Missense_Mutation_p.H81N	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	198						integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					TCATAGAAGTGGGTGTGGAAG	0.622													4	50					3.59834e-05	3.74472e-05	0.001168	1	0		T	45120473	T	T	45120473	3	4	160	1	0	0	0	0	1	0	0	0	16204	1348	47	5	245	5	TMEM53	1	45120473	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4868	45120473	204130148	35	87305											
HPDL	84842	broad.mit.edu	37	chr1	45793585	45793585	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccggcacaaggggccaggCctgcagcacgtggggctgta	7	4	17	13	2	0	0	0	0	0	0	0	0	0	0	3	6	2	5	3	6	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:45793585C>T	uc001cne.2	+	1	1041	c.765C>T	c.(763-765)GGC>GGT	p.G255G		NM_032756	NP_116145	Q96IR7	HPDL_HUMAN	glyoxalase domain containing 1	255					aromatic amino acid family metabolic process		4-hydroxyphenylpyruvate dioxygenase activity|metal ion binding				0	Acute lymphoblastic leukemia(166;0.155)					AGGGGCCAGGCCTGCAGCACG	0.647													47	97					0	0	0.01441	0	0		T	45793585	T	T	45793585	2	4	160	1	0	0	0	0	0	0	0	1	7349	726	26	2		2	HPDL	1	45793585	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	673112	45793585	203457036	36	87306											
SLC5A9	200010	broad.mit.edu	37	chr1	48698138	48698138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccccatgttcttcatcGtcatgcctggcatgatcagc	6	13	7	15	1	4	1	3	1	1	0	7	1	6	1	4	1	2	2	4	1	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:48698138G>A	uc001cro.2	+	8	1049	c.997G>A	c.(997-999)GTC>ATC	p.V333I	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.V358I|SLC5A9_uc010omt.1_Missense_Mutation_p.V347I|SLC5A9_uc001crp.2_5'UTR|SLC5A9_uc010omu.1_5'UTR	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	333	Helical; (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						GTTCTTCATCGTCATGCCTGG	0.572													20	59					0	0	0.008871	0	0		A	48698138	A	A	48698138	3	1	160	1	0	0	0	0	1	0	0	0	14697	1145	40	1	1106	1	SLC5A9	1	48698138	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2904553	48698138	200552483	37	87307											
CC2D1B	200014	broad.mit.edu	37	chr1	52824825	52824825	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgtctgtgactctgtaggGgccacttgaaggaaagaagg	11	9	14	7	0	2	3	0	2	2	1	2	4	2	4	1	4	0	1	1	4	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:52824825G>A	uc001ctq.1	-	11	1269	c.1131C>T	c.(1129-1131)GCC>GCT	p.A377A	CC2D1B_uc001ctr.2_5'Flank|CC2D1B_uc001cts.2_Silent_p.A68A	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B	377										ovary(2)	2						ACTCTGTAGGGGCCACTTGAA	0.632													15	61					0	0	0.012319	0	0		A	52824825	A	A	52824825	2	1	160	1	0	0	0	0	0	0	0	1	2730	1219	43	4		4	CC2D1B	1	52824825	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4126687	52824825	196425796	38	87308											
ORC1L	4998	broad.mit.edu	37	chr1	52850933	52850933	+	Silent	SNP	G	A	A	0	0	1	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	aggtacagcagaaacatgcaGcctaccattggtggtaaacg	14	7	11	9	1	0	1	0	0	0	1	0	1	0	1	2	3	7	4	2	3	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:52850933G>A	uc001ctt.2	-	10	1702	c.1483C>T	c.(1483-1485)CTG>TTG	p.L495L	ORC1L_uc010oni.1_Silent_p.L490L|ORC1L_uc001ctu.2_Silent_p.L495L|ORC1L_uc009vzd.2_Silent_p.L249L	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	495					cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						GAAACATGCAGCCTACCATTG	0.428													59	157					0	0	0.01441	0	0		A	52850933	A	A	52850933	2	1	160	1	0	0	0	0	0	0	0	1	11280	985	34	2		2	ORC1L	1	52850933	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	26108	52850933	196399688	39	87309											
C1orf175	374977	broad.mit.edu	37	chr1	55118746	55118746	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggtgcctatgttgaatctGctcccaagtcctggcttggc	6	12	11	12	0	1	1	0	1	1	0	3	1	3	1	3	3	2	3	3	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:55118746G>A	uc010ooe.1	+	3	471	c.147G>A	c.(145-147)CTG>CTA	p.L49L	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxo.2_Silent_p.L49L|C1orf175_uc010ooc.1_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Intron|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Silent_p.L49L|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	49						integral to membrane	binding				0						TGTTGAATCTGCTCCCAAGTC	0.577													43	102					0	0	0.011902	0	0		A	55118746	A	A	55118746	2	1	160	1	0	0	0	0	0	0	0	1	2019	1306	46	2		2	C1orf175	1	55118746	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2267813	55118746	194131875	40	87310											
L1TD1	54596	broad.mit.edu	37	chr1	62675694	62675694	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcagggctggaggaggaAgaagaagaagaggcttcagg	13	4	17	7	0	2	4	2	0	0	4	2	7	2	7	1	6	0	2	1	6	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:62675694A>G	uc001dae.3	+	4	1550	c.1248A>G	c.(1246-1248)GAA>GAG	p.E416E		NM_019079	NP_061952	Q5T7N2	LITD1_HUMAN	LINE-1 type transposase domain containing 1	416	Glu-rich.									ovary(1)|skin(1)	2						tggaggaggaagaagaagaag	0.249													3	55					0	0	0.009096	0	0		G	62675694	G	G	62675694	2	3	160	1	0	0	0	0	0	0	0	1	8605	69	3	3		3	L1TD1	1	62675694	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	7556948	62675694	186574927	41	87311											
DOCK7	85440	broad.mit.edu	37	chr1	62979269	62979269	+	Frame_Shift_Del	DEL	T	-	-																															ctattcattcgttcaaacacTtttttcccctaaaatgtaaa																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:62979269delT	uc001daq.2	-	33	4162	c.4128delA	c.(4126-4128)AAAfs	p.K1376fs	DOCK7_uc001dan.2_Frame_Shift_Del_p.K1237fs|DOCK7_uc001dao.2_Frame_Shift_Del_p.K1237fs|DOCK7_uc001dap.2_Frame_Shift_Del_p.K1345fs|DOCK7_uc001dam.2_Frame_Shift_Del_p.K556fs|DOCK7_uc010oov.1_Frame_Shift_Del_p.K115fs	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1376					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						GTTCAAACACTTTTTTCCCCT	0.348													38	87	---	---	---	---						.	-	62979269	-	-	62979269	7	5	160	1	0	1	0	1	0	0	0	0	4698	1606	56	0	2366	0	DOCK7	1	62979269	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	303575	62979269	186271352	42	87312											
UBE2U	148581	broad.mit.edu	37	chr1	64671363	64671363	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtgaagatatgatggaatgGgaagttgaaattgaaggtct	15	11	14	1	0	1	5	0	4	1	1	1	7	1	7	0	3	0	1	0	3	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:64671363G>T	uc001dbn.1	+	2	352	c.108G>T	c.(106-108)TGG>TGT	p.W36C		NM_152489	NP_689702	Q5VVX9	UBE2U_HUMAN	ubiquitin-conjugating enzyme E2U (putative)	36							ATP binding|protein binding|ubiquitin-protein ligase activity				0						TGATGGAATGGGAAGTTGAAA	0.289													35	98					4.3949e-29	4.93112e-29	0.004289	1	0		T	64671363	T	T	64671363	3	4	160	1	0	0	0	0	1	0	0	0	16900	1241	43	5	114	5	UBE2U	1	64671363	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1692094	64671363	184579258	43	87313											
SGIP1	84251	broad.mit.edu	37	chr1	67207114	67207114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcatcaagaaaaggtttgCtgcaggtaaatgagtatctt	14	12	9	6	0	3	2	2	1	1	1	3	2	3	2	0	2	2	5	0	2	6	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:67207114C>T	uc001dcr.2	+	24	2676	c.2459C>T	c.(2458-2460)GCT>GTT	p.A820V	SGIP1_uc010opd.1_Missense_Mutation_p.A420V|SGIP1_uc001dcs.2_Missense_Mutation_p.A420V|SGIP1_uc001dct.2_Missense_Mutation_p.A422V|SGIP1_uc009wat.2_Missense_Mutation_p.A614V|SGIP1_uc001dcu.2_Missense_Mutation_p.A325V	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	820					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						AAAAGGTTTGCTGCAGGTAAA	0.398													42	107					0	0	0.00874	0	0		T	67207114	T	T	67207114	3	4	160	1	0	0	0	0	1	0	0	0	14231	797	28	2	2553	2	SGIP1	1	67207114	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2535751	67207114	182043507	44	87314											
IFI44L	10964	broad.mit.edu	37	chr1	79106770	79106770	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggttcttcaagacaacttTttaaacatgagtagatctat	14	14	7	6	0	3	3	1	1	2	2	3	4	3	3	0	1	2	2	0	1	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:79106770T>G	uc010oro.1	+	7	1292	c.1113T>G	c.(1111-1113)TTT>TTG	p.F371L	IFI44L_uc010orp.1_Missense_Mutation_p.F108L|IFI44L_uc010orq.1_Missense_Mutation_p.F108L	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	371						cytoplasm					0						AAGACAACTTTTTAAACATGA	0.299													5	133					0	0	0.001168	0	0		G	79106770	G	G	79106770	3	3	160	1	0	0	0	0	1	0	0	0	7534	1838	64	5	1135	5	IFI44L	1	79106770	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	11899656	79106770	170143851	45	87315											
COL24A1	255631	broad.mit.edu	37	chr1	86307793	86307793	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatccagagggtcctggttgGccctgatggccctacgaaag	9	8	13	11	1	0	2	0	1	0	1	2	3	2	2	4	4	1	1	4	4	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:86307793G>A	uc001dlj.2	-	41	3570	c.3528C>T	c.(3526-3528)GGC>GGT	p.G1176G	COL24A1_uc001dli.2_Silent_p.G312G|COL24A1_uc010osd.1_Silent_p.G476G|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	1176	Collagen-like 12.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		GTCCTGGTTGGCCCTGATGGC	0.363													5	104					0	0	0.001168	0	0		A	86307793	A	A	86307793	2	1	160	1	0	0	0	0	0	0	0	1	3686	1190	42	2		2	COL24A1	1	86307793	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7201023	86307793	162942828	46	87316											
SLC44A3	126969	broad.mit.edu	37	chr1	95290108	95290108	+	Silent	SNP	T	C	C	0	1	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	ggaagactcctctttggctaTgacagctttggcaacatgtg	9	12	11	9	0	1	2	0	1	1	1	2	3	2	3	1	3	2	3	1	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:95290108T>C	uc001dqv.3	+	3	302	c.195T>C	c.(193-195)TAT>TAC	p.Y65Y	SLC44A3_uc001dqx.3_Silent_p.Y65Y|SLC44A3_uc010otq.1_Silent_p.Y29Y|SLC44A3_uc010otr.1_Silent_p.Y29Y|SLC44A3_uc001dqw.3_Silent_p.Y17Y|SLC44A3_uc010ots.1_Silent_p.Y17Y|SLC44A3_uc009wds.2_5'UTR|SLC44A3_uc010ott.1_Silent_p.Y17Y|SLC44A3_uc010otu.1_5'Flank	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1	65						integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	TCTTTGGCTATGACAGCTTTG	0.532													29	78					0	0	0.010818	0	0		C	95290108	C	C	95290108	2	2	160	1	0	0	0	0	0	0	0	1	14662	1471	51	3		3	SLC44A3	1	95290108	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	8982315	95290108	153960513	47	87317											
TMEM56	148534	broad.mit.edu	37	chr1	95657379	95657379	+	Silent	SNP	A	G	G	1	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	aaagtcatctctcacatcagAcaagagaaagccaaaaatag	20	6	6	9	0	4	2	3	0	1	2	5	3	4	2	1	0	1	0	1	0	6	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:95657379A>G	uc001drb.2	+	7	1038	c.747A>G	c.(745-747)AGA>AGG	p.R249R	RWDD3_uc001drd.3_Intron|uc001dre.1_Intron|TMEM56_uc001drc.2_Silent_p.R249R	NM_152487	NP_689700	Q96MV1	TMM56_HUMAN	transmembrane protein 56	249						integral to membrane					0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.133)		CTCACATCAGACAAGAGAAAG	0.368													10	174					0	0	0.008291	0	0		G	95657379	G	G	95657379	2	3	160	1	0	0	0	0	0	0	0	1	16208	272	10	3		3	TMEM56	1	95657379	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	367271	95657379	153593242	48	87318											
NTNG1	22854	broad.mit.edu	37	chr1	108023372	108023372	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggctggcagctgcggctcCgactctggccagggcgcgcc	4	5	17	15	4	1	0	0	0	1	0	2	2	2	0	3	5	2	4	3	5	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:108023372C>T	uc001dvh.3	+	8	2248	c.1530C>T	c.(1528-1530)TCC>TCT	p.S510S	NTNG1_uc001dvf.3_Silent_p.S451S|NTNG1_uc010out.1_Silent_p.S476S|NTNG1_uc001dvc.3_Silent_p.S409S|NTNG1_uc001dvi.2_Missense_Mutation_p.P78L|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_RNA|NTNG1_uc001dvg.2_RNA|NTNG1_uc009wem.2_Nonsense_Mutation_p.R73*	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	510					axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		GCTGCGGCTCCGACTCTGGCC	0.706													2	2					0	0	0.004672	0	0		T	108023372	T	T	108023372	2	4	160	1	0	0	0	0	0	0	0	1	10723	639	23	1		1	NTNG1	1	108023372	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	12365993	108023372	141227249	49	87319											
CELSR2	1952	broad.mit.edu	37	chr1	109792844	109792844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccaggggacgaggctcttCgggggcctgcgcccccatgg	4	6	17	14	3	1	0	0	0	1	0	3	2	2	1	4	6	1	1	4	6	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:109792844C>T	uc001dxa.3	+	1	204	c.143C>T	c.(142-144)TCG>TTG	p.S48L		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	48	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CGAGGCTCTTCGGGGGCCTGC	0.532													21	38					0	0	0.012319	0	0		T	109792844	T	T	109792844	3	4	160	1	0	0	0	0	1	0	0	0	3225	893	31	1	145	1	CELSR2	1	109792844	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1769472	109792844	139457777	50	87320											
CELSR2	1952	broad.mit.edu	37	chr1	109810552	109810552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctgctcctgcgcaacgccaCgcagcacacagctggctact	8	6	9	18	3	0	0	0	0	0	0	1	0	1	0	3	1	6	6	3	1	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:109810552C>T	uc001dxa.3	+	17	6249	c.6188C>T	c.(6187-6189)ACG>ATG	p.T2063M		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2063	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CGCAACGCCACGCAGCACACA	0.677													18	33					0	0	0.010504	0	0		T	109810552	T	T	109810552	3	4	160	1	0	0	0	0	1	0	0	0	3225	536	19	1	6254	1	CELSR2	1	109810552	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	17708	109810552	139440069	51	87321											
GPR61	83873	broad.mit.edu	37	chr1	110086921	110086921	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaggagacctctgagttccTggagcagcaactcaccagcg	10	7	12	12	1	2	3	1	2	1	1	3	5	3	4	3	2	4	3	3	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:110086921T>C	uc001dxy.2	+	2	1960	c.1277T>C	c.(1276-1278)CTG>CCG	p.L426P		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	426	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		TCTGAGTTCCTGGAGCAGCAA	0.612													12	36					0	0	0.001855	0	0		C	110086921	C	C	110086921	3	2	160	1	0	0	0	0	1	0	0	0	6717	1580	55	3	1279	3	GPR61	1	110086921	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	276369	110086921	139163700	52	87322											
GNAT2	2780	broad.mit.edu	37	chr1	110146144	110146144	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctctttatgtaattcccCgcatcatcataggagttgtt	8	16	8	9	1	3	0	2	0	1	0	4	1	4	1	2	2	0	5	2	2	3	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:110146144C>T	uc001dya.2	-	8	1110	c.897G>A	c.(895-897)GCG>GCA	p.A299A		NM_005272	NP_005263	P19087	GNAT2_HUMAN	guanine nucleotide binding protein, alpha	299					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	G-protein beta/gamma-subunit complex binding|G-protein coupled photoreceptor activity|G-protein-coupled receptor binding|GTP binding|GTPase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0422)|Colorectal(144;0.108)|Epithelial(280;0.125)|all cancers(265;0.129)|LUSC - Lung squamous cell carcinoma(189;0.227)		TGTAATTCCCCGCATCATCAT	0.383													30	133					0	0	0.013726	0	0		T	110146144	T	T	110146144	2	4	160	1	0	0	0	0	0	0	0	1	6527	639	23	1		1	GNAT2	1	110146144	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	59223	110146144	139104477	53	87323											
HBXIP	10542	broad.mit.edu	37	chr1	110944145	110944145	+	Nonstop_Mutation	SNP	T	C	C	0	1	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	ctgaagaacagatatgagcaTcaagaggccattttgtgcac	14	9	10	8	0	1	5	1	2	0	3	1	5	1	5	1	1	3	2	1	1	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:110944145T>C	uc001dzr.2	-	4	580	c.522A>G	c.(520-522)TGA>TGG	p.*174W		NM_006402	NP_006393	O43504	HBXIP_HUMAN	hepatitis B virus x-interacting protein	174					anti-apoptosis|negative regulation of caspase activity|response to virus|viral genome replication	cytosol	protein binding			large_intestine(1)|ovary(1)|pancreas(1)	3		all_cancers(81;4.08e-06)|all_epithelial(167;4.38e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0237)|all cancers(265;0.0675)|Epithelial(280;0.0732)|Colorectal(144;0.102)|LUSC - Lung squamous cell carcinoma(189;0.134)		GATATGAGCATCAAGAGGCCA	0.403													24	67					0	0	0.008361	0	0		C	110944145	C	C	110944145	4	2	160	1	0	0	0	0	0	0	0	0	7004	1448	50	3	3	3	HBXIP	1	110944145	Nonstop_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	798001	110944145	138306476	54	87324											
KCNA10	3744	broad.mit.edu	37	chr1	111061012	111061012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaaaactgggccggttcCgatcaaagaaatactcattt	14	10	7	10	2	3	1	3	0	0	1	4	2	4	1	2	2	2	1	2	2	5	3	rs150165049		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:111061012C>T	uc001dzt.1	-	1	786	c.398G>A	c.(397-399)CGG>CAG	p.R133Q		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	133						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		GGGCCGGTTCCGATCAAAGAA	0.453													6	151					0	0	0.001168	0	0		T	111061012	T	T	111061012	3	4	160	1	0	0	0	0	1	0	0	0	8018	652	23	1	1141	1	KCNA10	1	111061012	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	116867	111061012	138189609	55	87325											
KCNA3	3738	broad.mit.edu	37	chr1	111216931	111216931	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgaccggccggcggatgcgGcccccggactgatagtagta	7	7	15	12	5	0	2	0	2	0	0	0	4	0	4	4	5	1	2	4	5	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:111216931G>A	uc001dzv.1	-	1	725	c.501C>T	c.(499-501)GGC>GGT	p.G167G		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	167						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GGCGGATGCGGCCCCCGGACT	0.632													4	59					0	0	0.001168	0	0		A	111216931	A	A	111216931	2	1	160	1	0	0	0	0	0	0	0	1	8020	1190	42	2		2	KCNA3	1	111216931	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	155919	111216931	138033690	56	87326											
RHOC	389	broad.mit.edu	37	chr1	113244211	113244211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgttcttgcggacctggaggCcagcccgagtggccatctca	6	9	13	13	2	2	0	1	0	2	0	3	3	2	2	4	4	2	1	4	4	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:113244211C>T	uc001ecp.1	-	6	833	c.533G>A	c.(532-534)GGC>GAC	p.G178D	RHOC_uc001ecq.1_Missense_Mutation_p.G178D|RHOC_uc001ecr.1_Missense_Mutation_p.G178D|RHOC_uc009wgk.1_Missense_Mutation_p.G178D	NM_001042679	NP_001036144	P08134	RHOC_HUMAN	ras homolog gene family, member C precursor	178					axon guidance|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|signal transducer activity			ovary(1)	1	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GACCTGGAGGCCAGCCCGAGT	0.602													5	99					0	0	0.000602	0	0		T	113244211	T	T	113244211	3	4	160	1	0	0	0	0	1	0	0	0	13361	739	26	2	52	2	RHOC	1	113244211	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2027280	113244211	136006410	57	87327											
CSDE1	7812	broad.mit.edu	37	chr1	115263163	115263163	+	Missense_Mutation	SNP	A	T	T	1	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	gagatgctggcacttacctgAtctttcacacattccactgt	9	13	7	12	0	2	2	1	1	1	1	3	3	3	2	2	1	2	2	2	1	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:115263163A>T	uc001efk.2	-	17	2515	c.2049T>A	c.(2047-2049)GAT>GAA	p.D683E	CSDE1_uc001efi.2_Missense_Mutation_p.D729E|CSDE1_uc001efj.2_RNA|CSDE1_uc001efl.2_Missense_Mutation_p.D652E|CSDE1_uc001efm.2_Missense_Mutation_p.D698E|CSDE1_uc009wgv.2_Missense_Mutation_p.D683E|CSDE1_uc001efn.2_Missense_Mutation_p.D652E	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1	683	CSD 9.				male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	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)		CACTTACCTGATCTTTCACAC	0.443													40	103					0	0	0.006999	0	0		T	115263163	T	T	115263163	3	4	160	1	0	0	0	0	1	0	0	0	3932	330	12	5	363	5	CSDE1	1	115263163	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2018952	115263163	133987458	58	87328											
ATP1A1	476	broad.mit.edu	37	chr1	116926744	116926744	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactgaagaaagaagtttctAtggtaagtactaggaggaat	17	10	11	3	0	1	3	0	1	1	2	1	5	1	5	0	3	2	3	0	3	9	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:116926744A>G	uc001ege.2	+	2	460	c.121A>G	c.(121-123)ATG>GTG	p.M41V	ATP1A1_uc010owv.1_Missense_Mutation_p.M10V|ATP1A1_uc001egd.2_Missense_Mutation_p.M41V|ATP1A1_uc010oww.1_Missense_Mutation_p.M41V|ATP1A1_uc010owx.1_Missense_Mutation_p.M10V	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	41	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	AGAAGTTTCTATGGTAAGTAC	0.368													23	48					0	0	0.014323	0	0		G	116926744	G	G	116926744	3	3	160	1	0	0	0	0	1	0	0	0	1129	449	16	3	143	3	ATP1A1	1	116926744	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1663581	116926744	132323877	59	87329											
ATP1A1	476	broad.mit.edu	37	chr1	116937732	116937732	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggctcctgtcctcctcgcagGtttctgccacctctttctgc	2	14	8	17	1	3	0	0	0	3	0	7	0	6	0	5	2	2	3	5	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:116937732G>T	uc001ege.2	+	13	2000	c.1661G>T	c.(1660-1662)GGT>GTT	p.G554V	ATP1A1_uc010owv.1_Missense_Mutation_p.G523V|ATP1A1_uc010oww.1_Missense_Mutation_p.G554V|ATP1A1_uc010owx.1_Missense_Mutation_p.G523V|C1orf203_uc009whb.2_Intron	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	554	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	CTCCTCGCAGGTTTCTGCCAC	0.488													9	402					4.68919e-08	4.9644e-08	0.008291	1	0		T	116937732	T	T	116937732	3	4	160	1	0	0	0	0	1	0	0	0	1129	1275	44	5	1727	5	ATP1A1	1	116937732	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	10988	116937732	132312889	60	87330											
FMO5	2330	broad.mit.edu	37	chr1	146680415	146680415	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcccatcctgggaacataccTgtgtttaggcttcaggccaa	9	11	9	12	0	1	0	1	0	0	0	3	1	3	1	4	3	2	2	4	3	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:146680415T>C	uc001epi.2	-	6	1218	c.829A>G	c.(829-831)AGA>GGA	p.R277G	FMO5_uc001eph.3_Missense_Mutation_p.R277G|FMO5_uc001epj.2_Missense_Mutation_p.R277G|FMO5_uc001epk.3_Missense_Mutation_p.R277G	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	277						integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			ovary(3)	3	all_hematologic(923;0.0487)					GGAACATACCTGTGTTTAGGC	0.408													7	160					0	0	0.001984	0	0		C	146680415	C	C	146680415	3	2	160	1	0	0	0	0	1	0	0	0	5972	1594	55	3	931	3	FMO5	1	146680415	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	29742683	146680415	102570206	61	87331											
HIST2H2AC	8338	broad.mit.edu	37	chr1	149858742	149858744	+	In_Frame_Del	DEL	ACA	-	-																															ggcgggcaacgcggctcgggAcaacaagaagacgcgcatca																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:149858742_149858744delACA	uc001etd.2	+	1	218_220	c.218_220delACA	c.(217-222)GACAAC>GAC	p.N74del	HIST2H2BE_uc001etc.2_5'Flank	NM_003517	NP_003508	Q16777	H2A2C_HUMAN	histone cluster 2, H2ac	74					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GCGGCTCGGGACAACAAGAAGAC	0.675													27	52	---	---	---	---						.	-	149858744	-	-	149858742	7	5	160	1	0	1	0	1	0	0	0	0	7194	275	10	0	220	0	HIST2H2AC	1	149858742	In_Frame_Del	DEL	ACA	TCGA-CG-5733-01A-11D-1600-08	3178327	149858742	99391879	62	87332											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150531071	150531071	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccccccagcagagaggcCtgtgacatggggccctgtac	8	5	13	15	0	0	2	0	1	0	1	0	3	0	2	5	3	3	2	5	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:150531071C>A	uc001eux.2	+	15	2741	c.2505C>A	c.(2503-2505)GCC>GCA	p.A835A	ADAMTSL4_uc001euw.2_Silent_p.A835A|ADAMTSL4_uc009wlw.2_Silent_p.A858A|ADAMTSL4_uc010pcg.1_Silent_p.A796A|ADAMTSL4_uc009wlx.2_Translation_Start_Site	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	835	TSP type-1 3.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	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)			GCAGAGAGGCCTGTGACATGG	0.632													16	49					0.000566183	0.00058275	0.00499	1	0		A	150531071	A	A	150531071	2	1	160	1	0	0	0	0	0	0	0	1	277	668	24	5		5	ADAMTSL4	1	150531071	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	672329	150531071	98719550	63	87333											
SETDB1	9869	broad.mit.edu	37	chr1	150933382	150933382	+	Frame_Shift_Del	DEL	C	-	-																															acaacttccaaggactcccaCcccccagatcttggaccccc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:150933382delC	uc001evu.2	+	16	3034	c.2844delC	c.(2842-2844)CACfs	p.H948fs	SETDB1_uc001evv.2_Frame_Shift_Del_p.H948fs|SETDB1_uc009wmg.1_Frame_Shift_Del_p.H948fs	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	948	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	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)			AGGACTCCCACCCCCCAGATC	0.572													67	139	---	---	---	---						.	-	150933382	-	-	150933382	7	5	160	1	0	1	0	1	0	0	0	0	14163	506	18	0	2902	0	SETDB1	1	150933382	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	402311	150933382	98317239	64	87334											
PRUNE	58497	broad.mit.edu	37	chr1	150990325	150990325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttgtgctgggaaatgaagCctgtgatttggactccacag	9	12	13	7	0	0	2	0	2	0	0	1	4	1	4	2	2	2	2	2	2	2	2	rs141143258		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:150990325C>T	uc001ewh.1	+	2	213	c.77C>T	c.(76-78)GCC>GTC	p.A26V	PRUNE_uc001ewi.1_5'UTR|PRUNE_uc010pco.1_5'UTR|PRUNE_uc001ewj.1_5'UTR	NM_021222	NP_067045	Q86TP1	PRUNE_HUMAN	prune	26						cytoplasm|focal adhesion|nucleus	inorganic diphosphatase activity|manganese ion binding|protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GGAAATGAAGCCTGTGATTTG	0.348													33	106					0	0	0.004289	0	0		T	150990325	T	T	150990325	3	4	160	1	0	0	0	0	1	0	0	0	12662	739	26	2	83	2	PRUNE	1	150990325	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	56943	150990325	98260296	65	87335											
TCHH	7062	broad.mit.edu	37	chr1	152082655	152082655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actgcctctcccactcctggCgccttctcttctcccgttcc	2	13	5	21	2	3	0	0	0	3	0	8	0	5	0	6	1	1	1	6	1	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:152082655C>T	uc001ezp.2	-	2	3038	c.3038G>A	c.(3037-3039)CGC>CAC	p.R1013H	TCHH_uc009wne.1_Missense_Mutation_p.R1013H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1013	10 X 30 AA tandem repeats.|4-4.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ccactcctggcgccttctctt	0.219													54	148					0	0	0.01441	0	0		T	152082655	T	T	152082655	3	4	160	1	0	0	0	0	1	0	0	0	15725	768	27	1	2797	1	TCHH	1	152082655	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1092330	152082655	97167966	66	87336											
FLG	2312	broad.mit.edu	37	chr1	152283237	152283237	+	Silent	SNP	G	A	A	0	0	1	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	actgcagatgaagcttgtctGtgcccaatgcctgagtgtct	8	12	11	10	0	2	3	0	2	2	1	2	3	2	3	2	0	4	2	2	0	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:152283237G>A	uc001ezu.1	-	3	4161	c.4125C>T	c.(4123-4125)CAC>CAT	p.H1375H	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1375	Ser-rich.|Filaggrin 8.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAGCTTGTCTGTGCCCAATGC	0.532									Ichthyosis				212	488					0	0	0.01441	0	0		A	152283237	A	A	152283237	2	1	160	1	0	0	0	0	0	0	0	1	5936	1368	48	4		4	FLG	1	152283237	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	200582	152283237	96967384	67	87337											
FLG	2312	broad.mit.edu	37	chr1	152286331	152286331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgcagagtgcccatgactgGctctgtcttcatcatgggac	7	11	11	12	0	4	2	2	1	2	1	4	3	4	3	1	2	2	2	1	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:152286331G>A	uc001ezu.1	-	3	1067	c.1031C>T	c.(1030-1032)GCC>GTC	p.A344V	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	344	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCATGACTGGCTCTGTCTTC	0.562									Ichthyosis				127	312					0	0	0.01441	0	0		A	152286331	A	A	152286331	3	1	160	1	0	0	0	0	1	0	0	0	5936	1203	42	2	11158	2	FLG	1	152286331	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3094	152286331	96964290	68	87338											
LCE5A	254910	broad.mit.edu	37	chr1	152484105	152484105	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tcctaagtgtcctcccaagtGtcccccaaaatgccctcccc	8	9	5	19	0	0	0	0	0	0	0	5	0	5	0	8	0	1	0	8	0	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:152484105G>A	uc001ezy.2	+	2	271	c.95G>A	c.(94-96)TGT>TAT	p.C32Y	CRCT1_uc001ezz.2_5'Flank	NM_178438	NP_848525	Q5TCM9	LCE5A_HUMAN	late cornified envelope 5A	32	Cys-rich.				keratinization					ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			cctcccaagtgtcccccaaAA	0.478													25	66					0	0	0.003954	0	0		A	152484105	A	A	152484105	3	1	160	1	0	0	0	0	1	0	0	0	8691	1377	48	4	97	4	LCE5A	1	152484105	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	197774	152484105	96766516	69	87339											
INTS3	65123	broad.mit.edu	37	chr1	153732007	153732007	+	Silent	SNP	T	C	C	0	1	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	ccctctcttttccagtcaaaTgtcgctgcctccaatgccaa	8	12	5	16	1	2	0	1	0	1	0	6	0	4	0	5	0	2	1	5	0	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:153732007T>C	uc009wom.2	+	12	1376	c.1155T>C	c.(1153-1155)AAT>AAC	p.N385N	INTS3_uc001fct.2_Silent_p.N385N|INTS3_uc001fcu.2_Silent_p.N77N|INTS3_uc001fcv.2_Silent_p.N179N|INTS3_uc010peb.1_Silent_p.N179N|INTS3_uc001fcw.2_5'UTR|INTS3_uc010pec.1_Intron	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	386					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TCCAGTCAAATGTCGCTGCCT	0.483													91	188					0	0	0.01441	0	0		C	153732007	C	C	153732007	2	2	160	1	0	0	0	0	0	0	0	1	7795	1461	51	3		3	INTS3	1	153732007	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1247902	153732007	95518614	70	87340											
IL6R	3570	broad.mit.edu	37	chr1	154408549	154408549	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgggcaaggcgagtggagCgagtggagcccggaggccat	8	5	19	9	4	0	0	0	0	0	0	1	5	0	3	2	6	2	1	2	6	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:154408549C>T	uc001fez.1	+	6	1349	c.912C>T	c.(910-912)AGC>AGT	p.S304S	IL6R_uc001ffa.1_Silent_p.S304S	NM_000565	NP_000556	P08887	IL6RA_HUMAN	interleukin 6 receptor isoform 1 precursor	304	Fibronectin type-III.|Extracellular (Potential).|WSXWS motif.				acute-phase response|ciliary neurotrophic factor-mediated signaling pathway|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|endocrine pancreas development|hepatic immune response|negative regulation of collagen biosynthetic process|negative regulation of interleukin-8 production|positive regulation of activation of Janus kinase activity|positive regulation of anti-apoptosis|positive regulation of chemokine production|positive regulation of chemokine production|positive regulation of interleukin-6 production|positive regulation of leukocyte chemotaxis|positive regulation of MAPKKK cascade|positive regulation of osteoblast differentiation|positive regulation of smooth muscle cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of apoptosis	apical plasma membrane|basolateral plasma membrane|extracellular space|interleukin-6 receptor complex	ciliary neurotrophic factor binding|enzyme binding|protein homodimerization activity			ovary(3)|breast(1)	4	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GCGAGTGGAGCGAGTGGAGCC	0.572													8	16					0	0	0.00308	0	0		T	154408549	T	T	154408549	2	4	160	1	0	0	0	0	0	0	0	1	7718	767	27	1		1	IL6R	1	154408549	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	676542	154408549	94842072	71	87341											
FLAD1	80308	broad.mit.edu	37	chr1	154960591	154960591	+	Missense_Mutation	SNP	A	G	G	1	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	caacccccagggacacactcAggacaccaacaccttctttc	12	6	5	18	0	2	0	1	0	1	0	3	2	2	2	4	2	2	0	4	2	2	2	rs145148009		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:154960591A>G	uc001fgf.1	+	2	737	c.383A>G	c.(382-384)CAG>CGG	p.Q128R	FLAD1_uc001fgc.2_Missense_Mutation_p.Q29R|FLAD1_uc001fgd.1_Missense_Mutation_p.Q128R|FLAD1_uc001fge.1_Missense_Mutation_p.Q31R|FLAD1_uc001fgg.1_Missense_Mutation_p.Q31R|FLAD1_uc001fgh.1_5'UTR	NM_025207	NP_079483	Q8NFF5	FAD1_HUMAN	flavin adenine dinucleotide synthetase isoform	128	Molybdenum cofactor biosynthesis protein- like.				FAD biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|FMN adenylyltransferase activity			ovary(2)|skin(1)	3	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			GGACACACTCAGGACACCAAC	0.557													70	195					0	0	0.01441	0	0		G	154960591	G	G	154960591	3	3	160	1	0	0	0	0	1	0	0	0	5934	188	7	3	464	3	FLAD1	1	154960591	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	552042	154960591	94290030	72	87342											
MUC1	4582	broad.mit.edu	37	chr1	155161828	155161828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagggctggcctggtgactGggaccgaggtgacatcctgt	6	8	16	11	1	0	2	0	2	0	0	1	4	1	3	4	5	0	1	4	5	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:155161828G>A	uc010pft.1	-	2	371	c.305C>T	c.(304-306)CCA>CTA	p.P102L	RAG1AP1_uc010pey.1_Intron|MUC1_uc001fhy.2_5'Flank|MUC1_uc001fhz.2_5'Flank|MUC1_uc010pfb.1_Intron|MUC1_uc010pfc.1_Intron|MUC1_uc009wph.2_Intron|MUC1_uc010pfd.1_Intron|MUC1_uc010pfe.1_Intron|MUC1_uc010pff.1_Intron|MUC1_uc009wpi.2_Intron|MUC1_uc010pfg.1_Intron|MUC1_uc010pfh.1_Intron|MUC1_uc010pfi.1_Intron|MUC1_uc010pfj.1_Intron|MUC1_uc010pfk.1_Intron|MUC1_uc010pfl.1_Intron|MUC1_uc001fin.2_Intron|MUC1_uc009wpk.2_Intron|MUC1_uc001fip.2_Intron|MUC1_uc009wqg.2_Intron|MUC1_uc009wpo.2_Intron|MUC1_uc009wps.2_Intron|MUC1_uc009wpt.2_Intron|MUC1_uc001fic.2_Intron|MUC1_uc009wpu.2_Intron|MUC1_uc009wpq.2_Intron|MUC1_uc009wpv.2_Intron|MUC1_uc001fim.2_Intron|MUC1_uc001fib.2_Intron|MUC1_uc009wpw.2_Intron|MUC1_uc001fie.2_Intron|MUC1_uc009wpr.2_Intron|MUC1_uc001fig.2_Intron|MUC1_uc001fif.2_Intron|MUC1_uc009wpx.2_Intron|MUC1_uc001fid.2_Intron|MUC1_uc009wpj.2_Intron|MUC1_uc001fij.2_Intron|MUC1_uc009wpy.2_Intron|MUC1_uc010pfm.1_Intron|MUC1_uc001fiq.2_Intron|MUC1_uc009wpz.2_Intron|MUC1_uc010pfn.1_Intron|MUC1_uc009wqa.2_Intron|MUC1_uc010pfo.1_Intron|MUC1_uc010pfp.1_Intron|MUC1_uc001fii.2_Intron|MUC1_uc001fih.2_Intron|MUC1_uc001fia.2_Intron|MUC1_uc009wqc.2_Intron|MUC1_uc009wqd.2_Intron|MUC1_uc009wqb.2_Intron|MUC1_uc010pfq.1_Intron|MUC1_uc010pfr.1_Intron|MUC1_uc001fit.2_Intron|MUC1_uc009wqe.2_Intron|MUC1_uc001fil.2_Intron|MUC1_uc009wpm.2_Intron|MUC1_uc009wpp.2_Intron|MUC1_uc010pfs.1_Intron|MUC1_uc001fik.2_Intron|MUC1_uc001fio.2_Intron|MUC1_uc009wqf.2_Intron|MUC1_uc009wpl.2_Intron|MUC1_uc009wpn.2_Intron|MUC1_uc001fis.1_Intron|uc009wqh.2_5'Flank|MUC1_uc001fiv.1_Missense_Mutation_p.P111L|MUC1_uc001fiw.1_Missense_Mutation_p.P102L			P15941	MUC1_HUMAN	SubName: Full=MUC1 isoform M13;	102	Extracellular (Potential).|3.					apical plasma membrane|cell surface|cytoplasm|extracellular region|integral to plasma membrane|nucleus	protein binding			large_intestine(1)|pancreas(1)|breast(1)|skin(1)	4	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;5.31e-10)|all cancers(21;2.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			CCTGGTGACTGGGACCGAGGT	0.697			T	IGH@	B-NHL								14	25					0	0	0.003163	0	0		A	155161828	A	A	155161828	3	1	160	1	0	0	0	0	1	0	0	0	9988	1363	47	4		4	MUC1	1	155161828	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	201237	155161828	94088793	73	87343											
FDPS	2224	broad.mit.edu	37	chr1	155287966	155287966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtcatgacagccgggcGtgggtttggatgccatcaat	7	11	14	9	2	3	1	2	1	1	0	3	2	3	2	2	3	2	1	2	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:155287966G>A	uc001fkc.2	+	6	787	c.568G>A	c.(568-570)GTG>ATG	p.V190M	RAG1AP1_uc010pey.1_Intron|FDPS_uc001fkd.2_Missense_Mutation_p.V124M|FDPS_uc001fke.2_Missense_Mutation_p.V190M|FDPS_uc001fkf.2_Missense_Mutation_p.V124M|C1orf104_uc001fkh.1_Intron|RUSC1_uc001fkj.2_5'Flank|RUSC1_uc001fkk.2_5'Flank	NM_002004	NP_001995	P14324	FPPS_HUMAN	farnesyl diphosphate synthase isoform a	190					cholesterol biosynthetic process|interspecies interaction between organisms|isoprenoid biosynthetic process	cytosol|nucleus	dimethylallyltranstransferase activity|geranyltranstransferase activity|metal ion binding				0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;2.03e-10)|all cancers(21;5.23e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)		Alendronate(DB00630)|Ibandronate(DB00710)|Pamidronate(DB00282)|Risedronate(DB00884)|Zoledronate(DB00399)	ACAGCCGGGCGTGGGTTTGGA	0.493													15	204					0	0	0.004007	0	0		A	155287966	A	A	155287966	3	1	160	1	0	0	0	0	1	0	0	0	5817	1145	40	1	586	1	FDPS	1	155287966	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	126138	155287966	93962655	74	87344											
UBQLN4	56893	broad.mit.edu	37	chr1	156020296	156020296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgcagctccatgaagttgGcagagcccaggcctaggctg	8	7	14	12	0	0	2	0	1	0	1	1	2	1	2	3	3	3	6	3	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:156020296G>A	uc001fna.2	-	4	551	c.527C>T	c.(526-528)GCC>GTC	p.A176V	UBQLN4_uc010pgx.1_Missense_Mutation_p.A156V	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	176						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)|skin(1)	2	Hepatocellular(266;0.133)|all_neural(408;0.195)					CATGAAGTTGGCAGAGCCCAG	0.592													34	47					0	0	0.00874	0	0		A	156020296	A	A	156020296	3	1	160	1	0	0	0	0	1	0	0	0	16925	1203	42	2	1310	2	UBQLN4	1	156020296	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	732330	156020296	93230325	75	87345											
ISG20L2	81875	broad.mit.edu	37	chr1	156696793	156696793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtccacaatgtggcagggggGaagaatgtactcgtcataaa	13	8	13	7	1	1	1	1	0	0	1	3	2	2	2	1	4	1	2	1	4	6	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:156696793G>A	uc001fps.1	-	1	913	c.652C>T	c.(652-654)CCC>TCC	p.P218S	ISG20L2_uc001fpt.1_Missense_Mutation_p.P218S|C1orf66_uc001fpu.2_5'Flank|C1orf66_uc001fpv.2_5'Flank	NM_030980	NP_112242	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene	218	Exonuclease.				ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGGCAGGGGGGAAGAATGTAC	0.522											OREG0013885	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	128					0	0	0.001168	0	0		A	156696793	A	A	156696793	3	1	160	1	0	0	0	0	1	0	0	0	7871	1174	41	4	421	4	ISG20L2	1	156696793	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	676497	156696793	92553828	76	87346											
OR10X1	128367	broad.mit.edu	37	chr1	158548958	158548958	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcttgccctcagctgaaggGatcctgaggacagtagaaat	11	9	12	9	0	1	3	1	2	0	1	2	5	2	5	2	2	3	3	2	2	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:158548958G>T	uc010pin.1	-	1	732	c.732C>A	c.(730-732)ATC>ATA	p.I244I		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	244	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CAGCTGAAGGGATCCTGAGGA	0.458													63	133					8.4772e-36	9.55723e-36	0.01441	1	0		T	158548958	T	T	158548958	2	4	160	1	0	0	0	0	0	0	0	1	10941	1164	41	5		5	OR10X1	1	158548958	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1852165	158548958	90701663	77	87347											
OR10J5	127385	broad.mit.edu	37	chr1	159505535	159505535	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaaggagataggttggttaTgaaaaatgaggctcaaaagc	16	8	12	5	0	1	3	1	2	0	1	1	4	1	3	1	4	1	3	1	4	7	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:159505535T>C	uc010piw.1	-	1	263	c.263A>G	c.(262-264)CAT>CGT	p.H88R		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					AGGTTGGTTATGAAAAATGAG	0.443													57	121					0	0	0.01441	0	0		C	159505535	C	C	159505535	3	2	160	1	0	0	0	0	1	0	0	0	10931	1464	51	3	668	3	OR10J5	1	159505535	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	956577	159505535	89745086	78	87348											
KCNJ10	3766	broad.mit.edu	37	chr1	160011433	160011433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctggcaggtaggaagtgCgcacctgacaggtggcactg	8	7	15	11	1	1	1	0	1	1	0	1	2	1	2	2	5	1	4	2	5	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:160011433C>T	uc001fuw.1	-	2	1040	c.890G>A	c.(889-891)CGC>CAC	p.R297H		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	297	Cytoplasmic (By similarity).		R -> C (in SESAME).			integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GTAGGAAGTGCGCACCTGACA	0.532													17	45					0	0	0.00499	0	0		T	160011433	T	T	160011433	3	4	160	1	0	0	0	0	1	0	0	0	8060	768	27	1	253	1	KCNJ10	1	160011433	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	505898	160011433	89239188	79	87349											
IGSF8	93185	broad.mit.edu	37	chr1	160064939	160064939	+	Silent	SNP	A	G	G	1	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	ttctgctgggcagggccctcAtagccggtcacattgcagga	7	9	13	12	1	3	0	2	0	1	0	3	1	3	1	2	4	3	3	2	4	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:160064939A>G	uc001fva.2	-	2	207	c.162T>C	c.(160-162)TAT>TAC	p.Y54Y	IGSF8_uc001fuz.2_Silent_p.Y54Y|IGSF8_uc009wtf.2_Silent_p.Y54Y	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	54	Ig-like C2-type 1.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CAGGGCCCTCATAGCCGGTCA	0.617													9	37					0	0	0.013537	0	0		G	160064939	G	G	160064939	2	3	160	1	0	0	0	0	0	0	0	1	7620	224	8	3		3	IGSF8	1	160064939	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	53506	160064939	89185682	80	87350											
ATP1A4	480	broad.mit.edu	37	chr1	160146362	160146362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggataatctggtgaaccacCgtctcattggcatggcctat	9	11	10	11	2	2	1	1	1	2	0	3	2	2	2	3	4	1	1	3	4	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:160146362C>T	uc001fve.3	+	17	3039	c.2560C>T	c.(2560-2562)CGT>TGT	p.R854C	ATP1A4_uc001fvf.3_Intron|ATP1A4_uc001fvg.2_Missense_Mutation_p.R357C|ATP1A4_uc001fvh.2_5'Flank	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	854	Helical; (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGTGAACCACCGTCTCATTGG	0.562													11	36					0	0	0.010729	0	0		T	160146362	T	T	160146362	3	4	160	1	0	0	0	0	1	0	0	0	1132	652	23	1	2626	1	ATP1A4	1	160146362	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	81423	160146362	89104259	81	87351											
SLAMF7	57823	broad.mit.edu	37	chr1	160722026	160722026	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggtttactccactgtggaAataccgaaaaaggtaagaag	16	8	10	7	2	0	1	0	0	0	1	1	3	1	2	2	3	2	2	2	3	7	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:160722026A>G	uc001fwq.2	+	6	939	c.924A>G	c.(922-924)GAA>GAG	p.E308E	SLAMF7_uc010pjn.1_Silent_p.E214E|SLAMF7_uc001fws.2_Silent_p.E201E|SLAMF7_uc001fwr.2_Missense_Mutation_p.N274D|SLAMF7_uc010pjo.1_Silent_p.E177E|SLAMF7_uc010pjp.1_Silent_p.E161E|SLAMF7_uc010pjq.1_Missense_Mutation_p.N143D|SLAMF7_uc010pjr.1_Missense_Mutation_p.N127D	NM_021181	NP_067004	Q9NQ25	SLAF7_HUMAN	SLAM family member 7	308	Cytoplasmic (Potential).				cell adhesion|natural killer cell activation|natural killer cell mediated cytotoxicity	integral to membrane	receptor activity			skin(2)|ovary(1)	3	all_cancers(52;2.63e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CCACTGTGGAAATACCGAAAA	0.363													31	43					0	0	0.013726	0	0		G	160722026	G	G	160722026	2	3	160	1	0	0	0	0	0	0	0	1	14394	11	1	3		3	SLAMF7	1	160722026	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	575664	160722026	88528595	82	87352											
LY9	4063	broad.mit.edu	37	chr1	160769735	160769735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcaaaagctacctgggccGactagacatcaccaagtgga	13	6	11	11	1	2	1	2	0	0	1	2	3	2	2	3	3	2	1	3	3	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:160769735G>A	uc001fwu.2	+	2	367	c.317G>A	c.(316-318)CGA>CAA	p.R106Q	LY9_uc001fwt.2_Missense_Mutation_p.R106Q|LY9_uc010pjs.1_Missense_Mutation_p.R106Q|LY9_uc001fwv.2_Missense_Mutation_p.R106Q|LY9_uc001fww.2_Missense_Mutation_p.R106Q|LY9_uc001fwx.2_Missense_Mutation_p.R106Q|LY9_uc001fwy.1_Missense_Mutation_p.R8Q	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	106	Extracellular (Potential).|Ig-like V-type 1.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			TACCTGGGCCGACTAGACATC	0.443													56	136					0	0	0.01441	0	0		A	160769735	A	A	160769735	3	1	160	1	0	0	0	0	1	0	0	0	9119	1058	37	1	323	1	LY9	1	160769735	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	47709	160769735	88480886	83	87353											
OLFML2B	25903	broad.mit.edu	37	chr1	161989766	161989766	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctgaagtctccctcgcaGggattgagggccgatggggg	7	7	17	10	2	1	2	0	2	1	0	3	4	1	3	3	4	1	1	3	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:161989766G>T	uc001gbu.2	-	2	805	c.381C>A	c.(379-381)CCC>CCA	p.P127P	OLFML2B_uc010pkq.1_Silent_p.P127P	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	127										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			CTCCCTCGCAGGGATTGAGGG	0.602													23	54					1.96895e-08	2.08922e-08	0.00278	1	0		T	161989766	T	T	161989766	2	4	160	1	0	0	0	0	0	0	0	1	10877	987	35	5		5	OLFML2B	1	161989766	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1220031	161989766	87260855	84	87354											
C1orf111	284680	broad.mit.edu	37	chr1	162343898	162343898	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttcagcaggactattgaaGgcctggcagctgccggagga	9	8	15	9	1	1	1	1	1	0	0	1	4	1	4	2	5	3	4	2	5	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:162343898G>T	uc001gbx.2	-	3	790	c.726C>A	c.(724-726)GCC>GCA	p.A242A		NM_182581	NP_872387	Q5T0L3	CA111_HUMAN	hypothetical protein LOC284680	242										ovary(1)	1	all_hematologic(112;0.15)		BRCA - Breast invasive adenocarcinoma(70;0.0938)			GACTATTGAAGGCCTGGCAGC	0.547													73	178					2.17451e-35	2.44959e-35	0.01441	1	0		T	162343898	T	T	162343898	2	4	160	1	0	0	0	0	0	0	0	1	1987	987	35	5		5	C1orf111	1	162343898	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	354132	162343898	86906723	85	87355											
MPZL1	9019	broad.mit.edu	37	chr1	167757115	167757115	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcacagtgacaagattaAcaagtcagagtctgtggtgt	14	10	10	7	0	3	3	2	1	1	2	3	3	3	3	0	1	1	0	0	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:167757115A>G	uc001geo.2	+	6	969	c.767A>G	c.(766-768)AAC>AGC	p.N256S	MPZL1_uc001gep.2_3'UTR|MPZL1_uc001geq.2_Missense_Mutation_p.N106S|MPZL1_uc009wvh.2_RNA	NM_003953	NP_003944	O95297	MPZL1_HUMAN	myelin protein zero-like 1 isoform a	256	Cytoplasmic (Potential).				cell-cell signaling|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	protein binding|structural molecule activity			ovary(2)	2	all_hematologic(923;0.215)					GACAAGATTAACAAGTCAGAG	0.453													4	111					0	0	0.009096	0	0		G	167757115	G	G	167757115	3	3	160	1	0	0	0	0	1	0	0	0	9767	43	2	3	789	3	MPZL1	1	167757115	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5413217	167757115	81493506	86	87356											
SLC19A2	10560	broad.mit.edu	37	chr1	169446628	169446628	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaggtaagagagatgacaTtcaggctgaacagcgaccag	15	5	12	9	1	1	4	1	2	0	2	1	6	1	4	1	2	2	2	1	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:169446628T>C	uc001gge.3	-	2	776	c.572A>G	c.(571-573)AAT>AGT	p.N191S	SLC19A2_uc001ggf.3_Intron	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	191	Extracellular (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					AGAGATGACATTCAGGCTGAA	0.502													30	55					0	0	0.00632	0	0		C	169446628	C	C	169446628	3	2	160	1	0	0	0	0	1	0	0	0	14454	1493	52	3	941	3	SLC19A2	1	169446628	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1689513	169446628	79803993	87	87357											
SELP	6403	broad.mit.edu	37	chr1	169560682	169560682	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	acctgtgaggattcaaggggCatttcccatcatctaaaatc	12	11	8	10	0	3	1	2	1	1	0	5	2	4	2	2	3	0	1	2	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:169560682C>A	uc001ggi.3	-	15	2485	c.2420G>T	c.(2419-2421)TGC>TTC	p.C807F	SELP_uc001ggh.2_Missense_Mutation_p.C602F|SELP_uc009wvr.2_Missense_Mutation_p.C806F	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	807	Cytoplasmic (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	ATTCAAGGGGCATTTCCCATC	0.313													27	70					2.61193e-14	2.83127e-14	0.009535	1	0		A	169560682	A	A	169560682	3	1	160	1	0	0	0	0	1	0	0	0	14044	710	25	5	80	5	SELP	1	169560682	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	114054	169560682	79689939	88	87358											
GORAB	92344	broad.mit.edu	37	chr1	170508634	170508634	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaactgggacttgagaattcCcatgatggtcacaacaatgt	13	10	10	8	0	1	2	1	2	0	1	2	5	2	3	1	2	2	0	1	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:170508634C>A	uc001gha.2	+	2	447	c.420C>A	c.(418-420)TCC>TCA	p.S140S	GORAB_uc009wvw.2_3'UTR|GORAB_uc001ggz.3_Silent_p.S140S|GORAB_uc009wvx.2_5'UTR|GORAB_uc001ghb.2_5'UTR|GORAB_uc001ghc.2_5'UTR	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a	140						Golgi apparatus|nucleus					0						TTGAGAATTCCCATGATGGTC	0.448													48	112					4.86159e-25	5.42878e-25	0.01441	1	0		A	170508634	A	A	170508634	2	1	160	1	0	0	0	0	0	0	0	1	6589	610	22	5		5	GORAB	1	170508634	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	947952	170508634	78741987	89	87359											
PRRX1	5396	broad.mit.edu	37	chr1	170633439	170633439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcccgggcaacctcgacaCcctgcaggcgaaaaagaact	13	3	10	15	3	0	1	0	0	0	1	1	3	0	1	3	2	4	2	3	2	4	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:170633439C>T	uc001ghf.2	+	1	127	c.80C>T	c.(79-81)ACC>ATC	p.T27I	PRRX1_uc001ghe.2_Missense_Mutation_p.T27I	NM_022716	NP_073207	P54821	PRRX1_HUMAN	paired mesoderm homeobox 1 isoform pmx-1b	27						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AACCTCGACACCCTGCAGGCG	0.662													3	13					0	0	0.004672	0	0		T	170633439	T	T	170633439	3	4	160	1	0	0	0	0	1	0	0	0	12634	507	18	4	82	4	PRRX1	1	170633439	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	124805	170633439	78617182	90	87360											
TNN	63923	broad.mit.edu	37	chr1	175096159	175096159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggcatattgacctggacgCccccctctgctcagatccac	7	9	9	16	1	2	2	1	1	1	1	3	3	3	3	5	2	1	2	5	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:175096159C>T	uc001gkl.1	+	13	3096	c.2983C>T	c.(2983-2985)CCC>TCC	p.P995S		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	995	Fibronectin type-III 9.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GACCTGGACGCCCCCCTCTGC	0.507													5	111					0	0	0.001168	0	0		T	175096159	T	T	175096159	3	4	160	1	0	0	0	0	1	0	0	0	16348	739	26	2	3029	2	TNN	1	175096159	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4462720	175096159	74154462	91	87361											
TNR	7143	broad.mit.edu	37	chr1	175331848	175331848	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttcctccctgccccgcacGctgttgaggctgatttcgta	4	13	9	15	3	0	2	0	2	0	0	3	2	2	2	4	1	1	5	4	1	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:175331848G>A	uc001gkp.1	-	12	2886	c.2805C>T	c.(2803-2805)AGC>AGT	p.S935S	TNR_uc009wwu.1_Silent_p.S935S	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	935	Fibronectin type-III 7.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TGCCCCGCACGCTGTTGAGGC	0.552													40	81					0	0	0.00874	0	0		A	175331848	A	A	175331848	2	1	160	1	0	0	0	0	0	0	0	1	16363	1078	38	1		1	TNR	1	175331848	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	235689	175331848	73918773	92	87362											
PAPPA2	60676	broad.mit.edu	37	chr1	176564398	176564398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gattcgtctgcagcacgaggCactgaatgaggccttcagcc	9	8	12	12	2	2	2	1	2	1	0	3	4	2	2	2	2	3	3	2	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:176564398C>T	uc001gkz.2	+	3	2822	c.1658C>T	c.(1657-1659)GCA>GTA	p.A553V	PAPPA2_uc001gky.1_Missense_Mutation_p.A553V|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	553	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						CAGCACGAGGCACTGAATGAG	0.562													13	53					0	0	0.004007	0	0		T	176564398	T	T	176564398	3	4	160	1	0	0	0	0	1	0	0	0	11452	710	25	2	1664	2	PAPPA2	1	176564398	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1232550	176564398	72686223	93	87363											
CACNA1E	777	broad.mit.edu	37	chr1	181706711	181706711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcgctactttgagatgtGcatcctcctggtgattgcag	6	13	11	11	1	0	2	0	2	0	1	2	3	2	2	3	1	4	3	3	1	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:181706711G>A	uc001gow.2	+	23	3638	c.3473G>A	c.(3472-3474)TGC>TAC	p.C1158Y	CACNA1E_uc009wxs.2_Missense_Mutation_p.C1046Y|CACNA1E_uc001gox.1_Missense_Mutation_p.C384Y|CACNA1E_uc009wxt.2_Missense_Mutation_p.C384Y	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1158	III.|Helical; Name=S1 of repeat III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TTTGAGATGTGCATCCTCCTG	0.637													29	83					0	0	0.007291	0	0		A	181706711	A	A	181706711	3	1	160	1	0	0	0	0	1	0	0	0	2545	1319	46	2	3563	2	CACNA1E	1	181706711	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5142313	181706711	67543910	94	87364											
C1orf14	81626	broad.mit.edu	37	chr1	182908622	182908622	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattaattctttcttcaatAagtgcagtataattctcaca	15	16	3	7	0	4	0	2	0	3	0	5	0	4	0	0	0	1	2	0	0	6	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:182908622A>G	uc001gpu.2	-	4	1122	c.837T>C	c.(835-837)CTT>CTC	p.L279L	C1orf14_uc001gpv.2_Silent_p.L160L|C1orf14_uc010pnz.1_Silent_p.L137L|C1orf14_uc001gpw.2_5'UTR	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	351											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		TTTCTTCAATAAGTGCAGTAT	0.284													19	33					0	0	0.008871	0	0		G	182908622	G	G	182908622	2	3	160	1	0	0	0	0	0	0	0	1	2003	349	13	3		3	C1orf14	1	182908622	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1201911	182908622	66341999	95	87365											
LAMC2	3918	broad.mit.edu	37	chr1	183190045	183190045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcattcagccagctgcCgcagctctgcagaatacagt	10	8	11	12	1	2	1	1	0	1	1	2	1	2	1	2	1	6	5	2	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:183190045C>T	uc001gqa.2	+	5	903	c.589C>T	c.(589-591)CGC>TGC	p.R197C	LAMC2_uc001gpz.3_Missense_Mutation_p.R197C|LAMC2_uc010poa.1_5'UTR	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	197					cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						AGCCAGCTGCCGCAGCTCTGC	0.468													8	100					0	0	0.00308	0	0		T	183190045	T	T	183190045	3	4	160	1	0	0	0	0	1	0	0	0	8631	652	23	1	607	1	LAMC2	1	183190045	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	281423	183190045	66060576	96	87366											
LAMC2	3918	broad.mit.edu	37	chr1	183206601	183206601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggaaactggaaagaagaaGcacagcagctcttacagaat	17	6	11	7	0	1	3	0	0	1	3	1	5	1	5	0	2	5	3	0	2	6	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:183206601G>A	uc001gqa.2	+	18	3030	c.2716G>A	c.(2716-2718)GCA>ACA	p.A906T	LAMC2_uc001gpz.3_Missense_Mutation_p.A906T|LAMC2_uc010poa.1_Missense_Mutation_p.A606T	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	906	Potential.|Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						GAAAGAAGAAGCACAGCAGCT	0.328													20	56					0	0	0.007413	0	0		A	183206601	A	A	183206601	3	1	160	1	0	0	0	0	1	0	0	0	8631	971	34	2	2786	2	LAMC2	1	183206601	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	16556	183206601	66044020	97	87367											
RGL1	23179	broad.mit.edu	37	chr1	183861220	183861220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttttcatagggaccgaatGctgatgtttgaagaactttc	10	14	9	8	1	1	3	1	2	0	1	2	5	1	4	2	1	2	2	2	1	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:183861220G>A	uc001gqo.2	+	9	1222	c.1065G>A	c.(1063-1065)ATG>ATA	p.M355I	RGL1_uc010pof.1_Missense_Mutation_p.M160I|RGL1_uc001gqm.2_Missense_Mutation_p.M390I|RGL1_uc010pog.1_Missense_Mutation_p.M353I|RGL1_uc010poh.1_Missense_Mutation_p.M353I|RGL1_uc010poi.1_Missense_Mutation_p.M355I	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	355	Ras-GEF.				cellular lipid metabolic process|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	protein binding|Ral guanyl-nucleotide exchange factor activity			breast(5)|ovary(4)|lung(2)	11						GGGACCGAATGCTGATGTTTG	0.423													4	86					0	0	0.009096	0	0		A	183861220	A	A	183861220	3	1	160	1	0	0	0	0	1	0	0	0	13301	1319	46	2	1204	2	RGL1	1	183861220	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	654619	183861220	65389401	98	87368											
HMCN1	83872	broad.mit.edu	37	chr1	186037087	186037087	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctccagctaccatcacctgGtttaaggatggcactccttt	8	12	7	14	0	1	0	1	0	0	0	3	1	3	1	5	3	2	3	5	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:186037087G>A	uc001grq.1	+	50	8056	c.7827G>A	c.(7825-7827)TGG>TGA	p.W2609*		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2609	Ig-like C2-type 24.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCATCACCTGGTTTAAGGATG	0.423													75	184					0	0	0.01441	0	0		A	186037087	A	A	186037087	4	1	160	1	0	0	0	0	0	1	0	0	7236	1270	44	4	8025	4	HMCN1	1	186037087	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2175867	186037087	63213534	99	87369											
HMCN1	83872	broad.mit.edu	37	chr1	186140530	186140530	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtttcaatgccataggaagTttccattgtggatgtgaacc	10	14	10	7	0	1	1	1	1	0	0	2	3	2	3	3	2	2	2	3	2	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:186140530T>C	uc001grq.1	+	101	15865	c.15636T>C	c.(15634-15636)AGT>AGC	p.S5212S	HMCN1_uc001grs.1_Silent_p.S781S	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5212	EGF-like 3; calcium-binding (Potential).				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCATAGGAAGTTTCCATTGTG	0.378													6	277					0	0	0.001984	0	0		C	186140530	C	C	186140530	2	2	160	1	0	0	0	0	0	0	0	1	7236	1722	60	3		3	HMCN1	1	186140530	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	103443	186140530	63110091	100	87370											
PRG4	10216	broad.mit.edu	37	chr1	186277106	186277106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgacaagcccgctccaaCtacccctaaggggactgctc	9	7	9	16	1	0	1	0	1	0	0	2	2	1	2	4	2	4	2	4	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:186277106C>T	uc001gru.3	+	7	2306	c.2255C>T	c.(2254-2256)ACT>ATT	p.T752I	PRG4_uc001grt.3_Missense_Mutation_p.T711I|PRG4_uc009wyl.2_Missense_Mutation_p.T659I|PRG4_uc009wym.2_Missense_Mutation_p.T618I|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	752	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|47; approximate.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCCGCTCCAACTACCCCTAAG	0.602													43	117					0	0	0.011902	0	0		T	186277106	T	T	186277106	3	4	160	1	0	0	0	0	1	0	0	0	12503	565	20	4	2277	4	PRG4	1	186277106	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	136576	186277106	62973515	101	87371											
PTGS2	5743	broad.mit.edu	37	chr1	186646796	186646796	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaccccatggcccagcccGttggtgaaagctggccctcg	6	8	11	16	2	0	1	0	1	0	0	1	1	0	1	5	3	3	2	5	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:186646796G>A	uc001gsb.2	-	5	761	c.624C>T	c.(622-624)AAC>AAT	p.N208N	PTGS2_uc009wyo.2_Silent_p.N55N	NM_000963	NP_000954	P35354	PGH2_HUMAN	prostaglandin-endoperoxide synthase 2 precursor	208					cellular component movement|cyclooxygenase pathway|hormone biosynthetic process|positive regulation of brown fat cell differentiation|positive regulation of cell migration involved in sprouting angiogenesis|positive regulation of fever generation|positive regulation of fibroblast growth factor production|positive regulation of nitric oxide biosynthetic process|positive regulation of platelet-derived growth factor production|positive regulation of prostaglandin biosynthetic process|positive regulation of transforming growth factor-beta production|positive regulation vascular endothelial growth factor production|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|microsome|neuron projection|nucleus	enzyme binding|heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|central_nervous_system(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Carprofen(DB00821)|Celecoxib(DB00482)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Epoprostenol(DB01240)|Etodolac(DB00749)|Etoricoxib(DB01628)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ginseng(DB01404)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lenalidomide(DB00480)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Meloxicam(DB00814)|Mesalazine(DB00244)|Nabumetone(DB00461)|Naproxen(DB00788)|Oxaprozin(DB00991)|Phenylbutazone(DB00812)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Thalidomide(DB01041)|Tiaprofenic acid(DB01600)|Tolmetin(DB00500)|Valdecoxib(DB00580)	GGCCCAGCCCGTTGGTGAAAG	0.423													4	209					0	0	0.009096	0	0		A	186646796	A	A	186646796	2	1	160	1	0	0	0	0	0	0	0	1	12779	1136	40	1		1	PTGS2	1	186646796	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	369690	186646796	62603825	102	87372											
RGS1	5996	broad.mit.edu	37	chr1	192545020	192545020	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaggaaccactcattcacTtctagacgacaaaatgcaaa	18	7	6	10	1	3	1	2	0	1	1	3	4	3	2	1	1	2	1	1	1	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:192545020T>G	uc001gsi.1	+	1	164	c.98T>G	c.(97-99)CTT>CGT	p.L33R	RGS1_uc010pou.1_Missense_Mutation_p.L33R	NM_002922	NP_002913	Q08116	RGS1_HUMAN	regulator of G-protein signalling 1	33					immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|negative regulation of signal transduction	cytoplasm|plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity				0		Breast(1374;0.188)				ACTCATTCACTTCTAGACGAC	0.408													32	76					0	0	0.012213	0	0		G	192545020	G	G	192545020	3	3	160	1	0	0	0	0	1	0	0	0	13317	1609	56	5	100	5	RGS1	1	192545020	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	5898224	192545020	56705601	103	87373											
B3GALT2	8707	broad.mit.edu	37	chr1	193149798	193149798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttgggtagaggtctggtgGcatgtaccacttgctatctt	7	14	12	8	0	2	1	0	0	2	1	2	1	2	1	1	4	2	4	1	4	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:193149798G>A	uc001gtc.3	-	2	1610	c.895C>T	c.(895-897)CCA>TCA	p.P299S	CDC73_uc001gtb.2_Intron	NM_003783	NP_003774	O43825	B3GT2_HUMAN	UDP-Gal:betaGlcNAc beta	299	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1						AGGTCTGGTGGCATGTACCAC	0.423													49	102					0	0	0.01441	0	0		A	193149798	A	A	193149798	3	1	160	1	0	0	0	0	1	0	0	0	1249	1203	42	2	377	2	B3GALT2	1	193149798	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	604778	193149798	56100823	104	87374											
C1orf106	55765	broad.mit.edu	37	chr1	200880697	200880697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcccgcgaccaagccccCgctgccccacgccgcctgcc	4	5	8	24	5	0	0	0	0	0	0	1	1	1	0	9	0	3	1	9	0	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:200880697C>T	uc001gvo.2	+	9	1361	c.1331C>T	c.(1330-1332)CCG>CTG	p.P444L	C1orf106_uc010ppm.1_Missense_Mutation_p.P359L	NM_018265	NP_060735	Q3KP66	CA106_HUMAN	hypothetical protein LOC55765 isoform 1	444										skin(2)|ovary(1)	3						ACCAAGCCCCCGCTGCCCCAC	0.692													29	76					0	0	0.012213	0	0		T	200880697	T	T	200880697	3	4	160	1	0	0	0	0	1	0	0	0	1983	652	23	1	1365	1	C1orf106	1	200880697	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	7730899	200880697	48369924	105	87375											
CACNA1S	779	broad.mit.edu	37	chr1	201039450	201039450	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcttctggaatgggcacGgccttctctttcagctgcag	5	12	12	12	1	3	0	1	0	2	0	4	1	3	1	1	4	2	4	1	4	1	3	rs113659687	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:201039450G>A	uc001gvv.2	-	17	2537	c.2310C>T	c.(2308-2310)GCC>GCT	p.A770A		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	770	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GAATGGGCACGGCCTTCTCTT	0.607													45	86					0	0	0.013114	0	0		A	201039450	A	A	201039450	2	1	160	1	0	0	0	0	0	0	0	1	2550	1103	39	1		1	CACNA1S	1	201039450	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	158753	201039450	48211171	106	87376											
PKP1	5317	broad.mit.edu	37	chr1	201291200	201291200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagctggagtataacgcccGcaacgcctacaccgagaagt	12	5	10	14	4	0	1	0	0	0	1	0	3	0	2	4	1	4	3	4	1	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:201291200G>A	uc001gwd.2	+	9	1756	c.1505G>A	c.(1504-1506)CGC>CAC	p.R502H	PKP1_uc001gwe.2_Missense_Mutation_p.R481H|PKP1_uc009wzm.2_Missense_Mutation_p.R89H	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	502					cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						TATAACGCCCGCAACGCCTAC	0.607													14	43					0	0	0.008871	0	0		A	201291200	A	A	201291200	3	1	160	1	0	0	0	0	1	0	0	0	12003	1087	38	1	1539	1	PKP1	1	201291200	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	251750	201291200	47959421	107	87377											
ELF3	1999	broad.mit.edu	37	chr1	201984366	201984366	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaacgggagatcctggaacGggtggatggccggcgactcg	9	5	17	10	5	0	1	0	0	0	1	2	5	1	3	2	6	2	0	2	6	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:201984366G>T	uc001gxg.3	+	8	4223	c.1031G>T	c.(1030-1032)CGG>CTG	p.R344L	ELF3_uc001gxi.3_Missense_Mutation_p.R344L|ELF3_uc001gxh.3_Missense_Mutation_p.R344L	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	344	ETS.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						ATCCTGGAACGGGTGGATGGC	0.567													16	45					4.75885e-15	5.17842e-15	0.00499	1	0		T	201984366	T	T	201984366	3	4	160	1	0	0	0	0	1	0	0	0	5063	1116	39	5	1061	5	ELF3	1	201984366	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	693166	201984366	47266255	108	87378											
PTPN7	5778	broad.mit.edu	37	chr1	202128510	202128510	+	Frame_Shift_Del	DEL	C	-	-																															aacggctgtgctctggagcgCcccccatgggcttggaccat																								rs144275491		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:202128510delC	uc001gxm.1	-	2	152	c.21delG	c.(19-21)GGGfs	p.G7fs	PTPN7_uc001gxl.1_Frame_Shift_Del_p.G46fs|PTPN7_uc001gxn.1_Frame_Shift_Del_p.G7fs|PTPN7_uc010ppv.1_5'UTR|PTPN7_uc010ppw.1_5'UTR|PTPN7_uc010ppx.1_Frame_Shift_Del_p.G81fs|PTPN7_uc010ppy.1_RNA|PTPN7_uc001gxo.1_5'Flank	NM_002832	NP_002823	P35236	PTN7_HUMAN	protein tyrosine phosphatase, non-receptor type	7						cytosol|internal side of plasma membrane	protein binding|protein tyrosine phosphatase activity			skin(1)	1						CTCTGGAGCGCCCCCCATGGG	0.632													25	49	---	---	---	---						.	-	202128510	-	-	202128510	7	5	160	1	0	1	0	1	0	0	0	0	12818	726	26	0	1097	0	PTPN7	1	202128510	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	144144	202128510	47122111	109	87379											
MYBPH	4608	broad.mit.edu	37	chr1	203138136	203138136	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgggtttccggatctctaGggtgcagacgccttgctcag	5	11	14	11	2	2	1	1	0	1	1	4	2	3	2	2	3	2	4	2	3	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:203138136G>T	uc001gzh.1	-	9	1374	c.1315C>A	c.(1315-1317)CTA>ATA	p.L439I	FMOD_uc010pqi.1_Intron	NM_004997	NP_004988	Q13203	MYBPH_HUMAN	myosin binding protein H	439	Ig-like C2-type 2.				cell adhesion|regulation of striated muscle contraction	myosin filament	structural constituent of muscle				0			BRCA - Breast invasive adenocarcinoma(75;0.153)	Colorectal(1306;0.0306)		CGGATCTCTAGGGTGCAGACG	0.562													65	171					2.60599e-31	2.9333e-31	0.01441	1	0		T	203138136	T	T	203138136	3	4	160	1	0	0	0	0	1	0	0	0	10032	991	35	5	126	5	MYBPH	1	203138136	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1009626	203138136	46112485	110	87380											
PLEKHA6	22874	broad.mit.edu	37	chr1	204214839	204214839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctccttttggatttgccGgttcagcacctcattctgaa	7	15	8	11	1	4	1	2	1	2	0	5	3	4	2	3	2	2	2	3	2	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:204214839G>A	uc001hau.2	-	14	2253	c.1936C>T	c.(1936-1938)CGG>TGG	p.R646W	PLEKHA6_uc009xau.1_5'Flank|PLEKHA6_uc009xav.1_5'Flank	NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	646										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			TGGATTTGCCGGTTCAGCACC	0.582													19	83					0	0	0.008871	0	0		A	204214839	A	A	204214839	3	1	160	1	0	0	0	0	1	0	0	0	12079	1115	39	1	1246	1	PLEKHA6	1	204214839	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1076703	204214839	45035782	111	87381											
PIK3C2B	5287	broad.mit.edu	37	chr1	204438816	204438816	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttgtcatgccggagccGggacagggcatcatactcca	8	8	11	14	2	2	0	2	0	0	0	4	2	4	2	4	3	3	1	4	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:204438816G>T	uc001haw.2	-	3	594	c.115C>A	c.(115-117)CGG>AGG	p.R39R	PIK3C2B_uc010pqv.1_Silent_p.R39R|PIK3C2B_uc001hax.1_Silent_p.R39R|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	39	Interaction with GRB2.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TGCCGGAGCCGGGACAGGGCA	0.592													26	63					4.87955e-14	5.28118e-14	0.005443	1	0		T	204438816	T	T	204438816	2	4	160	1	0	0	0	0	0	0	0	1	11929	1115	39	5		5	PIK3C2B	1	204438816	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	223977	204438816	44811805	112	87382											
PIGR	5284	broad.mit.edu	37	chr1	207107960	207107960	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcttggctgggcagggcctGgcagcccgtgttattccact	4	11	14	12	1	1	0	0	0	1	0	2	0	2	0	3	4	1	4	3	4	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:207107960G>A	uc001hez.2	-	6	1694	c.1510C>T	c.(1510-1512)CAG>TAG	p.Q504*	PIGR_uc009xbz.2_Nonsense_Mutation_p.Q504*	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	504	Ig-like V-type 5.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GGCAGGGCCTGGCAGCCCGTG	0.587													34	110					0	0	0.006999	0	0		A	207107960	A	A	207107960	4	1	160	1	0	0	0	0	0	1	0	0	11916	1357	47	4	808	4	PIGR	1	207107960	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2669144	207107960	42142661	113	87383											
PLXNA2	5362	broad.mit.edu	37	chr1	208218053	208218053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctgagatgacactcaccGagccaggcgagaacaccatc	12	6	10	13	2	2	3	1	2	1	2	3	6	2	3	3	1	2	0	3	1	1	0	rs140111660		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:208218053G>A	uc001hgz.2	-	20	4432	c.3674C>T	c.(3673-3675)TCG>TTG	p.S1225L		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1225	IPT/TIG 4.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		GACACTCACCGAGCCAGGCGA	0.597													9	23					0	0	0.006214	0	0		A	208218053	A	A	208218053	3	1	160	1	0	0	0	0	1	0	0	0	12139	1059	37	1	2062	1	PLXNA2	1	208218053	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1110093	208218053	41032568	114	87384											
USH2A	7399	broad.mit.edu	37	chr1	216052336	216052336	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatgagtaactttttgactTaacactgcggaagtcacatt	13	13	8	7	1	1	3	1	2	0	1	1	4	1	4	0	1	3	1	0	1	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:216052336T>C	uc001hku.1	-	42	8715	c.8328A>G	c.(8326-8328)TTA>TTG	p.L2776L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2776	Fibronectin type-III 14.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTTTTTGACTTAACACTGCGG	0.448										HNSCC(13;0.011)			58	152					0	0	0.01441	0	0		C	216052336	C	C	216052336	2	2	160	1	0	0	0	0	0	0	0	1	17062	1751	61	3		3	USH2A	1	216052336	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	7834283	216052336	33198285	115	87385											
MIA3	375056	broad.mit.edu	37	chr1	222828037	222828037	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgaccgcaactcactacaAgctgccaaagctggactgga	13	6	10	12	1	1	1	1	1	0	0	1	4	1	3	2	2	5	3	2	2	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:222828037A>C	uc001hnl.2	+	18	4518	c.4509A>C	c.(4507-4509)CAA>CAC	p.Q1503H	MIA3_uc001hnm.2_Missense_Mutation_p.Q381H	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	1503	Cytoplasmic (Potential).|Potential.				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		ACTCACTACAAGCTGCCAAAG	0.423													33	115					0	0	0.004289	0	0		C	222828037	C	C	222828037	3	2	160	1	0	0	0	0	1	0	0	0	9583	69	3	5	4579	5	MIA3	1	222828037	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	6775701	222828037	26422584	116	87386											
TLR5	7100	broad.mit.edu	37	chr1	223285360	223285360	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tatgacaaattgagaacttgGaggttgtcaagtccgtaaaa	15	11	10	5	1	1	2	1	2	0	1	2	4	2	3	1	2	1	2	1	2	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:223285360G>A	uc001hnv.1	-	4	1460	c.1014C>T	c.(1012-1014)CTC>CTT	p.L338L	TLR5_uc001hnw.1_Silent_p.L338L	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	338	Extracellular (Potential).|LRR 7.				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		TGAGAACTTGGAGGTTGTCAA	0.388													83	221					0	0	0.01441	0	0		A	223285360	A	A	223285360	2	1	160	1	0	0	0	0	0	0	0	1	15979	1161	41	4		4	TLR5	1	223285360	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	457323	223285360	25965261	117	87387											
TP53BP2	7159	broad.mit.edu	37	chr1	223981100	223981100	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcaccctcattccatgagCgatacgctctgagccagttt	8	13	7	13	2	3	2	2	2	1	0	4	3	4	2	3	0	3	2	3	0	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:223981100C>T	uc010pvb.1	-	14	3059	c.2767G>A	c.(2767-2769)GCT>ACT	p.A923T	TP53BP2_uc001hod.2_Missense_Mutation_p.A794T|TP53BP2_uc010puz.1_Missense_Mutation_p.A156T|TP53BP2_uc010pva.1_Missense_Mutation_p.A562T	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	917	Mediates interaction with APC2.				apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		ATTCCATGAGCGATACGCTCT	0.423													4	207					0	0	0.009096	0	0		T	223981100	T	T	223981100	3	4	160	1	0	0	0	0	1	0	0	0	16410	768	27	1	657	1	TP53BP2	1	223981100	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	695740	223981100	25269521	118	87388											
DEGS1	8560	broad.mit.edu	37	chr1	224363470	224363470	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	gcgagagggccgggagaggaCgccggagggaaaggaagggg	11	0	24	6	4	0	2	0	0	0	2	0	8	0	6	2	8	0	0	2	8	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:224363470C>T	uc001hoi.2	+	1	13	c.-160C>T	c.(-162--158)GACGC>GATGC			NM_144780	NP_659004	O15121	DEGS1_HUMAN	degenerative spermatocyte homolog 1, lipid						sphingolipid metabolic process|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	electron carrier activity|protein binding|sphingolipid delta-4 desaturase activity				0	Breast(184;0.193)			GBM - Glioblastoma multiforme(131;0.00643)		CGGGAGAGGACGCCGGAGGGA	0.642													11	14					0	0	0.008291	0	0		T	224363470	T	T	224363470	1	4	160	1	0	0	0	0	0	0	0	0	4428	551	19	1		1	DEGS1	1	224363470	Translation_Start_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08	382370	224363470	24887151	119	87389											
LBR	3930	broad.mit.edu	37	chr1	225591105	225591105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtactcgtcacgagcttctCggtggacaagcaacatggtg	9	9	13	10	3	2	0	1	0	1	0	4	2	2	1	0	4	4	3	0	4	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:225591105C>T	uc001hoy.2	-	14	1891	c.1748G>A	c.(1747-1749)CGA>CAA	p.R583Q	LBR_uc001hoz.2_Missense_Mutation_p.R583Q	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	583					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		ACGAGCTTCTCGGTGGACAAG	0.383													47	105					0	0	0.013114	0	0		T	225591105	T	T	225591105	3	4	160	1	0	0	0	0	1	0	0	0	8668	884	31	1	103	1	LBR	1	225591105	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1227635	225591105	23659516	120	87390											
TMEM63A	9725	broad.mit.edu	37	chr1	226044616	226044616	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcccgggcactcacttggtCcagtgagactccagcagtgt	7	9	11	14	1	1	1	1	1	0	1	4	2	4	1	3	2	1	2	3	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:226044616C>T	uc001hpm.1	-	16	1729	c.1479G>A	c.(1477-1479)TGG>TGA	p.W493*		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	493						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					CTCACTTGGTCCAGTGAGACT	0.612													9	24					0	0	0.006214	0	0		T	226044616	T	T	226044616	4	4	160	1	0	0	0	0	0	1	0	0	16215	856	30	4	980	4	TMEM63A	1	226044616	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	453511	226044616	23206005	121	87391											
OBSCN	84033	broad.mit.edu	37	chr1	228444500	228444500	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaagctgagcttcagctcGaaagtgcgcatggaggctgt	11	8	14	8	2	1	2	1	1	0	1	2	4	1	3	0	2	4	5	0	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:228444500G>A	uc009xez.1	+	15	4502	c.4458G>A	c.(4456-4458)TCG>TCA	p.S1486S	OBSCN_uc001hsn.2_Silent_p.S1486S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1486	Ig-like 15.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCTTCAGCTCGAAAGTGCGCA	0.687													12	28					0	0	0.004007	0	0		A	228444500	A	A	228444500	2	1	160	1	0	0	0	0	0	0	0	1	10831	1045	37	1		1	OBSCN	1	228444500	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2399884	228444500	20806121	122	87392											
OBSCN	84033	broad.mit.edu	37	chr1	228538569	228538569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggttcgtgaacaaggtccGggcctcaccctttgtggagg	7	9	14	11	3	1	1	1	1	0	0	3	2	2	2	3	5	1	1	3	5	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:228538569G>A	uc009xez.1	+	77	18388	c.18344G>A	c.(18343-18345)CGG>CAG	p.R6115Q	OBSCN_uc001hsn.2_Missense_Mutation_p.R6115Q|OBSCN_uc001hsr.1_Missense_Mutation_p.R744Q|OBSCN_uc009xfa.2_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6115	Ig-like 53.			R -> L (in Ref. 1; CAC44768).	apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AACAAGGTCCGGGCCTCACCC	0.488													10	41					0	0	0.008291	0	0		A	228538569	A	A	228538569	3	1	160	1	0	0	0	0	1	0	0	0	10831	1116	39	1	18646	1	OBSCN	1	228538569	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	94069	228538569	20712052	123	87393											
GALNT2	2590	broad.mit.edu	37	chr1	230372168	230372168	+	Splice_Site	SNP	T	C	C	0	1	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	gatgactacagcaatgatcgTgagtactgacactgatttta	13	12	9	7	1	0	5	0	5	0	0	1	6	0	5	0	0	3	2	0	0	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:230372168T>C	uc010pwa.1	+	5	613	c.541_splice	c.e5+2	p.P181_splice	GALNT2_uc010pvy.1_Splice_Site_p.P143_splice|GALNT2_uc010pvz.1_Splice_Site	NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2						immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				GCAATGATCGTGAGTACTGAC	0.448													35	65					0	0	0.003755	0	0		C	230372168	C	C	230372168	5	2	160	1	0	0	0	0	0	0	1	0	6228	1710	59	3	561	3	GALNT2	1	230372168	Splice_Site	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1833599	230372168	18878453	124	87394											
HEATR1	55127	broad.mit.edu	37	chr1	236715409	236715409	+	Splice_Site	SNP	T	C	C	0	1	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	tcaaagcagcaaatcgaaccTgaaagggataaaagagcaaa	21	4	9	7	1	1	2	1	1	0	1	2	4	1	3	1	1	4	3	1	1	7	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:236715409T>C	uc001hyd.1	-	44	6363	c.6238_splice	c.e44-1	p.V2080_splice	HEATR1_uc009xgh.1_Splice_Site_p.V1242_splice	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28						rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			AAATCGAACCTGAAAGGGATA	0.338													59	184					0	0	0.01441	0	0		C	236715409	C	C	236715409	5	2	160	1	0	0	0	0	0	0	1	0	7043	1594	55	3	206	3	HEATR1	1	236715409	Splice_Site	SNP	T	TCGA-CG-5733-01A-11D-1600-08	6343241	236715409	12535212	125	87395											
OPN3	23596	broad.mit.edu	37	chr1	241767854	241767854	+	Missense_Mutation	SNP	A	G	G	1	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	tgtaacgttcataggccagcAcggttagggtggcaatggaa	11	9	14	7	2	1	0	1	0	0	0	1	1	1	1	1	5	2	5	1	5	5	4	rs117720055	by1000genomes	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:241767854A>G	uc001hza.2	-	2	546	c.401T>C	c.(400-402)GTG>GCG	p.V134A	OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_Intron	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	134	Helical; Name=3; (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			ATAGGCCAGCACGGTTAGGGT	0.507													8	27					0	0	0.006214	0	0		G	241767854	G	G	241767854	3	3	160	1	0	0	0	0	1	0	0	0	10900	159	6	3	819	3	OPN3	1	241767854	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5052445	241767854	7482767	126	87396											
OR2M3	127062	broad.mit.edu	37	chr1	248366502	248366502	+	Missense_Mutation	SNP	A	G	G	1	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	ccttcatgggaaactctgtcAtggttctcctcatctacctg	7	14	7	13	0	6	0	3	0	3	0	7	1	6	1	3	2	2	1	3	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:248366502A>G	uc010pzg.1	+	1	133	c.133A>G	c.(133-135)ATG>GTG	p.M45V		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|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)			AAACTCTGTCATGGTTCTCCT	0.547													7	563					0	0	0.006214	0	0		G	248366502	G	G	248366502	3	3	160	1	0	0	0	0	1	0	0	0	11030	217	8	3	135	3	OR2M3	1	248366502	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	6598648	248366502	884119	127	87397											
ZNF692	55657	broad.mit.edu	37	chr1	249150585	249150585	+	Silent	SNP	T	C	C	0	1	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	tcctcaccctcttcctctccTggaggtgggaaggtctctgg	4	12	11	14	0	4	0	1	0	3	0	8	2	6	2	4	5	0	0	4	5	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr1:249150585T>C	uc001ifc.1	-	6	728	c.561A>G	c.(559-561)CCA>CCG	p.P187P	ZNF692_uc001iez.1_5'Flank|ZNF692_uc001ifa.1_5'UTR|ZNF692_uc001ifb.1_5'UTR|ZNF692_uc001ifd.1_Silent_p.P187P|ZNF692_uc001ife.1_RNA|ZNF692_uc001iff.1_Intron|ZNF692_uc010pzr.1_Silent_p.P192P	NM_017865	NP_060335	Q9BU19	ZN692_HUMAN	zinc finger protein 692 isoform 2	187					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			cttcctctcctGGAGGTGGGA	0.448													16	47					0	0	0.00499	0	0		C	249150585	C	C	249150585	2	2	160	1	0	0	0	0	0	0	0	1	18122	1567	55	3		3	ZNF692	1	249150585	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	784083	249150585	100036	128	87398											
TPO	7173	broad.mit.edu	37	chr2	1497702	1497702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaagcatcctgacaacatcGatgtctggctgggaggctta	11	9	11	10	1	1	1	0	1	1	0	3	3	2	2	1	3	2	3	1	3	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:1497702G>A	uc002qww.2	+	11	1988	c.1897G>A	c.(1897-1899)GAT>AAT	p.D633N	TPO_uc010ewj.2_RNA|TPO_uc002qwu.2_Missense_Mutation_p.D576N|TPO_uc002qwr.2_Missense_Mutation_p.D633N|TPO_uc002qwx.2_Missense_Mutation_p.D576N|TPO_uc010yio.1_Missense_Mutation_p.D460N|TPO_uc010yip.1_Missense_Mutation_p.D633N|TPO_uc002qwy.1_5'UTR|TPO_uc002qwz.2_RNA	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	633	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	TGACAACATCGATGTCTGGCT	0.607													12	41					0	0	0.001855	0	0		A	1497702	A	A	1497702	3	1	160	1	0	0	0	0	1	0	0	0	16436	1058	37	1	1935	1	TPO	2	1497702	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08		1497702	241701671	129	87399											
ASAP2	8853	broad.mit.edu	37	chr2	9531313	9531313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgctgccccctcttcgcGtgacatctaccagtacgttt	6	11	7	17	4	2	1	0	1	2	0	3	1	2	1	4	0	3	3	4	0	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:9531313G>A	uc002qzh.2	+	23	2846	c.2506G>A	c.(2506-2508)GTG>ATG	p.V836M	ASAP2_uc002qzi.2_Intron	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	836	Pro-rich.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						CCCTCTTCGCGTGACATCTAC	0.572													63	123					0	0	0.01441	0	0		A	9531313	A	A	9531313	3	1	160	1	0	0	0	0	1	0	0	0	1012	1145	40	1	2596	1	ASAP2	2	9531313	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	8033611	9531313	233668060	130	87400											
ITGB1BP1	9270	broad.mit.edu	37	chr2	9558782	9558782	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagtactgatttcgctactTtgggaactgctactactgtg	8	16	9	8	1	0	1	0	1	0	0	1	2	0	2	0	1	6	3	0	1	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:9558782T>A	uc002qzj.2	-	2	222	c.45A>T	c.(43-45)CAA>CAT	p.Q15H	ITGB1BP1_uc002qzk.2_Missense_Mutation_p.Q15H|ITGB1BP1_uc002qzl.2_RNA|ITGB1BP1_uc002qzm.2_RNA|ITGB1BP1_uc010yiy.1_Intron|ITGB1BP1_uc002qzn.1_Missense_Mutation_p.Q15H	NM_004763	NP_004754	O14713	ITBP1_HUMAN	integrin cytoplasmic domain-associated protein 1	15	Ser/Thr-rich.				cell migration|cell-matrix adhesion|intracellular protein kinase cascade	cytosol|lamellipodium|membrane|ruffle	protein binding|protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.23)		TTTCGCTACTTTGGGAACTGC	0.393													155	415					0	0	0.01441	0	0		A	9558782	A	A	9558782	3	1	160	1	0	0	0	0	1	0	0	0	7907	1838	64	5	581	5	ITGB1BP1	2	9558782	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	27469	9558782	233640591	131	87401											
NCOA1	8648	broad.mit.edu	37	chr2	24930579	24930579	+	Missense_Mutation	SNP	A	G	G	1	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	aaaagaatcaaaagaccatcAgctcctacgctatcttttag	16	10	5	10	1	3	2	2	0	1	2	4	2	4	2	2	0	2	2	2	0	8	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:24930579A>G	uc002rfk.2	+	11	2498	c.2240A>G	c.(2239-2241)CAG>CGG	p.Q747R	NCOA1_uc010eye.2_Missense_Mutation_p.Q747R|NCOA1_uc002rfi.2_Missense_Mutation_p.Q596R|NCOA1_uc002rfj.2_Missense_Mutation_p.Q747R|NCOA1_uc002rfl.2_Missense_Mutation_p.Q747R	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	747									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAAGACCATCAGCTCCTACGC	0.383			T	PAX3	alveolar rhadomyosarcoma								22	61					0	0	0.014323	0	0		G	24930579	G	G	24930579	3	3	160	1	0	0	0	0	1	0	0	0	10247	188	7	3	2274	3	NCOA1	2	24930579	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	15371797	24930579	218268794	132	87402											
OTOF	9381	broad.mit.edu	37	chr2	26750774	26750774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcgatgctgctggccacCggccaccgaaatgtctgggg	6	8	14	13	3	1	0	0	0	1	0	2	2	1	0	4	4	2	2	4	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:26750774C>T	uc002rhk.2	-	3	280	c.153G>A	c.(151-153)CCG>CCA	p.P51P		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	51	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCTGGCCACCGGCCACCGAA	0.557													11	46					0	0	0.007413	0	0		T	26750774	T	T	26750774	2	4	160	1	0	0	0	0	0	0	0	1	11322	639	23	1		1	OTOF	2	26750774	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1820195	26750774	216448599	133	87403											
FNDC4	64838	broad.mit.edu	37	chr2	27716887	27716887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggactctctccccgaaggcCgatgctcctgacctgcactg	6	8	11	16	2	1	1	0	1	1	0	4	4	3	2	5	2	2	2	5	2	1	0	rs1046558		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:27716887C>T	uc002rkx.2	-	4	770	c.364G>A	c.(364-366)GGC>AGC	p.G122S	GCKR_uc002rky.2_5'Flank|GCKR_uc010ezd.2_5'Flank|GCKR_uc010ylu.1_5'Flank	NM_022823	NP_073734	Q9H6D8	FNDC4_HUMAN	fibronectin type III domain containing 4	122	Extracellular (Potential).|Fibronectin type-III.					integral to membrane					0	Acute lymphoblastic leukemia(172;0.155)					CCCCGAAGGCCGATGCTCCTG	0.627													44	69					0	0	0.010771	0	0		T	27716887	T	T	27716887	3	4	160	1	0	0	0	0	1	0	0	0	5985	652	23	1	356	1	FNDC4	2	27716887	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	966113	27716887	215482486	134	87404											
GCKR	2646	broad.mit.edu	37	chr2	27730607	27730607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatccttccctctctcacGgaaatcgatactgtggtctt	7	14	6	14	2	3	0	1	0	2	0	8	2	6	1	3	2	1	0	3	2	2	3	rs149406755	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:27730607G>A	uc002rky.2	+	14	1269	c.1203G>A	c.(1201-1203)ACG>ACA	p.T401T	GCKR_uc010ezd.2_Silent_p.T399T|GCKR_uc010ylu.1_Silent_p.T211T	NM_001486	NP_001477	Q14397	GCKR_HUMAN	glucokinase regulatory protein	401	SIS 2.				carbohydrate metabolic process|glucose transport|negative regulation of glucokinase activity|positive regulation of gene expression|protein import into nucleus, translocation|regulation of glucose transport|response to fructose stimulus|transmembrane transport|triglyceride homeostasis|urate metabolic process	cytosol|nucleoplasm	fructose-6-phosphate binding|protein binding			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)					CCTCTCTCACGGAAATCGATA	0.547													28	90					0	0	0.007291	0	0		A	27730607	A	A	27730607	2	1	160	1	0	0	0	0	0	0	0	1	6309	1103	39	1		1	GCKR	2	27730607	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	13720	27730607	215468766	135	87405											
EHD3	30845	broad.mit.edu	37	chr2	31467249	31467249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggatcatccctgggaacGccctggtggtggatcccaag	8	7	15	11	1	1	0	1	0	0	0	3	3	3	3	3	6	1	0	3	6	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:31467249G>A	uc002rnu.2	+	2	945	c.337G>A	c.(337-339)GCC>ACC	p.A113T	EHD3_uc010ymt.1_Missense_Mutation_p.A113T	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	113					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					CCCTGGGAACGCCCTGGTGGT	0.562													17	32					0	0	0.004007	0	0		A	31467249	A	A	31467249	3	1	160	1	0	0	0	0	1	0	0	0	4985	1087	38	1	343	1	EHD3	2	31467249	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3736642	31467249	211732124	136	87406											
NLRC4	58484	broad.mit.edu	37	chr2	32466128	32466128	+	Missense_Mutation	SNP	A	G	G	1	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	ttatagcatcttcttcattcAtctttatgttatccattatg	9	21	3	8	0	5	0	2	0	3	0	6	0	6	0	1	0	1	2	1	0	5	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:32466128A>G	uc002roi.2	-	5	2570	c.2324T>C	c.(2323-2325)ATG>ACG	p.M775T	NLRC4_uc002roj.1_Missense_Mutation_p.M775T|NLRC4_uc010ezt.1_Missense_Mutation_p.M110T	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	775	LRR 6.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TTCTTCATTCATCTTTATGTT	0.348													19	65					0	0	0.006122	0	0		G	32466128	G	G	32466128	3	3	160	1	0	0	0	0	1	0	0	0	10488	217	8	3	770	3	NLRC4	2	32466128	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	998879	32466128	210733245	137	87407											
LOC728819	728819	broad.mit.edu	37	chr2	43903432	43903432	+	Frame_Shift_Del	DEL	A	-	-																															ctcccaagcaacatacccttAaaaaatgatgtcccactagc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:43903432delA	uc010fav.1	-	1	30	c.30delT	c.(28-30)TTTfs	p.F10fs	PLEKHH2_uc002rte.3_Intron|PLEKHH2_uc002rtf.3_Intron|PLEKHH2_uc010yny.1_Intron	NM_001101330	NP_001094800			C1GALT1-specific chaperone 1-like												0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				ACATACCCTTAAAAAATGATG	0.517													30	56	---	---	---	---						.	-	43903432	-	-	43903432	7	5	160	1	0	1	0	1	0	0	0	0	8905	359	13	0	921	0	LOC728819	2	43903432	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	11437304	43903432	199295941	138	87408											
SIX3	6496	broad.mit.edu	37	chr2	45169609	45169609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgtggcccccggggcgtgCgaggccatcaacaaacacga	9	3	13	16	5	1	0	1	0	0	0	1	2	1	0	4	4	3	0	4	4	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:45169609C>T	uc002run.1	+	1	573	c.366C>T	c.(364-366)TGC>TGT	p.C122C		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	122					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CCGGGGCGTGCGAGGCCATCA	0.682													6	13					0	0	0.006214	0	0		T	45169609	T	T	45169609	2	4	160	1	0	0	0	0	0	0	0	1	14373	776	27	1		1	SIX3	2	45169609	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1266177	45169609	198029764	139	87409											
SOCS5	9655	broad.mit.edu	37	chr2	46986855	46986855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgaagcagaagcccttctcGaagggaaacctgaaggcacg	14	5	12	10	2	1	3	0	2	1	1	2	5	1	4	2	2	3	2	2	2	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:46986855G>A	uc002rvf.2	+	2	1350	c.1186G>A	c.(1186-1188)GAA>AAA	p.E396K	SOCS5_uc010yoe.1_Missense_Mutation_p.E365K|SOCS5_uc002rvg.2_Missense_Mutation_p.E396K	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	396	SH2.				cell growth|cytokine-mediated signaling pathway|intracellular signal transduction|negative regulation of signal transduction|negative regulation of T-helper 2 cell differentiation|positive regulation of T-helper 1 cell differentiation|regulation of growth					ovary(1)|lung(1)|central_nervous_system(1)	3		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			AGCCCTTCTCGAAGGGAAACC	0.517													36	100					0	0	0.003755	0	0		A	46986855	A	A	46986855	3	1	160	1	0	0	0	0	1	0	0	0	14942	1059	37	1	1188	1	SOCS5	2	46986855	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1817246	46986855	196212518	140	87410											
FBXO11	80204	broad.mit.edu	37	chr2	48035330	48035330	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatctgtatcatgtgtaggcTcaccagctaatgtacaagga	12	12	9	8	0	3	0	2	0	1	0	3	1	3	1	1	2	2	5	1	2	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:48035330T>C	uc010fbl.2	-	23	2573	c.2459A>G	c.(2458-2460)GAG>GGG	p.E820G	FBXO11_uc002rwe.2_Missense_Mutation_p.E820G|FBXO11_uc010fbk.2_Missense_Mutation_p.E328G	NM_025133	NP_079409	Q86XK2	FBX11_HUMAN	F-box only protein 11 isoform 1	904	UBR-type.				ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|ubiquitin ligase complex	protein binding|protein-arginine N-methyltransferase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)	2		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ATGTGTAGGCTCACCAGCTAA	0.398													95	234					0	0	0.01441	0	0		C	48035330	C	C	48035330	3	2	160	1	0	0	0	0	1	0	0	0	5741	1551	54	3	76	3	FBXO11	2	48035330	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1048475	48035330	195164043	141	87411											
NRXN1	9378	broad.mit.edu	37	chr2	50318473	50318473	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcttacctgcagggtagcGctcgatcactggccagctgt	6	11	12	12	2	1	0	1	0	0	0	2	1	1	0	2	2	5	5	2	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:50318473G>A	uc010fbp.2	-	3	1408	c.601C>T	c.(601-603)CGC>TGC	p.R201C	NRXN1_uc002rxb.3_Missense_Mutation_p.R908C|NRXN1_uc010fbq.2_Missense_Mutation_p.R1276C|NRXN1_uc002rxe.3_Missense_Mutation_p.R1236C	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	201	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCAGGGTAGCGCTCGATCACT	0.448													98	217					0	0	0.01441	0	0		A	50318473	A	A	50318473	3	1	160	1	0	0	0	0	1	0	0	0	10684	1087	38	1	837	1	NRXN1	2	50318473	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2283143	50318473	192880900	142	87412											
CCT4	10575	broad.mit.edu	37	chr2	62099382	62099382	+	Silent	SNP	T	C	C	0	1	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	taggattccataccactcagTgttcgtgaatattcagttaa	12	14	7	8	1	2	1	2	1	0	0	4	2	3	2	2	1	1	2	2	1	5	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:62099382T>C	uc002sbo.2	-	12	1475	c.1326A>G	c.(1324-1326)ACA>ACG	p.T442T	CCT4_uc010ypp.1_Silent_p.T386T|CCT4_uc010ypq.1_Silent_p.T292T|CCT4_uc010ypr.1_Silent_p.T386T|CCT4_uc010yps.1_Silent_p.T412T	NM_006430	NP_006421	P50991	TCPD_HUMAN	chaperonin containing TCP1, subunit 4 (delta)	442					'de novo' posttranslational protein folding	melanosome|microtubule organizing center|nucleus	ATP binding|unfolded protein binding			ovary(2)	2	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;6.5e-06)|Epithelial(17;0.0647)|all cancers(80;0.221)			TACCACTCAGTGTTCGTGAAT	0.423													35	99					0	0	0.004289	0	0		C	62099382	C	C	62099382	2	2	160	1	0	0	0	0	0	0	0	1	2958	1683	59	3		3	CCT4	2	62099382	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	11780909	62099382	181099991	143	87413											
EHBP1	23301	broad.mit.edu	37	chr2	63169987	63169987	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actacatcgtggagaaatggTttatctttttgtgcaatatt	11	17	8	5	1	1	1	0	0	1	1	2	2	1	1	0	2	2	2	0	2	5	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:63169987T>C	uc002sby.2	+	12	1907	c.1425T>C	c.(1423-1425)GGT>GGC	p.G475G	EHBP1_uc010fcp.2_Silent_p.G440G|EHBP1_uc002sbz.2_Silent_p.G440G|EHBP1_uc002scb.2_Silent_p.G440G	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	475	CH.					cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			GGAGAAATGGTTTATCTTTTT	0.323									Hereditary_Prostate_Cancer				57	135					0	0	0.01441	0	0		C	63169987	C	C	63169987	2	2	160	1	0	0	0	0	0	0	0	1	4981	1712	60	3		3	EHBP1	2	63169987	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1070605	63169987	180029386	144	87414											
PNO1	56902	broad.mit.edu	37	chr2	68385209	68385209	+	Missense_Mutation	SNP	A	T	T	1	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	cggggatgcgggccgcatggAcacagaggaggccaggccgg	8	2	20	11	4	0	1	0	0	0	1	0	4	0	4	3	8	1	1	3	8	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:68385209A>T	uc002seh.2	+	1	205	c.143A>T	c.(142-144)GAC>GTC	p.D48V	WDR92_uc002sed.1_5'Flank|WDR92_uc002see.1_5'Flank|WDR92_uc002sef.1_5'Flank|WDR92_uc002seg.1_5'Flank	NM_020143	NP_064528	Q9NRX1	PNO1_HUMAN	partner of NOB1	48						nucleolus	RNA binding				0						GGCCGCATGGACACAGAGGAG	0.672													9	18					0	0	0.006214	0	0		T	68385209	T	T	68385209	3	4	160	1	0	0	0	0	1	0	0	0	12180	275	10	5	145	5	PNO1	2	68385209	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5215222	68385209	174814164	145	87415											
ATP6V1B1	525	broad.mit.edu	37	chr2	71191573	71191573	+	Frame_Shift_Del	DEL	C	-	-																															tttcttctccctcagatctaCccccccatcaacgtgctccc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:71191573delC	uc002shj.2	+	12	1236	c.1149delC	c.(1147-1149)TACfs	p.Y383fs	ATP6V1B1_uc010fdv.2_Frame_Shift_Del_p.Y366fs|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Frame_Shift_Del_p.Y341fs	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	383					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						CTCAGATCTACCCCCCCATCA	0.547											OREG0014686	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	60	---	---	---	---						.	-	71191573	-	-	71191573	7	5	160	1	0	1	0	1	0	0	0	0	1179	518	18	0	1195	0	ATP6V1B1	2	71191573	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	2806364	71191573	172007800	146	87416											
SFXN5	94097	broad.mit.edu	37	chr2	73268057	73268057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacagcctctctgagacGtctctgcagaagaaagaaaa	14	7	9	11	1	2	4	0	1	2	4	4	5	2	4	1	0	3	2	1	0	4	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:73268057G>A	uc002siq.2	-	3	306	c.175C>T	c.(175-177)CGT>TGT	p.R59C	SFXN5_uc002sio.2_Translation_Start_Site|SFXN5_uc010yrc.1_Translation_Start_Site|SFXN5_uc002sip.2_RNA|SFXN5_uc010fet.2_Missense_Mutation_p.R59C	NM_144579	NP_653180	Q8TD22	SFXN5_HUMAN	sideroflexin 5	59					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity			ovary(1)	1						TCTCTGAGACGTCTCTGCAGA	0.522													10	22					0	0	0.010729	0	0		A	73268057	A	A	73268057	3	1	160	1	0	0	0	0	1	0	0	0	14223	1145	40	1	895	1	SFXN5	2	73268057	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2076484	73268057	169931316	147	87417											
SLC4A5	57835	broad.mit.edu	37	chr2	74475528	74475528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatgaggatgggccccgtgCtgctgagaatgatgagaggc	10	7	17	7	1	0	5	0	4	0	3	0	8	0	6	2	3	2	2	2	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:74475528C>T	uc002sko.1	-	13	1741	c.1739G>A	c.(1738-1740)AGC>AAC	p.S580N	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.S580N|SLC4A5_uc010ffc.1_Missense_Mutation_p.S580N|SLC4A5_uc002skp.1_Missense_Mutation_p.S516N|SLC4A5_uc002sks.1_Missense_Mutation_p.S580N	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	580	Helical; (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						GGGCCCCGTGCTGCTGAGAAT	0.587													17	42					0	0	0.006122	0	0		T	74475528	T	T	74475528	3	4	160	1	0	0	0	0	1	0	0	0	14682	797	28	2	1730	2	SLC4A5	2	74475528	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1207471	74475528	168723845	148	87418											
MOGS	7841	broad.mit.edu	37	chr2	74689928	74689928	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaacacaaactctatggaaaTgggaattttcagggtcacct	15	10	8	8	0	3	0	2	0	1	0	3	2	3	2	1	3	2	0	1	3	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:74689928T>C	uc010ffj.2	-	4	1151	c.988A>G	c.(988-990)ATT>GTT	p.I330V	MOGS_uc010ffh.2_Missense_Mutation_p.I55V|MOGS_uc010yrt.1_Missense_Mutation_p.I211V|MOGS_uc010ffi.2_Missense_Mutation_p.I224V	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	330	Lumenal (Potential).			I -> F (in Ref. 1; CAA60683).	oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						TCTATGGAAATGGGAATTTTC	0.562													105	228					0	0	0.01441	0	0		C	74689928	C	C	74689928	3	2	160	1	0	0	0	0	1	0	0	0	9715	1464	51	3	1529	3	MOGS	2	74689928	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	214400	74689928	168509445	149	87419											
LOXL3	84695	broad.mit.edu	37	chr2	74779707	74779707	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaagcacgaactgcacaGcaggcacagcagcagccccc	12	1	9	19	1	0	0	0	0	0	0	0	1	0	0	4	1	7	6	4	1	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:74779707G>A	uc002smp.1	-	2	127	c.55C>T	c.(55-57)CTG>TTG	p.L19L	LOXL3_uc002smo.1_5'Flank|LOXL3_uc010ffm.1_Silent_p.L19L|LOXL3_uc002smq.1_Silent_p.L19L|LOXL3_uc010ffn.1_Silent_p.L19L|DOK1_uc002smr.2_Intron|DOK1_uc002sms.2_5'Flank|DOK1_uc010ffo.2_5'Flank|DOK1_uc002smt.2_5'Flank|DOK1_uc002smu.2_5'Flank|DOK1_uc010yrz.1_5'Flank|DOK1_uc002smv.2_5'Flank|DOK1_uc002smw.1_5'Flank	NM_032603	NP_115992	P58215	LOXL3_HUMAN	lysyl oxidase-like 3 precursor	19						extracellular space|membrane	copper ion binding|protein-lysine 6-oxidase activity|scavenger receptor activity				0						GAACTGCACAGCAGGCACAGC	0.607													8	12					0	0	0.004482	0	0		A	74779707	A	A	74779707	2	1	160	1	0	0	0	0	0	0	0	1	8919	962	34	2		2	LOXL3	2	74779707	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	89779	74779707	168419666	150	87420											
ZNF2	7549	broad.mit.edu	37	chr2	95847751	95847751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcggcatcagcgtgtccacaCgggagagaagccctttgaat	10	7	13	11	3	1	2	1	1	0	1	2	4	2	3	2	2	2	1	2	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:95847751C>T	uc002suf.2	+	6	1637	c.1175C>T	c.(1174-1176)ACG>ATG	p.T392M	ZNF2_uc002sug.2_Missense_Mutation_p.T350M|ZNF2_uc010yue.1_Missense_Mutation_p.T355M|ZNF2_uc010fhs.2_Missense_Mutation_p.T313M	NM_021088	NP_066574	Q9BSG1	ZNF2_HUMAN	zinc finger protein 2 isoform a	392					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)		CGTGTCCACACGGGAGAGAAG	0.507													6	141					0	0	0.001168	0	0		T	95847751	T	T	95847751	3	4	160	1	0	0	0	0	1	0	0	0	17785	536	19	1	1192	1	ZNF2	2	95847751	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	21068044	95847751	147351622	151	87421											
CNNM3	26505	broad.mit.edu	37	chr2	97498336	97498336	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cggtggaaggcagccctgggCggaacccaggcgtttaacgg	8	5	17	11	4	0	0	0	0	0	0	0	2	0	2	2	7	3	2	2	7	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:97498336C>T	uc002swy.2	+	8	2131	c.2107C>T	c.(2107-2109)CGG>TGG	p.R703W	CNNM3_uc002swz.2_Missense_Mutation_p.R655W	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	703					ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						CAGCCCTGGGCGGAACCCAGG	0.592													77	161					0	0	0.01441	0	0		T	97498336	T	T	97498336	3	4	160	1	0	0	0	0	1	0	0	0	3617	759	27	1	2137	1	CNNM3	2	97498336	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1650585	97498336	145701037	152	87422											
VWA3B	200403	broad.mit.edu	37	chr2	98844745	98844745	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	atgcaagacctttattctgaGtccttgatcatggactggtg	9	14	10	8	0	2	3	1	2	1	1	3	4	3	4	2	2	1	1	2	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:98844745G>T	uc002syo.2	+	15	2364	c.2100G>T	c.(2098-2100)GAG>GAT	p.E700D	VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Missense_Mutation_p.E219D|VWA3B_uc002sym.2_Missense_Mutation_p.E700D|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.E357D|VWA3B_uc002syp.1_Missense_Mutation_p.E92D|VWA3B_uc002syq.1_Intron|VWA3B_uc002syr.1_Missense_Mutation_p.E17D	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	700										ovary(3)|large_intestine(2)|skin(1)	6						TTTATTCTGAGTCCTTGATCA	0.478													47	118					1.6237e-14	1.76276e-14	0.013114	1	0		T	98844745	T	T	98844745	3	4	160	1	0	0	0	0	1	0	0	0	17267	1020	36	5	2154	5	VWA3B	2	98844745	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1346409	98844745	144354628	153	87423											
MGAT4A	11320	broad.mit.edu	37	chr2	99261956	99261956	+	Frame_Shift_Del	DEL	T	-	-																															aagaaagttgaagtgcaaaaTtttttatggtattaaaataa																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:99261956delT	uc002sze.2	-	9	1138	c.824delA	c.(823-825)AATfs	p.N275fs	C2orf64_uc002sza.2_RNA|MGAT4A_uc010yvm.1_Frame_Shift_Del_p.N147fs|MGAT4A_uc010fil.2_Frame_Shift_Del_p.N29fs	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	alpha-1,3-mannosyl-glycoprotein	275	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1						AAGTGCAAAATTTTTTATGGT	0.294													45	98	---	---	---	---						.	-	99261956	-	-	99261956	7	5	160	1	0	1	0	1	0	0	0	0	9563	1493	52	0	894	0	MGAT4A	2	99261956	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	417211	99261956	143937417	154	87424											
IL18R1	8809	broad.mit.edu	37	chr2	102998141	102998141	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccatgttgcagtggaattAggtatatttcaatatacata	15	14	7	5	0	1	0	1	0	0	0	1	1	1	1	1	2	3	3	1	2	9	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:102998141A>G	uc002tbw.3	+	6	837	c.687A>G	c.(685-687)TTA>TTG	p.L229L	IL18R1_uc010ywc.1_Silent_p.L229L|IL18R1_uc010ywd.1_Silent_p.L74L|IL18R1_uc010fiy.2_Silent_p.L229L	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor	229	Ig-like C2-type 3.|Extracellular (Potential).				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						CAGTGGAATTAGGTATATTTC	0.338													19	60					0	0	0.007413	0	0		G	102998141	G	G	102998141	2	3	160	1	0	0	0	0	0	0	0	1	7663	434	15	3		3	IL18R1	2	102998141	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3736185	102998141	140201232	155	87425											
RANBP2	5903	broad.mit.edu	37	chr2	109367742	109367742	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctattcgagcacataatggTagtcttcagcaccttacttg	10	13	8	10	1	2	0	1	0	1	0	3	1	2	0	1	1	3	4	1	1	4	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:109367742T>C	uc002tem.3	+	10	1422	c.1296T>C	c.(1294-1296)GGT>GGC	p.G432G		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	432					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CACATAATGGTAGTCTTCAGC	0.383													76	208					0	0	0.01441	0	0		C	109367742	C	C	109367742	2	2	160	1	0	0	0	0	0	0	0	1	13053	1625	57	3		3	RANBP2	2	109367742	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	6369601	109367742	133831631	156	87426											
IL1B	3553	broad.mit.edu	37	chr2	113591101	113591101	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagtggtggtcggagattcGtagctggatgccgccatcca	7	10	15	9	3	0	1	0	0	0	1	3	3	1	2	3	4	2	3	3	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:113591101G>A	uc002tii.1	-	4	238	c.151C>T	c.(151-153)CGA>TGA	p.R51*	IL1B_uc002tih.1_Nonsense_Mutation_p.R20*	NM_000576	NP_000567	P01584	IL1B_HUMAN	interleukin 1, beta proprotein	51					activation of MAPK activity|anti-apoptosis|apoptosis|cell-cell signaling|cellular response to drug|cellular response to mechanical stimulus|cytokine-mediated signaling pathway|embryo implantation|fever generation|negative regulation of adiponectin secretion|negative regulation of cell proliferation|negative regulation of glucose transport|negative regulation of insulin receptor signaling pathway|negative regulation of lipid catabolic process|negative regulation of MAP kinase activity|positive regulation of angiogenesis|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of cell adhesion molecule production|positive regulation of cell division|positive regulation of fever generation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of heterotypic cell-cell adhesion|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of interferon-gamma production|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of lipid catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mitosis|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myosin light chain kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|positive regulation of protein export from nucleus|positive regulation of T cell proliferation|positive regulation vascular endothelial growth factor production|regulation of insulin secretion|sequestering of triglyceride|smooth muscle adaptation	cytosol|extracellular space	cytokine activity|growth factor activity|interleukin-1 receptor binding|protein domain specific binding			lung(3)|breast(1)	4					Anakinra(DB00026)|Minocycline(DB01017)|Procaterol(DB01366)	TCGGAGATTCGTAGCTGGATG	0.622													49	87					0	0	0.01441	0	0		A	113591101	A	A	113591101	4	1	160	1	0	0	0	0	0	1	0	0	7667	1153	40	1	674	1	IL1B	2	113591101	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4223359	113591101	129608272	157	87427											
MYO7B	4648	broad.mit.edu	37	chr2	128322852	128322852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggtgtcctcagtcccatGcaccccaactcagtccaggg	7	10	9	15	0	2	0	2	0	0	0	5	0	5	0	5	2	2	1	5	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:128322852G>A	uc002top.2	+	4	230	c.177G>A	c.(175-177)ATG>ATA	p.M59I		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	59						apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		TCAGTCCCATGCACCCCAACT	0.617													15	41					0	0	0.00245	0	0		A	128322852	A	A	128322852	3	1	160	1	0	0	0	0	1	0	0	0	10101	1319	46	2	187	2	MYO7B	2	128322852	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	14731751	128322852	114876521	158	87428											
TUBA3D	113457	broad.mit.edu	37	chr2	132240260	132240260	+	Missense_Mutation	SNP	A	G	G	1	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	tggaccataagttcgatctcAtgtatgccaagcgggccttt	9	12	10	10	2	1	0	1	0	1	0	3	2	1	1	3	2	2	2	3	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:132240260A>G	uc002tsu.3	+	5	1299	c.1192A>G	c.(1192-1194)ATG>GTG	p.M398V		NM_080386	NP_525125	Q13748	TBA3C_HUMAN	tubulin, alpha 3d	398					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(221;0.13)		GTTCGATCTCATGTATGCCAA	0.632													59	189					0	0	0.01441	0	0		G	132240260	G	G	132240260	3	3	160	1	0	0	0	0	1	0	0	0	16773	217	8	3	1210	3	TUBA3D	2	132240260	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3917408	132240260	110959113	159	87429											
CCDC74A	90557	broad.mit.edu	37	chr2	132285712	132285712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggacctggagaaaagcCtgcagttcctgcagcagcag	11	6	12	12	0	0	1	0	0	0	1	1	3	1	2	4	2	5	5	4	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:132285712C>A	uc002tta.2	+	1	221	c.169C>A	c.(169-171)CTG>ATG	p.L57M	CCDC74A_uc010fnb.1_Missense_Mutation_p.L57M|CCDC74A_uc002ttb.2_Missense_Mutation_p.L57M	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	57	Potential.									skin(1)	1						GGAGAAAAGCCTGCAGTTCCT	0.657													14	31					0.000219431	0.000227015	0.00245	1	0		A	132285712	A	A	132285712	3	1	160	1	0	0	0	0	1	0	0	0	2850	680	24	5	171	5	CCDC74A	2	132285712	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	45452	132285712	110913661	160	87430											
LYPD1	116372	broad.mit.edu	37	chr2	133403742	133403742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttacaaagaggggtgttgCagcagctgatgcaaactgag	12	8	14	7	1	0	3	0	2	0	1	0	3	0	3	0	2	6	6	0	2	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:133403742C>T	uc002ttn.2	-	3	1278	c.302G>A	c.(301-303)TGC>TAC	p.C101Y	GPR39_uc002ttl.2_3'UTR|LYPD1_uc002ttm.3_Missense_Mutation_p.C117Y|LYPD1_uc002tto.2_Missense_Mutation_p.C49Y	NM_144586	NP_653187	Q8N2G4	LYPD1_HUMAN	LY6/PLAUR domain containing 1 isoform a	101	UPAR/Ly6.					anchored to membrane|plasma membrane					0						AGGGGTGTTGCAGCAGCTGAT	0.582													22	41					0	0	0.003954	0	0		T	133403742	T	T	133403742	3	4	160	1	0	0	0	0	1	0	0	0	9127	710	25	2	127	2	LYPD1	2	133403742	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1118030	133403742	109795631	161	87431											
KIF5C	3800	broad.mit.edu	37	chr2	149864536	149864536	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccagaagcagaaaatttcCttcttggagaataacctgga	14	9	9	9	0	1	3	0	0	1	3	2	5	2	4	3	2	2	1	3	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:149864536C>A	uc010zbu.1	+	23	2873	c.2505C>A	c.(2503-2505)TCC>TCA	p.S835S	KIF5C_uc002tws.1_RNA|KIF5C_uc002twu.1_Silent_p.S117S	NM_004522	NP_004513	O60282	KIF5C_HUMAN	kinesin family member 5C	835					microtubule-based movement|organelle organization	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.108)		AGAAAATTTCCTTCTTGGAGA	0.547													29	42					2.08457e-15	2.27187e-15	0.010818	1	0		A	149864536	A	A	149864536	2	1	160	1	0	0	0	0	0	0	0	1	8323	668	24	5		5	KIF5C	2	149864536	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	16460794	149864536	93334837	162	87432											
NMI	9111	broad.mit.edu	37	chr2	152132079	152132079	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctctccgcctccatttcGggactttgaaaagctcagct	8	11	7	15	2	2	1	1	1	1	0	5	2	3	2	4	1	2	2	4	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:152132079G>C	uc002txi.2	-	6	883	c.553C>G	c.(553-555)CGA>GGA	p.R185G	NMI_uc010zbx.1_3'UTR	NM_004688	NP_004679	Q13287	NMI_HUMAN	N-myc and STAT interactor	185					inflammatory response|JAK-STAT cascade|transcription from RNA polymerase II promoter	cytoplasm|nucleus	nucleotide binding|protein binding|transcription cofactor activity				0				BRCA - Breast invasive adenocarcinoma(221;0.0571)		CCTCCATTTCGGGACTTTGAA	0.453													49	116					0	0	0.01441	0	0		C	152132079	C	C	152132079	3	2	160	1	0	0	0	0	1	0	0	0	10516	1124	39	5	382	5	NMI	2	152132079	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2267543	152132079	91067294	163	87433											
NEB	4703	broad.mit.edu	37	chr2	152470851	152470851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cattctgatcaggcaggcagGtccattcatgcaggggatgc	9	9	13	10	0	3	1	2	1	1	0	4	2	4	2	1	5	2	3	1	5	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:152470851G>A	uc010fnx.2	-	73	11002	c.10811C>T	c.(10810-10812)ACC>ATC	p.T3604I		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3604	Nebulin 99.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		AGGCAGGCAGGTCCATTCATG	0.498													52	131					0	0	0.01441	0	0		A	152470851	A	A	152470851	3	1	160	1	0	0	0	0	1	0	0	0	10321	1261	44	4	14570	4	NEB	2	152470851	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	338772	152470851	90728522	164	87434											
NR4A2	4929	broad.mit.edu	37	chr2	157185013	157185013	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcagtttttatttgctaaAcacacgtattttgcattttt	9	19	7	6	1	0	0	0	0	0	0	0	0	0	0	0	1	3	5	0	1	4	10			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:157185013A>G	uc002tyz.3	-	4	1319	c.897T>C	c.(895-897)TGT>TGC	p.C299C	NR4A2_uc002tyx.3_Silent_p.C236C|NR4A2_uc010zcf.1_Silent_p.C299C|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	299	NR C4-type.|Nuclear receptor.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						TATTTGCTAAACACACGTATT	0.428													40	116					0	0	0.004878	0	0		G	157185013	G	G	157185013	2	3	160	1	0	0	0	0	0	0	0	1	10652	41	2	3		3	NR4A2	2	157185013	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4714162	157185013	86014360	165	87435											
LY75	4065	broad.mit.edu	37	chr2	160697448	160697448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgaagcattctgcaacGtctgtctgcttttaacttct	7	18	6	10	1	5	1	0	1	5	0	5	1	5	1	0	0	5	3	0	0	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:160697448G>A	uc002ubc.3	-	25	3368	c.3299C>T	c.(3298-3300)ACG>ATG	p.T1100M	LY75_uc002ubb.3_Missense_Mutation_p.T1100M|LY75_uc010fos.2_Missense_Mutation_p.T1100M	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	1100	Extracellular (Potential).				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		ATTCTGCAACGTCTGTCTGCT	0.378													19	343					0	0	0.006122	0	0		A	160697448	A	A	160697448	3	1	160	1	0	0	0	0	1	0	0	0	9117	1145	40	1	1913	1	LY75	2	160697448	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3512435	160697448	82501925	166	87436											
COBLL1	22837	broad.mit.edu	37	chr2	165551508	165551508	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgttctcaggttaggcttCggtttaaggtttggcagtgg	5	16	14	6	1	2	0	1	0	2	0	4	0	2	0	0	6	0	6	0	6	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:165551508C>T	uc010zcw.1	-	15	2833	c.2709G>A	c.(2707-2709)CCG>CCA	p.P903P	COBLL1_uc002ucp.2_Silent_p.P836P|COBLL1_uc002ucq.2_Silent_p.P798P|COBLL1_uc010zcx.1_Silent_p.P844P|COBLL1_uc002ucn.2_Silent_p.P264P|COBLL1_uc002uco.2_Silent_p.P567P	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	874										ovary(2)|pancreas(1)	3						GGTTAGGCTTCGGTTTAAGGT	0.463													51	135					0	0	0.01441	0	0		T	165551508	T	T	165551508	2	4	160	1	0	0	0	0	0	0	0	1	3657	871	31	1		1	COBLL1	2	165551508	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4854060	165551508	77647865	167	87437											
SCN3A	6328	broad.mit.edu	37	chr2	165987821	165987821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caagctccattaaactgaggCtgacaataattccatcaaag	16	9	6	10	0	1	2	1	2	0	0	3	2	3	2	2	1	2	2	2	1	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:165987821C>T	uc002ucx.2	-	16	2990	c.2498G>A	c.(2497-2499)AGC>AAC	p.S833N	SCN3A_uc002ucy.2_Missense_Mutation_p.S784N|SCN3A_uc002ucz.2_Missense_Mutation_p.S784N|SCN3A_uc002uda.1_Missense_Mutation_p.S653N|SCN3A_uc002udb.1_Missense_Mutation_p.S653N	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	833	Helical; Name=S3 of repeat II; (Potential).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	TAAACTGAGGCTGACAATAAT	0.398													26	209					0	0	0.012213	0	0		T	165987821	T	T	165987821	3	4	160	1	0	0	0	0	1	0	0	0	13943	797	28	2	3556	2	SCN3A	2	165987821	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	436313	165987821	77211552	168	87438											
LRP2	4036	broad.mit.edu	37	chr2	170103223	170103223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atagctacttactaagtgtgCcacatagttgctcatcactg	11	13	7	10	0	2	0	2	0	0	0	2	0	2	0	1	0	5	3	1	0	5	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:170103223C>T	uc002ues.2	-	21	3395	c.3182G>A	c.(3181-3183)GGC>GAC	p.G1061D	LRP2_uc010zdf.1_Missense_Mutation_p.G924D	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1061	LDL-receptor class A 8.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACTAAGTGTGCCACATAGTTG	0.388													150	342					0	0	0.01441	0	0		T	170103223	T	T	170103223	3	4	160	1	0	0	0	0	1	0	0	0	8974	739	26	2	11021	2	LRP2	2	170103223	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4115402	170103223	73096150	169	87439											
OLA1	29789	broad.mit.edu	37	chr2	174987938	174987938	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctttctaatgtagtcttttTcagaaagattaaccaagtag	13	16	6	6	0	4	2	1	0	3	2	4	2	4	2	1	0	1	2	1	0	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:174987938T>C	uc002uih.2	-	7	884	c.698A>G	c.(697-699)GAA>GGA	p.E233G	OLA1_uc002uii.2_Missense_Mutation_p.E75G|OLA1_uc010fqq.2_Missense_Mutation_p.E233G|OLA1_uc002uij.2_Missense_Mutation_p.E75G|OLA1_uc002uik.2_Missense_Mutation_p.E203G|OLA1_uc010fqr.2_Missense_Mutation_p.E233G	NM_013341	NP_037473	Q9NTK5	OLA1_HUMAN	Obg-like ATPase 1 isoform 1	233				LSE->KSD: Retention of ATP-binding specificity.	ATP catabolic process	cytoplasm	ATP binding|GTP binding|hydrolase activity|protein binding			ovary(1)|breast(1)	2						GTAGTCTTTTTCAGAAAGATT	0.343													17	63					0	0	0.008871	0	0		C	174987938	C	C	174987938	3	2	160	1	0	0	0	0	1	0	0	0	10869	1783	62	3	512	3	OLA1	2	174987938	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	4884715	174987938	68211435	170	87440											
EVX2	344191	broad.mit.edu	37	chr2	176948225	176948225	+	Missense_Mutation	SNP	A	C	C	1	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	cttgcggctctcggcggcggAggagatttcggaggagacgg	6	7	19	9	6	1	2	0	0	1	2	3	6	1	4	0	8	1	1	0	8	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:176948225A>C	uc010zeu.1	-	1	466	c.280T>G	c.(280-282)TCC>GCC	p.S94A		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	94						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		TCGGCGGCGGAGGAGATTTCG	0.627													4	25					0	0	0.000602	0	0		C	176948225	C	C	176948225	3	2	160	1	0	0	0	0	1	0	0	0	5303	304	11	5	1160	5	EVX2	2	176948225	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1960287	176948225	66251148	171	87441											
PDE11A	50940	broad.mit.edu	37	chr2	178592398	178592398	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacttacggttaacatcgcGaacatcagctgacacacgtt	13	9	7	12	4	1	1	1	1	0	0	2	2	1	1	0	1	4	3	0	1	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:178592398G>A	uc002ulq.2	-	12	2349	c.2031C>T	c.(2029-2031)TTC>TTT	p.F677F	PDE11A_uc002ulp.2_Silent_p.F233F|PDE11A_uc002ulr.2_Silent_p.F427F|PDE11A_uc002uls.1_Silent_p.F319F|PDE11A_uc002ult.1_Silent_p.F427F|PDE11A_uc002ulu.1_Silent_p.F319F	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	677	Catalytic (By similarity).				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TTAACATCGCGAACATCAGCT	0.438									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				35	77					0	0	0.003755	0	0		A	178592398	A	A	178592398	2	1	160	1	0	0	0	0	0	0	0	1	11650	1049	37	1		1	PDE11A	2	178592398	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1644173	178592398	64606975	172	87442											
TTN	7273	broad.mit.edu	37	chr2	179505993	179505993	+	Frame_Shift_Del	DEL	T	-	-																															ggttttttaactttttctagTtttttaggttctactttagg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:179505993delT	uc010zfg.1	-	169	33128	c.32904delA	c.(32902-32904)AAAfs	p.K10968fs	TTN_uc010zfh.1_Frame_Shift_Del_p.K4663fs|TTN_uc010zfi.1_Frame_Shift_Del_p.K4596fs|TTN_uc010zfj.1_Frame_Shift_Del_p.K4471fs|TTN_uc010fre.1_Frame_Shift_Del_p.K846fs|TTN_uc002umw.1_Intron|TTN_uc002umx.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11895							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTTTCTAGTTTTTTAGGTT	0.284													6	7	---	---	---	---						.	-	179505993	-	-	179505993	7	5	160	1	0	1	0	1	0	0	0	0	16761	1722	60	0	67657	0	TTN	2	179505993	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	913595	179505993	63693380	173	87443											
TTN	7273	broad.mit.edu	37	chr2	179583963	179583963	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacacacgtgtatatgcctgTgtcggagggctccaacaagc	10	8	11	12	2	0	0	0	0	0	0	2	1	1	1	2	2	3	2	2	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:179583963T>C	uc010zfg.1	-	80	20646	c.20422A>G	c.(20422-20424)ACA>GCA	p.T6808A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T3469A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7735							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TATATGCCTGTGTCGGAGGGC	0.498													30	71					0	0	0.010818	0	0		C	179583963	C	C	179583963	3	2	160	1	0	0	0	0	1	0	0	0	16761	1696	59	3	80495	3	TTN	2	179583963	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	77970	179583963	63615410	174	87444											
TTN	7273	broad.mit.edu	37	chr2	179594857	179594857	+	Silent	SNP	A	G	G	1	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	gctttgctggttgctgtgccAacatcattgcttagttggca	6	15	11	9	0	1	0	1	0	0	0	1	0	1	0	1	2	5	7	1	2	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:179594857A>G	uc010zfg.1	-	59	14762	c.14538T>C	c.(14536-14538)GTT>GTC	p.V4846V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V1507V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5773							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGCTGTGCCAACATCATTGC	0.493													17	38					0	0	0.00499	0	0		G	179594857	G	G	179594857	2	3	160	1	0	0	0	0	0	0	0	1	16761	117	5	3		3	TTN	2	179594857	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	10894	179594857	63604516	175	87445											
TTN	7273	broad.mit.edu	37	chr2	179612275	179612275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcctgtttctggttgtagTattcatacacagtgttgaaa	10	17	8	6	0	2	1	1	1	1	0	3	1	3	1	1	1	1	5	1	1	4	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:179612275T>C	uc002unb.2	-	46	15076	c.14852A>G	c.(14851-14853)TAC>TGC	p.Y4951C	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGGTTGTAGTATTCATACAC	0.423													20	212					0	0	0.012319	0	0		C	179612275	C	C	179612275	3	2	160	1	0	0	0	0	1	0	0	0	16761	1638	57	3	95445	3	TTN	2	179612275	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	17418	179612275	63587098	176	87446											
TTN	7273	broad.mit.edu	37	chr2	179638249	179638249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcagcttgtaaggtccttCgtctgaagcatgagttcggt	8	14	11	8	2	2	2	1	2	1	0	5	2	3	2	1	2	2	4	1	2	3	5	rs116049561	by1000genomes	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:179638249C>T	uc010zfg.1	-	32	7758	c.7534G>A	c.(7534-7536)GAA>AAA	p.E2512K	TTN_uc010zfh.1_Missense_Mutation_p.E2466K|TTN_uc010zfi.1_Missense_Mutation_p.E2466K|TTN_uc010zfj.1_Missense_Mutation_p.E2466K|TTN_uc002unb.2_Missense_Mutation_p.E2512K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2512							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAAGGTCCTTCGTCTGAAGCA	0.383													4	215					0	0	0.000602	0	0		T	179638249	T	T	179638249	3	4	160	1	0	0	0	0	1	0	0	0	16761	893	31	1	103778	1	TTN	2	179638249	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	25974	179638249	63561124	177	87447											
SESTD1	91404	broad.mit.edu	37	chr2	179989230	179989230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagatcttcctcatcgccaGcattcaagagtgctgcaatt	11	11	7	12	1	3	2	2	0	1	2	5	2	4	2	2	0	3	3	2	0	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:179989230G>A	uc002uni.3	-	11	1178	c.1028C>T	c.(1027-1029)GCT>GTT	p.A343V	SESTD1_uc002unh.3_5'UTR	NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	343	Spectrin 1.				regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			CTCATCGCCAGCATTCAAGAG	0.403													35	74					0	0	0.003755	0	0		A	179989230	A	A	179989230	3	1	160	1	0	0	0	0	1	0	0	0	14152	971	34	2	1094	2	SESTD1	2	179989230	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	350981	179989230	63210143	178	87448											
NEUROD1	4760	broad.mit.edu	37	chr2	182543334	182543334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatcttcttctttttggggCcgcgtctcttgggcttttga	2	19	10	10	2	5	1	1	1	4	0	6	1	5	1	1	3	0	1	1	3	0	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:182543334C>T	uc002uof.2	-	2	490	c.254G>A	c.(253-255)GGC>GAC	p.G85D	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	85					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			CTTTTTGGGGCCGCGTCTCTT	0.398													3	39					0	0	0.009096	0	0		T	182543334	T	T	182543334	3	4	160	1	0	0	0	0	1	0	0	0	10367	739	26	2	820	2	NEUROD1	2	182543334	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2554104	182543334	60656039	179	87449											
MFSD6	54842	broad.mit.edu	37	chr2	191302045	191302045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaccaccacaagccactcGcaggccttcaacttttggga	11	7	7	16	1	1	0	1	0	0	0	2	1	1	1	5	2	3	1	5	2	3	3	rs138768363		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:191302045G>A	uc002urz.2	+	3	1614	c.1290G>A	c.(1288-1290)TCG>TCA	p.S430S		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	430					transmembrane transport	integral to membrane				ovary(2)	2						CAAGCCACTCGCAGGCCTTCA	0.502													8	267					0	0	0.00308	0	0		A	191302045	A	A	191302045	2	1	160	1	0	0	0	0	0	0	0	1	9553	1074	38	1		1	MFSD6	2	191302045	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	8758711	191302045	51897328	180	87450											
MYO1B	4430	broad.mit.edu	37	chr2	192265123	192265123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaggctcgaaaaattctgCgggaactgaagcatcaaaag	15	9	10	7	2	2	1	1	1	1	0	3	3	2	2	0	2	3	2	0	2	7	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:192265123C>T	uc010fsg.2	+	22	2566	c.2311C>T	c.(2311-2313)CGG>TGG	p.R771W	MYO1B_uc002usq.2_Missense_Mutation_p.R771W|MYO1B_uc002usr.2_Missense_Mutation_p.R771W|MYO1B_uc002usu.2_Missense_Mutation_p.R45W|MYO1B_uc002usv.2_5'Flank	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	771	IQ 3.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			AAAAATTCTGCGGGAACTGAA	0.458													44	96					0	0	0.01441	0	0		T	192265123	T	T	192265123	3	4	160	1	0	0	0	0	1	0	0	0	10087	759	27	1	2393	1	MYO1B	2	192265123	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	963078	192265123	50934250	181	87451											
DNAH7	56171	broad.mit.edu	37	chr2	196723270	196723270	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacctgccaggtcagcatcGcactcatctttgatggcttt	7	12	9	13	1	3	1	2	1	1	0	4	1	3	1	2	2	2	4	2	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:196723270G>A	uc002utj.3	-	43	8096	c.7995C>T	c.(7993-7995)TGC>TGT	p.C2665C		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2665	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GGTCAGCATCGCACTCATCTT	0.453													22	74					0	0	0.010504	0	0		A	196723270	A	A	196723270	2	1	160	1	0	0	0	0	0	0	0	1	4612	1079	38	1		1	DNAH7	2	196723270	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4458147	196723270	46476103	182	87452											
DNAH7	56171	broad.mit.edu	37	chr2	196729215	196729215	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccctgcatctcaccttcCgcacatttccttaagatcac	10	11	3	17	1	2	1	2	0	1	1	5	1	4	1	4	0	1	2	4	0	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:196729215C>T	uc002utj.3	-	41	7265	c.7164G>A	c.(7162-7164)GCG>GCA	p.A2388A		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2388	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TCTCACCTTCCGCACATTTCC	0.393													42	100					0	0	0.00874	0	0		T	196729215	T	T	196729215	2	4	160	1	0	0	0	0	0	0	0	1	4612	639	23	1		1	DNAH7	2	196729215	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5945	196729215	46470158	183	87453											
HECW2	57520	broad.mit.edu	37	chr2	197183522	197183522	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	agcagtgcacacggattcctGcgacccttcggcagggccac	8	6	12	15	3	0	0	0	0	0	0	2	2	1	1	3	3	3	3	3	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:197183522G>A	uc002utm.1	-	9	2275	c.2092C>T	c.(2092-2094)CAG>TAG	p.Q698*	HECW2_uc002utl.1_Nonsense_Mutation_p.Q342*	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	698					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						ACGGATTCCTGCGACCCTTCG	0.612													12	48					0	0	0.003163	0	0		A	197183522	A	A	197183522	4	1	160	1	0	0	0	0	0	1	0	0	7059	1328	46	2	2710	2	HECW2	2	197183522	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	454307	197183522	46015851	184	87454											
HECW2	57520	broad.mit.edu	37	chr2	197183576	197183576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgctgcacaggctccgtcttCctcctcctgagaagaaaagg	9	9	10	13	1	1	2	0	1	1	2	5	3	5	2	4	2	2	3	4	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:197183576C>T	uc002utm.1	-	9	2221	c.2038G>A	c.(2038-2040)GAA>AAA	p.E680K	HECW2_uc002utl.1_Missense_Mutation_p.E324K	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	680					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GCTCCGTCTTCCTCCTCCTGA	0.597													17	42					0	0	0.00499	0	0		T	197183576	T	T	197183576	3	4	160	1	0	0	0	0	1	0	0	0	7059	864	30	4	2764	4	HECW2	2	197183576	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	54	197183576	46015797	185	87455											
COQ10B	80219	broad.mit.edu	37	chr2	198334842	198334842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcatttggagactatttggCgttttagcccaggtcttcct	7	16	9	9	1	2	1	1	0	1	1	3	2	3	1	2	3	1	1	2	3	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:198334842C>T	uc002uuh.1	+	4	550	c.496C>T	c.(496-498)CGT>TGT	p.R166C	COQ10B_uc010fsl.1_Missense_Mutation_p.R138C	NM_025147	NP_079423	Q9H8M1	CQ10B_HUMAN	coenzyme Q10 homolog B precursor	166						mitochondrial inner membrane					0			Epithelial(96;0.231)|OV - Ovarian serous cystadenocarcinoma(117;0.246)			GACTATTTGGCGTTTTAGCCC	0.378													27	84					0	0	0.004656	0	0		T	198334842	T	T	198334842	3	4	160	1	0	0	0	0	1	0	0	0	3747	768	27	1	510	1	COQ10B	2	198334842	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1151266	198334842	44864531	186	87456											
BOLL	66037	broad.mit.edu	37	chr2	198621225	198621225	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgtgcaatttccactggtTgataaataacctcagaaggt	12	12	8	9	0	1	2	1	1	0	1	2	2	2	2	3	2	2	2	3	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:198621225T>C	uc002uus.2	-	9	966	c.656A>G	c.(655-657)CAA>CGA	p.Q219R	uc002uup.2_Intron|BOLL_uc002uur.2_Missense_Mutation_p.Q225R|BOLL_uc002uut.2_Missense_Mutation_p.Q231R|BOLL_uc010zha.1_Missense_Mutation_p.Q110R|BOLL_uc002uuu.1_Missense_Mutation_p.Q247R	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2	219					cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2						TTCCACTGGTTGATAAATAAC	0.368													26	57					0	0	0.005443	0	0		C	198621225	C	C	198621225	3	2	160	1	0	0	0	0	1	0	0	0	1490	1812	63	3	207	3	BOLL	2	198621225	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	286383	198621225	44578148	187	87457											
BOLL	66037	broad.mit.edu	37	chr2	198622118	198622118	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgtcctggtaaatactgtgTggtggcctaaaattaaataa	13	13	9	6	0	0	0	0	0	0	0	1	0	1	0	2	3	1	1	2	3	8	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:198622118T>C	uc002uus.2	-	8	869	c.559A>G	c.(559-561)ACA>GCA	p.T187A	uc002uup.2_Intron|BOLL_uc002uur.2_Missense_Mutation_p.T193A|BOLL_uc002uut.2_Missense_Mutation_p.T199A|BOLL_uc010zha.1_Missense_Mutation_p.T78A|BOLL_uc002uuu.1_Missense_Mutation_p.T215A	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2	187	DAZ-like.				cell differentiation|meiosis|multicellular organismal development|positive regulation of translational initiation|spermatogenesis	cytoplasm	nucleotide binding|protein binding|RNA binding|translation activator activity			ovary(2)	2						AAATACTGTGTGGTGGCCTAA	0.249													25	72					0	0	0.012213	0	0		C	198622118	C	C	198622118	3	2	160	1	0	0	0	0	1	0	0	0	1490	1696	59	3	308	3	BOLL	2	198622118	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	893	198622118	44577255	188	87458											
C2orf69	205327	broad.mit.edu	37	chr2	200789807	200789807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaccatgaaattatgactcGtcatcctgagaattatcaat	14	14	5	8	1	2	3	2	3	0	1	4	4	3	3	2	0	1	0	2	0	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:200789807G>A	uc010zhb.1	+	2	539	c.356G>A	c.(355-357)CGT>CAT	p.R119H		NM_153689	NP_710156	Q8N8R5	CB069_HUMAN	hypothetical protein LOC205327 precursor	119						extracellular region				central_nervous_system(1)	1						ATTATGACTCGTCATCCTGAG	0.308													17	37					0	0	0.00499	0	0		A	200789807	A	A	200789807	3	1	160	1	0	0	0	0	1	0	0	0	2191	1145	40	1	362	1	C2orf69	2	200789807	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2167689	200789807	42409566	189	87459											
SGOL2	151246	broad.mit.edu	37	chr2	201434523	201434523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatcaactcaggataattCggaagtgttatttcttaaag	13	16	7	5	1	3	0	2	0	1	0	4	2	3	2	0	2	1	1	0	2	7	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:201434523C>T	uc002uvw.2	+	6	724	c.611C>T	c.(610-612)TCG>TTG	p.S204L	SGOL2_uc002uvv.3_Missense_Mutation_p.S204L|SGOL2_uc010zhd.1_Missense_Mutation_p.S204L|SGOL2_uc010zhe.1_Missense_Mutation_p.S204L	NM_152524	NP_689737	Q562F6	SGOL2_HUMAN	shugoshin-like 2 isoform 1	204					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol|mitotic cohesin complex	protein binding			ovary(2)|skin(2)	4						CAGGATAATTCGGAAGTGTTA	0.318													9	185					0	0	0.004482	0	0		T	201434523	T	T	201434523	3	4	160	1	0	0	0	0	1	0	0	0	14242	893	31	1	629	1	SGOL2	2	201434523	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	644716	201434523	41764850	190	87460											
CLK1	1195	broad.mit.edu	37	chr2	201722492	201722492	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttctgatatgatccagtcGaaatggtagaaaaccatttt	13	14	7	7	1	1	3	0	2	1	1	3	4	2	3	2	1	1	1	2	1	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:201722492G>A	uc002uwe.2	-	7	962	c.781C>T	c.(781-783)CGA>TGA	p.R261*	CLK1_uc002uwd.2_Nonsense_Mutation_p.R84*|CLK1_uc010zhi.1_Nonsense_Mutation_p.R303*|CLK1_uc002uwf.2_Nonsense_Mutation_p.R35*|CLK1_uc002uwg.2_Nonsense_Mutation_p.R110*|CLK1_uc010fsv.2_RNA	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	261	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						TGATCCAGTCGAAATGGTAGA	0.303													31	80					0	0	0.010818	0	0		A	201722492	A	A	201722492	4	1	160	1	0	0	0	0	0	1	0	0	3539	1066	37	1	701	1	CLK1	2	201722492	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	287969	201722492	41476881	191	87461											
PARD3B	117583	broad.mit.edu	37	chr2	205986445	205986445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttggtaataatgatggcGttttgaaaaccaaagtgccg	12	14	10	5	2	0	2	0	2	0	0	0	2	0	2	2	2	2	2	2	2	5	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:205986445G>A	uc002var.1	+	8	1144	c.937G>A	c.(937-939)GTT>ATT	p.V313I	PARD3B_uc010fub.1_Missense_Mutation_p.V313I|PARD3B_uc002vao.1_Missense_Mutation_p.V313I|PARD3B_uc002vap.1_Missense_Mutation_p.V313I|PARD3B_uc002vaq.1_Missense_Mutation_p.V313I	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	313					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TAATGATGGCGTTTTGAAAAC	0.448													49	113					0	0	0.01441	0	0		A	205986445	A	A	205986445	3	1	160	1	0	0	0	0	1	0	0	0	11463	1145	40	1	967	1	PARD3B	2	205986445	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4263953	205986445	37212928	192	87462											
NDUFS1	4719	broad.mit.edu	37	chr2	207006783	207006783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attaagaagataattggaacGcaaatctgtgctagaaatac	18	10	8	5	1	1	3	0	0	1	3	1	4	1	4	0	1	3	2	0	1	8	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:207006783G>A	uc002vbe.2	-	12	1271	c.1144C>T	c.(1144-1146)CGT>TGT	p.R382C	NDUFS1_uc010ziq.1_Missense_Mutation_p.R396C|NDUFS1_uc010zir.1_Missense_Mutation_p.R346C|NDUFS1_uc010zis.1_Missense_Mutation_p.R325C|NDUFS1_uc010zit.1_Missense_Mutation_p.R271C|NDUFS1_uc010ziu.1_Missense_Mutation_p.R266C	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	382					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	TAATTGGAACGCAAATCTGTG	0.343													9	93					0	0	0.004482	0	0		A	207006783	A	A	207006783	3	1	160	1	0	0	0	0	1	0	0	0	10310	1087	38	1	1071	1	NDUFS1	2	207006783	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1020338	207006783	36192590	193	87463											
CREB1	1385	broad.mit.edu	37	chr2	208420450	208420450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaatgacagttcaagcccagCcacagattgccacattagcc	14	7	7	13	0	1	2	1	1	0	1	1	2	1	2	4	0	4	1	4	0	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:208420450C>T	uc002vcc.2	+	2	342	c.91C>T	c.(91-93)CCA>TCA	p.P31S	CREB1_uc010ziz.1_Missense_Mutation_p.P29S|CREB1_uc002vcd.2_Missense_Mutation_p.P31S	NM_134442	NP_604391	P16220	CREB1_HUMAN	cAMP responsive element binding protein 1	31					activation of phospholipase C activity|axon guidance|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein dimerization activity|transcription cofactor activity		EWSR1/CREB1(42)	soft_tissue(42)|breast(1)|central_nervous_system(1)	44				LUSC - Lung squamous cell carcinoma(261;0.0768)|Epithelial(149;0.127)|Lung(261;0.145)	Adenosine monophosphate(DB00131)|Bromocriptine(DB01200)|Naloxone(DB01183)	TCAAGCCCAGCCACAGATTGC	0.428			T	EWSR1	clear cell sarcoma|angiomatoid fibrous histiocytoma								3	20					0	0	0.004672	0	0		T	208420450	T	T	208420450	3	4	160	1	0	0	0	0	1	0	0	0	3857	739	26	2	93	2	CREB1	2	208420450	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1413667	208420450	34778923	194	87464											
FN1	2335	broad.mit.edu	37	chr2	216236885	216236885	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttatgggggtggccgttgtgGgcggtgtggtccgcctaaaa	5	11	18	7	3	0	0	0	0	0	0	1	0	1	0	3	6	0	1	3	6	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:216236885G>T	uc002vfa.2	-	40	6727	c.6461C>A	c.(6460-6462)CCC>CAC	p.P2154H	FN1_uc002vfb.2_Missense_Mutation_p.P1973H|FN1_uc002vfc.2_Missense_Mutation_p.P1948H|FN1_uc002vfd.2_Missense_Mutation_p.P2129H|FN1_uc002vfe.2_Missense_Mutation_p.P2063H|FN1_uc002vff.2_Missense_Mutation_p.P2038H|FN1_uc002vfg.2_Missense_Mutation_p.P1973H|FN1_uc002vfh.2_Intron|FN1_uc002vfi.2_Missense_Mutation_p.P2154H|FN1_uc002vfj.2_Intron|FN1_uc002vez.2_Missense_Mutation_p.P348H|FN1_uc010zjp.1_Missense_Mutation_p.P691H|FN1_uc002vfk.1_Intron|FN1_uc010fva.1_Intron|FN1_uc010fvb.1_Intron|FN1_uc010fvc.1_Intron|FN1_uc010fvd.1_Missense_Mutation_p.P245H	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	2063	Connecting strand 3 (CS-3) (V region).				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCCGTTGTGGGCGGTGTGGT	0.512													26	77					6.32553e-13	6.82517e-13	0.004656	1	0		T	216236885	T	T	216236885	3	4	160	1	0	0	0	0	1	0	0	0	5976	1232	43	5	1000	5	FN1	2	216236885	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7816435	216236885	26962488	195	87465											
TNS1	7145	broad.mit.edu	37	chr2	218762658	218762658	+	Missense_Mutation	SNP	A	G	G	1	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	gtacaccaggtccagctcacAgctgtcctccatggtccggc	7	8	10	16	1	1	0	1	0	0	0	5	0	5	0	5	3	3	3	5	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:218762658A>G	uc002vgt.2	-	6	429	c.31T>C	c.(31-33)TGT>CGT	p.C11R	TNS1_uc002vgr.2_Missense_Mutation_p.C11R|TNS1_uc002vgs.2_Missense_Mutation_p.C11R|TNS1_uc010zjv.1_Missense_Mutation_p.C11R|TNS1_uc010fvj.1_Missense_Mutation_p.C79R|TNS1_uc010fvk.1_Missense_Mutation_p.C136R|TNS1_uc002vgu.3_Missense_Mutation_p.C42R|TNS1_uc002vgv.1_RNA	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	11	Phosphatase tensin-type.					cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TCCAGCTCACAGCTGTCCTCC	0.587													11	44					0	0	0.010729	0	0		G	218762658	G	G	218762658	3	3	160	1	0	0	0	0	1	0	0	0	16368	188	7	3	5288	3	TNS1	2	218762658	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2525773	218762658	24436715	196	87466											
ABCB6	10058	broad.mit.edu	37	chr2	220078361	220078361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgtacagctggataatgtAggtgccaaagagcacatagt	14	9	11	7	0	0	1	0	0	0	1	0	2	0	2	1	2	4	4	1	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:220078361A>G	uc002vkc.1	-	10	1883	c.1606T>C	c.(1606-1608)TAC>CAC	p.Y536H	ABCB6_uc010fwe.1_Missense_Mutation_p.Y490H	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	536	Helical; (Potential).|ABC transmembrane type-1.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		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)		TGGATAATGTAGGTGCCAAAG	0.547													39	100					0	0	0.00623	0	0		G	220078361	G	G	220078361	3	3	160	1	0	0	0	0	1	0	0	0	45	420	15	3	962	3	ABCB6	2	220078361	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1315703	220078361	23121012	197	87467											
SPEG	10290	broad.mit.edu	37	chr2	220348655	220348655	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatccccgtggccaggcttgGggcccgtaggctacaggagt	6	7	16	12	2	0	0	0	0	0	0	1	2	1	1	4	6	1	3	4	6	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:220348655G>T	uc010fwg.2	+	30	6470	c.6470G>T	c.(6469-6471)GGG>GTG	p.G2157V		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2157					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		GCCAGGCTTGGGGCCCGTAGG	0.552													4	13					3.09899e-07	3.27102e-07	0.004482	1	0		T	220348655	T	T	220348655	3	4	160	1	0	0	0	0	1	0	0	0	15061	1232	43	5	6600	5	SPEG	2	220348655	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	270294	220348655	22850718	198	87468											
TMEM198	130612	broad.mit.edu	37	chr2	220414512	220414512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggcctcacccacagatgCggactatgagtatgggtccc	9	8	11	13	1	1	2	1	1	0	1	2	3	2	3	3	3	1	1	3	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:220414512C>T	uc002vme.2	+	6	1604	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V	TMEM198_uc002vmf.2_Missense_Mutation_p.A340V|hsa-mir-3132|MI0014152_5'Flank	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	340						integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CCCACAGATGCGGACTATGAG	0.592													29	76					0	0	0.007291	0	0		T	220414512	T	T	220414512	3	4	160	1	0	0	0	0	1	0	0	0	16144	768	27	1	1033	1	TMEM198	2	220414512	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	65857	220414512	22784861	199	87469											
STK11IP	114790	broad.mit.edu	37	chr2	220466796	220466796	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttgcagcaggagcctccaGgcattagaggtaaggagagt	12	8	14	7	0	0	2	0	0	0	2	1	4	1	3	2	4	3	4	2	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:220466796G>T	uc002vml.2	+	5	505	c.462G>T	c.(460-462)CAG>CAT	p.Q154H	STK11IP_uc010zlk.1_Missense_Mutation_p.Q143H|STK11IP_uc010zll.1_Missense_Mutation_p.Q143H|STK11IP_uc002vmm.1_Missense_Mutation_p.Q143H	NM_052902	NP_443134	Q8N1F8	S11IP_HUMAN	LKB1 interacting protein	154	LRR 2.				protein localization	cytoplasm	protein kinase binding			ovary(1)	1		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)		GGAGCCTCCAGGCATTAGAGG	0.448													10	19					2.17888e-05	2.27932e-05	0.006214	1	0		T	220466796	T	T	220466796	3	4	160	1	0	0	0	0	1	0	0	0	15313	991	35	5	480	5	STK11IP	2	220466796	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	52284	220466796	22732577	200	87470											
SLC4A3	6508	broad.mit.edu	37	chr2	220496734	220496734	+	Missense_Mutation	SNP	A	G	G	1	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	gtgtgcggcgacacttagtgAaaaagccctcccggacgcag	10	6	13	12	4	0	1	0	1	0	0	1	3	1	2	2	2	2	1	2	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:220496734A>G	uc002vmp.3	+	7	1125	c.856A>G	c.(856-858)AAA>GAA	p.K286E	SLC4A3_uc002vmn.2_Missense_Mutation_p.K313E|SLC4A3_uc002vmo.3_Missense_Mutation_p.K313E|SLC4A3_uc010fwm.2_5'UTR|SLC4A3_uc010fwn.1_5'UTR	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	286	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACACTTAGTGAAAAAGCCCTC	0.647													21	48					0	0	0.012319	0	0		G	220496734	G	G	220496734	3	3	160	1	0	0	0	0	1	0	0	0	14680	247	9	3	959	3	SLC4A3	2	220496734	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	29938	220496734	22702639	201	87471											
SLC19A3	80704	broad.mit.edu	37	chr2	228564113	228564113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaagaactctacaacctgCatggtcttcactccttggcc	10	11	7	13	0	3	2	1	0	2	2	4	2	4	2	3	2	4	1	3	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:228564113C>T	uc002vpi.2	-	3	407	c.318G>A	c.(316-318)ATG>ATA	p.M106I	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_Missense_Mutation_p.M102I	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	106	Extracellular (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	CTACAACCTGCATGGTCTTCA	0.522													63	133					0	0	0.01441	0	0		T	228564113	T	T	228564113	3	4	160	1	0	0	0	0	1	0	0	0	14455	710	25	2	1188	2	SLC19A3	2	228564113	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	8067379	228564113	14635260	202	87472											
NEU2	4759	broad.mit.edu	37	chr2	233899156	233899156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggagcctggtggtgcccGcctacgcctaccggaaactt	6	7	12	16	4	0	0	0	0	0	0	0	2	0	2	6	4	5	0	6	4	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:233899156G>A	uc010zmn.1	+	2	532	c.532G>A	c.(532-534)GCC>ACC	p.A178T		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	178							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		GGTGGTGCCCGCCTACGCCTA	0.662													18	46					0	0	0.007413	0	0		A	233899156	A	A	233899156	3	1	160	1	0	0	0	0	1	0	0	0	10361	1087	38	1	538	1	NEU2	2	233899156	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5335043	233899156	9300217	203	87473											
MLPH	79083	broad.mit.edu	37	chr2	238434402	238434402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctggctgagctctgcccGcctggaggctcccacaggat	5	7	13	16	1	1	1	0	1	1	0	2	3	2	3	4	4	2	3	4	4	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:238434402G>A	uc002vwt.2	+	7	1061	c.834G>A	c.(832-834)CCG>CCA	p.P278P	MLPH_uc002vws.2_Intron|MLPH_uc010fyt.1_Silent_p.P278P|MLPH_uc002vwu.2_Silent_p.P278P|MLPH_uc002vwv.2_Silent_p.P238P|MLPH_uc002vww.2_Silent_p.P254P|MLPH_uc002vwx.2_Silent_p.P162P|MLPH_uc010fyu.2_Missense_Mutation_p.R77H	NM_024101	NP_077006	Q9BV36	MELPH_HUMAN	melanophilin isoform 1	278							metal ion binding			ovary(1)	1		Breast(86;0.000381)|Renal(207;0.000966)|Ovarian(221;0.0695)|all_hematologic(139;0.095)|all_lung(227;0.17)|Melanoma(123;0.203)		Epithelial(121;1.17e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.02e-10)|Kidney(56;4.23e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.15e-07)|BRCA - Breast invasive adenocarcinoma(100;0.000439)|Lung(119;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0316)		AGCTCTGCCCGCCTGGAGGCT	0.672													16	47					0	0	0.008871	0	0		A	238434402	A	A	238434402	2	1	160	1	0	0	0	0	0	0	0	1	9651	1074	38	1		1	MLPH	2	238434402	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4535246	238434402	4764971	204	87474											
HDAC4	9759	broad.mit.edu	37	chr2	240078398	240078398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgtacattcccaggaccGggtggttataggaggtcgac	8	9	14	10	4	0	0	0	0	0	0	3	3	1	2	2	5	1	2	2	5	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:240078398G>A	uc002vyk.3	-	7	1475	c.683C>T	c.(682-684)CCG>CTG	p.P228L	HDAC4_uc010fyz.1_Missense_Mutation_p.P223L|HDAC4_uc010zoa.1_Missense_Mutation_p.P223L|HDAC4_uc010fza.2_Missense_Mutation_p.P228L|HDAC4_uc010fyy.2_Missense_Mutation_p.P180L|HDAC4_uc010znz.1_Missense_Mutation_p.P111L|HDAC4_uc010fzb.1_5'Flank	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	228	Interaction with MEF2A.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		TCCCAGGACCGGGTGGTTATA	0.567													33	76					0	0	0.010818	0	0		A	240078398	A	A	240078398	3	1	160	1	0	0	0	0	1	0	0	0	7025	1116	39	1	2655	1	HDAC4	2	240078398	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1643996	240078398	3120975	205	87475											
CAPN10	11132	broad.mit.edu	37	chr2	241555834	241555834	+	Silent	SNP	C	T	T	0	0	0	1	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	cctgtgcagcttcctgcagaCtggacttgcaaagtccagcc	8	9	10	14	0	0	1	0	0	0	1	2	2	2	2	4	1	5	4	4	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:241555834C>T	uc002vzq.1	+	3	480	c.303C>T	c.(301-303)GAC>GAT	p.D101D	GPR35_uc010fzh.1_5'UTR|GPR35_uc010fzi.1_5'UTR	NM_023089	NP_075577	Q9HC96	CAN10_HUMAN	calpain 10 isoform g	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		ttcctgcagactggacttgca	0.219													7	400					0	0	0.004482	0	0		T	241555834	T	T	241555834	2	4	160	1	0	0	0	0	0	0	0	1	2626	564	20	4		4	CAPN10	2	241555834	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1477436	241555834	1643539	206	87476											
THAP4	51078	broad.mit.edu	37	chr2	242572334	242572334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaggctccggtactgaccgCggctgggcgacagcaggcta	7	5	16	13	5	0	1	0	1	0	0	1	3	1	1	2	5	2	5	2	5	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr2:242572334C>T	uc002wbt.2	-	2	1461	c.1238G>A	c.(1237-1239)CGC>CAC	p.R413H		NM_015963	NP_057047	Q8WY91	THAP4_HUMAN	THAP domain containing 4 isoform 1	413							DNA binding|metal ion binding				0		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;2.3e-33)|all cancers(36;8.99e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.68e-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;0.0844)		GTACTGACCGCGGCTGGGCGA	0.622													3	15					0	0	0.009096	0	0		T	242572334	T	T	242572334	3	4	160	1	0	0	0	0	1	0	0	0	15871	768	27	1	523	1	THAP4	2	242572334	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1016500	242572334	627039	207	87477											
CNTN4	152330	broad.mit.edu	37	chr3	3085297	3085297	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaagtcaaccccccggaaAcatcatatggaattcatcag	15	7	6	13	1	4	0	4	0	0	0	4	2	4	2	4	2	2	0	4	2	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:3085297A>C	uc003bpc.2	+	22	2941	c.2720A>C	c.(2719-2721)AAC>ACC	p.N907T	CNTN4_uc003bpe.2_Missense_Mutation_p.N579T|CNTN4_uc003bpf.2_Missense_Mutation_p.N578T|CNTN4_uc003bpg.2_Missense_Mutation_p.N163T	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	907	Fibronectin type-III 4.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		CCCCCCGGAAACATCATATGG	0.363													11	74					0	0	0.010729	0	0		C	3085297	C	C	3085297	3	2	160	1	0	0	0	0	1	0	0	0	3646	43	2	5	2798	5	CNTN4	3	3085297	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08		3085297	194937133	208	87478											
TRNT1	51095	broad.mit.edu	37	chr3	3189371	3189371	+	Missense_Mutation	SNP	A	G	G	1	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	agacccattgaaaccctatcAagacttcattatagatgtaa	16	11	5	9	0	2	4	2	1	0	3	2	4	2	4	2	0	1	1	2	0	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:3189371A>G	uc003bpp.3	+	7	1142	c.1040A>G	c.(1039-1041)CAA>CGA	p.Q347R	TRNT1_uc010hbv.2_Missense_Mutation_p.Q327R|TRNT1_uc003bpm.2_RNA	NM_182916	NP_886552	Q96Q11	TRNT1_HUMAN	tRNA nucleotidyl transferase, CCA-adding, 1	347					protein targeting to mitochondrion|tRNA 3'-end processing	mitochondrion	ATP binding|tRNA adenylyltransferase activity|tRNA binding				0				Epithelial(13;0.00226)|OV - Ovarian serous cystadenocarcinoma(96;0.00592)|all cancers(10;0.011)		AAACCCTATCAAGACTTCATT	0.294													3	144					0	0	0.009096	0	0		G	3189371	G	G	3189371	3	3	160	1	0	0	0	0	1	0	0	0	16599	130	5	3	1062	3	TRNT1	3	3189371	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	104074	3189371	194833059	209	87479											
SLC6A11	6538	broad.mit.edu	37	chr3	10979960	10979960	+	Missense_Mutation	SNP	A	G	G	1	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	tccagaagttgacgacccccAgcacagatctgaaaatgcgg	13	6	10	12	2	1	4	0	2	1	2	2	5	2	4	3	1	2	2	3	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:10979960A>G	uc003bvz.2	+	14	1805	c.1771A>G	c.(1771-1773)AGC>GGC	p.S591G		NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	591	Cytoplasmic (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		GACGACCCCCAGCACAGATCT	0.567													24	62					0	0	0.004656	0	0		G	10979960	G	G	10979960	3	3	160	1	0	0	0	0	1	0	0	0	14699	188	7	3	1825	3	SLC6A11	3	10979960	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	7790589	10979960	187042470	210	87480											
FBLN2	2199	broad.mit.edu	37	chr3	13655590	13655590	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatcatgtcatgctctcctGctgtgagggtgaagagcctc	8	11	11	11	0	3	3	2	2	1	1	5	3	3	3	2	1	3	2	2	1	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:13655590G>T	uc011avb.1	+	5	1780	c.1655G>T	c.(1654-1656)TGC>TTC	p.C552F	FBLN2_uc011auz.1_Missense_Mutation_p.C578F|FBLN2_uc011ava.1_Missense_Mutation_p.C552F|FBLN2_uc011avc.1_Missense_Mutation_p.C552F|uc003byc.1_5'Flank	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	552	Anaphylatoxin-like 3.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			ATGCTCTCCTGCTGTGAGGGT	0.627													28	62					9.04412e-07	9.52476e-07	0.004656	1	0		T	13655590	T	T	13655590	3	4	160	1	0	0	0	0	1	0	0	0	5713	1319	46	5	359	5	FBLN2	3	13655590	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2675630	13655590	184366840	211	87481											
KCNH8	131096	broad.mit.edu	37	chr3	19389298	19389298	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcatacttctgcattttAgcacttttaaagctggctgg	10	16	7	8	0	2	0	1	0	1	0	2	0	2	0	0	2	4	4	0	2	5	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:19389298A>G	uc003cbk.1	+	5	847	c.652A>G	c.(652-654)AGC>GGC	p.S218G	KCNH8_uc011awe.1_Missense_Mutation_p.S218G|KCNH8_uc010hex.1_5'UTR	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	218	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TCTGCATTTTAGCACTTTTAA	0.373													6	281					0	0	0.001168	0	0		G	19389298	G	G	19389298	3	3	160	1	0	0	0	0	1	0	0	0	8054	420	15	3	670	3	KCNH8	3	19389298	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5733708	19389298	178633132	212	87482											
RBMS3	27303	broad.mit.edu	37	chr3	29910399	29910399	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgatggaggacaaaagaagCgacagaatcaaagcaaatat	20	5	10	6	1	1	3	1	1	0	2	1	6	1	5	0	2	2	1	0	2	7	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:29910399C>T	uc003cel.2	+	7	918	c.688C>T	c.(688-690)CGA>TGA	p.R230*	RBMS3_uc003cek.2_Nonsense_Mutation_p.R230*|RBMS3_uc010hfq.2_Nonsense_Mutation_p.R230*|RBMS3_uc003cem.2_Nonsense_Mutation_p.R229*|RBMS3_uc010hfr.2_Nonsense_Mutation_p.R230*	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	230						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				ACAAAAGAAGCGACAGAATCA	0.458													4	15					0	0	0.000602	0	0		T	29910399	T	T	29910399	4	4	160	1	0	0	0	0	0	1	0	0	13175	760	27	1	714	1	RBMS3	3	29910399	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	10521101	29910399	168112031	213	87483											
GADL1	339896	broad.mit.edu	37	chr3	30880509	30880509	+	Missense_Mutation	SNP	T	C	C	0	1	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	atctacatgaagccagaggcTgtgcctctcgcagatgtctg	9	10	11	11	1	3	3	0	1	3	2	4	3	3	3	2	1	3	2	2	1	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:30880509T>C	uc003cep.2	-	9	930	c.883A>G	c.(883-885)AGC>GGC	p.S295G	GADL1_uc003ceq.1_Missense_Mutation_p.S295G	NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	295					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	AGCCAGAGGCTGTGCCTCTCG	0.438													20	114					0	0	0.014323	0	0		C	30880509	C	C	30880509	3	2	160	1	0	0	0	0	1	0	0	0	6199	1580	55	3	710	3	GADL1	3	30880509	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	970110	30880509	167141921	214	87484											
SUSD5	26032	broad.mit.edu	37	chr3	33249394	33249394	+	Silent	SNP	A	G	G	1	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	ctcatgatttgctgttctccActtcctttgctacacacagt	7	16	5	13	0	2	1	1	1	1	0	4	1	3	1	2	0	3	3	2	0	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:33249394A>G	uc003cfo.1	-	3	733	c.315T>C	c.(313-315)AGT>AGC	p.S105S		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	105	Extracellular (Potential).|Link.				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						GCTGTTCTCCACTTCCTTTGC	0.413													51	139					0	0	0.01441	0	0		G	33249394	G	G	33249394	2	3	160	1	0	0	0	0	0	0	0	1	15436	156	6	3		3	SUSD5	3	33249394	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2368885	33249394	164773036	215	87485											
SLC22A13	9390	broad.mit.edu	37	chr3	38317132	38317132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcagacacccccagctcCggaaggtgaccctgattatc	9	9	9	14	1	1	3	1	2	0	1	3	4	2	4	4	2	1	2	4	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:38317132C>T	uc003chz.3	+	6	1045	c.991C>T	c.(991-993)CGG>TGG	p.R331W	SLC22A13_uc011aym.1_RNA|SLC22A13_uc011ayn.1_Missense_Mutation_p.R331W	NM_004256	NP_004247	Q9Y226	S22AD_HUMAN	solute carrier family 22 (organic anion	331	Cytoplasmic (Potential).					integral to plasma membrane	organic cation transmembrane transporter activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0533)|Kidney(284;0.067)		CCCCCAGCTCCGGAAGGTGAC	0.597													20	52					0	0	0.012319	0	0		T	38317132	T	T	38317132	3	4	160	1	0	0	0	0	1	0	0	0	14469	643	23	1	1013	1	SLC22A13	3	38317132	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5067738	38317132	159705298	216	87486											
GORASP1	64689	broad.mit.edu	37	chr3	39141917	39141917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagcagaaggtggtggggtgCcaggtggcttcttgtggtag	6	10	20	5	0	1	1	0	0	1	1	1	2	1	1	1	7	2	3	1	7	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:39141917C>T	uc003ciw.1	-	6	742	c.644G>A	c.(643-645)GGC>GAC	p.G215D	GORASP1_uc003civ.1_RNA|GORASP1_uc003cix.1_RNA|GORASP1_uc003ciy.1_RNA|GORASP1_uc011ayw.1_Missense_Mutation_p.G120D|GORASP1_uc003ciz.1_Missense_Mutation_p.G60D	NM_031899	NP_114105	Q9BQQ3	GORS1_HUMAN	Golgi reassembly stacking protein 1	215	Pro-rich.				mitotic prophase|protein transport	cytosol|Golgi apparatus|membrane				ovary(2)|central_nervous_system(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)		TGGTGGGGTGCCAGGTGGCTT	0.597													15	48					0	0	0.003163	0	0		T	39141917	T	T	39141917	3	4	160	1	0	0	0	0	1	0	0	0	6590	739	26	2	694	2	GORASP1	3	39141917	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	824785	39141917	158880513	217	87487											
VIPR1	7433	broad.mit.edu	37	chr3	42576492	42576492	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagccaggtccacactcctgCtgatccccctgtttggagta	7	11	9	14	0	0	1	0	1	0	0	3	2	3	2	5	2	2	3	5	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:42576492C>T	uc003clf.2	+	11	1160	c.1036C>T	c.(1036-1038)CTG>TTG	p.L346L	VIPR1_uc011azl.1_Silent_p.L298L|VIPR1_uc011azm.1_Silent_p.L136L|VIPR1_uc011azn.1_Silent_p.L319L|VIPR1_uc003clg.2_5'UTR	NM_004624	NP_004615	P32241	VIPR1_HUMAN	vasoactive intestinal peptide receptor 1	346	Helical; Name=6; (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|muscle contraction|positive regulation of cell proliferation|synaptic transmission	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.241)		CACACTCCTGCTGATCCCCCT	0.532													38	87					0	0	0.004878	0	0		T	42576492	T	T	42576492	2	4	160	1	0	0	0	0	0	0	0	1	17195	796	28	2		2	VIPR1	3	42576492	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3434575	42576492	155445938	218	87488											
ZNF167	55888	broad.mit.edu	37	chr3	44598791	44598791	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctctgccgctggtggctcatGccagaggtgcacaccaagga	8	7	13	13	1	2	1	1	0	1	1	2	2	2	2	3	4	3	3	3	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:44598791G>A	uc010hin.2	+	2	640	c.252G>A	c.(250-252)ATG>ATA	p.M84I	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Missense_Mutation_p.M84I|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.M84I|ZNF167_uc003cnk.2_Missense_Mutation_p.M84I	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	84	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		GGTGGCTCATGCCAGAGGTGC	0.602													19	66					0	0	0.010504	0	0		A	44598791	A	A	44598791	3	1	160	1	0	0	0	0	1	0	0	0	17766	1319	46	2	254	2	ZNF167	3	44598791	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2022299	44598791	153423639	219	87489											
ZNF502	91392	broad.mit.edu	37	chr3	44763810	44763810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagtgtgagaaaaccttcCgcaagtatgcacaccttagt	12	10	10	9	1	0	2	0	2	0	1	1	3	1	2	3	0	2	3	3	0	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:44763810C>T	uc011baa.1	+	4	1756	c.1501C>T	c.(1501-1503)CGC>TGC	p.R501C	ZNF502_uc003cns.2_Missense_Mutation_p.R501C|ZNF502_uc011bab.1_Missense_Mutation_p.R501C|ZNF502_uc003cnt.2_Missense_Mutation_p.R501C	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502	501	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		GAAAACCTTCCGCAAGTATGC	0.413													5	144					0	0	0.000602	0	0		T	44763810	T	T	44763810	3	4	160	1	0	0	0	0	1	0	0	0	17975	652	23	1	1507	1	ZNF502	3	44763810	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	165019	44763810	153258620	220	87490											
LARS2	23395	broad.mit.edu	37	chr3	45435951	45435951	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaccttctgaagaatggcTtctgtttggcagagattggg	8	13	12	8	0	3	3	1	1	2	2	3	4	3	3	1	3	0	3	1	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:45435951T>G	uc003cop.1	+	3	191	c.6T>G	c.(4-6)GCT>GCG	p.A2A	LARS2_uc010hit.1_Silent_p.A2A	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	2					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	GAAGAATGGCTTCTGTTTGGC	0.473													5	57					0	0	0.001168	0	0		G	45435951	G	G	45435951	2	3	160	1	0	0	0	0	0	0	0	1	8651	1596	56	5		5	LARS2	3	45435951	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	672141	45435951	152586479	221	87491											
LRRC2	79442	broad.mit.edu	37	chr3	46571410	46571410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctacctgtctatatcttgcGgcaggtcggtcaggttattg	6	14	12	9	2	3	0	1	0	2	0	4	0	3	0	1	4	2	3	1	4	4	6	rs142961281		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:46571410G>A	uc010hji.2	-	6	1122	c.758C>T	c.(757-759)CCG>CTG	p.P253L	LRRC2_uc003cpu.3_Missense_Mutation_p.P253L	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	253	LRR 6.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		TATATCTTGCGGCAGGTCGGT	0.418													24	41					0	0	0.007291	0	0		A	46571410	A	A	46571410	3	1	160	1	0	0	0	0	1	0	0	0	8994	1116	39	1	373	1	LRRC2	3	46571410	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1135459	46571410	151451020	222	87492											
DHX30	22907	broad.mit.edu	37	chr3	47891514	47891514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggctgcacttccccccagCgtacaggaggagcacgggca	8	5	13	15	2	0	0	0	0	0	0	1	2	1	2	3	4	4	5	3	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:47891514C>T	uc003cru.2	+	22	3915	c.3489C>T	c.(3487-3489)AGC>AGT	p.S1163S	DHX30_uc003crt.2_Silent_p.S1124S	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	1163						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		TTCCCCCCAGCGTACAGGAGG	0.682											OREG0015550	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	13					0	0	0.000602	0	0		T	47891514	T	T	47891514	2	4	160	1	0	0	0	0	0	0	0	1	4510	767	27	1		1	DHX30	3	47891514	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1320104	47891514	150130916	223	87493											
BSN	8927	broad.mit.edu	37	chr3	49694830	49694830	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgctgactgcagtgtgcagaCggacgacgaagacagtgctg	10	7	15	9	3	0	3	0	1	0	2	0	6	0	4	0	1	4	4	0	1	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:49694830C>T	uc003cxe.3	+	5	7955	c.7841C>T	c.(7840-7842)ACG>ATG	p.T2614M		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2614					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		AGTGTGCAGACGGACGACGAA	0.657													12	26					0	0	0.00245	0	0		T	49694830	T	T	49694830	3	4	160	1	0	0	0	0	1	0	0	0	1533	536	19	1	7859	1	BSN	3	49694830	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1803316	49694830	148327600	224	87494											
RPL29	6159	broad.mit.edu	37	chr3	52027966	52027966	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaatgtaggcaagtcgatcGagcttgcggctgacaccctt	9	9	12	11	3	0	1	0	1	0	0	2	3	0	1	1	2	2	5	1	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:52027966G>A	uc003dcs.2	-	4	373	c.279C>T	c.(277-279)CTC>CTT	p.L93L		NM_000992	NP_000983	P47914	RL29_HUMAN	ribosomal protein L29	93					embryo implantation|endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	heparin binding|protein binding|RNA binding|structural constituent of ribosome				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CAAGTCGATCGAGCTTGCGGC	0.532													32	79					0	0	0.01441	0	0		A	52027966	A	A	52027966	2	1	160	1	0	0	0	0	0	0	0	1	13603	1045	37	1		1	RPL29	3	52027966	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2333136	52027966	145994464	225	87495											
SEMA3G	56920	broad.mit.edu	37	chr3	52475387	52475387	+	Missense_Mutation	SNP	A	G	G	1	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	cttgtcattgtcctggtcagAgttctcagggatccgggcgg	5	12	14	10	2	3	1	3	0	1	1	6	2	5	2	2	4	0	1	2	4	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:52475387A>G	uc003dea.1	-	7	706	c.706T>C	c.(706-708)TCT>CCT	p.S236P		NM_020163	NP_064548	Q9NS98	SEM3G_HUMAN	semaphorin sem2 precursor	236	Sema.				multicellular organismal development	extracellular region|membrane	receptor activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;1.69e-05)|Kidney(197;0.00173)|KIRC - Kidney renal clear cell carcinoma(197;0.00196)|OV - Ovarian serous cystadenocarcinoma(275;0.0333)		TCCTGGTCAGAGTTCTCAGGG	0.627													17	48					0	0	0.006122	0	0		G	52475387	G	G	52475387	3	3	160	1	0	0	0	0	1	0	0	0	14055	304	11	3	1682	3	SEMA3G	3	52475387	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	447421	52475387	145547043	226	87496											
STAB1	23166	broad.mit.edu	37	chr3	52539927	52539927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaactgcaggagttggtgcGgtaccacatctacaaccacg	12	8	10	11	2	1	0	0	0	1	0	1	1	1	1	2	3	6	3	2	3	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:52539927G>A	uc003dej.2	+	16	1798	c.1724G>A	c.(1723-1725)CGG>CAG	p.R575Q	STAB1_uc003dei.1_Missense_Mutation_p.R575Q	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	575	Extracellular (Potential).|FAS1 2.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GAGTTGGTGCGGTACCACATC	0.627													13	40					0	0	0.013537	0	0		A	52539927	A	A	52539927	3	1	160	1	0	0	0	0	1	0	0	0	15262	1116	39	1	1786	1	STAB1	3	52539927	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	64540	52539927	145482503	227	87497											
PBRM1	55193	broad.mit.edu	37	chr3	52712570	52712570	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtctgccctgttcatccTtatagtctcggatggtatta	8	15	9	9	1	3	0	1	0	2	0	5	2	4	1	2	2	1	2	2	2	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:52712570T>G	uc003des.2	-	2	194	c.182A>C	c.(181-183)AAG>ACG	p.K61T	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Missense_Mutation_p.K61T|PBRM1_uc003der.2_Missense_Mutation_p.K61T|PBRM1_uc003det.2_Missense_Mutation_p.K61T|PBRM1_uc003deu.2_Missense_Mutation_p.K61T|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Missense_Mutation_p.K61T|PBRM1_uc010hmk.1_Missense_Mutation_p.K61T|PBRM1_uc003dey.2_Missense_Mutation_p.K61T|PBRM1_uc003dez.1_Missense_Mutation_p.K61T|PBRM1_uc003dfb.1_5'UTR	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	61					chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		CTGTTCATCCTTATAGTCTCG	0.443			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								41	88					0	0	0.010771	0	0		G	52712570	G	G	52712570	3	3	160	1	0	0	0	0	1	0	0	0	11510	1609	56	5	4834	5	PBRM1	3	52712570	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	172643	52712570	145309860	228	87498											
FAM3D	131177	broad.mit.edu	37	chr3	58629428	58629428	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggcctctgcccacattgtTtttcacaggactcatgatcc	8	13	7	13	0	3	1	2	1	1	0	4	2	4	2	3	2	1	1	3	2	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:58629428T>C	uc003dkq.2	-	6	580	c.283A>G	c.(283-285)AAC>GAC	p.N95D		NM_138805	NP_620160	Q96BQ1	FAM3D_HUMAN	family with sequence similarity 3, member D	95					negative regulation of insulin secretion	extracellular region	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000225)|Kidney(10;0.000667)|KIRC - Kidney renal clear cell carcinoma(10;0.000802)|OV - Ovarian serous cystadenocarcinoma(275;0.169)		CCCACATTGTTTTTCACAGGA	0.527													26	75					0	0	0.004656	0	0		C	58629428	C	C	58629428	3	2	160	1	0	0	0	0	1	0	0	0	5573	1841	64	3	411	3	FAM3D	3	58629428	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	5916858	58629428	139393002	229	87499											
C3orf67	200844	broad.mit.edu	37	chr3	58817562	58817562	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgtaggcttgctagcatCtgtaactcggattcactcat	9	12	8	12	2	3	0	2	0	1	0	4	1	3	1	1	2	3	5	1	2	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:58817562C>A	uc003dkt.1	-	13	1681	c.1272G>T	c.(1270-1272)CAG>CAT	p.Q424H	C3orf67_uc003dkr.1_RNA|C3orf67_uc003dks.1_Missense_Mutation_p.Q365H|uc003dku.1_Intron	NM_198463	NP_940865	Q6ZVT6	CC067_HUMAN	hypothetical protein LOC200844	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment											0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)		TTGCTAGCATCTGTAACTCGG	0.488													25	71					2.27525e-19	2.51278e-19	0.003954	1	0		A	58817562	A	A	58817562	3	1	160	1	0	0	0	0	1	0	0	0	2244	912	32	5	435	5	C3orf67	3	58817562	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	188134	58817562	139204868	230	87500											
THOC7	80145	broad.mit.edu	37	chr3	63825343	63825343	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atgaaatacccctcttcctgGgacccagagttgcaccattt	10	11	7	13	0	1	2	0	1	1	1	2	3	2	3	5	1	2	2	5	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:63825343G>A	uc003dlt.3	-	2	257	c.126C>T	c.(124-126)TCC>TCT	p.S42S	C3orf49_uc003dls.3_Intron|THOC7_uc003dlu.3_Intron	NM_025075	NP_079351	Q6I9Y2	THOC7_HUMAN	Ngg1 interacting factor 3 like 1 binding protein	42					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	cytoplasm|THO complex part of transcription export complex	protein binding|RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(55;0.000439)|Kidney(15;0.00194)|KIRC - Kidney renal clear cell carcinoma(15;0.00218)		CCTCTTCCTGGGACCCAGAGT	0.413													10	154					0	0	0.006214	0	0		A	63825343	A	A	63825343	2	1	160	1	0	0	0	0	0	0	0	1	15895	1219	43	4		4	THOC7	3	63825343	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5007781	63825343	134197087	231	87501											
LRIG1	26018	broad.mit.edu	37	chr3	66434452	66434452	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcattagctgaaatagaaccGgctgagttctgagcagtaca	13	9	11	8	1	1	4	0	3	1	1	1	4	1	4	1	1	4	6	1	1	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:66434452G>A	uc003dmx.2	-	14	2048	c.2034C>T	c.(2032-2034)GCC>GCT	p.A678A	SLC25A26_uc011bft.1_Intron|LRIG1_uc011bfu.1_Silent_p.A298A|LRIG1_uc003dmw.2_Silent_p.A344A|LRIG1_uc010hnz.2_Silent_p.A394A|LRIG1_uc010hoa.2_Intron	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	678	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		AAATAGAACCGGCTGAGTTCT	0.433													33	58					0	0	0.004289	0	0		A	66434452	A	A	66434452	2	1	160	1	0	0	0	0	0	0	0	1	8962	1103	39	1		1	LRIG1	3	66434452	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2609109	66434452	131587978	232	87502											
ROBO2	6092	broad.mit.edu	37	chr3	77666706	77666706	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccattgccagtacaaacTtacttacaccaaggtctgga	13	9	6	13	0	1	0	0	0	1	0	1	1	1	1	4	2	5	1	4	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:77666706T>A	uc003dpy.3	+	22	3979	c.3336T>A	c.(3334-3336)ACT>ACA	p.T1112T	ROBO2_uc003dpz.2_Silent_p.T1116T|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.T1116T|ROBO2_uc003dqa.2_Silent_p.T239T	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1112	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CAGTACAAACTTACTTACACC	0.428													55	115					0	0	0.01441	0	0		A	77666706	A	A	77666706	2	1	160	1	0	0	0	0	0	0	0	1	13539	1596	56	5		5	ROBO2	3	77666706	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	11232254	77666706	120355724	233	87503											
MINA	84864	broad.mit.edu	37	chr3	97677936	97677936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcctgccgatcctttcctCggcctccacgctgtactctc	3	11	8	19	4	1	0	0	0	1	0	6	1	4	0	6	2	2	2	6	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:97677936C>T	uc003drz.1	-	4	1146	c.640G>A	c.(640-642)GAG>AAG	p.E214K	MINA_uc003dsa.1_Missense_Mutation_p.E214K|MINA_uc003dsb.1_Missense_Mutation_p.E214K|MINA_uc003dsc.1_Missense_Mutation_p.E214K|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_RNA	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	214	JmjC.				ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						ATCCTTTCCTCGGCCTCCACG	0.557													9	31					0	0	0.006122	0	0		T	97677936	T	T	97677936	3	4	160	1	0	0	0	0	1	0	0	0	9604	893	31	1	785	1	MINA	3	97677936	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	20011230	97677936	100344494	234	87504											
GUCA1C	9626	broad.mit.edu	37	chr3	108635037	108635037	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttcaggactcagagtttGctggccattgagggcttgta	7	14	12	8	0	3	2	2	1	1	1	3	3	3	3	1	3	1	4	1	3	1	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:108635037G>A	uc003dxj.2	-	3	447	c.379C>T	c.(379-381)CAA>TAA	p.Q127*	GUCA1C_uc003dxk.2_Nonsense_Mutation_p.Q127*	NM_005459	NP_005450	O95843	GUC1C_HUMAN	guanylate cyclase activator 1C	127					signal transduction|visual perception		calcium ion binding|calcium sensitive guanylate cyclase activator activity				0						CTCAGAGTTTGCTGGCCATTG	0.403													5	121					0	0	0.001168	0	0		A	108635037	A	A	108635037	4	1	160	1	0	0	0	0	0	1	0	0	6906	1328	46	2	258	2	GUCA1C	3	108635037	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	10957101	108635037	89387393	235	87505											
C3orf17	25871	broad.mit.edu	37	chr3	112724442	112724442	+	Missense_Mutation	SNP	A	G	G	1	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	tgtctccttaatggttcctgAtgtactgtttttatttattt	6	23	6	6	0	1	1	0	1	1	0	3	1	2	1	2	1	1	3	2	1	4	9	rs150027810		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:112724442A>G	uc003dzr.2	-	9	1706	c.1645T>C	c.(1645-1647)TCA>CCA	p.S549P	GTPBP8_uc011bhy.1_Intron|C3orf17_uc003dzq.2_Missense_Mutation_p.S174P|C3orf17_uc011bhz.1_Missense_Mutation_p.S174P|C3orf17_uc010hqh.2_Missense_Mutation_p.S174P|C3orf17_uc003dzt.2_Missense_Mutation_p.S452P|C3orf17_uc003dzs.2_Missense_Mutation_p.S413P|C3orf17_uc010hqg.2_Missense_Mutation_p.S374P|C3orf17_uc011bia.1_Missense_Mutation_p.S346P|C3orf17_uc003dzu.2_Missense_Mutation_p.S478P|C3orf17_uc011bib.1_Missense_Mutation_p.S438P|C3orf17_uc011bic.1_Missense_Mutation_p.S382P|C3orf17_uc011bid.1_RNA	NM_015412	NP_056227	Q6NW34	CC017_HUMAN	hypothetical protein LOC25871	549						integral to membrane					0						ATGGTTCCTGATGTACTGTTT	0.338													46	161					0	0	0.011902	0	0		G	112724442	G	G	112724442	3	3	160	1	0	0	0	0	1	0	0	0	2213	333	12	3	62	3	C3orf17	3	112724442	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4089405	112724442	85297988	236	87506											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													43	86	---	---	---	---						.	-	114058003	-	-	114058003	7	5	160	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	1333561	114058003	83964427	237	87507											
C3orf15	89876	broad.mit.edu	37	chr3	119434506	119434506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgattatcgggatgctgacGttcaaacagatccatactct	11	12	8	10	2	2	3	1	2	1	1	4	4	3	4	1	1	3	2	1	1	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:119434506G>A	uc003ede.3	+	6	675	c.598G>A	c.(598-600)GTT>ATT	p.V200I	C3orf15_uc003edc.2_Missense_Mutation_p.V200I|C3orf15_uc010hqy.1_Missense_Mutation_p.V200I|C3orf15_uc010hqz.2_Missense_Mutation_p.V138I|C3orf15_uc011bjd.1_Missense_Mutation_p.V74I|C3orf15_uc011bje.1_Missense_Mutation_p.V180I|C3orf15_uc010hra.1_5'UTR	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	200						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		GGATGCTGACGTTCAAACAGA	0.463													90	221					0	0	0.01441	0	0		A	119434506	A	A	119434506	3	1	160	1	0	0	0	0	1	0	0	0	2212	1145	40	1	620	1	C3orf15	3	119434506	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5376503	119434506	78587924	238	87508											
POLQ	10721	broad.mit.edu	37	chr3	121206287	121206287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaagattttggtcacttgCtacatcaattatggacaaac	15	12	7	7	0	2	1	2	0	0	1	2	3	2	2	0	2	3	1	0	2	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:121206287C>T	uc003eee.3	-	16	5620	c.5491G>A	c.(5491-5493)GCA>ACA	p.A1831T	POLQ_uc003eed.2_Missense_Mutation_p.A1003T	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1831					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TGGTCACTTGCTACATCAATT	0.393								DNA_polymerases_(catalytic_subunits)					67	200					0	0	0.01441	0	0		T	121206287	T	T	121206287	3	4	160	1	0	0	0	0	1	0	0	0	12227	797	28	2	2341	2	POLQ	3	121206287	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1771781	121206287	76816143	239	87509											
SLC15A2	6565	broad.mit.edu	37	chr3	121647836	121647836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcattttacagaaaacacCacactattccaaactgcacc	15	10	2	14	0	1	1	1	0	0	1	2	1	2	1	3	0	4	1	3	0	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:121647836C>T	uc003eep.2	+	16	1502	c.1349C>T	c.(1348-1350)CCA>CTA	p.P450L	SLC15A2_uc011bjn.1_Missense_Mutation_p.P419L	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	450					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	CAGAAAACACCACACTATTCC	0.408													71	206					0	0	0.01441	0	0		T	121647836	T	T	121647836	3	4	160	1	0	0	0	0	1	0	0	0	14424	594	21	4	1411	4	SLC15A2	3	121647836	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	441549	121647836	76374594	240	87510											
CD86	942	broad.mit.edu	37	chr3	121838326	121838326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatctgatgaagcccagcGtgtttttaaaagttcgaaga	14	11	10	6	2	1	4	0	2	1	2	2	5	1	4	1	0	2	2	1	0	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:121838326G>A	uc003eet.2	+	7	1051	c.935G>A	c.(934-936)CGT>CAT	p.R312H	CD86_uc011bjo.1_Missense_Mutation_p.R230H|CD86_uc011bjp.1_Missense_Mutation_p.R200H|CD86_uc003eeu.2_Missense_Mutation_p.R306H	NM_175862	NP_787058	P42081	CD86_HUMAN	CD86 antigen isoform 1	312	Cytoplasmic (Potential).				interspecies interaction between organisms|positive regulation of cell proliferation|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of lymphotoxin A biosynthetic process|positive regulation of T-helper 2 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation		coreceptor activity|protein binding			pancreas(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.156)	Abatacept(DB01281)	GAAGCCCAGCGTGTTTTTAAA	0.323													49	124					0	0	0.01441	0	0		A	121838326	A	A	121838326	3	1	160	1	0	0	0	0	1	0	0	0	3046	1145	40	1	961	1	CD86	3	121838326	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	190490	121838326	76184104	241	87511											
SEMA5B	54437	broad.mit.edu	37	chr3	122631702	122631702	+	Frame_Shift_Del	DEL	G	-	-																															agggttacctgggcaagcctGggggttgcagtcctggtact																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:122631702delG	uc003efz.1	-	18	3017	c.2713delC	c.(2713-2715)CAGfs	p.Q905fs	SEMA5B_uc011bju.1_Frame_Shift_Del_p.Q847fs|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Frame_Shift_Del_p.Q905fs|SEMA5B_uc003efy.1_5'Flank	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	905	Extracellular (Potential).|TSP type-1 3.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GGGCAAGCCTGGGGGTTGCAG	0.677													39	86	---	---	---	---						.	-	122631702	-	-	122631702	7	5	160	1	0	1	0	1	0	0	0	0	14063	1357	47	0	766	0	SEMA5B	3	122631702	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	793376	122631702	75390728	242	87512											
MYLK	4638	broad.mit.edu	37	chr3	123367879	123367879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttgttcagtattgattgtcaCtgtccggtaatcaacctcgg	8	15	9	9	2	3	1	3	1	0	0	5	1	4	1	2	2	1	3	2	2	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:123367879C>T	uc003ego.2	-	26	4636	c.4354G>A	c.(4354-4356)GTG>ATG	p.V1452M	MYLK_uc010hrr.2_Translation_Start_Site|MYLK_uc011bjv.1_Missense_Mutation_p.V252M|MYLK_uc011bjw.1_Missense_Mutation_p.V1452M|MYLK_uc003egp.2_Missense_Mutation_p.V1383M|MYLK_uc003egq.2_Missense_Mutation_p.V1452M|MYLK_uc003egr.2_Missense_Mutation_p.V1383M|MYLK_uc003egs.2_Missense_Mutation_p.V1276M	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1452	Actin-binding (calcium/calmodulin- insensitive) (By similarity).				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TTGATTGTCACTGTCCGGTAA	0.537													4	184					0	0	0.009096	0	0		T	123367879	T	T	123367879	3	4	160	1	0	0	0	0	1	0	0	0	10074	565	20	4	1426	4	MYLK	3	123367879	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	736177	123367879	74654551	243	87513											
KALRN	8997	broad.mit.edu	37	chr3	124437898	124437898	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tggggaaccctgagtttgctGccccagaagtcattcaaggc	9	9	12	11	0	2	2	2	1	0	1	2	3	2	3	3	3	3	2	3	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:124437898G>A	uc003ehg.2	+	60	8669	c.8542G>A	c.(8542-8544)GCC>ACC	p.A2848T	KALRN_uc003ehk.2_Missense_Mutation_p.A1151T	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2847	Protein kinase.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						TGAGTTTGCTGCCCCAGAAGT	0.557													28	55					0	0	0.00632	0	0		A	124437898	A	A	124437898	3	1	160	1	0	0	0	0	1	0	0	0	7991	1319	46	2	8936	2	KALRN	3	124437898	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1070019	124437898	73584532	244	87514											
PLXND1	23129	broad.mit.edu	37	chr3	129289882	129289882	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	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	cccggcccctttggtgctcaCgtggataacgagggtgagag	7	8	15	11	3	1	1	1	1	0	1	1	4	1	2	3	4	2	1	3	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:129289882C>T	uc003emx.2	-	18	3700	c.3600_splice	c.e18+1	p.H1200_splice		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor						axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TTGGTGCTCACGTGGATAACG	0.647													49	184					0	0	0.01441	0	0		T	129289882	T	T	129289882	5	4	160	1	0	0	0	0	0	0	1	0	12146	550	19	1	2252	1	PLXND1	3	129289882	Splice_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4851984	129289882	68732548	245	87515											
TRH	7200	broad.mit.edu	37	chr3	129694799	129694799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctggatgacttcctgcGccaggtggagcgcctcctct	4	9	14	14	2	1	1	0	1	1	0	3	3	3	3	5	4	2	0	5	4	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:129694799G>A	uc003enc.2	+	2	701	c.140G>A	c.(139-141)CGC>CAC	p.R47H		NM_007117	NP_009048	P20396	TRH_HUMAN	thyrotropin-releasing hormone	47					cell-cell signaling|hormone-mediated signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|thyrotropin-releasing hormone activity			ovary(1)	1						GACTTCCTGCGCCAGGTGGAG	0.692													10	17					0	0	0.008291	0	0		A	129694799	A	A	129694799	3	1	160	1	0	0	0	0	1	0	0	0	16504	1087	38	1	142	1	TRH	3	129694799	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	404917	129694799	68327631	246	87516											
COL6A6	131873	broad.mit.edu	37	chr3	130289947	130289947	+	Missense_Mutation	SNP	A	G	G	1	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	tgaggcactgggcttctcagAccacatgttcactgaagccc	9	9	10	13	0	2	3	2	2	1	1	3	3	2	3	2	2	1	3	2	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:130289947A>G	uc010htl.2	+	6	2718	c.2687A>G	c.(2686-2688)GAC>GGC	p.D896G		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	896	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GGCTTCTCAGACCACATGTTC	0.532													10	27					0	0	0.008291	0	0		G	130289947	G	G	130289947	3	3	160	1	0	0	0	0	1	0	0	0	3706	275	10	3	2709	3	COL6A6	3	130289947	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	595148	130289947	67732483	247	87517											
PIK3R4	30849	broad.mit.edu	37	chr3	130398201	130398201	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatctctagaagcagttacGatgaagccctgtgtggtctg	9	11	11	10	1	2	2	0	1	2	1	3	3	2	2	2	1	3	2	2	1	4	2	rs140271304		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:130398201G>A	uc003enj.2	-	20	4616	c.4035C>T	c.(4033-4035)ATC>ATT	p.I1345I		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	1345	WD 7.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						AAGCAGTTACGATGAAGCCCT	0.423													30	68					0	0	0.007291	0	0		A	130398201	A	A	130398201	2	1	160	1	0	0	0	0	0	0	0	1	11940	1048	37	1		1	PIK3R4	3	130398201	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	108254	130398201	67624229	248	87518											
C3orf36	80111	broad.mit.edu	37	chr3	133647384	133647384	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggtggagtgtgctgggagcaCgcgggaggactgcgcctctg	5	7	20	9	3	1	0	0	0	1	0	1	4	1	4	1	5	3	2	1	5	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:133647384C>T	uc003epz.1	-	1	1273	c.264G>A	c.(262-264)GCG>GCA	p.A88A		NM_025041	NP_079317	Q3SXR2	CC036_HUMAN	hypothetical protein LOC80111	88										ovary(1)	1						GCTGGGAGCACGCGGGAGGAC	0.677													4	16					0	0	0.009096	0	0		T	133647384	T	T	133647384	2	4	160	1	0	0	0	0	0	0	0	1	2229	523	19	1		1	C3orf36	3	133647384	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3249183	133647384	64375046	249	87519											
EPHB1	2047	broad.mit.edu	37	chr3	134880926	134880926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaaggattgatgggctgCggcctggcatggtatatgtg	8	10	16	7	1	0	1	0	1	0	0	0	2	0	2	1	5	2	4	1	5	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:134880926C>T	uc003eqt.2	+	7	1709	c.1489C>T	c.(1489-1491)CGG>TGG	p.R497W	EPHB1_uc003equ.2_Missense_Mutation_p.R58W	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	497	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TGATGGGCTGCGGCCTGGCAT	0.527													35	85					0	0	0.013726	0	0		T	134880926	T	T	134880926	3	4	160	1	0	0	0	0	1	0	0	0	5182	759	27	1	1515	1	EPHB1	3	134880926	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1233542	134880926	63141504	250	87520											
EPHB1	2047	broad.mit.edu	37	chr3	134968296	134968296	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagcttcctcactgctggcTtcacctccctccagctggtc	5	11	7	18	0	2	0	2	0	0	0	6	0	5	0	4	2	3	4	4	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:134968296T>C	uc003eqt.2	+	15	3029	c.2809T>C	c.(2809-2811)TTC>CTC	p.F937L	EPHB1_uc003equ.2_Missense_Mutation_p.F498L	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	937	Cytoplasmic (Potential).|SAM.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CACTGCTGGCTTCACCTCCCT	0.557													29	105					0	0	0.007291	0	0		C	134968296	C	C	134968296	3	2	160	1	0	0	0	0	1	0	0	0	5182	1609	56	3	2867	3	EPHB1	3	134968296	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	87370	134968296	63054134	251	87521											
MSL2	55167	broad.mit.edu	37	chr3	135870677	135870677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gaagtggctgaactttctcaCtgtcactctctgatctggat	8	14	9	10	0	4	2	2	2	3	0	6	4	4	3	0	2	1	1	0	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:135870677C>T	uc003eqx.1	-	2	1779	c.1046G>A	c.(1045-1047)AGT>AAT	p.S349N	MSL2_uc011bmb.1_Missense_Mutation_p.S275N	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	349					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						AACTTTCTCACTGTCACTCTC	0.453													28	112					0	0	0.005443	0	0		T	135870677	T	T	135870677	3	4	160	1	0	0	0	0	1	0	0	0	9896	565	20	4	691	4	MSL2	3	135870677	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	902381	135870677	62151753	252	87522											
TMEM22	80723	broad.mit.edu	37	chr3	136574264	136574264	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggagaaacctggagttatcTcattgctatatgtgtctgtt	9	16	10	6	0	2	1	1	0	2	1	3	3	2	2	1	2	2	3	1	2	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:136574264T>G	uc003erf.3	+	2	1176	c.962T>G	c.(961-963)CTC>CGC	p.L321R	TMEM22_uc003erg.3_Missense_Mutation_p.L321R|TMEM22_uc010hub.2_Missense_Mutation_p.L321R	NM_001097600	NP_001091069	Q8TBE7	TMM22_HUMAN	transmembrane protein 22	321	DUF6 2.|Helical; (Potential).					Golgi apparatus|integral to membrane				ovary(1)	1						TGGAGTTATCTCATTGCTATA	0.393													17	682					0	0	0.00499	0	0		G	136574264	G	G	136574264	3	3	160	1	0	0	0	0	1	0	0	0	16168	1551	54	5	964	5	TMEM22	3	136574264	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	703587	136574264	61448166	253	87523											
FOXL2	668	broad.mit.edu	37	chr3	138665150	138665150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgccggtagttgcccttctCgaacatgtcttcgcaggccg	5	10	12	14	5	2	0	0	0	2	0	4	1	2	0	3	2	2	3	3	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:138665150C>T	uc003esw.2	-	1	833	c.415G>A	c.(415-417)GAG>AAG	p.E139K	uc003esv.1_5'Flank|C3orf72_uc003esx.1_5'Flank|C3orf72_uc011bmr.1_5'Flank	NM_023067	NP_075555	P58012	FOXL2_HUMAN	forkhead box L2	139	Fork-head.				convergent extension|DNA fragmentation involved in apoptotic nuclear change|embryonic eye morphogenesis|extraocular skeletal muscle development|female somatic sex determination|induction of apoptosis|menstruation|negative regulation of transcription, DNA-dependent|ovarian follicle development|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin conjugating enzyme binding			ovary(266)|large_intestine(1)|skin(1)	268						TTGCCCTTCTCGAACATGTCT	0.642			Mis		granulosa-cell tumour of the ovary		Blepharophimosis|ptosis and epicanthus inversus Types I|II; Premature ovarian failure type III						8	8					0	0	0.004482	0	0		T	138665150	T	T	138665150	3	4	160	1	0	0	0	0	1	0	0	0	6031	893	31	1	719	1	FOXL2	3	138665150	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2090886	138665150	59357280	254	87524											
RBP2	5948	broad.mit.edu	37	chr3	139173610	139173610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatccactgcttccagccGcggttctccttctccccctt	4	13	5	19	2	3	0	1	0	2	0	7	0	5	0	6	1	2	2	6	1	1	4	rs141722744		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:139173610G>A	uc003eth.2	-	3	366	c.315C>T	c.(313-315)CGC>CGT	p.R105R		NM_004164	NP_004155	P50120	RET2_HUMAN	retinol binding protein 2, cellular	105					epidermis development|retinoid metabolic process|steroid metabolic process|vitamin A metabolic process	cytosol	retinal binding|retinol binding|transporter activity			skin(1)	1					Vitamin A(DB00162)	GCTTCCAGCCGCGGTTCTCCT	0.527													57	141					0	0	0.01441	0	0		A	139173610	A	A	139173610	2	1	160	1	0	0	0	0	0	0	0	1	13181	1074	38	1		1	RBP2	3	139173610	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	508460	139173610	58848820	255	87525											
GRK7	131890	broad.mit.edu	37	chr3	141499527	141499527	+	Silent	SNP	T	C	C	0	1	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	tgtgggatgctgcacctccaTgaactcggcatcgtctatcg	7	11	11	12	3	1	1	0	1	1	0	5	2	2	2	2	2	3	3	2	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:141499527T>C	uc011bnd.1	+	2	1008	c.924T>C	c.(922-924)CAT>CAC	p.H308H		NM_139209	NP_631948	Q8WTQ7	GRK7_HUMAN	G-protein-coupled receptor kinase 7 precursor	308	Protein kinase.				visual perception	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(2)|stomach(1)|ovary(1)|skin(1)	5						TGCACCTCCATGAACTCGGCA	0.567													20	51					0	0	0.008871	0	0		C	141499527	C	C	141499527	2	2	160	1	0	0	0	0	0	0	0	1	6810	1461	51	3		3	GRK7	3	141499527	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2325917	141499527	56522903	256	87526											
CHST2	9435	broad.mit.edu	37	chr3	142840569	142840569	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaccgcacactagtcataaAgggtgtgcgcgtcttcgacg	9	9	12	11	5	2	0	1	0	1	0	3	1	2	0	1	1	2	2	1	1	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:142840569A>G	uc003evm.2	+	2	1800	c.911A>G	c.(910-912)AAG>AGG	p.K304R		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	304	Lumenal (Potential).			K->A: Loss of function.	inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						CTAGTCATAAAGGGTGTGCGC	0.657													3	7					0	0	0.000602	0	0		G	142840569	G	G	142840569	3	3	160	1	0	0	0	0	1	0	0	0	3407	72	3	3	913	3	CHST2	3	142840569	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1341042	142840569	55181861	257	87527											
RNF13	11342	broad.mit.edu	37	chr3	149678725	149678725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtcatttggggctttatCggaatcccgctcacatcaga	9	11	9	12	2	3	1	3	0	0	1	5	2	4	2	2	3	0	2	2	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:149678725C>T	uc003exn.3	+	11	1764	c.980C>T	c.(979-981)TCG>TTG	p.S327L	RNF13_uc003exp.3_Missense_Mutation_p.S327L|RNF13_uc010hvh.2_Missense_Mutation_p.S208L	NM_007282	NP_009213	O43567	RNF13_HUMAN	ring finger protein 13	327	Cytoplasmic (Potential).				protein autoubiquitination	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane|nuclear inner membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		all_neural(597;0.0138)|Myeloproliferative disorder(1037;0.0255)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GGGGCTTTATCGGAATCCCGC	0.413													41	79					0	0	0.00874	0	0		T	149678725	T	T	149678725	3	4	160	1	0	0	0	0	1	0	0	0	13462	893	31	1	1014	1	RNF13	3	149678725	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	6838156	149678725	48343705	258	87528											
P2RY12	64805	broad.mit.edu	37	chr3	151056359	151056359	+	Missense_Mutation	SNP	A	G	G	1	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	cttgacacacaaaagttctcAgtggtcctgttcccagtttg	9	13	8	11	0	1	1	1	1	1	0	4	1	3	1	2	1	0	3	2	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:151056359A>G	uc003eyw.1	-	2	491	c.275T>C	c.(274-276)CTG>CCG	p.L92P	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron|P2RY12_uc011boa.1_Missense_Mutation_p.L92P|P2RY12_uc003eyx.1_Missense_Mutation_p.L92P	NM_176876	NP_795345	Q9H244	P2Y12_HUMAN	purinergic receptor P2Y12	92	Extracellular (Potential).				platelet activation	integral to membrane|plasma membrane	guanyl-nucleotide exchange factor activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)		Clopidogrel(DB00758)|Epoprostenol(DB01240)|Ticlopidine(DB00208)|Treprostinil(DB00374)	AAAAGTTCTCAGTGGTCCTGT	0.353													51	123					0	0	0.01441	0	0		G	151056359	G	G	151056359	3	3	160	1	0	0	0	0	1	0	0	0	11368	188	7	3	757	3	P2RY12	3	151056359	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1377634	151056359	46966071	259	87529											
MED12L	116931	broad.mit.edu	37	chr3	151072930	151072930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tggggacgaaggacaaaaagCcaggaagaacaaacaggaga	20	1	14	6	1	0	2	0	0	0	2	0	7	0	5	1	5	3	0	1	5	6	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:151072930C>T	uc003eyp.2	+	16	2353	c.2315C>T	c.(2314-2316)GCC>GTC	p.A772V	MED12L_uc011bnz.1_Missense_Mutation_p.A632V|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_5'Flank	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	772					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGACAAAAAGCCAGGAAGAAC	0.343													44	90					0	0	0.009718	0	0		T	151072930	T	T	151072930	3	4	160	1	0	0	0	0	1	0	0	0	9447	739	26	2	2377	2	MED12L	3	151072930	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	16571	151072930	46949500	260	87530											
P2RY1	5028	broad.mit.edu	37	chr3	152553984	152553984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatgtgaacctctatggcaGcatcttgtttctgacatgca	9	14	8	10	0	4	2	1	2	3	0	4	2	4	2	1	1	3	4	1	1	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:152553984G>A	uc003ezq.2	+	1	1249	c.413G>A	c.(412-414)AGC>AAC	p.S138N		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	138	Helical; Name=3; (Potential).			Missing (in Ref. 1; CAA89066).	activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			CTCTATGGCAGCATCTTGTTT	0.498													42	105					0	0	0.011902	0	0		A	152553984	A	A	152553984	3	1	160	1	0	0	0	0	1	0	0	0	11365	971	34	2	415	2	P2RY1	3	152553984	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1481054	152553984	45468446	261	87531											
CCNL1	57018	broad.mit.edu	37	chr3	156867298	156867298	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtaagggcttttggaagccTgttgtctatcctcaggttct	6	16	11	8	0	3	0	1	0	2	0	4	1	4	1	2	3	1	4	2	3	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:156867298T>C	uc003fbf.2	-	9	1708	c.1109A>G	c.(1108-1110)CAG>CGG	p.Q370R	CCNL1_uc003fbd.1_Missense_Mutation_p.Q370R|CCNL1_uc003fbe.2_Missense_Mutation_p.Q164R|CCNL1_uc003fbg.2_RNA|CCNL1_uc011bor.1_RNA|CCNL1_uc003fbi.1_Missense_Mutation_p.Q215R	NM_020307	NP_064703	Q9UK58	CCNL1_HUMAN	cyclin L1	370					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			lung(3)|breast(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(72;0.0295)|Lung(72;0.0308)			TTTGGAAGCCTGTTGTCTATC	0.368													15	257					0	0	0.003163	0	0		C	156867298	C	C	156867298	3	2	160	1	0	0	0	0	1	0	0	0	2934	1580	55	3	483	3	CCNL1	3	156867298	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	4313314	156867298	41155132	262	87532											
SMC4	10051	broad.mit.edu	37	chr3	160119879	160119879	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattctgggacctttccatAaggtatttgtatggaaataa	14	14	8	5	0	1	0	0	0	1	0	2	2	2	2	2	3	0	2	2	3	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:160119879A>G	uc003fdh.2	+	3	429	c.316A>G	c.(316-318)AAG>GAG	p.K106E	IFT80_uc003fda.2_Intron|IFT80_uc011boy.1_5'Flank|IFT80_uc003fdd.1_5'Flank|IFT80_uc003fde.1_5'Flank|SMC4_uc003fdf.1_RNA|SMC4_uc003fdg.1_Missense_Mutation_p.K106E|SMC4_uc010hwc.1_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.K81E|SMC4_uc003fdj.2_Missense_Mutation_p.K106E|SMC4_uc010hwd.2_Missense_Mutation_p.K106E|uc011boz.1_5'Flank|MIR15B_hsa-mir-15b|MI0000438_5'Flank|uc003fdk.2_5'Flank|MIR16-2_hsa-mir-16-2|MI0000115_5'Flank	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	106					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ACCTTTCCATAAGGTATTTGT	0.318													5	68					0	0	0.000602	0	0		G	160119879	G	G	160119879	3	3	160	1	0	0	0	0	1	0	0	0	14810	363	13	3	322	3	SMC4	3	160119879	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3252581	160119879	37902551	263	87533											
SMC4	10051	broad.mit.edu	37	chr3	160142781	160142781	+	Silent	SNP	C	T	T	0	0	0	1	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	aacgagaaatgaggaacacaCtagaaaaatttactgcaagc	20	6	8	7	1	0	3	0	1	0	2	0	5	0	4	0	1	5	1	0	1	8	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:160142781C>T	uc003fdh.2	+	16	2565	c.2452C>T	c.(2452-2454)CTA>TTA	p.L818L	IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Silent_p.L582L|SMC4_uc003fdi.2_Silent_p.L793L|SMC4_uc003fdj.2_Silent_p.L818L|SMC4_uc010hwd.2_Silent_p.L818L|SMC4_uc003fdl.2_Silent_p.L521L	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	818	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GAGGAACACACTAGAAAAATT	0.299													14	32					0	0	0.003163	0	0		T	160142781	T	T	160142781	2	4	160	1	0	0	0	0	0	0	0	1	14810	564	20	4		4	SMC4	3	160142781	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	22902	160142781	37879649	264	87534											
SI	6476	broad.mit.edu	37	chr3	164754250	164754250	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctaatgcgactataagtccTagaggattcttacggctgtt	10	13	9	9	2	1	1	0	0	1	1	2	3	2	2	2	2	2	2	2	2	5	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:164754250T>C	uc003fei.2	-	22	2504	c.2442A>G	c.(2440-2442)CTA>CTG	p.L814L		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	814	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CTATAAGTCCTAGAGGATTCT	0.338										HNSCC(35;0.089)			53	110					0	0	0.01441	0	0		C	164754250	C	C	164754250	2	2	160	1	0	0	0	0	0	0	0	1	14322	1509	53	3		3	SI	3	164754250	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	4611469	164754250	33268180	265	87535											
SI	6476	broad.mit.edu	37	chr3	164780247	164780247	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtaactctatatgttactAttggagtaggctggataaaa	13	13	10	5	1	1	0	0	0	1	0	1	2	1	2	0	4	2	4	0	4	8	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:164780247A>G	uc003fei.2	-	9	994	c.932T>C	c.(931-933)ATA>ACA	p.I311T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	311	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	ATATGTTACTATTGGAGTAGG	0.328										HNSCC(35;0.089)			4	161					0	0	0.000602	0	0		G	164780247	G	G	164780247	3	3	160	1	0	0	0	0	1	0	0	0	14322	449	16	3	4711	3	SI	3	164780247	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	25997	164780247	33242183	266	87536											
SI	6476	broad.mit.edu	37	chr3	164786978	164786978	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagcctctctgtgcacaAattccctgataaaatatttt	12	13	5	11	0	1	1	0	1	1	0	3	1	2	1	2	0	3	2	2	0	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:164786978A>G	uc003fei.2	-	4	323	c.261T>C	c.(259-261)ATT>ATC	p.I87I		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	87	Lumenal.|P-type 1.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TCTGTGCACAAATTCCCTGAT	0.348										HNSCC(35;0.089)			10	37					0	0	0.010504	0	0		G	164786978	G	G	164786978	2	3	160	1	0	0	0	0	0	0	0	1	14322	10	1	3		3	SI	3	164786978	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	6731	164786978	33235452	267	87537											
BCHE	590	broad.mit.edu	37	chr3	165548072	165548072	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattaaaggatccactttgCagaatggctctggtgaacaa	13	10	10	8	0	1	2	0	1	1	1	2	3	2	3	1	3	2	3	1	3	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:165548072C>A	uc003fem.3	-	2	910	c.750G>T	c.(748-750)CTG>CTT	p.L250L	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	250					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	ATCCACTTTGCAGAATGGCTC	0.438													44	129					7.63091e-17	8.34891e-17	0.007835	1	0		A	165548072	A	A	165548072	2	1	160	1	0	0	0	0	0	0	0	1	1359	697	25	5		5	BCHE	3	165548072	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	761094	165548072	32474358	268	87538											
SLC7A14	57709	broad.mit.edu	37	chr3	170218995	170218995	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagagcactggctccggcCgcagtgccaatcaggtactc	8	7	11	15	2	2	1	2	0	0	1	4	1	3	1	3	3	3	4	3	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:170218995C>T	uc003fgz.2	-	3	760	c.444G>A	c.(442-444)GCG>GCA	p.A148A	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	148						integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TGGCTCCGGCCGCAGTGCCAA	0.562													27	40					0	0	0.004656	0	0		T	170218995	T	T	170218995	2	4	160	1	0	0	0	0	0	0	0	1	14721	639	23	1		1	SLC7A14	3	170218995	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4670923	170218995	27803435	269	87539											
FNDC3B	64778	broad.mit.edu	37	chr3	172013305	172013305	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaatacaagataatttacagGttgtgtatgtttctattgtt	13	18	7	3	0	1	1	0	0	1	1	1	1	1	1	0	1	2	4	0	1	7	10			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:172013305G>A	uc003fhy.2	+	8	1173	c.1001_splice	c.e8+1	p.S334_splice	FNDC3B_uc003fhz.3_Splice_Site_p.S334_splice|FNDC3B_uc003fia.2_Splice_Site_p.S265_splice	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B							endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	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)		TAATTTACAGGTTGTGTATGT	0.393													43	132					0	0	0.009718	0	0		A	172013305	A	A	172013305	5	1	160	1	0	0	0	0	0	0	1	0	5984	1275	44	4	1028	4	FNDC3B	3	172013305	Splice_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1794310	172013305	26009125	270	87540											
PIK3CA	5290	broad.mit.edu	37	chr3	178927980	178927980	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttgttttttaaggaacacTgtccattggcatggggaaat	10	15	10	6	0	0	0	0	0	0	0	1	2	1	2	1	4	1	2	1	4	3	5	rs121913272		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:178927980T>C	uc003fjk.2	+	8	1415	c.1258T>C	c.(1258-1260)TGT>CGT	p.C420R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	420	C2 PI3K-type.		C -> R (in cancer; shows an increase in lipid kinase activity; may increase the affinity for lipid membranes).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.C420R(26)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TAAGGAACACTGTCCATTGGC	0.328	C420R(EFM192A_BREAST)|C420R(OVISE_OVARY)|C420R(HEC151_ENDOMETRIUM)|C420R(CCK81_LARGE_INTESTINE)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			51	128					0	0	0.01441	0	0		C	178927980	C	C	178927980	3	2	160	1	0	0	0	0	1	0	0	0	11932	1580	55	3	1284	3	PIK3CA	3	178927980	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	6914675	178927980	19094450	271	87541											
CCDC39	339829	broad.mit.edu	37	chr3	180337133	180337133	+	Frame_Shift_Del	DEL	T	-	-																															tttttgttcttctagttgaaTttttagctcatactcatcac																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:180337133delT	uc010hxe.2	-	16	2294	c.2179delA	c.(2179-2181)ATTfs	p.I727fs	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	727	Potential.				axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium axoneme|cytoplasm|cytoskeleton				ovary(4)	4	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			TCTAGTTGAATTTTTAGCTCA	0.289													4	6	---	---	---	---						.	-	180337133	-	-	180337133	7	5	160	1	0	1	0	1	0	0	0	0	2814	1493	52	0	666	0	CCDC39	3	180337133	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	1409153	180337133	17685297	272	87542											
MCF2L2	23101	broad.mit.edu	37	chr3	183097179	183097179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggaacgtgatgatgggggCgccatcctcccctcggcctc	5	8	14	14	3	0	2	0	2	0	0	4	3	2	3	5	4	1	0	5	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:183097179C>T	uc003fli.1	-	3	271	c.181G>A	c.(181-183)GCC>ACC	p.A61T	MCF2L2_uc003flj.1_Missense_Mutation_p.A61T|MCF2L2_uc003flp.1_Missense_Mutation_p.A96T	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	61	CRAL-TRIO.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			ATGATGGGGGCGCCATCCTCC	0.512													16	35					0	0	0.004007	0	0		T	183097179	T	T	183097179	3	4	160	1	0	0	0	0	1	0	0	0	9398	768	27	1	3275	1	MCF2L2	3	183097179	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2760046	183097179	14925251	273	87543											
DVL3	1857	broad.mit.edu	37	chr3	183882993	183882993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtttctcggattgagcGggtatggggtctgggaggct	6	11	19	5	2	2	1	0	1	2	0	3	4	2	3	0	7	1	3	0	7	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:183882993G>A	uc003fms.2	+	6	832	c.692G>A	c.(691-693)CGG>CAG	p.R231Q	DVL3_uc011bqw.1_Missense_Mutation_p.R231Q|DVL3_uc003fmt.2_5'UTR|DVL3_uc003fmu.2_Missense_Mutation_p.R63Q	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	231					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CGGATTGAGCGGGTATGGGGT	0.597													18	26					0	0	0.00499	0	0		A	183882993	A	A	183882993	3	1	160	1	0	0	0	0	1	0	0	0	4843	1130	39	1	714	1	DVL3	3	183882993	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	785814	183882993	14139437	274	87544											
EIF4G1	1981	broad.mit.edu	37	chr3	184043121	184043121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaaagaagacgtcatcccGcatccgctttatgctgcagg	12	8	10	11	3	1	3	1	0	0	3	3	3	3	3	2	1	2	4	2	1	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:184043121G>A	uc003fnp.2	+	19	3119	c.2921G>A	c.(2920-2922)CGC>CAC	p.R974H	EIF4G1_uc003fno.1_Missense_Mutation_p.R915H|EIF4G1_uc010hxw.1_Missense_Mutation_p.R810H|EIF4G1_uc003fnt.2_Missense_Mutation_p.R685H|EIF4G1_uc003fnq.2_Missense_Mutation_p.R887H|EIF4G1_uc003fnr.2_Missense_Mutation_p.R810H|EIF4G1_uc010hxx.2_Missense_Mutation_p.R981H|EIF4G1_uc003fns.2_Missense_Mutation_p.R934H|EIF4G1_uc010hxy.2_Missense_Mutation_p.R981H|EIF4G1_uc003fnv.3_Missense_Mutation_p.R975H|EIF4G1_uc003fnu.3_Missense_Mutation_p.R974H|EIF4G1_uc003fnw.2_Missense_Mutation_p.R981H|EIF4G1_uc003fnx.2_Missense_Mutation_p.R779H|EIF4G1_uc003fny.3_Missense_Mutation_p.R778H|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	974	eIF3/EIF4A-binding.			R->A: Abolishes binding to EIF4A; when associated with A-976.	insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACGTCATCCCGCATCCGCTTT	0.527													4	198					0	0	0.009096	0	0		A	184043121	A	A	184043121	3	1	160	1	0	0	0	0	1	0	0	0	5044	1087	38	1	2987	1	EIF4G1	3	184043121	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	160128	184043121	13979309	275	87545											
VPS8	23355	broad.mit.edu	37	chr3	184570321	184570321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caactcttgcaatttgcaacGacagcggaggctctgttttt	9	13	9	10	2	2	0	0	0	2	0	2	2	2	1	0	2	5	4	0	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:184570321G>A	uc003fpb.1	+	10	952	c.781G>A	c.(781-783)GAC>AAC	p.D261N	VPS8_uc010hyd.1_Missense_Mutation_p.D261N	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	263							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			AATTTGCAACGACAGCGGAGG	0.318													29	93					0	0	0.013726	0	0		A	184570321	A	A	184570321	3	1	160	1	0	0	0	0	1	0	0	0	17244	1058	37	1	821	1	VPS8	3	184570321	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	527200	184570321	13452109	276	87546											
FETUB	26998	broad.mit.edu	37	chr3	186364098	186364098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaatcaccatgtactaaatCccaggccagcagctgttcac	13	8	7	13	0	2	1	2	0	0	1	3	1	3	1	3	1	3	4	3	1	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:186364098C>T	uc010hyq.2	+	6	917	c.656C>T	c.(655-657)TCC>TTC	p.S219F	FETUB_uc011brz.1_Missense_Mutation_p.S71F|FETUB_uc003fqn.2_Missense_Mutation_p.S219F|FETUB_uc003fqo.2_Missense_Mutation_p.S114F|FETUB_uc010hyr.2_Missense_Mutation_p.S182F|FETUB_uc010hys.2_Missense_Mutation_p.S71F|FETUB_uc003fqp.3_Missense_Mutation_p.S154F	NM_014375	NP_055190	Q9UGM5	FETUB_HUMAN	fetuin B precursor	219	Cystatin fetuin-B-type 2.					extracellular space	cysteine-type endopeptidase inhibitor activity			ovary(1)|lung(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0479)		TGTACTAAATCCCAGGCCAGC	0.403													6	280					0	0	0.001168	0	0		T	186364098	T	T	186364098	3	4	160	1	0	0	0	0	1	0	0	0	5835	855	30	4	674	4	FETUB	3	186364098	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1793777	186364098	11658332	277	87547											
ATP13A4	84239	broad.mit.edu	37	chr3	193153486	193153486	+	Missense_Mutation	SNP	A	G	G	1	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	gaatcatgctgtacagagccAtgtacttaaacatgcaaaag	16	9	8	8	0	1	1	1	0	0	1	1	2	1	1	1	0	6	4	1	0	7	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:193153486A>G	uc003ftd.2	-	24	2828	c.2720T>C	c.(2719-2721)ATG>ACG	p.M907T	ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	907	Helical; (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		GTACAGAGCCATGTACTTAAA	0.413													10	174					0	0	0.006214	0	0		G	193153486	G	G	193153486	3	3	160	1	0	0	0	0	1	0	0	0	1127	217	8	3	898	3	ATP13A4	3	193153486	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	6789388	193153486	4868944	278	87548											
LRRC15	131578	broad.mit.edu	37	chr3	194080146	194080146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacaatgccaattacaatggCggcaatggccagcccgctct	11	7	10	13	2	1	0	0	0	1	0	1	1	1	0	3	3	3	2	3	3	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:194080146C>T	uc003ftu.2	-	2	1713	c.1627G>A	c.(1627-1629)GCC>ACC	p.A543T	LRRC15_uc003ftt.2_Missense_Mutation_p.A549T	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	543	Helical; (Potential).					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		ATTACAATGGCGGCAATGGCC	0.592													28	56					0	0	0.010818	0	0		T	194080146	T	T	194080146	3	4	160	1	0	0	0	0	1	0	0	0	8988	768	27	1	122	1	LRRC15	3	194080146	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	926660	194080146	3942284	279	87549											
ATP13A3	79572	broad.mit.edu	37	chr3	194147932	194147932	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccccagatataagaccCgaaggtggtctttgtgccac	10	8	12	11	1	1	2	0	0	1	2	1	3	1	2	4	3	1	0	4	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:194147932C>T	uc003fty.3	-	28	3399	c.2997G>A	c.(2995-2997)TCG>TCA	p.S999S	ATP13A3_uc003ftx.3_5'Flank	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	999					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ATATAAGACCCGAAGGTGGTC	0.383													22	68					0	0	0.012319	0	0		T	194147932	T	T	194147932	2	4	160	1	0	0	0	0	0	0	0	1	1126	639	23	1		1	ATP13A3	3	194147932	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	67786	194147932	3874498	280	87550											
C3orf21	152002	broad.mit.edu	37	chr3	194947467	194947467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatctgatgcatggcgaccGagaggaagaagatggagtca	13	7	15	6	2	2	5	1	2	1	3	2	9	2	7	1	3	1	1	1	3	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:194947467G>A	uc003fum.3	-	2	731	c.623C>T	c.(622-624)TCG>TTG	p.S208L	C3orf21_uc011bsw.1_Missense_Mutation_p.S62L	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	208						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		CATGGCGACCGAGAGGAAGAA	0.542													16	51					0	0	0.004007	0	0		A	194947467	A	A	194947467	3	1	160	1	0	0	0	0	1	0	0	0	2217	1059	37	1	570	1	C3orf21	3	194947467	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	799535	194947467	3074963	281	87551											
MFI2	4241	broad.mit.edu	37	chr3	196748318	196748318	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcttcacaaaagccacGtcccctgccccttccgccag	7	8	7	19	2	1	0	1	0	0	0	3	0	3	0	7	0	3	1	7	0	2	2	rs148913417	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr3:196748318G>A	uc003fxk.3	-	6	782	c.669C>T	c.(667-669)GAC>GAT	p.D223D	MFI2_uc003fxl.3_Silent_p.D223D|MFI2_uc011bua.1_Missense_Mutation_p.T196M	NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	223	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		CAAAAGCCACGTCCCCTGCCC	0.672													10	35					0	0	0.010729	0	0		A	196748318	A	A	196748318	2	1	160	1	0	0	0	0	0	0	0	1	9540	1136	40	1		1	MFI2	3	196748318	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1800851	196748318	1274112	282	87552											
TMEM175	84286	broad.mit.edu	37	chr4	941568	941568	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcaggcactggatacacCgggggactgccccccaggca	10	3	14	14	1	0	1	0	0	0	1	0	3	0	3	4	5	3	3	4	5	1	1	rs148512239	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:941568C>A	uc003gbq.2	+	2	139	c.41C>A	c.(40-42)CCG>CAG	p.P14Q	TMEM175_uc010ibl.1_Missense_Mutation_p.P14Q|TMEM175_uc003gbp.1_5'UTR|TMEM175_uc003gbr.2_5'UTR|TMEM175_uc003gbu.2_Intron|TMEM175_uc003gbs.2_5'UTR|TMEM175_uc003gbt.2_5'UTR|TMEM175_uc003gbv.2_Intron	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	14						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CTGGATACACCGGGGGACTGC	0.672													8	23					0.000442599	0.000456218	0.006214	1	0		A	941568	A	A	941568	3	1	160	1	0	0	0	0	1	0	0	0	16116	652	23	5	43	5	TMEM175	4	941568	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		941568	190212708	283	87553											
RNF212	285498	broad.mit.edu	37	chr4	1066733	1066733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcgggtgttctgaacgtgtCcagggtgccctcagcctgct	5	10	14	12	2	2	1	1	1	1	0	3	1	3	1	3	2	5	2	3	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:1066733C>T	uc003gcj.2	-	10	1153	c.823G>A	c.(823-825)GAC>AAC	p.D275N	RNF212_uc003gch.2_Intron|RNF212_uc003gci.2_3'UTR|RNF212_uc010ibp.2_RNA|RNF212_uc010ibq.2_3'UTR	NM_001131034	NP_001124506	Q495C1	RN212_HUMAN	ring finger protein 212 isoform a	275							zinc ion binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0179)	UCEC - Uterine corpus endometrioid carcinoma (64;0.151)		CTGAACGTGTCCAGGGTGCCC	0.363											OREG0016028	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	52					0	0	0.00278	0	0		T	1066733	T	T	1066733	3	4	160	1	0	0	0	0	1	0	0	0	13501	855	30	4	74	4	RNF212	4	1066733	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	125165	1066733	190087543	284	87554											
WHSC1	7468	broad.mit.edu	37	chr4	1906092	1906092	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatccactccttcacagctaTaccaaacttaaaggtattgt	13	12	5	11	0	1	0	1	0	0	0	3	1	3	0	3	1	3	2	3	1	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:1906092T>C	uc003gdz.3	+	3	923	c.747T>C	c.(745-747)TAT>TAC	p.Y249Y	WHSC1_uc003geb.3_Silent_p.Y249Y|WHSC1_uc003gec.3_Silent_p.Y249Y|WHSC1_uc003ged.3_Silent_p.Y249Y|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdx.2_Silent_p.Y249Y|WHSC1_uc003gdy.1_Silent_p.Y249Y|WHSC1_uc010icd.1_Silent_p.Y249Y|WHSC1_uc003gea.1_Silent_p.Y249Y|WHSC1_uc010ice.1_Silent_p.Y249Y|WHSC1_uc003geg.1_Silent_p.Y249Y|WHSC1_uc003geh.1_Silent_p.Y249Y	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	249	PWWP 1.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		TTCACAGCTATACCAAACTTA	0.418			T	IGH@	MM								46	121					0	0	0.01441	0	0		C	1906092	C	C	1906092	2	2	160	1	0	0	0	0	0	0	0	1	17388	1413	49	3		3	WHSC1	4	1906092	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	839359	1906092	189248184	285	87555											
ZFYVE28	57732	broad.mit.edu	37	chr4	2306773	2306773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccctttctcctgggggtCggcccaggtactgcctgccc	2	10	12	17	1	1	0	0	0	1	0	3	0	1	0	5	4	4	1	5	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:2306773C>T	uc003gex.1	-	8	1613	c.1294G>A	c.(1294-1296)GAC>AAC	p.D432N	ZFYVE28_uc011bvk.1_Missense_Mutation_p.D362N|ZFYVE28_uc011bvl.1_Missense_Mutation_p.D402N|ZFYVE28_uc003gew.1_Missense_Mutation_p.D318N	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	432					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						TCCTGGGGGTCGGCCCAGGTA	0.667													19	39					0	0	0.003954	0	0		T	2306773	T	T	2306773	3	4	160	1	0	0	0	0	1	0	0	0	17695	884	31	1	1393	1	ZFYVE28	4	2306773	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	400681	2306773	188847503	286	87556											
STK32B	55351	broad.mit.edu	37	chr4	5399935	5399935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctttgttttcttttacagaGacatcaagccagacaatatc	12	15	5	9	0	3	2	1	0	2	2	4	3	3	2	1	0	2	1	1	0	4	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:5399935G>A	uc003gih.1	+	5	500	c.436G>A	c.(436-438)GAC>AAC	p.D146N	STK32B_uc010ida.1_Missense_Mutation_p.D99N	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	146	Protein kinase.	Proton acceptor (By similarity).					ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CTTTTACAGAGACATCAAGCC	0.473													8	232					0	0	0.00308	0	0		A	5399935	A	A	5399935	3	1	160	1	0	0	0	0	1	0	0	0	15323	956	33	4	454	4	STK32B	4	5399935	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3093162	5399935	185754341	287	87557											
WFS1	7466	broad.mit.edu	37	chr4	6302928	6302928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcaccgccggcctgctatCgctgctgccctccatgccct	3	9	10	19	3	1	0	1	0	0	0	3	0	2	0	6	2	4	3	6	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:6302928C>T	uc003giy.2	+	8	1572	c.1406C>T	c.(1405-1407)TCG>TTG	p.S469L	WFS1_uc003gix.2_Missense_Mutation_p.S469L|WFS1_uc003giz.2_Missense_Mutation_p.S287L	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	469	Helical; (Potential).				endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		GGCCTGCTATCGCTGCTGCCC	0.642													28	57					0	0	0.013726	0	0		T	6302928	T	T	6302928	3	4	160	1	0	0	0	0	1	0	0	0	17386	893	31	1	1432	1	WFS1	4	6302928	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	902993	6302928	184851348	288	87558											
CCDC96	257236	broad.mit.edu	37	chr4	7043252	7043252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggatgtctcttcctagggCggcctgggcctcgatttctg	4	12	13	12	2	2	0	0	0	2	0	5	2	3	1	3	4	0	0	3	4	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:7043252C>T	uc003gjv.2	-	1	1477	c.1414G>A	c.(1414-1416)GCC>ACC	p.A472T	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	472											0						CTTCCTAGGGCGGCCTGGGCC	0.547													128	303					0	0	0.01441	0	0		T	7043252	T	T	7043252	3	4	160	1	0	0	0	0	1	0	0	0	2877	768	27	1	257	1	CCDC96	4	7043252	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	740324	7043252	184111024	289	87559											
SLC2A9	56606	broad.mit.edu	37	chr4	9943581	9943581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttctccaagagcaggtagCgtgggctgtccgggagaaag	9	7	16	9	2	1	2	0	0	1	2	3	3	2	2	2	3	2	4	2	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:9943581C>T	uc003gmc.2	-	6	831	c.770G>A	c.(769-771)CGC>CAC	p.R257H	SLC2A9_uc003gmd.2_Missense_Mutation_p.R228H	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	257	Cytoplasmic (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						GAGCAGGTAGCGTGGGCTGTC	0.577													20	31					0	0	0.008871	0	0		T	9943581	T	T	9943581	3	4	160	1	0	0	0	0	1	0	0	0	14577	768	27	1	880	1	SLC2A9	4	9943581	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2900329	9943581	181210695	290	87560											
PROM1	8842	broad.mit.edu	37	chr4	16026930	16026930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccacaaaaccatagaagatgCcaatgctgcaggaaaaggca	18	4	9	10	0	0	2	0	0	0	2	0	3	0	3	3	2	4	3	3	2	7	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:16026930C>T	uc003goo.2	-	5	727	c.515G>A	c.(514-516)GGC>GAC	p.G172D	PROM1_uc003gor.2_Missense_Mutation_p.G172D|PROM1_uc003gos.2_Missense_Mutation_p.G163D|PROM1_uc003got.2_Missense_Mutation_p.G172D|PROM1_uc003gou.2_Missense_Mutation_p.G163D|PROM1_uc003gop.2_Missense_Mutation_p.G163D|PROM1_uc003goq.3_Missense_Mutation_p.G163D|PROM1_uc010iec.1_Missense_Mutation_p.G50D	NM_006017	NP_006008	O43490	PROM1_HUMAN	prominin 1 isoform 1	172	Helical; (Potential).				camera-type eye photoreceptor cell differentiation|photoreceptor cell maintenance|retina layer formation	apical plasma membrane|cell surface|integral to plasma membrane|microvillus membrane|photoreceptor outer segment membrane|plasma membrane	beta-actinin binding|cadherin binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	7						ATAGAAGATGCCAATGCTGCA	0.493													57	119					0	0	0.01441	0	0		T	16026930	T	T	16026930	3	4	160	1	0	0	0	0	1	0	0	0	12577	739	26	2	2170	2	PROM1	4	16026930	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	6083349	16026930	175127346	291	87561											
NCAPG	64151	broad.mit.edu	37	chr4	17838932	17838932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttcgacattgcctaggcGtgttcttccccgtgtttgct	5	15	9	12	3	1	0	0	0	1	0	3	1	2	0	3	1	3	3	3	1	2	6	rs111401034		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:17838932G>A	uc003gpp.2	+	15	2436	c.2260G>A	c.(2260-2262)GTG>ATG	p.V754M	NCAPG_uc011bxj.1_Missense_Mutation_p.V263M	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	754					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		TTGCCTAGGCGTGTTCTTCCC	0.413													40	127					0	0	0.007835	0	0		A	17838932	A	A	17838932	3	1	160	1	0	0	0	0	1	0	0	0	10226	1145	40	1	2318	1	NCAPG	4	17838932	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1812002	17838932	173315344	292	87562											
PACRGL	133015	broad.mit.edu	37	chr4	20715115	20715115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctagttcagctaagtgtcGttgttggtccttctctaaac	7	16	8	10	1	3	0	1	0	2	0	6	0	4	0	1	1	2	4	1	1	4	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:20715115G>A	uc010iek.2	+	7	953	c.562G>A	c.(562-564)GTT>ATT	p.V188I	PACRGL_uc003gpu.2_RNA|PACRGL_uc010iei.1_Missense_Mutation_p.V236I|PACRGL_uc003gpz.2_Missense_Mutation_p.V188I|PACRGL_uc011bxm.1_Missense_Mutation_p.V135I|PACRGL_uc003gqa.2_Missense_Mutation_p.V90I|PACRGL_uc003gpx.3_RNA|PACRGL_uc003gpv.2_Missense_Mutation_p.V188I|PACRGL_uc003gpw.2_RNA|PACRGL_uc010iej.1_RNA|PACRGL_uc011bxn.1_Missense_Mutation_p.V90I|PACRGL_uc003gpy.2_Missense_Mutation_p.V135I	NM_145048	NP_659485	Q8N7B6	PACRL_HUMAN	PARK2 co-regulated-like isoform 1	188							binding				0						GCTAAGTGTCGTTGTTGGTCC	0.423													36	136					0	0	0.00623	0	0		A	20715115	A	A	20715115	3	1	160	1	0	0	0	0	1	0	0	0	11390	1145	40	1	584	1	PACRGL	4	20715115	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2876183	20715115	170439161	293	87563											
ARAP2	116984	broad.mit.edu	37	chr4	36231038	36231038	+	Missense_Mutation	SNP	A	C	C	1	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	cagactcatggaaatgtaagAgatactgctccaaattaatg	16	10	8	7	0	1	2	1	0	0	2	2	4	2	3	1	1	2	2	1	1	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:36231038A>C	uc003gsq.1	-	2	409	c.71T>G	c.(70-72)CTC>CGC	p.L24R	ARAP2_uc003gsr.1_Missense_Mutation_p.L24R	NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	24	SAM.				regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						GAAATGTAAGAGATACTGCTC	0.393													62	190					0	0	0.01441	0	0		C	36231038	C	C	36231038	3	2	160	1	0	0	0	0	1	0	0	0	839	304	11	5	5171	5	ARAP2	4	36231038	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	15515923	36231038	154923238	294	87564											
TLR10	81793	broad.mit.edu	37	chr4	38775306	38775306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcactgtatgaaataaatgCgtggaatcggacatttctct	12	14	8	7	2	2	1	1	1	1	0	4	3	2	3	0	2	1	1	0	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:38775306C>T	uc003gti.2	-	2	2285	c.1906G>A	c.(1906-1908)GCA>ACA	p.A636T	TLR10_uc003gtj.2_Missense_Mutation_p.A636T|TLR10_uc003gtk.2_Missense_Mutation_p.A636T	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	636	TIR.|Cytoplasmic (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						GAAATAAATGCGTGGAATCGG	0.418													29	98					0	0	0.007291	0	0		T	38775306	T	T	38775306	3	4	160	1	0	0	0	0	1	0	0	0	15975	768	27	1	533	1	TLR10	4	38775306	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2544268	38775306	152378970	295	87565											
KLHL5	51088	broad.mit.edu	37	chr4	39109197	39109197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctcctcataggtgtggctGtactggaaggtcccatgtat	7	13	12	9	0	2	0	1	0	1	0	4	1	3	1	2	4	1	3	2	4	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:39109197G>A	uc003gts.2	+	8	1747	c.1672G>A	c.(1672-1674)GTA>ATA	p.V558I	KLHL5_uc003gtp.2_Missense_Mutation_p.V512I|KLHL5_uc003gtq.2_Missense_Mutation_p.V371I|KLHL5_uc003gtr.1_Missense_Mutation_p.V558I|KLHL5_uc003gtt.2_Missense_Mutation_p.V497I	NM_015990	NP_057074	Q96PQ7	KLHL5_HUMAN	kelch-like 5 isoform 1	558	Kelch 2.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1						AGGTGTGGCTGTACTGGAAGG	0.438													9	94					0	0	0.013537	0	0		A	39109197	A	A	39109197	3	1	160	1	0	0	0	0	1	0	0	0	8408	1377	48	4	1702	4	KLHL5	4	39109197	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	333891	39109197	152045079	296	87566											
KCTD8	386617	broad.mit.edu	37	chr4	44450036	44450036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgctgctaccctgcgagaCgttgtcctccaggtcgctct	4	11	11	15	4	1	1	0	0	1	1	5	2	3	1	3	1	3	4	3	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:44450036C>T	uc003gwu.2	-	1	789	c.505G>A	c.(505-507)GTC>ATC	p.V169I		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	169						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						ccCTGCGAGACGTTGTCCTCC	0.333										HNSCC(17;0.042)			4	7					0	0	0.009096	0	0		T	44450036	T	T	44450036	3	4	160	1	0	0	0	0	1	0	0	0	8131	536	19	1	924	1	KCTD8	4	44450036	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5340839	44450036	146704240	297	87567											
COMMD8	54951	broad.mit.edu	37	chr4	47455198	47455198	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcttaaaagtggcattcGtaatgcagcaatcttgtcac	12	11	9	9	1	2	0	1	0	1	0	3	0	2	0	0	2	2	5	0	2	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:47455198G>A	uc003gxi.2	-	4	417	c.409C>T	c.(409-411)CGA>TGA	p.R137*		NM_017845	NP_060315	Q9NX08	COMD8_HUMAN	COMM domain containing 8	137	COMM.						protein binding				0						AGTGGCATTCGTAATGCAGCA	0.323													33	92					0	0	0.004878	0	0		A	47455198	A	A	47455198	4	1	160	1	0	0	0	0	0	1	0	0	3725	1153	40	1	150	1	COMMD8	4	47455198	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3005162	47455198	143699078	298	87568											
CNGA1	1259	broad.mit.edu	37	chr4	47942795	47942795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttacctgtccttgttcgtaCaaacatatcgattaaataga	13	15	5	8	2	0	1	0	0	0	1	3	2	1	1	2	0	3	2	2	0	7	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:47942795C>T	uc003gxt.3	-	10	915	c.649G>A	c.(649-651)GTA>ATA	p.V217I	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.V286I	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	217	Helical; Name=H2; (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						CTTGTTCGTACAAACATATCG	0.289													33	91					0	0	0.012213	0	0		T	47942795	T	T	47942795	3	4	160	1	0	0	0	0	1	0	0	0	3599	478	17	4	1431	4	CNGA1	4	47942795	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	487597	47942795	143211481	299	87569											
TXK	7294	broad.mit.edu	37	chr4	48096171	48096171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcagccacataccactgtCctgagtcattcttttttatc	8	17	4	12	0	3	1	2	1	1	0	5	1	4	1	3	0	2	0	3	0	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:48096171C>T	uc003gxx.3	-	8	718	c.632G>A	c.(631-633)GGA>GAA	p.G211E	TXK_uc003gxy.1_Missense_Mutation_p.G211E	NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	211	SH2.					cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						ATACCACTGTCCTGAGTCATT	0.413													4	152					0	0	0.000602	0	0		T	48096171	T	T	48096171	3	4	160	1	0	0	0	0	1	0	0	0	16812	855	30	4	983	4	TXK	4	48096171	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	153376	48096171	143058105	300	87570											
FRYL	285527	broad.mit.edu	37	chr4	48595988	48595988	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttagtagattttccaacacTgagaagatcaaatattattt	15	16	5	5	0	1	3	1	1	0	3	2	4	2	3	1	0	1	1	1	0	7	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:48595988T>C	uc003gyh.1	-	16	1899	c.1294A>G	c.(1294-1296)AGT>GGT	p.S432G	FRYL_uc003gyk.2_Missense_Mutation_p.S432G	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	432					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						TTTCCAACACTGAGAAGATCA	0.184													6	20					0	0	0.001984	0	0		C	48595988	C	C	48595988	3	2	160	1	0	0	0	0	1	0	0	0	6078	1580	55	3	7943	3	FRYL	4	48595988	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	499817	48595988	142558288	301	87571											
FRYL	285527	broad.mit.edu	37	chr4	48621329	48621329	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaactaaacaaaaaatgaAgtctactgctaagtccctcc	18	9	4	10	0	1	1	0	1	1	0	3	1	3	1	2	0	4	1	2	0	10	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:48621329A>G	uc003gyh.1	-	7	978	c.373T>C	c.(373-375)TTC>CTC	p.F125L	FRYL_uc003gyk.2_Missense_Mutation_p.F125L|FRYL_uc003gyl.1_Missense_Mutation_p.F176L	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	125					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CAAAAAATGAAGTCTACTGCT	0.348													21	88					0	0	0.014323	0	0		G	48621329	G	G	48621329	3	3	160	1	0	0	0	0	1	0	0	0	6078	72	3	3	8900	3	FRYL	4	48621329	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	25341	48621329	142532947	302	87572											
KIT	3815	broad.mit.edu	37	chr4	55573423	55573423	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactgataaatgggaagattAtcccaagtctgagaatgaaa	17	9	9	6	0	1	4	0	3	1	2	2	6	2	5	1	1	0	0	1	1	7	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:55573423A>G	uc010igr.2	+	6	1172	c.1085A>G	c.(1084-1086)TAT>TGT	p.Y362C	KIT_uc010igs.2_Missense_Mutation_p.Y362C	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	362	Ig-like C2-type 4.|Extracellular (Potential).				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGGGAAGATTATCCCAAGTCT	0.398		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				26	40					0	0	0.00632	0	0		G	55573423	G	G	55573423	3	3	160	1	0	0	0	0	1	0	0	0	8345	449	16	3	1107	3	KIT	4	55573423	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	6952094	55573423	135580853	303	87573											
CEP135	9662	broad.mit.edu	37	chr4	56883935	56883935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacagtattaaatgacttgtCatctcttagagaactttgca	14	14	6	7	0	2	2	1	1	1	1	3	3	2	2	0	0	3	2	0	0	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:56883935C>T	uc003hbi.2	+	22	3158	c.2924C>T	c.(2923-2925)TCA>TTA	p.S975L	CEP135_uc003hbj.2_Missense_Mutation_p.S681L	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	centrosome protein 4	975	Potential.				centriole replication|centriole-centriole cohesion|G2/M transition of mitotic cell cycle	centriole|cytosol	protein C-terminus binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	Glioma(25;0.08)|all_neural(26;0.101)					AATGACTTGTCATCTCTTAGA	0.358													20	68					0	0	0.010504	0	0		T	56883935	T	T	56883935	3	4	160	1	0	0	0	0	1	0	0	0	3250	838	29	4	3006	4	CEP135	4	56883935	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1310512	56883935	134270341	304	87574											
IGFBP7	3490	broad.mit.edu	37	chr4	57907077	57907077	+	Frame_Shift_Del	DEL	G	-	-																															gtgacattccagatgtccttGgggggcgtcactatggaagg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:57907077delG	uc003hcn.2	-	2	520	c.498delC	c.(496-498)CCCfs	p.P166fs	IGFBP7_uc011cag.1_Frame_Shift_Del_p.P166fs	NM_001553	NP_001544	Q16270	IBP7_HUMAN	insulin-like growth factor binding protein 7	166	Ig-like C2-type.				cell adhesion|negative regulation of cell proliferation|regulation of cell growth	extracellular space	insulin-like growth factor binding			lung(2)|central_nervous_system(1)	3	Glioma(25;0.08)|all_neural(26;0.181)				Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AGATGTCCTTGGGGGGCGTCA	0.507													20	43	---	---	---	---						.	-	57907077	-	-	57907077	7	5	160	1	0	1	0	1	0	0	0	0	7600	1335	47	0	366	0	IGFBP7	4	57907077	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	1023142	57907077	133247199	305	87575											
LPHN3	23284	broad.mit.edu	37	chr4	62862015	62862015	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgtttcattgcagatgttgGctccgacttgacacctactt	7	15	9	10	1	1	2	1	1	0	1	2	3	2	2	2	1	2	4	2	1	1	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:62862015G>A	uc010ihh.2	+	17	3212	c.3039G>A	c.(3037-3039)TGG>TGA	p.W1013*	LPHN3_uc003hcq.3_Nonsense_Mutation_p.W1013*|LPHN3_uc003hct.2_Nonsense_Mutation_p.W406*	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	1000	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GCAGATGTTGGCTCCGACTTG	0.408													49	184					0	0	0.01441	0	0		A	62862015	A	A	62862015	4	1	160	1	0	0	0	0	0	1	0	0	8935	1212	42	2	3105	2	LPHN3	4	62862015	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4954938	62862015	128292261	306	87576											
STAP1	26228	broad.mit.edu	37	chr4	68442967	68442967	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggagaggcttcattcttaCagtaacagaggtaggaagct	13	10	12	6	0	2	2	1	0	1	2	2	4	2	3	0	4	3	4	0	4	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:68442967C>T	uc003hde.3	+	4	435	c.353C>T	c.(352-354)ACA>ATA	p.T118I	STAP1_uc003hdf.2_Missense_Mutation_p.T118I	NM_012108	NP_036240	Q9ULZ2	STAP1_HUMAN	signal transducing adaptor family member 1	118	PH.				cellular membrane fusion|intracellular protein transport	cytoplasm					0						TTCATTCTTACAGTAACAGAG	0.269													10	47					0	0	0.001855	0	0		T	68442967	T	T	68442967	3	4	160	1	0	0	0	0	1	0	0	0	15277	478	17	4	367	4	STAP1	4	68442967	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5580952	68442967	122711309	307	87577											
UGT2A3	79799	broad.mit.edu	37	chr4	69817144	69817144	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcttatttcaacaaaaaaaTcatttaattttataactgat	17	17	1	6	0	3	1	2	1	1	0	3	1	3	1	0	0	2	0	0	0	8	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:69817144T>A	uc003hef.2	-	1	366	c.335A>T	c.(334-336)GAT>GTT	p.D112V	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	112	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						AACAAAAAAATCATTTAATTT	0.348													5	160					0	0	0.001168	0	0		A	69817144	A	A	69817144	3	1	160	1	0	0	0	0	1	0	0	0	16981	1435	50	5	1272	5	UGT2A3	4	69817144	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1374177	69817144	121337132	308	87578											
UGT2B7	7364	broad.mit.edu	37	chr4	69973972	69973972	+	Silent	SNP	A	G	G	1	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	gccaggggagcagctgttagAgtggacttcaacacaatgtc	11	8	13	9	0	1	1	1	0	0	1	2	3	1	3	1	3	3	3	1	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:69973972A>G	uc003heg.3	+	5	1288	c.1242A>G	c.(1240-1242)AGA>AGG	p.R414R	UGT2B7_uc010ihq.2_Intron	NM_001074	NP_001065	P16662	UD2B7_HUMAN	UDP glucuronosyltransferase 2B7 precursor	414					lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|skin(1)	2						CAGCTGTTAGAGTGGACTTCA	0.443													110	215					0	0	0.01441	0	0		G	69973972	G	G	69973972	2	3	160	1	0	0	0	0	0	0	0	1	16988	301	11	3		3	UGT2B7	4	69973972	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	156828	69973972	121180304	309	87579											
UGT2B11	10720	broad.mit.edu	37	chr4	70074105	70074105	+	Silent	SNP	A	G	G	1	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	gcaagggctgttgcaattacAttggccctttctgctgtcat	7	14	10	10	0	2	0	1	0	1	0	2	0	2	0	1	2	3	5	1	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:70074105A>G	uc003heh.2	-	3	975	c.966T>C	c.(964-966)AAT>AAC	p.N322N	uc003hei.1_Intron	NM_001073	NP_001064	O75310	UDB11_HUMAN	UDP glucuronosyltransferase 2 family,	322					estrogen metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3						TTGCAATTACATTGGCCCTTT	0.443													5	406					0	0	0.004482	0	0		G	70074105	G	G	70074105	2	3	160	1	0	0	0	0	0	0	0	1	16983	214	8	3		3	UGT2B11	4	70074105	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	100133	70074105	121080171	310	87580											
BMP2K	55589	broad.mit.edu	37	chr4	79754838	79754838	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttatcttaatggaatattgtCgaggtaagtatttttttgca	11	19	8	3	1	1	0	0	0	1	0	2	2	1	1	0	2	1	3	0	2	6	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:79754838C>T	uc003hlk.2	+	3	566	c.400C>T	c.(400-402)CGA>TGA	p.R134*	BMP2K_uc010ijl.1_RNA|BMP2K_uc003hlj.2_Nonsense_Mutation_p.R134*	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	134	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						GGAATATTGTCGAGGTAAGTA	0.333													5	214					0	0	0.000602	0	0		T	79754838	T	T	79754838	4	4	160	1	0	0	0	0	0	1	0	0	1461	876	31	1	410	1	BMP2K	4	79754838	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	9680733	79754838	111399438	311	87581											
BMP2K	55589	broad.mit.edu	37	chr4	79791998	79791998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggacctcctcagcagccGccacagcagcatagagtact	11	5	10	15	1	1	1	1	0	0	1	2	2	2	2	4	1	5	4	4	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:79791998G>A	uc003hlk.2	+	11	1459	c.1293G>A	c.(1291-1293)CCG>CCA	p.P431P	BMP2K_uc010ijl.1_RNA|BMP2K_uc003hlj.2_Silent_p.P431P|BMP2K_uc003hll.2_5'Flank	NM_198892	NP_942595	Q9NSY1	BMP2K_HUMAN	BMP-2 inducible kinase isoform a	431	Gln/His-rich.					nucleus	ATP binding|protein serine/threonine kinase activity			lung(1)	1						CTCAGCAGCCGCCACAGCAGC	0.438													11	36					0	0	0.003163	0	0		A	79791998	A	A	79791998	2	1	160	1	0	0	0	0	0	0	0	1	1461	1074	38	1		1	BMP2K	4	79791998	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	37160	79791998	111362278	312	87582											
FGF5	2250	broad.mit.edu	37	chr4	81196160	81196160	+	Silent	SNP	T	C	C	0	1	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	tcaaaaaaaggaaaactccaTgcaagtgtaagtagaaccac	20	6	7	8	0	1	1	1	0	0	1	2	2	2	2	2	1	3	3	2	1	9	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:81196160T>C	uc003hmd.2	+	2	690	c.453T>C	c.(451-453)CAT>CAC	p.H151H	FGF5_uc003hme.2_Intron	NM_004464	NP_004455	P12034	FGF5_HUMAN	fibroblast growth factor 5 isoform 1 precursor	151					cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	fibroblast growth factor receptor binding|growth factor activity			ovary(1)|breast(1)	2						GAAAACTCCATGCAAGTGTAA	0.308													16	40					0	0	0.004007	0	0		C	81196160	C	C	81196160	2	2	160	1	0	0	0	0	0	0	0	1	5869	1461	51	3		3	FGF5	4	81196160	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1404162	81196160	109958116	313	87583											
PRKG2	5593	broad.mit.edu	37	chr4	82090857	82090857	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ttgttcatctctagcttgggCtgtcctcctcattatattct	5	19	6	11	0	4	0	2	0	2	0	7	0	6	0	2	1	1	3	2	1	3	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:82090857C>A	uc003hmh.2	-	4	822	c.808G>T	c.(808-810)GCC>TCC	p.A270S	PRKG2_uc011cch.1_Missense_Mutation_p.A270S	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	270	cGMP 1.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						CTAGCTTGGGCTGTCCTCCTC	0.363													44	128					4.18559e-23	4.64442e-23	0.01441	1	0		A	82090857	A	A	82090857	3	1	160	1	0	0	0	0	1	0	0	0	12545	797	28	5	1540	5	PRKG2	4	82090857	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	894697	82090857	109063419	314	87584											
SPARCL1	8404	broad.mit.edu	37	chr4	88416218	88416218	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaaactggggattgcagtgTtgtcaggtgctaccgtttca	8	14	12	7	1	2	0	2	0	0	0	2	1	2	1	1	3	4	4	1	3	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:88416218T>C	uc010ikm.2	-	4	688	c.116A>G	c.(115-117)AAC>AGC	p.N39S	SPARCL1_uc011cdc.1_Intron|SPARCL1_uc003hqs.3_Missense_Mutation_p.N39S|SPARCL1_uc011cdd.1_5'UTR|SPARCL1_uc003hqt.2_Missense_Mutation_p.N39S	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	39	O-glycosylated at two sites.				signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		GATTGCAGTGTTGTCAGGTGC	0.373													48	170					0	0	0.01441	0	0		C	88416218	C	C	88416218	3	2	160	1	0	0	0	0	1	0	0	0	15021	1725	60	3	1914	3	SPARCL1	4	88416218	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	6325361	88416218	102738058	315	87585											
HERC5	51191	broad.mit.edu	37	chr4	89425506	89425506	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attatcaaattattccacccCgaagaactgaaggatgtgat	15	11	7	8	1	1	3	1	2	0	1	2	5	2	4	3	1	1	0	3	1	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:89425506C>T	uc003hrt.2	+	21	2859	c.2706C>T	c.(2704-2706)CCC>CCT	p.P902P	HERC5_uc011cdm.1_Silent_p.P540P	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	902	HECT.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TATTCCACCCCGAAGAACTGA	0.333													44	112					0	0	0.011902	0	0		T	89425506	T	T	89425506	2	4	160	1	0	0	0	0	0	0	0	1	7077	639	23	1		1	HERC5	4	89425506	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1009288	89425506	101728770	316	87586											
CYP2U1	113612	broad.mit.edu	37	chr4	108871407	108871407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctcatttttagggaagcGggtgtgtatgggagaacaac	11	11	14	5	1	1	1	1	0	1	1	2	4	1	2	0	3	3	1	0	3	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:108871407G>A	uc003hyp.2	+	5	1546	c.1463G>A	c.(1462-1464)CGG>CAG	p.R488Q	CYP2U1_uc011cfi.1_Missense_Mutation_p.R279Q	NM_183075	NP_898898	Q7Z449	CP2U1_HUMAN	cytochrome P450, family 2, subfamily U,	488					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000128)		TTAGGGAAGCGGGTGTGTATG	0.343													49	147					0	0	0.01441	0	0		A	108871407	A	A	108871407	3	1	160	1	0	0	0	0	1	0	0	0	4178	1116	39	1	1481	1	CYP2U1	4	108871407	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	19445901	108871407	82282869	317	87587											
PLA2G12A	81579	broad.mit.edu	37	chr4	110635582	110635582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acctgcatgcggctcgttggCtgtccagatatggtttacaa	8	12	11	10	2	0	1	0	0	0	1	2	1	1	1	2	3	3	5	2	3	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:110635582C>T	uc003hzp.2	-	4	798	c.521G>A	c.(520-522)AGC>AAC	p.S174N	PLA2G12A_uc010img.2_Missense_Mutation_p.S172N	NM_030821	NP_110448	Q9BZM1	PG12A_HUMAN	phospholipase A2, group XIIA precursor	174					lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|calcium-dependent phospholipase A2 activity				0				OV - Ovarian serous cystadenocarcinoma(123;0.000268)		GGCTCGTTGGCTGTCCAGATA	0.408													5	322					0	0	0.001984	0	0		T	110635582	T	T	110635582	3	4	160	1	0	0	0	0	1	0	0	0	12009	797	28	2	52	2	PLA2G12A	4	110635582	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1764175	110635582	80518694	318	87588											
NDST3	9348	broad.mit.edu	37	chr4	119163208	119163208	+	Missense_Mutation	SNP	A	G	G	1	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	aatttagttgctaattattgAtgggcaacaactaagaactg	15	13	8	5	0	0	2	0	1	0	1	0	2	0	2	0	1	4	3	0	1	8	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:119163208A>G	uc003ibx.2	+	12	2706	c.2303A>G	c.(2302-2304)GAT>GGT	p.D768G		NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	768	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						CTAATTATTGATGGGCAACAA	0.313													57	123					0	0	0.01441	0	0		G	119163208	G	G	119163208	3	3	160	1	0	0	0	0	1	0	0	0	10276	333	12	3	2345	3	NDST3	4	119163208	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	8527626	119163208	71991068	319	87589											
SLC25A31	83447	broad.mit.edu	37	chr4	128651810	128651810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagctgtgtccaagacagCggtggcgcccatcgagcggg	7	5	17	12	4	0	1	0	0	0	1	2	2	1	1	2	4	3	2	2	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:128651810C>T	uc003ifl.2	+	1	256	c.110C>T	c.(109-111)GCG>GTG	p.A37V		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	37	Solcar 1.|Helical; Name=1; (Potential).				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						TCCAAGACAGCGGTGGCGCCC	0.637													8	17					0	0	0.001855	0	0		T	128651810	T	T	128651810	3	4	160	1	0	0	0	0	1	0	0	0	14520	768	27	1	112	1	SLC25A31	4	128651810	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	9488602	128651810	62502466	320	87590											
HSPA4L	22824	broad.mit.edu	37	chr4	128751951	128751951	+	Silent	SNP	A	G	G	1	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	tcagaaatagtagcaaagtcAaaggtaagaagtttatgaaa	20	9	9	3	0	2	3	2	1	0	2	2	3	2	3	0	1	1	4	0	1	9	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:128751951A>G	uc003ifm.2	+	18	2578	c.2325A>G	c.(2323-2325)TCA>TCG	p.S775S	HSPA4L_uc011cgr.1_Silent_p.S742S	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	775					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TAGCAAAGTCAAAGGTAAGAA	0.328													17	66					0	0	0.008871	0	0		G	128751951	G	G	128751951	2	3	160	1	0	0	0	0	0	0	0	1	7429	117	5	3		3	HSPA4L	4	128751951	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	100141	128751951	62402325	321	87591											
LARP1B	55132	broad.mit.edu	37	chr4	129121797	129121797	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaatttagacaacttgcttgGgaagatgcaaaagaaaatta	18	10	9	4	0	0	3	0	0	0	3	0	5	0	4	0	1	3	2	0	1	9	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:129121797G>T	uc003iga.2	+	17	2417	c.2286G>T	c.(2284-2286)TGG>TGT	p.W762C	LARP1B_uc003igc.2_Missense_Mutation_p.W181C|LARP1B_uc010ioa.1_RNA|LARP1B_uc003ige.2_RNA|LARP1B_uc003igd.2_RNA|LARP1B_uc003igf.2_5'UTR	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2	762							RNA binding				0						AACTTGCTTGGGAAGATGCAA	0.343													19	63					2.27731e-05	2.38051e-05	0.012319	1	0		T	129121797	T	T	129121797	3	4	160	1	0	0	0	0	1	0	0	0	8645	1241	43	5	2478	5	LARP1B	4	129121797	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	369846	129121797	62032479	322	87592											
ZNF330	27309	broad.mit.edu	37	chr4	142150795	142150795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctcagtacacatgcttgtgCctgccctcttaccgatgctg	6	13	8	14	1	2	0	1	0	2	0	3	1	2	0	3	0	6	3	3	0	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:142150795C>T	uc003iiq.3	+	6	582	c.362C>T	c.(361-363)GCC>GTC	p.A121V	ZNF330_uc011chl.1_Missense_Mutation_p.A61V	NM_014487	NP_055302	Q9Y3S2	ZN330_HUMAN	zinc finger protein 330	121						chromosome, centromeric region|midbody|nucleolus	protein binding|zinc ion binding				0	all_hematologic(180;0.162)					CATGCTTGTGCCTGCCCTCTT	0.448													5	352					0	0	0.001168	0	0		T	142150795	T	T	142150795	3	4	160	1	0	0	0	0	1	0	0	0	17873	739	26	2	380	2	ZNF330	4	142150795	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	13028998	142150795	49003481	323	87593											
SMAD1	4086	broad.mit.edu	37	chr4	146436032	146436032	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcctcatgtcatttactgCcgtgtgtggcgctggcccga	4	12	12	13	3	2	0	2	0	0	0	2	1	2	0	3	2	3	1	3	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:146436032C>T	uc003ikc.2	+	2	683	c.267C>T	c.(265-267)TGC>TGT	p.C89C	SMAD1_uc003ikd.2_Silent_p.C89C|SMAD1_uc010iov.2_Silent_p.C89C|SMAD1_uc011cic.1_Silent_p.C89C	NM_005900	NP_005891	Q15797	SMAD1_HUMAN	Sma- and Mad-related protein 1	89	MH1.				BMP signaling pathway|embryonic pattern specification|primary miRNA processing|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway	cytosol|integral to membrane|nuclear inner membrane	co-SMAD binding|I-SMAD binding|identical protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity			ovary(1)	1	all_hematologic(180;0.151)					TCATTTACTGCCGTGTGTGGC	0.557													46	92					0	0	0.009718	0	0		T	146436032	T	T	146436032	2	4	160	1	0	0	0	0	0	0	0	1	14782	747	26	2		2	SMAD1	4	146436032	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4285237	146436032	44718244	324	87594											
POU4F2	5458	broad.mit.edu	37	chr4	147561827	147561827	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcgaagcctactttgccaTtcagcctcggccctcctctg	5	11	8	17	2	2	0	1	0	1	0	5	1	3	0	5	1	4	1	5	1	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:147561827T>G	uc003ikv.2	+	2	1345	c.1097T>G	c.(1096-1098)ATT>AGT	p.I366S		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	366	Homeobox.				estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					TACTTTGCCATTCAGCCTCGG	0.582													30	88					0	0	0.009535	0	0		G	147561827	G	G	147561827	3	3	160	1	0	0	0	0	1	0	0	0	12298	1493	52	5	1103	5	POU4F2	4	147561827	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1125795	147561827	43592449	325	87595											
FBXW7	55294	broad.mit.edu	37	chr4	153249385	153249385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgaagatgcatacaacGcacagtggaagtatgcccat	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:153249385G>A	uc003ims.2	-	9	1542	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXW7_uc011cii.1_Missense_Mutation_p.R465C|FBXW7_uc003imt.2_Missense_Mutation_p.R465C|FBXW7_uc011cih.1_Missense_Mutation_p.R289C|FBXW7_uc003imq.2_Missense_Mutation_p.R385C|FBXW7_uc003imr.2_Missense_Mutation_p.R347C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGCATACAACGCACAGTGGAA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								95	301					0	0	0.01441	0	0		A	153249385	A	A	153249385	3	1	160	1	0	0	0	0	1	0	0	0	5783	1087	38	1	746	1	FBXW7	4	153249385	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5687558	153249385	37904891	326	87596											
DCHS2	54798	broad.mit.edu	37	chr4	155254496	155254496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctgcaggctggggcgctgCcgagctgcgcctgcaccgtg	3	7	17	14	4	0	0	0	0	0	0	0	1	0	0	3	3	6	6	3	3	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:155254496C>T	uc003inw.2	-	9	1367	c.1367G>A	c.(1366-1368)GGC>GAC	p.G456D	DCHS2_uc003inx.2_Missense_Mutation_p.G955D	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	456	Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TGGGGCGCTGCCGAGCTGCGC	0.597													17	35					0	0	0.006122	0	0		T	155254496	T	T	155254496	3	4	160	1	0	0	0	0	1	0	0	0	4291	739	26	2	7547	2	DCHS2	4	155254496	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2005111	155254496	35899780	327	87597											
TLL1	7092	broad.mit.edu	37	chr4	166795140	166795140	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacggggagctatgggtctgCgctggcctcgattatgatta	7	12	14	8	3	1	1	0	1	1	0	2	3	1	2	1	4	3	2	1	4	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:166795140C>T	uc003irh.1	+	1	731	c.84C>T	c.(82-84)TGC>TGT	p.C28C	TLL1_uc011cjn.1_Silent_p.C28C|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	28					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		TATGGGTCTGCGCTGGCCTCG	0.542													64	147					0	0	0.01441	0	0		T	166795140	T	T	166795140	2	4	160	1	0	0	0	0	0	0	0	1	15970	776	27	1		1	TLL1	4	166795140	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	11540644	166795140	24359136	328	87598											
KIAA1430	57587	broad.mit.edu	37	chr4	186112159	186112159	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttcatttcccttctcagtAagataattttctgttgtttg	7	21	5	8	0	3	1	2	0	2	1	5	1	4	1	1	0	0	3	1	0	2	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr4:186112159A>G	uc003ixf.3	-	2	339	c.192T>C	c.(190-192)CTT>CTC	p.L64L	KIAA1430_uc003ixg.2_Silent_p.L64L	NM_020827	NP_065878	Q9P2B7	K1430_HUMAN	hypothetical protein LOC57587	64											0		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;9.44e-26)|Epithelial(43;2.64e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.66e-11)|Colorectal(24;6.03e-05)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000331)|COAD - Colon adenocarcinoma(29;0.000427)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00924)|READ - Rectum adenocarcinoma(43;0.165)		CCTTCTCAGTAAGATAATTTT	0.358													24	63					0	0	0.014323	0	0		G	186112159	G	G	186112159	2	3	160	1	0	0	0	0	0	0	0	1	8248	349	13	3		3	KIAA1430	4	186112159	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	19317019	186112159	5042117	329	87599											
SDHA	6389	broad.mit.edu	37	chr5	251215	251215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacctgaagacgttcgacCggggtgagcagacagtgggc	10	5	16	10	3	0	4	0	2	0	2	1	5	0	4	2	3	2	3	2	3	1	1	rs9809219		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:251215C>T	uc003jao.3	+	12	1775	c.1660C>T	c.(1660-1662)CGG>TGG	p.R554W	SDHA_uc011clv.1_Missense_Mutation_p.R554W|SDHA_uc011clw.1_Missense_Mutation_p.R506W|SDHA_uc003jap.3_Intron|SDHA_uc003jaq.3_Missense_Mutation_p.R329W|SDHA_uc003jar.3_Missense_Mutation_p.R148W	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	554			R -> W (in LS).		nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	GACGTTCGACCGGGGTGAGCA	0.557									Familial_Paragangliomas				49	90					0	0	0.01441	0	0		T	251215	T	T	251215	3	4	160	1	0	0	0	0	1	0	0	0	13988	643	23	1	1706	1	SDHA	5	251215	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		251215	180664045	330	87600											
AHRR	57491	broad.mit.edu	37	chr5	353927	353927	+	Missense_Mutation	SNP	A	G	G	1	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	ccgagttggaccacctggccAgcctgctgccgttcccgcct	4	8	11	18	3	0	0	0	0	0	0	1	2	1	1	8	2	3	3	8	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:353927A>G	uc003jav.2	+	3	201	c.157A>G	c.(157-159)AGC>GGC	p.S53G	AHRR_uc003jaw.2_Missense_Mutation_p.S49G|AHRR_uc010isy.2_Intron|AHRR_uc010isz.2_Missense_Mutation_p.S49G	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	53	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			CCACCTGGCCAGCCTGCTGCC	0.632													15	51					0	0	0.003163	0	0		G	353927	G	G	353927	3	3	160	1	0	0	0	0	1	0	0	0	417	188	7	3	167	3	AHRR	5	353927	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	102712	353927	180561333	331	87601											
ADAMTS16	170690	broad.mit.edu	37	chr5	5239278	5239278	+	Silent	SNP	C	T	T	0	0	0	1	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	ctccagagagttggatgtgaCaatgtccttggatctgatgc	9	12	12	8	0	1	3	0	2	1	1	3	6	3	5	2	2	1	1	2	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:5239278C>T	uc003jdl.2	+	15	2307	c.2169C>T	c.(2167-2169)GAC>GAT	p.D723D	ADAMTS16_uc003jdk.1_Silent_p.D723D|ADAMTS16_uc010itk.1_RNA	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	723	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TTGGATGTGACAATGTCCTTG	0.493													8	487					0	0	0.00308	0	0		T	5239278	T	T	5239278	2	4	160	1	0	0	0	0	0	0	0	1	261	477	17	4		4	ADAMTS16	5	5239278	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4885351	5239278	175675982	332	87602											
ADAMTS16	170690	broad.mit.edu	37	chr5	5303565	5303565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccacctgcatggagcGccgggccctgggcagaggta	6	5	16	14	2	0	1	0	0	0	1	0	2	0	2	4	4	3	4	4	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:5303565G>A	uc003jdl.2	+	19	3112	c.2974G>A	c.(2974-2976)GCC>ACC	p.A992T	ADAMTS16_uc003jdk.1_Missense_Mutation_p.A992T	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	992	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TGCATGGAGCGCCGGGCCCTG	0.662													11	13					0	0	0.008291	0	0		A	5303565	A	A	5303565	3	1	160	1	0	0	0	0	1	0	0	0	261	1087	38	1	3048	1	ADAMTS16	5	5303565	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	64287	5303565	175611695	333	87603											
SRD5A1	6715	broad.mit.edu	37	chr5	6652020	6652020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actgttggcgtgtacaatggCgattatgttctgtacctgta	8	15	11	7	2	1	0	0	0	1	0	1	1	1	0	1	2	2	5	1	2	5	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:6652020C>T	uc003jdw.2	+	2	549	c.359C>T	c.(358-360)GCG>GTG	p.A120V	SRD5A1_uc011cml.1_RNA|SRD5A1_uc011cmm.1_Intron	NM_001047	NP_001038	P18405	S5A1_HUMAN	steroid-5-alpha-reductase 1	120	Helical; (Potential).				androgen biosynthetic process|cell differentiation|sex determination|sex differentiation	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|electron carrier activity				0					Dutasteride(DB01126)|Finasteride(DB01216)	TGTACAATGGCGATTATGTTC	0.418													46	125					0	0	0.01441	0	0		T	6652020	T	T	6652020	3	4	160	1	0	0	0	0	1	0	0	0	15163	768	27	1	365	1	SRD5A1	5	6652020	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1348455	6652020	174263240	334	87604											
FAM173B	134145	broad.mit.edu	37	chr5	10227606	10227606	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtacagggcctcttttcacGgcctctaaaagtgcttgcat	8	13	9	11	1	3	0	1	0	2	0	3	0	3	0	2	2	3	3	2	2	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:10227606G>T	uc003jeo.2	-	5	678	c.649C>A	c.(649-651)CGT>AGT	p.R217S	FAM173B_uc003jep.2_RNA|FAM173B_uc010itr.2_Missense_Mutation_p.R200S	NM_199133	NP_954584	Q6P4H8	F173B_HUMAN	hypothetical protein LOC134145	217						integral to membrane				kidney(1)|central_nervous_system(1)	2						CTCTTTTCACGGCCTCTAAAA	0.488													48	87					7.34454e-26	8.21445e-26	0.01441	1	0		T	10227606	T	T	10227606	3	4	160	1	0	0	0	0	1	0	0	0	5505	1116	39	5	56	5	FAM173B	5	10227606	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3575586	10227606	170687654	335	87605											
DNAH5	1767	broad.mit.edu	37	chr5	13913929	13913929	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacgtcttgagggttgtaaAgatgtctattatcttggcaa	11	15	10	5	1	3	2	0	1	3	1	3	2	3	2	0	2	1	3	0	2	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:13913929A>C	uc003jfd.2	-	11	1501	c.1459T>G	c.(1459-1461)TTT>GTT	p.F487V	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	487	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					AGGGTTGTAAAGATGTCTATT	0.358									Kartagener_syndrome				25	117					0	0	0.004656	0	0		C	13913929	C	C	13913929	3	2	160	1	0	0	0	0	1	0	0	0	4610	72	3	5	12691	5	DNAH5	5	13913929	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3686323	13913929	167001331	336	87606											
CDH9	1007	broad.mit.edu	37	chr5	26906221	26906221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctcatgtctggtaatgCagtttttattatgccttttg	6	20	8	7	0	3	0	1	0	2	0	3	0	3	0	1	1	3	4	1	1	3	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:26906221C>T	uc003jgs.1	-	5	827	c.658G>A	c.(658-660)GCA>ACA	p.A220T	CDH9_uc010iug.2_Missense_Mutation_p.A220T	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	220	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TCTGGTAATGCAGTTTTTATT	0.393													50	139					0	0	0.01441	0	0		T	26906221	T	T	26906221	3	4	160	1	0	0	0	0	1	0	0	0	3120	710	25	2	1743	2	CDH9	5	26906221	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	12992292	26906221	154009039	337	87607											
PDZD2	23037	broad.mit.edu	37	chr5	31983467	31983467	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctccaggcctcctgccaAcaaggcccctgaagaatcca	11	6	7	17	0	1	2	0	1	1	1	4	2	3	2	7	2	2	0	7	2	4	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:31983467A>G	uc003jhl.2	+	3	1071	c.683A>G	c.(682-684)AAC>AGC	p.N228S	PDZD2_uc003jhm.2_Missense_Mutation_p.N228S|PDZD2_uc011cnx.1_Missense_Mutation_p.N54S	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	228					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CCTCCTGCCAACAAGGCCCCT	0.577													28	84					0	0	0.00632	0	0		G	31983467	G	G	31983467	3	3	160	1	0	0	0	0	1	0	0	0	11720	43	2	3	689	3	PDZD2	5	31983467	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5077246	31983467	148931793	338	87608											
PDZD2	23037	broad.mit.edu	37	chr5	31995817	31995817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtgaaggaaggaggtgccGctcacaggtgactagataac	14	6	14	7	1	1	3	1	2	0	1	1	5	1	5	1	4	2	1	1	4	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:31995817G>A	uc003jhl.2	+	4	1502	c.1114G>A	c.(1114-1116)GCT>ACT	p.A372T	PDZD2_uc003jhm.2_Missense_Mutation_p.A372T|PDZD2_uc011cnx.1_Missense_Mutation_p.A198T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	372	PDZ 2.				cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						AGGAGGTGCCGCTCACAGGTG	0.388													15	25					0	0	0.00245	0	0		A	31995817	A	A	31995817	3	1	160	1	0	0	0	0	1	0	0	0	11720	1087	38	1	1124	1	PDZD2	5	31995817	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	12350	31995817	148919443	339	87609											
RXFP3	51289	broad.mit.edu	37	chr5	33937053	33937053	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatcccccgggcagcggcGgggcagagagcgcggacaca	9	1	17	14	5	0	1	0	0	0	1	1	4	1	2	2	5	2	2	2	5	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:33937053G>A	uc003jic.1	+	1	565	c.208G>A	c.(208-210)GGG>AGG	p.G70R		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	70	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						GGGCAGCGGCGGGGCAGAGAG	0.697													25	34					0	0	0.009535	0	0		A	33937053	A	A	33937053	3	1	160	1	0	0	0	0	1	0	0	0	13786	1116	39	1	210	1	RXFP3	5	33937053	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1941236	33937053	146978207	340	87610											
NIPBL	25836	broad.mit.edu	37	chr5	37002815	37002815	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaggaaaacatcagcttaAtgaacttggcagtgaatctg	14	11	9	7	0	2	2	1	2	1	0	2	3	2	3	0	2	3	2	0	2	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:37002815A>C	uc003jkl.3	+	15	4215	c.3716A>C	c.(3715-3717)AAT>ACT	p.N1239T	NIPBL_uc003jkk.3_Missense_Mutation_p.N1239T	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1239					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			CATCAGCTTAATGAACTTGGC	0.313													9	95					0	0	0.008291	0	0		C	37002815	C	C	37002815	3	2	160	1	0	0	0	0	1	0	0	0	10447	101	4	5	3770	5	NIPBL	5	37002815	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3065762	37002815	143912445	341	87611											
HEATR7B2	133558	broad.mit.edu	37	chr5	41018876	41018876	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctagggcgtccatggatcGttcatagagaaactgaaatc	12	10	10	9	2	1	2	1	1	0	1	5	4	3	3	2	2	1	1	2	2	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:41018876G>A	uc003jmj.3	-	26	3080	c.2590C>T	c.(2590-2592)CGA>TGA	p.R864*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.R419*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	864							binding			ovary(6)|central_nervous_system(2)	8						TCCATGGATCGTTCATAGAGA	0.463													52	70					0	0	0.01441	0	0		A	41018876	A	A	41018876	4	1	160	1	0	0	0	0	0	1	0	0	7051	1153	40	1	2235	1	HEATR7B2	5	41018876	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4016061	41018876	139896384	342	87612											
PLCXD3	345557	broad.mit.edu	37	chr5	41382280	41382280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggaccagtttttcatggtGatatttctgcatcccataaa	10	16	7	8	0	2	1	1	1	1	0	3	2	3	2	2	2	1	2	2	2	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:41382280G>A	uc003jmm.1	-	2	562	c.460C>T	c.(460-462)CAC>TAC	p.H154Y		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	154	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						TTTTCATGGTGATATTTCTGC	0.413													34	289					0	0	0.010818	0	0		A	41382280	A	A	41382280	3	1	160	1	0	0	0	0	1	0	0	0	12062	1290	45	4	513	4	PLCXD3	5	41382280	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	363404	41382280	139532980	343	87613											
NNT	23530	broad.mit.edu	37	chr5	43616017	43616017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttttaaagacatcaggaaCgctgattagttttatttacc	12	15	6	8	1	1	2	1	1	0	1	1	3	1	3	2	1	2	2	2	1	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:43616017C>T	uc003joe.2	+	4	704	c.449C>T	c.(448-450)ACG>ATG	p.T150M	NNT_uc003jof.2_Missense_Mutation_p.T150M	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	150	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	ACATCAGGAACGCTGATTAGT	0.398													5	185					0	0	0.001168	0	0		T	43616017	T	T	43616017	3	4	160	1	0	0	0	0	1	0	0	0	10529	536	19	1	459	1	NNT	5	43616017	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2233737	43616017	137299243	344	87614											
ITGA1	3672	broad.mit.edu	37	chr5	52218611	52218611	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtttcaccctctaggacaAgcatgactttcaggactctg	10	12	8	11	0	4	1	2	1	2	0	4	3	4	3	1	2	1	2	1	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:52218611A>G	uc003jou.2	+	18	2349	c.2297A>G	c.(2296-2298)AAG>AGG	p.K766R	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Missense_Mutation_p.K297R	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	766	Extracellular (Potential).				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				CTCTAGGACAAGCATGACTTT	0.408													5	197					0	0	0.000602	0	0		G	52218611	G	G	52218611	3	3	160	1	0	0	0	0	1	0	0	0	7888	72	3	3	2367	3	ITGA1	5	52218611	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	8602594	52218611	128696649	345	87615											
HSPB3	8988	broad.mit.edu	37	chr5	53751959	53751959	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggttttatctcaagaagcTtcacccgacagtacaaacta	14	10	6	11	2	2	1	2	0	1	1	3	2	2	1	1	1	3	3	1	1	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:53751959T>C	uc003jph.1	+	1	515	c.340T>C	c.(340-342)TTC>CTC	p.F114L		NM_006308	NP_006299	Q12988	HSPB3_HUMAN	heat shock 27kDa protein 3	114					cell death|response to heat|response to unfolded protein	cytoplasm|nucleus					0		Lung NSC(810;0.00104)				CTCAAGAAGCTTCACCCGACA	0.458													51	109					0	0	0.01441	0	0		C	53751959	C	C	53751959	3	2	160	1	0	0	0	0	1	0	0	0	7437	1609	56	3	342	3	HSPB3	5	53751959	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1533348	53751959	127163301	346	87616											
MAP3K1	4214	broad.mit.edu	37	chr5	56178223	56178223	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccaaagccatctagacctAccccaggtaatacaagtaaa	16	6	7	12	0	1	1	0	0	1	1	1	1	1	1	5	2	3	2	5	2	8	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:56178223A>G	uc003jqw.3	+	14	3697	c.3196A>G	c.(3196-3198)ACC>GCC	p.T1066A		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	1066					cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		ATCTAGACCTACCCCAGGTAA	0.443													46	89					0	0	0.011902	0	0		G	56178223	G	G	56178223	3	3	160	1	0	0	0	0	1	0	0	0	9261	391	14	3	3250	3	MAP3K1	5	56178223	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2426264	56178223	124737037	347	87617											
CENPH	64946	broad.mit.edu	37	chr5	68490522	68490522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagaaaagcaaatcgaagCgtatgttatatttaaaaatt	19	11	7	4	2	0	1	0	0	0	1	1	2	0	1	0	0	2	4	0	0	11	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:68490522C>T	uc003jvp.2	+	3	326	c.239C>T	c.(238-240)GCT>GTT	p.A80V	CENPH_uc010ixc.2_Missense_Mutation_p.A80V	NM_022909	NP_075060	Q9H3R5	CENPH_HUMAN	centromere protein H	80	Potential.				cell division|CenH3-containing nucleosome assembly at centromere|chromosome segregation|kinetochore organization|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm	kinetochore binding|protein binding			large_intestine(1)	1		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.41e-56)|Epithelial(20;1.29e-52)|all cancers(19;3.15e-48)|Lung(70;0.0178)		CAAATCGAAGCGTATGTTATA	0.179													12	38					0	0	0.001855	0	0		T	68490522	T	T	68490522	3	4	160	1	0	0	0	0	1	0	0	0	3235	782	27	1	249	1	CENPH	5	68490522	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	12312299	68490522	112424738	348	87618											
BDP1	55814	broad.mit.edu	37	chr5	70754406	70754406	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttttttaatttcaacagTactgaaaagactggtggtga	12	16	8	5	0	2	3	1	2	1	1	2	3	2	3	0	2	2	1	0	2	5	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:70754406T>C	uc003kbp.1	+	2	476	c.213T>C	c.(211-213)AGT>AGC	p.S71S	BDP1_uc003kbn.1_Silent_p.S71S|BDP1_uc003kbo.2_Silent_p.S71S	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	71	Interaction with ZBTB43.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		ATTTCAACAGTACTGAAAAGA	0.373													5	307					0	0	0.001168	0	0		C	70754406	C	C	70754406	2	2	160	1	0	0	0	0	0	0	0	1	1396	1652	57	3		3	BDP1	5	70754406	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2263884	70754406	110160854	349	87619											
ZNF366	167465	broad.mit.edu	37	chr5	71757157	71757157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgggggaggttcatacCgaaactgggaaaatggccct	10	8	13	10	1	1	0	1	0	0	0	2	3	2	2	3	5	2	1	3	5	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:71757157C>T	uc003kce.1	-	2	353	c.167G>A	c.(166-168)CGG>CAG	p.R56Q		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	56					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		AGGTTCATACCGAAACTGGGA	0.592													50	103					0	0	0.01441	0	0		T	71757157	T	T	71757157	3	4	160	1	0	0	0	0	1	0	0	0	17895	652	23	1	2083	1	ZNF366	5	71757157	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1002751	71757157	109158103	350	87620											
GFM2	84340	broad.mit.edu	37	chr5	74026203	74026203	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ataatctctatatgtaactcCcccataccacacagaacagt	15	10	3	13	0	1	1	0	0	1	1	3	1	2	1	3	0	3	1	3	0	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:74026203C>A	uc003kdh.1	-	17	1912	c.1608G>T	c.(1606-1608)GGG>GGT	p.G536G	GFM2_uc003kdi.1_Silent_p.G489G|GFM2_uc010izj.1_Silent_p.G568G|GFM2_uc010izk.1_Intron	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	536					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		TATGTAACTCCCCCATACCAC	0.378													27	80					8.24728e-16	9.00227e-16	0.004656	1	0		A	74026203	A	A	74026203	2	1	160	1	0	0	0	0	0	0	0	1	6357	610	22	5		5	GFM2	5	74026203	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2269046	74026203	106889057	351	87621											
RASGRF2	5924	broad.mit.edu	37	chr5	80382721	80382721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccatcgaaagaatgatcGtggagggctgtgacatcttg	10	11	13	7	2	1	3	0	2	1	1	3	5	1	4	1	2	1	1	1	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:80382721G>A	uc003kha.1	+	9	1339	c.1339G>A	c.(1339-1341)GTG>ATG	p.V447M	RASGRF2_uc011ctn.1_RNA|RASGRF2_uc003khb.1_Missense_Mutation_p.V275M	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	447					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		AAGAATGATCGTGGAGGGCTG	0.507													5	83					0	0	0.000602	0	0		A	80382721	A	A	80382721	3	1	160	1	0	0	0	0	1	0	0	0	13098	1145	40	1	1373	1	RASGRF2	5	80382721	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6356518	80382721	100532539	352	87622											
VCAN	1462	broad.mit.edu	37	chr5	82817797	82817797	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cacacaacttcagcattcaaGccatcttccgcgatcactaa	13	9	4	15	2	4	0	3	0	1	0	5	1	5	0	2	0	3	1	2	0	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:82817797G>T	uc003kii.3	+	7	4028	c.3672G>T	c.(3670-3672)AAG>AAT	p.K1224N	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.K1224N|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1224	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CAGCATTCAAGCCATCTTCCG	0.423													73	182					2.69673e-31	3.03302e-31	0.01441	1	0		T	82817797	T	T	82817797	3	4	160	1	0	0	0	0	1	0	0	0	17164	962	34	5	3694	5	VCAN	5	82817797	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2435076	82817797	98097463	353	87623											
SLCO4C1	353189	broad.mit.edu	37	chr5	101631731	101631731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcctcaaactcggacagcGacagtgaccggagcttctct	9	8	9	15	3	2	1	1	1	1	0	5	4	3	3	3	2	3	1	3	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:101631731G>A	uc003knm.2	-	1	523	c.236C>T	c.(235-237)TCG>TTG	p.S79L		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	79	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		CTCGGACAGCGACAGTGACCG	0.582													18	70					0	0	0.00278	0	0		A	101631731	A	A	101631731	3	1	160	1	0	0	0	0	1	0	0	0	14755	1059	37	1	1990	1	SLCO4C1	5	101631731	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	18813934	101631731	79283529	354	87624											
SLCO6A1	133482	broad.mit.edu	37	chr5	101815974	101815974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattaaaaaggaggaagctaCaaaccatattactttttttc	16	14	5	6	0	0	0	0	0	0	0	1	2	0	2	1	2	4	1	1	2	9	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:101815974C>T	uc003knn.2	-	2	695	c.523G>A	c.(523-525)GTA>ATA	p.V175I	SLCO6A1_uc003kno.2_Missense_Mutation_p.V175I|SLCO6A1_uc003knp.2_Missense_Mutation_p.V175I|SLCO6A1_uc003knq.2_Missense_Mutation_p.V175I	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	175	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GAGGAAGCTACAAACCATATT	0.338													6	208					0	0	0.001168	0	0		T	101815974	T	T	101815974	3	4	160	1	0	0	0	0	1	0	0	0	14757	478	17	4	1684	4	SLCO6A1	5	101815974	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	184243	101815974	79099286	355	87625											
APC	324	broad.mit.edu	37	chr5	112103087	112103087	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaagaacttgagaaagagaGgtaacttttcttcatatagt	16	12	9	4	0	2	4	1	1	1	4	2	6	2	4	0	1	2	1	0	1	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:112103087G>T	uc010jby.2	+	4	802	c.422G>T	c.(421-423)AGG>ATG	p.R141M	APC_uc011cvt.1_Missense_Mutation_p.R151M|APC_uc003kpz.3_Missense_Mutation_p.R141M|APC_uc003kpy.3_Missense_Mutation_p.R141M|APC_uc010jbz.2_Translation_Start_Site	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	141	Leu-rich.|Potential.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R141fs*6(2)|p.R141S(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GAGAAAGAGAGGTAACTTTTC	0.333		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			7	100					8.12818e-05	8.43389e-05	0.001984	1	0		T	112103087	T	T	112103087	3	4	160	1	0	0	0	0	1	0	0	0	763	1014	35	5	432	5	APC	5	112103087	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	10287113	112103087	68812173	356	87626											
YTHDC2	64848	broad.mit.edu	37	chr5	112860771	112860771	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatttgactcataatacaaaAcatgctgttaggagcctaat	16	12	6	7	0	1	1	1	1	0	0	1	2	1	2	1	1	4	2	1	1	7	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:112860771A>G	uc003kqn.2	+	3	555	c.372A>G	c.(370-372)AAA>AAG	p.K124K	YTHDC2_uc010jce.1_Silent_p.K124K|YTHDC2_uc010jcf.1_Intron	NM_022828	NP_073739	Q9H6S0	YTDC2_HUMAN	YTH domain containing 2	124							ATP binding|ATP-dependent helicase activity|nucleic acid binding			skin(2)|central_nervous_system(1)	3		all_cancers(142;7.69e-05)|all_epithelial(76;6.42e-07)|Colorectal(10;0.00278)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Lung NSC(810;0.143)|all_lung(232;0.163)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;7.2e-08)|Epithelial(69;8.83e-08)|all cancers(49;6.9e-06)|COAD - Colon adenocarcinoma(37;0.0458)|Colorectal(14;0.0594)		ATAATACAAAACATGCTGTTA	0.373													29	88					0	0	0.005443	0	0		G	112860771	G	G	112860771	2	3	160	1	0	0	0	0	0	0	0	1	17523	40	2	3		3	YTHDC2	5	112860771	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	757684	112860771	68054489	357	87627											
ZNF608	57507	broad.mit.edu	37	chr5	123984438	123984438	+	Missense_Mutation	SNP	A	G	G	1	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	gattaacactggagaagagcAgccttggtccaaaaaagtag	16	7	11	7	0	0	2	0	0	0	2	1	4	1	2	2	2	3	2	2	2	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:123984438A>G	uc003ktq.1	-	4	1762	c.1639T>C	c.(1639-1641)TGC>CGC	p.C547R	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.C547R|ZNF608_uc003ktt.1_Missense_Mutation_p.C547R	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	547						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		GGAGAAGAGCAGCCTTGGTCC	0.498													7	212					0	0	0.00308	0	0		G	123984438	G	G	123984438	3	3	160	1	0	0	0	0	1	0	0	0	18059	188	7	3	2923	3	ZNF608	5	123984438	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	11123667	123984438	56930822	358	87628											
IL3	3562	broad.mit.edu	37	chr5	131398085	131398085	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgcatcagcaattgagagCattcttaaagtatgtgaagc	15	10	9	7	1	2	2	1	2	1	1	2	3	2	2	0	0	4	4	0	0	6	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:131398085C>T	uc003kwe.1	+	3	338	c.285C>T	c.(283-285)AGC>AGT	p.S95S		NM_000588	NP_000579	P08700	IL3_HUMAN	interleukin 3 precursor	95					cell-cell signaling|immune response|nervous system development|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of survival gene product expression|positive regulation of tyrosine phosphorylation of Stat5 protein	extracellular space	cytokine activity|growth factor activity|interleukin-3 receptor binding			ovary(2)|central_nervous_system(1)	3		all_cancers(142;7.42e-12)|Lung NSC(810;4.25e-07)|all_lung(232;1.93e-06)|Prostate(281;0.00741)|Breast(839;0.0544)|Lung SC(612;0.122)|Ovarian(839;0.223)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	GBM - Glioblastoma multiforme(465;0.0161)|Lung(113;0.105)	Amlexanox(DB01025)	CAATTGAGAGCATTCTTAAAG	0.517													91	205					0	0	0.01441	0	0		T	131398085	T	T	131398085	2	4	160	1	0	0	0	0	0	0	0	1	7705	709	25	2		2	IL3	5	131398085	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	7413647	131398085	49517175	359	87629											
FSTL4	23105	broad.mit.edu	37	chr5	132534817	132534817	+	Frame_Shift_Del	DEL	C	-	-																															cccacccacaccactgtggtCcccccctttatacctgacac																								rs140495211		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:132534817delC	uc003kyn.1	-	16	2717	c.2499delG	c.(2497-2499)GGGfs	p.G833fs	FSTL4_uc003kym.1_Frame_Shift_Del_p.G482fs	NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	833						extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCACTGTGGTCCCCCCCTTTA	0.582													35	81	---	---	---	---						.	-	132534817	-	-	132534817	7	5	160	1	0	1	0	1	0	0	0	0	6093	842	30	0	33	0	FSTL4	5	132534817	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	1136732	132534817	48380443	360	87630											
VDAC1	7416	broad.mit.edu	37	chr5	133328691	133328691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccaagatcggcatacgtggGtggcacagccatcttctgct	8	9	12	12	2	2	1	0	0	2	1	3	1	2	1	2	3	3	3	2	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:133328691G>A	uc003kyp.1	-	2	112	c.13C>T	c.(13-15)CCC>TCC	p.P5S	VDAC1_uc003kyq.1_Missense_Mutation_p.P5S|VDAC1_uc003kyr.1_Missense_Mutation_p.P5S	NM_003374	NP_003365	P21796	VDAC1_HUMAN	voltage-dependent anion channel 1	5					apoptosis|interspecies interaction between organisms	mitochondrial nucleoid|mitochondrial outer membrane|plasma membrane|pore complex	porin activity|protein binding|voltage-gated anion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)		Dihydroxyaluminium(DB01375)	GCATACGTGGGTGGCACAGCC	0.428													29	67					0	0	0.010818	0	0		A	133328691	A	A	133328691	3	1	160	1	0	0	0	0	1	0	0	0	17172	1261	44	4	870	4	VDAC1	5	133328691	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	793874	133328691	47586569	361	87631											
TCF7	6932	broad.mit.edu	37	chr5	133473836	133473836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcccacccctgcacctgcGgacatcagccagaagcaagg	11	4	9	17	1	1	1	1	0	0	1	2	2	2	2	5	2	4	2	5	2	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:133473836G>A	uc003kyt.2	+	4	724	c.528G>A	c.(526-528)GCG>GCA	p.A176A	TCF7_uc003kyu.1_Silent_p.A61A|TCF7_uc003kyv.2_Silent_p.A61A|TCF7_uc003kyw.2_Silent_p.A61A|TCF7_uc003kyx.2_5'UTR|TCF7_uc003kyy.2_Silent_p.A61A|TCF7_uc003kyz.2_Silent_p.A61A|TCF7_uc003kza.2_Silent_p.A61A	NM_003202	NP_003193	P36402	TCF7_HUMAN	transcription factor 7 (T-cell specific,	176					cellular response to interleukin-4|immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription regulatory region DNA binding				0		Breast(839;0.058)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CTGCACCTGCGGACATCAGCC	0.582													13	40					0	0	0.00499	0	0		A	133473836	A	A	133473836	2	1	160	1	0	0	0	0	0	0	0	1	15721	1103	39	1		1	TCF7	5	133473836	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	145145	133473836	47441424	362	87632											
SAR1B	51128	broad.mit.edu	37	chr5	133948427	133948427	+	Silent	SNP	A	G	G	1	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	gttgtaaacgtcatgccagcAatggtcagttcttcggaagc	10	11	11	9	2	3	0	2	0	1	0	4	1	3	1	1	2	4	4	1	2	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:133948427A>G	uc003kzq.2	-	5	445	c.198T>C	c.(196-198)ATT>ATC	p.I66I	SAR1B_uc003kzr.2_Silent_p.I66I	NM_001033503	NP_001028675	Q9Y6B6	SAR1B_HUMAN	SAR1a gene homolog 2	66					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi cisterna membrane	GTP binding|GTPase activity|metal ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TCATGCCAGCAATGGTCAGTT	0.214													60	140					0	0	0.01441	0	0		G	133948427	G	G	133948427	2	3	160	1	0	0	0	0	0	0	0	1	13865	126	5	3		3	SAR1B	5	133948427	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	474591	133948427	46966833	363	87633											
BRD8	10902	broad.mit.edu	37	chr5	137501568	137501568	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagtctcaaaatccagctcTtcacctgtgtaagacacagc	13	9	6	13	0	3	1	2	0	2	1	5	1	4	1	2	0	2	2	2	0	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:137501568T>G	uc003lcf.1	-	11	1282	c.1227A>C	c.(1225-1227)GAA>GAC	p.E409D	BRD8_uc003lcc.1_RNA|BRD8_uc011cyl.1_Missense_Mutation_p.E188D|BRD8_uc003lcg.2_Missense_Mutation_p.E482D|BRD8_uc003lci.2_Missense_Mutation_p.E412D|BRD8_uc003lch.2_Missense_Mutation_p.E303D|BRD8_uc011cym.1_Missense_Mutation_p.E393D|BRD8_uc010jer.1_Missense_Mutation_p.E378D|BRD8_uc011cyn.1_Missense_Mutation_p.E368D	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	409					cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AATCCAGCTCTTCACCTGTGT	0.468													41	103					0	0	0.007835	0	0		G	137501568	G	G	137501568	3	3	160	1	0	0	0	0	1	0	0	0	1509	1606	56	5	2612	5	BRD8	5	137501568	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	3553141	137501568	43413692	364	87634											
PCDHA1	56147	broad.mit.edu	37	chr5	140168055	140168055	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcggtgctcagtgccgcCcactgagggtgcgtatgtgc	4	9	16	12	3	1	1	1	1	0	0	1	1	1	1	2	2	5	3	2	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140168055C>A	uc003lhb.2	+	1	2180	c.2180C>A	c.(2179-2181)CCC>CAC	p.P727H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.P727H	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	727	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGTGCCGCCCACTGAGGGT	0.642													16	50					4.7546e-09	5.05648e-09	0.004007	1	0		A	140168055	A	A	140168055	3	1	160	1	0	0	0	0	1	0	0	0	11538	623	22	5	2182	5	PCDHA1	5	140168055	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2666487	140168055	40747205	365	87635											
PCDHA3	56145	broad.mit.edu	37	chr5	140180869	140180869	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctcggaggtggggagcggCcagctccactactccgtctc	5	7	14	15	3	1	0	0	0	1	0	5	2	3	2	4	5	3	1	4	5	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140180869C>T	uc003lhf.2	+	1	87	c.87C>T	c.(85-87)GGC>GGT	p.G29G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.G29G	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	29					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGGAGCGGCCAGCTCCACT	0.642													34	83					0	0	0.012213	0	0		T	140180869	T	T	140180869	2	4	160	1	0	0	0	0	0	0	0	1	11544	726	26	2		2	PCDHA3	5	140180869	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	12814	140180869	40734391	366	87636											
PCDHA3	56145	broad.mit.edu	37	chr5	140182434	140182434	+	Missense_Mutation	SNP	T	G	G	0	1	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	tctgggcagcaacgtgacgcTgcaggtgttcgtgctggacg	6	9	16	10	4	1	1	0	1	1	0	2	2	1	2	0	3	4	6	0	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140182434T>G	uc003lhf.2	+	1	1652	c.1652T>G	c.(1651-1653)CTG>CGG	p.L551R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.L551R	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	551	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGTGACGCTGCAGGTGTTC	0.682													26	65					0	0	0.003755	0	0		G	140182434	G	G	140182434	3	3	160	1	0	0	0	0	1	0	0	0	11544	1580	55	5	1654	5	PCDHA3	5	140182434	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1565	140182434	40732826	367	87637											
PCDHA7	56141	broad.mit.edu	37	chr5	140215070	140215070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgcccaaccaggtaccGtcatcacattgattagcgtg	11	8	10	12	3	2	1	2	1	0	0	2	2	2	2	3	2	3	1	3	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140215070G>A	uc003lhq.2	+	1	1102	c.1102G>A	c.(1102-1104)GTC>ATC	p.V368I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.V368I	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	368	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCAGGTACCGTCATCACATT	0.507													81	159					0	0	0.01441	0	0		A	140215070	A	A	140215070	3	1	160	1	0	0	0	0	1	0	0	0	11548	1145	40	1	1104	1	PCDHA7	5	140215070	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	32636	140215070	40700190	368	87638											
PCDHA9	9752	broad.mit.edu	37	chr5	140230119	140230119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggcgccaaagtcatcgtCgcgggcgtcagtgggtgcca	7	6	15	13	5	2	0	2	0	0	0	4	0	2	0	3	3	1	0	3	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140230119C>T	uc003lhu.2	+	1	2763	c.2039C>T	c.(2038-2040)TCG>TTG	p.S680L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.S680L	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	680	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAGTCATCGTCGCGGGCGTCA	0.652													12	36					0	0	0.00499	0	0		T	140230119	T	T	140230119	3	4	160	1	0	0	0	0	1	0	0	0	11550	893	31	1	2041	1	PCDHA9	5	140230119	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	15049	140230119	40685141	369	87639											
PCDHA12	56137	broad.mit.edu	37	chr5	140256419	140256419	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaacgacaatgcgcctgcGttcgcgcagcccgagtacac	9	6	12	14	6	0	1	0	1	0	0	1	3	0	1	2	0	5	3	2	0	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140256419G>A	uc003lic.2	+	1	1489	c.1362G>A	c.(1360-1362)GCG>GCA	p.A454A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.A454A	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	454	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGCGCCTGCGTTCGCGCAGC	0.652													48	79					0	0	0.01441	0	0		A	140256419	A	A	140256419	2	1	160	1	0	0	0	0	0	0	0	1	11541	1132	40	1		1	PCDHA12	5	140256419	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	26300	140256419	40658841	370	87640											
PCDHB6	56130	broad.mit.edu	37	chr5	140531448	140531448	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccacagaccgcggctcccCggcgttgagcagcgaggcgc	6	3	15	17	7	0	2	0	1	0	1	1	3	1	2	4	3	2	3	4	3	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140531448C>G	uc003lir.2	+	1	1610	c.1610C>G	c.(1609-1611)CCG>CGG	p.P537R	PCDHB6_uc011dah.1_Missense_Mutation_p.P401R	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	537	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCGGCTCCCCGGCGTTGAGC	0.672													18	48					0	0	0.012319	0	0		G	140531448	G	G	140531448	3	3	160	1	0	0	0	0	1	0	0	0	11565	652	23	5	1612	5	PCDHB6	5	140531448	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	275029	140531448	40383812	371	87641											
PCDHB16	57717	broad.mit.edu	37	chr5	140563826	140563826	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgcccttcgtgctgtacccGctgcagaacggctccgcgcc	4	8	11	18	6	0	1	0	0	0	1	3	1	1	1	4	1	4	5	4	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140563826G>A	uc003liv.2	+	1	2847	c.1692G>A	c.(1690-1692)CCG>CCA	p.P564P		NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	564	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCTGTACCCGCTGCAGAACG	0.721													4	36					0	0	0.001168	0	0		A	140563826	A	A	140563826	2	1	160	1	0	0	0	0	0	0	0	1	11560	1074	38	1		1	PCDHB16	5	140563826	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	32378	140563826	40351434	372	87642											
PCDHB9	56127	broad.mit.edu	37	chr5	140568792	140568792	+	Missense_Mutation	SNP	A	G	G	1	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	caggctgctgagcgagcgcgAcgcagccaagcacaggctgg	9	3	16	13	4	0	1	0	1	0	0	0	3	0	1	1	3	5	5	1	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140568792A>G	uc003liw.1	+	3	1901	c.1901A>G	c.(1900-1902)GAC>GGC	p.D634G		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	634	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCGAGCGCGACGCAGCCAAG	0.682													20	94					0	0	0.012213	0	0		G	140568792	G	G	140568792	3	3	160	1	0	0	0	0	1	0	0	0	11568	275	10	3	1902	3	PCDHB9	5	140568792	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4966	140568792	40346468	373	87643											
PCDHGB2	56103	broad.mit.edu	37	chr5	140739886	140739886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctcagcgtccgggacttgCcagcccggaagctgcgggtt	5	7	16	13	4	1	0	1	0	0	0	2	2	2	2	3	4	5	3	3	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140739886C>T	uc003ljs.1	+	1	184	c.184C>T	c.(184-186)CCA>TCA	p.P62S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.P62S	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	62	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGGGACTTGCCAGCCCGGAA	0.537													4	98					0	0	0.009096	0	0		T	140739886	T	T	140739886	3	4	160	1	0	0	0	0	1	0	0	0	11582	739	26	2	186	2	PCDHGB2	5	140739886	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	171094	140739886	40175374	374	87644											
PCDHGA7	56108	broad.mit.edu	37	chr5	140762928	140762928	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggggttcggtttccgttAagcgaggctggggatccaga	6	10	16	9	3	0	1	0	0	0	1	3	3	2	2	3	6	1	4	3	6	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140762928A>G	uc003lka.1	+	1	462	c.462A>G	c.(460-462)TTA>TTG	p.L154L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Silent_p.L154L	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	154	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTTTCCGTTAAGCGAGGCTG	0.473													25	52					0	0	0.004656	0	0		G	140762928	G	G	140762928	2	3	160	1	0	0	0	0	0	0	0	1	11578	359	13	3		3	PCDHGA7	5	140762928	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	23042	140762928	40152332	375	87645											
PCDHGB6	56100	broad.mit.edu	37	chr5	140789521	140789521	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacctcgctctgcagagccCggctacctagtgactaaggt	8	9	11	13	2	1	2	0	1	1	1	2	2	1	2	3	2	4	4	3	2	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140789521C>T	uc003lkj.1	+	1	1752	c.1752C>T	c.(1750-1752)CCC>CCT	p.P584P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.P584P	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	584	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCAGAGCCCGGCTACCTAG	0.632													7	15					0	0	0.00308	0	0		T	140789521	T	T	140789521	2	4	160	1	0	0	0	0	0	0	0	1	11586	639	23	1		1	PCDHGB6	5	140789521	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	26593	140789521	40125739	376	87646											
PCDHGB7	56099	broad.mit.edu	37	chr5	140798879	140798879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccagacttcgggctcaacGgccgtgtctcctactctctc	6	10	8	17	3	3	1	1	0	2	1	7	1	3	1	3	2	2	1	3	2	2	2	rs35892780		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140798879G>A	uc003lkn.1	+	1	1598	c.1453G>A	c.(1453-1455)GGC>AGC	p.G485S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.G485S|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	485	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGGCTCAACGGCCGTGTCTC	0.622													31	64					0	0	0.005524	0	0		A	140798879	A	A	140798879	3	1	160	1	0	0	0	0	1	0	0	0	11587	1116	39	1	1455	1	PCDHGB7	5	140798879	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	9358	140798879	40116381	377	87647											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811594	140811594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagctacaacatcacagtgaCcgccactgaccggggaaccc	12	5	9	15	2	1	2	1	2	0	0	1	3	1	3	4	2	4	1	4	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:140811594C>T	uc003lkt.1	+	1	1437	c.1268C>T	c.(1267-1269)ACC>ATC	p.T423I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.T423I	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	423	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATCACAGTGACCGCCACTGAC	0.507													26	46					0	0	0.00333	0	0		T	140811594	T	T	140811594	3	4	160	1	0	0	0	0	1	0	0	0	11572	507	18	4	1270	4	PCDHGA12	5	140811594	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	12715	140811594	40103666	378	87648											
STK32A	202374	broad.mit.edu	37	chr5	146619223	146619223	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgaacacttcaagaaaacCaccagtgtttgatgaaaatg	17	8	8	8	1	1	3	1	2	0	1	1	4	1	3	2	0	3	1	2	0	6	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:146619223C>G	uc010jgn.1	+	2	306	c.26C>G	c.(25-27)CCA>CGA	p.P9R	STK32A_uc003lol.3_Missense_Mutation_p.P9R|STK32A_uc003lom.2_Missense_Mutation_p.P9R|STK32A_uc011dbw.1_Missense_Mutation_p.P9R	NM_001112724	NP_001106195	Q8WU08	ST32A_HUMAN	serine/threonine kinase 32A isoform 1	9							ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAAGAAAACCACCAGTGTTT	0.378													5	17					0	0	0.000602	0	0		G	146619223	G	G	146619223	3	3	160	1	0	0	0	0	1	0	0	0	15322	594	21	5	28	5	STK32A	5	146619223	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5807629	146619223	34296037	379	87649											
PDGFRB	5159	broad.mit.edu	37	chr5	149514442	149514442	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcataggggacaggcagtgCaacgtcccctttcttctcgt	8	11	10	12	2	3	0	1	0	2	0	5	1	4	1	2	3	2	2	2	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:149514442C>A	uc003lro.2	-	4	971	c.502G>T	c.(502-504)GCA>TCA	p.A168S	PDGFRB_uc010jhd.2_5'UTR|PDGFRB_uc011dcg.1_Missense_Mutation_p.A168S	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	168	Extracellular (Potential).|Ig-like C2-type 2.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	ACAGGCAGTGCAACGTCCCCT	0.498			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								6	201					0.00198382	0.00202999	0.001984	1	0		A	149514442	A	A	149514442	3	1	160	1	0	0	0	0	1	0	0	0	11681	710	25	5	2898	5	PDGFRB	5	149514442	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2895219	149514442	31400818	380	87650											
CD74	972	broad.mit.edu	37	chr5	149782828	149782828	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttgggcctgaatgaacccgGgtggacagcagggatgtggc	8	7	17	9	1	0	2	0	2	0	0	0	4	0	4	2	5	2	1	2	5	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:149782828G>T	uc003lsc.2	-	7	684	c.673C>A	c.(673-675)CCG>ACG	p.P225T	CD74_uc003lsb.2_Intron|CD74_uc003lse.2_Intron|CD74_uc003lsd.2_Intron|CD74_uc003lsf.1_Missense_Mutation_p.P225T	NM_001025159	NP_001020330	P04233	HG2A_HUMAN	CD74 antigen isoform a	225	Thyroglobulin type-1.|Extracellular (Potential).				antigen processing and presentation of endogenous antigen|cell proliferation|immunoglobulin mediated immune response|intracellular protein transport|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of peptide secretion|positive regulation of B cell proliferation|positive regulation of chemokine (C-X-C motif) ligand 2 production|positive regulation of cytokine-mediated signaling pathway|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of macrophage cytokine production|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation|prostaglandin biosynthetic process|protein complex assembly|regulation of macrophage activation	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|lysosome|receptor complex	beta-amyloid binding|cytokine receptor activity|identical protein binding|MHC class II protein binding			breast(1)	1		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AATGAACCCGGGTGGACAGCA	0.577			T	ROS1	NSCLC								50	172					1.67886e-27	1.8792e-27	0.01441	1	0		T	149782828	T	T	149782828	3	4	160	1	0	0	0	0	1	0	0	0	3038	1232	43	5	229	5	CD74	5	149782828	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	268386	149782828	31132432	381	87651											
SYNPO	11346	broad.mit.edu	37	chr5	150029083	150029083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccagggggaggtaggcGtggaggaggagcccttcgca	8	4	21	8	2	0	0	0	0	0	0	1	5	0	5	2	8	1	2	2	8	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:150029083G>A	uc003lsn.2	+	3	2352	c.1978G>A	c.(1978-1980)GTG>ATG	p.V660M	SYNPO_uc003lso.3_Missense_Mutation_p.V416M|SYNPO_uc003lsp.2_Missense_Mutation_p.V416M	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	660					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGAGGTAGGCGTGGAGGAGGA	0.667													6	16					0	0	0.001984	0	0		A	150029083	A	A	150029083	3	1	160	1	0	0	0	0	1	0	0	0	15481	1145	40	1	1984	1	SYNPO	5	150029083	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	246255	150029083	30886177	382	87652											
SLC36A2	153201	broad.mit.edu	37	chr5	150723790	150723790	+	Missense_Mutation	SNP	A	C	C	1	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	gtcccaggatccctgtgcccAtgttgcctttcaccaggtga	6	11	10	14	0	1	1	1	1	0	0	3	2	3	2	5	2	2	1	5	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:150723790A>C	uc003lty.2	-	2	333	c.203T>G	c.(202-204)ATG>AGG	p.M68R	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_RNA|SLC36A2_uc003lua.2_5'UTR|SLC36A2_uc010jhv.2_Missense_Mutation_p.M68R|SLC36A2_uc011dct.1_Missense_Mutation_p.M68R	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	68	Helical; (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCTGTGCCCATGTTGCCTTT	0.552													32	44					0	0	0.00874	0	0		C	150723790	C	C	150723790	3	2	160	1	0	0	0	0	1	0	0	0	14619	217	8	5	1284	5	SLC36A2	5	150723790	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	694707	150723790	30191470	383	87653											
CCDC99	54908	broad.mit.edu	37	chr5	169021159	169021161	+	In_Frame_Del	DEL	AAG	-	-																															tgttaaatagaccaccctcaAagaagaagtgaatgaactac																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:169021159_169021161delAAG	uc003mae.3	+	5	821_823	c.542_544delAAG	c.(541-546)AAAGAA>AAA	p.E183del	CCDC99_uc010jjj.2_In_Frame_Del_p.E112del|CCDC99_uc011deq.1_Intron|CCDC99_uc010jjk.2_Intron	NM_017785	NP_060255	Q96EA4	SPDLY_HUMAN	coiled-coil domain containing 99	183	Potential.				cell division|establishment of mitotic spindle orientation|mitotic metaphase plate congression|mitotic prometaphase|protein localization to kinetochore	condensed chromosome outer kinetochore|cytosol|microtubule organizing center|nucleus|spindle pole	kinetochore binding|protein binding			ovary(1)|liver(1)	2	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACCACCCTCAAAGAAGAAGTGAA	0.399													28	53	---	---	---	---						.	-	169021161	-	-	169021159	7	5	160	1	0	1	0	1	0	0	0	0	2879	14	1	0	556	0	CCDC99	5	169021159	In_Frame_Del	DEL	AAG	TCGA-CG-5733-01A-11D-1600-08	18297369	169021159	11894101	384	87654											
FGF18	8817	broad.mit.edu	37	chr5	170863205	170863205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtaccagctctacagcCggaccagtgggaaacacatc	11	6	11	13	1	1	0	0	0	1	0	2	2	1	2	3	3	5	3	3	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:170863205C>T	uc003mbk.2	+	3	715	c.178C>T	c.(178-180)CGG>TGG	p.R60W		NM_003862	NP_003853	O76093	FGF18_HUMAN	fibroblast growth factor 18 precursor	60					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell proliferation	extracellular space|nucleolus	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GCTCTACAGCCGGACCAGTGG	0.627													6	23					0	0	0.001984	0	0		T	170863205	T	T	170863205	3	4	160	1	0	0	0	0	1	0	0	0	5860	643	23	1	188	1	FGF18	5	170863205	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1842046	170863205	10052055	385	87655											
CPEB4	80315	broad.mit.edu	37	chr5	173380104	173380104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttaattagtggagcttgcGatgataatggatcggctata	11	14	11	5	2	1	1	0	1	1	0	2	4	1	3	0	3	2	2	0	3	5	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:173380104G>A	uc003mcs.3	+	9	3197	c.1791G>A	c.(1789-1791)GCG>GCA	p.A597A	CPEB4_uc010jju.1_Silent_p.A572A|CPEB4_uc010jjv.2_Silent_p.A580A|CPEB4_uc011dfg.1_Silent_p.A572A|CPEB4_uc003mct.3_Silent_p.A207A|CPEB4_uc003mcu.3_Silent_p.A190A	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	597	RRM 2.						nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TGGAGCTTGCGATGATAATGG	0.428													87	196					0	0	0.01441	0	0		A	173380104	A	A	173380104	2	1	160	1	0	0	0	0	0	0	0	1	3806	1045	37	1		1	CPEB4	5	173380104	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2516899	173380104	7535156	386	87656											
HRH2	3274	broad.mit.edu	37	chr5	175110384	175110384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcttgaaccgccggctcCgcaacctgaccaattgtttc	7	10	10	14	3	0	2	0	2	0	0	2	2	1	2	5	2	2	4	5	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:175110384C>T	uc003mdd.2	+	1	1921	c.148C>T	c.(148-150)CGC>TGC	p.R50C	HRH2_uc003mdc.3_Missense_Mutation_p.R50C	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	50	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	CCGCCGGCTCCGCAACCTGAC	0.582													4	143					0	0	0.001984	0	0		T	175110384	T	T	175110384	3	4	160	1	0	0	0	0	1	0	0	0	7372	652	23	1	150	1	HRH2	5	175110384	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1730280	175110384	5804876	387	87657											
EIF4E1B	253314	broad.mit.edu	37	chr5	176070250	176070250	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaagtcaagctggagctGcaccccttgcagaacaggta	12	7	12	10	0	1	1	1	0	0	1	1	3	1	3	2	3	5	5	2	3	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:176070250G>A	uc010jkf.1	+	4	767	c.183G>A	c.(181-183)CTG>CTA	p.L61L		NM_001099408	NP_001092878	A6NMX2	I4E1B_HUMAN	eukaryotic translation initiation factor 4E	61					regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGCTGGAGCTGCACCCcttgc	0.328													15	39					0	0	0.00499	0	0		A	176070250	A	A	176070250	2	1	160	1	0	0	0	0	0	0	0	1	5037	1306	46	2		2	EIF4E1B	5	176070250	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	959866	176070250	4845010	388	87658											
MAML1	9794	broad.mit.edu	37	chr5	179193438	179193438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaataagagttcccctcGgcccggaggcccctacctcc	7	8	10	16	2	0	2	0	1	0	1	3	3	2	3	7	3	1	1	7	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:179193438G>A	uc003mkm.2	+	2	1690	c.1427G>A	c.(1426-1428)CGG>CAG	p.R476Q	MAML1_uc003mkn.1_Missense_Mutation_p.R476Q	NM_014757	NP_055572	Q92585	MAML1_HUMAN	mastermind-like 1	476					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	peptide antigen binding|protein kinase binding|transcription coactivator activity			lung(4)|ovary(2)	6	all_cancers(89;0.000197)|all_epithelial(37;6.7e-05)|Renal(175;0.000159)|Lung NSC(126;0.00121)|all_lung(126;0.00218)	all_cancers(40;0.0308)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGTTCCCCTCGGCCCGGAGGC	0.557													25	55					0	0	0.00333	0	0		A	179193438	A	A	179193438	3	1	160	1	0	0	0	0	1	0	0	0	9223	1116	39	1	1433	1	MAML1	5	179193438	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3123188	179193438	1721822	389	87659											
TRIM52	84851	broad.mit.edu	37	chr5	180687467	180687467	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtcccacatatagtctacGttgtcccaattagttatacc	10	14	5	12	2	1	0	0	0	1	0	4	0	3	0	3	0	2	2	3	0	7	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr5:180687467G>A	uc003mnp.2	-	1	653	c.348C>T	c.(346-348)AAC>AAT	p.N116N	uc003mnq.2_5'Flank	NM_032765	NP_116154	Q96A61	TRI52_HUMAN	tripartite motif-containing 52	116	Glu-rich.					intracellular	zinc ion binding				0	all_cancers(89;8.79e-06)|all_epithelial(37;1.13e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0654)	all_cancers(40;0.0106)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0588)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.232)		TATAGTCTACGTTGTCCCAAT	0.478													9	301					0	0	0.004482	0	0		A	180687467	A	A	180687467	2	1	160	1	0	0	0	0	0	0	0	1	16553	1136	40	1		1	TRIM52	5	180687467	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1494029	180687467	227793	390	87660											
FARS2	10667	broad.mit.edu	37	chr6	5404836	5404836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaacaaagttctcgctctgCgcataaacaagagacacaca	16	7	7	11	2	2	2	0	1	2	1	3	3	2	2	0	0	3	3	0	0	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:5404836C>T	uc010jnv.1	+	3	1010	c.674C>T	c.(673-675)GCG>GTG	p.A225V	FARS2_uc003mwr.2_Missense_Mutation_p.A225V|FARS2_uc003mws.1_Missense_Mutation_p.A225V	NM_006567	NP_006558	O95363	SYFM_HUMAN	phenylalanyl-tRNA synthetase 2 precursor	225					phenylalanyl-tRNA aminoacylation|tRNA processing	mitochondrial matrix|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0	Ovarian(93;0.11)	all_hematologic(90;0.0104)			L-Phenylalanine(DB00120)	TCTCGCTCTGCGCATAAACAA	0.418													10	128					0	0	0.010729	0	0		T	5404836	T	T	5404836	3	4	160	1	0	0	0	0	1	0	0	0	5692	768	27	1	680	1	FARS2	6	5404836	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		5404836	165710231	391	87661											
ERVFRDE1	405754	broad.mit.edu	37	chr6	11105335	11105335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataggaaatatgtaattccGcctctatgcttgtccattct	10	15	7	9	1	2	0	0	0	2	0	4	2	4	1	3	1	1	2	3	1	5	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:11105335G>A	uc003mzt.2	-	2	579	c.209C>T	c.(208-210)GCG>GTG	p.A70V	LOC221710_uc003mzr.2_Intron|LOC221710_uc011dio.1_Intron	NM_207582	NP_997465	P60508	EFRD1_HUMAN	syncytin 2	70	Extracellular (Potential).					integral to membrane|plasma membrane|virion					0						ATGTAATTCCGCCTCTATGCT	0.458													13	203					0	0	0.013537	0	0		A	11105335	A	A	11105335	3	1	160	1	0	0	0	0	1	0	0	0	5254	1087	38	1	1411	1	ERVFRDE1	6	11105335	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5700499	11105335	160009732	392	87662											
DCDC2	51473	broad.mit.edu	37	chr6	24357791	24357791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcggggtgtagatgttcCtgacggccccaaagggtgcc	6	8	15	12	3	0	2	0	1	0	1	2	2	2	2	5	4	1	2	5	4	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:24357791C>T	uc003ndx.2	-	1	490	c.188G>A	c.(187-189)AGG>AAG	p.R63K	DCDC2_uc003ndy.2_Missense_Mutation_p.R63K|KAAG1_uc003ndz.1_5'UTR	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	63	Doublecortin 1.				cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				GTAGATGTTCCTGACGGCCCC	0.617													17	32					0	0	0.006122	0	0		T	24357791	T	T	24357791	3	4	160	1	0	0	0	0	1	0	0	0	4288	681	24	4	1282	4	DCDC2	6	24357791	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	13252456	24357791	146757276	393	87663											
HIST1H1D	3007	broad.mit.edu	37	chr6	26234786	26234786	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcttcctaggcttggctgCgccagcctttttggccttgg	3	13	13	12	1	0	0	0	0	0	0	1	0	1	0	4	5	2	3	4	5	1	6	rs115924520	by1000genomes	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:26234786C>G	uc003nhd.2	-	1	431	c.376G>C	c.(376-378)GCA>CCA	p.A126P		NM_005320	NP_005311	P16402	H13_HUMAN	histone cluster 1, H1d	126					nucleosome assembly	nucleosome|nucleus	DNA binding			skin(1)	1		all_hematologic(11;0.0945)|Acute lymphoblastic leukemia(11;0.167)				GGCTTGGCTGCGCCAGCCTTT	0.562													15	45					0	0	0.004656	0	0		G	26234786	G	G	26234786	3	3	160	1	0	0	0	0	1	0	0	0	7141	768	27	5	293	5	HIST1H1D	6	26234786	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1876995	26234786	144880281	394	87664											
BTN1A1	696	broad.mit.edu	37	chr6	26502055	26502055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacggcatcgccaaggggcGcgtggccttgaggatccgtg	6	6	18	11	5	0	1	0	1	0	0	2	3	1	3	3	6	0	1	3	6	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:26502055G>A	uc003nif.3	+	2	337	c.317G>A	c.(316-318)CGC>CAC	p.R106H		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	106	Extracellular (Potential).|Ig-like V-type 1.					extracellular region|integral to plasma membrane	receptor activity	p.R106S(1)		ovary(1)|skin(1)	2						GCCAAGGGGCGCGTGGCCTTG	0.657													4	30					0	0	0.009096	0	0		A	26502055	A	A	26502055	3	1	160	1	0	0	0	0	1	0	0	0	1562	1087	38	1	323	1	BTN1A1	6	26502055	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	267269	26502055	144613012	395	87665											
HIST1H2BN	8341	broad.mit.edu	37	chr6	27806590	27806590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtgctgaagcaggtccacCccgacaccggtatctcgtcc	8	7	11	15	3	1	1	0	1	1	0	4	2	3	1	5	3	2	3	5	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:27806590C>T	uc003njv.2	+	1	151	c.151C>T	c.(151-153)CCC>TCC	p.P51S	HIST1H2AK_uc003njs.2_5'Flank|HIST1H2BN_uc003njt.1_RNA|HIST1H2BN_uc003nju.1_Missense_Mutation_p.P51S	NM_003520	NP_003511	Q99877	H2B1N_HUMAN	histone cluster 1, H2bn	51					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCAGGTCCACCCCGACACCGG	0.597													105	247					0	0	0.01441	0	0		T	27806590	T	T	27806590	3	4	160	1	0	0	0	0	1	0	0	0	7169	623	22	4	153	4	HIST1H2BN	6	27806590	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1304535	27806590	143308477	396	87666											
ZSCAN16	80345	broad.mit.edu	37	chr6	28094637	28094637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aaggccatatgaatcactgaCtgtccagctccatcccaaaa	14	8	6	13	0	1	2	1	2	0	0	4	2	4	2	4	1	1	1	4	1	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:28094637C>T	uc003nkm.2	+	3	564	c.464C>T	c.(463-465)ACT>ATT	p.T155I	uc010jqw.1_Intron|uc003nkk.1_Intron|uc003nkl.1_Intron|ZSCAN16_uc011dky.1_Missense_Mutation_p.T155I	NM_025231	NP_079507	Q9H4T2	ZSC16_HUMAN	zinc finger and SCAN domain containing 16	155					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1						GAATCACTGACTGTCCAGCTC	0.507													12	38					0	0	0.013537	0	0		T	28094637	T	T	28094637	3	4	160	1	0	0	0	0	1	0	0	0	18254	565	20	4	470	4	ZSCAN16	6	28094637	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	288047	28094637	143020430	397	87667											
ZKSCAN4	387032	broad.mit.edu	37	chr6	28213420	28213420	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	actcatatggcttctcaccaGtgtggactctctgatgaatg	9	13	9	10	0	3	2	2	2	2	0	5	3	3	3	1	2	0	1	1	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:28213420G>A	uc003nks.1	-	5	1356	c.1112C>T	c.(1111-1113)ACT>ATT	p.T371I	ZKSCAN4_uc011dlb.1_Missense_Mutation_p.T216I	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	371					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CTTCTCACCAGTGTGGACTCT	0.478													36	92					0	0	0.003755	0	0		A	28213420	A	A	28213420	3	1	160	1	0	0	0	0	1	0	0	0	17714	1029	36	4	529	4	ZKSCAN4	6	28213420	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	118783	28213420	142901647	398	87668											
SCAND3	114821	broad.mit.edu	37	chr6	28554244	28554244	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctgctccttggtatgtatcTctgggttcagccactgacgg	5	14	11	11	1	3	1	1	1	2	0	5	1	4	1	2	3	2	4	2	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:28554244T>C	uc003nlo.2	-	1	869	c.251A>G	c.(250-252)GAG>GGG	p.E84G	uc003nlp.1_5'Flank	NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	84	SCAN box.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGTATGTATCTCTGGGTTCAG	0.567													38	99					0	0	0.005524	0	0		C	28554244	C	C	28554244	3	2	160	1	0	0	0	0	1	0	0	0	13901	1551	54	3	3742	3	SCAND3	6	28554244	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	340824	28554244	142560823	399	87669											
GABBR1	2550	broad.mit.edu	37	chr6	29599375	29599375	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcgggtgtatgatctggcaAcctaaggggtgagtcgggga	8	8	19	6	2	1	2	0	2	1	0	2	3	1	3	1	7	1	2	1	7	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:29599375A>G	uc003nmt.3	-	3	423	c.87T>C	c.(85-87)GGT>GGC	p.G29G	GABBR1_uc003nmu.3_Silent_p.G29G|GABBR1_uc011dlr.1_5'UTR|GABBR1_uc011dls.1_Silent_p.G29G	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	29	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	TGATCTGGCAACCTAAGGGGT	0.597													10	102					0	0	0.006214	0	0		G	29599375	G	G	29599375	2	3	160	1	0	0	0	0	0	0	0	1	6169	57	2	3		3	GABBR1	6	29599375	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1045131	29599375	141515692	400	87670											
VARS2	57176	broad.mit.edu	37	chr6	30889738	30889738	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacatggttttcttctgcccTgttccccttttctgccctgg	2	17	7	15	0	3	0	0	0	3	0	4	0	4	0	4	2	2	2	4	2	0	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:30889738T>C	uc003nsc.1	+	18	2404	c.1772T>C	c.(1771-1773)CTG>CCG	p.L591P	VARS2_uc011dmx.1_Missense_Mutation_p.L591P|VARS2_uc011dmy.1_Missense_Mutation_p.L451P|VARS2_uc011dmz.1_Missense_Mutation_p.L621P|VARS2_uc011dna.1_Missense_Mutation_p.L589P|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_Intron|VARS2_uc011dnd.1_Silent_p.P6P|VARS2_uc010jsg.1_Intron|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	591					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TCTTCTGCCCTGTTCCCCTTT	0.547													43	169					0	0	0.011902	0	0		C	30889738	C	C	30889738	3	2	160	1	0	0	0	0	1	0	0	0	17150	1580	55	3	1936	3	VARS2	6	30889738	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1290363	30889738	140225329	401	87671											
VARS2	57176	broad.mit.edu	37	chr6	30890692	30890692	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagaaaaaggactttcctcaCgggatccctgagtgtgggac	11	8	12	10	1	1	2	1	1	0	1	3	5	3	5	2	3	0	0	2	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:30890692C>T	uc003nsc.1	+	22	2756	c.2124C>T	c.(2122-2124)CAC>CAT	p.H708H	VARS2_uc011dmx.1_Silent_p.H708H|VARS2_uc011dmy.1_Silent_p.H568H|VARS2_uc011dmz.1_Silent_p.H738H|VARS2_uc011dna.1_Silent_p.H706H|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Silent_p.H146H|VARS2_uc010jsg.1_Silent_p.H80H|VARS2_uc010jsh.1_5'Flank	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	708					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						ACTTTCCTCACGGGATCCCTG	0.592													30	122					0	0	0.012213	0	0		T	30890692	T	T	30890692	2	4	160	1	0	0	0	0	0	0	0	1	17150	535	19	1		1	VARS2	6	30890692	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	954	30890692	140224375	402	87672											
VARS	7407	broad.mit.edu	37	chr6	31750063	31750063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgaggaccctacacaccGgatgttgtccatccaggcat	10	8	9	14	1	0	1	0	1	0	0	2	3	2	3	4	3	1	2	4	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:31750063G>A	uc003nxe.2	-	17	2572	c.2149C>T	c.(2149-2151)CGG>TGG	p.R717W	VARS_uc003nxf.1_5'Flank|VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	717					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CCTACACACCGGATGTTGTCC	0.667													11	28					0	0	0.003163	0	0		A	31750063	A	A	31750063	3	1	160	1	0	0	0	0	1	0	0	0	17149	1130	39	1	1701	1	VARS	6	31750063	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	859371	31750063	139365004	403	87673											
RNF5	6048	broad.mit.edu	37	chr6	32147867	32147867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttggctttttcaccaccGtcttcaatgcccatgagcct	6	14	6	15	1	3	1	2	1	1	0	3	1	3	1	5	1	2	1	5	1	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:32147867G>A	uc003oaj.3	+	5	536	c.409G>A	c.(409-411)GTC>ATC	p.V137I	AGPAT1_uc003oaf.2_5'Flank|AGPAT1_uc003oag.2_5'Flank|AGPAT1_uc003oah.2_5'Flank	NM_006913	NP_008844	Q99942	RNF5_HUMAN	ring finger protein 5	137	Helical; (Potential).				ER-associated misfolded protein catabolic process|protein K48-linked ubiquitination|protein K63-linked ubiquitination	endoplasmic reticulum membrane|integral to membrane|mitochondrial membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TTTCACCACCGTCTTCAATGC	0.557													92	198					0	0	0.01441	0	0		A	32147867	A	A	32147867	3	1	160	1	0	0	0	0	1	0	0	0	13522	1145	40	1	427	1	RNF5	6	32147867	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	397804	32147867	138967200	404	87674											
HLA-DQA1	3117	broad.mit.edu	37	chr6	32609246	32609246	+	Missense_Mutation	SNP	A	G	G	1	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	cagcaaatttggaggttttgAcccgcagggtgcactgagaa	11	9	13	8	1	0	2	0	2	0	1	0	4	0	3	1	3	2	4	1	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:32609246A>G	uc003obr.2	+	2	295	c.242A>G	c.(241-243)GAC>GGC	p.D81G	HLA-DQA1_uc003obs.2_RNA|HLA-DQA1_uc003obt.1_Missense_Mutation_p.D81G|HLA-DQA1_uc003obu.2_5'Flank	NM_002122	NP_002113	P01909	DQA1_HUMAN	major histocompatibility complex, class II, DQ	80	Alpha-1.|Extracellular (Potential).				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to plasma membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0						GGAGGTTTTGACCCGCAGGGT	0.498													4	140					0	0	0.000602	0	0		G	32609246	G	G	32609246	3	3	160	1	0	0	0	0	1	0	0	0	7220	275	10	3	248	3	HLA-DQA1	6	32609246	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	461379	32609246	138505821	405	87675											
ITPR3	3710	broad.mit.edu	37	chr6	33652652	33652652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcaccagcaccaagaacGagaagatcttccaggagagc	15	5	9	12	1	3	4	2	0	1	4	4	6	4	4	3	1	3	1	3	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:33652652G>A	uc011drk.1	+	39	5458	c.5239G>A	c.(5239-5241)GAG>AAG	p.E1747K	ITPR3_uc003oey.2_5'Flank	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1747	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CACCAAGAACGAGAAGATCTT	0.632													30	76					0	0	0.009535	0	0		A	33652652	A	A	33652652	3	1	160	1	0	0	0	0	1	0	0	0	7938	1059	37	1	5393	1	ITPR3	6	33652652	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1043406	33652652	137462415	406	87676											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34825148	34825148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaaagccatctacactcCtttcctgcagtcggaaactt	12	11	6	12	1	1	0	0	0	1	0	4	1	3	1	3	1	4	2	3	1	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:34825148C>T	uc003oju.3	+	12	1708	c.1474C>T	c.(1474-1476)CTT>TTT	p.L492F	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_5'Flank	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	492										ovary(3)	3						ATCTACACTCCTTTCCTGCAG	0.443													42	125					0	0	0.007835	0	0		T	34825148	T	T	34825148	3	4	160	1	0	0	0	0	1	0	0	0	16994	681	24	4	1520	4	UHRF1BP1	6	34825148	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1172496	34825148	136289919	407	87677											
ZNF76	7629	broad.mit.edu	37	chr6	35258107	35258107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttggagacagagcattccGctgtggctacaagggctgtg	9	9	15	8	1	0	2	0	0	0	2	1	3	1	2	1	3	2	5	1	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:35258107G>A	uc003oki.1	+	6	702	c.497G>A	c.(496-498)CGC>CAC	p.R166H	ZNF76_uc011dsy.1_Missense_Mutation_p.R166H|ZNF76_uc011dsz.1_Missense_Mutation_p.R166H|ZNF76_uc003okj.1_Missense_Mutation_p.R166H	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	166	C2H2-type 1.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGAGCATTCCGCTGTGGCTAC	0.527													10	312					0	0	0.006214	0	0		A	35258107	A	A	35258107	3	1	160	1	0	0	0	0	1	0	0	0	18160	1087	38	1	515	1	ZNF76	6	35258107	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	432959	35258107	135856960	408	87678											
MAPK13	5603	broad.mit.edu	37	chr6	36106213	36106213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttgtgcagaagctgaacGacaaagcggtgggtggtaaa	13	8	15	5	2	0	2	0	1	0	1	0	3	0	2	0	3	4	4	0	3	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:36106213G>A	uc003ols.2	+	9	852	c.754G>A	c.(754-756)GAC>AAC	p.D252N	MAPK13_uc003olt.2_Intron	NM_002754	NP_002745	O15264	MK13_HUMAN	mitogen-activated protein kinase 13	252	Protein kinase.				cell cycle|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|positive regulation of interleukin-6 production|Ras protein signal transduction|response to stress		ATP binding|MAP kinase activity|protein binding			breast(2)|central_nervous_system(1)	3						GAAGCTGAACGACAAAGCGGT	0.602													17	14					0	0	0.004007	0	0		A	36106213	A	A	36106213	3	1	160	1	0	0	0	0	1	0	0	0	9293	1058	37	1	788	1	MAPK13	6	36106213	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	848106	36106213	135008854	409	87679											
C6orf222	389384	broad.mit.edu	37	chr6	36298038	36298038	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgggctttcttcctgaGggctggctcccctgctgctt	1	14	14	12	0	1	1	0	1	1	0	3	1	3	1	3	4	2	5	3	4	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:36298038G>T	uc003oly.2	-	2	608	c.430C>A	c.(430-432)CTC>ATC	p.L144I		NM_001010903	NP_001010903	P0C671	CF222_HUMAN	hypothetical protein LOC389384	144										skin(2)|ovary(1)|breast(1)	4						TTCTTCCTGAGGGCTGGCTCC	0.632													20	45					4.87955e-14	5.28118e-14	0.005443	1	0		T	36298038	T	T	36298038	3	4	160	1	0	0	0	0	1	0	0	0	2359	1000	35	5	1572	5	C6orf222	6	36298038	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	191825	36298038	134817029	410	87680											
DNAH8	1769	broad.mit.edu	37	chr6	38903419	38903419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatgttacttttaataagCggaagatgaaagaacttgaa	17	11	10	3	1	0	4	0	2	0	2	0	6	0	6	0	2	3	1	0	2	7	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:38903419C>T	uc003ooe.1	+	75	11458	c.10858C>T	c.(10858-10860)CGG>TGG	p.R3620W	DNAH8_uc003oog.1_Missense_Mutation_p.R69W|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTTTAATAAGCGGAAGATGAA	0.308													84	251					0	0	0.01441	0	0		T	38903419	T	T	38903419	3	4	160	1	0	0	0	0	1	0	0	0	4613	759	27	1	11148	1	DNAH8	6	38903419	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2605381	38903419	132211648	411	87681											
TFEB	7942	broad.mit.edu	37	chr6	41657475	41657475	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctagccaggagtaccgtgttGggcatctgcatttcaggatt	8	12	12	9	1	2	0	1	0	1	0	2	2	2	2	2	3	3	4	2	3	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:41657475G>T	uc003oqs.1	-	5	845	c.543C>A	c.(541-543)CCC>CCA	p.P181P	TFEB_uc003oqt.1_Silent_p.P181P|TFEB_uc003oqu.1_Silent_p.P195P|TFEB_uc003oqv.1_Silent_p.P181P|TFEB_uc010jxo.1_Silent_p.P181P|TFEB_uc003oqr.1_Silent_p.P96P	NM_007162	NP_009093	P19484	TFEB_HUMAN	transcription factor EB	181					embryonic placenta development|humoral immune response|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;7.61e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)			GTACCGTGTTGGGCATCTGCA	0.542			T	ALPHA	renal (childhood epithelioid)								5	70					1.23904e-05	1.29712e-05	0.000602	1	0		T	41657475	T	T	41657475	2	4	160	1	0	0	0	0	0	0	0	1	15826	1335	47	5		5	TFEB	6	41657475	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2754056	41657475	129457592	412	87682											
TRERF1	55809	broad.mit.edu	37	chr6	42231171	42231171	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggcttgggcgggagaagctTgacagggacagacacgggca	10	4	19	8	2	0	3	0	1	0	2	0	5	0	4	0	5	1	3	0	5	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:42231171T>C	uc003osd.2	-	8	2334	c.1771A>G	c.(1771-1773)AAG>GAG	p.K591E	TRERF1_uc011duq.1_Intron|TRERF1_uc003osb.2_Intron|TRERF1_uc003osc.2_Intron|TRERF1_uc003ose.2_Missense_Mutation_p.K591E	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	591	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGGAGAAGCTTGACAGGGACA	0.473													23	66					0	0	0.004656	0	0		C	42231171	C	C	42231171	3	2	160	1	0	0	0	0	1	0	0	0	16501	1821	63	3	1875	3	TRERF1	6	42231171	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	573696	42231171	128883896	413	87683											
CUL9	23113	broad.mit.edu	37	chr6	43155673	43155673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagaggagtccaagtcggagGccagcttctcagaggaagag	13	5	15	8	1	1	3	1	0	1	3	4	6	2	6	2	4	1	1	2	4	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:43155673G>A	uc003ouk.2	+	7	1879	c.1804G>A	c.(1804-1806)GCC>ACC	p.A602T	CUL9_uc003ouj.1_Missense_Mutation_p.A492T|CUL9_uc003oul.2_Missense_Mutation_p.A602T|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_Missense_Mutation_p.A60T	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	602					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						CAAGTCGGAGGCCAGCTTCTC	0.562													22	61					0	0	0.014323	0	0		A	43155673	A	A	43155673	3	1	160	1	0	0	0	0	1	0	0	0	4064	1203	42	2	1826	2	CUL9	6	43155673	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	924502	43155673	127959394	414	87684											
CUL9	23113	broad.mit.edu	37	chr6	43181594	43181594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgagctgtcttcttgttCgtattctcaaagcccatggg	6	16	9	10	1	4	1	1	1	4	0	6	1	4	1	1	1	2	3	1	1	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:43181594C>T	uc003ouk.2	+	29	5707	c.5632C>T	c.(5632-5634)CGT>TGT	p.R1878C	CUL9_uc003oul.2_Missense_Mutation_p.R1850C|CUL9_uc010jyk.2_Missense_Mutation_p.R1030C|CUL9_uc003oun.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1878					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TCTTCTTGTTCGTATTCTCAA	0.542													42	83					0	0	0.007835	0	0		T	43181594	T	T	43181594	3	4	160	1	0	0	0	0	1	0	0	0	4064	884	31	1	5742	1	CUL9	6	43181594	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	25921	43181594	127933473	415	87685											
ABCC10	89845	broad.mit.edu	37	chr6	43415559	43415559	+	Silent	SNP	C	T	T	0	0	0	1	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	aagttgggcatcgtgggccgCacaggctccggcaagtcttc	7	8	14	12	3	1	0	0	0	1	0	4	0	2	0	2	4	0	5	2	4	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:43415559C>T	uc003ouy.1	+	18	4058	c.3843C>T	c.(3841-3843)CGC>CGT	p.R1281R	ABCC10_uc003ouz.1_Silent_p.R1253R|ABCC10_uc010jyo.1_Silent_p.R387R	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1281	ABC transporter 2.|ATP 2 (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			TCGTGGGCCGCACAGGCTCCG	0.647													77	149					0	0	0.01441	0	0		T	43415559	T	T	43415559	2	4	160	1	0	0	0	0	0	0	0	1	50	697	25	2		2	ABCC10	6	43415559	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	233965	43415559	127699508	416	87686											
RUNX2	860	broad.mit.edu	37	chr6	45399611	45399611	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatgtaggtggtagccctCggagaggtaccagatgggac	9	10	15	7	1	0	2	0	0	0	2	1	4	0	3	2	5	2	3	2	5	4	5	rs147760046		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:45399611C>T	uc011dvx.1	+	4	645	c.435C>T	c.(433-435)CTC>CTT	p.L145L	RUNX2_uc011dvy.1_Silent_p.L145L|RUNX2_uc003oxt.2_Silent_p.L131L	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	145	Runt.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						TGGTAGCCCTCGGAGAGGTAC	0.433													6	239					0	0	0.001984	0	0		T	45399611	T	T	45399611	2	4	160	1	0	0	0	0	0	0	0	1	13773	871	31	1		1	RUNX2	6	45399611	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1984052	45399611	125715456	417	87687											
TNFRSF21	27242	broad.mit.edu	37	chr6	47253992	47253992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacaggacacaccgtatgggGggcacaggtagcgttagact	11	6	14	10	2	0	1	0	0	0	1	0	2	0	2	1	5	1	4	1	5	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:47253992G>A	uc003oyv.2	-	2	869	c.436C>T	c.(436-438)CCC>TCC	p.P146S		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	146	Extracellular (Potential).|TNFR-Cys 3.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			ACCGTATGGGGGGCACAGGTA	0.547													6	268					0	0	0.00308	0	0		A	47253992	A	A	47253992	3	1	160	1	0	0	0	0	1	0	0	0	16320	1232	43	4	1551	4	TNFRSF21	6	47253992	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1854381	47253992	123861075	418	87688											
GPR111	222611	broad.mit.edu	37	chr6	47650252	47650252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagaatcagcaagaacatcGccatcctcacaccacttctg	13	8	6	14	1	3	2	2	1	1	2	5	3	4	2	3	0	2	1	3	0	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:47650252G>A	uc010jzj.1	+	6	1958	c.1957G>A	c.(1957-1959)GCC>ACC	p.A653T	GPR111_uc010jzk.1_Missense_Mutation_p.A585T|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	653	Helical; Name=6; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						CAAGAACATCGCCATCCTCAC	0.512													30	63					0	0	0.00632	0	0		A	47650252	A	A	47650252	3	1	160	1	0	0	0	0	1	0	0	0	6643	1087	38	1	1771	1	GPR111	6	47650252	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	396260	47650252	123464815	419	87689											
DEFB113	245927	broad.mit.edu	37	chr6	49936566	49936566	+	Frame_Shift_Del	DEL	T	-	-																															tctctctgcaacttctcttgTttttttctgtggaactagga																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:49936566delT	uc011dwq.1	-	2	73	c.73delA	c.(73-75)ACAfs	p.T25fs		NM_001037729	NP_001032818	Q30KQ7	DB113_HUMAN	beta-defensin 113 precursor	25					defense response to bacterium	extracellular region					0	Lung NSC(77;0.042)					ACTTCTCTTGTTTTTTTCTGT	0.353													28	63	---	---	---	---						.	-	49936566	-	-	49936566	7	5	160	1	0	1	0	1	0	0	0	0	4407	1725	60	0	171	0	DEFB113	6	49936566	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	2286314	49936566	121178501	420	87690											
PKHD1	5314	broad.mit.edu	37	chr6	51897950	51897950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacagtcacattcacaatgCgtccatctttcccctgaaaa	12	11	4	14	1	4	1	3	1	1	0	6	1	6	1	3	0	1	0	3	0	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:51897950C>T	uc003pah.1	-	29	3518	c.3242G>A	c.(3241-3243)CGC>CAC	p.R1081H	PKHD1_uc003pai.2_Missense_Mutation_p.R1081H	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1081	IPT/TIG 5.|Extracellular (Potential).		R -> C (in a colorectal cancer sample; somatic mutation).		cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity	p.R1081C(1)		lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					ATTCACAATGCGTCCATCTTT	0.363													35	93					0	0	0.003271	0	0		T	51897950	T	T	51897950	3	4	160	1	0	0	0	0	1	0	0	0	11990	768	27	1	9177	1	PKHD1	6	51897950	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1961384	51897950	119217117	421	87691											
PKHD1	5314	broad.mit.edu	37	chr6	51913367	51913367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgctgtcgtctctgtgtcGtcaccaggaccagtccagat	6	11	10	14	3	2	1	1	0	1	1	7	2	4	2	4	1	0	1	4	1	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:51913367G>A	uc003pah.1	-	23	2606	c.2330C>T	c.(2329-2331)ACG>ATG	p.T777M	PKHD1_uc003pai.2_Missense_Mutation_p.T777M	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	777	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCTCTGTGTCGTCACCAGGAC	0.527													35	94					0	0	0.003755	0	0		A	51913367	A	A	51913367	3	1	160	1	0	0	0	0	1	0	0	0	11990	1145	40	1	10113	1	PKHD1	6	51913367	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	15417	51913367	119201700	422	87692											
GCM1	8521	broad.mit.edu	37	chr6	52999038	52999038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccagctgctcaggtgccGctgcgcattcttgtcctccg	3	10	12	16	3	2	0	1	0	1	0	4	0	4	0	4	2	4	4	4	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:52999038G>A	uc003pbp.2	-	3	369	c.160C>T	c.(160-162)CGG>TGG	p.R54W	GCM1_uc010jzr.2_Missense_Mutation_p.R54W	NM_003643	NP_003634	Q9NP62	GCM1_HUMAN	glial cells missing homolog a	54	GCM.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			central_nervous_system(1)	1	Lung NSC(77;0.0755)					CTCAGGTGCCGCTGCGCATTC	0.547													51	108					0	0	0.01441	0	0		A	52999038	A	A	52999038	3	1	160	1	0	0	0	0	1	0	0	0	6312	1086	38	1	1166	1	GCM1	6	52999038	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1085671	52999038	118116029	423	87693											
PHF3	23469	broad.mit.edu	37	chr6	64423103	64423103	+	Silent	SNP	A	G	G	1	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	cgtatgatgggtcctctctcAcaagcatcaaggtatatagg	11	11	10	9	1	3	1	2	1	1	0	5	1	4	1	1	3	1	3	1	3	6	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:64423103A>G	uc003pep.1	+	15	5645	c.5619A>G	c.(5617-5619)TCA>TCG	p.S1873S	PHF3_uc003pen.2_Silent_p.S1785S|PHF3_uc011dxs.1_Silent_p.S1142S	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1873					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			GTCCTCTCTCACAAGCATCAA	0.527													23	215					0	0	0.012319	0	0		G	64423103	G	G	64423103	2	3	160	1	0	0	0	0	0	0	0	1	11855	146	6	3		3	PHF3	6	64423103	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	11424065	64423103	106691964	424	87694											
COL9A1	1297	broad.mit.edu	37	chr6	70942332	70942332	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggggccccttaatgccCggaaggccacgaattcccat	9	6	11	15	2	0	0	0	0	0	0	1	2	1	1	6	4	1	0	6	4	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:70942332C>T	uc003pfg.3	-	36	2616	c.2457G>A	c.(2455-2457)CCG>CCA	p.P819P	COL9A1_uc003pfe.3_Silent_p.P368P|COL9A1_uc003pff.3_Silent_p.P576P	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	819	Triple-helical region (COL1).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CCTTAATGCCCGGAAGGCCAC	0.572													67	75					0	0	0.01441	0	0		T	70942332	T	T	70942332	2	4	160	1	0	0	0	0	0	0	0	1	3710	639	23	1		1	COL9A1	6	70942332	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	6519229	70942332	100172735	425	87695											
COL12A1	1303	broad.mit.edu	37	chr6	75843658	75843658	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatggtcccagcggacattCaaggtgctggtagaagggtc	9	8	15	9	1	1	1	1	0	0	1	3	2	2	2	1	5	2	3	1	5	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:75843658C>A	uc003phs.2	-	33	5746	c.5580G>T	c.(5578-5580)TTG>TTT	p.L1860F	COL12A1_uc003pht.2_Missense_Mutation_p.L696F	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1860	Fibronectin type-III 14.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AGCGGACATTCAAGGTGCTGG	0.453													20	56					1.96292e-10	2.10505e-10	0.010504	1	0		A	75843658	A	A	75843658	3	1	160	1	0	0	0	0	1	0	0	0	3672	825	29	5	3747	5	COL12A1	6	75843658	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4901326	75843658	95271409	426	87696											
PHIP	55023	broad.mit.edu	37	chr6	79655834	79655834	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactcggttgcttctggttCgaaccacagaactagattct	9	12	8	12	2	2	2	0	0	2	2	4	3	2	2	2	2	3	3	2	2	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:79655834C>T	uc003pir.2	-	38	4740	c.4514G>A	c.(4513-4515)CGA>CAA	p.R1505Q	PHIP_uc003piq.2_Missense_Mutation_p.R529Q|PHIP_uc011dyp.1_Missense_Mutation_p.R1504Q|IRAK1BP1_uc010kbg.1_RNA|PHIP_uc003pio.3_Missense_Mutation_p.R391Q	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	1505					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		GCTTCTGGTTCGAACCACAGA	0.433													8	203					0	0	0.00308	0	0		T	79655834	T	T	79655834	3	4	160	1	0	0	0	0	1	0	0	0	11861	884	31	1	963	1	PHIP	6	79655834	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3812176	79655834	91459233	427	87697											
PHIP	55023	broad.mit.edu	37	chr6	79770253	79770253	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggtcttccacagtgcaaCgcagccagagcagatccttt	9	9	11	12	1	1	2	0	0	1	2	3	2	3	2	3	2	4	3	3	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:79770253C>T	uc003pir.2	-	6	607	c.381G>A	c.(379-381)GCG>GCA	p.A127A	PHIP_uc011dyp.1_Silent_p.A127A	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	127					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		CACAGTGCAACGCAGCCAGAG	0.413													26	102					0	0	0.009535	0	0		T	79770253	T	T	79770253	2	4	160	1	0	0	0	0	0	0	0	1	11861	523	19	1		1	PHIP	6	79770253	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	114419	79770253	91344814	428	87698											
IBTK	25998	broad.mit.edu	37	chr6	82949974	82949974	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctttgtctttcaccaacagaTccactcctttctgaataagc	10	14	4	13	0	3	2	1	1	2	1	5	2	5	2	3	0	2	0	3	0	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:82949974T>A	uc003pjl.1	-	2	757	c.230A>T	c.(229-231)GAT>GTT	p.D77V	IBTK_uc011dyv.1_Missense_Mutation_p.D77V|IBTK_uc011dyw.1_Missense_Mutation_p.D77V|IBTK_uc010kbi.1_5'UTR|IBTK_uc003pjm.2_Missense_Mutation_p.D77V	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	77	ANK 1.				negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		CACCAACAGATCCACTCCTTT	0.418													4	183					0	0	0.000602	0	0		A	82949974	A	A	82949974	3	1	160	1	0	0	0	0	1	0	0	0	7492	1435	50	5	3943	5	IBTK	6	82949974	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	3179721	82949974	88165093	429	87699											
IBTK	25998	broad.mit.edu	37	chr6	82950191	82950191	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttgatgtgcagtcaggcaTgggtgaactcatcctaactg	9	12	11	9	0	2	2	2	2	0	0	3	2	3	2	1	2	3	2	1	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:82950191T>C	uc003pjl.1	-	2	540	c.13A>G	c.(13-15)ATG>GTG	p.M5V	IBTK_uc011dyv.1_Missense_Mutation_p.M5V|IBTK_uc011dyw.1_Missense_Mutation_p.M5V|IBTK_uc010kbi.1_5'UTR|IBTK_uc003pjm.2_Missense_Mutation_p.M5V	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	5					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		CAGTCAGGCATGGGTGAACTC	0.413													61	144					0	0	0.01441	0	0		C	82950191	C	C	82950191	3	2	160	1	0	0	0	0	1	0	0	0	7492	1464	51	3	4160	3	IBTK	6	82950191	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	217	82950191	88164876	430	87700											
PGM3	5238	broad.mit.edu	37	chr6	83884156	83884156	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttttcttatcttccagTtgttctgctgattgttttat	4	25	5	7	0	4	1	0	1	4	0	5	1	5	1	1	0	1	4	1	0	2	10			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:83884156T>A	uc003pjv.2	-	10	1219	c.1179A>T	c.(1177-1179)CAA>CAT	p.Q393H	PGM3_uc003pjw.2_Missense_Mutation_p.Q312H|PGM3_uc011dyz.1_Missense_Mutation_p.Q421H	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	393					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		TATCTTCCAGTTGTTCTGCTG	0.373													36	77					0	0	0.00623	0	0		A	83884156	A	A	83884156	3	1	160	1	0	0	0	0	1	0	0	0	11819	1722	60	5	465	5	PGM3	6	83884156	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	933965	83884156	87230911	431	87701											
TBX18	9096	broad.mit.edu	37	chr6	85472393	85472393	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgggccagggagcgcgcCggagaccccttgggggagcc	5	2	20	14	4	0	1	0	0	0	1	0	4	0	3	6	6	2	0	6	6	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:85472393C>T	uc003pkl.1	-	2	366	c.366G>A	c.(364-366)CCG>CCA	p.P122P	TBX18_uc010kbq.1_5'UTR	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	122					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity	p.P122L(1)		ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GGGAGCGCGCCGGAGACCCCT	0.697													12	30					0	0	0.00245	0	0		T	85472393	T	T	85472393	2	4	160	1	0	0	0	0	0	0	0	1	15678	639	23	1		1	TBX18	6	85472393	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1588237	85472393	85642674	432	87702											
RARS2	57038	broad.mit.edu	37	chr6	88239291	88239291	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggagtcctttactctccaGcaactttaagacctcttgag	10	13	7	11	0	2	2	0	1	2	1	4	3	3	3	3	1	3	1	3	1	4	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:88239291G>A	uc003pme.2	-	10	907	c.847C>T	c.(847-849)CTG>TTG	p.L283L	RARS2_uc003pmb.2_Silent_p.L108L|RARS2_uc003pmc.2_Silent_p.L108L|RARS2_uc003pmd.2_5'UTR|RARS2_uc003pmf.2_RNA	NM_020320	NP_064716	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	283					arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		TTACTCTCCAGCAACTTTAAG	0.313													32	109					0	0	0.013726	0	0		A	88239291	A	A	88239291	2	1	160	1	0	0	0	0	0	0	0	1	13084	962	34	2		2	RARS2	6	88239291	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2766898	88239291	82875776	433	87703											
GABRR1	2569	broad.mit.edu	37	chr6	89890064	89890064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacagtggtcaggtagttgaCggccgcatactccagcaccg	9	7	12	13	3	1	1	1	1	0	0	2	1	2	1	3	3	2	4	3	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:89890064C>T	uc003pna.2	-	9	1548	c.1093G>A	c.(1093-1095)GTC>ATC	p.V365I	GABRR1_uc011dzv.1_Missense_Mutation_p.V342I	NM_002042	NP_002033	P24046	GBRR1_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 1	365	Helical; (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			pancreas(1)	1		all_cancers(76;9.49e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.46e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.00917)	Picrotoxin(DB00466)	AGGTAGTTGACGGCCGCATAC	0.557													4	47					0	0	0.009096	0	0		T	89890064	T	T	89890064	3	4	160	1	0	0	0	0	1	0	0	0	6190	536	19	1	354	1	GABRR1	6	89890064	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1650773	89890064	81225003	434	87704											
EPHA7	2045	broad.mit.edu	37	chr6	94068094	94068094	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacgagagcactgaagatCttgagaggaagacttgtaga	16	7	12	6	1	1	6	0	2	1	5	1	9	1	7	0	1	2	2	0	1	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:94068094C>A	uc003poe.2	-	4	1109	c.868G>T	c.(868-870)GAT>TAT	p.D290Y	EPHA7_uc003pof.2_Missense_Mutation_p.D290Y|EPHA7_uc011eac.1_Missense_Mutation_p.D290Y	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	290	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|ovary(7)|upper_aerodigestive_tract(3)|central_nervous_system(3)|skin(3)|large_intestine(2)|stomach(1)|pancreas(1)	28		all_cancers(76;7.47e-10)|Acute lymphoblastic leukemia(125;1.88e-09)|all_hematologic(75;1.75e-07)|all_epithelial(107;3.6e-05)|Lung NSC(302;0.0368)|all_lung(197;0.0509)|Colorectal(196;0.142)		BRCA - Breast invasive adenocarcinoma(108;0.0847)		CACTGAAGATCTTGAGAGGAA	0.428													17	54					9.16793e-09	9.74266e-09	0.00499	1	0		A	94068094	A	A	94068094	3	1	160	1	0	0	0	0	1	0	0	0	5180	913	32	5	2184	5	EPHA7	6	94068094	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4178030	94068094	77046973	435	87705											
POPDC3	64208	broad.mit.edu	37	chr6	105609533	105609533	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatgaagcagatgacaaaCagtacaaaattccaggaaaa	20	6	8	7	0	0	3	0	2	0	1	1	4	1	4	1	1	4	3	1	1	7	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:105609533C>T	uc003prb.2	-	2	654	c.252G>A	c.(250-252)CTG>CTA	p.L84L	uc003pqz.2_Intron|POPDC3_uc003pra.2_Intron	NM_022361	NP_071756	Q9HBV1	POPD3_HUMAN	popeye protein 3	84	Helical; (Potential).					integral to membrane				skin(3)|ovary(2)	5		all_cancers(87;4.87e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0157)|Colorectal(196;0.202)|Lung NSC(302;0.238)				AGATGACAAACAGTACAAAAT	0.433													56	229					0	0	0.01441	0	0		T	105609533	T	T	105609533	2	4	160	1	0	0	0	0	0	0	0	1	12275	465	17	4		4	POPDC3	6	105609533	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	11541439	105609533	65505534	436	87706											
AIM1	202	broad.mit.edu	37	chr6	106967902	106967902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcctttgtccacagagcGtagtccagaagctgtgggaa	9	9	11	12	1	0	2	0	0	0	2	3	3	3	3	4	1	2	2	4	1	3	2	rs139571922	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:106967902G>A	uc003prh.2	+	2	2082	c.1595G>A	c.(1594-1596)CGT>CAT	p.R532H		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	532							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	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)		TCCACAGAGCGTAGTCCAGAA	0.522													51	98					0	0	0.01441	0	0		A	106967902	A	A	106967902	3	1	160	1	0	0	0	0	1	0	0	0	430	1145	40	1	1601	1	AIM1	6	106967902	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1358369	106967902	64147165	437	87707											
BEND3	57673	broad.mit.edu	37	chr6	107390480	107390480	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgccggcagcgctcatccaGtttgcccacgaactccaggg	7	6	12	16	4	1	0	1	0	0	0	3	1	3	0	4	2	3	3	4	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:107390480G>A	uc003prs.2	-	5	2565	c.1915C>T	c.(1915-1917)CTG>TTG	p.L639L		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	639	BEN 3.									ovary(3)	3						CGCTCATCCAGTTTGCCCACG	0.657													15	34					0	0	0.007413	0	0		A	107390480	A	A	107390480	2	1	160	1	0	0	0	0	0	0	0	1	1400	1020	36	4		4	BEND3	6	107390480	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	422578	107390480	63724587	438	87708											
BEND3	57673	broad.mit.edu	37	chr6	107390687	107390687	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcgcgaggcgaagttgccgaTggacaggctgctctcgtaga	8	7	16	10	5	1	1	0	0	1	1	2	5	1	2	1	3	2	4	1	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:107390687T>C	uc003prs.2	-	5	2358	c.1708A>G	c.(1708-1710)ATC>GTC	p.I570V		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	570	BEN 3.									ovary(3)	3						AAGTTGCCGATGGACAGGCTG	0.627													25	77					0	0	0.009535	0	0		C	107390687	C	C	107390687	3	2	160	1	0	0	0	0	1	0	0	0	1400	1464	51	3	782	3	BEND3	6	107390687	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	207	107390687	63724380	439	87709											
MICAL1	64780	broad.mit.edu	37	chr6	109786988	109786988	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagagcctgatttcaagcGttcaaaatccagtcagagct	12	10	10	9	1	3	3	3	1	0	2	4	4	4	3	2	1	3	2	2	1	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:109786988G>A	uc011eaq.1	-	1	184	c.-107C>T	c.(-109--105)AACGC>AATGC		ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_3'UTR|ZBTB24_uc003ptl.1_3'UTR|ZBTB24_uc010kdt.1_RNA	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin						cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		GATTTCAAGCGTTCAAAATCC	0.493													32	84					0	0	0.013726	0	0		A	109786988	A	A	109786988	1	1	160	1	0	0	0	0	0	0	0	0	9587	1160	40	1		1	MICAL1	6	109786988	Translation_Start_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2396301	109786988	61328079	440	87710											
SLC16A10	117247	broad.mit.edu	37	chr6	111527861	111527861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttctcatgtgcattggcGtcacttcaggagttggacga	7	14	12	8	2	3	0	3	0	1	0	4	3	3	2	0	3	1	3	0	3	0	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:111527861G>A	uc003pus.2	+	4	1184	c.1009G>A	c.(1009-1011)GTC>ATC	p.V337I	SLC16A10_uc003put.2_Missense_Mutation_p.V23I	NM_018593	NP_061063	Q8TF71	MOT10_HUMAN	solute carrier family 16, member 10	337	Helical; (Potential).				aromatic amino acid transport|cellular nitrogen compound metabolic process|ion transport	basolateral plasma membrane|integral to membrane	amino acid transmembrane transporter activity				0		all_cancers(87;0.00172)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0313)|Colorectal(196;0.0466)		OV - Ovarian serous cystadenocarcinoma(136;0.0703)|Epithelial(106;0.12)|all cancers(137;0.132)		GTGCATTGGCGTCACTTCAGG	0.388													79	178					0	0	0.01441	0	0		A	111527861	A	A	111527861	3	1	160	1	0	0	0	0	1	0	0	0	14428	1145	40	1	1023	1	SLC16A10	6	111527861	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1740873	111527861	59587206	441	87711											
REV3L	5980	broad.mit.edu	37	chr6	111695520	111695520	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgttgattcctttagagtAaacatagcactttgattatg	13	15	7	6	1	0	3	0	2	0	1	1	3	1	3	1	0	3	3	1	0	6	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:111695520A>G	uc003puy.3	-	13	4361	c.4038T>C	c.(4036-4038)TTT>TTC	p.F1346F	REV3L_uc003pux.3_Silent_p.F1268F|REV3L_uc003puz.3_Silent_p.F1268F	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1346					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CCTTTAGAGTAAACATAGCAC	0.338								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					21	233					0	0	0.010504	0	0		G	111695520	G	G	111695520	2	3	160	1	0	0	0	0	0	0	0	1	13265	359	13	3		3	REV3L	6	111695520	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	167659	111695520	59419547	442	87712											
DSE	29940	broad.mit.edu	37	chr6	116758028	116758028	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttttgccatatcacagcaAcagcagcagcaaagcaagtc	15	8	7	11	0	1	0	1	0	0	0	2	0	1	0	1	0	7	5	1	0	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:116758028A>G	uc003pws.2	+	6	2591	c.2397A>G	c.(2395-2397)CAA>CAG	p.Q799Q	DSE_uc011ebg.1_Silent_p.Q818Q|DSE_uc003pwt.2_Silent_p.Q799Q|DSE_uc003pwu.2_Silent_p.Q466Q	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	799					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		TATCACAGCAACAGCAGCAGC	0.443													29	96					0	0	0.007291	0	0		G	116758028	G	G	116758028	2	3	160	1	0	0	0	0	0	0	0	1	4780	40	2	3		3	DSE	6	116758028	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5062508	116758028	54357039	443	87713											
RFX6	222546	broad.mit.edu	37	chr6	117198978	117198978	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaatgcacttaaacaatggTaacttttcctctgaagaaga	16	11	7	7	0	1	3	0	1	1	2	2	4	2	3	1	1	3	2	1	1	7	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:117198978T>C	uc003pxm.2	+	2	306	c.243T>C	c.(241-243)GGT>GGC	p.G81G		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	81					glucose homeostasis|pancreatic A cell differentiation|pancreatic D cell differentiation|pancreatic E cell differentiation|positive regulation of transcription, DNA-dependent|regulation of insulin secretion|transcription, DNA-dependent|type B pancreatic cell differentiation	nucleus	protein binding|transcription regulatory region DNA binding			ovary(1)|pancreas(1)|skin(1)	3						TAAACAATGGTAACTTTTCCT	0.393													3	52					0	0	0.004672	0	0		C	117198978	C	C	117198978	2	2	160	1	0	0	0	0	0	0	0	1	13292	1625	57	3		3	RFX6	6	117198978	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	440950	117198978	53916089	444	87714											
TRDN	10345	broad.mit.edu	37	chr6	123673709	123673709	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactgtcttggttgttttCtcttccttctttccaggtac	3	20	6	12	0	3	0	0	0	3	0	7	0	6	0	3	2	1	3	3	2	1	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:123673709C>A	uc003pzj.1	-	21	1366	c.1344G>T	c.(1342-1344)GAG>GAT	p.E448D	TRDN_uc003pzk.1_Missense_Mutation_p.E449D|TRDN_uc003pzl.1_Missense_Mutation_p.E449D|TRDN_uc010kem.1_5'UTR	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	448	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		TGGTTGTTTTCTCTTCCTTCT	0.378													18	70					4.96729e-08	5.25487e-08	0.008871	1	0		A	123673709	A	A	123673709	3	1	160	1	0	0	0	0	1	0	0	0	16494	912	32	5	929	5	TRDN	6	123673709	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	6474731	123673709	47441358	445	87715											
HEY2	23493	broad.mit.edu	37	chr6	126080753	126080753	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagccgcagcagccaccgcGgctgcacacagcttccctct	7	5	10	19	3	1	0	0	0	1	0	2	0	2	0	4	1	5	6	4	1	0	1	rs34745209	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:126080753G>A	uc003qad.2	+	5	1010	c.819G>A	c.(817-819)GCG>GCA	p.A273A	HEY2_uc011ebr.1_Silent_p.A227A	NM_012259	NP_036391	Q9UBP5	HEY2_HUMAN	hairy/enhancer-of-split related with YRPW motif	273	Ala-rich.				negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription initiation from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|Notch signaling pathway|smooth muscle cell differentiation|transcription, DNA-dependent	transcriptional repressor complex	histone deacetylase binding|RNA polymerase II activating transcription factor binding|sequence-specific DNA binding			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (4;0.0608)|GBM - Glioblastoma multiforme(226;0.0361)|all cancers(137;0.193)		CAGCCACCGCGGCTGCACACA	0.697													59	182					0	0	0.01441	0	0		A	126080753	A	A	126080753	2	1	160	1	0	0	0	0	0	0	0	1	7095	1103	39	1		1	HEY2	6	126080753	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2407044	126080753	45034314	446	87716											
C6orf174	387104	broad.mit.edu	37	chr6	127796641	127796641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgttggccacgtagatgcGcgcctcggtgatgatggtgc	5	9	15	12	5	0	3	0	2	0	1	1	3	0	3	3	3	2	2	3	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:127796641G>A	uc003qbd.2	-	6	3395	c.2530C>T	c.(2530-2532)CGC>TGC	p.R844C	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	844						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		ACGTAGATGCGCGCCTCGGTG	0.652													38	96					0	0	0.01441	0	0		A	127796641	A	A	127796641	3	1	160	1	0	0	0	0	1	0	0	0	2348	1087	38	1	321	1	C6orf174	6	127796641	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1715888	127796641	43318426	447	87717											
AKAP7	9465	broad.mit.edu	37	chr6	131486329	131486329	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atattaccctgctggtgatgCaattattaaatgaagatgaa	15	13	8	5	0	0	4	0	3	0	1	0	4	0	4	1	1	3	2	1	1	8	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:131486329C>T	uc003qck.2	+	4	433	c.400C>T	c.(400-402)CAA>TAA	p.Q134*	AKAP7_uc011ebz.1_Nonsense_Mutation_p.Q112*|AKAP7_uc003qcl.1_Nonsense_Mutation_p.Q15*	NM_016377	NP_057461	O43687	AKA7A_HUMAN	A-kinase anchor protein 7 isoform gamma	Error:Variant_position_missing_in_O43687_after_alignment					intracellular signal transduction|ion transport	apical plasma membrane|intracellular|lateral plasma membrane	protein kinase A binding			ovary(2)	2	Breast(56;0.152)			GBM - Glioblastoma multiforme(226;0.0184)|OV - Ovarian serous cystadenocarcinoma(155;0.0345)		GCTGGTGATGCAATTATTAAA	0.343													5	117					0	0	0.000602	0	0		T	131486329	T	T	131486329	4	4	160	1	0	0	0	0	0	1	0	0	456	711	25	2	344	2	AKAP7	6	131486329	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3689688	131486329	39628738	448	87718											
TAAR6	319100	broad.mit.edu	37	chr6	132891923	132891923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaggaatttgcatcagcGtgtcctggatcctgcccctc	6	12	10	13	1	2	0	2	0	0	0	5	2	4	2	4	2	3	1	4	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:132891923G>A	uc011eck.1	+	1	463	c.463G>A	c.(463-465)GTG>ATG	p.V155M		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	155	Helical; Name=4; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		TTGCATCAGCGTGTCCTGGAT	0.502													161	369					0	0	0.01441	0	0		A	132891923	A	A	132891923	3	1	160	1	0	0	0	0	1	0	0	0	15517	1145	40	1	465	1	TAAR6	6	132891923	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1405594	132891923	38223144	449	87719											
SLC2A12	154091	broad.mit.edu	37	chr6	134349987	134349987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatggtgctaatgaccttgaCgactccaaccccagtggagg	10	8	12	11	1	0	2	0	2	0	0	1	5	1	3	4	3	2	1	4	3	2	2	rs151202816		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:134349987C>T	uc003qem.1	-	2	1147	c.976G>A	c.(976-978)GTC>ATC	p.V326I		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	326	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		ATGACCTTGACGACTCCAACC	0.493													25	43					0	0	0.013726	0	0		T	134349987	T	T	134349987	3	4	160	1	0	0	0	0	1	0	0	0	14566	536	19	1	893	1	SLC2A12	6	134349987	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1458064	134349987	36765080	450	87720											
AHI1	54806	broad.mit.edu	37	chr6	135787084	135787084	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtttctttcttattttcCtcttaatctcctttgccatt	5	23	2	11	0	5	0	1	0	4	0	7	0	6	0	3	0	1	1	3	0	2	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:135787084C>A	uc003qgi.2	-	7	1001	c.617G>T	c.(616-618)AGG>ATG	p.R206M	AHI1_uc003qgh.2_Missense_Mutation_p.R206M|AHI1_uc003qgj.2_Missense_Mutation_p.R206M|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Missense_Mutation_p.R206M	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	206						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		TCTTATTTTCCTCTTAATCTC	0.353													14	139					9.05144e-12	9.72166e-12	0.001855	1	0		A	135787084	A	A	135787084	3	1	160	1	0	0	0	0	1	0	0	0	413	681	24	5	3122	5	AHI1	6	135787084	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1437097	135787084	35327983	451	87721											
BCLAF1	9774	broad.mit.edu	37	chr6	136600998	136600998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgtgatctagaattggagcGacccatttcttttctcctaa	10	15	7	9	1	3	2	0	1	3	1	4	4	3	3	2	1	1	0	2	1	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:136600998G>A	uc003qgx.1	-	3	260	c.7C>T	c.(7-9)CGC>TGC	p.R3C	BCLAF1_uc003qgw.1_Missense_Mutation_p.R3C|BCLAF1_uc003qgy.1_Missense_Mutation_p.R3C|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R3C	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	3					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GAATTGGAGCGACCCATTTCT	0.308													11	90					0	0	0.013537	0	0		A	136600998	A	A	136600998	3	1	160	1	0	0	0	0	1	0	0	0	1384	1058	37	1	2799	1	BCLAF1	6	136600998	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	813914	136600998	34514069	452	87722											
GPR126	57211	broad.mit.edu	37	chr6	142691311	142691311	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgttttgtcctagttgcCgtgtccttaaggaatcaaaa	10	16	8	7	1	1	0	1	0	0	0	3	1	3	1	3	1	1	2	3	1	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:142691311C>T	uc010khc.2	+	4	861	c.450C>T	c.(448-450)GCC>GCT	p.A150A	GPR126_uc010khd.2_Silent_p.A150A|GPR126_uc010khe.2_Silent_p.A150A|GPR126_uc010khf.2_Silent_p.A150A|GPR126_uc003qix.2_Silent_p.A150A	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	150	Pentaxin.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		TCCTAGTTGCCGTGTCCTTAA	0.403													18	56					0	0	0.007413	0	0		T	142691311	T	T	142691311	2	4	160	1	0	0	0	0	0	0	0	1	6655	639	23	1		1	GPR126	6	142691311	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	6090313	142691311	28423756	453	87723											
PHACTR2	9749	broad.mit.edu	37	chr6	144093509	144093509	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgaaggccacagggaataCcaagccaatgactctgactc	14	6	10	11	0	1	3	0	3	1	0	2	5	1	4	3	2	2	0	3	2	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:144093509C>T	uc003qjq.3	+	7	1444	c.1314C>T	c.(1312-1314)TAC>TAT	p.Y438Y	PHACTR2_uc010khh.2_Silent_p.Y358Y|PHACTR2_uc010khi.2_Silent_p.Y449Y|PHACTR2_uc003qjr.3_Silent_p.Y369Y	NM_014721	NP_055536	O75167	PHAR2_HUMAN	phosphatase and actin regulator 2 isoform 3	438							actin binding|protein phosphatase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(155;1.58e-05)|GBM - Glioblastoma multiforme(68;0.0386)		ACAGGGAATACCAAGCCAATG	0.512													18	35					0	0	0.008871	0	0		T	144093509	T	T	144093509	2	4	160	1	0	0	0	0	0	0	0	1	11829	518	18	4		4	PHACTR2	6	144093509	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1402198	144093509	27021558	454	87724											
LTV1	84946	broad.mit.edu	37	chr6	144183260	144183260	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgtaaaattgaataccCttgaacccttggaggatcaa	13	12	9	7	0	1	2	1	2	0	0	1	4	1	4	2	2	2	2	2	2	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:144183260C>A	uc003qjs.2	+	8	1050	c.943C>A	c.(943-945)CTT>ATT	p.L315I	LTV1_uc003qju.1_Missense_Mutation_p.L100I|C6orf94_uc010khj.2_Intron|C6orf94_uc010khk.2_5'Flank|C6orf94_uc011edy.1_5'Flank	NM_032860	NP_116249	Q96GA3	LTV1_HUMAN	LTV1 homolog	315										ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)		ATTGAATACCCTTGAACCCTT	0.378													26	97					1.64293e-13	1.77407e-13	0.00333	1	0		A	144183260	A	A	144183260	3	1	160	1	0	0	0	0	1	0	0	0	9099	681	24	5	973	5	LTV1	6	144183260	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	89751	144183260	26931807	455	87725											
SHPRH	257218	broad.mit.edu	37	chr6	146266640	146266640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaaattaaacatttcagcatCcgtttcaaaagactcctgtt	15	13	4	9	1	2	1	2	0	0	1	4	1	4	1	2	0	2	3	2	0	6	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:146266640C>T	uc003qlf.2	-	8	1854	c.1455G>A	c.(1453-1455)CGG>CGA	p.R485R	SHPRH_uc003qld.2_Silent_p.R485R|SHPRH_uc003qle.2_Silent_p.R485R|SHPRH_uc003qlg.1_Silent_p.R41R|SHPRH_uc003qlj.1_Silent_p.R374R	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	485	H15.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		ATTTCAGCATCCGTTTCAAAA	0.358													4	157					0	0	0.009096	0	0		T	146266640	T	T	146266640	2	4	160	1	0	0	0	0	0	0	0	1	14316	842	30	4		4	SHPRH	6	146266640	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2083380	146266640	24848427	456	87726											
LATS1	9113	broad.mit.edu	37	chr6	150004580	150004580	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtccttgatagtttggagCttcagcaacaggtggcatca	9	12	12	8	0	2	1	2	1	0	0	3	2	3	2	1	4	3	4	1	4	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:150004580C>A	uc003qmu.1	-	4	2193	c.1645G>T	c.(1645-1647)GCT>TCT	p.A549S	LATS1_uc010kif.1_Missense_Mutation_p.A444S|LATS1_uc003qmv.1_Missense_Mutation_p.A549S|LATS1_uc003qmw.2_Missense_Mutation_p.A549S|LATS1_uc010kig.1_Missense_Mutation_p.A444S	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	549	Interaction with YAP1.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TAGTTTGGAGCTTCAGCAACA	0.483													68	180					1.20466e-24	1.34414e-24	0.01441	1	0		A	150004580	A	A	150004580	3	1	160	1	0	0	0	0	1	0	0	0	8662	797	28	5	1767	5	LATS1	6	150004580	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3737940	150004580	21110487	457	87727											
PLEKHG1	57480	broad.mit.edu	37	chr6	151151939	151151939	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattatcagatgttcgtgccGtcattttcctcctcagatct	7	16	7	11	2	4	2	3	0	1	2	7	3	6	2	3	0	1	1	3	0	1	4	rs141197193	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:151151939G>A	uc003qny.1	+	16	2004	c.1692G>A	c.(1690-1692)CCG>CCA	p.P564P	PLEKHG1_uc011eel.1_Silent_p.P604P|PLEKHG1_uc011eem.1_Silent_p.P623P|PLEKHG1_uc003qnz.2_Silent_p.P564P	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	564					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		TGTTCGTGCCGTCATTTTCCT	0.507													69	154					0	0	0.01441	0	0		A	151151939	A	A	151151939	2	1	160	1	0	0	0	0	0	0	0	1	12087	1132	40	1		1	PLEKHG1	6	151151939	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1147359	151151939	19963128	458	87728											
ZBTB2	57621	broad.mit.edu	37	chr6	151687420	151687420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccggagagtgaagcgccGtccacacaggtggcaggcat	9	5	15	12	3	0	2	0	1	0	1	2	3	2	2	3	4	1	3	3	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:151687420G>A	uc003qoh.2	-	3	916	c.781C>T	c.(781-783)CGG>TGG	p.R261W		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	261	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		GTGAAGCGCCGTCCACACAGG	0.557													55	142					0	0	0.01441	0	0		A	151687420	A	A	151687420	3	1	160	1	0	0	0	0	1	0	0	0	17553	1144	40	1	767	1	ZBTB2	6	151687420	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	535481	151687420	19427647	459	87729											
SYNE1	23345	broad.mit.edu	37	chr6	152453304	152453304	+	Missense_Mutation	SNP	A	G	G	1	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	tcctgatgtgggactcacagAccctgaggtgtccagttcat	8	11	11	11	0	2	3	2	2	0	1	4	4	4	4	3	2	0	1	3	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:152453304A>G	uc010kiw.2	-	144	26649	c.26047T>C	c.(26047-26049)TCT>CCT	p.S8683P	SYNE1_uc010kiv.2_Missense_Mutation_p.S3207P|SYNE1_uc003qos.3_Missense_Mutation_p.S3207P|SYNE1_uc003qot.3_Missense_Mutation_p.S8635P|SYNE1_uc003qou.3_Missense_Mutation_p.S8683P|SYNE1_uc003qop.3_Missense_Mutation_p.S868P|SYNE1_uc011eez.1_Missense_Mutation_p.S885P|SYNE1_uc003qoq.3_Missense_Mutation_p.S885P|SYNE1_uc003qor.3_Missense_Mutation_p.S1606P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8683	Ser-rich.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GGACTCACAGACCCTGAGGTG	0.512										HNSCC(10;0.0054)			10	211					0	0	0.010729	0	0		G	152453304	G	G	152453304	3	3	160	1	0	0	0	0	1	0	0	0	15470	275	10	3	358	3	SYNE1	6	152453304	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	765884	152453304	18661763	460	87730											
SYNE1	23345	broad.mit.edu	37	chr6	152737700	152737700	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctggatcctctctacctCtccacagagctgatcagccg	7	11	8	15	1	4	2	1	1	3	1	7	3	5	3	4	1	3	2	4	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:152737700C>A	uc010kiw.2	-	41	6474	c.5872G>T	c.(5872-5874)GAG>TAG	p.E1958*	SYNE1_uc003qot.3_Nonsense_Mutation_p.E1965*|SYNE1_uc003qou.3_Nonsense_Mutation_p.E1958*|SYNE1_uc010kjb.1_Nonsense_Mutation_p.E1941*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1958	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTCTCTACCTCTCCACAGAGC	0.507										HNSCC(10;0.0054)			78	255					4.22592e-57	4.7758e-57	0.01441	1	0		A	152737700	A	A	152737700	4	1	160	1	0	0	0	0	0	1	0	0	15470	922	32	5	21018	5	SYNE1	6	152737700	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	284396	152737700	18377367	461	87731											
SYNE1	23345	broad.mit.edu	37	chr6	152783944	152783944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttcagaaagtttcttatgggCttccgttgcaaaagcagaca	12	12	9	8	1	2	2	1	0	1	2	3	2	3	2	1	1	2	5	1	1	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:152783944C>T	uc010kiw.2	-	20	2781	c.2179G>A	c.(2179-2181)GCC>ACC	p.A727T	SYNE1_uc003qot.3_Missense_Mutation_p.A734T|SYNE1_uc003qou.3_Missense_Mutation_p.A727T|SYNE1_uc010kjb.1_Missense_Mutation_p.A710T|SYNE1_uc003qpa.1_Missense_Mutation_p.A727T|SYNE1_uc003qow.2_Missense_Mutation_p.A22T|SYNE1_uc003qox.1_Missense_Mutation_p.A243T|SYNE1_uc003qoz.2_Missense_Mutation_p.A159T|SYNE1_uc003qoy.2_Missense_Mutation_p.A294T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	727	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTCTTATGGGCTTCCGTTGCA	0.403										HNSCC(10;0.0054)			48	108					0	0	0.01441	0	0		T	152783944	T	T	152783944	3	4	160	1	0	0	0	0	1	0	0	0	15470	797	28	2	24795	2	SYNE1	6	152783944	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	46244	152783944	18331123	462	87732											
TIAM2	26230	broad.mit.edu	37	chr6	155574159	155574159	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttgatccccatctccgcGcttcaagtcagactggggaa	8	10	11	12	2	3	2	2	1	1	1	5	3	4	3	3	3	0	2	3	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:155574159G>A	uc003qqb.2	+	26	5470	c.4197G>A	c.(4195-4197)GCG>GCA	p.A1399A	TIAM2_uc003qqe.2_Silent_p.A1399A|TIAM2_uc010kjj.2_Silent_p.A961A|TIAM2_uc003qqf.2_Silent_p.A775A|TIAM2_uc011efl.1_Silent_p.A735A|TIAM2_uc003qqg.2_Silent_p.A711A|TIAM2_uc003qqh.2_Silent_p.A324A	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1399	PH 2.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CCATCTCCGCGCTTCAAGTCA	0.438													16	40					0	0	0.004007	0	0		A	155574159	A	A	155574159	2	1	160	1	0	0	0	0	0	0	0	1	15916	1074	38	1		1	TIAM2	6	155574159	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2790215	155574159	15540908	463	87733											
SYNJ2	8871	broad.mit.edu	37	chr6	158492692	158492692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaggcggggaacaagggcGccgtcggcatccgcttccag	8	4	16	13	5	0	0	0	0	0	0	3	1	2	1	3	5	1	3	3	5	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:158492692G>A	uc003qqx.1	+	15	2074	c.1999G>A	c.(1999-2001)GCC>ACC	p.A667T	SYNJ2_uc003qqw.1_Missense_Mutation_p.A667T|SYNJ2_uc003qqy.1_Missense_Mutation_p.A380T|SYNJ2_uc003qqz.1_Missense_Mutation_p.A284T|SYNJ2_uc003qra.1_Missense_Mutation_p.A10T	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	667	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		GAACAAGGGCGCCGTCGGCAT	0.607													18	39					0	0	0.008871	0	0		A	158492692	A	A	158492692	3	1	160	1	0	0	0	0	1	0	0	0	15478	1087	38	1	2057	1	SYNJ2	6	158492692	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2918533	158492692	12622375	464	87734											
PACRG	135138	broad.mit.edu	37	chr6	163510322	163510322	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccgaaaccgacaggtcatCtgtgtcactctcaaggtcct	9	10	8	14	2	4	0	3	0	2	0	7	2	6	0	3	2	1	0	3	2	2	0	rs150756193	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:163510322C>T	uc003qua.2	+	5	719	c.495C>T	c.(493-495)ATC>ATT	p.I165I	PACRG_uc003qub.2_Silent_p.I165I|PACRG_uc003quc.2_Silent_p.I165I	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	165											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		GACAGGTCATCTGTGTCACTC	0.463													9	188					0	0	0.008291	0	0		T	163510322	T	T	163510322	2	4	160	1	0	0	0	0	0	0	0	1	11389	903	32	4		4	PACRG	6	163510322	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5017630	163510322	7604745	465	87735											
DLL1	28514	broad.mit.edu	37	chr6	170592537	170592537	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttggtgttcttgatctgCgtggccccgatgatgctgac	4	15	13	9	2	2	3	0	3	2	0	2	4	2	3	2	2	2	3	2	2	0	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr6:170592537C>T	uc003qxm.2	-	9	2300	c.1830G>A	c.(1828-1830)ACG>ACA	p.T610T		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	610	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TCTTGATCTGCGTGGCCCCGA	0.622													74	142					0	0	0.01441	0	0		T	170592537	T	T	170592537	2	4	160	1	0	0	0	0	0	0	0	1	4572	755	27	1		1	DLL1	6	170592537	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	7082215	170592537	522530	466	87736											
INTS1	26173	broad.mit.edu	37	chr7	1539187	1539187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcattctggtgttgaaggCcgtctggatgttgtccacaa	7	12	14	8	1	2	1	0	1	2	0	3	2	3	2	2	4	0	3	2	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:1539187C>T	uc003skn.2	-	6	867	c.766G>A	c.(766-768)GCC>ACC	p.A256T	INTS1_uc003skq.2_Missense_Mutation_p.A256T	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	256					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		GTGTTGAAGGCCGTCTGGATG	0.652													17	19					0	0	0.006122	0	0		T	1539187	T	T	1539187	3	4	160	1	0	0	0	0	1	0	0	0	7791	739	26	2	5978	2	INTS1	7	1539187	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		1539187	157599476	467	87737											
FBXL18	80028	broad.mit.edu	37	chr7	5545127	5545127	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccgacaggtacgccggacGttcagaatcagatctgtgct	9	10	11	11	4	3	2	2	0	1	2	4	4	4	3	2	2	2	3	2	2	2	3	rs145119070	by1000genomes	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:5545127G>A	uc003soo.2	-	2	247	c.153C>T	c.(151-153)AAC>AAT	p.N51N	FBXL18_uc003son.3_Silent_p.N51N	NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	51	F-box.									central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		TACGCCGGACGTTCAGAATCA	0.587													9	111					0	0	0.006214	0	0		A	5545127	A	A	5545127	2	1	160	1	0	0	0	0	0	0	0	1	5728	1136	40	1		1	FBXL18	7	5545127	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4005940	5545127	153593536	468	87738											
RAC1	5879	broad.mit.edu	37	chr7	6442041	6442041	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcctctgcccgcctccCgtgaagaagaggaagagaaa	12	5	12	12	2	1	4	0	1	1	3	3	6	3	5	4	1	1	1	4	1	4	0	rs144238799	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:6442041C>T	uc003spx.2	+	6	784	c.543C>T	c.(541-543)CCC>CCT	p.P181P	RAC1_uc003spw.2_Silent_p.P200P	NM_006908	NP_008839	P63000	RAC1_HUMAN	ras-related C3 botulinum toxin substrate 1	181					actin filament polymerization|apoptosis|axon guidance|cell motility|cell-matrix adhesion|induction of apoptosis by extracellular signals|inflammatory response|lamellipodium assembly|localization within membrane|negative regulation of interleukin-23 production|negative regulation of receptor-mediated endocytosis|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of lamellipodium assembly|positive regulation of Rho protein signal transduction|regulation of cell migration|regulation of defense response to virus by virus|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|ruffle organization|small GTPase mediated signal transduction|T cell costimulation|viral reproduction	cytosol|melanosome|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity|thioesterase binding			lung(2)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.104)	Pravastatin(DB00175)|Simvastatin(DB00641)	GCCCGCCTCCCGTGAAGAAGA	0.522													6	30					0	0	0.001168	0	0		T	6442041	T	T	6442041	2	4	160	1	0	0	0	0	0	0	0	1	12999	639	23	1		1	RAC1	7	6442041	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	896914	6442041	152696622	469	87739											
DNAH11	8701	broad.mit.edu	37	chr7	21939668	21939669	+	Frame_Shift_Ins	INS	-	A	A																															gcttgactgctgatgttaccINSaaaaaaacaaaggaagatta																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:21939668_21939669insA	uc003svc.2	+	82	13285_13286	c.13254_13255insA	c.(13252-13257)ACCAAAfs	p.T4418fs		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	4418_4419					microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTGATGTTACCAAAAAAACAAA	0.465									Kartagener_syndrome				48	50	---	---	---	---						.	A	21939669	A	A	21939668	7	5	160	1	0	1	1	0	0	0	0	0	4605	581	21	0	13577	0	DNAH11	7	21939668	Frame_Shift_Ins	INS	-	TCGA-CG-5733-01A-11D-1600-08	15497627	21939668	137198995	470	87740											
HOXA6	3203	broad.mit.edu	37	chr7	27185513	27185513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggtctggcggcctcggcGcccatggctcccatacacag	6	7	13	15	3	1	0	0	0	1	0	3	0	2	0	3	5	1	2	3	5	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:27185513G>A	uc003syo.1	-	2	466	c.466C>T	c.(466-468)CGC>TGC	p.R156C	HOXA5_uc003syn.1_5'Flank|uc003syp.1_5'Flank	NM_024014	NP_076919	P31267	HXA6_HUMAN	homeobox A6	156	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CGGCCTCGGCGCCCATGGCTC	0.657													37	49					0	0	0.009718	0	0		A	27185513	A	A	27185513	3	1	160	1	0	0	0	0	1	0	0	0	7312	1087	38	1	239	1	HOXA6	7	27185513	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5245845	27185513	131953150	471	87741											
LOC402644	402644	broad.mit.edu	37	chr7	28319221	28319221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagagcacgaacgttttctGctgtctttggaaacttttct	8	16	8	9	2	4	1	1	0	3	1	4	3	4	2	0	1	4	3	0	1	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:28319221G>A	uc010kuz.1	-	1	98	c.98C>T	c.(97-99)GCA>GTA	p.A33V		NM_001126493	NP_001119965			hypothetical protein LOC402644												0						AACGTTTTCTGCTGTCTTTGG	0.478													32	97					0	0	0.010818	0	0		A	28319221	A	A	28319221	3	1	160	1	0	0	0	0	1	0	0	0	8896	1319	46	2	382	2	LOC402644	7	28319221	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1133708	28319221	130819442	472	87742											
ZNRF2	223082	broad.mit.edu	37	chr7	30363339	30363339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgtgtttaacaaagccacGaataacctataatggtaagt	17	11	7	6	1	0	0	0	0	0	0	0	1	0	0	2	1	3	2	2	1	8	6	rs142290977		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:30363339G>A	uc003tat.2	+	2	1602	c.551G>A	c.(550-552)CGA>CAA	p.R184Q		NM_147128	NP_667339	Q8NHG8	ZNRF2_HUMAN	zinc finger/RING finger 2	184						cell junction|endosome membrane|lysosomal membrane|presynaptic membrane	ligase activity|zinc ion binding				0						ACAAAGCCACGAATAACCTAT	0.269													77	238					0	0	0.01441	0	0		A	30363339	A	A	30363339	3	1	160	1	0	0	0	0	1	0	0	0	18237	1058	37	1	557	1	ZNRF2	7	30363339	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2044118	30363339	128775324	473	87743											
AOAH	313	broad.mit.edu	37	chr7	36763673	36763673	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcctggactggtcatcGttggctggagaggccgagga	6	8	18	9	2	1	1	1	0	0	1	2	5	1	3	2	7	0	2	2	7	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:36763673G>A	uc003tfh.3	-	1	482	c.81C>T	c.(79-81)AAC>AAT	p.N27N	AOAH_uc010kxf.2_Silent_p.N27N|AOAH_uc011kba.1_Silent_p.N27N	NM_001637	NP_001628	P28039	AOAH_HUMAN	acyloxyacyl hydrolase precursor	27					inflammatory response|lipid metabolic process	extracellular region	acyloxyacyl hydrolase activity|lipoprotein lipase activity			skin(1)	1						ACTGGTCATCGTTGGCTGGAG	0.502													11	36					0	0	0.012319	0	0		A	36763673	A	A	36763673	2	1	160	1	0	0	0	0	0	0	0	1	726	1136	40	1		1	AOAH	7	36763673	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6400334	36763673	122374990	474	87744											
TXNDC3	51314	broad.mit.edu	37	chr7	37896881	37896881	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttactttttccaggcagaAgctgacaacattgtgacttt	10	15	8	8	0	0	3	0	2	0	1	1	3	1	3	1	1	3	3	1	1	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:37896881A>G	uc003tfn.2	+	6	576	c.204A>G	c.(202-204)GAA>GAG	p.E68E		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	68	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TCCAGGCAGAAGCTGACAACA	0.274									Kartagener_syndrome				29	64					0	0	0.012213	0	0		G	37896881	G	G	37896881	2	3	160	1	0	0	0	0	0	0	0	1	16824	69	3	3		3	TXNDC3	7	37896881	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1133208	37896881	121241782	475	87745											
HECW1	23072	broad.mit.edu	37	chr7	43484813	43484813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcgtcctgctgcagcccctCgtgctacagctcctcgtgct	3	10	10	18	4	0	0	0	0	0	0	4	0	2	0	4	0	7	5	4	0	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:43484813C>T	uc003tid.1	+	11	2647	c.2042C>T	c.(2041-2043)TCG>TTG	p.S681L	HECW1_uc011kbi.1_Missense_Mutation_p.S681L	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	681	Cys-rich.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TGCAGCCCCTCGTGCTACAGC	0.672													27	30					0	0	0.005443	0	0		T	43484813	T	T	43484813	3	4	160	1	0	0	0	0	1	0	0	0	7058	893	31	1	2076	1	HECW1	7	43484813	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5587932	43484813	115653850	476	87746											
TNS3	64759	broad.mit.edu	37	chr7	47408471	47408471	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	ctacaaccatctgctgctggCgcacccaggtctgtgtggag	7	9	12	13	1	2	0	0	0	2	0	2	1	2	1	2	3	4	3	2	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:47408471C>A	uc003tnv.2	-	17	2139	c.1772G>T	c.(1771-1773)CGC>CTC	p.R591L	TNS3_uc003tnw.2_Missense_Mutation_p.R591L	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	591						focal adhesion	protein binding			ovary(4)	4						CTGCTGCTGGCGCACCCAGGT	0.647													20	77					1.28384e-07	1.35613e-07	0.012319	1	0		A	47408471	A	A	47408471	3	1	160	1	0	0	0	0	1	0	0	0	16369	768	27	5	2625	5	TNS3	7	47408471	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3923658	47408471	111730192	477	87747											
VWC2	375567	broad.mit.edu	37	chr7	49842417	49842417	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtacgagcctgatcagtgCtgtcccatctgcaaaaatgg	10	10	11	10	1	2	1	1	1	1	0	3	2	3	1	2	1	4	3	2	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:49842417C>T	uc003tot.1	+	3	1363	c.807C>T	c.(805-807)TGC>TGT	p.C269C		NM_198570	NP_940972	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	269	VWFC 2.				negative regulation of BMP signaling pathway|positive regulation of neuron differentiation	basement membrane|extracellular space					0						CTGATCAGTGCTGTCCCATCT	0.582													35	45					0	0	0.00623	0	0		T	49842417	T	T	49842417	2	4	160	1	0	0	0	0	0	0	0	1	17269	805	28	2		2	VWC2	7	49842417	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2433946	49842417	109296246	478	87748											
AUTS2	26053	broad.mit.edu	37	chr7	70254989	70254989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgaggggcgcgccgcGggcgaagaggccaagcagct	8	1	19	13	6	0	1	0	0	0	1	0	3	0	1	3	5	2	2	3	5	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:70254989G>A	uc003tvw.3	+	19	3530	c.2787G>A	c.(2785-2787)GCG>GCA	p.A929A	AUTS2_uc003tvx.3_Silent_p.A905A|AUTS2_uc011keg.1_Silent_p.A381A	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	929										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GGCGCGCCGCGGGCGAAGAGG	0.726													3	2					0	0	0.009096	0	0		A	70254989	A	A	70254989	2	1	160	1	0	0	0	0	0	0	0	1	1226	1103	39	1		1	AUTS2	7	70254989	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	20412572	70254989	88883674	479	87749											
WBSCR17	64409	broad.mit.edu	37	chr7	70597984	70597984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggatgcggtcctgaagCgcctgtcgctgctggaggac	6	8	15	12	3	0	1	0	1	0	0	3	4	2	4	3	4	3	2	3	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:70597984C>T	uc003tvy.2	+	1	196	c.196C>T	c.(196-198)CGC>TGC	p.R66C		NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	66	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GGTCCTGAAGCGCCTGTCGCT	0.721													6	9					0	0	0.001984	0	0		T	70597984	T	T	70597984	3	4	160	1	0	0	0	0	1	0	0	0	17290	768	27	1	198	1	WBSCR17	7	70597984	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	342995	70597984	88540679	480	87750											
POM121	9883	broad.mit.edu	37	chr7	72412620	72412620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagccacatctgccccGtcccccgcccccaagcaaag	9	3	6	23	2	1	0	0	0	1	0	2	0	2	0	9	0	3	1	9	0	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:72412620G>A	uc003twk.2	+	11	2088	c.2088G>A	c.(2086-2088)CCG>CCA	p.P696P	POM121_uc003twj.2_Silent_p.P431P|POM121_uc010lam.1_Silent_p.P431P	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	696	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				CATCTGCCCCGTCCCCCGCCC	0.607													7	45					0	0	0.001855	0	0		A	72412620	A	A	72412620	2	1	160	1	0	0	0	0	0	0	0	1	12258	1132	40	1		1	POM121	7	72412620	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1814636	72412620	86726043	481	87751											
FKBP6	8468	broad.mit.edu	37	chr7	72756821	72756821	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccagctgttacagggactAtgtggataaagagaaagaaa	16	8	11	6	0	0	2	0	0	0	2	1	5	1	4	1	2	2	2	1	2	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:72756821A>G	uc003tya.2	+	8	1040	c.908A>G	c.(907-909)TAT>TGT	p.Y303C	FKBP6_uc003twz.2_Missense_Mutation_p.Y273C|FKBP6_uc011kew.1_Missense_Mutation_p.Y298C	NM_003602	NP_003593	O75344	FKBP6_HUMAN	FK506 binding protein 6 isoform a	303					protein folding	membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				TACAGGGACTATGTGGATAAA	0.512											OREG0018106	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	99	137					0	0	0.01441	0	0		G	72756821	G	G	72756821	3	3	160	1	0	0	0	0	1	0	0	0	5926	449	16	3	984	3	FKBP6	7	72756821	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	344201	72756821	86381842	482	87752											
WBSCR27	155368	broad.mit.edu	37	chr7	73254783	73254783	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggcccagggtgcagaGgctgaggcgctgatagaggc	7	6	17	11	1	0	4	0	2	0	2	1	4	1	4	2	5	1	3	2	5	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:73254783G>T	uc003tzj.2	-	4	389	c.349C>A	c.(349-351)CTC>ATC	p.L117I	RFC2_uc011kfa.1_Intron|WBSCR27_uc011kfd.1_Intron	NM_152559	NP_689772	Q8N6F8	WBS27_HUMAN	Williams-Beuren syndrome chromosome region 27	117										central_nervous_system(1)	1		Lung NSC(55;0.159)				AGGGTGCAGAGGCTGAGGCGC	0.677													3	3					1.23904e-05	1.29712e-05	0.000602	1	0		T	73254783	T	T	73254783	3	4	160	1	0	0	0	0	1	0	0	0	17292	1000	35	5	400	5	WBSCR27	7	73254783	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	497962	73254783	85883880	483	87753											
CLIP2	7461	broad.mit.edu	37	chr7	73770775	73770775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acccaagtttggtctcttcgCgcccatccacaaagtgatcc	9	10	7	15	2	1	1	0	1	1	0	5	1	3	1	4	1	0	1	4	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:73770775C>T	uc003uam.2	+	5	1166	c.839C>T	c.(838-840)GCG>GTG	p.A280V	CLIP2_uc003uan.2_Missense_Mutation_p.A280V	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	280	CAP-Gly 2.					microtubule associated complex				skin(3)	3						GGTCTCTTCGCGCCCATCCAC	0.597													22	119					0	0	0.003954	0	0		T	73770775	T	T	73770775	3	4	160	1	0	0	0	0	1	0	0	0	3536	768	27	1	853	1	CLIP2	7	73770775	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	515992	73770775	85367888	484	87754											
PCLO	27445	broad.mit.edu	37	chr7	82784433	82784433	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggctgttgaggtgggggTtttgttgagccaggctgttg	4	13	18	6	0	0	2	0	2	0	0	0	2	0	2	2	5	1	6	2	5	0	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:82784433T>G	uc003uhx.2	-	2	1813	c.1524A>C	c.(1522-1524)AAA>AAC	p.K508N	PCLO_uc003uhv.2_Missense_Mutation_p.K508N	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	454	Gln-rich.|Pro-rich.|10 X 10 AA tandem approximate repeats of P-A-K-P-Q-P-Q-Q-P-X.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GAGGTGGGGGTTTTGTTGAGC	0.607													48	220					0	0	0.01441	0	0		G	82784433	G	G	82784433	3	3	160	1	0	0	0	0	1	0	0	0	11602	1722	60	5	14017	5	PCLO	7	82784433	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	9013658	82784433	76354230	485	87755											
ABCB1	5243	broad.mit.edu	37	chr7	87183124	87183124	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccctgagaggaccaaggtggTcccataccagaaggccagag	12	4	13	12	0	0	3	0	1	0	3	1	5	1	4	5	4	1	0	5	4	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:87183124T>C	uc003uiz.1	-	10	1370	c.952A>G	c.(952-954)ACC>GCC	p.T318A	ABCB1_uc011khc.1_Missense_Mutation_p.T254A	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	318	ABC transmembrane type-1 1.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	ACCAAGGTGGTCCCATACCAG	0.383													53	220					0	0	0.01441	0	0		C	87183124	C	C	87183124	3	2	160	1	0	0	0	0	1	0	0	0	40	1667	58	3	2970	3	ABCB1	7	87183124	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	4398691	87183124	71955539	486	87756											
DBF4	10926	broad.mit.edu	37	chr7	87507389	87507389	+	Frame_Shift_Del	DEL	A	-	-																															tggaatccaagtcaaaaatgAaaaaaacagaccatctctga																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:87507389delA	uc003ujf.1	+	2	572	c.68delA	c.(67-69)GAAfs	p.E23fs	SLC25A40_uc003uje.2_5'Flank|DBF4_uc003ujh.1_5'UTR|DBF4_uc003ujg.1_5'UTR|DBF4_uc011khf.1_5'UTR	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	23					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				GTCAAAAATGAAAAAAACAGA	0.299													105	146	---	---	---	---						.	-	87507389	-	-	87507389	7	5	160	1	0	1	0	1	0	0	0	0	4251	246	9	0	74	0	DBF4	7	87507389	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	324265	87507389	71631274	487	87757											
ADAM22	53616	broad.mit.edu	37	chr7	87737537	87737537	+	Missense_Mutation	SNP	A	G	G	1	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	ccatatccgaggaaaccctgActcatttgttgcattgtcaa	11	12	7	11	1	2	1	2	1	0	0	3	3	3	2	3	1	2	2	3	1	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:87737537A>G	uc003ujn.2	+	5	516	c.437A>G	c.(436-438)GAC>GGC	p.D146G	ADAM22_uc003uji.1_Missense_Mutation_p.D145G|ADAM22_uc003ujj.1_Missense_Mutation_p.D146G|ADAM22_uc003ujk.1_Missense_Mutation_p.D146G|ADAM22_uc003ujl.1_Missense_Mutation_p.D146G|ADAM22_uc003ujm.2_Missense_Mutation_p.D146G|ADAM22_uc003ujo.2_Missense_Mutation_p.D146G|ADAM22_uc003ujp.1_Missense_Mutation_p.D198G	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	146					cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GGAAACCCTGACTCATTTGTT	0.363													25	93					0	0	0.008361	0	0		G	87737537	G	G	87737537	3	3	160	1	0	0	0	0	1	0	0	0	244	275	10	3	455	3	ADAM22	7	87737537	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	230148	87737537	71401126	488	87758											
ZNF804B	219578	broad.mit.edu	37	chr7	88965927	88965927	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctatcaccaccatccacCacacgttcctgcagcatttt	9	12	3	17	1	2	0	1	0	1	0	4	0	4	0	5	0	2	3	5	0	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:88965927C>A	uc011khi.1	+	4	4169	c.3631C>A	c.(3631-3633)CAC>AAC	p.H1211N		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1211						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CACCATCCACCACACGTTCCT	0.502										HNSCC(36;0.09)			5	284					0.000602214	0.00061893	0.000602	1	0		A	88965927	A	A	88965927	3	1	160	1	0	0	0	0	1	0	0	0	18196	594	21	5	3645	5	ZNF804B	7	88965927	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1228390	88965927	70172736	489	87759											
COL1A2	1278	broad.mit.edu	37	chr7	94055071	94055071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctttggtagggagagcgcGgttaccctggcaatattggt	7	11	15	8	2	0	1	0	0	0	1	0	2	0	1	2	5	2	3	2	5	4	5	rs72659312		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:94055071G>A	uc003ung.1	+	44	3316	c.2845G>A	c.(2845-2847)GGT>AGT	p.G949S	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	949			G -> S (in OI3; moderate).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	GGGAGAGCGCGGTTACCCTGG	0.488										HNSCC(75;0.22)			17	45					0	0	0.004007	0	0		A	94055071	A	A	94055071	3	1	160	1	0	0	0	0	1	0	0	0	3681	1116	39	1	3019	1	COL1A2	7	94055071	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5089144	94055071	65083592	490	87760											
PEG10	23089	broad.mit.edu	37	chr7	94293701	94293701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagccggtgggaggtgcccGcatgcgcctgacgcaggaag	7	4	18	12	5	0	1	0	1	0	0	0	4	0	3	3	4	3	2	3	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:94293701G>A	uc011kie.1	+	2	1278	c.1061G>A	c.(1060-1062)CGC>CAC	p.R354H		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	278					apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding	p.R278H(1)		central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			GGAGGTGCCCGCATGCGCCTG	0.602													6	7					0	0	0.006214	0	0		A	94293701	A	A	94293701	3	1	160	1	0	0	0	0	1	0	0	0	11738	1087	38	1	1067	1	PEG10	7	94293701	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	238630	94293701	64844962	491	87761											
DYNC1I1	1780	broad.mit.edu	37	chr7	95614280	95614280	+	Frame_Shift_Del	DEL	A	-	-																															cagcggccgagagttagaggAaaaagatgggttagtctctt																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:95614280delA	uc003uoc.3	+	8	1062	c.785delA	c.(784-786)GAAfs	p.E262fs	DYNC1I1_uc003uod.3_Frame_Shift_Del_p.E245fs|DYNC1I1_uc003uob.2_Frame_Shift_Del_p.E225fs|DYNC1I1_uc003uoe.3_Frame_Shift_Del_p.E242fs|DYNC1I1_uc010lfl.2_Frame_Shift_Del_p.E251fs	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	262					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			GAGTTAGAGGAAAAAGATGGG	0.358													108	169	---	---	---	---						.	-	95614280	-	-	95614280	7	5	160	1	0	1	0	1	0	0	0	0	4848	246	9	0	811	0	DYNC1I1	7	95614280	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	1320579	95614280	63524383	492	87762											
MCM7	4176	broad.mit.edu	37	chr7	99695360	99695360	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgccagcttttcgtagaAatcctcctctgtagagaagt	10	12	9	10	1	1	2	0	0	1	2	4	3	3	2	3	0	3	4	3	0	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:99695360A>C	uc003usw.1	-	9	1504	c.994T>G	c.(994-996)TTC>GTC	p.F332V	MCM7_uc003usv.1_Missense_Mutation_p.F156V|MCM7_uc003usx.1_Missense_Mutation_p.F156V	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	332	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	TTTTCGTAGAAATCCTCCTCT	0.507													100	413					0	0	0.01441	0	0		C	99695360	C	C	99695360	3	2	160	1	0	0	0	0	1	0	0	0	9410	14	1	5	1193	5	MCM7	7	99695360	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4081080	99695360	59443303	493	87763											
FBXO24	26261	broad.mit.edu	37	chr7	100192820	100192820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accccctggaccagcagatgCcgcttgctctctcactgcct	6	9	8	18	1	2	1	1	0	1	1	3	2	2	2	5	1	4	3	5	1	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:100192820C>T	uc003uvm.1	+	7	1341	c.1048C>T	c.(1048-1050)CCG>TCG	p.P350S	FBXO24_uc003uvl.1_Intron|FBXO24_uc003uvn.1_Missense_Mutation_p.P45S|uc011kjy.1_Intron|FBXO24_uc011kjz.1_Missense_Mutation_p.P388S|FBXO24_uc011kka.1_Missense_Mutation_p.P338S	NM_033506	NP_277041	O75426	FBX24_HUMAN	F-box only protein 24 isoform 1	350						ubiquitin ligase complex	ubiquitin-protein ligase activity			ovary(3)|skin(1)	4	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CCAGCAGATGCCGCTTGCTCT	0.582													52	70					0	0	0.01441	0	0		T	100192820	T	T	100192820	3	4	160	1	0	0	0	0	1	0	0	0	5749	739	26	2	1231	2	FBXO24	7	100192820	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	497460	100192820	58945843	494	87764											
MUC17	140453	broad.mit.edu	37	chr7	100680596	100680596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	attctcaagccagttcatctCctacaactgctgatggtacc	10	12	6	13	0	3	1	2	1	2	0	5	1	3	1	3	1	5	3	3	1	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:100680596C>T	uc003uxp.1	+	3	5952	c.5899C>T	c.(5899-5901)CCT>TCT	p.P1967S	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1967	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|31.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CAGTTCATCTCCTACAACTGC	0.502													242	301					0	0	0.01441	0	0		T	100680596	T	T	100680596	3	4	160	1	0	0	0	0	1	0	0	0	9992	855	30	4	5909	4	MUC17	7	100680596	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	487776	100680596	58458067	495	87765											
MUC17	140453	broad.mit.edu	37	chr7	100680955	100680955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccagttcatctgcaacCgctgaaggtagcagcatgac	12	7	11	11	1	2	2	1	2	1	0	2	3	2	2	2	1	5	6	2	1	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:100680955C>T	uc003uxp.1	+	3	6311	c.6258C>T	c.(6256-6258)ACC>ACT	p.T2086T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2086	Extracellular (Potential).|33.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CATCTGCAACCGCTGAAGGTA	0.502													6	383					0	0	0.004482	0	0		T	100680955	T	T	100680955	2	4	160	1	0	0	0	0	0	0	0	1	9992	639	23	1		1	MUC17	7	100680955	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	359	100680955	58457708	496	87766											
ALKBH4	54784	broad.mit.edu	37	chr7	102098296	102098296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagtccaggttgcactgctCgacgggccggaagccctcca	7	7	13	14	3	0	0	0	0	0	0	3	2	2	1	4	3	3	4	4	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:102098296C>T	uc003uzl.2	-	3	459	c.454G>A	c.(454-456)GAG>AAG	p.E152K	ALKBH4_uc003uzm.2_Missense_Mutation_p.E79K	NM_017621	NP_060091	Q9NXW9	ALKB4_HUMAN	alkB, alkylation repair homolog 4	152						cytoplasm|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TTGCACTGCTCGACGGGCCGG	0.692													9	38					0	0	0.006214	0	0		T	102098296	T	T	102098296	3	4	160	1	0	0	0	0	1	0	0	0	529	893	31	1	458	1	ALKBH4	7	102098296	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1417341	102098296	57040367	497	87767											
LRRC17	10234	broad.mit.edu	37	chr7	102584826	102584826	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacctctactactggttaaaGcaccactacaatgtccattt	12	13	4	12	0	1	0	0	0	1	0	2	0	2	0	3	1	5	2	3	1	7	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:102584826G>A	uc003vau.2	+	4	1487	c.1098G>A	c.(1096-1098)AAG>AAA	p.K366K	FBXL13_uc010liq.1_Intron|FBXL13_uc003vaq.2_Intron|FBXL13_uc010lir.1_Intron|FBXL13_uc003var.2_Intron|FBXL13_uc003vas.2_Intron|LRRC17_uc003vat.2_3'UTR	NM_001031692	NP_001026862	Q8N6Y2	LRC17_HUMAN	leucine rich repeat containing 17 isoform 1	366	LRRCT 2.				bone marrow development|negative regulation of osteoclast differentiation|ossification	extracellular space				ovary(1)	1						ACTGGTTAAAGCACCACTACA	0.378													83	262					0	0	0.01441	0	0		A	102584826	A	A	102584826	2	1	160	1	0	0	0	0	0	0	0	1	8991	962	34	2		2	LRRC17	7	102584826	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	486530	102584826	56553837	498	87768											
SRPK2	6733	broad.mit.edu	37	chr7	104787044	104787044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacatcaagatattttccGgctttatgtcagtatgaatg	12	14	7	8	1	2	2	2	1	0	1	3	2	3	2	1	1	0	2	1	1	5	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:104787044G>A	uc003vct.2	-	7	837	c.650C>T	c.(649-651)CCG>CTG	p.P217L	SRPK2_uc003vcu.2_Missense_Mutation_p.P217L|SRPK2_uc003vcv.2_Missense_Mutation_p.P228L|SRPK2_uc003vcw.1_Missense_Mutation_p.P217L	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	217	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GATATTTTCCGGCTTTATGTC	0.423													37	68					0	0	0.00874	0	0		A	104787044	A	A	104787044	3	1	160	1	0	0	0	0	1	0	0	0	15185	1116	39	1	1452	1	SRPK2	7	104787044	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2202218	104787044	54351619	499	87769											
PRKAR2B	5577	broad.mit.edu	37	chr7	106797745	106797745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgagcagcttctgcccacGccattgggactgtcaaatgt	8	10	10	13	2	2	0	1	0	1	0	3	2	2	1	2	1	3	2	2	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:106797745G>A	uc003vdx.2	+	10	1274	c.1099G>A	c.(1099-1101)GCC>ACC	p.A367T		NM_002736	NP_002727	P31323	KAP3_HUMAN	cAMP-dependent protein kinase, regulatory	367	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G2/M transition of mitotic cell cycle|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1						TTCTGCCCACGCCATTGGGAC	0.483													30	37					0	0	0.007291	0	0		A	106797745	A	A	106797745	3	1	160	1	0	0	0	0	1	0	0	0	12528	1087	38	1	1137	1	PRKAR2B	7	106797745	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2010701	106797745	52340918	500	87770											
DLD	1738	broad.mit.edu	37	chr7	107542201	107542201	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttgatgctgatgtaacagTtataggttctggtcctggag	9	14	13	5	0	1	2	0	2	1	0	2	3	2	3	1	3	2	5	1	3	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:107542201T>G	uc003vet.2	+	3	247	c.137T>G	c.(136-138)GTT>GGT	p.V46G	DLD_uc010ljm.1_RNA|DLD_uc011kmg.1_Missense_Mutation_p.V46G|DLD_uc011kmh.1_Missense_Mutation_p.V46G|DLD_uc011kmi.1_Intron	NM_000108	NP_000099	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase precursor	46					branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)	GATGTAACAGTTATAGGTTCT	0.323													10	197					0	0	0.010729	0	0		G	107542201	G	G	107542201	3	3	160	1	0	0	0	0	1	0	0	0	4557	1725	60	5	147	5	DLD	7	107542201	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	744456	107542201	51596462	501	87771											
LAMB1	3912	broad.mit.edu	37	chr7	107599833	107599833	+	Missense_Mutation	SNP	A	G	G	1	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	cccaggtaagcaccgatcacActgccgagcatacactccct	11	6	7	17	2	1	0	1	0	0	0	2	2	2	0	4	1	4	3	4	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:107599833A>G	uc003vew.2	-	20	2886	c.2551T>C	c.(2551-2553)TGT>CGT	p.C851R	LAMB1_uc003vev.2_Missense_Mutation_p.C875R	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	851	Laminin EGF-like 7.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CACCGATCACACTGCCGAGCA	0.572													6	118					0	0	0.00308	0	0		G	107599833	G	G	107599833	3	3	160	1	0	0	0	0	1	0	0	0	8626	159	6	3	2869	3	LAMB1	7	107599833	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	57632	107599833	51538830	502	87772											
WNT2	7472	broad.mit.edu	37	chr7	116955140	116955140	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cataccttcctgccagctctGttgttgtgaagattcatcag	8	14	8	11	0	3	2	2	1	1	1	4	2	4	2	3	0	3	3	3	0	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:116955140G>T	uc003viz.2	-	3	873	c.573C>A	c.(571-573)AAC>AAA	p.N191K	WNT2_uc003vja.2_Missense_Mutation_p.N95K	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	191					atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity			breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		TGCCAGCTCTGTTGTTGTGAA	0.403													54	196					3.76997e-23	4.18654e-23	0.01441	1	0		T	116955140	T	T	116955140	3	4	160	1	0	0	0	0	1	0	0	0	17412	1368	48	5	521	5	WNT2	7	116955140	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	9355307	116955140	42183523	503	87773											
SLC13A1	6561	broad.mit.edu	37	chr7	122765656	122765656	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggtgtagttttagtcagtgTcttagctgggataagaaaga	12	13	13	3	0	2	2	1	0	1	2	2	3	2	3	0	2	1	3	0	2	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:122765656T>C	uc003vkm.2	-	11	1232	c.1207A>G	c.(1207-1209)ACA>GCA	p.T403A	SLC13A1_uc010lks.2_Missense_Mutation_p.T279A	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	403						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TTAGTCAGTGTCTTAGCTGGG	0.338													6	315					0	0	0.00308	0	0		C	122765656	C	C	122765656	3	2	160	1	0	0	0	0	1	0	0	0	14416	1667	58	3	600	3	SLC13A1	7	122765656	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	5810516	122765656	36373007	504	87774											
WASL	8976	broad.mit.edu	37	chr7	123346379	123346379	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgtaactgcttttcgaaAtttttttgcttcttcttcat	6	22	5	8	1	4	0	1	0	3	0	5	1	4	0	0	0	3	3	0	0	2	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:123346379A>T	uc003vkz.2	-	4	716	c.388T>A	c.(388-390)TTT>ATT	p.F130I		NM_003941	NP_003932	O00401	WASL_HUMAN	Wiskott-Aldrich syndrome gene-like protein	130	WH1.				actin polymerization or depolymerization|axon guidance|cellular component movement|nitric oxide metabolic process|protein complex assembly|regulation of nitric-oxide synthase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|cytosol|nucleolus|plasma membrane	actin binding|small GTPase regulator activity				0						GCTTTTCGAAATTTTTTTGCT	0.294													4	130					0	0	0.000602	0	0		T	123346379	T	T	123346379	3	4	160	1	0	0	0	0	1	0	0	0	17282	101	4	5	1161	5	WASL	7	123346379	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	580723	123346379	35792284	505	87775											
HYAL4	23553	broad.mit.edu	37	chr7	123508376	123508376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctttgtgttgttcaaccaGtacatctcacttcatggctc	8	15	7	11	0	3	0	3	0	1	0	5	0	3	0	1	1	3	5	1	1	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:123508376G>A	uc003vlc.2	+	3	687	c.49G>A	c.(49-51)GTA>ATA	p.V17I	HYAL4_uc011knz.1_Missense_Mutation_p.V17I	NM_012269	NP_036401	Q2M3T9	HYAL4_HUMAN	hyaluronoglucosaminidase 4	17	Helical; (Potential).				fusion of sperm to egg plasma membrane|glycosaminoglycan catabolic process	integral to membrane	hyalurononglucosaminidase activity			skin(1)	1						TGTTCAACCAGTACATCTCAC	0.343													52	292					0	0	0.01441	0	0		A	123508376	A	A	123508376	3	1	160	1	0	0	0	0	1	0	0	0	7482	1029	36	4	51	4	HYAL4	7	123508376	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	161997	123508376	35630287	506	87776											
PLXNA4	91584	broad.mit.edu	37	chr7	131825463	131825463	+	Missense_Mutation	SNP	A	G	G	1	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	acgtggagcaagagtccatgAaggtctgagccaccacagag	13	5	13	10	1	1	4	0	2	1	2	2	5	2	5	3	2	2	1	3	2	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:131825463A>G	uc003vra.3	-	30	5562	c.5333T>C	c.(5332-5334)TTC>TCC	p.F1778S	PLXNA4_uc003vqz.3_Missense_Mutation_p.F63S	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1778	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						AGAGTCCATGAAGGTCTGAGC	0.537													21	78					0	0	0.003954	0	0		G	131825463	G	G	131825463	3	3	160	1	0	0	0	0	1	0	0	0	12141	246	9	3	363	3	PLXNA4	7	131825463	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	8317087	131825463	27313200	507	87777											
CNOT4	4850	broad.mit.edu	37	chr7	135047689	135047689	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatctgtgggggttttgctgGggggtctgaaggctgtctga	5	13	18	5	0	3	2	0	2	3	0	3	2	3	2	0	6	1	3	0	6	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:135047689G>T	uc011kpy.1	-	11	2182	c.2090C>A	c.(2089-2091)CCC>CAC	p.P697H	CNOT4_uc003vss.2_Missense_Mutation_p.P623H|CNOT4_uc011kpz.1_Missense_Mutation_p.P694H|CNOT4_uc003vst.2_Missense_Mutation_p.P626H	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						GGTTTTGCTGGGGGGTCTGAA	0.532													224	233					1.94641e-94	2.20322e-94	0.01441	1	0		T	135047689	T	T	135047689	3	4	160	1	0	0	0	0	1	0	0	0	3624	1232	43	5	55	5	CNOT4	7	135047689	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3222226	135047689	24090974	508	87778											
KIAA1549	57670	broad.mit.edu	37	chr7	138603298	138603298	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagttgaaagcaatggagaAtgtgtcctgctgaatgcaag	13	9	14	5	0	0	3	0	2	0	1	1	5	1	4	1	2	3	4	1	2	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:138603298A>G	uc011kql.1	-	2	1123	c.1074T>C	c.(1072-1074)CAT>CAC	p.H358H	KIAA1549_uc003vuk.3_Silent_p.H308H|KIAA1549_uc011kqj.1_Silent_p.H358H	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	358						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GCAATGGAGAATGTGTCCTGC	0.493			O	BRAF	pilocytic astrocytoma								134	161					0	0	0.01441	0	0		G	138603298	G	G	138603298	2	3	160	1	0	0	0	0	0	0	0	1	8260	98	4	3		3	KIAA1549	7	138603298	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3555609	138603298	20535365	509	87779											
UBN2	254048	broad.mit.edu	37	chr7	138969242	138969242	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacaggaagtggaacacaGggtgctaccaaaccattgtc	14	6	12	9	0	0	0	0	0	0	0	1	3	0	3	2	4	5	1	2	4	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:138969242G>T	uc011kqr.1	+	15	3591	c.3591G>T	c.(3589-3591)CAG>CAT	p.Q1197H		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1197	Ser-rich.									ovary(1)|skin(1)	2						GTGGAACACAGGGTGCTACCA	0.498													16	65					2.23348e-06	2.34691e-06	0.004007	1	0		T	138969242	T	T	138969242	3	4	160	1	0	0	0	0	1	0	0	0	16919	991	35	5	3649	5	UBN2	7	138969242	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	365944	138969242	20169421	510	87780											
CLCN1	1180	broad.mit.edu	37	chr7	143036388	143036388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactatgcccataccctgcGgaggcttcatgcctgtgttt	6	12	9	14	1	1	0	1	0	0	0	1	1	1	1	4	2	4	2	4	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:143036388G>A	uc003wcr.1	+	13	1531	c.1444G>A	c.(1444-1446)GGA>AGA	p.G482R	CLCN1_uc011ktc.1_Missense_Mutation_p.G94R	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	482	Helical; (By similarity).|Selectivity filter part_3 (By similarity).		G -> R (in MCR).		muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					CATACCCTGCGGAGGCTTCAT	0.502													18	508					0	0	0.012319	0	0		A	143036388	A	A	143036388	3	1	160	1	0	0	0	0	1	0	0	0	3465	1117	39	1	1494	1	CLCN1	7	143036388	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4067146	143036388	16102275	511	87781											
TPK1	27010	broad.mit.edu	37	chr7	144150726	144150726	+	Missense_Mutation	SNP	A	G	G	1	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	cgtaggtattggaagtactgAccaatgttccaaaagcaagc	14	9	10	8	1	0	1	0	1	0	0	1	2	1	2	2	2	3	5	2	2	8	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:144150726A>G	uc003weq.2	-	9	747	c.644T>C	c.(643-645)GTC>GCC	p.V215A	TPK1_uc003weo.2_Missense_Mutation_p.V161A|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.V166A|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	215					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	GGAAGTACTGACCAATGTTCC	0.413													4	235					0	0	0.000602	0	0		G	144150726	G	G	144150726	3	3	160	1	0	0	0	0	1	0	0	0	16430	275	10	3	91	3	TPK1	7	144150726	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1114338	144150726	14987937	512	87782											
CUL1	8454	broad.mit.edu	37	chr7	148484193	148484193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtgacgatgccgaagccaGcatgatctccaagttaaagg	14	7	11	9	2	1	2	0	2	1	0	2	4	1	2	3	1	3	2	3	1	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:148484193G>A	uc010lpg.2	+	13	1986	c.1460G>A	c.(1459-1461)AGC>AAC	p.S487N	CUL1_uc003wey.2_Missense_Mutation_p.S487N|CUL1_uc003wez.2_Missense_Mutation_p.S377N|CUL1_uc003wfa.2_Missense_Mutation_p.S148N	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	487					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GCCGAAGCCAGCATGATCTCC	0.383													30	129					0	0	0.010818	0	0		A	148484193	A	A	148484193	3	1	160	1	0	0	0	0	1	0	0	0	4057	971	34	2	1506	2	CUL1	7	148484193	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4333467	148484193	10654470	513	87783											
ZNF786	136051	broad.mit.edu	37	chr7	148767724	148767724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcatgtgtcccctttcccGgaagttcttgtcacactcag	7	12	8	14	1	3	0	2	0	1	0	5	1	5	1	3	1	1	2	3	1	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:148767724G>A	uc003wfh.2	-	4	2277	c.2140C>T	c.(2140-2142)CGG>TGG	p.R714W	ZNF786_uc011kuk.1_Missense_Mutation_p.R677W|ZNF786_uc003wfi.2_Missense_Mutation_p.R628W	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	714	C2H2-type 15.			R -> W (in Ref. 1; CAD39166).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			CCCCTTTCCCGGAAGTTCTTG	0.582													78	259					0	0	0.01441	0	0		A	148767724	A	A	148767724	3	1	160	1	0	0	0	0	1	0	0	0	18183	1115	39	1	212	1	ZNF786	7	148767724	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	283531	148767724	10370939	514	87784											
ZNF746	155061	broad.mit.edu	37	chr7	149171807	149171807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgcaggggaagggccgctCgccggtgtgcagcatgcgat	6	6	19	10	4	0	0	0	0	0	0	1	2	0	1	2	5	4	4	2	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:149171807C>T	uc003wfw.2	-	7	1874	c.1603G>A	c.(1603-1605)GAG>AAG	p.E535K	ZNF746_uc010lpi.2_Missense_Mutation_p.E536K	NM_152557	NP_689770	Q6NUN9	ZN746_HUMAN	zinc finger protein 746 isoform 2	535					negative regulation of transcription, DNA-dependent|neuron death|regulation of cell death|transcription, DNA-dependent	cytoplasm|nucleus	transcription regulatory region DNA binding|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|breast(1)	3	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			AAGGGCCGCTCGCCGGTGTGC	0.657													7	17					0	0	0.001984	0	0		T	149171807	T	T	149171807	3	4	160	1	0	0	0	0	1	0	0	0	18154	893	31	1	335	1	ZNF746	7	149171807	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	404083	149171807	9966856	515	87785											
GIMAP8	155038	broad.mit.edu	37	chr7	150174379	150174379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaaccagatgctggatgtCgaaaaggacccatcccggtt	11	9	10	11	2	1	1	1	0	0	1	3	4	2	3	3	3	2	2	3	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:150174379C>T	uc003whj.2	+	5	1839	c.1509C>T	c.(1507-1509)GTC>GTT	p.V503V		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	503						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		TGCTGGATGTCGAAAAGGACC	0.552													32	89					0	0	0.009535	0	0		T	150174379	T	T	150174379	2	4	160	1	0	0	0	0	0	0	0	1	6400	871	31	1		1	GIMAP8	7	150174379	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1002572	150174379	8964284	516	87786											
ABCF2	10061	broad.mit.edu	37	chr7	150915664	150915664	+	Missense_Mutation	SNP	T	C	C	0	1	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	taccccatcttttgtatactTgaagctcacattttgcacca	10	15	4	12	0	2	1	1	1	1	0	2	1	2	1	3	0	4	3	3	0	4	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr7:150915664T>C	uc003wjp.2	-	10	1321	c.1210A>G	c.(1210-1212)AAG>GAG	p.K404E	ABCF2_uc003wjo.1_Missense_Mutation_p.K404E	NM_007189	NP_009120	Q9UG63	ABCF2_HUMAN	ATP-binding cassette, sub-family F, member 2	404	ABC transporter 2.					ATP-binding cassette (ABC) transporter complex|mitochondrial envelope	ATP binding|ATPase activity|transporter activity			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTTGTATACTTGAAGCTCACA	0.483													15	76					0	0	0.003163	0	0		C	150915664	C	C	150915664	3	2	160	1	0	0	0	0	1	0	0	0	66	1821	63	3	726	3	ABCF2	7	150915664	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	741285	150915664	8222999	517	87787											
ERICH1	157697	broad.mit.edu	37	chr8	623803	623803	+	Silent	SNP	A	G	G	1	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	tacatgaaactgacaccagcAgcctttgctgccaagccggc	11	7	9	14	1	0	2	0	2	0	0	0	2	0	2	4	1	7	2	4	1	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:623803A>G	uc003wph.2	-	4	614	c.549T>C	c.(547-549)GCT>GCC	p.A183A	ERICH1_uc011kwh.1_Silent_p.A183A|ERICH1_uc003wpe.1_Silent_p.A89A|ERICH1_uc003wpi.2_5'UTR	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	183										large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		TGACACCAGCAGCCTTTGCTG	0.493													29	105					0	0	0.008361	0	0		G	623803	G	G	623803	2	3	160	1	0	0	0	0	0	0	0	1	5238	175	7	3		3	ERICH1	8	623803	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08		623803	145740219	518	87788											
DLGAP2	9228	broad.mit.edu	37	chr8	1497007	1497007	+	Frame_Shift_Del	DEL	G	-	-																															gccccgccgacagctgccccGgggggcgccaccgctgctcg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:1497007delG	uc003wpl.2	+	2	245	c.148delG	c.(148-150)GGGfs	p.G50fs	DLGAP2_uc003wpm.2_Frame_Shift_Del_p.G50fs	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	129					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CAGCTGCCCCGGGGGGCGCCA	0.751													5	3	---	---	---	---						.	-	1497007	-	-	1497007	7	5	160	1	0	1	0	1	0	0	0	0	4566	1116	39	0	150	0	DLGAP2	8	1497007	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	873204	1497007	144867015	519	87789											
CSMD1	64478	broad.mit.edu	37	chr8	2855694	2855694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcagggtttccagggtgaCcacatgtgatggctgtagag	8	9	17	7	0	0	3	0	2	0	1	1	3	1	3	2	4	0	4	2	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:2855694C>T	uc011kwk.1	-	54	8609	c.8219G>A	c.(8218-8220)GGT>GAT	p.G2740D	CSMD1_uc011kwj.1_Missense_Mutation_p.G2069D|CSMD1_uc010lrg.2_Missense_Mutation_p.G750D	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2740	Extracellular (Potential).|Sushi 19.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TCCAGGGTGACCACATGTGAT	0.463													38	138					0	0	0.006999	0	0		T	2855694	T	T	2855694	3	4	160	1	0	0	0	0	1	0	0	0	3947	507	18	4	2546	4	CSMD1	8	2855694	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1358687	2855694	143508328	520	87790											
MCPH1	79648	broad.mit.edu	37	chr8	6338339	6338339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctttccgggaagccacttcGcaccctgaatgtgctgctgg	6	10	12	13	2	0	1	0	1	0	0	2	2	1	2	3	2	3	4	3	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:6338339G>A	uc003wqi.2	+	11	2146	c.2078G>A	c.(2077-2079)CGC>CAC	p.R693H		NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	693	BRCT 2.					microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		AAGCCACTTCGCACCCTGAAT	0.493													53	125					0	0	0.01441	0	0		A	6338339	A	A	6338339	3	1	160	1	0	0	0	0	1	0	0	0	9416	1087	38	1	2128	1	MCPH1	8	6338339	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3482645	6338339	140025683	521	87791											
MSRA	4482	broad.mit.edu	37	chr8	10177409	10177409	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaggtatgcgccaggggaaCgaccatggcactcagtaccg	10	6	13	12	3	1	0	1	0	0	0	1	2	1	1	3	4	3	3	3	4	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:10177409C>T	uc003wsx.2	+	5	650	c.453C>T	c.(451-453)AAC>AAT	p.N151N	MSRA_uc011kwx.1_Silent_p.N111N|MSRA_uc011kwy.1_Silent_p.N108N|MSRA_uc003wsz.2_Silent_p.N108N|MSRA_uc003wsy.2_Silent_p.N85N	NM_012331	NP_036463	Q9UJ68	MSRA_HUMAN	methionine sulfoxide reductase A isoform a	151					methionine metabolic process|protein modification process|response to oxidative stress	mitochondrion|nucleus	peptide-methionine-(S)-S-oxide reductase activity				0		Myeloproliferative disorder(644;0.178)			L-Methionine(DB00134)	GCCAGGGGAACGACCATGGCA	0.547													12	44					0	0	0.003163	0	0		T	10177409	T	T	10177409	2	4	160	1	0	0	0	0	0	0	0	1	9905	535	19	1		1	MSRA	8	10177409	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3839070	10177409	136186613	522	87792											
RP1L1	94137	broad.mit.edu	37	chr8	10464633	10464633	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgtggacttggcatcaggGctccttgtgtctccaagtac	6	11	11	13	1	2	0	1	0	1	0	4	1	3	1	3	3	1	3	3	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:10464633G>A	uc003wtc.2	-	4	7204	c.6975C>T	c.(6973-6975)AGC>AGT	p.S2325S		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	2325					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TGGCATCAGGGCTCCTTGTGT	0.557													114	408					0	0	0.01441	0	0		A	10464633	A	A	10464633	2	1	160	1	0	0	0	0	0	0	0	1	13558	1194	42	2		2	RP1L1	8	10464633	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	287224	10464633	135899389	523	87793											
ASAH1	427	broad.mit.edu	37	chr8	17927303	17927303	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaataatatctcttaccaAtttttcatccaccacctgca	14	13	2	12	0	2	1	1	0	1	1	4	1	3	1	4	0	2	1	4	0	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:17927303A>T	uc003wyl.2	-	4	613	c.301T>A	c.(301-303)TTG>ATG	p.L101M	ASAH1_uc010ltb.1_RNA|ASAH1_uc003wym.2_Missense_Mutation_p.L101M|ASAH1_uc003wyn.2_Missense_Mutation_p.L117M|ASAH1_uc003wyo.2_Intron	NM_177924	NP_808592	Q13510	ASAH1_HUMAN	N-acylsphingosine amidohydrolase 1 isoform a	101					ceramide metabolic process	lysosome	ceramidase activity				0				Colorectal(111;0.0646)|COAD - Colon adenocarcinoma(73;0.228)		TCTCTTACCAATTTTTCATCC	0.318													34	146					0	0	0.013726	0	0		T	17927303	T	T	17927303	3	4	160	1	0	0	0	0	1	0	0	0	1007	98	4	5	930	5	ASAH1	8	17927303	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	7462670	17927303	128436719	524	87794											
LZTS1	11178	broad.mit.edu	37	chr8	20112440	20112440	+	Silent	SNP	G	A	A	0	0	1	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	ccctaaatccccgctggacaGtgccgtgtaatctgggtgat	8	10	11	12	2	1	1	0	1	1	0	2	2	2	2	4	2	1	2	4	2	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:20112440G>A	uc003wzr.2	-	1	364	c.253C>T	c.(253-255)CTG>TTG	p.L85L	LZTS1_uc010ltg.1_Silent_p.L85L	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	85					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		CCGCTGGACAGTGCCGTGTAA	0.577													23	81					0	0	0.00333	0	0		A	20112440	A	A	20112440	2	1	160	1	0	0	0	0	0	0	0	1	9156	1020	36	4		4	LZTS1	8	20112440	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2185137	20112440	126251582	525	87795											
FAM160B2	64760	broad.mit.edu	37	chr8	21956068	21956068	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcacctttgccagttgtaCcggtccatgcctgtcttcct	4	13	9	15	2	1	0	0	0	1	0	3	0	3	0	6	2	3	3	6	2	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:21956068C>T	uc011kyx.1	+	7	954	c.903C>T	c.(901-903)TAC>TAT	p.Y301Y	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	301											0						GCCAGTTGTACCGGTCCATGC	0.647													3	29					0	0	0.004672	0	0		T	21956068	T	T	21956068	2	4	160	1	0	0	0	0	0	0	0	1	5482	518	18	4		4	FAM160B2	8	21956068	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1843628	21956068	124407954	526	87796											
KIAA1967	57805	broad.mit.edu	37	chr8	22473623	22473623	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcctgaaaaggtcgtgtcCccacctgaacctgagaagga	11	8	10	12	1	0	3	0	3	0	1	3	5	2	4	5	2	1	0	5	2	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:22473623C>T	uc003xch.2	+	14	1844	c.1707C>T	c.(1705-1707)TCC>TCT	p.S569S	KIAA1967_uc003xci.2_Silent_p.S569S|KIAA1967_uc003xcj.1_Silent_p.S238S	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	569					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		AGGTCGTGTCCCCACCTGAAC	0.537													40	125					0	0	0.00623	0	0		T	22473623	T	T	22473623	2	4	160	1	0	0	0	0	0	0	0	1	8281	610	22	4		4	KIAA1967	8	22473623	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	517555	22473623	123890399	527	87797											
BIN3	55909	broad.mit.edu	37	chr8	22487477	22487477	+	Frame_Shift_Del	DEL	T	-	-																															cccaggtgacatttactcacTtttttaagggctcgatcaca																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:22487477delT	uc003xcl.2	-	6	435	c.338delA	c.(337-339)AAGfs	p.K113fs	BIN3_uc003xck.2_Frame_Shift_Del_p.K65fs|BIN3_uc010ltw.2_Frame_Shift_Del_p.K59fs	NM_018688	NP_061158	Q9NQY0	BIN3_HUMAN	bridging integrator 3	113	BAR.				actin filament organization|barrier septum formation|cell cycle|protein localization|unidimensional cell growth	cytoplasm|cytoskeleton	cytoskeletal adaptor activity				0		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)		ATTTACTCACTTTTTTAAGGG	0.532													10	22	---	---	---	---						.	-	22487477	-	-	22487477	7	5	160	1	0	1	0	1	0	0	0	0	1435	1623	56	0	439	0	BIN3	8	22487477	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	13854	22487477	123876545	528	87798											
EGR3	1960	broad.mit.edu	37	chr8	22548028	22548028	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggggccagcgacacggggggCgccgaggatgcagagggtgc	7	2	22	10	4	0	1	0	0	0	1	0	4	0	2	2	7	3	1	2	7	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:22548028C>T	uc003xcm.1	-	2	1480	c.1122G>A	c.(1120-1122)GCG>GCA	p.A374A	EGR3_uc011kzn.1_Silent_p.A336A|EGR3_uc011kzo.1_Silent_p.A320A	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	374					circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		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)		ACACGGGGGGCGCCGAGGATG	0.672													9	51					0	0	0.008291	0	0		T	22548028	T	T	22548028	2	4	160	1	0	0	0	0	0	0	0	1	4979	755	27	1		1	EGR3	8	22548028	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	60551	22548028	123815994	529	87799											
RHOBTB2	23221	broad.mit.edu	37	chr8	22862901	22862901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaggtgctggaacgctcccGagacgtggtagatgatgtca	9	8	14	10	3	1	3	1	1	0	2	2	5	2	4	2	3	2	3	2	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:22862901G>A	uc003xcq.2	+	3	746	c.209G>A	c.(208-210)CGA>CAA	p.R70Q	RHOBTB2_uc003xcp.2_Missense_Mutation_p.R92Q|RHOBTB2_uc011kzp.1_Missense_Mutation_p.R77Q	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	70	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GAACGCTCCCGAGACGTGGTA	0.607													26	91					0	0	0.008361	0	0		A	22862901	A	A	22862901	3	1	160	1	0	0	0	0	1	0	0	0	13359	1058	37	1	300	1	RHOBTB2	8	22862901	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	314873	22862901	123501121	530	87800											
STC1	6781	broad.mit.edu	37	chr8	23709800	23709800	+	Silent	SNP	G	A	A	0	0	1	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	tacaagaaggatttacagatGtcatacatcccatctgtgtc	13	12	7	9	0	2	2	1	0	1	2	4	3	3	3	1	1	3	0	1	1	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:23709800G>A	uc003xdw.1	-	2	500	c.216C>T	c.(214-216)GAC>GAT	p.D72D		NM_003155	NP_003146	P52823	STC1_HUMAN	stanniocalcin 1 precursor	72					cell surface receptor linked signaling pathway|cell-cell signaling|cellular calcium ion homeostasis		hormone activity			skin(3)|upper_aerodigestive_tract(1)	4		Prostate(55;0.055)|Breast(100;0.116)		Colorectal(74;0.0155)|COAD - Colon adenocarcinoma(73;0.0632)		ATTTACAGATGTCATACATCC	0.488													26	131					0	0	0.00333	0	0		A	23709800	A	A	23709800	2	1	160	1	0	0	0	0	0	0	0	1	15300	1368	48	4		4	STC1	8	23709800	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	846899	23709800	122654222	531	87801											
WRN	7486	broad.mit.edu	37	chr8	30982073	30982073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatacgtaatgagaagtttcGattatacaaattaaagatga	18	12	8	3	2	0	3	0	2	0	2	1	6	0	3	0	0	2	2	0	0	8	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:30982073G>A	uc003xio.3	+	22	3454	c.2666G>A	c.(2665-2667)CGA>CAA	p.R889Q	WRN_uc010lvk.2_Missense_Mutation_p.R356Q	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	889	Helicase C-terminal.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		GAGAAGTTTCGATTATACAAA	0.303			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				36	115					0	0	0.00623	0	0		A	30982073	A	A	30982073	3	1	160	1	0	0	0	0	1	0	0	0	17428	1058	37	1	2748	1	WRN	8	30982073	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7272273	30982073	115381949	532	87802											
ERLIN2	11160	broad.mit.edu	37	chr8	37611432	37611432	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tactttttttttttttaacaGctgaagctaacccctgaata	11	18	4	8	0	0	2	0	2	0	0	0	2	0	2	2	0	5	2	2	0	6	10			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:37611432G>A	uc003xke.3	+	12	935	c.820_splice	c.e12-1	p.L274_splice		NM_007175	NP_009106	O94905	ERLN2_HUMAN	ER lipid raft associated 2 isoform 1						ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	protein binding				0		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			TTTTTTAACAGCTGAAGCTAA	0.398													36	112					0	0	0.00874	0	0		A	37611432	A	A	37611432	5	1	160	1	0	0	0	0	0	0	1	0	5241	985	34	2	900	2	ERLIN2	8	37611432	Splice_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6629359	37611432	108752590	533	87803											
AGPAT6	137964	broad.mit.edu	37	chr8	41467268	41467268	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggacaacactccagagttCgagctctctgacattttcta	10	12	7	12	1	2	2	0	1	2	1	5	4	3	3	1	1	2	2	1	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:41467268C>T	uc003xnz.2	+	4	1269	c.330C>T	c.(328-330)TTC>TTT	p.F110F		NM_178819	NP_848934	Q86UL3	GPAT4_HUMAN	lysophosphatidic acid acyltransferase zeta	110					acyl-CoA metabolic process|lactation|phosphatidylcholine biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|membrane fraction	glycerol-3-phosphate O-acyltransferase activity				0	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)			CTCCAGAGTTCGAGCTCTCTG	0.448													71	237					0	0	0.01441	0	0		T	41467268	T	T	41467268	2	4	160	1	0	0	0	0	0	0	0	1	391	883	31	1		1	AGPAT6	8	41467268	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3855836	41467268	104896754	534	87804											
PXDNL	137902	broad.mit.edu	37	chr8	52322009	52322009	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgtcgtgggcgcggtacttCgcatggaaacaccggttgga	7	8	15	11	6	0	0	0	0	0	0	2	2	0	2	2	5	2	3	2	5	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:52322009C>T	uc003xqu.3	-	17	2276	c.2175G>A	c.(2173-2175)GCG>GCA	p.A725A	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	725					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CGCGGTACTTCGCATGGAAAC	0.657													12	29					0	0	0.001855	0	0		T	52322009	T	T	52322009	2	4	160	1	0	0	0	0	0	0	0	1	12873	871	31	1		1	PXDNL	8	52322009	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	10854741	52322009	94042013	535	87805											
ST18	9705	broad.mit.edu	37	chr8	53038681	53038681	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttttgataacttgtgcatTgagaggacatccagataagc	12	13	9	7	0	0	3	0	2	0	2	1	5	1	4	1	1	3	1	1	1	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:53038681T>C	uc003xqz.2	-	18	2842	c.2686A>G	c.(2686-2688)AAT>GAT	p.N896D	ST18_uc011ldq.1_Missense_Mutation_p.N543D|ST18_uc011ldr.1_Missense_Mutation_p.N861D|ST18_uc011lds.1_Missense_Mutation_p.N801D|ST18_uc003xra.2_Missense_Mutation_p.N896D	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	896	C2HC-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				ACTTGTGCATTGAGAGGACAT	0.373													58	162					0	0	0.01441	0	0		C	53038681	C	C	53038681	3	2	160	1	0	0	0	0	1	0	0	0	15237	1812	63	3	473	3	ST18	8	53038681	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	716672	53038681	93325341	536	87806											
TCEA1	6917	broad.mit.edu	37	chr8	54906257	54906257	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgcctcagggctgttctgCgatgtaattgcaggttcttt	5	16	11	9	1	3	0	1	0	2	0	3	1	3	0	1	2	3	5	1	2	1	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:54906257C>A	uc003xru.2	-	4	614	c.291G>T	c.(289-291)TCG>TCT	p.S97S	TCEA1_uc003xrv.2_Silent_p.S76S|TCEA1_uc011ldw.1_Intron|TCEA1_uc003xrw.1_RNA	NM_006756	NP_006747	P23193	TCEA1_HUMAN	transcription elongation factor A 1 isoform 1	97					positive regulation of viral transcription|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|translation elongation factor activity|zinc ion binding				0		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;9.1e-07)|Epithelial(17;9.44e-05)|all cancers(17;0.000699)			GGCTGTTCTGCGATGTAATTG	0.368			T	PLAG1	salivary adenoma								15	381					3.27435e-08	3.46914e-08	0.00245	1	0		A	54906257	A	A	54906257	2	1	160	1	0	0	0	0	0	0	0	1	15692	755	27	5		5	TCEA1	8	54906257	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1867576	54906257	91457765	537	87807											
RP1	6101	broad.mit.edu	37	chr8	55534132	55534132	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtcaagctgtacgctacggaCggaaggagggtgagcgttct	9	8	16	8	4	2	1	1	1	1	0	2	4	2	4	0	4	4	4	0	4	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:55534132C>T	uc003xsd.1	+	2	754	c.606C>T	c.(604-606)GAC>GAT	p.D202D	RP1_uc011ldy.1_Silent_p.D202D	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	202	Doublecortin 2.		D -> E (in RP1).		axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ACGCTACGGACGGAAGGAGGG	0.577													38	181					0	0	0.00623	0	0		T	55534132	T	T	55534132	2	4	160	1	0	0	0	0	0	0	0	1	13557	535	19	1		1	RP1	8	55534132	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	627875	55534132	90829890	538	87808											
RP1	6101	broad.mit.edu	37	chr8	55538400	55538400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taatgaatttgctcagtgtgGtttaacaaaacttccaaaaa	16	13	6	6	0	1	1	1	1	0	0	2	1	2	1	1	1	3	2	1	1	7	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:55538400G>A	uc003xsd.1	+	4	2106	c.1958G>A	c.(1957-1959)GGT>GAT	p.G653D	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	653					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GCTCAGTGTGGTTTAACAAAA	0.358													34	115					0	0	0.010818	0	0		A	55538400	A	A	55538400	3	1	160	1	0	0	0	0	1	0	0	0	13557	1261	44	4	1968	4	RP1	8	55538400	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4268	55538400	90825622	539	87809											
NSMAF	8439	broad.mit.edu	37	chr8	59498296	59498296	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactgactgccagataaaacGgaatttccatcccagacaaa	16	7	7	11	1	0	3	0	1	0	2	2	5	2	4	3	1	2	0	3	1	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:59498296G>A	uc003xtt.2	-	30	2788	c.2574C>T	c.(2572-2574)TCC>TCT	p.S858S	NSMAF_uc011lee.1_Silent_p.S889S	NM_003580	NP_003571	Q92636	FAN_HUMAN	neutral sphingomyelinase (N-SMase) activation	858					ceramide metabolic process	cytoplasm|soluble fraction	protein binding|receptor signaling protein activity			ovary(1)	1		all_lung(136;0.174)|Lung NSC(129;0.2)				CAGATAAAACGGAATTTCCAT	0.453													57	258					0	0	0.01441	0	0		A	59498296	A	A	59498296	2	1	160	1	0	0	0	0	0	0	0	1	10693	1103	39	1		1	NSMAF	8	59498296	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3959896	59498296	86865726	540	87810											
C8orf45	157777	broad.mit.edu	37	chr8	67809158	67809158	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagggctgttttatgcGgcttctagacagttcacaac	9	12	10	10	1	2	2	1	1	1	1	2	2	2	2	1	2	2	4	1	2	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:67809158G>T	uc003xwz.3	+	12	1761	c.1590G>T	c.(1588-1590)GCG>GCT	p.A530A	C8orf45_uc011lev.1_Silent_p.A530A|C8orf45_uc011lew.1_Silent_p.A461A|C8orf45_uc011lex.1_Silent_p.A288A|C8orf45_uc003xwy.3_Silent_p.A530A	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	530					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TGTTTTATGCGGCTTCTAGAC	0.398													17	318					0.000566183	0.00058275	0.00499	1	0		T	67809158	T	T	67809158	2	4	160	1	0	0	0	0	0	0	0	1	2433	1103	39	5		5	C8orf45	8	67809158	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	8310862	67809158	78554864	541	87811											
C8orf34	116328	broad.mit.edu	37	chr8	69380980	69380980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggactaaaccacaaagcCgtgattttgatgaattgaat	15	10	10	6	1	0	4	0	4	0	0	0	6	0	6	2	2	2	0	2	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:69380980C>T	uc010lyz.2	+	4	452	c.403C>T	c.(403-405)CGT>TGT	p.R135C	C8orf34_uc010lyy.1_Missense_Mutation_p.R135C|C8orf34_uc003xyb.2_Missense_Mutation_p.R110C	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	135					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			ACCACAAAGCCGTGATTTTGA	0.383													29	123					0	0	0.007291	0	0		T	69380980	T	T	69380980	3	4	160	1	0	0	0	0	1	0	0	0	2425	652	23	1	338	1	C8orf34	8	69380980	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1571822	69380980	76983042	542	87812											
ZFHX4	79776	broad.mit.edu	37	chr8	77765696	77765696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacactggtttagaaataCgctttttaaggaacgacaga	16	10	8	7	2	0	2	0	0	0	2	0	4	0	3	0	2	3	2	0	2	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:77765696C>T	uc003yav.2	+	10	6791	c.6404C>T	c.(6403-6405)ACG>ATG	p.T2135M	ZFHX4_uc003yau.1_Missense_Mutation_p.T2180M|ZFHX4_uc003yaw.1_Missense_Mutation_p.T2135M	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2135	Homeobox 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TTTAGAAATACGCTTTTTAAG	0.373										HNSCC(33;0.089)			52	193					0	0	0.01441	0	0		T	77765696	T	T	77765696	3	4	160	1	0	0	0	0	1	0	0	0	17660	536	19	1	6573	1	ZFHX4	8	77765696	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	8384716	77765696	68598326	543	87813											
E2F5	1875	broad.mit.edu	37	chr8	86089786	86089786	+	Frame_Shift_Del	DEL	C	-	-																															gccgccgcagctcgggggcgCcgggggcggcagcagcaggc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:86089786delC	uc003ycz.3	+	1	168	c.131delC	c.(130-132)GCCfs	p.A44fs	E2F5_uc003yda.3_Frame_Shift_Del_p.A44fs	NM_001951	NP_001942	Q15329	E2F5_HUMAN	E2F transcription factor 5 isoform 1	44					G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1						cTCGGGGGCGCCGGGGGCGGC	0.493													2	4	---	---	---	---						.	-	86089786	-	-	86089786	7	5	160	1	0	1	0	1	0	0	0	0	4876	739	26	0	133	0	E2F5	8	86089786	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	8324090	86089786	60274236	544	87814											
WWP1	11059	broad.mit.edu	37	chr8	87424099	87424099	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccaacacagaaaccttgccaTcagggtatgttaagcttttt	12	12	7	10	0	1	1	1	0	0	1	1	1	1	1	3	1	4	3	3	1	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:87424099T>G	uc003ydt.2	+	9	1337	c.1057T>G	c.(1057-1059)TCA>GCA	p.S353A	WWP1_uc010mai.2_Missense_Mutation_p.S129A	NM_007013	NP_008944	Q9H0M0	WWP1_HUMAN	WW domain containing E3 ubiquitin protein ligase	353	WW 1.				central nervous system development|entry of virus into host cell|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|signal transduction	cytoplasm|nucleus|plasma membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			lung(1)|liver(1)	2						AACCTTGCCATCAGGGTATGT	0.403													19	60					0	0	0.007413	0	0		G	87424099	G	G	87424099	3	3	160	1	0	0	0	0	1	0	0	0	17441	1435	50	5	1083	5	WWP1	8	87424099	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1334313	87424099	58939923	545	87815											
OSGIN2	734	broad.mit.edu	37	chr8	90937134	90937134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctataaacaaaggaaagttgCgtggcaaagtggatccagtg	15	8	12	6	1	0	0	0	0	0	0	1	2	1	2	1	3	2	2	1	3	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:90937134C>T	uc003yeg.2	+	6	1238	c.892C>T	c.(892-894)CGT>TGT	p.R298C	OSGIN2_uc003yeh.2_Missense_Mutation_p.R342C	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	298					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			AGGAAAGTTGCGTGGCAAAGT	0.438													66	250					0	0	0.01441	0	0		T	90937134	T	T	90937134	3	4	160	1	0	0	0	0	1	0	0	0	11309	768	27	1	1046	1	OSGIN2	8	90937134	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3513035	90937134	55426888	546	87816											
OSGIN2	734	broad.mit.edu	37	chr8	90937459	90937459	+	Missense_Mutation	SNP	T	G	G	0	1	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	attgaagaaaatatttaagcTgtctgcagcagtagtattga	15	13	9	4	0	1	3	0	2	1	1	1	3	1	3	0	0	3	5	0	0	7	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:90937459T>G	uc003yeg.2	+	6	1563	c.1217T>G	c.(1216-1218)CTG>CGG	p.L406R	OSGIN2_uc003yeh.2_Missense_Mutation_p.L450R	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	406					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			ATATTTAAGCTGTCTGCAGCA	0.423													16	394					0	0	0.003163	0	0		G	90937459	G	G	90937459	3	3	160	1	0	0	0	0	1	0	0	0	11309	1580	55	5	1371	5	OSGIN2	8	90937459	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	325	90937459	55426563	547	87817											
TMEM67	91147	broad.mit.edu	37	chr8	94794663	94794663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggctaaatgctgcttattCatttggaacaacctaccaac	14	11	6	10	0	1	0	1	0	0	0	1	1	1	1	2	2	6	3	2	2	8	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:94794663C>T	uc011lgk.1	+	11	1177	c.1106C>T	c.(1105-1107)TCA>TTA	p.S369L	TMEM67_uc010mat.1_Missense_Mutation_p.S284L|TMEM67_uc010maw.2_Intron|TMEM67_uc003yga.3_Missense_Mutation_p.S288L	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	369					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			GCTGCTTATTCATTTGGAACA	0.303													24	108					0	0	0.00632	0	0		T	94794663	T	T	94794663	3	4	160	1	0	0	0	0	1	0	0	0	16221	838	29	4	1286	4	TMEM67	8	94794663	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3857204	94794663	51569359	548	87818											
PGCP	10404	broad.mit.edu	37	chr8	97978250	97978250	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcctttatatcatgggaaGcactctcacttattaaagat	13	13	7	8	0	2	1	2	0	1	1	3	3	2	2	1	1	2	1	1	1	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:97978250G>A	uc003yhw.2	+	5	1103	c.937G>A	c.(937-939)GCA>ACA	p.A313T	PGCP_uc010mbe.2_Missense_Mutation_p.A313T	NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor	313					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					ATCATGGGAAGCACTCTCACT	0.393													13	69					0	0	0.013537	0	0		A	97978250	A	A	97978250	3	1	160	1	0	0	0	0	1	0	0	0	11805	971	34	2	951	2	PGCP	8	97978250	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3183587	97978250	48385772	549	87819											
RGS22	26166	broad.mit.edu	37	chr8	101054050	101054050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaggttcttctgtataagCgtatcttctatccagctggg	7	15	9	10	1	4	0	0	0	4	0	5	0	5	0	2	2	2	4	2	2	5	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:101054050C>T	uc003yjb.1	-	12	2113	c.1918G>A	c.(1918-1920)GCT>ACT	p.A640T	RGS22_uc003yja.1_Missense_Mutation_p.A459T|RGS22_uc003yjc.1_Missense_Mutation_p.A628T|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	640					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TCTGTATAAGCGTATCTTCTA	0.358													28	119					0	0	0.00632	0	0		T	101054050	T	T	101054050	3	4	160	1	0	0	0	0	1	0	0	0	13330	768	27	1	1940	1	RGS22	8	101054050	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3075800	101054050	45309972	550	87820											
YWHAZ	7534	broad.mit.edu	37	chr8	101961019	101961019	+	Silent	SNP	T	C	C	0	1	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	tcctcattggataattcagcTccttgctcagttacagactt	9	15	6	11	0	3	1	3	0	0	1	5	2	5	2	2	1	3	3	2	1	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:101961019T>C	uc011lhe.1	-	2	276	c.99A>G	c.(97-99)GGA>GGG	p.G33G	YWHAZ_uc003yjv.2_Silent_p.G33G|YWHAZ_uc011lhf.1_Silent_p.G33G|YWHAZ_uc003yjw.2_Silent_p.G33G|YWHAZ_uc010mbq.2_Intron|YWHAZ_uc011lhg.1_Intron|YWHAZ_uc010mbr.2_Silent_p.G33G|YWHAZ_uc003yjx.2_Silent_p.G33G|YWHAZ_uc003yjy.2_Silent_p.G33G	NM_001135702	NP_001129174	P63104	1433Z_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	33					anti-apoptosis|mRNA metabolic process|platelet activation|signal transduction	cytosol|melanosome	transcription factor binding				0	all_cancers(14;7.43e-06)|all_epithelial(15;2.77e-08)|Lung NSC(17;6.08e-05)|all_lung(17;0.000197)		Epithelial(11;2.79e-11)|all cancers(13;5.45e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.75e-05)		Ginkgo biloba(DB01381)	ATAATTCAGCTCCTTGCTCAG	0.463													55	166					0	0	0.01441	0	0		C	101961019	C	C	101961019	2	2	160	1	0	0	0	0	0	0	0	1	17532	1538	54	3		3	YWHAZ	8	101961019	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	906969	101961019	44403003	551	87821											
UBR5	51366	broad.mit.edu	37	chr8	103274148	103274148	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatatttgctttacctgtcCtccaccttcttctttacaca	7	18	3	13	0	2	0	0	0	2	0	4	0	4	0	4	0	3	2	4	0	4	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:103274148C>A	uc003ykr.1	-	55	7870	c.7837G>T	c.(7837-7839)GGA>TGA	p.G2613*	UBR5_uc003yks.1_Nonsense_Mutation_p.G2612*|UBR5_uc003ykq.2_Nonsense_Mutation_p.G124*	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2613	HECT.				cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TTTACCTGTCCTCCACCTTCT	0.408													6	292					0.00116845	0.00119738	0.001168	1	0		A	103274148	A	A	103274148	4	1	160	1	0	0	0	0	0	1	0	0	16931	690	24	5	582	5	UBR5	8	103274148	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1313129	103274148	43089874	552	87822											
UBR5	51366	broad.mit.edu	37	chr8	103297902	103297902	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgcagatgttaggtaactgcTggcgttgctagcttccaaag	9	12	12	8	1	0	1	0	0	0	1	1	1	1	1	1	2	5	7	1	2	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:103297902T>G	uc003ykr.1	-	39	5356	c.5323A>C	c.(5323-5325)AGC>CGC	p.S1775R	UBR5_uc003yks.1_Missense_Mutation_p.S1775R	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1775					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			AGGTAACTGCTGGCGTTGCTA	0.463													27	100					0	0	0.010818	0	0		G	103297902	G	G	103297902	3	3	160	1	0	0	0	0	1	0	0	0	16931	1580	55	5	3160	5	UBR5	8	103297902	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	23754	103297902	43066120	553	87823											
RIMS2	9699	broad.mit.edu	37	chr8	105263283	105263283	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtgtatctattagataaCggagtctgcatagccaaaaa	17	10	8	6	1	2	1	0	0	2	1	2	2	2	2	1	1	3	2	1	1	8	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:105263283C>T	uc003yls.2	+	27	4018	c.3777C>T	c.(3775-3777)AAC>AAT	p.N1259N	RIMS2_uc003ylp.2_Silent_p.N1241N|RIMS2_uc003ylw.2_Silent_p.N1248N|RIMS2_uc003ylq.2_Silent_p.N1055N|RIMS2_uc003ylr.2_Silent_p.N1080N	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1303	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TATTAGATAACGGAGTCTGCA	0.423										HNSCC(12;0.0054)			24	112					0	0	0.00278	0	0		T	105263283	T	T	105263283	2	4	160	1	0	0	0	0	0	0	0	1	13393	535	19	1		1	RIMS2	8	105263283	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1965381	105263283	41100739	554	87824											
SYBU	55638	broad.mit.edu	37	chr8	110587156	110587156	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggttttgatacggaaggcGgtgcggcggagcgaatgcag	9	8	18	6	5	0	1	0	1	0	0	0	4	0	3	0	6	4	2	0	6	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:110587156G>A	uc003ynj.3	-	7	2134	c.1971C>T	c.(1969-1971)ACC>ACT	p.T657T	SYBU_uc003yni.3_Silent_p.T654T|SYBU_uc003ynk.3_Silent_p.T538T|SYBU_uc010mco.2_Silent_p.T656T|SYBU_uc003ynl.3_Silent_p.T656T|SYBU_uc010mcp.2_Silent_p.T657T|SYBU_uc010mcq.2_Silent_p.T657T|SYBU_uc003yno.3_Silent_p.T538T|SYBU_uc010mcr.2_Silent_p.T657T|SYBU_uc003ynm.3_Silent_p.T656T|SYBU_uc003ynn.3_Silent_p.T656T|SYBU_uc010mcs.2_Silent_p.T538T|SYBU_uc010mct.2_Silent_p.T657T|SYBU_uc010mcu.2_Silent_p.T656T|SYBU_uc003ynp.3_Silent_p.T589T|SYBU_uc010mcv.2_Silent_p.T657T|SYBU_uc003ynh.3_Silent_p.T451T|SYBU_uc011lhw.1_Silent_p.T527T	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	657						cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane		p.R657H(1)		ovary(1)	1						TACGGAAGGCGGTGCGGCGGA	0.532													46	142					0	0	0.01441	0	0		A	110587156	A	A	110587156	2	1	160	1	0	0	0	0	0	0	0	1	15452	1103	39	1		1	SYBU	8	110587156	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5323873	110587156	35776866	555	87825											
MED30	90390	broad.mit.edu	37	chr8	118543004	118543004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagatggctcaaagaatgatGatcgggctggcccacctcgt	11	8	12	10	2	1	4	1	2	0	2	3	4	1	4	2	3	0	2	2	3	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:118543004G>A	uc003yoj.2	+	3	530	c.379G>A	c.(379-381)GAT>AAT	p.D127N	MED30_uc011lib.1_Intron	NM_080651	NP_542382	Q96HR3	MED30_HUMAN	TRAP/Mediator complex component TRAP25	127					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding				0	all_cancers(13;3.41e-25)|Lung NSC(37;3.02e-05)|Ovarian(258;0.00163)		STAD - Stomach adenocarcinoma(47;0.0266)			AAAGAATGATGATCGGGCTGG	0.338													4	72					0	0	0.000602	0	0		A	118543004	A	A	118543004	3	1	160	1	0	0	0	0	1	0	0	0	9466	1290	45	4	389	4	MED30	8	118543004	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7955848	118543004	27821018	556	87826											
EXT1	2131	broad.mit.edu	37	chr8	119122904	119122904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aatgttttggtaactttcggCgattttctcccctttttgct	5	20	7	9	2	1	0	0	0	1	0	3	1	1	0	2	2	2	3	2	2	2	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:119122904C>T	uc003yok.1	-	1	1155	c.382G>A	c.(382-384)GCC>ACC	p.A128T		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	128	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			TAACTTTCGGCGATTTTCTCC	0.512			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				40	161					0	0	0.006999	0	0		T	119122904	T	T	119122904	3	4	160	1	0	0	0	0	1	0	0	0	5331	768	27	1	1902	1	EXT1	8	119122904	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	579900	119122904	27241118	557	87827											
ENPP2	5168	broad.mit.edu	37	chr8	120581581	120581581	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggccggacgcaactggtCagatggtcaggaacgctgga	10	6	15	10	3	3	1	3	0	0	1	3	4	3	4	1	6	2	2	1	6	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:120581581C>A	uc003yot.1	-	21	2033	c.1947G>T	c.(1945-1947)CTG>CTT	p.L649L	ENPP2_uc011lic.1_Silent_p.L187L|ENPP2_uc003yor.1_Silent_p.L284L|ENPP2_uc003yos.1_Silent_p.L701L|ENPP2_uc010mdd.1_Silent_p.L674L	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	649					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			CGCAACTGGTCAGATGGTCAG	0.522													30	112					9.39395e-14	1.01593e-13	0.00632	1	0		A	120581581	A	A	120581581	2	1	160	1	0	0	0	0	0	0	0	1	5138	813	29	5		5	ENPP2	8	120581581	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1458677	120581581	25782441	558	87828											
FAM91A1	157769	broad.mit.edu	37	chr8	124798813	124798813	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtacaagaagcttcatcGgcaactgacactgatacaaa	15	8	7	11	1	1	3	1	2	0	1	2	3	1	3	1	1	4	3	1	1	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:124798813G>A	uc003yqv.2	+	12	1102	c.1041G>A	c.(1039-1041)TCG>TCA	p.S347S	FAM91A1_uc011lik.1_Silent_p.S347S|FAM91A1_uc011lil.1_Silent_p.S105S	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	347										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			AAGCTTCATCGGCAACTGACA	0.423													36	121					0	0	0.006999	0	0		A	124798813	A	A	124798813	2	1	160	1	0	0	0	0	0	0	0	1	5665	1103	39	1		1	FAM91A1	8	124798813	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4217232	124798813	21565209	559	87829											
MTSS1	9788	broad.mit.edu	37	chr8	125565503	125565503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggttaacggaagcttggccGctccacattgaggagggcat	9	8	15	9	2	0	1	0	1	0	0	1	3	1	3	2	5	2	4	2	5	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:125565503G>A	uc003yrk.2	-	14	2532	c.1998C>T	c.(1996-1998)AGC>AGT	p.S666S	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Silent_p.S315S|MTSS1_uc011lin.1_Silent_p.S440S|MTSS1_uc011lio.1_Silent_p.S556S|MTSS1_uc003yri.2_Silent_p.S384S|MTSS1_uc003yrj.2_Silent_p.S641S|MTSS1_uc003yrl.2_Silent_p.S670S	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	666	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			AAGCTTGGCCGCTCCACATTG	0.607													68	198					0	0	0.01441	0	0		A	125565503	A	A	125565503	2	1	160	1	0	0	0	0	0	0	0	1	9980	1078	38	1		1	MTSS1	8	125565503	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	766690	125565503	20798519	560	87830											
ASAP1	50807	broad.mit.edu	37	chr8	131130877	131130877	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaggtcttccttgaaaacCtatgatctacatactttgca	13	13	5	10	0	2	2	0	2	2	0	3	2	3	2	2	1	5	1	2	1	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:131130877C>A	uc003yta.1	-	18	1680	c.1652G>T	c.(1651-1653)AGG>ATG	p.R551M	ASAP1_uc003ysz.1_Missense_Mutation_p.R362M|ASAP1_uc011liw.1_Missense_Mutation_p.R544M	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	551	Arf-GAP.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						CCTTGAAAACCTATGATCTAC	0.338													9	197					0.000274275	0.000283129	0.004482	1	0		A	131130877	A	A	131130877	3	1	160	1	0	0	0	0	1	0	0	0	1011	681	24	5	1785	5	ASAP1	8	131130877	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5565374	131130877	15233145	561	87831											
ASAP1	50807	broad.mit.edu	37	chr8	131165019	131165019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcagaatcccattcttgactGaacacttcctcctctgccat	9	13	4	15	0	3	3	1	2	2	1	6	3	6	3	4	0	2	0	4	0	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:131165019G>A	uc003yta.1	-	12	1071	c.1043C>T	c.(1042-1044)TCA>TTA	p.S348L	ASAP1_uc003ysz.1_Missense_Mutation_p.S159L|ASAP1_uc011liw.1_Missense_Mutation_p.S341L	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	348	PH.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						ATTCTTGACTGAACACTTCCT	0.433													6	327					0	0	0.001984	0	0		A	131165019	A	A	131165019	3	1	160	1	0	0	0	0	1	0	0	0	1011	1294	45	4	2418	4	ASAP1	8	131165019	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	34142	131165019	15199003	562	87832											
TG	7038	broad.mit.edu	37	chr8	133883670	133883670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcacagacacctcctacctcCctcagtgtcaggattcaggg	9	8	9	15	0	3	1	3	0	0	1	5	2	5	2	4	2	1	1	4	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:133883670C>T	uc003ytw.2	+	4	393	c.352C>T	c.(352-354)CCT>TCT	p.P118S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	118	Thyroglobulin type-1 2.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CTCCTACCTCCCTCAGTGTCA	0.527													5	117					0	0	0.001168	0	0		T	133883670	T	T	133883670	3	4	160	1	0	0	0	0	1	0	0	0	15838	623	22	4	366	4	TG	8	133883670	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2718651	133883670	12480352	563	87833											
TG	7038	broad.mit.edu	37	chr8	134125772	134125772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcccgcgtcgaggctgctgCtacatggtattactctctgg	5	12	12	12	3	1	0	0	0	1	0	3	1	1	0	1	3	5	4	1	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:134125772C>T	uc003ytw.2	+	44	7720	c.7679C>T	c.(7678-7680)GCT>GTT	p.A2560V	TG_uc010mdw.2_Missense_Mutation_p.A1319V|TG_uc011ljb.1_Missense_Mutation_p.A929V|TG_uc011ljc.1_Missense_Mutation_p.A693V	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2560					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GAGGCTGCTGCTACATGGTAT	0.577													23	58					0	0	0.012319	0	0		T	134125772	T	T	134125772	3	4	160	1	0	0	0	0	1	0	0	0	15838	797	28	2	7853	2	TG	8	134125772	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	242102	134125772	12238250	564	87834											
NDRG1	10397	broad.mit.edu	37	chr8	134292508	134292508	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcaggaggccggtgatGgtctgtgaaaagacaaaaaa	14	8	13	6	1	2	3	0	2	2	1	2	4	2	4	1	4	1	1	1	4	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:134292508G>T	uc003yuh.2	-	3	652	c.66C>A	c.(64-66)ACC>ACA	p.T22T	NDRG1_uc003yug.2_Silent_p.T22T|NDRG1_uc010mee.2_5'UTR|NDRG1_uc010mef.2_Intron|NDRG1_uc011ljh.1_5'UTR|NDRG1_uc011lji.1_Intron	NM_001135242	NP_001128714	Q92597	NDRG1_HUMAN	N-myc downstream regulated 1	22					cellular response to hypoxia|response to metal ion	cytoplasm|microtubule cytoskeleton|nucleus|plasma membrane	protein binding			ovary(4)	4	all_epithelial(106;4.26e-24)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GGCCGGTGATGGTCTGTGAAA	0.418													19	69					1.56452e-12	1.68552e-12	0.007413	1	0		T	134292508	T	T	134292508	2	4	160	1	0	0	0	0	0	0	0	1	10270	1335	47	5		5	NDRG1	8	134292508	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	166736	134292508	12071514	565	87835											
FLJ43860	389690	broad.mit.edu	37	chr8	142500310	142500310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgctgcgccaccacccGccacgagtgcctgcagatgg	8	5	12	16	3	0	2	0	0	0	2	0	3	0	2	5	1	4	2	5	1	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:142500310G>A	uc003ywi.2	-	5	685	c.604C>T	c.(604-606)CGG>TGG	p.R202W	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	202							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GCCACCACCCGCCACGAGTGC	0.652													9	15					0	0	0.004482	0	0		A	142500310	A	A	142500310	3	1	160	1	0	0	0	0	1	0	0	0	5944	1086	38	1	3456	1	FLJ43860	8	142500310	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	8207802	142500310	3863712	566	87836											
ZFP41	286128	broad.mit.edu	37	chr8	144332324	144332324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacaagacagaccacattcGccatcagagggtccacactg	13	5	9	14	1	1	3	1	0	0	3	3	3	2	3	3	1	0	1	3	1	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:144332324G>A	uc003yxw.2	+	2	669	c.311G>A	c.(310-312)CGC>CAC	p.R104H	ZFP41_uc003yxv.2_RNA	NM_173832	NP_776193	Q8N8Y5	ZFP41_HUMAN	zinc finger protein 41 homolog	104	C2H2-type 1.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.6e-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)			GACCACATTCGCCATCAGAGG	0.547													6	210					0	0	0.001168	0	0		A	144332324	A	A	144332324	3	1	160	1	0	0	0	0	1	0	0	0	17674	1087	38	1	313	1	ZFP41	8	144332324	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1832014	144332324	2031698	567	87837											
FAM83H	286077	broad.mit.edu	37	chr8	144810216	144810216	+	Missense_Mutation	SNP	A	G	G	1	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	ccccgcgaagcttctcgaacAggccttgcgggcgcgccggc	5	5	14	17	7	1	0	0	0	1	0	2	2	1	0	4	3	3	1	4	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:144810216A>G	uc003yzk.2	-	5	1484	c.1415T>C	c.(1414-1416)CTG>CCG	p.L472P	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	472					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		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)			CTTCTCGAACAGGCCTTGCGG	0.711													8	8					0	0	0.006214	0	0		G	144810216	G	G	144810216	3	3	160	1	0	0	0	0	1	0	0	0	5654	188	7	3	2128	3	FAM83H	8	144810216	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	477892	144810216	1553806	568	87838											
EPPK1	83481	broad.mit.edu	37	chr8	144944068	144944068	+	Silent	SNP	A	G	G	1	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	tcggtggggagggcaggagcActttctggcaggggcaggag	7	6	21	7	1	1	0	0	0	1	0	2	3	1	3	0	9	1	4	0	9	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:144944068A>G	uc003zaa.1	-	1	3367	c.3354T>C	c.(3352-3354)AGT>AGC	p.S1118S		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1118						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGGCAGGAGCACTTTCTGGCA	0.687													4	15					0	0	0.001168	0	0		G	144944068	G	G	144944068	2	3	160	1	0	0	0	0	0	0	0	1	5198	156	6	3		3	EPPK1	8	144944068	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	133852	144944068	1419954	569	87839											
PARP10	84875	broad.mit.edu	37	chr8	145059434	145059434	+	Frame_Shift_Del	DEL	G	-	-																															gggctccaggatgtcgtagtGggggacaaggctcagctctg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:145059434delG	uc003zal.3	-	5	844	c.736delC	c.(736-738)CACfs	p.H246fs	PARP10_uc003zak.3_5'UTR|PARP10_uc011lku.1_Frame_Shift_Del_p.H258fs|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Frame_Shift_Del_p.H246fs|PARP10_uc010mfn.1_Frame_Shift_Del_p.H161fs|PARP10_uc010mfo.1_3'UTR	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	246						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			atgtcgtagtgggggacaagg	0.294													17	38	---	---	---	---						.	-	145059434	-	-	145059434	7	5	160	1	0	1	0	1	0	0	0	0	11474	1348	47	0	2369	0	PARP10	8	145059434	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	115366	145059434	1304588	570	87840											
PARP10	84875	broad.mit.edu	37	chr8	145059498	145059498	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaacactcgttctgccacTtggaggaagggaaaggacag	12	7	13	9	1	1	0	0	0	1	0	2	4	1	4	1	4	3	2	1	4	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:145059498T>A	uc003zal.3	-	5	782	c.674_splice	c.e5-1	p.V225_splice	PARP10_uc003zak.3_Splice_Site|PARP10_uc011lku.1_Splice_Site_p.V237_splice|PARP10_uc011lkv.1_Splice_Site|PARP10_uc003zam.2_Splice_Site_p.V225_splice|PARP10_uc010mfn.1_Intron|PARP10_uc010mfo.1_Intron	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10							Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			gttctgccacttggaggaagg	0.269													5	19					0	0	0.001984	0	0		A	145059498	A	A	145059498	5	1	160	1	0	0	0	0	0	0	1	0	11474	1623	56	5	2433	5	PARP10	8	145059498	Splice_Site	SNP	T	TCGA-CG-5733-01A-11D-1600-08	64	145059498	1304524	571	87841											
PARP10	84875	broad.mit.edu	37	chr8	145060298	145060298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggtccccctccagagcGtcggcggttttcaaagtaga	9	8	11	13	3	1	2	1	0	0	2	4	2	3	2	3	3	1	2	3	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:145060298G>A	uc003zal.3	-	2	214	c.106C>T	c.(106-108)CGC>TGC	p.R36C	PARP10_uc003zak.3_5'Flank|PARP10_uc011lku.1_Missense_Mutation_p.R48C|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Missense_Mutation_p.R36C|PARP10_uc010mfn.1_Missense_Mutation_p.R36C|PARP10_uc010mfo.1_Intron	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	36						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCTCCAGAGCGTCGGCGGTTT	0.652													23	79					0	0	0.013114	0	0		A	145060298	A	A	145060298	3	1	160	1	0	0	0	0	1	0	0	0	11474	1145	40	1	3011	1	PARP10	8	145060298	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	800	145060298	1303724	572	87842											
ADCK5	203054	broad.mit.edu	37	chr8	145617902	145617902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgtggaccgctacttccttAtggctaaaaggtcggtggcc	7	10	12	12	3	0	0	0	0	0	0	2	1	1	1	4	5	1	2	4	5	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:145617902A>G	uc003zch.2	+	13	1564	c.1510A>G	c.(1510-1512)ATG>GTG	p.M504V	ADCK5_uc003zcg.2_RNA|ADCK5_uc003zci.2_Missense_Mutation_p.M93V	NM_174922	NP_777582	Q3MIX3	ADCK5_HUMAN	aarF domain containing kinase 5	504						integral to membrane	protein serine/threonine kinase activity			stomach(1)	1	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)			CTACTTCCTTATGGCTAAAAG	0.706													3	10					0	0	0.004672	0	0		G	145617902	G	G	145617902	3	3	160	1	0	0	0	0	1	0	0	0	291	449	16	3	1560	3	ADCK5	8	145617902	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	557604	145617902	746120	573	87843											
CPSF1	29894	broad.mit.edu	37	chr8	145619218	145619218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccacgtggaagtctgcccGacgcagcaggcgcatgcccc	8	4	12	17	4	1	0	0	0	1	0	1	2	1	1	4	2	3	3	4	2	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:145619218G>A	uc003zcj.2	-	35	3970	c.3895C>T	c.(3895-3897)CGG>TGG	p.R1299W		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	1299					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			AAGTCTGCCCGACGCAGCAGG	0.657													16	49					0	0	0.004007	0	0		A	145619218	A	A	145619218	3	1	160	1	0	0	0	0	1	0	0	0	3827	1057	37	1	452	1	CPSF1	8	145619218	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1316	145619218	744804	574	87844											
MFSD3	113655	broad.mit.edu	37	chr8	145736269	145736269	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatgcgctgcagccagctgGcccccagggccctgcaggtg	5	6	15	15	1	0	1	0	1	0	0	0	1	0	1	4	3	5	4	4	3	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr8:145736269G>C	uc003zdi.1	+	4	1213	c.1048G>C	c.(1048-1050)GCC>CCC	p.A350P		NM_138431	NP_612440	Q96ES6	MFSD3_HUMAN	major facilitator superfamily domain containing	350	Leu-rich.				transmembrane transport	integral to membrane				central_nervous_system(2)	2	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CAGCCAGCTGGCCCCCAGGGC	0.647													9	49					0	0	0.008291	0	0		C	145736269	C	C	145736269	3	2	160	1	0	0	0	0	1	0	0	0	9550	1203	42	5	1062	5	MFSD3	8	145736269	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	117051	145736269	627753	575	87845											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													4	109					0	0	0.008291	0	0		G	164038	G	G	164038	5	3	160	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08		164038	141049393	576	87846											
DOCK8	81704	broad.mit.edu	37	chr9	428479	428479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactgctttgcaacactcCgtgctctcatcgccaaggta	8	11	7	15	2	2	0	2	0	1	0	5	0	3	0	2	1	4	4	2	1	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:428479C>T	uc003zgf.2	+	35	4568	c.4456C>T	c.(4456-4458)CGT>TGT	p.R1486C	DOCK8_uc010mgu.2_Missense_Mutation_p.R788C|DOCK8_uc010mgv.2_Missense_Mutation_p.R1386C|DOCK8_uc003zgk.2_Missense_Mutation_p.R944C	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1486	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		TGCAACACTCCGTGCTCTCAT	0.468													33	104					0	0	0.003755	0	0		T	428479	T	T	428479	3	4	160	1	0	0	0	0	1	0	0	0	4699	652	23	1	4594	1	DOCK8	9	428479	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	264441	428479	140784952	577	87847											
KANK1	23189	broad.mit.edu	37	chr9	676999	676999	+	Silent	SNP	C	T	T	0	0	0	1	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	cacaccacaaaggttaacggCagtgcctcaggtaaccctgt	12	7	9	13	1	1	0	1	0	0	0	1	0	1	0	3	3	3	3	3	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:676999C>T	uc003zgl.1	+	6	676	c.27C>T	c.(25-27)GGC>GGT	p.G9G	KANK1_uc003zgm.2_Silent_p.G9G|KANK1_uc003zgn.1_Silent_p.G9G|KANK1_uc003zgo.1_Silent_p.G9G|KANK1_uc003zgp.1_Silent_p.G9G	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	9					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		AGGTTAACGGCAGTGCCTCAG	0.398													38	108					0	0	0.010771	0	0		T	676999	T	T	676999	2	4	160	1	0	0	0	0	0	0	0	1	7992	697	25	2		2	KANK1	9	676999	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	248520	676999	140536432	578	87848											
KANK1	23189	broad.mit.edu	37	chr9	712829	712829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagttcaccaacaccgagaCggccaccctcatagagtcct	11	6	7	17	2	2	2	2	0	0	2	3	3	3	2	6	1	1	1	6	1	2	2	rs146648084	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:712829C>T	uc003zgl.1	+	7	2712	c.2063C>T	c.(2062-2064)ACG>ATG	p.T688M	KANK1_uc003zgm.2_Missense_Mutation_p.T688M|KANK1_uc003zgn.1_Missense_Mutation_p.T688M|KANK1_uc003zgo.1_Missense_Mutation_p.T688M|KANK1_uc003zgp.1_Missense_Mutation_p.T688M|KANK1_uc003zgq.2_Missense_Mutation_p.T530M|KANK1_uc003zgr.1_Missense_Mutation_p.T530M|KANK1_uc003zgs.1_Missense_Mutation_p.T530M	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	688					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		AACACCGAGACGGCCACCCTC	0.557													19	35					0	0	0.006122	0	0		T	712829	T	T	712829	3	4	160	1	0	0	0	0	1	0	0	0	7992	536	19	1	2069	1	KANK1	9	712829	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	35830	712829	140500602	579	87849											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18706941	18706941	+	Missense_Mutation	SNP	A	G	G	1	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	gcggggaaattcctgagttcAacccagacgagacagatggg	12	6	14	9	2	1	4	1	1	0	3	2	6	2	5	2	3	1	1	2	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:18706941A>G	uc003zne.3	+	14	1898	c.1771A>G	c.(1771-1773)AAC>GAC	p.N591D		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	591						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TCCTGAGTTCAACCCAGACGA	0.582													13	35					0	0	0.013537	0	0		G	18706941	G	G	18706941	3	3	160	1	0	0	0	0	1	0	0	0	274	130	5	3	1829	3	ADAMTSL1	9	18706941	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	17994112	18706941	122506490	580	87850											
C9orf82	79886	broad.mit.edu	37	chr9	26842535	26842535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctgaccagcttcactttggaCtgtattttctggtgcctcgg	5	15	10	11	1	2	1	1	1	1	0	3	2	2	2	2	3	2	2	2	3	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:26842535C>T	uc003zqc.2	-	6	862	c.850G>A	c.(850-852)GTC>ATC	p.V284I	C9orf82_uc003zqb.2_Missense_Mutation_p.V139I	NM_024828	NP_079104	Q9H8G2	CI082_HUMAN	hypothetical protein LOC79886	284	Potential.										0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(42;1.39e-05)|LUSC - Lung squamous cell carcinoma(38;0.000114)		TCACTTTGGACTGTATTTTCT	0.458													28	482					0	0	0.009535	0	0		T	26842535	T	T	26842535	3	4	160	1	0	0	0	0	1	0	0	0	2502	565	20	4	239	4	C9orf82	9	26842535	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	8135594	26842535	114370896	581	87851											
PLAA	9373	broad.mit.edu	37	chr9	26919401	26919401	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctacttgatccagaaacaTaggattcaaatcattcttct	14	13	5	9	0	4	2	2	1	2	1	5	3	5	3	1	1	3	1	1	1	4	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:26919401T>C	uc003zqd.2	-	9	1749	c.1324A>G	c.(1324-1326)ATG>GTG	p.M442V	PLAA_uc003zqe.2_Missense_Mutation_p.M442V	NM_001031689	NP_001026859	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	442	PFU.				phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		TCCAGAAACATAGGATTCAAA	0.353													86	239					0	0	0.01441	0	0		C	26919401	C	C	26919401	3	2	160	1	0	0	0	0	1	0	0	0	12030	1406	49	3	1087	3	PLAA	9	26919401	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	76866	26919401	114294030	582	87852											
ACO1	48	broad.mit.edu	37	chr9	32418455	32418455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attattacccagacagcctcGtgggcacagactcgcacact	11	8	8	14	2	0	2	0	0	0	2	2	2	0	2	2	1	2	2	2	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:32418455G>A	uc003zqw.3	+	6	759	c.604G>A	c.(604-606)GTG>ATG	p.V202M	ACO1_uc010mjh.1_Missense_Mutation_p.V36M|ACO1_uc003zqx.3_Missense_Mutation_p.V202M|ACO1_uc003zqy.3_RNA	NM_002197	NP_002188	P21399	ACOC_HUMAN	aconitase 1	202					citrate metabolic process|response to iron(II) ion|tricarboxylic acid cycle	cytosol|endoplasmic reticulum|Golgi apparatus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron-responsive element binding|isocitrate hydro-lyase (cis-aconitate-forming) activity|metal ion binding|protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;3.94e-06)		AGACAGCCTCGTGGGCACAGA	0.458													11	251					0	0	0.013537	0	0		A	32418455	A	A	32418455	3	1	160	1	0	0	0	0	1	0	0	0	146	1145	40	1	622	1	ACO1	9	32418455	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5499054	32418455	108794976	583	87853											
AQP7	364	broad.mit.edu	37	chr9	33386192	33386192	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaaaagtggagaatggcCgctgcggagacacagactgt	12	5	14	10	3	0	3	0	0	0	3	0	6	0	3	2	3	1	1	2	3	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:33386192C>T	uc003zst.2	-	6	580	c.408G>A	c.(406-408)ACG>ACA	p.T136T	SUGT1P1_uc010mjq.1_Intron|AQP7_uc003zsu.1_Silent_p.T79T|AQP7_uc010mjs.2_Silent_p.T44T|AQP7_uc010mjt.2_Silent_p.T44T|AQP7_uc011lnx.1_Silent_p.T136T|AQP7_uc011lny.1_Silent_p.T135T|AQP7_uc003zss.3_Silent_p.T44T|AQP7_uc011lnz.1_Silent_p.T44T|AQP7_uc011loa.1_Intron	NM_001170	NP_001161	O14520	AQP7_HUMAN	aquaporin 7	136	Extracellular (Potential).				excretion|generation of precursor metabolites and energy	cell-cell junction|cytoplasm|integral to plasma membrane	glycerol channel activity|water channel activity				0			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		GGAGAATGGCCGCTGCGGAGA	0.567													16	76					0	0	0.00499	0	0		T	33386192	T	T	33386192	2	4	160	1	0	0	0	0	0	0	0	1	831	666	23	1		1	AQP7	9	33386192	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	967737	33386192	107827239	584	87854											
KIF24	347240	broad.mit.edu	37	chr9	34271901	34271901	+	Missense_Mutation	SNP	T	C	C	0	1	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	aactccagtggccccagtgcTgcgctccttgctgcccttta	5	11	9	16	1	0	0	0	0	0	0	2	0	2	0	5	1	5	3	5	1	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:34271901T>C	uc003zua.3	-	7	1363	c.1243A>G	c.(1243-1245)AGC>GGC	p.S415G	KIF24_uc010mkb.2_Missense_Mutation_p.S446G	NM_194313	NP_919289	Q5T7B8	KIF24_HUMAN	kinesin family member 24	415	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			central_nervous_system(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0107)			GCCCCAGTGCTGCGCTCCTTG	0.498													8	13					0	0	0.00308	0	0		C	34271901	C	C	34271901	3	2	160	1	0	0	0	0	1	0	0	0	8308	1580	55	3	2891	3	KIF24	9	34271901	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	885709	34271901	106941530	585	87855											
NUDT2	318	broad.mit.edu	37	chr9	34339041	34339041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtccttaggataagaccatgGccttgagagcatgtggcttg	9	11	13	8	0	0	2	0	1	0	2	1	4	1	3	3	3	1	2	3	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:34339041G>A	uc003zub.2	+	4	362	c.4G>A	c.(4-6)GCC>ACC	p.A2T	NUDT2_uc003zuc.2_Missense_Mutation_p.A2T|NUDT2_uc003zud.2_Missense_Mutation_p.A2T	NM_001161	NP_001152	P50583	AP4A_HUMAN	nudix-type motif 2	2	Nudix hydrolase.				induction of apoptosis|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		bis(5'-nucleosyl)-tetraphosphatase (asymmetrical) activity|bis(5'-nucleosyl)-tetraphosphatase (symmetrical) activity|GTP binding				0			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		TAAGACCATGGCCTTGAGAGC	0.438													61	143					0	0	0.01441	0	0		A	34339041	A	A	34339041	3	1	160	1	0	0	0	0	1	0	0	0	10756	1203	42	2	6	2	NUDT2	9	34339041	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	67140	34339041	106874390	586	87856											
STOML2	30968	broad.mit.edu	37	chr9	35101481	35101481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatatccttgatctcataaCggaggcagcggataccccag	11	8	11	11	2	1	1	1	1	1	0	3	4	2	4	3	4	3	1	3	4	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:35101481C>T	uc003zwi.2	-	6	584	c.521G>A	c.(520-522)CGT>CAT	p.R174H	STOML2_uc003zwh.2_Missense_Mutation_p.R65H|STOML2_uc003zwj.2_Missense_Mutation_p.R65H|STOML2_uc011lou.1_Intron|STOML2_uc003zwk.2_Missense_Mutation_p.R123H	NM_013442	NP_038470	Q9UJZ1	STML2_HUMAN	stomatin (EPB72)-like 2	174						cytoskeleton	receptor binding				0			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GATCTCATAACGGAGGCAGCG	0.572													37	109					0	0	0.01441	0	0		T	35101481	T	T	35101481	3	4	160	1	0	0	0	0	1	0	0	0	15339	536	19	1	569	1	STOML2	9	35101481	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	762440	35101481	106111950	587	87857											
TESK1	7016	broad.mit.edu	37	chr9	35609590	35609590	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcctcggccccttcagcTttggcttcctgtccatgtgc	2	13	10	16	1	1	0	1	0	0	0	4	0	3	0	5	2	3	3	5	2	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:35609590T>G	uc003zxa.2	+	10	2068	c.1732T>G	c.(1732-1734)TTT>GTT	p.F578V	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Missense_Mutation_p.F418V	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	578					cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CCCCTTCAGCTTTGGCTTCCT	0.692													11	34					0	0	0.001855	0	0		G	35609590	G	G	35609590	3	3	160	1	0	0	0	0	1	0	0	0	15792	1609	56	5	1770	5	TESK1	9	35609590	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	508109	35609590	105603841	588	87858											
SPAG8	26206	broad.mit.edu	37	chr9	35810888	35810888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacatttcacacctcgaagtGgccaatagacgtttcctggt	10	11	8	12	2	1	1	1	0	0	1	3	2	2	1	3	2	0	1	3	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:35810888G>A	uc003zye.2	-	3	1146	c.1031C>T	c.(1030-1032)CCA>CTA	p.P344L	SPAG8_uc003zyf.2_Missense_Mutation_p.P261L|SPAG8_uc003zyg.2_Missense_Mutation_p.P344L	NM_172312	NP_758516	Q99932	SPAG8_HUMAN	sperm associated antigen 8 isoform 2	344						acrosomal vesicle|membrane				ovary(1)	1	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)			ACCTCGAAGTGGCCAATAGAC	0.547													23	72					0	0	0.013726	0	0		A	35810888	A	A	35810888	3	1	160	1	0	0	0	0	1	0	0	0	15009	1348	47	4	697	4	SPAG8	9	35810888	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	201298	35810888	105402543	589	87859											
CLTA	1211	broad.mit.edu	37	chr9	36209304	36209304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaacaacccttcgctgacGtgattggttatgtgtatgtt	10	14	9	8	2	0	2	0	2	0	0	1	2	0	2	1	1	2	4	1	1	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:36209304G>A	uc003zzc.2	+	5	688	c.526G>A	c.(526-528)GTG>ATG	p.V176M	CLTA_uc003zzd.2_Missense_Mutation_p.V176M|CLTA_uc003zze.2_Intron|CLTA_uc011lpk.1_Intron|CLTA_uc003zzf.1_Intron	NM_007096	NP_009027	P09496	CLCA_HUMAN	clathrin, light polypeptide A isoform b	176					axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol	structural molecule activity			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			CTTCGCTGACGTGATTGGTTA	0.403													37	79					0	0	0.005524	0	0		A	36209304	A	A	36209304	3	1	160	1	0	0	0	0	1	0	0	0	3567	1145	40	1	544	1	CLTA	9	36209304	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	398416	36209304	105004127	590	87860											
ALDH1B1	219	broad.mit.edu	37	chr9	38396879	38396879	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctacatccagcttggccaGaaggagggcgcaaaactcct	11	6	12	12	1	0	1	0	0	0	1	2	2	2	2	3	4	3	3	3	4	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:38396879G>T	uc004aay.2	+	2	1246	c.1134G>T	c.(1132-1134)CAG>CAT	p.Q378H		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	378					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	AGCTTGGCCAGAAGGAGGGCG	0.567													18	66					6.44725e-10	6.90356e-10	0.014323	1	0		T	38396879	T	T	38396879	3	4	160	1	0	0	0	0	1	0	0	0	493	933	33	5	1136	5	ALDH1B1	9	38396879	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2187575	38396879	102816552	591	87861											
PGM5	5239	broad.mit.edu	37	chr9	70993117	70993117	+	Silent	SNP	T	C	C	0	1	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	tttttttggatggtttagatTggacgactgattattggaca	9	18	11	3	1	0	2	0	1	0	1	0	6	0	5	0	4	0	1	0	4	2	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:70993117T>C	uc004agr.2	+	2	493	c.264T>C	c.(262-264)ATT>ATC	p.I88I		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	88					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TGGTTTAGATTGGACGACTGA	0.433													5	160					0	0	0.000602	0	0		C	70993117	C	C	70993117	2	2	160	1	0	0	0	0	0	0	0	1	11820	1800	63	3		3	PGM5	9	70993117	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	32596238	70993117	70220314	592	87862											
FAM189A2	9413	broad.mit.edu	37	chr9	72003185	72003185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttcgcgatgcagaccgcGgtctttgatagattacaaat	11	11	10	9	4	1	3	0	1	1	2	2	4	1	3	1	1	3	2	1	1	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:72003185G>A	uc010mon.1	+	10	1072	c.968G>A	c.(967-969)CGG>CAG	p.R323Q	FAM189A2_uc004ahg.2_Missense_Mutation_p.R323Q|FAM189A2_uc010moo.1_Intron	NM_001127608	NP_001121080	Q15884	F1892_HUMAN	chromosome 9 open reading frame 61 precursor	323						integral to membrane					0						TGCAGACCGCGGTCTTTGATA	0.522													25	74					0	0	0.00333	0	0		A	72003185	A	A	72003185	3	1	160	1	0	0	0	0	1	0	0	0	5527	1116	39	1	1002	1	FAM189A2	9	72003185	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1010068	72003185	69210246	593	87863											
MAMDC2	256691	broad.mit.edu	37	chr9	72727953	72727953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctgtggctttgtgaaccGctggaatcccaatgtgaact	8	13	10	10	1	1	2	0	2	1	0	3	3	2	3	2	2	2	2	2	2	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:72727953G>A	uc004ahm.2	+	5	1165	c.548G>A	c.(547-549)CGC>CAC	p.R183H	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	183	MAM 2.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						TTTGTGAACCGCTGGAATCCC	0.473													45	84					0	0	0.01441	0	0		A	72727953	A	A	72727953	3	1	160	1	0	0	0	0	1	0	0	0	9221	1087	38	1	566	1	MAMDC2	9	72727953	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	724768	72727953	68485478	594	87864											
TRPM3	80036	broad.mit.edu	37	chr9	73152286	73152286	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatggagtgctctctctcgTtgacttcctccagccgcata	6	13	8	14	2	3	1	1	1	2	0	7	2	5	2	3	1	2	3	3	1	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:73152286T>C	uc004aid.2	-	25	3951	c.3707A>G	c.(3706-3708)AAC>AGC	p.N1236S	TRPM3_uc004ahu.2_Missense_Mutation_p.N1078S|TRPM3_uc004ahv.2_Missense_Mutation_p.N1038S|TRPM3_uc004ahw.2_Missense_Mutation_p.N1108S|TRPM3_uc004ahx.2_Missense_Mutation_p.N1095S|TRPM3_uc004ahy.2_Missense_Mutation_p.N1098S|TRPM3_uc004ahz.2_Missense_Mutation_p.N1085S|TRPM3_uc004aia.2_Missense_Mutation_p.N1083S|TRPM3_uc004aib.2_Missense_Mutation_p.N1073S|TRPM3_uc004aic.2_Missense_Mutation_p.N1236S	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1261	Cytoplasmic (Potential).|Potential.					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTCTCTCTCGTTGACTTCCTC	0.602													15	38					0	0	0.004007	0	0		C	73152286	C	C	73152286	3	2	160	1	0	0	0	0	1	0	0	0	16613	1725	60	3	1420	3	TRPM3	9	73152286	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	424333	73152286	68061145	595	87865											
TRPM3	80036	broad.mit.edu	37	chr9	73213485	73213485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagacgaaggatcattccGacagaaaacagaaggatggc	16	5	13	7	2	1	3	1	0	0	3	2	8	2	5	1	4	1	0	1	4	4	1	rs145029936		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:73213485G>A	uc004aid.2	-	20	3106	c.2862C>T	c.(2860-2862)GTC>GTT	p.V954V	TRPM3_uc004ahu.2_Silent_p.V784V|TRPM3_uc004ahv.2_Silent_p.V756V|TRPM3_uc004ahw.2_Silent_p.V826V|TRPM3_uc004ahx.2_Silent_p.V813V|TRPM3_uc004ahy.2_Silent_p.V816V|TRPM3_uc004ahz.2_Silent_p.V803V|TRPM3_uc004aia.2_Silent_p.V801V|TRPM3_uc004aib.2_Silent_p.V791V|TRPM3_uc004aic.2_Silent_p.V954V	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	979	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGATCATTCCGACAGAAAACA	0.498													49	125					0	0	0.01441	0	0		A	73213485	A	A	73213485	2	1	160	1	0	0	0	0	0	0	0	1	16613	1045	37	1		1	TRPM3	9	73213485	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	61199	73213485	67999946	596	87866											
PCSK5	5125	broad.mit.edu	37	chr9	78773924	78773924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgccctaacagtgcagtgCgctccatctacaaagcttca	10	9	7	15	2	2	0	1	0	1	0	4	0	4	0	3	0	5	3	3	0	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:78773924C>T	uc004ajz.2	+	12	1994	c.1456C>T	c.(1456-1458)CGC>TGC	p.R486C	PCSK5_uc004ajy.2_Missense_Mutation_p.R486C|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	486	Homo B/P.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						CAGTGCAGTGCGCTCCATCTA	0.542													65	205					0	0	0.01441	0	0		T	78773924	T	T	78773924	3	4	160	1	0	0	0	0	1	0	0	0	11622	768	27	1	1502	1	PCSK5	9	78773924	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5560439	78773924	62439507	597	87867											
C9orf170	401535	broad.mit.edu	37	chr9	89763701	89763701	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcccctgcatctcctcctggGggtgtgggggccgagtggga	3	9	17	12	1	1	0	0	0	1	0	4	2	3	1	5	5	1	1	5	5	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:89763701G>T	uc004apa.1	+	1	143	c.56G>T	c.(55-57)GGG>GTG	p.G19V		NM_001001709	NP_001001709	A2RU37	CI170_HUMAN	hypothetical protein LOC401535	19											0						CTCCTCCTGGGGGTGTGGGGG	0.711													3	17					0.00909568	0.00928036	0.009096	1	0		T	89763701	T	T	89763701	3	4	160	1	0	0	0	0	1	0	0	0	2472	1232	43	5	58	5	C9orf170	9	89763701	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	10989777	89763701	51449730	598	87868											
ROR2	4920	broad.mit.edu	37	chr9	94486805	94486805	+	Silent	SNP	G	A	A	0	0	1	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	atggcctctggggccatccaGcggataggcagcagcgagtt	8	7	15	11	2	1	0	0	0	1	0	2	2	2	1	3	5	3	3	3	5	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:94486805G>A	uc004arj.1	-	9	2170	c.1971C>T	c.(1969-1971)CGC>CGT	p.R657R	ROR2_uc004ari.1_Silent_p.R517R	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	657	Cytoplasmic (Potential).|Protein kinase.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GGGCCATCCAGCGGATAGGCA	0.577													7	21					0	0	0.001855	0	0		A	94486805	A	A	94486805	2	1	160	1	0	0	0	0	0	0	0	1	13552	958	34	2		2	ROR2	9	94486805	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4723104	94486805	46726626	599	87869											
IARS	3376	broad.mit.edu	37	chr9	94984874	94984874	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacaccttggctgcttcatAcagaagaccttggtgggtga	11	10	11	9	0	1	3	1	1	0	2	1	3	1	3	2	3	3	2	2	3	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:94984874A>G	uc004art.1	-	33	3891	c.3634T>C	c.(3634-3636)TAT>CAT	p.Y1212H	IARS_uc004ars.1_Missense_Mutation_p.Y1005H|IARS_uc004aru.3_Missense_Mutation_p.Y1212H|IARS_uc010mqr.2_Missense_Mutation_p.Y1102H|IARS_uc010mqt.2_Missense_Mutation_p.Y435H	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	1212					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	GCTGCTTCATACAGAAGACCT	0.493													113	270					0	0	0.01441	0	0		G	94984874	G	G	94984874	3	3	160	1	0	0	0	0	1	0	0	0	7489	391	14	3	162	3	IARS	9	94984874	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	498069	94984874	46228557	600	87870											
NOL8	55035	broad.mit.edu	37	chr9	95076606	95076606	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcttttgctttttgcctCgcttccaaggctgccaaacg	6	15	7	13	2	1	0	0	0	1	0	3	0	2	0	3	1	4	3	3	1	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:95076606C>T	uc004arv.2	-	7	2638	c.2301G>A	c.(2299-2301)GCG>GCA	p.A767A	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Silent_p.A699A	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	767	Potential.				DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						CTTTTTGCCTCGCTTCCAAGG	0.383													38	75					0	0	0.011902	0	0		T	95076606	T	T	95076606	2	4	160	1	0	0	0	0	0	0	0	1	10546	871	31	1		1	NOL8	9	95076606	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	91732	95076606	46136825	601	87871											
BICD2	23299	broad.mit.edu	37	chr9	95480885	95480885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccgcttggtgctgagcagcGacttcagcttgaggatctcc	6	10	12	13	2	2	2	1	2	1	0	3	4	2	3	2	2	4	4	2	2	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:95480885G>A	uc004aso.1	-	5	2099	c.2042C>T	c.(2041-2043)TCG>TTG	p.S681L	BICD2_uc004asp.1_Missense_Mutation_p.S681L	NM_015250	NP_056065	Q8TD16	BICD2_HUMAN	bicaudal D homolog 2 isoform 2	681	Interacts with RAB6A (By similarity).|Potential.				microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule	cytoplasmic vesicle|cytoskeleton|Golgi apparatus|plasma membrane	Rab GTPase binding			skin(1)	1						GCTGAGCAGCGACTTCAGCTT	0.622													78	162					0	0	0.01441	0	0		A	95480885	A	A	95480885	3	1	160	1	0	0	0	0	1	0	0	0	1430	1059	37	1	547	1	BICD2	9	95480885	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	404279	95480885	45732546	602	87872											
ZNF484	83744	broad.mit.edu	37	chr9	95610073	95610073	+	Silent	SNP	G	A	A	0	0	1	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	tggataaaggctcttccataGtcactgcatttatagtaatt	12	15	7	7	0	2	0	1	0	1	0	3	1	3	1	1	2	1	3	1	2	6	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:95610073G>A	uc004asu.1	-	5	1145	c.996C>T	c.(994-996)GAC>GAT	p.D332D	ANKRD19_uc004asr.3_Intron|ZNF484_uc011lub.1_Silent_p.D334D|ZNF484_uc010mrb.1_Silent_p.D296D|ZNF484_uc004asv.1_Silent_p.D296D	NM_031486	NP_113674	Q5JVG2	ZN484_HUMAN	zinc finger protein 484 isoform a	332	C2H2-type 3; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTCTTCCATAGTCACTGCATT	0.398													19	200					0	0	0.012319	0	0		A	95610073	A	A	95610073	2	1	160	1	0	0	0	0	0	0	0	1	17962	1020	36	4		4	ZNF484	9	95610073	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	129188	95610073	45603358	603	87873											
FAM120A	23196	broad.mit.edu	37	chr9	96278468	96278468	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcccagagcggcagcccCaaccacgtggattccgccta	8	4	11	18	4	0	1	0	0	0	1	1	2	1	2	7	3	3	1	7	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:96278468C>T	uc004atw.2	+	7	1360	c.1335C>T	c.(1333-1335)CCC>CCT	p.P445P	FAM120A_uc004atv.2_Silent_p.P445P|FAM120A_uc004atx.2_Silent_p.P227P|FAM120A_uc004aty.2_Silent_p.P226P|FAM120A_uc004atz.2_Silent_p.P94P|FAM120A_uc010mrf.1_RNA	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	445						cytoplasm|plasma membrane	RNA binding				0						GCGGCAGCCCCAACCACGTGG	0.612													17	29					0	0	0.006122	0	0		T	96278468	T	T	96278468	2	4	160	1	0	0	0	0	0	0	0	1	5426	581	21	4		4	FAM120A	9	96278468	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	668395	96278468	44934963	604	87874											
PTPDC1	138639	broad.mit.edu	37	chr9	96859910	96859910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattgctgctggacttagcGgagaacaggccagtgatgat	12	9	13	7	1	0	3	0	2	0	1	0	5	0	4	1	3	4	2	1	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:96859910G>A	uc004auf.1	+	7	1240	c.900G>A	c.(898-900)GCG>GCA	p.A300A	PTPDC1_uc004aug.1_Silent_p.A300A|PTPDC1_uc004auh.1_Silent_p.A352A|PTPDC1_uc010mrj.1_Silent_p.A354A|PTPDC1_uc010mri.1_Silent_p.A352A	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	300							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						TGGACTTAGCGGAGAACAGGC	0.468													76	124					0	0	0.01441	0	0		A	96859910	A	A	96859910	2	1	160	1	0	0	0	0	0	0	0	1	12796	1103	39	1		1	PTPDC1	9	96859910	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	581442	96859910	44353521	605	87875											
C9orf102	375748	broad.mit.edu	37	chr9	98678714	98678714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgcctaagaaggaagacCgggtaagaaccgcatttgta	14	8	12	7	2	0	3	0	0	0	3	0	4	0	4	3	2	2	4	3	2	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:98678714C>T	uc004avt.3	+	6	1577	c.1189C>T	c.(1189-1191)CGG>TGG	p.R397W	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.R99W|C9orf102_uc010mry.1_Missense_Mutation_p.R99W|C9orf102_uc010mrz.2_Missense_Mutation_p.R208W	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	397					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				GAAGGAAGACCGGGTAAGAAC	0.393													22	53					0	0	0.012319	0	0		T	98678714	T	T	98678714	3	4	160	1	0	0	0	0	1	0	0	0	2448	643	23	1	1211	1	C9orf102	9	98678714	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1818804	98678714	42534717	606	87876											
KIAA1529	57653	broad.mit.edu	37	chr9	100088885	100088885	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggaccaactgaggcagcaaaGtgacaaagaaacactggcgt	16	4	12	9	1	0	3	0	2	0	1	0	4	0	4	1	3	3	2	1	3	4	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:100088885G>T	uc011lut.1	+	27	2917	c.2144G>T	c.(2143-2145)AGT>ATT	p.S715I	KIAA1529_uc004axe.1_Missense_Mutation_p.S715I|KIAA1529_uc004axg.1_Missense_Mutation_p.S576I|KIAA1529_uc011lus.1_Missense_Mutation_p.S533I|KIAA1529_uc010msm.1_RNA|KIAA1529_uc004axf.2_Missense_Mutation_p.S576I|KIAA1529_uc011luv.1_Missense_Mutation_p.S573I	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				AGGCAGCAAAGTGACAAAGAA	0.517													82	187					5.52927e-58	6.25376e-58	0.01441	1	0		T	100088885	T	T	100088885	3	4	160	1	0	0	0	0	1	0	0	0	8256	1029	36	5	2214	5	KIAA1529	9	100088885	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1410171	100088885	41124546	607	87877											
TMOD1	7111	broad.mit.edu	37	chr9	100331261	100331261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctggagctgggattctgcGcctggtagaagccctcccat	6	11	12	12	1	2	1	0	0	2	1	3	3	3	3	3	3	3	2	3	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:100331261G>A	uc004axk.1	+	8	1025	c.812G>A	c.(811-813)CGC>CAC	p.R271H	TMOD1_uc004axl.1_Missense_Mutation_p.R271H	NM_003275	NP_003266	P28289	TMOD1_HUMAN	tropomodulin 1	271					muscle filament sliding	cytosol	actin binding				0		Acute lymphoblastic leukemia(62;0.154)		STAD - Stomach adenocarcinoma(157;0.105)		GGGATTCTGCGCCTGGTAGAA	0.488													5	163					0	0	0.000602	0	0		A	100331261	A	A	100331261	3	1	160	1	0	0	0	0	1	0	0	0	16258	1087	38	1	838	1	TMOD1	9	100331261	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	242376	100331261	40882170	608	87878											
TRIM14	9830	broad.mit.edu	37	chr9	100849874	100849874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccgtcacgtcgtagaaggCgaggacgccggcctcgtagt	7	6	15	13	7	1	1	1	0	0	1	3	3	1	2	3	3	0	2	3	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:100849874C>T	uc004ayd.2	-	6	1225	c.1207G>A	c.(1207-1209)GCC>ACC	p.A403T	TRIM14_uc004ayf.1_Missense_Mutation_p.A310T|TRIM14_uc011luz.1_Missense_Mutation_p.A181T|TRIM14_uc011lva.1_Missense_Mutation_p.A184T|TRIM14_uc004ayg.1_Missense_Mutation_p.A403T|TRIM14_uc004ayh.1_Missense_Mutation_p.A403T|TRIM14_uc004ayi.1_Intron|TRIM14_uc004ayj.1_Missense_Mutation_p.A310T	NM_033220	NP_150089	Q14142	TRI14_HUMAN	tripartite motif protein TRIM14 isoform alpha	403	B30.2/SPRY.			RLRPRDDLDRLGVFLDYEAGVLAFYDVTGGMSHLHTFRATF QEPLYPALRLWEGAISIPRLP -> ACGPATTSTGSASSWT TRPASSPSTT (in Ref. 2; BAA09478).		cytoplasm|intracellular	zinc ion binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.0559)				TCGTAGAAGGCGAGGACGCCG	0.711													3	9					0	0	0.004672	0	0		T	100849874	T	T	100849874	3	4	160	1	0	0	0	0	1	0	0	0	16515	768	27	1	125	1	TRIM14	9	100849874	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	518613	100849874	40363557	609	87879											
GABBR2	9568	broad.mit.edu	37	chr9	101216327	101216327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcccagcgtgtggtccGtgtagttgaagtcctggatc	5	12	13	11	2	0	1	0	1	0	0	4	2	3	2	4	2	2	2	4	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:101216327G>A	uc004ays.2	-	7	1328	c.1172C>T	c.(1171-1173)ACG>ATG	p.T391M		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	391	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	CGTGTGGTCCGTGTAGTTGAA	0.582													20	48					0	0	0.012319	0	0		A	101216327	A	A	101216327	3	1	160	1	0	0	0	0	1	0	0	0	6170	1145	40	1	1705	1	GABBR2	9	101216327	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	366453	101216327	39997104	610	87880											
ANKS6	203286	broad.mit.edu	37	chr9	101552402	101552402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacctgttttgggcctgacGgtggtcagcgggtccaggta	5	11	16	9	2	1	2	1	2	0	0	2	2	2	2	3	5	1	2	3	5	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:101552402G>A	uc004ayu.2	-	2	867	c.846C>T	c.(844-846)ACC>ACT	p.T282T	ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	282	ANK 7.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				TGGGCCTGACGGTGGTCAGCG	0.577													4	132					0	0	0.001168	0	0		A	101552402	A	A	101552402	2	1	160	1	0	0	0	0	0	0	0	1	692	1103	39	1		1	ANKS6	9	101552402	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	336075	101552402	39661029	611	87881											
ACTL7B	10880	broad.mit.edu	37	chr9	111617761	111617761	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggggctgagcggagggtcGgagaccagcacagcgtgctc	7	5	18	11	3	0	2	0	1	0	1	2	4	0	3	1	5	4	3	1	5	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:111617761G>A	uc004bdi.2	-	1	515	c.450C>T	c.(448-450)TCC>TCT	p.S150S		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	150						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						GCGGAGGGTCGGAGACCAGCA	0.627													15	59					0	0	0.004007	0	0		A	111617761	A	A	111617761	2	1	160	1	0	0	0	0	0	0	0	1	201	1103	39	1		1	ACTL7B	9	111617761	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	10065359	111617761	29595670	612	87882											
PTPN3	5774	broad.mit.edu	37	chr9	112143955	112143955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctgcaccatcatggcgcGctggtctcgcatttttcgga	5	13	11	12	4	3	0	1	0	2	0	5	1	3	1	1	3	1	3	1	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:112143955G>A	uc004bed.2	-	25	2753	c.2641C>T	c.(2641-2643)CGC>TGC	p.R881C	PTPN3_uc004beb.2_Missense_Mutation_p.R750C|PTPN3_uc004bec.2_Missense_Mutation_p.R705C|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Missense_Mutation_p.R836C|PTPN3_uc011lwh.1_Missense_Mutation_p.R727C|PTPN3_uc011lwd.1_Missense_Mutation_p.R349C|PTPN3_uc011lwe.1_Missense_Mutation_p.R594C|PTPN3_uc011lwf.1_Missense_Mutation_p.R549C	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	881	Tyrosine-protein phosphatase.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						ATCATGGCGCGCTGGTCTCGC	0.512													7	151					0	0	0.001984	0	0		A	112143955	A	A	112143955	3	1	160	1	0	0	0	0	1	0	0	0	12814	1087	38	1	108	1	PTPN3	9	112143955	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	526194	112143955	29069476	613	87883											
LPAR1	1902	broad.mit.edu	37	chr9	113704261	113704261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaataggaaaatggaagcggCggttgacatagattgccacc	15	7	12	7	2	0	2	0	1	0	1	0	4	0	4	2	4	2	1	2	4	6	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:113704261C>T	uc004bfa.2	-	4	488	c.233G>A	c.(232-234)CGC>CAC	p.R78H	LPAR1_uc011lwm.1_Missense_Mutation_p.R79H|LPAR1_uc004bfb.2_Missense_Mutation_p.R78H|LPAR1_uc004bfc.2_Missense_Mutation_p.R78H|LPAR1_uc011lwn.1_Missense_Mutation_p.R60H|LPAR1_uc011lwo.1_Missense_Mutation_p.R79H|LPAR1_uc010mub.2_Missense_Mutation_p.R78H	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	78	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						ATGGAAGCGGCGGTTGACATA	0.463													34	56					0	0	0.005524	0	0		T	113704261	T	T	113704261	3	4	160	1	0	0	0	0	1	0	0	0	8922	768	27	1	869	1	LPAR1	9	113704261	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1560306	113704261	27509170	614	87884											
KIAA1958	158405	broad.mit.edu	37	chr9	115421658	115421658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tattcgccgaggcctggaccGcatcctgaagaatgcaggtg	9	8	13	11	3	0	2	0	1	0	1	2	4	1	3	4	3	1	2	4	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:115421658G>A	uc004bgf.1	+	4	1635	c.1460G>A	c.(1459-1461)CGC>CAC	p.R487H	KIAA1958_uc011lwx.1_Missense_Mutation_p.R515H	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	487										skin(1)	1						GGCCTGGACCGCATCCTGAAG	0.557													29	47					0	0	0.008361	0	0		A	115421658	A	A	115421658	3	1	160	1	0	0	0	0	1	0	0	0	8280	1087	38	1	1470	1	KIAA1958	9	115421658	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1717397	115421658	25791773	615	87885											
DBC1	1620	broad.mit.edu	37	chr9	121929368	121929368	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggagtcccgggttagcaGagtttggctgtcatctggtc	7	11	14	9	1	2	1	1	0	1	1	4	2	3	2	1	4	1	4	1	4	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:121929368G>T	uc004bkc.2	-	8	2736	c.2280C>A	c.(2278-2280)CTC>CTA	p.L760L		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	760					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						CGGGTTAGCAGAGTTTGGCTG	0.413													7	200					2.7689e-08	2.93582e-08	0.001984	1	0		T	121929368	T	T	121929368	2	4	160	1	0	0	0	0	0	0	0	1	4250	929	33	5		5	DBC1	9	121929368	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6507710	121929368	19284063	616	87886											
PHF19	26147	broad.mit.edu	37	chr9	123620372	123620372	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgacttgaggtgggacagGgatgagtcatcttcactgat	10	11	14	6	0	3	4	2	4	1	0	3	7	3	6	0	3	0	0	0	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:123620372G>T	uc004bks.1	-	15	1846	c.1593C>A	c.(1591-1593)TCC>TCA	p.S531S	PHF19_uc011lyf.1_Silent_p.S322S|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	531					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						GGTGGGACAGGGATGAGTCAT	0.587													16	89					7.05477e-17	7.72456e-17	0.00499	1	0		T	123620372	T	T	123620372	2	4	160	1	0	0	0	0	0	0	0	1	11848	1219	43	5		5	PHF19	9	123620372	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1691004	123620372	17593059	617	87887											
GSN	2934	broad.mit.edu	37	chr9	124081159	124081159	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atggcacaggccagaaacagGtacgtttagggcgtggggtg	10	7	17	7	2	0	1	0	0	0	1	0	1	0	1	1	6	2	3	1	6	3	3	rs113048496		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:124081159G>A	uc004blf.1	+	9	1405	c.1344_splice	c.e9+1	p.Q448_splice	GSN_uc004bld.1_Splice_Site_p.Q397_splice|GSN_uc010mvq.1_Splice_Site_p.Q408_splice|GSN_uc010mvr.1_Splice_Site_p.Q408_splice|GSN_uc010mvu.1_Splice_Site_p.Q397_splice|GSN_uc010mvt.1_Splice_Site_p.Q397_splice|GSN_uc010mvs.1_Splice_Site_p.Q397_splice|GSN_uc004ble.1_Splice_Site_p.Q397_splice|GSN_uc010mvv.1_Splice_Site_p.Q397_splice|GSN_uc011lyh.1_Splice_Site_p.Q414_splice|GSN_uc011lyi.1_Splice_Site_p.Q397_splice|GSN_uc011lyj.1_Splice_Site_p.Q421_splice|GSN_uc004blg.1_Splice_Site_p.Q179_splice	NM_000177	NP_000168	P06396	GELS_HUMAN	gelsolin isoform a precursor						actin filament polymerization|actin filament severing|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|cilium morphogenesis	actin cytoskeleton|cytosol	actin binding|calcium ion binding|protein binding			breast(2)|ovary(1)	3						CCAGAAACAGGTACGTTTAGG	0.632													20	49					0	0	0.010504	0	0		A	124081159	A	A	124081159	5	1	160	1	0	0	0	0	0	0	1	0	6841	1275	44	4	1407	4	GSN	9	124081159	Splice_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08	460787	124081159	17132272	618	87888											
CRB2	286204	broad.mit.edu	37	chr9	126132397	126132397	+	Silent	SNP	T	C	C	0	1	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	tctcccaaagggccgacatgTgaggaagatgtggatgaatg	12	8	14	7	1	1	3	0	2	1	1	2	6	1	5	2	3	0	0	2	3	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:126132397T>C	uc004bnx.1	+	7	1157	c.1065T>C	c.(1063-1065)TGT>TGC	p.C355C	CRB2_uc004bnw.1_Silent_p.C355C	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	355	Extracellular (Potential).|EGF-like 7; calcium-binding (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GGCCGACATGTGAGGAAGATG	0.552													44	120					0	0	0.00874	0	0		C	126132397	C	C	126132397	2	2	160	1	0	0	0	0	0	0	0	1	3852	1702	59	3		3	CRB2	9	126132397	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2051238	126132397	15081034	619	87889											
ANGPTL2	23452	broad.mit.edu	37	chr9	129870316	129870316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagagatctggttgatgatgCggttgtaggtgggtggttgg	6	14	19	2	1	1	3	0	2	1	1	1	4	1	3	0	6	1	4	0	6	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:129870316C>T	uc004bqr.1	-	2	1195	c.695G>A	c.(694-696)CGC>CAC	p.R232H	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Intron	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	232					multicellular organismal development|signal transduction	extracellular space	receptor binding				0						GTTGATGATGCGGTTGTAGGT	0.652													4	90					0	0	0.009096	0	0		T	129870316	T	T	129870316	3	4	160	1	0	0	0	0	1	0	0	0	614	768	27	1	802	1	ANGPTL2	9	129870316	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3737919	129870316	11343115	620	87890											
STXBP1	6812	broad.mit.edu	37	chr9	130416038	130416038	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaggatgctgtcctcctgCtgcaagatgacagacatcat	11	10	10	10	0	1	4	1	2	0	2	3	5	3	5	2	1	3	3	2	1	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:130416038C>T	uc004brl.2	+	3	329	c.132C>T	c.(130-132)TGC>TGT	p.C44C	STXBP1_uc004brk.2_Silent_p.C44C	NM_001032221	NP_001027392	P61764	STXB1_HUMAN	syntaxin binding protein 1 isoform b	44					axon target recognition|energy reserve metabolic process|glutamate secretion|negative regulation of synaptic transmission, GABAergic|neurotransmitter secretion|platelet aggregation|platelet degranulation|protein transport|regulation of insulin secretion|regulation of synaptic vesicle priming|synaptic vesicle maturation|vesicle docking involved in exocytosis	cytosol|mitochondrion|plasma membrane|platelet alpha granule|protein complex	identical protein binding|syntaxin-1 binding|syntaxin-2 binding			skin(1)	1						TGTCCTCCTGCTGCAAGATGA	0.448													30	79					0	0	0.004289	0	0		T	130416038	T	T	130416038	2	4	160	1	0	0	0	0	0	0	0	1	15377	805	28	2		2	STXBP1	9	130416038	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	545722	130416038	10797393	621	87891											
C9orf119	375757	broad.mit.edu	37	chr9	131050962	131050962	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtcaccaccaaagagttGtatccagagtttgggctgga	10	10	13	8	0	1	2	1	0	0	2	2	3	2	3	3	3	0	4	3	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:131050962G>A	uc004bup.2	+	5	675	c.675G>A	c.(673-675)TTG>TTA	p.L225L		NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	225					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						CCAAAGAGTTGTATCCAGAGT	0.552													73	167					0	0	0.01441	0	0		A	131050962	A	A	131050962	2	1	160	1	0	0	0	0	0	0	0	1	2455	1368	48	4		4	C9orf119	9	131050962	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	634924	131050962	10162469	622	87892											
ODF2	4957	broad.mit.edu	37	chr9	131254775	131254775	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccagcagctgaaggcctcagTgaagaactatgaggggatga	13	6	14	8	0	1	5	1	4	0	1	1	6	1	6	2	3	3	2	2	3	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:131254775T>C	uc011mbd.1	+	15	1918	c.1607T>C	c.(1606-1608)GTG>GCG	p.V536A	ODF2_uc011maz.1_Missense_Mutation_p.V536A|ODF2_uc011mbb.1_Missense_Mutation_p.V470A|ODF2_uc011mbc.1_Missense_Mutation_p.V455A|ODF2_uc004bva.2_Missense_Mutation_p.V489A|ODF2_uc004bvb.2_Missense_Mutation_p.V512A|ODF2_uc011mbe.1_Missense_Mutation_p.V531A|ODF2_uc004bvc.2_Missense_Mutation_p.V512A|ODF2_uc011mbf.1_Missense_Mutation_p.V517A|ODF2_uc004bvd.3_Missense_Mutation_p.V536A|ODF2_uc004bve.2_Missense_Mutation_p.V517A	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	536	Potential.				cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centriole|cilium|cytosol|microtubule|spindle pole	protein binding|structural molecule activity			ovary(1)	1						AAGGCCTCAGTGAAGAACTAT	0.567													25	38					0	0	0.003954	0	0		C	131254775	C	C	131254775	3	2	160	1	0	0	0	0	1	0	0	0	10846	1696	59	3	1716	3	ODF2	9	131254775	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	203813	131254775	9958656	623	87893											
METTL11A	28989	broad.mit.edu	37	chr9	132397660	132397660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgcaggatcatctgcagtGcaggcctcagcctcctggcc	6	8	11	16	1	3	0	2	0	1	0	5	1	5	1	5	3	3	3	5	3	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:132397660G>A	uc004byd.1	+	4	783	c.589G>A	c.(589-591)GCA>ACA	p.A197T	METTL11A_uc010myw.1_RNA|METTL11A_uc011mbs.1_3'UTR|ASB6_uc004bye.1_3'UTR|ASB6_uc004byf.1_3'UTR|ASB6_uc004byg.1_3'UTR|ASB6_uc011mbt.1_3'UTR|ASB6_uc010myx.1_3'UTR	NM_014064	NP_054783	Q9BV86	NTM1A_HUMAN	methyltransferase like 11A	197					chromosome segregation|N-terminal peptidyl-proline dimethylation|N-terminal peptidyl-serine dimethylation|N-terminal peptidyl-serine trimethylation|spindle organization	nucleus	protein binding|protein methyltransferase activity				0						CATCTGCAGTGCAGGCCTCAG	0.612													5	126					0	0	0.00308	0	0		A	132397660	A	A	132397660	3	1	160	1	0	0	0	0	1	0	0	0	9513	1319	46	2	599	2	METTL11A	9	132397660	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1142885	132397660	8815771	624	87894											
DDX31	64794	broad.mit.edu	37	chr9	135470282	135470282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggaagtcttgctgtcccGctgtacacctttttgggttt	4	16	11	10	1	1	0	0	0	1	0	2	1	2	1	2	2	2	4	2	2	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:135470282G>A	uc004cbq.1	-	20	2679	c.2527C>T	c.(2527-2529)CGG>TGG	p.R843W	DDX31_uc010mzu.1_Missense_Mutation_p.R770W	NM_022779	NP_073616	Q9H8H2	DDX31_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 31	843						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(145;2.67e-06)|Epithelial(140;7.61e-05)		TTGCTGTCCCGCTGTACACCT	0.537													102	220					0	0	0.01441	0	0		A	135470282	A	A	135470282	3	1	160	1	0	0	0	0	1	0	0	0	4359	1086	38	1	32	1	DDX31	9	135470282	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3072622	135470282	5743149	625	87895											
SURF4	6836	broad.mit.edu	37	chr9	136234223	136234223	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgatgtagtcgcgctgctcGctccactggaaccacatacg	8	9	10	14	5	0	0	0	0	0	0	4	2	1	1	2	1	3	4	2	1	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:136234223G>A	uc004cdj.2	-	2	277	c.147C>T	c.(145-147)AGC>AGT	p.S49S	SURF4_uc011mda.1_Silent_p.S40S|SURF4_uc010nal.2_Silent_p.S81S|SURF4_uc011mdb.1_Silent_p.S6S|SURF4_uc011mdc.1_Silent_p.S6S|SURF4_uc011mdd.1_Silent_p.S49S	NM_033161	NP_149351	O15260	SURF4_HUMAN	surfeit 4	49						endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;5.32e-07)|Epithelial(140;4.56e-06)|all cancers(34;4.25e-05)		CGCGCTGCTCGCTCCACTGGA	0.597													22	53					0	0	0.00278	0	0		A	136234223	A	A	136234223	2	1	160	1	0	0	0	0	0	0	0	1	15430	1078	38	1		1	SURF4	9	136234223	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	763941	136234223	4979208	626	87896											
FCN1	2219	broad.mit.edu	37	chr9	137806229	137806229	+	Splice_Site	SNP	A	G	G	1	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	cctgggcccacgggtggctcAcctttctctccacgcatccc	4	9	9	19	2	2	0	1	0	1	0	5	0	4	0	5	3	0	2	5	3	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:137806229A>G	uc004cfi.2	-	4	399	c.307_splice	c.e4+1	p.G103_splice		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor						opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		CGGGTGGCTCACCTTTCTCTC	0.622													28	75					0	0	0.009535	0	0		G	137806229	G	G	137806229	5	3	160	1	0	0	0	0	0	0	1	0	5805	173	6	3	695	3	FCN1	9	137806229	Splice_Site	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1572006	137806229	3407202	627	87897											
FCN1	2219	broad.mit.edu	37	chr9	137809680	137809680	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggaacaagactagcaggacaGcgagcccccgggccatggtg	11	3	15	12	2	0	1	0	0	0	1	0	4	0	3	3	4	4	1	3	4	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:137809680G>T	uc004cfi.2	-	1	130	c.38C>A	c.(37-39)GCT>GAT	p.A13D		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	13					opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		TAGCAGGACAGCGAGCCCCCG	0.582													23	55					1.37878e-21	1.52631e-21	0.00333	1	0		T	137809680	T	T	137809680	3	4	160	1	0	0	0	0	1	0	0	0	5805	971	34	5	978	5	FCN1	9	137809680	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3451	137809680	3403751	628	87898											
OLFM1	10439	broad.mit.edu	37	chr9	137990338	137990338	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagaaaggctccgtgcatgCatgcaaaaactaggtaggcc	14	6	12	9	1	0	1	0	0	0	1	1	2	1	1	2	3	4	5	2	3	6	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:137990338C>T	uc010nar.2	+	4	979	c.663C>T	c.(661-663)TGC>TGT	p.C221C	OLFM1_uc004cfl.3_Silent_p.C203C	NM_014279	NP_055094	Q99784	NOE1_HUMAN	olfactomedin related ER localized protein	221	Potential.				nervous system development	endoplasmic reticulum lumen	protein binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(178;0.0333)		Epithelial(140;5.49e-08)|OV - Ovarian serous cystadenocarcinoma(145;9.68e-08)|all cancers(34;1.88e-07)		TCCGTGCATGCATGCAAAAAC	0.557													23	59					0	0	0.00333	0	0		T	137990338	T	T	137990338	2	4	160	1	0	0	0	0	0	0	0	1	10871	718	25	2		2	OLFM1	9	137990338	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	180658	137990338	3223093	629	87899											
GPSM1	26086	broad.mit.edu	37	chr9	139229058	139229058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacagccagctgggcaacGcctacttctacctgaaggag	10	8	10	13	1	2	1	0	1	2	0	2	2	2	2	3	2	6	2	3	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:139229058G>A	uc004chd.2	+	2	443	c.223G>A	c.(223-225)GCC>ACC	p.A75T	GPSM1_uc004chc.2_Missense_Mutation_p.A75T	NM_001145638	NP_001139110	Q86YR5	GPSM1_HUMAN	G-protein signaling modulator 1 (AGS3-like, C.	75	TPR 2.|Mediates association with membranes (By similarity).				cell differentiation|nervous system development|signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|plasma membrane	binding|GTPase activator activity				0		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.39e-06)|Epithelial(140;3.24e-06)		GCTGGGCAACGCCTACTTCTA	0.632													7	27					0	0	0.004482	0	0		A	139229058	A	A	139229058	3	1	160	1	0	0	0	0	1	0	0	0	6750	1087	38	1	229	1	GPSM1	9	139229058	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1238720	139229058	1984373	630	87900											
MAMDC4	158056	broad.mit.edu	37	chr9	139748339	139748339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttggcagtgaccacaggcCgcatccggggtgacttccga	8	7	14	12	3	0	2	0	2	0	0	2	3	2	2	4	4	0	3	4	4	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:139748339C>T	uc004cjs.2	+	5	615	c.565C>T	c.(565-567)CGC>TGC	p.R189C	MAMDC4_uc011mej.1_5'UTR	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	189	Extracellular (Potential).|MAM 1.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	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)		GACCACAGGCCGCATCCGGGG	0.662													15	27					0	0	0.004007	0	0		T	139748339	T	T	139748339	3	4	160	1	0	0	0	0	1	0	0	0	9222	652	23	1	583	1	MAMDC4	9	139748339	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	519281	139748339	1465092	631	87901											
ABCA2	20	broad.mit.edu	37	chr9	139911565	139911565	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagaccaaaggccgtcgtGgacatgagggactgagaagg	12	4	15	10	2	0	3	0	2	0	2	1	6	0	5	3	4	0	0	3	4	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:139911565G>T	uc011mem.1	-	18	2710	c.2562C>A	c.(2560-2562)TCC>TCA	p.S854S	ABCA2_uc011mel.1_Silent_p.S855S|ABCA2_uc004ckl.1_Silent_p.S785S|ABCA2_uc004ckm.1_Silent_p.S885S|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	854					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		AGGCCGTCGTGGACATGAGGG	0.672													4	109					0.00909568	0.00928036	0.009096	1	0		T	139911565	T	T	139911565	2	4	160	1	0	0	0	0	0	0	0	1	32	1335	47	5		5	ABCA2	9	139911565	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	163226	139911565	1301866	632	87902											
C9orf173	441476	broad.mit.edu	37	chr9	140146299	140146300	+	Frame_Shift_Ins	INS	-	C	C																															cctcaggttacagacgggcaINSccccccaggagtccctgccc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:140146299_140146300insC	uc004cmk.1	+	2	229_230	c.217_218insC	c.(217-219)ACCfs	p.T73fs	C9orf173_uc004cmj.1_Frame_Shift_Ins_p.T74fs|C9orf173_uc011meu.1_RNA|C9orf173_uc010ncd.1_RNA|C9orf173_uc011mev.1_Frame_Shift_Ins_p.T73fs|C9orf173_uc004cml.1_Frame_Shift_Ins_p.T73fs			Q8N7X2	CI173_HUMAN	SubName: Full=LOC441476 protein;	74										pancreas(1)	1						ACAGACGGGCACCCCCCAGGAG	0.634													5	6	---	---	---	---						.	C	140146300	C	C	140146299	7	5	160	1	0	1	1	0	0	0	0	0	2475	159	6	0	226	0	C9orf173	9	140146299	Frame_Shift_Ins	INS	-	TCGA-CG-5733-01A-11D-1600-08	234734	140146299	1067132	633	87903											
NOXA1	10811	broad.mit.edu	37	chr9	140328791	140328791	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccggccgcctgccccgatcCcagcagggagatcagcccta	7	4	11	19	3	1	1	1	0	0	1	2	3	2	1	7	2	3	1	7	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:140328791C>A	uc004cmv.2	+	14	1545	c.1410C>A	c.(1408-1410)TCC>TCA	p.S470S	C9orf167_uc011mew.1_Intron|NOXA1_uc004cmu.2_Silent_p.S477S|NOXA1_uc010nch.2_Silent_p.S421S	NM_006647	NP_006638	Q86UR1	NOXA1_HUMAN	NADPH oxidase activator 1	470			Missing (in NOXA1truncated, a cDNA isolated from Caco-2 cells treated with butyrate).		regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|superoxide metabolic process	cytoplasm|NADPH oxidase complex	Rac GTPase binding|superoxide-generating NADPH oxidase activator activity				0	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000238)|Epithelial(140;0.000982)		TGCCCCGATCCCAGCAGGGAG	0.632													8	202					0.000978159	0.00100458	0.010729	1	0		A	140328791	A	A	140328791	2	1	160	1	0	0	0	0	0	0	0	1	10579	610	22	5		5	NOXA1	9	140328791	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	182492	140328791	884640	634	87904											
ENTPD8	377841	broad.mit.edu	37	chr9	140330594	140330594	+	Silent	SNP	A	G	G	1	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	ccagggttgcctgtcccttcAactgtgaggttctgggggag	5	11	15	10	0	2	1	1	1	1	0	3	2	3	2	3	4	2	2	3	4	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:140330594A>G	uc004cmw.2	-	7	1105	c.921T>C	c.(919-921)GTT>GTC	p.V307V	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Silent_p.V307V	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	307	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		CTGTCCCTTCAACTGTGAGGT	0.642													21	55					0	0	0.012319	0	0		G	140330594	G	G	140330594	2	3	160	1	0	0	0	0	0	0	0	1	5153	117	5	3		3	ENTPD8	9	140330594	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1803	140330594	882837	635	87905											
EHMT1	79813	broad.mit.edu	37	chr9	140729301	140729301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcggctcccccaagtgccggCactcgagcgcggccctggcc	4	4	14	19	5	0	0	0	0	0	0	2	1	1	0	5	4	2	2	5	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr9:140729301C>T	uc011mfc.1	+	27	3830	c.3793C>T	c.(3793-3795)CAC>TAC	p.H1265Y	EHMT1_uc004coe.2_Missense_Mutation_p.H170Y	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	1265					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		CAAGTGCCGGCACTCGAGCGC	0.697													8	12					0	0	0.013537	0	0		T	140729301	T	T	140729301	3	4	160	1	0	0	0	0	1	0	0	0	4989	710	25	2	3948	2	EHMT1	9	140729301	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	398707	140729301	484130	636	87906											
ZMYND11	10771	broad.mit.edu	37	chr10	294978	294978	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtagaagaaatcaagaagCtggcaacacagcacaagcaa	19	5	9	8	0	1	3	1	0	0	3	1	3	1	3	0	1	4	5	0	1	8	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:294978C>T	uc010pzt.1	+	14	2064	c.1636C>T	c.(1636-1638)CTG>TTG	p.L546L	ZMYND11_uc001ifk.2_Silent_p.L545L|ZMYND11_uc010pzu.1_Silent_p.L546L|ZMYND11_uc010pzv.1_Silent_p.L491L|ZMYND11_uc010pzw.1_Silent_p.L461L|ZMYND11_uc001ifm.2_Silent_p.L492L|ZMYND11_uc010pzx.1_Silent_p.L546L|ZMYND11_uc001ifn.2_Silent_p.L492L|ZMYND11_uc009xhg.2_Silent_p.L529L|ZMYND11_uc009xhh.2_Silent_p.L420L|ZMYND11_uc010pzy.1_Silent_p.L398L	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	506	Interaction with human adenovirus E1A.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		AATCAAGAAGCTGGCAACACA	0.388													32	70					0	0	0.005524	0	0		T	294978	T	T	294978	2	4	160	1	0	0	0	0	0	0	0	1	17731	796	28	2		2	ZMYND11	10	294978	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08		294978	135239769	637	87907											
LARP4B	23185	broad.mit.edu	37	chr10	890939	890939	+	Frame_Shift_Del	DEL	T	-	-																															agataagcagaattccaatgTttttttaagtacttctcggg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:890939delT	uc001ifs.1	-	5	528	c.487delA	c.(487-489)ACAfs	p.T163fs		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	163	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AATTCCAATGTTTTTTTAAGT	0.353													55	114	---	---	---	---						.	-	890939	-	-	890939	7	5	160	1	0	1	0	1	0	0	0	0	8647	1725	60	0	1781	0	LARP4B	10	890939	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	595961	890939	134643808	638	87908											
AKR1C1	1645	broad.mit.edu	37	chr10	5008192	5008192	+	Silent	SNP	T	C	C	0	1	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	tctgctcatttatacaataaTgaggagcaggttggactggc	11	12	11	7	0	2	1	1	1	1	0	2	3	2	3	0	4	3	3	0	4	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:5008192T>C	uc001iho.2	+	7	1012	c.171T>C	c.(169-171)AAT>AAC	p.N57N	AKR1E2_uc001ihl.1_Intron|AKR1C2_uc010qan.1_Intron|AKR1C3_uc001ihr.2_Silent_p.N57N|AKR1C1_uc009xhx.2_Silent_p.N57N|AKR1C1_uc001ihq.2_Silent_p.N57N	NM_001353	NP_001344	Q04828	AK1C1_HUMAN	aldo-keto reductase family 1, member C1	57					bile acid and bile salt transport|bile acid metabolic process|cholesterol homeostasis|intestinal cholesterol absorption|protein homooligomerization|response to organophosphorus|xenobiotic metabolic process	cytosol	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid binding|indanol dehydrogenase activity|trans-1,2-dihydrobenzene-1,2-diol dehydrogenase activity			ovary(2)	2					NADH(DB00157)	TATACAATAATGAGGAGCAGG	0.448													60	116					0	0	0.01441	0	0		C	5008192	C	C	5008192	2	2	160	1	0	0	0	0	0	0	0	1	469	1461	51	3		3	AKR1C1	10	5008192	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	4117253	5008192	130526555	639	87909											
ITIH5	80760	broad.mit.edu	37	chr10	7618675	7618675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtagctccagagacgctcGatgtggttggtgtccccctc	6	10	13	12	2	0	1	0	0	0	1	4	3	2	1	3	3	1	4	3	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:7618675G>A	uc001ijq.2	-	10	1798	c.1719C>T	c.(1717-1719)ATC>ATT	p.I573I	ITIH5_uc001ijp.2_Silent_p.I359I|ITIH5_uc001ijr.1_Silent_p.I573I	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	573					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						AGAGACGCTCGATGTGGTTGG	0.622													8	30					0	0	0.004482	0	0		A	7618675	A	A	7618675	2	1	160	1	0	0	0	0	0	0	0	1	7923	1048	37	1		1	ITIH5	10	7618675	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2610483	7618675	127916072	640	87910											
HSPA14	51182	broad.mit.edu	37	chr10	14890639	14890639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaagctcagaaatacatcGcggaaagtaaatgtttagtg	16	9	9	7	2	1	1	1	0	0	1	2	2	1	2	0	1	2	3	0	1	7	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:14890639G>A	uc001inf.2	+	4	394	c.253G>A	c.(253-255)GCG>ACG	p.A85T	HSPA14_uc010qbw.1_Missense_Mutation_p.A85T	NM_016299	NP_057383	Q0VDF9	HSP7E_HUMAN	heat shock 70kDa protein 14 isoform 1	85			A -> V (in a breast cancer sample; somatic mutation).		'de novo' cotranslational protein folding	cytosol	ATP binding|protein binding	p.A85V(2)		ovary(2)|breast(2)|lung(1)	5						GAAATACATCGCGGAAAGTAA	0.333													21	51					0	0	0.005443	0	0		A	14890639	A	A	14890639	3	1	160	1	0	0	0	0	1	0	0	0	7423	1087	38	1	267	1	HSPA14	10	14890639	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7271964	14890639	120644108	641	87911											
CACNB2	783	broad.mit.edu	37	chr10	18828395	18828395	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagccaaaggaagattattcCcatgaccacgtggaccacta	14	7	9	11	1	0	2	0	1	0	1	1	5	1	4	4	2	1	0	4	2	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:18828395C>A	uc001ipr.2	+	14	1785	c.1725C>A	c.(1723-1725)TCC>TCA	p.S575S	CACNB2_uc009xjz.1_Silent_p.S325S|CACNB2_uc001ips.2_Silent_p.S551S|CACNB2_uc001ipt.2_Silent_p.S537S|CACNB2_uc001ipu.2_Silent_p.S547S|CACNB2_uc001ipv.2_Silent_p.S523S|CACNB2_uc009xka.1_Silent_p.S509S|CACNB2_uc001ipw.2_Silent_p.S482S|CACNB2_uc001ipx.2_Silent_p.S520S|CACNB2_uc001ipz.2_Silent_p.S497S|CACNB2_uc001ipy.2_Silent_p.S521S|CACNB2_uc010qco.1_Silent_p.S489S|CACNB2_uc001iqa.2_Silent_p.S527S|NSUN6_uc001iqb.2_Intron	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	575					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	AAGATTATTCCCATGACCACG	0.577													12	37					0.000151284	0.000156628	0.001855	1	0		A	18828395	A	A	18828395	2	1	160	1	0	0	0	0	0	0	0	1	2556	610	22	5		5	CACNB2	10	18828395	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3937756	18828395	116706352	642	87912											
THNSL1	79896	broad.mit.edu	37	chr10	25313576	25313576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taactccataaactggggccGactacttccgcaggtagttt	10	11	9	11	2	0	0	0	0	0	0	2	1	2	0	3	3	3	3	3	3	5	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:25313576G>A	uc001isi.3	+	3	1753	c.1424G>A	c.(1423-1425)CGA>CAA	p.R475Q	ENKUR_uc001ish.1_Intron	NM_024838	NP_079114	Q8IYQ7	THNS1_HUMAN	threonine synthase-like 1	475					threonine biosynthetic process		ATP binding|pyridoxal phosphate binding|shikimate kinase activity|threonine synthase activity			pancreas(1)	1					L-Threonine(DB00156)|Pyridoxal Phosphate(DB00114)	AACTGGGGCCGACTACTTCCG	0.383													57	133					0	0	0.01441	0	0		A	25313576	A	A	25313576	3	1	160	1	0	0	0	0	1	0	0	0	15887	1058	37	1	1426	1	THNSL1	10	25313576	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6485181	25313576	110221171	643	87913											
KIAA1462	57608	broad.mit.edu	37	chr10	30315526	30315526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcagggacagggtctgtgCtggtgacaaccccgtccaca	8	7	13	13	1	2	1	1	1	1	0	3	2	3	2	3	3	2	2	3	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:30315526C>T	uc001iux.2	-	2	3610	c.3551G>A	c.(3550-3552)AGC>AAC	p.S1184N	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.S1046N|KIAA1462_uc009xle.1_Missense_Mutation_p.S1184N	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1184										ovary(4)	4						AGGGTCTGTGCTGGTGACAAC	0.567													68	247					0	0	0.01441	0	0		T	30315526	T	T	30315526	3	4	160	1	0	0	0	0	1	0	0	0	8250	797	28	2	536	2	KIAA1462	10	30315526	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5001950	30315526	105219221	644	87914											
C10orf68	79741	broad.mit.edu	37	chr10	33137556	33137556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaaaaacaaagatatgtccGtacaacgtcaagaaggtatc	18	9	7	7	2	1	2	1	0	0	2	3	2	2	2	1	1	3	2	1	1	10	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:33137556G>A	uc001iwn.3	+	19	2007	c.1534G>A	c.(1534-1536)GTA>ATA	p.V512I	C10orf68_uc001iwl.1_Missense_Mutation_p.V471I|C10orf68_uc001iwm.1_Missense_Mutation_p.V516I|C10orf68_uc010qei.1_Missense_Mutation_p.V488I|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	512										skin(2)|ovary(1)	3						AGATATGTCCGTACAACGTCA	0.303													42	114					0	0	0.00874	0	0		A	33137556	A	A	33137556	3	1	160	1	0	0	0	0	1	0	0	0	1616	1145	40	1	1600	1	C10orf68	10	33137556	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2822030	33137556	102397191	645	87915											
ZNF37A	7587	broad.mit.edu	37	chr10	38385550	38385550	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccaacaccagtggaagatgaTcacatcccaggtaagttgtt	13	9	9	10	0	1	2	1	1	0	1	2	3	2	3	3	2	1	3	3	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:38385550T>A	uc001izk.2	+	5	824	c.5T>A	c.(4-6)ATC>AAC	p.I2N	ZNF37A_uc001izl.2_Missense_Mutation_p.I2N|ZNF37A_uc001izm.2_Missense_Mutation_p.I2N	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	2						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						TGGAAGATGATCACATCCCAG	0.353													4	218					0	0	0.009096	0	0		A	38385550	A	A	38385550	3	1	160	1	0	0	0	0	1	0	0	0	17897	1435	50	5	7	5	ZNF37A	10	38385550	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	5247994	38385550	97149197	646	87916											
ZNF33B	7582	broad.mit.edu	37	chr10	43088863	43088863	+	Missense_Mutation	SNP	A	G	G	1	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	gaattatctgatgcctggtgAgtactgacttgtggtagaaa	11	13	12	5	0	1	4	0	3	1	1	1	5	1	4	1	2	2	2	1	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:43088863A>G	uc001jaf.1	-	5	1650	c.1535T>C	c.(1534-1536)CTC>CCC	p.L512P	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.L400P|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	512	C2H2-type 7.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ATGCCTGGTGAGTACTGACTT	0.388													68	175					0	0	0.01441	0	0		G	43088863	G	G	43088863	3	3	160	1	0	0	0	0	1	0	0	0	17880	304	11	3	805	3	ZNF33B	10	43088863	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4703313	43088863	92445884	647	87917											
BMS1	9790	broad.mit.edu	37	chr10	43293987	43293987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggttgtttcgtgtcaaccagCctgacagagagtgtaagcac	10	10	12	9	1	1	2	1	1	0	1	2	3	1	2	2	1	3	4	2	1	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:43293987C>T	uc001jaj.2	+	12	2519	c.2161C>T	c.(2161-2163)CCT>TCT	p.P721S		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	721					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TGTCAACCAGCCTGACAGAGA	0.473													4	174					0	0	0.009096	0	0		T	43293987	T	T	43293987	3	4	160	1	0	0	0	0	1	0	0	0	1473	739	26	2	2203	2	BMS1	10	43293987	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	205124	43293987	92240760	648	87918											
RET	5979	broad.mit.edu	37	chr10	43622073	43622073	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tctgactccctgatttatgaCgacggcctctcagaggagga	9	10	11	11	2	2	4	1	3	2	1	4	7	3	6	2	3	0	0	2	3	1	2	rs142859395	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:43622073C>T	uc001jal.2	+	19	3280	c.3090C>T	c.(3088-3090)GAC>GAT	p.D1030D	RET_uc001jak.1_Silent_p.D1030D|RET_uc010qez.1_Silent_p.D776D	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	1030	Cytoplasmic (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	TGATTTATGACGACGGCCTCT	0.542		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				12	316					0	0	0.013537	0	0		T	43622073	T	T	43622073	2	4	160	1	0	0	0	0	0	0	0	1	13260	535	19	1		1	RET	10	43622073	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	328086	43622073	91912674	649	87919											
C10orf71	118461	broad.mit.edu	37	chr10	50530853	50530853	+	Missense_Mutation	SNP	A	G	G	1	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	ttggagccagttaccgtcacAgggcacggaacattcgggct	9	8	13	11	3	1	0	1	0	0	0	2	2	1	2	2	4	3	3	2	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:50530853A>G	uc010qgp.1	+	3	602	c.263A>G	c.(262-264)CAG>CGG	p.Q88R		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	88											0						TTACCGTCACAGGGCACGGAA	0.577													20	80					0	0	0.010504	0	0		G	50530853	G	G	50530853	3	3	160	1	0	0	0	0	1	0	0	0	1617	188	7	3	265	3	C10orf71	10	50530853	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	6908780	50530853	85003894	650	87920											
PCDH15	65217	broad.mit.edu	37	chr10	55582002	55582002	+	Silent	SNP	A	G	G	1	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	aatgaagctgaaggaggtggAgggcaaggaatagaaggagg	16	4	19	2	0	0	3	0	2	0	1	0	7	0	7	0	7	1	2	0	7	7	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:55582002A>G	uc001jju.1	-	33	5879	c.5484T>C	c.(5482-5484)CCT>CCC	p.P1828P	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.P1825P|PCDH15_uc010qhw.1_Silent_p.P1788P|PCDH15_uc010qhx.1_Silent_p.P1759P|PCDH15_uc010qhy.1_Silent_p.P1835P|PCDH15_uc010qhz.1_Silent_p.P1830P|PCDH15_uc010qia.1_Silent_p.P1808P|PCDH15_uc010qib.1_Silent_p.P1805P	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1828	Poly-Pro.|Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				aaggaggtggagggcaaggaa	0.279										HNSCC(58;0.16)			4	169					0	0	0.001168	0	0		G	55582002	G	G	55582002	2	3	160	1	0	0	0	0	0	0	0	1	11530	291	11	3		3	PCDH15	10	55582002	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5051149	55582002	79952745	651	87921											
PCDH15	65217	broad.mit.edu	37	chr10	55582989	55582989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgctcttaagtgatccGtctacatgagctgacttgtg	7	16	10	8	1	2	3	0	3	2	0	3	3	3	3	1	0	3	3	1	0	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:55582989G>A	uc001jju.1	-	33	4892	c.4497C>T	c.(4495-4497)GAC>GAT	p.D1499D	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.D1496D|PCDH15_uc010qhw.1_Silent_p.D1459D|PCDH15_uc010qhx.1_Silent_p.D1430D|PCDH15_uc010qhy.1_Silent_p.D1506D|PCDH15_uc010qhz.1_Silent_p.D1501D|PCDH15_uc010qia.1_Silent_p.D1479D|PCDH15_uc010qib.1_Silent_p.D1476D	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1499	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TAAGTGATCCGTCTACATGAG	0.403										HNSCC(58;0.16)			75	147					0	0	0.01441	0	0		A	55582989	A	A	55582989	2	1	160	1	0	0	0	0	0	0	0	1	11530	1136	40	1		1	PCDH15	10	55582989	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	987	55582989	79951758	652	87922											
MYPN	84665	broad.mit.edu	37	chr10	69959203	69959203	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgcctcccacaagatgCtggtcagggagaccggagtc	10	6	13	12	1	1	3	1	0	0	3	3	5	2	4	3	3	2	1	3	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:69959203C>A	uc001jnm.3	+	18	3549	c.3364C>A	c.(3364-3366)CTG>ATG	p.L1122M	MYPN_uc001jnn.3_Missense_Mutation_p.L847M|MYPN_uc001jno.3_Missense_Mutation_p.L1122M|MYPN_uc009xpt.2_Missense_Mutation_p.L1122M|MYPN_uc010qit.1_Missense_Mutation_p.L828M|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	1122	Ig-like 4.|Interaction with ACTN.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CCACAAGATGCTGGTCAGGGA	0.552													16	59					0.000308642	0.000318372	0.003163	1	0		A	69959203	A	A	69959203	3	1	160	1	0	0	0	0	1	0	0	0	10116	796	28	5	3426	5	MYPN	10	69959203	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	14376214	69959203	65575544	653	87923											
DNA2	1763	broad.mit.edu	37	chr10	70191618	70191618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaagaataataaccttaCgagagtacatatcgtagttg	16	10	9	6	2	0	3	0	0	0	3	1	4	0	3	1	0	3	4	1	0	8	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:70191618C>T	uc001jof.2	-	13	2242	c.2242G>A	c.(2242-2244)GTA>ATA	p.V748I	DNA2_uc001jog.1_Splice_Site_p.L661_splice|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	662					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						AATAACCTTACGAGAGTACAT	0.378													66	247					0	0	0.01441	0	0		T	70191618	T	T	70191618	3	4	160	1	0	0	0	0	1	0	0	0	4602	536	19	1	1234	1	DNA2	10	70191618	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	232415	70191618	65343129	654	87924											
STOX1	219736	broad.mit.edu	37	chr10	70644505	70644505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttttagtctcttatggcGcagcttatctagaaaggaga	10	14	11	6	1	2	2	0	0	2	2	3	3	2	2	0	3	1	3	0	3	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:70644505G>A	uc001jos.2	+	3	1040	c.953G>A	c.(952-954)CGC>CAC	p.R318H	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.R208H	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	318						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						CTCTTATGGCGCAGCTTATCT	0.458													39	134					0	0	0.00623	0	0		A	70644505	A	A	70644505	3	1	160	1	0	0	0	0	1	0	0	0	15344	1087	38	1	963	1	STOX1	10	70644505	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	452887	70644505	64890242	655	87925											
KIAA1274	27143	broad.mit.edu	37	chr10	72299395	72299395	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccaggcaaggagggcccCctgacctacaggttccagac	9	4	11	17	0	0	2	0	1	0	1	1	3	1	3	6	4	1	2	6	4	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:72299395C>T	uc001jrd.3	+	15	2066	c.1785C>T	c.(1783-1785)CCC>CCT	p.P595P	KIAA1274_uc001jre.3_5'UTR	NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	595										ovary(2)|central_nervous_system(1)	3						AGGAGGGCCCCCTGACCTACA	0.672													14	71					0	0	0.003163	0	0		T	72299395	T	T	72299395	2	4	160	1	0	0	0	0	0	0	0	1	8236	610	22	4		4	KIAA1274	10	72299395	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1654890	72299395	63235352	656	87926											
CAMK2G	818	broad.mit.edu	37	chr10	75574930	75574930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggatgtaggcgatgcacGctgcgtcctccccaatcacg	7	7	13	14	5	1	0	1	0	0	0	3	2	3	1	3	3	2	3	3	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:75574930G>A	uc001jvm.1	-	20	1633	c.1514C>T	c.(1513-1515)GCG>GTG	p.A505V	CAMK2G_uc001jvo.1_Missense_Mutation_p.A476V|CAMK2G_uc001jvq.1_Missense_Mutation_p.A453V|CAMK2G_uc001jvr.1_Missense_Mutation_p.A444V|CAMK2G_uc001jvp.1_Missense_Mutation_p.A467V|CAMK2G_uc001jvs.1_Missense_Mutation_p.A488V|CAMK2G_uc001jvt.1_RNA|CAMK2G_uc001jvu.1_Missense_Mutation_p.A445V|CAMK2G_uc009xrp.1_Missense_Mutation_p.A94V	NM_172171	NP_751911	Q13555	KCC2G_HUMAN	calcium/calmodulin-dependent protein kinase II	507					insulin secretion|interferon-gamma-mediated signaling pathway|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calcium-dependent protein serine/threonine phosphatase activity|calmodulin binding|calmodulin-dependent protein kinase activity			lung(1)|stomach(1)	2	Prostate(51;0.0112)					GGCGATGCACGCTGCGTCCTC	0.622													17	35					0	0	0.008871	0	0		A	75574930	A	A	75574930	3	1	160	1	0	0	0	0	1	0	0	0	2605	1087	38	1	160	1	CAMK2G	10	75574930	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3275535	75574930	59959817	657	87927											
KCNMA1	3778	broad.mit.edu	37	chr10	78651453	78651453	+	Missense_Mutation	SNP	T	C	C	0	1	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	caccagggtccgtatcagggTgaggatattgtcattgaagt	10	11	13	7	1	2	2	2	2	0	0	3	3	3	3	2	3	0	1	2	3	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:78651453T>C	uc001jxn.2	-	26	3349	c.3172A>G	c.(3172-3174)ACC>GCC	p.T1058A	KCNMA1_uc001jxj.2_Missense_Mutation_p.T1004A|KCNMA1_uc001jxk.1_Missense_Mutation_p.T676A|KCNMA1_uc009xrt.1_Missense_Mutation_p.T849A|KCNMA1_uc001jxl.1_Missense_Mutation_p.T683A|KCNMA1_uc001jxo.2_Missense_Mutation_p.T1041A|KCNMA1_uc001jxm.2_Missense_Mutation_p.T1000A|KCNMA1_uc001jxq.2_Missense_Mutation_p.T1030A|uc001jxp.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1058	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CGTATCAGGGTGAGGATATTG	0.532													16	36					0	0	0.004007	0	0		C	78651453	C	C	78651453	3	2	160	1	0	0	0	0	1	0	0	0	8089	1696	59	3	579	3	KCNMA1	10	78651453	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	3076523	78651453	56883294	658	87928											
MAT1A	4143	broad.mit.edu	37	chr10	82039973	82039973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggggaggaggccggagcGcctgaggtctgccatccggg	6	4	19	12	3	1	1	0	1	1	0	2	4	2	4	5	7	2	0	5	7	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:82039973G>A	uc001kbw.2	-	5	760	c.505C>T	c.(505-507)CGC>TGC	p.R169C		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	169					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	AGGCCGGAGCGCCTGAGGTCT	0.582													26	83					0	0	0.005443	0	0		A	82039973	A	A	82039973	3	1	160	1	0	0	0	0	1	0	0	0	9347	1087	38	1	702	1	MAT1A	10	82039973	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3388520	82039973	53494774	659	87929											
IFIT1	3434	broad.mit.edu	37	chr10	91162510	91162510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggaaaaaattatgaacggGccaaggcctgctttgaaaag	16	7	12	6	1	0	2	0	2	0	0	0	4	0	3	2	3	2	1	2	3	8	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:91162510G>A	uc001kgi.2	+	2	626	c.478G>A	c.(478-480)GCC>ACC	p.A160T	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|IFIT1_uc009xtt.2_Missense_Mutation_p.A160T|IFIT1_uc001kgj.2_Missense_Mutation_p.A129T	NM_001548	NP_001539	P09914	IFIT1_HUMAN	interferon-induced protein with	160	TPR 3.				cellular response to exogenous dsRNA|intracellular transport of viral proteins in host cell|negative regulation of defense response to virus by host|negative regulation of helicase activity|negative regulation of protein binding|negative regulation of viral genome replication|positive regulation of viral genome replication|response to virus|type I interferon-mediated signaling pathway	cytoplasm	protein binding				0						TTATGAACGGGCCAAGGCCTG	0.483													34	162					0	0	0.012213	0	0		A	91162510	A	A	91162510	3	1	160	1	0	0	0	0	1	0	0	0	7537	1203	42	2	484	2	IFIT1	10	91162510	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	9122537	91162510	44372237	660	87930											
BTAF1	9044	broad.mit.edu	37	chr10	93756173	93756173	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtgccttcaataccccagTactgcagtgaggcacatggc	10	9	10	12	0	1	1	1	1	0	0	1	1	1	1	3	2	4	3	3	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:93756173T>C	uc001khr.2	+	24	3455	c.3357T>C	c.(3355-3357)AGT>AGC	p.S1119S	BTAF1_uc001kht.1_Silent_p.S557S	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1119	HEAT 7.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				AATACCCCAGTACTGCAGTGA	0.383													23	155					0	0	0.003954	0	0		C	93756173	C	C	93756173	2	2	160	1	0	0	0	0	0	0	0	1	1539	1635	57	3		3	BTAF1	10	93756173	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2593663	93756173	41778574	661	87931											
KIF11	3832	broad.mit.edu	37	chr10	94381191	94381191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagatcttgctgcagcccGtgagaaaaatggagtgtata	13	9	12	7	2	1	2	0	1	1	2	1	5	1	3	1	1	3	3	1	1	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:94381191G>A	uc001kic.2	+	10	1486	c.1178G>A	c.(1177-1179)CGT>CAT	p.R393H	KIF11_uc010qnq.1_Intron	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	393	Potential.				blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						GCTGCAGCCCGTGAGAAAAAT	0.373													4	160					0	0	0.001168	0	0		A	94381191	A	A	94381191	3	1	160	1	0	0	0	0	1	0	0	0	8288	1145	40	1	1216	1	KIF11	10	94381191	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	625018	94381191	41153556	662	87932											
CYP2C19	1557	broad.mit.edu	37	chr10	96609690	96609690	+	Missense_Mutation	SNP	C	T	T																															ctagggcacaaccatattaaCttccctcacttctgtgctac																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:96609690C>T	uc010qnz.1	+	8	1166	c.1166C>T	c.(1165-1167)ACT>ATT	p.T389I	CYP2C19_uc010qny.1_Missense_Mutation_p.T367I	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	389					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	ACCATATTAACTTCCCTCACT	0.393													9	313					0	0	0.004007	0	0		T	96609690	T	T	96609690	3	4	160	1	0	0	0	0	1	0	0	0	4169	565	20	4	1196	4	CYP2C19	10	96609690	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2228499	96609690	38925057	663	87933	162	2									
CYP2C19	1557	broad.mit.edu	37	chr10	96609697	96609697	+	Silent	SNP	C	G	G																															acaaccatattaacttccctCacttctgtgctacatgacaa																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:96609697C>G	uc010qnz.1	+	8	1173	c.1173C>G	c.(1171-1173)CTC>CTG	p.L391L	CYP2C19_uc010qny.1_Silent_p.L369L	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	391					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	TAACTTCCCTCACTTCTGTGC	0.398													8	323					0	0	0.001855	0	0		G	96609697	G	G	96609697	2	3	160	1	0	0	0	0	0	0	0	1	4169	813	29	5		5	CYP2C19	10	96609697	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	7	96609697	38925050	664	87934	162	2									
CYP2C19	1557	broad.mit.edu	37	chr10	96609804	96609804	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagtaactacttcatgcCtttctcagcaggtaatataa	15	12	6	8	0	2	0	2	0	1	0	3	1	2	0	1	1	4	3	1	1	7	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:96609804C>G	uc010qnz.1	+	8	1280	c.1280C>G	c.(1279-1281)CCT>CGT	p.P427R	CYP2C19_uc010qny.1_Missense_Mutation_p.P405R	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	427					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	TACTTCATGCCTTTCTCAGCA	0.383													36	179					0	0	0.003755	0	0		G	96609804	G	G	96609804	3	3	160	1	0	0	0	0	1	0	0	0	4169	681	24	5	1310	5	CYP2C19	10	96609804	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	107	96609804	38924943	665	87935											
SORBS1	10580	broad.mit.edu	37	chr10	97096319	97096319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctttcctccccgcctgctCgccacctctatgccgctctg	3	11	7	20	3	2	0	0	0	2	0	5	0	4	0	7	0	3	3	7	0	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:97096319C>T	uc001kkp.2	-	28	3643	c.3598G>A	c.(3598-3600)GAG>AAG	p.E1200K	SORBS1_uc001kkk.2_Intron|SORBS1_uc001kkl.2_Intron|SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Intron|SORBS1_uc001kko.2_Missense_Mutation_p.E1059K|SORBS1_uc001kkq.2_Intron|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Intron|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Missense_Mutation_p.E1154K|SORBS1_uc010qoe.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	1200					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		CCCGCCTGCTCGCCACCTCTA	0.647													16	56					0	0	0.006122	0	0		T	97096319	T	T	97096319	3	4	160	1	0	0	0	0	1	0	0	0	14952	893	31	1	360	1	SORBS1	10	97096319	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	486515	97096319	38438428	666	87936											
PI4K2A	55361	broad.mit.edu	37	chr10	99422723	99422723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caatggatagttctagctctCgggtaagagactgagataaa	14	10	11	6	1	2	2	0	1	2	2	3	5	2	3	0	2	1	3	0	2	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:99422723C>T	uc001kog.1	+	5	1039	c.982C>T	c.(982-984)CGG>TGG	p.R328W	PI4K2A_uc010qoy.1_Missense_Mutation_p.R298W|PI4K2A_uc009xvw.1_Intron	NM_018425	NP_060895	Q9BTU6	P4K2A_HUMAN	phosphatidylinositol 4-kinase type 2 alpha	328	PI3K/PI4K.				phosphatidylinositol biosynthetic process	cytoplasm|integral to plasma membrane|membrane raft	1-phosphatidylinositol 4-kinase activity|ATP binding|magnesium ion binding			lung(1)|skin(1)	2		Colorectal(252;0.162)		Epithelial(162;1.24e-10)|all cancers(201;1.2e-08)		TTCTAGCTCTCGGGTAAGAGA	0.363													101	129					0	0	0.01441	0	0		T	99422723	T	T	99422723	3	4	160	1	0	0	0	0	1	0	0	0	11890	875	31	1	1000	1	PI4K2A	10	99422723	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2326404	99422723	36112024	667	87937											
CRTAC1	55118	broad.mit.edu	37	chr10	99625339	99625339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcagctctccttaaccaccGaccccagattgagatctcca	10	8	6	17	2	2	2	0	1	2	2	4	4	2	2	6	0	2	2	6	0	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:99625339G>A	uc001kou.1	-	15	2308	c.1952C>T	c.(1951-1953)TCG>TTG	p.S651L	GOLGA7B_uc001kos.2_Intron|CRTAC1_uc001kot.1_3'UTR	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	651						proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		CTTAACCACCGACCCCAGATT	0.458													18	31					0	0	0.006122	0	0		A	99625339	A	A	99625339	3	1	160	1	0	0	0	0	1	0	0	0	3899	1059	37	1	37	1	CRTAC1	10	99625339	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	202616	99625339	35909408	668	87938											
PYROXD2	84795	broad.mit.edu	37	chr10	100155183	100155183	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaggacctcataatatcGgggaagctgggctcccagga	10	8	14	9	1	1	1	1	1	0	0	3	4	2	4	2	5	1	2	2	5	3	2	rs146494121		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:100155183G>A	uc001kpc.2	-	7	738	c.652C>T	c.(652-654)CGA>TGA	p.R218*	PYROXD2_uc001kpb.2_RNA|PYROXD2_uc001kpd.2_RNA|PYROXD2_uc010qpe.1_Nonsense_Mutation_p.R218*|MIR1287_hsa-mir-1287|MI0006349_5'Flank	NM_032709	NP_116098	Q8N2H3	PYRD2_HUMAN	pyridine nucleotide-disulphide oxidoreductase	218							oxidoreductase activity			central_nervous_system(1)	1						TCATAATATCGGGGAAGCTGG	0.587													33	155					0	0	0.012213	0	0		A	100155183	A	A	100155183	4	1	160	1	0	0	0	0	0	1	0	0	12892	1124	39	1	1133	1	PYROXD2	10	100155183	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	529844	100155183	35379564	669	87939											
HPSE2	60495	broad.mit.edu	37	chr10	100219428	100219428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccggccggcccgaagggggCggggcttcaattctgggagg	5	6	19	11	4	2	0	1	0	1	0	3	2	3	1	3	8	0	1	3	8	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:100219428C>T	uc001kpn.1	-	12	1742	c.1682G>A	c.(1681-1683)CGC>CAC	p.R561H	HPSE2_uc009xwc.1_3'UTR|HPSE2_uc001kpo.1_Missense_Mutation_p.R493H|HPSE2_uc009xwd.1_Missense_Mutation_p.R439H	NM_021828	NP_068600	Q8WWQ2	HPSE2_HUMAN	heparanase 2	561					carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1				Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)		CCGAAGGGGGCGGGGCTTCAA	0.552													20	36					0	0	0.008871	0	0		T	100219428	T	T	100219428	3	4	160	1	0	0	0	0	1	0	0	0	7361	768	27	1	100	1	HPSE2	10	100219428	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	64245	100219428	35315319	670	87940											
SEC31B	25956	broad.mit.edu	37	chr10	102247505	102247505	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcaaagcttcctgcatcCacacatcgggcaacctcatg	10	9	7	15	1	2	0	2	0	0	0	5	0	4	0	3	1	4	4	3	1	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:102247505C>A	uc001krc.1	-	26	3510	c.3408G>T	c.(3406-3408)GTG>GTT	p.V1136V	SEC31B_uc010qpo.1_Silent_p.V1135V|SEC31B_uc001krd.1_Silent_p.V673V|SEC31B_uc001krf.1_Silent_p.V569V|SEC31B_uc001kre.1_Silent_p.V567V	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	1136					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		TTCCTGCATCCACACATCGGG	0.597													6	20					3.59834e-05	3.74472e-05	0.001168	1	0		A	102247505	A	A	102247505	2	1	160	1	0	0	0	0	0	0	0	1	14024	581	21	5		5	SEC31B	10	102247505	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2028077	102247505	33287242	671	87941											
LZTS2	84445	broad.mit.edu	37	chr10	102763814	102763814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccccgcctccacctccttCggatgaggccctgctgcact	5	8	8	20	2	0	1	0	1	0	0	3	2	2	2	7	2	2	2	7	2	0	1	rs71488080		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:102763814C>T	uc001ksj.2	+	3	1028	c.959C>T	c.(958-960)TCG>TTG	p.S320L	LZTS2_uc010qpw.1_Missense_Mutation_p.S320L|LZTS2_uc001ksk.2_Missense_Mutation_p.S320L|LZTS2_uc001ksl.2_Missense_Mutation_p.S320L|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	320	Required for centrosomal localization (By similarity).				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		CCACCTCCTTCGGATGAGGCC	0.662													23	50					0	0	0.00632	0	0		T	102763814	T	T	102763814	3	4	160	1	0	0	0	0	1	0	0	0	9157	893	31	1	965	1	LZTS2	10	102763814	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	516309	102763814	32770933	672	87942											
SORCS1	114815	broad.mit.edu	37	chr10	108389108	108389108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagacaccgcgataccatcGccaaagtccacttggatgag	13	7	9	12	3	0	2	0	1	0	1	2	4	1	3	4	1	1	0	4	1	3	3	rs144932995		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:108389108G>A	uc001kym.2	-	19	2522	c.2514C>T	c.(2512-2514)GGC>GGT	p.G838G	SORCS1_uc001kyl.2_Silent_p.G838G|SORCS1_uc009xxs.2_Silent_p.G838G|SORCS1_uc001kyn.1_Silent_p.G838G|SORCS1_uc001kyo.2_Silent_p.G838G	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	838	Lumenal (Potential).|PKD.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CGATACCATCGCCAAAGTCCA	0.512													9	39					0	0	0.008291	0	0		A	108389108	A	A	108389108	2	1	160	1	0	0	0	0	0	0	0	1	14955	1074	38	1		1	SORCS1	10	108389108	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5625294	108389108	27145639	673	87943											
NRAP	4892	broad.mit.edu	37	chr10	115348747	115348747	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatggctcacaacagcaggGccttcttctttttgacgtgc	8	12	9	12	1	3	1	1	1	2	0	3	1	3	1	1	2	3	2	1	2	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:115348747G>C	uc001laj.2	-	42	5344	c.5180C>G	c.(5179-5181)GCC>GGC	p.A1727G	HABP2_uc001lai.3_3'UTR|NRAP_uc009xyb.2_Missense_Mutation_p.A480G|NRAP_uc001lak.2_Missense_Mutation_p.A1692G|NRAP_uc001lal.3_Missense_Mutation_p.A1728G	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	1727						fascia adherens|muscle tendon junction	actin binding|muscle alpha-actinin binding|zinc ion binding			ovary(6)|central_nervous_system(3)|upper_aerodigestive_tract(1)	10		Colorectal(252;0.0233)|Breast(234;0.188)		Epithelial(162;0.00392)|all cancers(201;0.00569)		CAACAGCAGGGCCTTCTTCTT	0.542													52	116					0	0	0.01441	0	0		C	115348747	C	C	115348747	3	2	160	1	0	0	0	0	1	0	0	0	10657	1203	42	5	16	5	NRAP	10	115348747	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6959639	115348747	20186000	674	87944											
FAM160B1	57700	broad.mit.edu	37	chr10	116603550	116603550	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttgatgctgttagtaagTttgccagagcctgcggctgc	6	12	14	9	1	0	2	0	1	0	1	0	2	0	2	2	2	5	6	2	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:116603550T>C	uc001lcb.2	+	7	1202	c.867T>C	c.(865-867)AGT>AGC	p.S289S	FAM160B1_uc001lcc.2_Silent_p.S289S	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	289										lung(1)	1						TGTTAGTAAGTTTGCCAGAGC	0.458													17	58					0	0	0.006122	0	0		C	116603550	C	C	116603550	2	2	160	1	0	0	0	0	0	0	0	1	5481	1722	60	3		3	FAM160B1	10	116603550	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1254803	116603550	18931197	675	87945											
HTRA1	5654	broad.mit.edu	37	chr10	124266334	124266334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcgtgagcaccacccagcGaggcggcaaagagctggggc	10	3	16	12	3	0	2	0	1	0	1	1	4	0	2	2	4	3	3	2	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:124266334G>A	uc001lgj.2	+	4	1033	c.905G>A	c.(904-906)CGA>CAA	p.R302Q		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	302	Serine protease.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				ACCACCCAGCGAGGCGGCAAA	0.622													46	64					0	0	0.01441	0	0		A	124266334	A	A	124266334	3	1	160	1	0	0	0	0	1	0	0	0	7469	1058	37	1	919	1	HTRA1	10	124266334	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7662784	124266334	11268413	676	87946											
C10orf120	399814	broad.mit.edu	37	chr10	124457494	124457495	+	Frame_Shift_Ins	INS	-	T	T																															tttccatggtatgttaaacaINStttttttggttcttttgact																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:124457494_124457495insT	uc001lgn.2	-	3	794_795	c.762_763insA	c.(760-765)AAATGTfs	p.K254fs		NM_001010912	NP_001010912	Q5SQS8	CJ120_HUMAN	hypothetical protein LOC399814	254_255										kidney(1)	1		all_neural(114;0.169)|Glioma(114;0.222)				TATGTTAAACATTTTTTTGGTT	0.386													85	194	---	---	---	---						.	T	124457495	T	T	124457494	7	5	160	1	0	1	1	0	0	0	0	0	1593	217	8	0	248	0	C10orf120	10	124457494	Frame_Shift_Ins	INS	-	TCGA-CG-5733-01A-11D-1600-08	191160	124457494	11077253	677	87947											
CTBP2	1488	broad.mit.edu	37	chr10	126691672	126691672	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcccacggcttcgtttagaAcctgcgtgggaacagagcac	9	7	12	13	4	0	2	0	0	0	2	1	3	0	3	2	2	4	3	2	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:126691672A>G	uc009yak.2	-	5	502	c.215T>C	c.(214-216)GTT>GCT	p.V72A	CTBP2_uc009yal.2_Missense_Mutation_p.V72A|CTBP2_uc001lif.3_Missense_Mutation_p.V72A|CTBP2_uc001lih.3_Missense_Mutation_p.V72A|CTBP2_uc001lid.3_Missense_Mutation_p.V140A|CTBP2_uc001lie.3_Missense_Mutation_p.V612A	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	72					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		TTCGTTTAGAACCTGCGTGGG	0.637													18	38					0	0	0.006122	0	0		G	126691672	G	G	126691672	3	3	160	1	0	0	0	0	1	0	0	0	4001	57	2	3	1150	3	CTBP2	10	126691672	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2234178	126691672	8843075	678	87948											
MKI67	4288	broad.mit.edu	37	chr10	129903109	129903109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagttttctcatcagtcGtgggcttgtcagtgcctggt	4	16	13	8	1	3	0	3	0	1	0	5	0	3	0	1	3	1	3	1	3	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:129903109G>A	uc001lke.2	-	13	7190	c.6995C>T	c.(6994-6996)ACG>ATG	p.T2332M	MKI67_uc001lkf.2_Missense_Mutation_p.T1972M|MKI67_uc009yav.1_Missense_Mutation_p.T1907M|MKI67_uc009yaw.1_Missense_Mutation_p.T1482M	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2332	16 X 122 AA approximate repeats.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				CTCATCAGTCGTGGGCTTGTC	0.522													266	490					0	0	0.01441	0	0		A	129903109	A	A	129903109	3	1	160	1	0	0	0	0	1	0	0	0	9616	1145	40	1	2787	1	MKI67	10	129903109	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3211437	129903109	5631638	679	87949											
MGMT	4255	broad.mit.edu	37	chr10	131334634	131334634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgggcaaggggacgtctGcagctgagtaagtatgagcc	9	8	15	9	1	1	2	0	2	1	0	2	3	2	3	2	3	3	5	2	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:131334634G>A	uc001lkh.2	+	2	237	c.211G>A	c.(211-213)GCA>ACA	p.A71T		NM_002412	NP_002403	P16455	MGMT_HUMAN	O-6-methylguanine-DNA methyltransferase	40										ovary(1)|breast(1)	2		all_cancers(35;9.44e-09)|all_epithelial(44;6.98e-08)|Lung NSC(174;0.0157)|all_lung(145;0.0201)|all_neural(114;0.0732)|Colorectal(57;0.0792)|Breast(234;0.167)		OV - Ovarian serous cystadenocarcinoma(35;0.00291)		GGGGACGTCTGCAGCTGAGTA	0.527								Direct_reversal_of_damage					24	75					0	0	0.014323	0	0		A	131334634	A	A	131334634	3	1	160	1	0	0	0	0	1	0	0	0	9575	1319	46	2	217	2	MGMT	10	131334634	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1431525	131334634	4200113	680	87950											
INPP5A	3632	broad.mit.edu	37	chr10	134595384	134595384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgtgttcctggccttccGaatcatgcccggggcaggta	5	9	13	14	3	1	0	1	0	0	0	3	1	3	0	5	4	1	3	5	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr10:134595384G>A	uc001llp.2	+	15	1426	c.1178G>A	c.(1177-1179)CGA>CAA	p.R393Q	INPP5A_uc001llq.2_Missense_Mutation_p.R288Q	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	393					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		CTGGCCTTCCGAATCATGCCC	0.612													30	110					0	0	0.008361	0	0		A	134595384	A	A	134595384	3	1	160	1	0	0	0	0	1	0	0	0	7770	1058	37	1	1236	1	INPP5A	10	134595384	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3260750	134595384	939363	681	87951											
NLRP6	171389	broad.mit.edu	37	chr11	279855	279855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcgggctcggctccgggaCgctgctctccgtgtccggtg	1	9	16	15	6	1	0	0	0	1	0	6	1	3	1	3	4	1	5	3	4	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:279855C>T	uc010qvs.1	+	3	332	c.332C>T	c.(331-333)ACG>ATG	p.T111M	NLRP6_uc010qvt.1_Missense_Mutation_p.T111M	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	111						cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		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)		GGCTCCGGGACGCTGCTCTCC	0.731													4	8					0	0	0.001168	0	0		T	279855	T	T	279855	3	4	160	1	0	0	0	0	1	0	0	0	10500	536	19	1	342	1	NLRP6	11	279855	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		279855	134726661	682	87952											
LRDD	55367	broad.mit.edu	37	chr11	800567	800567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccacgtcgatgccgcgctCgaaggccgcaaagaactctt	10	7	10	14	6	1	1	0	0	1	1	4	3	2	1	3	1	2	2	3	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:800567C>T	uc001lro.1	-	12	2159	c.2017G>A	c.(2017-2019)GAG>AAG	p.E673K	SLC25A22_uc009yci.2_5'Flank|SLC25A22_uc001lrj.2_5'Flank|LRDD_uc009yck.1_RNA|LRDD_uc001lrk.1_Missense_Mutation_p.E673K|LRDD_uc001lrl.1_Missense_Mutation_p.E516K|LRDD_uc001lrm.1_Missense_Mutation_p.E360K|LRDD_uc001lrn.1_Missense_Mutation_p.E516K|LRDD_uc001lrp.1_Missense_Mutation_p.E335K	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	673					apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ATGCCGCGCTCGAAGGCCGCA	0.682													9	38					0	0	0.00245	0	0		T	800567	T	T	800567	3	4	160	1	0	0	0	0	1	0	0	0	8954	893	31	1	735	1	LRDD	11	800567	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	520712	800567	134205949	683	87953											
MUC2	4583	broad.mit.edu	37	chr11	1093743	1093743	+	Silent	SNP	T	C	C	0	1	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	accacatccaatcctccgccTgagtcctcaacccctcagac	10	7	4	20	1	2	2	2	1	0	1	6	2	6	2	8	0	1	0	8	0	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:1093743T>C	uc001lsx.1	+	33	12675	c.12648T>C	c.(12646-12648)CCT>CCC	p.P4216P		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4216						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ATCCTCCGCCTGAGTCCTCAA	0.607													77	230					0	0	0.01441	0	0		C	1093743	C	C	1093743	2	2	160	1	0	0	0	0	0	0	0	1	9993	1567	55	3		3	MUC2	11	1093743	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	293176	1093743	133912773	684	87954											
PHLDA2	7262	broad.mit.edu	37	chr11	2950458	2950458	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	ggaagcgcagctccttggggCgcgcgcgggggctggcgggg	3	4	23	11	6	0	0	0	0	0	0	1	1	1	1	1	8	2	3	1	8	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:2950458C>G	uc001lxa.1	-	1	193	c.137G>C	c.(136-138)CGC>CCC	p.R46P		NM_003311	NP_003302	Q53GA4	PHLA2_HUMAN	pleckstrin homology-like domain family A member	46	PH.				apoptosis	cytoplasm|membrane					0		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;0.0025)|LUSC - Lung squamous cell carcinoma(625;0.19)		CTCCTTGGGGCGCGCGCGGGG	0.647													11	20					0	0	0.001855	0	0		G	2950458	G	G	2950458	3	3	160	1	0	0	0	0	1	0	0	0	11868	768	27	5	325	5	PHLDA2	11	2950458	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1856715	2950458	132056058	685	87955											
RHOG	391	broad.mit.edu	37	chr11	3849105	3849105	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgccgcacgttctcataggaCggcggactggcaatggagaa	10	7	14	10	4	1	1	1	0	1	1	2	4	1	3	1	5	1	3	1	5	3	2	rs143155056	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:3849105C>T	uc001lyu.2	-	2	422	c.264G>A	c.(262-264)CCG>CCA	p.P88P		NM_001665	NP_001656	P84095	RHOG_HUMAN	ras homolog gene family, member G precursor	88					actin cytoskeleton organization|activation of Rac GTPase activity|axon guidance|cell chemotaxis|platelet activation|positive regulation of cell proliferation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of transcription, DNA-dependent|Rac protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0349)|LUSC - Lung squamous cell carcinoma(625;0.194)		TCTCATAGGACGGCGGACTGG	0.597													17	24					0	0	0.010504	0	0		T	3849105	T	T	3849105	2	4	160	1	0	0	0	0	0	0	0	1	13364	523	19	1		1	RHOG	11	3849105	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	898647	3849105	131157411	686	87956											
OR52K1	390036	broad.mit.edu	37	chr11	4510990	4510990	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctatctccttttcccacCcatggtcaatcctatcatat	8	17	2	14	0	4	0	2	0	2	0	7	0	6	0	4	1	0	0	4	1	4	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:4510990C>A	uc001lza.1	+	1	860	c.860C>A	c.(859-861)CCC>CAC	p.P287H		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		CTTTTCCCACCCATGGTCAAT	0.458													21	300					6.44725e-10	6.90356e-10	0.014323	1	0		A	4510990	A	A	4510990	3	1	160	1	0	0	0	0	1	0	0	0	11142	623	22	5	862	5	OR52K1	11	4510990	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	661885	4510990	130495526	687	87957											
OR52I1	390037	broad.mit.edu	37	chr11	4615836	4615836	+	Missense_Mutation	SNP	A	G	G	1	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	gtaagcacatagctttggccAggttagcatgtgctgacccc	9	10	11	11	0	0	1	0	1	0	0	0	1	0	1	3	2	4	6	3	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:4615836A>G	uc010qyi.1	+	1	568	c.568A>G	c.(568-570)AGG>GGG	p.R190G		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGCTTTGGCCAGGTTAGCATG	0.493													81	232					0	0	0.01441	0	0		G	4615836	G	G	4615836	3	3	160	1	0	0	0	0	1	0	0	0	11139	179	7	3	570	3	OR52I1	11	4615836	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	104846	4615836	130390680	688	87958											
OR52E2	119678	broad.mit.edu	37	chr11	5079943	5079943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcctgcaataatattttCttcacacatttatagatctg	11	18	4	8	0	3	1	1	0	2	1	4	1	4	1	1	0	1	2	1	0	5	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:5079943C>A	uc010qyw.1	-	1	915	c.915G>T	c.(913-915)AAG>AAT	p.K305N		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		ATAATATTTTCTTCACACATT	0.363													35	100					1.26612e-14	1.37562e-14	0.003271	1	0		A	5079943	A	A	5079943	3	1	160	1	0	0	0	0	1	0	0	0	11134	912	32	5	65	5	OR52E2	11	5079943	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	464107	5079943	129926573	689	87959											
C11orf42	160298	broad.mit.edu	37	chr11	6231598	6231598	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttacctgttgccttctcctgCctcaagttttcactgcagtc	5	16	6	14	0	3	0	2	0	1	0	5	0	3	0	4	0	4	3	4	0	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:6231598C>T	uc001mcj.2	+	2	639	c.591C>T	c.(589-591)TGC>TGT	p.C197C		NM_173525	NP_775796	Q8N5U0	CK042_HUMAN	hypothetical protein LOC160298	197										ovary(1)	1		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.95e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTTCTCCTGCCTCAAGTTTT	0.582													54	100					0	0	0.01441	0	0		T	6231598	T	T	6231598	2	4	160	1	0	0	0	0	0	0	0	1	1644	747	26	2		2	C11orf42	11	6231598	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1151655	6231598	128774918	690	87960											
TRIM3	10612	broad.mit.edu	37	chr11	6478040	6478040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagattgagcaccgatcgccGcagaccgtccacctcaagga	11	5	10	15	4	1	3	1	1	0	2	3	5	2	4	5	1	1	2	5	1	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:6478040G>A	uc001mdh.2	-	7	1303	c.916C>T	c.(916-918)CGG>TGG	p.R306W	TRIM3_uc001mdi.2_Missense_Mutation_p.R306W|TRIM3_uc010raj.1_Missense_Mutation_p.R187W|TRIM3_uc009yfd.2_Missense_Mutation_p.R306W|TRIM3_uc010rak.1_Missense_Mutation_p.R306W|TRIM3_uc001mdj.2_Missense_Mutation_p.R187W	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	306					nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACCGATCGCCGCAGACCGTCC	0.667													34	101					0	0	0.003755	0	0		A	6478040	A	A	6478040	3	1	160	1	0	0	0	0	1	0	0	0	16530	1086	38	1	1346	1	TRIM3	11	6478040	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	246442	6478040	128528476	691	87961											
TPP1	1200	broad.mit.edu	37	chr11	6638584	6638584	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctggtagggatgtggggaCcttacaacatgggtttccgt	8	11	15	7	1	0	0	0	0	0	0	1	2	1	2	2	5	3	3	2	5	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:6638584C>T	uc001mel.1	-	5	517	c.456G>A	c.(454-456)AGG>AGA	p.R152R	TPP1_uc001mek.1_5'UTR|TPP1_uc010rar.1_Silent_p.R152R	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	152					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		GATGTGGGGACCTTACAACAT	0.577													32	92					0	0	0.009535	0	0		T	6638584	T	T	6638584	2	4	160	1	0	0	0	0	0	0	0	1	16437	506	18	4		4	TPP1	11	6638584	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	160544	6638584	128367932	692	87962											
PIK3C2A	5286	broad.mit.edu	37	chr11	17113183	17113183	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcctatttggcctggagTaggactgaaggaacctgcat	9	11	11	10	0	0	1	0	1	0	0	2	4	2	4	4	4	2	2	4	4	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:17113183T>C	uc001mmq.3	-	30	4729	c.4663A>G	c.(4663-4665)ACT>GCT	p.T1555A	PIK3C2A_uc009ygu.1_Missense_Mutation_p.T158A|PIK3C2A_uc010rcw.1_Missense_Mutation_p.T1175A|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1555					cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	TGGCCTGGAGTAGGACTGAAG	0.358													29	91					0	0	0.007291	0	0		C	17113183	C	C	17113183	3	2	160	1	0	0	0	0	1	0	0	0	11928	1638	57	3	409	3	PIK3C2A	11	17113183	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	10474599	17113183	117893333	693	87963											
NUCB2	4925	broad.mit.edu	37	chr11	17333455	17333455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcctggatgaacaagaatTagaagccctatttactaaag	16	11	7	7	0	0	3	0	1	0	2	1	4	1	4	2	1	3	0	2	1	9	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:17333455T>C	uc001mmw.2	+	9	1042	c.797T>C	c.(796-798)TTA>TCA	p.L266S	NUCB2_uc001mmv.1_Missense_Mutation_p.L266S|NUCB2_uc009ygz.2_Missense_Mutation_p.L266S	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	266	Binds to necdin (By similarity).|EF-hand 1.					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						GAACAAGAATTAGAAGCCCTA	0.274													91	239					0	0	0.01441	0	0		C	17333455	C	C	17333455	3	2	160	1	0	0	0	0	1	0	0	0	10738	1764	61	3	823	3	NUCB2	11	17333455	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	220272	17333455	117673061	694	87964											
NUCB2	4925	broad.mit.edu	37	chr11	17351800	17351800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaaaaagaagagctacaaCgtcagcatgatcaactggag	19	5	9	8	1	2	3	2	1	0	2	2	4	2	4	0	1	6	2	0	1	7	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:17351800C>T	uc001mmw.2	+	12	1374	c.1129C>T	c.(1129-1131)CGT>TGT	p.R377C	NUCB2_uc009ygz.2_Missense_Mutation_p.R347C|NUCB2_uc009yha.2_RNA|NUCB2_uc001mmx.3_RNA|uc001mmy.1_5'Flank	NM_005013	NP_005004	P80303	NUCB2_HUMAN	nucleobindin 2 precursor	377	Binds to necdin (By similarity).					cytosol|ER-Golgi intermediate compartment|extracellular space|Golgi apparatus|plasma membrane	calcium ion binding|DNA binding				0						AGAGCTACAACGTCAGCATGA	0.338													16	38					0	0	0.00499	0	0		T	17351800	T	T	17351800	3	4	160	1	0	0	0	0	1	0	0	0	10738	536	19	1	1167	1	NUCB2	11	17351800	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	18345	17351800	117654716	695	87965											
NAV2	89797	broad.mit.edu	37	chr11	20112451	20112451	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaagctgagaccgtcatgCagctccgaaatgagttaaga	13	8	12	8	2	1	4	1	3	0	2	2	6	2	4	2	0	3	4	2	0	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:20112451C>T	uc001mpr.3	+	27	5909	c.5548C>T	c.(5548-5550)CAG>TAG	p.Q1850*	NAV2_uc001mpp.2_Nonsense_Mutation_p.Q1783*|NAV2_uc009yhx.2_Nonsense_Mutation_p.Q911*|NAV2_uc009yhz.2_Nonsense_Mutation_p.Q492*|NAV2_uc001mpu.2_Nonsense_Mutation_p.Q285*	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	1906	Potential.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GACCGTCATGCAGCTCCGAAA	0.493													11	64					0	0	0.010729	0	0		T	20112451	T	T	20112451	4	4	160	1	0	0	0	0	0	1	0	0	10202	711	25	2	5763	2	NAV2	11	20112451	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2760651	20112451	114894065	696	87966											
SLC17A6	57084	broad.mit.edu	37	chr11	22387120	22387120	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaatggtctggtacatgtTttggcttttggtgtcttatg	5	19	13	4	0	2	0	0	0	2	0	2	1	2	1	0	5	1	3	0	5	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:22387120T>G	uc001mqk.2	+	7	1189	c.776T>G	c.(775-777)TTT>TGT	p.F259C		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	259	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						TGGTACATGTTTTGGCTTTTG	0.398													74	166					0	0	0.01441	0	0		G	22387120	G	G	22387120	3	3	160	1	0	0	0	0	1	0	0	0	14446	1841	64	5	802	5	SLC17A6	11	22387120	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2274669	22387120	112619396	697	87967											
BDNF	627	broad.mit.edu	37	chr11	27679623	27679623	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttttcaaggactgtgacCgtcccgcccgacatgtccac	8	9	8	16	3	1	1	1	1	0	0	3	3	3	2	5	1	0	0	5	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:27679623C>T	uc010rdu.1	-	2	1340	c.489G>A	c.(487-489)ACG>ACA	p.T163T	BDNFOS_uc001mrm.2_Intron|BDNFOS_uc009yij.2_Intron|BDNFOS_uc009yik.2_Intron|BDNFOS_uc009yil.2_Intron|BDNFOS_uc001mrp.2_Intron|BDNFOS_uc009yim.2_Intron|BDNFOS_uc009yin.2_Intron|BDNFOS_uc009yio.2_Intron|BDNFOS_uc009yip.2_Intron|BDNFOS_uc001mrn.2_Intron|BDNFOS_uc009yiq.2_Intron|BDNFOS_uc001mro.2_Intron|BDNFOS_uc009yir.2_Intron|BDNFOS_uc009yis.2_Intron|BDNFOS_uc009yit.2_Intron|BDNFOS_uc009yiu.2_Intron|BDNFOS_uc009yiv.2_Intron|BDNFOS_uc009yiw.2_Intron|BDNFOS_uc009yix.2_Intron|BDNFOS_uc009yiy.2_Intron|BDNFOS_uc009yiz.2_Intron|BDNFOS_uc001mrq.3_Intron|BDNFOS_uc001mrr.3_Intron|BDNFOS_uc009yja.2_Intron|BDNFOS_uc009yjb.2_Intron|BDNF_uc010rdv.1_Silent_p.T163T|BDNF_uc001mrt.2_Silent_p.T178T|BDNF_uc010rdw.1_Silent_p.T163T|BDNF_uc009yjd.2_Silent_p.T163T|BDNF_uc001mru.2_Silent_p.T163T|BDNF_uc010rdx.1_Silent_p.T163T|BDNF_uc010rdy.1_Silent_p.T163T|BDNF_uc009yjg.2_Silent_p.T163T|BDNF_uc009yje.2_Silent_p.T245T|BDNF_uc009yjf.2_Silent_p.T192T|BDNF_uc001mrv.2_Silent_p.T163T|BDNF_uc001mrw.3_Silent_p.T163T|BDNF_uc001mrx.2_Silent_p.T163T|BDNF_uc001mry.3_Silent_p.T163T|BDNF_uc001mrz.3_Silent_p.T163T|BDNF_uc001msa.2_Silent_p.T171T	NM_001143816	NP_001137288	P23560	BDNF_HUMAN	brain-derived neurotrophic factor isoform a	163						extracellular region	growth factor activity				0						GGACTGTGACCGTCCCGCCCG	0.532													68	167					0	0	0.01441	0	0		T	27679623	T	T	27679623	2	4	160	1	0	0	0	0	0	0	0	1	1395	639	23	1		1	BDNF	11	27679623	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5292503	27679623	107326893	698	87968											
IMMP1L	196294	broad.mit.edu	37	chr11	31477872	31477872	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtctccttccaaaccaaTtactcttttacaaatatttg	11	18	2	10	0	2	0	0	0	2	0	4	0	3	0	3	0	3	0	3	0	6	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:31477872T>C	uc001msy.1	-	5	452	c.256A>G	c.(256-258)ATT>GTT	p.I86V	IMMP1L_uc001msz.1_Missense_Mutation_p.I86V|IMMP1L_uc009yjo.2_Missense_Mutation_p.I86V|IMMP1L_uc009yjp.2_RNA	NM_144981	NP_659418	Q96LU5	IMP1L_HUMAN	IMP1 inner mitochondrial membrane	86					proteolysis	mitochondrial inner membrane	serine-type peptidase activity				0	Lung SC(675;0.225)					TCCAAACCAATTACTCTTTTA	0.328													44	71					0	0	0.010771	0	0		C	31477872	C	C	31477872	3	2	160	1	0	0	0	0	1	0	0	0	7732	1493	52	3	256	3	IMMP1L	11	31477872	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	3798249	31477872	103528644	699	87969											
PAX6	5080	broad.mit.edu	37	chr11	31822302	31822302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgggtgccccagcttcCggtctgcccgttcaacatcc	5	8	12	16	3	2	0	1	0	1	0	4	0	4	0	5	3	4	2	5	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:31822302C>T	uc001mtd.3	-	6	1350	c.460G>A	c.(460-462)GGA>AGA	p.G154R	PAX6_uc001mte.3_Missense_Mutation_p.G154R|PAX6_uc001mtg.3_Missense_Mutation_p.G168R|PAX6_uc001mtf.3_Missense_Mutation_p.G154R|PAX6_uc001mth.3_Missense_Mutation_p.G154R|PAX6_uc009yjr.2_Missense_Mutation_p.G154R	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	154	Gln/Gly-rich.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CCCCAGCTTCCGGTCTGCCCG	0.547									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				48	110					0	0	0.01441	0	0		T	31822302	T	T	31822302	3	4	160	1	0	0	0	0	1	0	0	0	11502	661	23	1	836	1	PAX6	11	31822302	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	344430	31822302	103184214	700	87970											
ELF5	2001	broad.mit.edu	37	chr11	34511570	34511570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acttacagtctttgatggtgGccttgctttcttcagcgtca	6	16	9	10	1	4	1	2	1	2	0	4	1	4	1	1	2	3	1	1	2	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:34511570G>A	uc001mvo.1	-	4	652	c.422C>T	c.(421-423)GCC>GTC	p.A141V	ELF5_uc001mvp.1_Missense_Mutation_p.A131V|ELF5_uc009ykd.1_Intron	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	141					cell proliferation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.0087)|all_hematologic(20;0.0384)				TTTGATGGTGGCCTTGCTTTC	0.458													10	454					0	0	0.008291	0	0		A	34511570	A	A	34511570	3	1	160	1	0	0	0	0	1	0	0	0	5065	1203	42	2	391	2	ELF5	11	34511570	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2689268	34511570	100494946	701	87971											
COMMD9	29099	broad.mit.edu	37	chr11	36298658	36298658	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgatttgcctgggcttcGgttctccaagtagacctgtt	5	15	10	11	1	2	2	0	1	2	1	4	2	2	2	3	2	1	4	3	2	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:36298658G>A	uc001mwn.3	-	4	370	c.333C>T	c.(331-333)ACC>ACT	p.T111T	COMMD9_uc009ykj.2_Silent_p.T69T|COMMD9_uc010rfb.1_Silent_p.T111T	NM_014186	NP_054905	Q9P000	COMD9_HUMAN	COMM domain containing 9 isoform 1	111										ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				CCTGGGCTTCGGTTCTCCAAG	0.483													7	16					0	0	0.001984	0	0		A	36298658	A	A	36298658	2	1	160	1	0	0	0	0	0	0	0	1	3726	1103	39	1		1	COMMD9	11	36298658	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1787088	36298658	98707858	702	87972											
TRAF6	7189	broad.mit.edu	37	chr11	36512014	36512014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttccattttagcagtcagctCccggatttgatggtcttgtc	6	16	9	10	1	2	1	1	1	1	0	5	2	4	2	2	2	2	2	2	2	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:36512014C>T	uc001mwr.1	-	8	1283	c.943G>A	c.(943-945)GAG>AAG	p.E315K	TRAF6_uc001mws.1_Missense_Mutation_p.E315K	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	315	Potential.|Interaction with TAX1BP1.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				GCAGTCAGCTCCCGGATTTGA	0.458													83	239					0	0	0.01441	0	0		T	36512014	T	T	36512014	3	4	160	1	0	0	0	0	1	0	0	0	16471	864	30	4	629	4	TRAF6	11	36512014	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	213356	36512014	98494502	703	87973											
ACCSL	390110	broad.mit.edu	37	chr11	44072905	44072905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgggaagaagtggcccGgttcctgacctactactgca	8	8	12	13	2	0	2	0	1	0	1	1	3	1	3	4	3	4	2	4	3	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:44072905G>A	uc001mxw.1	+	4	712	c.656G>A	c.(655-657)CGG>CAG	p.R219Q	ACCSL_uc009ykr.2_Missense_Mutation_p.R38Q	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	219							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						GAAGTGGCCCGGTTCCTGACC	0.527													37	106					0	0	0.005524	0	0		A	44072905	A	A	44072905	3	1	160	1	0	0	0	0	1	0	0	0	134	1116	39	1	670	1	ACCSL	11	44072905	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7560891	44072905	90933611	704	87974											
PHF21A	51317	broad.mit.edu	37	chr11	45992812	45992812	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatggcggtcaccatagcaAtggtaggtctctggcccacc	8	9	12	12	1	2	1	1	1	1	0	3	1	2	1	3	5	1	2	3	5	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:45992812A>T	uc001ncc.3	-	7	1091	c.467T>A	c.(466-468)ATT>AAT	p.I156N	PHF21A_uc001ncb.3_Missense_Mutation_p.I156N|PHF21A_uc009ykx.2_Missense_Mutation_p.I156N|PHF21A_uc001nce.2_Missense_Mutation_p.I156N|PHF21A_uc001nca.1_Translation_Start_Site	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	156					blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						CACCATAGCAATGGTAGGTCT	0.522													32	90					0	0	0.013726	0	0		T	45992812	T	T	45992812	3	4	160	1	0	0	0	0	1	0	0	0	11852	101	4	5	1653	5	PHF21A	11	45992812	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1919907	45992812	89013704	705	87975											
AGBL2	79841	broad.mit.edu	37	chr11	47689154	47689154	+	Missense_Mutation	SNP	A	C	C	1	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	ctgttaactttaacttctgcAtcaaattttttttctgatac	10	20	3	8	0	3	1	1	1	2	0	3	1	3	1	0	0	4	2	0	0	4	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:47689154A>C	uc001ngg.2	-	15	2409	c.2309T>G	c.(2308-2310)ATG>AGG	p.M770R	AGBL2_uc001ngf.2_RNA|AGBL2_uc010rhq.1_Missense_Mutation_p.M732R	NM_024783	NP_079059	Q5U5Z8	CBPC2_HUMAN	carboxypeptidase 2, cytosolic	770					proteolysis	cytosol	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2						TAACTTCTGCATCAAATTTTT	0.358													56	130					0	0	0.01441	0	0		C	47689154	C	C	47689154	3	2	160	1	0	0	0	0	1	0	0	0	376	217	8	5	415	5	AGBL2	11	47689154	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1696342	47689154	87317362	706	87976											
FNBP4	23360	broad.mit.edu	37	chr11	47776215	47776215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaagcaagcatagaccGcctagaaacaaaaaggtaaa	20	3	8	10	1	0	2	0	0	0	2	0	2	0	2	3	1	3	4	3	1	9	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:47776215G>A	uc009ylv.2	-	3	468	c.315C>T	c.(313-315)GGC>GGT	p.G105G	FNBP4_uc001ngj.2_Silent_p.G12G|FNBP4_uc001ngl.2_Intron	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	105										ovary(1)	1						AGCATAGACCGCCTAGAAACA	0.358													42	100					0	0	0.009718	0	0		A	47776215	A	A	47776215	2	1	160	1	0	0	0	0	0	0	0	1	5981	1101	38	1		1	FNBP4	11	47776215	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	87061	47776215	87230301	707	87977											
OR8I2	120586	broad.mit.edu	37	chr11	55860815	55860815	+	Missense_Mutation	SNP	T	C	C	0	1	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	caatttcactgaggttaccgTcttcatcctctctggatttg	7	16	7	11	1	4	1	2	1	2	0	6	2	5	2	2	2	1	1	2	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:55860815T>C	uc010rix.1	+	1	32	c.32T>C	c.(31-33)GTC>GCC	p.V11A		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					GAGGTTACCGTCTTCATCCTC	0.388													84	211					0	0	0.01441	0	0		C	55860815	C	C	55860815	3	2	160	1	0	0	0	0	1	0	0	0	11259	1667	58	3	34	3	OR8I2	11	55860815	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	8084600	55860815	79145701	708	87978											
OR8H3	390152	broad.mit.edu	37	chr11	55890135	55890135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caactatatttccttcacggGctgctttgcccagatgttct	7	15	7	12	1	2	1	1	0	1	1	3	1	3	1	2	1	3	3	2	1	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:55890135G>A	uc001nii.1	+	1	287	c.287G>A	c.(286-288)GGC>GAC	p.G96D		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					TCCTTCACGGGCTGCTTTGCC	0.443													248	612					0	0	0.01441	0	0		A	55890135	A	A	55890135	3	1	160	1	0	0	0	0	1	0	0	0	11258	1203	42	2	289	2	OR8H3	11	55890135	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	29320	55890135	79116381	709	87979											
OR5J2	282775	broad.mit.edu	37	chr11	55944530	55944530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aaagtgtgtggagcttgtcaCaggatcatggataggtggaa	12	10	15	4	0	2	0	2	0	0	0	2	4	2	4	0	5	1	1	0	5	3	2	rs138599396	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:55944530C>T	uc010rjb.1	+	1	437	c.437C>T	c.(436-438)ACA>ATA	p.T146I		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					GAGCTTGTCACAGGATCATGG	0.448													56	158					0	0	0.01441	0	0		T	55944530	T	T	55944530	3	4	160	1	0	0	0	0	1	0	0	0	11184	478	17	4	439	4	OR5J2	11	55944530	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	54395	55944530	79061986	710	87980											
OR5T2	219464	broad.mit.edu	37	chr11	55999773	55999773	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggaacttggtctcacatacaTgaagaggattgtcccataat	13	11	9	8	0	1	2	1	1	1	1	3	4	2	4	1	3	2	0	1	3	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:55999773T>C	uc010rjc.1	-	1	889	c.889A>G	c.(889-891)ATG>GTG	p.M297V		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	297	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CTCACATACATGAAGAGGATT	0.428													88	241					0	0	0.01441	0	0		C	55999773	C	C	55999773	3	2	160	1	0	0	0	0	1	0	0	0	11201	1464	51	3	189	3	OR5T2	11	55999773	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	55243	55999773	79006743	711	87981											
SERPING1	710	broad.mit.edu	37	chr11	57369521	57369521	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgcaggggctggggagaaCaccaaaacaaacctggagag	14	4	15	8	0	0	2	0	0	0	2	0	4	0	2	2	5	4	3	2	5	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:57369521C>A	uc001nkp.1	+	4	755	c.564C>A	c.(562-564)AAC>AAA	p.N188K	SERPING1_uc001nkq.1_Missense_Mutation_p.N188K|SERPING1_uc010rju.1_Missense_Mutation_p.N136K|SERPING1_uc010rjv.1_Missense_Mutation_p.N193K|SERPING1_uc001nkr.1_Missense_Mutation_p.N188K|SERPING1_uc009ymi.1_Missense_Mutation_p.N188K|SERPING1_uc009ymj.1_Missense_Mutation_p.N188K|SERPING1_uc001nks.1_5'UTR	NM_000062	NP_000053	P05155	IC1_HUMAN	serpin peptidase inhibitor, clade G, member 1	188					blood circulation|blood coagulation, intrinsic pathway|complement activation, classical pathway|innate immune response|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation	extracellular space|platelet alpha granule lumen	protein binding|serine-type endopeptidase inhibitor activity			central_nervous_system(1)	1						CTGGGGAGAACACCAAAACAA	0.557									Hereditary_Angioedema				15	51					4.7546e-09	5.05648e-09	0.004007	1	0		A	57369521	A	A	57369521	3	1	160	1	0	0	0	0	1	0	0	0	14141	477	17	5	574	5	SERPING1	11	57369521	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1369748	57369521	77636995	712	87982											
CTNND1	1500	broad.mit.edu	37	chr11	57558992	57558993	+	Frame_Shift_Del	DEL	CT	-	-																															tcgaccgccagcatcttggcCtctgtgaaggaacaagaggc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:57558992_57558993delCT	uc001nmc.3	+	3	613_614	c.42_43delCT	c.(40-45)GCCTCTfs	p.A14fs	CTNND1_uc001nlf.1_Frame_Shift_Del_p.A14fs|CTNND1_uc001nlh.1_Frame_Shift_Del_p.A14fs|CTNND1_uc001nlu.3_Intron|CTNND1_uc001nlt.3_Intron|CTNND1_uc001nls.3_Intron|CTNND1_uc001nlw.3_Intron|CTNND1_uc001nmf.3_Frame_Shift_Del_p.A14fs|CTNND1_uc001nmd.3_5'UTR|CTNND1_uc001nlk.3_5'UTR|CTNND1_uc001nme.3_Frame_Shift_Del_p.A14fs|CTNND1_uc001nll.3_5'UTR|CTNND1_uc001nmg.3_5'UTR|CTNND1_uc001nlj.3_5'UTR|CTNND1_uc001nlr.3_5'UTR|CTNND1_uc001nlp.3_5'UTR|CTNND1_uc001nlx.3_Intron|CTNND1_uc001nlz.3_Intron|CTNND1_uc009ymn.2_Intron|CTNND1_uc001nlm.3_Frame_Shift_Del_p.A14fs|CTNND1_uc001nly.3_Intron|CTNND1_uc001nmb.3_Intron|CTNND1_uc001nma.3_Intron|CTNND1_uc001nmi.3_Intron|CTNND1_uc001nmh.3_Frame_Shift_Del_p.A14fs|CTNND1_uc001nlq.3_Intron|CTNND1_uc001nln.3_Frame_Shift_Del_p.A14fs|CTNND1_uc001nli.3_Frame_Shift_Del_p.A14fs|CTNND1_uc001nlo.3_Intron|CTNND1_uc001nlv.3_Intron	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	14_15	Potential.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				GCATCTTGGCCTCTGTGAAGGA	0.629													6	5	---	---	---	---						.	-	57558993	-	-	57558992	7	5	160	1	0	1	0	1	0	0	0	0	4022	668	24	0	44	0	CTNND1	11	57558992	Frame_Shift_Del	DEL	CT	TCGA-CG-5733-01A-11D-1600-08	189471	57558992	77447524	713	87983											
OR10Q1	219960	broad.mit.edu	37	chr11	57995679	57995679	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggcacaggtgatgaacacGtaggagacgcagatgagcag	14	5	15	7	2	0	5	0	3	0	2	0	6	0	5	0	3	2	4	0	3	2	1	rs146817552	by1000genomes	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:57995679G>A	uc010rkd.1	-	1	669	c.669C>T	c.(667-669)TAC>TAT	p.Y223Y		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				TGATGAACACGTAGGAGACGC	0.637													14	47					0	0	0.003163	0	0		A	57995679	A	A	57995679	2	1	160	1	0	0	0	0	0	0	0	1	10935	1140	40	1		1	OR10Q1	11	57995679	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	436687	57995679	77010837	714	87984											
FAM111B	374393	broad.mit.edu	37	chr11	58892216	58892216	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaactttgtatttatgccTtgaagggtgagactattgaa	12	15	10	4	0	0	3	0	3	0	1	0	4	0	3	1	1	2	2	1	1	7	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:58892216T>G	uc001nnl.2	+	4	889	c.646T>G	c.(646-648)TTG>GTG	p.L216V	FAM111B_uc001nnm.2_Missense_Mutation_p.L186V|FAM111B_uc010rko.1_Missense_Mutation_p.L186V	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	216							catalytic activity			ovary(2)	2						TATTTATGCCTTGAAGGGTGA	0.363													48	116					0	0	0.01441	0	0		G	58892216	G	G	58892216	3	3	160	1	0	0	0	0	1	0	0	0	5411	1606	56	5	652	5	FAM111B	11	58892216	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	896537	58892216	76114300	715	87985											
OSBP	5007	broad.mit.edu	37	chr11	59368824	59368824	+	Silent	SNP	A	G	G	1	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	aattcattctcatcatcttcAtcgctcatgtcccctttgcc	7	16	3	15	1	6	0	5	0	2	0	9	0	7	0	3	0	1	1	3	0	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:59368824A>G	uc001noc.1	-	5	1536	c.1056T>C	c.(1054-1056)GAT>GAC	p.D352D	OSBP_uc009ymr.1_5'Flank	NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	352					lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		CATCATCTTCATCGCTCATGT	0.393													40	101					0	0	0.010771	0	0		G	59368824	G	G	59368824	2	3	160	1	0	0	0	0	0	0	0	1	11292	214	8	3		3	OSBP	11	59368824	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	476608	59368824	75637692	716	87986											
OSBP	5007	broad.mit.edu	37	chr11	59377902	59377902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccttggccagttccagggCcgtcacccagcgctgccgct	4	7	13	17	3	1	0	1	0	0	0	2	0	2	0	6	3	2	3	6	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:59377902C>T	uc001noc.1	-	2	1003	c.523G>A	c.(523-525)GCC>ACC	p.A175T		NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	175	PH.				lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		AGTTCCAGGGCCGTCACCCAG	0.537													5	149					0	0	0.001168	0	0		T	59377902	T	T	59377902	3	4	160	1	0	0	0	0	1	0	0	0	11292	739	26	2	1952	2	OSBP	11	59377902	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	9078	59377902	75628614	717	87987											
MS4A5	64232	broad.mit.edu	37	chr11	60197170	60197170	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggattcaagcaccgcacacaGtccggtgtttctggtatttc	8	12	10	11	2	2	0	1	0	1	0	4	1	3	1	2	3	1	4	2	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:60197170G>T	uc001npo.2	+	1	109	c.23G>T	c.(22-24)AGT>ATT	p.S8I		NM_023945	NP_076434	Q9H3V2	MS4A5_HUMAN	membrane-spanning 4-domains, subfamily A, member	8	Cytoplasmic (Potential).					integral to membrane	receptor activity			large_intestine(1)|ovary(1)	2						ACCGCACACAGTCCGGTGTTT	0.433													6	268					8.12818e-05	8.43389e-05	0.001984	1	0		T	60197170	T	T	60197170	3	4	160	1	0	0	0	0	1	0	0	0	9881	1029	36	5	25	5	MS4A5	11	60197170	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	819268	60197170	74809346	718	87988											
VWCE	220001	broad.mit.edu	37	chr11	61053785	61053785	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattccttctctgcagctcaCcttggcagctgtggcggtcg	4	12	11	14	2	2	0	1	0	1	0	5	0	3	0	2	3	3	4	2	3	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:61053785C>T	uc001nra.2	-	5	820	c.541_splice	c.e5+1	p.D181_splice	VWCE_uc001nrb.2_Splice_Site	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains							extracellular region	calcium ion binding			ovary(1)	1						CTGCAGCTCACCTTGGCAGCT	0.433													8	160					0	0	0.00499	0	0		T	61053785	T	T	61053785	5	4	160	1	0	0	0	0	0	0	1	0	17271	521	18	4	2389	4	VWCE	11	61053785	Splice_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08	856615	61053785	73952731	719	87989											
AHNAK	79026	broad.mit.edu	37	chr11	62284419	62284419	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaccccaatccaccaaaggTaccgaatttcagcttcccgt	11	9	6	15	2	1	1	1	1	0	0	3	2	3	1	6	1	2	2	6	1	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:62284419T>C	uc001ntl.2	-	5	17770	c.17470A>G	c.(17470-17472)ACC>GCC	p.T5824A	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	5824					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CCACCAAAGGTACCGAATTTC	0.547													70	179					0	0	0.01441	0	0		C	62284419	C	C	62284419	3	2	160	1	0	0	0	0	1	0	0	0	414	1638	57	3	322	3	AHNAK	11	62284419	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1230634	62284419	72722097	720	87990											
UBXN1	51035	broad.mit.edu	37	chr11	62445451	62445451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctcctcagcagcccggcGcatctcatcttcctgtagcc	5	10	7	19	2	4	0	2	0	3	0	7	0	5	0	5	1	3	3	5	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:62445451G>A	uc001nul.1	-	5	562	c.430C>T	c.(430-432)CGC>TGC	p.R144C	UBXN1_uc001nuj.2_Missense_Mutation_p.R144C|UBXN1_uc001num.1_Missense_Mutation_p.R144C|UBXN1_uc001nuk.2_Missense_Mutation_p.R109C|UBXN1_uc010rme.1_Missense_Mutation_p.R144C|UBXN1_uc010rmf.1_3'UTR	NM_015853	NP_056937	Q04323	UBXN1_HUMAN	UBX domain protein 1	144	Potential.|Interaction with BRCA1.				negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process	cytoplasm	ATPase binding|K6-linked polyubiquitin binding				0						GCAGCCCGGCGCATCTCATCT	0.567													21	41					0	0	0.012319	0	0		A	62445451	A	A	62445451	3	1	160	1	0	0	0	0	1	0	0	0	16937	1087	38	1	524	1	UBXN1	11	62445451	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	161032	62445451	72561065	721	87991											
CHRM1	1128	broad.mit.edu	37	chr11	62677433	62677433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagcaccatgatgttgtaCggtgtccaggtgaggatgaa	11	9	13	8	1	0	3	0	3	0	0	1	4	1	4	3	3	2	3	3	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:62677433C>T	uc001nwi.2	-	2	1541	c.1140G>A	c.(1138-1140)CCG>CCA	p.P380P		NM_000738	NP_000729	P11229	ACM1_HUMAN	cholinergic receptor, muscarinic 1	380	Helical; Name=6; (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell proliferation|nervous system development|positive regulation of cell proliferation|protein modification process	cell junction|integral to plasma membrane|membrane fraction|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity|protein binding				0					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Benztropine(DB00245)|Bethanechol(DB01019)|Biperiden(DB00810)|Buclizine(DB00354)|Carbachol(DB00411)|Carbinoxamine(DB00748)|Cevimeline(DB00185)|Clidinium(DB00771)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Cyclopentolate(DB00979)|Cycrimine(DB00942)|Desipramine(DB01151)|Dicyclomine(DB00804)|Diphenidol(DB01231)|Doxylamine(DB00366)|Ethopropazine(DB00392)|Flavoxate(DB01148)|Glycopyrrolate(DB00986)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methantheline(DB00940)|Methotrimeprazine(DB01403)|Methylscopolamine(DB00462)|Metixene(DB00340)|Metoclopramide(DB01233)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Oxyphenonium(DB00219)|Pilocarpine(DB01085)|Pirenzepine(DB00670)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propantheline(DB00782)|Propiomazine(DB00777)|Quinacrine(DB01103)|Scopolamine(DB00747)|Solifenacin(DB01591)|Succinylcholine(DB00202)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)|Trihexyphenidyl(DB00376)|Trospium(DB00209)	TGATGTTGTACGGTGTCCAGG	0.592													39	92					0	0	0.006999	0	0		T	62677433	T	T	62677433	2	4	160	1	0	0	0	0	0	0	0	1	3379	523	19	1		1	CHRM1	11	62677433	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	231982	62677433	72329083	722	87992											
HRASLS5	117245	broad.mit.edu	37	chr11	63256439	63256439	+	Silent	SNP	A	G	G	1	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	gtggtctccaagctaactacAgccttctccctaaatgattt	10	13	6	12	0	2	1	0	1	2	0	4	1	2	1	3	1	4	1	3	1	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:63256439A>G	uc001nwy.2	-	3	453	c.279T>C	c.(277-279)GCT>GCC	p.A93A	HRASLS5_uc001nwz.2_Silent_p.A83A|HRASLS5_uc010rmq.1_Silent_p.A93A|HRASLS5_uc009yos.2_Intron	NM_054108	NP_473449	Q96KN8	HRSL5_HUMAN	HRAS-like suppressor family, member 5 isoform 1	93										ovary(1)	1						AGCTAACTACAGCCTTCTCCC	0.373													84	170					0	0	0.01441	0	0		G	63256439	G	G	63256439	2	3	160	1	0	0	0	0	0	0	0	1	7367	175	7	3		3	HRASLS5	11	63256439	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	579006	63256439	71750077	723	87993											
RCOR2	283248	broad.mit.edu	37	chr11	63680357	63680357	+	Silent	SNP	T	A	A	0	1	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	catacctccggggggcgtagTggatcaataccgccctccag	8	7	12	14	3	1	0	1	0	0	0	3	1	3	1	5	4	2	1	5	4	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:63680357T>A	uc001nyc.2	-	9	1342	c.954A>T	c.(952-954)CCA>CCT	p.P318P		NM_173587	NP_775858	Q8IZ40	RCOR2_HUMAN	REST corepressor 2	318					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)|skin(1)	2						GGGGGCGTAGTGGATCAATAC	0.577													10	21					0	0	0.013537	0	0		A	63680357	A	A	63680357	2	1	160	1	0	0	0	0	0	0	0	1	13208	1683	59	5		5	RCOR2	11	63680357	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	423918	63680357	71326159	724	87994											
FLRT1	23769	broad.mit.edu	37	chr11	63884462	63884462	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccaaccagcgcatcgccgaCgacaccttcagccgcctaca	10	4	8	19	5	1	0	1	0	0	0	2	2	1	0	6	0	4	1	6	0	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:63884462C>T	uc001nyi.1	+	2	1064	c.723C>T	c.(721-723)GAC>GAT	p.D241D	MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein	213	Extracellular (Potential).|LRR 7.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						GCATCGCCGACGACACCTTCA	0.662													6	16					0	0	0.006214	0	0		T	63884462	T	T	63884462	2	4	160	1	0	0	0	0	0	0	0	1	5952	535	19	1		1	FLRT1	11	63884462	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	204105	63884462	71122054	725	87995											
PRDX5	25824	broad.mit.edu	37	chr11	64087315	64087315	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtgctgtttggagttcctgGggccttcacccctggatgtt	3	15	13	10	0	1	0	1	0	0	0	2	2	2	2	4	4	1	4	4	4	0	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:64087315G>T	uc001nzu.2	+	2	400	c.281G>T	c.(280-282)GGG>GTG	p.G94V	TRMT112_uc001nzt.2_5'Flank|PRDX5_uc001nzv.2_Missense_Mutation_p.G94V|PRDX5_uc001nzw.2_Intron|PRDX5_uc001nzx.2_RNA	NM_012094	NP_036226	P30044	PRDX5_HUMAN	peroxiredoxin 5 isoform a precursor	94	Thioredoxin.				cell redox homeostasis|cellular response to reactive oxygen species|inflammatory response|negative regulation of apoptosis	cytosolic part|mitochondrion|peroxisome	caspase inhibitor activity|peroxidase activity|peroxiredoxin activity			breast(1)	1					Auranofin(DB00995)	GGAGTTCCTGGGGCCTTCACC	0.552													6	169					0.00116845	0.00119738	0.001168	1	0		T	64087315	T	T	64087315	3	4	160	1	0	0	0	0	1	0	0	0	12490	1232	43	5	287	5	PRDX5	11	64087315	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	202853	64087315	70919201	726	87996											
EHD1	10938	broad.mit.edu	37	chr11	64621945	64621945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcccgtccttgtccacgtCggccagcttccagatcttcc	5	10	8	18	3	1	1	0	0	1	1	6	1	5	1	6	1	2	1	6	1	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:64621945C>T	uc001obu.1	-	5	1720	c.1465G>A	c.(1465-1467)GAC>AAC	p.D489N	EHD1_uc001obt.1_Missense_Mutation_p.D172N|EHD1_uc001obv.1_Missense_Mutation_p.D489N|EHD1_uc010rnq.1_Missense_Mutation_p.D503N	NM_006795	NP_006786	Q9H4M9	EHD1_HUMAN	EH-domain containing 1	489	EH.|EF-hand.|				blood coagulation|cholesterol homeostasis|endocytic recycling|intracellular protein transport|low-density lipoprotein particle clearance|positive regulation of cholesterol storage|protein homooligomerization	early endosome membrane|lipid particle|plasma membrane|platelet dense tubular network membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|protein binding				0						TTGTCCACGTCGGCCAGCTTC	0.632													25	49					0	0	0.003954	0	0		T	64621945	T	T	64621945	3	4	160	1	0	0	0	0	1	0	0	0	4983	884	31	1	143	1	EHD1	11	64621945	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	534630	64621945	70384571	727	87997											
SCYL1	57410	broad.mit.edu	37	chr11	65298178	65298178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattccctgaggatttctgtCggcacaaggtgctgccccag	7	10	11	13	1	1	1	0	1	1	0	3	2	2	2	3	3	2	2	3	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:65298178C>T	uc001oea.1	+	7	1005	c.928C>T	c.(928-930)CGG>TGG	p.R310W	SCYL1_uc009yqk.2_Missense_Mutation_p.R310W|SCYL1_uc001oeb.1_Missense_Mutation_p.R310W|SCYL1_uc001oec.1_Missense_Mutation_p.R310W|SCYL1_uc001oed.1_Missense_Mutation_p.R167W|SCYL1_uc001oee.1_5'UTR	NM_020680	NP_065731	Q96KG9	NTKL_HUMAN	SCY1-like 1 isoform A	310	Protein kinase.				regulation of transcription, DNA-dependent|retrograde vesicle-mediated transport, Golgi to ER|transcription, DNA-dependent	cis-Golgi network|COPI vesicle coat|ER-Golgi intermediate compartment|microtubule organizing center|nucleus	ATP binding|DNA binding|protein tyrosine kinase activity			skin(1)	1						GGATTTCTGTCGGCACAAGGT	0.597													36	104					0	0	0.004878	0	0		T	65298178	T	T	65298178	3	4	160	1	0	0	0	0	1	0	0	0	13972	875	31	1	954	1	SCYL1	11	65298178	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	676233	65298178	69708338	728	87998											
PCNXL3	399909	broad.mit.edu	37	chr11	65396147	65396147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggggctcggctttccacGcttttgcccagccgtttgcc	2	12	11	16	3	0	0	0	0	0	0	2	0	1	0	5	3	3	4	5	3	0	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:65396147G>A	uc001oey.2	+	23	3784	c.3784G>A	c.(3784-3786)GCT>ACT	p.A1262T	PCNXL3_uc001oez.2_Missense_Mutation_p.A149T	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1262	Helical; (Potential).					integral to membrane					0						GGCTTTCCACGCTTTTGCCCA	0.657													11	20					0	0	0.010729	0	0		A	65396147	A	A	65396147	3	1	160	1	0	0	0	0	1	0	0	0	11612	1087	38	1	3874	1	PCNXL3	11	65396147	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	97969	65396147	69610369	729	87999											
RIN1	9610	broad.mit.edu	37	chr11	66102465	66102465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggactgcccctggcagcaCggggacggggggaggtggca	6	3	22	10	2	0	0	0	0	0	0	0	3	0	3	2	10	2	3	2	10	0	0	rs141270180	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:66102465C>T	uc001ohn.1	-	6	932	c.805G>A	c.(805-807)GTG>ATG	p.V269M	RIN1_uc010roy.1_Translation_Start_Site|RIN1_uc009yrd.1_Translation_Start_Site|RIN1_uc010roz.1_Missense_Mutation_p.V164M|RIN1_uc010rpa.1_Missense_Mutation_p.V164M	NM_004292	NP_004283	Q13671	RIN1_HUMAN	ras inhibitor RIN1	269					endocytosis|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase activator activity|protein binding			lung(2)|breast(1)	3						CCTGGCAGCACGGGGACGGGG	0.667													4	10					0	0	0.004482	0	0		T	66102465	T	T	66102465	3	4	160	1	0	0	0	0	1	0	0	0	13396	536	19	1	1566	1	RIN1	11	66102465	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	706318	66102465	68904051	730	88000											
KDM2A	22992	broad.mit.edu	37	chr11	67020972	67020972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcctggtctgcagtctctgCcctcagcacctccagctgcc	4	10	8	19	0	3	0	1	0	2	0	6	0	5	0	5	1	5	3	5	1	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:67020972C>T	uc001ojw.2	+	19	3845	c.2981C>T	c.(2980-2982)GCC>GTC	p.A994V	KDM2A_uc001ojx.2_RNA|KDM2A_uc001ojy.2_Missense_Mutation_p.A688V|KDM2A_uc001ojz.1_Missense_Mutation_p.A452V|KDM2A_uc001oka.2_Missense_Mutation_p.A118V	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	994	LRR 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						GCAGTCTCTGCCCTCAGCACC	0.537													7	288					0	0	0.001984	0	0		T	67020972	T	T	67020972	3	4	160	1	0	0	0	0	1	0	0	0	8140	739	26	2	3051	2	KDM2A	11	67020972	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	918507	67020972	67985544	731	88001											
CABP4	57010	broad.mit.edu	37	chr11	67225877	67225877	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggacgaattacggtggcGgagctgcgggaggcggtacc	8	6	19	8	5	0	0	0	0	0	0	0	5	0	3	1	7	4	2	1	7	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:67225877G>T	uc001olo.2	+	5	764	c.687G>T	c.(685-687)GCG>GCT	p.A229A	CABP4_uc001oln.2_Silent_p.A124A	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	229	EF-hand 3.|2 (Potential).				visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			TTACGGTGGCGGAGCTGCGGG	0.647													3	25					3.51602e-12	3.78503e-12	0.008871	1	0		T	67225877	T	T	67225877	2	4	160	1	0	0	0	0	0	0	0	1	2536	1103	39	5		5	CABP4	11	67225877	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	204905	67225877	67780639	732	88002											
UNC93B1	81622	broad.mit.edu	37	chr11	67766761	67766761	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagtgggagtactcatggTacttctgcgccatcctggac	7	12	12	10	1	2	0	1	0	1	0	3	2	3	2	2	3	3	3	2	3	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:67766761T>C	uc001omw.1	-	5	649	c.569A>G	c.(568-570)TAC>TGC	p.Y190C		NM_030930	NP_112192	Q9H1C4	UN93B_HUMAN	unc-93 homolog B1	190					innate immune response|intracellular protein transport|response to virus|toll-like receptor 3 signaling pathway|toll-like receptor 7 signaling pathway|toll-like receptor 9 signaling pathway	early phagosome|endoplasmic reticulum membrane|endosome|integral to membrane|lysosome					0						GTACTCATGGTACTTCTGCGC	0.627													7	19					0	0	0.001984	0	0		C	67766761	C	C	67766761	3	2	160	1	0	0	0	0	1	0	0	0	17023	1638	57	3	1251	3	UNC93B1	11	67766761	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	540884	67766761	67239755	733	88003											
MRGPRD	116512	broad.mit.edu	37	chr11	68747812	68747812	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacgaacagccgtgtgggcTgccgccgccactgctgggag	6	5	15	15	4	0	0	0	0	0	0	0	2	0	1	5	2	4	2	5	2	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:68747812T>C	uc010rqf.1	-	1	644	c.644A>G	c.(643-645)CAG>CGG	p.Q215R		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	215	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCGTGTGGGCTGCCGCCGCCA	0.612													5	18					0	0	0.001984	0	0		C	68747812	C	C	68747812	3	2	160	1	0	0	0	0	1	0	0	0	9781	1580	55	3	324	3	MRGPRD	11	68747812	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	981051	68747812	66258704	734	88004											
TPCN2	219931	broad.mit.edu	37	chr11	68822754	68822754	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctccctgggagccgccCtgcggcctgaccgagagtgt	4	7	15	15	3	0	2	0	1	0	1	1	4	1	3	5	2	3	2	5	2	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:68822754C>A	uc001oos.2	+	4	479	c.363C>A	c.(361-363)CCC>CCA	p.P121P	TPCN2_uc009ysk.1_RNA|TPCN2_uc001oor.2_Intron|TPCN2_uc010rqg.1_Silent_p.P121P	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	121	Extracellular (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GGGAGCCGCCCTGCGGCCTGA	0.642													26	120					8.99859e-20	9.94581e-20	0.01441	1	0		A	68822754	A	A	68822754	2	1	160	1	0	0	0	0	0	0	0	1	16422	668	24	5		5	TPCN2	11	68822754	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	74942	68822754	66183762	735	88005											
FCHSD2	9873	broad.mit.edu	37	chr11	72712093	72712093	+	Frame_Shift_Del	DEL	T	-	-																															ttgcaggctcagaaatgaagTttttatagttttcacatata																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:72712093delT	uc009ytl.2	-	5	550	c.329delA	c.(328-330)AACfs	p.N110fs	FCHSD2_uc010rrg.1_Intron|FCHSD2_uc001oth.3_Frame_Shift_Del_p.N54fs|FCHSD2_uc001oti.2_Frame_Shift_Del_p.N69fs	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	110							protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			AGAAATGAAGTTTTTATAGTT	0.363													14	31	---	---	---	---						.	-	72712093	-	-	72712093	7	5	160	1	0	1	0	1	0	0	0	0	5804	1725	60	0	1957	0	FCHSD2	11	72712093	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	3889339	72712093	62294423	736	88006											
TRIM49	57093	broad.mit.edu	37	chr11	89537482	89537482	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgactttgtgcattcagaGcactggacaagaaatgggat	12	11	12	6	0	1	3	1	1	0	2	1	5	1	5	0	2	2	3	0	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:89537482G>A	uc001pdb.2	-	3	485	c.156C>T	c.(154-156)TGC>TGT	p.C52C		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	52	RING-type.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TGCATTCAGAGCACTGGACAA	0.458													4	144					0	0	0.009096	0	0		A	89537482	A	A	89537482	2	1	160	1	0	0	0	0	0	0	0	1	16550	963	34	2		2	TRIM49	11	89537482	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	16825389	89537482	45469034	737	88007											
CCDC67	159989	broad.mit.edu	37	chr11	93148249	93148249	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaaagaaatgacaagtcCtttggttagtgatgatgatg	14	11	11	5	0	0	5	0	4	0	1	1	5	1	5	2	1	1	1	2	1	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:93148249C>A	uc001pdq.2	+	13	1707	c.1607C>A	c.(1606-1608)CCT>CAT	p.P536H	CCDC67_uc001pdo.1_Missense_Mutation_p.P536H	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	536										ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				ATGACAAGTCCTTTGGTTAGT	0.398													48	132					1.21353e-23	1.34869e-23	0.01441	1	0		A	93148249	A	A	93148249	3	1	160	1	0	0	0	0	1	0	0	0	2842	681	24	5	1653	5	CCDC67	11	93148249	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3610767	93148249	41858267	738	88008											
MAML2	84441	broad.mit.edu	37	chr11	95724810	95724810	+	Missense_Mutation	SNP	A	T	T	1	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	tgctgggagttcatgtaaccActtccagtgtttggatttga	8	15	11	7	0	1	1	1	1	0	0	2	3	2	3	2	2	2	4	2	2	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:95724810A>T	uc001pfw.1	-	3	3502	c.2217T>A	c.(2215-2217)AGT>AGA	p.S739R		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	739					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				TCATGTAACCACTTCCAGTGT	0.483			T	MECT1|CRTC3	salivary gland mucoepidermoid								4	181					0	0	0.009096	0	0		T	95724810	T	T	95724810	3	4	160	1	0	0	0	0	1	0	0	0	9224	156	6	5	1265	5	MAML2	11	95724810	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2576561	95724810	39281706	739	88009											
CASP5	838	broad.mit.edu	37	chr11	104878019	104878019	+	Missense_Mutation	SNP	A	G	G	1	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	catgaagaacatctttgcccAggtattccaacatcttaact	13	12	5	11	0	2	2	0	1	2	1	3	2	3	2	2	1	4	1	2	1	5	4	rs45585331	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:104878019A>G	uc010rva.1	-	3	256	c.224T>C	c.(223-225)CTG>CCG	p.L75P	CASP5_uc010ruz.1_Missense_Mutation_p.L88P|CASP5_uc010rvb.1_Missense_Mutation_p.L17P|CASP5_uc010rvc.1_Intron|CASP5_uc009yxh.2_5'UTR|CASP5_uc010rvd.1_Intron	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	75	CARD.		L -> R.		apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		ATCTTTGCCCAGGTATTCCAA	0.338													49	150					0	0	0.01441	0	0		G	104878019	G	G	104878019	3	3	160	1	0	0	0	0	1	0	0	0	2677	188	7	3	1108	3	CASP5	11	104878019	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	9153209	104878019	30128497	740	88010											
ALKBH8	91801	broad.mit.edu	37	chr11	107427670	107427670	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccacatttctctaaaacCgggagcagctggttccgact	10	10	9	12	2	1	0	0	0	1	0	4	2	3	1	3	2	3	3	3	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:107427670C>T	uc010rvr.1	-	3	264	c.189G>A	c.(187-189)CCG>CCA	p.P63P	ALKBH8_uc010rvq.1_5'UTR|ALKBH8_uc009yxp.2_Silent_p.P63P|ALKBH8_uc001pjl.2_RNA	NM_138775	NP_620130	Q96BT7	ALKB8_HUMAN	alkB, alkylation repair homolog 8	63	RRM.				response to DNA damage stimulus	cytosol|nucleus	metal ion binding|nucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|protein binding|RNA binding|tRNA (uracil) methyltransferase activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00512)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.53e-05)|Epithelial(105;0.00029)|all cancers(92;0.00518)		TCTCTAAAACCGGGAGCAGCT	0.428													36	80					0	0	0.00623	0	0		T	107427670	T	T	107427670	2	4	160	1	0	0	0	0	0	0	0	1	533	639	23	1		1	ALKBH8	11	107427670	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2549651	107427670	27578846	741	88011											
DDX10	1662	broad.mit.edu	37	chr11	108811067	108811067	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagaaagaaggccaggtggGacactttagagcctttggat	13	8	13	7	0	0	3	0	0	0	3	0	5	0	5	2	4	1	0	2	4	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:108811067G>T	uc001pkm.2	+	18	2610	c.2545G>T	c.(2545-2547)GAC>TAC	p.D849Y		NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	849							ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity			breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		GGCCAGGTGGGACACTTTAGA	0.488			T	NUP98	AML*								6	56					5.9392e-07	6.26421e-07	0.001168	1	0		T	108811067	T	T	108811067	3	4	160	1	0	0	0	0	1	0	0	0	4345	1174	41	5	2615	5	DDX10	11	108811067	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1383397	108811067	26195449	742	88012											
RBM7	10179	broad.mit.edu	37	chr11	114278448	114278448	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatttcttctatgaagacagGaatcatgatgactggagcca	13	11	10	7	0	3	4	1	3	2	1	3	7	3	6	1	2	1	0	1	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:114278448G>T	uc001pov.2	+	5	730	c.720G>T	c.(718-720)AGG>AGT	p.R240S	RBM7_uc001pow.2_Missense_Mutation_p.R241S|RBM7_uc001pox.2_Missense_Mutation_p.R120S	NM_016090	NP_057174	Q9Y580	RBM7_HUMAN	RNA binding motif protein 7	240					meiosis		nucleotide binding|protein binding|RNA binding			ovary(2)	2		all_cancers(61;5.06e-12)|all_epithelial(67;5.3e-06)|all_hematologic(158;7.68e-05)|Acute lymphoblastic leukemia(157;0.000966)|Melanoma(852;0.00153)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)|Breast(348;0.0818)|Prostate(24;0.104)		BRCA - Breast invasive adenocarcinoma(274;2.56e-06)|Epithelial(105;4.17e-05)|all cancers(92;0.000348)		ATGAAGACAGGAATCATGATG	0.418													27	80					1.77063e-15	1.93122e-15	0.005443	1	0		T	114278448	T	T	114278448	3	4	160	1	0	0	0	0	1	0	0	0	13170	1165	41	5	738	5	RBM7	11	114278448	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5467381	114278448	20728068	743	88013											
FAM55A	120400	broad.mit.edu	37	chr11	114392799	114392799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtcccaggcatcaatgatgCccacgttgaggtctttgaaa	10	11	10	10	1	2	3	1	3	1	0	3	3	3	3	2	2	1	2	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:114392799C>T	uc001ppa.2	-	6	1526	c.1109G>A	c.(1108-1110)GGC>GAC	p.G370D	FAM55A_uc010rxd.1_Missense_Mutation_p.G219D	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	512						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		ATCAATGATGCCCACGTTGAG	0.413													6	198					0	0	0.001168	0	0		T	114392799	T	T	114392799	3	4	160	1	0	0	0	0	1	0	0	0	5598	739	26	2	112	2	FAM55A	11	114392799	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	114351	114392799	20613717	744	88014											
ZNF259	8882	broad.mit.edu	37	chr11	116655132	116655132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acagttctcgcagttggtagCcatgatgataacctccttaa	11	12	8	10	1	1	2	0	2	1	0	3	2	2	2	3	1	2	4	3	1	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:116655132C>T	uc001ppp.2	-	9	886	c.853G>A	c.(853-855)GCT>ACT	p.A285T	ZNF259_uc009yzd.2_Missense_Mutation_p.A285T|ZNF259_uc001ppq.2_Missense_Mutation_p.A215T	NM_003904	NP_003895	O75312	ZPR1_HUMAN	zinc finger protein 259	285	C4-type 2.				cell proliferation|signal transduction	cytoplasm|nucleolus					0	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.61e-06)|all cancers(92;0.000139)|OV - Ovarian serous cystadenocarcinoma(223;0.153)		CAGTTGGTAGCCATGATGATA	0.473													49	108					0	0	0.01441	0	0		T	116655132	T	T	116655132	3	4	160	1	0	0	0	0	1	0	0	0	17826	739	26	2	550	2	ZNF259	11	116655132	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2262333	116655132	18351384	745	88015											
RNF214	257160	broad.mit.edu	37	chr11	117152818	117152818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagaaatagccctggcttggGttcccttgtcagcccccacg	7	9	10	15	1	1	1	1	0	0	1	2	1	2	1	4	2	2	2	4	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:117152818G>A	uc001pqt.2	+	11	1589	c.1544G>A	c.(1543-1545)GGT>GAT	p.G515D	RNF214_uc001pqu.2_Missense_Mutation_p.G515D|RNF214_uc010rxf.1_Missense_Mutation_p.G360D	NM_207343	NP_997226	Q8ND24	RN214_HUMAN	ring finger protein 214	515	Pro-rich.						zinc ion binding				0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.88e-05)|Epithelial(105;0.000397)|all cancers(92;0.00258)		CCTGGCTTGGGTTCCCTTGTC	0.637													74	162					0	0	0.01441	0	0		A	117152818	A	A	117152818	3	1	160	1	0	0	0	0	1	0	0	0	13503	1261	44	4	1582	4	RNF214	11	117152818	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	497686	117152818	17853698	746	88016											
SCN2B	6327	broad.mit.edu	37	chr11	118038845	118038845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgccatggccacggtggcGgtcaggggggttcatgatgt	5	10	17	9	2	2	1	2	1	0	0	2	1	2	1	2	7	1	1	2	7	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:118038845G>A	uc001psf.2	-	3	594	c.403C>T	c.(403-405)CGC>TGC	p.R135C		NM_004588	NP_004579	O60939	SCN2B_HUMAN	sodium channel, voltage-gated, type II, beta	135	Ig-like C2-type.|Extracellular (Potential).				synaptic transmission	voltage-gated sodium channel complex	voltage-gated sodium channel activity				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.19e-05)|Epithelial(105;0.00117)		CCACGGTGGCGGTCAGGGGGG	0.597													11	29					0	0	0.010729	0	0		A	118038845	A	A	118038845	3	1	160	1	0	0	0	0	1	0	0	0	13942	1116	39	1	252	1	SCN2B	11	118038845	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	886027	118038845	16967671	747	88017											
CXCR5	643	broad.mit.edu	37	chr11	118765004	118765004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggttgcgccaggcccagcggCgccctcagcggcagaaggca	7	3	16	15	4	1	1	1	0	0	1	1	1	1	1	3	5	3	3	3	5	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:118765004C>T	uc001pue.3	+	2	861	c.751C>T	c.(751-753)CGC>TGC	p.R251C	CXCR5_uc001puf.2_Missense_Mutation_p.R206C	NM_001716	NP_001707	P32302	CXCR5_HUMAN	Burkitt lymphoma receptor 1 isoform 1	251	Cytoplasmic (Potential).				B cell activation|cellular component movement	integral to plasma membrane	C-X-C chemokine receptor activity			breast(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		GGCCCAGCGGCGCCCTCAGCG	0.622													11	33					0	0	0.010729	0	0		T	118765004	T	T	118765004	3	4	160	1	0	0	0	0	1	0	0	0	4097	768	27	1	757	1	CXCR5	11	118765004	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	726159	118765004	16241512	748	88018											
VPS11	55823	broad.mit.edu	37	chr11	118951928	118951928	+	Silent	SNP	T	C	C	0	1	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	agttactcggaaagtgatgcTgactgccccacctgcctccc	8	9	9	15	1	0	2	0	2	0	0	2	3	1	3	5	1	4	2	5	1	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:118951928T>C	uc010ryx.1	+	16	2607	c.2565T>C	c.(2563-2565)GCT>GCC	p.A855A	VPS11_uc010ryy.1_Silent_p.A701A	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	855	RING-type.				protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		AAAGTGATGCTGACTGCCCCA	0.537													72	224					0	0	0.01441	0	0		C	118951928	C	C	118951928	2	2	160	1	0	0	0	0	0	0	0	1	17214	1567	55	3		3	VPS11	11	118951928	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	186924	118951928	16054588	749	88019											
OAF	220323	broad.mit.edu	37	chr11	120097609	120097609	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcgctgtcaacttcagccagGgggccctgctgagcccccat	6	8	11	16	1	2	1	2	1	0	0	3	1	2	1	4	2	4	2	4	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:120097609G>T	uc001pxb.2	+	3	692	c.451G>T	c.(451-453)GGG>TGG	p.G151W		NM_178507	NP_848602	Q86UD1	OAF_HUMAN	OAF homolog precursor	151											0		Breast(109;0.00663)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.1e-06)		CTTCAGCCAGGGGGCCCTGCT	0.627													22	50					1.96292e-10	2.10505e-10	0.010504	1	0		T	120097609	T	T	120097609	3	4	160	1	0	0	0	0	1	0	0	0	10817	1232	43	5	461	5	OAF	11	120097609	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1145681	120097609	14908907	750	88020											
ARHGEF12	23365	broad.mit.edu	37	chr11	120350878	120350878	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtgacattgcaacttgtTacagtccacggacttcaact	10	12	8	11	1	1	1	1	1	0	0	2	2	2	2	1	2	4	2	1	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:120350878T>C	uc001pxl.1	+	38	3983	c.3976T>C	c.(3976-3978)TAC>CAC	p.Y1326H	ARHGEF12_uc009zat.2_Missense_Mutation_p.Y1307H|ARHGEF12_uc009zau.1_Missense_Mutation_p.Y1223H	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1326					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		TGCAACTTGTTACAGTCCACG	0.453			T	MLL	AML								6	256					0	0	0.001984	0	0		C	120350878	C	C	120350878	3	2	160	1	0	0	0	0	1	0	0	0	897	1754	61	3	4126	3	ARHGEF12	11	120350878	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	253269	120350878	14655638	751	88021											
BSX	390259	broad.mit.edu	37	chr11	122848567	122848567	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccgcagttgctttttatgCttcatccgccggttctggaa	5	16	9	11	3	2	0	1	0	1	0	4	1	4	1	3	2	2	5	3	2	2	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:122848567C>T	uc010rzs.1	-	3	492	c.492G>A	c.(490-492)AAG>AAA	p.K164K		NM_001098169	NP_001091639	Q3C1V8	BSH_HUMAN	brain specific homeobox	164	Homeobox.										0		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;0.0361)		GCTTTTTATGCTTCATCCGCC	0.552													12	55					0	0	0.013537	0	0		T	122848567	T	T	122848567	2	4	160	1	0	0	0	0	0	0	0	1	1538	796	28	2		2	BSX	11	122848567	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2497689	122848567	12157949	752	88022											
OR10S1	219873	broad.mit.edu	37	chr11	123847892	123847892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaggtgtggattgcagcGtgcgtggcacctatggccca	7	8	17	9	2	0	0	0	0	0	0	0	2	0	2	2	5	3	2	2	5	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:123847892G>A	uc001pzm.1	-	1	507	c.507C>T	c.(505-507)CAC>CAT	p.H169H		NM_001004474	NP_001004474	Q8NGN2	O10S1_HUMAN	olfactory receptor, family 10, subfamily S,	169	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		GGATTGCAGCGTGCGTGGCAC	0.567													22	55					0	0	0.010504	0	0		A	123847892	A	A	123847892	2	1	160	1	0	0	0	0	0	0	0	1	10937	1136	40	1		1	OR10S1	11	123847892	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	999325	123847892	11158624	753	88023											
OR10G4	390264	broad.mit.edu	37	chr11	123886291	123886291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgagaagaaatgtccaacGccagcctcgtgacagcattc	12	7	11	11	2	0	3	0	2	0	2	3	4	1	3	3	1	3	1	3	1	3	1	rs138655388		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:123886291G>A	uc010sac.1	+	1	10	c.10G>A	c.(10-12)GCC>ACC	p.A4T		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		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)		AATGTCCAACGCCAGCCTCGT	0.512													10	49					0	0	0.00245	0	0		A	123886291	A	A	123886291	3	1	160	1	0	0	0	0	1	0	0	0	10920	1087	38	1	12	1	OR10G4	11	123886291	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	38399	123886291	11120225	754	88024											
VWA5A	4013	broad.mit.edu	37	chr11	123988930	123988930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagaaagccatctcccaggGccaccaggccttcttattgg	9	9	10	13	0	2	1	0	1	2	1	3	2	2	1	5	3	1	0	5	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:123988930G>A	uc001pzu.2	+	5	490	c.281G>A	c.(280-282)GGC>GAC	p.G94D	VWA5A_uc001pzr.2_Missense_Mutation_p.G94D|VWA5A_uc001pzs.2_Missense_Mutation_p.G94D|VWA5A_uc010sae.1_Missense_Mutation_p.G110D|VWA5A_uc001pzt.2_Missense_Mutation_p.G94D	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	94	VIT.									upper_aerodigestive_tract(1)|ovary(1)	2						ATCTCCCAGGGCCACCAGGCC	0.567													31	78					0	0	0.008361	0	0		A	123988930	A	A	123988930	3	1	160	1	0	0	0	0	1	0	0	0	17268	1203	42	2	291	2	VWA5A	11	123988930	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	102639	123988930	11017586	755	88025											
OR8B4	283162	broad.mit.edu	37	chr11	124294398	124294398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagggggttgcagatggCcacatagcgatcataggcca	11	6	15	9	1	1	1	1	0	0	1	1	3	1	1	2	4	3	3	2	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:124294398C>T	uc010sak.1	-	1	370	c.370G>A	c.(370-372)GCC>ACC	p.A124T		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		TTGCAGATGGCCACATAGCGA	0.478													30	88					0	0	0.003271	0	0		T	124294398	T	T	124294398	3	4	160	1	0	0	0	0	1	0	0	0	11248	739	26	2	561	2	OR8B4	11	124294398	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	305468	124294398	10712118	756	88026											
FEZ1	9638	broad.mit.edu	37	chr11	125330437	125330437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggtctgtgtcaatgcctgCatctcctgcaggaggaccga	9	9	12	11	1	3	0	1	0	2	0	4	3	3	2	3	3	3	2	3	3	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:125330437C>T	uc001qbx.2	-	5	776	c.624G>A	c.(622-624)ATG>ATA	p.M208I	FEZ1_uc010sbc.1_Missense_Mutation_p.M179I	NM_005103	NP_005094	Q99689	FEZ1_HUMAN	zygin 1 isoform 1	208					axon guidance|cell adhesion|transport	microtubule|plasma membrane				central_nervous_system(3)|ovary(1)	4	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)		TCAATGCCTGCATCTCCTGCA	0.597													6	171					0	0	0.001168	0	0		T	125330437	T	T	125330437	3	4	160	1	0	0	0	0	1	0	0	0	5837	710	25	2	578	2	FEZ1	11	125330437	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1036039	125330437	9676079	757	88027											
DDX25	29118	broad.mit.edu	37	chr11	125778397	125778397	+	Missense_Mutation	SNP	A	G	G	1	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	tgccttggaattgttcccacAggtaagggaaggctgagaga	11	9	14	7	0	0	2	0	1	0	1	1	5	1	4	2	4	1	3	2	4	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:125778397A>G	uc001qcz.3	+	6	647	c.506A>G	c.(505-507)CAG>CGG	p.Q169R	DDX25_uc010sbk.1_Missense_Mutation_p.Q169R	NM_013264	NP_037396	Q9UHL0	DDX25_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 25	169	Helicase ATP-binding.				mRNA export from nucleus|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|nucleus	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(1)	1	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0203)|Lung NSC(97;0.0203)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.14e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.046)		TTGTTCCCACAGGTAAGGGAA	0.453													69	148					0	0	0.01441	0	0		G	125778397	G	G	125778397	3	3	160	1	0	0	0	0	1	0	0	0	4355	202	7	3	528	3	DDX25	11	125778397	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	447960	125778397	9228119	758	88028											
KIRREL3	84623	broad.mit.edu	37	chr11	126306785	126306785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagatggtctggaagtcGgcccgcacgatgttgctgat	7	12	14	8	3	1	2	0	1	1	1	2	4	1	3	1	3	1	4	1	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:126306785G>A	uc001qea.2	-	12	1834	c.1473C>T	c.(1471-1473)GCC>GCT	p.A491A	KIRREL3_uc001qeb.2_Silent_p.A491A|KIRREL3_uc001qec.1_Silent_p.A491A|ST3GAL4_uc001qdx.1_Intron	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	491	Extracellular (Potential).|Ig-like C2-type 5.				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		TCTGGAAGTCGGCCCGCACGA	0.612													9	31					0	0	0.010729	0	0		A	126306785	A	A	126306785	2	1	160	1	0	0	0	0	0	0	0	1	8342	1103	39	1		1	KIRREL3	11	126306785	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	528388	126306785	8699731	759	88029											
APLP2	334	broad.mit.edu	37	chr11	130013273	130013273	+	Missense_Mutation	SNP	A	G	G	1	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	gctcaccccagaagagcgtcAcctgaacaagatgcagaacc	14	4	9	14	1	2	5	2	1	0	4	2	5	2	5	4	0	4	2	4	0	4	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:130013273A>G	uc010sby.1	+	18	2379	c.2222A>G	c.(2221-2223)CAC>CGC	p.H741R	APLP2_uc001qfp.2_Missense_Mutation_p.H729R|APLP2_uc001qfq.2_Missense_Mutation_p.H673R|APLP2_uc010sbz.1_Missense_Mutation_p.H529R|APLP2_uc001qfr.2_Missense_Mutation_p.H495R|APLP2_uc001qfs.2_Missense_Mutation_p.H500R|APLP2_uc001qfv.2_Missense_Mutation_p.H632R|APLP2_uc009zcv.2_Missense_Mutation_p.H89R	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	741	Cytoplasmic (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)		GAAGAGCGTCACCTGAACAAG	0.557													41	100					0	0	0.009718	0	0		G	130013273	G	G	130013273	3	3	160	1	0	0	0	0	1	0	0	0	779	159	6	3	2292	3	APLP2	11	130013273	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3706488	130013273	4993243	760	88030											
ADAMTS8	11095	broad.mit.edu	37	chr11	130278368	130278368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggagactcacttggtggggGtgagggacccggagaccttc	7	7	18	9	1	1	3	1	1	0	2	2	6	1	4	2	6	0	0	2	6	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:130278368G>A	uc001qgg.3	-	8	2448	c.2090C>T	c.(2089-2091)ACC>ATC	p.T697I	ADAMTS8_uc001qgf.2_Missense_Mutation_p.T178I	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	697	Spacer.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		CTTGGTGGGGGTGAGGGACCC	0.448													50	150					0	0	0.01441	0	0		A	130278368	A	A	130278368	3	1	160	1	0	0	0	0	1	0	0	0	272	1261	44	4	587	4	ADAMTS8	11	130278368	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	265095	130278368	4728148	761	88031											
NCAPD3	23310	broad.mit.edu	37	chr11	134037945	134037945	+	Silent	SNP	G	A	A	0	0	1	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	actacatttgccaaggccatGtcatcttcttccataaggag	11	12	7	11	0	3	0	1	0	2	0	4	1	4	1	3	2	2	0	3	2	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:134037945G>A	uc001qhd.1	-	27	4125	c.3519C>T	c.(3517-3519)GAC>GAT	p.D1173D	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA|NCAPD3_uc001qhc.1_Silent_p.D123D	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	1173					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		CCAAGGCCATGTCATCTTCTT	0.453													93	238					0	0	0.01441	0	0		A	134037945	A	A	134037945	2	1	160	1	0	0	0	0	0	0	0	1	10225	1368	48	4		4	NCAPD3	11	134037945	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3759577	134037945	968571	762	88032											
VPS26B	112936	broad.mit.edu	37	chr11	134104900	134104900	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcgactttgagtttacccaCgtggagaagccgtatgagtc	9	12	11	9	3	0	3	0	2	0	1	2	5	0	3	2	1	2	2	2	1	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:134104900C>T	uc001qhe.2	+	2	789	c.333C>T	c.(331-333)CAC>CAT	p.H111H		NM_052875	NP_443107	Q4G0F5	VP26B_HUMAN	vacuolar protein sorting 26 homolog B	111					protein transport|vacuolar transport	cytosol|retromer complex					0	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)		AGTTTACCCACGTGGAGAAGC	0.567													13	43					0	0	0.003163	0	0		T	134104900	T	T	134104900	2	4	160	1	0	0	0	0	0	0	0	1	17224	535	19	1		1	VPS26B	11	134104900	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	66955	134104900	901616	763	88033											
ACAD8	27034	broad.mit.edu	37	chr11	134131231	134131231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgagaccacctcaatgtcCggaagcagtttggagagcct	10	7	11	13	2	1	2	1	0	0	2	2	5	2	3	5	2	2	2	5	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr11:134131231C>T	uc001qhk.2	+	8	965	c.904C>T	c.(904-906)CGG>TGG	p.R302W	ACAD8_uc010scp.1_RNA|ACAD8_uc010scq.1_Missense_Mutation_p.R225W|ACAD8_uc001qhl.2_Missense_Mutation_p.R175W	NM_014384	NP_055199	Q9UKU7	ACAD8_HUMAN	acyl-Coenzyme A dehydrogenase family, member 8	302		FAD; shared with dimeric partner.	R -> Q (in IBDD; complete loss of activity).		branched chain family amino acid catabolic process|lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding				0	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)		CCTCAATGTCCGGAAGCAGTT	0.612													17	56					0	0	0.006122	0	0		T	134131231	T	T	134131231	3	4	160	1	0	0	0	0	1	0	0	0	110	643	23	1	934	1	ACAD8	11	134131231	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	26331	134131231	875285	764	88034											
CCDC77	84318	broad.mit.edu	37	chr12	520943	520943	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccaaacgtggtgttgcCgtcagtggtcccaccaagag	8	9	12	12	2	2	1	1	0	1	1	4	1	3	1	4	2	2	1	4	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:520943C>T	uc001qig.2	+	4	249	c.69C>T	c.(67-69)GCC>GCT	p.A23A	CCDC77_uc009zdk.2_5'UTR|CCDC77_uc010sdp.1_5'UTR|CCDC77_uc010sdq.1_5'UTR	NM_032358	NP_115734	Q9BR77	CCD77_HUMAN	coiled-coil domain containing 77 isoform a	23						centrosome				ovary(1)	1	all_cancers(10;0.0149)|all_epithelial(11;0.035)|all_lung(10;0.111)|Ovarian(42;0.142)|Lung NSC(10;0.156)		OV - Ovarian serous cystadenocarcinoma(31;0.00123)|BRCA - Breast invasive adenocarcinoma(9;0.033)			GTGGTGTTGCCGTCAGTGGTC	0.468													22	65					0	0	0.012319	0	0		T	520943	T	T	520943	2	4	160	1	0	0	0	0	0	0	0	1	2854	639	23	1		1	CCDC77	12	520943	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08		520943	133330952	765	88035											
ERC1	23085	broad.mit.edu	37	chr12	1137726	1137726	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacagtacagagttgtacaGgaggaaaaccaggtaagttc	16	7	12	6	0	0	1	0	0	0	1	1	4	0	3	1	3	4	5	1	3	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:1137726G>T	uc001qjb.2	+	2	898	c.657G>T	c.(655-657)CAG>CAT	p.Q219H	ERC1_uc001qiz.2_RNA|ERC1_uc001qjc.2_Missense_Mutation_p.Q219H|ERC1_uc001qja.2_RNA|ERC1_uc001qjd.2_RNA|ERC1_uc001qjf.2_Missense_Mutation_p.Q219H	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon	219	Potential.				I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			GAGTTGTACAGGAGGAAAACC	0.408													27	44					1.2476e-16	1.36392e-16	0.00632	1	0		T	1137726	T	T	1137726	3	4	160	1	0	0	0	0	1	0	0	0	5218	991	35	5	659	5	ERC1	12	1137726	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	616783	1137726	132714169	766	88036											
FGF6	2251	broad.mit.edu	37	chr12	4553334	4553334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctttactgttcatggcaaCgaagagggcacttctcactc	9	12	8	12	1	2	1	2	0	1	1	5	2	3	1	1	2	2	3	1	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:4553334C>T	uc001qmr.1	-	2	459	c.415G>A	c.(415-417)GTT>ATT	p.V139I		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	139					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			TTCATGGCAACGAAGAGGGCA	0.512													8	38					0	0	0.008291	0	0		T	4553334	T	T	4553334	3	4	160	1	0	0	0	0	1	0	0	0	5870	536	19	1	219	1	FGF6	12	4553334	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3415608	4553334	129298561	767	88037											
KCNA1	3736	broad.mit.edu	37	chr12	5021140	5021140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaaggatgacaaggacttcaCgggcaccgtccaccgcatcg	11	5	12	13	4	1	1	1	1	0	0	3	4	2	3	3	3	0	2	3	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:5021140C>T	uc001qnh.2	+	2	1701	c.596C>T	c.(595-597)ACG>ATG	p.T199M		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	199					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AAGGACTTCACGGGCACCGTC	0.542													25	73					0	0	0.005443	0	0		T	5021140	T	T	5021140	3	4	160	1	0	0	0	0	1	0	0	0	8017	536	19	1	598	1	KCNA1	12	5021140	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	467806	5021140	128830755	768	88038											
SCNN1A	6337	broad.mit.edu	37	chr12	6472695	6472695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgctacgggctcgacgggCcccgtgaggcgggggcggga	5	3	20	13	7	0	1	0	1	0	0	1	3	0	2	2	6	1	2	2	6	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:6472695C>T	uc001qnx.2	-	3	887	c.598G>A	c.(598-600)GCC>ACC	p.A200T	SCNN1A_uc001qnv.2_5'UTR|SCNN1A_uc001qnw.2_Missense_Mutation_p.A259T|SCNN1A_uc010sfb.1_Missense_Mutation_p.A223T	NM_001038	NP_001029	P37088	SCNNA_HUMAN	sodium channel, nonvoltage-gated 1 alpha isoform	200	Extracellular (By similarity).				excretion|response to stimulus|sensory perception of taste	apical plasma membrane	WW domain binding				0					Amiloride(DB00594)|Triamterene(DB00384)	GCTCGACGGGCCCCGTGAGGC	0.672													4	10					0	0	0.009096	0	0		T	6472695	T	T	6472695	3	4	160	1	0	0	0	0	1	0	0	0	13952	739	26	2	1455	2	SCNN1A	12	6472695	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1451555	6472695	127379200	769	88039											
IFFO1	25900	broad.mit.edu	37	chr12	6664650	6664652	+	In_Frame_Del	DEL	GGA	-	-																															gccgacgaggaataggtggtGgaggtggaggtggaggacga																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:6664650_6664652delGGA	uc001qpd.1	-	1	578_580	c.544_546delTCC	c.(544-546)TCCdel	p.S182del	IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_In_Frame_Del_p.S182del|IFFO1_uc001qpf.1_In_Frame_Del_p.S182del|IFFO1_uc001qpc.1_In_Frame_Del_p.S182del	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	182	Poly-Ser.					intermediate filament					0						AATAGGTGGTGGAGGTGGAGGTG	0.547													5	9	---	---	---	---						.	-	6664652	-	-	6664650	7	5	160	1	0	1	0	1	0	0	0	0	7526	1335	47	0	1185	0	IFFO1	12	6664650	In_Frame_Del	DEL	GGA	TCGA-CG-5733-01A-11D-1600-08	191955	6664650	127187245	770	88040											
LPCAT3	10162	broad.mit.edu	37	chr12	7087667	7087667	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgtcaaaatgcatactccTtcctgagagggaatagctca	12	9	8	12	1	2	1	2	1	0	1	4	3	4	2	3	1	3	2	3	1	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:7087667T>G	uc001qsi.2	-	9	990	c.876A>C	c.(874-876)GAA>GAC	p.E292D	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Missense_Mutation_p.E186D|LPCAT3_uc009zfp.2_RNA|LPCAT3_uc010sfx.1_RNA|LPCAT3_uc009zfq.1_Missense_Mutation_p.E150D	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	292	Helical; (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1						TGCATACTCCTTCCTGAGAGG	0.488													47	135					0	0	0.01441	0	0		G	7087667	G	G	7087667	3	3	160	1	0	0	0	0	1	0	0	0	8930	1606	56	5	603	5	LPCAT3	12	7087667	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	423017	7087667	126764228	771	88041											
RBP5	83758	broad.mit.edu	37	chr12	7277310	7277310	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacacaccaggtgctcctccTcccaggttactatggtctat	8	11	7	15	0	1	0	0	0	1	0	4	0	4	0	4	3	2	2	4	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:7277310T>C	uc001qsq.2	-	3	364	c.269A>G	c.(268-270)GAG>GGG	p.E90G		NM_031491	NP_113679	P82980	RET5_HUMAN	retinol binding protein 5, cellular	90						cytoplasm	retinal binding|retinol binding|transporter activity			ovary(1)	1					Vitamin A(DB00162)	GTGCTCCTCCTCCCAGGTTAC	0.552													56	134					0	0	0.01441	0	0		C	7277310	C	C	7277310	3	2	160	1	0	0	0	0	1	0	0	0	13184	1551	54	3	146	3	RBP5	12	7277310	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	189643	7277310	126574585	772	88042											
CLSTN3	9746	broad.mit.edu	37	chr12	7310180	7310180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcatccattcccttcacCgccgcgtctcaggggccggc	4	8	11	18	5	2	0	2	0	1	0	5	0	4	0	5	3	1	1	5	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:7310180C>T	uc001qsr.2	+	17	2901	c.2623C>T	c.(2623-2625)CGC>TGC	p.R875C	CLSTN3_uc001qss.2_Missense_Mutation_p.R887C|CLSTN3_uc001qst.2_Missense_Mutation_p.R283C	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	875	Cytoplasmic (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						TTCCCTTCACCGCCGCGTCTC	0.637													9	10					0	0	0.010729	0	0		T	7310180	T	T	7310180	3	4	160	1	0	0	0	0	1	0	0	0	3566	652	23	1	2689	1	CLSTN3	12	7310180	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	32870	7310180	126541715	773	88043											
NECAP1	25977	broad.mit.edu	37	chr12	8242847	8242847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggtattgctgtggagacgGtgacagattctagccgctac	8	11	13	9	2	1	3	0	1	1	2	1	4	1	3	1	3	3	3	1	3	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:8242847G>A	uc001qtx.2	+	3	331	c.253G>A	c.(253-255)GTG>ATG	p.V85M	NECAP1_uc001qty.2_Translation_Start_Site	NM_015509	NP_056324	Q8NC96	NECP1_HUMAN	NECAP endocytosis associated 1	85					endocytosis|protein transport	clathrin coated vesicle membrane|plasma membrane				ovary(1)	1				Kidney(36;0.0915)		TGTGGAGACGGTGACAGATTC	0.448													35	78					0	0	0.004878	0	0		A	8242847	A	A	8242847	3	1	160	1	0	0	0	0	1	0	0	0	10326	1261	44	4	263	4	NECAP1	12	8242847	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	932667	8242847	125609048	774	88044											
ZNF705A	440077	broad.mit.edu	37	chr12	8328480	8328480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaagtgcccttaagaaaaAacacatgatatccatgcatc	17	8	7	9	0	0	2	0	1	0	1	2	3	1	3	2	1	3	1	2	1	6	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:8328480A>C	uc001qud.1	+	4	332	c.260A>C	c.(259-261)AAA>ACA	p.K87T		NM_001004328	NP_001004328	Q6ZN79	Z705A_HUMAN	zinc finger protein 705A	87					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				Kidney(36;0.0877)		CTTAAGAAAAAACACATGATA	0.348													4	255					0	0	0.001984	0	0		C	8328480	C	C	8328480	3	2	160	1	0	0	0	0	1	0	0	0	18133	14	1	5	274	5	ZNF705A	12	8328480	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	85633	8328480	125523415	775	88045											
LOH12CR1	118426	broad.mit.edu	37	chr12	12514140	12514140	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagtgtaactttattttcagTgactccttcaccagccaagc	10	13	6	12	0	2	1	2	1	0	0	3	1	3	1	3	0	3	1	3	0	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:12514140T>C	uc001ral.2	+	2	425	c.59T>C	c.(58-60)GTG>GCG	p.V20A	LOH12CR1_uc009zhu.2_Intron	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12	20										ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		TTATTTTCAGTGACTCCTTCA	0.433													45	142					0	0	0.01441	0	0		C	12514140	C	C	12514140	3	2	160	1	0	0	0	0	1	0	0	0	8909	1710	59	3	65	3	LOH12CR1	12	12514140	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	4185660	12514140	121337755	776	88046											
DUSP16	80824	broad.mit.edu	37	chr12	12630724	12630724	+	Silent	SNP	T	C	C	0	1	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	ggcctttgtcctgctgcctcTgaggtagcagagtcggcaca	6	10	13	12	1	1	2	0	1	1	1	3	2	2	2	3	3	3	4	3	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:12630724T>C	uc001rao.1	-	7	1673	c.1041A>G	c.(1039-1041)TCA>TCG	p.S347S	DUSP16_uc001ram.1_5'Flank|DUSP16_uc001ran.1_Silent_p.S199S	NM_030640	NP_085143	Q9BY84	DUS16_HUMAN	dual specificity phosphatase 16	347					inactivation of MAPK activity|MAPK export from nucleus|MAPK phosphatase export from nucleus, leptomycin B sensitive	cytoplasmic membrane-bounded vesicle|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity				0		Prostate(47;0.0687)		BRCA - Breast invasive adenocarcinoma(232;0.0203)		CTGCTGCCTCTGAGGTAGCAG	0.532													6	67					0	0	0.001168	0	0		C	12630724	C	C	12630724	2	2	160	1	0	0	0	0	0	0	0	1	4822	1567	55	3		3	DUSP16	12	12630724	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	116584	12630724	121221171	777	88047											
DDX47	51202	broad.mit.edu	37	chr12	12974263	12974263	+	Silent	SNP	T	C	C	0	1	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	gccctagttcttaccccgacTcgggagctggcctttcagat	6	11	10	14	2	2	1	1	0	1	1	3	3	2	2	4	2	2	2	4	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:12974263T>C	uc001rav.2	+	6	901	c.303T>C	c.(301-303)ACT>ACC	p.T101T	DDX47_uc009zhw.1_Silent_p.T101T|DDX47_uc001rax.2_Silent_p.T101T|DDX47_uc001ray.2_Silent_p.T101T|DDX47_uc010shn.1_Silent_p.T101T	NM_016355	NP_057439	Q9H0S4	DDX47_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	101	Helicase ATP-binding.					nucleolus|nucleolus	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding				0		Prostate(47;0.0526)		BRCA - Breast invasive adenocarcinoma(232;0.0354)		TTACCCCGACTCGGGAGCTGG	0.547													98	243					0	0	0.01441	0	0		C	12974263	C	C	12974263	2	2	160	1	0	0	0	0	0	0	0	1	4368	1538	54	3		3	DDX47	12	12974263	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	343539	12974263	120877632	778	88048											
DDX47	51202	broad.mit.edu	37	chr12	12974623	12974623	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaattgattcaatgtctcaAtctttggcccttgcaaaaaa	13	13	7	8	0	3	1	2	1	2	0	4	2	3	2	1	2	1	1	1	2	6	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:12974623A>G	uc001rav.2	+	7	1003	c.405A>G	c.(403-405)CAA>CAG	p.Q135Q	DDX47_uc009zhw.1_Silent_p.Q135Q|DDX47_uc001rax.2_Silent_p.Q135Q|DDX47_uc001ray.2_Silent_p.Q135Q|DDX47_uc010shn.1_3'UTR	NM_016355	NP_057439	Q9H0S4	DDX47_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	135	Helicase ATP-binding.					nucleolus|nucleolus	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding				0		Prostate(47;0.0526)		BRCA - Breast invasive adenocarcinoma(232;0.0354)		CAATGTCTCAATCTTTGGCCC	0.363													39	93					0	0	0.009718	0	0		G	12974623	G	G	12974623	2	3	160	1	0	0	0	0	0	0	0	1	4368	98	4	3		3	DDX47	12	12974623	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	360	12974623	120877272	779	88049											
ERP27	121506	broad.mit.edu	37	chr12	15091448	15091448	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggggcagcttccattgtccCtctcctgctcctgctccaac	4	11	8	18	1	1	0	0	0	1	0	6	0	5	0	5	2	4	4	5	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:15091448C>A	uc001rco.2	-	1	16	c.-5G>T	c.(-7--3)GAGGG>GATGG			NM_152321	NP_689534	Q96DN0	ERP27_HUMAN	endoplasmic reticulum protein 27 kDa precursor							endoplasmic reticulum lumen				breast(1)	1						TCCATTGTCCCTCTCCTGCTC	0.493													7	37					0.000274275	0.000283129	0.004482	1	0		A	15091448	A	A	15091448	1	1	160	1	0	0	0	0	0	0	0	0	5249	696	24	5		5	ERP27	12	15091448	Translation_Start_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2116825	15091448	118760447	780	88050											
TSPAN11	441631	broad.mit.edu	37	chr12	31136068	31136068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgggggcagtgggcatcGgggtggcctgcctgcaggtg	4	9	20	8	1	0	0	0	0	0	0	1	0	0	0	2	7	2	3	2	7	1	1	rs140179345	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:31136068G>A	uc010sju.1	+	7	1065	c.685G>A	c.(685-687)GGG>AGG	p.G229R	TSPAN11_uc001rjp.2_Missense_Mutation_p.G229R|TSPAN11_uc010sjv.1_Missense_Mutation_p.G219R	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	229	Helical; (Potential).					integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					AGTGGGCATCGGGGTGGCCTG	0.632													4	13					0	0	0.009096	0	0		A	31136068	A	A	31136068	3	1	160	1	0	0	0	0	1	0	0	0	16661	1116	39	1	707	1	TSPAN11	12	31136068	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	16044620	31136068	102715827	781	88051											
SYT10	341359	broad.mit.edu	37	chr12	33535371	33535371	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatggcctcattgtacacaGggtttagagtgtttttcttt	8	18	9	6	0	2	1	1	0	1	1	2	1	2	1	1	2	1	3	1	2	3	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:33535371G>T	uc001rll.1	-	5	1580	c.1283C>A	c.(1282-1284)CCT>CAT	p.P428H	SYT10_uc009zju.1_Missense_Mutation_p.P238H	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	428	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					ATTGTACACAGGGTTTAGAGT	0.413													48	132					1.06522e-23	1.18573e-23	0.013114	1	0		T	33535371	T	T	33535371	3	4	160	1	0	0	0	0	1	0	0	0	15491	1000	35	5	300	5	SYT10	12	33535371	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2399303	33535371	100316524	782	88052											
ARID2	196528	broad.mit.edu	37	chr12	46211518	46211518	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaatgattataataaattgGtgctttcactgttatctgga	13	16	7	5	0	2	1	1	1	1	0	2	2	2	2	0	2	1	2	0	2	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:46211518G>T	uc001ros.1	+	5	484	c.484G>T	c.(484-486)GTG>TTG	p.V162L	ARID2_uc001ror.2_Missense_Mutation_p.V162L	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	162					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TAATAAATTGGTGCTTTCACT	0.348													34	109					3.62531e-18	3.99124e-18	0.004289	1	0		T	46211518	T	T	46211518	3	4	160	1	0	0	0	0	1	0	0	0	915	1261	44	5	502	5	ARID2	12	46211518	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	12676147	46211518	87640377	783	88053											
SLC38A2	54407	broad.mit.edu	37	chr12	46761057	46761057	+	Silent	SNP	A	G	G	1	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	aatgctatcatacctccttcAttggcagtcttcaaaaggag	12	12	7	10	0	4	0	3	0	1	0	5	1	5	1	2	2	2	2	2	2	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:46761057A>G	uc001rpg.2	-	5	821	c.381T>C	c.(379-381)AAT>AAC	p.N127N	SLC38A2_uc010sli.1_5'Flank|SLC38A2_uc001rph.2_Silent_p.N27N	NM_018976	NP_061849	Q96QD8	S38A2_HUMAN	solute carrier family 38, member 2	127	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|glutamate secretion|neurotransmitter secretion|sodium ion transport	integral to membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			urinary_tract(1)|skin(1)	2	Lung SC(27;0.192)|Renal(347;0.236)		OV - Ovarian serous cystadenocarcinoma(5;0.0048)|Epithelial(2;0.0374)	GBM - Glioblastoma multiforme(48;0.226)		TACCTCCTTCATTGGCAGTCT	0.333													14	247					0	0	0.00245	0	0		G	46761057	G	G	46761057	2	3	160	1	0	0	0	0	0	0	0	1	14629	214	8	3		3	SLC38A2	12	46761057	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	549539	46761057	87090838	784	88054											
FAM113B	91523	broad.mit.edu	37	chr12	47630075	47630075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtccccgtggcccctataCgccctggggacagcggcctc	4	7	12	18	4	0	0	0	0	0	0	3	1	1	1	6	4	2	0	6	4	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:47630075C>T	uc001rpn.2	+	4	1960	c.1229C>T	c.(1228-1230)ACG>ATG	p.T410M	FAM113B_uc001rpq.2_Missense_Mutation_p.T410M	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	410	Pro-rich.						hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					GGCCCCTATACGCCCTGGGGA	0.592													14	35					0	0	0.001855	0	0		T	47630075	T	T	47630075	3	4	160	1	0	0	0	0	1	0	0	0	5413	536	19	1	1231	1	FAM113B	12	47630075	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	869018	47630075	86221820	785	88055											
H1FNT	341567	broad.mit.edu	37	chr12	48723422	48723422	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtcagcggcagcgacgcCgccggctacttcagggtctg	5	6	16	14	6	3	0	2	0	1	0	3	1	3	0	2	4	3	2	2	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:48723422C>T	uc001rrm.2	+	1	660	c.348C>T	c.(346-348)GCC>GCT	p.A116A		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	116					chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						GCAGCGACGCCGCCGGCTACT	0.716													4	8					0	0	0.001168	0	0		T	48723422	T	T	48723422	2	4	160	1	0	0	0	0	0	0	0	1	6937	639	23	1		1	H1FNT	12	48723422	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1093347	48723422	85128473	786	88056											
NCKAP5L	57701	broad.mit.edu	37	chr12	50186659	50186659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggtgggggatccagccGcggtggcttggtcttaggaa	6	8	17	10	2	1	0	0	0	1	0	2	2	2	2	3	7	1	1	3	7	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:50186659G>A	uc009zlk.2	-	11	3653	c.3451C>T	c.(3451-3453)CGG>TGG	p.R1151W	NCKAP5L_uc001rvc.3_Missense_Mutation_p.R355W|NCKAP5L_uc001rvb.2_Missense_Mutation_p.R744W	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1147	Pro-rich.									central_nervous_system(1)	1						GGATCCAGCCGCGGTGGCTTG	0.647													4	10					0	0	0.009096	0	0		A	50186659	A	A	50186659	3	1	160	1	0	0	0	0	1	0	0	0	10243	1086	38	1	565	1	NCKAP5L	12	50186659	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1463237	50186659	83665236	787	88057											
SLC4A8	9498	broad.mit.edu	37	chr12	51856144	51856144	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcgagatgatctcctggcGgggattgatgagttcctaga	9	10	15	7	2	1	5	0	3	1	2	3	8	2	6	2	3	1	1	2	3	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:51856144G>A	uc001rys.1	+	10	1330	c.1152G>A	c.(1150-1152)GCG>GCA	p.A384A	SLC4A8_uc010sni.1_Silent_p.A331A|SLC4A8_uc001rym.2_Silent_p.A331A|SLC4A8_uc001ryn.2_Silent_p.A331A|SLC4A8_uc001ryo.2_Silent_p.A331A|SLC4A8_uc001ryp.1_3'UTR|SLC4A8_uc010snj.1_Silent_p.A411A|SLC4A8_uc001ryq.3_Silent_p.A384A|SLC4A8_uc001ryr.2_Silent_p.A384A|SLC4A8_uc010snk.1_Silent_p.A331A	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	384	Extracellular (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		ATCTCCTGGCGGGGATTGATG	0.458													71	152					0	0	0.01441	0	0		A	51856144	A	A	51856144	2	1	160	1	0	0	0	0	0	0	0	1	14684	1103	39	1		1	SLC4A8	12	51856144	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1669485	51856144	81995751	788	88058											
ACVR1B	91	broad.mit.edu	37	chr12	52385715	52385715	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acccttccattgaggaaatgCgaaaggttgtatgtgatcag	12	11	11	7	1	1	2	1	2	0	0	2	4	2	3	2	2	1	2	2	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:52385715C>T	uc001rzn.2	+	8	1372	c.1330C>T	c.(1330-1332)CGA>TGA	p.R444*	ACVR1B_uc001rzm.2_Nonsense_Mutation_p.R444*|ACVR1B_uc010snn.1_Nonsense_Mutation_p.R485*	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	444	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding	p.R485*(1)		pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TGAGGAAATGCGAAAGGTTGT	0.488													57	142					0	0	0.01441	0	0		T	52385715	T	T	52385715	4	4	160	1	0	0	0	0	0	1	0	0	221	760	27	1	1487	1	ACVR1B	12	52385715	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	529571	52385715	81466180	789	88059											
C12orf44	60673	broad.mit.edu	37	chr12	52470862	52470862	+	Missense_Mutation	SNP	T	C	C	0	1	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	taacgtgtttgacacaggctTgcgggacgtgcagccctacc	8	9	12	12	3	0	1	0	1	0	0	0	2	0	2	2	2	5	3	2	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:52470862T>C	uc001rzu.3	+	4	1020	c.545T>C	c.(544-546)TTG>TCG	p.L182S	C12orf44_uc009zmd.2_Missense_Mutation_p.L182S|uc009zme.1_5'Flank	NM_021934	NP_068753	Q9BSB4	ATGA1_HUMAN	Atg13-interacting protein	182					autophagic vacuole assembly	pre-autophagosomal structure	identical protein binding|protein complex binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0978)		GACACAGGCTTGCGGGACGTG	0.547													23	53					0	0	0.004656	0	0		C	52470862	C	C	52470862	3	2	160	1	0	0	0	0	1	0	0	0	1693	1821	63	3	551	3	C12orf44	12	52470862	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	85147	52470862	81381033	790	88060											
KRT6A	3853	broad.mit.edu	37	chr12	52881626	52881626	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgctggaactgaagccacCtccaacgccaagaccactgc	12	5	8	16	1	0	2	0	1	0	1	1	3	1	3	5	1	5	1	5	1	4	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:52881626C>A	uc001sam.2	-	9	1782	c.1573G>T	c.(1573-1575)GGT>TGT	p.G525C		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	525	Tail.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTGAAGCCACCTCCAACGCCA	0.617													14	59					3.65163e-15	3.97666e-15	0.00632	1	0		A	52881626	A	A	52881626	3	1	160	1	0	0	0	0	1	0	0	0	8496	681	24	5	125	5	KRT6A	12	52881626	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	410764	52881626	80970269	791	88061											
KRT79	338785	broad.mit.edu	37	chr12	53227574	53227574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcttggcccaccttgtcGatgaaggaggcgaacttgtt	7	11	12	11	2	0	1	0	1	0	0	1	4	0	2	3	3	2	2	3	3	2	4	rs151245582		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:53227574G>A	uc001sbb.2	-	1	504	c.471C>T	c.(469-471)ATC>ATT	p.I157I		NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	157	Rod.|Coil 1A.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						CCACCTTGTCGATGAAGGAGG	0.602													62	152					0	0	0.01441	0	0		A	53227574	A	A	53227574	2	1	160	1	0	0	0	0	0	0	0	1	8508	1048	37	1		1	KRT79	12	53227574	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	345948	53227574	80624321	792	88062											
CSAD	51380	broad.mit.edu	37	chr12	53565712	53565712	+	Silent	SNP	C	T	T	0	0	0	1	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	ctccagcccaccagggcccgCagtttcctcagcacctcctc	6	7	7	21	1	1	0	1	0	0	0	5	0	4	0	7	1	2	3	7	1	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:53565712C>T	uc001sby.2	-	6	531	c.405G>A	c.(403-405)CTG>CTA	p.L135L	CSAD_uc001sbw.2_Intron|CSAD_uc009zmt.2_5'UTR|CSAD_uc010snx.1_Silent_p.L162L|CSAD_uc001sbz.2_Silent_p.L135L|CSAD_uc009zmu.2_Intron|CSAD_uc001sca.3_RNA|CSAD_uc010sny.1_Silent_p.L135L	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	135					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	CCAGGGCCCGCAGTTTCCTCA	0.557									Hereditary_Prostate_Cancer				20	51					0	0	0.00278	0	0		T	53565712	T	T	53565712	2	4	160	1	0	0	0	0	0	0	0	1	3928	697	25	2		2	CSAD	12	53565712	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	338138	53565712	80286183	793	88063											
ITGA5	3678	broad.mit.edu	37	chr12	54812816	54812816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaatccgaagaaggagcccGggggccccgagagtactgct	11	4	15	11	3	0	3	0	0	0	3	1	6	1	4	4	3	3	2	4	3	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:54812816G>A	uc001sga.2	-	1	235	c.167C>T	c.(166-168)CCG>CTG	p.P56L	ITGA5_uc010sow.1_RNA|ITGA5_uc009znp.1_RNA	NM_002205	NP_002196	P08648	ITA5_HUMAN	integrin alpha 5 precursor	56	Extracellular (Potential).|FG-GAP 1.				angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			ovary(2)	2						GAAGGAGCCCGGGGGCCCCGA	0.562													12	18					0	0	0.001855	0	0		A	54812816	A	A	54812816	3	1	160	1	0	0	0	0	1	0	0	0	7895	1116	39	1	3102	1	ITGA5	12	54812816	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1247104	54812816	79039079	794	88064											
OR6C70	390327	broad.mit.edu	37	chr12	55863619	55863619	+	Frame_Shift_Del	DEL	A	-	-																															tgtaacccccaagaatatgtAaaaaaacaactgagatatgc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:55863619delA	uc010spn.1	-	1	304	c.304delT	c.(304-306)TACfs	p.Y102fs		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AAGAATATGTAAAAAAACAAC	0.393													49	110	---	---	---	---						.	-	55863619	-	-	55863619	7	5	160	1	0	1	0	1	0	0	0	0	11216	362	13	0	636	0	OR6C70	12	55863619	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	1050803	55863619	77988276	795	88065											
DNAJC14	85406	broad.mit.edu	37	chr12	56222358	56222358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgaaggtatttcagggtccaCggagggtcctaaagtcctga	10	10	13	8	1	1	2	1	2	0	0	4	3	4	3	3	4	0	1	3	4	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:56222358C>T	uc001shx.1	-	2	289	c.85G>A	c.(85-87)GTG>ATG	p.V29M	DNAJC14_uc001shu.1_Missense_Mutation_p.V29M|DNAJC14_uc009zob.1_Missense_Mutation_p.V29M|DNAJC14_uc001shy.1_Missense_Mutation_p.V29M	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	29					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						TCAGGGTCCACGGAGGGTCCT	0.592													43	110					0	0	0.007835	0	0		T	56222358	T	T	56222358	3	4	160	1	0	0	0	0	1	0	0	0	4639	536	19	1	2047	1	DNAJC14	12	56222358	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	358739	56222358	77629537	796	88066											
SILV	6490	broad.mit.edu	37	chr12	56355192	56355192	+	Silent	SNP	A	G	G	1	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	aaggcaatagagaaggaggcAtttgcaccaatcagtgtagg	15	7	13	6	0	1	1	1	0	0	1	1	3	1	2	1	4	1	4	1	4	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:56355192A>G	uc001sip.2	-	3	274	c.243T>C	c.(241-243)AAT>AAC	p.N81N	SILV_uc001siq.2_Silent_p.N81N|SILV_uc010spx.1_Intron|SILV_uc001sir.2_Silent_p.N81N	NM_006928	NP_008859	P40967	PMEL_HUMAN	silver homolog	81					melanin biosynthetic process|melanosome organization	endoplasmic reticulum membrane|extracellular region|Golgi apparatus|integral to membrane|melanosome|multivesicular body membrane|plasma membrane	protein binding				0						AGAAGGAGGCATTTGCACCAA	0.498													14	141					0	0	0.00245	0	0		G	56355192	G	G	56355192	2	3	160	1	0	0	0	0	0	0	0	1	14347	214	8	3		3	SILV	12	56355192	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	132834	56355192	77496703	797	88067											
ESYT1	23344	broad.mit.edu	37	chr12	56527633	56527633	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gctgccatcttagttgtctaCctggatcgggcccaggatct	6	12	11	12	1	3	0	0	0	3	0	4	2	3	2	3	3	2	2	3	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:56527633C>T	uc001sjq.2	+	13	1499	c.1449C>T	c.(1447-1449)TAC>TAT	p.Y483Y	ESYT1_uc001sjr.2_Silent_p.Y483Y	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	483	C2 2.					integral to membrane				ovary(4)|skin(1)	5						TAGTTGTCTACCTGGATCGGG	0.557													49	117					0	0	0.01441	0	0		T	56527633	T	T	56527633	2	4	160	1	0	0	0	0	0	0	0	1	5272	518	18	4		4	ESYT1	12	56527633	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	172441	56527633	77324262	798	88068											
PAN2	9924	broad.mit.edu	37	chr12	56717366	56717366	+	Missense_Mutation	SNP	A	G	G	1	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	gaatatctggcagatggcggAtgttgcgggtctgaatctga	9	11	15	6	2	3	3	0	2	3	1	3	5	3	4	0	4	1	2	0	4	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:56717366A>G	uc001skx.2	-	15	2574	c.2201T>C	c.(2200-2202)ATC>ACC	p.I734T	PAN2_uc001skw.2_5'UTR|PAN2_uc001skz.2_Missense_Mutation_p.I733T|PAN2_uc001sky.2_Missense_Mutation_p.I730T	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	734					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						CAGATGGCGGATGTTGCGGGT	0.483													19	66					0	0	0.012319	0	0		G	56717366	G	G	56717366	3	3	160	1	0	0	0	0	1	0	0	0	11433	333	12	3	1455	3	PAN2	12	56717366	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	189733	56717366	77134529	799	88069											
GLS2	27165	broad.mit.edu	37	chr12	56868363	56868363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagagaagtcatacatgcCgcaggaatgcatgaggctga	13	6	13	9	1	1	3	1	2	0	1	1	5	1	4	2	2	3	3	2	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:56868363C>T	uc001slj.2	-	12	1468	c.1189G>A	c.(1189-1191)GGC>AGC	p.G397S	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_Missense_Mutation_p.G132S|GLS2_uc009zot.2_Missense_Mutation_p.G58S	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	397					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TCATACATGCCGCAGGAATGC	0.567													42	104					0	0	0.006999	0	0		T	56868363	T	T	56868363	3	4	160	1	0	0	0	0	1	0	0	0	6479	652	23	1	647	1	GLS2	12	56868363	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	150997	56868363	76983532	800	88070											
BAZ2A	11176	broad.mit.edu	37	chr12	57009170	57009170	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccaaggatgccgttgagtgGgtattgtccccccgagaact	8	9	12	12	2	0	2	0	1	0	1	1	4	1	3	5	2	2	2	5	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:57009170G>T	uc001slq.1	-	3	558	c.364C>A	c.(364-366)CCA>ACA	p.P122T	BAZ2A_uc001slp.1_Missense_Mutation_p.P120T|BAZ2A_uc010sqr.1_Missense_Mutation_p.P122T|BAZ2A_uc009zow.1_Missense_Mutation_p.P120T	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	122					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						CCGTTGAGTGGGTATTGTCCC	0.577													7	148					2.0095e-06	2.11471e-06	0.001984	1	0		T	57009170	T	T	57009170	3	4	160	1	0	0	0	0	1	0	0	0	1332	1232	43	5	5461	5	BAZ2A	12	57009170	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	140807	57009170	76842725	801	88071											
LRP1	4035	broad.mit.edu	37	chr12	57600317	57600317	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atccgcagcctgttccccggCcacccccattcggcttacga	6	8	8	19	4	0	0	0	0	0	0	3	1	2	0	7	2	2	3	7	2	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:57600317C>G	uc001snd.2	+	76	12118	c.11652C>G	c.(11650-11652)GGC>GGG	p.G3884G		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	3884	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGTTCCCCGGCCACCCCCATT	0.587													29	56					0	0	0.007291	0	0		G	57600317	G	G	57600317	2	3	160	1	0	0	0	0	0	0	0	1	8969	726	26	5		5	LRP1	12	57600317	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	591147	57600317	76251578	802	88072											
GLI1	2735	broad.mit.edu	37	chr12	57858503	57858503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtcaagttgaccaagaagCgggcactgtccatctcacct	11	8	9	13	1	2	2	2	1	1	1	4	2	3	2	3	1	1	2	3	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:57858503C>T	uc001snx.2	+	4	319	c.241C>T	c.(241-243)CGG>TGG	p.R81W	GLI1_uc009zpp.2_RNA|GLI1_uc009zpq.2_5'UTR|GLI1_uc009zpr.1_RNA	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	81					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			GACCAAGAAGCGGGCACTGTC	0.582													23	49					0	0	0.00278	0	0		T	57858503	T	T	57858503	3	4	160	1	0	0	0	0	1	0	0	0	6452	759	27	1	251	1	GLI1	12	57858503	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	258186	57858503	75993392	803	88073											
TRHDE	29953	broad.mit.edu	37	chr12	72667121	72667121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgcacgcttcccgagtggCggtggagaaagtgcagctgg	7	7	17	10	3	0	1	0	0	0	1	1	3	1	1	1	4	3	5	1	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:72667121C>T	uc001sxa.2	+	1	593	c.563C>T	c.(562-564)GCG>GTG	p.A188V	LOC283392_uc010stv.1_5'UTR	NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	188	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TCCCGAGTGGCGGTGGAGAAA	0.627													3	27					0	0	0.004672	0	0		T	72667121	T	T	72667121	3	4	160	1	0	0	0	0	1	0	0	0	16505	768	27	1	565	1	TRHDE	12	72667121	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	14808618	72667121	61184774	804	88074											
ATP2B1	490	broad.mit.edu	37	chr12	90035958	90035958	+	Missense_Mutation	SNP	T	C	C	0	1	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	cattatccccttctggaggcTgataaaaagaaaggcccaat	14	9	8	10	0	1	2	0	1	1	1	2	3	2	3	3	3	0	1	3	3	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:90035958T>C	uc001tbh.2	-	2	564	c.383A>G	c.(382-384)CAG>CGG	p.Q128R	ATP2B1_uc001tbg.2_Missense_Mutation_p.Q128R	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	128	Extracellular (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TTCTGGAGGCTGATAAAAAGA	0.343													4	381					0	0	0.009096	0	0		C	90035958	C	C	90035958	3	2	160	1	0	0	0	0	1	0	0	0	1140	1580	55	3	3513	3	ATP2B1	12	90035958	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	17368837	90035958	43815937	805	88075											
USP44	84101	broad.mit.edu	37	chr12	95927734	95927734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgatggcacttaatgtaCgtcgtagtaacttcaggtct	9	16	9	7	2	2	1	1	1	1	0	3	1	2	1	0	2	2	4	0	2	4	7	rs144639311		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:95927734C>T	uc001teg.2	-	2	443	c.299G>A	c.(298-300)CGT>CAT	p.R100H	USP44_uc001teh.2_Missense_Mutation_p.R100H|USP44_uc009zte.2_Missense_Mutation_p.R97H	NM_001042403	NP_001035862	Q9H0E7	UBP44_HUMAN	ubiquitin thiolesterase 44	100					anaphase|cell division|mitosis|negative regulation of mitotic anaphase-promoting complex activity|protein deubiquitination|regulation of spindle checkpoint|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)|breast(1)|central_nervous_system(1)	3						ACTTAATGTACGTCGTAGTAA	0.388													49	98					0	0	0.01441	0	0		T	95927734	T	T	95927734	3	4	160	1	0	0	0	0	1	0	0	0	17101	536	19	1	1859	1	USP44	12	95927734	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5891776	95927734	37924161	806	88076											
UTP20	27340	broad.mit.edu	37	chr12	101693522	101693522	+	Missense_Mutation	SNP	A	G	G	1	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	cgaacagtttccagtattggAccatcttttatctataatta	12	16	5	8	1	2	0	0	0	2	0	3	2	3	1	2	1	1	2	2	1	6	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:101693522A>G	uc001tia.1	+	13	1649	c.1493A>G	c.(1492-1494)GAC>GGC	p.D498G		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	498					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						CCAGTATTGGACCATCTTTTA	0.338													38	117					0	0	0.005524	0	0		G	101693522	G	G	101693522	3	3	160	1	0	0	0	0	1	0	0	0	17125	275	10	3	1543	3	UTP20	12	101693522	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	5765788	101693522	32158373	807	88077											
SELPLG	6404	broad.mit.edu	37	chr12	109017078	109017078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgccagcaccacagtgcacaCgaagaagatagtggccacca	14	3	10	14	2	0	2	0	0	0	2	0	3	0	2	4	1	2	2	4	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:109017078C>T	uc001tni.2	-	2	1166	c.1006G>A	c.(1006-1008)GTG>ATG	p.V336M	SELPLG_uc001tnh.2_Missense_Mutation_p.V326M|SELPLG_uc010sxe.1_Missense_Mutation_p.V352M	NM_003006	NP_002997	Q14242	SELPL_HUMAN	selectin P ligand	336	Helical; (Potential).				blood coagulation|cellular response to interleukin-6	integral to plasma membrane|membrane fraction	bacterial cell surface binding|receptor binding				0						ACAGTGCACACGAAGAAGATA	0.592													13	26					0	0	0.004007	0	0		T	109017078	T	T	109017078	3	4	160	1	0	0	0	0	1	0	0	0	14045	536	19	1	236	1	SELPLG	12	109017078	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	7323556	109017078	24834817	808	88078											
MVK	4598	broad.mit.edu	37	chr12	110032921	110032921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaggtgaccagggcccGcggacttcacagcaagctga	9	5	13	14	2	1	2	1	2	0	0	1	3	1	3	3	3	3	2	3	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:110032921G>A	uc001toy.3	+	10	1158	c.974G>A	c.(973-975)CGC>CAC	p.R325H	MVK_uc009zvk.2_Missense_Mutation_p.R325H|MVK_uc010sxr.1_Missense_Mutation_p.R273H|MVK_uc001toz.3_Missense_Mutation_p.R131H|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	325					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						ACCAGGGCCCGCGGACTTCAC	0.647													27	69					0	0	0.007291	0	0		A	110032921	A	A	110032921	3	1	160	1	0	0	0	0	1	0	0	0	10013	1087	38	1	1008	1	MVK	12	110032921	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1015843	110032921	23818974	809	88079											
MYL2	4633	broad.mit.edu	37	chr12	111348947	111348947	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtccaagttgccagtcacGtcaggggggaaggcggcgaa	10	6	16	9	3	2	0	2	0	0	0	3	2	3	1	2	5	1	1	2	5	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:111348947G>A	uc001try.3	-	7	506	c.435C>T	c.(433-435)GAC>GAT	p.D145D	MYL2_uc001trx.3_Silent_p.D126D	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	145	EF-hand 3.				cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						TGCCAGTCACGTCAGGGGGGA	0.612													34	86					0	0	0.004289	0	0		A	111348947	A	A	111348947	2	1	160	1	0	0	0	0	0	0	0	1	10065	1136	40	1		1	MYL2	12	111348947	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1316026	111348947	22502948	810	88080											
ATXN2	6311	broad.mit.edu	37	chr12	111907981	111907981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agatactaaaccaggctgggCgtgtgttggtggtgccatca	9	10	14	8	1	1	1	1	0	0	1	1	1	1	1	2	4	3	2	2	4	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:111907981C>T	uc001tsj.2	-	20	3409	c.3247G>A	c.(3247-3249)GCC>ACC	p.A1083T	ATXN2_uc001tsh.2_Missense_Mutation_p.A818T|ATXN2_uc001tsi.2_Missense_Mutation_p.A794T|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Missense_Mutation_p.A271T|ATXN2_uc001tsl.1_Missense_Mutation_p.A102T	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1083	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						CCAGGCTGGGCGTGTGTTGGT	0.443													44	108					0	0	0.013114	0	0		T	111907981	T	T	111907981	3	4	160	1	0	0	0	0	1	0	0	0	1212	768	27	1	718	1	ATXN2	12	111907981	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	559034	111907981	21943914	811	88081											
ATXN2	6311	broad.mit.edu	37	chr12	111990178	111990178	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccattatttcttcacgtttCggccccgaactggattctgt	6	16	7	12	3	3	0	1	0	2	0	5	2	4	1	3	2	1	1	3	2	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:111990178C>T	uc001tsj.2	-	5	1119	c.957G>A	c.(955-957)CCG>CCA	p.P319P	ATXN2_uc001tsh.2_Silent_p.P54P|ATXN2_uc001tsi.2_Silent_p.P30P|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsm.1_Silent_p.P54P	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	319					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						CTTCACGTTTCGGCCCCGAAC	0.373													35	82					0	0	0.003271	0	0		T	111990178	T	T	111990178	2	4	160	1	0	0	0	0	0	0	0	1	1212	871	31	1		1	ATXN2	12	111990178	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	82197	111990178	21861717	812	88082											
C12orf51	283450	broad.mit.edu	37	chr12	112674831	112674831	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacagcactctgtggctcGggcaagatggttagtgagaa	10	8	14	9	1	1	2	0	1	1	2	2	3	1	2	1	3	1	4	1	3	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:112674831G>A	uc009zwc.2	-	28	4114	c.4096C>T	c.(4096-4098)CGA>TGA	p.R1366*		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TCTGTGGCTCGGGCAAGATGG	0.537													6	10					0	0	0.001168	0	0		A	112674831	A	A	112674831	4	1	160	1	0	0	0	0	0	1	0	0	1699	1124	39	1	8062	1	C12orf51	12	112674831	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	684653	112674831	21177064	813	88083											
PTPN11	5781	broad.mit.edu	37	chr12	112926888	112926888	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtgcggtctcagaggtcagGgatggtccagacagaagcac	10	6	16	9	1	2	3	2	0	1	3	4	4	3	4	1	5	2	1	1	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:112926888G>T	uc001ttx.2	+	13	1888	c.1508G>T	c.(1507-1509)GGG>GTG	p.G503V		NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	507	Tyrosine-protein phosphatase.		G -> A (in JMML).|G -> R (in patients with growth retardation, pulmonic stenosis and juvenile myelomonocytic leukemia).		axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding	p.G503A(14)|p.G503V(8)|p.G503E(2)|p.G503L(1)|p.G503R(1)		haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						CAGAGGTCAGGGATGGTCCAG	0.468			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				60	171					9.79885e-19	1.08048e-18	0.01441	1	0		T	112926888	T	T	112926888	3	4	160	1	0	0	0	0	1	0	0	0	12803	1232	43	5	1558	5	PTPN11	12	112926888	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	252057	112926888	20925007	814	88084											
SUDS3	64426	broad.mit.edu	37	chr12	118841254	118841254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcacttgcctgcaacaccCgcggaatctccagcccagag	10	5	10	16	2	1	1	0	0	1	1	2	3	1	2	4	1	5	2	4	1	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:118841254C>T	uc001twz.2	+	10	874	c.735C>T	c.(733-735)CCC>CCT	p.P245P		NM_022491	NP_071936	Q9H7L9	SDS3_HUMAN	suppressor of defective silencing 3	245					chromatin modification|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	Sin3 complex	histone deacetylase binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTGCAACACCCGCGGAATCTC	0.463													3	19					0	0	0.004672	0	0		T	118841254	T	T	118841254	2	4	160	1	0	0	0	0	0	0	0	1	15392	639	23	1		1	SUDS3	12	118841254	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5914366	118841254	15010641	815	88085											
GPR109A	338442	broad.mit.edu	37	chr12	123187766	123187766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttgacaatgaagtcatctCggaacacacagcagttcttc	12	10	7	12	1	3	2	1	2	2	0	5	3	3	3	1	1	2	2	1	1	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:123187766C>T	uc001ucx.1	-	1	139	c.65G>A	c.(64-66)CGA>CAA	p.R22Q	GPR81_uc001ucw.1_Intron	NM_177551	NP_808219	Q8TDS4	HCAR2_HUMAN	G protein-coupled receptor 109A	22	Extracellular (Potential).				negative regulation of lipid catabolic process|neutrophil apoptosis|positive regulation of adiponectin secretion|positive regulation of neutrophil apoptosis	integral to membrane|plasma membrane	nicotinic acid receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	GAAGTCATCTCGGAACACACA	0.532													42	111					0	0	0.011902	0	0		T	123187766	T	T	123187766	3	4	160	1	0	0	0	0	1	0	0	0	6640	884	31	1	1030	1	GPR109A	12	123187766	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4346512	123187766	10664129	816	88086											
NCOR2	9612	broad.mit.edu	37	chr12	124950800	124950800	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacacgggcttctcaggctcGggcggcttggcagcctcctc	4	8	14	15	3	1	0	1	0	1	0	5	1	2	0	2	5	1	4	2	5	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:124950800G>A	uc010tba.1	-	5	741	c.624C>T	c.(622-624)CCC>CCT	p.P208P	NCOR2_uc010tay.1_Silent_p.P208P|NCOR2_uc010taz.1_Silent_p.P208P|NCOR2_uc010tbb.1_Silent_p.P208P|NCOR2_uc010tbc.1_Silent_p.P208P|NCOR2_uc001ugj.1_Silent_p.P208P|NCOR2_uc001ugk.1_Silent_p.P208P	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	208	Potential.				cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		TCTCAGGCTCGGGCGGCTTGG	0.677													16	46					0	0	0.00499	0	0		A	124950800	A	A	124950800	2	1	160	1	0	0	0	0	0	0	0	1	10255	1103	39	1		1	NCOR2	12	124950800	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1763034	124950800	8901095	817	88087											
EP400	57634	broad.mit.edu	37	chr12	132474611	132474611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcggatagccgcctccacgGcccgggagatagagtgcttt	7	7	15	12	4	0	2	0	0	0	2	1	4	1	3	4	4	2	1	4	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:132474611G>A	uc001ujn.2	+	7	2547	c.2512G>A	c.(2512-2514)GCC>ACC	p.A838T	EP400_uc001ujl.2_Missense_Mutation_p.A837T|EP400_uc001ujm.2_Missense_Mutation_p.A838T|EP400_uc001ujj.1_Missense_Mutation_p.A801T|EP400_uc001ujk.2_Missense_Mutation_p.A874T	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	874					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CGCCTCCACGGCCCGGGAGAT	0.567													26	46					0	0	0.008361	0	0		A	132474611	A	A	132474611	3	1	160	1	0	0	0	0	1	0	0	0	5157	1203	42	2	2535	2	EP400	12	132474611	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7523811	132474611	1377284	818	88088											
DDX51	317781	broad.mit.edu	37	chr12	132624231	132624231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctcgtaccgaggaaccagCggctgcagcagcttgctgga	8	7	13	13	3	0	0	0	0	0	0	2	3	1	2	3	3	7	6	3	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr12:132624231C>T	uc001ujy.3	-	14	1962	c.1923G>A	c.(1921-1923)CCG>CCA	p.P641P		NM_175066	NP_778236	Q8N8A6	DDX51_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	641					rRNA processing	nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			lung(1)|pancreas(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.59e-08)|Epithelial(86;3.62e-07)|all cancers(50;2.13e-05)		GAGGAACCAGCGGCTGCAGCA	0.607													11	33					0	0	0.006122	0	0		T	132624231	T	T	132624231	2	4	160	1	0	0	0	0	0	0	0	1	4372	755	27	1		1	DDX51	12	132624231	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	149620	132624231	1227664	819	88089											
RNF17	56163	broad.mit.edu	37	chr13	25399806	25399806	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagacaatcgaggaattctAtaaaagtgaagatggagaaa	21	7	10	3	1	1	4	0	1	1	3	2	7	1	5	0	2	0	0	0	2	8	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:25399806A>G	uc001upr.2	+	16	2182	c.2141A>G	c.(2140-2142)TAT>TGT	p.Y714C	RNF17_uc010tdd.1_Missense_Mutation_p.Y573C|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.Y714C|RNF17_uc001ups.2_Missense_Mutation_p.Y653C	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	714					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GAGGAATTCTATAAAAGTGAA	0.343													45	108					0	0	0.011902	0	0		G	25399806	G	G	25399806	3	3	160	1	0	0	0	0	1	0	0	0	13486	449	16	3	2203	3	RNF17	13	25399806	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08		25399806	89770072	820	88090											
FAM123A	219287	broad.mit.edu	37	chr13	25744142	25744142	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	ggatgcccgccttcttcccgCtgctcgagctgtcttcctct	2	13	9	17	3	3	0	0	0	3	0	6	2	5	1	4	1	3	3	4	1	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:25744142C>G	uc001uqb.2	-	1	1716	c.1616G>C	c.(1615-1617)AGC>ACC	p.S539T	FAM123A_uc001uqa.2_Missense_Mutation_p.S420T|FAM123A_uc001uqc.2_Missense_Mutation_p.S420T	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	539										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		CTTCTTCCCGCTGCTCGAGCT	0.652													31	60					0	0	0.009535	0	0		G	25744142	G	G	25744142	3	3	160	1	0	0	0	0	1	0	0	0	5433	797	28	5	403	5	FAM123A	13	25744142	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	344336	25744142	89425736	821	88091											
SLC46A3	283537	broad.mit.edu	37	chr13	29284952	29284952	+	Silent	SNP	C	T	T	0	0	0	1	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	gaccgtagaacagagaatggCacaatagtgaaaaggaacgg	18	4	13	6	2	0	3	0	1	0	2	0	6	0	4	1	3	2	2	1	3	8	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:29284952C>T	uc001usi.2	-	3	2059	c.1089G>A	c.(1087-1089)GTG>GTA	p.V363V	SLC46A3_uc001usg.2_Silent_p.V288V|SLC46A3_uc001usj.2_Silent_p.V363V|SLC46A3_uc001ush.2_Silent_p.V363V|SLC46A3_uc001usk.2_3'UTR	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	363	Helical; (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		CAGAGAATGGCACAATAGTGA	0.388													26	82					0	0	0.00632	0	0		T	29284952	T	T	29284952	2	4	160	1	0	0	0	0	0	0	0	1	14671	697	25	2		2	SLC46A3	13	29284952	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3540810	29284952	85884926	822	88092											
MTUS2	23281	broad.mit.edu	37	chr13	29600876	29600876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaccatgcctcttccccacGaagagaaggcagcaggtggt	10	7	12	12	1	1	1	0	0	1	1	2	3	2	1	4	3	3	3	4	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:29600876G>A	uc001usl.3	+	1	2129	c.2071G>A	c.(2071-2073)GAA>AAA	p.E691K		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	681	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity	p.E691K(1)			0						TCTTCCCCACGAAGAGAAGGC	0.582													19	60					0	0	0.007413	0	0		A	29600876	A	A	29600876	3	1	160	1	0	0	0	0	1	0	0	0	9984	1059	37	1	2073	1	MTUS2	13	29600876	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	315924	29600876	85569002	823	88093											
MTUS2	23281	broad.mit.edu	37	chr13	30072657	30072657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgagcaagaaaagaagattCttgagctggaaaagctggtg	16	7	13	5	1	1	4	0	1	1	3	1	6	1	5	0	2	3	3	0	2	6	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:30072657C>T	uc001usl.3	+	12	3869	c.3811C>T	c.(3811-3813)CTT>TTT	p.L1271F	MTUS2_uc001usm.3_Missense_Mutation_p.L240F|MTUS2_uc010aau.2_Missense_Mutation_p.L150F|MTUS2_uc010tdq.1_Missense_Mutation_p.L23F	NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	1261	Potential.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AAAGAAGATTCTTGAGCTGGA	0.443													35	53					0	0	0.00623	0	0		T	30072657	T	T	30072657	3	4	160	1	0	0	0	0	1	0	0	0	9984	913	32	4	3915	4	MTUS2	13	30072657	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	471781	30072657	85097221	824	88094											
BRCA2	675	broad.mit.edu	37	chr13	32906658	32906658	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaaaaatctaaaaaccaagTgaaagaaaaatactcatttg	22	9	5	5	0	2	3	1	2	1	1	2	3	2	3	1	0	2	0	1	0	10	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:32906658T>C	uc001uub.1	+	10	1270	c.1043T>C	c.(1042-1044)GTG>GCG	p.V348A	BRCA2_uc001uua.1_Missense_Mutation_p.V225A	NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	348					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AAAAACCAAGTGAAAGAAAAA	0.328			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			138	301					0	0	0.01441	0	0		C	32906658	C	C	32906658	3	2	160	1	0	0	0	0	1	0	0	0	1502	1696	59	3	1077	3	BRCA2	13	32906658	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2834001	32906658	82263220	825	88095											
KL	9365	broad.mit.edu	37	chr13	33591317	33591317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacgtggtggcctggcacGgctacgccaccgggcgcctg	4	6	15	16	5	0	0	0	0	0	0	0	0	0	0	5	5	2	2	5	5	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:33591317G>A	uc001uus.2	+	1	747	c.739G>A	c.(739-741)GGC>AGC	p.G247S	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	247	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		GGCCTGGCACGGCTACGCCAC	0.692													7	10					0	0	0.00308	0	0		A	33591317	A	A	33591317	3	1	160	1	0	0	0	0	1	0	0	0	8347	1116	39	1	741	1	KL	13	33591317	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	684659	33591317	81578561	826	88096											
NBEA	26960	broad.mit.edu	37	chr13	36026370	36026370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagaaattgacaaccttgCaggtaaattttaaaatatat	19	12	6	4	0	0	2	0	1	0	1	0	3	0	2	1	1	2	2	1	1	9	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:36026370C>T	uc001uvb.2	+	40	6652	c.6446C>T	c.(6445-6447)GCA>GTA	p.A2149V	NBEA_uc010abi.2_Missense_Mutation_p.A805V	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2149						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GACAACCTTGCAGGtaaattt	0.348													3	13					0	0	0.004672	0	0		T	36026370	T	T	36026370	3	4	160	1	0	0	0	0	1	0	0	0	10205	710	25	2	6604	2	NBEA	13	36026370	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2435053	36026370	79143508	827	88097											
DCLK1	9201	broad.mit.edu	37	chr13	36401891	36401891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttcattctggatcatgtgctCctgtccaaaggaaaagttat	11	14	8	8	0	3	0	2	0	1	0	5	2	5	2	2	2	1	2	2	2	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:36401891C>T	uc001uvf.2	-	10	1521	c.1288G>A	c.(1288-1290)GAG>AAG	p.E430K	DCLK1_uc001uve.3_Missense_Mutation_p.E123K|DCLK1_uc010teh.1_Missense_Mutation_p.E123K|DCLK1_uc010abk.2_Intron	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	430	Protein kinase.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		ATCATGTGCTCCTGTCCAAAG	0.398													38	147					0	0	0.007835	0	0		T	36401891	T	T	36401891	3	4	160	1	0	0	0	0	1	0	0	0	4294	869	30	4	937	4	DCLK1	13	36401891	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	375521	36401891	78767987	828	88098											
LMO7	4008	broad.mit.edu	37	chr13	76432063	76432063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgcccgatcagctggacGgccaaccgccatgtgatgta	8	8	11	14	3	1	1	1	1	0	0	1	3	1	2	5	2	3	2	5	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:76432063G>A	uc001vjv.2	+	27	4832	c.4072G>A	c.(4072-4074)GGC>AGC	p.G1358S	LMO7_uc010thv.1_Missense_Mutation_p.R1345Q|LMO7_uc010thw.1_Missense_Mutation_p.R1271Q|LMO7_uc001vjx.1_RNA	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	Error:Variant_position_missing_in_Q8WWI1_after_alignment						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TCAGCTGGACGGCCAACCGCC	0.438													28	72					0	0	0.009535	0	0		A	76432063	A	A	76432063	3	1	160	1	0	0	0	0	1	0	0	0	8872	1116	39	1	5162	1	LMO7	13	76432063	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	40030172	76432063	38737815	829	88099											
SLITRK1	114798	broad.mit.edu	37	chr13	84454725	84454725	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgggatctttgtacctccGtttggagcagaccctggtgt	5	13	12	11	1	1	1	0	0	1	1	2	3	2	3	4	3	2	3	4	3	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:84454725G>A	uc001vlk.2	-	1	1804	c.918C>T	c.(916-918)AAC>AAT	p.N306N		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	306	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		TTGTACCTCCGTTTGGAGCAG	0.542													37	87					0	0	0.003271	0	0		A	84454725	A	A	84454725	2	1	160	1	0	0	0	0	0	0	0	1	14767	1136	40	1		1	SLITRK1	13	84454725	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	8022662	84454725	30715153	830	88100											
IPO5	3843	broad.mit.edu	37	chr13	98673368	98673368	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgccaaacgtctggccaAtgtcgttcgccaagtacagg	9	10	11	11	3	1	0	0	0	1	0	3	0	1	0	3	2	3	2	3	2	4	3	rs145600638		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:98673368A>G	uc001vne.2	+	28	3422	c.3242A>G	c.(3241-3243)AAT>AGT	p.N1081S		NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	1063					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						CGTCTGGCCAATGTCGTTCGC	0.403													6	280					0	0	0.004482	0	0		G	98673368	G	G	98673368	3	3	160	1	0	0	0	0	1	0	0	0	7812	101	4	3	3344	3	IPO5	13	98673368	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	14218643	98673368	16496510	831	88101											
RNF113B	140432	broad.mit.edu	37	chr13	98829144	98829144	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtgctccttctcggtgtccTgctcgaagtcagcggtggcc	3	11	14	13	3	2	0	1	0	1	0	6	1	4	0	3	4	3	2	3	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:98829144T>C	uc001vnk.2	-	1	378	c.347A>G	c.(346-348)CAG>CGG	p.Q116R	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	116							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			CTCGGTGTCCTGCTCGAAGTC	0.677													18	43					0	0	0.006122	0	0		C	98829144	C	C	98829144	3	2	160	1	0	0	0	0	1	0	0	0	13453	1580	55	3	629	3	RNF113B	13	98829144	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	155776	98829144	16340734	832	88102											
PCCA	5095	broad.mit.edu	37	chr13	101077918	101077918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgggtcgaaactaaatgtgaCcagcacgtggaacctggctt	11	9	12	9	2	0	1	0	1	0	0	1	3	0	2	2	3	3	2	2	3	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:101077918C>T	uc001voo.2	+	20	1816	c.1778C>T	c.(1777-1779)ACC>ATC	p.T593I	PCCA_uc010aga.2_Missense_Mutation_p.T567I|PCCA_uc010tiz.1_Missense_Mutation_p.T593I|PCCA_uc001vop.2_RNA	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	593					fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	CTAAATGTGACCAGCACGTGG	0.473													19	32					0	0	0.010504	0	0		T	101077918	T	T	101077918	3	4	160	1	0	0	0	0	1	0	0	0	11523	507	18	4	1856	4	PCCA	13	101077918	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2248774	101077918	14091960	833	88103											
NALCN	259232	broad.mit.edu	37	chr13	101717877	101717877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcctcccacgcagtagccGcagcaggaacttgacgcgga	10	4	12	15	4	0	1	0	1	0	0	1	3	1	3	3	2	4	4	3	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:101717877G>A	uc001vox.1	-	40	4672	c.4483C>T	c.(4483-4485)CGG>TGG	p.R1495W		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1495	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CGCAGTAGCCGCAGCAGGAAC	0.567													23	51					0	0	0.009718	0	0		A	101717877	A	A	101717877	3	1	160	1	0	0	0	0	1	0	0	0	10166	1086	38	1	753	1	NALCN	13	101717877	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	639959	101717877	13452001	834	88104											
NALCN	259232	broad.mit.edu	37	chr13	102047698	102047698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgatgatggcacagatgcGcagcaaagagtgaacccact	13	6	12	10	1	0	5	0	3	0	2	0	5	0	5	1	1	3	4	1	1	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:102047698G>A	uc001vox.1	-	3	316	c.127C>T	c.(127-129)CGC>TGC	p.R43C	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.R43C|NALCN_uc001vpa.2_Missense_Mutation_p.R43C	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	43	Helical; Name=S1 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GCACAGATGCGCAGCAAAGAG	0.438													28	82					0	0	0.007291	0	0		A	102047698	A	A	102047698	3	1	160	1	0	0	0	0	1	0	0	0	10166	1087	38	1	5257	1	NALCN	13	102047698	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	329821	102047698	13122180	835	88105											
SOX1	6656	broad.mit.edu	37	chr13	112722290	112722290	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcatcgacgaggccaagcgGctgcgcgcgctgcacatgaa	9	6	13	13	6	1	1	1	1	0	0	2	3	1	1	1	2	3	3	1	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:112722290G>A	uc001vsb.1	+	1	378	c.318G>A	c.(316-318)CGG>CGA	p.R106R		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	106	HMG box.				chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		AGGCCAAGCGGCTGCGCGCGC	0.602													7	13					0	0	0.001984	0	0		A	112722290	A	A	112722290	2	1	160	1	0	0	0	0	0	0	0	1	14965	1190	42	2		2	SOX1	13	112722290	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	10674592	112722290	2447588	836	88106											
MCF2L	23263	broad.mit.edu	37	chr13	113744018	113744018	+	Missense_Mutation	SNP	A	G	G	1	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	acgtcagctcagcgccactgAcaaagccccccgaaaagggc	12	3	10	16	3	2	1	2	1	0	0	2	2	2	1	4	1	3	1	4	1	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:113744018A>G	uc001vsu.2	+	26	3122	c.3100A>G	c.(3100-3102)ACA>GCA	p.T1034A	MCF2L_uc001vsq.2_Missense_Mutation_p.T1034A|MCF2L_uc010tjr.1_Missense_Mutation_p.T977A|MCF2L_uc001vsr.2_Missense_Mutation_p.T981A|MCF2L_uc001vss.3_Missense_Mutation_p.T975A|MCF2L_uc010tjs.1_Missense_Mutation_p.T975A	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	1007					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				AGCGCCACTGACAAAGCCCCC	0.577													21	66					0	0	0.010504	0	0		G	113744018	G	G	113744018	3	3	160	1	0	0	0	0	1	0	0	0	9397	275	10	3	3297	3	MCF2L	13	113744018	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1021728	113744018	1425860	837	88107											
RASA3	22821	broad.mit.edu	37	chr13	114751101	114751101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactggcttccatatttcGtcttcttgaacttgtccctc	5	17	5	14	1	3	1	1	1	2	0	7	1	5	1	2	1	1	1	2	1	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr13:114751101G>A	uc001vui.2	-	23	2545	c.2414C>T	c.(2413-2415)ACG>ATG	p.T805M	RASA3_uc010tkk.1_Missense_Mutation_p.T773M|RASA3_uc001vuj.2_Missense_Mutation_p.T422M	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	805					intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			TCCATATTTCGTCTTCTTGAA	0.607													7	278					0	0	0.00308	0	0		A	114751101	A	A	114751101	3	1	160	1	0	0	0	0	1	0	0	0	13087	1145	40	1	98	1	RASA3	13	114751101	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1007083	114751101	418777	838	88108											
TEP1	7011	broad.mit.edu	37	chr14	20871978	20871978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaactgggcaaatttgtcCgtcatggcagtacggagaca	12	9	11	9	2	2	1	2	0	0	1	3	2	3	1	1	3	2	3	1	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:20871978C>T	uc001vxe.2	-	6	1138	c.1098G>A	c.(1096-1098)ACG>ACA	p.T366T	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Intron	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	366	TROVE.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CAAATTTGTCCGTCATGGCAG	0.587													60	122					0	0	0.01441	0	0		T	20871978	T	T	20871978	2	4	160	1	0	0	0	0	0	0	0	1	15784	639	23	1		1	TEP1	14	20871978	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08		20871978	86477562	839	88109											
SLC22A17	51310	broad.mit.edu	37	chr14	23821303	23821303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgctggctgctagggcagCgctggcgacgctgacgccgc	4	5	18	14	6	0	1	0	1	0	0	0	2	0	1	1	4	2	6	1	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:23821303C>T	uc001wjl.2	-	1	177	c.121G>A	c.(121-123)GCT>ACT	p.A41T	SLC22A17_uc010akk.2_5'UTR|SLC22A17_uc001wjn.2_RNA|SLC22A17_uc001wjm.2_Missense_Mutation_p.A41T|SLC22A17_uc010akl.1_Missense_Mutation_p.A41T	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	41					siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		GCTAGGGCAGCGCTGGCGACG	0.697													3	2					0	0	0.009096	0	0		T	23821303	T	T	23821303	3	4	160	1	0	0	0	0	1	0	0	0	14473	768	27	1	1531	1	SLC22A17	14	23821303	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2949325	23821303	83528237	840	88110											
MYH7	4625	broad.mit.edu	37	chr14	23884861	23884861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatgcagcagctgcacccGctcactagtctcaatcagct	10	8	9	14	1	3	0	3	0	1	0	4	1	3	1	1	1	5	6	1	1	3	1	rs121913650		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:23884861G>A	uc001wjx.2	-	35	5240	c.5134C>T	c.(5134-5136)CGG>TGG	p.R1712W		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1712	Potential.		R -> W (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		AGCTGCACCCGCTCACTAGTC	0.617													20	58					0	0	0.00278	0	0		A	23884861	A	A	23884861	3	1	160	1	0	0	0	0	1	0	0	0	10057	1086	38	1	697	1	MYH7	14	23884861	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	63558	23884861	83464679	841	88111											
RIPK3	11035	broad.mit.edu	37	chr14	24805598	24805598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtatatgttaacgagcggtCgccctttaagagaaatagtg	12	12	11	6	3	0	1	0	0	0	1	1	3	0	1	1	1	2	2	1	1	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:24805598C>T	uc001wpb.2	-	10	1550	c.1340G>A	c.(1339-1341)CGA>CAA	p.R447Q	ADCY4_uc001wov.2_5'Flank|ADCY4_uc001wow.2_5'Flank|ADCY4_uc010toh.1_5'Flank|ADCY4_uc001wox.2_5'Flank|ADCY4_uc001woy.2_5'Flank|ADCY4_uc001woz.3_5'Flank|RIPK3_uc001wpa.2_Missense_Mutation_p.R247Q|RIPK3_uc010alq.2_RNA|RIPK3_uc010toi.1_Missense_Mutation_p.R226Q	NM_006871	NP_006862	Q9Y572	RIPK3_HUMAN	receptor-interacting serine-threonine kinase 3	447					apoptosis|induction of apoptosis by extracellular signals	cytoplasm	ATP binding|protein binding|transcription coactivator activity			central_nervous_system(2)|ovary(1)|lung(1)	4				GBM - Glioblastoma multiforme(265;0.0181)		AACGAGCGGTCGCCCTTTAAG	0.512													4	167					0	0	0.000602	0	0		T	24805598	T	T	24805598	3	4	160	1	0	0	0	0	1	0	0	0	13407	884	31	1	220	1	RIPK3	14	24805598	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	920737	24805598	82543942	842	88112											
NFATC4	4776	broad.mit.edu	37	chr14	24842494	24842494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtatcacaggcaagatggtgGccacggccagctatgaagcc	11	6	13	11	1	1	2	1	1	0	1	1	2	1	2	3	4	2	3	3	4	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:24842494G>A	uc001wpc.2	+	4	1798	c.1477G>A	c.(1477-1479)GCC>ACC	p.A493T	NFATC4_uc010tok.1_Missense_Mutation_p.A556T|NFATC4_uc010tol.1_Missense_Mutation_p.A556T|NFATC4_uc010alr.2_Missense_Mutation_p.A556T|NFATC4_uc010als.2_Missense_Mutation_p.A506T|NFATC4_uc010tom.1_Missense_Mutation_p.A506T|NFATC4_uc010ton.1_Missense_Mutation_p.A506T|NFATC4_uc010too.1_Missense_Mutation_p.A506T|NFATC4_uc010alt.2_Missense_Mutation_p.A525T|NFATC4_uc010top.1_Missense_Mutation_p.A525T|NFATC4_uc010toq.1_Missense_Mutation_p.A525T|NFATC4_uc010alu.2_Missense_Mutation_p.A185T|NFATC4_uc010tor.1_Missense_Mutation_p.A493T|NFATC4_uc010tos.1_Missense_Mutation_p.A423T|NFATC4_uc010tot.1_Missense_Mutation_p.A481T|NFATC4_uc010tou.1_Missense_Mutation_p.A423T|NFATC4_uc010tov.1_Missense_Mutation_p.A481T|NFATC4_uc010tow.1_Missense_Mutation_p.A423T|NFATC4_uc010alv.2_Missense_Mutation_p.A481T|NFATC4_uc010tox.1_Missense_Mutation_p.A423T|NFATC4_uc001wpd.2_Missense_Mutation_p.A28T|NFATC4_uc010toy.1_Missense_Mutation_p.A28T|NFATC4_uc010toz.1_Missense_Mutation_p.A28T|NFATC4_uc010tpa.1_5'Flank|NFATC4_uc010tpb.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	493	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CAAGATGGTGGCCACGGCCAG	0.547													15	33					0	0	0.004007	0	0		A	24842494	A	A	24842494	3	1	160	1	0	0	0	0	1	0	0	0	10384	1203	42	2	1684	2	NFATC4	14	24842494	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	36896	24842494	82507046	843	88113											
COCH	1690	broad.mit.edu	37	chr14	31355427	31355427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatgtgtttggccctataagGgagagccccaacaagaactt	13	9	10	9	0	0	2	0	0	0	2	0	3	0	2	3	2	3	1	3	2	6	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:31355427G>T	uc001wqr.2	+	11	1466	c.1386G>T	c.(1384-1386)AGG>AGT	p.R462S	COCH_uc001wqp.2_Missense_Mutation_p.R462S|COCH_uc001wqq.3_Missense_Mutation_p.R462S|uc001wqs.2_RNA|COCH_uc001wqt.1_Missense_Mutation_p.R313S	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	462	VWFA 2.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		GCCCTATAAGGGAGAGCCCCA	0.483													12	162					3.07112e-06	3.22467e-06	0.010729	1	0		T	31355427	T	T	31355427	3	4	160	1	0	0	0	0	1	0	0	0	3659	1223	43	5	1424	5	COCH	14	31355427	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6512933	31355427	75994113	844	88114											
NPAS3	64067	broad.mit.edu	37	chr14	34266683	34266683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caatcctgagtacaaggacaCacccatggacatcgcacagc	14	5	8	14	1	0	1	0	1	0	0	2	3	1	3	2	2	2	2	2	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:34266683C>T	uc001wru.2	+	11	1386	c.1322C>T	c.(1321-1323)ACA>ATA	p.T441I	NPAS3_uc001wrs.2_Missense_Mutation_p.T428I|NPAS3_uc001wrt.2_Missense_Mutation_p.T409I|NPAS3_uc001wrv.2_Missense_Mutation_p.T411I	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	441					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		TACAAGGACACACCCATGGAC	0.527													36	106					0	0	0.004289	0	0		T	34266683	T	T	34266683	3	4	160	1	0	0	0	0	1	0	0	0	10583	478	17	4	1419	4	NPAS3	14	34266683	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2911256	34266683	73082857	845	88115											
KLHDC2	23588	broad.mit.edu	37	chr14	50249176	50249176	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttgtccatcacagagctGtaagtatactaccttcacat	11	13	6	11	0	2	1	2	0	0	1	3	1	3	1	2	0	4	4	2	0	4	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:50249176G>T	uc001wwx.2	+	11	1444	c.1044_splice	c.e11+1	p.A348_splice	SDCCAG1_uc010anj.1_Intron|KLHDC2_uc001wwy.2_Splice_Site_p.A348_splice|KLHDC2_uc010anp.2_Splice_Site	NM_014315	NP_055130	Q9Y2U9	KLDC2_HUMAN	kelch domain containing 2							nucleus	protein binding			ovary(1)	1	all_epithelial(31;0.000959)|Breast(41;0.0117)					TCACAGAGCTGTAAGTATACT	0.368													52	142					1.21353e-23	1.34869e-23	0.01441	1	0		T	50249176	T	T	50249176	5	4	160	1	0	0	0	0	0	0	1	0	8372	1391	48	5	1087	5	KLHDC2	14	50249176	Splice_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08	15982493	50249176	57100364	846	88116											
MAP4K5	11183	broad.mit.edu	37	chr14	50930796	50930796	+	Frame_Shift_Del	DEL	T	-	-																															aagtctttcagcagttggtcTtttttttgggtttttggtta																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:50930796delT	uc001wya.2	-	12	1113	c.793delA	c.(793-795)AGAfs	p.R265fs	MAP4K5_uc001wyb.2_Frame_Shift_Del_p.R265fs|MAP4K5_uc010anv.1_Frame_Shift_Del_p.R265fs	NM_006575	NP_006566	Q9Y4K4	M4K5_HUMAN	mitogen-activated protein kinase kinase kinase	265	Protein kinase.				activation of JUN kinase activity	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity	p.R265fs*8(1)		large_intestine(1)	1	all_epithelial(31;0.000415)|Breast(41;0.0102)					GCAGTTGGTCTTTTTTTTGGG	0.308													3	6	---	---	---	---						.	-	50930796	-	-	50930796	7	5	160	1	0	1	0	1	0	0	0	0	9281	1617	56	0	1831	0	MAP4K5	14	50930796	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	681620	50930796	56418744	847	88117											
TRIM9	114088	broad.mit.edu	37	chr14	51561482	51561482	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccaggtccagatagtcatagTcggagaccccggagcccgcg	9	5	13	14	4	1	2	1	0	0	2	3	4	2	3	5	3	1	0	5	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:51561482T>G	uc001wyx.3	-	1	941	c.176A>C	c.(175-177)GAC>GCC	p.D59A	TRIM9_uc001wyy.2_Missense_Mutation_p.D59A|TRIM9_uc001wyz.3_Missense_Mutation_p.D59A	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	59					proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					ATAGTCATAGTCGGAGACCCC	0.642													5	17					0	0	0.006214	0	0		G	51561482	G	G	51561482	3	3	160	1	0	0	0	0	1	0	0	0	16575	1667	58	5	2046	5	TRIM9	14	51561482	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	630686	51561482	55788058	848	88118											
TXNDC16	57544	broad.mit.edu	37	chr14	52948967	52948967	+	Silent	SNP	A	G	G	1	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	cctttcagtttaactgccacAtcaatataggattgcaaaaa	15	12	5	9	0	2	0	2	0	0	0	2	1	2	1	2	1	3	2	2	1	6	6	rs143047031		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:52948967A>G	uc001wzs.2	-	14	1742	c.1293T>C	c.(1291-1293)GAT>GAC	p.D431D	TXNDC16_uc010tqu.1_Silent_p.D426D|TXNDC16_uc010aoe.2_RNA	NM_020784	NP_065835	Q9P2K2	TXD16_HUMAN	thioredoxin domain containing 16 isoform 1	431	Thioredoxin.				cell redox homeostasis	extracellular region					0	Breast(41;0.0716)					TAACTGCCACATCAATATAGG	0.323													35	99					0	0	0.004289	0	0		G	52948967	G	G	52948967	2	3	160	1	0	0	0	0	0	0	0	1	16821	214	8	3		3	TXNDC16	14	52948967	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1387485	52948967	54400573	849	88119											
MUDENG	55745	broad.mit.edu	37	chr14	57747008	57747008	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctagttcacccttgtgtAacttctcttgactctgcaat	8	17	5	11	0	4	1	1	1	3	0	5	1	4	1	1	0	2	3	1	0	3	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:57747008A>G	uc001xcv.2	+	3	1243	c.816A>G	c.(814-816)GTA>GTG	p.V272V	MUDENG_uc010tri.1_Silent_p.V26V|MUDENG_uc010trj.1_Silent_p.V169V	NM_018229	NP_060699	Q9H0R1	MUDEN_HUMAN	Mu-2 related death-inducing protein	272	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex				ovary(1)	1						ACCCTTGTGTAACTTCTCTTG	0.418													147	359					0	0	0.01441	0	0		G	57747008	G	G	57747008	2	3	160	1	0	0	0	0	0	0	0	1	10001	349	13	3		3	MUDENG	14	57747008	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4798041	57747008	49602532	850	88120											
RTN1	6252	broad.mit.edu	37	chr14	60213141	60213141	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgtgtaacacgatccttcCccatcttttgatgttgttga	8	16	8	9	1	1	2	0	2	1	0	3	4	3	2	3	0	1	3	3	0	1	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:60213141C>T	uc001xen.1	-	2	509	c.300G>A	c.(298-300)GGG>GGA	p.G100G		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	100					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		ACGATCCTTCCCCATCTTTTG	0.468													3	87					0	0	0.004672	0	0		T	60213141	T	T	60213141	2	4	160	1	0	0	0	0	0	0	0	1	13750	610	22	4		4	RTN1	14	60213141	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2466133	60213141	47136399	851	88121											
C14orf135	64430	broad.mit.edu	37	chr14	60582054	60582054	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttagagaaattcaaagcgTatatatcattggaattttcc	15	14	6	6	1	2	1	2	0	0	1	3	3	3	2	1	1	1	1	1	1	7	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:60582054T>C	uc001xer.3	+	3	1052	c.530T>C	c.(529-531)GTA>GCA	p.V177A	C14orf135_uc001xeq.2_Missense_Mutation_p.V177A|C14orf135_uc010apm.2_5'Flank	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	411						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		ATTCAAAGCGTATATATCATT	0.363													5	343					0	0	0.000602	0	0		C	60582054	C	C	60582054	3	2	160	1	0	0	0	0	1	0	0	0	1748	1638	57	3	536	3	C14orf135	14	60582054	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	368913	60582054	46767486	852	88122											
RHOJ	57381	broad.mit.edu	37	chr14	63671636	63671636	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcggctgcaggggcaacGacgagaagaagatgttgaag	12	5	17	7	3	0	4	0	1	0	3	0	6	0	4	0	3	3	5	0	3	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:63671636G>A	uc001xgb.1	+	1	492	c.49G>A	c.(49-51)GAC>AAC	p.D17N		NM_020663	NP_065714	Q9H4E5	RHOJ_HUMAN	ras homolog gene family, member J precursor	17					actin cytoskeleton organization|regulation of cell shape|regulation of small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.00326)|all cancers(60;0.031)|BRCA - Breast invasive adenocarcinoma(234;0.119)		CAGGGGCAACGACGAGAAGAA	0.577													4	21					0	0	0.001984	0	0		A	63671636	A	A	63671636	3	1	160	1	0	0	0	0	1	0	0	0	13366	1058	37	1	51	1	RHOJ	14	63671636	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3089582	63671636	43677904	853	88123											
PPP2R5E	5529	broad.mit.edu	37	chr14	63851161	63851161	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaagaaactgaaaacctaCggattccaatgttcttttga	15	11	8	7	1	1	3	0	2	1	1	2	5	2	5	2	2	3	1	2	2	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:63851161C>T	uc001xgd.1	-	12	1792	c.1202_splice	c.e12+1	p.P401_splice	PPP2R5E_uc010tsf.1_Splice_Site_p.P325_splice|PPP2R5E_uc010tsg.1_Splice_Site_p.P325_splice|PPP2R5E_uc001xge.2_Splice_Site_p.P401_splice|PPP2R5E_uc010tsh.1_Splice_Site_p.P401_splice|PPP2R5E_uc001xgf.1_Splice_Site	NM_006246	NP_006237	Q16537	2A5E_HUMAN	epsilon isoform of regulatory subunit B56,						signal transduction	cytoplasm|intracellular membrane-bounded organelle|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00197)|all cancers(60;0.0153)|BRCA - Breast invasive adenocarcinoma(234;0.128)		TGAAAACCTACGGATTCCAAT	0.299													47	127					0	0	0.01441	0	0		T	63851161	T	T	63851161	5	4	160	1	0	0	0	0	0	0	1	0	12418	550	19	1	212	1	PPP2R5E	14	63851161	Splice_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08	179525	63851161	43498379	854	88124											
MTHFD1	4522	broad.mit.edu	37	chr14	64867549	64867549	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaaaatcaagtcactcagtTgaaggagcaagtacctggtt	15	9	10	7	0	3	1	3	1	0	0	3	3	3	2	1	2	2	4	1	2	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:64867549T>C	uc001xhb.2	+	2	467	c.80T>C	c.(79-81)TTG>TCG	p.L27S	MTHFD1_uc010aqe.2_Missense_Mutation_p.L83S|MTHFD1_uc010aqf.2_Missense_Mutation_p.L83S	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	27	Methylenetetrahydrofolate dehydrogenase and cyclohydrolase.				folic acid metabolic process|folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process	cytosol|mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NADP+) activity|methylenetetrahydrofolate dehydrogenase|protein binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(108;8.7e-12)|all cancers(60;3.29e-11)|BRCA - Breast invasive adenocarcinoma(234;0.0488)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	GTCACTCAGTTGAAGGAGCAA	0.393													20	47					0	0	0.012319	0	0		C	64867549	C	C	64867549	3	2	160	1	0	0	0	0	1	0	0	0	9945	1821	63	3	86	3	MTHFD1	14	64867549	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1016388	64867549	42481991	855	88125											
PLEKHG3	26030	broad.mit.edu	37	chr14	65198835	65198835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagacagtggaggagaaacGgaactggactcaccacatca	16	4	11	10	1	2	2	2	0	0	2	2	6	2	5	1	4	2	0	1	4	3	0	rs138713446	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:65198835G>A	uc001xho.1	+	10	1417	c.1148G>A	c.(1147-1149)CGG>CAG	p.R383Q	PLEKHG3_uc001xhn.1_Missense_Mutation_p.R327Q|PLEKHG3_uc001xhp.2_Missense_Mutation_p.R383Q|PLEKHG3_uc010aqh.1_5'UTR	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	383	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GAGGAGAAACGGAACTGGACT	0.552													17	69					0	0	0.00499	0	0		A	65198835	A	A	65198835	3	1	160	1	0	0	0	0	1	0	0	0	12089	1116	39	1	1006	1	PLEKHG3	14	65198835	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	331286	65198835	42150705	856	88126											
SPTB	6710	broad.mit.edu	37	chr14	65260557	65260557	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagtggctgatgcggtcctgGatgacctgggggtcacaagg	8	8	17	8	1	1	2	1	2	0	0	2	3	2	3	2	6	1	1	2	6	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:65260557G>A	uc001xht.2	-	13	1878	c.1824C>T	c.(1822-1824)ATC>ATT	p.I608I	SPTB_uc001xhr.2_Silent_p.I608I|SPTB_uc001xhs.2_Silent_p.I608I|SPTB_uc001xhu.2_Silent_p.I608I	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	608	Spectrin 4.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TGCGGTCCTGGATGACCTGGG	0.567													21	60					0	0	0.010504	0	0		A	65260557	A	A	65260557	2	1	160	1	0	0	0	0	0	0	0	1	15143	1164	41	4		4	SPTB	14	65260557	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	61722	65260557	42088983	857	88127											
ZFYVE26	23503	broad.mit.edu	37	chr14	68246963	68246963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggaaaacggtacctgtgCttctagaatcatgttcatga	12	11	9	9	1	3	2	2	1	1	1	3	3	3	3	2	2	3	3	2	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:68246963C>T	uc001xka.2	-	23	4808	c.4669G>A	c.(4669-4671)GCA>ACA	p.A1557T	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.A1557T	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1557					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GGTACCTGTGCTTCTAGAATC	0.498													17	41					0	0	0.00499	0	0		T	68246963	T	T	68246963	3	4	160	1	0	0	0	0	1	0	0	0	17693	797	28	2	3030	2	ZFYVE26	14	68246963	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2986406	68246963	39102577	858	88128											
EXD2	55218	broad.mit.edu	37	chr14	69695627	69695627	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tcgcctgcccaagctaatctGtggaggaaaaacactaccaa	14	7	8	12	1	1	0	0	0	1	0	2	2	1	2	3	2	4	1	3	2	6	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:69695627G>A	uc001xkt.2	+	5	712	c.53G>A	c.(52-54)TGT>TAT	p.C18Y	EXD2_uc001xku.2_Translation_Start_Site|EXD2_uc001xkv.2_Missense_Mutation_p.C143Y|EXD2_uc001xkw.2_Missense_Mutation_p.C18Y|EXD2_uc001xkx.2_RNA|EXD2_uc010aqt.2_Missense_Mutation_p.C143Y|EXD2_uc010tte.1_Missense_Mutation_p.C143Y|EXD2_uc001xky.2_Missense_Mutation_p.C18Y	NM_018199	NP_060669	Q9NVH0	EXD2_HUMAN	exonuclease 3'-5' domain containing 2	18					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						AAGCTAATCTGTGGAGGAAAA	0.483													6	84					0	0	0.001168	0	0		A	69695627	A	A	69695627	3	1	160	1	0	0	0	0	1	0	0	0	5306	1377	48	4	55	4	EXD2	14	69695627	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1448664	69695627	37653913	859	88129											
HEATR4	399671	broad.mit.edu	37	chr14	73985743	73985743	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacatgcttcaggaattgcCtgggcactccacttttctgg	7	14	9	11	0	2	0	1	0	1	0	3	1	3	1	2	3	3	2	2	3	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:73985743C>A	uc010tub.1	-	5	1516	c.1194G>T	c.(1192-1194)CAG>CAT	p.Q398H	HEATR4_uc010tua.1_Missense_Mutation_p.Q351H	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		CAGGAATTGCCTGGGCACTCC	0.468													35	118					1.21669e-08	1.29199e-08	0.003271	1	0		A	73985743	A	A	73985743	3	1	160	1	0	0	0	0	1	0	0	0	7046	680	24	5	1942	5	HEATR4	14	73985743	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4290116	73985743	33363797	860	88130											
C14orf115	55237	broad.mit.edu	37	chr14	74824432	74824432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttgctgcccgcttctccGccaagcacttcctgcaggac	6	9	10	16	2	1	0	0	0	1	0	3	1	2	1	4	2	4	5	4	2	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:74824432G>A	uc001xpw.3	+	2	1137	c.946G>A	c.(946-948)GCC>ACC	p.A316T		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	316					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CCGCTTCTCCGCCAAGCACTT	0.637													20	58					0	0	0.012319	0	0		A	74824432	A	A	74824432	3	1	160	1	0	0	0	0	1	0	0	0	1743	1087	38	1	948	1	C14orf115	14	74824432	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	838689	74824432	32525108	861	88131											
LTBP2	4053	broad.mit.edu	37	chr14	74969544	74969544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctgtagtgcaggtcatcgGgcccggggccatactcatag	7	9	14	11	2	2	0	2	0	0	0	3	0	2	0	2	4	3	3	2	4	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:74969544G>A	uc001xqa.2	-	34	5369	c.4982C>T	c.(4981-4983)CCC>CTC	p.P1661L		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1661					protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CAGGTCATCGGGCCCGGGGCC	0.637													25	83					0	0	0.004656	0	0		A	74969544	A	A	74969544	3	1	160	1	0	0	0	0	1	0	0	0	9092	1232	43	4	495	4	LTBP2	14	74969544	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	145112	74969544	32379996	862	88132											
YLPM1	56252	broad.mit.edu	37	chr14	75284986	75284986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgatgcgtctagatattcGttctttgctgcaagatgctg	8	15	10	8	2	2	3	0	1	2	2	3	3	2	3	0	0	4	4	0	0	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:75284986G>A	uc001xqj.3	+	16	6123	c.5999G>A	c.(5998-6000)CGT>CAT	p.R2000H	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.R483H	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1805					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CTAGATATTCGTTCTTTGCTG	0.348													12	21					0	0	0.013537	0	0		A	75284986	A	A	75284986	3	1	160	1	0	0	0	0	1	0	0	0	17512	1145	40	1	6061	1	YLPM1	14	75284986	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	315442	75284986	32064554	863	88133											
RPS6KL1	83694	broad.mit.edu	37	chr14	75388057	75388057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catagtcctcactaacatcgCgctccagggccagccggatc	9	7	9	16	3	1	0	1	0	0	0	5	1	3	1	4	2	2	1	4	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:75388057C>T	uc010tux.1	-	2	716	c.188G>A	c.(187-189)CGC>CAC	p.R63H	RPS6KL1_uc001xqw.2_Missense_Mutation_p.R63H|RPS6KL1_uc010asd.1_RNA|RPS6KL1_uc001xqy.1_Missense_Mutation_p.R63H	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	63						ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		ACTAACATCGCGCTCCAGGGC	0.612													31	70					0	0	0.008361	0	0		T	75388057	T	T	75388057	3	4	160	1	0	0	0	0	1	0	0	0	13684	768	27	1	1477	1	RPS6KL1	14	75388057	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	103071	75388057	31961483	864	88134											
C14orf4	64207	broad.mit.edu	37	chr14	77492010	77492010	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagcagaggggtccgctgTtggccatgggggaatccgga	7	7	18	9	2	0	1	0	0	0	1	2	3	2	3	3	6	2	4	3	6	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:77492010T>C	uc001xsy.2	-	1	3025	c.2126A>G	c.(2125-2127)AAC>AGC	p.N709S		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	709						nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		GGGTCCGCTGTTGGCCATGGG	0.602													8	31					0	0	0.006214	0	0		C	77492010	C	C	77492010	3	2	160	1	0	0	0	0	1	0	0	0	1776	1725	60	3	268	3	C14orf4	14	77492010	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2103953	77492010	29857530	865	88135											
GALC	2581	broad.mit.edu	37	chr14	88448557	88448557	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgtacacaccttaatatAattggcattatatgacctct	13	15	5	8	0	1	1	0	1	1	0	1	1	1	1	2	1	1	3	2	1	6	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:88448557A>G	uc001xvt.2	-	6	1012	c.613T>C	c.(613-615)TAT>CAT	p.Y205H	GALC_uc010tvw.1_5'Flank|GALC_uc010tvx.1_Missense_Mutation_p.Y179H|GALC_uc010tvy.1_Missense_Mutation_p.Y182H|GALC_uc010tvz.1_Missense_Mutation_p.Y149H|GALC_uc001xvu.1_Missense_Mutation_p.Y205H	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	205					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						ACCTTAATATAATTGGCATTA	0.289													18	52					0	0	0.007413	0	0		G	88448557	G	G	88448557	3	3	160	1	0	0	0	0	1	0	0	0	6216	362	13	3	1555	3	GALC	14	88448557	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	10956547	88448557	18900983	866	88136											
KCNK10	54207	broad.mit.edu	37	chr14	88654340	88654340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtctttttggacagaacccGtagccaatctccgatcatac	10	12	7	12	2	3	1	1	0	2	1	4	3	3	2	3	1	3	1	3	1	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:88654340G>A	uc001xwo.2	-	6	1424	c.967C>T	c.(967-969)CGG>TGG	p.R323W	KCNK10_uc001xwm.2_Missense_Mutation_p.R328W|KCNK10_uc001xwn.2_Missense_Mutation_p.R328W	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	323	Cytoplasmic (Potential).				signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity	p.R323Q(1)		ovary(2)|skin(2)|pancreas(1)	5						GACAGAACCCGTAGCCAATCT	0.473													59	145					0	0	0.01441	0	0		A	88654340	A	A	88654340	3	1	160	1	0	0	0	0	1	0	0	0	8075	1144	40	1	657	1	KCNK10	14	88654340	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	205783	88654340	18695200	867	88137											
TTC7B	145567	broad.mit.edu	37	chr14	91282553	91282553	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggccgacagctgcttgacGagctcagggatccgctccca	7	8	12	14	3	1	1	1	1	0	0	3	4	3	2	3	2	3	4	3	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:91282553G>A	uc001xyp.2	-	1	209	c.87C>T	c.(85-87)CTC>CTT	p.L29L		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	29							binding			ovary(2)	2		Melanoma(154;0.222)				GCTGCTTGACGAGCTCAGGGA	0.483													3	11					0	0	0.004672	0	0		A	91282553	A	A	91282553	2	1	160	1	0	0	0	0	0	0	0	1	16739	1045	37	1		1	TTC7B	14	91282553	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2628213	91282553	16066987	868	88138											
CCDC88C	440193	broad.mit.edu	37	chr14	91875074	91875074	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaggttcacatcattgttgaCgtgcttattgatgcgttgat	9	16	10	6	2	2	3	2	3	0	0	2	3	2	3	0	1	2	4	0	1	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:91875074C>T	uc010aty.2	-	3	298	c.199G>A	c.(199-201)GTC>ATC	p.V67I	CCDC88C_uc010twk.1_Missense_Mutation_p.V31I|CCDC88C_uc001xzl.3_Missense_Mutation_p.V67I	NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	67					microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				TCATTGTTGACGTGCTTATTG	0.468													16	57					0	0	0.004007	0	0		T	91875074	T	T	91875074	3	4	160	1	0	0	0	0	1	0	0	0	2868	536	19	1	5999	1	CCDC88C	14	91875074	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	592521	91875074	15474466	869	88139											
SERPINA4	5267	broad.mit.edu	37	chr14	95033560	95033560	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagagatgctaatgaggtgGaacaacttgttgcggaagag	13	8	14	6	1	0	3	0	1	0	2	0	6	0	5	1	3	4	2	1	3	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:95033560G>A	uc001ydk.2	+	3	969	c.903G>A	c.(901-903)TGG>TGA	p.W301*	SERPINA4_uc010avd.2_Nonsense_Mutation_p.W338*|SERPINA4_uc001ydl.2_Nonsense_Mutation_p.W301*	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	301					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		TAATGAGGTGGAACAACTTGT	0.433													20	82					0	0	0.010504	0	0		A	95033560	A	A	95033560	4	1	160	1	0	0	0	0	0	1	0	0	14116	1183	41	4	909	4	SERPINA4	14	95033560	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3158486	95033560	12315980	870	88140											
DICER1	23405	broad.mit.edu	37	chr14	95557666	95557666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcctttggaacttcaatatCctcttctttctcttcatcct	6	18	4	13	0	5	0	2	0	3	0	8	1	7	1	3	2	1	0	3	2	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:95557666C>T	uc001ydw.2	-	26	5583	c.5401G>A	c.(5401-5403)GAT>AAT	p.D1801N	DICER1_uc010avh.1_Missense_Mutation_p.D699N|DICER1_uc001ydv.2_Missense_Mutation_p.D1791N|DICER1_uc001ydx.2_Missense_Mutation_p.D1801N	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1801	RNase III 2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ACTTCAATATCCTCTTCTTTC	0.453			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				109	256					0	0	0.01441	0	0		T	95557666	T	T	95557666	3	4	160	1	0	0	0	0	1	0	0	0	4527	855	30	4	379	4	DICER1	14	95557666	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	524106	95557666	11791874	871	88141											
HSP90AA1	3320	broad.mit.edu	37	chr14	102551255	102551260	+	In_Frame_Del	DEL	TTCTTT	-	-																															ttgtcttccgactctttctcTtctttttctttttcttcttc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr14:102551255_102551260delTTCTTT	uc001yku.3	-	5	929_934	c.739_744delAAAGAA	c.(739-744)AAAGAAdel	p.KE247del	HSP90AA1_uc001ykv.3_In_Frame_Del_p.KE369del|HSP90AA1_uc001ykw.1_In_Frame_Del_p.KE68del|HSP90AA1_uc001ykx.1_In_Frame_Del_p.KE236del	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	247_248					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	ACtctttctcttctttttctttttct	0.204													13	30	---	---	---	---						.	-	102551260	-	-	102551255	7	5	160	1	0	1	0	1	0	0	0	0	7417	1606	56	0	1482	0	HSP90AA1	14	102551255	In_Frame_Del	DEL	TTCTTT	TCGA-CG-5733-01A-11D-1600-08	6993589	102551255	4798285	872	88142											
MAGEL2	54551	broad.mit.edu	37	chr15	23889184	23889184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccgtgggcactgtcacCggtgtcaggttcatcctcat	5	10	14	12	2	4	0	4	0	0	0	5	0	5	0	3	5	0	2	3	5	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:23889184C>T	uc001ywj.3	-	1	1992	c.1897G>A	c.(1897-1899)GGT>AGT	p.G633S		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		GCACTGTCACCGGTGTCAGGT	0.582													18	35					0	0	0.007413	0	0		T	23889184	T	T	23889184	3	4	160	1	0	0	0	0	1	0	0	0	9207	652	23	1	47	1	MAGEL2	15	23889184	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		23889184	78642208	873	88143											
HERC2	8924	broad.mit.edu	37	chr15	28463670	28463670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccgctttccactaacattCgcagcagtccgcataaagtc	10	11	6	14	3	0	0	0	0	0	0	5	0	3	0	3	0	2	4	3	0	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:28463670C>T	uc001zbj.2	-	38	6099	c.5993G>A	c.(5992-5994)CGA>CAA	p.R1998Q		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1998					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CACTAACATTCGCAGCAGTCC	0.537													6	141					0	0	0.006214	0	0		T	28463670	T	T	28463670	3	4	160	1	0	0	0	0	1	0	0	0	7074	884	31	1	8735	1	HERC2	15	28463670	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4574486	28463670	74067722	874	88144											
HERC2	8924	broad.mit.edu	37	chr15	28463702	28463702	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cataaagtcttggtggcttcGctctgcatgatctcagcatg	8	13	10	10	1	3	1	1	1	3	0	5	1	3	1	0	2	2	4	0	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:28463702G>A	uc001zbj.2	-	38	6067	c.5961C>T	c.(5959-5961)AGC>AGT	p.S1987S		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1987					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TGGTGGCTTCGCTCTGCATGA	0.488													7	177					0	0	0.006214	0	0		A	28463702	A	A	28463702	2	1	160	1	0	0	0	0	0	0	0	1	7074	1078	38	1		1	HERC2	15	28463702	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	32	28463702	74067690	875	88145											
OTUD7A	161725	broad.mit.edu	37	chr15	31862339	31862339	+	Silent	SNP	T	G	G	0	1	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	aacacatgtggcagattggcTgtgtgcacctggcggagctg	8	9	15	9	1	0	1	0	0	0	1	0	2	0	2	1	4	3	4	1	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:31862339T>G	uc001zfq.2	-	2	306	c.213A>C	c.(211-213)ACA>ACC	p.T71T	OTUD7A_uc001zfr.2_Silent_p.T71T|OTUD7A_uc001zfs.1_RNA|OTUD7A_uc010baa.1_Silent_p.T71T	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	71						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		GCAGATTGGCTGTGTGCACCT	0.597													21	42					0	0	0.009535	0	0		G	31862339	G	G	31862339	2	3	160	1	0	0	0	0	0	0	0	1	11337	1567	55	5		5	OTUD7A	15	31862339	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	3398637	31862339	70669053	876	88146											
RYR3	6263	broad.mit.edu	37	chr15	33938602	33938602	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccgtgtctcaaggtgacGcataagacatttggcacaca	11	9	9	12	2	1	2	1	1	1	1	3	2	2	2	2	2	0	2	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:33938602G>A	uc001zhi.2	+	29	3886	c.3816G>A	c.(3814-3816)ACG>ACA	p.T1272T	RYR3_uc010bar.2_Silent_p.T1272T	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1272	4 X approximate repeats.|B30.2/SPRY 3.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TCAAGGTGACGCATAAGACAT	0.537													94	255					0	0	0.01441	0	0		A	33938602	A	A	33938602	2	1	160	1	0	0	0	0	0	0	0	1	13795	1074	38	1		1	RYR3	15	33938602	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2076263	33938602	68592790	877	88147											
RYR3	6263	broad.mit.edu	37	chr15	34032146	34032146	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgttggagaaacagatCtcagtggatgcggatggcaa	12	7	14	8	2	1	2	1	0	1	2	2	5	1	4	1	4	2	2	1	4	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:34032146C>A	uc001zhi.2	+	51	7840	c.7770C>A	c.(7768-7770)ATC>ATA	p.I2590I	RYR3_uc010bar.2_Silent_p.I2590I	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2590	3.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AGAAACAGATCTCAGTGGATG	0.468													12	30					1.05317e-09	1.126e-09	0.00245	1	0		A	34032146	A	A	34032146	2	1	160	1	0	0	0	0	0	0	0	1	13795	903	32	5		5	RYR3	15	34032146	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	93544	34032146	68499246	878	88148											
RYR3	6263	broad.mit.edu	37	chr15	34102805	34102805	+	Silent	SNP	A	G	G	1	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	ggtttgaatatgtgtactccAggcgaccaggagctgatctc	9	11	12	9	1	1	2	0	2	1	0	3	4	2	3	2	3	2	3	2	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:34102805A>G	uc001zhi.2	+	71	10222	c.10152A>G	c.(10150-10152)CCA>CCG	p.P3384P	RYR3_uc010bar.2_Silent_p.P3379P	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3384					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TGTGTACTCCAGGCGACCAGG	0.532													14	50					0	0	0.003163	0	0		G	34102805	G	G	34102805	2	3	160	1	0	0	0	0	0	0	0	1	13795	175	7	3		3	RYR3	15	34102805	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	70659	34102805	68428587	879	88149											
GJD2	57369	broad.mit.edu	37	chr15	35044711	35044711	+	Missense_Mutation	SNP	T	C	C	0	1	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	agagtcactggactgagtccTgccaaaattgggaacactga	13	8	11	9	0	1	3	1	2	0	1	2	5	2	5	2	2	2	0	2	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:35044711T>C	uc001zis.1	-	2	934	c.934A>G	c.(934-936)AGG>GGG	p.R312G	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	312	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		GACTGAGTCCTGCCAAAATTG	0.542													6	61					0	0	0.001984	0	0		C	35044711	C	C	35044711	3	2	160	1	0	0	0	0	1	0	0	0	6432	1579	55	3	35	3	GJD2	15	35044711	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	941906	35044711	67486681	880	88150											
DISP2	85455	broad.mit.edu	37	chr15	40661129	40661129	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggagctgggcatggcacCtccaggcctccgccgtggtt	5	7	15	14	3	0	0	0	0	0	0	2	1	2	1	5	5	2	4	5	5	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:40661129C>A	uc001zlk.1	+	8	2905	c.2816C>A	c.(2815-2817)CCT>CAT	p.P939H		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	939					smoothened signaling pathway	integral to membrane				ovary(2)	2		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)		GGCATGGCACCTCCAGGCCTC	0.602													9	71					7.48243e-07	7.88598e-07	0.006214	1	0		A	40661129	A	A	40661129	3	1	160	1	0	0	0	0	1	0	0	0	4546	681	24	5	2846	5	DISP2	15	40661129	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5616418	40661129	61870263	881	88151											
SPTBN5	51332	broad.mit.edu	37	chr15	42185101	42185101	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggggcccaccttggccctGaggaaggccagagctcggct	6	6	15	14	1	0	2	0	1	0	1	1	3	0	3	4	6	1	2	4	6	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:42185101G>A	uc001zos.2	-	3	603	c.270C>T	c.(268-270)CTC>CTT	p.L90L	uc010bcp.1_RNA	NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	125	Actin-binding.|CH 1.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		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)		CCTTGGCCCTGAGGAAGGCCA	0.687													4	42					0	0	0.000602	0	0		A	42185101	A	A	42185101	2	1	160	1	0	0	0	0	0	0	0	1	15147	1277	45	4		4	SPTBN5	15	42185101	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1523972	42185101	60346291	882	88152											
CAPN3	825	broad.mit.edu	37	chr15	42646646	42646646	+	Frame_Shift_Del	DEL	A	-	-																															aaacacaaactacccaacagAaaaatgtaagtataatcttt																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:42646646delA	uc010udf.1	+	1	109	c.43delA	c.(43-45)AAAfs	p.K15fs	CAPN3_uc001zpk.1_5'UTR|CAPN3_uc001zpl.1_Frame_Shift_Del_p.K15fs|CAPN3_uc010udg.1_Frame_Shift_Del_p.K15fs	NM_212465	NP_997630	P20807	CAN3_HUMAN	calpain 3 isoform f	Error:Variant_position_missing_in_P20807_after_alignment					muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		TACCCAACAGAAAAATGTAAG	0.249													29	45	---	---	---	---						.	-	42646646	-	-	42646646	7	5	160	1	0	1	0	1	0	0	0	0	2631	247	9	0	45	0	CAPN3	15	42646646	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	461545	42646646	59884746	883	88153											
DTWD1	56986	broad.mit.edu	37	chr15	49917367	49917367	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctttggtttgaatgaagaatGtctctcaatccacctatatt	11	16	6	8	0	2	3	1	2	1	1	4	3	3	3	2	1	0	1	2	1	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:49917367G>A	uc001zxq.2	+	3	280	c.3G>A	c.(1-3)ATG>ATA	p.M1I	DTWD1_uc001zxp.3_RNA|DTWD1_uc001zxs.2_Missense_Mutation_p.M1I|DTWD1_uc001zxr.2_5'UTR|DTWD1_uc001zxo.2_Missense_Mutation_p.M1I	NM_020234	NP_064619	Q8N5C7	DTWD1_HUMAN	DTW domain containing 1	1											0		all_lung(180;0.0384)		all cancers(107;3.27e-08)|GBM - Glioblastoma multiforme(94;7.6e-05)		AATGAAGAATGTCTCTCAATC	0.313													18	44					0	0	0.007413	0	0		A	49917367	A	A	49917367	3	1	160	1	0	0	0	0	1	0	0	0	4797	1377	48	4	5	4	DTWD1	15	49917367	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7270721	49917367	52614025	884	88154											
TRPM7	54822	broad.mit.edu	37	chr15	50931674	50931674	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactccccatggagctattcCgatagtgcaaatctttcgag	10	11	8	12	2	1	0	0	0	1	0	4	3	3	1	3	1	2	2	3	1	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:50931674C>T	uc001zyt.3	-	6	871	c.607G>A	c.(607-609)GGA>AGA	p.G203R	TRPM7_uc010bew.1_Missense_Mutation_p.G203R	NM_017672	NP_060142	Q96QT4	TRPM7_HUMAN	transient receptor potential cation channel,	203	Cytoplasmic (Potential).				cell death	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein serine/threonine kinase activity			ovary(4)|stomach(3)|breast(1)|central_nervous_system(1)|skin(1)	10				all cancers(107;0.000819)|GBM - Glioblastoma multiforme(94;0.0045)		GGAGCTATTCCGATAGTGCAA	0.328													44	118					0	0	0.01441	0	0		T	50931674	T	T	50931674	3	4	160	1	0	0	0	0	1	0	0	0	16617	661	23	1	5126	1	TRPM7	15	50931674	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1014307	50931674	51599718	885	88155											
MYO5A	4644	broad.mit.edu	37	chr15	52611494	52611494	+	Missense_Mutation	SNP	A	G	G	1	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	ttctcaaccctgtgggcttcAccccagacacgccctgaatc	8	9	7	17	1	2	2	2	1	1	1	4	2	2	2	4	1	1	1	4	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:52611494A>G	uc002aby.2	-	38	5166	c.4922T>C	c.(4921-4923)GTG>GCG	p.V1641A	MYO5A_uc002abx.3_Missense_Mutation_p.V1614A|MYO5A_uc010ugd.1_Missense_Mutation_p.V363A	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	1641	Dilute.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TGTGGGCTTCACCCCAGACAC	0.532													36	121					0	0	0.004289	0	0		G	52611494	G	G	52611494	3	3	160	1	0	0	0	0	1	0	0	0	10096	159	6	3	661	3	MYO5A	15	52611494	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1679820	52611494	49919898	886	88156											
FBXL22	283807	broad.mit.edu	37	chr15	63893593	63893593	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacctcggtggggaggacCtgaccactcggagttcgccg	7	7	14	13	4	1	1	1	1	0	0	4	4	1	4	4	5	0	1	4	5	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:63893593C>A	uc002amn.2	+	2	448	c.434C>A	c.(433-435)CCT>CAT	p.P145H	uc002amj.2_5'Flank|uc002amk.2_5'Flank|uc002aml.2_5'Flank	NM_203373	NP_976307	Q6P050	FXL22_HUMAN	F-box and leucine-rich repeat protein 22	145											0						TGGGGAGGACCTGACCACTCG	0.726													12	25					0.000151284	0.000156628	0.001855	1	0		A	63893593	A	A	63893593	3	1	160	1	0	0	0	0	1	0	0	0	5733	681	24	5	440	5	FBXL22	15	63893593	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	11282099	63893593	38637799	887	88157											
IQCH	64799	broad.mit.edu	37	chr15	67768110	67768110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcactggttttccactatgTttttctccagatctgtaggg	6	17	8	10	0	3	1	1	0	2	1	5	1	4	1	2	2	0	3	2	2	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:67768110T>C	uc002aqo.1	+	18	2800	c.2753T>C	c.(2752-2754)GTT>GCT	p.V918A	IQCH_uc002aqq.1_Missense_Mutation_p.V575A|IQCH_uc002aqp.1_Missense_Mutation_p.V579A|uc002aqr.1_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	918										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		TTCCACTATGTTTTTCTCCAG	0.502													3	113					0	0	0.009096	0	0		C	67768110	C	C	67768110	3	2	160	1	0	0	0	0	1	0	0	0	7827	1725	60	3	2951	3	IQCH	15	67768110	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	3874517	67768110	34763282	888	88158											
KIF23	9493	broad.mit.edu	37	chr15	69737166	69737166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaacgcaccaccaattcGtctccgacacagacgatcac	13	6	6	16	4	3	2	2	0	1	2	5	4	3	2	3	0	1	1	3	0	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:69737166G>A	uc002asb.2	+	19	2534	c.2417G>A	c.(2416-2418)CGT>CAT	p.R806H	KIF23_uc002asc.2_Missense_Mutation_p.R702H|KIF23_uc010bii.2_Intron|KIF23_uc010ukc.1_Missense_Mutation_p.R519H	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	806					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						CCACCAATTCGTCTCCGACAC	0.463													34	104					0	0	0.013726	0	0		A	69737166	A	A	69737166	3	1	160	1	0	0	0	0	1	0	0	0	8307	1145	40	1	2491	1	KIF23	15	69737166	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1969056	69737166	32794226	889	88159											
THSD4	79875	broad.mit.edu	37	chr15	71952908	71952908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttaggctccgacaaagtcGtggacaaatgtggggtgtgt	10	10	14	7	2	0	0	0	0	0	0	2	2	1	1	1	4	0	1	1	4	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:71952908G>A	uc002atb.1	+	7	1271	c.1192G>A	c.(1192-1194)GTG>ATG	p.V398M	THSD4_uc002atd.1_Missense_Mutation_p.V72M|THSD4_uc010ukg.1_Missense_Mutation_p.V38M|THSD4_uc002ate.2_Missense_Mutation_p.V38M	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	398						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						CGACAAAGTCGTGGACAAATG	0.517													88	195					0	0	0.01441	0	0		A	71952908	A	A	71952908	3	1	160	1	0	0	0	0	1	0	0	0	15903	1145	40	1	1218	1	THSD4	15	71952908	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2215742	71952908	30578484	890	88160											
STOML1	9399	broad.mit.edu	37	chr15	74276451	74276451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggatgccatcaggcacccCgtgtcccactcttcctcgtc	6	9	9	17	2	2	0	1	0	1	0	6	1	4	1	5	2	1	1	5	2	0	1	rs141171144	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:74276451C>T	uc002awe.2	-	7	1095	c.1024G>A	c.(1024-1026)GGG>AGG	p.G342R	STOML1_uc002awf.2_Missense_Mutation_p.G341R|STOML1_uc010bje.2_Missense_Mutation_p.G271R|STOML1_uc010uld.1_Missense_Mutation_p.G299R|STOML1_uc002awh.2_Missense_Mutation_p.G292R|STOML1_uc002awg.2_Missense_Mutation_p.G291R|STOML1_uc002awi.2_Missense_Mutation_p.G254R	NM_004809	NP_004800	Q9UBI4	STML1_HUMAN	stomatin (EPB72)-like 1	342	Cytoplasmic (Potential).|SCP2.					integral to membrane	sterol binding			skin(1)	1						TCAGGCACCCCGTGTCCCACT	0.622													15	42					0	0	0.00245	0	0		T	74276451	T	T	74276451	3	4	160	1	0	0	0	0	1	0	0	0	15338	652	23	1	176	1	STOML1	15	74276451	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2323543	74276451	28254941	891	88161											
CYP11A1	1583	broad.mit.edu	37	chr15	74630343	74630343	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgcttcctggttaaagggCcagaaggtgaaggagatggg	10	9	17	5	0	0	3	0	1	0	2	1	4	1	3	2	5	1	3	2	5	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:74630343C>A	uc002axt.2	-	9	1691	c.1536G>T	c.(1534-1536)TGG>TGT	p.W512C	CYP11A1_uc002axs.2_Missense_Mutation_p.W354C|CYP11A1_uc010bjm.1_Missense_Mutation_p.W354C|CYP11A1_uc010bjn.1_RNA|CYP11A1_uc010bjo.1_Missense_Mutation_p.W430C	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	512					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	GGTTAAAGGGCCAGAAGGTGA	0.552													40	87					6.4771e-29	7.2558e-29	0.010771	1	0		A	74630343	A	A	74630343	3	1	160	1	0	0	0	0	1	0	0	0	4147	740	26	5	33	5	CYP11A1	15	74630343	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	353892	74630343	27901049	892	88162											
PTPN9	5780	broad.mit.edu	37	chr15	75819488	75819488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggaacaattctatggcacGgagcacatcaaacttccttg	12	10	9	10	1	2	0	1	0	1	0	3	2	3	2	1	3	3	2	1	3	4	4	rs114183309	by1000genomes	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:75819488G>A	uc002bal.2	-	2	686	c.178C>T	c.(178-180)CGT>TGT	p.R60C		NM_002833	NP_002824	P43378	PTN9_HUMAN	protein tyrosine phosphatase, non-receptor type	60						cytoplasmic part	non-membrane spanning protein tyrosine phosphatase activity|protein binding			lung(1)|skin(1)	2						TCTATGGCACGGAGCACATCA	0.493													35	87					0	0	0.003271	0	0		A	75819488	A	A	75819488	3	1	160	1	0	0	0	0	1	0	0	0	12819	1116	39	1	1651	1	PTPN9	15	75819488	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1189145	75819488	26711904	893	88163											
AP3B2	8120	broad.mit.edu	37	chr15	83348969	83348969	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacgttctggagcacaacGtactgcacctcactgcggag	9	7	11	14	3	2	0	1	0	1	0	2	2	2	2	2	2	5	4	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:83348969G>A	uc010uoh.1	-	9	1245	c.1068C>T	c.(1066-1068)TAC>TAT	p.Y356Y	AP3B2_uc010uoi.1_Silent_p.Y356Y|AP3B2_uc010uoj.1_Silent_p.Y324Y|AP3B2_uc010uog.1_Translation_Start_Site	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	356					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			GGAGCACAACGTACTGCACCT	0.677													5	15					0	0	0.00308	0	0		A	83348969	A	A	83348969	2	1	160	1	0	0	0	0	0	0	0	1	745	1140	40	1		1	AP3B2	15	83348969	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7529481	83348969	19182423	894	88164											
ZSCAN2	54993	broad.mit.edu	37	chr15	85164613	85164613	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctacaaatgtaccgactgtgGgcagaggttcagccagagtt	11	9	12	9	1	1	2	1	0	0	2	1	3	1	2	2	2	3	4	2	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:85164613G>T	uc002bkr.2	+	3	1413	c.1187G>T	c.(1186-1188)GGG>GTG	p.G396V	ZSCAN2_uc010bmz.1_Missense_Mutation_p.G394V|ZSCAN2_uc010bna.2_Missense_Mutation_p.G246V|ZSCAN2_uc010uox.1_Intron|ZSCAN2_uc010uoy.1_Intron|ZSCAN2_uc010uoz.1_Intron	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	396	C2H2-type 7.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		ACCGACTGTGGGCAGAGGTTC	0.512													5	130					3.59834e-05	3.74472e-05	0.001168	1	0		T	85164613	T	T	85164613	3	4	160	1	0	0	0	0	1	0	0	0	18256	1232	43	5	1283	5	ZSCAN2	15	85164613	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1815644	85164613	17366779	895	88165											
IGF1R	3480	broad.mit.edu	37	chr15	99486214	99486214	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaaggagggaaagggctgCtgcccgtgcgctggatgtct	8	7	18	8	2	1	0	0	0	1	0	1	4	1	4	1	5	3	3	1	5	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr15:99486214C>T	uc002bul.2	+	19	3570	c.3520C>T	c.(3520-3522)CTG>TTG	p.L1174L	IGF1R_uc010bon.2_Silent_p.L1173L	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1174	Protein kinase.|Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GAAAGGGCTGCTGCCCGTGCG	0.532													67	115					0	0	0.01441	0	0		T	99486214	T	T	99486214	2	4	160	1	0	0	0	0	0	0	0	1	7587	796	28	2		2	IGF1R	15	99486214	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	14321601	99486214	3045178	896	88166											
CRAMP1L	57585	broad.mit.edu	37	chr16	1709993	1709993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtcagctctcgcagcccccGctgccctcggaaccaggcct	5	6	10	20	4	2	0	1	0	1	0	4	1	2	1	5	2	4	3	5	2	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:1709993G>A	uc010uvh.1	+	10	2342	c.2342G>A	c.(2341-2343)CGC>CAC	p.R781H	CRAMP1L_uc002cmf.2_RNA	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	781						nucleus	DNA binding				0						CGCAGCCCCCGCTGCCCTCGG	0.657													8	30					0	0	0.004482	0	0		A	1709993	A	A	1709993	3	1	160	1	0	0	0	0	1	0	0	0	3849	1087	38	1	2380	1	CRAMP1L	16	1709993	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08		1709993	88644760	897	88167											
TRAF7	84231	broad.mit.edu	37	chr16	2215906	2215906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaacgaccttcggaccCgccttttcagccgtcaccac	9	8	8	16	4	2	0	2	0	0	0	3	3	2	2	5	2	2	0	5	2	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:2215906C>T	uc002cow.2	+	3	207	c.108C>T	c.(106-108)CCC>CCT	p.P36P		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	36					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						CCTTCGGACCCGCCTTTTCAG	0.607													18	46					0	0	0.012319	0	0		T	2215906	T	T	2215906	2	4	160	1	0	0	0	0	0	0	0	1	16472	639	23	1		1	TRAF7	16	2215906	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	505913	2215906	88138847	898	88168											
TCEB2	6923	broad.mit.edu	37	chr16	2822060	2822060	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcacatcgggcagctctggCgggctggaaaacggctcgat	9	7	14	11	4	2	0	1	0	1	0	4	2	2	1	0	5	2	4	0	5	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:2822060C>T	uc002crn.2	-	4	345	c.288G>A	c.(286-288)CCG>CCA	p.P96P	TCEB2_uc002crm.2_Silent_p.P96P	NM_007108	NP_009039	Q15370	ELOB_HUMAN	elongin B isoform a	96					positive regulation of viral transcription|protein complex assembly|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|nucleoplasm	protein binding				0						GCAGCTCTGGCGGGCTGGAAA	0.607													3	39					0	0	0.004672	0	0		T	2822060	T	T	2822060	2	4	160	1	0	0	0	0	0	0	0	1	15705	755	27	1		1	TCEB2	16	2822060	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	606154	2822060	87532693	899	88169											
CREBBP	1387	broad.mit.edu	37	chr16	3789629	3789629	+	Frame_Shift_Del	DEL	A	-	-																															tattcttggacgtgcattccAaaaaagcagacatccacgcc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:3789629delA	uc002cvv.2	-	25	4434	c.4230delT	c.(4228-4230)TTTfs	p.F1410fs	CREBBP_uc002cvw.2_Frame_Shift_Del_p.F1372fs	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1410	Cys/His-rich.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding	p.F1410fs*49(1)		haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CGTGCATTCCAAAAAAGCAGA	0.488			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				28	52	---	---	---	---						.	-	3789629	-	-	3789629	7	5	160	1	0	1	0	1	0	0	0	0	3864	127	5	0	3126	0	CREBBP	16	3789629	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	967569	3789629	86565124	900	88170											
GLYR1	84656	broad.mit.edu	37	chr16	4862174	4862174	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccagccgctaagatcaccaAcatcccgtcattagacagct	12	8	6	15	2	2	2	2	0	0	2	4	2	4	2	4	0	3	2	4	0	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:4862174A>G	uc002cxx.3	-	13	1232	c.1195T>C	c.(1195-1197)TTG>CTG	p.L399L	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Silent_p.L313L|GLYR1_uc002cya.2_Silent_p.L393L|GLYR1_uc010uxv.1_Silent_p.L318L	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	399					pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						AAGATCACCAACATCCCGTCA	0.562													7	37					0	0	0.00308	0	0		G	4862174	G	G	4862174	2	3	160	1	0	0	0	0	0	0	0	1	6498	40	2	3		3	GLYR1	16	4862174	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1072545	4862174	85492579	901	88171											
TXNDC11	51061	broad.mit.edu	37	chr16	11785525	11785525	+	Silent	SNP	T	C	C	0	1	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	ctgcttatggtcctgcaacaTgcagtgtagtagctgaaggg	9	11	13	8	0	0	1	0	1	0	0	1	1	1	1	1	2	5	6	1	2	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:11785525T>C	uc010buu.1	-	9	1664	c.1602A>G	c.(1600-1602)GCA>GCG	p.A534A	TXNDC11_uc002dbg.1_Silent_p.A507A	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	534					cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						TCCTGCAACATGCAGTGTAGT	0.448													69	164					0	0	0.01441	0	0		C	11785525	C	C	11785525	2	2	160	1	0	0	0	0	0	0	0	1	16818	1451	51	3		3	TXNDC11	16	11785525	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	6923351	11785525	78569228	902	88172											
GSPT1	2935	broad.mit.edu	37	chr16	11979123	11979123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatccagatatggaataaacGgtaatccactgagaacataa	18	9	7	7	1	0	2	0	1	0	2	2	4	2	3	2	2	2	1	2	2	8	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:11979123G>A	uc002dbr.2	-	8	875	c.848C>T	c.(847-849)CCG>CTG	p.P283L	GSPT1_uc002dbu.2_Missense_Mutation_p.P420L|GSPT1_uc002dbt.2_Missense_Mutation_p.P421L|GSPT1_uc010bux.2_Missense_Mutation_p.P283L	NM_001130007	NP_001123479	P15170	ERF3A_HUMAN	G1 to S phase transition 1 isoform 3	283					G1/S transition of mitotic cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation	intracellular	GTP binding|GTPase activity|protein binding|translation release factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						TGGAATAAACGGTAATCCACT	0.328													16	38					0	0	0.004007	0	0		A	11979123	A	A	11979123	3	1	160	1	0	0	0	0	1	0	0	0	6842	1116	39	1	675	1	GSPT1	16	11979123	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	193598	11979123	78375630	903	88173											
TMC7	79905	broad.mit.edu	37	chr16	19063046	19063046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagaccctcccccaggccGttcagagcatccaattctaa	10	8	7	16	1	2	2	1	0	1	2	4	2	4	2	5	1	2	3	5	1	2	3	rs150607973		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:19063046G>A	uc002dfq.2	+	13	1909	c.1779G>A	c.(1777-1779)CCG>CCA	p.P593P	TMC7_uc002dfp.2_Silent_p.P593P|TMC7_uc010vap.1_Silent_p.P483P	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	593	Cytoplasmic (Potential).					integral to membrane				skin(2)|ovary(1)	3						CCCCCAGGCCGTTCAGAGCAT	0.388													115	246					0	0	0.01441	0	0		A	19063046	A	A	19063046	2	1	160	1	0	0	0	0	0	0	0	1	16015	1132	40	1		1	TMC7	16	19063046	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7083923	19063046	71291707	904	88174											
ACSM2A	123876	broad.mit.edu	37	chr16	20471449	20471449	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgaatatgcattggctgCgaaaagttcagggactttgc	10	11	12	8	1	1	1	1	1	0	0	1	3	1	2	1	2	3	3	1	2	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:20471449C>T	uc010bwe.2	+	3	252	c.13C>T	c.(13-15)CGA>TGA	p.R5*	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Nonsense_Mutation_p.R5*|ACSM2A_uc002dhg.3_Nonsense_Mutation_p.R5*|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	5					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GCATTGGCTGCGAAAAGTTCA	0.488													23	36					0	0	0.00632	0	0		T	20471449	T	T	20471449	4	4	160	1	0	0	0	0	0	1	0	0	183	760	27	1	15	1	ACSM2A	16	20471449	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1408403	20471449	69883304	905	88175											
DNAH3	55567	broad.mit.edu	37	chr16	20994175	20994175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgaagggaacatccgcaggCggttcctgaaggcatcccct	9	6	13	13	3	0	1	0	1	0	0	3	3	3	2	4	4	1	3	4	4	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:20994175C>T	uc010vbe.1	-	49	7727	c.7727G>A	c.(7726-7728)CGC>CAC	p.R2576H	DNAH3_uc010vbd.1_Missense_Mutation_p.R11H	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2576	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CATCCGCAGGCGGTTCCTGAA	0.507													33	86					0	0	0.00623	0	0		T	20994175	T	T	20994175	3	4	160	1	0	0	0	0	1	0	0	0	4609	768	27	1	4678	1	DNAH3	16	20994175	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	522726	20994175	69360578	906	88176											
TNRC6A	27327	broad.mit.edu	37	chr16	24802952	24802952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catccccagaatctatacgtCgcaaaatggagattgatgat	14	10	8	9	2	1	4	0	2	1	2	3	5	2	4	2	1	1	1	2	1	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:24802952C>T	uc002dmm.2	+	6	3103	c.2989C>T	c.(2989-2991)CGC>TGC	p.R997C	TNRC6A_uc010bxs.2_Missense_Mutation_p.R744C|TNRC6A_uc010vcc.1_Missense_Mutation_p.R744C|TNRC6A_uc002dmn.2_Missense_Mutation_p.R744C|TNRC6A_uc002dmo.2_Missense_Mutation_p.R744C	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	997	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		ATCTATACGTCGCAAAATGGA	0.483													24	77					0	0	0.00278	0	0		T	24802952	T	T	24802952	3	4	160	1	0	0	0	0	1	0	0	0	16365	884	31	1	3011	1	TNRC6A	16	24802952	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3808777	24802952	65551801	907	88177											
AQP8	343	broad.mit.edu	37	chr16	25228611	25228611	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctggtacgaacggtttgtGcagccatgtctggtcgaact	7	12	12	10	3	1	0	0	0	1	0	3	2	2	0	2	3	5	3	2	3	3	2	rs138426074		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:25228611G>A	uc002doc.2	+	2	187	c.105G>A	c.(103-105)GTG>GTA	p.V35V		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	35	Cytoplasmic (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		AACGGTTTGTGCAGCCATGTC	0.592													22	260					0	0	0.00278	0	0		A	25228611	A	A	25228611	2	1	160	1	0	0	0	0	0	0	0	1	832	1306	46	2		2	AQP8	16	25228611	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	425659	25228611	65126142	908	88178											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25255513	25255513	+	Missense_Mutation	SNP	T	C	C	0	1	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	catacaatttgctcttccgaTgacaggcttgaagcgcttca	10	12	8	11	2	2	2	1	2	1	0	3	3	3	2	1	1	3	3	1	1	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:25255513T>C	uc002dod.3	-	6	1981	c.1574A>G	c.(1573-1575)CAT>CGT	p.H525R	ZKSCAN2_uc010vcl.1_Missense_Mutation_p.H321R	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	525					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		GCTCTTCCGATGACAGGCTTG	0.507													38	111					0	0	0.01441	0	0		C	25255513	C	C	25255513	3	2	160	1	0	0	0	0	1	0	0	0	17712	1464	51	3	1337	3	ZKSCAN2	16	25255513	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	26902	25255513	65099240	909	88179											
HS3ST4	9951	broad.mit.edu	37	chr16	26147212	26147212	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaatagggatctatgcgctGcatctggaaaactggctcca	11	9	11	10	2	2	0	0	0	2	0	3	3	3	2	1	3	3	3	1	3	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:26147212G>A	uc002dof.2	+	2	1406	c.1014G>A	c.(1012-1014)CTG>CTA	p.L338L		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	338	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		TCTATGCGCTGCATCTGGAAA	0.557													66	209					0	0	0.01441	0	0		A	26147212	A	A	26147212	2	1	160	1	0	0	0	0	0	0	0	1	7383	1306	46	2		2	HS3ST4	16	26147212	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	891699	26147212	64207541	910	88180											
JMJD5	79831	broad.mit.edu	37	chr16	27231806	27231806	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctccataacacgagccaGgtgggcactgggggtctggg	7	8	15	11	1	2	0	0	0	2	0	3	1	2	0	2	5	2	1	2	5	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:27231806G>T	uc002doh.2	+	7	1268	c.1086G>T	c.(1084-1086)CAG>CAT	p.Q362H	JMJD5_uc010vcn.1_Missense_Mutation_p.Q400H|JMJD5_uc010bxw.2_Intron|JMJD5_uc010bxx.2_RNA	NM_024773	NP_079049	Q8N371	KDM8_HUMAN	jumonji domain containing 5 isoform 2	362	JmjC.				G2/M transition of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|histone demethylase activity (H3-K36 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(2)|upper_aerodigestive_tract(1)	3						ACACGAGCCAGGTGGGCACTG	0.592													48	124					6.3237e-29	7.0896e-29	0.01441	1	0		T	27231806	T	T	27231806	3	4	160	1	0	0	0	0	1	0	0	0	7968	1014	35	5	1226	5	JMJD5	16	27231806	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1084594	27231806	63122947	911	88181											
SH2B1	25970	broad.mit.edu	37	chr16	28883900	28883900	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggtcagtgccgggtccagCacctgtggttccagtccatt	6	10	13	12	1	1	0	1	0	0	0	4	0	4	0	5	3	2	2	5	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:28883900C>T	uc002dri.2	+	10	2210	c.1771C>T	c.(1771-1773)CAC>TAC	p.H591Y	uc010vct.1_Intron|SH2B1_uc010vdc.1_Missense_Mutation_p.H281Y|SH2B1_uc002drj.2_Missense_Mutation_p.H591Y|SH2B1_uc002drk.2_Missense_Mutation_p.H591Y|SH2B1_uc002drl.2_Missense_Mutation_p.H591Y|SH2B1_uc010vdd.1_Missense_Mutation_p.H255Y|SH2B1_uc010vde.1_Missense_Mutation_p.H591Y|SH2B1_uc002drm.2_Missense_Mutation_p.H591Y	NM_001145795	NP_001139267	Q9NRF2	SH2B1_HUMAN	SH2B adaptor protein 1 isoform 1	591	SH2.				blood coagulation|intracellular signal transduction	cytosol|membrane|nucleus	signal transducer activity			ovary(2)	2						CCGGGTCCAGCACCTGTGGTT	0.597													35	90					0	0	0.006999	0	0		T	28883900	T	T	28883900	3	4	160	1	0	0	0	0	1	0	0	0	14252	710	25	2	1797	2	SH2B1	16	28883900	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1652094	28883900	61470853	912	88182											
YPEL3	83719	broad.mit.edu	37	chr16	30106652	30106652	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccggtgacaatcatccaagTaggcctgaaacgtcttgggc	10	9	11	11	2	2	2	1	2	1	0	4	2	4	2	3	3	1	1	3	3	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:30106652T>C	uc002dwm.2	-	2	224	c.38A>G	c.(37-39)TAC>TGC	p.Y13C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|YPEL3_uc002dwl.2_Missense_Mutation_p.Y51C|YPEL3_uc002dwn.1_Missense_Mutation_p.Y51C|uc002dwo.1_5'Flank	NM_001145524	NP_001138996	P61236	YPEL3_HUMAN	yippee-like 3 isoform 2	13						nucleolus					0						ATCATCCAAGTAGGCCTGAAA	0.652													3	102					0	0	0.009096	0	0		C	30106652	C	C	30106652	3	2	160	1	0	0	0	0	1	0	0	0	17517	1638	57	3	337	3	YPEL3	16	30106652	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	1222752	30106652	60248101	913	88183											
ZNF689	115509	broad.mit.edu	37	chr16	30616043	30616043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagaagcgggcctcacagtGctcgcaggcatagggacgct	9	5	16	11	3	1	1	1	0	0	1	2	3	1	2	1	4	2	4	1	4	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:30616043G>A	uc002dyx.2	-	3	1365	c.1045C>T	c.(1045-1047)CAC>TAC	p.H349Y	ZNF689_uc010bzy.2_Silent_p.S4S	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	349	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GCCTCACAGTGCTCGCAGGCA	0.682													8	15					0	0	0.006214	0	0		A	30616043	A	A	30616043	3	1	160	1	0	0	0	0	1	0	0	0	18119	1319	46	2	461	2	ZNF689	16	30616043	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	509391	30616043	59738710	914	88184											
SRCAP	10847	broad.mit.edu	37	chr16	30734020	30734020	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccttcttcgacccccagCaccacccctgcccctactgg	5	8	6	22	1	1	0	0	0	1	0	2	1	1	0	8	1	4	1	8	1	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:30734020C>A	uc002dze.1	+	23	4228	c.3843C>A	c.(3841-3843)AGC>AGA	p.S1281R	SRCAP_uc002dzf.2_Intron|SRCAP_uc002dzg.1_Intron|SRCAP_uc010bzz.1_Missense_Mutation_p.S851R	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1281	Pro-rich.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CGACCCCCAGCACCACCCCTG	0.652													45	123					2.84144e-21	3.143e-21	0.01441	1	0		A	30734020	A	A	30734020	3	1	160	1	0	0	0	0	1	0	0	0	15160	709	25	5	3925	5	SRCAP	16	30734020	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	117977	30734020	59620733	915	88185											
ZNF646	9726	broad.mit.edu	37	chr16	31088784	31088784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttccgctgtggggactgtgGccgtacttaccgccatgctg	4	12	13	12	3	0	0	0	0	0	0	1	1	1	1	4	3	3	3	4	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:31088784G>A	uc002eap.2	+	2	1428	c.1139G>A	c.(1138-1140)GGC>GAC	p.G380D		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	380	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						GGGGACTGTGGCCGTACTTAC	0.587													13	20					0	0	0.00245	0	0		A	31088784	A	A	31088784	3	1	160	1	0	0	0	0	1	0	0	0	18087	1203	42	2	1141	2	ZNF646	16	31088784	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	354764	31088784	59265969	916	88186											
ITGAX	3687	broad.mit.edu	37	chr16	31372506	31372506	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaagatattcaaaaccaActgaaggagaagatctttgc	17	9	8	7	0	2	5	1	2	1	3	2	6	2	5	1	1	3	0	1	1	7	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:31372506A>T	uc002ebu.1	+	9	1051	c.984A>T	c.(982-984)CAA>CAT	p.Q328H	ITGAX_uc002ebt.2_Missense_Mutation_p.Q328H|ITGAX_uc010vfk.1_5'Flank	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	328	VWFA.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTCAAAACCAACTGAAGGAGA	0.443													65	188					0	0	0.01441	0	0		T	31372506	T	T	31372506	3	4	160	1	0	0	0	0	1	0	0	0	7905	40	2	5	1018	5	ITGAX	16	31372506	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	283722	31372506	58982247	917	88187											
SLC5A2	6524	broad.mit.edu	37	chr16	31498660	31498660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagggctggccgcgctgatGtacacggacacggtacagac	9	5	16	11	4	0	2	0	1	0	1	0	4	0	4	1	5	2	4	1	5	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:31498660G>A	uc002ecf.3	+	6	613	c.594G>A	c.(592-594)ATG>ATA	p.M198I	SLC5A2_uc010car.2_RNA|C16orf58_uc002ecg.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	198	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						CCGCGCTGATGTACACGGACA	0.622													7	172					0	0	0.013537	0	0		A	31498660	A	A	31498660	3	1	160	1	0	0	0	0	1	0	0	0	14690	1377	48	4	616	4	SLC5A2	16	31498660	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	126154	31498660	58856093	918	88188											
C16orf58	64755	broad.mit.edu	37	chr16	31512030	31512030	+	Silent	SNP	G	A	A	0	0	1	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	ttccaccaggcaaagacgatGcggcccagcatgccagttga	11	6	11	13	2	0	2	0	1	0	1	1	3	1	2	4	2	3	3	4	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:31512030G>A	uc002eci.1	-	3	450	c.438C>T	c.(436-438)CGC>CGT	p.R146R	C16orf58_uc010vfq.1_Silent_p.R4R	NM_022744	NP_073581	Q96GQ5	CP058_HUMAN	hypothetical protein LOC64755	146						integral to membrane				ovary(1)|breast(1)	2						CAAAGACGATGCGGCCCAGCA	0.512													14	56					0	0	0.003163	0	0		A	31512030	A	A	31512030	2	1	160	1	0	0	0	0	0	0	0	1	1825	1306	46	2		2	C16orf58	16	31512030	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	13370	31512030	58842723	919	88189											
NETO2	81831	broad.mit.edu	37	chr16	47165899	47165899	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgggttttttgggccacGgcaatcccttccactaccag	6	12	9	14	1	0	0	0	0	0	0	2	0	2	0	5	3	1	2	5	3	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:47165899G>A	uc002eer.1	-	2	457	c.72C>T	c.(70-72)GCC>GCT	p.A24A	NETO2_uc002ees.1_Silent_p.A24A	NM_018092	NP_060562	Q8NC67	NETO2_HUMAN	neuropilin- and tolloid-like protein 2	24	Extracellular (Potential).					integral to membrane	receptor activity				0		all_cancers(37;0.00114)|all_lung(18;0.00432)|Lung NSC(13;0.0384)|Breast(268;0.174)				TTTGGGCCACGGCAATCCCTT	0.358										HNSCC(25;0.065)			120	312					0	0	0.01441	0	0		A	47165899	A	A	47165899	2	1	160	1	0	0	0	0	0	0	0	1	10359	1103	39	1		1	NETO2	16	47165899	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	15653869	47165899	43188854	920	88190											
ABCC11	85320	broad.mit.edu	37	chr16	48226616	48226616	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggttccattgctctctcGgctgctattggtcttcaaga	6	15	9	11	1	3	1	1	0	2	1	6	1	4	1	1	3	2	4	1	3	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:48226616G>A	uc002eff.1	-	19	2871	c.2521C>T	c.(2521-2523)CGA>TGA	p.R841*	ABCC11_uc002efg.1_Nonsense_Mutation_p.R841*|ABCC11_uc002efh.1_Nonsense_Mutation_p.R841*|ABCC11_uc010vgk.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	841	ABC transmembrane type-1 2.					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				TTGCTCTCTCGGCTGCTATTG	0.557									Cerumen_Type				39	71					0	0	0.005524	0	0		A	48226616	A	A	48226616	4	1	160	1	0	0	0	0	0	1	0	0	51	1124	39	1	1671	1	ABCC11	16	48226616	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1060717	48226616	42128137	921	88191											
SALL1	6299	broad.mit.edu	37	chr16	51175241	51175241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgaggctctgtgccaatcCagctgctgctgccagctgct	5	9	13	14	1	1	0	0	0	1	0	2	1	2	0	3	2	7	6	3	2	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:51175241C>T	uc010vgs.1	-	2	923	c.892G>A	c.(892-894)GGA>AGA	p.G298R	SALL1_uc010vgr.1_Missense_Mutation_p.G201R|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	298					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TGTGCCAATCCAGCTGCTGCT	0.522													5	74					0	0	0.000602	0	0		T	51175241	T	T	51175241	3	4	160	1	0	0	0	0	1	0	0	0	13835	603	21	4	3090	4	SALL1	16	51175241	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2948625	51175241	39179512	922	88192											
CAPNS2	84290	broad.mit.edu	37	chr16	55600706	55600706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctattggaaggagcagatcGaggtcttggagaagctcttg	10	11	14	6	1	3	2	0	0	3	2	4	6	3	4	0	4	2	2	0	4	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:55600706G>A	uc002eid.1	+	1	123	c.38G>A	c.(37-39)CGA>CAA	p.R13Q	LPCAT2_uc002eie.3_Intron|LPCAT2_uc002eic.2_Intron	NM_032330	NP_115706	Q96L46	CPNS2_HUMAN	calpain small subunit 2	13	Gly-rich.					cytoplasm|plasma membrane	calcium ion binding				0						GGAGCAGATCGAGGTCTTGGA	0.438													18	44					0	0	0.006122	0	0		A	55600706	A	A	55600706	3	1	160	1	0	0	0	0	1	0	0	0	2637	1058	37	1	40	1	CAPNS2	16	55600706	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4425465	55600706	34754047	923	88193											
AMFR	267	broad.mit.edu	37	chr16	56401438	56401438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtctgatgctatctgacCgctggaagagaaacagtacc	12	8	11	10	1	2	3	0	2	2	1	2	5	2	4	2	2	3	3	2	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:56401438C>T	uc002eiy.2	-	12	1722	c.1517G>A	c.(1516-1518)CGG>CAG	p.R506Q	AMFR_uc002eix.2_Missense_Mutation_p.R140Q	NM_001144	NP_001135	Q9UKV5	AMFR2_HUMAN	autocrine motility factor receptor	506					endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein oligomerization|protein polyubiquitination	integral to endoplasmic reticulum membrane|integral to membrane of membrane fraction	protein binding|protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			breast(2)	2						GCTATCTGACCGCTGGAAGAG	0.498													147	347					0	0	0.01441	0	0		T	56401438	T	T	56401438	3	4	160	1	0	0	0	0	1	0	0	0	571	666	23	1	426	1	AMFR	16	56401438	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	800732	56401438	33953315	924	88194											
NUP93	9688	broad.mit.edu	37	chr16	56862946	56862946	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgcatcaggcccagctgggCggggtgcctgggacttacca	6	8	15	12	1	1	0	1	0	0	0	1	1	1	1	3	5	4	2	3	5	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:56862946C>T	uc002eka.2	+	9	973	c.852C>T	c.(850-852)GGC>GGT	p.G284G	NUP93_uc002ekb.2_Silent_p.G161G|NUP93_uc010vhi.1_Silent_p.G161G	NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	284					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						CCCAGCTGGGCGGGGTGCCTG	0.438													48	146					0	0	0.013114	0	0		T	56862946	T	T	56862946	2	4	160	1	0	0	0	0	0	0	0	1	10791	755	27	1		1	NUP93	16	56862946	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	461508	56862946	33491807	925	88195											
CDH8	1006	broad.mit.edu	37	chr16	61747844	61747844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggatcatctttgtccatggCgctaacagtttgaatgacct	9	13	10	9	1	2	2	1	2	1	0	3	3	3	3	2	2	1	2	2	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:61747844C>T	uc002eog.1	-	10	1807	c.1555G>A	c.(1555-1557)GCC>ACC	p.A519T		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	519	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TTGTCCATGGCGCTAACAGTT	0.388													7	148					0	0	0.001984	0	0		T	61747844	T	T	61747844	3	4	160	1	0	0	0	0	1	0	0	0	3119	768	27	1	856	1	CDH8	16	61747844	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4884898	61747844	28606909	926	88196											
CES2	8824	broad.mit.edu	37	chr16	66974142	66974142	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caggtgatggtgtggatccaCggtggtgcgcttgtttttgg	4	14	17	6	2	0	1	0	1	0	0	1	2	1	2	1	6	1	2	1	6	0	3	rs150573301	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:66974142C>T	uc002eqr.2	+	4	1633	c.633C>T	c.(631-633)CAC>CAT	p.H211H	CES2_uc002eqq.2_Silent_p.H211H|CES2_uc002eqs.2_Silent_p.H54H	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	147					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		TGTGGATCCACGGTGGTGCGC	0.567													8	82					0	0	0.00308	0	0		T	66974142	T	T	66974142	2	4	160	1	0	0	0	0	0	0	0	1	3273	535	19	1		1	CES2	16	66974142	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5226298	66974142	23380611	927	88197											
HSF4	3299	broad.mit.edu	37	chr16	67199519	67199519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacatggcgagcttcgtgcGccaactcaacatgtgtgagt	10	9	11	11	3	1	1	1	1	0	0	2	2	1	1	1	1	5	1	1	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:67199519G>A	uc002erl.1	+	4	1183	c.218G>A	c.(217-219)CGC>CAC	p.R73H	HSF4_uc002erm.1_Missense_Mutation_p.R73H|HSF4_uc002ern.1_RNA|HSF4_uc010cec.1_RNA	NM_001040667	NP_001035757	Q9ULV5	HSF4_HUMAN	heat shock transcription factor 4 isoform b	73	By similarity.		R -> H (in CZ-HSF4).		response to stress	nucleus	sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		AGCTTCGTGCGCCAACTCAAC	0.652													23	34					0	0	0.00278	0	0		A	67199519	A	A	67199519	3	1	160	1	0	0	0	0	1	0	0	0	7414	1087	38	1	224	1	HSF4	16	67199519	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	225377	67199519	23155234	928	88198											
SLC9A5	6553	broad.mit.edu	37	chr16	67293791	67293791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacgcagcggccgggatcGtgaggatgctgtgatgcatc	8	8	16	9	4	0	2	0	2	0	0	2	4	0	4	1	3	4	4	1	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:67293791G>A	uc002esm.2	+	12	1847	c.1784G>A	c.(1783-1785)CGT>CAT	p.R595H	SLC9A5_uc010cee.2_Missense_Mutation_p.R300H|SLC9A5_uc010vji.1_Missense_Mutation_p.R99H|uc002esn.1_5'Flank	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	595					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		GGCCGGGATCGTGAGGATGCT	0.612													15	23					0	0	0.003163	0	0		A	67293791	A	A	67293791	3	1	160	1	0	0	0	0	1	0	0	0	14742	1145	40	1	1830	1	SLC9A5	16	67293791	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	94272	67293791	23060962	929	88199											
PLEKHG4	25894	broad.mit.edu	37	chr16	67314221	67314221	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	gcacagtagaaagctcctcaGtcctgtcagaagggccaggc	11	6	12	12	0	2	2	2	0	0	2	4	2	4	2	3	2	1	3	3	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:67314221G>C	uc002eso.3	+	1	2809	c.274G>C	c.(274-276)GTC>CTC	p.V92L	PLEKHG4_uc002esp.3_5'UTR|PLEKHG4_uc002esq.3_Missense_Mutation_p.V92L|PLEKHG4_uc002esr.1_Intron|PLEKHG4_uc010cef.2_Missense_Mutation_p.V92L|PLEKHG4_uc002ess.3_Missense_Mutation_p.V92L|PLEKHG4_uc010ceg.2_Missense_Mutation_p.V92L	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	92					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		AAGCTCCTCAGTCCTGTCAGA	0.612													19	49					0	0	0.006122	0	0		C	67314221	C	C	67314221	3	2	160	1	0	0	0	0	1	0	0	0	12090	1029	36	5	276	5	PLEKHG4	16	67314221	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	20430	67314221	23040532	930	88200											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67472975	67472975	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccacagtgtggaaagagctTggcacggtcctctttggaca	9	9	12	11	1	1	1	0	0	1	1	2	3	2	3	2	4	1	2	2	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:67472975T>C	uc002ete.1	-	6	815	c.715A>G	c.(715-717)AAG>GAG	p.K239E	ATP6V0D1_uc010vjo.1_Missense_Mutation_p.K280E|ATP6V0D1_uc010vjn.1_Missense_Mutation_p.K162E	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	239					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		GGAAAGAGCTTGGCACGGTCC	0.577													56	156					0	0	0.01441	0	0		C	67472975	C	C	67472975	3	2	160	1	0	0	0	0	1	0	0	0	1174	1821	63	3	352	3	ATP6V0D1	16	67472975	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	158754	67472975	22881778	931	88201											
PSMB10	5699	broad.mit.edu	37	chr16	67968747	67968747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtccgcagcagcttggcGccagtctttgtgatcacaca	8	10	11	12	2	2	1	1	1	1	0	3	1	3	1	2	1	2	3	2	1	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:67968747G>A	uc002eux.1	-	7	764	c.663C>T	c.(661-663)GGC>GGT	p.G221G	CTRL_uc002euw.2_5'Flank	NM_002801	NP_002792	P40306	PSB10_HUMAN	proteasome beta 10 subunit proprotein	221					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|humoral immune response|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00415)|Epithelial(162;0.0182)|all cancers(182;0.119)		GCAGCTTGGCGCCAGTCTTTG	0.637													82	143					0	0	0.01441	0	0		A	67968747	A	A	67968747	2	1	160	1	0	0	0	0	0	0	0	1	12697	1074	38	1		1	PSMB10	16	67968747	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	495772	67968747	22386006	932	88202											
CDH1	999	broad.mit.edu	37	chr16	68862117	68862117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttcttcggaggagagcGgtggtcaaagagcccttact	8	11	13	9	2	2	2	1	0	1	2	3	4	2	3	1	4	3	1	1	4	2	3	rs138493551	by1000genomes	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:68862117G>A	uc002ewg.1	+	14	2329	c.2205G>A	c.(2203-2205)GCG>GCA	p.A735A	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Silent_p.A674A	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	735	Cytoplasmic (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		GGAGGAGAGCGGTGGTCAAAG	0.527			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				53	155					0	0	0.01441	0	0		A	68862117	A	A	68862117	2	1	160	1	0	0	0	0	0	0	0	1	3098	1103	39	1		1	CDH1	16	68862117	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	893370	68862117	21492636	933	88203											
NFAT5	10725	broad.mit.edu	37	chr16	69687167	69687167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaccaaaaaggaactggaGtaaagaagagccctatgttg	19	6	10	6	0	0	2	0	0	0	2	0	4	0	4	2	2	3	2	2	2	9	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:69687167G>A	uc002exm.1	+	4	1995	c.787G>A	c.(787-789)GTA>ATA	p.V263I	NFAT5_uc002exh.1_Missense_Mutation_p.V57I|NFAT5_uc002exi.2_Missense_Mutation_p.V187I|NFAT5_uc002exj.1_Missense_Mutation_p.V187I|NFAT5_uc002exk.1_Missense_Mutation_p.V187I|NFAT5_uc002exl.1_Missense_Mutation_p.V281I|NFAT5_uc002exn.1_Missense_Mutation_p.V281I	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	263					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						AGGAACTGGAGTAAAGAAGAG	0.378													24	65					0	0	0.00632	0	0		A	69687167	A	A	69687167	3	1	160	1	0	0	0	0	1	0	0	0	10379	1029	36	4	859	4	NFAT5	16	69687167	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	825050	69687167	20667586	934	88204											
HYDIN	54768	broad.mit.edu	37	chr16	70954971	70954971	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcactgtcctcttggtcCtggacaagaggaagcccatg	8	10	10	13	0	2	1	1	0	1	1	4	3	4	3	4	3	1	0	4	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:70954971C>A	uc002ezr.2	-	46	7433	c.7305G>T	c.(7303-7305)CAG>CAT	p.Q2435H		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	2436										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CCTCTTGGTCCTGGACAAGAG	0.463													68	178					7.4264e-54	8.38599e-54	0.01441	1	0		A	70954971	A	A	70954971	3	1	160	1	0	0	0	0	1	0	0	0	7483	680	24	5	8221	5	HYDIN	16	70954971	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1267804	70954971	19399782	935	88205											
AP1G1	164	broad.mit.edu	37	chr16	71803538	71803538	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacctacctttctgaaatgCgcaagcatgtctgggcttcg	8	11	10	12	2	2	1	0	1	2	0	3	1	2	1	2	1	3	4	2	1	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:71803538C>T	uc010cgg.2	-	6	944	c.630G>A	c.(628-630)GCG>GCA	p.A210A	AP1G1_uc002fba.2_Silent_p.A210A|AP1G1_uc002fbb.2_Silent_p.A233A|AP1G1_uc010vmg.1_RNA|AP1G1_uc010vmh.1_Silent_p.A292A	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	210					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				TTCTGAAATGCGCAAGCATGT	0.383													46	134					0	0	0.01441	0	0		T	71803538	T	T	71803538	2	4	160	1	0	0	0	0	0	0	0	1	732	755	27	1		1	AP1G1	16	71803538	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	848567	71803538	18551215	936	88206											
ZFHX3	463	broad.mit.edu	37	chr16	72831632	72831632	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctcacaggacttggcgtgGaggagctcaaggaaatactg	11	8	14	8	1	2	0	2	0	0	0	2	4	2	4	0	5	3	2	0	5	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:72831632G>T	uc002fck.2	-	9	5622	c.4949C>A	c.(4948-4950)TCC>TAC	p.S1650Y	ZFHX3_uc002fcl.2_Missense_Mutation_p.S736Y	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1650					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ACTTGGCGTGGAGGAGCTCAA	0.542													30	78					1.32181e-22	1.46555e-22	0.007291	1	0		T	72831632	T	T	72831632	3	4	160	1	0	0	0	0	1	0	0	0	17659	1174	41	5	6170	5	ZFHX3	16	72831632	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1028094	72831632	17523121	937	88207											
ZFHX3	463	broad.mit.edu	37	chr16	72991509	72991509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgccgaggcccaggtggcGgttgtgttggatctgggtca	4	10	18	9	2	2	0	1	0	1	0	2	2	2	1	2	6	1	3	2	6	0	2	rs141276031		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:72991509G>A	uc002fck.2	-	2	3209	c.2536C>T	c.(2536-2538)CGC>TGC	p.R846C	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	846				RHLG -> HHRV (in Ref. 1).	muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CCCAGGTGGCGGTTGTGTTGG	0.567													29	65					0	0	0.009535	0	0		A	72991509	A	A	72991509	3	1	160	1	0	0	0	0	1	0	0	0	17659	1116	39	1	8611	1	ZFHX3	16	72991509	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	159877	72991509	17363244	938	88208											
ZFHX3	463	broad.mit.edu	37	chr16	72992629	72992629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttcctcctcctcctcCgcctcttcctcctcctcttc	0	17	1	23	1	4	0	0	0	4	0	13	0	12	0	9	0	0	0	9	0	0	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:72992629C>T	uc002fck.2	-	2	2089	c.1416G>A	c.(1414-1416)GCG>GCA	p.A472A	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	472	Poly-Glu.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				cctcctcctccgcctcttcct	0.299													18	45					0	0	0.014323	0	0		T	72992629	T	T	72992629	2	4	160	1	0	0	0	0	0	0	0	1	17659	639	23	1		1	ZFHX3	16	72992629	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1120	72992629	17362124	939	88209											
ADAMTS18	170692	broad.mit.edu	37	chr16	77359782	77359782	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttccacttttgtatagggTttccactggtagaaccatcc	8	14	7	12	0	0	1	0	0	0	1	3	1	3	1	5	2	1	3	5	2	4	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:77359782T>G	uc002ffc.3	-	13	2432	c.2013A>C	c.(2011-2013)AAA>AAC	p.K671N	ADAMTS18_uc010chc.1_Missense_Mutation_p.K259N|ADAMTS18_uc002ffe.1_Missense_Mutation_p.K367N	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	671	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TTGTATAGGGTTTCCACTGGT	0.378													44	127					0	0	0.011902	0	0		G	77359782	G	G	77359782	3	3	160	1	0	0	0	0	1	0	0	0	263	1722	60	5	1696	5	ADAMTS18	16	77359782	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	4367153	77359782	12994971	940	88210											
ATMIN	23300	broad.mit.edu	37	chr16	81076065	81076065	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cacatctaccgaactgggcaCgagatacctgcagaacacag	14	5	9	13	2	1	2	0	0	1	2	1	4	1	2	2	1	5	2	2	1	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:81076065C>T	uc002ffz.1	+	3	660	c.642C>T	c.(640-642)CAC>CAT	p.H214H	ATMIN_uc002fga.2_Silent_p.H56H|ATMIN_uc010vnn.1_Intron|ATMIN_uc002fgb.1_Silent_p.H56H	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	214					response to DNA damage stimulus	nucleus	zinc ion binding				0						GAACTGGGCACGAGATACCTG	0.517													18	44					0	0	0.00499	0	0		T	81076065	T	T	81076065	2	4	160	1	0	0	0	0	0	0	0	1	1111	535	19	1		1	ATMIN	16	81076065	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3716283	81076065	9278688	941	88211											
CDH13	1012	broad.mit.edu	37	chr16	83378575	83378575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccgatctttcgggaaggcCcctacatcggccacgtcatg	8	8	11	14	4	2	0	1	0	1	0	4	3	2	1	4	3	1	0	4	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:83378575C>T	uc002fgx.2	+	6	865	c.745C>T	c.(745-747)CCC>TCC	p.P249S	CDH13_uc010vns.1_Missense_Mutation_p.P296S|CDH13_uc010vnt.1_5'UTR|CDH13_uc010vnu.1_Missense_Mutation_p.P210S	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	249	Cadherin 2.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		TCGGGAAGGCCCCTACATCGG	0.517													43	104					0	0	0.010771	0	0		T	83378575	T	T	83378575	3	4	160	1	0	0	0	0	1	0	0	0	3102	623	22	4	767	4	CDH13	16	83378575	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2302510	83378575	6976178	942	88212											
NECAB2	54550	broad.mit.edu	37	chr16	84005769	84005769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcagattttccgccgtgCggacaaaaatggtgagtttc	9	12	11	9	3	1	2	0	1	1	1	3	3	2	3	2	2	2	2	2	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:84005769C>T	uc002fhd.2	+	2	232	c.215C>T	c.(214-216)GCG>GTG	p.A72V	NECAB2_uc002fhe.2_5'UTR	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	72	EF-hand 1.				antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						TTCCGCCGTGCGGACAAAAAT	0.597													19	44					0	0	0.00333	0	0		T	84005769	T	T	84005769	3	4	160	1	0	0	0	0	1	0	0	0	10324	768	27	1	221	1	NECAB2	16	84005769	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	627194	84005769	6348984	943	88213											
FOXL1	2300	broad.mit.edu	37	chr16	86612470	86612470	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggccgggccgagaccccGcagaagcctccctacagcta	8	4	12	17	4	0	2	0	0	0	2	2	3	1	2	6	2	3	2	6	2	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:86612470G>A	uc002fjr.2	+	1	356	c.141G>A	c.(139-141)CCG>CCA	p.P47P		NM_005250	NP_005241	Q12952	FOXL1_HUMAN	forkhead box L1	47					brain development|camera-type eye development|cartilage development|embryo development|forelimb morphogenesis|heart development|organ morphogenesis|pattern specification process|proteoglycan biosynthetic process|regulation of sequence-specific DNA binding transcription factor activity|regulation of Wnt receptor signaling pathway|visceral mesoderm-endoderm interaction involved in midgut development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1						CCGAGACCCCGCAGAAGCCTC	0.672													22	36					0	0	0.00333	0	0		A	86612470	A	A	86612470	2	1	160	1	0	0	0	0	0	0	0	1	6030	1074	38	1		1	FOXL1	16	86612470	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2606701	86612470	3742283	944	88214											
MVD	4597	broad.mit.edu	37	chr16	88725067	88725067	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccacacatacctggtcctgGtgcagagtgacgctcaggga	9	8	12	12	1	1	2	1	1	0	1	3	3	3	3	3	3	2	2	3	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:88725067G>A	uc002flg.1	-	2	139	c.132C>T	c.(130-132)CAC>CAT	p.H44H	MVD_uc002flf.1_5'Flank	NM_002461	NP_002452	P53602	MVD1_HUMAN	diphosphomevalonate decarboxylase	44					cholesterol biosynthetic process|positive regulation of cell proliferation	cytosol	ATP binding|diphosphomevalonate decarboxylase activity|Hsp70 protein binding|kinase activity|protein homodimerization activity				0				BRCA - Breast invasive adenocarcinoma(80;0.0478)		CCTGGTCCTGGTGCAGAGTGA	0.502													7	24					0	0	0.004482	0	0		A	88725067	A	A	88725067	2	1	160	1	0	0	0	0	0	0	0	1	10012	1252	44	4		4	MVD	16	88725067	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2112597	88725067	1629686	945	88215											
SNAI3	333929	broad.mit.edu	37	chr16	88748006	88748006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcagggagatgcaggcgaCggccgaggagcggtcccagg	8	2	21	10	4	0	1	0	0	0	1	1	5	1	2	2	7	2	2	2	7	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:88748006C>T	uc002flj.2	-	2	261	c.193G>A	c.(193-195)GTC>ATC	p.V65I	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	65					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)		ATGCAGGCGACGGCCGAGGAG	0.711													12	14					0	0	0.00245	0	0		T	88748006	T	T	88748006	3	4	160	1	0	0	0	0	1	0	0	0	14853	536	19	1	693	1	SNAI3	16	88748006	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	22939	88748006	1606747	946	88216											
TUBB3	10381	broad.mit.edu	37	chr16	89986279	89986279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgctggtgctcatggccGtgctgtacgtccacatgctg	5	12	12	12	2	1	0	1	0	0	0	2	0	2	0	2	2	5	5	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr16:89986279G>A	uc002fpf.2	+	1	1021	c.613G>A	c.(613-615)GTG>ATG	p.V205M	MC1R_uc002fpe.3_Missense_Mutation_p.V205M|TUBB3_uc010ciz.1_5'Flank	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	Error:Variant_position_missing_in_Q13509_after_alignment					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GCTCATGGCCGTGCTGTACGT	0.647													17	21					0	0	0.00499	0	0		A	89986279	A	A	89986279	3	1	160	1	0	0	0	0	1	0	0	0	16783	1145	40	1		1	TUBB3	16	89986279	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1238273	89986279	368474	947	88217											
MYO1C	4641	broad.mit.edu	37	chr17	1378128	1378128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttaaggttccggaagagaAggtcattgtttttgtccaga	10	13	11	7	1	1	2	1	0	0	2	3	4	3	3	3	3	0	2	3	3	3	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:1378128A>G	uc002fsp.2	-	16	1914	c.1694T>C	c.(1693-1695)CTT>CCT	p.L565P	MYO1C_uc002fsn.2_Missense_Mutation_p.L546P|MYO1C_uc002fso.2_Missense_Mutation_p.L530P|MYO1C_uc010vqj.1_Missense_Mutation_p.L530P|MYO1C_uc010vqk.1_Missense_Mutation_p.L541P	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	565	Myosin head-like.				mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CCGGAAGAGAAGGTCATTGTT	0.632													14	35					0	0	0.00499	0	0		G	1378128	G	G	1378128	3	3	160	1	0	0	0	0	1	0	0	0	10088	72	3	3	1565	3	MYO1C	17	1378128	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08		1378128	79817082	948	88218											
TSR1	55720	broad.mit.edu	37	chr17	2236284	2236284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctccataaaatcctcatGttccatatcatcatattcat	12	15	1	13	0	4	0	4	0	0	0	8	0	8	0	4	0	0	1	4	0	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:2236284G>A	uc002fuj.2	-	7	2233	c.1276C>T	c.(1276-1278)CAT>TAT	p.H426Y	SNORD91A_uc002ful.1_5'Flank	NM_018128	NP_060598	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation	426	Glu-rich.				ribosome assembly	nucleolus	protein binding			ovary(1)	1						AAATCCTCATGTTCCATATCA	0.448													10	174					0	0	0.006214	0	0		A	2236284	A	A	2236284	3	1	160	1	0	0	0	0	1	0	0	0	16690	1377	48	4	1174	4	TSR1	17	2236284	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	858156	2236284	78958926	949	88219											
SPNS3	201305	broad.mit.edu	37	chr17	4352608	4352608	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggggttctgggcccccaaGtttctgctcgaggcacgcgt	4	10	14	13	3	2	0	0	0	2	0	3	1	2	0	2	4	1	4	2	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:4352608G>A	uc002fxt.2	+	7	893	c.849G>A	c.(847-849)AAG>AAA	p.K283K	SPNS3_uc002fxu.2_Silent_p.K156K	NM_182538	NP_872344	Q6ZMD2	SPNS3_HUMAN	spinster homolog 3	283					lipid transport|transmembrane transport	integral to membrane				large_intestine(1)	1						GGGCCCCCAAGTTTCTGCTCG	0.672													38	86					0	0	0.004289	0	0		A	4352608	A	A	4352608	2	1	160	1	0	0	0	0	0	0	0	1	15101	1020	36	4		4	SPNS3	17	4352608	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2116324	4352608	76842602	950	88220											
MED11	400569	broad.mit.edu	37	chr17	4635160	4635160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgcttcagtgcaacacGtggaggcggagctgtcagct	8	8	13	12	3	3	0	3	0	0	0	3	2	3	2	1	3	4	4	1	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:4635160G>A	uc002fyp.2	+	2	237	c.175G>A	c.(175-177)GTG>ATG	p.V59M		NM_001001683	NP_001001683	Q9P086	MED11_HUMAN	mediator complex subunit 11	59					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	protein binding				0						AGTGCAACACGTGGAGGCGGA	0.612											OREG0024104	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	48					0	0	0.014323	0	0		A	4635160	A	A	4635160	3	1	160	1	0	0	0	0	1	0	0	0	9445	1145	40	1	181	1	MED11	17	4635160	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	282552	4635160	76560050	951	88221											
NUP88	4927	broad.mit.edu	37	chr17	5314096	5314096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgggtgtctgcggctcacGtagtgagtaaattctagcaa	10	11	13	7	2	3	1	1	1	2	0	3	1	3	1	0	2	2	4	0	2	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:5314096G>A	uc002gbo.1	-	4	633	c.607C>T	c.(607-609)CGT>TGT	p.R203C	NUP88_uc010vsx.1_Missense_Mutation_p.R203C|NUP88_uc010cle.1_Missense_Mutation_p.R203C|NUP88_uc010vsy.1_Missense_Mutation_p.R203C	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	203					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						TGCGGCTCACGTAGTGAGTAA	0.383													6	248					0	0	0.001168	0	0		A	5314096	A	A	5314096	3	1	160	1	0	0	0	0	1	0	0	0	10790	1145	40	1	1674	1	NUP88	17	5314096	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	678936	5314096	75881114	952	88222											
BCL6B	255877	broad.mit.edu	37	chr17	6927489	6927489	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcccgaagcgagaggcttCgcccctctattggacttcat	7	10	11	13	3	2	1	1	0	1	1	4	4	3	2	3	3	1	1	3	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:6927489C>T	uc002geg.2	+	3	324	c.267C>T	c.(265-267)TTC>TTT	p.F89F	BCL6B_uc010clt.1_Silent_p.F89F	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	89	BTB.					nucleus	zinc ion binding			skin(1)	1						CGAGAGGCTTCGCCCCTCTAT	0.617													52	116					0	0	0.01441	0	0		T	6927489	T	T	6927489	2	4	160	1	0	0	0	0	0	0	0	1	1378	883	31	1		1	BCL6B	17	6927489	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1613393	6927489	74267721	953	88223											
KDM6B	23135	broad.mit.edu	37	chr17	7750430	7750430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatctcctataggagcagcGgcactcgctgcctcacccat	8	10	8	15	2	2	0	1	0	1	0	4	1	2	1	3	2	3	3	3	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:7750430G>A	uc002giw.1	+	10	1293	c.917G>A	c.(916-918)CGG>CAG	p.R306Q	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	306	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						TAGGAGCAGCGGCACTCGCTG	0.642													24	55					0	0	0.005443	0	0		A	7750430	A	A	7750430	3	1	160	1	0	0	0	0	1	0	0	0	8154	1116	39	1	943	1	KDM6B	17	7750430	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	822941	7750430	73444780	954	88224											
KDM6B	23135	broad.mit.edu	37	chr17	7752175	7752175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacctcagcggcccctagcGcccagggctccccacagccc	6	3	9	23	2	1	0	1	0	0	0	2	0	2	0	8	2	3	1	8	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:7752175G>A	uc002giw.1	+	11	2945	c.2569G>A	c.(2569-2571)GCC>ACC	p.A857T	KDM6B_uc002gix.2_Missense_Mutation_p.A159T	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	857	Pro-rich.				inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						GGCCCCTAGCGCCCAGGGCTC	0.706													21	59					0	0	0.00278	0	0		A	7752175	A	A	7752175	3	1	160	1	0	0	0	0	1	0	0	0	8154	1087	38	1	2599	1	KDM6B	17	7752175	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1745	7752175	73443035	955	88225											
PIK3R6	146850	broad.mit.edu	37	chr17	8726318	8726318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaggcagatgcttacctttgGggaatttagaatcttggatc	10	13	12	6	0	1	2	0	0	1	2	2	5	1	4	1	4	2	2	1	4	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:8726318G>T	uc002glq.1	-	15	1952	c.1712C>A	c.(1711-1713)CCC>CAC	p.P571H	PIK3R6_uc002glr.1_RNA|PIK3R6_uc002gls.1_RNA	NM_001010855	NP_001010855	Q5UE93	PI3R6_HUMAN	phosphoinositide-3-kinase, regulatory subunit 6	571					platelet activation	cytosol					0						CTTACCTTTGGGGAATTTAGA	0.493													31	113					2.70662e-09	2.8872e-09	0.009535	1	0		T	8726318	T	T	8726318	3	4	160	1	0	0	0	0	1	0	0	0	11942	1232	43	5	575	5	PIK3R6	17	8726318	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	974143	8726318	72468892	956	88226											
MYH13	8735	broad.mit.edu	37	chr17	10222241	10222241	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagctcggccacactatCtgcttgcttcttcctcaggg	6	11	8	16	1	3	0	1	0	2	0	5	0	4	0	3	2	3	3	3	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:10222241C>A	uc002gmk.1	-	27	3694	c.3604G>T	c.(3604-3606)GAT>TAT	p.D1202Y		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1202	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						GCCACACTATCTGCTTGCTTC	0.572													30	84					1.03325e-14	1.12347e-14	0.011902	1	0		A	10222241	A	A	10222241	3	1	160	1	0	0	0	0	1	0	0	0	10050	913	32	5	2272	5	MYH13	17	10222241	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1495923	10222241	70972969	957	88227											
MYH4	4622	broad.mit.edu	37	chr17	10362680	10362680	+	Frame_Shift_Del	DEL	A	-	-																															gcacgaacatgtggtggttgAaaaactgttgcagtttctcg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:10362680delA	uc002gmn.2	-	15	1586	c.1475delT	c.(1474-1476)TTCfs	p.F492fs	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	492	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						GTGGTGGTTGAAAAACTGTTG	0.468													92	211	---	---	---	---						.	-	10362680	-	-	10362680	7	5	160	1	0	1	0	1	0	0	0	0	10055	246	9	0	4448	0	MYH4	17	10362680	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	140439	10362680	70832530	958	88228											
MYH1	4619	broad.mit.edu	37	chr17	10398313	10398313	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagctgctcagcctcatccaGacgatgctgcaggtccttca	8	9	9	15	1	3	1	3	0	0	1	5	2	5	1	3	1	5	4	3	1	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:10398313G>A	uc002gmo.2	-	37	5495	c.5401C>T	c.(5401-5403)CTG>TTG	p.L1801L	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1801	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GCCTCATCCAGACGATGCTGC	0.542													5	154					0	0	0.001984	0	0		A	10398313	A	A	10398313	2	1	160	1	0	0	0	0	0	0	0	1	10047	933	33	4		4	MYH1	17	10398313	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	35633	10398313	70796897	959	88229											
MYH2	4620	broad.mit.edu	37	chr17	10428368	10428368	+	Silent	SNP	A	G	G	1	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	cgcaggatctttccctcttcAtgttcaagagatgccttaat	9	14	7	11	1	4	1	2	0	2	1	5	3	5	2	2	1	1	2	2	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:10428368A>G	uc010coi.2	-	34	4805	c.4677T>C	c.(4675-4677)CAT>CAC	p.H1559H	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.H1559H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1559	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTCCCTCTTCATGTTCAAGAG	0.408													65	204					0	0	0.01441	0	0		G	10428368	G	G	10428368	2	3	160	1	0	0	0	0	0	0	0	1	10053	214	8	3		3	MYH2	17	10428368	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	30055	10428368	70766842	960	88230											
MYH2	4620	broad.mit.edu	37	chr17	10428789	10428789	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtaagtttttgttctctcGcttcagggtttctagctgat	5	19	9	8	1	3	1	1	1	2	0	5	1	3	1	0	1	1	6	0	1	2	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:10428789G>A	uc010coi.2	-	32	4644	c.4516C>T	c.(4516-4518)CGA>TGA	p.R1506*	uc002gml.1_Intron|MYH2_uc002gmp.3_Nonsense_Mutation_p.R1506*|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1506	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle	p.R1506*(1)		ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TTGTTCTCTCGCTTCAGGGTT	0.428													73	167					0	0	0.01441	0	0		A	10428789	A	A	10428789	4	1	160	1	0	0	0	0	0	1	0	0	10053	1095	38	1	1345	1	MYH2	17	10428789	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	421	10428789	70766421	961	88231											
FLCN	201163	broad.mit.edu	37	chr17	17117098	17117098	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcggacgcacccaggatGctcagcagcttctgtgtgtc	6	10	11	14	2	2	0	1	0	1	0	5	2	3	2	2	2	3	4	2	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:17117098G>A	uc002gra.3	-	14	2115	c.1611C>T	c.(1609-1611)AGC>AGT	p.S537S	PLD6_uc010cpn.2_Intron	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	537					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						CACCCAGGATGCTCAGCAGCT	0.507									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				78	251					0	0	0.01441	0	0		A	17117098	A	A	17117098	2	1	160	1	0	0	0	0	0	0	0	1	5935	1310	46	2		2	FLCN	17	17117098	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6688309	17117098	64078112	962	88232											
LLGL1	3996	broad.mit.edu	37	chr17	18133328	18133328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttcgcatcatggccatcgGcaccaggtctggggctgtca	7	9	12	13	2	3	0	2	0	1	0	5	0	3	0	2	5	0	3	2	5	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:18133328G>A	uc002gsp.2	+	2	216	c.155G>A	c.(154-156)GGC>GAC	p.G52D		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	52	WD 1.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					ATGGCCATCGGCACCAGGTCT	0.622													29	73					0	0	0.010818	0	0		A	18133328	A	A	18133328	3	1	160	1	0	0	0	0	1	0	0	0	8850	1203	42	2	161	2	LLGL1	17	18133328	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1016230	18133328	63061882	963	88233											
LLGL1	3996	broad.mit.edu	37	chr17	18138263	18138263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgctggacttcacttcccGcatcatcgacttcttcacag	8	11	7	15	3	4	0	3	0	1	0	6	3	5	1	1	1	0	2	1	1	0	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:18138263G>A	uc002gsp.2	+	9	1077	c.1016G>A	c.(1015-1017)CGC>CAC	p.R339H		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	339					cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					TTCACTTCCCGCATCATCGAC	0.612													14	28					0	0	0.00245	0	0		A	18138263	A	A	18138263	3	1	160	1	0	0	0	0	1	0	0	0	8850	1087	38	1	1050	1	LLGL1	17	18138263	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4935	18138263	63056947	964	88234											
FAM83G	644815	broad.mit.edu	37	chr17	18881935	18881935	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggccttgacaagtgcgtaCttggggttgacgagcttctt	6	14	13	8	2	1	2	0	2	1	0	1	3	1	2	1	3	3	3	1	3	2	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:18881935C>T	uc002guw.2	-	5	1211	c.1044G>A	c.(1042-1044)AAG>AAA	p.K348K	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	348										ovary(1)|central_nervous_system(1)	2						CAAGTGCGTACTTGGGGTTGA	0.622													85	162					0	0	0.01441	0	0		T	18881935	T	T	18881935	2	4	160	1	0	0	0	0	0	0	0	1	5653	564	20	4		4	FAM83G	17	18881935	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	743672	18881935	62313275	965	88235											
SLC47A1	55244	broad.mit.edu	37	chr17	19452949	19452949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttttcttttcgttatttaggCttacccagacctatgtcacg	7	18	6	10	2	2	1	1	0	1	1	3	1	2	1	2	1	1	2	2	1	4	9			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:19452949C>T	uc002gvy.1	+	5	543	c.457C>T	c.(457-459)CTT>TTT	p.L153F	SLC47A1_uc010vyy.1_RNA|SLC47A1_uc002gvx.2_Missense_Mutation_p.L153F|SLC47A1_uc010vyz.1_Missense_Mutation_p.L130F|SLC47A1_uc010cqp.1_Missense_Mutation_p.L153F|SLC47A1_uc010cqq.1_Silent_p.G4G	NM_018242	NP_060712	Q96FL8	S47A1_HUMAN	solute carrier family 47, member 1	153	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)					GTTATTTAGGCTTACCCAGAC	0.438													56	243					0	0	0.01441	0	0		T	19452949	T	T	19452949	3	4	160	1	0	0	0	0	1	0	0	0	14672	811	28	2	475	2	SLC47A1	17	19452949	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	571014	19452949	61742261	966	88236											
SUPT6H	6830	broad.mit.edu	37	chr17	27001457	27001457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggccacaagaagagaaaacGcagtgagtagtctgtcgttg	13	8	13	7	2	1	3	0	1	1	2	2	4	1	3	1	1	1	3	1	1	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:27001457G>A	uc002hby.2	+	3	356	c.266G>A	c.(265-267)CGC>CAC	p.R89H	SUPT6H_uc010crt.2_Missense_Mutation_p.R89H	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	89	Asp/Glu-rich.				chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					AAGAGAAAACGCAGTGAGTAG	0.498													15	50					0	0	0.007413	0	0		A	27001457	A	A	27001457	3	1	160	1	0	0	0	0	1	0	0	0	15425	1087	38	1	272	1	SUPT6H	17	27001457	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7548508	27001457	54193753	967	88237											
NEK8	284086	broad.mit.edu	37	chr17	27064381	27064381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgcacctatctctgacCggtacagccctgagcttcgc	6	11	8	16	2	1	2	0	2	1	0	3	2	1	2	4	1	4	3	4	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:27064381C>T	uc002hcp.2	+	5	676	c.676C>T	c.(676-678)CGG>TGG	p.R226W		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	226	Protein kinase.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					TATCTCTGACCGGTACAGCCC	0.587													8	34					0	0	0.00308	0	0		T	27064381	T	T	27064381	3	4	160	1	0	0	0	0	1	0	0	0	10349	643	23	1	694	1	NEK8	17	27064381	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	62924	27064381	54130829	968	88238											
FLOT2	2319	broad.mit.edu	37	chr17	27207775	27207775	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatgcacagaggcaggcaGctcggccagcagtcggttca	9	5	15	12	2	1	1	1	0	0	1	3	1	1	1	1	5	3	7	1	5	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:27207775G>A	uc002hdc.2	-	10	1327	c.1204C>T	c.(1204-1206)CTG>TTG	p.L402L		NM_004475	NP_004466	Q14254	FLOT2_HUMAN	flotillin 2	402					cell adhesion|epidermis development	cell surface|endocytic vesicle|endosome|membrane fraction					0	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;3.26e-06)|all cancers(11;1.76e-05)|BRCA - Breast invasive adenocarcinoma(11;0.00015)|OV - Ovarian serous cystadenocarcinoma(11;0.0602)			GAGGCAGGCAGCTCGGCCAGC	0.592													37	92					0	0	0.009718	0	0		A	27207775	A	A	27207775	2	1	160	1	0	0	0	0	0	0	0	1	5951	962	34	2		2	FLOT2	17	27207775	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	143394	27207775	53987435	969	88239											
SSH2	85464	broad.mit.edu	37	chr17	27977813	27977813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgacattcaagatatacCgtaccctgcaaggaaaccaa	16	7	8	10	1	1	2	1	1	0	1	1	4	1	3	3	1	4	2	3	1	7	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:27977813C>T	uc002heo.1	-	12	1004	c.1004G>A	c.(1003-1005)CGG>CAG	p.R335Q	SSH2_uc010wbh.1_Missense_Mutation_p.R362Q|SSH2_uc002hep.1_Missense_Mutation_p.R335Q	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	335	Tyrosine-protein phosphatase.				actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						CAAGATATACCGTACCCTGCA	0.403													58	174					0	0	0.01441	0	0		T	27977813	T	T	27977813	3	4	160	1	0	0	0	0	1	0	0	0	15210	652	23	1	3283	1	SSH2	17	27977813	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	770038	27977813	53217397	970	88240											
EFCAB5	374786	broad.mit.edu	37	chr17	28296322	28296322	+	Missense_Mutation	SNP	A	G	G	1	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	cccaggaatgtctggttaccAgaggttgatgaaagaagtca	13	9	12	7	0	2	4	1	2	1	2	2	5	2	5	2	3	1	2	2	3	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:28296322A>G	uc002het.2	+	4	896	c.704A>G	c.(703-705)CAG>CGG	p.Q235R	EFCAB5_uc010wbi.1_Intron|EFCAB5_uc010wbj.1_Missense_Mutation_p.Q179R|EFCAB5_uc010wbk.1_Intron|EFCAB5_uc010csd.2_RNA|EFCAB5_uc010cse.2_Missense_Mutation_p.Q114R|EFCAB5_uc010csf.2_Missense_Mutation_p.Q114R	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	235							calcium ion binding			ovary(1)|skin(1)	2						TCTGGTTACCAGAGGTTGATG	0.368													20	44					0	0	0.008871	0	0		G	28296322	G	G	28296322	3	3	160	1	0	0	0	0	1	0	0	0	4944	188	7	3	718	3	EFCAB5	17	28296322	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	318509	28296322	52898888	971	88241											
ACCN1	40	broad.mit.edu	37	chr17	31416001	31416001	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcactcctgcttcaaatgtCgtttcctctgaaagaacaaa	12	13	5	11	1	3	2	2	1	1	1	6	2	5	2	2	0	2	2	2	0	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:31416001C>T	uc002hhu.2	-	3	988	c.714G>A	c.(712-714)ACG>ACA	p.T238T	ACCN1_uc002hht.2_Silent_p.T289T	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	238	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	CTTCAAATGTCGTTTCCTCTG	0.493													22	60					0	0	0.00278	0	0		T	31416001	T	T	31416001	2	4	160	1	0	0	0	0	0	0	0	1	128	871	31	1		1	ACCN1	17	31416001	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	3119679	31416001	49779209	972	88242											
SLFN5	162394	broad.mit.edu	37	chr17	33586247	33586247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctttatttgatagaaagCggcttcagtatctggaaaaa	13	13	9	6	1	2	2	1	1	1	1	2	3	2	3	0	2	2	3	0	2	6	6	rs139273106		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:33586247C>T	uc002hjf.3	+	2	655	c.538C>T	c.(538-540)CGG>TGG	p.R180W	SLFN5_uc002hje.2_Missense_Mutation_p.R180W|SLFN5_uc010wcg.1_Missense_Mutation_p.R180W	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	180					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		TGATAGAAAGCGGCTTCAGTA	0.403													66	163					0	0	0.01441	0	0		T	33586247	T	T	33586247	3	4	160	1	0	0	0	0	1	0	0	0	14762	759	27	1	540	1	SLFN5	17	33586247	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2170246	33586247	47608963	973	88243											
RDM1	201299	broad.mit.edu	37	chr17	34251608	34251608	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcccagtgaaaacagacCttcctccaccttatccatag	12	9	4	16	0	0	2	0	1	0	1	4	2	4	2	6	0	1	0	6	0	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:34251608C>A	uc002hkh.2	-	4	617	c.568G>T	c.(568-570)GGA>TGA	p.G190*	RDM1_uc010cty.2_Intron|RDM1_uc010ctz.2_Intron|RDM1_uc010cua.2_Nonsense_Mutation_p.G167*|RDM1_uc002hkg.3_Nonsense_Mutation_p.E167*|RDM1_uc010cub.2_Intron|RDM1_uc010cud.2_Nonsense_Mutation_p.E190*|RDM1_uc010cuf.2_Intron|RDM1_uc010cue.2_Intron|RDM1_uc010cug.2_Intron|RDM1_uc010cuc.2_Intron|RDM1_uc010wco.1_Intron|RDM1_uc010wcp.1_Nonsense_Mutation_p.G167*|RDM1_uc002hki.2_Nonsense_Mutation_p.G190*	NM_145654	NP_663629	Q8NG50	RDM1_HUMAN	RAD52 motif 1 isoform 1	190					DNA recombination|DNA repair	Cajal body|cytoplasm|nucleolus|PML body	DNA binding|nucleotide binding|RNA binding			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GAAAACAGACCTTCCTCCACC	0.453								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					80	205					3.37217e-29	3.78662e-29	0.01441	1	0		A	34251608	A	A	34251608	4	1	160	1	0	0	0	0	0	1	0	0	13222	695	24	5	346	5	RDM1	17	34251608	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	665361	34251608	46943602	974	88244											
GPR179	440435	broad.mit.edu	37	chr17	36499438	36499438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccccacgcgcttcatagcGctcactgcaattcacctgtg	7	10	8	16	3	3	0	3	0	0	0	3	0	3	0	3	0	3	3	3	0	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:36499438G>A	uc002hpz.2	-	1	256	c.235C>T	c.(235-237)CGC>TGC	p.R79C		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	79	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				GCTTCATAGCGCTCACTGCAA	0.627													6	60					0	0	0.001168	0	0		A	36499438	A	A	36499438	3	1	160	1	0	0	0	0	1	0	0	0	6689	1087	38	1	6912	1	GPR179	17	36499438	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2247830	36499438	44695772	975	88245											
MLLT6	4302	broad.mit.edu	37	chr17	36880978	36880978	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgcccatggccagcctgCtggcaggaagctccaccccg	7	5	12	17	1	0	0	0	0	0	0	1	1	1	1	6	3	5	4	6	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:36880978C>T	uc002hqi.3	+	19	3002	c.2989C>T	c.(2989-2991)CTG>TTG	p.L997L	MLLT6_uc002hqk.3_Silent_p.L328L|MLLT6_uc010cvn.1_5'Flank	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	997					regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					GGCCAGCCTGCTGGCAGGAAG	0.672			T	MLL	AL								3	5					0	0	0.009096	0	0		T	36880978	T	T	36880978	2	4	160	1	0	0	0	0	0	0	0	1	9648	796	28	2		2	MLLT6	17	36880978	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	381540	36880978	44314232	976	88246											
CDK12	51755	broad.mit.edu	37	chr17	37657601	37657601	+	Missense_Mutation	SNP	A	G	G	1	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	aggaccatatcaagtcgttcAtgaaacagctaatggaagga	16	8	10	7	1	2	1	2	1	0	0	3	4	2	4	1	3	2	2	1	3	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:37657601A>G	uc010cvv.2	+	6	3104	c.2518A>G	c.(2518-2520)ATG>GTG	p.M840V	CDK12_uc010wef.1_Missense_Mutation_p.M839V|CDK12_uc002hrw.3_Missense_Mutation_p.M840V	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	840	Protein kinase.				mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						CAAGTCGTTCATGAAACAGCT	0.383										TCGA Ovarian(9;0.13)			70	201					0	0	0.01441	0	0		G	37657601	G	G	37657601	3	3	160	1	0	0	0	0	1	0	0	0	3131	217	8	3	2540	3	CDK12	17	37657601	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	776623	37657601	43537609	977	88247											
PSMD3	5709	broad.mit.edu	37	chr17	38153813	38153813	+	Missense_Mutation	SNP	T	A	A	0	1	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	gccaaggagatggcagaagaTgatgatgacagcttcccttg	12	8	13	8	0	0	6	0	3	0	3	1	7	1	6	2	2	1	2	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:38153813T>A	uc002htn.1	+	12	1748	c.1584T>A	c.(1582-1584)GAT>GAA	p.D528E	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Missense_Mutation_p.D429E	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	528					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					TGGCAGAAGATGATGATGACA	0.617													6	75					0	0	0.001168	0	0		A	38153813	A	A	38153813	3	1	160	1	0	0	0	0	1	0	0	0	12721	1461	51	5	1630	5	PSMD3	17	38153813	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	496212	38153813	43041397	978	88248											
KRT27	342574	broad.mit.edu	37	chr17	38933343	38933343	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagagaactttgccacgagGatctatctcttcaacaactg	12	11	8	10	1	3	2	1	1	2	1	4	5	3	3	1	1	4	0	1	1	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:38933343G>T	uc002hvg.2	-	8	1329	c.1288C>A	c.(1288-1290)CCT>ACT	p.P430T		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	430	Tail.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				TTGCCACGAGGATCTATCTCT	0.373													40	124					7.04047e-22	7.79996e-22	0.005524	1	0		T	38933343	T	T	38933343	3	4	160	1	0	0	0	0	1	0	0	0	8480	1174	41	5	95	5	KRT27	17	38933343	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	779530	38933343	42261867	979	88249											
HAP1	9001	broad.mit.edu	37	chr17	39888507	39888507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttggctgagcccagcaggGcttccagcttgctgttctcc	4	11	11	15	0	1	1	0	1	1	0	3	1	2	1	4	2	4	6	4	2	0	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:39888507G>A	uc002hxm.1	-	3	701	c.689C>T	c.(688-690)GCC>GTC	p.A230V	JUP_uc010wfs.1_Intron|HAP1_uc002hxn.1_Missense_Mutation_p.A230V|HAP1_uc002hxo.1_Missense_Mutation_p.A238V|HAP1_uc002hxp.1_Missense_Mutation_p.A230V	NM_177977	NP_817084	P54257	HAP1_HUMAN	huntingtin-associated protein 1 isoform 2	230	HAP1 N-terminal.				brain development|protein localization|synaptic transmission	actin cytoskeleton	protein binding			ovary(2)	2		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			GCCCAGCAGGGCTTCCAGCTT	0.602													41	94					0	0	0.007835	0	0		A	39888507	A	A	39888507	3	1	160	1	0	0	0	0	1	0	0	0	6969	1203	42	2	1206	2	HAP1	17	39888507	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	955164	39888507	41306703	980	88250											
KLHL10	317719	broad.mit.edu	37	chr17	39994259	39994259	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagatgagtgcgatggcCtgtgagatcttcaacgagct	11	9	14	7	2	2	3	1	2	1	2	2	7	2	4	1	2	3	1	1	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:39994259C>A	uc010cxr.2	+	1	217	c.75C>A	c.(73-75)GCC>GCA	p.A25A	NT5C3L_uc010wfu.1_5'Flank|NT5C3L_uc002hyb.3_5'Flank|NT5C3L_uc002hyc.3_5'Flank|NT5C3L_uc002hyd.3_5'Flank|NT5C3L_uc002hxy.3_5'Flank|NT5C3L_uc002hxz.3_5'Flank|NT5C3L_uc002hya.3_5'Flank|KLHL10_uc010wfv.1_Silent_p.A25A|KLHL10_uc010wfw.1_Translation_Start_Site	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	25						cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				GTGCGATGGCCTGTGAGATCT	0.562													19	142					7.07596e-05	7.35294e-05	0.006122	1	0		A	39994259	A	A	39994259	2	1	160	1	0	0	0	0	0	0	0	1	8382	668	24	5		5	KLHL10	17	39994259	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	105752	39994259	41200951	981	88251											
HSD17B1	3292	broad.mit.edu	37	chr17	40705607	40705607	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcgcggttcgggacgcgtgtTggtgaccgggagcgtgggag	4	7	22	8	7	0	1	0	1	0	0	1	4	0	4	1	5	1	2	1	5	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:40705607T>C	uc002hzw.2	+	3	1384	c.416T>C	c.(415-417)TTG>TCG	p.L139S	HSD17B1_uc002hzx.2_Missense_Mutation_p.L139S|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_5'UTR|HSD17B1_uc010cyi.2_Missense_Mutation_p.L170S	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	139					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	GGACGCGTGTTGGTGACCGGG	0.617													11	40					0	0	0.013537	0	0		C	40705607	C	C	40705607	3	2	160	1	0	0	0	0	1	0	0	0	7394	1821	63	3	426	3	HSD17B1	17	40705607	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	711348	40705607	40489603	982	88252											
EZH1	2145	broad.mit.edu	37	chr17	40856673	40856673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atttgtcatagacctttccgCgtcgatcagcctcatcctga	8	13	7	13	3	3	2	3	1	0	1	6	3	5	2	4	0	1	0	4	0	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:40856673C>T	uc002iaz.2	-	18	2109	c.1964G>A	c.(1963-1965)CGC>CAC	p.R655H	EZH1_uc002iba.2_Missense_Mutation_p.R646H|EZH1_uc010wgt.1_Missense_Mutation_p.R585H|EZH1_uc010wgu.1_Missense_Mutation_p.R661H|EZH1_uc010wgv.1_Missense_Mutation_p.R615H|EZH1_uc010wgw.1_Missense_Mutation_p.R516H|EZH1_uc010cyp.2_Missense_Mutation_p.R556H|EZH1_uc010cyq.2_Missense_Mutation_p.R572H|EZH1_uc010cyo.1_Missense_Mutation_p.R318H	NM_001991	NP_001982	Q92800	EZH1_HUMAN	enhancer of zeste homolog 1	655	SET.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	chromatin binding|DNA binding			ovary(3)	3		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0784)		GACCTTTCCGCGTCGATCAGC	0.448													20	42					0	0	0.010504	0	0		T	40856673	T	T	40856673	3	4	160	1	0	0	0	0	1	0	0	0	5341	768	27	1	295	1	EZH1	17	40856673	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	151066	40856673	40338537	983	88253											
UBTF	7343	broad.mit.edu	37	chr17	42293150	42293150	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcggaaataaggggtcaGgggcttctttgggaagtctg	10	9	17	5	1	3	0	1	0	2	0	3	3	3	2	0	6	1	1	0	6	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:42293150G>T	uc002igb.2	-	4	413	c.346C>A	c.(346-348)CTG>ATG	p.L116M	UBTF_uc002igc.2_Missense_Mutation_p.L116M|UBTF_uc010czs.2_Missense_Mutation_p.L116M|UBTF_uc002igd.2_Missense_Mutation_p.L116M|UBTF_uc010czt.2_Missense_Mutation_p.L116M|UBTF_uc002ige.2_Missense_Mutation_p.L116M	NM_014233	NP_055048	P17480	UBF1_HUMAN	upstream binding transcription factor, RNA	116	HMG box 1.				positive regulation of transcription from RNA polymerase I promoter|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleolus|nucleoplasm	DNA binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.114)		TAAGGGGTCAGGGGCTTCTTT	0.502													53	119					9.90819e-18	1.08828e-17	0.01441	1	0		T	42293150	T	T	42293150	3	4	160	1	0	0	0	0	1	0	0	0	16935	991	35	5	2016	5	UBTF	17	42293150	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1436477	42293150	38902060	984	88254											
GPATCH8	23131	broad.mit.edu	37	chr17	42476878	42476878	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggaatggcgccggccaGaccttgagcggctgcgggaa	8	4	18	11	5	0	2	0	1	0	1	0	5	0	4	3	5	2	1	3	5	2	1	rs145134773		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:42476878G>T	uc002igw.1	-	8	2631	c.2567C>A	c.(2566-2568)TCT>TAT	p.S856Y	GPATCH8_uc002igv.1_Missense_Mutation_p.S778Y|GPATCH8_uc010wiz.1_Missense_Mutation_p.S778Y	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	856	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GCGCCGGCCAGACCTTGAGCG	0.562													42	155					3.4597e-24	3.85416e-24	0.01441	1	0		T	42476878	T	T	42476878	3	4	160	1	0	0	0	0	1	0	0	0	6609	942	33	5	1945	5	GPATCH8	17	42476878	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	183728	42476878	38718332	985	88255											
KIF18B	146909	broad.mit.edu	37	chr17	43009431	43009431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaagtcctacctcctcaGctgggccttcatcctcatcc	6	10	5	20	0	3	0	3	0	0	0	7	0	7	0	8	1	2	1	8	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:43009431G>A	uc010wji.1	-	10	1519	c.1418C>T	c.(1417-1419)GCT>GTT	p.A473V	KIF18B_uc002iht.2_Missense_Mutation_p.A473V|KIF18B_uc010wjh.1_Missense_Mutation_p.A461V	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				TACCTCCTCAGCTGGGCCTTC	0.587													11	29					0	0	0.013537	0	0		A	43009431	A	A	43009431	3	1	160	1	0	0	0	0	1	0	0	0	8297	971	34	2	1176	2	KIF18B	17	43009431	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	532553	43009431	38185779	986	88256											
NSF	4905	broad.mit.edu	37	chr17	44828940	44828940	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagggaagaaggtctggatAggaatcaagaagttactaat	18	8	12	3	0	2	2	1	0	1	2	2	5	2	5	0	4	1	1	0	4	9	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:44828940A>G	uc002iku.2	+	19	2219	c.2115A>G	c.(2113-2115)ATA>ATG	p.I705M	NSF_uc010wke.1_Missense_Mutation_p.I611M|NSF_uc010wkf.1_Missense_Mutation_p.I611M|NSF_uc010wkg.1_Missense_Mutation_p.I700M	NM_006178	NP_006169	P46459	NSF_HUMAN	vesicle-fusing ATPase	705					protein transport|synaptic transmission	cytosol	ATP binding|metal ion binding			ovary(1)	1		Melanoma(429;0.203)	BRCA - Breast invasive adenocarcinoma(9;0.0257)	BRCA - Breast invasive adenocarcinoma(366;0.241)		AGGTCTGGATAGGAATCAAGA	0.423													15	33					0	0	0.004007	0	0		G	44828940	G	G	44828940	3	3	160	1	0	0	0	0	1	0	0	0	10690	410	15	3	2189	3	NSF	17	44828940	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1819509	44828940	36366270	987	88257											
WNT9B	7484	broad.mit.edu	37	chr17	44950021	44950021	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctctgccggagggagccCggcctggctgagaccctgag	6	5	16	14	2	1	2	0	2	1	1	1	5	1	4	4	4	3	2	4	4	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:44950021C>T	uc002ikw.1	+	2	253	c.216C>T	c.(214-216)CCC>CCT	p.P72P	WNT9B_uc002ikx.1_Silent_p.P72P	NM_003396	NP_003387	O14905	WNT9B_HUMAN	wingless-type MMTV integration site family,	72					anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|collecting duct development|cornea development in camera-type eye|endoderm development|establishment of planar polarity involved in nephron morphogenesis|kidney rudiment formation|male genitalia development|mesonephric duct formation|metanephric tubule development|neuron differentiation|palate development|regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|uterus morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway|Wnt receptor signaling pathway, planar cell polarity pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GGAGGGAGCCCGGCCTGGCTG	0.682													6	31					0	0	0.001984	0	0		T	44950021	T	T	44950021	2	4	160	1	0	0	0	0	0	0	0	1	17425	639	23	1		1	WNT9B	17	44950021	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	121081	44950021	36245189	988	88258											
C17orf57	124989	broad.mit.edu	37	chr17	45517967	45517967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attcgatagttaaagcacagGtaagtaagaagcaatacaat	19	9	8	5	1	0	1	0	0	0	1	1	2	0	1	0	1	3	5	0	1	9	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:45517967G>A	uc002iln.2	+	25	3220	c.2809G>A	c.(2809-2811)GTA>ATA	p.V937I		NM_152347	NP_689560	Q8IY85	CQ057_HUMAN	hypothetical protein LOC124989	937							calcium ion binding			breast(1)|central_nervous_system(1)|skin(1)	3						TAAAGCACAGGTAAGTAAGAA	0.303													6	192					0	0	0.001168	0	0		A	45517967	A	A	45517967	3	1	160	1	0	0	0	0	1	0	0	0	1868	1261	44	4	2895	4	C17orf57	17	45517967	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	567946	45517967	35677243	989	88259											
TBKBP1	9755	broad.mit.edu	37	chr17	45787930	45787930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagctgggtttccctgtcGggtacccggatgatgccctc	4	10	13	14	2	0	1	0	1	0	0	3	2	1	2	4	3	3	3	4	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:45787930G>A	uc002ilu.2	+	9	2635	c.1786G>A	c.(1786-1788)GGG>AGG	p.G596R		NM_014726	NP_055541	A7MCY6	TBKB1_HUMAN	TBK1 binding protein 1	596					innate immune response						0						TTTCCCTGTCGGGTACCCGGA	0.592													22	58					0	0	0.014323	0	0		A	45787930	A	A	45787930	3	1	160	1	0	0	0	0	1	0	0	0	15663	1116	39	1	1820	1	TBKBP1	17	45787930	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	269963	45787930	35407280	990	88260											
SP6	80320	broad.mit.edu	37	chr17	45925335	45925335	+	Frame_Shift_Del	DEL	C	-	-																															gctggtggtctccgacgtagCcccccaagcccgcctgaagc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:45925335delC	uc002img.1	-	2	793	c.461delG	c.(460-462)GGCfs	p.G154fs	SP6_uc002imh.1_Frame_Shift_Del_p.G154fs	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCCGACGTAGCCCCCCAAGCC	0.711													5	6	---	---	---	---						.	-	45925335	-	-	45925335	7	5	160	1	0	1	0	1	0	0	0	0	14993	739	26	0	673	0	SP6	17	45925335	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	137405	45925335	35269875	991	88261											
XYLT2	64132	broad.mit.edu	37	chr17	48434049	48434049	+	Missense_Mutation	SNP	A	G	G	1	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	ccagtgggctcagtgatgtcAtgctcactgcttacacagcc	8	10	10	13	0	3	1	3	1	0	0	3	1	3	1	2	1	4	3	2	1	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:48434049A>G	uc002iqo.2	+	8	1769	c.1660A>G	c.(1660-1662)ATG>GTG	p.M554V	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	554	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					CAGTGATGTCATGCTCACTGC	0.652													31	58					0	0	0.010818	0	0		G	48434049	G	G	48434049	3	3	160	1	0	0	0	0	1	0	0	0	17490	217	8	3	1690	3	XYLT2	17	48434049	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2508714	48434049	32761161	992	88262											
ABCC3	8714	broad.mit.edu	37	chr17	48753735	48753735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgcacaacaagatacgctCgccacagtccttctttgaca	11	9	7	14	2	1	2	0	1	1	1	3	2	2	2	2	0	3	3	2	0	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:48753735C>T	uc002isl.2	+	23	3244	c.3164C>T	c.(3163-3165)TCG>TTG	p.S1055L	ABCC3_uc002isn.2_5'Flank	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	1055	Cytoplasmic (By similarity).|ABC transmembrane type-1 2.				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	AAGATACGCTCGCCACAGTCC	0.577													115	223					0	0	0.01441	0	0		T	48753735	T	T	48753735	3	4	160	1	0	0	0	0	1	0	0	0	54	893	31	1	3338	1	ABCC3	17	48753735	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	319686	48753735	32441475	993	88263											
SUPT4H1	6827	broad.mit.edu	37	chr17	56424577	56424577	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgaccagtgactgacacCgcatatacacctggcttaaa	13	7	9	12	2	0	2	0	2	0	0	0	3	0	2	3	2	1	2	3	2	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:56424577C>T	uc002iwe.1	-	4	325	c.258G>A	c.(256-258)GCG>GCA	p.A86A	uc010dct.1_Intron|uc010dcu.1_Intron|uc002ivz.2_Intron|uc010dcv.1_Intron|uc002iwa.2_Intron|uc002iwb.2_Intron|uc002iwc.2_Intron|SUPT4H1_uc002iwd.1_RNA	NM_003168	NP_003159	P63272	SPT4H_HUMAN	suppressor of Ty 4 homolog 1	86					chromatin remodeling|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGACTGACACCGCATATACAC	0.274													49	183					0	0	0.01441	0	0		T	56424577	T	T	56424577	2	4	160	1	0	0	0	0	0	0	0	1	15423	639	23	1		1	SUPT4H1	17	56424577	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	7670842	56424577	24770633	994	88264											
RNF43	54894	broad.mit.edu	37	chr17	56436149	56436149	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctggttcttggtaagatcGagagggtcccagggactggg	8	9	16	8	1	1	2	0	0	1	2	3	4	2	3	2	5	0	2	2	5	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:56436149G>A	uc002iwf.2	-	8	2944	c.988C>T	c.(988-990)CGA>TGA	p.R330*	RNF43_uc010wnv.1_Nonsense_Mutation_p.R289*|RNF43_uc002iwh.3_Nonsense_Mutation_p.R330*|RNF43_uc002iwg.3_Nonsense_Mutation_p.R330*|RNF43_uc010dcw.2_Nonsense_Mutation_p.R203*	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	330	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGGTAAGATCGAGAGGGTCCC	0.522													4	14					0	0	0.000602	0	0		A	56436149	A	A	56436149	4	1	160	1	0	0	0	0	0	1	0	0	13520	1066	37	1	1371	1	RNF43	17	56436149	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	11572	56436149	24759061	995	88265											
RNF43	54894	broad.mit.edu	37	chr17	56437515	56437515	+	Missense_Mutation	SNP	A	G	G	1	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	tggcccacctcctacctgtgAtgttgaacatgcagaggggg	8	9	13	11	0	0	3	0	2	0	1	1	3	1	3	4	3	3	2	4	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:56437515A>G	uc002iwf.2	-	7	2903	c.947T>C	c.(946-948)ATC>ACC	p.I316T	RNF43_uc010wnv.1_Missense_Mutation_p.I275T|RNF43_uc002iwh.3_Missense_Mutation_p.I316T|RNF43_uc002iwg.3_Missense_Mutation_p.I316T|RNF43_uc010dcw.2_Missense_Mutation_p.I189T	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	316	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCTACCTGTGATGTTGAACAT	0.557													41	100					0	0	0.00874	0	0		G	56437515	G	G	56437515	3	3	160	1	0	0	0	0	1	0	0	0	13520	333	12	3	1416	3	RNF43	17	56437515	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1366	56437515	24757695	996	88266											
PPM1E	22843	broad.mit.edu	37	chr17	57058168	57058168	+	Missense_Mutation	SNP	A	G	G	1	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	caaagaagtggcacagattcAggtttaatccaaagttttat	15	12	8	6	0	1	2	1	0	0	2	2	2	2	2	1	2	0	3	1	2	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:57058168A>G	uc002iwx.2	+	7	2171	c.2044A>G	c.(2044-2046)AGG>GGG	p.R682G	PPM1E_uc010ddd.2_Missense_Mutation_p.R445G	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	691					protein dephosphorylation	cytoplasm|nucleolus|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			breast(3)|lung(1)|skin(1)	5	Medulloblastoma(34;0.127)|all_neural(34;0.237)		BRCA - Breast invasive adenocarcinoma(1;5.76e-11)			GCACAGATTCAGGTTTAATCC	0.428													52	157					0	0	0.01441	0	0		G	57058168	G	G	57058168	3	3	160	1	0	0	0	0	1	0	0	0	12360	179	7	3	2070	3	PPM1E	17	57058168	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	620653	57058168	24137042	997	88267											
DHX40	79665	broad.mit.edu	37	chr17	57684403	57684403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgttttcagatggaatatCgaaagacgtcttaaagaaaa	18	11	8	4	2	2	3	1	0	1	3	3	5	2	4	0	1	0	1	0	1	8	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:57684403C>T	uc002ixn.1	+	18	2357	c.2210C>T	c.(2209-2211)TCG>TTG	p.S737L	DHX40_uc010woe.1_Missense_Mutation_p.S660L|DHX40_uc010wof.1_Missense_Mutation_p.S252L	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	737							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					GATGGAATATCGAAAGACGTC	0.373													26	79					0	0	0.007291	0	0		T	57684403	T	T	57684403	3	4	160	1	0	0	0	0	1	0	0	0	4518	893	31	1	2280	1	DHX40	17	57684403	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	626235	57684403	23510807	998	88268											
CLTC	1213	broad.mit.edu	37	chr17	57743872	57743872	+	Missense_Mutation	SNP	T	C	C	0	1	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	tattctaggcaatcagatgtTcacacattatgaccgggctc	11	12	8	10	1	3	2	2	1	1	1	4	2	3	2	1	2	0	3	1	2	4	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:57743872T>C	uc002ixq.1	+	12	2257	c.1814T>C	c.(1813-1815)TTC>TCC	p.F605S	CLTC_uc002ixp.2_Missense_Mutation_p.F605S|CLTC_uc002ixr.1_Missense_Mutation_p.F609S	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	605	Heavy chain arm.|Distal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					AATCAGATGTTCACACATTAT	0.388			T	ALK|TFE3	ALCL|renal 								34	104					0	0	0.004289	0	0		C	57743872	C	C	57743872	3	2	160	1	0	0	0	0	1	0	0	0	3569	1783	62	3	1860	3	CLTC	17	57743872	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	59469	57743872	23451338	999	88269											
HEATR6	63897	broad.mit.edu	37	chr17	58136828	58136828	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggttccagactttggtcaGcaggctgagttttagacgat	8	13	12	8	1	1	3	1	1	0	2	2	4	2	3	1	3	1	4	1	3	1	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:58136828G>A	uc002iyk.1	-	11	1695	c.1678C>T	c.(1678-1680)CTG>TTG	p.L560L	HEATR6_uc010ddk.1_Silent_p.L99L|HEATR6_uc010wos.1_Silent_p.L392L	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	560	HEAT 4.						binding			ovary(1)|skin(1)	2	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)			ACTTTGGTCAGCAGGCTGAGT	0.388													5	155					0	0	0.000602	0	0		A	58136828	A	A	58136828	2	1	160	1	0	0	0	0	0	0	0	1	7049	962	34	2		2	HEATR6	17	58136828	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	392956	58136828	23058382	1000	88270											
MRC2	9902	broad.mit.edu	37	chr17	60741989	60741989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcaggtcagagtcaccccgGcttgcaataccagcctccct	8	7	10	16	1	2	1	2	0	0	1	3	1	3	1	5	3	3	3	5	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:60741989G>A	uc002jad.2	+	2	601	c.199G>A	c.(199-201)GCT>ACT	p.A67T	MRC2_uc002jac.2_Missense_Mutation_p.A67T	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	67	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						AGTCACCCCGGCTTGCAATAC	0.632													40	107					0	0	0.006999	0	0		A	60741989	A	A	60741989	3	1	160	1	0	0	0	0	1	0	0	0	9776	1203	42	2	205	2	MRC2	17	60741989	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2605161	60741989	20453221	1001	88271											
STRADA	92335	broad.mit.edu	37	chr17	61781922	61781922	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaggcagggcactgtgccGttcagtttctctagcagcat	9	10	11	11	1	2	0	1	0	1	0	3	0	2	0	1	2	4	6	1	2	2	3	rs147552949		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:61781922G>A	uc002jbm.2	-	11	1038	c.879C>T	c.(877-879)AAC>AAT	p.N293N	STRADA_uc002jbn.2_Silent_p.N235N|STRADA_uc002jbo.2_Silent_p.N256N|STRADA_uc002jbp.2_Silent_p.N256N|STRADA_uc002jbq.2_Silent_p.N235N|STRADA_uc010wpq.1_Silent_p.N249N|STRADA_uc010wpr.1_Silent_p.N264N|STRADA_uc010ddw.2_Silent_p.N264N|STRADA_uc002jbr.2_3'UTR	NM_001003787	NP_001003787	Q7RTN6	STRAA_HUMAN	STE20-related kinase adaptor alpha isoform 1	293	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|kinase binding|protein kinase activity			ovary(1)	1						GCACTGTGCCGTTCAGTTTCT	0.632													23	59					0	0	0.014323	0	0		A	61781922	A	A	61781922	2	1	160	1	0	0	0	0	0	0	0	1	15349	1136	40	1		1	STRADA	17	61781922	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1039933	61781922	19413288	1002	88272											
CCDC45	90799	broad.mit.edu	37	chr17	62525505	62525505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggagagaaaaaggcagcGcaagccaagagaaacagatg	18	3	13	7	1	0	3	0	0	0	3	0	6	0	4	1	2	3	2	1	2	5	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:62525505G>A	uc002jem.2	+	12	1464	c.1406G>A	c.(1405-1407)CGC>CAC	p.R469H	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.R305H	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	469						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			AAAAGGCAGCGCAAGCCAAGA	0.498													4	40					0	0	0.000602	0	0		A	62525505	A	A	62525505	3	1	160	1	0	0	0	0	1	0	0	0	2819	1087	38	1	1452	1	CCDC45	17	62525505	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	743583	62525505	18669705	1003	88273											
USH1G	124590	broad.mit.edu	37	chr17	72916266	72916266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgccgccctgcttgcgcCgctccagcttcttctgcatc	2	12	8	19	4	2	0	0	0	2	0	5	0	3	0	4	0	4	4	4	0	0	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:72916266C>T	uc002jme.1	-	2	848	c.665G>A	c.(664-666)CGG>CAG	p.R222Q	USH1G_uc010wro.1_Missense_Mutation_p.R119Q	NM_173477	NP_775748	Q495M9	USH1G_HUMAN	Usher syndrome 1G protein	222					equilibrioception|photoreceptor cell maintenance|sensory perception of sound	actin cytoskeleton				skin(2)	2	all_lung(278;0.172)|Lung NSC(278;0.207)					CTGCTTGCGCCGCTCCAGCTT	0.682													23	58					0	0	0.00333	0	0		T	72916266	T	T	72916266	3	4	160	1	0	0	0	0	1	0	0	0	17061	652	23	1	728	1	USH1G	17	72916266	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	10390761	72916266	8278944	1004	88274											
RECQL5	9400	broad.mit.edu	37	chr17	73627686	73627686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tggggttctggcagtggtcgCagcctttggcgcaggcaggc	4	9	18	10	2	1	0	0	0	1	0	2	0	1	0	1	7	1	5	1	7	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:73627686C>T	uc010dgl.2	-	9	1448	c.1292G>A	c.(1291-1293)TGC>TAC	p.C431Y	RECQL5_uc010dgk.2_Missense_Mutation_p.C404Y|RECQL5_uc002jot.3_5'Flank|LOC643008_uc002jow.2_5'Flank	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	431					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	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)			GCAGTGGTCGCAGCCTTTGGC	0.697								Other_identified_genes_with_known_or_suspected_DNA_repair_function					8	25					0	0	0.008291	0	0		T	73627686	T	T	73627686	3	4	160	1	0	0	0	0	1	0	0	0	13228	710	25	2	1731	2	RECQL5	17	73627686	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	711420	73627686	7567524	1005	88275											
PRPSAP1	5635	broad.mit.edu	37	chr17	74324878	74324878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcgtccatgtccagttccGtgcactgagcttccccgtga	6	11	9	15	3	0	2	0	2	0	0	5	2	4	2	5	0	2	3	5	0	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:74324878G>A	uc010wta.1	-	7	1147	c.701C>T	c.(700-702)ACG>ATG	p.T234M	PRPSAP1_uc010wtb.1_Missense_Mutation_p.T131M	NM_002766	NP_002757	Q14558	KPRA_HUMAN	phosphoribosyl pyrophosphate	205					nucleotide biosynthetic process		enzyme inhibitor activity|identical protein binding|magnesium ion binding|ribose phosphate diphosphokinase activity			ovary(1)	1						GTCCAGTTCCGTGCACTGAGC	0.547													14	40					0	0	0.004007	0	0		A	74324878	A	A	74324878	3	1	160	1	0	0	0	0	1	0	0	0	12603	1145	40	1	472	1	PRPSAP1	17	74324878	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	697192	74324878	6870332	1006	88276											
USP36	57602	broad.mit.edu	37	chr17	76798447	76798447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agccattcgcggatggtgcgCagctgctggactcggggaca	7	7	16	11	4	0	0	0	0	0	0	2	3	0	3	1	5	4	3	1	5	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:76798447C>T	uc002jvz.1	-	17	3306	c.2981G>A	c.(2980-2982)TGC>TAC	p.C994Y	USP36_uc002jwa.1_Missense_Mutation_p.C994Y|USP36_uc002jwb.1_Missense_Mutation_p.C606Y|USP36_uc002jvy.1_Missense_Mutation_p.C54Y	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	992					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GGATGGTGCGCAGCTGCTGGA	0.642													8	14					0	0	0.003163	0	0		T	76798447	T	T	76798447	3	4	160	1	0	0	0	0	1	0	0	0	17093	710	25	2	406	2	USP36	17	76798447	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2473569	76798447	4396763	1007	88277											
RNF213	57674	broad.mit.edu	37	chr17	78319326	78319326	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacgtatgagctcacaacCgacaatatgcttaaaatcct	17	9	5	10	2	1	1	1	1	0	0	2	2	2	1	2	0	4	3	2	0	8	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:78319326C>A	uc002jyh.1	+	4	1633	c.1410C>A	c.(1408-1410)ACC>ACA	p.T470T		NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AGCTCACAACCGACAATATGC	0.507													21	69					4.35082e-09	4.63406e-09	0.010504	1	0		A	78319326	A	A	78319326	2	1	160	1	0	0	0	0	0	0	0	1	13502	639	23	5		5	RNF213	17	78319326	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1520879	78319326	2875884	1008	88278											
C17orf56	146705	broad.mit.edu	37	chr17	79202797	79202797	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttggctgctgtcctctgggaCgatgtttggggggcgcgggg	2	11	20	8	3	1	0	0	0	1	0	2	2	2	1	1	7	1	3	1	7	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:79202797C>T	uc002jzu.1	-	12	1531	c.1509G>A	c.(1507-1509)TCG>TCA	p.S503S	C17orf56_uc002jzr.1_Silent_p.S173S|C17orf56_uc002jzs.1_Silent_p.S419S|C17orf56_uc002jzt.1_Silent_p.S419S|C17orf56_uc002jzv.1_Silent_p.S351S|uc002jzw.1_RNA	NM_144679	NP_653280	Q96N21	CQ056_HUMAN	hypothetical protein LOC146705	503						integral to membrane					0	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			TCCTCTGGGACGATGTTTGGG	0.657													9	13					0	0	0.006214	0	0		T	79202797	T	T	79202797	2	4	160	1	0	0	0	0	0	0	0	1	1867	523	19	1		1	C17orf56	17	79202797	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	883471	79202797	1992413	1009	88279											
SLC38A10	124565	broad.mit.edu	37	chr17	79220848	79220848	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acggcgtggtccagcatctcCgccctgccagcttctgggtt	4	10	12	15	3	2	0	0	0	2	0	4	0	3	0	4	3	3	3	4	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:79220848C>T	uc002jzz.1	-	15	2454	c.2079G>A	c.(2077-2079)GCG>GCA	p.A693A	SLC38A10_uc002jzy.1_Silent_p.A611A	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	693					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CCAGCATCTCCGCCCTGCCAG	0.632													14	30					0	0	0.003163	0	0		T	79220848	T	T	79220848	2	4	160	1	0	0	0	0	0	0	0	1	14627	639	23	1		1	SLC38A10	17	79220848	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	18051	79220848	1974362	1010	88280											
NPLOC4	55666	broad.mit.edu	37	chr17	79573742	79573742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttcagcgtgatggcgctcGgctggcacttagtacagatg	7	11	14	9	3	1	2	1	1	0	1	2	2	1	2	0	3	2	5	0	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:79573742G>A	uc002kat.3	-	7	811	c.629C>T	c.(628-630)CCG>CTG	p.P210L	NPLOC4_uc002kau.3_Missense_Mutation_p.P210L|NPLOC4_uc010wur.1_Missense_Mutation_p.P49L	NM_017921	NP_060391	Q8TAT6	NPL4_HUMAN	nuclear protein localization 4	210					cellular membrane fusion|ER-associated protein catabolic process|Golgi organization	cytosol|endoplasmic reticulum|nuclear outer membrane-endoplasmic reticulum membrane network|nucleus	zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GATGGCGCTCGGCTGGCACTT	0.532													11	66					0	0	0.013537	0	0		A	79573742	A	A	79573742	3	1	160	1	0	0	0	0	1	0	0	0	10605	1116	39	1	1241	1	NPLOC4	17	79573742	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	352894	79573742	1621468	1011	88281											
PYCR1	5831	broad.mit.edu	37	chr17	79894022	79894022	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagcagaaactgtggccaGgtccatgtctggggagctag	10	7	16	8	0	1	2	0	0	1	2	2	4	2	3	2	4	3	2	2	4	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:79894022G>A	uc002kcr.1	-	2	393	c.115C>T	c.(115-117)CTG>TTG	p.L39L	PYCR1_uc002kcq.1_Silent_p.L39L|PYCR1_uc002kcp.2_Silent_p.L39L|PYCR1_uc002kcs.1_Silent_p.L39L|PYCR1_uc010wvd.1_Silent_p.L66L|PYCR1_uc002kct.1_Silent_p.L39L|PYCR1_uc002kcu.1_Silent_p.L39L|PYCR1_uc010wve.1_5'Flank	NM_006907	NP_008838	P32322	P5CR1_HUMAN	pyrroline-5-carboxylate reductase 1 isoform 1	39					cellular response to oxidative stress|proline biosynthetic process	mitochondrial matrix	binding|pyrroline-5-carboxylate reductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)		L-Proline(DB00172)|NADH(DB00157)	ACTGTGGCCAGGTCCATGTCT	0.493													19	48					0	0	0.007413	0	0		A	79894022	A	A	79894022	2	1	160	1	0	0	0	0	0	0	0	1	12880	991	35	4		4	PYCR1	17	79894022	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	320280	79894022	1301188	1012	88282											
ASPSCR1	79058	broad.mit.edu	37	chr17	79968693	79968693	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaggtggctctgagggtcCtgttccccgaccgctacgtc	4	10	12	15	3	1	1	0	1	1	0	4	2	3	1	5	3	1	3	5	3	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:79968693C>A	uc002kcx.2	+	10	1283	c.1186C>A	c.(1186-1188)CTG>ATG	p.L396M	ASPSCR1_uc002kcw.1_Missense_Mutation_p.L396M|ASPSCR1_uc002kcy.2_Missense_Mutation_p.L396M|ASPSCR1_uc002kcz.2_Missense_Mutation_p.L290M|ASPSCR1_uc002kda.2_Missense_Mutation_p.L319M	NM_024083	NP_076988	Q9BZE9	ASPC1_HUMAN	alveolar soft part sarcoma chromosome region,	396	UBX.						protein binding		ASPSCR1/TFE3(161)	soft_tissue(118)|kidney(43)|breast(1)	162	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			TCTGAGGGTCCTGTTCCCCGA	0.701			T	TFE3	alveolar soft part sarcoma								33	73					4.34311e-12	4.66826e-12	0.003271	1	0		A	79968693	A	A	79968693	3	1	160	1	0	0	0	0	1	0	0	0	1060	680	24	5	1224	5	ASPSCR1	17	79968693	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	74671	79968693	1226517	1013	88283											
CCDC57	284001	broad.mit.edu	37	chr17	80085655	80085655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtcctggagggtgccactggCaaaggaggaggagctgtggg	8	6	20	7	0	0	0	0	0	0	0	1	4	1	4	2	7	2	2	2	7	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:80085655C>T	uc002kdx.1	-	16	2513	c.2476G>A	c.(2476-2478)GCC>ACC	p.A826T	CCDC57_uc002kdy.2_Missense_Mutation_p.A133T	NM_198082	NP_932348	Q2TAC2	CCD57_HUMAN	coiled-coil domain containing 57	827										ovary(2)	2	Breast(20;0.00285)|all_neural(118;0.0878)|all_lung(278;0.0949)|Lung NSC(278;0.128)|Ovarian(332;0.227)		BRCA - Breast invasive adenocarcinoma(99;0.0232)|OV - Ovarian serous cystadenocarcinoma(97;0.0253)			GTGCCACTGGCAAAGGAGGAG	0.602													16	45					0	0	0.006122	0	0		T	80085655	T	T	80085655	3	4	160	1	0	0	0	0	1	0	0	0	2830	710	25	2	279	2	CCDC57	17	80085655	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	116962	80085655	1109555	1014	88284											
CD7	924	broad.mit.edu	37	chr17	80274765	80274765	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcccgagctgcctcaGgtagatcccacgcaggcccc	6	6	12	17	2	1	1	1	0	0	1	2	2	2	1	5	3	2	3	5	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr17:80274765G>T	uc002kel.1	-	2	284	c.175C>A	c.(175-177)CTG>ATG	p.L59M	CD7_uc010din.2_Missense_Mutation_p.L59M|CD7_uc002kem.2_Missense_Mutation_p.P40H|CD7_uc010wvk.1_Missense_Mutation_p.L59M	NM_006137	NP_006128	P09564	CD7_HUMAN	CD7 antigen precursor	59	Ig-like.|Extracellular (Probable).				immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|membrane fraction|plasma membrane	receptor activity				0	Breast(20;0.000675)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.249)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0667)			AGCTGCCTCAGGTAGATCCCA	0.652													18	41					6.94344e-10	7.42922e-10	0.006122	1	0		T	80274765	T	T	80274765	3	4	160	1	0	0	0	0	1	0	0	0	3035	991	35	5	559	5	CD7	17	80274765	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	189110	80274765	920445	1015	88285											
TUBB6	84617	broad.mit.edu	37	chr18	12325560	12325560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcaagctggcggtgaacatgGtgcccttcccgcgcctgcac	6	7	13	15	3	0	1	0	1	0	0	1	1	1	1	3	3	4	3	3	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:12325560G>A	uc002kqw.2	+	4	817	c.772G>A	c.(772-774)GTG>ATG	p.V258M	TUBB6_uc002kqv.2_Missense_Mutation_p.V186M|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Missense_Mutation_p.V221M|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	258					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		GGTGAACATGGTGCCCTTCCC	0.682													8	45					0	0	0.00308	0	0		A	12325560	A	A	12325560	3	1	160	1	0	0	0	0	1	0	0	0	16786	1261	44	4	786	4	TUBB6	18	12325560	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08		12325560	65751688	1016	88286											
ROCK1	6093	broad.mit.edu	37	chr18	18566911	18566911	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcagtactatttttcttacTtcatcctccatcctttcttt	6	21	2	12	0	4	0	2	0	2	0	7	0	7	0	3	0	2	1	3	0	3	8			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:18566911T>G	uc002kte.2	-	19	3245	c.2304A>C	c.(2302-2304)GAA>GAC	p.E768D		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	768	Glu-rich.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					TTTTTCTTACTTCATCCTCCA	0.333													33	111					0	0	0.010818	0	0		G	18566911	G	G	18566911	3	3	160	1	0	0	0	0	1	0	0	0	13542	1623	56	5	1820	5	ROCK1	18	18566911	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	6241351	18566911	59510337	1017	88287											
ZNF521	25925	broad.mit.edu	37	chr18	22805217	22805217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaggctgccccacaaatgtCgcagccgtacataggctcag	10	7	11	13	2	1	0	1	0	0	0	2	0	1	0	3	2	3	5	3	2	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:22805217C>T	uc002kvk.2	-	4	2912	c.2665G>A	c.(2665-2667)GAC>AAC	p.D889N	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.D889N|ZNF521_uc002kvl.2_Missense_Mutation_p.D669N	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	889	C2H2-type 21; degenerate.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CCACAAATGTCGCAGCCGTAC	0.522			T	PAX5	ALL								24	64					0	0	0.005443	0	0		T	22805217	T	T	22805217	3	4	160	1	0	0	0	0	1	0	0	0	17990	884	31	1	1290	1	ZNF521	18	22805217	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4238306	22805217	55272031	1018	88288											
FAM59A	64762	broad.mit.edu	37	chr18	29868123	29868123	+	Missense_Mutation	SNP	A	G	G	1	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	catccccagtacacagggtgAtgttgtaaacttcagtgtct	10	12	9	10	0	2	1	1	1	1	0	3	1	3	1	2	1	2	3	2	1	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:29868123A>G	uc002kxl.2	-	4	493	c.437T>C	c.(436-438)ATC>ACC	p.I146T	FAM59A_uc002kxk.1_Missense_Mutation_p.I146T	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	146	CABIT.									ovary(1)|skin(1)	2						ACACAGGGTGATGTTGTAAAC	0.383													51	143					0	0	0.01441	0	0		G	29868123	G	G	29868123	3	3	160	1	0	0	0	0	1	0	0	0	5606	333	12	3	2202	3	FAM59A	18	29868123	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	7062906	29868123	48209125	1019	88289											
KLHL14	57565	broad.mit.edu	37	chr18	30349862	30349862	+	Frame_Shift_Del	DEL	G	-	-																															agcgccagctccgactccacGgggggcggcagcgagtccag																								rs147661052		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:30349862delG	uc002kxm.1	-	2	1081	c.693delC	c.(691-693)CCCfs	p.P231fs		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	231	BACK.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CCGACTCCACGGGGGGCGGCA	0.642													22	45	---	---	---	---						.	-	30349862	-	-	30349862	7	5	160	1	0	1	0	1	0	0	0	0	8386	1103	39	0	1225	0	KLHL14	18	30349862	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	481739	30349862	47727386	1020	88290											
FHOD3	80206	broad.mit.edu	37	chr18	34298660	34298660	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttgagtctaaatccaaGgaactgtctgtctcaaaggt	11	13	9	8	0	3	1	1	1	3	0	5	2	4	2	1	2	1	1	1	2	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:34298660G>T	uc002kzt.1	+	15	2920	c.2823G>T	c.(2821-2823)AAG>AAT	p.K941N	FHOD3_uc002kzs.1_Missense_Mutation_p.K958N|FHOD3_uc010dmz.1_Missense_Mutation_p.K673N|FHOD3_uc010dna.1_Missense_Mutation_p.K261N	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	941	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CTAAATCCAAGGAACTGTCTG	0.438													10	295					3.86212e-05	4.01626e-05	0.008291	1	0		T	34298660	T	T	34298660	3	4	160	1	0	0	0	0	1	0	0	0	5897	991	35	5	2936	5	FHOD3	18	34298660	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3948798	34298660	43778588	1021	88291											
CELF4	56853	broad.mit.edu	37	chr18	34833844	34833844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcttcatgccgatctggaagCcgttcatggcctggatggcg	6	11	13	11	3	4	0	2	0	2	0	4	3	4	2	3	4	2	1	3	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:34833844C>T	uc002lae.2	-	12	1787	c.1391G>A	c.(1390-1392)GGC>GAC	p.G464D	CELF4_uc010dnd.1_Missense_Mutation_p.G462D|CELF4_uc002lag.2_Missense_Mutation_p.G426D|CELF4_uc002laf.2_Missense_Mutation_p.G458D	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	464	RRM 3.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						GATCTGGAAGCCGTTCATGGC	0.647													15	39					0	0	0.006122	0	0		T	34833844	T	T	34833844	3	4	160	1	0	0	0	0	1	0	0	0	3221	739	26	2	73	2	CELF4	18	34833844	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	535184	34833844	43243404	1022	88292											
SETBP1	26040	broad.mit.edu	37	chr18	42531906	42531906	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgaggagacgatccccagCgacagcggcattgggacaga	12	4	15	10	3	0	3	0	1	0	2	1	7	1	4	2	3	2	1	2	3	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:42531906C>T	uc010dni.2	+	4	2897	c.2601C>T	c.(2599-2601)AGC>AGT	p.S867S		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	867						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CGATCCCCAGCGACAGCGGCA	0.552									Schinzel-Giedion_syndrome				14	35					0	0	0.001855	0	0		T	42531906	T	T	42531906	2	4	160	1	0	0	0	0	0	0	0	1	14154	767	27	1		1	SETBP1	18	42531906	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	7698062	42531906	35545342	1023	88293											
KIAA0427	9811	broad.mit.edu	37	chr18	46288052	46288052	+	Missense_Mutation	SNP	A	G	G	1	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	tccggagcctgctcctcaacAtgctgcaggtaactggacgc	8	8	11	14	2	1	0	1	0	0	0	3	2	3	2	3	3	6	4	3	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:46288052A>G	uc002ldc.2	+	9	1648	c.1363A>G	c.(1363-1365)ATG>GTG	p.M455V	KIAA0427_uc002ldd.2_Missense_Mutation_p.M457V|KIAA0427_uc002lde.3_Missense_Mutation_p.M84V	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	455	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						GCTCCTCAACATGCTGCAGGT	0.637													19	40					0	0	0.006122	0	0		G	46288052	G	G	46288052	3	3	160	1	0	0	0	0	1	0	0	0	8192	217	8	3	1399	3	KIAA0427	18	46288052	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	3756146	46288052	31789196	1024	88294											
DCC	1630	broad.mit.edu	37	chr18	51052985	51052985	+	Splice_Site	SNP	A	G	G	1	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	atcactgtgttttctatttcAgggcccactcttcctaagac	8	15	6	12	0	4	1	2	0	2	1	5	1	5	1	2	1	0	1	2	1	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:51052985A>G	uc002lfe.1	+	28	4699	c.4112_splice	c.e28-2	p.G1371_splice	DCC_uc010dpf.1_Splice_Site_p.G1004_splice	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor						apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TTTCTATTTCAGGGCCCACTC	0.448													31	97					0	0	0.003271	0	0		G	51052985	G	G	51052985	5	3	160	1	0	0	0	0	0	0	1	0	4285	202	7	3	4220	3	DCC	18	51052985	Splice_Site	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4764933	51052985	27024263	1025	88295											
WDR7	23335	broad.mit.edu	37	chr18	54483305	54483305	+	Silent	SNP	T	C	C	0	1	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	cagactatcaccacggctccTgatgcctcagggcctgaagc	9	7	10	15	1	2	3	2	2	0	1	3	3	3	3	4	2	2	1	4	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:54483305T>C	uc002lgk.1	+	20	3445	c.3234T>C	c.(3232-3234)CCT>CCC	p.P1078P	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Silent_p.P1045P	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	1078										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		CCACGGCTCCTGATGCCTCAG	0.453													10	20					0	0	0.008291	0	0		C	54483305	C	C	54483305	2	2	160	1	0	0	0	0	0	0	0	1	17346	1567	55	3		3	WDR7	18	54483305	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	3430320	54483305	23593943	1026	88296											
WDR7	23335	broad.mit.edu	37	chr18	54629676	54629676	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaggttctacatggtcagCtattatgagcggaatcacag	11	11	10	9	1	4	1	3	1	1	0	4	2	4	2	0	3	3	2	0	3	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:54629676C>T	uc002lgk.1	+	26	4291	c.4080C>T	c.(4078-4080)AGC>AGT	p.S1360S	WDR7_uc002lgl.1_Silent_p.S1327S	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	1360	WD 8.									ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		ACATGGTCAGCTATTATGAGC	0.428													4	63					0	0	0.009096	0	0		T	54629676	T	T	54629676	2	4	160	1	0	0	0	0	0	0	0	1	17346	796	28	2		2	WDR7	18	54629676	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	146371	54629676	23447572	1027	88297											
ZNF516	9658	broad.mit.edu	37	chr18	74091691	74091691	+	Silent	SNP	C	T	T	0	0	0	1	1	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	taaccattgggctgaatccaCgggggagccacggagttgca	10	7	14	10	2	0	1	0	1	0	0	1	3	1	3	3	4	3	3	3	4	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:74091691C>T	uc010dqx.1	-	3	2614	c.2379G>A	c.(2377-2379)CCG>CCA	p.P793P	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	793					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		GCTGAATCCACGGGGGAGCCA	0.592													6	24					0	0	0.008291	0	0		T	74091691	T	T	74091691	2	4	160	1	0	0	0	0	0	0	0	1	17985	523	19	1		1	ZNF516	18	74091691	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	19462015	74091691	3985557	1028	88298											
ZNF236	7776	broad.mit.edu	37	chr18	74620360	74620360	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagcagagcatgcaggcCtccactcaaatgcaggtgga	12	5	12	12	0	1	1	1	0	0	1	2	3	2	2	3	3	4	4	3	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:74620360C>A	uc002lmi.2	+	14	2574	c.2376C>A	c.(2374-2376)GCC>GCA	p.A792A	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	792					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GCATGCAGGCCTCCACTCAAA	0.582													8	153					0.000274275	0.000283129	0.004482	1	0		A	74620360	A	A	74620360	2	1	160	1	0	0	0	0	0	0	0	1	17814	668	24	5		5	ZNF236	18	74620360	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	528669	74620360	3456888	1029	88299											
ZNF236	7776	broad.mit.edu	37	chr18	74639295	74639295	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctattggctcagcagctcacGggggagcctggcctggcccc	5	7	14	15	1	2	0	2	0	0	0	2	1	2	1	4	5	3	3	4	5	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:74639295G>T	uc002lmi.2	+	24	4428	c.4230G>T	c.(4228-4230)ACG>ACT	p.T1410T	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1410					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AGCAGCTCACGGGGGAGCCTG	0.552													24	65					2.42023e-17	2.65208e-17	0.003271	1	0		T	74639295	T	T	74639295	2	4	160	1	0	0	0	0	0	0	0	1	17814	1103	39	5		5	ZNF236	18	74639295	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	18935	74639295	3437953	1030	88300											
SALL3	27164	broad.mit.edu	37	chr18	76753440	76753440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccagatgaacccttacccGgtccccgagtacctggacaa	11	7	8	15	2	0	2	0	1	0	1	2	4	2	3	6	2	3	1	6	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:76753440G>A	uc002lmt.2	+	2	1449	c.1449G>A	c.(1447-1449)CCG>CCA	p.P483P	SALL3_uc010dra.2_Silent_p.P90P	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	483					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		ACCCTTACCCGGTCCCCGAGT	0.622													9	23					0	0	0.006214	0	0		A	76753440	A	A	76753440	2	1	160	1	0	0	0	0	0	0	0	1	13837	1103	39	1		1	SALL3	18	76753440	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2114145	76753440	1323808	1031	88301											
ATP9B	374868	broad.mit.edu	37	chr18	77037089	77037089	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacatgggcaaagcggtgtAtggatggatgatgatgaaag	13	8	17	3	1	0	3	0	3	0	0	0	6	0	6	0	5	1	2	0	5	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:77037089A>G	uc002lmx.2	+	13	1318	c.1304A>G	c.(1303-1305)TAT>TGT	p.Y435C	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Missense_Mutation_p.Y435C|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_Missense_Mutation_p.Y129C	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	435	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AAAGCGGTGTATGGATGGATG	0.493													19	367					0	0	0.008871	0	0		G	77037089	G	G	77037089	3	3	160	1	0	0	0	0	1	0	0	0	1200	449	16	3	1354	3	ATP9B	18	77037089	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	283649	77037089	1040159	1032	88302											
PQLC1	80148	broad.mit.edu	37	chr18	77679353	77679353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaaggccaggacgcactgcaCgtagtccgagaagctgctcc	10	5	13	13	3	0	1	0	0	0	1	2	4	2	2	3	2	3	5	3	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr18:77679353C>T	uc002lnl.2	-	5	611	c.439G>A	c.(439-441)GTG>ATG	p.V147M	PQLC1_uc010dre.2_Missense_Mutation_p.V64M|PQLC1_uc002lnk.2_Missense_Mutation_p.V129M|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	147	Helical; (Potential).					integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		ACGCACTGCACGTAGTCCGAG	0.622													9	32					0	0	0.008291	0	0		T	77679353	T	T	77679353	3	4	160	1	0	0	0	0	1	0	0	0	12440	536	19	1	384	1	PQLC1	18	77679353	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	642264	77679353	397895	1033	88303											
POLRMT	5442	broad.mit.edu	37	chr19	617821	617821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgtgagtccagtaacagtCgtgcacagagacgaaggtca	12	7	13	9	3	1	2	1	1	0	1	3	4	2	2	1	1	3	2	1	1	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:617821C>T	uc002lpf.1	-	18	3507	c.3451G>A	c.(3451-3453)GAC>AAC	p.D1151N		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	1151	Mediates interaction with TEFM.	By similarity.			transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CAGTAACAGTCGTGCACAGAG	0.642													10	37					0	0	0.013537	0	0		T	617821	T	T	617821	3	4	160	1	0	0	0	0	1	0	0	0	12257	884	31	1	257	1	POLRMT	19	617821	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		617821	58511162	1034	88304											
MBD3	53615	broad.mit.edu	37	chr19	1578342	1578342	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccccgcagcacctgccctaGacgtgctccatctccgggtc	5	7	10	19	3	1	1	0	0	1	1	4	1	2	1	6	1	3	3	6	1	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:1578342G>A	uc002ltl.1	-	6	895	c.873C>T	c.(871-873)GTC>GTT	p.V291V	uc002lti.1_5'Flank|MBD3_uc002ltj.2_Silent_p.V291V|MBD3_uc002ltk.2_Silent_p.V259V	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	291					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		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)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		ACCTGCCCTAGACGTGCTCCA	0.557													12	29					0	0	0.004007	0	0		A	1578342	A	A	1578342	2	1	160	1	0	0	0	0	0	0	0	1	9362	929	33	4		4	MBD3	19	1578342	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	960521	1578342	57550641	1035	88305											
DOT1L	84444	broad.mit.edu	37	chr19	2193687	2193687	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggatctctctgatcataGgtgtgggccaggtcgtgctc	6	12	14	9	1	3	1	1	1	2	0	6	3	3	2	1	4	1	1	1	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:2193687G>A	uc002lvb.3	+	6	530	c.494_splice	c.e6-1	p.G165_splice		NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase							nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTGATCATAGGTGTGGGCCA	0.582													21	40					0	0	0.012319	0	0		A	2193687	A	A	2193687	5	1	160	1	0	0	0	0	0	0	1	0	4715	1014	35	4	515	4	DOT1L	19	2193687	Splice_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08	615345	2193687	56935296	1036	88306											
DOT1L	84444	broad.mit.edu	37	chr19	2213960	2213960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggagcaggacaaccgcgCgctccgcggccagagcttgc	7	4	15	15	5	0	1	0	0	0	1	1	3	1	3	3	3	4	4	3	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:2213960C>T	uc002lvb.3	+	18	1808	c.1772C>T	c.(1771-1773)GCG>GTG	p.A591V	DOT1L_uc002lvc.1_5'UTR|uc002lvd.1_RNA|DOT1L_uc002lve.1_5'Flank	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	591						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACAACCGCGCGCTCCGCGGC	0.677													11	19					0	0	0.013537	0	0		T	2213960	T	T	2213960	3	4	160	1	0	0	0	0	1	0	0	0	4715	768	27	1	1842	1	DOT1L	19	2213960	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	20273	2213960	56915023	1037	88307											
LINGO3	645191	broad.mit.edu	37	chr19	2291504	2291504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgccgggctccacgtgcGcgatggcgttctcgctcagg	4	7	16	14	7	2	0	1	0	1	0	4	1	3	0	2	4	1	3	2	4	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:2291504G>A	uc010dsx.1	-	2	400	c.272C>T	c.(271-273)GCG>GTG	p.A91V	SPPL2B_uc010dsw.1_Intron|uc002lvo.1_Missense_Mutation_p.R106H	NM_001101391	NP_001094861	P0C6S8	LIGO3_HUMAN	leucine rich repeat and Ig domain containing 3	91	LRR 2.|Extracellular (Potential).					integral to membrane					0						CTCCACGTGCGCGATGGCGTT	0.726													5	10					0	0	0.000602	0	0		A	2291504	A	A	2291504	3	1	160	1	0	0	0	0	1	0	0	0	8833	1087	38	1	1510	1	LINGO3	19	2291504	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	77544	2291504	56837479	1038	88308											
GNG7	2788	broad.mit.edu	37	chr19	2515096	2515096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccagcagggggtcgttcCgggcatgttgctcacagtag	7	8	15	11	3	1	0	1	0	0	0	3	1	2	0	2	3	2	6	2	3	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:2515096C>T	uc002lwd.2	-	5	368	c.131G>A	c.(130-132)CGG>CAG	p.R44Q	GNG7_uc010dte.1_Intron	NM_052847	NP_443079	O60262	GBG7_HUMAN	guanine nucleotide binding protein (G protein),	44					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGGGTCGTTCCGGGCATGTTG	0.408													17	87					0	0	0.00499	0	0		T	2515096	T	T	2515096	3	4	160	1	0	0	0	0	1	0	0	0	6546	652	23	1	79	1	GNG7	19	2515096	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	223592	2515096	56613887	1039	88309											
ZNF57	126295	broad.mit.edu	37	chr19	2917413	2917413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagccttcatttatccctCgacatttcaaagacacatga	13	11	6	11	1	2	3	2	1	0	2	4	5	3	3	2	0	1	0	2	0	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:2917413C>T	uc002lwr.2	+	4	942	c.794C>T	c.(793-795)TCG>TTG	p.S265L	ZNF57_uc010xha.1_Missense_Mutation_p.S233L	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	265	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		ATTTATCCCTCGACATTTCAA	0.448													4	134					0	0	0.009096	0	0		T	2917413	T	T	2917413	3	4	160	1	0	0	0	0	1	0	0	0	18026	893	31	1	808	1	ZNF57	19	2917413	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	402317	2917413	56211570	1040	88310											
TJP3	27134	broad.mit.edu	37	chr19	3733835	3733835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagggaagctaagcctgctgGtgctgagagatcgtgggcag	10	7	17	7	1	0	2	0	1	0	1	1	4	0	3	1	3	4	4	1	3	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:3733835G>A	uc010xhv.1	+	6	859	c.859G>A	c.(859-861)GTG>ATG	p.V287M	TJP3_uc010xhs.1_Missense_Mutation_p.V268M|TJP3_uc010xht.1_Missense_Mutation_p.V232M|TJP3_uc010xhu.1_Missense_Mutation_p.V277M|TJP3_uc010xhw.1_Missense_Mutation_p.V287M	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	268	PDZ 2.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGCCTGCTGGTGCTGAGAGA	0.567													76	164					0	0	0.01441	0	0		A	3733835	A	A	3733835	3	1	160	1	0	0	0	0	1	0	0	0	15956	1261	44	4	881	4	TJP3	19	3733835	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	816422	3733835	55395148	1041	88311											
ANKRD24	170961	broad.mit.edu	37	chr19	4217166	4217166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcccccagtcacagggaccaCaaacatggaggccacgggct	11	3	12	15	1	1	0	1	0	0	0	1	2	1	2	4	4	1	1	4	4	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:4217166C>T	uc010dtt.1	+	18	2285	c.2009C>T	c.(2008-2010)ACA>ATA	p.T670I	ANKRD24_uc002lzs.2_Missense_Mutation_p.T641I|ANKRD24_uc002lzt.2_Missense_Mutation_p.T642I	NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	670											0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		ACAGGGACCACAAACATGGAG	0.622													4	18					0	0	0.009096	0	0		T	4217166	T	T	4217166	3	4	160	1	0	0	0	0	1	0	0	0	653	478	17	4	2075	4	ANKRD24	19	4217166	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	483331	4217166	54911817	1042	88312											
UBXN6	80700	broad.mit.edu	37	chr19	4445590	4445590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcctccagcacagccatgtCccacgagaaggtcaggaggg	10	5	13	13	1	1	1	1	0	0	1	4	3	4	2	4	3	2	1	4	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:4445590C>T	uc002man.1	-	11	1327	c.1231G>A	c.(1231-1233)GAC>AAC	p.D411N	UBXN6_uc010dty.1_Missense_Mutation_p.D315N|UBXN6_uc002mam.1_Missense_Mutation_p.D358N	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	411						microtubule organizing center|nucleus	protein binding				0						ACAGCCATGTCCCACGAGAAG	0.642													29	91					0	0	0.013726	0	0		T	4445590	T	T	4445590	3	4	160	1	0	0	0	0	1	0	0	0	16943	855	30	4	98	4	UBXN6	19	4445590	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	228424	4445590	54683393	1043	88313											
TICAM1	148022	broad.mit.edu	37	chr19	4817190	4817190	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttcgtctgccctggcgtgGaggatcacaaagttatagaa	10	11	12	8	2	2	1	1	0	1	1	3	3	2	3	1	3	1	2	1	3	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:4817190G>T	uc002mbi.2	-	2	1451	c.1200C>A	c.(1198-1200)CTC>CTA	p.L400L		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	400	TIR.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CCCTGGCGTGGAGGATCACAA	0.577													24	46					1.10923e-09	1.18503e-09	0.00278	1	0		T	4817190	T	T	4817190	2	4	160	1	0	0	0	0	0	0	0	1	15917	1161	41	5		5	TICAM1	19	4817190	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	371600	4817190	54311793	1044	88314											
KDM4B	23030	broad.mit.edu	37	chr19	5110750	5110750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcacggtgctggaccacacgCggcccacggcgctcaccagc	7	4	12	18	5	2	0	2	0	0	0	2	1	2	1	3	4	2	2	3	4	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:5110750C>T	uc002mbq.3	+	10	1262	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W	KDM4B_uc010xil.1_Missense_Mutation_p.R346W|KDM4B_uc010xim.1_Missense_Mutation_p.R346W|KDM4B_uc002mbr.3_Missense_Mutation_p.R104W	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	346					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						GGACCACACGCGGCCCACGGC	0.662													11	14					0	0	0.010729	0	0		T	5110750	T	T	5110750	3	4	160	1	0	0	0	0	1	0	0	0	8145	759	27	1	1066	1	KDM4B	19	5110750	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	293560	5110750	54018233	1045	88315											
CD70	970	broad.mit.edu	37	chr19	6590986	6590986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccatagggcctgcgccgcaCcgagcagcccgaaccctcct	7	4	10	20	4	0	0	0	0	0	0	1	2	1	0	7	1	4	2	7	1	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:6590986C>T	uc002mfi.2	-	1	178	c.28G>A	c.(28-30)GTG>ATG	p.V10M	CD70_uc010xjf.1_Missense_Mutation_p.V10M	NM_001252	NP_001243	P32970	CD70_HUMAN	tumor necrosis factor ligand superfamily, member	10	Cytoplasmic (Potential).				cell proliferation|cell-cell signaling|immune response|induction of apoptosis|signal transduction	extracellular space|integral to membrane of membrane fraction|integral to plasma membrane	cytokine activity|protease binding|tumor necrosis factor receptor binding				0						CTGCGCCGCACCGAGCAGCCC	0.697													23	50					0	0	0.014323	0	0		T	6590986	T	T	6590986	3	4	160	1	0	0	0	0	1	0	0	0	3036	507	18	4	565	4	CD70	19	6590986	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1480236	6590986	52537997	1046	88316											
ZNF358	140467	broad.mit.edu	37	chr19	7585040	7585040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggccttcgggcagagctcGgcgctgctgcagcaccagcg	7	5	15	14	4	0	1	0	0	0	1	2	1	0	1	2	3	5	6	2	3	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:7585040G>A	uc002mgn.2	+	2	1082	c.912G>A	c.(910-912)TCG>TCA	p.S304S	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	304	C2H2-type 6.				embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						GGCAGAGCTCGGCGCTGCTGC	0.701													10	12					0	0	0.013537	0	0		A	7585040	A	A	7585040	2	1	160	1	0	0	0	0	0	0	0	1	17892	1103	39	1		1	ZNF358	19	7585040	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	994054	7585040	51543943	1047	88317											
EVI5L	115704	broad.mit.edu	37	chr19	7928374	7928374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttcgatgggctgagcctggCgcggcacttggacgaggact	6	9	16	10	4	0	1	0	1	0	0	1	5	0	3	1	5	1	2	1	5	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:7928374C>T	uc002min.2	+	19	2325	c.2171C>T	c.(2170-2172)GCG>GTG	p.A724V	EVI5L_uc010xjz.1_Missense_Mutation_p.A735V	NM_145245	NP_660288	Q96CN4	EVI5L_HUMAN	ecotropic viral integration site 5-like isoform	724						intracellular	protein binding|Rab GTPase activator activity			ovary(1)	1						CTGAGCCTGGCGCGGCACTTG	0.716													3	6					0	0	0.004672	0	0		T	7928374	T	T	7928374	3	4	160	1	0	0	0	0	1	0	0	0	5298	768	27	1	2278	1	EVI5L	19	7928374	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	343334	7928374	51200609	1048	88318											
MAP2K7	5609	broad.mit.edu	37	chr19	7975260	7975260	+	Splice_Site	SNP	T	C	C	0	1	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	ccacgtcattgccgttaaggTgagccttggcggctaccccg	6	9	12	14	4	1	1	1	1	0	0	1	1	1	1	5	3	3	2	5	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:7975260T>C	uc002mit.2	+	4	512	c.447_splice	c.e4+2	p.K149_splice	MAP2K7_uc002miv.2_Splice_Site_p.K149_splice|MAP2K7_uc010xka.1_Splice_Site|MAP2K7_uc010xkb.1_Splice_Site_p.K149_splice|MAP2K7_uc010dvv.2_Splice_Site_p.K24_splice	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7						activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	GCCGTTAAGGTGAGCCTTGGC	0.662													5	15					0	0	0.00308	0	0		C	7975260	C	C	7975260	5	2	160	1	0	0	0	0	0	0	1	0	9260	1710	59	3	463	3	MAP2K7	19	7975260	Splice_Site	SNP	T	TCGA-CG-5733-01A-11D-1600-08	46886	7975260	51153723	1049	88319											
MAP2K7	5609	broad.mit.edu	37	chr19	7975970	7975970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggccagatcaagctctgcGacttcggcatcagcggccgc	7	6	14	14	4	3	1	2	0	1	1	4	2	3	1	2	4	3	2	2	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:7975970G>A	uc002mit.2	+	7	846	c.781G>A	c.(781-783)GAC>AAC	p.D261N	MAP2K7_uc002miv.2_Missense_Mutation_p.D261N|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.D261N|MAP2K7_uc010dvv.2_Missense_Mutation_p.D136N	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	261	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	CAAGCTCTGCGACTTCGGCAT	0.662													11	24					0	0	0.010729	0	0		A	7975970	A	A	7975970	3	1	160	1	0	0	0	0	1	0	0	0	9260	1058	37	1	807	1	MAP2K7	19	7975970	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	710	7975970	51153013	1050	88320											
FBN3	84467	broad.mit.edu	37	chr19	8194245	8194245	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatccagagcacactcgttGatgtctgcggcaggaggagg	9	7	16	9	2	1	2	0	1	1	1	3	5	2	5	1	5	2	3	1	5	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:8194245G>A	uc002mjf.2	-	16	2070	c.2049C>T	c.(2047-2049)ATC>ATT	p.I683I		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	683	EGF-like 8; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CACACTCGTTGATGTCTGCGG	0.612													22	40					0	0	0.003954	0	0		A	8194245	A	A	8194245	2	1	160	1	0	0	0	0	0	0	0	1	5718	1280	45	4		4	FBN3	19	8194245	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	218275	8194245	50934738	1051	88321											
MUC16	94025	broad.mit.edu	37	chr19	9024942	9024942	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgagtccagggcttttggggTcaaggcggtgggtgcagatg	6	10	19	6	1	1	2	1	1	0	1	2	2	2	2	1	6	1	2	1	6	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:9024942T>C	uc002mkp.2	-	16	37124	c.36920A>G	c.(36919-36921)GAC>GGC	p.D12307G		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12309	SEA 2.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCTTTTGGGGTCAAGGCGGTG	0.547													10	80					0	0	0.010729	0	0		C	9024942	C	C	9024942	3	2	160	1	0	0	0	0	1	0	0	0	9991	1667	58	3	6879	3	MUC16	19	9024942	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	830697	9024942	50104041	1052	88322											
MUC16	94025	broad.mit.edu	37	chr19	9046900	9046900	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtttctgcaggatgagtgagCcacgtggctgtagtctctgg	6	12	15	8	1	2	2	0	2	2	0	3	3	2	3	1	3	2	4	1	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:9046900C>T	uc002mkp.2	-	5	34935	c.34731G>A	c.(34729-34731)TGG>TGA	p.W11577*		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11579	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GATGAGTGAGCCACGTGGCTG	0.522													7	97					0	0	0.001984	0	0		T	9046900	T	T	9046900	4	4	160	1	0	0	0	0	0	1	0	0	9991	740	26	2	9112	2	MUC16	19	9046900	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	21958	9046900	50082083	1053	88323											
MUC16	94025	broad.mit.edu	37	chr19	9068944	9068944	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtccagggtcagttggcCaagagatgtcaccccagaag	10	8	13	10	0	2	2	2	0	0	2	3	3	3	2	4	2	0	1	4	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:9068944C>A	uc002mkp.2	-	3	18706	c.18502G>T	c.(18502-18504)GGC>TGC	p.G6168C		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6170	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCAGTTGGCCAAGAGATGTC	0.488													24	91					4.26978e-12	4.59295e-12	0.00333	1	0		A	9068944	A	A	9068944	3	1	160	1	0	0	0	0	1	0	0	0	9991	594	21	5	25349	5	MUC16	19	9068944	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	22044	9068944	50060039	1054	88324											
MUC16	94025	broad.mit.edu	37	chr19	9076908	9076908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtctgagatagatgcccaGcagtaggggcaatgtcactt	12	9	12	8	0	2	2	1	1	1	2	2	3	2	2	1	2	2	3	1	2	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:9076908G>A	uc002mkp.2	-	3	10742	c.10538C>T	c.(10537-10539)GCT>GTT	p.A3513V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3514	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TAGATGCCCAGCAGTAGGGGC	0.512													43	154					0	0	0.00874	0	0		A	9076908	A	A	9076908	3	1	160	1	0	0	0	0	1	0	0	0	9991	971	34	2	33313	2	MUC16	19	9076908	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7964	9076908	50052075	1055	88325											
OLFM2	93145	broad.mit.edu	37	chr19	9965341	9965341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcaccagcacagagcGcgagcggaagtggtatttga	10	7	13	11	3	1	2	0	1	1	1	1	4	1	3	2	2	4	3	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:9965341G>A	uc002mmp.2	-	6	914	c.886C>T	c.(886-888)CGC>TGC	p.R296C	OLFM2_uc002mmo.2_Missense_Mutation_p.R218C	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	296	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						AGCACAGAGCGCGAGCGGAAG	0.622													20	46					0	0	0.010504	0	0		A	9965341	A	A	9965341	3	1	160	1	0	0	0	0	1	0	0	0	10872	1087	38	1	482	1	OLFM2	19	9965341	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	888433	9965341	49163642	1056	88326											
ICAM5	7087	broad.mit.edu	37	chr19	10404943	10404943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtatctacgtctgcaacGccaccaaccgccacggctcc	8	6	8	19	5	2	0	0	0	2	0	3	0	3	0	6	2	4	3	6	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:10404943G>A	uc002mnu.3	+	8	2004	c.1939G>A	c.(1939-1941)GCC>ACC	p.A647T	ICAM5_uc002mnv.3_Missense_Mutation_p.A522T	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	647	Extracellular (Potential).|Ig-like C2-type 7.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CGTCTGCAACGCCACCAACCG	0.682													44	107					0	0	0.01441	0	0		A	10404943	A	A	10404943	3	1	160	1	0	0	0	0	1	0	0	0	7499	1087	38	1	1969	1	ICAM5	19	10404943	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	439602	10404943	48724040	1057	88327											
ECSIT	51295	broad.mit.edu	37	chr19	11617215	11617215	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcatgagcacccgccatGcacatggcgaagacagggcc	10	5	13	13	2	1	2	1	1	0	1	1	3	1	2	3	3	2	2	3	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:11617215G>A	uc002msb.2	-	8	1214	c.1080C>T	c.(1078-1080)TGC>TGT	p.C360C	ZNF653_uc002mrz.1_5'Flank|ECSIT_uc002msa.1_RNA|ECSIT_uc010dyc.1_3'UTR|ECSIT_uc010dyd.2_3'UTR|ECSIT_uc010xma.1_Silent_p.C146C	NM_016581	NP_057665	Q9BQ95	ECSIT_HUMAN	evolutionarily conserved signaling intermediate	360					innate immune response|regulation of oxidoreductase activity	mitochondrion	oxidoreductase activity, acting on NADH or NADPH|protein binding			ovary(1)	1						CACCCGCCATGCACATGGCGA	0.607													34	85					0	0	0.00623	0	0		A	11617215	A	A	11617215	2	1	160	1	0	0	0	0	0	0	0	1	4906	1311	46	2		2	ECSIT	19	11617215	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1212272	11617215	47511768	1058	88328											
ZNF625	90589	broad.mit.edu	37	chr19	12257031	12257031	+	Missense_Mutation	SNP	A	G	G	1	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	tttctaagagtctctctcccAtaagacctctgtgaacaatg	11	13	6	11	0	4	3	0	1	4	2	6	3	4	3	2	0	1	0	2	0	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:12257031A>G	uc002mth.2	-	4	352	c.2T>C	c.(1-3)ATG>ACG	p.M1T	ZNF20_uc002mtg.1_Intron|ZNF625_uc010dyn.1_RNA|ZNF625_uc010dyo.1_Missense_Mutation_p.M35T	NM_145233	NP_660276	Q96I27	ZN625_HUMAN	zinc finger protein 625	1					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCTCTCCCATAAGACCTCT	0.368													44	108					0	0	0.01441	0	0		G	12257031	G	G	12257031	3	3	160	1	0	0	0	0	1	0	0	0	18074	217	8	3	922	3	ZNF625	19	12257031	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	639816	12257031	46871952	1059	88329											
ZNF44	51710	broad.mit.edu	37	chr19	12384334	12384334	+	Frame_Shift_Del	DEL	T	-	-																															cggtttctccccagtgtgtaTtttttcatgtcttagatagg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:12384334delT	uc010xmj.1	-	5	1085	c.880delA	c.(880-882)ATAfs	p.I294fs	ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Frame_Shift_Del_p.I246fs	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	294	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		CCAGTGTGTATTTTTTCATGT	0.393													94	213	---	---	---	---						.	-	12384334	-	-	12384334	7	5	160	1	0	1	0	1	0	0	0	0	17937	1493	52	0	1115	0	ZNF44	19	12384334	Frame_Shift_Del	DEL	T	TCGA-CG-5733-01A-11D-1600-08	127303	12384334	46744649	1060	88330											
DHPS	1725	broad.mit.edu	37	chr19	12790343	12790343	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgggcgatcatcttagaaggCgtccactttacaccctagga	10	9	10	12	3	2	1	1	0	1	1	3	3	3	2	2	3	1	0	2	3	4	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:12790343C>T	uc002muh.1	-	5	703	c.606G>A	c.(604-606)ACG>ACA	p.T202T	DHPS_uc002muf.1_Silent_p.T79T|DHPS_uc002mug.1_Silent_p.T160T|DHPS_uc002mui.1_Silent_p.T202T|DHPS_uc002muj.1_Silent_p.T202T|DHPS_uc002muk.1_RNA|DHPS_uc010xmn.1_RNA	NM_001930	NP_001921	P49366	DHYS_HUMAN	deoxyhypusine synthase isoform a	202					peptidyl-lysine modification to hypusine|positive regulation of cell proliferation|post-translational protein modification|spermidine catabolic process to deoxyhypusine, using deoxyhypusine synthase|translation	cytosol	deoxyhypusine synthase activity|protein binding			central_nervous_system(1)	1					Sulfadoxine(DB01299)	TCTTAGAAGGCGTCCACTTTA	0.592													19	295					0	0	0.006122	0	0		T	12790343	T	T	12790343	2	4	160	1	0	0	0	0	0	0	0	1	4491	755	27	1		1	DHPS	19	12790343	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	406009	12790343	46338640	1061	88331											
C19orf43	79002	broad.mit.edu	37	chr19	12841822	12841822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgtcaccgcactggtgagCtttgtactttttcacttctg	6	16	8	11	2	3	1	2	1	1	0	4	1	3	1	1	1	2	3	1	1	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:12841822C>T	uc002muu.2	-	3	542	c.484G>A	c.(484-486)GCT>ACT	p.A162T		NM_024038	NP_076943	Q9BQ61	CS043_HUMAN	hypothetical protein MGC2803	162											0						CACTGGTGAGCTTTGTACTTT	0.542													6	176					0	0	0.001168	0	0		T	12841822	T	T	12841822	3	4	160	1	0	0	0	0	1	0	0	0	1929	797	28	2	50	2	C19orf43	19	12841822	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	51479	12841822	46287161	1062	88332											
MAST1	22983	broad.mit.edu	37	chr19	12969475	12969475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgatatcctcaccttcgccGagaacccgtttgtggtcggc	6	10	11	14	5	1	1	1	0	0	1	4	3	2	1	4	2	1	1	4	2	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:12969475G>A	uc002mvm.2	+	12	1416	c.1288G>A	c.(1288-1290)GAG>AAG	p.E430K	MAST1_uc002mvk.2_Missense_Mutation_p.E426K	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	430	Protein kinase.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CACCTTCGCCGAGAACCCGTT	0.572													23	40					0	0	0.014323	0	0		A	12969475	A	A	12969475	3	1	160	1	0	0	0	0	1	0	0	0	9342	1059	37	1	1334	1	MAST1	19	12969475	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	127653	12969475	46159508	1063	88333											
AKAP8L	26993	broad.mit.edu	37	chr19	15512143	15512143	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagccgagaggcaccagacaTgcactggccccgggccccca	9	2	12	18	2	0	2	0	0	0	2	0	3	0	2	6	3	2	2	6	3	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:15512143T>C	uc002naw.1	-	5	733	c.634A>G	c.(634-636)ATG>GTG	p.M212V	AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Missense_Mutation_p.M151V|AKAP8L_uc002nay.1_Missense_Mutation_p.M212V|AKAP8L_uc002naz.2_Missense_Mutation_p.M60V	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like	212						cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						GCACCAGACATGCACTGGCCC	0.706													10	42					0	0	0.010504	0	0		C	15512143	C	C	15512143	3	2	160	1	0	0	0	0	1	0	0	0	458	1464	51	3	1346	3	AKAP8L	19	15512143	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	2542668	15512143	43616840	1064	88334											
SIN3B	23309	broad.mit.edu	37	chr19	16942458	16942458	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgcctctgacaagccaGgtatgccactacagtggttc	9	9	10	13	1	1	1	0	1	1	0	3	1	1	1	3	2	3	2	3	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:16942458G>T	uc002ney.1	+	3	395	c.381G>T	c.(379-381)CAG>CAT	p.Q127H	SIN3B_uc002new.2_Missense_Mutation_p.Q127H|SIN3B_uc002nex.2_Missense_Mutation_p.Q59H|SIN3B_uc002nez.1_Missense_Mutation_p.Q127H	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	127					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						TGACAAGCCAGGTATGCCACT	0.483													27	111					6.97489e-18	7.66693e-18	0.004878	1	0		T	16942458	T	T	16942458	3	4	160	1	0	0	0	0	1	0	0	0	14351	1014	35	5	391	5	SIN3B	19	16942458	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1430315	16942458	42186525	1065	88335											
SIN3B	23309	broad.mit.edu	37	chr19	16980513	16980513	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgaggagtcagctgatgaGgaccgggacagcccccaggg	9	4	16	12	2	1	2	1	2	0	0	2	6	2	5	4	4	2	1	4	4	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:16980513G>A	uc002ney.1	+	14	2159	c.2145G>A	c.(2143-2145)GAG>GAA	p.E715E	SIN3B_uc002nez.1_Silent_p.E683E|SIN3B_uc010xpi.1_Silent_p.E273E	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	715					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						CAGCTGATGAGGACCGGGACA	0.672													11	23					0	0	0.010729	0	0		A	16980513	A	A	16980513	2	1	160	1	0	0	0	0	0	0	0	1	14351	991	35	4		4	SIN3B	19	16980513	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	38055	16980513	42148470	1066	88336											
MYO9B	4650	broad.mit.edu	37	chr19	17283255	17283255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccagctttcatcatccagCacttcgcagggaaggtgaaa	12	8	10	11	1	2	1	2	1	0	0	4	2	3	2	2	2	3	3	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:17283255C>T	uc010eak.2	+	12	2055	c.1903C>T	c.(1903-1905)CAC>TAC	p.H635Y	MYO9B_uc002nfi.2_Missense_Mutation_p.H635Y|MYO9B_uc002nfj.1_Missense_Mutation_p.H635Y	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	635	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						CATCATCCAGCACTTCGCAGG	0.557													14	33					0	0	0.00245	0	0		T	17283255	T	T	17283255	3	4	160	1	0	0	0	0	1	0	0	0	10103	710	25	2	1945	2	MYO9B	19	17283255	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	302742	17283255	41845728	1067	88337											
USE1	55850	broad.mit.edu	37	chr19	17330563	17330563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggccatgctcattatcGtctgcttcatcttcattagc	6	16	7	12	1	6	0	3	0	3	0	7	0	6	0	1	1	3	2	1	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:17330563G>A	uc002nfo.2	+	8	781	c.721G>A	c.(721-723)GTC>ATC	p.V241I	USE1_uc010eal.1_3'UTR	NM_018467	NP_060937	Q9NZ43	USE1_HUMAN	unconventional SNARE in the ER 1 homolog	241	Helical; Anchor for type IV membrane protein; (Potential).				lysosomal transport|protein catabolic process|protein transport|secretion by cell|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	protein binding				0						GCTCATTATCGTCTGCTTCAT	0.527													46	99					0	0	0.011902	0	0		A	17330563	A	A	17330563	3	1	160	1	0	0	0	0	1	0	0	0	17057	1145	40	1	751	1	USE1	19	17330563	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	47308	17330563	41798420	1068	88338											
FAM129C	199786	broad.mit.edu	37	chr19	17648229	17648229	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	actccctcttggaagtgcctGtgagcttcccgctgttcctg	4	13	10	14	1	1	1	0	1	1	0	4	2	4	2	4	1	2	3	4	1	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:17648229G>A	uc010xpr.1	+	6	703	c.565G>A	c.(565-567)GTG>ATG	p.V189M	FAM129C_uc010xpq.1_Missense_Mutation_p.V189M|FAM129C_uc010xps.1_Missense_Mutation_p.V158M|FAM129C_uc010xpt.1_RNA|FAM129C_uc002ngy.3_5'Flank|FAM129C_uc010xpu.1_5'Flank|FAM129C_uc002ngz.3_5'Flank|FAM129C_uc010eaw.2_5'Flank|FAM129C_uc002nhb.2_5'Flank	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	189											0						GGAAGTGCCTGTGAGCTTCCC	0.562													68	147					0	0	0.01441	0	0		A	17648229	A	A	17648229	3	1	160	1	0	0	0	0	1	0	0	0	5449	1377	48	4	587	4	FAM129C	19	17648229	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	317666	17648229	41480754	1069	88339											
KIAA1683	80726	broad.mit.edu	37	chr19	18368642	18368642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgccaggttccgccgcacaCggtagccgcgccaagtagct	7	6	13	15	5	0	0	0	0	0	0	1	0	1	0	5	2	3	5	5	2	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:18368642C>T	uc002nin.2	-	4	3107	c.2891G>A	c.(2890-2892)CGT>CAT	p.R964H	PDE4C_uc002nil.3_5'Flank|KIAA1683_uc010ebn.2_Missense_Mutation_p.R1151H|KIAA1683_uc010xqe.1_Missense_Mutation_p.R918H|KIAA1683_uc010xqf.1_RNA	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	964	IQ 3.					mitochondrion				ovary(2)	2						CCGCCGCACACGGTAGCCGCG	0.692													17	13					0	0	0.012319	0	0		T	18368642	T	T	18368642	3	4	160	1	0	0	0	0	1	0	0	0	8267	536	19	1	655	1	KIAA1683	19	18368642	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	720413	18368642	40760341	1070	88340											
ELL	8178	broad.mit.edu	37	chr19	18557279	18557279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgctccgaagaggagatgGctgcgtacttcctgaaacag	10	8	13	10	2	0	3	0	1	0	2	2	5	2	3	2	2	4	4	2	2	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:18557279G>A	uc002njh.2	-	10	1616	c.1544C>T	c.(1543-1545)GCC>GTC	p.A515V	ELL_uc010ebq.2_Missense_Mutation_p.A458V|ELL_uc002njg.2_Missense_Mutation_p.A382V	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	515					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		AGAGGAGATGGCTGCGTACTT	0.637			T	MLL	AL								7	14					0	0	0.008291	0	0		A	18557279	A	A	18557279	3	1	160	1	0	0	0	0	1	0	0	0	5070	1203	42	2	333	2	ELL	19	18557279	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	188637	18557279	40571704	1071	88341											
DDX49	54555	broad.mit.edu	37	chr19	19032668	19032668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagacatggtggcccaggcGctggagctctctcggaaacc	8	6	13	14	2	1	1	0	0	1	1	3	3	1	3	3	5	2	2	3	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:19032668G>A	uc002nkq.1	+	4	399	c.342G>A	c.(340-342)GCG>GCA	p.A114A	COPE_uc002nkk.2_5'Flank|COPE_uc002nkl.2_5'Flank|COPE_uc002nkm.2_5'Flank|COPE_uc002nkn.2_5'Flank|HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Silent_p.A7A|DDX49_uc002nkt.1_5'UTR	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	114	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)			TGGCCCAGGCGCTGGAGCTCT	0.632													6	67					0	0	0.00308	0	0		A	19032668	A	A	19032668	2	1	160	1	0	0	0	0	0	0	0	1	4369	1074	38	1		1	DDX49	19	19032668	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	475389	19032668	40096315	1072	88342											
CCNE1	898	broad.mit.edu	37	chr19	30311678	30311678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atttctttgaccggtatatgGcgacacaagaaaatgttgta	13	13	9	6	2	1	2	0	1	1	1	1	3	1	2	1	2	0	3	1	2	6	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:30311678G>A	uc002nsn.2	+	7	715	c.532G>A	c.(532-534)GCG>ACG	p.A178T	CCNE1_uc002nso.2_Missense_Mutation_p.A163T|CCNE1_uc002nsp.2_5'Flank	NM_001238	NP_001229	P24864	CCNE1_HUMAN	cyclin E1 isoform 1	178					androgen receptor signaling pathway|cell division|positive regulation of transcription, DNA-dependent|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cytosol|nucleoplasm	androgen receptor binding|protein kinase binding|transcription coactivator activity			lung(2)	2	all_cancers(1;2.19e-31)|all_epithelial(1;1.49e-30)|all_lung(1;1.37e-11)|Lung NSC(1;2.35e-11)|Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|Epithelial(1;6.85e-98)|all cancers(1;1.38e-94)|OV - Ovarian serous cystadenocarcinoma(1;1.38e-90)|STAD - Stomach adenocarcinoma(5;5.8e-07)|GBM - Glioblastoma multiforme(4;0.0394)|Lung(7;0.092)|LUAD - Lung adenocarcinoma(5;0.115)|BRCA - Breast invasive adenocarcinoma(6;0.183)|COAD - Colon adenocarcinoma(1;0.188)|Colorectal(1;0.202)			CCGGTATATGGCGACACAAGA	0.323													30	96					0	0	0.007291	0	0		A	30311678	A	A	30311678	3	1	160	1	0	0	0	0	1	0	0	0	2923	1203	42	2	554	2	CCNE1	19	30311678	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	11279010	30311678	28817305	1073	88343											
WDR88	126248	broad.mit.edu	37	chr19	33623259	33623259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggccaccctcgaccccctgGccttggacagggaaccacca	8	5	10	18	1	0	0	0	0	0	0	1	3	0	2	7	4	1	0	7	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:33623259G>A	uc002nui.2	+	1	262	c.184G>A	c.(184-186)GCC>ACC	p.A62T		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	62										ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					CGACCCCCTGGCCTTGGACAG	0.637													23	77					0	0	0.005443	0	0		A	33623259	A	A	33623259	3	1	160	1	0	0	0	0	1	0	0	0	17361	1203	42	2	186	2	WDR88	19	33623259	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3311581	33623259	25505724	1074	88344											
WDR88	126248	broad.mit.edu	37	chr19	33666454	33666454	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagggagaactcaccgccGccaaggggaagcaaggatga	15	2	15	9	2	1	2	1	1	0	1	1	6	1	4	3	4	2	1	3	4	5	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:33666454G>A	uc002nui.2	+	11	1473	c.1395G>A	c.(1393-1395)CCG>CCA	p.P465P		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	465										ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					ACTCACCGCCGCCAAGGGGAA	0.537													31	65					0	0	0.004289	0	0		A	33666454	A	A	33666454	2	1	160	1	0	0	0	0	0	0	0	1	17361	1074	38	1		1	WDR88	19	33666454	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	43195	33666454	25462529	1075	88345											
CHST8	64377	broad.mit.edu	37	chr19	34263265	34263265	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgtggaggaccgccaccGcgtgctctactgcgaggtgc	5	8	14	14	5	1	0	0	0	1	0	2	3	1	2	3	3	4	1	3	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:34263265G>A	uc002nus.3	+	5	1077	c.572G>A	c.(571-573)CGC>CAC	p.R191H	CHST8_uc002nut.3_Missense_Mutation_p.R191H|CHST8_uc002nuu.2_Missense_Mutation_p.R191H	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	191	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					GACCGCCACCGCGTGCTCTAC	0.701													17	35					0	0	0.00333	0	0		A	34263265	A	A	34263265	3	1	160	1	0	0	0	0	1	0	0	0	3413	1087	38	1	582	1	CHST8	19	34263265	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	596811	34263265	24865718	1076	88346											
CHST8	64377	broad.mit.edu	37	chr19	34263278	34263278	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccaccgcgtgctctactgCgaggtgcccaaggccggctg	5	6	14	16	5	1	0	0	0	1	0	1	1	1	0	4	3	4	2	4	3	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:34263278C>T	uc002nus.3	+	5	1090	c.585C>T	c.(583-585)TGC>TGT	p.C195C	CHST8_uc002nut.3_Silent_p.C195C|CHST8_uc002nuu.2_Silent_p.C195C	NM_001127895	NP_001121367	Q9H2A9	CHST8_HUMAN	carbohydrate (N-acetylgalactosamine 4-0)	195	Lumenal (Potential).				carbohydrate biosynthetic process|central nervous system development|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			skin(2)|large_intestine(1)|ovary(1)	4	Esophageal squamous(110;0.162)					TGCTCTACTGCGAGGTGCCCA	0.692													13	36					0	0	0.006122	0	0		T	34263278	T	T	34263278	2	4	160	1	0	0	0	0	0	0	0	1	3413	776	27	1		1	CHST8	19	34263278	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	13	34263278	24865705	1077	88347											
SCGBL	284402	broad.mit.edu	37	chr19	35085149	35085149	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattgctggacattgaggaaGgactcctctgtcaggggact	9	10	13	9	0	2	1	1	1	1	0	3	5	3	5	1	5	1	1	1	5	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:35085149G>A	uc002nvn.2	-	2	199	c.177C>T	c.(175-177)TCC>TCT	p.S59S		NM_001025591	NP_001020762	Q4G0G5	SCGBL_HUMAN	secretoglobin-like precursor	59						extracellular region	binding				0						CATTGAGGAAGGACTCCTCTG	0.498													13	120					0	0	0.001855	0	0		A	35085149	A	A	35085149	2	1	160	1	0	0	0	0	0	0	0	1	13927	987	35	4		4	SCGBL	19	35085149	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	821871	35085149	24043834	1078	88348											
ZNF302	55900	broad.mit.edu	37	chr19	35175800	35175800	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgggagagaaaccgtatgaAtgtatgaactgtggaaagtc	15	8	13	5	2	0	3	0	2	0	1	1	6	0	5	1	2	2	2	1	2	6	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:35175800A>G	uc002nvr.1	+	6	1253	c.990A>G	c.(988-990)GAA>GAG	p.E330E	ZNF302_uc002nvp.1_Silent_p.E286E|ZNF302_uc002nvq.1_Silent_p.E286E|ZNF302_uc002nvs.1_Silent_p.E286E	NM_018443	NP_060913	Q9NR11	ZN302_HUMAN	zinc finger protein 302	365	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;6.16e-07)|Lung NSC(56;9.71e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			AACCGTATGAATGTATGAACT	0.423													37	109					0	0	0.004878	0	0		G	35175800	G	G	35175800	2	3	160	1	0	0	0	0	0	0	0	1	17857	98	4	3		3	ZNF302	19	35175800	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	90651	35175800	23953183	1079	88349											
FAM187B	148109	broad.mit.edu	37	chr19	35719007	35719007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccacctgcagctcaggccGcaagcggctagaccacacca	10	5	9	17	2	1	1	1	0	0	1	2	1	2	1	5	2	3	4	5	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:35719007G>A	uc002nyk.1	-	1	622	c.577C>T	c.(577-579)CGG>TGG	p.R193W		NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B	193	Extracellular (Potential).					integral to membrane				ovary(2)	2						AGCTCAGGCCGCAAGCGGCTA	0.557													11	30					0	0	0.00499	0	0		A	35719007	A	A	35719007	3	1	160	1	0	0	0	0	1	0	0	0	5524	1086	38	1	540	1	FAM187B	19	35719007	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	543207	35719007	23409976	1080	88350											
HAUS5	23354	broad.mit.edu	37	chr19	36109010	36109010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccccccaggccacgtcctggCtgccttggagcacctggctg	4	7	12	18	1	0	0	0	0	0	0	1	1	1	1	7	4	2	3	7	4	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:36109010C>T	uc002oam.1	+	10	785	c.734C>T	c.(733-735)GCT>GTT	p.A245V		NM_015302	NP_056117	O94927	HAUS5_HUMAN	HAUS augmin-like complex, subunit 5	245					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle					0						CACGTCCTGGCTGCCTTGGAG	0.657													48	82					0	0	0.01441	0	0		T	36109010	T	T	36109010	3	4	160	1	0	0	0	0	1	0	0	0	6985	797	28	2	772	2	HAUS5	19	36109010	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	390003	36109010	23019973	1081	88351											
ARHGAP33	115703	broad.mit.edu	37	chr19	36278096	36278096	+	Frame_Shift_Del	DEL	C	-	-																															atatggagtcaccactgccaCcccctcccctgtctctcctg																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:36278096delC	uc002obs.1	+	21	2231	c.2146delC	c.(2146-2148)CCCfs	p.P716fs	ARHGAP33_uc002obt.1_Frame_Shift_Del_p.P741fs|ARHGAP33_uc010eel.2_Frame_Shift_Del_p.P465fs|ARHGAP33_uc002obv.1_Frame_Shift_Del_p.P465fs	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	764					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						ACCACTGCCACCCCCTCCCCT	0.662													25	39	---	---	---	---						.	-	36278096	-	-	36278096	7	5	160	1	0	1	0	1	0	0	0	0	882	507	18	0	2711	0	ARHGAP33	19	36278096	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	169086	36278096	22850887	1082	88352											
TBCB	1155	broad.mit.edu	37	chr19	36611634	36611634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgaccacagtggcgcccGccttggtgagtatgaggacg	8	8	14	11	3	0	3	0	3	0	0	0	4	0	4	3	3	0	1	3	3	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:36611634G>A	uc002odg.1	+	3	856	c.281G>A	c.(280-282)CGC>CAC	p.R94H	TBCB_uc002odh.1_Missense_Mutation_p.R75H	NM_001281	NP_001272	Q99426	TBCB_HUMAN	cytoskeleton associated protein 1	94					'de novo' posttranslational protein folding|cell differentiation|nervous system development	cytoplasm|microtubule	protein binding				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AGTGGCGCCCGCCTTGGTGAG	0.637													15	36					0	0	0.007413	0	0		A	36611634	A	A	36611634	3	1	160	1	0	0	0	0	1	0	0	0	15655	1087	38	1	291	1	TBCB	19	36611634	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	333538	36611634	22517349	1083	88353											
LGALS4	3960	broad.mit.edu	37	chr19	39294176	39294176	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccataccgggttgaaggttgGgggtccttccatggtctgtg	5	12	15	9	1	1	1	0	1	1	0	3	1	3	1	4	5	1	2	4	5	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:39294176G>T	uc002ojg.2	-	7	770	c.556C>A	c.(556-558)CCA>ACA	p.P186T	LGALS4_uc010xuj.1_3'UTR	NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	186					cell adhesion	cytosol|plasma membrane	sugar binding			ovary(1)|skin(1)	2	all_cancers(60;1.02e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			TTGAAGGTTGGGGGTCCTTCC	0.532													26	41					2.41591e-17	2.64941e-17	0.004656	1	0		T	39294176	T	T	39294176	3	4	160	1	0	0	0	0	1	0	0	0	8761	1232	43	5	431	5	LGALS4	19	39294176	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2682542	39294176	19834807	1084	88354											
LRFN1	57622	broad.mit.edu	37	chr19	39799075	39799075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcccaccactcgcgttgccGgcagcgctgtggccccgtcg	4	6	13	18	6	0	0	0	0	0	0	2	0	0	0	5	2	3	3	5	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:39799075G>A	uc002okw.2	-	2	1514	c.1514C>T	c.(1513-1515)CCG>CTG	p.P505L		NM_020862	NP_065913	Q9P244	LRFN1_HUMAN	leucine rich repeat and fibronectin type III	505	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic density|postsynaptic membrane				ovary(2)	2	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TCGCGTTGCCGGCAGCGCTGT	0.677													5	6					0	0	0.001168	0	0		A	39799075	A	A	39799075	3	1	160	1	0	0	0	0	1	0	0	0	8955	1116	39	1	805	1	LRFN1	19	39799075	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	504899	39799075	19329908	1085	88355											
SAMD4B	55095	broad.mit.edu	37	chr19	39870681	39870681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agctcctccggacattcccgCgcaaagccgcactagagatg	10	6	10	15	4	0	1	0	0	0	1	3	3	3	2	4	1	2	3	4	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:39870681C>T	uc002olb.2	+	12	2641	c.1606C>T	c.(1606-1608)CGC>TGC	p.R536C	SAMD4B_uc002ola.2_Missense_Mutation_p.R536C	NM_018028	NP_060498	Q5PRF9	SMAG2_HUMAN	sterile alpha motif domain containing 4B	536							protein binding				0	all_cancers(60;2.5e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			GACATTCCCGCGCAAAGCCGC	0.572													7	35					0	0	0.00308	0	0		T	39870681	T	T	39870681	3	4	160	1	0	0	0	0	1	0	0	0	13847	768	27	1	1636	1	SAMD4B	19	39870681	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	71606	39870681	19258302	1086	88356											
FCGBP	8857	broad.mit.edu	37	chr19	40373995	40373995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggctggcacacctgccccGgcttgcagctgtgttcctgg	4	9	14	14	1	0	0	0	0	0	0	1	0	1	0	4	4	3	6	4	4	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:40373995G>A	uc002omp.3	-	26	12091	c.12083C>T	c.(12082-12084)CCG>CTG	p.P4028L		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4028	Cys-rich.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CACCTGCCCCGGCTTGCAGCT	0.532													5	22					0	0	0.000602	0	0		A	40373995	A	A	40373995	3	1	160	1	0	0	0	0	1	0	0	0	5792	1116	39	1	4178	1	FCGBP	19	40373995	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	503314	40373995	18754988	1087	88357											
PSMC4	5704	broad.mit.edu	37	chr19	40480513	40480513	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggaggccgtggagctcccGctcacgcatttcgagctcta	6	8	13	14	5	2	0	1	0	1	0	4	3	3	2	2	3	2	4	2	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:40480513G>A	uc002omq.2	+	5	589	c.552G>A	c.(550-552)CCG>CCA	p.P184P	PSMC4_uc002omr.2_Silent_p.P153P	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	184					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TGGAGCTCCCGCTCACGCATT	0.632													27	78					0	0	0.009535	0	0		A	40480513	A	A	40480513	2	1	160	1	0	0	0	0	0	0	0	1	12711	1074	38	1		1	PSMC4	19	40480513	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	106518	40480513	18648470	1088	88358											
SERTAD3	29946	broad.mit.edu	37	chr19	40947828	40947828	+	Silent	SNP	T	G	G	0	1	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	gttatggatgaggacatgccTgcggaggctgggtgctcggg	6	9	19	7	2	0	1	0	1	0	0	1	4	0	4	1	6	3	3	1	6	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:40947828T>G	uc002onu.3	-	2	438	c.160A>C	c.(160-162)AGG>CGG	p.R54R	SERTAD3_uc002onv.3_Silent_p.R54R	NM_013368	NP_037500	Q9UJW9	SRTD3_HUMAN	RPA-binding trans-activator	54	SERTA.				negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGGACATGCCTGCGGAGGCTG	0.672													3	15					0	0	0.004672	0	0		G	40947828	G	G	40947828	2	3	160	1	0	0	0	0	0	0	0	1	14147	1579	55	5		5	SERTAD3	19	40947828	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	467315	40947828	18181155	1089	88359											
SPTBN4	57731	broad.mit.edu	37	chr19	41062146	41062146	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactggattgccgagaaggaGgtggtggctggctcacccga	8	7	16	10	2	1	1	1	0	0	1	1	5	1	3	2	6	1	2	2	6	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:41062146G>A	uc002ony.2	+	25	5327	c.5241G>A	c.(5239-5241)GAG>GAA	p.E1747E	SPTBN4_uc002onx.2_Silent_p.E1747E|SPTBN4_uc002onz.2_Silent_p.E1747E|SPTBN4_uc010egx.2_Silent_p.E490E|SPTBN4_uc002ooa.2_Silent_p.E423E	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1747	Spectrin 15.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCGAGAAGGAGGTGGTGGCTG	0.552													14	54					0	0	0.004007	0	0		A	41062146	A	A	41062146	2	1	160	1	0	0	0	0	0	0	0	1	15146	991	35	4		4	SPTBN4	19	41062146	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	114318	41062146	18066837	1090	88360											
LTBP4	8425	broad.mit.edu	37	chr19	41132911	41132911	+	Frame_Shift_Del	DEL	C	-	-																															gccctgtgcaatgtgctacgCccccccgcatatagcccccc																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:41132911delC	uc002ooh.1	+	32	4218	c.4218delC	c.(4216-4218)CGCfs	p.R1406fs	LTBP4_uc002oog.1_Frame_Shift_Del_p.R1369fs|LTBP4_uc002ooi.1_Frame_Shift_Del_p.R1339fs|LTBP4_uc002ooj.1_Frame_Shift_Del_p.R279fs|LTBP4_uc002ook.1_Frame_Shift_Del_p.R540fs|LTBP4_uc002ool.1_Frame_Shift_Del_p.R418fs|LTBP4_uc010xvp.1_Frame_Shift_Del_p.R166fs	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1406					growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ATGTGCTACGCCCCCCCGCAT	0.632													10	23	---	---	---	---						.	-	41132911	-	-	41132911	7	5	160	1	0	1	0	1	0	0	0	0	9094	726	26	0	4632	0	LTBP4	19	41132911	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	70765	41132911	17996072	1091	88361											
CYP2A13	1553	broad.mit.edu	37	chr19	41600201	41600201	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcaagaaccggcagcccaAgtttgaggaccgggccaaga	12	3	14	12	3	0	3	0	1	0	2	0	4	0	4	4	4	2	3	4	4	4	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:41600201A>C	uc002opt.2	+	7	1034	c.1025A>C	c.(1024-1026)AAG>ACG	p.K342T		NM_000766	NP_000757	Q16696	CP2AD_HUMAN	cytochrome P450, family 2, subfamily A,	342					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|heme binding			ovary(2)|skin(1)	3					Clomipramine(DB01242)|Nicotine(DB00184)	CGGCAGCCCAAGTTTGAGGAC	0.562													8	114					0	0	0.008291	0	0		C	41600201	C	C	41600201	3	2	160	1	0	0	0	0	1	0	0	0	4164	72	3	5	1051	5	CYP2A13	19	41600201	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	467290	41600201	17528782	1092	88362											
CCDC97	90324	broad.mit.edu	37	chr19	41822288	41822288	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaatctctcctttcctcaGgctgcatagagcctggacct	8	11	7	15	0	2	1	1	0	1	1	5	2	4	2	5	2	2	2	5	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:41822288G>T	uc002oqg.2	+	2	169	c.47_splice	c.e2-1	p.G16_splice	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97												0						CCTTTCCTCAGGCTGCATAGA	0.463													6	16					3.59834e-05	3.74472e-05	0.001168	1	0		T	41822288	T	T	41822288	5	4	160	1	0	0	0	0	0	0	1	0	2878	1014	35	5	52	5	CCDC97	19	41822288	Splice_Site	SNP	G	TCGA-CG-5733-01A-11D-1600-08	222087	41822288	17306695	1093	88363											
B9D2	80776	broad.mit.edu	37	chr19	41863901	41863901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttgcgtttggccctcccgcaCgcctgacaggagcttccatg	5	10	11	15	3	0	1	0	1	0	0	2	2	2	2	4	2	2	3	4	2	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:41863901C>T	uc002oqj.2	-	3	335	c.115G>A	c.(115-117)GTG>ATG	p.V39M	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Intron	NM_030578	NP_085055	Q9BPU9	B9D2_HUMAN	B9 protein domain 2	39	B9.				cilium assembly|mitotic prometaphase	centrosome|cilium axoneme|cytosol|microtubule basal body|nucleus	gamma-tubulin binding			ovary(1)	1						CCCTCCCGCACGCCTGACAGG	0.632													23	38					0	0	0.00278	0	0		T	41863901	T	T	41863901	3	4	160	1	0	0	0	0	1	0	0	0	1279	536	19	1	420	1	B9D2	19	41863901	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	41613	41863901	17265082	1094	88364											
DMRTC2	63946	broad.mit.edu	37	chr19	42354596	42354596	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccctttcccttgcaggcCtctggagcctcgtgcctggc	2	12	10	17	1	2	0	0	0	2	0	5	1	3	1	5	3	3	1	5	3	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:42354596C>A	uc002ors.2	+	8	902	c.819C>A	c.(817-819)GCC>GCA	p.A273A	DMRTC2_uc002orr.1_Silent_p.A201A|DMRTC2_uc010xwe.1_Silent_p.A324A	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	273	Pro-rich.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						CCTTGCAGGCCTCTGGAGCCT	0.602													26	84					3.73988e-18	4.11416e-18	0.00632	1	0		A	42354596	A	A	42354596	2	1	160	1	0	0	0	0	0	0	0	1	4597	668	24	5		5	DMRTC2	19	42354596	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	490695	42354596	16774387	1095	88365											
CIC	23152	broad.mit.edu	37	chr19	42796883	42796883	+	Frame_Shift_Del	DEL	C	-	-																															cctggcccagccatcccaggCccccccaagcctggtctaca																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:42796883delC	uc002otf.1	+	14	3381	c.3341delC	c.(3340-3342)GCCfs	p.A1114fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1114	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CCATCCCAGGCCCCCCCAAGC	0.682			T	DUX4	soft tissue sarcoma								29	63	---	---	---	---						.	-	42796883	-	-	42796883	7	5	160	1	0	1	0	1	0	0	0	0	3427	739	26	0	3395	0	CIC	19	42796883	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	442287	42796883	16332100	1096	88366											
CIC	23152	broad.mit.edu	37	chr19	42798378	42798378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaagcgcaagatgagaagaCgctccagctgcagctcggag	12	4	13	12	3	0	3	0	1	0	3	2	5	1	4	2	1	4	5	2	1	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:42798378C>T	uc002otf.1	+	18	4289	c.4249C>T	c.(4249-4251)CGC>TGC	p.R1417C		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1417					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GATGAGAAGACGCTCCAGCTG	0.612			T	DUX4	soft tissue sarcoma								5	96					0	0	0.000602	0	0		T	42798378	T	T	42798378	3	4	160	1	0	0	0	0	1	0	0	0	3427	536	19	1	4319	1	CIC	19	42798378	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1495	42798378	16330605	1097	88367											
CADM4	199731	broad.mit.edu	37	chr19	44130991	44130991	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggcagccggacgggaccgCggaacgaggcagctgagctc	8	3	18	12	5	0	1	0	1	0	0	1	5	0	4	2	5	4	4	2	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:44130991C>T	uc002oxc.1	-	4	493	c.444G>A	c.(442-444)CCG>CCA	p.P148P		NM_145296	NP_660339	Q8NFZ8	CADM4_HUMAN	cell adhesion molecule 4 precursor	148	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion	integral to membrane					0		Prostate(69;0.0199)				GACGGGACCGCGGAACGAGGC	0.687													33	82					0	0	0.003271	0	0		T	44130991	T	T	44130991	2	4	160	1	0	0	0	0	0	0	0	1	2572	755	27	1		1	CADM4	19	44130991	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1332613	44130991	14997992	1098	88368											
SFRS16	11129	broad.mit.edu	37	chr19	45573322	45573322	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagagagaagagtgggaacgCcagtacagccggcagagccg	13	2	17	9	3	0	4	0	0	0	4	0	7	0	5	3	2	4	2	3	2	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:45573322C>T	uc002pak.2	+	19	2015	c.1917C>T	c.(1915-1917)CGC>CGT	p.R639R	SFRS16_uc002pal.2_RNA|SFRS16_uc010xxh.1_Silent_p.R577R|SFRS16_uc002pam.2_Silent_p.R620R	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16	639	Potential.|Arg-rich.				mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		AGTGGGAACGCCAGTACAGCC	0.607													18	63					0	0	0.010504	0	0		T	45573322	T	T	45573322	2	4	160	1	0	0	0	0	0	0	0	1	14197	726	26	2		2	SFRS16	19	45573322	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1442331	45573322	13555661	1099	88369											
MARK4	57787	broad.mit.edu	37	chr19	45797635	45797635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcctagcatgatgacccGcagaaacacctacgtttgca	11	8	7	15	2	0	3	0	2	0	1	1	3	1	3	4	0	4	4	4	0	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:45797635G>A	uc002pbb.1	+	14	1528	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	MARK4_uc002pba.1_Missense_Mutation_p.R508H			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	508					microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		ATGATGACCCGCAGAAACACC	0.587													20	54					0	0	0.010504	0	0		A	45797635	A	A	45797635	3	1	160	1	0	0	0	0	1	0	0	0	9333	1087	38	1	1577	1	MARK4	19	45797635	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	224313	45797635	13331348	1100	88370											
IRF2BP1	26145	broad.mit.edu	37	chr19	46387358	46387358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcatgaaggcccagggcaCggaggagccgaccagcgggc	9	2	17	13	3	0	1	0	1	0	0	0	4	0	3	3	5	3	2	3	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:46387358C>T	uc002pds.1	-	1	2019	c.1675G>A	c.(1675-1677)GTG>ATG	p.V559M		NM_015649	NP_056464	Q8IU81	I2BP1_HUMAN	interferon regulatory factor 2 binding protein	559					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0402)|Epithelial(262;0.231)		GCCCAGGGCACGGAGGAGCCG	0.637													9	25					0	0	0.008291	0	0		T	46387358	T	T	46387358	3	4	160	1	0	0	0	0	1	0	0	0	7845	536	19	1	83	1	IRF2BP1	19	46387358	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	589723	46387358	12741625	1101	88371											
PNMAL1	55228	broad.mit.edu	37	chr19	46973314	46973314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggcgcctcctgggctctCggcttctgcccgggcatcct	3	9	13	16	3	2	1	0	0	2	1	5	1	4	1	4	4	1	3	4	4	0	1	rs146703714	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:46973314C>T	uc002peq.3	-	2	1285	c.979G>A	c.(979-981)GAG>AAG	p.E327K	PNMAL1_uc002per.3_Missense_Mutation_p.E327K	NM_018215	NP_060685	Q86V59	PNML1_HUMAN	PNMA-like 1 isoform a	327											0		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000166)|all cancers(93;0.0014)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		CCTGGGCTCTCGGCTTCTGCC	0.607													100	198					0	0	0.01441	0	0		T	46973314	T	T	46973314	3	4	160	1	0	0	0	0	1	0	0	0	12176	893	31	1	370	1	PNMAL1	19	46973314	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	585956	46973314	12155669	1102	88372											
MEIS3	56917	broad.mit.edu	37	chr19	47912499	47912499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgctggtgtccagccCgtctcctgagggaaggcagg	6	6	16	13	2	1	1	0	1	1	0	3	2	2	2	4	5	1	2	4	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:47912499C>T	uc002pgu.2	-	8	1162	c.715G>A	c.(715-717)GGG>AGG	p.G239R	MEIS3_uc010xyp.1_5'Flank|MEIS3_uc002pgo.2_Missense_Mutation_p.G38R|MEIS3_uc002pgp.2_Missense_Mutation_p.G71R|MEIS3_uc002pgq.2_Missense_Mutation_p.G320R|MEIS3_uc002pgr.2_Missense_Mutation_p.G107R|MEIS3_uc002pgt.2_Missense_Mutation_p.G222R|MEIS3_uc002pgv.2_Missense_Mutation_p.G222R|MEIS3_uc002pgs.2_Missense_Mutation_p.G239R|MEIS3_uc010eld.2_Missense_Mutation_p.G239R	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	239	Ser/Thr-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		GTGTCCAGCCCGTCTCCTGAG	0.602													9	25					0	0	0.001855	0	0		T	47912499	T	T	47912499	3	4	160	1	0	0	0	0	1	0	0	0	9487	652	23	1	570	1	MEIS3	19	47912499	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	939185	47912499	11216484	1103	88373											
TMEM143	55260	broad.mit.edu	37	chr19	48845964	48845964	+	Silent	SNP	C	T	T	0	0	0	1	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	gtgcgcaccttcagctccggCagcagctgctccaggccttc	5	8	11	17	2	1	0	1	0	0	0	4	0	3	0	4	2	5	6	4	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:48845964C>T	uc002pix.1	-	6	807	c.798G>A	c.(796-798)CTG>CTA	p.L266L	TMEM143_uc002piw.1_Intron|TMEM143_uc002piy.1_Silent_p.L231L|TMEM143_uc010xzn.1_Silent_p.L201L|TMEM143_uc010elw.1_Silent_p.L166L|TMEM143_uc010xzo.1_Silent_p.L56L	NM_018273	NP_060743	Q96AN5	TM143_HUMAN	transmembrane protein 143	266						integral to membrane|mitochondrion					0		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		TCAGCTCCGGCAGCAGCTGCT	0.637													7	25					0	0	0.006214	0	0		T	48845964	T	T	48845964	2	4	160	1	0	0	0	0	0	0	0	1	16082	697	25	2		2	TMEM143	19	48845964	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	933465	48845964	10283019	1104	88374											
SPHK2	56848	broad.mit.edu	37	chr19	49132082	49132082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtctgtggcctggggcttCgtgtcagatgtggatatcca	5	13	14	9	1	2	1	1	0	1	1	4	2	3	2	2	4	0	1	2	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:49132082C>T	uc002pjr.2	+	7	1383	c.1017C>T	c.(1015-1017)TTC>TTT	p.F339F	SPHK2_uc010xzt.1_Silent_p.F280F|SPHK2_uc002pjs.2_Silent_p.F339F|SPHK2_uc002pjt.2_Silent_p.F133F|SPHK2_uc002pju.2_Intron|SPHK2_uc002pjv.2_Silent_p.F303F|SPHK2_uc002pjw.2_Silent_p.F401F	NM_020126	NP_064511	Q9NRA0	SPHK2_HUMAN	sphingosine kinase 2	339					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cell proliferation|sphinganine-1-phosphate biosynthetic process	cytosol|lysosomal membrane|membrane fraction	ATP binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|Ras GTPase binding|sphinganine kinase activity			lung(1)	1		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;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		CCTGGGGCTTCGTGTCAGATG	0.657													32	72					0	0	0.00874	0	0		T	49132082	T	T	49132082	2	4	160	1	0	0	0	0	0	0	0	1	15072	883	31	1		1	SPHK2	19	49132082	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	286118	49132082	9996901	1105	88375											
FUT1	2523	broad.mit.edu	37	chr19	49253910	49253910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgccgacaaaggtgcgcgggCggtcccctgtgcggcccagg	5	4	17	15	6	0	0	0	0	0	0	1	1	1	0	4	5	2	0	4	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:49253910C>T	uc002pkk.2	-	4	1604	c.629G>A	c.(628-630)CGC>CAC	p.R210H		NM_000148	NP_000139	P19526	FUT1_HUMAN	fucosyltransferase 1	210	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to plasma membrane|membrane fraction	galactoside 2-alpha-L-fucosyltransferase activity			ovary(1)	1		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000135)|all cancers(93;0.000354)|Epithelial(262;0.0191)|GBM - Glioblastoma multiforme(486;0.0222)		GGTGCGCGGGCGGTCCCCTGT	0.677													59	111					0	0	0.01441	0	0		T	49253910	T	T	49253910	3	4	160	1	0	0	0	0	1	0	0	0	6115	768	27	1	472	1	FUT1	19	49253910	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	121828	49253910	9875073	1106	88376											
PPFIA3	8541	broad.mit.edu	37	chr19	49651461	49651461	+	Missense_Mutation	SNP	A	G	G	1	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	ggacgctcgaatgttagatcAccttaacaagaaggagctcc	13	8	10	10	2	1	2	1	0	0	2	3	5	2	4	2	2	2	3	2	2	5	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:49651461A>G	uc002pmr.2	+	24	3289	c.2957A>G	c.(2956-2958)CAC>CGC	p.H986R	PPFIA3_uc010yai.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.H845R|PPFIA3_uc002pmt.2_Missense_Mutation_p.H125R|PPFIA3_uc002pmu.1_Missense_Mutation_p.H35R	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	986	SAM 2.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		ATGTTAGATCACCTTAACAAG	0.607													16	47					0	0	0.004007	0	0		G	49651461	G	G	49651461	3	3	160	1	0	0	0	0	1	0	0	0	12330	159	6	3	3047	3	PPFIA3	19	49651461	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	397551	49651461	9477522	1107	88377											
MED25	81857	broad.mit.edu	37	chr19	50332236	50332236	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcctggtagtggccagacGcaccgggtctgcctcctcat	5	11	11	14	2	2	1	1	0	1	1	4	1	4	1	5	3	1	2	5	3	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:50332236G>T	uc002ppw.1	+	5	467	c.414G>T	c.(412-414)ACG>ACT	p.T138T	MED25_uc010ybe.1_Intron|MED25_uc002ppx.1_5'Flank	NM_030973	NP_112235	Q71SY5	MED25_HUMAN	mediator complex subunit 25	138	Interaction with the Mediator complex.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm				ovary(1)	1		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00822)|GBM - Glioblastoma multiforme(134;0.0122)		GTGGCCAGACGCACCGGGTCT	0.562													5	57					0.00116845	0.00119738	0.001168	1	0		T	50332236	T	T	50332236	2	4	160	1	0	0	0	0	0	0	0	1	9461	1074	38	5		5	MED25	19	50332236	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	680775	50332236	8796747	1108	88378											
NUP62	23636	broad.mit.edu	37	chr19	50411536	50411536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgcgctcctgctccttgCgccggccctcgcacaccttg	3	9	10	19	4	0	0	0	0	0	0	3	0	2	0	5	1	4	4	5	1	0	2	rs142980354		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:50411536C>T	uc002pqx.2	-	2	1633	c.1529G>A	c.(1528-1530)CGC>CAC	p.R510H	IL4I1_uc002pqv.1_Intron|IL4I1_uc010eno.1_Intron|IL4I1_uc002pqw.1_Intron|IL4I1_uc002pqu.1_Intron|NUP62_uc002pqy.2_Missense_Mutation_p.R510H|NUP62_uc002pqz.2_Missense_Mutation_p.R510H|NUP62_uc002pra.2_Missense_Mutation_p.R510H|NUP62_uc002prb.2_Missense_Mutation_p.R510H|NUP62_uc002prc.2_Missense_Mutation_p.R434H	NM_153719	NP_714941	P37198	NUP62_HUMAN	nucleoporin 62kDa	510					carbohydrate metabolic process|cell death|cell surface receptor linked signaling pathway|glucose transport|hormone-mediated signaling pathway|mRNA transport|negative regulation of apoptosis|negative regulation of cell proliferation|nucleocytoplasmic transport|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|protein transport|regulation of glucose transport|transcription, DNA-dependent|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleocytoplasmic shuttling complex|ribonucleoprotein complex|spindle pole	chromatin binding|protein serine/threonine kinase activity|receptor signaling complex scaffold activity|SH2 domain binding|structural constituent of nuclear pore|thyroid hormone receptor binding|ubiquitin binding				0		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)		CTGCTCCTTGCGCCGGCCCTC	0.632													13	39					0	0	0.00245	0	0		T	50411536	T	T	50411536	3	4	160	1	0	0	0	0	1	0	0	0	10787	768	27	1	43	1	NUP62	19	50411536	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	79300	50411536	8717447	1109	88379											
POLD1	5424	broad.mit.edu	37	chr19	50918097	50918097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcccatacctgcttatcaGcaagaagcgctacgcgggcc	9	8	9	15	3	1	1	1	0	0	1	2	1	2	1	3	1	5	3	3	1	5	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:50918097G>A	uc002psb.3	+	20	2470	c.2414G>A	c.(2413-2415)AGC>AAC	p.S805N	POLD1_uc002psc.3_Missense_Mutation_p.S805N|POLD1_uc010enx.2_RNA|POLD1_uc010eny.2_Missense_Mutation_p.S831N	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1	805					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		CTGCTTATCAGCAAGAAGCGC	0.657								DNA_polymerases_(catalytic_subunits)			OREG0025635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	45					0	0	0.008291	0	0		A	50918097	A	A	50918097	3	1	160	1	0	0	0	0	1	0	0	0	12209	971	34	2	2488	2	POLD1	19	50918097	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	506561	50918097	8210886	1110	88380											
SIGLEC5	8778	broad.mit.edu	37	chr19	52115647	52115647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gagatgcttgatctccggggCtgtctggccagggcttcttc	4	12	14	11	1	3	2	0	1	3	1	5	3	3	2	2	4	1	3	2	4	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:52115647C>T	uc002pxe.2	-	9	1632	c.1493G>A	c.(1492-1494)AGC>AAC	p.S498N		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	498	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		ATCTCCGGGGCTGTCTGGCCA	0.478													4	162					0	0	0.009096	0	0		T	52115647	T	T	52115647	3	4	160	1	0	0	0	0	1	0	0	0	14336	797	28	2	166	2	SIGLEC5	19	52115647	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1197550	52115647	7013336	1111	88381											
FPR1	2357	broad.mit.edu	37	chr19	52250065	52250065	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaggttcaggtaactgatGgtggtgactgtgtgtgtcat	7	13	15	6	0	2	2	2	2	0	0	2	2	2	2	1	4	1	2	1	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:52250065G>A	uc002pxq.2	-	2	278	c.183C>T	c.(181-183)ACC>ACT	p.T61T		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	61	Cytoplasmic (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	GGTAACTGATGGTGGTGACTG	0.542													4	125					0	0	0.000602	0	0		A	52250065	A	A	52250065	2	1	160	1	0	0	0	0	0	0	0	1	6052	1335	47	4		4	FPR1	19	52250065	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	134418	52250065	6878918	1112	88382											
ZNF616	90317	broad.mit.edu	37	chr19	52619248	52619248	+	Missense_Mutation	SNP	A	G	G	1	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	caagacttgaacgtttactgAagaccttgccacattcattg	12	12	7	10	1	1	4	1	2	0	2	1	4	1	4	2	0	3	1	2	0	4	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:52619248A>G	uc002pym.2	-	4	1452	c.1169T>C	c.(1168-1170)TTC>TCC	p.F390S	ZNF616_uc002pyn.2_RNA	NM_178523	NP_848618	Q08AN1	ZN616_HUMAN	zinc finger protein 616	390	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00392)|OV - Ovarian serous cystadenocarcinoma(262;0.0189)		ACGTTTACTGAAGACCTTGCC	0.418													6	451					0	0	0.001984	0	0		G	52619248	G	G	52619248	3	3	160	1	0	0	0	0	1	0	0	0	18066	246	9	3	1180	3	ZNF616	19	52619248	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	369183	52619248	6509735	1113	88383											
ZNF578	147660	broad.mit.edu	37	chr19	53015138	53015138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcatctcttccatgccatCgtagacttcatagtggtgag	8	13	10	10	1	3	2	2	1	1	1	6	2	4	2	2	2	1	1	2	2	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:53015138C>T	uc002pzp.3	+	6	1748	c.1504C>T	c.(1504-1506)CGT>TGT	p.R502C		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	277	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		TCCATGCCATCGTAGACTTCA	0.403													36	108					0	0	0.00623	0	0		T	53015138	T	T	53015138	3	4	160	1	0	0	0	0	1	0	0	0	18035	884	31	1	1514	1	ZNF578	19	53015138	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	395890	53015138	6113845	1114	88384											
ZNF415	55786	broad.mit.edu	37	chr19	53611976	53611976	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcccacactcattacacTtgtaaggtttctctccagta	9	15	4	13	0	2	0	1	0	1	0	5	0	4	0	2	1	1	3	2	1	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:53611976T>C	uc002qax.2	-	7	1815	c.1466A>G	c.(1465-1467)AAG>AGG	p.K489R	ZNF415_uc002qat.2_Missense_Mutation_p.K453R|ZNF415_uc002qaw.2_Missense_Mutation_p.K441R|ZNF415_uc010yds.1_Missense_Mutation_p.K441R|ZNF415_uc010ydt.1_Missense_Mutation_p.K441R|ZNF415_uc002qau.2_Missense_Mutation_p.K428R|ZNF415_uc002qav.2_Missense_Mutation_p.K453R|ZNF415_uc002qba.2_Missense_Mutation_p.K211R|ZNF415_uc002qay.2_Missense_Mutation_p.K428R|ZNF415_uc002qaz.2_Missense_Mutation_p.K489R	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	489	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		CTCATTACACTTGTAAGGTTT	0.418													102	239					0	0	0.01441	0	0		C	53611976	C	C	53611976	3	2	160	1	0	0	0	0	1	0	0	0	17917	1609	56	3	349	3	ZNF415	19	53611976	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	596838	53611976	5517007	1115	88385											
VN1R4	317703	broad.mit.edu	37	chr19	53770718	53770718	+	Silent	SNP	T	C	C	0	1	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	aaatatctaaccccaaaagcTgccattgtctgggggactcc	12	9	8	12	0	2	0	0	0	2	0	3	1	3	1	4	2	3	1	4	2	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:53770718T>C	uc010ydu.1	-	1	201	c.201A>G	c.(199-201)GCA>GCG	p.A67A		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	67	Helical; Name=2; (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		CCCCAAAAGCTGCCATTGTCT	0.488										HNSCC(26;0.072)			12	52					0	0	0.00499	0	0		C	53770718	C	C	53770718	2	2	160	1	0	0	0	0	0	0	0	1	17206	1567	55	3		3	VN1R4	19	53770718	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	158742	53770718	5358265	1116	88386											
LENG8	114823	broad.mit.edu	37	chr19	54967257	54967257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggggcgggggtgccccGtcccagcgagggacgcccgg	6	2	19	14	5	0	0	0	0	0	0	1	2	1	1	4	6	2	0	4	6	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:54967257G>A	uc002qfv.1	+	8	1170	c.1026G>A	c.(1024-1026)CCG>CCA	p.P342P	LENG8_uc002qfw.2_Silent_p.P379P			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	342							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		GGGGTGCCCCGTCCCAGCGAG	0.672													8	18					0	0	0.008291	0	0		A	54967257	A	A	54967257	2	1	160	1	0	0	0	0	0	0	0	1	8740	1132	40	1		1	LENG8	19	54967257	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1196539	54967257	4161726	1117	88387											
LILRB1	10859	broad.mit.edu	37	chr19	55144563	55144563	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtgtcagtcacagggatggaTgcaaactttccttctgacca	10	11	10	10	0	3	1	2	1	1	0	4	3	4	3	2	2	2	1	2	2	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:55144563T>C	uc002qgj.2	+	8	1395	c.1055T>C	c.(1054-1056)ATG>ACG	p.M352T	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.M352T|LILRB1_uc002qgk.2_Missense_Mutation_p.M352T|LILRB1_uc002qgm.2_Missense_Mutation_p.M352T|LILRB1_uc010erq.2_Missense_Mutation_p.M352T|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	352	Ig-like C2-type 4.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CAGGGATGGATGCAAACTTTC	0.557										HNSCC(37;0.09)			34	85					0	0	0.013726	0	0		C	55144563	C	C	55144563	3	2	160	1	0	0	0	0	1	0	0	0	8806	1464	51	3	1077	3	LILRB1	19	55144563	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	177306	55144563	3984420	1118	88388											
SYT5	6861	broad.mit.edu	37	chr19	55686555	55686555	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacctcctcccgcggagcCgcctgcagctcccgccaggc	4	5	10	22	4	1	0	1	0	0	0	4	1	4	1	7	2	3	2	7	2	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:55686555C>T	uc002qjm.1	-	5	1753	c.693G>A	c.(691-693)GCG>GCA	p.A231A	SYT5_uc002qjp.2_Silent_p.A228A|SYT5_uc002qjn.1_Silent_p.A231A|SYT5_uc002qjo.1_Silent_p.A231A	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	231	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		CCCGCGGAGCCGCCTGCAGCT	0.692													6	12					0	0	0.00308	0	0		T	55686555	T	T	55686555	2	4	160	1	0	0	0	0	0	0	0	1	15502	639	23	1		1	SYT5	19	55686555	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	541992	55686555	3442428	1119	88389											
ZNF628	89887	broad.mit.edu	37	chr19	55994335	55994335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtgcacacgggcgagcGgcccttccgctgcccgctct	3	6	14	18	7	1	0	0	0	1	0	2	1	2	0	3	2	3	3	3	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:55994335G>A	uc002qld.2	+	3	2328	c.1763G>A	c.(1762-1764)CGG>CAG	p.R588Q	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	588						nucleus	DNA binding|zinc ion binding				0	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)		ACGGGCGAGCGGCCCTTCCGC	0.711													9	14					0	0	0.006214	0	0		A	55994335	A	A	55994335	3	1	160	1	0	0	0	0	1	0	0	0	18077	1116	39	1	1765	1	ZNF628	19	55994335	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	307780	55994335	3134648	1120	88390											
ZNF543	125919	broad.mit.edu	37	chr19	57839961	57839961	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgtggaaaagctttttgCgagagtgcagacctcattca	11	11	12	7	1	2	2	2	0	0	2	2	5	2	3	1	1	3	2	1	1	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:57839961C>T	uc002qoi.1	+	4	1476	c.1131C>T	c.(1129-1131)TGC>TGT	p.C377C		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	377	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		AAGCTTTTTGCGAGAGTGCAG	0.512													16	74					0	0	0.004007	0	0		T	57839961	T	T	57839961	2	4	160	1	0	0	0	0	0	0	0	1	18001	776	27	1		1	ZNF543	19	57839961	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1845626	57839961	1289022	1121	88391											
ZNF671	79891	broad.mit.edu	37	chr19	58232616	58232616	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgtgatacctctgtcccaTgagaaagccactcacaagct	11	9	7	14	0	2	2	1	2	1	1	3	3	3	2	4	0	3	1	4	0	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:58232616T>C	uc002qpz.3	-	4	937	c.838A>G	c.(838-840)ATG>GTG	p.M280V	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Missense_Mutation_p.M203V|ZNF671_uc010yhf.1_Missense_Mutation_p.M182V	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	280					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		CTCTGTCCCATGAGAAAGCCA	0.517													44	86					0	0	0.013114	0	0		C	58232616	C	C	58232616	3	2	160	1	0	0	0	0	1	0	0	0	18103	1464	51	3	770	3	ZNF671	19	58232616	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	392655	58232616	896367	1122	88392											
ZNF552	79818	broad.mit.edu	37	chr19	58319437	58319437	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttcttttgtgaactctctGatgatgacgaagtgaagaga	11	14	10	6	1	2	6	0	5	2	1	3	8	2	6	0	0	1	0	0	0	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:58319437G>A	uc002qqg.2	-	3	1365	c.1195C>T	c.(1195-1197)CAG>TAG	p.Q399*	ZNF587_uc002qqb.2_Intron|ZNF552_uc010yhg.1_Nonsense_Mutation_p.Q395*	NM_024762	NP_079038	Q9H707	ZN552_HUMAN	zinc finger protein 552	399	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		TGAACTCTCTGATGATGACGA	0.408													8	262					0	0	0.004482	0	0		A	58319437	A	A	58319437	4	1	160	1	0	0	0	0	0	1	0	0	18009	1299	45	4	32	4	ZNF552	19	58319437	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	86821	58319437	809546	1123	88393											
ZSCAN1	284312	broad.mit.edu	37	chr19	58565272	58565272	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagggcccccgggagtcCgtcccacccagggatggagc	8	3	15	15	2	0	0	0	0	0	0	2	3	2	3	5	4	2	1	5	4	1	0	rs144381428		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:58565272C>T	uc002qrc.1	+	6	1327	c.1080C>T	c.(1078-1080)TCC>TCT	p.S360S		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	360					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		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;0.0152)		CCCGGGAGTCCGTCCCACCCA	0.662													11	22					0	0	0.008291	0	0		T	58565272	T	T	58565272	2	4	160	1	0	0	0	0	0	0	0	1	18251	639	23	1		1	ZSCAN1	19	58565272	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	245835	58565272	563711	1124	88394											
MZF1	7593	broad.mit.edu	37	chr19	59074394	59074394	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgcgcacgaagccctggccaCagtcgccgcacacgaacggc	9	3	12	17	6	0	0	0	0	0	0	1	2	0	0	3	2	3	2	3	2	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr19:59074394C>A	uc002qto.2	-	6	1811	c.1250G>T	c.(1249-1251)TGT>TTT	p.C417F	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_Missense_Mutation_p.C417F	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	417	C2H2-type 3.				viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		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)		GCCCTGGCCACAGTCGCCGCA	0.687													9	14					2.80697e-09	2.99198e-09	0.010729	1	0		A	59074394	A	A	59074394	3	1	160	1	0	0	0	0	1	0	0	0	10126	478	17	5	958	5	MZF1	19	59074394	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	509122	59074394	54589	1125	88395											
NSFL1C	55968	broad.mit.edu	37	chr20	1444988	1444988	+	Silent	SNP	T	C	C	0	1	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	ccttacctgggggctgtgccTctggacactgaactgggggt	5	10	15	11	0	1	1	0	1	1	0	1	2	1	2	3	5	3	1	3	5	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:1444988T>C	uc002wfc.2	-	2	1137	c.189A>G	c.(187-189)AGA>AGG	p.R63R	NSFL1C_uc002wfd.2_Intron|NSFL1C_uc002wfe.2_Silent_p.R63R|NSFL1C_uc002wff.2_RNA	NM_016143	NP_057227	Q9UNZ2	NSF1C_HUMAN	p47 protein isoform a	63						chromosome|Golgi stack|nucleus	lipid binding|protein binding				0						GGGCTGTGCCTCTGGACACTG	0.532													80	214					0	0	0.01441	0	0		C	1444988	C	C	1444988	2	2	160	1	0	0	0	0	0	0	0	1	10691	1548	54	3		3	NSFL1C	20	1444988	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08		1444988	61580532	1126	88396											
C20orf194	25943	broad.mit.edu	37	chr20	3362099	3362099	+	Silent	SNP	A	G	G	1	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	ttgtacaaaccaaatagaagAtaatttgccagctctctgca	15	11	6	9	0	1	2	0	0	1	2	2	2	1	2	2	0	5	3	2	0	6	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:3362099A>G	uc002wii.2	-	3	261	c.210T>C	c.(208-210)TAT>TAC	p.Y70Y	C20orf194_uc010gay.1_RNA	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	70											0						CAAATAGAAGATAATTTGCCA	0.403													38	119					0	0	0.007835	0	0		G	3362099	G	G	3362099	2	3	160	1	0	0	0	0	0	0	0	1	2102	340	12	3		3	C20orf194	20	3362099	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1917111	3362099	59663421	1127	88397											
PANK2	80025	broad.mit.edu	37	chr20	3897602	3897602	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatgatgagcaaggagaagCgagaggctgtcagtaaagag	16	5	15	5	1	1	5	1	2	0	3	1	7	1	5	0	2	2	3	0	2	4	1	rs137852968		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:3897602C>T	uc002wkc.2	+	5	1447	c.1441C>T	c.(1441-1443)CGA>TGA	p.R481*	PANK2_uc002wkb.2_Nonsense_Mutation_p.R190*|PANK2_uc002wkd.2_RNA|PANK2_uc002wke.2_Nonsense_Mutation_p.R190*|PANK2_uc002wkf.2_Nonsense_Mutation_p.R45*|uc002wkg.2_5'Flank|MIR103-2_hsa-mir-103-2|MI0000108_5'Flank	NM_153638	NP_705902	Q9BZ23	PANK2_HUMAN	pantothenate kinase 2 isoform 1 preproprotein	481					cell death|coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial intermembrane space|nucleus	ATP binding|pantothenate kinase activity|protein binding				0						CAAGGAGAAGCGAGAGGCTGT	0.443													29	64					0	0	0.00632	0	0		T	3897602	T	T	3897602	4	4	160	1	0	0	0	0	0	1	0	0	11436	760	27	1	1459	1	PANK2	20	3897602	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	535503	3897602	59127918	1128	88398											
RASSF2	9770	broad.mit.edu	37	chr20	4776521	4776521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatggagggggtcgaatgCgttcgttgtcatcctgcatc	7	11	15	8	3	1	0	1	0	0	0	5	3	2	2	1	4	2	3	1	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:4776521C>T	uc002wld.2	-	4	281	c.227G>A	c.(226-228)CGC>CAC	p.R76H	RASSF2_uc002wlc.2_5'Flank|RASSF2_uc002wle.2_RNA|RASSF2_uc002wlf.2_Missense_Mutation_p.R76H	NM_170774	NP_739580	P50749	RASF2_HUMAN	Ras association domain family 2	76					cell cycle|signal transduction	nucleus	protein binding			ovary(3)|lung(2)|large_intestine(1)	6						GGGTCGAATGCGTTCGTTGTC	0.622													52	112					0	0	0.01441	0	0		T	4776521	T	T	4776521	3	4	160	1	0	0	0	0	1	0	0	0	13111	768	27	1	785	1	RASSF2	20	4776521	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	878919	4776521	58248999	1129	88399											
C20orf7	79133	broad.mit.edu	37	chr20	13773858	13773858	+	Silent	SNP	T	C	C	0	1	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	aagtttttccaagctgacatTgcagaaaatgctttggtagg	12	13	10	6	0	0	2	0	1	0	1	1	2	1	2	1	2	3	5	1	2	5	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:13773858T>C	uc002wom.2	+	4	393	c.360T>C	c.(358-360)ATT>ATC	p.I120I	C20orf7_uc002wol.1_Silent_p.I120I|C20orf7_uc002won.2_Missense_Mutation_p.L127S|C20orf7_uc002woo.2_RNA	NM_024120	NP_077025	Q5TEU4	CT007_HUMAN	hypothetical protein LOC79133 isoform 1	120					mitochondrial respiratory chain complex I assembly	extrinsic to mitochondrial inner membrane	methyltransferase activity				0		Myeloproliferative disorder(85;0.00878)				AAGCTGACATTGCAGAAAATG	0.323													9	178					0	0	0.008291	0	0		C	13773858	C	C	13773858	2	2	160	1	0	0	0	0	0	0	0	1	2118	1821	63	3		3	C20orf7	20	13773858	Silent	SNP	T	TCGA-CG-5733-01A-11D-1600-08	8997337	13773858	49251662	1130	88400											
OTOR	56914	broad.mit.edu	37	chr20	16729076	16729076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atattgttacttttcctcccGggtcttgtggctgtatgtgc	4	18	10	9	1	1	0	0	0	1	0	3	0	3	0	2	2	2	3	2	2	3	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:16729076G>A	uc002wpj.2	+	1	74	c.30G>A	c.(28-30)CCG>CCA	p.P10P	OTOR_uc002wpk.2_5'Flank	NM_020157	NP_064542	Q9NRC9	OTOR_HUMAN	otoraplin precursor	10					sensory perception of sound	extracellular region				ovary(1)|central_nervous_system(1)	2						TTTTCCTCCCGGGTCTTGTGG	0.433													83	203					0	0	0.01441	0	0		A	16729076	A	A	16729076	2	1	160	1	0	0	0	0	0	0	0	1	11327	1103	39	1		1	OTOR	20	16729076	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2955218	16729076	46296444	1131	88401											
DSTN	11034	broad.mit.edu	37	chr20	17587777	17587777	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttaattgtagcctttgaaGgatgccctgtgtagattatt	9	16	9	7	0	0	2	0	1	0	1	0	3	0	3	3	1	2	2	3	1	5	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:17587777G>T	uc002wpr.2	+	4	739	c.484G>T	c.(484-486)GGA>TGA	p.G162*	DSTN_uc002wpq.2_Nonsense_Mutation_p.G145*|DSTN_uc010gck.2_Nonsense_Mutation_p.G145*	NM_006870	NP_006861	P60981	DEST_HUMAN	destrin isoform a	162					actin filament severing|actin polymerization or depolymerization		actin binding			large_intestine(1)|skin(1)	2						AGCCTTTGAAGGATGCCCTGT	0.373													35	108					3.11337e-16	3.40102e-16	0.013726	1	0		T	17587777	T	T	17587777	4	4	160	1	0	0	0	0	0	1	0	0	4790	1001	35	5	498	5	DSTN	20	17587777	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	858701	17587777	45437743	1132	88402											
CD93	22918	broad.mit.edu	37	chr20	23065495	23065495	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtggaaggacccttgtgtGttgaagcacaagctgtcgca	10	9	13	9	1	0	1	0	1	0	0	1	3	0	3	1	2	2	4	1	2	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:23065495G>A	uc002wsv.2	-	1	1483	c.1335C>T	c.(1333-1335)AAC>AAT	p.N445N		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	445	Extracellular (Potential).|EGF-like 5; calcium-binding (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					ACCCTTGTGTGTTGAAGCACA	0.657													37	86					0	0	0.006999	0	0		A	23065495	A	A	23065495	2	1	160	1	0	0	0	0	0	0	0	1	3050	1368	48	4		4	CD93	20	23065495	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5477718	23065495	39960025	1133	88403											
GZF1	64412	broad.mit.edu	37	chr20	23346303	23346303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gctgcggctgcacgagcgcaCacacacgggagaccggccct	8	3	14	16	5	0	1	0	0	0	1	0	3	0	1	2	3	3	4	2	3	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:23346303C>T	uc010gdb.2	+	3	1457	c.1283C>T	c.(1282-1284)ACA>ATA	p.T428I	GZF1_uc002wsy.2_Missense_Mutation_p.T428I|GZF1_uc010zsq.1_Intron|GZF1_uc010zsr.1_Intron|GZF1_uc002wsz.2_Missense_Mutation_p.T428I	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	428	C2H2-type 4.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					CACGAGCGCACACACACGGGA	0.716													7	23					0	0	0.008291	0	0		T	23346303	T	T	23346303	3	4	160	1	0	0	0	0	1	0	0	0	6930	478	17	4	1285	4	GZF1	20	23346303	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	280808	23346303	39679217	1134	88404											
C20orf160	140706	broad.mit.edu	37	chr20	30610484	30610484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctgcagaggagtcctgcGcactcatctgtcaggtcttc	7	10	11	13	2	4	1	2	0	2	1	6	2	5	2	1	2	2	3	1	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:30610484G>A	uc002wxf.2	+	6	968	c.955G>A	c.(955-957)GCA>ACA	p.A319T	C20orf160_uc002wxg.2_5'UTR	NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	319										central_nervous_system(3)|ovary(1)	4						GGAGTCCTGCGCACTCATCTG	0.562													8	247					0	0	0.004482	0	0		A	30610484	A	A	30610484	3	1	160	1	0	0	0	0	1	0	0	0	2096	1087	38	1	977	1	C20orf160	20	30610484	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7264181	30610484	32415036	1135	88405											
C20orf185	359710	broad.mit.edu	37	chr20	31656644	31656644	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctgcaccagcaactcctActgttcctgcgggtgaggga	7	8	11	15	1	0	1	0	1	0	0	2	2	2	2	5	2	5	3	5	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:31656644A>G	uc002wym.1	+	10	1014	c.1014A>G	c.(1012-1014)CTA>CTG	p.L338L		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	338					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						AGCAACTCCTACTGTTCCTGC	0.522													6	74					0	0	0.001168	0	0		G	31656644	G	G	31656644	2	3	160	1	0	0	0	0	0	0	0	1	2100	378	14	3		3	C20orf185	20	31656644	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1046160	31656644	31368876	1136	88406											
CPNE1	8904	broad.mit.edu	37	chr20	34214277	34214277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcacttctgcgagcacGgtctgtgccaatgcctcccg	5	9	13	14	3	2	0	0	0	2	0	3	1	3	0	3	2	4	2	3	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:34214277G>A	uc002xdf.2	-	18	1863	c.1500C>T	c.(1498-1500)ACC>ACT	p.T500T	CPNE1_uc002xdc.2_Silent_p.T162T|CPNE1_uc010zvj.1_Silent_p.T505T|CPNE1_uc002xde.2_Silent_p.T476T|CPNE1_uc002xdg.2_Silent_p.T444T|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Silent_p.T500T|CPNE1_uc002xdi.2_Silent_p.T500T|CPNE1_uc002xdj.2_Silent_p.T500T|CPNE1_uc002xdk.2_Silent_p.T500T|CPNE1_uc002xdl.2_Silent_p.T500T|CPNE1_uc002xdm.2_Silent_p.T500T	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	500	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CTGCGAGCACGGTCTGTGCCA	0.587													37	110					0	0	0.004878	0	0		A	34214277	A	A	34214277	2	1	160	1	0	0	0	0	0	0	0	1	3814	1103	39	1		1	CPNE1	20	34214277	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2557633	34214277	28811243	1137	88407											
RBL1	5933	broad.mit.edu	37	chr20	35668582	35668582	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagactcccactgtcagttCgaacttccttgactcttggg	8	12	9	12	1	2	2	1	1	1	1	5	4	4	2	2	1	1	1	2	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:35668582C>T	uc002xgi.2	-	14	1956	c.1877G>A	c.(1876-1878)CGA>CAA	p.R626Q	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.R626Q	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	626	Pocket; binds T and E1A.|Spacer.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				ACTGTCAGTTCGAACTTCCTT	0.413													68	183					0	0	0.01441	0	0		T	35668582	T	T	35668582	3	4	160	1	0	0	0	0	1	0	0	0	13134	884	31	1	1374	1	RBL1	20	35668582	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1454305	35668582	27356938	1138	88408											
PLCG1	5335	broad.mit.edu	37	chr20	39791364	39791364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgtacagcgcccagaagaCggtgcatgagccacctgccc	10	5	11	15	2	0	3	0	1	0	2	0	3	0	3	4	1	5	2	4	1	2	1	rs141297485		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:39791364C>T	uc002xjp.1	+	6	801	c.680C>T	c.(679-681)ACG>ATG	p.T227M	PLCG1_uc002xjo.1_Missense_Mutation_p.T227M|PLCG1_uc010zwe.1_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	227					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GCCCAGAAGACGGTGCATGAG	0.642													5	18					0	0	0.001984	0	0		T	39791364	T	T	39791364	3	4	160	1	0	0	0	0	1	0	0	0	12054	550	19	1	702	1	PLCG1	20	39791364	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4122782	39791364	23234156	1139	88409											
MATN4	8785	broad.mit.edu	37	chr20	43926646	43926646	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcagttccgctggctcCgaggcgatctcgcgcagctc	5	8	13	15	6	1	0	0	0	1	0	5	2	3	0	2	2	2	6	2	2	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:43926646C>T	uc002xnn.2	-	8	1678	c.1491G>A	c.(1489-1491)TCG>TCA	p.S497S	MATN4_uc002xno.2_Silent_p.S456S|MATN4_uc002xnp.2_Silent_p.S415S|MATN4_uc010zwr.1_Silent_p.S445S|MATN4_uc002xnr.1_Silent_p.S497S	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	538	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CCGCTGGCTCCGAGGCGATCT	0.667													12	41					0	0	0.013537	0	0		T	43926646	T	T	43926646	2	4	160	1	0	0	0	0	0	0	0	1	9354	639	23	1		1	MATN4	20	43926646	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4135282	43926646	19098874	1140	88410											
MATN4	8785	broad.mit.edu	37	chr20	43926973	43926973	+	Silent	SNP	G	A	A	0	0	1	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	aacgccagccctgtcatggtGccgcgttccatgtactccac	7	9	9	16	3	1	0	1	0	0	0	3	0	3	0	5	1	4	2	5	1	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:43926973G>A	uc002xnn.2	-	7	1450	c.1263C>T	c.(1261-1263)GGC>GGT	p.G421G	MATN4_uc002xno.2_Silent_p.G380G|MATN4_uc002xnp.2_Silent_p.G339G|MATN4_uc010zwr.1_Silent_p.G369G|MATN4_uc002xnr.1_Silent_p.G421G	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	462	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CTGTCATGGTGCCGCGTTCCA	0.677													25	41					0	0	0.00278	0	0		A	43926973	A	A	43926973	2	1	160	1	0	0	0	0	0	0	0	1	9354	1306	46	2		2	MATN4	20	43926973	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	327	43926973	19098547	1141	88411											
TP53TG5	27296	broad.mit.edu	37	chr20	44003782	44003782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgcacatcaccctgggcGccgggaggtggattcgtgtg	6	9	15	11	3	2	0	1	0	1	0	3	2	2	2	2	4	1	1	2	4	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:44003782G>A	uc002xny.2	-	4	746	c.665C>T	c.(664-666)GCG>GTG	p.A222V	SYS1_uc002xnw.1_3'UTR|SYS1-DBNDD2_uc002xnx.2_Intron	NM_014477	NP_055292	Q9Y2B4	T53G5_HUMAN	TP53-target gene 5 protein	222					intracellular signal transduction|negative regulation of cell growth	cytoplasm|nucleus				central_nervous_system(1)	1						CACCCTGGGCGCCGGGAGGTG	0.602													32	70					0	0	0.010818	0	0		A	44003782	A	A	44003782	3	1	160	1	0	0	0	0	1	0	0	0	16417	1087	38	1	215	1	TP53TG5	20	44003782	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	76809	44003782	19021738	1142	88412											
PCIF1	63935	broad.mit.edu	37	chr20	44569462	44569462	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacagattgaaatcccagtGacacccacaggccagtcggt	12	7	9	13	1	0	3	0	2	0	1	2	3	1	3	3	2	1	0	3	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:44569462G>A	uc002xqs.2	+	6	716	c.402G>A	c.(400-402)GTG>GTA	p.V134V		NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	134						nucleus				skin(1)	1						AAATCCCAGTGACACCCACAG	0.542													41	99					0	0	0.01441	0	0		A	44569462	A	A	44569462	2	1	160	1	0	0	0	0	0	0	0	1	11599	1277	45	4		4	PCIF1	20	44569462	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	565680	44569462	18456058	1143	88413											
ZMYND8	23613	broad.mit.edu	37	chr20	45905096	45905096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtccatggactcctcgctcGcactgaagtggctcgacgtg	7	9	12	13	4	0	1	0	1	0	0	5	3	2	2	2	2	0	3	2	2	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:45905096G>A	uc002xta.1	-	11	1636	c.1382C>T	c.(1381-1383)GCG>GTG	p.A461V	ZMYND8_uc010ghq.1_Missense_Mutation_p.A138V|ZMYND8_uc010ghr.1_Missense_Mutation_p.A436V|ZMYND8_uc002xst.1_Missense_Mutation_p.A436V|ZMYND8_uc002xsu.1_Missense_Mutation_p.A461V|ZMYND8_uc002xsv.1_Missense_Mutation_p.A436V|ZMYND8_uc002xsw.1_Missense_Mutation_p.A213V|ZMYND8_uc002xsx.1_Missense_Mutation_p.A213V|ZMYND8_uc002xsy.1_Missense_Mutation_p.A436V|ZMYND8_uc002xsz.1_Missense_Mutation_p.A398V|ZMYND8_uc010zxy.1_Missense_Mutation_p.A488V|ZMYND8_uc002xtb.1_Missense_Mutation_p.A481V|ZMYND8_uc002xss.2_Missense_Mutation_p.A461V|ZMYND8_uc010zxz.1_Missense_Mutation_p.A456V|ZMYND8_uc002xtc.1_Missense_Mutation_p.A481V|ZMYND8_uc002xtd.1_Missense_Mutation_p.A456V|ZMYND8_uc002xte.1_Missense_Mutation_p.A461V|ZMYND8_uc010zya.1_Missense_Mutation_p.A461V|ZMYND8_uc002xtf.1_Missense_Mutation_p.A481V|ZMYND8_uc002xtg.2_Missense_Mutation_p.A455V|ZMYND8_uc010ghs.1_Missense_Mutation_p.A455V	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	461							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CTCCTCGCTCGCACTGAAGTG	0.632													5	35					0	0	0.004482	0	0		A	45905096	A	A	45905096	3	1	160	1	0	0	0	0	1	0	0	0	17736	1087	38	1	2176	1	ZMYND8	20	45905096	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1335634	45905096	17120424	1144	88414											
PREX1	57580	broad.mit.edu	37	chr20	47266655	47266655	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttgatgtggcaattggtGgggcagaagtccaggccaca	10	8	16	7	0	0	2	0	1	0	1	1	2	1	2	2	6	0	3	2	6	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:47266655G>T	uc002xtw.1	-	24	2930	c.2907C>A	c.(2905-2907)CCC>CCA	p.P969P	PREX1_uc002xtv.1_Silent_p.P266P	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	969					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GGCAATTGGTGGGGCAGAAGT	0.597													54	129					1.04682e-39	1.18113e-39	0.01441	1	0		T	47266655	T	T	47266655	2	4	160	1	0	0	0	0	0	0	0	1	12498	1335	47	5		5	PREX1	20	47266655	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1361559	47266655	15758865	1145	88415											
STAU1	6780	broad.mit.edu	37	chr20	47734382	47734382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgagaggtccatggggtaCgtggcctgaagagatgttat	9	10	16	6	2	0	3	0	2	0	2	1	5	1	3	2	4	1	2	2	4	3	2	rs146630196		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:47734382C>T	uc002xud.2	-	11	1852	c.1441G>A	c.(1441-1443)GTA>ATA	p.V481I	STAU1_uc002xua.2_Missense_Mutation_p.V400I|STAU1_uc002xub.2_Missense_Mutation_p.V406I|STAU1_uc002xuc.2_Missense_Mutation_p.V400I|STAU1_uc002xue.2_Missense_Mutation_p.V400I|STAU1_uc002xuf.2_Missense_Mutation_p.V406I|STAU1_uc002xug.2_Missense_Mutation_p.V481I	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	481						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			CCATGGGGTACGTGGCCTGAA	0.542													41	62					0	0	0.006999	0	0		T	47734382	T	T	47734382	3	4	160	1	0	0	0	0	1	0	0	0	15297	536	19	1	308	1	STAU1	20	47734382	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	467727	47734382	15291138	1146	88416											
B4GALT5	9334	broad.mit.edu	37	chr20	48256216	48256216	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaagaacggcagaggtaccTgttccagaggtcgtcatctt	11	9	12	9	2	2	3	1	0	1	3	4	4	3	3	2	3	2	3	2	3	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:48256216T>C	uc002xuu.3	-	7	1110	c.916A>G	c.(916-918)AGA>GGA	p.R306G		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	306	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			CAGAGGTACCTGTTCCAGAGG	0.378													4	206					0	0	0.009096	0	0		C	48256216	C	C	48256216	3	2	160	1	0	0	0	0	1	0	0	0	1275	1594	55	3	262	3	B4GALT5	20	48256216	Missense_Mutation	SNP	T	TCGA-CG-5733-01A-11D-1600-08	521834	48256216	14769304	1147	88417											
KCNG1	3755	broad.mit.edu	37	chr20	49626173	49626173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggtgacggtcacgaagaGcaccgacaggcaggcgaaca	12	2	16	11	5	1	2	1	1	0	1	1	5	1	2	1	5	2	2	1	5	2	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:49626173G>A	uc002xwa.3	-	2	998	c.703C>T	c.(703-705)CTC>TTC	p.L235F	KCNG1_uc002xwb.2_Missense_Mutation_p.L235F	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	235	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						GTCACGAAGAGCACCGACAGG	0.706													2	2					0	0	0.009096	0	0		A	49626173	A	A	49626173	3	1	160	1	0	0	0	0	1	0	0	0	8043	971	34	2	846	2	KCNG1	20	49626173	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1369957	49626173	13399347	1148	88418											
CASS4	57091	broad.mit.edu	37	chr20	55033652	55033652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacgagatcctccgtggcaGcagtcacctctgcagcctgc	8	7	10	16	2	2	1	1	0	1	1	4	2	4	1	4	1	5	3	4	1	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:55033652G>A	uc002xxp.2	+	7	2435	c.2210G>A	c.(2209-2211)AGC>AAC	p.S737N	CASS4_uc002xxr.2_Missense_Mutation_p.S737N|CASS4_uc010zze.1_Missense_Mutation_p.S683N|CASS4_uc010gio.2_Missense_Mutation_p.S300N	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	737					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CTCCGTGGCAGCAGTCACCTC	0.637													10	31					0	0	0.008291	0	0		A	55033652	A	A	55033652	3	1	160	1	0	0	0	0	1	0	0	0	2686	971	34	2	2232	2	CASS4	20	55033652	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5407479	55033652	7991868	1149	88419											
BMP7	655	broad.mit.edu	37	chr20	55803373	55803373	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtagtccttgtagatccGgaattcggctgccgtgacag	8	11	13	9	3	0	2	0	1	0	1	3	4	2	3	3	2	1	3	3	2	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:55803373G>T	uc010gip.1	-	2	1052	c.523C>A	c.(523-525)CGG>AGG	p.R175R	BMP7_uc010giq.1_Silent_p.R175R|BMP7_uc002xyc.2_Silent_p.R175R	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	175					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			TTGTAGATCCGGAATTCGGCT	0.532													10	179					2.23348e-06	2.34691e-06	0.004007	1	0		T	55803373	T	T	55803373	2	4	160	1	0	0	0	0	0	0	0	1	1466	1115	39	5		5	BMP7	20	55803373	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	769721	55803373	7222147	1150	88420											
BMP7	655	broad.mit.edu	37	chr20	55840772	55840772	+	Missense_Mutation	SNP	A	G	G	1	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	cttactcaccgaggttgacgAagctcatgaccatgtcggcg	9	9	11	12	4	2	2	2	2	0	0	3	4	2	2	2	2	2	2	2	2	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:55840772A>G	uc010gip.1	-	1	936	c.407T>C	c.(406-408)TTC>TCC	p.F136S	BMP7_uc010giq.1_Missense_Mutation_p.F136S|BMP7_uc002xyc.2_Missense_Mutation_p.F136S|uc010gir.1_5'Flank	NM_001719	NP_001710	P18075	BMP7_HUMAN	bone morphogenetic protein 7 precursor	136					BMP signaling pathway|cartilage development|cellular response to hypoxia|epithelial to mesenchymal transition|growth|mesonephros development|negative regulation of glomerular mesangial cell proliferation|negative regulation of MAP kinase activity|negative regulation of mitosis|negative regulation of neuron differentiation|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of phosphorylation|negative regulation of striated muscle cell apoptosis|negative regulation of transcription, DNA-dependent|ossification|pathway-restricted SMAD protein phosphorylation|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|protein localization to nucleus|regulation of removal of superoxide radicals|SMAD protein signal transduction|steroid hormone mediated signaling pathway|ureteric bud development	extracellular space	cytokine activity|growth factor activity			skin(1)	1	all_lung(29;0.0133)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;2.49e-13)|Epithelial(14;1.74e-08)|all cancers(14;2.05e-07)			GAGGTTGACGAAGCTCATGAC	0.617													3	10					0	0	0.009096	0	0		G	55840772	G	G	55840772	3	3	160	1	0	0	0	0	1	0	0	0	1466	246	9	3	916	3	BMP7	20	55840772	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	37399	55840772	7184748	1151	88421											
ZNF831	128611	broad.mit.edu	37	chr20	57769496	57769496	+	Missense_Mutation	SNP	A	G	G	1	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	cactgccctcactcggcctcAgggtgtgcccccaggctggc	4	7	12	18	1	2	0	2	0	0	0	3	0	2	0	4	4	2	1	4	4	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:57769496A>G	uc002yan.2	+	1	3422	c.3422A>G	c.(3421-3423)CAG>CGG	p.Q1141R		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1141						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACTCGGCCTCAGGGTGTGCCC	0.672													20	55					0	0	0.00278	0	0		G	57769496	G	G	57769496	3	3	160	1	0	0	0	0	1	0	0	0	18210	188	7	3	3424	3	ZNF831	20	57769496	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1928724	57769496	5256024	1152	88422											
PHACTR3	116154	broad.mit.edu	37	chr20	58348498	58348498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgctggccacgaagcacCgccaggacaggtgaggccct	8	3	16	14	3	0	1	0	1	0	0	0	3	0	2	4	5	1	2	4	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:58348498C>T	uc002yau.2	+	6	1383	c.916C>T	c.(916-918)CGC>TGC	p.R306C	PHACTR3_uc002yat.2_Missense_Mutation_p.R303C|PHACTR3_uc010zzw.1_Missense_Mutation_p.R265C|PHACTR3_uc002yav.2_Missense_Mutation_p.R265C|PHACTR3_uc002yaw.2_Missense_Mutation_p.R265C|PHACTR3_uc002yax.2_Missense_Mutation_p.R195C	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	306						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			CACGAAGCACCGCCAGGACAG	0.687													4	8					0	0	0.009096	0	0		T	58348498	T	T	58348498	3	4	160	1	0	0	0	0	1	0	0	0	11830	652	23	1	938	1	PHACTR3	20	58348498	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	579002	58348498	4677022	1153	88423											
CDH4	1002	broad.mit.edu	37	chr20	60503309	60503309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcattgacatcaacgacaaCgcccctgagctgctgcccaa	11	7	7	16	2	2	2	2	2	0	0	2	3	2	2	3	0	5	2	3	0	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:60503309C>T	uc002ybn.1	+	12	1847	c.1833C>T	c.(1831-1833)AAC>AAT	p.N611N	CDH4_uc002ybp.1_Silent_p.N537N	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	611	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			TCAACGACAACGCCCCTGAGC	0.627													89	235					0	0	0.01441	0	0		T	60503309	T	T	60503309	2	4	160	1	0	0	0	0	0	0	0	1	3115	535	19	1		1	CDH4	20	60503309	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2154811	60503309	2522211	1154	88424											
LAMA5	3911	broad.mit.edu	37	chr20	60904112	60904112	+	Splice_Site	SNP	C	T	T	0	0	0	1	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	acagggatgagctgctggggCtacatggaggggcacgtggt	8	7	19	7	1	0	1	0	1	0	0	0	3	0	3	0	7	3	4	0	7	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:60904112C>T	uc002ycq.2	-	34	4303	c.4236_splice	c.e34-1	p.S1412_splice		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor						angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCTGCTGGGGCTACATGGAGG	0.652													22	45					0	0	0.010504	0	0		T	60904112	T	T	60904112	5	4	160	1	0	0	0	0	0	0	1	0	8625	811	28	2	7040	2	LAMA5	20	60904112	Splice_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08	400803	60904112	2121408	1155	88425											
COL20A1	57642	broad.mit.edu	37	chr20	61959716	61959716	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcgactccttccacgagaAcaccaggccccccatgccca	9	6	7	19	2	0	1	0	0	0	1	3	3	2	1	7	1	2	1	7	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:61959716A>G	uc011aau.1	+	34	3747	c.3647A>G	c.(3646-3648)AAC>AGC	p.N1216S	COL20A1_uc011aav.1_Missense_Mutation_p.N1043S	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	1216					cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					TTCCACGAGAACACCAGGCCC	0.662													4	13					0	0	0.001168	0	0		G	61959716	G	G	61959716	3	3	160	1	0	0	0	0	1	0	0	0	3682	43	2	3	3719	3	COL20A1	20	61959716	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1055604	61959716	1065804	1156	88426											
EEF1A2	1917	broad.mit.edu	37	chr20	62126345	62126345	+	Missense_Mutation	SNP	A	G	G	1	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	cgcccacgatgagctgcttcAcacccagcgtgtaggccagc	8	6	11	16	3	1	1	1	1	0	0	1	2	1	1	3	1	4	3	3	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr20:62126345A>G	uc002yfd.1	-	3	535	c.434T>C	c.(433-435)GTG>GCG	p.V145A	EEF1A2_uc002yfe.1_Missense_Mutation_p.V145A|EEF1A2_uc010gkg.1_Missense_Mutation_p.V145A	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	145						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			GAGCTGCTTCACACCCAGCGT	0.627													22	84					0	0	0.012319	0	0		G	62126345	G	G	62126345	3	3	160	1	0	0	0	0	1	0	0	0	4930	159	6	3	977	3	EEF1A2	20	62126345	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	166629	62126345	899175	1157	88427											
SON	6651	broad.mit.edu	37	chr21	34921957	34921957	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagaatctgagtcaaagacGaaatctcatgatgatgggaa	17	8	11	5	1	3	5	2	3	2	2	4	8	3	6	0	1	0	0	0	1	5	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:34921957G>A	uc002yse.1	+	3	469	c.420G>A	c.(418-420)ACG>ACA	p.T140T	SON_uc002ysb.1_Silent_p.T140T|SON_uc002ysc.2_Silent_p.T140T|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	140					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						AGTCAAAGACGAAATCTCATG	0.303											OREG0003562	type=REGULATORY REGION|Gene=AK091233|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	22	73					0	0	0.010504	0	0		A	34921957	A	A	34921957	2	1	160	1	0	0	0	0	0	0	0	1	14951	1045	37	1		1	SON	21	34921957	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08		34921957	13207938	1158	88428											
DOPEY2	9980	broad.mit.edu	37	chr21	37597930	37597930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacggtctcggagctctgcGccctcctggtcttcctgctg	2	11	11	17	3	3	0	0	0	3	0	6	1	5	1	4	3	3	2	4	3	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:37597930G>A	uc002yvg.2	+	12	1517	c.1438G>A	c.(1438-1440)GCC>ACC	p.A480T	DOPEY2_uc011aeb.1_Missense_Mutation_p.A480T	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	480					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						GGAGCTCTGCGCCCTCCTGGT	0.517													25	60					0	0	0.004656	0	0		A	37597930	A	A	37597930	3	1	160	1	0	0	0	0	1	0	0	0	4714	1087	38	1	1480	1	DOPEY2	21	37597930	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2675973	37597930	10531965	1159	88429											
DOPEY2	9980	broad.mit.edu	37	chr21	37603085	37603085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagagggacagggatgggaCgcagagcctggcagccaatg	12	3	18	8	1	0	2	0	0	0	2	0	6	0	5	2	4	2	2	2	4	2	0	rs143591918		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:37603085C>T	uc002yvg.2	+	14	2082	c.2003C>T	c.(2002-2004)ACG>ATG	p.T668M	DOPEY2_uc011aeb.1_Missense_Mutation_p.T668M	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	668					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						AGGGATGGGACGCAGAGCCTG	0.542													21	85					0	0	0.010504	0	0		T	37603085	T	T	37603085	3	4	160	1	0	0	0	0	1	0	0	0	4714	536	19	1	2053	1	DOPEY2	21	37603085	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	5155	37603085	10526810	1160	88430											
ZNF295	49854	broad.mit.edu	37	chr21	43411449	43411449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagctgcttatgcaccGtgaacatcttcccacacttc	8	11	6	16	1	1	1	0	1	1	0	4	1	3	1	3	0	4	4	3	0	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:43411449G>A	uc002zab.3	-	3	2970	c.2756C>T	c.(2755-2757)ACG>ATG	p.T919M	ZNF295_uc002yzz.3_Missense_Mutation_p.T718M|ZNF295_uc002yzy.3_Missense_Mutation_p.T919M|ZNF295_uc002zaa.3_Missense_Mutation_p.T919M	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	919	C2H2-type 6; atypical.				negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding	p.T919P(1)		ovary(1)|central_nervous_system(1)|skin(1)	3						CTTATGCACCGTGAACATCTT	0.537													52	98					0	0	0.01441	0	0		A	43411449	A	A	43411449	3	1	160	1	0	0	0	0	1	0	0	0	17852	1145	40	1	448	1	ZNF295	21	43411449	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	5808364	43411449	4718446	1161	88431											
RSPH1	89765	broad.mit.edu	37	chr21	43897412	43897412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccccacactctcagctcctGgagcgtcttggccaggtcca	6	8	10	17	1	2	0	1	0	2	0	5	1	4	1	5	3	2	1	5	3	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:43897412G>A	uc002zbg.2	-	7	821	c.716C>T	c.(715-717)CCA>CTA	p.P239L		NM_080860	NP_543136	Q8WYR4	RSPH1_HUMAN	testis-specific gene A2	239					meiosis	cytosol|nucleus				ovary(1)	1						CTCAGCTCCTGGAGCGTCTTG	0.637													28	57					0	0	0.013726	0	0		A	43897412	A	A	43897412	3	1	160	1	0	0	0	0	1	0	0	0	13727	1348	47	4	225	4	RSPH1	21	43897412	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	485963	43897412	4232483	1162	88432											
PDXK	8566	broad.mit.edu	37	chr21	45175603	45175603	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtgagaagaccgtgtctAccttgcaccacgttctgcag	8	10	10	13	2	2	2	0	1	2	2	2	3	2	2	4	0	3	3	4	0	2	3	rs145229797	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:45175603A>G	uc002zdm.3	+	10	982	c.784A>G	c.(784-786)ACC>GCC	p.T262A	PDXK_uc010gpj.2_Intron|PDXK_uc002zdn.3_Missense_Mutation_p.T234A|PDXK_uc002zdq.3_Missense_Mutation_p.T189A	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase	262					cell proliferation|pyridoxal 5'-phosphate salvage	cytosol	ATP binding|lithium ion binding|magnesium ion binding|potassium ion binding|protein homodimerization activity|pyridoxal kinase activity|pyridoxal phosphate binding|sodium ion binding|zinc ion binding				0				Colorectal(79;0.109)|READ - Rectum adenocarcinoma(84;0.161)|STAD - Stomach adenocarcinoma(101;0.18)	Pyridoxal(DB00147)|Pyridoxine(DB00165)	GACCGTGTCTACCTTGCACCA	0.647													38	66					0	0	0.006999	0	0		G	45175603	G	G	45175603	3	3	160	1	0	0	0	0	1	0	0	0	11716	391	14	3	822	3	PDXK	21	45175603	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	1278191	45175603	2954292	1163	88433											
TRPM2	7226	broad.mit.edu	37	chr21	45833838	45833838	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctacaagcctaagtgcccCgagagcgacgcgacgcagca	11	3	11	16	5	0	1	0	0	0	1	0	4	0	1	4	0	5	2	4	0	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:45833838C>A	uc002zet.1	+	21	3240	c.3027C>A	c.(3025-3027)CCC>CCA	p.P1009P	TRPM2_uc002zeu.1_Silent_p.P1009P|TRPM2_uc002zew.1_Silent_p.P1009P|TRPM2_uc010gpt.1_Silent_p.P1009P|TRPM2_uc002zex.1_Silent_p.P795P|TRPM2_uc002zey.1_Silent_p.P522P	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1009	Extracellular (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CTAAGTGCCCCGAGAGCGACG	0.617													41	331					2.47872e-24	2.76352e-24	0.010771	1	0		A	45833838	A	A	45833838	2	1	160	1	0	0	0	0	0	0	0	1	16612	639	23	5		5	TRPM2	21	45833838	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	658235	45833838	2296057	1164	88434											
KRTAP10-7	386675	broad.mit.edu	37	chr21	46021324	46021324	+	Missense_Mutation	SNP	A	G	G	1	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	cacctcctcccaaagccagcAgggctgctgcgtgcccgtct	6	7	10	18	2	1	0	0	0	1	0	3	0	3	0	5	1	5	3	5	1	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:46021324A>G	uc002zfn.3	+	2	813	c.788A>G	c.(787-789)CAG>CGG	p.Q263R	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198689	NP_941962	P60409	KR107_HUMAN	keratin associated protein 10-7	268	30 X 5 AA repeats of C-C-X(3).					keratin filament					0						CAAAGCCAGCAGGGCTGCTGC	0.627													6	184					0	0	0.00308	0	0		G	46021324	G	G	46021324	3	3	160	1	0	0	0	0	1	0	0	0	8530	188	7	3	794	3	KRTAP10-7	21	46021324	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	187486	46021324	2108571	1165	88435											
COL18A1	80781	broad.mit.edu	37	chr21	46932171	46932171	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgagagctactgtgagacGtggcggacggaggctccctc	8	6	15	12	4	0	2	0	1	0	2	2	6	1	4	2	4	2	2	2	4	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:46932171G>A	uc011afs.1	+	42	5136	c.5115G>A	c.(5113-5115)ACG>ACA	p.T1705T	COL18A1_uc002zhg.2_Silent_p.T1290T|COL18A1_uc002zhi.2_Silent_p.T1470T|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.2_Silent_p.T271T|COL18A1_uc002zhk.2_Silent_p.T115T	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1708	Nonhelical region 11 (NC11).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		ACTGTGAGACGTGGCGGACGG	0.701													3	11					0	0	0.000602	0	0		A	46932171	A	A	46932171	2	1	160	1	0	0	0	0	0	0	0	1	3678	1132	40	1		1	COL18A1	21	46932171	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	910847	46932171	1197724	1166	88436											
PCNT	5116	broad.mit.edu	37	chr21	47754538	47754538	+	Silent	SNP	A	G	G	1	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	ttcacagtcagtgaccacccAccagaacagcgtgggatgtt	11	8	10	12	1	2	2	2	1	0	1	2	3	2	3	3	1	2	1	3	1	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:47754538A>G	uc002zji.3	+	3	602	c.495A>G	c.(493-495)CCA>CCG	p.P165P	PCNT_uc002zjj.2_Silent_p.P47P|PCNT_uc010gqk.1_RNA	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	165					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GTGACCACCCACCAGAACAGC	0.547													6	151					0	0	0.004482	0	0		G	47754538	G	G	47754538	2	3	160	1	0	0	0	0	0	0	0	1	11609	146	6	3		3	PCNT	21	47754538	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	822367	47754538	375357	1167	88437											
PCNT	5116	broad.mit.edu	37	chr21	47855992	47855992	+	Missense_Mutation	SNP	A	G	G	1	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	ggaacagcagcgagagctggAggcgatgaggcagcggctgc	10	3	19	9	3	0	2	0	1	0	1	0	6	0	4	0	5	6	4	0	5	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr21:47855992A>G	uc002zji.3	+	39	9034	c.8927A>G	c.(8926-8928)GAG>GGG	p.E2976G	PCNT_uc002zjj.2_Missense_Mutation_p.E2779G	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2976	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CGAGAGCTGGAGGCGATGAGG	0.697													5	56					0	0	0.001168	0	0		G	47855992	G	G	47855992	3	3	160	1	0	0	0	0	1	0	0	0	11609	304	11	3	9081	3	PCNT	21	47855992	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	101454	47855992	273903	1168	88438											
MICAL3	57553	broad.mit.edu	37	chr22	18300751	18300751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgttctccttggccaggggcGggtggcgaggcttctcgggg	2	9	19	11	4	2	0	0	0	2	0	4	1	2	0	2	8	0	2	2	8	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:18300751G>A	uc002zng.3	-	26	5029	c.4676C>T	c.(4675-4677)CCG>CTG	p.P1559L	MICAL3_uc011agl.1_Missense_Mutation_p.P1475L|MICAL3_uc010gre.1_5'Flank	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1559						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GGCCAGGGGCGGGTGGCGAGG	0.657													6	13					0	0	0.004482	0	0		A	18300751	A	A	18300751	3	1	160	1	0	0	0	0	1	0	0	0	9589	1116	39	1	1360	1	MICAL3	22	18300751	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08		18300751	33003815	1169	88439											
TXNRD2	10587	broad.mit.edu	37	chr22	19898899	19898899	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagcacgcgcaggccttaCgtttttccaggggattcctt	7	11	10	13	3	0	0	0	0	0	0	2	1	2	1	4	3	2	3	4	3	2	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:19898899C>T	uc011ahc.1	-	8	695	c.662_splice	c.e8+1	p.T221_splice	TXNRD2_uc002zql.1_5'UTR|TXNRD2_uc002zqm.1_Splice_Site|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_Splice_Site|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Splice_Site_p.T220_splice|TXNRD2_uc010grv.1_Splice_Site_p.T221_splice|TXNRD2_uc002zqj.1_Splice_Site|TXNRD2_uc002zqs.2_Splice_Site_p.T189_splice	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor						cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					GCAGGCCTTACGTTTTTCCAG	0.522													23	63					0	0	0.014323	0	0		T	19898899	T	T	19898899	5	4	160	1	0	0	0	0	0	0	1	0	16834	550	19	1	951	1	TXNRD2	22	19898899	Splice_Site	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1598148	19898899	31405667	1170	88440											
TRMT2A	27037	broad.mit.edu	37	chr22	20100980	20100980	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggcgttcacccgggcGtcctccacagcctctgggca	4	8	12	17	3	2	0	1	0	1	0	5	0	5	0	5	3	1	2	5	3	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:20100980G>A	uc002zrk.1	-	10	1622	c.1407C>T	c.(1405-1407)GAC>GAT	p.D469D	TRMT2A_uc002zrl.1_Silent_p.D469D|TRMT2A_uc002zrm.1_Silent_p.D291D|TRMT2A_uc002zrn.1_Silent_p.D487D	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C	469					RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						TCACCCGGGCGTCCTCCACAG	0.652													6	19					0	0	0.001984	0	0		A	20100980	A	A	20100980	2	1	160	1	0	0	0	0	0	0	0	1	16591	1136	40	1		1	TRMT2A	22	20100980	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	202081	20100980	31203586	1171	88441											
KLHL22	84861	broad.mit.edu	37	chr22	20819491	20819491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccagcttgtcatgcagccGctgcaggacctcagcttcca	7	9	10	15	1	2	0	2	0	0	0	4	1	4	1	4	1	5	5	4	1	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:20819491G>A	uc002zsl.1	-	4	875	c.766C>T	c.(766-768)CGG>TGG	p.R256W	KLHL22_uc011ahr.1_Missense_Mutation_p.R113W|KLHL22_uc002zsm.1_Missense_Mutation_p.R256W	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	256					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			TCATGCAGCCGCTGCAGGACC	0.632													12	32					0	0	0.00245	0	0		A	20819491	A	A	20819491	3	1	160	1	0	0	0	0	1	0	0	0	8393	1086	38	1	1154	1	KLHL22	22	20819491	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	718511	20819491	30485075	1172	88442											
KLHL22	84861	broad.mit.edu	37	chr22	20825700	20825700	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgagctccagctcggaGgtgtatatgaaatgtaggat	11	10	14	6	1	0	2	0	2	0	0	2	4	1	4	1	4	2	5	1	4	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:20825700G>T	uc002zsl.1	-	3	439	c.330C>A	c.(328-330)ACC>ACA	p.T110T	KLHL22_uc011ahr.1_Intron|KLHL22_uc002zsm.1_Silent_p.T110T	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	110	BTB.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCAGCTCGGAGGTGTATATGA	0.522													52	92					6.81593e-30	7.65976e-30	0.01441	1	0		T	20825700	T	T	20825700	2	4	160	1	0	0	0	0	0	0	0	1	8393	987	35	5		5	KLHL22	22	20825700	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	6209	20825700	30478866	1173	88443											
SERPIND1	3053	broad.mit.edu	37	chr22	21133832	21133832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagggggaggaggacgacGactatctggacctggagaag	12	4	18	7	2	1	2	0	0	1	2	1	9	1	6	1	6	0	0	1	6	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:21133832G>A	uc002ztb.1	+	2	299	c.232G>A	c.(232-234)GAC>AAC	p.D78N	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.D106N	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	78	2 X 11 AA approximate repeats, Asp/Glu- rich (acidic) (hirudin-like).|Chemotactic activity.|1.				blood coagulation|chemotaxis|regulation of proteolysis	extracellular region	heparin binding|serine-type endopeptidase inhibitor activity				0	all_cancers(11;6.16e-25)|all_epithelial(7;1.02e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)		Ardeparin(DB00407)	GGAGGACGACGACTATCTGGA	0.512													5	127					0	0	0.001168	0	0		A	21133832	A	A	21133832	3	1	160	1	0	0	0	0	1	0	0	0	14135	1058	37	1	234	1	SERPIND1	22	21133832	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	308132	21133832	30170734	1174	88444											
PPM1F	9647	broad.mit.edu	37	chr22	22285570	22285570	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcaccacctgtccctgctGtaccaaaatgacctgggaat	10	10	7	14	0	1	1	1	1	0	0	2	2	2	2	5	1	2	2	5	1	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:22285570G>A	uc002zvp.1	-	6	955	c.841C>T	c.(841-843)CAG>TAG	p.Q281*	PPM1F_uc011aik.1_Nonsense_Mutation_p.Q177*|PPM1F_uc002zvq.2_Nonsense_Mutation_p.Q281*	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	281					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		TGTCCCTGCTGTACCAAAATG	0.602													19	92					0	0	0.00278	0	0		A	22285570	A	A	22285570	4	1	160	1	0	0	0	0	0	1	0	0	12361	1386	48	4	535	4	PPM1F	22	22285570	Nonsense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1151738	22285570	29018996	1175	88445											
MYO18B	84700	broad.mit.edu	37	chr22	26423430	26423430	+	Missense_Mutation	SNP	A	G	G	1	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	cattttgaagaagagcccggAgcccaaggaggatcccgctc	11	6	12	12	2	0	3	0	1	0	2	2	6	1	6	3	3	2	1	3	3	3	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:26423430A>G	uc003abz.1	+	43	7740	c.7490A>G	c.(7489-7491)GAG>GGG	p.E2497G	MYO18B_uc003aca.1_Missense_Mutation_p.E2378G|MYO18B_uc010guy.1_Missense_Mutation_p.E2379G|MYO18B_uc010guz.1_Missense_Mutation_p.E2377G|MYO18B_uc011aka.1_Missense_Mutation_p.E1651G|MYO18B_uc011akb.1_Missense_Mutation_p.E2010G|MYO18B_uc010gva.1_Missense_Mutation_p.E480G|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2497						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AAGAGCCCGGAGCCCAAGGAG	0.537													18	37					0	0	0.00499	0	0		G	26423430	G	G	26423430	3	3	160	1	0	0	0	0	1	0	0	0	10084	304	11	3	7656	3	MYO18B	22	26423430	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	4137860	26423430	24881136	1176	88446											
TPST2	8459	broad.mit.edu	37	chr22	26937534	26937534	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctgtcccagctgaacCgccagcaccaggaccagggc	9	4	11	17	1	0	1	0	1	0	0	1	2	1	2	6	2	4	3	6	2	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:26937534C>T	uc003acv.2	-	2	231	c.63G>A	c.(61-63)GCG>GCA	p.A21A	TPST2_uc003acw.2_Silent_p.A21A|TPST2_uc003acx.2_Silent_p.A21A|TPST2_uc011akf.1_Silent_p.A21A	NM_003595	NP_003586	O60704	TPST2_HUMAN	tyrosylprotein sulfotransferase 2	21	Helical; Signal-anchor for type II membrane protein; (Potential).				peptidyl-tyrosine sulfation	endoplasmic reticulum|Golgi membrane|integral to membrane|membrane fraction	protein-tyrosine sulfotransferase activity			central_nervous_system(1)	1						CCAGCTGAACCGCCAGCACCA	0.746													4	3					0	0	0.001984	0	0		T	26937534	T	T	26937534	2	4	160	1	0	0	0	0	0	0	0	1	16454	639	23	1		1	TPST2	22	26937534	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	514104	26937534	24367032	1177	88447											
AP1B1	162	broad.mit.edu	37	chr22	29754808	29754808	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtcgtggagcttggccacGcacacagctgctgtcttgcg	6	10	13	12	3	1	0	0	0	1	0	2	1	1	1	1	2	4	4	1	2	0	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:29754808G>A	uc003afj.2	-	5	616	c.432C>T	c.(430-432)TGC>TGT	p.C144C	AP1B1_uc003afi.2_Silent_p.C144C|AP1B1_uc003afk.2_Silent_p.C144C|AP1B1_uc003afl.2_Silent_p.C144C	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	144					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						GCTTGGCCACGCACACAGCTG	0.582													31	71					0	0	0.012213	0	0		A	29754808	A	A	29754808	2	1	160	1	0	0	0	0	0	0	0	1	731	1079	38	1		1	AP1B1	22	29754808	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2817274	29754808	21549758	1178	88448											
PISD	23761	broad.mit.edu	37	chr22	32015751	32015751	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcatggggacgccctctctAttggtgtgcgtcacgaagct	6	10	13	12	4	2	0	1	0	1	0	3	2	2	1	1	3	2	2	1	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:32015751A>G	uc003alm.3	-	8	1084	c.1077T>C	c.(1075-1077)AAT>AAC	p.N359N	PISD_uc003alk.2_Silent_p.N325N|PISD_uc003all.2_3'UTR|PISD_uc011alr.1_Silent_p.N324N|PISD_uc003aln.3_Silent_p.N321N	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	359					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	CGCCCTCTCTATTGGTGTGCG	0.592													3	58					0	0	0.004672	0	0		G	32015751	G	G	32015751	2	3	160	1	0	0	0	0	0	0	0	1	11965	446	16	3		3	PISD	22	32015751	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	2260943	32015751	19288815	1179	88449											
DEPDC5	9681	broad.mit.edu	37	chr22	32302472	32302472	+	Missense_Mutation	SNP	A	G	G	1	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	gcctggagaagatgcatgccAgtgccccgtgaggccaggct	8	6	15	12	1	0	3	0	1	0	2	0	4	0	3	5	3	3	2	5	3	1	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:32302472A>G	uc003als.2	+	42	4850	c.4708A>G	c.(4708-4710)AGT>GGT	p.S1570G	DEPDC5_uc011als.1_Missense_Mutation_p.S1501G|DEPDC5_uc011alu.1_Missense_Mutation_p.S1601G|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.S1592G|DEPDC5_uc003alu.2_Missense_Mutation_p.S1019G|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Missense_Mutation_p.S868G|DEPDC5_uc011alx.1_Missense_Mutation_p.S418G|DEPDC5_uc010gwk.2_3'UTR|DEPDC5_uc011aly.1_Missense_Mutation_p.S418G	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1570					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GATGCATGCCAGTGCCCCGTG	0.612													53	165					0	0	0.01441	0	0		G	32302472	G	G	32302472	3	3	160	1	0	0	0	0	1	0	0	0	4448	188	7	3	4958	3	DEPDC5	22	32302472	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	286721	32302472	19002094	1180	88450											
LARGE	9215	broad.mit.edu	37	chr22	33700243	33700243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcatagagcccatacatggGcaggaagtcaatgtcagaca	14	7	10	10	0	3	2	3	0	0	2	3	3	3	3	1	2	2	1	1	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:33700243G>A	uc003and.3	-	13	2281	c.1702C>T	c.(1702-1704)CCC>TCC	p.P568S	LARGE_uc011amd.1_Missense_Mutation_p.P367S|LARGE_uc003ane.3_Missense_Mutation_p.P568S|LARGE_uc010gwp.2_Missense_Mutation_p.P516S|LARGE_uc011ame.1_Missense_Mutation_p.P500S|LARGE_uc011amf.1_Missense_Mutation_p.P568S	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	568	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				CCATACATGGGCAGGAAGTCA	0.478													38	99					0	0	0.004289	0	0		A	33700243	A	A	33700243	3	1	160	1	0	0	0	0	1	0	0	0	8643	1203	42	2	584	2	LARGE	22	33700243	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1397771	33700243	17604323	1181	88451											
APOL3	80833	broad.mit.edu	37	chr22	36537420	36537420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catccagtgcaaggaagatgCctgaagtggtcgcactcagg	11	7	13	10	1	1	2	1	1	0	1	3	3	2	3	2	3	2	2	2	3	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:36537420C>T	uc003aot.2	-	3	1075	c.1037G>A	c.(1036-1038)GGC>GAC	p.G346D	APOL3_uc003aoq.2_Missense_Mutation_p.G275D|APOL3_uc003aor.2_Missense_Mutation_p.G275D|APOL3_uc003aos.2_Missense_Mutation_p.G275D|APOL3_uc003aou.2_Missense_Mutation_p.G146D|APOL3_uc003aov.2_Missense_Mutation_p.G146D	NM_145640	NP_663615	O95236	APOL3_HUMAN	apolipoprotein L3 isoform 1	346					inflammatory response|lipoprotein metabolic process|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|extracellular region	lipid binding|lipid transporter activity|signal transducer activity				0						AAGGAAGATGCCTGAAGTGGT	0.572													32	69					0	0	0.010818	0	0		T	36537420	T	T	36537420	3	4	160	1	0	0	0	0	1	0	0	0	807	739	26	2	175	2	APOL3	22	36537420	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2837177	36537420	14767146	1182	88452											
TRIOBP	11078	broad.mit.edu	37	chr22	38165162	38165162	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacgctgcgccgctgccagCaggagggccaggagctgctg	7	4	16	14	3	0	0	0	0	0	0	0	2	0	2	3	3	5	5	3	3	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:38165162C>T	uc003atr.2	+	20	6974	c.6703C>T	c.(6703-6705)CAG>TAG	p.Q2235*	TRIOBP_uc003atu.2_Nonsense_Mutation_p.Q2063*|TRIOBP_uc003atw.2_Nonsense_Mutation_p.Q522*|TRIOBP_uc003atx.1_Nonsense_Mutation_p.Q118*|TRIOBP_uc010gxh.2_Nonsense_Mutation_p.Q118*	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	2235	Potential.				actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CCGCTGCCAGCAGGAGGGCCA	0.701													4	16					0	0	0.00308	0	0		T	38165162	T	T	38165162	4	4	160	1	0	0	0	0	0	1	0	0	16579	711	25	2	7075	2	TRIOBP	22	38165162	Nonsense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1627742	38165162	13139404	1183	88453											
CSNK1E	1454	broad.mit.edu	37	chr22	38698968	38698968	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagctccatgaccatcacGttgtagtcgccctcagctcc	8	9	8	16	2	2	1	2	1	0	0	5	1	4	1	4	0	3	5	4	0	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:38698968G>A	uc003avj.2	-	4	495	c.234C>T	c.(232-234)AAC>AAT	p.N78N	CSNK1E_uc003avk.2_Silent_p.N78N|CSNK1E_uc003avl.1_RNA|CSNK1E_uc003avm.1_Silent_p.N78N|CSNK1E_uc003avo.2_Silent_p.N78N|CSNK1E_uc003avp.1_Silent_p.N78N|CSNK1E_uc003avq.1_Silent_p.N78N|LOC400927_uc010gxm.2_RNA	NM_152221	NP_689407	P49674	KC1E_HUMAN	casein kinase 1 epsilon	78	Protein kinase.				DNA repair|G2/M transition of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|signal transduction	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)	3	Melanoma(58;0.045)					TGACCATCACGTTGTAGTCGC	0.617													23	60					0	0	0.014323	0	0		A	38698968	A	A	38698968	2	1	160	1	0	0	0	0	0	0	0	1	3956	1136	40	1		1	CSNK1E	22	38698968	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	533806	38698968	12605598	1184	88454											
ENTHD1	150350	broad.mit.edu	37	chr22	40283547	40283547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taagggatttatacacgtggCgccagttcttcccatggtca	9	12	10	10	2	2	0	1	0	1	0	3	1	3	1	2	3	1	1	2	3	3	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:40283547C>T	uc003ayg.2	-	2	457	c.206G>A	c.(205-207)CGC>CAC	p.R69H		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	69	ENTH.									ovary(2)|skin(1)	3	Melanoma(58;0.0749)					ATACACGTGGCGCCAGTTCTT	0.403													9	331					0	0	0.006214	0	0		T	40283547	T	T	40283547	3	4	160	1	0	0	0	0	1	0	0	0	5145	768	27	1	1641	1	ENTHD1	22	40283547	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1584579	40283547	11021019	1185	88455											
MKL1	57591	broad.mit.edu	37	chr22	40814864	40814864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttgtctttctcctgcagCatctggtccttgtcgcgccc	2	15	9	15	2	3	0	0	0	3	0	6	0	4	0	3	1	3	3	3	1	0	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:40814864C>T	uc003ayv.1	-	9	1785	c.1578G>A	c.(1576-1578)ATG>ATA	p.M526I	MKL1_uc003ayw.1_Missense_Mutation_p.M526I|MKL1_uc010gye.1_Missense_Mutation_p.M526I|MKL1_uc010gyf.1_Missense_Mutation_p.M476I	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	526	Potential.				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TCTCCTGCAGCATCTGGTCCT	0.672			T	RBM15	acute megakaryocytic leukemia								17	33					0	0	0.010504	0	0		T	40814864	T	T	40814864	3	4	160	1	0	0	0	0	1	0	0	0	9619	710	25	2	1233	2	MKL1	22	40814864	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	531317	40814864	10489702	1186	88456											
RRP7A	27341	broad.mit.edu	37	chr22	42908940	42908940	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tacggtcggaatttgcgctgGgcccgcagcagctcgatcct	6	9	13	13	5	0	0	0	0	0	0	3	2	1	1	2	3	4	4	2	3	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:42908940G>A	uc003bcq.2	-	7	835	c.819C>T	c.(817-819)GCC>GCT	p.A273A	SERHL_uc011apm.1_Intron|RRP7A_uc003bcp.2_Silent_p.A296A	NM_015703	NP_056518	Q9Y3A4	RRP7A_HUMAN	ribosomal RNA processing 7 homolog A	273							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2						ATTTGCGCTGGGCCCGCAGCA	0.657													7	47					0	0	0.004482	0	0		A	42908940	A	A	42908940	2	1	160	1	0	0	0	0	0	0	0	1	13714	1219	43	4		4	RRP7A	22	42908940	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2094076	42908940	8395626	1187	88457											
PACSIN2	11252	broad.mit.edu	37	chr22	43273001	43273001	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagactgggcggggttgctCgggacattaagggtgctatg	7	9	18	7	2	0	1	0	0	0	1	1	2	0	2	0	5	2	4	0	5	2	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:43273001C>T	uc010gzg.2	-	9	1266	c.1044G>A	c.(1042-1044)CCG>CCA	p.P348P	PACSIN2_uc003bdg.3_Silent_p.P348P|PACSIN2_uc003bde.3_Silent_p.P348P|PACSIN2_uc003bdf.3_Intron	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	348					actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				CGGGGTTGCTCGGGACATTAA	0.602													4	171					0	0	0.009096	0	0		T	43273001	T	T	43273001	2	4	160	1	0	0	0	0	0	0	0	1	11394	871	31	1		1	PACSIN2	22	43273001	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	364061	43273001	8031565	1188	88458											
EFCAB6	64800	broad.mit.edu	37	chr22	43926756	43926756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcatagcttttgaacgtgCgccgcattggcctccagcag	8	10	10	13	3	1	1	1	1	0	0	2	1	2	1	3	1	4	3	3	1	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:43926756C>T	uc003bdy.1	-	31	4537	c.4322G>A	c.(4321-4323)CGC>CAC	p.R1441H	EFCAB6_uc003bdz.1_Missense_Mutation_p.R1289H|EFCAB6_uc010gzi.1_Missense_Mutation_p.R1289H	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1441	Interaction with AR.|EF-hand 16.|Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TTTGAACGTGCGCCGCATTGG	0.562													29	81					0	0	0.010818	0	0		T	43926756	T	T	43926756	3	4	160	1	0	0	0	0	1	0	0	0	4945	768	27	1	191	1	EFCAB6	22	43926756	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	653755	43926756	7377810	1189	88459											
FAM118A	55007	broad.mit.edu	37	chr22	45719228	45719228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgctgcaccccggagacGtcgccgagttccggaggaaa	9	5	15	12	5	0	1	0	0	0	1	2	5	1	3	4	4	2	3	4	4	1	1	rs34197967		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:45719228G>A	uc003bfz.3	+	4	836	c.220G>A	c.(220-222)GTC>ATC	p.V74I	FAM118A_uc003bga.3_Missense_Mutation_p.V74I	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	74						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		CCCCGGAGACGTCGCCGAGTT	0.602													28	72					0	0	0.008361	0	0		A	45719228	A	A	45719228	3	1	160	1	0	0	0	0	1	0	0	0	5422	1145	40	1	226	1	FAM118A	22	45719228	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1792472	45719228	5585338	1190	88460											
WNT7B	7477	broad.mit.edu	37	chr22	46318884	46318884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatggtgtcacagccgtccGcgccgggcgacgtgcggttg	5	7	16	13	7	1	0	1	0	0	0	2	1	2	0	3	3	2	1	3	3	0	1	rs61735041		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:46318884G>A	uc003bgo.2	-	4	1276	c.902C>T	c.(901-903)GCG>GTG	p.A301V	WNT7B_uc010haa.2_Missense_Mutation_p.A305V	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	301					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		ACAGCCGTCCGCGCCGGGCGA	0.642													22	62					0	0	0.00333	0	0		A	46318884	A	A	46318884	3	1	160	1	0	0	0	0	1	0	0	0	17421	1087	38	1	151	1	WNT7B	22	46318884	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	599656	46318884	4985682	1191	88461											
GTSE1	51512	broad.mit.edu	37	chr22	46725365	46725365	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgcgataccccagaagcacaCgtggctgtaggatctgaaag	12	7	12	10	2	1	2	0	1	1	1	1	4	1	3	2	2	3	3	2	2	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:46725365C>T	uc011aqy.1	+	11	2249	c.2037C>T	c.(2035-2037)CAC>CAT	p.H679H	GTSE1_uc011aqz.1_Silent_p.H526H|GTSE1_uc003bhn.2_RNA|uc011ara.1_5'Flank|uc003bho.3_5'Flank	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	660					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		CAGAAGCACACGTGGCTGTAG	0.522													8	244					0	0	0.004482	0	0		T	46725365	T	T	46725365	2	4	160	1	0	0	0	0	0	0	0	1	6901	535	19	1		1	GTSE1	22	46725365	Silent	SNP	C	TCGA-CG-5733-01A-11D-1600-08	406481	46725365	4579201	1192	88462											
PANX2	56666	broad.mit.edu	37	chr22	50609382	50609382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtcttcaccaagaacttcGcaggtgaggccggcggccgg	7	7	15	12	4	2	2	1	1	1	1	3	2	2	2	3	6	1	1	3	6	2	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:50609382G>A	uc003bjn.3	+	1	223	c.223G>A	c.(223-225)GCA>ACA	p.A75T	PANX2_uc003bjp.3_5'UTR|PANX2_uc003bjo.3_Missense_Mutation_p.A75T	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	75	Extracellular (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		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)		CAAGAACTTCGCAGGTGAggc	0.582													3	4					0	0	0.004672	0	0		A	50609382	A	A	50609382	3	1	160	1	0	0	0	0	1	0	0	0	11440	1087	38	1	225	1	PANX2	22	50609382	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3884017	50609382	695184	1193	88463											
ARSA	410	broad.mit.edu	37	chr22	51065135	51065135	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagtccccaaatggcccGcggcctgaacgctctgcaaa	10	5	12	14	3	1	1	0	1	1	0	2	2	2	2	4	3	2	2	4	3	3	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chr22:51065135G>A	uc003bnb.3	-	5	985	c.732C>T	c.(730-732)CGC>CGT	p.R244R	ARSA_uc003bna.3_Silent_p.R160R|ARSA_uc003bnc.3_Silent_p.R244R|ARSA_uc003bnd.3_Silent_p.R244R|ARSA_uc003bmz.3_Silent_p.R244R|ARSA_uc010hbf.2_3'UTR	NM_001085426	NP_001078895	P15289	ARSA_HUMAN	arylsulfatase A isoform a precursor	244			R -> C (in MLD; juvenile-onset).|R -> H (in MLD; infantile-onset).			lysosome	arylsulfatase activity|calcium ion binding|cerebroside-sulfatase activity			pancreas(1)|skin(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Micafungin(DB01141)	CAAATGGCCCGCGGCCTGAAC	0.617													21	47					0	0	0.010504	0	0		A	51065135	A	A	51065135	2	1	160	1	0	0	0	0	0	0	0	1	988	1074	38	1		1	ARSA	22	51065135	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	455753	51065135	239431	1194	88464											
P2RY8	286530	broad.mit.edu	37	chrX	1585333	1585333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccacagagagaagaggttgCccgggatgctgaccgccgcc	9	4	14	14	3	0	4	0	1	0	3	0	6	0	5	5	2	2	2	5	2	1	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:1585333C>T	uc004cpz.2	-	2	367	c.119G>A	c.(118-120)GGC>GAC	p.G40D		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	40	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		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)				GAAGAGGTTGCCCGGGATGCT	0.677			T	CRLF2	B-ALL|Downs associated ALL								4	8					0	0	0.000602	0	0		T	1585333	T	T	1585333	3	4	160	1	0	0	0	0	1	0	0	0	11374	739	26	2	964	2	P2RY8	23	1585333	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08		1585333	153685227	1195	88465											
MXRA5	25878	broad.mit.edu	37	chrX	3241263	3241263	+	Frame_Shift_Del	DEL	A	-	-																															gaggggggagaaatagcaggAaaaggtggtgtgacttctag																								rs138847281		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:3241263delA	uc004crg.3	-	5	2620	c.2463delT	c.(2461-2463)TTTfs	p.F821fs		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	821						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AAATAGCAGGAAAAGGTGGTG	0.483													72	133	---	---	---	---						.	-	3241263	-	-	3241263	7	5	160	1	0	1	0	1	0	0	0	0	10021	243	9	0	6035	0	MXRA5	23	3241263	Frame_Shift_Del	DEL	A	TCGA-CG-5733-01A-11D-1600-08	1655930	3241263	152029297	1196	88466											
MXRA5	25878	broad.mit.edu	37	chrX	3241477	3241477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtctctggttctttttccGaatgcttccagagtttcagc	5	17	9	10	1	3	1	1	0	2	1	6	2	5	1	2	2	2	3	2	2	1	5	rs144303250	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:3241477G>A	uc004crg.3	-	5	2406	c.2249C>T	c.(2248-2250)TCG>TTG	p.S750L		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	750						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TTCTTTTTCCGAATGCTTCCA	0.448													72	79					0	0	0.01441	0	0		A	3241477	A	A	3241477	3	1	160	1	0	0	0	0	1	0	0	0	10021	1059	37	1	6249	1	MXRA5	23	3241477	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	214	3241477	152029083	1197	88467											
KLHL34	257240	broad.mit.edu	37	chrX	21675213	21675213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagtacacgcgccgcagtaCgtcggcgggaaccaggccaa	10	3	14	14	7	0	0	0	0	0	0	1	2	0	1	3	3	3	3	3	3	4	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:21675213C>T	uc004czz.1	-	1	1236	c.694G>A	c.(694-696)GTA>ATA	p.V232I		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	232	BACK.									ovary(1)	1						CGCCGCAGTACGTCGGCGGGA	0.667													5	11					0	0	0.00308	0	0		T	21675213	T	T	21675213	3	4	160	1	0	0	0	0	1	0	0	0	8403	536	19	1	1244	1	KLHL34	23	21675213	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	18433736	21675213	133595347	1198	88468											
TMEM47	83604	broad.mit.edu	37	chrX	34648479	34648479	+	Frame_Shift_Del	DEL	C	-	-																															tcaggcaataaaggatggcaCccccaaacgaaaatatagtt																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:34648479delC	uc004ddh.2	-	3	756	c.497delG	c.(496-498)GGTfs	p.G166fs	TMEM47_uc010ngs.2_RNA	NM_031442	NP_113630	Q9BQJ4	TMM47_HUMAN	transmembrane protein 47	166	Helical; (Potential).					integral to membrane				lung(1)	1						AAGGATGGCACCCCCAAACGA	0.413													43	70	---	---	---	---						.	-	34648479	-	-	34648479	7	5	160	1	0	1	0	1	0	0	0	0	16196	507	18	0	52	0	TMEM47	23	34648479	Frame_Shift_Del	DEL	C	TCGA-CG-5733-01A-11D-1600-08	12973266	34648479	120622081	1199	88469											
FAM47C	442444	broad.mit.edu	37	chrX	37026509	37026509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaccagaggccgcaggaccGgcccagttccccgggcatgg	7	3	16	15	3	0	1	0	0	0	1	1	3	1	3	6	6	0	3	6	6	0	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:37026509G>A	uc004ddl.1	+	1	40	c.26G>A	c.(25-27)CGG>CAG	p.R9Q		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	9										ovary(3)	3						CCGCAGGACCGGCCCAGTTCC	0.657													6	16					0	0	0.001168	0	0		A	37026509	A	A	37026509	3	1	160	1	0	0	0	0	1	0	0	0	5585	1116	39	1	28	1	FAM47C	23	37026509	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	2378030	37026509	118244051	1200	88470											
FAM47C	442444	broad.mit.edu	37	chrX	37027955	37027955	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatctccgcccagagcctcCcgacactggagtgtcccatc	7	8	8	18	2	2	1	1	0	1	1	6	3	4	2	5	1	1	0	5	1	0	0			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:37027955C>A	uc004ddl.1	+	1	1486	c.1472C>A	c.(1471-1473)CCC>CAC	p.P491H		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	491										ovary(3)	3						CCAGAGCCTCCCGACACTGGA	0.627													40	43					1.04594e-18	1.15242e-18	0.00623	1	0		A	37027955	A	A	37027955	3	1	160	1	0	0	0	0	1	0	0	0	5585	623	22	5	1474	5	FAM47C	23	37027955	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1446	37027955	118242605	1201	88471											
CYBB	1536	broad.mit.edu	37	chrX	37663304	37663304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagtatccatatccgcatcGttggggactggacagagggg	9	10	14	8	2	0	1	0	0	0	1	3	3	2	3	2	5	0	3	2	5	3	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:37663304G>A	uc004ddr.2	+	9	1133	c.1072G>A	c.(1072-1074)GTT>ATT	p.V358I	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.V326I|CYBB_uc011mkg.1_Missense_Mutation_p.V91I	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	358	Cytoplasmic (Potential).|FAD-binding FR-type.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						TATCCGCATCGTTGGGGACTG	0.468													42	32					0	0	0.01441	0	0		A	37663304	A	A	37663304	3	1	160	1	0	0	0	0	1	0	0	0	4136	1145	40	1	1106	1	CYBB	23	37663304	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	635349	37663304	117607256	1202	88472											
SRPX	8406	broad.mit.edu	37	chrX	38019423	38019423	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttcatgtaaccattctctgGggcattgagtttgccacagc	8	13	9	11	0	2	1	1	1	1	0	3	1	2	1	2	2	3	3	2	2	1	5			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:38019423G>T	uc004ddy.1	-	7	888	c.802C>A	c.(802-804)CCA>ACA	p.P268T	SRPX_uc004ddz.1_Missense_Mutation_p.P248T|SRPX_uc011mkh.1_Missense_Mutation_p.P209T|SRPX_uc011mki.1_Missense_Mutation_p.P268T	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	268	Sushi 3.				cell adhesion	cell surface|membrane					0						CCATTCTCTGGGGCATTGAGT	0.542													22	43					4.54149e-19	5.01166e-19	0.014323	1	0		T	38019423	T	T	38019423	3	4	160	1	0	0	0	0	1	0	0	0	15189	1232	43	5	608	5	SRPX	23	38019423	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	356119	38019423	117251137	1203	88473											
HEPH	9843	broad.mit.edu	37	chrX	65392355	65392355	+	Missense_Mutation	SNP	A	G	G	1	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	gttgcaggctgaagtgggggAtgtcattcttattcacctga	8	13	13	7	0	3	2	2	2	1	0	3	3	3	3	1	3	1	3	1	3	2	4			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:65392355A>G	uc011moz.1	+	3	395	c.335A>G	c.(334-336)GAT>GGT	p.D112G	HEPH_uc004dwn.2_Missense_Mutation_p.D112G|HEPH_uc004dwo.2_5'UTR|HEPH_uc010nkr.2_Missense_Mutation_p.D112G|HEPH_uc011mpa.1_Missense_Mutation_p.D112G	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	109	Extracellular (Potential).|Plastocyanin-like 1.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						GAAGTGGGGGATGTCATTCTT	0.493													36	47					0	0	0.004289	0	0		G	65392355	G	G	65392355	3	3	160	1	0	0	0	0	1	0	0	0	7070	333	12	3	498	3	HEPH	23	65392355	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	27372932	65392355	89878205	1204	88474											
AR	367	broad.mit.edu	37	chrX	66765796	66765796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggggggattgcatgtacGccccacttttgggagttcca	6	12	13	10	2	0	0	0	0	0	0	2	2	1	2	3	4	2	3	3	4	1	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:66765796G>A	uc004dwu.1	+	1	1923	c.808G>A	c.(808-810)GCC>ACC	p.A270T	AR_uc011mpd.1_Missense_Mutation_p.A270T|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.A270T	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	268	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	TTGCATGTACGCCCCACTTTT	0.597									Androgen_Insensitivity_Syndrome				29	60					0	0	0.012213	0	0		A	66765796	A	A	66765796	3	1	160	1	0	0	0	0	1	0	0	0	836	1087	38	1	810	1	AR	23	66765796	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1373441	66765796	88504764	1205	88475											
FOXO4	4303	broad.mit.edu	37	chrX	70321277	70321277	+	Frame_Shift_Del	DEL	G	-	-																															gctccgactcttctgttgctGggggggcttccttcctccag																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:70321277delG	uc004dys.1	+	2	1550	c.1197delG	c.(1195-1197)CTGfs	p.L399fs	FOXO4_uc010nkz.2_Intron|FOXO4_uc004dyt.1_Frame_Shift_Del_p.L344fs	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	399					cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					TTCTGTTGCTGGGGGGGCTTC	0.632													24	44	---	---	---	---						.	-	70321277	-	-	70321277	7	5	160	1	0	1	0	1	0	0	0	0	6039	1335	47	0	1203	0	FOXO4	23	70321277	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	3555481	70321277	84949283	1206	88476											
P2RY10	27334	broad.mit.edu	37	chrX	78216864	78216864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtcccgttgtccgaatcGcactgtatttccaccctttt	5	16	7	13	3	0	0	0	0	0	0	4	1	3	0	4	0	0	4	4	0	2	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:78216864G>A	uc004ede.2	+	4	1216	c.847G>A	c.(847-849)GCA>ACA	p.A283T	P2RY10_uc004edf.2_Missense_Mutation_p.A283T	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	283	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TGTCCGAATCGCACTGTATTT	0.413													8	346					0	0	0.004482	0	0		A	78216864	A	A	78216864	3	1	160	1	0	0	0	0	1	0	0	0	11366	1087	38	1	849	1	P2RY10	23	78216864	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	7895587	78216864	77053696	1207	88477											
CYLC1	1538	broad.mit.edu	37	chrX	83126520	83126520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctttgacatttcccaaacCactccagagaggtacaaatg	13	10	7	11	0	0	2	0	1	0	1	2	3	2	2	3	1	3	2	3	1	3	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:83126520C>T	uc004eei.1	+	3	140	c.119C>T	c.(118-120)CCA>CTA	p.P40L	CYLC1_uc004eeh.1_Missense_Mutation_p.P39L	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	40					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TTTCCCAAACCACTCCAGAGA	0.303													33	50					0	0	0.012213	0	0		T	83126520	T	T	83126520	3	4	160	1	0	0	0	0	1	0	0	0	4144	594	21	4	129	4	CYLC1	23	83126520	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	4909656	83126520	72144040	1208	88478											
POF1B	79983	broad.mit.edu	37	chrX	84559359	84559359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccttttatacctctgactgaCgctttatgagggaatccttc	8	15	7	11	1	1	3	0	3	1	0	3	4	2	4	3	1	1	1	3	1	4	6			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:84559359C>T	uc004eer.2	-	14	1702	c.1556G>A	c.(1555-1557)CGT>CAT	p.R519H	POF1B_uc004ees.2_Missense_Mutation_p.R519H	NM_024921	NP_079197	Q8WVV4	POF1B_HUMAN	premature ovarian failure, 1B	519							actin binding				0						CTCTGACTGACGCTTTATGAG	0.398													4	154					0	0	0.009096	0	0		T	84559359	T	T	84559359	3	4	160	1	0	0	0	0	1	0	0	0	12201	536	19	1	229	1	POF1B	23	84559359	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	1432839	84559359	70711201	1209	88479											
DRP2	1821	broad.mit.edu	37	chrX	100505520	100505520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcagctgggtgaagtggcagCctttgggggcagcaatgtgg	7	9	18	7	0	1	1	1	1	0	0	1	1	1	1	1	5	3	4	1	5	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:100505520C>T	uc004egz.2	+	15	2018	c.1649C>T	c.(1648-1650)GCC>GTC	p.A550V	DRP2_uc011mrh.1_Missense_Mutation_p.A472V	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	550					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						GAAGTGGCAGCCTTTGGGGGC	0.483													13	81					0	0	0.00245	0	0		T	100505520	T	T	100505520	3	4	160	1	0	0	0	0	1	0	0	0	4770	739	26	2	1699	2	DRP2	23	100505520	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	15946161	100505520	54765040	1210	88480											
GPRASP1	9737	broad.mit.edu	37	chrX	101912901	101912901	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acaatatcaaaaaagaaacaGtgttctctgatgatgatttc	17	12	6	6	0	2	4	1	3	1	1	4	4	2	4	0	0	1	1	0	0	6	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:101912901G>A	uc004ejj.3	+	5	4861	c.4060G>A	c.(4060-4062)GTG>ATG	p.V1354M	GPRASP1_uc004eji.3_Missense_Mutation_p.V1354M|GPRASP1_uc010nod.2_Missense_Mutation_p.V1354M	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	1354	OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						AAAAGAAACAGTGTTCTCTGA	0.328													38	62					0	0	0.004289	0	0		A	101912901	A	A	101912901	3	1	160	1	0	0	0	0	1	0	0	0	6738	1029	36	4	4062	4	GPRASP1	23	101912901	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	1407381	101912901	53357659	1211	88481											
RNF128	79589	broad.mit.edu	37	chrX	105937331	105937332	+	Frame_Shift_Del	DEL	TG	-	-																															tcaatgagtgcctatgtgacTgtgacttattacaatgaaac																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:105937331_105937332delTG	uc004emk.2	+	1	264_265	c.99_100delTG	c.(97-102)ACTGTGfs	p.T33fs		NM_024539	NP_078815	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment_49						endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCTATGTGACTGTGACTTATTA	0.381													68	98	---	---	---	---						.	-	105937332	-	-	105937331	7	5	160	1	0	1	0	1	0	0	0	0	13461	1567	55	0	101	0	RNF128	23	105937331	Frame_Shift_Del	DEL	TG	TCGA-CG-5733-01A-11D-1600-08	4024430	105937331	49333229	1212	88482											
IRS4	8471	broad.mit.edu	37	chrX	107978396	107978396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgaagcgcctggtgaaaagCatctcgtcttccccgtcgcc	8	8	10	15	5	2	1	0	1	2	0	5	2	3	1	4	1	2	1	4	1	3	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:107978396C>T	uc004eoc.2	-	1	1212	c.1179G>A	c.(1177-1179)ATG>ATA	p.M393I		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	393						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						TGGTGAAAAGCATCTCGTCTT	0.642													35	51					0	0	0.004878	0	0		T	107978396	T	T	107978396	3	4	160	1	0	0	0	0	1	0	0	0	7858	710	25	2	2598	2	IRS4	23	107978396	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	2041065	107978396	47292164	1213	88483											
RHOXF2B	727940	broad.mit.edu	37	chrX	119293217	119293217	+	Frame_Shift_Del	DEL	G	-	-																															cgcgcccacagggcgccgtcGgggggctggagcctggcaac																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:119293217delG	uc004esl.3	+	2	566	c.376delG	c.(376-378)GGGfs	p.G126fs		NM_001099685	NP_001093155	P0C7M4	RHF2B_HUMAN	Rhox homeobox family, member 2B	126						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGCGCCGTCGGGGGGCTGGA	0.662													8	8	---	---	---	---						.	-	119293217	-	-	119293217	7	5	160	1	0	1	0	1	0	0	0	0	13374	1116	39	0	1265	0	RHOXF2B	23	119293217	Frame_Shift_Del	DEL	G	TCGA-CG-5733-01A-11D-1600-08	11314821	119293217	35977343	1214	88484											
FRMD7	90167	broad.mit.edu	37	chrX	131212732	131212733	+	Frame_Shift_Ins	INS	-	A	A																															gcttagagaactcctctctgINSaaaaaatgtctctgggatca																										TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:131212732_131212733insA	uc004ewn.2	-	12	1490_1491	c.1312_1313insT	c.(1312-1314)TCAfs	p.S438fs	FRMD7_uc011muy.1_Frame_Shift_Ins_p.S423fs	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	438					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					ACTCCTCTCTGAAAAAATGTCT	0.436													170	248	---	---	---	---						.	A	131212733	A	A	131212732	7	5	160	1	0	1	1	0	0	0	0	0	6069	1294	45	0	835	0	FRMD7	23	131212732	Frame_Shift_Ins	INS	-	TCGA-CG-5733-01A-11D-1600-08	11919515	131212732	24057828	1215	88485											
VGLL1	51442	broad.mit.edu	37	chrX	135630855	135630855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcaacttgcatgtgcctGgtcccatggctgtgaatcag	8	11	11	11	0	1	1	1	1	0	0	2	1	2	1	2	2	4	3	2	2	2	1			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:135630855G>A	uc004ezy.2	+	3	492	c.322G>A	c.(322-324)GGT>AGT	p.G108S	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					GCATGTGCCTGGTCCCATGGC	0.582													140	196					0	0	0.01441	0	0		A	135630855	A	A	135630855	3	1	160	1	0	0	0	0	1	0	0	0	17184	1348	47	4	328	4	VGLL1	23	135630855	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	4418123	135630855	19639705	1216	88486											
ATP11C	286410	broad.mit.edu	37	chrX	138856898	138856898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatgcagcaatttcttgcGatattctatcaataattcat	12	16	4	9	1	5	0	3	0	2	0	5	1	5	0	0	0	3	2	0	0	5	7			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:138856898G>A	uc004faz.2	-	19	2275	c.2176C>T	c.(2176-2178)CGC>TGC	p.R726C	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.R726C	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	726	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					AATTTCTTGCGATATTCTATC	0.323													52	93					0	0	0.01441	0	0		A	138856898	A	A	138856898	3	1	160	1	0	0	0	0	1	0	0	0	1122	1058	37	1	1333	1	ATP11C	23	138856898	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3226043	138856898	16413662	1217	88487											
MAGEA8	4107	broad.mit.edu	37	chrX	149013706	149013706	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggagggcagccgcgccccGgaggaggcaatctgggaagc	9	3	18	11	3	1	0	0	0	1	0	1	4	1	4	3	6	2	2	3	6	2	0	rs45518135		TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:149013706G>A	uc004fdw.1	+	3	875	c.660G>A	c.(658-660)CCG>CCA	p.P220P		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	220	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GCCGCGCCCCGGAGGAGGCAA	0.572													27	44					0	0	0.00632	0	0		A	149013706	A	A	149013706	2	1	160	1	0	0	0	0	0	0	0	1	9189	1103	39	1		1	MAGEA8	23	149013706	Silent	SNP	G	TCGA-CG-5733-01A-11D-1600-08	10156808	149013706	6256854	1218	88488											
ZNF185	7739	broad.mit.edu	37	chrX	152134007	152134007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcaaagggattctcttcGtgaaggagtacgtgaatgct	12	10	12	7	2	1	2	0	2	1	0	3	4	1	4	0	2	3	3	0	2	4	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:152134007G>A	uc010ntv.1	+	19	1769	c.1732G>A	c.(1732-1734)GTG>ATG	p.V578M	ZNF185_uc011myg.1_Missense_Mutation_p.V610M|ZNF185_uc011myh.1_Missense_Mutation_p.V581M|ZNF185_uc011myi.1_Missense_Mutation_p.V549M|ZNF185_uc011myj.1_Missense_Mutation_p.V519M|ZNF185_uc011myk.1_Missense_Mutation_p.V579M|ZNF185_uc004fgw.3_Missense_Mutation_p.V357M|ZNF185_uc004fgu.2_Missense_Mutation_p.V207M|ZNF185_uc004fgv.2_Missense_Mutation_p.V275M|ZNF185_uc004fgx.2_Missense_Mutation_p.V216M	NM_007150	NP_009081	O15231	ZN185_HUMAN	zinc finger protein 185	578						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GATTCTCTTCGTGAAGGAGTA	0.522													4	1					0	0	0.000602	0	0		A	152134007	A	A	152134007	3	1	160	1	0	0	0	0	1	0	0	0	17777	1145	40	1	2050	1	ZNF185	23	152134007	Missense_Mutation	SNP	G	TCGA-CG-5733-01A-11D-1600-08	3120301	152134007	3136553	1219	88489											
MAGEA1	4100	broad.mit.edu	37	chrX	152482678	152482678	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatatttgaggagcagaaaAccaaccaaatcagccacctt	16	7	7	11	1	1	2	1	1	0	1	1	4	1	3	4	1	4	1	4	1	5	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:152482678A>C	uc004fhf.2	-	3	553	c.333T>G	c.(331-333)GGT>GGG	p.G111G		NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	111	MAGE.					cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGAGCAGAAAACCAACCAAAT	0.493													80	122					0	0	0.01441	0	0		C	152482678	C	C	152482678	2	2	160	1	0	0	0	0	0	0	0	1	9181	30	2	5		5	MAGEA1	23	152482678	Silent	SNP	A	TCGA-CG-5733-01A-11D-1600-08	348671	152482678	2787882	1220	88490											
PDZD4	57595	broad.mit.edu	37	chrX	153069625	153069625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccggttcaagttggagttgCcggccatggcccgccgcagg	5	8	15	13	4	1	0	1	0	0	0	2	1	2	1	5	5	1	4	5	5	1	3			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:153069625C>T	uc004fiz.1	-	8	1743	c.1493G>A	c.(1492-1494)GGC>GAC	p.G498D	PDZD4_uc004fiy.1_Missense_Mutation_p.G423D|PDZD4_uc004fix.2_Missense_Mutation_p.G402D|PDZD4_uc004fja.1_Missense_Mutation_p.G504D|PDZD4_uc011mze.1_Missense_Mutation_p.G389D	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	498						cell cortex				breast(1)	1	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)					GTTGGAGTTGCCGGCCATGGC	0.716													6	5					0	0	0.001168	0	0		T	153069625	T	T	153069625	3	4	160	1	0	0	0	0	1	0	0	0	11722	739	26	2	820	2	PDZD4	23	153069625	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	586947	153069625	2200935	1221	88491											
OPN1LW	5956	broad.mit.edu	37	chrX	153421950	153421950	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggctgccctgccggcctActttgccaaaagtgccacta	8	9	10	14	1	0	0	0	0	0	0	0	1	0	0	5	2	5	1	5	2	4	3	rs145631912	byFrequency	TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:153421950A>T	uc004fjz.3	+	5	959	c.926A>T	c.(925-927)TAC>TTC	p.Y309F		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	309	Helical; Name=7; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CTGCCGGCCTACTTTGCCAAA	0.537													17	248					0	0	0.008871	0	0		T	153421950	T	T	153421950	3	4	160	1	0	0	0	0	1	0	0	0	10896	391	14	5	944	5	OPN1LW	23	153421950	Missense_Mutation	SNP	A	TCGA-CG-5733-01A-11D-1600-08	352325	153421950	1848610	1222	88492											
GAB3	139716	broad.mit.edu	37	chrX	153944504	153944504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcgctgaggtctatcaccCggatgggcttgctggagtgc	6	10	14	11	2	2	1	1	1	1	0	3	3	2	3	1	4	2	3	1	4	1	2			TCGA-CG-5733-01A-11D-1600-08	TCGA-CG-5733-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	76014e30-76ae-45ca-8755-e51d80d6dc83	616936ac-232f-471b-ba28-d7efdde4ce51	g.chrX:153944504C>T	uc004fmj.1	-	2	221	c.173G>A	c.(172-174)CGG>CAG	p.R58Q	GAB3_uc004fmk.1_Missense_Mutation_p.R58Q|GAB3_uc010nve.1_Missense_Mutation_p.R58Q|GAB3_uc004fml.1_5'UTR	NM_080612	NP_542179	Q8WWW8	GAB3_HUMAN	Gab3 protein isoform 2	58	PH.									ovary(1)	1	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)					GTCTATCACCCGGATGGGCTT	0.552													70	100					0	0	0.01441	0	0		T	153944504	T	T	153944504	3	4	160	1	0	0	0	0	1	0	0	0	6164	652	23	1	1626	1	GAB3	23	153944504	Missense_Mutation	SNP	C	TCGA-CG-5733-01A-11D-1600-08	522554	153944504	1326056	1223	88493											
PIK3CD	5293	broad.mit.edu	37	chr1	9770626	9770626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgaacttccctgtgtcccGcaatgccaacctcagcacca	9	8	6	18	1	1	1	1	1	0	0	3	1	3	1	6	0	4	2	6	0	3	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:9770626G>A	uc001aqb.3	+	3	321	c.113G>A	c.(112-114)CGC>CAC	p.R38H	PIK3CD_uc001aqa.2_Missense_Mutation_p.R38H|PIK3CD_uc010oaf.1_Missense_Mutation_p.R38H|PIK3CD_uc001aqe.3_Missense_Mutation_p.R38H	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	38					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	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)		CCTGTGTCCCGCAATGCCAAC	0.468													22	172					0	0	0.012319	0	0		A	9770626	A	A	9770626	3	1	161	1	0	0	0	0	1	0	0	0	11934	1087	38	1	115	1	PIK3CD	1	9770626	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08		9770626	239479995	1	88494											
PRAMEF6	440561	broad.mit.edu	37	chr1	13001329	13001329	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcacccacgggccatagcTtcagaccaaaccatccagaa	15	4	7	15	1	1	2	1	0	0	2	2	2	2	2	5	1	3	2	5	1	4	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:13001329T>G	uc001auq.2	-	3	440	c.354A>C	c.(352-354)GAA>GAC	p.E118D	PRAMEF5_uc001aur.2_Intron	NM_001010889	NP_001010889	Q5VXH4	PRAM6_HUMAN	PRAME family member 6	118											0	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)		GGGCCATAGCTTCAGACCAAA	0.493													12	451					0	0	0.012213	0	0		G	13001329	G	G	13001329	3	3	161	1	0	0	0	0	1	0	0	0	12460	1606	56	5	1084	5	PRAMEF6	1	13001329	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	3230703	13001329	236249292	2	88495											
HP1BP3	50809	broad.mit.edu	37	chr1	21076258	21076258	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggtgattctctaggacatActtcttcagagcagtggtag	9	13	12	7	0	3	2	1	1	2	1	4	3	3	3	0	3	2	2	0	3	3	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:21076258A>G	uc001bdw.1	-	10	1239	c.1099T>C	c.(1099-1101)TAT>CAT	p.Y367H	HP1BP3_uc001bdv.1_Missense_Mutation_p.Y329H|HP1BP3_uc010odh.1_Missense_Mutation_p.Y329H|HP1BP3_uc001bdy.1_Missense_Mutation_p.Y367H|HP1BP3_uc010odf.1_Missense_Mutation_p.Y26H|HP1BP3_uc010odg.1_Missense_Mutation_p.Y215H	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	367	H15 3.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		TCTAGGACATACTTCTTCAGA	0.428													24	192					0	0	0.00333	0	0		G	21076258	G	G	21076258	3	3	161	1	0	0	0	0	1	0	0	0	7344	391	14	3	578	3	HP1BP3	1	21076258	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	8074929	21076258	228174363	3	88496											
ZDHHC18	84243	broad.mit.edu	37	chr1	27159097	27159097	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgccctggagaaacagatCggtgaggtttctactcccag	9	8	12	12	2	1	3	0	1	1	2	3	4	2	3	3	3	2	1	3	3	2	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:27159097C>T	uc001bnb.2	+	2	590	c.495C>T	c.(493-495)ATC>ATT	p.I165I	ZDHHC18_uc010ofh.1_Silent_p.I30I	NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18	165						integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|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)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		AGAAACAGATCGGTGAGGTTT	0.532													4	67					0	0	0.001168	0	0		T	27159097	T	T	27159097	2	4	161	1	0	0	0	0	0	0	0	1	17633	898	31	1		1	ZDHHC18	1	27159097	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	6082839	27159097	222091524	4	88497											
GJA8	2703	broad.mit.edu	37	chr1	147381081	147381081	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggggcacaagaagtggagggCgaggggccgcctgcagagga	10	2	21	8	2	0	2	0	0	0	2	0	5	0	4	2	7	1	2	2	7	2	0			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:147381081C>T	uc001epu.1	+	2	1062	c.999C>T	c.(997-999)GGC>GGT	p.G333G		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	333	Cytoplasmic (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					AAGTGGAGGGCGAGGGGCCGC	0.647													6	9					0	0	0.001168	0	0		T	147381081	T	T	147381081	2	4	161	1	0	0	0	0	0	0	0	1	6420	755	27	1		1	GJA8	1	147381081	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	120221984	147381081	101869540	5	88498											
FLG	2312	broad.mit.edu	37	chr1	152285654	152285654	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ttgttcctcatttcgtgtttGtctgcttgcacttctggatc	3	20	8	10	1	3	0	1	0	2	0	6	1	4	1	1	1	2	4	1	1	0	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:152285654G>T	uc001ezu.1	-	3	1744	c.1708C>A	c.(1708-1710)CAA>AAA	p.Q570K	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	570	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTCGTGTTTGTCTGCTTGCA	0.537									Ichthyosis				184	741					1.30536e-88	1.48921e-88	0.01441	1	0		T	152285654	T	T	152285654	3	4	161	1	0	0	0	0	1	0	0	0	5936	1386	48	5	10481	5	FLG	1	152285654	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	4904573	152285654	96964967	6	88499											
C1orf129	80133	broad.mit.edu	37	chr1	170967420	170967420	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatattcctcactgaagtgaGttttgtagactgtgaacagc	12	13	9	7	0	1	4	1	3	0	1	2	4	2	4	1	0	2	2	1	0	5	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:170967420G>T	uc001ghg.2	+	15	1731	c.1601G>T	c.(1600-1602)AGT>ATT	p.S534I	C1orf129_uc009wvy.2_Missense_Mutation_p.S341I|C1orf129_uc010plz.1_Intron	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	534							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ACTGAAGTGAGTTTTGTAGAC	0.398													20	280					3.51602e-12	3.95552e-12	0.008871	1	0		T	170967420	T	T	170967420	3	4	161	1	0	0	0	0	1	0	0	0	1999	1029	36	5	1655	5	C1orf129	1	170967420	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	18681766	170967420	78283201	7	88500											
PAPPA2	60676	broad.mit.edu	37	chr1	176526217	176526217	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctaccgagaagcagagacCtttaactcccaagtaggact	13	8	8	12	1	0	2	0	0	0	2	2	5	2	3	4	1	3	2	4	1	5	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:176526217C>A	uc001gkz.2	+	2	1923	c.759C>A	c.(757-759)ACC>ACA	p.T253T	PAPPA2_uc001gky.1_Silent_p.T253T|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	253					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						AAGCAGAGACCTTTAACTCCC	0.557													11	83					2.27111e-07	2.46926e-07	0.013537	1	0		A	176526217	A	A	176526217	2	1	161	1	0	0	0	0	0	0	0	1	11452	668	24	5		5	PAPPA2	1	176526217	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	5558797	176526217	72724404	8	88501											
RGS18	64407	broad.mit.edu	37	chr1	192127860	192127860	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacatggttcaggaaaagaAgaaacaagcaaagaagccaa	22	4	9	6	0	1	3	1	0	0	3	1	4	1	4	1	2	4	2	1	2	9	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:192127860A>C	uc001gsg.2	+	1	269	c.93A>C	c.(91-93)GAA>GAC	p.E31D		NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18	31					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						CAGGAAAAGAAGAAACAAGCA	0.294													5	133					0	0	0.001168	0	0		C	192127860	C	C	192127860	3	2	161	1	0	0	0	0	1	0	0	0	13325	69	3	5	95	5	RGS18	1	192127860	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	15601643	192127860	57122761	9	88502											
ARV1	64801	broad.mit.edu	37	chr1	231131557	231131557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcctgtgggtagaacggcCcatgacggcaaaaaaaaagc	14	6	11	10	2	0	2	0	1	0	1	1	2	1	2	2	3	2	2	2	3	6	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:231131557C>T	uc009xfl.1	+	4	529	c.500C>T	c.(499-501)CCC>CTC	p.P167L	ARV1_uc001huh.2_Missense_Mutation_p.P167L	NM_022786	NP_073623	Q9H2C2	ARV1_HUMAN	ARV1 homolog	167					sphingolipid metabolic process	integral to membrane				breast(2)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)		COAD - Colon adenocarcinoma(196;0.211)|Colorectal(1306;0.233)		GTAGAACGGCCCATGACGGCA	0.373													8	131					0	0	0.00308	0	0		T	231131557	T	T	231131557	3	4	161	1	0	0	0	0	1	0	0	0	1003	623	22	4	514	4	ARV1	1	231131557	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	39003697	231131557	18119064	10	88503											
FMN2	56776	broad.mit.edu	37	chr1	240286542	240286542	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctccagaagaagcagagaAgttttgctcccggatcattg	11	9	11	10	1	1	3	1	0	0	3	3	5	3	4	3	1	2	3	3	1	3	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr1:240286542A>C	uc010pyd.1	+	2	1904	c.1679A>C	c.(1678-1680)AAG>ACG	p.K560T	FMN2_uc010pye.1_Missense_Mutation_p.K560T	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	560					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GAAGCAGAGAAGTTTTGCTCC	0.512													6	144					0	0	0.001168	0	0		C	240286542	C	C	240286542	3	2	161	1	0	0	0	0	1	0	0	0	5964	72	3	5	1685	5	FMN2	1	240286542	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	9154985	240286542	8964079	11	88504											
PRKCE	5581	broad.mit.edu	37	chr2	46203682	46203682	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacaagttcatggccacctAtcttcggcagcccacctact	9	9	6	17	1	2	0	1	0	1	0	3	0	2	0	5	2	2	2	5	2	3	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr2:46203682A>G	uc002rut.2	+	3	724	c.527A>G	c.(526-528)TAT>TGT	p.Y176C		NM_005400	NP_005391	Q02156	KPCE_HUMAN	protein kinase C, epsilon	176	Phorbol-ester/DAG-type 1.				activation of phospholipase C activity|induction of apoptosis|intracellular signal transduction|nerve growth factor receptor signaling pathway|platelet activation	cytosol|endoplasmic reticulum|plasma membrane	ATP binding|enzyme activator activity|metal ion binding|signal transducer activity			lung(4)|ovary(3)|kidney(1)|breast(1)|large_intestine(1)	10		all_hematologic(82;0.155)|Acute lymphoblastic leukemia(82;0.209)	LUSC - Lung squamous cell carcinoma(58;0.171)			ATGGCCACCTATCTTCGGCAG	0.562													9	97					0	0	0.001855	0	0		G	46203682	G	G	46203682	3	3	161	1	0	0	0	0	1	0	0	0	12533	449	16	3	537	3	PRKCE	2	46203682	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08		46203682	196995691	12	88505											
DNAH7	56171	broad.mit.edu	37	chr2	196765097	196765097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagctgctctgaacacaagCgatacgtagccacaattttt	13	10	7	11	2	1	1	0	1	1	0	1	2	1	1	1	0	6	3	1	0	5	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr2:196765097C>T	uc002utj.3	-	28	4558	c.4457G>A	c.(4456-4458)CGC>CAC	p.R1486H		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1486	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGAACACAAGCGATACGTAGC	0.458													7	249					0	0	0.00308	0	0		T	196765097	T	T	196765097	3	4	161	1	0	0	0	0	1	0	0	0	4612	768	27	1	7769	1	DNAH7	2	196765097	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	150561415	196765097	46434276	13	88506											
BMPR2	659	broad.mit.edu	37	chr2	203378463	203378463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccacctcattcatttaaccGagatgagacaataatcattg	14	12	5	10	1	3	2	3	1	0	2	4	4	4	2	3	0	1	0	3	0	3	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr2:203378463G>A	uc002uzf.3	+	4	1588	c.440G>A	c.(439-441)CGA>CAA	p.R147Q	BMPR2_uc010ftr.2_Missense_Mutation_p.R147Q	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	147	Extracellular (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TCATTTAACCGAGATGAGACA	0.259													7	225					0	0	0.00308	0	0		A	203378463	A	A	203378463	3	1	161	1	0	0	0	0	1	0	0	0	1472	1058	37	1	454	1	BMPR2	2	203378463	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	6613366	203378463	39820910	14	88507											
ZNF142	7701	broad.mit.edu	37	chr2	219508125	219508125	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acgtgagaggtaatagaggaGagccgggaacaaaggaatgg	16	4	17	4	2	0	3	0	1	0	3	0	7	0	5	1	5	2	1	1	5	5	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr2:219508125G>C	uc002vin.2	-	8	3550	c.3114C>G	c.(3112-3114)CTC>CTG	p.L1038L	ZNF142_uc002vil.2_Silent_p.L999L|ZNF142_uc010fvt.2_Silent_p.L875L|ZNF142_uc002vim.2_Silent_p.L875L	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1038					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		TAATAGAGGAGAGCCGGGAAC	0.607													6	97					0	0	0.004482	0	0		C	219508125	C	C	219508125	2	2	161	1	0	0	0	0	0	0	0	1	17756	929	33	5		5	ZNF142	2	219508125	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08	16129662	219508125	23691248	15	88508											
TRIP12	9320	broad.mit.edu	37	chr2	230670450	230670450	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagaatgtacttactagtGttactattggctaacgggtt	10	15	9	7	1	1	1	1	0	0	1	1	1	1	1	0	2	4	4	0	2	7	8			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr2:230670450G>A	uc002vpw.1	-	17	2530	c.2421C>T	c.(2419-2421)AAC>AAT	p.N807N	TRIP12_uc002vpx.1_Silent_p.N855N|TRIP12_uc002vpy.1_Silent_p.N537N|TRIP12_uc010zlz.1_Intron	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	807	WWE.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		ACTTACTAGTGTTACTATTGG	0.318													4	114					0	0	0.009096	0	0		A	230670450	A	A	230670450	2	1	161	1	0	0	0	0	0	0	0	1	16582	1368	48	4		4	TRIP12	2	230670450	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08	11162325	230670450	12528923	16	88509											
PER2	8864	broad.mit.edu	37	chr2	239169471	239169471	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gaatggaaggagacgtacggCtctcctccggcgtgagtcct	8	8	14	11	4	1	2	0	1	1	1	4	5	3	3	3	4	1	2	3	4	3	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr2:239169471C>A	uc002vyc.2	-	13	1777	c.1540G>T	c.(1540-1542)GCC>TCC	p.A514S	PER2_uc010znv.1_Missense_Mutation_p.A514S	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	514					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		AGACGTACGGCTCTCCTCCGG	0.567													9	477					0.00621372	0.00645271	0.006214	1	0		A	239169471	A	A	239169471	3	1	161	1	0	0	0	0	1	0	0	0	11749	797	28	5	2271	5	PER2	2	239169471	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	8499021	239169471	4029902	17	88510											
CNTN4	152330	broad.mit.edu	37	chr3	3085346	3085346	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attatcctgaattgggatcaAgtgaaggccctggataatga	13	11	11	6	0	1	3	1	3	0	0	2	5	2	5	2	3	0	0	2	3	5	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr3:3085346A>C	uc003bpc.2	+	22	2990	c.2769A>C	c.(2767-2769)CAA>CAC	p.Q923H	CNTN4_uc003bpe.2_Missense_Mutation_p.Q595H|CNTN4_uc003bpf.2_Missense_Mutation_p.Q594H|CNTN4_uc003bpg.2_Missense_Mutation_p.Q179H	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	923	Fibronectin type-III 4.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		ATTGGGATCAAGTGAAGGCCC	0.413													7	75					0	0	0.00308	0	0		C	3085346	C	C	3085346	3	2	161	1	0	0	0	0	1	0	0	0	3646	69	3	5	2847	5	CNTN4	3	3085346	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08		3085346	194937084	18	88511											
TADA3	10474	broad.mit.edu	37	chr3	9832967	9832967	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtttcggcctcaagcacacGcaggcgccggctggcagaag	8	5	15	13	4	1	1	1	0	0	1	2	1	1	1	2	5	1	5	2	5	2	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr3:9832967G>C	uc003bsx.1	-	2	732	c.184C>G	c.(184-186)CGT>GGT	p.R62G	TADA3_uc010hcn.1_Missense_Mutation_p.R62G|TADA3_uc003bsy.2_Missense_Mutation_p.R62G|ARPC4_uc003bsz.1_5'Flank|ARPC4_uc003bta.1_5'Flank|ARPC4_uc003btb.1_5'Flank|ARPC4_uc003btc.1_5'Flank	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	62	Potential.				estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						TCAAGCACACGCAGGCGCCGG	0.602													8	62					0	0	0.006214	0	0		C	9832967	C	C	9832967	3	2	161	1	0	0	0	0	1	0	0	0	15537	1087	38	5	1150	5	TADA3	3	9832967	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	6747621	9832967	188189463	19	88512											
ATP2B2	491	broad.mit.edu	37	chr3	10387238	10387238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgtctgaggcctccttggCcacgtcagtgcctgcgatgc	5	10	13	13	2	2	1	1	1	1	0	3	3	3	1	4	2	3	0	4	2	0	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr3:10387238C>T	uc003bvt.2	-	18	2972	c.2533G>A	c.(2533-2535)GCC>ACC	p.A845T	ATP2B2_uc003bvv.2_Missense_Mutation_p.A800T|ATP2B2_uc003bvw.2_Missense_Mutation_p.A800T|ATP2B2_uc010hdo.2_Missense_Mutation_p.A550T	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	845	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GCCTCCTTGGCCACGTCAGTG	0.592													3	62					0	0	0.004672	0	0		T	10387238	T	T	10387238	3	4	161	1	0	0	0	0	1	0	0	0	1141	739	26	2	1222	2	ATP2B2	3	10387238	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	554271	10387238	187635192	20	88513											
KIF15	56992	broad.mit.edu	37	chr3	44879787	44879787	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agggatatgctctgtgaggaCctggctcatgccactgagca	9	9	13	10	0	2	2	1	2	1	0	2	4	2	4	2	3	3	3	2	3	1	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr3:44879787C>T	uc003cnx.3	+	27	3341	c.3192C>T	c.(3190-3192)GAC>GAT	p.D1064D	KIF15_uc010hiq.2_Silent_p.D967D|KIF15_uc010hir.2_Silent_p.D112D	NM_020242	NP_064627	Q9NS87	KIF15_HUMAN	kinesin family member 15	1064	Potential.				blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		TCTGTGAGGACCTGGCTCATG	0.453													8	92					0	0	0.008291	0	0		T	44879787	T	T	44879787	2	4	161	1	0	0	0	0	0	0	0	1	8293	506	18	4		4	KIF15	3	44879787	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	34492549	44879787	153142643	21	88514											
NIT2	56954	broad.mit.edu	37	chr3	100058731	100058731	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	aaattcctggtgaatccacaCagaagctttctgaagtagca	14	10	8	9	0	1	3	0	2	1	1	3	3	3	3	2	1	2	3	2	1	5	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr3:100058731C>T	uc003dtv.2	+	3	273	c.199C>T	c.(199-201)CAG>TAG	p.Q67*	NIT2_uc011bha.1_Nonsense_Mutation_p.Q67*	NM_020202	NP_064587	Q9NQR4	NIT2_HUMAN	nitrilase family, member 2	67	CN hydrolase.				nitrogen compound metabolic process		omega-amidase activity			ovary(1)	1						TGAATCCACACAGAAGCTTTC	0.353													11	129					0	0	0.008291	0	0		T	100058731	T	T	100058731	4	4	161	1	0	0	0	0	0	1	0	0	10453	479	17	4	209	4	NIT2	3	100058731	Nonsense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	55178944	100058731	97963699	22	88515											
HCLS1	3059	broad.mit.edu	37	chr3	121350700	121350700	+	Missense_Mutation	SNP	A	G	G	1	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	cagtgagctctagtcactccAgaagcttgacataatttgca	12	11	8	10	0	2	3	1	2	1	1	3	3	3	3	1	0	3	3	1	0	3	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr3:121350700A>G	uc003eeh.3	-	14	1579	c.1454T>C	c.(1453-1455)CTG>CCG	p.L485P	HCLS1_uc011bjj.1_Missense_Mutation_p.L448P	NM_005335	NP_005326	P14317	HCLS1_HUMAN	hematopoietic cell-specific Lyn substrate 1	485	SH3.				erythrocyte differentiation|intracellular signal transduction|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of STAT protein|response to hormone stimulus	mitochondrion|nucleus|plasma membrane	DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(114;0.0912)		TAGTCACTCCAGAAGCTTGAC	0.527													9	84					0	0	0.006214	0	0		G	121350700	G	G	121350700	3	3	161	1	0	0	0	0	1	0	0	0	7011	188	7	3	10	3	HCLS1	3	121350700	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	21291969	121350700	76671730	23	88516											
DBR1	51163	broad.mit.edu	37	chr3	137892448	137892448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagcgtgagaactggagccTttttctctccagagtaatac	11	11	10	9	1	1	3	0	1	1	3	3	5	2	4	2	1	4	1	2	1	3	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr3:137892448T>C	uc003erv.2	-	2	354	c.218A>G	c.(217-219)AAG>AGG	p.K73R	DBR1_uc003eru.2_Missense_Mutation_p.K22R	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	73						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						AACTGGAGCCTTTTTCTCTCC	0.398													4	269					0	0	0.000602	0	0		C	137892448	C	C	137892448	3	2	161	1	0	0	0	0	1	0	0	0	4260	1609	56	3	1444	3	DBR1	3	137892448	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	16541748	137892448	60129982	24	88517											
SLIT2	9353	broad.mit.edu	37	chr4	20533667	20533667	+	Silent	SNP	T	C	C	0	1	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	ggaatctttaagaaacttccTcaattacgtaaaatgtaagt	16	13	6	6	1	2	1	1	0	1	1	3	2	3	2	1	1	2	2	1	1	8	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr4:20533667T>C	uc003gpr.1	+	17	1878	c.1674T>C	c.(1672-1674)CCT>CCC	p.P558P	SLIT2_uc003gps.1_Silent_p.P550P	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	558					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						AGAAACTTCCTCAATTACGTA	0.294													12	70					0	0	0.010729	0	0		C	20533667	C	C	20533667	2	2	161	1	0	0	0	0	0	0	0	1	14765	1538	54	3		3	SLIT2	4	20533667	Silent	SNP	T	TCGA-CG-5734-01A-11D-1600-08		20533667	170620609	25	88518											
ANKRD17	26057	broad.mit.edu	37	chr4	73957913	73957913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttggaatttgctgaggagCttttcaaacgattctttgga	9	17	10	5	1	2	1	1	1	1	0	2	5	2	4	0	3	3	2	0	3	2	7			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr4:73957913C>T	uc003hgp.2	-	29	5549	c.5432G>A	c.(5431-5433)AGC>AAC	p.S1811N	ANKRD17_uc003hgo.2_Missense_Mutation_p.S1698N|ANKRD17_uc003hgq.2_Missense_Mutation_p.S1560N|ANKRD17_uc003hgr.2_Missense_Mutation_p.S1810N	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1811					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGCTGAGGAGCTTTTCAAACG	0.388													14	267					0	0	0.001855	0	0		T	73957913	T	T	73957913	3	4	161	1	0	0	0	0	1	0	0	0	646	797	28	2	2403	2	ANKRD17	4	73957913	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	53424246	73957913	117196363	26	88519											
BDP1	55814	broad.mit.edu	37	chr5	70763277	70763277	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaactacatactccagcttTaggaaaaactattactctaa	17	11	3	10	0	1	0	0	0	1	0	2	1	2	1	1	1	6	1	1	1	9	7			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr5:70763277T>A	uc003kbp.1	+	6	1145	c.882T>A	c.(880-882)TTT>TTA	p.F294L	BDP1_uc003kbn.1_Missense_Mutation_p.F294L|BDP1_uc003kbo.2_Missense_Mutation_p.F294L	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	294	Interaction with ZBTB43.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		ACTCCAGCTTTAGGAAAAACT	0.323													47	326					0	0	0.01441	0	0		A	70763277	A	A	70763277	3	1	161	1	0	0	0	0	1	0	0	0	1396	1751	61	5	904	5	BDP1	5	70763277	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08		70763277	110151983	27	88520											
IL3	3562	broad.mit.edu	37	chr5	131398068	131398068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcaagagtttacagaacGcatcagcaattgagagcatt	14	10	9	8	1	2	3	2	1	0	3	2	4	2	3	0	0	4	4	0	0	4	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr5:131398068G>A	uc003kwe.1	+	3	321	c.268G>A	c.(268-270)GCA>ACA	p.A90T		NM_000588	NP_000579	P08700	IL3_HUMAN	interleukin 3 precursor	90					cell-cell signaling|immune response|nervous system development|positive regulation of cell proliferation|positive regulation of DNA replication|positive regulation of survival gene product expression|positive regulation of tyrosine phosphorylation of Stat5 protein	extracellular space	cytokine activity|growth factor activity|interleukin-3 receptor binding			ovary(2)|central_nervous_system(1)	3		all_cancers(142;7.42e-12)|Lung NSC(810;4.25e-07)|all_lung(232;1.93e-06)|Prostate(281;0.00741)|Breast(839;0.0544)|Lung SC(612;0.122)|Ovarian(839;0.223)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	GBM - Glioblastoma multiforme(465;0.0161)|Lung(113;0.105)	Amlexanox(DB01025)	TTTACAGAACGCATCAGCAAT	0.512													13	366					0	0	0.013537	0	0		A	131398068	A	A	131398068	3	1	161	1	0	0	0	0	1	0	0	0	7705	1087	38	1	278	1	IL3	5	131398068	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	60634791	131398068	49517192	28	88521											
PCDHA4	56144	broad.mit.edu	37	chr5	140188293	140188293	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcgcgcgctgtcgagctaCgtttcggtgcatgcggagag	6	8	17	10	7	0	1	0	0	0	1	2	4	0	1	0	2	5	4	0	2	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr5:140188293C>T	uc003lhi.2	+	1	1622	c.1521C>T	c.(1519-1521)TAC>TAT	p.Y507Y	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.Y507Y|PCDHA4_uc011daa.1_Silent_p.Y507Y	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	507	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCGAGCTACGTTTCGGTGC	0.662													11	49					0	0	0.010729	0	0		T	140188293	T	T	140188293	2	4	161	1	0	0	0	0	0	0	0	1	11545	547	19	1		1	PCDHA4	5	140188293	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	8790225	140188293	40726967	29	88522											
PCDHB6	56130	broad.mit.edu	37	chr5	140531925	140531925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggcgttggcctcggtgtCgtcgctcttcctcttttcgg	0	15	14	12	5	2	0	0	0	2	0	7	0	3	0	2	5	0	2	2	5	0	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr5:140531925C>T	uc003lir.2	+	1	2087	c.2087C>T	c.(2086-2088)TCG>TTG	p.S696L	PCDHB6_uc011dah.1_Missense_Mutation_p.S560L	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	696	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCTCGGTGTCGTCGCTCTTC	0.697													19	181					0	0	0.012319	0	0		T	140531925	T	T	140531925	3	4	161	1	0	0	0	0	1	0	0	0	11565	893	31	1	2089	1	PCDHB6	5	140531925	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	343632	140531925	40383335	30	88523											
PCDH1	5097	broad.mit.edu	37	chr5	141243883	141243883	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttgctctcgatcaaagctCaggctggataggatggtgcc	8	11	13	9	1	3	0	2	0	1	0	4	3	3	2	1	4	3	4	1	4	2	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr5:141243883C>T	uc003llq.2	-	3	2130	c.2013G>A	c.(2011-2013)CTG>CTA	p.L671L	PCDH1_uc003llp.2_Silent_p.L671L|PCDH1_uc011dbf.1_Silent_p.L649L	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	671	Extracellular (Potential).|Cadherin 6.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		GATCAAAGCTCAGGCTGGATA	0.547													22	95					0	0	0.003954	0	0		T	141243883	T	T	141243883	2	4	161	1	0	0	0	0	0	0	0	1	11525	813	29	4		4	PCDH1	5	141243883	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	711958	141243883	39671377	31	88524											
C1QTNF2	114898	broad.mit.edu	37	chr5	159776736	159776736	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcccgcccaatggccccGgctttgccctttggtcctgg	3	9	11	18	2	0	0	0	0	0	0	1	0	1	0	7	4	2	1	7	4	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr5:159776736G>A	uc003lyd.2	-	3	436	c.432C>T	c.(430-432)GCC>GCT	p.A144A		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	99	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAATGGCCCCGGCTTTGCCCT	0.657													7	55					0	0	0.001984	0	0		A	159776736	A	A	159776736	2	1	161	1	0	0	0	0	0	0	0	1	1966	1103	39	1		1	C1QTNF2	5	159776736	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08	18532853	159776736	21138524	32	88525											
UNC5A	90249	broad.mit.edu	37	chr5	176304597	176304597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagctgtggaccccctggcGtcctgctcacccggccagtc	4	9	11	17	2	1	0	1	0	0	0	3	1	2	1	5	3	2	2	5	3	1	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr5:176304597G>A	uc003mey.2	+	10	1720	c.1528G>A	c.(1528-1530)GTC>ATC	p.V510I		NM_133369	NP_588610	Q6ZN44	UNC5A_HUMAN	netrin receptor Unc5h1 precursor	510	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane|plasma membrane				skin(1)	1	all_cancers(89;0.000119)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACCCCCTGGCGTCCTGCTCAC	0.627													9	39					0	0	0.010729	0	0		A	176304597	A	A	176304597	3	1	161	1	0	0	0	0	1	0	0	0	17017	1145	40	1	1566	1	UNC5A	5	176304597	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	16527861	176304597	4610663	33	88526											
MBOAT1	154141	broad.mit.edu	37	chr6	20124775	20124775	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaggaaaggtcttcgttagCgtcaaaaacaaaaggagaga	18	6	11	6	2	2	1	1	0	1	1	3	4	2	3	0	3	2	1	0	3	6	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr6:20124775C>T	uc003ncx.1	-	8	976	c.771G>A	c.(769-771)ACG>ACA	p.T257T	MBOAT1_uc011dji.1_Silent_p.T108T	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	257	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			TCTTCGTTAGCGTCAAAAACA	0.478													9	203					0	0	0.004482	0	0		T	20124775	T	T	20124775	2	4	161	1	0	0	0	0	0	0	0	1	9374	755	27	1		1	MBOAT1	6	20124775	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08		20124775	150990292	34	88527											
BTN2A2	10385	broad.mit.edu	37	chr6	26388369	26388369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acccctacggtgaggttgtgCccgccctgaaggaggtttcc	6	9	13	13	2	0	2	0	2	0	0	1	3	1	3	5	4	2	2	5	4	2	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr6:26388369C>T	uc003nhq.2	+	4	657	c.571C>T	c.(571-573)CCC>TCC	p.P191S	BTN2A2_uc011dkf.1_Missense_Mutation_p.P75S|BTN2A2_uc011dkg.1_Intron|BTN2A2_uc003nhr.2_Missense_Mutation_p.P75S|BTN2A2_uc011dkh.1_Intron|BTN2A2_uc003nhs.2_Missense_Mutation_p.P191S|BTN2A2_uc003nht.2_Missense_Mutation_p.P191S|BTN2A2_uc011dki.1_5'Flank	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	191	Extracellular (Potential).|Ig-like C2-type.				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						TGAGGTTGTGCCCGCCCTGAA	0.577													4	132					0	0	0.009096	0	0		T	26388369	T	T	26388369	3	4	161	1	0	0	0	0	1	0	0	0	1564	739	26	2	581	2	BTN2A2	6	26388369	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	6263594	26388369	144726698	35	88528											
OR12D3	81797	broad.mit.edu	37	chr6	29342887	29342887	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaagaaaggtttcccagaaAaaaatacataggggagtgga	19	6	11	5	0	0	2	0	0	0	2	1	4	1	4	1	4	1	1	1	4	7	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr6:29342887A>C	uc003nme.2	-	1	182	c.178T>G	c.(178-180)TTT>GTT	p.F60V		NM_030959	NP_112221	Q9UGF7	O12D3_HUMAN	olfactory receptor, family 12, subfamily D,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3						TTTCCCAGAAAAAAATACATA	0.398													6	65					0	0	0.001168	0	0		C	29342887	C	C	29342887	3	2	161	1	0	0	0	0	1	0	0	0	10951	14	1	5	776	5	OR12D3	6	29342887	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	2954518	29342887	141772180	36	88529											
BAT2	7916	broad.mit.edu	37	chr6	31604895	31604895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggggacctggatcatcacGgactcccccaactggaaggt	9	7	13	12	1	2	0	2	0	0	0	3	4	3	4	3	6	1	0	3	6	2	0			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr6:31604895G>A	uc003nvb.3	+	29	6473	c.6224G>A	c.(6223-6225)CGG>CAG	p.R2075Q	BAT2_uc003nvc.3_Missense_Mutation_p.R2075Q	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	2075	3-3.|3 X 50 AA type C repeats.					cytoplasm|nucleus	protein binding				0						GGATCATCACGGACTCCCCCA	0.502													6	118					0	0	0.001168	0	0		A	31604895	A	A	31604895	3	1	161	1	0	0	0	0	1	0	0	0	1320	1116	39	1	6334	1	BAT2	6	31604895	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	2262008	31604895	139510172	37	88530											
ABCC10	89845	broad.mit.edu	37	chr6	43400462	43400462	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggcagcctcaggacatttgCcgcctcccccacagactgca	8	6	9	18	2	1	1	1	0	0	1	2	2	2	2	5	2	3	2	5	2	0	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr6:43400462C>T	uc003ouy.1	+	3	959	c.744C>T	c.(742-744)TGC>TGT	p.C248C	ABCC10_uc003ouz.1_Silent_p.C205C	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	248						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			AGGACATTTGCCGCCTCCCCC	0.642													3	37					0	0	0.004672	0	0		T	43400462	T	T	43400462	2	4	161	1	0	0	0	0	0	0	0	1	50	747	26	2		2	ABCC10	6	43400462	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	11795567	43400462	127714605	38	88531											
CNR1	1268	broad.mit.edu	37	chr6	88854343	88854343	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggccaggggcctgtgaatGgatatgtacctgtcgatggc	8	10	15	8	1	0	1	0	1	0	0	1	3	0	2	3	5	1	1	3	5	4	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr6:88854343G>A	uc011dzq.1	-	2	4214	c.651C>T	c.(649-651)TCC>TCT	p.S217S	CNR1_uc010kbz.2_Silent_p.S217S|CNR1_uc011dzr.1_Silent_p.S217S|CNR1_uc011dzs.1_Silent_p.S217S|CNR1_uc003pmq.3_Silent_p.S217S|CNR1_uc011dzt.1_Silent_p.S217S|CNR1_uc010kca.2_Silent_p.S184S	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	217	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	GCCTGTGAATGGATATGTACC	0.577													5	34					0	0	0.000602	0	0		A	88854343	A	A	88854343	2	1	161	1	0	0	0	0	0	0	0	1	3634	1335	47	4		4	CNR1	6	88854343	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08	45453881	88854343	82260724	39	88532											
MLLT4	4301	broad.mit.edu	37	chr6	168299060	168299060	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggcgtcccatgtatttaAgtttgtggaccccagtcagg	7	12	13	9	1	1	0	1	0	0	0	2	1	2	1	3	4	0	2	3	4	2	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr6:168299060A>C	uc003qwd.2	+	11	1632	c.1490A>C	c.(1489-1491)AAG>ACG	p.K497T	MLLT4_uc003qwb.1_Missense_Mutation_p.K482T|MLLT4_uc003qwc.1_Missense_Mutation_p.K498T|MLLT4_uc003qwf.2_Missense_Mutation_p.K183T	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	498					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CATGTATTTAAGTTTGTGGAC	0.488			T	MLL	AL								3	84					0	0	0.004672	0	0		C	168299060	C	C	168299060	3	2	161	1	0	0	0	0	1	0	0	0	9647	72	3	5	1535	5	MLLT4	6	168299060	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	79444717	168299060	2816007	40	88533											
COL28A1	340267	broad.mit.edu	37	chr7	7421221	7421221	+	Missense_Mutation	SNP	A	T	T	1	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	ttgtgccctttgggcctgggAagccttgtggtccttgttcc	2	15	13	11	0	0	0	0	0	0	0	2	1	2	1	5	3	2	1	5	3	1	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:7421221A>T	uc003src.1	-	28	2276	c.2159T>A	c.(2158-2160)TTC>TAC	p.F720Y	COL28A1_uc011jxe.1_Missense_Mutation_p.F403Y	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	720					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TGGGCCTGGGAAGCCTTGTGG	0.473													19	272					0	0	0.014323	0	0		T	7421221	T	T	7421221	3	4	161	1	0	0	0	0	1	0	0	0	3689	246	9	5	1250	5	COL28A1	7	7421221	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08		7421221	151717442	41	88534											
AGR3	155465	broad.mit.edu	37	chr7	16900174	16900174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acaatctgttagagtatcttCcagctatgtcagctctaact	11	14	6	10	0	4	1	1	0	3	1	5	1	5	1	1	0	3	4	1	0	5	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:16900174C>T	uc003sts.2	-	7	474	c.401G>A	c.(400-402)GGA>GAA	p.G134E		NM_176813	NP_789783	Q8TD06	AGR3_HUMAN	breast cancer membrane protein 11 precursor	134						extracellular region					0	Lung NSC(10;0.0376)|all_lung(11;0.0721)|all_epithelial(12;0.202)			UCEC - Uterine corpus endometrioid carcinoma (126;0.184)		AGAGTATCTTCCAGCTATGTC	0.378													19	158					0	0	0.008871	0	0		T	16900174	T	T	16900174	3	4	161	1	0	0	0	0	1	0	0	0	396	855	30	4	107	4	AGR3	7	16900174	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	9478953	16900174	142238489	42	88535											
KBTBD2	25948	broad.mit.edu	37	chr7	32910203	32910203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaagacaaatactgggatCgtgattctgtgttatactct	12	13	9	7	1	2	3	0	1	2	2	3	4	2	4	0	1	2	1	0	1	5	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:32910203C>T	uc003tdb.2	-	4	1285	c.626G>A	c.(625-627)CGA>CAA	p.R209Q	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	209											0			GBM - Glioblastoma multiforme(11;0.0499)			ATACTGGGATCGTGATTCTGT	0.398													20	120					0	0	0.007413	0	0		T	32910203	T	T	32910203	3	4	161	1	0	0	0	0	1	0	0	0	8009	884	31	1	1249	1	KBTBD2	7	32910203	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	16010029	32910203	126228460	43	88536											
CLIP2	7461	broad.mit.edu	37	chr7	73753314	73753314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggggcgaaaaggacctgCgcctgggggaccgcgtgctg	7	4	19	11	5	0	0	0	0	0	0	0	3	0	2	3	5	3	1	3	5	2	0			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:73753314C>T	uc003uam.2	+	3	985	c.658C>T	c.(658-660)CGC>TGC	p.R220C	CLIP2_uc003uan.2_Missense_Mutation_p.R220C	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	220						microtubule associated complex				skin(3)	3						AAAGGACCTGCGCCTGGGGGA	0.672													4	43					0	0	0.009096	0	0		T	73753314	T	T	73753314	3	4	161	1	0	0	0	0	1	0	0	0	3536	768	27	1	664	1	CLIP2	7	73753314	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	40843111	73753314	85385349	44	88537											
PCLO	27445	broad.mit.edu	37	chr7	82582923	82582923	+	Missense_Mutation	SNP	A	C	C	1	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	acagaggtgtagctgtagtcActggagatgcaactgttaac	12	10	12	7	0	1	2	1	0	0	2	1	3	1	2	0	2	4	5	0	2	4	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:82582923A>C	uc003uhx.2	-	5	7635	c.7346T>G	c.(7345-7347)GTG>GGG	p.V2449G	PCLO_uc003uhv.2_Missense_Mutation_p.V2449G|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2380	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGCTGTAGTCACTGGAGATGC	0.308													9	59					0	0	0.004482	0	0		C	82582923	C	C	82582923	3	2	161	1	0	0	0	0	1	0	0	0	11602	159	6	5	8183	5	PCLO	7	82582923	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	8829609	82582923	76555740	45	88538											
GNGT1	2792	broad.mit.edu	37	chr7	93536131	93536131	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttgaccagctcaagaaaGaagtgacactggaaagaatg	18	6	11	6	0	1	5	1	2	0	3	1	6	1	6	1	1	1	2	1	1	6	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:93536131G>T	uc003unc.1	+	2	221	c.73G>T	c.(73-75)GAA>TAA	p.E25*	GNGT1_uc003umx.1_RNA	NM_021955	NP_068774	P63211	GBG1_HUMAN	guanine nucleotide binding protein (G protein),	25					G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0	all_cancers(62;2.39e-10)|all_epithelial(64;1.54e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			GCTCAAGAAAGAAGTGACACT	0.388													9	100					3.09899e-07	3.3469e-07	0.004482	1	0		T	93536131	T	T	93536131	4	4	161	1	0	0	0	0	0	1	0	0	6548	943	33	5	75	5	GNGT1	7	93536131	Nonsense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	10953208	93536131	65602532	46	88539											
SND1	27044	broad.mit.edu	37	chr7	127725833	127725833	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacattgactacggcaacGtgagtgttggggaccagagt	10	10	13	8	2	1	3	0	2	1	1	1	4	1	4	1	3	3	2	1	3	3	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:127725833G>A	uc003vmi.2	+	20	2530	c.2304_splice	c.e20+1	p.N768_splice	SND1_uc010lle.2_Splice_Site_p.N421_splice	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1						gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						CTACGGCAACGTGAGTGTTGG	0.517													16	90					0	0	0.004007	0	0		A	127725833	A	A	127725833	5	1	161	1	0	0	0	0	0	0	1	0	14869	1159	40	1	2383	1	SND1	7	127725833	Splice_Site	SNP	G	TCGA-CG-5734-01A-11D-1600-08	34189702	127725833	31412830	47	88540											
OPN1SW	611	broad.mit.edu	37	chr7	128412618	128412618	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttggggccaacttgggtagaCgagacagtagaaacttctgt	11	10	13	7	1	1	3	0	0	1	3	1	4	1	3	1	3	2	2	1	3	4	5	rs140568559	byFrequency	TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr7:128412618C>T	uc003vnt.3	-	5	1023	c.1023G>A	c.(1021-1023)TCG>TCA	p.S341S		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	341	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						CTTGGGTAGACGAGACAGTAG	0.443													11	67					0	0	0.010729	0	0		T	128412618	T	T	128412618	2	4	161	1	0	0	0	0	0	0	0	1	10899	523	19	1		1	OPN1SW	7	128412618	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	686785	128412618	30726045	48	88541											
RP1L1	94137	broad.mit.edu	37	chr8	10468213	10468213	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgctggcaggagacccaAggtcttcctcaaataactgc	10	10	9	12	0	2	1	1	0	1	1	3	2	3	1	2	3	3	2	2	3	3	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:10468213A>G	uc003wtc.2	-	4	3624	c.3395T>C	c.(3394-3396)CTT>CCT	p.L1132P		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1132					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		AGGAGACCCAAGGTCTTCCTC	0.587													6	58					0	0	0.004482	0	0		G	10468213	G	G	10468213	3	3	161	1	0	0	0	0	1	0	0	0	13558	72	3	3	3811	3	RP1L1	8	10468213	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08		10468213	135895809	49	88542											
NRG1	3084	broad.mit.edu	37	chr8	32617821	32617821	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagcccaactgggggcccaAgaggacgtcttaatggcaca	11	5	13	12	1	1	1	0	0	1	1	1	2	1	2	2	4	2	2	2	4	3	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:32617821A>C	uc003xiv.2	+	11	1682	c.1165A>C	c.(1165-1167)AGA>CGA	p.R389R	NRG1_uc011lbf.1_Silent_p.R386R|NRG1_uc010lvo.2_Silent_p.R386R|NRG1_uc003xiu.2_Silent_p.R394R|NRG1_uc003xiw.2_Silent_p.R386R|NRG1_uc003xit.2_Silent_p.R389R|NRG1_uc010lvr.2_Silent_p.R131R|NRG1_uc010lvs.2_Silent_p.R131R|NRG1_uc010lvp.2_Silent_p.R343R|NRG1_uc010lvq.2_Silent_p.R326R|NRG1_uc011lbg.1_Silent_p.R235R|NRG1_uc011lbh.1_Silent_p.R232R|NRG1_uc003xja.2_Silent_p.R200R	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	389	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		TGGGGGCCCAAGAGGACGTCT	0.527													6	257					0	0	0.00308	0	0		C	32617821	C	C	32617821	2	2	161	1	0	0	0	0	0	0	0	1	10666	64	3	5		5	NRG1	8	32617821	Silent	SNP	A	TCGA-CG-5734-01A-11D-1600-08	22149608	32617821	113746201	50	88543											
KCNU1	157855	broad.mit.edu	37	chr8	36691097	36691097	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccttctttggaacttgaaAccatatttaaatgctacttg	11	16	5	9	0	1	1	0	1	1	0	2	2	2	2	2	1	4	1	2	1	6	8			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:36691097A>C	uc010lvw.2	+	11	1219	c.1132A>C	c.(1132-1134)ACC>CCC	p.T378P	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	378	RCK N-terminal.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GGAACTTGAAACCATATTTAA	0.413													11	98					0	0	0.010729	0	0		C	36691097	C	C	36691097	3	2	161	1	0	0	0	0	1	0	0	0	8109	43	2	5	1174	5	KCNU1	8	36691097	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	4073276	36691097	109672925	51	88544											
AP3M2	10947	broad.mit.edu	37	chr8	42012342	42012342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgaggcagaaaatgtgcCtccggttatccctacccctc	9	10	8	14	1	0	2	0	1	0	1	3	2	2	2	5	2	3	2	5	2	5	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:42012342C>T	uc003xop.2	+	3	428	c.137C>T	c.(136-138)CCT>CTT	p.P46L	AP3M2_uc003xoo.2_Missense_Mutation_p.P46L|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_5'UTR|AP3M2_uc003xor.1_Missense_Mutation_p.P46L	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	46					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			GAAAATGTGCCTCCGGTTATC	0.483													6	88					0	0	0.001168	0	0		T	42012342	T	T	42012342	3	4	161	1	0	0	0	0	1	0	0	0	748	681	24	4	139	4	AP3M2	8	42012342	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	5321245	42012342	104351680	52	88545											
PXDNL	137902	broad.mit.edu	37	chr8	52321476	52321476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcctgggattcccgctccGagctcccgtaaacgttggag	7	8	13	13	4	0	0	0	0	0	0	3	4	3	2	4	2	3	4	4	2	2	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:52321476G>A	uc003xqu.3	-	17	2809	c.2708C>T	c.(2707-2709)TCG>TTG	p.S903L	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	903					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TTCCCGCTCCGAGCTCCCGTA	0.597													4	53					0	0	0.009096	0	0		A	52321476	A	A	52321476	3	1	161	1	0	0	0	0	1	0	0	0	12873	1059	37	1	1711	1	PXDNL	8	52321476	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	10309134	52321476	94042546	53	88546											
PCMTD1	115294	broad.mit.edu	37	chr8	52773689	52773690	+	Missense_Mutation	DNP	CC	AA	AA																															ttaagtcatcattatcttccCcagcactcacagctcctccc																										TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:52773689_52773690CC>AA	uc003xqx.3	-	2	363_364	c.22_23GG>TT	c.(22-24)GGG>TTG	p.G8L	PCMTD1_uc003xqw.3_Missense_Mutation_p.G8L|PCMTD1_uc011ldn.1_Intron|PCMTD1_uc010lya.2_Intron|PCMTD1_uc011ldo.1_Missense_Mutation_p.G8L	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	8						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				ATTATCTTCCCCAGCACTCACA	0.347													6	114					0	0	0.004672	0	0		AA	52773690	AA	AA	52773689	3	1	161	1	0	0	0	0	1	0	0	0	11605	623	22	5	1070	5	PCMTD1	8	52773689	Missense_Mutation	DNP	CC	TCGA-CG-5734-01A-11D-1600-08	452213	52773689	93590333	54	88547											
PREX2	80243	broad.mit.edu	37	chr8	69032431	69032431	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaatctctactattgatagGtggattcaattaccaatctc	13	14	6	8	0	3	1	1	1	2	0	5	3	3	2	1	2	2	0	1	2	7	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:69032431G>T	uc003xxv.1	+	29	3532	c.3505G>T	c.(3505-3507)GTG>TTG	p.V1169L		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1169					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CTATTGATAGGTGGATTCAAT	0.368													11	131					1.08611e-07	1.19694e-07	0.010729	1	0		T	69032431	T	T	69032431	3	4	161	1	0	0	0	0	1	0	0	0	12499	1275	44	5	3848	5	PREX2	8	69032431	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	16258742	69032431	77331591	55	88548											
TM7SF4	81501	broad.mit.edu	37	chr8	105368424	105368424	+	Nonstop_Mutation	SNP	T	C	C	0	1	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	tggcaagtgcagacaagtcaTgagagaccccgactactcct	12	7	10	12	1	1	3	1	1	0	2	2	5	2	3	3	1	2	2	3	1	3	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:105368424T>C	uc003ylx.1	+	4	1460	c.1411T>C	c.(1411-1413)TGA>CGA	p.*471R		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	471					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AGACAAGTCATGAGAGACCCC	0.448													10	49					0	0	0.008291	0	0		C	105368424	C	C	105368424	4	2	161	1	0	0	0	0	0	0	0	0	16001	1477	51	3	1421	3	TM7SF4	8	105368424	Nonstop_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	36335993	105368424	40995598	56	88549											
CSMD3	114788	broad.mit.edu	37	chr8	113256718	113256718	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagccaggctgacaggtaTaaatcagtgtatacccatga	15	8	10	8	0	1	3	1	2	0	1	1	3	1	3	2	2	2	3	2	2	6	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:113256718T>C	uc003ynu.2	-	65	10466	c.10307A>G	c.(10306-10308)TAT>TGT	p.Y3436C	CSMD3_uc003yns.2_Missense_Mutation_p.Y2638C|CSMD3_uc003ynt.2_Missense_Mutation_p.Y3396C|CSMD3_uc011lhx.1_Missense_Mutation_p.Y3267C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3436	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTGACAGGTATAAATCAGTGT	0.443										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			11	155					0	0	0.013537	0	0		C	113256718	C	C	113256718	3	2	161	1	0	0	0	0	1	0	0	0	3949	1406	49	3	844	3	CSMD3	8	113256718	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	7888294	113256718	33107304	57	88550											
COL14A1	7373	broad.mit.edu	37	chr8	121222070	121222070	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcgagtcaaatgggatgcagTgcctggggcctcaggttacc	8	8	15	10	1	2	0	2	0	0	0	2	2	2	1	3	4	3	2	3	4	2	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr8:121222070T>C	uc003yox.2	+	12	1662	c.1397T>C	c.(1396-1398)GTG>GCG	p.V466A	COL14A1_uc003yoy.2_Missense_Mutation_p.V144A|COL14A1_uc010mde.1_Missense_Mutation_p.V144A	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	466	Fibronectin type-III 3.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TGGGATGCAGTGCCTGGGGCC	0.473													9	150					0	0	0.004482	0	0		C	121222070	C	C	121222070	3	2	161	1	0	0	0	0	1	0	0	0	3674	1696	59	3	1439	3	COL14A1	8	121222070	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	7965352	121222070	25141952	58	88551											
KIAA1797	54914	broad.mit.edu	37	chr9	20720434	20720434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgacaatgtagtggttcGaacagcctgctgtgaaggtc	10	10	13	8	1	0	2	0	2	0	0	2	3	0	2	1	2	3	3	1	2	4	2	rs143009945		TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr9:20720434G>A	uc003zog.1	+	6	551	c.188G>A	c.(187-189)CGA>CAA	p.R63Q		NM_017794	NP_060264	Q5VW36	K1797_HUMAN	hypothetical protein LOC54914	63						integral to membrane	binding			ovary(8)|breast(1)|kidney(1)	10				GBM - Glioblastoma multiforme(3;2.1e-125)|Lung(42;2.76e-14)|LUSC - Lung squamous cell carcinoma(42;1.99e-11)		GTAGTGGTTCGAACAGCCTGC	0.468													13	294					0	0	0.001855	0	0		A	20720434	A	A	20720434	3	1	161	1	0	0	0	0	1	0	0	0	8274	1058	37	1	198	1	KIAA1797	9	20720434	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08		20720434	120492997	59	88552											
SLC35D2	11046	broad.mit.edu	37	chr9	99086398	99086398	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccaaccactgctgtcGtcagggctgaattgtaatag	9	11	11	10	1	1	1	1	1	0	0	3	1	2	1	2	2	2	4	2	2	4	3	rs145290742		TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr9:99086398G>T	uc004awc.2	-	10	882	c.806C>A	c.(805-807)ACG>AAG	p.T269K	SLC35D2_uc010msd.2_RNA|SLC35D2_uc010mse.2_Missense_Mutation_p.T222K|SLC35D2_uc010msf.2_Missense_Mutation_p.T181K|SLC35D2_uc004awd.2_Missense_Mutation_p.D111E	NM_007001	NP_008932	Q76EJ3	S35D2_HUMAN	solute carrier family 35, member D2	269	Helical; (Potential).					Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity				0		Acute lymphoblastic leukemia(62;0.0167)				CACTGCTGTCGTCAGGGCTGA	0.512													9	149					1.12685e-05	1.20894e-05	0.004482	1	0		T	99086398	T	T	99086398	3	4	161	1	0	0	0	0	1	0	0	0	14607	1145	40	5	219	5	SLC35D2	9	99086398	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	78365964	99086398	42127033	60	88553											
ASTN2	23245	broad.mit.edu	37	chr9	119380718	119380718	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactccaaggagaccacagtActggagggctccactgttgg	10	7	12	12	0	0	1	0	0	0	1	2	3	2	2	3	4	1	3	3	4	2	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr9:119380718A>T	uc004bjs.1	-	19	3341	c.3240T>A	c.(3238-3240)AGT>AGA	p.S1080R	ASTN2_uc004bjr.1_Missense_Mutation_p.S1076R|ASTN2_uc004bjt.1_Missense_Mutation_p.S1029R|ASTN2_uc004bjp.1_Missense_Mutation_p.S173R|ASTN2_uc004bjq.1_Missense_Mutation_p.S132R|ASTN2_uc011lxr.1_Missense_Mutation_p.S132R|ASTN2_uc011lxs.1_Missense_Mutation_p.S132R|ASTN2_uc011lxt.1_Missense_Mutation_p.S132R|ASTN2_uc004bjv.1_Missense_Mutation_p.S132R	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1080	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						AGACCACAGTACTGGAGGGCT	0.527													15	125					0	0	0.003163	0	0		T	119380718	T	T	119380718	3	4	161	1	0	0	0	0	1	0	0	0	1066	388	14	5	918	5	ASTN2	9	119380718	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	20294320	119380718	21832713	61	88554											
SETX	23064	broad.mit.edu	37	chr9	135205649	135205649	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcacacacagcatctgtttGgttgaggacttctttgactt	8	15	9	9	0	3	2	1	2	2	0	3	3	3	3	0	2	1	3	0	2	0	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr9:135205649G>A	uc004cbk.2	-	10	1519	c.1336C>T	c.(1336-1338)CAA>TAA	p.Q446*	SETX_uc004cbj.2_Nonsense_Mutation_p.Q65*|SETX_uc010mzt.2_Nonsense_Mutation_p.Q65*	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	446					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		GCATCTGTTTGGTTGAGGACT	0.383													15	154					0	0	0.00245	0	0		A	135205649	A	A	135205649	4	1	161	1	0	0	0	0	0	1	0	0	14166	1357	47	4	6765	4	SETX	9	135205649	Nonsense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	15824931	135205649	6007782	62	88555											
ENKUR	219670	broad.mit.edu	37	chr10	25273753	25273753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttccagcctctgcttgcGgatcttctttggtatagaat	6	17	8	10	1	4	1	0	0	4	1	5	2	5	2	2	2	3	2	2	2	3	7			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr10:25273753G>A	uc001isg.1	-	5	841	c.676C>T	c.(676-678)CGC>TGC	p.R226C	ENKUR_uc001ish.1_Missense_Mutation_p.R164C	NM_145010	NP_659447	Q8TC29	ENKUR_HUMAN	enkurin	226						cilium|flagellum	calmodulin binding|SH3 domain binding				0						CTCTGCTTGCGGATCTTCTTT	0.388													5	157					0	0	0.000602	0	0		A	25273753	A	A	25273753	3	1	161	1	0	0	0	0	1	0	0	0	5128	1116	39	1	102	1	ENKUR	10	25273753	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08		25273753	110260994	63	88556											
FRMPD2	143162	broad.mit.edu	37	chr10	49420007	49420007	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggccttaccctcaagaacTtcagctcagcatcctctccc	10	9	5	17	0	4	1	3	0	1	1	6	1	5	1	4	1	4	2	4	1	4	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr10:49420007T>G	uc001jgi.2	-	13	1708	c.1601A>C	c.(1600-1602)AAG>ACG	p.K534T	FRMPD2_uc001jgh.2_Missense_Mutation_p.K502T|FRMPD2_uc001jgj.2_Missense_Mutation_p.K512T	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	534	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CCTCAAGAACTTCAGCTCAGC	0.582													7	46					0	0	0.001984	0	0		G	49420007	G	G	49420007	3	3	161	1	0	0	0	0	1	0	0	0	6072	1609	56	5	2396	5	FRMPD2	10	49420007	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	24146254	49420007	86114740	64	88557											
GRID1	2894	broad.mit.edu	37	chr10	87482893	87482893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catggagttcacggaagattCgccacctgcgggaggcagac	10	6	14	11	3	1	2	1	0	0	2	2	5	1	5	2	4	1	2	2	4	1	2	rs148165863		TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr10:87482893C>T	uc001kdl.1	-	12	1965	c.1864G>A	c.(1864-1866)GAA>AAA	p.E622K	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.E193K	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	622	Cytoplasmic (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	ACGGAAGATTCGCCACCTGCG	0.602										Multiple Myeloma(13;0.14)			4	29					0	0	0.009096	0	0		T	87482893	T	T	87482893	3	4	161	1	0	0	0	0	1	0	0	0	6787	893	31	1	1185	1	GRID1	10	87482893	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	38062886	87482893	48051854	65	88558											
SORCS3	22986	broad.mit.edu	37	chr10	106907471	106907471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acctctacatctcagacacgCgtgggatttacttcactctg	9	12	7	13	2	4	1	2	0	3	1	5	2	4	2	1	1	2	0	1	1	2	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr10:106907471C>T	uc001kyi.1	+	9	1626	c.1399C>T	c.(1399-1401)CGT>TGT	p.R467C		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	467	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		CTCAGACACGCGTGGGATTTA	0.453													6	133					0	0	0.001168	0	0		T	106907471	T	T	106907471	3	4	161	1	0	0	0	0	1	0	0	0	14957	768	27	1	1433	1	SORCS3	10	106907471	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	19424578	106907471	28627276	66	88559											
SORCS1	114815	broad.mit.edu	37	chr10	108458997	108458997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaggtcgatcatgatgttgCcctcagggcctctgctgctc	6	11	12	12	1	3	2	2	1	1	1	5	3	3	2	2	2	3	3	2	2	0	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr10:108458997C>T	uc001kym.2	-	9	1396	c.1388G>A	c.(1387-1389)GGC>GAC	p.G463D	SORCS1_uc001kyl.2_Missense_Mutation_p.G463D|SORCS1_uc009xxs.2_Missense_Mutation_p.G463D|SORCS1_uc001kyn.1_Missense_Mutation_p.G463D|SORCS1_uc001kyo.2_Missense_Mutation_p.G463D	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	463	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CATGATGTTGCCCTCAGGGCC	0.542													8	125					0	0	0.004482	0	0		T	108458997	T	T	108458997	3	4	161	1	0	0	0	0	1	0	0	0	14955	739	26	2	2424	2	SORCS1	10	108458997	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	1551526	108458997	27075750	67	88560											
MKI67	4288	broad.mit.edu	37	chr10	129907388	129907388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgccttctgacctctttTtaggatgcactcaacaattt	8	17	6	10	0	3	1	1	1	2	0	3	2	3	2	2	1	3	2	2	1	3	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr10:129907388T>G	uc001lke.2	-	13	2911	c.2716A>C	c.(2716-2718)AAA>CAA	p.K906Q	MKI67_uc001lkf.2_Missense_Mutation_p.K546Q|MKI67_uc009yav.1_Missense_Mutation_p.K481Q|MKI67_uc009yaw.1_Missense_Mutation_p.K56Q	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	906					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TGACCTCTTTTTAGGATGCAC	0.363													9	396					0	0	0.004482	0	0		G	129907388	G	G	129907388	3	3	161	1	0	0	0	0	1	0	0	0	9616	1850	64	5	7066	5	MKI67	10	129907388	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	21448391	129907388	5627359	68	88561											
ADAM8	101	broad.mit.edu	37	chr10	135083907	135083907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcgggcactggttcatacGcagtgccatcctctgtggtg	5	11	12	13	2	2	0	1	0	1	0	4	0	3	0	3	3	2	3	3	3	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr10:135083907G>A	uc010qva.1	-	15	1676	c.1625C>T	c.(1624-1626)GCG>GTG	p.A542V	ADAM8_uc010quz.1_Missense_Mutation_p.A581V|ADAM8_uc009ybi.2_Missense_Mutation_p.A581V			P78325	ADAM8_HUMAN	SubName: Full=cDNA FLJ50704, highly similar to ADAM 8 (EC 3.4.24.-) (A disintegrinand metalloproteinase domain 8);	542					integrin-mediated signaling pathway|proteolysis		metalloendopeptidase activity			large_intestine(2)|central_nervous_system(1)	3		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)		TGGTTCATACGCAGTGCCATC	0.672													3	68					0	0	0.004672	0	0		A	135083907	A	A	135083907	3	1	161	1	0	0	0	0	1	0	0	0	252	1087	38	1	682	1	ADAM8	10	135083907	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	5176519	135083907	450840	69	88562											
NUP160	23279	broad.mit.edu	37	chr11	47837151	47837151	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagaattcttgttgtaaAtttcgaaactcctcctggga	11	13	7	10	1	1	1	0	0	1	1	4	3	3	2	3	1	1	2	3	1	4	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:47837151A>G	uc001ngm.2	-	13	1651	c.1566T>C	c.(1564-1566)AAT>AAC	p.N522N	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	522					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						CTTGTTGTAAATTTCGAAACT	0.403													9	277					0	0	0.008291	0	0		G	47837151	G	G	47837151	2	3	161	1	0	0	0	0	0	0	0	1	10776	98	4	3		3	NUP160	11	47837151	Silent	SNP	A	TCGA-CG-5734-01A-11D-1600-08		47837151	87169365	70	88563											
OR4D6	219983	broad.mit.edu	37	chr11	59224624	59224624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctatgtactttctcctgcGgaacaaatcagtcctggaca	10	12	7	12	1	2	0	1	0	1	0	5	2	4	2	3	2	3	1	3	2	4	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:59224624G>A	uc010rku.1	+	1	191	c.191G>A	c.(190-192)CGG>CAG	p.R64Q		NM_001004708	NP_001004708	Q8NGJ1	OR4D6_HUMAN	olfactory receptor, family 4, subfamily D,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TTTCTCCTGCGGAACAAATCA	0.458													9	173					0	0	0.006214	0	0		A	59224624	A	A	59224624	3	1	161	1	0	0	0	0	1	0	0	0	11077	1116	39	1	193	1	OR4D6	11	59224624	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	11387473	59224624	75781892	71	88564											
MS4A13	503497	broad.mit.edu	37	chr11	60285672	60285672	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacaaaacaggatgtacttTatggggaatttttgtgagta	13	15	10	3	0	0	1	0	1	0	0	0	3	0	3	0	3	3	2	0	3	7	7			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:60285672T>A	uc001nps.2	+	3	439	c.116T>A	c.(115-117)TTA>TAA	p.L39*	MS4A13_uc009ync.2_Nonsense_Mutation_p.L39*|MS4A13_uc009ynd.2_Nonsense_Mutation_p.L39*	NM_001012417	NP_001012417	Q5J8X5	M4A13_HUMAN	membrane-spanning 4-domains, subfamily A, member	39	Helical; (Potential).					integral to membrane					0						GGATGTACTTTATGGGGAATT	0.323													8	103					0	0	0.004482	0	0		A	60285672	A	A	60285672	4	1	161	1	0	0	0	0	0	1	0	0	9875	1764	61	5	118	5	MS4A13	11	60285672	Nonsense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	1061048	60285672	74720844	72	88565											
RAB38	23682	broad.mit.edu	37	chr11	87883041	87883041	+	Silent	SNP	T	C	C	0	1	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	gccactgcttcaaatgtggcTggcctggtgacatcgaagac	9	9	12	11	1	1	2	1	1	0	1	2	3	1	2	2	3	1	2	2	3	2	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:87883041T>C	uc001pcj.1	-	2	332	c.285A>G	c.(283-285)CCA>CCG	p.P95P		NM_022337	NP_071732	P57729	RAB38_HUMAN	RAB38	95					protein transport|small GTPase mediated signal transduction	melanosome|plasma membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				CAAATGTGGCTGGCCTGGTGA	0.428													60	253					0	0	0.01441	0	0		C	87883041	C	C	87883041	2	2	161	1	0	0	0	0	0	0	0	1	12953	1567	55	3		3	RAB38	11	87883041	Silent	SNP	T	TCGA-CG-5734-01A-11D-1600-08	27597369	87883041	47123475	73	88566											
CNTN5	53942	broad.mit.edu	37	chr11	99827732	99827732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccaacgccactcactctgCgtaatgatggtaagttgctt	9	12	8	12	2	2	1	1	1	1	0	3	1	3	1	2	1	3	4	2	1	3	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:99827732C>T	uc001pga.2	+	8	1207	c.868C>T	c.(868-870)CGT>TGT	p.R290C	CNTN5_uc009ywv.1_Missense_Mutation_p.R290C|CNTN5_uc001pfz.2_Missense_Mutation_p.R290C|CNTN5_uc001pgb.2_Missense_Mutation_p.R216C	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	290					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		ACTCACTCTGCGTAATGATGG	0.398													10	48					0	0	0.008291	0	0		T	99827732	T	T	99827732	3	4	161	1	0	0	0	0	1	0	0	0	3647	768	27	1	890	1	CNTN5	11	99827732	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	11944691	99827732	35178784	74	88567											
SIK3	23387	broad.mit.edu	37	chr11	116718205	116718205	+	Missense_Mutation	SNP	A	T	T	1	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	tcctcaccctcattttccccAtcctgaaactgctggctgcc	6	12	5	18	0	2	1	2	1	0	0	5	1	5	1	6	1	3	2	6	1	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:116718205A>T	uc001ppy.2	-	22	3657	c.3621T>A	c.(3619-3621)GAT>GAA	p.D1207E	SIK3_uc001ppz.2_Missense_Mutation_p.D1046E|SIK3_uc001pqa.2_Missense_Mutation_p.D1147E|SIK3_uc001ppw.2_Missense_Mutation_p.D564E|SIK3_uc001ppx.2_Missense_Mutation_p.D585E	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	1207						cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						CATTTTCCCCATCCTGAAACT	0.562													29	252					0	0	0.010818	0	0		T	116718205	T	T	116718205	3	4	161	1	0	0	0	0	1	0	0	0	14344	214	8	5	178	5	SIK3	11	116718205	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	16890473	116718205	18288311	75	88568											
OR6X1	390260	broad.mit.edu	37	chr11	123624910	123624910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggatcaagaactcggtggtgCccacgaagaagtggaagaag	14	5	15	7	2	1	3	1	0	0	3	2	6	1	5	1	4	2	0	1	4	6	0			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:123624910C>T	uc010rzy.1	-	1	317	c.317G>A	c.(316-318)GGC>GAC	p.G106D		NM_001005188	NP_001005188	Q8NH79	OR6X1_HUMAN	olfactory receptor, family 6, subfamily X,	106	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		CTCGGTGGTGCCCACGAAGAA	0.522													8	101					0	0	0.004482	0	0		T	123624910	T	T	123624910	3	4	161	1	0	0	0	0	1	0	0	0	11231	739	26	2	623	2	OR6X1	11	123624910	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	6906705	123624910	11381606	76	88569											
ADAMTS8	11095	broad.mit.edu	37	chr11	130278390	130278390	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagggacccggagaccttccTgcaggagttgcctttgcccc	6	8	13	14	1	0	1	0	0	0	1	1	5	1	3	6	3	3	2	6	3	0	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr11:130278390T>C	uc001qgg.3	-	8	2426	c.2068A>G	c.(2068-2070)AGG>GGG	p.R690G	ADAMTS8_uc001qgf.2_Missense_Mutation_p.R171G	NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	690	Spacer.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		GAGACCTTCCTGCAGGAGTTG	0.512													30	206					0	0	0.008361	0	0		C	130278390	C	C	130278390	3	2	161	1	0	0	0	0	1	0	0	0	272	1579	55	3	609	3	ADAMTS8	11	130278390	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	6653480	130278390	4728126	77	88570											
KCNA6	3742	broad.mit.edu	37	chr12	4920073	4920073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcctgccctagcaagcCggccttcttccggaacatca	7	8	8	18	3	2	0	1	0	1	0	4	1	4	1	6	2	4	1	6	2	3	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr12:4920073C>T	uc001qng.2	+	1	1732	c.866C>T	c.(865-867)CCG>CTG	p.P289L		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	289						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						CCTAGCAAGCCGGCCTTCTTC	0.552										HNSCC(72;0.22)			24	114					0	0	0.003954	0	0		T	4920073	T	T	4920073	3	4	161	1	0	0	0	0	1	0	0	0	8023	652	23	1	868	1	KCNA6	12	4920073	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08		4920073	128931822	78	88571											
TMEM106C	79022	broad.mit.edu	37	chr12	48359740	48359740	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	catcaaagtggtgaaagtcaCatttaataagcaagactccc	16	9	7	9	0	2	2	2	1	0	1	3	2	3	2	1	1	1	1	1	1	5	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr12:48359740C>A	uc001rqp.2	+	4	486	c.371C>A	c.(370-372)ACA>AAA	p.T124K	TMEM106C_uc001rqo.2_Missense_Mutation_p.T124K|TMEM106C_uc001rqr.2_Missense_Mutation_p.T124K|TMEM106C_uc001rqq.2_Missense_Mutation_p.T124K	NM_024056	NP_076961	Q9BVX2	T106C_HUMAN	transmembrane protein 106C isoform a	124						endoplasmic reticulum membrane|integral to membrane					0		Acute lymphoblastic leukemia(13;0.11)		GBM - Glioblastoma multiforme(48;0.241)		GTGAAAGTCACATTTAATAAG	0.488													75	392					5.26073e-25	5.9597e-25	0.01441	1	0		A	48359740	A	A	48359740	3	1	161	1	0	0	0	0	1	0	0	0	16047	478	17	5	381	5	TMEM106C	12	48359740	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	43439667	48359740	85492155	79	88572											
GRIP1	23426	broad.mit.edu	37	chr12	66935616	66935616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagcaattcctccttgcCgcagattagatactcttggc	9	12	8	12	1	1	2	0	0	1	2	3	2	3	2	3	1	4	3	3	1	4	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr12:66935616C>T	uc001stk.2	-	3	492	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	GRIP1_uc010sta.1_Missense_Mutation_p.R28Q|GRIP1_uc001stl.1_Missense_Mutation_p.R28Q|GRIP1_uc001stm.2_Missense_Mutation_p.R84Q	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	84	PDZ 1.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TCCTCCTTGCCGCAGATTAGA	0.463													20	456					0	0	0.008871	0	0		T	66935616	T	T	66935616	3	4	161	1	0	0	0	0	1	0	0	0	6803	652	23	1	3067	1	GRIP1	12	66935616	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	18575876	66935616	66916279	80	88573											
CIT	11113	broad.mit.edu	37	chr12	120271923	120271923	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatcagatgaacgctgtgaAcagccaaaatcagctcagct	14	7	8	12	1	3	3	3	2	0	1	3	3	3	3	2	0	5	3	2	0	4	0	rs75000396		TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr12:120271923A>G	uc001txi.1	-	6	679	c.626T>C	c.(625-627)GTT>GCT	p.V209A	CIT_uc001txj.1_Missense_Mutation_p.V209A	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	209	Protein kinase.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		AACGCTGTGAACAGCCAAAAT	0.443													6	120					0	0	0.001984	0	0		G	120271923	G	G	120271923	3	3	161	1	0	0	0	0	1	0	0	0	3441	43	2	3	5625	3	CIT	12	120271923	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	53336307	120271923	13579972	81	88574											
EP400	57634	broad.mit.edu	37	chr12	132497672	132497672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcattgatgagatgcagcGcgtgaagggcatgaccgaga	11	7	16	7	3	1	5	1	4	0	2	1	7	1	5	1	2	2	2	1	2	1	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr12:132497672G>A	uc001ujn.2	+	16	3595	c.3560G>A	c.(3559-3561)CGC>CAC	p.R1187H	EP400_uc001ujl.2_Missense_Mutation_p.R1186H|EP400_uc001ujm.2_Missense_Mutation_p.R1187H	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1223	Interactions with RUVBL1 and RUVBL2.|Helicase ATP-binding.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GAGATGCAGCGCGTGAAGGGC	0.557													6	41					0	0	0.001168	0	0		A	132497672	A	A	132497672	3	1	161	1	0	0	0	0	1	0	0	0	5157	1087	38	1	3619	1	EP400	12	132497672	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	12225749	132497672	1354223	82	88575											
DDX51	317781	broad.mit.edu	37	chr12	132627302	132627302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgagatgccgtgtgccCgcagctgcttctgcaggtca	7	8	14	12	3	2	1	1	0	1	1	2	3	2	2	2	2	5	4	2	2	0	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr12:132627302C>T	uc001ujy.3	-	3	680	c.641G>A	c.(640-642)CGG>CAG	p.R214Q	NOC4L_uc001ujz.1_5'Flank	NM_175066	NP_778236	Q8N8A6	DDX51_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	214					rRNA processing	nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			lung(1)|pancreas(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.59e-08)|Epithelial(86;3.62e-07)|all cancers(50;2.13e-05)		GCCGTGTGCCCGCAGCTGCTT	0.617													8	102					0	0	0.006214	0	0		T	132627302	T	T	132627302	3	4	161	1	0	0	0	0	1	0	0	0	4372	652	23	1	1411	1	DDX51	12	132627302	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	129630	132627302	1224593	83	88576											
TNFRSF19	55504	broad.mit.edu	37	chr13	24190168	24190168	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccagtgatgccatctgcGgggactgcttgccagggtga	7	8	14	12	1	1	2	0	2	1	0	1	3	1	3	4	3	4	1	4	3	0	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr13:24190168G>A	uc001uov.1	+	4	407	c.343G>A	c.(343-345)GGG>AGG	p.G115R	TNFRSF19_uc001uot.2_Missense_Mutation_p.G115R|TNFRSF19_uc010tcu.1_5'UTR|TNFRSF19_uc001uow.2_Missense_Mutation_p.G115R	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	115	Extracellular (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		TGCCATCTGCGGGGACTGCTT	0.473													14	84					0	0	0.00245	0	0		A	24190168	A	A	24190168	3	1	161	1	0	0	0	0	1	0	0	0	16317	1116	39	1	353	1	TNFRSF19	13	24190168	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08		24190168	90979710	84	88577											
KPNA3	3839	broad.mit.edu	37	chr13	50279772	50279772	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttacctccacattcctctaTtatttcagctattgtgcttg	7	18	4	12	0	2	0	1	0	1	0	4	0	4	0	3	0	3	2	3	0	4	8	rs79884028		TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr13:50279772T>C	uc001vdj.2	-	15	1772	c.1357A>G	c.(1357-1359)ATA>GTA	p.I453V		NM_002267	NP_002258	O00505	IMA3_HUMAN	karyopherin alpha 3	453	ARM 10; atypical.				interspecies interaction between organisms|NLS-bearing substrate import into nucleus|protein complex assembly	cytoplasm|nuclear pore	nuclear localization sequence binding|protein transporter activity				0		Lung NSC(96;2.46e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.42e-09)		CATTCCTCTATTATTTCAGCT	0.383													18	406					0	0	0.008871	0	0		C	50279772	C	C	50279772	3	2	161	1	0	0	0	0	1	0	0	0	8447	1493	52	3	220	3	KPNA3	13	50279772	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	26089604	50279772	64890106	85	88578											
ABCC4	10257	broad.mit.edu	37	chr13	95859004	95859004	+	Missense_Mutation	SNP	A	T	T	1	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	caaattcatccctctgaggcAggaacttctcagaatcttgg	11	11	8	11	0	4	2	2	1	3	1	6	3	5	3	1	3	1	1	1	3	3	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr13:95859004A>T	uc001vmd.3	-	8	1062	c.943T>A	c.(943-945)TGC>AGC	p.C315S	ABCC4_uc010afk.2_Missense_Mutation_p.C315S|ABCC4_uc001vme.2_Missense_Mutation_p.C315S|ABCC4_uc010tih.1_Missense_Mutation_p.C240S|ABCC4_uc001vmf.2_Missense_Mutation_p.C272S|ABCC4_uc010afl.1_Missense_Mutation_p.C272S|ABCC4_uc010afm.1_Missense_Mutation_p.C328S	NM_005845	NP_005836	O15439	MRP4_HUMAN	ATP-binding cassette, sub-family C, member 4	315	ABC transmembrane type-1 1.				platelet activation|platelet degranulation	integral to membrane|membrane fraction|plasma membrane|platelet dense granule membrane	15-hydroxyprostaglandin dehydrogenase (NAD+) activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|chloride channel activity			central_nervous_system(3)|skin(1)	4	all_neural(89;0.0878)|Medulloblastoma(90;0.163)				Cefazolin(DB01327)	CCTCTGAGGCAGGAACTTCTC	0.393													10	367					0	0	0.013726	0	0		T	95859004	T	T	95859004	3	4	161	1	0	0	0	0	1	0	0	0	55	188	7	5	3179	5	ABCC4	13	95859004	Missense_Mutation	SNP	A	TCGA-CG-5734-01A-11D-1600-08	45579232	95859004	19310874	86	88579											
KDELC1	79070	broad.mit.edu	37	chr13	103446097	103446097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggtttcagggcagttcatctCccgtagccaggctgcactat	7	11	11	12	1	3	0	2	0	1	0	4	0	3	0	2	3	2	6	2	3	2	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr13:103446097C>T	uc001vpq.3	-	3	832	c.448G>A	c.(448-450)GAG>AAG	p.E150K	KDELC1_uc001vpr.3_5'UTR	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	150						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CAGTTCATCTCCCGTAGCCAG	0.438													29	296					0	0	0.010818	0	0		T	103446097	T	T	103446097	3	4	161	1	0	0	0	0	1	0	0	0	8133	864	30	4	1092	4	KDELC1	13	103446097	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	7587093	103446097	11723781	87	88580											
OR4L1	122742	broad.mit.edu	37	chr14	20529107	20529107	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaggccataagaaaattaCggttccaatatgttagttct	15	12	8	6	1	1	2	0	0	1	2	2	2	2	2	2	2	1	3	2	2	8	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr14:20529107C>T	uc001vwn.1	+	1	904	c.904C>T	c.(904-906)CGG>TGG	p.R302W		NM_001004717	NP_001004717	Q8NH43	OR4L1_HUMAN	olfactory receptor, family 4, subfamily L,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.R302L(1)		ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		AAGAAAATTACGGTTCCAATA	0.303													11	126					0	0	0.013537	0	0		T	20529107	T	T	20529107	3	4	161	1	0	0	0	0	1	0	0	0	11093	527	19	1	906	1	OR4L1	14	20529107	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08		20529107	86820433	88	88581											
ZFYVE26	23503	broad.mit.edu	37	chr14	68244307	68244307	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catacagcgcctggatttcaCggtgtcggacagcagtcagt	9	9	12	11	3	2	0	2	0	0	0	3	2	2	2	1	3	3	1	1	3	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr14:68244307C>T	uc001xka.2	-	25	5082	c.4943G>A	c.(4942-4944)CGT>CAT	p.R1648H	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Missense_Mutation_p.R1648H	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1648					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		CTGGATTTCACGGTGTCGGAC	0.532													4	117					0	0	0.000602	0	0		T	68244307	T	T	68244307	3	4	161	1	0	0	0	0	1	0	0	0	17693	536	19	1	2748	1	ZFYVE26	14	68244307	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	47715200	68244307	39105233	89	88582											
SPTBN5	51332	broad.mit.edu	37	chr15	42143986	42143986	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcactcacctgcctcccGccaggcagcaggtgctgctt	6	7	11	17	1	1	0	1	0	0	0	2	0	2	0	4	3	4	5	4	3	0	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr15:42143986G>A	uc001zos.2	-	63	10875	c.10542C>T	c.(10540-10542)GGC>GGT	p.G3514G		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	3549	PH.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		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)		CCTGCCTCCCGCCAGGCAGCA	0.597													6	70					0	0	0.001168	0	0		A	42143986	A	A	42143986	2	1	161	1	0	0	0	0	0	0	0	1	15147	1074	38	1		1	SPTBN5	15	42143986	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08		42143986	60387406	90	88583											
ADAM10	102	broad.mit.edu	37	chr15	58920052	58920052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgacccaaattcttagattCtcctggtgtgcactctgttc	7	16	7	11	0	3	2	0	1	3	1	5	2	3	2	2	1	1	2	2	1	2	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr15:58920052C>T	uc002afd.1	-	10	1651	c.1207G>A	c.(1207-1209)GAA>AAA	p.E403K	ADAM10_uc010bgc.1_RNA|ADAM10_uc010ugz.1_Missense_Mutation_p.E102K|ADAM10_uc002afe.1_Intron	NM_001110	NP_001101	O14672	ADA10_HUMAN	ADAM metallopeptidase domain 10 precursor	403	Peptidase M12B.|Extracellular (Potential).				cell-cell signaling|constitutive protein ectodomain proteolysis|epidermal growth factor receptor signaling pathway|in utero embryonic development|integrin-mediated signaling pathway|monocyte activation|negative regulation of cell adhesion|Notch receptor processing|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of T cell chemotaxis|protein phosphorylation|response to tumor necrosis factor	cell surface|endomembrane system|Golgi-associated vesicle|integral to membrane|nucleus|plasma membrane	integrin binding|metalloendopeptidase activity|protein homodimerization activity|protein kinase binding|SH3 domain binding|zinc ion binding			skin(2)	2				GBM - Glioblastoma multiforme(80;0.202)		TTCTTAGATTCTCCTGGTGTG	0.348													12	155					0	0	0.001855	0	0		T	58920052	T	T	58920052	3	4	161	1	0	0	0	0	1	0	0	0	234	922	32	4	1067	4	ADAM10	15	58920052	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	16776066	58920052	43611340	91	88584											
BTBD12	84464	broad.mit.edu	37	chr16	3639390	3639390	+	Missense_Mutation	SNP	T	C	C	0	1	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	aattggaattggggggtcacTgtccagtggggggcttctgt	6	12	17	6	0	2	0	1	0	1	0	3	1	3	1	1	7	0	1	1	7	2	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr16:3639390T>C	uc002cvp.2	-	12	4876	c.4249A>G	c.(4249-4251)AGT>GGT	p.S1417G		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1417	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						GGGGGGTCACTGTCCAGTGGG	0.622								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				10	119					0	0	0.008291	0	0		C	3639390	C	C	3639390	3	2	161	1	0	0	0	0	1	0	0	0	1543	1580	55	3	1271	3	BTBD12	16	3639390	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08		3639390	86715363	92	88585											
BTBD12	84464	broad.mit.edu	37	chr16	3640449	3640449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcccacctgggaagttcCgccacgggaccggggtgttg	6	6	17	12	3	0	0	0	0	0	0	1	3	1	3	5	5	1	2	5	5	1	2	rs142079276	byFrequency	TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr16:3640449C>T	uc002cvp.2	-	12	3817	c.3190G>A	c.(3190-3192)GGA>AGA	p.G1064R		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1064	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						TGGGAAGTTCCGCCACGGGAC	0.637								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				5	191					0	0	0.001168	0	0		T	3640449	T	T	3640449	3	4	161	1	0	0	0	0	1	0	0	0	1543	661	23	1	2330	1	BTBD12	16	3640449	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	1059	3640449	86714304	93	88586											
NOMO1	23420	broad.mit.edu	37	chr16	14970589	14970589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagggctatgttctgactgCggtggaaggaaccatcggag	9	8	17	7	2	1	1	0	1	1	0	2	5	1	5	1	6	2	2	1	6	3	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr16:14970589C>T	uc002dcv.2	+	22	2651	c.2585C>T	c.(2584-2586)GCG>GTG	p.A862V		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	862	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						GTTCTGACTGCGGTGGAAGGA	0.473													47	579					0	0	0.011902	0	0		T	14970589	T	T	14970589	3	4	161	1	0	0	0	0	1	0	0	0	10550	768	27	1	2671	1	NOMO1	16	14970589	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	11330140	14970589	75384164	94	88587											
SRCAP	10847	broad.mit.edu	37	chr16	30750658	30750658	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctggacttagcagatagCgggccaggcgggttggaatt	9	8	16	8	2	0	1	0	0	0	1	0	4	0	3	2	5	2	2	2	5	3	4	rs146224299		TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr16:30750658C>T	uc002dze.1	+	34	9682	c.9297C>T	c.(9295-9297)AGC>AGT	p.S3099S	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Silent_p.S2894S	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	3099					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			TAGCAGATAGCGGGCCAGGCG	0.592													6	66					0	0	0.001168	0	0		T	30750658	T	T	30750658	2	4	161	1	0	0	0	0	0	0	0	1	15160	767	27	1		1	SRCAP	16	30750658	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	15780069	30750658	59604095	95	88588											
PYCARD	29108	broad.mit.edu	37	chr16	31213016	31213016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgaaactgaagagcttccGcatcttgcttgggttggtgg	7	13	14	7	1	1	3	0	2	1	1	2	3	2	3	1	3	3	4	1	3	2	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr16:31213016G>A	uc010cak.2	-	3	718	c.478C>T	c.(478-480)CGG>TGG	p.R160W	PYCARD_uc002ebm.2_Missense_Mutation_p.R141W	NM_013258	NP_037390	Q9ULZ3	ASC_HUMAN	PYD and CARD domain containing isoform a	160	CARD.				induction of apoptosis|positive regulation of interleukin-1 beta secretion|positive regulation of NF-kappaB transcription factor activity|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex	caspase activator activity|cysteine-type endopeptidase activity|protein homodimerization activity|Pyrin domain binding				0						AAGAGCTTCCGCATCTTGCTT	0.597													14	108					0	0	0.001855	0	0		A	31213016	A	A	31213016	3	1	161	1	0	0	0	0	1	0	0	0	12879	1086	38	1	113	1	PYCARD	16	31213016	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	462358	31213016	59141737	96	88589											
DYNC1LI2	1783	broad.mit.edu	37	chr16	66759770	66759770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgcaccccaccagcaccagGacttccaggagagcctgtct	9	6	9	17	0	1	1	0	0	1	1	2	3	2	2	6	2	3	2	6	2	0	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr16:66759770G>A	uc002eqb.1	-	12	1370	c.1339C>T	c.(1339-1341)CCT>TCT	p.P447S	DYNC1LI2_uc010vis.1_Missense_Mutation_p.P370S	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	447					transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)		CCAGCACCAGGACTTCCAGGA	0.488													19	255					0	0	0.007413	0	0		A	66759770	A	A	66759770	3	1	161	1	0	0	0	0	1	0	0	0	4851	1174	41	4	147	4	DYNC1LI2	16	66759770	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	35546754	66759770	23594983	97	88590											
ELMO3	79767	broad.mit.edu	37	chr16	67237416	67237416	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggacctctatgagttggCcttctcaatcagctatgacc	9	11	8	13	0	3	2	2	2	2	0	4	3	3	3	4	2	1	2	4	2	3	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr16:67237416C>A	uc002esa.2	+	19	2082	c.2039C>A	c.(2038-2040)GCC>GAC	p.A680D	ELMO3_uc002esb.2_Missense_Mutation_p.A663D|ELMO3_uc002esc.2_Missense_Mutation_p.A514D|uc010vjf.1_5'Flank|MIR328_hsa-mir-328|MI0000804_5'Flank	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3	627	PH.				apoptosis|phagocytosis	cytoplasm|cytoskeleton	SH3 domain binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		TATGAGTTGGCCTTCTCAATC	0.647													4	70					0.00024832	0.00026122	0.009096	1	0		A	67237416	A	A	67237416	3	1	161	1	0	0	0	0	1	0	0	0	5075	739	26	5	2113	5	ELMO3	16	67237416	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	477646	67237416	23117337	98	88591											
MYH10	4628	broad.mit.edu	37	chr17	8390909	8390909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctccgcctcgagctcccGcacctaatggacaacatcgg	9	6	9	17	4	0	0	0	0	0	0	4	2	2	1	4	2	3	3	4	2	2	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr17:8390909G>A	uc002gll.2	-	34	4891	c.4795C>T	c.(4795-4797)CGG>TGG	p.R1599W	MYH10_uc002glm.2_Missense_Mutation_p.R1630W|MYH10_uc010cnx.2_Missense_Mutation_p.R1608W	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1599	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TCGAGCTCCCGCACCTAATGG	0.547													42	254					0	0	0.010771	0	0		A	8390909	A	A	8390909	3	1	161	1	0	0	0	0	1	0	0	0	10048	1086	38	1	1167	1	MYH10	17	8390909	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08		8390909	72804301	99	88592											
MYH10	4628	broad.mit.edu	37	chr17	8508154	8508154	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccaattaccttgaagcatGcatctgtaagcagattcaga	13	12	7	9	0	2	3	1	1	1	2	3	3	3	3	2	0	4	4	2	0	4	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr17:8508154G>A	uc002gll.2	-	3	588	c.492C>T	c.(490-492)TGC>TGT	p.C164C	MYH10_uc002glm.2_Silent_p.C164C|MYH10_uc010cnx.2_Silent_p.C164C	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	164	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CTTGAAGCATGCATCTGTAAG	0.313													6	183					0	0	0.001984	0	0		A	8508154	A	A	8508154	2	1	161	1	0	0	0	0	0	0	0	1	10048	1311	46	2		2	MYH10	17	8508154	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08	117245	8508154	72687056	100	88593											
MYO1D	4642	broad.mit.edu	37	chr17	30932207	30932207	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggtctttgttgtctttcGtatggaacactacaagttgg	8	16	11	6	1	2	1	0	1	2	0	3	2	2	2	0	3	2	3	0	3	4	6			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr17:30932207G>C	uc002hho.1	-	21	2774	c.2762C>G	c.(2761-2763)ACG>AGG	p.T921R	MYO1D_uc002hhp.1_Missense_Mutation_p.T921R	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	921						myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			GTTGTCTTTCGTATGGAACAC	0.423													3	119					0	0	0.004672	0	0		C	30932207	C	C	30932207	3	2	161	1	0	0	0	0	1	0	0	0	10089	1145	40	5	266	5	MYO1D	17	30932207	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	22424053	30932207	50263003	101	88594											
TBX21	30009	broad.mit.edu	37	chr17	45822578	45822578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagattgcccccatccggcCggaatccagtgattcaggac	9	8	11	13	2	1	2	1	2	0	1	3	5	3	4	5	3	1	0	5	3	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr17:45822578C>T	uc002ilv.1	+	6	1665	c.1454C>T	c.(1453-1455)CCG>CTG	p.P485L		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	485					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						CCCATCCGGCCGGAATCCAGT	0.657													9	53					0	0	0.008291	0	0		T	45822578	T	T	45822578	3	4	161	1	0	0	0	0	1	0	0	0	15682	652	23	1	1476	1	TBX21	17	45822578	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	14890371	45822578	35372632	102	88595											
ITGA3	3675	broad.mit.edu	37	chr17	48155636	48155636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggactatacactccagaCctcgcttagcatgtgggtac	9	10	11	11	1	0	1	0	0	0	1	2	2	1	2	2	3	3	3	2	3	4	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr17:48155636C>T	uc010dbl.2	+	18	2749	c.2285C>T	c.(2284-2286)ACC>ATC	p.T762I	ITGA3_uc010dbm.2_Missense_Mutation_p.T762I	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	762	Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						ACACTCCAGACCTCGCTTAGC	0.577													6	101					0	0	0.001168	0	0		T	48155636	T	T	48155636	3	4	161	1	0	0	0	0	1	0	0	0	7893	507	18	4	2355	4	ITGA3	17	48155636	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	2333058	48155636	33039574	103	88596											
CDH2	1000	broad.mit.edu	37	chr18	25573520	25573520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atctgtcactgtgatgacggCcgtggctgtgtttgaaaggc	7	12	14	8	2	2	3	1	3	1	0	2	3	2	3	1	3	0	2	1	3	1	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr18:25573520C>T	uc002kwg.2	-	8	1561	c.1102G>A	c.(1102-1104)GCC>ACC	p.A368T	CDH2_uc010xbn.1_Missense_Mutation_p.A337T	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	368	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						GTGATGACGGCCGTGGCTGTG	0.438													7	333					0	0	0.00308	0	0		T	25573520	T	T	25573520	3	4	161	1	0	0	0	0	1	0	0	0	3108	739	26	2	1654	2	CDH2	18	25573520	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08		25573520	52503728	104	88597											
NFATC1	4772	broad.mit.edu	37	chr18	77246937	77246937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagttgtacctggatgacGgtgagtgcccgcagccatgc	8	8	13	12	2	0	2	0	2	0	0	0	3	0	3	4	2	4	3	4	2	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr18:77246937G>A	uc010xfg.1	+	9	3235	c.2782G>A	c.(2782-2784)GTA>ATA	p.V928I	NFATC1_uc002lnd.2_Intron|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Missense_Mutation_p.V456I|NFATC1_uc002lnf.2_Missense_Mutation_p.V915I|NFATC1_uc002lng.2_Intron|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	928	Nuclear export signal.|Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCTGGATGACGGTGAGTGCCC	0.617													6	51					0	0	0.001168	0	0		A	77246937	A	A	77246937	3	1	161	1	0	0	0	0	1	0	0	0	10380	1130	39	1	2967	1	NFATC1	18	77246937	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	51673417	77246937	830311	105	88598											
ELAVL1	1994	broad.mit.edu	37	chr19	8028580	8028580	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctgccagaggatcccctcGtcggcatcctgccccaggtt	6	9	10	16	2	1	1	0	0	1	1	5	2	3	2	6	3	2	2	6	3	0	1	rs145371492	by1000genomes	TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr19:8028580G>A	uc002mjb.2	-	6	935	c.768C>T	c.(766-768)GAC>GAT	p.D256D		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	256	RRM 3.				3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						GGATCCCCTCGTCGGCATCCT	0.572													5	77					0	0	0.001168	0	0		A	8028580	A	A	8028580	2	1	161	1	0	0	0	0	0	0	0	1	5057	1136	40	1		1	ELAVL1	19	8028580	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08		8028580	51100403	106	88599											
MUC16	94025	broad.mit.edu	37	chr19	9047614	9047614	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gcctctgattcatgtggggaCtcaggcactgttggaaaagt	9	11	13	8	0	3	1	2	1	1	0	3	3	3	3	1	4	0	2	1	4	2	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr19:9047614C>A	uc002mkp.2	-	5	34221	c.34017G>T	c.(34015-34017)GAG>GAT	p.E11339D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11341	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CATGTGGGGACTCAGGCACTG	0.483													30	231					1.06801e-11	1.19323e-11	0.009535	1	0		A	9047614	A	A	9047614	3	1	161	1	0	0	0	0	1	0	0	0	9991	564	20	5	9826	5	MUC16	19	9047614	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	1019034	9047614	50081369	107	88600											
ZNF823	55552	broad.mit.edu	37	chr19	11832637	11832637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgagttttttcatgtcctCgaaggaaacgggaacgagtg	10	12	13	6	3	1	1	1	1	0	0	3	5	2	3	1	2	2	1	1	2	3	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr19:11832637C>T	uc002msm.2	-	4	1838	c.1712G>A	c.(1711-1713)CGA>CAA	p.R571Q	ZNF823_uc010xmd.1_Missense_Mutation_p.R389Q|ZNF823_uc010dyi.1_Missense_Mutation_p.R527Q	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	571	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTCATGTCCTCGAAGGAAACG	0.433										HNSCC(68;0.2)			18	161					0	0	0.007413	0	0		T	11832637	T	T	11832637	3	4	161	1	0	0	0	0	1	0	0	0	18204	884	31	1	124	1	ZNF823	19	11832637	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	2785023	11832637	47296346	108	88601											
LRRC4B	94030	broad.mit.edu	37	chr19	51021776	51021776	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtcatgagggtgccgttgggCgtcagccagttgacggaggt	6	9	18	8	3	2	2	2	2	0	0	2	3	2	3	2	4	2	2	2	4	0	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr19:51021776C>T	uc002pss.2	-	3	1331	c.1194G>A	c.(1192-1194)ACG>ACA	p.T398T		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	398	Extracellular (Potential).|Ig-like C2-type.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TGCCGTTGGGCGTCAGCCAGT	0.647													5	27					0	0	0.000602	0	0		T	51021776	T	T	51021776	2	4	161	1	0	0	0	0	0	0	0	1	9025	755	27	1		1	LRRC4B	19	51021776	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	39189139	51021776	8107207	109	88602											
NLRP5	126206	broad.mit.edu	37	chr19	56552381	56552381	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacacctgtgcctatccaaCaacagcctggggaacgaagg	13	5	10	13	1	0	0	0	0	0	0	1	2	1	1	4	3	5	0	4	3	5	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr19:56552381C>A	uc002qmj.2	+	11	2880	c.2880C>A	c.(2878-2880)AAC>AAA	p.N960K	NLRP5_uc002qmi.2_Missense_Mutation_p.N941K	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	960	LRR 8.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		GCCTATCCAACAACAGCCTGG	0.577													4	211					0.00024832	0.00026122	0.009096	1	0		A	56552381	A	A	56552381	3	1	161	1	0	0	0	0	1	0	0	0	10499	477	17	5	2922	5	NLRP5	19	56552381	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08	5530605	56552381	2576602	110	88603											
PREX1	57580	broad.mit.edu	37	chr20	47276504	47276504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccagcttgaagtcgttgcGaagctgtttgttcttgctgc	6	14	11	10	2	1	1	0	1	1	0	2	2	1	1	1	0	5	6	1	0	2	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr20:47276504G>A	uc002xtw.1	-	16	1857	c.1834C>T	c.(1834-1836)CGC>TGC	p.R612C		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	612					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			AAGTCGTTGCGAAGCTGTTTG	0.577													4	107					0	0	0.001168	0	0		A	47276504	A	A	47276504	3	1	161	1	0	0	0	0	1	0	0	0	12498	1058	37	1	3245	1	PREX1	20	47276504	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08		47276504	15749016	111	88604											
APP	351	broad.mit.edu	37	chr21	27372462	27372462	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgggagatcattgctcGgcacggccccgtctcggctt	5	8	13	15	5	2	1	1	0	1	1	4	2	2	1	3	4	2	3	3	4	0	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr21:27372462G>T	uc002ylz.2	-	7	1101	c.901C>A	c.(901-903)CGA>AGA	p.R301R	APP_uc010glk.2_Silent_p.R296R|APP_uc002yma.2_Silent_p.R301R|APP_uc011ach.1_Silent_p.R245R|APP_uc002ymb.2_Intron|APP_uc010glj.2_Intron|APP_uc011aci.1_Intron	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	301	Extracellular (Potential).|BPTI/Kunitz inhibitor.	Reactive bond.			adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				ATCATTGCTCGGCACGGCCCC	0.517													3	70					0.004672	0.00488299	0.004672	1	0		T	27372462	T	T	27372462	2	4	161	1	0	0	0	0	0	0	0	1	815	1124	39	5		5	APP	21	27372462	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08		27372462	20757433	112	88605											
GRIK1	2897	broad.mit.edu	37	chr21	31015233	31015233	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgacggtcagctgggatgcCcggtgcgaggcaatggccac	7	6	16	12	3	1	1	1	1	0	0	1	3	1	2	2	5	3	2	2	5	1	0			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr21:31015233C>T	uc002yno.1	-	7	1475	c.1011G>A	c.(1009-1011)CGG>CGA	p.R337R	GRIK1_uc002ynn.2_Silent_p.R337R|GRIK1_uc011acs.1_Silent_p.R337R|GRIK1_uc011act.1_Silent_p.R281R|GRIK1_uc010glq.1_Silent_p.R195R|GRIK1_uc002ynr.2_Silent_p.R337R	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	337	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GCTGGGATGCCCGGTGCGAGG	0.532													8	84					0	0	0.008291	0	0		T	31015233	T	T	31015233	2	4	161	1	0	0	0	0	0	0	0	1	6789	610	22	4		4	GRIK1	21	31015233	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	3642771	31015233	17114662	113	88606											
KLHL22	84861	broad.mit.edu	37	chr22	20819530	20819530	+	Missense_Mutation	SNP	T	C	C	0	1	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	catcagcggaaaccgcactgTctcaaggagctttgggggct	9	8	13	11	2	2	0	2	0	1	0	3	2	2	2	1	4	3	3	1	4	2	1			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr22:20819530T>C	uc002zsl.1	-	4	836	c.727A>G	c.(727-729)ACA>GCA	p.T243A	KLHL22_uc011ahr.1_Missense_Mutation_p.T100A|KLHL22_uc002zsm.1_Missense_Mutation_p.T243A	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	243					cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			AACCGCACTGTCTCAAGGAGC	0.602													3	40					0	0	0.004672	0	0		C	20819530	C	C	20819530	3	2	161	1	0	0	0	0	1	0	0	0	8393	1667	58	3	1193	3	KLHL22	22	20819530	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08		20819530	30485036	114	88607											
GGT5	2687	broad.mit.edu	37	chr22	24621533	24621533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtgagggggtggtgccGgaaccccgggggcatcgctc	5	5	19	12	3	0	1	0	1	0	0	2	2	0	2	4	7	2	2	4	7	1	0			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr22:24621533G>A	uc002zzo.3	-	9	1734	c.1317C>T	c.(1315-1317)TCC>TCT	p.S439S	GGT5_uc002zzp.3_Silent_p.S439S|GGT5_uc002zzr.3_Silent_p.S407S|GGT5_uc002zzq.3_Silent_p.S407S|GGT5_uc011ajm.1_Silent_p.S362S	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b	439	Extracellular (Potential).				glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						GGGTGGTGCCGGAACCCCGGG	0.647													3	27					0	0	0.004672	0	0		A	24621533	A	A	24621533	2	1	161	1	0	0	0	0	0	0	0	1	6377	1103	39	1		1	GGT5	22	24621533	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08	3802003	24621533	26683033	115	88608											
APOL6	80830	broad.mit.edu	37	chr22	36054692	36054692	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacgctcctctgtgtgaagaCgtggagctacaagacggaga	11	7	14	9	3	1	4	0	1	1	3	2	7	2	5	1	2	2	2	1	2	3	1	rs140682432		TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chr22:36054692C>T	uc003aoe.2	+	3	375	c.81C>T	c.(79-81)GAC>GAT	p.D27D	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	27					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						TGTGTGAAGACGTGGAGCTAC	0.438													5	81					0	0	0.000602	0	0		T	36054692	T	T	36054692	2	4	161	1	0	0	0	0	0	0	0	1	810	535	19	1		1	APOL6	22	36054692	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	11433159	36054692	15249874	116	88609											
CLCN5	1184	broad.mit.edu	37	chrX	49854898	49854898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggtggcagatgctcttgggCgggagggcatctatgatgcc	6	9	18	8	1	2	2	0	1	2	1	2	3	2	3	1	5	2	3	1	5	1	2			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chrX:49854898C>T	uc004dos.1	+	10	1908	c.1660C>T	c.(1660-1662)CGG>TGG	p.R554W	CLCN5_uc004dor.1_Missense_Mutation_p.R624W|CLCN5_uc004doq.1_Missense_Mutation_p.R624W|CLCN5_uc004dot.1_Missense_Mutation_p.R554W	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	554	Cytoplasmic (By similarity).				excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					TGCTCTTGGGCGGGAGGGCAT	0.488													28	99					0	0	0.003755	0	0		T	49854898	T	T	49854898	3	4	161	1	0	0	0	0	1	0	0	0	3469	759	27	1	1912	1	CLCN5	23	49854898	Missense_Mutation	SNP	C	TCGA-CG-5734-01A-11D-1600-08		49854898	105415662	117	88610											
ZCCHC5	203430	broad.mit.edu	37	chrX	77912678	77912678	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttggttttcagctggtggacTctcgggtccatctccctctg	3	15	11	12	1	4	0	1	0	3	0	7	1	5	1	2	4	1	2	2	4	0	3			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chrX:77912678T>A	uc004edc.1	-	2	1536	c.1240A>T	c.(1240-1242)AGT>TGT	p.S414C		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	414							nucleic acid binding|zinc ion binding			ovary(1)	1						GCTGGTGGACTCTCGGGTCCA	0.517													13	115					0	0	0.00245	0	0		A	77912678	A	A	77912678	3	1	161	1	0	0	0	0	1	0	0	0	17616	1551	54	5	191	5	ZCCHC5	23	77912678	Missense_Mutation	SNP	T	TCGA-CG-5734-01A-11D-1600-08	28057780	77912678	77357882	118	88611											
BRWD3	254065	broad.mit.edu	37	chrX	79932138	79932138	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catcccatgagatggctaacCctggctttttctgtcatttt	7	16	7	11	0	2	1	1	1	1	1	3	2	3	1	2	2	1	2	2	2	1	5			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chrX:79932138C>T	uc004edt.2	-	41	5642	c.5379G>A	c.(5377-5379)AGG>AGA	p.R1793R	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Silent_p.R1389R|BRWD3_uc004edp.2_Silent_p.R1622R|BRWD3_uc004edq.2_Silent_p.R1389R|BRWD3_uc010nmj.1_Silent_p.R1389R|BRWD3_uc004edr.2_Silent_p.R1463R|BRWD3_uc004eds.2_Silent_p.R1389R|BRWD3_uc004edu.2_Silent_p.R1463R|BRWD3_uc004edv.2_Silent_p.R1389R|BRWD3_uc004edw.2_Silent_p.R1389R|BRWD3_uc004edx.2_Silent_p.R1389R|BRWD3_uc004edy.2_Silent_p.R1389R|BRWD3_uc004edz.2_Silent_p.R1463R|BRWD3_uc004eea.2_Silent_p.R1463R|BRWD3_uc004eeb.2_Silent_p.R1389R|uc004edn.1_5'Flank	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	1793										ovary(4)	4						GATGGCTAACCCTGGCTTTTT	0.368													5	82					0	0	0.001168	0	0		T	79932138	T	T	79932138	2	4	161	1	0	0	0	0	0	0	0	1	1529	622	22	4		4	BRWD3	23	79932138	Silent	SNP	C	TCGA-CG-5734-01A-11D-1600-08	2019460	79932138	75338422	119	88612											
GPR112	139378	broad.mit.edu	37	chrX	135455081	135455081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattctgaggataattgagcGtactggtcacaagatggagt	13	11	12	5	1	2	3	1	2	1	1	2	5	2	5	0	3	2	1	0	3	4	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chrX:135455081G>A	uc004ezu.1	+	15	7925	c.7634G>A	c.(7633-7635)CGT>CAT	p.R2545H	GPR112_uc010nsb.1_Missense_Mutation_p.R2340H	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	2545	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					ATAATTGAGCGTACTGGTCAC	0.488													8	246					0	0	0.004482	0	0		A	135455081	A	A	135455081	3	1	161	1	0	0	0	0	1	0	0	0	6644	1145	40	1	7680	1	GPR112	23	135455081	Missense_Mutation	SNP	G	TCGA-CG-5734-01A-11D-1600-08	55522943	135455081	19815479	120	88613											
G6PD	2539	broad.mit.edu	37	chrX	153760800	153760800	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accttgtatctgttgccgtaGgtcaggtccagctccgactc	6	12	10	13	2	2	0	1	0	1	0	5	1	4	0	4	2	2	4	4	2	2	4			TCGA-CG-5734-01A-11D-1600-08	TCGA-CG-5734-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	fcf304f6-27f0-4e97-a070-78478cfb3f71	660f9d0f-0fc5-4eb7-b45e-561e05600357	g.chrX:153760800G>A	uc004fly.1	-	10	1382	c.1269C>T	c.(1267-1269)ACC>ACT	p.T423T	G6PD_uc004flx.1_Silent_p.T453T	NM_001042351	NP_001035810	P11413	G6PD_HUMAN	glucose-6-phosphate dehydrogenase isoform b	423					cellular response to oxidative stress|cholesterol biosynthetic process|cytokine production|erythrocyte maturation|glucose 6-phosphate metabolic process|glutathione metabolic process|negative regulation of protein glutathionylation|pentose-phosphate shunt, oxidative branch|ribose phosphate biosynthetic process	centrosome|cytosol|internal side of plasma membrane|intracellular membrane-bounded organelle	glucose binding|glucose-6-phosphate dehydrogenase activity|NADP binding|protein homodimerization activity			ovary(4)	4	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)					TGTTGCCGTAGGTCAGGTCCA	0.622													16	107					0	0	0.006122	0	0		A	153760800	A	A	153760800	2	1	161	1	0	0	0	0	0	0	0	1	6160	987	35	4		4	G6PD	23	153760800	Silent	SNP	G	TCGA-CG-5734-01A-11D-1600-08	18305719	153760800	1509760	121	88614											
CA6	765	broad.mit.edu	37	chr1	9009453	9009453	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggctcaatatgacaggcTatgagacccaggcaggggag	12	5	16	8	0	1	2	1	2	0	1	1	4	1	3	1	6	0	3	1	6	3	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:9009453T>A	uc001apm.2	+	2	235	c.211T>A	c.(211-213)TAT>AAT	p.Y71N	CA6_uc009vmn.2_Intron	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	71					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		TATGACAGGCTATGAGACCCA	0.607													17	51					0	0	0.500413	0	0		A	9009453	A	A	9009453	3	1	162	1	0	0	0	0	1	0	0	0	2524	1522	53	5	217	5	CA6	1	9009453	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08		9009453	240241168	1	88615											
PADI3	51702	broad.mit.edu	37	chr1	17601163	17601163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttacgtgactcgggaaccaCgcgacaggtctgtgagtggc	8	8	15	10	4	1	2	0	2	1	0	2	4	1	3	1	3	2	1	1	3	2	1	rs139324096	by1000genomes	TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:17601163C>T	uc001bai.2	+	11	1229	c.1189C>T	c.(1189-1191)CGC>TGC	p.R397C		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	397					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TCGGGAACCACGCGACAGGTC	0.602											OREG0013148	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	54					0	0	0.681144	0	0		T	17601163	T	T	17601163	3	4	162	1	0	0	0	0	1	0	0	0	11398	536	19	1	1231	1	PADI3	1	17601163	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	8591710	17601163	231649458	2	88616											
HSPG2	3339	broad.mit.edu	37	chr1	22178378	22178378	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagacgtactgtcccgcatcGgcaggtgaggcctggaagat	9	7	14	11	3	0	3	0	1	0	2	2	4	1	4	2	4	1	3	2	4	2	1	rs145299929		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:22178378G>A	uc001bfj.2	-	54	6952	c.6912C>T	c.(6910-6912)GCC>GCT	p.A2304A	HSPG2_uc009vqd.2_Silent_p.A2305A	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2304	Ig-like C2-type 8.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GTCCCGCATCGGCAGGTGAGG	0.657													12	15					0	0	0.479597	0	0		A	22178378	A	A	22178378	2	1	162	1	0	0	0	0	0	0	0	1	7446	1103	39	1		1	HSPG2	1	22178378	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	4577215	22178378	227072243	3	88617											
MAN1C1	57134	broad.mit.edu	37	chr1	26104716	26104716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctccgggggcatgatcGcccttggcgccgaggatgcc	4	9	15	13	4	1	1	0	1	1	0	3	3	1	2	4	4	1	2	4	4	0	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:26104716G>A	uc001bkm.2	+	9	1708	c.1378G>A	c.(1378-1380)GCC>ACC	p.A460T	MAN1C1_uc009vry.1_Missense_Mutation_p.A280T|MAN1C1_uc001bkn.2_5'Flank	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	460	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		GGGCATGATCGCCCTTGGCGC	0.627													30	50					0	0	0.750413	0	0		A	26104716	A	A	26104716	3	1	162	1	0	0	0	0	1	0	0	0	9231	1087	38	1	1412	1	MAN1C1	1	26104716	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	3926338	26104716	223145905	4	88618											
ARID1A	8289	broad.mit.edu	37	chr1	27101054	27101054	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagctgctactgagcgcCgaccagcaggcggcccccag	8	3	12	18	3	0	1	0	1	0	0	0	2	0	1	5	2	5	3	5	2	1	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:27101054C>T	uc001bmv.1	+	18	4709	c.4336C>T	c.(4336-4338)CGA>TGA	p.R1446*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.R1445*|ARID1A_uc001bmu.1_Intron|ARID1A_uc001bmw.1_Nonsense_Mutation_p.R1063*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.R292*|ARID1A_uc009vsm.1_Intron|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1446					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TACTGAGCGCCGACCAGCAGG	0.587			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								30	79					0	0	0.834066	0	0		T	27101054	T	T	27101054	4	4	162	1	0	0	0	0	0	1	0	0	913	644	23	1	4406	1	ARID1A	1	27101054	Nonsense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	996338	27101054	222149567	5	88619											
KIAA0754	643314	broad.mit.edu	37	chr1	39876123	39876123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagacttcaaaaagcaccatGgaaaagatggaaggaagtac	19	5	10	7	0	1	2	1	0	0	2	1	5	1	5	1	3	2	2	1	3	7	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:39876123G>A	uc009vvt.1	+	1	948	c.186G>A	c.(184-186)ATG>ATA	p.M62I	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	Error:Variant_position_missing_in_O94854_after_alignment											0	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)			AAAGCACCATGGAAAAGATGG	0.408													39	91					0	0	0.812448	0	0		A	39876123	A	A	39876123	3	1	162	1	0	0	0	0	1	0	0	0	8208	1348	47	4	188	4	KIAA0754	1	39876123	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	12775069	39876123	209374498	6	88620											
TGFBR3	7049	broad.mit.edu	37	chr1	92184966	92184966	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagtgtgtgccattcatcTtggccttgcaggtaggatcc	8	12	11	10	0	2	0	1	0	1	0	3	1	3	1	3	3	2	2	3	3	2	4	rs138396794		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:92184966T>G	uc001doh.2	-	10	1935	c.1469A>C	c.(1468-1470)AAG>ACG	p.K490T	TGFBR3_uc009wde.2_Missense_Mutation_p.K267T|TGFBR3_uc010osy.1_Missense_Mutation_p.K448T|TGFBR3_uc001doi.2_Missense_Mutation_p.K489T|TGFBR3_uc001doj.2_Missense_Mutation_p.K489T	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	490	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		GCCATTCATCTTGGCCTTGCA	0.552													49	108					0	0	0.870114	0	0		G	92184966	G	G	92184966	3	3	162	1	0	0	0	0	1	0	0	0	15848	1609	56	5	1118	5	TGFBR3	1	92184966	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	52308843	92184966	157065655	7	88621											
PALMD	54873	broad.mit.edu	37	chr1	100152261	100152261	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagatccaagatcttgaaaAagctgaactgcaaatctcaa	18	8	7	8	0	2	4	1	2	2	2	4	5	3	4	1	0	3	2	1	0	6	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:100152261A>C	uc001dsg.2	+	4	724	c.281A>C	c.(280-282)AAA>ACA	p.K94T	PALMD_uc001dsf.2_Missense_Mutation_p.K94T	NM_017734	NP_060204	Q9NP74	PALMD_HUMAN	palmdelphin	94	Potential.				regulation of cell shape	cytoplasm|membrane				ovary(2)|pancreas(1)	3		all_epithelial(167;0.000813)|all_lung(203;0.0214)|Lung NSC(277;0.0216)		Epithelial(280;0.067)|all cancers(265;0.117)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)		GATCTTGAAAAAGCTGAACTG	0.368													57	94					0	0	0.870114	0	0		C	100152261	C	C	100152261	3	2	162	1	0	0	0	0	1	0	0	0	11430	14	1	5	295	5	PALMD	1	100152261	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	7967295	100152261	149098360	8	88622											
FRRS1	391059	broad.mit.edu	37	chr1	100203814	100203814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acttcttgttcccacaatctGaggcactgaactagaaaaat	14	11	6	10	0	2	3	0	2	2	1	3	3	3	3	1	1	1	2	1	1	5	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:100203814G>A	uc001dsh.1	-	7	1189	c.587C>T	c.(586-588)TCA>TTA	p.S196L		NM_001013660	NP_001013682	Q6ZNA5	FRRS1_HUMAN	stromal cell derived factor receptor 2 homolog	196					electron transport chain|transport	integral to membrane	ferric-chelate reductase activity|metal ion binding			skin(1)	1		all_epithelial(167;2.09e-06)|all_lung(203;0.000435)|Lung NSC(277;0.00201)		Epithelial(280;0.0718)|all cancers(265;0.126)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.206)		CCCACAATCTGAGGCACTGAA	0.403													24	88					0	0	0.654019	0	0		A	100203814	A	A	100203814	3	1	162	1	0	0	0	0	1	0	0	0	6074	1294	45	4	1337	4	FRRS1	1	100203814	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	51553	100203814	149046807	9	88623											
CDC14A	8556	broad.mit.edu	37	chr1	100949859	100949859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatacagaaaacaagcatCgttgtgggtccaaggagaca	15	9	10	7	1	0	2	0	0	0	2	2	3	1	2	1	2	3	2	1	2	6	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:100949859C>T	uc001dtg.3	+	11	1477	c.989C>T	c.(988-990)TCG>TTG	p.S330L	CDC14A_uc009web.2_RNA|CDC14A_uc010oui.1_Missense_Mutation_p.S272L|CDC14A_uc001dte.3_Missense_Mutation_p.S330L|CDC14A_uc001dtf.2_Missense_Mutation_p.S330L|CDC14A_uc009wed.1_Missense_Mutation_p.S37L|CDC14A_uc009wee.2_Missense_Mutation_p.S330L	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	330	B.				cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		AAACAAGCATCGTTGTGGGTC	0.308													14	35					0	0	0.435327	0	0		T	100949859	T	T	100949859	3	4	162	1	0	0	0	0	1	0	0	0	3059	893	31	1	1031	1	CDC14A	1	100949859	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	746045	100949859	148300762	10	88624											
TBX15	6913	broad.mit.edu	37	chr1	119428075	119428075	+	Silent	SNP	A	G	G	1	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	caggatggagataaaagatgAgaagaagccgaaggggatgg	17	4	17	3	1	0	4	0	1	0	4	0	9	0	6	1	5	1	0	1	5	5	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:119428075A>G	uc001ehl.1	-	8	1086	c.771T>C	c.(769-771)TCT>TCC	p.S257S	TBX15_uc009whj.1_Silent_p.S81S	NM_152380	NP_689593	Q96SF7	TBX15_HUMAN	T-box 15	363						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)	2	all_neural(166;0.117)	all_cancers(81;0.000692)|all_lung(203;3.05e-06)|Lung NSC(69;2.13e-05)|all_epithelial(167;0.000237)		Lung(183;0.044)|LUSC - Lung squamous cell carcinoma(189;0.141)		ATAAAAGATGAGAAGAAGCCG	0.488													9	14					0	0	0.361761	0	0		G	119428075	G	G	119428075	2	3	162	1	0	0	0	0	0	0	0	1	15677	291	11	3		3	TBX15	1	119428075	Silent	SNP	A	TCGA-D7-5577-01A-01D-1600-08	18478216	119428075	129822546	11	88625											
DUSP27	92235	broad.mit.edu	37	chr1	167095276	167095276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagggcgagggcactgggaGcatgctcggggccagagtgc	7	4	21	9	2	0	1	0	0	0	1	1	4	0	3	1	6	3	3	1	6	0	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:167095276G>A	uc001geb.1	+	5	908	c.908G>A	c.(907-909)AGC>AAC	p.S303N		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	303					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GGCACTGGGAGCATGCTCGGG	0.662													7	26					0	0	0.248553	0	0		A	167095276	A	A	167095276	3	1	162	1	0	0	0	0	1	0	0	0	4830	971	34	2	926	2	DUSP27	1	167095276	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	47667201	167095276	82155345	12	88626											
ADCY10	55811	broad.mit.edu	37	chr1	167805735	167805735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcttcatttttgttaaaaCgtggtcaaagaaattcaaga	14	15	7	5	1	4	2	3	0	1	2	4	2	4	2	0	1	1	1	0	1	5	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:167805735C>T	uc001ger.2	-	23	3419	c.3121G>A	c.(3121-3123)GTT>ATT	p.V1041I	ADCY10_uc009wvj.2_5'Flank|ADCY10_uc009wvk.2_Missense_Mutation_p.V949I|ADCY10_uc010plj.1_Missense_Mutation_p.V888I	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	1041					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TTTGTTAAAACGTGGTCAAAG	0.353													66	154					0	0	0.870114	0	0		T	167805735	T	T	167805735	3	4	162	1	0	0	0	0	1	0	0	0	293	536	19	1	1755	1	ADCY10	1	167805735	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	710459	167805735	81444886	13	88627											
NAV1	89796	broad.mit.edu	37	chr1	201618005	201618005	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgaaggtcttcaagtccgGcagcgtggacagccgtgtcc	7	8	14	12	3	2	1	1	1	1	0	4	2	4	2	3	3	2	2	3	3	2	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:201618005G>T	uc001gwu.2	+	1	556	c.209G>T	c.(208-210)GGC>GTC	p.G70V		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	70					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						TTCAAGTCCGGCAGCGTGGAC	0.453													8	30					4.68919e-08	4.71964e-08	0.361761	1	0		T	201618005	T	T	201618005	3	4	162	1	0	0	0	0	1	0	0	0	10201	1203	42	5	211	5	NAV1	1	201618005	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	33812270	201618005	47632616	14	88628											
TSNAX	7257	broad.mit.edu	37	chr1	231678314	231678314	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccaggtagcccaagagctAtcaggggaagatatgcatca	13	8	11	9	0	2	2	2	0	0	2	3	3	3	3	2	3	3	3	2	3	5	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:231678314A>T	uc001huw.2	+	4	482	c.324A>T	c.(322-324)CTA>CTT	p.L108L	TSNAX-DISC1_uc010pwe.1_5'UTR|TSNAX-DISC1_uc010pwf.1_5'UTR|TSNAX-DISC1_uc010pwg.1_5'UTR|TSNAX-DISC1_uc010pwh.1_5'UTR|TSNAX-DISC1_uc010pwi.1_Intron|TSNAX-DISC1_uc010pwj.1_5'UTR|TSNAX-DISC1_uc010pwk.1_5'UTR|TSNAX-DISC1_uc010pwl.1_RNA	NM_005999	NP_005990	Q99598	TSNAX_HUMAN	translin-associated factor X	108	Interaction with C1D.				cell differentiation|multicellular organismal development|spermatogenesis	nucleus|perinuclear region of cytoplasm	protein transporter activity|sequence-specific DNA binding				0		all_cancers(173;0.0395)|Acute lymphoblastic leukemia(190;3.76e-06)|Prostate(94;0.116)				CCCAAGAGCTATCAGGGGAAG	0.333													69	144					0	0	0.870114	0	0		T	231678314	T	T	231678314	2	4	162	1	0	0	0	0	0	0	0	1	16657	436	16	5		5	TSNAX	1	231678314	Silent	SNP	A	TCGA-D7-5577-01A-01D-1600-08	30060309	231678314	17572307	15	88629											
SLC35F3	148641	broad.mit.edu	37	chr1	234367425	234367425	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaactttttattcttcccGttgtactacgtggggcacgt	6	16	10	9	3	1	0	0	0	1	0	2	1	2	1	1	3	3	3	1	3	4	8			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:234367425G>A	uc001hwa.1	+	2	567	c.339G>A	c.(337-339)CCG>CCA	p.P113P	SLC35F3_uc001hvy.1_Silent_p.P182P	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	113	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			TATTCTTCCCGTTGTACTACG	0.597													15	230					0	0	0.457914	0	0		A	234367425	A	A	234367425	2	1	162	1	0	0	0	0	0	0	0	1	14615	1132	40	1		1	SLC35F3	1	234367425	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	2689111	234367425	14883196	16	88630											
CHRM3	1131	broad.mit.edu	37	chr1	240072304	240072304	+	Missense_Mutation	SNP	A	G	G	1	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	tctggtgaacaccttttgtgAcagctgcatacccaaaacct	11	11	7	12	0	1	2	0	2	1	0	1	2	1	2	3	1	5	2	3	1	4	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr1:240072304A>G	uc001hyp.2	+	5	2332	c.1553A>G	c.(1552-1554)GAC>GGC	p.D518G		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	518	Extracellular (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	ACCTTTTGTGACAGCTGCATA	0.498													6	203					0	0	0.307466	0	0		G	240072304	G	G	240072304	3	3	162	1	0	0	0	0	1	0	0	0	3381	275	10	3	1555	3	CHRM3	1	240072304	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	5704879	240072304	9178317	17	88631											
APOB	338	broad.mit.edu	37	chr2	21252873	21252873	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcctgggtccctgtagggTttgtcttatgatagctacag	6	14	12	9	0	1	1	0	1	1	0	3	1	3	1	2	2	2	4	2	2	4	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:21252873T>C	uc002red.2	-	11	1495	c.1367A>G	c.(1366-1368)AAC>AGC	p.N456S		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	456	Vitellogenin.				cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CCCTGTAGGGTTTGTCTTATG	0.393													36	84					0	0	0.804634	0	0		C	21252873	C	C	21252873	3	2	162	1	0	0	0	0	1	0	0	0	785	1725	60	3	12400	3	APOB	2	21252873	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08		21252873	221946500	18	88632											
MAT2A	4144	broad.mit.edu	37	chr2	85770889	85770889	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagtgcccaaaaagcttaaAtattgaaagtgttagccttt	15	12	8	6	0	0	1	0	1	0	0	0	2	0	1	2	0	3	2	2	0	8	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:85770889A>G	uc002spr.2	+	9	1305	c.1182A>G	c.(1180-1182)AAA>AAG	p.K394K	MAT2A_uc010fgk.2_Silent_p.K368K	NM_005911	NP_005902	P31153	METK2_HUMAN	methionine adenosyltransferase II, alpha	394					methylation|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0					L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	AAAAGCTTAAATATTGAAAGT	0.483													7	16					0	0	0.27861	0	0		G	85770889	G	G	85770889	2	3	162	1	0	0	0	0	0	0	0	1	9348	98	4	3		3	MAT2A	2	85770889	Silent	SNP	A	TCGA-D7-5577-01A-01D-1600-08	64518016	85770889	157428484	19	88633											
C2orf55	343990	broad.mit.edu	37	chr2	99443575	99443575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cactggtgccaggctgttgtCtgagatccgggcagagacgg	7	8	16	10	2	1	2	0	1	1	2	2	4	2	2	2	4	1	3	2	4	0	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:99443575C>T	uc002szf.1	-	6	892	c.598G>A	c.(598-600)GAC>AAC	p.D200N		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	200											0						AGGCTGTTGTCTGAGATCCGG	0.572													47	91					0	0	0.870114	0	0		T	99443575	T	T	99443575	3	4	162	1	0	0	0	0	1	0	0	0	2179	913	32	4	2310	4	C2orf55	2	99443575	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	13672686	99443575	143755798	20	88634											
CNTNAP5	129684	broad.mit.edu	37	chr2	125547588	125547588	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggtcacatctggagtcagGccaggctgccccggccactg	8	6	13	14	1	3	0	2	0	1	0	3	1	3	1	4	5	1	1	4	5	1	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:125547588G>A	uc002tno.2	+	18	3223	c.2859G>A	c.(2857-2859)AGG>AGA	p.R953R	CNTNAP5_uc010flu.2_Silent_p.R954R	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	953	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CTGGAGTCAGGCCAGGCTGCC	0.547													11	27					0	0	0.435327	0	0		A	125547588	A	A	125547588	2	1	162	1	0	0	0	0	0	0	0	1	3653	1194	42	2		2	CNTNAP5	2	125547588	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	26104013	125547588	117651785	21	88635											
POTEF	728378	broad.mit.edu	37	chr2	130832580	130832580	+	Missense_Mutation	SNP	A	C	C	1	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	tgttgaaggtctcaaacatgAtctgggtcatcttctcgcgg	8	13	11	9	2	5	2	2	2	4	0	7	2	5	2	0	3	1	1	0	3	2	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:130832580A>C	uc010fmh.2	-	17	2865	c.2465T>G	c.(2464-2466)ATC>AGC	p.I822S		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	822	Actin-like.					cell cortex	ATP binding			skin(3)|ovary(2)	5						CTCAAACATGATCTGGGTCAT	0.592													92	133					0	0	0.870114	0	0		C	130832580	C	C	130832580	3	2	162	1	0	0	0	0	1	0	0	0	12284	333	12	5	766	5	POTEF	2	130832580	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	5284992	130832580	112366793	22	88636											
RAB3GAP1	22930	broad.mit.edu	37	chr2	135926202	135926202	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actccgtgtcagacttcccaCcccctgctggccgggaattc	6	9	9	17	2	1	1	1	0	0	1	4	2	3	2	5	2	1	1	5	2	1	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:135926202C>A	uc002tuj.2	+	24	2822	c.2797C>A	c.(2797-2799)CCC>ACC	p.P933T	RAB3GAP1_uc010fnf.2_Missense_Mutation_p.P940T|RAB3GAP1_uc010fng.2_Missense_Mutation_p.P758T|RAB3GAP1_uc010fnh.1_RNA	NM_012233	NP_036365	Q15042	RB3GP_HUMAN	RAB3 GTPase-activating protein	933						centrosome|nucleus|soluble fraction	Rab GTPase activator activity|Rab GTPase binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(221;0.117)		AGACTTCCCACCCCCTGCTGG	0.557													49	84					4.10826e-27	4.61435e-27	0.870114	1	0		A	135926202	A	A	135926202	3	1	162	1	0	0	0	0	1	0	0	0	12960	507	18	5	2916	5	RAB3GAP1	2	135926202	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	5093622	135926202	107273171	23	88637											
TTN	7273	broad.mit.edu	37	chr2	179404632	179404632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtatggtaagtctgatgacGccaccttgccttacaaagat	11	11	10	9	1	1	3	0	2	1	1	1	3	1	3	3	2	2	2	3	2	4	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:179404632G>A	uc010zfg.1	-	301	90680	c.90456C>T	c.(90454-90456)GGC>GGT	p.G30152G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G23847G|TTN_uc010zfi.1_Silent_p.G23780G|TTN_uc010zfj.1_Silent_p.G23655G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31079							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCTGATGACGCCACCTTGCC	0.393													59	171					0	0	0.870114	0	0		A	179404632	A	A	179404632	2	1	162	1	0	0	0	0	0	0	0	1	16761	1074	38	1		1	TTN	2	179404632	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	43478430	179404632	63794741	24	88638											
TTN	7273	broad.mit.edu	37	chr2	179553493	179553493	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttctacaacagttttcTtagagacttcagctttaaga	11	17	5	8	0	4	2	1	0	3	2	4	3	4	2	0	0	3	2	0	0	4	9			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:179553493T>G	uc010zfg.1	-	123	28600	c.28376A>C	c.(28375-28377)AAG>ACG	p.K9459T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K6120T|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10386							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACAGTTTTCTTAGAGACTTC	0.358													37	60					0	0	0.788014	0	0		G	179553493	G	G	179553493	3	3	162	1	0	0	0	0	1	0	0	0	16761	1609	56	5	72369	5	TTN	2	179553493	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	148861	179553493	63645880	25	88639											
TTN	7273	broad.mit.edu	37	chr2	179590293	179590293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggacaaaaataggctgggCgccttctatggatgcttgta	10	11	12	8	1	1	0	0	0	1	0	1	2	1	2	1	4	1	3	1	4	5	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr2:179590293C>T	uc010zfg.1	-	68	17130	c.16906G>A	c.(16906-16908)GCC>ACC	p.A5636T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A2297T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6563							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATAGGCTGGGCGCCTTCTATG	0.428													29	67					0	0	0.760397	0	0		T	179590293	T	T	179590293	3	4	162	1	0	0	0	0	1	0	0	0	16761	768	27	1	84059	1	TTN	2	179590293	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	36800	179590293	63609080	26	88640											
FBLN2	2199	broad.mit.edu	37	chr3	13679190	13679190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatcttccgcattggccccgCgccagccttcacgggggaca	6	8	11	16	4	2	0	1	0	1	0	3	1	3	1	5	3	1	1	5	3	1	4	rs112412824		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:13679190C>T	uc011avb.1	+	17	3451	c.3326C>T	c.(3325-3327)GCG>GTG	p.A1109V	FBLN2_uc011auz.1_Missense_Mutation_p.A1135V|FBLN2_uc011ava.1_Missense_Mutation_p.A1156V|FBLN2_uc011avc.1_Missense_Mutation_p.A1156V	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	1109	Domain III.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			ATTGGCCCCGCGCCAGCCTTC	0.622													8	26					0	0	0.307466	0	0		T	13679190	T	T	13679190	3	4	162	1	0	0	0	0	1	0	0	0	5713	768	27	1	2223	1	FBLN2	3	13679190	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08		13679190	184343240	27	88641											
ZNF660	285349	broad.mit.edu	37	chr3	44636501	44636501	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagttcacactggagagaaAccctataaatgtaatgaatg	17	9	9	6	0	1	3	1	1	0	2	1	5	1	4	1	1	1	2	1	1	6	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:44636501A>C	uc003cnl.1	+	3	1149	c.816A>C	c.(814-816)AAA>AAC	p.K272N		NM_173658	NP_775929	Q6AZW8	ZN660_HUMAN	zinc finger protein 660	272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				KIRC - Kidney renal clear cell carcinoma(197;0.0468)|Kidney(197;0.0585)		CTGGAGAGAAACCCTATAAAT	0.388													10	106					0	0	0.361761	0	0		C	44636501	C	C	44636501	3	2	162	1	0	0	0	0	1	0	0	0	18095	40	2	5	818	5	ZNF660	3	44636501	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	30957311	44636501	153385929	28	88642											
GTF2E1	2960	broad.mit.edu	37	chr3	120495484	120495484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagaaagcactgtccaagggGcatatggttctgaagatatg	13	9	13	6	0	1	3	0	1	1	2	2	4	2	3	1	3	1	3	1	3	5	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:120495484G>A	uc003edz.3	+	4	979	c.865G>A	c.(865-867)GCA>ACA	p.A289T		NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,	289					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		TGTCCAAGGGGCATATGGTTC	0.428													40	132					0	0	0.840704	0	0		A	120495484	A	A	120495484	3	1	162	1	0	0	0	0	1	0	0	0	6872	1203	42	2	875	2	GTF2E1	3	120495484	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	75858983	120495484	77526946	29	88643											
MME	4311	broad.mit.edu	37	chr3	154866382	154866382	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcgagaacataattcaaaAtttgaaattcagccaaagta	18	11	5	7	1	2	2	2	1	0	1	3	3	2	2	1	0	2	1	1	0	7	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:154866382A>T	uc010hvr.1	+	16	1752	c.1541A>T	c.(1540-1542)AAT>ATT	p.N514I	MME_uc003fab.1_Missense_Mutation_p.N514I|MME_uc003fac.1_Missense_Mutation_p.N514I|MME_uc003fad.1_Missense_Mutation_p.N514I|MME_uc003fae.1_Missense_Mutation_p.N514I	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	514	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	ATAATTCAAAATTTGAAATTC	0.313													64	31					0	0	0.870114	0	0		T	154866382	T	T	154866382	3	4	162	1	0	0	0	0	1	0	0	0	9663	101	4	5	1599	5	MME	3	154866382	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	34370898	154866382	43156048	30	88644											
TIPARP	25976	broad.mit.edu	37	chr3	156395626	156395626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taagaaaaaggatcagaaaaGattgggaactggaaccctga	19	6	11	5	0	1	4	1	1	0	3	1	7	1	7	1	3	2	0	1	3	7	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:156395626G>A	uc003fav.2	+	2	388	c.140G>A	c.(139-141)AGA>AAA	p.R47K	LOC100287227_uc011boq.1_5'Flank|TIPARP_uc003faw.2_Missense_Mutation_p.R47K	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	47							NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			GATCAGAAAAGATTGGGAACT	0.428													76	142					0	0	0.870114	0	0		A	156395626	A	A	156395626	3	1	162	1	0	0	0	0	1	0	0	0	15949	942	33	4	142	4	TIPARP	3	156395626	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	1529244	156395626	41626804	31	88645											
SKIL	6498	broad.mit.edu	37	chr3	170102413	170102413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agagctcacaaagacagaggCaagtaagtccatatcaagac	18	5	9	9	0	2	4	2	0	0	4	3	4	3	4	1	1	1	3	1	1	5	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:170102413C>T	uc003fgu.2	+	4	2001	c.1289C>T	c.(1288-1290)GCA>GTA	p.A430V	SKIL_uc011bps.1_Missense_Mutation_p.A410V|SKIL_uc003fgv.2_Missense_Mutation_p.A430V|SKIL_uc003fgw.2_Missense_Mutation_p.A430V	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1	430					cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			AAGACAGAGGCAAGTAAGTCC	0.413													108	66					0	0	0.870114	0	0		T	170102413	T	T	170102413	3	4	162	1	0	0	0	0	1	0	0	0	14383	710	25	2	1299	2	SKIL	3	170102413	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	13706787	170102413	27920017	32	88646											
PIK3CA	5290	broad.mit.edu	37	chr3	178916876	178916876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attttttgatgaaacaagacGactttgtgaccttcggcttt	10	16	8	7	2	0	4	0	3	0	1	1	5	0	4	1	1	1	1	1	1	2	6	rs121913287		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:178916876G>A	uc003fjk.2	+	2	420	c.263G>A	c.(262-264)CGA>CAA	p.R88Q		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	88	PI3K-ABD.		R -> Q (in cancer; may disrupt the interaction between the PI3K-ABD domain and the N-terminal lobe of PI3K/PI4K kinase domain possibly affecting the conformation of the kinase domain).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R88Q(26)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAAACAAGACGACTTTGTGAC	0.363	R88Q(SKUT1_SOFT_TISSUE)|R88Q(JHUEM1_ENDOMETRIUM)|R88Q(SNGM_ENDOMETRIUM)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			74	148					0	0	0.870114	0	0		A	178916876	A	A	178916876	3	1	162	1	0	0	0	0	1	0	0	0	11932	1058	37	1	265	1	PIK3CA	3	178916876	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	8814463	178916876	19105554	33	88647											
PIK3CA	5290	broad.mit.edu	37	chr3	178952074	178952074	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtatttcatgaaacaaatGaatgatgcacatcatggtgg	15	11	10	5	0	2	3	2	3	0	0	2	4	2	3	0	2	2	2	0	2	4	2	rs121913283		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:178952074G>T	uc003fjk.2	+	21	3286	c.3129G>T	c.(3127-3129)ATG>ATT	p.M1043I		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1043	PI3K/PI4K.		M -> I (in cancer; shows an increase in lipid kinase activity).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.M1043I(33)|p.M1043V(14)|p.M1043T(3)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAACAAATGAATGATGCAC	0.368		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			85	50					1.01459e-35	1.15634e-35	0.870114	1	0		T	178952074	T	T	178952074	3	4	162	1	0	0	0	0	1	0	0	0	11932	1290	45	5	3207	5	PIK3CA	3	178952074	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	35198	178952074	19070356	34	88648											
MUC20	200958	broad.mit.edu	37	chr3	195453120	195453120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttacgtcaaagtctcaggagCagctccggtctccatagagg	10	9	11	11	2	3	1	2	0	2	1	6	2	4	2	2	3	3	2	2	3	3	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr3:195453120C>A	uc010hzo.2	+	3	1259	c.1133C>A	c.(1132-1134)GCA>GAA	p.A378E	MUC20_uc010hzp.2_Missense_Mutation_p.A343E|MUC20_uc011bte.1_RNA	NM_152673	NP_689886	Q8N307	MUC20_HUMAN	mucin 20 isoform L	549	Involved in oligomerization.				protein homooligomerization	apical plasma membrane|basal plasma membrane|extracellular region|microvillus membrane					0	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)		GTCTCAGGAGCAGCTCCGGTC	0.562													14	43					1.33834e-09	1.37379e-09	0.557998	1	0		A	195453120	A	A	195453120	3	1	162	1	0	0	0	0	1	0	0	0	9994	710	25	5	1143	5	MUC20	3	195453120	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	16501046	195453120	2569310	35	88649											
MSX1	4487	broad.mit.edu	37	chr4	4864504	4864504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggacgcccttcaccaccgcGcagctgctggcgctggagcg	5	5	14	17	6	1	0	1	0	0	0	1	2	1	2	3	3	3	4	3	3	0	1	rs140353960		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr4:4864504G>A	uc003gif.2	+	2	781	c.546G>A	c.(544-546)GCG>GCA	p.A182A		NM_002448	NP_002439	P28360	MSX1_HUMAN	msh homeobox 1	176	Homeobox.				apoptotic nuclear change|face morphogenesis|negative regulation of cell growth|odontogenesis of dentine-containing tooth|positive regulation of apoptosis|protein localization to nucleus|protein stabilization	nucleus	p53 binding|sequence-specific DNA binding transcription factor activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		TCACCACCGCGCAGCTGCTGG	0.647													36	85					0	0	0.847076	0	0		A	4864504	A	A	4864504	2	1	162	1	0	0	0	0	0	0	0	1	9913	1074	38	1		1	MSX1	4	4864504	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08		4864504	186289772	36	88650											
MAN2B2	23324	broad.mit.edu	37	chr4	6602463	6602463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccgcgtcacagatgaggcgGgccacccagtgccctcgcag	7	5	13	16	4	1	2	1	1	0	1	3	2	2	2	4	2	1	1	4	2	0	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr4:6602463G>A	uc003gjf.1	+	10	1555	c.1519G>A	c.(1519-1521)GGC>AGC	p.G507S	MAN2B2_uc003gje.1_Missense_Mutation_p.G507S|MAN2B2_uc011bwf.1_Missense_Mutation_p.G456S	NM_015274	NP_056089	Q9Y2E5	MA2B2_HUMAN	mannosidase, alpha, class 2B, member 2	507					mannose metabolic process	extracellular region	alpha-mannosidase activity|carbohydrate binding|zinc ion binding			ovary(2)	2						AGATGAGGCGGGCCACCCAGT	0.597													12	43					0	0	0.457914	0	0		A	6602463	A	A	6602463	3	1	162	1	0	0	0	0	1	0	0	0	9235	1232	43	4	1557	4	MAN2B2	4	6602463	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	1737959	6602463	184551813	37	88651											
ATP8A1	10396	broad.mit.edu	37	chr4	42414995	42414995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatcacttcagactgtgaaaCgattccattttcatcttgag	11	15	6	9	1	4	3	3	2	1	1	5	4	5	3	1	0	1	0	1	0	2	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr4:42414995C>T	uc003gwr.2	-	37	3665	c.3433G>A	c.(3433-3435)GTT>ATT	p.V1145I	ATP8A1_uc003gwq.2_Missense_Mutation_p.V371I|ATP8A1_uc003gws.2_Missense_Mutation_p.V1130I	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	1145	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	GACTGTGAAACGATTCCATTT	0.438													24	53					0	0	0.667858	0	0		T	42414995	T	T	42414995	3	4	162	1	0	0	0	0	1	0	0	0	1193	536	19	1	65	1	ATP8A1	4	42414995	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	35812532	42414995	148739281	38	88652											
SYNPO2	171024	broad.mit.edu	37	chr4	119978661	119978661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttactctagtaaaccaaccGatggactagagaaagcaaac	17	7	8	9	1	1	1	0	0	1	1	1	4	1	2	2	1	5	3	2	1	8	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr4:119978661G>A	uc010inb.2	+	5	3554	c.3358G>A	c.(3358-3360)GAT>AAT	p.D1120N	SYNPO2_uc011cgh.1_Silent_p.P121P|SYNPO2_uc010inc.2_Missense_Mutation_p.D990N	NM_133477	NP_597734	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						TAAACCAACCGATGGACTAGA	0.488													50	95					0	0	0.870114	0	0		A	119978661	A	A	119978661	3	1	162	1	0	0	0	0	1	0	0	0	15482	1058	37	1	3488	1	SYNPO2	4	119978661	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	77563666	119978661	71175615	39	88653											
FHDC1	85462	broad.mit.edu	37	chr4	153897817	153897817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggaaagggcctccctccGtcggaaggactccagtcgga	8	6	15	12	3	0	0	0	0	0	0	5	4	3	4	4	6	0	0	4	6	2	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr4:153897817G>A	uc003inf.2	+	11	3449	c.3374G>A	c.(3373-3375)CGT>CAT	p.R1125H		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	1125					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					GCCTCCCTCCGTCGGAAGGAC	0.657													5	13					0	0	0.248553	0	0		A	153897817	A	A	153897817	3	1	162	1	0	0	0	0	1	0	0	0	5890	1145	40	1	3416	1	FHDC1	4	153897817	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	33919156	153897817	37256459	40	88654											
AGA	175	broad.mit.edu	37	chr4	178358635	178358635	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaagataccaggtggtttGtagggtccgcagtattttga	9	15	12	5	1	0	2	0	1	0	1	1	2	1	2	2	3	1	4	2	3	4	8			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr4:178358635G>T	uc003iuu.1	-	5	608	c.546C>A	c.(544-546)TAC>TAA	p.Y182*	AGA_uc010irt.1_5'Flank|AGA_uc003iuv.1_Nonsense_Mutation_p.Y86*|AGA_uc003iuw.2_Nonsense_Mutation_p.Y86*	NM_000027	NP_000018	P20933	ASPG_HUMAN	aspartylglucosaminidase precursor	182					asparagine catabolic process via L-aspartate|protein deglycosylation|protein maturation	endoplasmic reticulum|intermediate filament cytoskeleton|lysosome|microtubule cytoskeleton	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0		all_lung(41;1.27e-09)|Lung NSC(41;1.1e-08)|Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Hepatocellular(41;0.148)|all_neural(102;0.164)|Colorectal(36;0.245)		all cancers(43;1.37e-22)|Epithelial(43;3.86e-20)|OV - Ovarian serous cystadenocarcinoma(60;3.8e-11)|Colorectal(24;6.98e-05)|GBM - Glioblastoma multiforme(59;0.000362)|COAD - Colon adenocarcinoma(29;0.000462)|STAD - Stomach adenocarcinoma(60;0.0029)|LUSC - Lung squamous cell carcinoma(193;0.0328)|READ - Rectum adenocarcinoma(43;0.163)		CAGGTGGTTTGTAGGGTCCGC	0.343													31	80					1.26612e-14	1.34417e-14	0.779181	1	0		T	178358635	T	T	178358635	4	4	162	1	0	0	0	0	0	1	0	0	365	1372	48	5	514	5	AGA	4	178358635	Nonsense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	24460818	178358635	12795641	41	88655											
KIAA0947	23379	broad.mit.edu	37	chr5	5463516	5463516	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagatgcaggcaggcaaaccGatggtggggaagaagacctg	13	4	16	8	1	0	3	0	0	0	3	0	5	0	4	2	5	2	3	2	5	3	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:5463516G>T	uc003jdm.3	+	13	4291	c.4069G>T	c.(4069-4071)GAT>TAT	p.D1357Y		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1357										ovary(1)|central_nervous_system(1)	2						CAGGCAAACCGATGGTGGGGA	0.562													8	27					5.4927e-09	5.5645e-09	0.307466	1	0		T	5463516	T	T	5463516	3	4	162	1	0	0	0	0	1	0	0	0	8218	1058	37	5	4119	5	KIAA0947	5	5463516	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08		5463516	175451744	42	88656											
CTNND2	1501	broad.mit.edu	37	chr5	11199625	11199625	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctcaccagtgctgggatgCcaccacagtttttcagggca	9	9	10	13	0	2	0	2	0	0	0	2	1	2	1	4	2	2	3	4	2	0	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:11199625C>A	uc003jfa.1	-	11	2055	c.1910G>T	c.(1909-1911)GGC>GTC	p.G637V	CTNND2_uc010itt.2_Missense_Mutation_p.G546V|CTNND2_uc011cmy.1_Missense_Mutation_p.G300V|CTNND2_uc011cmz.1_Missense_Mutation_p.G204V|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.G204V	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	637	ARM 4.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						TGCTGGGATGCCACCACAGTT	0.478													77	226					9.25274e-37	1.06235e-36	0.870114	1	0		A	11199625	A	A	11199625	3	1	162	1	0	0	0	0	1	0	0	0	4023	739	26	5	1815	5	CTNND2	5	11199625	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	5736109	11199625	169715635	43	88657											
CDH12	1010	broad.mit.edu	37	chr5	21755818	21755818	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcagagtcacatctacaGactcgaatagtcattgtgtt	12	12	7	10	1	4	2	3	0	1	2	5	3	4	2	1	0	1	1	1	0	3	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:21755818G>T	uc010iuc.2	-	11	2225	c.1767C>A	c.(1765-1767)GTC>GTA	p.V589V	CDH12_uc011cno.1_Silent_p.V549V|CDH12_uc003jgk.2_Silent_p.V589V|uc003jgj.2_Intron	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	589	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CACATCTACAGACTCGAATAG	0.458										HNSCC(59;0.17)			40	130					1.96642e-18	2.13143e-18	0.827153	1	0		T	21755818	T	T	21755818	2	4	162	1	0	0	0	0	0	0	0	1	3101	929	33	5		5	CDH12	5	21755818	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	10556193	21755818	159159442	44	88658											
NNT	23530	broad.mit.edu	37	chr5	43656015	43656015	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttttcacagtttagtgggTttggcagctgtacttacttg	6	17	11	7	0	1	0	1	0	0	0	1	0	1	0	0	2	3	6	0	2	3	8			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:43656015T>G	uc003joe.2	+	15	2388	c.2133T>G	c.(2131-2133)GGT>GGG	p.G711G	NNT_uc003jof.2_Silent_p.G711G	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	711	Helical; (Potential).				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	GTTTAGTGGGTTTGGCAGCTG	0.393													34	78					0	0	0.779181	0	0		G	43656015	G	G	43656015	2	3	162	1	0	0	0	0	0	0	0	1	10529	1712	60	5		5	NNT	5	43656015	Silent	SNP	T	TCGA-D7-5577-01A-01D-1600-08	21900197	43656015	137259245	45	88659											
TMEM171	134285	broad.mit.edu	37	chr5	72424237	72424237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtgactcggtaataatatttCcaccccctccaccaccttac	10	11	4	16	1	0	1	0	1	0	0	3	1	2	1	6	1	1	1	6	1	4	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:72424237C>T	uc003kcm.2	+	3	865	c.661C>T	c.(661-663)CCA>TCA	p.P221S	TMEM171_uc003kcn.3_Missense_Mutation_p.P221S	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	221						integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		AATAATATTTCCACCCCCTCC	0.403													145	332					0	0	0.870114	0	0		T	72424237	T	T	72424237	3	4	162	1	0	0	0	0	1	0	0	0	16113	855	30	4	667	4	TMEM171	5	72424237	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	28768222	72424237	108491023	46	88660											
PCDHA2	56146	broad.mit.edu	37	chr5	140175138	140175138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aatctttgtctctcgtgctgGggaaatcgctggacagagag	9	11	13	8	2	2	1	0	0	2	1	5	4	2	3	0	3	1	2	0	3	2	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:140175138G>A	uc003lhd.2	+	1	695	c.589G>A	c.(589-591)GGG>AGG	p.G197R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.G197R|PCDHA2_uc011czy.1_Missense_Mutation_p.G197R	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	197	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCTCGTGCTGGGGAAATCGCT	0.458													58	110					0	0	0.870114	0	0		A	140175138	A	A	140175138	3	1	162	1	0	0	0	0	1	0	0	0	11543	1232	43	4	591	4	PCDHA2	5	140175138	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	67750901	140175138	40740122	47	88661											
PCDHA4	56144	broad.mit.edu	37	chr5	140188221	140188221	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgtctgcgtgggacgcggaCgcgcaggagaacgcgctggt	6	6	19	10	7	1	1	0	0	1	1	1	4	1	3	0	4	2	2	0	4	1	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:140188221C>T	uc003lhi.2	+	1	1550	c.1449C>T	c.(1447-1449)GAC>GAT	p.D483D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.D483D|PCDHA4_uc011daa.1_Silent_p.D483D	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	483	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGACGCGGACGCGCAGGAGA	0.657													23	57					0	0	0.706142	0	0		T	140188221	T	T	140188221	2	4	162	1	0	0	0	0	0	0	0	1	11545	535	19	1		1	PCDHA4	5	140188221	Silent	SNP	C	TCGA-D7-5577-01A-01D-1600-08	13083	140188221	40727039	48	88662											
ITK	3702	broad.mit.edu	37	chr5	156667170	156667170	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgtgttcgattccatccCtcttctcatcaactatcacc	8	15	4	14	1	4	0	3	0	2	0	8	1	6	0	3	0	1	2	3	0	3	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:156667170C>G	uc003lwo.1	+	10	1032	c.950C>G	c.(949-951)CCT>CGT	p.P317R		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	317	SH2.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GATTCCATCCCTCTTCTCATC	0.318			T	SYK	peripheral T-cell lymphoma								44	87					0	0	0.853193	0	0		G	156667170	G	G	156667170	3	3	162	1	0	0	0	0	1	0	0	0	7925	681	24	5	988	5	ITK	5	156667170	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	16478949	156667170	24248090	49	88663											
GABRG2	2566	broad.mit.edu	37	chr5	161522503	161522503	+	Missense_Mutation	SNP	A	C	C	1	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	ctatgtttctctttacagtgAagccaacgttaattcacaca	12	14	5	10	1	2	1	1	1	1	0	3	1	2	1	1	0	3	2	1	0	5	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr5:161522503A>C	uc003lyz.3	+	3	620	c.262A>C	c.(262-264)AAG>CAG	p.K88Q	GABRG2_uc010jjc.2_Missense_Mutation_p.K88Q|GABRG2_uc003lyy.3_Missense_Mutation_p.K88Q|GABRG2_uc011dej.1_5'UTR	NM_000816	NP_000807	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	88	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)|skin(1)	5	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)		CTTTACAGTGAAGCCAACGTT	0.318													11	53					0	0	0.361761	0	0		C	161522503	C	C	161522503	3	2	162	1	0	0	0	0	1	0	0	0	6186	247	9	5	272	5	GABRG2	5	161522503	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	4855333	161522503	19392757	50	88664											
NCR2	9436	broad.mit.edu	37	chr6	41304116	41304116	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtagaatctaccgcccttCtgacaactctgtctctaagt	9	13	7	12	1	4	2	0	1	4	1	5	2	4	2	2	0	2	1	2	0	5	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr6:41304116C>A	uc003oqh.2	+	2	431	c.344C>A	c.(343-345)TCT>TAT	p.S115Y	NCR2_uc003oqi.2_Missense_Mutation_p.S115Y|NCR2_uc003oqj.2_Missense_Mutation_p.S115Y	NM_004828	NP_004819	O95944	NCTR2_HUMAN	natural cytotoxicity triggering receptor 2	115	Extracellular (Potential).|Ig-like.				cellular defense response	integral to plasma membrane	transmembrane receptor activity			ovary(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					TACCGCCCTTCTGACAACTCT	0.522													46	95					3.43241e-23	3.82751e-23	0.847076	1	0		A	41304116	A	A	41304116	3	1	162	1	0	0	0	0	1	0	0	0	10257	913	32	5	350	5	NCR2	6	41304116	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08		41304116	129810951	51	88665											
HSP90AB1	3326	broad.mit.edu	37	chr6	44219805	44219805	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaacggggcttcgaggtggTatatatgaccgagcccattg	10	9	14	8	3	0	1	0	1	0	0	1	4	0	1	2	4	2	2	2	4	4	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr6:44219805T>C	uc003oxa.1	+	10	1616	c.1532T>C	c.(1531-1533)GTA>GCA	p.V511A	HSP90AB1_uc011dvr.1_Missense_Mutation_p.V501A|HSP90AB1_uc003oxb.1_Missense_Mutation_p.V511A|HSP90AB1_uc011dvs.1_Missense_Mutation_p.V331A|HSP90AB1_uc003oxc.1_Missense_Mutation_p.V149A	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	511					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	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)			TTCGAGGTGGTATATATGACC	0.517													41	78					0	0	0.840704	0	0		C	44219805	C	C	44219805	3	2	162	1	0	0	0	0	1	0	0	0	7418	1638	57	3	1566	3	HSP90AB1	6	44219805	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	2915689	44219805	126895262	52	88666											
ZNF292	23036	broad.mit.edu	37	chr6	87971005	87971005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgaaaaagctgaaccagCatcagcagctgagttaagta	16	8	10	7	0	1	3	1	3	0	0	1	3	1	3	1	0	5	7	1	0	5	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr6:87971005C>T	uc003plm.3	+	8	7699	c.7658C>T	c.(7657-7659)GCA>GTA	p.A2553V		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2553					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		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)		GCTGAACCAGCATCAGCAGCT	0.378													19	45					0	0	0.557998	0	0		T	87971005	T	T	87971005	3	4	162	1	0	0	0	0	1	0	0	0	17851	710	25	2	7688	2	ZNF292	6	87971005	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	43751200	87971005	83144062	53	88667											
MDN1	23195	broad.mit.edu	37	chr6	90459388	90459388	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatccaacagcctattcagCgcctctaacacatcagtagg	12	9	6	14	1	4	0	3	0	1	0	5	0	5	0	3	1	4	1	3	1	4	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr6:90459388C>T	uc003pnn.1	-	25	3605	c.3489G>A	c.(3487-3489)GCG>GCA	p.A1163A		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1163					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GCCTATTCAGCGCCTCTAACA	0.398													48	184					0	0	0.870114	0	0		T	90459388	T	T	90459388	2	4	162	1	0	0	0	0	0	0	0	1	9433	755	27	1		1	MDN1	6	90459388	Silent	SNP	C	TCGA-D7-5577-01A-01D-1600-08	2488383	90459388	80655679	54	88668											
C6orf204	387119	broad.mit.edu	37	chr6	118887330	118887330	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccaatgtttgcatgaggcTtgtactccattttgagccat	8	15	8	10	0	0	2	0	2	0	0	2	2	2	2	3	1	3	4	3	1	2	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr6:118887330T>G	uc003pxz.1	-	3	970	c.382A>C	c.(382-384)AGC>CGC	p.S128R	C6orf204_uc003pya.1_Missense_Mutation_p.S131R|C6orf204_uc003pyb.2_Missense_Mutation_p.S128R|C6orf204_uc011ebj.1_Missense_Mutation_p.S26R|C6orf204_uc003pyc.2_Missense_Mutation_p.S131R|C6orf204_uc011ebl.1_Missense_Mutation_p.S26R	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	128						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		TGCATGAGGCTTGTACTCCAT	0.473													57	131					0	0	0.870114	0	0		G	118887330	G	G	118887330	3	3	162	1	0	0	0	0	1	0	0	0	2356	1609	56	5	2133	5	C6orf204	6	118887330	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	28427942	118887330	52227737	55	88669											
RNF217	154214	broad.mit.edu	37	chr6	125397843	125397843	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatgtgaccatatgacctGctcacaatgtaacactaatt	14	11	7	9	0	1	2	1	2	0	0	1	3	1	3	2	1	2	2	2	1	4	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr6:125397843G>T	uc003pzs.2	+	6	784	c.446G>T	c.(445-447)TGC>TTC	p.C149F	RNF217_uc003pzr.2_Missense_Mutation_p.C206F|RNF217_uc003pzt.2_RNA	NM_152553	NP_689766	Q8TC41	RN217_HUMAN	ring finger protein 217	149	RING-type.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0162)		CATATGACCTGCTCACAATGT	0.423													46	106					2.40228e-13	2.53301e-13	0.864702	1	0		T	125397843	T	T	125397843	3	4	162	1	0	0	0	0	1	0	0	0	13506	1319	46	5	460	5	RNF217	6	125397843	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	6510513	125397843	45717224	56	88670											
MPP6	51678	broad.mit.edu	37	chr7	24681385	24681385	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagctgtcagtgacaataaCttggaattagtcaatgaaat	16	11	9	5	0	2	2	2	2	0	0	2	4	2	3	0	1	2	1	0	1	7	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr7:24681385C>G	uc003swx.2	+	4	467	c.168C>G	c.(166-168)AAC>AAG	p.N56K	MPP6_uc003swy.2_Missense_Mutation_p.N56K	NM_016447	NP_057531	Q9NZW5	MPP6_HUMAN	membrane protein, palmitoylated 6	56	L27 2.				protein complex assembly		protein binding				0						GTGACAATAACTTGGAATTAG	0.338													49	85					0	0	0.870114	0	0		G	24681385	G	G	24681385	3	3	162	1	0	0	0	0	1	0	0	0	9756	564	20	5	174	5	MPP6	7	24681385	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08		24681385	134457278	57	88671											
ZNF716	441234	broad.mit.edu	37	chr7	57528910	57528910	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgtgaggaatgtggcaAagcttttagctggtctgcat	10	12	13	6	0	1	2	0	1	1	1	1	3	1	3	0	3	3	4	0	3	3	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr7:57528910A>G	uc011kdi.1	+	4	855	c.743A>G	c.(742-744)AAA>AGA	p.K248R		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						GAATGTGGCAAAGCTTTTAGC	0.408													15	37					0	0	0.457914	0	0		G	57528910	G	G	57528910	3	3	162	1	0	0	0	0	1	0	0	0	18144	14	1	3	757	3	ZNF716	7	57528910	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	32847525	57528910	101609753	58	88672											
PILRA	29992	broad.mit.edu	37	chr7	99997468	99997468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccacctcacccagagcacctCccagccaccgtcccctcaag	9	4	5	23	1	2	1	2	0	0	1	4	1	4	1	9	0	2	1	9	0	1	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr7:99997468C>T	uc003uuo.1	+	7	1062	c.850C>T	c.(850-852)CCC>TCC	p.P284S	PILRA_uc011kjo.1_Missense_Mutation_p.S198F|PILRA_uc003uup.1_Missense_Mutation_p.P211S|PILRA_uc003uuq.1_3'UTR	NM_013439	NP_038467	Q9UKJ1	PILRA_HUMAN	paired immunoglobulin-like type 2 receptor alpha	284	Cytoplasmic (Potential).				interspecies interaction between organisms	extracellular region|integral to membrane|plasma membrane	protein binding|receptor activity			skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CAGAGCACCTCCCAGCCACCG	0.562													6	169					0	0	0.248553	0	0		T	99997468	T	T	99997468	3	4	162	1	0	0	0	0	1	0	0	0	11944	855	30	4	876	4	PILRA	7	99997468	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	42468558	99997468	59141195	59	88673											
LHFPL3	375612	broad.mit.edu	37	chr7	104377336	104377336	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagacagcttgatggcagaGgaactgaaggcagaaaacaa	18	4	12	7	0	0	5	0	2	0	3	0	6	0	6	0	3	3	3	0	3	6	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr7:104377336G>T	uc003vce.2	+	2	784	c.660G>T	c.(658-660)GAG>GAT	p.E220D	LHFPL3_uc003vcf.2_Missense_Mutation_p.E220D	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	206						integral to membrane					0						TGATGGCAGAGGAACTGAAGG	0.433													19	17					3.51602e-12	3.68231e-12	0.575678	1	0		T	104377336	T	T	104377336	3	4	162	1	0	0	0	0	1	0	0	0	8782	991	35	5	666	5	LHFPL3	7	104377336	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	4379868	104377336	54761327	60	88674											
ASB15	142685	broad.mit.edu	37	chr7	123276952	123276952	+	Nonsense_Mutation	SNP	A	T	T	1	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	gccagccagcctcagtggagAagcttcctctaccaccagct	9	7	9	16	0	2	1	1	0	1	1	3	2	3	1	6	1	5	2	6	1	2	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr7:123276952A>T	uc003vku.1	+	12	1976	c.1684A>T	c.(1684-1686)AAG>TAG	p.K562*	ASB15_uc003vkw.1_Nonsense_Mutation_p.K562*	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	562	SOCS box.				intracellular signal transduction					skin(2)|lung(1)	3						CTCAGTGGAGAAGCTTCCTCT	0.358													19	81					0	0	0.667858	0	0		T	123276952	T	T	123276952	4	4	162	1	0	0	0	0	0	1	0	0	1020	247	9	5	1718	5	ASB15	7	123276952	Nonsense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	18899616	123276952	35861711	61	88675											
CSMD1	64478	broad.mit.edu	37	chr8	2820858	2820858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttatgctggagccccagcGgaaatcacttccctccactg	9	9	8	15	1	1	0	1	0	0	0	3	2	3	2	4	2	3	1	4	2	2	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:2820858G>A	uc011kwk.1	-	60	9733	c.9343C>T	c.(9343-9345)CGC>TGC	p.R3115C	CSMD1_uc011kwj.1_Missense_Mutation_p.R2444C|CSMD1_uc010lrg.2_Missense_Mutation_p.R1006C	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3115	Sushi 25.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GAGCCCCAGCGGAAATCACTT	0.557													64	131					0	0	0.870114	0	0		A	2820858	A	A	2820858	3	1	162	1	0	0	0	0	1	0	0	0	3947	1116	39	1	1398	1	CSMD1	8	2820858	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08		2820858	143543164	62	88676											
BLK	640	broad.mit.edu	37	chr8	11403589	11403589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccaccttactcctccacCgcccgatgaacacctggatg	10	7	6	18	2	0	1	0	1	0	0	2	3	2	2	7	1	3	0	7	1	3	1	rs140188373		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:11403589C>T	uc003wty.2	+	3	733	c.152C>T	c.(151-153)CCG>CTG	p.P51L	BLK_uc003wtz.2_5'UTR	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	51					intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		ACTCCTCCACCGCCCGATGAA	0.552													39	156					0	0	0.840704	0	0		T	11403589	T	T	11403589	3	4	162	1	0	0	0	0	1	0	0	0	1445	652	23	1	158	1	BLK	8	11403589	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	8582731	11403589	134960433	63	88677											
C8orf58	541565	broad.mit.edu	37	chr8	22459490	22459490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcctgtgcataggatccCggcgaggaggagtcgacccg	7	7	14	13	4	1	0	0	0	1	0	4	5	2	3	3	4	1	1	3	4	1	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:22459490C>T	uc003xce.2	+	4	775	c.663C>T	c.(661-663)CCC>CCT	p.P221P	C8orf58_uc011kzl.1_Silent_p.P221P|C8orf58_uc003xcf.2_Silent_p.P221P|KIAA1967_uc003xch.2_5'Flank	NM_001013842	NP_001013864	Q8NAV2	CH058_HUMAN	hypothetical protein LOC541565	221										skin(1)	1		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00563)|Colorectal(74;0.0145)|COAD - Colon adenocarcinoma(73;0.0608)		CATAGGATCCCGGCGAGGAGG	0.637													5	14					0	0	0.184627	0	0		T	22459490	T	T	22459490	2	4	162	1	0	0	0	0	0	0	0	1	2436	639	23	1		1	C8orf58	8	22459490	Silent	SNP	C	TCGA-D7-5577-01A-01D-1600-08	11055901	22459490	123904532	64	88678											
TACC1	6867	broad.mit.edu	37	chr8	38704287	38704287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctctccatgctggactcCgcaaagagcagatgaaggtg	11	7	12	11	1	1	3	0	1	1	2	3	4	2	4	2	2	3	4	2	2	2	0	rs149836912		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:38704287C>T	uc010lwp.2	+	12	2678	c.2299C>T	c.(2299-2301)CGC>TGC	p.R767C	TACC1_uc003xma.2_Missense_Mutation_p.R205C|TACC1_uc003xlz.2_Missense_Mutation_p.R572C|TACC1_uc003xmc.3_Missense_Mutation_p.R571C|TACC1_uc011lbz.1_Missense_Mutation_p.R754C|TACC1_uc003xmb.3_Missense_Mutation_p.R693C|TACC1_uc003xmf.3_Missense_Mutation_p.R357C|TACC1_uc011lca.1_Missense_Mutation_p.R750C|TACC1_uc011lcb.1_Missense_Mutation_p.R543C|TACC1_uc011lcd.1_RNA|TACC1_uc003xmh.3_Missense_Mutation_p.R584C|TACC1_uc010lwq.2_Missense_Mutation_p.R583C	NM_006283	NP_006274	O75410	TACC1_HUMAN	transforming, acidic coiled-coil containing	767	|Interaction with CH-TOG.				cell cycle|cell division	intermediate filament cytoskeleton|microtubule organizing center|nucleus	protein binding			ovary(1)	1		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.065)	LUSC - Lung squamous cell carcinoma(45;1.7e-09)|COAD - Colon adenocarcinoma(9;0.235)			TGCTGGACTCCGCAAAGAGCA	0.507													28	65					0	0	0.681144	0	0		T	38704287	T	T	38704287	3	4	162	1	0	0	0	0	1	0	0	0	15526	652	23	1	2345	1	TACC1	8	38704287	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	16244797	38704287	107659735	65	88679											
IMPAD1	54928	broad.mit.edu	37	chr8	57905926	57905926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcgccgccgcggactgcGgccagcactgacacagccag	7	4	13	17	6	0	1	0	1	0	0	2	2	0	2	4	2	3	1	4	2	0	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:57905926G>A	uc003xte.3	-	1	502	c.219C>T	c.(217-219)GCC>GCT	p.A73A		NM_017813	NP_060283	Q9NX62	IMPA3_HUMAN	inositol monophosphatase domain containing 1	73						Golgi apparatus|integral to membrane	inositol-1(or 4)-monophosphatase activity|metal ion binding			ovary(1)	1		all_cancers(86;0.175)|all_lung(136;0.0321)|Lung NSC(129;0.0417)|all_epithelial(80;0.0448)				CGCGGACTGCGGCCAGCACTG	0.572													3	11					0	0	0.361761	0	0		A	57905926	A	A	57905926	2	1	162	1	0	0	0	0	0	0	0	1	7741	1103	39	1		1	IMPAD1	8	57905926	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	19201639	57905926	88458096	66	88680											
PREX2	80243	broad.mit.edu	37	chr8	69046341	69046341	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tggttttctgccagactcttGtggccactgtctgtgccttc	3	16	10	12	0	3	1	0	0	3	1	4	1	3	1	3	2	2	1	3	2	0	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:69046341G>T	uc003xxv.1	+	32	3841	c.3814G>T	c.(3814-3816)GTG>TTG	p.V1272L		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1272					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CCAGACTCTTGTGGCCACTGT	0.473													32	53					2.32173e-10	2.41523e-10	0.804634	1	0		T	69046341	T	T	69046341	3	4	162	1	0	0	0	0	1	0	0	0	12499	1377	48	5	4169	5	PREX2	8	69046341	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	11140415	69046341	77317681	67	88681											
PDP1	54704	broad.mit.edu	37	chr8	94935067	94935067	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgatcctaattcttttctCaactacctggtgcttcgagt	7	16	8	10	1	2	1	1	1	2	0	5	2	3	1	2	2	3	1	2	2	3	6	rs140224111		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:94935067C>T	uc003yge.2	+	2	1049	c.780C>T	c.(778-780)CTC>CTT	p.L260L	PDP1_uc003ygf.2_Silent_p.L285L|PDP1_uc010max.2_Silent_p.L285L|PDP1_uc011lgm.1_Silent_p.L260L|PDP1_uc011lgn.1_Silent_p.L319L	NM_018444	NP_060914	Q9P0J1	PDP1_HUMAN	pyruvate dehyrogenase phosphatase catalytic	260					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						ATTCTTTTCTCAACTACCTGG	0.473													57	136					0	0	0.870114	0	0		T	94935067	T	T	94935067	2	4	162	1	0	0	0	0	0	0	0	1	11704	813	29	4		4	PDP1	8	94935067	Silent	SNP	C	TCGA-D7-5577-01A-01D-1600-08	25888726	94935067	51428955	68	88682											
DCAF13	25879	broad.mit.edu	37	chr8	104427608	104427608	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaagcggaagtcgcctgtggGaggaggtggcggtgggcgga	8	5	22	6	4	0	0	0	0	0	0	1	4	0	4	1	8	1	0	1	8	2	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:104427608G>A	uc003yln.2	+	1	667	c.390G>A	c.(388-390)GGG>GGA	p.G130G	SLC25A32_uc003yll.2_5'Flank|SLC25A32_uc011lhr.1_5'Flank|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						TCGCCTGTGGGAGGAGGTGGC	0.627													5	47					0	0	0.217242	0	0		A	104427608	A	A	104427608	2	1	162	1	0	0	0	0	0	0	0	1	4269	1161	41	4		4	DCAF13	8	104427608	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	9492541	104427608	41936414	69	88683											
TRPS1	7227	broad.mit.edu	37	chr8	116617160	116617160	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgcagaatttacagcggaAatacttggtgttcccttggc	10	13	10	8	1	0	1	0	0	0	1	1	2	1	2	1	3	4	2	1	3	4	7			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr8:116617160A>C	uc003ynz.2	-	3	1456	c.997T>G	c.(997-999)TTC>GTC	p.F333V	TRPS1_uc011lhy.1_Missense_Mutation_p.F337V|TRPS1_uc003yny.2_Missense_Mutation_p.F346V|TRPS1_uc010mcy.2_Missense_Mutation_p.F333V	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	333	C2H2-type 2; atypical.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TTACAGCGGAAATACTTGGTG	0.408									Langer-Giedion_syndrome				58	117					0	0	0.870114	0	0		C	116617160	C	C	116617160	3	2	162	1	0	0	0	0	1	0	0	0	16619	14	1	5	2864	5	TRPS1	8	116617160	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	12189552	116617160	29746862	70	88684											
VPS13A	23230	broad.mit.edu	37	chr9	79933352	79933352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaattggtacccaaaggcGagatgataaaaatgaacatt	17	9	9	6	1	0	4	0	3	0	1	0	5	0	4	1	2	2	1	1	2	7	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr9:79933352G>A	uc004akr.2	+	41	5418	c.5158G>A	c.(5158-5160)GAG>AAG	p.E1720K	VPS13A_uc004akp.3_Missense_Mutation_p.E1720K|VPS13A_uc004akq.3_Missense_Mutation_p.E1720K|VPS13A_uc004aks.2_Missense_Mutation_p.E1681K|VPS13A_uc004akt.2_Missense_Mutation_p.E60K|VPS13A_uc010mpo.1_Missense_Mutation_p.E316K	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1720					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ACCCAAAGGCGAGATGATAAA	0.353													65	127					0	0	0.870114	0	0		A	79933352	A	A	79933352	3	1	162	1	0	0	0	0	1	0	0	0	17215	1059	37	1	5320	1	VPS13A	9	79933352	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08		79933352	61280079	71	88685											
NR4A3	8013	broad.mit.edu	37	chr9	102590479	102590479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagatcacggctacagccaCcacgtccctgcccagcatca	10	6	8	17	2	2	1	2	1	0	1	3	2	3	1	4	1	4	2	4	1	1	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr9:102590479C>A	uc004baf.1	+	3	884	c.155C>A	c.(154-156)ACC>AAC	p.T52N	NR4A3_uc004bae.2_Missense_Mutation_p.T52N|NR4A3_uc004bag.1_Missense_Mutation_p.T52N|NR4A3_uc004bai.2_Missense_Mutation_p.T63N	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	52					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				GCTACAGCCACCACGTCCCTG	0.562			T	EWSR1	extraskeletal myxoid chondrosarcoma								27	44					5.45727e-16	5.83363e-16	0.729181	1	0		A	102590479	A	A	102590479	3	1	162	1	0	0	0	0	1	0	0	0	10653	507	18	5	194	5	NR4A3	9	102590479	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	22657127	102590479	38622952	72	88686											
ZBTB26	57684	broad.mit.edu	37	chr9	125681219	125681219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acttctgagaaaaggttttcCcacagattttacactggaaa	14	12	7	8	0	1	2	0	1	1	2	2	4	2	3	1	2	1	1	1	2	4	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr9:125681219C>T	uc004bnj.2	-	2	1207	c.995G>A	c.(994-996)GGG>GAG	p.G332E	ZBTB26_uc004bnk.2_Missense_Mutation_p.G332E	NM_020924	NP_065975	Q9HCK0	ZBT26_HUMAN	zinc finger and BTB domain containing 26	332	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGGTTTTCCCACAGATTTT	0.418													50	133					0	0	0.870114	0	0		T	125681219	T	T	125681219	3	4	162	1	0	0	0	0	1	0	0	0	17558	623	22	4	334	4	ZBTB26	9	125681219	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	23090740	125681219	15532212	73	88687											
STAM	8027	broad.mit.edu	37	chr10	17735260	17735260	+	Missense_Mutation	SNP	A	C	C	1	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	caagcccagctcttgtagccAaggatcctggtactgtggct	8	10	11	12	0	1	0	0	0	1	0	2	1	2	1	3	3	4	4	3	3	4	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr10:17735260A>C	uc001ipj.1	+	6	700	c.484A>C	c.(484-486)AAG>CAG	p.K162Q	STAM_uc010qcf.1_Missense_Mutation_p.K51Q|STAM_uc009xjw.1_5'Flank	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	162					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						TCTTGTAGCCAAGGATCCTGG	0.408													59	122					0	0	0.870114	0	0		C	17735260	C	C	17735260	3	2	162	1	0	0	0	0	1	0	0	0	15273	131	5	5	506	5	STAM	10	17735260	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08		17735260	117799487	74	88688											
MYO3A	53904	broad.mit.edu	37	chr10	26482178	26482178	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaatattgagacccccaagaCgaccccggaaacccaaaaca	18	3	6	14	2	0	2	0	1	0	2	0	5	0	3	5	1	2	0	5	1	6	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr10:26482178C>T	uc001isn.2	+	32	4843	c.4483C>T	c.(4483-4485)CGA>TGA	p.R1495*	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1495					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						ACCCCCAAGACGACCCCGGAA	0.378													48	42					0	0	0.870114	0	0		T	26482178	T	T	26482178	4	4	162	1	0	0	0	0	0	1	0	0	10094	528	19	1	4601	1	MYO3A	10	26482178	Nonsense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	8746918	26482178	109052569	75	88689											
KIAA0913	23053	broad.mit.edu	37	chr10	75556659	75556659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagcacgggggcccatctgCcccaggggccctgcaaccac	9	3	12	17	1	1	0	0	0	1	0	1	0	1	0	5	4	4	2	5	4	2	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr10:75556659C>T	uc009xrl.2	+	16	3178	c.3146C>T	c.(3145-3147)GCC>GTC	p.A1049V	KIAA0913_uc001jve.2_Missense_Mutation_p.A1054V|KIAA0913_uc001jvf.2_Missense_Mutation_p.A1049V|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Missense_Mutation_p.A484V|KIAA0913_uc010qkr.1_Missense_Mutation_p.A472V|KIAA0913_uc001jvj.2_Missense_Mutation_p.A472V|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1049							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					GGCCCATCTGCCCCAGGGGCC	0.632													25	80					0	0	0.693898	0	0		T	75556659	T	T	75556659	3	4	162	1	0	0	0	0	1	0	0	0	8216	739	26	2	3223	2	KIAA0913	10	75556659	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	49074481	75556659	59978088	76	88690											
PTEN	5728	broad.mit.edu	37	chr10	89692893	89692893	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagcaattcactgtaaagCtggaaagggacgaactggtg	13	8	13	7	1	1	0	1	0	0	0	1	3	1	2	0	3	4	4	0	3	5	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr10:89692893C>A	uc001kfb.2	+	6	1408	c.377C>A	c.(376-378)GCT>GAT	p.A126D		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	126	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.A126T(5)|p.R55fs*1(4)|p.A126D(3)|p.?(2)|p.Y27fs*1(2)|p.A126P(2)|p.Y27_N212>Y(2)|p.A121_F145del(1)|p.A126V(1)|p.A126S(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CACTGTAAAGCTGGAAAGGGA	0.408		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			76	76					7.427e-35	8.40281e-35	0.870114	1	0		A	89692893	A	A	89692893	3	1	162	1	0	0	0	0	1	0	0	0	12760	797	28	5	395	5	PTEN	10	89692893	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	14136234	89692893	45841854	77	88691											
PPRC1	23082	broad.mit.edu	37	chr10	103909733	103909733	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgtaaagagcaaatttgatTctcttgactttgacacattg	12	15	7	7	0	1	4	0	3	1	1	2	4	1	4	0	0	1	2	0	0	3	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr10:103909733T>C	uc001kum.2	+	14	4981	c.4942T>C	c.(4942-4944)TCT>CCT	p.S1648P	PPRC1_uc001kun.2_Missense_Mutation_p.S1526P|PPRC1_uc010qqj.1_Missense_Mutation_p.S1384P|PPRC1_uc009xxa.2_RNA|NOLC1_uc001kuo.2_5'Flank|NOLC1_uc001kup.2_5'Flank|NOLC1_uc001kuq.2_5'Flank|NOLC1_uc009xxb.1_5'Flank|NOLC1_uc001kur.2_5'Flank	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	1648					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		CAAATTTGATTCTCTTGACTT	0.468													89	210					0	0	0.870114	0	0		C	103909733	C	C	103909733	3	2	162	1	0	0	0	0	1	0	0	0	12432	1783	62	3	4996	3	PPRC1	10	103909733	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	14216840	103909733	31625014	78	88692											
SHOC2	8036	broad.mit.edu	37	chr10	112764475	112764475	+	Missense_Mutation	SNP	A	G	G	1	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	ctaccatctattccctcaacAtggaacacaatcgaatcaac	15	9	3	14	1	3	0	2	0	1	0	5	2	4	1	2	1	4	0	2	1	7	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr10:112764475A>G	uc001kzl.3	+	5	1433	c.1084A>G	c.(1084-1086)ATG>GTG	p.M362V	SHOC2_uc009xxx.2_Missense_Mutation_p.M362V|SHOC2_uc010qrg.1_Missense_Mutation_p.M1V|SHOC2_uc001kzn.2_Missense_Mutation_p.M316V	NM_007373	NP_031399	Q9UQ13	SHOC2_HUMAN	soc-2 suppressor of clear homolog	362	LRR 12.				fibroblast growth factor receptor signaling pathway|positive regulation of Ras protein signal transduction|Ras protein signal transduction	nucleus|protein phosphatase type 1 complex	protein phosphatase binding|protein phosphatase regulator activity			ovary(1)|skin(1)	2				Epithelial(162;0.000796)|all cancers(201;0.011)|BRCA - Breast invasive adenocarcinoma(275;0.126)		TTCCCTCAACATGGAACACAA	0.358													5	145					0	0	0.184627	0	0		G	112764475	G	G	112764475	3	3	162	1	0	0	0	0	1	0	0	0	14312	217	8	3	1098	3	SHOC2	10	112764475	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	8854742	112764475	22770272	79	88693											
LRDD	55367	broad.mit.edu	37	chr11	799981	799981	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggtgccaaggagaggccagCcccccgccgtggcccctcgg	5	3	16	17	3	0	1	0	0	0	1	1	2	0	1	8	5	2	0	8	5	1	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr11:799981C>G	uc001lro.1	-	15	2450	c.2308G>C	c.(2308-2310)GCT>CCT	p.A770P	SLC25A22_uc009yci.2_5'Flank|SLC25A22_uc001lrj.2_5'Flank|LRDD_uc009yck.1_RNA|LRDD_uc001lrk.1_Missense_Mutation_p.A753P|LRDD_uc001lrl.1_Missense_Mutation_p.A613P|LRDD_uc001lrm.1_Missense_Mutation_p.A457P|LRDD_uc001lrn.1_Missense_Mutation_p.A613P|LRDD_uc001lrp.1_Silent_p.G453G	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	770					apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGAGGCCAGCCCCCCGCCGT	0.622													8	30					0	0	0.335167	0	0		G	799981	G	G	799981	3	3	162	1	0	0	0	0	1	0	0	0	8954	739	26	5	432	5	LRDD	11	799981	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08		799981	134206535	80	88694											
MUC5B	727897	broad.mit.edu	37	chr11	1279575	1279575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaggacctcagctgtgttCgtacaatggcaccttctacg	8	11	9	13	2	2	0	1	0	1	0	4	1	3	1	3	2	3	4	3	2	3	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr11:1279575C>T	uc009ycr.1	+	65	17708	c.17582C>T	c.(17581-17583)TCG>TTG	p.S5861L	MUC5B_uc001ltb.2_Missense_Mutation_p.S5527L	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5524	VWFC 3.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CAGCTGTGTTCGTACAATGGC	0.647													12	28					0	0	0.411799	0	0		T	1279575	T	T	1279575	3	4	162	1	0	0	0	0	1	0	0	0	9997	893	31	1	16750	1	MUC5B	11	1279575	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	479594	1279575	133726941	81	88695											
CTSD	1509	broad.mit.edu	37	chr11	1776147	1776147	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	actactcactggtccaggtgGacctgccagtaggccttgcg	7	9	12	13	1	1	0	1	0	0	0	2	1	2	1	4	4	3	1	4	4	2	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr11:1776147G>A	uc001luc.1	-	6	949	c.816C>T	c.(814-816)GTC>GTT	p.V272V	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	272					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGTCCAGGTGGACCTGCCAGT	0.642													26	34					0	0	0.654019	0	0		A	1776147	A	A	1776147	2	1	162	1	0	0	0	0	0	0	0	1	4035	1161	41	4		4	CTSD	11	1776147	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	496572	1776147	133230369	82	88696											
C11orf94	143678	broad.mit.edu	37	chr11	45928464	45928464	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgagagttccaggggggcgGaaaatgcctcaggaacagac	12	4	16	9	2	1	2	1	0	0	2	2	5	2	4	2	5	2	1	2	5	3	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr11:45928464G>T	uc001nbs.3	-	2	168	c.131C>A	c.(130-132)TCC>TAC	p.S44Y		NM_001080446	NP_001073915	C9JXX5	CK094_HUMAN	hypothetical protein LOC143678	44						extracellular region					0						CAGGGGGGCGGAAAATGCCTC	0.622													17	73					4.7546e-09	4.84844e-09	0.500413	1	0		T	45928464	T	T	45928464	3	4	162	1	0	0	0	0	1	0	0	0	1676	1174	41	5	173	5	C11orf94	11	45928464	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	44152317	45928464	89078052	83	88697											
APLNR	187	broad.mit.edu	37	chr11	57003375	57003375	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggctgtaggggatggaTttctcgtgcatctgttctcc	4	15	12	10	1	3	0	0	0	3	0	6	2	4	2	2	4	1	4	2	4	1	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr11:57003375T>A	uc001njo.2	-	1	1553	c.1104A>T	c.(1102-1104)AAA>AAT	p.K368N	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	368	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						AGGGGATGGATTTCTCGTGCA	0.637													22	51					0	0	0.592651	0	0		A	57003375	A	A	57003375	3	1	162	1	0	0	0	0	1	0	0	0	777	1490	52	5	42	5	APLNR	11	57003375	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	11074911	57003375	78003141	84	88698											
ITPR2	3709	broad.mit.edu	37	chr12	26818914	26818914	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttagtgataaccacatccaGaacttcttgtccattattag	12	14	5	10	0	1	2	0	1	1	1	3	2	3	2	3	0	2	0	3	0	5	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr12:26818914G>T	uc001rhg.2	-	14	1897	c.1480C>A	c.(1480-1482)CTG>ATG	p.L494M		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	494	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					ACCACATCCAGAACTTCTTGT	0.333													48	117					1.47857e-17	1.59152e-17	0.870114	1	0		T	26818914	T	T	26818914	3	4	162	1	0	0	0	0	1	0	0	0	7937	933	33	5	6801	5	ITPR2	12	26818914	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08		26818914	107032981	85	88699											
NOS1	4842	broad.mit.edu	37	chr12	117665383	117665383	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catctggatagatgggaactCctccagcacctccacgatgg	10	8	10	13	1	1	1	0	0	1	1	4	4	4	3	4	3	2	1	4	3	2	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr12:117665383C>T	uc001twm.1	-	23	4155	c.3469G>A	c.(3469-3471)GAG>AAG	p.E1157K		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1157	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GATGGGAACTCCTCCAGCACC	0.587													47	119					0	0	0.870114	0	0		T	117665383	T	T	117665383	3	4	162	1	0	0	0	0	1	0	0	0	10560	864	30	4	863	4	NOS1	12	117665383	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	90846469	117665383	16186512	86	88700											
POLR1D	51082	broad.mit.edu	37	chr13	28239925	28239925	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaccatgaacaaaaagagggCgataaggaaccagcgaagag	19	2	13	7	2	0	3	0	1	0	2	0	7	0	4	2	2	3	0	2	2	6	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr13:28239925C>T	uc001urp.2	+	3	322	c.204C>T	c.(202-204)GGC>GGT	p.G68G	POLR1D_uc010aam.2_Silent_p.G40G|POLR1D_uc001urq.2_RNA	NM_152705	NP_689918	Q9Y2S0	RPAC2_HUMAN	polymerase (RNA) I polypeptide D isoform 2	Error:Variant_position_missing_in_Q9Y2S0_after_alignment					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	all cancers(112;0.0758)|OV - Ovarian serous cystadenocarcinoma(117;0.1)|Epithelial(112;0.213)		AAAAAGAGGGCGATAAGGAAC	0.453													5	99					0	0	0.184627	0	0		T	28239925	T	T	28239925	2	4	162	1	0	0	0	0	0	0	0	1	12231	755	27	1		1	POLR1D	13	28239925	Silent	SNP	C	TCGA-D7-5577-01A-01D-1600-08		28239925	86929953	87	88701											
NBEA	26960	broad.mit.edu	37	chr13	36124666	36124666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggatgttcagcgagatacGagctgtattttcaagacgtt	11	13	11	6	3	2	2	2	0	0	2	2	5	2	3	0	1	3	4	0	1	3	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr13:36124666G>A	uc001uvb.2	+	42	6844	c.6638G>A	c.(6637-6639)CGA>CAA	p.R2213Q	NBEA_uc010abi.2_Missense_Mutation_p.R869Q|NBEA_uc010tee.1_Missense_Mutation_p.R6Q|NBEA_uc010tef.1_Missense_Mutation_p.R6Q|NBEA_uc010teg.1_Missense_Mutation_p.R6Q	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2213						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		AGCGAGATACGAGCTGTATTT	0.358													26	70					0	0	0.681144	0	0		A	36124666	A	A	36124666	3	1	162	1	0	0	0	0	1	0	0	0	10205	1058	37	1	6804	1	NBEA	13	36124666	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	7884741	36124666	79045212	88	88702											
KLHL1	57626	broad.mit.edu	37	chr13	70275859	70275859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gttgcttgatgactaccacaCaggcacctgctctcccaata	10	10	7	14	0	1	2	0	2	1	0	2	2	1	2	3	1	3	4	3	1	3	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr13:70275859C>T	uc001vip.2	-	11	3016	c.2222G>A	c.(2221-2223)TGT>TAT	p.C741Y	KLHL1_uc010thm.1_Missense_Mutation_p.C680Y	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	741	Kelch 6.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		GACTACCACACAGGCACCTGC	0.318													18	81					0	0	0.592651	0	0		T	70275859	T	T	70275859	3	4	162	1	0	0	0	0	1	0	0	0	8381	478	17	4	28	4	KLHL1	13	70275859	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	34151193	70275859	44894019	89	88703											
NALCN	259232	broad.mit.edu	37	chr13	101747983	101747983	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcctcaattttaaatttaAgttctttgacacactgacat	13	15	5	8	0	2	2	1	2	1	0	2	2	2	2	1	1	0	1	1	1	4	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr13:101747983A>G	uc001vox.1	-	28	3400	c.3211T>C	c.(3211-3213)TTA>CTA	p.L1071L		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1071	Extracellular (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTTAAATTTAAGTTCTTTGAC	0.358													57	98					0	0	0.870114	0	0		G	101747983	G	G	101747983	2	3	162	1	0	0	0	0	0	0	0	1	10166	69	3	3		3	NALCN	13	101747983	Silent	SNP	A	TCGA-D7-5577-01A-01D-1600-08	31472124	101747983	13421895	90	88704											
BAG5	9529	broad.mit.edu	37	chr14	104027227	104027227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaaatgttctgtatttcaAtccggtgtgggtggtttgca	9	15	11	6	1	2	0	1	0	1	0	3	0	3	0	1	3	1	4	1	3	4	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr14:104027227A>G	uc001yni.1	-	2	509	c.275T>C	c.(274-276)ATT>ACT	p.I92T	KLC1_uc010tyd.1_5'Flank|BAG5_uc001ynh.1_Missense_Mutation_p.I133T|BAG5_uc001ynj.1_Missense_Mutation_p.I92T|C14orf153_uc001ynl.3_5'Flank|C14orf153_uc010tyc.1_5'Flank	NM_004873	NP_004864	Q9UL15	BAG5_HUMAN	BCL2-associated athanogene 5 isoform b	92					apoptosis|negative regulation of protein refolding|negative regulation of ubiquitin-protein ligase activity|neuron death|protein folding|regulation of inclusion body assembly	inclusion body|perinuclear region of cytoplasm	chaperone binding|ubiquitin protein ligase binding			ovary(2)	2		Melanoma(154;0.155)	Epithelial(46;0.144)			CTGTATTTCAATCCGGTGTGG	0.453													85	198					0	0	0.870114	0	0		G	104027227	G	G	104027227	3	3	162	1	0	0	0	0	1	0	0	0	1291	101	4	3	1072	3	BAG5	14	104027227	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08		104027227	3322313	91	88705											
BUB1B	701	broad.mit.edu	37	chr15	40462775	40462775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagaactatcctcaaggtGggaaggagagtaatatgtca	15	8	12	6	0	2	2	2	0	0	2	3	4	3	3	1	3	2	2	1	3	6	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr15:40462775G>A	uc001zkx.3	+	4	489	c.277G>A	c.(277-279)GGG>AGG	p.G93R		NM_001211	NP_001202	O60566	BUB1B_HUMAN	budding uninhibited by benzimidazoles 1 beta	93	BUB1 N-terminal.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell division|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|phosphatidylinositol-mediated signaling|protein localization to kinetochore|spindle organization	anaphase-promoting complex|condensed chromosome outer kinetochore|cytosol|microtubule organizing center|perinuclear region of cytoplasm|spindle midzone	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|kidney(1)	4		all_cancers(109;1.12e-18)|all_epithelial(112;1.61e-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;1.83e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0556)		TCCTCAAGGTGGGAAGGAGAG	0.378			Mis|N|F|S			rhabdomyosarcoma			Mosaic_Variegated_Aneuploidy_Syndrome				50	126					0	0	0.870114	0	0		A	40462775	A	A	40462775	3	1	162	1	0	0	0	0	1	0	0	0	1574	1348	47	4	291	4	BUB1B	15	40462775	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08		40462775	62068617	92	88706											
ATP8B4	79895	broad.mit.edu	37	chr15	50152452	50152452	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctgtggttttcttacatAaattttcaatccagctagtg	9	18	7	7	0	3	0	1	0	2	0	4	0	4	0	1	1	2	2	1	1	5	7			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr15:50152452A>T	uc001zxu.2	-	28	3660	c.3518T>A	c.(3517-3519)TTA>TAA	p.L1173*	ATP8B4_uc010ber.2_Nonsense_Mutation_p.L1046*|ATP8B4_uc010ufd.1_Nonsense_Mutation_p.L983*|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxt.2_Nonsense_Mutation_p.L176*	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	1173	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		TTTCTTACATAAATTTTCAAT	0.378													117	241					0	0	0.870114	0	0		T	50152452	T	T	50152452	4	4	162	1	0	0	0	0	0	1	0	0	1198	372	13	5	64	5	ATP8B4	15	50152452	Nonsense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	9689677	50152452	52378940	93	88707											
MAP2K1	5604	broad.mit.edu	37	chr15	66774131	66774131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcctagtcaactcccgtgggGagatcaagctctgtgacttt	8	12	10	11	1	3	2	2	1	1	1	5	3	5	2	2	2	2	1	2	2	3	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr15:66774131G>A	uc010bhq.2	+	6	1082	c.607G>A	c.(607-609)GAG>AAG	p.E203K	MAP2K1_uc010ujp.1_Missense_Mutation_p.E181K	NM_002755	NP_002746	Q02750	MP2K1_HUMAN	mitogen-activated protein kinase kinase 1	203	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle arrest|cellular senescence|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of cell proliferation|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|plasma membrane	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						CTCCCGTGGGGAGATCAAGCT	0.522									Cardiofaciocutaneous_syndrome				73	130					0	0	0.870114	0	0		A	66774131	A	A	66774131	3	1	162	1	0	0	0	0	1	0	0	0	9254	1175	41	4	629	4	MAP2K1	15	66774131	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	16621679	66774131	35757261	94	88708											
MEX3B	84206	broad.mit.edu	37	chr15	82335987	82335987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacccccggggaagaccacGgaggaggaagaagcagacga	14	0	15	12	3	0	3	0	0	0	3	0	8	0	7	4	5	1	1	4	5	3	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr15:82335987G>A	uc002bgq.1	-	2	1539	c.1224C>T	c.(1222-1224)TCC>TCT	p.S408S		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	408					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						GGAAGACCACGgaggaggaag	0.547													6	12					0	0	0.248553	0	0		A	82335987	A	A	82335987	2	1	162	1	0	0	0	0	0	0	0	1	9528	1103	39	1		1	MEX3B	15	82335987	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	15561856	82335987	20195405	95	88709											
SSTR5	6755	broad.mit.edu	37	chr16	1129558	1129558	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgtggtgaaggtgagggcGgcgggcgtgcgcgtgggctg	4	7	23	7	6	0	2	0	2	0	0	1	2	0	2	0	6	1	1	0	6	1	0	rs150799381		TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr16:1129558G>A	uc002ckq.2	+	1	778	c.690G>A	c.(688-690)GCG>GCA	p.A230A	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	230	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	AGGTGAGGGCGGCGGGCGTGC	0.677													7	11					0	0	0.27861	0	0		A	1129558	A	A	1129558	2	1	162	1	0	0	0	0	0	0	0	1	15226	1103	39	1		1	SSTR5	16	1129558	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08		1129558	89225195	96	88710											
ABCA3	21	broad.mit.edu	37	chr16	2350053	2350053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccaccaggtcctctggctCggcttcaaagtactcgtttc	6	11	9	15	3	2	0	1	0	1	0	6	0	3	0	3	3	1	4	3	3	2	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr16:2350053C>T	uc002cpy.1	-	13	2276	c.1564G>A	c.(1564-1566)GAG>AAG	p.E522K	ABCA3_uc010bsk.1_Missense_Mutation_p.E464K|ABCA3_uc010bsl.1_Missense_Mutation_p.E522K	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	522					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				TCCTCTGGCTCGGCTTCAAAG	0.617													82	134					0	0	0.870114	0	0		T	2350053	T	T	2350053	3	4	162	1	0	0	0	0	1	0	0	0	33	893	31	1	3634	1	ABCA3	16	2350053	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	1220495	2350053	88004700	97	88711											
PRPF8	10594	broad.mit.edu	37	chr17	1577953	1577953	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcctctgatgatcccatAtgaattcgtatggttcatgt	9	14	9	9	1	2	3	1	3	1	0	4	3	3	3	2	2	0	2	2	2	3	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr17:1577953A>T	uc002fte.2	-	21	3196	c.3082T>A	c.(3082-3084)TAT>AAT	p.Y1028N		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1028						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		ATGATCCCATATGAATTCGTA	0.453													79	218					0	0	0.870114	0	0		T	1577953	T	T	1577953	3	4	162	1	0	0	0	0	1	0	0	0	12597	449	16	5	4017	5	PRPF8	17	1577953	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08		1577953	79617257	98	88712											
MYH1	4619	broad.mit.edu	37	chr17	10397924	10397924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacttttctctcatgtttgcGtagacccttgacagcttcaa	8	15	6	12	1	3	2	2	1	1	1	4	2	3	2	1	0	2	3	1	0	2	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr17:10397924G>A	uc002gmo.2	-	38	5627	c.5533C>T	c.(5533-5535)CGC>TGC	p.R1845C	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1845	Potential.			R -> H (in Ref. 4; CAA27380).		muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TCATGTTTGCGTAGACCCTTG	0.393													60	171					0	0	0.870114	0	0		A	10397924	A	A	10397924	3	1	162	1	0	0	0	0	1	0	0	0	10047	1145	40	1	298	1	MYH1	17	10397924	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	8819971	10397924	70797286	99	88713											
CDRT1	374286	broad.mit.edu	37	chr17	15522558	15522558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcttgctgaggtcgatccggGacctgttatagatgaaatcc	9	12	11	9	2	1	3	0	2	1	1	4	5	3	4	3	2	1	2	3	2	3	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr17:15522558G>A	uc002gov.3	-	1	461	c.269C>T	c.(268-270)TCC>TTC	p.S90F	TRIM16_uc002gor.1_Intron	NM_006382	NP_006373	O95170	CDRT1_HUMAN	CMT1A duplicated region transcript 1	90											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(2;1.36e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0541)		GTCGATCCGGGACCTGTTATA	0.388													19	253					0	0	0.539581	0	0		A	15522558	A	A	15522558	3	1	162	1	0	0	0	0	1	0	0	0	3177	1174	41	4	2037	4	CDRT1	17	15522558	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	5124634	15522558	65672652	100	88714											
NOS2	4843	broad.mit.edu	37	chr17	26101464	26101464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgagtggtggtccatgatgGtcacattctgcttctgtatc	6	14	11	10	1	3	1	1	1	2	0	5	2	4	1	2	3	1	2	2	3	1	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr17:26101464G>A	uc002gzu.2	-	12	1559	c.1295C>T	c.(1294-1296)ACC>ATC	p.T432I	NOS2_uc010crh.1_Missense_Mutation_p.T432I|NOS2_uc010wab.1_Missense_Mutation_p.T432I	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	432					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GTCCATGATGGTCACATTCTG	0.577													30	69					0	0	0.760397	0	0		A	26101464	A	A	26101464	3	1	162	1	0	0	0	0	1	0	0	0	10562	1261	44	4	2230	4	NOS2	17	26101464	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	10578906	26101464	55093746	101	88715											
ZNF830	91603	broad.mit.edu	37	chr17	33289127	33289127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaaaaaggggggacgccaGcaagccgctctccgacgcac	13	2	13	13	4	1	1	0	0	1	1	2	3	1	2	3	3	2	3	3	3	4	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr17:33289127G>A	uc002hih.3	+	1	579	c.542G>A	c.(541-543)AGC>AAC	p.S181N	CCT6B_uc002hig.2_5'Flank|CCT6B_uc010ctg.2_5'Flank|CCT6B_uc010wcc.1_5'Flank	NM_052857	NP_443089	Q96NB3	ZN830_HUMAN	coiled-coil domain containing 16	181					cell division|mitosis	cytoplasm|nucleus	metal ion binding			breast(1)	1		Ovarian(249;0.17)				GGGGACGCCAGCAAGCCGCTC	0.428													3	41					0	0	0.150653	0	0		A	33289127	A	A	33289127	3	1	162	1	0	0	0	0	1	0	0	0	18209	971	34	2	544	2	ZNF830	17	33289127	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	7187663	33289127	47906083	102	88716											
HOXB9	3219	broad.mit.edu	37	chr17	46700468	46700468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgctttttccgggaagagcGagcgtgcagccagttggcgg	6	8	17	10	5	0	1	0	0	0	1	1	3	1	2	2	3	4	3	2	3	1	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr17:46700468G>A	uc002inx.2	-	2	751	c.547C>T	c.(547-549)CGC>TGC	p.R183C		NM_024017	NP_076922	P17482	HXB9_HUMAN	homeobox B9	183					canonical Wnt receptor signaling pathway|cell chemotaxis	mitochondrion|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CGGGAAGAGCGAGCGTGCAGC	0.552													50	115					0	0	0.870114	0	0		A	46700468	A	A	46700468	3	1	162	1	0	0	0	0	1	0	0	0	7324	1058	37	1	209	1	HOXB9	17	46700468	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	13411341	46700468	34494742	103	88717											
MRC2	9902	broad.mit.edu	37	chr17	60769610	60769610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgcttccagagaacccagCggccctggtggtggtgctga	7	7	15	12	2	0	2	0	1	0	1	1	3	1	2	3	4	4	2	3	4	1	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr17:60769610C>T	uc002jad.2	+	30	4640	c.4238C>T	c.(4237-4239)GCG>GTG	p.A1413V	MRC2_uc002jae.2_Missense_Mutation_p.A484V|MRC2_uc002jaf.2_Missense_Mutation_p.A279V	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	1413	Extracellular (Potential).				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GAGAACCCAGCGGCCCTGGTG	0.682													7	19					0	0	0.27861	0	0		T	60769610	T	T	60769610	3	4	162	1	0	0	0	0	1	0	0	0	9776	768	27	1	4356	1	MRC2	17	60769610	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	14069142	60769610	20425600	104	88718											
COLEC12	81035	broad.mit.edu	37	chr18	480756	480756	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcctctgcgaagtcGtctgtgagagaagaagagac	10	9	11	11	2	2	4	0	1	2	3	6	7	5	4	3	0	1	0	3	0	3	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr18:480756G>A	uc002kkm.2	-	2	224	c.9C>T	c.(7-9)GAC>GAT	p.D3D		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	3	Cytoplasmic (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				CTGCGAAGTCGTCTGTGAGAG	0.507													16	65					0	0	0.539581	0	0		A	480756	A	A	480756	2	1	162	1	0	0	0	0	0	0	0	1	3715	1159	40	1		1	COLEC12	18	480756	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08		480756	77596492	105	88719											
PTPRM	5797	broad.mit.edu	37	chr18	8076563	8076563	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgtaatcactttatatgagGtaatatatatgtttgttagt	12	19	8	2	0	1	1	1	1	0	0	1	1	1	1	0	1	0	4	0	1	8	10			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr18:8076563G>T	uc002knn.3	+	9	2054	c.1551_splice	c.e9+1	p.E517_splice	PTPRM_uc010dkv.2_Splice_Site_p.E517_splice|PTPRM_uc010wzl.1_Splice_Site_p.E304_splice	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M						homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TTTATATGAGGTAATATATAT	0.284													19	76					6.94344e-10	7.17489e-10	0.539581	1	0		T	8076563	T	T	8076563	5	4	162	1	0	0	0	0	0	0	1	0	12831	1275	44	5	1586	5	PTPRM	18	8076563	Splice_Site	SNP	G	TCGA-D7-5577-01A-01D-1600-08	7595807	8076563	70000685	106	88720											
MIB1	57534	broad.mit.edu	37	chr18	19383901	19383901	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctggccacacagctatgCaagctgctagtcagaatgga	11	8	12	10	0	1	1	1	0	0	1	1	2	1	2	1	2	5	5	1	2	4	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr18:19383901C>T	uc002ktq.2	+	10	1405	c.1405C>T	c.(1405-1407)CAA>TAA	p.Q469*	MIB1_uc002ktp.2_Nonsense_Mutation_p.Q108*	NM_020774	NP_065825	Q86YT6	MIB1_HUMAN	mindbomb homolog 1	469	ANK 2.				Notch signaling pathway	centrosome|nuclear membrane|plasma membrane	ubiquitin-protein ligase activity|zinc ion binding			ovary(4)	4			STAD - Stomach adenocarcinoma(5;0.212)			CACAGCTATGCAAGCTGCTAG	0.338													26	54					0	0	0.750413	0	0		T	19383901	T	T	19383901	4	4	162	1	0	0	0	0	0	1	0	0	9584	711	25	2	1443	2	MIB1	18	19383901	Nonsense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	11307338	19383901	58693347	107	88721											
ASXL3	80816	broad.mit.edu	37	chr18	31325922	31325922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcccccgcctcccccccCaccacctccgctacctccac	4	7	3	27	2	0	0	0	0	0	0	3	0	3	0	12	0	2	1	12	0	1	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr18:31325922C>T	uc010dmg.1	+	12	6165	c.6110C>T	c.(6109-6111)CCA>CTA	p.P2037L	ASXL3_uc002kxq.2_Missense_Mutation_p.P1744L	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	2037	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						cctccccccccaccacctccg	0.259													8	8					0	0	0.27861	0	0		T	31325922	T	T	31325922	3	4	162	1	0	0	0	0	1	0	0	0	1069	594	21	4	6156	4	ASXL3	18	31325922	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	11942021	31325922	46751326	108	88722											
TCEB3C	162699	broad.mit.edu	37	chr18	44555102	44555102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggtacagctgatcgggcGtccacccttccagaacgggt	7	8	13	13	4	0	2	0	1	0	1	3	2	2	2	3	3	4	2	3	3	2	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr18:44555102G>A	uc010xdb.1	-	1	1348	c.1112C>T	c.(1111-1113)ACG>ATG	p.T371M	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	371	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						CTGATCGGGCGTCCACCCTTC	0.582													18	777					0	0	0.706142	0	0		A	44555102	A	A	44555102	3	1	162	1	0	0	0	0	1	0	0	0	15708	1145	40	1	2175	1	TCEB3C	18	44555102	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	13229180	44555102	33522146	109	88723											
POLI	11201	broad.mit.edu	37	chr18	51813768	51813768	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attccttcacatgtaattcaGaaattagggacaggtatgga	14	12	9	6	0	2	1	2	0	0	1	3	3	3	3	1	3	0	2	1	3	4	6			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr18:51813768G>A	uc002lfj.3	+	8	1253	c.1185G>A	c.(1183-1185)CAG>CAA	p.Q395Q	POLI_uc010xds.1_Silent_p.Q316Q|POLI_uc002lfk.3_Silent_p.Q292Q|POLI_uc010dpg.2_5'UTR	NM_007195	NP_009126	Q9UNA4	POLI_HUMAN	DNA polymerase iota	395					DNA repair|DNA replication	nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding|protein binding			ovary(2)|kidney(1)	3				Colorectal(16;0.0234)|READ - Rectum adenocarcinoma(59;0.197)		ATGTAATTCAGAAATTAGGGA	0.403								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					6	11					0	0	0.217242	0	0		A	51813768	A	A	51813768	2	1	162	1	0	0	0	0	0	0	0	1	12222	933	33	4		4	POLI	18	51813768	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	7258666	51813768	26263480	110	88724											
ELAVL3	1995	broad.mit.edu	37	chr19	11565632	11565632	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccgacaggcccacgccCgccaggccgctcataccatc	7	3	8	23	4	1	0	1	0	0	0	2	1	1	0	8	2	1	1	8	2	1	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:11565632C>T	uc002mry.1	-	7	1193	c.813G>A	c.(811-813)GCG>GCA	p.A271A	ELAVL3_uc002mrx.1_Silent_p.A264A	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	271					cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						GGCCCACGCCCGCCAGGCCGC	0.582													8	128					0	0	0.435327	0	0		T	11565632	T	T	11565632	2	4	162	1	0	0	0	0	0	0	0	1	5059	639	23	1		1	ELAVL3	19	11565632	Silent	SNP	C	TCGA-D7-5577-01A-01D-1600-08		11565632	47563351	111	88725											
GTPBP3	84705	broad.mit.edu	37	chr19	17450345	17450345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcctgtgctgctgagcgacaCggctgggttgcgggagggcg	4	8	19	10	4	0	1	0	1	0	0	1	3	1	2	1	4	4	4	1	4	0	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:17450345C>T	uc010eas.2	+	7	976	c.911C>T	c.(910-912)ACG>ATG	p.T304M	GTPBP3_uc010xpo.1_Missense_Mutation_p.T326M|GTPBP3_uc010ear.1_RNA|GTPBP3_uc002ngh.3_Missense_Mutation_p.T304M|GTPBP3_uc002ngg.3_Missense_Mutation_p.T336M|GTPBP3_uc002ngi.3_Translation_Start_Site	NM_032620	NP_116009	Q969Y2	GTPB3_HUMAN	GTP binding protein 3 (mitochondrial) isoform V	304	GTP (Potential).				tRNA modification	mitochondrion	GTP binding|GTPase activity			skin(1)	1						CTGAGCGACACGGCTGGGTTG	0.721													24	33					0	0	0.667858	0	0		T	17450345	T	T	17450345	3	4	162	1	0	0	0	0	1	0	0	0	6897	536	19	1	1029	1	GTPBP3	19	17450345	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	5884713	17450345	41678638	112	88726											
ANKRD27	84079	broad.mit.edu	37	chr19	33090904	33090904	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaccagctgagtggacaaaGtaaaactgtcttgtaaaagg	15	9	11	6	0	1	2	0	2	1	0	1	3	1	3	1	2	2	3	1	2	5	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:33090904G>A	uc002ntn.1	-	27	2976	c.2820C>T	c.(2818-2820)TAC>TAT	p.Y940Y		NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	940					early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					AGTGGACAAAGTAAAACTGTC	0.249													21	109					0	0	0.654019	0	0		A	33090904	A	A	33090904	2	1	162	1	0	0	0	0	0	0	0	1	655	1024	36	4		4	ANKRD27	19	33090904	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	15640559	33090904	26038079	113	88727											
CD22	933	broad.mit.edu	37	chr19	35823667	35823667	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcacaaaggatgggaaGgttccttctgagcagaaaag	16	6	13	6	0	1	2	0	1	1	1	2	5	2	4	1	3	2	3	1	3	5	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:35823667G>A	uc010edt.2	+	3	329	c.252G>A	c.(250-252)AAG>AAA	p.K84K	CD22_uc010xst.1_5'UTR|CD22_uc010edu.2_Silent_p.K84K|CD22_uc010edv.2_Silent_p.K84K|CD22_uc002nzb.3_Silent_p.K84K	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	84	Extracellular (Potential).|Ig-like V-type.				cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	AGGATGGGAAGGTTCCTTCTG	0.478													20	157					0	0	0.608945	0	0		A	35823667	A	A	35823667	2	1	162	1	0	0	0	0	0	0	0	1	2988	991	35	4		4	CD22	19	35823667	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	2732763	35823667	23305316	114	88728											
KIR3DL1	3811	broad.mit.edu	37	chr19	55330051	55330051	+	Missense_Mutation	SNP	A	C	C	1	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	accccgtggtgatcatggtcAcaggtcagaggctttccgtc	7	10	12	12	2	3	2	3	1	0	1	5	2	4	2	3	4	0	1	3	4	0	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:55330051A>C	uc002qhk.3	+	3	415	c.352A>C	c.(352-354)ACA>CCA	p.T118P	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.T60P|KIR3DL1_uc010esf.2_Intron|KIR3DL1_uc010yfo.1_Missense_Mutation_p.T60P|KIR3DL1_uc002qhl.3_Missense_Mutation_p.T118P	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	118	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		GATCATGGTCACAGGTCAGAG	0.617													138	133					0	0	0.870114	0	0		C	55330051	C	C	55330051	3	2	162	1	0	0	0	0	1	0	0	0	8336	159	6	5	362	5	KIR3DL1	19	55330051	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	19506384	55330051	3798932	115	88729											
ZFP28	140612	broad.mit.edu	37	chr19	57058966	57058966	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaggaacttgtacaggaaGgtgatgttggagaactacag	14	8	14	5	0	0	3	0	1	0	2	0	6	0	5	0	4	4	2	0	4	5	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:57058966G>C	uc002qnj.2	+	3	461	c.390G>C	c.(388-390)AAG>AAC	p.K130N	ZFP28_uc002qni.2_Missense_Mutation_p.K130N|uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	130	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TGTACAGGAAGGTGATGTTGG	0.532													34	135					0	0	0.779181	0	0		C	57058966	C	C	57058966	3	2	162	1	0	0	0	0	1	0	0	0	17667	991	35	5	400	5	ZFP28	19	57058966	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	1728915	57058966	2070017	116	88730											
PEG3	5178	broad.mit.edu	37	chr19	57328826	57328826	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgactcccttgctcttccCgatttggaactgcgtgacac	6	13	8	14	2	1	2	0	2	1	0	3	4	3	3	2	1	3	1	2	1	1	4			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:57328826C>T	uc002qnu.2	-	7	1335	c.984G>A	c.(982-984)TCG>TCA	p.S328S	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.S299S|PEG3_uc002qnv.2_Silent_p.S328S|PEG3_uc002qnw.2_Silent_p.S204S|PEG3_uc002qnx.2_Silent_p.S202S|PEG3_uc010etr.2_Silent_p.S328S	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	328					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTGCTCTTCCCGATTTGGAAC	0.473													54	188					0	0	0.870114	0	0		T	57328826	T	T	57328826	2	4	162	1	0	0	0	0	0	0	0	1	11739	639	23	1		1	PEG3	19	57328826	Silent	SNP	C	TCGA-D7-5577-01A-01D-1600-08	269860	57328826	1800157	117	88731											
PEG3	5178	broad.mit.edu	37	chr19	57335782	57335782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcgatgatctcctccttgGtgcgggtctccggctgcaac	4	11	12	14	3	2	1	0	1	2	0	6	2	3	1	3	3	3	3	3	3	1	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:57335782G>A	uc002qnu.2	-	1	593	c.242C>T	c.(241-243)ACC>ATC	p.T81I	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_5'UTR|ZIM2_uc002qnq.2_5'UTR|ZIM2_uc010etp.2_5'UTR|ZIM2_uc010ygs.1_5'UTR|PEG3_uc002qnt.2_Missense_Mutation_p.T81I|PEG3_uc002qnv.2_Missense_Mutation_p.T81I|PEG3_uc002qnw.2_5'UTR|PEG3_uc002qnx.2_5'UTR|PEG3_uc010etr.2_Missense_Mutation_p.T81I	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	81	SCAN box.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CTCCTCCTTGGTGCGGGTCTC	0.527													154	114					0	0	0.870114	0	0		A	57335782	A	A	57335782	3	1	162	1	0	0	0	0	1	0	0	0	11739	1261	44	4		4	PEG3	19	57335782	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	6956	57335782	1793201	118	88732											
ZNF324	25799	broad.mit.edu	37	chr19	58982663	58982663	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcagcaaagtgttcgtgaaGagctccgacctcctcaagca	11	8	10	12	2	1	2	1	1	0	1	4	3	3	2	3	0	4	5	3	0	3	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr19:58982663G>C	uc002qsw.1	+	4	898	c.804G>C	c.(802-804)AAG>AAC	p.K268N	ZNF324_uc002qsx.1_Missense_Mutation_p.K45N	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	268	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		TGTTCGTGAAGAGCTCCGACC	0.657													7	46					0	0	0.411799	0	0		C	58982663	C	C	58982663	3	2	162	1	0	0	0	0	1	0	0	0	17869	933	33	5	814	5	ZNF324	19	58982663	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	1646881	58982663	146320	119	88733											
SIRPA	140885	broad.mit.edu	37	chr20	1902326	1902326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgcagggggaccctcttcGtgggactgccaacttgtctg	5	11	13	12	1	2	0	0	0	2	0	3	2	2	2	2	3	3	1	2	3	1	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr20:1902326G>A	uc002wfq.2	+	4	1082	c.722G>A	c.(721-723)CGT>CAT	p.R241H	SIRPA_uc010zps.1_Missense_Mutation_p.R221H|SIRPA_uc002wfr.2_Missense_Mutation_p.R241H|SIRPA_uc002wfs.2_Missense_Mutation_p.R241H|SIRPA_uc002wft.2_Missense_Mutation_p.R241H	NM_001040022	NP_001035111	P78324	SHPS1_HUMAN	signal-regulatory protein alpha precursor	241	Ig-like C1-type 1.|Extracellular (Potential).				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			ovary(1)	1				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		GACCCTCTTCGTGGGACTGCC	0.632													28	105					0	0	0.779181	0	0		A	1902326	A	A	1902326	3	1	162	1	0	0	0	0	1	0	0	0	14357	1145	40	1	732	1	SIRPA	20	1902326	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08		1902326	61123194	120	88734											
ZHX3	23051	broad.mit.edu	37	chr20	39832021	39832021	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaactggttccgacagaaGctccctttcagagctgacag	10	8	12	11	1	1	3	1	1	0	2	3	5	3	4	2	2	3	3	2	2	2	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr20:39832021G>A	uc002xjs.1	-	3	1914	c.1536C>T	c.(1534-1536)AGC>AGT	p.S512S	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Silent_p.S512S|ZHX3_uc002xjt.1_Silent_p.S512S|ZHX3_uc002xju.1_Silent_p.S512S|ZHX3_uc002xjv.1_Silent_p.S512S|ZHX3_uc002xjw.1_Silent_p.S512S|ZHX3_uc010ggg.1_Silent_p.S512S	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	512	Required for nuclear localization.|Homeobox 2.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				TCCGACAGAAGCTCCCTTTCA	0.507													28	72					0	0	0.681144	0	0		A	39832021	A	A	39832021	2	1	162	1	0	0	0	0	0	0	0	1	17702	962	34	2		2	ZHX3	20	39832021	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	37929695	39832021	23193499	121	88735											
DNTTIP1	116092	broad.mit.edu	37	chr20	44430674	44430674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggacacatcctgtcaagcGaccgggcagccgccggcatg	8	5	13	15	4	1	0	1	0	0	0	2	2	2	1	4	3	2	2	4	3	1	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr20:44430674G>A	uc002xpk.2	+	7	603	c.535G>A	c.(535-537)GAC>AAC	p.D179N		NM_052951	NP_443183	Q9H147	TDIF1_HUMAN	terminal deoxynucleotidyltransferase interacting	179						nucleus				ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.0122)				CCTGTCAAGCGACCGGGCAGC	0.597													16	62					0	0	0.592651	0	0		A	44430674	A	A	44430674	3	1	162	1	0	0	0	0	1	0	0	0	4687	1058	37	1	561	1	DNTTIP1	20	44430674	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	4598653	44430674	18594846	122	88736											
ZMYND8	23613	broad.mit.edu	37	chr20	45852980	45852980	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggcattacctgactgggtGcaggacttcatgtgctcagg	8	10	14	9	0	2	1	2	1	0	0	2	2	2	2	1	4	3	3	1	4	1	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr20:45852980G>T	uc002xta.1	-	19	3440	c.3186C>A	c.(3184-3186)TGC>TGA	p.C1062*	ZMYND8_uc010ghq.1_Nonsense_Mutation_p.C693*|ZMYND8_uc010ghr.1_Nonsense_Mutation_p.C964*|ZMYND8_uc002xst.1_Nonsense_Mutation_p.C944*|ZMYND8_uc002xsu.1_Nonsense_Mutation_p.C935*|ZMYND8_uc002xsv.1_Nonsense_Mutation_p.C990*|ZMYND8_uc002xsw.1_Nonsense_Mutation_p.C768*|ZMYND8_uc002xsx.1_Nonsense_Mutation_p.C768*|ZMYND8_uc002xsy.1_Nonsense_Mutation_p.C991*|ZMYND8_uc002xsz.1_Nonsense_Mutation_p.C953*|ZMYND8_uc010zxy.1_Nonsense_Mutation_p.C1089*|ZMYND8_uc002xtb.1_Nonsense_Mutation_p.C1036*|ZMYND8_uc002xss.2_Nonsense_Mutation_p.C1062*|ZMYND8_uc010zxz.1_Nonsense_Mutation_p.C930*|ZMYND8_uc002xtc.1_Nonsense_Mutation_p.C1036*|ZMYND8_uc002xtd.1_Nonsense_Mutation_p.C1011*|ZMYND8_uc002xte.1_Nonsense_Mutation_p.C1016*|ZMYND8_uc010zya.1_Nonsense_Mutation_p.C1062*|ZMYND8_uc002xtf.1_Nonsense_Mutation_p.C1082*|ZMYND8_uc002xsr.1_Nonsense_Mutation_p.C161*	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	1062	MYND-type.						protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CTGACTGGGTGCAGGACTTCA	0.582													42	118					4.64027e-19	5.101e-19	0.870114	1	0		T	45852980	T	T	45852980	4	4	162	1	0	0	0	0	0	1	0	0	17736	1311	46	5	478	5	ZMYND8	20	45852980	Nonsense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	1422306	45852980	17172540	123	88737											
PRPF6	24148	broad.mit.edu	37	chr20	62654204	62654204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagtgtgtggctgcgcgccgCgtacttcgagaagaaccatg	8	8	15	10	5	0	2	0	0	0	2	1	4	0	2	2	1	3	2	2	1	3	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr20:62654204C>T	uc002yho.2	+	13	1910	c.1742C>T	c.(1741-1743)GCG>GTG	p.A581V	PRPF6_uc002yhp.2_Missense_Mutation_p.A581V	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	581	HAT 4.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					CTGCGCGCCGCGTACTTCGAG	0.572													15	68					0	0	0.479597	0	0		T	62654204	T	T	62654204	3	4	162	1	0	0	0	0	1	0	0	0	12596	768	27	1	1792	1	PRPF6	20	62654204	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08	16801224	62654204	371316	124	88738											
MTMR3	8897	broad.mit.edu	37	chr22	30416326	30416326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacaagcctggtcgagaggcCccaagtggggtctgtggtgc	7	7	17	10	1	1	1	0	0	1	1	2	3	1	1	3	5	2	0	3	5	2	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr22:30416326C>T	uc003agv.3	+	17	3006	c.2678C>T	c.(2677-2679)CCC>CTC	p.P893L	MTMR3_uc003agu.3_Missense_Mutation_p.P893L|MTMR3_uc003agw.3_Missense_Mutation_p.P893L	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	893					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			GTCGAGAGGCCCCAAGTGGGG	0.552													28	59					0	0	0.740014	0	0		T	30416326	T	T	30416326	3	4	162	1	0	0	0	0	1	0	0	0	9963	623	22	4	2736	4	MTMR3	22	30416326	Missense_Mutation	SNP	C	TCGA-D7-5577-01A-01D-1600-08		30416326	20888240	125	88739											
DEPDC5	9681	broad.mit.edu	37	chr22	32218693	32218693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaggcacagcaattcccGccagcctggtgacggcatgt	8	7	12	14	2	0	1	0	1	0	0	1	1	1	1	3	3	3	4	3	3	1	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr22:32218693G>A	uc003als.2	+	24	2163	c.2021G>A	c.(2020-2022)CGC>CAC	p.R674H	DEPDC5_uc011als.1_Intron|DEPDC5_uc011alu.1_Missense_Mutation_p.R674H|DEPDC5_uc011alv.1_Intron|DEPDC5_uc003alt.2_Missense_Mutation_p.R674H|DEPDC5_uc003alu.2_Missense_Mutation_p.R114H|DEPDC5_uc003alv.2_Intron|DEPDC5_uc011alw.1_5'UTR|DEPDC5_uc011alt.1_Intron	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	674					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						AGCAATTCCCGCCAGCCTGGT	0.542													3	51					0	0	0.150653	0	0		A	32218693	A	A	32218693	3	1	162	1	0	0	0	0	1	0	0	0	4448	1087	38	1	2129	1	DEPDC5	22	32218693	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	1802367	32218693	19085873	126	88740											
PNPLA3	80339	broad.mit.edu	37	chr22	44335951	44335951	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccattaggataatgtcttAtgtaatgctgccctgtaccc	10	13	7	11	0	1	0	0	0	1	0	1	1	1	1	3	1	3	3	3	1	5	5			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chr22:44335951A>G	uc003bei.1	+	7	1231	c.1058A>G	c.(1057-1059)TAT>TGT	p.Y353C	PNPLA3_uc010gzm.1_RNA	NM_025225	NP_079501	Q9NST1	PLPL3_HUMAN	patatin-like phospholipase domain containing 3	353	Lumenal (Potential).				triglyceride biosynthetic process|triglyceride catabolic process	integral to membrane	diolein transacylation activity|mono-olein transacylation activity|phospholipase A2 activity|triglyceride lipase activity				0		Ovarian(80;0.024)|all_neural(38;0.0416)				ATAATGTCTTATGTAATGCTG	0.378													29	67					0	0	0.729181	0	0		G	44335951	G	G	44335951	3	3	162	1	0	0	0	0	1	0	0	0	12185	449	16	3	1084	3	PNPLA3	22	44335951	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	12117258	44335951	6968615	127	88741											
NLGN4X	57502	broad.mit.edu	37	chrX	5810979	5810979	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggaatcatggtgatggtgTttggcgtcataagtgggatg	8	14	16	3	1	2	1	2	1	0	0	2	3	2	3	0	5	0	1	0	5	2	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:5810979T>A	uc010ndh.2	-	6	2831	c.2330A>T	c.(2329-2331)AAC>ATC	p.N777I	NLGN4X_uc004crp.2_Missense_Mutation_p.N797I|NLGN4X_uc004crq.2_Missense_Mutation_p.N777I|NLGN4X_uc010ndi.2_Missense_Mutation_p.N814I|NLGN4X_uc004crr.2_Missense_Mutation_p.N777I|NLGN4X_uc010ndj.2_Missense_Mutation_p.N777I	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	777	Cytoplasmic (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GGTGATGGTGTTTGGCGTCAT	0.547													40	118					0	0	0.819951	0	0		A	5810979	A	A	5810979	3	1	162	1	0	0	0	0	1	0	0	0	10483	1725	60	5	124	5	NLGN4X	23	5810979	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08		5810979	149459581	128	88742											
WWC3	55841	broad.mit.edu	37	chrX	10093130	10093130	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaacccggcggggctggcGgtgaaggaagactgcaaagt	12	4	17	8	3	0	3	0	1	0	2	0	4	0	4	1	6	2	2	1	6	5	0			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:10093130G>A	uc004csx.3	+	14	2091	c.1893G>A	c.(1891-1893)GCG>GCA	p.A631A	WWC3_uc010nds.2_Silent_p.A295A|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	631	C2.									ovary(4)	4						CGGGGCTGGCGGTGAAGGAAG	0.612													4	16					0	0	0.150653	0	0		A	10093130	A	A	10093130	2	1	162	1	0	0	0	0	0	0	0	1	17439	1103	39	1		1	WWC3	23	10093130	Silent	SNP	G	TCGA-D7-5577-01A-01D-1600-08	4282151	10093130	145177430	129	88743											
CLCN5	1184	broad.mit.edu	37	chrX	49846487	49846487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaacaaatacaggaagaatGaagccaagcgcagagaggta	19	4	11	7	1	1	3	1	1	0	2	1	5	1	4	1	2	4	2	1	2	8	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:49846487G>A	uc004dos.1	+	6	954	c.706G>A	c.(706-708)GAA>AAA	p.E236K	CLCN5_uc004dor.1_Missense_Mutation_p.E306K|CLCN5_uc004doq.1_Missense_Mutation_p.E306K|CLCN5_uc004dot.1_Missense_Mutation_p.E236K	NM_000084	NP_000075	P51795	CLCN5_HUMAN	chloride channel 5 isoform b	236					excretion	apical part of cell|endosome membrane|Golgi membrane|integral to plasma membrane	antiporter activity|ATP binding			ovary(2)|lung(1)|central_nervous_system(1)	4	Ovarian(276;0.236)					CAGGAAGAATGAAGCCAAGCG	0.373													6	70					0	0	0.217242	0	0		A	49846487	A	A	49846487	3	1	162	1	0	0	0	0	1	0	0	0	3469	1291	45	4	942	4	CLCN5	23	49846487	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	39753357	49846487	105424073	130	88744											
ITIH5L	347365	broad.mit.edu	37	chrX	54823454	54823454	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcttcagcatgtggattaaAcaggacagaggtgaccaagg	13	7	14	7	0	1	2	1	1	0	1	1	4	1	4	1	5	2	2	1	5	3	2			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:54823454A>T	uc004dtj.2	-	2	208	c.178T>A	c.(178-180)TTT>ATT	p.F60I		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	60	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TGTGGATTAAACAGGACAGAG	0.478													41	95					0	0	0.819951	0	0		T	54823454	T	T	54823454	3	4	162	1	0	0	0	0	1	0	0	0	7924	43	2	5	3811	5	ITIH5L	23	54823454	Missense_Mutation	SNP	A	TCGA-D7-5577-01A-01D-1600-08	4976967	54823454	100447106	131	88745											
VSIG4	11326	broad.mit.edu	37	chrX	65242139	65242139	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgccctcagtggccagaaacTcataatccagaggaactgtg	12	8	10	11	0	2	2	2	0	0	2	3	3	3	3	3	2	3	0	3	2	3	1			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:65242139T>G	uc004dwh.2	-	8	1293	c.1166A>C	c.(1165-1167)GAG>GCG	p.E389A	VSIG4_uc004dwi.2_Missense_Mutation_p.E295A|VSIG4_uc010nkq.1_3'UTR|VSIG4_uc004dwj.2_3'UTR|VSIG4_uc011moy.1_3'UTR|VSIG4_uc004dwk.2_3'UTR|VSIG4_uc004dwl.2_Intron	NM_007268	NP_009199	Q9Y279	VSIG4_HUMAN	V-set and immunoglobulin domain containing 4	389	Cytoplasmic (Potential).				complement activation, alternative pathway	integral to membrane	protein binding				0						GGCCAGAAACTCATAATCCAG	0.512													15	94					0	0	0.520397	0	0		G	65242139	G	G	65242139	3	3	162	1	0	0	0	0	1	0	0	0	17251	1551	54	5	37	5	VSIG4	23	65242139	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	10418685	65242139	90028421	132	88746											
PCDH11X	27328	broad.mit.edu	37	chrX	91132785	91132785	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctccacctgaattcagcctgGattgtcgtacaggcatgctg	8	11	10	12	1	1	1	1	1	0	0	3	2	2	2	3	2	3	3	3	2	2	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:91132785G>T	uc004efk.1	+	2	2391	c.1546G>T	c.(1546-1548)GAT>TAT	p.D516Y	PCDH11X_uc004efl.1_Missense_Mutation_p.D516Y|PCDH11X_uc004efo.1_Missense_Mutation_p.D516Y|PCDH11X_uc010nmv.1_Missense_Mutation_p.D516Y|PCDH11X_uc004efm.1_Missense_Mutation_p.D516Y|PCDH11X_uc004efn.1_Missense_Mutation_p.D516Y|PCDH11X_uc004efh.1_Missense_Mutation_p.D516Y|PCDH11X_uc004efj.1_Missense_Mutation_p.D516Y	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	516	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATTCAGCCTGGATTGTCGTAC	0.438													51	125					6.08268e-21	6.7344e-21	0.870114	1	0		T	91132785	T	T	91132785	3	4	162	1	0	0	0	0	1	0	0	0	11527	1174	41	5	1552	5	PCDH11X	23	91132785	Missense_Mutation	SNP	G	TCGA-D7-5577-01A-01D-1600-08	25890646	91132785	64137775	133	88747											
BCORL1	63035	broad.mit.edu	37	chrX	129185952	129185952	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaactctcagacaagcctcTtctcccttgctacaacctcc	9	11	4	17	0	3	2	1	1	3	1	6	2	4	2	4	0	5	1	4	0	4	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:129185952T>G	uc004evb.1	+	12	4928	c.4814T>G	c.(4813-4815)CTT>CGT	p.L1605R	BCORL1_uc004evc.1_Missense_Mutation_p.L441R	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1605					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GACAAGCCTCTTCTCCCTTGC	0.527													65	114					0	0	0.870114	0	0		G	129185952	G	G	129185952	3	3	162	1	0	0	0	0	1	0	0	0	1388	1609	56	5	5082	5	BCORL1	23	129185952	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	38053167	129185952	26084608	134	88748											
PRRG3	79057	broad.mit.edu	37	chrX	150869083	150869084	+	Frame_Shift_Ins	INS	-	T	T																															ccttctgggggtggcactgcINStgattgtcatcgccttgttc																										TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:150869083_150869084insT	uc004few.1	+	4	664_665	c.274_275insT	c.(274-276)CTGfs	p.L92fs		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	92	Helical; (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GGTGGCACTGCTGATTGTCATC	0.579													159	314	---	---	---	---						.	T	150869084	T	T	150869083	7	5	162	1	0	1	1	0	0	0	0	0	12629	796	28	0	284	0	PRRG3	23	150869083	Frame_Shift_Ins	INS	-	TCGA-D7-5577-01A-01D-1600-08	21683131	150869083	4401477	135	88749											
F8	2157	broad.mit.edu	37	chrX	154088774	154088774	+	Missense_Mutation	SNP	T	G	G	0	1	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	gactgctggagatgaggaacTccttcacatacatgctggta	11	10	11	9	0	1	2	1	1	0	1	2	5	2	3	1	3	4	3	1	3	3	3			TCGA-D7-5577-01A-01D-1600-08	TCGA-D7-5577-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	f2e22c70-8295-481b-a853-e756e7a7d8e7	000c187a-0896-4c4a-81e8-36479b55b228	g.chrX:154088774T>G	uc004fmt.2	-	25	7004	c.6833A>C	c.(6832-6834)GAG>GCG	p.E2278A	F8_uc004fms.2_Missense_Mutation_p.E143A	NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	2278	F5/8 type C 2.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	GATGAGGAACTCCTTCACATA	0.418													93	227					0	0	0.870114	0	0		G	154088774	G	G	154088774	3	3	162	1	0	0	0	0	1	0	0	0	5358	1551	54	5	230	5	F8	23	154088774	Missense_Mutation	SNP	T	TCGA-D7-5577-01A-01D-1600-08	3219691	154088774	1181786	136	88750											
AGTRAP	57085	broad.mit.edu	37	chr1	11808641	11808641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccacatgtaccgggagcGcgggggtgagctcctggtcc	6	7	15	13	3	0	1	0	1	0	0	2	2	2	2	4	4	4	2	4	4	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:11808641G>A	uc001asv.2	+	4	462	c.338G>A	c.(337-339)CGC>CAC	p.R113H	AGTRAP_uc001ast.2_Silent_p.A145A|AGTRAP_uc001asu.2_Silent_p.A145A|AGTRAP_uc001asw.2_Missense_Mutation_p.R113H|AGTRAP_uc001asx.2_Silent_p.A101A	NM_020350	NP_065083	Q6RW13	ATRAP_HUMAN	angiotensin II receptor-associated protein	113	Cytoplasmic (Potential).|Interaction with AGTR1.					cytoplasmic vesicle membrane|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein binding		AGTRAP/BRAF(2)	stomach(2)	2	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;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.46e-06)|COAD - Colon adenocarcinoma(227;0.000256)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		TACCGGGAGCGCGGGGGTGAG	0.662													13	31					0	0	0.00499	0	0		A	11808641	A	A	11808641	3	1	163	1	0	0	0	0	1	0	0	0	403	1087	38	1	453	1	AGTRAP	1	11808641	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		11808641	237441980	1	88751											
PRDM2	7799	broad.mit.edu	37	chr1	14105854	14105854	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacggcgaaaaggaggccttGaagagccccagcctccagca	12	4	12	13	2	0	2	0	1	0	1	1	4	1	3	5	3	4	1	5	3	4	2	rs148030242	by1000genomes	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:14105854G>C	uc001avi.2	+	8	2420	c.1564G>C	c.(1564-1566)GAA>CAA	p.E522Q	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.E522Q|PRDM2_uc001avj.2_Intron|PRDM2_uc009vod.1_Missense_Mutation_p.E279Q|PRDM2_uc001avk.2_Missense_Mutation_p.E321Q|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	522						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		AGGAGGCCTTGAAGAGCCCCA	0.512													5	72					0	0	0.000602	0	0		C	14105854	C	C	14105854	3	2	163	1	0	0	0	0	1	0	0	0	12480	1291	45	5	1590	5	PRDM2	1	14105854	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	2297213	14105854	235144767	2	88752											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809393	18809393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggaaatcttcgtcaccGgcggctcgctgcgcttcctg	6	9	11	15	5	2	0	1	0	1	0	5	1	3	1	3	3	1	3	3	3	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:18809393G>A	uc001bax.2	+	1	1970	c.1918G>A	c.(1918-1920)GGC>AGC	p.G640S	KLHDC7A_uc009vpg.2_Missense_Mutation_p.G422S	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	640	Kelch 5.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CTTCGTCACCGGCGGCTCGCT	0.716													4	10					0	0	0.000602	0	0		A	18809393	A	A	18809393	3	1	163	1	0	0	0	0	1	0	0	0	8376	1116	39	1	1920	1	KLHDC7A	1	18809393	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	4703539	18809393	230441228	3	88753											
TAS1R2	80834	broad.mit.edu	37	chr1	19181079	19181079	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggaggcgatccacacggcGccagtgaagttctggcgcag	8	6	15	12	5	1	1	0	1	1	0	3	3	2	2	2	4	0	2	2	4	1	1	rs148401055		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:19181079G>A	uc001bba.1	-	3	886	c.885C>T	c.(883-885)GGC>GGT	p.G295G		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	295	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		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)	TCCACACGGCGCCAGTGAAGT	0.632													13	25					0	0	0.00245	0	0		A	19181079	A	A	19181079	2	1	163	1	0	0	0	0	0	0	0	1	15588	1074	38	1		1	TAS1R2	1	19181079	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	371686	19181079	230069542	4	88754											
TAS1R2	80834	broad.mit.edu	37	chr1	19181261	19181261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcagcgtctcctggaaggCgatgcagatgtcgcgccggg	6	6	18	11	5	1	1	0	0	1	1	3	3	1	2	2	4	2	2	2	4	1	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:19181261C>T	uc001bba.1	-	3	704	c.703G>A	c.(703-705)GCC>ACC	p.A235T		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	235	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		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)	TCCTGGAAGGCGATGCAGATG	0.637													3	10					0	0	0.001168	0	0		T	19181261	T	T	19181261	3	4	163	1	0	0	0	0	1	0	0	0	15588	768	27	1	1832	1	TAS1R2	1	19181261	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	182	19181261	230069360	5	88755											
RUNX3	864	broad.mit.edu	37	chr1	25229132	25229132	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggtcaaactggcgggggtcGgagaatgggttcagttccga	8	8	17	8	4	2	1	2	0	0	1	4	3	3	1	1	6	1	2	1	6	2	2	rs144597350		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:25229132G>A	uc001bjq.2	-	5	1140	c.729C>T	c.(727-729)TCC>TCT	p.S243S	RUNX3_uc010oen.1_Silent_p.S190S|RUNX3_uc009vrj.2_Silent_p.S257S|RUNX3_uc001bjr.2_Silent_p.S257S|RUNX3_uc001bjs.2_RNA	NM_004350	NP_004341	Q13761	RUNX3_HUMAN	runt-related transcription factor 3 isoform 2	243	Pro/Ser/Thr-rich.				cell proliferation|induction of apoptosis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|protein phosphorylation|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00131)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.85e-26)|Colorectal(126;4.35e-08)|COAD - Colon adenocarcinoma(152;1.92e-06)|GBM - Glioblastoma multiforme(114;0.000102)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00148)|BRCA - Breast invasive adenocarcinoma(304;0.00173)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.136)		GGCGGGGGTCGGAGAATGGGT	0.622													37	81					0	0	0.004289	0	0		A	25229132	A	A	25229132	2	1	163	1	0	0	0	0	0	0	0	1	13774	1103	39	1		1	RUNX3	1	25229132	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	6047871	25229132	224021489	6	88756											
GNL2	29889	broad.mit.edu	37	chr1	38058379	38058379	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccgttgattgatattgcaGgggtttaattattttaccac	10	16	8	7	1	0	2	0	2	0	0	0	2	0	2	2	2	2	3	2	2	4	9			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:38058379G>C	uc001cbk.2	-	3	341	c.178C>G	c.(178-180)CTG>GTG	p.L60V	GNL2_uc010oif.1_5'UTR|GNL2_uc009vve.2_Missense_Mutation_p.L60V	NM_013285	NP_037417	Q13823	NOG2_HUMAN	guanine nucleotide binding protein-like 2	60					ribosome biogenesis	nucleolus	GTP binding|GTPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(586;0.0393)				TGATATTGCAGGGGTTTAATT	0.378													19	238					0	0	0.010504	0	0		C	38058379	C	C	38058379	3	2	163	1	0	0	0	0	1	0	0	0	6551	991	35	5	2073	5	GNL2	1	38058379	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	12829247	38058379	211192242	7	88757											
PTCH2	8643	broad.mit.edu	37	chr1	45292345	45292345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctctgcgcatgctgcccGggccccctcgatggcctcca	3	7	12	19	3	1	0	0	0	1	0	3	1	2	0	6	3	3	2	6	3	0	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:45292345G>A	uc010olf.1	-	18	2803	c.2791C>T	c.(2791-2793)CGG>TGG	p.R931W	PTCH2_uc010olg.1_Missense_Mutation_p.R629W	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	931	Extracellular (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					CATGCTGCCCGGGCCCCCTCG	0.667									Basal_Cell_Nevus_syndrome				6	13					0	0	0.001984	0	0		A	45292345	A	A	45292345	3	1	163	1	0	0	0	0	1	0	0	0	12753	1115	39	1	860	1	PTCH2	1	45292345	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	7233966	45292345	203958276	8	88758											
ZCCHC11	23318	broad.mit.edu	37	chr1	52991676	52991676	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgctttgcaatgactttGatctcgaaggactaacccca	10	14	7	10	1	1	2	0	2	1	0	2	4	1	3	2	1	3	2	2	1	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:52991676G>A	uc001ctx.2	-	2	511	c.277C>T	c.(277-279)CAA>TAA	p.Q93*	ZCCHC11_uc001cty.2_Nonsense_Mutation_p.Q93*|ZCCHC11_uc001ctz.2_Nonsense_Mutation_p.Q93*|ZCCHC11_uc009vze.1_Nonsense_Mutation_p.Q93*|ZCCHC11_uc009vzf.1_Intron|ZCCHC11_uc001cub.2_Nonsense_Mutation_p.Q93*|ZCCHC11_uc001cuc.2_RNA|ZCCHC11_uc001cud.2_Nonsense_Mutation_p.Q93*	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	93					miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						CAATGACTTTGATCTCGAAGG	0.378													8	393					0	0	0.004482	0	0		A	52991676	A	A	52991676	4	1	163	1	0	0	0	0	0	1	0	0	17605	1299	45	4	4776	4	ZCCHC11	1	52991676	Nonsense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	7699331	52991676	196258945	9	88759											
ST6GALNAC3	256435	broad.mit.edu	37	chr1	76878075	76878075	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgagttactgtgatggagTttttaagaaggaaactggga	13	12	13	3	0	0	3	0	2	0	1	0	6	0	6	0	3	2	2	0	3	4	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:76878075T>A	uc001dhh.2	+	3	759	c.596T>A	c.(595-597)GTT>GAT	p.V199D	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.V199D|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.V134D	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	199	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						TGTGATGGAGTTTTTAAGAAG	0.398													42	95					0	0	0.00874	0	0		A	76878075	A	A	76878075	3	1	163	1	0	0	0	0	1	0	0	0	15250	1725	60	5	606	5	ST6GALNAC3	1	76878075	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	23886399	76878075	172372546	10	88760											
ODF2L	57489	broad.mit.edu	37	chr1	86826217	86826217	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttcaaagcagcaagtgtAgtctagcaaaaaagatatag	17	9	8	7	0	2	1	1	0	1	1	3	1	3	1	1	0	3	4	1	0	9	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:86826217A>G	uc001dll.1	-	12	1486	c.1146T>C	c.(1144-1146)ACT>ACC	p.T382T	ODF2L_uc001dlm.1_Silent_p.T353T|ODF2L_uc001dln.2_Silent_p.T353T|ODF2L_uc001dlo.2_Silent_p.T222T|ODF2L_uc001dlp.2_Silent_p.T382T|ODF2L_uc010osg.1_Silent_p.T353T|ODF2L_uc001dlq.1_Silent_p.T183T|ODF2L_uc009wcr.1_Silent_p.T222T	NM_020729	NP_065780	Q9ULJ1	ODF2L_HUMAN	outer dense fiber of sperm tails 2-like isoform	382	Potential.					centrosome				ovary(1)	1				all cancers(265;0.0313)|Epithelial(280;0.0611)		CAGCAAGTGTAGTCTAGCAAA	0.279													36	109					0	0	0.004878	0	0		G	86826217	G	G	86826217	2	3	163	1	0	0	0	0	0	0	0	1	10847	407	15	3		3	ODF2L	1	86826217	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	9948142	86826217	162424404	11	88761											
NOTCH2	4853	broad.mit.edu	37	chr1	120462932	120462932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccagcgatggtgtcctaCggatgtctgcagcttcaagg	8	9	14	10	2	2	0	1	0	1	0	3	3	3	1	2	3	5	2	2	3	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:120462932C>T	uc001eik.2	-	30	5655	c.5399G>A	c.(5398-5400)CGT>CAT	p.R1800H		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1800	Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGGTGTCCTACGGATGTCTGC	0.567			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				17	96					0	0	0.008871	0	0		T	120462932	T	T	120462932	3	4	163	1	0	0	0	0	1	0	0	0	10567	536	19	1	2036	1	NOTCH2	1	120462932	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	33636715	120462932	128787689	12	88762											
MLLT11	10962	broad.mit.edu	37	chr1	151039794	151039794	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cggagctggaaggcctgggtCtgtcagatacagccacctac	9	7	13	12	1	2	1	1	0	1	1	2	3	2	3	3	4	4	1	3	4	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:151039794C>G	uc001ewq.2	+	2	979	c.94C>G	c.(94-96)CTG>GTG	p.L32V		NM_006818	NP_006809	Q13015	AF1Q_HUMAN	MLLT11 protein	32					positive regulation of apoptosis|positive regulation of mitochondrial depolarization|positive regulation of release of cytochrome c from mitochondria|positive regulation of transcription, DNA-dependent						0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			AGGCCTGGGTCTGTCAGATAC	0.532													61	175					0	0	0.01441	0	0		G	151039794	G	G	151039794	3	3	163	1	0	0	0	0	1	0	0	0	9645	912	32	5	96	5	MLLT11	1	151039794	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	30576862	151039794	98210827	13	88763											
TCHH	7062	broad.mit.edu	37	chr1	152084947	152084947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccttccggagcactgtctcgCgcttcctccactctttctct	3	14	6	18	3	3	0	0	0	3	0	8	1	6	1	4	1	1	2	4	1	0	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:152084947C>T	uc001ezp.2	-	2	746	c.746G>A	c.(745-747)CGC>CAC	p.R249H	TCHH_uc009wne.1_Missense_Mutation_p.R249H	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	249					keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CACTGTCTCGCGCTTCCTCCA	0.582													66	182					0	0	0.01441	0	0		T	152084947	T	T	152084947	3	4	163	1	0	0	0	0	1	0	0	0	15725	768	27	1	5089	1	TCHH	1	152084947	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1045153	152084947	97165674	14	88764											
PGLYRP3	114771	broad.mit.edu	37	chr1	153274943	153274943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaaggactgtatgtttcggaCgacagtctggcagtctgtgg	9	11	14	7	2	2	0	0	0	2	0	3	3	2	2	0	4	0	3	0	4	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:153274943C>T	uc001fbn.1	-	5	723	c.670G>A	c.(670-672)GTC>ATC	p.V224I		NM_052891	NP_443123	Q96LB9	PGRP3_HUMAN	peptidoglycan recognition protein 3 precursor	224					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4	all_lung(78;3.35e-32)|Lung NSC(65;1.22e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			ATGTTTCGGACGACAGTCTGG	0.468													63	176					0	0	0.01441	0	0		T	153274943	T	T	153274943	3	4	163	1	0	0	0	0	1	0	0	0	11814	536	19	1	367	1	PGLYRP3	1	153274943	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1189996	153274943	95975678	15	88765											
NPR1	4881	broad.mit.edu	37	chr1	153653765	153653765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caacttcaccatggaggatgGcctggtaagaaggggtcccg	10	7	14	10	1	1	1	1	0	0	1	2	3	2	3	3	6	1	1	3	6	3	2	rs17855820		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:153653765G>A	uc001fcs.3	+	3	1452	c.1031G>A	c.(1030-1032)GGC>GAC	p.G344D	NPR1_uc010pdz.1_Missense_Mutation_p.G90D	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	344	Extracellular (Potential).			G -> V (in Ref. 7; AAH63304).	body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	ATGGAGGATGGCCTGGTAAGA	0.537													38	47					0	0	0.005524	0	0		A	153653765	A	A	153653765	3	1	163	1	0	0	0	0	1	0	0	0	10613	1203	42	2	1041	2	NPR1	1	153653765	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	378822	153653765	95596856	16	88766											
MSTO1	55154	broad.mit.edu	37	chr1	155583270	155583270	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cagccagctcaccccagggaCacctccaccctctgcccttc	7	6	6	22	0	2	0	1	0	1	0	4	1	3	1	7	1	3	1	7	1	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:155583270C>A	uc001fky.2	+	12	1334	c.1301C>A	c.(1300-1302)ACA>AAA	p.T434K	MSTO1_uc001fkw.2_Missense_Mutation_p.T434K|MSTO1_uc001fkx.2_Missense_Mutation_p.T434K|MSTO1_uc001fla.2_Missense_Mutation_p.T253K|MSTO1_uc001fkz.2_Missense_Mutation_p.T365K|MSTO1_uc001fld.3_Missense_Mutation_p.T256K|MSTO1_uc009wqs.2_Missense_Mutation_p.T313K|MSTO1_uc010pgf.1_Missense_Mutation_p.T379K|MSTO1_uc001flb.2_Missense_Mutation_p.D315E|MSTO1_uc001flc.2_Missense_Mutation_p.T256K	NM_018116	NP_060586	Q9BUK6	MSTO1_HUMAN	misato	434					mitochondrion distribution|protein polymerization	mitochondrial outer membrane|protein complex					0	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)					ACCCCAGGGACACCTCCACCC	0.502													12	51					2.31682e-05	2.42949e-05	0.003163	1	0		A	155583270	A	A	155583270	3	1	163	1	0	0	0	0	1	0	0	0	9912	478	17	5	1347	5	MSTO1	1	155583270	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1929505	155583270	93667351	17	88767											
SPTA1	6708	broad.mit.edu	37	chr1	158589972	158589972	+	Silent	SNP	A	G	G	1	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	caggttacctcaatgatgtcAgataggtgcttccaggtcct	9	12	10	10	0	2	2	2	1	0	1	4	2	4	2	3	3	2	2	3	3	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:158589972A>G	uc001fst.1	-	44	6604	c.6405T>C	c.(6403-6405)TCT>TCC	p.S2135S		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2135	Spectrin 20.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CAATGATGTCAGATAGGTGCT	0.373													70	208					0	0	0.01441	0	0		G	158589972	G	G	158589972	2	3	163	1	0	0	0	0	0	0	0	1	15141	175	7	3		3	SPTA1	1	158589972	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	3006702	158589972	90660649	18	88768											
SPTA1	6708	broad.mit.edu	37	chr1	158647617	158647617	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatccactggatggcttcagTcacatccctgcagtcattaa	10	11	8	12	0	3	0	3	0	0	0	5	2	5	1	2	2	1	2	2	2	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:158647617T>C	uc001fst.1	-	7	1019	c.820A>G	c.(820-822)ACT>GCT	p.T274A		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	274	Spectrin 4.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					ATGGCTTCAGTCACATCCCTG	0.478													43	75					0	0	0.01441	0	0		C	158647617	C	C	158647617	3	2	163	1	0	0	0	0	1	0	0	0	15141	1667	58	3	6623	3	SPTA1	1	158647617	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	57645	158647617	90603004	19	88769											
CCDC19	25790	broad.mit.edu	37	chr1	159846399	159846399	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacctgaacagccagagcGtgctccttgaaagccacctg	10	7	10	14	1	0	3	0	2	0	1	1	3	1	3	5	0	6	2	5	0	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:159846399G>A	uc001fui.2	-	10	1317	c.1299C>T	c.(1297-1299)CAC>CAT	p.H433H	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Silent_p.H348H|CCDC19_uc001ful.2_Silent_p.H348H|CCDC19_uc009wtc.1_3'UTR	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	433	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			CAGCCAGAGCGTGCTCCTTGA	0.542													22	32					0	0	0.014323	0	0		A	159846399	A	A	159846399	2	1	163	1	0	0	0	0	0	0	0	1	2798	1136	40	1		1	CCDC19	1	159846399	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	1198782	159846399	89404222	20	88770											
FMO1	2326	broad.mit.edu	37	chr1	171249946	171249946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttcctcagcaccaccggaGggggatgggtgatcagccga	8	7	15	11	2	2	1	2	1	0	0	3	4	3	3	4	4	2	2	4	4	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:171249946G>A	uc009wvz.2	+	6	785	c.649G>A	c.(649-651)GGG>AGG	p.G217R	FMO1_uc010pme.1_Missense_Mutation_p.G154R|FMO1_uc001ghl.2_Missense_Mutation_p.G217R|FMO1_uc001ghm.2_Missense_Mutation_p.G217R|FMO1_uc001ghn.2_Missense_Mutation_p.G217R	NM_002021	NP_002012	Q01740	FMO1_HUMAN	flavin containing monooxygenase 1	217					NADPH oxidation|organic acid metabolic process|toxin metabolic process|xenobiotic metabolic process	endoplasmic reticulum lumen|integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CACCACCGGAGGGGGATGGGT	0.522													30	110					0	0	0.009535	0	0		A	171249946	A	A	171249946	3	1	163	1	0	0	0	0	1	0	0	0	5968	1000	35	4	667	4	FMO1	1	171249946	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	11403547	171249946	78000675	21	88771											
RD3	343035	broad.mit.edu	37	chr1	211654555	211654555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaggtcataggtggacCggggtgtgctggccagccag	6	7	19	9	1	1	1	1	1	0	0	1	2	1	2	3	7	2	2	3	7	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:211654555C>T	uc001him.2	-	2	1367	c.203G>A	c.(202-204)CGG>CAG	p.R68Q	RD3_uc001hin.2_RNA|RD3_uc009xda.2_Intron	NM_183059	NP_898882	Q7Z3Z2	RD3_HUMAN	retinal degeneration 3	68			R -> W.		response to stimulus|visual perception					ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00284)|all cancers(67;0.0279)|Epithelial(68;0.0689)		ATAGGTGGACCGGGGTGTGCT	0.607													42	47					0	0	0.010771	0	0		T	211654555	T	T	211654555	3	4	163	1	0	0	0	0	1	0	0	0	13212	652	23	1	392	1	RD3	1	211654555	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	40404609	211654555	37596066	22	88772											
HLX	3142	broad.mit.edu	37	chr1	221057864	221057864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtggtgggagcagcggcGgcggcggcaatagtttcagc	7	6	20	8	4	1	0	1	0	0	0	1	2	1	2	0	7	3	3	0	7	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:221057864G>A	uc001hmv.3	+	4	1742	c.1285G>A	c.(1285-1287)GGC>AGC	p.G429S		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	429	Ser-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		gagcagcggcggcggcggcaa	0.229													5	9					0	0	0.000602	0	0		A	221057864	A	A	221057864	3	1	163	1	0	0	0	0	1	0	0	0	7232	1116	39	1	1299	1	HLX	1	221057864	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	9403309	221057864	28192757	23	88773											
HEATR1	55127	broad.mit.edu	37	chr1	236730096	236730096	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctccgggacgtgtggcagCgcatccacaaatacactaat	11	8	10	12	3	0	0	0	0	0	0	2	1	2	1	2	2	3	3	2	2	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:236730096C>G	uc001hyd.1	-	30	4283	c.4158G>C	c.(4156-4158)GCG>GCC	p.A1386A	HEATR1_uc009xgh.1_Silent_p.A548A	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1386					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CGTGTGGCAGCGCATCCACAA	0.453													18	83					0	0	0.012319	0	0		G	236730096	G	G	236730096	2	3	163	1	0	0	0	0	0	0	0	1	7043	755	27	5		5	HEATR1	1	236730096	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	15672232	236730096	12520525	24	88774											
RYR2	6262	broad.mit.edu	37	chr1	237753203	237753203	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtggcttacaagagggctatGaaccatttgccgttaataca	12	11	10	8	1	0	2	0	1	0	1	0	2	0	2	2	2	4	3	2	2	6	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:237753203G>C	uc001hyl.1	+	30	3829	c.3709G>C	c.(3709-3711)GAA>CAA	p.E1237Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1237	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGAGGGCTATGAACCATTTGC	0.438													28	59					0	0	0.008361	0	0		C	237753203	C	C	237753203	3	2	163	1	0	0	0	0	1	0	0	0	13794	1291	45	5	3827	5	RYR2	1	237753203	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	1023107	237753203	11497418	25	88775											
RYR2	6262	broad.mit.edu	37	chr1	237777344	237777344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctcccttctacagatctgTtgacatcttagagttgacag	9	14	7	11	0	3	4	0	2	3	2	5	4	5	4	2	0	1	2	2	0	2	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr1:237777344T>C	uc001hyl.1	+	37	5036	c.4916T>C	c.(4915-4917)GTT>GCT	p.V1639A		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1639	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TACAGATCTGTTGACATCTTA	0.423													20	51					0	0	0.010504	0	0		C	237777344	C	C	237777344	3	2	163	1	0	0	0	0	1	0	0	0	13794	1725	60	3	5062	3	RYR2	1	237777344	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	24141	237777344	11473277	26	88776											
TTC15	51112	broad.mit.edu	37	chr2	3391965	3391965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttcggtggcgccagcgagGcctcggccaggacaccgccc	5	4	15	17	5	0	0	0	0	0	0	2	2	0	1	5	5	1	1	5	5	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:3391965G>A	uc002qxm.1	+	2	777	c.571G>A	c.(571-573)GCC>ACC	p.A191T	TTC15_uc002qxn.1_Missense_Mutation_p.A191T|TTC15_uc010ewm.1_Missense_Mutation_p.A191T|TTC15_uc002qxl.1_Missense_Mutation_p.A191T	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	191							binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		CGCCAGCGAGGCCTCGGCCAG	0.706													6	9					0	0	0.001168	0	0		A	3391965	A	A	3391965	3	1	163	1	0	0	0	0	1	0	0	0	16708	1203	42	2	573	2	TTC15	2	3391965	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		3391965	239807408	27	88777											
IFT172	26160	broad.mit.edu	37	chr2	27683894	27683894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctagtacctttcatgaatgCgttgcctttacggtagcact	8	14	9	10	2	1	1	1	1	0	0	1	1	1	1	2	1	5	5	2	1	5	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:27683894C>T	uc002rku.2	-	23	2560	c.2509G>A	c.(2509-2511)GCA>ACA	p.A837T		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	837	TPR 3.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TTCATGAATGCGTTGCCTTTA	0.428													6	268					0	0	0.001984	0	0		T	27683894	T	T	27683894	3	4	163	1	0	0	0	0	1	0	0	0	7573	768	27	1	2844	1	IFT172	2	27683894	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	24291929	27683894	215515479	28	88778											
HNRPLL	92906	broad.mit.edu	37	chr2	38804623	38804623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catagccatcatgtctaaacGaagaagggtgttctcccaaa	14	9	8	10	1	3	1	1	0	2	1	4	2	3	1	2	1	2	1	2	1	6	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:38804623G>A	uc002rqw.2	-	7	1264	c.854C>T	c.(853-855)TCG>TTG	p.S285L	HNRPLL_uc002rqv.2_5'UTR|HNRPLL_uc002rqx.2_Missense_Mutation_p.S280L	NM_138394	NP_612403	Q8WVV9	HNRLL_HUMAN	heterogeneous nuclear ribonucleoprotein L-like	285					mRNA processing|positive regulation of RNA splicing	nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding			skin(1)	1		all_hematologic(82;0.248)				ATGTCTAAACGAAGAAGGGTG	0.398													11	125					0	0	0.013537	0	0		A	38804623	A	A	38804623	3	1	163	1	0	0	0	0	1	0	0	0	7293	1059	37	1	802	1	HNRPLL	2	38804623	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	11120729	38804623	204394750	29	88779											
FSHR	2492	broad.mit.edu	37	chr2	49217713	49217713	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaaacttacagtaaaacTttttggagagaatgaatctt	18	12	7	4	0	1	2	0	1	1	1	1	5	1	3	0	1	3	1	0	1	8	5	rs1126715		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:49217713T>G	uc002rww.2	-	5	512	c.438A>C	c.(436-438)AAA>AAC	p.K146N	FSHR_uc002rwx.2_Missense_Mutation_p.K146N|FSHR_uc010fbn.2_Missense_Mutation_p.K146N|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	146	LRR 5.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	ACAGTAAAACTTTTTGGAGAG	0.373									Gonadal_Dysgenesis_46_XX				55	112					0	0	0.01441	0	0		G	49217713	G	G	49217713	3	3	163	1	0	0	0	0	1	0	0	0	6087	1606	56	5	1673	5	FSHR	2	49217713	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	10413090	49217713	193981660	30	88780											
C2orf78	388960	broad.mit.edu	37	chr2	74042217	74042217	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgatggaaacttccctgggGatggatacttccctgggatt	8	12	13	8	0	0	1	0	1	0	0	2	5	2	5	2	5	2	0	2	5	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:74042217G>T	uc002sjr.1	+	3	988	c.867G>T	c.(865-867)GGG>GGT	p.G289G		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	289										ovary(2)	2						CTTCCCTGGGGATGGATACTT	0.483													23	123					7.92952e-12	8.57582e-12	0.003954	1	0		T	74042217	T	T	74042217	2	4	163	1	0	0	0	0	0	0	0	1	2198	1161	41	5		5	C2orf78	2	74042217	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	24824504	74042217	169157156	31	88781											
RANBP2	5903	broad.mit.edu	37	chr2	109367808	109367808	+	Silent	SNP	A	G	G	1	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	cctgctttacctggaatccgAaaatggctaaaacagctttt	12	12	7	10	1	0	0	0	0	0	0	1	2	1	1	3	2	4	3	3	2	6	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:109367808A>G	uc002tem.3	+	10	1488	c.1362A>G	c.(1360-1362)CGA>CGG	p.R454R		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	454					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						CTGGAATCCGAAAATGGCTAA	0.393													6	309					0	0	0.00308	0	0		G	109367808	G	G	109367808	2	3	163	1	0	0	0	0	0	0	0	1	13053	233	9	3		3	RANBP2	2	109367808	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	35325591	109367808	133831565	32	88782											
GTDC1	79712	broad.mit.edu	37	chr2	144728242	144728242	+	Silent	SNP	T	A	A	0	1	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	gggacatctgtgaaggtttcTccaagtacagacacgtggaa	12	9	12	8	1	2	2	0	1	2	1	3	4	2	4	1	3	1	2	1	3	4	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:144728242T>A	uc002tvp.2	-	8	1242	c.963A>T	c.(961-963)GGA>GGT	p.G321G	GTDC1_uc002tvo.2_Silent_p.G321G|GTDC1_uc002tvq.2_Silent_p.G203G|GTDC1_uc002tvr.2_Intron|GTDC1_uc010fnn.2_Silent_p.G321G|GTDC1_uc002tvs.2_Silent_p.G289G|GTDC1_uc010fno.2_Silent_p.G192G	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	321					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		TGAAGGTTTCTCCAAGTACAG	0.343													40	113					0	0	0.010771	0	0		A	144728242	A	A	144728242	2	1	163	1	0	0	0	0	0	0	0	1	6867	1538	54	5		5	GTDC1	2	144728242	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	35360434	144728242	98471131	33	88783											
ZEB2	9839	broad.mit.edu	37	chr2	145156551	145156551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatgttatggagtccatagGttttacaggagacctgggta	10	13	13	5	0	0	2	0	1	0	1	1	4	1	3	2	4	1	3	2	4	4	5	rs144154908		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:145156551G>A	uc002tvu.2	-	8	2683	c.2203C>T	c.(2203-2205)CCT>TCT	p.P735S	ZEB2_uc002tvv.2_Missense_Mutation_p.P729S|ZEB2_uc010zbm.1_Missense_Mutation_p.P706S|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.P764S	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	735						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GAGTCCATAGGTTTTACAGGA	0.453													85	364					0	0	0.01441	0	0		A	145156551	A	A	145156551	3	1	163	1	0	0	0	0	1	0	0	0	17649	1261	44	4	1453	4	ZEB2	2	145156551	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	428309	145156551	98042822	34	88784											
NEB	4703	broad.mit.edu	37	chr2	152397971	152397971	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagcttacctgactctgaAgcttctgccctcgcttggct	5	13	9	14	1	2	3	0	3	2	0	3	3	2	3	2	1	4	4	2	1	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:152397971A>C	uc010fnx.2	-	108	15760	c.15569T>G	c.(15568-15570)CTT>CGT	p.L5190R	NEB_uc002txr.2_Missense_Mutation_p.L1613R	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	5190	Nebulin 141.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTGACTCTGAAGCTTCTGCCC	0.512													32	73					0	0	0.009535	0	0		C	152397971	C	C	152397971	3	2	163	1	0	0	0	0	1	0	0	0	10321	72	3	5	5202	5	NEB	2	152397971	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	7241420	152397971	90801402	35	88785											
XIRP2	129446	broad.mit.edu	37	chr2	167992437	167992437	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggaagtggaaattgagcgaAgtttgtgctcgccagctttt	10	12	13	6	2	0	1	0	1	0	0	1	4	0	3	1	2	3	3	1	2	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:167992437A>C	uc002udx.2	+	2	445	c.427A>C	c.(427-429)AGT>CGT	p.S143R	XIRP2_uc010fpn.2_Missense_Mutation_p.S143R|XIRP2_uc010fpo.2_Missense_Mutation_p.S143R|XIRP2_uc010fpp.2_Missense_Mutation_p.S143R|XIRP2_uc002udy.2_5'UTR	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AATTGAGCGAAGTTTGTGCTC	0.423													23	103					0	0	0.00278	0	0		C	167992437	C	C	167992437	3	2	163	1	0	0	0	0	1	0	0	0	17456	72	3	5	433	5	XIRP2	2	167992437	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	15594466	167992437	75206936	36	88786											
XIRP2	129446	broad.mit.edu	37	chr2	168101561	168101561	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctagttcagaggaagtttTgaaaaagatcaaaaccttaa	17	12	7	5	0	3	3	2	1	1	2	3	4	3	4	1	1	1	2	1	1	7	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:168101561T>C	uc002udx.2	+	8	3677	c.3659T>C	c.(3658-3660)TTG>TCG	p.L1220S	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.L1045S|XIRP2_uc010fpq.2_Missense_Mutation_p.L998S|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1045					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GAGGAAGTTTTGAAAAAGATC	0.313													3	88					0	0	0.004672	0	0		C	168101561	C	C	168101561	3	2	163	1	0	0	0	0	1	0	0	0	17456	1821	63	3	3689	3	XIRP2	2	168101561	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	109124	168101561	75097812	37	88787											
NOSTRIN	115677	broad.mit.edu	37	chr2	169707670	169707670	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtacagccaacatatttctcTttttggccaaaccctgacca	11	12	5	13	0	1	1	0	1	1	0	2	1	1	1	4	1	4	1	4	1	4	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:169707670T>C	uc002ueg.2	+	9	711	c.707T>C	c.(706-708)CTT>CCT	p.L236P	NOSTRIN_uc002uef.2_Missense_Mutation_p.L293P|NOSTRIN_uc002uei.2_Missense_Mutation_p.L119P|NOSTRIN_uc010fpu.2_Missense_Mutation_p.L208P|NOSTRIN_uc002ueh.2_Missense_Mutation_p.L158P|NOSTRIN_uc002uej.2_Missense_Mutation_p.L119P	NM_001039724	NP_001034813	Q8IVI9	NOSTN_HUMAN	nitric oxide synthase trafficker isoform 2	236					endocytosis|nitric oxide metabolic process|regulation of nitric-oxide synthase activity	cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	protein binding				0						CATATTTCTCTTTTTGGCCAA	0.408													37	106					0	0	0.00874	0	0		C	169707670	C	C	169707670	3	2	163	1	0	0	0	0	1	0	0	0	10565	1609	56	3	916	3	NOSTRIN	2	169707670	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	1606109	169707670	73491703	38	88788											
ZNF804A	91752	broad.mit.edu	37	chr2	185803164	185803164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caaagaagcacatgtcagtgGtcatacttttgtaacagctg	13	11	9	8	0	2	1	2	0	0	1	2	1	2	1	0	1	4	3	0	1	4	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:185803164G>A	uc002uph.2	+	4	3635	c.3041G>A	c.(3040-3042)GGT>GAT	p.G1014D		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1014						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						CATGTCAGTGGTCATACTTTT	0.398													49	137					0	0	0.01441	0	0		A	185803164	A	A	185803164	3	1	163	1	0	0	0	0	1	0	0	0	18195	1261	44	4	3055	4	ZNF804A	2	185803164	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	16095494	185803164	57396209	39	88789											
PLCL1	5334	broad.mit.edu	37	chr2	198949309	198949309	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggatatatgcttagacatCataaggagatacgaactttc	15	11	9	6	1	1	2	1	0	0	2	2	6	1	3	0	2	3	1	0	2	6	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:198949309C>T	uc010fsp.2	+	2	1359	c.1068C>T	c.(1066-1068)ATC>ATT	p.I356I	PLCL1_uc002uuv.3_Silent_p.I277I	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	356					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GCTTAGACATCATAAGGAGAT	0.373													12	194					0	0	0.00245	0	0		T	198949309	T	T	198949309	2	4	163	1	0	0	0	0	0	0	0	1	12058	816	29	4		4	PLCL1	2	198949309	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	13146145	198949309	44250064	40	88790											
PLCL1	5334	broad.mit.edu	37	chr2	198949329	198949329	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cataaggagatacgaactttCtgaagagggacgtcaaaaag	17	7	11	6	2	2	3	1	1	1	2	2	6	2	4	0	2	2	0	0	2	6	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:198949329C>G	uc010fsp.2	+	2	1379	c.1088C>G	c.(1087-1089)TCT>TGT	p.S363C	PLCL1_uc002uuv.3_Missense_Mutation_p.S284C	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	363					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TACGAACTTTCTGAAGAGGGA	0.398													12	200					0	0	0.001855	0	0		G	198949329	G	G	198949329	3	3	163	1	0	0	0	0	1	0	0	0	12058	913	32	5	1094	5	PLCL1	2	198949329	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	20	198949329	44250044	41	88791											
MAP2	4133	broad.mit.edu	37	chr2	210557512	210557512	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagccagagacaactaaaacTtaccctgataaaaaggacat	19	6	6	10	0	0	2	0	1	0	1	0	4	0	3	2	1	4	0	2	1	7	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:210557512T>G	uc002vde.1	+	7	866	c.618T>G	c.(616-618)ACT>ACG	p.T206T	MAP2_uc002vdc.1_Silent_p.T206T|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Silent_p.T202T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	206					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CAACTAAAACTTACCCTGATA	0.458													26	97					0	0	0.00333	0	0		G	210557512	G	G	210557512	2	3	163	1	0	0	0	0	0	0	0	1	9253	1596	56	5		5	MAP2	2	210557512	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	11608183	210557512	32641861	42	88792											
ABCA12	26154	broad.mit.edu	37	chr2	215891609	215891609	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ccaagtaaggaatataaggaCtatttgctgatatatttaag	16	13	8	4	0	0	1	0	1	0	0	0	3	0	3	1	2	1	2	1	2	9	9			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:215891609C>A	uc002vew.2	-	10	1335	c.1115G>T	c.(1114-1116)AGT>ATT	p.S372I	ABCA12_uc002vev.2_Missense_Mutation_p.S54I|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	372					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AATATAAGGACTATTTGCTGA	0.348													79	223					1.21826e-31	1.36019e-31	0.01441	1	0		A	215891609	A	A	215891609	3	1	163	1	0	0	0	0	1	0	0	0	30	565	20	5	6848	5	ABCA12	2	215891609	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	5334097	215891609	27307764	43	88793											
RHBDD1	84236	broad.mit.edu	37	chr2	227729651	227729651	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccatgctgatgattggcattTgtatttcaatatggcatcca	10	15	8	8	0	1	2	1	2	0	0	2	2	2	2	2	2	1	4	2	2	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:227729651T>C	uc002voi.2	+	2	363	c.242T>C	c.(241-243)TTG>TCG	p.L81S	RHBDD1_uc010fxc.2_Missense_Mutation_p.L81S	NM_032276	NP_115652	Q8TEB9	RHBD1_HUMAN	rhomboid domain containing 1	81						integral to membrane	serine-type endopeptidase activity			ovary(1)	1		Renal(207;0.023)|all_lung(227;0.13)|Esophageal squamous(248;0.23)|all_hematologic(139;0.248)		Epithelial(121;1.47e-11)|all cancers(144;1.52e-08)|Lung(261;0.0128)|LUSC - Lung squamous cell carcinoma(224;0.0175)		GATTGGCATTTGTATTTCAAT	0.433													62	202					0	0	0.01441	0	0		C	227729651	C	C	227729651	3	2	163	1	0	0	0	0	1	0	0	0	13341	1821	63	3	244	3	RHBDD1	2	227729651	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	11838042	227729651	15469722	44	88794											
SPHKAP	80309	broad.mit.edu	37	chr2	228882341	228882341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagctggaggccttcagccGgctccacctgtcgccactca	6	7	11	17	2	2	0	2	0	0	0	4	1	3	1	5	3	2	3	5	3	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr2:228882341G>A	uc002vpq.2	-	7	3276	c.3229C>T	c.(3229-3231)CGG>TGG	p.R1077W	SPHKAP_uc002vpp.2_Missense_Mutation_p.R1077W|SPHKAP_uc010zlx.1_Missense_Mutation_p.R1077W	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1077						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GCCTTCAGCCGGCTCCACCTG	0.597													16	76					0	0	0.004007	0	0		A	228882341	A	A	228882341	3	1	163	1	0	0	0	0	1	0	0	0	15073	1115	39	1	1897	1	SPHKAP	2	228882341	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	1152690	228882341	14317032	45	88795											
LRRN1	57633	broad.mit.edu	37	chr3	3887829	3887829	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatacacatgtgttgccCagaatgtccaaggggcagac	13	7	12	9	0	0	3	0	0	0	3	1	4	1	3	2	2	2	2	2	2	4	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:3887829C>G	uc003bpt.3	+	2	2265	c.1504C>G	c.(1504-1506)CAG>GAG	p.Q502E	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	502	Ig-like C2-type.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		ATGTGTTGCCCAGAATGTCCA	0.433													32	172					0	0	0.010818	0	0		G	3887829	G	G	3887829	3	3	163	1	0	0	0	0	1	0	0	0	9052	595	21	5	1506	5	LRRN1	3	3887829	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08		3887829	194134601	46	88796											
ENTPD3	956	broad.mit.edu	37	chr3	40429568	40429568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgttcactgtgctgacccGccaaccatgtgagcaagcag	10	8	11	12	1	1	2	1	2	0	0	1	3	1	2	3	0	4	4	3	0	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:40429568G>A	uc003ckd.3	+	2	112	c.20G>A	c.(19-21)CGC>CAC	p.R7H	ENTPD3_uc010hhy.2_Missense_Mutation_p.R7H	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase	7	Cytoplasmic (Potential).					integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		GTGCTGACCCGCCAACCATGT	0.512													24	108					0	0	0.008361	0	0		A	40429568	A	A	40429568	3	1	163	1	0	0	0	0	1	0	0	0	5148	1087	38	1	22	1	ENTPD3	3	40429568	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	36541739	40429568	157592862	47	88797											
MYL3	4634	broad.mit.edu	37	chr3	46899746	46899746	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaggtttagctggacatGatgtgcttcacaaatgctgg	10	11	12	8	1	1	1	1	1	0	0	1	3	1	2	0	3	3	4	0	3	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:46899746G>T	uc003cql.1	-	6	669	c.576C>A	c.(574-576)ATC>ATA	p.I192I		NM_000258	NP_000249	P08590	MYL3_HUMAN	slow skeletal ventricular myosin alkali light	192	EF-hand 3.				cardiac muscle contraction|muscle filament sliding|positive regulation of ATPase activity|regulation of striated muscle contraction|regulation of the force of heart contraction|ventricular cardiac muscle tissue morphogenesis	A band|cytosol|I band|muscle myosin complex	actin monomer binding|calcium ion binding|myosin II heavy chain binding|structural constituent of muscle				0				BRCA - Breast invasive adenocarcinoma(193;0.00116)|KIRC - Kidney renal clear cell carcinoma(197;0.00557)|Kidney(197;0.0063)		AGCTGGACATGATGTGCTTCA	0.597													7	20					5.18039e-06	5.46555e-06	0.00308	1	0		T	46899746	T	T	46899746	2	4	163	1	0	0	0	0	0	0	0	1	10066	1280	45	5		5	MYL3	3	46899746	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	6470178	46899746	151122684	48	88798											
ERC2	26059	broad.mit.edu	37	chr3	56026192	56026192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggccttgccacactcgtcGcggtagtaagacgcctcttt	6	11	11	13	4	1	1	0	0	1	1	3	1	1	1	3	2	1	2	3	2	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:56026192G>A	uc003dhr.1	-	11	2404	c.2148C>T	c.(2146-2148)CGC>CGT	p.R716R	ERC2_uc003dht.1_Silent_p.R199R	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	716	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		CACACTCGTCGCGGTAGTAAG	0.478													6	176					0	0	0.001984	0	0		A	56026192	A	A	56026192	2	1	163	1	0	0	0	0	0	0	0	1	5219	1074	38	1		1	ERC2	3	56026192	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	9126446	56026192	141996238	49	88799											
GPR27	2850	broad.mit.edu	37	chr3	71803291	71803291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcagcctgctgctgtgcGtgagcctagcgggcaacgtg	5	8	15	13	4	1	1	1	1	0	0	1	1	1	1	2	1	7	4	2	1	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:71803291G>A	uc011bge.1	+	1	91	c.91G>A	c.(91-93)GTG>ATG	p.V31M	EIF4E3_uc003dox.2_5'Flank|EIF4E3_uc011bgd.1_Intron|EIF4E3_uc010hoc.2_Intron	NM_018971	NP_061844	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	31	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		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)		GCTGCTGTGCGTGAGCCTAGC	0.731													3	14					0	0	0.009096	0	0		A	71803291	A	A	71803291	3	1	163	1	0	0	0	0	1	0	0	0	6700	1145	40	1	93	1	GPR27	3	71803291	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	15777099	71803291	126219139	50	88800											
CNTN3	5067	broad.mit.edu	37	chr3	74349045	74349045	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttatcacaagttcagaccGgcttccgcctcctccattga	8	11	8	14	2	2	2	2	1	0	1	5	2	5	2	5	2	0	3	5	2	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:74349045G>A	uc003dpm.1	-	16	2220	c.2140C>T	c.(2140-2142)CGG>TGG	p.R714W		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	714	Fibronectin type-III 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AGTTCAGACCGGCTTCCGCCT	0.438													11	52					0	0	0.001855	0	0		A	74349045	A	A	74349045	3	1	163	1	0	0	0	0	1	0	0	0	3645	1115	39	1	974	1	CNTN3	3	74349045	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	2545754	74349045	123673385	51	88801											
STX19	415117	broad.mit.edu	37	chr3	93733918	93733918	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaatttttgaacattatCtgccaaattgttaatacttt	13	17	3	8	0	1	1	0	1	1	0	1	1	1	1	2	0	3	1	2	0	6	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:93733918C>A	uc003drh.1	-	2	453	c.196G>T	c.(196-198)GAT>TAT	p.D66Y	ARL13B_uc003drc.2_Intron|ARL13B_uc010hop.2_Intron|ARL13B_uc003drd.2_Intron|ARL13B_uc003dre.2_Intron|ARL13B_uc003drf.2_Intron|ARL13B_uc003drg.2_Intron	NM_001001850	NP_001001850	Q8N4C7	STX19_HUMAN	syntaxin 19	66					intracellular protein transport|vesicle-mediated transport	membrane	SNAP receptor activity				0						TGAACATTATCTGCCAAATTG	0.373													58	256					2.82306e-37	3.1622e-37	0.01441	1	0		A	93733918	A	A	93733918	3	1	163	1	0	0	0	0	1	0	0	0	15367	913	32	5	692	5	STX19	3	93733918	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	19384873	93733918	104288512	52	88802											
EPHA6	285220	broad.mit.edu	37	chr3	97124019	97124019	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccctgataggtgtggtaagGaaggactgggcatcccaaaa	12	8	13	8	0	0	1	0	1	0	0	2	3	2	3	2	5	0	2	2	5	5	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:97124019G>T	uc010how.1	+	6	1675	c.1632G>T	c.(1630-1632)AGG>AGT	p.R544S		NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	449	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						GTGTGGTAAGGAAGGACTGGG	0.398													6	20					3.59834e-05	3.7619e-05	0.001168	1	0		T	97124019	T	T	97124019	3	4	163	1	0	0	0	0	1	0	0	0	5179	1165	41	5	1654	5	EPHA6	3	97124019	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3390101	97124019	100898411	53	88803											
OR5H1	26341	broad.mit.edu	37	chr3	97852410	97852410	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgttaaatcctatcatctAcagtctgagaaataagcaag	15	13	6	7	0	3	1	1	1	2	1	4	2	4	1	1	0	2	2	1	0	7	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:97852410A>G	uc011bgt.1	+	1	869	c.869A>G	c.(868-870)TAC>TGC	p.Y290C		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						CCTATCATCTACAGTCTGAGA	0.343													7	189					0	0	0.001984	0	0		G	97852410	G	G	97852410	3	3	163	1	0	0	0	0	1	0	0	0	11178	391	14	3	871	3	OR5H1	3	97852410	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	728391	97852410	100170020	54	88804											
ST3GAL6	10402	broad.mit.edu	37	chr3	98507289	98507289	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactgcttcattttccaaaAgtgtttcccaaaaatcaggt	13	13	6	9	0	2	0	2	0	0	0	4	1	4	0	2	1	2	2	2	1	5	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:98507289A>C	uc003dsz.2	+	8	974	c.738A>C	c.(736-738)AAA>AAC	p.K246N	ST3GAL6_uc003dsy.2_Missense_Mutation_p.K160N|ST3GAL6_uc003dta.2_Missense_Mutation_p.K128N|ST3GAL6_uc003dtb.2_Missense_Mutation_p.K102N|ST3GAL6_uc003dtc.2_Missense_Mutation_p.K246N|ST3GAL6_uc010hpd.2_Missense_Mutation_p.K299N	NM_006100	NP_006091	Q9Y274	SIA10_HUMAN	alpha2,3-sialyltransferase VI	246	Lumenal (Potential).				amino sugar metabolic process|glycolipid metabolic process|protein glycosylation|protein lipoylation	integral to Golgi membrane	sialyltransferase activity			ovary(1)	1						ATTTTCCAAAAGTGTTTCCCA	0.378													70	139					0	0	0.01441	0	0		C	98507289	C	C	98507289	3	2	163	1	0	0	0	0	1	0	0	0	15244	69	3	5	764	5	ST3GAL6	3	98507289	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	654879	98507289	99515141	55	88805											
LSAMP	4045	broad.mit.edu	37	chr3	115571349	115571349	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttcacagtgaccttgacTtgtttgacatccgccgagga	9	11	10	11	2	1	3	1	3	0	0	2	5	2	4	3	1	0	2	3	1	0	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:115571349T>C	uc003ebt.2	-	4	1130	c.630A>G	c.(628-630)CAA>CAG	p.Q210Q	LSAMP_uc011bis.1_Silent_p.Q210Q	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	210	Ig-like C2-type 2.				cell adhesion|nervous system development	anchored to membrane|plasma membrane					0		all_cancers(1;0.00189)|all_epithelial(1;0.0366)|Myeloproliferative disorder(1037;0.17)|all_neural(597;0.208)|Lung NSC(201;0.215)		GBM - Glioblastoma multiforme(114;0.00117)|LUSC - Lung squamous cell carcinoma(41;0.0407)|Lung(219;0.152)		TGACCTTGACTTGTTTGACAT	0.527													30	94					0	0	0.012213	0	0		C	115571349	C	C	115571349	2	2	163	1	0	0	0	0	0	0	0	1	9066	1606	56	3		3	LSAMP	3	115571349	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	17064060	115571349	82451081	56	88806											
MYLK	4638	broad.mit.edu	37	chr3	123419605	123419605	+	Missense_Mutation	SNP	T	G	G	0	1	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	tagggtctttgtactcacctTcttccccaggaggtctcgga	6	13	10	12	1	4	0	1	0	3	0	6	2	5	2	3	4	1	1	3	4	2	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:123419605T>G	uc003ego.2	-	18	2992	c.2710A>C	c.(2710-2712)AAG>CAG	p.K904Q	MYLK_uc011bjw.1_Missense_Mutation_p.K904Q|MYLK_uc003egp.2_Missense_Mutation_p.K835Q|MYLK_uc003egq.2_Missense_Mutation_p.K904Q|MYLK_uc003egr.2_Missense_Mutation_p.K835Q|MYLK_uc003egs.2_Missense_Mutation_p.K728Q|MYLK_uc003egt.2_Missense_Mutation_p.K95Q	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	904	1-2.|5 X 28 AA approximate tandem repeats.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		GTACTCACCTTCTTCCCCAGG	0.602													36	82					0	0	0.004878	0	0		G	123419605	G	G	123419605	3	3	163	1	0	0	0	0	1	0	0	0	10074	1792	62	5	3102	5	MYLK	3	123419605	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	7848256	123419605	74602825	57	88807											
ATR	545	broad.mit.edu	37	chr3	142234270	142234270	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taacctgcccaagatgctgaCcattctgcaaagttactacc	12	10	6	13	0	1	2	0	1	1	1	1	2	1	2	4	0	6	3	4	0	5	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:142234270C>A	uc003eux.3	-	25	4592	c.4470G>T	c.(4468-4470)TGG>TGT	p.W1490C		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1490					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						AAGATGCTGACCATTCTGCAA	0.358								Other_conserved_DNA_damage_response_genes					67	158					8.3131e-28	9.22193e-28	0.01441	1	0		A	142234270	A	A	142234270	3	1	163	1	0	0	0	0	1	0	0	0	1205	508	18	5	3556	5	ATR	3	142234270	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	18814665	142234270	55788160	58	88808											
TRIM59	286827	broad.mit.edu	37	chr3	160156416	160156416	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagctccttaaaatactggaGaacagcttccttatcgcctt	12	12	6	11	1	0	1	0	0	0	1	3	2	2	1	3	1	4	2	3	1	6	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:160156416G>C	uc003fdm.2	-	3	751	c.556C>G	c.(556-558)CTC>GTC	p.L186V	IFT80_uc003fda.2_RNA	NM_173084	NP_775107	Q8IWR1	TRI59_HUMAN	tripartite motif-containing 59	186	Potential.					integral to membrane|intracellular	zinc ion binding				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AAATACTGGAGAACAGCTTCC	0.353													6	208					0	0	0.001168	0	0		C	160156416	C	C	160156416	3	2	163	1	0	0	0	0	1	0	0	0	16558	942	33	5	659	5	TRIM59	3	160156416	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	17922146	160156416	37866014	59	88809											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; 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; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			10	92					0	0	0.006214	0	0		A	178936091	A	A	178936091	3	1	163	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	18779675	178936091	19086339	60	88810											
HTR3D	200909	broad.mit.edu	37	chr3	183756164	183756164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaattctaggtggcgcCtctggccctcatgcagaccc	9	8	10	14	1	3	2	1	0	2	2	3	2	3	2	3	3	1	1	3	3	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:183756164C>T	uc011bqv.1	+	7	887	c.887C>T	c.(886-888)CCT>CTT	p.P296L	HTR3D_uc003fmj.2_Intron|HTR3D_uc011bqu.1_Intron|HTR3D_uc010hxp.2_Intron	NM_001163646	NP_001157118	Q70Z44	5HT3D_HUMAN	5-hydroxytryptamine receptor 3 subunit D isoform	296	Extracellular (Potential).					integral to membrane|plasma membrane	extracellular ligand-gated ion channel activity|receptor activity				0	all_cancers(143;2.33e-10)|Ovarian(172;0.0303)		Epithelial(37;6.23e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TAGGTGGCGCCTCTGGCCCTC	0.567													22	48					0	0	0.012319	0	0		T	183756164	T	T	183756164	3	4	163	1	0	0	0	0	1	0	0	0	7463	681	24	4	1083	4	HTR3D	3	183756164	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	4820073	183756164	14266266	61	88811											
LMLN	89782	broad.mit.edu	37	chr3	197710878	197710878	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagcctcaggagtttgttGggatgctgtccacagtgaaa	9	10	12	10	0	1	1	1	1	0	0	2	3	2	3	3	2	2	3	3	2	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr3:197710878G>C	uc011buo.1	+	7	815	c.793G>C	c.(793-795)GGG>CGG	p.G265R	LMLN_uc003fyt.2_Missense_Mutation_p.G213R|LMLN_uc010iar.2_Missense_Mutation_p.G265R|LMLN_uc010ias.2_Missense_Mutation_p.G213R|LMLN_uc003fyu.2_Missense_Mutation_p.G25R	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	265					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GGAGTTTGTTGGGATGCTGTC	0.398													28	162					0	0	0.013726	0	0		C	197710878	C	C	197710878	3	2	163	1	0	0	0	0	1	0	0	0	8864	1348	47	5	819	5	LMLN	3	197710878	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	13954714	197710878	311552	62	88812											
JAKMIP1	152789	broad.mit.edu	37	chr4	6086631	6086631	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagcttccgtatcactGaattcagttcagcaattttt	9	16	5	11	1	3	1	3	1	0	0	5	1	5	1	2	0	2	4	2	0	3	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:6086631G>T	uc003giu.3	-	5	1172	c.896C>A	c.(895-897)TCA>TAA	p.S299*	JAKMIP1_uc010idb.1_Nonsense_Mutation_p.S299*|JAKMIP1_uc010idc.1_Nonsense_Mutation_p.S134*|JAKMIP1_uc010idd.1_Nonsense_Mutation_p.S299*|JAKMIP1_uc011bwc.1_Nonsense_Mutation_p.S134*|JAKMIP1_uc003giv.3_Nonsense_Mutation_p.S299*|JAKMIP1_uc010ide.2_Nonsense_Mutation_p.S299*	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	299	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						CCGTATCACTGAATTCAGTTC	0.408													118	371					9.30538e-80	1.05258e-79	0.01441	1	0		T	6086631	T	T	6086631	4	4	163	1	0	0	0	0	0	1	0	0	7956	1294	45	5	1742	5	JAKMIP1	4	6086631	Nonsense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		6086631	185067645	63	88813											
SLC2A9	56606	broad.mit.edu	37	chr4	10023015	10023015	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatctgtgaggggaactagGcccagttccttggaattcct	8	12	11	10	0	2	1	1	1	1	0	4	3	4	3	3	4	1	1	3	4	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:10023015G>A	uc003gmc.2	-	1	100	c.39C>T	c.(37-39)GGC>GGT	p.G13G	SLC2A9_uc003gmd.2_Intron	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein	13	Cytoplasmic (Potential).				glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						GGGGAACTAGGCCCAGTTCCT	0.602													10	92					0	0	0.006214	0	0		A	10023015	A	A	10023015	2	1	163	1	0	0	0	0	0	0	0	1	14577	1190	42	2		2	SLC2A9	4	10023015	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3936384	10023015	181131261	64	88814											
YIPF7	285525	broad.mit.edu	37	chr4	44624465	44624465	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagggcaaaaagtccataaAgtatggcacaagggtaggca	16	5	14	6	0	0	0	0	0	0	0	1	1	1	1	1	5	0	5	1	5	7	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:44624465A>T	uc010ifx.1	-	6	826	c.809T>A	c.(808-810)CTT>CAT	p.L270H		NM_182592	NP_872398	Q8N8F6	YIPF7_HUMAN	Yip1 domain family, member 7	270	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane					0						AAGTCCATAAAGTATGGCACA	0.408													18	41					0	0	0.00499	0	0		T	44624465	T	T	44624465	3	4	163	1	0	0	0	0	1	0	0	0	17509	72	3	5	37	5	YIPF7	4	44624465	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	34601450	44624465	146529811	65	88815											
SCFD2	152579	broad.mit.edu	37	chr4	54232054	54232054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagcccgtttcactttggCcagcacctgctcccatcctt	6	11	6	18	1	1	0	1	0	0	0	3	0	3	0	5	1	3	3	5	1	0	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:54232054C>T	uc003gzu.2	-	1	189	c.55G>A	c.(55-57)GCC>ACC	p.A19T	SCFD2_uc010igm.2_Missense_Mutation_p.A19T	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	19					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			TTCACTTTGGCCAGCACCTGC	0.632													3	62					0	0	0.009096	0	0		T	54232054	T	T	54232054	3	4	163	1	0	0	0	0	1	0	0	0	13915	739	26	2	2035	2	SCFD2	4	54232054	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	9607589	54232054	136922222	66	88816											
TRAM1L1	133022	broad.mit.edu	37	chr4	118006001	118006001	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttttggttttctggaagtaGagttcaggaaaagcatgaaa	13	14	11	3	0	2	2	1	1	1	1	2	4	2	4	0	3	1	4	0	3	5	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:118006001G>C	uc003ibv.3	-	1	736	c.549C>G	c.(547-549)CTC>CTG	p.L183L		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	183	Helical; (Potential).|TLC.				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						TCTGGAAGTAGAGTTCAGGAA	0.403													33	183					0	0	0.010818	0	0		C	118006001	C	C	118006001	2	2	163	1	0	0	0	0	0	0	0	1	16478	929	33	5		5	TRAM1L1	4	118006001	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	63773947	118006001	73148275	67	88817											
FAT4	79633	broad.mit.edu	37	chr4	126239277	126239277	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctatgcccagcttgtagtaActctcctagatgtgaatgat	10	13	8	10	0	1	3	0	2	1	1	2	3	1	3	3	0	3	3	3	0	5	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:126239277A>C	uc003ifj.3	+	1	1711	c.1711A>C	c.(1711-1713)ACT>CCT	p.T571P		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	571	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GCTTGTAGTAACTCTCCTAGA	0.502											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	72					0	0	0.009535	0	0		C	126239277	C	C	126239277	3	2	163	1	0	0	0	0	1	0	0	0	5706	43	2	5	1713	5	FAT4	4	126239277	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	8233276	126239277	64914999	68	88818											
FAT4	79633	broad.mit.edu	37	chr4	126372259	126372259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttctggaattcttgatcGagaaaaagaagaaagggtgt	14	12	12	3	1	2	4	0	1	2	3	3	6	2	5	0	2	0	1	0	2	5	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:126372259G>A	uc003ifj.3	+	9	10088	c.10088G>A	c.(10087-10089)CGA>CAA	p.R3363Q	FAT4_uc011cgp.1_Missense_Mutation_p.R1661Q|FAT4_uc003ifi.1_Missense_Mutation_p.R841Q	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3363	Cadherin 32.|Extracellular (Potential).			RE -> QK (in Ref. 3; BAE45762).	homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ATTCTTGATCGAGAAAAAGAA	0.398													120	242					0	0	0.01441	0	0		A	126372259	A	A	126372259	3	1	163	1	0	0	0	0	1	0	0	0	5706	1058	37	1	10122	1	FAT4	4	126372259	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	132982	126372259	64782017	69	88819											
FAT4	79633	broad.mit.edu	37	chr4	126372585	126372585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcagaattagatcgagaaAcccttcccatctataatctc	13	11	5	12	1	2	3	0	0	2	3	5	4	3	3	2	0	2	1	2	0	5	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:126372585A>C	uc003ifj.3	+	9	10414	c.10414A>C	c.(10414-10416)ACC>CCC	p.T3472P	FAT4_uc011cgp.1_Missense_Mutation_p.T1770P|FAT4_uc003ifi.1_Missense_Mutation_p.T950P	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3472	Cadherin 33.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						AGATCGAGAAACCCTTCCCAT	0.433													75	206					0	0	0.01441	0	0		C	126372585	C	C	126372585	3	2	163	1	0	0	0	0	1	0	0	0	5706	43	2	5	10448	5	FAT4	4	126372585	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	326	126372585	64781691	70	88820											
FAT4	79633	broad.mit.edu	37	chr4	126411255	126411255	+	Silent	SNP	T	C	C	0	1	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	tatgcctacaggtgtgtcccTcctggggactgtgcctccca	5	11	11	14	0	0	0	0	0	0	0	3	1	3	1	5	3	3	0	5	3	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:126411255T>C	uc003ifj.3	+	17	13278	c.13278T>C	c.(13276-13278)CCT>CCC	p.P4426P	FAT4_uc011cgp.1_Silent_p.P2667P|FAT4_uc003ifi.1_Silent_p.P1903P	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4426	EGF-like 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GGTGTGTCCCTCCTGGGGACT	0.602													63	159					0	0	0.01441	0	0		C	126411255	C	C	126411255	2	2	163	1	0	0	0	0	0	0	0	1	5706	1538	54	3		3	FAT4	4	126411255	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	38670	126411255	64743021	71	88821											
NR3C2	4306	broad.mit.edu	37	chr4	149181165	149181165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaagaaaactttgcagctgCcacaggtgactaccccataa	14	8	8	11	0	0	3	0	2	0	1	0	3	0	3	3	1	5	2	3	1	5	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:149181165C>T	uc003ilj.3	-	3	2196	c.1862G>A	c.(1861-1863)GGC>GAC	p.G621D	NR3C2_uc003ilk.3_Missense_Mutation_p.G621D|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	621	NR C4-type.|Nuclear receptor.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	TTTGCAGCTGCCACAGGTGAC	0.408													11	241					0	0	0.013537	0	0		T	149181165	T	T	149181165	3	4	163	1	0	0	0	0	1	0	0	0	10650	739	26	2	1120	2	NR3C2	4	149181165	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	22769910	149181165	41973111	72	88822											
RXFP1	59350	broad.mit.edu	37	chr4	159568065	159568065	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctcattgtcagcttgtaggaTctttggccattctgtccaca	7	15	8	11	0	4	0	2	0	2	0	5	1	5	1	2	2	1	2	2	2	1	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:159568065T>G	uc003ipz.2	+	16	1550	c.1468T>G	c.(1468-1470)TCT>GCT	p.S490A	RXFP1_uc011cja.1_Missense_Mutation_p.S385A|RXFP1_uc010iqo.2_Missense_Mutation_p.S442A|RXFP1_uc011cjb.1_Missense_Mutation_p.S388A|RXFP1_uc010iqk.2_Missense_Mutation_p.S358A|RXFP1_uc011cjc.1_Missense_Mutation_p.S409A|RXFP1_uc011cjd.1_Missense_Mutation_p.S409A|RXFP1_uc010iql.2_Missense_Mutation_p.S334A|RXFP1_uc011cje.1_Missense_Mutation_p.S517A|RXFP1_uc010iqm.2_Missense_Mutation_p.S457A|RXFP1_uc011cjf.1_Missense_Mutation_p.S359A|RXFP1_uc010iqn.2_Missense_Mutation_p.S435A	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	490	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		GCTTGTAGGATCTTTGGCCAT	0.398													35	253					0	0	0.013726	0	0		G	159568065	G	G	159568065	3	3	163	1	0	0	0	0	1	0	0	0	13784	1435	50	5	1530	5	RXFP1	4	159568065	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	10386900	159568065	31586211	73	88823											
ADAM29	11086	broad.mit.edu	37	chr4	175896943	175896943	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tacacagaccagggtgctatCcttgaggaccagccatttgt	10	10	10	11	0	0	2	0	1	0	1	1	3	1	3	4	2	3	1	4	2	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr4:175896943C>T	uc003iuc.2	+	5	937	c.267C>T	c.(265-267)ATC>ATT	p.I89I	ADAM29_uc003iud.2_Silent_p.I89I|ADAM29_uc010irr.2_Silent_p.I89I|ADAM29_uc011cki.1_Silent_p.I89I	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	89					proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		AGGGTGCTATCCTTGAGGACC	0.478													30	47					0	0	0.010818	0	0		T	175896943	T	T	175896943	2	4	163	1	0	0	0	0	0	0	0	1	247	845	30	4		4	ADAM29	4	175896943	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	16328878	175896943	15257333	74	88824											
ADCY2	108	broad.mit.edu	37	chr5	7707861	7707861	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accctggagcacttgaatggCgcttataaagtggaggaggg	11	8	15	7	1	0	1	0	1	0	0	0	4	0	4	1	5	1	2	1	5	4	3	rs112493968	byFrequency	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:7707861C>T	uc003jdz.1	+	9	1378	c.1311C>T	c.(1309-1311)GGC>GGT	p.G437G	ADCY2_uc011cmo.1_Silent_p.G257G	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	437	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						ACTTGAATGGCGCTTATAAAG	0.413													60	148					0	0	0.01441	0	0		T	7707861	T	T	7707861	2	4	163	1	0	0	0	0	0	0	0	1	294	755	27	1		1	ADCY2	5	7707861	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08		7707861	173207399	75	88825											
CTNND2	1501	broad.mit.edu	37	chr5	11236905	11236905	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaacatctgaatcacttcCggcagttccgggtctctcca	8	11	8	14	2	3	1	1	1	2	0	7	1	6	1	3	2	2	3	3	2	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:11236905C>T	uc003jfa.1	-	10	1804	c.1659G>A	c.(1657-1659)CCG>CCA	p.P553P	CTNND2_uc010itt.2_Silent_p.P462P|CTNND2_uc011cmy.1_Silent_p.P216P|CTNND2_uc011cmz.1_Silent_p.P120P|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Silent_p.P120P	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	553	ARM 2.				multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GAATCACTTCCGGCAGTTCCG	0.478													46	124					0	0	0.01441	0	0		T	11236905	T	T	11236905	2	4	163	1	0	0	0	0	0	0	0	1	4023	639	23	1		1	CTNND2	5	11236905	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	3529044	11236905	169678355	76	88826											
GHR	2690	broad.mit.edu	37	chr5	42719406	42719406	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagactatacctccattcaTatagtacagtccccacaggg	12	9	6	14	0	1	1	1	0	0	1	3	1	3	1	5	1	2	1	5	1	5	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:42719406T>C	uc003jmt.2	+	10	1840	c.1797T>C	c.(1795-1797)CAT>CAC	p.H599H	GHR_uc011cpq.1_Silent_p.H412H	NM_000163	NP_000154	P10912	GHR_HUMAN	growth hormone receptor precursor	599	Cytoplasmic (Potential).				2-oxoglutarate metabolic process|activation of JAK2 kinase activity|activation of MAPK activity|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|endocytosis|fatty acid metabolic process|growth hormone receptor signaling pathway|insulin-like growth factor receptor signaling pathway|isoleucine metabolic process|JAK-STAT cascade|multicellular organismal metabolic process|oxaloacetate metabolic process|positive regulation of multicellular organism growth|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|receptor internalization|response to cycloheximide|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cell surface|extracellular space|growth hormone receptor complex|integral to plasma membrane	growth factor binding|peptide hormone binding|proline-rich region binding|protein homodimerization activity|protein kinase binding			lung(4)|kidney(1)|skin(1)	6		Myeloproliferative disorder(839;0.00878)			Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	CCTCCATTCATATAGTACAGT	0.517													41	83					0	0	0.00874	0	0		C	42719406	C	C	42719406	2	2	163	1	0	0	0	0	0	0	0	1	6386	1403	49	3		3	GHR	5	42719406	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	31482501	42719406	138195854	77	88827											
FAM169A	26049	broad.mit.edu	37	chr5	74135907	74135907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaaaaagagacctgtcagtGaatcttcaggtgcaaagaga	16	7	11	7	0	3	3	2	1	1	2	3	5	3	3	1	1	1	2	1	1	4	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:74135907G>A	uc003kdm.2	-	3	267	c.224C>T	c.(223-225)TCA>TTA	p.S75L	FAM169A_uc010izm.2_Missense_Mutation_p.S75L|FAM169A_uc003kdl.2_5'UTR	NM_015566	NP_056381	Q9Y6X4	F169A_HUMAN	hypothetical protein LOC26049	75											0						ACCTGTCAGTGAATCTTCAGG	0.338													5	80					0	0	0.000602	0	0		A	74135907	A	A	74135907	3	1	163	1	0	0	0	0	1	0	0	0	5498	1294	45	4	1832	4	FAM169A	5	74135907	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	31416501	74135907	106779353	78	88828											
BHMT	635	broad.mit.edu	37	chr5	78417157	78417157	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatttgcatggcgtgcccccCggcgagtgtgcagtgcgcct	4	9	15	13	4	0	0	0	0	0	0	0	2	0	0	4	2	4	2	4	2	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:78417157C>T	uc003kfu.3	+	5	699	c.594C>T	c.(592-594)CCC>CCT	p.P198P	BHMT_uc011cti.1_Intron	NM_001713	NP_001704	Q93088	BHMT1_HUMAN	betaine-homocysteine methyltransferase	198	Hcy-binding.				protein methylation|regulation of homocysteine metabolic process	cytoplasm	betaine-homocysteine S-methyltransferase activity|homocysteine S-methyltransferase activity|zinc ion binding			ovary(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;1.88e-45)|Epithelial(54;8.07e-41)|all cancers(79;3.51e-36)	L-Methionine(DB00134)	GCGTGCCCCCCGGCGAGTGTG	0.488													13	110					0	0	0.013537	0	0		T	78417157	T	T	78417157	2	4	163	1	0	0	0	0	0	0	0	1	1426	639	23	1		1	BHMT	5	78417157	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	4281250	78417157	102498103	79	88829											
CMYA5	202333	broad.mit.edu	37	chr5	79026957	79026957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaggacctaggaagtgaacGtttcacaccggattcaaagt	14	8	11	8	2	2	2	2	1	0	1	2	5	2	5	2	3	1	1	2	3	4	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:79026957G>A	uc003kgc.2	+	2	2441	c.2369G>A	c.(2368-2370)CGT>CAT	p.R790H		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	790						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GGAAGTGAACGTTTCACACCG	0.453													31	83					0	0	0.007291	0	0		A	79026957	A	A	79026957	3	1	163	1	0	0	0	0	1	0	0	0	3593	1145	40	1	2375	1	CMYA5	5	79026957	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	609800	79026957	101888303	80	88830											
CMYA5	202333	broad.mit.edu	37	chr5	79031339	79031339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaactgctgatgaacccagaGgtactttagtaaaatctggt	14	11	9	7	0	1	3	0	2	1	1	1	3	1	3	1	2	4	3	1	2	6	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:79031339G>A	uc003kgc.2	+	2	6823	c.6751G>A	c.(6751-6753)GGT>AGT	p.G2251S		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2251						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TGAACCCAGAGGTACTTTAGT	0.348													74	180					0	0	0.01441	0	0		A	79031339	A	A	79031339	3	1	163	1	0	0	0	0	1	0	0	0	3593	1000	35	4	6757	4	CMYA5	5	79031339	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	4382	79031339	101883921	81	88831											
CHD1	1105	broad.mit.edu	37	chr5	98262168	98262168	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatataaatactgactccTtgaatataaaaattcacaga	19	12	4	6	0	1	4	1	3	0	1	2	4	2	4	1	0	1	0	1	0	10	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:98262168T>A	uc003knf.2	-	1	71	c.-77A>T	c.(-79--75)CAAGG>CATGG			NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	TACTGACTCCTTGAATATAAA	0.259													5	16					0	0	0.000602	0	0		A	98262168	A	A	98262168	1	1	163	1	0	0	0	0	0	0	0	0	3326	1624	56	5		5	CHD1	5	98262168	Translation_Start_Site	SNP	T	TCGA-D7-5578-01A-01D-1600-08	19230829	98262168	82653092	82	88832											
EPB41L4A	64097	broad.mit.edu	37	chr5	111500702	111500702	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggatcaagtctctgtcttGaggcgggaagcttgtatagt	9	12	13	7	1	3	1	1	1	2	0	4	3	3	3	0	3	1	2	0	3	4	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:111500702G>A	uc003kpv.1	-	23	2320	c.2046C>T	c.(2044-2046)CTC>CTT	p.L682L	EPB41L4A_uc003kpp.1_Intron|EPB41L4A_uc003kpu.1_RNA	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	682						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding			ovary(1)	1		all_cancers(142;4.93e-06)|all_epithelial(76;2.28e-08)|Prostate(80;0.000244)|Colorectal(10;0.000788)|Ovarian(225;0.0448)|Lung NSC(167;0.126)|all_lung(232;0.135)		OV - Ovarian serous cystadenocarcinoma(64;6.24e-09)|Epithelial(69;1.43e-07)|all cancers(49;2.78e-05)|COAD - Colon adenocarcinoma(37;0.0467)|Colorectal(14;0.0791)		TCTCTGTCTTGAGGCGGGAAG	0.428													6	101					0	0	0.001984	0	0		A	111500702	A	A	111500702	2	1	163	1	0	0	0	0	0	0	0	1	5163	1277	45	4		4	EPB41L4A	5	111500702	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	13238534	111500702	69414558	83	88833											
APC	324	broad.mit.edu	37	chr5	112174378	112174378	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaccaataaattatagtctTaaatattcagatgagcagtt	17	13	5	6	0	2	2	1	1	1	1	2	2	2	2	1	0	1	2	1	0	8	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:112174378T>G	uc010jby.2	+	16	3467	c.3087T>G	c.(3085-3087)CTT>CTG	p.L1029L	APC_uc011cvt.1_Silent_p.L1011L|APC_uc003kpz.3_Silent_p.L1029L|APC_uc003kpy.3_Silent_p.L1029L|APC_uc010jbz.2_Silent_p.L746L|APC_uc010jca.2_Silent_p.L329L	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1029	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ATTATAGTCTTAAATATTCAG	0.358		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			50	112					0	0	0.01441	0	0		G	112174378	G	G	112174378	2	3	163	1	0	0	0	0	0	0	0	1	763	1741	61	5		5	APC	5	112174378	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	673676	112174378	68740882	84	88834											
SRP19	6728	broad.mit.edu	37	chr5	112197085	112197085	+	Silent	SNP	T	A	A	0	1	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	cttgtgaagatggcttgcgcTgccgcgcggtccccggccga	4	8	15	14	6	0	2	0	1	0	1	1	3	1	2	4	3	2	2	4	3	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:112197085T>A	uc003kqc.2	+	1	93	c.12T>A	c.(10-12)GCT>GCA	p.A4A	SRP19_uc003kqb.1_Silent_p.A4A|SRP19_uc011cvu.1_5'UTR|SRP19_uc011cvv.1_5'UTR	NM_003135	NP_003126	P09132	SRP19_HUMAN	signal recognition particle 19kDa	4					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		TGGCTTGCGCTGCCGCGCGGT	0.532													26	114					0	0	0.003755	0	0		A	112197085	A	A	112197085	2	1	163	1	0	0	0	0	0	0	0	1	15179	1567	55	5		5	SRP19	5	112197085	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	22707	112197085	68718175	85	88835											
FBXL21	26223	broad.mit.edu	37	chr5	135276812	135276812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttccttgcactctcaagcGagactcatgttaaccttgaa	10	14	6	11	1	2	2	2	1	1	1	4	3	3	2	2	0	3	2	2	0	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:135276812G>A	uc010jec.1	+	5	778	c.757G>A	c.(757-759)GAG>AAG	p.E253K	FBXL21_uc003lbc.2_RNA	NM_012159	NP_036291	Q9UKT6	FXL21_HUMAN	F-box and leucine-rich repeat protein 21	253	LRR 4.				rhythmic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ACTCTCAAGCGAGACTCATGT	0.398													50	159					0	0	0.01441	0	0		A	135276812	A	A	135276812	3	1	163	1	0	0	0	0	1	0	0	0	5732	1059	37	1	771	1	FBXL21	5	135276812	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	23079727	135276812	45638448	86	88836											
PKD2L2	27039	broad.mit.edu	37	chr5	137226241	137226245	+	Frame_Shift_Del	DEL	TACTT	-	-																															cacttcaggaattgttactcTactttatttttttaataaac																										TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:137226241_137226245delTACTT	uc003lby.2	+	2	159_163	c.103_107delTACTT	c.(103-108)TACTTTfs	p.Y35fs	PKD2L2_uc010jep.1_5'UTR|PKD2L2_uc003lbw.1_Frame_Shift_Del_p.Y35fs|PKD2L2_uc003lbx.2_Frame_Shift_Del_p.Y35fs	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	35_36	Helical; (Potential).					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ATTGTTACTCTACTTTATTTTTTTA	0.283													72	154	---	---	---	---						.	-	137226245	-	-	137226241	7	5	163	1	0	1	0	1	0	0	0	0	11987	1522	53	0	109	0	PKD2L2	5	137226241	Frame_Shift_Del	DEL	TACTT	TCGA-D7-5578-01A-01D-1600-08	1949429	137226241	43689019	87	88837											
PCDHA3	56145	broad.mit.edu	37	chr5	140182291	140182291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgggtgggggagcgcgcGctgtcgagctacgtgtcggt	3	7	21	10	8	0	0	0	0	0	0	2	2	0	1	0	5	3	2	0	5	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:140182291G>A	uc003lhf.2	+	1	1509	c.1509G>A	c.(1507-1509)GCG>GCA	p.A503A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.A503A	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	503	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGAGCGCGCGCTGTCGAGCT	0.682													24	60					0	0	0.004656	0	0		A	140182291	A	A	140182291	2	1	163	1	0	0	0	0	0	0	0	1	11544	1074	38	1		1	PCDHA3	5	140182291	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	2956050	140182291	40732969	88	88838											
PCDHA10	56139	broad.mit.edu	37	chr5	140236909	140236909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctatgagctggtggtgaccGcgcgggacgggggctcgcct	4	7	18	12	5	0	2	0	2	0	0	1	3	0	3	3	5	1	2	3	5	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:140236909G>A	uc003lhx.2	+	1	1276	c.1276G>A	c.(1276-1278)GCG>ACG	p.A426T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.A426T|PCDHA10_uc011dad.1_Missense_Mutation_p.A426T	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	426	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGGTGACCGCGCGGGACGG	0.647													33	105					0	0	0.004878	0	0		A	140236909	A	A	140236909	3	1	163	1	0	0	0	0	1	0	0	0	11539	1087	38	1	1278	1	PCDHA10	5	140236909	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	54618	140236909	40678351	89	88839											
PCDHA10	56139	broad.mit.edu	37	chr5	140237036	140237036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcgtgaaggagaacaaccCgccaggctgccacatcttca	11	7	10	13	2	2	2	1	1	1	1	3	3	2	2	3	2	3	2	3	2	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:140237036C>T	uc003lhx.2	+	1	1403	c.1403C>T	c.(1402-1404)CCG>CTG	p.P468L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.P468L|PCDHA10_uc011dad.1_Missense_Mutation_p.P468L	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	468	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGAACAACCCGCCAGGCTGC	0.667													35	86					0	0	0.003271	0	0		T	140237036	T	T	140237036	3	4	163	1	0	0	0	0	1	0	0	0	11539	652	23	1	1405	1	PCDHA10	5	140237036	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	127	140237036	40678224	90	88840											
PCDHB8	56128	broad.mit.edu	37	chr5	140559578	140559578	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggcgagcctccgtgctcgGccaccgccacgctgcacttg	5	7	12	17	5	0	0	0	0	0	0	2	1	1	0	5	2	3	3	5	2	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:140559578G>C	uc011dai.1	+	1	2149	c.1963G>C	c.(1963-1965)GCC>CCC	p.A655P	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	655	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCGTGCTCGGCCACCGCCAC	0.701													7	12					0	0	0.006214	0	0		C	140559578	C	C	140559578	3	2	163	1	0	0	0	0	1	0	0	0	11567	1203	42	5	1965	5	PCDHB8	5	140559578	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	322542	140559578	40355682	91	88841											
PCDHB13	56123	broad.mit.edu	37	chr5	140594941	140594941	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tagacagagaaagcagagcgGaatacaacatcactatcact	18	6	8	9	1	2	3	2	0	0	3	2	5	2	4	0	1	4	1	0	1	6	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:140594941G>C	uc003lja.1	+	1	1433	c.1246G>C	c.(1246-1248)GAA>CAA	p.E416Q		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	416	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAGCAGAGCGGAATACAACAT	0.488													34	81					0	0	0.003271	0	0		C	140594941	C	C	140594941	3	2	163	1	0	0	0	0	1	0	0	0	11557	1175	41	5	1248	5	PCDHB13	5	140594941	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	35363	140594941	40320319	92	88842											
PCDHGA4	56111	broad.mit.edu	37	chr5	140734966	140734966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagcgcggagtccgcatcGtctccagaggtaggacgcag	8	5	16	12	6	1	1	0	0	1	1	4	4	2	4	2	4	1	3	2	4	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:140734966G>A	uc003ljq.1	+	1	199	c.199G>A	c.(199-201)GTC>ATC	p.V67I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.V67I	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	67	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCCGCATCGTCTCCAGAGG	0.652													34	72					0	0	0.013726	0	0		A	140734966	A	A	140734966	3	1	163	1	0	0	0	0	1	0	0	0	11575	1145	40	1	201	1	PCDHGA4	5	140734966	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	140025	140734966	40180294	93	88843											
GALNT10	55568	broad.mit.edu	37	chr5	153795429	153795429	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgatgccatttcccacacCagccctgtcacgctgtacga	8	11	7	15	2	1	1	1	1	0	0	2	2	2	1	4	0	3	2	4	0	1	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr5:153795429C>T	uc003lvh.2	+	11	1722	c.1590C>T	c.(1588-1590)ACC>ACT	p.T530T	GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Silent_p.T371T|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Silent_p.T201T	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	530	Lumenal (Potential).|Ricin B-type lectin.					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)|all_hematologic(541;0.21)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			TTTCCCACACCAGCCCTGTCA	0.577													27	104					0	0	0.005443	0	0		T	153795429	T	T	153795429	2	4	163	1	0	0	0	0	0	0	0	1	6223	581	21	4		4	GALNT10	5	153795429	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	13060463	153795429	27119831	94	88844											
SLC22A23	63027	broad.mit.edu	37	chr6	3273341	3273341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcgggcagtgtgtcacccGcggctgcggcatcgtggagg	4	7	17	13	5	1	0	1	0	0	0	3	1	1	1	2	5	1	3	2	5	0	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:3273341G>A	uc003mvm.3	-	10	2009	c.2009C>T	c.(2008-2010)GCG>GTG	p.A670V	uc003mvi.1_Intron|SLC22A23_uc003mvn.3_Missense_Mutation_p.A389V|SLC22A23_uc003mvo.3_Missense_Mutation_p.A389V|SLC22A23_uc003mvp.1_RNA	NM_015482	NP_056297	A1A5C7	S22AN_HUMAN	solute carrier family 22, member 23 isoform a	670					ion transport	integral to membrane	transmembrane transporter activity			ovary(1)	1	Ovarian(93;0.0493)	all_hematologic(90;0.0905)				TGTGTCACCCGCGGCTGCGGC	0.701													16	24					0	0	0.007413	0	0		A	3273341	A	A	3273341	3	1	163	1	0	0	0	0	1	0	0	0	14477	1087	38	1	55	1	SLC22A23	6	3273341	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		3273341	167841726	95	88845											
JARID2	3720	broad.mit.edu	37	chr6	15497183	15497183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgctcatctacatcgagtCggtccgcgctcaggtggaga	7	9	12	13	5	3	1	2	0	1	1	7	3	5	1	2	3	1	2	2	3	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:15497183C>T	uc003nbj.2	+	7	1971	c.1727C>T	c.(1726-1728)TCG>TTG	p.S576L	JARID2_uc011diu.1_Missense_Mutation_p.S440L|JARID2_uc011div.1_Missense_Mutation_p.S404L|JARID2_uc011diw.1_Missense_Mutation_p.S538L	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	576	JmjN.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				TACATCGAGTCGGTCCGCGCT	0.657													4	20					0	0	0.000602	0	0		T	15497183	T	T	15497183	3	4	163	1	0	0	0	0	1	0	0	0	7961	893	31	1	1753	1	JARID2	6	15497183	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	12223842	15497183	155617884	96	88846											
HIST1H1E	3008	broad.mit.edu	37	chr6	26156642	26156642	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgagactgcgcctgccgcGcccgctgctccggcccctgc	2	6	12	21	6	0	1	0	0	0	1	2	2	2	1	7	1	4	2	7	1	0	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:26156642G>T	uc003ngq.2	+	1	84	c.24G>T	c.(22-24)GCG>GCT	p.A8A	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	8					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						CGCCTGCCGCGCCCGCTGCTC	0.692													12	53					4.3838e-07	4.66794e-07	0.001855	1	0		T	26156642	T	T	26156642	2	4	163	1	0	0	0	0	0	0	0	1	7142	1074	38	5		5	HIST1H1E	6	26156642	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	10659459	26156642	144958425	97	88847											
ABCC10	89845	broad.mit.edu	37	chr6	43400000	43400000	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctttgccaccaggggcaggCccaggacccatagggctaga	9	5	14	13	0	0	1	0	0	0	1	0	2	0	2	4	5	1	3	4	5	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:43400000C>T	uc003ouy.1	+	3	497	c.282C>T	c.(280-282)GGC>GGT	p.G94G	ABCC10_uc003ouz.1_Silent_p.G51G	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	94						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CAGGGGCAGGCCCAGGACCCA	0.627													19	84					0	0	0.008871	0	0		T	43400000	T	T	43400000	2	4	163	1	0	0	0	0	0	0	0	1	50	726	26	2		2	ABCC10	6	43400000	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	17243358	43400000	127715067	98	88848											
BAI3	577	broad.mit.edu	37	chr6	69653817	69653817	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caaggtcatgcacacctcctCagtatggaggaaggccgtgt	10	8	12	11	1	2	0	2	0	0	0	3	2	3	2	3	4	1	2	3	4	3	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:69653817C>G	uc003pev.3	+	6	1574	c.1126C>G	c.(1126-1128)CAG>GAG	p.Q376E	BAI3_uc010kak.2_Missense_Mutation_p.Q376E	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	376	Extracellular (Potential).|TSP type-1 2.				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CACACCTCCTCAGTATGGAGG	0.458													48	125					0	0	0.01441	0	0		G	69653817	G	G	69653817	3	3	163	1	0	0	0	0	1	0	0	0	1301	827	29	5	1140	5	BAI3	6	69653817	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	26253817	69653817	101461250	99	88849											
BAI3	577	broad.mit.edu	37	chr6	69666609	69666609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatggcggctgggaaaggcGaataaggacctgtcagggtg	10	7	18	6	2	1	1	1	1	0	0	1	4	1	3	1	6	0	1	1	6	3	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:69666609G>A	uc003pev.3	+	8	1881	c.1433G>A	c.(1432-1434)CGA>CAA	p.R478Q	BAI3_uc010kak.2_Missense_Mutation_p.R478Q	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	478	TSP type-1 4.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGGGAAAGGCGAATAAGGACC	0.502													36	87					0	0	0.013726	0	0		A	69666609	A	A	69666609	3	1	163	1	0	0	0	0	1	0	0	0	1301	1058	37	1	1455	1	BAI3	6	69666609	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	12792	69666609	101448458	100	88850											
MDN1	23195	broad.mit.edu	37	chr6	90371258	90371258	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctggcaccttttcctgatTgccatggtaagggtccacct	6	14	9	12	0	1	1	0	1	1	0	3	1	3	1	5	3	1	2	5	3	1	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:90371258T>C	uc003pnn.1	-	88	14721	c.14605A>G	c.(14605-14607)AAT>GAT	p.N4869D		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4869					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TTTTCCTGATTGCCATGGTAA	0.418													35	79					0	0	0.003271	0	0		C	90371258	C	C	90371258	3	2	163	1	0	0	0	0	1	0	0	0	9433	1812	63	3	2245	3	MDN1	6	90371258	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	20704649	90371258	80743809	101	88851											
MDN1	23195	broad.mit.edu	37	chr6	90457135	90457135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcccatcggaacagatcacGaagggtgatgaagccctgct	12	6	12	11	2	1	3	1	2	0	1	2	5	1	4	2	2	4	1	2	2	3	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:90457135G>A	uc003pnn.1	-	27	3933	c.3817C>T	c.(3817-3819)CGT>TGT	p.R1273C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1273					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		AACAGATCACGAAGGGTGATG	0.463													20	66					0	0	0.008871	0	0		A	90457135	A	A	90457135	3	1	163	1	0	0	0	0	1	0	0	0	9433	1058	37	1	13277	1	MDN1	6	90457135	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	85877	90457135	80657932	102	88852											
GRIK2	2898	broad.mit.edu	37	chr6	102069961	102069961	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatacccagaagataaacCtttatgatagttttgaagca	16	12	7	6	0	0	5	0	3	0	2	0	5	0	5	2	0	3	2	2	0	7	7	rs143873289	by1000genomes	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:102069961C>A	uc003pqp.3	+	2	502	c.253C>A	c.(253-255)CTT>ATT	p.L85I	GRIK2_uc003pqn.2_Missense_Mutation_p.L85I|GRIK2_uc003pqo.3_Missense_Mutation_p.L85I|GRIK2_uc010kcw.2_Missense_Mutation_p.L85I	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	85	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	GAAGATAAACCTTTATGATAG	0.328													35	137					1.07637e-12	1.16776e-12	0.004878	1	0		A	102069961	A	A	102069961	3	1	163	1	0	0	0	0	1	0	0	0	6790	681	24	5	259	5	GRIK2	6	102069961	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	11612826	102069961	69045106	103	88853											
TRDN	10345	broad.mit.edu	37	chr6	123786070	123786070	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaagggcaggtgatgcCggagtgggtctggaagcttg	7	9	17	8	1	2	1	1	1	1	0	2	3	2	3	2	5	2	2	2	5	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:123786070C>T	uc003pzj.1	-	10	934	c.912G>A	c.(910-912)CCG>CCA	p.P304P	TRDN_uc003pzk.1_Silent_p.P304P|TRDN_uc003pzl.1_Silent_p.P304P|TRDN_uc010ken.2_Silent_p.P284P|uc003pzm.1_Intron	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	304	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		CAGGTGATGCCGGAGTGGGTC	0.393													4	12					0	0	0.000602	0	0		T	123786070	T	T	123786070	2	4	163	1	0	0	0	0	0	0	0	1	16494	639	23	1		1	TRDN	6	123786070	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	21716109	123786070	47328997	104	88854											
VNN2	8875	broad.mit.edu	37	chr6	133072431	133072431	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtttcctgcattttcaaaAagttctgtgaagttgaaccc	11	14	8	8	0	2	2	1	2	1	0	3	2	3	2	2	1	2	4	2	1	4	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:133072431A>G	uc003qdt.2	-	5	1064	c.1053T>C	c.(1051-1053)CTT>CTC	p.L351L	VNN2_uc003qds.2_Silent_p.L60L|VNN2_uc010kgb.2_Intron|VNN2_uc003qdv.2_Silent_p.L298L	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	351					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		CATTTTCAAAAAGTTCTGTGA	0.383													64	197					0	0	0.01441	0	0		G	133072431	G	G	133072431	2	3	163	1	0	0	0	0	0	0	0	1	17209	1	1	3		3	VNN2	6	133072431	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	9286361	133072431	38042636	105	88855											
HIVEP2	3097	broad.mit.edu	37	chr6	143095201	143095201	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattgctctttgtcttgaaAgagaaaccacaaggtataca	16	11	7	7	0	2	2	0	1	2	1	2	3	2	2	1	1	3	2	1	1	6	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:143095201A>C	uc003qjd.2	-	5	1418	c.675T>G	c.(673-675)TCT>TCG	p.S225S		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	225	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TTGTCTTGAAAGAGAAACCAC	0.448													10	198					0	0	0.006214	0	0		C	143095201	C	C	143095201	2	2	163	1	0	0	0	0	0	0	0	1	7203	59	3	5		5	HIVEP2	6	143095201	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	10022770	143095201	28019866	106	88856											
MLLT4	4301	broad.mit.edu	37	chr6	168351867	168351867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctttttctttttgcagcGtgttacacgttcccaagaag	8	17	7	9	2	2	1	0	0	2	1	3	1	3	1	1	0	3	3	1	0	3	7	rs151265223	byFrequency	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr6:168351867G>A	uc003qwd.2	+	29	3951	c.3809G>A	c.(3808-3810)CGT>CAT	p.R1270H	MLLT4_uc003qwb.1_Missense_Mutation_p.R1255H|MLLT4_uc003qwc.1_Missense_Mutation_p.R1271H|MLLT4_uc003qwg.1_Missense_Mutation_p.R580H	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1271					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		TTTTTGCAGCGTGTTACACGT	0.353			T	MLL	AL								23	67					0	0	0.014323	0	0		A	168351867	A	A	168351867	3	1	163	1	0	0	0	0	1	0	0	0	9647	1159	40	1	3926	1	MLLT4	6	168351867	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	25256666	168351867	2763200	107	88857											
GPR146	115330	broad.mit.edu	37	chr7	1097720	1097720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgcagaagctgccgacgccaCgctggtgttcatcggctacg	7	7	13	14	6	1	1	1	0	0	1	2	2	1	1	2	2	3	5	2	2	2	2	rs142169372		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:1097720C>T	uc003sjw.2	+	2	645	c.569C>T	c.(568-570)ACG>ATG	p.T190M	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPR146_uc003sjx.3_Missense_Mutation_p.T190M|GPR146_uc003sjy.1_Missense_Mutation_p.T190M	NM_138445	NP_612454	Q96CH1	GP146_HUMAN	G protein-coupled receptor 146	190	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		GCCGACGCCACGCTGGTGTTC	0.652													9	12					0	0	0.010729	0	0		T	1097720	T	T	1097720	3	4	163	1	0	0	0	0	1	0	0	0	6667	536	19	1	571	1	GPR146	7	1097720	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08		1097720	158040943	108	88858											
HDAC9	9734	broad.mit.edu	37	chr7	18630090	18630090	+	Silent	SNP	C	A	A	0	0	0	1	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	cagcttcctcctctcagaggCaaagatagaggacgagaaag	14	6	11	10	1	1	4	1	0	1	4	4	6	3	5	2	2	1	2	2	2	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:18630090C>A	uc003suh.2	+	3	428	c.387C>A	c.(385-387)GGC>GGA	p.G129G	HDAC9_uc003sue.2_Silent_p.G129G|HDAC9_uc011jyd.1_Silent_p.G129G|HDAC9_uc003sui.2_Silent_p.G132G|HDAC9_uc003suj.2_Silent_p.G132G|HDAC9_uc011jya.1_Silent_p.G170G|HDAC9_uc003sua.1_Silent_p.G151G|HDAC9_uc011jyb.1_Silent_p.G129G|HDAC9_uc003sud.1_Silent_p.G129G|HDAC9_uc011jyc.1_Silent_p.G132G|HDAC9_uc003suf.1_Silent_p.G160G|HDAC9_uc010kud.1_Silent_p.G132G|HDAC9_uc011jye.1_Silent_p.G101G|HDAC9_uc011jyf.1_Silent_p.G98G|HDAC9_uc010kue.1_5'UTR	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	129					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CTCTCAGAGGCAAAGATAGAG	0.468													4	16					0.00024832	0.000257268	0.009096	1	0		A	18630090	A	A	18630090	2	1	163	1	0	0	0	0	0	0	0	1	7030	697	25	5		5	HDAC9	7	18630090	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	17532370	18630090	140508573	109	88859											
DNAH11	8701	broad.mit.edu	37	chr7	21639427	21639427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaataggaagctcttcaaagCcaatccctctctggatacct	13	10	6	12	0	3	0	1	0	2	0	5	2	4	2	3	2	3	1	3	2	6	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:21639427C>A	uc003svc.2	+	15	2721	c.2690C>A	c.(2689-2691)GCC>GAC	p.A897D		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	897	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						CTCTTCAAAGCCAATCCCTCT	0.338									Kartagener_syndrome				11	46					6.40141e-05	6.67217e-05	0.010729	1	0		A	21639427	A	A	21639427	3	1	163	1	0	0	0	0	1	0	0	0	4605	739	26	5	2748	5	DNAH11	7	21639427	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	3009337	21639427	137499236	110	88860											
HEPACAM2	253012	broad.mit.edu	37	chr7	92826556	92826556	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagcttggccattacctGaaaatgtttgagctttcctg	8	16	8	9	0	1	2	1	2	0	0	2	2	2	2	3	1	3	3	3	1	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:92826556G>T	uc003umm.2	-	7	1222	c.1199C>A	c.(1198-1200)TCA>TAA	p.S400*	HEPACAM2_uc003uml.2_Nonsense_Mutation_p.S388*|HEPACAM2_uc010lff.2_Missense_Mutation_p.Q380K|HEPACAM2_uc011khy.1_Nonsense_Mutation_p.S423*	NM_001039372	NP_001034461	A8MVW5	HECA2_HUMAN	HEPACAM family member 2 isoform 1	400	Cytoplasmic (Potential).					integral to membrane				ovary(3)|breast(1)|kidney(1)	5						GCCATTACCTGAAAATGTTTG	0.274													37	115					3.38236e-24	3.74011e-24	0.006999	1	0		T	92826556	T	T	92826556	4	4	163	1	0	0	0	0	0	1	0	0	7069	1294	45	5	205	5	HEPACAM2	7	92826556	Nonsense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	71187129	92826556	66312107	111	88861											
COL1A2	1278	broad.mit.edu	37	chr7	94052411	94052411	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgctggtgagaagggtccctCtggagaggctggtactgctg	6	9	17	9	1	1	2	0	1	1	2	2	4	2	2	1	5	2	4	1	5	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:94052411C>G	uc003ung.1	+	40	3017	c.2546C>G	c.(2545-2547)TCT>TGT	p.S849C	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	849			Missing (in OI2A).		axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	AAGGGTCCCTCTGGAGAGGCT	0.507										HNSCC(75;0.22)			54	121					0	0	0.01441	0	0		G	94052411	G	G	94052411	3	3	163	1	0	0	0	0	1	0	0	0	3681	913	32	5	2704	5	COL1A2	7	94052411	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1225855	94052411	65086252	112	88862											
LRRN3	54674	broad.mit.edu	37	chr7	110763771	110763771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccagatttaagaaaaataGaagctactaacaaccctaga	19	8	6	8	0	0	4	0	0	0	4	0	4	0	4	2	0	5	1	2	0	9	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:110763771G>A	uc003vft.3	+	4	1989	c.943G>A	c.(943-945)GAA>AAA	p.E315K	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.E315K|LRRN3_uc003vfs.3_Missense_Mutation_p.E315K	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	315	Extracellular (Potential).|LRR 11.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AAGAAAAATAGAAGCTACTAA	0.408													30	150					0	0	0.008361	0	0		A	110763771	A	A	110763771	3	1	163	1	0	0	0	0	1	0	0	0	9054	943	33	4	945	4	LRRN3	7	110763771	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	16711360	110763771	48374892	113	88863											
C7orf60	154743	broad.mit.edu	37	chr7	112462090	112462090	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagatgcatatgtgaaaaTtttgagtacttgaagcgttt	13	15	9	4	1	1	4	1	3	0	1	1	4	1	4	0	0	3	3	0	0	5	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:112462090T>G	uc003vgo.1	-	5	1054	c.927A>C	c.(925-927)AAA>AAC	p.K309N	C7orf60_uc011kms.1_Missense_Mutation_p.K335N	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	309										ovary(2)|skin(1)	3						TATGTGAAAATTTTGAGTACT	0.398													46	132					0	0	0.009718	0	0		G	112462090	G	G	112462090	3	3	163	1	0	0	0	0	1	0	0	0	2410	1490	52	5	294	5	C7orf60	7	112462090	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	1698319	112462090	46676573	114	88864											
CHRM2	1129	broad.mit.edu	37	chr7	136700588	136700588	+	Missense_Mutation	SNP	A	G	G	1	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	actctaagcaaacatgcatcAgaattggcaccaagacccca	16	6	6	13	0	2	2	1	0	1	2	2	2	2	2	3	1	3	3	3	1	4	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr7:136700588A>G	uc003vtf.1	+	4	1599	c.976A>G	c.(976-978)AGA>GGA	p.R326G	CHRM2_uc003vtg.1_Missense_Mutation_p.R326G|CHRM2_uc003vtj.1_Missense_Mutation_p.R326G|CHRM2_uc003vtk.1_Missense_Mutation_p.R326G|CHRM2_uc003vtl.1_Missense_Mutation_p.R326G|CHRM2_uc003vtm.1_Missense_Mutation_p.R326G|CHRM2_uc003vti.1_Missense_Mutation_p.R326G|CHRM2_uc003vto.1_Missense_Mutation_p.R326G|CHRM2_uc003vtn.1_Missense_Mutation_p.R326G|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	326	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	AACATGCATCAGAATTGGCAC	0.448													46	137					0	0	0.01441	0	0		G	136700588	G	G	136700588	3	3	163	1	0	0	0	0	1	0	0	0	3380	180	7	3	978	3	CHRM2	7	136700588	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	24238498	136700588	22438075	115	88865											
CSMD1	64478	broad.mit.edu	37	chr8	3432554	3432554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaggggaggtaatgacgccGctgggcccacgcagattgga	9	7	16	9	3	0	2	0	1	0	1	0	4	0	4	2	5	0	3	2	5	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:3432554G>A	uc011kwk.1	-	10	1650	c.1260C>T	c.(1258-1260)AGC>AGT	p.S420S		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	420	CUB 3.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TAATGACGCCGCTGGGCCCAC	0.483													24	44					0	0	0.004656	0	0		A	3432554	A	A	3432554	2	1	163	1	0	0	0	0	0	0	0	1	3947	1078	38	1		1	CSMD1	8	3432554	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08		3432554	142931468	116	88866											
USP17L2	377630	broad.mit.edu	37	chr8	11994792	11994792	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggactcctgatctgtccggGtcgtcgaagagaggtttagc	7	10	14	10	4	1	2	0	1	1	1	5	5	3	3	2	3	1	1	2	3	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:11994792G>T	uc003wvc.1	-	1	1478	c.1478C>A	c.(1477-1479)ACC>AAC	p.T493N	FAM66D_uc011kxp.1_Intron|FAM66D_uc011kxo.1_Intron	NM_201402	NP_958804	Q6R6M4	U17L2_HUMAN	deubiquitinating enzyme 3	493					apoptosis|cell cycle|G2/M transition checkpoint|mitotic cell cycle G1/S transition checkpoint|protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)	3						ATCTGTCCGGGTCGTCGAAGA	0.512													30	597					1.30897e-18	1.43364e-18	0.009535	1	0		T	11994792	T	T	11994792	3	4	163	1	0	0	0	0	1	0	0	0	17074	1261	44	5	118	5	USP17L2	8	11994792	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	8562238	11994792	134369230	117	88867											
TMEM66	51669	broad.mit.edu	37	chr8	29927339	29927339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaatggtaatcaatccactCatgttacaggaatccgccga	14	9	7	11	2	2	0	2	0	0	0	4	2	4	1	3	2	1	2	3	2	5	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:29927339C>T	uc003xhs.2	-	3	703	c.519G>A	c.(517-519)ATG>ATA	p.M173I	TMEM66_uc003xht.2_Missense_Mutation_p.M173I|TMEM66_uc003xhu.2_Missense_Mutation_p.M137I|TMEM66_uc003xhv.2_Missense_Mutation_p.M1I	NM_016127	NP_057211	Q96BY9	TMM66_HUMAN	transmembrane protein 66 precursor	173						integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.0993)|Kidney(114;0.119)		TCAATCCACTCATGTTACAGG	0.473													38	139					0	0	0.01441	0	0		T	29927339	T	T	29927339	3	4	163	1	0	0	0	0	1	0	0	0	16220	826	29	4	516	4	TMEM66	8	29927339	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	17932547	29927339	116436683	118	88868											
PXDNL	137902	broad.mit.edu	37	chr8	52370214	52370214	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtcgagtatcatcttccaAatccaatgagtggctggaaa	14	10	9	8	1	2	1	1	1	1	0	5	3	4	2	2	2	0	2	2	2	5	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:52370214A>C	uc003xqu.3	-	9	927	c.826T>G	c.(826-828)TTG>GTG	p.L276V		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	276	Ig-like C2-type 1.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TCATCTTCCAAATCCAATGAG	0.368													64	395					0	0	0.01441	0	0		C	52370214	C	C	52370214	3	2	163	1	0	0	0	0	1	0	0	0	12873	11	1	5	3625	5	PXDNL	8	52370214	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	22442875	52370214	93993808	119	88869											
PXDNL	137902	broad.mit.edu	37	chr8	52384802	52384802	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttccgcccggcaggtgaAgtagacggtatttcctgatg	7	11	12	11	3	0	3	0	2	0	1	3	3	3	3	4	3	0	3	4	3	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:52384802A>C	uc003xqu.3	-	8	858	c.757T>G	c.(757-759)TTC>GTC	p.F253V		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	253	Ig-like C2-type 1.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CGGCAGGTGAAGTAGACGGTA	0.438													49	251					0	0	0.01441	0	0		C	52384802	C	C	52384802	3	2	163	1	0	0	0	0	1	0	0	0	12873	72	3	5	3698	5	PXDNL	8	52384802	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	14588	52384802	93979220	120	88870											
CYP7A1	1581	broad.mit.edu	37	chr8	59410883	59410883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggatttgtgatgaaatggaCatattttcccattagtttgc	10	16	10	5	0	0	2	0	2	0	0	1	4	1	4	1	2	1	1	1	2	3	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:59410883C>T	uc003xtm.3	-	2	289	c.226G>A	c.(226-228)GTC>ATC	p.V76I		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	76					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				ATGAAATGGACATATTTTCCC	0.398									Neonatal_Giant_Cell_Hepatitis				16	564					0	0	0.004007	0	0		T	59410883	T	T	59410883	3	4	163	1	0	0	0	0	1	0	0	0	4199	478	17	4	1308	4	CYP7A1	8	59410883	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	7026081	59410883	86953139	121	88871											
RRS1	23212	broad.mit.edu	37	chr8	67341800	67341800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccagtggcggcggcgctgggGctaccagcgcgcccgggacg	4	3	19	15	7	0	0	0	0	0	0	0	1	0	1	3	6	2	2	3	6	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:67341800G>A	uc003xwa.2	+	1	538	c.434G>A	c.(433-435)GGC>GAC	p.G145D	ADHFE1_uc003xwb.3_5'Flank|ADHFE1_uc003xwd.3_5'Flank|ADHFE1_uc003xwc.3_5'Flank|ADHFE1_uc003xwe.3_5'Flank|ADHFE1_uc003xwf.3_5'Flank|ADHFE1_uc011les.1_5'Flank|ADHFE1_uc011leq.1_5'Flank|ADHFE1_uc011ler.1_5'Flank	NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	145					mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		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)			CGGCGCTGGGGCTACCAGCGC	0.652													5	19					0	0	0.000602	0	0		A	67341800	A	A	67341800	3	1	163	1	0	0	0	0	1	0	0	0	13717	1203	42	2	436	2	RRS1	8	67341800	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	7930917	67341800	79022222	122	88872											
SULF1	23213	broad.mit.edu	37	chr8	70533427	70533427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagggagtctggttaccGtgccagcagaagccaaagaa	12	8	13	8	1	1	2	0	0	1	2	1	3	1	3	3	2	4	3	3	2	5	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:70533427G>A	uc010lza.1	+	14	2252	c.1535G>A	c.(1534-1536)CGT>CAT	p.R512H	SULF1_uc003xyd.2_Missense_Mutation_p.R512H|SULF1_uc003xye.2_Missense_Mutation_p.R512H|SULF1_uc003xyf.2_Missense_Mutation_p.R512H|SULF1_uc003xyg.2_Missense_Mutation_p.R512H|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	512					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TCTGGTTACCGTGCCAGCAGA	0.547													33	51					0	0	0.004289	0	0		A	70533427	A	A	70533427	3	1	163	1	0	0	0	0	1	0	0	0	15395	1145	40	1	1573	1	SULF1	8	70533427	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3191627	70533427	75830595	123	88873											
NCOA2	10499	broad.mit.edu	37	chr8	71078867	71078867	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcatagtttcatatttctGatgagcttcctggttatcat	8	18	7	8	0	3	2	2	2	1	0	4	2	4	2	1	1	2	4	1	1	3	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:71078867G>A	uc003xyn.1	-	7	826	c.664C>T	c.(664-666)CAG>TAG	p.Q222*		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	222					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TCATATTTCTGATGAGCTTCC	0.473			T	RUNXBP2	AML								162	709					0	0	0.01441	0	0		A	71078867	A	A	71078867	4	1	163	1	0	0	0	0	0	1	0	0	10248	1299	45	4	3798	4	NCOA2	8	71078867	Nonsense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	545440	71078867	75285155	124	88874											
RGS22	26166	broad.mit.edu	37	chr8	101092395	101092395	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgacattaatggtctcatcTtcatcgggggcattcatttg	8	16	9	8	1	4	1	3	1	2	0	6	1	4	1	0	3	0	1	0	3	1	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:101092395T>C	uc003yjb.1	-	4	501	c.306A>G	c.(304-306)GAA>GAG	p.E102E	RGS22_uc003yja.1_Silent_p.E6E|RGS22_uc003yjc.1_Silent_p.E102E|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	102					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TGGTCTCATCTTCATCGGGGG	0.323													96	320					0	0	0.01441	0	0		C	101092395	C	C	101092395	2	2	163	1	0	0	0	0	0	0	0	1	13330	1606	56	3		3	RGS22	8	101092395	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	30013528	101092395	45271627	125	88875											
RIMS2	9699	broad.mit.edu	37	chr8	104898096	104898096	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctcagggaccaagttcTtatgcacaaaggaccacaaa	15	6	10	10	0	2	0	1	0	1	0	2	3	2	2	2	3	1	3	2	3	4	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:104898096T>G	uc003yls.2	+	2	844	c.603T>G	c.(601-603)TCT>TCG	p.S201S	RIMS2_uc003ylp.2_Silent_p.S423S|RIMS2_uc003ylw.2_Silent_p.S231S|RIMS2_uc003ylq.2_Silent_p.S231S|RIMS2_uc003ylr.2_Silent_p.S231S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	454					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding	p.S231S(1)		ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GACCAAGTTCTTATGCACAAA	0.478										HNSCC(12;0.0054)			38	118					0	0	0.004289	0	0		G	104898096	G	G	104898096	2	3	163	1	0	0	0	0	0	0	0	1	13393	1596	56	5		5	RIMS2	8	104898096	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	3805701	104898096	41465926	126	88876											
RIMS2	9699	broad.mit.edu	37	chr8	104898323	104898323	+	Missense_Mutation	SNP	A	T	T	1	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	acctccaccaccaaagcctcAtaaatcaaagaaaggcggta	17	5	6	13	1	2	1	2	0	0	1	3	1	3	1	5	2	1	1	5	2	6	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:104898323A>T	uc003yls.2	+	2	1071	c.830A>T	c.(829-831)CAT>CTT	p.H277L	RIMS2_uc003ylp.2_Missense_Mutation_p.H499L|RIMS2_uc003ylw.2_Missense_Mutation_p.H307L|RIMS2_uc003ylq.2_Missense_Mutation_p.H307L|RIMS2_uc003ylr.2_Missense_Mutation_p.H307L	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	530					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CCAAAGCCTCATAAATCAAAG	0.423										HNSCC(12;0.0054)			23	125					0	0	0.014323	0	0		T	104898323	T	T	104898323	3	4	163	1	0	0	0	0	1	0	0	0	13393	217	8	5	1636	5	RIMS2	8	104898323	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	227	104898323	41465699	127	88877											
RIMS2	9699	broad.mit.edu	37	chr8	105161047	105161047	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cgttggtctgtcacggaaaaGtcgcagtgcttctcagctca	8	11	11	11	3	4	0	3	0	2	0	6	1	4	1	0	2	2	4	0	2	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:105161047G>T	uc003yls.2	+	23	3600	c.3359G>T	c.(3358-3360)AGT>ATT	p.S1120I	RIMS2_uc003ylp.2_Intron|RIMS2_uc003ylw.2_Missense_Mutation_p.S1109I|RIMS2_uc003ylq.2_Intron|RIMS2_uc003ylr.2_Intron	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			TCACGGAAAAGTCGCAGTGCT	0.453										HNSCC(12;0.0054)			31	185					1.88708e-17	2.06027e-17	0.008361	1	0		T	105161047	T	T	105161047	3	4	163	1	0	0	0	0	1	0	0	0	13393	1044	36	5		5	RIMS2	8	105161047	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	262724	105161047	41202975	128	88878											
SNTB1	6641	broad.mit.edu	37	chr8	121587425	121587425	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctttctcagtcagcacaAccagggctggtttccactgt	7	12	10	12	0	3	0	2	0	2	0	5	0	4	0	2	3	2	3	2	3	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:121587425A>C	uc010mdg.2	-	4	1263	c.1037T>G	c.(1036-1038)GTT>GGT	p.V346G	SNTB1_uc003ype.2_Missense_Mutation_p.V346G	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	346	PH 2.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			AGTCAGCACAACCAGGGCTGG	0.493													51	464					0	0	0.01441	0	0		C	121587425	C	C	121587425	3	2	163	1	0	0	0	0	1	0	0	0	14897	43	2	5	595	5	SNTB1	8	121587425	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	16426378	121587425	24776597	129	88879											
TRAPPC9	83696	broad.mit.edu	37	chr8	141381153	141381153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggccctccacccaggctccgCgatgcttggggccacgcact	5	6	12	18	3	0	0	0	0	0	0	2	1	2	0	5	4	1	3	5	4	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:141381153C>T	uc003yvj.2	-	8	1395	c.1261G>A	c.(1261-1263)GCG>ACG	p.A421T	TRAPPC9_uc003yvh.2_Missense_Mutation_p.A519T|TRAPPC9_uc003yvi.1_Missense_Mutation_p.A412T	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	421					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						CCAGGCTCCGCGATGCTTGGG	0.597													9	180					0	0	0.006214	0	0		T	141381153	T	T	141381153	3	4	163	1	0	0	0	0	1	0	0	0	16491	768	27	1	2249	1	TRAPPC9	8	141381153	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	19793728	141381153	4982869	130	88880											
EPPK1	83481	broad.mit.edu	37	chr8	144940246	144940246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggtacgtgaggttctcGtgcgtgttggggtcgaagaa	7	11	17	6	4	1	2	0	1	1	1	3	3	1	2	0	4	3	4	0	4	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr8:144940246G>A	uc003zaa.1	-	2	15199	c.15186C>T	c.(15184-15186)CAC>CAT	p.H5062H		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	5062	Plectin 65.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGAGGTTCTCGTGCGTGTTGG	0.622													9	565					0	0	0.010729	0	0		A	144940246	A	A	144940246	2	1	163	1	0	0	0	0	0	0	0	1	5198	1136	40	1		1	EPPK1	8	144940246	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3559093	144940246	1423776	131	88881											
PTPRD	5789	broad.mit.edu	37	chr9	8518071	8518071	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtccatttggctcttcaggTtccttccactgtaccaaaat	8	15	6	12	0	2	0	1	0	1	0	5	0	5	0	4	2	1	3	4	2	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:8518071T>G	uc003zkk.2	-	20	2031	c.1320A>C	c.(1318-1320)GAA>GAC	p.E440D	PTPRD_uc003zkp.2_Missense_Mutation_p.E440D|PTPRD_uc003zkq.2_Missense_Mutation_p.E440D|PTPRD_uc003zkr.2_Missense_Mutation_p.E434D|PTPRD_uc003zks.2_Missense_Mutation_p.E430D|PTPRD_uc003zkl.2_Missense_Mutation_p.E440D|PTPRD_uc003zkm.2_Missense_Mutation_p.E427D|PTPRD_uc003zkn.2_Missense_Mutation_p.E440D|PTPRD_uc003zko.2_Missense_Mutation_p.E437D	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	440	Fibronectin type-III 2.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GCTCTTCAGGTTCCTTCCACT	0.463										TSP Lung(15;0.13)			89	139					0	0	0.01441	0	0		G	8518071	G	G	8518071	3	3	163	1	0	0	0	0	1	0	0	0	12824	1722	60	5	4590	5	PTPRD	9	8518071	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08		8518071	132695360	132	88882											
ANKRD20A3	441425	broad.mit.edu	37	chr9	67952005	67952005	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aggaaacagaatagtcaatgGacaaggagaaggtgagaacc	19	4	13	5	0	1	3	1	1	0	3	1	7	1	5	1	4	2	0	1	4	7	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:67952005G>C	uc004aeu.2	+	9	1080	c.968G>C	c.(967-969)GGA>GCA	p.G323A	ANKRD20A3_uc010mnn.2_Missense_Mutation_p.G322A	NM_001012419	NP_001012419	Q5VUR7	A20A3_HUMAN	ankyrin repeat domain 20 family, member A3	323											0						ATAGTCAATGGACAAGGAGAA	0.294													43	248					0	0	0.01441	0	0		C	67952005	C	C	67952005	3	2	163	1	0	0	0	0	1	0	0	0	649	1174	41	5	6066	5	ANKRD20A3	9	67952005	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	59433934	67952005	73261426	133	88883											
WNK2	65268	broad.mit.edu	37	chr9	96051437	96051437	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggctgcctcaaccagggaCgccagtgccccaagggagcc	9	3	14	15	1	1	0	1	0	0	0	1	3	1	2	6	3	4	1	6	3	2	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:96051437C>T	uc004ati.1	+	20	4512	c.4512C>T	c.(4510-4512)GAC>GAT	p.D1504D	WNK2_uc011lud.1_Silent_p.D1467D|WNK2_uc004atj.2_Silent_p.D1467D|WNK2_uc004atk.2_Silent_p.D1104D|WNK2_uc004atl.1_Silent_p.D62D	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	1504					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CAACCAGGGACGCCAGTGCCC	0.692													3	12					0	0	0.004672	0	0		T	96051437	T	T	96051437	2	4	163	1	0	0	0	0	0	0	0	1	17404	535	19	1		1	WNK2	9	96051437	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	28099432	96051437	45161994	134	88884											
SVEP1	79987	broad.mit.edu	37	chr9	113261413	113261413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagataaaatgaacccttggCggcaacttacatagcagatc	15	8	8	10	1	0	3	0	1	0	2	1	3	0	3	1	2	4	2	1	2	6	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:113261413C>T	uc010mtz.2	-	7	1926	c.1589G>A	c.(1588-1590)CGC>CAC	p.R530H	SVEP1_uc010mua.1_Missense_Mutation_p.R530H|SVEP1_uc004beu.2_Missense_Mutation_p.R530H	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	530	Sushi 3.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GAACCCTTGGCGGCAACTTAC	0.473													19	53					0	0	0.007413	0	0		T	113261413	T	T	113261413	3	4	163	1	0	0	0	0	1	0	0	0	15445	768	27	1	9294	1	SVEP1	9	113261413	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	17209976	113261413	27952018	135	88885											
TLR4	7099	broad.mit.edu	37	chr9	120476158	120476158	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaatgactttgcttgtacTtgtgaacaccagagtttcct	10	14	8	9	0	0	4	0	2	0	2	1	4	1	4	2	0	3	3	2	0	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:120476158T>G	uc004bjz.2	+	3	2043	c.1752T>G	c.(1750-1752)ACT>ACG	p.T584T	TLR4_uc004bka.2_Silent_p.T544T|TLR4_uc004bkb.2_Silent_p.T384T	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	584	LRRCT.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TTGCTTGTACTTGTGAACACC	0.418													31	107					0	0	0.008361	0	0		G	120476158	G	G	120476158	2	3	163	1	0	0	0	0	0	0	0	1	15978	1596	56	5		5	TLR4	9	120476158	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	7214745	120476158	20737273	136	88886											
FBXW2	26190	broad.mit.edu	37	chr9	123527025	123527025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actaatcaggctctctgtccGcaagtccatgatgtacaggt	10	11	9	11	1	2	1	1	1	1	0	5	1	4	1	2	2	1	3	2	2	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:123527025G>A	uc004bkl.1	-	8	1338	c.1177C>T	c.(1177-1179)CGG>TGG	p.R393W	FBXW2_uc011lyc.1_Missense_Mutation_p.R264W|FBXW2_uc004bkn.2_Missense_Mutation_p.R425W|FBXW2_uc004bkm.1_Missense_Mutation_p.R393W|FBXW2_uc010mvj.1_Missense_Mutation_p.R328W	NM_012164	NP_036296	Q9UKT8	FBXW2_HUMAN	F-box and WD repeat domain containing 2	393					proteolysis		protein binding|ubiquitin-protein ligase activity			urinary_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						CTCTCTGTCCGCAAGTCCATG	0.517													5	234					0	0	0.000602	0	0		A	123527025	A	A	123527025	3	1	163	1	0	0	0	0	1	0	0	0	5780	1086	38	1	191	1	FBXW2	9	123527025	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3050867	123527025	17686406	137	88887											
OR1K1	392392	broad.mit.edu	37	chr9	125563076	125563076	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggggccatcgcagctgcCgtgctccagctgccctcagc	5	8	12	16	2	1	0	1	0	0	0	3	0	2	0	4	2	6	4	4	2	1	1	rs148468818	by1000genomes	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:125563076C>T	uc011lze.1	+	1	675	c.675C>T	c.(673-675)GCC>GCT	p.A225A		NM_080859	NP_543135	Q8NGR3	OR1K1_HUMAN	olfactory receptor, family 1, subfamily K,	225	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TCGCAGCTGCCGTGCTCCAGC	0.642													4	87					0	0	0.009096	0	0		T	125563076	T	T	125563076	2	4	163	1	0	0	0	0	0	0	0	1	10981	639	23	1		1	OR1K1	9	125563076	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	2036051	125563076	15650355	138	88888											
SLC25A25	114789	broad.mit.edu	37	chr9	130869718	130869718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcaccctgggcgtgcagtcgCggtgacggggggagggccgc	4	5	20	12	5	1	1	1	1	0	0	2	2	1	2	2	6	1	1	2	6	0	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:130869718C>T	uc004bte.2	+	10	1434	c.1405C>T	c.(1405-1407)CGG>TGG	p.R469W	SLC25A25_uc004btb.2_Missense_Mutation_p.R503W|SLC25A25_uc004btc.2_Missense_Mutation_p.R489W|SLC25A25_uc004btd.2_Missense_Mutation_p.R501W|SLC25A25_uc004btf.2_Missense_Mutation_p.R366W	NM_052901	NP_443133	Q6KCM7	SCMC2_HUMAN	solute carrier family 25, member 25 isoform a	469	Mitochondrial intermembrane (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding				0						CGTGCAGTCGCGGTGACGGGG	0.622													30	71					0	0	0.008361	0	0		T	130869718	T	T	130869718	3	4	163	1	0	0	0	0	1	0	0	0	14513	759	27	1	1931	1	SLC25A25	9	130869718	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	5306642	130869718	10343713	139	88889											
SETX	23064	broad.mit.edu	37	chr9	135205095	135205095	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caatgcatatcttttctagaCgtcttccccatttgttcact	8	17	4	12	1	4	1	1	0	3	1	5	1	5	1	2	0	1	2	2	0	3	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:135205095C>T	uc004cbk.2	-	10	2073	c.1890G>A	c.(1888-1890)ACG>ACA	p.T630T	SETX_uc004cbj.2_Silent_p.T249T|SETX_uc010mzt.2_Silent_p.T249T	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	630					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		CTTTTCTAGACGTCTTCCCCA	0.373													10	205					0	0	0.008291	0	0		T	135205095	T	T	135205095	2	4	163	1	0	0	0	0	0	0	0	1	14166	523	19	1		1	SETX	9	135205095	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	4335377	135205095	6008336	140	88890											
CACNA1B	774	broad.mit.edu	37	chr9	140904511	140904511	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtggacaacctggccaaCgcccaagagctgaccaaggt	11	5	12	13	1	0	2	0	1	0	1	0	3	0	3	4	3	3	2	4	3	4	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr9:140904511C>T	uc004cog.2	+	17	2287	c.2142C>T	c.(2140-2142)AAC>AAT	p.N714N	CACNA1B_uc011mfd.1_Silent_p.N245N	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	714	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	ACCTGGCCAACGCCCAAGAGC	0.607													22	52					0	0	0.00278	0	0		T	140904511	T	T	140904511	2	4	163	1	0	0	0	0	0	0	0	1	2542	535	19	1		1	CACNA1B	9	140904511	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	5699416	140904511	308920	141	88891											
LARP4B	23185	broad.mit.edu	37	chr10	858975	858975	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggtctctgggggctccaGgtgtggacttgagggctggg	3	11	19	8	0	2	1	0	1	2	0	4	2	3	2	1	7	0	2	1	7	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:858975G>C	uc001ifs.1	-	17	2149	c.2108C>G	c.(2107-2109)CCT>CGT	p.P703R		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	703							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						GGGGGCTCCAGGTGTGGACTT	0.532													4	127					0	0	0.001168	0	0		C	858975	C	C	858975	3	2	163	1	0	0	0	0	1	0	0	0	8647	1000	35	5	112	5	LARP4B	10	858975	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		858975	134675772	142	88892											
OPTN	10133	broad.mit.edu	37	chr10	13178767	13178767	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgaggacagggactggcgGcaacagcggaatattccgat	11	6	15	9	3	0	1	0	1	0	0	1	5	1	4	1	5	2	2	1	5	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:13178767G>A	uc001ilu.1	+	16	2073	c.1635G>A	c.(1633-1635)CGG>CGA	p.R545R	OPTN_uc001ilv.1_Silent_p.R545R|OPTN_uc001ilw.1_Silent_p.R545R|OPTN_uc001ilx.1_Silent_p.R545R|OPTN_uc001ily.1_Silent_p.R539R|OPTN_uc010qbr.1_Silent_p.R488R|OPTN_uc001ilz.1_Silent_p.R539R	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	545	Interaction with HD.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2						GGGACTGGCGGCAACAGCGGA	0.458													4	68					0	0	0.009096	0	0		A	13178767	A	A	13178767	2	1	163	1	0	0	0	0	0	0	0	1	10908	1190	42	2		2	OPTN	10	13178767	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	12319792	13178767	122355980	143	88893											
APBB1IP	54518	broad.mit.edu	37	chr10	26800822	26800822	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctttatgaaatctacccGgaactacaaattggtaagtc	13	13	7	8	1	2	1	0	1	2	0	3	2	2	2	1	2	3	1	1	2	7	6	rs142075664		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:26800822G>A	uc001iss.2	+	7	999	c.678G>A	c.(676-678)CCG>CCA	p.P226P	APBB1IP_uc009xks.1_Silent_p.P226P	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	226	Ras-associating.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						AAATCTACCCGGAACTACAAA	0.453													35	113					0	0	0.005524	0	0		A	26800822	A	A	26800822	2	1	163	1	0	0	0	0	0	0	0	1	760	1103	39	1		1	APBB1IP	10	26800822	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	13622055	26800822	108733925	144	88894											
NEUROG3	50674	broad.mit.edu	37	chr10	71332375	71332375	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcgtacaagctgtggtccGctatgcgcagcgtttgagtc	6	10	14	11	5	0	1	0	1	0	0	2	1	1	1	1	1	4	5	1	1	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:71332375G>T	uc001jpp.2	-	2	583	c.425C>A	c.(424-426)GCG>GAG	p.A142E		NM_020999	NP_066279	Q9Y4Z2	NGN3_HUMAN	neurogenin 3	142					central nervous system development|endocrine pancreas development|peripheral nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	transcription coactivator activity				0						GCTGTGGTCCGCTATGCGCAG	0.682													6	20					0.00198382	0.00203696	0.001984	1	0		T	71332375	T	T	71332375	3	4	163	1	0	0	0	0	1	0	0	0	10373	1087	38	5	223	5	NEUROG3	10	71332375	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	44531553	71332375	64202372	145	88895											
DUPD1	338599	broad.mit.edu	37	chr10	76803766	76803766	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagcctatagcggtccagCgccgtcgccctgggcgcagg	5	6	15	15	5	0	0	0	0	0	0	2	0	1	0	4	3	4	2	4	3	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:76803766C>T	uc001jwq.1	-	2	210	c.210G>A	c.(208-210)GCG>GCA	p.A70A		NM_001003892	NP_001003892	Q68J44	DUPD1_HUMAN	dual specificity phosphatase and pro isomerase	70	Tyrosine-protein phosphatase.					cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)	2	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					AGCGGTCCAGCGCCGTCGCCC	0.697													6	19					0	0	0.008291	0	0		T	76803766	T	T	76803766	2	4	163	1	0	0	0	0	0	0	0	1	4810	755	27	1		1	DUPD1	10	76803766	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	5471391	76803766	58730981	146	88896											
NRG3	10718	broad.mit.edu	37	chr10	84711235	84711235	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattcacagagagtgaagaAgtttatcaaaggcaggtgct	16	9	11	5	0	2	3	2	1	0	2	2	4	2	3	0	2	1	3	0	2	5	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:84711235A>C	uc001kco.2	+	5	1092	c.1065A>C	c.(1063-1065)GAA>GAC	p.E355D	NRG3_uc010qlz.1_Missense_Mutation_p.E354D|NRG3_uc001kcp.2_Missense_Mutation_p.E134D|NRG3_uc001kcq.2_Missense_Mutation_p.E5D|NRG3_uc001kcr.2_Missense_Mutation_p.E5D	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	355	Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		AGAGTGAAGAAGTTTATCAAA	0.408													48	176					0	0	0.01441	0	0		C	84711235	C	C	84711235	3	2	163	1	0	0	0	0	1	0	0	0	10668	69	3	5	1251	5	NRG3	10	84711235	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	7907469	84711235	50823512	147	88897											
C10orf129	142827	broad.mit.edu	37	chr10	96972614	96972614	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccttcctttggggcccaGgtcctgtccagatttcccat	4	15	8	14	0	0	1	0	0	0	1	5	1	5	1	6	3	0	0	6	3	0	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:96972614G>C	uc001kke.2	+	7	1038	c.913_splice	c.e7-1	p.V305_splice	C10orf129_uc009xuu.1_Splice_Site_p.V215_splice	NM_207321	NP_997204	Q6P461	ACSM6_HUMAN	acyl-coenzyme A synthetase ACSM6, mitochondrial						fatty acid metabolic process	mitochondrion	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		TTGGGGCCCAGGTCCTGTCCA	0.527													24	110					0	0	0.005443	0	0		C	96972614	C	C	96972614	5	2	163	1	0	0	0	0	0	0	1	0	1596	1014	35	5	934	5	C10orf129	10	96972614	Splice_Site	SNP	G	TCGA-D7-5578-01A-01D-1600-08	12261379	96972614	38562133	148	88898											
HPS6	79803	broad.mit.edu	37	chr10	103826688	103826688	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	ggctggttggactgagctggCggagcaggaagtggcacgcc	7	6	19	9	2	0	1	0	1	0	0	0	4	0	4	1	7	2	5	1	7	1	1	rs139679441	by1000genomes	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:103826688C>A	uc001kuj.2	+	1	1542	c.1457C>A	c.(1456-1458)GCG>GAG	p.A486E		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	486						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		ACTGAGCTGGCGGAGCAGGAA	0.592									Hermansky-Pudlak_syndrome				29	42					7.01153e-11	7.55931e-11	0.007291	1	0		A	103826688	A	A	103826688	3	1	163	1	0	0	0	0	1	0	0	0	7359	768	27	5	1459	5	HPS6	10	103826688	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	6854074	103826688	31708059	149	88899											
DHX32	55760	broad.mit.edu	37	chr10	127542584	127542584	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactgagttgctccagatCaaaaactctccagagctagt	12	10	8	11	0	2	4	1	2	1	2	4	4	3	4	2	0	3	3	2	0	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:127542584C>A	uc001ljf.1	-	4	1529	c.1038G>T	c.(1036-1038)TTG>TTT	p.L346F	DHX32_uc001lje.1_5'UTR|DHX32_uc001ljg.1_Missense_Mutation_p.L346F|DHX32_uc009yam.1_Intron	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	346						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TGCTCCAGATCAAAAACTCTC	0.383													62	147					8.52622e-23	9.39792e-23	0.01441	1	0		A	127542584	A	A	127542584	3	1	163	1	0	0	0	0	1	0	0	0	4511	825	29	5	1225	5	DHX32	10	127542584	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	23715896	127542584	7992163	150	88900											
DPYSL4	10570	broad.mit.edu	37	chr10	134006169	134006169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgctttcagacaaatcGgagaaaacctcatcgtccct	11	10	7	13	2	2	2	2	0	0	2	5	3	3	2	2	1	3	2	2	1	3	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:134006169G>A	uc009ybb.2	+	3	290	c.136G>A	c.(136-138)GGA>AGA	p.G46R		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	46					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		CAGACAAATCGGAGAAAACCT	0.567													14	81					0	0	0.004007	0	0		A	134006169	A	A	134006169	3	1	163	1	0	0	0	0	1	0	0	0	4755	1117	39	1	146	1	DPYSL4	10	134006169	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	6463585	134006169	1528578	151	88901											
C10orf91	170393	broad.mit.edu	37	chr10	134261549	134261549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtcagggtttcaggaatgCggccttcgaagcctgaagcg	9	9	14	9	3	2	1	2	1	0	0	3	3	2	2	2	3	3	1	2	3	4	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr10:134261549C>T	uc001llm.2	+	3	462	c.422C>T	c.(421-423)GCG>GTG	p.A141V		NM_173541	NP_775812	Q5T1B1	CJ091_HUMAN	hypothetical protein LOC170393	141										ovary(1)	1		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)		TTCAGGAATGCGGCCTTCGAA	0.662													4	119					0	0	0.009096	0	0		T	134261549	T	T	134261549	3	4	163	1	0	0	0	0	1	0	0	0	1627	768	27	1	432	1	C10orf91	10	134261549	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	255380	134261549	1273198	152	88902											
NUP98	4928	broad.mit.edu	37	chr11	3697502	3697502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtggggagccaagaggcGcaaagggactcgctgagggt	11	5	18	7	2	0	2	0	1	0	1	1	4	0	4	1	5	1	2	1	5	3	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:3697502G>A	uc001lyh.2	-	33	5581	c.5290C>T	c.(5290-5292)CGC>TGC	p.R1764C	NUP98_uc001lyi.2_Missense_Mutation_p.R1690C|NUP98_uc001lyg.2_Missense_Mutation_p.R729C	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1781					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GCCAAGAGGCGCAAAGGGACT	0.592			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								13	134					0	0	0.007413	0	0		A	3697502	A	A	3697502	3	1	163	1	0	0	0	0	1	0	0	0	10792	1087	38	1	116	1	NUP98	11	3697502	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		3697502	131309014	153	88903											
SPON1	10418	broad.mit.edu	37	chr11	14276115	14276115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttccgtggacagaacgcGccatttaatgtccttcctga	9	13	8	11	3	0	2	0	1	0	1	3	3	3	3	4	1	1	0	4	1	2	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:14276115G>A	uc001mle.2	+	9	1470	c.932G>A	c.(931-933)CGC>CAC	p.R311H		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	311	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		GACAGAACGCGCCATTTAATG	0.507													19	49					0	0	0.010504	0	0		A	14276115	A	A	14276115	3	1	163	1	0	0	0	0	1	0	0	0	15107	1087	38	1	961	1	SPON1	11	14276115	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	10578613	14276115	120730401	154	88904											
API5	8539	broad.mit.edu	37	chr11	43352088	43352088	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtcgttgcattgaaaataAcaaacaatatcaatgtttta	18	13	5	5	1	1	1	1	1	0	0	2	1	1	1	0	0	3	3	0	0	9	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:43352088A>G	uc010rfh.1	+	11	1425	c.1252A>G	c.(1252-1254)ACA>GCA	p.T418A	API5_uc010rfg.1_Missense_Mutation_p.T407A|API5_uc001mxf.2_Missense_Mutation_p.T418A|API5_uc010rfi.1_Missense_Mutation_p.T364A|API5_uc001mxg.2_Missense_Mutation_p.T292A	NM_001142930	NP_001136402	Q9BZZ5	API5_HUMAN	apoptosis inhibitor 5 isoform a	418					anti-apoptosis|apoptosis	cytoplasm|spliceosomal complex	fibroblast growth factor binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						ATTGAAAATAACAAACAATAT	0.289													4	158					0	0	0.001168	0	0		G	43352088	G	G	43352088	3	3	163	1	0	0	0	0	1	0	0	0	773	43	2	3	1294	3	API5	11	43352088	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	29075973	43352088	91654428	155	88905											
MADD	8567	broad.mit.edu	37	chr11	47350618	47350618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacgaaatctgctactccGtattatgtctcttctcgtac	8	14	5	14	3	3	0	0	0	3	0	6	1	4	0	2	0	3	3	2	0	5	5	rs140803760		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:47350618G>A	uc001ner.1	+	36	5052	c.4861G>A	c.(4861-4863)GTA>ATA	p.V1621I	MADD_uc001neq.2_Missense_Mutation_p.V1562I|MADD_uc001nev.1_3'UTR|MADD_uc001nes.1_Missense_Mutation_p.V1539I|MADD_uc001net.1_Missense_Mutation_p.V1582I|MADD_uc009yln.1_Missense_Mutation_p.V1515I|MADD_uc001neu.1_Missense_Mutation_p.V1519I|MADD_uc001nex.2_3'UTR|MADD_uc001nez.2_Missense_Mutation_p.V1518I|MADD_uc001new.2_Missense_Mutation_p.V1561I	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	1621					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CTGCTACTCCGTATTATGTCT	0.537													8	170					0	0	0.006214	0	0		A	47350618	A	A	47350618	3	1	163	1	0	0	0	0	1	0	0	0	9170	1145	40	1	4999	1	MADD	11	47350618	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3998530	47350618	87655898	156	88906											
OR4C3	256144	broad.mit.edu	37	chr11	48347069	48347069	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggtcctttggttgcccTtctgtgggcccaatgtgatc	3	15	11	12	0	1	1	0	1	1	0	4	1	3	1	4	3	1	1	4	3	1	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:48347069T>C	uc010rhv.1	+	1	577	c.577T>C	c.(577-579)TTC>CTC	p.F193L		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	166	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TTGGTTGCCCTTCTGTGGGCC	0.532													6	178					0	0	0.006122	0	0		C	48347069	C	C	48347069	3	2	163	1	0	0	0	0	1	0	0	0	11069	1609	56	3	579	3	OR4C3	11	48347069	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	996451	48347069	86659447	157	88907											
OR4A47	403253	broad.mit.edu	37	chr11	48510526	48510526	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcaccaatgtacttctttcTtgctggcttatcatttatag	8	18	5	10	0	4	0	2	0	2	0	4	0	4	0	1	1	2	3	1	1	5	8			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:48510526T>C	uc010rhx.1	+	1	182	c.182T>C	c.(181-183)CTT>CCT	p.L61P		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TACTTCTTTCTTGCTGGCTTA	0.408													33	85					0	0	0.003271	0	0		C	48510526	C	C	48510526	3	2	163	1	0	0	0	0	1	0	0	0	11061	1609	56	3	184	3	OR4A47	11	48510526	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	163457	48510526	86495990	158	88908											
OR4A5	81318	broad.mit.edu	37	chr11	51411522	51411522	+	Silent	SNP	T	G	G	0	1	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	gagtttttctatagcatttcTcatctctgaatttctcaacg	9	18	5	9	1	4	1	2	1	4	0	7	2	4	1	0	0	2	2	0	0	4	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:51411522T>G	uc001nhi.1	-	1	874	c.874A>C	c.(874-876)AGA>CGA	p.R292R		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	292	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				ATAGCATTTCTCATCTCTGAA	0.343													7	44					0	0	0.00308	0	0		G	51411522	G	G	51411522	2	3	163	1	0	0	0	0	0	0	0	1	11062	1559	54	5		5	OR4A5	11	51411522	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	2900996	51411522	83594994	159	88909											
OR4C16	219428	broad.mit.edu	37	chr11	55340006	55340006	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcactacatgaccatcataAgccagtgggtctgtggtgtt	9	12	11	9	0	2	1	1	1	1	0	2	1	2	1	2	2	3	2	2	2	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:55340006A>C	uc010rih.1	+	1	403	c.403A>C	c.(403-405)AGC>CGC	p.S135R		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				GACCATCATAAGCCAGTGGGT	0.507													67	195					0	0	0.01441	0	0		C	55340006	C	C	55340006	3	2	163	1	0	0	0	0	1	0	0	0	11068	72	3	5	405	5	OR4C16	11	55340006	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	3928484	55340006	79666510	160	88910											
OR4C6	219432	broad.mit.edu	37	chr11	55432670	55432670	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaaaacaatgtgactgaaTtcattcttctgggtctcaca	13	13	6	9	0	5	2	3	2	3	0	6	2	5	2	0	1	1	0	0	1	4	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:55432670T>A	uc001nht.3	+	3	293	c.28T>A	c.(28-30)TTC>ATC	p.F10I	OR4C6_uc010rik.1_Missense_Mutation_p.F10I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGTGACTGAATTCATTCTTCT	0.363													67	182					0	0	0.01441	0	0		A	55432670	A	A	55432670	3	1	163	1	0	0	0	0	1	0	0	0	11071	1493	52	5	30	5	OR4C6	11	55432670	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	92664	55432670	79573846	161	88911											
OR8H3	390152	broad.mit.edu	37	chr11	55890015	55890015	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccgcctggacctccagcTtcacactcccatgtattttt	8	13	5	15	1	1	0	1	0	0	0	4	1	4	1	5	1	1	2	5	1	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:55890015T>G	uc001nii.1	+	1	167	c.167T>G	c.(166-168)CTT>CGT	p.L56R		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					GACCTCCAGCTTCACACTCCC	0.438													132	516					0	0	0.01441	0	0		G	55890015	G	G	55890015	3	3	163	1	0	0	0	0	1	0	0	0	11258	1609	56	5	169	5	OR8H3	11	55890015	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	457345	55890015	79116501	162	88912											
OR5T2	219464	broad.mit.edu	37	chr11	56000460	56000460	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagattgctagaaacaggaAgaagaagatagtctgcagtt	16	9	12	4	0	1	5	0	0	1	5	1	6	1	6	0	1	3	4	0	1	7	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:56000460A>C	uc010rjc.1	-	1	202	c.202T>G	c.(202-204)TTC>GTC	p.F68V		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	68	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AGAAACAGGAAGAAGAAGATA	0.388													29	107					0	0	0.008361	0	0		C	56000460	C	C	56000460	3	2	163	1	0	0	0	0	1	0	0	0	11201	72	3	5	876	5	OR5T2	11	56000460	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	110445	56000460	79006056	163	88913											
OR5T1	390155	broad.mit.edu	37	chr11	56044028	56044028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccatcatctacagtttgcGgaacaaagatgtaaaggagg	14	9	10	8	1	2	1	1	0	1	1	3	3	3	3	1	3	3	2	1	3	5	3	rs143790336		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:56044028G>A	uc001nio.1	+	1	914	c.914G>A	c.(913-915)CGG>CAG	p.R305Q		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					TACAGTTTGCGGAACAAAGAT	0.343													52	171					0	0	0.01441	0	0		A	56044028	A	A	56044028	3	1	163	1	0	0	0	0	1	0	0	0	11200	1116	39	1	916	1	OR5T1	11	56044028	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	43568	56044028	78962488	164	88914											
OR5R1	219479	broad.mit.edu	37	chr11	56184767	56184767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatttttaaaaatgttaaTatctgtaagttttcacaacc	14	18	3	6	0	2	0	1	0	1	0	2	0	2	0	1	0	1	3	1	0	8	9	rs140012472		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:56184767T>C	uc010rji.1	-	1	942	c.942A>G	c.(940-942)ATA>ATG	p.I314M		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	314	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AAAATGTTAATATCTGTAAGT	0.299													33	66					0	0	0.009535	0	0		C	56184767	C	C	56184767	3	2	163	1	0	0	0	0	1	0	0	0	11199	1396	49	3	34	3	OR5R1	11	56184767	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	140739	56184767	78821749	165	88915											
CTSW	1521	broad.mit.edu	37	chr11	65650818	65650818	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gggcagagacagtctcatcgCagtctcagcctcagcctcca	9	7	10	15	1	3	1	3	0	2	1	7	2	4	1	3	1	2	2	3	1	0	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:65650818C>G	uc001ogc.1	+	9	985	c.943C>G	c.(943-945)CAG>GAG	p.Q315E	CTSW_uc001ogb.1_Missense_Mutation_p.Q315E	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	315					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		AGTCTCATCGCAGTCTCAGCC	0.592													14	140					0	0	0.004007	0	0		G	65650818	G	G	65650818	3	3	163	1	0	0	0	0	1	0	0	0	4045	711	25	5	977	5	CTSW	11	65650818	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	9466051	65650818	69355698	166	88916											
UNC93B1	81622	broad.mit.edu	37	chr11	67766770	67766770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtactcatggtacttctgcGccatcctggaccacaaagga	11	9	9	12	1	2	0	1	0	1	0	3	2	3	2	3	3	3	2	3	3	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:67766770G>A	uc001omw.1	-	5	640	c.560C>T	c.(559-561)GCG>GTG	p.A187V		NM_030930	NP_112192	Q9H1C4	UN93B_HUMAN	unc-93 homolog B1	187					innate immune response|intracellular protein transport|response to virus|toll-like receptor 3 signaling pathway|toll-like receptor 7 signaling pathway|toll-like receptor 9 signaling pathway	early phagosome|endoplasmic reticulum membrane|endosome|integral to membrane|lysosome					0						GTACTTCTGCGCCATCCTGGA	0.632													6	12					0	0	0.001984	0	0		A	67766770	A	A	67766770	3	1	163	1	0	0	0	0	1	0	0	0	17023	1087	38	1	1260	1	UNC93B1	11	67766770	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	2115952	67766770	67239746	167	88917											
FOLR1	2348	broad.mit.edu	37	chr11	71907066	71907066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaactacagccgagggagtGgccgctgcatccagatgtgg	9	6	15	11	2	0	1	0	0	0	1	1	3	1	2	3	3	4	3	3	3	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:71907066G>A	uc001orz.1	+	6	757	c.619G>A	c.(619-621)GGC>AGC	p.G207S	FOLR1_uc001osa.1_Missense_Mutation_p.G207S|FOLR1_uc001osb.1_Missense_Mutation_p.G207S|FOLR1_uc001osc.1_Missense_Mutation_p.G207S|FOLR1_uc001osd.1_Missense_Mutation_p.G207S	NM_016724	NP_057936	P15328	FOLR1_HUMAN	folate receptor 1 precursor	207					cell death|folic acid transport|receptor-mediated endocytosis	anchored to membrane|extracellular region|integral to plasma membrane|membrane fraction	folic acid binding|receptor activity			ovary(1)	1						CCGAGGGAGTGGCCGCTGCAT	0.587													20	55					0	0	0.013726	0	0		A	71907066	A	A	71907066	3	1	163	1	0	0	0	0	1	0	0	0	5995	1348	47	4	633	4	FOLR1	11	71907066	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	4140296	71907066	63099450	168	88918											
FAT3	120114	broad.mit.edu	37	chr11	92087018	92087018	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagccctctctttgaaaaAgtggcttgccagggagttat	11	11	10	9	0	1	1	0	1	1	0	2	2	1	2	2	2	3	2	2	2	4	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:92087018A>G	uc001pdj.3	+	1	1757	c.1740A>G	c.(1738-1740)AAA>AAG	p.K580K		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	580	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCTTTGAAAAAGTGGCTTGCC	0.443										TCGA Ovarian(4;0.039)			21	71					0	0	0.008871	0	0		G	92087018	G	G	92087018	2	3	163	1	0	0	0	0	0	0	0	1	5705	69	3	3		3	FAT3	11	92087018	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	20179952	92087018	42919498	169	88919											
HEPHL1	341208	broad.mit.edu	37	chr11	93844120	93844120	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctctttcctgggacattcCaaaccattgaactgtttgca	10	14	6	11	0	1	1	0	1	1	0	4	2	3	2	3	1	3	2	3	1	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:93844120C>T	uc001pep.2	+	18	3254	c.3097C>T	c.(3097-3099)CAA>TAA	p.Q1033*	uc001pen.1_Intron	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	1033	Extracellular (Potential).|Plastocyanin-like 6.				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				TGGGACATTCCAAACCATTGA	0.443													10	38					0	0	0.008291	0	0		T	93844120	T	T	93844120	4	4	163	1	0	0	0	0	0	1	0	0	7071	595	21	4	3167	4	HEPHL1	11	93844120	Nonsense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1757102	93844120	41162396	170	88920											
TRPC6	7225	broad.mit.edu	37	chr11	101362341	101362341	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgagatttgggcgaccGtgatcaccactctggagcgt	7	9	14	11	4	2	2	1	2	1	1	2	5	2	3	2	3	1	1	2	3	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:101362341G>A	uc001pgk.3	-	3	1499	c.1074C>T	c.(1072-1074)CAC>CAT	p.H358H	TRPC6_uc009ywy.2_Intron|TRPC6_uc009ywz.1_Silent_p.H358H	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	358	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		TTGGGCGACCGTGATCACCAC	0.433													47	163					0	0	0.01441	0	0		A	101362341	A	A	101362341	2	1	163	1	0	0	0	0	0	0	0	1	16609	1136	40	1		1	TRPC6	11	101362341	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	7518221	101362341	33644175	171	88921											
DCUN1D5	84259	broad.mit.edu	37	chr11	102937031	102937031	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taaaatactgaaaacagtggCcatgtcctcccaagcagaag	16	7	8	10	0	0	2	0	1	0	1	2	2	2	2	3	1	3	1	3	1	7	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:102937031C>T	uc001phm.2	-	6	790	c.522G>A	c.(520-522)TGG>TGA	p.W174*	DCUN1D5_uc010ruw.1_Nonsense_Mutation_p.W105*	NM_032299	NP_115675	Q9BTE7	DCNL5_HUMAN	DCN1, defective in cullin neddylation 1, domain	174	DCUN1.										0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.00032)|Epithelial(105;0.0689)|all cancers(92;0.186)		AAAACAGTGGCCATGTCCTCC	0.313													21	67					0	0	0.012319	0	0		T	102937031	T	T	102937031	4	4	163	1	0	0	0	0	0	1	0	0	4320	740	26	2	203	2	DCUN1D5	11	102937031	Nonsense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1574690	102937031	32069485	172	88922											
PRDM10	56980	broad.mit.edu	37	chr11	129775606	129775606	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtaatcacaaactgacccGgaggaagcgtcatcatttga	13	9	9	10	2	3	2	3	2	0	0	3	4	3	4	1	2	2	1	1	2	3	2	rs140045693		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr11:129775606G>T	uc001qfm.2	-	21	3438	c.3206C>A	c.(3205-3207)CCG>CAG	p.P1069Q	PRDM10_uc001qfj.2_Missense_Mutation_p.P970Q|PRDM10_uc001qfk.2_Missense_Mutation_p.P932Q|PRDM10_uc001qfl.2_Missense_Mutation_p.P983Q|PRDM10_uc010sbx.1_Missense_Mutation_p.P979Q|PRDM10_uc001qfn.2_Missense_Mutation_p.P1065Q	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	1056					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		AAACTGACCCGGAGGAAGCGT	0.428													16	58					2.31682e-05	2.42949e-05	0.003163	1	0		T	129775606	T	T	129775606	3	4	163	1	0	0	0	0	1	0	0	0	12473	1116	39	5	284	5	PRDM10	11	129775606	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	26838575	129775606	5230910	173	88923											
TULP3	7289	broad.mit.edu	37	chr12	3047401	3047401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcaacttccgtggccGggtcactcaggcgtctgtga	5	11	12	13	3	4	1	3	1	1	0	6	1	6	1	3	3	1	0	3	3	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:3047401G>A	uc010seh.1	+	10	1226	c.1145G>A	c.(1144-1146)CGG>CAG	p.R382Q	TULP3_uc009zec.1_Missense_Mutation_p.R109Q|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.R382Q|TULP3_uc010sei.1_Missense_Mutation_p.R206Q	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	382					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			TTCCGTGGCCGGGTCACTCAG	0.532													47	88					0	0	0.013114	0	0		A	3047401	A	A	3047401	3	1	163	1	0	0	0	0	1	0	0	0	16801	1116	39	1	1183	1	TULP3	12	3047401	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		3047401	130804494	174	88924											
PRMT8	56341	broad.mit.edu	37	chr12	3649831	3649831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctaagcccgtgcaatgCgtccatcatgtgtccactca	8	10	8	15	2	2	0	2	0	0	0	4	0	4	0	4	0	4	2	4	0	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:3649831C>T	uc001qmf.2	+	2	502	c.135C>T	c.(133-135)TGC>TGT	p.C45C	PRMT8_uc009zed.2_Silent_p.C36C|PRMT8_uc009zee.1_RNA	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	45					regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)|central_nervous_system(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)			CCGTGCAATGCGTCCATCATG	0.602													19	342					0	0	0.007413	0	0		T	3649831	T	T	3649831	2	4	163	1	0	0	0	0	0	0	0	1	12564	776	27	1		1	PRMT8	12	3649831	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	602430	3649831	130202064	175	88925											
AKAP3	10566	broad.mit.edu	37	chr12	4735889	4735889	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcattctgcaggacagcttCtgctgaccctgtgcccttgg	5	11	12	13	0	2	1	0	1	2	0	2	2	2	2	2	3	4	4	2	3	0	3	rs74060068	byFrequency	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:4735889C>A	uc001qnb.3	-	4	2408	c.2179G>T	c.(2179-2181)GAA>TAA	p.E727*		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	727					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						AGGACAGCTTCTGCTGACCCT	0.522													12	88					0.00010058	0.000104518	0.013537	1	0		A	4735889	A	A	4735889	4	1	163	1	0	0	0	0	0	1	0	0	452	922	32	5	390	5	AKAP3	12	4735889	Nonsense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1086058	4735889	129116006	176	88926											
NOP2	4839	broad.mit.edu	37	chr12	6670217	6670217	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattggcaaggatcacaccCgtgttcttcatcagctgggc	8	11	10	12	1	5	0	4	0	1	0	5	1	5	1	1	3	1	3	1	3	1	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:6670217C>G	uc001qph.1	-	12	1395	c.1215G>C	c.(1213-1215)ACG>ACC	p.T405T	NOP2_uc009zeq.1_Silent_p.T121T|NOP2_uc001qpi.1_Silent_p.T405T|NOP2_uc001qpj.1_Intron	NM_001033714	NP_001028886	P46087	NOP2_HUMAN	nucleolar protein 1, 120kDa	409					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						GGATCACACCCGTGTTCTTCA	0.542													16	46					0	0	0.006122	0	0		G	6670217	G	G	6670217	2	3	163	1	0	0	0	0	0	0	0	1	10557	639	23	5		5	NOP2	12	6670217	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1934328	6670217	127181678	177	88927											
WBP11	51729	broad.mit.edu	37	chr12	14949824	14949824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctcaattctttgtaaatatCtggattctctttttcataga	10	20	4	7	0	5	1	2	0	4	1	7	2	5	2	0	1	0	1	0	1	5	8			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:14949824C>T	uc001rci.2	-	5	465	c.304G>A	c.(304-306)GAT>AAT	p.D102N		NM_016312	NP_057396	Q9Y2W2	WBP11_HUMAN	WW domain binding protein 11	102	Potential.				mRNA processing|RNA splicing|rRNA processing	cytoplasm	single-stranded DNA binding|WW domain binding			ovary(1)|lung(1)	2						TTGTAAATATCTGGATTCTCT	0.353													71	148					0	0	0.01441	0	0		T	14949824	T	T	14949824	3	4	163	1	0	0	0	0	1	0	0	0	17284	913	32	4	1653	4	WBP11	12	14949824	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	8279607	14949824	118902071	178	88928											
PLEKHA5	54477	broad.mit.edu	37	chr12	19427792	19427792	+	Silent	SNP	T	C	C	0	1	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	gcagatcttagaggtggaaaTcgccccaatacagggccctt	11	8	11	11	1	1	2	0	0	1	2	2	3	1	3	3	3	1	1	3	3	4	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:19427792T>C	uc001reb.2	+	10	1256	c.1170T>C	c.(1168-1170)AAT>AAC	p.N390N	PLEKHA5_uc010sie.1_Silent_p.N396N|PLEKHA5_uc001rea.2_Silent_p.N390N|PLEKHA5_uc009zin.2_Silent_p.N148N|PLEKHA5_uc010sif.1_Silent_p.N282N|PLEKHA5_uc010sig.1_Silent_p.N282N|PLEKHA5_uc010sih.1_Silent_p.N282N|PLEKHA5_uc001rec.1_Silent_p.N78N	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	390							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					GAGGTGGAAATCGCCCCAATA	0.468													40	75					0	0	0.004878	0	0		C	19427792	C	C	19427792	2	2	163	1	0	0	0	0	0	0	0	1	12078	1432	50	3		3	PLEKHA5	12	19427792	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	4477968	19427792	114424103	179	88929											
PDE3A	5139	broad.mit.edu	37	chr12	20833192	20833192	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgaggagataccaacccaaaAgccagaccagtgacaatgga	17	3	10	11	1	0	3	0	1	0	2	0	6	0	4	4	2	3	0	4	2	5	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:20833192A>C	uc001reh.1	+	16	3435	c.3413A>C	c.(3412-3414)AAG>ACG	p.K1138T		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	1138					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CCAACCCAAAAGCCAGACCAG	0.468													19	66					0	0	0.008871	0	0		C	20833192	C	C	20833192	3	2	163	1	0	0	0	0	1	0	0	0	11656	72	3	5	3475	5	PDE3A	12	20833192	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	1405400	20833192	113018703	180	88930											
GYS2	2998	broad.mit.edu	37	chr12	21728967	21728967	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccacataaggacttccttCtatcagccatcttccaaaat	13	12	3	13	0	3	0	1	0	2	0	5	1	5	1	4	1	2	0	4	1	5	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:21728967C>A	uc001rfb.2	-	3	583	c.328G>T	c.(328-330)GAA>TAA	p.E110*		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	110					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						GGACTTCCTTCTATCAGCCAT	0.443													39	114					2.91434e-09	3.1225e-09	0.004878	1	0		A	21728967	A	A	21728967	4	1	163	1	0	0	0	0	0	1	0	0	6929	922	32	5	1839	5	GYS2	12	21728967	Nonsense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	895775	21728967	112122928	181	88931											
ALG10B	144245	broad.mit.edu	37	chr12	38712171	38712171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatgttgtctgctccattGggatgctcagatttgttaat	9	16	9	7	0	2	1	1	0	1	1	3	2	3	2	1	1	3	4	1	1	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:38712171G>A	uc001rln.3	+	2	419	c.280G>A	c.(280-282)GGG>AGG	p.G94R	ALG10B_uc001rlo.3_Missense_Mutation_p.G64R|ALG10B_uc010skk.1_Missense_Mutation_p.G34R	NM_001013620	NP_001013642	Q5I7T1	AG10B_HUMAN	asparagine-linked glycosylation 10 homolog B	94	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|plasma membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			ovary(2)|skin(1)	3	Esophageal squamous(101;0.187)	Lung NSC(34;0.204)|all_lung(34;0.235)				CTGCTCCATTGGGATGCTCAG	0.408													6	489					0	0	0.001984	0	0		A	38712171	A	A	38712171	3	1	163	1	0	0	0	0	1	0	0	0	512	1348	47	4	286	4	ALG10B	12	38712171	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	16983204	38712171	95139724	182	88932											
CNTN1	1272	broad.mit.edu	37	chr12	41421693	41421693	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaaggatcatcagttcagtAaggtctggttcacgctatat	11	12	9	9	1	5	0	4	0	1	0	5	1	5	1	1	3	0	4	1	3	4	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:41421693A>G	uc001rmm.1	+	22	2858	c.2745A>G	c.(2743-2745)GTA>GTG	p.V915V	CNTN1_uc001rmn.1_Silent_p.V904V	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	915	Fibronectin type-III 4.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				TCAGTTCAGTAAGGTCTGGTT	0.393													3	163					0	0	0.004672	0	0		G	41421693	G	G	41421693	2	3	163	1	0	0	0	0	0	0	0	1	3643	349	13	3		3	CNTN1	12	41421693	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	2709522	41421693	92430202	183	88933											
PRPH	5630	broad.mit.edu	37	chr12	49689232	49689232	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcgacttctccatggcCgaggccctcaaccaggagtt	7	8	10	16	3	2	0	1	0	1	0	4	3	2	1	5	3	1	1	5	3	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:49689232C>T	uc001rtu.2	+	1	324	c.249C>T	c.(247-249)GCC>GCT	p.A83A		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	83	Head.						structural molecule activity				0						TCTCCATGGCCGAGGCCCTCA	0.687													3	12					0	0	0.009096	0	0		T	49689232	T	T	49689232	2	4	163	1	0	0	0	0	0	0	0	1	12598	639	23	1		1	PRPH	12	49689232	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	8267539	49689232	84162663	184	88934											
KRT75	9119	broad.mit.edu	37	chr12	52818448	52818448	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaccactggtggtgaaGgagtagccgctgcccccacc	7	6	12	16	1	0	1	0	1	0	0	0	2	0	2	6	3	3	2	6	3	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:52818448G>A	uc001saj.2	-	9	1531	c.1509C>T	c.(1507-1509)TCC>TCT	p.S503S		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	503	Tail.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		TGGTGGTGAAGGAGTAGCCGC	0.627													20	52					0	0	0.006999	0	0		A	52818448	A	A	52818448	2	1	163	1	0	0	0	0	0	0	0	1	8504	987	35	4		4	KRT75	12	52818448	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3129216	52818448	81033447	185	88935											
KRT75	9119	broad.mit.edu	37	chr12	52827681	52827681	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatggtggggtcgatttgCaggtgaagaggagtcaggag	9	9	20	3	1	1	2	1	1	0	1	2	6	1	5	0	7	1	1	0	7	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:52827681C>T	uc001saj.2	-	1	430	c.408G>A	c.(406-408)CTG>CTA	p.L136L		NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75	136	Head.					keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		GGTCGATTTGCAGGTGAAGAG	0.597													4	143					0	0	0.009096	0	0		T	52827681	T	T	52827681	2	4	163	1	0	0	0	0	0	0	0	1	8504	697	25	2		2	KRT75	12	52827681	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	9233	52827681	81024214	186	88936											
EIF4B	1975	broad.mit.edu	37	chr12	53421886	53421886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaggaggcggggaccgctAtgaagaccgatatgacagac	13	4	15	9	3	0	5	0	2	0	3	0	8	0	7	2	4	0	1	2	4	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:53421886A>G	uc001sbh.3	+	8	1099	c.893A>G	c.(892-894)TAT>TGT	p.Y298C	EIF4B_uc010snu.1_Missense_Mutation_p.Y298C|EIF4B_uc010snv.1_Missense_Mutation_p.Y259C|EIF4B_uc001sbi.2_Missense_Mutation_p.Y50C	NM_001417	NP_001408	P23588	IF4B_HUMAN	eukaryotic translation initiation factor 4B	298	Arg-rich.|Asp-rich.				insulin receptor signaling pathway|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	nucleotide binding|translation initiation factor activity			breast(1)|kidney(1)	2						GGGGACCGCTATGAAGACCGA	0.488													40	86					0	0	0.00874	0	0		G	53421886	G	G	53421886	3	3	163	1	0	0	0	0	1	0	0	0	5035	449	16	3	923	3	EIF4B	12	53421886	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	594205	53421886	80430009	187	88937											
NPFF	8620	broad.mit.edu	37	chr12	53900648	53900648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggactcagccattcattcCtccaggatccctgggtattt	7	12	10	12	0	2	0	2	0	0	0	5	2	5	2	4	4	1	1	4	4	1	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:53900648C>T	uc001sdw.1	-	3	418	c.254G>A	c.(253-255)AGG>AAG	p.R85K		NM_003717	NP_003708	O15130	NPFF_HUMAN	neuropeptide FF-amide peptide preproprotein	85					neuropeptide signaling pathway|synaptic transmission	extracellular region|soluble fraction	neuropeptide hormone activity				0						CCATTCATTCCTCCAGGATCC	0.562													82	209					0	0	0.01441	0	0		T	53900648	T	T	53900648	3	4	163	1	0	0	0	0	1	0	0	0	10595	681	24	4	91	4	NPFF	12	53900648	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	478762	53900648	79951247	188	88938											
OR6C70	390327	broad.mit.edu	37	chr12	55862995	55862995	+	Missense_Mutation	SNP	A	T	T	1	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	caagttgtattacttgtctgAagcagaaaatatctttctaa	14	15	6	6	0	3	2	0	1	3	1	3	2	3	2	0	0	2	3	0	0	8	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:55862995A>T	uc010spn.1	-	1	928	c.928T>A	c.(928-930)TCA>ACA	p.S310T		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	310	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TACTTGTCTGAAGCAGAAAAT	0.308													10	132					0	0	0.006214	0	0		T	55862995	T	T	55862995	3	4	163	1	0	0	0	0	1	0	0	0	11216	246	9	5	12	5	OR6C70	12	55862995	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	1962347	55862995	77988900	189	88939											
RDH5	5959	broad.mit.edu	37	chr12	56118266	56118266	+	Silent	SNP	A	C	C	1	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	ctgcctgcctcctacctgccAgccagcctggtggatgctgt	4	10	11	16	0	0	0	0	0	0	0	1	1	1	1	7	2	7	1	7	2	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:56118266A>C	uc001shk.2	+	5	1077	c.894A>C	c.(892-894)CCA>CCC	p.P298P	RDH5_uc001shl.2_Silent_p.P298P	NM_002905	NP_002896	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis and 9-cis)	298					response to stimulus|visual perception	membrane	binding|retinol dehydrogenase activity			ovary(1)	1					NADH(DB00157)|Vitamin A(DB00162)	CCTACCTGCCAGCCAGCCTGG	0.607											OREG0021908	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	66					0	0	0.008361	0	0		C	56118266	C	C	56118266	2	2	163	1	0	0	0	0	0	0	0	1	13220	175	7	5		5	RDH5	12	56118266	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	255271	56118266	77733629	190	88940											
RAB5B	5869	broad.mit.edu	37	chr12	56383868	56383868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctgcaatcgtggtttacGacattactaatcaggtaagt	13	12	9	7	2	1	0	1	0	0	0	2	1	1	0	0	2	4	4	0	2	6	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:56383868G>A	uc001siv.2	+	3	418	c.301G>A	c.(301-303)GAC>AAC	p.D101N	RAB5B_uc001siw.2_Missense_Mutation_p.D101N|RAB5B_uc009zog.2_Intron|RAB5B_uc010spz.1_Missense_Mutation_p.D101N	NM_002868	NP_002859	P61020	RAB5B_HUMAN	RAB5B, member RAS oncogene family	101					protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|membrane fraction|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			CGTGGTTTACGACATTACTAA	0.348													14	32					0	0	0.001855	0	0		A	56383868	A	A	56383868	3	1	163	1	0	0	0	0	1	0	0	0	12974	1058	37	1	307	1	RAB5B	12	56383868	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	265602	56383868	77468027	191	88941											
CS	1431	broad.mit.edu	37	chr12	56679734	56679734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttggcccaccaccgtcttgCcatgttgctgcctgaaagtc	6	12	9	14	1	1	1	0	1	1	0	2	1	1	1	5	1	3	2	5	1	1	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:56679734C>T	uc001sks.1	-	3	357	c.167G>A	c.(166-168)GGC>GAC	p.G56D	CS_uc010sql.1_Missense_Mutation_p.G43D|CS_uc001skr.1_5'UTR|CS_uc001skt.1_Missense_Mutation_p.G11D|CS_uc010sqm.1_5'UTR	NM_004077	NP_004068	O75390	CISY_HUMAN	citrate synthase precursor	56					cellular carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	citrate (Si)-synthase activity				0		Myeloproliferative disorder(1001;0.000374)		BRCA - Breast invasive adenocarcinoma(357;6.17e-07)		CACCGTCTTGCCATGTTGCTG	0.438													5	432					0	0	0.001168	0	0		T	56679734	T	T	56679734	3	4	163	1	0	0	0	0	1	0	0	0	3927	739	26	2	1269	2	CS	12	56679734	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	295866	56679734	77172161	192	88942											
NAV3	89795	broad.mit.edu	37	chr12	78515734	78515734	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaggttgtttggtgccaAggcaggtggcaaatctgcct	7	14	13	7	0	1	0	0	0	1	0	1	0	1	0	2	5	2	4	2	5	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:78515734A>T	uc001syp.2	+	16	3937	c.3764A>T	c.(3763-3765)AAG>ATG	p.K1255M	NAV3_uc001syo.2_Missense_Mutation_p.K1255M|NAV3_uc010sub.1_Missense_Mutation_p.K755M|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1255	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TTTGGTGCCAAGGCAGGTGGC	0.443										HNSCC(70;0.22)			34	88					0	0	0.007835	0	0		T	78515734	T	T	78515734	3	4	163	1	0	0	0	0	1	0	0	0	10203	72	3	5	3826	5	NAV3	12	78515734	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	21836000	78515734	55336161	193	88943											
PLEKHG7	440107	broad.mit.edu	37	chr12	93148040	93148040	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggtggaaaagtccatcCgtaagtccctgagataagtg	15	8	11	7	1	0	1	0	1	0	1	3	3	3	2	3	2	0	1	3	2	6	2	rs115752910	by1000genomes	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:93148040C>T	uc001tcj.2	+	6	720	c.490C>T	c.(490-492)CGG>TGG	p.R164W		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G	164	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						AAAGTCCATCCGTAAGTCCCT	0.438													15	46					0	0	0.00245	0	0		T	93148040	T	T	93148040	3	4	163	1	0	0	0	0	1	0	0	0	12094	666	23	1	508	1	PLEKHG7	12	93148040	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	14632306	93148040	40703855	194	88944											
FGD6	55785	broad.mit.edu	37	chr12	95604081	95604081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtatctacacacttttggcGtaacagacgagcagttcgtg	11	11	10	9	3	1	1	0	0	1	1	2	2	1	1	0	1	3	4	0	1	3	6	rs138823345	byFrequency	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:95604081G>A	uc001tdp.3	-	2	1203	c.979C>T	c.(979-981)CGC>TGC	p.R327C	FGD6_uc009zsx.2_Intron	NM_018351	NP_060821	Q6ZV73	FGD6_HUMAN	FYVE, RhoGEF and PH domain containing 6	327					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|breast(1)	3						CACTTTTGGCGTAACAGACGA	0.408													17	346					0	0	0.007413	0	0		A	95604081	A	A	95604081	3	1	163	1	0	0	0	0	1	0	0	0	5851	1145	40	1	3393	1	FGD6	12	95604081	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	2456041	95604081	38247814	195	88945											
STAB2	55576	broad.mit.edu	37	chr12	104157271	104157271	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttgtctttccaaacagtCggaagaggacattaatgttg	11	13	10	7	1	1	1	0	0	1	1	3	3	2	3	1	2	2	2	1	2	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:104157271C>A	uc001tjw.2	+	68	7676	c.7490C>A	c.(7489-7491)TCG>TAG	p.S2497*	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	2497	Cytoplasmic (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TCCAAACAGTCGGAAGAGGAC	0.532													163	376					1.92755e-57	2.16614e-57	0.01441	1	0		A	104157271	A	A	104157271	4	1	163	1	0	0	0	0	0	1	0	0	15263	898	31	5	7760	5	STAB2	12	104157271	Nonsense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	8553190	104157271	29694624	196	88946											
KSR2	283455	broad.mit.edu	37	chr12	118198882	118198882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatttgctccgatgcagcGcggtgaatcccgggatcaag	8	8	15	10	4	1	1	1	1	0	0	3	4	3	3	2	3	3	2	2	3	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:118198882G>A	uc001two.2	-	4	888	c.833C>T	c.(832-834)GCG>GTG	p.A278V		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	307					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CCGATGCAGCGCGGTGAATCC	0.667													64	143					0	0	0.01441	0	0		A	118198882	A	A	118198882	3	1	163	1	0	0	0	0	1	0	0	0	8598	1087	38	1	2000	1	KSR2	12	118198882	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	14041611	118198882	15653013	197	88947											
CLIP1	6249	broad.mit.edu	37	chr12	122763599	122763599	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctcagtttctccagctcGgcatccttttctgtgagtaa	6	17	7	11	1	3	1	1	1	3	0	7	1	4	1	2	1	1	4	2	1	1	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr12:122763599G>A	uc001ucg.1	-	21	3847	c.3741C>T	c.(3739-3741)GCC>GCT	p.A1247A	CLIP1_uc001uch.1_Silent_p.A1236A|CLIP1_uc001uci.1_Silent_p.A1201A|CLIP1_uc001ucj.1_Silent_p.A822A	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1247	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TCTCCAGCTCGGCATCCTTTT	0.458													82	242					0	0	0.01441	0	0		A	122763599	A	A	122763599	2	1	163	1	0	0	0	0	0	0	0	1	3535	1103	39	1		1	CLIP1	12	122763599	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	4564717	122763599	11088296	198	88948											
ZDHHC20	253832	broad.mit.edu	37	chr13	22033233	22033233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacgcgtagtaggaccagacGaccacgaaggtgatgaagag	14	5	14	8	4	0	4	0	2	0	2	0	7	0	5	2	2	1	2	2	2	5	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:22033233G>A	uc001uob.2	-	1	191	c.78C>T	c.(76-78)GTC>GTT	p.V26V	ZDHHC20_uc001uod.2_RNA|ZDHHC20_uc001uoc.2_RNA|ZDHHC20_uc001uoe.2_RNA|ZDHHC20_uc010tcs.1_5'UTR	NM_153251	NP_694983	Q5W0Z9	ZDH20_HUMAN	zinc finger, DHHC-type containing 20	26	Helical; (Potential).					integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1		all_cancers(29;8.1e-16)|all_epithelial(30;3.63e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000268)|Epithelial(112;0.000735)|OV - Ovarian serous cystadenocarcinoma(117;0.00517)|Lung(94;0.171)		AGGACCAGACGACCACGAAGG	0.602													8	8					0	0	0.004482	0	0		A	22033233	A	A	22033233	2	1	163	1	0	0	0	0	0	0	0	1	17636	1045	37	1		1	ZDHHC20	13	22033233	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08		22033233	93136645	199	88949											
FAM123A	219287	broad.mit.edu	37	chr13	25744011	25744011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagatacgggctttaaccGggacagggaggacgtctcct	9	8	15	9	3	1	1	0	0	1	1	2	5	1	4	2	5	2	1	2	5	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:25744011G>A	uc001uqb.2	-	1	1847	c.1747C>T	c.(1747-1749)CGG>TGG	p.R583W	FAM123A_uc001uqa.2_Missense_Mutation_p.R464W|FAM123A_uc001uqc.2_Missense_Mutation_p.R464W	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	583										ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GGCTTTAACCGGGACAGGGAG	0.572													100	62					0	0	0.01441	0	0		A	25744011	A	A	25744011	3	1	163	1	0	0	0	0	1	0	0	0	5433	1115	39	1	272	1	FAM123A	13	25744011	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3710778	25744011	89425867	200	88950											
NBEA	26960	broad.mit.edu	37	chr13	35733293	35733293	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacagacaacaggagcaaaAggtggaatggaaattcgaga	18	5	12	6	1	1	2	1	0	0	2	2	6	1	5	0	4	2	1	0	4	5	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:35733293A>C	uc001uvb.2	+	23	3191	c.2985A>C	c.(2983-2985)AAA>AAC	p.K995N	NBEA_uc010abi.2_5'Flank	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	995						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CAGGAGCAAAAGGTGGAATGG	0.428													90	58					0	0	0.01441	0	0		C	35733293	C	C	35733293	3	2	163	1	0	0	0	0	1	0	0	0	10205	69	3	5	3071	5	NBEA	13	35733293	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	9989282	35733293	79436585	201	88951											
MAB21L1	4081	broad.mit.edu	37	chr13	36049942	36049942	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaatgaattccacccagaGggacatgctcctcttgcgcc	9	9	10	13	1	1	2	0	1	1	1	3	3	3	3	4	2	2	2	4	2	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:36049942G>C	uc001uvc.2	-	1	891	c.334C>G	c.(334-336)CTC>GTC	p.L112V	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	112					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		TCCACCCAGAGGGACATGCTC	0.577													17	38					0	0	0.00499	0	0		C	36049942	C	C	36049942	3	2	163	1	0	0	0	0	1	0	0	0	9159	1000	35	5	749	5	MAB21L1	13	36049942	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	316649	36049942	79119936	202	88952											
CCNA1	8900	broad.mit.edu	37	chr13	37014128	37014128	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttcccaggaaatatgaagaGatatatcctcctgaagtaga	15	11	8	7	0	0	4	0	2	0	2	3	6	3	5	3	1	0	1	3	1	7	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:37014128G>A	uc001uvr.3	+	6	1256	c.906G>A	c.(904-906)GAG>GAA	p.E302E	CCNA1_uc010teo.1_Silent_p.E258E|CCNA1_uc010abq.2_Silent_p.E258E|CCNA1_uc010abp.2_Silent_p.E258E|CCNA1_uc001uvs.3_Silent_p.E301E|CCNA1_uc010abr.2_Intron	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	302					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		AATATGAAGAGATATATCCTC	0.418													60	41					0	0	0.01441	0	0		A	37014128	A	A	37014128	2	1	163	1	0	0	0	0	0	0	0	1	2912	933	33	4		4	CCNA1	13	37014128	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	964186	37014128	78155750	203	88953											
SLITRK6	84189	broad.mit.edu	37	chr13	86370524	86370524	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttattagcattgtgccatcTttttcctcacaattgcaaag	10	17	5	9	0	2	0	1	0	1	0	3	0	3	0	2	0	3	2	2	0	4	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:86370524T>G	uc001vll.1	-	2	579	c.120A>C	c.(118-120)AAA>AAC	p.K40N	SLITRK6_uc010afe.1_5'Flank	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	40	LRRNT 1.|Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		TTGTGCCATCTTTTTCCTCAC	0.383													63	169					0	0	0.01441	0	0		G	86370524	G	G	86370524	3	3	163	1	0	0	0	0	1	0	0	0	14772	1606	56	5	2409	5	SLITRK6	13	86370524	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	49356396	86370524	28799354	204	88954											
FGF14	2259	broad.mit.edu	37	chr13	102527574	102527574	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttggttccatcgagagctCcatcggggtgcatttgcaag	7	11	12	11	2	0	1	0	0	0	1	4	2	2	1	3	3	3	4	3	3	1	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:102527574C>A	uc001vpe.2	-	2	266	c.266G>T	c.(265-267)GGA>GTA	p.G89V	FGF14_uc001vpf.2_Missense_Mutation_p.G94V	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	89					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ATCGAGAGCTCCATCGGGGTG	0.448													53	45					2.48909e-17	2.70894e-17	0.01441	1	0		A	102527574	A	A	102527574	3	1	163	1	0	0	0	0	1	0	0	0	5857	855	30	5	493	5	FGF14	13	102527574	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	16157050	102527574	12642304	205	88955											
F10	2159	broad.mit.edu	37	chr13	113803380	113803380	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccttccgcatgaacgtggCgcctgcctgcctccccgagc	5	7	10	19	4	0	1	0	1	0	0	2	2	2	1	7	1	4	1	7	1	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr13:113803380C>T	uc001vsx.2	+	8	1073	c.1016C>T	c.(1015-1017)GCG>GTG	p.A339V	F10_uc001vsy.2_3'UTR|F10_uc001vsz.2_3'UTR	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	339	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATGAACGTGGCGCCTGCCTGC	0.637													62	38					0	0	0.01441	0	0		T	113803380	T	T	113803380	3	4	163	1	0	0	0	0	1	0	0	0	5344	768	27	1	1046	1	F10	13	113803380	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	11275806	113803380	1366498	206	88956											
OR4M1	441670	broad.mit.edu	37	chr14	20249095	20249095	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatgatctgtagtagtggtcTgatctctgtggtgtgtttca	6	17	13	5	0	4	2	1	2	3	0	5	3	4	2	0	2	0	3	0	2	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:20249095T>C	uc010tku.1	+	1	614	c.614T>C	c.(613-615)CTG>CCG	p.L205P		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGTAGTGGTCTGATCTCTGTG	0.473													117	475					0	0	0.01441	0	0		C	20249095	C	C	20249095	3	2	163	1	0	0	0	0	1	0	0	0	11094	1580	55	3	616	3	OR4M1	14	20249095	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08		20249095	87100445	207	88957											
SALL2	6297	broad.mit.edu	37	chr14	21992247	21992247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgccgtgctactttctgccaCtccactgatggctgagccct	5	12	9	15	1	1	2	0	2	1	0	2	2	2	2	4	1	5	2	4	1	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:21992247C>T	uc001wbe.2	-	2	1897	c.1615G>A	c.(1615-1617)GTG>ATG	p.V539M	SALL2_uc010tly.1_Missense_Mutation_p.V537M|SALL2_uc010tlz.1_Missense_Mutation_p.V402M|SALL2_uc001wbf.3_Intron|SALL2_uc010tma.1_Missense_Mutation_p.V404M|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	539							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CTTTCTGCCACTCCACTGATG	0.507													29	86					0	0	0.008361	0	0		T	21992247	T	T	21992247	3	4	163	1	0	0	0	0	1	0	0	0	13836	565	20	4	1412	4	SALL2	14	21992247	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1743152	21992247	85357293	208	88958											
MYH7	4625	broad.mit.edu	37	chr14	23887536	23887536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctcggccttggcctccGtctcctcctcgtactgctcc	2	11	9	19	3	1	0	0	0	1	0	7	0	4	0	6	2	3	4	6	2	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:23887536G>A	uc001wjx.2	-	30	4158	c.4052C>T	c.(4051-4053)ACG>ATG	p.T1351M	MIR208B_hsa-mir-208b|MI0005570_5'Flank	NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	1351	Potential.				adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CTTGGCCTCCGTCTCCTCCTC	0.672													15	69					0	0	0.004007	0	0		A	23887536	A	A	23887536	3	1	163	1	0	0	0	0	1	0	0	0	10057	1145	40	1	1799	1	MYH7	14	23887536	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	1895289	23887536	83462004	209	88959											
WDHD1	11169	broad.mit.edu	37	chr14	55467294	55467294	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatttccttccgcatcagtaTacgatattcgaccacaagta	12	12	6	11	3	1	0	1	0	0	0	4	3	3	0	3	0	1	3	3	0	5	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:55467294T>A	uc001xbm.1	-	10	947	c.869A>T	c.(868-870)TAT>TTT	p.Y290F	WDHD1_uc001xbn.1_Missense_Mutation_p.Y167F	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	290	WD 7.					cytoplasm|nucleoplasm	DNA binding			skin(1)	1						CGCATCAGTATACGATATTCG	0.393													5	151					0	0	0.000602	0	0		A	55467294	A	A	55467294	3	1	163	1	0	0	0	0	1	0	0	0	17297	1406	49	5	2588	5	WDHD1	14	55467294	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	31579758	55467294	51882246	210	88960											
SYT16	83851	broad.mit.edu	37	chr14	62550996	62550996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgctgtctcatggaggggCgccagagctgttggtggggc	4	9	19	9	2	1	1	1	0	1	1	3	2	1	2	1	6	1	3	1	6	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:62550996C>T	uc001xfu.1	+	5	1714	c.1517C>T	c.(1516-1518)GCG>GTG	p.A506V	SYT16_uc010tse.1_Missense_Mutation_p.A64V	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	506										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		CATGGAGGGGCGCCAGAGCTG	0.552													27	84					0	0	0.004656	0	0		T	62550996	T	T	62550996	3	4	163	1	0	0	0	0	1	0	0	0	15497	768	27	1	1535	1	SYT16	14	62550996	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	7083702	62550996	44798544	211	88961											
SYNE2	23224	broad.mit.edu	37	chr14	64488618	64488618	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaaacacagtatgatatTacttgagaatcaaataggtt	18	11	7	5	0	1	2	1	2	0	1	1	3	1	2	0	1	2	3	0	1	8	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:64488618T>G	uc001xgm.2	+	37	5626	c.5396T>G	c.(5395-5397)TTA>TGA	p.L1799*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.L1799*	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1799	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AGTATGATATTACTTGAGAAT	0.308													5	190					0	0	0.000602	0	0		G	64488618	G	G	64488618	4	3	163	1	0	0	0	0	0	1	0	0	15471	1764	61	5	5538	5	SYNE2	14	64488618	Nonsense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	1937622	64488618	42860922	212	88962											
FNTB	2342	broad.mit.edu	37	chr14	65507516	65507516	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctcttcttaggtgtcagaActgggaaggtggcattggcg	8	12	14	7	1	3	1	1	0	2	1	4	2	3	2	0	5	1	1	0	5	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:65507516A>G	uc001xia.2	+	8	866	c.701A>G	c.(700-702)AAC>AGC	p.N234S	FNTB_uc010tsl.1_Missense_Mutation_p.N268S|FNTB_uc010tsm.1_Missense_Mutation_p.N188S|MAX_uc001xic.1_Intron|FNTB_uc001xid.2_5'UTR|FNTB_uc010tso.1_Missense_Mutation_p.N149S	NM_002028	NP_002019	P49356	FNTB_HUMAN	farnesyltransferase, CAAX box, beta	234	PFTB 3.				protein farnesylation	microtubule associated complex	protein binding|protein farnesyltransferase activity			ovary(1)	1				all cancers(60;0.00115)|OV - Ovarian serous cystadenocarcinoma(108;0.00412)|BRCA - Breast invasive adenocarcinoma(234;0.011)		AGGTGTCAGAACTGGGAAGGT	0.537													29	112					0	0	0.003755	0	0		G	65507516	G	G	65507516	3	3	163	1	0	0	0	0	1	0	0	0	5992	43	2	3	731	3	FNTB	14	65507516	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	1018898	65507516	41842024	213	88963											
ACTN1	87	broad.mit.edu	37	chr14	69347567	69347567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgttgtcgaagatgagcGcctcctggatgagctggtgg	6	11	16	8	2	0	3	0	2	0	1	2	5	1	4	2	3	2	3	2	3	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:69347567G>A	uc001xkl.2	-	17	2403	c.2093C>T	c.(2092-2094)GCG>GTG	p.A698V	ACTN1_uc001xkk.2_Missense_Mutation_p.A294V|ACTN1_uc010ttb.1_Missense_Mutation_p.A633V|ACTN1_uc001xkm.2_Missense_Mutation_p.A698V|ACTN1_uc001xkn.2_Missense_Mutation_p.A698V|ACTN1_uc010ttc.1_Missense_Mutation_p.A283V	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	698	Spectrin 4.|Interaction with DDN.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		GAAGATGAGCGCCTCCTGGAT	0.582													35	99					0	0	0.004878	0	0		A	69347567	A	A	69347567	3	1	163	1	0	0	0	0	1	0	0	0	204	1087	38	1	675	1	ACTN1	14	69347567	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3840051	69347567	38001973	214	88964											
FLRT2	23768	broad.mit.edu	37	chr14	86089096	86089096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacgattcctgactgggatgGcagagaaagagtgaccccac	12	6	12	11	1	0	4	0	2	0	2	1	7	1	5	3	2	0	1	3	2	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:86089096G>A	uc001xvr.2	+	2	2005	c.1238G>A	c.(1237-1239)GGC>GAC	p.G413D	FLRT2_uc010atd.2_Missense_Mutation_p.G413D	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	413	Extracellular (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GACTGGGATGGCAGAGAAAGA	0.502													30	79					0	0	0.007291	0	0		A	86089096	A	A	86089096	3	1	163	1	0	0	0	0	1	0	0	0	5953	1203	42	2	1240	2	FLRT2	14	86089096	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	16741529	86089096	21260444	215	88965											
EML1	2009	broad.mit.edu	37	chr14	100381009	100381009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggacgctgtgggtcaccGtcccgtctgggacaaaataa	9	8	13	11	3	2	0	1	0	1	0	3	2	3	2	2	3	0	1	2	3	3	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:100381009G>A	uc001ygs.2	+	15	1796	c.1727G>A	c.(1726-1728)CGT>CAT	p.R576H	EML1_uc010tww.1_Missense_Mutation_p.R564H|EML1_uc001ygr.2_Missense_Mutation_p.R595H	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	576	WD 6.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				GTGGGTCACCGTCCCGTCTGG	0.438													13	36					0	0	0.013537	0	0		A	100381009	A	A	100381009	3	1	163	1	0	0	0	0	1	0	0	0	5104	1145	40	1	1846	1	EML1	14	100381009	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	14291913	100381009	6968531	216	88966											
ADSSL1	122622	broad.mit.edu	37	chr14	105211180	105211180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaagctggacatcctggacGtactgggtgaggttaaagtc	10	9	14	8	2	0	1	0	1	0	0	2	4	1	3	1	4	2	3	1	4	4	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:105211180G>A	uc001ypd.2	+	11	1179	c.1105G>A	c.(1105-1107)GTA>ATA	p.V369I	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Missense_Mutation_p.V412I|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	369					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	CATCCTGGACGTACTGGGTGA	0.557													17	63					0	0	0.006122	0	0		A	105211180	A	A	105211180	3	1	163	1	0	0	0	0	1	0	0	0	348	1145	40	1	1472	1	ADSSL1	14	105211180	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	4830171	105211180	2138360	217	88967											
AHNAK2	113146	broad.mit.edu	37	chr14	105408763	105408763	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgctgaggtgagtggtcTtcaggtccccctgcatggag	7	10	15	9	0	2	2	1	2	1	0	3	4	3	3	2	4	2	2	2	4	1	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr14:105408763T>C	uc010axc.1	-	7	13145	c.13025A>G	c.(13024-13026)AAG>AGG	p.K4342R	AHNAK2_uc001ypx.2_Missense_Mutation_p.K4242R	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4342						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GTGAGTGGTCTTCAGGTCCCC	0.632													93	227					0	0	0.01441	0	0		C	105408763	C	C	105408763	3	2	163	1	0	0	0	0	1	0	0	0	415	1609	56	3	4366	3	AHNAK2	14	105408763	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	197583	105408763	1940777	218	88968											
MKRN3	7681	broad.mit.edu	37	chr15	23811376	23811376	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctagcacggctgcgcacatCgagcccccgactcaggaagt	9	5	11	16	4	1	0	1	0	0	0	2	3	1	1	3	2	3	3	3	2	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr15:23811376C>T	uc001ywh.3	+	1	923	c.447C>T	c.(445-447)ATC>ATT	p.I149I	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.I149I	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	149						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CTGCGCACATCGAGCCCCCGA	0.642													16	35					0	0	0.004007	0	0		T	23811376	T	T	23811376	2	4	163	1	0	0	0	0	0	0	0	1	9626	874	31	1		1	MKRN3	15	23811376	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08		23811376	78720016	219	88969											
GABRB3	2562	broad.mit.edu	37	chr15	27184420	27184420	+	Missense_Mutation	SNP	A	T	T	1	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	cggcatcattctcagcaatgAatgggaggtctcctcgtgcc	8	10	11	12	2	3	1	2	1	2	0	6	2	3	2	2	3	2	2	2	3	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr15:27184420A>T	uc001zbb.2	-	1	267	c.164T>A	c.(163-165)TTC>TAC	p.F55Y	GABRA5_uc001zbd.1_Intron	NM_021912	NP_068712	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	Error:Variant_position_missing_in_P28472_after_alignment					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	CTCAGCAATGAATGGGAGGTC	0.582													27	91					0	0	0.012213	0	0		T	27184420	T	T	27184420	3	4	163	1	0	0	0	0	1	0	0	0	6182	261	9	5		5	GABRB3	15	27184420	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	3373044	27184420	75346972	220	88970											
MYO5C	55930	broad.mit.edu	37	chr15	52517670	52517670	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgtgactgcacatgtttCtccacatctatcttctgtgc	6	18	6	11	0	4	1	0	1	4	0	5	1	4	1	1	0	2	2	1	0	1	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr15:52517670C>T	uc010bff.2	-	26	3404	c.3267G>A	c.(3265-3267)GAG>GAA	p.E1089E	MYO5C_uc010uga.1_RNA	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	1089	Potential.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GCACATGTTTCTCCACATCTA	0.393													7	280					0	0	0.001984	0	0		T	52517670	T	T	52517670	2	4	163	1	0	0	0	0	0	0	0	1	10098	912	32	4		4	MYO5C	15	52517670	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	25333250	52517670	50013722	221	88971											
MYO5C	55930	broad.mit.edu	37	chr15	52534277	52534277	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccttgccaggaatcctcGgctgtaggcctgcattgtga	6	11	11	13	1	0	1	0	1	0	0	3	2	2	2	5	3	2	3	5	3	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr15:52534277G>A	uc010bff.2	-	20	2661	c.2524C>T	c.(2524-2526)CGA>TGA	p.R842*	MYO5C_uc010uga.1_Intron|MYO5C_uc010ugb.1_Intron	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	842	IQ 4.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		AGGAATCCTCGGCTGTAGGCC	0.542													13	315					0	0	0.001855	0	0		A	52534277	A	A	52534277	4	1	163	1	0	0	0	0	0	1	0	0	10098	1124	39	1	2792	1	MYO5C	15	52534277	Nonsense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	16607	52534277	49997115	222	88972											
NEDD4	4734	broad.mit.edu	37	chr15	56208746	56208746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaagatatccactgtacCttgttggctgtagtgaaatc	11	13	9	8	0	0	3	0	2	0	1	2	3	1	3	2	1	1	4	2	1	5	5	rs146216406		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr15:56208746C>T	uc002adj.2	-	1	584	c.284G>A	c.(283-285)AGG>AAG	p.R95K	NEDD4_uc002adl.2_Intron|NEDD4_uc002adi.2_Missense_Mutation_p.R95K|NEDD4_uc010ugj.1_Missense_Mutation_p.R95K|NEDD4_uc010bfm.2_Missense_Mutation_p.R95K|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	95	Ser-rich.				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		TCCACTGTACCTTGTTGGCTG	0.383													12	247					0	0	0.001855	0	0		T	56208746	T	T	56208746	3	4	163	1	0	0	0	0	1	0	0	0	10329	681	24	4	3775	4	NEDD4	15	56208746	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	3674469	56208746	46322646	223	88973											
MEGF11	84465	broad.mit.edu	37	chr15	66209284	66209284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggcggggccccagaacccGggtgggcaagctgggatgtc	7	4	18	12	2	0	1	0	0	0	1	1	2	0	2	3	6	2	2	3	6	2	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr15:66209284G>A	uc002apm.2	-	17	2238	c.2097C>T	c.(2095-2097)CCC>CCT	p.P699P	MEGF11_uc002apl.2_Silent_p.P624P|MEGF11_uc002apn.1_Silent_p.P699P	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	699						basolateral plasma membrane|integral to membrane				pancreas(1)	1						CCCAGAACCCGGGTGGGCAAG	0.493											OREG0023198	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	2	2					0	0	0.004672	0	0		A	66209284	A	A	66209284	2	1	163	1	0	0	0	0	0	0	0	1	9479	1103	39	1		1	MEGF11	15	66209284	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	10000538	66209284	36322108	224	88974											
ARNT2	9915	broad.mit.edu	37	chr15	80743252	80743252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacatacctggatctgtgacGttgcccgttgcccccatggc	6	10	11	14	2	1	1	0	1	1	0	1	3	1	2	4	2	3	2	4	2	1	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr15:80743252G>A	uc002bfr.2	+	2	229	c.63G>A	c.(61-63)ACG>ACA	p.T21T	ARNT2_uc002bfq.2_Silent_p.T21T|ARNT2_uc010unm.1_Silent_p.T10T|ARNT2_uc002bfs.2_Silent_p.T10T	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	21					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			GATCTGTGACGTTGCCCGTTG	0.552													76	148					0	0	0.01441	0	0		A	80743252	A	A	80743252	2	1	163	1	0	0	0	0	0	0	0	1	967	1132	40	1		1	ARNT2	15	80743252	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	14533968	80743252	21788140	225	88975											
MYH11	4629	broad.mit.edu	37	chr16	15797934	15797934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcattttcaataactctacGtcctccagaccttctagaag	11	13	5	12	1	3	2	1	0	2	2	5	2	5	2	3	0	3	1	3	0	5	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:15797934G>A	uc002ddy.2	-	41	5940	c.5833C>T	c.(5833-5835)CGT>TGT	p.R1945C	MYH11_uc002ddv.2_3'UTR|MYH11_uc002ddw.2_3'UTR|MYH11_uc002ddx.2_Missense_Mutation_p.R1952C|MYH11_uc010bvg.2_3'UTR|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1945	Carboxyl-terminal.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						ATAACTCTACGTCCTCCAGAC	0.443			T	CBFB	AML								68	213					0	0	0.01441	0	0		A	15797934	A	A	15797934	3	1	163	1	0	0	0	0	1	0	0	0	10049	1145	40	1	89	1	MYH11	16	15797934	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		15797934	74556819	226	88976											
SCNN1B	6338	broad.mit.edu	37	chr16	23360100	23360100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcaccctgctcttcgcCgccctcgtctgctggcagtg	2	11	10	18	3	3	0	1	0	2	0	5	0	3	0	3	1	3	4	3	1	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:23360100C>T	uc002dln.2	+	2	356	c.180C>T	c.(178-180)GCC>GCT	p.A60A		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	60	Helical; (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	TGCTCTTCGCCGCCCTCGTCT	0.597													13	32					0	0	0.013537	0	0		T	23360100	T	T	23360100	2	4	163	1	0	0	0	0	0	0	0	1	13953	639	23	1		1	SCNN1B	16	23360100	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	7562166	23360100	66994653	227	88977											
ATP2A1	487	broad.mit.edu	37	chr16	28890083	28890083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccccggaccaagttaagCggaatctggagaaatacggc	13	6	11	11	3	2	1	1	0	1	1	2	4	2	3	3	4	2	1	3	4	5	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:28890083C>T	uc002dro.1	+	1	275	c.91C>T	c.(91-93)CGG>TGG	p.R31W	uc010vct.1_Intron|ATP2A1_uc002drn.1_Missense_Mutation_p.R31W|ATP2A1_uc002drp.1_5'Flank	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	31	Cytoplasmic (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCAAGTTAAGCGGAATCTGGA	0.547													12	33					0	0	0.010729	0	0		T	28890083	T	T	28890083	3	4	163	1	0	0	0	0	1	0	0	0	1137	759	27	1	93	1	ATP2A1	16	28890083	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	5529983	28890083	61464670	228	88978											
CBLN1	869	broad.mit.edu	37	chr16	49313471	49313471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcacgtcctggtcaccagcGaaggctgaaatcaccggcca	10	6	11	14	3	3	1	3	1	0	0	4	2	4	1	4	3	1	1	4	3	2	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:49313471G>A	uc002efq.2	-	3	765	c.426C>T	c.(424-426)TTC>TTT	p.F142F		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	142	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				GGTCACCAGCGAAGGCTGAAA	0.607													14	50					0	0	0.004007	0	0		A	49313471	A	A	49313471	2	1	163	1	0	0	0	0	0	0	0	1	2707	1049	37	1		1	CBLN1	16	49313471	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	20423388	49313471	41041282	229	88979											
CDH8	1006	broad.mit.edu	37	chr16	61851476	61851476	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	catgaacttcaagtaggtaaGtcggtgaagagaagaccgga	15	7	13	6	2	1	4	1	2	0	2	2	6	1	5	1	3	1	2	1	3	6	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:61851476G>T	uc002eog.1	-	7	1436	c.1184C>A	c.(1183-1185)ACT>AAT	p.T395N	CDH8_uc002eoh.2_Missense_Mutation_p.T164N	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	395	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		AAGTAGGTAAGTCGGTGAAGA	0.483													37	71					7.04047e-22	7.73555e-22	0.005524	1	0		T	61851476	T	T	61851476	3	4	163	1	0	0	0	0	1	0	0	0	3119	1029	36	5	1239	5	CDH8	16	61851476	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	12538005	61851476	28503277	230	88980											
CDH11	1009	broad.mit.edu	37	chr16	64981966	64981966	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacaatgagtggttctttcTtttgccttctcagggtcaca	8	15	9	9	0	4	2	2	1	3	1	5	2	4	2	1	2	1	1	1	2	1	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:64981966T>G	uc002eoi.2	-	13	2365	c.1931A>C	c.(1930-1932)AAG>ACG	p.K644T	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_3'UTR|CDH11_uc010vin.1_Missense_Mutation_p.K518T	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	644	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		TGGTTCTTTCTTTTGCCTTCT	0.428			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			59	111					0	0	0.01441	0	0		G	64981966	G	G	64981966	3	3	163	1	0	0	0	0	1	0	0	0	3100	1609	56	5	463	5	CDH11	16	64981966	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	3130490	64981966	25372787	231	88981											
HYDIN	54768	broad.mit.edu	37	chr16	70986528	70986528	+	Silent	SNP	T	G	G	0	1	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	atgacgttttgacccacagcTgcctcctgggctataaggag	9	10	11	11	1	0	2	0	2	0	0	1	3	1	3	3	2	2	3	3	2	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:70986528T>G	uc002ezr.2	-	41	6452	c.6324A>C	c.(6322-6324)GCA>GCC	p.A2108A		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	2109										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GACCCACAGCTGCCTCCTGGG	0.468													11	34					0	0	0.013537	0	0		G	70986528	G	G	70986528	2	3	163	1	0	0	0	0	0	0	0	1	7483	1567	55	5		5	HYDIN	16	70986528	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	6004562	70986528	19368225	232	88982											
NECAB2	54550	broad.mit.edu	37	chr16	84024157	84024157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgcttcctcctgaaggagaCggccaatcagatccagtcgc	9	7	10	15	3	1	3	1	1	0	2	5	4	4	3	5	2	0	1	5	2	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:84024157C>T	uc002fhd.2	+	6	535	c.518C>T	c.(517-519)ACG>ATG	p.T173M	NECAB2_uc002fhe.2_Missense_Mutation_p.T90M	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	173	Potential.				antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						CTGAAGGAGACGGCCAATCAG	0.597													30	63					0	0	0.012213	0	0		T	84024157	T	T	84024157	3	4	163	1	0	0	0	0	1	0	0	0	10324	536	19	1	540	1	NECAB2	16	84024157	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	13037629	84024157	6330596	233	88983											
HSDL1	83693	broad.mit.edu	37	chr16	84163759	84163759	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcccagagcttgtcctcGgacagctgagtgaaatactg	10	10	11	10	1	0	3	0	2	0	1	3	4	2	4	2	1	3	2	2	1	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr16:84163759G>A	uc002fhk.2	-	4	682	c.498C>T	c.(496-498)TCC>TCT	p.S166S	HSDL1_uc010vnv.1_Silent_p.S111S	NM_031463	NP_113651	Q3SXM5	HSDL1_HUMAN	hydroxysteroid dehydrogenase like 1 isoform a	166						mitochondrion	oxidoreductase activity|protein binding				0						GCTTGTCCTCGGACAGCTGAG	0.483													60	185					0	0	0.01441	0	0		A	84163759	A	A	84163759	2	1	163	1	0	0	0	0	0	0	0	1	7409	1103	39	1		1	HSDL1	16	84163759	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	139602	84163759	6190994	234	88984											
OR3A2	4995	broad.mit.edu	37	chr17	3181605	3181605	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgatgaaacccacagcaaAgagcagcagctcattgagtt	15	7	9	10	0	1	4	1	3	0	1	1	4	1	4	1	0	5	5	1	0	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:3181605A>T	uc002fvg.2	-	1	664	c.625T>A	c.(625-627)TTT>ATT	p.F209I		NM_002551	NP_002542	P47893	OR3A2_HUMAN	olfactory receptor, family 3, subfamily A,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						CCCACAGCAAAGAGCAGCAGC	0.542													34	77					0	0	0.003755	0	0		T	3181605	T	T	3181605	3	4	163	1	0	0	0	0	1	0	0	0	11057	72	3	5	344	5	OR3A2	17	3181605	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08		3181605	78013605	235	88985											
TP53	7157	broad.mit.edu	37	chr17	7577127	7577127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaggcacaaacacgcacctCaaagctgttccgtcccagta	13	6	7	15	2	1	0	1	0	0	0	3	0	3	0	3	1	2	5	3	1	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:7577127C>T	uc002gim.2	-	8	1005	c.811G>A	c.(811-813)GAG>AAG	p.E271K	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.E271K|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.E139K|TP53_uc010cng.1_Missense_Mutation_p.E139K|TP53_uc002gii.1_Missense_Mutation_p.E139K|TP53_uc010cnh.1_Missense_Mutation_p.E271K|TP53_uc010cni.1_Missense_Mutation_p.E271K|TP53_uc002gij.2_Missense_Mutation_p.E271K	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	271	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> D (in sporadic cancers; somatic mutation).|E -> G (in sporadic cancers; somatic mutation).|E -> V (in an osteosarcoma with no family history; germline mutation and in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> R (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|E -> A (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> P (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E271K(22)|p.E271*(14)|p.0?(7)|p.E271V(5)|p.E271Q(3)|p.E271G(3)|p.E271D(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.E271E(2)|p.E271fs*73(1)|p.E258fs*71(1)|p.E271_R273delEVR(1)|p.F270fs*72(1)|p.S269fs*21(1)|p.L265_K305del41(1)|p.F270_D281del12(1)|p.E271P(1)|p.E271del(1)|p.S269fs*34(1)|p.E271fs*34(1)|p.E271fs*35(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACACGCACCTCAAAGCTGTTC	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			18	14					0	0	0.00499	0	0		T	7577127	T	T	7577127	3	4	163	1	0	0	0	0	1	0	0	0	16407	835	29	4	475	4	TP53	17	7577127	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	4395522	7577127	73618083	236	88986											
NCOR1	9611	broad.mit.edu	37	chr17	16042436	16042436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttaatgaacttgactcgtCtttgttctgcatcaaacatc	10	16	6	9	1	3	2	1	2	2	0	5	2	3	2	0	0	3	3	0	0	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:16042436C>T	uc002gpo.2	-	12	1478	c.1238G>A	c.(1237-1239)AGA>AAA	p.R413K	NCOR1_uc002gpn.2_Missense_Mutation_p.R413K|NCOR1_uc002gpp.1_Missense_Mutation_p.R304K|NCOR1_uc002gpr.2_Missense_Mutation_p.R304K|NCOR1_uc002gps.1_Missense_Mutation_p.R422K|NCOR1_uc010coz.1_Missense_Mutation_p.R229K|NCOR1_uc010cpb.1_Missense_Mutation_p.R422K|NCOR1_uc010cpa.1_Missense_Mutation_p.R413K	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	413					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CTTGACTCGTCTTTGTTCTGC	0.358													36	67					0	0	0.007835	0	0		T	16042436	T	T	16042436	3	4	163	1	0	0	0	0	1	0	0	0	10254	913	32	4	6224	4	NCOR1	17	16042436	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	8465309	16042436	65152774	237	88987											
ZNF624	57547	broad.mit.edu	37	chr17	16526150	16526150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccttcgttggtgcacggTaagctgtgatgtattagtga	8	14	13	6	2	0	2	0	2	0	0	1	2	0	2	1	2	3	5	1	2	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:16526150T>C	uc010cpi.1	-	6	2133	c.2050A>G	c.(2050-2052)ACC>GCC	p.T684A		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	684	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		TGGTGCACGGTAAGCTGTGAT	0.383													4	315					0	0	0.009096	0	0		C	16526150	C	C	16526150	3	2	163	1	0	0	0	0	1	0	0	0	18073	1638	57	3	551	3	ZNF624	17	16526150	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	483714	16526150	64669060	238	88988											
TOP3A	7156	broad.mit.edu	37	chr17	18208465	18208465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatctcaaacccgatgttttCgccttctctatcacagtcag	10	13	5	13	2	4	0	3	0	2	0	7	1	4	0	2	0	1	1	2	0	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:18208465C>T	uc002gsx.1	-	5	689	c.460G>A	c.(460-462)GAA>AAA	p.E154K	TOP3A_uc002gsw.1_5'UTR|TOP3A_uc010vxs.1_Missense_Mutation_p.E52K|TOP3A_uc010cqa.1_RNA	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	154	Toprim.				DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						CCGATGTTTTCGCCTTCTCTA	0.468													15	69					0	0	0.004007	0	0		T	18208465	T	T	18208465	3	4	163	1	0	0	0	0	1	0	0	0	16393	893	31	1	2605	1	TOP3A	17	18208465	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	1682315	18208465	62986745	239	88989											
NUFIP2	57532	broad.mit.edu	37	chr17	27613685	27613685	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccagaagagatgggtgttaGagtattagcagcagtagtta	13	10	13	5	0	0	3	0	0	0	3	0	4	0	3	1	1	2	6	1	1	6	5	rs140549572	by1000genomes	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:27613685G>C	uc002hdy.3	-	2	1416	c.1327C>G	c.(1327-1329)CTA>GTA	p.L443V	NUFIP2_uc002hdx.3_Intron	NM_020772	NP_065823	Q7Z417	NUFP2_HUMAN	nuclear fragile X mental retardation protein	443						nucleus|polysomal ribosome	protein binding|RNA binding			skin(2)|ovary(1)|breast(1)	4			BRCA - Breast invasive adenocarcinoma(11;0.000457)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			ATGGGTGTTAGAGTATTAGCA	0.438													26	139					0	0	0.007291	0	0		C	27613685	C	C	27613685	3	2	163	1	0	0	0	0	1	0	0	0	10768	933	33	5	772	5	NUFIP2	17	27613685	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	9405220	27613685	53581525	240	88990											
G6PC	2538	broad.mit.edu	37	chr17	41063341	41063341	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgagctggtcttctacgtCttgtccttctgcaagagtgc	5	14	11	11	2	4	1	0	0	4	1	6	2	5	1	1	1	4	2	1	1	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:41063341C>A	uc002icb.1	+	5	1051	c.972C>A	c.(970-972)GTC>GTA	p.V324V	G6PC_uc010whf.1_3'UTR	NM_000151	NP_000142	P35575	G6PC_HUMAN	glucose-6-phosphatase, catalytic subunit	324	Helical; (Potential).				gluconeogenesis|glucose homeostasis|transmembrane transport	integral to endoplasmic reticulum membrane	glucose-6-phosphatase activity|phosphate binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.113)		TCTTCTACGTCTTGTCCTTCT	0.592									Glycogen_Storage_Disease_type_Ia				74	157					5.21738e-30	5.80644e-30	0.01441	1	0		A	41063341	A	A	41063341	2	1	163	1	0	0	0	0	0	0	0	1	6157	900	32	5		5	G6PC	17	41063341	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	13449656	41063341	40131869	241	88991											
CACNG5	27091	broad.mit.edu	37	chr17	64880742	64880742	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactacaagtatgggtggtcGtttgccttcgccgccatctc	7	12	10	12	3	1	0	0	0	1	0	4	0	1	0	3	2	3	2	3	2	4	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:64880742G>A	uc010wqi.1	+	5	771	c.534G>A	c.(532-534)TCG>TCA	p.S178S	CACNG5_uc002jfr.2_Silent_p.S178S|CACNG5_uc010wqj.1_Silent_p.S178S	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	178	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			ATGGGTGGTCGTTTGCCTTCG	0.562													50	117					0	0	0.01441	0	0		A	64880742	A	A	64880742	2	1	163	1	0	0	0	0	0	0	0	1	2563	1132	40	1		1	CACNG5	17	64880742	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	23817401	64880742	16314468	242	88992											
BAIAP2	10458	broad.mit.edu	37	chr17	79077493	79077493	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggggccaagcccctgccGgtgccccccgagctggcacc	4	3	14	20	3	0	0	0	0	0	0	0	1	0	0	9	4	4	2	9	4	1	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:79077493G>T	uc002jzg.2	+	8	942	c.834G>T	c.(832-834)CCG>CCT	p.P278P	BAIAP2_uc002jyz.3_Silent_p.P278P|BAIAP2_uc002jza.2_Silent_p.P278P|BAIAP2_uc002jzc.2_Silent_p.P278P|BAIAP2_uc002jzb.2_Silent_p.P35P|BAIAP2_uc002jzd.2_Silent_p.P278P|BAIAP2_uc002jzf.2_Silent_p.P278P|BAIAP2_uc002jze.2_Silent_p.P311P|BAIAP2_uc010wuh.1_Silent_p.P200P|BAIAP2_uc002jzh.2_Silent_p.P279P|BAIAP2_uc010wui.1_Silent_p.P141P	NM_017451	NP_059345	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 2	278					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			AGCCCCTGCCGGTGCCCCCCG	0.697													7	18					7.48243e-07	7.94289e-07	0.006214	1	0		T	79077493	T	T	79077493	2	4	163	1	0	0	0	0	0	0	0	1	1302	1103	39	5		5	BAIAP2	17	79077493	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	14196751	79077493	2117717	243	88993											
PCYT2	5833	broad.mit.edu	37	chr17	79864773	79864773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aggggttccgcccaccagggCactgcaagccaagagaggga	11	3	15	12	1	0	1	0	0	0	1	1	3	1	2	4	4	2	3	4	4	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr17:79864773C>T	uc002kcf.1	-	7	602	c.539G>A	c.(538-540)TGC>TAC	p.C180Y	PCYT2_uc010wva.1_Missense_Mutation_p.C148Y|PCYT2_uc010wvb.1_Missense_Mutation_p.C148Y|PCYT2_uc002kce.1_Missense_Mutation_p.C102Y|PCYT2_uc002kcg.1_Missense_Mutation_p.C209Y|PCYT2_uc002kch.1_Missense_Mutation_p.C198Y|PCYT2_uc002kci.1_Missense_Mutation_p.C139Y|PCYT2_uc010dii.1_Missense_Mutation_p.C180Y|PCYT2_uc010wvc.1_Missense_Mutation_p.C102Y	NM_002861	NP_002852	Q99447	PCY2_HUMAN	phosphate cytidylyltransferase 2, ethanolamine	180	Catalytic 1 (Potential).				phospholipid biosynthetic process		ethanolamine-phosphate cytidylyltransferase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCCACCAGGGCACTGCAAGCC	0.632													10	54					0	0	0.008291	0	0		T	79864773	T	T	79864773	3	4	163	1	0	0	0	0	1	0	0	0	11631	724	25	2	658	2	PCYT2	17	79864773	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	787280	79864773	1330437	244	88994											
RIT2	6014	broad.mit.edu	37	chr18	40323674	40323674	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcaagactcaagccttcTtctgtagaaacctaaggaaa	14	9	9	9	0	3	2	1	0	2	2	3	3	3	3	2	2	2	2	2	2	6	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr18:40323674T>G	uc002lav.2	-	5	611	c.438A>C	c.(436-438)GAA>GAC	p.E146D	RIT2_uc010dnf.2_3'UTR	NM_002930	NP_002921	Q99578	RIT2_HUMAN	Ras-like without CAAX 2	146					nerve growth factor receptor signaling pathway|small GTPase mediated signal transduction|synaptic transmission	intracellular|plasma membrane	calmodulin binding|GTP binding|GTPase activity			ovary(1)	1						TCAAGCCTTCTTCTGTAGAAA	0.348													42	38					0	0	0.006999	0	0		G	40323674	G	G	40323674	3	3	163	1	0	0	0	0	1	0	0	0	13412	1606	56	5	219	5	RIT2	18	40323674	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08		40323674	37753574	245	88995											
OR2Z1	284383	broad.mit.edu	37	chr19	8841983	8841983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tacctgtgcctacgagatggCgctgtccacctcaggggtgc	6	9	13	13	2	1	1	1	0	0	1	2	2	2	1	4	3	4	1	4	3	2	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:8841983C>T	uc010xkg.1	+	1	593	c.593C>T	c.(592-594)GCG>GTG	p.A198V		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						TACGAGATGGCGCTGTCCACC	0.562											OREG0007662	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=OR2Z1|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	59	76					0	0	0.01441	0	0		T	8841983	T	T	8841983	3	4	163	1	0	0	0	0	1	0	0	0	11055	768	27	1	595	1	OR2Z1	19	8841983	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08		8841983	50287000	246	88996											
FBXL12	54850	broad.mit.edu	37	chr19	9922149	9922149	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggagccaggccatggagatcTcgcagctgtgcagctccagg	8	6	15	12	1	1	1	0	0	1	1	3	3	2	2	3	4	4	4	3	4	0	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:9922149T>C	uc002mme.2	-	3	646	c.404A>G	c.(403-405)GAG>GGG	p.E135G	FBXL12_uc002mmd.2_Missense_Mutation_p.E82G|FBXL12_uc002mmf.2_Missense_Mutation_p.E82G|FBXL12_uc002mmg.2_Missense_Mutation_p.E82G|FBXL12_uc002mmh.2_Missense_Mutation_p.E82G	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	135							protein binding			lung(1)|kidney(1)	2						CATGGAGATCTCGCAGCTGTG	0.662													33	101					0	0	0.003271	0	0		C	9922149	C	C	9922149	3	2	163	1	0	0	0	0	1	0	0	0	5722	1551	54	3	580	3	FBXL12	19	9922149	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	1080166	9922149	49206834	247	88997											
SLC1A6	6511	broad.mit.edu	37	chr19	15063786	15063786	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtgatgtcttccgtgggcaAgccgaccgacgtaagcacaa	10	7	12	12	5	1	1	0	1	1	0	2	3	2	1	3	1	2	3	3	1	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:15063786A>T	uc002naa.1	-	8	1461	c.1453T>A	c.(1453-1455)TTG>ATG	p.L485M	SLC1A6_uc010dzu.1_Missense_Mutation_p.L407M|SLC1A6_uc010xod.1_Missense_Mutation_p.L421M	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	485	Helical; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	TCCGTGGGCAAGCCGACCGAC	0.577													9	185					0	0	0.004482	0	0		T	15063786	T	T	15063786	3	4	163	1	0	0	0	0	1	0	0	0	14461	69	3	5	249	5	SLC1A6	19	15063786	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	5141637	15063786	44065197	248	88998											
NOTCH3	4854	broad.mit.edu	37	chr19	15289981	15289981	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtatcctgggggacaggtGcagcggaaaccacccaccag	10	5	14	12	1	0	0	0	0	0	0	1	2	1	2	4	4	3	2	4	4	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:15289981G>A	uc002nan.2	-	22	3649	c.3573C>T	c.(3571-3573)TGC>TGT	p.C1191C	NOTCH3_uc002nao.1_Silent_p.C1139C	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1191	Extracellular (Potential).|EGF-like 30; calcium-binding (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			GGGGACAGGTGCAGCGGAAAC	0.642													9	55					0	0	0.008291	0	0		A	15289981	A	A	15289981	2	1	163	1	0	0	0	0	0	0	0	1	10569	1311	46	2		2	NOTCH3	19	15289981	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	226195	15289981	43839002	249	88999											
SF4	57794	broad.mit.edu	37	chr19	19413155	19413155	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgctatgaacctggccaacTtttctgcaaggttcttgacc	8	12	8	13	1	2	2	0	2	2	0	2	2	2	2	4	2	3	3	4	2	4	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:19413155T>C	uc002nmh.2	-	7	808	c.806A>G	c.(805-807)AAG>AGG	p.K269R	SF4_uc002nmf.2_5'UTR|SF4_uc002nmg.2_5'UTR|SF4_uc002nmi.2_Missense_Mutation_p.K59R|SF4_uc002nmj.2_Missense_Mutation_p.K59R|SF4_uc010xqr.1_RNA|SF4_uc010xqs.1_RNA	NM_172231	NP_757386	Q8IWZ8	SUGP1_HUMAN	splicing factor 4	269	SURP motif 2.				nuclear mRNA splicing, via spliceosome	nucleoplasm|spliceosomal complex	RNA binding				0						CCTGGCCAACTTTTCTGCAAG	0.557													351	149					0	0	0.01441	0	0		C	19413155	C	C	19413155	3	2	163	1	0	0	0	0	1	0	0	0	14180	1609	56	3	1163	3	SF4	19	19413155	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	4123174	19413155	39715828	250	89000											
ZNF493	284443	broad.mit.edu	37	chr19	21606405	21606405	+	Missense_Mutation	SNP	A	G	G	1	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	tactggacataagataattcAtaatggagaaaaaccctata	19	10	6	6	0	1	2	1	0	0	2	1	4	1	3	1	2	2	0	1	2	8	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:21606405A>G	uc002npx.2	+	2	840	c.560A>G	c.(559-561)CAT>CGT	p.H187R	ZNF493_uc002npw.2_Missense_Mutation_p.H315R|ZNF493_uc002npy.2_Missense_Mutation_p.H187R	NM_175910	NP_787106	Q6ZR52	ZN493_HUMAN	zinc finger protein 493 isoform 1	187	C2H2-type 6; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AAGATAATTCATAATGGAGAA	0.333													262	99					0	0	0.01441	0	0		G	21606405	G	G	21606405	3	3	163	1	0	0	0	0	1	0	0	0	17969	217	8	3	1021	3	ZNF493	19	21606405	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	2193250	21606405	37522578	251	89001											
ZNF43	7594	broad.mit.edu	37	chr19	21992435	21992435	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtagctggcaaacattggTtaaatccattataacctcct	12	12	8	9	0	0	0	0	0	0	0	2	0	2	0	3	3	3	4	3	3	6	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:21992435T>C	uc002nqj.2	-	4	534	c.404A>G	c.(403-405)AAC>AGC	p.N135S	ZNF43_uc010ecv.2_Missense_Mutation_p.N129S|ZNF43_uc002nql.2_Missense_Mutation_p.N129S|ZNF43_uc002nqm.2_Missense_Mutation_p.N129S|ZNF43_uc002nqk.2_Missense_Mutation_p.N65S	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		CAAACATTGGTTAAATCCATT	0.308													63	166					0	0	0.01441	0	0		C	21992435	C	C	21992435	3	2	163	1	0	0	0	0	1	0	0	0	17928	1725	60	3	2029	3	ZNF43	19	21992435	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	386030	21992435	37136548	252	89002											
ZNF257	113835	broad.mit.edu	37	chr19	22270892	22270892	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacatgagaatttacaattaAgaaagggctgtaaaagtgtg	18	10	10	3	0	0	2	0	1	0	2	0	3	0	2	0	1	2	2	0	1	8	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:22270892A>C	uc010ecx.2	+	4	509	c.340A>C	c.(340-342)AGA>CGA	p.R114R	ZNF257_uc010ecy.2_Silent_p.R82R	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTACAATTAAGAAAGGGCTG	0.358													6	121					0	0	0.001168	0	0		C	22270892	C	C	22270892	2	2	163	1	0	0	0	0	0	0	0	1	17825	64	3	5		5	ZNF257	19	22270892	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	278457	22270892	36858091	253	89003											
ZNF681	148213	broad.mit.edu	37	chr19	23927705	23927705	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctccaatatgaattcttttaTgtttagtaaagattgaggat	13	17	7	4	0	1	3	0	2	1	1	2	4	2	4	1	1	0	2	1	1	7	8			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:23927705T>G	uc002nrk.3	-	4	789	c.647A>C	c.(646-648)CAT>CCT	p.H216P	ZNF681_uc002nrl.3_Missense_Mutation_p.H147P|ZNF681_uc002nrj.3_Missense_Mutation_p.H147P	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	216	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				AATTCTTTTATGTTTAGTAAA	0.308													24	40					0	0	0.00278	0	0		G	23927705	G	G	23927705	3	3	163	1	0	0	0	0	1	0	0	0	18113	1464	51	5	1294	5	ZNF681	19	23927705	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	1656813	23927705	35201278	254	89004											
ZNF536	9745	broad.mit.edu	37	chr19	31040340	31040340	+	Missense_Mutation	SNP	A	G	G	1	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	tgtcggtcctcagggcctacAgttctgatggcttagcagcc	6	11	12	12	1	2	1	1	1	1	0	4	1	3	1	3	3	3	3	3	3	2	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:31040340A>G	uc002nsu.1	+	4	3952	c.3814A>G	c.(3814-3816)AGT>GGT	p.S1272G	ZNF536_uc010edd.1_Missense_Mutation_p.S1272G	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CAGGGCCTACAGTTCTGATGG	0.557													24	64					0	0	0.00333	0	0		G	31040340	G	G	31040340	3	3	163	1	0	0	0	0	1	0	0	0	17999	188	7	3	3824	3	ZNF536	19	31040340	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	7112635	31040340	28088643	255	89005											
ZNF569	148266	broad.mit.edu	37	chr19	37904498	37904499	+	Missense_Mutation	DNP	AT	TA	TA																															ttaccacatttatcacatttAtaaggtttttctcctgtatg																										TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:37904498_37904499AT>TA	uc002ogi.2	-	6	1619_1620	c.1061_1062AT>TA	c.(1060-1062)TAT>TTA	p.Y354L	ZNF569_uc002ogh.2_Missense_Mutation_p.Y195L|ZNF569_uc002ogj.2_Missense_Mutation_p.Y378L	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	354	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TATCACATTTATAAGGTTTTTC	0.371													85	201					0	0	0.004672	0	0		TA	37904499	TA	TA	37904498	3	4	163	1	0	0	0	0	1	0	0	0	18025	456	16	5	1002	5	ZNF569	19	37904498	Missense_Mutation	DNP	AT	TCGA-D7-5578-01A-01D-1600-08	6864158	37904498	21224485	256	89006											
RYR1	6261	broad.mit.edu	37	chr19	38945944	38945944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccactgctgcccactttgctGagtttgcaggggaggaggca	7	9	14	11	0	0	1	0	1	0	0	0	3	0	3	2	4	4	5	2	4	0	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:38945944G>A	uc002oit.2	+	14	1640	c.1510G>A	c.(1510-1512)GAG>AAG	p.E504K	RYR1_uc002oiu.2_Missense_Mutation_p.E504K	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	504	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CCACTTTGCTGAGTTTGCAGG	0.512													65	140					0	0	0.01441	0	0		A	38945944	A	A	38945944	3	1	163	1	0	0	0	0	1	0	0	0	13793	1291	45	4	1564	4	RYR1	19	38945944	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	1041446	38945944	20183039	257	89007											
ZNF418	147686	broad.mit.edu	37	chr19	58437814	58437814	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaactctcctgtgttcaaGgagactggagaagaatttcc	11	11	11	8	0	2	4	1	1	1	3	4	6	3	4	2	2	1	1	2	2	4	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:58437814G>T	uc002qqs.1	-	4	2027	c.1735C>A	c.(1735-1737)CTT>ATT	p.L579I	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.L494I	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	579					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		CTGTGTTCAAGGAGACTGGAG	0.438													4	147					2.56e-06	2.7092e-06	0.009096	1	0		T	58437814	T	T	58437814	3	4	163	1	0	0	0	0	1	0	0	0	17920	1000	35	5	299	5	ZNF418	19	58437814	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	19491870	58437814	691169	258	89008											
ZNF329	79673	broad.mit.edu	37	chr19	58640356	58640356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttaccttcatacgatttcTtgcctcttttcattattttc	6	22	2	11	1	5	0	2	0	3	0	6	1	5	0	2	0	3	0	2	0	3	10			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr19:58640356T>G	uc002qrn.2	-	4	752	c.515A>C	c.(514-516)AAG>ACG	p.K172T	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		ATACGATTTCTTGCCTCTTTT	0.358													86	153					0	0	0.01441	0	0		G	58640356	G	G	58640356	3	3	163	1	0	0	0	0	1	0	0	0	17872	1609	56	5	1114	5	ZNF329	19	58640356	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	202542	58640356	488627	259	89009											
FLRT3	23767	broad.mit.edu	37	chr20	14307206	14307206	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgattgtaaccagtcacgtAcccatttcatcttgcacccg	9	12	7	13	2	3	1	2	1	1	0	3	1	3	1	3	0	3	3	3	0	2	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr20:14307206A>G	uc002wov.1	-	3	1414	c.947T>C	c.(946-948)GTA>GCA	p.V316A	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Missense_Mutation_p.V316A	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	316	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		CCAGTCACGTACCCATTTCAT	0.448													4	270					0	0	0.000602	0	0		G	14307206	G	G	14307206	3	3	163	1	0	0	0	0	1	0	0	0	5954	391	14	3	1006	3	FLRT3	20	14307206	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08		14307206	48718314	260	89010											
NINL	22981	broad.mit.edu	37	chr20	25484648	25484648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagactctagaagtagcgcGggctcatgactgaagaggcc	12	6	14	9	2	2	5	1	2	1	3	2	6	2	5	1	2	1	2	1	2	5	2	rs146594321		TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr20:25484648G>A	uc002wux.1	-	7	875	c.801C>T	c.(799-801)CCC>CCT	p.P267P	NINL_uc010gdn.1_Silent_p.P267P|NINL_uc010gdo.1_Silent_p.P107P|NINL_uc010ztf.1_Silent_p.P283P	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	267	EF-hand 4.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GAAGTAGCGCGGGCTCATGAC	0.478													102	263					0	0	0.01441	0	0		A	25484648	A	A	25484648	2	1	163	1	0	0	0	0	0	0	0	1	10439	1103	39	1		1	NINL	20	25484648	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	11177442	25484648	37540872	261	89011											
MYH7B	57644	broad.mit.edu	37	chr20	33578612	33578612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccgctgcattgtccccaaCgagaacaaaaccccaggtag	12	6	9	14	2	0	1	0	0	0	1	2	2	2	1	5	1	4	3	5	1	5	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr20:33578612C>T	uc002xbi.1	+	21	2267	c.2175C>T	c.(2173-2175)AAC>AAT	p.N725N		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	683	Myosin head-like.|Actin-binding (By similarity).					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			TTGTCCCCAACGAGAACAAAA	0.622													18	70					0	0	0.008871	0	0		T	33578612	T	T	33578612	2	4	163	1	0	0	0	0	0	0	0	1	10058	535	19	1		1	MYH7B	20	33578612	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	8093964	33578612	29446908	262	89012											
PHF20	51230	broad.mit.edu	37	chr20	34459741	34459741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggaattacaagagatttcGactgtggaaggttcatattt	12	14	11	4	1	1	1	1	0	0	1	2	5	1	3	0	3	1	1	0	3	5	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr20:34459741G>A	uc002xek.1	+	9	1383	c.1272G>A	c.(1270-1272)TCG>TCA	p.S424S	PHF20_uc002xei.1_Silent_p.S424S|PHF20_uc010gfo.1_Silent_p.S424S|PHF20_uc002xej.1_Silent_p.S308S	NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	424					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					AAGAGATTTCGACTGTGGAAG	0.378													6	222					0	0	0.001168	0	0		A	34459741	A	A	34459741	2	1	163	1	0	0	0	0	0	0	0	1	11850	1045	37	1		1	PHF20	20	34459741	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	881129	34459741	28565779	263	89013											
SDC4	6385	broad.mit.edu	37	chr20	43955966	43955966	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttcttgcccaggtcatagcTgccttcatccttcttcttca	5	17	5	14	0	6	0	3	0	3	0	7	0	7	0	3	1	3	1	3	1	1	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr20:43955966T>C	uc002xnu.2	-	5	575	c.535A>G	c.(535-537)AGC>GGC	p.S179G	SDC4_uc010zws.1_Missense_Mutation_p.S107G	NM_002999	NP_002990	P31431	SDC4_HUMAN	syndecan 4 precursor	179	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	cytoskeletal protein binding|thrombospondin receptor activity				0		Myeloproliferative disorder(115;0.0122)				AGGTCATAGCTGCCTTCATCC	0.532													29	86					0	0	0.010818	0	0		C	43955966	C	C	43955966	3	2	163	1	0	0	0	0	1	0	0	0	13979	1580	55	3	65	3	SDC4	20	43955966	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	9496225	43955966	19069554	264	89014											
ZNF831	128611	broad.mit.edu	37	chr20	57767362	57767362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggacaacgtgcggcccCggaagaccgggctgtccaaa	10	4	14	13	4	0	1	0	0	0	1	1	3	1	3	4	4	3	2	4	4	3	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr20:57767362C>T	uc002yan.2	+	1	1288	c.1288C>T	c.(1288-1290)CGG>TGG	p.R430W		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	430						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CGTGCGGCCCCGGAAGACCGG	0.657													12	27					0	0	0.013537	0	0		T	57767362	T	T	57767362	3	4	163	1	0	0	0	0	1	0	0	0	18210	643	23	1	1290	1	ZNF831	20	57767362	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	13811396	57767362	5258158	265	89015											
MYT1	4661	broad.mit.edu	37	chr20	62837128	62837128	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagacgtcaggacaggacgaGattcatcgccccgagacagc	12	4	13	12	4	2	3	2	0	0	3	3	8	2	5	2	2	1	0	2	2	0	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr20:62837128G>C	uc002yii.2	+	6	736	c.372G>C	c.(370-372)GAG>GAC	p.E124D	MYT1_uc002yih.2_Missense_Mutation_p.E124D|MYT1_uc002yij.2_5'Flank	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	124					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GACAGGACGAGATTCATCGCC	0.592													27	75					0	0	0.00632	0	0		C	62837128	C	C	62837128	3	2	163	1	0	0	0	0	1	0	0	0	10124	933	33	5	386	5	MYT1	20	62837128	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	5069766	62837128	188392	266	89016											
ADAMTS1	9510	broad.mit.edu	37	chr21	28211920	28211920	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactaccttgggctgcaaaaCgaagaagtagccaatgcctt	14	8	9	10	1	0	1	0	0	0	1	0	2	0	1	3	1	6	3	3	1	8	4	rs147119544	byFrequency	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr21:28211920C>G	uc002ymf.2	-	7	2469	c.2014G>C	c.(2014-2016)GTT>CTT	p.V672L		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	672	Cys-rich.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		GGCTGCAAAACGAAGAAGTAG	0.458													18	210					0	0	0.008871	0	0		G	28211920	G	G	28211920	3	3	163	1	0	0	0	0	1	0	0	0	255	536	19	5	901	5	ADAMTS1	21	28211920	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08		28211920	19917975	267	89017											
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709567	31709567	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagaagtcttgggtgggcaActgtttcccttgaggcttgc	6	14	13	8	0	1	2	0	1	1	1	2	2	2	2	1	3	2	3	1	3	3	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr21:31709567A>G	uc002ynx.1	-	1	446	c.420T>C	c.(418-420)AGT>AGC	p.S140S		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	140						intermediate filament				ovary(2)	2						TGGGTGGGCAACTGTTTCCCT	0.493													89	291					0	0	0.01441	0	0		G	31709567	G	G	31709567	2	3	163	1	0	0	0	0	0	0	0	1	8560	40	2	3		3	KRTAP27-1	21	31709567	Silent	SNP	A	TCGA-D7-5578-01A-01D-1600-08	3497647	31709567	16420328	268	89018											
ITGB2	3689	broad.mit.edu	37	chr21	46326905	46326905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtcttcctgggtttcagCgaggcttgtggggtccatga	4	13	16	8	1	2	1	1	1	1	0	4	2	4	1	2	5	1	2	2	5	0	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr21:46326905C>T	uc002zgd.2	-	3	297	c.253G>A	c.(253-255)GCT>ACT	p.A85T	ITGB2_uc002zge.2_Missense_Mutation_p.A85T|ITGB2_uc002zgf.3_Missense_Mutation_p.A85T|ITGB2_uc011afl.1_Missense_Mutation_p.A7T|ITGB2_uc010gpw.2_Missense_Mutation_p.A85T|ITGB2_uc002zgg.2_Missense_Mutation_p.A85T	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	85	Extracellular (Potential).				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	TGGGTTTCAGCGAGGCTTGTG	0.627													26	74					0	0	0.00632	0	0		T	46326905	T	T	46326905	3	4	163	1	0	0	0	0	1	0	0	0	7910	768	27	1	2108	1	ITGB2	21	46326905	Missense_Mutation	SNP	C	TCGA-D7-5578-01A-01D-1600-08	14617338	46326905	1802990	269	89019											
ADARB1	104	broad.mit.edu	37	chr21	46603400	46603400	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtggagatgccagaatcttCtcaccacatgagccaatcct	11	10	8	12	0	2	3	1	1	2	2	4	4	3	3	4	1	2	0	4	1	2	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr21:46603400C>T	uc002zgy.2	+	7	1806	c.1371C>T	c.(1369-1371)TTC>TTT	p.F457F	ADARB1_uc002zgr.2_Silent_p.F457F|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Silent_p.F457F|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Silent_p.F457F|ADARB1_uc010gpx.2_RNA|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	457	A to I editase.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		CCAGAATCTTCTCACCACATG	0.433													27	47					0	0	0.004656	0	0		T	46603400	T	T	46603400	2	4	163	1	0	0	0	0	0	0	0	1	282	912	32	4		4	ADARB1	21	46603400	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	276495	46603400	1526495	270	89020											
COL6A2	1292	broad.mit.edu	37	chr21	47532203	47532203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcgctggccaacatgacGgagcagatccggcaggaccg	9	4	15	13	5	0	2	0	1	0	1	1	4	1	4	3	4	3	3	3	4	1	0	rs149480738	byFrequency	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr21:47532203G>A	uc002zia.1	+	3	508	c.426G>A	c.(424-426)ACG>ACA	p.T142T	COL6A2_uc002zhy.1_Silent_p.T142T|COL6A2_uc002zhz.1_Silent_p.T142T|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	142	VWFA 1.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CCAACATGACGGAGCAGATCC	0.692													10	19					0	0	0.008291	0	0		A	47532203	A	A	47532203	2	1	163	1	0	0	0	0	0	0	0	1	3703	1103	39	1		1	COL6A2	21	47532203	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	928803	47532203	597692	271	89021											
LZTR1	8216	broad.mit.edu	37	chr22	21347143	21347143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggacgccatgtacatcttcGggggcacggtggacaacaac	10	6	13	12	4	1	0	0	0	1	0	2	2	1	2	1	5	3	2	1	5	3	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr22:21347143G>A	uc002zto.2	+	11	1313	c.1210G>A	c.(1210-1212)GGG>AGG	p.G404R	LZTR1_uc002ztn.2_Missense_Mutation_p.G363R|LZTR1_uc011ahy.1_Missense_Mutation_p.G385R|LZTR1_uc010gsr.1_Missense_Mutation_p.G275R	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	404	Kelch 6.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-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;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GTACATCTTCGGGGGCACGGT	0.652													7	7					0	0	0.001984	0	0		A	21347143	A	A	21347143	3	1	163	1	0	0	0	0	1	0	0	0	9155	1116	39	1	1252	1	LZTR1	22	21347143	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08		21347143	29957423	272	89022											
MGAT3	4248	broad.mit.edu	37	chr22	39883517	39883517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttctggaacaatgccccGgtcacgccccaggccagccc	7	8	9	17	2	2	0	1	0	1	0	2	1	2	1	6	3	3	0	6	3	2	2	rs143400156	byFrequency	TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr22:39883517G>A	uc003axv.3	+	2	404	c.165G>A	c.(163-165)CCG>CCA	p.P55P	MGAT3_uc010gxy.2_Silent_p.P55P	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	55	Lumenal (Potential).|Pro-rich.				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					ACAATGCCCCGGTCACGCCCC	0.647													67	82					0	0	0.01441	0	0		A	39883517	A	A	39883517	2	1	163	1	0	0	0	0	0	0	0	1	9562	1103	39	1		1	MGAT3	22	39883517	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08	18536374	39883517	11421049	273	89023											
CACNA1I	8911	broad.mit.edu	37	chr22	40036887	40036887	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagacaaggggatgtggcCttgcccccatactaccagcc	10	6	11	14	0	0	1	0	0	0	1	0	3	0	2	5	3	4	0	5	3	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chr22:40036887C>T	uc003ayc.2	+	6	756	c.756C>T	c.(754-756)GCC>GCT	p.A252A	CACNA1I_uc003ayd.2_Silent_p.A252A|CACNA1I_uc003aye.2_Silent_p.A167A|CACNA1I_uc003ayf.2_Silent_p.A167A	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	252	I.|Extracellular (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GGGATGTGGCCTTGCCCCCAT	0.597													9	14					0	0	0.008291	0	0		T	40036887	T	T	40036887	2	4	163	1	0	0	0	0	0	0	0	1	2549	668	24	4		4	CACNA1I	22	40036887	Silent	SNP	C	TCGA-D7-5578-01A-01D-1600-08	153370	40036887	11267679	274	89024											
PDHA1	5160	broad.mit.edu	37	chrX	19372671	19372671	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaaaagatgaggtctgcctGactttatatggcgatggtgc	10	11	14	6	1	1	3	0	2	1	1	1	5	1	4	1	4	2	0	1	4	4	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:19372671G>C	uc004czg.3	+	6	718	c.573G>C	c.(571-573)CTG>CTC	p.L191L	PDHA1_uc004czh.3_Silent_p.L226L|PDHA1_uc011mjc.1_Silent_p.L195L|PDHA1_uc011mjd.1_Intron|PDHA1_uc010nfk.2_Silent_p.L188L|PDHA1_uc010nfl.2_5'Flank	NM_000284	NP_000275	P08559	ODPA_HUMAN	pyruvate dehydrogenase E1 alpha 1 precursor	191					glycolysis|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	protein binding|pyruvate dehydrogenase (acetyl-transferring) activity			ovary(1)	1	Hepatocellular(33;0.183)				NADH(DB00157)	AGGTCTGCCTGACTTTATATG	0.403													72	46					0	0	0.01441	0	0		C	19372671	C	C	19372671	2	2	163	1	0	0	0	0	0	0	0	1	11683	1277	45	5		5	PDHA1	23	19372671	Silent	SNP	G	TCGA-D7-5578-01A-01D-1600-08		19372671	135897889	275	89025											
FAM123B	139285	broad.mit.edu	37	chrX	63409832	63409832	+	Missense_Mutation	SNP	T	G	G	0	1	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	aggcaccttgctcagccctcTcctttgacaggtcaaggctg	7	10	10	14	0	3	1	2	1	1	0	4	1	3	1	3	3	2	3	3	3	1	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:63409832T>G	uc004dvo.2	-	2	3608	c.3335A>C	c.(3334-3336)GAG>GCG	p.E1112A		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	1112					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						CTCAGCCCTCTCCTTTGACAG	0.572													10	9					0	0	0.010729	0	0		G	63409832	G	G	63409832	3	3	163	1	0	0	0	0	1	0	0	0	5434	1551	54	5	76	5	FAM123B	23	63409832	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	44037161	63409832	91860728	276	89026											
AR	367	broad.mit.edu	37	chrX	66941796	66941796	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgaaagcactgctactcTtcagcattagtaagtgccta	12	11	8	10	0	2	1	1	1	1	0	2	1	2	1	1	0	5	5	1	0	5	5			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:66941796T>G	uc004dwu.1	+	6	3555	c.2440T>G	c.(2440-2442)TTC>GTC	p.F814V	AR_uc004dwv.1_Missense_Mutation_p.F282V	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	813	Ligand-binding.|Interaction with MYST2.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	ACTGCTACTCTTCAGCATTAG	0.488									Androgen_Insensitivity_Syndrome				8	32					0	0	0.00308	0	0		G	66941796	G	G	66941796	3	3	163	1	0	0	0	0	1	0	0	0	836	1609	56	5	2486	5	AR	23	66941796	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	3531964	66941796	88328764	277	89027											
HDAC8	55869	broad.mit.edu	37	chrX	71549911	71549911	+	Missense_Mutation	SNP	A	G	G	1	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	ctctttctgtcaactagaccAcatgcttcagattccctgca	9	13	5	14	0	4	2	2	0	2	2	5	2	5	2	2	0	3	2	2	0	2	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:71549911A>G	uc004eau.2	-	11	1169	c.1127T>C	c.(1126-1128)GTG>GCG	p.V376A	HDAC8_uc011mqe.1_Missense_Mutation_p.V233A|HDAC8_uc011mqf.1_Missense_Mutation_p.V181A|HDAC8_uc011mqg.1_Missense_Mutation_p.V285A	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8	376					chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	CAACTAGACCACATGCTTCAG	0.348													5	78					0	0	0.001168	0	0		G	71549911	G	G	71549911	3	3	163	1	0	0	0	0	1	0	0	0	7029	159	6	3	10	3	HDAC8	23	71549911	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	4608115	71549911	83720649	278	89028											
ATRX	546	broad.mit.edu	37	chrX	76944359	76944359	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctataaatggaatctttTtgaaaatgattgacctgttg	12	17	8	4	0	2	3	0	3	2	0	2	4	2	4	1	1	0	1	1	1	6	6			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:76944359T>C	uc004ecp.3	-	7	778	c.546A>G	c.(544-546)CAA>CAG	p.Q182Q	ATRX_uc004ecq.3_Silent_p.Q144Q|ATRX_uc004eco.3_5'UTR|ATRX_uc004ecr.2_Silent_p.Q143Q|ATRX_uc010nlx.1_Silent_p.Q182Q|ATRX_uc010nly.1_Silent_p.Q127Q	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	182	ADD.|GATA-type; atypical.		Missing (in ATRX).		DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TGGAATCTTTTTGAAAATGAT	0.313			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						94	56					0	0	0.01441	0	0		C	76944359	C	C	76944359	2	2	163	1	0	0	0	0	0	0	0	1	1209	1838	64	3		3	ATRX	23	76944359	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	5394448	76944359	78326201	279	89029											
CYLC1	1538	broad.mit.edu	37	chrX	83124879	83124879	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcttttaataggctaaaAgtaaacatcagaacatatga	17	13	5	6	0	3	2	1	1	2	1	3	2	3	2	0	1	2	2	0	1	8	7			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:83124879A>C	uc004eei.1	+	2	45	c.24A>C	c.(22-24)AAA>AAC	p.K8N	CYLC1_uc004eeh.1_Missense_Mutation_p.K7N	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	8					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						ATAGGCTAAAAGTAAACATCA	0.214													5	3					0	0	0.000602	0	0		C	83124879	C	C	83124879	3	2	163	1	0	0	0	0	1	0	0	0	4144	69	3	5	30	5	CYLC1	23	83124879	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	6180520	83124879	72145681	280	89030											
CYLC1	1538	broad.mit.edu	37	chrX	83129288	83129288	+	Silent	SNP	T	C	C	0	1	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	gagtctactgatgctgaattTgatgaatcttccaagacagg	12	12	10	7	0	2	5	0	4	2	1	3	6	3	5	1	1	2	1	1	1	4	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:83129288T>C	uc004eei.1	+	4	1593	c.1572T>C	c.(1570-1572)TTT>TTC	p.F524F	CYLC1_uc004eeh.1_Silent_p.F523F	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	524	7.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						ATGCTGAATTTGATGAATCTT	0.353													36	23					0	0	0.003755	0	0		C	83129288	C	C	83129288	2	2	163	1	0	0	0	0	0	0	0	1	4144	1809	63	3		3	CYLC1	23	83129288	Silent	SNP	T	TCGA-D7-5578-01A-01D-1600-08	4409	83129288	72141272	281	89031											
DACH2	117154	broad.mit.edu	37	chrX	85950165	85950165	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaatccactgcagcagaAccacctgctaaccaatagta	14	7	5	15	0	1	1	1	0	0	1	2	1	2	1	5	0	5	4	5	0	6	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:85950165A>T	uc004eew.2	+	5	1084	c.914A>T	c.(913-915)AAC>ATC	p.N305I	DACH2_uc004eex.2_Missense_Mutation_p.N292I|DACH2_uc010nmq.2_Missense_Mutation_p.N171I|DACH2_uc011mra.1_Missense_Mutation_p.N138I|DACH2_uc010nmr.2_Missense_Mutation_p.N86I	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	305					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						CTGCAGCAGAACCACCTGCTA	0.512													3	13					0	0	0.004672	0	0		T	85950165	T	T	85950165	3	4	163	1	0	0	0	0	1	0	0	0	4224	43	2	5	932	5	DACH2	23	85950165	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	2820877	85950165	69320395	282	89032											
FAM133A	286499	broad.mit.edu	37	chrX	92965165	92965165	+	Nonstop_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagtcacaagtcaaggtaAcatcaagaaaaaaagcaaga	22	5	7	7	0	4	2	4	0	0	2	4	2	4	2	0	1	2	2	0	1	9	1			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:92965165A>T	uc004efr.1	+	4	1060	c.747A>T	c.(745-747)TAA>TAT	p.*249Y		NM_173698	NP_775969	Q8N9E0	F133A_HUMAN	hypothetical protein LOC286499	249											0						AGTCAAGGTAACATCAAGAAA	0.284													45	34					0	0	0.01441	0	0		T	92965165	T	T	92965165	4	4	163	1	0	0	0	0	0	0	0	0	5454	50	2	5	749	5	FAM133A	23	92965165	Nonstop_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	7015000	92965165	62305395	283	89033											
IL1RAPL2	26280	broad.mit.edu	37	chrX	104512136	104512136	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgctcttctgatccaagaAgttcaagaagaagatggagg	15	9	11	6	0	3	5	1	1	2	4	4	6	4	6	1	2	1	2	1	2	6	2			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:104512136A>C	uc004elz.1	+	5	1365	c.609A>C	c.(607-609)GAA>GAC	p.E203D		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	203	Ig-like C2-type 2.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						TGATCCAAGAAGTTCAAGAAG	0.333													49	48					0	0	0.01441	0	0		C	104512136	C	C	104512136	3	2	163	1	0	0	0	0	1	0	0	0	7678	69	3	5	623	5	IL1RAPL2	23	104512136	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	11546971	104512136	50758424	284	89034											
MUM1L1	139221	broad.mit.edu	37	chrX	105450084	105450084	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatctcagcagttatgtctgTgcattctgcagtcaaagagg	10	13	10	8	0	4	1	2	0	3	1	5	1	4	1	0	1	3	4	0	1	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:105450084T>C	uc004emf.1	+	4	1308	c.659T>C	c.(658-660)GTG>GCG	p.V220A	MUM1L1_uc004emg.1_Missense_Mutation_p.V220A	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	220										ovary(2)|pancreas(1)|skin(1)	4						GTTATGTCTGTGCATTCTGCA	0.388													21	14					0	0	0.012319	0	0		C	105450084	C	C	105450084	3	2	163	1	0	0	0	0	1	0	0	0	10004	1696	59	3	661	3	MUM1L1	23	105450084	Missense_Mutation	SNP	T	TCGA-D7-5578-01A-01D-1600-08	937948	105450084	49820476	285	89035											
MAGEC3	139081	broad.mit.edu	37	chrX	140985099	140985099	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgactgatatggaccccGacaaccactcctatttcttt	9	12	5	15	1	1	2	0	2	1	0	2	4	2	3	5	1	1	0	5	1	3	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:140985099G>T	uc011mwp.1	+	7	1555	c.1555G>T	c.(1555-1557)GAC>TAC	p.D519Y	MAGEC3_uc004fbs.2_Missense_Mutation_p.D221Y|MAGEC3_uc010nsj.2_Missense_Mutation_p.D221Y	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	519	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TATGGACCCCGACAACCACTC	0.443													109	68					2.73796e-65	3.08692e-65	0.01441	1	0		T	140985099	T	T	140985099	3	4	163	1	0	0	0	0	1	0	0	0	9200	1058	37	5	1810	5	MAGEC3	23	140985099	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	35535015	140985099	14285461	286	89036											
AFF2	2334	broad.mit.edu	37	chrX	148039901	148039901	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaagatccctgagaagaAgcagcgcctggaggaggcca	14	3	15	9	1	0	4	0	1	0	4	1	8	1	6	3	3	2	1	3	3	3	0			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:148039901A>C	uc004fcp.2	+	12	3082	c.2603A>C	c.(2602-2604)AAG>ACG	p.K868T	AFF2_uc004fcq.2_Missense_Mutation_p.K858T|AFF2_uc004fcr.2_Missense_Mutation_p.K829T|AFF2_uc011mxb.1_Missense_Mutation_p.K833T|AFF2_uc004fcs.2_Missense_Mutation_p.K835T|AFF2_uc011mxc.1_Missense_Mutation_p.K509T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	868					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CCTGAGAAGAAGCAGCGCCTG	0.488													14	264					0	0	0.001855	0	0		C	148039901	C	C	148039901	3	2	163	1	0	0	0	0	1	0	0	0	357	72	3	5	2704	5	AFF2	23	148039901	Missense_Mutation	SNP	A	TCGA-D7-5578-01A-01D-1600-08	7054802	148039901	7230659	287	89037											
GABRQ	55879	broad.mit.edu	37	chrX	151820193	151820193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggcgacacaggagaccccGaagagtcattgcccgctacc	11	5	11	14	3	1	2	1	0	0	2	1	5	1	2	4	2	2	1	4	2	3	3			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:151820193G>A	uc004ffp.1	+	8	1126	c.1106G>A	c.(1105-1107)CGA>CAA	p.R369Q		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	369						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGGAGACCCCGAAGAGTCATT	0.517													63	30					0	0	0.01441	0	0		A	151820193	A	A	151820193	3	1	163	1	0	0	0	0	1	0	0	0	6189	1058	37	1	1136	1	GABRQ	23	151820193	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	3780292	151820193	3450367	288	89038											
MAGEA6	4105	broad.mit.edu	37	chrX	151869646	151869646	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagcagcactcagtaggaaGgtggccaagttggttcattt	11	10	12	8	0	2	0	2	0	0	0	2	1	2	1	1	4	2	5	1	4	4	4			TCGA-D7-5578-01A-01D-1600-08	TCGA-D7-5578-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	41bdfaa5-34ef-4073-86a5-257566dd7181	aef1712d-397b-4383-b9fa-d39322bd61ca	g.chrX:151869646G>C	uc004ffq.1	+	3	530	c.336G>C	c.(334-336)AAG>AAC	p.K112N	MAGEA6_uc004ffr.1_Missense_Mutation_p.K112N|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	112	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					TCAGTAGGAAGGTGGCCAAGT	0.542													5	143					0	0	0.000602	0	0		C	151869646	C	C	151869646	3	2	163	1	0	0	0	0	1	0	0	0	9188	991	35	5	338	5	MAGEA6	23	151869646	Missense_Mutation	SNP	G	TCGA-D7-5578-01A-01D-1600-08	49453	151869646	3400914	289	89039											
PTCHD2	57540	broad.mit.edu	37	chr1	11596541	11596541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caagattgtggcactcaacaCgggcgtgtccatcctctaca	10	9	9	13	2	2	1	1	0	1	1	4	1	4	1	2	2	2	1	2	2	3	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:11596541C>T	uc001ash.3	+	21	4115	c.3977C>T	c.(3976-3978)ACG>ATG	p.T1326M		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1326	Helical; (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GCACTCAACACGGGCGTGTCC	0.607													5	36					0	0	0.021553	0	0		T	11596541	T	T	11596541	3	4	164	1	0	0	0	0	1	0	0	0	12755	536	19	1	4055	1	PTCHD2	1	11596541	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08		11596541	237654080	1	89040											
MTHFR	4524	broad.mit.edu	37	chr1	11851278	11851278	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaccttccagaacatgaAgctgacgggatccactacgg	11	9	9	12	2	0	3	0	2	0	1	2	4	2	4	3	2	4	1	3	2	4	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:11851278A>G	uc001atc.1	-	11	1922	c.1738T>C	c.(1738-1740)TTC>CTC	p.F580L	MTHFR_uc001atb.1_Missense_Mutation_p.F603L	NM_005957	NP_005948	P42898	MTHR_HUMAN	5,10-methylenetetrahydrofolate reductase	580					blood circulation|folic acid metabolic process	cytosol	methylenetetrahydrofolate reductase (NADPH) activity|protein binding				0	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)	Benazepril(DB00542)|Cyanocobalamin(DB00115)|Folic Acid(DB00158)|L-Methionine(DB00134)|Menadione(DB00170)|Methotrexate(DB00563)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|Raltitrexed(DB00293)|Riboflavin(DB00140)|S-Adenosylmethionine(DB00118)|Tetrahydrofolic acid(DB00116)	CAGAACATGAAGCTGACGGGA	0.592													8	78					0	0	0.004482	0	0		G	11851278	G	G	11851278	3	3	164	1	0	0	0	0	1	0	0	0	9949	72	3	3	240	3	MTHFR	1	11851278	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	254737	11851278	237399343	2	89041											
CCDC21	64793	broad.mit.edu	37	chr1	26584166	26584166	+	Missense_Mutation	SNP	A	G	G	1	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	tagagccagcacagtggatcAgcatcttgaacagtaatgaa	15	8	10	8	0	2	3	1	2	1	1	2	4	2	4	1	1	4	3	1	1	4	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:26584166A>G	uc001bls.1	+	5	1113	c.982A>G	c.(982-984)AGC>GGC	p.S328G	CCDC21_uc001blr.2_Missense_Mutation_p.S328G|CCDC21_uc010ofa.1_Missense_Mutation_p.S277G	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	328						centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		ACAGTGGATCAGCATCTTGAA	0.507													33	229					0	0	0.019004	0	0		G	26584166	G	G	26584166	3	3	164	1	0	0	0	0	1	0	0	0	2799	188	7	3	996	3	CCDC21	1	26584166	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	14732888	26584166	222666455	3	89042											
ZMYM6	9204	broad.mit.edu	37	chr1	35457896	35457896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggccttggtctgtgtgacGggtttgcatgatatgccttt	4	16	14	7	1	1	2	0	2	1	0	1	2	1	2	2	3	2	2	2	3	1	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:35457896G>A	uc001byh.2	-	15	2313	c.2085C>T	c.(2083-2085)CCC>CCT	p.P695P	ZMYM6_uc001byf.1_Silent_p.P695P|ZMYM6_uc010oht.1_Silent_p.P598P|ZMYM6_uc009vup.2_Silent_p.P501P|ZMYM6_uc009vuq.1_Silent_p.P695P	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258	695					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				TCTGTGTGACGGGTTTGCATG	0.428													22	197					0	0	0.016522	0	0		A	35457896	A	A	35457896	2	1	164	1	0	0	0	0	0	0	0	1	17729	1103	39	1		1	ZMYM6	1	35457896	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	8873730	35457896	213792725	4	89043											
RLF	6018	broad.mit.edu	37	chr1	40705333	40705333	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggatggaggtcagaaaggGtgcatagaaagcagctcagt	14	6	16	5	0	2	2	2	0	0	2	2	4	2	4	0	4	3	3	0	4	3	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:40705333G>A	uc001cfc.3	+	8	4990	c.4959G>A	c.(4957-4959)GGG>GGA	p.G1653G	RLF_uc001cfd.3_Silent_p.G1344G	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	1653					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GTCAGAAAGGGTGCATAGAAA	0.468													44	74					0	0	0.01441	0	0		A	40705333	A	A	40705333	2	1	164	1	0	0	0	0	0	0	0	1	13414	1248	44	4		4	RLF	1	40705333	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	5247437	40705333	208545288	5	89044											
RNF220	55182	broad.mit.edu	37	chr1	44878227	44878227	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	tgacacagagtctccccactTgcgcttctcagatgcagatg	9	10	9	13	1	2	4	1	1	2	3	4	4	2	4	2	0	2	2	2	0	0	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:44878227T>A	uc001clv.1	+	2	818	c.458T>A	c.(457-459)TTG>TAG	p.L153*	RNF220_uc001clw.1_Nonsense_Mutation_p.L153*	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	153					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TCTCCCCACTTGCGCTTCTCA	0.542													11	159					0	0	0.008291	0	0		A	44878227	A	A	44878227	4	1	164	1	0	0	0	0	0	1	0	0	13508	1821	63	5	460	5	RNF220	1	44878227	Nonsense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	4172894	44878227	204372394	6	89045											
PRKACB	5567	broad.mit.edu	37	chr1	84650783	84650783	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctttttatttgttcatagGataattctaatttatacatg	11	21	4	5	0	2	0	1	0	1	0	3	1	3	1	1	1	1	1	1	1	6	12			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:84650783G>T	uc001djj.2	+	5	601	c.337G>T	c.(337-339)GAT>TAT	p.D113Y	PRKACB_uc001djl.2_Missense_Mutation_p.D160Y|PRKACB_uc010ort.1_Missense_Mutation_p.D120Y|PRKACB_uc001djn.2_Missense_Mutation_p.D117Y|PRKACB_uc010oru.1_Missense_Mutation_p.D101Y|PRKACB_uc001djp.2_Missense_Mutation_p.D119Y|PRKACB_uc001djq.2_Missense_Mutation_p.D83Y|PRKACB_uc010orv.1_Missense_Mutation_p.D100Y|PRKACB_uc001dji.2_Missense_Mutation_p.D113Y|PRKACB_uc001djk.2_Missense_Mutation_p.D160Y|PRKACB_uc009wcf.1_Missense_Mutation_p.D119Y	NM_002731	NP_002722	P22694	KAPCB_HUMAN	cAMP-dependent protein kinase catalytic subunit	113	Protein kinase.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|gluconeogenesis|intracellular protein kinase cascade|nerve growth factor receptor signaling pathway|regulation of insulin secretion|synaptic transmission|transmembrane transport|triglyceride catabolic process|water transport	cAMP-dependent protein kinase complex|centrosome|cytosol|nucleoplasm|plasma membrane	ATP binding|cAMP-dependent protein kinase activity|magnesium ion binding|protein binding			lung(2)|ovary(1)	3				all cancers(265;0.00536)|Epithelial(280;0.0161)|OV - Ovarian serous cystadenocarcinoma(397;0.141)		TTGTTCATAGGATAATTCTAA	0.274													17	150					4.7546e-09	5.17124e-09	0.028581	1	0		T	84650783	T	T	84650783	3	4	164	1	0	0	0	0	1	0	0	0	12520	1188	41	5	546	5	PRKACB	1	84650783	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	39772556	84650783	164599838	7	89046											
BRDT	676	broad.mit.edu	37	chr1	92467670	92467670	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggtgatagtgacacaacGatgttagaatctgaatgtca	13	12	10	6	1	3	4	1	3	2	1	3	5	3	4	0	1	1	1	0	1	5	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:92467670G>A	uc001dok.3	+	16	2701	c.2352G>A	c.(2350-2352)ACG>ACA	p.T784T	BRDT_uc001dol.3_Silent_p.T784T|BRDT_uc010osz.1_Silent_p.T788T|BRDT_uc009wdf.2_Silent_p.T711T|BRDT_uc010ota.1_Silent_p.T738T|BRDT_uc010otb.1_Silent_p.T738T|BRDT_uc001dom.3_Silent_p.T784T	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	784					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		GTGACACAACGATGTTAGAAT	0.348													7	62					0	0	0.00308	0	0		A	92467670	A	A	92467670	2	1	164	1	0	0	0	0	0	0	0	1	1511	1045	37	1		1	BRDT	1	92467670	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	7816887	92467670	156782951	8	89047											
NPR1	4881	broad.mit.edu	37	chr1	153661701	153661701	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagcgtggggagacggtgCaggccgaagcctttgacagt	9	7	17	8	3	0	3	0	2	0	1	0	5	0	3	2	4	3	1	2	4	2	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:153661701C>A	uc001fcs.3	+	17	3023	c.2602C>A	c.(2602-2604)CAG>AAG	p.Q868K	NPR1_uc010pdz.1_Missense_Mutation_p.Q614K|NPR1_uc010pea.1_Missense_Mutation_p.Q346K	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	868	Cytoplasmic (Potential).				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	GGAGACGGTGCAGGCCGAAGC	0.602													50	90					2.01807e-28	2.35256e-28	0.01441	1	0		A	153661701	A	A	153661701	3	1	164	1	0	0	0	0	1	0	0	0	10613	711	25	5	2668	5	NPR1	1	153661701	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	61194031	153661701	95588920	9	89048											
RUSC1	23623	broad.mit.edu	37	chr1	155300220	155300220	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gcgggctctctgtgatcacaCtgctgcaagacctgaccagt	8	9	11	13	1	2	3	1	2	1	1	3	3	2	3	2	1	2	3	2	1	1	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:155300220C>G	uc001fkj.2	+	10	2796	c.2567C>G	c.(2566-2568)ACT>AGT	p.T856S	RAG1AP1_uc010pey.1_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.T750S|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Missense_Mutation_p.T387S|RUSC1_uc001fkl.2_Missense_Mutation_p.T446S|RUSC1_uc001fkp.2_Missense_Mutation_p.T387S|RUSC1_uc001fkq.2_Missense_Mutation_p.T281S|RUSC1_uc010pgb.1_Missense_Mutation_p.T354S|RUSC1_uc009wqp.1_Missense_Mutation_p.T381S|RUSC1_uc001fkn.2_Missense_Mutation_p.T165S|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Missense_Mutation_p.T387S|RUSC1_uc001fks.2_Missense_Mutation_p.T123S	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	856	SH3.					cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			TGTGATCACACTGCTGCAAGA	0.632													6	73					0	0	0.02938	0	0		G	155300220	G	G	155300220	3	3	164	1	0	0	0	0	1	0	0	0	13775	565	20	5	2732	5	RUSC1	1	155300220	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	1638519	155300220	93950401	10	89049											
SPTA1	6708	broad.mit.edu	37	chr1	158617463	158617463	+	Silent	SNP	T	C	C	0	1	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	tgcaggtcctcagtggcatcTggatgggactcactgagccg	7	9	14	11	1	3	1	2	1	1	0	4	3	4	3	2	4	2	2	2	4	0	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:158617463T>C	uc001fst.1	-	27	3961	c.3762A>G	c.(3760-3762)CCA>CCG	p.P1254P		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1254	Spectrin 12.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CAGTGGCATCTGGATGGGACT	0.532													15	108					0	0	0.024245	0	0		C	158617463	C	C	158617463	2	2	164	1	0	0	0	0	0	0	0	1	15141	1567	55	3		3	SPTA1	1	158617463	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	3317243	158617463	90633158	11	89050											
OR10J1	26476	broad.mit.edu	37	chr1	159409696	159409696	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgcactatacatcttaaccTtagcaggcaatatcatcatt	13	14	4	10	0	3	0	2	0	1	0	3	0	3	0	1	1	4	3	1	1	6	7			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:159409696T>G	uc010piv.1	+	1	148	c.148T>G	c.(148-150)TTA>GTA	p.L50V	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	50	Helical; Name=1; (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					CATCTTAACCTTAGCAGGCAA	0.438													29	274					0	0	0.008361	0	0		G	159409696	G	G	159409696	3	3	164	1	0	0	0	0	1	0	0	0	10929	1606	56	5	150	5	OR10J1	1	159409696	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	792233	159409696	89840925	12	89051											
DNM3	26052	broad.mit.edu	37	chr1	171956837	171956837	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcaaaggaaagaaatttacaGattttgatgaagttcgcctt	15	12	9	5	1	0	4	0	2	0	2	1	5	0	5	1	1	1	2	1	1	5	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:171956837G>C	uc001gie.2	+	3	453	c.277G>C	c.(277-279)GAT>CAT	p.D93H	DNM3_uc001gid.3_Missense_Mutation_p.D93H|DNM3_uc009wwb.2_Missense_Mutation_p.D93H|DNM3_uc001gif.2_Missense_Mutation_p.D93H	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	93					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						GAAATTTACAGATTTTGATGA	0.333													15	226					0	0	0.020292	0	0		C	171956837	C	C	171956837	3	2	164	1	0	0	0	0	1	0	0	0	4679	942	33	5	287	5	DNM3	1	171956837	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	12547141	171956837	77293784	13	89052											
RASAL2	9462	broad.mit.edu	37	chr1	178269224	178269224	+	Missense_Mutation	SNP	A	C	C	1	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	ttccgagggtcagtttcccgAgtacccaccagagggcgcca	8	7	12	14	3	1	1	1	0	0	1	3	3	3	1	5	2	1	2	5	2	1	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:178269224A>C	uc001glq.2	+	3	1192	c.428A>C	c.(427-429)GAG>GCG	p.E143A	RASAL2_uc009wxb.2_Missense_Mutation_p.E143A	NM_170692	NP_733793	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 2	Error:Variant_position_missing_in_Q9UJF2_after_alignment					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CAGTTTCCCGAGTACCCACCA	0.478											OREG0014010	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	94					0	0	0.004482	0	0		C	178269224	C	C	178269224	3	2	164	1	0	0	0	0	1	0	0	0	13089	304	11	5	438	5	RASAL2	1	178269224	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	6312387	178269224	70981397	14	89053											
HMCN1	83872	broad.mit.edu	37	chr1	186038897	186038897	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatgataaagcactatgaagTgaaggtgtacagtaagttct	16	11	10	4	0	1	3	0	3	1	0	1	3	1	3	0	1	2	4	0	1	8	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:186038897T>C	uc001grq.1	+	51	8211	c.7982T>C	c.(7981-7983)GTG>GCG	p.V2661A		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2661	Ig-like C2-type 24.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CACTATGAAGTGAAGGTGTAC	0.383													10	20					0	0	0.006214	0	0		C	186038897	C	C	186038897	3	2	164	1	0	0	0	0	1	0	0	0	7236	1696	59	3	8184	3	HMCN1	1	186038897	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	7769673	186038897	63211724	15	89054											
CACNA1S	779	broad.mit.edu	37	chr1	201058563	201058563	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gtcctggcgcagggcgatggCtcttcattctccaccgtggc	4	10	13	14	3	3	0	1	0	2	0	5	1	4	0	3	4	0	2	3	4	0	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:201058563C>A	uc001gvv.2	-	6	950	c.723G>T	c.(721-723)GAG>GAT	p.E241D		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	241	Extracellular (Potential).|I.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	AGGGCGATGGCTCTTCATTCT	0.602													9	22					2.74318e-10	3.03042e-10	0.006214	1	0		A	201058563	A	A	201058563	3	1	164	1	0	0	0	0	1	0	0	0	2550	796	28	5	5054	5	CACNA1S	1	201058563	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	15019666	201058563	48192058	16	89055											
FCAMR	83953	broad.mit.edu	37	chr1	207135614	207135614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttgttttcacttccaatgCcgcagaggtagcatccgatg	8	13	10	10	2	1	1	1	0	0	1	3	2	3	1	3	1	2	5	3	1	2	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:207135614C>T	uc001hfa.3	-	5	1096	c.596G>A	c.(595-597)GGC>GAC	p.G199D	FCAMR_uc001hfb.2_Missense_Mutation_p.G199D|FCAMR_uc009xca.1_Missense_Mutation_p.G199D|FCAMR_uc001hfc.2_Missense_Mutation_p.G174D	NM_001122980	NP_001116452	Q8WWV6	FCAMR_HUMAN	Fc receptor, IgA, IgM, high affinity isoform 2	154	Extracellular (Potential).|Ig-like V-type.					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						ACTTCCAATGCCGCAGAGGTA	0.527													12	108					0	0	0.016723	0	0		T	207135614	T	T	207135614	3	4	164	1	0	0	0	0	1	0	0	0	5786	739	26	2	1153	2	FCAMR	1	207135614	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	6077051	207135614	42115007	17	89056											
USH2A	7399	broad.mit.edu	37	chr1	216138706	216138706	+	Missense_Mutation	SNP	A	T	T	1	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	aaaggactgagtgtgttaagAgtccattagggcgaaaaggt	14	9	14	4	1	0	2	0	1	0	1	1	4	1	3	1	3	0	1	1	3	5	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:216138706A>T	uc001hku.1	-	37	7460	c.7073T>A	c.(7072-7074)CTC>CAC	p.L2358H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2358	Extracellular (Potential).|Fibronectin type-III 10.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GTGTGTTAAGAGTCCATTAGG	0.398										HNSCC(13;0.011)			47	173					0	0	0.01441	0	0		T	216138706	T	T	216138706	3	4	164	1	0	0	0	0	1	0	0	0	17062	304	11	5	8679	5	USH2A	1	216138706	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	9003092	216138706	33111915	18	89057											
C1orf131	128061	broad.mit.edu	37	chr1	231362782	231362782	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttccttttccataaccCgtgataccaaaccggtgcac	9	12	5	15	2	0	1	0	1	0	0	3	1	3	1	6	1	4	1	6	1	3	5	rs144671689	byFrequency	TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:231362782C>T	uc001hun.1	-	4	580	c.543G>A	c.(541-543)ACG>ACA	p.T181T	C1orf131_uc001hul.2_Silent_p.T181T|C1orf131_uc001hum.2_Silent_p.T180T|C1orf131_uc010pwd.1_Silent_p.T180T	NM_152379	NP_689592	Q8NDD1	CA131_HUMAN	hypothetical protein LOC128061	181										central_nervous_system(1)|skin(1)	2	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				TTCCATAACCCGTGATACCAA	0.478													5	80					0	0	0.014758	0	0		T	231362782	T	T	231362782	2	4	164	1	0	0	0	0	0	0	0	1	2001	639	23	1		1	C1orf131	1	231362782	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	15224076	231362782	17887839	19	89058											
OR2T6	254879	broad.mit.edu	37	chr1	248551739	248551739	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agataaggtcttctctgcctTttataccatcctcacaccct	9	14	4	14	0	3	1	1	0	2	1	5	1	4	1	4	1	2	0	4	1	3	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr1:248551739T>G	uc001iei.1	+	1	830	c.830T>G	c.(829-831)TTT>TGT	p.F277C		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	277	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTCTCTGCCTTTTATACCATC	0.468													15	130					0	0	0.020292	0	0		G	248551739	G	G	248551739	3	3	164	1	0	0	0	0	1	0	0	0	11048	1841	64	5	832	5	OR2T6	1	248551739	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	17188957	248551739	698882	20	89059											
AGBL5	60509	broad.mit.edu	37	chr2	27293108	27293108	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ttgtccctaaatctcccccaCtgactgtttctccccgggtc	5	13	6	17	1	2	1	0	1	2	0	6	1	3	1	5	1	0	1	5	1	2	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:27293108C>A	uc002rie.2	+	15	2855	c.2638C>A	c.(2638-2640)CTG>ATG	p.L880M	AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	880					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCTCCCCCACTGACTGTTTC	0.502													30	102					5.8336e-16	6.65346e-16	0.015359	1	0		A	27293108	A	A	27293108	3	1	164	1	0	0	0	0	1	0	0	0	378	564	20	5	2757	5	AGBL5	2	27293108	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08		27293108	215906265	21	89060											
CEBPZ	10153	broad.mit.edu	37	chr2	37442041	37442041	+	Missense_Mutation	SNP	A	T	T	1	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	tatagtacctgtggaaaaacActtcatccactggtatttgg	12	13	8	8	0	1	0	1	0	0	0	2	1	2	1	2	3	2	2	2	3	6	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:37442041A>T	uc002rpz.2	-	9	2465	c.2435T>A	c.(2434-2436)GTG>GAG	p.V812E		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	812					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				GTGGAAAAACACTTCATCCAC	0.284													3	65					0	0	0.004672	0	0		T	37442041	T	T	37442041	3	4	164	1	0	0	0	0	1	0	0	0	3207	159	6	5	761	5	CEBPZ	2	37442041	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	10148933	37442041	205757332	22	89061											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48809617	48809617	+	Missense_Mutation	SNP	T	G	G	0	1	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	cttgaatctgaacctgtcatTcaagtcactgtggggtcagc	9	12	10	10	0	5	2	4	2	1	0	5	2	5	2	1	2	2	0	1	2	3	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:48809617T>G	uc010yol.1	+	1	1892	c.1845T>G	c.(1843-1845)ATT>ATG	p.I615M	STON1_uc002rwo.3_Missense_Mutation_p.I615M|STON1_uc010fbm.2_Missense_Mutation_p.I615M|STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.I615M|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Missense_Mutation_p.I615M	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	615					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AACCTGTCATTCAAGTCACTG	0.448													14	55					0	0	0.020292	0	0		G	48809617	G	G	48809617	3	3	164	1	0	0	0	0	1	0	0	0	15342	1771	62	5	1847	5	STON1-GTF2A1L	2	48809617	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	11367576	48809617	194389756	23	89062											
LHCGR	3973	broad.mit.edu	37	chr2	48925793	48925793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taaaagcacagcagtggctgGggtaagtcaacgtggcctcc	11	7	13	10	1	1	0	1	0	0	0	2	0	2	0	2	4	3	4	2	4	4	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:48925793G>A	uc002rwu.3	-	9	897	c.827C>T	c.(826-828)CCC>CTC	p.P276L	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	276	Extracellular (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	GCAGTGGCTGGGGTAAGTCAA	0.418									Familial_Male-Limited_Precocious_Puberty				15	100					0	0	0.0333	0	0		A	48925793	A	A	48925793	3	1	164	1	0	0	0	0	1	0	0	0	8778	1232	43	4	1284	4	LHCGR	2	48925793	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	116176	48925793	194273580	24	89063											
CNNM4	26504	broad.mit.edu	37	chr2	97427431	97427431	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggcgctatgcccgcaagaTtgagcccatccggcgcaagg	9	5	14	13	4	0	2	0	1	0	1	1	3	1	2	3	3	2	3	3	3	3	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:97427431T>G	uc002swx.2	+	1	793	c.695T>G	c.(694-696)ATT>AGT	p.I232S		NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	232	DUF21.				biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						GCCCGCAAGATTGAGCCCATC	0.582													8	75					0	0	0.004482	0	0		G	97427431	G	G	97427431	3	3	164	1	0	0	0	0	1	0	0	0	3618	1493	52	5	697	5	CNNM4	2	97427431	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	48501638	97427431	145771942	25	89064											
WDR33	55339	broad.mit.edu	37	chr2	128476972	128476972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtccggggggtccttgcatgCcaccctggggtggaggtcct	3	9	17	12	1	0	0	0	0	0	0	3	1	3	1	5	7	2	1	5	7	0	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:128476972C>T	uc002tpg.1	-	16	2810	c.2627G>A	c.(2626-2628)GGC>GAC	p.G876D		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	876					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TCCTTGCATGCCACCCTGGGG	0.617													15	127					0	0	0.0333	0	0		T	128476972	T	T	128476972	3	4	164	1	0	0	0	0	1	0	0	0	17313	739	26	2	1411	2	WDR33	2	128476972	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	31049541	128476972	114722401	26	89065											
POTEE	445582	broad.mit.edu	37	chr2	132021412	132021412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccttctacaacgagctgcGtgtggctcccgaggagcacc	8	7	11	15	3	1	0	0	0	1	0	2	3	2	1	3	2	5	3	3	2	2	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:132021412G>A	uc002tsn.2	+	15	2436	c.2384G>A	c.(2383-2385)CGT>CAT	p.R795H	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.R395H|POTEE_uc002tsl.2_Missense_Mutation_p.R377H|POTEE_uc010fmy.1_Missense_Mutation_p.R259H	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	795	Actin-like.						ATP binding				0						AACGAGCTGCGTGTGGCTCCC	0.577													18	117					0	0	0.006122	0	0		A	132021412	A	A	132021412	3	1	164	1	0	0	0	0	1	0	0	0	12283	1145	40	1	2442	1	POTEE	2	132021412	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	3544440	132021412	111177961	27	89066											
SCN2A	6326	broad.mit.edu	37	chr2	166179794	166179794	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatgatgagcacagcacCtttgaggacaatgacagccg	12	7	12	10	1	0	5	0	5	0	0	0	6	0	6	2	1	3	3	2	1	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:166179794C>A	uc002udc.2	+	12	2090	c.1800C>A	c.(1798-1800)ACC>ACA	p.T600T	SCN2A_uc002udd.2_Silent_p.T600T|SCN2A_uc002ude.2_Silent_p.T600T	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	600					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGCACAGCACCTTTGAGGACA	0.557													9	56					0.000274275	0.000286495	0.004482	1	0		A	166179794	A	A	166179794	2	1	164	1	0	0	0	0	0	0	0	1	13941	668	24	5		5	SCN2A	2	166179794	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	34158382	166179794	77019579	28	89067											
XIRP2	129446	broad.mit.edu	37	chr2	168108240	168108240	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catagctcagaagctggcaaAtctggctgtgacttcaagca	12	9	10	10	0	3	2	2	1	1	1	3	2	3	2	0	2	3	5	0	2	4	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:168108240A>C	uc002udx.2	+	8	10356	c.10338A>C	c.(10336-10338)AAA>AAC	p.K3446N	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K3271N|XIRP2_uc010fpq.2_Missense_Mutation_p.K3224N|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3271					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AAGCTGGCAAATCTGGCTGTG	0.403													9	59					0	0	0.004482	0	0		C	168108240	C	C	168108240	3	2	164	1	0	0	0	0	1	0	0	0	17456	98	4	5	10368	5	XIRP2	2	168108240	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	1928446	168108240	75091133	29	89068											
OSBPL6	114880	broad.mit.edu	37	chr2	179247957	179247957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaggaaatggaatacagcGagctcctggacaaggcttcg	12	7	14	8	2	0	1	0	1	0	0	2	5	1	4	1	4	3	2	1	4	4	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:179247957G>A	uc002ulx.2	+	17	2206	c.1828G>A	c.(1828-1830)GAG>AAG	p.E610K	OSBPL6_uc002uly.2_Missense_Mutation_p.E635K|OSBPL6_uc010zfe.1_Missense_Mutation_p.E579K|OSBPL6_uc002ulz.2_Missense_Mutation_p.E574K|OSBPL6_uc002uma.2_Missense_Mutation_p.E614K	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	610					lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			GGAATACAGCGAGCTCCTGGA	0.498													5	40					0	0	0.02938	0	0		A	179247957	A	A	179247957	3	1	164	1	0	0	0	0	1	0	0	0	11300	1059	37	1	2008	1	OSBPL6	2	179247957	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	11139717	179247957	63951416	30	89069											
TTN	7273	broad.mit.edu	37	chr2	179534986	179534986	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcttcaggaacacgtactTtttcttctaccacaattttc	9	16	4	12	1	4	0	1	0	3	0	5	1	4	1	1	1	3	2	1	1	4	8			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:179534986T>G	uc010zfg.1	-	152	31666	c.31442A>C	c.(31441-31443)AAA>ACA	p.K10481T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K7142T|TTN_uc010fre.1_Intron|TTN_uc010zfk.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11408							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACACGTACTTTTTCTTCTAC	0.294													3	14					0	0	0.004672	0	0		G	179534986	G	G	179534986	3	3	164	1	0	0	0	0	1	0	0	0	16761	1841	64	5	69187	5	TTN	2	179534986	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	287029	179534986	63664387	31	89070											
TTN	7273	broad.mit.edu	37	chr2	179644744	179644744	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacctgatcttctacataagTtctgaccactacagtatctt	11	14	4	12	0	4	2	0	2	4	0	4	2	4	2	2	0	2	2	2	0	4	7			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:179644744T>G	uc010zfg.1	-	22	3936	c.3712A>C	c.(3712-3714)ACT>CCT	p.T1238P	TTN_uc010zfh.1_Missense_Mutation_p.T1192P|TTN_uc010zfi.1_Missense_Mutation_p.T1192P|TTN_uc010zfj.1_Missense_Mutation_p.T1192P|TTN_uc002unb.2_Missense_Mutation_p.T1238P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1238							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTACATAAGTTCTGACCACT	0.269													17	129					0	0	0.007413	0	0		G	179644744	G	G	179644744	3	3	164	1	0	0	0	0	1	0	0	0	16761	1725	60	5	107640	5	TTN	2	179644744	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	109758	179644744	63554629	32	89071											
ACCN4	55515	broad.mit.edu	37	chr2	220379473	220379473	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcgagattgtgtgcaaaatCaaatttgctgaggaggatgc	13	11	12	5	1	1	2	1	1	0	1	2	5	1	4	0	2	3	2	0	2	3	2	rs144007748		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:220379473C>T	uc002vma.2	+	1	422	c.408C>T	c.(406-408)ATC>ATT	p.I136I	ACCN4_uc010fwi.1_Silent_p.I136I|ACCN4_uc010fwj.1_Silent_p.I136I|ACCN4_uc002vly.1_Silent_p.I136I|ACCN4_uc002vlz.2_Silent_p.I136I|ACCN4_uc002vmb.2_5'Flank	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	136	Cytoplasmic (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		TGTGCAAAATCAAATTTGCTG	0.642													6	77					0	0	0.004482	0	0		T	220379473	T	T	220379473	2	4	164	1	0	0	0	0	0	0	0	1	131	816	29	4		4	ACCN4	2	220379473	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	40734729	220379473	22819900	33	89072											
COL6A3	1293	broad.mit.edu	37	chr2	238274401	238274401	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaccttcagggtgtcctcCgtgaggacgtaggggtgctg	6	10	16	9	2	1	2	1	1	0	1	3	3	3	3	3	4	1	2	3	4	2	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:238274401C>T	uc002vwl.2	-	12	6063	c.5778G>A	c.(5776-5778)ACG>ACA	p.T1926T	COL6A3_uc002vwo.2_Silent_p.T1720T|COL6A3_uc010znj.1_Silent_p.T1319T	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1926	VWFA 10.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GGGTGTCCTCCGTGAGGACGT	0.602													9	94					0	0	0.006214	0	0		T	238274401	T	T	238274401	2	4	164	1	0	0	0	0	0	0	0	1	3704	639	23	1		1	COL6A3	2	238274401	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	17894928	238274401	4924972	34	89073											
KIF1A	547	broad.mit.edu	37	chr2	241666280	241666280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtcatgtagattttctctCgataaggggtgacccggttc	7	14	12	8	2	2	2	1	1	1	1	5	3	2	2	1	3	0	2	1	3	2	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr2:241666280C>T	uc002vzy.2	-	37	3928	c.3782G>A	c.(3781-3783)CGA>CAA	p.R1261Q	KIF1A_uc010fzk.2_Missense_Mutation_p.R1362Q|KIF1A_uc002vzz.1_Missense_Mutation_p.R1370Q|KIF1A_uc002vzw.2_5'Flank|KIF1A_uc002vzx.2_5'Flank	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	1261					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GATTTTCTCTCGATAAGGGGT	0.517													4	29					0	0	0.021553	0	0		T	241666280	T	T	241666280	3	4	164	1	0	0	0	0	1	0	0	0	8299	884	31	1	1334	1	KIF1A	2	241666280	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	3391879	241666280	1533093	35	89074											
CAMK1	8536	broad.mit.edu	37	chr3	9804849	9804849	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgatgaggtagaggtggccCccactctcatagatgtcatc	10	10	11	10	0	2	4	2	2	1	2	4	4	2	4	2	3	0	1	2	3	2	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:9804849C>A	uc003bst.2	-	4	442	c.264G>T	c.(262-264)GGG>GGT	p.G88G	OGG1_uc003bsk.2_Intron|OGG1_uc003bsl.2_Intron|OGG1_uc003bsm.2_Intron|OGG1_uc003bsn.2_Intron|OGG1_uc003bso.2_Intron|CAMK1_uc003bsu.2_RNA|CAMK1_uc003bss.2_5'Flank|uc003bsv.1_RNA	NM_003656	NP_003647	Q14012	KCC1A_HUMAN	calcium/calmodulin-dependent protein kinase I	88	Protein kinase.				cell differentiation|nervous system development|positive regulation of muscle cell differentiation|signal transduction	cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|skin(1)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.0475)		AGAGGTGGCCCCCACTCTCAT	0.483													8	66					0.000274275	0.000286495	0.004482	1	0		A	9804849	A	A	9804849	2	1	164	1	0	0	0	0	0	0	0	1	2599	610	22	5		5	CAMK1	3	9804849	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08		9804849	188217581	36	89075											
ATG7	10533	broad.mit.edu	37	chr3	11340313	11340313	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagctcccaaggacattaaGggttattactacaatggtag	14	10	10	7	0	0	0	0	0	0	0	1	2	1	1	1	3	3	3	1	3	8	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:11340313G>T	uc003bwc.2	+	2	261	c.144G>T	c.(142-144)AAG>AAT	p.K48N	ATG7_uc003bwd.2_Missense_Mutation_p.K48N|ATG7_uc011aum.1_Missense_Mutation_p.K48N	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	48					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						AGGACATTAAGGGTTATTACT	0.428													13	161					4.36969e-10	4.80211e-10	0.016723	1	0		T	11340313	T	T	11340313	3	4	164	1	0	0	0	0	1	0	0	0	1102	991	35	5	146	5	ATG7	3	11340313	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	1535464	11340313	186682117	37	89076											
CAPN7	23473	broad.mit.edu	37	chr3	15292720	15292720	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaagaaggaccttttttcTtggactttaatagtattatc	13	16	6	6	0	1	1	0	0	1	1	2	3	1	3	1	2	1	1	1	2	7	9			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:15292720T>A	uc003bzn.2	+	21	2665	c.2395T>A	c.(2395-2397)TTG>ATG	p.L799M	uc003bzo.1_5'Flank	NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	799	Domain N.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						ACCTTTTTTCTTGGACTTTAA	0.358													25	159					0	0	0.021523	0	0		A	15292720	A	A	15292720	3	1	164	1	0	0	0	0	1	0	0	0	2634	1606	56	5	2477	5	CAPN7	3	15292720	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	3952407	15292720	182729710	38	89077											
TRIM71	131405	broad.mit.edu	37	chr3	32932136	32932136	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttttggctttgttagcagCggggcctttgccccactcac	4	14	10	13	1	2	0	1	0	1	0	2	0	2	0	3	3	3	3	3	3	1	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:32932136C>T	uc003cff.2	+	4	1503	c.1440C>T	c.(1438-1440)AGC>AGT	p.S480S		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	480	Filamin.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						TTGTTAGCAGCGGGGCCTTTG	0.592													9	85					0	0	0.006214	0	0		T	32932136	T	T	32932136	2	4	164	1	0	0	0	0	0	0	0	1	16570	767	27	1		1	TRIM71	3	32932136	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	17639416	32932136	165090294	39	89078											
GOLGA4	2803	broad.mit.edu	37	chr3	37366613	37366613	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtagcagaactgaaacaaaAgatcctcctatttgggtgtg	13	10	11	7	0	0	3	0	1	0	2	2	3	2	3	2	2	3	2	2	2	6	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:37366613A>G	uc003cgv.2	+	14	3540	c.3236A>G	c.(3235-3237)AAG>AGG	p.K1079R	GOLGA4_uc010hgr.1_Missense_Mutation_p.K640R|GOLGA4_uc003cgw.2_Missense_Mutation_p.K1101R|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.K960R	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1079	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						CTGAAACAAAAGATCCTCCTA	0.358													9	56					0	0	0.004482	0	0		G	37366613	G	G	37366613	3	3	164	1	0	0	0	0	1	0	0	0	6570	72	3	3	3360	3	GOLGA4	3	37366613	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	4434477	37366613	160655817	40	89079											
XCR1	2829	broad.mit.edu	37	chr3	46063301	46063301	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	caggaccaggctgttgcccaCtaggctgaggagaaacacca	12	5	12	12	0	0	2	0	1	0	1	0	4	0	3	3	4	2	3	3	4	2	2	rs150654881		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:46063301C>G	uc003cpe.2	-	3	363	c.139G>C	c.(139-141)GTG>CTG	p.V47L	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Missense_Mutation_p.V47L	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	47	Helical; Name=1; (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		CTGTTGCCCACTAGGCTGAGG	0.557													9	94					0	0	0.010729	0	0		G	46063301	G	G	46063301	3	3	164	1	0	0	0	0	1	0	0	0	17451	565	20	5	866	5	XCR1	3	46063301	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	8696688	46063301	151959129	41	89080											
ABI3BP	25890	broad.mit.edu	37	chr3	100494156	100494156	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacctcaggggtggtgtagTtattgggcctgatgaaatga	9	12	15	5	0	1	4	1	4	0	0	1	4	1	4	2	4	0	2	2	4	3	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:100494156T>G	uc003dun.2	-	27	2309	c.2224A>C	c.(2224-2226)ACT>CCT	p.T742P	ABI3BP_uc003duj.2_Missense_Mutation_p.T322P|ABI3BP_uc003duk.2_Missense_Mutation_p.T451P|ABI3BP_uc003dul.2_Missense_Mutation_p.T572P|ABI3BP_uc011bhd.1_Missense_Mutation_p.T696P|ABI3BP_uc003dum.2_Missense_Mutation_p.T153P	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein	742	Pro-rich.					extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						GGTGGTGTAGTTATTGGGCCT	0.418													5	33					0	0	0.02938	0	0		G	100494156	G	G	100494156	3	3	164	1	0	0	0	0	1	0	0	0	91	1725	60	5	1039	5	ABI3BP	3	100494156	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	54430855	100494156	97528274	42	89081											
SENP7	57337	broad.mit.edu	37	chr3	101051685	101051685	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagtccatgttcttactctTttatgtcttctctgtgccat	5	19	6	11	1	4	0	0	0	4	0	6	1	5	0	2	0	2	1	2	0	2	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:101051685T>G	uc003dut.2	-	18	2613	c.2502A>C	c.(2500-2502)AAA>AAC	p.K834N	SENP7_uc003duu.2_Missense_Mutation_p.K769N|SENP7_uc003duv.2_Missense_Mutation_p.K801N|SENP7_uc003duw.2_Missense_Mutation_p.K768N|SENP7_uc003dux.2_Missense_Mutation_p.K670N|SENP7_uc003dus.2_Missense_Mutation_p.K22N	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	834	Protease.				proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TTCTTACTCTTTTATGTCTTC	0.279													15	89					0	0	0.028581	0	0		G	101051685	G	G	101051685	3	3	164	1	0	0	0	0	1	0	0	0	14076	1838	64	5	678	5	SENP7	3	101051685	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	557529	101051685	96970745	43	89082			1	38		2	2	12	T		6.040515e-05
SENP7	57337	broad.mit.edu	37	chr3	101051696	101051696	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcttactcttttatgtcttcTctgtgccattctgagagtat	6	20	6	9	0	5	1	0	1	5	1	6	2	5	1	1	0	2	1	1	0	3	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:101051696T>C	uc003dut.2	-	18	2602	c.2491A>G	c.(2491-2493)AGA>GGA	p.R831G	SENP7_uc003duu.2_Missense_Mutation_p.R766G|SENP7_uc003duv.2_Missense_Mutation_p.R798G|SENP7_uc003duw.2_Missense_Mutation_p.R765G|SENP7_uc003dux.2_Missense_Mutation_p.R667G|SENP7_uc003dus.2_Missense_Mutation_p.R19G	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	831	Protease.				proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TTATGTCTTCTCTGTGCCATT	0.279													9	78					0	0	0.008291	0	0		C	101051696	C	C	101051696	3	2	164	1	0	0	0	0	1	0	0	0	14076	1559	54	3	689	3	SENP7	3	101051696	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	11	101051696	96970734	44	89083			1	38		2	2	12	T		6.040515e-05
SENP7	57337	broad.mit.edu	37	chr3	101062680	101062680	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaacccaagacaacgggtaAgaaagctctaattctccact	15	8	7	11	1	2	3	0	1	2	2	3	3	2	3	2	1	3	2	2	1	6	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:101062680A>C	uc003dut.2	-	14	2067	c.1956T>G	c.(1954-1956)TCT>TCG	p.S652S	SENP7_uc003duu.2_Silent_p.S587S|SENP7_uc003duv.2_Silent_p.S619S|SENP7_uc003duw.2_Silent_p.S586S|SENP7_uc003dux.2_Silent_p.S488S	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	652					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						ACAACGGGTAAGAAAGCTCTA	0.343													8	65					0	0	0.006214	0	0		C	101062680	C	C	101062680	2	2	164	1	0	0	0	0	0	0	0	1	14076	59	3	5		5	SENP7	3	101062680	Silent	SNP	A	TCGA-D7-5579-01A-01D-1600-08	10984	101062680	96959750	45	89084											
EIF4G1	1981	broad.mit.edu	37	chr3	184045790	184045790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tactgctcagtactaccaagGgtatgaccagcttctctggg	9	11	10	11	0	2	1	1	1	1	0	3	1	2	1	2	2	5	4	2	2	5	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr3:184045790G>A	uc003fnp.2	+	26	4151	c.3953G>A	c.(3952-3954)GGG>GAG	p.G1318E	EIF4G1_uc003fnt.2_Missense_Mutation_p.G1029E|EIF4G1_uc003fnq.2_Missense_Mutation_p.G1231E|EIF4G1_uc003fnr.2_Missense_Mutation_p.G1154E|EIF4G1_uc010hxx.2_Missense_Mutation_p.G1325E|EIF4G1_uc003fns.2_Missense_Mutation_p.G1278E|EIF4G1_uc010hxy.2_Missense_Mutation_p.G1325E|EIF4G1_uc003fnv.3_Missense_Mutation_p.G1319E|EIF4G1_uc003fnu.3_Missense_Mutation_p.G1318E|EIF4G1_uc003fnw.2_Missense_Mutation_p.G1325E|EIF4G1_uc003fnx.2_Missense_Mutation_p.G1123E|EIF4G1_uc003fny.3_Missense_Mutation_p.G1122E|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1318	MI.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TACTACCAAGGGTATGACCAG	0.527													20	148					0	0	0.010504	0	0		A	184045790	A	A	184045790	3	1	164	1	0	0	0	0	1	0	0	0	5044	1246	43	4	4047	4	EIF4G1	3	184045790	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	82983110	184045790	13976640	46	89085											
JAKMIP1	152789	broad.mit.edu	37	chr4	6043885	6043885	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaggcagtcaaatcttttaCcttctccttctccaggtcca	8	13	5	15	0	4	0	1	0	3	0	7	0	5	0	5	2	1	1	5	2	2	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr4:6043885C>T	uc010idb.1	-	17	2583	c.2097_splice	c.e17+1	p.K699_splice	JAKMIP1_uc010idc.1_Splice_Site_p.K514_splice|JAKMIP1_uc010idd.1_Intron	NM_001099433	NP_001092903	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein						protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						AAATCTTTTACCTTCTCCTTC	0.527													17	49					0	0	0.0333	0	0		T	6043885	T	T	6043885	5	4	164	1	0	0	0	0	0	0	1	0	7956	521	18	4	417	4	JAKMIP1	4	6043885	Splice_Site	SNP	C	TCGA-D7-5579-01A-01D-1600-08		6043885	185110391	47	89086											
PDS5A	23244	broad.mit.edu	37	chr4	39921961	39921961	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	tagcaatgcatgcctcaataGtctggactgttcttttcaat	10	15	7	9	0	4	0	2	0	2	0	4	1	4	1	1	1	3	3	1	1	5	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr4:39921961G>C	uc003guv.3	-	7	1253	c.713C>G	c.(712-714)ACT>AGT	p.T238S	PDS5A_uc010ifo.2_Missense_Mutation_p.T198S|PDS5A_uc003guw.3_Missense_Mutation_p.T238S	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	238					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						TGCCTCAATAGTCTGGACTGT	0.264													15	62					0	0	0.028581	0	0		C	39921961	C	C	39921961	3	2	164	1	0	0	0	0	1	0	0	0	11710	1029	36	5	3441	5	PDS5A	4	39921961	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	33878076	39921961	151232315	48	89087											
GABRA4	2557	broad.mit.edu	37	chr4	46979471	46979471	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctcataattctaaaaagCttatttggagctgtcatatt	12	18	5	6	0	3	0	2	0	2	0	4	1	3	1	0	1	2	2	0	1	6	8			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr4:46979471C>T	uc003gxg.2	-	4	589	c.450G>A	c.(448-450)AAG>AAA	p.K150K		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	150	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)	4					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TTCTAAAAAGCTTATTTGGAG	0.254													8	78					0	0	0.00308	0	0		T	46979471	T	T	46979471	2	4	164	1	0	0	0	0	0	0	0	1	6177	796	28	2		2	GABRA4	4	46979471	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	7057510	46979471	144174805	49	89088											
TMPRSS11F	389208	broad.mit.edu	37	chr4	68919748	68919748	+	Missense_Mutation	SNP	T	G	G	0	1	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	tacctacaatgtaccagatgTcatgattatcataaaccaga	16	11	5	9	0	2	3	2	1	0	2	2	3	2	3	3	0	4	1	3	0	7	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr4:68919748T>G	uc003hdt.1	-	10	1245	c.1196A>C	c.(1195-1197)GAC>GCC	p.D399A	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	399	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						GTACCAGATGTCATGATTATC	0.358													22	119					0	0	0.012319	0	0		G	68919748	G	G	68919748	3	3	164	1	0	0	0	0	1	0	0	0	16268	1667	58	5	124	5	TMPRSS11F	4	68919748	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	21940277	68919748	122234528	50	89089											
LEF1	51176	broad.mit.edu	37	chr4	109088797	109088797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcgccttcctcttcgggatGactgatctcggcgaagatct	7	12	10	12	4	3	3	0	2	3	1	7	5	4	4	2	2	0	0	2	2	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr4:109088797G>A	uc003hyt.1	-	1	782	c.127C>T	c.(127-129)CAT>TAT	p.H43Y	LEF1_uc011cfj.1_5'Flank|LEF1_uc011cfk.1_5'Flank|LEF1_uc003hyu.1_Missense_Mutation_p.H43Y|LEF1_uc003hyv.1_Missense_Mutation_p.H43Y|LEF1_uc010imb.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	43	CTNNB1-binding (By similarity).|Asp/Glu-rich (acidic).				canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		TCTTCGGGATGACTGATCTCG	0.597													34	109					0	0	0.013726	0	0		A	109088797	A	A	109088797	3	1	164	1	0	0	0	0	1	0	0	0	8730	1290	45	4	1213	4	LEF1	4	109088797	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	40169049	109088797	82065479	51	89090											
DCHS2	54798	broad.mit.edu	37	chr4	155156977	155156977	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgagttgactttttattaGgggaagggctctaatcaaat	11	15	11	4	0	2	2	1	2	1	0	2	3	2	3	0	3	0	3	0	3	5	7			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr4:155156977G>T	uc003inw.2	-	25	7462	c.7462C>A	c.(7462-7464)CTA>ATA	p.L2488I		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2488	Cadherin 22.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTTTTTATTAGGGGAAGGGCT	0.353													34	130					6.00712e-18	6.92625e-18	0.012213	1	0		T	155156977	T	T	155156977	3	4	164	1	0	0	0	0	1	0	0	0	4291	991	35	5	1292	5	DCHS2	4	155156977	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	46068180	155156977	35997299	52	89091											
ANXA10	11199	broad.mit.edu	37	chr4	169108527	169108527	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttttcagaattttgcttCagggcattataagaaagcac	12	15	7	7	0	3	2	2	0	1	2	3	2	3	2	0	1	2	3	0	1	4	8			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr4:169108527C>A	uc003irm.2	+	12	1062	c.917C>A	c.(916-918)TCA>TAA	p.S306*	ANXA10_uc003irn.2_Nonsense_Mutation_p.S178*	NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10	306	Annexin 4.						calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		AATTTTGCTTCAGGGCATTAT	0.353													7	72					0.000274275	0.000286495	0.004482	1	0		A	169108527	A	A	169108527	4	1	164	1	0	0	0	0	0	1	0	0	715	838	29	5	963	5	ANXA10	4	169108527	Nonsense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	13951550	169108527	22045749	53	89092											
PRDM9	56979	broad.mit.edu	37	chr5	23509147	23509147	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agacagtcccagcaccatgaGccctgaaaagtcccaagagg	14	4	10	13	0	0	4	0	2	0	2	2	4	2	4	4	1	2	1	4	1	3	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:23509147G>A	uc003jgo.2	+	2	187	c.5G>A	c.(4-6)AGC>AAC	p.S2N		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	2					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGCACCATGAGCCCTGAAAAG	0.567										HNSCC(3;0.000094)			21	56					0	0	0.012319	0	0		A	23509147	A	A	23509147	3	1	164	1	0	0	0	0	1	0	0	0	12485	971	34	2	7	2	PRDM9	5	23509147	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08		23509147	157406113	54	89093											
ADAMTS12	81792	broad.mit.edu	37	chr5	33637846	33637846	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaatatttccctccaaacTttggcctgcaaatgaaacag	13	11	6	11	0	0	1	0	1	0	0	2	1	2	1	3	1	4	2	3	1	5	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:33637846T>C	uc003jia.1	-	12	1887	c.1724A>G	c.(1723-1725)AAG>AGG	p.K575R	ADAMTS12_uc010iuq.1_Missense_Mutation_p.K575R	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	575	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CCCTCCAAACTTTGGCCTGCA	0.463										HNSCC(64;0.19)			20	65					0	0	0.008361	0	0		C	33637846	C	C	33637846	3	2	164	1	0	0	0	0	1	0	0	0	257	1609	56	3	3112	3	ADAMTS12	5	33637846	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	10128699	33637846	147277414	55	89094											
CAPSL	133690	broad.mit.edu	37	chr5	35921154	35921154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggagtctttcaatggggtcGgtggccgtggtgagcttttt	4	14	16	7	3	2	1	1	1	1	0	3	2	2	2	1	6	1	1	1	6	1	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:35921154G>A	uc003jjt.1	-	2	164	c.69C>T	c.(67-69)ACC>ACT	p.T23T	CAPSL_uc003jju.1_Silent_p.T23T	NM_001042625	NP_001036090	Q8WWF8	CAPSL_HUMAN	calcyphosine-like	23						cytoplasm	calcium ion binding			skin(1)	1	all_lung(31;0.000268)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.167)|Colorectal(62;0.202)			CAATGGGGTCGGTGGCCGTGG	0.587													5	88					0	0	0.02938	0	0		A	35921154	A	A	35921154	2	1	164	1	0	0	0	0	0	0	0	1	2642	1103	39	1		1	CAPSL	5	35921154	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	2283308	35921154	144994106	56	89095											
MSH3	4437	broad.mit.edu	37	chr5	80083395	80083395	+	Missense_Mutation	SNP	A	G	G	1	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	cttccgtaggaaattcagtgAacattatcactccttgtgta	11	14	7	9	1	2	1	2	1	0	0	4	2	4	2	2	1	1	2	2	1	5	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:80083395A>G	uc003kgz.2	+	18	2700	c.2447A>G	c.(2446-2448)GAA>GGA	p.E816G		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	816					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		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)		AAATTCAGTGAACATTATCAC	0.418								MMR					26	163					0	0	0.009535	0	0		G	80083395	G	G	80083395	3	3	164	1	0	0	0	0	1	0	0	0	9889	246	9	3	2517	3	MSH3	5	80083395	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	44162241	80083395	100831865	57	89096											
RASGRF2	5924	broad.mit.edu	37	chr5	80409671	80409671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagagcaaagcccgggaaCggtagaagagaatgtcgata	15	5	13	8	3	0	3	0	0	0	3	2	6	1	4	2	2	3	2	2	2	6	2	rs111424797	byFrequency	TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:80409671C>T	uc003kha.1	+	15	2402	c.2402C>T	c.(2401-2403)ACG>ATG	p.T801M	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	801					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		AGCCCGGGAACGGTAGAAGAG	0.498													12	66					0	0	0.013537	0	0		T	80409671	T	T	80409671	3	4	164	1	0	0	0	0	1	0	0	0	13098	536	19	1	2460	1	RASGRF2	5	80409671	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	326276	80409671	100505589	58	89097											
MCTP1	79772	broad.mit.edu	37	chr5	94353092	94353092	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctcgatctcgagcagctaAactttgaccccttcttaatg	9	13	6	13	2	2	1	0	1	2	0	5	3	3	1	3	0	3	2	3	0	3	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:94353092A>G	uc003kkx.2	-	2	817	c.817T>C	c.(817-819)TTA>CTA	p.L273L	MCTP1_uc003kkv.2_Silent_p.L52L|MCTP1_uc003kkw.2_Silent_p.L52L|MCTP1_uc003kkz.2_Intron	NM_024717	NP_078993	Q6DN14	MCTP1_HUMAN	multiple C2 domains, transmembrane 1 isoform L	273	C2 1.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(2)	2		all_cancers(142;1.68e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0167)|Lung NSC(167;0.0207)|Ovarian(225;0.0218)|Colorectal(57;0.207)		all cancers(79;9.1e-17)		CGAGCAGCTAAACTTTGACCC	0.423													22	144					0	0	0.012319	0	0		G	94353092	G	G	94353092	2	3	164	1	0	0	0	0	0	0	0	1	9418	11	1	3		3	MCTP1	5	94353092	Silent	SNP	A	TCGA-D7-5579-01A-01D-1600-08	13943421	94353092	86562168	59	89098											
LNPEP	4012	broad.mit.edu	37	chr5	96332176	96332176	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cactttcatggagtatttctCtttggaaaaaatattcaaag	14	15	6	6	0	3	0	2	0	1	0	4	2	3	2	0	2	0	1	0	2	6	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:96332176C>G	uc003kmv.1	+	7	2004	c.1490C>G	c.(1489-1491)TCT>TGT	p.S497C	LNPEP_uc003kmw.1_Missense_Mutation_p.S483C	NM_005575	NP_005566	Q9UIQ6	LCAP_HUMAN	leucyl/cystinyl aminopeptidase isoform 1	497	Extracellular (Potential).				cell-cell signaling|female pregnancy|proteolysis	extracellular region|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4		all_cancers(142;7e-07)|all_epithelial(76;9.52e-10)|all_lung(232;0.00101)|Lung NSC(167;0.00137)|Ovarian(225;0.024)|Colorectal(57;0.0269)|Breast(839;0.244)		COAD - Colon adenocarcinoma(37;0.072)		GAGTATTTCTCTTTGGAAAAA	0.383													8	63					0	0	0.00308	0	0		G	96332176	G	G	96332176	3	3	164	1	0	0	0	0	1	0	0	0	8881	913	32	5	1516	5	LNPEP	5	96332176	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	1979084	96332176	84583084	60	89099											
CHD1	1105	broad.mit.edu	37	chr5	98236677	98236677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaacagttgcttggcgacGagaacttcttttatcattat	11	16	7	7	2	2	1	1	0	1	1	2	3	2	1	0	1	3	2	0	1	4	7			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:98236677G>A	uc003knf.2	-	6	845	c.697C>T	c.(697-699)CGT>TGT	p.R233C		NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	233					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	GCTTGGCGACGAGAACTTCTT	0.368													16	143					0	0	0.0333	0	0		A	98236677	A	A	98236677	3	1	164	1	0	0	0	0	1	0	0	0	3326	1058	37	1	4555	1	CHD1	5	98236677	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	1904501	98236677	82678583	61	89100											
ATP10B	23120	broad.mit.edu	37	chr5	160033905	160033905	+	Silent	SNP	T	C	C	0	1	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	agaaacttcttctctagcttTccctggaagatggcattcaa	11	13	7	10	0	3	2	1	0	2	2	5	3	4	3	1	2	2	2	1	2	4	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:160033905T>C	uc003lym.1	-	19	3874	c.3027A>G	c.(3025-3027)GGA>GGG	p.G1009G	ATP10B_uc010jit.1_Silent_p.G326G	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1009	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTCTAGCTTTCCCTGGAAGA	0.512													9	130					0	0	0.004482	0	0		C	160033905	C	C	160033905	2	2	164	1	0	0	0	0	0	0	0	1	1118	1770	62	3		3	ATP10B	5	160033905	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	61797228	160033905	20881355	62	89101											
DDX41	51428	broad.mit.edu	37	chr5	176941765	176941765	+	Missense_Mutation	SNP	A	G	G	1	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	tgcagagggcgcagcgcaggAgtggtgagctgtcctcctgc	6	7	17	11	2	0	2	0	1	0	1	2	3	2	3	2	3	4	4	2	3	0	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr5:176941765A>G	uc003mho.2	-	9	893	c.872T>C	c.(871-873)CTC>CCC	p.L291P	DDX41_uc003mhm.2_Missense_Mutation_p.L71P|DDX41_uc003mhn.2_Missense_Mutation_p.L160P|DDX41_uc003mhp.2_Missense_Mutation_p.L160P|DDX41_uc003mhq.1_Missense_Mutation_p.L71P	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	291	Helicase ATP-binding.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			GCAGCGCAGGAGTGGTGAGCT	0.657													26	114					0	0	0.030593	0	0		G	176941765	G	G	176941765	3	3	164	1	0	0	0	0	1	0	0	0	4364	304	11	3	1032	3	DDX41	5	176941765	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	16907860	176941765	3973495	63	89102											
TNXB	7148	broad.mit.edu	37	chr6	32026099	32026099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcccccaggagaggctcctCggggggccctggggcctctg	3	6	16	16	1	1	1	0	0	1	1	4	2	3	1	5	7	0	1	5	7	0	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr6:32026099C>T	uc003nzl.2	-	22	7763	c.7561G>A	c.(7561-7563)GAG>AAG	p.E2521K		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2581					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						AGAGGCTCCTCGGGGGGCCCT	0.617													8	19					0	0	0.006214	0	0		T	32026099	T	T	32026099	3	4	164	1	0	0	0	0	1	0	0	0	16371	893	31	1	7244	1	TNXB	6	32026099	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08		32026099	139088968	64	89103											
TMEM63B	55362	broad.mit.edu	37	chr6	44116537	44116537	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccaccttgccagggagcaccTctccatccgaggcttcatct	7	9	8	17	1	3	0	1	0	2	0	5	2	4	1	6	2	2	2	6	2	0	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr6:44116537T>G	uc003owr.2	+	15	1332	c.1268T>G	c.(1267-1269)CTC>CGC	p.L423R	TMEM63B_uc003owq.1_Missense_Mutation_p.L423R|TMEM63B_uc003ows.2_Missense_Mutation_p.L326R|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	423						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			AGGGAGCACCTCTCCATCCGA	0.592													8	83					0	0	0.008291	0	0		G	44116537	G	G	44116537	3	3	164	1	0	0	0	0	1	0	0	0	16216	1551	54	5	1322	5	TMEM63B	6	44116537	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	12090438	44116537	126998530	65	89104											
BEND3	57673	broad.mit.edu	37	chr6	107391848	107391848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgttgtcagtgcctgcccCggtgctgccacagtcccgct	3	10	12	16	3	1	0	1	0	0	0	3	0	2	0	5	1	4	3	5	1	0	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr6:107391848C>T	uc003prs.2	-	5	1197	c.547G>A	c.(547-549)GGG>AGG	p.G183R		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	183										ovary(3)	3						GTGCCTGCCCCGGTGCTGCCA	0.562													6	44					0	0	0.021553	0	0		T	107391848	T	T	107391848	3	4	164	1	0	0	0	0	1	0	0	0	1400	652	23	1	1943	1	BEND3	6	107391848	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	63275311	107391848	63723219	66	89105											
IL22RA2	116379	broad.mit.edu	37	chr6	137476153	137476153	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggccgccctcaccctccCgtaataaggttcctgtatgt	7	10	9	15	3	1	0	1	0	0	0	3	1	3	0	5	2	0	3	5	2	3	4	rs150492179		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr6:137476153C>T	uc003qhl.2	-	5	698	c.397G>A	c.(397-399)GGG>AGG	p.G133R	IL22RA2_uc003qhm.2_Missense_Mutation_p.G101R|IL22RA2_uc003qhn.2_Missense_Mutation_p.G101R	NM_052962	NP_443194	Q969J5	I22R2_HUMAN	interleukin 22-binding protein isoform 1	133	Fibronectin type-III 2.				regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	interleukin-22 receptor activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000313)|OV - Ovarian serous cystadenocarcinoma(155;0.00407)		CTCACCCTCCCGTAATAAGGT	0.512													22	191					0	0	0.016522	0	0		T	137476153	T	T	137476153	3	4	164	1	0	0	0	0	1	0	0	0	7690	652	23	1	406	1	IL22RA2	6	137476153	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	30084305	137476153	33638914	67	89106											
SYNE1	23345	broad.mit.edu	37	chr6	152777106	152777106	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgttgctcaaggtcacaaacTtttgaacactttgactgcct	10	13	7	11	1	2	2	2	2	0	0	2	2	2	2	1	1	4	2	1	1	3	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr6:152777106T>A	uc010kiw.2	-	23	3244	c.2642A>T	c.(2641-2643)AAG>ATG	p.K881M	SYNE1_uc003qot.3_Missense_Mutation_p.K888M|SYNE1_uc003qou.3_Missense_Mutation_p.K881M|SYNE1_uc010kjb.1_Missense_Mutation_p.K864M|SYNE1_uc003qow.2_Missense_Mutation_p.K176M|SYNE1_uc003qox.1_Missense_Mutation_p.K397M|SYNE1_uc003qoz.2_Missense_Mutation_p.K313M|SYNE1_uc003qoy.2_Missense_Mutation_p.K448M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	881	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GGTCACAAACTTTTGAACACT	0.383										HNSCC(10;0.0054)			37	157					0	0	0.019004	0	0		A	152777106	A	A	152777106	3	1	164	1	0	0	0	0	1	0	0	0	15470	1609	56	5	24320	5	SYNE1	6	152777106	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	15300953	152777106	18337961	68	89107											
FERD3L	222894	broad.mit.edu	37	chr7	19184940	19184940	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggacaggtctgcgacgaAgtccagcaccgtagtgtcca	10	6	13	12	3	1	0	0	0	1	0	3	3	3	1	3	2	2	2	3	2	2	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr7:19184940A>G	uc003suo.1	-	1	105	c.46T>C	c.(46-48)TTC>CTC	p.F16L	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	16					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						TCTGCGACGAAGTCCAGCACC	0.682													7	47					0	0	0.02938	0	0		G	19184940	G	G	19184940	3	3	164	1	0	0	0	0	1	0	0	0	5830	72	3	3	458	3	FERD3L	7	19184940	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08		19184940	139953723	69	89108											
C7orf25	79020	broad.mit.edu	37	chr7	42949301	42949301	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcctctttactctcagtaAgtgctctgggctgatggata	8	13	11	9	0	3	1	1	1	3	0	4	3	3	2	1	2	3	3	1	2	3	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr7:42949301A>T	uc003thw.2	-	2	1663	c.1199T>A	c.(1198-1200)CTT>CAT	p.L400H	C7orf25_uc010kxq.2_Missense_Mutation_p.L400H|C7orf25_uc003thx.3_Missense_Mutation_p.L458H|C7orf25_uc010kxr.2_Missense_Mutation_p.L458H	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	400										skin(1)	1						ACTCTCAGTAAGTGCTCTGGG	0.408													15	121					0	0	0.024245	0	0		T	42949301	T	T	42949301	3	4	164	1	0	0	0	0	1	0	0	0	2383	72	3	5	70	5	C7orf25	7	42949301	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	23764361	42949301	116189362	70	89109											
ADCY1	107	broad.mit.edu	37	chr7	45632384	45632384	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaatgccttgctcttcgtCggtgtgaacatgtatggggt	6	13	13	9	2	1	1	0	1	1	0	3	1	1	1	2	3	3	2	2	3	3	3	rs149960050	byFrequency	TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr7:45632384C>T	uc003tne.3	+	2	684	c.666C>T	c.(664-666)GTC>GTT	p.V222V	ADCY1_uc003tnd.2_5'UTR	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	222	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TGCTCTTCGTCGGTGTGAACA	0.597													6	247					0	0	0.021553	0	0		T	45632384	T	T	45632384	2	4	164	1	0	0	0	0	0	0	0	1	292	871	31	1		1	ADCY1	7	45632384	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	2683083	45632384	113506279	71	89110											
GIGYF1	64599	broad.mit.edu	37	chr7	100285026	100285026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcagctgtcaccacggccgCggcctagagaagaggccaga	11	3	14	13	3	1	3	1	0	0	3	1	4	1	3	4	3	2	2	4	3	2	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr7:100285026C>T	uc003uwg.1	-	5	1386	c.377G>A	c.(376-378)CGC>CAC	p.R126H		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	126										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					ACCACGGCCGCGGCCTAGAGA	0.607													15	137					0	0	0.008871	0	0		T	100285026	T	T	100285026	3	4	164	1	0	0	0	0	1	0	0	0	6392	768	27	1	2810	1	GIGYF1	7	100285026	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	54652642	100285026	58853637	72	89111											
MUC17	140453	broad.mit.edu	37	chr7	100684635	100684635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgacaccagcacacctgtgaCcacttattctcaagccagtt	11	10	6	14	0	1	2	1	2	1	0	2	2	1	2	4	0	2	2	4	0	2	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr7:100684635C>A	uc003uxp.1	+	3	9991	c.9938C>A	c.(9937-9939)ACC>AAC	p.T3313N	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3313	Extracellular (Potential).|54.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACACCTGTGACCACTTATTCT	0.478													49	327					1.61863e-15	1.83618e-15	0.01441	1	0		A	100684635	A	A	100684635	3	1	164	1	0	0	0	0	1	0	0	0	9992	507	18	5	9948	5	MUC17	7	100684635	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	399609	100684635	58454028	73	89112											
CSMD1	64478	broad.mit.edu	37	chr8	3256965	3256965	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttgcttcaattatccattCacaatgtaaagaatccttat	13	17	3	8	0	2	1	2	0	0	1	4	1	4	1	2	0	1	2	2	0	7	7			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr8:3256965C>T	uc011kwk.1	-	16	2746	c.2356G>A	c.(2356-2358)GAA>AAA	p.E786K	CSMD1_uc011kwj.1_Missense_Mutation_p.E178K	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	786	Extracellular (Potential).|CUB 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ATTATCCATTCACAATGTAAA	0.408													8	122					0	0	0.00308	0	0		T	3256965	T	T	3256965	3	4	164	1	0	0	0	0	1	0	0	0	3947	835	29	4	8561	4	CSMD1	8	3256965	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08		3256965	143107057	74	89113											
SH2D4A	63898	broad.mit.edu	37	chr8	19192368	19192368	+	Silent	SNP	A	C	C	1	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	ctggaagaagagaaaatccgAgtgagtccttactgtctgta	13	10	11	7	1	1	3	0	1	1	2	3	6	3	4	2	1	1	1	2	1	6	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr8:19192368A>C	uc003wzb.2	+	4	849	c.513A>C	c.(511-513)CGA>CGC	p.R171R	SH2D4A_uc011kym.1_Silent_p.R126R|SH2D4A_uc003wzc.2_Silent_p.R171R	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	171						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		AGAAAATCCGAGTGAGTCCTT	0.493													8	70					0	0	0.004482	0	0		C	19192368	C	C	19192368	2	2	164	1	0	0	0	0	0	0	0	1	14260	318	11	5		5	SH2D4A	8	19192368	Silent	SNP	A	TCGA-D7-5579-01A-01D-1600-08	15935403	19192368	127171654	75	89114											
INTS10	55174	broad.mit.edu	37	chr8	19700363	19700363	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggacttctgttaggttcGgatctgaagctcctgccttg	5	15	12	9	1	2	1	0	1	2	0	4	3	3	3	2	3	2	3	2	3	2	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr8:19700363G>A	uc003wzj.2	+	14	1775	c.1644G>A	c.(1642-1644)TCG>TCA	p.S548S		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	548					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		TGTTAGGTTCGGATCTGAAGC	0.373													69	154					0	0	0.01441	0	0		A	19700363	A	A	19700363	2	1	164	1	0	0	0	0	0	0	0	1	7792	1103	39	1		1	INTS10	8	19700363	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	507995	19700363	126663659	76	89115											
CYP7A1	1581	broad.mit.edu	37	chr8	59407090	59407090	+	Silent	SNP	T	C	C	0	1	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	actggcaggtcattcagttcTgcttgactcaaacaaatagg	12	11	9	9	0	4	1	3	1	1	0	4	1	4	1	0	3	2	3	0	3	3	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr8:59407090T>C	uc003xtm.3	-	4	1077	c.1014A>G	c.(1012-1014)GCA>GCG	p.A338A		NM_000780	NP_000771	P22680	CP7A1_HUMAN	cytochrome P450, family 7, subfamily A,	338					bile acid biosynthetic process|cellular lipid metabolic process|cellular response to cholesterol|cellular response to glucose stimulus|cholesterol catabolic process|cholesterol homeostasis|regulation of bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	cholesterol 7-alpha-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		all_lung(136;0.0271)|Lung NSC(129;0.0351)|all_epithelial(80;0.0554)				CATTCAGTTCTGCTTGACTCA	0.338									Neonatal_Giant_Cell_Hepatitis				31	110					0	0	0.008361	0	0		C	59407090	C	C	59407090	2	2	164	1	0	0	0	0	0	0	0	1	4199	1567	55	3		3	CYP7A1	8	59407090	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	39706727	59407090	86956932	77	89116											
CYP7B1	9420	broad.mit.edu	37	chr8	65509449	65509449	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgaaaaaggtggttttcTtcttaccatcttctataaaa	12	18	5	6	0	4	1	0	1	4	0	4	1	4	1	1	2	1	1	1	2	6	9			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr8:65509449T>G	uc003xvj.2	-	6	1475	c.1271A>C	c.(1270-1272)AAG>ACG	p.K424T		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	424					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				GGTGGTTTTCTTCTTACCATC	0.348													8	95					0	0	0.00308	0	0		G	65509449	G	G	65509449	3	3	164	1	0	0	0	0	1	0	0	0	4200	1609	56	5	253	5	CYP7B1	8	65509449	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	6102359	65509449	80854573	78	89117											
ANGPT1	284	broad.mit.edu	37	chr8	108334272	108334272	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgacgagtaaccaagccTtgaaggttctctttctcttc	8	15	8	10	1	2	2	0	2	2	0	5	3	2	2	2	1	2	3	2	1	3	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr8:108334272T>C	uc003ymn.2	-	4	1128	c.660A>G	c.(658-660)CAA>CAG	p.Q220Q	ANGPT1_uc011lhv.1_Silent_p.Q20Q|ANGPT1_uc003ymo.2_Silent_p.Q220Q|ANGPT1_uc003ymp.3_Silent_p.Q20Q	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	220	Potential.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TAACCAAGCCTTGAAGGTTCT	0.393													39	122					0	0	0.019004	0	0		C	108334272	C	C	108334272	2	2	164	1	0	0	0	0	0	0	0	1	610	1606	56	3		3	ANGPT1	8	108334272	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	42824823	108334272	38029750	79	89118											
PLEC	5339	broad.mit.edu	37	chr8	144995359	144995359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcagaaggcacaggcccGtctcggggtcctccacgcag	7	5	15	14	3	1	1	0	0	1	1	4	1	3	1	3	5	0	3	3	5	1	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr8:144995359G>A	uc003zaf.1	-	32	9211	c.9041C>T	c.(9040-9042)ACG>ATG	p.T3014M	PLEC_uc003zab.1_Missense_Mutation_p.T2877M|PLEC_uc003zac.1_Missense_Mutation_p.T2881M|PLEC_uc003zad.2_Missense_Mutation_p.T2877M|PLEC_uc003zae.1_Missense_Mutation_p.T2845M|PLEC_uc003zag.1_Missense_Mutation_p.T2855M|PLEC_uc003zah.2_Missense_Mutation_p.T2863M|PLEC_uc003zaj.2_Missense_Mutation_p.T2904M	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3014	Globular 2.|Plectin 5.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCACAGGCCCGTCTCGGGGTC	0.647													7	86					0	0	0.006214	0	0		A	144995359	A	A	144995359	3	1	164	1	0	0	0	0	1	0	0	0	12071	1145	40	1	5017	1	PLEC	8	144995359	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	36661087	144995359	1368663	80	89119											
MPDZ	8777	broad.mit.edu	37	chr9	13188944	13188944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttttcagcaatgccgccagGcaccaaagaacgaattataa	15	8	7	11	2	1	1	1	0	0	1	1	2	1	1	3	1	3	2	3	1	6	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:13188944G>A	uc010mia.1	-	16	2260	c.2203C>T	c.(2203-2205)CCT>TCT	p.P735S	MPDZ_uc010mhy.2_Missense_Mutation_p.P735S|MPDZ_uc010mhz.2_Missense_Mutation_p.P735S|MPDZ_uc011lmn.1_Missense_Mutation_p.P735S|MPDZ_uc003zlb.3_Missense_Mutation_p.P735S	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	735	PDZ 5.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		ATGCCGCCAGGCACCAAAGAA	0.428													4	127					0	0	0.009096	0	0		A	13188944	A	A	13188944	3	1	164	1	0	0	0	0	1	0	0	0	9740	1203	42	2	4042	2	MPDZ	9	13188944	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08		13188944	128024487	81	89120											
RUSC2	9853	broad.mit.edu	37	chr9	35546783	35546783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagcaccaagagtaggagtCgggatggaagaggccctgga	13	4	16	8	1	0	2	0	0	0	2	1	6	0	6	2	5	1	2	2	5	3	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:35546783C>T	uc003zww.2	+	2	520	c.265C>T	c.(265-267)CGG>TGG	p.R89W	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.R89W	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	89						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GAGTAGGAGTCGGGATGGAAG	0.562													9	120					0	0	0.004482	0	0		T	35546783	T	T	35546783	3	4	164	1	0	0	0	0	1	0	0	0	13776	875	31	1	267	1	RUSC2	9	35546783	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	22357839	35546783	105666648	82	89121											
VPS13A	23230	broad.mit.edu	37	chr9	79952416	79952416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggccacctatcctgctccGaaatcttcttccttacaaaa	10	12	5	14	1	2	0	0	0	2	0	5	1	5	0	5	1	2	1	5	1	5	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:79952416G>A	uc004akr.2	+	47	6601	c.6341G>A	c.(6340-6342)CGA>CAA	p.R2114Q	VPS13A_uc004akp.3_Missense_Mutation_p.R2114Q|VPS13A_uc004akq.3_Missense_Mutation_p.R2114Q|VPS13A_uc004aks.2_Missense_Mutation_p.R2075Q|VPS13A_uc004akt.2_Missense_Mutation_p.R454Q	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2114					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATCCTGCTCCGAAATCTTCTT	0.333													13	116					0	0	0.020292	0	0		A	79952416	A	A	79952416	3	1	164	1	0	0	0	0	1	0	0	0	17215	1058	37	1	6527	1	VPS13A	9	79952416	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	44405633	79952416	61261015	83	89122											
NTRK2	4915	broad.mit.edu	37	chr9	87482253	87482253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catcttcttcggaaggtggcCcagatgctgtcattattgga	8	13	11	9	1	3	1	1	0	2	1	4	3	3	3	1	4	1	1	1	4	2	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:87482253C>T	uc004aoa.1	+	15	2430	c.1492C>T	c.(1492-1494)CCA>TCA	p.P498S	NTRK2_uc004any.1_Missense_Mutation_p.P498S|NTRK2_uc004anz.1_Missense_Mutation_p.P514S|NTRK2_uc011lsz.1_Missense_Mutation_p.P514S|NTRK2_uc011lta.1_Missense_Mutation_p.P498S|NTRK2_uc004aoc.2_Missense_Mutation_p.P49S	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	498	Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						GGAAGGTGGCCCAGATGCTGT	0.493										TSP Lung(25;0.17)			30	129					0	0	0.007291	0	0		T	87482253	T	T	87482253	3	4	164	1	0	0	0	0	1	0	0	0	10726	623	22	4	1632	4	NTRK2	9	87482253	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	7529837	87482253	53731178	84	89123											
ABCA1	19	broad.mit.edu	37	chr9	107568522	107568522	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accccctgaaagtgactcacTtgtggaggaggcagcccccc	9	6	11	15	0	1	2	1	2	0	0	1	4	1	4	5	3	1	1	5	3	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:107568522T>C	uc004bcl.2	-	31	4777	c.4464A>G	c.(4462-4464)CAA>CAG	p.Q1488Q		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1488	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGTGACTCACTTGTGGAGGAG	0.567													7	90					0	0	0.00308	0	0		C	107568522	C	C	107568522	2	2	164	1	0	0	0	0	0	0	0	1	28	1623	56	3		3	ABCA1	9	107568522	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	20086269	107568522	33644909	85	89124											
ASTN2	23245	broad.mit.edu	37	chr9	119488112	119488112	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggaaagtggatgatgcagGtgagctctgagccatagagg	11	8	17	5	0	1	4	0	3	1	1	1	6	1	6	1	4	3	2	1	4	2	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:119488112G>T	uc004bjs.1	-	16	2845	c.2744C>A	c.(2743-2745)ACC>AAC	p.T915N	ASTN2_uc004bjr.1_Missense_Mutation_p.T911N|ASTN2_uc004bjt.1_Missense_Mutation_p.T864N	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	915	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GATGATGCAGGTGAGCTCTGA	0.572													40	133					1.96642e-18	2.27975e-18	0.027894	1	0		T	119488112	T	T	119488112	3	4	164	1	0	0	0	0	1	0	0	0	1066	1261	44	5	1539	5	ASTN2	9	119488112	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	11919590	119488112	21725319	86	89125											
WDR38	401551	broad.mit.edu	37	chr9	127619662	127619662	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcaaagtctgggactgcaAcacaggaaagtgccttgaga	13	7	13	8	0	2	1	1	1	1	1	2	4	2	3	1	3	3	1	1	3	3	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:127619662A>G	uc004box.2	+	8	844	c.788A>G	c.(787-789)AAC>AGC	p.N263S	WDR38_uc011lzn.1_Missense_Mutation_p.N252S|WDR38_uc011lzo.1_Missense_Mutation_p.N263S|WDR38_uc011lzp.1_Missense_Mutation_p.N214S	NM_001045476	NP_001038941	Q5JTN6	WDR38_HUMAN	WD repeat domain 38	263	WD 6.										0						TGGGACTGCAACACAGGAAAG	0.592													14	88					0	0	0.016723	0	0		G	127619662	G	G	127619662	3	3	164	1	0	0	0	0	1	0	0	0	17318	43	2	3	818	3	WDR38	9	127619662	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	8131550	127619662	13593769	87	89126											
SCAI	286205	broad.mit.edu	37	chr9	127765441	127765441	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggctgaaggttggtttGtagagcagatacttgtgggg	8	12	17	4	0	0	3	0	1	0	2	0	3	0	3	0	5	3	6	0	5	3	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr9:127765441G>C	uc004bpe.2	-	11	1098	c.1017C>G	c.(1015-1017)TAC>TAG	p.Y339*	SCAI_uc004bpd.2_Nonsense_Mutation_p.Y362*|SCAI_uc010mwu.2_RNA	NM_001144877	NP_001138349	Q8N9R8	SCAI_HUMAN	suppressor of cancer cell invasion isoform 2	339					negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|integral to membrane|nucleus	protein binding|transcription corepressor activity			ovary(2)|breast(2)|central_nervous_system(1)	5						AGGTTGGTTTGTAGAGCAGAT	0.393													6	332					0	0	0.00308	0	0		C	127765441	C	C	127765441	4	2	164	1	0	0	0	0	0	1	0	0	13894	1372	48	5	835	5	SCAI	9	127765441	Nonsense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	145779	127765441	13447990	88	89127											
CACNB2	783	broad.mit.edu	37	chr10	18789832	18789833	+	Missense_Mutation	DNP	GG	TT	TT																															agtcaaactagaaaacatgaGgctgcagcatgaacagagag																										TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:18789832_18789833GG>TT	uc001ipr.2	+	5	608_609	c.548_549GG>TT	c.(547-549)AGG>ATT	p.R183I	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.R183I|CACNB2_uc001ipt.2_Missense_Mutation_p.R183I|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Missense_Mutation_p.R155I|CACNB2_uc001ipv.2_Missense_Mutation_p.R155I|CACNB2_uc009xka.1_Missense_Mutation_p.R155I|CACNB2_uc001ipw.2_Missense_Mutation_p.R128I|CACNB2_uc001ipx.2_Missense_Mutation_p.R128I|CACNB2_uc009xkb.1_Missense_Mutation_p.R129I|CACNB2_uc010qcm.1_Missense_Mutation_p.R129I|CACNB2_uc001ipz.2_Missense_Mutation_p.R129I|CACNB2_uc001ipy.2_Missense_Mutation_p.R129I|CACNB2_uc010qcn.1_Missense_Mutation_p.R135I|CACNB2_uc010qco.1_Missense_Mutation_p.R135I|CACNB2_uc001iqa.2_Missense_Mutation_p.R135I	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	183	SH3.				axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GAAAACATGAGGCTGCAGCATG	0.406													9	68					0	0	0.004672	0	0		TT	18789833	TT	TT	18789832	3	4	164	1	0	0	0	0	1	0	0	0	2556	1000	35	5	786	5	CACNB2	10	18789832	Missense_Mutation	DNP	GG	TCGA-D7-5579-01A-01D-1600-08		18789832	116744915	89	89128											
CACNB2	783	broad.mit.edu	37	chr10	18795432	18795432	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaattcatcatccagtttggGtgacatagtacctagttcca	12	13	7	9	0	2	1	2	1	0	0	4	1	4	1	3	1	1	3	3	1	4	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:18795432G>T	uc001ipr.2	+	6	686	c.626G>T	c.(625-627)GGT>GTT	p.G209V	CACNB2_uc009xjz.1_Intron|CACNB2_uc001ips.2_Missense_Mutation_p.G209V|CACNB2_uc001ipt.2_Missense_Mutation_p.G209V|CACNB2_uc010qcl.1_RNA|CACNB2_uc001ipu.2_Missense_Mutation_p.G181V|CACNB2_uc001ipv.2_Missense_Mutation_p.G181V|CACNB2_uc009xka.1_Missense_Mutation_p.G181V|CACNB2_uc001ipw.2_Missense_Mutation_p.G154V|CACNB2_uc001ipx.2_Missense_Mutation_p.G154V|CACNB2_uc009xkb.1_Missense_Mutation_p.G155V|CACNB2_uc010qcm.1_Missense_Mutation_p.G155V|CACNB2_uc001ipz.2_Missense_Mutation_p.G155V|CACNB2_uc001ipy.2_Missense_Mutation_p.G155V|CACNB2_uc010qcn.1_Missense_Mutation_p.G161V|CACNB2_uc010qco.1_Missense_Mutation_p.G161V|CACNB2_uc001iqa.2_Missense_Mutation_p.G161V	NM_201596	NP_963890	Q08289	CACB2_HUMAN	calcium channel, voltage-dependent, beta 2	209					axon guidance|neuromuscular junction development	integral to plasma membrane|sarcolemma|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			large_intestine(1)|central_nervous_system(1)|skin(1)	3					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TCCAGTTTGGGTGACATAGTA	0.353													7	76					1.06961e-07	1.15738e-07	0.00308	1	0		T	18795432	T	T	18795432	3	4	164	1	0	0	0	0	1	0	0	0	2556	1261	44	5	868	5	CACNB2	10	18795432	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	5600	18795432	116739315	90	89129											
NEBL	10529	broad.mit.edu	37	chr10	21097588	21097588	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcctatagtgactcgcctttTctatattggagggaaaatat	11	14	9	7	1	1	1	0	1	1	0	2	3	1	3	2	2	0	0	2	2	7	8			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:21097588T>A	uc001iqi.2	-	26	3009	c.2612A>T	c.(2611-2613)GAA>GTA	p.E871V	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	871	Linker.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						ACTCGCCTTTTCTATATTGGA	0.398													22	185					0	0	0.024334	0	0		A	21097588	A	A	21097588	3	1	164	1	0	0	0	0	1	0	0	0	10322	1797	62	5	444	5	NEBL	10	21097588	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	2302156	21097588	114437159	91	89130											
RUFY2	55680	broad.mit.edu	37	chr10	70105583	70105583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgacaggaatcacaaaccCgtactggttttggtgaagaa	14	9	10	8	1	1	3	1	2	0	1	1	4	1	4	1	3	2	2	1	3	5	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:70105583C>T	uc001job.2	-	18	2195	c.1868G>A	c.(1867-1869)CGG>CAG	p.R623Q	RUFY2_uc001jnz.1_RNA|RUFY2_uc001joa.2_Missense_Mutation_p.R178Q	NM_017987	NP_060457	Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain-containing 2 isoform a	637	FYVE-type.					nucleus	metal ion binding			ovary(1)	1						ATCACAAACCCGTACTGGTTT	0.408													25	170					0	0	0.024334	0	0		T	70105583	T	T	70105583	3	4	164	1	0	0	0	0	1	0	0	0	13764	652	23	1	61	1	RUFY2	10	70105583	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	49007995	70105583	65429164	92	89131											
KIAA1274	27143	broad.mit.edu	37	chr10	72291092	72291092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacctgtgcttttcctgcGtgcagatgaggactttgtgt	6	14	13	8	1	0	2	0	1	0	1	1	4	1	4	2	2	4	2	2	2	1	3	rs140490112		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:72291092G>A	uc001jrd.3	+	5	796	c.515G>A	c.(514-516)CGT>CAT	p.R172H		NM_014431	NP_055246	Q9ULE6	PALD_HUMAN	KIAA1274	172										ovary(2)|central_nervous_system(1)	3						CTTTTCCTGCGTGCAGATGAG	0.592													15	95					0	0	0.024245	0	0		A	72291092	A	A	72291092	3	1	164	1	0	0	0	0	1	0	0	0	8236	1145	40	1	529	1	KIAA1274	10	72291092	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	2185509	72291092	63243655	93	89132											
C10orf2	56652	broad.mit.edu	37	chr10	102748498	102748498	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggaggttcagctggctgaTacaatgtttggccttaccaa	10	11	12	8	0	1	1	1	1	0	0	1	3	1	2	2	4	3	4	2	4	4	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:102748498T>C	uc001ksf.2	+	1	1206	c.531T>C	c.(529-531)GAT>GAC	p.D177D	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Silent_p.D177D|C10orf2_uc001ksi.2_Intron|C10orf2_uc010qpv.1_Intron|C10orf2_uc001ksh.2_Intron	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	177					cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		AGCTGGCTGATACAATGTTTG	0.537													24	125					0	0	0.014323	0	0		C	102748498	C	C	102748498	2	2	164	1	0	0	0	0	0	0	0	1	1600	1403	49	3		3	C10orf2	10	102748498	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	30457406	102748498	32786249	94	89133											
HABP2	3026	broad.mit.edu	37	chr10	115341635	115341635	+	Missense_Mutation	SNP	A	T	T	1	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	atctttcttgtgtcccacagAcgttgcctacccagaggaaa	10	11	8	12	1	2	2	0	0	2	2	3	3	3	3	3	1	2	1	3	1	2	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:115341635A>T	uc001lai.3	+	9	942	c.839A>T	c.(838-840)GAC>GTC	p.D280V	HABP2_uc010qrz.1_Intron	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	280					cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		TGTCCCACAGACGTTGCCTAC	0.527													23	233					0	0	0.014323	0	0		T	115341635	T	T	115341635	3	4	164	1	0	0	0	0	1	0	0	0	6954	289	10	5	873	5	HABP2	10	115341635	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	12593137	115341635	20193112	95	89134											
HABP2	3026	broad.mit.edu	37	chr10	115341702	115341702	+	Silent	SNP	A	T	T	1	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	ccggggtttgactcctgtggAaagactgagatagcagagag	11	8	15	7	1	0	4	0	2	0	3	1	7	1	5	2	3	1	2	2	3	2	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr10:115341702A>T	uc001lai.3	+	9	1009	c.906A>T	c.(904-906)GGA>GGT	p.G302G	HABP2_uc010qrz.1_Intron	NM_004132	NP_004123	Q14520	HABP2_HUMAN	hyaluronan binding protein 2 preproprotein	302					cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		ACTCCTGTGGAAAGACTGAGA	0.532													20	195					0	0	0.008871	0	0		T	115341702	T	T	115341702	2	4	164	1	0	0	0	0	0	0	0	1	6954	233	9	5		5	HABP2	10	115341702	Silent	SNP	A	TCGA-D7-5579-01A-01D-1600-08	67	115341702	20193045	96	89135											
MUC6	4588	broad.mit.edu	37	chr11	1017878	1017878	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgagtggatggaggcagaAgtggccatctgtgcatgggt	9	10	17	5	0	1	2	0	1	1	1	1	4	1	4	1	5	1	2	1	5	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:1017878A>G	uc001lsw.2	-	31	4974	c.4923T>C	c.(4921-4923)ACT>ACC	p.T1641T		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1641	Pro-rich.|Thr-rich.|1; truncated.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TGGAGGCAGAAGTGGCCATCT	0.562													10	491					0	0	0.028581	0	0		G	1017878	G	G	1017878	2	3	164	1	0	0	0	0	0	0	0	1	9998	59	3	3		3	MUC6	11	1017878	Silent	SNP	A	TCGA-D7-5579-01A-01D-1600-08		1017878	133988638	97	89136											
OR52K1	390036	broad.mit.edu	37	chr11	4510935	4510935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatgcaccgtgtagcccgcCatgctgcccctcgtgtccac	5	9	9	18	3	1	0	1	0	0	0	3	0	2	0	6	0	4	3	6	0	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:4510935C>T	uc001lza.1	+	1	805	c.805C>T	c.(805-807)CAT>TAT	p.H269Y		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		TGTAGCCCGCCATGCTGCCCC	0.502													38	169					0	0	0.030466	0	0		T	4510935	T	T	4510935	3	4	164	1	0	0	0	0	1	0	0	0	11142	594	21	4	807	4	OR52K1	11	4510935	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	3493057	4510935	130495581	98	89137											
CNGA4	1262	broad.mit.edu	37	chr11	6265440	6265440	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggatgatctacagaccaAgtttgctcgcctcctggctg	7	11	11	12	1	1	2	0	1	1	1	3	3	2	3	3	2	2	4	3	2	2	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:6265440A>C	uc001mco.2	+	6	1636	c.1529A>C	c.(1528-1530)AAG>ACG	p.K510T	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	510	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTACAGACCAAGTTTGCTCGC	0.587													5	65					0	0	0.00308	0	0		C	6265440	C	C	6265440	3	2	164	1	0	0	0	0	1	0	0	0	3602	72	3	5	1551	5	CNGA4	11	6265440	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	1754505	6265440	128741076	99	89138											
EIF3F	8665	broad.mit.edu	37	chr11	8016537	8016537	+	Missense_Mutation	SNP	A	G	G	1	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	caacttccatagttgacctgAtcatgaagacctgctttagc	11	12	7	11	0	1	4	1	3	0	1	2	4	2	4	3	0	3	2	3	0	4	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:8016537A>G	uc001mfw.2	+	6	787	c.754A>G	c.(754-756)ATC>GTC	p.I252V	EIF3F_uc010rbj.1_Missense_Mutation_p.I103V	NM_003754	NP_003745	O00303	EIF3F_HUMAN	eukaryotic translation initiation factor 3,	252						cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(1)	1				Epithelial(150;1.44e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AGTTGACCTGATCATGAAGAC	0.527													8	102					0	0	0.00308	0	0		G	8016537	G	G	8016537	3	3	164	1	0	0	0	0	1	0	0	0	5024	333	12	3	776	3	EIF3F	11	8016537	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	1751097	8016537	126989979	100	89139											
ST5	6764	broad.mit.edu	37	chr11	8752389	8752389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	accggtacgggtcagcaagaCgccccgggggccagctgctg	7	4	16	14	4	1	1	1	0	0	1	1	1	1	1	4	4	4	4	4	4	2	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:8752389C>T	uc001mgt.2	-	3	634	c.448G>A	c.(448-450)GTC>ATC	p.V150I	ST5_uc009yfr.2_Intron|ST5_uc001mgu.2_Intron|ST5_uc001mgv.2_Missense_Mutation_p.V150I|ST5_uc010rbq.1_Intron|ST5_uc001mgw.1_Missense_Mutation_p.V150I	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	150					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GTCAGCAAGACGCCCCGGGGG	0.682													15	56					0	0	0.024245	0	0		T	8752389	T	T	8752389	3	4	164	1	0	0	0	0	1	0	0	0	15245	536	19	1	3037	1	ST5	11	8752389	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	735852	8752389	126254127	101	89140											
ANO3	63982	broad.mit.edu	37	chr11	26552850	26552850	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctagaggagtcagactgctAtactggccccttcagccgtg	8	9	11	13	1	2	2	2	0	0	2	2	3	2	3	4	2	3	1	4	2	3	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:26552850A>C	uc001mqt.3	+	8	981	c.836A>C	c.(835-837)TAT>TCT	p.Y279S	ANO3_uc010rdr.1_Missense_Mutation_p.Y263S|ANO3_uc010rds.1_Missense_Mutation_p.Y118S|ANO3_uc010rdt.1_Missense_Mutation_p.Y133S	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	279	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TCAGACTGCTATACTGGCCCC	0.433													25	142					0	0	0.030593	0	0		C	26552850	C	C	26552850	3	2	164	1	0	0	0	0	1	0	0	0	698	449	16	5	866	5	ANO3	11	26552850	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	17800461	26552850	108453666	102	89141											
OR8I2	120586	broad.mit.edu	37	chr11	55860973	55860973	+	Missense_Mutation	SNP	A	C	C	1	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	cccctatgtactttttcctgAgcaatttagcatttattgac	9	17	5	10	0	0	2	0	2	0	0	1	2	1	2	3	0	3	3	3	0	5	9			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:55860973A>C	uc010rix.1	+	1	190	c.190A>C	c.(190-192)AGC>CGC	p.S64R		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CTTTTTCCTGAGCAATTTAGC	0.393													6	239					0	0	0.021553	0	0		C	55860973	C	C	55860973	3	2	164	1	0	0	0	0	1	0	0	0	11259	304	11	5	192	5	OR8I2	11	55860973	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	29308123	55860973	79145543	103	89142											
MPEG1	219972	broad.mit.edu	37	chr11	58978631	58978631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataggacacttggcatccatCgctgatgagggctgggtgct	8	10	14	9	1	0	2	0	2	0	0	2	3	1	3	1	4	1	4	1	4	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:58978631C>T	uc001nnu.3	-	1	1864	c.1708G>A	c.(1708-1710)GAT>AAT	p.D570N		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	570	Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				TGGCATCCATCGCTGATGAGG	0.607													21	112					0	0	0.014323	0	0		T	58978631	T	T	58978631	3	4	164	1	0	0	0	0	1	0	0	0	9741	884	31	1	446	1	MPEG1	11	58978631	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	3117658	58978631	76027885	104	89143											
SHANK2	22941	broad.mit.edu	37	chr11	70506018	70506018	+	Missense_Mutation	SNP	A	G	G	1	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	ccaggtactgtagggctgggAaagccggtgttggtgtgaat	8	10	17	6	1	0	1	0	1	0	0	0	2	0	2	2	5	2	4	2	5	4	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:70506018A>G	uc001oqc.2	-	14	2054	c.1976T>C	c.(1975-1977)TTC>TCC	p.F659S	SHANK2_uc010rqn.1_Missense_Mutation_p.F71S|SHANK2_uc001opz.2_Missense_Mutation_p.F71S|uc009ysn.1_Intron|SHANK2_uc010rqp.1_Missense_Mutation_p.F71S	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	280	PDZ.				intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			TAGGGCTGGGAAAGCCGGTGT	0.557													5	45					0	0	0.02938	0	0		G	70506018	G	G	70506018	3	3	164	1	0	0	0	0	1	0	0	0	14290	246	9	3	3613	3	SHANK2	11	70506018	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	11527387	70506018	64500498	105	89144											
SIK2	23235	broad.mit.edu	37	chr11	111594234	111594234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttaggctccagcagaagcGactctttcttcagaagcagt	11	11	9	10	1	3	2	1	0	2	2	4	3	4	2	1	1	3	3	1	1	3	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:111594234G>A	uc001plt.2	+	15	2280	c.2162G>A	c.(2161-2163)CGA>CAA	p.R721Q		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	721					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						CAGCAGAAGCGACTCTTTCTT	0.428													6	154					0	0	0.021553	0	0		A	111594234	A	A	111594234	3	1	164	1	0	0	0	0	1	0	0	0	14343	1058	37	1	2220	1	SIK2	11	111594234	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	41088216	111594234	23412282	106	89145											
TTC12	54970	broad.mit.edu	37	chr11	113222820	113222820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccaaggtaagcagctcctCggctctgtgccagtgcattg	7	10	11	13	1	1	0	0	0	1	0	4	0	3	0	3	2	4	5	3	2	2	2	rs147647661		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:113222820C>T	uc001pnu.2	+	16	1442	c.1337C>T	c.(1336-1338)TCG>TTG	p.S446L	TTC12_uc001pnv.2_Missense_Mutation_p.S452L|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Missense_Mutation_p.S296L	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	446							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		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)		AGCAGCTCCTCGGCTCTGTGC	0.542													10	58					0	0	0.006214	0	0		T	113222820	T	T	113222820	3	4	164	1	0	0	0	0	1	0	0	0	16705	893	31	1	1395	1	TTC12	11	113222820	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	1628586	113222820	21783696	107	89146											
OR6T1	219874	broad.mit.edu	37	chr11	123813599	123813599	+	Missense_Mutation	SNP	A	C	C	1	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	tcctttgacttgtgaccctcAgtttcatcacagcagtgagc	8	13	8	12	0	3	3	3	3	0	0	4	3	4	3	2	0	2	2	2	0	0	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr11:123813599A>C	uc010sab.1	-	1	947	c.947T>G	c.(946-948)CTG>CGG	p.L316R		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	316	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0401)		TGTGACCCTCAGTTTCATCAC	0.428													18	133					0	0	0.006122	0	0		C	123813599	C	C	123813599	3	2	164	1	0	0	0	0	1	0	0	0	11229	188	7	5	27	5	OR6T1	11	123813599	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	10590779	123813599	11192917	108	89147											
CLEC7A	64581	broad.mit.edu	37	chr12	10271125	10271125	+	Missense_Mutation	SNP	A	G	G	1	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	cagttggtcataaatgactgAcacgtgaatccatacacaat	15	10	7	9	1	1	3	1	3	0	0	2	3	2	3	1	1	1	1	1	1	5	3	rs144851220		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:10271125A>G	uc001qxg.2	-	6	863	c.676T>C	c.(676-678)TCA>CCA	p.S226P	CLEC7A_uc001qxe.3_RNA|CLEC7A_uc001qxf.2_Missense_Mutation_p.S180P|CLEC7A_uc001qxh.2_Missense_Mutation_p.V140A|CLEC7A_uc001qxi.2_Missense_Mutation_p.V186A|CLEC7A_uc001qxj.2_Missense_Mutation_p.S147P|CLEC7A_uc009zhg.1_RNA|CLEC7A_uc001qxk.1_RNA	NM_197947	NP_922938	Q9BXN2	CLC7A_HUMAN	dendritic cell-associated C-type lectin 1	226	C-type lectin.|Extracellular (Potential).				carbohydrate mediated signaling|defense response to protozoan|inflammatory response|innate immune response|phagocytosis, recognition|T cell activation	cytoplasm|integral to membrane	metal ion binding|MHC protein binding|sugar binding			central_nervous_system(1)	1						TAAATGACTGACACGTGAATC	0.378													19	142					0	0	0.006122	0	0		G	10271125	G	G	10271125	3	3	164	1	0	0	0	0	1	0	0	0	3524	275	10	3	71	3	CLEC7A	12	10271125	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08		10271125	123580770	109	89148											
LRRK2	120892	broad.mit.edu	37	chr12	40745528	40745528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cttaaatactgaaggatacaCttctgaggtaaatccaaatg	16	11	7	7	0	1	2	0	2	1	0	2	3	2	3	1	2	2	1	1	2	8	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:40745528C>T	uc001rmg.3	+	44	6690	c.6569C>T	c.(6568-6570)ACT>ATT	p.T2190I	LRRK2_uc009zjw.2_Missense_Mutation_p.T1028I|LRRK2_uc001rmi.2_Missense_Mutation_p.T1023I	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	2190					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				GAAGGATACACTTCTGAGGTA	0.383													5	48					0	0	0.014758	0	0		T	40745528	T	T	40745528	3	4	164	1	0	0	0	0	1	0	0	0	9051	565	20	4	6743	4	LRRK2	12	40745528	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	30474403	40745528	93106367	110	89149											
PDZRN4	29951	broad.mit.edu	37	chr12	41966968	41966968	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgacctccaccaaagccaAaaccactgagcaaggttgta	14	6	8	13	1	0	1	0	1	0	0	2	2	1	1	5	1	3	3	5	1	5	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:41966968A>C	uc010skn.1	+	10	1858	c.1790A>C	c.(1789-1791)AAA>ACA	p.K597T	PDZRN4_uc001rmq.3_Missense_Mutation_p.K538T|PDZRN4_uc009zjz.2_Missense_Mutation_p.K536T|PDZRN4_uc001rmr.2_Missense_Mutation_p.K423T	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	796							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				ACCAAAGCCAAAACCACTGAG	0.498													22	190					0	0	0.016522	0	0		C	41966968	C	C	41966968	3	2	164	1	0	0	0	0	1	0	0	0	11729	14	1	5	2498	5	PDZRN4	12	41966968	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	1221440	41966968	91884927	111	89150											
ADCY6	112	broad.mit.edu	37	chr12	49168189	49168189	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccactggacccttaccatgTtggcaatggcagaagtaaac	12	8	9	12	0	0	1	0	0	0	1	0	2	0	2	3	3	2	4	3	3	5	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:49168189T>C	uc001rsh.3	-	13	2939	c.2279A>G	c.(2278-2280)AAC>AGC	p.N760S	ADCY6_uc001rsj.3_Missense_Mutation_p.N760S|ADCY6_uc001rsi.3_Missense_Mutation_p.N760S|ADCY6_uc010slw.1_5'UTR	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	760	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						CCTTACCATGTTGGCAATGGC	0.373													8	71					0	0	0.008291	0	0		C	49168189	C	C	49168189	3	2	164	1	0	0	0	0	1	0	0	0	298	1725	60	3	1263	3	ADCY6	12	49168189	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	7201221	49168189	84683706	112	89151											
AQP2	359	broad.mit.edu	37	chr12	50344542	50344542	+	Translation_Start_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccttgagaaagagagcgatAgagtgcgagagcgagtgccc	12	5	16	8	3	0	4	0	1	0	4	0	9	0	4	2	0	4	0	2	0	2	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:50344542A>G	uc001rvn.2	+	1	19	c.-71A>G	c.(-73--69)ATAGA>ATGGA			NM_000486	NP_000477	P41181	AQP2_HUMAN	aquaporin 2						cellular response to copper ion|cellular response to mercury ion|excretion	apical plasma membrane|integral to membrane|transport vesicle membrane	glycerol transmembrane transporter activity|water channel activity			ovary(2)	2						AGAGAGCGATAGAGTGCGAGA	0.637													7	100					0	0	0.02938	0	0		G	50344542	G	G	50344542	1	3	164	1	0	0	0	0	0	0	0	0	826	435	15	3		3	AQP2	12	50344542	Translation_Start_Site	SNP	A	TCGA-D7-5579-01A-01D-1600-08	1176353	50344542	83507353	113	89152											
CBX5	23468	broad.mit.edu	37	chr12	54651321	54651321	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaagcctttccacttcagTagatattccacttgtccctt	10	14	5	12	0	1	1	1	0	0	1	4	2	4	1	4	0	1	1	4	0	4	7			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:54651321T>G	uc001sfh.3	-	2	432	c.114A>C	c.(112-114)CTA>CTC	p.L38L	CBX5_uc001sfk.3_Silent_p.L38L|CBX5_uc001sfi.3_Silent_p.L38L|CBX5_uc001sfj.3_Silent_p.L38L	NM_001127322	NP_001120794	P45973	CBX5_HUMAN	heterochromatin protein 1-alpha	38	Chromo 1.				blood coagulation|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|nuclear centromeric heterochromatin|nuclear envelope|nucleolus|transcriptional repressor complex	methylated histone residue binding|protein binding, bridging|repressing transcription factor binding				0						TCCACTTCAGTAGATATTCCA	0.468													11	145					0	0	0.013537	0	0		G	54651321	G	G	54651321	2	3	164	1	0	0	0	0	0	0	0	1	2724	1625	57	5		5	CBX5	12	54651321	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	4306779	54651321	79200574	114	89153											
NEUROD4	58158	broad.mit.edu	37	chr12	55420235	55420235	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctggaaatgtcaaaaacTtttgtaaaatccaaggagat	17	11	8	5	0	2	1	1	0	1	1	3	3	3	2	1	2	1	1	1	2	6	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:55420235T>G	uc001sgp.3	+	2	390	c.12T>G	c.(10-12)ACT>ACG	p.T4T		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	4					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						TGTCAAAAACTTTTGTAAAAT	0.378													12	48					0	0	0.020292	0	0		G	55420235	G	G	55420235	2	3	164	1	0	0	0	0	0	0	0	1	10369	1596	56	5		5	NEUROD4	12	55420235	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	768914	55420235	78431660	115	89154											
OR6C2	341416	broad.mit.edu	37	chr12	55846327	55846327	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctttggagcaacagaattTtttctcttggcagccatgtc	8	15	8	10	0	2	1	0	0	2	1	4	2	2	2	1	2	3	2	1	2	2	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:55846327T>C	uc001sgz.1	+	1	330	c.330T>C	c.(328-330)TTT>TTC	p.F110F		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CAACAGAATTTTTTCTCTTGG	0.403													16	209					0	0	0.006122	0	0		C	55846327	C	C	55846327	2	2	164	1	0	0	0	0	0	0	0	1	11210	1838	64	3		3	OR6C2	12	55846327	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	426092	55846327	78005568	116	89155											
CD63	967	broad.mit.edu	37	chr12	56120706	56120706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatagccagcaatggctgCggccacctccaccaacatga	12	5	8	16	1	0	1	0	1	0	0	1	1	1	1	5	2	4	2	5	2	3	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:56120706C>T	uc001shm.2	-	3	394	c.298G>A	c.(298-300)GCA>ACA	p.A100T	CD63_uc009znz.2_Missense_Mutation_p.A77T|CD63_uc001shn.2_Missense_Mutation_p.A100T|CD63_uc001sho.2_Missense_Mutation_p.A100T|CD63_uc001shp.2_Missense_Mutation_p.A100T	NM_001780	NP_001771	P08962	CD63_HUMAN	CD63 antigen isoform A	100	Helical; (Potential).				platelet activation|platelet degranulation	integral to plasma membrane|late endosome membrane|lysosomal membrane|platelet dense granule membrane					0						GCAATGGCTGCGGCCACCTCC	0.512													19	177					0	0	0.012319	0	0		T	56120706	T	T	56120706	3	4	164	1	0	0	0	0	1	0	0	0	3032	768	27	1	438	1	CD63	12	56120706	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	274379	56120706	77731189	117	89156											
PPFIA2	8499	broad.mit.edu	37	chr12	81719569	81719569	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctactttttctttagtcTtcgatccttctcagcttgag	7	18	5	11	1	3	1	1	1	3	0	6	2	4	1	2	0	3	1	2	0	3	8			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:81719569T>G	uc001szo.1	-	22	2790	c.2629A>C	c.(2629-2631)AGA>CGA	p.R877R	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	803										ovary(3)|lung(2)|pancreas(1)	6						TTCTTTAGTCTTCGATCCTTC	0.393													6	33					0	0	0.021553	0	0		G	81719569	G	G	81719569	2	3	164	1	0	0	0	0	0	0	0	1	12329	1617	56	5		5	PPFIA2	12	81719569	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08	25598863	81719569	52132326	118	89157											
RAD9B	144715	broad.mit.edu	37	chr12	110943579	110943579	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcaaattgggaatgaaggTaaatataagtggccctggtt	14	11	12	4	0	0	1	0	1	0	0	0	2	0	2	1	4	1	3	1	4	7	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr12:110943579T>A	uc001trf.3	+	3	411	c.273_splice	c.e3+2	p.K91_splice	RAD9B_uc001trg.3_Splice_Site_p.K91_splice|RAD9B_uc010sya.1_Splice_Site_p.K91_splice|RAD9B_uc001tre.3_Splice_Site_p.K19_splice|RAD9B_uc001trd.3_Splice_Site	NM_152442	NP_689655	Q6WBX8	RAD9B_HUMAN	RAD9 homolog B						cell cycle checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding			pancreas(1)|skin(1)	2						GGAATGAAGGTAAATATAAGT	0.323													3	24					0	0	0.009096	0	0		A	110943579	A	A	110943579	5	1	164	1	0	0	0	0	0	0	1	0	13021	1652	57	5	285	5	RAD9B	12	110943579	Splice_Site	SNP	T	TCGA-D7-5579-01A-01D-1600-08	29224010	110943579	22908316	119	89158											
COG6	57511	broad.mit.edu	37	chr13	40293448	40293448	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgctgcgtgaagttttaGcatctcacgattcttcagtt	7	17	9	8	2	3	1	2	1	2	0	4	2	3	1	0	0	3	5	0	0	2	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr13:40293448G>C	uc001uxh.2	+	14	1460	c.1360G>C	c.(1360-1362)GCA>CCA	p.A454P	COG6_uc001uxi.2_Missense_Mutation_p.A402P|COG6_uc010acb.2_Missense_Mutation_p.A454P	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	454					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		TGAAGTTTTAGCATCTCACGA	0.383													15	51					0	0	0.028581	0	0		C	40293448	C	C	40293448	3	2	164	1	0	0	0	0	1	0	0	0	3665	971	34	5	1414	5	COG6	13	40293448	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08		40293448	74876430	120	89159											
SPERT	220082	broad.mit.edu	37	chr13	46287709	46287709	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggagaacaaggccctgcgCgaggagaaccggatgctcag	12	3	16	10	3	1	2	1	0	0	2	1	7	1	3	2	4	4	1	2	4	3	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr13:46287709C>T	uc001van.1	+	3	629	c.549C>T	c.(547-549)CGC>CGT	p.R183R	SPERT_uc001vao.2_Silent_p.R147R	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	183	Potential.					cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		AGGCCCTGCGCGAGGAGAACC	0.632													8	57					0	0	0.006214	0	0		T	46287709	T	T	46287709	2	4	164	1	0	0	0	0	0	0	0	1	15064	755	27	1		1	SPERT	13	46287709	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	5994261	46287709	68882169	121	89160											
OR4K15	81127	broad.mit.edu	37	chr14	20443925	20443925	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttcccgccttcacacccccaTgtactttctgcttgcaaacc	7	12	4	18	1	2	0	1	0	1	0	3	0	3	0	5	0	4	3	5	0	2	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr14:20443925T>G	uc010tkx.1	+	1	248	c.248T>G	c.(247-249)ATG>AGG	p.M83R		NM_001005486	NP_001005486	Q8NH41	OR4KF_HUMAN	olfactory receptor, family 4, subfamily K,	83	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;3.58e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CACACCCCCATGTACTTTCTG	0.418													67	267					0	0	0.01441	0	0		G	20443925	G	G	20443925	3	3	164	1	0	0	0	0	1	0	0	0	11089	1464	51	5	250	5	OR4K15	14	20443925	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08		20443925	86905615	122	89161											
SUPT16H	11198	broad.mit.edu	37	chr14	21840168	21840168	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtcatcacaaaagaccatGatagtatcagttagttcata	15	13	6	7	0	4	2	4	1	0	1	4	2	4	2	1	0	0	3	1	0	6	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr14:21840168G>A	uc001wao.2	-	3	534	c.195C>T	c.(193-195)ATC>ATT	p.I65I		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	65					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		AAAAGACCATGATAGTATCAG	0.348													22	93					0	0	0.01892	0	0		A	21840168	A	A	21840168	2	1	164	1	0	0	0	0	0	0	0	1	15421	1280	45	4		4	SUPT16H	14	21840168	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	1396243	21840168	85509372	123	89162											
SYNE2	23224	broad.mit.edu	37	chr14	64443311	64443311	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggaaaataaagctaaattatGccttgcccccacccctccat	13	9	5	14	0	0	0	0	0	0	0	1	1	1	1	6	1	3	1	6	1	7	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr14:64443311G>A	uc001xgm.2	+	12	1389	c.1159G>A	c.(1159-1161)GCC>ACC	p.A387T	SYNE2_uc001xgl.2_Missense_Mutation_p.A387T	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	387	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GCTAAATTATGCCTTGCCCCC	0.383													46	148					0	0	0.01441	0	0		A	64443311	A	A	64443311	3	1	164	1	0	0	0	0	1	0	0	0	15471	1319	46	2	1201	2	SYNE2	14	64443311	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	42603143	64443311	42906229	124	89163											
NRXN3	9369	broad.mit.edu	37	chr14	79117586	79117586	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgctgggctcggacgacTtcttctatgtaggaggaagc	8	10	13	10	2	2	0	0	0	2	0	3	4	2	3	1	4	2	3	1	4	3	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr14:79117586T>G	uc001xun.2	+	3	510	c.19T>G	c.(19-21)TTC>GTC	p.F7V	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.F141V	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	380	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CTCGGACGACTTCTTCTATGT	0.522													32	125					0	0	0.015359	0	0		G	79117586	G	G	79117586	3	3	164	1	0	0	0	0	1	0	0	0	10686	1609	56	5	21	5	NRXN3	14	79117586	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	14674275	79117586	28231954	125	89164											
SERPINA3	12	broad.mit.edu	37	chr14	95081072	95081072	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cataataccaccctgacagaGattctcaaaggcctcaagtt	14	9	6	12	0	2	2	2	1	1	1	3	3	2	2	3	1	1	1	3	1	4	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr14:95081072G>A	uc001ydp.2	+	2	373	c.294G>A	c.(292-294)GAG>GAA	p.E98E	SERPINA3_uc001ydo.3_Silent_p.E123E|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Silent_p.E98E|SERPINA3_uc001yds.2_Silent_p.E98E|SERPINA3_uc010avg.2_Silent_p.E98E	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	98					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		CCCTGACAGAGATTCTCAAAG	0.547													38	78					0	0	0.023175	0	0		A	95081072	A	A	95081072	2	1	164	1	0	0	0	0	0	0	0	1	14115	933	33	4		4	SERPINA3	14	95081072	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	15963486	95081072	12268468	126	89165											
C15orf23	90417	broad.mit.edu	37	chr15	40675071	40675071	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccccgcccctggacagagTtttccgtacaacatggctgt	8	9	10	14	2	0	1	0	0	0	1	1	2	1	2	5	2	3	3	5	2	2	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr15:40675071T>G	uc001zll.2	+	1	150	c.35T>G	c.(34-36)GTT>GGT	p.V12G	C15orf23_uc010ucp.1_Missense_Mutation_p.V12G|C15orf23_uc001zlo.2_Missense_Mutation_p.V12G|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	12						nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		CTGGACAGAGTTTTCCGTACA	0.592													5	20					0	0	0.004482	0	0		G	40675071	G	G	40675071	3	3	164	1	0	0	0	0	1	0	0	0	1788	1725	60	5	37	5	C15orf23	15	40675071	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08		40675071	61856321	127	89166											
WDR76	79968	broad.mit.edu	37	chr15	44127267	44127267	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaattttataggatttttcGggattgtcaccctacgaaag	11	15	9	6	2	1	0	1	0	0	0	2	3	1	2	1	2	1	1	1	2	5	8	rs149899666		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr15:44127267G>A	uc001zti.1	+	3	494	c.471G>A	c.(469-471)TCG>TCA	p.S157S		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	157											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		AGGATTTTTCGGGATTGTCAC	0.338													6	103					0	0	0.00308	0	0		A	44127267	A	A	44127267	2	1	164	1	0	0	0	0	0	0	0	1	17352	1103	39	1		1	WDR76	15	44127267	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08	3452196	44127267	58404125	128	89167											
SEMA6D	80031	broad.mit.edu	37	chr15	48051998	48051998	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcaccttggcccaccatGagggtcttcctgctttgtgc	5	13	9	14	0	2	1	1	1	1	0	3	1	3	1	4	2	2	1	4	2	0	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr15:48051998G>T	uc010bek.2	+	2	363	c.3G>T	c.(1-3)ATG>ATT	p.M1I	SEMA6D_uc001zvw.2_Missense_Mutation_p.M1I|SEMA6D_uc001zvx.1_Missense_Mutation_p.M1I|SEMA6D_uc001zvy.2_Missense_Mutation_p.M1I|SEMA6D_uc001zvz.2_Missense_Mutation_p.M1I|SEMA6D_uc001zwa.2_Missense_Mutation_p.M1I|SEMA6D_uc001zwb.2_Missense_Mutation_p.M1I|SEMA6D_uc001zwc.2_Missense_Mutation_p.M1I	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	1					axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GGCCCACCATGAGGGTCTTCC	0.502													11	168					2.80697e-09	3.06876e-09	0.010729	1	0		T	48051998	T	T	48051998	3	4	164	1	0	0	0	0	1	0	0	0	14067	1290	45	5	5	5	SEMA6D	15	48051998	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	3924731	48051998	54479394	129	89168											
PARP6	56965	broad.mit.edu	37	chr15	72533830	72533830	+	Missense_Mutation	SNP	A	G	G	1	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	cctgagttccgatcacacgcAtgatttccttctgtatcttg	7	15	7	12	2	3	2	1	2	2	0	5	3	5	2	3	0	0	3	3	0	1	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr15:72533830A>G	uc002auc.2	-	23	2318	c.1859T>C	c.(1858-1860)ATG>ACG	p.M620T	PARP6_uc002aua.2_Missense_Mutation_p.M466T|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	620	PARP catalytic.						NAD+ ADP-ribosyltransferase activity				0						GATCACACGCATGATTTCCTT	0.507													11	73					0	0	0.013537	0	0		G	72533830	G	G	72533830	3	3	164	1	0	0	0	0	1	0	0	0	11483	217	8	3	37	3	PARP6	15	72533830	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	24481832	72533830	29997562	130	89169											
SCAPER	49855	broad.mit.edu	37	chr15	77064249	77064249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttcgaacataattgtctCgaatactgccagaattcttc	13	13	6	9	2	2	1	0	0	2	1	5	3	2	1	1	0	3	1	1	0	6	6			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr15:77064249C>T	uc002bby.2	-	9	1141	c.1082G>A	c.(1081-1083)CGA>CAA	p.R361Q	SCAPER_uc002bbx.2_Missense_Mutation_p.R115Q|SCAPER_uc002bbz.1_Missense_Mutation_p.R226Q|SCAPER_uc002bca.1_Missense_Mutation_p.R226Q|SCAPER_uc002bcb.1_Missense_Mutation_p.R361Q|SCAPER_uc002bcc.1_Missense_Mutation_p.R361Q	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	360						endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						ATAATTGTCTCGAATACTGCC	0.358													18	132					0	0	0.007413	0	0		T	77064249	T	T	77064249	3	4	164	1	0	0	0	0	1	0	0	0	13903	884	31	1	3212	1	SCAPER	15	77064249	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	4530419	77064249	25467143	131	89170											
ZNF592	9640	broad.mit.edu	37	chr15	85341579	85341579	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgctcctgtgaaatggtcttCaacaagaagaggcacattca	13	10	9	9	0	3	3	2	1	1	2	4	3	4	3	1	2	2	2	1	2	4	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr15:85341579C>G	uc002bld.2	+	7	2946	c.2610C>G	c.(2608-2610)TTC>TTG	p.F870L	ZNF592_uc010upb.1_RNA	NM_014630	NP_055445	Q92610	ZN592_HUMAN	zinc finger protein 592	870					cell death|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(2)	6			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AAATGGTCTTCAACAAGAAGA	0.532													12	140					0	0	0.010729	0	0		G	85341579	G	G	85341579	3	3	164	1	0	0	0	0	1	0	0	0	18047	825	29	5	2624	5	ZNF592	15	85341579	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	8277330	85341579	17189813	132	89171											
ALDH1A3	220	broad.mit.edu	37	chr15	101434165	101434165	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgctctgtcgcagtggaacTtccccctgctgatgctggtg	4	12	13	12	1	1	1	0	1	1	0	3	2	2	2	2	2	4	4	2	2	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr15:101434165T>G	uc002bwn.3	+	6	648	c.544T>G	c.(544-546)TTC>GTC	p.F182V	ALDH1A3_uc010bpb.2_Intron|uc002bwo.1_RNA	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	182					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	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)		NADH(DB00157)|Vitamin A(DB00162)	GCAGTGGAACTTCCCCCTGCT	0.592													32	214					0	0	0.013726	0	0		G	101434165	G	G	101434165	3	3	164	1	0	0	0	0	1	0	0	0	492	1609	56	5	566	5	ALDH1A3	15	101434165	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	16092586	101434165	1097227	133	89172											
NAT15	79903	broad.mit.edu	37	chr16	3533574	3533574	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tatgtcctctacatcaacggCggccaccctccctggacgat	8	9	8	16	3	2	0	1	0	1	0	4	2	4	1	4	3	2	0	4	3	3	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr16:3533574C>T	uc002cvh.3	+	6	795	c.549C>T	c.(547-549)GGC>GGT	p.G183G	NAT15_uc010uxb.1_Silent_p.G190G|NAT15_uc010btk.1_Silent_p.G118G|NAT15_uc010btl.2_Intron|NAT15_uc010btm.2_Silent_p.G183G|NAT15_uc010uxc.1_Silent_p.G183G|NAT15_uc010uxd.1_Intron|NAT15_uc010uxe.1_Intron|NAT15_uc002cvg.1_Silent_p.G183G	NM_001083601	NP_001077070	Q9H7X0	NAT15_HUMAN	N-acetyltransferase 15	183							N-acetyltransferase activity				0						ACATCAACGGCGGCCACCCTC	0.512													9	34					0	0	0.006214	0	0		T	3533574	T	T	3533574	2	4	164	1	0	0	0	0	0	0	0	1	10194	755	27	1		1	NAT15	16	3533574	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08		3533574	86821179	134	89173											
A2BP1	54715	broad.mit.edu	37	chr16	7568390	7568390	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gaccgtctctggcaccgccaCagtaagtggacgtgtttgct	7	10	12	12	3	1	0	0	0	1	0	2	2	1	1	3	2	1	4	3	2	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr16:7568390C>G	uc002cys.2	+	5	1257	c.269C>G	c.(268-270)ACA>AGA	p.T90R	A2BP1_uc010buf.1_Missense_Mutation_p.T90R|A2BP1_uc002cyr.1_Missense_Mutation_p.T90R|A2BP1_uc002cyt.2_Missense_Mutation_p.T90R|A2BP1_uc010uxz.1_Missense_Mutation_p.T133R|A2BP1_uc010uya.1_Missense_Mutation_p.T126R|A2BP1_uc002cyv.1_Missense_Mutation_p.T90R|A2BP1_uc010uyb.1_Missense_Mutation_p.T90R|A2BP1_uc002cyw.2_Missense_Mutation_p.T110R|A2BP1_uc002cyy.2_Missense_Mutation_p.T110R|A2BP1_uc002cyx.2_Missense_Mutation_p.T110R|A2BP1_uc010uyc.1_Missense_Mutation_p.T110R	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	90					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		GGCACCGCCACAGTAAGTGGA	0.652													11	42					0	0	0.024245	0	0		G	7568390	G	G	7568390	3	3	164	1	0	0	0	0	1	0	0	0	3	492	17	5	366	5	A2BP1	16	7568390	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	4034816	7568390	82786363	135	89174											
NFATC2IP	84901	broad.mit.edu	37	chr16	28975126	28975126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggacaaagctttcaggcaGggagctgccagctgacctgg	9	7	15	10	0	1	1	1	1	0	0	1	3	1	3	2	4	4	4	2	4	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr16:28975126G>A	uc002dru.2	+	8	1217	c.1202G>A	c.(1201-1203)AGG>AAG	p.R401K	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Missense_Mutation_p.R122K|NFATC2IP_uc002drv.2_Missense_Mutation_p.R120K|NFATC2IP_uc010vdh.1_Missense_Mutation_p.R109K	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	401	Ubiquitin-like.					cytoplasm|nucleus				ovary(1)	1						CTTTCAGGCAGGGAGCTGCCA	0.587													10	60					0	0	0.006214	0	0		A	28975126	A	A	28975126	3	1	164	1	0	0	0	0	1	0	0	0	10382	1000	35	4	1232	4	NFATC2IP	16	28975126	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	21406736	28975126	61379627	136	89175											
AKTIP	64400	broad.mit.edu	37	chr16	53529186	53529186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcttacttaatgcagagcGataagatggctgcacataga	14	10	9	8	1	1	3	0	0	1	3	1	4	1	3	0	1	4	3	0	1	4	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr16:53529186G>A	uc002ehk.2	-	4	512	c.301C>T	c.(301-303)CGC>TGC	p.R101C	AKTIP_uc002ehl.2_Missense_Mutation_p.R101C|AKTIP_uc002ehm.2_Missense_Mutation_p.R101C|AKTIP_uc010vgx.1_Missense_Mutation_p.R101C	NM_001012398	NP_001012398	Q9H8T0	AKTIP_HUMAN	AKT interacting protein	101					apoptosis|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|positive regulation of protein binding|positive regulation of protein phosphorylation|protein transport	FHF complex|plasma membrane	acid-amino acid ligase activity|protein binding				0		all_cancers(37;0.14)				AATGCAGAGCGATAAGATGGC	0.383													11	88					0	0	0.008291	0	0		A	53529186	A	A	53529186	3	1	164	1	0	0	0	0	1	0	0	0	482	1058	37	1	605	1	AKTIP	16	53529186	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	24554060	53529186	36825567	137	89176											
ANKRD11	29123	broad.mit.edu	37	chr16	89349184	89349184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtccgacttctctttgtGtttgcttttagccttgtctt	2	23	7	9	1	2	0	0	0	2	0	4	1	3	0	2	0	2	2	2	0	1	8			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr16:89349184G>A	uc002fmx.1	-	9	4227	c.3766C>T	c.(3766-3768)CAC>TAC	p.H1256Y	ANKRD11_uc002fmy.1_Missense_Mutation_p.H1256Y|ANKRD11_uc002fnc.1_Missense_Mutation_p.H1256Y|ANKRD11_uc002fnb.1_Missense_Mutation_p.H1213Y	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1256	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TTCTCTTTGTGTTTGCTTTTA	0.483													24	82					0	0	0.021523	0	0		A	89349184	A	A	89349184	3	1	164	1	0	0	0	0	1	0	0	0	639	1377	48	4	4245	4	ANKRD11	16	89349184	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	35819998	89349184	1005569	138	89177											
TP53	7157	broad.mit.edu	37	chr17	7579312	7579312	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccctcagggcaactgacCgtgcaagtcacagacttggc	10	6	11	14	1	2	2	2	1	0	1	2	2	2	2	3	2	3	2	3	2	2	1	rs55863639		TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr17:7579312C>G	uc002gim.2	-	4	569	c.375G>C	c.(373-375)ACG>ACC	p.T125T	TP53_uc002gig.1_Silent_p.T125T|TP53_uc002gih.2_Silent_p.T125T|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Silent_p.T125T|TP53_uc010cni.1_Silent_p.T125T|TP53_uc002gij.2_Silent_p.T125T|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Silent_p.T86T|TP53_uc010cnk.1_Silent_p.T140T	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	125	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in a sporadic cancer; somatic mutation).|T -> M (in sporadic cancers; somatic mutation).|T -> R (in sporadic cancers; somatic mutation).|T -> P (in a sporadic cancer; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T125T(15)|p.0?(7)|p.T125M(7)|p.T125K(3)|p.T125R(3)|p.?(2)|p.V73fs*9(1)|p.T125P(1)|p.G105_T125del21(1)|p.Y126fs*11(1)|p.T125fs*45(1)|p.T125fs*24(1)|p.T125A(1)|p.P13fs*18(1)|p.T125_Y126insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			18	55					0	0	0.010504	0	0		G	7579312	G	G	7579312	2	3	164	1	0	0	0	0	0	0	0	1	16407	666	23	5		5	TP53	17	7579312	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08		7579312	73615898	139	89178											
ULK2	9706	broad.mit.edu	37	chr17	19687104	19687104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cgtaaggcacgtatctcaggCtgggagctgcctctgctcct	6	10	12	13	2	2	0	1	0	2	0	4	1	3	1	2	3	3	6	2	3	2	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr17:19687104C>T	uc002gwm.3	-	22	2875	c.2366G>A	c.(2365-2367)AGC>AAC	p.S789N	ULK2_uc002gwn.2_Missense_Mutation_p.S789N	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	789					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					GTATCTCAGGCTGGGAGCTGC	0.647													14	71					0	0	0.0333	0	0		T	19687104	T	T	19687104	3	4	164	1	0	0	0	0	1	0	0	0	17002	797	28	2	768	2	ULK2	17	19687104	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	12107792	19687104	61508106	140	89179											
SLFN12	55106	broad.mit.edu	37	chr17	33749727	33749727	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgttcaagctccatgacttCacaaaaatcagaaagtagtt	15	11	7	8	0	3	2	3	1	0	1	4	2	4	2	1	0	1	4	1	0	5	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr17:33749727C>G	uc002hji.3	-	2	698	c.321G>C	c.(319-321)GTG>GTC	p.V107V	SLFN12_uc002hjj.3_Silent_p.V107V|SLFN12_uc010cts.2_Silent_p.V107V	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	107							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TCCATGACTTCACAAAAATCA	0.373													12	81					0	0	0.010729	0	0		G	33749727	G	G	33749727	2	3	164	1	0	0	0	0	0	0	0	1	14759	813	29	5		5	SLFN12	17	33749727	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	14062623	33749727	47445483	141	89180											
TBC1D3B	414059	broad.mit.edu	37	chr17	34497333	34497333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaaatagaggaggaacaaggCggcgatgtggctcaggtccc	13	5	15	8	2	1	1	1	0	0	1	2	4	2	3	1	6	1	1	1	6	5	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr17:34497333C>T	uc002hky.2	-	9	733	c.583G>A	c.(583-585)GCC>ACC	p.A195T	uc002khr.2_5'Flank|uc002hlc.2_5'Flank	NM_001001417	NP_001001417	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3B	195	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0		Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AGGAACAAGGCGGCGATGTGG	0.602													9	95					0	0	0.008291	0	0		T	34497333	T	T	34497333	3	4	164	1	0	0	0	0	1	0	0	0	15645	768	27	1	1090	1	TBC1D3B	17	34497333	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	747606	34497333	46697877	142	89181											
SGCA	6442	broad.mit.edu	37	chr17	48244954	48244954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccaccagctgtcccacccGctgtccacatcacctaccac	8	8	4	21	1	1	0	1	0	0	0	4	0	4	0	7	0	2	2	7	0	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr17:48244954G>A	uc002iqi.2	+	3	205	c.169G>A	c.(169-171)GCT>ACT	p.A57T	SGCA_uc010wmh.1_Intron|SGCA_uc002iqj.2_Missense_Mutation_p.A57T|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	57	Extracellular (Potential).				muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						TGTCCCACCCGCTGTCCACAT	0.697													5	35					0	0	0.021553	0	0		A	48244954	A	A	48244954	3	1	164	1	0	0	0	0	1	0	0	0	14224	1087	38	1	179	1	SGCA	17	48244954	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	13747621	48244954	32950256	143	89182											
CD300LD	100131439	broad.mit.edu	37	chr17	72578366	72578366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctccacctacctggtgaggGggctgctggtcttctgggtg	3	11	16	11	0	2	1	0	1	2	0	3	1	3	1	3	5	2	3	3	5	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr17:72578366G>A	uc002jkz.2	-	3	493	c.464C>T	c.(463-465)CCC>CTC	p.P155L	C17orf77_uc002jla.1_5'Flank	NM_001115152	NP_001108624	Q6UXZ3	CLM4_HUMAN	CD300 molecule-like family member d precursor	155	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity				0						CCTGGTGAGGGGGCTGCTGGT	0.493													8	55					0	0	0.004482	0	0		A	72578366	A	A	72578366	3	1	164	1	0	0	0	0	1	0	0	0	3003	1232	43	4	128	4	CD300LD	17	72578366	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	24333412	72578366	8616844	144	89183											
FAM38B	63895	broad.mit.edu	37	chr18	10680265	10680265	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggagttcgtgtatcattttcTgcttactgggtgggctgatg	5	16	14	6	1	2	1	1	1	1	0	3	2	2	2	0	3	2	4	0	3	2	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr18:10680265T>C	uc002kor.3	-	10	1555	c.1415A>G	c.(1414-1416)CAG>CGG	p.Q472R	FAM38B_uc002koq.2_Missense_Mutation_p.Q307R	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2515						integral to membrane	ion channel activity			ovary(1)	1						TATCATTTTCTGCTTACTGGG	0.378													28	170					0	0	0.027356	0	0		C	10680265	C	C	10680265	3	2	164	1	0	0	0	0	1	0	0	0	5569	1580	55	3	734	3	FAM38B	18	10680265	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08		10680265	67396983	145	89184											
NOL4	8715	broad.mit.edu	37	chr18	31432850	31432850	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagttcatctgcagatcGcaataaaaatgcagctgatt	13	12	7	9	1	2	2	1	1	1	1	4	2	3	2	1	0	3	5	1	0	4	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr18:31432850G>A	uc010dmi.2	-	11	2102	c.1873C>T	c.(1873-1875)CGA>TGA	p.R625*	NOL4_uc010xbs.1_Nonsense_Mutation_p.R340*|NOL4_uc002kxr.3_Nonsense_Mutation_p.R397*|NOL4_uc010xbt.1_Nonsense_Mutation_p.R551*|NOL4_uc010dmh.2_Nonsense_Mutation_p.R487*|NOL4_uc010xbu.1_Nonsense_Mutation_p.R561*|NOL4_uc002kxt.3_Nonsense_Mutation_p.R523*	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	625						nucleolus	RNA binding			ovary(3)	3						TCTGCAGATCGCAATAAAAAT	0.438													23	76					0	0	0.014323	0	0		A	31432850	A	A	31432850	4	1	164	1	0	0	0	0	0	1	0	0	10543	1095	38	1	47	1	NOL4	18	31432850	Nonsense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	20752585	31432850	46644398	146	89185											
KIAA1543	57662	broad.mit.edu	37	chr19	7677722	7677722	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccagtcaccccgcagcccGaaacacacgcggccagcgga	11	1	11	18	5	1	0	1	0	0	0	1	2	1	1	5	2	4	1	5	2	1	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:7677722G>A	uc002mgv.3	+	11	2444	c.2343G>A	c.(2341-2343)CCG>CCA	p.P781P	KIAA1543_uc002mgu.3_Silent_p.P808P|KIAA1543_uc002mgw.2_5'Flank	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	781	Pro-rich.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CCCGCAGCCCGAAACACACGC	0.741													3	4					0	0	0.004672	0	0		A	7677722	A	A	7677722	2	1	164	1	0	0	0	0	0	0	0	1	8259	1045	37	1		1	KIAA1543	19	7677722	Silent	SNP	G	TCGA-D7-5579-01A-01D-1600-08		7677722	51451261	147	89186											
MUC16	94025	broad.mit.edu	37	chr19	8976841	8976841	+	Silent	SNP	C	T	T																															gtgaagttgagtgtgagggtCttcaggtggtaccccatggc																										TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:8976841C>T	uc002mkp.2	-	73	42429	c.42225G>A	c.(42223-42225)AAG>AAA	p.K14075K	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.K875K|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGTGAGGGTCTTCAGGTGGT	0.537													34	43					0	0	0.013726	0	0		T	8976841	T	T	8976841	2	4	164	1	0	0	0	0	0	0	0	1	9991	912	32	4		4	MUC16	19	8976841	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	1299119	8976841	50152142	148	89187	163	2									
MUC16	94025	broad.mit.edu	37	chr19	8976844	8976844	+	Silent	SNP	C	T	T																															aagttgagtgtgagggtcttCaggtggtaccccatggctgc																										TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:8976844C>T	uc002mkp.2	-	73	42426	c.42222G>A	c.(42220-42222)CTG>CTA	p.L14074L	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.L874L|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	14104	SEA 14.|Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAGGGTCTTCAGGTGGTACC	0.542													34	40					0	0	0.017118	0	0		T	8976844	T	T	8976844	2	4	164	1	0	0	0	0	0	0	0	1	9991	813	29	4		4	MUC16	19	8976844	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	3	8976844	50152139	149	89188	163	2									
EIF3G	8666	broad.mit.edu	37	chr19	10230359	10230359	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcctcctccacctggtcgGcccaactgggcttcgaactg	5	9	9	18	2	0	0	0	0	0	0	5	1	3	0	6	3	2	1	6	3	2	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:10230359G>T	uc002mnd.2	-	2	102	c.38C>A	c.(37-39)GCC>GAC	p.A13D	EIF3G_uc010dxa.2_Missense_Mutation_p.A13D|EIF3G_uc010xlb.1_Missense_Mutation_p.A13D	NM_003755	NP_003746	O75821	EIF3G_HUMAN	eukaryotic translation initiation factor 3,	13						cytosol|eukaryotic translation initiation factor 3 complex|nucleus|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0			OV - Ovarian serous cystadenocarcinoma(20;3.53e-09)|Epithelial(33;4.91e-06)|all cancers(31;1.1e-05)			CACCTGGTCGGCCCAACTGGG	0.637											OREG0025231	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	37					0.00198382	0.00205189	0.02938	1	0		T	10230359	T	T	10230359	3	4	164	1	0	0	0	0	1	0	0	0	5025	1203	42	5	964	5	EIF3G	19	10230359	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	1253515	10230359	48898624	150	89189											
PGLS	25796	broad.mit.edu	37	chr19	17628610	17628610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgtcctgaatgcagcacGaactgtcatctttgtggcaa	10	11	9	11	1	2	1	1	1	1	0	3	2	3	1	2	1	3	3	2	1	3	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:17628610G>A	uc002ngw.2	+	4	640	c.590G>A	c.(589-591)CGA>CAA	p.R197Q		NM_012088	NP_036220	O95336	6PGL_HUMAN	6-phosphogluconolactonase	197						cytosol	6-phosphogluconolactonase activity				0						AATGCAGCACGAACTGTCATC	0.572													10	102					0	0	0.010729	0	0		A	17628610	A	A	17628610	3	1	164	1	0	0	0	0	1	0	0	0	11811	1058	37	1	604	1	PGLS	19	17628610	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	7398251	17628610	41500373	151	89190											
C19orf47	126526	broad.mit.edu	37	chr19	40827891	40827891	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcccccggggccccacCagagtcctcttaatggtgac	6	8	10	17	1	1	2	0	1	1	1	3	2	3	2	6	3	1	1	6	3	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:40827891C>A	uc002oni.3	-	9	1168	c.1167G>T	c.(1165-1167)CTG>CTT	p.L389L	C19orf47_uc002ong.2_Silent_p.L248L|C19orf47_uc002onh.2_Silent_p.L322L	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	389										ovary(1)|skin(1)	2			Lung(22;0.000636)			GGGGCCCCACCAGAGTCCTCT	0.647													6	28					3.59834e-05	3.83459e-05	0.021553	1	0		A	40827891	A	A	40827891	2	1	164	1	0	0	0	0	0	0	0	1	1933	581	21	5		5	C19orf47	19	40827891	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	23199281	40827891	18301092	152	89191											
SPTBN4	57731	broad.mit.edu	37	chr19	41063307	41063307	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcagctcctcgtgtccCaggtggggcgccggtggcca	4	7	15	15	3	0	0	0	0	0	0	3	0	2	0	5	5	2	2	5	5	0	0			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:41063307C>T	uc002ony.2	+	26	5754	c.5668C>T	c.(5668-5670)CAG>TAG	p.Q1890*	SPTBN4_uc002onx.2_Nonsense_Mutation_p.Q1890*|SPTBN4_uc002onz.2_Nonsense_Mutation_p.Q1890*|SPTBN4_uc010egx.2_Nonsense_Mutation_p.Q633*|SPTBN4_uc002ooa.2_Nonsense_Mutation_p.Q566*	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	1890	Spectrin 16.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CCTCGTGTCCCAGGTGGGGCG	0.657													4	40					0	0	0.021553	0	0		T	41063307	T	T	41063307	4	4	164	1	0	0	0	0	0	1	0	0	15146	595	21	4	5766	4	SPTBN4	19	41063307	Nonsense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	235416	41063307	18065676	153	89192											
TOMM40	10452	broad.mit.edu	37	chr19	45406290	45406290	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcagctcttccctgcaggctCtgtggatagcaactggatcg	7	11	11	12	1	3	0	1	0	2	0	5	2	4	2	1	3	4	4	1	3	2	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:45406290C>G	uc002ozx.3	+	10	1051	c.950C>G	c.(949-951)TCT>TGT	p.S317C	TOMM40_uc002ozy.3_Missense_Mutation_p.S317C|TOMM40_uc002paa.3_Missense_Mutation_p.S317C|TOMM40_uc002ozz.2_3'UTR|APOE_uc002pab.2_5'Flank	NM_006114	NP_006105	O96008	TOM40_HUMAN	translocase of outer mitochondrial membrane 40	317					protein targeting to mitochondrion	integral to membrane of membrane fraction|integral to mitochondrial outer membrane|mitochondrial outer membrane translocase complex|pore complex	porin activity|protein transmembrane transporter activity|voltage-gated anion channel activity				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)			OV - Ovarian serous cystadenocarcinoma(262;0.0033)|Epithelial(262;0.176)		CCTGCAGGCTCTGTGGATAGC	0.592													5	38					0	0	0.014758	0	0		G	45406290	G	G	45406290	3	3	164	1	0	0	0	0	1	0	0	0	16383	913	32	5	984	5	TOMM40	19	45406290	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	4342983	45406290	13722693	154	89193											
NLRP8	126205	broad.mit.edu	37	chr19	56466423	56466423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggccacgctactgatcatGataagatttacctcttggca	11	11	9	10	1	2	3	1	2	1	1	2	4	2	3	2	2	2	2	2	2	3	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr19:56466423G>A	uc002qmh.2	+	3	1070	c.999G>A	c.(997-999)ATG>ATA	p.M333I	NLRP8_uc010etg.2_Missense_Mutation_p.M333I	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	333	NACHT.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		TACTGATCATGATAAGATTTA	0.478													64	284					0	0	0.01441	0	0		A	56466423	A	A	56466423	3	1	164	1	0	0	0	0	1	0	0	0	10502	1290	45	4	1009	4	NLRP8	19	56466423	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	11060133	56466423	2662560	155	89194											
CSNK2A1	1457	broad.mit.edu	37	chr20	472990	472990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atgataaaactcagccaaacCccagtctattagtcgtagct	14	10	6	11	1	2	1	1	1	1	0	3	1	2	1	3	0	4	2	3	0	6	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr20:472990C>T	uc002wdw.1	-	9	922	c.529G>A	c.(529-531)GGT>AGT	p.G177S	CSNK2A1_uc002wdx.1_Missense_Mutation_p.G177S|CSNK2A1_uc002wdy.1_Missense_Mutation_p.G41S	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	177	Protein kinase.				axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			TCAGCCAAACCCCAGTCTATT	0.398													4	69					0	0	0.014758	0	0		T	472990	T	T	472990	3	4	164	1	0	0	0	0	1	0	0	0	3960	623	22	4	670	4	CSNK2A1	20	472990	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08		472990	62552530	156	89195											
SIGLEC1	6614	broad.mit.edu	37	chr20	3683946	3683946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctagtggccaagtgcagccGgagggtatgggagtgggcat	8	7	18	8	1	0	0	0	0	0	0	0	2	0	2	3	5	2	3	3	5	3	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr20:3683946G>A	uc002wja.2	-	5	1126	c.1126C>T	c.(1126-1128)CGG>TGG	p.R376W	SIGLEC1_uc002wiz.3_Missense_Mutation_p.R376W|SIGLEC1_uc002wjc.2_Missense_Mutation_p.R287W	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	376	Extracellular (Potential).|Ig-like C2-type 3.				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						AAGTGCAGCCGGAGGGTATGG	0.582													10	98					0	0	0.008291	0	0		A	3683946	A	A	3683946	3	1	164	1	0	0	0	0	1	0	0	0	14330	1115	39	1	4071	1	SIGLEC1	20	3683946	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	3210956	3683946	59341574	157	89196											
ADA	100	broad.mit.edu	37	chr20	43251555	43251555	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgtcccagccgctctgtcTtgagtatgtccacagcctgt	5	12	10	14	2	2	1	0	1	2	0	4	1	4	1	4	0	2	2	4	0	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr20:43251555T>A	uc002xmj.2	-	8	823	c.695A>T	c.(694-696)AAG>ATG	p.K232M	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	232					adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	CCGCTCTGTCTTGAGTATGTC	0.582									Adenosine_Deaminase_Deficiency				15	89					0	0	0.01892	0	0		A	43251555	A	A	43251555	3	1	164	1	0	0	0	0	1	0	0	0	230	1609	56	5	416	5	ADA	20	43251555	Missense_Mutation	SNP	T	TCGA-D7-5579-01A-01D-1600-08	39567609	43251555	19773965	158	89197											
NCOA3	8202	broad.mit.edu	37	chr20	46254223	46254223	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttaggaccgcttttacttCaggcaagtataaagatttta	12	14	7	8	1	1	1	1	0	0	1	1	2	1	2	2	2	1	3	2	2	7	8			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr20:46254223C>T	uc002xtk.2	+	5	560	c.355C>T	c.(355-357)CAG>TAG	p.Q119*	NCOA3_uc010ght.1_Nonsense_Mutation_p.Q119*|NCOA3_uc002xtl.2_Nonsense_Mutation_p.Q119*|NCOA3_uc002xtm.2_Nonsense_Mutation_p.Q119*|NCOA3_uc002xtn.2_Nonsense_Mutation_p.Q119*|NCOA3_uc010zyc.1_5'Flank	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	119	PAS.				androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						GCTTTTACTTCAGGCAAGTAT	0.343													9	100					0	0	0.004482	0	0		T	46254223	T	T	46254223	4	4	164	1	0	0	0	0	0	1	0	0	10249	827	29	4	365	4	NCOA3	20	46254223	Nonsense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	3002668	46254223	16771297	159	89198											
ZNF831	128611	broad.mit.edu	37	chr20	57829420	57829420	+	Missense_Mutation	SNP	A	C	C	1	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	agaccttcatctggacaaagAatttcagattcggttccact	12	12	7	10	1	3	3	2	0	1	3	5	4	4	4	2	2	0	1	2	2	2	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr20:57829420A>C	uc002yan.2	+	5	4656	c.4656A>C	c.(4654-4656)AGA>AGC	p.R1552S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1552						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTGGACAAAGAATTTCAGATT	0.498													15	62					0	0	0.020292	0	0		C	57829420	C	C	57829420	3	2	164	1	0	0	0	0	1	0	0	0	18210	243	9	5	4674	5	ZNF831	20	57829420	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	11575197	57829420	5196100	160	89199											
KRTAP15-1	254950	broad.mit.edu	37	chr21	31812843	31812843	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgccagacatcctgcacTttggccagatcctatcagac	10	9	8	14	0	1	3	1	0	0	3	3	3	3	3	4	1	3	2	4	1	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr21:31812843T>G	uc002yod.2	+	1	198	c.198T>G	c.(196-198)ACT>ACG	p.T66T		NM_181623	NP_853654	Q3LI76	KR151_HUMAN	keratin associated protein 15-1	66						intermediate filament					0						CATCCTGCACTTTGGCCAGAT	0.502													24	102					0	0	0.021523	0	0		G	31812843	G	G	31812843	2	3	164	1	0	0	0	0	0	0	0	1	8542	1596	56	5		5	KRTAP15-1	21	31812843	Silent	SNP	T	TCGA-D7-5579-01A-01D-1600-08		31812843	16317052	161	89200											
CCT8L2	150160	broad.mit.edu	37	chr22	17072656	17072656	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctagatcagcaggactaGaaagacgggccgttgctggt	11	7	15	8	2	1	3	1	0	0	3	1	5	1	4	1	3	3	4	1	3	3	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr22:17072656G>T	uc002zlp.1	-	1	1045	c.785C>A	c.(784-786)TCT>TAT	p.S262Y		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	262					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				AGCAGGACTAGAAAGACGGGC	0.507													21	142					2.89027e-11	3.24386e-11	0.014323	1	0		T	17072656	T	T	17072656	3	4	164	1	0	0	0	0	1	0	0	0	2964	942	33	5	892	5	CCT8L2	22	17072656	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08		17072656	34231910	162	89201											
ZNF74	7625	broad.mit.edu	37	chr22	20759891	20759891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcccctcttcgcccagcaaCgcgttcccgaggggggaccc	5	6	12	18	4	1	0	0	0	1	0	4	2	3	1	5	3	2	2	5	3	1	2			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr22:20759891C>T	uc010gsm.2	+	6	780	c.568C>T	c.(568-570)CGC>TGC	p.R190C	ZNF74_uc002zsg.2_Missense_Mutation_p.R119C|ZNF74_uc002zsh.2_Missense_Mutation_p.R190C|ZNF74_uc002zsi.2_Missense_Mutation_p.R119C|ZNF74_uc010gsn.2_Missense_Mutation_p.R119C	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	190					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CGCCCAGCAACGCGTTCCCGA	0.667													4	16					0	0	0.014758	0	0		T	20759891	T	T	20759891	3	4	164	1	0	0	0	0	1	0	0	0	18152	536	19	1	586	1	ZNF74	22	20759891	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	3687235	20759891	30544675	163	89202											
RTDR1	27156	broad.mit.edu	37	chr22	23401693	23401693	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ccgggctgcccgctgtaaggCttcggccacttgaggctttt	4	11	13	13	3	0	1	0	1	0	0	1	1	0	1	3	4	1	5	3	4	1	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr22:23401693C>A	uc002zwt.2	-	7	1152	c.994G>T	c.(994-996)GCC>TCC	p.A332S		NM_014433	NP_055248	Q9UHP6	RTDR1_HUMAN	rhabdoid tumor deletion region protein 1	332							binding			ovary(1)	1	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.175)		CGCTGTAAGGCTTCGGCCACT	0.577													4	128					1.23904e-05	1.32709e-05	0.014758	1	0		A	23401693	A	A	23401693	3	1	164	1	0	0	0	0	1	0	0	0	13744	797	28	5	56	5	RTDR1	22	23401693	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	2641802	23401693	27902873	164	89203											
VPREB3	29802	broad.mit.edu	37	chr22	24095278	24095278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggtaccaggacacacCgtagtccctgatggtgacgt	8	9	12	12	2	0	2	0	2	0	0	1	3	1	3	3	3	2	3	3	3	2	2	rs143409128	by1000genomes	TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr22:24095278C>T	uc002zxt.2	-	2	237	c.157G>A	c.(157-159)GGT>AGT	p.G53S	ZNF70_uc002zxs.2_5'Flank	NM_013378	NP_037510	Q9UKI3	VPRE3_HUMAN	pre-B lymphocyte 3 precursor	53	Ig-like.					endoplasmic reticulum					0		Medulloblastoma(6;7.87e-06)|all_neural(6;0.00334)				CAGGACACACCGTAGTCCCTG	0.637													7	36					0	0	0.004482	0	0		T	24095278	T	T	24095278	3	4	164	1	0	0	0	0	1	0	0	0	17213	652	23	1	218	1	VPREB3	22	24095278	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	693585	24095278	27209288	165	89204											
SMARCB1	6598	broad.mit.edu	37	chr22	24135870	24135870	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcacagagccccccacctaCctcaggtaatgcgttcctgg	9	7	9	16	1	1	1	1	0	0	1	2	1	2	1	6	2	4	3	6	2	2	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr22:24135870C>T	uc002zyb.2	+	3	564	c.357C>T	c.(355-357)TAC>TAT	p.Y119Y	SMARCB1_uc002zyg.2_Silent_p.Y119Y|SMARCB1_uc011ajb.1_Silent_p.Y110Y|SMARCB1_uc002zya.2_Silent_p.Y119Y|SMARCB1_uc002zyc.2_Silent_p.Y110Y|SMARCB1_uc002zyd.2_Silent_p.Y110Y|SMARCB1_uc002zye.1_Silent_p.Y82Y|SMARCB1_uc002zyf.1_RNA|SMARCB1_uc010gue.1_Intron	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	119	DNA-binding (Potential).				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(2)|p.Y119fs*1(1)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				CCCCCACCTACCTCAGGTAAT	0.512			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				5	116					0	0	0.014758	0	0		T	24135870	T	T	24135870	2	4	164	1	0	0	0	0	0	0	0	1	14799	518	18	4		4	SMARCB1	22	24135870	Silent	SNP	C	TCGA-D7-5579-01A-01D-1600-08	40592	24135870	27168696	166	89205											
NAGA	4668	broad.mit.edu	37	chr22	42458845	42458845	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtaccttgtgaatcctgcGtccctggatgcctaagggat	8	12	11	10	1	0	1	0	1	0	0	2	3	2	3	4	2	3	1	4	2	4	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chr22:42458845G>T	uc003bbx.2	-	8	1080	c.943C>A	c.(943-945)CGC>AGC	p.R315S	NAGA_uc003bby.2_Missense_Mutation_p.R315S|NAGA_uc003bbw.3_Missense_Mutation_p.R315S	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	315					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						TGAATCCTGCGTCCCTGGATG	0.557													13	134					1.61879e-10	1.79771e-10	0.013537	1	0		T	42458845	T	T	42458845	3	4	164	1	0	0	0	0	1	0	0	0	10159	1145	40	5	304	5	NAGA	22	42458845	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08	18322975	42458845	8845721	167	89206											
RPS6KA6	27330	broad.mit.edu	37	chrX	83357064	83357064	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcaggtgcaacaaagtttGcagtgtagcatggagttaag	12	10	12	7	0	1	0	1	0	0	0	1	1	1	1	1	2	4	6	1	2	4	3			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chrX:83357064G>T	uc004eej.1	-	18	1834	c.1757C>A	c.(1756-1758)GCA>GAA	p.A586E	RPS6KA6_uc011mqt.1_Missense_Mutation_p.A586E|RPS6KA6_uc011mqu.1_Missense_Mutation_p.A483E	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	586	Protein kinase 2.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						AACAAAGTTTGCAGTGTAGCA	0.373													7	40					0.00307968	0.00316982	0.00308	1	0		T	83357064	T	T	83357064	3	4	164	1	0	0	0	0	1	0	0	0	13680	1319	46	5	500	5	RPS6KA6	23	83357064	Missense_Mutation	SNP	G	TCGA-D7-5579-01A-01D-1600-08		83357064	71913496	168	89207											
IL13RA2	3598	broad.mit.edu	37	chrX	114239848	114239848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccaaatggtagccagaaaCgtagcaaagttttcttcgat	15	10	8	8	2	1	1	0	0	1	1	2	2	1	1	2	1	4	4	2	1	6	5			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chrX:114239848C>T	uc004epx.2	-	9	1153	c.1028G>A	c.(1027-1029)CGT>CAT	p.R343H	IL13RA2_uc010nqd.1_Missense_Mutation_p.R343H	NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	343	Extracellular (Potential).					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						TAGCCAGAAACGTAGCAAAGT	0.358													16	49					0	0	0.028581	0	0		T	114239848	T	T	114239848	3	4	164	1	0	0	0	0	1	0	0	0	7646	536	19	1	122	1	IL13RA2	23	114239848	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	30882784	114239848	41030712	169	89208											
TFDP3	51270	broad.mit.edu	37	chrX	132351941	132351941	+	Missense_Mutation	SNP	A	G	G	1	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	gcaccgtctcccagaccttcAtggaaagacggcacaggccc	10	5	10	16	2	2	2	1	0	1	2	3	3	2	3	4	3	0	2	4	3	1	1			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chrX:132351941A>G	uc004exb.1	-	1	436	c.347T>C	c.(346-348)ATG>ACG	p.M116T		NM_016521	NP_057605	Q5H9I0	TFDP3_HUMAN	transcription factor Dp family, member 3	116	Potential.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CCAGACCTTCATGGAAAGACG	0.587													15	73					0	0	0.008871	0	0		G	132351941	G	G	132351941	3	3	164	1	0	0	0	0	1	0	0	0	15824	217	8	3	874	3	TFDP3	23	132351941	Missense_Mutation	SNP	A	TCGA-D7-5579-01A-01D-1600-08	18112093	132351941	22918619	170	89209											
UBE2NL	389898	broad.mit.edu	37	chrX	142967341	142967341	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggggaatcaaaggattccCcctttgagggagggactttt	9	11	13	8	0	1	1	1	1	0	0	2	5	2	5	2	5	0	0	2	5	2	4			TCGA-D7-5579-01A-01D-1600-08	TCGA-D7-5579-10A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	3db3b7b1-da1d-4b9c-a92a-c60fecf4328c	865f246b-0e3f-46b7-8112-6c1475198b42	g.chrX:142967341C>G	uc004fca.2	+	1	169	c.139C>G	c.(139-141)CCC>GCC	p.P47A		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	47							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					AAAGGATTCCCCCTTTGAGGG	0.453													24	102					0	0	0.016522	0	0		G	142967341	G	G	142967341	3	3	164	1	0	0	0	0	1	0	0	0	16893	623	22	5	141	5	UBE2NL	23	142967341	Missense_Mutation	SNP	C	TCGA-D7-5579-01A-01D-1600-08	10615400	142967341	12303219	171	89210											
SLC2A7	155184	broad.mit.edu	37	chr1	9082993	9082993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttacctgccgcagctatcaaCcagcaggcccacgagcaatg	11	6	9	15	2	1	0	1	0	0	0	1	1	1	0	4	1	6	4	4	1	4	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:9082993C>T	uc009vmo.1	-	3	295	c.295G>A	c.(295-297)GTT>ATT	p.V99I		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	99	Helical; (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		CAGCTATCAACCAGCAGGCCC	0.512													5	193					0	0	0.001168	0	0		T	9082993	T	T	9082993	3	4	165	1	0	0	0	0	1	0	0	0	14575	507	18	4	1283	4	SLC2A7	1	9082993	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		9082993	240167628	1	89211											
DFFA	1676	broad.mit.edu	37	chr1	10527274	10527274	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctcctctgataggaggatGatgctggacagatcttcttt	8	14	10	9	0	3	3	0	2	3	1	5	6	5	6	2	3	1	1	2	3	1	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:10527274G>A	uc001arj.2	-	3	512	c.414C>T	c.(412-414)ATC>ATT	p.I138I	DFFA_uc001ark.2_Silent_p.I138I	NM_004401	NP_004392	O00273	DFFA_HUMAN	DNA fragmentation factor, 45kDa, alpha	138					DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction|negative regulation of apoptosis	cytosol|mitochondrion|nucleoplasm|plasma membrane	deoxyribonuclease activity|identical protein binding				0	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)		ATAGGAGGATGATGCTGGACA	0.537													7	132					0	0	0.001984	0	0		A	10527274	A	A	10527274	2	1	165	1	0	0	0	0	0	0	0	1	4458	1280	45	4		4	DFFA	1	10527274	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	1444281	10527274	238723347	2	89212											
PRAMEF12	390999	broad.mit.edu	37	chr1	12837237	12837237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcatctctcttggtgccCgagcatccgtcagctaaaag	10	9	10	12	2	3	0	1	0	2	0	5	2	4	0	2	1	4	3	2	1	3	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:12837237C>T	uc001aui.2	+	3	974	c.947C>T	c.(946-948)CCG>CTG	p.P316L		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	316										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TCTTGGTGCCCGAGCATCCGT	0.567													35	150					0	0	0.003755	0	0		T	12837237	T	T	12837237	3	4	165	1	0	0	0	0	1	0	0	0	12450	652	23	1	957	1	PRAMEF12	1	12837237	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	2309963	12837237	236413384	3	89213											
AIM1L	55057	broad.mit.edu	37	chr1	26655305	26655305	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgcacctccctgctgagctcGatctccttcccctcgaagca	6	9	7	19	3	1	1	0	1	1	0	6	3	3	1	5	0	3	4	5	0	1	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:26655305G>A	uc001bmd.3	-	15	1669	c.1239C>T	c.(1237-1239)ATC>ATT	p.I413I		NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	413	Beta/gamma crystallin 'Greek key' 9.						sugar binding			pancreas(1)	1		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)		TGCTGAGCTCGATCTCCTTCC	0.597													11	70					0	0	0.001855	0	0		A	26655305	A	A	26655305	2	1	165	1	0	0	0	0	0	0	0	1	431	1048	37	1		1	AIM1L	1	26655305	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	13818068	26655305	222595316	4	89214											
CELSR2	1952	broad.mit.edu	37	chr1	109793708	109793708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggggtctgggggcagccCctctgaagtctttgagatcg	6	9	17	9	1	3	2	0	2	3	1	4	4	3	3	2	5	1	1	2	5	1	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:109793708C>T	uc001dxa.3	+	1	1068	c.1007C>T	c.(1006-1008)CCC>CTC	p.P336L		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	336	Cadherin 2.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GGGGGCAGCCCCTCTGAAGTC	0.607													8	100					0	0	0.008291	0	0		T	109793708	T	T	109793708	3	4	165	1	0	0	0	0	1	0	0	0	3225	623	22	4	1009	4	CELSR2	1	109793708	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	83138403	109793708	139456913	5	89215											
TRIM33	51592	broad.mit.edu	37	chr1	114940396	114940396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaaactctggcaaaggtgcGaaggtcctgtctgagtagat	11	10	12	8	1	3	2	1	1	2	1	4	3	4	2	1	3	2	2	1	3	4	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:114940396G>A	uc001eew.2	-	20	3342	c.3258C>T	c.(3256-3258)TTC>TTT	p.F1086F	TRIM33_uc010owr.1_Silent_p.F700F|TRIM33_uc010ows.1_Silent_p.F718F|TRIM33_uc001eex.2_Silent_p.F1069F	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	1086					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCAAAGGTGCGAAGGTCCTGT	0.468			T	RET	papillary thyroid								8	125					0	0	0.00308	0	0		A	114940396	A	A	114940396	2	1	165	1	0	0	0	0	0	0	0	1	16533	1049	37	1		1	TRIM33	1	114940396	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	5146688	114940396	134310225	6	89216											
CD1E	913	broad.mit.edu	37	chr1	158325888	158325888	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gggggccatgatctaatcatCcattggggtgagaaacagct	11	9	13	8	0	2	2	1	2	1	1	3	3	3	2	2	4	2	1	2	4	2	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:158325888C>G	uc001fse.2	+	4	1136	c.897C>G	c.(895-897)ATC>ATG	p.I299M	CD1E_uc010pid.1_Missense_Mutation_p.I297M|CD1E_uc010pie.1_Missense_Mutation_p.I200M|CD1E_uc010pif.1_Missense_Mutation_p.I110M|CD1E_uc001fsd.2_Intron|CD1E_uc001fsk.2_Missense_Mutation_p.I209M|CD1E_uc001fsj.2_Intron|CD1E_uc001fsc.2_Missense_Mutation_p.I110M|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.I299M|CD1E_uc001fry.2_Intron|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Missense_Mutation_p.I110M|CD1E_uc001fsi.2_Intron|CD1E_uc009wsv.2_Missense_Mutation_p.I200M|CD1E_uc001frz.2_Missense_Mutation_p.I209M|CD1E_uc009wsw.2_Missense_Mutation_p.I57M	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	299	Ig-like.				antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					ATCTAATCATCCATTGGGGTG	0.547													6	88					0	0	0.001168	0	0		G	158325888	G	G	158325888	3	3	165	1	0	0	0	0	1	0	0	0	2981	845	30	5	911	5	CD1E	1	158325888	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	43385492	158325888	90924733	7	89217											
TNFSF4	7292	broad.mit.edu	37	chr1	173157667	173157667	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacaatacttaccggtaaaTtgtactttgatactttgaat	13	16	6	6	1	0	3	0	3	0	0	0	3	0	3	1	1	4	2	1	1	8	8			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:173157667T>C	uc001giw.2	-	2	351	c.195A>G	c.(193-195)CAA>CAG	p.Q65Q	TNFSF4_uc001giv.2_Silent_p.Q15Q	NM_003326	NP_003317	P23510	TNFL4_HUMAN	tumor necrosis factor (ligand) superfamily,	65	Extracellular (Potential).				acute inflammatory response|cellular response to lipopolysaccharide|cellular response to prostaglandin E stimulus|chemokine (C-C motif) ligand 11 production|defense response to nematode|interleukin-4-dependent isotype switching to IgE isotypes|memory T cell activation|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of regulatory T cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T-helper 1 cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of alpha-beta T cell proliferation|positive regulation of B cell activation|positive regulation of immunoglobulin mediated immune response|positive regulation of immunoglobulin secretion|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-6 production|positive regulation of memory T cell differentiation|positive regulation of T cell cytokine production|positive regulation of T-helper 2 cell differentiation|positive regulation of type 2 immune response|response to virus|signal transduction|T-helper 2 cell activation	cell surface|extracellular space|integral to plasma membrane	cytokine activity			central_nervous_system(1)	1						TACCGGTAAATTGTACTTTGA	0.318													3	90					0	0	0.009096	0	0		C	173157667	C	C	173157667	2	2	165	1	0	0	0	0	0	0	0	1	16335	1490	52	3		3	TNFSF4	1	173157667	Silent	SNP	T	TCGA-D7-6518-01A-11D-1800-08	14831779	173157667	76092954	8	89218											
CHI3L1	1116	broad.mit.edu	37	chr1	203152776	203152776	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgaccagcaccttgattAgggtggtaaaatgctgtttg	10	12	11	8	0	0	2	0	2	0	0	0	2	0	2	3	2	2	4	3	2	3	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:203152776A>G	uc001gzi.2	-	5	629	c.458T>C	c.(457-459)CTA>CCA	p.L153P	FMOD_uc010pqi.1_Intron|CHI3L1_uc001gzk.1_5'Flank|CHI3L1_uc001gzj.2_Missense_Mutation_p.L153P	NM_001276	NP_001267	P36222	CH3L1_HUMAN	chitinase 3-like 1 precursor	153					chitin catabolic process	extracellular space|proteinaceous extracellular matrix	cation binding|chitinase activity|extracellular matrix structural constituent|sugar binding			pancreas(1)	1						CACCTTGATTAGGGTGGTAAA	0.587													10	62					0	0	0.008291	0	0		G	203152776	G	G	203152776	3	3	165	1	0	0	0	0	1	0	0	0	3343	420	15	3	717	3	CHI3L1	1	203152776	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08	29995109	203152776	46097845	9	89219											
NFASC	23114	broad.mit.edu	37	chr1	204966334	204966334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccgactaccgtgggtgcgaCgggcgctgtgagcagtaccg	6	6	16	13	6	0	1	0	1	0	0	0	3	0	1	3	2	4	3	3	2	2	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:204966334C>T	uc001hbj.2	+	25	3147	c.2819C>T	c.(2818-2820)ACG>ATG	p.T940M	NFASC_uc010pra.1_Intron|NFASC_uc001hbi.2_Intron|NFASC_uc010prb.1_Intron|NFASC_uc010prc.1_Intron|NFASC_uc001hbl.1_Intron|NFASC_uc001hbm.1_Intron|NFASC_uc001hbn.1_Missense_Mutation_p.T86M|NFASC_uc009xbh.1_Translation_Start_Site	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	997	Extracellular (Potential).|Fibronectin type-III 4.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	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)			GTGGGTGCGACGGGCGCTGTG	0.557													7	41					0	0	0.00308	0	0		T	204966334	T	T	204966334	3	4	165	1	0	0	0	0	1	0	0	0	10378	536	19	1	3322	1	NFASC	1	204966334	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	1813558	204966334	44284287	10	89220											
MARK1	4139	broad.mit.edu	37	chr1	220824034	220824034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggaccacagatcgatacGtagcattgcagaatggaaaa	18	6	10	7	2	0	2	0	0	0	2	1	5	0	4	1	2	3	3	1	2	6	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:220824034G>A	uc001hmn.3	+	14	2140	c.1543G>A	c.(1543-1545)GTA>ATA	p.V515I	MARK1_uc009xdw.2_Missense_Mutation_p.V515I|MARK1_uc010pun.1_Missense_Mutation_p.V515I|MARK1_uc001hmm.3_Missense_Mutation_p.V493I	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	515					intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		AGATCGATACGTAGCATTGCA	0.408													19	116					0	0	0.012319	0	0		A	220824034	A	A	220824034	3	1	165	1	0	0	0	0	1	0	0	0	9330	1145	40	1	1597	1	MARK1	1	220824034	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	15857700	220824034	28426587	11	89221											
KIAA1383	54627	broad.mit.edu	37	chr1	232942122	232942122	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttgtattacactaacttGacccaagaaaaaccgccccc	13	9	4	15	1	0	2	0	1	0	1	0	2	0	2	5	0	3	1	5	0	6	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:232942122G>T	uc001hvh.2	+	1	1485	c.1353G>T	c.(1351-1353)TTG>TTT	p.L451F		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	309										ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				ACACTAACTTGACCCAAGAAA	0.443													9	223					1.12685e-05	1.24792e-05	0.004482	1	0		T	232942122	T	T	232942122	3	4	165	1	0	0	0	0	1	0	0	0	8244	1281	45	5	1355	5	KIAA1383	1	232942122	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	12118088	232942122	16308499	12	89222											
NID1	4811	broad.mit.edu	37	chr1	236142365	236142365	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggggttggaaagcatcCgtctccttggaaattgcaag	9	12	13	7	1	1	0	0	0	1	0	3	2	2	2	2	4	2	3	2	4	3	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:236142365C>T	uc001hxo.2	-	19	3654	c.3552G>A	c.(3550-3552)ACG>ACA	p.T1184T	NID1_uc009xgd.2_Silent_p.T1051T|NID1_uc009xgc.2_Silent_p.T265T	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	1184					cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GGAAAGCATCCGTCTCCTTGG	0.507													9	49					0	0	0.006214	0	0		T	236142365	T	T	236142365	2	4	165	1	0	0	0	0	0	0	0	1	10433	639	23	1		1	NID1	1	236142365	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	3200243	236142365	13108256	13	89223											
FMN2	56776	broad.mit.edu	37	chr1	240256644	240256644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgtttcaagccctaccCgctcatcaccccctgctaca	7	9	6	19	2	3	0	3	0	0	0	3	0	3	0	4	0	4	4	4	0	3	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:240256644C>T	uc010pyd.1	+	1	1460	c.1235C>T	c.(1234-1236)CCG>CTG	p.P412L	FMN2_uc010pye.1_Missense_Mutation_p.P412L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	412					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAGCCCTACCCGCTCATCACC	0.677													11	43					0	0	0.008291	0	0		T	240256644	T	T	240256644	3	4	165	1	0	0	0	0	1	0	0	0	5964	652	23	1	1237	1	FMN2	1	240256644	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	4114279	240256644	8993977	14	89224											
OR2L13	284521	broad.mit.edu	37	chr1	248263077	248263077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actctctctattatcctatcCgcatgagtaaaatgatgtgt	11	15	6	9	1	2	2	0	2	2	0	5	2	4	2	2	0	0	2	2	0	5	4	rs147060080		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr1:248263077C>T	uc001ids.2	+	3	737	c.400C>T	c.(400-402)CGC>TGC	p.R134C		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TTATCCTATCCGCATGAGTAA	0.488													6	298					0	0	0.001168	0	0		T	248263077	T	T	248263077	3	4	165	1	0	0	0	0	1	0	0	0	11025	652	23	1	402	1	OR2L13	1	248263077	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	8006433	248263077	987544	15	89225											
PLEK	5341	broad.mit.edu	37	chr2	68613709	68613709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcctcatgattgcttcatCgctgctcaatgaggggtatc	8	12	11	10	1	3	2	3	2	0	0	5	2	3	2	1	3	2	4	1	3	2	3	rs148824923		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr2:68613709C>T	uc002sen.3	+	5	710	c.548C>T	c.(547-549)TCG>TTG	p.S183L	PLEK_uc010fde.2_Missense_Mutation_p.S183L	NM_002664	NP_002655	P08567	PLEK_HUMAN	pleckstrin	183	DEP.				actin cytoskeleton reorganization|cortical actin cytoskeleton organization|hemopoietic progenitor cell differentiation|inhibition of phospholipase C activity involved in G-protein coupled receptor signaling pathway|integrin-mediated signaling pathway|negative regulation of calcium-mediated signaling|negative regulation of inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|platelet aggregation|positive regulation of actin filament bundle assembly|positive regulation of actin filament depolymerization|positive regulation of inositol-polyphosphate 5-phosphatase activity|positive regulation of integrin activation|positive regulation of platelet activation|protein kinase C signaling cascade|protein secretion by platelet|regulation of cell diameter|ruffle organization|thrombin receptor signaling pathway|vesicle docking involved in exocytosis	cytosol|extracellular region|membrane fraction|ruffle membrane|soluble fraction	phosphatidylinositol-3,4-bisphosphate binding|protein homodimerization activity|protein kinase C binding			ovary(1)	1		Ovarian(717;0.0129)		STAD - Stomach adenocarcinoma(1183;0.00159)|READ - Rectum adenocarcinoma(193;0.0419)		ATTGCTTCATCGCTGCTCAAT	0.527													6	83					0	0	0.001168	0	0		T	68613709	T	T	68613709	3	4	165	1	0	0	0	0	1	0	0	0	12072	893	31	1	566	1	PLEK	2	68613709	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		68613709	174585664	16	89226											
ZEB2	9839	broad.mit.edu	37	chr2	145274864	145274864	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttttcctcctgggattGgcttgtttgcgcctcttgca	2	17	10	12	2	1	0	0	0	1	0	3	1	3	1	4	2	2	4	4	2	0	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr2:145274864G>T	uc002tvu.2	-	2	534	c.54C>A	c.(52-54)GCC>GCA	p.A18A	ZEB2_uc002tvv.2_Silent_p.A13A|ZEB2_uc010zbm.1_Silent_p.A13A|ZEB2_uc010fnp.2_Silent_p.A13A|ZEB2_uc010fnq.1_Silent_p.A47A|ZEB2_uc002tvw.2_Silent_p.A13A|ZEB2_uc002tvx.1_RNA|ZEB2_uc002tvy.2_Silent_p.A47A|ZEB2_uc002tvz.2_RNA|ZEB2_uc002twa.2_RNA	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	18						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TCCTGGGATTGGCTTGTTTGC	0.592													6	116					3.59834e-05	3.88852e-05	0.001168	1	0		T	145274864	T	T	145274864	2	4	165	1	0	0	0	0	0	0	0	1	17649	1335	47	5		5	ZEB2	2	145274864	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	76661155	145274864	97924509	17	89227											
ABCB11	8647	broad.mit.edu	37	chr2	169791908	169791908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaattccagcaacagtgcGgatgttactgagggcttcat	10	11	10	10	1	1	1	1	1	0	0	3	2	3	2	2	2	4	3	2	2	3	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr2:169791908G>A	uc002ueo.1	-	23	2968	c.2842C>T	c.(2842-2844)CGC>TGC	p.R948C	ABCB11_uc010zda.1_Missense_Mutation_p.R390C|ABCB11_uc010zdb.1_Missense_Mutation_p.R424C	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	948	Cytoplasmic (Potential).|ABC transmembrane type-1 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	GCAACAGTGCGGATGTTACTG	0.438													28	188					0	0	0.013726	0	0		A	169791908	A	A	169791908	3	1	165	1	0	0	0	0	1	0	0	0	42	1116	39	1	1147	1	ABCB11	2	169791908	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	24517044	169791908	73407465	18	89228											
SPAG16	79582	broad.mit.edu	37	chr2	214727351	214727351	+	Missense_Mutation	SNP	A	G	G	1	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	cagactgctgcttccatcccAggtcagtgcacaggacccct	8	8	9	16	0	1	1	1	0	0	1	3	2	3	2	4	2	3	3	4	2	0	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr2:214727351A>G	uc002veq.2	+	11	1305	c.1213A>G	c.(1213-1215)AGT>GGT	p.S405G	SPAG16_uc010fuz.1_Missense_Mutation_p.S256G|SPAG16_uc002ver.2_Missense_Mutation_p.S351G|SPAG16_uc010zjk.1_Missense_Mutation_p.S311G	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	405	WD 2.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CTTCCATCCCAGGTCAGTGCA	0.498													3	60					0	0	0.009096	0	0		G	214727351	G	G	214727351	3	3	165	1	0	0	0	0	1	0	0	0	15003	202	7	3	1271	3	SPAG16	2	214727351	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08	44935443	214727351	28472022	19	89229											
CXCR1	3577	broad.mit.edu	37	chr2	219029327	219029327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaggtgtgaggcaggatcCgcaacaccatccgccatttt	11	8	10	12	2	0	1	0	1	0	0	2	2	2	2	4	3	1	2	4	3	2	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr2:219029327C>T	uc002vhc.2	-	2	727	c.608G>A	c.(607-609)CGG>CAG	p.R203Q		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	203	Helical; Name=5; (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						AGGCAGGATCCGCAACACCAT	0.522													8	65					0	0	0.004482	0	0		T	219029327	T	T	219029327	3	4	165	1	0	0	0	0	1	0	0	0	4093	652	23	1	448	1	CXCR1	2	219029327	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	4301976	219029327	24170046	20	89230											
COL4A4	1286	broad.mit.edu	37	chr2	227875130	227875130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggtgggctcctggtccGtctgactgtggagaaccagg	6	8	17	10	1	1	2	0	1	1	1	3	3	3	2	3	6	1	2	3	6	1	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr2:227875130G>A	uc010zlt.1	-	45	5075	c.4421C>T	c.(4420-4422)ACG>ATG	p.T1474M		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1474	Collagen IV NC1.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CTCCTGGTCCGTCTGACTGTG	0.587													15	46					0	0	0.00245	0	0		A	227875130	A	A	227875130	3	1	165	1	0	0	0	0	1	0	0	0	3696	1145	40	1	663	1	COL4A4	2	227875130	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	8845803	227875130	15324243	21	89231											
HDLBP	3069	broad.mit.edu	37	chr2	242196205	242196205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatggtgttctttgggaatgGcaacagttgctgaggcctat	8	13	14	6	0	1	1	0	1	1	0	1	3	1	2	1	4	2	4	1	4	3	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr2:242196205G>A	uc002waz.2	-	6	695	c.467C>T	c.(466-468)GCC>GTC	p.A156V	HDLBP_uc002wba.2_Missense_Mutation_p.A156V|HDLBP_uc002wbb.2_Missense_Mutation_p.A177V|HDLBP_uc010fzn.1_5'UTR	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	156					cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TTTGGGAATGGCAACAGTTGC	0.378													14	58					0	0	0.003163	0	0		A	242196205	A	A	242196205	3	1	165	1	0	0	0	0	1	0	0	0	7041	1203	42	2	3431	2	HDLBP	2	242196205	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	14321075	242196205	1003168	22	89232											
SETD2	29072	broad.mit.edu	37	chr3	47155459	47155459	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttttctctgaaaccgtctaTtggaacaataatccccattt	11	15	5	10	1	2	1	0	1	2	0	4	2	3	2	3	1	2	1	3	1	5	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr3:47155459T>C	uc003cqs.2	-	5	4675	c.4622A>G	c.(4621-4623)AAT>AGT	p.N1541S	SETD2_uc003cqv.2_Missense_Mutation_p.N1530S	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	1541	AWS.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		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)		AAACCGTCTATTGGAACAATA	0.398			N|F|S|Mis		clear cell renal carcinoma								36	88					0	0	0.004878	0	0		C	47155459	C	C	47155459	3	2	165	1	0	0	0	0	1	0	0	0	14156	1493	52	3	3140	3	SETD2	3	47155459	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08		47155459	150866971	23	89233											
LAMB2	3913	broad.mit.edu	37	chr3	49167420	49167420	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaatcacagcgaccaccGtcttgagaacccatggggtc	10	7	12	12	2	2	1	1	1	1	1	3	4	2	2	3	3	2	0	3	3	2	1	rs146643686		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr3:49167420G>A	uc003cwe.2	-	10	1556	c.1257C>T	c.(1255-1257)GAC>GAT	p.D419D	LAMB2_uc003cwf.1_Silent_p.D419D	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	419	Laminin EGF-like 3.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AGCGACCACCGTCTTGAGAAC	0.562													17	167					0	0	0.010504	0	0		A	49167420	A	A	49167420	2	1	165	1	0	0	0	0	0	0	0	1	8627	1136	40	1		1	LAMB2	3	49167420	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2011961	49167420	148855010	24	89234											
PARP3	10039	broad.mit.edu	37	chr3	51979157	51979157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcacacttttacaccGtcatcccgcacaacttcggc	8	11	5	17	3	2	0	2	0	0	0	5	0	4	0	3	1	2	1	3	1	2	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr3:51979157G>A	uc003dby.2	+	6	1149	c.778G>A	c.(778-780)GTC>ATC	p.V260I	PARP3_uc003dbz.2_Missense_Mutation_p.V267I	NM_005485	NP_005476	Q9Y6F1	PARP3_HUMAN	poly (ADP-ribose) polymerase family, member 3	260	PARP alpha-helical.				DNA repair|protein ADP-ribosylation	centriole|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CTTTTACACCGTCATCCCGCA	0.637													4	105					0	0	0.009096	0	0		A	51979157	A	A	51979157	3	1	165	1	0	0	0	0	1	0	0	0	11481	1145	40	1	821	1	PARP3	3	51979157	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2811737	51979157	146043273	25	89235											
PPARGC1A	10891	broad.mit.edu	37	chr4	23815403	23815403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgagaaaaggaccttgaaCgagagcgcatcctttggggt	11	8	14	8	3	0	3	0	1	0	2	2	6	1	4	2	3	2	1	2	3	3	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr4:23815403C>T	uc003gqs.2	-	8	1823	c.1703G>A	c.(1702-1704)CGT>CAT	p.R568H	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	568	Arg/Ser-rich.				androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GGACCTTGAACGAGAGCGCAT	0.453													5	39					0	0	0.001168	0	0		T	23815403	T	T	23815403	3	4	165	1	0	0	0	0	1	0	0	0	12319	536	19	1	717	1	PPARGC1A	4	23815403	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		23815403	167338873	26	89236											
CORIN	10699	broad.mit.edu	37	chr4	47746513	47746513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagcatctgaggaaatcCggccaggagtaattcaccat	12	8	12	9	1	2	1	1	1	1	0	3	4	3	4	3	4	1	2	3	4	2	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr4:47746513C>T	uc003gxm.2	-	5	798	c.705G>A	c.(703-705)CCG>CCA	p.P235P	CORIN_uc011bzf.1_Silent_p.P96P|CORIN_uc011bzg.1_Silent_p.P168P|CORIN_uc011bzh.1_Silent_p.P235P|CORIN_uc011bzi.1_Silent_p.P235P|CORIN_uc003gxn.3_Silent_p.P235P	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	235	Extracellular (Potential).|FZ 1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						TGAGGAAATCCGGCCAGGAGT	0.463													16	201					0	0	0.00499	0	0		T	47746513	T	T	47746513	2	4	165	1	0	0	0	0	0	0	0	1	3755	639	23	1		1	CORIN	4	47746513	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	23931110	47746513	143407763	27	89237											
UGT2A1	10941	broad.mit.edu	37	chr4	70455255	70455255	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatgggctgcaacccgaagGtgcttggctcctttgtggcg	5	11	14	11	2	1	0	1	0	0	0	2	1	2	0	2	4	3	4	2	4	2	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr4:70455255G>C	uc003hem.3	-	6	1482	c.1419C>G	c.(1417-1419)CAC>CAG	p.H473Q	UGT2A1_uc011caq.1_Missense_Mutation_p.H639Q|UGT2A1_uc010ihu.2_Missense_Mutation_p.H473Q|UGT2A1_uc010iht.2_Missense_Mutation_p.H429Q|UGT2A1_uc010ihs.2_Missense_Mutation_p.H474Q	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	473	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						CAACCCGAAGGTGCTTGGCTC	0.488													40	170					0	0	0.007835	0	0		C	70455255	C	C	70455255	3	2	165	1	0	0	0	0	1	0	0	0	16979	1252	44	5	168	5	UGT2A1	4	70455255	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	22708742	70455255	120699021	28	89238											
EREG	2069	broad.mit.edu	37	chr4	75246757	75246757	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagaagacaatccacgtgtgGctcaagtgtcaataacaaag	16	7	9	9	1	2	2	2	0	0	2	3	2	3	2	1	1	1	1	1	1	6	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr4:75246757G>T	uc003hie.1	+	3	347	c.181G>T	c.(181-183)GCT>TCT	p.A61S	EREG_uc003hid.2_Missense_Mutation_p.A55S	NM_001432	NP_001423	O14944	EREG_HUMAN	epiregulin preproprotein	61	Extracellular (Potential).				angiogenesis|cell-cell signaling|cytokine-mediated signaling pathway|epidermal growth factor receptor signaling pathway|female meiosis|keratinocyte differentiation|keratinocyte proliferation|luteinizing hormone signaling pathway|mRNA transcription|negative regulation of epithelial cell proliferation|negative regulation of smooth muscle cell differentiation|negative regulation of transcription, DNA-dependent|oocyte maturation|organ morphogenesis|ovarian cumulus expansion|ovulation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of DNA replication|positive regulation of epidermal growth factor receptor activity|positive regulation of fibroblast proliferation|positive regulation of innate immune response|positive regulation of interleukin-6 biosynthetic process|positive regulation of mitosis|positive regulation of phosphorylation|positive regulation of smooth muscle cell proliferation|primary follicle stage|wound healing	extracellular space|integral to plasma membrane	epidermal growth factor receptor binding|growth factor activity			breast(1)|skin(1)	2			Lung(101;0.196)			TCCACGTGTGGCTCAAGTGTC	0.398													13	99					1.49906e-05	1.63312e-05	0.00245	1	0		T	75246757	T	T	75246757	3	4	165	1	0	0	0	0	1	0	0	0	5228	1203	42	5	191	5	EREG	4	75246757	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	4791502	75246757	115907519	29	89239											
MAML3	55534	broad.mit.edu	37	chr4	140811123	140811123	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctgctgctgctgctgTtgctgttgctgtttctgctg	0	18	13	10	0	1	0	0	0	1	0	1	0	1	0	0	0	9	12	0	0	0	3	rs62344939		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr4:140811123T>C	uc003ihz.1	-	2	2219	c.1467A>G	c.(1465-1467)CAA>CAG	p.Q489Q	MAML3_uc011chd.1_Intron	NM_018717	NP_061187	Q96JK9	MAML3_HUMAN	mastermind-like 3	489	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			ovary(1)	1	all_hematologic(180;0.162)					gctgctgctgttgctgttgct	0.284													3	34					0	0	0.004672	0	0		C	140811123	C	C	140811123	2	2	165	1	0	0	0	0	0	0	0	1	9225	1722	60	3		3	MAML3	4	140811123	Silent	SNP	T	TCGA-D7-6518-01A-11D-1800-08	65564366	140811123	50343153	30	89240											
TRIML1	339976	broad.mit.edu	37	chr4	189068387	189068387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatatagcattctacaacgGgacggatgaatccctcatct	13	10	7	11	2	3	1	1	1	2	0	4	3	4	3	1	2	3	1	1	2	5	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr4:189068387G>A	uc003izm.1	+	6	1383	c.1268G>A	c.(1267-1269)GGG>GAG	p.G423E	TRIML1_uc003izn.1_Missense_Mutation_p.G147E	NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	423	B30.2/SPRY.				multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		TTCTACAACGGGACGGATGAA	0.517													37	121					0	0	0.005524	0	0		A	189068387	A	A	189068387	3	1	165	1	0	0	0	0	1	0	0	0	16576	1232	43	4	1290	4	TRIML1	4	189068387	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	48257264	189068387	2085889	31	89241											
EMB	133418	broad.mit.edu	37	chr5	49699147	49699147	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccacaagctcaatgtgttCttcactctcgcctaattgga	10	12	6	13	1	4	0	2	0	2	0	5	1	4	1	2	1	1	2	2	1	3	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr5:49699147C>A	uc003jom.2	-	6	991	c.742G>T	c.(742-744)GAA>TAA	p.E248*	EMB_uc010ivq.2_Nonsense_Mutation_p.E42*|EMB_uc003jol.2_Nonsense_Mutation_p.E179*|EMB_uc011cpy.1_Nonsense_Mutation_p.E198*|EMB_uc010ivr.2_Nonsense_Mutation_p.E194*	NM_198449	NP_940851	Q6PCB8	EMB_HUMAN	embigin precursor	248	Extracellular (Potential).|Ig-like V-type 2.					integral to membrane					0	Lung SC(58;0.218)	Lung NSC(810;0.0795)				TCAATGTGTTCTTCACTCTCG	0.438													7	161					5.4927e-09	6.23748e-09	0.004482	1	0		A	49699147	A	A	49699147	4	1	165	1	0	0	0	0	0	1	0	0	5093	922	32	5	257	5	EMB	5	49699147	Nonsense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		49699147	131216113	32	89242											
ANKRD55	79722	broad.mit.edu	37	chr5	55407441	55407441	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggtgatgatgtcattGacttctgaggtgtcctcctc	7	14	12	8	0	2	4	1	4	1	0	5	4	4	4	2	3	0	0	2	3	1	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr5:55407441G>T	uc003jqu.2	-	10	1286	c.1134C>A	c.(1132-1134)GTC>GTA	p.V378V	ANKRD55_uc003jqt.2_Silent_p.V90V	NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	377										skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				TGATGTCATTGACTTCTGAGG	0.468													19	461					7.45023e-12	8.68113e-12	0.010504	1	0		T	55407441	T	T	55407441	2	4	165	1	0	0	0	0	0	0	0	1	681	1277	45	5		5	ANKRD55	5	55407441	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	5708294	55407441	125507819	33	89243											
NLN	57486	broad.mit.edu	37	chr5	65088312	65088312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaatcatgcggcctgcttcGgtctccagcctggctgcctt	5	11	10	15	2	2	0	1	0	1	0	4	0	2	0	4	3	4	2	4	3	1	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr5:65088312G>A	uc003juf.2	+	9	1473	c.1357G>A	c.(1357-1359)GGT>AGT	p.G453S	NLN_uc003jue.2_Missense_Mutation_p.G453S|NLN_uc003jug.2_Missense_Mutation_p.G282S|NLN_uc010iww.2_Missense_Mutation_p.G148S	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	453					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		GGCCTGCTTCGGTCTCCAGCC	0.562													10	96					0	0	0.006214	0	0		A	65088312	A	A	65088312	3	1	165	1	0	0	0	0	1	0	0	0	10486	1116	39	1	1391	1	NLN	5	65088312	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	9680871	65088312	115826948	34	89244											
IRF1	3659	broad.mit.edu	37	chr5	131822042	131822042	+	Missense_Mutation	SNP	T	A	A	0	1	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	gtgccagtcggggagagtgcTgctgacagcacatggcgaca	9	6	16	10	2	0	2	0	1	0	1	1	4	0	2	1	3	4	3	1	3	0	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr5:131822042T>A	uc003kxa.2	-	7	802	c.568A>T	c.(568-570)AGC>TGC	p.S190C	C5orf56_uc010jds.1_Missense_Mutation_p.L68Q|IRF1_uc003kxd.2_Intron|IRF1_uc003kxb.2_Missense_Mutation_p.S190C|IRF1_uc010jdt.1_Missense_Mutation_p.S190C	NM_002198	NP_002189	P10914	IRF1_HUMAN	interferon regulatory factor 1	190					blood coagulation|cellular response to mechanical stimulus|interferon-gamma-mediated signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleoplasm					0		all_cancers(142;0.026)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	LUAD - Lung adenocarcinoma(142;0.247)		GGGAGAGTGCTGCTGACAGCA	0.572													3	85					0	0	0.004672	0	0		A	131822042	A	A	131822042	3	1	165	1	0	0	0	0	1	0	0	0	7843	1580	55	5	425	5	IRF1	5	131822042	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	66733730	131822042	49093218	35	89245											
SEC24A	10802	broad.mit.edu	37	chr5	134044579	134044579	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttggctctccttaaacagGtaagaaaaacagatatagaa	17	10	8	6	0	1	3	0	0	1	3	2	3	1	3	1	2	2	3	1	2	8	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr5:134044579G>T	uc003kzs.2	+	18	3015	c.2727_splice	c.e18+1	p.Q909_splice	SEC24A_uc011cxu.1_Splice_Site_p.Q673_splice	NM_021982	NP_068817	O95486	SC24A_HUMAN	SEC24 related gene family, member A						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CCTTAAACAGGTAAGAAAAAC	0.269													15	51					1.49906e-05	1.63312e-05	0.00245	1	0		T	134044579	T	T	134044579	5	4	165	1	0	0	0	0	0	0	1	0	14019	1275	44	5	2798	5	SEC24A	5	134044579	Splice_Site	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2222537	134044579	46870681	36	89246											
SLC35B3	51000	broad.mit.edu	37	chr6	8430176	8430176	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtaagtttgttaaacttgCtgagattcatgccaagtacc	12	13	9	7	0	1	1	1	1	0	1	1	3	1	1	2	0	4	5	2	0	5	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr6:8430176C>A	uc010joe.2	-	3	384	c.218G>T	c.(217-219)AGC>ATC	p.S73I	SLC35B3_uc003mya.2_Missense_Mutation_p.S41I|SLC35B3_uc003myc.2_RNA|SLC35B3_uc003myb.2_Missense_Mutation_p.S73I|SLC35B3_uc011did.1_Missense_Mutation_p.S73I|SLC35B3_uc003myd.2_RNA|SLC35B3_uc010jof.2_Missense_Mutation_p.S41I|SLC35B3_uc011die.1_Missense_Mutation_p.S73I	NM_001142541	NP_001136013	Q9H1N7	S35B3_HUMAN	solute carrier family 35, member B3	73					transmembrane transport	Golgi membrane|integral to membrane					0	Ovarian(93;0.0569)					GTTAAACTTGCTGAGATTCAT	0.348													10	45					7.48243e-07	8.35538e-07	0.006214	1	0		A	8430176	A	A	8430176	3	1	165	1	0	0	0	0	1	0	0	0	14602	797	28	5	1023	5	SLC35B3	6	8430176	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		8430176	162684891	37	89247											
OR5V1	81696	broad.mit.edu	37	chr6	29323192	29323192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtaagttgagatgggccGtacatatgtaaagatggcgc	12	10	14	5	2	0	3	0	2	0	2	0	4	0	3	1	2	1	4	1	2	5	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr6:29323192G>A	uc011dlo.1	-	1	863	c.781C>T	c.(781-783)CGG>TGG	p.R261W		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.R261Q(1)		ovary(3)|kidney(1)	4						GAGATGGGCCGTACATATGTA	0.438													5	92					0	0	0.000602	0	0		A	29323192	A	A	29323192	3	1	165	1	0	0	0	0	1	0	0	0	11203	1144	40	1	187	1	OR5V1	6	29323192	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	20893016	29323192	141791875	38	89248											
LY6G6C	80740	broad.mit.edu	37	chr6	31686897	31686897	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcagcagccagaggccaagGccagccaaggaggtaaggaa	14	2	15	10	0	0	1	0	0	0	1	0	3	0	3	4	5	4	3	4	5	4	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr6:31686897G>C	uc003nwh.2	-	3	408	c.354C>G	c.(352-354)GGC>GGG	p.G118G	LY6G6C_uc010jtd.2_RNA	NM_025261	NP_079537	O95867	LY66C_HUMAN	lymphocyte antigen 6 complex G6C precursor	118						anchored to membrane|plasma membrane					0						AGAGGCCAAGGCCAGCCAAGG	0.607													16	70					0	0	0.004007	0	0		C	31686897	C	C	31686897	2	2	165	1	0	0	0	0	0	0	0	1	9112	1190	42	5		5	LY6G6C	6	31686897	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2363705	31686897	139428170	39	89249											
GFRAL	389400	broad.mit.edu	37	chr6	55216354	55216354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacttgcctcagtgtaattcGcagctgccaaaatgatgaat	12	12	8	9	1	1	2	1	2	0	0	2	2	1	2	2	0	4	3	2	0	5	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr6:55216354G>A	uc003pcm.1	+	5	760	c.674G>A	c.(673-675)CGC>CAC	p.R225H		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	225	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			AGTGTAATTCGCAGCTGCCAA	0.428													18	71					0	0	0.010504	0	0		A	55216354	A	A	55216354	3	1	165	1	0	0	0	0	1	0	0	0	6366	1087	38	1	692	1	GFRAL	6	55216354	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	23529457	55216354	115898713	40	89250											
HIVEP2	3097	broad.mit.edu	37	chr6	143095264	143095264	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggacctgatgtgttttttCagtacactaggtttggcaca	8	15	11	7	0	1	1	1	1	0	0	1	2	1	2	1	3	1	4	1	3	2	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr6:143095264C>T	uc003qjd.2	-	5	1355	c.612G>A	c.(610-612)CTG>CTA	p.L204L		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	204	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TGTGTTTTTTCAGTACACTAG	0.463													21	110					0	0	0.010504	0	0		T	143095264	T	T	143095264	2	4	165	1	0	0	0	0	0	0	0	1	7203	813	29	4		4	HIVEP2	6	143095264	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	87878910	143095264	28019803	41	89251											
MTHFD1L	25902	broad.mit.edu	37	chr6	151257996	151257996	+	Missense_Mutation	SNP	A	G	G	1	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	agtcaccatcgggcttgtgcAggctctgaccgcacacctga	8	8	11	14	2	2	2	1	2	1	0	3	2	2	2	3	2	1	4	3	2	0	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr6:151257996A>G	uc003qob.2	+	12	1581	c.1313A>G	c.(1312-1314)CAG>CGG	p.Q438R	MTHFD1L_uc011een.1_RNA|MTHFD1L_uc011eeo.1_Missense_Mutation_p.Q439R|MTHFD1L_uc003qoc.2_Missense_Mutation_p.Q386R	NM_015440	NP_056255	Q6UB35	C1TM_HUMAN	methylenetetrahydrofolate dehydrogenase (NADP+	438	Formyltetrahydrofolate synthetase.				folic acid-containing compound biosynthetic process|formate metabolic process|one-carbon metabolic process|tetrahydrofolate metabolic process	mitochondrion	ATP binding|formate-tetrahydrofolate ligase activity|protein homodimerization activity			ovary(3)|large_intestine(1)	4		Ovarian(120;0.128)		OV - Ovarian serous cystadenocarcinoma(155;8.7e-12)		GGGCTTGTGCAGGCTCTGACC	0.512													3	175					0	0	0.009096	0	0		G	151257996	G	G	151257996	3	3	165	1	0	0	0	0	1	0	0	0	9946	188	7	3	1359	3	MTHFD1L	6	151257996	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08	8162732	151257996	19857071	42	89252											
DLL1	28514	broad.mit.edu	37	chr6	170594221	170594221	+	Missense_Mutation	SNP	A	T	T	1	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	caggagtagctgttctcgagAtcctacacgatggagaggtc	10	9	13	9	2	1	2	0	0	1	2	4	6	2	3	1	3	2	3	1	3	2	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr6:170594221A>T	uc003qxm.2	-	8	1505	c.1035T>A	c.(1033-1035)GAT>GAA	p.D345E		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	345	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TGTTCTCGAGATCCTACACGA	0.557													11	32					0	0	0.001855	0	0		T	170594221	T	T	170594221	3	4	165	1	0	0	0	0	1	0	0	0	4572	330	12	5	1152	5	DLL1	6	170594221	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08	19336225	170594221	520846	43	89253											
SDK1	221935	broad.mit.edu	37	chr7	4273010	4273010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtggtggctgtgaatgaggCgggctacggggagcccagca	7	6	20	8	2	0	2	0	2	0	0	0	3	0	3	1	7	3	3	1	7	2	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr7:4273010C>T	uc003smx.2	+	41	6090	c.5951C>T	c.(5950-5952)GCG>GTG	p.A1984V	SDK1_uc010kso.2_Missense_Mutation_p.A1240V|SDK1_uc003smy.2_Missense_Mutation_p.A471V|SDK1_uc003smz.2_Missense_Mutation_p.A44V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1984	Fibronectin type-III 13.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GTGAATGAGGCGGGCTACGGG	0.622													4	83					0	0	0.000602	0	0		T	4273010	T	T	4273010	3	4	165	1	0	0	0	0	1	0	0	0	13993	768	27	1	6113	1	SDK1	7	4273010	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		4273010	154865653	44	89254											
C7orf16	10842	broad.mit.edu	37	chr7	31735216	31735216	+	Silent	SNP	C	T	T	0	0	0	1	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	aaagatacaccggcgctgcaCatcccacctttcataccagg	12	7	7	15	2	1	1	1	0	0	1	2	1	2	1	4	2	3	2	4	2	3	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr7:31735216C>T	uc003tcl.2	+	3	374	c.216C>T	c.(214-216)CAC>CAT	p.H72H	C7orf16_uc011kaf.1_Intron	NM_006658	NP_006649	O96001	GSUB_HUMAN	G-substrate isoform 1	72					behavior|central nervous system development|intracellular protein kinase cascade|protein phosphorylation	soluble fraction				ovary(2)|central_nervous_system(1)	3			GBM - Glioblastoma multiforme(11;0.216)			CGGCGCTGCACATCCCACCTT	0.443													8	139					0	0	0.006214	0	0		T	31735216	T	T	31735216	2	4	165	1	0	0	0	0	0	0	0	1	2381	477	17	4		4	C7orf16	7	31735216	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	27462206	31735216	127403447	45	89255											
LAMB1	3912	broad.mit.edu	37	chr7	107572693	107572693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtccatggctttctgccaggCgttgtgtgcaacagtaacca	8	11	11	11	1	1	0	0	0	1	0	2	0	2	0	3	2	4	4	3	2	2	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr7:107572693C>T	uc003vew.2	-	28	4653	c.4318G>A	c.(4318-4320)GCC>ACC	p.A1440T	LAMB1_uc003vev.2_Missense_Mutation_p.A1464T|LAMB1_uc003veu.2_5'Flank	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1440	Domain I.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTCTGCCAGGCGTTGTGTGCA	0.552													16	160					0	0	0.00499	0	0		T	107572693	T	T	107572693	3	4	165	1	0	0	0	0	1	0	0	0	8626	768	27	1	1070	1	LAMB1	7	107572693	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	75837477	107572693	51565970	46	89256											
GCC1	79571	broad.mit.edu	37	chr7	127222337	127222337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcgccctcctccagcagccGatcctgcagctgatgcacct	6	9	8	18	2	0	1	0	1	0	0	4	2	3	1	6	0	5	4	6	0	0	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr7:127222337G>A	uc003vma.2	-	2	2477	c.2059C>T	c.(2059-2061)CGG>TGG	p.R687W		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	687	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						TCCAGCAGCCGATCCTGCAGC	0.592													6	80					0	0	0.001168	0	0		A	127222337	A	A	127222337	3	1	165	1	0	0	0	0	1	0	0	0	6300	1057	37	1	272	1	GCC1	7	127222337	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	19649644	127222337	31916326	47	89257											
XRCC2	7516	broad.mit.edu	37	chr7	152346034	152346034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catttacaagcttctctaagCactgagaacatttcctcaga	13	12	5	11	0	2	2	1	1	1	2	4	3	3	2	1	0	4	2	1	0	4	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr7:152346034C>T	uc003wld.2	-	3	622	c.536G>A	c.(535-537)TGC>TAC	p.C179Y		NM_005431	NP_005422	O43543	XRCC2_HUMAN	X-ray repair cross complementing protein 2	179					meiosis	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity			breast(1)|liver(1)	2		all_hematologic(28;0.0592)|Prostate(32;0.081)	OV - Ovarian serous cystadenocarcinoma(82;0.0423)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0429)		CTTCTCTAAGCACTGAGAACA	0.433								Homologous_recombination					6	162					0	0	0.001168	0	0		T	152346034	T	T	152346034	3	4	165	1	0	0	0	0	1	0	0	0	17479	710	25	2	310	2	XRCC2	7	152346034	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	25123697	152346034	6792629	48	89258											
TMEM215	401498	broad.mit.edu	37	chr9	32784506	32784506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatccggcaaggggagctcaGatgagctggctaagaaggcg	12	5	16	8	2	1	3	1	1	0	2	2	4	2	4	1	5	2	4	1	5	4	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr9:32784506G>A	uc003zri.3	+	2	690	c.325G>A	c.(325-327)GAT>AAT	p.D109N		NM_212558	NP_997723	Q68D42	TM215_HUMAN	transmembrane protein 215	109						integral to membrane					0						GGGGAGCTCAGATGAGCTGGC	0.617													6	66					0	0	0.001168	0	0		A	32784506	A	A	32784506	3	1	165	1	0	0	0	0	1	0	0	0	16163	942	33	4	327	4	TMEM215	9	32784506	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08		32784506	108428925	49	89259											
KIAA1045	23349	broad.mit.edu	37	chr9	34976588	34976588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccaccaagcagccaagcggGgggaccgtgacagggccctg	9	2	16	14	2	0	1	0	1	0	0	0	2	0	2	5	4	3	1	5	4	2	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr9:34976588G>A	uc003zvq.2	+	5	878	c.700G>A	c.(700-702)GGG>AGG	p.G234R	KIAA1045_uc003zvr.2_Missense_Mutation_p.G234R	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	234							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			AGCCAAGCGGGGGGACCGTGA	0.632													9	59					0	0	0.006214	0	0		A	34976588	A	A	34976588	3	1	165	1	0	0	0	0	1	0	0	0	8223	1232	43	4	714	4	KIAA1045	9	34976588	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2192082	34976588	106236843	50	89260											
IARS	3376	broad.mit.edu	37	chr9	95004524	95004524	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	tggtggtaaatatgaactctGtgtggctttcaataacacta	12	14	9	6	0	2	1	1	1	1	0	2	1	2	1	0	3	2	2	0	3	7	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr9:95004524G>C	uc004art.1	-	29	3346	c.3089C>G	c.(3088-3090)ACA>AGA	p.T1030R	IARS_uc004ars.1_Missense_Mutation_p.T875R|IARS_uc004aru.3_Missense_Mutation_p.T1030R|IARS_uc010mqr.2_Missense_Mutation_p.T920R|IARS_uc010mqt.2_Missense_Mutation_p.T253R	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	1030					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	TATGAACTCTGTGTGGCTTTC	0.388													7	70					0	0	0.001984	0	0		C	95004524	C	C	95004524	3	2	165	1	0	0	0	0	1	0	0	0	7489	1377	48	5	723	5	IARS	9	95004524	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	60027936	95004524	46208907	51	89261											
OR1L4	254973	broad.mit.edu	37	chr9	125487043	125487043	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tctatgggagtgtcatctatGtctattttaggcctctgtcc	6	17	9	9	0	5	0	1	0	4	0	6	1	6	1	2	2	0	0	2	2	4	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr9:125487043G>A	uc004bmu.1	+	1	775	c.775G>A	c.(775-777)GTC>ATC	p.V259I		NM_001005235	NP_001005235	Q8NGR5	OR1L4_HUMAN	olfactory receptor, family 1, subfamily L,	259	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGTCATCTATGTCTATTTTAG	0.517													18	81					0	0	0.008871	0	0		A	125487043	A	A	125487043	3	1	165	1	0	0	0	0	1	0	0	0	10984	1377	48	4	777	4	OR1L4	9	125487043	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	30482519	125487043	15726388	52	89262											
DPP7	29952	broad.mit.edu	37	chr9	140006168	140006168	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccctgcccaggggtccaggtTcccgttggagaagatgatgt	7	9	14	11	1	0	3	0	1	0	2	2	4	2	3	4	4	1	2	4	4	1	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr9:140006168T>A	uc004clh.2	-	11	1276	c.1246A>T	c.(1246-1248)AAC>TAC	p.N416Y		NM_013379	NP_037511	Q9UHL4	DPP2_HUMAN	dipeptidyl peptidase 7 preproprotein	416						cytoplasmic membrane-bounded vesicle|extracellular region|lysosome	aminopeptidase activity|protein binding|serine-type peptidase activity				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;4.25e-05)|Epithelial(140;0.000633)		GGGTCCAGGTTCCCGTTGGAG	0.517													4	98					0	0	0.000602	0	0		A	140006168	A	A	140006168	3	1	165	1	0	0	0	0	1	0	0	0	4737	1783	62	5	244	5	DPP7	9	140006168	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	14519125	140006168	1207263	53	89263											
PLCE1	51196	broad.mit.edu	37	chr10	96006106	96006106	+	Missense_Mutation	SNP	A	G	G	1	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	tcttggatctttttgcagtgAaggctgtatacatgggccac	8	14	11	8	0	2	1	0	1	2	0	2	2	2	2	1	3	2	3	1	3	3	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr10:96006106A>G	uc001kjk.2	+	8	3458	c.2824A>G	c.(2824-2826)AAG>GAG	p.K942E	PLCE1_uc010qnx.1_Missense_Mutation_p.K942E|PLCE1_uc001kjm.2_Missense_Mutation_p.K634E	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	942					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TTTTGCAGTGAAGGCTGTATA	0.468													9	143					0	0	0.006214	0	0		G	96006106	G	G	96006106	3	3	165	1	0	0	0	0	1	0	0	0	12053	247	9	3	3136	3	PLCE1	10	96006106	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08		96006106	39528641	54	89264											
CNNM1	26507	broad.mit.edu	37	chr10	101124191	101124191	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggtaaagtggaggtggaGgttggtaaggaaggccttcg	10	8	19	4	1	0	0	0	0	0	0	1	3	0	3	1	8	0	3	1	8	4	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr10:101124191G>A	uc001kpp.3	+	5	2335	c.2046G>A	c.(2044-2046)GAG>GAA	p.E682E	CNNM1_uc009xwe.2_Silent_p.E682E|CNNM1_uc010qpi.1_Silent_p.E682E|CNNM1_uc009xwf.2_Silent_p.E682E|CNNM1_uc009xwg.2_Silent_p.E82E	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	682					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		TGGAGGTGGAGGTTGGTAAGG	0.423													3	23					0	0	0.004672	0	0		A	101124191	A	A	101124191	2	1	165	1	0	0	0	0	0	0	0	1	3615	991	35	4		4	CNNM1	10	101124191	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	5118085	101124191	34410556	55	89265											
DENND5A	23258	broad.mit.edu	37	chr11	9192306	9192306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatggtcaatttttgccagaCgcagctcaattgctttctct	8	16	7	10	1	3	1	2	0	1	1	4	1	3	1	1	1	3	3	1	1	3	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr11:9192306C>T	uc001mhl.2	-	9	2180	c.1925G>A	c.(1924-1926)CGT>CAT	p.R642H	DENND5A_uc001mhk.2_5'UTR|DENND5A_uc010rbw.1_Missense_Mutation_p.R642H|DENND5A_uc010rbx.1_RNA	NM_015213	NP_056028	Q6IQ26	DEN5A_HUMAN	RAB6 interacting protein 1	642										liver(1)	1						TTTTGCCAGACGCAGCTCAAT	0.318													7	129					0	0	0.001984	0	0		T	9192306	T	T	9192306	3	4	165	1	0	0	0	0	1	0	0	0	4442	536	19	1	1998	1	DENND5A	11	9192306	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		9192306	125814210	56	89266											
DSCAML1	57453	broad.mit.edu	37	chr11	117307909	117307909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgttgcaagccctcatgCgcagctcgtaccacgtggcc	7	8	10	16	3	1	0	1	0	0	0	2	0	1	0	3	1	5	5	3	1	2	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr11:117307909C>T	uc001prh.1	-	26	4831	c.4829G>A	c.(4828-4830)CGC>CAC	p.R1610H		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1550	Extracellular (Potential).|Fibronectin type-III 6.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		AGCCCTCATGCGCAGCTCGTA	0.647													5	111					0	0	0.001984	0	0		T	117307909	T	T	117307909	3	4	165	1	0	0	0	0	1	0	0	0	4775	768	27	1	1544	1	DSCAML1	11	117307909	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	108115603	117307909	17698607	57	89267											
PDE3A	5139	broad.mit.edu	37	chr12	20769164	20769164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtcaagtctctttcctagCgcctgagaaggagtttgcct	9	12	10	10	1	2	1	1	1	1	1	4	3	3	2	3	1	2	1	3	1	4	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:20769164C>T	uc001reh.1	+	4	1292	c.1270C>T	c.(1270-1272)CGC>TGC	p.R424C		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	424					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TCTTTCCTAGCGCCTGAGAAG	0.428													10	112					0	0	0.008291	0	0		T	20769164	T	T	20769164	3	4	165	1	0	0	0	0	1	0	0	0	11656	782	27	1	1284	1	PDE3A	12	20769164	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		20769164	113082731	58	89268											
LRRK2	120892	broad.mit.edu	37	chr12	40697868	40697868	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagatcagcatcttggacTtgagtgaaaaagcatattta	15	12	8	6	0	3	3	2	2	1	1	3	4	3	4	0	1	2	2	0	1	4	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:40697868T>G	uc001rmg.3	+	27	3830	c.3709T>G	c.(3709-3711)TTG>GTG	p.L1237V	LRRK2_uc001rmh.1_Missense_Mutation_p.L859V|LRRK2_uc009zjw.2_Missense_Mutation_p.L75V|LRRK2_uc001rmi.2_Missense_Mutation_p.L70V	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1237	LRR 10.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CATCTTGGACTTGAGTGAAAA	0.373													5	79					0	0	0.001168	0	0		G	40697868	G	G	40697868	3	3	165	1	0	0	0	0	1	0	0	0	9051	1606	56	5	3815	5	LRRK2	12	40697868	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	19928704	40697868	93154027	59	89269											
ZBTB39	9880	broad.mit.edu	37	chr12	57398420	57398420	+	Silent	SNP	T	C	C	0	1	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	accccaacattgatcaggtcTgtgaagagttctgaagtgta	12	11	10	8	0	3	4	1	3	2	1	3	4	3	4	2	1	1	2	2	1	4	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:57398420T>C	uc001sml.1	-	2	368	c.282A>G	c.(280-282)ACA>ACG	p.T94T	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	94	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						TGATCAGGTCTGTGAAGAGTT	0.517													15	86					0	0	0.003163	0	0		C	57398420	C	C	57398420	2	2	165	1	0	0	0	0	0	0	0	1	17565	1567	55	3		3	ZBTB39	12	57398420	Silent	SNP	T	TCGA-D7-6518-01A-11D-1800-08	16700552	57398420	76453475	60	89270											
CAND1	55832	broad.mit.edu	37	chr12	67699937	67699937	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agatgtcaagaactcaaggtCtacagattccattcgtctct	12	12	7	10	1	4	3	2	0	2	3	7	3	5	3	1	1	2	0	1	1	4	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:67699937C>G	uc001stn.2	+	10	2926	c.2489C>G	c.(2488-2490)TCT>TGT	p.S830C	CAND1_uc001sto.2_Missense_Mutation_p.S340C	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	830	HEAT 19.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)		AACTCAAGGTCTACAGATTCC	0.413													11	60					0	0	0.010729	0	0		G	67699937	G	G	67699937	3	3	165	1	0	0	0	0	1	0	0	0	2618	913	32	5	2527	5	CAND1	12	67699937	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	10301517	67699937	66151958	61	89271											
NT5DC3	51559	broad.mit.edu	37	chr12	104192371	104192371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcttctcattacctttccGtaaaagtcactcatctgctc	8	15	5	13	1	4	0	3	0	2	0	7	0	5	0	2	0	3	3	2	0	3	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:104192371G>A	uc010swe.1	-	5	650	c.609C>T	c.(607-609)TAC>TAT	p.Y203Y		NM_001031701	NP_001026871	Q86UY8	NT5D3_HUMAN	5'-nucleotidase domain containing 3	203							hydrolase activity|metal ion binding			ovary(2)|skin(1)	3						TTACCTTTCCGTAAAAGTCAC	0.438													3	79					0	0	0.004672	0	0		A	104192371	A	A	104192371	2	1	165	1	0	0	0	0	0	0	0	1	10711	1140	40	1		1	NT5DC3	12	104192371	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	36492434	104192371	29659524	62	89272											
RIC8B	55188	broad.mit.edu	37	chr12	107209073	107209073	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggtagacagttggaaggtGcataaagaggtaaggtagag	15	7	16	3	1	0	3	0	0	0	3	0	4	0	4	0	5	1	5	0	5	6	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:107209073G>T	uc001tlx.2	+	3	857	c.732G>T	c.(730-732)GTG>GTT	p.V244V	RIC8B_uc001tlw.2_Silent_p.V244V|RIC8B_uc001tly.2_Silent_p.V204V|RIC8B_uc001tlz.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	244					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						GTTGGAAGGTGCATAAAGAGG	0.423													29	111					1.88708e-17	2.25776e-17	0.008361	1	0		T	107209073	T	T	107209073	2	4	165	1	0	0	0	0	0	0	0	1	13381	1306	46	5		5	RIC8B	12	107209073	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	3016702	107209073	26642822	63	89273											
PRDM4	11108	broad.mit.edu	37	chr12	108134886	108134886	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgagcacttccacttcctTtctttgctgtgacttggccc	5	16	7	13	0	1	2	0	2	1	0	3	2	3	2	3	1	2	2	3	1	0	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:108134886T>G	uc001tmp.2	-	10	2198	c.1761A>C	c.(1759-1761)GAA>GAC	p.E587D	PRDM4_uc010sww.1_5'UTR|PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	587					cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TCCACTTCCTTTCTTTGCTGT	0.493													7	219					0	0	0.00308	0	0		G	108134886	G	G	108134886	3	3	165	1	0	0	0	0	1	0	0	0	12481	1838	64	5	656	5	PRDM4	12	108134886	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	925813	108134886	25717009	64	89274											
SBNO1	55206	broad.mit.edu	37	chr12	123829886	123829886	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagactattatttttcagtaGatctttaagctgaacttggt	12	17	7	5	0	2	3	1	1	1	2	2	3	2	3	0	1	2	2	0	1	6	8			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr12:123829886G>C	uc010tap.1	-	3	469	c.469C>G	c.(469-471)CTA>GTA	p.L157V	SBNO1_uc010tao.1_Missense_Mutation_p.L156V|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Missense_Mutation_p.L157V|SBNO1_uc001ueu.2_Missense_Mutation_p.L156V|SBNO1_uc001uev.2_Missense_Mutation_p.L155V|SBNO1_uc009zxy.1_Missense_Mutation_p.L122V	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	157							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		TTTTTCAGTAGATCTTTAAGC	0.423													3	114					0	0	0.004672	0	0		C	123829886	C	C	123829886	3	2	165	1	0	0	0	0	1	0	0	0	13887	933	33	5	3828	5	SBNO1	12	123829886	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	15695000	123829886	10022009	65	89275											
ALOX5AP	241	broad.mit.edu	37	chr13	31326239	31326239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcgctgtgctctggtctgCggggctactttgcagccaag	4	11	13	13	2	2	0	0	0	2	0	3	0	2	0	2	3	5	4	2	3	2	2	rs148308449		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr13:31326239C>T	uc001utf.1	+	3	295	c.221C>T	c.(220-222)GCG>GTG	p.A74V	ALOX5AP_uc010tdr.1_Missense_Mutation_p.A131V	NM_001629	NP_001620	P20292	AL5AP_HUMAN	arachidonate 5-lipoxygenase-activating protein	74	Helical.				cellular response to calcium ion|leukotriene biosynthetic process|leukotriene production involved in inflammatory response|protein homotrimerization	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	arachidonic acid binding|protein N-terminus binding				0		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0187)|Epithelial(112;0.0803)|OV - Ovarian serous cystadenocarcinoma(117;0.0864)		CTCTGGTCTGCGGGGCTACTT	0.463													28	81					0	0	0.008361	0	0		T	31326239	T	T	31326239	3	4	165	1	0	0	0	0	1	0	0	0	541	768	27	1	231	1	ALOX5AP	13	31326239	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		31326239	83843639	66	89276											
KBTBD6	89890	broad.mit.edu	37	chr13	41705946	41705946	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggcacactgtctgctcactCtccacgtccagactatccaa	9	10	6	16	1	3	1	1	0	2	1	6	1	5	1	3	1	1	2	3	1	2	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr13:41705946C>G	uc001uxu.1	-	1	991	c.702G>C	c.(700-702)GAG>GAC	p.E234D	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.E168D|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	234							protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		TCTGCTCACTCTCCACGTCCA	0.597													15	86					0	0	0.00245	0	0		G	41705946	G	G	41705946	3	3	165	1	0	0	0	0	1	0	0	0	8013	912	32	5	1326	5	KBTBD6	13	41705946	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	10379707	41705946	73463932	67	89277											
EDNRB	1910	broad.mit.edu	37	chr13	78492238	78492238	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccctttaccttgtagacattGatagggatgtcaatgacgat	11	13	9	8	1	1	3	1	2	0	1	1	5	1	4	2	1	1	1	2	1	4	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr13:78492238G>A	uc001vko.2	-	1	729	c.471C>T	c.(469-471)ATC>ATT	p.I157I	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Silent_p.I157I|EDNRB_uc010aez.1_Silent_p.I157I|EDNRB_uc001vkp.1_Silent_p.I240I|EDNRB_uc010afa.1_Silent_p.I157I	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	157	Helical; Name=2; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	TGTAGACATTGATAGGGATGT	0.512													19	188					0	0	0.012319	0	0		A	78492238	A	A	78492238	2	1	165	1	0	0	0	0	0	0	0	1	4926	1280	45	4		4	EDNRB	13	78492238	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	36786292	78492238	36677640	68	89278											
TPP2	7174	broad.mit.edu	37	chr13	103295620	103295620	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtcagcaaagtttgttcTacatgcagtccagcttgtga	9	13	11	8	0	2	1	1	1	1	0	3	1	3	1	1	1	4	5	1	1	2	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr13:103295620T>G	uc001vpi.3	+	17	2172	c.2069T>G	c.(2068-2070)CTA>CGA	p.L690R		NM_003291	NP_003282	P29144	TPP2_HUMAN	tripeptidyl peptidase II	690					proteolysis	cytoplasm|nucleus	aminopeptidase activity|serine-type endopeptidase activity|tripeptidyl-peptidase activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAGTTTGTTCTACATGCAGTC	0.373													10	50					0	0	0.008291	0	0		G	103295620	G	G	103295620	3	3	165	1	0	0	0	0	1	0	0	0	16438	1522	53	5	2135	5	TPP2	13	103295620	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	24803382	103295620	11874258	69	89279											
KIAA1409	57578	broad.mit.edu	37	chr14	94053116	94053116	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttgtataggaaatggctaAgtttgaagagccagacattc	13	13	10	5	0	0	3	0	1	0	2	1	4	0	4	1	2	1	3	1	2	5	7			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr14:94053116A>C	uc001ybv.1	+	19	2446	c.2363A>C	c.(2362-2364)AAG>ACG	p.K788T	KIAA1409_uc001ybs.1_Missense_Mutation_p.K788T	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	965						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GAAATGGCTAAGTTTGAAGAG	0.358													5	117					0	0	0.001168	0	0		C	94053116	C	C	94053116	3	2	165	1	0	0	0	0	1	0	0	0	8246	72	3	5	2437	5	KIAA1409	14	94053116	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08		94053116	13296424	70	89280											
FANCI	55215	broad.mit.edu	37	chr15	89837116	89837116	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttatgtgttacaaaaaactcTctgacattcttaatgaaaaa	17	14	4	6	0	2	2	0	2	2	0	3	2	2	2	0	0	2	1	0	0	8	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr15:89837116T>G	uc010bnp.1	+	23	2434	c.2344T>G	c.(2344-2346)TCT>GCT	p.S782A	FANCI_uc002bnm.1_Missense_Mutation_p.S782A|FANCI_uc002bnn.1_RNA|FANCI_uc002bnp.1_Missense_Mutation_p.S603A|FANCI_uc002bnq.1_Missense_Mutation_p.S195A	NM_001113378	NP_001106849	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I isoform	782					cell cycle|DNA repair	nucleoplasm	protein binding			ovary(2)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					CAAAAAACTCTCTGACATTCT	0.348								Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				15	102					0	0	0.00245	0	0		G	89837116	G	G	89837116	3	3	165	1	0	0	0	0	1	0	0	0	5683	1551	54	5	2430	5	FANCI	15	89837116	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08		89837116	12694276	71	89281											
WDR90	197335	broad.mit.edu	37	chr16	701703	701703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcctccagcaaacctgtgCggttcagtgtgtctccagtg	6	11	12	12	1	2	0	1	0	1	0	4	0	3	0	4	2	3	2	4	2	1	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr16:701703C>T	uc002cii.1	+	8	850	c.796C>T	c.(796-798)CGG>TGG	p.R266W	WDR90_uc002cig.1_Missense_Mutation_p.R266W|WDR90_uc002cih.1_Missense_Mutation_p.R266W|WDR90_uc002cij.1_RNA	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	266										ovary(1)	1		Hepatocellular(780;0.0218)				CAAACCTGTGCGGTTCAGTGT	0.652													16	170					0	0	0.004007	0	0		T	701703	T	T	701703	3	4	165	1	0	0	0	0	1	0	0	0	17363	759	27	1	826	1	WDR90	16	701703	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08		701703	89653050	72	89282											
ATP2A1	487	broad.mit.edu	37	chr16	28909608	28909608	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgcgagttggcaccaccCgggtgccactgacggggccg	6	6	16	13	4	0	1	0	1	0	0	0	2	0	1	4	4	2	2	4	4	0	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr16:28909608C>A	uc002dro.1	+	14	1784	c.1600C>A	c.(1600-1602)CGG>AGG	p.R534R	uc010vct.1_Intron|ATP2A1_uc002drn.1_Silent_p.R534R|ATP2A1_uc002drp.1_Silent_p.R409R	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	534	Cytoplasmic (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGGCACCACCCGGGTGCCACT	0.632													17	93					1.00905e-13	1.19657e-13	0.008871	1	0		A	28909608	A	A	28909608	2	1	165	1	0	0	0	0	0	0	0	1	1137	643	23	5		5	ATP2A1	16	28909608	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	28207905	28909608	61445145	73	89283											
PHKG2	5261	broad.mit.edu	37	chr16	30768315	30768315	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcagcagaaccgggcggctcTctttcagcaccggccccctg	6	6	12	17	3	2	1	1	0	1	1	3	1	2	1	4	3	3	4	4	3	1	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr16:30768315T>C	uc002dzk.1	+	10	1211	c.1118T>C	c.(1117-1119)CTC>CCC	p.L373P	PHKG2_uc002dzi.1_Missense_Mutation_p.L377P|PHKG2_uc002dzj.1_Missense_Mutation_p.L271P	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	373					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			CGGGCGGCTCTCTTTCAGCAC	0.617													4	99					0	0	0.009096	0	0		C	30768315	C	C	30768315	3	2	165	1	0	0	0	0	1	0	0	0	11866	1551	54	3	1152	3	PHKG2	16	30768315	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	1858707	30768315	59586438	74	89284											
CDH1	999	broad.mit.edu	37	chr16	68845623	68845623	+	Missense_Mutation	SNP	A	G	G	1	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	ggtcacagccacagacgcggAcgatgatgtgaacacctaca	13	5	11	12	3	1	3	1	2	0	1	1	5	1	4	2	2	3	0	2	2	2	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr16:68845623A>G	uc002ewg.1	+	7	993	c.869A>G	c.(868-870)GAC>GGC	p.D290G	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.D290G	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	290	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		ACAGACGCGGACGATGATGTG	0.493			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				6	101					0	0	0.00308	0	0		G	68845623	G	G	68845623	3	3	165	1	0	0	0	0	1	0	0	0	3098	275	10	3	895	3	CDH1	16	68845623	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08	38077308	68845623	21509130	75	89285											
INCA1	388324	broad.mit.edu	37	chr17	4891775	4891775	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggctgtgacagtgctgaaCgaggccagagagtgcagctg	9	7	16	9	1	0	3	0	2	0	1	0	5	0	3	1	2	4	4	1	2	1	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:4891775C>T	uc002gaj.2	-	8	1088	c.636G>A	c.(634-636)TCG>TCA	p.S212S	CAMTA2_uc010cku.1_5'Flank|CAMTA2_uc002gag.1_5'Flank|CAMTA2_uc002gah.1_5'Flank|CAMTA2_uc002gai.1_5'Flank|CAMTA2_uc010vsu.1_5'Flank|INCA1_uc002gak.2_Silent_p.S212S|INCA1_uc002gal.2_Silent_p.S197S|INCA1_uc002gam.2_Silent_p.S197S	NM_213726	NP_998891	Q0VD86	INCA1_HUMAN	inhibitor of CDK, cyclin A1 interacting protein	212						nucleus					0						CAGTGCTGAACGAGGCCAGAG	0.567													7	83					0	0	0.001984	0	0		T	4891775	T	T	4891775	2	4	165	1	0	0	0	0	0	0	0	1	7748	523	19	1		1	INCA1	17	4891775	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08		4891775	76303435	76	89286											
TP53	7157	broad.mit.edu	37	chr17	7578407	7578407	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcatggtgggggcagcGcctcacaacctccgtcatgt	6	8	13	14	3	3	0	3	0	0	0	4	0	4	0	3	3	2	2	3	3	1	0	rs138729528		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:7578407G>C	uc002gim.2	-	5	717	c.523C>G	c.(523-525)CGC>GGC	p.R175G	TP53_uc002gig.1_Missense_Mutation_p.R175G|TP53_uc002gih.2_Missense_Mutation_p.R175G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43G|TP53_uc010cng.1_Missense_Mutation_p.R43G|TP53_uc002gii.1_Missense_Mutation_p.R43G|TP53_uc010cnh.1_Missense_Mutation_p.R175G|TP53_uc010cni.1_Missense_Mutation_p.R175G|TP53_uc002gij.2_Missense_Mutation_p.R175G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82G|TP53_uc002gio.2_Missense_Mutation_p.R43G|TP53_uc010vug.1_Missense_Mutation_p.R136G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(721)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(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.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.S149fs*72(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TGGGGGCAGCGCCTCACAACC	0.657		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			9	49					0	0	0.006214	0	0		C	7578407	C	C	7578407	3	2	165	1	0	0	0	0	1	0	0	0	16407	1087	38	5	775	5	TP53	17	7578407	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2686632	7578407	73616803	77	89287											
MFSD6L	162387	broad.mit.edu	37	chr17	8701689	8701689	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagaacgccacggacccCaaggagaggataaaagtccg	14	3	11	13	3	0	2	0	0	0	2	2	5	2	4	5	3	1	0	5	3	4	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:8701689C>G	uc002glp.1	-	1	898	c.750G>C	c.(748-750)TTG>TTC	p.L250F		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	250	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1						CCACGGACCCCAAGGAGAGGA	0.577													5	79					0	0	0.000602	0	0		G	8701689	G	G	8701689	3	3	165	1	0	0	0	0	1	0	0	0	9554	593	21	5	1014	5	MFSD6L	17	8701689	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	1123282	8701689	72493521	78	89288											
MYH13	8735	broad.mit.edu	37	chr17	10219280	10219280	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaactgtgtctgttgctcGtccttggctttgatttcact	5	18	8	10	1	3	1	2	1	1	0	5	1	4	1	1	1	2	3	1	1	1	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:10219280G>A	uc002gmk.1	-	28	3891	c.3801C>T	c.(3799-3801)GAC>GAT	p.D1267D		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1267	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTGTTGCTCGTCCTTGGCTT	0.463													44	88					0	0	0.01441	0	0		A	10219280	A	A	10219280	2	1	165	1	0	0	0	0	0	0	0	1	10050	1136	40	1		1	MYH13	17	10219280	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	1517591	10219280	70975930	79	89289											
ZNF286A	57335	broad.mit.edu	37	chr17	15604534	15604534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggagaagtggctgctctgCgcctcacggccagatcccag	8	6	14	13	2	2	2	1	0	1	2	3	3	3	2	3	3	2	2	3	3	1	0	rs145330416	byFrequency	TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:15604534C>T	uc010cot.2	+	3	502	c.106C>T	c.(106-108)CGC>TGC	p.R36C	ZNF286A_uc002goz.3_5'UTR|ZNF286A_uc010vwa.1_Missense_Mutation_p.R36C|ZNF286A_uc002gpa.2_Missense_Mutation_p.R36C	NM_001130842	NP_001124314	Q9HBT8	Z286A_HUMAN	zinc finger protein 286	36					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.0781)		GGCTGCTCTGCGCCTCACGGC	0.483													22	142					0	0	0.012319	0	0		T	15604534	T	T	15604534	3	4	165	1	0	0	0	0	1	0	0	0	17848	768	27	1	112	1	ZNF286A	17	15604534	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	5385254	15604534	65590676	80	89290											
UTP6	55813	broad.mit.edu	37	chr17	30190407	30190407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagtctgatgcatagcatGtttagctacaaatgcctctg	10	12	9	10	0	2	1	0	1	2	0	2	1	2	1	2	0	5	4	2	0	4	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:30190407G>A	uc002hgr.2	-	19	1848	c.1765C>T	c.(1765-1767)CAT>TAT	p.H589Y	UTP6_uc002hgq.2_Missense_Mutation_p.H405Y|UTP6_uc010cst.2_Missense_Mutation_p.H438Y	NM_018428	NP_060898	Q9NYH9	UTP6_HUMAN	hepatocellular carcinoma-associated antigen 66	589					rRNA processing	nucleolus	binding			ovary(1)	1		all_hematologic(16;0.0149)|Ovarian(249;0.021)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|Breast(31;0.231)				TGCATAGCATGTTTAGCTACA	0.453													4	181					0	0	0.009096	0	0		A	30190407	A	A	30190407	3	1	165	1	0	0	0	0	1	0	0	0	17128	1377	48	4	32	4	UTP6	17	30190407	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	14585873	30190407	51004803	81	89291											
ACCN1	40	broad.mit.edu	37	chr17	32483077	32483077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggtcatggcccacacGgtgcaggaactccagcatgc	9	7	11	14	1	2	0	2	0	0	0	3	1	3	1	2	4	4	2	2	4	1	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:32483077G>A	uc002hhu.2	-	1	749	c.475C>T	c.(475-477)CGT>TGT	p.R159C		NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	159	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	TGGCCCACACGGTGCAGGAAC	0.567													45	104					0	0	0.010771	0	0		A	32483077	A	A	32483077	3	1	165	1	0	0	0	0	1	0	0	0	128	1116	39	1	1815	1	ACCN1	17	32483077	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2292670	32483077	48712133	82	89292											
CDC6	990	broad.mit.edu	37	chr17	38447833	38447833	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	ttcttgagggaacacatctgTgggaaaaaagctggaagcct	13	9	12	7	0	2	1	0	1	2	0	2	4	2	4	1	3	3	1	1	3	5	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:38447833T>A	uc002huj.1	+	4	783	c.573T>A	c.(571-573)TGT>TGA	p.C191*		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	191					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						AACACATCTGTGGGAAAAAAG	0.502													10	110					0	0	0.013537	0	0		A	38447833	A	A	38447833	4	1	165	1	0	0	0	0	0	1	0	0	3086	1702	59	5	583	5	CDC6	17	38447833	Nonsense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	5964756	38447833	42747377	83	89293											
ANKRD40	91369	broad.mit.edu	37	chr17	48776919	48776919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cactggtggctgacaaacagGacccggttttgtgctttctg	7	12	12	10	1	1	1	0	1	1	0	1	2	1	2	1	4	2	3	1	4	1	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:48776919G>A	uc002iso.2	-	3	874	c.619C>T	c.(619-621)CCT>TCT	p.P207S		NM_052855	NP_443087	Q6AI12	ANR40_HUMAN	ankyrin repeat domain 40	207	Pro-rich.										0			BRCA - Breast invasive adenocarcinoma(22;2.03e-09)			TGACAAACAGGACCCGGTTTT	0.552													50	133					0	0	0.01441	0	0		A	48776919	A	A	48776919	3	1	165	1	0	0	0	0	1	0	0	0	669	1174	41	4	499	4	ANKRD40	17	48776919	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	10329086	48776919	32418291	84	89294											
BPTF	2186	broad.mit.edu	37	chr17	65919031	65919031	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagaaacgcccaagcaaaCtggccctgttattattgaaa	15	8	7	11	1	0	2	0	1	0	1	0	2	0	2	3	1	3	2	3	1	6	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:65919031C>A	uc002jgf.2	+	14	5694	c.5633C>A	c.(5632-5634)ACT>AAT	p.T1878N	BPTF_uc002jge.2_Missense_Mutation_p.T2004N	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2004					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			CCCAAGCAAACTGGCCCTGTT	0.463													3	69					0.00024832	0.000266199	0.009096	1	0		A	65919031	A	A	65919031	3	1	165	1	0	0	0	0	1	0	0	0	1498	565	20	5	6073	5	BPTF	17	65919031	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	17142112	65919031	15276179	85	89295											
SSTR2	6752	broad.mit.edu	37	chr17	71166520	71166520	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccggctgaatgagaccacGgagacccagaggaccctcct	10	5	11	15	2	0	4	0	2	0	3	2	7	2	5	5	3	0	1	5	3	1	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr17:71166520G>A	uc002jje.2	+	2	1422	c.1062G>A	c.(1060-1062)ACG>ACA	p.T354T		NM_001050	NP_001041	P30874	SSR2_HUMAN	somatostatin receptor 2	354	Cytoplasmic (Potential).				digestion|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	PDZ domain binding|somatostatin receptor activity				0			LUSC - Lung squamous cell carcinoma(166;0.197)			ATGAGACCACGGAGACCCAGA	0.552													3	77					0	0	0.004672	0	0		A	71166520	A	A	71166520	2	1	165	1	0	0	0	0	0	0	0	1	15223	1103	39	1		1	SSTR2	17	71166520	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	5247489	71166520	10028690	86	89296											
LAMA1	284217	broad.mit.edu	37	chr18	7080074	7080074	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccatctatggcatgtgatAttggatggcgttctgttgaa	8	15	12	6	1	2	2	0	2	2	0	2	3	2	3	1	3	1	3	1	3	3	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr18:7080074A>T	uc002knm.2	-	3	339	c.245T>A	c.(244-246)ATA>AAA	p.I82K	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	82	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCATGTGATATTGGATGGCG	0.398													6	36					0	0	0.004482	0	0		T	7080074	T	T	7080074	3	4	165	1	0	0	0	0	1	0	0	0	8621	449	16	5	9226	5	LAMA1	18	7080074	Missense_Mutation	SNP	A	TCGA-D7-6518-01A-11D-1800-08		7080074	70997174	87	89297											
KIAA1012	22878	broad.mit.edu	37	chr18	29435730	29435730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcccgtacatttaaagaccGactggtacaaataattgcag	14	9	9	9	2	0	1	0	0	0	1	0	2	0	1	2	2	3	3	2	2	6	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr18:29435730G>A	uc002kxc.3	-	21	3593	c.3229C>T	c.(3229-3231)CGG>TGG	p.R1077W	KIAA1012_uc002kxb.3_Missense_Mutation_p.R1023W|KIAA1012_uc002kxd.3_RNA	NM_014939	NP_055754	Q9Y2L5	TPPC8_HUMAN	hypothetical protein LOC22878	1077					ER to Golgi vesicle-mediated transport	cis-Golgi network					0						TTTAAAGACCGACTGGTACAA	0.353													16	33					0	0	0.00499	0	0		A	29435730	A	A	29435730	3	1	165	1	0	0	0	0	1	0	0	0	8220	1057	37	1	1114	1	KIAA1012	18	29435730	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	22355656	29435730	48641518	88	89298											
ZNF236	7776	broad.mit.edu	37	chr18	74607109	74607109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcccgcagtgcttccgcGccttcgccgtgaagagcacg	6	7	13	15	6	0	2	0	1	0	1	2	2	1	2	4	0	3	3	4	0	1	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr18:74607109G>A	uc002lmi.2	+	10	1750	c.1552G>A	c.(1552-1554)GCC>ACC	p.A518T	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	518	C2H2-type 11.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		GTGCTTCCGCGCCTTCGCCGT	0.617													9	78					0	0	0.008291	0	0		A	74607109	A	A	74607109	3	1	165	1	0	0	0	0	1	0	0	0	17814	1087	38	1	1590	1	ZNF236	18	74607109	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	45171379	74607109	3470139	89	89299											
ATP9B	374868	broad.mit.edu	37	chr18	76936846	76936846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcgaactgatcaactagatgGtgaaactgactggaagctga	14	9	11	7	1	1	5	1	4	0	1	2	7	1	6	0	2	4	1	0	2	5	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr18:76936846G>A	uc002lmx.2	+	8	826	c.812G>A	c.(811-813)GGT>GAT	p.G271D	ATP9B_uc002lmv.1_Intron|ATP9B_uc002lmw.1_Missense_Mutation_p.G271D|ATP9B_uc002lmy.1_Intron|ATP9B_uc002lmz.1_Translation_Start_Site	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	271	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		CAACTAGATGGTGAAACTGAC	0.453													4	108					0	0	0.001168	0	0		A	76936846	A	A	76936846	3	1	165	1	0	0	0	0	1	0	0	0	1200	1261	44	4	842	4	ATP9B	18	76936846	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2329737	76936846	1140402	90	89300											
ZNF557	79230	broad.mit.edu	37	chr19	7081985	7081985	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttaacttgtttcagatgtGgagaatccatttaaagccaa	13	15	7	6	0	1	2	1	0	0	2	2	3	2	2	2	1	2	1	2	1	5	6			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:7081985G>A	uc002mgb.2	+	7	812	c.327G>A	c.(325-327)GTG>GTA	p.V109V	ZNF557_uc002mga.2_Silent_p.V116V|ZNF557_uc002mgc.2_Silent_p.V116V	NM_001044388	NP_001037853	Q8N988	ZN557_HUMAN	zinc finger protein 557 isoform b	109					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2				Lung(535;0.179)		TTTCAGATGTGGAGAATCCAT	0.328													12	76					0	0	0.013537	0	0		A	7081985	A	A	7081985	2	1	165	1	0	0	0	0	0	0	0	1	18013	1335	47	4		4	ZNF557	19	7081985	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08		7081985	52046998	91	89301											
ZNF317	57693	broad.mit.edu	37	chr19	9271728	9271728	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacacaggaagatacacacGcaagagagacgctacgaatg	17	3	11	10	3	0	3	0	0	0	3	0	6	0	4	0	1	2	3	0	1	5	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:9271728G>A	uc002mku.2	+	7	1682	c.1407G>A	c.(1405-1407)ACG>ACA	p.T469T	ZNF317_uc002mkv.2_Silent_p.T328T|ZNF317_uc002mkw.2_Silent_p.T437T|ZNF317_uc002mkx.2_Silent_p.T384T|ZNF317_uc002mky.2_Silent_p.T352T	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	469					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGATACACACGCAAGAGAGAC	0.532													5	57					0	0	0.000602	0	0		A	9271728	A	A	9271728	2	1	165	1	0	0	0	0	0	0	0	1	17860	1074	38	1		1	ZNF317	19	9271728	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2189743	9271728	49857255	92	89302											
SLC1A6	6511	broad.mit.edu	37	chr19	15063868	15063868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacactggctgctgtggcCgtgatgctgcagggggaggg	6	7	18	10	1	0	1	0	1	0	0	0	2	0	2	2	5	4	4	2	5	1	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:15063868C>T	uc002naa.1	-	8	1379	c.1371G>A	c.(1369-1371)ACG>ACA	p.T457T	SLC1A6_uc010dzu.1_Silent_p.T379T|SLC1A6_uc010xod.1_Silent_p.T393T	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	457					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	CTGCTGTGGCCGTGATGCTGC	0.363													48	90					0	0	0.01441	0	0		T	15063868	T	T	15063868	2	4	165	1	0	0	0	0	0	0	0	1	14461	639	23	1		1	SLC1A6	19	15063868	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	5792140	15063868	44065115	93	89303											
ZNF599	148103	broad.mit.edu	37	chr19	35251150	35251150	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtcatggggtcttttcctgGtccttgagagtcacactcat	7	14	10	10	0	4	1	3	1	1	1	6	2	6	1	2	3	0	0	2	3	0	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:35251150G>T	uc010edn.1	-	4	944	c.556C>A	c.(556-558)CCA>ACA	p.P186T	ZNF599_uc010edm.1_Missense_Mutation_p.P149T	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			TCTTTTCCTGGTCCTTGAGAG	0.473													22	148					2.89027e-11	3.33876e-11	0.014323	1	0		T	35251150	T	T	35251150	3	4	165	1	0	0	0	0	1	0	0	0	18054	1261	44	5	1214	5	ZNF599	19	35251150	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	20187282	35251150	23877833	94	89304											
ZFP30	22835	broad.mit.edu	37	chr19	38126844	38126844	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctgatgtcgactgaggtGggcacactgtctaaaggctt	8	12	12	9	1	2	2	0	2	2	0	4	3	2	2	0	3	0	2	0	3	2	2	rs148501385		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:38126844G>T	uc002ogv.1	-	6	1114	c.598C>A	c.(598-600)CAC>AAC	p.H200N	ZFP30_uc002ogw.1_Missense_Mutation_p.H200N|ZFP30_uc002ogx.1_Missense_Mutation_p.H200N|ZFP30_uc010xtt.1_Missense_Mutation_p.H199N	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	200	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CGACTGAGGTGGGCACACTGT	0.383													21	139					1.10513e-12	1.29902e-12	0.014323	1	0		T	38126844	T	T	38126844	3	4	165	1	0	0	0	0	1	0	0	0	17669	1348	47	5	965	5	ZFP30	19	38126844	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2875694	38126844	21002139	95	89305											
HIPK4	147746	broad.mit.edu	37	chr19	40886895	40886895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagcactggggctgatgcGttcgtgtgactcccaggtca	6	9	15	11	2	1	2	1	2	0	0	3	2	2	2	1	4	2	4	1	4	0	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:40886895G>A	uc002onp.2	-	3	1288	c.1003C>T	c.(1003-1005)CGC>TGC	p.R335C		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	335	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			GGGCTGATGCGTTCGTGTGAC	0.652													5	81					0	0	0.000602	0	0		A	40886895	A	A	40886895	3	1	165	1	0	0	0	0	1	0	0	0	7135	1145	40	1	855	1	HIPK4	19	40886895	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	2760051	40886895	18242088	96	89306											
PSG3	5671	broad.mit.edu	37	chr19	43243051	43243051	+	Silent	SNP	A	G	G																															ccatatataattatttgaccAtctactacgtatgatgtaat																								rs139303960	by1000genomes	TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:43243051A>G	uc002oue.2	-	2	387	c.255T>C	c.(253-255)GAT>GAC	p.D85D	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Silent_p.D107D	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	85	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				TTATTTGACCATCTACTACGT	0.443													12	658					0	0	0.013537	0	0		G	43243051	G	G	43243051	2	3	165	1	0	0	0	0	0	0	0	1	12678	214	8	3		3	PSG3	19	43243051	Silent	SNP	A	TCGA-D7-6518-01A-11D-1800-08	2356156	43243051	15885932	97	89307	164	2									
PSG3	5671	broad.mit.edu	37	chr19	43243060	43243060	+	Silent	SNP	G	A	A																															attatttgaccatctactacGtatgatgtaatgtaatggta																										TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:43243060G>A	uc002oue.2	-	2	378	c.246C>T	c.(244-246)TAC>TAT	p.Y82Y	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Silent_p.Y104Y	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	82	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				CATCTACTACGTATGATGTAA	0.443													9	637					0	0	0.004482	0	0		A	43243060	A	A	43243060	2	1	165	1	0	0	0	0	0	0	0	1	12678	1140	40	1		1	PSG3	19	43243060	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	9	43243060	15885923	98	89308	164	2									
SCAF1	58506	broad.mit.edu	37	chr19	50149863	50149863	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatacctgggttcccagccgCctggacctgcggcctggcga	5	7	14	15	3	0	0	0	0	0	0	1	3	1	1	6	4	3	1	6	4	1	2			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:50149863C>T	uc002poq.2	+	5	466	c.342C>T	c.(340-342)CGC>CGT	p.R114R		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	114					mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		TTCCCAGCCGCCTGGACCTGC	0.667													11	46					0	0	0.013537	0	0		T	50149863	T	T	50149863	2	4	165	1	0	0	0	0	0	0	0	1	13893	726	26	2		2	SCAF1	19	50149863	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	6906803	50149863	8979120	99	89309											
ZNF578	147660	broad.mit.edu	37	chr19	53014862	53014862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggcaaggcttttaatCaacaatcacacctttcacgt	13	12	6	10	1	3	0	3	0	0	0	3	0	3	0	1	2	1	2	1	2	5	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:53014862C>A	uc002pzp.3	+	6	1472	c.1228C>A	c.(1228-1230)CAA>AAA	p.Q410K		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	185	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		GGCTTTTAATCAACAATCACA	0.383													7	160					2.7689e-08	3.11792e-08	0.001984	1	0		A	53014862	A	A	53014862	3	1	165	1	0	0	0	0	1	0	0	0	18035	827	29	5	1238	5	ZNF578	19	53014862	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	2864999	53014862	6114121	100	89310											
ZNF600	162966	broad.mit.edu	37	chr19	53268973	53268973	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtatgttgtttcaggtgtGaatcactcccaaaagtcttg	10	14	9	8	0	3	1	2	1	1	0	4	1	4	1	1	1	0	3	1	1	4	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:53268973G>C	uc002qab.3	-	3	2322	c.2036C>G	c.(2035-2037)TCA>TGA	p.S679*		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	679	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		TTTCAGGTGTGAATCACTCCC	0.398													4	158					0	0	0.009096	0	0		C	53268973	C	C	53268973	4	2	165	1	0	0	0	0	0	1	0	0	18055	1294	45	5	136	5	ZNF600	19	53268973	Nonsense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	254111	53268973	5860010	101	89311											
ZNF582	147948	broad.mit.edu	37	chr19	56901826	56901826	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgccaaccactgccattcTtcttgggagaagactatggc	9	10	11	11	0	2	2	0	0	2	2	2	3	2	2	3	3	3	0	3	3	3	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:56901826T>G	uc002qmz.1	-	3	213	c.54A>C	c.(52-54)GAA>GAC	p.E18D	ZNF582_uc002qmy.2_Missense_Mutation_p.E49D	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	18	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		ACTGCCATTCTTCTTGGGAGA	0.478													10	147					0	0	0.008291	0	0		G	56901826	G	G	56901826	3	3	165	1	0	0	0	0	1	0	0	0	18039	1606	56	5	1511	5	ZNF582	19	56901826	Missense_Mutation	SNP	T	TCGA-D7-6518-01A-11D-1800-08	3632853	56901826	2227157	102	89312											
ZNF416	55659	broad.mit.edu	37	chr19	58083815	58083815	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttctccagtgtgagttCtctggtgcctaacaagttta	7	15	9	10	0	2	1	0	1	2	0	4	1	2	1	3	1	2	2	3	1	3	5			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:58083815C>A	uc002qpf.2	-	4	1628	c.1457G>T	c.(1456-1458)AGA>ATA	p.R486I	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	486	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		AGTGTGAGTTCTCTGGTGCCT	0.403													11	131					2.80697e-09	3.21483e-09	0.010729	1	0		A	58083815	A	A	58083815	3	1	165	1	0	0	0	0	1	0	0	0	17918	913	32	5	331	5	ZNF416	19	58083815	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	1181989	58083815	1045168	103	89313											
ZNF417	147687	broad.mit.edu	37	chr19	58420743	58420743	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgactaaaagatttcccGcactcctcacagggataagc	12	10	7	12	1	2	2	1	1	1	1	4	3	4	3	2	1	1	1	2	1	3	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr19:58420743G>A	uc002qqq.2	-	3	1102	c.903C>T	c.(901-903)TGC>TGT	p.C301C	ZNF417_uc010yhm.1_Silent_p.C258C|ZNF417_uc002qqr.2_Silent_p.C300C	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	301	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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;0.0151)		AAGATTTCCCGCACTCCTCAC	0.453													6	327					0	0	0.001168	0	0		A	58420743	A	A	58420743	2	1	165	1	0	0	0	0	0	0	0	1	17919	1079	38	1		1	ZNF417	19	58420743	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08	336928	58420743	708240	104	89314											
TASP1	55617	broad.mit.edu	37	chr20	13415717	13415717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtgtctgcttattttgggagGagtcaggctcggcagaacat	8	12	14	7	1	2	1	1	0	1	1	3	3	2	3	0	4	2	3	0	4	2	3			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr20:13415717G>A	uc002woi.2	-	12	1187	c.1070C>T	c.(1069-1071)TCC>TTC	p.S357F	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Missense_Mutation_p.S334F	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	357				S -> F (in Ref. 1; BAA91018).	asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						ATTTTGGGAGGAGTCAGGCTC	0.423													5	22					0	0	0.000602	0	0		A	13415717	A	A	13415717	3	1	165	1	0	0	0	0	1	0	0	0	15614	1174	41	4	204	4	TASP1	20	13415717	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08		13415717	49609803	105	89315											
DNMT3B	1789	broad.mit.edu	37	chr20	31394056	31394056	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accaccaagtcgaactcgatCaaacaggggaaaaaccaact	18	4	7	12	2	1	0	1	0	0	0	3	3	1	1	3	2	4	0	3	2	6	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr20:31394056C>T	uc002wyc.2	+	22	2664	c.2343C>T	c.(2341-2343)ATC>ATT	p.I781I	DNMT3B_uc002wyd.2_Silent_p.I761I|DNMT3B_uc002wye.2_Intron|DNMT3B_uc010gee.2_RNA|DNMT3B_uc010gef.2_Intron|DNMT3B_uc010ztz.1_Intron|DNMT3B_uc010zua.1_Intron|DNMT3B_uc002wyf.2_Silent_p.I773I|DNMT3B_uc002wyg.2_Intron|DNMT3B_uc010geg.2_Intron|DNMT3B_uc010geh.2_RNA	NM_006892	NP_008823	Q9UBC3	DNM3B_HUMAN	DNA cytosine-5 methyltransferase 3 beta isoform	781					negative regulation of histone H3-K9 methylation|positive regulation of gene expression|positive regulation of histone H3-K4 methylation		metal ion binding|protein binding|transcription corepressor activity			lung(3)|ovary(2)	5						CGAACTCGATCAAACAGGGGA	0.453													14	82					0	0	0.001855	0	0		T	31394056	T	T	31394056	2	4	165	1	0	0	0	0	0	0	0	1	4683	816	29	4		4	DNMT3B	20	31394056	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	17978339	31394056	31631464	106	89316											
C20orf152	140894	broad.mit.edu	37	chr20	34563887	34563887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagaaaaagatgcaaagccGagtcacatttgataccatgg	16	8	9	8	1	2	3	2	1	0	2	2	4	2	3	2	1	3	1	2	1	4	2	rs138922540		TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr20:34563887G>A	uc002xes.1	+	3	362	c.206G>A	c.(205-207)CGA>CAA	p.R69Q	C20orf152_uc002xer.1_Missense_Mutation_p.R69Q|C20orf152_uc010gfp.1_RNA			Q96M20	CT152_HUMAN	SubName: Full=C20orf152 protein;	69											0	Breast(12;0.00631)					ATGCAAAGCCGAGTCACATTT	0.448													32	165					0	0	0.004289	0	0		A	34563887	A	A	34563887	3	1	165	1	0	0	0	0	1	0	0	0	2095	1058	37	1	216	1	C20orf152	20	34563887	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	3169831	34563887	28461633	107	89317											
CTCFL	140690	broad.mit.edu	37	chr20	56098150	56098150	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctttctttgattttttgtaGatttggccttttcagcatct	5	23	6	7	0	4	2	1	1	3	1	4	2	4	2	1	1	1	2	1	1	1	9	rs139237396	byFrequency	TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr20:56098150G>C	uc010gix.1	-	2	1390	c.728C>G	c.(727-729)TCT>TGT	p.S243C	CTCFL_uc010giw.1_Missense_Mutation_p.S243C|CTCFL_uc002xym.2_Missense_Mutation_p.S243C|CTCFL_uc010giz.1_Intron|CTCFL_uc010giy.1_Intron|CTCFL_uc010gja.1_Missense_Mutation_p.S243C|CTCFL_uc010gjb.1_Missense_Mutation_p.S243C|CTCFL_uc010gjc.1_Missense_Mutation_p.S243C|CTCFL_uc010gjd.1_Missense_Mutation_p.S243C|CTCFL_uc010gje.2_Missense_Mutation_p.S243C|CTCFL_uc010gjf.2_Missense_Mutation_p.S38C|CTCFL_uc010gjg.2_Intron|CTCFL_uc010gjh.1_Missense_Mutation_p.S243C|CTCFL_uc010gji.1_Missense_Mutation_p.S38C|CTCFL_uc010gjj.1_Missense_Mutation_p.S243C|CTCFL_uc010gjk.1_Missense_Mutation_p.S243C|CTCFL_uc010gjl.1_Missense_Mutation_p.S243C	NM_080618	NP_542185	Q8NI51	CTCFL_HUMAN	CCCTC-binding factor-like protein	243					cell cycle|DNA methylation involved in gamete generation|histone methylation|positive regulation of transcription, DNA-dependent|regulation of gene expression by genetic imprinting|regulation of histone H3-K4 methylation|transcription, DNA-dependent	cytoplasm|nucleus	histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|skin(1)	4	Lung NSC(12;0.00132)|all_lung(29;0.00433)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;3.95e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.09e-07)			ATTTTTTGTAGATTTGGCCTT	0.403													6	189					0	0	0.00308	0	0		C	56098150	C	C	56098150	3	2	165	1	0	0	0	0	1	0	0	0	4004	942	33	5	1299	5	CTCFL	20	56098150	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08	21534263	56098150	6927370	108	89318											
RASD2	23551	broad.mit.edu	37	chr22	35947662	35947662	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgaagaacaagaccaaGgaggcggcggagctgcccat	12	4	14	11	2	0	3	0	1	0	2	0	5	0	5	3	4	4	1	3	4	4	0			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chr22:35947662G>T	uc003anx.2	+	3	589	c.384G>T	c.(382-384)AAG>AAT	p.K128N	RASD2_uc003any.2_Missense_Mutation_p.K128N	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	128					locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						ACAAGACCAAGGAGGCGGCGG	0.617													3	62					0.004672	0.00496863	0.004672	1	0		T	35947662	T	T	35947662	3	4	165	1	0	0	0	0	1	0	0	0	13092	991	35	5	390	5	RASD2	22	35947662	Missense_Mutation	SNP	G	TCGA-D7-6518-01A-11D-1800-08		35947662	15356904	109	89319											
ZMYM3	9203	broad.mit.edu	37	chrX	70462830	70462830	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgttccttactgttggggagGagtgtgggctgccaggtact	5	13	16	7	0	0	0	0	0	0	0	1	2	1	2	2	5	3	4	2	5	2	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chrX:70462830G>A	uc004dzh.1	-	22	3624	c.3537C>T	c.(3535-3537)CTC>CTT	p.L1179L	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Silent_p.L1179L|ZMYM3_uc004dzj.1_Silent_p.L1167L	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	1179					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					TGTTGGGGAGGAGTGTGGGCT	0.502													8	56					0	0	0.004482	0	0		A	70462830	A	A	70462830	2	1	165	1	0	0	0	0	0	0	0	1	17726	1161	41	4		4	ZMYM3	23	70462830	Silent	SNP	G	TCGA-D7-6518-01A-11D-1800-08		70462830	84807730	110	89320											
PABPC5	140886	broad.mit.edu	37	chrX	90690785	90690785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgttaacttccgctttcccgCggatgcagagtgggccttga	6	12	12	11	3	0	2	0	1	0	1	2	3	2	3	3	2	2	3	3	2	1	4			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chrX:90690785C>T	uc004efg.2	+	2	649	c.209C>T	c.(208-210)GCG>GTG	p.A70V	PABPC5_uc004eff.1_Intron	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	70	RRM 1.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						CGCTTTCCCGCGGATGCAGAG	0.527													8	28					0	0	0.004482	0	0		T	90690785	T	T	90690785	3	4	165	1	0	0	0	0	1	0	0	0	11386	768	27	1	211	1	PABPC5	23	90690785	Missense_Mutation	SNP	C	TCGA-D7-6518-01A-11D-1800-08	20227955	90690785	64579775	111	89321											
PCDH11X	27328	broad.mit.edu	37	chrX	91873417	91873417	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcctctgctctatgccacagCccaccactgtcacaggcctc	7	8	7	19	0	3	0	1	0	2	0	4	0	3	0	5	1	3	1	5	1	1	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chrX:91873417C>T	uc004efk.1	+	7	4367	c.3522C>T	c.(3520-3522)AGC>AGT	p.S1174S	PCDH11X_uc004efl.1_Silent_p.S1164S|PCDH11X_uc004efo.1_Silent_p.S1137S|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Silent_p.S1166S|PCDH11X_uc004efn.1_Silent_p.S1156S	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1174	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TATGCCACAGCCCACCACTGT	0.557													4	73					0	0	0.009096	0	0		T	91873417	T	T	91873417	2	4	165	1	0	0	0	0	0	0	0	1	11527	738	26	2		2	PCDH11X	23	91873417	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	1182632	91873417	63397143	112	89322											
AFF2	2334	broad.mit.edu	37	chrX	148048538	148048538	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcacctggagatgacgtcCtgggcggctctgccccttct	5	10	12	14	2	3	2	1	1	2	1	4	3	4	2	4	3	1	1	4	3	0	1			TCGA-D7-6518-01A-11D-1800-08	TCGA-D7-6518-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	19406c86-dd55-420c-b6d4-b5ca9d3bfed6	8a32dd74-fa56-4328-917e-37c29e44cb47	g.chrX:148048538C>G	uc004fcp.2	+	14	3611	c.3132C>G	c.(3130-3132)TCC>TCG	p.S1044S	AFF2_uc004fcq.2_Silent_p.S1034S|AFF2_uc004fcr.2_Silent_p.S1005S|AFF2_uc011mxb.1_Silent_p.S1009S|AFF2_uc004fcs.2_Silent_p.S1009S|AFF2_uc011mxc.1_Silent_p.S685S	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	1044					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AGATGACGTCCTGGGCGGCTC	0.358													11	206					0	0	0.013537	0	0		G	148048538	G	G	148048538	2	3	165	1	0	0	0	0	0	0	0	1	357	668	24	5		5	AFF2	23	148048538	Silent	SNP	C	TCGA-D7-6518-01A-11D-1800-08	56175121	148048538	7222022	113	89323											
MATN1	4146	broad.mit.edu	37	chr1	31188944	31188944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacatattccgcacagccGccttgatgtccttcttggtg	7	12	10	12	2	1	1	0	1	1	0	3	2	3	2	4	2	1	1	4	2	1	5			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr1:31188944G>A	uc001brz.2	-	5	1053	c.1019C>T	c.(1018-1020)GCG>GTG	p.A340V	uc001bsb.1_5'Flank|MATN1_uc001bsa.1_Missense_Mutation_p.A258V	NM_002379	NP_002370	P21941	MATN1_HUMAN	matrilin 1, cartilage matrix protein precursor	340	VWFA 2.				protein complex assembly	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding			central_nervous_system(1)	1		Colorectal(325;0.00792)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)|Ovarian(437;0.0563)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		Colorectal(126;1.29e-05)|COAD - Colon adenocarcinoma(152;0.000726)|STAD - Stomach adenocarcinoma(196;0.0183)|READ - Rectum adenocarcinoma(331;0.0649)		CCGCACAGCCGCCTTGATGTC	0.572													59	18					0	0	0.048971	0	0		A	31188944	A	A	31188944	3	1	166	1	0	0	0	0	1	0	0	0	9351	1087	38	1	487	1	MATN1	1	31188944	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08		31188944	218061677	1	89324											
HRNR	388697	broad.mit.edu	37	chr1	152192589	152192589	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgcactagatccttgtcGttcacccctagatgactgtc	8	12	7	14	1	1	3	1	1	0	2	4	3	2	3	4	0	1	2	4	0	2	4	rs115929005		TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr1:152192589G>A	uc001ezt.1	-	3	1592	c.1516C>T	c.(1516-1518)CGA>TGA	p.R506*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	506	5.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATCCTTGTCGTTCACCCCTA	0.557													181	268					0	0	0.048971	0	0		A	152192589	A	A	152192589	4	1	166	1	0	0	0	0	0	1	0	0	7375	1153	40	1	7040	1	HRNR	1	152192589	Nonsense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	121003645	152192589	97058032	2	89325											
ARHGEF11	9826	broad.mit.edu	37	chr1	156909511	156909511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgttccccctccagccCtgcaagctgggtgttgtccc	3	10	11	17	1	0	0	0	0	0	0	3	0	3	0	6	2	3	4	6	2	1	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr1:156909511C>T	uc001fqo.2	-	36	4845	c.3805G>A	c.(3805-3807)GGG>AGG	p.G1269R	ARHGEF11_uc010phu.1_Missense_Mutation_p.G685R|ARHGEF11_uc001fqn.2_Missense_Mutation_p.G1309R	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	1269					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCCTCCAGCCCTGCAAGCTGG	0.612													20	21					0	0	0.043863	0	0		T	156909511	T	T	156909511	3	4	166	1	0	0	0	0	1	0	0	0	896	681	24	4	783	4	ARHGEF11	1	156909511	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	4716922	156909511	92341110	3	89326											
ARHGAP30	257106	broad.mit.edu	37	chr1	161018192	161018192	+	Silent	SNP	G	A	A	0	0	1	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	ggattgccctctttggcacaGtcaacctccagggacgctac	8	9	10	14	1	2	0	1	0	1	0	3	2	3	2	3	3	3	2	3	3	2	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr1:161018192G>A	uc001fxl.2	-	12	2965	c.2619C>T	c.(2617-2619)GAC>GAT	p.D873D	USF1_uc001fxi.2_5'Flank|USF1_uc001fxj.2_5'Flank|ARHGAP30_uc001fxk.2_Intron|ARHGAP30_uc001fxm.2_Silent_p.D719D|ARHGAP30_uc009wtx.2_Silent_p.D546D	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	873	Glu-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			CTTTGGCACAGTCAACCTCCA	0.587													41	84					0	0	0.104719	0	0		A	161018192	A	A	161018192	2	1	166	1	0	0	0	0	0	0	0	1	879	1020	36	4		4	ARHGAP30	1	161018192	Silent	SNP	G	TCGA-D7-6519-01A-11D-1800-08	4108681	161018192	88232429	4	89327											
HMCN1	83872	broad.mit.edu	37	chr1	186057138	186057138	+	Missense_Mutation	SNP	T	A	A	0	1	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	gataaaaatttccacctcaaTgtatatggtgagcatttgcc	13	13	7	8	0	1	1	1	1	0	0	2	2	2	1	3	1	2	2	3	1	6	5			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr1:186057138T>A	uc001grq.1	+	61	9667	c.9438T>A	c.(9436-9438)AAT>AAA	p.N3146K		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3146	Ig-like C2-type 29.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TCCACCTCAATGTATATGGTG	0.343													7	63					0	0	0.047766	0	0		A	186057138	A	A	186057138	3	1	166	1	0	0	0	0	1	0	0	0	7236	1461	51	5	9680	5	HMCN1	1	186057138	Missense_Mutation	SNP	T	TCGA-D7-6519-01A-11D-1800-08	25038946	186057138	63193483	5	89328											
CACNA1S	779	broad.mit.edu	37	chr1	201023635	201023635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgcagcctgaaattacaaCgttcccgcagcctccaccca	10	7	7	17	3	0	1	0	1	0	0	2	1	2	1	5	0	5	3	5	0	3	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr1:201023635C>T	uc001gvv.2	-	29	3891	c.3664G>A	c.(3664-3666)GTT>ATT	p.V1222I		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1222	IV.|Extracellular (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GAAATTACAACGTTCCCGCAG	0.498													5	29					0	0	0.014758	0	0		T	201023635	T	T	201023635	3	4	166	1	0	0	0	0	1	0	0	0	2550	536	19	1	2021	1	CACNA1S	1	201023635	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	14966497	201023635	48226986	6	89329											
PIK3C2B	5287	broad.mit.edu	37	chr1	204429064	204429064	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtcgaacagaagactcaggGcctgcctgggagttgggggc	8	7	17	9	1	1	2	1	0	0	2	2	4	1	3	2	4	2	1	2	4	2	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr1:204429064G>C	uc001haw.2	-	9	1987	c.1508C>G	c.(1507-1509)GCC>GGC	p.A503G	PIK3C2B_uc010pqv.1_Missense_Mutation_p.A503G|PIK3C2B_uc001hax.1_Missense_Mutation_p.A503G|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	503					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			AAGACTCAGGGCCTGCCTGGG	0.577													4	16					0	0	0.009096	0	0		C	204429064	C	C	204429064	3	2	166	1	0	0	0	0	1	0	0	0	11929	1203	42	5	3500	5	PIK3C2B	1	204429064	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	3405429	204429064	44821557	7	89330											
TTC21B	79809	broad.mit.edu	37	chr2	166802093	166802093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atattcccttgctttatcatGgcgaccaatgtgccataaaa	12	13	6	10	1	1	0	1	0	0	0	2	1	2	0	3	1	2	1	3	1	5	6			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr2:166802093G>A	uc002udk.2	-	4	503	c.370C>T	c.(370-372)CAT>TAT	p.H124Y	TTC21B_uc002udl.2_Missense_Mutation_p.H124Y|uc002udm.1_Intron	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	124	TPR 1.					cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						GCTTTATCATGGCGACCAATG	0.353													26	28					0	0	0.108266	0	0		A	166802093	A	A	166802093	3	1	166	1	0	0	0	0	1	0	0	0	16714	1348	47	4	3684	4	TTC21B	2	166802093	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08		166802093	76397280	8	89331											
C2orf60	129450	broad.mit.edu	37	chr2	200797977	200797977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttatcatagcattcagatGgaaggtgcttccaaaagata	14	13	8	6	0	2	2	2	0	0	2	3	3	3	3	1	2	2	2	1	2	6	6			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr2:200797977G>A	uc002uvi.3	-	8	1027	c.761C>T	c.(760-762)CCA>CTA	p.P254L	C2orf60_uc002uvj.3_Missense_Mutation_p.P91L|C2orf60_uc002uvk.3_RNA|C2orf60_uc010fss.2_Missense_Mutation_p.P91L	NM_001039693	NP_001034782	A2RUC4	TYW5_HUMAN	hypothetical protein LOC129450	254	JmjC.				wybutosine biosynthetic process		iron ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein homodimerization activity|tRNA binding				0						GCATTCAGATGGAAGGTGCTT	0.378													52	88					0	0	0.048971	0	0		A	200797977	A	A	200797977	3	1	166	1	0	0	0	0	1	0	0	0	2182	1348	47	4	190	4	C2orf60	2	200797977	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	33995884	200797977	42401396	9	89332											
MDH1B	130752	broad.mit.edu	37	chr2	207619947	207619947	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagagcctgcagagaggcacCctgcttcggaggcagtcctc	8	7	13	13	1	0	2	0	0	0	2	3	4	1	3	3	3	3	4	3	3	1	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr2:207619947C>T	uc002vbs.2	-	5	751	c.696G>A	c.(694-696)AGG>AGA	p.R232R	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Silent_p.R232R|MDH1B_uc010fuj.2_Silent_p.R134R|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	232					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		AGAGAGGCACCCTGCTTCGGA	0.552													28	29					0	0	0.108266	0	0		T	207619947	T	T	207619947	2	4	166	1	0	0	0	0	0	0	0	1	9427	622	22	4		4	MDH1B	2	207619947	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08	6821970	207619947	35579426	10	89333											
ERC2	26059	broad.mit.edu	37	chr3	56468846	56468846	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccccttcatgatcactcaGatacatgggtccagacgtag	11	9	8	13	1	3	3	3	1	0	2	4	3	4	3	3	1	1	1	3	1	2	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr3:56468846G>A	uc003dhr.1	-	2	446	c.190C>T	c.(190-192)CTG>TTG	p.L64L		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	64						cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TGATCACTCAGATACATGGGT	0.512													64	85					0	0	0.048971	0	0		A	56468846	A	A	56468846	2	1	166	1	0	0	0	0	0	0	0	1	5219	933	33	4		4	ERC2	3	56468846	Silent	SNP	G	TCGA-D7-6519-01A-11D-1800-08		56468846	141553584	11	89334											
CSF1R	1436	broad.mit.edu	37	chr5	149437078	149437078	+	Frame_Shift_Del	DEL	A	-	-																															cctcctcaccttgctcagagAaggagtcatttgaagaagtg																										TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr5:149437078delA	uc003lrl.2	-	15	2405	c.2210delT	c.(2209-2211)TTCfs	p.F737fs	CSF1R_uc011dcd.1_Intron|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Frame_Shift_Del_p.F737fs	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	737	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	TTGCTCAGAGAAGGAGTCATT	0.577													43	84	---	---	---	---						.	-	149437078	-	-	149437078	7	5	166	1	0	1	0	1	0	0	0	0	3935	246	9	0	736	0	CSF1R	5	149437078	Frame_Shift_Del	DEL	A	TCGA-D7-6519-01A-11D-1800-08		149437078	31478182	12	89335											
KIF4B	285643	broad.mit.edu	37	chr5	154394974	154394974	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactcagcatgctctccatCaagctcagatgtctaaggag	11	9	8	13	0	5	1	3	0	2	1	6	2	5	2	2	1	3	3	2	1	2	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr5:154394974C>A	uc010jih.1	+	1	1715	c.1555C>A	c.(1555-1557)CAA>AAA	p.Q519K		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	519	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TGCTCTCCATCAAGCTCAGAT	0.488													36	67					5.8336e-16	7.08366e-16	0.059317	1	0		A	154394974	A	A	154394974	3	1	166	1	0	0	0	0	1	0	0	0	8320	827	29	5	1557	5	KIF4B	5	154394974	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	4957896	154394974	26520286	13	89336											
NKX2-5	1482	broad.mit.edu	37	chr5	172661792	172661792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccttggctgggtcggggtCgctgtaggcacgtggataga	5	10	18	8	3	0	1	0	0	0	1	3	2	1	2	1	6	0	4	1	6	2	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr5:172661792C>T	uc003mcm.1	-	1	471	c.295G>A	c.(295-297)GAC>AAC	p.D99N	NKX2-5_uc011dfe.1_Missense_Mutation_p.D99N|NKX2-5_uc010jjt.1_Missense_Mutation_p.D99N	NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	99	Ala/Pro-rich.				adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	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)			GGGTCGGGGTCGCTGTAGGCA	0.657													16	26					0	0	0.043863	0	0		T	172661792	T	T	172661792	3	4	166	1	0	0	0	0	1	0	0	0	10472	884	31	1	822	1	NKX2-5	5	172661792	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	18266818	172661792	8253468	14	89337											
HIST1H3E	8353	broad.mit.edu	37	chr6	26225435	26225435	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaggcggtaaagcaccgcGcaaacagctggccactaagg	13	3	12	13	3	0	0	0	0	0	0	0	0	0	0	2	4	3	4	2	4	4	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr6:26225435G>T	uc003nhb.2	+	2	413	c.53G>T	c.(52-54)CGC>CTC	p.R18L	HIST1H3E_uc003nhc.3_Missense_Mutation_p.R18L	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	18					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				AAAGCACCGCGCAAACAGCTG	0.592													50	20					2.01872e-29	2.63986e-29	0.048971	1	0		T	26225435	T	T	26225435	3	4	166	1	0	0	0	0	1	0	0	0	7175	1087	38	5	55	5	HIST1H3E	6	26225435	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08		26225435	144889632	15	89338											
CCHCR1	54535	broad.mit.edu	37	chr6	31124558	31124558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctggaaacatcccgttcccaCatggtcacttgaggtctctg	8	11	9	13	1	2	1	1	1	1	0	5	2	4	2	2	3	1	1	2	3	1	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr6:31124558C>T	uc003nsr.3	-	3	303	c.180G>A	c.(178-180)ATG>ATA	p.M60I	CCHCR1_uc011dne.1_Missense_Mutation_p.M60I|CCHCR1_uc003nsq.3_Missense_Mutation_p.M113I|CCHCR1_uc003nsp.3_Missense_Mutation_p.M149I|CCHCR1_uc010jsk.1_Missense_Mutation_p.M60I|TCF19_uc003nss.2_5'Flank|TCF19_uc003nst.2_5'Flank	NM_019052	NP_061925	Q8TD31	CCHCR_HUMAN	coiled-coil alpha-helical rod protein 1 isoform	60					cell differentiation|multicellular organismal development	cytoplasm|nucleus	protein binding			skin(1)	1						CCCGTTCCCACATGGTCACTT	0.592													75	36					0	0	0.048971	0	0		T	31124558	T	T	31124558	3	4	166	1	0	0	0	0	1	0	0	0	2880	478	17	4	2232	4	CCHCR1	6	31124558	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	4899123	31124558	139990509	16	89339											
MYO6	4646	broad.mit.edu	37	chr6	76623819	76623819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagattcctgccaggcagcGggagattgaaatgaaccgac	12	7	12	10	2	1	4	1	2	0	2	2	6	2	4	3	2	3	1	3	2	2	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr6:76623819G>A	uc003pih.1	+	34	3758	c.3479G>A	c.(3478-3480)CGG>CAG	p.R1160Q	MYO6_uc003pii.1_Missense_Mutation_p.R1137Q|MYO6_uc003pij.1_Missense_Mutation_p.R108Q	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	1169					actin filament-based movement|DNA damage response, signal transduction by p53 class mediator|endocytosis|intracellular protein transport|positive regulation of transcription from RNA polymerase II promoter|regulation of secretion|sensory perception of sound|synaptic transmission	cell cortex|clathrin coated vesicle membrane|coated pit|cytosol|DNA-directed RNA polymerase II, holoenzyme|filamentous actin|Golgi apparatus|nuclear membrane|perinuclear region of cytoplasm|ruffle membrane|unconventional myosin complex	actin filament binding|ADP binding|ATP binding|calmodulin binding|minus-end directed microfilament motor activity|protein binding			kidney(1)|pancreas(1)	2		all_hematologic(105;0.189)		BRCA - Breast invasive adenocarcinoma(397;0.223)		GCCAGGCAGCGGGAGATTGAA	0.493													43	89					0	0	0.042209	0	0		A	76623819	A	A	76623819	3	1	166	1	0	0	0	0	1	0	0	0	10099	1116	39	1	3609	1	MYO6	6	76623819	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	45499261	76623819	94491248	17	89340											
CASP8AP2	9994	broad.mit.edu	37	chr6	90576103	90576103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagttccaattattgctgtaCcctcttctgaacaagagatc	11	14	6	10	0	2	2	0	1	2	1	4	3	3	2	2	0	3	3	2	0	6	6			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr6:90576103C>T	uc003pnr.2	+	8	3290	c.3094C>T	c.(3094-3096)CCC>TCC	p.P1032S	CASP8AP2_uc003pns.2_Intron|CASP8AP2_uc003pnt.2_Missense_Mutation_p.P1032S|CASP8AP2_uc011dzz.1_Missense_Mutation_p.P1032S	NM_001137667	NP_001131139	Q9UKL3	C8AP2_HUMAN	caspase 8 associated protein 2	1032					cell cycle|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|nucleus	caspase activator activity|death receptor binding|transcription corepressor activity			ovary(2)	2		all_cancers(76;3.64e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;4.69e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0953)		TATTGCTGTACCCTCTTCTGA	0.303													7	13					0	0	0.038147	0	0		T	90576103	T	T	90576103	3	4	166	1	0	0	0	0	1	0	0	0	2681	507	18	4	3120	4	CASP8AP2	6	90576103	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	13952284	90576103	80538964	18	89341											
TXNDC3	51314	broad.mit.edu	37	chr7	37890317	37890317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatgaactgaacgaagacGaaattctgcattttgctgtc	15	11	8	7	2	1	3	0	2	1	1	2	5	1	3	0	0	4	2	0	0	6	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr7:37890317G>A	uc003tfn.2	+	5	550	c.178G>A	c.(178-180)GAA>AAA	p.E60K		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	60	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GAACGAAGACGAAATTCTGCA	0.323									Kartagener_syndrome				42	52					0	0	0.039052	0	0		A	37890317	A	A	37890317	3	1	166	1	0	0	0	0	1	0	0	0	16824	1059	37	1	188	1	TXNDC3	7	37890317	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08		37890317	121248346	19	89342											
GLI3	2737	broad.mit.edu	37	chr7	42005045	42005045	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtctgatagcccccagcaGgcccgctcctcaaggggttc	6	7	13	15	1	2	1	1	1	1	0	4	1	3	1	4	4	2	3	4	4	2	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr7:42005045G>T	uc011kbh.1	-	15	3717	c.3626C>A	c.(3625-3627)CCT>CAT	p.P1209H	GLI3_uc011kbg.1_Missense_Mutation_p.P1150H	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1209					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCCCCCAGCAGGCCCGCTCCT	0.652									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				31	43					1.7881e-09	2.08204e-09	0.037714	1	0		T	42005045	T	T	42005045	3	4	166	1	0	0	0	0	1	0	0	0	6454	1000	35	5	1120	5	GLI3	7	42005045	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	4114728	42005045	117133618	20	89343											
COG5	10466	broad.mit.edu	37	chr7	107053002	107053002	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgattttccacttcaagtCgggctcttgcaataaaaagt	11	14	7	9	1	2	1	1	1	1	0	4	1	3	1	1	1	1	2	1	1	5	6			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr7:107053002C>T	uc003ved.2	-	7	1232	c.707G>A	c.(706-708)CGA>CAA	p.R236Q	COG5_uc003vec.2_Missense_Mutation_p.R236Q|COG5_uc003vee.2_Missense_Mutation_p.R236Q	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	236					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						CACTTCAAGTCGGGCTCTTGC	0.323													36	57					0	0	0.086207	0	0		T	107053002	T	T	107053002	3	4	166	1	0	0	0	0	1	0	0	0	3664	884	31	1	1943	1	COG5	7	107053002	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	65047957	107053002	52085661	21	89344											
PREX2	80243	broad.mit.edu	37	chr8	69002905	69002905	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagagacacatgccagtgtCattgcacacgttacagcctg	13	8	9	11	1	1	1	1	0	0	1	1	2	1	1	2	0	4	2	2	0	2	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr8:69002905C>T	uc003xxv.1	+	20	2232	c.2205C>T	c.(2203-2205)GTC>GTT	p.V735V	PREX2_uc003xxu.1_Silent_p.V735V|PREX2_uc011lez.1_Silent_p.V670V	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	735	PDZ 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						ATGCCAGTGTCATTGCACACG	0.473													38	54					0	0	0.080422	0	0		T	69002905	T	T	69002905	2	4	166	1	0	0	0	0	0	0	0	1	12499	813	29	4		4	PREX2	8	69002905	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08		69002905	77361117	22	89345											
CNBD1	168975	broad.mit.edu	37	chr8	87917328	87917328	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccggagtatgagcaatatcTtatcagctcacgatacattt	12	12	8	9	2	3	1	2	1	1	0	3	3	3	2	1	1	3	3	1	1	5	5			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr8:87917328T>G	uc003ydy.2	+	3	226	c.178T>G	c.(178-180)TTA>GTA	p.L60V		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	60										ovary(3)	3						GAGCAATATCTTATCAGCTCA	0.338													9	14					0	0	0.058154	0	0		G	87917328	G	G	87917328	3	3	166	1	0	0	0	0	1	0	0	0	3594	1606	56	5	188	5	CNBD1	8	87917328	Missense_Mutation	SNP	T	TCGA-D7-6519-01A-11D-1800-08	18914423	87917328	58446694	23	89346											
TMEM8B	51754	broad.mit.edu	37	chr9	35853551	35853551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacccacccacgtggcgccGctggcttttctacttgtgcc	4	11	9	17	3	1	0	0	0	1	0	1	0	1	0	4	2	3	2	4	2	2	5			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr9:35853551G>A	uc003zym.2	+	14	2148	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	TMEM8B_uc003zyo.2_Missense_Mutation_p.R378H	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a	378	Cytoplasmic (Potential).				cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						ACGTGGCGCCGCTGGCTTTTC	0.597													38	11					0	0	0.086207	0	0		A	35853551	A	A	35853551	3	1	166	1	0	0	0	0	1	0	0	0	16240	1087	38	1	1361	1	TMEM8B	9	35853551	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08		35853551	105359880	24	89347											
ANKRD30A	91074	broad.mit.edu	37	chr10	37431066	37431066	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcagcaaaaggaagacCtaggaagatcgcatgggaga	15	4	16	6	1	0	3	0	0	0	3	1	6	0	5	1	4	1	3	1	4	5	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr10:37431066C>A	uc001iza.1	+	7	1172	c.1073C>A	c.(1072-1074)CCT>CAT	p.P358H		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	414						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AAAGGAAGACCTAGGAAGATC	0.403													44	78					1.57945e-13	1.8909e-13	0.042209	1	0		A	37431066	A	A	37431066	3	1	166	1	0	0	0	0	1	0	0	0	658	681	24	5	1099	5	ANKRD30A	10	37431066	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08		37431066	98103681	25	89348											
USP54	159195	broad.mit.edu	37	chr10	75290191	75290194	+	Frame_Shift_Del	DEL	CTGA	-	-																															gtctgttatggatcatattgCtgactgtctctttaaaatct																										TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr10:75290191_75290194delCTGA	uc001juo.2	-	12	1552_1555	c.1535_1538delTCAG	c.(1534-1539)GTCAGCfs	p.V512fs	USP54_uc001juk.2_5'UTR|USP54_uc001jul.2_5'UTR|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA|USP54_uc001jup.2_Frame_Shift_Del_p.V512fs|USP54_uc010qkl.1_Frame_Shift_Del_p.V512fs	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	512_513					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					GATCATATTGCTGACTGTCTCTTT	0.48													37	44	---	---	---	---						.	-	75290194	-	-	75290191	7	5	166	1	0	1	0	1	0	0	0	0	17111	797	28	0	3560	0	USP54	10	75290191	Frame_Shift_Del	DEL	CTGA	TCGA-D7-6519-01A-11D-1800-08	37859125	75290191	60244556	26	89349											
HECTD2	143279	broad.mit.edu	37	chr10	93170292	93170292	+	Frame_Shift_Del	DEL	A	-	-																															ggaaggagtcagagcgcgagAagctgccgcccatcgtatcg																										TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr10:93170292delA	uc001khl.2	+	1	197	c.97delA	c.(97-99)AAGfs	p.K33fs	LOC100188947_uc010qnl.1_Intron|HECTD2_uc001khk.2_Frame_Shift_Del_p.K33fs|HECTD2_uc010qnm.1_Frame_Shift_Del_p.K33fs|HECTD2_uc001khm.2_RNA	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	33					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						AGAGCGCGAGAAGCTGCCGCC	0.736													2	4	---	---	---	---						.	-	93170292	-	-	93170292	7	5	166	1	0	1	0	1	0	0	0	0	7056	247	9	0	99	0	HECTD2	10	93170292	Frame_Shift_Del	DEL	A	TCGA-D7-6519-01A-11D-1800-08	17880101	93170292	42364455	27	89350											
CHUK	1147	broad.mit.edu	37	chr10	101979084	101979084	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttccttgatcaacatctttGgcatatcccagatcaattat	11	15	4	11	0	3	2	2	1	1	1	5	2	5	2	2	1	1	1	2	1	4	5			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr10:101979084G>C	uc001kqp.2	-	6	562	c.507C>G	c.(505-507)GCC>GCG	p.A169A		NM_001278	NP_001269	O15111	IKKA_HUMAN	conserved helix-loop-helix ubiquitous kinase	169	Protein kinase.				I-kappaB phosphorylation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|nucleus	ATP binding|identical protein binding|IkappaB kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|breast(1)	7		Colorectal(252;0.117)		Epithelial(162;2.05e-10)|all cancers(201;1.91e-08)		CAACATCTTTGGCATATCCCA	0.313													28	55					0	0	0.030593	0	0		C	101979084	C	C	101979084	2	2	166	1	0	0	0	0	0	0	0	1	3419	1335	47	5		5	CHUK	10	101979084	Silent	SNP	G	TCGA-D7-6519-01A-11D-1800-08	8808792	101979084	33555663	28	89351											
OR5W2	390148	broad.mit.edu	37	chr11	55681260	55681260	+	Missense_Mutation	SNP	A	T	T	1	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	cattttatcttgatctagagAataggaagaacttggccgga	13	12	10	6	1	2	3	0	1	2	2	2	6	2	5	1	3	1	0	1	3	6	6			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr11:55681260A>T	uc010rir.1	-	1	799	c.799T>A	c.(799-801)TCT>ACT	p.S267T		NM_001001960	NP_001001960	Q8NH69	OR5W2_HUMAN	olfactory receptor, family 5, subfamily W,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TGATCTAGAGAATAGGAAGAA	0.438													7	86					0	0	0.02938	0	0		T	55681260	T	T	55681260	3	4	166	1	0	0	0	0	1	0	0	0	11204	246	9	5	135	5	OR5W2	11	55681260	Missense_Mutation	SNP	A	TCGA-D7-6519-01A-11D-1800-08		55681260	79325256	29	89352											
OR5M1	390168	broad.mit.edu	37	chr11	56380308	56380308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaacggatcctgaagatcGctgcaaaaatgaaaagatag	18	6	10	7	2	0	5	0	2	0	3	2	6	1	6	1	1	2	2	1	1	7	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr11:56380308G>A	uc001nja.1	-	1	671	c.671C>T	c.(670-672)GCG>GTG	p.A224V		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	224	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						CCTGAAGATCGCTGCAAAAAT	0.443													36	42					0	0	0.09836	0	0		A	56380308	A	A	56380308	3	1	166	1	0	0	0	0	1	0	0	0	11191	1087	38	1	280	1	OR5M1	11	56380308	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	699048	56380308	78626208	30	89353											
ZP1	22917	broad.mit.edu	37	chr11	60641001	60641001	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcgctcccagtgccaaccCcttccagcagccccagtggc	6	5	11	19	1	0	0	0	0	0	0	2	0	2	0	7	2	4	2	7	2	1	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr11:60641001C>A	uc001nqd.2	+	8	1414	c.1394C>A	c.(1393-1395)CCC>CAC	p.P465H	ZP1_uc001nqe.2_Missense_Mutation_p.P172H	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	465	Extracellular (Potential).|ZP.				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						AGTGCCAACCCCTTCCAGCAG	0.637													42	61					1.32136e-16	1.62776e-16	0.104719	1	0		A	60641001	A	A	60641001	3	1	166	1	0	0	0	0	1	0	0	0	18240	623	22	5	1424	5	ZP1	11	60641001	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	4260693	60641001	74365515	31	89354											
NRXN2	9379	broad.mit.edu	37	chr11	64375009	64375009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagccgggggctgaggtcaCgccggggcgcaggggagggg	6	2	24	9	4	1	1	1	1	0	0	1	3	1	2	2	9	1	2	2	9	1	0			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr11:64375009C>T	uc001oap.2	-	8	2171	c.1660G>A	c.(1660-1662)GTG>ATG	p.V554M	NRXN2_uc001oar.2_Missense_Mutation_p.V1600M|NRXN2_uc001oas.2_Missense_Mutation_p.V1530M|NRXN2_uc001oao.2_Missense_Mutation_p.V240M|NRXN2_uc001oaq.2_Missense_Mutation_p.V1267M	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	554	Extracellular (Potential).				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						GCTGAGGTCACGCCGGGGCGC	0.756													6	5					0	0	0.021553	0	0		T	64375009	T	T	64375009	3	4	166	1	0	0	0	0	1	0	0	0	10685	536	19	1	344	1	NRXN2	11	64375009	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	3734008	64375009	70631507	32	89355											
CNTN5	53942	broad.mit.edu	37	chr11	99872816	99872816	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggtccattttcctttcacgGttacagctgctaaaggaaca	11	12	8	10	1	1	0	1	0	0	0	3	1	3	1	2	3	4	3	2	3	4	5			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr11:99872816G>T	uc001pga.2	+	9	1267	c.928G>T	c.(928-930)GTT>TTT	p.V310F	CNTN5_uc009ywv.1_Missense_Mutation_p.V310F|CNTN5_uc001pfz.2_Missense_Mutation_p.V310F|CNTN5_uc001pgb.2_Missense_Mutation_p.V236F	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	310	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TCCTTTCACGGTTACAGCTGC	0.333													10	8					4.68919e-08	5.31441e-08	0.069234	1	0		T	99872816	T	T	99872816	3	4	166	1	0	0	0	0	1	0	0	0	3647	1261	44	5	954	5	CNTN5	11	99872816	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	35497807	99872816	35133700	33	89356											
PIWIL1	9271	broad.mit.edu	37	chr12	130841471	130841471	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actctcttctagtttgattaCaatccacaatttgcagattg	11	16	5	9	0	2	2	0	1	2	1	4	2	3	2	1	0	2	2	1	0	4	6			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr12:130841471C>A	uc001uik.2	+	13	1503	c.1413C>A	c.(1411-1413)TAC>TAA	p.Y471*	PIWIL1_uc001uij.1_Nonsense_Mutation_p.Y471*	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	471					gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		AGTTTGATTACAATCCACAAT	0.363													14	33					0.00244969	0.00270421	0.020292	1	0		A	130841471	A	A	130841471	4	1	166	1	0	0	0	0	0	1	0	0	11976	489	17	5	1459	5	PIWIL1	12	130841471	Nonsense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08		130841471	3010424	34	89357											
DACH1	1602	broad.mit.edu	37	chr13	72440210	72440210	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctccagccgcttcagcttgGtgtagaccgtatgcaagccc	7	10	10	14	2	2	1	1	0	1	1	3	1	2	1	4	1	4	5	4	1	3	4			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr13:72440210G>T	uc010thn.1	-	2	1115	c.692C>A	c.(691-693)ACC>AAC	p.T231N	DACH1_uc010tho.1_Missense_Mutation_p.T231N|DACH1_uc010thp.1_Missense_Mutation_p.T231N	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	231	Interaction with SIX6 and HDAC3 (By similarity).|DACHbox-N.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		CTTCAGCTTGGTGTAGACCGT	0.617													19	96					1.01871e-10	1.20265e-10	0.049695	1	0		T	72440210	T	T	72440210	3	4	166	1	0	0	0	0	1	0	0	0	4223	1261	44	5	1472	5	DACH1	13	72440210	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08		72440210	42729668	35	89358											
RTN1	6252	broad.mit.edu	37	chr14	60194301	60194301	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggttctcggcggtttcataCgataatccctttgcttcttt	5	17	9	10	3	3	0	1	0	2	0	5	1	4	0	1	3	2	3	1	3	2	7			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr14:60194301C>T	uc001xen.1	-	3	1310	c.1101G>A	c.(1099-1101)TCG>TCA	p.S367S	RTN1_uc001xem.1_5'UTR	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	367					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		CGGTTTCATACGATAATCCCT	0.622													3	10					0	0	0.004672	0	0		T	60194301	T	T	60194301	2	4	166	1	0	0	0	0	0	0	0	1	13750	523	19	1		1	RTN1	14	60194301	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08		60194301	47155239	36	89359											
HIF1A	3091	broad.mit.edu	37	chr14	62207881	62207881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatccaagaagccctaacGtgttatctgtcgctttgagt	9	13	8	11	2	2	2	1	1	1	1	4	2	3	2	2	0	2	2	2	0	4	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr14:62207881G>A	uc001xfq.2	+	12	2472	c.2068G>A	c.(2068-2070)GTG>ATG	p.V690M	HIF1A_uc001xfr.2_Missense_Mutation_p.V690M|HIF1A_uc001xfs.2_Missense_Mutation_p.V691M	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit	690	ID.				cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		AAGCCCTAACGTGTTATCTGT	0.343													18	4					0	0	0.038395	0	0		A	62207881	A	A	62207881	3	1	166	1	0	0	0	0	1	0	0	0	7119	1145	40	1	2114	1	HIF1A	14	62207881	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	2013580	62207881	45141659	37	89360											
DUOX1	53905	broad.mit.edu	37	chr15	45444704	45444704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcattgcctccaccgccatCgtcctcacaggcagggcctg	6	8	9	18	2	2	0	2	0	0	0	5	0	4	0	6	2	1	1	6	2	0	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr15:45444704C>T	uc001zus.1	+	26	3760	c.3414C>T	c.(3412-3414)ATC>ATT	p.I1138I	DUOX1_uc001zut.1_Silent_p.I1138I|DUOX1_uc010bee.1_Silent_p.I518I|DUOX1_uc001zuu.2_Silent_p.I280I	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1138	Ferric oxidoreductase.|Interaction with TXNDC11 (By similarity).|Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		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)		CCACCGCCATCGTCCTCACAG	0.662													22	9					0	0	0.076483	0	0		T	45444704	T	T	45444704	2	4	166	1	0	0	0	0	0	0	0	1	4806	874	31	1		1	DUOX1	15	45444704	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08		45444704	57086688	38	89361											
NTRK3	4916	broad.mit.edu	37	chr15	88576112	88576112	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gtccggcttgtggcagttgtGtccctgacggaagtactggg	5	11	16	9	2	0	1	0	1	0	0	2	2	2	2	2	4	1	4	2	4	2	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr15:88576112G>T	uc002bme.1	-	13	1723	c.1561C>A	c.(1561-1563)CAC>AAC	p.H521N	NTRK3_uc002bmh.2_Missense_Mutation_p.H513N|NTRK3_uc002bmf.1_Missense_Mutation_p.H521N|NTRK3_uc010upl.1_Missense_Mutation_p.H423N|NTRK3_uc010bnh.1_Missense_Mutation_p.H513N|NTRK3_uc002bmg.2_Missense_Mutation_p.H521N|NTRK3_uc010bni.2_RNA	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	521	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			TGGCAGTTGTGTCCCTGACGG	0.587			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			17	28					4.7546e-09	5.46137e-09	0.028581	1	0		T	88576112	T	T	88576112	3	4	166	1	0	0	0	0	1	0	0	0	10727	1377	48	5	1248	5	NTRK3	15	88576112	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	43131408	88576112	13955280	39	89362											
CLCN7	1186	broad.mit.edu	37	chr16	1510888	1510888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caatgaagcaggccacgaggCccgtgaggatcccaatgagg	12	4	14	11	2	0	3	0	3	0	0	1	5	1	4	3	4	1	1	3	4	3	0			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr16:1510888C>T	uc002clv.2	-	5	523	c.413G>A	c.(412-414)GGC>GAC	p.G138D	CLCN7_uc002clw.2_Missense_Mutation_p.G114D	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	138	Helical; (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				GGCCACGAGGCCCGTGAGGAT	0.642													3	41					0	0	0.004672	0	0		T	1510888	T	T	1510888	3	4	166	1	0	0	0	0	1	0	0	0	3471	739	26	2	2088	2	CLCN7	16	1510888	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08		1510888	88843865	40	89363											
ZNF500	26048	broad.mit.edu	37	chr16	4802555	4802555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcggtgggcgctgaagtgcGagctgttgttgaagcgcttc	5	10	18	8	4	0	2	0	2	0	0	1	3	0	2	0	3	3	5	0	3	2	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr16:4802555G>A	uc002cxp.1	-	6	1512	c.1265C>T	c.(1264-1266)TCG>TTG	p.S422L	ZNF500_uc002cxo.1_Missense_Mutation_p.S214L|ZNF500_uc010uxt.1_Missense_Mutation_p.S422L	NM_021646	NP_067678	O60304	ZN500_HUMAN	zinc finger protein 500	422	C2H2-type 4.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						GCTGAAGTGCGAGCTGTTGTT	0.687													2	1					0	0	0.004672	0	0		A	4802555	A	A	4802555	3	1	166	1	0	0	0	0	1	0	0	0	17973	1059	37	1	181	1	ZNF500	16	4802555	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	3291667	4802555	85552198	41	89364											
A2BP1	54715	broad.mit.edu	37	chr16	7629790	7629790	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcttttagcagacagatgaCgcagcaccgacggatggcca	11	8	11	11	3	1	3	0	1	1	2	1	5	1	4	2	2	2	3	2	2	1	3	rs145861898	byFrequency	TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr16:7629790C>T	uc002cys.2	+	6	1270	c.282C>T	c.(280-282)GAC>GAT	p.D94D	A2BP1_uc010buf.1_Silent_p.D94D|A2BP1_uc002cyr.1_Silent_p.D93D|A2BP1_uc002cyt.2_Silent_p.D94D|A2BP1_uc010uxz.1_Silent_p.D137D|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Silent_p.D94D|A2BP1_uc010uyb.1_Silent_p.D94D|A2BP1_uc002cyw.2_Silent_p.D114D|A2BP1_uc002cyy.2_Silent_p.D114D|A2BP1_uc002cyx.2_Silent_p.D114D|A2BP1_uc010uyc.1_Silent_p.D114D	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	94					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		AGACAGATGACGCAGCACCGA	0.517													27	113					0	0	0.041601	0	0		T	7629790	T	T	7629790	2	4	166	1	0	0	0	0	0	0	0	1	3	535	19	1		1	A2BP1	16	7629790	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08	2827235	7629790	82724963	42	89365											
ZNF821	55565	broad.mit.edu	37	chr16	71894501	71894501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gactaaaggcaatatccttcCcctcagcactggagggaccc	11	7	9	14	0	1	0	1	0	0	0	3	3	3	2	4	3	1	2	4	3	4	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr16:71894501C>T	uc010vmj.1	-	7	1035	c.659G>A	c.(658-660)GGG>GAG	p.G220E	ATXN1L_uc010vmi.1_Intron|ZNF821_uc002fbe.2_Missense_Mutation_p.G70E|ZNF821_uc002fbf.2_Missense_Mutation_p.G178E|ZNF821_uc002fbg.3_Missense_Mutation_p.G70E|ZNF821_uc002fbh.3_Missense_Mutation_p.G178E|ZNF821_uc002fbi.3_Missense_Mutation_p.G17E	NM_017530	NP_060000	O75541	ZN821_HUMAN	zinc finger protein 821	220					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AATATCCTTCCCCTCAGCACT	0.493													7	64					0	0	0.02938	0	0		T	71894501	T	T	71894501	3	4	166	1	0	0	0	0	1	0	0	0	18203	623	22	4	583	4	ZNF821	16	71894501	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	64264711	71894501	18460252	43	89366											
MYO1C	4641	broad.mit.edu	37	chr17	1383891	1383891	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttccagtcactcttgtcgTtgatggaggagactttggca	7	13	11	10	1	2	2	1	1	1	1	4	4	3	3	2	3	0	2	2	3	0	4			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr17:1383891T>C	uc002fsp.2	-	7	1056	c.836A>G	c.(835-837)AAC>AGC	p.N279S	MYO1C_uc002fsn.2_Missense_Mutation_p.N260S|MYO1C_uc002fso.2_Missense_Mutation_p.N244S|MYO1C_uc010vqj.1_Missense_Mutation_p.N244S|MYO1C_uc010vqk.1_Missense_Mutation_p.N255S	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	279	Myosin head-like.				mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		ACTCTTGTCGTTGATGGAGGA	0.607													21	61					0	0	0.062417	0	0		C	1383891	C	C	1383891	3	2	166	1	0	0	0	0	1	0	0	0	10088	1725	60	3	2459	3	MYO1C	17	1383891	Missense_Mutation	SNP	T	TCGA-D7-6519-01A-11D-1800-08		1383891	79811319	44	89367											
PLD2	5338	broad.mit.edu	37	chr17	4721623	4721623	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattagctgctcagatgggcGgacggttctgaacaaggtgg	9	9	15	8	2	2	2	1	1	1	1	2	3	2	3	0	5	3	3	0	5	3	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr17:4721623G>T	uc002fzc.2	+	19	2053	c.1952G>T	c.(1951-1953)CGG>CTG	p.R651L	PLD2_uc010vsj.1_3'UTR|PLD2_uc002fzd.2_Missense_Mutation_p.R651L	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	651	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	TCAGATGGGCGGACGGTTCTG	0.567													9	54					1.12685e-05	1.26029e-05	0.047766	1	0		T	4721623	T	T	4721623	3	4	166	1	0	0	0	0	1	0	0	0	12065	1116	39	5	2022	5	PLD2	17	4721623	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	3337732	4721623	76473587	45	89368											
HS3ST3B1	9953	broad.mit.edu	37	chr17	14204920	14204920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgccgccgcccccgccgccgGtgaggaggaagctcgcgctg	4	3	16	18	8	0	1	0	1	0	0	1	3	0	3	6	3	1	2	6	3	1	0			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr17:14204920G>A	uc002goh.1	+	1	415	c.85G>A	c.(85-87)GTG>ATG	p.V29M	MGC12916_uc010vvv.1_5'Flank	NM_006041	NP_006032	Q9Y662	HS3SB_HUMAN	heparan sulfate D-glucosaminyl	29	Cytoplasmic (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	Golgi membrane|integral to plasma membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0887)		cccgccgccggTGAGGAGGAA	0.622													23	19					0	0	0.076483	0	0		A	14204920	A	A	14204920	3	1	166	1	0	0	0	0	1	0	0	0	7382	1261	44	4	87	4	HS3ST3B1	17	14204920	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	9483297	14204920	66990290	46	89369											
TANC2	26115	broad.mit.edu	37	chr17	61497864	61497864	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcccaccacacacttccccGgctcatcagggaggatctta	10	7	8	16	1	3	0	2	0	1	0	4	2	4	2	4	3	1	1	4	3	1	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr17:61497864G>A	uc002jal.3	+	25	4544	c.4521G>A	c.(4519-4521)CCG>CCA	p.P1507P	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Silent_p.P618P	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1507							binding			ovary(2)	2						ACACTTCCCCGGCTCATCAGG	0.587													5	45					0	0	0.021553	0	0		A	61497864	A	A	61497864	2	1	166	1	0	0	0	0	0	0	0	1	15570	1103	39	1		1	TANC2	17	61497864	Silent	SNP	G	TCGA-D7-6519-01A-11D-1800-08	47292944	61497864	19697346	47	89370											
SPHK1	8877	broad.mit.edu	37	chr17	74382134	74382134	+	Missense_Mutation	SNP	A	G	G	1	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	tgctgaacccgcgcggcggcAagggcaaggccttgcagctc	7	5	15	14	4	0	1	0	1	0	0	1	1	0	1	2	4	4	5	2	4	3	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr17:74382134A>G	uc002jrf.1	+	5	888	c.79A>G	c.(79-81)AAG>GAG	p.K27E	SPHK1_uc002jrg.1_5'UTR|SPHK1_uc010wtc.1_Missense_Mutation_p.K113E|SPHK1_uc002jrh.2_Missense_Mutation_p.K41E|SPHK1_uc002jrj.2_Missense_Mutation_p.K113E|SPHK1_uc002jri.2_Missense_Mutation_p.K27E|SPHK1_uc002jrk.3_Missense_Mutation_p.K27E	NM_001142602	NP_001136074	Q9NYA1	SPHK1_HUMAN	sphingosine kinase 1 isoform 3	27	DAGKc.				'de novo' posttranslational protein folding|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|calcium-mediated signaling|positive regulation of angiogenesis|positive regulation of cell growth|positive regulation of cell migration|positive regulation of fibroblast proliferation|positive regulation of mitotic cell cycle|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein ubiquitination|positive regulation of smooth muscle contraction|regulation of tumor necrosis factor-mediated signaling pathway|sphingoid catabolic process|sphingosine metabolic process	cytosol|membrane fraction|nucleus|plasma membrane|soluble fraction	ATP binding|calmodulin binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|DNA binding|magnesium ion binding|protein phosphatase 2A binding|sphinganine kinase activity			kidney(1)	1						GCGCGGCGGCAAGGGCAAGGC	0.657											OREG0024750	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	15					0	0	0.038395	0	0		G	74382134	G	G	74382134	3	3	166	1	0	0	0	0	1	0	0	0	15071	131	5	3	389	3	SPHK1	17	74382134	Missense_Mutation	SNP	A	TCGA-D7-6519-01A-11D-1800-08	12884270	74382134	6813076	48	89371											
UPF1	5976	broad.mit.edu	37	chr19	18966037	18966037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accatcgtctaccacctggcCcggcaaggcaacgggtaggg	9	5	13	14	3	1	0	0	0	1	0	2	0	1	0	4	5	2	3	4	5	4	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:18966037C>T	uc002nkg.2	+	11	1838	c.1563C>T	c.(1561-1563)GCC>GCT	p.A521A	UPF1_uc002nkf.2_Silent_p.A510A	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	521					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						ACCACCTGGCCCGGCAAGGCA	0.662													22	28					0	0	0.069288	0	0		T	18966037	T	T	18966037	2	4	166	1	0	0	0	0	0	0	0	1	17029	610	22	4		4	UPF1	19	18966037	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08		18966037	40162946	49	89372											
PLEKHG2	64857	broad.mit.edu	37	chr19	39912813	39912813	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcagccaccagtttcaggctCtgcaccccctgaggacctgg	7	8	10	16	0	3	1	2	1	1	0	3	2	3	2	5	3	2	3	5	3	0	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:39912813C>G	uc010xuz.1	+	17	1887	c.1562C>G	c.(1561-1563)TCT>TGT	p.S521C	PLEKHG2_uc010xuy.1_Missense_Mutation_p.S462C|PLEKHG2_uc002olj.2_Missense_Mutation_p.S521C|PLEKHG2_uc010xva.1_Missense_Mutation_p.S299C	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	521					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			skin(2)|pancreas(1)|breast(1)	4	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)			GTTTCAGGCTCTGCACCCCCT	0.582													6	17					0	0	0.021553	0	0		G	39912813	G	G	39912813	3	3	166	1	0	0	0	0	1	0	0	0	12088	913	32	5	1624	5	PLEKHG2	19	39912813	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	20946776	39912813	19216170	50	89373											
TGFB1	7040	broad.mit.edu	37	chr19	41847896	41847896	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggaaaggccggttcatgccaTgaatggtggccaggtcacct	9	8	14	10	1	2	1	2	1	0	0	2	2	2	2	4	6	1	1	4	6	2	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:41847896T>G	uc002oqh.1	-	5	1619	c.752A>C	c.(751-753)CAT>CCT	p.H251P	CYP2F1_uc010xvw.1_Intron	NM_000660	NP_000651	P01137	TGFB1_HUMAN	transforming growth factor, beta 1 precursor	251					active induction of host immune response by virus|ATP biosynthetic process|cell cycle arrest|cell growth|cell-cell junction organization|chondrocyte differentiation|connective tissue replacement involved in inflammatory response wound healing|epidermal growth factor receptor signaling pathway|evasion of host defenses by virus|hemopoietic progenitor cell differentiation|induction of apoptosis|lymph node development|mitotic cell cycle G1/S transition checkpoint|negative regulation of blood vessel endothelial cell migration|negative regulation of cell growth|negative regulation of cell-cell adhesion|negative regulation of DNA replication|negative regulation of epithelial cell proliferation|negative regulation of fat cell differentiation|negative regulation of macrophage cytokine production|negative regulation of mitotic cell cycle|negative regulation of protein phosphorylation|ossification involved in bone remodeling|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of collagen biosynthetic process|positive regulation of epithelial to mesenchymal transition|positive regulation of fibroblast migration|positive regulation of interleukin-17 production|positive regulation of isotype switching to IgA isotypes|positive regulation of MAP kinase activity|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of protein dephosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|protein export from nucleus|protein import into nucleus, translocation|receptor catabolic process|regulation of DNA binding|regulation of striated muscle tissue development|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|response to estradiol stimulus|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway|viral infectious cycle	extracellular space|Golgi lumen|nucleus|platelet alpha granule lumen|proteinaceous extracellular matrix	growth factor activity|type II transforming growth factor beta receptor binding				0					Hyaluronidase(DB00070)	GTTCATGCCATGAATGGTGGC	0.607													8	36					0	0	0.038147	0	0		G	41847896	G	G	41847896	3	3	166	1	0	0	0	0	1	0	0	0	15841	1464	51	5	432	5	TGFB1	19	41847896	Missense_Mutation	SNP	T	TCGA-D7-6519-01A-11D-1800-08	1935083	41847896	17281087	51	89374											
PPFIA3	8541	broad.mit.edu	37	chr19	49637939	49637939	+	Missense_Mutation	SNP	A	G	G	1	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	caacatgaagaagcttcaggAtgagttgctgctaaacaagg	15	8	11	7	0	1	3	1	2	0	1	1	4	1	4	0	2	5	4	0	2	6	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:49637939A>G	uc002pmr.2	+	12	1753	c.1421A>G	c.(1420-1422)GAT>GGT	p.D474G	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Missense_Mutation_p.D398G|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.D342G	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	474	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		AAGCTTCAGGATGAGTTGCTG	0.607													11	134					0	0	0.105934	0	0		G	49637939	G	G	49637939	3	3	166	1	0	0	0	0	1	0	0	0	12330	333	12	3	1463	3	PPFIA3	19	49637939	Missense_Mutation	SNP	A	TCGA-D7-6519-01A-11D-1800-08	7790043	49637939	9491044	52	89375											
SIGLEC7	27036	broad.mit.edu	37	chr19	51656357	51656357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggcagatgataacccccGacaccatggcctggctgccc	8	6	11	16	1	0	2	0	1	0	1	0	3	0	2	5	3	2	2	5	3	1	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:51656357G>A	uc002pvv.1	+	7	1328	c.1259G>A	c.(1258-1260)CGA>CAA	p.R420Q	SIGLEC7_uc002pvw.1_Missense_Mutation_p.R327Q|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_3'UTR	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	420	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		GATAACCCCCGACACCATGGC	0.547													70	112					0	0	0.048971	0	0		A	51656357	A	A	51656357	3	1	166	1	0	0	0	0	1	0	0	0	14338	1058	37	1	1285	1	SIGLEC7	19	51656357	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	2018418	51656357	7472626	53	89376											
FPR3	2359	broad.mit.edu	37	chr19	52327718	52327734	+	Frame_Shift_Del	DEL	CTTACGTGTCTTCGCTG	-	-																															atgattaaatccagccgtccCttacgtgtcttcgctgctgt																								rs116930736	by1000genomes	TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:52327718_52327734delCTTACGTGTCTTCGCTG	uc002pxt.1	+	2	901_917	c.717_733delCTTACGTGTCTTCGCTG	c.(715-735)CCCTTACGTGTCTTCGCTGCTfs	p.P239fs		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	239_245	Helical; Name=6; (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						CCAGCCGTCCCTTACGTGTCTTCGCTGCTGTGGTGGC	0.438													11	24	---	---	---	---						.	-	52327734	-	-	52327718	7	5	166	1	0	1	0	1	0	0	0	0	6054	668	24	0	719	0	FPR3	19	52327718	Frame_Shift_Del	DEL	CTTACGTGTCTTCGCTG	TCGA-D7-6519-01A-11D-1800-08	671361	52327718	6801265	54	89377											
LILRA2	11027	broad.mit.edu	37	chr19	55086410	55086410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggccccgtgagcccgagtCgcaggtggtcgtacaggtgc	5	7	17	12	4	0	1	0	1	0	0	2	2	0	1	3	4	3	2	3	4	1	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:55086410C>T	uc002qgg.3	+	4	654	c.565C>T	c.(565-567)CGC>TGC	p.R189C	LILRA2_uc010ern.2_Missense_Mutation_p.R189C|LILRA2_uc002qgf.2_Missense_Mutation_p.R189C|LILRA2_uc010yfe.1_Missense_Mutation_p.R189C|LILRA2_uc010yff.1_Missense_Mutation_p.R177C|LILRA2_uc010ero.2_Missense_Mutation_p.R177C|LILRA2_uc010yfg.1_Missense_Mutation_p.R189C	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	189	Extracellular (Potential).|Ig-like C2-type 2.				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GAGCCCGAGTCGCAGGTGGTC	0.572													75	83					0	0	0.048971	0	0		T	55086410	T	T	55086410	3	4	166	1	0	0	0	0	1	0	0	0	8801	884	31	1	579	1	LILRA2	19	55086410	Missense_Mutation	SNP	C	TCGA-D7-6519-01A-11D-1800-08	2758692	55086410	4042573	55	89378											
NLRP8	126205	broad.mit.edu	37	chr19	56467135	56467135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaggcctgcgcttcggccGtggaacagtcattccaatgc	8	8	12	13	4	1	0	1	0	0	0	3	2	2	1	3	3	3	1	3	3	2	2	rs147105419	byFrequency	TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr19:56467135G>A	uc002qmh.2	+	3	1782	c.1711G>A	c.(1711-1713)GTG>ATG	p.V571M	NLRP8_uc010etg.2_Missense_Mutation_p.V571M	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	571						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		CGCTTCGGCCGTGGAACAGTC	0.493													5	53					0	0	0.021553	0	0		A	56467135	A	A	56467135	3	1	166	1	0	0	0	0	1	0	0	0	10502	1145	40	1	1721	1	NLRP8	19	56467135	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	1380725	56467135	2661848	56	89379											
ADRM1	11047	broad.mit.edu	37	chr20	60883474	60883474	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcggggcagctgggccccctCatgtgccagttcggtctgcc	3	9	14	15	2	2	0	1	0	1	0	4	0	2	0	4	4	3	3	4	4	0	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chr20:60883474C>T	uc002ycn.2	+	9	1145	c.1065C>T	c.(1063-1065)CTC>CTT	p.L355L	ADRM1_uc002yco.2_Silent_p.L355L	NM_007002	NP_008933	Q16186	ADRM1_HUMAN	adhesion regulating molecule 1 precursor	355					proteasome assembly|transcription elongation from RNA polymerase II promoter	cytoplasm|integral to plasma membrane|membrane fraction|nucleus|proteasome complex	endopeptidase activator activity|protease binding|proteasome binding				0	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;2.51e-06)			TGGGCCCCCTCATGTGCCAGT	0.697													14	12					0	0	0.024245	0	0		T	60883474	T	T	60883474	2	4	166	1	0	0	0	0	0	0	0	1	345	813	29	4		4	ADRM1	20	60883474	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08		60883474	2142046	57	89380											
VCX3A	51481	broad.mit.edu	37	chrX	6451825	6451825	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatctcgctctcctgactCagtggttcctccacctggct	4	13	7	17	1	3	1	1	1	2	0	8	1	6	1	5	2	0	3	5	2	0	1			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chrX:6451825C>A	uc004crs.2	-	3	829	c.522G>T	c.(520-522)CTG>CTT	p.L174L	VCX3A_uc010ndk.1_Intron	NM_016379	NP_057463	Q9NNX9	VCX3_HUMAN	variable charge, X-linked 3A	174	8 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.|8.|Glu-rich.				brain development	nucleolus					0						TCTCCTGACTCAGTGGTTCCT	0.587													75	341					7.53784e-56	1.00112e-55	0.048971	1	0		A	6451825	A	A	6451825	2	1	166	1	0	0	0	0	0	0	0	1	17170	813	29	5		5	VCX3A	23	6451825	Silent	SNP	C	TCGA-D7-6519-01A-11D-1800-08		6451825	148818735	58	89381											
VCX	26609	broad.mit.edu	37	chrX	7812018	7812018	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaggtggaggaaccaccGagtcaggagagcgagatgga	13	3	17	8	2	1	2	1	0	0	2	1	8	1	5	3	5	3	0	3	5	1	0			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chrX:7812018G>T	uc004crz.2	+	3	801	c.582G>T	c.(580-582)CCG>CCT	p.P194P		NM_013452	NP_038480	Q9H320	VCX1_HUMAN	variable charge, X chromosome	194	10 X 10 AA tandem repeats of L-S-Q-E-S- [EQ]-V-E-E-P.|10.|Glu-rich.				chromatin organization|ribosome assembly|spermatogenesis	nucleolus	chromatin binding				0		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)				AGGAACCACCGAGTCAGGAGA	0.582													34	250					8.28887e-21	1.05157e-20	0.048971	1	0		T	7812018	T	T	7812018	2	4	166	1	0	0	0	0	0	0	0	1	17168	1045	37	5		5	VCX	23	7812018	Silent	SNP	G	TCGA-D7-6519-01A-11D-1800-08	1360193	7812018	147458542	59	89382											
CCNB3	85417	broad.mit.edu	37	chrX	50056925	50056925	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gtgacatgagggccattcttGtggactggttggtggaggtg	6	12	18	5	0	1	2	0	2	1	0	1	4	1	4	1	6	0	1	1	6	0	3			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chrX:50056925G>T	uc004dox.3	+	8	3791	c.3493G>T	c.(3493-3495)GTG>TTG	p.V1165L	CCNB3_uc004doy.2_Missense_Mutation_p.V1165L|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Missense_Mutation_p.V57L	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1165					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					GGCCATTCTTGTGGACTGGTT	0.443													34	54					1.30998e-17	1.63748e-17	0.080422	1	0		T	50056925	T	T	50056925	3	4	166	1	0	0	0	0	1	0	0	0	2917	1377	48	5	3515	5	CCNB3	23	50056925	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	42244907	50056925	105213635	60	89383											
SSX7	280658	broad.mit.edu	37	chrX	52682034	52682034	+	Missense_Mutation	SNP	A	C	C	1	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	tttggcaatatcatcgaaggActaggaaaagataaaaaagg	19	8	10	4	1	1	1	1	0	0	1	2	4	1	3	0	4	0	1	0	4	9	4			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chrX:52682034A>C	uc004dqx.1	-	3	229	c.70T>G	c.(70-72)TCC>GCC	p.S24A		NM_173358	NP_775494	Q7RTT5	SSX7_HUMAN	synovial sarcoma, X breakpoint 7	24	KRAB-related.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding			skin(1)	1	Ovarian(276;0.236)					TCATCGAAGGACTAGGAAAAG	0.423													3	103					0	0	0.009096	0	0		C	52682034	C	C	52682034	3	2	166	1	0	0	0	0	1	0	0	0	15234	289	10	5	516	5	SSX7	23	52682034	Missense_Mutation	SNP	A	TCGA-D7-6519-01A-11D-1800-08	2625109	52682034	102588526	61	89384											
ITIH5L	347365	broad.mit.edu	37	chrX	54817436	54817436	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctggtgccgctgaagcagTtcctcataggccagggaaaa	10	7	12	12	1	1	1	1	1	0	0	2	2	2	2	4	3	2	3	4	3	4	2			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chrX:54817436T>C	uc004dtj.2	-	4	480	c.450A>G	c.(448-450)GAA>GAG	p.E150E		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	150	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						GCTGAAGCAGTTCCTCATAGG	0.582													9	28					0	0	0.047766	0	0		C	54817436	C	C	54817436	2	2	166	1	0	0	0	0	0	0	0	1	7924	1722	60	3		3	ITIH5L	23	54817436	Silent	SNP	T	TCGA-D7-6519-01A-11D-1800-08	2135402	54817436	100453124	62	89385											
ZCCHC13	389874	broad.mit.edu	37	chrX	73524418	73524418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctcgtgactgtgatcGtcagaaagagcagaaatgct	11	10	12	8	2	2	5	1	2	1	3	4	5	2	5	0	1	2	3	0	1	2	0			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chrX:73524418G>A	uc004ebs.3	+	1	394	c.317G>A	c.(316-318)CGT>CAT	p.R106H		NM_203303	NP_976048	Q8WW36	ZCH13_HUMAN	zinc finger, CCHC domain containing 13	106	CCHC-type 4.						nucleic acid binding|zinc ion binding				0						GACTGTGATCGTCAGAAAGAG	0.532													36	28					0	0	0.080422	0	0		A	73524418	A	A	73524418	3	1	166	1	0	0	0	0	1	0	0	0	17607	1145	40	1	319	1	ZCCHC13	23	73524418	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	18706982	73524418	81746142	63	89386											
RPS6KA6	27330	broad.mit.edu	37	chrX	83319320	83319320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcgctttttcatgctccGtcgctgggctaagcttgaag	5	15	11	10	3	1	1	1	1	0	0	4	1	2	1	1	1	2	6	1	1	2	5			TCGA-D7-6519-01A-11D-1800-08	TCGA-D7-6519-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	a2e67393-50d7-4bcc-9bbd-c695086a936a	fb2d7620-ef06-4044-a50d-5bb868e8642b	g.chrX:83319320G>A	uc004eej.1	-	22	2280	c.2203C>T	c.(2203-2205)CGG>TGG	p.R735W	RPS6KA6_uc011mqt.1_Missense_Mutation_p.R735W|RPS6KA6_uc011mqu.1_Missense_Mutation_p.R632W	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	735					axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TTCATGCTCCGTCGCTGGGCT	0.448													6	5					0	0	0.02938	0	0		A	83319320	A	A	83319320	3	1	166	1	0	0	0	0	1	0	0	0	13680	1144	40	1	38	1	RPS6KA6	23	83319320	Missense_Mutation	SNP	G	TCGA-D7-6519-01A-11D-1800-08	9794902	83319320	71951240	64	89387											
EPHB2	2048	broad.mit.edu	37	chr1	23234547	23234547	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgaactatgttcaccgtgaCctggctgcccgcaacatcct	9	10	8	14	2	1	2	1	2	0	0	2	2	2	2	4	1	3	3	4	1	3	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:23234547C>T	uc009vqj.1	+	12	2383	c.2238C>T	c.(2236-2238)GAC>GAT	p.D746D	EPHB2_uc001bge.2_Silent_p.D747D|EPHB2_uc001bgf.2_Silent_p.D746D|EPHB2_uc010odu.1_Silent_p.D688D	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	746	Cytoplasmic (Potential).|Protein kinase.	Proton acceptor (By similarity).			axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		TTCACCGTGACCTGGCTGCCC	0.562									Hereditary_Prostate_Cancer				51	100					0	0	1	0	0		T	23234547	T	T	23234547	2	4	167	1	0	0	0	0	0	0	0	1	5183	506	18	4		4	EPHB2	1	23234547	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08		23234547	226016074	1	89388											
RABGGTB	5876	broad.mit.edu	37	chr1	76257946	76257946	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	ttacttggctggtggctttgTgaacgacaattaccctcagg	8	13	11	9	1	1	1	1	1	0	0	1	2	1	1	1	4	3	2	1	4	4	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:76257946T>A	uc001dgy.1	+	7	731	c.660T>A	c.(658-660)TGT>TGA	p.C220*	RABGGTB_uc009wbt.1_RNA|RABGGTB_uc001dha.1_Nonsense_Mutation_p.C174*|RABGGTB_uc001dhc.1_5'Flank	NM_004582	NP_004573	P53611	PGTB2_HUMAN	RAB geranylgeranyltransferase, beta subunit	220	PFTB 5.				protein modification process|visual perception		metal ion binding|protein binding|Rab geranylgeranyltransferase activity			ovary(1)	1						GGTGGCTTTGTGAACGACAAT	0.413													19	75					0	0	1	0	0		A	76257946	A	A	76257946	4	1	167	1	0	0	0	0	0	1	0	0	12993	1702	59	5	686	5	RABGGTB	1	76257946	Nonsense_Mutation	SNP	T	TCGA-D7-6520-01A-11D-1800-08	53023399	76257946	172992675	2	89389											
ABCD3	5825	broad.mit.edu	37	chr1	94964197	94964197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctaatttgtggtccaaatGgctgcggaaagagttcactt	10	14	10	7	1	2	1	1	0	1	1	3	2	3	2	1	3	1	2	1	3	3	5			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:94964197G>A	uc001dqn.3	+	17	1528	c.1426G>A	c.(1426-1428)GGC>AGC	p.G476S	ABCD3_uc010oto.1_Missense_Mutation_p.G500S|ABCD3_uc010otp.1_Missense_Mutation_p.G403S|ABCD3_uc009wdr.2_Missense_Mutation_p.G366S|ABCD3_uc001dqo.3_Missense_Mutation_p.G164S	NM_002858	NP_002849	P28288	ABCD3_HUMAN	ATP-binding cassette, sub-family D, member 3	476	ATP (Potential).|ABC transporter.				peroxisomal long-chain fatty acid import|peroxisome organization	cytosol|integral to peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(1)	1		all_lung(203;0.000434)|Lung NSC(277;0.0019)		all cancers(265;0.0261)|Epithelial(280;0.165)		TGGTCCAAATGGCTGCGGAAA	0.348													13	47					0	0	1	0	0		A	94964197	A	A	94964197	3	1	167	1	0	0	0	0	1	0	0	0	62	1348	47	4	1523	4	ABCD3	1	94964197	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	18706251	94964197	154286424	3	89390											
FLG2	388698	broad.mit.edu	37	chr1	152327123	152327123	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtccaaagccagaggactGatctgagcctgatccatgtt	10	11	10	10	0	1	4	0	3	1	1	3	5	3	5	4	1	2	1	4	1	1	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:152327123G>A	uc001ezw.3	-	3	3212	c.3139C>T	c.(3139-3141)CAG>TAG	p.Q1047*	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1047	Filaggrin 3.|Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCAGAGGACTGATCTGAGCCT	0.488													71	329					0	0	1	0	0		A	152327123	A	A	152327123	4	1	167	1	0	0	0	0	0	1	0	0	5937	1299	45	4	4040	4	FLG2	1	152327123	Nonsense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	57362926	152327123	96923498	4	89391											
SERPINC1	462	broad.mit.edu	37	chr1	173876592	173876592	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggaaggtgtactcacctcaAgaaatgccttatggaatgca	13	9	11	8	0	2	1	2	0	0	1	2	3	2	3	2	3	3	2	2	3	6	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:173876592A>C	uc001gjt.2	-	6	1333	c.1214T>G	c.(1213-1215)CTT>CGT	p.L405R		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	405					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	ACTCACCTCAAGAAATGCCTT	0.483													85	194					0	0	1	0	0		C	173876592	C	C	173876592	3	2	167	1	0	0	0	0	1	0	0	0	14134	72	3	5	188	5	SERPINC1	1	173876592	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08	21549469	173876592	75374029	5	89392											
RGS2	5997	broad.mit.edu	37	chr1	192779562	192779563	+	Splice_Site	INS	-	T	T																															gagctgctagccagcaaatgINStaagttaactcttgagcttg																										TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:192779562_192779563insT	uc001gsl.2	+	3	307	c.274_splice	c.e3+1	p.Y92_splice		NM_002923	NP_002914	P41220	RGS2_HUMAN	regulator of G-protein signaling 2						cell cycle|negative regulation of cardiac muscle hypertrophy|negative regulation of G-protein coupled receptor protein signaling pathway|negative regulation of MAP kinase activity|negative regulation of phospholipase activity|positive regulation of cardiac muscle contraction|regulation of adrenergic receptor signaling pathway|regulation of translation|relaxation of cardiac muscle	cytosol|internal side of plasma membrane|mitochondrion|nucleolus	calmodulin binding|GTPase activator activity|signal transducer activity				0						GCCAGCAAATGTAAGTTAACTC	0.495													39	54	---	---	---	---						.	T	192779563	T	T	192779562	8	5	167	1	0	1	1	0	0	0	1	0	13327	1391	48	0	285	0	RGS2	1	192779562	Splice_Site	INS	-	TCGA-D7-6520-01A-11D-1800-08	18902970	192779562	56471059	6	89393											
SLC35F3	148641	broad.mit.edu	37	chr1	234458881	234458881	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtctggttgatcaagctgctCacccgactcaaagtgaggaa	11	9	11	10	1	4	2	3	2	1	0	4	4	4	3	1	2	2	3	1	2	3	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:234458881C>G	uc001hwa.1	+	7	1386	c.1158C>G	c.(1156-1158)CTC>CTG	p.L386L	SLC35F3_uc001hvy.1_Silent_p.L455L	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	386					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			TCAAGCTGCTCACCCGACTCA	0.587											OREG0014330	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	67					0	0	1	0	0		G	234458881	G	G	234458881	2	3	167	1	0	0	0	0	0	0	0	1	14615	813	29	5		5	SLC35F3	1	234458881	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08	41679319	234458881	14791740	7	89394											
RYR2	6262	broad.mit.edu	37	chr1	237586400	237586400	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttttcattaggtggagtgGaagccacataagatggggac	11	11	14	5	0	1	1	1	0	0	1	1	4	1	4	1	5	1	1	1	5	3	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:237586400G>T	uc001hyl.1	+	12	977	c.857G>T	c.(856-858)GGA>GTA	p.G286V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	286	Cytoplasmic (By similarity).|MIR 4.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGGTGGAGTGGAAGCCACATA	0.413													57	141					1.42676e-28	1.54709e-28	1	1	0		T	237586400	T	T	237586400	3	4	167	1	0	0	0	0	1	0	0	0	13794	1174	41	5	903	5	RYR2	1	237586400	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	3127519	237586400	11664221	8	89395											
OR2G2	81470	broad.mit.edu	37	chr1	247751887	247751887	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccttcctgtaccgctgcTtcaccagcagtgttattccc	5	14	6	16	1	2	0	1	0	1	0	5	0	4	0	5	0	3	5	5	0	2	5			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:247751887T>G	uc010pyy.1	+	1	226	c.226T>G	c.(226-228)TTC>GTC	p.F76V		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	76	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			GTACCGCTGCTTCACCAGCAG	0.483													55	154					0	0	1	0	0		G	247751887	G	G	247751887	3	3	167	1	0	0	0	0	1	0	0	0	11017	1609	56	5	228	5	OR2G2	1	247751887	Missense_Mutation	SNP	T	TCGA-D7-6520-01A-11D-1800-08	10165487	247751887	1498734	9	89396											
OR2W3	343171	broad.mit.edu	37	chr1	248059821	248059821	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttctggggaagagagagctAggaaaggagtaaaggcatct	14	7	15	5	0	2	2	0	0	2	2	2	6	2	5	0	5	1	3	0	5	5	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr1:248059821A>G	uc001idp.1	+	3	1202	c.933A>G	c.(931-933)CTA>CTG	p.L311L	OR2W3_uc010pzb.1_Silent_p.L311L	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			AGAGAGAGCTAGGAAAGGAGT	0.537													12	22					0	0	1	0	0		G	248059821	G	G	248059821	2	3	167	1	0	0	0	0	0	0	0	1	11052	407	15	3		3	OR2W3	1	248059821	Silent	SNP	A	TCGA-D7-6520-01A-11D-1800-08	307934	248059821	1190800	10	89397											
APOB	338	broad.mit.edu	37	chr2	21225842	21225842	+	Missense_Mutation	SNP	A	G	G	1	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	gagtcaacagttcctggtacAgattctgggccttgtccttc	7	13	10	11	0	2	1	1	0	1	1	5	2	4	1	3	2	2	2	3	2	2	5			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr2:21225842A>G	uc002red.2	-	29	12580	c.12452T>C	c.(12451-12453)CTG>CCG	p.L4151P		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4151					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTCCTGGTACAGATTCTGGGC	0.502													37	107					0	0	1	0	0		G	21225842	G	G	21225842	3	3	167	1	0	0	0	0	1	0	0	0	785	188	7	3	1243	3	APOB	2	21225842	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08		21225842	221973531	11	89398											
KCNH7	90134	broad.mit.edu	37	chr2	163230084	163230084	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atattctgatcctgctgttaCcatactgtaggctgggggga	8	13	12	8	0	1	1	0	1	1	0	2	2	2	2	2	4	3	4	2	4	4	5			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr2:163230084C>A	uc002uch.1	-	15	3432	c.3220G>T	c.(3220-3222)GTA>TTA	p.V1074L		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	1074	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	CCTGCTGTTACCATACTGTAG	0.488													32	57					1.62565e-12	1.72127e-12	1	1	0		A	163230084	A	A	163230084	3	1	167	1	0	0	0	0	1	0	0	0	8053	507	18	5	378	5	KCNH7	2	163230084	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	142004242	163230084	79969289	12	89399											
XIRP2	129446	broad.mit.edu	37	chr2	168108443	168108443	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaccaccttccaagaggaatCtgcatttataagtggtaaat	15	11	7	8	0	1	1	0	0	1	1	2	2	2	2	3	2	2	2	3	2	7	5			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr2:168108443C>G	uc002udx.2	+	8	10559	c.10541C>G	c.(10540-10542)TCT>TGT	p.S3514C	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.S3339C|XIRP2_uc010fpq.2_Missense_Mutation_p.S3292C|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3339					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAAGAGGAATCTGCATTTATA	0.398													14	36					0	0	1	0	0		G	168108443	G	G	168108443	3	3	167	1	0	0	0	0	1	0	0	0	17456	913	32	5	10571	5	XIRP2	2	168108443	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	4878359	168108443	75090930	13	89400											
TTN	7273	broad.mit.edu	37	chr2	179443626	179443626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgaaggtatattccatgcCctcatgaagtctggttactc	9	13	8	11	0	2	2	1	2	1	0	4	2	3	2	3	2	2	2	3	2	5	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr2:179443626C>T	uc010zfg.1	-	269	60651	c.60427G>A	c.(60427-60429)GGC>AGC	p.G20143S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G13838S|TTN_uc010zfi.1_Missense_Mutation_p.G13771S|TTN_uc010zfj.1_Missense_Mutation_p.G13646S|uc002umv.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21070							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TATTCCATGCCCTCATGAAGT	0.468													28	96					0	0	1	0	0		T	179443626	T	T	179443626	3	4	167	1	0	0	0	0	1	0	0	0	16761	623	22	4	40020	4	TTN	2	179443626	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	11335183	179443626	63755747	14	89401											
EPHA4	2043	broad.mit.edu	37	chr2	222320295	222320295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatgacaaaagctgcaatgaGaattaccaccagcaccacac	17	5	7	12	0	0	2	0	2	0	1	0	4	0	2	3	0	4	3	3	0	5	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr2:222320295G>A	uc002vmq.2	-	8	1729	c.1687C>T	c.(1687-1689)CTC>TTC	p.L563F	EPHA4_uc002vmr.2_Missense_Mutation_p.L563F|EPHA4_uc010zlm.1_Missense_Mutation_p.L504F|EPHA4_uc010zln.1_Missense_Mutation_p.L563F	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	563	Helical; (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		GCTGCAATGAGAATTACCACC	0.522													9	25					0	0	1	0	0		A	222320295	A	A	222320295	3	1	167	1	0	0	0	0	1	0	0	0	5177	942	33	4	1313	4	EPHA4	2	222320295	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	42876669	222320295	20879078	15	89402											
DOCK10	55619	broad.mit.edu	37	chr2	225639637	225639637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacttgtcaggatcgtccGccgcttgcactgctccgcca	5	10	9	17	4	1	0	1	0	0	0	4	1	3	1	5	1	3	3	5	1	1	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr2:225639637G>A	uc010fwz.1	-	52	6237	c.5998C>T	c.(5998-6000)CGG>TGG	p.R2000W	DOCK10_uc002vob.2_Missense_Mutation_p.R1994W|DOCK10_uc002voa.2_Missense_Mutation_p.R656W	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	2000	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AGGATCGTCCGCCGCTTGCAC	0.567													4	7					0	0	1	0	0		A	225639637	A	A	225639637	3	1	167	1	0	0	0	0	1	0	0	0	4691	1086	38	1	582	1	DOCK10	2	225639637	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	3319342	225639637	17559736	16	89403											
DOCK10	55619	broad.mit.edu	37	chr2	225661722	225661722	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgacttctgcttgttaaattCaaaattcttcctcatgaaaa	13	16	4	8	0	4	2	2	2	2	0	5	2	5	2	1	0	1	2	1	0	6	6			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr2:225661722C>G	uc010fwz.1	-	43	5025	c.4786G>C	c.(4786-4788)GAA>CAA	p.E1596Q	DOCK10_uc002vob.2_Missense_Mutation_p.E1590Q|DOCK10_uc002voa.2_Missense_Mutation_p.E252Q|DOCK10_uc002voc.2_Missense_Mutation_p.E450Q	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1596	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TTGTTAAATTCAAAATTCTTC	0.403													44	109					0	0	1	0	0		G	225661722	G	G	225661722	3	3	167	1	0	0	0	0	1	0	0	0	4691	835	29	5	1830	5	DOCK10	2	225661722	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	22085	225661722	17537651	17	89404											
RHOA	387	broad.mit.edu	37	chr3	49405953	49405953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgatcataatcttcctgcCcagctgtgtcccacaaagcc	9	9	8	15	1	2	0	1	0	1	0	4	1	4	0	4	1	3	1	4	1	2	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr3:49405953C>T	uc003cwu.2	-	3	461	c.185G>A	c.(184-186)GGG>GAG	p.G62E	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	62	GTP (By similarity).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	ATCTTCCTGCCCAGCTGTGTC	0.473													35	36					0	0	1	0	0		T	49405953	T	T	49405953	3	4	167	1	0	0	0	0	1	0	0	0	13356	623	22	4	408	4	RHOA	3	49405953	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		49405953	148616477	18	89405											
CCKAR	886	broad.mit.edu	37	chr4	26483296	26483296	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggcactcatatggctgtaCgagaacctggacagagaggc	12	6	14	9	1	1	2	1	0	0	2	1	6	1	3	1	4	2	3	1	4	3	2	rs79677636		TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr4:26483296C>T	uc003gse.1	-	5	1404	c.1251G>A	c.(1249-1251)TCG>TCA	p.S417S		NM_000730	NP_000721	P32238	CCKAR_HUMAN	cholecystokinin A receptor	417	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration|response to nutrient	integral to plasma membrane	cholecystokinin receptor activity			lung(3)|pancreas(1)	4		Breast(46;0.0503)			Ceruletide(DB00403)	TATGGCTGTACGAGAACCTGG	0.532													42	118					0	0	1	0	0		T	26483296	T	T	26483296	2	4	167	1	0	0	0	0	0	0	0	1	2883	523	19	1		1	CCKAR	4	26483296	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08		26483296	164670980	19	89406											
SMR3B	10879	broad.mit.edu	37	chr4	71255426	71255426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaccatatccacctggacCgctggctcctcctcaacctt	7	9	8	17	1	1	0	1	0	0	0	4	2	4	2	7	3	1	2	7	3	2	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr4:71255426C>T	uc011cas.1	+	3	182	c.101C>T	c.(100-102)CCG>CTG	p.P34L	SMR3B_uc003hfh.2_Missense_Mutation_p.P34L	NM_006685	NP_006676	P02814	SMR3B_HUMAN	submaxillary gland androgen regulated protein 3	34	Pro-rich.					extracellular space				skin(1)	1		all_hematologic(202;0.196)				CCACCTGGACCGCTGGCTCCT	0.502													20	58					0	0	1	0	0		T	71255426	T	T	71255426	3	4	167	1	0	0	0	0	1	0	0	0	14837	652	23	1	107	1	SMR3B	4	71255426	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	44772130	71255426	119898850	20	89407											
GCNT4	51301	broad.mit.edu	37	chr5	74325257	74325257	+	Missense_Mutation	SNP	T	A	A	0	1	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	caatttaaatcagcctggagTctggaaatgtgggcatattc	12	12	10	7	0	2	0	1	0	1	0	3	2	2	2	1	3	1	1	1	3	5	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr5:74325257T>A	uc003kdn.2	-	1	1468	c.606A>T	c.(604-606)AGA>AGT	p.R202S		NM_016591	NP_057675	Q9P109	GCNT4_HUMAN	core 2 beta-1,6-N-acetylglucosaminyltransferase	202	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3		all_lung(232;0.0131)|Lung NSC(167;0.0282)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;8.44e-57)		CAGCCTGGAGTCTGGAAATGT	0.403													33	53					0	0	1	0	0		A	74325257	A	A	74325257	3	1	167	1	0	0	0	0	1	0	0	0	6318	1664	58	5	759	5	GCNT4	5	74325257	Missense_Mutation	SNP	T	TCGA-D7-6520-01A-11D-1800-08		74325257	106590003	21	89408											
OTP	23440	broad.mit.edu	37	chr5	76932916	76932916	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtggtgatgtcctccccGggcagcagagtggctccctc	5	9	13	14	1	0	2	0	1	0	1	4	2	3	2	4	3	1	3	4	3	0	0			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr5:76932916G>A	uc003kfg.2	-	2	325	c.177C>T	c.(175-177)CCC>CCT	p.P59P		NM_032109	NP_115485	Q5XKR4	OTP_HUMAN	orthopedia homeobox	59						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.000601)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;9.04e-51)|Epithelial(54;1.62e-45)|all cancers(79;4.4e-41)		TGTCCTCCCCGGGCAGCAGAG	0.726													7	15					0	0	1	0	0		A	76932916	A	A	76932916	2	1	167	1	0	0	0	0	0	0	0	1	11329	1103	39	1		1	OTP	5	76932916	Silent	SNP	G	TCGA-D7-6520-01A-11D-1800-08	2607659	76932916	103982344	22	89409											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773983	140773983	+	Missense_Mutation	SNP	A	G	G	1	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	tgcagctactggtaacagccAgcgacagcggggacccgccc	9	4	13	15	3	0	0	0	0	0	0	0	2	0	1	3	3	7	3	3	3	2	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr5:140773983A>G	uc003lkd.1	+	1	2501	c.1603A>G	c.(1603-1605)AGC>GGC	p.S535G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.S535G	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	535	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTAACAGCCAGCGACAGCGG	0.587													51	78					0	0	1	0	0		G	140773983	G	G	140773983	3	3	167	1	0	0	0	0	1	0	0	0	11579	188	7	3	1605	3	PCDHGA8	5	140773983	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08	63841067	140773983	40141277	23	89410											
CPEB4	80315	broad.mit.edu	37	chr5	173376580	173376580	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctcataaagctgagagcaAatcctattttcctcctaaag	13	11	6	11	0	1	1	1	1	0	1	4	2	4	1	4	0	2	2	4	0	6	5			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr5:173376580A>G	uc003mcs.3	+	6	2932	c.1526A>G	c.(1525-1527)AAA>AGA	p.K509R	CPEB4_uc010jju.1_Missense_Mutation_p.K484R|CPEB4_uc010jjv.2_Missense_Mutation_p.K492R|CPEB4_uc011dfg.1_Missense_Mutation_p.K484R|CPEB4_uc003mct.3_Missense_Mutation_p.K119R|CPEB4_uc003mcu.3_Missense_Mutation_p.K102R	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	509	RRM 1.						nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GCTGAGAGCAAATCCTATTTT	0.338													11	37					0	0	1	0	0		G	173376580	G	G	173376580	3	3	167	1	0	0	0	0	1	0	0	0	3806	14	1	3	1548	3	CPEB4	5	173376580	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08	32602597	173376580	7538680	24	89411											
HRH2	3274	broad.mit.edu	37	chr5	175110886	175110886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatcaggccaagaggatcaAtcacattagctcctggaagg	13	7	12	9	0	3	1	3	0	0	1	4	4	4	4	2	5	1	1	2	5	4	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr5:175110886A>G	uc003mdd.2	+	1	2423	c.650A>G	c.(649-651)AAT>AGT	p.N217S	HRH2_uc003mdc.3_Missense_Mutation_p.N217S	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	217	Cytoplasmic (Potential).		N -> D.		G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)	AAGAGGATCAATCACATTAGC	0.572													14	56					0	0	1	0	0		G	175110886	G	G	175110886	3	3	167	1	0	0	0	0	1	0	0	0	7372	101	4	3	652	3	HRH2	5	175110886	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08	1734306	175110886	5804374	25	89412											
HDGFL1	154150	broad.mit.edu	37	chr6	22570002	22570002	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggagtgcaaggagaagttCggcaagcccaacaagaggcg	15	3	15	8	2	0	2	0	0	0	2	1	4	0	3	1	4	3	3	1	4	6	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr6:22570002C>T	uc003nds.2	+	1	325	c.198C>T	c.(196-198)TTC>TTT	p.F66F		NM_138574	NP_612641	Q5TGJ6	HDGL1_HUMAN	hepatoma derived growth factor-like 1	66											0	Ovarian(93;0.163)					AGGAGAAGTTCGGCAAGCCCA	0.612													14	17					0	0	1	0	0		T	22570002	T	T	22570002	2	4	167	1	0	0	0	0	0	0	0	1	7035	883	31	1		1	HDGFL1	6	22570002	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08		22570002	148545065	26	89413											
HIST1H1B	3009	broad.mit.edu	37	chr6	27834888	27834888	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctgcagccttcttggccttCttaggcgtggcccccgcggg	2	10	13	16	3	2	0	0	0	2	0	2	0	2	0	5	4	2	1	5	4	1	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr6:27834888C>T	uc003njx.2	-	1	472	c.420G>A	c.(418-420)AAG>AAA	p.K140K		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	140					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						TCTTGGCCTTCTTAGGCGTGG	0.607													42	149					0	0	1	0	0		T	27834888	T	T	27834888	2	4	167	1	0	0	0	0	0	0	0	1	7139	912	32	4		4	HIST1H1B	6	27834888	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08	5264886	27834888	143280179	27	89414											
APOM	55937	broad.mit.edu	37	chr6	31625241	31625241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaggccagggttaccagcGctttctcctctacagtgagt	8	10	11	12	1	2	1	0	1	2	0	3	2	2	1	3	2	3	2	3	2	2	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr6:31625241G>A	uc003nvl.2	+	4	501	c.428G>A	c.(427-429)CGC>CAC	p.R143H	APOM_uc003nvk.2_Missense_Mutation_p.R71H	NM_019101	NP_061974	O95445	APOM_HUMAN	apolipoprotein M	143		Fatty acid.			cholesterol efflux|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|negative regulation of plasma lipoprotein particle oxidation|reverse cholesterol transport	discoidal high-density lipoprotein particle|integral to plasma membrane|low-density lipoprotein particle|spherical high-density lipoprotein particle|very-low-density lipoprotein particle	binding|lipid transporter activity				0						GGTTACCAGCGCTTTCTCCTC	0.562													16	20					0	0	1	0	0		A	31625241	A	A	31625241	3	1	167	1	0	0	0	0	1	0	0	0	812	1087	38	1	442	1	APOM	6	31625241	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	3790353	31625241	139489826	28	89415											
CRISP2	7180	broad.mit.edu	37	chr6	49667600	49667600	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttgttacctctctgctcCattcctaaacgtcacaagaa	10	13	5	13	2	2	1	1	0	1	1	6	1	4	1	3	0	3	3	3	0	5	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr6:49667600C>T	uc003ozq.2	-	6	444	c.188G>A	c.(187-189)TGG>TAG	p.W63*	CRISP2_uc003ozl.2_Nonsense_Mutation_p.W63*|CRISP2_uc003ozn.2_Nonsense_Mutation_p.W63*|CRISP2_uc003ozr.2_Nonsense_Mutation_p.W63*|CRISP2_uc003ozo.2_Nonsense_Mutation_p.W63*|CRISP2_uc003ozm.2_Nonsense_Mutation_p.W63*|CRISP2_uc003ozp.2_Nonsense_Mutation_p.W63*	NM_001142408	NP_001135880	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	63						extracellular space				skin(1)	1	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			CTCTCTGCTCCATTCCTAAAC	0.284													6	27					0	0	1	0	0		T	49667600	T	T	49667600	4	4	167	1	0	0	0	0	0	1	0	0	3883	595	21	4	563	4	CRISP2	6	49667600	Nonsense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	18042359	49667600	121447467	29	89416											
LRRC1	55227	broad.mit.edu	37	chr6	53706991	53706991	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctccagaaatagcaaacttCatgcagctggtggaactaga	14	8	9	10	0	1	2	1	0	0	2	2	3	2	3	2	2	5	3	2	2	5	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr6:53706991C>T	uc003pcd.1	+	2	520	c.243C>T	c.(241-243)TTC>TTT	p.F81F		NM_018214	NP_060684	Q9BTT6	LRRC1_HUMAN	leucine rich repeat containing 1	81	LRR 3.					cytoplasm|membrane				ovary(1)	1	Lung NSC(77;0.0147)			BRCA - Breast invasive adenocarcinoma(397;0.0745)		TAGCAAACTTCATGCAGCTGG	0.403													16	76					0	0	1	0	0		T	53706991	T	T	53706991	2	4	167	1	0	0	0	0	0	0	0	1	8984	825	29	4		4	LRRC1	6	53706991	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08	4039391	53706991	117408076	30	89417											
C6orf174	387104	broad.mit.edu	37	chr6	127836184	127836184	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctcggttctcagctcatcGatctcgttctgaggcggtga	6	13	11	11	4	5	2	2	2	4	0	9	3	5	2	0	3	1	3	0	3	0	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr6:127836184G>A	uc003qbd.2	-	3	1975	c.1110C>T	c.(1108-1110)ATC>ATT	p.I370I		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	370	Potential.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TCAGCTCATCGATCTCGTTCT	0.537													43	42					0	0	1	0	0		A	127836184	A	A	127836184	2	1	167	1	0	0	0	0	0	0	0	1	2348	1048	37	1		1	C6orf174	6	127836184	Silent	SNP	G	TCGA-D7-6520-01A-11D-1800-08	74129193	127836184	43278883	31	89418											
SLC22A1	6580	broad.mit.edu	37	chr6	160555103	160555103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacgccctgcctcactggcGctggctgcagctggcagtct	4	9	12	16	2	2	0	1	0	1	0	2	0	2	0	2	3	4	5	2	3	1	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr6:160555103G>A	uc003qtc.2	+	4	890	c.785G>A	c.(784-786)CGC>CAC	p.R262H	SLC22A1_uc003qtd.2_Missense_Mutation_p.R262H	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	262	Extracellular (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		CCTCACTGGCGCTGGCTGCAG	0.677													17	16					0	0	1	0	0		A	160555103	A	A	160555103	3	1	167	1	0	0	0	0	1	0	0	0	14465	1087	38	1	799	1	SLC22A1	6	160555103	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	32718919	160555103	10559964	32	89419											
ATP5J2	9551	broad.mit.edu	37	chr7	99056877	99056877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgtacttgttgtagtacCggtagtaacctgcaaacgca	11	12	10	8	2	0	1	0	1	0	0	0	1	0	1	2	1	5	8	2	1	6	7			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr7:99056877C>T	uc003uqm.2	-	3	193	c.149G>A	c.(148-150)CGG>CAG	p.R50Q	PTCD1_uc011kiw.1_Intron|ATP5J2_uc003uql.2_Missense_Mutation_p.R44Q|ATP5J2_uc003uqn.2_Intron|ATP5J2_uc003uqo.2_Intron	NM_004889	NP_004880	P56134	ATPK_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	50					ATP catabolic process|respiratory electron transport chain	mitochondrial proton-transporting ATP synthase complex|proton-transporting ATP synthase complex, coupling factor F(o)				ovary(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					GTTGTAGTACCGGTAGTAACC	0.507											OREG0018190	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	56					0	0	1	0	0		T	99056877	T	T	99056877	3	4	167	1	0	0	0	0	1	0	0	0	1160	652	23	1	143	1	ATP5J2	7	99056877	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		99056877	60081786	33	89420											
OR6B1	135946	broad.mit.edu	37	chr7	143701159	143701159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctgggagcttgagtatgCgggcagccatgtttctgata	7	12	13	9	1	1	2	0	2	1	0	2	3	2	3	2	2	3	4	2	2	2	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr7:143701159C>T	uc003wdt.1	+	1	70	c.70C>T	c.(70-72)CGG>TGG	p.R24W		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					CTTGAGTATGCGGGCAGCCAT	0.502													28	35					0	0	1	0	0		T	143701159	T	T	143701159	3	4	167	1	0	0	0	0	1	0	0	0	11206	759	27	1	72	1	OR6B1	7	143701159	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	44644282	143701159	15437504	34	89421											
NRG1	3084	broad.mit.edu	37	chr8	32621813	32621813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggcaacacctgccttcCgcctggctgacagcaggact	8	8	11	14	1	0	2	0	2	0	0	1	3	1	3	4	3	3	3	4	3	1	2	rs147189312	byFrequency	TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr8:32621813C>T	uc003xiv.2	+	12	2333	c.1816C>T	c.(1816-1818)CGC>TGC	p.R606C	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.R611C|NRG1_uc003xiw.2_Missense_Mutation_p.R603C|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.R348C|NRG1_uc010lvs.2_Missense_Mutation_p.R348C|NRG1_uc010lvp.2_Missense_Mutation_p.R560C|NRG1_uc010lvq.2_Missense_Mutation_p.R543C|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.R449C|NRG1_uc003xja.2_Missense_Mutation_p.R417C	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	606	Cytoplasmic (Potential).				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		ACCTGCCTTCCGCCTGGCTGA	0.537													18	37					0	0	1	0	0		T	32621813	T	T	32621813	3	4	167	1	0	0	0	0	1	0	0	0	10666	652	23	1	3587	1	NRG1	8	32621813	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		32621813	113742209	35	89422											
HNF4G	3174	broad.mit.edu	37	chr8	76471222	76471222	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaatacagtttgttaaacTttttgggatggttaaaattg	13	16	9	3	0	0	0	0	0	0	0	0	1	0	1	0	2	2	4	0	2	6	7			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr8:76471222T>A	uc003yaq.2	+	9	1202	c.932T>A	c.(931-933)CTT>CAT	p.L311H	HNF4G_uc003yar.2_Missense_Mutation_p.L348H	NM_004133	NP_004124	Q14541	HNF4G_HUMAN	hepatocyte nuclear factor 4, gamma	311					endocrine pancreas development|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1	Breast(64;0.0448)		BRCA - Breast invasive adenocarcinoma(89;0.161)			TTTGTTAAACTTTTTGGGATG	0.393													35	76					0	0	1	0	0		A	76471222	A	A	76471222	3	1	167	1	0	0	0	0	1	0	0	0	7270	1609	56	5	1073	5	HNF4G	8	76471222	Missense_Mutation	SNP	T	TCGA-D7-6520-01A-11D-1800-08	43849409	76471222	69892800	36	89423											
TATDN1	83940	broad.mit.edu	37	chr8	125528240	125528240	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaattcaccacatcttgtAggatgacatccaactgtact	13	12	5	11	0	3	1	2	1	1	0	4	2	4	2	2	1	2	2	2	1	4	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr8:125528240A>C	uc003yrd.2	-	5	276	c.234T>G	c.(232-234)CCT>CCG	p.P78P	TATDN1_uc003yre.2_RNA|TATDN1_uc010mdm.2_Silent_p.P31P|TATDN1_uc003yrf.2_Silent_p.P78P	NM_032026	NP_114415	Q6P1N9	TATD1_HUMAN	TatD DNase domain containing 1 isoform a	78						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding				0	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CACATCTTGTAGGATGACATC	0.294													12	43					0	0	1	0	0		C	125528240	C	C	125528240	2	2	167	1	0	0	0	0	0	0	0	1	15616	407	15	5		5	TATDN1	8	125528240	Silent	SNP	A	TCGA-D7-6520-01A-11D-1800-08	49057018	125528240	20835782	37	89424											
CDHR1	92211	broad.mit.edu	37	chr10	85968592	85968592	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcacaatcattgtggagaaCtcagctgccattgactttga	11	12	9	9	0	3	3	3	2	0	1	3	4	3	3	1	1	3	1	1	1	2	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr10:85968592C>A	uc001kcv.2	+	12	1275	c.1275C>A	c.(1273-1275)AAC>AAA	p.N425K	CDHR1_uc001kcw.2_Missense_Mutation_p.N425K|CDHR1_uc009xst.2_Missense_Mutation_p.N184K	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	425	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						TTGTGGAGAACTCAGCTGCCA	0.493													9	68					0.00448238	0.00453274	1	1	0		A	85968592	A	A	85968592	3	1	167	1	0	0	0	0	1	0	0	0	3121	564	20	5	1321	5	CDHR1	10	85968592	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		85968592	49566155	38	89425											
RNLS	55328	broad.mit.edu	37	chr10	90342921	90342921	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaagcttcctgtcatcccGgcgcccacgatcagcacctg	8	7	8	18	3	2	0	2	0	0	0	4	1	4	0	4	1	2	2	4	1	1	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr10:90342921G>A	uc001kfe.2	-	1	162	c.27C>T	c.(25-27)GCC>GCT	p.A9A	RNLS_uc010qms.1_Silent_p.A9A|RNLS_uc001kfd.2_Silent_p.A9A	NM_001031709	NP_001026879	Q5VYX0	RNLS_HUMAN	renalase isoform 1	9						extracellular region	oxidoreductase activity			ovary(1)	1						CTGTCATCCCGGCGCCCACGA	0.667											OREG0020353	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	24					0	0	1	0	0		A	90342921	A	A	90342921	2	1	167	1	0	0	0	0	0	0	0	1	13530	1103	39	1		1	RNLS	10	90342921	Silent	SNP	G	TCGA-D7-6520-01A-11D-1800-08	4374329	90342921	45191826	39	89426											
CCDC147	159686	broad.mit.edu	37	chr10	106124545	106124545	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaggagagagaccagctCttatcagaagtggtaaaatt	17	8	10	6	0	2	3	1	0	1	3	2	5	2	3	1	2	1	2	1	2	5	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr10:106124545C>A	uc001kyh.2	+	4	629	c.495C>A	c.(493-495)CTC>CTA	p.L165L		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	165	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		GAGACCAGCTCTTATCAGAAG	0.453													7	60					0.00198382	0.0020289	1	1	0		A	106124545	A	A	106124545	2	1	167	1	0	0	0	0	0	0	0	1	2784	900	32	5		5	CCDC147	10	106124545	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08	15781624	106124545	29410202	40	89427											
TACC2	10579	broad.mit.edu	37	chr10	123842259	123842259	+	Missense_Mutation	SNP	A	G	G	1	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	cagaggtgactgagccaaggAaggacccacagggagccagg	13	2	16	10	0	0	3	0	2	0	1	0	6	0	6	3	5	2	0	3	5	2	0			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr10:123842259A>G	uc001lfv.2	+	4	604	c.244A>G	c.(244-246)AAG>GAG	p.K82E	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.K82E|TACC2_uc010qtv.1_Missense_Mutation_p.K82E	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	82						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				TGAGCCAAGGAAGGACCCACA	0.632													22	142					0	0	1	0	0		G	123842259	G	G	123842259	3	3	167	1	0	0	0	0	1	0	0	0	15527	247	9	3	254	3	TACC2	10	123842259	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08	17717714	123842259	11692488	41	89428											
OR52L1	338751	broad.mit.edu	37	chr11	6007312	6007312	+	Silent	SNP	A	G	G	1	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	acatgatggggtacatgatgAccaaagcggtgagtgaggaa	14	7	15	5	1	0	5	0	5	0	0	0	6	0	6	1	4	2	1	1	4	3	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr11:6007312A>G	uc001mcd.2	-	1	904	c.849T>C	c.(847-849)GGT>GGC	p.G283G		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	283	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		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)		GTACATGATGACCAAAGCGGT	0.493													18	42					0	0	1	0	0		G	6007312	G	G	6007312	2	3	167	1	0	0	0	0	0	0	0	1	11144	262	10	3		3	OR52L1	11	6007312	Silent	SNP	A	TCGA-D7-6520-01A-11D-1800-08		6007312	128999204	42	89429											
LRRC55	219527	broad.mit.edu	37	chr11	56954951	56954951	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtgaagaggaagagatCtgacatgcctgcctctcatc	11	8	11	11	0	2	4	1	2	2	2	4	6	2	5	3	1	2	0	3	1	2	0			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr11:56954951C>A	uc001njl.1	+	2	1170	c.1023C>A	c.(1021-1023)ATC>ATA	p.I341I	LRRC55_uc001njm.1_5'Flank	NM_001005210	NP_001005210	Q6ZSA7	LRC55_HUMAN	leucine rich repeat containing 55	311						integral to membrane					0						AGGAAGAGATCTGACATGCCT	0.607													10	24					0.00621372	0.00621372	1	1	0		A	56954951	A	A	56954951	2	1	167	1	0	0	0	0	0	0	0	1	9029	903	32	5		5	LRRC55	11	56954951	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08	50947639	56954951	78051565	43	89430											
TIMM10	26519	broad.mit.edu	37	chr11	57296266	57296266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaactctgtcaactttttgCccatccgctcatggatgtcc	8	13	6	14	1	3	0	2	0	1	0	5	1	5	1	3	1	3	1	3	1	2	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr11:57296266C>T	uc001nkm.1	-	3	344	c.197G>A	c.(196-198)GGC>GAC	p.G66D		NM_012456	NP_036588	P62072	TIM10_HUMAN	translocase of inner mitochondrial membrane 10	66					protein import into mitochondrial inner membrane|sensory perception of sound|transmembrane transport	mitochondrial inner membrane presequence translocase complex|mitochondrial intermembrane space protein transporter complex	zinc ion binding				0						CAACTTTTTGCCCATCCGCTC	0.542													3	59					0	0	1	0	0		T	57296266	T	T	57296266	3	4	167	1	0	0	0	0	1	0	0	0	15930	739	26	2	79	2	TIMM10	11	57296266	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	341315	57296266	77710250	44	89431											
CTNND1	1500	broad.mit.edu	37	chr11	57573377	57573377	+	Silent	SNP	T	A	A	0	1	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	gtagagaactgtgtttgcctTcttcggaacttatcatatca	10	15	8	8	1	3	1	2	0	1	1	4	3	3	2	1	1	3	2	1	1	5	6			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr11:57573377T>A	uc001nmc.3	+	10	2317	c.1746T>A	c.(1744-1746)CTT>CTA	p.L582L	CTNND1_uc001nlh.1_Silent_p.L582L|CTNND1_uc001nlu.3_Silent_p.L481L|CTNND1_uc001nlt.3_Silent_p.L481L|CTNND1_uc001nls.3_Silent_p.L481L|CTNND1_uc001nlw.3_Silent_p.L481L|CTNND1_uc001nmf.3_Silent_p.L582L|CTNND1_uc001nmd.3_Silent_p.L528L|CTNND1_uc001nlk.3_Silent_p.L528L|CTNND1_uc001nme.3_Silent_p.L582L|CTNND1_uc001nll.3_Silent_p.L528L|CTNND1_uc001nmg.3_Silent_p.L528L|CTNND1_uc001nlj.3_Silent_p.L528L|CTNND1_uc001nlr.3_Silent_p.L528L|CTNND1_uc001nlp.3_Silent_p.L528L|CTNND1_uc001nlx.3_Silent_p.L259L|CTNND1_uc001nlz.3_Silent_p.L259L|CTNND1_uc009ymn.2_Silent_p.L259L|CTNND1_uc001nlm.3_Silent_p.L582L|CTNND1_uc001nly.3_Silent_p.L259L|CTNND1_uc001nmb.3_Silent_p.L259L|CTNND1_uc001nma.3_Silent_p.L259L|CTNND1_uc001nmi.3_Silent_p.L481L|CTNND1_uc001nmh.3_Silent_p.L582L|CTNND1_uc001nlq.3_Silent_p.L481L|CTNND1_uc001nln.3_Silent_p.L582L|CTNND1_uc001nli.3_Silent_p.L582L|CTNND1_uc001nlo.3_Silent_p.L481L|CTNND1_uc001nlv.3_Silent_p.L481L	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	582					adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				GTGTTTGCCTTCTTCGGAACT	0.458													6	28					0	0	1	0	0		A	57573377	A	A	57573377	2	1	167	1	0	0	0	0	0	0	0	1	4022	1770	62	5		5	CTNND1	11	57573377	Silent	SNP	T	TCGA-D7-6520-01A-11D-1800-08	277111	57573377	77433139	45	89432											
OR2AT4	341152	broad.mit.edu	37	chr11	74800481	74800481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaagctgaggaagcggtccCcaagcaagaataaggacagc	17	3	12	9	1	0	2	0	1	0	1	1	4	1	4	2	3	4	2	2	3	7	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr11:74800481C>T	uc010rro.1	-	1	278	c.278G>A	c.(277-279)GGG>GAG	p.G93E		NM_001005285	NP_001005285	A6NND4	O2AT4_HUMAN	olfactory receptor, family 2, subfamily AT,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GAAGCGGTCCCCAAGCAAGAA	0.478													17	44					0	0	1	0	0		T	74800481	T	T	74800481	3	4	167	1	0	0	0	0	1	0	0	0	11006	623	22	4	687	4	OR2AT4	11	74800481	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	17227104	74800481	60206035	46	89433											
ROBO3	64221	broad.mit.edu	37	chr11	124739005	124739005	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggcagcagcgagcagaaaCgcctcgctggaagtggcagg	10	3	18	10	3	0	1	0	0	0	1	1	3	0	2	1	5	4	5	1	5	2	0			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr11:124739005C>T	uc001qbc.2	+	2	660	c.468C>T	c.(466-468)AAC>AAT	p.N156N		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	156	Ig-like C2-type 1.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CGAGCAGAAACGCCTCGCTGG	0.652													4	10					0	0	1	0	0		T	124739005	T	T	124739005	2	4	167	1	0	0	0	0	0	0	0	1	13540	535	19	1		1	ROBO3	11	124739005	Silent	SNP	C	TCGA-D7-6520-01A-11D-1800-08	49938524	124739005	10267511	47	89434											
SNX19	399979	broad.mit.edu	37	chr11	130784675	130784675	+	Missense_Mutation	SNP	A	G	G	1	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	gaaagctgcctggagtcatgAgcatgatggtttctttgccc	8	12	12	9	0	2	2	1	2	1	0	2	4	2	3	2	2	4	3	2	2	1	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr11:130784675A>G	uc001qgk.3	-	1	1708	c.1160T>C	c.(1159-1161)CTC>CCC	p.L387P	SNX19_uc010sce.1_Intron|SNX19_uc010scf.1_Intron|SNX19_uc010scg.1_Intron|SNX19_uc001qgl.3_Missense_Mutation_p.L387P|SNX19_uc009zcx.1_Intron	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	387					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		TGGAGTCATGAGCATGATGGT	0.512													3	61					0	0	1	0	0		G	130784675	G	G	130784675	3	3	167	1	0	0	0	0	1	0	0	0	14915	304	11	3	1862	3	SNX19	11	130784675	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08	6045670	130784675	4221841	48	89435											
CACNA2D4	93589	broad.mit.edu	37	chr12	1992095	1992095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggttgatgaccatggggcGgctgagcacgtgcaggtatt	7	10	17	7	2	0	3	0	3	0	0	0	3	0	3	1	5	2	5	1	5	1	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr12:1992095G>A	uc001qjp.2	-	13	1654	c.1423C>T	c.(1423-1425)CGC>TGC	p.R475C	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Missense_Mutation_p.R363C	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	475	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		ACCATGGGGCGGCTGAGCACG	0.622													11	22					0	0	1	0	0		A	1992095	A	A	1992095	3	1	167	1	0	0	0	0	1	0	0	0	2554	1116	39	1	2094	1	CACNA2D4	12	1992095	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08		1992095	131859800	49	89436											
VWF	7450	broad.mit.edu	37	chr12	6080794	6080794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagactgggagtccccccGcggtgagccagtcaccacct	8	5	13	15	2	1	2	1	1	0	1	2	4	2	4	6	3	1	0	6	3	1	0			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr12:6080794G>A	uc001qnn.1	-	44	7769	c.7519C>T	c.(7519-7521)CGG>TGG	p.R2507W	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2507	Cell attachment site.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GAGTCCCCCCGCGGTGAGCCA	0.612													29	67					0	0	1	0	0		A	6080794	A	A	6080794	3	1	167	1	0	0	0	0	1	0	0	0	17272	1086	38	1	958	1	VWF	12	6080794	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	4088699	6080794	127771101	50	89437											
KRT73	319101	broad.mit.edu	37	chr12	53007513	53007513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctcggccttgctcttccGggcgatctcctcatactggg	3	11	12	15	3	3	0	1	0	2	0	6	1	4	0	4	4	2	1	4	4	1	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr12:53007513G>A	uc001sas.2	-	5	978	c.943C>T	c.(943-945)CGG>TGG	p.R315W		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	315	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGCTCTTCCGGGCGATCTCC	0.592													25	69					0	0	1	0	0		A	53007513	A	A	53007513	3	1	167	1	0	0	0	0	1	0	0	0	8502	1115	39	1	699	1	KRT73	12	53007513	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	46926719	53007513	80844382	51	89438											
POLR3B	55703	broad.mit.edu	37	chr12	106786900	106786900	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tgggcccagtctggaagagtGccagaaagctcagattttca	11	9	12	9	0	3	3	2	0	1	3	3	4	3	4	2	2	2	1	2	2	2	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr12:106786900G>T	uc001tlp.2	+	10	1037	c.815G>T	c.(814-816)TGC>TTC	p.C272F	POLR3B_uc001tlq.2_Missense_Mutation_p.C214F	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	272					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						CTGGAAGAGTGCCAGAAAGCT	0.468													53	120					6.3091e-27	6.75975e-27	1	1	0		T	106786900	T	T	106786900	3	4	167	1	0	0	0	0	1	0	0	0	12248	1319	46	5	853	5	POLR3B	12	106786900	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	53779387	106786900	27064995	52	89439											
TMEM119	338773	broad.mit.edu	37	chr12	108985737	108985737	+	Silent	SNP	A	G	G	1	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	cgggggcccccggcccggtcActctggtccacgtacttctt	3	9	12	17	4	3	0	1	0	2	0	4	0	4	0	4	5	1	1	4	5	1	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr12:108985737A>G	uc001tng.2	-	2	586	c.423T>C	c.(421-423)AGT>AGC	p.S141S	TMEM119_uc001tnf.2_RNA	NM_181724	NP_859075	Q4V9L6	TM119_HUMAN	transmembrane protein 119 precursor	141	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						cggcccggTCACTCTGGTCCA	0.552													6	9					0	0	1	0	0		G	108985737	G	G	108985737	2	3	167	1	0	0	0	0	0	0	0	1	16057	156	6	3		3	TMEM119	12	108985737	Silent	SNP	A	TCGA-D7-6520-01A-11D-1800-08	2198837	108985737	24866158	53	89440											
PIWIL1	9271	broad.mit.edu	37	chr12	130834487	130834487	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaagccgacggctctgaagTcagcttcttagaatactaca	13	9	9	10	2	3	2	1	1	2	1	3	4	3	2	1	1	4	2	1	1	6	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr12:130834487T>C	uc001uik.2	+	9	1109	c.1019T>C	c.(1018-1020)GTC>GCC	p.V340A	PIWIL1_uc001uij.1_Missense_Mutation_p.V340A	NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	340	PAZ.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		GGCTCTGAAGTCAGCTTCTTA	0.413													8	65					0	0	1	0	0		C	130834487	C	C	130834487	3	2	167	1	0	0	0	0	1	0	0	0	11976	1667	58	3	1049	3	PIWIL1	12	130834487	Missense_Mutation	SNP	T	TCGA-D7-6520-01A-11D-1800-08	21848750	130834487	3017408	54	89441											
ZNF268	10795	broad.mit.edu	37	chr12	133764473	133764473	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacaggtcccacctctccaaGaacgaaacagttcatgggat	13	7	8	13	1	2	1	1	0	1	1	4	3	3	2	3	2	2	1	3	2	3	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr12:133764473G>C	uc010tcf.1	+	3	379	c.49G>C	c.(49-51)GAA>CAA	p.E17Q	ZNF268_uc010tbv.1_5'UTR|ZNF268_uc010tbw.1_5'UTR|ZNF268_uc010tbx.1_Intron|ZNF268_uc010tby.1_Intron|ZNF268_uc010tbz.1_5'UTR|ZNF268_uc010tca.1_Intron|ZNF268_uc010tcb.1_5'UTR|ZNF268_uc010tcc.1_Intron|ZNF268_uc010tcd.1_5'UTR|ZNF268_uc010tce.1_Intron|ZNF268_uc010tcg.1_5'UTR|ZNF268_uc010tch.1_Missense_Mutation_p.E17Q	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	17						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		ACCTCTCCAAGAACGAAACAG	0.483													3	10					0	0	1	0	0		C	133764473	C	C	133764473	3	2	167	1	0	0	0	0	1	0	0	0	17832	943	33	5	55	5	ZNF268	12	133764473	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	2929986	133764473	87422	55	89442											
BRCA2	675	broad.mit.edu	37	chr13	32911048	32911048	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaagaaaggtacaattcaaCcaaaacacaaatctaagagt	21	7	5	8	0	3	2	2	0	1	2	3	2	3	2	1	1	3	1	1	1	9	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr13:32911048C>G	uc001uub.1	+	11	2783	c.2556C>G	c.(2554-2556)AAC>AAG	p.N852K		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	852	Interaction with NPM1.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TACAATTCAACCAAAACACAA	0.318			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			16	46					0	0	1	0	0		G	32911048	G	G	32911048	3	3	167	1	0	0	0	0	1	0	0	0	1502	506	18	5	2594	5	BRCA2	13	32911048	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		32911048	82258830	56	89443											
VPS36	51028	broad.mit.edu	37	chr13	53016581	53016581	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtcccagcatcaaattttatCtagaaagaaagagcatcaca	17	9	6	9	0	3	3	2	0	1	3	4	3	4	3	1	0	2	2	1	0	5	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr13:53016581C>G	uc001vgs.2	-	2	131	c.97_splice	c.e2-1	p.I33_splice	VPS36_uc001vgq.2_Splice_Site	NM_016075	NP_057159	Q86VN1	VPS36_HUMAN	vacuolar protein sorting 36						cellular membrane organization|endosome transport|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|late endosome|membrane|nucleus	lipid binding			skin(1)	1		Breast(56;0.000207)|Lung NSC(96;0.00212)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.14e-08)		CAAATTTTATCTAGAAAGAAA	0.323													16	42					0	0	1	0	0		G	53016581	G	G	53016581	5	3	167	1	0	0	0	0	0	0	1	0	17230	927	32	5	1116	5	VPS36	13	53016581	Splice_Site	SNP	C	TCGA-D7-6520-01A-11D-1800-08	20105533	53016581	62153297	57	89444											
PCDH17	27253	broad.mit.edu	37	chr13	58208916	58208916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttacaactgccgcatcgccGagtacagccacccgcagctg	9	6	9	17	4	0	0	0	0	0	0	1	1	0	0	4	0	6	4	4	0	3	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr13:58208916G>A	uc001vhq.1	+	1	3128	c.2236G>A	c.(2236-2238)GAG>AAG	p.E746K	PCDH17_uc010aec.1_Missense_Mutation_p.E746K	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	746	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CCGCATCGCCGAGTACAGCCA	0.557													11	23					0	0	1	0	0		A	58208916	A	A	58208916	3	1	167	1	0	0	0	0	1	0	0	0	11531	1059	37	1	2238	1	PCDH17	13	58208916	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	5192335	58208916	56960962	58	89445											
NFATC4	4776	broad.mit.edu	37	chr14	24845524	24845524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcaaagaggagcccctacCggactcatctctgcggggtt	8	8	12	13	2	2	1	1	0	1	1	3	3	2	3	3	4	4	2	3	4	2	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr14:24845524C>T	uc001wpc.2	+	9	2402	c.2081C>T	c.(2080-2082)CCG>CTG	p.P694L	NFATC4_uc010tok.1_Missense_Mutation_p.P757L|NFATC4_uc010tol.1_Missense_Mutation_p.P757L|NFATC4_uc010alr.2_Missense_Mutation_p.P757L|NFATC4_uc010tom.1_Missense_Mutation_p.P707L|NFATC4_uc010ton.1_Missense_Mutation_p.P707L|NFATC4_uc010too.1_Missense_Mutation_p.P707L|NFATC4_uc010alt.2_Missense_Mutation_p.P726L|NFATC4_uc010top.1_Missense_Mutation_p.P726L|NFATC4_uc010toq.1_Missense_Mutation_p.P726L|NFATC4_uc010tor.1_Missense_Mutation_p.P694L|NFATC4_uc010tos.1_Missense_Mutation_p.P624L|NFATC4_uc010tot.1_Missense_Mutation_p.P682L|NFATC4_uc010tou.1_Missense_Mutation_p.P624L|NFATC4_uc010tov.1_Missense_Mutation_p.P682L|NFATC4_uc010tow.1_Missense_Mutation_p.P624L|NFATC4_uc010alv.2_Missense_Mutation_p.P682L|NFATC4_uc010tox.1_Missense_Mutation_p.P624L|NFATC4_uc001wpd.2_Missense_Mutation_p.P229L|NFATC4_uc010toy.1_Missense_Mutation_p.P229L|NFATC4_uc010toz.1_Missense_Mutation_p.P229L|NFATC4_uc010tpa.1_5'UTR|NFATC4_uc010tpb.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	694					cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		GAGCCCCTACCGGACTCATCT	0.597													35	95					0	0	1	0	0		T	24845524	T	T	24845524	3	4	167	1	0	0	0	0	1	0	0	0	10384	652	23	1	2308	1	NFATC4	14	24845524	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		24845524	82504016	59	89446											
KCNK13	56659	broad.mit.edu	37	chr14	90650473	90650473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtttgggatgacaactcCggcgacagtaggaggaaaaa	14	6	15	6	2	0	1	0	1	0	0	1	5	1	4	1	5	1	2	1	5	4	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr14:90650473C>T	uc001xye.1	+	2	795	c.353C>T	c.(352-354)CCG>CTG	p.P118L		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	118						integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				ATGACAACTCCGGCGACAGTA	0.483													20	28					0	0	1	0	0		T	90650473	T	T	90650473	3	4	167	1	0	0	0	0	1	0	0	0	8077	652	23	1	359	1	KCNK13	14	90650473	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	65804949	90650473	16699067	60	89447											
TMEM202	338949	broad.mit.edu	37	chr15	72699483	72699483	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaggttcactggcatactAgggatgccatggagtcagat	11	9	12	9	0	2	1	2	0	0	1	2	3	2	3	1	4	2	2	1	4	2	3	rs142013465	byFrequency	TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr15:72699483A>G	uc002auq.2	+	4	544	c.544A>G	c.(544-546)AGG>GGG	p.R182G	TMEM202_uc002aur.2_Intron	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	182						integral to membrane				central_nervous_system(1)|skin(1)	2						CTGGCATACTAGGGATGCCAT	0.483													32	86					0	0	1	0	0		G	72699483	G	G	72699483	3	3	167	1	0	0	0	0	1	0	0	0	16152	411	15	3	558	3	TMEM202	15	72699483	Missense_Mutation	SNP	A	TCGA-D7-6520-01A-11D-1800-08		72699483	29831909	61	89448											
SH3GL3	6457	broad.mit.edu	37	chr15	84245455	84245455	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttgaagagtcaaaggagTtggctgaaagaagcatgttt	15	11	12	3	0	1	4	1	2	0	2	1	5	1	5	0	2	1	4	0	2	5	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr15:84245455T>G	uc002bjw.2	+	6	781	c.586T>G	c.(586-588)TTG>GTG	p.L196V	SH3GL3_uc010uot.1_Missense_Mutation_p.L196V|SH3GL3_uc002bjx.2_Missense_Mutation_p.L127V|SH3GL3_uc002bju.2_Missense_Mutation_p.L204V|SH3GL3_uc002bjv.2_RNA	NM_003027	NP_003018	Q99963	SH3G3_HUMAN	SH3-domain GRB2-like 3	196	BAR.|Potential.				central nervous system development|endocytosis|signal transduction	early endosome membrane	identical protein binding|lipid binding			pancreas(1)|central_nervous_system(1)|skin(1)	3						GTCAAAGGAGTTGGCTGAAAG	0.338													9	42					0	0	1	0	0		G	84245455	G	G	84245455	3	3	167	1	0	0	0	0	1	0	0	0	14277	1722	60	5	608	5	SH3GL3	15	84245455	Missense_Mutation	SNP	T	TCGA-D7-6520-01A-11D-1800-08	11545972	84245455	18285937	62	89449											
TERF2IP	54386	broad.mit.edu	37	chr16	75681861	75681861	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgtgagggacgacggcagCtccatgtccttctacgtgcg	6	10	13	12	5	1	1	0	1	1	0	4	3	3	2	2	2	3	2	2	2	1	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr16:75681861C>G	uc002fet.1	+	1	178	c.81C>G	c.(79-81)AGC>AGG	p.S27R	KARS_uc002fer.2_5'Flank|KARS_uc002feq.2_5'Flank|KARS_uc002fes.2_5'Flank|KARS_uc010cha.1_Intron	NM_018975	NP_061848	Q9NYB0	TE2IP_HUMAN	telomeric repeat binding factor 2, interacting	27					negative regulation of DNA recombination at telomere|negative regulation of telomere maintenance|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of double-strand break repair via homologous recombination|telomere maintenance via telomerase|transcription, DNA-dependent	cytoplasm|nuclear telomere cap complex|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1						ACGACGGCAGCTCCATGTCCT	0.672													4	39					0	0	1	0	0		G	75681861	G	G	75681861	3	3	167	1	0	0	0	0	1	0	0	0	15788	796	28	5	83	5	TERF2IP	16	75681861	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		75681861	14672892	63	89450											
PELP1	27043	broad.mit.edu	37	chr17	4577819	4577819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acccacctctgagtgcagccGcacacacgtcgctgttggca	8	7	10	16	3	1	1	0	1	1	0	2	1	1	1	3	1	2	5	3	1	0	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr17:4577819G>A	uc002fyi.3	-	13	1794	c.1568C>T	c.(1567-1569)GCG>GTG	p.A523V	PELP1_uc010vsf.1_Missense_Mutation_p.A376V	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	523					transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						GAGTGCAGCCGCACACACGTC	0.617													3	43					0	0	1	0	0		A	4577819	A	A	4577819	3	1	167	1	0	0	0	0	1	0	0	0	11744	1087	38	1	1844	1	PELP1	17	4577819	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08		4577819	76617391	64	89451											
TP53	7157	broad.mit.edu	37	chr17	7578406	7578406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctcatggtgggggcagCgcctcacaacctccgtcatg	7	7	13	14	3	3	0	3	0	0	0	4	0	4	0	3	3	3	2	3	3	1	0	rs28934578		TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr17:7578406C>T	uc002gim.2	-	5	718	c.524G>A	c.(523-525)CGC>CAC	p.R175H	TP53_uc002gig.1_Missense_Mutation_p.R175H|TP53_uc002gih.2_Missense_Mutation_p.R175H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43H|TP53_uc010cng.1_Missense_Mutation_p.R43H|TP53_uc002gii.1_Missense_Mutation_p.R43H|TP53_uc010cnh.1_Missense_Mutation_p.R175H|TP53_uc010cni.1_Missense_Mutation_p.R175H|TP53_uc002gij.2_Missense_Mutation_p.R175H|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82H|TP53_uc002gio.2_Missense_Mutation_p.R43H|TP53_uc010vug.1_Missense_Mutation_p.R136H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(729)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R43H(5)|p.R82H(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(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.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTGGGGGCAGCGCCTCACAAC	0.652	R175H(KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R175H(HCC1395_BREAST)|R175H(KLE_ENDOMETRIUM)|R175H(NCIH196_LUNG)|R175H(AU565_BREAST)|R175H(TYKNU_OVARY)|R175H(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|R175H(SKUT1_SOFT_TISSUE)|R175H(CAL33_UPPER_AERODIGESTIVE_TRACT)|R175H(LS123_LARGE_INTESTINE)|R175H(SKBR3_BREAST)|R175H(RKN_OVARY)|R175H(HUCCT1_BILIARY_TRACT)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	22					0	0	1	0	0		T	7578406	T	T	7578406	3	4	167	1	0	0	0	0	1	0	0	0	16407	768	27	1	774	1	TP53	17	7578406	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08	3000587	7578406	73616804	65	89452											
CD300LF	146722	broad.mit.edu	37	chr17	72708985	72708985	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagagccagaagaggagcagGtagagtgtcagcaggggcat	13	4	18	6	0	1	4	1	0	0	4	1	6	1	5	1	4	3	4	1	4	2	1			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr17:72708985G>T	uc002jlg.2	-	1	124	c.21C>A	c.(19-21)TAC>TAA	p.Y7*	RAB37_uc002jlc.2_Intron|RAB37_uc010dfu.2_Intron|RAB37_uc002jld.2_Intron|CD300LF_uc002jlh.2_Nonsense_Mutation_p.Y7*|CD300LF_uc002jli.2_5'UTR|CD300LF_uc010wra.1_Nonsense_Mutation_p.Y7*	NM_139018	NP_620587	Q8TDQ1	CLM1_HUMAN	NK inhibitory receptor precursor	7						integral to membrane|plasma membrane	receptor activity			upper_aerodigestive_tract(1)	1						AGAGGAGCAGGTAGAGTGTCA	0.597													12	30					0.00185496	0.00191892	1	1	0		T	72708985	T	T	72708985	4	4	167	1	0	0	0	0	0	1	0	0	3004	1256	44	5	879	5	CD300LF	17	72708985	Nonsense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	65130579	72708985	8486225	66	89453											
COL5A3	50509	broad.mit.edu	37	chr19	10077045	10077046	+	Frame_Shift_Ins	INS	-	A	A																															tcctcccgccgtgaagttgcINSaaaaaaccctgaacgagtcc																										TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr19:10077045_10077046insA	uc002mmq.1	-	64	4812_4813	c.4726_4727insT	c.(4726-4728)TGCfs	p.C1576fs		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1576	Fibrillar collagen NC1.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CGTGAAGTTGCAAAAAACCCTG	0.604													19	17	---	---	---	---						.	A	10077046	A	A	10077045	7	5	167	1	0	1	1	0	0	0	0	0	3701	710	25	0	526	0	COL5A3	19	10077045	Frame_Shift_Ins	INS	-	TCGA-D7-6520-01A-11D-1800-08		10077045	49051938	67	89454											
NLRP12	91662	broad.mit.edu	37	chr19	54313731	54313731	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacatggtgaagagaggctcGttgtccctcacgtaattgaa	11	10	11	9	2	1	3	1	2	0	1	3	4	2	3	1	2	0	3	1	2	3	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr19:54313731G>A	uc002qch.3	-	3	1402	c.1182C>T	c.(1180-1182)AAC>AAT	p.N394N	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Silent_p.N394N|NLRP12_uc002qcj.3_Silent_p.N394N|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Silent_p.N394N	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	394	NACHT.				negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		AGAGAGGCTCGTTGTCCCTCA	0.557													107	170					0	0	1	0	0		A	54313731	A	A	54313731	2	1	167	1	0	0	0	0	0	0	0	1	10493	1136	40	1		1	NLRP12	19	54313731	Silent	SNP	G	TCGA-D7-6520-01A-11D-1800-08	44236686	54313731	4815252	68	89455											
CDH22	64405	broad.mit.edu	37	chr20	44845476	44845476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcactcactctgcgggaaaCggggcgggttgtcattgacg	7	9	14	11	4	4	1	3	1	1	0	4	2	4	2	0	4	2	1	0	4	1	2			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chr20:44845476C>T	uc002xrm.2	-	4	1228	c.827G>A	c.(826-828)CGT>CAT	p.R276H	CDH22_uc010ghk.1_Missense_Mutation_p.R276H|CDH22_uc002xrn.1_Missense_Mutation_p.R27H	NM_021248	NP_067071	Q9UJ99	CAD22_HUMAN	cadherin 22 precursor	276	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|skin(1)	5		Myeloproliferative disorder(115;0.0122)				CTGCGGGAAACGGGGCGGGTT	0.612													21	79					0	0	1	0	0		T	44845476	T	T	44845476	3	4	167	1	0	0	0	0	1	0	0	0	3110	536	19	1	1691	1	CDH22	20	44845476	Missense_Mutation	SNP	C	TCGA-D7-6520-01A-11D-1800-08		44845476	18180044	69	89456											
DMD	1756	broad.mit.edu	37	chrX	32429956	32429956	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgaatgtgagggactcctgGattaagtgtaaggatttttc	11	14	12	4	0	0	2	0	2	0	0	2	5	1	5	1	3	0	1	1	3	3	4			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chrX:32429956G>A	uc004dda.1	-	30	4390	c.4146C>T	c.(4144-4146)ATC>ATT	p.I1382I	DMD_uc004dcw.2_Silent_p.I38I|DMD_uc004dcx.2_Silent_p.I41I|DMD_uc004dcz.2_Silent_p.I1259I|DMD_uc004dcy.1_Silent_p.I1378I|DMD_uc004ddb.1_Silent_p.I1374I|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1382					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GGGACTCCTGGATTAAGTGTA	0.463													32	22					0	0	1	0	0		A	32429956	A	A	32429956	2	1	167	1	0	0	0	0	0	0	0	1	4586	1164	41	4		4	DMD	23	32429956	Silent	SNP	G	TCGA-D7-6520-01A-11D-1800-08		32429956	122840604	70	89457											
OPHN1	4983	broad.mit.edu	37	chrX	67273626	67273626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcttttctcctggaggccGcactttgctgaaactgtcag	6	13	11	11	1	2	1	1	1	1	0	3	2	2	2	2	3	2	3	2	3	1	3			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chrX:67273626G>A	uc004dww.3	-	22	2479	c.2185C>T	c.(2185-2187)CGG>TGG	p.R729W	OPHN1_uc011mpg.1_Missense_Mutation_p.R621W	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	729	Pro-rich.				axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						CCTGGAGGCCGCACTTTGCTG	0.547													3	34					0	0	1	0	0		A	67273626	A	A	67273626	3	1	167	1	0	0	0	0	1	0	0	0	10894	1086	38	1	235	1	OPHN1	23	67273626	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	34843670	67273626	87996934	71	89458											
USP26	83844	broad.mit.edu	37	chrX	132161318	132161318	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggattgaaagtagagactGtaacactgcattcatataac	15	11	9	6	0	1	2	1	1	0	1	1	4	1	3	0	1	3	3	0	1	5	6			TCGA-D7-6520-01A-11D-1800-08	TCGA-D7-6520-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	233e55da-1f67-4f09-8563-e0f9292bd47d	c38a0e6a-d67a-491d-80b3-72c40be497e1	g.chrX:132161318G>C	uc010nrm.1	-	6	1401	c.931C>G	c.(931-933)CAG>GAG	p.Q311E	USP26_uc011mvf.1_Missense_Mutation_p.Q311E	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	311					protein deubiquitination|ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(3)|central_nervous_system(3)|kidney(1)|liver(1)	8	Acute lymphoblastic leukemia(192;0.000127)					AGTAGAGACTGTAACACTGCA	0.383													20	10					0	0	1	0	0		C	132161318	C	C	132161318	3	2	167	1	0	0	0	0	1	0	0	0	17083	1386	48	5	1813	5	USP26	23	132161318	Missense_Mutation	SNP	G	TCGA-D7-6520-01A-11D-1800-08	64887692	132161318	23109242	72	89459											
ARID1A	8289	broad.mit.edu	37	chr1	27056214	27056214	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggactaacccatactcgcagCaacagggacctccgtcagga	12	5	10	14	2	1	0	1	0	0	0	3	3	2	3	3	3	4	2	3	3	3	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr1:27056214C>T	uc001bmv.1	+	2	1583	c.1210C>T	c.(1210-1212)CAA>TAA	p.Q404*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.Q404*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.Q404*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.Q21*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	404					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		ATACTCGCAGCAACAGGGACC	0.572			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								38	51					0	0	0.086207	0	0		T	27056214	T	T	27056214	4	4	168	1	0	0	0	0	0	1	0	0	913	711	25	2	1216	2	ARID1A	1	27056214	Nonsense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		27056214	222194407	1	89460											
PTCH2	8643	broad.mit.edu	37	chr1	45288225	45288225	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatggccacggtcatggaGgtagtcactctggcaaagct	9	9	14	9	1	3	0	2	0	1	0	3	2	3	2	1	6	1	3	1	6	2	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr1:45288225G>A	uc010olf.1	-	22	3486	c.3474C>T	c.(3472-3474)ACC>ACT	p.T1158T	PTCH2_uc010olg.1_Silent_p.T856T	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	1158	Cytoplasmic (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					CGGTCATGGAGGTAGTCACTC	0.647									Basal_Cell_Nevus_syndrome				31	53					0	0	0.041601	0	0		A	45288225	A	A	45288225	2	1	168	1	0	0	0	0	0	0	0	1	12753	987	35	4		4	PTCH2	1	45288225	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	18232011	45288225	203962396	2	89461											
LPHN2	23266	broad.mit.edu	37	chr1	82436147	82436147	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatattactatgttgctggTtacttgtttcctgccacagt	9	17	7	8	0	0	0	0	0	0	0	1	0	1	0	2	1	4	4	2	1	5	7			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr1:82436147T>C	uc001dit.3	+	15	3013	c.2832T>C	c.(2830-2832)GGT>GGC	p.G944G	LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Silent_p.G944G|LPHN2_uc001div.2_Silent_p.G944G|LPHN2_uc009wcd.2_Silent_p.G944G|LPHN2_uc001diw.2_Silent_p.G528G|LPHN2_uc009wce.1_Silent_p.G30G	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	957	Helical; Name=4; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		ATGTTGCTGGTTACTTGTTTC	0.388													3	92					0	0	0.004672	0	0		C	82436147	C	C	82436147	2	2	168	1	0	0	0	0	0	0	0	1	8934	1712	60	3		3	LPHN2	1	82436147	Silent	SNP	T	TCGA-D7-6521-01A-11D-1800-08	37147922	82436147	166814474	3	89462											
KIF21B	23046	broad.mit.edu	37	chr1	200967659	200967659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcagcttctgcttgatttCgatctcacaagtcaggtcgg	8	13	10	10	2	4	1	3	1	2	0	7	3	4	1	0	2	2	2	0	2	1	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr1:200967659C>T	uc001gvs.1	-	14	2247	c.1930G>A	c.(1930-1932)GAA>AAA	p.E644K	KIF21B_uc001gvr.1_Missense_Mutation_p.E644K|KIF21B_uc009wzl.1_Missense_Mutation_p.E644K|KIF21B_uc010ppn.1_Missense_Mutation_p.E644K	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	644	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						TGCTTGATTTCGATCTCACAA	0.567													22	80					0	0	0.083992	0	0		T	200967659	T	T	200967659	3	4	168	1	0	0	0	0	1	0	0	0	8305	893	31	1	3028	1	KIF21B	1	200967659	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	118531512	200967659	48282962	4	89463											
LYST	1130	broad.mit.edu	37	chr1	235973499	235973499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgttctttggttgctaagcGgtcaagtttagctttggggt	5	17	13	6	1	2	0	1	0	1	0	2	0	2	0	0	4	3	5	0	4	3	7			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr1:235973499G>A	uc001hxj.2	-	5	794	c.619C>T	c.(619-621)CGC>TGC	p.R207C	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.R207C	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	207					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GTTGCTAAGCGGTCAAGTTTA	0.413									Chediak-Higashi_syndrome				5	190					0	0	0.02938	0	0		A	235973499	A	A	235973499	3	1	168	1	0	0	0	0	1	0	0	0	9146	1116	39	1	10982	1	LYST	1	235973499	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	35005840	235973499	13277122	5	89464											
OR2T12	127064	broad.mit.edu	37	chr1	248458186	248458186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggcaaaggccttcttgCgggcttctgtagagcgcatg	7	10	15	9	2	2	1	0	0	2	1	2	1	2	1	1	4	2	4	1	4	2	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr1:248458186C>T	uc010pzj.1	-	1	695	c.695G>A	c.(694-696)CGC>CAC	p.R232H		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GGCCTTCTTGCGGGCTTCTGT	0.522													74	51					0	0	0.048971	0	0		T	248458186	T	T	248458186	3	4	168	1	0	0	0	0	1	0	0	0	11038	768	27	1	270	1	OR2T12	1	248458186	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	12484687	248458186	792435	6	89465											
C2orf43	60526	broad.mit.edu	37	chr2	20990056	20990056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttgtctttgggagccaacGcatgcccagcatgactgata	9	11	10	11	1	2	2	0	2	2	0	2	3	2	3	2	1	4	2	2	1	2	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr2:20990056G>A	uc002rec.2	-	3	290	c.257C>T	c.(256-258)GCG>GTG	p.A86V	C2orf43_uc002rea.1_Missense_Mutation_p.A86V|C2orf43_uc002reb.1_RNA|C2orf43_uc010yka.1_Intron|C2orf43_uc010ykb.1_5'UTR|C2orf43_uc010ykc.1_Intron|C2orf43_uc010ykd.1_Missense_Mutation_p.A86V|C2orf43_uc010yke.1_Intron|C2orf43_uc010ykf.1_Intron	NM_021925	NP_068744	Q9H6V9	CB043_HUMAN	hypothetical protein LOC60526	86											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGAGCCAACGCATGCCCAGC	0.423													8	151					0	0	0.038147	0	0		A	20990056	A	A	20990056	3	1	168	1	0	0	0	0	1	0	0	0	2170	1087	38	1	740	1	C2orf43	2	20990056	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08		20990056	222209317	7	89466											
LTBP1	4052	broad.mit.edu	37	chr2	33572523	33572523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcctgtgcgtgtgtgctgatGaaaaccaagagtacagcccc	10	9	11	11	1	0	3	0	2	0	1	1	3	1	3	4	0	5	2	4	0	4	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr2:33572523G>A	uc002ros.2	+	26	3949	c.3949G>A	c.(3949-3951)GAA>AAA	p.E1317K	LTBP1_uc002rot.2_Missense_Mutation_p.E991K|LTBP1_uc002rou.2_Missense_Mutation_p.E990K|LTBP1_uc002rov.2_Missense_Mutation_p.E937K|LTBP1_uc010ymz.1_Missense_Mutation_p.E948K|LTBP1_uc010yna.1_Missense_Mutation_p.E895K|LTBP1_uc010ynb.1_Missense_Mutation_p.E214K	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1316	EGF-like 14; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GTGTGCTGATGAAAACCAAGA	0.542													4	115					0	0	0.009096	0	0		A	33572523	A	A	33572523	3	1	168	1	0	0	0	0	1	0	0	0	9091	1291	45	4	4103	4	LTBP1	2	33572523	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	12582467	33572523	209626850	8	89467											
POTEE	445582	broad.mit.edu	37	chr2	131976323	131976323	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggggagcggcaagagcaaGgtgggcgcttggggagacta	10	4	21	6	2	0	2	0	0	0	2	0	4	0	3	0	7	2	3	0	7	3	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr2:131976323G>C	uc002tsn.2	+	1	400	c.348G>C	c.(346-348)AAG>AAC	p.K116N	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	116							ATP binding				0						GCAAGAGCAAGGTGGGCGCTT	0.607													31	94					0	0	0.080422	0	0		C	131976323	C	C	131976323	3	2	168	1	0	0	0	0	1	0	0	0	12283	991	35	5	350	5	POTEE	2	131976323	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	98403800	131976323	111223050	9	89468											
POTEE	445582	broad.mit.edu	37	chr2	131976365	131976365	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gatgacagcgccttcatggaGcccaggtaccacgtccgtgg	8	7	13	13	3	1	1	1	1	0	0	2	3	2	2	4	3	3	1	4	3	1	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr2:131976365G>T	uc002tsn.2	+	1	442	c.390G>T	c.(388-390)GAG>GAT	p.E130D	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_5'UTR|POTEE_uc002tsl.2_5'UTR	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	130							ATP binding				0						CCTTCATGGAGCCCAGGTACC	0.602													17	76					4.4004e-07	5.0975e-07	0.083992	1	0		T	131976365	T	T	131976365	3	4	168	1	0	0	0	0	1	0	0	0	12283	962	34	5	392	5	POTEE	2	131976365	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	42	131976365	111223008	10	89469											
GALNT5	11227	broad.mit.edu	37	chr2	158167802	158167802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagatcctgaaagtagctgCctgtgacccagtgaagccat	13	8	10	10	0	0	4	0	3	0	1	1	4	1	4	4	0	3	2	4	0	4	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr2:158167802C>T	uc002tzg.2	+	10	3020	c.2765C>T	c.(2764-2766)GCC>GTC	p.A922V	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	922	Lumenal (Potential).|Ricin B-type lectin.				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						AAAGTAGCTGCCTGTGACCCA	0.338													6	74					0	0	0.021553	0	0		T	158167802	T	T	158167802	3	4	168	1	0	0	0	0	1	0	0	0	6231	739	26	2	2803	2	GALNT5	2	158167802	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	26191437	158167802	85031571	11	89470											
ANKRD44	91526	broad.mit.edu	37	chr2	197987478	197987478	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccttacaggtcacttctgCgccatggttaatgagcaatg	10	12	9	10	1	2	1	1	1	1	0	3	1	3	1	2	2	3	2	2	2	3	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr2:197987478C>T	uc002uuc.2	-	7	756	c.589G>A	c.(589-591)GCA>ACA	p.A197T	ANKRD44_uc002utz.3_5'UTR|ANKRD44_uc002uua.1_Missense_Mutation_p.A172T|ANKRD44_uc002uub.2_Missense_Mutation_p.A197T|ANKRD44_uc010zgw.1_Missense_Mutation_p.A125T	NM_153697	NP_710181	Q8N8A2	ANR44_HUMAN	ankyrin repeat domain 44	197	ANK 6.						protein binding			ovary(4)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GTCACTTCTGCGCCATGGTTA	0.438													6	32					0	0	0.02938	0	0		T	197987478	T	T	197987478	3	4	168	1	0	0	0	0	1	0	0	0	672	768	27	1	2325	1	ANKRD44	2	197987478	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	39819676	197987478	45211895	12	89471											
CASP8	841	broad.mit.edu	37	chr2	202137426	202137426	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagaaggaaagttggacatCctgaaaagagtctgtgccca	14	7	13	7	0	1	3	0	1	1	2	2	6	2	5	2	3	1	1	2	3	4	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr2:202137426C>A	uc002uxr.1	+	5	686	c.477C>A	c.(475-477)ATC>ATA	p.I159I	CASP8_uc010ftc.1_Silent_p.I159I|CASP8_uc002uxo.1_Silent_p.I159I|CASP8_uc002uxp.1_Silent_p.I191I|CASP8_uc002uxq.1_Silent_p.I159I|CASP8_uc002uxs.1_Silent_p.I159I|CASP8_uc002uxt.1_Silent_p.I218I|CASP8_uc002uxu.1_RNA|CASP8_uc010ftd.1_Silent_p.I56I|CASP8_uc002uxv.1_Silent_p.I159I|CASP8_uc002uxw.1_Silent_p.I159I|CASP8_uc002uxy.1_Silent_p.I159I|CASP8_uc002uxx.1_Silent_p.I159I|CASP8_uc010ftf.2_Silent_p.I159I|CASP8_uc010fte.1_Silent_p.I56I	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	159	DED 2.				activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						AGTTGGACATCCTGAAAAGAG	0.438										HNSCC(4;0.00038)			5	171					0.00116845	0.0012542	0.021553	1	0		A	202137426	A	A	202137426	2	1	168	1	0	0	0	0	0	0	0	1	2680	845	30	5		5	CASP8	2	202137426	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	4149948	202137426	41061947	13	89472											
C3orf31	132001	broad.mit.edu	37	chr3	11880697	11880697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcctataaaacactcaccGgtttttggagtcgtccagca	11	10	8	12	2	1	0	1	0	0	0	3	1	2	1	3	2	3	2	3	2	3	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr3:11880697G>A	uc003bwh.2	-	3	652	c.410C>T	c.(409-411)CCG>CTG	p.P137L	C3orf31_uc003bwj.2_Missense_Mutation_p.P137L|C3orf31_uc003bwi.2_RNA|C3orf31_uc011auo.1_Missense_Mutation_p.P137L|C3orf31_uc011aup.1_RNA|C3orf31_uc010hdy.1_RNA	NM_138807	NP_620162	Q96BW9	MMP37_HUMAN	MMP37-like protein, mitochondrial precursor	137					protein import into mitochondrial matrix	extrinsic to mitochondrial inner membrane					0						aacaCTCACCGGTTTTTGGAG	0.209													3	54					0	0	0.004672	0	0		A	11880697	A	A	11880697	3	1	168	1	0	0	0	0	1	0	0	0	2224	1130	39	1	560	1	C3orf31	3	11880697	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08		11880697	186141733	14	89473											
RHOA	387	broad.mit.edu	37	chr3	49405963	49405963	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcttcctgcccagctgtgtCccacaaagccaactctacct	9	10	5	17	0	2	0	0	0	2	0	4	0	4	0	5	0	5	1	5	0	3	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr3:49405963C>A	uc003cwu.2	-	3	451	c.175G>T	c.(175-177)GAC>TAC	p.D59Y	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	59	GTP (By similarity).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	CCAGCTGTGTCCCACAAAGCC	0.463													13	67					1.3612e-06	1.56138e-06	0.024245	1	0		A	49405963	A	A	49405963	3	1	168	1	0	0	0	0	1	0	0	0	13356	855	30	5	418	5	RHOA	3	49405963	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	37525266	49405963	148616467	15	89474											
RHOA	387	broad.mit.edu	37	chr3	49412898	49412898	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacctcgatatctgccacaTagttctcaaacactgtgggc	10	10	7	14	1	2	0	1	0	2	0	4	1	2	0	3	1	2	1	3	1	3	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr3:49412898T>G	uc003cwu.2	-	2	401	c.125A>C	c.(124-126)TAT>TCT	p.Y42S	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	42	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	ATCTGCCACATAGTTCTCAAA	0.433													17	111					0	0	0.038395	0	0		G	49412898	G	G	49412898	3	3	168	1	0	0	0	0	1	0	0	0	13356	1406	49	5	472	5	RHOA	3	49412898	Missense_Mutation	SNP	T	TCGA-D7-6521-01A-11D-1800-08	6935	49412898	148609532	16	89475											
FAM19A4	151647	broad.mit.edu	37	chr3	68934432	68934432	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaaccaatcatttctgccGttccaaaaaattatcgtagc	14	12	5	10	2	2	1	1	0	1	1	4	1	3	1	3	0	3	2	3	0	8	5	rs76914752	byFrequency	TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr3:68934432G>A	uc003dnh.1	-	2	351	c.-92C>T	c.(-94--90)AACGG>AATGG		FAM19A4_uc003dni.1_Translation_Start_Site	NM_182522	NP_872328	Q96LR4	F19A4_HUMAN	family with sequence similarity 19 (chemokine							extracellular region				skin(2)	2		Lung NSC(201;0.0198)		BRCA - Breast invasive adenocarcinoma(55;1.38e-05)|Epithelial(33;0.000124)|LUSC - Lung squamous cell carcinoma(21;0.0248)|KIRC - Kidney renal clear cell carcinoma(39;0.0729)|Kidney(39;0.0904)		CATTTCTGCCGTTCCAAAAAA	0.333													5	14					0	0	0.014758	0	0		A	68934432	A	A	68934432	1	1	168	1	0	0	0	0	0	0	0	0	5545	1160	40	1		1	FAM19A4	3	68934432	Translation_Start_Site	SNP	G	TCGA-D7-6521-01A-11D-1800-08	19521534	68934432	129087998	17	89476											
BOC	91653	broad.mit.edu	37	chr3	112998786	112998786	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgcgtgtacgagaggccCgtggcaggtccttatatcac	7	9	14	11	4	1	1	1	0	0	1	3	2	2	1	2	4	1	2	2	4	3	3	rs147219655		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr3:112998786C>T	uc003dzx.2	+	13	2757	c.2136C>T	c.(2134-2136)CCC>CCT	p.P712P	BOC_uc003dzy.2_Silent_p.P712P|BOC_uc003dzz.2_Silent_p.P713P|BOC_uc003eab.2_Silent_p.P413P|BOC_uc003eac.2_Silent_p.P27P	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	712	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			ACGAGAGGCCCGTGGCAGGTC	0.627													19	46					0	0	0.055883	0	0		T	112998786	T	T	112998786	2	4	168	1	0	0	0	0	0	0	0	1	1482	639	23	1		1	BOC	3	112998786	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	44064354	112998786	85023644	18	89477											
SENP2	59343	broad.mit.edu	37	chr3	185335332	185335332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgaaatcctaagtagtgCtttcaaattgcgaattactc	13	13	8	7	1	1	1	1	1	0	0	3	3	2	2	1	1	3	2	1	1	6	5			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr3:185335332C>T	uc003fpn.2	+	12	1346	c.1175C>T	c.(1174-1176)GCT>GTT	p.A392V	SENP2_uc011brv.1_Missense_Mutation_p.A382V|SENP2_uc011brw.1_Missense_Mutation_p.A205V	NM_021627	NP_067640	Q9HC62	SENP2_HUMAN	SUMO1/sentrin/SMT3 specific protease 2	392					mRNA transport|protein desumoylation|protein transport|proteolysis|regulation of Wnt receptor signaling pathway|transmembrane transport|Wnt receptor signaling pathway	cytoplasm|nuclear membrane|nuclear pore	protein binding|SUMO-specific protease activity				0	all_cancers(143;1.28e-10)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			CTAAGTAGTGCTTTCAAATTG	0.388													9	52					0	0	0.047766	0	0		T	185335332	T	T	185335332	3	4	168	1	0	0	0	0	1	0	0	0	14072	797	28	2	1221	2	SENP2	3	185335332	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	72336546	185335332	12687098	19	89478											
PDCL2	132954	broad.mit.edu	37	chr4	56448359	56448359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttaggaggaagaatgcCgaaatctcttaaaatgtcat	14	13	8	6	1	3	1	1	0	2	1	4	4	3	3	1	2	1	0	1	2	6	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr4:56448359C>T	uc003hbb.2	-	2	155	c.52G>A	c.(52-54)GGC>AGC	p.G18S		NM_152401	NP_689614	Q8N4E4	PDCL2_HUMAN	phosducin-like 2	18											0	Lung NSC(11;0.00256)|Glioma(25;0.08)|all_epithelial(27;0.0863)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(4;1.69e-07)|Lung(4;1.03e-06)|Epithelial(7;0.00669)			GGAAGAATGCCGAAATCTCTT	0.338													8	64					0	0	0.038147	0	0		T	56448359	T	T	56448359	3	4	168	1	0	0	0	0	1	0	0	0	11646	652	23	1	693	1	PDCL2	4	56448359	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		56448359	134705917	20	89479											
ENPEP	2028	broad.mit.edu	37	chr4	111398070	111398070	+	Missense_Mutation	SNP	A	C	C	1	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	tttcgagtacaaaaagcaggAgtacgtggtggtcgaggcgg	11	8	16	6	4	0	0	0	0	0	0	2	3	0	1	0	5	3	3	0	5	4	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr4:111398070A>C	uc003iab.3	+	1	842	c.500A>C	c.(499-501)GAG>GCG	p.E167A		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	167	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	AAAAAGCAGGAGTACGTGGTG	0.627													19	115					0	0	0.049695	0	0		C	111398070	C	C	111398070	3	2	168	1	0	0	0	0	1	0	0	0	5136	304	11	5	502	5	ENPEP	4	111398070	Missense_Mutation	SNP	A	TCGA-D7-6521-01A-11D-1800-08	54949711	111398070	79756206	21	89480											
DNAH5	1767	broad.mit.edu	37	chr5	13885264	13885264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctttttcctcgtgactgtCgtcaaaagcagggcattggc	7	14	10	10	2	2	1	1	1	1	0	5	1	3	1	1	2	1	2	1	2	2	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr5:13885264C>T	uc003jfd.2	-	19	2859	c.2817G>A	c.(2815-2817)ACG>ACA	p.T939T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	939	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TCGTGACTGTCGTCAAAAGCA	0.418									Kartagener_syndrome				20	67					0	0	0.049695	0	0		T	13885264	T	T	13885264	2	4	168	1	0	0	0	0	0	0	0	1	4610	871	31	1		1	DNAH5	5	13885264	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08		13885264	167029996	22	89481											
PCDHB3	56132	broad.mit.edu	37	chr5	140481829	140481829	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcgttcgagttccgcgtgggCgccacagaccgtggctcccc	4	7	14	16	6	0	1	0	0	0	1	3	2	2	1	5	2	0	3	5	2	0	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr5:140481829C>T	uc003lio.2	+	1	1596	c.1596C>T	c.(1594-1596)GGC>GGT	p.G532G	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	532	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCGCGTGGGCGCCACAGACC	0.672													13	82					0	0	0.016723	0	0		T	140481829	T	T	140481829	2	4	168	1	0	0	0	0	0	0	0	1	11562	755	27	1		1	PCDHB3	5	140481829	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	126596565	140481829	40433431	23	89482											
PCDHB7	56129	broad.mit.edu	37	chr5	140554097	140554097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgacaactcgcccttcGtgctgtacccgctgcagaac	9	7	8	17	4	0	1	0	0	0	1	2	2	0	1	3	0	6	4	3	0	4	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr5:140554097G>A	uc003lit.2	+	1	1855	c.1681G>A	c.(1681-1683)GTG>ATG	p.V561M		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	561	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCGCCCTTCGTGCTGTACCC	0.731													5	62					0	0	0.014758	0	0		A	140554097	A	A	140554097	3	1	168	1	0	0	0	0	1	0	0	0	11566	1145	40	1	1683	1	PCDHB7	5	140554097	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	72268	140554097	40361163	24	89483											
PCDHB11	56125	broad.mit.edu	37	chr5	140579705	140579705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccacgcagtttttacaaattGagcttcaggtcagggatata	12	12	9	8	1	2	1	2	1	0	0	2	2	2	2	1	2	2	3	1	2	4	7			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr5:140579705G>A	uc003liy.2	+	1	358	c.358G>A	c.(358-360)GAG>AAG	p.E120K	PCDHB11_uc011daj.1_Intron	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	120	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTTACAAATTGAGCTTCAGGT	0.463													6	193					0	0	0.021553	0	0		A	140579705	A	A	140579705	3	1	168	1	0	0	0	0	1	0	0	0	11555	1291	45	4	360	4	PCDHB11	5	140579705	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	25608	140579705	40335555	25	89484											
GMDS	2762	broad.mit.edu	37	chr6	1961067	1961067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggtatttcctgcactttcCcataaagttcacttgttgag	8	15	9	9	0	1	1	1	1	0	0	3	1	3	1	2	2	1	4	2	2	3	7			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr6:1961067C>T	uc003mtq.2	-	5	669	c.479G>A	c.(478-480)GGG>GAG	p.G160E		NM_001500	NP_001491	O60547	GMDS_HUMAN	GDP-mannose 4,6-dehydratase	160					'de novo' GDP-L-fucose biosynthetic process|GDP-mannose metabolic process|leukocyte cell-cell adhesion		coenzyme binding|GDP-mannose 4,6-dehydratase activity			central_nervous_system(1)	1	Ovarian(93;0.0733)	all_cancers(2;7.64e-19)|all_epithelial(2;3.05e-16)|Colorectal(2;0.00414)|all_hematologic(90;0.00997)|all_lung(73;0.0141)|Lung NSC(90;0.0802)		Epithelial(2;7.61e-06)|all cancers(2;0.000111)|STAD - Stomach adenocarcinoma(2;0.000231)|Colorectal(2;0.00445)|COAD - Colon adenocarcinoma(2;0.0125)|OV - Ovarian serous cystadenocarcinoma(45;0.0563)		CTGCACTTTCCCATAAAGTTC	0.498													6	115					0	0	0.038147	0	0		T	1961067	T	T	1961067	3	4	168	1	0	0	0	0	1	0	0	0	6501	623	22	4	667	4	GMDS	6	1961067	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		1961067	169154000	26	89485											
HIST1H1A	3024	broad.mit.edu	37	chr6	26017492	26017492	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgttgccgcaggcttttTagcctttttcggagtcttga	4	17	10	10	2	1	1	0	1	1	0	2	2	1	2	3	2	2	3	3	2	1	8			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr6:26017492T>C	uc003nfo.2	-	1	549	c.469A>G	c.(469-471)AAA>GAA	p.K157E		NM_005325	NP_005316	Q02539	H11_HUMAN	histone cluster 1, H1a	157					nucleosome assembly|spermatogenesis	nucleosome|nucleus	DNA binding			ovary(2)	2						GCAGGCTTTTTAGCCTTTTTC	0.453													19	178					0	0	0.062417	0	0		C	26017492	C	C	26017492	3	2	168	1	0	0	0	0	1	0	0	0	7138	1763	61	3	182	3	HIST1H1A	6	26017492	Missense_Mutation	SNP	T	TCGA-D7-6521-01A-11D-1800-08	24056425	26017492	145097575	27	89486											
AKAP12	9590	broad.mit.edu	37	chr6	151670244	151670244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacaatctacagagaaacccGaagagaccctgaagcgtgag	17	4	10	10	2	1	4	0	2	1	2	1	7	1	4	2	0	4	0	2	0	6	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr6:151670244G>A	uc011eep.1	+	4	958	c.718G>A	c.(718-720)GAA>AAA	p.E240K	AKAP12_uc003qoe.2_Missense_Mutation_p.E240K|AKAP12_uc003qof.2_Missense_Mutation_p.E142K|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.E135K	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	240			E -> K (in a colorectal cancer sample; somatic mutation).		G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding	p.E240K(1)		large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AGAGAAACCCGAAGAGACCCT	0.557													18	64					0	0	0.038395	0	0		A	151670244	A	A	151670244	3	1	168	1	0	0	0	0	1	0	0	0	448	1059	37	1	757	1	AKAP12	6	151670244	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	125652752	151670244	19444823	28	89487											
EGFR	1956	broad.mit.edu	37	chr7	55211010	55211010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttcttagaccatccaggagGtggctggttatgtcctcatt	7	14	10	10	0	2	1	1	0	1	1	4	2	4	2	3	4	0	2	3	4	2	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr7:55211010G>A	uc003tqk.2	+	3	499	c.253G>A	c.(253-255)GTG>ATG	p.V85M	EGFR_uc003tqh.2_Missense_Mutation_p.V85M|EGFR_uc003tqi.2_Missense_Mutation_p.V85M|EGFR_uc003tqj.2_Missense_Mutation_p.V85M|EGFR_uc010kzg.1_Missense_Mutation_p.V85M|EGFR_uc011kco.1_Missense_Mutation_p.V32M	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	85	Approximate.|Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.V30_R297>G(5)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CATCCAGGAGGTGGCTGGTTA	0.448		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			9	118					0	0	0.047766	0	0		A	55211010	A	A	55211010	3	1	168	1	0	0	0	0	1	0	0	0	4973	1261	44	4	263	4	EGFR	7	55211010	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08		55211010	103927653	29	89488											
ZNF479	90827	broad.mit.edu	37	chr7	57187764	57187764	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tatgaattctcttgtggtcaGtgagggttgaggataagcta	10	14	13	4	0	2	3	1	3	1	0	3	4	2	4	0	3	1	2	0	3	4	6			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr7:57187764G>A	uc010kzo.2	-	5	1629	c.1358C>T	c.(1357-1359)ACT>ATT	p.T453I		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	453	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			CTTGTGGTCAGTGAGGGTTGA	0.428													13	111					0	0	0.016723	0	0		A	57187764	A	A	57187764	3	1	168	1	0	0	0	0	1	0	0	0	17958	1029	36	4	220	4	ZNF479	7	57187764	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	1976754	57187764	101950899	30	89489											
DTX2	113878	broad.mit.edu	37	chr7	76126705	76126705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actccctgtgtgtcttagccGcgcaccccagcccaccagcc	6	7	8	20	2	1	0	0	0	1	0	2	0	2	0	7	0	3	1	7	0	1	1	rs137896500	byFrequency	TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr7:76126705G>A	uc003uff.3	+	7	1617	c.1061G>A	c.(1060-1062)CGC>CAC	p.R354H	DTX2_uc011kgk.1_Missense_Mutation_p.R263H|DTX2_uc003ufg.3_Missense_Mutation_p.R354H|DTX2_uc003ufh.3_Missense_Mutation_p.R354H|DTX2_uc003ufj.3_Intron|DTX2_uc003ufk.3_Intron|DTX2_uc003ufl.1_Missense_Mutation_p.R17H|DTX2_uc003ufm.3_5'Flank	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	354					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TGTCTTAGCCGCGCACCCCAG	0.552													29	121					0	0	0.048971	0	0		A	76126705	A	A	76126705	3	1	168	1	0	0	0	0	1	0	0	0	4800	1087	38	1	1075	1	DTX2	7	76126705	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	18938941	76126705	83011958	31	89490											
TRRAP	8295	broad.mit.edu	37	chr7	98550831	98550831	+	Silent	SNP	G	C	C	0	0	1	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	gcggacatgctggactcgctGcggatctacctgctgcagta	7	9	13	12	3	1	0	0	0	1	0	2	3	1	3	1	3	5	5	1	3	2	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr7:98550831G>C	uc003upp.2	+	39	5693	c.5484G>C	c.(5482-5484)CTG>CTC	p.L1828L	TRRAP_uc011kis.1_Silent_p.L1810L|TRRAP_uc003upr.2_Silent_p.L1527L	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	1828					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			TGGACTCGCTGCGGATCTACC	0.602													7	109					0	0	0.038147	0	0		C	98550831	C	C	98550831	2	2	168	1	0	0	0	0	0	0	0	1	16627	1306	46	5		5	TRRAP	7	98550831	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	22424126	98550831	60587832	32	89491											
PLXNA4	91584	broad.mit.edu	37	chr7	131878892	131878892	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccacgcagatctccacgaAgcctgcatgctggctgggct	8	7	12	14	2	1	1	0	0	1	1	2	2	1	1	3	2	4	5	3	2	1	0			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr7:131878892A>G	uc003vra.3	-	14	3014	c.2785T>C	c.(2785-2787)TTC>CTC	p.F929L		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	929	IPT/TIG 1.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						ATCTCCACGAAGCCTGCATGC	0.582													13	106					0	0	0.020292	0	0		G	131878892	G	G	131878892	3	3	168	1	0	0	0	0	1	0	0	0	12141	72	3	3	2975	3	PLXNA4	7	131878892	Missense_Mutation	SNP	A	TCGA-D7-6521-01A-11D-1800-08	33328061	131878892	27259771	33	89492											
TRPV6	55503	broad.mit.edu	37	chr7	142569461	142569461	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcgaagtgagaacacgcagtCagatctgatattcccagctc	12	8	10	11	2	2	3	1	2	1	2	4	5	3	3	1	0	2	2	1	0	3	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr7:142569461C>T	uc003wbx.1	-	15	2393	c.2177G>A	c.(2176-2178)TGA>TAA	p.*726*	TRPV6_uc003wbw.1_Silent_p.*512*|TRPV6_uc010lou.1_Silent_p.*597*	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	726					regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					AACACGCAGTCAGATCTGATA	0.532													8	107					0	0	0.038147	0	0		T	142569461	T	T	142569461	2	4	168	1	0	0	0	0	0	0	0	1	16626	837	29	4		4	TRPV6	7	142569461	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	10690569	142569461	16569202	34	89493											
ADRA1A	148	broad.mit.edu	37	chr8	26627887	26627887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaaatttccattcacaaaCgccatccgtcttggagatcc	13	10	6	12	2	2	1	1	0	1	1	5	3	5	1	4	1	1	0	4	1	3	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr8:26627887C>T	uc003xfh.1	-	2	1616	c.1180G>A	c.(1180-1182)GTT>ATT	p.V394I	ADRA1A_uc003xfc.1_Missense_Mutation_p.V394I|ADRA1A_uc010lul.1_Intron|ADRA1A_uc003xfd.1_Intron|ADRA1A_uc003xfe.1_Missense_Mutation_p.V394I|ADRA1A_uc010lum.1_Intron|ADRA1A_uc003xff.1_Intron|ADRA1A_uc003xfg.1_Missense_Mutation_p.V394I	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	394	Cytoplasmic (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	CATTCACAAACGCCATCCGTC	0.552													14	89					0	0	0.020292	0	0		T	26627887	T	T	26627887	3	4	168	1	0	0	0	0	1	0	0	0	334	536	19	1	515	1	ADRA1A	8	26627887	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		26627887	119736135	35	89494											
RP1	6101	broad.mit.edu	37	chr8	55539912	55539912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacaaggctaccaacaaatCttcagaaacacttgcattgt	15	10	5	11	0	3	1	2	0	1	1	3	1	3	1	1	1	4	2	1	1	5	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr8:55539912C>T	uc003xsd.1	+	4	3618	c.3470C>T	c.(3469-3471)TCT>TTT	p.S1157F	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1157					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ACCAACAAATCTTCAGAAACA	0.418													8	40					0	0	0.038147	0	0		T	55539912	T	T	55539912	3	4	168	1	0	0	0	0	1	0	0	0	13557	913	32	4	3480	4	RP1	8	55539912	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	28912025	55539912	90824110	36	89495											
RUNX1T1	862	broad.mit.edu	37	chr8	93004103	93004103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaaaggctctctgtcaaagCcattttctttggttctaaag	10	14	8	9	0	4	0	1	0	3	0	5	0	4	0	1	2	1	3	1	2	4	5			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr8:93004103C>T	uc003yfd.2	-	6	839	c.755G>A	c.(754-756)GGC>GAC	p.G252D	RUNX1T1_uc003yfc.1_Missense_Mutation_p.G225D|RUNX1T1_uc003yfe.1_Missense_Mutation_p.G215D|RUNX1T1_uc010mao.2_Missense_Mutation_p.G225D|RUNX1T1_uc011lgi.1_Missense_Mutation_p.G263D|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.G215D	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	252					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			TCTGTCAAAGCCATTTTCTTT	0.433													5	33					0	0	0.014758	0	0		T	93004103	T	T	93004103	3	4	168	1	0	0	0	0	1	0	0	0	13772	739	26	2	1083	2	RUNX1T1	8	93004103	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	37464191	93004103	53359919	37	89496											
TAF1L	138474	broad.mit.edu	37	chr9	32630240	32630240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaggattgtctccttcttCgtcactcccagcatcttcct	7	14	6	14	1	4	0	1	0	3	0	8	2	6	1	3	1	1	1	3	1	1	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr9:32630240C>T	uc003zrg.1	-	1	5428	c.5338G>A	c.(5338-5340)GAA>AAA	p.E1780K		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1780					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		TCTCCTTCTTCGTCACTCCCA	0.453													17	100					0	0	0.038395	0	0		T	32630240	T	T	32630240	3	4	168	1	0	0	0	0	1	0	0	0	15548	893	31	1	146	1	TAF1L	9	32630240	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		32630240	108583191	38	89497											
PGM5	5239	broad.mit.edu	37	chr9	71002420	71002420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatctatcttaacctccttCggaccatctttgactttcat	9	17	3	12	1	4	1	1	1	3	0	6	2	5	2	3	1	1	0	3	1	3	6	rs138311393		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr9:71002420C>T	uc004agr.2	+	4	842	c.613C>T	c.(613-615)CGG>TGG	p.R205W		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	205					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TAACCTCCTTCGGACCATCTT	0.428													26	94					0	0	0.041601	0	0		T	71002420	T	T	71002420	3	4	168	1	0	0	0	0	1	0	0	0	11820	875	31	1	627	1	PGM5	9	71002420	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	38372180	71002420	70211011	39	89498											
FAM163B	642968	broad.mit.edu	37	chr9	136444287	136444287	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgctcttgtagagcacgcGctccccgccgttcagcacgt	6	8	10	17	6	2	1	1	0	1	1	3	1	3	1	3	0	2	6	3	0	1	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr9:136444287G>C	uc011mdm.1	-	2	358	c.358C>G	c.(358-360)CGC>GGC	p.R120G		NM_001080515	NP_001073984	P0C2L3	F163B_HUMAN	hypothetical LOC642968	120						integral to membrane					0						TAGAGCACGCGCTCCCCGCCG	0.721													3	12					0	0	0.021553	0	0		C	136444287	C	C	136444287	3	2	168	1	0	0	0	0	1	0	0	0	5488	1087	38	5	145	5	FAM163B	9	136444287	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	65441867	136444287	4769144	40	89499											
SIRT1	23411	broad.mit.edu	37	chr10	69676111	69676111	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatgacgtcttatcctctAgttcttgtggcagtaacagt	10	14	9	8	1	3	2	0	1	3	1	4	2	4	2	1	1	1	3	1	1	4	5			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr10:69676111A>G	uc001jnd.2	+	9	2058	c.2005A>G	c.(2005-2007)AGT>GGT	p.S669G	SIRT1_uc010qis.1_Missense_Mutation_p.S374G|SIRT1_uc009xpp.2_Missense_Mutation_p.S477G|SIRT1_uc001jne.2_Missense_Mutation_p.S366G	NM_012238	NP_036370	Q96EB6	SIRT1_HUMAN	sirtuin 1 isoform a	669					apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0						CTTATCCTCTAGTTCTTGTGG	0.408													14	48					0	0	0.020292	0	0		G	69676111	G	G	69676111	3	3	168	1	0	0	0	0	1	0	0	0	14362	420	15	3	2039	3	SIRT1	10	69676111	Missense_Mutation	SNP	A	TCGA-D7-6521-01A-11D-1800-08		69676111	65858636	41	89500											
MYPN	84665	broad.mit.edu	37	chr10	69934039	69934039	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtatttcttcccctccacGaacaccaccgcagcaactgt	11	9	5	16	2	1	0	0	0	1	0	3	1	3	0	5	0	3	3	5	0	4	3	rs71584492		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr10:69934039G>A	uc001jnm.3	+	12	2375	c.2190G>A	c.(2188-2190)ACG>ACA	p.T730T	MYPN_uc001jnn.3_Silent_p.T455T|MYPN_uc001jno.3_Silent_p.T730T|MYPN_uc009xpt.2_Silent_p.T730T|MYPN_uc010qit.1_Silent_p.T436T|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	730						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						TCCCCTCCACGAACACCACCG	0.552													4	142					0	0	0.009096	0	0		A	69934039	A	A	69934039	2	1	168	1	0	0	0	0	0	0	0	1	10116	1045	37	1		1	MYPN	10	69934039	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	257928	69934039	65600708	42	89501											
RBMXL2	27288	broad.mit.edu	37	chr11	7111052	7111052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accccggggttttgccccctCgcccggagagtacacccacc	6	6	10	19	3	0	1	0	0	0	1	1	2	0	1	7	3	2	2	7	3	1	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:7111052C>T	uc001mfc.2	+	1	888	c.701C>T	c.(700-702)TCG>TTG	p.S234L		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	234	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TTTGCCCCCTCGCCCGGAGAG	0.687													3	17					0	0	0.004672	0	0		T	7111052	T	T	7111052	3	4	168	1	0	0	0	0	1	0	0	0	13179	893	31	1	703	1	RBMXL2	11	7111052	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		7111052	127895464	43	89502											
PDE3B	5140	broad.mit.edu	37	chr11	14808127	14808127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttaatgggtgctttctcaGgttcctgtaggccaaagatt	8	14	11	8	0	1	1	1	0	1	1	3	1	2	1	2	3	1	4	2	3	3	5			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:14808127G>A	uc001mln.2	+	3	1527	c.1174G>A	c.(1174-1176)GGT>AGT	p.G392S	PDE3B_uc010rcr.1_Intron	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	392					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TGCTTTCTCAGGTTCCTGTAG	0.448													21	171					0	0	0.055883	0	0		A	14808127	A	A	14808127	3	1	168	1	0	0	0	0	1	0	0	0	11657	1000	35	4	1184	4	PDE3B	11	14808127	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	7697075	14808127	120198389	44	89503											
PAMR1	25891	broad.mit.edu	37	chr11	35496285	35496285	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggggctcgcagaacctgGccacatcctaagaaaagaag	13	7	11	10	1	0	3	0	0	0	3	2	3	1	3	3	3	1	2	3	3	5	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:35496285G>T	uc001mwg.2	-	4	430	c.387C>A	c.(385-387)GGC>GGA	p.G129G	PAMR1_uc001mwf.2_Silent_p.G129G|PAMR1_uc010rew.1_Intron|PAMR1_uc010rex.1_Silent_p.G89G	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	129	CUB.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						GCAGAACCTGGCCACATCCTA	0.448													13	56					4.3838e-07	5.0975e-07	0.016723	1	0		T	35496285	T	T	35496285	2	4	168	1	0	0	0	0	0	0	0	1	11432	1190	42	5		5	PAMR1	11	35496285	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	20688158	35496285	99510231	45	89504											
SHANK2	22941	broad.mit.edu	37	chr11	70332291	70332291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgatggttctgccgggcacGgtggtgggctcgggggcagc	4	7	20	10	4	1	0	0	0	1	0	2	1	1	0	1	7	2	4	1	7	0	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:70332291G>A	uc001oqc.2	-	21	4185	c.4107C>T	c.(4105-4107)ACC>ACT	p.T1369T	SHANK2_uc010rqn.1_Silent_p.T781T|SHANK2_uc001opz.2_Silent_p.T774T|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	990					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			TGCCGGGCACGGTGGTGGGCT	0.622													3	45					0	0	0.004672	0	0		A	70332291	A	A	70332291	2	1	168	1	0	0	0	0	0	0	0	1	14290	1103	39	1		1	SHANK2	11	70332291	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	34836006	70332291	64674225	46	89505											
FAT3	120114	broad.mit.edu	37	chr11	92430579	92430579	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	caacaacttcaaggaaattgGatcgagaacagcaggcagaa	18	5	10	8	1	1	2	1	0	0	2	2	5	1	4	0	3	4	2	0	3	6	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:92430579G>C	uc001pdj.3	+	3	3654	c.3637G>C	c.(3637-3639)GAT>CAT	p.D1213H		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1213	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AAGGAAATTGGATCGAGAACA	0.378										TCGA Ovarian(4;0.039)			5	49					0	0	0.021553	0	0		C	92430579	C	C	92430579	3	2	168	1	0	0	0	0	1	0	0	0	5705	1174	41	5	3647	5	FAT3	11	92430579	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	22098288	92430579	42575937	47	89506											
ARHGAP20	57569	broad.mit.edu	37	chr11	110453059	110453059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatacctgaggcattctctCtagtgtcacatctcactgaa	11	12	6	12	0	4	2	2	2	3	0	6	2	4	2	1	1	1	1	1	1	4	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:110453059C>T	uc001pkz.1	-	15	1991	c.1706G>A	c.(1705-1707)AGA>AAA	p.R569K	ARHGAP20_uc001pky.1_Missense_Mutation_p.R546K|ARHGAP20_uc009yyb.1_Missense_Mutation_p.R533K|ARHGAP20_uc001pla.1_Missense_Mutation_p.R533K|ARHGAP20_uc001plb.2_Missense_Mutation_p.R112K	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	569					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(3)|kidney(2)	5		all_cancers(61;3.26e-12)|all_epithelial(67;6.09e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000484)|Acute lymphoblastic leukemia(157;0.000967)|all_neural(223;0.0199)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;3.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|all cancers(92;0.000147)|OV - Ovarian serous cystadenocarcinoma(223;0.0475)		GGCATTCTCTCTAGTGTCACA	0.413													17	104					0	0	0.0333	0	0		T	110453059	T	T	110453059	3	4	168	1	0	0	0	0	1	0	0	0	870	913	32	4	1877	4	ARHGAP20	11	110453059	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	18022480	110453059	24553457	48	89507											
DSCAML1	57453	broad.mit.edu	37	chr11	117389392	117389392	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccgtggggggcggggcGcccttggccgcacacatcag	5	5	18	13	4	1	1	1	1	0	0	1	1	1	1	3	6	0	1	3	6	0	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:117389392G>A	uc001prh.1	-	7	1481	c.1479C>T	c.(1477-1479)GGC>GGT	p.G493G	DSCAML1_uc001pri.1_Silent_p.G297G	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	433	Extracellular (Potential).|Ig-like C2-type 5.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GGGGCGGGGCGCCCTTGGCCG	0.672													5	42					0	0	0.014758	0	0		A	117389392	A	A	117389392	2	1	168	1	0	0	0	0	0	0	0	1	4775	1074	38	1		1	DSCAML1	11	117389392	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	6936333	117389392	17617124	49	89508											
SNX19	399979	broad.mit.edu	37	chr11	130784835	130784835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaatctccctctacagcttCgtggccttcttcaacctctg	7	13	5	16	1	5	0	1	0	4	0	7	0	5	0	3	1	3	1	3	1	3	4	rs143532789		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr11:130784835C>T	uc001qgk.3	-	1	1548	c.1000G>A	c.(1000-1002)GAA>AAA	p.E334K	SNX19_uc010sce.1_Intron|SNX19_uc010scf.1_Intron|SNX19_uc010scg.1_Intron|SNX19_uc001qgl.3_Missense_Mutation_p.E334K|SNX19_uc009zcx.1_Intron	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	334					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		TCTACAGCTTCGTGGCCTTCT	0.502													10	55					0	0	0.080935	0	0		T	130784835	T	T	130784835	3	4	168	1	0	0	0	0	1	0	0	0	14915	893	31	1	2022	1	SNX19	11	130784835	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	13395443	130784835	4221681	50	89509											
PIK3C2G	5288	broad.mit.edu	37	chr12	18491384	18491384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgtgtataatattattgaaGaagttaaaaaaatatgcagt	19	13	7	2	1	0	2	0	1	0	1	0	2	0	2	0	0	1	3	0	0	11	7			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr12:18491384G>A	uc001rdt.2	+	9	1413	c.1297G>A	c.(1297-1299)GAA>AAA	p.E433K	PIK3C2G_uc010sia.1_RNA|PIK3C2G_uc010sib.1_Missense_Mutation_p.E433K|PIK3C2G_uc010sic.1_Missense_Mutation_p.E211K	NM_004570	NP_004561	O75747	P3C2G_HUMAN	phosphoinositide-3-kinase, class 2 gamma	433					cell communication|phosphatidylinositol-mediated signaling	membrane|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(8)|central_nervous_system(6)|breast(3)|stomach(2)|ovary(2)	21		Hepatocellular(102;0.194)				TATTATTGAAGAAGTTAAAAA	0.313													7	89					0	0	0.02938	0	0		A	18491384	A	A	18491384	3	1	168	1	0	0	0	0	1	0	0	0	11930	943	33	4	1327	4	PIK3C2G	12	18491384	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08		18491384	115360511	51	89510											
TROAP	10024	broad.mit.edu	37	chr12	49724178	49724178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaccacagccctgccctcCggcagagcctgggcccccag	7	3	12	19	1	0	1	0	0	0	1	1	2	1	2	7	3	4	1	7	3	1	0			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr12:49724178C>T	uc001rtx.3	+	13	1717	c.1550C>T	c.(1549-1551)CCG>CTG	p.P517L	TROAP_uc009zlh.2_Missense_Mutation_p.P517L|TROAP_uc001rty.2_Missense_Mutation_p.P225L	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	517	Cys-rich.|4 X 33 AA approximate tandem repeats.|1.				cell adhesion	cytoplasm				ovary(1)	1						CCCTGCCCTCCGGCAGAGCCT	0.602													12	100					0	0	0.080935	0	0		T	49724178	T	T	49724178	3	4	168	1	0	0	0	0	1	0	0	0	16601	652	23	1	1698	1	TROAP	12	49724178	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	31232794	49724178	84127717	52	89511											
NAP1L1	4673	broad.mit.edu	37	chr12	76449896	76449896	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggggtcttctttttcttCatcttttttctcatcttcaa	4	24	4	9	0	8	0	3	0	6	0	9	0	8	0	0	2	0	0	0	2	1	9			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr12:76449896C>A	uc001sxw.2	-	7	887	c.475G>T	c.(475-477)GAA>TAA	p.E159*	NAP1L1_uc001sxv.2_Nonsense_Mutation_p.E117*|NAP1L1_uc001sxz.2_Nonsense_Mutation_p.E90*|NAP1L1_uc001sxx.2_Nonsense_Mutation_p.E159*|NAP1L1_uc001sxy.2_Nonsense_Mutation_p.E96*|NAP1L1_uc010sty.1_Nonsense_Mutation_p.E116*|NAP1L1_uc010stz.1_5'UTR|NAP1L1_uc010sua.1_Nonsense_Mutation_p.E159*|NAP1L1_uc001syb.2_Nonsense_Mutation_p.E159*|NAP1L1_uc001sya.2_Nonsense_Mutation_p.E117*|NAP1L1_uc001syc.2_Nonsense_Mutation_p.E170*	NM_139207	NP_631946	P55209	NP1L1_HUMAN	nucleosome assembly protein 1-like 1	159					DNA replication|nucleosome assembly|positive regulation of cell proliferation	chromatin assembly complex|melanosome	protein binding			ovary(1)|skin(1)	2		Colorectal(145;0.09)				TCTTTTTCTTCATCTTTTTTC	0.308													5	32					1.23904e-05	1.38064e-05	0.014758	1	0		A	76449896	A	A	76449896	4	1	168	1	0	0	0	0	0	1	0	0	10174	835	29	5	736	5	NAP1L1	12	76449896	Nonsense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	26725718	76449896	57401999	53	89512											
HAL	3034	broad.mit.edu	37	chr12	96377755	96377755	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaaatgctattgtatcattCaccacaccatggacctaaaa	16	10	4	11	0	2	0	2	0	0	0	2	1	2	1	3	1	1	2	3	1	5	5			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr12:96377755C>T	uc001tem.1	-	15	1518	c.1221G>A	c.(1219-1221)GTG>GTA	p.V407V	HAL_uc009zti.1_RNA|HAL_uc010suw.1_Silent_p.V199V|HAL_uc010sux.1_Silent_p.V407V	NM_002108	NP_002099	P42357	HUTH_HUMAN	histidine ammonia-lyase	407					biosynthetic process|histidine catabolic process	cytosol	histidine ammonia-lyase activity			ovary(2)|skin(1)	3					L-Histidine(DB00117)	TTGTATCATTCACCACACCAT	0.323													4	37					0	0	0.014758	0	0		T	96377755	T	T	96377755	2	4	168	1	0	0	0	0	0	0	0	1	6963	813	29	4		4	HAL	12	96377755	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	19927859	96377755	37474140	54	89513											
WSCD2	9671	broad.mit.edu	37	chr12	108641966	108641966	+	Missense_Mutation	SNP	A	G	G	1	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	ctgtgtggagagccagaaggAtggcaacttcaagcgctcag	11	7	14	9	1	2	2	2	0	0	2	2	4	2	3	1	3	3	2	1	3	3	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr12:108641966A>G	uc001tms.2	+	9	2288	c.1544A>G	c.(1543-1545)GAT>GGT	p.D515G	WSCD2_uc001tmt.2_Missense_Mutation_p.D515G|WSCD2_uc001tmu.2_Missense_Mutation_p.D283G	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	515						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						AGCCAGAAGGATGGCAACTTC	0.592													18	55					0	0	0.038395	0	0		G	108641966	G	G	108641966	3	3	168	1	0	0	0	0	1	0	0	0	17433	333	12	3	1574	3	WSCD2	12	108641966	Missense_Mutation	SNP	A	TCGA-D7-6521-01A-11D-1800-08	12264211	108641966	25209929	55	89514											
OAS3	4940	broad.mit.edu	37	chr12	113379558	113379558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctggtctgagactcacgtttCctgagcagagcgtgcctggg	6	10	14	11	2	2	3	1	2	1	2	3	4	3	3	2	2	3	2	2	2	0	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr12:113379558C>T	uc001tug.2	+	2	448	c.361C>T	c.(361-363)CCT>TCT	p.P121S	OAS3_uc001tue.2_Missense_Mutation_p.P121S|OAS3_uc001tuf.2_Missense_Mutation_p.P121S	NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	121	OAS domain 1.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						ACTCACGTTTCCTGAGCAGAG	0.607													15	98					0	0	0.020292	0	0		T	113379558	T	T	113379558	3	4	168	1	0	0	0	0	1	0	0	0	10820	855	30	4	367	4	OAS3	12	113379558	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	4737592	113379558	20472337	56	89515											
FLT1	2321	broad.mit.edu	37	chr13	29001982	29001982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcatcctcttcagttaCgtccttgataattaacgagt	9	14	6	12	2	2	1	1	1	1	0	4	2	4	1	3	0	3	2	3	0	3	5			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr13:29001982C>T	uc001usb.3	-	9	1468	c.1183G>A	c.(1183-1185)GTA>ATA	p.V395I	FLT1_uc010aar.1_Missense_Mutation_p.V395I|FLT1_uc001usc.3_Missense_Mutation_p.V395I|FLT1_uc010tdp.1_Missense_Mutation_p.V395I	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	395	Ig-like C2-type 4.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TCTTCAGTTACGTCCTTGATA	0.388													6	68					0	0	0.021553	0	0		T	29001982	T	T	29001982	3	4	168	1	0	0	0	0	1	0	0	0	5955	536	19	1	3184	1	FLT1	13	29001982	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		29001982	86167896	57	89516											
TRPC4	7223	broad.mit.edu	37	chr13	38211356	38211356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggtcctgcagcctgttgaCgagcaacttcttctgaaaca	9	11	10	11	1	2	2	0	2	2	0	3	3	3	2	2	1	5	3	2	1	2	3	rs142683062	byFrequency	TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr13:38211356C>T	uc001uws.2	-	11	2853	c.2618G>A	c.(2617-2619)CGT>CAT	p.R873H	TRPC4_uc010abv.2_Missense_Mutation_p.R453H|TRPC4_uc001uwt.2_Missense_Mutation_p.R789H|TRPC4_uc010tey.1_Missense_Mutation_p.R732H|TRPC4_uc010abw.2_Missense_Mutation_p.R700H|TRPC4_uc010abx.2_Missense_Mutation_p.R878H|TRPC4_uc010aby.2_Missense_Mutation_p.R724H	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	873	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		AGCCTGTTGACGAGCAACTTC	0.428													8	39					0	0	0.047766	0	0		T	38211356	T	T	38211356	3	4	168	1	0	0	0	0	1	0	0	0	16606	536	19	1	319	1	TRPC4	13	38211356	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	9209374	38211356	76958522	58	89517											
DAOA	267012	broad.mit.edu	37	chr13	106119489	106119489	+	Missense_Mutation	SNP	T	G	G	0	1	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	gaaaactctctaaactctatTggtatgttactctttatctt	11	18	4	8	0	4	0	0	0	4	0	5	1	4	0	0	1	3	2	0	1	8	8			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr13:106119489T>G	uc001vqb.2	+	2	406	c.132T>G	c.(130-132)ATT>ATG	p.I44M	DAOA_uc010tjf.1_Translation_Start_Site|DAOA_uc001vpz.2_RNA|DAOA_uc010agd.2_RNA|DAOA_uc010tjg.1_Translation_Start_Site|DAOA_uc001vqc.2_RNA|DAOA_uc001vqe.2_RNA	NM_172370	NP_758958	P59103	DAOA_HUMAN	D-amino acid oxidase activator isoform 1	44						Golgi apparatus					0	Lung NSC(43;0.01)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TAAACTCTATTGGTATGTTAC	0.284													10	74					0	0	0.058154	0	0		G	106119489	G	G	106119489	3	3	168	1	0	0	0	0	1	0	0	0	4235	1826	63	5	138	5	DAOA	13	106119489	Missense_Mutation	SNP	T	TCGA-D7-6521-01A-11D-1800-08	67908133	106119489	9050389	59	89518											
NPAS3	64067	broad.mit.edu	37	chr14	33684530	33684530	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgacaaggcatccatcattCgacttacaattagctatctg	12	12	6	11	2	2	0	1	0	1	0	5	2	3	0	1	1	2	2	1	1	5	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr14:33684530C>A	uc001wru.2	+	3	347	c.283C>A	c.(283-285)CGA>AGA	p.R95R	NPAS3_uc001wrs.2_Silent_p.R65R|NPAS3_uc001wrt.2_Silent_p.R65R|NPAS3_uc001wrv.2_Silent_p.R65R|NPAS3_uc001wrw.2_5'UTR	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	95	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		ATCCATCATTCGACTTACAAT	0.493													14	99					2.23348e-06	2.51267e-06	0.028581	1	0		A	33684530	A	A	33684530	2	1	168	1	0	0	0	0	0	0	0	1	10583	876	31	5		5	NPAS3	14	33684530	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08		33684530	73665010	60	89519											
DACT1	51339	broad.mit.edu	37	chr14	59113725	59113725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagactctgcccattcaaaCggtaacggccccagaccttc	10	7	7	17	2	2	2	1	0	1	2	3	2	2	2	5	2	3	1	5	2	2	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr14:59113725C>T	uc001xdw.2	+	4	2548	c.2384C>T	c.(2383-2385)ACG>ATG	p.T795M	DACT1_uc010trv.1_Missense_Mutation_p.T514M|DACT1_uc001xdx.2_Missense_Mutation_p.T758M|DACT1_uc010trw.1_Missense_Mutation_p.T514M	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	795					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						CCCATTCAAACGGTAACGGCC	0.537													4	80					0	0	0.014758	0	0		T	59113725	T	T	59113725	3	4	168	1	0	0	0	0	1	0	0	0	4225	536	19	1	2398	1	DACT1	14	59113725	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	25429195	59113725	48235815	61	89520											
EVL	51466	broad.mit.edu	37	chr14	100595908	100595908	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctttttcctcagccagaagaCgcatctggaggctccagtcc	8	10	9	14	1	2	2	1	0	1	2	5	3	5	3	4	2	1	2	4	2	1	2	rs145112596	byFrequency	TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr14:100595908C>T	uc001ygt.2	+	7	959	c.720C>T	c.(718-720)GAC>GAT	p.D240D	EVL_uc001ygv.2_Silent_p.D246D|EVL_uc001ygu.2_Silent_p.D242D|EVL_uc010avu.2_Silent_p.D99D	NM_016337	NP_057421	Q9UI08	EVL_HUMAN	Enah/Vasp-like	240	EVH2.|EVH2 block A.				actin polymerization or depolymerization|axon guidance|cell surface receptor linked signaling pathway|organ morphogenesis	cytoskeleton|cytosol|focal adhesion|lamellipodium	actin binding|profilin binding|SH3 domain binding			large_intestine(2)|ovary(1)	3		Melanoma(154;0.152)				AGCCAGAAGACGCATCTGGAG	0.587													3	26					0	0	0.009096	0	0		T	100595908	T	T	100595908	2	4	168	1	0	0	0	0	0	0	0	1	5299	535	19	1		1	EVL	14	100595908	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	41482183	100595908	6753632	62	89521											
TGM7	116179	broad.mit.edu	37	chr15	43577123	43577123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aacggaaattggaaacaacaCgggttggaacacctaagcat	17	6	10	8	2	0	0	0	0	0	0	0	3	0	3	1	4	5	2	1	4	6	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr15:43577123C>T	uc001zrf.1	-	7	898	c.893G>A	c.(892-894)CGT>CAT	p.R298H		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	298					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	GGAAACAACACGGGTTGGAAC	0.413													11	58					0	0	0.069234	0	0		T	43577123	T	T	43577123	3	4	168	1	0	0	0	0	1	0	0	0	15860	536	19	1	1267	1	TGM7	15	43577123	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		43577123	58954269	63	89522											
CLK3	1198	broad.mit.edu	37	chr15	74912538	74912538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccactgccacaaacgccGcaccaggtcttgtagcagcg	10	5	9	17	3	1	0	0	0	1	0	1	0	1	0	5	1	4	3	5	1	2	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr15:74912538G>A	uc010uln.1	+	3	1246	c.785G>A	c.(784-786)CGC>CAC	p.R262H	CLK3_uc002ayg.3_Missense_Mutation_p.R114H|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Missense_Mutation_p.R262H|CLK3_uc002ayj.3_Missense_Mutation_p.R114H|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	262	Arg-rich.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						CACAAACGCCGCACCAGGTCT	0.617													12	119					0	0	0.09319	0	0		A	74912538	A	A	74912538	3	1	168	1	0	0	0	0	1	0	0	0	3541	1087	38	1	795	1	CLK3	15	74912538	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	31335415	74912538	27618854	64	89523											
LYRM1	57149	broad.mit.edu	37	chr16	20926917	20926917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaagtccttggcctctacCgcagcattttcaggcttgcg	8	11	10	12	2	2	1	1	0	1	1	3	1	3	1	3	2	3	3	3	2	3	5	rs149175521	byFrequency	TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr16:20926917C>T	uc010bwj.2	+	2	341	c.40C>T	c.(40-42)CGC>TGC	p.R14C	LYRM1_uc010bwi.1_RNA|LYRM1_uc010bwk.2_Intron|LYRM1_uc002dia.3_Missense_Mutation_p.R14C|LYRM1_uc010bwl.2_Missense_Mutation_p.R14C|LYRM1_uc010bwm.2_Intron|LYRM1_uc002dib.2_Missense_Mutation_p.R14C	NM_020424	NP_065157	O43325	LYRM1_HUMAN	LYR motif containing 1	14						nucleus					0						TGGCCTCTACCGCAGCATTTT	0.463													14	122					0	0	0.020292	0	0		T	20926917	T	T	20926917	3	4	168	1	0	0	0	0	1	0	0	0	9137	652	23	1	42	1	LYRM1	16	20926917	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		20926917	69427836	65	89524											
RANBP10	57610	broad.mit.edu	37	chr16	67762350	67762350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggcaccattaacaatgcGtgtggacatgcttcctagca	11	10	10	10	1	0	0	0	0	0	0	1	1	1	1	2	2	4	4	2	2	4	4	rs146349352		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr16:67762350G>A	uc002eud.2	-	11	1533	c.1417C>T	c.(1417-1419)CGC>TGC	p.R473C	RANBP10_uc010ceo.2_Missense_Mutation_p.R244C|RANBP10_uc010vju.1_Missense_Mutation_p.R447C|RANBP10_uc010vjv.1_Missense_Mutation_p.R386C|RANBP10_uc010vjw.1_Missense_Mutation_p.R164C	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	473										ovary(1)	1		Acute lymphoblastic leukemia(13;4.34e-06)|all_hematologic(13;0.000643)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00522)|Epithelial(162;0.025)|all cancers(182;0.157)		TTAACAATGCGTGTGGACATG	0.587													4	61					0	0	0.009096	0	0		A	67762350	A	A	67762350	3	1	168	1	0	0	0	0	1	0	0	0	13051	1145	40	1	461	1	RANBP10	16	67762350	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	46835433	67762350	22592403	66	89525											
DDX28	55794	broad.mit.edu	37	chr16	68056517	68056517	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cgcggggataggaagggagtCcaggcttggctggcccaaga	9	5	18	9	2	0	1	0	0	0	1	1	4	1	4	2	7	0	2	2	7	3	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr16:68056517C>G	uc002evh.1	-	1	1443	c.589G>C	c.(589-591)GAC>CAC	p.D197H	DUS2L_uc002evi.2_5'Flank|DUS2L_uc002evj.2_5'Flank|DUS2L_uc010vkk.1_5'Flank	NM_018380	NP_060850	Q9NUL7	DDX28_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	197	Helicase ATP-binding.					mitochondrial nucleoid|nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0116)|Epithelial(162;0.0474)|all cancers(182;0.233)		GGAAGGGAGTCCAGGCTTGGC	0.657													19	48					0	0	0.062417	0	0		G	68056517	G	G	68056517	3	3	168	1	0	0	0	0	1	0	0	0	4358	855	30	5	1037	5	DDX28	16	68056517	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	294167	68056517	22298236	67	89526											
ADAMTS18	170692	broad.mit.edu	37	chr16	77387771	77387771	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcatccactagacacccCgcctgaggtgtgctgtaatg	8	9	11	13	1	1	2	1	1	0	1	2	2	2	2	4	2	1	3	4	2	2	2	rs148669189		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr16:77387771C>A	uc002ffc.3	-	10	1892	c.1473G>T	c.(1471-1473)GCG>GCT	p.A491A	ADAMTS18_uc010chc.1_Silent_p.A79A|ADAMTS18_uc002ffe.1_Silent_p.A187A	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	491	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CTAGACACCCCGCCTGAGGTG	0.418													7	185					2.0095e-06	2.28263e-06	0.02938	1	0		A	77387771	A	A	77387771	2	1	168	1	0	0	0	0	0	0	0	1	263	639	23	5		5	ADAMTS18	16	77387771	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	9331254	77387771	12966982	68	89527											
TP53	7157	broad.mit.edu	37	chr17	7578526	7578526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggcaggtcttggccagttggCaaaacatcttgttgagggca	9	10	14	8	0	2	1	0	1	2	0	2	1	2	1	1	5	1	5	1	5	2	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:7578526C>T	uc002gim.2	-	5	598	c.404G>A	c.(403-405)TGC>TAC	p.C135Y	TP53_uc002gig.1_Missense_Mutation_p.C135Y|TP53_uc002gih.2_Missense_Mutation_p.C135Y|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C3Y|TP53_uc010cng.1_Missense_Mutation_p.C3Y|TP53_uc002gii.1_Missense_Mutation_p.C3Y|TP53_uc010cnh.1_Missense_Mutation_p.C135Y|TP53_uc010cni.1_Missense_Mutation_p.C135Y|TP53_uc002gij.2_Missense_Mutation_p.C135Y|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C42Y|TP53_uc002gio.2_Missense_Mutation_p.C3Y|TP53_uc010vug.1_Missense_Mutation_p.C96Y	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	135	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		C -> S (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation; decreased E6-mediated binding to E6-AP).|C -> T (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|C -> R (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C135Y(51)|p.C135F(34)|p.C135W(19)|p.C135S(10)|p.C135fs*35(9)|p.0?(7)|p.C135*(7)|p.C135G(6)|p.C135R(6)|p.C135C(5)|p.C135fs*14(2)|p.N131fs*27(2)|p.F134_T140>S(1)|p.K132_A138delKMFCQLA(1)|p.S127_Q136del10(1)|p.C135T(1)|p.V73fs*9(1)|p.C135fs*36(1)|p.C135fs*15(1)|p.Y126fs*11(1)|p.C135_A138delCQLA(1)|p.C42Y(1)|p.C3Y(1)|p.M133fs*13(1)|p.C135_T140delCQLAKT(1)|p.Q136fs*13(1)|p.C135_Q136insXXXXXX(1)|p.C135_Q136insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCCAGTTGGCAAAACATCTT	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			7	27					0	0	0.02938	0	0		T	7578526	T	T	7578526	3	4	168	1	0	0	0	0	1	0	0	0	16407	710	25	2	894	2	TP53	17	7578526	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		7578526	73616684	69	89528											
MYH1	4619	broad.mit.edu	37	chr17	10408543	10408543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctgcacatggcctgggttCgggtaatcagctgggccagc	6	9	14	12	1	2	0	1	0	1	0	3	0	2	0	2	4	3	4	2	4	1	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:10408543C>T	uc002gmo.2	-	21	2466	c.2372G>A	c.(2371-2373)CGA>CAA	p.R791Q	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	791	IQ.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						GGCCTGGGTTCGGGTAATCAG	0.458													8	42					0	0	0.047766	0	0		T	10408543	T	T	10408543	3	4	168	1	0	0	0	0	1	0	0	0	10047	884	31	1	3527	1	MYH1	17	10408543	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	2830017	10408543	70786667	70	89529											
ZSWIM7	125150	broad.mit.edu	37	chr17	15890590	15890590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agacttctacctggtaaacaCgccttccactgggtgatgag	10	10	10	11	1	1	3	0	2	1	1	2	3	2	3	3	2	2	1	3	2	3	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:15890590C>T	uc002gpe.2	-	3	289	c.191G>A	c.(190-192)CGT>CAT	p.R64H	ZSWIM7_uc002gpf.2_Missense_Mutation_p.R64H|ZSWIM7_uc002gpg.2_RNA	NM_001042698	NP_001036163	Q19AV6	ZSWM7_HUMAN	zinc finger, SWIM-type containing 7	64					DNA recombination|DNA repair	nucleus	zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0827)		CTGGTAAACACGCCTTCCACT	0.468													4	29					0	0	0.014758	0	0		T	15890590	T	T	15890590	3	4	168	1	0	0	0	0	1	0	0	0	18270	536	19	1	243	1	ZSWIM7	17	15890590	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	5482047	15890590	65304620	71	89530											
FAM83G	644815	broad.mit.edu	37	chr17	18882956	18882956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccgaccgcgtgaagaactCagttcccccgctgctccgca	7	7	10	17	5	1	2	1	1	0	1	3	3	3	2	5	0	3	4	5	0	2	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:18882956C>T	uc002guw.2	-	4	888	c.721G>A	c.(721-723)GAG>AAG	p.E241K	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	241										ovary(1)|central_nervous_system(1)	2						GTGAAGAACTCAGTTCCCCCG	0.582													12	85					0	0	0.016723	0	0		T	18882956	T	T	18882956	3	4	168	1	0	0	0	0	1	0	0	0	5653	835	29	4	1762	4	FAM83G	17	18882956	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	2992366	18882956	62312254	72	89531											
GOSR2	9570	broad.mit.edu	37	chr17	45009523	45009523	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgcaagggagcagcaggaGagacagcgagaagagcttct	14	4	15	8	1	1	3	0	0	1	3	1	7	1	5	0	2	5	4	0	2	2	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:45009523G>A	uc002ila.2	+	4	367	c.294G>A	c.(292-294)GAG>GAA	p.E98E	GOSR2_uc010wkh.1_Silent_p.E98E|GOSR2_uc002iky.2_Silent_p.E98E|GOSR2_uc002ikz.2_Silent_p.E98E	NM_004287	NP_004278	O14653	GOSR2_HUMAN	golgi SNAP receptor complex member 2 isoform A	98	Cytoplasmic (Potential).|Potential.				cellular membrane fusion|ER to Golgi vesicle-mediated transport|protein transport	Golgi membrane|integral to membrane	transporter activity			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(9;0.102)			AGCAGCAGGAGAGACAGCGAG	0.567													6	183					0	0	0.02938	0	0		A	45009523	A	A	45009523	2	1	168	1	0	0	0	0	0	0	0	1	6593	933	33	4		4	GOSR2	17	45009523	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	26126567	45009523	36185687	73	89532											
DLX3	1747	broad.mit.edu	37	chr17	48069062	48069062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcgggggcagctgactgCgggcaggggccggagtggag	5	3	24	9	4	0	1	0	1	0	0	0	3	0	3	1	8	2	3	1	8	0	0	rs138972403		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:48069062C>T	uc002ipy.2	-	3	909	c.683G>A	c.(682-684)CGC>CAC	p.R228H		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	228						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CAGCTGACTGCGGGCAGGGGC	0.637													6	27					0	0	0.038147	0	0		T	48069062	T	T	48069062	3	4	168	1	0	0	0	0	1	0	0	0	4578	768	27	1	184	1	DLX3	17	48069062	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	3059539	48069062	33126148	74	89533											
COX11	1353	broad.mit.edu	37	chr17	53042077	53042077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catatatttctgtttgctgaGgtctaaagttccactggaga	10	15	9	7	0	2	2	0	1	2	1	3	3	3	2	1	2	1	3	1	2	4	6			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:53042077G>A	uc010wng.1	-	2	560	c.503C>T	c.(502-504)CCT>CTT	p.P168L	COX11_uc010wne.1_RNA|COX11_uc010wnf.1_RNA|COX11_uc002iue.2_RNA|COX11_uc010wnh.1_Missense_Mutation_p.P168L	NM_004375	NP_004366	Q9Y6N1	COX11_HUMAN	COX11 homolog, cytochrome c oxidase assembly	168	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).				respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	copper ion binding|cytochrome-c oxidase activity|electron carrier activity			ovary(1)	1						TGTTTGCTGAGGTCTAAAGTT	0.343													4	86					0	0	0.009096	0	0		A	53042077	A	A	53042077	3	1	168	1	0	0	0	0	1	0	0	0	3766	1000	35	4	405	4	COX11	17	53042077	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	4973015	53042077	28153133	75	89534											
PRKCA	5578	broad.mit.edu	37	chr17	64770166	64770166	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctatggcgtcctgttgtAtgaaatgcttgccgggcagg	6	11	15	9	2	0	1	0	1	0	0	1	1	1	1	3	4	2	4	3	4	3	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:64770166A>G	uc002jfp.1	+	14	1630	c.1586A>G	c.(1585-1587)TAT>TGT	p.Y529C	PRKCA_uc002jfo.1_Missense_Mutation_p.Y400C	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	529	Protein kinase.				activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	GTCCTGTTGTATGAAATGCTT	0.428													3	117					0	0	0.004672	0	0		G	64770166	G	G	64770166	3	3	168	1	0	0	0	0	1	0	0	0	12529	449	16	3	1640	3	PRKCA	17	64770166	Missense_Mutation	SNP	A	TCGA-D7-6521-01A-11D-1800-08	11728089	64770166	16425044	76	89535											
RECQL5	9400	broad.mit.edu	37	chr17	73627718	73627718	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggcaggcagcgcatccccGaagtacttggcaatggcggc	9	5	14	13	3	0	0	0	0	0	0	1	1	1	0	2	5	2	5	2	5	3	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:73627718G>A	uc010dgl.2	-	9	1416	c.1260C>T	c.(1258-1260)TTC>TTT	p.F420F	RECQL5_uc010dgk.2_Silent_p.F393F|RECQL5_uc002jot.3_5'Flank|LOC643008_uc002jow.2_5'Flank	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	420					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	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)			GCGCATCCCCGAAGTACTTGG	0.697								Other_identified_genes_with_known_or_suspected_DNA_repair_function					6	32					0	0	0.02938	0	0		A	73627718	A	A	73627718	2	1	168	1	0	0	0	0	0	0	0	1	13228	1049	37	1		1	RECQL5	17	73627718	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	8857552	73627718	7567492	77	89536											
CCDC40	55036	broad.mit.edu	37	chr17	78013951	78013951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaaggcttccagcaagaggCcaccggtccaccagaatcca	12	4	9	16	1	0	2	0	0	0	2	3	2	3	2	7	3	1	2	7	3	3	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr17:78013951C>T	uc010dht.2	+	3	461	c.434C>T	c.(433-435)GCC>GTC	p.A145V	CCDC40_uc010wub.1_Missense_Mutation_p.A145V	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	145					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CAGCAAGAGGCCACCGGTCCA	0.597													6	34					0	0	0.021553	0	0		T	78013951	T	T	78013951	3	4	168	1	0	0	0	0	1	0	0	0	2815	739	26	2	444	2	CCDC40	17	78013951	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	4386233	78013951	3181259	78	89537											
SALL3	27164	broad.mit.edu	37	chr18	76752182	76752182	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	cgccgagttcttcaagtgggCggacttcctggagcaccagc	7	8	13	13	3	2	0	1	0	1	0	3	3	3	2	3	3	2	2	3	3	1	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr18:76752182C>A	uc002lmt.2	+	2	191	c.191C>A	c.(190-192)GCG>GAG	p.A64E	SALL3_uc010dra.2_5'Flank	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	64					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TTCAAGTGGGCGGACTTCCTG	0.711													9	10					1.61879e-10	1.91312e-10	0.09319	1	0		A	76752182	A	A	76752182	3	1	168	1	0	0	0	0	1	0	0	0	13837	768	27	5	197	5	SALL3	18	76752182	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		76752182	1325066	79	89538											
KCNN1	3780	broad.mit.edu	37	chr19	18092786	18092786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaatcttcacggacgcctCgagccgcagcatcggggccc	9	5	11	16	5	2	0	1	0	1	0	4	2	2	1	3	3	2	2	3	3	2	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr19:18092786C>T	uc002nht.2	+	5	1077	c.767C>T	c.(766-768)TCG>TTG	p.S256L	KCNN1_uc010xqa.1_Missense_Mutation_p.S256L	NM_002248	NP_002239	Q92952	KCNN1_HUMAN	potassium intermediate/small conductance	256					synaptic transmission	voltage-gated potassium channel complex	calmodulin binding|small conductance calcium-activated potassium channel activity				0						ACGGACGCCTCGAGCCGCAGC	0.612													4	15					0	0	0.014758	0	0		T	18092786	T	T	18092786	3	4	168	1	0	0	0	0	1	0	0	0	8094	893	31	1	777	1	KCNN1	19	18092786	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		18092786	41036197	80	89539											
ZNF675	171392	broad.mit.edu	37	chr19	23844925	23844925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctcacttacctgggggttCattcaccatctcatgtctct	6	16	6	13	0	5	0	4	0	3	0	8	0	5	0	2	2	1	1	2	2	1	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr19:23844925C>T	uc002nri.2	-	3	399	c.217G>A	c.(217-219)GAA>AAA	p.E73K		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	73	KRAB.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				CCTGGGGGTTCATTCACCATC	0.418													11	124					0	0	0.020292	0	0		T	23844925	T	T	23844925	3	4	168	1	0	0	0	0	1	0	0	0	18107	835	29	4	1497	4	ZNF675	19	23844925	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	5752139	23844925	35284058	81	89540											
APLP1	333	broad.mit.edu	37	chr19	36363501	36363501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctggaggagcgtaggatgCgccagattaatgaggtgata	12	8	15	6	2	0	3	0	2	0	1	0	6	0	6	2	4	2	1	2	4	3	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr19:36363501C>T	uc002oce.2	+	7	1105	c.967C>T	c.(967-969)CGC>TGC	p.R323C	APLP1_uc010xsz.1_Missense_Mutation_p.R284C|APLP1_uc002ocf.2_Missense_Mutation_p.R323C|APLP1_uc002ocg.2_Missense_Mutation_p.R226C|APLP1_uc010xta.1_Missense_Mutation_p.R317C	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	323	Heparin-binding (By similarity).|Extracellular (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	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)			GCGTAGGATGCGCCAGATTAA	0.537													10	90					0	0	0.069234	0	0		T	36363501	T	T	36363501	3	4	168	1	0	0	0	0	1	0	0	0	778	768	27	1	993	1	APLP1	19	36363501	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	12518576	36363501	22765482	82	89541											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3146981	3146981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacgacaggcttgaaggccGacggccgaactagtggttct	9	8	14	10	4	1	1	0	1	1	0	1	4	1	1	2	4	2	3	2	4	4	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr20:3146981G>A	uc002wia.1	-	2	1883	c.485C>T	c.(484-486)TCG>TTG	p.S162L	ProSAPiP1_uc002wib.1_Missense_Mutation_p.S162L	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	162						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						CTTGAAGGCCGACGGCCGAAC	0.627													6	28					0	0	0.021553	0	0		A	3146981	A	A	3146981	3	1	168	1	0	0	0	0	1	0	0	0	12895	1059	37	1	1544	1	ProSAPiP1	20	3146981	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08		3146981	59878539	83	89542											
JAG1	182	broad.mit.edu	37	chr20	10626625	10626625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtggcagactcactggtttCacagtaggccccctcccagc	8	8	10	15	0	2	1	2	0	0	1	3	1	3	1	3	3	1	3	3	3	1	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr20:10626625C>T	uc002wnw.2	-	15	2509	c.1993G>A	c.(1993-1995)GAA>AAA	p.E665K	JAG1_uc010gcd.1_Missense_Mutation_p.E223K	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	665	Extracellular (Potential).|EGF-like 11; calcium-binding (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						TCACTGGTTTCACAGTAGGCC	0.512									Alagille_Syndrome				11	110					0	0	0.080935	0	0		T	10626625	T	T	10626625	3	4	168	1	0	0	0	0	1	0	0	0	7950	835	29	4	1711	4	JAG1	20	10626625	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	7479644	10626625	52398895	84	89543											
C20orf26	26074	broad.mit.edu	37	chr20	20144800	20144800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagagcccgtccacttccGccccatctacaggggagcct	8	7	10	16	2	1	2	0	1	1	1	3	3	3	3	6	2	3	0	6	2	2	2			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr20:20144800G>A	uc002wru.2	+	11	1209	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	C20orf26_uc010gcw.1_Missense_Mutation_p.R332H|C20orf26_uc010zse.1_Missense_Mutation_p.R378H|C20orf26_uc010zsf.1_Missense_Mutation_p.R378H	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	378										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GTCCACTTCCGCCCCATCTAC	0.498													28	73					0	0	0.030593	0	0		A	20144800	A	A	20144800	3	1	168	1	0	0	0	0	1	0	0	0	2109	1087	38	1	1171	1	C20orf26	20	20144800	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	9518175	20144800	42880720	85	89544											
C20orf185	359710	broad.mit.edu	37	chr20	31644485	31644485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacggaggggtttttggcGttgtcgaggagctctctggg	4	11	18	8	3	1	0	0	0	1	0	3	3	1	2	1	6	1	3	1	6	0	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr20:31644485G>A	uc002wym.1	+	2	262	c.262G>A	c.(262-264)GTT>ATT	p.V88I		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	88	Leu-rich.				innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						GGTTTTTGGCGTTGTCGAGGA	0.577													16	49					0	0	0.028581	0	0		A	31644485	A	A	31644485	3	1	168	1	0	0	0	0	1	0	0	0	2100	1145	40	1	268	1	C20orf185	20	31644485	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	11499685	31644485	31381035	86	89545											
CYP24A1	1591	broad.mit.edu	37	chr20	52773733	52773733	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtattatcgctggcaaaaCgcgatggggagttcccggct	8	9	14	10	5	0	0	0	0	0	0	2	2	1	1	1	4	1	5	1	4	4	3	rs150155645		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr20:52773733C>T	uc002xwv.2	-	11	1928	c.1530G>A	c.(1528-1530)GCG>GCA	p.A510A	CYP24A1_uc002xwu.1_Silent_p.A368A|CYP24A1_uc002xww.2_Silent_p.A444A	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	510					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	GCTGGCAAAACGCGATGGGGA	0.428													4	36					0	0	0.014758	0	0		T	52773733	T	T	52773733	2	4	168	1	0	0	0	0	0	0	0	1	4157	523	19	1		1	CYP24A1	20	52773733	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	21129248	52773733	10251787	87	89546											
OLIG2	10215	broad.mit.edu	37	chr21	34399178	34399178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcccctggggccatggactCggacgccagcctggtgtcca	5	8	13	15	2	0	0	0	0	0	0	3	2	2	2	6	5	1	0	6	5	0	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr21:34399178C>T	uc002yqx.1	+	2	166	c.8C>T	c.(7-9)TCG>TTG	p.S3L		NM_005806	NP_005797	Q13516	OLIG2_HUMAN	oligodendrocyte lineage transcription factor 2	3						cytoplasm|nucleus|plasma membrane	DNA binding			central_nervous_system(2)	2						GCCATGGACTCGGACGCCAGC	0.582			T	TRA@	T-ALL								3	38					0	0	0.004672	0	0		T	34399178	T	T	34399178	3	4	168	1	0	0	0	0	1	0	0	0	10880	893	31	1	10	1	OLIG2	21	34399178	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		34399178	13730717	88	89547											
DIP2A	23181	broad.mit.edu	37	chr21	47918652	47918652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctccacctcatctcacccGggagggagacccaccactgc	8	6	8	19	1	2	1	2	0	1	1	5	3	4	2	6	2	1	0	6	2	0	0			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr21:47918652G>A	uc002zjo.2	+	5	744	c.561G>A	c.(559-561)CCG>CCA	p.P187P	DIP2A_uc011afy.1_Silent_p.P123P|DIP2A_uc011afz.1_Silent_p.P187P|DIP2A_uc002zjl.2_Silent_p.P187P|DIP2A_uc002zjm.2_Silent_p.P187P|DIP2A_uc010gql.2_Silent_p.P187P|DIP2A_uc002zjn.2_Silent_p.P187P	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	187					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		CATCTCACCCGGGAGGGAGAC	0.672													7	86					0	0	0.02938	0	0		A	47918652	A	A	47918652	2	1	168	1	0	0	0	0	0	0	0	1	4533	1103	39	1		1	DIP2A	21	47918652	Silent	SNP	G	TCGA-D7-6521-01A-11D-1800-08	13519474	47918652	211243	89	89548											
SNAP29	9342	broad.mit.edu	37	chr22	21224688	21224688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggtggacaagatggaccaaGatttgaagatcagccagaaa	16	7	12	6	0	1	5	1	1	0	4	1	7	1	7	2	3	1	0	2	3	4	1			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr22:21224688G>A	uc011ahw.1	+	2	408	c.301G>A	c.(301-303)GAT>AAT	p.D101N		NM_004782	NP_004773	O95721	SNP29_HUMAN	synaptosomal-associated protein 29	101	Potential.				cellular membrane fusion|exocytosis|protein transport|vesicle targeting	cell junction|cytoplasm|nucleus|synapse|synaptosome	SNAP receptor activity				0	all_cancers(11;2.77e-25)|all_epithelial(7;8.92e-24)|Lung NSC(8;1.49e-15)|all_lung(8;2.54e-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;0.000592)|Lung(15;0.0117)			GATGGACCAAGATTTGAAGAT	0.507													6	74					0	0	0.038147	0	0		A	21224688	A	A	21224688	3	1	168	1	0	0	0	0	1	0	0	0	14856	942	33	4	307	4	SNAP29	22	21224688	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08		21224688	30079878	90	89549											
CBX6	23466	broad.mit.edu	37	chr22	39262882	39262882	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgccccggccccctgccCggcgcccccgccgccagcgc	2	1	12	26	7	0	0	0	0	0	0	0	0	0	0	9	2	3	0	9	2	0	0			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chr22:39262882C>T	uc003awl.2	-	5	634	c.571G>A	c.(571-573)GGG>AGG	p.G191R		NM_014292	NP_055107	O95503	CBX6_HUMAN	chromobox homolog 6	191					chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex					0	Melanoma(58;0.04)					gccccctgcccggcgcccccg	0.453													11	26					0	0	0.080935	0	0		T	39262882	T	T	39262882	3	4	168	1	0	0	0	0	1	0	0	0	2725	652	23	1	671	1	CBX6	22	39262882	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	18038194	39262882	12041684	91	89550											
PHEX	5251	broad.mit.edu	37	chrX	22263519	22263519	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttggtgctcacagtccccctCagtttaggtaaatgggcaaa	10	11	10	10	0	2	0	2	0	0	0	3	0	3	0	2	3	1	4	2	3	4	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chrX:22263519C>T	uc004dah.2	+	21	2343	c.2140C>T	c.(2140-2142)CAG>TAG	p.Q714*	PHEX_uc011mjr.1_Intron|PHEX_uc011mjs.1_Nonsense_Mutation_p.Q617*	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	714					biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						CAGTCCCCCTCAGTTTAGGTA	0.512													6	75					0	0	0.021553	0	0		T	22263519	T	T	22263519	4	4	168	1	0	0	0	0	0	1	0	0	11838	827	29	4	2222	4	PHEX	23	22263519	Nonsense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08		22263519	133007041	92	89551											
DMD	1756	broad.mit.edu	37	chrX	31792190	31792190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaagttctgtccaagcccGgttgaaatctgccagagcag	10	9	12	10	1	2	2	0	1	2	1	3	2	3	2	3	2	3	4	3	2	3	3			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chrX:31792190G>A	uc004dda.1	-	51	7673	c.7429C>T	c.(7429-7431)CGG>TGG	p.R2477W	DMD_uc004dcr.1_Missense_Mutation_p.R17W|DMD_uc004dcs.1_Missense_Mutation_p.R17W|DMD_uc004dct.1_Missense_Mutation_p.R17W|DMD_uc004dcu.1_Missense_Mutation_p.R17W|DMD_uc004dcv.1_Missense_Mutation_p.R17W|DMD_uc004dcw.2_Missense_Mutation_p.R1133W|DMD_uc004dcx.2_Missense_Mutation_p.R1136W|DMD_uc004dcz.2_Missense_Mutation_p.R2354W|DMD_uc004dcy.1_Missense_Mutation_p.R2473W|DMD_uc004ddb.1_Missense_Mutation_p.R2469W|DMD_uc004ddd.1_Missense_Mutation_p.R17W	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2477	Spectrin 17.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GTCCAAGCCCGGTTGAAATCT	0.463													40	25					0	0	0.09836	0	0		A	31792190	A	A	31792190	3	1	168	1	0	0	0	0	1	0	0	0	4586	1115	39	1	3892	1	DMD	23	31792190	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	9528671	31792190	123478370	93	89552											
MAGEE2	139599	broad.mit.edu	37	chrX	75004703	75004703	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtcattcgggtcctgaaCggcctgggaagtgttgacac	8	9	14	10	2	1	2	1	2	0	0	3	3	2	3	2	4	1	1	2	4	2	2	rs142989384		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chrX:75004703C>A	uc004ecj.1	-	1	369	c.184G>T	c.(184-186)GTT>TTT	p.V62F		NM_138703	NP_619648	Q8TD90	MAGE2_HUMAN	melanoma antigen family E, 2	62										ovary(1)|skin(1)	2						GGGTCCTGAACGGCCTGGGAA	0.592													8	21					0.000442599	0.000483964	0.058154	1	0		A	75004703	A	A	75004703	3	1	168	1	0	0	0	0	1	0	0	0	9204	536	19	5	1391	5	MAGEE2	23	75004703	Missense_Mutation	SNP	C	TCGA-D7-6521-01A-11D-1800-08	43212513	75004703	80265857	94	89553											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685294	125685294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggccagttgtagcagtggGtgtagagcgcattgggaaac	10	8	16	7	1	0	1	0	0	0	1	0	2	0	2	1	3	3	5	1	3	3	4			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chrX:125685294G>A	uc004eul.2	-	1	1549	c.1298C>T	c.(1297-1299)ACC>ATC	p.T433I		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	433										skin(3)|ovary(1)	4						GTAGCAGTGGGTGTAGAGCGC	0.552													4	117					0	0	0.014758	0	0		A	125685294	A	A	125685294	3	1	168	1	0	0	0	0	1	0	0	0	4267	1261	44	4	97	4	DCAF12L1	23	125685294	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	50680591	125685294	29585266	95	89554											
UBE2NL	389898	broad.mit.edu	37	chrX	142967424	142967424	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaaagtacgtttcatgacCaaaatttatcatccaaatgt	15	13	4	9	1	2	1	2	1	0	0	3	1	3	1	3	0	1	2	3	0	7	5			TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chrX:142967424C>A	uc004fca.2	+	1	252	c.222C>A	c.(220-222)ACC>ACA	p.T74T		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	74							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					GTTTCATGACCAAAATTTATC	0.413													3	66					0.004672	0.00496931	0.004672	1	0		A	142967424	A	A	142967424	2	1	168	1	0	0	0	0	0	0	0	1	16893	581	21	5		5	UBE2NL	23	142967424	Silent	SNP	C	TCGA-D7-6521-01A-11D-1800-08	17282130	142967424	12303136	96	89555											
F8	2157	broad.mit.edu	37	chrX	154197692	154197692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtaaggaaagttattggcGagatttccaaggacgcctgg	12	9	13	7	2	0	1	0	0	0	1	1	4	1	3	2	4	0	2	2	4	4	4	rs137852404		TCGA-D7-6521-01A-11D-1800-08	TCGA-D7-6521-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	af27d5e0-d709-4e53-949d-cd7cd7bfb970	9f181c29-67a5-43b4-afc3-eaf51936888d	g.chrX:154197692G>A	uc004fmt.2	-	7	1094	c.923C>T	c.(922-924)TCG>TTG	p.S308L		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	308	Plastocyanin-like 2.|F5/8 type A 1.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	AGTTATTGGCGAGATTTCCAA	0.448													19	51					0	0	0.055883	0	0		A	154197692	A	A	154197692	3	1	168	1	0	0	0	0	1	0	0	0	5358	1059	37	1	6240	1	F8	23	154197692	Missense_Mutation	SNP	G	TCGA-D7-6521-01A-11D-1800-08	11230268	154197692	1072868	97	89556											
LPHN2	23266	broad.mit.edu	37	chr1	82456569	82456569	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagagactctctttatacaAgcatgcccaatcttagagac	14	10	6	11	0	2	2	0	0	2	2	3	4	2	2	1	0	3	1	1	0	5	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:82456569A>C	uc001dit.3	+	21	4133	c.3952A>C	c.(3952-3954)AGC>CGC	p.S1318R	LPHN2_uc001dis.2_Missense_Mutation_p.S298R|LPHN2_uc001diu.2_Missense_Mutation_p.S1318R|LPHN2_uc001div.2_3'UTR|LPHN2_uc009wcd.2_3'UTR|LPHN2_uc001diw.2_Missense_Mutation_p.S945R	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1374	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		TCTTTATACAAGCATGCCCAA	0.493													4	112					0	0	0.001984	0	0		C	82456569	C	C	82456569	3	2	169	1	0	0	0	0	1	0	0	0	8934	72	3	5	4026	5	LPHN2	1	82456569	Missense_Mutation	SNP	A	TCGA-D7-6522-01A-11D-1800-08		82456569	166794052	1	89557											
C1orf51	148523	broad.mit.edu	37	chr1	150256881	150256881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaatggacaggatccagcGtattgtaggtgttttgcaga	10	11	14	6	1	0	1	0	0	0	1	1	3	1	3	1	4	2	5	1	4	3	5			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:150256881G>A	uc001euh.2	+	4	624	c.488G>A	c.(487-489)CGT>CAT	p.R163H	C1orf51_uc001eui.2_Missense_Mutation_p.R75H|C1orf51_uc001euj.2_Missense_Mutation_p.R163H	NM_144697	NP_653298	Q8N365	CA051_HUMAN	hypothetical protein LOC148523	163											0	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)			AGGATCCAGCGTATTGTAGGT	0.468													16	164					0	0	0.028581	0	0		A	150256881	A	A	150256881	3	1	169	1	0	0	0	0	1	0	0	0	2046	1145	40	1	498	1	C1orf51	1	150256881	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	67800312	150256881	98993740	2	89558											
SPTA1	6708	broad.mit.edu	37	chr1	158617375	158617375	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttctgggcctcatttaggcTctccttacgatcctttgtac	5	17	7	12	1	3	0	1	0	2	0	5	1	4	0	3	2	2	2	3	2	3	6			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:158617375T>C	uc001fst.1	-	27	4049	c.3850A>G	c.(3850-3852)AGC>GGC	p.S1284G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1284	Spectrin 12.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCATTTAGGCTCTCCTTACGA	0.542													4	122					0	0	0.014758	0	0		C	158617375	C	C	158617375	3	2	169	1	0	0	0	0	1	0	0	0	15141	1551	54	3	3513	3	SPTA1	1	158617375	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	8360494	158617375	90633246	3	89559											
TNR	7143	broad.mit.edu	37	chr1	175355352	175355352	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatttcaaaagaatgaaatcGactttggctcgagggggaat	14	11	11	5	2	1	2	1	1	0	1	3	5	1	3	0	3	0	1	0	3	6	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:175355352G>T	uc001gkp.1	-	6	1674	c.1593C>A	c.(1591-1593)GTC>GTA	p.V531V	TNR_uc009wwu.1_Silent_p.V531V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	531	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					GAATGAAATCGACTTTGGCTC	0.577													3	34					0.004672	0.00503487	0.004672	1	0		T	175355352	T	T	175355352	2	4	169	1	0	0	0	0	0	0	0	1	16363	1045	37	5		5	TNR	1	175355352	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	16737977	175355352	73895269	4	89560											
FAM89A	375061	broad.mit.edu	37	chr1	231155737	231155737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaatattcctcctcttcatCgaagaagccgttctccagag	11	11	7	12	2	3	2	1	0	2	2	7	4	5	2	4	0	1	1	4	0	4	4	rs61740910	byFrequency	TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:231155737C>T	uc001hui.2	-	2	465	c.427G>A	c.(427-429)GAT>AAT	p.D143N	FAM89A_uc009xfm.2_Missense_Mutation_p.D154N|MIR1182_hsa-mir-1182|MI0006275_5'Flank	NM_198552	NP_940954	Q96GI7	FA89A_HUMAN	family with sequence similarity 89, member A	143											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				TCCTCTTCATCGAAGAAGCCG	0.587													6	120					0	0	0.021553	0	0		T	231155737	T	T	231155737	3	4	169	1	0	0	0	0	1	0	0	0	5661	884	31	1	131	1	FAM89A	1	231155737	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	55800385	231155737	18094884	5	89561											
B3GALNT2	148789	broad.mit.edu	37	chr1	235629002	235629002	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actccctccacaccttccaaGaattcatgaggcaatgcacc	12	8	5	16	0	1	2	1	1	0	1	4	2	4	2	5	1	1	2	5	1	3	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:235629002G>A	uc001hxc.2	-	7	1021	c.792C>T	c.(790-792)TTC>TTT	p.F264F	B3GALNT2_uc001hxd.1_Silent_p.F305F	NM_152490	NP_689703	Q8NCR0	B3GL2_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 2	264	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			breast(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.0539)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000117)			CACCTTCCAAGAATTCATGAG	0.363													5	143					0	0	0.014758	0	0		A	235629002	A	A	235629002	2	1	169	1	0	0	0	0	0	0	0	1	1247	933	33	4		4	B3GALNT2	1	235629002	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	4473265	235629002	13621619	6	89562											
OR6F1	343169	broad.mit.edu	37	chr1	247875986	247875986	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaagcataaagagagagagCtgaagagtttgagaaccagg	19	5	13	4	0	0	5	0	2	0	4	0	8	0	5	1	1	3	3	1	1	6	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:247875986C>A	uc001idj.1	-	1	72	c.72G>T	c.(70-72)CAG>CAT	p.Q24H		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AGAGAGAGAGCTGAAGAGTTT	0.463													7	176					0.000157383	0.000174695	0.00308	1	0		A	247875986	A	A	247875986	3	1	169	1	0	0	0	0	1	0	0	0	11220	796	28	5	858	5	OR6F1	1	247875986	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	12246984	247875986	1374635	7	89563											
OR2M4	26245	broad.mit.edu	37	chr1	248402739	248402739	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtcattttcttactgcaGctctctggaaattcatcact	8	16	5	12	0	5	0	3	0	2	0	6	1	5	1	1	1	3	2	1	1	2	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr1:248402739G>T	uc010pzh.1	+	1	509	c.509G>T	c.(508-510)AGC>ATC	p.S170I		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TCTTACTGCAGCTCTCTGGAA	0.433													6	171					2.0095e-06	2.34794e-06	0.001984	1	0		T	248402739	T	T	248402739	3	4	169	1	0	0	0	0	1	0	0	0	11031	971	34	5	511	5	OR2M4	1	248402739	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	526753	248402739	847882	8	89564											
RASGRP3	25780	broad.mit.edu	37	chr2	33748980	33748980	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aagctatgtcatccatggctGcctggagaataatccaacct	12	10	8	11	0	1	1	1	0	0	1	3	2	3	1	4	2	3	2	4	2	5	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr2:33748980G>T	uc002rox.2	+	9	1178	c.551G>T	c.(550-552)TGC>TTC	p.C184F	RASGRP3_uc010ync.1_Missense_Mutation_p.C184F|RASGRP3_uc002roy.2_Missense_Mutation_p.C184F	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	184	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					ATCCATGGCTGCCTGGAGAAT	0.383													8	167					3.09899e-07	3.73899e-07	0.004482	1	0		T	33748980	T	T	33748980	3	4	169	1	0	0	0	0	1	0	0	0	13101	1319	46	5	573	5	RASGRP3	2	33748980	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		33748980	209450393	9	89565											
DYSF	8291	broad.mit.edu	37	chr2	71744167	71744167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctctcctcggggagttcCgggtaattgcttattttcta	6	16	10	9	2	2	0	0	0	2	0	5	1	3	1	2	3	2	4	2	3	3	7			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr2:71744167C>T	uc002sie.2	+	9	1280	c.904C>T	c.(904-906)CGG>TGG	p.R302W	DYSF_uc010feg.2_Missense_Mutation_p.R333W|DYSF_uc010feh.2_Missense_Mutation_p.R302W|DYSF_uc002sig.3_Missense_Mutation_p.R302W|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.R302W|DYSF_uc010fef.2_Missense_Mutation_p.R333W|DYSF_uc010fei.2_Missense_Mutation_p.R333W|DYSF_uc010fek.2_Missense_Mutation_p.R334W|DYSF_uc010fej.2_Missense_Mutation_p.R303W|DYSF_uc010fel.2_Missense_Mutation_p.R303W|DYSF_uc010feo.2_Missense_Mutation_p.R334W|DYSF_uc010fem.2_Missense_Mutation_p.R303W|DYSF_uc010fen.2_Missense_Mutation_p.R334W|DYSF_uc002sif.2_Missense_Mutation_p.R303W	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	302	Cytoplasmic (Potential).|C2 2.					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CGGGGAGTTCCGGGTAATTGC	0.512													5	82					0	0	0.021553	0	0		T	71744167	T	T	71744167	3	4	169	1	0	0	0	0	1	0	0	0	4865	643	23	1	1130	1	DYSF	2	71744167	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	37995187	71744167	171455206	10	89566											
HK2	3099	broad.mit.edu	37	chr2	75115135	75115135	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgaggccgcatctcagagcgGctcaagacaaggggcatctt	10	6	13	12	3	3	2	2	0	2	2	4	3	3	2	1	4	1	3	1	4	2	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr2:75115135G>A	uc002snd.2	+	16	4251	c.2325G>A	c.(2323-2325)CGG>CGA	p.R775R		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	775	Catalytic.		R -> Q.		apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						TCTCAGAGCGGCTCAAGACAA	0.498													4	152					0	0	0.014758	0	0		A	75115135	A	A	75115135	2	1	169	1	0	0	0	0	0	0	0	1	7207	1190	42	2		2	HK2	2	75115135	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	3370968	75115135	168084238	11	89567											
CTNNA2	1496	broad.mit.edu	37	chr2	80101439	80101439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggccacacgggcatcggcGagctggctgcggctcttaat	7	7	15	12	4	1	0	0	0	1	0	2	1	1	0	1	5	2	4	1	5	1	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr2:80101439G>A	uc010ysh.1	+	5	828	c.823G>A	c.(823-825)GAG>AAG	p.E275K	CTNNA2_uc010yse.1_Missense_Mutation_p.E275K|CTNNA2_uc010ysf.1_Missense_Mutation_p.E275K|CTNNA2_uc010ysg.1_Missense_Mutation_p.E275K	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	275					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GGGCATCGGCGAGCTGGCTGC	0.527													4	60					0	0	0.014758	0	0		A	80101439	A	A	80101439	3	1	169	1	0	0	0	0	1	0	0	0	4016	1059	37	1	841	1	CTNNA2	2	80101439	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	4986304	80101439	163097934	12	89568											
BTD	686	broad.mit.edu	37	chr3	15686531	15686531	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccaagtggaacgtgaatGctcctcccacatttcactct	10	10	6	15	1	2	1	1	1	1	0	4	2	4	2	4	1	2	1	4	1	3	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr3:15686531G>T	uc003cah.2	+	4	1271	c.1168G>T	c.(1168-1170)GCT>TCT	p.A390S	BTD_uc011avv.1_Missense_Mutation_p.A392S|BTD_uc011avw.1_Missense_Mutation_p.A392S|BTD_uc011avx.1_Missense_Mutation_p.A370S	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	390					central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						GAACGTGAATGCTCCTCCCAC	0.478													11	186					4.68919e-08	5.71978e-08	0.008291	1	0		T	15686531	T	T	15686531	3	4	169	1	0	0	0	0	1	0	0	0	1553	1319	46	5	1182	5	BTD	3	15686531	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		15686531	182335899	13	89569											
TGFBR2	7048	broad.mit.edu	37	chr3	30715619	30715619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggaactgcaagatacatggCtccagaagtcctagaatcca	14	7	10	10	0	0	3	0	0	0	3	3	4	3	4	3	2	3	2	3	2	6	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr3:30715619C>T	uc003ceo.2	+	5	1659	c.1277C>T	c.(1276-1278)GCT>GTT	p.A426V	TGFBR2_uc003cen.2_Missense_Mutation_p.A451V	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	426	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						AGATACATGGCTCCAGAAGTC	0.448													4	102					0	0	0.014758	0	0		T	30715619	T	T	30715619	3	4	169	1	0	0	0	0	1	0	0	0	15847	797	28	2	1374	2	TGFBR2	3	30715619	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	15029088	30715619	167306811	14	89570											
TGFBR2	7048	broad.mit.edu	37	chr3	30715667	30715667	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttggagaatgttgagtcctTcaagcagaccgatgtctact	10	13	10	8	1	2	3	1	1	1	2	3	5	3	3	2	1	2	2	2	1	3	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr3:30715667T>C	uc003ceo.2	+	5	1707	c.1325T>C	c.(1324-1326)TTC>TCC	p.F442S	TGFBR2_uc003cen.2_Missense_Mutation_p.F467S	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	442	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						GTTGAGTCCTTCAAGCAGACC	0.488													7	95					0	0	0.00308	0	0		C	30715667	C	C	30715667	3	2	169	1	0	0	0	0	1	0	0	0	15847	1783	62	3	1422	3	TGFBR2	3	30715667	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	48	30715667	167306763	15	89571											
RHOA	387	broad.mit.edu	37	chr3	49412898	49412898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacctcgatatctgccacaTagttctcaaacactgtgggc	10	10	7	14	1	2	0	1	0	2	0	4	1	2	0	3	1	2	1	3	1	3	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr3:49412898T>C	uc003cwu.2	-	2	401	c.125A>G	c.(124-126)TAT>TGT	p.Y42C	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	42	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	ATCTGCCACATAGTTCTCAAA	0.433													10	201					0	0	0.008291	0	0		C	49412898	C	C	49412898	3	2	169	1	0	0	0	0	1	0	0	0	13356	1406	49	3	472	3	RHOA	3	49412898	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	18697231	49412898	148609532	16	89572											
CACNA1D	776	broad.mit.edu	37	chr3	53785816	53785816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaagcacgtcccttgcGgagatacatccccaaaaacc	13	7	7	14	2	0	2	0	1	0	1	2	3	2	2	4	1	4	1	4	1	4	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr3:53785816G>A	uc003dgv.3	+	28	3720	c.3557G>A	c.(3556-3558)CGG>CAG	p.R1186Q	CACNA1D_uc003dgu.3_Missense_Mutation_p.R1206Q|CACNA1D_uc003dgy.3_Missense_Mutation_p.R1186Q|CACNA1D_uc003dgw.3_Missense_Mutation_p.R853Q|CACNA1D_uc003dgx.1_Missense_Mutation_p.R334Q	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1186	Cytoplasmic (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	CGTCCCTTGCGGAGATACATC	0.507													6	223					0	0	0.021553	0	0		A	53785816	A	A	53785816	3	1	169	1	0	0	0	0	1	0	0	0	2544	1116	39	1	3839	1	CACNA1D	3	53785816	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	4372918	53785816	144236614	17	89573											
TMEM108	66000	broad.mit.edu	37	chr3	133098617	133098617	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttcctgctgatcttggcacTgaccgaagcgctggcatttg	6	13	11	11	2	1	2	0	2	1	0	2	3	2	2	2	2	2	4	2	2	1	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr3:133098617T>C	uc003eph.2	+	4	336	c.62T>C	c.(61-63)CTG>CCG	p.L21P	TMEM108_uc003epi.2_Missense_Mutation_p.L21P|TMEM108_uc003epj.1_Missense_Mutation_p.L21P|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_5'UTR	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	21						integral to membrane				ovary(2)|skin(2)	4						ATCTTGGCACTGACCGAAGCG	0.552													19	416					0	0	0.008871	0	0		C	133098617	C	C	133098617	3	2	169	1	0	0	0	0	1	0	0	0	16049	1580	55	3	68	3	TMEM108	3	133098617	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	79312801	133098617	64923813	18	89574											
KIAA1211	57482	broad.mit.edu	37	chr4	57181091	57181091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggggatttccagggggccGatcgtcctgggcccgaggaa	6	6	18	11	4	0	0	0	0	0	0	3	4	2	2	4	6	0	0	4	6	1	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr4:57181091G>A	uc003hbk.2	+	8	1814	c.1423G>A	c.(1423-1425)GAT>AAT	p.D475N	KIAA1211_uc010iha.2_Missense_Mutation_p.D468N|KIAA1211_uc011bzz.1_Missense_Mutation_p.D385N|KIAA1211_uc003hbm.1_Missense_Mutation_p.D361N	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	475	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CCAGGGGGCCGATCGTCCTGG	0.632													3	30					0	0	0.004672	0	0		A	57181091	A	A	57181091	3	1	169	1	0	0	0	0	1	0	0	0	8231	1058	37	1	1441	1	KIAA1211	4	57181091	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		57181091	133973185	19	89575											
SEC24D	9871	broad.mit.edu	37	chr4	119736228	119736228	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcttcttctggggctgtggCggaccagccatctgtgcagg	5	10	15	11	1	3	0	0	0	3	0	3	1	3	1	2	5	3	3	2	5	0	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr4:119736228C>T	uc003ici.3	-	6	1028	c.756G>A	c.(754-756)CCG>CCA	p.P252P	SEC24D_uc003icj.3_Silent_p.P253P|SEC24D_uc003icl.2_RNA|SEC24D_uc010imz.1_RNA|SEC24D_uc011cgg.1_RNA	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	252	Pro-rich.				COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						GGGGCTGTGGCGGACCAGCCA	0.517													4	130					0	0	0.014758	0	0		T	119736228	T	T	119736228	2	4	169	1	0	0	0	0	0	0	0	1	14022	755	27	1		1	SEC24D	4	119736228	Silent	SNP	C	TCGA-D7-6522-01A-11D-1800-08	62555137	119736228	71418048	20	89576											
FGA	2243	broad.mit.edu	37	chr4	155506853	155506853	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattgtttgctgtaacttgaAgatttaccacgggaagggaa	13	12	11	5	1	0	2	0	1	0	1	0	4	0	4	1	2	3	3	1	2	6	6			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr4:155506853A>C	uc003iod.1	-	5	1786	c.1728T>G	c.(1726-1728)TCT>TCG	p.S576S	FGA_uc003ioe.1_Silent_p.S576S|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	576	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	TGTAACTTGAAGATTTACCAC	0.443													6	96					0	0	0.021553	0	0		C	155506853	C	C	155506853	2	2	169	1	0	0	0	0	0	0	0	1	5844	59	3	5		5	FGA	4	155506853	Silent	SNP	A	TCGA-D7-6522-01A-11D-1800-08	35770625	155506853	35647423	21	89577											
ADAMTS16	170690	broad.mit.edu	37	chr5	5242289	5242289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgcgctctgagtgctccGtgtcctgcggagggggtagg	3	10	18	10	4	1	1	0	1	1	0	4	2	3	2	2	4	3	3	2	4	1	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr5:5242289G>A	uc003jdl.2	+	17	2785	c.2647G>A	c.(2647-2649)GTG>ATG	p.V883M	ADAMTS16_uc003jdk.1_Missense_Mutation_p.V883M	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	883	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						TGAGTGCTCCGTGTCCTGCGG	0.617													5	67					0	0	0.014758	0	0		A	5242289	A	A	5242289	3	1	169	1	0	0	0	0	1	0	0	0	261	1145	40	1	2713	1	ADAMTS16	5	5242289	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		5242289	175672971	22	89578											
PCDHB2	56133	broad.mit.edu	37	chr5	140474440	140474440	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctgatattctttgttttGctgggcatagctcaggctag	6	16	11	8	0	2	1	1	1	1	0	3	1	3	1	1	2	2	5	1	2	3	7			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr5:140474440G>T	uc003lil.2	+	1	204	c.66G>T	c.(64-66)TTG>TTT	p.L22F	PCDHB2_uc003lim.1_Intron	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	22					calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCTTTGTTTTGCTGGGCATAG	0.537													6	88					0.00116845	0.00127154	0.021553	1	0		T	140474440	T	T	140474440	3	4	169	1	0	0	0	0	1	0	0	0	11561	1310	46	5	68	5	PCDHB2	5	140474440	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	135232151	140474440	40440820	23	89579											
C6orf201	404220	broad.mit.edu	37	chr6	4087935	4087935	+	Silent	SNP	C	T	T	0	0	0	1	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	atggagacgctttattcccgCaagagtgaagaggacaagaa	15	7	12	7	2	0	5	0	1	0	4	1	7	1	6	1	2	0	2	1	2	5	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr6:4087935C>T	uc003mwa.3	+	2	828	c.60C>T	c.(58-60)CGC>CGT	p.R20R	C6orf146_uc010jnq.1_5'Flank|C6orf146_uc003mvy.2_5'Flank|C6orf201_uc003mvz.3_Intron|C6orf201_uc011dhw.1_Silent_p.R20R|C6orf201_uc003mwb.3_RNA	NM_001085401	NP_001078870	Q7Z4U5	CF201_HUMAN	hypothetical protein LOC404220	20											0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				TTTATTCCCGCAAGAGTGAAG	0.473													12	303					0	0	0.013537	0	0		T	4087935	T	T	4087935	2	4	169	1	0	0	0	0	0	0	0	1	2354	697	25	2		2	C6orf201	6	4087935	Silent	SNP	C	TCGA-D7-6522-01A-11D-1800-08		4087935	167027132	24	89580											
FRS3	10817	broad.mit.edu	37	chr6	41744669	41744669	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctgggtaccttgaacttGgtggggtggttgtctggaac	5	13	16	7	0	2	1	0	1	2	0	2	2	2	2	1	6	3	3	1	6	3	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr6:41744669G>T	uc003orc.1	-	3	301	c.57C>A	c.(55-57)ACC>ACA	p.T19T		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	19	IRS-type PTB.				fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CCTTGAACTTGGTGGGGTGGT	0.542													4	122					0.00909568	0.00961543	0.009096	1	0		T	41744669	T	T	41744669	2	4	169	1	0	0	0	0	0	0	0	1	6076	1335	47	5		5	FRS3	6	41744669	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	37656734	41744669	129370398	25	89581											
SYNE1	23345	broad.mit.edu	37	chr6	152563476	152563476	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttctagcaggtcagccaGatcttgtagggccctctcat	8	12	10	11	0	4	1	2	0	3	1	5	1	4	1	2	2	2	3	2	2	2	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr6:152563476G>T	uc010kiw.2	-	107	20394	c.19792C>A	c.(19792-19794)CTG>ATG	p.L6598M	SYNE1_uc010kiv.2_Missense_Mutation_p.L1122M|SYNE1_uc003qos.3_Missense_Mutation_p.L1122M|SYNE1_uc003qot.3_Missense_Mutation_p.L6527M|SYNE1_uc003qou.3_Missense_Mutation_p.L6598M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6598	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGGTCAGCCAGATCTTGTAGG	0.468										HNSCC(10;0.0054)			7	109					5.4927e-09	6.77433e-09	0.004482	1	0		T	152563476	T	T	152563476	3	4	169	1	0	0	0	0	1	0	0	0	15470	933	33	5	6834	5	SYNE1	6	152563476	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	110818807	152563476	18551591	26	89582											
OSBPL3	26031	broad.mit.edu	37	chr7	24874246	24874246	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggacaggtccttcccgatGttgttcctcaggatgttcca	6	14	10	11	1	1	0	1	0	0	0	5	3	5	2	4	3	0	3	4	3	0	5			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr7:24874246G>A	uc003sxf.2	-	15	2010	c.1605C>T	c.(1603-1605)AAC>AAT	p.N535N	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.N499N|OSBPL3_uc003sxh.2_Silent_p.N504N|OSBPL3_uc003sxi.2_Silent_p.N468N|OSBPL3_uc003sxj.1_Silent_p.N264N|OSBPL3_uc003sxk.1_Silent_p.N233N	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	535					lipid transport		lipid binding|protein binding			skin(1)	1						CCTTCCCGATGTTGTTCCTCA	0.617													5	106					0	0	0.014758	0	0		A	24874246	A	A	24874246	2	1	169	1	0	0	0	0	0	0	0	1	11298	1368	48	4		4	OSBPL3	7	24874246	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08		24874246	134264417	27	89583											
GLI3	2737	broad.mit.edu	37	chr7	42011956	42011956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cattggcttctctgccttgaCggttttcacctggaggcatt	5	15	10	11	1	2	1	1	1	1	0	3	2	2	2	2	4	1	3	2	4	0	6			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr7:42011956C>T	uc011kbh.1	-	13	2174	c.2083G>A	c.(2083-2085)GTC>ATC	p.V695I	GLI3_uc011kbg.1_Missense_Mutation_p.V636I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	695					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TCTGCCTTGACGGTTTTCACC	0.552									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				15	204					0	0	0.024245	0	0		T	42011956	T	T	42011956	3	4	169	1	0	0	0	0	1	0	0	0	6454	536	19	1	2671	1	GLI3	7	42011956	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	17137710	42011956	117126707	28	89584											
ADAM22	53616	broad.mit.edu	37	chr7	87564386	87564386	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaagaggaaggaaaaccgctTcgtggagcgccagagcatcg	13	4	15	9	4	0	2	0	0	0	2	2	6	0	5	2	3	3	2	2	3	4	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr7:87564386T>C	uc003ujn.2	+	2	210	c.131T>C	c.(130-132)TTC>TCC	p.F44S	ADAM22_uc003uji.1_Missense_Mutation_p.F43S|ADAM22_uc003ujj.1_Missense_Mutation_p.F44S|ADAM22_uc003ujk.1_Missense_Mutation_p.F44S|ADAM22_uc003ujl.1_Missense_Mutation_p.F44S|ADAM22_uc003ujm.2_Missense_Mutation_p.F44S|ADAM22_uc003ujo.2_Missense_Mutation_p.F44S|ADAM22_uc003ujp.1_Missense_Mutation_p.F96S	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	44					cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			GAAAACCGCTTCGTGGAGCGC	0.612													4	81					0	0	0.014758	0	0		C	87564386	C	C	87564386	3	2	169	1	0	0	0	0	1	0	0	0	244	1783	62	3	137	3	ADAM22	7	87564386	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	45552430	87564386	71574277	29	89585											
PTPRZ1	5803	broad.mit.edu	37	chr7	121652018	121652018	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagccatataccaatacctaAgtcttcgttaataaccccaa	15	11	3	12	1	1	0	0	0	1	0	2	0	1	0	5	0	4	1	5	0	9	8			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr7:121652018A>C	uc003vjy.2	+	12	3313	c.2918A>C	c.(2917-2919)AAG>ACG	p.K973T	PTPRZ1_uc003vjz.2_Intron|PTPRZ1_uc011knt.1_Intron	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	973	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CCAATACCTAAGTCTTCGTTA	0.443													7	149					0	0	0.001984	0	0		C	121652018	C	C	121652018	3	2	169	1	0	0	0	0	1	0	0	0	12839	72	3	5	2964	5	PTPRZ1	7	121652018	Missense_Mutation	SNP	A	TCGA-D7-6522-01A-11D-1800-08	34087632	121652018	37486645	30	89586											
DLGAP2	9228	broad.mit.edu	37	chr8	1513926	1513926	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgcaggagaatgagaagtggGagttacattaaagccatggg	14	8	15	4	0	0	2	0	1	0	2	0	5	0	3	1	3	3	2	1	3	5	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr8:1513926G>C	uc003wpl.2	+	3	1165	c.1068G>C	c.(1066-1068)GGG>GGC	p.G356G	DLGAP2_uc003wpm.2_Silent_p.G356G	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	435					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TGAGAAGTGGGAGTTACATTA	0.557													5	25					0	0	0.021553	0	0		C	1513926	C	C	1513926	2	2	169	1	0	0	0	0	0	0	0	1	4566	1161	41	5		5	DLGAP2	8	1513926	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08		1513926	144850096	31	89587											
BMP1	649	broad.mit.edu	37	chr8	22037329	22037329	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgcccaagcccgcaagctTtacaagtgcccaggtcaggg	10	7	11	13	1	1	0	1	0	0	0	1	0	1	0	3	2	5	2	3	2	4	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr8:22037329T>C	uc003xbg.2	+	7	1192	c.948T>C	c.(946-948)CTT>CTC	p.L316L	BMP1_uc003xba.2_Silent_p.L316L|BMP1_uc003xbb.2_Silent_p.L316L|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Silent_p.L65L|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Silent_p.L65L|BMP1_uc011kzc.1_Silent_p.L65L|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	316	Metalloprotease.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CCCGCAAGCTTTACAAGTGCC	0.612													3	29					0	0	0.004672	0	0		C	22037329	C	C	22037329	2	2	169	1	0	0	0	0	0	0	0	1	1457	1828	64	3		3	BMP1	8	22037329	Silent	SNP	T	TCGA-D7-6522-01A-11D-1800-08	20523403	22037329	124326693	32	89588											
GTPBP4	23560	broad.mit.edu	37	chr10	1053033	1053033	+	Silent	SNP	C	T	T	0	0	0	1	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	tgaatgaggtgctgaatagaCtgcacctggctatcccaacc	11	9	10	11	0	0	4	0	3	0	1	1	4	1	4	3	2	3	3	3	2	5	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr10:1053033C>T	uc001ift.2	+	10	1149	c.1078C>T	c.(1078-1080)CTG>TTG	p.L360L	GTPBP4_uc010qac.1_Silent_p.L151L|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Silent_p.L244L|GTPBP4_uc010qae.1_Silent_p.L313L	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	360					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GCTGAATAGACTGCACCTGGC	0.507													6	55					0	0	0.021553	0	0		T	1053033	T	T	1053033	2	4	169	1	0	0	0	0	0	0	0	1	6898	564	20	4		4	GTPBP4	10	1053033	Silent	SNP	C	TCGA-D7-6522-01A-11D-1800-08		1053033	134481714	33	89589											
PRKG1	5592	broad.mit.edu	37	chr10	54041923	54041923	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctttgtaaggttgattttgGctttgcaaagaaaataggat	12	16	10	3	0	1	2	0	1	1	1	1	3	1	3	0	3	1	4	0	3	5	7			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr10:54041923G>C	uc001jjm.2	+	14	1705	c.1511G>C	c.(1510-1512)GGC>GCC	p.G504A	PRKG1_uc001jjo.2_Missense_Mutation_p.G519A|PRKG1_uc009xow.1_Missense_Mutation_p.G222A|uc001jjq.1_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	504	Protein kinase.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GTTGATTTTGGCTTTGCAAAG	0.343													4	57					0	0	0.014758	0	0		C	54041923	C	C	54041923	3	2	169	1	0	0	0	0	1	0	0	0	12544	1203	42	5	1880	5	PRKG1	10	54041923	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	52988890	54041923	81492824	34	89590											
BICC1	80114	broad.mit.edu	37	chr10	60588555	60588555	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagaaagctttttgaatcGccaaatgcacgcacctcttt	12	11	7	11	3	1	2	0	1	1	1	2	3	1	2	2	0	2	3	2	0	4	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr10:60588555G>A	uc001jki.1	+	21	2829	c.2829G>A	c.(2827-2829)TCG>TCA	p.S943S		NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	943					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						TTTTTGAATCGCCAAATGCAC	0.468													6	59					0	0	0.021553	0	0		A	60588555	A	A	60588555	2	1	169	1	0	0	0	0	0	0	0	1	1428	1074	38	1		1	BICC1	10	60588555	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	6546632	60588555	74946192	35	89591											
C11orf35	256329	broad.mit.edu	37	chr11	557633	557633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccatcagagtctctgccGtcactacctgcaagagggga	9	8	12	12	1	3	2	2	0	1	2	5	3	4	3	3	3	3	1	3	3	2	1	rs138095963		TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr11:557633G>A	uc001lpx.2	-	6	626	c.563C>T	c.(562-564)ACG>ATG	p.T188M	uc001lpy.2_RNA|uc001lpz.2_5'Flank|RASSF7_uc001lqa.2_5'Flank	NM_173573	NP_775844	Q8IXW0	CK035_HUMAN	hypothetical protein LOC256329	188										pancreas(1)	1		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;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGTCTCTGCCGTCACTACCTG	0.612													6	56					0	0	0.001984	0	0		A	557633	A	A	557633	3	1	169	1	0	0	0	0	1	0	0	0	1641	1145	40	1	1377	1	C11orf35	11	557633	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		557633	134448883	36	89592											
UBQLN3	50613	broad.mit.edu	37	chr11	5528867	5528867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatccacgtcgccccccGtagcaatgagggcctgaaga	10	5	11	15	3	0	3	0	2	0	1	2	3	1	3	5	1	2	3	5	1	3	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr11:5528867G>A	uc001may.1	-	2	2008	c.1922C>T	c.(1921-1923)ACG>ATG	p.T641M	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc001maq.1_5'Flank	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	641	UBA.									ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GTCGCCCCCCGTAGCAATGAG	0.537													4	106					0	0	0.009096	0	0		A	5528867	A	A	5528867	3	1	169	1	0	0	0	0	1	0	0	0	16924	1145	40	1	49	1	UBQLN3	11	5528867	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	4971234	5528867	129477649	37	89593											
MRGPRX3	117195	broad.mit.edu	37	chr11	18159146	18159146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccatctggtaccactgcCgccgccccagatacctgtca	7	7	9	18	2	2	1	1	0	1	1	2	1	2	1	7	2	3	1	7	2	2	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr11:18159146C>T	uc001mnu.2	+	3	758	c.397C>T	c.(397-399)CGC>TGC	p.R133C		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	133	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						GTACCACTGCCGCCGCCCCAG	0.572													4	137					0	0	0.009096	0	0		T	18159146	T	T	18159146	3	4	169	1	0	0	0	0	1	0	0	0	9786	652	23	1	399	1	MRGPRX3	11	18159146	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	12630279	18159146	116847370	38	89594											
OR8J1	219477	broad.mit.edu	37	chr11	56128624	56128624	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaataaggatgtgaagactgCtctacagagattcatgacaa	16	9	10	6	0	2	4	1	2	1	2	2	7	2	5	0	1	2	1	0	1	5	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr11:56128624C>A	uc010rjh.1	+	1	902	c.902C>A	c.(901-903)GCT>GAT	p.A301D		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTGAAGACTGCTCTACAGAGA	0.368													5	79					0.00116845	0.00127154	0.021553	1	0		A	56128624	A	A	56128624	3	1	169	1	0	0	0	0	1	0	0	0	11260	797	28	5	904	5	OR8J1	11	56128624	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	37969478	56128624	78877892	39	89595											
TRPC6	7225	broad.mit.edu	37	chr11	101375501	101375501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggagaactgtctgccgccGgtgagccagtctgttgtcag	7	9	14	11	3	3	2	1	1	2	1	3	3	3	2	3	2	3	1	3	2	1	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr11:101375501G>A	uc001pgk.3	-	2	624	c.199C>T	c.(199-201)CGG>TGG	p.R67W	TRPC6_uc009ywy.2_Missense_Mutation_p.R67W|TRPC6_uc009ywz.1_Missense_Mutation_p.R67W	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	67	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		GTCTGCCGCCGGTGAGCCAGT	0.463													8	102					0	0	0.004482	0	0		A	101375501	A	A	101375501	3	1	169	1	0	0	0	0	1	0	0	0	16609	1115	39	1	2644	1	TRPC6	11	101375501	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	45246877	101375501	33631015	40	89596											
MCAM	4162	broad.mit.edu	37	chr11	119182655	119182655	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccccctttccagcacctggCctgtctgggatgagagatgg	6	9	13	13	0	1	2	0	1	1	1	2	4	2	3	5	3	1	1	5	3	0	1	rs1131437		TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr11:119182655C>A	uc001pwf.2	-	10	1177	c.1148G>T	c.(1147-1149)GGC>GTC	p.G383V	MCAM_uc001pwg.1_5'Flank	NM_006500	NP_006491	P43121	MUC18_HUMAN	melanoma cell adhesion molecule	383	Ig-like C2-type 2.|Extracellular (Potential).			G -> D (in Ref. 1, 2 and 3).	anatomical structure morphogenesis|cell adhesion	integral to membrane|plasma membrane				ovary(2)|breast(1)|central_nervous_system(1)	4		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.78e-05)		CAGCACCTGGCCTGTCTGGGA	0.642													5	130					1.23904e-05	1.41787e-05	0.014758	1	0		A	119182655	A	A	119182655	3	1	169	1	0	0	0	0	1	0	0	0	9386	739	26	5	820	5	MCAM	11	119182655	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	17807154	119182655	15823861	41	89597											
HEPACAM	220296	broad.mit.edu	37	chr11	124794667	124794667	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccccagtgaaggtgtcGtcggtgatggagatctcgac	7	11	13	10	3	2	3	0	2	2	1	6	5	2	3	2	3	0	0	2	3	1	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr11:124794667G>A	uc001qbk.2	-	2	790	c.384C>T	c.(382-384)GAC>GAT	p.D128D	HEPACAM_uc009zbj.2_5'Flank|HEPACAM_uc001qbl.1_Silent_p.D128D	NM_152722	NP_689935	Q14CZ8	HECAM_HUMAN	hepatocyte cell adhesion molecule precursor	128	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell cycle arrest|regulation of growth	cytoplasm|integral to membrane				pancreas(1)	1	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;1.54e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0308)		TGAAGGTGTCGTCGGTGATGG	0.552													12	223					0	0	0.013537	0	0		A	124794667	A	A	124794667	2	1	169	1	0	0	0	0	0	0	0	1	7068	1136	40	1		1	HEPACAM	11	124794667	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	5612012	124794667	10211849	42	89598											
FGF6	2251	broad.mit.edu	37	chr12	4553300	4553300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccggcctggtgaactcaccGttgcgtacaatcttccttta	7	12	8	14	3	2	1	1	1	1	0	3	1	3	1	4	2	3	2	4	2	4	5	rs140216440		TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr12:4553300G>A	uc001qmr.1	-	2	493	c.449C>T	c.(448-450)ACG>ATG	p.T150M		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	150					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			TGAACTCACCGTTGCGTACAA	0.478													6	39					0	0	0.001984	0	0		A	4553300	A	A	4553300	3	1	169	1	0	0	0	0	1	0	0	0	5870	1159	40	1	185	1	FGF6	12	4553300	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		4553300	129298595	43	89599											
CLEC1B	51266	broad.mit.edu	37	chr12	10147790	10147790	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttccagacctcattcgacTtctggcgagataatccgacc	10	10	7	14	3	2	2	1	0	1	2	5	5	4	2	4	1	0	0	4	1	1	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr12:10147790T>A	uc001qwu.2	-	5	694	c.494A>T	c.(493-495)AAG>ATG	p.K165M	CLEC1B_uc009zhd.2_Missense_Mutation_p.K132M	NM_016509	NP_057593	Q9P126	CLC1B_HUMAN	C-type lectin domain family 1, member B isoform	165	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	protein binding|sugar binding|transmembrane receptor activity				0						CTCATTCGACTTCTGGCGAGA	0.423													7	464					0	0	0.004482	0	0		A	10147790	A	A	10147790	3	1	169	1	0	0	0	0	1	0	0	0	3509	1609	56	5	203	5	CLEC1B	12	10147790	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	5594490	10147790	123704105	44	89600											
IAPP	3375	broad.mit.edu	37	chr12	21531349	21531349	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagagagccactgaattacTtgcccctttagaggacaatg	13	9	10	9	0	0	4	0	1	0	3	0	6	0	5	3	1	3	0	3	1	4	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr12:21531349T>A	uc001rev.2	+	3	411	c.259T>A	c.(259-261)TTG>ATG	p.L87M	SLCO1A2_uc001res.2_Intron|SLCO1A2_uc010siq.1_Intron	NM_000415	NP_000406	P10997	IAPP_HUMAN	islet amyloid polypeptide precursor	87					apoptosis|cell-cell signaling|endocrine pancreas development|signal transduction	extracellular region|soluble fraction	hormone activity				0					Perindopril(DB00790)	ACTGAATTACTTGCCCCTTTA	0.383													4	85					0	0	0.009096	0	0		A	21531349	A	A	21531349	3	1	169	1	0	0	0	0	1	0	0	0	7488	1606	56	5	265	5	IAPP	12	21531349	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	11383559	21531349	112320546	45	89601											
PPFIBP1	8496	broad.mit.edu	37	chr12	27829368	27829368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttgcctctcaggacagagCtccggcagaaagcaggccat	11	7	11	12	1	1	2	1	0	1	2	3	3	2	3	3	3	3	3	3	3	1	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr12:27829368C>T	uc001ric.1	+	18	1846	c.1469C>T	c.(1468-1470)GCT>GTT	p.A490V	PPFIBP1_uc010sjr.1_Missense_Mutation_p.A321V|PPFIBP1_uc001rib.1_Missense_Mutation_p.A473V|PPFIBP1_uc001ria.2_Missense_Mutation_p.A459V|PPFIBP1_uc001rid.1_Missense_Mutation_p.A337V|PPFIBP1_uc001rif.1_5'Flank	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	490					cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					CAGGACAGAGCTCCGGCAGAA	0.552													4	96					0	0	0.009096	0	0		T	27829368	T	T	27829368	3	4	169	1	0	0	0	0	1	0	0	0	12332	797	28	2	1522	2	PPFIBP1	12	27829368	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	6298019	27829368	106022527	46	89602											
PDZRN4	29951	broad.mit.edu	37	chr12	41946487	41946487	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgtcgtgttagcagtcaAgagaagctgggcctgacagt	9	11	14	7	1	1	2	1	1	0	1	2	3	1	2	1	1	2	3	1	1	3	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr12:41946487A>C	uc010skn.1	+	6	704	c.636A>C	c.(634-636)CAA>CAC	p.Q212H	PDZRN4_uc001rmq.3_Missense_Mutation_p.Q153H|PDZRN4_uc009zjz.2_Missense_Mutation_p.Q151H|PDZRN4_uc001rmr.2_Missense_Mutation_p.Q38H	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	411	PDZ 2.						ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				TTAGCAGTCAAGAGAAGCTGG	0.468													6	118					0	0	0.021553	0	0		C	41946487	C	C	41946487	3	2	169	1	0	0	0	0	1	0	0	0	11729	69	3	5	1328	5	PDZRN4	12	41946487	Missense_Mutation	SNP	A	TCGA-D7-6522-01A-11D-1800-08	14117119	41946487	91905408	47	89603											
E2F7	144455	broad.mit.edu	37	chr12	77417916	77417916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgggtgtcttgaaaaacGtctcacgatgtgtgcgttgg	7	12	14	8	4	2	1	1	1	2	0	3	2	2	1	1	2	3	1	1	2	2	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr12:77417916G>A	uc001sym.3	-	13	2851	c.2615C>T	c.(2614-2616)ACG>ATG	p.T872M	E2F7_uc009zse.2_3'UTR	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	872					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						CTTGAAAAACGTCTCACGATG	0.473													12	88					0	0	0.016723	0	0		A	77417916	A	A	77417916	3	1	169	1	0	0	0	0	1	0	0	0	4878	1145	40	1	124	1	E2F7	12	77417916	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	35471429	77417916	56433979	48	89604											
TCTN2	79867	broad.mit.edu	37	chr12	124171418	124171418	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttaacaacgctgttcagacgGtcctgcttcaccggcgtgtt	7	12	10	12	4	2	1	2	0	0	1	3	1	3	1	2	2	3	4	2	2	2	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr12:124171418G>T	uc001ufp.2	+	6	728	c.600G>T	c.(598-600)CGG>CGT	p.R200R	TCTN2_uc009zya.2_Silent_p.R199R	NM_024809	NP_079085	Q96GX1	TECT2_HUMAN	tectonic family member 2 isoform 1	200	Extracellular (Potential).				cilium assembly|smoothened signaling pathway	integral to membrane				ovary(1)	1	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)		TGTTCAGACGGTCCTGCTTCA	0.532													20	170					1.87028e-06	2.20852e-06	0.012319	1	0		T	124171418	T	T	124171418	2	4	169	1	0	0	0	0	0	0	0	1	15748	1248	44	5		5	TCTN2	12	124171418	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	46753502	124171418	9680477	49	89605											
FRY	10129	broad.mit.edu	37	chr13	32760399	32760399	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtgtgtttttctccctagttCaccaccgaagatttctcttc	6	17	6	12	1	3	1	1	0	2	1	6	2	3	1	3	0	0	2	3	0	2	6			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr13:32760399C>G	uc001utx.2	+	27	3818	c.3322C>G	c.(3322-3324)CAC>GAC	p.H1108D	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		CTCCCTAGTTCACCACCGAAG	0.413													10	178					0	0	0.010729	0	0		G	32760399	G	G	32760399	3	3	169	1	0	0	0	0	1	0	0	0	6077	826	29	5	3428	5	FRY	13	32760399	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08		32760399	82409479	50	89606											
PRKCH	5583	broad.mit.edu	37	chr14	61917668	61917668	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgctctggggaataatgCgacaaggacttcagtgtaaa	13	9	11	8	1	2	0	1	0	1	0	2	3	2	2	0	3	2	2	0	3	5	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr14:61917668C>T	uc001xfn.2	+	6	1116	c.811C>T	c.(811-813)CGA>TGA	p.R271*	PRKCH_uc010tsa.1_Nonsense_Mutation_p.R110*	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	271	Phorbol-ester/DAG-type 2.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		GGGAATAATGCGACAAGGACT	0.488													4	77					0	0	0.014758	0	0		T	61917668	T	T	61917668	4	4	169	1	0	0	0	0	0	1	0	0	12535	760	27	1	833	1	PRKCH	14	61917668	Nonsense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08		61917668	45431872	51	89607											
RGS6	9628	broad.mit.edu	37	chr14	72976881	72976881	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaagagcccagccaacagCgagtaaaaagatggggcttc	15	4	12	10	1	0	2	0	0	0	2	1	3	0	2	2	2	4	3	2	2	5	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr14:72976881C>T	uc001xna.3	+	14	1508	c.985C>T	c.(985-987)CGA>TGA	p.R329*	RGS6_uc010ttn.1_Nonsense_Mutation_p.R329*|RGS6_uc001xmx.3_Nonsense_Mutation_p.R329*|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Nonsense_Mutation_p.R329*|RGS6_uc010ttp.1_Nonsense_Mutation_p.R260*|RGS6_uc001xmz.1_Nonsense_Mutation_p.R190*	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	329	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		CAGCCAACAGCGAGTAAAAAG	0.458													10	219					0	0	0.008291	0	0		T	72976881	T	T	72976881	4	4	169	1	0	0	0	0	0	1	0	0	13334	760	27	1	1035	1	RGS6	14	72976881	Nonsense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	11059213	72976881	34372659	52	89608											
TP53BP1	7158	broad.mit.edu	37	chr15	43699759	43699759	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaccacatcaaatacccctAaagcaatatctgcaaggagc	16	6	5	14	0	2	0	1	0	1	0	2	1	2	1	4	1	4	2	4	1	7	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr15:43699759A>G	uc001zrs.2	-	28	5889	c.5741T>C	c.(5740-5742)TTA>TCA	p.L1914S	TP53BP1_uc010udp.1_Missense_Mutation_p.L1912S|TP53BP1_uc001zrq.3_Missense_Mutation_p.L1917S|TP53BP1_uc001zrr.3_Missense_Mutation_p.L1919S|TP53BP1_uc001zrp.2_Missense_Mutation_p.L331S	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	1914	BRCT 2.				double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		AAATACCCCTAAAGCAATATC	0.493								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					3	52					0	0	0.004672	0	0		G	43699759	G	G	43699759	3	3	169	1	0	0	0	0	1	0	0	0	16409	372	13	3	181	3	TP53BP1	15	43699759	Missense_Mutation	SNP	A	TCGA-D7-6522-01A-11D-1800-08		43699759	58831633	53	89609											
ACAN	176	broad.mit.edu	37	chr15	89382268	89382268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgaggccaccctggaagtcGtggtgaaaggtgagagcctc	9	6	16	10	2	0	2	0	2	0	1	2	5	0	3	3	4	1	0	3	4	2	0			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr15:89382268G>A	uc010upo.1	+	3	819	c.445G>A	c.(445-447)GTG>ATG	p.V149M	ACAN_uc002bmx.2_Missense_Mutation_p.V149M|ACAN_uc010upp.1_Missense_Mutation_p.V149M|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	149					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CCTGGAAGTCGTGGTGAAAGG	0.557													9	86					0	0	0.006214	0	0		A	89382268	A	A	89382268	3	1	169	1	0	0	0	0	1	0	0	0	117	1145	40	1	451	1	ACAN	15	89382268	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	45682509	89382268	13149124	54	89610											
ACSM2B	348158	broad.mit.edu	37	chr16	20563552	20563552	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattccaaaagtgagcccaAgatgttcagtatccaacctg	14	9	8	10	0	1	3	1	1	0	2	3	3	3	3	4	0	2	2	4	0	5	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr16:20563552A>G	uc002dhj.3	-	7	1018	c.808T>C	c.(808-810)TTG>CTG	p.L270L	ACSM2B_uc002dhk.3_Silent_p.L270L|ACSM2B_uc010bwf.1_Silent_p.L270L	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	270					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						AGTGAGCCCAAGATGTTCAGT	0.423													6	206					0	0	0.021553	0	0		G	20563552	G	G	20563552	2	3	169	1	0	0	0	0	0	0	0	1	184	69	3	3		3	ACSM2B	16	20563552	Silent	SNP	A	TCGA-D7-6522-01A-11D-1800-08		20563552	69791201	55	89611											
GTF3C1	2975	broad.mit.edu	37	chr16	27472881	27472881	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgcagccgagggactccagGccctggagacaccagacaca	12	3	12	14	1	0	2	0	0	0	2	1	5	1	3	4	3	2	1	4	3	0	0			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr16:27472881G>T	uc002dov.1	-	37	6160	c.6120C>A	c.(6118-6120)GGC>GGA	p.G2040G	GTF3C1_uc002dou.2_Silent_p.G2015G	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	2040						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						GGGACTCCAGGCCCTGGAGAC	0.483													6	62					3.59834e-05	4.07567e-05	0.021553	1	0		T	27472881	T	T	27472881	2	4	169	1	0	0	0	0	0	0	0	1	6888	1190	42	5		5	GTF3C1	16	27472881	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	6909329	27472881	62881872	56	89612											
N4BP1	9683	broad.mit.edu	37	chr16	48594664	48594664	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctgcagagaatggacttaCgtaattgcaacattgctccc	12	11	8	10	1	1	1	0	0	1	1	2	3	2	2	1	1	5	4	1	1	4	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr16:48594664C>T	uc002efp.2	-	2	2126	c.1889_splice	c.e2+1	p.T630_splice		NM_153029	NP_694574	O75113	N4BP1_HUMAN	Nedd4 binding protein 1						negative regulation of proteasomal ubiquitin-dependent protein catabolic process|negative regulation of protein ubiquitination	nucleolus|PML body					0		all_cancers(37;0.179)|all_lung(18;0.11)				AATGGACTTACGTAATTGCAA	0.338													9	169					0	0	0.004482	0	0		T	48594664	T	T	48594664	5	4	169	1	0	0	0	0	0	0	1	0	10127	550	19	1	824	1	N4BP1	16	48594664	Splice_Site	SNP	C	TCGA-D7-6522-01A-11D-1800-08	21121783	48594664	41760089	57	89613											
CDH1	999	broad.mit.edu	37	chr16	68847399	68847399	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcattttgaaaacagcaaagGtttgtatggtacctggcaag	13	11	11	6	0	0	1	0	1	0	0	0	1	0	1	1	3	3	6	1	3	6	5			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr16:68847399G>T	uc002ewg.1	+	9	1444	c.1320_splice	c.e9+1	p.K440_splice	CDH1_uc010vlj.1_Splice_Site|CDH1_uc010cfg.1_Intron	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein						adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(3)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		AACAGCAAAGGTTTGTATGGT	0.458			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				15	288					2.23348e-06	2.58247e-06	0.028581	1	0		T	68847399	T	T	68847399	5	4	169	1	0	0	0	0	0	0	1	0	3098	1275	44	5	1355	5	CDH1	16	68847399	Splice_Site	SNP	G	TCGA-D7-6522-01A-11D-1800-08	20252735	68847399	21507354	58	89614											
P2RX1	5023	broad.mit.edu	37	chr17	3802234	3802234	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactggacactcaccttgccGtccaccaggatgtcaaagcg	10	7	9	15	2	2	0	2	0	0	0	3	2	3	2	4	2	2	0	4	2	1	1	rs139414872		TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr17:3802234G>A	uc002fww.2	-	9	1401	c.960C>T	c.(958-960)GAC>GAT	p.D320D		NM_002558	NP_002549	P51575	P2RX1_HUMAN	purinergic receptor P2X1	320	Extracellular (Potential).				platelet activation	integral to plasma membrane	calcium channel activity|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity			ovary(1)|skin(1)	2				LUAD - Lung adenocarcinoma(2;1.9e-05)|Lung(3;0.0173)		TCACCTTGCCGTCCACCAGGA	0.527													7	148					0	0	0.001984	0	0		A	3802234	A	A	3802234	2	1	169	1	0	0	0	0	0	0	0	1	11358	1136	40	1		1	P2RX1	17	3802234	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08		3802234	77392976	59	89615											
PLD2	5338	broad.mit.edu	37	chr17	4717978	4717978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcccattcagatgactggaGactggacattatgctcaaga	12	9	11	9	0	2	4	2	1	0	3	2	6	2	5	1	3	1	1	1	3	2	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr17:4717978G>A	uc002fzc.2	+	12	1246	c.1145G>A	c.(1144-1146)AGA>AAA	p.R382K	PLD2_uc010vsj.1_Missense_Mutation_p.R239K|PLD2_uc002fzd.2_Missense_Mutation_p.R382K	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	382					cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	GATGACTGGAGACTGGACATT	0.592													4	54					0	0	0.009096	0	0		A	4717978	A	A	4717978	3	1	169	1	0	0	0	0	1	0	0	0	12065	942	33	4	1187	4	PLD2	17	4717978	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	915744	4717978	76477232	60	89616											
GFAP	2670	broad.mit.edu	37	chr17	42992568	42992568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcagctcagcagccagcGccttgttttgctgttccagg	5	12	12	12	1	2	0	2	0	0	0	3	0	3	0	3	2	5	6	3	2	0	5			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr17:42992568G>A	uc002ihq.2	-	1	347	c.287C>T	c.(286-288)GCG>GTG	p.A96V	GFAP_uc002ihr.2_Missense_Mutation_p.A96V|GFAP_uc010wjg.1_RNA	NM_002055	NP_002046	P14136	GFAP_HUMAN	glial fibrillary acidic protein isoform 1	96	Rod.|Coil 1A.					cytoplasm|intermediate filament	structural constituent of cytoskeleton			ovary(1)|pancreas(1)	2		Prostate(33;0.0959)				AGCAGCCAGCGCCTTGTTTTG	0.612													4	76					0	0	0.009096	0	0		A	42992568	A	A	42992568	3	1	169	1	0	0	0	0	1	0	0	0	6352	1087	38	1	1176	1	GFAP	17	42992568	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	38274590	42992568	38202642	61	89617											
ITGB4	3691	broad.mit.edu	37	chr17	73723521	73723521	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcaacacccaggcggagCtgctggccgcgggctgccag	6	4	16	15	3	0	0	0	0	0	0	0	1	0	1	3	4	5	5	3	4	1	0			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr17:73723521C>T	uc002jpg.2	+	4	386	c.199C>T	c.(199-201)CTG>TTG	p.L67L	ITGB4_uc002jph.2_Silent_p.L67L|ITGB4_uc010dgo.2_Silent_p.L67L|ITGB4_uc002jpi.3_Silent_p.L67L|ITGB4_uc010dgp.1_Silent_p.L67L|ITGB4_uc002jpj.2_Silent_p.L67L	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	67	PSI.|Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	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)			CCAGGCGGAGCTGCTGGCCGC	0.672													3	40					0	0	0.009096	0	0		T	73723521	T	T	73723521	2	4	169	1	0	0	0	0	0	0	0	1	7913	796	28	2		2	ITGB4	17	73723521	Silent	SNP	C	TCGA-D7-6522-01A-11D-1800-08	30730953	73723521	7471689	62	89618											
MYOM1	8736	broad.mit.edu	37	chr18	3188900	3188900	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctggatgccgtggactgcTtggatgctgtggactgcttg	4	12	16	9	1	0	0	0	0	0	0	0	4	0	4	2	4	4	3	2	4	0	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr18:3188900T>C	uc002klp.2	-	4	951	c.617A>G	c.(616-618)AAG>AGG	p.K206R	MYOM1_uc002klq.2_Missense_Mutation_p.K206R	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	206	5.|6 X 6 AA tandem repeats.					striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						CGTGGACTGCTTGGATGCTGT	0.532													3	106					0	0	0.004672	0	0		C	3188900	C	C	3188900	3	2	169	1	0	0	0	0	1	0	0	0	10109	1609	56	3	4580	3	MYOM1	18	3188900	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08		3188900	74888348	63	89619											
KLHL14	57565	broad.mit.edu	37	chr18	30349740	30349740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacccgctccaccagctccGgggccgggatgagggcgaag	7	3	17	14	4	0	1	0	1	0	0	2	4	2	3	5	5	1	2	5	5	1	0			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr18:30349740G>A	uc002kxm.1	-	2	1203	c.815C>T	c.(814-816)CCG>CTG	p.P272L		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	272	BACK.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CACCAGCTCCGGGGCCGGGAT	0.637													4	66					0	0	0.009096	0	0		A	30349740	A	A	30349740	3	1	169	1	0	0	0	0	1	0	0	0	8386	1116	39	1	1103	1	KLHL14	18	30349740	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	27160840	30349740	47727508	64	89620											
EMR1	2015	broad.mit.edu	37	chr19	6904148	6904148	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcattgcaggctttcatCccaatccagaaggctcccag	9	9	9	14	0	1	1	1	0	0	1	4	1	4	1	3	2	2	5	3	2	2	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr19:6904148C>A	uc002mfw.2	+	8	942	c.904C>A	c.(904-906)CCC>ACC	p.P302T	EMR1_uc010dvc.2_Missense_Mutation_p.P302T|EMR1_uc010dvb.2_Missense_Mutation_p.P250T|EMR1_uc010xji.1_Missense_Mutation_p.P161T|EMR1_uc010xjj.1_Intron	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	302	Extracellular (Potential).|EGF-like 6; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AGGCTTTCATCCCAATCCAGA	0.478													4	85					0.00909568	0.00961543	0.009096	1	0		A	6904148	A	A	6904148	3	1	169	1	0	0	0	0	1	0	0	0	5112	855	30	5	934	5	EMR1	19	6904148	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08		6904148	52224835	65	89621											
NDUFA13	51079	broad.mit.edu	37	chr19	19646380	19646380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgggctggtggtggatgccGtactgggccccggcgtggag	4	8	20	9	3	0	0	0	0	0	0	0	2	0	2	3	7	2	2	3	7	1	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr19:19646380G>A	uc010xqy.1	+	7	1091	c.832G>A	c.(832-834)GTA>ATA	p.V278I	YJEFN3_uc002nmt.1_Missense_Mutation_p.V196I|YJEFN3_uc010ecf.1_Missense_Mutation_p.V146I|YJEFN3_uc002nmu.1_RNA|CILP2_uc002nmv.3_5'Flank|CILP2_uc002nmw.3_5'Flank	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	Error:Variant_position_missing_in_Q9P0J0_after_alignment					apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	GGTGGATGCCGTACTGGGCCC	0.692													3	29					0	0	0.004672	0	0		A	19646380	A	A	19646380	3	1	169	1	0	0	0	0	1	0	0	0	10282	1145	40	1		1	NDUFA13	19	19646380	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	12742232	19646380	39482603	66	89622											
ZNF99	7652	broad.mit.edu	37	chr19	22939932	22939932	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attctccacatttgtagggcTtctccccagtatgaactgct	8	14	7	12	0	2	1	0	1	2	0	4	1	2	1	3	1	2	4	3	1	3	5			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr19:22939932T>G	uc010xrh.1	-	6	2399	c.2399A>C	c.(2398-2400)AAG>ACG	p.K800T		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				TTTGTAGGGCTTCTCCCCAGT	0.373													5	136					0	0	0.021553	0	0		G	22939932	G	G	22939932	3	3	169	1	0	0	0	0	1	0	0	0	18229	1609	56	5	721	5	ZNF99	19	22939932	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	3293552	22939932	36189051	67	89623											
ZNF567	163081	broad.mit.edu	37	chr19	37203687	37203687	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttttttcacttttcagggtgTcacatgaccaaacctgatgt	9	16	7	9	0	3	2	3	2	0	0	3	2	3	2	2	1	1	0	2	1	1	5			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr19:37203687T>G	uc010xtl.1	+	5	363	c.141T>G	c.(139-141)TGT>TGG	p.C47W	ZNF567_uc002oeo.1_Missense_Mutation_p.C47W|ZNF567_uc010xtk.1_Missense_Mutation_p.C47W|ZNF567_uc002oep.3_Missense_Mutation_p.C16W|ZNF567_uc002oeq.1_Missense_Mutation_p.C16W	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	47	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTTCAGGGTGTCACATGACCA	0.428													3	55					0	0	0.004672	0	0		G	37203687	G	G	37203687	3	3	169	1	0	0	0	0	1	0	0	0	18023	1673	58	5	54	5	ZNF567	19	37203687	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	14263755	37203687	21925296	68	89624											
ZNF808	388558	broad.mit.edu	37	chr19	53057977	53057977	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgtgaagcatgtgacaaagTttttggtcagaaatcagctc	13	12	10	6	0	2	3	2	2	0	1	3	3	2	3	0	1	2	3	0	1	3	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr19:53057977T>G	uc010epq.1	+	5	1985	c.1808T>G	c.(1807-1809)GTT>GGT	p.V603G	ZNF808_uc002pzq.2_RNA|ZNF808_uc010epr.1_5'Flank	NM_001039886	NP_001034975	Q8N4W9	ZN808_HUMAN	zinc finger protein 808	603	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.00501)|GBM - Glioblastoma multiforme(134;0.0213)		TGTGACAAAGTTTTTGGTCAG	0.383													3	102					0	0	0.004672	0	0		G	53057977	G	G	53057977	3	3	169	1	0	0	0	0	1	0	0	0	18198	1725	60	5	1818	5	ZNF808	19	53057977	Missense_Mutation	SNP	T	TCGA-D7-6522-01A-11D-1800-08	15854290	53057977	6071006	69	89625											
ZSCAN1	284312	broad.mit.edu	37	chr19	58565264	58565264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccggagcaagggccccCgggagtccgtcccacccagg	6	2	13	20	3	0	0	0	0	0	0	2	2	2	2	8	4	1	1	8	4	1	0	rs144536843	byFrequency	TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr19:58565264C>T	uc002qrc.1	+	6	1319	c.1072C>T	c.(1072-1074)CGG>TGG	p.R358W		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	358					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		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;0.0152)		CAAGGGCCCCCGGGAGTCCGT	0.662													3	27					0	0	0.009096	0	0		T	58565264	T	T	58565264	3	4	169	1	0	0	0	0	1	0	0	0	18251	643	23	1	1086	1	ZSCAN1	19	58565264	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	5507287	58565264	563719	70	89626											
UBE2M	9040	broad.mit.edu	37	chr19	59067588	59067588	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgttcagtgggtcctcgggGttgggctcctgtggccagta	3	13	16	9	1	1	0	1	0	0	0	4	0	3	0	3	5	0	4	3	5	1	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr19:59067588G>A	uc002qtl.3	-	6	1015	c.420C>T	c.(418-420)AAC>AAT	p.N140N	CHMP2A_uc002qti.2_5'Flank|CHMP2A_uc002qtj.2_5'Flank|CHMP2A_uc002qtk.2_5'Flank	NM_003969	NP_003960	P61081	UBC12_HUMAN	ubiquitin-conjugating enzyme E2M	140					protein neddylation		ATP binding|NEDD8 ligase activity|protein binding|ribosomal S6-glutamic acid ligase activity|ubiquitin-protein ligase activity			ovary(1)|pancreas(1)	2		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)		GGTCCTCGGGGTTGGGCTCCT	0.612													4	63					0	0	0.009096	0	0		A	59067588	A	A	59067588	2	1	169	1	0	0	0	0	0	0	0	1	16891	1252	44	4		4	UBE2M	19	59067588	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	502324	59067588	61395	71	89627											
SFRS15	57466	broad.mit.edu	37	chr21	33068535	33068535	+	Splice_Site	SNP	C	T	T	0	0	0	1	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	tgccatctccaggaaagccaCtaaaaaaaggtggataatct	16	8	8	9	0	2	0	0	0	2	0	3	2	2	2	3	3	2	0	3	3	6	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr21:33068535C>T	uc002ypd.2	-	9	1386	c.960_splice	c.e9-1	p.F320_splice	SFRS15_uc002ype.2_Splice_Site_p.F320_splice|SFRS15_uc010glu.2_Splice_Site_p.F305_splice|SFRS15_uc002ypf.1_Splice_Site	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform							nucleus	nucleotide binding|RNA binding				0						AGGAAAGCCACTAAAAAAAGG	0.403													7	170					0	0	0.001984	0	0		T	33068535	T	T	33068535	5	4	169	1	0	0	0	0	0	0	1	0	14196	579	20	4	2532	4	SFRS15	21	33068535	Splice_Site	SNP	C	TCGA-D7-6522-01A-11D-1800-08		33068535	15061360	72	89628											
C21orf63	59271	broad.mit.edu	37	chr21	33825767	33825767	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgtagttcccagaagcctgCctcccagagggaagacagct	10	7	12	12	0	0	3	0	0	0	3	2	4	2	4	4	1	3	3	4	1	3	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr21:33825767C>T	uc002ypr.1	+	2	718	c.308C>T	c.(307-309)GCC>GTC	p.A103V	C21orf63_uc002ypq.1_Missense_Mutation_p.A103V|C21orf63_uc002yps.1_Intron|C21orf63_uc010glw.1_Missense_Mutation_p.A103V|C21orf63_uc002ypt.1_Intron|C21orf63_uc002ypu.1_Missense_Mutation_p.A8V	NM_058187	NP_478067	P58658	CU063_HUMAN	hypothetical protein LOC59271 precursor	103	SUEL-type lectin 1.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(2)|pancreas(1)	3						CAGAAGCCTGCCTCCCAGAGG	0.468											OREG0003572	type=REGULATORY REGION|Gene=C21orf63|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	3	31					0	0	0.009096	0	0		T	33825767	T	T	33825767	3	4	169	1	0	0	0	0	1	0	0	0	2134	739	26	2	314	2	C21orf63	21	33825767	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	757232	33825767	14304128	73	89629											
CACNA1I	8911	broad.mit.edu	37	chr22	40015370	40015370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtcagccatccgcaccGtgcgcgtcctgaggcccctc	5	7	10	19	4	1	1	1	1	0	0	4	1	3	1	7	1	2	1	7	1	0	0			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chr22:40015370G>A	uc003ayc.2	+	4	538	c.538G>A	c.(538-540)GTG>ATG	p.V180M	CACNA1I_uc003ayd.2_Missense_Mutation_p.V180M|CACNA1I_uc003aye.2_Missense_Mutation_p.V95M|CACNA1I_uc003ayf.2_Missense_Mutation_p.V95M	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	180	I.|Helical; Name=S4 of repeat I; (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	CATCCGCACCGTGCGCGTCCT	0.612													4	111					0	0	0.014758	0	0		A	40015370	A	A	40015370	3	1	169	1	0	0	0	0	1	0	0	0	2549	1145	40	1	552	1	CACNA1I	22	40015370	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		40015370	11289196	74	89630											
P2RY8	286530	broad.mit.edu	37	chrX	1584583	1584583	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcaaagtaataaacaaacGggtccagacagttgttgagg	16	7	11	7	2	0	2	0	1	0	1	1	2	1	2	1	2	2	4	1	2	5	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:1584583G>A	uc004cpz.2	-	2	1117	c.869C>T	c.(868-870)CCG>CTG	p.P290L		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	290	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		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)				ATAAACAAACGGGTCCAGACA	0.602			T	CRLF2	B-ALL|Downs associated ALL								6	132					0	0	0.001984	0	0		A	1584583	A	A	1584583	3	1	169	1	0	0	0	0	1	0	0	0	11374	1116	39	1	214	1	P2RY8	23	1584583	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08		1584583	153685977	75	89631											
MSL3	10943	broad.mit.edu	37	chrX	11793170	11793170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctgtgaggcacattacaGcaccaagaacccccgggcaa	12	5	10	14	1	0	2	0	1	0	1	0	2	0	2	4	2	4	3	4	2	4	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:11793170G>A	uc004cuw.2	+	13	1643	c.1538G>A	c.(1537-1539)AGC>AAC	p.S513N	MSL3_uc004cux.2_Missense_Mutation_p.S454N|MSL3_uc011mig.1_Missense_Mutation_p.S364N|MSL3_uc011mih.1_Missense_Mutation_p.S501N|MSL3_uc004cuy.2_Missense_Mutation_p.S347N	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	513					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCACATTACAGCACCAAGAAC	0.453													6	59					0	0	0.00308	0	0		A	11793170	A	A	11793170	3	1	169	1	0	0	0	0	1	0	0	0	9897	971	34	2	1668	2	MSL3	23	11793170	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	10208587	11793170	143477390	76	89632											
CDKL5	6792	broad.mit.edu	37	chrX	18643268	18643268	+	Silent	SNP	T	C	C	0	1	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	gtacccaattccgacagcccTgatcttctgacgttgcagaa	10	10	8	13	2	2	3	0	2	2	1	3	4	3	3	3	0	3	3	3	0	3	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:18643268T>C	uc004cym.2	+	17	2650	c.2397T>C	c.(2395-2397)CCT>CCC	p.P799P	CDKL5_uc004cyn.2_Silent_p.P799P	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	799					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					CCGACAGCCCTGATCTTCTGA	0.478													3	83					0	0	0.009096	0	0		C	18643268	C	C	18643268	2	2	169	1	0	0	0	0	0	0	0	1	3160	1567	55	3		3	CDKL5	23	18643268	Silent	SNP	T	TCGA-D7-6522-01A-11D-1800-08	6850098	18643268	136627292	77	89633											
KLHL34	257240	broad.mit.edu	37	chrX	21674200	21674200	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcagcaacgctgtctcctcGaccacggccagcccatagca	10	5	9	17	3	1	0	0	0	1	0	3	1	1	0	4	1	5	4	4	1	2	1			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:21674200G>A	uc004czz.1	-	1	2249	c.1707C>T	c.(1705-1707)GTC>GTT	p.V569V		NM_153270	NP_695002	Q8N239	KLH34_HUMAN	kelch-like 34	569	Kelch 5.									ovary(1)	1						CTGTCTCCTCGACCACGGCCA	0.682													4	9					0	0	0.009096	0	0		A	21674200	A	A	21674200	2	1	169	1	0	0	0	0	0	0	0	1	8403	1045	37	1		1	KLHL34	23	21674200	Silent	SNP	G	TCGA-D7-6522-01A-11D-1800-08	3030932	21674200	133596360	78	89634											
MAGEB3	4114	broad.mit.edu	37	chrX	30254217	30254217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagtctgctggtaggtcacGtagtgctctcaagaagcctc	10	10	11	10	1	3	1	2	0	2	1	5	1	3	1	1	2	3	4	1	2	5	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:30254217G>A	uc004dca.1	+	5	913	c.176G>A	c.(175-177)CGT>CAT	p.R59H		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	59											0						GGTAGGTCACGTAGTGCTCTC	0.428													3	13					0	0	0.004672	0	0		A	30254217	A	A	30254217	3	1	169	1	0	0	0	0	1	0	0	0	9195	1145	40	1	178	1	MAGEB3	23	30254217	Missense_Mutation	SNP	G	TCGA-D7-6522-01A-11D-1800-08	8580017	30254217	125016343	79	89635											
FAM120C	54954	broad.mit.edu	37	chrX	54161998	54161998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatggtgcccacttgatttCgtggaaggggaggatttcca	10	11	13	7	1	0	1	0	1	0	0	2	4	1	4	2	5	1	0	2	5	2	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:54161998C>T	uc004dsz.3	-	6	1381	c.1298G>A	c.(1297-1299)CGA>CAA	p.R433Q	FAM120C_uc011moh.1_Missense_Mutation_p.R433Q	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	433										ovary(1)|central_nervous_system(1)	2						CACTTGATTTCGTGGAAGGGG	0.393													4	25					0	0	0.021553	0	0		T	54161998	T	T	54161998	3	4	169	1	0	0	0	0	1	0	0	0	5429	884	31	1	2036	1	FAM120C	23	54161998	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	23907781	54161998	101108562	80	89636											
MAGEE1	57692	broad.mit.edu	37	chrX	75650723	75650723	+	Silent	SNP	A	G	G	1	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	ctgaaccatgtctatgggacAgaactagtggtacttgatcc	11	11	10	9	0	1	3	0	2	1	1	2	4	2	4	2	2	3	1	2	2	5	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:75650723A>G	uc004ecm.1	+	1	2607	c.2400A>G	c.(2398-2400)ACA>ACG	p.T800T		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	800	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						TCTATGGGACAGAACTAGTGG	0.498													5	58					0	0	0.014758	0	0		G	75650723	G	G	75650723	2	3	169	1	0	0	0	0	0	0	0	1	9203	175	7	3		3	MAGEE1	23	75650723	Silent	SNP	A	TCGA-D7-6522-01A-11D-1800-08	21488725	75650723	79619837	81	89637											
ZCCHC5	203430	broad.mit.edu	37	chrX	77912593	77912593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagtagaggcataagcggCctttgtgccaacggacccat	11	7	11	12	2	0	1	0	0	0	1	0	2	0	2	3	3	3	2	3	3	3	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:77912593C>T	uc004edc.1	-	2	1621	c.1325G>A	c.(1324-1326)GGC>GAC	p.G442D		NM_152694	NP_689907	Q8N8U3	ZCHC5_HUMAN	zinc finger, CCHC domain containing 5	442							nucleic acid binding|zinc ion binding			ovary(1)	1						GCATAAGCGGCCTTTGTGCCA	0.557													6	47					0	0	0.001984	0	0		T	77912593	T	T	77912593	3	4	169	1	0	0	0	0	1	0	0	0	17616	739	26	2	106	2	ZCCHC5	23	77912593	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	2261870	77912593	77357967	82	89638											
COL4A6	1288	broad.mit.edu	37	chrX	107431078	107431078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaggaacgatcaacttacCggaaggcctggcagacctgg	11	6	12	12	2	1	1	1	0	0	1	1	4	1	3	4	5	3	1	4	5	5	2			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:107431078C>T	uc004enw.3	-	22	1873	c.1770G>A	c.(1768-1770)CCG>CCA	p.P590P	COL4A6_uc004env.3_Silent_p.P589P|COL4A6_uc011msn.1_Silent_p.P589P|COL4A6_uc010npk.2_Silent_p.P589P	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	590	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						ATCAACTTACCGGAAGGCCTG	0.537									Alport_syndrome_with_Diffuse_Leiomyomatosis				5	95					0	0	0.021553	0	0		T	107431078	T	T	107431078	2	4	169	1	0	0	0	0	0	0	0	1	3698	666	23	1		1	COL4A6	23	107431078	Silent	SNP	C	TCGA-D7-6522-01A-11D-1800-08	29518485	107431078	47839482	83	89639											
IL13RA1	3597	broad.mit.edu	37	chrX	117895118	117895118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagtgaaacctgatcctccaCatattaaaaacctctccttc	13	11	3	14	0	1	2	0	2	1	0	5	2	3	2	5	0	2	0	5	0	5	3			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:117895118C>T	uc004eqs.2	+	6	737	c.694C>T	c.(694-696)CAT>TAT	p.H232Y	IL13RA1_uc004eqr.1_Missense_Mutation_p.H232Y|IL13RA1_uc004eqt.1_Missense_Mutation_p.H232Y	NM_001560	NP_001551	P78552	I13R1_HUMAN	interleukin 13 receptor, alpha 1 precursor	232	Extracellular (Potential).					interleukin-13 receptor complex	cytokine receptor activity				0						TGATCCTCCACATATTAAAAA	0.308													10	107					0	0	0.010729	0	0		T	117895118	T	T	117895118	3	4	169	1	0	0	0	0	1	0	0	0	7645	478	17	4	716	4	IL13RA1	23	117895118	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	10464040	117895118	37375442	84	89640											
SAGE1	55511	broad.mit.edu	37	chrX	134989523	134989523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatggaaaatgaccaacCgcaacctaataacgtattgt	17	8	8	8	2	0	2	0	1	0	1	0	4	0	3	3	1	3	2	3	1	8	4			TCGA-D7-6522-01A-11D-1800-08	TCGA-D7-6522-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	e4724ddc-1714-41ed-8d34-d1e7210f4776	94057bd1-d097-442e-ac82-0d54e3f678eb	g.chrX:134989523C>T	uc004ezh.2	+	9	1096	c.929C>T	c.(928-930)CCG>CTG	p.P310L	SAGE1_uc010nry.1_Missense_Mutation_p.P279L|SAGE1_uc011mvv.1_Intron	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	310										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AATGACCAACCGCAACCTAAT	0.413													6	73					0	0	0.021553	0	0		T	134989523	T	T	134989523	3	4	169	1	0	0	0	0	1	0	0	0	13834	652	23	1	959	1	SAGE1	23	134989523	Missense_Mutation	SNP	C	TCGA-D7-6522-01A-11D-1800-08	17094405	134989523	20281037	85	89641											
HSPG2	3339	broad.mit.edu	37	chr1	22198725	22198725	+	Frame_Shift_Del	DEL	T	-	-																															gctgccagtagaaggactcaTggccgagttgggcaaagttg																										TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:22198725delT	uc001bfj.2	-	33	4215	c.4175delA	c.(4174-4176)CATfs	p.H1392fs	HSPG2_uc009vqd.2_Frame_Shift_Del_p.H1393fs	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1392	Laminin IV type A 3.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GAAGGACTCATGGCCGAGTTG	0.597													2	4	---	---	---	---						.	-	22198725	-	-	22198725	7	5	170	1	0	1	0	1	0	0	0	0	7446	1464	51	0	9260	0	HSPG2	1	22198725	Frame_Shift_Del	DEL	T	TCGA-D7-6524-01A-11D-1800-08		22198725	227051896	1	89642											
EPHA8	2046	broad.mit.edu	37	chr1	22924249	22924249	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tggccatcaaggccctcaaaGccggctacacggagagacag	12	4	12	13	2	2	1	2	0	0	1	2	3	2	2	3	4	2	1	3	4	3	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:22924249G>T	uc001bfx.1	+	11	2136	c.2011G>T	c.(2011-2013)GCC>TCC	p.A671S		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	671	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GGCCCTCAAAGCCGGCTACAC	0.662													12	80					1.5842e-08	1.97687e-08	0.001855	1	0		T	22924249	T	T	22924249	3	4	170	1	0	0	0	0	1	0	0	0	5181	971	34	5	2226	5	EPHA8	1	22924249	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	725524	22924249	226326372	2	89643											
HNRNPR	10236	broad.mit.edu	37	chr1	23637402	23637402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggatcttcatagcctccacGatagtcgtgataatcataac	12	11	8	10	2	3	1	2	1	1	0	5	3	4	2	2	1	2	0	2	1	4	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:23637402G>A	uc001bgr.3	-	11	1606	c.1447C>T	c.(1447-1449)CGT>TGT	p.R483C	HNRNPR_uc001bgo.2_Missense_Mutation_p.R93C|HNRNPR_uc001bgp.3_Missense_Mutation_p.R486C|HNRNPR_uc009vqk.2_Missense_Mutation_p.R385C|HNRNPR_uc001bgs.3_Missense_Mutation_p.R382C|HNRNPR_uc010odw.1_Missense_Mutation_p.R445C|HNRNPR_uc010odx.1_Missense_Mutation_p.R323C|HNRNPR_uc009vql.2_Missense_Mutation_p.R344C	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	483	3 X 11 AA approximate repeats of D-D-Y-Y- G-Y-D-Y-H-D-Y.|RNA-binding RGG-box.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		TAGCCTCCACGATAGTCGTGA	0.398													24	127					0	0	0.00333	0	0		A	23637402	A	A	23637402	3	1	170	1	0	0	0	0	1	0	0	0	7288	1058	37	1	458	1	HNRNPR	1	23637402	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	713153	23637402	225613219	3	89644											
RPS6KA1	6195	broad.mit.edu	37	chr1	26898396	26898396	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctggagcctgggcattctGctgtacaccatgctggcagg	7	10	13	11	0	2	0	0	0	2	0	2	1	2	1	2	4	4	5	2	4	1	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:26898396G>T	uc001bmr.1	+	19	1972	c.1809G>T	c.(1807-1809)CTG>CTT	p.L603L	RPS6KA1_uc010ofe.1_Silent_p.L511L|RPS6KA1_uc010off.1_Silent_p.L587L|RPS6KA1_uc001bms.1_Silent_p.L612L|RPS6KA1_uc009vsl.1_Silent_p.L446L	NM_002953	NP_002944	Q15418	KS6A1_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	603	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(1)	1		all_cancers(24;2.49e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00571)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;1.12e-50)|OV - Ovarian serous cystadenocarcinoma(117;2.89e-29)|Colorectal(126;1.4e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000537)|KIRC - Kidney renal clear cell carcinoma(1967;0.000759)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0361)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.161)|LUSC - Lung squamous cell carcinoma(448;0.234)		TGGGCATTCTGCTGTACACCA	0.627													7	24					5.4927e-09	6.91323e-09	0.004482	1	0		T	26898396	T	T	26898396	2	4	170	1	0	0	0	0	0	0	0	1	13675	1306	46	5		5	RPS6KA1	1	26898396	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	3260994	26898396	222352225	4	89645											
ARID1A	8289	broad.mit.edu	37	chr1	27107151	27107151	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcagagtttactctgtaCgaatcacggctgttggacat	10	12	9	10	2	3	1	2	0	1	1	3	3	3	2	0	2	2	4	0	2	3	4	rs139585602		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:27107151C>A	uc001bmv.1	+	20	7135	c.6762C>A	c.(6760-6762)TAC>TAA	p.Y2254*	ARID1A_uc001bmu.1_Nonsense_Mutation_p.Y2037*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.Y1100*|ARID1A_uc009vsm.1_Nonsense_Mutation_p.Y582*|ARID1A_uc009vsn.1_Nonsense_Mutation_p.Y496*	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2254					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TTACTCTGTACGAATCACGGC	0.517			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								30	97					7.01153e-11	9.14004e-11	0.007291	1	0		A	27107151	A	A	27107151	4	1	170	1	0	0	0	0	0	1	0	0	913	547	19	5	6840	5	ARID1A	1	27107151	Nonsense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	208755	27107151	222143470	5	89646											
KIAA0754	643314	broad.mit.edu	37	chr1	39877622	39877622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcccacgttgatatcatgaGagacacttccactgttagca	11	11	8	11	1	1	3	1	2	0	1	2	4	2	3	2	0	2	3	2	0	2	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:39877622G>A	uc009vvt.1	+	1	2447	c.1685G>A	c.(1684-1686)AGA>AAA	p.R562K	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	426											0	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)			GATATCATGAGAGACACTTCC	0.423													14	76					0	0	0.001855	0	0		A	39877622	A	A	39877622	3	1	170	1	0	0	0	0	1	0	0	0	8208	942	33	4	1687	4	KIAA0754	1	39877622	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	12770471	39877622	209372999	6	89647											
UQCRH	7388	broad.mit.edu	37	chr1	46782256	46782256	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctttaacaacttgaaataAatgtgtggacttaattcacc	14	14	5	8	0	2	1	1	1	1	0	2	2	2	2	1	1	2	0	1	1	6	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:46782256A>G	uc001cpp.2	+	4	335	c.276A>G	c.(274-276)TAA>TAG	p.*92*	UQCRH_uc001cpq.2_RNA	NM_006004	NP_005995	P07919	QCR6_HUMAN	ubiquinol-cytochrome c reductase hinge protein	92					aerobic respiration|mitochondrial electron transport, ubiquinol to cytochrome c		ubiquinol-cytochrome-c reductase activity				0	Acute lymphoblastic leukemia(166;0.155)					ACTTGAAATAAATGTGTGGAC	0.383													13	132					0	0	0.004007	0	0		G	46782256	G	G	46782256	2	3	170	1	0	0	0	0	0	0	0	1	17048	21	1	3		3	UQCRH	1	46782256	Silent	SNP	A	TCGA-D7-6524-01A-11D-1800-08	6904634	46782256	202468365	7	89648											
FAM151A	338094	broad.mit.edu	37	chr1	55089019	55089019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagacacacaggtaatgccgGcaaacacccacttgacctga	14	5	8	14	1	0	3	0	2	0	1	0	3	0	3	3	2	2	2	3	2	2	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:55089019G>A	uc001cxn.2	-	1	182	c.50C>T	c.(49-51)GCC>GTC	p.A17V	ACOT11_uc001cxm.1_Intron	NM_176782	NP_788954	Q8WW52	F151A_HUMAN	hypothetical protein LOC338094	17	Helical; (Potential).					integral to membrane					0						GGTAATGCCGGCAAACACCCA	0.602													4	173					0	0	0.000602	0	0		A	55089019	A	A	55089019	3	1	170	1	0	0	0	0	1	0	0	0	5469	1203	42	2	1739	2	FAM151A	1	55089019	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	8306763	55089019	194161602	8	89649											
NEGR1	257194	broad.mit.edu	37	chr1	72058615	72058615	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatggatcttgtgctaaaAttttgaataataattccttg	14	16	7	4	0	1	2	0	1	1	1	2	3	2	3	1	1	1	1	1	1	6	8			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:72058615A>C	uc001dfw.2	-	6	925	c.825T>G	c.(823-825)AAT>AAG	p.N275K	NEGR1_uc001dfv.2_Missense_Mutation_p.N147K|NEGR1_uc010oqs.1_Missense_Mutation_p.N231K	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	275	Ig-like C2-type 3.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		TTGTGCTAAAATTTTGAATAA	0.383													10	50					0	0	0.006214	0	0		C	72058615	C	C	72058615	3	2	170	1	0	0	0	0	1	0	0	0	10336	98	4	5	247	5	NEGR1	1	72058615	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08	16969596	72058615	177192006	9	89650											
TNNI3K	51086	broad.mit.edu	37	chr1	74836071	74836071	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaattatacatcgtgacttGaacaggtatttttttcctaa	12	16	5	8	1	0	2	0	2	0	0	2	2	1	2	2	1	2	1	2	1	6	8			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:74836071G>T	uc001dgf.1	+	17	1818	c.1767G>T	c.(1765-1767)TTG>TTT	p.L589F	TNNI3K_uc001dgc.1_Missense_Mutation_p.L690F|TNNI3K_uc001dgd.2_Missense_Mutation_p.L690F|TNNI3K_uc001dge.1_Missense_Mutation_p.L690F	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	589	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						ATCGTGACTTGAACAGGTATT	0.358													5	49					1.23904e-05	1.48279e-05	0.000602	1	0		T	74836071	T	T	74836071	3	4	170	1	0	0	0	0	1	0	0	0	16354	1281	45	5	2188	5	TNNI3K	1	74836071	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	2777456	74836071	174414550	10	89651											
C1orf173	127254	broad.mit.edu	37	chr1	75037596	75037596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcctgggtccttagcacGacatccactcctccttgccc	5	11	7	18	1	0	0	0	0	0	0	5	1	5	0	6	1	2	2	6	1	1	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:75037596G>A	uc001dgg.2	-	14	4017	c.3798C>T	c.(3796-3798)GTC>GTT	p.V1266V		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1266	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCCTTAGCACGACATCCACTC	0.577													22	131					0	0	0.00333	0	0		A	75037596	A	A	75037596	2	1	170	1	0	0	0	0	0	0	0	1	2017	1045	37	1		1	C1orf173	1	75037596	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	201525	75037596	174213025	11	89652											
PKN2	5586	broad.mit.edu	37	chr1	89236101	89236101	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacaaaaatagaagtcataCgaatgcagattcttcaggca	18	8	8	7	1	3	3	2	0	1	3	3	4	3	3	0	1	2	2	0	1	6	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:89236101C>T	uc001dmn.2	+	4	913	c.571C>T	c.(571-573)CGA>TGA	p.R191*	PKN2_uc001dmm.1_Nonsense_Mutation_p.R191*|PKN2_uc010osp.1_Nonsense_Mutation_p.R191*|PKN2_uc010osq.1_Nonsense_Mutation_p.R34*|PKN2_uc009wcv.2_Nonsense_Mutation_p.R191*	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	191	REM 2.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		AGAAGTCATACGAATGCAGAT	0.363													15	80					0	0	0.003163	0	0		T	89236101	T	T	89236101	4	4	170	1	0	0	0	0	0	1	0	0	11999	528	19	1	585	1	PKN2	1	89236101	Nonsense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	14198505	89236101	160014520	12	89653											
ANKRD34A	284615	broad.mit.edu	37	chr1	145474330	145474330	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggctgaggcagaaactgagCcgcatggagccagtggagct	10	5	17	9	1	0	3	0	2	0	1	0	5	0	5	2	4	4	4	2	4	1	0			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:145474330C>T	uc001enq.1	+	4	2295	c.1002C>T	c.(1000-1002)AGC>AGT	p.S334S	NBPF10_uc001emp.3_Intron|LIX1L_uc001enr.2_5'Flank	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	334	Pro-rich.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGAAACTGAGCCGCATGGAGC	0.652													7	31					0	0	0.00308	0	0		T	145474330	T	T	145474330	2	4	170	1	0	0	0	0	0	0	0	1	662	738	26	2		2	ANKRD34A	1	145474330	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	56238229	145474330	103776291	13	89654											
RPTN	126638	broad.mit.edu	37	chr1	152128681	152128681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taactctggtcttgtctgtcCgtctgaccgtagtgggaact	6	14	11	10	2	4	1	0	1	4	0	5	2	5	2	2	2	2	1	2	2	3	3	rs112678204		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:152128681C>T	uc001ezs.1	-	3	959	c.894G>A	c.(892-894)ACG>ACA	p.T298T		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	298	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0						CTTGTCTGTCCGTCTGACCGT	0.507													102	642					0	0	0.01441	0	0		T	152128681	T	T	152128681	2	4	170	1	0	0	0	0	0	0	0	1	13689	639	23	1		1	RPTN	1	152128681	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	6654351	152128681	97121940	14	89655											
SPTA1	6708	broad.mit.edu	37	chr1	158623143	158623143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggagcatcgggaactcatCgtgggccagtcttctgacat	8	10	13	10	2	3	1	1	1	2	0	5	3	3	3	1	3	2	1	1	3	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:158623143C>T	uc001fst.1	-	22	3308	c.3109G>A	c.(3109-3111)GAT>AAT	p.D1037N		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1037					actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GGGAACTCATCGTGGGCCAGT	0.572													17	97					0	0	0.006122	0	0		T	158623143	T	T	158623143	3	4	170	1	0	0	0	0	1	0	0	0	15141	884	31	1	4274	1	SPTA1	1	158623143	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	6494462	158623143	90627478	15	89656											
FAM5B	57795	broad.mit.edu	37	chr1	177199156	177199156	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccgagcagcatgcctcCgtagctggccagcatcccct	6	7	10	18	2	0	0	0	0	0	0	3	1	3	0	7	1	5	5	7	1	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:177199156C>T	uc001glf.2	+	2	456	c.144C>T	c.(142-144)TCC>TCT	p.S48S		NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	48						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						AGCATGCCTCCGTAGCTGGCC	0.682													7	52					0	0	0.001984	0	0		T	177199156	T	T	177199156	2	4	170	1	0	0	0	0	0	0	0	1	5607	639	23	1		1	FAM5B	1	177199156	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	18576013	177199156	72051465	16	89657											
GUK1	2987	broad.mit.edu	37	chr1	228333243	228333243	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggcctgtggtgctgagCgggccttcgggagctgggaa	5	7	18	11	2	0	1	0	1	0	0	1	3	0	3	3	5	3	2	3	5	1	1	rs140072078		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr1:228333243C>T	uc001hsh.2	+	3	333	c.30C>T	c.(28-30)AGC>AGT	p.S10S	GUK1_uc001hsi.2_Silent_p.S31S|GUK1_uc001hsj.2_5'UTR|GUK1_uc010pvv.1_Silent_p.S10S	NM_000858	NP_000849	Q16774	KGUA_HUMAN	guanylate kinase 1 isoform b	10	Guanylate kinase-like.				nucleobase, nucleoside and nucleotide interconversion|purine nucleotide metabolic process	cytosol	ATP binding|guanylate kinase activity				0		Prostate(94;0.0405)				TGGTGCTGAGCGGGCCTTCGG	0.652													7	26					0	0	0.001984	0	0		T	228333243	T	T	228333243	2	4	170	1	0	0	0	0	0	0	0	1	6916	767	27	1		1	GUK1	1	228333243	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	51134087	228333243	20917378	17	89658											
PXDN	7837	broad.mit.edu	37	chr2	1643087	1643087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatacctgggtattttccGtggtcttgttttcttggtcg	4	18	10	9	2	2	0	0	0	2	0	4	0	3	0	3	3	1	2	3	3	2	8			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:1643087G>A	uc002qxa.2	-	20	4124	c.4060C>T	c.(4060-4062)CGG>TGG	p.R1354W		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1354					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GGTATTTTCCGTGGTCTTGTT	0.577													5	21					0	0	0.000602	0	0		A	1643087	A	A	1643087	3	1	170	1	0	0	0	0	1	0	0	0	12872	1144	40	1	395	1	PXDN	2	1643087	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		1643087	241556286	18	89659											
GALNT14	79623	broad.mit.edu	37	chr2	31165143	31165143	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaccaagctttgtcgatcacGaagagccctccagctatgat	12	9	8	12	2	1	2	1	1	0	1	3	4	2	2	3	0	4	2	3	0	4	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:31165143G>A	uc002rnr.2	-	9	1474	c.855C>T	c.(853-855)TTC>TTT	p.F285F	GALNT14_uc002rnq.2_Silent_p.F265F|GALNT14_uc002rns.2_Silent_p.F290F|GALNT14_uc010ymr.1_Silent_p.F250F|GALNT14_uc010ezo.1_Silent_p.F252F|GALNT14_uc010ezp.1_Intron	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	285	Lumenal (Potential).|Catalytic subdomain B.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					TGTCGATCACGAAGAGCCCTC	0.498													18	80					0	0	0.007413	0	0		A	31165143	A	A	31165143	2	1	170	1	0	0	0	0	0	0	0	1	6227	1049	37	1		1	GALNT14	2	31165143	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	29522056	31165143	212034230	19	89660											
FAM136A	84908	broad.mit.edu	37	chr2	70527986	70527986	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcacctggaacttctccaGctcactggtgaccaaagcct	9	10	7	15	0	3	1	2	1	2	0	5	2	3	2	4	2	3	1	4	2	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:70527986G>C	uc002sgq.3	-	2	291	c.214C>G	c.(214-216)CTG>GTG	p.L72V	FAM136A_uc010fdp.2_RNA	NM_032822	NP_116211	Q96C01	F136A_HUMAN	hypothetical protein LOC84908	72						mitochondrion	protein binding				0						AACTTCTCCAGCTCACTGGTG	0.517													32	195					0	0	0.013726	0	0		C	70527986	C	C	70527986	3	2	170	1	0	0	0	0	1	0	0	0	5461	962	34	5	210	5	FAM136A	2	70527986	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	39362843	70527986	172671387	20	89661											
RGPD4	285190	broad.mit.edu	37	chr2	108487666	108487666	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggggtaaaactatttaGatttgatgctgaggtaaggc	13	11	13	4	0	0	3	0	2	0	1	0	3	0	3	0	4	2	3	0	4	5	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:108487666G>T	uc010ywk.1	+	20	3288	c.3206G>T	c.(3205-3207)AGA>ATA	p.R1069I	RGPD4_uc002tdu.2_Missense_Mutation_p.R256I|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1069	RanBD1 1.				intracellular transport		binding			skin(2)	2						AAACTATTTAGATTTGATGCT	0.388													9	632					4.1943e-16	5.67008e-16	0.008291	1	0		T	108487666	T	T	108487666	3	4	170	1	0	0	0	0	1	0	0	0	13313	942	33	5	3284	5	RGPD4	2	108487666	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	37959680	108487666	134711707	21	89662											
CCDC148	130940	broad.mit.edu	37	chr2	159028732	159028732	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctatgaagtccagcttctcGaagtgctaactcgaagcgaa	12	10	9	10	3	2	1	0	1	2	0	5	4	3	1	1	0	4	2	1	0	6	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:159028732G>A	uc002tzq.2	-	14	1932	c.1669C>T	c.(1669-1671)CGA>TGA	p.R557*	CCDC148_uc002tzr.2_Nonsense_Mutation_p.R405*|CCDC148_uc010foh.2_Nonsense_Mutation_p.R270*	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	557										ovary(2)	2						CCAGCTTCTCGAAGTGCTAAC	0.308													5	46					0	0	0.000602	0	0		A	159028732	A	A	159028732	4	1	170	1	0	0	0	0	0	1	0	0	2785	1066	37	1	110	1	CCDC148	2	159028732	Nonsense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	50541066	159028732	84170641	22	89663											
LRP2	4036	broad.mit.edu	37	chr2	170063685	170063685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgtgactttaagaagaacaCggcggtaagtagtattgatc	13	11	11	6	2	0	4	0	2	0	2	1	4	0	4	0	2	1	3	0	2	6	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:170063685C>T	uc002ues.2	-	39	6758	c.6545G>A	c.(6544-6546)CGT>CAT	p.R2182H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2182	LDL-receptor class B 21.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AAGAAGAACACGGCGGTAAGT	0.418													18	76					0	0	0.00499	0	0		T	170063685	T	T	170063685	3	4	170	1	0	0	0	0	1	0	0	0	8974	536	19	1	7586	1	LRP2	2	170063685	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	11034953	170063685	73135688	23	89664											
TTN	7273	broad.mit.edu	37	chr2	179613044	179613044	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaaagaaatggaattttCatcaatactacttttctcca	14	16	3	8	0	4	1	2	0	2	1	5	2	4	2	1	1	2	0	1	1	7	8			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:179613044C>A	uc002unb.2	-	46	14307	c.14083G>T	c.(14083-14085)GAA>TAA	p.E4695*	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGGAATTTTCATCAATACTA	0.303													15	110					1.49906e-05	1.77937e-05	0.00245	1	0		A	179613044	A	A	179613044	4	1	170	1	0	0	0	0	0	1	0	0	16761	835	29	5	96214	5	TTN	2	179613044	Nonsense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	9549359	179613044	63586329	24	89665											
BMPR2	659	broad.mit.edu	37	chr2	203420137	203420137	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgactataggggaaaaaaaCcgaaattcaattaactatga	19	10	7	5	1	1	2	1	2	0	0	1	4	1	3	1	2	2	0	1	2	9	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:203420137C>A	uc002uzf.3	+	12	2897	c.1749C>A	c.(1747-1749)AAC>AAA	p.N583K	BMPR2_uc010ftr.2_Intron	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	583	Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity	p.N583fs*44(1)		ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						GGGAAAAAAACCGAAATTCAA	0.433													6	61					0.00307968	0.00345872	0.00308	1	0		A	203420137	A	A	203420137	3	1	170	1	0	0	0	0	1	0	0	0	1472	506	18	5	1795	5	BMPR2	2	203420137	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	23807093	203420137	39779236	25	89666											
FEV	54738	broad.mit.edu	37	chr2	219846752	219846752	+	Silent	SNP	A	G	G	1	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	cggtaggcgtagcgcttgccAtgcaccttgctcatgatgtt	6	12	12	11	3	1	1	1	1	0	0	1	1	1	1	2	2	4	6	2	2	2	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:219846752A>G	uc002vji.1	-	3	936	c.354T>C	c.(352-354)CAT>CAC	p.H118H		NM_017521	NP_059991	Q99581	FEV_HUMAN	FEV (ETS oncogene family)	118	ETS.				cell differentiation|nervous system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity		EWSR1/FEV(10)|FUS/FEV(2)	bone(10)|soft_tissue(2)	12		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCGCTTGCCATGCACCTTGC	0.567			T	EWSR1| FUS	Ewing sarcoma								4	34					0	0	0.000602	0	0		G	219846752	G	G	219846752	2	3	170	1	0	0	0	0	0	0	0	1	5836	214	8	3		3	FEV	2	219846752	Silent	SNP	A	TCGA-D7-6524-01A-11D-1800-08	16426615	219846752	23352621	26	89667											
USP40	55230	broad.mit.edu	37	chr2	234431906	234431906	+	Missense_Mutation	SNP	A	T	T	1	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	tcctcatgtcttccttggggAtggccgtccaaccctcccca	5	11	8	17	1	2	0	1	0	1	0	6	1	6	1	7	3	1	0	7	3	1	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr2:234431906A>T	uc010zmr.1	-	15	2144	c.2144T>A	c.(2143-2145)ATC>AAC	p.I715N	USP40_uc010zmt.1_Missense_Mutation_p.I359N	NM_018218	NP_060688	Q9NVE5	UBP40_HUMAN	ubiquitin thioesterase 40	703					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)|breast(1)	3		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)		TTCCTTGGGGATGGCCGTCCA	0.502													31	200					0	0	0.008361	0	0		T	234431906	T	T	234431906	3	4	170	1	0	0	0	0	1	0	0	0	17098	333	12	5	1667	5	USP40	2	234431906	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08	14585154	234431906	8767467	27	89668											
STAC	6769	broad.mit.edu	37	chr3	36534690	36534690	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaagccaatgggccaggaggCgggtatgacctaaggaaacg	13	4	16	8	2	0	1	0	1	0	0	0	4	0	3	3	5	2	1	3	5	5	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr3:36534690C>T	uc003cgh.1	+	6	774	c.735C>T	c.(733-735)GGC>GGT	p.G245G	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Silent_p.G184G	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	245					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						GGCCAGGAGGCGGGTATGACC	0.507													12	119					0	0	0.001855	0	0		T	36534690	T	T	36534690	2	4	170	1	0	0	0	0	0	0	0	1	15264	755	27	1		1	STAC	3	36534690	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08		36534690	161487740	28	89669											
CTNNB1	1499	broad.mit.edu	37	chr3	41266453	41266453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccttttccagatattgatGgacagtatgcaatgactcga	13	12	8	8	1	0	3	0	2	0	1	2	5	1	4	2	1	2	2	2	1	4	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr3:41266453G>A	uc010hia.1	+	5	406	c.250G>A	c.(250-252)GGA>AGA	p.G84R	CTNNB1_uc003ckp.2_Missense_Mutation_p.G84R|CTNNB1_uc003ckq.2_Missense_Mutation_p.G84R|CTNNB1_uc003ckr.2_Missense_Mutation_p.G84R|CTNNB1_uc011azf.1_Missense_Mutation_p.G77R|CTNNB1_uc011azg.1_Missense_Mutation_p.G12R|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	84					adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.A5_Q143del(7)|p.Q28_H134del(5)|p.W25_I140del(4)|p.T3_A126del(2)|p.V22_L139>V(2)|p.M5_N141>D(2)|p.L10_N141del(2)|p.A5_Y142>D(2)|p.A20_Q143del(1)|p.A5_Q143>E(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.M1_A87del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.I35_K170del(1)|p.Y30_A97del(1)|p.V22_T102del(1)|p.D6_K133del(1)|p.M1_V173del(1)|p.E15_I140>V(1)|p.A5_R90del(1)|p.?(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.A5_D144>D(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.D17_A126del(1)|p.A20_L148del(1)|p.E9_I140del(1)|p.P16_K133del(1)|p.D6_I140del(1)|p.Q28_I140del(1)|p.A20_S111del(1)|p.A20_R151del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	AGATATTGATGGACAGTATGC	0.418		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				17	90					0	0	0.006122	0	0		A	41266453	A	A	41266453	3	1	170	1	0	0	0	0	1	0	0	0	4019	1349	47	4	260	4	CTNNB1	3	41266453	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	4731763	41266453	156755977	29	89670											
CTNNB1	1499	broad.mit.edu	37	chr3	41266572	41266572	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gctcatcccactaatgtccaGcgtttggctgaaccatcaca	10	10	7	14	1	2	1	2	1	0	0	4	1	4	1	3	1	2	3	3	1	2	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr3:41266572G>T	uc010hia.1	+	5	525	c.369G>T	c.(367-369)CAG>CAT	p.Q123H	CTNNB1_uc003ckp.2_Missense_Mutation_p.Q123H|CTNNB1_uc003ckq.2_Missense_Mutation_p.Q123H|CTNNB1_uc003ckr.2_Missense_Mutation_p.Q123H|CTNNB1_uc011azf.1_Missense_Mutation_p.Q116H|CTNNB1_uc011azg.1_Missense_Mutation_p.Q51H|uc010hib.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	123					adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.A5_Q143del(7)|p.Q28_H134del(5)|p.W25_I140del(4)|p.T3_A126del(2)|p.V22_L139>V(2)|p.M5_N141>D(2)|p.L10_N141del(2)|p.A5_Y142>D(2)|p.A20_Q143del(1)|p.A5_Q143>E(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.A20_R151del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.I35_K170del(1)|p.D6_K133del(1)|p.M1_V173del(1)|p.E15_I140>V(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.A5_D144>D(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.D17_A126del(1)|p.A20_L148del(1)|p.E9_I140del(1)|p.P16_K133del(1)|p.D6_I140del(1)|p.Q28_I140del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	CTAATGTCCAGCGTTTGGCTG	0.468		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				18	56					5.03518e-11	6.62285e-11	0.007413	1	0		T	41266572	T	T	41266572	3	4	170	1	0	0	0	0	1	0	0	0	4019	962	34	5	379	5	CTNNB1	3	41266572	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	119	41266572	156755858	30	89671											
ADAMTS9	56999	broad.mit.edu	37	chr3	64633635	64633635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttccaggctcgcactccGtcccatcggcccagggtgtg	4	9	11	17	3	0	0	0	0	0	0	5	0	3	0	5	3	0	2	5	3	0	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr3:64633635G>A	uc003dmg.2	-	11	1723	c.1691C>T	c.(1690-1692)ACG>ATG	p.T564M	ADAMTS9_uc011bfo.1_Missense_Mutation_p.T536M|ADAMTS9_uc003dmh.1_Missense_Mutation_p.T393M|ADAMTS9_uc003dmk.1_Missense_Mutation_p.T564M	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	564	Disintegrin.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CTCGCACTCCGTCCCATCGGC	0.517													11	97					0	0	0.001855	0	0		A	64633635	A	A	64633635	3	1	170	1	0	0	0	0	1	0	0	0	273	1145	40	1	4232	1	ADAMTS9	3	64633635	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	23367063	64633635	133388795	31	89672											
ROBO2	6092	broad.mit.edu	37	chr3	77526667	77526667	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggggacacccagaacccaCcatctactggaaaaaagaca	16	3	8	14	1	1	2	0	0	1	2	1	4	1	4	4	3	2	0	4	3	5	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr3:77526667C>G	uc003dpy.3	+	3	1134	c.491C>G	c.(490-492)ACC>AGC	p.T164S	ROBO2_uc003dpz.2_Missense_Mutation_p.T164S|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.T164S	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	164	Ig-like C2-type 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CCAGAACCCACCATCTACTGG	0.458													19	91					0	0	0.008871	0	0		G	77526667	G	G	77526667	3	3	170	1	0	0	0	0	1	0	0	0	13539	507	18	5	503	5	ROBO2	3	77526667	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	12893032	77526667	120495763	32	89673											
ATP13A3	79572	broad.mit.edu	37	chr3	194158159	194158159	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgcaaagcagaagaaaatGggaactggcgaacaattcct	16	7	11	7	1	0	2	0	0	0	2	1	4	1	3	1	2	4	3	1	2	7	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr3:194158159G>T	uc003fty.3	-	18	2282	c.1880C>A	c.(1879-1881)CCA>CAA	p.P627Q	ATP13A3_uc003ftz.1_Missense_Mutation_p.P333Q	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	627					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		AGAAGAAAATGGGAACTGGCG	0.433													14	59					3.27435e-08	4.05132e-08	0.00245	1	0		T	194158159	T	T	194158159	3	4	170	1	0	0	0	0	1	0	0	0	1126	1348	47	5	1860	5	ATP13A3	3	194158159	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	116631492	194158159	3864271	33	89674											
ANK2	287	broad.mit.edu	37	chr4	114254248	114254248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctcactttgcggcccttcGaggaaaggaaagggaactgg	10	7	13	11	2	1	0	1	0	0	0	2	4	1	3	2	5	2	0	2	5	3	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr4:114254248G>A	uc003ibe.3	+	29	3363	c.3263G>A	c.(3262-3264)CGA>CAA	p.R1088Q	ANK2_uc003ibd.3_Missense_Mutation_p.R1079Q|ANK2_uc003ibf.3_Missense_Mutation_p.R1088Q|ANK2_uc011cgc.1_Missense_Mutation_p.R264Q|ANK2_uc003ibg.3_Missense_Mutation_p.R83Q|ANK2_uc003ibc.2_Missense_Mutation_p.R1064Q|ANK2_uc011cgb.1_Missense_Mutation_p.R1103Q	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1055	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GCGGCCCTTCGAGGAAAGGAA	0.488													14	105					0	0	0.003163	0	0		A	114254248	A	A	114254248	3	1	170	1	0	0	0	0	1	0	0	0	621	1058	37	1	3442	1	ANK2	4	114254248	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		114254248	76900028	34	89675											
IRF2	3660	broad.mit.edu	37	chr4	185310094	185310094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctcctctttgatggtgaCctggaggtccggtttgttgg	3	15	14	9	1	2	2	0	2	2	0	4	3	3	3	3	5	0	3	3	5	0	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr4:185310094C>T	uc003iwf.3	-	9	1068	c.868G>A	c.(868-870)GTC>ATC	p.V290I		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2	290					blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		TTGATGGTGACCTGGAGGTCC	0.567													5	145					0	0	0.000602	0	0		T	185310094	T	T	185310094	3	4	170	1	0	0	0	0	1	0	0	0	7844	507	18	4	185	4	IRF2	4	185310094	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	71055846	185310094	5844182	35	89676											
FAT1	2195	broad.mit.edu	37	chr4	187516845	187516845	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacactgctgcctcaccaTtgtcatcgcacgattcggac	9	9	8	15	3	2	0	2	0	0	0	4	2	2	1	2	1	3	3	2	1	0	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr4:187516845T>C	uc003izf.2	-	26	13324	c.13136A>G	c.(13135-13137)AAT>AGT	p.N4379S	FAT1_uc010isn.2_5'UTR|FAT1_uc003ize.2_Missense_Mutation_p.N270S	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4379	PTB-like motif (By similarity).|Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGCCTCACCATTGTCATCGCA	0.512										HNSCC(5;0.00058)			13	82					0	0	0.003163	0	0		C	187516845	C	C	187516845	3	2	170	1	0	0	0	0	1	0	0	0	5703	1493	52	3	638	3	FAT1	4	187516845	Missense_Mutation	SNP	T	TCGA-D7-6524-01A-11D-1800-08	2206751	187516845	3637431	36	89677											
KIAA0947	23379	broad.mit.edu	37	chr5	5463370	5463370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaagtccatttcgggaaaCgactggctcctcatcacatg	12	9	9	11	2	2	0	2	0	0	0	5	3	4	1	2	2	1	1	2	2	3	1	rs148095940	by1000genomes	TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:5463370C>T	uc003jdm.3	+	13	4145	c.3923C>T	c.(3922-3924)ACG>ATG	p.T1308M		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1308										ovary(1)|central_nervous_system(1)	2						TTTCGGGAAACGACTGGCTCC	0.443													4	22					0	0	0.000602	0	0		T	5463370	T	T	5463370	3	4	170	1	0	0	0	0	1	0	0	0	8218	536	19	1	3973	1	KIAA0947	5	5463370	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08		5463370	175451890	37	89678											
GZMA	3001	broad.mit.edu	37	chr5	54405923	54405923	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggccttgaaaataaatgCggagaccctcgtgggcctgg	9	10	13	9	2	0	2	0	1	0	1	1	3	0	2	3	4	1	0	3	4	4	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:54405923C>T	uc003jpm.2	+	5	739	c.702C>T	c.(700-702)TGC>TGT	p.C234C		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	234	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				AAAATAAATGCGGAGACCCTC	0.468													6	85					0	0	0.001984	0	0		T	54405923	T	T	54405923	2	4	170	1	0	0	0	0	0	0	0	1	6931	776	27	1		1	GZMA	5	54405923	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	48942553	54405923	126509337	38	89679											
DMGDH	29958	broad.mit.edu	37	chr5	78347179	78347179	+	Missense_Mutation	SNP	A	G	G	1	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	aacgtcccatgttccatctgAcctggctttcagagaagtta	10	12	8	11	1	2	2	1	1	1	1	4	3	4	2	3	1	1	3	3	1	3	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:78347179A>G	uc003kfs.2	-	5	682	c.676T>C	c.(676-678)TCA>CCA	p.S226P	DMGDH_uc011cte.1_Missense_Mutation_p.S76P|DMGDH_uc011ctf.1_Intron|DMGDH_uc011ctg.1_Intron	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	226					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		GTTCCATCTGACCTGGCTTTC	0.423													21	164					0	0	0.00278	0	0		G	78347179	G	G	78347179	3	3	170	1	0	0	0	0	1	0	0	0	4587	275	10	3	1972	3	DMGDH	5	78347179	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08	23941256	78347179	102568081	39	89680											
HARS	3035	broad.mit.edu	37	chr5	140054699	140054699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacctgtgtctccgtggtcCgtatcttctcctccaaagcc	5	12	8	16	2	3	0	0	0	3	0	7	0	5	0	6	1	1	2	6	1	2	2	rs147185134		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:140054699C>T	uc003lgv.2	-	11	1296	c.1214G>A	c.(1213-1215)CGG>CAG	p.R405Q	DND1_uc003lgt.2_5'Flank|HARS_uc003lgu.2_Missense_Mutation_p.R336Q|HARS_uc011czm.1_Missense_Mutation_p.R365Q|HARS_uc003lgw.2_Missense_Mutation_p.R385Q|HARS_uc011czn.1_Missense_Mutation_p.R345Q|HARS_uc010jfu.2_Intron|HARS_uc011czo.1_Missense_Mutation_p.R331Q|HARS_uc011czp.1_Missense_Mutation_p.R291Q	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	405					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	CTCCGTGGTCCGTATCTTCTC	0.507													7	101					0	0	0.001984	0	0		T	140054699	T	T	140054699	3	4	170	1	0	0	0	0	1	0	0	0	6975	652	23	1	327	1	HARS	5	140054699	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	61707520	140054699	40860561	40	89681											
PCDHB7	56129	broad.mit.edu	37	chr5	140554375	140554375	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggcgagcctccgcgctcGgccaccgccacgctgcacgt	6	5	12	18	7	0	0	0	0	0	0	2	1	1	0	5	2	2	3	5	2	1	0			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:140554375G>A	uc003lit.2	+	1	2133	c.1959G>A	c.(1957-1959)TCG>TCA	p.S653S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	653	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTCCGCGCTCGGCCACCGCCA	0.701													6	106					0	0	0.001168	0	0		A	140554375	A	A	140554375	2	1	170	1	0	0	0	0	0	0	0	1	11566	1103	39	1		1	PCDHB7	5	140554375	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	499676	140554375	40360885	41	89682											
PDGFRB	5159	broad.mit.edu	37	chr5	149499084	149499084	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtaaccccgtttgatggcaTtgtagaactgctcgttcatg	8	13	11	9	2	1	2	1	1	0	1	2	2	1	2	2	2	3	6	2	2	3	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:149499084T>C	uc003lro.2	-	20	3213	c.2744A>G	c.(2743-2745)AAT>AGT	p.N915S	PDGFRB_uc010jhd.2_Missense_Mutation_p.N754S	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	915	Cytoplasmic (Potential).|Protein kinase.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TTTGATGGCATTGTAGAACTG	0.493			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								13	126					0	0	0.00245	0	0		C	149499084	C	C	149499084	3	2	170	1	0	0	0	0	1	0	0	0	11681	1493	52	3	592	3	PDGFRB	5	149499084	Missense_Mutation	SNP	T	TCGA-D7-6524-01A-11D-1800-08	8944709	149499084	31416176	42	89683											
SOX30	11063	broad.mit.edu	37	chr5	157078284	157078284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actggatccgggccccagggGggaccgtgtggagcgtcaaa	8	5	17	11	3	1	0	1	0	0	0	2	3	2	3	4	6	1	0	4	6	1	0			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:157078284G>A	uc003lxb.1	-	1	1145	c.803C>T	c.(802-804)CCC>CTC	p.P268L	SOX30_uc003lxc.1_Missense_Mutation_p.P268L|SOX30_uc011dds.1_Intron	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	268					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GGCCCCAGGGGGGACCGTGTG	0.602													11	88					0	0	0.010729	0	0		A	157078284	A	A	157078284	3	1	170	1	0	0	0	0	1	0	0	0	14977	1232	43	4	1478	4	SOX30	5	157078284	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	7579200	157078284	23836976	43	89684											
RNF130	55819	broad.mit.edu	37	chr5	179393912	179393912	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggccaagggagttgtcGccggcgaggtcgccgagggc	7	5	18	11	5	1	0	1	0	0	0	3	3	1	1	3	5	0	1	3	5	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr5:179393912G>A	uc003mll.1	-	7	1451	c.1044C>T	c.(1042-1044)GGC>GGT	p.G348G	RNF130_uc003mlm.1_Silent_p.G348G	NM_018434	NP_060904	Q86XS8	GOLI_HUMAN	ring finger protein 130 precursor	348	Cytoplasmic (Potential).				apoptosis	cytoplasm|integral to membrane|nucleus	ubiquitin-protein ligase activity|zinc ion binding			lung(2)|ovary(1)	3	all_cancers(89;5.49e-05)|all_epithelial(37;1.94e-05)|Renal(175;0.000159)|Lung NSC(126;0.00118)|all_lung(126;0.00212)	all_cancers(40;0.0294)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGGAGTTGTCGCCGGCGAGGT	0.537													6	83					0	0	0.001168	0	0		A	179393912	A	A	179393912	2	1	170	1	0	0	0	0	0	0	0	1	13463	1074	38	1		1	RNF130	5	179393912	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	22315628	179393912	1521348	44	89685											
FTSJD2	23070	broad.mit.edu	37	chr6	37414202	37414202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgaccaggagctgaacGtggactggcgagatgagcca	10	7	15	9	2	0	4	0	3	0	1	0	7	0	6	2	3	3	2	2	3	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr6:37414202G>A	uc003ons.2	+	4	674	c.421G>A	c.(421-423)GTG>ATG	p.V141M	FTSJD2_uc010jwu.2_Missense_Mutation_p.V141M	NM_015050	NP_055865	Q8N1G2	MTR1_HUMAN	FtsJ methyltransferase domain containing 2	141					mRNA capping	cytoplasm|nucleus	mRNA (nucleoside-2'-O-)-methyltransferase activity|nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GGAGCTGAACGTGGACTGGCG	0.502													40	241					0	0	0.00623	0	0		A	37414202	A	A	37414202	3	1	170	1	0	0	0	0	1	0	0	0	6105	1145	40	1	431	1	FTSJD2	6	37414202	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		37414202	133700865	45	89686											
C6orf153	88745	broad.mit.edu	37	chr6	42992783	42992783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagccaagtggggactaagaCgtacaaacaattggtagctg	14	7	13	7	1	0	1	0	0	0	1	0	3	0	2	1	3	4	3	1	3	6	4	rs140642066	byFrequency	TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr6:42992783C>T	uc003otp.1	+	2	199	c.191C>T	c.(190-192)ACG>ATG	p.T64M		NM_033112	NP_149103	Q96EU6	RRP36_HUMAN	hypothetical protein LOC88745	64					ribosomal small subunit biogenesis|rRNA processing	nucleolus					0			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GGGACTAAGACGTACAAACAA	0.458													8	42					0	0	0.00308	0	0		T	42992783	T	T	42992783	3	4	170	1	0	0	0	0	1	0	0	0	2341	536	19	1	197	1	C6orf153	6	42992783	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	5578581	42992783	128122284	46	89687											
GPR6	2830	broad.mit.edu	37	chr6	110300361	110300361	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	acgactcccaggtggtggtaGtggcggccgaaggagcggcg	7	5	19	10	5	0	0	0	0	0	0	1	3	1	1	2	7	1	1	2	7	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr6:110300361G>T	uc011eaw.1	+	2	226	c.46G>T	c.(46-48)GTG>TTG	p.V16L	GPR6_uc011eav.1_Missense_Mutation_p.V31L|GPR6_uc003ptu.2_Missense_Mutation_p.V16L	NM_005284	NP_005275	P46095	GPR6_HUMAN	G protein-coupled receptor 6	16	Poly-Val.|Extracellular (Potential).					integral to plasma membrane					0		all_cancers(87;1.64e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;2.83e-05)|all_lung(197;0.00016)|Lung NSC(302;0.000318)|Colorectal(196;0.0488)		BRCA - Breast invasive adenocarcinoma(108;8.01e-05)|Epithelial(106;8.76e-05)|all cancers(137;0.000197)|OV - Ovarian serous cystadenocarcinoma(136;0.0307)		ggtggtggtagtggcggccga	0.488													3	17					0.00024832	0.000287736	0.009096	1	0		T	110300361	T	T	110300361	3	4	170	1	0	0	0	0	1	0	0	0	6716	1029	36	5	48	5	GPR6	6	110300361	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	67307578	110300361	60814706	47	89688											
REV3L	5980	broad.mit.edu	37	chr6	111654434	111654434	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaacgagaacagagttgctaTagaagcgggattcaggctcc	14	7	12	8	2	1	3	1	0	0	3	2	5	2	4	1	2	4	3	1	2	5	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr6:111654434T>C	uc003puy.3	-	23	8140	c.7817A>G	c.(7816-7818)TAT>TGT	p.Y2606C	REV3L_uc003pux.3_Missense_Mutation_p.Y2528C|REV3L_uc003puz.3_Missense_Mutation_p.Y2528C|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2606					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		AGAGTTGCTATAGAAGCGGGA	0.438								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					8	28					0	0	0.004482	0	0		C	111654434	C	C	111654434	3	2	170	1	0	0	0	0	1	0	0	0	13265	1406	49	3	1615	3	REV3L	6	111654434	Missense_Mutation	SNP	T	TCGA-D7-6524-01A-11D-1800-08	1354073	111654434	59460633	48	89689											
SYNE1	23345	broad.mit.edu	37	chr6	152671459	152671459	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgactttcgcctccagactGaagacatgctcctgcaaaac	11	10	7	13	1	0	4	0	2	0	2	3	4	2	4	3	0	3	2	3	0	3	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr6:152671459G>T	uc010kiw.2	-	72	12347	c.11745C>A	c.(11743-11745)TTC>TTA	p.F3915L	SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Missense_Mutation_p.F3915L|SYNE1_uc010kja.1_Missense_Mutation_p.F620L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3915	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCTCCAGACTGAAGACATGCT	0.468										HNSCC(10;0.0054)			16	70					1.33834e-09	1.69911e-09	0.007413	1	0		T	152671459	T	T	152671459	3	4	170	1	0	0	0	0	1	0	0	0	15470	1281	45	5	15021	5	SYNE1	6	152671459	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	41017025	152671459	18443608	49	89690											
SYNE1	23345	broad.mit.edu	37	chr6	152708291	152708291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactcatcctctgtcttttcGtagagctccctggacttcgc	5	14	8	14	2	3	1	1	0	2	1	7	3	5	2	2	1	1	2	2	1	1	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr6:152708291G>A	uc010kiw.2	-	54	9005	c.8403C>T	c.(8401-8403)TAC>TAT	p.Y2801Y	SYNE1_uc003qot.3_Silent_p.Y2808Y|SYNE1_uc003qou.3_Silent_p.Y2801Y|SYNE1_uc010kjb.1_Silent_p.Y2784Y	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2801	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTGTCTTTTCGTAGAGCTCCC	0.463										HNSCC(10;0.0054)			16	110					0	0	0.006122	0	0		A	152708291	A	A	152708291	2	1	170	1	0	0	0	0	0	0	0	1	15470	1140	40	1		1	SYNE1	6	152708291	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	36832	152708291	18406776	50	89691											
RPS6KA2	6196	broad.mit.edu	37	chr6	166844054	166844054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccaggagctccccaccacGcatcagctccattaccaggt	9	7	8	17	1	1	0	1	0	0	0	4	1	4	1	6	2	3	3	6	2	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr6:166844054G>A	uc003qvb.1	-	16	1687	c.1468C>T	c.(1468-1470)CGT>TGT	p.R490C	RPS6KA2_uc011ego.1_Missense_Mutation_p.R401C|RPS6KA2_uc010kkl.1_Missense_Mutation_p.R401C|RPS6KA2_uc003qvc.1_Missense_Mutation_p.R498C|RPS6KA2_uc003qvd.1_Missense_Mutation_p.R515C	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	490	Protein kinase 2.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		TCCCCACCACGCATCAGCTCC	0.582													8	57					0	0	0.00308	0	0		A	166844054	A	A	166844054	3	1	170	1	0	0	0	0	1	0	0	0	13676	1087	38	1	757	1	RPS6KA2	6	166844054	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	14135763	166844054	4271013	51	89692											
FBXL13	222235	broad.mit.edu	37	chr7	102453857	102453857	+	Missense_Mutation	SNP	A	T	T	1	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	ttctaaggctcctttagatgAtgttatgttgtcaagctctg	8	17	9	7	0	3	2	1	1	2	1	4	2	4	2	1	1	1	4	1	1	4	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr7:102453857A>T	uc003vaq.2	-	20	2567	c.2140T>A	c.(2140-2142)TCA>ACA	p.S714T	FBXL13_uc010liq.1_Missense_Mutation_p.S247T|FBXL13_uc010lir.1_Missense_Mutation_p.S669T|FBXL13_uc003var.2_RNA|FBXL13_uc003vas.2_Missense_Mutation_p.S686T|FAM185A_uc011klh.1_Intron	NM_145032	NP_659469	Q8NEE6	FXL13_HUMAN	F-box and leucine-rich repeat protein 13 isoform	714											0						CCTTTAGATGATGTTATGTTG	0.423													16	110					0	0	0.004007	0	0		T	102453857	T	T	102453857	3	4	170	1	0	0	0	0	1	0	0	0	5723	333	12	5	71	5	FBXL13	7	102453857	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08		102453857	56684806	52	89693											
SLC37A3	84255	broad.mit.edu	37	chr7	140037083	140037083	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttaaaggggcacacacttaCcatgagaatgaaaaagtaga	18	8	9	6	0	0	3	0	2	0	2	0	4	0	3	1	2	1	2	1	2	7	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr7:140037083C>T	uc003vvo.2	-	14	1558	c.1392_splice	c.e14+1	p.M464_splice	SLC37A3_uc003vvn.2_Intron|SLC37A3_uc003vvp.2_Splice_Site_p.D364_splice|SLC37A3_uc010lnh.2_Splice_Site_p.M448_splice	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate						carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					CACACACTTACCATGAGAATG	0.323													3	24					0	0	0.000602	0	0		T	140037083	T	T	140037083	5	4	170	1	0	0	0	0	0	0	1	0	14624	521	18	4	248	4	SLC37A3	7	140037083	Splice_Site	SNP	C	TCGA-D7-6524-01A-11D-1800-08	37583226	140037083	19101580	53	89694											
MGAM	8972	broad.mit.edu	37	chr7	141727496	141727496	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaaccttagacaacatgagGgaagtcgtggagagaaatcg	15	6	14	6	2	0	3	0	1	0	2	2	7	0	6	1	3	2	0	1	3	5	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr7:141727496G>A	uc003vwy.2	+	10	1236	c.1182G>A	c.(1180-1182)AGG>AGA	p.R394R		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	394	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	ACAACATGAGGGAAGTCGTGG	0.453													7	42					0	0	0.001984	0	0		A	141727496	A	A	141727496	2	1	170	1	0	0	0	0	0	0	0	1	9559	1223	43	4		4	MGAM	7	141727496	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	1690413	141727496	17411167	54	89695											
DLGAP2	9228	broad.mit.edu	37	chr8	1626397	1626397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacacggacgttttaaacGttctaacagcgtcacggccg	11	8	10	12	6	2	1	1	0	1	1	2	2	2	2	1	2	3	2	1	2	3	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr8:1626397G>A	uc003wpl.2	+	9	2163	c.2066G>A	c.(2065-2067)CGT>CAT	p.R689H	DLGAP2_uc003wpm.2_Missense_Mutation_p.R675H	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	768					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		CGTTTTAAACGTTCTAACAGC	0.557													6	64					0	0	0.00308	0	0		A	1626397	A	A	1626397	3	1	170	1	0	0	0	0	1	0	0	0	4566	1145	40	1	2096	1	DLGAP2	8	1626397	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		1626397	144737625	55	89696											
NKX3-1	4824	broad.mit.edu	37	chr8	23538802	23538802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtaaggatagctgttatacaCggagaccagggaggcccggg	11	6	16	8	2	0	1	0	0	0	1	0	4	0	3	2	5	2	3	2	5	4	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr8:23538802C>T	uc011kzx.1	-	2	685	c.637G>A	c.(637-639)GTG>ATG	p.V213M	NKX3-1_uc003xdv.1_Intron	NM_006167	NP_006158	Q99801	NKX31_HUMAN	NK3 homeobox 1	213					negative regulation of estrogen receptor binding|negative regulation of transcription, DNA-dependent|positive regulation of cell division|positive regulation of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter	nucleus	estrogen receptor activity|estrogen receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region sequence-specific DNA binding				0		Prostate(55;0.114)		Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)|BRCA - Breast invasive adenocarcinoma(99;0.0708)		CTGTTATACACGGAGACCAGG	0.547													15	87					0	0	0.003163	0	0		T	23538802	T	T	23538802	3	4	170	1	0	0	0	0	1	0	0	0	10474	536	19	1	71	1	NKX3-1	8	23538802	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	21912405	23538802	122825220	56	89697											
MYST3	7994	broad.mit.edu	37	chr8	41906091	41906091	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggcagcactgcctccGaataatgcagacacatcctt	12	7	8	14	1	0	2	0	0	0	2	2	3	2	2	4	1	3	3	4	1	2	2	rs141667008		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr8:41906091G>T	uc010lxb.2	-	3	949	c.405C>A	c.(403-405)TTC>TTA	p.F135L	MYST3_uc010lxc.2_Missense_Mutation_p.F135L|MYST3_uc003xon.3_Missense_Mutation_p.F135L|MYST3_uc010lxd.2_Missense_Mutation_p.F135L	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	135	H15.|Required for activation of RUNX1-1.|Required for nuclear localization.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CACTGCCTCCGAATAATGCAG	0.493													6	75					3.59834e-05	4.23675e-05	0.001168	1	0		T	41906091	T	T	41906091	3	4	170	1	0	0	0	0	1	0	0	0	10122	1049	37	5	5673	5	MYST3	8	41906091	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	18367289	41906091	104457931	57	89698											
TRPS1	7227	broad.mit.edu	37	chr8	116599450	116599450	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccagacacaggcgtcagCagccccaggcttgcttgggt	7	7	14	13	1	1	1	1	0	0	1	1	1	1	1	3	3	4	3	3	3	0	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr8:116599450C>A	uc003ynz.2	-	4	2898	c.2439G>T	c.(2437-2439)CTG>CTT	p.L813L	TRPS1_uc011lhy.1_Silent_p.L817L|TRPS1_uc003yny.2_Silent_p.L826L|TRPS1_uc010mcy.2_Silent_p.L813L	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	813	Mediates interaction with GLI3.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CAGGCGTCAGCAGCCCCAGGC	0.577									Langer-Giedion_syndrome				27	235					6.36457e-07	7.74357e-07	0.003954	1	0		A	116599450	A	A	116599450	2	1	170	1	0	0	0	0	0	0	0	1	16619	697	25	5		5	TRPS1	8	116599450	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	74693359	116599450	29764572	58	89699											
GLIPR2	152007	broad.mit.edu	37	chr9	36162426	36162426	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gggaaggcgtccgcaagtgaCgggtcctcctttgtggtggc	5	9	17	10	3	0	1	0	1	0	0	3	2	3	2	3	5	0	1	3	5	2	1	rs73648727	byFrequency	TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr9:36162426C>T	uc003zyz.2	+	5	406	c.372C>T	c.(370-372)GAC>GAT	p.D124D	GLIPR2_uc010mlf.1_3'UTR|GLIPR2_uc003zza.2_RNA|GLIPR2_uc003zyy.1_Intron	NM_022343	NP_071738	Q9H4G4	GAPR1_HUMAN	GLI pathogenesis-related 2	124				TGHFTAMVWKNTKKMGVGKASASDGSSFVVARYFPAGNVVN EGFFEENVLPPKK -> IRFFFFNFLLFLSKPLLYFSYF (in Ref. 3; BAC11019).		extracellular region|Golgi membrane				skin(3)|central_nervous_system(1)	4						CCGCAAGTGACGGGTCCTCCT	0.562													21	113					0	0	0.010504	0	0		T	36162426	T	T	36162426	2	4	170	1	0	0	0	0	0	0	0	1	6459	535	19	1		1	GLIPR2	9	36162426	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08		36162426	105051005	59	89700											
ZNF510	22869	broad.mit.edu	37	chr9	99521449	99521449	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaatgagatgatcttttcGccagaaggatttttcacatt	11	16	8	6	1	2	4	1	3	1	2	3	6	2	5	1	1	0	0	1	1	2	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr9:99521449G>A	uc004awn.1	-	6	1852	c.1663C>T	c.(1663-1665)CGA>TGA	p.R555*	ZNF510_uc004awo.1_Nonsense_Mutation_p.R555*	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	555	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				TGATCTTTTCGCCAGAAGGAT	0.413													17	114					0	0	0.004007	0	0		A	99521449	A	A	99521449	4	1	170	1	0	0	0	0	0	1	0	0	17979	1095	38	1	392	1	ZNF510	9	99521449	Nonsense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	63359023	99521449	41691982	60	89701											
TGFBR1	7046	broad.mit.edu	37	chr9	101891357	101891357	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgcaatcaggaccattgCaataaaatagaacttccaac	16	9	6	10	0	1	1	1	0	0	1	2	2	2	2	2	1	5	3	2	1	7	4	rs149417020		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr9:101891357C>A	uc004azc.2	+	2	394	c.318C>A	c.(316-318)TGC>TGA	p.C106*	TGFBR1_uc004azd.2_Nonsense_Mutation_p.C106*|TGFBR1_uc011lvc.1_Nonsense_Mutation_p.C37*|TGFBR1_uc004aze.2_Nonsense_Mutation_p.C37*	NM_004612	NP_004603	P36897	TGFR1_HUMAN	transforming growth factor, beta receptor I	106	Extracellular (Potential).				activation of MAPKK activity|anterior/posterior pattern formation|artery morphogenesis|collagen fibril organization|embryonic cranial skeleton morphogenesis|germ cell migration|heart development|kidney development|neuron fate commitment|palate development|parathyroid gland development|pathway-restricted SMAD protein phosphorylation|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|pharyngeal system development|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of cellular component movement|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of SMAD protein import into nucleus|positive regulation of survival gene product expression|positive regulation of transcription, DNA-dependent|response to cholesterol|thymus development|transforming growth factor beta receptor signaling pathway		ATP binding|I-SMAD binding|metal ion binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type I|type II transforming growth factor beta receptor binding			lung(2)|ovary(1)	3		Acute lymphoblastic leukemia(62;0.0559)				AGGACCATTGCAATAAAATAG	0.333													7	22					0.000442599	0.000508815	0.006214	1	0		A	101891357	A	A	101891357	4	1	170	1	0	0	0	0	0	1	0	0	15846	718	25	5	324	5	TGFBR1	9	101891357	Nonsense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	2369908	101891357	39322074	61	89702											
OR13F1	138805	broad.mit.edu	37	chr9	107266848	107266848	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggtgcgccactcagatgtAcctctcccttgccatgggct	6	10	11	14	1	2	1	1	0	1	1	3	1	2	1	4	2	3	2	4	2	1	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr9:107266848A>G	uc011lvm.1	+	1	305	c.305A>G	c.(304-306)TAC>TGC	p.Y102C		NM_001004485	NP_001004485	Q8NGS4	O13F1_HUMAN	olfactory receptor, family 13, subfamily F,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)|skin(1)	3						ACTCAGATGTACCTCTCCCTT	0.532													19	48					0	0	0.006122	0	0		G	107266848	G	G	107266848	3	3	170	1	0	0	0	0	1	0	0	0	10960	391	14	3	307	3	OR13F1	9	107266848	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08	5375491	107266848	33946583	62	89703											
PPAPDC3	84814	broad.mit.edu	37	chr9	134165439	134165439	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcaacaacgtcctcaacCgggctgagttcctgtccctg	8	8	9	16	3	1	1	1	1	0	0	4	1	4	1	5	1	3	3	5	1	3	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr9:134165439C>A	uc004cal.2	+	1	359	c.55C>A	c.(55-57)CGG>AGG	p.R19R		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	19	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CGTCCTCAACCGGGCTGAGTT	0.711													3	15					0.004672	0.00516752	0.004672	1	0		A	134165439	A	A	134165439	2	1	170	1	0	0	0	0	0	0	0	1	12315	643	23	5		5	PPAPDC3	9	134165439	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	26898591	134165439	7047992	63	89704											
ABI1	10006	broad.mit.edu	37	chr10	27040626	27040626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcatcttcataatccactgGtggtggtggtgggggaggtg	6	12	16	7	0	3	0	2	0	1	0	4	1	4	1	1	7	0	0	1	7	1	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr10:27040626G>A	uc001isx.2	-	11	1419	c.1252C>T	c.(1252-1254)CCA>TCA	p.P418S	ABI1_uc001ite.2_Missense_Mutation_p.P356S|ABI1_uc010qdh.1_Missense_Mutation_p.P298S|ABI1_uc010qdi.1_Missense_Mutation_p.P239S|ABI1_uc001isy.2_Missense_Mutation_p.P391S|ABI1_uc001ita.2_Missense_Mutation_p.P362S|ABI1_uc001isz.2_Missense_Mutation_p.P386S|ABI1_uc001itb.2_Missense_Mutation_p.P406S|ABI1_uc001itc.2_Missense_Mutation_p.P390S|ABI1_uc010qdj.1_Missense_Mutation_p.P332S|ABI1_uc001itd.2_Missense_Mutation_p.P361S|ABI1_uc010qdk.1_Missense_Mutation_p.P303S|ABI1_uc010qdg.1_Missense_Mutation_p.P228S	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	418	Pro-rich.				actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						TAATCCACTGGTGGTGGTGGT	0.483													7	57					0	0	0.00308	0	0		A	27040626	A	A	27040626	3	1	170	1	0	0	0	0	1	0	0	0	88	1261	44	4	282	4	ABI1	10	27040626	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		27040626	108494121	64	89705											
PCDH15	65217	broad.mit.edu	37	chr10	55569287	55569287	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatttcaacctttggttttTtaattttctttggctcttcc	6	23	4	8	0	3	0	1	0	2	0	4	0	4	0	2	2	1	2	2	2	3	10			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr10:55569287T>A	uc010qhu.1	-	36	4968	c.4573A>T	c.(4573-4575)AAA>TAA	p.K1525*	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Missense_Mutation_p.K1513I|PCDH15_uc010qht.1_Missense_Mutation_p.K1506I	NM_001142770	NP_001136242	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-2 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTTTGGTTTTTTAATTTTCTT	0.413										HNSCC(58;0.16)			22	239					0	0	0.005443	0	0		A	55569287	A	A	55569287	4	1	170	1	0	0	0	0	0	1	0	0	11530	1850	64	5	1393	5	PCDH15	10	55569287	Nonsense_Mutation	SNP	T	TCGA-D7-6524-01A-11D-1800-08	28528661	55569287	79965460	65	89706											
PPP3CB	5532	broad.mit.edu	37	chr10	75206306	75206306	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgaattttgtttcttatGatttctttccgggctgcagc	5	18	9	9	2	2	1	0	1	2	0	4	2	3	1	1	1	2	4	1	1	2	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr10:75206306G>T	uc001jue.2	-	11	1347	c.1212C>A	c.(1210-1212)ATC>ATA	p.I404I	PPP3CB_uc001juf.2_Silent_p.I405I|PPP3CB_uc001jug.2_Silent_p.I405I|PPP3CB_uc001jui.2_Silent_p.I422I|PPP3CB_uc001juh.2_Silent_p.I319I|PPP3CB_uc010qkj.1_Silent_p.I32I	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	404	Calmodulin-binding (Potential).									skin(1)	1	Prostate(51;0.0119)					TGTTTCTTATGATTTCTTTCC	0.363													13	93					1.5739e-10	2.03353e-10	0.004007	1	0		T	75206306	T	T	75206306	2	4	170	1	0	0	0	0	0	0	0	1	12420	1280	45	5		5	PPP3CB	10	75206306	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	19637019	75206306	60328441	66	89707											
CUEDC2	79004	broad.mit.edu	37	chr10	104184490	104184490	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctcctctgatgggcccGaggggcccaggtcctccagg	5	8	14	14	1	2	1	0	1	2	0	5	2	4	1	5	5	0	1	5	5	0	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr10:104184490G>T	uc001kvn.2	-	3	285	c.134C>A	c.(133-135)TCG>TAG	p.S45*	CUEDC2_uc001kvm.2_5'Flank	NM_024040	NP_076945	Q9H467	CUED2_HUMAN	CUE domain containing 2	45						cytoplasm|nucleus	protein binding				0		Colorectal(252;0.122)		Epithelial(162;9.17e-09)|all cancers(201;2.16e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		TGATGGGCCCGAGGGGCCCAG	0.587													6	98					0.00307968	0.00345872	0.00308	1	0		T	104184490	T	T	104184490	4	4	170	1	0	0	0	0	0	1	0	0	4056	1059	37	5	757	5	CUEDC2	10	104184490	Nonsense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	28978184	104184490	31350257	67	89708											
EIF3A	8661	broad.mit.edu	37	chr10	120802094	120802094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggtcatcgtctgccccacGacgagagaacctatcttcct	8	9	8	16	4	3	1	1	0	2	1	5	4	4	1	5	1	2	0	5	1	2	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr10:120802094G>A	uc001ldu.2	-	19	3084	c.2938C>T	c.(2938-2940)CGT>TGT	p.R980C	EIF3A_uc010qsu.1_Missense_Mutation_p.R946C|EIF3A_uc009xzg.1_Missense_Mutation_p.R19C	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	980	Asp-rich.|25 X 10 AA approximate tandem repeats of [DE]-[DE]-[DE]-R-[SEVGFPILV]-[HPSN]- [RSW]-[RL]-[DRGTIHN]-[EPMANLGDT].|6.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		TCTGCCCCACGACGAGAGAAC	0.582													6	150					0	0	0.001168	0	0		A	120802094	A	A	120802094	3	1	170	1	0	0	0	0	1	0	0	0	5018	1058	37	1	1226	1	EIF3A	10	120802094	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	16617604	120802094	14732653	68	89709											
OR51Q1	390061	broad.mit.edu	37	chr11	5443929	5443929	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcccttttcttactcaagCgactgcctttctgccactcc	5	14	4	18	1	3	0	1	0	2	0	5	1	5	0	5	0	4	0	5	0	2	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:5443929C>T	uc010qzd.1	+	1	499	c.499C>T	c.(499-501)CGA>TGA	p.R167*	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004757	NP_001004757	Q8NH59	O51Q1_HUMAN	olfactory receptor, family 51, subfamily Q,	167	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.18e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTACTCAAGCGACTGCCTTT	0.517													26	233					0	0	0.003954	0	0		T	5443929	T	T	5443929	4	4	170	1	0	0	0	0	0	1	0	0	11123	760	27	1	501	1	OR51Q1	11	5443929	Nonsense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08		5443929	129562587	69	89710											
TRIM3	10612	broad.mit.edu	37	chr11	6478559	6478559	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacaaatggtctccaggtcGctgaccagagcctgcttgcg	8	8	11	14	2	1	2	0	1	1	1	3	2	1	2	4	2	3	2	4	2	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:6478559G>A	uc001mdh.2	-	6	1050	c.663C>T	c.(661-663)AGC>AGT	p.S221S	TRIM3_uc001mdi.2_Silent_p.S221S|TRIM3_uc010raj.1_Silent_p.S102S|TRIM3_uc009yfd.2_Silent_p.S221S|TRIM3_uc010rak.1_Silent_p.S221S|TRIM3_uc001mdj.2_Silent_p.S102S	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	221	Potential.				nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			central_nervous_system(2)|large_intestine(1)|ovary(1)|skin(1)	5		all_lung(207;9.97e-06)|Lung NSC(207;1.74e-05)|Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;9.34e-10)|Lung(200;0.0234)|LUSC - Lung squamous cell carcinoma(625;0.133)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTCCAGGTCGCTGACCAGAG	0.572													19	135					0	0	0.010504	0	0		A	6478559	A	A	6478559	2	1	170	1	0	0	0	0	0	0	0	1	16530	1078	38	1		1	TRIM3	11	6478559	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	1034630	6478559	128527957	70	89711											
OR4C13	283092	broad.mit.edu	37	chr11	49974543	49974543	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caatcttgcctgcactaataCccacactctaggactcttca	11	11	4	15	0	4	0	1	0	3	0	4	1	4	1	2	1	3	1	2	1	4	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:49974543C>A	uc010rhz.1	+	1	569	c.569C>A	c.(568-570)ACC>AAC	p.T190N		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	190	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TGCACTAATACCCACACTCTA	0.438													21	151					1.96292e-10	2.51392e-10	0.010504	1	0		A	49974543	A	A	49974543	3	1	170	1	0	0	0	0	1	0	0	0	11066	507	18	5	571	5	OR4C13	11	49974543	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	43495984	49974543	85031973	71	89712											
MAP3K11	4296	broad.mit.edu	37	chr11	65374207	65374207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggcgaatccccaggccCgacctcgaagacgtttctcc	7	7	12	15	4	1	1	0	0	1	1	4	4	2	1	5	3	0	1	5	3	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:65374207C>T	uc001oew.2	-	6	2051	c.1558G>A	c.(1558-1560)GGG>AGG	p.G520R	MAP3K11_uc001oev.2_5'UTR|MAP3K11_uc010rol.1_Missense_Mutation_p.G263R|MAP3K11_uc001oex.1_Missense_Mutation_p.G27R	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	520					activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						TCCCCAGGCCCGACCTCGAAG	0.612													19	105					0	0	0.00278	0	0		T	65374207	T	T	65374207	3	4	170	1	0	0	0	0	1	0	0	0	9263	652	23	1	1005	1	MAP3K11	11	65374207	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	15399664	65374207	69632309	72	89713											
CABP2	51475	broad.mit.edu	37	chr11	67287547	67287547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggcgtcccgtagctccCggacaccgatcatgtctgcc	7	7	12	15	4	2	0	1	0	1	0	4	3	4	2	4	3	2	2	4	3	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:67287547C>T	uc001omc.1	-	5	566	c.464G>A	c.(463-465)CGG>CAG	p.R155Q	CABP2_uc001omd.1_Missense_Mutation_p.R98Q|CABP2_uc001ome.1_Missense_Mutation_p.R161Q	NM_016366	NP_057450	Q9NPB3	CABP2_HUMAN	calcium binding protein 2 isoform 1	155	EF-hand 3.				signal transduction	Golgi apparatus|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1						CCGTAGCTCCCGGACACCGAT	0.667													4	41					0	0	0.009096	0	0		T	67287547	T	T	67287547	3	4	170	1	0	0	0	0	1	0	0	0	2535	652	23	1	210	1	CABP2	11	67287547	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	1913340	67287547	67718969	73	89714											
CPT1A	1374	broad.mit.edu	37	chr11	68560791	68560791	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcttgactcacctgtctccTctcctgggatccgggaagta	7	11	10	13	1	3	1	1	1	2	0	6	3	4	3	4	2	1	2	4	2	2	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:68560791T>C	uc001oog.3	-	9	1129	c.959A>G	c.(958-960)GAG>GGG	p.E320G	CPT1A_uc001oof.3_Missense_Mutation_p.E320G|CPT1A_uc009ysj.2_Missense_Mutation_p.E320G	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	320	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	ACCTGTCTCCTCTCCTGGGAT	0.478													4	16					0	0	0.000602	0	0		C	68560791	C	C	68560791	3	2	170	1	0	0	0	0	1	0	0	0	3834	1551	54	3	1446	3	CPT1A	11	68560791	Missense_Mutation	SNP	T	TCGA-D7-6524-01A-11D-1800-08	1273244	68560791	66445725	74	89715											
FOLH1B	219595	broad.mit.edu	37	chr11	89424640	89424640	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttttctgcagtaaaaaaTtttacagaaattgcttccaa	14	16	4	7	0	1	1	0	0	1	1	2	1	2	1	1	0	3	3	1	0	6	8			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:89424640T>A	uc001pda.2	+	12	1516	c.990T>A	c.(988-990)AAT>AAA	p.N330K		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	330					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						CAGTAAAAAATTTTACAGAAA	0.269													10	60					0	0	0.013537	0	0		A	89424640	A	A	89424640	3	1	170	1	0	0	0	0	1	0	0	0	5994	1490	52	5	1028	5	FOLH1B	11	89424640	Missense_Mutation	SNP	T	TCGA-D7-6524-01A-11D-1800-08	20863849	89424640	45581876	75	89716											
HEPHL1	341208	broad.mit.edu	37	chr11	93796676	93796676	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aattttattttttggaaggaGccctatacccagatggaaca	13	13	8	7	0	0	1	0	0	0	1	0	4	0	4	2	3	3	0	2	3	6	7			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:93796676G>T	uc001pep.2	+	3	575	c.418G>T	c.(418-420)GCC>TCC	p.A140S		NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	140	Plastocyanin-like 1.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				tttGGAAGGAGCCCTATACCC	0.279													3	11					0.004672	0.00516752	0.004672	1	0		T	93796676	T	T	93796676	3	4	170	1	0	0	0	0	1	0	0	0	7071	971	34	5	428	5	HEPHL1	11	93796676	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	4372036	93796676	41209840	76	89717											
PDGFD	80310	broad.mit.edu	37	chr11	103797732	103797732	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	atttcctccacagcgctgcaCgaggaggcaacgtggaaaga	12	6	12	11	3	0	1	0	0	0	1	2	4	2	3	2	3	3	3	2	3	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:103797732C>A	uc001phq.2	-	6	1267	c.895G>T	c.(895-897)GTG>TTG	p.V299L	PDGFD_uc001php.2_Missense_Mutation_p.V293L	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	299					positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		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)		CAGCGCTGCACGAGGAGGCAA	0.483													4	66					0.00024832	0.000287736	0.009096	1	0		A	103797732	A	A	103797732	3	1	170	1	0	0	0	0	1	0	0	0	11679	536	19	5	225	5	PDGFD	11	103797732	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	10001056	103797732	31208784	77	89718											
TECTA	7007	broad.mit.edu	37	chr11	121028582	121028582	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggaacagcgactgcacGcggcgctgccgctgtttccg	5	10	13	13	6	0	0	0	0	0	0	1	2	1	1	2	2	4	4	2	2	1	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:121028582G>A	uc010rzo.1	+	13	4338	c.4338G>A	c.(4336-4338)ACG>ACA	p.T1446T		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1446					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GCGACTGCACGCGGCGCTGCC	0.617													10	81					0	0	0.008291	0	0		A	121028582	A	A	121028582	2	1	170	1	0	0	0	0	0	0	0	1	15772	1074	38	1		1	TECTA	11	121028582	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	17230850	121028582	13977934	78	89719											
NCAPD3	23310	broad.mit.edu	37	chr11	134062600	134062600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctacctcagttcctggctttCggtggtgaggagagtaagaa	9	11	13	8	1	1	3	1	1	0	2	3	4	2	3	2	4	1	3	2	4	3	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr11:134062600C>T	uc001qhd.1	-	16	2635	c.2029G>A	c.(2029-2031)GAA>AAA	p.E677K	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	677					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		TCCTGGCTTTCGGTGGTGAGG	0.507													13	68					0	0	0.001855	0	0		T	134062600	T	T	134062600	3	4	170	1	0	0	0	0	1	0	0	0	10225	893	31	1	2547	1	NCAPD3	11	134062600	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	13034018	134062600	943916	79	89720											
FAM90A1	55138	broad.mit.edu	37	chr12	8376676	8376676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agggttcgcttcaacctgggGcttccatggtttcaggtttt	5	15	12	9	1	2	0	2	0	0	0	4	0	3	0	2	5	1	5	2	5	1	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:8376676G>A	uc001qui.2	-	5	818	c.259C>T	c.(259-261)CCC>TCC	p.P87S	FAM90A1_uc001quh.2_Missense_Mutation_p.P87S	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	87							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		TCAACCTGGGGCTTCCATGGT	0.547													21	134					0	0	0.012319	0	0		A	8376676	A	A	8376676	3	1	170	1	0	0	0	0	1	0	0	0	5664	1203	42	2	1147	2	FAM90A1	12	8376676	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		8376676	125475219	80	89721											
ADAMTS20	80070	broad.mit.edu	37	chr12	43750286	43750286	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttttggtcccgcaggacttaCctctgatcttcgtatgctga	6	15	9	11	2	2	2	0	2	2	0	4	3	3	3	2	2	2	3	2	2	2	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:43750286C>T	uc010skx.1	-	38	5643	c.5643_splice	c.e38+1	p.E1881_splice		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with							proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		GCAGGACTTACCTCTGATCTT	0.403													6	15					0	0	0.001168	0	0		T	43750286	T	T	43750286	5	4	170	1	0	0	0	0	0	0	1	0	266	521	18	4	95	4	ADAMTS20	12	43750286	Splice_Site	SNP	C	TCGA-D7-6524-01A-11D-1800-08	35373610	43750286	90101609	81	89722											
KRT81	3887	broad.mit.edu	37	chr12	52682158	52682158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcacctcctcatacagcCgcctcaggaagtcgatctcc	8	7	7	19	3	3	0	2	0	1	0	6	2	4	1	6	1	2	1	6	1	2	1	rs148570041		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:52682158C>T	uc001sab.2	-	4	772	c.722G>A	c.(721-723)CGG>CAG	p.R241Q	KRT86_uc010snq.1_Intron|KRT86_uc009zmg.2_Intron|KRT81_uc001sac.2_Intron	NM_002281	NP_002272	Q14533	KRT81_HUMAN	keratin, hair, basic, 1	241	Coil 1B.|Rod.					keratin filament	protein binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTCATACAGCCGCCTCAGGAA	0.622													12	84					0	0	0.010729	0	0		T	52682158	T	T	52682158	3	4	170	1	0	0	0	0	1	0	0	0	8511	652	23	1	819	1	KRT81	12	52682158	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	8931872	52682158	81169737	82	89723											
KRT73	319101	broad.mit.edu	37	chr12	53002086	53002086	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tcctggcttccccacgggggCtacagttcccactgccagtg	5	9	11	16	1	0	0	0	0	0	0	3	0	3	0	5	3	2	3	5	3	1	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:53002086C>A	uc001sas.2	-	9	1552	c.1517G>T	c.(1516-1518)AGC>ATC	p.S506I		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	506	Tail.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCCACGGGGGCTACAGTTCCC	0.597													12	62					1.08611e-07	1.33254e-07	0.010729	1	0		A	53002086	A	A	53002086	3	1	170	1	0	0	0	0	1	0	0	0	8502	797	28	5	109	5	KRT73	12	53002086	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	319928	53002086	80849809	83	89724											
MBD6	114785	broad.mit.edu	37	chr12	57920417	57920417	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgcttcaaagcccatccGaaggactggggatgggggca	9	7	15	10	1	1	0	1	0	0	0	2	3	2	2	2	5	2	2	2	5	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:57920417G>A	uc001soj.1	+	7	1713	c.1489G>A	c.(1489-1491)GAA>AAA	p.E497K	MBD6_uc001sok.1_Missense_Mutation_p.E364K|MBD6_uc001sol.1_RNA	NM_052897	NP_443129	Q96DN6	MBD6_HUMAN	methyl-CpG binding domain protein 6	497	Pro-rich.					chromosome|nucleus	chromatin binding|DNA binding			central_nervous_system(3)|ovary(1)	4						AAGCCCATCCGAAGGACTGGG	0.647													4	90					0	0	0.009096	0	0		A	57920417	A	A	57920417	3	1	170	1	0	0	0	0	1	0	0	0	9366	1059	37	1	1507	1	MBD6	12	57920417	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	4918331	57920417	75931478	84	89725											
POLR3B	55703	broad.mit.edu	37	chr12	106897897	106897897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcgtgatggtggcttgcGtctcggggaaatggaacgtg	6	11	17	7	4	2	1	0	1	2	0	4	3	2	3	0	5	2	1	0	5	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:106897897G>A	uc001tlp.2	+	27	3359	c.3137G>A	c.(3136-3138)CGT>CAT	p.R1046H	POLR3B_uc001tlq.2_Missense_Mutation_p.R988H	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	1046					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						GGTGGCTTGCGTCTCGGGGAA	0.388													26	133					0	0	0.003954	0	0		A	106897897	A	A	106897897	3	1	170	1	0	0	0	0	1	0	0	0	12248	1145	40	1	3243	1	POLR3B	12	106897897	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	48977480	106897897	26953998	85	89726											
FOXN4	121643	broad.mit.edu	37	chr12	109723285	109723285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcagagacaggttgtgcCgcaccgagttcttccacccg	7	10	11	13	3	2	1	1	0	1	1	3	3	3	1	4	1	1	4	4	1	0	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:109723285C>T	uc001toe.3	-	8	830	c.725G>A	c.(724-726)CGG>CAG	p.R242Q	FOXN4_uc009zvg.2_Missense_Mutation_p.R39Q|FOXN4_uc001tof.3_Missense_Mutation_p.R62Q	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	242	Fork-head.				axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|lung(1)	2						CAGGTTGTGCCGCACCGAGTT	0.612													4	49					0	0	0.009096	0	0		T	109723285	T	T	109723285	3	4	170	1	0	0	0	0	1	0	0	0	6036	652	23	1	840	1	FOXN4	12	109723285	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	2825388	109723285	24128610	86	89727											
MYO1H	283446	broad.mit.edu	37	chr12	109872885	109872885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagaactctgtttgctaccGaagatgcctttgaatttagt	10	14	8	9	1	1	3	0	1	1	2	1	4	1	3	3	0	4	2	3	0	5	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:109872885G>A	uc010sxn.1	+	20	2059	c.2059G>A	c.(2059-2061)GAA>AAA	p.E687K		NM_001101421	NP_001094891	Q8N1T3	MYO1H_HUMAN	myosin 1H	Error:Variant_position_missing_in_B4DNW6_after_alignment						myosin complex	motor activity				0						GTTTGCTACCGAAGATGCCTT	0.333													6	37					0	0	0.001984	0	0		A	109872885	A	A	109872885	3	1	170	1	0	0	0	0	1	0	0	0	10093	1059	37	1	2137	1	MYO1H	12	109872885	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	149600	109872885	23979010	87	89728											
GOLGA3	2802	broad.mit.edu	37	chr12	133358998	133358998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgtaagcttccctttctCgtgctctaattcaagagcca	8	12	7	14	2	3	1	1	0	2	1	5	1	4	1	3	0	3	3	3	0	3	5	rs151069773		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr12:133358998C>T	uc001ukz.1	-	17	3908	c.3349G>A	c.(3349-3351)GAG>AAG	p.E1117K	GOLGA3_uc001ula.1_Missense_Mutation_p.E1117K	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1117	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		TTCCCTTTCTCGTGCTCTAAT	0.488													21	147					0	0	0.010504	0	0		T	133358998	T	T	133358998	3	4	170	1	0	0	0	0	1	0	0	0	6569	893	31	1	1179	1	GOLGA3	12	133358998	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	23486113	133358998	492897	88	89729											
TRPC4	7223	broad.mit.edu	37	chr13	38266344	38266344	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaggtagcacacagagaaGacaggaaaaagaagtcctat	19	5	10	7	0	1	3	1	0	0	3	2	5	2	4	1	2	1	2	1	2	6	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr13:38266344G>T	uc001uws.2	-	4	1261	c.1026C>A	c.(1024-1026)GTC>GTA	p.V342V	TRPC4_uc010abv.2_Intron|TRPC4_uc001uwt.2_Silent_p.V342V|TRPC4_uc010tey.1_Silent_p.V342V|TRPC4_uc010abw.2_Silent_p.V169V|TRPC4_uc010abx.2_Silent_p.V342V|TRPC4_uc010aby.2_Silent_p.V342V	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	342	Helical; (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		ACACAGAGAAGACAGGAAAAA	0.468													5	47					0.000602214	0.000686901	0.000602	1	0		T	38266344	T	T	38266344	2	4	170	1	0	0	0	0	0	0	0	1	16606	929	33	5		5	TRPC4	13	38266344	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08		38266344	76903534	89	89730											
SUGT1	10910	broad.mit.edu	37	chr13	53254280	53254280	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagtgaaacgtgccatgaAcaaatcctttgtaagaatat	16	11	8	6	1	0	4	0	3	0	1	1	4	1	4	2	0	3	1	2	0	7	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr13:53254280A>G	uc001vhc.2	+	13	1211	c.986A>G	c.(985-987)AAC>AGC	p.N329S	SUGT1_uc001vha.2_RNA|SUGT1_uc001vhb.2_Missense_Mutation_p.N297S|SUGT1_uc010thb.1_Missense_Mutation_p.N241S|SUGT1_uc001vhd.2_Missense_Mutation_p.N186S	NM_001130912	NP_001124384	Q9Y2Z0	SUGT1_HUMAN	suppressor of G2 allele of SKP1 isoform a	329	SGS.				mitosis	kinetochore|ubiquitin ligase complex	binding				0		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.25e-08)		CGTGCCATGAACAAATCCTTT	0.323													3	151					0	0	0.004672	0	0		G	53254280	G	G	53254280	3	3	170	1	0	0	0	0	1	0	0	0	15394	43	2	3	1036	3	SUGT1	13	53254280	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08	14987936	53254280	61915598	90	89731											
SLITRK1	114798	broad.mit.edu	37	chr13	84454165	84454165	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagtttagagagcgagaccCcagcgaacacgtccacaggc	12	5	12	12	3	0	3	0	1	0	2	1	6	1	3	3	1	3	1	3	1	2	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr13:84454165C>G	uc001vlk.2	-	1	2364	c.1478G>C	c.(1477-1479)GGG>GCG	p.G493A		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	493	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GAGCGAGACCCCAGCGAACAC	0.547													8	70					0	0	0.004482	0	0		G	84454165	G	G	84454165	3	3	170	1	0	0	0	0	1	0	0	0	14767	623	22	5	616	5	SLITRK1	13	84454165	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	31199885	84454165	30715713	91	89732											
SLITRK6	84189	broad.mit.edu	37	chr13	86370028	86370028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccaatattcggccaatgtGttcgagaaaaccaacataag	16	9	7	9	2	0	1	0	0	0	1	3	2	1	1	3	1	2	1	3	1	7	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr13:86370028G>A	uc001vll.1	-	2	1075	c.616C>T	c.(616-618)CAC>TAC	p.H206Y	SLITRK6_uc010afe.1_5'UTR	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	206	Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		CGGCCAATGTGTTCGAGAAAA	0.408													16	82					0	0	0.007413	0	0		A	86370028	A	A	86370028	3	1	170	1	0	0	0	0	1	0	0	0	14772	1377	48	4	1913	4	SLITRK6	13	86370028	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	1915863	86370028	28799850	92	89733											
ZIC5	85416	broad.mit.edu	37	chr13	100622658	100622658	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcttggcgccgccggcCgggggcggtggcggcggcgg	1	3	24	13	8	0	0	0	0	0	0	0	0	0	0	3	10	0	1	3	10	0	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr13:100622658C>T	uc001vom.1	-	1	1521	c.1272G>A	c.(1270-1272)CCG>CCA	p.P424P		NM_033132	NP_149123	Q96T25	ZIC5_HUMAN	zinc finger protein of the cerebellum 5	424	Pro-rich.				cell differentiation	nucleus	DNA binding|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CGCCGCCGGCcgggggcggtg	0.493													5	7					0	0	0.000602	0	0		T	100622658	T	T	100622658	2	4	170	1	0	0	0	0	0	0	0	1	17707	639	23	1		1	ZIC5	13	100622658	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	14252630	100622658	14547220	93	89734											
NIN	51199	broad.mit.edu	37	chr14	51226755	51226755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaggccttccctctccCgctcaaagcttgcttgagcc	6	11	8	16	1	3	2	1	2	2	0	5	2	4	2	4	1	3	3	4	1	2	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr14:51226755C>T	uc001wym.2	-	17	2410	c.2219G>A	c.(2218-2220)CGG>CAG	p.R740Q	NIN_uc001wyi.2_Missense_Mutation_p.R740Q|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.R740Q|NIN_uc010tqp.1_Missense_Mutation_p.R746Q|NIN_uc001wyo.2_Missense_Mutation_p.R740Q	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	740	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TTCCCTCTCCCGCTCAAAGCT	0.542			T	PDGFRB	MPD								16	147					0	0	0.004007	0	0		T	51226755	T	T	51226755	3	4	170	1	0	0	0	0	1	0	0	0	10436	652	23	1	4390	1	NIN	14	51226755	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08		51226755	56122785	94	89735											
NID2	22795	broad.mit.edu	37	chr14	52478332	52478332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcacggctgattgtccGtccagcaacatctgtccagt	9	9	9	14	2	1	1	0	1	1	0	4	1	4	1	4	1	3	3	4	1	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr14:52478332G>A	uc001wzo.2	-	17	3724	c.3490C>T	c.(3490-3492)CGG>TGG	p.R1164W	NID2_uc010tqs.1_Missense_Mutation_p.R1116W|NID2_uc010tqt.1_Missense_Mutation_p.R1164W	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1164	LDL-receptor class B 1.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTGATTGTCCGTCCAGCAACA	0.488													20	124					0	0	0.008871	0	0		A	52478332	A	A	52478332	3	1	170	1	0	0	0	0	1	0	0	0	10434	1144	40	1	661	1	NID2	14	52478332	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	1251577	52478332	54871208	95	89736											
SYT16	83851	broad.mit.edu	37	chr14	62567184	62567184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcaagacgtccattcggcGtggtcagcccaatcctgtct	7	11	10	13	3	2	1	1	0	1	1	5	1	4	1	3	2	2	1	3	2	2	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr14:62567184G>A	uc001xfu.1	+	6	1894	c.1697G>A	c.(1696-1698)CGT>CAT	p.R566H	SYT16_uc010tse.1_Missense_Mutation_p.R124H	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	566	C2 2.									central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		TCCATTCGGCGTGGTCAGCCC	0.463													9	27					0	0	0.004482	0	0		A	62567184	A	A	62567184	3	1	170	1	0	0	0	0	1	0	0	0	15497	1145	40	1	1719	1	SYT16	14	62567184	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	10088852	62567184	44782356	96	89737											
ESR2	2100	broad.mit.edu	37	chr14	64723960	64723960	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacctgtccagaacaagatCtggagcaaagatgagcttgc	13	8	10	10	0	2	4	1	1	1	3	3	5	3	5	2	1	4	2	2	1	3	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr14:64723960C>A	uc001xha.1	-	6	1543	c.1075G>T	c.(1075-1077)GAT>TAT	p.D359Y	ESR2_uc001xgu.2_Missense_Mutation_p.D359Y|ESR2_uc001xgv.2_Missense_Mutation_p.D359Y|ESR2_uc001xgw.2_Intron|ESR2_uc001xgx.2_Missense_Mutation_p.D359Y|ESR2_uc001xgy.1_Missense_Mutation_p.D359Y|ESR2_uc001xgz.1_Missense_Mutation_p.D359Y|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Intron|ESR2_uc010aqd.1_RNA	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	359	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	AGAACAAGATCTGGAGCAAAG	0.493													29	131					7.26314e-15	9.72861e-15	0.007291	1	0		A	64723960	A	A	64723960	3	1	170	1	0	0	0	0	1	0	0	0	5265	913	32	5	619	5	ESR2	14	64723960	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	2156776	64723960	42625580	97	89738											
LTBP2	4053	broad.mit.edu	37	chr14	74976494	74976494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttctcacaggcagagcaggCgaaggagccctccgtgttga	9	7	14	11	2	1	2	1	1	1	1	3	4	2	3	2	3	2	4	2	3	1	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr14:74976494C>T	uc001xqa.2	-	21	3607	c.3220G>A	c.(3220-3222)GCC>ACC	p.A1074T		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1074	EGF-like 9; calcium-binding (Potential).|Cys-rich.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		GCAGAGCAGGCGAAGGAGCCC	0.587													11	78					0	0	0.008291	0	0		T	74976494	T	T	74976494	3	4	170	1	0	0	0	0	1	0	0	0	9092	768	27	1	2309	1	LTBP2	14	74976494	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	10252534	74976494	32373046	98	89739											
SPTBN5	51332	broad.mit.edu	37	chr15	42164501	42164501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggttatggtgtcctcaccGtgtggccgccaactcctgca	5	10	13	13	2	1	0	1	0	0	0	3	0	3	0	5	4	2	2	5	4	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr15:42164501G>A	uc001zos.2	-	27	5392	c.5059C>T	c.(5059-5061)CGG>TGG	p.R1687W		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1722	Spectrin 13.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		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)		TGTCCTCACCGTGTGGCCGCC	0.627													5	31					0	0	0.000602	0	0		A	42164501	A	A	42164501	3	1	170	1	0	0	0	0	1	0	0	0	15147	1159	40	1	6028	1	SPTBN5	15	42164501	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		42164501	60366891	99	89740											
NARFL	64428	broad.mit.edu	37	chr16	780495	780495	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagcgacctgcacactcCgagtccgtgccctgcagcca	9	5	10	17	3	0	0	0	0	0	0	2	2	2	0	5	0	6	3	5	0	1	0	rs142623781		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:780495C>T	uc002cjr.2	-	11	1365	c.1353G>A	c.(1351-1353)TCG>TCA	p.S451S	NARFL_uc002cjp.2_Silent_p.S349S|NARFL_uc002cjq.2_Silent_p.S349S|NARFL_uc002cjs.2_Silent_p.S233S	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	451					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				CTGCACACTCCGAGTCCGTGC	0.667													18	85					0	0	0.006122	0	0		T	780495	T	T	780495	2	4	170	1	0	0	0	0	0	0	0	1	10186	639	23	1		1	NARFL	16	780495	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08		780495	89574258	100	89741											
NTHL1	4913	broad.mit.edu	37	chr16	2096147	2096147	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	acctttgggggggcactggaGtcatagcagtgctcagtccc	7	9	14	11	0	2	0	2	0	0	0	3	1	3	1	2	4	2	3	2	4	1	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:2096147G>C	uc002col.1	-	2	379	c.360C>G	c.(358-360)GAC>GAG	p.D120E	NTHL1_uc002com.1_Missense_Mutation_p.D120E	NM_002528	NP_002519	P78549	NTHL1_HUMAN	nth endonuclease III-like 1	120					depyrimidination|nucleotide-excision repair, DNA incision, 5'-to lesion	nucleoplasm	4 iron, 4 sulfur cluster binding|double-stranded DNA binding|endonuclease activity|metal ion binding|oxidized pyrimidine base lesion DNA N-glycosylase activity|protein binding			lung(1)	1						GGGCACTGGAGTCATAGCAGT	0.582								BER_DNA_glycosylases					26	168					0	0	0.004656	0	0		C	2096147	C	C	2096147	3	2	170	1	0	0	0	0	1	0	0	0	10717	1020	36	5	598	5	NTHL1	16	2096147	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	1315652	2096147	88258606	101	89742											
ORAI3	93129	broad.mit.edu	37	chr16	30964856	30964856	+	Silent	SNP	G	T	T	0	0	1	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	atggtgcccacatcccgggtGcccgggactctggcaccagt	6	7	13	15	2	1	0	0	0	1	0	2	1	2	1	4	4	2	1	4	4	0	0			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:30964856G>T	uc002eac.2	+	2	785	c.579G>T	c.(577-579)GTG>GTT	p.V193V		NM_152288	NP_689501	Q9BRQ5	ORAI3_HUMAN	ORAI calcium release-activated calcium modulator	193						integral to membrane	protein binding				0						CATCCCGGGTGCCCGGGACTC	0.617											OREG0023742	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	292					4.0492e-12	5.37439e-12	0.006999	1	0		T	30964856	T	T	30964856	2	4	170	1	0	0	0	0	0	0	0	1	11278	1306	46	5		5	ORAI3	16	30964856	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	28868709	30964856	59389897	102	89743											
GPT2	84706	broad.mit.edu	37	chr16	46943744	46943744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggacgaggagaactgctgggCgctgaatgtgaatgagctcc	10	7	16	8	2	0	4	0	3	0	1	1	7	1	5	1	3	3	3	1	3	3	0			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:46943744C>T	uc002eel.2	+	6	819	c.725C>T	c.(724-726)GCG>GTG	p.A242V	GPT2_uc002eem.2_Missense_Mutation_p.A142V	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	242					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AACTGCTGGGCGCTGAATGTG	0.557													7	99					0	0	0.001984	0	0		T	46943744	T	T	46943744	3	4	170	1	0	0	0	0	1	0	0	0	6754	768	27	1	743	1	GPT2	16	46943744	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	15978888	46943744	43411009	103	89744											
CYLD	1540	broad.mit.edu	37	chr16	50830292	50830292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcccagaagtaggagagtActtgaagatgtctctggaag	13	9	13	6	0	1	4	0	1	1	3	2	6	1	5	1	2	2	2	1	2	5	3			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:50830292A>G	uc002egp.1	+	19	3159	c.2744A>G	c.(2743-2745)TAC>TGC	p.Y915C	CYLD_uc002egq.1_Missense_Mutation_p.Y912C|CYLD_uc002egr.1_Missense_Mutation_p.Y912C	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	915					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				GTAGGAGAGTACTTGAAGATG	0.478			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				8	78					0	0	0.004482	0	0		G	50830292	G	G	50830292	3	3	170	1	0	0	0	0	1	0	0	0	4146	391	14	3	2810	3	CYLD	16	50830292	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08	3886548	50830292	39524461	104	89745											
PLA2G15	23659	broad.mit.edu	37	chr16	68293500	68293500	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccaggcagcgagcacatCgagatgctggccaacgccac	10	4	12	15	3	0	1	0	0	0	1	1	3	0	1	3	2	5	3	3	2	1	0			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:68293500C>T	uc002evr.2	+	6	1262	c.1179C>T	c.(1177-1179)ATC>ATT	p.I393I	PLA2G15_uc010vld.1_3'UTR|PLA2G15_uc010vle.1_Silent_p.I299I|PLA2G15_uc010vlf.1_Silent_p.I193I|PLA2G15_uc002evs.2_Silent_p.I214I	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	393					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						GCGAGCACATCGAGATGCTGG	0.627													10	54					0	0	0.013537	0	0		T	68293500	T	T	68293500	2	4	170	1	0	0	0	0	0	0	0	1	12011	874	31	1		1	PLA2G15	16	68293500	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	17463208	68293500	22061253	105	89746											
TERF2	7014	broad.mit.edu	37	chr16	69418513	69418514	+	Missense_Mutation	DNP	GA	AT	AT																															accagttttctactggattcGaccactgcttctgtcagtgt																										TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:69418513_69418514GA>AT	uc002exd.2	-	3	574_575	c.449_450TC>AT	c.(448-450)GTC>GAT	p.V150D	TERF2_uc002exe.2_Missense_Mutation_p.V150D	NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	150	TRFH dimerization.				age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				TACTGGATTCGACCACTGCTTC	0.406													12	58					0	0	0.004672	0	0		AT	69418514	AT	AT	69418513	3	1	170	1	0	0	0	0	1	0	0	0	15787	1045	37	1	1084	1	TERF2	16	69418513	Missense_Mutation	DNP	GA	TCGA-D7-6524-01A-11D-1800-08	1125013	69418513	20936240	106	89747											
KCNG4	93107	broad.mit.edu	37	chr16	84270705	84270705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaagcaccagcttcccGgccgccaggaagctcacgat	10	5	11	15	3	1	1	1	0	0	1	2	3	2	2	4	2	4	4	4	2	2	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr16:84270705G>A	uc010voc.1	-	2	508	c.387C>T	c.(385-387)GCC>GCT	p.A129A	KCNG4_uc002fhu.1_Silent_p.A129A	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	129	Helical; Name=Segment S1; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						CCAGCTTCCCGGCCGCCAGGA	0.637													4	48					0	0	0.009096	0	0		A	84270705	A	A	84270705	2	1	170	1	0	0	0	0	0	0	0	1	8046	1103	39	1		1	KCNG4	16	84270705	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	14852192	84270705	6084048	107	89748											
ASGR1	432	broad.mit.edu	37	chr17	7077074	7077074	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcgttccagcggccgtcGtcggtgaagtgggcacagtc	5	9	15	12	6	0	1	0	1	0	0	6	1	1	1	2	3	1	2	2	3	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr17:7077074G>A	uc002ges.3	-	9	1190	c.780C>T	c.(778-780)GAC>GAT	p.D260D	ASGR1_uc010clx.1_3'UTR	NM_001671	NP_001662	P07306	ASGR1_HUMAN	asialoglycoprotein receptor 1	260	Extracellular (Probable).|C-type lectin.				receptor-mediated endocytosis	integral to plasma membrane	asialoglycoprotein receptor activity|metal ion binding|sugar binding			breast(1)|central_nervous_system(1)	2						AGCGGCCGTCGTCGGTGAAGT	0.657													15	87					0	0	0.004007	0	0		A	7077074	A	A	7077074	2	1	170	1	0	0	0	0	0	0	0	1	1040	1136	40	1		1	ASGR1	17	7077074	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08		7077074	74118136	108	89749											
POLR2A	5430	broad.mit.edu	37	chr17	7404941	7404941	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgaaccgcattcttaacgatGcccgagacaagactggctcc	11	8	9	13	3	1	3	0	1	1	2	2	5	2	3	3	1	3	2	3	1	3	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr17:7404941G>A	uc002ghf.3	+	14	2476	c.2242G>A	c.(2242-2244)GCC>ACC	p.A748T		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	748					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				TCTTAACGATGCCCGAGACAA	0.502													15	77					0	0	0.006122	0	0		A	7404941	A	A	7404941	3	1	170	1	0	0	0	0	1	0	0	0	12233	1319	46	2	2296	2	POLR2A	17	7404941	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	327867	7404941	73790269	109	89750											
CCDC42	146849	broad.mit.edu	37	chr17	8647479	8647479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatggatggggactccgacGccccctcaacattggggagt	9	7	14	11	2	1	1	1	0	0	1	2	5	2	4	3	5	1	0	3	5	1	1	rs143164438		TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr17:8647479G>A	uc002gln.2	-	2	334	c.107C>T	c.(106-108)GCG>GTG	p.A36V	CCDC42_uc002glo.2_Missense_Mutation_p.A36V	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	36										ovary(1)	1						GGACTCCGACGCCCCCTCAAC	0.547													13	67					0	0	0.00499	0	0		A	8647479	A	A	8647479	3	1	170	1	0	0	0	0	1	0	0	0	2817	1087	38	1	867	1	CCDC42	17	8647479	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	1242538	8647479	72547731	110	89751											
PIPOX	51268	broad.mit.edu	37	chr17	27380077	27380077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtttcccaaatattcggttgCccaggggagaagtggggctc	8	10	14	9	1	0	1	0	0	0	1	3	2	1	1	2	5	1	3	2	5	3	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr17:27380077C>T	uc002hdr.1	+	3	729	c.403C>T	c.(403-405)CCC>TCC	p.P135S		NM_016518	NP_057602	Q9P0Z9	SOX_HUMAN	pipecolic acid oxidase	135					tetrahydrofolate metabolic process	peroxisome	L-pipecolate oxidase activity|sarcosine oxidase activity				0	Lung NSC(42;0.015)		Epithelial(11;9.87e-06)|BRCA - Breast invasive adenocarcinoma(11;3.92e-05)|all cancers(11;5.59e-05)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)		Glycine(DB00145)	TATTCGGTTGCCCAGGGGAGA	0.498													19	72					0	0	0.012319	0	0		T	27380077	T	T	27380077	3	4	170	1	0	0	0	0	1	0	0	0	11962	739	26	2	413	2	PIPOX	17	27380077	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	18732598	27380077	53815133	111	89752											
CDH2	1000	broad.mit.edu	37	chr18	25572744	25572744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtatggggttgatccttatCggtcacagttagattagcta	9	15	11	6	1	1	2	1	1	0	1	3	2	2	2	1	3	1	4	1	3	5	6			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr18:25572744C>T	uc002kwg.2	-	9	1678	c.1219G>A	c.(1219-1221)GAT>AAT	p.D407N	CDH2_uc010xbn.1_Missense_Mutation_p.D376N	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	407	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						TGATCCTTATCGGTCACAGTT	0.502													13	75					0	0	0.013537	0	0		T	25572744	T	T	25572744	3	4	170	1	0	0	0	0	1	0	0	0	3108	884	31	1	1533	1	CDH2	18	25572744	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08		25572744	52504504	112	89753											
ZNF700	90592	broad.mit.edu	37	chr19	12059220	12059220	+	Silent	SNP	C	T	T	0	0	0	1	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	cctgaagtaaaatcatgtgaCagctttgtgtgtgcagaagt	12	12	11	6	0	1	3	1	2	0	1	1	3	1	3	1	0	2	3	1	0	4	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr19:12059220C>T	uc002msu.2	+	4	507	c.381C>T	c.(379-381)GAC>GAT	p.D127D	ZNF700_uc010xme.1_Silent_p.D145D|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AATCATGTGACAGCTTTGTGT	0.413													24	164					0	0	0.003954	0	0		T	12059220	T	T	12059220	2	4	170	1	0	0	0	0	0	0	0	1	18129	477	17	4		4	ZNF700	19	12059220	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08		12059220	47069763	113	89754											
CILP2	148113	broad.mit.edu	37	chr19	19655192	19655192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgacgttcgtggacccccGagacctcacctcggcggcgt	5	7	14	15	6	1	2	1	1	0	1	3	4	1	3	4	4	0	1	4	4	0	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr19:19655192G>A	uc002nmv.3	+	8	1923	c.1838G>A	c.(1837-1839)CGA>CAA	p.R613Q	CILP2_uc002nmw.3_Missense_Mutation_p.R619Q	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	613						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GTGGACCCCCGAGACCTCACC	0.697													18	120					0	0	0.008871	0	0		A	19655192	A	A	19655192	3	1	170	1	0	0	0	0	1	0	0	0	3433	1058	37	1	1868	1	CILP2	19	19655192	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	7595972	19655192	39473791	114	89755											
FCGBP	8857	broad.mit.edu	37	chr19	40368334	40368334	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgcccgccagtcttcgatGacaaccccagcggcctggca	7	7	11	16	3	1	1	0	1	1	0	2	2	1	1	5	2	3	1	5	2	1	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr19:40368334G>A	uc002omp.3	-	28	13022	c.13014C>T	c.(13012-13014)GTC>GTT	p.V4338V		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4338						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AGTCTTCGATGACAACCCCAG	0.647													9	177					0	0	0.013537	0	0		A	40368334	A	A	40368334	2	1	170	1	0	0	0	0	0	0	0	1	5792	1277	45	4		4	FCGBP	19	40368334	Silent	SNP	G	TCGA-D7-6524-01A-11D-1800-08	20713142	40368334	18760649	115	89756											
ZNF581	51545	broad.mit.edu	37	chr19	56156207	56156207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagtgctacagctgcccCgtgtgctcaagggtcttcga	10	9	11	11	2	2	0	1	0	1	0	3	1	2	0	2	1	5	3	2	1	4	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr19:56156207C>T	uc002qln.2	+	2	986	c.270C>T	c.(268-270)CCC>CCT	p.P90P	ZNF581_uc002qlq.2_Silent_p.P90P|CCDC106_uc002qlr.2_5'Flank	NM_016535	NP_057619	Q9P0T4	ZN581_HUMAN	zinc finger protein 581	90	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		ACAGCTGCCCCGTGTGCTCAA	0.587													12	57					0	0	0.010729	0	0		T	56156207	T	T	56156207	2	4	170	1	0	0	0	0	0	0	0	1	18038	639	23	1		1	ZNF581	19	56156207	Silent	SNP	C	TCGA-D7-6524-01A-11D-1800-08	15787873	56156207	2972776	116	89757											
PTPRA	5786	broad.mit.edu	37	chr20	2945695	2945695	+	Missense_Mutation	SNP	A	G	G	1	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	cttcagactctgacaatgggAccacaagaacagcaagcacc	15	5	8	13	0	2	3	1	1	1	2	2	4	2	4	2	1	3	2	2	1	4	1			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr20:2945695A>G	uc010zqb.1	+	5	655	c.262A>G	c.(262-264)ACC>GCC	p.T88A	PTPRA_uc002whj.2_Missense_Mutation_p.T88A|PTPRA_uc010zqc.1_Intron|PTPRA_uc002whk.2_Missense_Mutation_p.T88A|PTPRA_uc010zqd.1_Missense_Mutation_p.T99A|PTPRA_uc002whl.2_Missense_Mutation_p.T88A|PTPRA_uc002whm.2_5'UTR|PTPRA_uc002whn.2_Missense_Mutation_p.T88A			P18433	PTPRA_HUMAN	SubName: Full=cDNA FLJ60525, highly similar to Receptor-type tyrosine-protein phosphatase alpha (EC 3.1.3.48);	88	Extracellular (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						TGACAATGGGACCACAAGAAC	0.443													11	104					0	0	0.010729	0	0		G	2945695	G	G	2945695	3	3	170	1	0	0	0	0	1	0	0	0	12820	275	10	3	268	3	PTPRA	20	2945695	Missense_Mutation	SNP	A	TCGA-D7-6524-01A-11D-1800-08		2945695	60079825	117	89758											
BCAS1	8537	broad.mit.edu	37	chr20	52583468	52583468	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtctgagaaacgccatcaGagaggttcttggtttgcttt	8	15	11	7	1	3	2	1	1	2	2	3	4	3	2	1	2	2	3	1	2	1	5			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr20:52583468G>T	uc002xws.2	-	9	1665	c.1327C>A	c.(1327-1329)CTG>ATG	p.L443M	BCAS1_uc010zza.1_Intron|BCAS1_uc010zzb.1_Missense_Mutation_p.L391M|BCAS1_uc010gim.2_Intron|BCAS1_uc002xwt.2_Missense_Mutation_p.L429M|BCAS1_uc010gil.1_Intron	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	443						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	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)			AACGCCATCAGAGAGGTTCTT	0.423													23	283					9.90768e-06	1.19547e-05	0.004656	1	0		T	52583468	T	T	52583468	3	4	170	1	0	0	0	0	1	0	0	0	1351	933	33	5	443	5	BCAS1	20	52583468	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08	49637773	52583468	10442052	118	89759											
BRWD1	54014	broad.mit.edu	37	chr21	40608631	40608631	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaaatcgagtaattcgtcGacgacatgatgttcttaaag	15	11	8	7	4	1	1	0	1	1	0	4	4	1	1	0	0	0	2	0	0	5	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr21:40608631G>A	uc002yxk.1	-	23	2795	c.2656C>T	c.(2656-2658)CGA>TGA	p.R886*	BRWD1_uc010goc.1_5'UTR|BRWD1_uc002yxl.2_Nonsense_Mutation_p.R886*|BRWD1_uc010goe.1_RNA|BRWD1_uc010gof.1_Nonsense_Mutation_p.R339*|BRWD1_uc010gog.1_RNA|BRWD1_uc010goh.1_RNA|BRWD1_uc010goi.1_Nonsense_Mutation_p.R562*	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	886					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				GTAATTCGTCGACGACATGAT	0.393													10	62					0	0	0.010729	0	0		A	40608631	A	A	40608631	4	1	170	1	0	0	0	0	0	1	0	0	1528	1066	37	1	4625	1	BRWD1	21	40608631	Nonsense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		40608631	7521264	119	89760											
SGSM3	27352	broad.mit.edu	37	chr22	40803534	40803534	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tggactttgagcggcacgacGacgacgagctgggcttccgc	7	7	15	12	6	0	1	0	1	0	0	1	6	1	2	1	3	2	3	1	3	0	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chr22:40803534G>C	uc003ayu.1	+	13	1695	c.1486G>C	c.(1486-1488)GAC>CAC	p.D496H	SGSM3_uc011aos.1_Missense_Mutation_p.D429H|SGSM3_uc011aot.1_Missense_Mutation_p.D433H|SGSM3_uc010gyd.1_Missense_Mutation_p.D567H	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	496	SH3.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						GCGGCACGACGACGACGAGCT	0.657													5	27					0	0	0.001168	0	0		C	40803534	C	C	40803534	3	2	170	1	0	0	0	0	1	0	0	0	14249	1058	37	5	1532	5	SGSM3	22	40803534	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		40803534	10501032	120	89761											
ARSE	415	broad.mit.edu	37	chrX	2867487	2867487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaaataggagcttgcgaGgaggaggacggccgaaaggg	14	3	17	7	3	0	0	0	0	0	0	0	6	0	4	1	6	2	1	1	6	4	2			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chrX:2867487G>A	uc004crc.3	-	6	962	c.712C>T	c.(712-714)CTC>TTC	p.L238F	ARSE_uc011mhi.1_Missense_Mutation_p.L184F|ARSE_uc011mhh.1_Missense_Mutation_p.L263F	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	238					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAGCTTGCGAGGAGGAGGACG	0.562													7	22					0	0	0.00308	0	0		A	2867487	A	A	2867487	3	1	170	1	0	0	0	0	1	0	0	0	991	1000	35	4	1081	4	ARSE	23	2867487	Missense_Mutation	SNP	G	TCGA-D7-6524-01A-11D-1800-08		2867487	152403073	121	89762											
TAF7L	54457	broad.mit.edu	37	chrX	100533036	100533036	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatatttgtataaaggataCgggtacttacggcttcagca	14	12	9	6	2	1	0	1	0	0	0	1	1	1	1	0	3	4	4	0	3	8	8			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chrX:100533036C>T	uc004ehb.2	-	8	847	c.835_splice	c.e8+1	p.R279_splice	TAF7L_uc004eha.2_Splice_Site_p.R193_splice|TAF7L_uc004ehc.1_Splice_Site_p.R193_splice	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA						cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						ATAAAGGATACGGGTACTTAC	0.458													10	23					0	0	0.008291	0	0		T	100533036	T	T	100533036	5	4	170	1	0	0	0	0	0	0	1	0	15558	550	19	1	576	1	TAF7L	23	100533036	Splice_Site	SNP	C	TCGA-D7-6524-01A-11D-1800-08	97665549	100533036	54737524	122	89763											
FMR1NB	158521	broad.mit.edu	37	chrX	147084750	147084750	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	attttgtgcttgcaaatggaCatatcctgcccaacagtgaa	12	12	8	9	0	0	1	0	1	0	0	1	2	1	2	2	1	4	2	2	1	4	4			TCGA-D7-6524-01A-11D-1800-08	TCGA-D7-6524-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	7d8e93df-a61a-4c2a-bfeb-6668069ea98d	fcb9d0d3-39ce-44a2-bc51-b82dff634aa0	g.chrX:147084750C>A	uc004fcm.2	+	2	381	c.307C>A	c.(307-309)CAT>AAT	p.H103N		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	103	Extracellular (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TGCAAATGGACATATCCTGCC	0.363													30	73					4.43304e-23	6.04881e-23	0.00632	1	0		A	147084750	A	A	147084750	3	1	170	1	0	0	0	0	1	0	0	0	5975	478	17	5	313	5	FMR1NB	23	147084750	Missense_Mutation	SNP	C	TCGA-D7-6524-01A-11D-1800-08	46551714	147084750	8185810	123	89764											
PLEKHN1	84069	broad.mit.edu	37	chr1	909420	909420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggccgcagcccccagacGcccctcagcttgtgagtagc	6	5	14	16	2	1	2	1	1	0	1	1	2	1	2	5	2	3	3	5	2	1	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:909420G>A	uc001ace.2	+	13	1833	c.1798G>A	c.(1798-1800)GCC>ACC	p.A600T	PLEKHN1_uc001acd.2_Missense_Mutation_p.A548T|PLEKHN1_uc001acf.2_Missense_Mutation_p.A513T	NM_032129	NP_115505	Q494U1	PKHN1_HUMAN	pleckstrin homology domain containing, family N	600											0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.00095)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		GCCCCCAGACGCCCCTCAGCT	0.711													3	7					0	0	0.009096	0	0		A	909420	A	A	909420	3	1	171	1	0	0	0	0	1	0	0	0	12102	1087	38	1	1732	1	PLEKHN1	1	909420	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		909420	248341201	1	89765											
PHACTR4	65979	broad.mit.edu	37	chr1	28807116	28807116	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattggaaacacactgatccGgtaggcctttgcttagattt	10	13	10	8	1	0	2	0	1	0	1	1	4	1	3	2	3	2	2	2	3	3	5	rs147207733	by1000genomes	TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:28807116G>C	uc001bpw.2	+	9	2042	c.1760G>C	c.(1759-1761)CGG>CCG	p.R587P	PHACTR4_uc001bpv.1_RNA|PHACTR4_uc001bpx.2_Missense_Mutation_p.R571P|PHACTR4_uc001bpy.2_Missense_Mutation_p.R597P	NM_001048183	NP_001041648	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 1	587	RPEL 2.						actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		ACACTGATCCGGTAGGCCTTT	0.373													20	81					0	0	0.055883	0	0		C	28807116	C	C	28807116	3	2	171	1	0	0	0	0	1	0	0	0	11831	1130	39	5	1840	5	PHACTR4	1	28807116	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	27897696	28807116	220443505	2	89766											
PTCH2	8643	broad.mit.edu	37	chr1	45293539	45293539	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatgtgactggagcagcaaCggggcaaactgatagcgggc	11	5	16	9	2	0	2	0	2	0	0	0	3	0	3	0	4	5	4	0	4	3	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:45293539C>A	uc010olf.1	-	14	2046	c.2034G>T	c.(2032-2034)CCG>CCT	p.P678P	PTCH2_uc010olg.1_Silent_p.P376P	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	678	Cytoplasmic (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					GGAGCAGCAACGGGGCAAACT	0.592									Basal_Cell_Nevus_syndrome				12	61					1.61879e-10	1.84207e-10	0.09319	1	0		A	45293539	A	A	45293539	2	1	171	1	0	0	0	0	0	0	0	1	12753	523	19	5		5	PTCH2	1	45293539	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	16486423	45293539	203957082	3	89767											
BEND5	79656	broad.mit.edu	37	chr1	49201942	49201942	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttagtttgtgaggcgagagGggtggtttagggactgcatc	7	12	17	5	1	0	2	0	1	0	1	1	4	0	3	0	5	1	3	0	5	2	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:49201942G>A	uc001crx.3	-	5	1121	c.1077C>T	c.(1075-1077)CCC>CCT	p.P359P	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.P190P	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	359	BEN.									skin(1)	1						GAGGCGAGAGGGGTGGTTTAG	0.458													37	70					0	0	0.080422	0	0		A	49201942	A	A	49201942	2	1	171	1	0	0	0	0	0	0	0	1	1402	1219	43	4		4	BEND5	1	49201942	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	3908403	49201942	200048679	4	89768											
C1orf173	127254	broad.mit.edu	37	chr1	75037172	75037172	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctccccactccgtgctaAttcctctaccaccaccttcc	6	12	2	21	1	1	0	0	0	1	0	6	0	6	0	9	0	2	1	9	0	2	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:75037172A>C	uc001dgg.2	-	14	4441	c.4222T>G	c.(4222-4224)TTA>GTA	p.L1408V		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1408	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						CTCCGTGCTAATTCCTCTACC	0.547													34	84					0	0	0.054565	0	0		C	75037172	C	C	75037172	3	2	171	1	0	0	0	0	1	0	0	0	2017	98	4	5	374	5	C1orf173	1	75037172	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	25835230	75037172	174213449	5	89769											
IFI44L	10964	broad.mit.edu	37	chr1	79093642	79093642	+	Missense_Mutation	SNP	T	A	A	0	1	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	acatggaatgatgaaaatcaTctgcgcaagctgcttggaaa	15	9	10	7	1	2	2	1	2	1	0	2	4	2	4	0	2	3	3	0	2	5	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:79093642T>A	uc010oro.1	+	2	221	c.42T>A	c.(40-42)CAT>CAA	p.H14Q	IFI44L_uc010orp.1_Intron|IFI44L_uc010orq.1_Intron	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	14						cytoplasm					0						ATGAAAATCATCTGCGCAAGC	0.363													8	24					0	0	0.038147	0	0		A	79093642	A	A	79093642	3	1	171	1	0	0	0	0	1	0	0	0	7534	1432	50	5	44	5	IFI44L	1	79093642	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	4056470	79093642	170156979	6	89770											
ZNF644	84146	broad.mit.edu	37	chr1	91403345	91403345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagtctttaggccattacGgtatgcttcaagaggtataa	11	14	9	7	1	3	1	2	0	1	1	3	1	3	1	1	3	2	3	1	3	6	8			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:91403345G>A	uc001dnw.2	-	4	3527	c.3385C>T	c.(3385-3387)CGT>TGT	p.R1129C	ZNF644_uc001dnv.2_Intron|ZNF644_uc001dnx.2_Intron	NM_201269	NP_958357	Q9H582	ZN644_HUMAN	zinc finger protein 644 isoform 1	1129					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3		all_lung(203;0.00206)|Lung NSC(277;0.0519)|Lung SC(238;0.101)		all cancers(265;0.00102)|Epithelial(280;0.00766)|KIRC - Kidney renal clear cell carcinoma(1967;0.147)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		AGGCCATTACGGTATGCTTCA	0.383													6	211					0	0	0.021553	0	0		A	91403345	A	A	91403345	3	1	171	1	0	0	0	0	1	0	0	0	18085	1116	39	1	610	1	ZNF644	1	91403345	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	12309703	91403345	157847276	7	89771											
GFI1	2672	broad.mit.edu	37	chr1	92944272	92944272	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacagtgtggatgacctcttGaagctcttcccacagatctt	9	12	9	11	0	3	3	0	2	3	1	4	5	4	4	2	1	1	1	2	1	1	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:92944272G>A	uc001dou.3	-	6	1127	c.963C>T	c.(961-963)TTC>TTT	p.F321F	GFI1_uc001dov.3_Silent_p.F321F|GFI1_uc001dow.3_Silent_p.F321F	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	321	C2H2-type 3.				negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		ATGACCTCTTGAAGCTCTTCC	0.433													24	55					0	0	0.083992	0	0		A	92944272	A	A	92944272	2	1	171	1	0	0	0	0	0	0	0	1	6354	1281	45	4		4	GFI1	1	92944272	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	1540927	92944272	156306349	8	89772											
PDE4DIP	9659	broad.mit.edu	37	chr1	145075742	145075742	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggggtctgccgtggggactGaggggttcgcgtcgcgtccc	2	8	19	12	6	1	1	0	1	1	0	4	2	2	2	2	6	1	1	2	6	0	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:145075742G>A	uc001emh.2	-	1	338	c.121C>T	c.(121-123)CAG>TAG	p.Q41*	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Nonsense_Mutation_p.Q41*|PDE4DIP_uc001emk.2_Nonsense_Mutation_p.Q41*	NM_022359	NP_071754	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	715					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CGTGGGGACTGAGGGGTTCGC	0.736			T	PDGFRB	MPD								6	93					0	0	0.021553	0	0		A	145075742	A	A	145075742	4	1	171	1	0	0	0	0	0	1	0	0	11662	1299	45	4	8691	4	PDE4DIP	1	145075742	Nonsense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	52131470	145075742	104174879	9	89773											
ANKRD35	148741	broad.mit.edu	37	chr1	145562224	145562224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggggagttggggcgggagCggcagaggttgcagagggag	8	5	24	4	2	0	2	0	0	0	2	0	5	0	5	0	8	2	4	0	8	1	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:145562224C>T	uc001eob.1	+	10	2020	c.1912C>T	c.(1912-1914)CGG>TGG	p.R638W	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.R481W	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	638	Potential.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGGGCGGGAGCGGCAGAGGTT	0.607													7	86					0	0	0.047766	0	0		T	145562224	T	T	145562224	3	4	171	1	0	0	0	0	1	0	0	0	664	759	27	1	1950	1	ANKRD35	1	145562224	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	486482	145562224	103688397	10	89774											
ETV3L	440695	broad.mit.edu	37	chr1	157062655	157062655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacccgcaccctgtcccagcCctgccaagagaggaagccct	9	4	9	19	1	0	1	0	0	0	1	1	3	1	2	6	1	3	1	6	1	2	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:157062655C>T	uc001fqq.1	-	5	1157	c.872G>A	c.(871-873)GGG>GAG	p.G291E		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	291						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				CTGTCCCAGCCCTGCCAAGAG	0.632													11	21					0	0	0.080935	0	0		T	157062655	T	T	157062655	3	4	171	1	0	0	0	0	1	0	0	0	5288	623	22	4	217	4	ETV3L	1	157062655	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	11500431	157062655	92187966	11	89775											
KIRREL	55243	broad.mit.edu	37	chr1	158057640	158057640	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacagccaaccccgagatcTtgggctacaggtgagggggt	9	6	14	12	1	1	2	0	1	1	1	1	3	1	2	4	4	3	1	4	4	2	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:158057640T>G	uc001frn.3	+	6	1161	c.757T>G	c.(757-759)TTG>GTG	p.L253V	KIRREL_uc010pib.1_Missense_Mutation_p.L153V|KIRREL_uc009wsq.2_Missense_Mutation_p.L89V|KIRREL_uc001fro.3_Missense_Mutation_p.L51V	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	253	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					CCCCGAGATCTTGGGCTACAG	0.602											OREG0013906	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	24					0	0	0.105934	0	0		G	158057640	G	G	158057640	3	3	171	1	0	0	0	0	1	0	0	0	8340	1606	56	5	779	5	KIRREL	1	158057640	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	994985	158057640	91192981	12	89776											
CDC73	79577	broad.mit.edu	37	chr1	193107220	193107221	+	Frame_Shift_Del	DEL	AG	-	-																															agtggttatttccaggatgaAgagtgtgtgcgccttgataa																										TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:193107220_193107221delAG	uc001gtb.2	+	6	672_673	c.429_430delAG	c.(427-432)GAAGAGfs	p.E143fs		NM_024529	NP_078805	Q6P1J9	CDC73_HUMAN	parafibromin	143_144					cell cycle|histone H2B ubiquitination|histone monoubiquitination|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			parathyroid(46)|ovary(1)|breast(1)|pancreas(1)	49						TCCAGGATGAAGAGTGTGTGCG	0.366									Hyperparathyroidism_Familial_Isolated|Hyperparathyroidism-Jaw_Tumor_Syndrome				34	67	---	---	---	---						.	-	193107221	-	-	193107220	7	5	171	1	0	1	0	1	0	0	0	0	3088	69	3	0	451	0	CDC73	1	193107220	Frame_Shift_Del	DEL	AG	TCGA-D7-6525-01A-11D-1800-08	35049580	193107220	56143401	13	89777											
KDM5B	10765	broad.mit.edu	37	chr1	202715452	202715452	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttccgaatcaatcactccCtagaataaagtatactttag	14	13	4	10	1	2	1	2	0	0	1	4	2	4	1	2	0	1	1	2	0	9	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:202715452C>G	uc001gyf.2	-	15	2133	c.2017_splice	c.e15-1	p.G673_splice	KDM5B_uc009xag.2_Splice_Site_p.G709_splice|KDM5B_uc001gyg.1_Splice_Site_p.G515_splice	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B						negative regulation of transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-trimethyl-K4 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(2)|urinary_tract(1)	5						CAATCACTCCCTAGAATAAAG	0.378													5	47					0	0	0.014758	0	0		G	202715452	G	G	202715452	5	3	171	1	0	0	0	0	0	0	1	0	8150	695	24	5	2670	5	KDM5B	1	202715452	Splice_Site	SNP	C	TCGA-D7-6525-01A-11D-1800-08	9608232	202715452	46535169	14	89778											
OR2G2	81470	broad.mit.edu	37	chr1	247752185	247752185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccttctgtgggcatcGccaagtggatcatttcatct	6	13	10	12	1	4	0	2	0	2	0	5	1	4	1	2	2	1	2	2	2	1	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:247752185G>A	uc010pyy.1	+	1	524	c.524G>A	c.(523-525)CGC>CAC	p.R175H		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			TGTGGGCATCGCCAAGTGGAT	0.552													36	95					0	0	0.064281	0	0		A	247752185	A	A	247752185	3	1	171	1	0	0	0	0	1	0	0	0	11017	1087	38	1	526	1	OR2G2	1	247752185	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	45036733	247752185	1498436	15	89779											
OR2G3	81469	broad.mit.edu	37	chr1	247769166	247769166	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaccaaagaagacgatcacTtacggtggttgtgtggcgca	12	8	13	8	3	1	3	1	0	0	3	1	4	1	3	1	3	1	2	1	3	3	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:247769166T>C	uc010pyz.1	+	1	279	c.279T>C	c.(277-279)ACT>ACC	p.T93T		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	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)			AGACGATCACTTACGGTGGTT	0.468													63	184					0	0	0.139131	0	0		C	247769166	C	C	247769166	2	2	171	1	0	0	0	0	0	0	0	1	11018	1596	56	3		3	OR2G3	1	247769166	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	16981	247769166	1481455	16	89780											
OR2M4	26245	broad.mit.edu	37	chr1	248402821	248402821	+	Silent	SNP	A	G	G	1	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	gaaacatctgcatttgaaagActacttgtcatttgttgtgt	11	16	8	6	0	2	2	1	1	1	1	2	3	2	2	0	0	3	2	0	0	3	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr1:248402821A>G	uc010pzh.1	+	1	591	c.591A>G	c.(589-591)AGA>AGG	p.R197R		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	197	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CATTTGAAAGACTACTTGTCA	0.413													41	74					0	0	0.09836	0	0		G	248402821	G	G	248402821	2	3	171	1	0	0	0	0	0	0	0	1	11031	272	10	3		3	OR2M4	1	248402821	Silent	SNP	A	TCGA-D7-6525-01A-11D-1800-08	633655	248402821	847800	17	89781											
PXDN	7837	broad.mit.edu	37	chr2	1652213	1652213	+	Silent	SNP	G	T	T	0	0	1	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	cccctgagaagcggatcgatGccgccctcattcacaatccg	9	7	9	16	4	2	1	2	1	0	1	4	4	3	2	5	1	2	0	5	1	2	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:1652213G>T	uc002qxa.2	-	17	3403	c.3339C>A	c.(3337-3339)GGC>GGA	p.G1113G		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1113					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCGGATCGATGCCGCCCTCAT	0.592													6	20					1.06961e-07	1.18789e-07	0.038147	1	0		T	1652213	T	T	1652213	2	4	171	1	0	0	0	0	0	0	0	1	12872	1306	46	5		5	PXDN	2	1652213	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08		1652213	241547160	18	89782											
PXDN	7837	broad.mit.edu	37	chr2	1677547	1677547	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggtcccatcgtccagcaAgtttaggcgggaatctgtct	8	10	12	11	2	2	0	0	0	2	0	5	1	4	1	2	3	1	2	2	3	3	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:1677547A>C	uc002qxa.2	-	9	950	c.886T>G	c.(886-888)TTG>GTG	p.L296V	PXDN_uc002qxb.1_Missense_Mutation_p.L296V|PXDN_uc002qxc.1_Missense_Mutation_p.L113V	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	296	Ig-like C2-type 1.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TCGTCCAGCAAGTTTAGGCGG	0.502													21	60					0	0	0.062417	0	0		C	1677547	C	C	1677547	3	2	171	1	0	0	0	0	1	0	0	0	12872	69	3	5	3613	5	PXDN	2	1677547	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	25334	1677547	241521826	19	89783											
PUM2	23369	broad.mit.edu	37	chr2	20511426	20511426	+	Splice_Site	SNP	T	C	C	0	1	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	tttcagcatctctagtgcccTgaggaaaaagaatctgtttg	11	13	9	8	0	3	2	1	1	2	1	4	3	3	3	1	1	2	2	1	1	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:20511426T>C	uc002rds.1	-	4	372	c.349_splice	c.e4-1	p.G117_splice	PUM2_uc002rdt.1_Splice_Site_p.G117_splice|PUM2_uc002rdr.2_Splice_Site_p.G56_splice|PUM2_uc010yjy.1_Splice_Site_p.G117_splice|PUM2_uc002rdu.1_Splice_Site_p.G117_splice|PUM2_uc010yjz.1_Splice_Site_p.G56_splice	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2						regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTAGTGCCCTGAGGAAAAAG	0.383													9	25					0	0	0.069234	0	0		C	20511426	C	C	20511426	5	2	171	1	0	0	0	0	0	0	1	0	12851	1594	55	3	2915	3	PUM2	2	20511426	Splice_Site	SNP	T	TCGA-D7-6525-01A-11D-1800-08	18833879	20511426	222687947	20	89784											
OTOF	9381	broad.mit.edu	37	chr2	26688846	26688846	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagggttgagctgcttggaGatgtagttctccttgtcgcg	6	13	14	8	2	1	2	0	1	1	1	3	3	1	2	1	2	2	5	1	2	1	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:26688846G>A	uc002rhk.2	-	37	4726	c.4599C>T	c.(4597-4599)ATC>ATT	p.I1533I	OTOF_uc010yla.1_Silent_p.I263I|OTOF_uc002rhh.2_Silent_p.I766I|OTOF_uc002rhi.2_Silent_p.I843I|OTOF_uc002rhj.2_Silent_p.I766I	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1533	Cytoplasmic (Potential).|C2 4.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCTGCTTGGAGATGTAGTTCT	0.582													21	48					0	0	0.062417	0	0		A	26688846	A	A	26688846	2	1	171	1	0	0	0	0	0	0	0	1	11322	932	33	4		4	OTOF	2	26688846	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	6177420	26688846	216510527	21	89785											
CAD	790	broad.mit.edu	37	chr2	27465519	27465519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgacctgaagcacggacGcacagtacattccctggcct	9	7	12	13	2	0	2	0	2	0	0	1	3	1	3	3	3	2	3	3	3	2	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:27465519G>A	uc002rji.2	+	41	6416	c.6254G>A	c.(6253-6255)CGC>CAC	p.R2085H	CAD_uc010eyw.2_Missense_Mutation_p.R2022H	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	2085	ATCase (Aspartate transcarbamylase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	AAGCACGGACGCACAGTACAT	0.602													18	55					0	0	0.049695	0	0		A	27465519	A	A	27465519	3	1	171	1	0	0	0	0	1	0	0	0	2568	1087	38	1	6416	1	CAD	2	27465519	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	776673	27465519	215733854	22	89786											
CDC42EP3	10602	broad.mit.edu	37	chr2	37873541	37873541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtttccaggtaaaagctCgtagttcccttgaagaaagg	11	11	11	8	1	0	2	0	1	0	1	3	2	2	2	2	3	1	5	2	3	5	5	rs144011190	by1000genomes	TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:37873541C>T	uc002rqi.1	-	2	1183	c.190G>A	c.(190-192)GAG>AAG	p.E64K		NM_006449	NP_006440	Q9UKI2	BORG2_HUMAN	Cdc42 effector protein 3	64					regulation of cell shape|signal transduction	actin cytoskeleton|cytoplasm|endomembrane system|membrane	cytoskeletal regulatory protein binding				0		all_hematologic(82;0.172)				GGTAAAAGCTCGTAGTTCCCT	0.527													41	114					0	0	0.11126	0	0		T	37873541	T	T	37873541	3	4	171	1	0	0	0	0	1	0	0	0	3080	893	31	1	578	1	CDC42EP3	2	37873541	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	10408022	37873541	205325832	23	89787											
GFPT1	2673	broad.mit.edu	37	chr2	69555475	69555475	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctctcatgatgatcatgatCacaggcatcaatttatccac	12	13	5	11	0	5	3	4	3	1	0	7	3	6	3	1	1	0	1	1	1	2	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:69555475C>T	uc002sfh.2	-	17	1946	c.1767G>A	c.(1765-1767)GTG>GTA	p.V589V		NM_002056	NP_002047	Q06210	GFPT1_HUMAN	glucosamine-fructose-6-phosphate	607	SIS 2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			skin(1)	1						TGATCATGATCACAGGCATCA	0.438													24	57					0	0	0.108266	0	0		T	69555475	T	T	69555475	2	4	171	1	0	0	0	0	0	0	0	1	6360	813	29	4		4	GFPT1	2	69555475	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	31681934	69555475	173643898	24	89788											
GPAT2	150763	broad.mit.edu	37	chr2	96697824	96697824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcaacagcgacccacaaagGggcgatacttccccaggaat	13	4	11	13	2	0	0	0	0	0	0	1	3	1	1	3	4	3	1	3	4	4	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:96697824G>A	uc002svf.2	-	3	357	c.134C>T	c.(133-135)CCC>CTC	p.P45L	GPAT2_uc002svg.2_5'UTR|GPAT2_uc010yuh.1_Missense_Mutation_p.P45L|GPAT2_uc002svh.2_Missense_Mutation_p.P45L	NM_207328	NP_997211	Q6NUI2	GPAT2_HUMAN	glycerol-3-phosphate acyltransferase 2,	45					glycerol-3-phosphate metabolic process|phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity				0						ACCCACAAAGGGGCGATACTT	0.602													10	40					0	0	0.09319	0	0		A	96697824	A	A	96697824	3	1	171	1	0	0	0	0	1	0	0	0	6604	1232	43	4	2333	4	GPAT2	2	96697824	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	27142349	96697824	146501549	25	89789											
EIF5B	9669	broad.mit.edu	37	chr2	100009484	100009484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagggggtaaagattcttGgaaaagacctggagaaaaca	16	7	12	6	0	2	3	1	0	1	3	2	5	2	4	1	4	1	1	1	4	6	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:100009484G>A	uc002tab.2	+	18	2987	c.2803G>A	c.(2803-2805)GGA>AGA	p.G935R	EIF5B_uc010yvq.1_5'Flank	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	935					regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						AAAGATTCTTGGAAAAGACCT	0.343													16	35					0	0	0.0333	0	0		A	100009484	A	A	100009484	3	1	171	1	0	0	0	0	1	0	0	0	5052	1349	47	4	2873	4	EIF5B	2	100009484	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	3311660	100009484	143189889	26	89790											
LRP1B	53353	broad.mit.edu	37	chr2	141250255	141250255	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagcaagaattaaaaaaggTtcttcatctaaacaccaaca	19	9	4	9	0	4	1	2	0	2	1	4	1	4	1	1	1	3	2	1	1	8	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:141250255T>G	uc002tvj.1	-	57	10014	c.9042A>C	c.(9040-9042)GAA>GAC	p.E3014D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3014	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTAAAAAAGGTTCTTCATCTA	0.338										TSP Lung(27;0.18)			18	69					0	0	0.0333	0	0		G	141250255	G	G	141250255	3	3	171	1	0	0	0	0	1	0	0	0	8973	1722	60	5	4897	5	LRP1B	2	141250255	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	41240771	141250255	101949118	27	89791											
SCN9A	6335	broad.mit.edu	37	chr2	167141141	167141141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcttggctgatgttactgCtgcgtcgctcctggggtctg	2	14	15	10	2	1	1	0	1	1	0	3	1	2	1	1	4	3	5	1	4	1	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:167141141C>T	uc010fpl.2	-	12	2137	c.1796G>A	c.(1795-1797)AGC>AAC	p.S599N	uc002udp.2_Intron|SCN9A_uc002udr.1_Missense_Mutation_p.S470N|SCN9A_uc002uds.1_Missense_Mutation_p.S470N|SCN9A_uc002udt.1_Missense_Mutation_p.S470N	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	599						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GATGTTACTGCTGCGTCGCTC	0.547													26	66					0	0	0.099896	0	0		T	167141141	T	T	167141141	3	4	171	1	0	0	0	0	1	0	0	0	13950	797	28	2	4201	2	SCN9A	2	167141141	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	25890886	167141141	76058232	28	89792											
TTN	7273	broad.mit.edu	37	chr2	179654102	179654102	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcacctttccatgggtaacTtggatttgttcttgtctagt	6	18	9	8	0	3	0	1	0	2	0	4	1	4	1	2	2	1	2	2	2	2	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:179654102T>G	uc010zfg.1	-	13	2285	c.2061A>C	c.(2059-2061)CAA>CAC	p.Q687H	TTN_uc010zfh.1_Missense_Mutation_p.Q641H|TTN_uc010zfi.1_Missense_Mutation_p.Q641H|TTN_uc010zfj.1_Missense_Mutation_p.Q641H|TTN_uc002unb.2_Missense_Mutation_p.Q687H|TTN_uc010frg.1_Missense_Mutation_p.Q269H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	687							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATGGGTAACTTGGATTTGTT	0.353													39	84					0	0	0.117977	0	0		G	179654102	G	G	179654102	3	3	171	1	0	0	0	0	1	0	0	0	16761	1606	56	5	109327	5	TTN	2	179654102	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	12512961	179654102	63545271	29	89793											
CCDC141	285025	broad.mit.edu	37	chr2	179702352	179702352	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcccctgagagcatgtcTtcaggcaggagcaggtcctg	7	10	12	12	0	3	1	1	1	2	1	5	3	5	2	3	3	2	3	3	3	0	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:179702352T>G	uc002unf.1	-	13	1926	c.1869A>C	c.(1867-1869)GAA>GAC	p.E623D	CCDC141_uc002une.1_Missense_Mutation_p.E73D	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	623							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			AGAGCATGTCTTCAGGCAGGA	0.547													24	56					0	0	0.076483	0	0		G	179702352	G	G	179702352	3	3	171	1	0	0	0	0	1	0	0	0	2778	1606	56	5	762	5	CCDC141	2	179702352	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	48250	179702352	63497021	30	89794											
DNAH7	56171	broad.mit.edu	37	chr2	196673538	196673538	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagccatgtacaaaggttGgcataaggattatccagtcc	13	9	11	8	0	0	0	0	0	0	0	2	2	2	2	3	4	2	3	3	4	5	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:196673538G>A	uc002utj.3	-	53	10052	c.9951C>T	c.(9949-9951)GCC>GCT	p.A3317A		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3317					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TACAAAGGTTGGCATAAGGAT	0.418													10	37					0	0	0.069234	0	0		A	196673538	A	A	196673538	2	1	171	1	0	0	0	0	0	0	0	1	4612	1335	47	4		4	DNAH7	2	196673538	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	16971186	196673538	46525835	31	89795											
MDH1B	130752	broad.mit.edu	37	chr2	207620121	207620121	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaggcttttgagatgttcTtccgcctgcttgttgtcaaa	8	15	9	9	1	2	1	1	1	1	1	3	2	3	1	2	1	1	4	2	1	2	6			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:207620121T>C	uc002vbs.2	-	5	577	c.522A>G	c.(520-522)GAA>GAG	p.E174E	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Silent_p.E174E|MDH1B_uc010fuj.2_Silent_p.E76E|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	174					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		TGAGATGTTCTTCCGCCTGCT	0.522													21	36					0	0	0.055883	0	0		C	207620121	C	C	207620121	2	2	171	1	0	0	0	0	0	0	0	1	9427	1606	56	3		3	MDH1B	2	207620121	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	10946583	207620121	35579252	32	89796											
MAP2	4133	broad.mit.edu	37	chr2	210558112	210558112	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaacatgttatggggaaAgttttagaggaagaaaagga	18	8	14	1	0	0	3	0	0	0	3	0	7	0	6	0	4	1	2	0	4	8	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:210558112A>C	uc002vde.1	+	7	1466	c.1218A>C	c.(1216-1218)AAA>AAC	p.K406N	MAP2_uc002vdc.1_Missense_Mutation_p.K406N|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.K402N	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	406					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TTATGGGGAAAGTTTTAGAGG	0.443													14	29					0	0	0.105934	0	0		C	210558112	C	C	210558112	3	2	171	1	0	0	0	0	1	0	0	0	9253	69	3	5	1232	5	MAP2	2	210558112	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	2937991	210558112	32641261	33	89797											
FARSB	10056	broad.mit.edu	37	chr2	223488429	223488429	+	Silent	SNP	A	C	C	1	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	atgtcatgtcggagaagttcAgtgagcttattaagaggaaa	14	11	12	4	1	2	3	2	1	0	2	3	5	2	4	0	2	1	2	0	2	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:223488429A>C	uc002vne.1	-	13	1226	c.1191T>G	c.(1189-1191)ACT>ACG	p.T397T	FARSB_uc010zlq.1_Silent_p.T417T|FARSB_uc002vnf.1_Silent_p.T298T	NM_005687	NP_005678	Q9NSD9	SYFB_HUMAN	phenylalanyl-tRNA synthetase, beta subunit	397					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|RNA binding			ovary(1)	1		Renal(207;0.0183)		Epithelial(121;3.47e-10)|all cancers(144;1.86e-07)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.011)	L-Phenylalanine(DB00120)	GGAGAAGTTCAGTGAGCTTAT	0.393													29	63					0	0	0.116897	0	0		C	223488429	C	C	223488429	2	2	171	1	0	0	0	0	0	0	0	1	5694	175	7	5		5	FARSB	2	223488429	Silent	SNP	A	TCGA-D7-6525-01A-11D-1800-08	12930317	223488429	19710944	34	89798											
SPHKAP	80309	broad.mit.edu	37	chr2	228881277	228881277	+	Silent	SNP	A	G	G	1	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	gcttctctctgatctgtttcAatctgaatcaaaggcacttc	9	15	6	11	0	6	2	2	2	4	0	8	2	6	2	0	1	0	3	0	1	3	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:228881277A>G	uc002vpq.2	-	7	4340	c.4293T>C	c.(4291-4293)ATT>ATC	p.I1431I	SPHKAP_uc002vpp.2_Silent_p.I1431I|SPHKAP_uc010zlx.1_Silent_p.I1431I	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1431						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		GATCTGTTTCAATCTGAATCA	0.458													22	67					0	0	0.062417	0	0		G	228881277	G	G	228881277	2	3	171	1	0	0	0	0	0	0	0	1	15073	126	5	3		3	SPHKAP	2	228881277	Silent	SNP	A	TCGA-D7-6525-01A-11D-1800-08	5392848	228881277	14318096	35	89799											
ALPI	248	broad.mit.edu	37	chr2	233322819	233322819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgagcaggaacccccGcggcttctacctctttgtgg	5	10	11	15	2	2	1	0	1	2	0	2	2	2	2	4	3	4	3	4	3	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr2:233322819G>A	uc002vst.3	+	8	1045	c.968G>A	c.(967-969)CGC>CAC	p.R323H	ALPI_uc002vsu.3_Missense_Mutation_p.R234H	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	323					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		AGGAACCCCCGCGGCTTCTAC	0.657													13	53					0	0	0.132662	0	0		A	233322819	A	A	233322819	3	1	171	1	0	0	0	0	1	0	0	0	543	1087	38	1	998	1	ALPI	2	233322819	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	4441542	233322819	9876554	36	89800											
CNTN6	27255	broad.mit.edu	37	chr3	1418726	1418726	+	Silent	SNP	A	G	G	1	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	gtaaacatccatggaggtggAggaagtcggtctgaactcgt	11	9	14	7	2	1	1	0	1	1	0	4	4	2	4	1	5	2	1	1	5	4	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr3:1418726A>G	uc003boz.2	+	17	2400	c.2133A>G	c.(2131-2133)GGA>GGG	p.G711G	CNTN6_uc011asj.1_Silent_p.G639G|CNTN6_uc003bpa.2_Silent_p.G711G	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	711	Fibronectin type-III 2.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		ATGGAGGTGGAGGAAGTCGGT	0.398													43	57					0	0	0.139131	0	0		G	1418726	G	G	1418726	2	3	171	1	0	0	0	0	0	0	0	1	3648	291	11	3		3	CNTN6	3	1418726	Silent	SNP	A	TCGA-D7-6525-01A-11D-1800-08		1418726	196603704	37	89801											
TRAK1	22906	broad.mit.edu	37	chr3	42260998	42260998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caatttagcgcaccatcctgGgaagtgcatgtctcagacca	11	9	9	12	1	1	1	1	0	1	1	3	2	2	2	3	1	2	2	3	1	3	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr3:42260998G>A	uc003cky.2	+	15	2192	c.1976G>A	c.(1975-1977)GGG>GAG	p.G659E	TRAK1_uc011azi.1_Missense_Mutation_p.G638E	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	659					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						CACCATCCTGGGAAGTGCATG	0.473													62	75					0	0	0.139131	0	0		A	42260998	A	A	42260998	3	1	171	1	0	0	0	0	1	0	0	0	16475	1232	43	4	2422	4	TRAK1	3	42260998	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	40842272	42260998	155761432	38	89802											
SFMBT1	51460	broad.mit.edu	37	chr3	52968852	52968852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctctagcagcggaacaggagGactacatgctcctatcaggg	11	7	12	11	1	2	0	1	0	1	0	3	3	3	3	1	4	5	2	1	4	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr3:52968852G>A	uc003dgf.2	-	6	999	c.430C>T	c.(430-432)CCT>TCT	p.P144S	SFMBT1_uc010hmr.2_Missense_Mutation_p.P91S|SFMBT1_uc003dgg.2_Missense_Mutation_p.P144S|SFMBT1_uc003dgh.2_Missense_Mutation_p.P144S	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	144	MBT 2.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		GGAACAGGAGGACTACATGCT	0.428													4	17					0	0	0.009096	0	0		A	52968852	A	A	52968852	3	1	171	1	0	0	0	0	1	0	0	0	14182	1174	41	4	2238	4	SFMBT1	3	52968852	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	10707854	52968852	145053578	39	89803											
FILIP1L	11259	broad.mit.edu	37	chr3	99569565	99569565	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgttgaagctggcgattttGactgtcctcattggtgagct	6	16	12	7	1	1	3	1	3	0	0	2	4	2	3	1	2	2	3	1	2	1	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr3:99569565G>A	uc003dtm.2	-	5	1418	c.955C>T	c.(955-957)CAA>TAA	p.Q319*	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Nonsense_Mutation_p.Q319*|FILIP1L_uc010hpf.2_Intron|FILIP1L_uc010hpg.2_Nonsense_Mutation_p.Q79*|FILIP1L_uc003dtn.2_Nonsense_Mutation_p.Q79*|FILIP1L_uc003dtp.1_Nonsense_Mutation_p.Q79*	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	319	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TGGCGATTTTGACTGTCCTCA	0.478													52	170					0	0	0.139131	0	0		A	99569565	A	A	99569565	4	1	171	1	0	0	0	0	0	1	0	0	5909	1299	45	4	2481	4	FILIP1L	3	99569565	Nonsense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	46600713	99569565	98452865	40	89804											
TRIM42	287015	broad.mit.edu	37	chr3	140397174	140397174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcatcttcacctcagagCggaactgcacctgcttcccc	8	10	7	16	1	4	1	3	0	1	1	5	2	5	2	4	1	4	3	4	1	1	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr3:140397174C>T	uc003eto.1	+	1	294	c.103C>T	c.(103-105)CGG>TGG	p.R35W		NM_152616	NP_689829	Q8IWZ5	TRI42_HUMAN	tripartite motif-containing 42	35	Cys-rich.					intracellular	zinc ion binding			lung(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|central_nervous_system(1)	7						CACCTCAGAGCGGAACTGCAC	0.527													68	121					0	0	0.139131	0	0		T	140397174	T	T	140397174	3	4	171	1	0	0	0	0	1	0	0	0	16543	759	27	1	105	1	TRIM42	3	140397174	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	40827609	140397174	57625256	41	89805											
PIGG	54872	broad.mit.edu	37	chr4	509771	509771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttcttctaggtgatatccGacatccaaagcacgtccaac	11	11	6	13	2	2	1	0	1	2	0	5	2	5	1	3	1	2	1	3	1	4	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:509771G>A	uc003gak.3	+	6	1047	c.911G>A	c.(910-912)CGA>CAA	p.R304Q	PIGG_uc003gaj.3_Missense_Mutation_p.R304Q|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.R171Q|PIGG_uc003gal.3_Missense_Mutation_p.R215Q|PIGG_uc003gai.2_RNA|PIGG_uc011buw.1_Missense_Mutation_p.R182Q|PIGG_uc003gam.2_Missense_Mutation_p.R215Q|PIGG_uc003gan.2_Missense_Mutation_p.R215Q	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	304	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						GGTGATATCCGACATCCAAAG	0.433													23	73					0	0	0.0918	0	0		A	509771	A	A	509771	3	1	171	1	0	0	0	0	1	0	0	0	11907	1058	37	1	933	1	PIGG	4	509771	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		509771	190644505	42	89806											
WFS1	7466	broad.mit.edu	37	chr4	6303278	6303278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgggcgtgctgcagttcGcccggtggttcacgtctctg	2	12	16	11	4	2	0	1	0	1	0	4	0	2	0	1	4	2	4	1	4	0	2	rs143084511	byFrequency	TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:6303278G>A	uc003giy.2	+	8	1922	c.1756G>A	c.(1756-1758)GCC>ACC	p.A586T	WFS1_uc003gix.2_Missense_Mutation_p.A586T|WFS1_uc003giz.2_Missense_Mutation_p.A404T	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	586					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		GCTGCAGTTCGCCCGGTGGTT	0.667													27	56					0	0	0.099896	0	0		A	6303278	A	A	6303278	3	1	171	1	0	0	0	0	1	0	0	0	17386	1087	38	1	1782	1	WFS1	4	6303278	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	5793507	6303278	184850998	43	89807											
SLIT2	9353	broad.mit.edu	37	chr4	20487885	20487885	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaaccatatgcctaaacTtaggactttgtaagtagtca	13	14	6	8	0	2	0	2	0	0	0	2	1	2	1	2	1	3	2	2	1	7	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:20487885T>G	uc003gpr.1	+	7	806	c.602T>G	c.(601-603)CTT>CGT	p.L201R	SLIT2_uc003gps.1_Missense_Mutation_p.L201R	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	201					apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						ATGCCTAAACTTAGGACTTTG	0.323													10	49					0	0	0.058154	0	0		G	20487885	G	G	20487885	3	3	171	1	0	0	0	0	1	0	0	0	14765	1609	56	5	628	5	SLIT2	4	20487885	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	14184607	20487885	170666391	44	89808											
LIMCH1	22998	broad.mit.edu	37	chr4	41648596	41648596	+	Missense_Mutation	SNP	A	C	C	1	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	aacagtacattgagaggttcAccatcagtgaggctgttctc	11	11	10	9	0	3	2	2	2	1	1	4	3	3	2	1	2	2	4	1	2	2	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:41648596A>C	uc003gvu.3	+	12	1405	c.1351A>C	c.(1351-1353)ACC>CCC	p.T451P	LIMCH1_uc003gvv.3_Missense_Mutation_p.T451P|LIMCH1_uc003gvw.3_Missense_Mutation_p.T451P|LIMCH1_uc003gvx.3_Missense_Mutation_p.T439P|LIMCH1_uc003gwe.3_Missense_Mutation_p.T451P|LIMCH1_uc003gvy.3_Missense_Mutation_p.T280P|LIMCH1_uc003gwa.3_Missense_Mutation_p.T292P|LIMCH1_uc003gvz.3_Missense_Mutation_p.T836P|LIMCH1_uc011byu.1_Missense_Mutation_p.T285P|LIMCH1_uc003gwc.3_Missense_Mutation_p.T297P|LIMCH1_uc003gwd.3_Missense_Mutation_p.T285P|LIMCH1_uc011byv.1_Missense_Mutation_p.T202P	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	451					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						TGAGAGGTTCACCATCAGTGA	0.488													14	162					0	0	0.132662	0	0		C	41648596	C	C	41648596	3	2	171	1	0	0	0	0	1	0	0	0	8813	159	6	5	1425	5	LIMCH1	4	41648596	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	21160711	41648596	149505680	45	89809											
BEND4	389206	broad.mit.edu	37	chr4	42145964	42145964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacaatttaagaggctaaGaactcgactgcactgctggg	12	9	10	10	1	0	2	0	0	0	2	2	3	1	2	1	2	3	3	1	2	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:42145964G>T	uc003gwn.2	-	3	1115	c.535C>A	c.(535-537)CTT>ATT	p.L179I	BEND4_uc003gwm.2_Missense_Mutation_p.L179I|BEND4_uc011byy.1_Missense_Mutation_p.L179I	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	179											0						AAGAGGCTAAGAACTCGACTG	0.448													5	7					3.59834e-05	3.88419e-05	0.021553	1	0		T	42145964	T	T	42145964	3	4	171	1	0	0	0	0	1	0	0	0	1401	942	33	5	1085	5	BEND4	4	42145964	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	497368	42145964	149008312	46	89810											
GRXCR1	389207	broad.mit.edu	37	chr4	42895343	42895343	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaaagtccggtttcggatCgcgtcctctcacagtgggcg	6	9	14	12	6	1	0	1	0	1	0	6	2	3	2	2	4	0	1	2	4	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:42895343C>T	uc003gwt.2	+	1	60	c.60C>T	c.(58-60)ATC>ATT	p.I20I		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	20					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						GGTTTCGGATCGCGTCCTCTC	0.507													19	98					0	0	0.043863	0	0		T	42895343	T	T	42895343	2	4	171	1	0	0	0	0	0	0	0	1	6828	874	31	1		1	GRXCR1	4	42895343	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	749379	42895343	148258933	47	89811											
UGT2B28	54490	broad.mit.edu	37	chr4	70146482	70146482	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaaaactgaatttgagaaTatcatcatgcaacaggttaa	18	11	6	6	0	2	2	2	2	0	1	2	3	2	2	0	1	3	2	0	1	7	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:70146482T>A	uc003hej.2	+	1	266	c.264T>A	c.(262-264)AAT>AAA	p.N88K	UGT2B28_uc010ihr.2_Missense_Mutation_p.N88K	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	88					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	AATTTGAGAATATCATCATGC	0.343													10	183					0	0	0.069234	0	0		A	70146482	A	A	70146482	3	1	171	1	0	0	0	0	1	0	0	0	16986	1403	49	5	266	5	UGT2B28	4	70146482	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	27251139	70146482	121007794	48	89812											
C4orf40	401137	broad.mit.edu	37	chr4	71020099	71020099	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagggtcaatcaaaatgaagCttctcctttgggcctgcatt	10	13	9	9	0	3	1	2	1	1	0	4	1	3	1	2	2	2	2	2	2	5	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:71020099C>A	uc003hfa.3	+	2	80	c.7C>A	c.(7-9)CTT>ATT	p.L3I	C4orf40_uc003hfb.3_Missense_Mutation_p.L3I	NM_214711	NP_999876	Q6MZM9	CD040_HUMAN	hypothetical protein LOC401137 precursor	3						extracellular region					0						CAAAATGAAGCTTCTCCTTTG	0.284													15	38					6.72482e-11	7.69027e-11	0.132662	1	0		A	71020099	A	A	71020099	3	1	171	1	0	0	0	0	1	0	0	0	2272	797	28	5	9	5	C4orf40	4	71020099	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	873617	71020099	120134177	49	89813											
TRPC3	7222	broad.mit.edu	37	chr4	122853799	122853799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacaggggctcagagtgagaCgcttgctggccgcgaagcca	9	5	15	12	3	1	2	1	1	0	2	1	4	1	2	2	3	2	3	2	3	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:122853799C>T	uc003ieg.2	-	2	688	c.614G>A	c.(613-615)CGT>CAT	p.R205H	TRPC3_uc010inr.2_Missense_Mutation_p.R132H|TRPC3_uc003ief.2_Missense_Mutation_p.R132H|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	120	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						CAGAGTGAGACGCTTGCTGGC	0.647													16	34					0	0	0.043863	0	0		T	122853799	T	T	122853799	3	4	171	1	0	0	0	0	1	0	0	0	16605	536	19	1	2195	1	TRPC3	4	122853799	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	51833700	122853799	68300477	50	89814											
EDNRA	1909	broad.mit.edu	37	chr4	148457038	148457038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcactttgaagttctaccaaGatgtaaaggactggtggctc	11	12	10	8	0	2	2	1	1	1	1	3	3	2	3	1	3	1	3	1	3	5	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:148457038G>A	uc003iky.2	+	5	1449	c.757G>A	c.(757-759)GAT>AAT	p.D253N	EDNRA_uc011cid.1_Missense_Mutation_p.D28N|EDNRA_uc010ipf.1_RNA|EDNRA_uc010ipg.1_Missense_Mutation_p.D144N	NM_001957	NP_001948	P25101	EDNRA_HUMAN	endothelin receptor type A isoform a precursor	253	Extracellular (Potential).				activation of adenylate cyclase activity|artery smooth muscle contraction|cell proliferation|glucose transport|respiratory gaseous exchange	integral to plasma membrane	endothelin-A receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|breast(1)	2	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.154)	Bosentan(DB00559)	GTTCTACCAAGATGTAAAGGA	0.418													32	130					0	0	0.050027	0	0		A	148457038	A	A	148457038	3	1	171	1	0	0	0	0	1	0	0	0	4925	942	33	4	771	4	EDNRA	4	148457038	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	25603239	148457038	42697238	51	89815											
DCHS2	54798	broad.mit.edu	37	chr4	155242139	155242139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaagataatgagatgtcGtctcataatcaagttcctta	15	13	7	6	1	2	3	2	2	1	2	5	4	3	3	1	0	0	1	1	0	6	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr4:155242139G>A	uc003inw.2	-	14	3047	c.3047C>T	c.(3046-3048)ACG>ATG	p.T1016M		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1016	Cadherin 8.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		ATGAGATGTCGTCTCATAATC	0.373													29	70					0	0	0.059317	0	0		A	155242139	A	A	155242139	3	1	171	1	0	0	0	0	1	0	0	0	4291	1145	40	1	5751	1	DCHS2	4	155242139	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	6785101	155242139	35912137	52	89816											
DNAH5	1767	broad.mit.edu	37	chr5	13824336	13824336	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagattcatgtcccgtagtAcacgcatgacaatcgtggac	13	9	9	10	3	1	2	1	1	0	1	3	3	2	3	1	1	1	3	1	1	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:13824336A>T	uc003jfd.2	-	39	6593	c.6551T>A	c.(6550-6552)GTA>GAA	p.V2184E		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2184					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GTCCCGTAGTACACGCATGAC	0.448									Kartagener_syndrome				18	38					0	0	0.049695	0	0		T	13824336	T	T	13824336	3	4	171	1	0	0	0	0	1	0	0	0	4610	391	14	5	7487	5	DNAH5	5	13824336	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08		13824336	167090924	53	89817											
CAPSL	133690	broad.mit.edu	37	chr5	35910624	35910624	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagggttcgattattatcGtcatccataattctaaacac	13	14	5	9	2	3	0	2	0	1	0	6	1	4	0	1	1	1	1	1	1	6	6	rs75736388	byFrequency	TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:35910624G>A	uc003jjt.1	-	3	254	c.159C>T	c.(157-159)GAC>GAT	p.D53D	CAPSL_uc003jju.1_Silent_p.D53D	NM_001042625	NP_001036090	Q8WWF8	CAPSL_HUMAN	calcyphosine-like	53	EF-hand 1.|1 (Potential).					cytoplasm	calcium ion binding			skin(1)	1	all_lung(31;0.000268)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.167)|Colorectal(62;0.202)			GATTATTATCGTCATCCATAA	0.313													14	25					0	0	0.105934	0	0		A	35910624	A	A	35910624	2	1	171	1	0	0	0	0	0	0	0	1	2642	1136	40	1		1	CAPSL	5	35910624	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	22086288	35910624	145004636	54	89818											
NIPBL	25836	broad.mit.edu	37	chr5	37020626	37020626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctggaaacagaaaaagcaatGaaatcacaaaaagatgaaga	24	4	8	5	0	1	5	1	2	0	3	1	6	1	6	0	1	2	1	0	1	8	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:37020626G>A	uc003jkl.3	+	26	5575	c.5076G>A	c.(5074-5076)ATG>ATA	p.M1692I	NIPBL_uc003jkk.3_Missense_Mutation_p.M1692I	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1692					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AAAAAGCAATGAAATCACAAA	0.368													26	58					0	0	0.125774	0	0		A	37020626	A	A	37020626	3	1	171	1	0	0	0	0	1	0	0	0	10447	1290	45	4	5174	4	NIPBL	5	37020626	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	1110002	37020626	143894634	55	89819											
C5orf42	65250	broad.mit.edu	37	chr5	37183749	37183749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgattacacattttccTtttatcagttggcttatgaa	9	20	5	7	0	2	2	1	2	1	0	3	2	3	2	1	1	1	2	1	1	4	8			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:37183749T>C	uc011cpa.1	-	26	4765	c.4534A>G	c.(4534-4536)AGG>GGG	p.R1512G	C5orf42_uc011coy.1_Missense_Mutation_p.R13G|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.R587G|C5orf42_uc011cpb.1_Missense_Mutation_p.R393G	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1512										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CACATTTTCCTTTTATCAGTT	0.294													18	41					0	0	0.043863	0	0		C	37183749	C	C	37183749	3	2	171	1	0	0	0	0	1	0	0	0	2304	1608	56	3	5167	3	C5orf42	5	37183749	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	163123	37183749	143731511	56	89820											
CMYA5	202333	broad.mit.edu	37	chr5	79031976	79031976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagataatttggaaaacaGatcatataccttggcagaaa	19	9	8	5	0	1	3	1	0	0	3	1	5	1	4	1	2	2	1	1	2	7	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:79031976G>T	uc003kgc.2	+	2	7460	c.7388G>T	c.(7387-7389)AGA>ATA	p.R2463I		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2463						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TTGGAAAACAGATCATATACC	0.363													20	48					1.00905e-13	1.18923e-13	0.049695	1	0		T	79031976	T	T	79031976	3	4	171	1	0	0	0	0	1	0	0	0	3593	942	33	5	7394	5	CMYA5	5	79031976	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	41848227	79031976	101883284	57	89821											
GPR98	84059	broad.mit.edu	37	chr5	89949196	89949196	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatgtcttatattaccaacTtcaccattttgaggcagcag	12	14	6	9	0	2	1	1	1	1	0	2	1	2	1	2	1	3	2	2	1	5	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:89949196T>G	uc003kju.2	+	20	3901	c.3805T>G	c.(3805-3807)TTC>GTC	p.F1269V	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1269	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TATTACCAACTTCACCATTTT	0.433													14	42					0	0	0.105934	0	0		G	89949196	G	G	89949196	3	3	171	1	0	0	0	0	1	0	0	0	6737	1609	56	5	3883	5	GPR98	5	89949196	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	10917220	89949196	90966064	58	89822											
FBN2	2201	broad.mit.edu	37	chr5	127614390	127614390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttgtactgggcagttccagGaagtgggcaaagctcgcact	9	10	13	9	1	0	0	0	0	0	0	2	1	1	1	1	3	2	6	1	3	3	3	rs1801169		TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:127614390G>A	uc003kuu.2	-	57	7721	c.7282C>T	c.(7282-7284)CCT>TCT	p.P2428S		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	2428	TB 9.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GCAGTTCCAGGAAGTGGGCAA	0.478													19	64					0	0	0.055883	0	0		A	127614390	A	A	127614390	3	1	171	1	0	0	0	0	1	0	0	0	5717	1174	41	4	1492	4	FBN2	5	127614390	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	37665194	127614390	53300870	59	89823											
PCDHA1	56147	broad.mit.edu	37	chr5	140168138	140168138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtcgaactcacagcagaggCggcagagggtgtgctctagc	9	6	16	10	2	2	2	1	0	1	2	3	3	2	2	0	4	4	3	0	4	2	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:140168138C>T	uc003lhb.2	+	1	2263	c.2263C>T	c.(2263-2265)CGG>TGG	p.R755W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.R755W	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	755	Cytoplasmic (Potential).|5 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGCAGAGGCGGCAGAGGGT	0.617													8	23					0	0	0.038147	0	0		T	140168138	T	T	140168138	3	4	171	1	0	0	0	0	1	0	0	0	11538	759	27	1	2265	1	PCDHA1	5	140168138	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	12553748	140168138	40747122	60	89824											
PCDHA13	56136	broad.mit.edu	37	chr5	140263569	140263569	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgacgcccggggctggcagCgcgggaggcacagtgagcga	7	3	19	12	5	0	2	0	2	0	0	0	4	0	3	1	5	2	3	1	5	0	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:140263569C>T	uc003lif.2	+	1	1716	c.1716C>T	c.(1714-1716)AGC>AGT	p.S572S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.S572S|PCDHA13_uc003lid.2_Silent_p.S572S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	572	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCTGGCAGCGCGGGAGGCA	0.697													24	68					0	0	0.083992	0	0		T	140263569	T	T	140263569	2	4	171	1	0	0	0	0	0	0	0	1	11542	767	27	1		1	PCDHA13	5	140263569	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	95431	140263569	40651691	61	89825											
PCDHB12	56124	broad.mit.edu	37	chr5	140590358	140590358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaatggcgaggtgcgcaccGccaggctgctgagcgagcgc	8	4	16	13	5	0	1	0	1	0	0	0	3	0	1	2	3	4	3	2	3	1	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:140590358G>A	uc003liz.2	+	1	2068	c.1879G>A	c.(1879-1881)GCC>ACC	p.A627T	PCDHB12_uc011dak.1_Missense_Mutation_p.A290T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	627	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGTGCGCACCGCCAGGCTGCT	0.701													17	78					0	0	0.062417	0	0		A	140590358	A	A	140590358	3	1	171	1	0	0	0	0	1	0	0	0	11556	1087	38	1	1881	1	PCDHB12	5	140590358	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	326789	140590358	40324902	62	89826											
CYFIP2	26999	broad.mit.edu	37	chr5	156816394	156816394	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtggagcgccatgcagttCgtgtactgcatccctgtggg	5	11	14	11	2	0	0	0	0	0	0	2	1	1	1	2	2	4	4	2	2	1	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:156816394C>T	uc003lwq.2	+	31	3543	c.3405C>T	c.(3403-3405)TTC>TTT	p.F1135F	CYFIP2_uc011ddn.1_Silent_p.F1109F|CYFIP2_uc011ddo.1_Silent_p.F939F|CYFIP2_uc003lwr.2_Silent_p.F1135F|CYFIP2_uc003lws.2_Silent_p.F1135F|CYFIP2_uc003lwt.2_Silent_p.F1038F|CYFIP2_uc011ddp.1_Silent_p.F869F|CYFIP2_uc003lwv.2_Silent_p.F90F	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1160					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CCATGCAGTTCGTGTACTGCA	0.617													5	17					0	0	0.021553	0	0		T	156816394	T	T	156816394	2	4	171	1	0	0	0	0	0	0	0	1	4141	883	31	1		1	CYFIP2	5	156816394	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	16226036	156816394	24098866	63	89827											
HMMR	3161	broad.mit.edu	37	chr5	162901197	162901197	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattacaaattgattcacttCtgcaacaagagaaagtaatt	18	12	5	6	0	2	2	1	1	1	1	2	3	2	2	0	0	3	2	0	0	7	6			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr5:162901197C>A	uc003lzf.2	+	10	1218	c.1036C>A	c.(1036-1038)CTG>ATG	p.L346M	HMMR_uc003lzh.2_Missense_Mutation_p.L347M|HMMR_uc003lzg.2_Missense_Mutation_p.L331M|HMMR_uc011dem.1_Missense_Mutation_p.L260M	NM_012484	NP_036616	O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor isoform b	346						cell surface|cytoplasm	hyaluronic acid binding				0	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0296)|OV - Ovarian serous cystadenocarcinoma(192;0.0423)|Epithelial(171;0.0848)		TGATTCACTTCTGCAACAAGA	0.274													6	15					8.12818e-05	8.69264e-05	0.02938	1	0		A	162901197	A	A	162901197	3	1	171	1	0	0	0	0	1	0	0	0	7258	912	32	5	1077	5	HMMR	5	162901197	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	6084803	162901197	18014063	64	89828											
NUP153	9972	broad.mit.edu	37	chr6	17675564	17675564	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcagcttctggggaccacaGaggtggcaatgaagtgttct	9	11	13	8	0	3	2	1	1	2	1	3	3	3	3	1	4	1	3	1	4	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr6:17675564G>C	uc003ncd.1	-	4	819	c.619C>G	c.(619-621)CTG>GTG	p.L207V	NUP153_uc011dje.1_Missense_Mutation_p.L207V|NUP153_uc010jpl.1_Missense_Mutation_p.L207V	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	207					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			GGGGACCACAGAGGTGGCAAT	0.393													16	29					0	0	0.0333	0	0		C	17675564	C	C	17675564	3	2	171	1	0	0	0	0	1	0	0	0	10774	933	33	5	3884	5	NUP153	6	17675564	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		17675564	153439503	65	89829											
TMEM200A	114801	broad.mit.edu	37	chr6	130761908	130761908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaggcggtgtggtggttcGcttctttgagcagcatttgc	5	14	15	7	2	1	2	0	2	1	0	2	2	1	2	0	4	3	4	0	4	1	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr6:130761908G>A	uc003qca.2	+	3	1212	c.341G>A	c.(340-342)CGC>CAC	p.R114H	TMEM200A_uc010kfh.2_Missense_Mutation_p.R114H|TMEM200A_uc010kfi.2_Missense_Mutation_p.R114H|TMEM200A_uc003qcb.2_Missense_Mutation_p.R114H	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	114	Extracellular (Potential).					integral to membrane				ovary(1)	1				GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)		GTGGTGGTTCGCTTCTTTGAG	0.408													19	20					0	0	0.062417	0	0		A	130761908	A	A	130761908	3	1	171	1	0	0	0	0	1	0	0	0	16148	1087	38	1	343	1	TMEM200A	6	130761908	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	113086344	130761908	40353159	66	89830											
INTS1	26173	broad.mit.edu	37	chr7	1517526	1517526	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagagaagaatgcagtcagCagctcctccaggtgggggga	11	5	16	9	0	1	2	1	0	0	2	3	4	3	3	2	4	3	4	2	4	2	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:1517526C>A	uc003skn.2	-	34	4778	c.4677G>T	c.(4675-4677)CTG>CTT	p.L1559L	INTS1_uc003skm.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1559					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		ATGCAGTCAGCAGCTCCTCCA	0.647													6	52					3.59834e-05	3.88419e-05	0.021553	1	0		A	1517526	A	A	1517526	2	1	171	1	0	0	0	0	0	0	0	1	7791	697	25	5		5	INTS1	7	1517526	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08		1517526	157621137	67	89831											
GPR141	353345	broad.mit.edu	37	chr7	37780254	37780254	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggatgtttgggctgcccTtctgcaaatttgtgagtgcc	5	15	12	9	0	1	1	0	1	1	0	1	2	1	2	2	2	3	3	2	2	1	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:37780254T>G	uc003tfm.1	+	1	259	c.259T>G	c.(259-261)TTC>GTC	p.F87V	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	87	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						TGGGCTGCCCTTCTGCAAATT	0.488													25	44					0	0	0.083992	0	0		G	37780254	G	G	37780254	3	3	171	1	0	0	0	0	1	0	0	0	6664	1609	56	5	261	5	GPR141	7	37780254	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	36262728	37780254	121358409	68	89832											
AMPH	273	broad.mit.edu	37	chr7	38534094	38534094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcatagacttcatgcagcGactctgtgagcttcatggag	9	11	11	10	1	4	2	3	1	1	1	4	4	4	3	0	1	3	3	0	1	1	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:38534094G>A	uc003tgu.2	-	4	308	c.239C>T	c.(238-240)TCG>TTG	p.S80L	AMPH_uc003tgv.2_Missense_Mutation_p.S80L	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	80	BAR.|Potential.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						TTCATGCAGCGACTCTGTGAG	0.532													34	82					0	0	0.074837	0	0		A	38534094	A	A	38534094	3	1	171	1	0	0	0	0	1	0	0	0	588	1059	37	1	1920	1	AMPH	7	38534094	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	753840	38534094	120604569	69	89833											
ZNF735	730291	broad.mit.edu	37	chr7	63673516	63673516	+	Missense_Mutation	SNP	A	G	G	1	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	tatagaattctctctggcggAgtggcaatgcctggatcatg	9	12	12	8	1	3	1	1	0	2	1	4	3	3	3	1	4	1	1	1	4	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:63673516A>G	uc011kdn.1	+	2	86	c.86A>G	c.(85-87)GAG>GGG	p.E29G		NM_001159524	NP_001152996	P0CB33	ZN735_HUMAN	zinc finger protein 735	29	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTCTGGCGGAGTGGCAATGC	0.413													6	33					0	0	0.021553	0	0		G	63673516	G	G	63673516	3	3	171	1	0	0	0	0	1	0	0	0	18149	304	11	3	92	3	ZNF735	7	63673516	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	25139422	63673516	95465147	70	89834											
ZNF107	51427	broad.mit.edu	37	chr7	64168394	64168394	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaaaccttactacacaaaAgataattcatactggagaga	18	9	5	9	0	2	2	2	0	0	2	2	4	2	3	1	1	4	0	1	1	7	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:64168394A>G	uc003ttd.2	+	7	2498	c.1712A>G	c.(1711-1713)AAG>AGG	p.K571R	ZNF107_uc003tte.2_Missense_Mutation_p.K571R	NM_016220	NP_057304	Q9UII5	ZN107_HUMAN	zinc finger protein 107	571	C2H2-type 18; atypical.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.00948)|all_lung(88;0.0249)				ACTACACAAAAGATAATTCAT	0.323													28	55					0	0	0.134883	0	0		G	64168394	G	G	64168394	3	3	171	1	0	0	0	0	1	0	0	0	17740	72	3	3	1718	3	ZNF107	7	64168394	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	494878	64168394	94970269	71	89835											
CDK14	5218	broad.mit.edu	37	chr7	90546950	90546950	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgctgcgaggtctgtcttAcatccaccagcgttatattt	7	15	9	10	2	2	0	0	0	2	0	3	1	3	0	2	1	4	3	2	1	3	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:90546950A>T	uc003uky.2	+	8	959	c.737A>T	c.(736-738)TAC>TTC	p.Y246F	CDK14_uc003ukz.1_Missense_Mutation_p.Y228F|CDK14_uc010les.1_Missense_Mutation_p.Y200F|CDK14_uc011khl.1_Missense_Mutation_p.Y117F	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	246	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GGTCTGTCTTACATCCACCAG	0.413													77	113					0	0	0.139131	0	0		T	90546950	T	T	90546950	3	4	171	1	0	0	0	0	1	0	0	0	3133	391	14	5	709	5	CDK14	7	90546950	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	26378556	90546950	68591713	72	89836											
PON1	5444	broad.mit.edu	37	chr7	94937461	94937461	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggattgtaagtaggggtcaAgaaaatagtgatcatttgtg	14	12	13	2	0	2	2	2	1	0	1	2	3	2	3	0	3	0	2	0	3	6	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:94937461A>G	uc003uns.2	-	6	657	c.560T>C	c.(559-561)CTT>CCT	p.L187P	PON1_uc011kih.1_Missense_Mutation_p.L187P	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	187					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	GTAGGGGTCAAGAAAATAGTG	0.388													19	49					0	0	0.055883	0	0		G	94937461	G	G	94937461	3	3	171	1	0	0	0	0	1	0	0	0	12267	72	3	3	523	3	PON1	7	94937461	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	4390511	94937461	64201202	73	89837											
DNAJB6	10049	broad.mit.edu	37	chr7	157177654	157177654	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgggcaacttcaaatcgaTatcaacttcaactaaaatgg	16	10	6	9	1	3	0	3	0	0	0	4	1	3	0	0	2	3	1	0	2	7	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr7:157177654T>C	uc003wnk.2	+	7	726	c.572T>C	c.(571-573)ATA>ACA	p.I191T	DNAJB6_uc003wnj.2_Missense_Mutation_p.I191T|DNAJB6_uc003wnl.2_Missense_Mutation_p.I178T|DNAJB6_uc011kvy.1_Missense_Mutation_p.I142T|DNAJB6_uc011kvz.1_Intron|DNAJB6_uc010lqt.2_Missense_Mutation_p.I191T	NM_058246	NP_490647	O75190	DNJB6_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 6	191	Interaction with KRT18.				intermediate filament organization|negative regulation of caspase activity|protein folding|response to unfolded protein	nucleus|perinuclear region of cytoplasm	ATPase activator activity|chaperone binding|heat shock protein binding|unfolded protein binding			ovary(2)	2	all_neural(206;0.181)	all_epithelial(9;0.000606)|all_hematologic(28;0.00287)|Acute lymphoblastic leukemia(9;0.0647)|Ovarian(593;0.196)	OV - Ovarian serous cystadenocarcinoma(82;0.00399)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		TTCAAATCGATATCAACTTCA	0.408													31	34					0	0	0.125774	0	0		C	157177654	C	C	157177654	3	2	171	1	0	0	0	0	1	0	0	0	4630	1406	49	3	594	3	DNAJB6	7	157177654	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	62240193	157177654	1961009	74	89838											
MCPH1	79648	broad.mit.edu	37	chr8	6312749	6312749	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaacctcatgaggaattGaagaaaagtgggagaggcaa	18	6	12	5	0	2	4	2	2	0	2	2	6	2	5	1	3	1	1	1	3	6	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:6312749G>T	uc003wqi.2	+	9	1979	c.1911G>T	c.(1909-1911)TTG>TTT	p.L637F		NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	637						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		ATGAGGAATTGAAGAAAAGTG	0.368													29	81					1.88708e-17	2.24699e-17	0.134883	1	0		T	6312749	T	T	6312749	3	4	171	1	0	0	0	0	1	0	0	0	9416	1281	45	5	1953	5	MCPH1	8	6312749	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		6312749	140051273	75	89839											
DLC1	10395	broad.mit.edu	37	chr8	13357278	13357278	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actagtgtttctgtgctggcTtccagagaaagaaactgatc	11	12	10	8	0	1	3	0	1	1	2	3	4	2	3	1	1	2	3	1	1	3	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:13357278T>C	uc003wwm.2	-	2	747	c.303A>G	c.(301-303)GAA>GAG	p.E101E	DLC1_uc003wwn.2_Silent_p.E101E|DLC1_uc011kxy.1_Silent_p.E101E	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	101					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTGTGCTGGCTTCCAGAGAAA	0.423													93	201					0	0	0.139131	0	0		C	13357278	C	C	13357278	2	2	171	1	0	0	0	0	0	0	0	1	4556	1606	56	3		3	DLC1	8	13357278	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	7044529	13357278	133006744	76	89840											
PSD3	23362	broad.mit.edu	37	chr8	18729760	18729760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaataaaaactttcctccGttgttacttcagctgaaaga	14	13	5	9	1	2	2	2	1	0	1	4	2	4	2	2	0	3	3	2	0	6	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:18729760G>A	uc003wza.2	-	3	717	c.614C>T	c.(613-615)ACG>ATG	p.T205M		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	205					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		ACTTTCCTCCGTTGTTACTTC	0.438													33	80					0	0	0.069456	0	0		A	18729760	A	A	18729760	3	1	171	1	0	0	0	0	1	0	0	0	12670	1145	40	1	2621	1	PSD3	8	18729760	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	5372482	18729760	127634262	77	89841											
UNC5D	137970	broad.mit.edu	37	chr8	35425650	35425650	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagtgttcatcaatgttacTaggcaacaggtggaggactt	12	11	12	6	0	2	0	2	0	0	0	2	3	2	2	0	4	2	3	0	4	5	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:35425650T>C	uc003xjr.1	+	3	685	c.357T>C	c.(355-357)ACT>ACC	p.T119T	UNC5D_uc003xjs.1_Silent_p.T114T	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	119	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		TCAATGTTACTAGGCAACAGG	0.512													7	167					0	0	0.02938	0	0		C	35425650	C	C	35425650	2	2	171	1	0	0	0	0	0	0	0	1	17021	1509	53	3		3	UNC5D	8	35425650	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	16695890	35425650	110938372	78	89842											
DKK4	27121	broad.mit.edu	37	chr8	42231770	42231770	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atgccctcttctggagcagaCctgtccctccaaaaggactg	9	9	9	14	0	2	1	0	0	2	1	4	3	4	3	4	2	2	1	4	2	2	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:42231770C>G	uc003xpb.2	-	4	634	c.523G>C	c.(523-525)GTC>CTC	p.V175L		NM_014420	NP_055235	Q9UBT3	DKK4_HUMAN	dickkopf homolog 4 precursor	175	DKK-type Cys-2.				multicellular organismal development|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region				ovary(1)	1	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;3.48e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|Lung(22;0.00597)|LUSC - Lung squamous cell carcinoma(45;0.024)			CTGGAGCAGACCTGTCCCTCC	0.502													6	97					0	0	0.021553	0	0		G	42231770	G	G	42231770	3	3	171	1	0	0	0	0	1	0	0	0	4553	507	18	5	155	5	DKK4	8	42231770	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	6806120	42231770	104132252	79	89843											
PXDNL	137902	broad.mit.edu	37	chr8	52323896	52323896	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	caaaaatctcccctgctcttGccatttccacaatcagtggg	10	11	6	14	0	3	0	1	0	2	0	5	0	4	0	4	1	2	1	4	1	3	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:52323896G>A	uc003xqu.3	-	16	2077	c.1976C>T	c.(1975-1977)GCA>GTA	p.A659V	PXDNL_uc003xqt.3_5'Flank	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	659					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CCCTGCTCTTGCCATTTCCAC	0.502													10	9					0	0	0.058154	0	0		A	52323896	A	A	52323896	3	1	171	1	0	0	0	0	1	0	0	0	12873	1319	46	2	2447	2	PXDNL	8	52323896	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	10092126	52323896	94040126	80	89844											
TCEA1	6917	broad.mit.edu	37	chr8	54891686	54891686	+	Missense_Mutation	SNP	T	C	C	0	1	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	atgctctctgatggcttcttTggtcaagtttttccgcatct	5	18	8	10	1	4	1	1	1	3	0	6	1	5	1	1	2	1	4	1	2	1	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:54891686T>C	uc003xru.2	-	8	1047	c.724A>G	c.(724-726)AAA>GAA	p.K242E	TCEA1_uc003xrv.2_Missense_Mutation_p.K221E|TCEA1_uc011ldw.1_Missense_Mutation_p.K58E|TCEA1_uc010lyg.2_RNA	NM_006756	NP_006747	P23193	TCEA1_HUMAN	transcription elongation factor A 1 isoform 1	242	TFIIS central.				positive regulation of viral transcription|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	nucleoplasm	DNA binding|translation elongation factor activity|zinc ion binding				0		Lung NSC(129;0.109)|all_epithelial(80;0.11)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;9.1e-07)|Epithelial(17;9.44e-05)|all cancers(17;0.000699)			ATGGCTTCTTTGGTCAAGTTT	0.438			T	PLAG1	salivary adenoma								14	97					0	0	0.0333	0	0		C	54891686	C	C	54891686	3	2	171	1	0	0	0	0	1	0	0	0	15692	1821	63	3	193	3	TCEA1	8	54891686	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	2567790	54891686	91472336	81	89845											
VPS13B	157680	broad.mit.edu	37	chr8	100729456	100729456	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cgattttctccttaaaacaaGtctcaaagaaagaagccgca	16	9	6	10	2	2	2	1	0	2	2	4	3	2	2	2	0	2	1	2	0	6	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:100729456G>A	uc003yiv.2	+	37	6698	c.6587G>A	c.(6586-6588)AGT>AAT	p.S2196N	VPS13B_uc003yiw.2_Missense_Mutation_p.S2171N	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2196					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CTTAAAACAAGTCTCAAAGAA	0.383													13	46					0	0	0.11911	0	0		A	100729456	A	A	100729456	3	1	171	1	0	0	0	0	1	0	0	0	17216	1029	36	4	6923	4	VPS13B	8	100729456	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	45837770	100729456	45634566	82	89846											
FLJ43860	389690	broad.mit.edu	37	chr8	142490526	142490526	+	Frame_Shift_Del	DEL	A	-	-																															accacacatccgtgctcaggAacgggactgacttgatggcc																										TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:142490526delA	uc003ywi.2	-	7	854	c.773delT	c.(772-774)TTCfs	p.F258fs	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	258							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CGTGCTCAGGAACGGGACTGA	0.632													18	30	---	---	---	---						.	-	142490526	-	-	142490526	7	5	171	1	0	1	0	1	0	0	0	0	5944	246	9	0	3279	0	FLJ43860	8	142490526	Frame_Shift_Del	DEL	A	TCGA-D7-6525-01A-11D-1800-08	41761070	142490526	3873496	83	89847											
ZNF34	80778	broad.mit.edu	37	chr8	145998712	145998712	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacacatgttggaactgtgcCggaaggccttcccacactcg	9	8	11	13	2	0	0	0	0	0	0	2	3	1	2	3	3	2	1	3	3	2	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr8:145998712C>A	uc003zdy.3	-	6	1724	c.1622G>T	c.(1621-1623)CGG>CTG	p.R541L	ZNF34_uc010mgb.2_Missense_Mutation_p.R438L|ZNF34_uc003zdx.3_Missense_Mutation_p.R520L	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	541	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		GGAACTGTGCCGGAAGGCCTT	0.587													34	67					2.48696e-23	2.99212e-23	0.059317	1	0		A	145998712	A	A	145998712	3	1	171	1	0	0	0	0	1	0	0	0	17881	652	23	5	64	5	ZNF34	8	145998712	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	3508186	145998712	365310	84	89848											
BNC2	54796	broad.mit.edu	37	chr9	16436469	16436469	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccctggagtgagtaaacTtctataaaatggaggaactg	13	11	10	7	0	1	1	0	1	1	0	2	4	2	4	2	3	2	1	2	3	6	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr9:16436469T>G	uc003zml.2	-	6	1863	c.1723A>C	c.(1723-1725)AGT>CGT	p.S575R	BNC2_uc011lmw.1_Missense_Mutation_p.S480R|BNC2_uc003zmm.2_Missense_Mutation_p.S533R|BNC2_uc003zmq.1_Missense_Mutation_p.S589R|BNC2_uc003zmr.1_Missense_Mutation_p.S612R|BNC2_uc003zmp.1_Missense_Mutation_p.S603R|BNC2_uc010mij.1_Missense_Mutation_p.S497R|BNC2_uc011lmv.1_Missense_Mutation_p.S401R|BNC2_uc003zmo.1_Missense_Mutation_p.S497R|BNC2_uc003zmj.2_Missense_Mutation_p.S340R|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Missense_Mutation_p.S340R|BNC2_uc003zmn.1_Missense_Mutation_p.S340R	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	575	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	zinc ion binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(50;9.01e-08)		GTGAGTAAACTTCTATAAAAT	0.517													29	42					0	0	0.134883	0	0		G	16436469	G	G	16436469	3	3	171	1	0	0	0	0	1	0	0	0	1476	1609	56	5	1584	5	BNC2	9	16436469	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08		16436469	124776962	85	89849											
SETX	23064	broad.mit.edu	37	chr9	135202556	135202556	+	Missense_Mutation	SNP	T	A	A	0	1	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	tccttctttcaaagctgccaTctctatatgacgtgctgttg	7	16	7	11	1	3	1	1	1	2	0	5	1	4	1	2	0	3	3	2	0	3	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr9:135202556T>A	uc004cbk.2	-	10	4612	c.4429A>T	c.(4429-4431)ATG>TTG	p.M1477L	SETX_uc004cbj.2_Missense_Mutation_p.M1096L|SETX_uc010mzt.2_Missense_Mutation_p.M1096L	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1477					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		AAAGCTGCCATCTCTATATGA	0.413													5	114					0	0	0.014758	0	0		A	135202556	A	A	135202556	3	1	171	1	0	0	0	0	1	0	0	0	14166	1435	50	5	3672	5	SETX	9	135202556	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	118766087	135202556	6010875	86	89850											
BARHL1	56751	broad.mit.edu	37	chr9	135462862	135462862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggcagaagtacctgagcGtgcaggaccgcatggagctc	10	5	15	11	3	0	2	0	1	0	1	1	4	0	4	2	3	5	5	2	3	2	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr9:135462862G>A	uc004cbp.1	+	2	805	c.613G>A	c.(613-615)GTG>ATG	p.V205M		NM_020064	NP_064448	Q9BZE3	BARH1_HUMAN	BarH-like homeobox 1	205	Homeobox.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;1.79e-06)|Epithelial(140;3.12e-05)		GTACCTGAGCGTGCAGGACCG	0.667													11	3					0	0	0.105934	0	0		A	135462862	A	A	135462862	3	1	171	1	0	0	0	0	1	0	0	0	1314	1145	40	1	619	1	BARHL1	9	135462862	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	260306	135462862	5750569	87	89851											
USP6NL	9712	broad.mit.edu	37	chr10	11523795	11523795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaggtctaactttgccCgctttagttctgtcatagaa	9	14	9	9	1	3	1	1	0	2	1	3	2	3	2	1	2	2	2	1	2	5	6			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr10:11523795C>T	uc001ikt.3	-	14	1373	c.1052G>A	c.(1051-1053)CGG>CAG	p.R351Q	USP6NL_uc001iks.1_Missense_Mutation_p.R368Q	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	351						intracellular	Rab GTPase activator activity				0						TAACTTTGCCCGCTTTAGTTC	0.363													6	31					0	0	0.047766	0	0		T	11523795	T	T	11523795	3	4	171	1	0	0	0	0	1	0	0	0	17113	652	23	1	1442	1	USP6NL	10	11523795	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08		11523795	124010952	88	89852											
C1QL3	389941	broad.mit.edu	37	chr10	16562644	16562644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgtcgaacttgagcacctCgtagccttcatgctgccgct	6	11	10	14	4	1	1	1	1	0	0	4	2	1	1	3	0	5	4	3	0	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr10:16562644C>T	uc001ioj.1	-	1	1361	c.421G>A	c.(421-423)GAG>AAG	p.E141K		NM_001010908	NP_001010908	Q5VWW1	C1QL3_HUMAN	complement component 1, q subcomponent-like 3	141	C1q.					collagen				ovary(1)	1						TTGAGCACCTCGTAGCCTTCA	0.602													27	46					0	0	0.108266	0	0		T	16562644	T	T	16562644	3	4	171	1	0	0	0	0	1	0	0	0	1963	893	31	1	354	1	C1QL3	10	16562644	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	5038849	16562644	118972103	89	89853											
BICC1	80114	broad.mit.edu	37	chr10	60560026	60560026	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctgagtgcaaatcacgggGatccgtccatccagacaagt	11	8	11	11	2	1	2	1	1	0	1	4	3	4	3	3	2	2	2	3	2	2	0	rs34714605		TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr10:60560026G>T	uc001jki.1	+	13	1798	c.1798G>T	c.(1798-1800)GAT>TAT	p.D600Y	BICC1_uc001jkj.1_Missense_Mutation_p.D241Y	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	600					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						AAATCACGGGGATCCGTCCAT	0.403													13	26					0.00244969	0.00256054	0.11911	1	0		T	60560026	T	T	60560026	3	4	171	1	0	0	0	0	1	0	0	0	1428	1174	41	5	1848	5	BICC1	10	60560026	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	43997382	60560026	74974721	90	89854											
CPN1	1369	broad.mit.edu	37	chr10	101835745	101835745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtgtcctggatgagctggaCgatgcgctggttcctgttcc	4	12	14	11	3	0	1	0	1	0	0	3	4	3	3	3	3	2	4	3	3	0	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr10:101835745C>T	uc001kql.2	-	2	603	c.343G>A	c.(343-345)GTC>ATC	p.V115I		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	115	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		ATGAGCTGGACGATGCGCTGG	0.617													16	50					0	0	0.146539	0	0		T	101835745	T	T	101835745	3	4	171	1	0	0	0	0	1	0	0	0	3812	536	19	1	1065	1	CPN1	10	101835745	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	41275719	101835745	33699002	91	89855											
ATRNL1	26033	broad.mit.edu	37	chr10	117059577	117059577	+	Missense_Mutation	SNP	A	C	C	1	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	gggtaggcttgcgcaagatcAatatatcctattggggatgg	10	11	14	6	1	1	1	1	0	0	1	2	2	2	2	1	5	1	3	1	5	6	6			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr10:117059577A>C	uc001lcg.2	+	16	2835	c.2449A>C	c.(2449-2451)AAT>CAT	p.N817H	ATRNL1_uc010qsm.1_5'UTR|ATRNL1_uc010qsn.1_5'Flank	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	817	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		GCGCAAGATCAATATATCCTA	0.408													21	70					0	0	0.062417	0	0		C	117059577	C	C	117059577	3	2	171	1	0	0	0	0	1	0	0	0	1208	130	5	5	2511	5	ATRNL1	10	117059577	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	15223832	117059577	18475170	92	89856											
OR51M1	390059	broad.mit.edu	37	chr11	5411155	5411155	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctattgtcctcctcctgaAggcttttccctactgtggat	5	15	7	14	0	0	1	0	1	0	0	4	2	4	2	5	2	1	1	5	2	3	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:5411155A>G	uc010qzc.1	+	1	527	c.527A>G	c.(526-528)AAG>AGG	p.K176R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	176						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTCCTCCTGAAGGCTTTTCCC	0.512													52	143					0	0	0.139131	0	0		G	5411155	G	G	5411155	3	3	171	1	0	0	0	0	1	0	0	0	11122	72	3	3	529	3	OR51M1	11	5411155	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08		5411155	129595361	93	89857											
NELL1	4745	broad.mit.edu	37	chr11	20959354	20959354	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatgtatctatggaggaaaAgttcttgcagaaggccagcg	14	9	12	6	1	2	1	0	0	2	1	2	3	2	3	1	3	2	3	1	3	6	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:20959354A>C	uc001mqe.2	+	10	1173	c.1020A>C	c.(1018-1020)AAA>AAC	p.K340N	NELL1_uc001mqf.2_Missense_Mutation_p.K340N|NELL1_uc009yid.2_Missense_Mutation_p.K368N|NELL1_uc010rdo.1_Missense_Mutation_p.K283N|NELL1_uc010rdp.1_Missense_Mutation_p.K100N	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	340	VWFC 2.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						ATGGAGGAAAAGTTCTTGCAG	0.403													14	45					0	0	0.0333	0	0		C	20959354	C	C	20959354	3	2	171	1	0	0	0	0	1	0	0	0	10352	69	3	5	1058	5	NELL1	11	20959354	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	15548199	20959354	114047162	94	89858											
CD44	960	broad.mit.edu	37	chr11	35232982	35232982	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattccaactctaatgtcaAtcgttccttatcaggtaatt	12	15	5	9	1	3	1	2	0	1	1	6	1	5	1	2	1	1	2	2	1	5	6			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:35232982A>G	uc001mvu.2	+	14	2230	c.1796A>G	c.(1795-1797)AAT>AGT	p.N599S	CD44_uc001mvv.2_Missense_Mutation_p.N556S|CD44_uc001mvw.2_Missense_Mutation_p.N350S|CD44_uc001mvx.2_Intron|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Missense_Mutation_p.N286S|CD44_uc010rer.1_Intron|CD44_uc009ykh.2_Intron|CD44_uc010res.1_Missense_Mutation_p.N163S|CD44_uc010ret.1_RNA|CD44_uc010reu.1_Missense_Mutation_p.N127S	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	599	Extracellular (Potential).|Stem.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	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)		Hyaluronidase(DB00070)	TCTAATGTCAATCGTTCCTTA	0.383													34	82					0	0	0.054565	0	0		G	35232982	G	G	35232982	3	3	171	1	0	0	0	0	1	0	0	0	3020	101	4	3	1850	3	CD44	11	35232982	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	14273628	35232982	99773534	95	89859											
RAG1	5896	broad.mit.edu	37	chr11	36594879	36594879	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcctctttcccacccaccTtgggactcagttctgcccca	6	10	6	19	0	3	0	1	0	2	0	4	1	4	1	6	1	2	1	6	1	0	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:36594879T>G	uc001mwu.3	+	2	149	c.25T>G	c.(25-27)TTG>GTG	p.L9V	RAG1_uc001mwt.2_RNA	NM_000448	NP_000439	P15918	RAG1_HUMAN	recombination activating gene 1	9	Interaction with importin alpha-1.				histone monoubiquitination|immune response|pre-B cell allelic exclusion|protein autoubiquitination|T cell differentiation in thymus|V(D)J recombination	nucleus	endonuclease activity|histone binding|protein homodimerization activity|sequence-specific DNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|pancreas(1)|lung(1)|kidney(1)|skin(1)	5	all_lung(20;0.226)	all_hematologic(20;0.107)				CCCACCCACCTTGGGACTCAG	0.423									Familial_Hemophagocytic_Lymphohistiocytosis				31	49					0	0	0.074837	0	0		G	36594879	G	G	36594879	3	3	171	1	0	0	0	0	1	0	0	0	13028	1606	56	5	27	5	RAG1	11	36594879	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	1361897	36594879	98411637	96	89860											
LRRC4C	57689	broad.mit.edu	37	chr11	40136913	40136913	+	Silent	SNP	C	A	A	0	0	0	1	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	tttatccaccagctgagccaCagtatgtcacagttacagtt	11	12	7	11	0	1	1	1	1	0	0	2	1	2	1	3	0	3	4	3	0	3	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:40136913C>A	uc001mxa.1	-	2	2894	c.930G>T	c.(928-930)CTG>CTT	p.L310L	LRRC4C_uc001mxc.1_Silent_p.L306L|LRRC4C_uc001mxd.1_Silent_p.L306L|LRRC4C_uc001mxb.1_Silent_p.L306L	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor	310	LRRCT.				regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				AGCTGAGCCACAGTATGTCAC	0.478													17	43					2.23348e-06	2.44519e-06	0.146539	1	0		A	40136913	A	A	40136913	2	1	171	1	0	0	0	0	0	0	0	1	9026	465	17	5		5	LRRC4C	11	40136913	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	3542034	40136913	94869603	97	89861											
CHST1	8534	broad.mit.edu	37	chr11	45671646	45671646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggagttggagaagtcctcGcacaccgtggtcagctgcgt	8	8	14	11	4	1	1	1	0	0	1	3	3	2	2	2	3	2	3	2	3	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:45671646G>A	uc001mys.1	-	4	1499	c.828C>T	c.(826-828)TGC>TGT	p.C276C		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	276	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		AGAAGTCCTCGCACACCGTGG	0.647													29	52					0	0	0.144211	0	0		A	45671646	A	A	45671646	2	1	171	1	0	0	0	0	0	0	0	1	3400	1079	38	1		1	CHST1	11	45671646	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	5534733	45671646	89334870	98	89862											
OR4A47	403253	broad.mit.edu	37	chr11	48510689	48510689	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtctttctcctgttggtGatggcctatgactgctatgt	5	16	12	8	0	2	2	0	2	2	0	3	3	2	2	2	3	1	2	2	3	2	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:48510689G>T	uc010rhx.1	+	1	345	c.345G>T	c.(343-345)GTG>GTT	p.V115V		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TCCTGTTGGTGATGGCCTATG	0.473													22	68					1.10923e-09	1.24385e-09	0.076483	1	0		T	48510689	T	T	48510689	2	4	171	1	0	0	0	0	0	0	0	1	11061	1277	45	5		5	OR4A47	11	48510689	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	2839043	48510689	86495827	99	89863											
OR8H3	390152	broad.mit.edu	37	chr11	55890635	55890635	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttacttacttaaagccaAgaaagtcttattccttggga	12	16	6	7	0	1	1	0	0	1	1	2	2	2	2	2	1	3	0	2	1	7	8			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:55890635A>G	uc001nii.1	+	1	787	c.787A>G	c.(787-789)AGA>GGA	p.R263G		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CTTAAAGCCAAGAAAGTCTTA	0.388													35	76					0	0	0.059317	0	0		G	55890635	G	G	55890635	3	3	171	1	0	0	0	0	1	0	0	0	11258	64	3	3	789	3	OR8H3	11	55890635	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	7379946	55890635	79115881	100	89864											
OR9Q2	219957	broad.mit.edu	37	chr11	57958763	57958763	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagacaacacaggccagtcCtccgagggagaccgagtggt	11	4	14	12	3	0	2	0	0	0	2	2	6	2	2	4	3	1	0	4	3	1	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:57958763C>A	uc010rka.1	+	1	801	c.801C>A	c.(799-801)TCC>TCA	p.S267S		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				CAGGCCAGTCCTCCGAGGGAG	0.562													24	67					7.16444e-05	7.69761e-05	0.0918	1	0		A	57958763	A	A	57958763	2	1	171	1	0	0	0	0	0	0	0	1	11275	668	24	5		5	OR9Q2	11	57958763	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	2068128	57958763	77047753	101	89865											
PGA5	5222	broad.mit.edu	37	chr11	61017430	61017430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcagcctgcccgacatcGtcttcaccatcaatggagtc	9	9	8	15	2	4	0	3	0	1	0	6	2	4	1	3	1	3	1	3	1	1	1	rs145812727	byFrequency	TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:61017430G>A	uc001nqz.2	+	8	991	c.961G>A	c.(961-963)GTC>ATC	p.V321I		NM_014224	NP_055039	P00790	PEPA_HUMAN	pepsinogen 5, group I precursor	321					digestion|proteolysis	extracellular region	aspartic-type endopeptidase activity			skin(1)	1						GCCCGACATCGTCTTCACCAT	0.552													14	21					0	0	0.049695	0	0		A	61017430	A	A	61017430	3	1	171	1	0	0	0	0	1	0	0	0	11791	1145	40	1	991	1	PGA5	11	61017430	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	3058667	61017430	73989086	102	89866											
TYR	7299	broad.mit.edu	37	chr11	88961116	88961116	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgatcctatcttccttCttcaccatgcatttgttgac	8	15	4	14	1	3	1	1	1	2	0	5	2	5	1	4	0	2	2	4	0	2	6			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:88961116C>A	uc001pcs.2	+	3	1244	c.1162C>A	c.(1162-1164)CTT>ATT	p.L388I		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	388	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	TATCTTCCTTCTTCACCATGC	0.398									Oculocutaneous_Albinism				14	73					7.93312e-07	8.72643e-07	0.11911	1	0		A	88961116	A	A	88961116	3	1	171	1	0	0	0	0	1	0	0	0	16839	913	32	5	1172	5	TYR	11	88961116	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	27943686	88961116	46045400	103	89867											
FAM76B	143684	broad.mit.edu	37	chr11	95509183	95509183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagtctgcctttagttcaGttaactgagagattaaagaa	15	12	9	5	0	2	3	1	1	1	2	2	5	2	3	1	0	2	2	1	0	6	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:95509183G>A	uc001pfn.2	-	9	1145	c.833C>T	c.(832-834)ACT>ATT	p.T278I	FAM76B_uc001pfm.2_RNA	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684	278	Potential.										0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CTTTAGTTCAGTTAACTGAGA	0.313													10	33					0	0	0.058154	0	0		A	95509183	A	A	95509183	3	1	171	1	0	0	0	0	1	0	0	0	5639	1029	36	4	194	4	FAM76B	11	95509183	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	6548067	95509183	39497333	104	89868											
DRD2	1813	broad.mit.edu	37	chr11	113295233	113295233	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgttgccgaagacgatGacagcgatgagcagggtgag	12	5	16	8	4	0	4	0	3	0	1	0	7	0	4	1	1	4	3	1	1	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:113295233G>T	uc001pnz.2	-	1	462	c.141C>A	c.(139-141)GTC>GTA	p.V47V	DRD2_uc010rwv.1_Silent_p.V47V|DRD2_uc001poa.3_Silent_p.V47V|DRD2_uc001pob.3_Silent_p.V47V|DRD2_uc009yyr.1_Silent_p.V47V	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	47	Helical; Name=1; (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		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)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	CGAAGACGATGACAGCGATGA	0.617													24	63					1.66031e-10	1.87088e-10	0.0918	1	0		T	113295233	T	T	113295233	2	4	171	1	0	0	0	0	0	0	0	1	4763	1277	45	5		5	DRD2	11	113295233	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	17786050	113295233	21711283	105	89869											
OR8B4	283162	broad.mit.edu	37	chr11	124294043	124294043	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagcaacagcaattatgtggGagccccatgtgctaaaggct	12	8	12	9	0	0	0	0	0	0	0	0	2	0	1	2	2	5	4	2	2	5	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:124294043G>C	uc010sak.1	-	1	725	c.725C>G	c.(724-726)TCC>TGC	p.S242C		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	242	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		AATTATGTGGGAGCCCCATGT	0.463													12	24					0	0	0.105934	0	0		C	124294043	C	C	124294043	3	2	171	1	0	0	0	0	1	0	0	0	11248	1174	41	5	206	5	OR8B4	11	124294043	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	10998810	124294043	10712473	106	89870											
OPCML	4978	broad.mit.edu	37	chr11	132290089	132290089	+	Nonstop_Mutation	SNP	A	G	G	1	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	aggacctaggatttcttatcAaaacttgatgaagaagtggg	14	11	11	5	0	2	3	1	2	1	1	2	5	2	5	1	3	1	0	1	3	6	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr11:132290089A>G	uc001qgs.2	-	7	1086	c.1036T>C	c.(1036-1038)TGA>CGA	p.*346R	OPCML_uc001qgu.2_Nonstop_Mutation_p.*339R|OPCML_uc010sck.1_Nonstop_Mutation_p.*355R|OPCML_uc001qgt.2_Nonstop_Mutation_p.*345R|OPCML_uc010scl.1_Nonstop_Mutation_p.*305R	NM_002545	NP_002536	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	346					cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		ATTTCTTATCAAAACTTGATG	0.478													18	65					0	0	0.055883	0	0		G	132290089	G	G	132290089	4	3	171	1	0	0	0	0	0	0	0	0	10893	143	5	3	5	3	OPCML	11	132290089	Nonstop_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	7996046	132290089	2716427	107	89871											
KCNA1	3736	broad.mit.edu	37	chr12	5020801	5020801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacttcttcgaccgcaaccGgcccagcttcgacgccatcc	7	8	8	18	5	1	0	0	0	1	0	4	2	2	0	5	1	3	3	5	1	2	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:5020801G>A	uc001qnh.2	+	2	1362	c.257G>A	c.(256-258)CGG>CAG	p.R86Q		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	86					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GACCGCAACCGGCCCAGCTTC	0.612													28	52					0	0	0.144211	0	0		A	5020801	A	A	5020801	3	1	171	1	0	0	0	0	1	0	0	0	8017	1116	39	1	259	1	KCNA1	12	5020801	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		5020801	128831094	108	89872											
GAPDH	2597	broad.mit.edu	37	chr12	6647006	6647006	+	Missense_Mutation	SNP	T	C	C	0	1	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	atatgatgacatcaagaaggTggtgaagcaggcgtcggagg	13	7	16	5	2	1	4	1	3	0	1	2	5	1	5	0	5	1	1	0	5	4	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:6647006T>C	uc001qop.1	+	8	884	c.782T>C	c.(781-783)GTG>GCG	p.V261A	GAPDH_uc009zep.1_Missense_Mutation_p.V219A|GAPDH_uc001qoq.1_Missense_Mutation_p.V186A|GAPDH_uc001qor.1_Missense_Mutation_p.V220A|GAPDH_uc001qos.1_Missense_Mutation_p.V261A|GAPDH_uc001qot.1_Missense_Mutation_p.V261A|GAPDH_uc001qou.1_Missense_Mutation_p.V220A|GAPDH_uc001qov.1_Missense_Mutation_p.V219A|GAPDH_uc001qow.1_Missense_Mutation_p.V214A|GAPDH_uc001qox.1_Missense_Mutation_p.V87A	NM_002046	NP_002037	P04406	G3P_HUMAN	glyceraldehyde-3-phosphate dehydrogenase	261					gluconeogenesis|glycolysis|neuron apoptosis|peptidyl-cysteine S-trans-nitrosylation|protein stabilization	cytosol|membrane|nucleus|perinuclear region of cytoplasm	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|peptidyl-cysteine S-nitrosylase activity|protein binding				0					NADH(DB00157)	ATCAAGAAGGTGGTGAAGCAG	0.587											OREG0021628	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	29					0	0	0.058154	0	0		C	6647006	C	C	6647006	3	2	171	1	0	0	0	0	1	0	0	0	6251	1696	59	3	808	3	GAPDH	12	6647006	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	1626205	6647006	127204889	109	89873											
ETV6	2120	broad.mit.edu	37	chr12	12022503	12022503	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcagcggcccctccggtcCcccctggacaacatgatccg	7	5	11	18	3	0	1	0	1	0	0	3	3	3	2	7	3	3	1	7	3	1	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:12022503C>G	uc001qzz.2	+	5	883	c.609C>G	c.(607-609)TCC>TCG	p.S203S	ETV6_uc001raa.1_5'UTR	NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	203						cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				CCCTCCGGTCCCCCCTGGACA	0.632			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								22	170					0	0	0.069288	0	0		G	12022503	G	G	12022503	2	3	171	1	0	0	0	0	0	0	0	1	5291	610	22	5		5	ETV6	12	12022503	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	5375497	12022503	121829392	110	89874											
ST8SIA1	6489	broad.mit.edu	37	chr12	22408298	22408298	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccaccaccgcgcatttcTtcaatggcagctggaatggg	8	10	10	13	2	2	0	1	0	1	0	3	1	3	1	3	3	1	3	3	3	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:22408298T>G	uc001rfo.3	-	3	889	c.407A>C	c.(406-408)AAG>ACG	p.K136T	ST8SIA1_uc009zix.2_Intron	NM_003034	NP_003025	Q92185	SIA8A_HUMAN	alpha-2,8-sialyltransferase 1	136	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(3)	3						CGCGCATTTCTTCAATGGCAG	0.478													57	141					0	0	0.139131	0	0		G	22408298	G	G	22408298	3	3	171	1	0	0	0	0	1	0	0	0	15256	1609	56	5	675	5	ST8SIA1	12	22408298	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	10385795	22408298	111443597	111	89875											
ARID2	196528	broad.mit.edu	37	chr12	46231349	46231349	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatttgtgaatatgtggatCaggattcctacagagagatc	13	13	10	5	0	1	3	1	1	0	2	3	6	2	5	1	2	1	0	1	2	4	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:46231349C>T	uc001ros.1	+	10	1189	c.1189C>T	c.(1189-1191)CAG>TAG	p.Q397*	ARID2_uc001ror.2_Nonsense_Mutation_p.Q397*|ARID2_uc009zkg.1_5'UTR|ARID2_uc009zkh.1_Nonsense_Mutation_p.Q43*|ARID2_uc001rot.1_Nonsense_Mutation_p.Q43*	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	397					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		ATATGTGGATCAGGATTCCTA	0.368													35	32					0	0	0.054565	0	0		T	46231349	T	T	46231349	4	4	171	1	0	0	0	0	0	1	0	0	915	827	29	4	1227	4	ARID2	12	46231349	Nonsense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	23823051	46231349	87620546	112	89876											
SCN8A	6334	broad.mit.edu	37	chr12	52100394	52100394	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctgaaggagaggagaaaggGgatcccgagaaggtgtttaa	14	7	16	4	1	1	4	0	1	1	3	2	8	2	5	1	5	0	1	1	5	4	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:52100394G>A	uc001ryw.2	+	11	1708	c.1530G>A	c.(1528-1530)GGG>GGA	p.G510G	SCN8A_uc010snl.1_Silent_p.G375G|SCN8A_uc001ryx.1_Silent_p.G375G|SCN8A_uc001ryz.1_Silent_p.G375G|SCN8A_uc001ryy.2_Silent_p.G375G	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	510					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	AGGAGAAAGGGGATCCCGAGA	0.453													4	16					0	0	0.009096	0	0		A	52100394	A	A	52100394	2	1	171	1	0	0	0	0	0	0	0	1	13949	1219	43	4		4	SCN8A	12	52100394	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	5869045	52100394	81751501	113	89877											
HOXC6	3223	broad.mit.edu	37	chr12	54423485	54423485	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcggccgccagatctactcGcggtaccagaccctggaact	8	6	11	16	5	1	2	0	0	1	2	2	3	1	3	4	3	3	1	4	3	3	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:54423485G>A	uc001sev.2	+	2	559	c.447G>A	c.(445-447)TCG>TCA	p.S149S	HOXC6_uc001ses.2_Silent_p.S67S|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	149	Homeobox.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						AGATCTACTCGCGGTACCAGA	0.597													39	105					0	0	0.074837	0	0		A	54423485	A	A	54423485	2	1	171	1	0	0	0	0	0	0	0	1	7331	1074	38	1		1	HOXC6	12	54423485	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	2323091	54423485	79428410	114	89878											
NAV3	89795	broad.mit.edu	37	chr12	78444720	78444720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcgcagtggtaccagtcGattcatccacacagacccct	9	9	7	16	2	1	1	1	0	0	1	5	2	3	1	5	1	1	2	5	1	1	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:78444720G>A	uc001syp.2	+	11	2482	c.2309G>A	c.(2308-2310)CGA>CAA	p.R770Q	NAV3_uc001syo.2_Missense_Mutation_p.R770Q|NAV3_uc010sub.1_Missense_Mutation_p.R270Q	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	770						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity	p.R770Q(1)		large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GGTACCAGTCGATTCATCCAC	0.592										HNSCC(70;0.22)			11	13					0	0	0.080935	0	0		A	78444720	A	A	78444720	3	1	171	1	0	0	0	0	1	0	0	0	10203	1058	37	1	2351	1	NAV3	12	78444720	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	24021235	78444720	55407175	115	89879											
LIN7A	8825	broad.mit.edu	37	chr12	81283099	81283099	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagcttgtgcactggtacTtctccagattcctgtagttt	6	17	9	9	0	1	1	0	0	1	1	3	1	2	1	2	1	3	6	2	1	3	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:81283099T>G	uc001szj.1	-	2	325	c.132A>C	c.(130-132)GAA>GAC	p.E44D	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	44	L27.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						GCACTGGTACTTCTCCAGATT	0.333													13	30					0	0	0.09319	0	0		G	81283099	G	G	81283099	3	3	171	1	0	0	0	0	1	0	0	0	8827	1606	56	5	585	5	LIN7A	12	81283099	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	2838379	81283099	52568796	116	89880											
IKBIP	121457	broad.mit.edu	37	chr12	99007790	99007790	+	Frame_Shift_Del	DEL	T	-	-																															cacctatattttttactgtaTttttttctactttctctatt																										TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:99007790delT	uc001tfv.2	-	3	736	c.626delA	c.(625-627)AATfs	p.N209fs	IKBIP_uc001tfw.2_3'UTR	NM_201612	NP_963906	Q70UQ0	IKIP_HUMAN	IKK interacting protein isoform 2	209	Potential.				induction of apoptosis|response to X-ray	endoplasmic reticulum membrane|integral to membrane	protein binding				0						TTTTACTGTATTTTTTTCTAC	0.318													24	45	---	---	---	---						.	-	99007790	-	-	99007790	7	5	171	1	0	1	0	1	0	0	0	0	7625	1493	52	0	430	0	IKBIP	12	99007790	Frame_Shift_Del	DEL	T	TCGA-D7-6525-01A-11D-1800-08	17724691	99007790	34844105	117	89881											
CUX2	23316	broad.mit.edu	37	chr12	111779799	111779799	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcagaccatcgagctcCtctccttccagctcaacctc	8	8	6	19	2	2	1	1	0	1	1	7	2	4	1	5	0	4	4	5	0	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:111779799C>A	uc001tsa.1	+	21	3754	c.3601C>A	c.(3601-3603)CTC>ATC	p.L1201I		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1201	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						CATCGAGCTCCTCTCCTTCCA	0.607													26	53					1.66031e-10	1.87088e-10	0.0918	1	0		A	111779799	A	A	111779799	3	1	171	1	0	0	0	0	1	0	0	0	4068	681	24	5	3683	5	CUX2	12	111779799	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	12772009	111779799	22072096	118	89882											
TMEM132D	121256	broad.mit.edu	37	chr12	129563232	129563232	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtccagcacagtgatggtCttttcagcgaggatggtgtc	7	12	13	9	2	2	1	1	1	1	0	5	3	3	2	1	3	2	1	1	3	0	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr12:129563232C>A	uc009zyl.1	-	8	2290	c.1962G>T	c.(1960-1962)AAG>AAT	p.K654N	TMEM132D_uc001uia.2_Missense_Mutation_p.K192N	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	654	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		CAGTGATGGTCTTTTCAGCGA	0.567													17	97					3.32936e-07	3.67982e-07	0.038395	1	0		A	129563232	A	A	129563232	3	1	171	1	0	0	0	0	1	0	0	0	16072	912	32	5	1345	5	TMEM132D	12	129563232	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	17783433	129563232	4288663	119	89883											
SACS	26278	broad.mit.edu	37	chr13	23905184	23905184	+	Silent	SNP	A	G	G	1	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	tctctaccagagaaaagaggAggaatgcttctcaggccagg	13	7	12	9	0	2	2	1	0	2	2	4	5	2	4	2	4	2	1	2	4	4	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:23905184A>G	uc001uon.2	-	10	13420	c.12831T>C	c.(12829-12831)CCT>CCC	p.P4277P	SACS_uc001uoo.2_Silent_p.P4130P|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4277					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGAAAAGAGGAGGAATGCTTC	0.463													11	63					0	0	0.11911	0	0		G	23905184	G	G	23905184	2	3	171	1	0	0	0	0	0	0	0	1	13829	291	11	3		3	SACS	13	23905184	Silent	SNP	A	TCGA-D7-6525-01A-11D-1800-08		23905184	91264694	120	89884											
HSPH1	10808	broad.mit.edu	37	chr13	31725791	31725791	+	Silent	SNP	T	C	C	0	1	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	caagcagacacttgaaaagcTgaatgtcccatatcaacaaa	18	7	6	10	0	1	3	1	2	0	1	2	3	2	3	1	0	3	2	1	0	7	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:31725791T>C	uc001utj.2	-	6	1016	c.618A>G	c.(616-618)TCA>TCG	p.S206S	HSPH1_uc001utk.2_Silent_p.S206S|HSPH1_uc010aaw.2_Silent_p.S165S|HSPH1_uc001utl.2_Silent_p.S208S|HSPH1_uc010tds.1_Intron|HSPH1_uc010tdt.1_Intron	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	206					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		CTTGAAAAGCTGAATGTCCCA	0.373													17	19					0	0	0.146539	0	0		C	31725791	C	C	31725791	2	2	171	1	0	0	0	0	0	0	0	1	7447	1567	55	3		3	HSPH1	13	31725791	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	7820607	31725791	83444087	121	89885											
NBEA	26960	broad.mit.edu	37	chr13	36242529	36242529	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctgagcagtgacggcCagaacctggtcaccggaggg	8	7	14	12	2	2	3	1	2	1	1	3	4	2	4	4	4	2	1	4	4	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:36242529C>A	uc001uvb.2	+	57	8829	c.8623C>A	c.(8623-8625)CAG>AAG	p.Q2875K	NBEA_uc010abi.2_Missense_Mutation_p.Q1533K|NBEA_uc010tef.1_Missense_Mutation_p.Q668K|NBEA_uc001uvd.2_Missense_Mutation_p.Q453K	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2875	WD 4.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CAGTGACGGCCAGAACCTGGT	0.418													3	8					0.00024832	0.000261927	0.009096	1	0		A	36242529	A	A	36242529	3	1	171	1	0	0	0	0	1	0	0	0	10205	595	21	5	8849	5	NBEA	13	36242529	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	4516738	36242529	78927349	122	89886											
TRPC4	7223	broad.mit.edu	37	chr13	38229234	38229234	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcaacttacagcaatcagTtggtaagaattattcatcat	14	13	7	7	0	4	1	4	0	0	1	4	1	4	1	0	2	3	3	0	2	6	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:38229234T>C	uc001uws.2	-	7	2110	c.1875A>G	c.(1873-1875)CAA>CAG	p.Q625Q	TRPC4_uc010abv.2_Silent_p.Q205Q|TRPC4_uc001uwt.2_Silent_p.Q625Q|TRPC4_uc010tey.1_Silent_p.Q625Q|TRPC4_uc010abw.2_Silent_p.Q452Q|TRPC4_uc010abx.2_Silent_p.Q625Q|TRPC4_uc010aby.2_Silent_p.Q625Q	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	625	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		CAGCAATCAGTTGGTAAGAAT	0.338													4	7					0	0	0.014758	0	0		C	38229234	C	C	38229234	2	2	171	1	0	0	0	0	0	0	0	1	16606	1722	60	3		3	TRPC4	13	38229234	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	1986705	38229234	76940644	123	89887											
SLITRK5	26050	broad.mit.edu	37	chr13	88329829	88329829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacgggcggccacccacacgCgcacgtgcatcaccgcgggc	7	2	13	19	7	1	0	1	0	0	0	1	0	1	0	3	3	1	2	3	3	0	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:88329829C>T	uc001vln.2	+	2	2405	c.2186C>T	c.(2185-2187)GCG>GTG	p.A729V	SLITRK5_uc010tic.1_Missense_Mutation_p.A488V	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	729	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CACCCACACGCGCACGTGCAT	0.657													10	27					0	0	0.058154	0	0		T	88329829	T	T	88329829	3	4	171	1	0	0	0	0	1	0	0	0	14771	768	27	1	2188	1	SLITRK5	13	88329829	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	50100595	88329829	26840049	124	89888											
IPO5	3843	broad.mit.edu	37	chr13	98654779	98654779	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctgccattggtgaagggtgCcaccagcaaatggaaggaat	12	8	13	8	0	1	1	0	1	1	0	1	3	1	3	3	4	3	1	3	4	4	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:98654779C>T	uc001vnf.1	+	11	1232	c.1167C>T	c.(1165-1167)TGC>TGT	p.C389C	IPO5_uc001vne.2_Silent_p.C407C|IPO5_uc010tik.1_Silent_p.C264C|IPO5_uc010til.1_Silent_p.C329C|IPO5_uc001vng.1_Silent_p.C10C	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	389					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						GTGAAGGGTGCCACCAGCAAA	0.373													19	29					0	0	0.055883	0	0		T	98654779	T	T	98654779	2	4	171	1	0	0	0	0	0	0	0	1	7812	747	26	2		2	IPO5	13	98654779	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	10324950	98654779	16515099	125	89889											
NALCN	259232	broad.mit.edu	37	chr13	102030937	102030937	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacctgtagcaccaaagaaAcccaaaggcaaaagaccata	19	5	6	11	0	0	2	0	0	0	2	0	2	0	2	4	1	3	3	4	1	8	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:102030937A>G	uc001vox.1	-	4	548	c.359T>C	c.(358-360)GTT>GCT	p.V120A	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.V120A|NALCN_uc001vpa.2_Missense_Mutation_p.V120A	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	120	Helical; Name=S3 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CACCAAAGAAACCCAAAGGCA	0.308													14	28					0	0	0.132662	0	0		G	102030937	G	G	102030937	3	3	171	1	0	0	0	0	1	0	0	0	10166	43	2	3	5021	3	NALCN	13	102030937	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	3376158	102030937	13138941	126	89890											
SOX1	6656	broad.mit.edu	37	chr13	112722355	112722355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgcgccgcaagaccaagaCgctgctcaagaaggacaagt	13	3	12	13	4	1	3	1	0	0	3	1	4	1	4	3	1	1	3	3	1	5	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr13:112722355C>T	uc001vsb.1	+	1	443	c.383C>T	c.(382-384)ACG>ATG	p.T128M		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	128					chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		AAGACCAAGACGCTGCTCAAG	0.507													13	11					0	0	0.11911	0	0		T	112722355	T	T	112722355	3	4	171	1	0	0	0	0	1	0	0	0	14965	536	19	1	385	1	SOX1	13	112722355	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	10691418	112722355	2447523	127	89891											
TRIM9	114088	broad.mit.edu	37	chr14	51561231	51561231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgattcttggggaagccgcGgagcccccggtcatccagga	7	6	15	13	4	2	0	1	0	1	0	3	4	3	3	4	5	2	0	4	5	1	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr14:51561231G>A	uc001wyx.3	-	1	1192	c.427C>T	c.(427-429)CGC>TGC	p.R143C	TRIM9_uc001wyy.2_Missense_Mutation_p.R143C|TRIM9_uc001wyz.3_Missense_Mutation_p.R143C	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	143					proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					GGGAAGCCGCGGAGCCCCCGG	0.662													10	18					0	0	0.080935	0	0		A	51561231	A	A	51561231	3	1	171	1	0	0	0	0	1	0	0	0	16575	1116	39	1	1795	1	TRIM9	14	51561231	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		51561231	55788309	128	89892											
TMX1	81542	broad.mit.edu	37	chr14	51721136	51721136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggatgaagaagatgtttcaGaagaagaagctgaaagtaaa	19	7	12	3	1	1	7	1	2	0	5	1	8	1	8	0	1	1	3	0	1	8	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr14:51721136G>A	uc001wza.3	+	8	867	c.742G>A	c.(742-744)GAA>AAA	p.E248K	TMX1_uc010aoa.2_Missense_Mutation_p.E164K	NM_030755	NP_110382	Q9H3N1	TMX1_HUMAN	thioredoxin domain containing 1 precursor	248	Cytoplasmic (Potential).				anti-apoptosis|cell proliferation|cell redox homeostasis|DNA replication|electron transport chain|ER to Golgi vesicle-mediated transport|leukocyte activation|positive regulation of growth|positive regulation of transcription, DNA-dependent|response to stress|signal transduction	endoplasmic reticulum membrane|integral to membrane|membrane fraction	arsenate reductase (thioredoxin) activity|disulfide oxidoreductase activity				0						AGATGTTTCAGAAGAAGAAGC	0.383													38	55					0	0	0.086207	0	0		A	51721136	A	A	51721136	3	1	171	1	0	0	0	0	1	0	0	0	16291	943	33	4	772	4	TMX1	14	51721136	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	159905	51721136	55628404	129	89893											
FBXO34	55030	broad.mit.edu	37	chr14	55818684	55818684	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatctgaggaaaaaagtGggtctgctgagccatttgta	11	11	13	6	0	2	2	0	2	2	0	2	3	2	3	1	2	3	3	1	2	4	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr14:55818684G>T	uc001xbu.2	+	2	1821	c.1576G>T	c.(1576-1578)GGG>TGG	p.G526W	FBXO34_uc001xbv.2_RNA|FBXO34_uc010aoo.2_Missense_Mutation_p.G526W	NM_017943	NP_060413	Q9NWN3	FBX34_HUMAN	F-box only protein 34	526										ovary(2)|lung(2)|skin(1)	5						GGAAAAAAGTGGGTCTGCTGA	0.493													32	115					7.61165e-28	9.30313e-28	0.064281	1	0		T	55818684	T	T	55818684	3	4	171	1	0	0	0	0	1	0	0	0	5758	1348	47	5	1578	5	FBXO34	14	55818684	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	4097548	55818684	51530856	130	89894											
KIAA0317	9870	broad.mit.edu	37	chr14	75143434	75143434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaagtggcacacaattttgGtcttagaaggaaccaccatt	15	10	8	8	0	1	1	0	0	1	1	1	2	1	2	2	3	1	1	2	3	6	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr14:75143434G>A	uc001xqb.2	-	6	1008	c.503C>T	c.(502-504)ACC>ATC	p.T168I	KIAA0317_uc010tut.1_Missense_Mutation_p.T7I|KIAA0317_uc001xqc.2_Missense_Mutation_p.T168I	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	168					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		CACAATTTTGGTCTTAGAAGG	0.323													18	29					0	0	0.043863	0	0		A	75143434	A	A	75143434	3	1	171	1	0	0	0	0	1	0	0	0	8183	1261	44	4	2028	4	KIAA0317	14	75143434	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	19324750	75143434	32206106	131	89895											
MARK3	4140	broad.mit.edu	37	chr14	103934456	103934456	+	Silent	SNP	G	A	A	0	0	1	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	ctcaacaacagtactggccaGtctcctcaccacaaagtgca	13	7	6	15	0	3	0	2	0	1	0	4	0	3	0	3	1	4	2	3	1	4	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr14:103934456G>A	uc001ymz.3	+	12	1863	c.1197G>A	c.(1195-1197)CAG>CAA	p.Q399Q	MARK3_uc001ymx.3_Silent_p.Q399Q|MARK3_uc001ymw.3_Silent_p.Q399Q|MARK3_uc001yna.3_Silent_p.Q383Q|MARK3_uc001ymy.3_Silent_p.Q320Q|MARK3_uc010awp.2_Silent_p.Q422Q|MARK3_uc010tyb.1_Silent_p.Q194Q	NM_001128918	NP_001122390	P27448	MARK3_HUMAN	MAP/microtubule affinity-regulating kinase 3	399							ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|stomach(1)	4		Melanoma(154;0.155)	Epithelial(46;0.241)			GTACTGGCCAGTCTCCTCACC	0.448													29	62					0	0	0.045705	0	0		A	103934456	A	A	103934456	2	1	171	1	0	0	0	0	0	0	0	1	9332	1020	36	4		4	MARK3	14	103934456	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	28791022	103934456	3415084	132	89896											
AHNAK2	113146	broad.mit.edu	37	chr14	105416442	105416442	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgctgggcagagacacctcCacgtcgggggccatcacctc	8	5	12	16	3	1	1	1	0	0	1	4	2	2	1	4	3	0	2	4	3	0	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr14:105416442C>G	uc010axc.1	-	7	5466	c.5346G>C	c.(5344-5346)GTG>GTC	p.V1782V	AHNAK2_uc001ypx.2_Silent_p.V1682V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1782						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GAGACACCTCCACGTCGGGGG	0.657													55	169					0	0	0.139131	0	0		G	105416442	G	G	105416442	2	3	171	1	0	0	0	0	0	0	0	1	415	581	21	5		5	AHNAK2	14	105416442	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	1481986	105416442	1933098	133	89897											
GANC	2595	broad.mit.edu	37	chr15	42641627	42641627	+	Missense_Mutation	SNP	A	G	G	1	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	tgatgatggccattcattccAatacctccaccagaagcaat	13	10	6	12	0	1	3	1	2	0	1	3	3	3	3	5	1	2	1	5	1	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:42641627A>G	uc001zpi.2	+	22	2779	c.2465A>G	c.(2464-2466)CAA>CGA	p.Q822R	CAPN3_uc001zpk.1_5'UTR|CAPN3_uc001zpl.1_5'UTR	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	822					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		CATTCATTCCAATACCTCCAC	0.383													20	82					0	0	0.099896	0	0		G	42641627	G	G	42641627	3	3	171	1	0	0	0	0	1	0	0	0	6249	130	5	3	2551	3	GANC	15	42641627	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08		42641627	59889765	134	89898											
EPB42	2038	broad.mit.edu	37	chr15	43494042	43494042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcctgccatcacttacCtgtagctcctctctctgtga	8	12	7	14	0	3	2	1	1	2	1	5	2	4	2	4	0	4	2	4	0	3	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:43494042C>T	uc001zra.3	-	12	2213	c.1913G>A	c.(1912-1914)AGA>AAA	p.R638K	EPB42_uc001zqz.3_Missense_Mutation_p.R305K|EPB42_uc010bde.2_Silent_p.Q429Q|EPB42_uc001zrb.3_Missense_Mutation_p.R668K|EPB42_uc010udm.1_Missense_Mutation_p.R560K	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	638					erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		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)		CATCACTTACCTGTAGCTCCT	0.542													7	129					0	0	0.038147	0	0		T	43494042	T	T	43494042	3	4	171	1	0	0	0	0	1	0	0	0	5166	695	24	4	170	4	EPB42	15	43494042	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	852415	43494042	59037350	135	89899											
TP53BP1	7158	broad.mit.edu	37	chr15	43701941	43701941	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggaatttccaaaaattcTatattaaaaaaaaaaaccaa	23	9	4	5	0	1	0	0	0	1	0	2	2	2	2	2	2	1	0	2	2	12	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:43701941T>C	uc001zrs.2	-	25	5439	c.5291_splice	c.e25-1	p.E1764_splice	TP53BP1_uc010udp.1_Splice_Site_p.E1762_splice|TP53BP1_uc001zrq.3_Splice_Site_p.E1767_splice|TP53BP1_uc001zrr.3_Splice_Site_p.E1769_splice|TP53BP1_uc001zrp.2_Splice_Site_p.E181_splice	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3						double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		CCAAAAATTCTATATTAAAAA	0.393								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					8	17					0	0	0.058154	0	0		C	43701941	C	C	43701941	5	2	171	1	0	0	0	0	0	0	1	0	16409	1536	53	3	645	3	TP53BP1	15	43701941	Splice_Site	SNP	T	TCGA-D7-6525-01A-11D-1800-08	207899	43701941	58829451	136	89900											
SEMA6D	80031	broad.mit.edu	37	chr15	48056124	48056124	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcctggagaaacactggacTtcatttctaaaggctcggct	10	11	10	10	1	2	1	1	0	1	1	4	3	3	2	1	4	1	2	1	4	3	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:48056124T>G	uc010bek.2	+	10	1185	c.825T>G	c.(823-825)ACT>ACG	p.T275T	SEMA6D_uc001zvw.2_Silent_p.T275T|SEMA6D_uc001zvx.1_Silent_p.T275T|SEMA6D_uc001zvy.2_Silent_p.T275T|SEMA6D_uc001zvz.2_Silent_p.T275T|SEMA6D_uc001zwa.2_Silent_p.T275T|SEMA6D_uc001zwb.2_Silent_p.T275T|SEMA6D_uc001zwc.2_Silent_p.T275T	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	275	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		AACACTGGACTTCATTTCTAA	0.473													21	92					0	0	0.062417	0	0		G	48056124	G	G	48056124	2	3	171	1	0	0	0	0	0	0	0	1	14067	1596	56	5		5	SEMA6D	15	48056124	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	4354183	48056124	54475268	137	89901											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84651800	84651800	+	Silent	SNP	C	A	A	0	0	0	1	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	acacacatgcagtggcggggCatccaggaagagacacctcc	12	4	12	13	1	0	1	0	0	0	1	2	3	2	2	3	4	1	2	3	4	1	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:84651800C>A	uc002bjz.3	+	21	3644	c.3420C>A	c.(3418-3420)GGC>GGA	p.G1140G	ADAMTSL3_uc010bmt.1_Silent_p.G1140G|ADAMTSL3_uc010bmu.1_Silent_p.G1140G	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1140						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			AGTGGCGGGGCATCCAGGAAG	0.552													15	27					4.14922e-12	4.84075e-12	0.146539	1	0		A	84651800	A	A	84651800	2	1	171	1	0	0	0	0	0	0	0	1	276	697	25	5		5	ADAMTSL3	15	84651800	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	36595676	84651800	17879592	138	89902											
RLBP1	6017	broad.mit.edu	37	chr15	89760498	89760498	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgcctgcaccatctcctGcagctctcgcactgcctcct	4	10	7	20	2	2	0	0	0	2	0	5	0	3	0	5	0	5	4	5	0	0	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:89760498G>T	uc002bnl.2	-	5	579	c.199C>A	c.(199-201)CAG>AAG	p.Q67K		NM_000326	NP_000317	P12271	RLBP1_HUMAN	retinaldehyde binding protein 1	67					response to stimulus|visual perception|vitamin A metabolic process	cytoplasm|soluble fraction	retinol binding|transporter activity			central_nervous_system(1)	1	Lung NSC(78;0.0472)|all_lung(78;0.089)				Vitamin A(DB00162)	ACCATCTCCTGCAGCTCTCGC	0.632													32	84					4.4194e-11	5.10441e-11	0.054565	1	0		T	89760498	T	T	89760498	3	4	171	1	0	0	0	0	1	0	0	0	13413	1328	46	5	774	5	RLBP1	15	89760498	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	5108698	89760498	12770894	139	89903											
IQGAP1	8826	broad.mit.edu	37	chr15	91035841	91035841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	actagtgaaactgcaacagaCatacgctgctctgaactcta	14	9	7	11	1	2	3	0	2	2	1	2	3	2	3	0	0	6	3	0	0	6	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:91035841C>T	uc002bpl.1	+	35	4627	c.4526C>T	c.(4525-4527)ACA>ATA	p.T1509I	IQGAP1_uc010uqg.1_Missense_Mutation_p.T130I	NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1509	C2.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			CTGCAACAGACATACGCTGCT	0.433													12	34					0	0	0.09319	0	0		T	91035841	T	T	91035841	3	4	171	1	0	0	0	0	1	0	0	0	7830	478	17	4	4664	4	IQGAP1	15	91035841	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	1275343	91035841	11495551	140	89904											
CHD2	1106	broad.mit.edu	37	chr15	93467679	93467679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaatcttctgagagtcagtCggaatctgagagcgaatcag	12	10	12	7	2	5	3	2	3	3	2	6	7	5	4	0	1	1	0	0	1	3	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr15:93467679C>T	uc002bsp.2	+	3	766	c.191C>T	c.(190-192)TCG>TTG	p.S64L	CHD2_uc002bsm.1_Missense_Mutation_p.S64L|CHD2_uc002bsn.2_Missense_Mutation_p.S64L|CHD2_uc002bso.1_Missense_Mutation_p.S64L|CHD2_uc010urb.1_Missense_Mutation_p.S77L	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	64	Ser-rich.				regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			GAGAGTCAGTCGGAATCTGAG	0.527													59	106					0	0	0.139131	0	0		T	93467679	T	T	93467679	3	4	171	1	0	0	0	0	1	0	0	0	3328	893	31	1	197	1	CHD2	15	93467679	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	2431838	93467679	9063713	141	89905											
RHOT2	89941	broad.mit.edu	37	chr16	720267	720267	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggtgcccatcatcctagtGggcaacaagtcagacctgcg	10	7	12	12	1	2	1	2	0	0	1	3	1	3	1	3	2	3	1	3	2	3	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:720267G>A	uc002cip.2	+	7	415	c.348G>A	c.(346-348)GTG>GTA	p.V116V	RHOT2_uc002ciq.2_Silent_p.V9V|RHOT2_uc010bqy.2_5'Flank	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	116	Miro 1.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				TCATCCTAGTGGGCAACAAGT	0.637													22	47					0	0	0.076483	0	0		A	720267	A	A	720267	2	1	171	1	0	0	0	0	0	0	0	1	13369	1335	47	4		4	RHOT2	16	720267	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08		720267	89634486	142	89906											
A2BP1	54715	broad.mit.edu	37	chr16	7703860	7703860	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccaccgccgcggccgcctaCcgaggggcgcacctgcgagg	5	2	16	18	7	0	0	0	0	0	0	0	2	0	0	7	4	2	1	7	4	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:7703860C>T	uc002cys.2	+	12	1789	c.801C>T	c.(799-801)TAC>TAT	p.Y267Y	A2BP1_uc010buf.1_Silent_p.Y267Y|A2BP1_uc002cyr.1_Silent_p.Y266Y|A2BP1_uc002cyt.2_Silent_p.Y240Y|A2BP1_uc010uxz.1_Silent_p.Y310Y|A2BP1_uc010uya.1_Silent_p.Y224Y|A2BP1_uc002cyv.1_Silent_p.Y267Y|A2BP1_uc010uyb.1_Silent_p.Y267Y|A2BP1_uc002cyw.2_Silent_p.Y287Y|A2BP1_uc002cyy.2_Silent_p.Y287Y|A2BP1_uc002cyx.2_Silent_p.Y287Y|A2BP1_uc010uyc.1_Silent_p.Y260Y	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	267					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CGGCCGCCTACCGAGGGGCGC	0.602													16	41					0	0	0.0333	0	0		T	7703860	T	T	7703860	2	4	171	1	0	0	0	0	0	0	0	1	3	518	18	4		4	A2BP1	16	7703860	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	6983593	7703860	82650893	143	89907											
XYLT1	64131	broad.mit.edu	37	chr16	17352902	17352902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagccctaacttgtggcGgcagtaagtctccccaatct	9	9	9	14	1	2	0	0	0	2	0	3	0	2	0	3	2	3	3	3	2	3	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:17352902G>A	uc002dfa.2	-	3	941	c.856C>T	c.(856-858)CGC>TGC	p.R286C		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	286	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						AACTTGTGGCGGCAGTAAGTC	0.607													20	34					0	0	0.055883	0	0		A	17352902	A	A	17352902	3	1	171	1	0	0	0	0	1	0	0	0	17489	1116	39	1	2063	1	XYLT1	16	17352902	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	9649042	17352902	73001851	144	89908											
VWA3A	146177	broad.mit.edu	37	chr16	22130291	22130291	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcccagagcctcctcagccaCgtgcaagccctgcagcacag	9	4	10	18	1	1	1	1	0	0	1	2	1	2	1	5	0	6	3	5	0	1	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:22130291C>T	uc010vbq.1	+	12	1155	c.1059C>T	c.(1057-1059)CAC>CAT	p.H353H	VWA3A_uc010bxd.2_5'Flank|VWA3A_uc010bxc.2_Silent_p.H340H	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	353	Potential.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		TCCTCAGCCACGTGCAAGCCC	0.612													17	28					0	0	0.0333	0	0		T	22130291	T	T	22130291	2	4	171	1	0	0	0	0	0	0	0	1	17266	535	19	1		1	VWA3A	16	22130291	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	4777389	22130291	68224462	145	89909											
SLC5A2	6524	broad.mit.edu	37	chr16	31500028	31500028	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacagcagcagcacgctcttCaccatggacatctacacgcg	12	6	8	15	3	3	0	1	0	2	0	3	1	3	1	1	1	5	4	1	1	2	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:31500028C>T	uc002ecf.3	+	10	1234	c.1215C>T	c.(1213-1215)TTC>TTT	p.F405F	SLC5A2_uc010car.2_Intron|C16orf58_uc002ecg.2_RNA	NM_003041	NP_003032	P31639	SC5A2_HUMAN	solute carrier family 5 (sodium/glucose	405	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	low-affinity glucose:sodium symporter activity			ovary(1)	1						GCACGCTCTTCACCATGGACA	0.697													13	25					0	0	0.11911	0	0		T	31500028	T	T	31500028	2	4	171	1	0	0	0	0	0	0	0	1	14690	825	29	4		4	SLC5A2	16	31500028	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	9369737	31500028	58854725	146	89910											
CES1	1066	broad.mit.edu	37	chr16	55857581	55857581	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accatcagcccccctccgtgGatccacaccatcacctgggc	8	6	7	20	1	2	0	2	0	0	0	4	1	4	1	8	2	1	0	8	2	0	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:55857581G>T	uc002eim.2	-	4	525	c.417C>A	c.(415-417)ATC>ATA	p.I139I	CES1_uc002eil.2_Silent_p.I140I|CES1_uc002ein.2_Silent_p.I139I	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	139					response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	CCCCTCCGTGGATCCACACCA	0.557													9	62					0.000151284	0.000160306	0.105934	1	0		T	55857581	T	T	55857581	2	4	171	1	0	0	0	0	0	0	0	1	3272	1164	41	5		5	CES1	16	55857581	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	24357553	55857581	34497172	147	89911											
KCTD19	146212	broad.mit.edu	37	chr16	67325601	67325601	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgaggttgtccatctcCgtggtatagatgatgctgtc	6	14	12	9	1	1	3	0	2	1	1	4	3	2	3	3	2	2	3	3	2	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:67325601C>T	uc002esu.2	-	13	2409	c.2358G>A	c.(2356-2358)ACG>ACA	p.T786T	KCTD19_uc002est.2_Silent_p.T558T|KCTD19_uc010vjj.1_Silent_p.T529T	NM_001100915	NP_001094385	Q17RG1	KCD19_HUMAN	potassium channel tetramerisation domain	786						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0311)|Epithelial(162;0.0906)		TGTCCATCTCCGTGGTATAGA	0.607													28	47					0	0	0.054565	0	0		T	67325601	T	T	67325601	2	4	171	1	0	0	0	0	0	0	0	1	8122	639	23	1		1	KCTD19	16	67325601	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	11468020	67325601	23029152	148	89912											
ZCCHC14	23174	broad.mit.edu	37	chr16	87451107	87451107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagacggggtaatacttgtGcaaacgcagtttcctaagcc	13	9	10	9	2	0	1	0	0	0	1	1	1	1	1	2	2	4	4	2	2	5	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr16:87451107G>A	uc002fjz.1	-	8	958	c.931C>T	c.(931-933)CAC>TAC	p.H311Y	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.H87Y	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	311					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		TAATACTTGTGCAAACGCAGT	0.507											OREG0024030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	73	165					0	0	0.139131	0	0		A	87451107	A	A	87451107	3	1	171	1	0	0	0	0	1	0	0	0	17608	1319	46	2	1942	2	ZCCHC14	16	87451107	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	20125506	87451107	2903646	149	89913											
NXN	64359	broad.mit.edu	37	chr17	729219	729219	+	Missense_Mutation	SNP	T	A	A	0	1	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	accttctgggtcatctcggaTcaccagcagcccgttcctgc	6	10	9	16	2	4	0	2	0	2	0	6	1	5	1	4	2	3	2	4	2	0	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr17:729219T>A	uc002fsa.2	-	2	552	c.460A>T	c.(460-462)ATC>TTC	p.I154F	NXN_uc002fsb.1_Missense_Mutation_p.I41F|NXN_uc002frz.2_5'UTR|NXN_uc010vqe.1_Missense_Mutation_p.I46F	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	154					cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		TCATCTCGGATCACCAGCAGC	0.522													7	13					0	0	0.038147	0	0		A	729219	A	A	729219	3	1	171	1	0	0	0	0	1	0	0	0	10806	1435	50	5	875	5	NXN	17	729219	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08		729219	80465991	150	89914											
TP53	7157	broad.mit.edu	37	chr17	7578212	7578212	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcaccaccacactatgtcGaaaagtgtttctgtcatcca	11	10	8	12	1	2	0	1	0	1	0	4	1	3	0	3	1	0	2	3	1	3	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr17:7578212G>A	uc002gim.2	-	6	831	c.637C>T	c.(637-639)CGA>TGA	p.R213*	TP53_uc002gig.1_Nonsense_Mutation_p.R213*|TP53_uc002gih.2_Nonsense_Mutation_p.R213*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.R81*|TP53_uc010cng.1_Nonsense_Mutation_p.R81*|TP53_uc002gii.1_Nonsense_Mutation_p.R81*|TP53_uc010cnh.1_Nonsense_Mutation_p.R213*|TP53_uc010cni.1_Nonsense_Mutation_p.R213*|TP53_uc002gij.2_Nonsense_Mutation_p.R213*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.R120*|TP53_uc002gio.2_Nonsense_Mutation_p.R81*|TP53_uc010vug.1_Nonsense_Mutation_p.R174*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	213	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.R213L(25)|p.R213Q(22)|p.R213fs*34(10)|p.0?(7)|p.R213P(5)|p.R81*(2)|p.R120*(2)|p.R213G(2)|p.K164_P219del(1)|p.D208_V216delDRNTFRHSV(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R213*33(1)|p.D208fs*1(1)|p.R213>L(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)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			14	13					0	0	0.105934	0	0		A	7578212	A	A	7578212	4	1	171	1	0	0	0	0	0	1	0	0	16407	1066	37	1	657	1	TP53	17	7578212	Nonsense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	6848993	7578212	73616998	151	89915											
EFNB3	1949	broad.mit.edu	37	chr17	7611546	7611546	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggccacgagttccgctcGcaccacgattactacatcat	9	9	9	14	4	1	0	1	0	0	0	3	2	2	0	3	2	2	3	3	2	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr17:7611546G>T	uc002gis.2	+	2	790	c.393G>T	c.(391-393)TCG>TCT	p.S131S		NM_001406	NP_001397	Q15768	EFNB3_HUMAN	ephrin-B3 precursor	131	Extracellular (Potential).				cell-cell signaling|interspecies interaction between organisms	integral to plasma membrane	ephrin receptor binding|transmembrane-ephrin receptor activity			ovary(1)	1		all_cancers(10;1.14e-06)|Prostate(122;0.081)				AGTTCCGCTCGCACCACGATT	0.572													32	39					1.69901e-12	1.99224e-12	0.080422	1	0		T	7611546	T	T	7611546	2	4	171	1	0	0	0	0	0	0	0	1	4963	1074	38	5		5	EFNB3	17	7611546	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	33334	7611546	73583664	152	89916											
TAF15	8148	broad.mit.edu	37	chr17	34160922	34160922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcagtggtggtgaccGcggtggcttcaaaaattttg	7	12	13	9	2	2	1	1	1	1	0	2	1	2	1	2	4	1	2	2	4	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr17:34160922G>A	uc002hkd.2	+	8	703	c.617G>A	c.(616-618)CGC>CAC	p.R206H	TAF15_uc010ctw.1_Intron|TAF15_uc002hkc.2_Missense_Mutation_p.R203H	NM_139215	NP_631961	Q92804	RBP56_HUMAN	TBP-associated factor 15 isoform 1	206	Gln/Gly/Ser/Tyr-rich.				positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding|zinc ion binding		TAF15/NR4A3(33)	bone(33)|lung(1)|skin(1)	35		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		GGTGGTGACCGCGGTGGCTTC	0.413			T	TEC|CHN1|ZNF384	extraskeletal myxoid chondrosarcomas|ALL								12	39					0	0	0.132662	0	0		A	34160922	A	A	34160922	3	1	171	1	0	0	0	0	1	0	0	0	15543	1087	38	1	647	1	TAF15	17	34160922	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	26549376	34160922	47034288	153	89917											
KRT35	3886	broad.mit.edu	37	chr17	39633390	39633390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactaggaccgcaggaggccGcaggaagacagggaaggcat	13	2	16	10	2	0	1	0	0	0	1	0	5	0	5	2	6	0	3	2	6	3	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr17:39633390G>A	uc002hws.2	-	7	1329	c.1286C>T	c.(1285-1287)GCG>GTG	p.A429V		NM_002280	NP_002271	Q92764	KRT35_HUMAN	keratin 35	429	Tail.				anatomical structure morphogenesis	intermediate filament	protein binding|structural molecule activity			ovary(1)|skin(1)	2		Breast(137;0.000286)				GCAGGAGGCCGCAGGAAGACA	0.572													5	87					0	0	0.014758	0	0		A	39633390	A	A	39633390	3	1	171	1	0	0	0	0	1	0	0	0	8488	1087	38	1	85	1	KRT35	17	39633390	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	5472468	39633390	41561820	154	89918											
DUS1L	64118	broad.mit.edu	37	chr17	80017925	80017925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcttcctccagggccCgcttgctgcgcgcacctgcc	2	9	9	21	3	1	0	0	0	1	0	4	0	4	0	7	1	3	3	7	1	0	2	rs138475537		TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr17:80017925C>T	uc002kdq.2	-	10	1486	c.1067G>A	c.(1066-1068)CGG>CAG	p.R356Q	DUS1L_uc002kdp.2_Missense_Mutation_p.R225Q|DUS1L_uc002kdr.2_Missense_Mutation_p.R356Q|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	356					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	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)			CTCCAGGGCCCGCTTGCTGCG	0.652													5	35					0	0	0.021553	0	0		T	80017925	T	T	80017925	3	4	171	1	0	0	0	0	1	0	0	0	4811	652	23	1	370	1	DUS1L	17	80017925	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	40384535	80017925	1177285	155	89919											
FASN	2194	broad.mit.edu	37	chr17	80039961	80039961	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccgtagttgctctgtccCgcattgccacgcccgcagct	6	9	10	16	4	1	0	0	0	1	0	2	0	2	0	4	0	4	6	4	0	2	3	rs146309529		TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr17:80039961C>A	uc002kdu.2	-	36	6204	c.6087G>T	c.(6085-6087)GCG>GCT	p.A2029A	FASN_uc002kdv.1_RNA	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	2029	Beta-ketoacyl reductase (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TGCTCTGTCCCGCATTGCCAC	0.567													18	69					2.35188e-11	2.73007e-11	0.038395	1	0		A	80039961	A	A	80039961	2	1	171	1	0	0	0	0	0	0	0	1	5697	639	23	5		5	FASN	17	80039961	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	22036	80039961	1155249	156	89920											
L3MBTL4	91133	broad.mit.edu	37	chr18	6239858	6239858	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaacctgaaattctttaGacattggcccattctaacgc	11	13	5	12	1	2	2	0	1	2	1	3	2	3	2	3	1	2	0	3	1	4	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr18:6239858G>T	uc002kmz.3	-	9	726	c.566C>A	c.(565-567)TCT>TAT	p.S189Y	L3MBTL4_uc010dkt.2_Missense_Mutation_p.S189Y|L3MBTL4_uc002kmy.3_Missense_Mutation_p.S27Y	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	189	MBT 2.				chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				AAATTCTTTAGACATTGGCCC	0.468													13	20					6.81908e-15	8.07798e-15	0.11911	1	0		T	6239858	T	T	6239858	3	4	171	1	0	0	0	0	1	0	0	0	8610	942	33	5	1353	5	L3MBTL4	18	6239858	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		6239858	71837390	157	89921											
ARHGAP28	79822	broad.mit.edu	37	chr18	6859866	6859866	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gcatcccaggataaagaaggGagttttgcggttcccaggag	11	8	14	8	1	0	1	0	0	0	1	2	4	2	4	2	4	1	3	2	4	3	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr18:6859866G>C	uc010wzi.1	+	4	403	c.165G>C	c.(163-165)GGG>GGC	p.G55G	ARHGAP28_uc002knc.2_Silent_p.G180G|ARHGAP28_uc002knd.2_Silent_p.G73G|ARHGAP28_uc002kne.2_Silent_p.G73G|ARHGAP28_uc002knf.2_Silent_p.G64G			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	55					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				ATAAAGAAGGGAGTTTTGCGG	0.433													26	142					0	0	0.134883	0	0		C	6859866	C	C	6859866	2	2	171	1	0	0	0	0	0	0	0	1	877	1161	41	5		5	ARHGAP28	18	6859866	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	620008	6859866	71217382	158	89922											
POTEC	388468	broad.mit.edu	37	chr18	14542886	14542886	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcgtcttcataaaggagttgTcatggtctccagaagtgccc	9	11	11	10	1	4	1	2	0	2	1	5	2	4	2	2	2	1	1	2	2	3	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr18:14542886T>C	uc010dln.2	-	1	714	c.260A>G	c.(259-261)GAC>GGC	p.D87G	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	87										skin(3)	3						AAAGGAGTTGTCATGGTCTCC	0.597													5	167					0	0	0.058154	0	0		C	14542886	C	C	14542886	3	2	171	1	0	0	0	0	1	0	0	0	12281	1667	58	3	1412	3	POTEC	18	14542886	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	7683020	14542886	63534362	159	89923											
POTEC	388468	broad.mit.edu	37	chr18	14542958	14542958	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcagtggtggcaacacTtgcccatcttgctcctgagc	8	9	12	12	0	1	1	0	1	1	0	2	2	2	2	2	3	5	3	2	3	2	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr18:14542958T>G	uc010dln.2	-	1	642	c.188A>C	c.(187-189)AAG>ACG	p.K63T	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	63										skin(3)	3						GTGGCAACACTTGCCCATCTT	0.587													11	168					0	0	0.0333	0	0		G	14542958	G	G	14542958	3	3	171	1	0	0	0	0	1	0	0	0	12281	1609	56	5	1484	5	POTEC	18	14542958	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	72	14542958	63534290	160	89924											
CTAGE1	64693	broad.mit.edu	37	chr18	19997725	19997725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaaatccagcaacagctgcaCgtatcaccaattcccatgga	15	7	6	13	1	1	0	1	0	0	0	3	1	3	1	3	1	4	4	3	1	5	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr18:19997725C>T	uc002ktv.1	-	1	154	c.50G>A	c.(49-51)CGT>CAT	p.R17H		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	17	Helical; (Potential).					integral to membrane				ovary(1)	1	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)					AACAGCTGCACGTATCACCAA	0.468													5	62					0	0	0.014758	0	0		T	19997725	T	T	19997725	3	4	171	1	0	0	0	0	1	0	0	0	3995	536	19	1	2191	1	CTAGE1	18	19997725	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	5454767	19997725	58079523	161	89925											
DCC	1630	broad.mit.edu	37	chr18	51053126	51053126	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccaacagaggattcagcCaatgtaagggcatctttaaa	17	8	8	8	0	2	1	1	0	1	1	2	2	2	2	2	2	3	2	2	2	6	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr18:51053126C>A	uc002lfe.1	+	28	4838	c.4251C>A	c.(4249-4251)GCC>GCA	p.A1417A	DCC_uc010dpf.1_Silent_p.A1050A	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1417	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AGGATTCAGCCAATGTAAGGG	0.478													10	26					2.80697e-09	3.13242e-09	0.080935	1	0		A	51053126	A	A	51053126	2	1	171	1	0	0	0	0	0	0	0	1	4285	581	21	5		5	DCC	18	51053126	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	31055401	51053126	27024122	162	89926											
MED16	10025	broad.mit.edu	37	chr19	872114	872114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtggcccggcctcagcaggGaaccctgcccgaaagaggca	9	4	14	14	2	1	1	1	0	0	1	1	3	1	2	4	4	3	2	4	4	2	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:872114G>A	uc002lqd.1	-	12	2061	c.1910C>T	c.(1909-1911)TCC>TTC	p.S637F	MED16_uc010drw.1_Intron|MED16_uc002lqe.2_Missense_Mutation_p.S626F|MED16_uc002lqf.2_Missense_Mutation_p.S626F	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	637	WD 4.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCAGCAGGGAACCCTGCCC	0.627													9	7					0	0	0.069234	0	0		A	872114	A	A	872114	3	1	171	1	0	0	0	0	1	0	0	0	9452	1174	41	4	743	4	MED16	19	872114	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08		872114	58256869	163	89927											
MUC16	94025	broad.mit.edu	37	chr19	9066275	9066275	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtcaaagttgaatgagtCtttgcctgggactttgtggt	8	15	13	5	0	2	3	1	3	1	0	2	4	2	4	1	2	1	1	1	2	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:9066275C>A	uc002mkp.2	-	3	21375	c.21171G>T	c.(21169-21171)AAG>AAT	p.K7057N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7059	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTGAATGAGTCTTTGCCTGGG	0.493													35	44					9.04072e-19	1.08208e-18	0.059317	1	0		A	9066275	A	A	9066275	3	1	171	1	0	0	0	0	1	0	0	0	9991	912	32	5	22680	5	MUC16	19	9066275	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	8194161	9066275	50062708	164	89928											
ZNF177	7730	broad.mit.edu	37	chr19	9489708	9489708	+	Frame_Shift_Del	DEL	A	-	-																															ggcattgctggaccctgctcAaaaaaatctatacaaagatg																										TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:9489708delA	uc002mli.2	+	9	767	c.104delA	c.(103-105)CAAfs	p.Q35fs	ZNF177_uc002mlj.2_5'UTR|ZNF177_uc002mlk.2_Frame_Shift_Del_p.Q35fs	NM_003451	NP_003442	Q13360	ZN177_HUMAN	zinc finger protein 177	35	KRAB.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GACCCTGCTCAAAAAAATCTA	0.413													19	33	---	---	---	---						.	-	9489708	-	-	9489708	7	5	171	1	0	1	0	1	0	0	0	0	17771	130	5	0	110	0	ZNF177	19	9489708	Frame_Shift_Del	DEL	A	TCGA-D7-6525-01A-11D-1800-08	423433	9489708	49639275	165	89929											
ZNF439	90594	broad.mit.edu	37	chr19	11978219	11978219	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctgaacttccagaagaAgaaagcttctcctgaagtaa	15	8	9	9	0	1	5	0	2	1	3	3	5	2	5	2	1	2	3	2	1	6	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:11978219A>C	uc002mss.2	+	3	463	c.335A>C	c.(334-336)AAG>ACG	p.K112T	ZNF439_uc002msr.2_5'UTR	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TTCCAGAAGAAGAAAGCTTCT	0.413													42	56					0	0	0.124865	0	0		C	11978219	C	C	11978219	3	2	171	1	0	0	0	0	1	0	0	0	17936	72	3	5	345	5	ZNF439	19	11978219	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	2488511	11978219	47150764	166	89930											
PVRL2	5819	broad.mit.edu	37	chr19	45368587	45368587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccagctcgggggcaccGtggagctgccgtgccacctg	5	5	17	14	3	0	0	0	0	0	0	1	2	0	1	5	4	4	3	5	4	0	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:45368587G>A	uc002ozw.1	+	2	538	c.148G>A	c.(148-150)GTG>ATG	p.V50M	PVRL2_uc002ozv.2_Missense_Mutation_p.V50M	NM_001042724	NP_001036189	Q92692	PVRL2_HUMAN	poliovirus receptor related 2 isoform delta	50	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|adhesion to symbiont|cell junction assembly|homophilic cell adhesion|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity|viral envelope fusion with host membrane|virion attachment, binding of host cell surface coreceptor	cell surface|integral to membrane|zonula adherens	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0	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)		CGGGGGCACCGTGGAGCTGCC	0.642													30	51					0	0	0.050027	0	0		A	45368587	A	A	45368587	3	1	171	1	0	0	0	0	1	0	0	0	12865	1145	40	1	154	1	PVRL2	19	45368587	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	33390368	45368587	13760396	167	89931											
ZNF347	84671	broad.mit.edu	37	chr19	53645699	53645699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttccctgaaggaacatcCttcaatgtcttggctttcct	8	14	7	12	0	2	1	1	1	1	0	5	3	5	2	3	2	1	1	3	2	3	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:53645699C>T	uc002qbb.1	-	5	451	c.382G>A	c.(382-384)GGA>AGA	p.G128R	ZNF347_uc010eql.1_Missense_Mutation_p.G129R|ZNF347_uc002qbc.1_Missense_Mutation_p.G129R	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AAGGAACATCCTTCAATGTCT	0.398													26	53					0	0	0.0918	0	0		T	53645699	T	T	53645699	3	4	171	1	0	0	0	0	1	0	0	0	17886	690	24	4	2141	4	ZNF347	19	53645699	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	8277112	53645699	5483284	168	89932											
PTPRH	5794	broad.mit.edu	37	chr19	55693420	55693420	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacggccgactctctctcatCttccttacaaagctgaaggg	10	10	8	13	2	3	1	1	1	3	0	6	2	4	1	2	2	3	1	2	2	4	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:55693420C>G	uc002qjq.2	-	19	3235	c.3162G>C	c.(3160-3162)AAG>AAC	p.K1054N	PTPRH_uc010esv.2_Missense_Mutation_p.K876N|SYT5_uc002qjm.1_5'Flank|SYT5_uc002qjp.2_5'Flank|SYT5_uc002qjn.1_5'Flank|SYT5_uc002qjo.1_5'Flank	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	1054	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		TCTCTCTCATCTTCCTTACAA	0.637													38	99					0	0	0.092188	0	0		G	55693420	G	G	55693420	3	3	171	1	0	0	0	0	1	0	0	0	12828	912	32	5	193	5	PTPRH	19	55693420	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	2047721	55693420	3435563	169	89933											
BRSK1	84446	broad.mit.edu	37	chr19	55823347	55823347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcagcccccacccggcCgcccagacccagagctgagc	7	2	11	21	2	0	3	0	1	0	2	0	3	0	3	7	1	4	2	7	1	0	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:55823347C>T	uc002qkg.2	+	19	2525	c.2248C>T	c.(2248-2250)CGC>TGC	p.R750C	BRSK1_uc002qkf.2_Missense_Mutation_p.R766C|BRSK1_uc002qkh.2_Missense_Mutation_p.R445C	NM_032430	NP_115806	Q8TDC3	BRSK1_HUMAN	BR serine/threonine kinase 1	750					establishment of cell polarity|G2/M transition DNA damage checkpoint|neuron differentiation|response to UV	cell junction|cytoplasm|nucleus	magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|stomach(1)|lung(1)|breast(1)|skin(1)	6		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0474)		CCCACCCGGCCGCCCAGACCC	0.701													8	11					0	0	0.038147	0	0		T	55823347	T	T	55823347	3	4	171	1	0	0	0	0	1	0	0	0	1526	652	23	1	2322	1	BRSK1	19	55823347	Missense_Mutation	SNP	C	TCGA-D7-6525-01A-11D-1800-08	129927	55823347	3305636	170	89934											
NLRP8	126205	broad.mit.edu	37	chr19	56466131	56466131	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaacaagttctacgcccacaAgcgctggtgtgctttctact	10	11	8	12	2	2	0	0	0	2	0	2	0	2	0	1	1	5	3	1	1	5	4	rs144060853	byFrequency	TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:56466131A>G	uc002qmh.2	+	3	778	c.707A>G	c.(706-708)AAG>AGG	p.K236R	NLRP8_uc010etg.2_Missense_Mutation_p.K236R	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	236	NACHT.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		TACGCCCACAAGCGCTGGTGT	0.532													23	66					0	0	0.069288	0	0		G	56466131	G	G	56466131	3	3	171	1	0	0	0	0	1	0	0	0	10502	72	3	3	717	3	NLRP8	19	56466131	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	642784	56466131	2662852	171	89935											
ZNF470	388566	broad.mit.edu	37	chr19	57088868	57088868	+	Silent	SNP	T	C	C	0	1	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	gattgctcatccctagctcaTcatcgaaggattcacactgg	10	11	8	12	1	4	0	4	0	0	0	6	3	5	1	1	2	2	2	1	2	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:57088868T>C	uc002qnl.3	+	6	1747	c.1071T>C	c.(1069-1071)CAT>CAC	p.H357H	ZNF470_uc010etn.2_Intron	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	357	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0294)		CCCTAGCTCATCATCGAAGGA	0.438													21	44					0	0	0.055883	0	0		C	57088868	C	C	57088868	2	2	171	1	0	0	0	0	0	0	0	1	17954	1432	50	3		3	ZNF470	19	57088868	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	622737	57088868	2040115	172	89936											
PEG3	5178	broad.mit.edu	37	chr19	57335788	57335788	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatctcctccttggtgcggGtctccggctgcaaccaatcg	5	11	11	14	3	2	1	0	1	2	0	6	1	3	1	4	3	3	2	4	3	2	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr19:57335788G>T	uc002qnu.2	-	1	587	c.236C>A	c.(235-237)ACC>AAC	p.T79N	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_5'UTR|ZIM2_uc002qnq.2_5'UTR|ZIM2_uc010etp.2_5'UTR|ZIM2_uc010ygs.1_5'UTR|PEG3_uc002qnt.2_Missense_Mutation_p.T79N|PEG3_uc002qnv.2_Missense_Mutation_p.T79N|PEG3_uc002qnw.2_5'UTR|PEG3_uc002qnx.2_5'UTR|PEG3_uc010etr.2_Missense_Mutation_p.T79N	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	79	SCAN box.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CTTGGTGCGGGTCTCCGGCTG	0.532													26	72					0.000117367	0.000124939	0.108266	1	0		T	57335788	T	T	57335788	3	4	171	1	0	0	0	0	1	0	0	0	11739	1261	44	5		5	PEG3	19	57335788	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	246920	57335788	1793195	173	89937											
NOP56	10528	broad.mit.edu	37	chr20	2638596	2638598	+	In_Frame_Del	DEL	AAG	-	-																															agatgagtgaaaaacccaaaAagaagaaaaagcaaaagccc																										TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr20:2638596_2638598delAAG	uc002wgh.2	+	12	1494_1496	c.1441_1443delAAG	c.(1441-1443)AAGdel	p.K484del	NOP56_uc010zpy.1_RNA|NOP56_uc002wgi.2_In_Frame_Del_p.K318del|NOP56_uc002wgm.1_3'UTR	NM_006392	NP_006383	O00567	NOP56_HUMAN	nucleolar protein 5A	484	Lys-rich.				rRNA processing	box C/D snoRNP complex|pre-snoRNP complex	protein binding|snoRNA binding			ovary(1)|pancreas(1)	2						AAAACCCAAAAAGAAGAAAAAGC	0.443													142	188	---	---	---	---						.	-	2638598	-	-	2638596	7	5	171	1	0	1	0	1	0	0	0	0	10558	15	1	0	1487	0	NOP56	20	2638596	In_Frame_Del	DEL	AAG	TCGA-D7-6525-01A-11D-1800-08		2638596	60386924	174	89938											
PCNA	5111	broad.mit.edu	37	chr20	5099508	5099508	+	Missense_Mutation	SNP	A	G	G	1	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	ggcgcattttagtattttggAcatactagaagacaggagac	13	11	11	6	1	0	3	0	0	0	3	0	5	0	4	0	3	1	2	0	3	5	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr20:5099508A>G	uc002wlp.2	-	2	429	c.226T>C	c.(226-228)TCC>CCC	p.S76P	PCNA_uc002wlq.2_Missense_Mutation_p.S76P|PCNA_uc010zqs.1_Missense_Mutation_p.S76P	NM_182649	NP_872590	P12004	PCNA_HUMAN	proliferating cell nuclear antigen	76	Potential.|Interaction with NUDT15.				cell proliferation|DNA strand elongation involved in DNA replication|mismatch repair|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|positive regulation of deoxyribonuclease activity|regulation of DNA replication|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair|translesion synthesis	cytoplasm|DNA replication factor C complex|microtubule cytoskeleton|nuclear replication fork|nucleoplasm|PCNA complex|PCNA-p21 complex	dinucleotide insertion or deletion binding|DNA polymerase processivity factor activity|MutLalpha complex binding|purine-specific mismatch base pair DNA N-glycosylase activity			lung(1)	1						AGTATTTTGGACATACTAGAA	0.458								DNA_polymerases_(catalytic_subunits)					94	117					0	0	0.139131	0	0		G	5099508	G	G	5099508	3	3	171	1	0	0	0	0	1	0	0	0	11607	275	10	3	579	3	PCNA	20	5099508	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	2460912	5099508	57926012	175	89939											
PAX1	5075	broad.mit.edu	37	chr20	21687213	21687213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatcagtcggcagctccgcGtatcccacggctgcgtgagc	7	7	12	15	5	1	1	1	1	0	0	4	1	3	1	2	2	3	4	2	2	1	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr20:21687213G>A	uc002wsj.2	+	2	478	c.424G>A	c.(424-426)GTA>ATA	p.V142I	PAX1_uc010zsl.1_Missense_Mutation_p.V142I|PAX1_uc010zsm.1_Missense_Mutation_p.V118I	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	142	Paired.				regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						GCAGCTCCGCGTATCCCACGG	0.682													20	50					0	0	0.055883	0	0		A	21687213	A	A	21687213	3	1	171	1	0	0	0	0	1	0	0	0	11497	1145	40	1	430	1	PAX1	20	21687213	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	16587705	21687213	41338307	176	89940											
SDC4	6385	broad.mit.edu	37	chr20	43964515	43964515	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagggctccggagaagtatcGgccttctaggaggtcctggg	7	9	16	9	2	1	1	0	0	1	1	4	3	3	2	3	6	0	2	3	6	4	4			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr20:43964515G>A	uc002xnu.2	-	2	146	c.106C>T	c.(106-108)CGA>TGA	p.R36*	SDC4_uc010zws.1_Intron	NM_002999	NP_002990	P31431	SDC4_HUMAN	syndecan 4 precursor	36	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytoskeletal protein binding|thrombospondin receptor activity				0		Myeloproliferative disorder(115;0.0122)				GAGAAGTATCGGCCTTCTAGG	0.552													12	50					0	0	0.09319	0	0		A	43964515	A	A	43964515	4	1	171	1	0	0	0	0	0	1	0	0	13979	1124	39	1	506	1	SDC4	20	43964515	Nonsense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	22277302	43964515	19061005	177	89941											
LIPI	149998	broad.mit.edu	37	chr21	15538737	15538737	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcctccatttggataaaAatctatatgtcccaagggct	12	14	6	9	0	1	0	0	0	1	0	4	1	4	1	3	2	0	1	3	2	6	5			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr21:15538737A>C	uc002yjm.2	-	5	752	c.742T>G	c.(742-744)TTT>GTT	p.F248V	LIPI_uc010gkw.1_Intron	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	227					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		TTTGGATAAAAATCTATATGT	0.348													26	55					0	0	0.134883	0	0		C	15538737	C	C	15538737	3	2	171	1	0	0	0	0	1	0	0	0	8842	14	1	5	727	5	LIPI	21	15538737	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08		15538737	32591158	178	89942											
TMPRSS15	5651	broad.mit.edu	37	chr21	19725236	19725236	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacctgaagcattgccaaaAgtgtggtcaaaattgggtcc	13	10	10	8	0	1	1	1	1	0	0	2	1	2	1	3	2	3	1	3	2	6	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr21:19725236A>G	uc002ykw.2	-	10	1186	c.1155T>C	c.(1153-1155)ACT>ACC	p.T385T		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	385	Extracellular (Potential).|MAM.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CATTGCCAAAAGTGTGGTCAA	0.358													35	73					0	0	0.080422	0	0		G	19725236	G	G	19725236	2	3	171	1	0	0	0	0	0	0	0	1	16271	59	3	3		3	TMPRSS15	21	19725236	Silent	SNP	A	TCGA-D7-6525-01A-11D-1800-08	4186499	19725236	28404659	179	89943											
C21orf58	54058	broad.mit.edu	37	chr21	47731399	47731399	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacttcctgaccgttgagtaGggaaggcctggggaggagga	9	8	17	7	1	0	2	0	2	0	0	1	6	1	6	3	6	1	2	3	6	3	4	rs13049404	byFrequency	TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr21:47731399G>T	uc002zjf.2	-	7	1826	c.692C>A	c.(691-693)CCT>CAT	p.P231H	C21orf58_uc002ziz.2_Missense_Mutation_p.P148H|C21orf58_uc002zja.2_Missense_Mutation_p.P125H|C21orf58_uc011afw.1_Missense_Mutation_p.P148H|C21orf58_uc002zjc.2_Missense_Mutation_p.P125H|C21orf58_uc011afx.1_Missense_Mutation_p.P125H|C21orf58_uc010gqj.1_RNA	NM_058180	NP_478060	P58505	CU058_HUMAN	hypothetical protein LOC54058	231										pancreas(1)	1	Breast(49;0.112)			Colorectal(79;0.239)		CCGTTGAGTAGGGAAGGCCTG	0.498													4	17					0.00909568	0.00942198	0.009096	1	0		T	47731399	T	T	47731399	3	4	171	1	0	0	0	0	1	0	0	0	2132	1000	35	5	288	5	C21orf58	21	47731399	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	28006163	47731399	398496	180	89944											
YPEL1	29799	broad.mit.edu	37	chr22	22057704	22057704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttctcgcagtagatgtcGgcaaccgcatgcagcccggt	8	8	12	13	4	1	1	0	0	1	1	3	1	1	1	2	2	3	6	2	2	2	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr22:22057704G>A	uc002zvl.2	-	4	557	c.225C>T	c.(223-225)GCC>GCT	p.A75A	YPEL1_uc002zvm.2_RNA	NM_013313	NP_037445	O60688	YPEL1_HUMAN	yippee-like 1	75						nucleus					0	Colorectal(54;0.105)					AGTAGATGTCGGCAACCGCAT	0.642													31	182					0	0	0.074837	0	0		A	22057704	A	A	22057704	2	1	171	1	0	0	0	0	0	0	0	1	17515	1103	39	1		1	YPEL1	22	22057704	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08		22057704	29246862	181	89945											
SNRPD3	6634	broad.mit.edu	37	chr22	24953726	24953726	+	Silent	SNP	T	C	C	0	1	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	acgaacaccggtgaggtataTcgggggaagctcattgaagc	12	7	14	8	3	1	2	1	2	0	0	2	4	1	3	1	4	3	2	1	4	5	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr22:24953726T>C	uc003aam.1	+	2	524	c.84T>C	c.(82-84)TAT>TAC	p.Y28Y	C22orf13_uc003aah.2_5'Flank|C22orf13_uc003aal.2_5'Flank|C22orf13_uc003aai.3_5'Flank|C22orf13_uc003aaj.3_5'Flank|C22orf13_uc003aak.3_5'Flank|SNRPD3_uc011aju.1_Silent_p.Y28Y	NM_004175	NP_004166	P62318	SMD3_HUMAN	small nuclear ribonucleoprotein polypeptide D3	28					histone mRNA metabolic process|ncRNA metabolic process|spliceosomal snRNP assembly|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nucleoplasm|U12-type spliceosomal complex|U7 snRNP	enzyme binding|histone pre-mRNA DCP binding			ovary(1)	1						GTGAGGTATATCGGGGGAAGC	0.512													30	100					0	0	0.050027	0	0		C	24953726	C	C	24953726	2	2	171	1	0	0	0	0	0	0	0	1	14891	1442	50	3		3	SNRPD3	22	24953726	Silent	SNP	T	TCGA-D7-6525-01A-11D-1800-08	2896022	24953726	26350840	182	89946											
MYH9	4627	broad.mit.edu	37	chr22	36690198	36690198	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctccctcgttgaacttGacctgcagctcctgcagctg	5	11	9	16	2	1	2	0	2	1	0	4	2	2	2	3	0	5	6	3	0	1	2			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chr22:36690198G>T	uc003apg.2	-	28	4008	c.3777C>A	c.(3775-3777)GTC>GTA	p.V1259V		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1259	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CGTTGAACTTGACCTGCAGCT	0.672			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				34	111					7.63505e-26	9.23401e-26	0.050027	1	0		T	36690198	T	T	36690198	2	4	171	1	0	0	0	0	0	0	0	1	10060	1277	45	5		5	MYH9	22	36690198	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	11736472	36690198	14614368	183	89947											
TRO	7216	broad.mit.edu	37	chrX	54956444	54956444	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtggtgcaccaatcaccaAccctggctttggcggtgcat	8	9	11	13	1	1	0	1	0	0	0	1	0	1	0	3	4	3	3	3	4	2	1			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chrX:54956444A>T	uc004dtq.2	+	12	3394	c.3287A>T	c.(3286-3288)AAC>ATC	p.N1096I	TRO_uc004dts.2_Intron|TRO_uc004dtr.2_Intron|TRO_uc004dtt.2_Intron|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Missense_Mutation_p.N627I|TRO_uc004dtw.2_Missense_Mutation_p.N699I|TRO_uc004dtx.2_Missense_Mutation_p.N479I	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	1096	29.|62 X 10 AA approximate tandem repeats.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						CCAATCACCAACCCTGGCTTT	0.572													17	13					0	0	0.0333	0	0		T	54956444	T	T	54956444	3	4	171	1	0	0	0	0	1	0	0	0	16600	43	2	5	3329	5	TRO	23	54956444	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08		54956444	100314116	184	89948											
MSN	4478	broad.mit.edu	37	chrX	64949468	64949468	+	Missense_Mutation	SNP	A	G	G	1	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	atatttactgcccgcctgagAccgctgtgctgctggcctcg	5	11	11	14	3	0	1	0	1	0	1	1	2	0	1	4	1	4	3	4	1	2	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chrX:64949468A>G	uc004dwf.2	+	4	559	c.361A>G	c.(361-363)ACC>GCC	p.T121A		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	121	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						CCCGCCTGAGACCGCTGTGCT	0.512			T	ALK	ALCL								20	10					0	0	0.062417	0	0		G	64949468	G	G	64949468	3	3	171	1	0	0	0	0	1	0	0	0	9903	275	10	3	375	3	MSN	23	64949468	Missense_Mutation	SNP	A	TCGA-D7-6525-01A-11D-1800-08	9993024	64949468	90321092	185	89949											
PCDH11X	27328	broad.mit.edu	37	chrX	91133636	91133636	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagtgaccccaaatactgaGatagctgatgtatcctcacc	12	9	7	13	0	1	3	1	3	0	1	2	4	2	3	5	0	2	2	5	0	4	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chrX:91133636G>A	uc004efk.1	+	2	3242	c.2397G>A	c.(2395-2397)GAG>GAA	p.E799E	PCDH11X_uc004efl.1_Silent_p.E799E|PCDH11X_uc004efo.1_Silent_p.E799E|PCDH11X_uc010nmv.1_Silent_p.E799E|PCDH11X_uc004efm.1_Silent_p.E799E|PCDH11X_uc004efn.1_Silent_p.E799E|PCDH11X_uc004efh.1_Silent_p.E799E|PCDH11X_uc004efj.1_Silent_p.E799E	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	799	Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CAAATACTGAGATAGCTGATG	0.443													33	18					0	0	0.054565	0	0		A	91133636	A	A	91133636	2	1	171	1	0	0	0	0	0	0	0	1	11527	933	33	4		4	PCDH11X	23	91133636	Silent	SNP	G	TCGA-D7-6525-01A-11D-1800-08	26184168	91133636	64136924	186	89950											
ATP11C	286410	broad.mit.edu	37	chrX	138856961	138856961	+	Missense_Mutation	SNP	T	G	G	0	1	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	actttcttcaatggtttttgTggttagttctaagagctcag	8	18	9	6	0	4	1	2	0	2	1	4	1	4	1	0	2	1	4	0	2	3	7			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chrX:138856961T>G	uc004faz.2	-	19	2212	c.2113A>C	c.(2113-2115)ACA>CCA	p.T705P	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.T705P	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	705	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					ATGGTTTTTGTGGTTAGTTCT	0.413													39	37					0	0	0.104719	0	0		G	138856961	G	G	138856961	3	3	171	1	0	0	0	0	1	0	0	0	1122	1696	59	5	1396	5	ATP11C	23	138856961	Missense_Mutation	SNP	T	TCGA-D7-6525-01A-11D-1800-08	47723325	138856961	16413599	187	89951											
PRRG3	79057	broad.mit.edu	37	chrX	150869097	150869097	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactgctgattgtcatcgcCttgttcatcatctggaggtg	6	14	11	10	1	4	1	3	1	1	0	5	2	4	2	1	2	1	3	1	2	0	3			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chrX:150869097C>G	uc004few.1	+	4	678	c.288C>G	c.(286-288)GCC>GCG	p.A96A		NM_024082	NP_076987	Q9BZD7	TMG3_HUMAN	proline rich Gla (G-carboxyglutamic acid) 3	96	Helical; (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTGTCATCGCCTTGTTCATCA	0.597													57	39					0	0	0.139131	0	0		G	150869097	G	G	150869097	2	3	171	1	0	0	0	0	0	0	0	1	12629	668	24	5		5	PRRG3	23	150869097	Silent	SNP	C	TCGA-D7-6525-01A-11D-1800-08	12012136	150869097	4401463	188	89952											
ATP2B3	492	broad.mit.edu	37	chrX	152813388	152813388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagaagaagaaagccaacGcacccaaaaaggagaagtct	19	2	12	8	1	1	4	0	0	1	4	1	6	1	4	2	2	2	1	2	2	7	0			TCGA-D7-6525-01A-11D-1800-08	TCGA-D7-6525-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1802f450-e90b-4642-9408-cc9736df76b5	3cbf6b07-f408-4018-a236-41c3e280c557	g.chrX:152813388G>A	uc004fht.1	+	7	1180	c.1054G>A	c.(1054-1056)GCA>ACA	p.A352T	ATP2B3_uc004fhs.1_Missense_Mutation_p.A352T	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	352	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GAAAGCCAACGCACCCAAAAA	0.597													28	26					0	0	0.134883	0	0		A	152813388	A	A	152813388	3	1	171	1	0	0	0	0	1	0	0	0	1142	1087	38	1	1080	1	ATP2B3	23	152813388	Missense_Mutation	SNP	G	TCGA-D7-6525-01A-11D-1800-08	1944291	152813388	2457172	189	89953											
SLC45A1	50651	broad.mit.edu	37	chr1	8390428	8390428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagcatccctgagaggcCgctgcggccgccgagtgaga	7	5	16	13	4	1	2	1	2	0	2	2	5	2	2	4	3	2	2	4	3	0	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:8390428C>T	uc001apb.2	+	4	875	c.875C>T	c.(874-876)CCG>CTG	p.P292L	SLC45A1_uc001apc.2_5'UTR	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	292					carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGAGAGGCCGCTGCGGCCG	0.697													15	36					0	0	0.00245	0	0		T	8390428	T	T	8390428	3	4	172	1	0	0	0	0	1	0	0	0	14665	652	23	1	889	1	SLC45A1	1	8390428	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08		8390428	240860193	1	89954											
SLC2A5	6518	broad.mit.edu	37	chr1	9097965	9097965	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccactcacctggatgaaCgggaagatcaagcccacggt	11	5	11	14	2	2	2	2	1	0	1	2	4	2	4	4	3	2	0	4	3	3	0	rs111341866	byFrequency	TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:9097965C>T	uc001apo.2	-	11	1585	c.1293G>A	c.(1291-1293)CCG>CCA	p.P431P	SLC2A5_uc010nzy.1_Silent_p.P372P|SLC2A5_uc010nzz.1_Silent_p.P316P|SLC2A5_uc010oaa.1_Silent_p.P387P|SLC2A5_uc010oab.1_Silent_p.P431P	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	431	Helical; Name=11; (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGGATGAACGGGAAGATCA	0.617													12	22					0	0	0.001855	0	0		T	9097965	T	T	9097965	2	4	172	1	0	0	0	0	0	0	0	1	14573	523	19	1		1	SLC2A5	1	9097965	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	707537	9097965	240152656	2	89955											
CLSTN1	22883	broad.mit.edu	37	chr1	9790620	9790620	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctgctgccgggttgcgttCtgggggtcgccctgctcccc	0	11	15	15	3	1	0	0	0	1	0	3	0	2	0	4	3	5	5	4	3	0	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:9790620C>T	uc001aqh.2	-	19	3651	c.2892G>A	c.(2890-2892)CAG>CAA	p.Q964Q	CLSTN1_uc001aqi.2_Silent_p.Q954Q|CLSTN1_uc010oag.1_Silent_p.Q945Q|CLSTN1_uc001aqf.2_Silent_p.Q228Q	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	964	Cytoplasmic (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GGGTTGCGTTCTGGGGGTCGC	0.607													18	65					0	0	0.008871	0	0		T	9790620	T	T	9790620	2	4	172	1	0	0	0	0	0	0	0	1	3564	912	32	4		4	CLSTN1	1	9790620	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	692655	9790620	239460001	3	89956											
PRAMEF11	440560	broad.mit.edu	37	chr1	12887591	12887591	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcactggtgttttgttcctcTtggcattgaggaagcaccca	7	13	11	10	0	1	1	0	1	1	0	2	2	2	2	2	3	1	5	2	3	1	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:12887591T>A	uc001auk.2	-	3	462	c.266A>T	c.(265-267)AAG>ATG	p.K89M		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	89											0						TTTGTTCCTCTTGGCATTGAG	0.483													57	321					0	0	0.00361	0	0		A	12887591	A	A	12887591	3	1	172	1	0	0	0	0	1	0	0	0	12449	1609	56	5	1052	5	PRAMEF11	1	12887591	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	3096971	12887591	236363030	4	89957											
PAX7	5081	broad.mit.edu	37	chr1	18961684	18961684	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgttcagctgggagatccGggacaggctgctgaaggatg	9	8	16	8	1	1	2	1	1	0	1	2	5	2	4	1	4	2	4	1	4	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:18961684G>T	uc001bay.2	+	3	999	c.401G>T	c.(400-402)CGG>CTG	p.R134L	PAX7_uc001baz.2_Missense_Mutation_p.R134L|PAX7_uc010oct.1_Missense_Mutation_p.R134L	NM_002584	NP_002575	P23759	PAX7_HUMAN	paired box 7 isoform 1	134	Paired.				anti-apoptosis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX7/FOXO1(197)	soft_tissue(197)|lung(3)|prostate(1)|ovary(1)|breast(1)	203		Colorectal(325;3.46e-05)|all_lung(284;0.000439)|Renal(390;0.000518)|Lung NSC(340;0.000543)|Breast(348;0.00093)|Ovarian(437;0.00768)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00609)|BRCA - Breast invasive adenocarcinoma(304;4.71e-05)|Kidney(64;0.000279)|KIRC - Kidney renal clear cell carcinoma(64;0.00371)|STAD - Stomach adenocarcinoma(196;0.00658)|READ - Rectum adenocarcinoma(331;0.0576)		TGGGAGATCCGGGACAGGCTG	0.597			T	FOXO1A	alveolar rhabdomyosarcoma								5	55					0.00116845	0.00123647	0.001168	1	0		T	18961684	T	T	18961684	3	4	172	1	0	0	0	0	1	0	0	0	11503	1116	39	5	411	5	PAX7	1	18961684	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	6074093	18961684	230288937	5	89958											
LUZP1	7798	broad.mit.edu	37	chr1	23417805	23417805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggaggagggctcaggggcatCccctgaacttggtcctaccc	7	7	14	13	0	1	1	1	1	0	0	3	3	3	3	4	6	2	2	4	6	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:23417805C>T	uc001bgk.2	-	4	3334	c.2950G>A	c.(2950-2952)GAT>AAT	p.D984N	LUZP1_uc010odv.1_Missense_Mutation_p.D984N|LUZP1_uc001bgl.2_Missense_Mutation_p.D984N|LUZP1_uc001bgm.1_Missense_Mutation_p.D984N	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	984						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		TCAGGGGCATCCCCTGAACTT	0.577													10	52					0	0	0.006214	0	0		T	23417805	T	T	23417805	3	4	172	1	0	0	0	0	1	0	0	0	9104	855	30	4	288	4	LUZP1	1	23417805	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	4456121	23417805	225832816	6	89959											
MYOM3	127294	broad.mit.edu	37	chr1	24416562	24416562	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatcccgcgtaccttcaaaAgcgtctgtgctgatggtgat	8	11	12	10	3	2	2	1	2	1	0	3	3	3	3	2	2	3	2	2	2	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:24416562A>T	uc001bin.3	-	13	1642	c.1479T>A	c.(1477-1479)GCT>GCA	p.A493A	MYOM3_uc001bim.3_Silent_p.A150A|MYOM3_uc001bio.2_Silent_p.A493A|MYOM3_uc001bip.1_Silent_p.A150A	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	493										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TACCTTCAAAAGCGTCTGTGC	0.552													4	33					0	0	0.009096	0	0		T	24416562	T	T	24416562	2	4	172	1	0	0	0	0	0	0	0	1	10111	59	3	5		5	MYOM3	1	24416562	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	998757	24416562	224834059	7	89960											
BEND5	79656	broad.mit.edu	37	chr1	49201993	49201993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgtggcgacgcctgtgacGcttctgtttttcagaacatc	6	15	10	10	3	2	2	1	1	1	1	3	3	2	2	1	1	1	2	1	1	1	4	rs149855111	by1000genomes	TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:49201993G>A	uc001crx.3	-	5	1070	c.1026C>T	c.(1024-1026)AGC>AGT	p.S342S	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Silent_p.S173S	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	342	BEN.									skin(1)	1						CGCCTGTGACGCTTCTGTTTT	0.468													13	65					0	0	0.001855	0	0		A	49201993	A	A	49201993	2	1	172	1	0	0	0	0	0	0	0	1	1402	1078	38	1		1	BEND5	1	49201993	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	24785431	49201993	200048628	8	89961											
WDR78	79819	broad.mit.edu	37	chr1	67301455	67301455	+	Silent	SNP	T	C	C	0	1	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	ggactctgataaatacgttcTggccactaaattttaaaaaa	16	12	6	7	1	2	1	0	1	2	0	2	2	2	2	1	2	1	1	1	2	8	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:67301455T>C	uc001dcx.2	-	11	1643	c.1587A>G	c.(1585-1587)CCA>CCG	p.P529P	WDR78_uc009waw.2_Silent_p.P275P|WDR78_uc009wax.2_Intron	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	529										ovary(2)	2						AAATACGTTCTGGCCACTAAA	0.378													15	50					0	0	0.006122	0	0		C	67301455	C	C	67301455	2	2	172	1	0	0	0	0	0	0	0	1	17354	1567	55	3		3	WDR78	1	67301455	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	18099462	67301455	181949166	9	89962											
DPYD	1806	broad.mit.edu	37	chr1	97915763	97915763	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccggatgattctgggggaaAcatttgtcacaatgtcctga	10	11	11	9	1	2	2	1	2	1	0	3	4	3	4	2	3	1	0	2	3	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:97915763A>C	uc001drv.2	-	14	1894	c.1757T>G	c.(1756-1758)GTT>GGT	p.V586G		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	586					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TCTGGGGGAAACATTTGTCAC	0.418													5	39					0	0	0.001168	0	0		C	97915763	C	C	97915763	3	2	172	1	0	0	0	0	1	0	0	0	4751	43	2	5	1360	5	DPYD	1	97915763	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	30614308	97915763	151334858	10	89963											
KCNA2	3737	broad.mit.edu	37	chr1	111146041	111146041	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatctccatgtaatcagacTtactaatggtagaggcactt	12	12	9	8	0	2	2	1	0	1	2	3	3	2	3	1	3	1	3	1	3	4	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:111146041T>G	uc001dzu.2	-	2	1860	c.1364A>C	c.(1363-1365)AAG>ACG	p.K455T	KCNA2_uc009wfv.1_Intron|KCNA2_uc009wfw.2_Missense_Mutation_p.K455T	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	455						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		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)		GTAATCAGACTTACTAATGGT	0.443													17	44					0	0	0.006122	0	0		G	111146041	G	G	111146041	3	3	172	1	0	0	0	0	1	0	0	0	8019	1609	56	5	139	5	KCNA2	1	111146041	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	13230278	111146041	138104580	11	89964											
KCNA2	3737	broad.mit.edu	37	chr1	111147160	111147160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaatggcatcaaagctagggCggttccgatcgaaaaagtac	15	7	11	8	3	1	0	1	0	0	0	3	2	2	0	1	3	2	4	1	3	6	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:111147160C>T	uc001dzu.2	-	2	741	c.245G>A	c.(244-246)CGC>CAC	p.R82H	KCNA2_uc009wfv.1_Missense_Mutation_p.R82H|KCNA2_uc009wfw.2_Missense_Mutation_p.R82H	NM_004974	NP_004965	P16389	KCNA2_HUMAN	potassium voltage-gated channel, shaker-related	82						juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(1)	1		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)		AAAGCTAGGGCGGTTCCGATC	0.478													27	31					0	0	0.007291	0	0		T	111147160	T	T	111147160	3	4	172	1	0	0	0	0	1	0	0	0	8019	768	27	1	1258	1	KCNA2	1	111147160	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1119	111147160	138103461	12	89965											
SYCP1	6847	broad.mit.edu	37	chr1	115428890	115428890	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ttactgaatttgaaactactGtctgcagcttggaagaatta	13	14	8	6	0	1	3	0	2	1	1	1	4	1	4	0	1	5	2	0	1	7	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:115428890G>C	uc001efr.2	+	14	1359	c.1150G>C	c.(1150-1152)GTC>CTC	p.V384L	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.V384L|SYCP1_uc009wgw.2_Missense_Mutation_p.V384L	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	384	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGAAACTACTGTCTGCAGCTT	0.284													19	60					0	0	0.008871	0	0		C	115428890	C	C	115428890	3	2	172	1	0	0	0	0	1	0	0	0	15456	1377	48	5	1200	5	SYCP1	1	115428890	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	4281730	115428890	133821731	13	89966											
PDE4DIP	9659	broad.mit.edu	37	chr1	144921933	144921933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcatcagccagttggcgctCtttctgtcgtaccaccctct	5	12	9	15	2	4	0	1	0	3	0	5	0	4	0	3	2	2	4	3	2	1	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:144921933C>T	uc001elw.3	-	9	1387	c.1096G>A	c.(1096-1098)GAG>AAG	p.E366K	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.E432K|PDE4DIP_uc001emc.1_Missense_Mutation_p.E366K|PDE4DIP_uc001emd.1_Missense_Mutation_p.E366K|PDE4DIP_uc001emb.1_Missense_Mutation_p.E529K|PDE4DIP_uc001eme.1_5'UTR|PDE4DIP_uc001emf.1_Missense_Mutation_p.E153K	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	366	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		AGTTGGCGCTCTTTCTGTCGT	0.483			T	PDGFRB	MPD								24	650					0	0	0.003954	0	0		T	144921933	T	T	144921933	3	4	172	1	0	0	0	0	1	0	0	0	11662	922	32	4	6098	4	PDE4DIP	1	144921933	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	29493043	144921933	104328688	14	89967											
NOTCH2NL	388677	broad.mit.edu	37	chr1	145273287	145273287	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gtggcccaggccatgctgggGaaagccacgtgccgatgtgc	7	6	16	12	2	0	0	0	0	0	0	0	2	0	1	4	4	4	1	4	4	1	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:145273287G>A	uc001emn.3	+	3	511	c.141G>A	c.(139-141)GGG>GGA	p.G47G	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Silent_p.G47G|NOTCH2NL_uc001emo.2_Silent_p.G47G|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	47	EGF-like 2.				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						CCATGCTGGGGAAAGCCACGT	0.562													5	362					0	0	0.004482	0	0		A	145273287	A	A	145273287	2	1	172	1	0	0	0	0	0	0	0	1	10568	1161	41	4		4	NOTCH2NL	1	145273287	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	351354	145273287	103977334	15	89968											
LOC200030	200030	broad.mit.edu	37	chr1	148017549	148017549	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgttcctctaatgagtgaAatgtgctgctgtaagacttg	9	14	11	7	0	1	3	0	2	1	1	2	3	2	3	1	0	2	5	1	0	3	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:148017549A>C	uc001eqf.2	-	12	1789	c.1754T>G	c.(1753-1755)TTT>TGT	p.F585C	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Intron|NBPF14_uc010pac.1_Intron|NBPF14_uc001eqx.2_Intron|NBPF14_uc010pae.1_Intron|NBPF14_uc010paf.1_Intron|NBPF14_uc009wkf.1_RNA|NBPF14_uc001eqq.2_Missense_Mutation_p.F245C|NBPF14_uc001eqs.1_Missense_Mutation_p.F124C	NM_017940	NP_060410	Q86T75	NBPFB_HUMAN	hypothetical protein LOC55672	585	NBPF 3.					cytoplasm					0						TAATGAGTGAAATGTGCTGCT	0.488													44	480					0	0	0.00361	0	0		C	148017549	C	C	148017549	3	2	172	1	0	0	0	0	1	0	0	0	8889	14	1	5		5	LOC200030	1	148017549	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2744262	148017549	101233072	16	89969											
FLG	2312	broad.mit.edu	37	chr1	152277559	152277559	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgattgtctggagcggtctGcagagtgcccgtgaccggct	5	10	15	11	3	2	3	0	2	2	1	2	4	2	4	2	3	3	2	2	3	0	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:152277559G>T	uc001ezu.1	-	3	9839	c.9803C>A	c.(9802-9804)GCA>GAA	p.A3268E		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3268	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGAGCGGTCTGCAGAGTGCCC	0.577									Ichthyosis				221	438					9.94903e-101	1.19621e-100	0.00361	1	0		T	152277559	T	T	152277559	3	4	172	1	0	0	0	0	1	0	0	0	5936	1319	46	5	2386	5	FLG	1	152277559	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	4260010	152277559	96973062	17	89970											
FLG	2312	broad.mit.edu	37	chr1	152279828	152279828	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgagtttgtctgcttgcacTtctggatcctgagtgcccat	6	14	10	11	1	2	1	0	1	2	0	3	3	3	2	2	1	3	3	2	1	0	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:152279828T>C	uc001ezu.1	-	3	7570	c.7534A>G	c.(7534-7536)AGT>GGT	p.S2512G		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2512	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGCTTGCACTTCTGGATCCT	0.562									Ichthyosis				59	592					0	0	0.00361	0	0		C	152279828	C	C	152279828	3	2	172	1	0	0	0	0	1	0	0	0	5936	1609	56	3	4655	3	FLG	1	152279828	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	2269	152279828	96970793	18	89971											
FLG	2312	broad.mit.edu	37	chr1	152282729	152282729	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgattgttcctcatttcTtgtttgcctgcttgcacttc	3	20	6	12	0	2	1	1	1	1	0	5	1	4	1	3	0	3	4	3	0	0	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:152282729T>G	uc001ezu.1	-	3	4669	c.4633A>C	c.(4633-4635)AGA>CGA	p.R1545R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1545	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTCATTTCTTGTTTGCCTG	0.587									Ichthyosis				82	545					0	0	0.00361	0	0		G	152282729	G	G	152282729	2	3	172	1	0	0	0	0	0	0	0	1	5936	1617	56	5		5	FLG	1	152282729	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	2901	152282729	96967892	19	89972											
GBA	2629	broad.mit.edu	37	chr1	155207192	155207192	+	Silent	SNP	G	A	A	0	0	1	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	agcatgagtaggcggacattGtggtgagtactgttggcgag	9	10	17	5	2	0	2	0	2	0	0	0	4	0	3	0	4	2	4	0	4	2	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:155207192G>A	uc001fjh.2	-	7	1089	c.939C>T	c.(937-939)CAC>CAT	p.H313H	RAG1AP1_uc010pey.1_Intron|GBA_uc010pfw.1_Silent_p.H200H|GBA_uc010pfx.1_Silent_p.H264H|GBA_uc001fji.2_Silent_p.H313H|GBA_uc001fjj.2_Silent_p.H313H|GBA_uc001fjk.2_Silent_p.H313H|GBA_uc001fjl.2_Silent_p.H313H|GBA_uc010pfy.1_Silent_p.H226H|GBA_uc009wqk.1_Silent_p.H226H	NM_000157	NP_000148	P04062	GLCM_HUMAN	glucocerebrosidase precursor	313					carbohydrate metabolic process|cell death|cellular response to tumor necrosis factor|ceramide biosynthetic process|glucosylceramide catabolic process|lysosome organization|negative regulation of interleukin-6 production|negative regulation of MAP kinase activity|positive regulation of protein dephosphorylation|sphingosine biosynthetic process|termination of signal transduction	lysosomal lumen|lysosomal membrane	cation binding|glucosylceramidase activity|receptor binding			ovary(1)|skin(1)	2	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		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)		Alglucerase(DB00088)|Imiglucerase(DB00053)	GGCGGACATTGTGGTGAGTAC	0.572									Gaucher_disease_type_I				9	88					0	0	0.006214	0	0		A	155207192	A	A	155207192	2	1	172	1	0	0	0	0	0	0	0	1	6281	1368	48	4		4	GBA	1	155207192	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	2924463	155207192	94043429	20	89973											
GPATCH4	54865	broad.mit.edu	37	chr1	156568060	156568060	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttggccgcagtcttgttgaAgagctcattccaccagtggt	7	12	12	10	1	2	2	1	1	1	1	3	2	3	2	3	2	1	4	3	2	1	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:156568060A>C	uc001fpm.2	-	4	259	c.220T>G	c.(220-222)TTC>GTC	p.F74V	GPATCH4_uc001fpl.2_Missense_Mutation_p.F69V	NM_015590	NP_056405	Q5T3I0	GPTC4_HUMAN	G patch domain containing 4 isoform 1	69						intracellular	nucleic acid binding			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GTCTTGTTGAAGAGCTCATTC	0.547													44	272					0	0	0.00874	0	0		C	156568060	C	C	156568060	3	2	172	1	0	0	0	0	1	0	0	0	6608	72	3	5	927	5	GPATCH4	1	156568060	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1360868	156568060	92682561	21	89974											
OR6Y1	391112	broad.mit.edu	37	chr1	158517000	158517000	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctgcctttacttcatggTtcctcagacagtaaatgatg	9	13	10	9	0	2	2	2	1	0	1	3	2	3	2	2	2	2	3	2	2	3	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:158517000T>G	uc010pil.1	-	1	896	c.896A>C	c.(895-897)AAC>ACC	p.N299T		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TACTTCATGGTTCCTCAGACA	0.443													37	64					0	0	0.004878	0	0		G	158517000	G	G	158517000	3	3	172	1	0	0	0	0	1	0	0	0	11232	1725	60	5	83	5	OR6Y1	1	158517000	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	1948940	158517000	90733621	22	89975											
C1orf129	80133	broad.mit.edu	37	chr1	170934299	170934299	+	Missense_Mutation	SNP	T	C	C	0	1	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	atgtttccaacaggaaatgcTcgtgtggatgagtaaagata	14	11	11	5	1	0	2	0	1	0	1	2	4	1	4	1	2	2	3	1	2	5	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:170934299T>C	uc001ghg.2	+	7	513	c.383T>C	c.(382-384)CTC>CCC	p.L128P	C1orf129_uc009wvy.2_5'UTR|C1orf129_uc010plz.1_Missense_Mutation_p.L128P	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	128							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CAGGAAATGCTCGTGTGGATG	0.368													15	119					0	0	0.00245	0	0		C	170934299	C	C	170934299	3	2	172	1	0	0	0	0	1	0	0	0	1999	1551	54	3	405	3	C1orf129	1	170934299	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	12417299	170934299	78316322	23	89976											
CACNA1E	777	broad.mit.edu	37	chr1	181764055	181764055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccactattcgggataagcGttcaaattcctcgtggttgg	8	14	10	9	3	1	0	1	0	0	0	5	1	3	1	2	3	1	2	2	3	3	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:181764055G>A	uc001gow.2	+	45	6119	c.5954G>A	c.(5953-5955)CGT>CAT	p.R1985H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1873H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R1254H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2028	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CGGGATAAGCGTTCAAATTCC	0.498													13	76					0	0	0.00245	0	0		A	181764055	A	A	181764055	3	1	172	1	0	0	0	0	1	0	0	0	2545	1145	40	1	6132	1	CACNA1E	1	181764055	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	10829756	181764055	67486566	24	89977											
RNASEL	6041	broad.mit.edu	37	chr1	182555272	182555272	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agccccatggtccagcagcaGatgcgtaatagcctccacat	11	7	9	14	1	0	1	0	0	0	1	2	1	2	1	5	1	5	3	5	1	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:182555272G>A	uc001gpj.1	-	1	837	c.670C>T	c.(670-672)CTG>TTG	p.L224L	RNASEL_uc009wxz.1_Silent_p.L224L|RNASEL_uc001gpk.2_Silent_p.L224L|RNASEL_uc009wya.1_Silent_p.L224L	NM_021133	NP_066956	Q05823	RN5A_HUMAN	ribonuclease L	224	ANK 6.				mRNA processing|response to virus|type I interferon-mediated signaling pathway	mitochondrion	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|metal ion binding|protein kinase activity|RNA binding			ovary(4)|stomach(1)	5						TCCAGCAGCAGATGCGTAATA	0.532									Hereditary_Prostate_Cancer				16	89					0	0	0.006122	0	0		A	182555272	A	A	182555272	2	1	172	1	0	0	0	0	0	0	0	1	13441	933	33	4		4	RNASEL	1	182555272	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	791217	182555272	66695349	25	89978											
SYT2	127833	broad.mit.edu	37	chr1	202571672	202571672	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcagaacgcccacagtaAgctgtggagagagatgggga	12	5	15	9	1	0	3	0	0	0	3	0	6	0	4	2	3	3	3	2	3	2	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:202571672A>T	uc001gye.2	-	5	660	c.467T>A	c.(466-468)CTT>CAT	p.L156H	SYT2_uc010pqb.1_Missense_Mutation_p.L156H|SYT2_uc009xaf.2_5'UTR	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II	156	Phospholipid binding (By similarity).|C2 1.|Cytoplasmic (Potential).				neurotransmitter secretion	cell junction|chromaffin granule membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	protein binding|transporter activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.169)		Botulinum Toxin Type B(DB00042)	GCCCACAGTAAGCTGTGGAGA	0.582													16	91					0	0	0.003163	0	0		T	202571672	T	T	202571672	3	4	172	1	0	0	0	0	1	0	0	0	15499	86	3	5	812	5	SYT2	1	202571672	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	20016400	202571672	46678949	26	89979											
PLEKHA6	22874	broad.mit.edu	37	chr1	204197347	204197347	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcgccgatgggcaccacGttctgcatactgaagaggca	9	7	11	14	3	1	2	0	1	1	1	2	3	1	2	3	2	2	4	3	2	2	2	rs139252016	byFrequency	TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:204197347G>A	uc001hau.2	-	21	3212	c.2895C>T	c.(2893-2895)AAC>AAT	p.N965N		NM_014935	NP_055750	Q9Y2H5	PKHA6_HUMAN	phosphoinositol 3-phosphate-binding protein-3	965										ovary(3)|pancreas(1)	4	all_cancers(21;0.0222)|Breast(84;0.179)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|BRCA - Breast invasive adenocarcinoma(75;0.0833)|Kidney(21;0.0934)|Epithelial(59;0.229)			TGGGCACCACGTTCTGCATAC	0.622													12	101					0	0	0.001368	0	0		A	204197347	A	A	204197347	2	1	172	1	0	0	0	0	0	0	0	1	12079	1136	40	1		1	PLEKHA6	1	204197347	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	1625675	204197347	45053274	27	89980											
IL10	3586	broad.mit.edu	37	chr1	206943236	206943236	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gttttcacagggaagaaatcGatgctgtggaagaaaagaga	16	8	13	4	1	1	3	1	0	0	3	2	7	1	5	0	2	1	2	0	2	5	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:206943236G>C	uc001hen.1	-	4	441	c.382C>G	c.(382-384)CGA>GGA	p.R128G		NM_000572	NP_000563	P22301	IL10_HUMAN	interleukin 10 precursor	128					anti-apoptosis|B cell differentiation|B cell proliferation|cytoplasmic sequestering of NF-kappaB|inflammatory response|leukocyte chemotaxis|negative regulation of B cell proliferation|negative regulation of cytokine secretion involved in immune response|negative regulation of interferon-alpha biosynthetic process|negative regulation of interleukin-6 production|negative regulation of membrane protein ectodomain proteolysis|negative regulation of MHC class II biosynthetic process|negative regulation of T cell proliferation|positive regulation of B cell apoptosis|positive regulation of cytokine secretion|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|receptor biosynthetic process|regulation of isotype switching|response to glucocorticoid stimulus|type 2 immune response	extracellular space	cytokine activity|growth factor activity|interleukin-10 receptor binding				0	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.211)			GGAAGAAATCGATGCTGTGGA	0.512													8	48					0	0	0.00308	0	0		C	206943236	C	C	206943236	3	2	172	1	0	0	0	0	1	0	0	0	7635	1066	37	5	162	5	IL10	1	206943236	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	2745889	206943236	42307385	28	89981											
CENPF	1063	broad.mit.edu	37	chr1	214815817	214815817	+	Missense_Mutation	SNP	T	G	G	0	1	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	accaaatgaacagcaccctgTgtctttggctccattggacg	10	10	9	12	1	1	1	0	1	1	0	2	2	2	2	3	2	2	2	3	2	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:214815817T>G	uc001hkm.2	+	12	4310	c.4136T>G	c.(4135-4137)GTG>GGG	p.V1379G		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CAGCACCCTGTGTCTTTGGCT	0.408													8	55					0	0	0.00308	0	0		G	214815817	G	G	214815817	3	3	172	1	0	0	0	0	1	0	0	0	3234	1696	59	5	4178	5	CENPF	1	214815817	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	7872581	214815817	34434804	29	89982											
ESRRG	2104	broad.mit.edu	37	chr1	216692702	216692702	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatacgacaccaaggatcaaAatttccatccaagcactctg	15	9	5	12	1	2	0	1	0	1	0	4	2	4	1	3	1	2	1	3	1	6	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:216692702A>C	uc001hkw.1	-	6	1090	c.924T>G	c.(922-924)ATT>ATG	p.I308M	ESRRG_uc001hky.1_Missense_Mutation_p.I285M|ESRRG_uc009xdp.1_Missense_Mutation_p.I285M|ESRRG_uc001hkz.1_Missense_Mutation_p.I246M|ESRRG_uc010puc.1_Missense_Mutation_p.I285M|ESRRG_uc001hla.1_Missense_Mutation_p.I285M|ESRRG_uc001hlb.1_Missense_Mutation_p.I285M|ESRRG_uc010pud.1_Missense_Mutation_p.I116M|ESRRG_uc001hlc.1_Missense_Mutation_p.I285M|ESRRG_uc001hld.1_Missense_Mutation_p.I285M|ESRRG_uc001hkx.1_Missense_Mutation_p.I320M|ESRRG_uc009xdo.1_Missense_Mutation_p.I285M|ESRRG_uc001hle.1_Missense_Mutation_p.I285M	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	308					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CAAGGATCAAAATTTCCATCC	0.478													8	62					0	0	0.004482	0	0		C	216692702	C	C	216692702	3	2	172	1	0	0	0	0	1	0	0	0	5270	10	1	5	460	5	ESRRG	1	216692702	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1876885	216692702	32557919	30	89983											
ESRRG	2104	broad.mit.edu	37	chr1	216692733	216692733	+	Missense_Mutation	SNP	A	C	C	1	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	aagcactctgcagaaggctcAtctggtccgccagggacagc	10	6	12	13	1	3	1	1	0	2	1	4	2	4	2	2	3	3	3	2	3	2	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:216692733A>C	uc001hkw.1	-	6	1059	c.893T>G	c.(892-894)ATG>AGG	p.M298R	ESRRG_uc001hky.1_Missense_Mutation_p.M275R|ESRRG_uc009xdp.1_Missense_Mutation_p.M275R|ESRRG_uc001hkz.1_Missense_Mutation_p.M236R|ESRRG_uc010puc.1_Missense_Mutation_p.M275R|ESRRG_uc001hla.1_Missense_Mutation_p.M275R|ESRRG_uc001hlb.1_Missense_Mutation_p.M275R|ESRRG_uc010pud.1_Missense_Mutation_p.M106R|ESRRG_uc001hlc.1_Missense_Mutation_p.M275R|ESRRG_uc001hld.1_Missense_Mutation_p.M275R|ESRRG_uc001hkx.1_Missense_Mutation_p.M310R|ESRRG_uc009xdo.1_Missense_Mutation_p.M275R|ESRRG_uc001hle.1_Missense_Mutation_p.M275R	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	298					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	CAGAAGGCTCATCTGGTCCGC	0.428													7	55					0	0	0.001984	0	0		C	216692733	C	C	216692733	3	2	172	1	0	0	0	0	1	0	0	0	5270	217	8	5	491	5	ESRRG	1	216692733	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	31	216692733	32557888	31	89984											
NID1	4811	broad.mit.edu	37	chr1	236212088	236212088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggctggaaagagatctccgGgaaccctctgtggacacact	11	7	12	11	1	2	1	0	0	2	1	3	5	2	4	2	4	1	1	2	4	2	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:236212088G>A	uc001hxo.2	-	2	529	c.427C>T	c.(427-429)CCG>TCG	p.P143S	NID1_uc009xgd.2_Missense_Mutation_p.P143S	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	143	NIDO.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	GAGATCTCCGGGAACCCTCTG	0.582													5	51					0	0	0.001168	0	0		A	236212088	A	A	236212088	3	1	172	1	0	0	0	0	1	0	0	0	10433	1232	43	4	3392	4	NID1	1	236212088	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	19519355	236212088	13038533	32	89985											
RYR2	6262	broad.mit.edu	37	chr1	237756796	237756796	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactattactcagtgagaatCtttcctggacaagaacctgc	12	12	7	10	0	2	2	1	1	1	2	3	4	3	3	2	1	4	0	2	1	6	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:237756796C>A	uc001hyl.1	+	33	4416	c.4296C>A	c.(4294-4296)ATC>ATA	p.I1432I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1432	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAGTGAGAATCTTTCCTGGAC	0.398													11	64					3.86212e-05	4.18735e-05	0.008291	1	0		A	237756796	A	A	237756796	2	1	172	1	0	0	0	0	0	0	0	1	13794	903	32	5		5	RYR2	1	237756796	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1544708	237756796	11493825	33	89986											
RYR2	6262	broad.mit.edu	37	chr1	237758906	237758906	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtggtggatgctgccagCgggctgctcacattcattgc	5	12	14	10	1	2	0	2	0	0	0	2	1	2	1	1	3	5	3	1	3	0	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:237758906C>A	uc001hyl.1	+	34	4665	c.4545C>A	c.(4543-4545)AGC>AGA	p.S1515R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1515	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATGCTGCCAGCGGGCTGCTCA	0.522													8	56					5.4927e-09	6.21702e-09	0.004482	1	0		A	237758906	A	A	237758906	3	1	172	1	0	0	0	0	1	0	0	0	13794	767	27	5	4679	5	RYR2	1	237758906	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	2110	237758906	11491715	34	89987											
ZNF669	79862	broad.mit.edu	37	chr1	247263752	247263752	+	Missense_Mutation	SNP	T	C	C	0	1	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	tacacccagcctctatatcaTgacttctttcatggcgagta	10	13	6	12	1	4	1	2	1	2	0	4	2	4	1	2	1	2	1	2	1	4	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:247263752T>C	uc001ice.2	-	4	1492	c.1319A>G	c.(1318-1320)CAT>CGT	p.H440R	ZNF669_uc001icf.2_Missense_Mutation_p.H354R	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	440	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			cTCTATATCATGACTTCTTTC	0.224													23	121					0	0	0.004656	0	0		C	247263752	C	C	247263752	3	2	172	1	0	0	0	0	1	0	0	0	18101	1464	51	3	79	3	ZNF669	1	247263752	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	9504846	247263752	1986869	35	89988											
OR2L2	26246	broad.mit.edu	37	chr1	248202430	248202430	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accccaatgctcaaccccatCatctacagcctgagaaacaa	15	6	4	16	0	3	1	2	1	1	1	3	2	3	1	5	0	5	1	5	0	5	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr1:248202430C>T	uc001idw.2	+	1	957	c.861C>T	c.(859-861)ATC>ATT	p.I287I	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TCAACCCCATCATCTACAGCC	0.463													40	88					0	0	0.002522	0	0		T	248202430	T	T	248202430	2	4	172	1	0	0	0	0	0	0	0	1	11026	816	29	4		4	OR2L2	1	248202430	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	938678	248202430	1048191	36	89989											
FSHR	2492	broad.mit.edu	37	chr2	49217713	49217713	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaaacttacagtaaaacTttttggagagaatgaatctt	18	12	7	4	0	1	2	0	1	1	1	1	5	1	3	0	1	3	1	0	1	8	5	rs1126715		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:49217713T>A	uc002rww.2	-	5	512	c.438A>T	c.(436-438)AAA>AAT	p.K146N	FSHR_uc002rwx.2_Missense_Mutation_p.K146N|FSHR_uc010fbn.2_Missense_Mutation_p.K146N|FSHR_uc010fbo.1_RNA	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	146	LRR 5.|Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	ACAGTAAAACTTTTTGGAGAG	0.373									Gonadal_Dysgenesis_46_XX				24	52					0	0	0.004656	0	0		A	49217713	A	A	49217713	3	1	172	1	0	0	0	0	1	0	0	0	6087	1606	56	5	1673	5	FSHR	2	49217713	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08		49217713	193981660	37	89990											
RTN4	57142	broad.mit.edu	37	chr2	55209688	55209688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aatcatcaactaagaagaggCgcctgagttcctttatcgtg	12	11	9	9	2	2	3	2	1	0	2	4	3	3	3	2	1	1	1	2	1	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:55209688C>T	uc002rye.2	-	5	3621	c.3323G>A	c.(3322-3324)CGC>CAC	p.R1108H	RTN4_uc002ryc.2_Missense_Mutation_p.R115H|RTN4_uc002ryd.2_Missense_Mutation_p.R902H|RTN4_uc002ryf.2_Missense_Mutation_p.R308H|RTN4_uc002ryg.2_Missense_Mutation_p.R289H	NM_020532	NP_065393	Q9NQC3	RTN4_HUMAN	reticulon 4 isoform A	1108	Lumenal (Potential).|Reticulon.				apoptosis|axonal fasciculation|cerebral cortex radial glia guided migration|endoplasmic reticulum tubular network organization|negative regulation of anti-apoptosis|negative regulation of axon extension|nerve growth factor receptor signaling pathway|regulation of apoptosis|regulation of branching morphogenesis of a nerve|regulation of cell migration	integral to endoplasmic reticulum membrane|nuclear envelope|plasma membrane	protein binding			ovary(2)|large_intestine(1)	3						TAAGAAGAGGCGCCTGAGTTC	0.378													11	31					0	0	0.000978	0	0		T	55209688	T	T	55209688	3	4	172	1	0	0	0	0	1	0	0	0	13753	768	27	1	275	1	RTN4	2	55209688	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	5991975	55209688	187989685	38	89991											
DYSF	8291	broad.mit.edu	37	chr2	71795359	71795359	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggcacaacgggcctcaccTaccccaagttttctgacgtc	8	8	10	15	2	2	1	1	1	1	0	3	1	2	1	4	3	2	2	4	3	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:71795359T>A	uc002sie.2	+	26	3077	c.2701T>A	c.(2701-2703)TAC>AAC	p.Y901N	DYSF_uc010feg.2_Missense_Mutation_p.Y932N|DYSF_uc010feh.2_Missense_Mutation_p.Y887N|DYSF_uc002sig.3_Missense_Mutation_p.Y887N|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.Y901N|DYSF_uc010fef.2_Missense_Mutation_p.Y918N|DYSF_uc010fei.2_Missense_Mutation_p.Y918N|DYSF_uc010fek.2_Missense_Mutation_p.Y919N|DYSF_uc010fej.2_Missense_Mutation_p.Y888N|DYSF_uc010fel.2_Missense_Mutation_p.Y888N|DYSF_uc010feo.2_Missense_Mutation_p.Y933N|DYSF_uc010fem.2_Missense_Mutation_p.Y902N|DYSF_uc010fen.2_Missense_Mutation_p.Y919N|DYSF_uc002sif.2_Missense_Mutation_p.Y902N	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	901	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						GGGCCTCACCTACCCCAAGTT	0.607													104	235					0	0	0.00361	0	0		A	71795359	A	A	71795359	3	1	172	1	0	0	0	0	1	0	0	0	4865	1522	53	5	2995	5	DYSF	2	71795359	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	16585671	71795359	171404014	39	89992											
LOXL3	84695	broad.mit.edu	37	chr2	74777399	74777399	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcgtgcgtacagtcactgttCccccagccccgggaggcaca	7	7	11	16	3	1	0	1	0	0	0	3	1	2	1	4	2	3	3	4	2	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:74777399C>T	uc002smp.1	-	3	462	c.390G>A	c.(388-390)GGG>GGA	p.G130G	LOXL3_uc002smo.1_5'Flank|LOXL3_uc010ffm.1_Silent_p.G130G|LOXL3_uc002smq.1_Silent_p.G130G|LOXL3_uc010ffn.1_Silent_p.G130G|DOK1_uc002smr.2_Intron	NM_032603	NP_115992	P58215	LOXL3_HUMAN	lysyl oxidase-like 3 precursor	130	SRCR 1.					extracellular space|membrane	copper ion binding|protein-lysine 6-oxidase activity|scavenger receptor activity				0						AGTCACTGTTCCCCCAGCCCC	0.587													4	93					0	0	0.009096	0	0		T	74777399	T	T	74777399	2	4	172	1	0	0	0	0	0	0	0	1	8919	842	30	4		4	LOXL3	2	74777399	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	2982040	74777399	168421974	40	89993											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105889361	105889361	+	Silent	SNP	C	T	T	0	0	0	1	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	gatttctggagcagccgccgCagcttggcctgcgtctcggt	4	10	14	13	4	2	0	0	0	2	0	3	2	2	1	3	3	4	3	3	3	0	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:105889361C>T	uc002tcq.2	-	10	2007	c.1923G>A	c.(1921-1923)CTG>CTA	p.L641L	TGFBRAP1_uc010fjc.2_Silent_p.L410L|TGFBRAP1_uc002tcr.3_Silent_p.L641L	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	641					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						GCAGCCGCCGCAGCTTGGCCT	0.547													6	72					0	0	0.00308	0	0		T	105889361	T	T	105889361	2	4	172	1	0	0	0	0	0	0	0	1	15849	697	25	2		2	TGFBRAP1	2	105889361	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	31111962	105889361	137310012	41	89994											
TTL	150465	broad.mit.edu	37	chr2	113286266	113286266	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacacatttcaggaagctctAtgcagaactgtgccaaggca	14	8	9	10	0	2	1	1	0	1	1	2	2	2	2	1	2	5	3	1	2	5	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:113286266A>G	uc002thu.2	+	7	1207	c.1028A>G	c.(1027-1029)TAT>TGT	p.Y343C	TTL_uc010fkm.1_Intron	NM_153712	NP_714923	Q8NG68	TTL_HUMAN	tubulin tyrosine ligase	343	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0		Ovarian(717;0.024)		BRCA - Breast invasive adenocarcinoma(221;6.17e-07)|STAD - Stomach adenocarcinoma(1183;0.00644)		AGGAAGCTCTATGCAGAACTG	0.383			T	ETV6	ALL								22	40					0	0	0.002299	0	0		G	113286266	G	G	113286266	3	3	172	1	0	0	0	0	1	0	0	0	16747	449	16	3	1054	3	TTL	2	113286266	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	7396905	113286266	129913107	42	89995											
MARCO	8685	broad.mit.edu	37	chr2	119739960	119739960	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggagtccaggagccacagGcctgaaaggaagcaaagggg	13	2	17	9	1	0	1	0	1	0	0	1	4	1	4	3	6	2	1	3	6	3	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:119739960G>T	uc002tln.1	+	12	1169	c.1037G>T	c.(1036-1038)GGC>GTC	p.G346V	MARCO_uc010yyf.1_Missense_Mutation_p.G268V	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	346	Collagen-like.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GGAGCCACAGGCCTGAAAGGA	0.567													25	144					2.65835e-16	3.13523e-16	0.007291	1	0		T	119739960	T	T	119739960	3	4	172	1	0	0	0	0	1	0	0	0	9329	1203	42	5	1083	5	MARCO	2	119739960	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	6453694	119739960	123459413	43	89996											
ORC4L	5000	broad.mit.edu	37	chr2	148705692	148705692	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtagagataactgttctttAaatattttaacatactgtgg	13	16	8	4	0	1	1	0	0	1	1	1	2	1	1	0	2	3	2	0	2	7	9			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:148705692A>C	uc002twi.2	-	9	825	c.690T>G	c.(688-690)TTT>TTG	p.F230L	ORC4L_uc002twj.2_Missense_Mutation_p.F230L|ORC4L_uc010zbo.1_Missense_Mutation_p.F156L|ORC4L_uc010zbp.1_Missense_Mutation_p.F13L|ORC4L_uc010fnr.2_Missense_Mutation_p.F230L|ORC4L_uc010zbq.1_Missense_Mutation_p.F146L|ORC4L_uc002twk.2_Missense_Mutation_p.F230L|ORC4L_uc010zbr.1_Missense_Mutation_p.F230L	NM_181741	NP_859525	O43929	ORC4_HUMAN	origin recognition complex subunit 4	230					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	ATP binding|DNA replication origin binding|nucleoside-triphosphatase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.0963)|COAD - Colon adenocarcinoma(177;0.203)		ACTGTTCTTTAAATATTTTAA	0.328													16	66					0	0	0.004007	0	0		C	148705692	C	C	148705692	3	2	172	1	0	0	0	0	1	0	0	0	11283	359	13	5	644	5	ORC4L	2	148705692	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	28965732	148705692	94493681	44	89997											
EPC2	26122	broad.mit.edu	37	chr2	149526718	149526718	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggaatgcctcttttgtctAggtattgtccccagtatcag	8	15	9	9	0	3	0	1	0	2	0	4	1	4	1	3	2	1	2	3	2	4	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:149526718A>G	uc010zbt.1	+	8	1168	c.1141_splice	c.e8-2	p.V381_splice		NM_015630	NP_056445	Q52LR7	EPC2_HUMAN	enhancer of polycomb homolog 2						chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)|breast(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0516)		TCTTTTGTCTAGGTATTGTCC	0.383													3	21					0	0	0.009096	0	0		G	149526718	G	G	149526718	5	3	172	1	0	0	0	0	0	0	1	0	5169	434	15	3	1169	3	EPC2	2	149526718	Splice_Site	SNP	A	TCGA-D7-6526-01A-11D-1800-08	821026	149526718	93672655	45	89998											
SCN3A	6328	broad.mit.edu	37	chr2	165950892	165950892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaattcttactgctgggcGaggtatgggtttctgaggtt	7	15	14	5	1	2	1	0	1	2	0	2	2	2	1	0	4	2	5	0	4	3	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:165950892G>A	uc002ucx.2	-	26	5020	c.4528C>T	c.(4528-4530)CGC>TGC	p.R1510C	SCN3A_uc010zcy.1_5'Flank|SCN3A_uc002ucy.2_Missense_Mutation_p.R1461C|SCN3A_uc002ucz.2_Missense_Mutation_p.R1461C	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1510						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ACTGCTGGGCGAGGTATGGGT	0.393													174	128					0	0	0.00361	0	0		A	165950892	A	A	165950892	3	1	172	1	0	0	0	0	1	0	0	0	13943	1058	37	1	1486	1	SCN3A	2	165950892	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	16424174	165950892	77248481	46	89999											
XIRP2	129446	broad.mit.edu	37	chr2	167760240	167760240	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaaggattctgtggacaAgagtaacaacaccagggaat	17	6	12	6	0	1	2	0	0	1	2	1	6	1	5	1	3	2	1	1	3	5	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:167760240A>T	uc002udx.2	+	1	266	c.248A>T	c.(247-249)AAG>ATG	p.K83M	XIRP2_uc010fpn.2_Missense_Mutation_p.K83M|XIRP2_uc010fpo.2_Missense_Mutation_p.K83M|XIRP2_uc010fpp.2_Missense_Mutation_p.K83M	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCTGTGGACAAGAGTAACAAC	0.512													16	32					0	0	0.00499	0	0		T	167760240	T	T	167760240	3	4	172	1	0	0	0	0	1	0	0	0	17456	72	3	5	250	5	XIRP2	2	167760240	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1809348	167760240	75439133	47	90000											
TTN	7273	broad.mit.edu	37	chr2	179400404	179400404	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtgatgtgaaggatcttgtGacaataacttggtagtggcc	11	12	13	5	0	1	3	0	3	1	0	1	4	1	4	1	3	1	1	1	3	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:179400404G>C	uc010zfg.1	-	307	93458	c.93234C>G	c.(93232-93234)GTC>GTG	p.V31078V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.V24773V|TTN_uc010zfi.1_Silent_p.V24706V|TTN_uc010zfj.1_Silent_p.V24581V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32005							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGGATCTTGTGACAATAACTT	0.418													61	84					0	0	0.00361	0	0		C	179400404	C	C	179400404	2	2	172	1	0	0	0	0	0	0	0	1	16761	1277	45	5		5	TTN	2	179400404	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	11640164	179400404	63798969	48	90001											
PGAP1	80055	broad.mit.edu	37	chr2	197757109	197757109	+	Silent	SNP	A	G	G	1	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	catttggacacttttactagAacccacatagatgtccctga	12	12	6	11	0	0	3	0	1	0	2	1	4	1	4	2	1	2	0	2	1	4	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:197757109A>G	uc002utw.2	-	9	1164	c.1050T>C	c.(1048-1050)GTT>GTC	p.V350V	PGAP1_uc002utx.2_Silent_p.V176V|PGAP1_uc002uty.1_Silent_p.V350V|PGAP1_uc010zgv.1_Intron|PGAP1_uc010fsj.2_Intron	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	350	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						CTTTTACTAGAACCCACATAG	0.279													21	28					0	0	0.005443	0	0		G	197757109	G	G	197757109	2	3	172	1	0	0	0	0	0	0	0	1	11796	233	9	3		3	PGAP1	2	197757109	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	18356705	197757109	45442264	49	90002											
MAP2	4133	broad.mit.edu	37	chr2	210559045	210559045	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatagcccttggatttaaCtttggtcggggacatgatct	8	14	10	9	1	1	1	0	1	1	0	3	3	2	3	2	4	2	0	2	4	2	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:210559045C>G	uc002vde.1	+	7	2399	c.2151C>G	c.(2149-2151)AAC>AAG	p.N717K	MAP2_uc002vdc.1_Missense_Mutation_p.N717K|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.N713K	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	717					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TTGGATTTAACTTTGGTCGGG	0.458													29	128					0	0	0.007291	0	0		G	210559045	G	G	210559045	3	3	172	1	0	0	0	0	1	0	0	0	9253	564	20	5	2165	5	MAP2	2	210559045	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	12801936	210559045	32640328	50	90003											
VIL1	7429	broad.mit.edu	37	chr2	219297563	219297563	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcatcagcttatcaagcCgtcatcctggaccagaagta	13	8	8	12	1	3	1	3	0	0	1	4	2	4	2	3	1	3	3	3	1	4	2	rs139447471		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr2:219297563C>T	uc002via.2	+	13	1454	c.1389C>T	c.(1387-1389)GCC>GCT	p.A463A	VIL1_uc010zke.1_Silent_p.A152A|VIL1_uc002vib.2_Silent_p.A463A	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	463	Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTATCAAGCCGTCATCCTGG	0.552													16	10					0	0	0.004007	0	0		T	219297563	T	T	219297563	2	4	172	1	0	0	0	0	0	0	0	1	17190	639	23	1		1	VIL1	2	219297563	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	8738518	219297563	23901810	51	90004											
CHL1	10752	broad.mit.edu	37	chr3	431150	431150	+	Silent	SNP	A	T	T	1	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	tcagtgactctctattctggAgaagactgtaagtgatgcac	11	12	10	8	0	3	4	1	2	2	2	4	5	3	4	0	1	1	2	0	1	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:431150A>T	uc003bou.2	+	19	2686	c.2415A>T	c.(2413-2415)GGA>GGT	p.G805G	CHL1_uc003bot.2_Silent_p.G821G|CHL1_uc003bow.1_Silent_p.G805G|CHL1_uc011asi.1_Silent_p.G821G	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	805	Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		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)		TCTATTCTGGAGAAGACTGTA	0.383													3	28					0	0	0.004672	0	0		T	431150	T	T	431150	2	4	172	1	0	0	0	0	0	0	0	1	3352	291	11	5		5	CHL1	3	431150	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08		431150	197591280	52	90005											
CNTN4	152330	broad.mit.edu	37	chr3	3030113	3030113	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatacctgtatagccactaaCcattttggaactgctagcag	12	12	7	10	0	0	0	0	0	0	0	0	1	0	1	3	1	6	3	3	1	7	8			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:3030113C>A	uc003bpc.2	+	13	1664	c.1443C>A	c.(1441-1443)AAC>AAA	p.N481K	CNTN4_uc003bpb.1_Missense_Mutation_p.N153K|CNTN4_uc003bpd.1_Missense_Mutation_p.N481K|CNTN4_uc003bpe.2_Missense_Mutation_p.N153K|CNTN4_uc003bpf.2_Missense_Mutation_p.N153K	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	481	Ig-like C2-type 5.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		TAGCCACTAACCATTTTGGAA	0.363													23	35					2.27731e-05	2.49535e-05	0.001882	1	0		A	3030113	A	A	3030113	3	1	172	1	0	0	0	0	1	0	0	0	3646	506	18	5	1485	5	CNTN4	3	3030113	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	2598963	3030113	194992317	53	90006											
ZNF167	55888	broad.mit.edu	37	chr3	44607107	44607107	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagcccacctggagcctccTtatgacccagggacacacca	10	5	10	16	0	0	1	0	1	0	0	1	4	1	4	6	3	2	0	6	3	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:44607107T>A	uc010hin.2	+	3	940	c.552T>A	c.(550-552)CCT>CCA	p.P184P	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Silent_p.P184P|ZNF167_uc010hio.2_Silent_p.P34P|ZNF167_uc003cnj.2_Silent_p.P184P|ZNF167_uc003cnk.2_Silent_p.P184P	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	184					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		TGGAGCCTCCTTATGACCCAG	0.577													19	75					0	0	0.007413	0	0		A	44607107	A	A	44607107	2	1	172	1	0	0	0	0	0	0	0	1	17766	1596	56	5		5	ZNF167	3	44607107	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	41576994	44607107	153415323	54	90007											
VGLL3	389136	broad.mit.edu	37	chr3	87027822	87027822	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagtgaaaaggacacagcgaGagttaaggtactccatctcg	15	7	11	8	2	1	2	0	1	1	1	3	4	2	3	1	2	2	2	1	2	5	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:87027822G>C	uc003dqn.2	-	2	621	c.257C>G	c.(256-258)TCT>TGT	p.S86C		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		GACACAGCGAGAGTTAAGGTA	0.413													8	46					0	0	0.00308	0	0		C	87027822	C	C	87027822	3	2	172	1	0	0	0	0	1	0	0	0	17186	942	33	5	735	5	VGLL3	3	87027822	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	42420715	87027822	110994608	55	90008											
SIDT1	54847	broad.mit.edu	37	chr3	113338548	113338548	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	atagaatggtgttgctggttGtggggaatctggttaactgg	8	14	16	3	0	1	1	0	0	1	1	1	2	1	2	0	6	2	4	0	6	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:113338548G>C	uc003eak.2	+	21	2716	c.2065G>C	c.(2065-2067)GTG>CTG	p.V689L	SIDT1_uc011big.1_Missense_Mutation_p.V442L|SIDT1_uc011bii.1_Missense_Mutation_p.V142L	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	689	Helical; (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						GTTGCTGGTTGTGGGGAATCT	0.383													4	242					0	0	0.001168	0	0		C	113338548	C	C	113338548	3	2	172	1	0	0	0	0	1	0	0	0	14327	1377	48	5	2147	5	SIDT1	3	113338548	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	26310726	113338548	84683882	56	90009											
B4GALT4	8702	broad.mit.edu	37	chr3	118931416	118931416	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcatgcaccaaaccagaaatCcactgtgatgttgatatata	15	11	6	9	0	1	3	1	2	0	1	2	3	2	3	3	0	2	2	3	0	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:118931416C>G	uc003ecg.2	-	8	1656	c.1015G>C	c.(1015-1017)GAT>CAT	p.D339H	B4GALT4_uc003ece.1_3'UTR|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.D339H|B4GALT4_uc003eci.2_Missense_Mutation_p.D339H	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	339	Lumenal (Potential).				membrane lipid metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding|N-acetyllactosamine synthase activity				0				GBM - Glioblastoma multiforme(114;0.222)	N-Acetyl-D-glucosamine(DB00141)	AACCAGAAATCCACTGTGATG	0.388													6	30					0	0	0.001984	0	0		G	118931416	G	G	118931416	3	3	172	1	0	0	0	0	1	0	0	0	1274	855	30	5	23	5	B4GALT4	3	118931416	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	5592868	118931416	79091014	57	90010											
EAF2	55840	broad.mit.edu	37	chr3	121554150	121554150	+	Silent	SNP	A	C	C	1	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	attatgaatagcgcagcgggAttctcacacctagaccgtcg	11	9	10	11	4	1	2	1	1	1	1	3	3	1	3	2	1	2	1	2	1	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:121554150A>C	uc003een.2	+	1	117	c.18A>C	c.(16-18)GGA>GGC	p.G6G	IQCB1_uc010hre.1_5'Flank|IQCB1_uc003eek.2_5'Flank|IQCB1_uc010hrf.1_5'Flank|EAF2_uc003eem.2_RNA|EAF2_uc003eeo.2_5'UTR	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	6					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		GCGCAGCGGGATTCTCACACC	0.567													7	25					0	0	0.00308	0	0		C	121554150	C	C	121554150	2	2	172	1	0	0	0	0	0	0	0	1	4882	320	12	5		5	EAF2	3	121554150	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2622734	121554150	76468280	58	90011											
STAG1	10274	broad.mit.edu	37	chr3	136141289	136141290	+	Missense_Mutation	DNP	TC	CA	CA																															ccacagaatgattgaatcgaTctacaaactcatcaatcagc																										TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:136141289_136141290TC>CA	uc003era.1	-	19	2291_2292	c.1999_2000GA>TG	c.(1999-2001)GAT>TGT	p.D667C	STAG1_uc003erb.1_Missense_Mutation_p.D667C|STAG1_uc003erc.1_Missense_Mutation_p.D441C|STAG1_uc010hua.1_Missense_Mutation_p.D530C	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	667					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						ATTGAATCGATCTACAAACTCA	0.361													11	49					0	0	0.004672	0	0		CA	136141290	CA	CA	136141289	3	2	172	1	0	0	0	0	1	0	0	0	15267	1435	50	3	1840	3	STAG1	3	136141289	Missense_Mutation	DNP	TC	TCGA-D7-6526-01A-11D-1800-08	14587139	136141289	61881141	59	90012											
SI	6476	broad.mit.edu	37	chr3	164735642	164735642	+	Silent	SNP	A	C	C	1	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	gtacggtaagttagagcaggAgttggctggaatgtaacatc	12	10	14	5	1	0	1	0	0	0	1	1	3	0	3	0	4	3	7	0	4	5	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:164735642A>C	uc003fei.2	-	30	3602	c.3540T>G	c.(3538-3540)ACT>ACG	p.T1180T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1180	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTAGAGCAGGAGTTGGCTGGA	0.358										HNSCC(35;0.089)			5	16					0	0	0.000602	0	0		C	164735642	C	C	164735642	2	2	172	1	0	0	0	0	0	0	0	1	14322	291	11	5		5	SI	3	164735642	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	28594353	164735642	33286788	60	90013											
SI	6476	broad.mit.edu	37	chr3	164764774	164764774	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtaagaatgaagcttctcTtattaggaaaaactttttgt	13	15	9	4	0	1	2	0	1	1	1	2	3	1	3	0	2	2	2	0	2	7	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:164764774T>G	uc003fei.2	-	16	1804	c.1742A>C	c.(1741-1743)AAG>ACG	p.K581T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	581	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	GAAGCTTCTCTTATTAGGAAA	0.313										HNSCC(35;0.089)			6	14					0	0	0.001168	0	0		G	164764774	G	G	164764774	3	3	172	1	0	0	0	0	1	0	0	0	14322	1609	56	5	3873	5	SI	3	164764774	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	29132	164764774	33257656	61	90014											
ZBBX	79740	broad.mit.edu	37	chr3	166960393	166960393	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggctgctgaaatctgggaActcttctgaggttaagctgt	8	14	12	7	0	3	2	0	2	3	0	3	3	3	3	0	3	3	4	0	3	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:166960393A>C	uc003fep.2	-	20	2499	c.2176T>G	c.(2176-2178)TTC>GTC	p.F726V	ZBBX_uc011bpc.1_Missense_Mutation_p.F765V|ZBBX_uc003feq.2_Missense_Mutation_p.F697V	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	726						intracellular	zinc ion binding			ovary(2)	2						AAATCTGGGAACTCTTCTGAG	0.363													9	32					0	0	0.004482	0	0		C	166960393	C	C	166960393	3	2	172	1	0	0	0	0	1	0	0	0	17542	43	2	5	234	5	ZBBX	3	166960393	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2195619	166960393	31062037	62	90015											
SERPINI2	5276	broad.mit.edu	37	chr3	167159899	167159899	+	Nonstop_Mutation	SNP	A	G	G	1	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	tgaggctgtgcttttcattcAcagtgaatctaaatctcttc	9	16	7	9	0	4	2	2	2	2	0	6	2	4	2	0	1	1	2	0	1	3	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr3:167159899A>G	uc003fer.1	-	8	1274	c.1216T>C	c.(1216-1218)TGA>CGA	p.*406R	SERPINI2_uc003fes.1_Nonstop_Mutation_p.*416R|SERPINI2_uc003fet.1_Nonstop_Mutation_p.*406R	NM_006217	NP_006208	O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin),	406					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			skin(2)|urinary_tract(1)	3						CTTTTCATTCACAGTGAATCT	0.323													3	23					0	0	0.004672	0	0		G	167159899	G	G	167159899	4	3	172	1	0	0	0	0	0	0	0	0	14144	172	6	3	5	3	SERPINI2	3	167159899	Nonstop_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	199506	167159899	30862531	63	90016											
GRK4	2868	broad.mit.edu	37	chr4	3015511	3015511	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaaaggtgaagctatggctCtaaatgagaaaagaattctg	16	9	12	4	0	2	3	0	2	2	2	2	5	2	4	0	3	1	2	0	3	8	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:3015511C>T	uc003ggn.1	+	8	1152	c.697C>T	c.(697-699)CTA>TTA	p.L233L	GRK4_uc003ggo.1_Silent_p.L233L|GRK4_uc003ggp.1_Silent_p.L201L|GRK4_uc003ggq.1_Silent_p.L201L	NM_182982	NP_892027	P32298	GRK4_HUMAN	G protein-coupled receptor kinase 4 isoform	233	Protein kinase.					cell cortex	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AGCTATGGCTCTAAATGAGAA	0.393													10	70					0	0	0.006214	0	0		T	3015511	T	T	3015511	2	4	172	1	0	0	0	0	0	0	0	1	6807	912	32	4		4	GRK4	4	3015511	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08		3015511	188138765	64	90017											
TLR10	81793	broad.mit.edu	37	chr4	38774898	38774898	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attaacattaatagcagctcGaaggtttgcccagaaaagcc	15	9	8	9	1	0	1	0	0	0	1	1	2	0	1	2	1	5	3	2	1	6	4	rs145139818	byFrequency	TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:38774898G>A	uc003gti.2	-	2	2693	c.2314C>T	c.(2314-2316)CGA>TGA	p.R772*	TLR10_uc003gtj.2_Nonsense_Mutation_p.R772*|TLR10_uc003gtk.2_Nonsense_Mutation_p.R772*	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	772	TIR.|Cytoplasmic (Potential).				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						ATAGCAGCTCGAAGGTTTGCC	0.418													10	53					0	0	0.008291	0	0		A	38774898	A	A	38774898	4	1	172	1	0	0	0	0	0	1	0	0	15975	1066	37	1	125	1	TLR10	4	38774898	Nonsense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	35759387	38774898	152379378	65	90018											
ATP8A1	10396	broad.mit.edu	37	chr4	42524204	42524204	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaactcataactctcttcGagtttgagtagcctgttctg	9	15	7	10	1	4	1	2	1	2	0	6	2	4	1	1	0	3	3	1	0	3	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:42524204G>A	uc003gwr.2	-	22	2152	c.1920C>T	c.(1918-1920)CTC>CTT	p.L640L	ATP8A1_uc003gws.2_Silent_p.L625L	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	640	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	AACTCTCTTCGAGTTTGAGTA	0.428													18	20					0	0	0.00499	0	0		A	42524204	A	A	42524204	2	1	172	1	0	0	0	0	0	0	0	1	1193	1045	37	1		1	ATP8A1	4	42524204	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	3749306	42524204	148630072	66	90019											
FRYL	285527	broad.mit.edu	37	chr4	48611786	48611786	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttatgtttaaagtgcttaaAagctaagtttagaacttcat	14	16	6	5	0	1	1	1	0	0	1	1	1	1	1	0	0	3	4	0	0	8	8			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:48611786A>T	uc003gyh.1	-	8	1071	c.466T>A	c.(466-468)TTT>ATT	p.F156I	FRYL_uc003gyk.2_Missense_Mutation_p.F156I	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	156					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AAGTGCTTAAAAGCTAAGTTT	0.313													5	11					0	0	0.001984	0	0		T	48611786	T	T	48611786	3	4	172	1	0	0	0	0	1	0	0	0	6078	14	1	5	8803	5	FRYL	4	48611786	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	6087582	48611786	142542490	67	90020											
LNX1	84708	broad.mit.edu	37	chr4	54364820	54364820	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gtctctacctttagaatgatGtctcctggcagtagccggcc	7	12	10	12	1	2	2	0	1	2	1	4	2	2	2	4	2	2	2	4	2	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:54364820G>T	uc003hag.3	-	5	1222	c.966C>A	c.(964-966)GAC>GAA	p.D322E	PDGFRA_uc003haa.2_Intron|LNX1_uc003haf.3_Missense_Mutation_p.D226E|LNX1_uc003hah.3_Intron	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	322	PDZ 1.					cytoplasm	zinc ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(26;0.153)		GBM - Glioblastoma multiforme(3;8.2e-46)|LUSC - Lung squamous cell carcinoma(32;0.0134)			TTAGAATGATGTCTCCTGGCA	0.493													9	39					1.58986e-06	1.77353e-06	0.008291	1	0		T	54364820	T	T	54364820	3	4	172	1	0	0	0	0	1	0	0	0	8882	1368	48	5	1248	5	LNX1	4	54364820	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	5753034	54364820	136789456	68	90021											
TECRL	253017	broad.mit.edu	37	chr4	65275058	65275058	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tccgaagcgagggacttgtgCcttttgaacattgtgtgaac	9	12	12	8	2	0	2	0	2	0	0	1	5	1	3	2	1	4	0	2	1	3	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:65275058C>A	uc003hcv.2	-	1	121	c.12G>T	c.(10-12)AGG>AGT	p.R4S	TECRL_uc003hcw.2_Missense_Mutation_p.R4S	NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	4					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						GGGACTTGTGCCTTTTGAACA	0.408													10	44					2.80697e-09	3.20057e-09	0.000978	1	0		A	65275058	A	A	65275058	3	1	172	1	0	0	0	0	1	0	0	0	15771	738	26	5	1127	5	TECRL	4	65275058	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	10910238	65275058	125879218	69	90022											
EPHA5	2044	broad.mit.edu	37	chr4	66286191	66286191	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttgatttcatactctaggaTgattccattgggacgatctg	9	15	9	8	1	3	2	1	2	2	0	4	5	4	4	1	2	1	0	1	2	2	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:66286191T>C	uc003hcy.2	-	6	1688	c.1495A>G	c.(1495-1497)ATC>GTC	p.I499V	EPHA5_uc003hcx.2_Missense_Mutation_p.I430V|EPHA5_uc003hcz.2_Missense_Mutation_p.I499V|EPHA5_uc011cah.1_Missense_Mutation_p.I499V|EPHA5_uc011cai.1_Missense_Mutation_p.I499V|EPHA5_uc003hda.2_Missense_Mutation_p.I499V	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	499	Extracellular (Potential).|Fibronectin type-III 2.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TACTCTAGGATGATTCCATTG	0.343										TSP Lung(17;0.13)			27	42					0	0	0.008361	0	0		C	66286191	C	C	66286191	3	2	172	1	0	0	0	0	1	0	0	0	5178	1464	51	3	1670	3	EPHA5	4	66286191	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	1011133	66286191	124868085	70	90023											
TMPRSS11B	132724	broad.mit.edu	37	chr4	69094501	69094501	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacataaatccagcacataAcattgtatcagtcacaaagc	17	9	5	10	0	2	1	2	1	0	0	3	1	3	1	1	0	3	2	1	0	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:69094501A>G	uc003hdw.3	-	9	1184	c.1048T>C	c.(1048-1050)TTA>CTA	p.L350L		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	350	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CCAGCACATAACATTGTATCA	0.348													8	40					0	0	0.000978	0	0		G	69094501	G	G	69094501	2	3	172	1	0	0	0	0	0	0	0	1	16265	40	2	3		3	TMPRSS11B	4	69094501	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2808310	69094501	122059775	71	90024											
LIN54	132660	broad.mit.edu	37	chr4	83852254	83852254	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgggctttcttcaaaattCttacagccaatacatttgca	11	14	5	11	1	3	0	1	0	2	0	4	0	4	0	2	1	4	2	2	1	5	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:83852254C>A	uc003hnx.3	-	12	2268	c.1890G>T	c.(1888-1890)AAG>AAT	p.K630N	LIN54_uc003hnz.3_Missense_Mutation_p.K409N|LIN54_uc003hny.3_Missense_Mutation_p.K229N|LIN54_uc010ijt.2_Missense_Mutation_p.K541N|LIN54_uc010iju.2_Missense_Mutation_p.K229N|LIN54_uc010ijv.2_Missense_Mutation_p.K409N	NM_194282	NP_919258	Q6MZP7	LIN54_HUMAN	lin-54 homolog isoform a	630	CXC 2.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)				CTTCAAAATTCTTACAGCCAA	0.353													10	50					9.70103e-10	1.11023e-09	0.008291	1	0		A	83852254	A	A	83852254	3	1	172	1	0	0	0	0	1	0	0	0	8826	912	32	5	367	5	LIN54	4	83852254	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	14757753	83852254	107302022	72	90025											
NDST4	64579	broad.mit.edu	37	chr4	115891689	115891689	+	Missense_Mutation	SNP	T	A	A	0	1	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	tgtgaggaaaccaccagaacTcatccacagaccgaagtaaa	17	5	8	11	1	1	3	1	1	0	2	2	5	2	4	4	1	2	1	4	1	5	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:115891689T>A	uc003ibu.2	-	4	1797	c.1118A>T	c.(1117-1119)GAG>GTG	p.E373V	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	373	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CCACCAGAACTCATCCACAGA	0.403													7	24					0	0	0.004482	0	0		A	115891689	A	A	115891689	3	1	172	1	0	0	0	0	1	0	0	0	10277	1551	54	5	1544	5	NDST4	4	115891689	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	32039435	115891689	75262587	73	90026											
BBS7	55212	broad.mit.edu	37	chr4	122754433	122754433	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaaggtgttctgaaagtaAaatgtcacacattctcctgc	14	11	8	8	0	3	2	1	1	2	1	4	2	3	2	1	1	1	2	1	1	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:122754433A>C	uc003ied.2	-	15	1803	c.1629T>G	c.(1627-1629)TTT>TTG	p.F543L	BBS7_uc003iee.1_Missense_Mutation_p.F543L	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	543					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						TCTGAAAGTAAAATGTCACAC	0.388									Bardet-Biedl_syndrome				5	29					0	0	0.001168	0	0		C	122754433	C	C	122754433	3	2	172	1	0	0	0	0	1	0	0	0	1342	11	1	5	543	5	BBS7	4	122754433	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	6862744	122754433	68399843	74	90027											
GLRB	2743	broad.mit.edu	37	chr4	158060078	158060078	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatattgaatatggtaactGtacaaaatactataaaggca	19	11	7	4	0	0	2	0	1	0	1	0	2	0	2	0	2	3	3	0	2	11	8			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:158060078G>C	uc003ipj.2	+	7	930	c.728G>C	c.(727-729)TGT>TCT	p.C243S		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	243	Extracellular (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	TATGGTAACTGTACAAAATAC	0.313													6	47					0	0	0.001168	0	0		C	158060078	C	C	158060078	3	2	172	1	0	0	0	0	1	0	0	0	6473	1377	48	5	750	5	GLRB	4	158060078	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	35305645	158060078	33094198	75	90028											
GRIA2	2891	broad.mit.edu	37	chr4	158257859	158257859	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaatagtctctggttttccTtgggtgcctttatgcagcaa	7	17	9	8	0	1	0	0	0	1	0	3	0	2	0	2	2	3	3	2	2	4	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr4:158257859T>G	uc003ipm.3	+	11	2263	c.1804T>G	c.(1804-1806)TTG>GTG	p.L602V	GRIA2_uc011cit.1_Missense_Mutation_p.L555V|GRIA2_uc003ipl.3_Missense_Mutation_p.L602V|GRIA2_uc003ipk.3_Missense_Mutation_p.L555V|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	602	Cytoplasmic (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	CTGGTTTTCCTTGGGTGCCTT	0.433													31	44					0	0	0.002096	0	0		G	158257859	G	G	158257859	3	3	172	1	0	0	0	0	1	0	0	0	6784	1606	56	5	1846	5	GRIA2	4	158257859	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	197781	158257859	32896417	76	90029											
TRIO	7204	broad.mit.edu	37	chr5	14291233	14291233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtccaccatgctggacCggctgcactcgacacggcag	8	6	13	14	3	0	0	0	0	0	0	2	2	1	1	3	4	2	4	3	4	0	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:14291233C>T	uc003jff.2	+	5	955	c.949C>T	c.(949-951)CGG>TGG	p.R317W	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.R268W|TRIO_uc003jfh.1_5'Flank	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	317	Spectrin 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					CATGCTGGACCGGCTGCACTC	0.552													12	70					0	0	0.00245	0	0		T	14291233	T	T	14291233	3	4	172	1	0	0	0	0	1	0	0	0	16578	643	23	1	967	1	TRIO	5	14291233	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08		14291233	166624027	77	90030											
PDZD2	23037	broad.mit.edu	37	chr5	31983689	31983689	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagacagatgctcctctgaCcacaagcaatgacaaacgcc	16	5	7	13	1	1	4	0	2	1	2	2	4	2	4	3	0	3	2	3	0	4	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:31983689C>A	uc003jhl.2	+	3	1293	c.905C>A	c.(904-906)ACC>AAC	p.T302N	PDZD2_uc003jhm.2_Missense_Mutation_p.T302N|PDZD2_uc011cnx.1_Missense_Mutation_p.T128N	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	302					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GCTCCTCTGACCACAAGCAAT	0.517													16	104					6.72482e-11	7.75362e-11	0.003163	1	0		A	31983689	A	A	31983689	3	1	172	1	0	0	0	0	1	0	0	0	11720	507	18	5	911	5	PDZD2	5	31983689	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	17692456	31983689	148931571	78	90031											
SPEF2	79925	broad.mit.edu	37	chr5	35646909	35646909	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaagaaaaaagaggcagaAgtaagtgataatcctttaat	22	8	8	3	0	0	4	0	1	0	3	1	4	1	4	1	1	0	2	1	1	9	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:35646909A>C	uc003jjo.2	+	5	837	c.726A>C	c.(724-726)GAA>GAC	p.E242D	SPEF2_uc003jjn.1_Missense_Mutation_p.E242D|SPEF2_uc003jjq.3_Missense_Mutation_p.E242D	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	242	Potential.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAGAGGCAGAAGTAAGTGATA	0.343													21	40					0	0	0.008871	0	0		C	35646909	C	C	35646909	3	2	172	1	0	0	0	0	1	0	0	0	15060	86	3	5	744	5	SPEF2	5	35646909	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	3663220	35646909	145268351	79	90032											
C5orf33	133686	broad.mit.edu	37	chr5	36197731	36197731	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagtatttttggttcttccgGactgtagagcagtgattcat	9	16	10	6	1	2	2	1	1	1	1	3	3	3	3	1	2	1	4	1	2	3	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:36197731G>T	uc003jkf.3	-	11	1102	c.1102C>A	c.(1102-1104)CCG>ACG	p.P368T	C5orf33_uc003jke.3_RNA|C5orf33_uc010iux.2_Missense_Mutation_p.P173T|C5orf33_uc003jkg.3_Missense_Mutation_p.P205T|C5orf33_uc011cov.1_Missense_Mutation_p.P227T	NM_001085411	NP_001078880	Q4G0N4	NAKD1_HUMAN	hypothetical protein LOC133686 isoform 1	368							NAD+ kinase activity				0	all_lung(31;5.63e-05)		Epithelial(62;0.0254)|all cancers(62;0.0805)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGTTCTTCCGGACTGTAGAGC	0.358													6	28					3.59834e-05	3.91509e-05	0.001168	1	0		T	36197731	T	T	36197731	3	4	172	1	0	0	0	0	1	0	0	0	2295	1174	41	5	234	5	C5orf33	5	36197731	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	550822	36197731	144717529	80	90033											
EGFLAM	133584	broad.mit.edu	37	chr5	38448449	38448449	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtttatcggccgcagttaCctgacgtatgacaacccaga	11	9	9	12	3	0	3	0	2	0	1	1	3	0	3	3	1	2	4	3	1	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:38448449C>A	uc003jlc.1	+	19	2859	c.2535C>A	c.(2533-2535)TAC>TAA	p.Y845*	EGFLAM_uc003jlb.1_Nonsense_Mutation_p.Y837*|EGFLAM_uc003jle.1_Nonsense_Mutation_p.Y603*|EGFLAM_uc003jlf.1_Nonsense_Mutation_p.Y203*|EGFLAM_uc003jlg.1_5'UTR	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	845	Laminin G-like 3.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GCCGCAGTTACCTGACGTATG	0.463													26	178					5.45727e-16	6.41177e-16	0.008361	1	0		A	38448449	A	A	38448449	4	1	172	1	0	0	0	0	0	1	0	0	4972	518	18	5	2595	5	EGFLAM	5	38448449	Nonsense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	2250718	38448449	142466811	81	90034											
FYB	2533	broad.mit.edu	37	chr5	39201957	39201957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggttttgtggaatttcGtcaggtcaacatttggtggt	9	15	13	4	1	2	1	2	0	0	1	3	2	2	2	0	5	1	1	0	5	3	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:39201957G>A	uc003jls.2	-	1	1173	c.1106C>T	c.(1105-1107)ACG>ATG	p.T369M	FYB_uc003jlt.2_Missense_Mutation_p.T369M|FYB_uc003jlu.2_Missense_Mutation_p.T369M|FYB_uc011cpl.1_Missense_Mutation_p.T379M	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	369	Interaction with SKAP1.				cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			GTGGAATTTCGTCAGGTCAAC	0.458													7	38					0	0	0.001984	0	0		A	39201957	A	A	39201957	3	1	172	1	0	0	0	0	1	0	0	0	6138	1145	40	1	1455	1	FYB	5	39201957	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	753508	39201957	141713303	82	90035											
ENC1	8507	broad.mit.edu	37	chr5	73930697	73930697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctccaaccacgtagagtttGtttccagaggccacagcatg	10	9	9	13	1	0	2	0	0	0	2	2	2	2	2	5	1	2	4	5	1	2	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:73930697G>T	uc003kdc.3	-	2	2745	c.1614C>A	c.(1612-1614)AAC>AAA	p.N538K	ENC1_uc011css.1_Missense_Mutation_p.N465K	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	538	Kelch 5.			YTAAAVLGNQIFIMGGDTEFSACSAYKFNSETYQWTKVGDV TAKRMSCHAVASGNKLYVVGGYFGIQRCKTLDCYDPTLDVW NSITTVPYSLIPTAFVSTWKHLPS -> IHSQASCPGGTQD FLLWGVIQNFSACFCL (in Ref. 1; AAC39532).	nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		CGTAGAGTTTGTTTCCAGAGG	0.498													11	33					0.00136819	0.00144291	0.001368	1	0		T	73930697	T	T	73930697	3	4	172	1	0	0	0	0	1	0	0	0	5121	1368	48	5	159	5	ENC1	5	73930697	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	34728740	73930697	106984563	83	90036											
IQGAP2	10788	broad.mit.edu	37	chr5	75932871	75932871	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctttagtgtctagtgacgGttcatggctcaaactcaacc	9	14	8	10	1	5	1	3	1	2	0	5	1	5	1	1	2	2	2	1	2	4	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:75932871G>C	uc003kek.2	+	16	2015	c.1793G>C	c.(1792-1794)GGT>GCT	p.G598A	IQGAP2_uc010izv.2_Missense_Mutation_p.G151A|IQGAP2_uc011csv.1_Missense_Mutation_p.G151A|IQGAP2_uc003kel.2_Missense_Mutation_p.G151A	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	598	WW.				small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)		TCTAGTGACGGTTCATGGCTC	0.328													10	24					0	0	0.006214	0	0		C	75932871	C	C	75932871	3	2	172	1	0	0	0	0	1	0	0	0	7831	1261	44	5	1855	5	IQGAP2	5	75932871	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	2002174	75932871	104982389	84	90037											
KIF3A	11127	broad.mit.edu	37	chr5	132056402	132056402	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcccacatcaggtctttctTtaacctaaaaaaaaattaag	16	12	3	10	0	3	0	1	0	2	0	4	0	4	0	2	1	1	0	2	1	7	5	rs17854353		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:132056402T>C	uc003kxo.2	-	5	669	c.515A>G	c.(514-516)AAA>AGA	p.K172R	KIF3A_uc003kxn.2_Missense_Mutation_p.K131R|KIF3A_uc011cxf.1_Missense_Mutation_p.K172R|KIF3A_uc003kxp.2_Missense_Mutation_p.K172R	NM_007054	NP_008985	Q9Y496	KIF3A_HUMAN	kinesin family member 3A	172	Kinesin-motor.				blood coagulation|organelle organization|plus-end-directed vesicle transport along microtubule	centrosome|cytosol|kinesin II complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|protein binding			pancreas(1)	1		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGGTCTTTCTTTAACCTAAAA	0.209													2	11					0	0	0.004672	0	0		C	132056402	C	C	132056402	3	2	172	1	0	0	0	0	1	0	0	0	8316	1841	64	3	1636	3	KIF3A	5	132056402	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	56123531	132056402	48858858	85	90038											
FBXL21	26223	broad.mit.edu	37	chr5	135276293	135276293	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagattcttgtggccaataAtagtgacactctaagactcc	13	11	8	9	0	2	3	0	1	2	2	3	4	3	3	2	1	0	0	2	1	5	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:135276293A>G	uc010jec.1	+	4	626	c.605A>G	c.(604-606)AAT>AGT	p.N202S	FBXL21_uc003lbc.2_RNA	NM_012159	NP_036291	Q9UKT6	FXL21_HUMAN	F-box and leucine-rich repeat protein 21	202	LRR 2.				rhythmic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			lung(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTGGCCAATAATAGTGACACT	0.328													8	27					0	0	0.004482	0	0		G	135276293	G	G	135276293	3	3	172	1	0	0	0	0	1	0	0	0	5732	101	4	3	615	3	FBXL21	5	135276293	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	3219891	135276293	45638967	86	90039											
ETF1	2107	broad.mit.edu	37	chr5	137854434	137854434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgtaatggctcccaggactGaaaggcggtttactcgtgac	10	10	12	9	2	0	2	0	2	0	0	2	3	1	3	1	4	1	3	1	4	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:137854434G>A	uc003ldc.3	-	3	374	c.209C>T	c.(208-210)TCA>TTA	p.S70L	ETF1_uc011cyv.1_Missense_Mutation_p.S56L|ETF1_uc010jex.2_RNA|ETF1_uc003ldd.3_Missense_Mutation_p.S37L|ETF1_uc010jey.1_5'Flank	NM_004730	NP_004721	P62495	ERF1_HUMAN	eukaryotic translation termination factor 1	70					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation|regulation of translational termination	cytoplasm	protein binding|ribosome binding|translation release factor activity, codon specific			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TCCCAGGACTGAAAGGCGGTT	0.403													13	79					0	0	0.003163	0	0		A	137854434	A	A	137854434	3	1	172	1	0	0	0	0	1	0	0	0	5276	1294	45	4	1140	4	ETF1	5	137854434	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	2578141	137854434	43060826	87	90040											
DND1	373863	broad.mit.edu	37	chr5	140051080	140051080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccacctggtaccagaagCggtgccagccagcaggtcct	9	6	11	15	1	1	1	1	0	0	1	2	1	2	1	6	3	5	2	6	3	2	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:140051080C>T	uc003lgt.2	-	4	904	c.860G>A	c.(859-861)CGC>CAC	p.R287H		NM_194249	NP_919225	Q8IYX4	DND1_HUMAN	dead end homolog 1	287					multicellular organismal development|negative regulation of gene silencing by miRNA	cytoplasm|nucleus	AU-rich element binding|nucleotide binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTACCAGAAGCGGTGCCAGCC	0.627													6	11					0	0	0.001168	0	0		T	140051080	T	T	140051080	3	4	172	1	0	0	0	0	1	0	0	0	4672	768	27	1	205	1	DND1	5	140051080	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	2196646	140051080	40864180	88	90041											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769109	140769109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcgtgttagtggacgaccGcaacgacaatgcgccacggg	9	5	15	12	7	0	0	0	0	0	0	0	3	0	1	2	2	2	2	2	2	3	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:140769109G>A	uc003lkc.1	+	1	1658	c.1658G>A	c.(1657-1659)CGC>CAC	p.R553H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.R553H	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	553	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGACGACCGCAACGACAAT	0.677													5	30					0	0	0.000602	0	0		A	140769109	A	A	140769109	3	1	172	1	0	0	0	0	1	0	0	0	11584	1087	38	1	1660	1	PCDHGB4	5	140769109	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	718029	140769109	40146151	89	90042											
GLRA1	2741	broad.mit.edu	37	chr5	151234726	151234726	+	Missense_Mutation	SNP	A	G	G	1	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	actcaaagatgaggtcattcAtcgtatatccaactgggatg	13	11	9	8	1	3	2	3	1	0	1	5	3	4	3	1	2	1	1	1	2	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:151234726A>G	uc003lut.2	-	6	859	c.572T>C	c.(571-573)ATG>ACG	p.M191T	GLRA1_uc003lur.2_Missense_Mutation_p.M191T|GLRA1_uc003lus.2_Missense_Mutation_p.M108T	NM_001146040	NP_001139512	P23415	GLRA1_HUMAN	glycine receptor, alpha 1 isoform 1 precursor	191	Extracellular (Probable).				muscle contraction|negative regulation of transmission of nerve impulse|neuropeptide signaling pathway|positive regulation of acrosome reaction|regulation of membrane potential|startle response	cell junction|chloride channel complex|integral to plasma membrane|intracellular membrane-bounded organelle|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|protein binding|receptor activity|taurine binding|transmitter-gated ion channel activity			ovary(1)|central_nervous_system(1)	2		all_hematologic(541;0.0341)|Medulloblastoma(196;0.0912)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)		Desflurane(DB01189)|Enflurane(DB00228)|Ethanol(DB00898)|Glycine(DB00145)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GAGGTCATTCATCGTATATCC	0.483													13	74					0	0	0.001855	0	0		G	151234726	G	G	151234726	3	3	172	1	0	0	0	0	1	0	0	0	6469	217	8	3	817	3	GLRA1	5	151234726	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	10465617	151234726	29680534	90	90043											
FAM71B	153745	broad.mit.edu	37	chr5	156590152	156590152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtaatactgcctgcaaacGccgcactcaagctgctgtct	9	10	8	14	3	2	0	1	0	1	0	3	0	2	0	2	0	6	5	2	0	4	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:156590152G>A	uc003lwn.2	-	2	1224	c.1124C>T	c.(1123-1125)GCG>GTG	p.A375V		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	375						nucleus				ovary(4)|pancreas(1)|skin(1)	6	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)			GCCTGCAAACGCCGCACTCAA	0.582													9	33					0	0	0.006214	0	0		A	156590152	A	A	156590152	3	1	172	1	0	0	0	0	1	0	0	0	5622	1087	38	1	697	1	FAM71B	5	156590152	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	5355426	156590152	24325108	91	90044											
ITK	3702	broad.mit.edu	37	chr5	156635914	156635914	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccacagaagaagcgcacgctGaaggggtccattgagctctc	11	6	12	12	2	1	4	0	2	1	2	3	4	2	4	2	2	2	3	2	2	3	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr5:156635914G>A	uc003lwo.1	+	2	235	c.153G>A	c.(151-153)CTG>CTA	p.L51L		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	51	PH.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.L51Q(1)		lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AGCGCACGCTGAAGGGGTCCA	0.428			T	SYK	peripheral T-cell lymphoma								5	20					0	0	0.000602	0	0		A	156635914	A	A	156635914	2	1	172	1	0	0	0	0	0	0	0	1	7925	1277	45	4		4	ITK	5	156635914	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	45762	156635914	24279346	92	90045											
OR2B2	81697	broad.mit.edu	37	chr6	27879098	27879098	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataggacaacttgcggagaAgttagtaaggtaagtaagca	17	8	12	4	1	0	1	0	0	0	1	0	3	0	2	0	3	3	5	0	3	8	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:27879098A>C	uc011dkw.1	-	1	1000	c.1000T>G	c.(1000-1002)TTC>GTC	p.F334V		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	334	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTGCGGAGAAGTTAGTAAGG	0.318													22	45					0	0	0.00278	0	0		C	27879098	C	C	27879098	3	2	172	1	0	0	0	0	1	0	0	0	11008	72	3	5	77	5	OR2B2	6	27879098	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08		27879098	143235969	93	90046											
MDC1	9656	broad.mit.edu	37	chr6	30680770	30680770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgagccctttccaaatGgacctcagctggccttccag	8	9	10	14	0	1	1	1	1	0	0	3	2	3	2	5	3	2	2	5	3	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:30680770G>A	uc003nrg.3	-	5	1389	c.949C>T	c.(949-951)CAT>TAT	p.H317Y	MDC1_uc003nrf.3_5'UTR|MDC1_uc011dmp.1_Missense_Mutation_p.H189Y|MDC1_uc003nrh.1_Missense_Mutation_p.H189Y|MDC1_uc003nri.2_Missense_Mutation_p.H317Y	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	317	Required for nuclear localization (NLS1).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CTTTCCAAATGGACCTCAGCT	0.547								Other_conserved_DNA_damage_response_genes					12	97					0	0	0.001368	0	0		A	30680770	A	A	30680770	3	1	172	1	0	0	0	0	1	0	0	0	9421	1348	47	4	5364	4	MDC1	6	30680770	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	2801672	30680770	140434297	94	90047											
USP49	25862	broad.mit.edu	37	chr6	41774582	41774582	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtggtcctcaatatagcggCcgcaggccacgtgggagcac	8	6	14	13	4	1	0	1	0	0	0	2	1	2	1	3	4	2	2	3	4	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:41774582C>A	uc003ori.2	-	4	362	c.140G>T	c.(139-141)GGC>GTC	p.G47V		NM_018561	NP_061031	Q70CQ1	UBP49_HUMAN	ubiquitin thioesterase 49	47	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0919)|Colorectal(47;0.121)		STAD - Stomach adenocarcinoma(11;0.000204)|Epithelial(12;0.000309)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			AATATAGCGGCCGCAGGCCAC	0.592													38	103					1.04594e-18	1.2383e-18	0.00623	1	0		A	41774582	A	A	41774582	3	1	172	1	0	0	0	0	1	0	0	0	17106	739	26	5	1798	5	USP49	6	41774582	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	11093812	41774582	129340485	95	90048											
KLHDC3	116138	broad.mit.edu	37	chr6	42987057	42987057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagactctgtgcaaactggcCgtgattcagtataacctaga	13	10	9	9	1	2	3	1	1	1	2	2	3	2	3	2	1	3	2	2	1	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:42987057C>T	uc003otl.2	+	10	1204	c.1035C>T	c.(1033-1035)GCC>GCT	p.A345A	C6orf153_uc003otp.1_5'Flank|KLHDC3_uc003otm.2_RNA|KLHDC3_uc010jyf.2_Silent_p.A321A|KLHDC3_uc003otn.2_Silent_p.A229A|KLHDC3_uc003oto.2_Silent_p.A286A	NM_057161	NP_476502	Q9BQ90	KLDC3_HUMAN	kelch domain containing 3	345					reciprocal meiotic recombination	cytoplasm|nuclear chromatin	chromatin binding|protein binding			upper_aerodigestive_tract(1)	1			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GCAAACTGGCCGTGATTCAGT	0.498													41	324					0	0	0.00361	0	0		T	42987057	T	T	42987057	2	4	172	1	0	0	0	0	0	0	0	1	8373	639	23	1		1	KLHDC3	6	42987057	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1212475	42987057	128128010	96	90049											
FILIP1	27145	broad.mit.edu	37	chr6	76072590	76072590	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcctccagaacctcaggcTtggttttctctgtcttcagc	6	13	9	13	0	4	1	2	0	2	1	6	2	5	1	3	2	3	2	3	2	1	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:76072590T>G	uc003pia.2	-	3	693	c.320A>C	c.(319-321)AAG>ACG	p.K107T	FILIP1_uc003phy.1_Missense_Mutation_p.K107T|FILIP1_uc003phz.2_Missense_Mutation_p.K8T|FILIP1_uc010kbe.2_Missense_Mutation_p.K110T	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	107										skin(3)|ovary(1)	4						AACCTCAGGCTTGGTTTTCTC	0.512													47	110					0	0	0.00361	0	0		G	76072590	G	G	76072590	3	3	172	1	0	0	0	0	1	0	0	0	5908	1609	56	5	3337	5	FILIP1	6	76072590	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	33085533	76072590	95042477	97	90050											
LAMA4	3910	broad.mit.edu	37	chr6	112460964	112460964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtctcttaccgggcacatgGcactgatgtggaggggtcca	7	10	14	10	1	1	1	0	1	1	0	3	2	2	2	2	5	1	2	2	5	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:112460964G>A	uc003pvu.2	-	23	3409	c.3100C>T	c.(3100-3102)CCA>TCA	p.P1034S	LAMA4_uc003pvv.2_Missense_Mutation_p.P1027S|LAMA4_uc003pvt.2_Missense_Mutation_p.P1027S	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1034	Laminin G-like 1.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		CGGGCACATGGCACTGATGTG	0.423													5	90					0	0	0.000602	0	0		A	112460964	A	A	112460964	3	1	172	1	0	0	0	0	1	0	0	0	8624	1203	42	2	2439	2	LAMA4	6	112460964	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	36388374	112460964	58654103	98	90051											
ROS1	6098	broad.mit.edu	37	chr6	117632273	117632273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaccaaggtgagtaaaggaCcataaaactgtaagaaatga	20	6	9	6	0	0	3	0	2	0	1	0	4	0	4	2	2	2	2	2	2	8	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:117632273C>T	uc003pxp.1	-	39	6342	c.6143G>A	c.(6142-6144)GGT>GAT	p.G2048D	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2048	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		GAGTAAAGGACCATAAAACTG	0.284			T	GOPC|ROS1	glioblastoma|NSCLC								10	48					0	0	0.006214	0	0		T	117632273	T	T	117632273	3	4	172	1	0	0	0	0	1	0	0	0	13556	507	18	4	920	4	ROS1	6	117632273	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	5171309	117632273	53482794	99	90052											
BCLAF1	9774	broad.mit.edu	37	chr6	136597399	136597399	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagatgcagtagcaaaacTtttaccctgatctgcgagga	12	10	11	8	1	1	2	0	2	1	1	1	5	1	3	1	1	5	3	1	1	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:136597399T>G	uc003qgx.1	-	5	1517	c.1264A>C	c.(1264-1266)AGT>CGT	p.S422R	BCLAF1_uc003qgw.1_Intron|BCLAF1_uc003qgy.1_Missense_Mutation_p.S420R|BCLAF1_uc011edc.1_Intron|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.S420R	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	422					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GTAGCAAAACTTTTACCCTGA	0.423													19	273					0	0	0.007413	0	0		G	136597399	G	G	136597399	3	3	172	1	0	0	0	0	1	0	0	0	1384	1609	56	5	1534	5	BCLAF1	6	136597399	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	18965126	136597399	34517668	100	90053											
UTRN	7402	broad.mit.edu	37	chr6	145073047	145073047	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccctctctaaagatgtctCgccagctagatgaccttaat	11	12	6	12	1	2	3	0	1	2	2	5	3	3	3	3	0	1	1	3	0	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:145073047C>T	uc003qkt.2	+	55	8406	c.8314C>T	c.(8314-8316)CGC>TGC	p.R2772C		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	2772	Spectrin 20.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AAAGATGTCTCGCCAGCTAGA	0.413													5	54					0	0	0.000602	0	0		T	145073047	T	T	145073047	3	4	172	1	0	0	0	0	1	0	0	0	17129	884	31	1	8532	1	UTRN	6	145073047	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	8475648	145073047	26042020	101	90054											
GRM1	2911	broad.mit.edu	37	chr6	146350944	146350944	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggacccggtcctcctgccCaacatcaccctgggcagtga	7	6	11	17	2	1	1	1	1	0	0	3	2	3	2	5	3	2	1	5	3	1	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:146350944C>A	uc010khw.1	+	2	761	c.291C>A	c.(289-291)CCC>CCA	p.P97P	GRM1_uc010khu.1_Silent_p.P97P|GRM1_uc010khv.1_Silent_p.P97P|GRM1_uc003qll.2_Silent_p.P97P|GRM1_uc011edz.1_Silent_p.P97P|GRM1_uc011eea.1_Silent_p.P97P	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	97	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TCCTCCTGCCCAACATCACCC	0.562													5	29					0.000602214	0.00064389	0.000602	1	0		A	146350944	A	A	146350944	2	1	172	1	0	0	0	0	0	0	0	1	6812	581	21	5		5	GRM1	6	146350944	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1277897	146350944	24764123	102	90055											
SYNE1	23345	broad.mit.edu	37	chr6	152804313	152804313	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagggccacctccgctctGtacagccaggcacctatggt	7	8	10	16	1	2	0	1	0	1	0	3	0	3	0	5	3	2	3	5	3	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:152804313G>A	uc010kiw.2	-	14	1859	c.1257C>T	c.(1255-1257)TAC>TAT	p.Y419Y	SYNE1_uc003qot.3_Silent_p.Y426Y|SYNE1_uc003qou.3_Silent_p.Y419Y|SYNE1_uc010kjb.1_Silent_p.Y402Y|SYNE1_uc003qpa.1_Silent_p.Y419Y|SYNE1_uc003qox.1_5'UTR	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	419	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CCTCCGCTCTGTACAGCCAGG	0.438										HNSCC(10;0.0054)			22	93					0	0	0.001882	0	0		A	152804313	A	A	152804313	2	1	172	1	0	0	0	0	0	0	0	1	15470	1372	48	4		4	SYNE1	6	152804313	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	6453369	152804313	18310754	103	90056											
TAGAP	117289	broad.mit.edu	37	chr6	159457507	159457507	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tttttggtcagcacttttttGtgaggggcaaaggtgaaaga	10	14	13	4	0	1	3	1	2	0	1	1	3	1	3	0	4	1	2	0	4	2	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:159457507G>T	uc003qrz.2	-	10	1880	c.1548C>A	c.(1546-1548)CAC>CAA	p.H516Q	TAGAP_uc011eft.1_Missense_Mutation_p.H453Q|TAGAP_uc003qsa.2_Missense_Mutation_p.H338Q	NM_054114	NP_473455	Q8N103	TAGAP_HUMAN	T-cell activation Rho GTPase-activating protein	516					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		GCACTTTTTTGTGAGGGGCAA	0.498													28	63					4.7796e-09	5.42977e-09	0.004656	1	0		T	159457507	T	T	159457507	3	4	172	1	0	0	0	0	1	0	0	0	15562	1368	48	5	651	5	TAGAP	6	159457507	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	6653194	159457507	11657560	104	90057											
SLC22A2	6582	broad.mit.edu	37	chr6	160679467	160679467	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctgttggtgtccaggctgGccagggggtccacgcagtcg	4	9	16	12	2	0	0	0	0	0	0	4	0	3	0	4	5	0	3	4	5	0	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr6:160679467G>T	uc003qtf.2	-	1	493	c.323C>A	c.(322-324)GCC>GAC	p.A108D	SLC22A2_uc003qte.1_Missense_Mutation_p.A108D|SLC22A2_uc003qth.1_Missense_Mutation_p.A108D	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	108	Extracellular (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		GTCCAGGCTGGCCAGGGGGTC	0.682													13	75					5.50884e-06	6.0794e-06	0.001368	1	0		T	160679467	T	T	160679467	3	4	172	1	0	0	0	0	1	0	0	0	14475	1203	42	5	1388	5	SLC22A2	6	160679467	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	1221960	160679467	10435600	105	90058											
COL28A1	340267	broad.mit.edu	37	chr7	7572474	7572474	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgtaaacgctgacaaaagCaggagatagaagacaaaata	20	5	9	7	2	0	4	0	1	0	3	1	5	0	4	0	1	2	3	0	1	9	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:7572474C>G	uc003src.1	-	2	150	c.33G>C	c.(31-33)CTG>CTC	p.L11L	COL28A1_uc011jxe.1_5'UTR	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	11					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		CTGACAAAAGCAGGAGATAGA	0.353													33	118					0	0	0.003271	0	0		G	7572474	G	G	7572474	2	3	172	1	0	0	0	0	0	0	0	1	3689	697	25	5		5	COL28A1	7	7572474	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08		7572474	151566189	106	90059											
STAG3L4	64940	broad.mit.edu	37	chr7	66773946	66773946	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggggactatcctctgacaGctccaggtctatcctggaag	8	9	12	12	1	2	1	0	1	2	0	5	3	5	3	3	4	1	1	3	4	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:66773946G>T	uc003tvt.3	+	3	379	c.112G>T	c.(112-114)GCT>TCT	p.A38S	STAG3L4_uc010laj.2_RNA	NM_022906	NP_075057	Q8TBR4	STG34_HUMAN	stromal antigen 3-like 4	38											0		Lung NSC(55;0.0839)|all_lung(88;0.181)				TCCTCTGACAGCTCCAGGTCT	0.493													19	59					3.51602e-12	4.09981e-12	0.008871	1	0		T	66773946	T	T	66773946	3	4	172	1	0	0	0	0	1	0	0	0	15272	971	34	5	118	5	STAG3L4	7	66773946	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	59201472	66773946	92364717	107	90060											
ANKIB1	54467	broad.mit.edu	37	chr7	91972459	91972459	+	Silent	SNP	A	T	T	1	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	aatgcctgggacacgctcccAtctccaagaactccaaggac	12	6	8	15	1	1	1	0	0	1	1	4	3	3	3	4	2	2	1	4	2	4	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:91972459A>T	uc003ulw.2	+	6	1285	c.909A>T	c.(907-909)CCA>CCT	p.P303P		NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	303							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ACACGCTCCCATCTCCAAGAA	0.502													12	135					0	0	0.000978	0	0		T	91972459	T	T	91972459	2	4	172	1	0	0	0	0	0	0	0	1	630	204	8	5		5	ANKIB1	7	91972459	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	25198513	91972459	67166204	108	90061											
RELN	5649	broad.mit.edu	37	chr7	103276725	103276725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtaattagctgacgccGcccatctttgttgaaaacca	12	11	8	10	2	1	3	0	2	1	1	1	3	1	3	3	0	2	3	3	0	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:103276725G>A	uc003vca.2	-	18	2420	c.2260C>T	c.(2260-2262)CGG>TGG	p.R754W	RELN_uc010liz.2_Missense_Mutation_p.R754W	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	754					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AGCTGACGCCGCCCATCTTTG	0.443													6	300					0	0	0.001168	0	0		A	103276725	A	A	103276725	3	1	172	1	0	0	0	0	1	0	0	0	13245	1086	38	1	8314	1	RELN	7	103276725	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	11304266	103276725	55861938	109	90062											
DLD	1738	broad.mit.edu	37	chr7	107542829	107542829	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgcttgaatgttggttgtatTccttctaaggtgagcatgtg	7	17	12	5	0	1	2	0	2	1	0	2	2	2	2	1	2	2	5	1	2	3	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:107542829T>G	uc003vet.2	+	4	368	c.258T>G	c.(256-258)ATT>ATG	p.I86M	DLD_uc010ljm.1_RNA|DLD_uc011kmg.1_Missense_Mutation_p.I86M|DLD_uc011kmh.1_Intron|DLD_uc011kmi.1_Intron	NM_000108	NP_000099	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase precursor	86					branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)	TTGGTTGTATTCCTTCTAAGG	0.373													8	54					0	0	0.004482	0	0		G	107542829	G	G	107542829	3	3	172	1	0	0	0	0	1	0	0	0	4557	1771	62	5	272	5	DLD	7	107542829	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	4266104	107542829	51595834	110	90063											
PNPLA8	50640	broad.mit.edu	37	chr7	108154736	108154736	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatactcacccttgcgataAtctacaaagacatattaaat	17	11	3	10	1	2	1	1	0	1	1	2	2	2	1	1	0	3	0	1	0	8	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:108154736A>C	uc003vff.1	-	5	1465	c.1058T>G	c.(1057-1059)ATT>AGT	p.I353S	PNPLA8_uc003vfg.1_RNA|PNPLA8_uc003vfh.1_Missense_Mutation_p.I353S|PNPLA8_uc003vfi.1_Missense_Mutation_p.I253S|PNPLA8_uc003vfj.1_Missense_Mutation_p.I353S|PNPLA8_uc003vfk.1_Missense_Mutation_p.I253S	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8	353					fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						CCTTGCGATAATCTACAAAGA	0.338													66	205					0	0	0.00361	0	0		C	108154736	C	C	108154736	3	2	172	1	0	0	0	0	1	0	0	0	12190	115	4	5	1322	5	PNPLA8	7	108154736	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	611907	108154736	50983927	111	90064											
LMOD2	442721	broad.mit.edu	37	chr7	123302918	123302918	+	Silent	SNP	T	C	C	0	1	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	acacctcctcctcctcccccTcctcctcctcctccccctcc	2	10	0	29	0	0	0	0	0	0	0	10	0	10	0	13	0	0	0	13	0	0	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:123302918T>C	uc003vky.2	+	2	1435	c.1278T>C	c.(1276-1278)CCT>CCC	p.P426P		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	426	Pro-rich.					cytoskeleton	actin binding|tropomyosin binding				0						ctcctccccctcctcctcctc	0.308													3	92					0	0	0.006214	0	0		C	123302918	C	C	123302918	2	2	172	1	0	0	0	0	0	0	0	1	8874	1538	54	3		3	LMOD2	7	123302918	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	15148182	123302918	35835745	112	90065											
GRM8	2918	broad.mit.edu	37	chr7	126086390	126086390	+	Missense_Mutation	SNP	T	C	C	0	1	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	agatactgaagcacttaaacTcatggagacagtaagtgttg	15	10	10	6	0	1	3	1	1	0	2	1	4	1	3	0	1	3	3	0	1	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:126086390T>C	uc003vlr.2	-	9	2778	c.2467A>G	c.(2467-2469)AGT>GGT	p.S823G	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.S823G|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	823	Helical; Name=7; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GCACTTAAACTCATGGAGACA	0.368										HNSCC(24;0.065)			4	20					0	0	0.009096	0	0		C	126086390	C	C	126086390	3	2	172	1	0	0	0	0	1	0	0	0	6819	1551	54	3	317	3	GRM8	7	126086390	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	2783472	126086390	33052273	113	90066											
OR2F2	135948	broad.mit.edu	37	chr7	143632632	143632632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtgcagcccagttatttTtctccctggccttgggtggg	3	14	13	11	0	1	0	0	0	1	0	2	0	1	0	3	3	2	3	3	3	1	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:143632632T>G	uc011ktv.1	+	1	307	c.307T>G	c.(307-309)TTC>GTC	p.F103V		NM_001004685	NP_001004685	O95006	OR2F2_HUMAN	olfactory receptor, family 2, subfamily F,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.F103F(1)		ovary(3)|skin(1)	4	Melanoma(164;0.0903)					CCAGTTATTTTTCTCCCTGGC	0.542													23	78					0	0	0.007291	0	0		G	143632632	G	G	143632632	3	3	172	1	0	0	0	0	1	0	0	0	11016	1841	64	5	309	5	OR2F2	7	143632632	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	17546242	143632632	15506031	114	90067											
OR2A2	442361	broad.mit.edu	37	chr7	143807484	143807484	+	Missense_Mutation	SNP	A	C	C	1	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	taatcaacgagaggagcaggAgaaaatgctgtccctgtttc	13	9	11	8	1	1	2	1	0	0	2	3	5	2	3	1	2	3	3	1	2	4	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:143807484A>C	uc011ktz.1	+	1	809	c.809A>C	c.(808-810)GAG>GCG	p.E270A		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					GAGGAGCAGGAGAAAATGCTG	0.512													65	103					0	0	0.00361	0	0		C	143807484	C	C	143807484	3	2	172	1	0	0	0	0	1	0	0	0	10996	304	11	5	811	5	OR2A2	7	143807484	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	174852	143807484	15331179	115	90068											
SSPO	23145	broad.mit.edu	37	chr7	149480254	149480254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgacttcctgacaccagcCggagatgtggaaactagcat	12	7	11	11	2	0	2	0	1	0	1	1	6	1	3	3	2	3	1	3	2	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:149480254C>T	uc010lpk.2	+	16	2136	c.2136C>T	c.(2134-2136)GCC>GCT	p.A712A	SSPO_uc010lpl.1_Silent_p.A47A	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	712	VWFD 2.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGACACCAGCCGGAGATGTGG	0.587													7	8					0	0	0.001984	0	0		T	149480254	T	T	149480254	2	4	172	1	0	0	0	0	0	0	0	1	15214	639	23	1		1	SSPO	7	149480254	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	5672770	149480254	9658409	116	90069											
DNAJB6	10049	broad.mit.edu	37	chr7	157177590	157177590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catttgggtcactaggtcacGggggcctcacttcattctct	6	13	10	12	1	5	0	4	0	1	0	6	0	5	0	1	4	0	0	1	4	1	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr7:157177590G>A	uc003wnk.2	+	7	662	c.508G>A	c.(508-510)GGG>AGG	p.G170R	DNAJB6_uc003wnj.2_Missense_Mutation_p.G170R|DNAJB6_uc003wnl.2_Missense_Mutation_p.G157R|DNAJB6_uc011kvy.1_Missense_Mutation_p.G121R|DNAJB6_uc011kvz.1_Intron|DNAJB6_uc010lqt.2_Missense_Mutation_p.G170R	NM_058246	NP_490647	O75190	DNJB6_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 6	170	Gly/Phe-rich.|Interaction with KRT18.				intermediate filament organization|negative regulation of caspase activity|protein folding|response to unfolded protein	nucleus|perinuclear region of cytoplasm	ATPase activator activity|chaperone binding|heat shock protein binding|unfolded protein binding			ovary(2)	2	all_neural(206;0.181)	all_epithelial(9;0.000606)|all_hematologic(28;0.00287)|Acute lymphoblastic leukemia(9;0.0647)|Ovarian(593;0.196)	OV - Ovarian serous cystadenocarcinoma(82;0.00399)	UCEC - Uterine corpus endometrioid carcinoma (81;0.172)		ACTAGGTCACGGGGGCCTCAC	0.378													4	83					0	0	0.009096	0	0		A	157177590	A	A	157177590	3	1	172	1	0	0	0	0	1	0	0	0	4630	1116	39	1	530	1	DNAJB6	7	157177590	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	7697336	157177590	1961073	117	90070											
POTEA	340441	broad.mit.edu	37	chr8	43171053	43171053	+	Silent	SNP	A	G	G	1	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	gaacaagacttaaagctgacAtcagaggaagagccacaaag	19	4	10	8	0	1	4	1	1	0	3	1	6	1	5	1	1	3	1	1	1	6	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:43171053A>G	uc003xpz.1	+	7	967	c.924A>G	c.(922-924)ACA>ACG	p.T308T	POTEA_uc003xqa.1_Silent_p.T262T	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	308										ovary(1)	1						TAAAGCTGACATCAGAGGAAG	0.279													7	26					0	0	0.004482	0	0		G	43171053	G	G	43171053	2	3	172	1	0	0	0	0	0	0	0	1	12280	204	8	3		3	POTEA	8	43171053	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08		43171053	103192969	118	90071											
RP1	6101	broad.mit.edu	37	chr8	55540286	55540286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	accccagtgacactttttttCctagtgatggttatggtgtg	7	16	10	8	0	0	2	0	2	0	0	1	2	1	2	3	2	0	1	3	2	2	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:55540286C>T	uc003xsd.1	+	4	3992	c.3844C>T	c.(3844-3846)CCT>TCT	p.P1282S	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1282					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CACTTTTTTTCCTAGTGATGG	0.408													19	81					0	0	0.001882	0	0		T	55540286	T	T	55540286	3	4	172	1	0	0	0	0	1	0	0	0	13557	855	30	4	3854	4	RP1	8	55540286	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	12369233	55540286	90823736	119	90072											
MATN2	4147	broad.mit.edu	37	chr8	99006715	99006715	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tccttcttgccagagatagaCtactgtgcctcatctaatca	10	13	6	12	0	4	2	2	0	2	2	5	3	5	2	3	0	3	0	3	0	3	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:99006715C>A	uc003yic.2	+	7	1320	c.1089C>A	c.(1087-1089)GAC>GAA	p.D363E	MATN2_uc003yib.1_Missense_Mutation_p.D363E|MATN2_uc010mbh.1_Intron|MATN2_uc003yid.2_Missense_Mutation_p.D363E|MATN2_uc003yie.1_Missense_Mutation_p.D363E|MATN2_uc010mbi.1_Missense_Mutation_p.D196E	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	363	EGF-like 4.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			CAGAGATAGACTACTGTGCCT	0.428													29	288					7.11191e-15	8.32416e-15	0.002836	1	0		A	99006715	A	A	99006715	3	1	172	1	0	0	0	0	1	0	0	0	9352	564	20	5	1111	5	MATN2	8	99006715	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	43466429	99006715	47357307	120	90073											
ZFPM2	23414	broad.mit.edu	37	chr8	106573610	106573610	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagagctggaggtgtttcaGaaagatggggaacgaaaaat	15	7	16	3	1	1	3	1	0	0	3	1	7	1	5	0	5	2	2	0	5	4	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:106573610G>A	uc003ymd.2	+	4	344	c.321G>A	c.(319-321)CAG>CAA	p.Q107Q		NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	107					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGGTGTTTCAGAAAGATGGGG	0.438													7	72					0	0	0.00308	0	0		A	106573610	A	A	106573610	2	1	172	1	0	0	0	0	0	0	0	1	17683	933	33	4		4	ZFPM2	8	106573610	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	7566895	106573610	39790412	121	90074											
TMEM74	157753	broad.mit.edu	37	chr8	109796429	109796429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attaactctgtacagcaagcGcatcttcctctaccaaggac	12	10	6	13	1	3	0	0	0	3	0	4	1	4	1	2	1	5	3	2	1	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:109796429G>A	uc003ymy.1	-	2	1004	c.899C>T	c.(898-900)GCG>GTG	p.A300V	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	300					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			TACAGCAAGCGCATCTTCCTC	0.358													37	25					0	0	0.005524	0	0		A	109796429	A	A	109796429	3	1	172	1	0	0	0	0	1	0	0	0	16227	1087	38	1	22	1	TMEM74	8	109796429	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	3222819	109796429	36567593	122	90075											
KCNV1	27012	broad.mit.edu	37	chr8	110986286	110986286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtagtagtgcaggacatatCggaacgcctgcgagctgcgg	9	7	16	9	4	0	0	0	0	0	0	1	3	0	2	1	4	5	4	1	4	4	3	rs143547134		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:110986286C>T	uc003ynr.3	-	1	674	c.332G>A	c.(331-333)CGA>CAA	p.R111Q	KCNV1_uc010mcw.2_Missense_Mutation_p.R111Q	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	111	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			CAGGACATATCGGAACGCCTG	0.647													4	30					0	0	0.009096	0	0		T	110986286	T	T	110986286	3	4	172	1	0	0	0	0	1	0	0	0	8110	884	31	1	1182	1	KCNV1	8	110986286	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1189857	110986286	35377736	123	90076											
CSMD3	114788	broad.mit.edu	37	chr8	113249424	113249424	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttattgcgatacctgaaAgtagcagctccatgttgcta	10	15	8	8	1	0	1	0	1	0	0	1	2	1	1	2	0	5	5	2	0	5	8			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:113249424A>G	uc003ynu.2	-	67	10781	c.10622T>C	c.(10621-10623)CTT>CCT	p.L3541P	CSMD3_uc003yns.2_Missense_Mutation_p.L2743P|CSMD3_uc003ynt.2_Missense_Mutation_p.L3501P|CSMD3_uc011lhx.1_Missense_Mutation_p.L3372P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3541	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GATACCTGAAAGTAGCAGCTC	0.358										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			30	134					0	0	0.002445	0	0		G	113249424	G	G	113249424	3	3	172	1	0	0	0	0	1	0	0	0	3949	72	3	3	521	3	CSMD3	8	113249424	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2263138	113249424	33114598	124	90077											
CSMD3	114788	broad.mit.edu	37	chr8	113349775	113349775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaagttagaagcataccttCacaccttggaagtggatgat	13	11	9	8	0	2	2	2	1	0	1	2	4	2	4	2	2	2	2	2	2	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr8:113349775C>T	uc003ynu.2	-	43	6997	c.6838G>A	c.(6838-6840)GAA>AAA	p.E2280K	CSMD3_uc003yns.2_Missense_Mutation_p.E1482K|CSMD3_uc003ynt.2_Missense_Mutation_p.E2240K|CSMD3_uc011lhx.1_Missense_Mutation_p.E2176K|CSMD3_uc003ynw.1_5'UTR	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2280	Extracellular (Potential).|Sushi 12.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGCATACCTTCACACCTTGGA	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			11	66					0	0	0.000978	0	0		T	113349775	T	T	113349775	3	4	172	1	0	0	0	0	1	0	0	0	3949	835	29	4	4401	4	CSMD3	8	113349775	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	100351	113349775	33014247	125	90078											
TEK	7010	broad.mit.edu	37	chr9	27203086	27203086	+	Silent	SNP	T	C	C	0	1	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	tcaagcaacccagccttttcTcatgaactggtgaccctccc	9	10	6	16	0	2	2	2	2	1	0	4	2	3	2	4	1	4	1	4	1	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:27203086T>C	uc003zqi.3	+	13	2620	c.2178T>C	c.(2176-2178)TCT>TCC	p.S726S	TEK_uc011lno.1_Silent_p.S683S|TEK_uc011lnp.1_Silent_p.S579S|TEK_uc003zqj.1_Silent_p.S660S	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	726	Extracellular (Potential).|Fibronectin type-III 3.				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		CAGCCTTTTCTCATGAACTGG	0.478													17	30					0	0	0.00499	0	0		C	27203086	C	C	27203086	2	2	172	1	0	0	0	0	0	0	0	1	15776	1538	54	3		3	TEK	9	27203086	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08		27203086	114010345	126	90079											
SPINK4	27290	broad.mit.edu	37	chr9	33246723	33246723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgccagctctgcttggcccGgatgtaagtctgccccacaa	8	9	10	14	1	2	0	0	0	2	0	2	1	2	1	4	2	4	3	4	2	2	2	rs140712741		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:33246723G>A	uc003zsh.2	+	3	223	c.212G>A	c.(211-213)CGG>CAG	p.R71Q	SUGT1P1_uc010mjq.1_Intron	NM_014471	NP_055286	O60575	ISK4_HUMAN	serine peptidase inhibitor, Kazal type 4	71	Kazal-like.					extracellular region	serine-type endopeptidase inhibitor activity				0			LUSC - Lung squamous cell carcinoma(29;0.00506)			TGCTTGGCCCGGATGTAAGTC	0.542													9	66					0	0	0.006214	0	0		A	33246723	A	A	33246723	3	1	172	1	0	0	0	0	1	0	0	0	15086	1116	39	1	222	1	SPINK4	9	33246723	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	6043637	33246723	107966708	127	90080											
CA9	768	broad.mit.edu	37	chr9	35675761	35675761	+	Missense_Mutation	SNP	A	T	T	1	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	atactctcccaccccaggcgAcccgccctggccccgggtgt	5	6	10	20	3	1	0	0	0	1	0	2	1	1	0	7	3	1	0	7	3	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:35675761A>T	uc003zxo.3	+	3	479	c.437A>T	c.(436-438)GAC>GTC	p.D146V	C9orf100_uc003zxl.2_RNA|CA9_uc003zxp.3_Missense_Mutation_p.D146V	NM_001216	NP_001207	Q16790	CAH9_HUMAN	carbonic anhydrase IX precursor	146	Extracellular.|Catalytic.				one-carbon metabolic process	integral to membrane|microvillus membrane|nucleolus	carbonate dehydratase activity|zinc ion binding			ovary(4)|skin(1)	5	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			ACCCCAGGCGACCCGCCCTGG	0.711													6	67					0	0	0.001984	0	0		T	35675761	T	T	35675761	3	4	172	1	0	0	0	0	1	0	0	0	2527	275	10	5	447	5	CA9	9	35675761	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2429038	35675761	105537670	128	90081											
MAMDC2	256691	broad.mit.edu	37	chr9	72785543	72785543	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagggagatcacactactggGgtaggtgagttatgccacgt	11	9	14	7	1	1	2	1	1	0	1	1	3	1	2	1	4	2	2	1	4	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:72785543G>C	uc004ahm.2	+	11	2264	c.1647G>C	c.(1645-1647)GGG>GGC	p.G549G	MAMDC2_uc004ahn.2_RNA|uc004aho.1_Intron|uc004ahp.1_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	549	MAM 4.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						ACACTACTGGGGTAGGTGAGT	0.453													3	32					0	0	0.004672	0	0		C	72785543	C	C	72785543	2	2	172	1	0	0	0	0	0	0	0	1	9221	1219	43	5		5	MAMDC2	9	72785543	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	37109782	72785543	68427888	129	90082											
FLJ46321	389763	broad.mit.edu	37	chr9	84605815	84605815	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgatatccagcaactgCtgtcttgggagtccctgaaa	9	11	10	11	0	1	2	0	2	1	0	3	3	3	3	2	1	4	3	2	1	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:84605815C>A	uc004amn.2	+	4	477	c.430C>A	c.(430-432)CTG>ATG	p.L144M		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	144						integral to membrane					0						CCAGCAACTGCTGTCTTGGGA	0.557													12	58					5.50884e-06	6.0794e-06	0.001368	1	0		A	84605815	A	A	84605815	3	1	172	1	0	0	0	0	1	0	0	0	5946	796	28	5	444	5	FLJ46321	9	84605815	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	11820272	84605815	56607616	130	90083											
SECISBP2	79048	broad.mit.edu	37	chr9	91954828	91954828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcatctgaaagaagagacaGaatagagacaccgaaatttc	18	7	9	7	1	1	5	0	1	1	4	2	8	1	5	1	0	1	1	1	0	5	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:91954828G>A	uc004aqj.1	+	9	1342	c.1262G>A	c.(1261-1263)AGA>AAA	p.R421K	SECISBP2_uc011ltk.1_Missense_Mutation_p.R420K|SECISBP2_uc004aqk.1_Missense_Mutation_p.R348K|SECISBP2_uc010mqo.1_Missense_Mutation_p.R126K|SECISBP2_uc011ltl.1_Missense_Mutation_p.R353K	NM_024077	NP_076982	Q96T21	SEBP2_HUMAN	SECIS binding protein 2	421					translation	nucleus	mRNA 3'-UTR binding			ovary(2)|skin(1)	3						AGAAGAGACAGAATAGAGACA	0.403													11	56					0	0	0.001368	0	0		A	91954828	A	A	91954828	3	1	172	1	0	0	0	0	1	0	0	0	14031	942	33	4	1296	4	SECISBP2	9	91954828	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	7349013	91954828	49258603	131	90084											
PTCH1	5727	broad.mit.edu	37	chr9	98268846	98268846	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtctctgaaacttcgctctCagccacagcggcgctttccg	7	10	9	15	4	2	1	1	1	2	0	6	1	3	1	2	1	3	2	2	1	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:98268846C>T	uc004avk.3	-	2	425	c.237G>A	c.(235-237)CTG>CTA	p.L79L	PTCH1_uc010mro.2_5'UTR|PTCH1_uc010mrp.2_5'UTR|PTCH1_uc010mrq.2_5'UTR|PTCH1_uc004avl.3_5'UTR|PTCH1_uc010mrr.2_Silent_p.L13L|PTCH1_uc004avm.3_Silent_p.L78L|PTCH1_uc010mrt.1_RNA|PTCH1_uc010mru.1_RNA|PTCH1_uc004avo.2_Silent_p.L13L|PTCH1_uc010mrv.1_Intron|PTCH1_uc010mrw.1_Intron	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	79	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				ACTTCGCTCTCAGCCACAGCG	0.592									Basal_Cell_Nevus_syndrome				9	22					0	0	0.008291	0	0		T	98268846	T	T	98268846	2	4	172	1	0	0	0	0	0	0	0	1	12752	813	29	4		4	PTCH1	9	98268846	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	6314018	98268846	42944585	132	90085											
TLR4	7099	broad.mit.edu	37	chr9	120474710	120474710	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggggcatatcagagcctaAgccacctctctaccttaata	12	10	7	12	0	2	1	1	0	1	1	3	1	2	1	4	2	3	1	4	2	5	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:120474710A>G	uc004bjz.2	+	3	595	c.304A>G	c.(304-306)AGC>GGC	p.S102G	TLR4_uc004bka.2_Missense_Mutation_p.S62G|TLR4_uc004bkb.2_5'UTR	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	102	Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TCAGAGCCTAAGCCACCTCTC	0.413													4	50					0	0	0.009096	0	0		G	120474710	G	G	120474710	3	3	172	1	0	0	0	0	1	0	0	0	15978	72	3	3	314	3	TLR4	9	120474710	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	22205864	120474710	20738721	133	90086											
DBC1	1620	broad.mit.edu	37	chr9	122011416	122011416	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgtgttcctcaccttccaAcgggcaaactccctgggcag	7	9	10	15	1	1	0	1	0	0	0	4	0	4	0	4	2	2	4	4	2	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:122011416A>T	uc004bkc.2	-	3	687	c.231T>A	c.(229-231)CGT>CGA	p.R77R	DBC1_uc004bkd.2_Silent_p.R77R	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	77	MACPF.				cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						TCACCTTCCAACGGGCAAACT	0.552													11	34					0	0	0.000978	0	0		T	122011416	T	T	122011416	2	4	172	1	0	0	0	0	0	0	0	1	4250	30	2	5		5	DBC1	9	122011416	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1536706	122011416	19202015	134	90087											
CEL	1056	broad.mit.edu	37	chr9	135942255	135942255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacaacaagggcctcatcCggcgagccatcagccagagc	11	4	10	16	2	2	1	2	0	0	1	3	2	3	1	5	2	5	0	5	2	3	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:135942255C>T	uc010naa.1	+	6	725	c.709C>T	c.(709-711)CGG>TGG	p.R237W		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	234					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		GGGCCTCATCCGGCGAGCCAT	0.632													4	10					0	0	0.009096	0	0		T	135942255	T	T	135942255	3	4	172	1	0	0	0	0	1	0	0	0	3212	643	23	1	731	1	CEL	9	135942255	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	13930839	135942255	5271176	135	90088											
PHPT1	29085	broad.mit.edu	37	chr9	139744542	139744542	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtctgggcggcgggcgcatcTcccaccagagtcaggacaag	8	5	15	13	3	3	1	1	0	2	1	4	2	3	2	2	4	0	1	2	4	1	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:139744542T>C	uc004cjp.2	+	3	860	c.238T>C	c.(238-240)TCC>CCC	p.S80P	PHPT1_uc011mei.1_Missense_Mutation_p.S80P|PHPT1_uc004cjq.3_Missense_Mutation_p.S80P|MAMDC4_uc004cjs.2_5'Flank|MAMDC4_uc011mej.1_5'Flank	NM_014172	NP_054891	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1 isoform 3	80						cytosol	phosphohistidine phosphatase activity|phosphoprotein phosphatase activity				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CGGGCGCATCTCCCACCAGAG	0.642													23	55					0	0	0.001882	0	0		C	139744542	C	C	139744542	3	2	172	1	0	0	0	0	1	0	0	0	11879	1551	54	3	244	3	PHPT1	9	139744542	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	3802287	139744542	1468889	136	90089											
ABCA2	20	broad.mit.edu	37	chr9	139903860	139903860	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgctgcccaggcaccgcagGcgaccgttcaccatgatggc	8	6	12	15	3	1	1	1	1	0	0	1	2	1	1	4	3	2	4	4	3	0	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr9:139903860G>T	uc011mem.1	-	44	6934	c.6786C>A	c.(6784-6786)CGC>CGA	p.R2262R	ABCA2_uc011mel.1_Silent_p.R2263R|ABCA2_uc004ckl.1_Silent_p.R2193R|ABCA2_uc004ckm.1_Silent_p.R2293R	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	2262	ABC transporter 2.				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GGCACCGCAGGCGACCGTTCA	0.488													8	32					2.74318e-10	3.15109e-10	0.006214	1	0		T	139903860	T	T	139903860	2	4	172	1	0	0	0	0	0	0	0	1	32	1190	42	5		5	ABCA2	9	139903860	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	159318	139903860	1309571	137	90090											
PRKCQ	5588	broad.mit.edu	37	chr10	6470192	6470192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatatcagccgctccatccCggggttcatgaaggaaaagt	11	8	12	10	2	2	1	2	1	0	0	4	3	4	3	3	4	1	2	3	4	4	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:6470192C>T	uc001ijj.1	-	18	2173	c.2098G>A	c.(2098-2100)GGG>AGG	p.G700R	PRKCQ_uc009xim.1_Missense_Mutation_p.G637R|PRKCQ_uc001iji.1_Missense_Mutation_p.G733R|PRKCQ_uc009xin.1_Missense_Mutation_p.G664R|PRKCQ_uc010qax.1_Missense_Mutation_p.G575R	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta	700	AGC-kinase C-terminal.			G -> R (in Ref. 1; AAA75571 and 4; AAU29340).	axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CGCTCCATCCCGGGGTTCATG	0.498													51	115					0	0	0.00361	0	0		T	6470192	T	T	6470192	3	4	172	1	0	0	0	0	1	0	0	0	12537	652	23	1	26	1	PRKCQ	10	6470192	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08		6470192	129064555	138	90091											
MLLT10	8028	broad.mit.edu	37	chr10	21962549	21962549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaattcacctggagatttggGtaattccagccttcctacag	11	12	8	10	0	1	1	1	0	0	1	3	2	3	1	4	2	2	1	4	2	3	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:21962549G>A	uc001iqs.2	+	11	1670	c.1322G>A	c.(1321-1323)GGT>GAT	p.G441D	MLLT10_uc001iqt.2_Missense_Mutation_p.G441D|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.G441D|MLLT10_uc001ira.2_Intron|MLLT10_uc001irb.2_5'Flank|MLLT10_uc001iqz.2_Missense_Mutation_p.G196D	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	441	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						GGAGATTTGGGTAATTCCAGC	0.408			T	MLL|PICALM|CDK6	AL								66	213					0	0	0.00361	0	0		A	21962549	A	A	21962549	3	1	172	1	0	0	0	0	1	0	0	0	9644	1261	44	4	1360	4	MLLT10	10	21962549	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	15492357	21962549	113572198	139	90092											
ITGB1	3688	broad.mit.edu	37	chr10	33197334	33197334	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttctccttttcaaattTagcaaactcccttctgtcat	9	18	2	12	0	4	0	2	0	2	0	6	0	5	0	2	0	2	1	2	0	3	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:33197334T>C	uc001iws.3	-	15	2429	c.2293A>G	c.(2293-2295)AAA>GAA	p.K765E	ITGB1_uc001iwp.3_Missense_Mutation_p.K765E|ITGB1_uc001iwq.3_Missense_Mutation_p.K765E|ITGB1_uc001iwr.3_Missense_Mutation_p.K765E|ITGB1_uc001iwt.3_Missense_Mutation_p.K765E|ITGB1_uc001iwu.1_Missense_Mutation_p.K765E	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	765	Cytoplasmic (Potential).				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				TTTTCAAATTTAGCAAACTCC	0.358													37	86					0	0	0.004289	0	0		C	33197334	C	C	33197334	3	2	172	1	0	0	0	0	1	0	0	0	7906	1763	61	3	349	3	ITGB1	10	33197334	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	11234785	33197334	102337413	140	90093											
ANKRD30A	91074	broad.mit.edu	37	chr10	37508073	37508073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttaaaagaaaagaatgctGaacttcagatgaccctaaaa	19	10	6	6	0	1	5	1	2	0	3	1	5	1	5	1	0	2	1	1	0	8	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:37508073G>A	uc001iza.1	+	34	3364	c.3265G>A	c.(3265-3267)GAA>AAA	p.E1089K		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1145	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AAAGAATGCTGAACTTCAGAT	0.358													23	156					0	0	0.00278	0	0		A	37508073	A	A	37508073	3	1	172	1	0	0	0	0	1	0	0	0	658	1291	45	4	3399	4	ANKRD30A	10	37508073	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	4310739	37508073	98026674	141	90094											
PCDH15	65217	broad.mit.edu	37	chr10	55566448	55566448	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaagcctccttgatgttcTtactgtcaatcatggactcc	9	13	6	13	0	3	1	2	1	1	0	5	2	5	2	4	1	2	1	4	1	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:55566448T>G	uc010qhq.1	-	36	5335	c.4940A>C	c.(4939-4941)AAG>ACG	p.K1647T	PCDH15_uc010qhr.1_Missense_Mutation_p.K1642T	NM_001142771	NP_001136243	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD3-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CTTGATGTTCTTACTGTCAAT	0.478										HNSCC(58;0.16)			19	132					0	0	0.010504	0	0		G	55566448	G	G	55566448	3	3	172	1	0	0	0	0	1	0	0	0	11530	1609	56	5	112	5	PCDH15	10	55566448	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	18058375	55566448	79968299	142	90095											
CTNNA3	29119	broad.mit.edu	37	chr10	68526056	68526056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtgtgttcatgaaatatcGcagcatattcttttatttcc	9	18	7	7	1	2	1	1	1	1	0	4	1	3	1	1	1	1	3	1	1	4	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:68526056G>A	uc009xpn.1	-	9	1370	c.1247C>T	c.(1246-1248)GCG>GTG	p.A416V	CTNNA3_uc001jmw.2_Missense_Mutation_p.A416V|CTNNA3_uc001jmx.3_Missense_Mutation_p.A416V	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	416					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						ATGAAATATCGCAGCATATTC	0.438													27	85					0	0	0.008361	0	0		A	68526056	A	A	68526056	3	1	172	1	0	0	0	0	1	0	0	0	4017	1087	38	1	1480	1	CTNNA3	10	68526056	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	12959608	68526056	67008691	143	90096											
CTNNA3	29119	broad.mit.edu	37	chr10	68535278	68535278	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tattactcctttctttttttCcagcctgcaaagaagaaaaa	13	15	4	9	0	1	2	0	0	1	2	3	2	3	2	3	0	3	1	3	0	6	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:68535278C>G	uc009xpn.1	-	8	1175	c.1052G>C	c.(1051-1053)GGA>GCA	p.G351A	CTNNA3_uc001jmw.2_Missense_Mutation_p.G351A|CTNNA3_uc001jmx.3_Missense_Mutation_p.G351A	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	351	Potential.				cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TTCTTTTTTTCCAGCCTGCAA	0.358													28	113					0	0	0.00632	0	0		G	68535278	G	G	68535278	3	3	172	1	0	0	0	0	1	0	0	0	4017	855	30	5	1679	5	CTNNA3	10	68535278	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	9222	68535278	66999469	144	90097											
SMC3	9126	broad.mit.edu	37	chr10	112360880	112360880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtaaaagacactatggcacGatcagaaggtgaatttttat	16	11	9	5	1	1	3	1	1	0	2	1	4	1	3	0	2	0	2	0	2	6	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:112360880G>A	uc001kze.2	+	23	2762	c.2636G>A	c.(2635-2637)CGA>CAA	p.R879Q		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	879	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		ACTATGGCACGATCAGAAGGT	0.348													23	150					0	0	0.005443	0	0		A	112360880	A	A	112360880	3	1	172	1	0	0	0	0	1	0	0	0	14809	1058	37	1	2726	1	SMC3	10	112360880	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	43825602	112360880	23173867	145	90098											
TACC2	10579	broad.mit.edu	37	chr10	124008317	124008317	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcctagaaggcttccgcaAggtagggctgagtttggggg	7	9	18	7	1	0	2	0	1	0	1	2	2	2	2	2	6	0	5	2	6	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr10:124008317A>G	uc001lfv.2	+	20	8912	c.8552A>G	c.(8551-8553)AAG>AGG	p.K2851R	TACC2_uc001lfw.2_Missense_Mutation_p.K997R|TACC2_uc009xzx.2_Missense_Mutation_p.K2729R|TACC2_uc010qtv.1_Missense_Mutation_p.K2778R|TACC2_uc001lfx.2_Missense_Mutation_p.K478R|TACC2_uc001lfy.2_Missense_Mutation_p.K474R|TACC2_uc001lfz.2_Missense_Mutation_p.K929R|TACC2_uc001lga.2_Missense_Mutation_p.K899R|TACC2_uc009xzy.2_Missense_Mutation_p.K911R|TACC2_uc001lgb.2_Missense_Mutation_p.K809R	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	2851	Potential.					microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GGCTTCCGCAAGGTAGGGCTG	0.567													11	83					0	0	0.008291	0	0		G	124008317	G	G	124008317	3	3	172	1	0	0	0	0	1	0	0	0	15527	86	3	3	8698	3	TACC2	10	124008317	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	11647437	124008317	11526430	146	90099											
PNPLA2	57104	broad.mit.edu	37	chr11	821985	821985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagcggtttcatccccGtgtactgtgggctcatccct	4	13	10	14	2	3	0	2	0	1	0	5	0	5	0	3	2	3	4	3	2	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:821985G>A	uc001lrt.2	+	4	650	c.448G>A	c.(448-450)GTG>ATG	p.V150M	PNPLA2_uc009ycl.2_5'Flank	NM_020376	NP_065109	Q96AD5	PLPL2_HUMAN	patatin-like phospholipase domain containing 2	150	Lumenal (Potential).|Patatin.				negative regulation of sequestering of triglyceride|positive regulation of triglyceride catabolic process	integral to membrane|lipid particle|plasma membrane	triglyceride lipase activity				0		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;1.63e-25)|Epithelial(43;1.28e-24)|OV - Ovarian serous cystadenocarcinoma(40;7.09e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		TTTCATCCCCGTGTACTGTGG	0.632													13	59					0	0	0.001855	0	0		A	821985	A	A	821985	3	1	172	1	0	0	0	0	1	0	0	0	12184	1145	40	1	458	1	PNPLA2	11	821985	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08		821985	134184531	147	90100											
OR51I1	390063	broad.mit.edu	37	chr11	5462125	5462125	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagtccataccataggtaAaaatgatcaccaagagccca	16	8	7	10	0	1	3	1	2	0	1	2	3	2	3	4	1	2	1	4	1	6	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:5462125A>C	uc010qze.1	-	1	620	c.620T>G	c.(619-621)TTT>TGT	p.F207C	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005288	NP_001005288	Q9H343	O51I1_HUMAN	olfactory receptor, family 51, subfamily I,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACCATAGGTAAAAATGATCAC	0.448													3	27					0	0	0.004672	0	0		C	5462125	C	C	5462125	3	2	172	1	0	0	0	0	1	0	0	0	11119	14	1	5	328	5	OR51I1	11	5462125	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	4640140	5462125	129544391	148	90101											
ALX4	60529	broad.mit.edu	37	chr11	44297059	44297059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccttgttgctctctgagtCggccttctccaatgggctgg	3	13	12	13	1	2	1	0	1	2	0	5	1	2	1	3	3	1	3	3	3	1	3	rs140457891		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:44297059C>T	uc001myb.2	-	2	720	c.616G>A	c.(616-618)GAC>AAC	p.D206N		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	206					hair follicle development						0						CTCTCTGAGTCGGCCTTCTCC	0.627													32	125					0	0	0.002836	0	0		T	44297059	T	T	44297059	3	4	172	1	0	0	0	0	1	0	0	0	558	884	31	1	631	1	ALX4	11	44297059	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	38834934	44297059	90709457	149	90102											
LRP4	4038	broad.mit.edu	37	chr11	46884284	46884284	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattccaggatcagtgaacTtggattttttgtgtctttag	8	17	9	7	0	2	1	1	1	1	0	3	3	3	3	2	2	1	0	2	2	2	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:46884284T>C	uc001ndn.3	-	37	5404	c.5258A>G	c.(5257-5259)AAG>AGG	p.K1753R	uc001ndl.2_Intron|LRP4_uc001ndm.3_5'UTR	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1753	Cytoplasmic (Potential).				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		ATCAGTGAACTTGGATTTTTT	0.443													8	40					0	0	0.004482	0	0		C	46884284	C	C	46884284	3	2	172	1	0	0	0	0	1	0	0	0	8977	1609	56	3	467	3	LRP4	11	46884284	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	2587225	46884284	88122232	150	90103											
OR8J3	81168	broad.mit.edu	37	chr11	55904650	55904650	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagataatgctaacagaggtGcaatatcacagtaaaaatga	20	8	8	5	0	1	3	1	1	0	2	1	3	1	3	0	1	3	3	0	1	8	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:55904650G>T	uc010riz.1	-	1	545	c.545C>A	c.(544-546)GCA>GAA	p.A182E		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					TAACAGAGGTGCAATATCACA	0.328													18	58					2.94398e-08	3.30797e-08	0.007413	1	0		T	55904650	T	T	55904650	3	4	172	1	0	0	0	0	1	0	0	0	11261	1319	46	5	404	5	OR8J3	11	55904650	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	9020366	55904650	79101866	151	90104											
OR5T2	219464	broad.mit.edu	37	chr11	56000013	56000013	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaggagggatatcacaaaAgacacgcctaatttcattgg	15	8	11	7	1	2	2	2	0	0	2	2	5	2	4	1	3	0	0	1	3	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:56000013A>G	uc010rjc.1	-	1	649	c.649T>C	c.(649-651)TTT>CTT	p.F217L		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	217	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ATATCACAAAAGACACGCCTA	0.423													40	72					0	0	0.009718	0	0		G	56000013	G	G	56000013	3	3	172	1	0	0	0	0	1	0	0	0	11201	72	3	3	429	3	OR5T2	11	56000013	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	95363	56000013	79006503	152	90105											
OR5M3	219482	broad.mit.edu	37	chr11	56237885	56237885	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtgatgatgtagaccacaAgaaagatgatgaagaagaga	18	7	13	3	0	0	9	0	4	0	5	0	10	0	9	1	1	0	1	1	1	5	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:56237885A>G	uc010rjk.1	-	1	89	c.89T>C	c.(88-90)CTT>CCT	p.L30P		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					GTAGACCACAAGAAAGATGAT	0.438													13	32					0	0	0.004007	0	0		G	56237885	G	G	56237885	3	3	172	1	0	0	0	0	1	0	0	0	11194	72	3	3	836	3	OR5M3	11	56237885	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	237872	56237885	78768631	153	90106											
ZFP91	80829	broad.mit.edu	37	chr11	58379103	58379103	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccaaagccacggagaaaatCagggaaggtaaaagaagaga	20	2	12	7	1	1	3	1	0	0	3	1	6	1	4	2	3	1	1	2	3	7	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:58379103C>T	uc001nmx.3	+	6	917	c.749C>T	c.(748-750)TCA>TTA	p.S250L	ZFP91_uc001nmy.3_Missense_Mutation_p.S249L|ZFP91-CNTF_uc010rkm.1_RNA	NM_053023	NP_444251	Q96JP5	ZFP91_HUMAN	zinc finger protein 91	250	Glu-rich.				activation of NF-kappaB-inducing kinase activity|protein K63-linked ubiquitination	nucleus	nucleic acid binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Breast(21;0.00725)|all_epithelial(135;0.0101)|all_lung(304;0.24)				CGGAGAAAATCAgggaaggta	0.189													18	27					0	0	0.006122	0	0		T	58379103	T	T	58379103	3	4	172	1	0	0	0	0	1	0	0	0	17680	838	29	4	771	4	ZFP91	11	58379103	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	2141218	58379103	76627413	154	90107											
C11orf66	220004	broad.mit.edu	37	chr11	61257335	61257335	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccagatgccaggaggctaCgccctcagccagccggtcag	8	4	12	17	2	2	1	2	0	0	1	2	2	2	2	6	3	4	1	6	3	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:61257335C>T	uc001nru.1	+	12	1250	c.1125C>T	c.(1123-1125)TAC>TAT	p.Y375Y	C11orf66_uc009ynq.1_Silent_p.Y355Y	NM_145017	NP_659454	Q7Z5V6	CK066_HUMAN	IIIG9 protein	375										ovary(1)	1						CAGGAGGCTACGCCCTCAGCC	0.657													6	51					0	0	0.00308	0	0		T	61257335	T	T	61257335	2	4	172	1	0	0	0	0	0	0	0	1	1659	547	19	1		1	C11orf66	11	61257335	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	2878232	61257335	73749181	155	90108											
FKBP2	2286	broad.mit.edu	37	chr11	64009967	64009967	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagctgcagatcggggtcaaGaagcgggtggaccactgtcc	10	6	15	10	2	1	2	1	0	0	2	3	3	2	3	2	4	3	2	2	4	3	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:64009967G>C	uc001nyy.2	+	2	304	c.108G>C	c.(106-108)AAG>AAC	p.K36N	FKBP2_uc010rnh.1_Missense_Mutation_p.K36N|FKBP2_uc001nyz.2_Missense_Mutation_p.K36N	NM_004470	NP_004461	P26885	FKBP2_HUMAN	FK506 binding protein 2, 13kDa precursor	36					protein folding	endoplasmic reticulum membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding				0						TCGGGGTCAAGAAGCGGGTGG	0.622													11	73					0	0	0.001368	0	0		C	64009967	C	C	64009967	3	2	172	1	0	0	0	0	1	0	0	0	5922	933	33	5	110	5	FKBP2	11	64009967	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	2752632	64009967	70996549	156	90109											
SPDYC	387778	broad.mit.edu	37	chr11	64940349	64940349	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagcctgtgtcatccaagtgCccttctctgacctctgaatg	8	12	8	13	0	3	2	1	2	2	0	5	2	4	2	4	0	2	0	4	0	3	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:64940349C>T	uc010rnz.1	+	6	711	c.711C>T	c.(709-711)TGC>TGT	p.C237C		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	237					cell cycle	nucleus	protein kinase binding				0						CATCCAAGTGCCCTTCTCTGA	0.602													20	83					0	0	0.008871	0	0		T	64940349	T	T	64940349	2	4	172	1	0	0	0	0	0	0	0	1	15053	747	26	2		2	SPDYC	11	64940349	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	930382	64940349	70066167	157	90110											
RBM4B	83759	broad.mit.edu	37	chr11	66444414	66444414	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatggcatcctcagctgccGtcttgtcttctatgtgcaca	6	14	9	12	1	4	0	1	0	3	0	5	0	5	0	2	1	3	4	2	1	2	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:66444414G>T	uc001oja.2	-	1	806	c.137C>A	c.(136-138)ACG>AAG	p.T46K	RBM4B_uc001ojb.2_Missense_Mutation_p.T46K	NM_031492	NP_113680	Q9BQ04	RBM4B_HUMAN	RNA binding motif protein 4B	46	RRM 1.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|RNA splicing	nucleolus	nucleotide binding|RNA binding|zinc ion binding				0						CTCAGCTGCCGTCTTGTCTTC	0.483													37	96					3.86236e-30	4.60799e-30	0.00361	1	0		T	66444414	T	T	66444414	3	4	172	1	0	0	0	0	1	0	0	0	13167	1145	40	5	950	5	RBM4B	11	66444414	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	1504065	66444414	68562102	158	90111											
ARRB1	408	broad.mit.edu	37	chr11	74992137	74992137	+	Missense_Mutation	SNP	T	C	C	0	1	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	accgcttgtggatcttctccTccaaattctccgcgcagaag	8	11	8	14	3	3	1	0	0	3	1	6	2	4	2	4	1	0	2	4	1	2	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:74992137T>C	uc001owe.1	-	7	686	c.464A>G	c.(463-465)GAG>GGG	p.E155G	ARRB1_uc001owf.1_Missense_Mutation_p.E155G	NM_004041	NP_004032	P49407	ARRB1_HUMAN	arrestin beta 1 isoform A	155	Interaction with SRC (By similarity).				G-protein coupled receptor internalization|histone H4 acetylation|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|platelet activation|positive regulation of ERK1 and ERK2 cascade|positive regulation of histone acetylation|positive regulation of Rho protein signal transduction|positive regulation of transcription from RNA polymerase II promoter|post-Golgi vesicle-mediated transport|proteasomal ubiquitin-dependent protein catabolic process|protein transport|protein ubiquitination|signal transduction|stress fiber assembly|transcription from RNA polymerase II promoter	chromatin|coated pit|cytoplasmic vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|membrane fraction|nucleus|plasma membrane|pseudopodium|soluble fraction	angiotensin receptor binding|enzyme inhibitor activity|GTPase activator activity|insulin-like growth factor receptor binding|transcription factor binding|transcription regulatory region DNA binding|ubiquitin protein ligase binding			breast(2)	2						GATCTTCTCCTCCAAATTCTC	0.547													5	8					0	0	0.000602	0	0		C	74992137	C	C	74992137	3	2	172	1	0	0	0	0	1	0	0	0	981	1551	54	3	832	3	ARRB1	11	74992137	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	8547723	74992137	60014379	159	90112											
FAT3	120114	broad.mit.edu	37	chr11	92495111	92495111	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaatgacaacaagccccaGttcccagagaaggtctacca	16	5	8	12	0	1	2	0	1	1	1	2	4	2	2	4	1	3	1	4	1	6	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:92495111G>T	uc001pdj.3	+	4	3776	c.3759G>T	c.(3757-3759)CAG>CAT	p.Q1253H		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1253	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACAAGCCCCAGTTCCCAGAGA	0.483										TCGA Ovarian(4;0.039)			5	297					3.59834e-05	3.91509e-05	0.001168	1	0		T	92495111	T	T	92495111	3	4	172	1	0	0	0	0	1	0	0	0	5705	1020	36	5	3773	5	FAT3	11	92495111	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	17502974	92495111	42511405	160	90113											
PGR	5241	broad.mit.edu	37	chr11	100920672	100920672	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcactcacttgtattaagaaGtaacaatactttcatacaga	16	13	4	8	0	3	2	3	0	0	2	3	2	3	2	0	0	3	2	0	0	7	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:100920672G>C	uc001pgh.2	-	6	3219	c.2476C>G	c.(2476-2478)CTT>GTT	p.L826V	PGR_uc001pgg.2_Missense_Mutation_p.L207V|PGR_uc001pgi.2_Missense_Mutation_p.L724V|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	826	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	GTATTAAGAAGTAACAATACT	0.323													9	62					0	0	0.008291	0	0		C	100920672	C	C	100920672	3	2	172	1	0	0	0	0	1	0	0	0	11824	1029	36	5	337	5	PGR	11	100920672	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	8425561	100920672	34085844	161	90114											
DYNC2H1	79659	broad.mit.edu	37	chr11	103306730	103306730	+	Silent	SNP	A	G	G	1	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	gatcccttacaatacctgagAggtcttgttgcccgtgccct	7	12	9	13	1	1	1	0	1	1	1	2	3	2	1	4	1	4	1	4	1	3	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:103306730A>G	uc001pho.2	+	85	12570	c.12426A>G	c.(12424-12426)AGA>AGG	p.R4142R	DYNC2H1_uc001phn.1_Silent_p.R4149R|DYNC2H1_uc009yxe.1_Silent_p.R755R	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	4142					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		AATACCTGAGAGGTCTTGTTG	0.413													4	60					0	0	0.000602	0	0		G	103306730	G	G	103306730	2	3	172	1	0	0	0	0	0	0	0	1	4852	301	11	3		3	DYNC2H1	11	103306730	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2386058	103306730	31699786	162	90115											
PHLDB1	23187	broad.mit.edu	37	chr11	118498963	118498963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctccccgctgcccacccGgaccaccccagatcccaagc	7	5	6	23	2	1	1	0	0	1	1	4	2	3	2	8	1	2	1	8	1	1	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:118498963G>A	uc001ptr.1	+	7	1777	c.1424G>A	c.(1423-1425)CGG>CAG	p.R475Q	PHLDB1_uc001pts.2_Missense_Mutation_p.R475Q|PHLDB1_uc001ptt.2_Missense_Mutation_p.R475Q|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.R275Q|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	475											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CTGCCCACCCGGACCACCCCA	0.672													14	174					0	0	0.001855	0	0		A	118498963	A	A	118498963	3	1	172	1	0	0	0	0	1	0	0	0	11870	1116	39	1	1442	1	PHLDB1	11	118498963	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	15192233	118498963	16507553	163	90116											
ADAMTS8	11095	broad.mit.edu	37	chr11	130288995	130288995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagtgctctgggtggcggtCgctgggctggttgaaacgcc	4	10	18	9	3	1	1	0	1	1	0	2	1	1	1	1	5	2	5	1	5	2	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:130288995C>T	uc001qgg.3	-	2	1271	c.913G>A	c.(913-915)GAC>AAC	p.D305N		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	305	Peptidase M12B.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		GGGTGGCGGTCGCTGGGCTGG	0.612													34	100					0	0	0.002445	0	0		T	130288995	T	T	130288995	3	4	172	1	0	0	0	0	1	0	0	0	272	884	31	1	1788	1	ADAMTS8	11	130288995	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	11790032	130288995	4717521	164	90117											
JAM3	83700	broad.mit.edu	37	chr11	134014823	134014823	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgatgtaccactgcccacGgattccagagccaatcccag	12	7	8	14	1	0	2	0	1	0	1	2	3	2	3	5	1	3	1	5	1	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr11:134014823G>A	uc001qhb.1	+	5	705	c.681G>A	c.(679-681)ACG>ACA	p.T227T	JAM3_uc009zcz.1_Silent_p.T176T	NM_032801	NP_116190	Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3 precursor	182	Extracellular (Potential).|Ig-like C2-type.				angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		CACTGCCCACGGATTCCAGAG	0.512													7	34					0	0	0.00308	0	0		A	134014823	A	A	134014823	2	1	172	1	0	0	0	0	0	0	0	1	7960	1103	39	1		1	JAM3	11	134014823	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	3725828	134014823	991693	165	90118											
RECQL	5965	broad.mit.edu	37	chr12	21626568	21626568	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	aatgttgagccatcaacacaCgacgacatctgcaaacacat	16	7	6	12	2	2	1	1	1	1	0	2	3	2	1	1	0	4	2	1	0	3	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:21626568C>A	uc001rex.2	-	13	1712	c.1364G>T	c.(1363-1365)CGT>CTT	p.R455L	RECQL_uc001rey.2_Missense_Mutation_p.R455L	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	455					DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						CATCAACACACGACGACATCT	0.308								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					21	12					1.50039e-11	1.73641e-11	0.001882	1	0		A	21626568	A	A	21626568	3	1	172	1	0	0	0	0	1	0	0	0	13226	536	19	5	601	5	RECQL	12	21626568	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08		21626568	112225327	166	90119											
DENND5B	160518	broad.mit.edu	37	chr12	31586168	31586168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctgtgcagtggcactcCgacttacccagcgactgaaa	9	8	11	13	3	0	1	0	1	0	0	1	3	1	1	2	1	4	3	2	1	2	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:31586168C>T	uc001rki.1	-	8	2213	c.2027G>A	c.(2026-2028)CGG>CAG	p.R676Q	DENND5B_uc001rkh.1_Missense_Mutation_p.R711Q|DENND5B_uc009zjq.1_Intron|DENND5B_uc001rkj.2_Missense_Mutation_p.R698Q	NM_144973	NP_659410	Q6ZUT9	DEN5B_HUMAN	DENN/MADD domain containing 5B	676						integral to membrane				ovary(1)|central_nervous_system(1)	2						AGTGGCACTCCGACTTACCCA	0.448													9	133					0	0	0.000978	0	0		T	31586168	T	T	31586168	3	4	172	1	0	0	0	0	1	0	0	0	4443	652	23	1	1853	1	DENND5B	12	31586168	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	9959600	31586168	102265727	167	90120											
YARS2	51067	broad.mit.edu	37	chr12	32908614	32908614	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaactcgccgtgccacggtcGaagagctctgggagctctat	9	8	12	12	4	2	1	0	0	2	1	4	3	2	2	2	2	4	2	2	2	3	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:32908614G>A	uc001rli.2	-	1	261	c.195C>T	c.(193-195)TTC>TTT	p.F65F		NM_001040436	NP_001035526	Q9Y2Z4	SYYM_HUMAN	tyrosyl-tRNA synthetase 2, mitochondrial	65					tyrosyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|RNA binding|tyrosine-tRNA ligase activity				0	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)	TGCCACGGTCGAAGAGCTCTG	0.592											OREG0021729	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	138					0	0	0.004656	0	0		A	32908614	A	A	32908614	2	1	172	1	0	0	0	0	0	0	0	1	17494	1049	37	1		1	YARS2	12	32908614	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	1322446	32908614	100943281	168	90121											
PKP2	5318	broad.mit.edu	37	chr12	32994053	32994053	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggccacccagaaaaggggaTgatgatattctccgtcagcg	12	7	12	10	2	2	3	1	2	1	1	3	4	2	4	3	3	1	0	3	3	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:32994053T>C	uc001rlj.3	-	7	1712	c.1597A>G	c.(1597-1599)ATC>GTC	p.I533V	PKP2_uc001rlk.3_Missense_Mutation_p.I489V|PKP2_uc010skj.1_Missense_Mutation_p.I489V	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	533					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					GAAAAGGGGATGATGATATTC	0.418													5	130					0	0	0.001984	0	0		C	32994053	C	C	32994053	3	2	172	1	0	0	0	0	1	0	0	0	12004	1464	51	3	1080	3	PKP2	12	32994053	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	85439	32994053	100857842	169	90122											
LRRK2	120892	broad.mit.edu	37	chr12	40728856	40728856	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccggatgttggtgatggagTtagcctccaagggttccttg	6	12	14	9	1	0	1	0	1	0	0	2	3	2	3	4	4	1	3	4	4	2	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:40728856T>G	uc001rmg.3	+	40	5966	c.5845T>G	c.(5845-5847)TTA>GTA	p.L1949V	LRRK2_uc009zjw.2_Missense_Mutation_p.L787V|LRRK2_uc001rmi.2_Missense_Mutation_p.L782V	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1949	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				GGTGATGGAGTTAGCCTCCAA	0.542													40	31					0	0	0.006999	0	0		G	40728856	G	G	40728856	3	3	172	1	0	0	0	0	1	0	0	0	9051	1722	60	5	6003	5	LRRK2	12	40728856	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	7734803	40728856	93123039	170	90123											
MLL2	8085	broad.mit.edu	37	chr12	49443503	49443503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggggagctgcgccgccGccccttctccccctcagctt	2	8	12	19	3	2	0	1	0	1	0	3	1	2	1	6	3	3	3	6	3	0	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:49443503G>A	uc001rta.3	-	11	3868	c.3868C>T	c.(3868-3870)CGG>TGG	p.R1290W		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1290	Arg-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTGCGCCGCCGCCCCTTCTCC	0.587			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			22	71					0	0	0.010504	0	0		A	49443503	A	A	49443503	3	1	172	1	0	0	0	0	1	0	0	0	9639	1086	38	1	12921	1	MLL2	12	49443503	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	8714647	49443503	84408392	171	90124											
KRT71	112802	broad.mit.edu	37	chr12	52943836	52943836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtagtcctccactacGtcccgcacattcctcagctc	6	13	5	17	2	2	0	1	0	1	0	7	0	6	0	4	0	2	3	4	0	2	5	rs113716134		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:52943836G>A	uc001sao.2	-	2	703	c.633C>T	c.(631-633)GAC>GAT	p.D211D		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	211	Coil 1B.|Rod.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		CCTCCACTACGTCCCGCACAT	0.612													53	137					0	0	0.00361	0	0		A	52943836	A	A	52943836	2	1	172	1	0	0	0	0	0	0	0	1	8500	1136	40	1		1	KRT71	12	52943836	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	3500333	52943836	80908059	172	90125											
TENC1	23371	broad.mit.edu	37	chr12	53454673	53454673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaaggagtccagggggcCactcagatggcgccagtcct	10	5	15	11	1	1	1	1	0	0	1	3	3	3	3	4	5	0	0	4	5	1	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:53454673C>T	uc001sbp.2	+	20	3118	c.2983C>T	c.(2983-2985)CAC>TAC	p.H995Y	TENC1_uc001sbl.2_Missense_Mutation_p.H871Y|TENC1_uc001sbn.2_Missense_Mutation_p.H1005Y|TENC1_uc001sbq.2_Missense_Mutation_p.H393Y|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_Missense_Mutation_p.H490Y|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	995	Pro-rich.				intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						TCCAGGGGGCCACTCAGATGG	0.701													6	9					0	0	0.001168	0	0		T	53454673	T	T	53454673	3	4	172	1	0	0	0	0	1	0	0	0	15783	594	21	4	3170	4	TENC1	12	53454673	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	510837	53454673	80397222	173	90126											
LRP1	4035	broad.mit.edu	37	chr12	57605723	57605723	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctccagatatagcctccatCctaatccctctgctgttgct	7	13	5	16	0	1	1	0	0	1	1	5	1	5	1	6	0	3	3	6	0	3	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:57605723C>T	uc001snd.2	+	87	13738	c.13272C>T	c.(13270-13272)ATC>ATT	p.I4424I		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	4424	Helical; (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TAGCCTCCATCCTAATCCCTC	0.592													15	89					0	0	0.004007	0	0		T	57605723	T	T	57605723	2	4	172	1	0	0	0	0	0	0	0	1	8969	845	30	4		4	LRP1	12	57605723	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	4151050	57605723	76246172	174	90127											
C12orf12	196477	broad.mit.edu	37	chr12	91348076	91348076	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggtggtggcgcaggccGcggcctctgcggccccagcg	3	4	19	15	6	1	0	0	0	1	0	1	1	1	0	4	6	2	1	4	6	0	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:91348076G>A	uc001tbj.2	-	1	878	c.444C>T	c.(442-444)CGC>CGT	p.R148R		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	148										central_nervous_system(1)|pancreas(1)	2						GGCGCAGGCCGCGGCCTCTGC	0.697													5	31					0	0	0.000602	0	0		A	91348076	A	A	91348076	2	1	172	1	0	0	0	0	0	0	0	1	1679	1074	38	1		1	C12orf12	12	91348076	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	33742353	91348076	42503819	175	90128											
LUM	4060	broad.mit.edu	37	chr12	91502123	91502123	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgatcttattgttgtctaAgtagagagttagaagagaga	13	13	12	3	0	2	5	0	1	2	4	2	7	2	5	0	0	0	4	0	0	5	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:91502123A>C	uc001tbm.2	-	2	1023	c.634T>G	c.(634-636)TTA>GTA	p.L212V	LUM_uc001tbn.2_Intron	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	212	LRR 7.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						TTGTTGTCTAAGTAGAGAGTT	0.413													45	59					0	0	0.003214	0	0		C	91502123	C	C	91502123	3	2	172	1	0	0	0	0	1	0	0	0	9103	69	3	5	390	5	LUM	12	91502123	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	154047	91502123	42349772	176	90129											
GAS2L3	283431	broad.mit.edu	37	chr12	100995421	100995421	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatatgtttttaggtattAaagttaaggcagaaaaatta	18	14	8	1	0	0	1	0	0	0	1	0	2	0	1	0	2	0	4	0	2	10	8			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:100995421A>T	uc001thu.2	+	5	419	c.193A>T	c.(193-195)AAA>TAA	p.K65*	GAS2L3_uc009zty.2_Nonsense_Mutation_p.K65*|GAS2L3_uc001thv.2_5'UTR	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	65	CH.				cell cycle arrest					skin(1)	1						TTTAGGTATTAAAGTTAAGGC	0.269													22	119					0	0	0.010504	0	0		T	100995421	T	T	100995421	4	4	172	1	0	0	0	0	0	1	0	0	6263	363	13	5	203	5	GAS2L3	12	100995421	Nonsense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	9493298	100995421	32856474	177	90130											
GNPTAB	79158	broad.mit.edu	37	chr12	102155373	102155373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttgcataacaatccggtCaatcatgtgaggcatgtgag	11	12	10	8	1	3	2	2	2	1	0	4	2	4	2	1	2	2	2	1	2	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:102155373C>T	uc001tit.2	-	14	3063	c.2884G>A	c.(2884-2886)GAC>AAC	p.D962N		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	962					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						ACAATCCGGTCAATCATGTGA	0.383													24	62					0	0	0.003954	0	0		T	102155373	T	T	102155373	3	4	172	1	0	0	0	0	1	0	0	0	6560	826	29	4	918	4	GNPTAB	12	102155373	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1159952	102155373	31696522	178	90131											
RBM19	9904	broad.mit.edu	37	chr12	114390388	114390388	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggtgccaggaattccataAcatttttctgtgagaagaag	12	11	12	6	0	1	2	0	1	1	2	2	4	2	3	2	3	2	0	2	3	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr12:114390388A>T	uc009zwi.2	-	8	1073	c.929T>A	c.(928-930)GTT>GAT	p.V310D	RBM19_uc001tvn.3_Missense_Mutation_p.V310D|RBM19_uc001tvm.2_Missense_Mutation_p.V310D	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	310	RRM 2.				multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					GAATTCCATAACATTTTTCTG	0.408													23	40					0	0	0.003954	0	0		T	114390388	T	T	114390388	3	4	172	1	0	0	0	0	1	0	0	0	13146	43	2	5	2021	5	RBM19	12	114390388	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	12235015	114390388	19461507	179	90132											
PCDH17	27253	broad.mit.edu	37	chr13	58299162	58299162	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagcaagcagtcagtacTtgcccactgacagtcaatat	13	9	8	11	0	2	2	2	2	0	0	2	2	2	2	1	0	4	3	1	0	5	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr13:58299162T>C	uc001vhq.1	+	4	4106	c.3214T>C	c.(3214-3216)TTG>CTG	p.L1072L	PCDH17_uc010aec.1_Silent_p.L1071L|PCDH17_uc001vhr.1_Silent_p.L161L	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1072	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CAGTCAGTACTTGCCCACTGA	0.532													12	66					0	0	0.001368	0	0		C	58299162	C	C	58299162	2	2	172	1	0	0	0	0	0	0	0	1	11531	1606	56	3		3	PCDH17	13	58299162	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08		58299162	56870716	180	90133											
MYO16	23026	broad.mit.edu	37	chr13	109793645	109793645	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cctctcagcagccccctggaCgagctcgccagcctcttcaa	7	7	8	19	2	3	0	2	0	2	0	5	2	3	1	5	1	4	2	5	1	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr13:109793645C>T	uc001vqt.1	+	32	5145	c.5019C>T	c.(5017-5019)GAC>GAT	p.D1673D	MYO16_uc010agk.1_Silent_p.D1695D	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1673					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GCCCCCTGGACGAGCTCGCCA	0.667													6	20					0	0	0.001984	0	0		T	109793645	T	T	109793645	2	4	172	1	0	0	0	0	0	0	0	1	10082	535	19	1		1	MYO16	13	109793645	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	51494483	109793645	5376233	181	90134											
ATP11A	23250	broad.mit.edu	37	chr13	113512571	113512571	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggcatttttattacattagGatctctgagctcgtgcagta	9	15	10	7	1	1	1	0	1	1	0	3	2	1	2	0	2	3	4	0	2	4	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr13:113512571G>A	uc001vsi.3	+	22	2722	c.2634G>A	c.(2632-2634)AGG>AGA	p.R878R	ATP11A_uc001vsj.3_Silent_p.R878R|ATP11A_uc001vsm.1_Silent_p.R754R|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	878	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity	p.R878R(1)		large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				ATTACATTAGGATCTCTGAGC	0.522													4	54					0	0	0.009096	0	0		A	113512571	A	A	113512571	2	1	172	1	0	0	0	0	0	0	0	1	1120	1165	41	4		4	ATP11A	13	113512571	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	3718926	113512571	1657307	182	90135											
ATP4B	496	broad.mit.edu	37	chr13	114304735	114304735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctacctgggctttcttccCgtaataagggaagtagtgca	10	11	10	10	1	1	0	0	0	1	0	2	1	2	1	3	2	2	4	3	2	5	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr13:114304735C>T	uc001vtz.2	-	6	742	c.700G>A	c.(700-702)GGG>AGG	p.G234R		NM_000705	NP_000696	P51164	ATP4B_HUMAN	hydrogen/potassium-exchanging ATPase 4B	234	Extracellular (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	hydrogen:potassium-exchanging ATPase activity|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.00696)|all_epithelial(44;0.00347)|all_lung(25;0.0221)|Breast(118;0.0411)|Lung NSC(25;0.0839)	all cancers(43;0.171)		Rabeprazole(DB01129)	GCTTTCTTCCCGTAATAAGGG	0.577													32	43					0	0	0.002836	0	0		T	114304735	T	T	114304735	3	4	172	1	0	0	0	0	1	0	0	0	1147	652	23	1	183	1	ATP4B	13	114304735	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	792164	114304735	865143	183	90136											
OR4K2	390431	broad.mit.edu	37	chr14	20344477	20344477	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaatttgttttgctggggctCtctaattcctgggaactaca	8	15	10	8	0	1	0	0	0	1	0	3	2	2	1	1	3	3	3	1	3	4	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr14:20344477C>T	uc001vwh.1	+	1	51	c.51C>T	c.(49-51)CTC>CTT	p.L17L		NM_001005501	NP_001005501	Q8NGD2	OR4K2_HUMAN	olfactory receptor, family 4, subfamily K,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGCTGGGGCTCTCTAATTCCT	0.378													39	171					0	0	0.002852	0	0		T	20344477	T	T	20344477	2	4	172	1	0	0	0	0	0	0	0	1	11091	900	32	4		4	OR4K2	14	20344477	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08		20344477	87005063	184	90137											
OR4N5	390437	broad.mit.edu	37	chr14	20612797	20612797	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcttccatgaggaagttGttaagtcaacatatgttttg	13	14	9	5	0	1	1	1	1	0	0	2	2	2	2	1	1	2	4	1	1	5	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr14:20612797G>T	uc010tla.1	+	1	903	c.903G>T	c.(901-903)TTG>TTT	p.L301F		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		TGAGGAAGTTGTTAAGTCAAC	0.373													10	42					1.76689e-08	1.99259e-08	0.006214	1	0		T	20612797	T	T	20612797	3	4	172	1	0	0	0	0	1	0	0	0	11098	1368	48	5	905	5	OR4N5	14	20612797	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	268320	20612797	86736743	185	90138											
SLC7A8	23428	broad.mit.edu	37	chr14	23635621	23635621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggtgaccccgagttcagCatagcagagggctcccacaa	11	6	12	12	1	1	2	1	1	0	1	2	4	2	2	3	2	2	4	3	2	2	2	rs139927895	byFrequency	TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr14:23635621C>T	uc001wiz.2	-	2	1006	c.280G>A	c.(280-282)GCT>ACT	p.A94T	SLC7A8_uc010akj.2_Missense_Mutation_p.A94T	NM_012244	NP_036376	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (cationic amino acid	94					blood coagulation|cellular amino acid metabolic process|leukocyte migration|metal ion homeostasis|response to toxin	basolateral plasma membrane|cytoplasm|integral to plasma membrane	neutral amino acid transmembrane transporter activity|organic cation transmembrane transporter activity|peptide antigen binding|protein binding|toxin transporter activity			ovary(1)	1	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.00809)	L-Alanine(DB00160)|L-Glutamine(DB00130)|L-Phenylalanine(DB00120)	CCGAGTTCAGCATAGCAGAGG	0.552													41	153					0	0	0.00623	0	0		T	23635621	T	T	23635621	3	4	172	1	0	0	0	0	1	0	0	0	14729	710	25	2	1367	2	SLC7A8	14	23635621	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	3022824	23635621	83713919	186	90139											
C14orf39	317761	broad.mit.edu	37	chr14	60903742	60903742	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtaaagccatcttctcCttctggcttctcaagtaagt	11	14	6	10	0	4	0	1	0	4	0	6	0	4	0	2	1	1	3	2	1	5	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr14:60903742C>A	uc001xez.3	-	18	1695	c.1585G>T	c.(1585-1587)GGA>TGA	p.G529*	C14orf39_uc010apo.2_Nonsense_Mutation_p.G240*	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	529										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		CCATCTTCTCCTTCTGGCTTC	0.318													49	91					1.19451e-25	1.41963e-25	0.00361	1	0		A	60903742	A	A	60903742	4	1	172	1	0	0	0	0	0	1	0	0	1775	690	24	5	182	5	C14orf39	14	60903742	Nonsense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	37268121	60903742	46445798	187	90140											
OR4N4	283694	broad.mit.edu	37	chr15	22382668	22382668	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctatttatttctgggcaacTtggccttcctggatgcatcc	6	16	8	11	0	2	0	0	0	2	0	4	1	4	1	3	3	2	2	3	3	3	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr15:22382668T>C	uc001yuc.1	+	7	1177	c.196T>C	c.(196-198)TTG>CTG	p.L66L	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Silent_p.L66L	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TCTGGGCAACTTGGCCTTCCT	0.468													15	309					0	0	0.00278	0	0		C	22382668	C	C	22382668	2	2	172	1	0	0	0	0	0	0	0	1	11097	1606	56	3		3	OR4N4	15	22382668	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08		22382668	80148724	188	90141											
VPS39	23339	broad.mit.edu	37	chr15	42479994	42479994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtccttccagaaatagaGctgcagcttcttttttactg	8	15	7	11	0	1	2	0	0	1	2	3	2	3	2	3	0	4	3	3	0	3	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr15:42479994G>A	uc001zpd.2	-	7	587	c.436C>T	c.(436-438)CTC>TTC	p.L146F	VPS39_uc001zpc.2_Missense_Mutation_p.L135F	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	146	CNH.				protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-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;3.05e-06)		CAGAAATAGAGCTGCAGCTTC	0.493													64	131					0	0	0.00361	0	0		A	42479994	A	A	42479994	3	1	172	1	0	0	0	0	1	0	0	0	17235	971	34	2	2304	2	VPS39	15	42479994	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	20097326	42479994	60051398	189	90142											
TGM5	9333	broad.mit.edu	37	chr15	43552280	43552280	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggattgaaaagcaggatgaActcccctagctggtaggccg	11	7	14	9	1	0	2	0	2	0	0	1	4	1	4	3	4	3	3	3	4	5	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr15:43552280A>C	uc001zrd.1	-	3	414	c.406T>G	c.(406-408)TTC>GTC	p.F136V	TGM5_uc001zre.1_Intron	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	136					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	AGCAGGATGAACTCCCCTAGC	0.607													23	38					0	0	0.00333	0	0		C	43552280	C	C	43552280	3	2	172	1	0	0	0	0	1	0	0	0	15858	43	2	5	1800	5	TGM5	15	43552280	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1072286	43552280	58979112	190	90143											
SLTM	79811	broad.mit.edu	37	chr15	59192084	59192084	+	Silent	SNP	T	C	C	0	1	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	gcctcagctaggctcccttcTgaaggaagaggtttagatac	10	10	11	10	0	2	3	1	1	1	2	3	4	3	4	2	3	2	3	2	3	5	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr15:59192084T>C	uc002afp.2	-	7	730	c.642A>G	c.(640-642)TCA>TCG	p.S214S	SLTM_uc002afo.2_Splice_Site_p.E197_splice|SLTM_uc002afq.2_Intron|SLTM_uc010bgd.2_Intron|SLTM_uc002afr.1_Intron	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	214	Glu-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GGCTCCCTTCTGAAGGAAGAG	0.423													57	18					0	0	0.00361	0	0		C	59192084	C	C	59192084	2	2	172	1	0	0	0	0	0	0	0	1	14779	1594	55	3		3	SLTM	15	59192084	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	15639804	59192084	43339308	191	90144											
RORA	6095	broad.mit.edu	37	chr15	60806883	60806883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagcggtttctactggttCgatcaatcaaacagttcttc	9	13	9	10	2	4	0	2	0	2	0	6	1	4	0	0	3	3	4	0	3	3	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr15:60806883C>T	uc002agv.2	-	5	611	c.455G>A	c.(454-456)CGA>CAA	p.R152Q	uc002ags.1_Intron|RORA_uc002agt.3_Missense_Mutation_p.R64Q|RORA_uc002agw.2_Missense_Mutation_p.R144Q|RORA_uc002agx.2_Missense_Mutation_p.R119Q	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b	152	NR C4-type.|Nuclear receptor.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						TCTACTGGTTCGATCAATCAA	0.453													45	78					0	0	0.00361	0	0		T	60806883	T	T	60806883	3	4	172	1	0	0	0	0	1	0	0	0	13553	884	31	1	1247	1	RORA	15	60806883	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1614799	60806883	41724509	192	90145											
TMEM8A	58986	broad.mit.edu	37	chr16	427758	427758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcacagcatctgggggcacgCggaagcggaagagcctggca	10	3	17	11	3	1	1	0	0	1	1	1	3	1	3	1	5	3	4	1	5	2	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:427758C>T	uc002cgu.3	-	2	341	c.212G>A	c.(211-213)CGC>CAC	p.R71H	TMEM8A_uc002cgv.3_5'UTR	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	71	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						TGGGGGCACGCGGAAGCGGAA	0.672													3	11					0	0	0.009096	0	0		T	427758	T	T	427758	3	4	172	1	0	0	0	0	1	0	0	0	16239	768	27	1	2151	1	TMEM8A	16	427758	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08		427758	89926995	193	90146											
A2BP1	54715	broad.mit.edu	37	chr16	7703854	7703854	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagccaccgccgcggcCgcctaccgaggggcgcacct	6	2	13	20	6	0	0	0	0	0	0	0	1	0	0	8	3	3	2	8	3	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:7703854C>T	uc002cys.2	+	12	1783	c.795C>T	c.(793-795)GCC>GCT	p.A265A	A2BP1_uc010buf.1_Silent_p.A265A|A2BP1_uc002cyr.1_Silent_p.A264A|A2BP1_uc002cyt.2_Silent_p.A238A|A2BP1_uc010uxz.1_Silent_p.A308A|A2BP1_uc010uya.1_Silent_p.A222A|A2BP1_uc002cyv.1_Silent_p.A265A|A2BP1_uc010uyb.1_Silent_p.A265A|A2BP1_uc002cyw.2_Silent_p.A285A|A2BP1_uc002cyy.2_Silent_p.A285A|A2BP1_uc002cyx.2_Silent_p.A285A|A2BP1_uc010uyc.1_Silent_p.A258A	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	265					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CCGCCGCGGCCGCCTACCGAG	0.592													4	52					0	0	0.001168	0	0		T	7703854	T	T	7703854	2	4	172	1	0	0	0	0	0	0	0	1	3	639	23	1		1	A2BP1	16	7703854	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	7276096	7703854	82650899	194	90147											
DNAH3	55567	broad.mit.edu	37	chr16	21080793	21080793	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgccaaatttcctcccctcTtctggcatctgggctatgat	7	14	7	13	0	3	1	0	1	3	0	5	1	5	1	4	2	1	2	4	2	2	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:21080793T>A	uc010vbe.1	-	23	3324	c.3324A>T	c.(3322-3324)GAA>GAT	p.E1108D		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1108	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TCCTCCCCTCTTCTGGCATCT	0.433													11	96					0	0	0.000978	0	0		A	21080793	A	A	21080793	3	1	172	1	0	0	0	0	1	0	0	0	4609	1606	56	5	9185	5	DNAH3	16	21080793	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	13376939	21080793	69273960	195	90148											
COG7	91949	broad.mit.edu	37	chr16	23421679	23421679	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctccacaggtggctattAtcctaaacaaaacaaaaagc	16	8	6	11	0	1	0	0	0	1	0	3	0	2	0	2	2	3	2	2	2	8	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:23421679A>C	uc002dlo.2	-	11	1600	c.1412T>G	c.(1411-1413)ATA>AGA	p.I471R		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	471					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		GGTGGCTATTATCCTAAACAA	0.448													8	22					0	0	0.00308	0	0		C	23421679	C	C	23421679	3	2	172	1	0	0	0	0	1	0	0	0	3666	449	16	5	928	5	COG7	16	23421679	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	2340886	23421679	66933074	196	90149											
ASPHD1	253982	broad.mit.edu	37	chr16	29913170	29913170	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttcggcaatgccggcttttCcgttctcctgcctggggccc	2	12	11	16	3	1	0	0	0	1	0	4	0	2	0	5	4	2	3	5	4	1	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:29913170C>G	uc002dut.2	+	1	1024	c.878C>G	c.(877-879)TCC>TGC	p.S293C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_5'Flank|SEZ6L2_uc002dur.3_5'Flank|SEZ6L2_uc002duq.3_5'Flank|SEZ6L2_uc002dus.3_5'Flank|SEZ6L2_uc010vec.1_5'Flank|SEZ6L2_uc010ved.1_5'Flank|ASPHD1_uc002duu.3_RNA|ASPHD1_uc010bzi.2_RNA	NM_181718	NP_859069	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	293	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity				0						GCCGGCTTTTCCGTTCTCCTG	0.652													3	44					0	0	0.004672	0	0		G	29913170	G	G	29913170	3	3	172	1	0	0	0	0	1	0	0	0	1055	855	30	5	880	5	ASPHD1	16	29913170	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	6491491	29913170	60441583	197	90150											
TRIM72	493829	broad.mit.edu	37	chr16	31232220	31232220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttctctctctccagaaaTactgcctggtgaccagcagg	8	13	8	12	0	2	2	0	1	2	1	5	2	3	2	3	2	3	1	3	2	2	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:31232220T>C	uc002ebn.1	+	5	950	c.721T>C	c.(721-723)TAC>CAC	p.Y241H		NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	241					exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						TCTCCAGAAATACTGCCTGGT	0.542													28	116					0	0	0.007291	0	0		C	31232220	C	C	31232220	3	2	172	1	0	0	0	0	1	0	0	0	16571	1406	49	3	735	3	TRIM72	16	31232220	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	1319050	31232220	59122533	198	90151											
CNGB1	1258	broad.mit.edu	37	chr16	57953078	57953078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacttgcagcagagcatgtCgcaatagtgctcctcttcca	10	10	9	12	1	1	1	0	0	1	1	4	2	3	1	2	0	5	5	2	0	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:57953078C>T	uc002emt.2	-	20	1947	c.1882G>A	c.(1882-1884)GAC>AAC	p.D628N	CNGB1_uc010cdh.2_Missense_Mutation_p.D622N	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	628	Cytoplasmic (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						CAGAGCATGTCGCAATAGTGC	0.577													28	37					0	0	0.007291	0	0		T	57953078	T	T	57953078	3	4	172	1	0	0	0	0	1	0	0	0	3603	884	31	1	1929	1	CNGB1	16	57953078	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	26720858	57953078	32401675	199	90152											
FTSJD1	55783	broad.mit.edu	37	chr16	71318662	71318662	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attcagcttttcttgttccgCctttcccatgcactcaaata	8	16	4	13	1	3	0	2	0	1	0	5	0	5	0	3	0	2	3	3	0	2	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr16:71318662C>A	uc010cga.2	-	3	1568	c.1162G>T	c.(1162-1164)GCG>TCG	p.A388S	FTSJD1_uc002ezy.3_Missense_Mutation_p.A388S|FTSJD1_uc002ezz.3_Missense_Mutation_p.A388S	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	388						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						TCTTGTTCCGCCTTTCCCATG	0.313													5	14					1.024e-07	1.14643e-07	0.000602	1	0		A	71318662	A	A	71318662	3	1	172	1	0	0	0	0	1	0	0	0	6104	739	26	5	1154	5	FTSJD1	16	71318662	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	13365584	71318662	19036091	200	90153											
PRPF8	10594	broad.mit.edu	37	chr17	1562830	1562830	+	Silent	SNP	G	A	A	0	0	1	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	tatttctgggtggtggtgctGtccatcacatccctgaggat	6	14	12	9	0	2	1	1	1	1	0	4	2	4	2	2	4	1	1	2	4	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr17:1562830G>A	uc002fte.2	-	32	5073	c.4959C>T	c.(4957-4959)GAC>GAT	p.D1653D		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	1653						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TGGTGGTGCTGTCCATCACAT	0.517													28	24					0	0	0.004656	0	0		A	1562830	A	A	1562830	2	1	172	1	0	0	0	0	0	0	0	1	12597	1368	48	4		4	PRPF8	17	1562830	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08		1562830	79632380	201	90154											
TP53	7157	broad.mit.edu	37	chr17	7573993	7573994	+	Frame_Shift_Ins	INS	-	TCAGC	TCAGC																															cttgagttccaaggcctcatINStcagctctcggaacatctcg																										TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr17:7573993_7573994insTCAGC	uc002gim.2	-	10	1227_1228	c.1033_1034insGCTGA	c.(1033-1035)AATfs	p.N345fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Frame_Shift_Ins_p.N213fs|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Frame_Shift_Ins_p.N345fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	345	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.				activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.N345fs*25(3)|p.L344fs*23(2)|p.L344fs*22(1)|p.?(1)|p.R342_N345delRELN(1)|p.I332fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAAGGCCTCATTCAGCTCTCGG	0.53		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	24	---	---	---	---						.	TCAGC	7573994	TCAGC	TCAGC	7573993	7	5	172	1	0	1	1	0	0	0	0	0	16407	1493	52	0	155	0	TP53	17	7573993	Frame_Shift_Ins	INS	-	TCGA-D7-6526-01A-11D-1800-08	6011163	7573993	73621217	202	90155											
TRIM16	10626	broad.mit.edu	37	chr17	15539554	15539554	+	Silent	SNP	A	G	G	1	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	agttccccaaactgcatttcAgccaccgctttgacctctga	9	11	6	15	1	2	2	1	2	1	0	3	2	3	2	5	0	3	3	5	0	1	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr17:15539554A>G	uc002gox.2	-	6	1202	c.645T>C	c.(643-645)GCT>GCC	p.A215A	TRIM16_uc002gor.1_Silent_p.A215A|TRIM16_uc002gow.2_5'UTR|TRIM16_uc002goy.2_Silent_p.A85A	NM_006470	NP_006461	O95361	TRI16_HUMAN	tripartite motif-containing 16	215					histone H3 acetylation|histone H4 acetylation|positive regulation of interleukin-1 beta secretion|positive regulation of keratinocyte differentiation|positive regulation of retinoic acid receptor signaling pathway|positive regulation of transcription, DNA-dependent|response to growth hormone stimulus|response to organophosphorus|response to retinoic acid	cytoplasm|plasma membrane|PML body	DNA binding|interleukin-1 binding|NACHT domain binding|zinc ion binding			ovary(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (92;0.0839)|Epithelial(1;8.4e-29)|all cancers(1;3.06e-28)|Colorectal(1;1.57e-19)|OV - Ovarian serous cystadenocarcinoma(1;6.1e-17)|COAD - Colon adenocarcinoma(1;3.38e-12)|READ - Rectum adenocarcinoma(2;1.46e-05)|BRCA - Breast invasive adenocarcinoma(8;0.0559)		ACTGCATTTCAGCCACCGCTT	0.552													3	73					0	0	0.004672	0	0		G	15539554	G	G	15539554	2	3	172	1	0	0	0	0	0	0	0	1	16517	175	7	3		3	TRIM16	17	15539554	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	7965561	15539554	65655656	203	90156											
KIAA0100	9703	broad.mit.edu	37	chr17	26961094	26961094	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aacaggtaccgtggatagtcCctgatccgaactgttaccag	11	9	10	11	2	0	1	0	1	0	0	2	3	2	2	4	2	4	2	4	2	5	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr17:26961094C>T	uc002hbu.2	-	17	3180	c.3081G>A	c.(3079-3081)AGG>AGA	p.R1027R		NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	1027						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					GTGGATAGTCCCTGATCCGAA	0.557													13	18					0	0	0.003163	0	0		T	26961094	T	T	26961094	2	4	172	1	0	0	0	0	0	0	0	1	8170	622	22	4		4	KIAA0100	17	26961094	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	11421540	26961094	54234116	204	90157											
SYNRG	11276	broad.mit.edu	37	chr17	35945511	35945511	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttttctttcttcttctaaGagtttttgctgctgttcaaa	6	22	5	8	0	5	1	1	0	4	1	5	1	5	1	0	0	2	4	0	0	2	9			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr17:35945511G>A	uc002hoa.2	-	5	482	c.399C>T	c.(397-399)CTC>CTT	p.L133L	SYNRG_uc010wde.1_Silent_p.L133L|SYNRG_uc010wdf.1_Silent_p.L133L|SYNRG_uc002hoc.2_Silent_p.L132L|SYNRG_uc002hoe.2_Silent_p.L133L|SYNRG_uc002hod.2_Silent_p.L133L|SYNRG_uc010wdg.1_Silent_p.L133L|SYNRG_uc002hob.2_Silent_p.L133L|SYNRG_uc002hog.1_Silent_p.L166L|SYNRG_uc010wdh.1_Silent_p.L133L	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1	133	Potential.				endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						CTTCTTCTAAGAGTTTTTGCT	0.368													16	151					0	0	0.00499	0	0		A	35945511	A	A	35945511	2	1	172	1	0	0	0	0	0	0	0	1	15485	929	33	4		4	SYNRG	17	35945511	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	8984417	35945511	45249699	205	90158											
CWC25	54883	broad.mit.edu	37	chr17	36977249	36977249	+	Silent	SNP	A	C	C	1	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	tcctcaatcttcttccgctcAgcctcatgcttctgctcggc	4	14	6	17	2	6	0	3	0	3	0	9	0	8	0	3	1	3	3	3	1	1	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr17:36977249A>C	uc002hqu.2	-	2	249	c.96T>G	c.(94-96)GCT>GCG	p.A32A	CWC25_uc010wdv.1_5'UTR|CWC25_uc010wdx.1_RNA	NM_017748	NP_060218	Q9NXE8	CWC25_HUMAN	coiled-coil domain containing 49	32	Potential.										0						TCTTCCGCTCAGCCTCATGCT	0.547													19	353					0	0	0.007413	0	0		C	36977249	C	C	36977249	2	2	172	1	0	0	0	0	0	0	0	1	4072	175	7	5		5	CWC25	17	36977249	Silent	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1031738	36977249	44217961	206	90159											
EPN3	55040	broad.mit.edu	37	chr17	48618642	48618642	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagaatccacagagacCaaggaggggctggagcaggc	12	3	14	12	0	0	2	0	0	0	2	2	5	2	4	4	5	1	2	4	5	2	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr17:48618642C>A	uc002ira.3	+	8	1737	c.1302C>A	c.(1300-1302)ACC>ACA	p.T434T	SPATA20_uc002irc.2_5'Flank|EPN3_uc010wms.1_Silent_p.T462T|EPN3_uc010wmt.1_RNA|EPN3_uc010wmu.1_Silent_p.T407T	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	434						clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			CCACAGAGACCAAGGAGGGGC	0.612													50	143					3.81248e-40	4.56611e-40	0.00361	1	0		A	48618642	A	A	48618642	2	1	172	1	0	0	0	0	0	0	0	1	5195	581	21	5		5	EPN3	17	48618642	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	11641393	48618642	32576568	207	90160											
EPB41L3	23136	broad.mit.edu	37	chr18	5489118	5489118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgcccctgcgcccccgccGcctcctggggctcggcctcc	0	5	12	24	6	0	0	0	0	0	0	3	0	2	0	9	3	1	1	9	3	0	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr18:5489118G>A	uc002kmt.1	-	2	151	c.65C>T	c.(64-66)GCG>GTG	p.A22V	EPB41L3_uc010wzh.1_Missense_Mutation_p.A22V|EPB41L3_uc002kmu.1_Missense_Mutation_p.A22V|EPB41L3_uc010dkq.1_5'UTR|EPB41L3_uc010dks.1_Missense_Mutation_p.A44V|EPB41L3_uc002kmv.1_5'UTR	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	22					cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						cgcccccgccgccTCCTGGGG	0.517													12	20					0	0	0.000978	0	0		A	5489118	A	A	5489118	3	1	172	1	0	0	0	0	1	0	0	0	5162	1087	38	1	3282	1	EPB41L3	18	5489118	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08		5489118	72588130	208	90161											
LAMA1	284217	broad.mit.edu	37	chr18	7017344	7017344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agagcccggtctcaagatggCacacggcagaatgggagcct	11	5	14	11	2	1	3	1	0	1	3	2	4	1	4	2	4	2	2	2	4	2	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr18:7017344C>T	uc002knm.2	-	20	2835	c.2741G>A	c.(2740-2742)TGC>TAC	p.C914Y	LAMA1_uc010wzj.1_Missense_Mutation_p.C390Y	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	914	Laminin EGF-like 9.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTCAAGATGGCACACGGCAGA	0.478													6	40					0	0	0.00308	0	0		T	7017344	T	T	7017344	3	4	172	1	0	0	0	0	1	0	0	0	8621	710	25	2	6662	2	LAMA1	18	7017344	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	1528226	7017344	71059904	209	90162											
ASXL3	80816	broad.mit.edu	37	chr18	31323104	31323104	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagggtggaaagacgagaActctggcacacatcaaagag	16	4	14	7	1	2	4	1	0	1	4	2	7	2	5	0	3	1	1	0	3	3	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr18:31323104A>C	uc010dmg.1	+	12	3347	c.3292A>C	c.(3292-3294)ACT>CCT	p.T1098P	ASXL3_uc002kxq.2_Missense_Mutation_p.T805P	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1098					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						AAAGACGAGAACTCTGGCACA	0.572													5	34					0	0	0.000602	0	0		C	31323104	C	C	31323104	3	2	172	1	0	0	0	0	1	0	0	0	1069	43	2	5	3338	5	ASXL3	18	31323104	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	24305760	31323104	46754144	210	90163											
CBLN2	147381	broad.mit.edu	37	chr18	70209211	70209211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcacaccaccaggcacttgCcctccagcacgatgggctcc	8	5	9	19	2	0	0	0	0	0	0	2	1	2	0	5	2	2	4	5	2	0	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr18:70209211C>T	uc002lku.2	-	2	420	c.185G>A	c.(184-186)GGC>GAC	p.G62D	CBLN2_uc002lkv.2_Missense_Mutation_p.G62D	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	62						integral to membrane					0		Esophageal squamous(42;0.131)				CAGGCACTTGCCCTCCAGCAC	0.716													4	14					0	0	0.000602	0	0		T	70209211	T	T	70209211	3	4	172	1	0	0	0	0	1	0	0	0	2708	739	26	2	501	2	CBLN2	18	70209211	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	38886107	70209211	7868037	211	90164											
ZNF98	148198	broad.mit.edu	37	chr19	22585671	22585671	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaggtgatcaggtctggcTtagaggcagcaatacctgtt	10	10	13	8	0	2	2	1	1	1	1	2	3	2	2	1	4	2	4	1	4	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:22585671T>C	uc002nqt.2	-	3	295	c.173A>G	c.(172-174)AAG>AGG	p.K58R		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	58	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				CAGGTCTGGCTTAGAGGCAGC	0.398													54	104					0	0	0.00361	0	0		C	22585671	C	C	22585671	3	2	172	1	0	0	0	0	1	0	0	0	18228	1609	56	3	1553	3	ZNF98	19	22585671	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08		22585671	36543312	212	90165											
ZNF536	9745	broad.mit.edu	37	chr19	30935982	30935982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaatccagctgcatcgagCggctgcaggcggctgccaag	9	6	14	12	3	0	1	0	1	0	0	2	2	1	1	2	3	5	5	2	3	2	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:30935982C>T	uc002nsu.1	+	2	1651	c.1513C>T	c.(1513-1515)CGG>TGG	p.R505W	ZNF536_uc010edd.1_Missense_Mutation_p.R505W	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	505					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CTGCATCGAGCGGCTGCAGGC	0.647													142	113					0	0	0.00361	0	0		T	30935982	T	T	30935982	3	4	172	1	0	0	0	0	1	0	0	0	17999	759	27	1	1515	1	ZNF536	19	30935982	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	8350311	30935982	28193001	213	90166											
FFAR3	2865	broad.mit.edu	37	chr19	35850657	35850657	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttccaagccgactttcatGagctgctgaggaggttgtgt	7	12	14	8	1	1	2	1	2	0	0	2	4	2	3	2	3	3	4	2	3	1	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:35850657G>T	uc002nzd.2	+	2	940	c.865G>T	c.(865-867)GAG>TAG	p.E289*	FFAR3_uc010xsu.1_Intron	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	289	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			CGACTTTCATGAGCTGCTGAG	0.607													12	214					9.05144e-12	1.05146e-11	0.001855	1	0		T	35850657	T	T	35850657	4	4	172	1	0	0	0	0	0	1	0	0	5843	1291	45	5	867	5	FFAR3	19	35850657	Nonsense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	4914675	35850657	23278326	214	90167											
FFAR2	2867	broad.mit.edu	37	chr19	35941123	35941123	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctacgagaacttcacCgataaccagttggacgtggt	11	9	10	11	3	1	1	1	0	0	1	1	4	1	2	3	2	4	2	3	2	3	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:35941123C>T	uc002nzg.2	+	2	587	c.507C>T	c.(505-507)ACC>ACT	p.T169T	FFAR2_uc010eea.2_Silent_p.T169T	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	169	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			AGAACTTCACCGATAACCAGT	0.522													28	177					0	0	0.005443	0	0		T	35941123	T	T	35941123	2	4	172	1	0	0	0	0	0	0	0	1	5842	639	23	1		1	FFAR2	19	35941123	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	90466	35941123	23187860	215	90168											
ZNF568	374900	broad.mit.edu	37	chr19	37441191	37441191	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgaatgtcatctgttacgcTacatatgagaagtcacacag	13	11	8	9	2	3	1	2	1	1	1	4	3	3	1	0	0	2	2	0	0	5	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:37441191T>C	uc002ofc.2	+	7	1651	c.1136T>C	c.(1135-1137)CTA>CCA	p.L379P	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.L303P|ZNF568_uc010efe.2_Missense_Mutation_p.L303P|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	379	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCTGTTACGCTACATATGAGA	0.358													38	153					0	0	0.006999	0	0		C	37441191	C	C	37441191	3	2	172	1	0	0	0	0	1	0	0	0	18024	1522	53	3	1154	3	ZNF568	19	37441191	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	1500068	37441191	21687792	216	90169											
SNRPA	6626	broad.mit.edu	37	chr19	41263268	41263268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctgtacgccatcttctcCcagtttggccagatcctgga	6	12	8	15	1	2	1	0	0	2	1	5	2	4	2	5	2	1	2	5	2	1	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:41263268C>T	uc002ooz.2	+	2	640	c.105C>T	c.(103-105)TCC>TCT	p.S35S	SNRPA_uc002opa.2_5'UTR	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	35	RRM 1.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			CCATCTTCTCCCAGTTTGGCC	0.527													65	21					0	0	0.00361	0	0		T	41263268	T	T	41263268	2	4	172	1	0	0	0	0	0	0	0	1	14884	610	22	4		4	SNRPA	19	41263268	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	3822077	41263268	17865715	217	90170											
ZFP112	7771	broad.mit.edu	37	chr19	44832192	44832192	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctttctccagaatggacactCtgatgactctgaaggtatga	11	12	9	9	0	3	5	0	4	3	1	4	6	3	6	1	2	0	1	1	2	3	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:44832192C>G	uc010ejj.2	-	5	2249	c.2136G>C	c.(2134-2136)CAG>CAC	p.Q712H	ZFP112_uc002ozc.3_Missense_Mutation_p.Q706H|ZFP112_uc010xwy.1_Missense_Mutation_p.Q729H|ZFP112_uc010xwz.1_Missense_Mutation_p.Q711H	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	712	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						AATGGACACTCTGATGACTCT	0.463													4	110					0	0	0.009096	0	0		G	44832192	G	G	44832192	3	3	172	1	0	0	0	0	1	0	0	0	17663	912	32	5	609	5	ZFP112	19	44832192	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	3568924	44832192	14296791	218	90171											
FTL	2512	broad.mit.edu	37	chr19	49469092	49469092	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcttccgcgaattggcCgaggagaagcgcgagggcta	9	7	14	11	5	1	1	0	0	1	1	2	5	2	1	2	3	1	1	2	3	3	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:49469092C>G	uc002plo.2	+	2	367	c.168C>G	c.(166-168)GCC>GCG	p.A56A	FTL_uc002pln.1_Silent_p.A56A	NM_000146	NP_000137	P02792	FRIL_HUMAN	ferritin, light polypeptide	56	Ferritin-like diiron.|Catalytic site for iron oxidation.				cell death|cellular iron ion homeostasis|cellular membrane organization|iron ion transport|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|identical protein binding|oxidoreductase activity				0		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000152)|all cancers(93;0.000435)|GBM - Glioblastoma multiforme(486;0.0171)|Epithelial(262;0.0267)	Iron Dextran(DB00893)	GCGAATTGGCCGAGGAGAAGC	0.572													76	33					0	0	0.00361	0	0		G	49469092	G	G	49469092	2	3	172	1	0	0	0	0	0	0	0	1	6098	639	23	5		5	FTL	19	49469092	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	4636900	49469092	9659891	219	90172											
ZNF614	80110	broad.mit.edu	37	chr19	52519689	52519689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtgggagcgctgatgtaCaatgagattgctcttcacgg	8	12	14	7	2	2	2	1	2	1	1	2	4	2	3	0	2	3	3	0	2	2	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:52519689C>T	uc002pyj.2	-	5	1564	c.1162G>A	c.(1162-1164)GTA>ATA	p.V388I	ZNF614_uc002pyi.3_Intron|ZNF614_uc010epj.2_Missense_Mutation_p.V91I	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	388	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		CGCTGATGTACAATGAGATTG	0.443													133	65					0	0	0.00361	0	0		T	52519689	T	T	52519689	3	4	172	1	0	0	0	0	1	0	0	0	18064	478	17	4	599	4	ZNF614	19	52519689	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	3050597	52519689	6609294	220	90173											
ZNF320	162967	broad.mit.edu	37	chr19	53384221	53384221	+	Silent	SNP	T	A	A	0	1	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	accttgccacattcattacaTgtgtaaggtctctctccagt	9	14	6	12	0	3	0	1	0	2	0	5	0	3	0	3	1	2	1	3	1	2	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:53384221T>A	uc002qag.2	-	4	1349	c.1158A>T	c.(1156-1158)ACA>ACT	p.T386T	ZNF320_uc010eqh.1_5'Flank|ZNF320_uc010eqi.1_Intron|ZNF320_uc002qah.2_Silent_p.T332T|ZNF320_uc002qai.2_Silent_p.T386T	NM_207333	NP_997216	A2RRD8	ZN320_HUMAN	zinc finger protein 320	386	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0534)		ATTCATTACATGTGTAAGGTC	0.403													20	98					0	0	0.008871	0	0		A	53384221	A	A	53384221	2	1	172	1	0	0	0	0	0	0	0	1	17864	1451	51	5		5	ZNF320	19	53384221	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	864532	53384221	5744762	221	90174											
ZNF665	79788	broad.mit.edu	37	chr19	53668541	53668541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcattcattacatttgaaaGgcttttctccggtatggatg	9	15	9	8	2	2	1	1	1	1	0	3	2	2	2	1	3	1	3	1	3	3	6			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:53668541G>A	uc010eqm.1	-	4	1302	c.1202C>T	c.(1201-1203)CCT>CTT	p.P401L		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	336					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		ACATTTGAAAGGCTTTTCTCC	0.393													10	59					0	0	0.006214	0	0		A	53668541	A	A	53668541	3	1	172	1	0	0	0	0	1	0	0	0	18098	1000	35	4	838	4	ZNF665	19	53668541	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	284320	53668541	5460442	222	90175											
CACNG8	59283	broad.mit.edu	37	chr19	54483128	54483128	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcctcccccgcaggagttgtCcgggcctccagcatcttccc	4	9	9	19	2	1	0	0	0	1	0	6	1	6	1	7	2	1	3	7	2	0	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:54483128C>T	uc002qcs.1	+	3	478	c.372C>T	c.(370-372)GTC>GTT	p.V124V	MIR935_hsa-mir-935|MI0005757_5'Flank	NM_031895	NP_114101	Q8WXS5	CCG8_HUMAN	voltage-dependent calcium channel gamma-8	125					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic density|postsynaptic membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(19;0.0385)|all_epithelial(19;0.0207)|all_lung(19;0.145)|Lung NSC(19;0.168)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.162)		CAGGAGTTGTCCGGGCCTCCA	0.682													4	31					0	0	0.001984	0	0		T	54483128	T	T	54483128	2	4	172	1	0	0	0	0	0	0	0	1	2566	842	30	4		4	CACNG8	19	54483128	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	814587	54483128	4645855	223	90176											
PEG3	5178	broad.mit.edu	37	chr19	57325987	57325987	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtctctcttcggtctgacTtctctgaaactcagtgaggg	7	13	11	10	1	5	3	1	3	4	0	8	4	5	3	0	2	1	0	0	2	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:57325987T>C	uc002qnu.2	-	7	4174	c.3823A>G	c.(3823-3825)AGT>GGT	p.S1275G	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.S1246G|PEG3_uc002qnv.2_Missense_Mutation_p.S1275G|PEG3_uc002qnw.2_Missense_Mutation_p.S1151G|PEG3_uc002qnx.2_Missense_Mutation_p.S1149G|PEG3_uc010etr.2_Missense_Mutation_p.S1275G	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1275					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TCGGTCTGACTTCTCTGAAAC	0.463													10	53					0	0	0.001855	0	0		C	57325987	C	C	57325987	3	2	172	1	0	0	0	0	1	0	0	0	11739	1609	56	3	947	3	PEG3	19	57325987	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	2842859	57325987	1802996	224	90177											
ZNF549	256051	broad.mit.edu	37	chr19	58048765	58048765	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacttccctggcagaaaccTtatacgtctgtggccagtgg	9	10	10	12	1	1	1	0	0	1	1	2	1	2	1	3	3	2	1	3	3	3	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:58048765T>G	uc002qpb.1	+	4	642	c.393T>G	c.(391-393)CCT>CCG	p.P131P	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Silent_p.P118P	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	131	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GGCAGAAACCTTATACGTCTG	0.468													78	35					0	0	0.00361	0	0		G	58048765	G	G	58048765	2	3	172	1	0	0	0	0	0	0	0	1	18006	1596	56	5		5	ZNF549	19	58048765	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	722778	58048765	1080218	225	90178											
ZNF549	256051	broad.mit.edu	37	chr19	58048993	58048993	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaccacccacagcagacaAgagtatgcacatagaagcag	17	3	9	12	0	0	4	0	0	0	4	0	4	0	4	2	0	3	4	2	0	4	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr19:58048993A>T	uc002qpb.1	+	4	870	c.621A>T	c.(619-621)CAA>CAT	p.Q207H	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Missense_Mutation_p.Q194H	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	207					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACAGCAGACAAGAGTATGCAC	0.438													7	50					0	0	0.00308	0	0		T	58048993	T	T	58048993	3	4	172	1	0	0	0	0	1	0	0	0	18006	69	3	5	592	5	ZNF549	19	58048993	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	228	58048993	1079990	226	90179											
PLCB1	23236	broad.mit.edu	37	chr20	8719977	8719977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtaaattcattggccacCgtatcttgccagtgcaagcc	10	10	10	11	1	2	0	1	0	1	0	2	1	2	0	4	2	3	3	4	2	4	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr20:8719977C>T	uc002wnb.2	+	21	2281	c.2278C>T	c.(2278-2280)CGT>TGT	p.R760C	PLCB1_uc010zrb.1_Missense_Mutation_p.R659C|PLCB1_uc002wna.2_Missense_Mutation_p.R760C|PLCB1_uc002wnc.1_Missense_Mutation_p.R659C|PLCB1_uc002wnd.1_Missense_Mutation_p.R337C	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	760	C2.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						CATTGGCCACCGTATCTTGCC	0.413													17	53					0	0	0.006122	0	0		T	8719977	T	T	8719977	3	4	172	1	0	0	0	0	1	0	0	0	12046	652	23	1	2360	1	PLCB1	20	8719977	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08		8719977	54305543	227	90180											
C20orf26	26074	broad.mit.edu	37	chr20	20054980	20054980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttcatgcacctctttgtggCcgtggatgagtattctgttg	5	16	12	8	1	3	1	1	1	2	0	3	2	3	2	2	2	1	4	2	2	1	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr20:20054980C>T	uc002wru.2	+	4	405	c.329C>T	c.(328-330)GCC>GTC	p.A110V	C20orf26_uc010gcw.1_Missense_Mutation_p.A64V|C20orf26_uc010zse.1_Missense_Mutation_p.A110V|C20orf26_uc010zsf.1_Missense_Mutation_p.A110V	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	110										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		CTCTTTGTGGCCGTGGATGAG	0.488													42	100					0	0	0.002852	0	0		T	20054980	T	T	20054980	3	4	172	1	0	0	0	0	1	0	0	0	2109	739	26	2	339	2	C20orf26	20	20054980	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	11335003	20054980	42970540	228	90181											
SLC35C2	51006	broad.mit.edu	37	chr20	44983860	44983860	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggcgatgaggaggacCaccaggaccagtgccgcgcg	8	2	15	16	5	0	1	0	1	0	0	0	5	0	4	6	4	1	0	6	4	0	0			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr20:44983860C>G	uc002xro.2	-	6	970	c.429G>C	c.(427-429)GTG>GTC	p.V143V	SLC35C2_uc002xrp.2_Intron|SLC35C2_uc002xrq.2_Silent_p.V143V|SLC35C2_uc002xrr.2_Silent_p.V143V|SLC35C2_uc010zxn.1_Intron|SLC35C2_uc010zxo.1_Silent_p.V29V|SLC35C2_uc010zxp.1_Silent_p.V172V	NM_173179	NP_775271	Q9NQQ7	S35C2_HUMAN	solute carrier family 35, member C2 isoform a	143	Helical; (Potential).				transport	integral to membrane				ovary(1)	1		Myeloproliferative disorder(115;0.0122)				TGAGGAGGACCACCAGGACCA	0.612													12	29					0	0	0.001855	0	0		G	44983860	G	G	44983860	2	3	172	1	0	0	0	0	0	0	0	1	14605	581	21	5		5	SLC35C2	20	44983860	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	24928880	44983860	18041660	229	90182											
CBLN4	140689	broad.mit.edu	37	chr20	54573661	54573661	+	Silent	SNP	T	C	C	0	1	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	aacgtggaatactgccagccTccaaccaaattacctttctc	12	10	5	14	1	1	0	0	0	1	0	3	1	2	1	5	1	6	0	5	1	6	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr20:54573661T>C	uc002xxa.2	-	3	1343	c.558A>G	c.(556-558)GGA>GGG	p.G186G		NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor	186	C1q.					cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			ACTGCCAGCCTCCAACCAAAT	0.458													15	53					0	0	0.004007	0	0		C	54573661	C	C	54573661	2	2	172	1	0	0	0	0	0	0	0	1	2710	1538	54	3		3	CBLN4	20	54573661	Silent	SNP	T	TCGA-D7-6526-01A-11D-1800-08	9589801	54573661	8451859	230	90183											
GAB4	128954	broad.mit.edu	37	chr22	17473066	17473066	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaaccagcgtttcctccaggCctaaggaaggagtaagaaga	15	6	11	9	1	0	2	0	0	0	2	2	4	2	4	4	3	2	2	4	3	5	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr22:17473066C>G	uc002zlw.2	-	2	283	c.175G>C	c.(175-177)GCC>CCC	p.A59P	GAB4_uc010gqs.1_Missense_Mutation_p.A59P	NM_001037814	NP_001032903	Q2WGN9	GAB4_HUMAN	GRB2-associated binding protein family, member	59	PH.									large_intestine(1)|ovary(1)	2		all_epithelial(15;0.112)|Lung NSC(13;0.248)				TTCCTCCAGGCCTAAGGAAGG	0.493													26	106					0	0	0.005443	0	0		G	17473066	G	G	17473066	3	3	172	1	0	0	0	0	1	0	0	0	6165	753	26	5	1585	5	GAB4	22	17473066	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08		17473066	33831500	231	90184											
FBLN1	2192	broad.mit.edu	37	chr22	45928994	45928994	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgggtgacgaggtggtctGctcctgcttcgtgggctacc	4	10	15	12	3	1	1	0	1	1	0	3	2	2	1	2	4	3	3	2	4	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chr22:45928994G>T	uc003bgj.1	+	6	743	c.596G>T	c.(595-597)TGC>TTC	p.C199F	FBLN1_uc003bgg.1_Missense_Mutation_p.C199F|FBLN1_uc003bgh.2_Missense_Mutation_p.C199F|FBLN1_uc010gzz.2_Missense_Mutation_p.C237F|FBLN1_uc003bgi.1_Missense_Mutation_p.C199F	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	199	EGF-like 1.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GAGGTGGTCTGCTCCTGCTTC	0.637													8	18					5.18039e-06	5.75806e-06	0.00308	1	0		T	45928994	T	T	45928994	3	4	172	1	0	0	0	0	1	0	0	0	5712	1319	46	5	618	5	FBLN1	22	45928994	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	28455928	45928994	5375572	232	90185											
FTHL17	53940	broad.mit.edu	37	chrX	31089731	31089731	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctggtacagatccagcaggcTctggttgacgttcttctcca	7	12	10	12	1	3	2	0	1	3	1	5	2	4	2	2	3	2	5	2	3	1	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:31089731T>C	uc004dcl.1	-	1	443	c.340A>G	c.(340-342)AGC>GGC	p.S114G		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	114	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						TCCAGCAGGCTCTGGTTGACG	0.602													22	78					0	0	0.002299	0	0		C	31089731	C	C	31089731	3	2	172	1	0	0	0	0	1	0	0	0	6097	1551	54	3	215	3	FTHL17	23	31089731	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08		31089731	124180829	233	90186											
MED14	9282	broad.mit.edu	37	chrX	40511086	40511086	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccaccagggggcagtgtaAgattagccattaaatcacga	13	7	11	10	1	1	1	1	0	0	1	1	2	1	1	3	2	1	2	3	2	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:40511086A>C	uc004dex.3	-	31	4477	c.4337T>G	c.(4336-4338)CTT>CGT	p.L1446R		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	1446					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						GGGCAGTGTAAGATTAGCCAT	0.398													6	17					0	0	0.00308	0	0		C	40511086	C	C	40511086	3	2	172	1	0	0	0	0	1	0	0	0	9450	72	3	5	31	5	MED14	23	40511086	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	9421355	40511086	114759474	234	90187											
PRICKLE3	4007	broad.mit.edu	37	chrX	49032441	49032441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagacaccagagggtcgcGgaagctgacgcgtggggtgc	8	6	17	10	4	1	3	1	1	0	2	2	4	1	4	1	4	2	1	1	4	1	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:49032441G>A	uc004dmy.1	-	9	1455	c.1429C>T	c.(1429-1431)CGC>TGC	p.R477C	PRICKLE3_uc011mmv.1_Missense_Mutation_p.R409C|PRICKLE3_uc011mmw.1_Missense_Mutation_p.R396C|PRICKLE3_uc011mmx.1_Missense_Mutation_p.R439C	NM_006150	NP_006141	O43900	PRIC3_HUMAN	LIM domain only 6	477				Missing (in Ref. 5; AAB92357).			protein binding|zinc ion binding			breast(1)	1						AGAGGGTCGCGGAAGCTGACG	0.736													5	11					0	0	0.000602	0	0		A	49032441	A	A	49032441	3	1	172	1	0	0	0	0	1	0	0	0	12510	1116	39	1	422	1	PRICKLE3	23	49032441	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	8521355	49032441	106238119	235	90188											
NLGN3	54413	broad.mit.edu	37	chrX	70389196	70389196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtccaaatacaatccccGagaccagctctaccttcaca	12	8	5	16	1	2	1	1	0	1	1	4	2	4	1	5	1	3	1	5	1	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:70389196G>A	uc004dzb.2	+	7	2040	c.1736G>A	c.(1735-1737)CGA>CAA	p.R579Q	NLGN3_uc004dzc.2_Missense_Mutation_p.R462Q|NLGN3_uc011mps.1_Missense_Mutation_p.R559Q|NLGN3_uc004dze.2_Missense_Mutation_p.R397Q	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	599	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					TACAATCCCCGAGACCAGCTC	0.542													3	21					0	0	0.004672	0	0		A	70389196	A	A	70389196	3	1	172	1	0	0	0	0	1	0	0	0	10482	1058	37	1	1822	1	NLGN3	23	70389196	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	21356755	70389196	84881364	236	90189											
SLC16A2	6567	broad.mit.edu	37	chrX	73740839	73740839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcatgggtcggagccCtcgcgatgggtatgatcttc	6	10	14	11	3	1	1	0	1	1	0	4	3	1	2	1	3	3	3	1	3	1	2			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:73740839C>T	uc004ebt.2	+	2	833	c.667C>T	c.(667-669)CTC>TTC	p.L223F		NM_006517	NP_006508	P36021	MOT8_HUMAN	solute carrier family 16, member 2	149	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(2)|ovary(1)	3					Pyruvic acid(DB00119)	GGTCGGAGCCCTCGCGATGGG	0.522													22	148					0	0	0.00278	0	0		T	73740839	T	T	73740839	3	4	172	1	0	0	0	0	1	0	0	0	14433	681	24	4	673	4	SLC16A2	23	73740839	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	3351643	73740839	81529721	237	90190											
MAGEE1	57692	broad.mit.edu	37	chrX	75650661	75650661	+	Missense_Mutation	SNP	A	G	G	1	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	actacattggccgagagtgcAgcaaagtgttccctgacctc	10	9	10	12	1	0	2	0	1	0	1	2	3	1	2	3	1	3	3	3	1	2	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:75650661A>G	uc004ecm.1	+	1	2545	c.2338A>G	c.(2338-2340)AGC>GGC	p.S780G		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	780	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CCGAGAGTGCAGCAAAGTGTT	0.483													19	99					0	0	0.006122	0	0		G	75650661	G	G	75650661	3	3	172	1	0	0	0	0	1	0	0	0	9203	188	7	3	2340	3	MAGEE1	23	75650661	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1909822	75650661	79619899	238	90191											
PCDH11X	27328	broad.mit.edu	37	chrX	91456413	91456413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcttgcacccccatgaaaGagtctacaactatggagatc	13	9	8	11	0	2	3	0	1	2	2	3	5	2	3	2	1	3	1	2	1	4	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:91456413G>A	uc004efk.1	+	3	3918	c.3073G>A	c.(3073-3075)GAG>AAG	p.E1025K	PCDH11X_uc004efl.1_Missense_Mutation_p.E1025K|PCDH11X_uc004efo.1_Intron|PCDH11X_uc010nmv.1_Missense_Mutation_p.E1025K|PCDH11X_uc004efm.1_Missense_Mutation_p.E1025K|PCDH11X_uc004efn.1_Missense_Mutation_p.E1025K	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1025	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCCCATGAAAGAGTCTACAAC	0.378													7	48					0	0	0.004482	0	0		A	91456413	A	A	91456413	3	1	172	1	0	0	0	0	1	0	0	0	11527	943	33	4	3165	4	PCDH11X	23	91456413	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	15805752	91456413	63814147	239	90192											
ZMAT1	84460	broad.mit.edu	37	chrX	101138598	101138598	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcggagggtacatcatggcTttttttcttttttcgatgct	5	19	9	8	2	2	0	1	0	1	0	4	2	2	1	0	3	2	3	0	3	1	7			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:101138598T>A	uc004eim.2	-	2	4786	c.1288A>T	c.(1288-1290)AGC>TGC	p.S430C	ZMAT1_uc011mrl.1_Missense_Mutation_p.S601C|ZMAT1_uc004ein.2_Missense_Mutation_p.S430C|ZMAT1_uc011mrm.1_Missense_Mutation_p.S430C	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	430						nucleus	zinc ion binding			ovary(1)	1						ACATCATGGCTTTTTTTCTTT	0.398													21	124					0	0	0.00278	0	0		A	101138598	A	A	101138598	3	1	172	1	0	0	0	0	1	0	0	0	17716	1609	56	5	119	5	ZMAT1	23	101138598	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	9682185	101138598	54131962	240	90193											
IRS4	8471	broad.mit.edu	37	chrX	107978448	107978448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggcaaaactgctcaaagCgggaccttctgagccagcct	10	7	12	12	1	2	1	1	1	1	0	2	2	2	2	3	3	5	2	3	3	3	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:107978448C>T	uc004eoc.2	-	1	1160	c.1127G>A	c.(1126-1128)CGC>CAC	p.R376H		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	376						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTGCTCAAAGCGGGACCTTCT	0.637													66	109					0	0	0.00361	0	0		T	107978448	T	T	107978448	3	4	172	1	0	0	0	0	1	0	0	0	7858	768	27	1	2650	1	IRS4	23	107978448	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	6839850	107978448	47292112	241	90194											
GUCY2F	2986	broad.mit.edu	37	chrX	108638688	108638688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaactactggtctgtacacaGgaggaggcttcttaagtctg	10	11	12	8	0	3	0	0	0	3	0	3	3	3	2	0	4	3	2	0	4	4	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:108638688G>A	uc004eod.3	-	12	2582	c.2306C>T	c.(2305-2307)CCT>CTT	p.P769L	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	769	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TCTGTACACAGGAGGAGGCTT	0.458													27	208					0	0	0.004656	0	0		A	108638688	A	A	108638688	3	1	172	1	0	0	0	0	1	0	0	0	6914	1000	35	4	1052	4	GUCY2F	23	108638688	Missense_Mutation	SNP	G	TCGA-D7-6526-01A-11D-1800-08	660240	108638688	46631872	242	90195											
AMMECR1	9949	broad.mit.edu	37	chrX	109444244	109444244	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctttgtatcctcctttcctCaataaggagtctatggtctg	7	16	8	10	0	3	0	1	0	2	0	6	1	6	1	3	2	0	2	3	2	4	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:109444244C>T	uc004eoo.2	-	5	906	c.825G>A	c.(823-825)TTG>TTA	p.L275L	AMMECR1_uc004eop.2_Silent_p.L238L|AMMECR1_uc004eoq.2_Silent_p.L152L	NM_015365	NP_056180	Q9Y4X0	AMER1_HUMAN	AMMECR1 protein isoform 1	275	AMMECR1.										0						CTCCTTTCCTCAATAAGGAGT	0.383													65	101					0	0	0.00361	0	0		T	109444244	T	T	109444244	2	4	172	1	0	0	0	0	0	0	0	1	578	825	29	4		4	AMMECR1	23	109444244	Silent	SNP	C	TCGA-D7-6526-01A-11D-1800-08	805556	109444244	45826316	243	90196											
DCX	1641	broad.mit.edu	37	chrX	110644397	110644397	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccagcttggggcgcacaaAgtccttgttctccctggcct	7	10	10	14	1	1	0	0	0	1	0	3	0	2	0	4	3	2	3	4	3	2	3			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:110644397A>C	uc004epd.2	-	3	941	c.769T>G	c.(769-771)TTT>GTT	p.F257V	DCX_uc011msv.1_Missense_Mutation_p.F257V|DCX_uc004epe.2_Missense_Mutation_p.F176V|DCX_uc004epf.2_Missense_Mutation_p.F176V|DCX_uc004epg.2_Missense_Mutation_p.F176V	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	257					axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						GGGCGCACAAAGTCCTTGTTC	0.537													7	68					0	0	0.001984	0	0		C	110644397	C	C	110644397	3	2	172	1	0	0	0	0	1	0	0	0	4321	72	3	5	591	5	DCX	23	110644397	Missense_Mutation	SNP	A	TCGA-D7-6526-01A-11D-1800-08	1200153	110644397	44626163	244	90197											
IL13RA2	3598	broad.mit.edu	37	chrX	114249023	114249023	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtagtttctgcccaggaacTttgaacttctgatccatttg	9	15	8	9	0	2	2	0	2	2	0	3	3	3	3	2	1	3	2	2	1	3	5			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:114249023T>G	uc004epx.2	-	4	486	c.361A>C	c.(361-363)AGT>CGT	p.S121R	IL13RA2_uc010nqd.1_Missense_Mutation_p.S121R	NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	121	Extracellular (Potential).|Fibronectin type-III 1.					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						GCCCAGGAACTTTGAACTTCT	0.358													15	140					0	0	0.003163	0	0		G	114249023	G	G	114249023	3	3	172	1	0	0	0	0	1	0	0	0	7646	1609	56	5	809	5	IL13RA2	23	114249023	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	3604626	114249023	41021537	245	90198											
CT47B1	643311	broad.mit.edu	37	chrX	120009353	120009353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcctccccgaggccttccaCgggccctgcgactccgacca	5	6	9	21	4	0	0	0	0	0	0	4	3	4	0	8	2	1	0	8	2	0	1			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:120009353C>T	uc011muc.1	-	1	427	c.172G>A	c.(172-174)GTG>ATG	p.V58M		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	58											0						AGGCCTTCCACGGGCCCTGCG	0.751													35	53					0	0	0.003755	0	0		T	120009353	T	T	120009353	3	4	172	1	0	0	0	0	1	0	0	0	3992	536	19	1	735	1	CT47B1	23	120009353	Missense_Mutation	SNP	C	TCGA-D7-6526-01A-11D-1800-08	5760330	120009353	35261207	246	90199											
GPR112	139378	broad.mit.edu	37	chrX	135427615	135427615	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagctacacgtacagccTtaactcctgaaatcacactt	13	10	5	13	1	1	2	1	2	0	0	2	2	2	2	2	0	5	2	2	0	5	4			TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:135427615T>G	uc004ezu.1	+	6	2041	c.1750T>G	c.(1750-1752)TTA>GTA	p.L584V	GPR112_uc010nsb.1_Missense_Mutation_p.L379V|GPR112_uc010nsc.1_Missense_Mutation_p.L351V	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	584	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					ACGTACAGCCTTAACTCCTGA	0.433													10	73					0	0	0.006214	0	0		G	135427615	G	G	135427615	3	3	172	1	0	0	0	0	1	0	0	0	6644	1606	56	5	1760	5	GPR112	23	135427615	Missense_Mutation	SNP	T	TCGA-D7-6526-01A-11D-1800-08	15418262	135427615	19842945	247	90200											
CD40LG	959	broad.mit.edu	37	chrX	135738537	135738537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcagaatcctcaaattgcGgcacatgtcataagtgaggc	13	9	10	9	1	3	2	3	1	0	1	4	3	4	2	1	2	1	1	1	2	3	2	rs148581967		TCGA-D7-6526-01A-11D-1800-08	TCGA-D7-6526-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	52e88967-ce7a-4a51-95b7-1a6b0738a4b4	ea4ce17b-1b87-4bf8-a9ff-451bad9e7c61	g.chrX:135738537G>A	uc004faa.2	+	4	441	c.369G>A	c.(367-369)GCG>GCA	p.A123A	CD40LG_uc010nsd.2_Intron|CD40LG_uc010nse.1_RNA	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	123	Extracellular (Potential).		A -> E (in HIGM1).		anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	CTCAAATTGCGGCACATGTCA	0.463									Immune_Deficiency_with_Hyper-IgM				23	163					0	0	0.003954	0	0		A	135738537	A	A	135738537	2	1	172	1	0	0	0	0	0	0	0	1	3019	1103	39	1		1	CD40LG	23	135738537	Silent	SNP	G	TCGA-D7-6526-01A-11D-1800-08	310922	135738537	19532023	248	90201											
PRAMEF6	440561	broad.mit.edu	37	chr1	13001288	13001288	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacagtcctgcactggtgttTtgttcctcttggcattgagg	5	15	12	9	0	1	1	0	1	1	0	3	2	3	1	2	3	1	4	2	3	0	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:13001288T>G	uc001auq.2	-	3	481	c.395A>C	c.(394-396)AAA>ACA	p.K132T	PRAMEF5_uc001aur.2_Intron	NM_001010889	NP_001010889	Q5VXH4	PRAM6_HUMAN	PRAME family member 6	132											0	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)		CACTGGTGTTTTGTTCCTCTT	0.493													110	608					0	0	0.01441	0	0		G	13001288	G	G	13001288	3	3	173	1	0	0	0	0	1	0	0	0	12460	1841	64	5	1043	5	PRAMEF6	1	13001288	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08		13001288	236249333	1	90202											
PLA2G2C	391013	broad.mit.edu	37	chr1	20490553	20490553	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagtttttctcataggtGggcaggctctctttgaagca	8	15	11	7	0	2	2	1	2	2	0	4	2	2	2	0	3	1	4	0	3	3	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:20490553G>A	uc009vpq.1	-	3	384	c.384C>T	c.(382-384)CCC>CCT	p.P128P		NM_001105572	NP_001099042			phospholipase A2, group IIC precursor												0		Colorectal(325;0.000147)|Renal(390;0.000469)|Lung NSC(340;0.00412)|all_lung(284;0.00419)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.018)|COAD - Colon adenocarcinoma(152;1.14e-05)|BRCA - Breast invasive adenocarcinoma(304;8.01e-05)|Kidney(64;0.000171)|GBM - Glioblastoma multiforme(114;0.000528)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCTCATAGGTGGGCAGGCTCT	0.522													11	22					0	0	0.008291	0	0		A	20490553	A	A	20490553	2	1	173	1	0	0	0	0	0	0	0	1	12015	1335	47	4		4	PLA2G2C	1	20490553	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	7489265	20490553	228760068	2	90203											
MACF1	23499	broad.mit.edu	37	chr1	39907918	39907918	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctactgatgagacggacagaGacattatacgagaaccactg	15	7	10	9	2	0	4	0	2	0	3	0	8	0	5	1	1	3	0	1	1	4	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:39907918G>C	uc010oiu.1	+	41	14334	c.14203G>C	c.(14203-14205)GAC>CAC	p.D4735H	MACF1_uc010ois.1_Missense_Mutation_p.D4233H	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GACGGACAGAGACATTATACG	0.453													15	36					0	0	0.00499	0	0		C	39907918	C	C	39907918	3	2	173	1	0	0	0	0	1	0	0	0	9162	942	33	5	19134	5	MACF1	1	39907918	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	19417365	39907918	209342703	3	90204											
SPATA6	54558	broad.mit.edu	37	chr1	48865070	48865070	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttcttttttgaactcatAgggtcccagatttaaatggg	9	17	9	6	0	2	2	1	1	1	1	3	2	3	2	1	2	1	1	1	2	4	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:48865070A>G	uc001crr.1	-	7	898	c.733T>C	c.(733-735)TAT>CAT	p.Y245H	SPATA6_uc001crs.1_Missense_Mutation_p.Y245H|SPATA6_uc010omv.1_Missense_Mutation_p.Y231H|SPATA6_uc001crt.2_Missense_Mutation_p.Y137H	NM_019073	NP_061946	Q9NWH7	SPAT6_HUMAN	spermatogenesis associated 6 precursor	245					cell differentiation|multicellular organismal development|spermatogenesis	extracellular region				ovary(1)	1						TTGAACTCATAGGGTCCCAGA	0.403													3	83					0	0	0.004672	0	0		G	48865070	G	G	48865070	3	3	173	1	0	0	0	0	1	0	0	0	15038	420	15	3	761	3	SPATA6	1	48865070	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	8957152	48865070	200385551	4	90205											
OLFM3	118427	broad.mit.edu	37	chr1	102290763	102290763	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttgtactgttccagcacgggGatcaaaggcaggagctcgtc	9	9	13	10	2	1	0	1	0	0	0	4	2	2	2	1	4	3	5	1	4	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:102290763G>A	uc001duf.2	-	4	542	c.471C>T	c.(469-471)ATC>ATT	p.I157I	OLFM3_uc001dug.2_Silent_p.I137I|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Silent_p.I62I|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	157	Potential.					extracellular region				ovary(2)|skin(1)	3		all_epithelial(167;1.87e-06)|all_lung(203;8.12e-05)|Lung NSC(277;0.000189)		all cancers(265;0.0843)|Epithelial(280;0.0921)|COAD - Colon adenocarcinoma(174;0.145)		CCAGCACGGGGATCAAAGGCA	0.438													8	55					0	0	0.004482	0	0		A	102290763	A	A	102290763	2	1	173	1	0	0	0	0	0	0	0	1	10873	1164	41	4		4	OLFM3	1	102290763	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	53425693	102290763	146959858	5	90206											
LCE2B	26239	broad.mit.edu	37	chr1	152659494	152659494	+	Missense_Mutation	SNP	A	G	G	1	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	ctgggggctgctgtggtcccAgctctgggggctgctgcaac	3	9	17	12	0	1	0	0	0	1	0	2	0	2	0	1	5	5	6	1	5	1	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:152659494A>G	uc001fai.2	+	2	229	c.175A>G	c.(175-177)AGC>GGC	p.S59G		NM_014357	NP_055172	O14633	LCE2B_HUMAN	late cornified envelope 2B	59	Cys-rich.				keratinization					ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTGGTCCCAGCTCTGGGGG	0.662													37	209					0	0	0.027894	0	0		G	152659494	G	G	152659494	3	3	173	1	0	0	0	0	1	0	0	0	8682	188	7	3	177	3	LCE2B	1	152659494	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	50368731	152659494	96591127	6	90207											
IVL	3713	broad.mit.edu	37	chr1	152882716	152882716	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatgagcaactgggaatgaAgaaagagcaactgttggagc	16	6	14	5	0	0	5	0	2	0	3	0	7	0	7	0	2	5	3	0	2	5	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:152882716A>C	uc001fau.2	+	2	489	c.443A>C	c.(442-444)AAG>ACG	p.K148T		NM_005547	NP_005538	P07476	INVO_HUMAN	involucrin	148					isopeptide cross-linking via N6-(L-isoglutamyl)-L-lysine|keratinization|response to UV-B	cornified envelope|cytoplasm	protein binding, bridging|structural molecule activity			ovary(3)	3	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)			CTGGGAATGAAGAAAGAGCAA	0.299													16	43					0	0	0.00499	0	0		C	152882716	C	C	152882716	3	2	173	1	0	0	0	0	1	0	0	0	7945	72	3	5	445	5	IVL	1	152882716	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	223222	152882716	96367905	7	90208											
ARHGEF11	9826	broad.mit.edu	37	chr1	156921411	156921411	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcttccggtcgagagtcGttgtgtcccaggttctgggg	6	11	15	9	3	1	1	0	0	1	1	5	2	3	1	2	4	1	3	2	4	1	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:156921411G>A	uc001fqo.2	-	21	2799	c.1759C>T	c.(1759-1761)CGA>TGA	p.R587*	ARHGEF11_uc010phu.1_5'Flank|ARHGEF11_uc001fqn.2_Nonsense_Mutation_p.R627*|ARHGEF11_uc001fqp.1_Nonsense_Mutation_p.R106*	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	587					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GTCGAGAGTCGTTGTGTCCCA	0.527													27	102					0	0	0.00632	0	0		A	156921411	A	A	156921411	4	1	173	1	0	0	0	0	0	1	0	0	896	1153	40	1	2889	1	ARHGEF11	1	156921411	Nonsense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	4038695	156921411	92329210	8	90209											
CD5L	922	broad.mit.edu	37	chr1	157804351	157804351	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgcttgttgcagcgtttTtgagtcagtacagccctccc	6	13	10	12	1	1	1	1	1	0	0	2	1	2	1	2	0	5	6	2	0	1	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:157804351T>G	uc001frk.3	-	4	707	c.564A>C	c.(562-564)CAA>CAC	p.Q188H		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	188	SRCR 2.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TGCAGCGTTTTTGAGTCAGTA	0.587													21	89					0	0	0.010504	0	0		G	157804351	G	G	157804351	3	3	173	1	0	0	0	0	1	0	0	0	3030	1838	64	5	491	5	CD5L	1	157804351	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	882940	157804351	91446270	9	90210											
CD1D	912	broad.mit.edu	37	chr1	158151963	158151963	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaacccaagaggccccacTttgggtaaacttggccattc	10	8	9	14	0	0	1	0	0	0	1	1	1	0	1	5	3	2	1	5	3	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:158151963T>C	uc001frr.2	+	4	969	c.470T>C	c.(469-471)CTT>CCT	p.L157P	CD1D_uc009wsr.1_Missense_Mutation_p.L157P|CD1D_uc009wss.2_Missense_Mutation_p.L157P|CD1D_uc009wst.1_Missense_Mutation_p.L53P	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	157	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					GAGGCCCCACTTTGGGTAAAC	0.502													59	243					0	0	0.01441	0	0		C	158151963	C	C	158151963	3	2	173	1	0	0	0	0	1	0	0	0	2980	1609	56	3	480	3	CD1D	1	158151963	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	347612	158151963	91098658	10	90211											
OR10Z1	128368	broad.mit.edu	37	chr1	158576362	158576362	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgaccagcaatgtcttcaTtatcatagccatcaggctgg	10	12	8	11	0	5	1	3	1	2	0	5	1	5	1	2	2	2	2	2	2	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:158576362T>G	uc010pio.1	+	1	134	c.134T>G	c.(133-135)ATT>AGT	p.I45S		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					AATGTCTTCATTATCATAGCC	0.493													50	219					0	0	0.01441	0	0		G	158576362	G	G	158576362	3	3	173	1	0	0	0	0	1	0	0	0	10942	1493	52	5	136	5	OR10Z1	1	158576362	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	424399	158576362	90674259	11	90212											
OR10Z1	128368	broad.mit.edu	37	chr1	158576477	158576477	+	Silent	SNP	T	C	C	0	1	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	atcatccctagaatgctctcTggcctggctgggggggacca	7	9	13	12	0	2	1	1	0	1	1	4	2	3	2	3	5	1	2	3	5	2	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:158576477T>C	uc010pio.1	+	1	249	c.249T>C	c.(247-249)TCT>TCC	p.S83S		NM_001004478	NP_001004478	Q8NGY1	O10Z1_HUMAN	olfactory receptor, family 10, subfamily Z,	83	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2	all_hematologic(112;0.0378)					GAATGCTCTCTGGCCTGGCTG	0.552													54	306					0	0	0.01441	0	0		C	158576477	C	C	158576477	2	2	173	1	0	0	0	0	0	0	0	1	10942	1567	55	3		3	OR10Z1	1	158576477	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	115	158576477	90674144	12	90213											
SPTA1	6708	broad.mit.edu	37	chr1	158617507	158617507	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgctgtctcccccagtatggTcacctggggaggtacaatag	8	10	12	11	0	2	0	1	0	1	0	3	1	2	1	3	4	2	3	3	4	4	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:158617507T>C	uc001fst.1	-	27	3917	c.3718A>G	c.(3718-3720)ACC>GCC	p.T1240A		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1240	Spectrin 12.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CCCAGTATGGTCACCTGGGGA	0.512													3	72					0	0	0.004672	0	0		C	158617507	C	C	158617507	3	2	173	1	0	0	0	0	1	0	0	0	15141	1667	58	3	3645	3	SPTA1	1	158617507	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	41030	158617507	90633114	13	90214											
SPTA1	6708	broad.mit.edu	37	chr1	158651366	158651366	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacactcctgtacatactgcTggaacttcagggcccgcagc	9	8	9	15	1	1	0	1	0	0	0	2	1	2	1	2	2	5	3	2	2	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:158651366T>C	uc001fst.1	-	4	681	c.482A>G	c.(481-483)CAG>CGG	p.Q161R		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	161	Spectrin 3.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TACATACTGCTGGAACTTCAG	0.532													52	232					0	0	0.01441	0	0		C	158651366	C	C	158651366	3	2	173	1	0	0	0	0	1	0	0	0	15141	1580	55	3	6973	3	SPTA1	1	158651366	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	33859	158651366	90599255	14	90215											
IFI16	3428	broad.mit.edu	37	chr1	159023489	159023489	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgggaataccggggagttgaGatctgtaattcatagtcaca	12	11	12	6	1	3	1	2	1	1	1	3	4	3	3	1	3	1	2	1	3	4	5	rs148215169		TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:159023489G>C	uc001ftg.2	+	10	2374	c.2084G>C	c.(2083-2085)AGA>ACA	p.R695T	IFI16_uc010pis.1_Missense_Mutation_p.R695T|IFI16_uc001fth.2_Missense_Mutation_p.R238T|IFI16_uc010pit.1_Missense_Mutation_p.R294T	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	751	HIN-200 2.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					GGGGAGTTGAGATCTGTAATT	0.408													7	94					0	0	0.00308	0	0		C	159023489	C	C	159023489	3	2	173	1	0	0	0	0	1	0	0	0	7527	942	33	5	2118	5	IFI16	1	159023489	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	372123	159023489	90227132	15	90216											
OR10J5	127385	broad.mit.edu	37	chr1	159504971	159504971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagtgatgatggtgtacGtcactgagagaacaaggtct	12	9	15	5	1	2	4	1	3	1	1	2	6	2	5	0	3	2	1	0	3	3	1	rs149096656	byFrequency	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:159504971G>A	uc010piw.1	-	1	827	c.827C>T	c.(826-828)ACG>ATG	p.T276M		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	276	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					GATGGTGTACGTCACTGAGAG	0.463													18	60					0	0	0.007413	0	0		A	159504971	A	A	159504971	3	1	173	1	0	0	0	0	1	0	0	0	10931	1145	40	1	104	1	OR10J5	1	159504971	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	481482	159504971	89745650	16	90217											
LRRC52	440699	broad.mit.edu	37	chr1	165514020	165514020	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctcagaaataccggcttgCagaccctggacagtgctgcc	10	7	10	14	1	1	2	1	0	0	2	1	3	1	3	4	2	4	3	4	2	2	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:165514020C>T	uc001gde.2	+	1	543	c.487C>T	c.(487-489)CAG>TAG	p.Q163*	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	163	Extracellular (Potential).|LRR 5.					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					TACCGGCTTGCAGACCCTGGA	0.522													49	181					0	0	0.01441	0	0		T	165514020	T	T	165514020	4	4	173	1	0	0	0	0	0	1	0	0	9028	711	25	2	489	2	LRRC52	1	165514020	Nonsense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	6009049	165514020	83736601	17	90218											
C1orf129	80133	broad.mit.edu	37	chr1	170965747	170965747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgggaccagttatctgaAgatctgtgttactatcatgg	9	15	10	7	0	4	2	1	1	3	1	4	3	4	3	1	2	1	2	1	2	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:170965747A>C	uc001ghg.2	+	14	1567	c.1437A>C	c.(1435-1437)GAA>GAC	p.E479D	C1orf129_uc009wvy.2_Missense_Mutation_p.E286D|C1orf129_uc010plz.1_Missense_Mutation_p.E479D	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	479							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGTTATCTGAAGATCTGTGTT	0.443													7	170					0	0	0.00308	0	0		C	170965747	C	C	170965747	3	2	173	1	0	0	0	0	1	0	0	0	1999	69	3	5	1487	5	C1orf129	1	170965747	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	5451727	170965747	78284874	18	90219											
PAPPA2	60676	broad.mit.edu	37	chr1	176668476	176668476	+	Missense_Mutation	SNP	T	G	G	0	1	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	aaacaaggagtcagtgcaccTgggccccttagacactttct	11	9	9	12	0	2	1	1	0	1	1	2	2	2	2	3	2	2	1	3	2	3	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:176668476T>G	uc001gkz.2	+	8	4151	c.2987T>G	c.(2986-2988)CTG>CGG	p.L996R	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	996					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TCAGTGCACCTGGGCCCCTTA	0.532													33	254					0	0	0.017118	0	0		G	176668476	G	G	176668476	3	3	173	1	0	0	0	0	1	0	0	0	11452	1580	55	5	3066	5	PAPPA2	1	176668476	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	5702729	176668476	72582145	19	90220											
PAPPA2	60676	broad.mit.edu	37	chr1	176708800	176708800	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagaggccagagcaattttTatttttttgacaactgatgg	11	14	11	5	0	0	4	0	2	0	2	0	5	0	4	1	3	2	1	1	3	3	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:176708800T>A	uc001gkz.2	+	13	5001	c.3837T>A	c.(3835-3837)TTT>TTA	p.F1279L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1279					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GAGCAATTTTTATTTTTTTGA	0.443													9	89					0	0	0.004482	0	0		A	176708800	A	A	176708800	3	1	173	1	0	0	0	0	1	0	0	0	11452	1751	61	5	3936	5	PAPPA2	1	176708800	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	40324	176708800	72541821	20	90221											
HMCN1	83872	broad.mit.edu	37	chr1	186072686	186072686	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgaacttacctgcattgcTtctggaatcccagcccctaa	9	12	6	14	0	1	1	0	1	1	0	2	2	2	2	4	1	5	2	4	1	4	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:186072686T>G	uc001grq.1	+	69	10885	c.10656T>G	c.(10654-10656)GCT>GCG	p.A3552A		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3552	Ig-like C2-type 34.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCTGCATTGCTTCTGGAATCC	0.438													5	88					0	0	0.014758	0	0		G	186072686	G	G	186072686	2	3	173	1	0	0	0	0	0	0	0	1	7236	1596	56	5		5	HMCN1	1	186072686	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	9363886	186072686	63177935	21	90222											
KCNT2	343450	broad.mit.edu	37	chr1	196227454	196227454	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagctgttttaccagagtgTtttgggccttttctgctcag	5	17	10	9	0	3	1	2	0	1	1	3	1	3	1	2	1	3	4	2	1	1	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:196227454T>C	uc001gtd.1	-	26	3141	c.3081A>G	c.(3079-3081)AAA>AAG	p.K1027K	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Silent_p.K960K|KCNT2_uc001gtf.1_Silent_p.K1003K|KCNT2_uc001gtg.1_RNA|KCNT2_uc001gth.1_Silent_p.K531K	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1027	Cytoplasmic (Potential).|ATP (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TACCAGAGTGTTTTGGGCCTT	0.483													20	88					0	0	0.007413	0	0		C	196227454	C	C	196227454	2	2	173	1	0	0	0	0	0	0	0	1	8108	1722	60	3		3	KCNT2	1	196227454	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	10154768	196227454	53023167	22	90223											
KCNT2	343450	broad.mit.edu	37	chr1	196251449	196251449	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtgtccagtcccaacagaAgtctcgtgatagaaatcata	14	10	8	9	1	2	3	1	1	1	2	5	3	4	3	2	0	1	0	2	0	6	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:196251449A>C	uc001gtd.1	-	24	2795	c.2735T>G	c.(2734-2736)CTT>CGT	p.L912R	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.L838R|KCNT2_uc001gtf.1_Missense_Mutation_p.L888R|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.L888R|KCNT2_uc001gth.1_Missense_Mutation_p.L409R	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	912	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TCCCAACAGAAGTCTCGTGAT	0.303													10	94					0	0	0.010729	0	0		C	196251449	C	C	196251449	3	2	173	1	0	0	0	0	1	0	0	0	8108	72	3	5	692	5	KCNT2	1	196251449	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	23995	196251449	52999172	23	90224											
CFHR4	10877	broad.mit.edu	37	chr1	196887413	196887413	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaaagtgacataaaataTtatgcaaaaacaggggatac	21	7	9	4	0	0	1	0	1	0	0	0	3	0	3	0	3	3	1	0	3	9	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:196887413T>G	uc001gto.2	+	6	942	c.873T>G	c.(871-873)TAT>TAG	p.Y291*	CFHR4_uc009wyy.2_Nonsense_Mutation_p.Y537*|CFHR4_uc001gtp.2_Nonsense_Mutation_p.Y538*	NM_006684	NP_006675	Q92496	FHR4_HUMAN	complement factor H-related 4 precursor	291	Sushi 5.					extracellular region	lipid transporter activity			ovary(1)|pancreas(1)|skin(1)	3						ACATAAAATATTATGCAAAAA	0.299													23	75					0	0	0.016522	0	0		G	196887413	G	G	196887413	4	3	173	1	0	0	0	0	0	1	0	0	3290	1500	52	5	895	5	CFHR4	1	196887413	Nonsense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	635964	196887413	52363208	24	90225											
F13B	2165	broad.mit.edu	37	chr1	197021923	197021923	+	Missense_Mutation	SNP	T	C	C	0	1	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	atatttccacttcatttctaTgttatttctgttcatgtaat	9	22	3	7	0	4	0	2	0	2	0	5	0	5	0	1	0	0	3	1	0	4	9			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:197021923T>C	uc001gtt.1	-	9	1440	c.1396A>G	c.(1396-1398)ATA>GTA	p.I466V		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	466	Sushi 8.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						TTCATTTCTATGTTATTTCTG	0.299													29	105					0	0	0.010818	0	0		C	197021923	C	C	197021923	3	2	173	1	0	0	0	0	1	0	0	0	5349	1464	51	3	605	3	F13B	1	197021923	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	134510	197021923	52228698	25	90226											
CR1	1378	broad.mit.edu	37	chr1	207791438	207791438	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgcccacatccacccaagatCcaaaacgggcattacattgg	13	7	7	14	1	0	1	0	0	0	1	2	1	2	1	4	2	3	1	4	2	4	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:207791438C>G	uc001hfy.2	+	34	5702	c.5562C>G	c.(5560-5562)ATC>ATG	p.I1854M	CR1_uc001hfx.2_Missense_Mutation_p.I2304M	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1854	Sushi 29.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CACCCAAGATCCAAAACGGGC	0.443													19	142					0	0	0.008871	0	0		G	207791438	G	G	207791438	3	3	173	1	0	0	0	0	1	0	0	0	3843	845	30	5	7078	5	CR1	1	207791438	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	10769515	207791438	41459183	26	90227											
USH2A	7399	broad.mit.edu	37	chr1	215824071	215824071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgtgggggctctgagaccttCtggtggggctggcccggttc	2	10	18	11	2	2	1	0	1	2	1	3	2	2	1	2	7	0	3	2	7	0	2	rs12085358		TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:215824071C>T	uc001hku.1	-	65	14593	c.14206G>A	c.(14206-14208)GAA>AAA	p.E4736K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4736	Fibronectin type-III 33.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTGAGACCTTCTGGTGGGGCT	0.557										HNSCC(13;0.011)			49	158					0	0	0.01441	0	0		T	215824071	T	T	215824071	3	4	173	1	0	0	0	0	1	0	0	0	17062	922	32	4	1434	4	USH2A	1	215824071	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	8032633	215824071	33426550	27	90228											
USH2A	7399	broad.mit.edu	37	chr1	216258110	216258110	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctgttatacacgttgatTtgttcttcagaactctgcca	9	15	7	10	1	3	2	1	1	2	1	3	2	3	2	1	0	4	4	1	0	3	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:216258110T>G	uc001hku.1	-	25	5484	c.5097A>C	c.(5095-5097)CAA>CAC	p.Q1699H		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1699	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACACGTTGATTTGTTCTTCAG	0.423										HNSCC(13;0.011)			25	133					0	0	0.01892	0	0		G	216258110	G	G	216258110	3	3	173	1	0	0	0	0	1	0	0	0	17062	1838	64	5	10703	5	USH2A	1	216258110	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	434039	216258110	32992511	28	90229											
PSEN2	5664	broad.mit.edu	37	chr1	227081737	227081737	+	Missense_Mutation	SNP	A	G	G	1	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	agcttggcctcggggacttcAtcttctacagtgtgctggtg	5	13	13	10	1	3	0	1	0	2	0	4	1	3	1	1	4	3	2	1	4	1	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:227081737A>G	uc009xeo.1	+	12	1529	c.1102A>G	c.(1102-1104)ATC>GTC	p.I368V	CABC1_uc001hqm.1_5'Flank|PSEN2_uc009xep.1_Missense_Mutation_p.I367V|PSEN2_uc001hqk.2_RNA|uc001hql.1_5'Flank	NM_000447	NP_000438	P49810	PSN2_HUMAN	presenilin 2 isoform 1	368	Cytoplasmic (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|apoptosis|beta-amyloid metabolic process|calcium ion transport|induction of apoptosis by extracellular signals|intracellular signal transduction|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear inner membrane|perinuclear region of cytoplasm|Z disc	aspartic-type endopeptidase activity|protein binding			lung(2)	2		Prostate(94;0.0771)				CGGGGACTTCATCTTCTACAG	0.587													19	107					0	0	0.014323	0	0		G	227081737	G	G	227081737	3	3	173	1	0	0	0	0	1	0	0	0	12673	217	8	3	1136	3	PSEN2	1	227081737	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	10823627	227081737	22168884	29	90230											
FMN2	56776	broad.mit.edu	37	chr1	240555817	240555817	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgcactttcagccaaaaTtgaccaagaggcagaggaaa	15	8	9	9	0	2	3	1	1	1	2	2	4	2	4	2	2	2	2	2	2	4	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:240555817T>G	uc010pyd.1	+	15	5090	c.4865T>G	c.(4864-4866)ATT>AGT	p.I1622S	FMN2_uc010pye.1_Missense_Mutation_p.I1626S|FMN2_uc010pyf.1_Missense_Mutation_p.I237S|FMN2_uc010pyg.1_Missense_Mutation_p.I218S	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1622	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TCAGCCAAAATTGACCAAGAG	0.333													20	119					0	0	0.014323	0	0		G	240555817	G	G	240555817	3	3	173	1	0	0	0	0	1	0	0	0	5964	1493	52	5	4923	5	FMN2	1	240555817	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	13474080	240555817	8694804	30	90231											
OR2AK2	391191	broad.mit.edu	37	chr1	248129071	248129071	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctatctgtcaccctttacaTtatcctatgcttatgagcaa	10	15	5	11	0	2	1	1	1	1	0	3	1	3	1	2	0	3	3	2	0	6	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:248129071T>G	uc010pzd.1	+	1	438	c.438T>G	c.(436-438)CAT>CAG	p.H146Q	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	146	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			ACCCTTTACATTATCCTATGC	0.423													56	250					0	0	0.01441	0	0		G	248129071	G	G	248129071	3	3	173	1	0	0	0	0	1	0	0	0	11005	1490	52	5	440	5	OR2AK2	1	248129071	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	7573254	248129071	1121550	31	90232											
OR2AK2	391191	broad.mit.edu	37	chr1	248129218	248129218	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaaccactttttctgtgaAgttccagctctactatcatt	10	17	4	10	0	3	1	1	1	2	0	4	1	4	1	2	0	3	2	2	0	4	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:248129218A>G	uc010pzd.1	+	1	585	c.585A>G	c.(583-585)GAA>GAG	p.E195E	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TTTTCTGTGAAGTTCCAGCTC	0.438													12	68					0	0	0.013537	0	0		G	248129218	G	G	248129218	2	3	173	1	0	0	0	0	0	0	0	1	11005	69	3	3		3	OR2AK2	1	248129218	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	147	248129218	1121403	32	90233											
OR2M5	127059	broad.mit.edu	37	chr1	248309375	248309375	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagtgttaggaaagggcaAgtgtggagagtgagtacttt	13	10	16	2	0	0	2	0	1	0	1	0	5	0	3	0	3	1	3	0	3	5	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:248309375A>G	uc010pze.1	+	1	926	c.926A>G	c.(925-927)AAG>AGG	p.K309R		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			GGAAAGGGCAAGTGTGGAGAG	0.428													10	77					0	0	0.006214	0	0		G	248309375	G	G	248309375	3	3	173	1	0	0	0	0	1	0	0	0	11032	72	3	3	928	3	OR2M5	1	248309375	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	180157	248309375	941246	33	90234											
OR2M2	391194	broad.mit.edu	37	chr1	248343833	248343833	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacttcttctgtgaattcccTtccctactaatcctctcatg	7	16	3	15	0	3	1	1	1	3	0	7	1	6	1	3	0	1	0	3	0	3	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:248343833T>G	uc010pzf.1	+	1	546	c.546T>G	c.(544-546)CCT>CCG	p.P182P		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	182	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GTGAATTCCCTTCCCTACTAA	0.418													65	326					0	0	0.01441	0	0		G	248343833	G	G	248343833	2	3	173	1	0	0	0	0	0	0	0	1	11029	1596	56	5		5	OR2M2	1	248343833	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	34458	248343833	906788	34	90235											
OR2M7	391196	broad.mit.edu	37	chr1	248487102	248487102	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgggctgaatgcacatgaAcaaacctgctccatagtaca	13	9	9	10	0	0	2	0	2	0	0	1	2	1	2	2	1	5	4	2	1	5	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:248487102A>C	uc010pzk.1	-	1	769	c.769T>G	c.(769-771)TTC>GTC	p.F257V		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	257	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ATGCACATGAACAAACCTGCT	0.473													20	186					0	0	0.010504	0	0		C	248487102	C	C	248487102	3	2	173	1	0	0	0	0	1	0	0	0	11033	43	2	5	172	5	OR2M7	1	248487102	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	143269	248487102	763519	35	90236											
OR2T4	127074	broad.mit.edu	37	chr1	248525883	248525883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgtcatgggggctctgaAgaaaatgttaacagtggaac	13	9	14	5	0	2	2	1	1	1	1	2	4	2	4	0	4	2	2	0	4	5	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:248525883A>G	uc001ieh.1	+	1	1001	c.1001A>G	c.(1000-1002)AAG>AGG	p.K334R		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	334	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGGCTCTGAAGAAAATGTTA	0.398													21	161					0	0	0.010504	0	0		G	248525883	G	G	248525883	3	3	173	1	0	0	0	0	1	0	0	0	11046	72	3	3	1003	3	OR2T4	1	248525883	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	38781	248525883	724738	36	90237											
OR2T3	343173	broad.mit.edu	37	chr1	248637137	248637137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgggaatggttgatggtttGttgctcacccccattaccat	7	15	10	9	0	1	1	1	1	0	0	1	2	1	2	3	3	2	4	3	3	2	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr1:248637137G>T	uc001iel.1	+	1	486	c.486G>T	c.(484-486)TTG>TTT	p.L162F		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	162	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TTGATGGTTTGTTGCTCACCC	0.527													5	60					0.000442599	0.000453066	0.006214	1	0		T	248637137	T	T	248637137	3	4	173	1	0	0	0	0	1	0	0	0	11042	1368	48	5	488	5	OR2T3	1	248637137	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	111254	248637137	613484	37	90238											
APOB	338	broad.mit.edu	37	chr2	21231570	21231570	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atcattaaggttgagagttgGgattatgaattctggaattg	12	15	12	2	0	2	2	1	2	1	1	2	5	2	4	0	3	0	2	0	3	4	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:21231570G>T	uc002red.2	-	26	8298	c.8170C>A	c.(8170-8172)CCA>ACA	p.P2724T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2724				Missing (in Ref. 15; AAA51758).	cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TTGAGAGTTGGGATTATGAAT	0.428													45	82					5.2432e-18	5.61375e-18	0.01441	1	0		T	21231570	T	T	21231570	3	4	173	1	0	0	0	0	1	0	0	0	785	1232	43	5	5537	5	APOB	2	21231570	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08		21231570	221967803	38	90239											
RPIA	22934	broad.mit.edu	37	chr2	89049502	89049502	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcctttgtcctgcaggtgtGgtggacacaggcctattcat	6	13	12	10	0	1	0	1	0	0	0	3	1	3	1	3	4	1	1	3	4	1	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:89049502G>T	uc002ste.2	+	9	884	c.843G>T	c.(841-843)GTG>GTT	p.V281V		NM_144563	NP_653164	P49247	RPIA_HUMAN	ribose 5-phosphate isomerase A	281					pentose-phosphate shunt, non-oxidative branch	cytosol	ribose-5-phosphate isomerase activity			ovary(1)	1		Acute lymphoblastic leukemia(2;0.000456)|all_hematologic(2;0.00287)				CTGCAGGTGTGGTGGACACAG	0.483													16	31					1.67942e-08	1.76077e-08	0.006122	1	0		T	89049502	T	T	89049502	2	4	173	1	0	0	0	0	0	0	0	1	13578	1335	47	5		5	RPIA	2	89049502	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	67817932	89049502	154149871	39	90240											
MGAT4A	11320	broad.mit.edu	37	chr2	99251709	99251709	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaaatagccatcttctaAtcgtttgtctttggtttctt	7	20	6	8	1	5	1	0	1	5	0	6	1	5	1	1	1	1	2	1	1	3	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:99251709A>C	uc002sze.2	-	14	1758	c.1444T>G	c.(1444-1446)TTA>GTA	p.L482V	C2orf64_uc002sza.2_Intron|MGAT4A_uc010yvm.1_Missense_Mutation_p.L354V|MGAT4A_uc010fil.2_Missense_Mutation_p.L236V	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	alpha-1,3-mannosyl-glycoprotein	482	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1						CCATCTTCTAATCGTTTGTCT	0.279													7	43					0	0	0.004482	0	0		C	99251709	C	C	99251709	3	2	173	1	0	0	0	0	1	0	0	0	9563	98	4	5	254	5	MGAT4A	2	99251709	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	10202207	99251709	143947664	40	90241											
MYO7B	4648	broad.mit.edu	37	chr2	128335741	128335741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgaggggctcaacgacGccaaggactacgcccacatc	10	5	11	15	3	1	1	1	1	0	0	2	3	1	2	3	3	2	1	3	3	3	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:128335741G>A	uc002top.2	+	9	936	c.883G>A	c.(883-885)GCC>ACC	p.A295T		NM_001080527	NP_001073996	Q6PIF6	MYO7B_HUMAN	myosin VIIB	295	Myosin head-like.					apical plasma membrane|myosin complex	actin binding|ATP binding|motor activity			ovary(1)|pancreas(1)	2	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0753)		GCTCAACGACGCCAAGGACTA	0.632													10	14					0	0	0.006214	0	0		A	128335741	A	A	128335741	3	1	173	1	0	0	0	0	1	0	0	0	10101	1087	38	1	913	1	MYO7B	2	128335741	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	29084032	128335741	114863632	41	90242											
ZEB2	9839	broad.mit.edu	37	chr2	145156170	145156170	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccttcttgataaaagtcaAgttcagaggctcatctgagt	11	14	8	8	0	5	3	3	2	2	1	6	3	6	3	1	1	0	2	1	1	3	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:145156170A>C	uc002tvu.2	-	8	3064	c.2584T>G	c.(2584-2586)TTG>GTG	p.L862V	ZEB2_uc002tvv.2_Missense_Mutation_p.L856V|ZEB2_uc010zbm.1_Missense_Mutation_p.L833V|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.L891V	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	862						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATAAAAGTCAAGTTCAGAGGC	0.348													15	50					0	0	0.024245	0	0		C	145156170	C	C	145156170	3	2	173	1	0	0	0	0	1	0	0	0	17649	69	3	5	1072	5	ZEB2	2	145156170	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	16820429	145156170	98043203	42	90243											
RIF1	55183	broad.mit.edu	37	chr2	152331523	152331523	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaactaagttgtatggcaAactctgtaataaaaaatcta	19	11	6	5	0	2	1	0	0	2	1	2	1	2	1	0	1	2	4	0	1	9	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:152331523A>G	uc002txm.2	+	36	7487	c.7357A>G	c.(7357-7359)AAC>GAC	p.N2453D	RIF1_uc002txl.2_Missense_Mutation_p.N2427D|RIF1_uc002txn.2_Missense_Mutation_p.N2427D|RIF1_uc002txo.2_Missense_Mutation_p.N2427D|RIF1_uc002txp.2_RNA|uc010fnw.1_5'Flank	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	2453	Interaction with condensed chromosomes in telophase.				cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		TTGTATGGCAAACTCTGTAAT	0.338													7	30					0	0	0.00308	0	0		G	152331523	G	G	152331523	3	3	173	1	0	0	0	0	1	0	0	0	13384	14	1	3	7495	3	RIF1	2	152331523	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	7175353	152331523	90867850	43	90244											
SCN2A	6326	broad.mit.edu	37	chr2	166172074	166172074	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttcttcagtagcatctaagTtgagctccaaaagtgaaaaa	15	11	8	7	0	3	2	1	2	2	0	4	2	4	2	1	0	2	5	1	0	6	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:166172074T>G	uc002udc.2	+	11	1767	c.1477T>G	c.(1477-1479)TTG>GTG	p.L493V	SCN2A_uc002udd.2_Missense_Mutation_p.L493V|SCN2A_uc002ude.2_Missense_Mutation_p.L493V	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	493					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	AGCATCTAAGTTGAGCTCCAA	0.343													4	67					0	0	0.009096	0	0		G	166172074	G	G	166172074	3	3	173	1	0	0	0	0	1	0	0	0	13941	1722	60	5	1611	5	SCN2A	2	166172074	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	13840551	166172074	77027299	44	90245											
SCN9A	6335	broad.mit.edu	37	chr2	167055189	167055189	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaaaatgaagctctattttTtgctttccttgctgtctttc	8	19	5	9	0	2	1	0	1	2	0	4	1	3	1	1	0	3	3	1	0	4	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:167055189T>G	uc010fpl.2	-	27	6268	c.5927A>C	c.(5926-5928)AAA>ACA	p.K1976T	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1987						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GCTCTATTTTTTGCTTTCCTT	0.333													5	26					0	0	0.014758	0	0		G	167055189	G	G	167055189	3	3	173	1	0	0	0	0	1	0	0	0	13950	1841	64	5	10	5	SCN9A	2	167055189	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	883115	167055189	76144184	45	90246											
TTN	7273	broad.mit.edu	37	chr2	179422434	179422434	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcactgatgccaaagcggTtttctgccttgatgcggaat	9	12	11	9	2	2	2	1	2	1	0	2	4	2	3	2	2	4	1	2	2	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:179422434T>G	uc010zfg.1	-	277	80167	c.79943A>C	c.(79942-79944)AAC>ACC	p.N26648T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.N20343T|TTN_uc010zfi.1_Missense_Mutation_p.N20276T|TTN_uc010zfj.1_Missense_Mutation_p.N20151T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27575							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCCAAAGCGGTTTTCTGCCTT	0.418													29	888					0	0	0.017118	0	0		G	179422434	G	G	179422434	3	3	173	1	0	0	0	0	1	0	0	0	16761	1725	60	5	20472	5	TTN	2	179422434	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	12367245	179422434	63776939	46	90247											
TTN	7273	broad.mit.edu	37	chr2	179426489	179426489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaaacacggaactgatactCacttcctgttgtcaggcgaa	13	9	8	11	2	2	1	2	1	0	0	3	3	3	2	1	2	3	1	1	2	4	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:179426489C>T	uc010zfg.1	-	275	76890	c.76666G>A	c.(76666-76668)GAG>AAG	p.E25556K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E19251K|TTN_uc010zfi.1_Missense_Mutation_p.E19184K|TTN_uc010zfj.1_Missense_Mutation_p.E19059K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26483							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACTGATACTCACTTCCTGTT	0.438													142	32					0	0	0.01441	0	0		T	179426489	T	T	179426489	3	4	173	1	0	0	0	0	1	0	0	0	16761	835	29	4	23757	4	TTN	2	179426489	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	4055	179426489	63772884	47	90248											
TTN	7273	broad.mit.edu	37	chr2	179587167	179587167	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatctctataccagcacacTtggatgggtgcagagccatt	10	10	9	12	0	1	1	0	0	1	1	2	2	1	2	3	2	4	2	3	2	2	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:179587167T>G	uc010zfg.1	-	74	18839	c.18615A>C	c.(18613-18615)CAA>CAC	p.Q6205H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q2866H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7132							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACCAGCACACTTGGATGGGTG	0.383													30	160					0	0	0.007291	0	0		G	179587167	G	G	179587167	3	3	173	1	0	0	0	0	1	0	0	0	16761	1606	56	5	82326	5	TTN	2	179587167	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	160678	179587167	63612206	48	90249											
SESTD1	91404	broad.mit.edu	37	chr2	180011150	180011150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtctgaagaactgtttcagGatcaaccgatggaagaaagt	14	10	11	6	1	3	3	2	1	1	2	3	6	3	5	1	2	2	1	1	2	5	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:180011150G>A	uc002uni.3	-	8	766	c.616C>T	c.(616-618)CCT>TCT	p.P206S		NM_178123	NP_835224	Q86VW0	SESD1_HUMAN	SEC14 and spectrin domains 1	206					regulation of calcium ion transport via voltage-gated calcium channel activity		phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding|protein binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0344)|Epithelial(96;0.0531)|all cancers(119;0.147)			ACTGTTTCAGGATCAACCGAT	0.299													14	85					0	0	0.028581	0	0		A	180011150	A	A	180011150	3	1	173	1	0	0	0	0	1	0	0	0	14152	1174	41	4	1518	4	SESTD1	2	180011150	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	423983	180011150	63188223	49	90250											
UBE2E3	10477	broad.mit.edu	37	chr2	181846772	181846772	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agagataacttcaccaagatGtccagtgataggcaaaggtc	15	8	10	8	0	1	3	1	1	0	2	3	4	2	3	2	2	1	1	2	2	4	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:181846772G>A	uc002unq.1	+	3	222	c.3G>A	c.(1-3)ATG>ATA	p.M1I	UBE2E3_uc002unr.1_Missense_Mutation_p.M1I|UBE2E3_uc010fri.1_Missense_Mutation_p.M1I	NM_182678	NP_872619	Q969T4	UB2E3_HUMAN	ubiquitin-conjugating enzyme E2E 3	1					protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|regulation of growth	cytoplasm|nucleolus	ATP binding|protein binding|ubiquitin-protein ligase activity			ovary(1)	1						TCACCAAGATGTCCAGTGATA	0.478													36	99					0	0	0.019004	0	0		A	181846772	A	A	181846772	3	1	173	1	0	0	0	0	1	0	0	0	16880	1377	48	4	5	4	UBE2E3	2	181846772	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	1835622	181846772	61352601	50	90251											
ZNF804A	91752	broad.mit.edu	37	chr2	185802610	185802610	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaaactttagaactcaaAgaaaatacagattatcccgt	17	12	5	7	1	1	4	1	1	0	3	2	4	2	4	1	0	3	0	1	0	8	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:185802610A>C	uc002uph.2	+	4	3081	c.2487A>C	c.(2485-2487)AAA>AAC	p.K829N		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	829						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TAGAACTCAAAGAAAATACAG	0.398													21	65					0	0	0.010504	0	0		C	185802610	C	C	185802610	3	2	173	1	0	0	0	0	1	0	0	0	18195	69	3	5	2501	5	ZNF804A	2	185802610	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	3955838	185802610	57396763	51	90252											
DNAH7	56171	broad.mit.edu	37	chr2	196774920	196774920	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagggctccaaataaggttCtgaaacatatgaaatagaca	18	8	9	6	0	1	3	0	2	1	1	2	4	2	3	1	2	1	2	1	2	7	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:196774920C>G	uc002utj.3	-	25	4037	c.3936_splice	c.e25-1	p.R1312_splice		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7						ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						AAATAAGGTTCTGAAACATAT	0.408													4	29					0	0	0.014758	0	0		G	196774920	G	G	196774920	5	3	173	1	0	0	0	0	0	0	1	0	4612	927	32	5	8303	5	DNAH7	2	196774920	Splice_Site	SNP	C	TCGA-D7-6527-01A-11D-1800-08	10972310	196774920	46424453	52	90253											
HECW2	57520	broad.mit.edu	37	chr2	197086947	197086947	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacacacctgcccaaatacTtcttcgttcacagtgaacgt	12	10	5	14	2	2	1	1	1	1	0	3	1	2	1	2	0	3	1	2	0	3	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:197086947T>G	uc002utm.1	-	24	4317	c.4134A>C	c.(4132-4134)GAA>GAC	p.E1378D	HECW2_uc002utl.1_Missense_Mutation_p.E1022D	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1378	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						GCCCAAATACTTCTTCGTTCA	0.448													10	46					0	0	0.006214	0	0		G	197086947	G	G	197086947	3	3	173	1	0	0	0	0	1	0	0	0	7059	1606	56	5	608	5	HECW2	2	197086947	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	312027	197086947	46112426	53	90254											
HSPD1	3329	broad.mit.edu	37	chr2	198352641	198352641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaatctccagccatagcatCataaccaacttctgaggaac	16	8	5	12	0	3	1	1	1	2	0	4	2	3	2	3	1	5	1	3	1	6	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:198352641C>T	uc002uui.2	-	11	1647	c.1510G>A	c.(1510-1512)GAT>AAT	p.D504N	HSPD1_uc002uuj.2_Missense_Mutation_p.D502N|HSPD1_uc010zgx.1_Missense_Mutation_p.D495N|HSPD1_uc010fsm.2_Missense_Mutation_p.D315N|HSPD1_uc002uuk.2_Missense_Mutation_p.D504N	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	504					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			GCCATAGCATCATAACCAACT	0.353													8	50					0	0	0.00308	0	0		T	198352641	T	T	198352641	3	4	173	1	0	0	0	0	1	0	0	0	7444	826	29	4	219	4	HSPD1	2	198352641	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	1265694	198352641	44846732	54	90255											
PLCL1	5334	broad.mit.edu	37	chr2	198949915	198949915	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggagaagtaacagatgaAgatgaagaagctgaaatgtc	19	6	13	3	0	0	7	0	3	0	4	1	9	0	7	0	1	2	2	0	1	7	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr2:198949915A>C	uc010fsp.2	+	2	1965	c.1674A>C	c.(1672-1674)GAA>GAC	p.E558D	PLCL1_uc002uuv.3_Missense_Mutation_p.E479D	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	558	Interaction with GABA A beta subunit (By similarity).				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity	p.P558L(1)		ovary(1)|skin(1)	2					Quinacrine(DB01103)	TAACAGATGAAGATGAAGAAG	0.408													5	54					0	0	0.014758	0	0		C	198949915	C	C	198949915	3	2	173	1	0	0	0	0	1	0	0	0	12058	69	3	5	1680	5	PLCL1	2	198949915	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	597274	198949915	44249458	55	90256											
CHL1	10752	broad.mit.edu	37	chr3	423943	423943	+	Missense_Mutation	SNP	A	C	C	1	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	gacctgggaagctggagctgAccacaacagcaatattagcg	13	6	12	10	1	0	1	0	1	0	0	0	4	0	3	2	2	5	3	2	2	5	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:423943A>C	uc003bou.2	+	16	2181	c.1910A>C	c.(1909-1911)GAC>GCC	p.D637A	CHL1_uc003bot.2_Missense_Mutation_p.D653A|CHL1_uc003bow.1_Missense_Mutation_p.D637A|CHL1_uc011asi.1_Missense_Mutation_p.D653A|uc003box.1_Intron	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	637	Fibronectin type-III 1.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		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)		GCTGGAGCTGACCACAACAGC	0.418													6	116					0	0	0.001984	0	0		C	423943	C	C	423943	3	2	173	1	0	0	0	0	1	0	0	0	3352	275	10	5	2016	5	CHL1	3	423943	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08		423943	197598487	56	90257											
CNTN6	27255	broad.mit.edu	37	chr3	1269539	1269539	+	Missense_Mutation	SNP	A	C	C	1	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	cagacattgattttactatgAgttatcactacaggttggat	12	15	8	6	0	1	3	1	2	0	1	1	4	1	4	0	2	2	2	0	2	4	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:1269539A>C	uc003boz.2	+	4	487	c.220A>C	c.(220-222)AGT>CGT	p.S74R	CNTN6_uc010hbo.2_Missense_Mutation_p.S69R|CNTN6_uc011asj.1_Missense_Mutation_p.S2R|CNTN6_uc003bpa.2_Missense_Mutation_p.S74R	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	74	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TTTTACTATGAGTTATCACTA	0.393													25	157					0	0	0.01892	0	0		C	1269539	C	C	1269539	3	2	173	1	0	0	0	0	1	0	0	0	3648	304	11	5	230	5	CNTN6	3	1269539	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	845596	1269539	196752891	57	90258											
CNTN6	27255	broad.mit.edu	37	chr3	1415424	1415424	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcggacaccattttctgtGggttggcaggctgttgctac	6	13	12	10	1	1	0	0	0	1	0	2	1	1	1	1	4	2	5	1	4	1	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:1415424G>A	uc003boz.2	+	15	2190	c.1923G>A	c.(1921-1923)GTG>GTA	p.V641V	CNTN6_uc011asj.1_Silent_p.V569V|CNTN6_uc003bpa.2_Silent_p.V641V	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	641	Fibronectin type-III 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		CATTTTCTGTGGGTTGGCAGG	0.323													46	74					0	0	0.01441	0	0		A	1415424	A	A	1415424	2	1	173	1	0	0	0	0	0	0	0	1	3648	1335	47	4		4	CNTN6	3	1415424	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	145885	1415424	196607006	58	90259											
NR1D2	9975	broad.mit.edu	37	chr3	24001267	24001267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaacagatgtcagcaatgtCgcttcaaaaagtgtctgtct	12	11	10	8	1	4	1	2	0	2	1	5	2	4	2	0	1	2	2	0	1	4	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:24001267C>T	uc003ccs.2	+	4	797	c.478C>T	c.(478-480)CGC>TGC	p.R160C	NR1D2_uc010hfd.2_RNA|NR1D2_uc011awk.1_Missense_Mutation_p.R85C	NM_005126	NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2	160	Nuclear receptor.|NR C4-type.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			urinary_tract(1)|kidney(1)|skin(1)	3						TCAGCAATGTCGCTTCAAAAA	0.383													16	77					0	0	0.028581	0	0		T	24001267	T	T	24001267	3	4	173	1	0	0	0	0	1	0	0	0	10635	884	31	1	492	1	NR1D2	3	24001267	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	22585843	24001267	174021163	59	90260											
TRANK1	9881	broad.mit.edu	37	chr3	36887808	36887808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atatttgaatgcgggagcccGtttctctcggttttcatcaa	8	15	9	9	3	3	1	2	1	1	0	5	2	3	2	1	2	2	2	1	2	3	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:36887808G>A	uc003cgj.2	-	7	3642	c.3340C>T	c.(3340-3342)CGG>TGG	p.R1114W		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1664					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						GCGGGAGCCCGTTTCTCTCGG	0.418													7	22					0	0	0.00308	0	0		A	36887808	A	A	36887808	3	1	173	1	0	0	0	0	1	0	0	0	16480	1144	40	1	3819	1	TRANK1	3	36887808	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	12886541	36887808	161134622	60	90261											
EXOG	9941	broad.mit.edu	37	chr3	38539262	38539262	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaacatatttccaaaagcaaGataatgggtaggtggttgga	15	10	12	4	0	0	1	0	0	0	1	1	3	1	2	1	4	2	3	1	4	7	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:38539262G>A	uc003cih.2	+	2	402	c.306G>A	c.(304-306)AAG>AAA	p.K102K	EXOG_uc010hhg.2_Intron|EXOG_uc011ayq.1_Intron|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_Intron|EXOG_uc010hhe.2_Intron|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_Intron	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	102						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						CCAAAAGCAAGATAATGGGTA	0.343													12	102					0	0	0.016723	0	0		A	38539262	A	A	38539262	2	1	173	1	0	0	0	0	0	0	0	1	5320	933	33	4		4	EXOG	3	38539262	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	1651454	38539262	159483168	61	90262											
SCN5A	6331	broad.mit.edu	37	chr3	38592796	38592796	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggaagttgaacatgtcGtcgatgccagcctcccactt	8	11	10	12	2	1	1	0	1	1	0	4	3	2	2	3	1	3	1	3	1	2	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:38592796G>A	uc003cio.2	-	28	5261	c.5067C>T	c.(5065-5067)GAC>GAT	p.D1689D	SCN5A_uc003cin.2_Silent_p.D1688D|SCN5A_uc003cil.3_Silent_p.D1689D|SCN5A_uc010hhi.2_Silent_p.D1671D|SCN5A_uc010hhk.2_Silent_p.D1656D|SCN5A_uc011ayr.1_Silent_p.D1635D	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1689					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TGAACATGTCGTCGATGCCAG	0.562													30	188					0	0	0.009535	0	0		A	38592796	A	A	38592796	2	1	173	1	0	0	0	0	0	0	0	1	13947	1136	40	1		1	SCN5A	3	38592796	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	53534	38592796	159429634	62	90263											
SCN11A	11280	broad.mit.edu	37	chr3	38938681	38938681	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttaattagtgtgttcaaAgttggccaggatttggctaa	11	15	10	5	0	2	0	1	0	1	0	2	1	2	1	1	3	0	3	1	3	4	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:38938681A>C	uc011ays.1	-	14	2257	c.2058T>G	c.(2056-2058)ACT>ACG	p.T686T	SCN11A_uc010hhn.1_5'Flank	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	686	Helical; Voltage-sensor; Name=S4 of repeat II; (By similarity).|II.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	GTGTGTTCAAAGTTGGCCAGG	0.428													14	64					0	0	0.024245	0	0		C	38938681	C	C	38938681	2	2	173	1	0	0	0	0	0	0	0	1	13938	59	3	5		5	SCN11A	3	38938681	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	345885	38938681	159083749	63	90264											
TTC21A	199223	broad.mit.edu	37	chr3	39162529	39162529	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctagggctagtgtgtagtttCatcgagcgcaccttcatggc	7	12	12	10	2	2	0	2	0	0	0	3	1	2	0	1	2	1	4	1	2	3	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:39162529C>T	uc003cjc.2	+	9	1143	c.966C>T	c.(964-966)TTC>TTT	p.F322F	TTC21A_uc003cje.2_Silent_p.F322F|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Silent_p.F273F	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	322							binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		TGTGTAGTTTCATCGAGCGCA	0.522													67	147					0	0	0.01441	0	0		T	39162529	T	T	39162529	2	4	173	1	0	0	0	0	0	0	0	1	16713	825	29	4		4	TTC21A	3	39162529	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	223848	39162529	158859901	64	90265			1	39		3	3	62	C		1.241307e-07
TTC21A	199223	broad.mit.edu	37	chr3	39162565	39162565	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atggccaccccctcgtatgtCcatgtggccacagaactggg	8	8	11	14	1	0	1	0	0	0	1	2	1	1	1	5	3	1	1	5	3	2	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:39162565C>G	uc003cjc.2	+	9	1179	c.1002C>G	c.(1000-1002)GTC>GTG	p.V334V	TTC21A_uc003cje.2_Silent_p.V334V|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Silent_p.V285V	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	334	TPR 6.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		CCTCGTATGTCCATGTGGCCA	0.517													75	146					0	0	0.01441	0	0		G	39162565	G	G	39162565	2	3	173	1	0	0	0	0	0	0	0	1	16713	842	30	5		5	TTC21A	3	39162565	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	36	39162565	158859865	65	90266			1	39		3	3	62	C		1.241307e-07
TTC21A	199223	broad.mit.edu	37	chr3	39162590	39162590	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggccacagaactgggctatCtcttcatcctgaagaaccaa	12	9	8	12	0	2	3	1	1	1	2	4	3	3	3	3	2	2	1	3	2	5	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:39162590C>G	uc003cjc.2	+	9	1204	c.1027C>G	c.(1027-1029)CTC>GTC	p.L343V	TTC21A_uc003cje.2_Missense_Mutation_p.L343V|TTC21A_uc003cjd.2_RNA|TTC21A_uc011ayx.1_Missense_Mutation_p.L294V	NM_145755	NP_665698	Q8NDW8	TT21A_HUMAN	tetratricopeptide repeat domain 21A isoform 2	343	TPR 6.						binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0588)|Kidney(284;0.0738)		ACTGGGCTATCTCTTCATCCT	0.512													66	157					0	0	0.01441	0	0		G	39162590	G	G	39162590	3	3	173	1	0	0	0	0	1	0	0	0	16713	913	32	5	1061	5	TTC21A	3	39162590	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	25	39162590	158859840	66	90267			1	39		3	3	62	C		1.241307e-07
WDR6	11180	broad.mit.edu	37	chr3	49052400	49052400	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcttcgtgcttgctgtggaGatgctacagctagaagaggc	8	11	14	8	1	1	3	0	0	1	3	2	4	1	3	0	2	5	4	0	2	3	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:49052400G>A	uc003cvj.2	+	6	3273	c.3135G>A	c.(3133-3135)GAG>GAA	p.E1045E	WDR6_uc011bby.1_Silent_p.E493E|WDR6_uc010hkn.2_Silent_p.E989E|WDR6_uc011bbz.1_Silent_p.E964E	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	1015	WD 15.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		TTGCTGTGGAGATGCTACAGC	0.587													62	81					0	0	0.01441	0	0		A	49052400	A	A	49052400	2	1	173	1	0	0	0	0	0	0	0	1	17336	933	33	4		4	WDR6	3	49052400	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	9889810	49052400	148970030	67	90268											
WDR6	11180	broad.mit.edu	37	chr3	49052464	49052464	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccagctgcgtgtgctagagGaatactctgtcccctgtgca	7	10	11	13	1	1	1	0	0	1	1	2	2	2	2	3	1	5	3	3	1	3	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:49052464G>T	uc003cvj.2	+	6	3337	c.3199G>T	c.(3199-3201)GAA>TAA	p.E1067*	WDR6_uc011bby.1_Nonsense_Mutation_p.E515*|WDR6_uc010hkn.2_Nonsense_Mutation_p.E1011*|WDR6_uc011bbz.1_Nonsense_Mutation_p.E986*|DALRD3_uc003cvk.1_3'UTR|DALRD3_uc003cvl.1_3'UTR|DALRD3_uc003cvm.1_3'UTR|DALRD3_uc010hko.1_3'UTR	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	1037					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		TGTGCTAGAGGAATACTCTGT	0.557													38	72					1.07637e-12	1.14035e-12	0.021022	1	0		T	49052464	T	T	49052464	4	4	173	1	0	0	0	0	0	1	0	0	17336	1175	41	5	3221	5	WDR6	3	49052464	Nonsense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	64	49052464	148969966	68	90269											
CACNA2D3	55799	broad.mit.edu	37	chr3	54603875	54603875	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccttcgactgcaggaacCgaaaatggtaggcagtggtc	10	9	13	9	2	0	0	0	0	0	0	2	3	0	1	2	4	3	3	2	4	4	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:54603875C>T	uc003dhf.2	+	7	778	c.730C>T	c.(730-732)CGA>TGA	p.R244*	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Nonsense_Mutation_p.R150*|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_5'UTR	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	244	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		CTGCAGGAACCGAAAATGGTA	0.378													13	10					0	0	0.016723	0	0		T	54603875	T	T	54603875	4	4	173	1	0	0	0	0	0	1	0	0	2553	644	23	1	756	1	CACNA2D3	3	54603875	Nonsense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	5551411	54603875	143418555	69	90270											
TMF1	7110	broad.mit.edu	37	chr3	69075185	69075185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtagtcctgccatatcaaCaccacttattgaacttgagc	11	12	6	12	0	1	2	1	2	0	0	2	2	2	2	3	0	4	1	3	0	5	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:69075185C>T	uc003dnn.2	-	14	3068	c.2821G>A	c.(2821-2823)GTT>ATT	p.V941I	TMF1_uc011bfx.1_Missense_Mutation_p.V944I	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	941					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		GCCATATCAACACCACTTATT	0.343													21	71					0	0	0.01892	0	0		T	69075185	T	T	69075185	3	4	173	1	0	0	0	0	1	0	0	0	16253	478	17	4	476	4	TMF1	3	69075185	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	14471310	69075185	128947245	70	90271											
EPHA3	2042	broad.mit.edu	37	chr3	89462402	89462402	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccaacatatccattgataAagttgttggagcaggtaacc	14	10	8	9	0	0	1	0	1	0	0	1	2	1	2	3	2	3	4	3	2	5	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:89462402A>C	uc003dqy.2	+	10	2099	c.1874A>C	c.(1873-1875)AAA>ACA	p.K625T	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	625	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TCCATTGATAAAGTTGTTGGA	0.423										TSP Lung(6;0.00050)			56	55					0	0	0.01441	0	0		C	89462402	C	C	89462402	3	2	173	1	0	0	0	0	1	0	0	0	5176	14	1	5	1938	5	EPHA3	3	89462402	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	20387217	89462402	108560028	71	90272											
EPHA6	285220	broad.mit.edu	37	chr3	97202873	97202873	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaggagattgatccctcaAgaattcgtattgagagagtc	14	10	10	7	1	1	5	1	2	0	3	4	7	2	5	1	1	0	1	1	1	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:97202873A>G	uc010how.1	+	10	2213	c.2170A>G	c.(2170-2172)AGA>GGA	p.R724G	EPHA6_uc011bgo.1_RNA|EPHA6_uc011bgp.1_Missense_Mutation_p.R90G|EPHA6_uc003drs.3_Missense_Mutation_p.R116G|EPHA6_uc003drr.3_Missense_Mutation_p.R116G|EPHA6_uc003drt.2_Missense_Mutation_p.R116G|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	629	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TGATCCCTCAAGAATTCGTAT	0.294													13	29					0	0	0.013537	0	0		G	97202873	G	G	97202873	3	3	173	1	0	0	0	0	1	0	0	0	5179	64	3	3	2276	3	EPHA6	3	97202873	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	7740471	97202873	100819557	72	90273											
TRAT1	50852	broad.mit.edu	37	chr3	108572596	108572596	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	agcaactacatgcaatagatGccagcgtttctaagaccacc	14	8	7	12	1	1	2	0	0	1	2	1	2	1	2	3	0	6	3	3	0	5	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:108572596G>T	uc003dxi.1	+	6	577	c.433G>T	c.(433-435)GCC>TCC	p.A145S	TRAT1_uc010hpx.1_Missense_Mutation_p.A108S	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	145	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						TGCAATAGATGCCAGCGTTTC	0.448													11	36					1.08611e-07	1.1348e-07	0.010729	1	0		T	108572596	T	T	108572596	3	4	173	1	0	0	0	0	1	0	0	0	16492	1319	46	5	455	5	TRAT1	3	108572596	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	11369723	108572596	89449834	73	90274											
EAF2	55840	broad.mit.edu	37	chr3	121591406	121591406	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaggcagaagctagtctAatggaccagatgagtagttg	13	9	13	6	0	1	4	0	2	1	2	1	5	1	5	1	2	1	4	1	2	5	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:121591406A>C	uc003een.2	+	5	606	c.507A>C	c.(505-507)CTA>CTC	p.L169L	EAF2_uc003eeo.2_Silent_p.L39L	NM_018456	NP_060926	Q96CJ1	EAF2_HUMAN	ELL associated factor 2	169					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	protein binding				0				GBM - Glioblastoma multiforme(114;0.0972)		AAGCTAGTCTAATGGACCAGA	0.299													33	164					0	0	0.019004	0	0		C	121591406	C	C	121591406	2	2	173	1	0	0	0	0	0	0	0	1	4882	349	13	5		5	EAF2	3	121591406	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	13018810	121591406	76431024	74	90275											
MCM2	4171	broad.mit.edu	37	chr3	127339719	127339719	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcgtcatgcgcagcatgcGcaaggtgggtgtgctccgag	7	7	16	11	4	1	0	1	0	0	0	2	1	2	0	1	2	5	4	1	2	1	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:127339719G>A	uc003ejp.2	+	14	2501	c.2444G>A	c.(2443-2445)CGC>CAC	p.R815H	MCM2_uc011bkm.1_Missense_Mutation_p.R685H|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.R768H	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	815					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CGCAGCATGCGCAAGGTGGGT	0.602													14	47					0	0	0.020292	0	0		A	127339719	A	A	127339719	3	1	173	1	0	0	0	0	1	0	0	0	9404	1087	38	1	2498	1	MCM2	3	127339719	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	5748313	127339719	70682711	75	90276											
SKIL	6498	broad.mit.edu	37	chr3	170078371	170078371	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactttgcatttaaatccCagtttgaaacacacattggc	14	12	6	9	0	0	1	0	1	0	0	1	2	1	1	1	1	3	2	1	1	4	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:170078371C>T	uc003fgu.2	+	2	964	c.252C>T	c.(250-252)CCC>CCT	p.P84P	SKIL_uc011bps.1_Silent_p.P64P|SKIL_uc003fgv.2_Silent_p.P84P|SKIL_uc003fgw.2_Silent_p.P84P	NM_005414	NP_005405	P12757	SKIL_HUMAN	SKI-like isoform 1	84					cell cycle arrest|negative regulation of cell differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of axonogenesis|protein heterotrimerization|protein homotrimerization|regulation of apoptosis|regulation of apoptosis|response to antibiotic|response to growth factor stimulus|skeletal muscle tissue development	cytoplasm|PML body	chromatin binding|nucleotide binding|protein complex binding|protein domain specific binding|SMAD binding|transcription corepressor activity|transcription repressor activity			ovary(2)|skin(1)	3	all_cancers(22;7.13e-23)|all_epithelial(15;9.95e-28)|all_lung(20;1.23e-16)|Lung NSC(18;5.15e-16)|Ovarian(172;0.000337)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			ATTTAAATCCCAGTTTGAAAC	0.458													37	122					0	0	0.017118	0	0		T	170078371	T	T	170078371	2	4	173	1	0	0	0	0	0	0	0	1	14383	581	21	4		4	SKIL	3	170078371	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	42738652	170078371	27944059	76	90277											
NAALADL2	254827	broad.mit.edu	37	chr3	174814787	174814787	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagactatagacctcaatcTtgattccattcaaccagcaa	15	10	5	11	0	3	3	2	1	1	2	4	4	4	3	3	0	2	1	3	0	5	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr3:174814787T>G	uc003fit.2	+	2	338	c.251T>G	c.(250-252)CTT>CGT	p.L84R	NAALADL2_uc003fiu.1_Missense_Mutation_p.L77R	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	84	Cytoplasmic (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		GACCTCAATCTTGATTCCATT	0.448													5	57					0	0	0.014758	0	0		G	174814787	G	G	174814787	3	3	173	1	0	0	0	0	1	0	0	0	10148	1609	56	5	257	5	NAALADL2	3	174814787	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	4736416	174814787	23207643	77	90278											
FAM193A	8603	broad.mit.edu	37	chr4	2695327	2695327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcaggtgacgtgtttcatGgcatcagcaaggaggaccac	11	8	13	9	1	2	1	2	1	0	0	2	3	2	3	1	4	2	4	1	4	1	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:2695327G>A	uc010icl.2	+	14	2296	c.1945G>A	c.(1945-1947)GGC>AGC	p.G649S	FAM193A_uc010ick.2_Missense_Mutation_p.G849S|FAM193A_uc003gfd.2_Missense_Mutation_p.G649S|FAM193A_uc011bvm.1_Missense_Mutation_p.G671S|FAM193A_uc011bvn.1_Missense_Mutation_p.G649S|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.G503S	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	649										ovary(3)	3						CGTGTTTCATGGCATCAGCAA	0.473													10	69					0	0	0.008291	0	0		A	2695327	A	A	2695327	3	1	173	1	0	0	0	0	1	0	0	0	5535	1348	47	4	1991	4	FAM193A	4	2695327	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08		2695327	188458949	78	90279											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107340	6107340	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcctctgcctgcttgcGcgctgccttgagctccagga	3	10	11	17	3	1	1	0	1	1	0	3	2	3	2	5	1	5	3	5	1	0	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:6107340G>A	uc003giu.3	-	3	760	c.484C>T	c.(484-486)CGC>TGC	p.R162C	JAKMIP1_uc010idb.1_Missense_Mutation_p.R162C|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.R162C|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Missense_Mutation_p.R162C|JAKMIP1_uc010ide.2_Missense_Mutation_p.R162C	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	162	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GCCTGCTTGCGCGCTGCCTTG	0.677													3	3					0	0	0.004672	0	0		A	6107340	A	A	6107340	3	1	173	1	0	0	0	0	1	0	0	0	7956	1087	38	1	2162	1	JAKMIP1	4	6107340	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	3412013	6107340	185046936	79	90280											
ZNF518B	85460	broad.mit.edu	37	chr4	10445604	10445604	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtgggcattctcagaGgaattaagaaccctcaacac	14	9	9	9	0	2	3	2	1	1	2	3	4	2	4	1	2	2	1	1	2	4	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:10445604G>A	uc003gmn.2	-	3	2836	c.2349C>T	c.(2347-2349)TCC>TCT	p.S783S		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	783					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						CATTCTCAGAGGAATTAAGAA	0.468													18	24					0	0	0.00499	0	0		A	10445604	A	A	10445604	2	1	173	1	0	0	0	0	0	0	0	1	17988	987	35	4		4	ZNF518B	4	10445604	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	4338264	10445604	180708672	80	90281											
SLIT2	9353	broad.mit.edu	37	chr4	20258306	20258306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttctcttagggatttaaatgGaaataacatcacaagaatta	17	13	6	5	0	2	1	1	0	1	1	3	3	2	3	0	2	1	0	0	2	8	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:20258306G>A	uc003gpr.1	+	2	395	c.191G>A	c.(190-192)GGA>GAA	p.G64E	SLIT2_uc003gps.1_Missense_Mutation_p.G64E	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	64	LRR 1.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GATTTAAATGGAAATAACATC	0.299													9	34					0	0	0.006214	0	0		A	20258306	A	A	20258306	3	1	173	1	0	0	0	0	1	0	0	0	14765	1174	41	4	197	4	SLIT2	4	20258306	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	9812702	20258306	170895970	81	90282											
SLIT2	9353	broad.mit.edu	37	chr4	20525501	20525501	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccatcgccaaggggacctttTcacctcttcgggccattcaa	8	10	8	15	2	3	0	2	0	1	0	5	1	3	1	5	3	0	0	5	3	2	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:20525501T>G	uc003gpr.1	+	13	1453	c.1249T>G	c.(1249-1251)TCA>GCA	p.S417A	SLIT2_uc003gps.1_Missense_Mutation_p.S417A	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	417	LRR 11.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						GGGGACCTTTTCACCTCTTCG	0.433													14	78					0	0	0.024245	0	0		G	20525501	G	G	20525501	3	3	173	1	0	0	0	0	1	0	0	0	14765	1783	62	5	1299	5	SLIT2	4	20525501	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	267195	20525501	170628775	82	90283											
CORIN	10699	broad.mit.edu	37	chr4	47647108	47647108	+	Silent	SNP	C	T	T																															aagcacttacagcagtttttCtcgtccatgtaatcagggca																										TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:47647108C>T	uc003gxm.2	-	14	2040	c.1947G>A	c.(1945-1947)GAG>GAA	p.E649E	CORIN_uc011bzf.1_Silent_p.E510E|CORIN_uc011bzg.1_Silent_p.E582E|CORIN_uc011bzh.1_Silent_p.E612E	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	649	Extracellular (Potential).|LDL-receptor class A 6.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						AGCAGTTTTTCTCGTCCATGT	0.378													19	67					0	0	0.008871	0	0		T	47647108	T	T	47647108	2	4	173	1	0	0	0	0	0	0	0	1	3755	912	32	4		4	CORIN	4	47647108	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	27121607	47647108	143507168	83	90284	165	2									
CORIN	10699	broad.mit.edu	37	chr4	47647114	47647114	+	Missense_Mutation	SNP	C	A	A																															ttacagcagtttttctcgtcCatgtaatcagggcagtctgg																										TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:47647114C>A	uc003gxm.2	-	14	2034	c.1941G>T	c.(1939-1941)ATG>ATT	p.M647I	CORIN_uc011bzf.1_Missense_Mutation_p.M508I|CORIN_uc011bzg.1_Missense_Mutation_p.M580I|CORIN_uc011bzh.1_Missense_Mutation_p.M610I	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	647	Extracellular (Potential).|LDL-receptor class A 6.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						TTTTCTCGTCCATGTAATCAG	0.383													19	72					2.37509e-13	2.5251e-13	0.010504	1	0		A	47647114	A	A	47647114	3	1	173	1	0	0	0	0	1	0	0	0	3755	594	21	5	1223	5	CORIN	4	47647114	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	6	47647114	143507162	84	90285	165	2									
ADAMTS3	9508	broad.mit.edu	37	chr4	73186470	73186470	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtcttgcctggttaaaaAaattgcatggtcatggtgtt	12	14	10	5	0	2	0	1	0	1	0	2	0	2	0	1	3	2	3	1	3	5	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:73186470A>C	uc003hgk.1	-	7	1100	c.1063T>G	c.(1063-1065)TTT>GTT	p.F355V		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	355	Peptidase M12B.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CTGGTTAAAAAAATTGCATGG	0.433													29	33					0	0	0.008361	0	0		C	73186470	C	C	73186470	3	2	173	1	0	0	0	0	1	0	0	0	267	14	1	5	2618	5	ADAMTS3	4	73186470	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	25539356	73186470	117967806	85	90286											
PTPN13	5783	broad.mit.edu	37	chr4	87685813	87685813	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttcttcatcacctcctaAgcctggagatatctttgagg	8	16	7	10	0	4	2	2	1	2	1	5	3	5	2	3	2	1	0	3	2	2	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:87685813A>C	uc003hpz.2	+	25	4565	c.4085A>C	c.(4084-4086)AAG>ACG	p.K1362T	PTPN13_uc003hpy.2_Missense_Mutation_p.K1362T|PTPN13_uc003hqa.2_Missense_Mutation_p.K1343T|PTPN13_uc003hqb.2_Missense_Mutation_p.K1171T	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	1362				KP -> RS (in Ref. 5; CAA56124).		cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TCACCTCCTAAGCCTGGAGAT	0.348													7	8					0	0	0.001984	0	0		C	87685813	C	C	87685813	3	2	173	1	0	0	0	0	1	0	0	0	12805	72	3	5	4179	5	PTPN13	4	87685813	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	14499343	87685813	103468463	86	90287											
ANK2	287	broad.mit.edu	37	chr4	114176918	114176918	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tgtctccactacacatggctGcccagggagaccacgtggaa	10	7	11	13	1	1	1	0	0	1	1	2	3	1	2	3	3	2	1	3	3	2	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:114176918G>T	uc003ibe.3	+	11	1118	c.1018G>T	c.(1018-1020)GCC>TCC	p.A340S	ANK2_uc003ibd.3_Missense_Mutation_p.A319S|ANK2_uc003ibf.3_Missense_Mutation_p.A340S|ANK2_uc003ibc.2_Missense_Mutation_p.A316S|ANK2_uc011cgb.1_Missense_Mutation_p.A355S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	340	ANK 10.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		ACACATGGCTGCCCAGGGAGA	0.453													45	83					7.88023e-25	8.46706e-25	0.01441	1	0		T	114176918	T	T	114176918	3	4	173	1	0	0	0	0	1	0	0	0	621	1319	46	5	1085	5	ANK2	4	114176918	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	26491105	114176918	76977358	87	90288											
CCNA2	890	broad.mit.edu	37	chr4	122739317	122739317	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggtatatccagtctttcGtattaatgattcaggctaca	11	14	8	8	1	2	1	1	1	1	0	4	1	3	1	1	2	1	3	1	2	5	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:122739317G>C	uc003iec.3	-	7	1437	c.1132C>G	c.(1132-1134)CGA>GGA	p.R378G		NM_001237	NP_001228	P20248	CCNA2_HUMAN	cyclin A	378					cell division|mitosis|mitotic cell cycle G2/M transition DNA damage checkpoint|Ras protein signal transduction|regulation of cyclin-dependent protein kinase activity	cytoplasm|nucleoplasm	protein kinase binding			ovary(1)	1						CCAGTCTTTCGTATTAATGAT	0.413													10	90					0	0	0.010729	0	0		C	122739317	C	C	122739317	3	2	173	1	0	0	0	0	1	0	0	0	2913	1153	40	5	174	5	CCNA2	4	122739317	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	8562399	122739317	68414959	88	90289											
BBS7	55212	broad.mit.edu	37	chr4	122774116	122774116	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttaatgaacttacctgatCaaatcgtagaacaggttcat	14	14	6	7	1	2	3	2	2	0	1	3	3	2	3	1	1	3	2	1	1	6	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:122774116C>G	uc003ied.2	-	8	1018	c.844G>C	c.(844-846)GAT>CAT	p.D282H	BBS7_uc003iee.1_Missense_Mutation_p.D282H	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	282					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						CTTACCTGATCAAATCGTAGA	0.303									Bardet-Biedl_syndrome				4	39					0	0	0.009096	0	0		G	122774116	G	G	122774116	3	3	173	1	0	0	0	0	1	0	0	0	1342	826	29	5	1356	5	BBS7	4	122774116	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	34799	122774116	68380160	89	90290											
KIAA1109	84162	broad.mit.edu	37	chr4	123161001	123161001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggattccagcatgtcaatGgctgatagtgaagcctactt	11	12	10	8	0	1	2	1	2	0	0	2	3	2	3	2	2	3	2	2	2	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:123161001G>A	uc003ieh.2	+	27	4209	c.4164G>A	c.(4162-4164)ATG>ATA	p.M1388I	KIAA1109_uc003iei.1_Missense_Mutation_p.M1141I|KIAA1109_uc010ins.1_Missense_Mutation_p.M731I|KIAA1109_uc003iek.2_Missense_Mutation_p.M7I	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1388					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GCATGTCAATGGCTGATAGTG	0.428													22	39					0	0	0.01892	0	0		A	123161001	A	A	123161001	3	1	173	1	0	0	0	0	1	0	0	0	8224	1348	47	4	4270	4	KIAA1109	4	123161001	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	386885	123161001	67993275	90	90291											
PCDH18	54510	broad.mit.edu	37	chr4	138451176	138451176	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggatgcctggcttactgaAgtcattgctgtacttgtcac	9	13	10	9	0	2	1	2	1	0	0	2	2	2	2	1	2	4	3	1	2	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:138451176A>G	uc003ihe.3	-	1	2454	c.2067T>C	c.(2065-2067)ACT>ACC	p.T689T	PCDH18_uc003ihf.3_Silent_p.T682T|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Silent_p.T469T|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	689	Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GGCTTACTGAAGTCATTGCTG	0.403													15	170					0	0	0.024245	0	0		G	138451176	G	G	138451176	2	3	173	1	0	0	0	0	0	0	0	1	11532	59	3	3		3	PCDH18	4	138451176	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	15290175	138451176	52703100	91	90292											
GUCY1A3	2982	broad.mit.edu	37	chr4	156632253	156632253	+	Silent	SNP	A	G	G	1	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	agaaggctgatgaacaggagAgactttcaaggaaagcctaa	17	6	12	6	0	1	4	1	2	0	2	1	7	1	6	1	3	2	1	1	3	5	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:156632253A>G	uc003iov.2	+	7	1472	c.936A>G	c.(934-936)AGA>AGG	p.R312R	GUCY1A3_uc003iou.2_Silent_p.R312R|GUCY1A3_uc010iqc.2_Silent_p.R312R|GUCY1A3_uc003iow.2_Silent_p.R312R|GUCY1A3_uc010iqd.2_Silent_p.R311R|GUCY1A3_uc003iox.2_Silent_p.R312R|GUCY1A3_uc003ioz.2_Silent_p.R77R|GUCY1A3_uc003ioy.2_Silent_p.R312R|GUCY1A3_uc010iqe.2_Silent_p.R77R|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Silent_p.R312R	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	312					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		TGAACAGGAGAGACTTTCAAG	0.378													7	41					0	0	0.00308	0	0		G	156632253	G	G	156632253	2	3	173	1	0	0	0	0	0	0	0	1	6910	301	11	3		3	GUCY1A3	4	156632253	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	18181077	156632253	34522023	92	90293											
FSTL5	56884	broad.mit.edu	37	chr4	162697220	162697220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtattcagtagtcttgcacTtatctcctgtaacaaaagaa	13	14	6	8	0	3	1	1	0	2	1	4	1	3	1	1	0	2	4	1	0	7	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr4:162697220T>C	uc003iqh.2	-	5	852	c.416A>G	c.(415-417)AAG>AGG	p.K139R	FSTL5_uc003iqi.2_Missense_Mutation_p.K138R|FSTL5_uc010iqv.2_Missense_Mutation_p.K138R	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	139						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		AGTCTTGCACTTATCTCCTGT	0.254													7	17					0	0	0.00308	0	0		C	162697220	C	C	162697220	3	2	173	1	0	0	0	0	1	0	0	0	6094	1609	56	3	2175	3	FSTL5	4	162697220	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	6064967	162697220	28457056	93	90294											
CDH18	1016	broad.mit.edu	37	chr5	19721530	19721530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgagcgctgtttccatagGtagggtcatctgcatcagta	8	11	11	11	2	3	0	2	0	1	0	4	1	4	0	2	2	2	5	2	2	3	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:19721530G>A	uc003jgc.2	-	4	946	c.569C>T	c.(568-570)ACC>ATC	p.T190I	CDH18_uc003jgd.2_Missense_Mutation_p.T190I|CDH18_uc011cnm.1_Missense_Mutation_p.T190I	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	190	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GTTTCCATAGGTAGGGTCATC	0.443													10	151					0	0	0.010729	0	0		A	19721530	A	A	19721530	3	1	173	1	0	0	0	0	1	0	0	0	3106	1261	44	4	1839	4	CDH18	5	19721530	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08		19721530	161193730	94	90295											
CDH10	1008	broad.mit.edu	37	chr5	24498534	24498534	+	Silent	SNP	A	G	G	1	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	ggtctggcattttcacatacAaaagtgtcatagaacacagc	14	10	8	9	0	3	1	2	0	1	1	3	1	3	1	0	2	3	1	0	2	5	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:24498534A>G	uc003jgr.1	-	9	1820	c.1488T>C	c.(1486-1488)TTT>TTC	p.F496F	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	496	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTTCACATACAAAAGTGTCAT	0.393										HNSCC(23;0.051)			12	84					0	0	0.016723	0	0		G	24498534	G	G	24498534	2	3	173	1	0	0	0	0	0	0	0	1	3099	127	5	3		3	CDH10	5	24498534	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	4777004	24498534	156416726	95	90296											
SPEF2	79925	broad.mit.edu	37	chr5	35704684	35704684	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgtcctataaaactgctcaCgaagatatcagtcaacgtgt	13	12	7	9	2	3	1	3	0	0	1	4	2	4	1	1	0	3	1	1	0	6	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:35704684C>T	uc003jjo.2	+	17	2538	c.2427C>T	c.(2425-2427)CAC>CAT	p.H809H	SPEF2_uc003jjq.3_Silent_p.H804H|SPEF2_uc003jjp.1_Silent_p.H295H	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	809					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAACTGCTCACGAAGATATCA	0.313													14	87					0	0	0.024245	0	0		T	35704684	T	T	35704684	2	4	173	1	0	0	0	0	0	0	0	1	15060	535	19	1		1	SPEF2	5	35704684	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	11206150	35704684	145210576	96	90297											
RANBP3L	202151	broad.mit.edu	37	chr5	36249771	36249771	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtattcatgaacaggcaacCgactgtctgtgagtccaact	12	10	9	10	1	2	2	1	2	1	0	3	3	3	2	2	1	3	2	2	1	4	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:36249771C>T	uc003jkh.2	-	14	1876	c.1383G>A	c.(1381-1383)TCG>TCA	p.S461S	RANBP3L_uc011cow.1_Silent_p.S486S	NM_145000	NP_659437	Q86VV4	RNB3L_HUMAN	RAN binding protein 3-like isoform 2	461					intracellular transport					ovary(1)	1	all_lung(31;4.52e-05)		Epithelial(62;0.0543)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.149)|Colorectal(62;0.202)			AACAGGCAACCGACTGTCTGT	0.308													7	189					0	0	0.001984	0	0		T	36249771	T	T	36249771	2	4	173	1	0	0	0	0	0	0	0	1	13055	639	23	1		1	RANBP3L	5	36249771	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	545087	36249771	144665489	97	90298											
EGFLAM	133584	broad.mit.edu	37	chr5	38370543	38370543	+	Missense_Mutation	SNP	A	G	G	1	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	ccagcccccgcagctggcccAgtgacatcatccggaccctc	7	5	9	20	2	1	1	1	1	0	0	3	2	2	2	6	2	2	2	6	2	0	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:38370543A>G	uc003jlc.1	+	6	1015	c.691A>G	c.(691-693)AGT>GGT	p.S231G	EGFLAM_uc003jlb.1_Missense_Mutation_p.S231G	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	231	Fibronectin type-III 2.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CAGCTGGCCCAGTGACATCAT	0.567													5	40					0	0	0.021553	0	0		G	38370543	G	G	38370543	3	3	173	1	0	0	0	0	1	0	0	0	4972	188	7	3	713	3	EGFLAM	5	38370543	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	2120772	38370543	142544717	98	90299											
MRPS30	10884	broad.mit.edu	37	chr5	44813250	44813250	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgttacggtcacacccagtTtcatctgttacctgacaaat	10	13	6	12	1	3	1	2	1	1	0	3	1	3	1	2	1	2	3	2	1	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:44813250T>G	uc003joh.2	+	4	934	c.896T>G	c.(895-897)TTT>TGT	p.F299C		NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	299					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					CACACCCAGTTTCATCTGTTA	0.388													11	75					0	0	0.016723	0	0		G	44813250	G	G	44813250	3	3	173	1	0	0	0	0	1	0	0	0	9858	1841	64	5	910	5	MRPS30	5	44813250	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	6442707	44813250	136102010	99	90300											
RASA1	5921	broad.mit.edu	37	chr5	86629108	86629108	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagaagatagaaggcgtgtaCgagctattctaccttacaca	14	10	9	8	2	1	3	0	0	1	3	1	4	1	3	1	1	4	2	1	1	8	7	rs137853218		TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:86629108C>T	uc003kiw.2	+	4	971	c.853C>T	c.(853-855)CGA>TGA	p.R285*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.R108*|RASA1_uc011ctv.1_Nonsense_Mutation_p.R118*|RASA1_uc011ctw.1_Nonsense_Mutation_p.R119*|RASA1_uc010jaw.2_Nonsense_Mutation_p.R108*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	285	SH3.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AAGGCGTGTACGAGCTATTCT	0.313													14	69					0	0	0.00499	0	0		T	86629108	T	T	86629108	4	4	173	1	0	0	0	0	0	1	0	0	13085	528	19	1	879	1	RASA1	5	86629108	Nonsense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	41815858	86629108	94286152	100	90301											
PJA2	9867	broad.mit.edu	37	chr5	108704318	108704318	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggccactgctatcactttgTagctcaggttcattctcatc	7	14	8	12	0	4	0	4	0	1	0	6	0	4	0	1	2	2	4	1	2	2	5	rs141863473		TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:108704318T>C	uc003kos.3	-	5	1633	c.1413A>G	c.(1411-1413)CTA>CTG	p.L471L		NM_014819	NP_055634	O43164	PJA2_HUMAN	praja 2, RING-H2 motif containing	471					long-term memory|regulation of protein kinase A signaling cascade	cell junction|endoplasmic reticulum membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	ligase activity|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)		TATCACTTTGTAGCTCAGGTT	0.393													3	105					0	0	0.004672	0	0		C	108704318	C	C	108704318	2	2	173	1	0	0	0	0	0	0	0	1	11981	1625	57	3		3	PJA2	5	108704318	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	22075210	108704318	72210942	101	90302											
SPOCK1	6695	broad.mit.edu	37	chr5	136324212	136324212	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgatacagggctcgtacTtatccaggtagatggcattg	9	12	12	8	1	0	2	0	1	0	1	2	2	1	2	1	3	2	5	1	3	4	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:136324212T>G	uc003lbo.2	-	7	1018	c.827A>C	c.(826-828)AAG>ACG	p.K276T	SPOCK1_uc003lbp.2_Missense_Mutation_p.K276T	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	276					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGGCTCGTACTTATCCAGGTA	0.493													11	76					0	0	0.008291	0	0		G	136324212	G	G	136324212	3	3	173	1	0	0	0	0	1	0	0	0	15104	1609	56	5	508	5	SPOCK1	5	136324212	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	27619894	136324212	44591048	102	90303											
PCDHB12	56124	broad.mit.edu	37	chr5	140590324	140590324	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccacggagcccgggctattCggcgtgtgggcgcacaatgg	6	6	17	12	5	0	0	0	0	0	0	1	1	0	1	2	5	1	2	2	5	2	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:140590324C>T	uc003liz.2	+	1	2034	c.1845C>T	c.(1843-1845)TTC>TTT	p.F615F	PCDHB12_uc011dak.1_Silent_p.F278F	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	615	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCGGGCTATTCGGCGTGTGGG	0.687													20	73					0	0	0.024334	0	0		T	140590324	T	T	140590324	2	4	173	1	0	0	0	0	0	0	0	1	11556	883	31	1		1	PCDHB12	5	140590324	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	4266112	140590324	40324936	103	90304											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794089	140794089	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgctacaagtggcagatatCaatgacaacccacctacctt	14	9	6	12	0	1	2	1	1	0	1	1	2	1	2	3	1	4	2	3	1	6	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:140794089C>T	uc003lkl.1	+	1	1347	c.1347C>T	c.(1345-1347)ATC>ATT	p.I449I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.I449I	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	449	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCAGATATCAATGACAACC	0.498													7	206					0	0	0.001984	0	0		T	140794089	T	T	140794089	2	4	173	1	0	0	0	0	0	0	0	1	11570	816	29	4		4	PCDHGA10	5	140794089	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	203765	140794089	40121171	104	90305											
BNIP1	662	broad.mit.edu	37	chr5	172590860	172590860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcttctcatcttccttgCgctagccctgtttcttgcta	5	16	6	14	1	3	0	1	0	3	0	5	0	4	0	2	0	4	4	2	0	3	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr5:172590860C>T	uc003mcj.3	+	6	727	c.623C>T	c.(622-624)GCG>GTG	p.A208V	BNIP1_uc003mci.3_Missense_Mutation_p.A251V|BNIP1_uc003mck.3_Missense_Mutation_p.A217V|BNIP1_uc003mcl.3_Missense_Mutation_p.A174V	NM_001205	NP_001196	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 1	208	Helical; Anchor for type IV membrane protein; (Potential).				anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			ATCTTCCTTGCGCTAGCCCTG	0.502													15	60					0	0	0.00499	0	0		T	172590860	T	T	172590860	3	4	173	1	0	0	0	0	1	0	0	0	1477	768	27	1	778	1	BNIP1	5	172590860	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	31796771	172590860	8324400	105	90306											
HIST1H2BL	8340	broad.mit.edu	37	chr6	27775400	27775400	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcaggcgcacggcggtctgGatctccctggaggtgatggt	6	8	17	10	3	2	1	0	1	2	0	3	3	2	3	1	7	1	2	1	7	0	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:27775400G>C	uc003njl.2	-	1	310	c.285C>G	c.(283-285)ATC>ATG	p.I95M	HIST1H3H_uc003njm.2_5'Flank	NM_003519	NP_003510	Q99880	H2B1L_HUMAN	histone cluster 1, H2bl	95					nucleosome assembly	nucleosome|nucleus	DNA binding				0						CGGCGGTCTGGATCTCCCTGG	0.617													57	88					0	0	0.01441	0	0		C	27775400	C	C	27775400	3	2	173	1	0	0	0	0	1	0	0	0	7167	1164	41	5	99	5	HIST1H2BL	6	27775400	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08		27775400	143339667	106	90307											
NKAPL	222698	broad.mit.edu	37	chr6	28227548	28227548	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggattggggaattgggagcGcctgaagtgtgggggccgtc	7	8	20	6	2	0	1	0	1	0	0	1	4	0	4	2	6	1	0	2	6	2	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:28227548G>A	uc003nkt.2	+	1	451	c.399G>A	c.(397-399)GCG>GCA	p.A133A	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	133										upper_aerodigestive_tract(1)|ovary(1)	2						AATTGGGAGCGCCTGAAGTGT	0.537													44	184					0	0	0.01441	0	0		A	28227548	A	A	28227548	2	1	173	1	0	0	0	0	0	0	0	1	10459	1074	38	1		1	NKAPL	6	28227548	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	452148	28227548	142887519	107	90308											
TDRD6	221400	broad.mit.edu	37	chr6	46659618	46659618	+	Missense_Mutation	SNP	T	G	G	0	1	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	aataaaaatagtcaagtgttTccattaacaacagaaaagaa	22	9	5	5	0	1	2	1	0	0	2	2	2	2	2	1	0	2	1	1	0	11	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:46659618T>G	uc003oyj.2	+	1	3753	c.3753T>G	c.(3751-3753)TTT>TTG	p.F1251L	TDRD6_uc010jze.2_Missense_Mutation_p.F1245L	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1251					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GTCAAGTGTTTCCATTAACAA	0.328													19	66					0	0	0.008871	0	0		G	46659618	G	G	46659618	3	3	173	1	0	0	0	0	1	0	0	0	15759	1780	62	5	3755	5	TDRD6	6	46659618	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	18432070	46659618	124455449	108	90309											
TFAP2D	83741	broad.mit.edu	37	chr6	50682950	50682950	+	Missense_Mutation	SNP	A	T	T	1	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	ttactccaccaccggcaccgAgtttgcgtccccctacttct	6	11	6	18	3	1	0	0	0	1	0	3	1	3	0	6	1	3	2	6	1	2	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:50682950A>T	uc003paf.2	+	2	673	c.161A>T	c.(160-162)GAG>GTG	p.E54V	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	54							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					ACCGGCACCGAGTTTGCGTCC	0.572													32	193					0	0	0.010818	0	0		T	50682950	T	T	50682950	3	4	173	1	0	0	0	0	1	0	0	0	15815	304	11	5	167	5	TFAP2D	6	50682950	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	4023332	50682950	120432117	109	90310											
GSTA1	2938	broad.mit.edu	37	chr6	52661050	52661050	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtagttgagaatggctctggTctgcaccagcttcatcccat	8	12	10	11	0	3	1	1	1	2	1	4	2	4	1	2	2	2	5	2	2	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:52661050T>C	uc003paz.2	-	4	314	c.202A>G	c.(202-204)ACC>GCC	p.T68A		NM_145740	NP_665683	P08263	GSTA1_HUMAN	glutathione S-transferase alpha 1	68	Glutathione binding.|GST N-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity			ovary(1)	1	Lung NSC(77;0.118)				Amsacrine(DB00276)|Busulfan(DB01008)|Glutathione(DB00143)	ATGGCTCTGGTCTGCACCAGC	0.423													107	143					0	0	0.01441	0	0		C	52661050	C	C	52661050	3	2	173	1	0	0	0	0	1	0	0	0	6846	1667	58	3	482	3	GSTA1	6	52661050	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	1978100	52661050	118454017	110	90311											
BAI3	577	broad.mit.edu	37	chr6	69653787	69653787	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttacatgtggtcgaggccaaAgaacaagaacaaggtcatgc	15	7	11	8	1	1	2	1	0	0	2	2	3	1	2	1	3	4	0	1	3	6	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:69653787A>C	uc003pev.3	+	6	1544	c.1096A>C	c.(1096-1098)AGA>CGA	p.R366R	BAI3_uc010kak.2_Silent_p.R366R	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	366	Extracellular (Potential).|TSP type-1 2.				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TCGAGGCCAAAGAACAAGAAC	0.448													19	53					0	0	0.008871	0	0		C	69653787	C	C	69653787	2	2	173	1	0	0	0	0	0	0	0	1	1301	64	3	5		5	BAI3	6	69653787	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	16992737	69653787	101461280	111	90312											
KCNQ5	56479	broad.mit.edu	37	chr6	73830234	73830234	+	Missense_Mutation	SNP	A	T	T	1	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	gcgtagttacgcagctgatgAgaaatctgtttccattgcaa	11	12	10	8	2	1	2	0	2	1	1	2	3	2	2	1	0	3	6	1	0	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:73830234A>T	uc003pgk.2	+	8	1501	c.1154A>T	c.(1153-1155)GAG>GTG	p.E385V	KCNQ5_uc003pgj.3_Missense_Mutation_p.E385V|KCNQ5_uc011dyh.1_Missense_Mutation_p.E385V|KCNQ5_uc011dyi.1_Missense_Mutation_p.E385V|KCNQ5_uc010kat.2_Missense_Mutation_p.E385V|KCNQ5_uc011dyj.1_Missense_Mutation_p.E385V|KCNQ5_uc011dyk.1_Missense_Mutation_p.E144V	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	385					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GCAGCTGATGAGAAATCTGTT	0.443													11	33					0	0	0.013537	0	0		T	73830234	T	T	73830234	3	4	173	1	0	0	0	0	1	0	0	0	8102	304	11	5	1184	5	KCNQ5	6	73830234	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	4176447	73830234	97284833	112	90313											
KCNQ5	56479	broad.mit.edu	37	chr6	73900325	73900325	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcatgttgcaaaacggaAgtttaaggaaacattacgtc	15	12	8	6	2	1	0	1	0	0	0	2	2	1	2	0	2	4	3	0	2	6	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:73900325A>G	uc003pgk.2	+	12	1954	c.1607A>G	c.(1606-1608)AAG>AGG	p.K536R	KCNQ5_uc011dyh.1_Missense_Mutation_p.K555R|KCNQ5_uc011dyi.1_Missense_Mutation_p.K546R|KCNQ5_uc010kat.2_Missense_Mutation_p.K527R|KCNQ5_uc011dyj.1_Missense_Mutation_p.K426R|KCNQ5_uc011dyk.1_Missense_Mutation_p.K286R	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	536					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GCAAAACGGAAGTTTAAGGAA	0.294													9	25					0	0	0.004482	0	0		G	73900325	G	G	73900325	3	3	173	1	0	0	0	0	1	0	0	0	8102	72	3	3	1714	3	KCNQ5	6	73900325	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	70091	73900325	97214742	113	90314											
COL12A1	1303	broad.mit.edu	37	chr6	75865381	75865381	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgtagttaattcctacctaAgttcctccaaaacaactgtg	13	12	5	11	1	0	0	0	0	0	0	3	0	3	0	4	0	3	3	4	0	7	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:75865381A>C	uc003phs.2	-	16	3606	c.3440T>G	c.(3439-3441)CTT>CGT	p.L1147R	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1147	Fibronectin type-III 8.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTCCTACCTAAGTTCCTCCAA	0.383													15	86					0	0	0.024245	0	0		C	75865381	C	C	75865381	3	2	173	1	0	0	0	0	1	0	0	0	3672	72	3	5	5955	5	COL12A1	6	75865381	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	1965056	75865381	95249686	114	90315											
GRM1	2911	broad.mit.edu	37	chr6	146673533	146673533	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctgcgatgccatgaagcccaTcgacggcagcaagctgctgg	9	6	13	13	3	0	1	0	1	0	0	1	3	0	1	2	2	6	4	2	2	2	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:146673533T>G	uc010khw.1	+	5	1804	c.1334T>G	c.(1333-1335)ATC>AGC	p.I445S	GRM1_uc010khv.1_Missense_Mutation_p.I445S|GRM1_uc003qll.2_Missense_Mutation_p.I445S|GRM1_uc011edz.1_Missense_Mutation_p.I445S|GRM1_uc011eea.1_Missense_Mutation_p.I445S	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	445	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ATGAAGCCCATCGACGGCAGC	0.552													4	150					0	0	0.009096	0	0		G	146673533	G	G	146673533	3	3	173	1	0	0	0	0	1	0	0	0	6812	1435	50	5	1348	5	GRM1	6	146673533	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	70808152	146673533	24441534	115	90316											
PARK2	5071	broad.mit.edu	37	chr6	162206827	162206827	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaggcagggagtagccaAgttgagggtcgtgaacaaac	14	5	14	8	1	0	2	0	2	0	0	1	3	0	3	1	3	3	3	1	3	5	2	rs56154308		TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr6:162206827A>C	uc003qtx.3	-	7	982	c.848T>G	c.(847-849)CTT>CGT	p.L283R	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Missense_Mutation_p.L92R|PARK2_uc003qtw.3_Missense_Mutation_p.L92R|PARK2_uc003qty.3_Missense_Mutation_p.L255R|PARK2_uc003qtz.3_Missense_Mutation_p.L134R|PARK2_uc010kke.1_Missense_Mutation_p.L283R|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	283	SYT11 binding 2.|RING-type 1; atypical.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GGAGTAGCCAAGTTGAGGGTC	0.433													4	34					0	0	0.009096	0	0		C	162206827	C	C	162206827	3	2	173	1	0	0	0	0	1	0	0	0	11468	72	3	5	573	5	PARK2	6	162206827	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	15533294	162206827	8908240	116	90317											
SDK1	221935	broad.mit.edu	37	chr7	4008964	4008964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcggggggtctacagatcgCgcccgtcttcatccaggatg	7	9	13	12	4	3	1	1	0	2	1	6	2	4	2	2	4	1	0	2	4	1	2	rs146705640	by1000genomes	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:4008964C>T	uc003smx.2	+	11	1761	c.1622C>T	c.(1621-1623)GCG>GTG	p.A541V		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	541	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTACAGATCGCGCCCGTCTTC	0.552													153	138					0	0	0.01441	0	0		T	4008964	T	T	4008964	3	4	173	1	0	0	0	0	1	0	0	0	13993	768	27	1	1664	1	SDK1	7	4008964	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08		4008964	155129699	117	90318											
ETV1	2115	broad.mit.edu	37	chr7	13971158	13971158	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaaatctctgggttcctgTttaatcatcagaggaggggg	10	11	13	7	0	3	1	2	0	1	1	5	2	4	2	1	4	0	3	1	4	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:13971158T>G	uc011jxq.1	-	9	1510	c.771A>C	c.(769-771)AAA>AAC	p.K257N	ETV1_uc011jxn.1_Missense_Mutation_p.K217N|ETV1_uc011jxo.1_Missense_Mutation_p.K154N|ETV1_uc011jxp.1_Missense_Mutation_p.K199N|ETV1_uc003ssw.3_Missense_Mutation_p.K257N|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.K239N|ETV1_uc011jxs.1_Missense_Mutation_p.K239N|ETV1_uc010ktv.2_Missense_Mutation_p.K126N	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	257					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						TGGGTTCCTGTTTAATCATCA	0.493			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								7	53					0	0	0.004482	0	0		G	13971158	G	G	13971158	3	3	173	1	0	0	0	0	1	0	0	0	5285	1722	60	5	686	5	ETV1	7	13971158	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	9962194	13971158	145167505	118	90319											
PLEKHA8	84725	broad.mit.edu	37	chr7	30092397	30092397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtgaggaagaaatcctaatGaaaaataagaattccttata	19	10	8	4	0	0	4	0	2	0	2	2	5	2	5	2	2	0	0	2	2	9	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:30092397G>A	uc003tam.1	+	7	802	c.711G>A	c.(709-711)ATG>ATA	p.M237I	PLEKHA8_uc003tao.2_Missense_Mutation_p.M121I|PLEKHA8_uc003tap.1_Missense_Mutation_p.M237I|PLEKHA8_uc003tan.2_Missense_Mutation_p.M237I	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	237					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						AAATCCTAATGAAAAATAAGA	0.299													6	17					0	0	0.004482	0	0		A	30092397	A	A	30092397	3	1	173	1	0	0	0	0	1	0	0	0	12081	1290	45	4	737	4	PLEKHA8	7	30092397	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	16121239	30092397	129046266	119	90320											
ABCA13	154664	broad.mit.edu	37	chr7	48411843	48411843	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatggctgtgttgaccataAgcagtgctactctggccatc	9	11	10	11	0	1	1	0	1	1	0	2	1	1	1	2	2	3	4	2	2	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:48411843A>C	uc003toq.2	+	33	10907	c.10882A>C	c.(10882-10884)AGC>CGC	p.S3628R	ABCA13_uc010kys.1_Missense_Mutation_p.S702R|ABCA13_uc003tos.1_Missense_Mutation_p.S454R	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	3628					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GTTGACCATAAGCAGTGCTAC	0.448													15	86					0	0	0.020292	0	0		C	48411843	C	C	48411843	3	2	173	1	0	0	0	0	1	0	0	0	31	72	3	5	10841	5	ABCA13	7	48411843	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	18319446	48411843	110726820	120	90321											
CHCHD2	51142	broad.mit.edu	37	chr7	56171922	56171922	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgcctaaattcccacctgGtaagtgatgtcaggcctcgc	8	10	10	13	1	1	1	1	1	0	0	3	1	2	1	4	2	1	2	4	2	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:56171922G>T	uc003tsa.2	-	2	378	c.297C>A	c.(295-297)TAC>TAA	p.Y99*	PSPH_uc003trj.2_Intron	NM_016139	NP_057223	Q9Y6H1	CHCH2_HUMAN	coiled-coil-helix-coiled-coil-helix domain	99						mitochondrion					0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TTCCCACCTGGTAAGTGATGT	0.493													15	84					2.23348e-06	2.31762e-06	0.028581	1	0		T	56171922	T	T	56171922	4	4	173	1	0	0	0	0	0	1	0	0	3319	1256	44	5	170	5	CHCHD2	7	56171922	Nonsense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	7760079	56171922	102966741	121	90322											
ZNF735	730291	broad.mit.edu	37	chr7	63680227	63680227	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagaattcacactggagaGaaaccctacgcatgtgaaga	17	6	10	8	1	1	4	1	1	0	3	1	7	1	5	1	1	2	1	1	1	5	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:63680227G>A	uc011kdn.1	+	4	798	c.798G>A	c.(796-798)GAG>GAA	p.E266E		NM_001159524	NP_001152996	P0CB33	ZN735_HUMAN	zinc finger protein 735	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACACTGGAGAGAAACCCTACG	0.453													3	26					0	0	0.004672	0	0		A	63680227	A	A	63680227	2	1	173	1	0	0	0	0	0	0	0	1	18149	933	33	4		4	ZNF735	7	63680227	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	7508305	63680227	95458436	122	90323											
AUTS2	26053	broad.mit.edu	37	chr7	69064894	69064894	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtccacctcggcagaagaGgacatcattgatggatttgc	11	9	12	9	1	1	3	1	1	0	2	3	6	2	5	2	3	1	1	2	3	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:69064894G>C	uc003tvw.3	+	1	998	c.255G>C	c.(253-255)GAG>GAC	p.E85D	AUTS2_uc003tvv.3_Missense_Mutation_p.E85D|AUTS2_uc003tvx.3_Missense_Mutation_p.E85D	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	85										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CGGCAGAAGAGGACATCATTG	0.632													4	27					0	0	0.014758	0	0		C	69064894	C	C	69064894	3	2	173	1	0	0	0	0	1	0	0	0	1226	991	35	5	257	5	AUTS2	7	69064894	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	5384667	69064894	90073769	123	90324											
SPDYE5	442590	broad.mit.edu	37	chr7	75130983	75130983	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgaacctgagggccaggaaGaaccgctctcagatagtcct	12	7	11	11	1	1	4	1	2	1	2	3	5	2	5	4	2	2	1	4	2	4	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:75130983G>C	uc011kfy.1	+	6	994	c.858G>C	c.(856-858)AAG>AAC	p.K286N		NM_001099435	NP_001092905	A6NIY4	SPDE5_HUMAN	speedy homolog E5	286	Arg-rich.										0						GGGCCAGGAAGAACCGCTCTC	0.577													38	905					0	0	0.019004	0	0		C	75130983	C	C	75130983	3	2	173	1	0	0	0	0	1	0	0	0	15057	933	33	5	880	5	SPDYE5	7	75130983	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	6066089	75130983	84007680	124	90325											
CACNA2D1	781	broad.mit.edu	37	chr7	81746366	81746366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attcttttacttacagccctCatagatgtcagtaggaatat	12	15	6	8	0	3	1	2	0	1	1	3	2	3	2	1	1	3	1	1	1	6	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:81746366C>T	uc003uhr.1	-	6	776	c.520G>A	c.(520-522)GAG>AAG	p.E174K		NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha	174	Extracellular (Potential).					voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	TTACAGCCCTCATAGATGTCA	0.403													14	70					0	0	0.028581	0	0		T	81746366	T	T	81746366	3	4	173	1	0	0	0	0	1	0	0	0	2551	835	29	4	2891	4	CACNA2D1	7	81746366	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	6615383	81746366	77392297	125	90326											
PCLO	27445	broad.mit.edu	37	chr7	82544696	82544696	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttcttgaataggtgaaaaTtttgacattttagggtcaat	12	17	8	4	0	2	3	1	3	1	0	2	3	2	3	0	2	0	0	0	2	6	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:82544696T>G	uc003uhx.2	-	7	12895	c.12606A>C	c.(12604-12606)AAA>AAC	p.K4202N	PCLO_uc003uhv.2_Missense_Mutation_p.K4202N|PCLO_uc010lec.2_Missense_Mutation_p.K1167N	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4133					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAGGTGAAAATTTTGACATTT	0.383													17	48					0	0	0.028581	0	0		G	82544696	G	G	82544696	3	3	173	1	0	0	0	0	1	0	0	0	11602	1490	52	5	2915	5	PCLO	7	82544696	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	798330	82544696	76593967	126	90327											
ZNF804B	219578	broad.mit.edu	37	chr7	88963203	88963203	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccataaactctaaaattTtgcaagacaaacacgactct	16	11	3	11	1	3	1	0	0	3	1	4	2	3	1	1	0	3	1	1	0	6	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:88963203T>G	uc011khi.1	+	4	1445	c.907T>G	c.(907-909)TTG>GTG	p.L303V		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	303						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CTCTAAAATTTTGCAAGACAA	0.333										HNSCC(36;0.09)			3	63					0	0	0.009096	0	0		G	88963203	G	G	88963203	3	3	173	1	0	0	0	0	1	0	0	0	18196	1838	64	5	921	5	ZNF804B	7	88963203	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	6418507	88963203	70175460	127	90328											
ZNF804B	219578	broad.mit.edu	37	chr7	88964949	88964949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcacatttgtgatctgggaAaagtcaggcccatgaagtgt	11	11	11	8	0	3	2	2	2	1	0	3	3	3	3	1	2	0	0	1	2	3	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:88964949A>G	uc011khi.1	+	4	3191	c.2653A>G	c.(2653-2655)AAA>GAA	p.K885E		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	885						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TGATCTGGGAAAAGTCAGGCC	0.433										HNSCC(36;0.09)			27	61					0	0	0.021523	0	0		G	88964949	G	G	88964949	3	3	173	1	0	0	0	0	1	0	0	0	18196	15	1	3	2667	3	ZNF804B	7	88964949	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	1746	88964949	70173714	128	90329											
CYP3A43	64816	broad.mit.edu	37	chr7	99459298	99459298	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacatggtggtgaatgaaacGctcagattattcccagttgt	11	12	11	7	1	1	3	1	2	0	1	2	4	2	3	1	2	1	2	1	2	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:99459298G>A	uc003urx.1	+	11	1192	c.1089G>A	c.(1087-1089)ACG>ACA	p.T363T	CYP3A43_uc003ury.1_Silent_p.T363T|CYP3A43_uc003urz.1_Silent_p.T363T|CYP3A43_uc003usa.1_RNA|CYP3A43_uc010lgi.1_Silent_p.T253T|CYP3A43_uc003usb.1_Silent_p.T223T	NM_057095	NP_476436	Q9HB55	CP343_HUMAN	cytochrome P450, family 3, subfamily A,	363			Missing (in allele CYP3A43*2).		xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)				Cetirizine(DB00341)|Doxycycline(DB00254)	TGAATGAAACGCTCAGATTAT	0.428													18	49					0	0	0.007413	0	0		A	99459298	A	A	99459298	2	1	173	1	0	0	0	0	0	0	0	1	4182	1074	38	1		1	CYP3A43	7	99459298	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	10494349	99459298	59679365	129	90330											
PPP1R3A	5506	broad.mit.edu	37	chr7	113518863	113518863	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctcgatgggcctgtcacTtcgtgctgtctcttgaggta	5	14	11	11	2	2	1	1	1	1	0	5	2	2	1	2	2	2	2	2	2	2	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:113518863T>G	uc010ljy.1	-	4	2315	c.2284A>C	c.(2284-2286)AGT>CGT	p.S762R		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	762					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GGCCTGTCACTTCGTGCTGTC	0.408													30	91					0	0	0.012213	0	0		G	113518863	G	G	113518863	3	3	173	1	0	0	0	0	1	0	0	0	12393	1609	56	5	1088	5	PPP1R3A	7	113518863	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	14059565	113518863	45619800	130	90331											
C7orf58	79974	broad.mit.edu	37	chr7	120876821	120876821	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgggttacagcctatttcTtctgactacattgaagccat	9	15	8	9	0	2	2	0	2	2	0	2	2	2	2	2	1	4	1	2	1	4	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:120876821T>G	uc003vjq.3	+	17	2556	c.2109T>G	c.(2107-2109)TCT>TCG	p.S703S	C7orf58_uc003vjs.3_Silent_p.S703S|C7orf58_uc003vjt.3_Silent_p.S483S	NM_024913	NP_079189	A4D0V7	CG058_HUMAN	hypothetical protein LOC79974 isoform 1	703						endoplasmic reticulum				ovary(4)|large_intestine(2)|skin(2)|pancreas(1)	9	all_neural(327;0.117)					AGCCTATTTCTTCTGACTACA	0.353													11	63					0	0	0.020292	0	0		G	120876821	G	G	120876821	2	3	173	1	0	0	0	0	0	0	0	1	2408	1596	56	5		5	C7orf58	7	120876821	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	7357958	120876821	38261842	131	90332											
CHRM2	1129	broad.mit.edu	37	chr7	136700337	136700337	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtacaaggaaggatagtgaAgccaaacaataacaacatgc	19	5	10	7	0	0	1	0	1	0	0	0	3	0	3	1	3	6	1	1	3	9	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:136700337A>G	uc003vtf.1	+	4	1348	c.725A>G	c.(724-726)AAG>AGG	p.K242R	CHRM2_uc003vtg.1_Missense_Mutation_p.K242R|CHRM2_uc003vtj.1_Missense_Mutation_p.K242R|CHRM2_uc003vtk.1_Missense_Mutation_p.K242R|CHRM2_uc003vtl.1_Missense_Mutation_p.K242R|CHRM2_uc003vtm.1_Missense_Mutation_p.K242R|CHRM2_uc003vti.1_Missense_Mutation_p.K242R|CHRM2_uc003vto.1_Missense_Mutation_p.K242R|CHRM2_uc003vtn.1_Missense_Mutation_p.K242R|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	242	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	AGGATAGTGAAGCCAAACAAT	0.498													7	13					0	0	0.00308	0	0		G	136700337	G	G	136700337	3	3	173	1	0	0	0	0	1	0	0	0	3380	72	3	3	727	3	CHRM2	7	136700337	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	15823516	136700337	22438326	132	90333											
OR6B1	135946	broad.mit.edu	37	chr7	143701562	143701562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggctttggcatctccctggCgaagatctacttcatctcct	6	14	8	13	1	4	1	1	0	3	1	6	2	4	1	2	3	1	2	2	3	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:143701562C>T	uc003wdt.1	+	1	473	c.473C>T	c.(472-474)GCG>GTG	p.A158V		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					ATCTCCCTGGCGAAGATCTAC	0.537													12	48					0	0	0.010729	0	0		T	143701562	T	T	143701562	3	4	173	1	0	0	0	0	1	0	0	0	11206	768	27	1	475	1	OR6B1	7	143701562	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	7001225	143701562	15437101	133	90334											
ZNF398	57541	broad.mit.edu	37	chr7	148876198	148876198	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacttttactcacccatcaAgacttacctaccatcttcgg	10	12	5	14	1	3	1	2	0	1	1	4	2	3	2	3	2	3	0	3	2	4	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:148876198A>C	uc003wfl.2	+	6	1509	c.1234A>C	c.(1234-1236)AGA>CGA	p.R412R	ZNF398_uc011kul.1_Silent_p.R241R|ZNF398_uc011kum.1_Silent_p.R417R	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	412	C2H2-type 3.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			TCACCCATCAAGACTTACCTA	0.587													24	130					0	0	0.01892	0	0		C	148876198	C	C	148876198	2	2	173	1	0	0	0	0	0	0	0	1	17910	64	3	5		5	ZNF398	7	148876198	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	5174636	148876198	10262465	134	90335											
RHEB	6009	broad.mit.edu	37	chr7	151181842	151181842	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcccggctgtgtctacaAgttgaagatgatattcttgt	8	15	10	8	1	2	3	0	2	2	1	2	3	2	3	1	1	2	2	1	1	4	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr7:151181842A>C	uc003wkh.1	-	3	586	c.173T>G	c.(172-174)CTT>CGT	p.L58R		NM_005614	NP_005605	Q15382	RHEB_HUMAN	Ras homolog enriched in brain precursor	58					cell cycle arrest|insulin receptor signaling pathway|positive regulation of TOR signaling cascade|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|metal ion binding|protein binding			large_intestine(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.00306)	UCEC - Uterine corpus endometrioid carcinoma (81;0.174)		TGTGTCTACAAGTTGAAGATG	0.358													13	48					0	0	0.024245	0	0		C	151181842	C	C	151181842	3	2	173	1	0	0	0	0	1	0	0	0	13353	72	3	5	405	5	RHEB	7	151181842	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	2305644	151181842	7956821	135	90336											
CSMD1	64478	broad.mit.edu	37	chr8	2807839	2807839	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaaaagctttcaggagtaAgtgggcctcctccttcttgt	8	14	10	9	0	2	1	1	1	1	0	4	2	4	2	3	2	1	2	3	2	3	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:2807839A>C	uc011kwk.1	-	67	10621	c.10231T>G	c.(10231-10233)TTA>GTA	p.L3411V	CSMD1_uc011kwj.1_Missense_Mutation_p.L2725V|CSMD1_uc010lrg.2_Missense_Mutation_p.L1302V	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3411	Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TTCAGGAGTAAGTGGGCCTCC	0.398													27	104					0	0	0.027356	0	0		C	2807839	C	C	2807839	3	2	173	1	0	0	0	0	1	0	0	0	3947	69	3	5	482	5	CSMD1	8	2807839	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08		2807839	143556183	136	90337											
SH2D4A	63898	broad.mit.edu	37	chr8	19218776	19218776	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaatagaagaagagagaacGaagcagatttgtaagagctg	19	6	12	4	1	0	6	0	0	0	6	0	8	0	6	0	0	3	3	0	0	7	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:19218776G>A	uc003wzb.2	+	6	993	c.657G>A	c.(655-657)ACG>ACA	p.T219T	SH2D4A_uc011kym.1_Silent_p.T174T|SH2D4A_uc003wzc.2_Silent_p.T219T	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	219						cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		AAGAGAGAACGAAGCAGATTT	0.348													9	34					0	0	0.013537	0	0		A	19218776	A	A	19218776	2	1	173	1	0	0	0	0	0	0	0	1	14260	1045	37	1		1	SH2D4A	8	19218776	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	16410937	19218776	127145246	137	90338											
CHRNA6	8973	broad.mit.edu	37	chr8	42620260	42620260	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agtgtaccgtgacagggtcgGaaacgttttccacaggcctg	9	9	13	10	3	0	1	0	1	0	0	2	2	1	2	3	3	2	2	3	3	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:42620260G>C	uc003xpj.2	-	2	213	c.167C>G	c.(166-168)TCC>TGC	p.S56C	CHRNA6_uc011lcw.1_Missense_Mutation_p.S56C	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	56	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GACAGGGTCGGAAACGTTTTC	0.522													29	102					0	0	0.009535	0	0		C	42620260	C	C	42620260	3	2	173	1	0	0	0	0	1	0	0	0	3390	1174	41	5	1337	5	CHRNA6	8	42620260	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	23401484	42620260	103743762	138	90339											
PXDNL	137902	broad.mit.edu	37	chr8	52321285	52321285	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagggtgtgcatggcggccaGagccagatgctcgttggccc	6	7	16	12	2	0	2	0	0	0	2	1	2	0	2	3	4	3	3	3	4	0	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:52321285G>C	uc003xqu.3	-	17	3000	c.2899C>G	c.(2899-2901)CTG>GTG	p.L967V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	967					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				ATGGCGGCCAGAGCCAGATGC	0.647													2	5					0	0	0.004672	0	0		C	52321285	C	C	52321285	3	2	173	1	0	0	0	0	1	0	0	0	12873	933	33	5	1520	5	PXDNL	8	52321285	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	9701025	52321285	94042737	139	90340											
PREX2	80243	broad.mit.edu	37	chr8	69046292	69046292	+	Splice_Site	SNP	A	T	T	1	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	tctatgttctctttgatcacAgatagtgagacacagctccg	10	13	8	10	1	3	3	1	2	2	2	5	4	4	3	1	0	1	2	1	0	2	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:69046292A>T	uc003xxv.1	+	32	3794	c.3767_splice	c.e32-2	p.D1256_splice		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a						G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CTTTGATCACAGATAGTGAGA	0.453													23	64					0	0	0.021523	0	0		T	69046292	T	T	69046292	5	4	173	1	0	0	0	0	0	0	1	0	12499	202	7	5	4120	5	PREX2	8	69046292	Splice_Site	SNP	A	TCGA-D7-6527-01A-11D-1800-08	16725007	69046292	77317730	140	90341											
PREX2	80243	broad.mit.edu	37	chr8	69069558	69069558	+	Silent	SNP	A	T	T	1	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	tgtttacttgtttacacagcActagagagcatggaaggata	13	12	10	6	0	0	1	0	0	0	1	0	4	0	3	0	2	4	4	0	2	5	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:69069558A>T	uc003xxv.1	+	35	4260	c.4233A>T	c.(4231-4233)GCA>GCT	p.A1411A		NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	1411					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TTTACACAGCACTAGAGAGCA	0.323													5	22					0	0	0.014758	0	0		T	69069558	T	T	69069558	2	4	173	1	0	0	0	0	0	0	0	1	12499	173	6	5		5	PREX2	8	69069558	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	23266	69069558	77294464	141	90342											
SLCO5A1	81796	broad.mit.edu	37	chr8	70744764	70744764	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccactagtgggactgaggcTtggccggcaggaggcgctgc	6	7	17	11	2	0	1	0	1	0	0	1	3	1	3	2	6	1	3	2	6	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:70744764T>C	uc003xyl.2	-	2	852	c.145A>G	c.(145-147)AGC>GGC	p.S49G	SLCO5A1_uc010lzb.2_Missense_Mutation_p.S49G|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.S49G|SLCO5A1_uc010lzc.2_Missense_Mutation_p.S49G	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	49	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			GGACTGAGGCTTGGCCGGCAG	0.647											OREG0018815	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	29					0	0	0.024245	0	0		C	70744764	C	C	70744764	3	2	173	1	0	0	0	0	1	0	0	0	14756	1609	56	3	2437	3	SLCO5A1	8	70744764	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	1675206	70744764	75619258	142	90343											
ZFHX4	79776	broad.mit.edu	37	chr8	77620259	77620259	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	cataccaccaatcacaggcaCgaggcggccctgaagctcta	12	5	9	15	2	2	1	1	1	1	0	2	2	2	1	3	3	2	2	3	3	4	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:77620259C>G	uc003yav.2	+	3	3378	c.2991C>G	c.(2989-2991)CAC>CAG	p.H997Q	ZFHX4_uc003yat.1_Missense_Mutation_p.H997Q|ZFHX4_uc003yau.1_Missense_Mutation_p.H1023Q|ZFHX4_uc003yaw.1_Missense_Mutation_p.H997Q	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	997						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATCACAGGCACGAGGCGGCCC	0.468										HNSCC(33;0.089)			19	97					0	0	0.007413	0	0		G	77620259	G	G	77620259	3	3	173	1	0	0	0	0	1	0	0	0	17660	535	19	5	3075	5	ZFHX4	8	77620259	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	6875495	77620259	68743763	143	90344											
KCNQ3	3786	broad.mit.edu	37	chr8	133150175	133150175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagcatgtcgagatgccCggcagaatactgctcaatca	13	7	11	10	2	2	2	2	0	0	2	3	4	2	3	1	2	4	3	1	2	4	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr8:133150175C>T	uc003ytj.2	-	12	1882	c.1657G>A	c.(1657-1659)GGG>AGG	p.G553R	KCNQ3_uc010mdt.2_Missense_Mutation_p.G553R	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	553					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TCGAGATGCCCGGCAGAATAC	0.458													29	70					0	0	0.009535	0	0		T	133150175	T	T	133150175	3	4	173	1	0	0	0	0	1	0	0	0	8100	652	23	1	977	1	KCNQ3	8	133150175	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	55529916	133150175	13213847	144	90345											
PTPRD	5789	broad.mit.edu	37	chr9	8500770	8500770	+	Silent	SNP	A	G	G	1	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	ataccatcttcattggttcgAatcaacacggacaagctctc	12	11	6	12	2	4	0	2	0	2	0	6	2	4	1	1	2	3	2	1	2	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr9:8500770A>G	uc003zkk.2	-	23	2823	c.2112T>C	c.(2110-2112)ATT>ATC	p.I704I	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Silent_p.I704I|PTPRD_uc003zkm.2_Silent_p.I691I|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	704	Fibronectin type-III 4.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CATTGGTTCGAATCAACACGG	0.473										TSP Lung(15;0.13)			7	71					0	0	0.004482	0	0		G	8500770	G	G	8500770	2	3	173	1	0	0	0	0	0	0	0	1	12824	242	9	3		3	PTPRD	9	8500770	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08		8500770	132712661	145	90346											
IFNA17	3451	broad.mit.edu	37	chr9	21227998	21227998	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctcctggggaagtccaaAgtcatgtctgtccttcaggc	7	11	10	13	0	3	0	2	0	1	0	7	1	7	1	4	3	0	0	4	3	2	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr9:21227998A>G	uc003zos.1	-	1	224	c.175T>C	c.(175-177)TTT>CTT	p.F59L	IFNA14_uc003zoo.1_Intron	NM_021268	NP_067091	P01571	IFN17_HUMAN	interferon, alpha 17 precursor	59					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				Lung(24;2.13e-22)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		GGAAGTCCAAAGTCATGTCTG	0.512													25	139					0	0	0.007291	0	0		G	21227998	G	G	21227998	3	3	173	1	0	0	0	0	1	0	0	0	7552	72	3	3	398	3	IFNA17	9	21227998	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	12727228	21227998	119985433	146	90347											
CCDC107	203260	broad.mit.edu	37	chr9	35661081	35661081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtggggcggggactacGgagaaggtgcagccaggctg	8	4	22	7	2	0	1	0	0	0	1	0	4	0	3	1	9	3	2	1	9	2	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr9:35661081G>A	uc011lox.1	+	5	815	c.749G>A	c.(748-750)CGG>CAG	p.R250Q	CCDC107_uc011loy.1_Missense_Mutation_p.R223Q|CCDC107_uc003zxj.2_3'UTR|CCDC107_uc003zxk.2_3'UTR|C9orf100_uc003zxl.2_Intron|C9orf100_uc003zxm.1_3'UTR	NM_174923	NP_777583	Q8WV48	CC107_HUMAN	coiled-coil domain containing 107 precursor	250						integral to membrane					0	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CGGGGACTACGGAGAAGGTGC	0.582													15	51					0	0	0.020292	0	0		A	35661081	A	A	35661081	3	1	173	1	0	0	0	0	1	0	0	0	2745	1116	39	1	767	1	CCDC107	9	35661081	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	14433083	35661081	105552350	147	90348											
PAPPA	5069	broad.mit.edu	37	chr9	118949522	118949522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	accaagacaacaaagacccaCgctactttttctccttgaag	14	9	5	13	1	1	3	0	1	1	2	2	3	1	3	3	0	2	1	3	0	5	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr9:118949522C>T	uc004bjn.2	+	2	886	c.505C>T	c.(505-507)CGC>TGC	p.R169C	PAPPA_uc011lxp.1_Translation_Start_Site|PAPPA_uc011lxq.1_Translation_Start_Site	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	169					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CAAAGACCCACGCTACTTTTT	0.542													25	52					0	0	0.016522	0	0		T	118949522	T	T	118949522	3	4	173	1	0	0	0	0	1	0	0	0	11451	536	19	1	511	1	PAPPA	9	118949522	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	83288441	118949522	22263909	148	90349											
TLR4	7099	broad.mit.edu	37	chr9	120475722	120475722	+	Missense_Mutation	SNP	A	C	C	1	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	caatttgaaacaaatgagtgAgttttcagtattcctatcac	14	14	6	7	0	2	3	2	3	0	0	3	3	3	3	1	0	1	2	1	0	5	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr9:120475722A>C	uc004bjz.2	+	3	1607	c.1316A>C	c.(1315-1317)GAG>GCG	p.E439A	TLR4_uc004bka.2_Missense_Mutation_p.E399A|TLR4_uc004bkb.2_Missense_Mutation_p.E239A	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	439	LRR 13.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CAAATGAGTGAGTTTTCAGTA	0.388													13	52					0	0	0.013537	0	0		C	120475722	C	C	120475722	3	2	173	1	0	0	0	0	1	0	0	0	15978	304	11	5	1326	5	TLR4	9	120475722	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	1526200	120475722	20737709	149	90350											
FCN2	2220	broad.mit.edu	37	chr9	137778358	137778358	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agatcattcaaggtggccgaCgaggcggagaagtacaatct	13	7	13	8	3	3	2	2	0	1	2	3	5	3	2	1	4	1	1	1	4	4	2	rs142072878	byFrequency	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr9:137778358C>T	uc004cfg.1	+	7	652	c.642C>T	c.(640-642)GAC>GAT	p.D214D	FCN2_uc004cfh.1_Silent_p.D176D	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	214	Fibrinogen C-terminal.				complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		AGGTGGCCGACGAGGCGGAGA	0.567													39	81					0	0	0.021022	0	0		T	137778358	T	T	137778358	2	4	173	1	0	0	0	0	0	0	0	1	5806	535	19	1		1	FCN2	9	137778358	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	17302636	137778358	3435073	150	90351											
MAMDC4	158056	broad.mit.edu	37	chr9	139747813	139747813	+	Silent	SNP	C	T	T	0	0	0	1	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	gacccctgcggctggcgggaCattagtacctcaggctacag	8	7	13	13	2	1	0	1	0	0	0	1	2	1	1	3	4	3	3	3	4	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr9:139747813C>T	uc004cjs.2	+	3	281	c.231C>T	c.(229-231)GAC>GAT	p.D77D	MAMDC4_uc011mej.1_5'UTR	NM_206920	NP_996803	Q6UXC1	AEGP_HUMAN	apical early endosomal glycoprotein precursor	77	Extracellular (Potential).|MAM 1.				protein transport	integral to membrane				breast(4)|upper_aerodigestive_tract(2)|central_nervous_system(1)	7	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)		GCTGGCGGGACATTAGTACCT	0.677													13	38					0	0	0.016723	0	0		T	139747813	T	T	139747813	2	4	173	1	0	0	0	0	0	0	0	1	9222	477	17	4		4	MAMDC4	9	139747813	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	1969455	139747813	1465618	151	90352											
CUBN	8029	broad.mit.edu	37	chr10	17113494	17113494	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaagttgaggagaatgacTtggctttggggctggtggat	8	12	18	3	0	0	4	0	3	0	1	0	6	0	5	0	6	0	3	0	6	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:17113494T>G	uc001ioo.2	-	19	2608	c.2556A>C	c.(2554-2556)CAA>CAC	p.Q852H		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	852	CUB 4.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGAGAATGACTTGGCTTTGGG	0.423													11	57					0	0	0.008291	0	0		G	17113494	G	G	17113494	3	3	173	1	0	0	0	0	1	0	0	0	4054	1606	56	5	8511	5	CUBN	10	17113494	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08		17113494	118421253	152	90353											
GPR158	57512	broad.mit.edu	37	chr10	25684866	25684866	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaattaaaggcctaggattCgttcttggagcctatgagtg	10	12	11	8	1	1	1	0	1	1	0	2	3	1	3	3	3	1	1	3	3	5	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:25684866C>T	uc001isj.2	+	3	1095	c.1035C>T	c.(1033-1035)TTC>TTT	p.F345F		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	345	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GCCTAGGATTCGTTCTTGGAG	0.413													9	34					0	0	0.004482	0	0		T	25684866	T	T	25684866	2	4	173	1	0	0	0	0	0	0	0	1	6678	883	31	1		1	GPR158	10	25684866	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	8571372	25684866	109849881	153	90354											
ANKRD30A	91074	broad.mit.edu	37	chr10	37486355	37486355	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctgccattgaaatgcaaaAgtctgttccaaataaagcct	14	10	7	10	0	1	1	0	1	1	0	2	1	2	1	4	0	3	2	4	0	6	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:37486355A>C	uc001iza.1	+	29	2594	c.2495A>C	c.(2494-2496)AAG>ACG	p.K832T		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	888						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GAAATGCAAAAGTCTGTTCCA	0.308													10	96					0	0	0.010729	0	0		C	37486355	C	C	37486355	3	2	173	1	0	0	0	0	1	0	0	0	658	72	3	5	2609	5	ANKRD30A	10	37486355	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	11801489	37486355	98048392	154	90355											
ANKRD30A	91074	broad.mit.edu	37	chr10	37505169	37505169	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgaaagagcaagggaacTtcaaaaagatcactgtgaac	17	8	10	6	0	2	4	2	2	0	2	2	5	2	5	0	1	3	1	0	1	6	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:37505169T>G	uc001iza.1	+	32	2861	c.2762T>G	c.(2761-2763)CTT>CGT	p.L921R		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	977						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GCAAGGGAACTTCAAAAAGAT	0.318													21	49					0	0	0.01892	0	0		G	37505169	G	G	37505169	3	3	173	1	0	0	0	0	1	0	0	0	658	1609	56	5	2888	5	ANKRD30A	10	37505169	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	18814	37505169	98029578	155	90356											
ZNF33B	7582	broad.mit.edu	37	chr10	43088461	43088461	+	Missense_Mutation	SNP	A	G	G	1	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	ttagagctgacttatggcagAaagcttttccacactcatta	12	13	7	9	0	1	3	1	1	0	2	2	3	2	3	1	1	2	3	1	1	4	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:43088461A>G	uc001jaf.1	-	5	2052	c.1937T>C	c.(1936-1938)TTC>TCC	p.F646S	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.F534S|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	646	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTTATGGCAGAAAGCTTTTCC	0.398													13	154					0	0	0.024245	0	0		G	43088461	G	G	43088461	3	3	173	1	0	0	0	0	1	0	0	0	17880	246	9	3	403	3	ZNF33B	10	43088461	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	5583292	43088461	92446286	156	90357											
HTR7	3363	broad.mit.edu	37	chr10	92508669	92508669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcagctgagagcttccGgttgatattccggtactggc	6	11	13	11	2	0	2	0	2	0	1	2	3	2	2	3	3	4	5	3	3	2	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:92508669G>A	uc001kha.2	-	2	1465	c.1222C>T	c.(1222-1224)CGG>TGG	p.R408W	HTR7_uc001kgz.2_Missense_Mutation_p.R408W|HTR7_uc001khb.2_Missense_Mutation_p.R408W	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	408	Cytoplasmic (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	GAGAGCTTCCGGTTGATATTC	0.493													26	114					0	0	0.027356	0	0		A	92508669	A	A	92508669	3	1	173	1	0	0	0	0	1	0	0	0	7468	1115	39	1	233	1	HTR7	10	92508669	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	49420208	92508669	43026078	157	90358											
C10orf96	374355	broad.mit.edu	37	chr10	118116988	118116988	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttactctccaaagaaaacTtaaaggtattaccttcatga	16	13	4	8	0	2	2	1	1	1	1	3	2	2	2	2	1	3	1	2	1	8	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:118116988T>C	uc001lck.2	+	6	796	c.545T>C	c.(544-546)CTT>CCT	p.L182P		NM_198515	NP_940917	P0C7W6	CJ096_HUMAN	hypothetical protein LOC374355	182	Potential.									ovary(2)	2		Lung NSC(174;0.204)|all_lung(145;0.248)		all cancers(201;0.014)		CAAAGAAAACTTAAAGGTATT	0.274													3	12					0	0	0.014758	0	0		C	118116988	C	C	118116988	3	2	173	1	0	0	0	0	1	0	0	0	1630	1609	56	3	563	3	C10orf96	10	118116988	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	25608319	118116988	17417759	158	90359											
EIF3A	8661	broad.mit.edu	37	chr10	120796691	120796691	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcgtctcttagatctcGtctttctcttagatcacgcc	5	16	6	14	3	5	2	1	0	4	2	9	2	5	2	2	0	0	0	2	0	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr10:120796691G>A	uc001ldu.2	-	21	4005	c.3859C>T	c.(3859-3861)CGA>TGA	p.R1287*	EIF3A_uc010qsu.1_Nonsense_Mutation_p.R1253*	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	1287	Asp-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		CTTAGATCTCGTCTTTCTCTT	0.507													60	124					0	0	0.01441	0	0		A	120796691	A	A	120796691	4	1	173	1	0	0	0	0	0	1	0	0	5018	1153	40	1	297	1	EIF3A	10	120796691	Nonsense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	2679703	120796691	14738056	159	90360											
UBQLNL	143630	broad.mit.edu	37	chr11	5536964	5536964	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttggatctgcattatctcTtggatcatagcaaggttcct	8	16	9	8	0	3	0	1	0	2	0	5	2	4	2	1	3	2	4	1	3	3	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:5536964T>C	uc001maz.3	-	1	993	c.708A>G	c.(706-708)CAA>CAG	p.Q236Q	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	236										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		GCATTATCTCTTGGATCATAG	0.468													44	85					0	0	0.01441	0	0		C	5536964	C	C	5536964	2	2	173	1	0	0	0	0	0	0	0	1	16926	1606	56	3		3	UBQLNL	11	5536964	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08		5536964	129469552	160	90361											
DCHS1	8642	broad.mit.edu	37	chr11	6646065	6646065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcagagacggagagaatgGcactgcctgggggtgtgtgc	8	7	19	7	1	0	2	0	0	0	2	0	5	0	3	1	5	2	2	1	5	1	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:6646065G>A	uc001mem.1	-	20	7591	c.7181C>T	c.(7180-7182)GCC>GTC	p.A2394V		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2394	Cadherin 23.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGAGAATGGCACTGCCTGG	0.562													6	13					0	0	0.001984	0	0		A	6646065	A	A	6646065	3	1	173	1	0	0	0	0	1	0	0	0	4290	1203	42	2	2723	2	DCHS1	11	6646065	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	1109101	6646065	128360451	161	90362											
NELL1	4745	broad.mit.edu	37	chr11	21581738	21581738	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcttcctatattgcagacaTtgatgaatgtgccttaagaa	12	14	8	7	0	0	4	0	2	0	2	1	4	1	4	2	0	3	2	2	0	5	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:21581738T>G	uc001mqe.2	+	17	1943	c.1790T>G	c.(1789-1791)ATT>AGT	p.I597S	NELL1_uc001mqf.2_Missense_Mutation_p.I550S|NELL1_uc009yid.2_Missense_Mutation_p.I625S|NELL1_uc010rdo.1_Missense_Mutation_p.I540S|NELL1_uc010rdp.1_Missense_Mutation_p.I310S|NELL1_uc001mqh.2_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	597	EGF-like 6; calcium-binding (Potential).				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						ATTGCAGACATTGATGAATGT	0.443													3	99					0	0	0.009096	0	0		G	21581738	G	G	21581738	3	3	173	1	0	0	0	0	1	0	0	0	10352	1493	52	5	1856	5	NELL1	11	21581738	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	14935673	21581738	113424778	162	90363											
MUC15	143662	broad.mit.edu	37	chr11	26582734	26582734	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtagctagaattcccaaaacTcacatcataaggttccggtg	13	10	8	10	1	2	1	2	0	0	1	4	1	4	1	2	2	2	3	2	2	6	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:26582734T>C	uc001mqx.2	-	4	1149	c.883A>G	c.(883-885)AGT>GGT	p.S295G	ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_Missense_Mutation_p.S322G|MUC15_uc001mqy.2_Missense_Mutation_p.S272G	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b	295	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						TTCCCAAAACTCACATCATAA	0.383													11	25					0	0	0.013537	0	0		C	26582734	C	C	26582734	3	2	173	1	0	0	0	0	1	0	0	0	9990	1551	54	3	125	3	MUC15	11	26582734	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	5000996	26582734	108423782	163	90364											
DCDC1	341019	broad.mit.edu	37	chr11	31327864	31327864	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaatcactcttggttgaAgtttgtgtctttgagacaat	9	18	8	6	0	3	2	1	2	2	1	3	3	3	2	0	1	0	2	0	1	3	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:31327864A>C	uc001msv.2	-	5	708	c.506T>G	c.(505-507)CTT>CGT	p.L169R	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	169	Doublecortin.				intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					TCTTGGTTGAAGTTTGTGTCT	0.373													9	24					0	0	0.008291	0	0		C	31327864	C	C	31327864	3	2	173	1	0	0	0	0	1	0	0	0	4287	72	3	5	578	5	DCDC1	11	31327864	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	4745130	31327864	103678652	164	90365											
RAG2	5897	broad.mit.edu	37	chr11	36614733	36614733	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgtctcctggtatgccaAgaaaaacagttccatttccc	11	13	6	11	0	1	1	0	0	1	1	4	1	3	1	4	1	2	2	4	1	5	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:36614733A>C	uc001mwv.3	-	2	1174	c.986T>G	c.(985-987)CTT>CGT	p.L329R	C11orf74_uc010rfd.1_5'Flank|C11orf74_uc001mww.1_5'Flank|C11orf74_uc001mwx.1_5'Flank|C11orf74_uc001mwy.1_5'Flank|C11orf74_uc001mwz.1_5'Flank|C11orf74_uc010rfe.1_5'Flank	NM_000536	NP_000527	P55895	RAG2_HUMAN	recombination activating gene 2	329					chromatin modification|pre-B cell allelic exclusion|somatic diversification of immunoglobulins|T cell differentiation in thymus|V(D)J recombination	nucleus	chromatin binding|DNA binding|endonuclease activity|methylated histone residue binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|zinc ion binding			skin(3)|ovary(1)|pancreas(1)	5	all_lung(20;0.226)	all_hematologic(20;0.00756)				TGGTATGCCAAGAAAAACAGT	0.388									Familial_Hemophagocytic_Lymphohistiocytosis				5	155					0	0	0.021553	0	0		C	36614733	C	C	36614733	3	2	173	1	0	0	0	0	1	0	0	0	13030	72	3	5	601	5	RAG2	11	36614733	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	5286869	36614733	98391783	165	90366											
OR4C6	219432	broad.mit.edu	37	chr11	55433005	55433005	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgatggcctatgaccgctaCgtggccatctgtaagcccct	7	10	11	13	2	1	2	0	2	1	0	1	2	1	2	5	2	2	2	5	2	3	3	rs141756140	byFrequency	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:55433005C>T	uc001nht.3	+	3	628	c.363C>T	c.(361-363)TAC>TAT	p.Y121Y	OR4C6_uc010rik.1_Silent_p.Y121Y	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						ATGACCGCTACGTGGCCATCT	0.552													15	46					0	0	0.024245	0	0		T	55433005	T	T	55433005	2	4	173	1	0	0	0	0	0	0	0	1	11071	547	19	1		1	OR4C6	11	55433005	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	18818272	55433005	79573511	166	90367											
OR5L2	26338	broad.mit.edu	37	chr11	55594726	55594726	+	Missense_Mutation	SNP	A	C	C	1	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	aaactgcaccactgtggctgAgttcattctccttggactat	9	13	8	11	0	2	1	1	1	1	0	3	2	2	2	2	2	2	3	2	2	2	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:55594726A>C	uc001nhy.1	+	1	32	c.32A>C	c.(31-33)GAG>GCG	p.E11A		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				ACTGTGGCTGAGTTCATTCTC	0.428										HNSCC(27;0.073)			49	113					0	0	0.01441	0	0		C	55594726	C	C	55594726	3	2	173	1	0	0	0	0	1	0	0	0	11190	304	11	5	34	5	OR5L2	11	55594726	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	161721	55594726	79411790	167	90368											
OR5D16	390144	broad.mit.edu	37	chr11	55606858	55606858	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgccacttttaatgagataAgcacactactcatcattctg	12	14	5	10	0	3	1	2	1	1	1	3	2	3	1	1	0	3	1	1	0	3	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:55606858A>C	uc010rio.1	+	1	631	c.631A>C	c.(631-633)AGC>CGC	p.S211R		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				TAATGAGATAAGCACACTACT	0.443													23	67					0	0	0.012319	0	0		C	55606858	C	C	55606858	3	2	173	1	0	0	0	0	1	0	0	0	11175	72	3	5	633	5	OR5D16	11	55606858	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	12132	55606858	79399658	168	90369											
OR5F1	338674	broad.mit.edu	37	chr11	55762007	55762007	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtaagtgtataaatcacaAgaaaaaacaaaaagaggata	23	7	7	4	0	1	2	1	0	0	2	1	3	1	3	0	1	1	2	0	1	11	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:55762007A>G	uc010riv.1	-	1	95	c.95T>C	c.(94-96)CTT>CCT	p.L32P		NM_003697	NP_003688	O95221	OR5F1_HUMAN	olfactory receptor, family 5, subfamily F,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					ATAAATCACAAGAAAAAACAA	0.403													15	32					0	0	0.020292	0	0		G	55762007	G	G	55762007	3	3	173	1	0	0	0	0	1	0	0	0	11177	72	3	3	852	3	OR5F1	11	55762007	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	155149	55762007	79244509	169	90370											
OR8K1	390157	broad.mit.edu	37	chr11	56113544	56113544	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtaaaacacaatcacacGgcagtgaccaaggtgactga	15	6	11	9	1	1	3	1	3	0	0	1	3	1	3	1	3	1	2	1	3	4	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:56113544G>C	uc010rjg.1	+	1	30	c.30G>C	c.(28-30)ACG>ACC	p.T10T		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					ACAATCACACGGCAGTGACCA	0.373										HNSCC(65;0.19)			14	32					0	0	0.016723	0	0		C	56113544	C	C	56113544	2	2	173	1	0	0	0	0	0	0	0	1	11262	1103	39	5		5	OR8K1	11	56113544	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	351537	56113544	78892972	170	90371											
OR5M10	390167	broad.mit.edu	37	chr11	56345194	56345194	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggtgtggtttggggacaAcatcttcttatttcttgaaa	9	17	10	5	0	3	1	0	1	3	0	3	2	3	2	0	4	1	1	0	4	4	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:56345194A>C	uc001niz.1	-	1	4	c.4T>G	c.(4-6)TTG>GTG	p.L2V		NM_001004741	NP_001004741	Q6IEU7	OR5MA_HUMAN	olfactory receptor, family 5, subfamily M,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTTGGGGACAACATCTTCTTA	0.373													16	39					0	0	0.028581	0	0		C	56345194	C	C	56345194	3	2	173	1	0	0	0	0	1	0	0	0	11192	40	2	5	947	5	OR5M10	11	56345194	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	231650	56345194	78661322	171	90372											
OR8G2	26492	broad.mit.edu	37	chr11	124096230	124096230	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtacctgcagccatcatctgTcagctccatggaccagggga	9	8	11	13	0	3	0	2	0	1	0	4	2	4	2	4	3	4	3	4	3	1	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:124096230T>C	uc010saf.1	+	1	833	c.833T>C	c.(832-834)GTC>GCC	p.V278A		NM_001007249	NP_001007250	Q15614	OR8G2_HUMAN	olfactory receptor, family 8, subfamily G,	278						integral to membrane	olfactory receptor activity				0		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;4.91e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		CCATCATCTGTCAGCTCCATG	0.483													24	74					0	0	0.016522	0	0		C	124096230	C	C	124096230	3	2	173	1	0	0	0	0	1	0	0	0	11254	1667	58	3	835	3	OR8G2	11	124096230	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	67751036	124096230	10910286	172	90373											
STT3A	3703	broad.mit.edu	37	chr11	125482887	125482887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctttttccttgtttaggtgGcaagtgggatgatactggtc	6	17	12	6	0	1	1	0	1	1	0	3	2	2	2	1	4	1	2	1	4	3	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr11:125482887G>A	uc001qcd.2	+	13	1479	c.1369G>A	c.(1369-1371)GCA>ACA	p.A457T	STT3A_uc001qce.2_Missense_Mutation_p.A457T|STT3A_uc010sbg.1_Missense_Mutation_p.A365T|STT3A_uc009zbn.2_Missense_Mutation_p.A179T	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	457	Helical; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		TGTTTAGGTGGCAAGTGGGAT	0.403													4	180					0	0	0.014758	0	0		A	125482887	A	A	125482887	3	1	173	1	0	0	0	0	1	0	0	0	15358	1203	42	2	1415	2	STT3A	11	125482887	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	1386657	125482887	9523629	173	90374											
OLR1	4973	broad.mit.edu	37	chr12	10313422	10313422	+	Missense_Mutation	SNP	T	A	A	0	1	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	taattttcagcaacttggcaTccaaagacaagcacttctct	13	12	5	11	0	2	1	1	0	1	1	4	1	3	1	1	1	3	3	1	1	4	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr12:10313422T>A	uc001qxo.1	-	4	641	c.527A>T	c.(526-528)GAT>GTT	p.D176V	OLR1_uc010sgz.1_Intron|OLR1_uc010sha.1_Intron	NM_002543	NP_002534	P78380	OLR1_HUMAN	oxidized low density lipoprotein (lectin-like)	176	Extracellular (Potential).|C-type lectin.				blood circulation|blood coagulation|inflammatory response|leukocyte migration|proteolysis	extracellular region|integral to plasma membrane|membrane fraction	sugar binding			ovary(1)	1						CAACTTGGCATCCAAAGACAA	0.428													64	72					0	0	0.01441	0	0		A	10313422	A	A	10313422	3	1	173	1	0	0	0	0	1	0	0	0	10882	1435	50	5	306	5	OLR1	12	10313422	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08		10313422	123538473	174	90375											
KLRC2	3822	broad.mit.edu	37	chr12	10584760	10584760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggatgatgactgctgttacGaaacacaccaatccatgagg	13	9	10	9	1	0	3	0	3	0	0	1	5	1	4	2	2	3	2	2	2	3	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr12:10584760G>A	uc001qyk.2	-	5	536	c.529C>T	c.(529-531)CGT>TGT	p.R177C	KLRC3_uc001qyh.2_Intron|KLRC2_uc010she.1_Missense_Mutation_p.R177C	NM_002260	NP_002251	P26717	NKG2C_HUMAN	killer cell lectin-like receptor subfamily C,	177	Extracellular (Potential).|C-type lectin.				cellular defense response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						CTGCTGTTACGAAACACACCA	0.294													7	29					0	0	0.004482	0	0		A	10584760	A	A	10584760	3	1	173	1	0	0	0	0	1	0	0	0	8432	1058	37	1	174	1	KLRC2	12	10584760	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	271338	10584760	123267135	175	90376											
RECQL	5965	broad.mit.edu	37	chr12	21627837	21627837	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcccacattttccatCaccaccattgaacttattct	9	15	3	14	0	2	1	1	1	1	0	4	1	4	1	4	0	2	1	4	0	2	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr12:21627837C>A	uc001rex.2	-	12	1641	c.1293G>T	c.(1291-1293)GTG>GTT	p.V431V	RECQL_uc001rey.2_Silent_p.V431V	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	431	Helicase C-terminal.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						CATTTTCCATCACCACCATTG	0.363								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					18	49					1.01871e-10	1.07177e-10	0.008871	1	0		A	21627837	A	A	21627837	2	1	173	1	0	0	0	0	0	0	0	1	13226	813	29	5		5	RECQL	12	21627837	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	11043077	21627837	112224058	176	90377											
TPH2	121278	broad.mit.edu	37	chr12	72332847	72332847	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattcagcagtgcccgaagaGcatcagctacttggcagctc	10	8	11	12	1	2	1	2	0	0	1	3	3	2	1	1	1	6	5	1	1	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr12:72332847G>A	uc009zrw.1	+	1	222	c.81G>A	c.(79-81)GAG>GAA	p.E27E	TPH2_uc001swy.2_5'Flank	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	27					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	TGCCCGAAGAGCATCAGCTAC	0.473											OREG0021996	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	43					0	0	0.020292	0	0		A	72332847	A	A	72332847	2	1	173	1	0	0	0	0	0	0	0	1	16428	962	34	2		2	TPH2	12	72332847	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	50705010	72332847	61519048	177	90378											
TRHDE	29953	broad.mit.edu	37	chr12	72969063	72969063	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaataacttatttggacaaAggaagctggctgctggggaa	14	9	13	5	0	0	1	0	0	0	1	0	4	0	4	0	5	3	3	0	5	6	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr12:72969063A>C	uc001sxa.2	+	11	2055	c.2025A>C	c.(2023-2025)AAA>AAC	p.K675N		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	675	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						ATTTGGACAAAGGAAGCTGGC	0.343													6	52					0	0	0.021553	0	0		C	72969063	C	C	72969063	3	2	173	1	0	0	0	0	1	0	0	0	16505	69	3	5	2067	5	TRHDE	12	72969063	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	636216	72969063	60882832	178	90379											
GLIPR1L2	144321	broad.mit.edu	37	chr12	75804385	75804385	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcaagtattgctatcagaAgttggcatgcagagaagaaa	15	9	11	6	0	1	3	1	0	0	3	1	4	1	3	0	1	3	6	0	1	6	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr12:75804385A>C	uc001sxr.1	+	2	414	c.406A>C	c.(406-408)AGT>CGT	p.S136R	GLIPR1L2_uc001sxp.1_Missense_Mutation_p.S136R|GLIPR1L2_uc001sxq.1_Missense_Mutation_p.S29R	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	136						integral to membrane				ovary(1)	1						TGCTATCAGAAGTTGGCATGC	0.323													18	60					0	0	0.00499	0	0		C	75804385	C	C	75804385	3	2	173	1	0	0	0	0	1	0	0	0	6458	72	3	5	412	5	GLIPR1L2	12	75804385	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	2835322	75804385	58047510	179	90380											
TUBA3C	7278	broad.mit.edu	37	chr13	19748138	19748138	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	atgccttctcccacgtaccaGtgcacaaaggcccgcttggc	8	8	9	16	2	1	0	0	0	1	0	2	0	1	0	4	2	3	3	4	2	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr13:19748138G>C	uc009zzj.2	-	5	1267	c.1218C>G	c.(1216-1218)CAC>CAG	p.H406Q		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	406					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		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)		CCACGTACCAGTGCACAAAGG	0.612													11	121					0	0	0.00499	0	0		C	19748138	C	C	19748138	3	2	173	1	0	0	0	0	1	0	0	0	16772	1020	36	5	138	5	TUBA3C	13	19748138	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08		19748138	95421740	180	90381											
DGKH	160851	broad.mit.edu	37	chr13	42795478	42795478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtacaaagatatcttcatccGtcatgacatcagaggggctg	12	10	10	9	1	4	3	3	1	1	2	5	3	5	3	1	2	1	2	1	2	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr13:42795478G>A	uc001uyl.1	+	29	3542	c.3521G>A	c.(3520-3522)CGT>CAT	p.R1174H	DGKH_uc010tfh.1_Intron|DGKH_uc001uym.1_Intron|DGKH_uc010tfi.1_Intron|DGKH_uc010tfj.1_Missense_Mutation_p.R1029H|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Missense_Mutation_p.R1029H|DGKH_uc001uyp.2_Intron	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	1174	SAM.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		ATCTTCATCCGTCATGACATC	0.418													4	114					0	0	0.009096	0	0		A	42795478	A	A	42795478	3	1	173	1	0	0	0	0	1	0	0	0	4476	1145	40	1	3635	1	DGKH	13	42795478	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	23047340	42795478	72374400	181	90382											
C13orf31	144811	broad.mit.edu	37	chr13	44455464	44455464	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggcacaggaagacattaAtgaaagcttttattgatcaa	16	10	8	7	0	1	3	1	2	0	1	1	4	1	4	1	2	1	2	1	2	5	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr13:44455464A>G	uc010acg.2	+	2	828	c.343A>G	c.(343-345)ATG>GTG	p.M115V	CCDC122_uc010acf.2_5'Flank|C13orf31_uc001uzf.3_Missense_Mutation_p.M115V	NM_001128303	NP_001121775	Q8IV20	CM031_HUMAN	hypothetical protein LOC144811	115											0		Lung NSC(96;0.000163)|all_hematologic(4;0.0127)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Breast(139;0.0364)|Lung SC(185;0.0367)|Acute lymphoblastic leukemia(4;0.138)		GBM - Glioblastoma multiforme(144;0.000573)|BRCA - Breast invasive adenocarcinoma(63;0.121)		GAAGACATTAATGAAAGCTTT	0.358													31	10					0	0	0.007291	0	0		G	44455464	G	G	44455464	3	3	173	1	0	0	0	0	1	0	0	0	1729	101	4	3	345	3	C13orf31	13	44455464	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	1659986	44455464	70714414	182	90383											
C13orf18	80183	broad.mit.edu	37	chr13	46946153	46946153	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatatggggaggtggccaaaAtcccagggcttgtgggcaga	10	7	17	7	0	0	1	0	0	0	1	1	3	1	2	2	6	0	2	2	6	3	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr13:46946153A>C	uc010acl.2	-	3	1063	c.458T>G	c.(457-459)ATT>AGT	p.I153S	C13orf18_uc001vbf.3_Missense_Mutation_p.I86S|C13orf18_uc001vbg.3_5'UTR|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_Missense_Mutation_p.I18S|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Missense_Mutation_p.I153S|C13orf18_uc001vbh.3_Missense_Mutation_p.I153S|C13orf18_uc001vbi.3_Intron|C13orf18_uc010aco.1_Missense_Mutation_p.I153S|C13orf18_uc010tga.1_Missense_Mutation_p.I86S	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	153											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		GGTGGCCAAAATCCCAGGGCT	0.512													7	49					0	0	0.001984	0	0		C	46946153	C	C	46946153	3	2	173	1	0	0	0	0	1	0	0	0	1723	101	4	5	1582	5	C13orf18	13	46946153	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	2490689	46946153	68223725	183	90384											
OR4M1	441670	broad.mit.edu	37	chr14	20248567	20248567	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtccaactagtcctatttgTtatatttctatccttctatt	8	20	4	9	0	2	0	0	0	2	0	5	0	5	0	3	1	1	1	3	1	7	10			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:20248567T>C	uc010tku.1	+	1	86	c.86T>C	c.(85-87)GTT>GCT	p.V29A		NM_001005500	NP_001005500	Q8NGD0	OR4M1_HUMAN	olfactory receptor, family 4, subfamily M,	29	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GTCCTATTTGTTATATTTCTA	0.403													20	263					0	0	0.007413	0	0		C	20248567	C	C	20248567	3	2	173	1	0	0	0	0	1	0	0	0	11094	1725	60	3	88	3	OR4M1	14	20248567	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08		20248567	87100973	184	90385											
OR4K5	79317	broad.mit.edu	37	chr14	20389631	20389631	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaccccattatttatacacTaaggaatagggatatgaagg	17	10	8	6	0	0	1	0	1	0	0	0	3	0	3	2	3	2	0	2	3	9	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:20389631T>G	uc010tkw.1	+	1	866	c.866T>G	c.(865-867)CTA>CGA	p.L289R		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	289	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		ATTTATACACTAAGGAATAGG	0.398													35	173					0	0	0.013726	0	0		G	20389631	G	G	20389631	3	3	173	1	0	0	0	0	1	0	0	0	11092	1522	53	5	868	5	OR4K5	14	20389631	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	141064	20389631	86959909	185	90386											
DHRS4L1	728635	broad.mit.edu	37	chr14	24505711	24505711	+	Missense_Mutation	SNP	T	G	G	0	1	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	agacttgctggtctgatccaTgcacaaggcgcggctacgag	9	8	13	11	3	1	2	0	1	1	1	2	3	2	2	1	3	3	3	1	3	2	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:24505711T>G	uc010alc.2	+	1	2	c.2T>G	c.(1-3)ATG>AGG	p.M1R	DHRS4L1_uc010tnu.1_RNA	NM_001082488	NP_001075957	P0CG22	DR4L1_HUMAN	dehydrogenase/reductase (SDR family) member 4	1							binding|oxidoreductase activity				0						GTCTGATCCATGCACAAGGCG	0.667													6	22					0	0	0.021553	0	0		G	24505711	G	G	24505711	3	3	173	1	0	0	0	0	1	0	0	0	4499	1478	51	5	4	5	DHRS4L1	14	24505711	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	4116080	24505711	82843829	186	90387											
NFATC4	4776	broad.mit.edu	37	chr14	24839461	24839461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctccccagctctgtcccGccgtggcagcctgggggaag	5	6	14	16	2	1	0	0	0	1	0	3	1	3	1	6	3	3	2	6	3	1	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:24839461G>A	uc001wpc.2	+	2	1178	c.857G>A	c.(856-858)CGC>CAC	p.R286H	NFATC4_uc010tok.1_Missense_Mutation_p.R349H|NFATC4_uc010tol.1_Missense_Mutation_p.R349H|NFATC4_uc010alr.2_Missense_Mutation_p.R349H|NFATC4_uc010als.2_Missense_Mutation_p.R299H|NFATC4_uc010tom.1_Missense_Mutation_p.R299H|NFATC4_uc010ton.1_Missense_Mutation_p.R299H|NFATC4_uc010too.1_Missense_Mutation_p.R299H|NFATC4_uc010alt.2_Missense_Mutation_p.R318H|NFATC4_uc010top.1_Missense_Mutation_p.R318H|NFATC4_uc010toq.1_Missense_Mutation_p.R318H|NFATC4_uc010alu.2_Intron|NFATC4_uc010tor.1_Missense_Mutation_p.R286H|NFATC4_uc010tos.1_Missense_Mutation_p.R216H|NFATC4_uc010tot.1_Missense_Mutation_p.R274H|NFATC4_uc010tou.1_Missense_Mutation_p.R216H|NFATC4_uc010tov.1_Missense_Mutation_p.R274H|NFATC4_uc010tow.1_Missense_Mutation_p.R216H|NFATC4_uc010alv.2_Missense_Mutation_p.R274H|NFATC4_uc010tox.1_Missense_Mutation_p.R216H|NFATC4_uc001wpd.2_5'Flank|NFATC4_uc010toy.1_5'Flank|NFATC4_uc010toz.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	286	SP 2; approximate.|Pro-rich.|2 approximate SP repeats.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		GCTCTGTCCCGCCGTGGCAGC	0.701													7	10					0	0	0.00308	0	0		A	24839461	A	A	24839461	3	1	173	1	0	0	0	0	1	0	0	0	10384	1087	38	1	1056	1	NFATC4	14	24839461	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	333750	24839461	82510079	187	90388											
AKAP6	9472	broad.mit.edu	37	chr14	33293932	33293932	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactttaacctgtgaagaaAatcttctaaaccttcatgaa	17	12	4	8	0	3	3	1	2	2	1	3	3	3	3	2	0	3	0	2	0	8	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:33293932A>C	uc001wrq.2	+	13	7083	c.6913A>C	c.(6913-6915)AAT>CAT	p.N2305H		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	2305					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CTGTGAAGAAAATCTTCTAAA	0.418													7	71					0	0	0.001984	0	0		C	33293932	C	C	33293932	3	2	173	1	0	0	0	0	1	0	0	0	455	14	1	5	6959	5	AKAP6	14	33293932	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	8454471	33293932	74055608	188	90389											
FSCB	84075	broad.mit.edu	37	chr14	44975262	44975262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactttaacagaattctccGcaactgcagtggctgcctca	11	10	8	12	1	2	1	1	0	1	1	3	2	2	1	2	1	5	3	2	1	4	3	rs147180788		TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:44975262G>A	uc001wvn.2	-	1	1238	c.929C>T	c.(928-930)GCG>GTG	p.A310V		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	310						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		AGAATTCTCCGCAACTGCAGT	0.527													18	45					0	0	0.006122	0	0		A	44975262	A	A	44975262	3	1	173	1	0	0	0	0	1	0	0	0	6080	1087	38	1	1552	1	FSCB	14	44975262	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	11681330	44975262	62374278	189	90390											
RPL10L	140801	broad.mit.edu	37	chr14	47120380	47120380	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcagggatgaggcacttcTtggccaccatgtcttcaaat	10	11	9	11	0	4	1	2	1	2	0	4	2	4	2	2	3	0	1	2	3	1	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:47120380T>G	uc001wwg.2	-	1	649	c.560A>C	c.(559-561)AAG>ACG	p.K187T		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	187					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						GAGGCACTTCTTGGCCACCAT	0.507													21	56					0	0	0.012319	0	0		G	47120380	G	G	47120380	3	3	173	1	0	0	0	0	1	0	0	0	13581	1609	56	5	88	5	RPL10L	14	47120380	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	2145118	47120380	60229160	190	90391											
MPP5	64398	broad.mit.edu	37	chr14	67790529	67790529	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagaaggcaagaatccaaaGgtaaagttttcacactattg	18	9	8	6	0	1	2	1	0	0	2	2	2	2	2	1	2	0	3	1	2	8	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:67790529G>A	uc001xjc.2	+	14	2317	c.1851G>A	c.(1849-1851)AAG>AAA	p.K617K	MPP5_uc001xjd.2_Silent_p.K583K|ATP6V1D_uc001xje.2_Intron	NM_022474	NP_071919	Q8N3R9	MPP5_HUMAN	membrane protein, palmitoylated 5	617	Guanylate kinase-like.				tight junction assembly	cytoplasm|endomembrane system|tight junction	protein domain specific binding			ovary(1)	1				all cancers(60;0.000388)|OV - Ovarian serous cystadenocarcinoma(108;0.00762)|BRCA - Breast invasive adenocarcinoma(234;0.0106)		AGAATCCAAAGGTAAAGTTTT	0.388													20	54					0	0	0.010504	0	0		A	67790529	A	A	67790529	2	1	173	1	0	0	0	0	0	0	0	1	9755	1014	35	4		4	MPP5	14	67790529	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	20670149	67790529	39559011	191	90392											
KCNK10	54207	broad.mit.edu	37	chr14	88729593	88729593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcacacagacatgatcccGcaggaattccgccttctcca	10	8	7	16	2	2	2	1	1	1	1	5	3	4	3	4	1	0	2	4	1	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:88729593G>A	uc001xwo.2	-	2	797	c.340C>T	c.(340-342)CGG>TGG	p.R114W	KCNK10_uc001xwm.2_Missense_Mutation_p.R119W|KCNK10_uc001xwn.2_Missense_Mutation_p.R119W	NM_021161	NP_066984	P57789	KCNKA_HUMAN	potassium channel, subfamily K, member 10	114					signal transduction	integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(2)|pancreas(1)	5						ACATGATCCCGCAGGAATTCC	0.582													5	18					0	0	0.001984	0	0		A	88729593	A	A	88729593	3	1	173	1	0	0	0	0	1	0	0	0	8075	1086	38	1	1300	1	KCNK10	14	88729593	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	20939064	88729593	18619947	192	90393											
C14orf159	80017	broad.mit.edu	37	chr14	91655360	91655360	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactgggttccccacacaTttcaatcatgagcctccaga	11	9	6	15	0	2	2	2	1	0	1	4	2	4	2	5	1	1	1	5	1	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:91655360T>G	uc001xzb.2	+	11	1794	c.1026T>G	c.(1024-1026)CAT>CAG	p.H342Q	C14orf159_uc010atv.1_RNA|C14orf159_uc001xyy.2_Missense_Mutation_p.H347Q|C14orf159_uc001xyx.2_Missense_Mutation_p.H330Q|C14orf159_uc001xyw.2_Missense_Mutation_p.H347Q|C14orf159_uc001xzc.2_Missense_Mutation_p.H342Q|C14orf159_uc001xza.2_Missense_Mutation_p.H347Q|C14orf159_uc001xyv.2_Missense_Mutation_p.H347Q|C14orf159_uc001xyz.2_Missense_Mutation_p.H218Q|C14orf159_uc001xze.2_Missense_Mutation_p.H342Q	NM_001102366	NP_001095836	Q7Z3D6	CN159_HUMAN	hypothetical protein LOC80017 isoform a	342						mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		TCCCCACACATTTCAATCATG	0.572													10	22					0	0	0.008291	0	0		G	91655360	G	G	91655360	3	3	173	1	0	0	0	0	1	0	0	0	1758	1490	52	5	1067	5	C14orf159	14	91655360	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	2925767	91655360	15694180	193	90394											
TECPR2	9895	broad.mit.edu	37	chr14	102910107	102910107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagagggccctcctgtaccGggagggcgtgagcagcttct	6	7	16	12	2	1	2	0	1	1	1	2	3	2	3	3	3	3	4	3	3	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr14:102910107G>A	uc001ylw.1	+	12	3024	c.2876G>A	c.(2875-2877)CGG>CAG	p.R959Q	TECPR2_uc010awl.2_Missense_Mutation_p.R959Q|TECPR2_uc010txx.1_Missense_Mutation_p.R122Q	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	959	TECPR 1.						protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						CTCCTGTACCGGGAGGGCGTG	0.607													8	25					0	0	0.00308	0	0		A	102910107	A	A	102910107	3	1	173	1	0	0	0	0	1	0	0	0	15769	1116	39	1	2918	1	TECPR2	14	102910107	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	11254747	102910107	4439433	194	90395											
RYR3	6263	broad.mit.edu	37	chr15	34028450	34028450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgcagtcacttgaggccttCcatgttacagcaactcctgc	8	11	8	14	0	1	1	1	1	0	0	3	1	3	1	3	1	5	3	3	1	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr15:34028450C>T	uc001zhi.2	+	49	7509	c.7439C>T	c.(7438-7440)TCC>TTC	p.S2480F	RYR3_uc010bar.2_Missense_Mutation_p.S2480F	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2480	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		TTGAGGCCTTCCATGTTACAG	0.373													6	17					0	0	0.021553	0	0		T	34028450	T	T	34028450	3	4	173	1	0	0	0	0	1	0	0	0	13795	855	30	4	7633	4	RYR3	15	34028450	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08		34028450	68502942	195	90396											
C15orf23	90417	broad.mit.edu	37	chr15	40675071	40675071	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccccgcccctggacagagTtttccgtacaacatggctgt	8	9	10	14	2	0	1	0	0	0	1	1	2	1	2	5	2	3	3	5	2	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr15:40675071T>G	uc001zll.2	+	1	150	c.35T>G	c.(34-36)GTT>GGT	p.V12G	C15orf23_uc010ucp.1_Missense_Mutation_p.V12G|C15orf23_uc001zlo.2_Missense_Mutation_p.V12G|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	12						nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		CTGGACAGAGTTTTCCGTACA	0.592													5	18					0	0	0.014758	0	0		G	40675071	G	G	40675071	3	3	173	1	0	0	0	0	1	0	0	0	1788	1725	60	5	37	5	C15orf23	15	40675071	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	6646621	40675071	61856321	196	90397											
IGF1R	3480	broad.mit.edu	37	chr15	99251142	99251142	+	Missense_Mutation	SNP	T	A	A	0	1	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	gattgagaaaaatgctgaccTctgttacctctccactgtgg	10	12	9	10	0	2	2	0	2	2	1	3	4	2	2	3	1	2	2	3	1	3	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr15:99251142T>A	uc002bul.2	+	2	496	c.446T>A	c.(445-447)CTC>CAC	p.L149H	IGF1R_uc010urq.1_Missense_Mutation_p.L149H|IGF1R_uc010bon.2_Missense_Mutation_p.L149H	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	149					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	AATGCTGACCTCTGTTACCTC	0.507													25	41					0	0	0.00632	0	0		A	99251142	A	A	99251142	3	1	173	1	0	0	0	0	1	0	0	0	7587	1551	54	5	452	5	IGF1R	15	99251142	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	58576071	99251142	3280250	197	90398											
OTOA	146183	broad.mit.edu	37	chr16	21709177	21709177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctatcgtttgaagaaattaCgaaaattagtcctatagaag	16	12	7	6	2	0	3	0	1	0	2	2	4	1	3	2	0	1	1	2	0	10	6	rs145435704	byFrequency	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr16:21709177C>T	uc002djh.2	+	9	822	c.821C>T	c.(820-822)ACG>ATG	p.T274M	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.T195M	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	274					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		GAAGAAATTACGAAAATTAGT	0.348													38	57					0	0	0.027894	0	0		T	21709177	T	T	21709177	3	4	173	1	0	0	0	0	1	0	0	0	11321	536	19	1	889	1	OTOA	16	21709177	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08		21709177	68645576	198	90399											
JMJD5	79831	broad.mit.edu	37	chr16	27226219	27226219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagtatatccaggagatcGctggctgccgaactgtccca	9	9	12	11	2	0	1	0	0	0	1	3	4	2	2	3	3	2	3	3	3	3	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr16:27226219G>A	uc002doh.2	+	4	870	c.688G>A	c.(688-690)GCT>ACT	p.A230T	JMJD5_uc010vcn.1_Missense_Mutation_p.A268T|JMJD5_uc010bxw.2_Intron|JMJD5_uc010bxx.2_RNA	NM_024773	NP_079049	Q8N371	KDM8_HUMAN	jumonji domain containing 5 isoform 2	230					G2/M transition of mitotic cell cycle|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|histone demethylase activity (H3-K36 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(2)|upper_aerodigestive_tract(1)	3						CCAGGAGATCGCTGGCTGCCG	0.393													38	42					0	0	0.023175	0	0		A	27226219	A	A	27226219	3	1	173	1	0	0	0	0	1	0	0	0	7968	1087	38	1	816	1	JMJD5	16	27226219	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	5517042	27226219	63128534	199	90400											
CDH11	1009	broad.mit.edu	37	chr16	65016134	65016134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggccattgctgataaacTtcgggtcgatgtgcacgttg	9	11	13	8	3	0	1	0	1	0	0	2	2	0	1	1	2	3	3	1	2	3	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr16:65016134T>G	uc002eoi.2	-	8	1504	c.1070A>C	c.(1069-1071)AAG>ACG	p.K357T	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.K357T|CDH11_uc010vin.1_Missense_Mutation_p.K231T|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	357	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GCTGATAAACTTCGGGTCGAT	0.478			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			13	73					0	0	0.016723	0	0		G	65016134	G	G	65016134	3	3	173	1	0	0	0	0	1	0	0	0	3100	1609	56	5	1344	5	CDH11	16	65016134	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	37789915	65016134	25338619	200	90401											
CES2	8824	broad.mit.edu	37	chr16	66972139	66972139	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggatggaaccacccatccGgccatgtaagctctccaagg	11	6	11	13	1	1	0	0	0	1	0	3	2	2	2	5	4	2	2	5	4	3	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr16:66972139G>A	uc002eqr.2	+	2	1468	c.468G>A	c.(466-468)CCG>CCA	p.P156P	CES2_uc002eqq.2_Silent_p.P156P|CES2_uc002eqs.2_5'UTR	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	92					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		CCACCCATCCGGCCATGTAAG	0.527													3	23					0	0	0.004672	0	0		A	66972139	A	A	66972139	2	1	173	1	0	0	0	0	0	0	0	1	3273	1103	39	1		1	CES2	16	66972139	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	1956005	66972139	23382614	201	90402											
TP53	7157	broad.mit.edu	37	chr17	7579585	7579585	+	Frame_Shift_Del	DEL	G	-	-																															tccattgcttgggacggcaaGggggactgtagatgggtgaa																								rs11575998		TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr17:7579585delG	uc002gim.2	-	4	296	c.102delC	c.(100-102)CCCfs	p.P34fs	TP53_uc002gig.1_Frame_Shift_Del_p.P34fs|TP53_uc002gih.2_Frame_Shift_Del_p.P34fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Frame_Shift_Del_p.P34fs|TP53_uc010cni.1_Frame_Shift_Del_p.P34fs|TP53_uc002gij.2_Frame_Shift_Del_p.P34fs|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_5'UTR|TP53_uc010cnk.1_Frame_Shift_Del_p.P49fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	34	Transcription activation (acidic).|Interaction with HRMT1L2.		P -> L (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.P34L(2)|p.?(1)|p.S33fs*23(1)|p.P34fs*8(1)|p.P36fs*7(1)|p.P13fs*18(1)|p.S33fs*6(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGGACGGCAAGGGGGACTGTA	0.383		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			118	76	---	---	---	---						.	-	7579585	-	-	7579585	7	5	173	1	0	1	0	1	0	0	0	0	16407	987	35	0	1200	0	TP53	17	7579585	Frame_Shift_Del	DEL	G	TCGA-D7-6527-01A-11D-1800-08		7579585	73615625	202	90403											
KCNJ12	3768	broad.mit.edu	37	chr17	21318761	21318761	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggcttcggcaacggcaaggTgcacacgcggcgcaggtgcc	7	4	16	14	6	0	0	0	0	0	0	1	0	0	0	1	6	3	5	1	6	2	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr17:21318761T>C	uc002gyv.1	+	3	812	c.107T>C	c.(106-108)GTG>GCG	p.V36A		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	36	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	AACGGCAAGGTGCACACGCGG	0.637										Prostate(3;0.18)			6	36					0	0	0.021553	0	0		C	21318761	C	C	21318761	3	2	173	1	0	0	0	0	1	0	0	0	8062	1696	59	3	109	3	KCNJ12	17	21318761	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	13739176	21318761	59876449	203	90404											
KRT28	162605	broad.mit.edu	37	chr17	38955754	38955754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatagtcatgatcaagtccaCggcaagatccaggtccgtat	12	10	9	10	2	2	2	2	1	0	1	5	2	5	2	3	2	0	2	3	2	5	3	rs140121032	byFrequency	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr17:38955754C>T	uc002hvh.1	-	1	458	c.392G>A	c.(391-393)CGT>CAT	p.R131H		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	131	Rod.|Linker 1.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				ATCAAGTCCACGGCAAGATCC	0.403													38	148					0	0	0.009718	0	0		T	38955754	T	T	38955754	3	4	173	1	0	0	0	0	1	0	0	0	8481	536	19	1	1034	1	KRT28	17	38955754	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	17636993	38955754	42239456	204	90405											
KRTAP4-5	85289	broad.mit.edu	37	chr17	39305930	39305930	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcagcaggtggtcctgcaGcaggtggtctggcagcagct	6	7	17	11	1	1	0	0	0	1	0	2	0	2	0	1	6	5	7	1	6	0	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr17:39305930G>T	uc002hwb.2	-	1	125	c.90C>A	c.(88-90)TGC>TGA	p.C30*		NM_033188	NP_149445	Q9BYR2	KRA45_HUMAN	keratin associated protein 4-5	30	4.|27 X 5 AA repeats of C-C-[GRQVCHIEK]- [SPTR]-[VSTQYC].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			TGGTCCTGCAGCAGGTGGTCT	0.557													12	56					4.3838e-07	4.56458e-07	0.016723	1	0		T	39305930	T	T	39305930	4	4	173	1	0	0	0	0	0	1	0	0	8570	963	34	5	459	5	KRTAP4-5	17	39305930	Nonsense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	350176	39305930	41889280	205	90406											
PLCD3	113026	broad.mit.edu	37	chr17	43196223	43196223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctgaatgagctgctgggcgCgggccagtgtggcgccctcc	4	8	16	13	3	1	2	0	2	1	0	2	2	2	2	3	3	2	2	3	3	1	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr17:43196223C>T	uc002iib.2	-	5	986	c.872G>A	c.(871-873)CGC>CAC	p.R291H		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	291					intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	CTGCTGGGCGCGGGCCAGTGT	0.428													4	28					0	0	0.009096	0	0		T	43196223	T	T	43196223	3	4	173	1	0	0	0	0	1	0	0	0	12051	768	27	1	1540	1	PLCD3	17	43196223	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	3890293	43196223	37998987	206	90407											
POTEC	388468	broad.mit.edu	37	chr18	14542810	14542810	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcccacgttgctcttgccGctccccctgcagcaggggaa	5	7	12	17	3	1	0	0	0	1	0	2	1	2	1	4	2	4	5	4	2	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr18:14542810G>A	uc010dln.2	-	1	790	c.336C>T	c.(334-336)AGC>AGT	p.S112S	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	112										skin(3)	3						TGCTCTTGCCGCTCCCCCTGC	0.592													41	147					0	0	0.007835	0	0		A	14542810	A	A	14542810	2	1	173	1	0	0	0	0	0	0	0	1	12281	1078	38	1		1	POTEC	18	14542810	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08		14542810	63534438	207	90408											
POTEC	388468	broad.mit.edu	37	chr18	14543009	14543009	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aggagtcgtcgtggtctccaGaagtgcccatgttgctcttg	6	12	13	10	2	2	1	0	0	2	1	5	2	2	2	2	2	2	2	2	2	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr18:14543009G>C	uc010dln.2	-	1	591	c.137C>G	c.(136-138)TCT>TGT	p.S46C	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	46										skin(3)	3						GTGGTCTCCAGAAGTGCCCAT	0.582													36	208					0	0	0.017118	0	0		C	14543009	C	C	14543009	3	2	173	1	0	0	0	0	1	0	0	0	12281	942	33	5	1535	5	POTEC	18	14543009	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	199	14543009	63534239	208	90409											
LAMA3	3909	broad.mit.edu	37	chr18	21331030	21331030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcatctccaaagcccagcGagatccaactgtcactcggc	10	7	7	17	2	3	1	2	0	1	1	6	2	4	1	4	1	3	0	4	1	2	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr18:21331030G>A	uc002kuq.2	+	5	919	c.833G>A	c.(832-834)CGA>CAA	p.R278Q	LAMA3_uc010dlv.1_Missense_Mutation_p.R278Q|LAMA3_uc002kur.2_Missense_Mutation_p.R278Q	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	278	Laminin N-terminal.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAGCCCAGCGAGATCCAACT	0.428													27	102					0	0	0.007291	0	0		A	21331030	A	A	21331030	3	1	173	1	0	0	0	0	1	0	0	0	8623	1058	37	1	851	1	LAMA3	18	21331030	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	6788021	21331030	56746218	209	90410											
ASXL3	80816	broad.mit.edu	37	chr18	31322938	31322938	+	Silent	SNP	T	C	C	0	1	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	cgagcatccactagcacatcTgtcagtggcgggaggaacac	11	6	12	12	2	2	0	1	0	1	0	3	3	3	2	1	3	3	2	1	3	2	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr18:31322938T>C	uc010dmg.1	+	12	3181	c.3126T>C	c.(3124-3126)TCT>TCC	p.S1042S	ASXL3_uc002kxq.2_Silent_p.S749S	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1042					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CTAGCACATCTGTCAGTGGCG	0.557													7	17					0	0	0.004482	0	0		C	31322938	C	C	31322938	2	2	173	1	0	0	0	0	0	0	0	1	1069	1567	55	3		3	ASXL3	18	31322938	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	9991908	31322938	46754310	210	90411											
TCEB3C	162699	broad.mit.edu	37	chr18	44549211	44549211	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccttccagaacgggttcaAgaaccgagtaggggacccct	11	6	11	13	2	1	2	1	0	0	2	2	4	2	3	5	3	2	2	5	3	4	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr18:44549211A>G	uc010dnr.2	-	1	1088	c.1088T>C	c.(1087-1089)CTT>CCT	p.L363P	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_001100817	NP_001094287	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	363	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						AACGGGTTCAAGAACCGAGTA	0.612													11	518					0	0	0.016522	0	0		G	44549211	G	G	44549211	3	3	173	1	0	0	0	0	1	0	0	0	15708	72	3	3	556	3	TCEB3C	18	44549211	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	13226273	44549211	33528037	211	90412											
DCC	1630	broad.mit.edu	37	chr18	51013247	51013247	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtctcccacctgtggatatCcccacccgcagttcactctc	6	10	6	19	2	3	0	1	0	2	0	6	1	4	1	5	1	0	2	5	1	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr18:51013247C>A	uc002lfe.1	+	26	4404	c.3817C>A	c.(3817-3819)CCC>ACC	p.P1273T	DCC_uc010dpf.1_Missense_Mutation_p.P908T	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1273	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CTGTGGATATCCCCACCCGCA	0.547													22	71					2.89027e-11	3.0514e-11	0.014323	1	0		A	51013247	A	A	51013247	3	1	173	1	0	0	0	0	1	0	0	0	4285	855	30	5	3919	5	DCC	18	51013247	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	6464036	51013247	27064001	212	90413											
ACP5	54	broad.mit.edu	37	chr19	11685996	11685996	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttggggaccttgcgctggtgCcgctttgaggggtccatgaa	5	11	16	9	2	0	2	0	2	0	0	1	3	1	3	3	5	2	2	3	5	1	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:11685996C>T	uc002msg.3	-	5	953	c.807G>A	c.(805-807)CGG>CGA	p.R269R	uc002msf.2_Intron|ACP5_uc002msh.3_Silent_p.R269R|ACP5_uc002msi.3_Silent_p.R269R|ACP5_uc002msj.3_Silent_p.R269R	NM_001611	NP_001602	P13686	PPA5_HUMAN	acid phosphatase 5, tartrate resistant	269					water-soluble vitamin metabolic process	cytosol|integral to membrane|lysosome	acid phosphatase activity|ferric iron binding|ferrous iron binding			central_nervous_system(1)	1						TGCGCTGGTGCCGCTTTGAGG	0.562													3	48					0	0	0.004672	0	0		T	11685996	T	T	11685996	2	4	173	1	0	0	0	0	0	0	0	1	164	726	26	2		2	ACP5	19	11685996	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08		11685996	47442987	213	90414											
ZNF799	90576	broad.mit.edu	37	chr19	12491779	12491779	+	Silent	SNP	T	C	C	0	1	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	aataaactgggccagaaaaaTgctttcccacacaacttaca	17	8	5	11	0	0	1	0	0	0	1	1	1	1	1	2	1	4	1	2	1	7	3	rs17706075	by1000genomes	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:12491779T>C	uc002mts.3	-	4	763	c.297A>G	c.(295-297)GCA>GCG	p.A99A				Q96GE5	ZN799_HUMAN	Homo sapiens cDNA clone IMAGE:30340957, **** WARNING: chimeric clone ****.	205	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						GCCAGAAAAATGCTTTCCCAC	0.388													3	57					0	0	0.004672	0	0		C	12491779	C	C	12491779	2	2	173	1	0	0	0	0	0	0	0	1	18191	1479	51	3		3	ZNF799	19	12491779	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	805783	12491779	46637204	214	90415											
RTBDN	83546	broad.mit.edu	37	chr19	12939563	12939563	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaagggcacgttggaggtgTtccaggaaggattcgcatct	9	9	15	8	3	1	0	0	0	1	0	3	4	2	3	1	5	0	4	1	5	2	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:12939563T>C	uc002mvi.2	-	4	403	c.273A>G	c.(271-273)GAA>GAG	p.E91E	RTBDN_uc002mvh.1_Silent_p.E123E|RTBDN_uc002mvj.2_Silent_p.E123E	NM_001080997	NP_001074466	Q9BSG5	RTBDN_HUMAN	retbindin isoform 1	91						extracellular region					0						GTTGGAGGTGTTCCAGGAAGG	0.622													3	65					0	0	0.004672	0	0		C	12939563	C	C	12939563	2	2	173	1	0	0	0	0	0	0	0	1	13742	1722	60	3		3	RTBDN	19	12939563	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	447784	12939563	46189420	215	90416											
CYP4F3	4051	broad.mit.edu	37	chr19	15760856	15760856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtttccgcagggcctgcCgcctggtgcacgacttcaca	6	8	12	15	4	1	0	1	0	0	0	2	1	2	0	4	2	3	3	4	2	0	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:15760856C>T	uc002nbj.2	+	7	831	c.781C>T	c.(781-783)CGC>TGC	p.R261C	CYP4F3_uc010xok.1_Missense_Mutation_p.R261C|CYP4F3_uc010xol.1_Missense_Mutation_p.R261C|CYP4F3_uc010xom.1_Missense_Mutation_p.R112C|CYP4F3_uc002nbk.2_Missense_Mutation_p.R261C|CYP4F3_uc010xon.1_5'UTR	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	261					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						CAGGGCCTGCCGCCTGGTGCA	0.577													43	87					0	0	0.01441	0	0		T	15760856	T	T	15760856	3	4	173	1	0	0	0	0	1	0	0	0	4193	652	23	1	803	1	CYP4F3	19	15760856	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	2821293	15760856	43368127	216	90417											
KIAA1683	80726	broad.mit.edu	37	chr19	18376589	18376589	+	Silent	SNP	A	G	G	1	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	ctggggaccccagttcccggAtgtggttgagccaggcacct	6	8	14	13	1	0	1	0	1	0	0	1	3	1	3	5	5	1	3	5	5	0	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:18376589A>G	uc002nin.2	-	3	1977	c.1761T>C	c.(1759-1761)CAT>CAC	p.H587H	KIAA1683_uc010ebn.2_Silent_p.H587H|KIAA1683_uc010xqe.1_Silent_p.H541H	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	587						mitochondrion				ovary(2)	2						CAGTTCCCGGATGTGGTTGAG	0.557													9	51					0	0	0.004482	0	0		G	18376589	G	G	18376589	2	3	173	1	0	0	0	0	0	0	0	1	8267	330	12	3		3	KIAA1683	19	18376589	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	2615733	18376589	40752394	217	90418											
ZNF492	57615	broad.mit.edu	37	chr19	22847417	22847417	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaatgtgaagaatgtggtAaggcctttagccagttatcc	13	11	10	7	0	0	2	0	1	0	1	1	2	1	2	3	2	1	2	3	2	6	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:22847417A>G	uc002nqw.3	+	4	1190	c.946A>G	c.(946-948)AAG>GAG	p.K316E		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	316	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				AGAATGTGGTAAGGCCTTTAG	0.383													14	28					0	0	0.006122	0	0		G	22847417	G	G	22847417	3	3	173	1	0	0	0	0	1	0	0	0	17968	363	13	3	956	3	ZNF492	19	22847417	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	4470828	22847417	36281566	218	90419											
ZNF99	7652	broad.mit.edu	37	chr19	22940468	22940468	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattaccttatgtacagtaAgttttgaggaccacttaaaa	15	13	7	6	0	0	1	0	1	0	0	0	3	0	2	2	1	2	3	2	1	7	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:22940468A>C	uc010xrh.1	-	5	1970	c.1970T>G	c.(1969-1971)CTT>CGT	p.L657R		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				ATGTACAGTAAGTTTTGAGGA	0.368													18	36					0	0	0.014323	0	0		C	22940468	C	C	22940468	3	2	173	1	0	0	0	0	1	0	0	0	18229	72	3	5	1154	5	ZNF99	19	22940468	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	93051	22940468	36188515	219	90420											
UQCRFS1	7386	broad.mit.edu	37	chr19	29698476	29698476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taaccaacaatcaccatatcGtcactggtgaactcatacgt	14	10	5	12	2	3	1	3	1	0	0	4	1	3	1	2	1	4	0	2	1	6	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:29698476G>A	uc002nsd.2	-	2	915	c.804C>T	c.(802-804)GAC>GAT	p.D268D		NM_006003	NP_005994	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske	268	Rieske.				respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex III	2 iron, 2 sulfur cluster binding|metal ion binding|ubiquinol-cytochrome-c reductase activity				0	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			TCACCATATCGTCACTGGTGA	0.473													3	36					0	0	0.004672	0	0		A	29698476	A	A	29698476	2	1	173	1	0	0	0	0	0	0	0	1	17047	1136	40	1		1	UQCRFS1	19	29698476	Silent	SNP	G	TCGA-D7-6527-01A-11D-1800-08	6758008	29698476	29430507	220	90421											
ZNF536	9745	broad.mit.edu	37	chr19	31040275	31040275	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccttggcgggcctgccaaAgccggagcgggggccccaga	6	3	16	16	3	0	1	0	0	0	1	0	2	0	2	7	5	3	0	7	5	1	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:31040275A>T	uc002nsu.1	+	4	3887	c.3749A>T	c.(3748-3750)AAG>ATG	p.K1250M	ZNF536_uc010edd.1_Missense_Mutation_p.K1250M	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGCCTGCCAAAGCCGGAGCGG	0.622													6	16					0	0	0.021553	0	0		T	31040275	T	T	31040275	3	4	173	1	0	0	0	0	1	0	0	0	17999	72	3	5	3759	5	ZNF536	19	31040275	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	1341799	31040275	28088708	221	90422											
ARHGAP33	115703	broad.mit.edu	37	chr19	36271381	36271381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggatcggagctggtggcGgggcaagcgaggcttccagg	8	5	20	8	3	0	1	0	0	0	1	2	4	1	3	1	8	2	3	1	8	1	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:36271381G>A	uc002obr.1	+	8	768	c.683G>A	c.(682-684)CGG>CAG	p.R228Q	ARHGAP33_uc002obs.1_Missense_Mutation_p.R228Q|ARHGAP33_uc002obt.1_Missense_Mutation_p.R92Q|ARHGAP33_uc010eel.2_5'Flank|ARHGAP33_uc002obv.1_5'Flank	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	228	SH3.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						AGCTGGTGGCGGGGCAAGCGA	0.652													5	20					0	0	0.021553	0	0		A	36271381	A	A	36271381	3	1	173	1	0	0	0	0	1	0	0	0	882	1116	39	1	713	1	ARHGAP33	19	36271381	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	5231106	36271381	22857602	222	90423											
ZFP14	57677	broad.mit.edu	37	chr19	36832163	36832163	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agtatgaattctcaggtgttGactaagtgttgagcgacgaa	12	12	12	5	2	1	3	1	3	1	0	2	5	1	3	0	1	1	3	0	1	4	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:36832163G>C	uc002odx.1	-	4	658	c.565C>G	c.(565-567)CAA>GAA	p.Q189E	ZFP14_uc010xtd.1_Missense_Mutation_p.Q190E|ZFP14_uc010eex.1_Missense_Mutation_p.Q189E	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	189	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					CTCAGGTGTTGACTAAGTGTT	0.408													28	77					0	0	0.007291	0	0		C	36832163	C	C	36832163	3	2	173	1	0	0	0	0	1	0	0	0	17664	1299	45	5	1040	5	ZFP14	19	36832163	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	560782	36832163	22296820	223	90424											
ZNF571	51276	broad.mit.edu	37	chr19	38056875	38056875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctcatgttgaataaggcatGacaggtagctgaaaccttgt	12	11	10	8	0	1	3	1	3	0	0	1	3	1	3	2	2	2	4	2	2	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:38056875G>A	uc002ogt.2	-	4	556	c.455C>T	c.(454-456)TCA>TTA	p.S152L	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.S152L	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	152	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AATAAGGCATGACAGGTAGCT	0.343													23	31					0	0	0.012319	0	0		A	38056875	A	A	38056875	3	1	173	1	0	0	0	0	1	0	0	0	18028	1294	45	4	1378	4	ZNF571	19	38056875	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	1224712	38056875	21072108	224	90425											
CCDC155	147872	broad.mit.edu	37	chr19	49918217	49918217	+	Missense_Mutation	SNP	A	C	C	1	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	ttggccctcaggttgaccagAagagaggaagaggaggatgc	12	6	16	7	0	1	4	1	1	0	3	1	8	1	7	2	5	1	1	2	5	2	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:49918217A>C	uc002pnm.1	+	17	1512	c.1338A>C	c.(1336-1338)AGA>AGC	p.R446S	CCDC155_uc010emx.1_Missense_Mutation_p.R417S	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	446						integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						GGTTGACCAGAAGAGAGGAAG	0.602													6	10					0	0	0.004482	0	0		C	49918217	C	C	49918217	3	2	173	1	0	0	0	0	1	0	0	0	2791	243	9	5	1400	5	CCDC155	19	49918217	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	11861342	49918217	9210766	225	90426											
SIGLEC5	8778	broad.mit.edu	37	chr19	52130978	52130978	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagcctcccaggagcaggagGggcccagcaactgtgggagg	9	3	17	12	0	0	0	0	0	0	0	1	3	1	3	3	6	4	2	3	6	1	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:52130978G>C	uc002pxe.2	-	6	1158	c.1019C>G	c.(1018-1020)CCC>CGC	p.P340R		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	340	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		GGAGCAGGAGGGGCCCAGCAA	0.657													4	25					0	0	0.009096	0	0		C	52130978	C	C	52130978	3	2	173	1	0	0	0	0	1	0	0	0	14336	1232	43	5	652	5	SIGLEC5	19	52130978	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	2212761	52130978	6998005	226	90427											
ZNF416	55659	broad.mit.edu	37	chr19	58084932	58084932	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtcaggtgcaaaatgtcggTcaggaatgggacacacatgt	12	8	14	7	1	2	0	2	0	0	0	3	2	2	2	0	5	1	1	0	5	3	0			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:58084932T>C	uc002qpf.2	-	4	511	c.340A>G	c.(340-342)ACC>GCC	p.T114A	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0259)		AAAATGTCGGTCAGGAATGGG	0.512													12	23					0	0	0.013537	0	0		C	58084932	C	C	58084932	3	2	173	1	0	0	0	0	1	0	0	0	17918	1667	58	3	1448	3	ZNF416	19	58084932	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	5953954	58084932	1044051	227	90428											
ZSCAN4	201516	broad.mit.edu	37	chr19	58190208	58190208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtcatccacataccacCgccatatgaggactcatgag	12	7	8	14	1	2	2	2	2	0	0	3	3	3	3	5	1	1	0	5	1	2	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr19:58190208C>T	uc002qpu.2	+	5	1934	c.1237C>T	c.(1237-1239)CGC>TGC	p.R413C		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	413	C2H2-type 4.				telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CACATACCACCGCCATATGAG	0.458													48	38					0	0	0.01441	0	0		T	58190208	T	T	58190208	3	4	173	1	0	0	0	0	1	0	0	0	18262	652	23	1	1247	1	ZSCAN4	19	58190208	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	105276	58190208	938775	228	90429											
PAX1	5075	broad.mit.edu	37	chr20	21687401	21687401	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaccggctgctggccgacggCgtctgtgacaagtacaatgt	8	8	14	11	4	1	1	0	1	1	0	1	3	1	1	2	3	2	3	2	3	3	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr20:21687401C>T	uc002wsj.2	+	2	666	c.612C>T	c.(610-612)GGC>GGT	p.G204G	PAX1_uc010zsl.1_Silent_p.G204G|PAX1_uc010zsm.1_Silent_p.G180G	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	204	Paired.				regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						TGGCCGACGGCGTCTGTGACA	0.622													10	53					0	0	0.006214	0	0		T	21687401	T	T	21687401	2	4	173	1	0	0	0	0	0	0	0	1	11497	755	27	1		1	PAX1	20	21687401	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08		21687401	41338119	229	90430											
DEFB118	117285	broad.mit.edu	37	chr20	29960728	29960728	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaatgcaaagatggagaaGcagtgaaagatacatgcaaa	21	5	10	5	0	0	4	0	1	0	3	0	5	0	4	0	1	5	3	0	1	7	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr20:29960728G>T	uc002wvr.2	+	2	153	c.127G>T	c.(127-129)GCA>TCA	p.A43S		NM_054112	NP_473453	Q96PH6	DB118_HUMAN	beta-defensin 118 precursor	43					cell-matrix adhesion|defense response to bacterium|innate immune response|spermatogenesis	extracellular region				ovary(3)|pancreas(1)	4	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			AGATGGAGAAGCAGTGAAAGA	0.438													13	44					5.50884e-06	5.69685e-06	0.013537	1	0		T	29960728	T	T	29960728	3	4	173	1	0	0	0	0	1	0	0	0	4411	971	34	5	133	5	DEFB118	20	29960728	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	8273327	29960728	33064792	230	90431											
NCOA5	57727	broad.mit.edu	37	chr20	44695694	44695694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatatctaagggttcttacTttgtctgtttgttgaccaca	10	17	7	7	0	3	1	0	1	3	0	3	1	3	1	1	1	1	3	1	1	4	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr20:44695694T>C	uc002xrd.2	-	4	1157	c.629A>G	c.(628-630)AAA>AGA	p.K210R	NCOA5_uc002xrc.2_Missense_Mutation_p.K98R|NCOA5_uc002xre.2_Missense_Mutation_p.K210R	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	210					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				GGGTTCTTACTTTGTCTGTTT	0.423													34	87					0	0	0.021022	0	0		C	44695694	C	C	44695694	3	2	173	1	0	0	0	0	1	0	0	0	10251	1623	56	3	1126	3	NCOA5	20	44695694	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	14734966	44695694	18329826	231	90432											
ZNF217	7764	broad.mit.edu	37	chr20	52198276	52198276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gctactgggtaacttgggatCcgcgtccacggagggcgctt	6	9	15	11	4	0	0	0	0	0	0	2	2	2	2	2	4	2	3	2	4	2	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr20:52198276C>T	uc002xwq.3	-	1	1361	c.1090G>A	c.(1090-1092)GAT>AAT	p.D364N	ZNF217_uc010gij.1_Missense_Mutation_p.D356N	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	364					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			AACTTGGGATCCGCGTCCACG	0.567													30	905					0	0	0.008361	0	0		T	52198276	T	T	52198276	3	4	173	1	0	0	0	0	1	0	0	0	17797	855	30	4	2072	4	ZNF217	20	52198276	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	7502582	52198276	10827244	232	90433											
ZNF217	7764	broad.mit.edu	37	chr20	52198321	52198321	+	Nonsense_Mutation	SNP	C	A	A																															gtgggagtgtttgcacttctCtttctcttgcgagaggcctg																								rs141467941	byFrequency	TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr20:52198321C>A	uc002xwq.3	-	1	1316	c.1045G>T	c.(1045-1047)GAG>TAG	p.E349*	ZNF217_uc010gij.1_Nonsense_Mutation_p.E341*	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	349					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TTGCACTTCTCTTTCTCTTGC	0.572													35	936					1.26612e-14	1.35082e-14	0.015359	1	0		A	52198321	A	A	52198321	4	1	173	1	0	0	0	0	0	1	0	0	17797	922	32	5	2117	5	ZNF217	20	52198321	Nonsense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	45	52198321	10827199	233	90434	166	2									
ZNF217	7764	broad.mit.edu	37	chr20	52198327	52198327	+	Missense_Mutation	SNP	C	G	G																															gtgtttgcacttctctttctCttgcgagaggcctgcacaac																										TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr20:52198327C>G	uc002xwq.3	-	1	1310	c.1039G>C	c.(1039-1041)GAG>CAG	p.E347Q	ZNF217_uc010gij.1_Missense_Mutation_p.E339Q	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	347					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			TTCTCTTTCTCTTGCGAGAGG	0.567													29	945					0	0	0.021022	0	0		G	52198327	G	G	52198327	3	3	173	1	0	0	0	0	1	0	0	0	17797	922	32	5	2123	5	ZNF217	20	52198327	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	6	52198327	10827193	234	90435	166	2									
TPTE	7179	broad.mit.edu	37	chr21	10952958	10952958	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgcacaattttcttaatcTtgctgctgcaaaaagaagta	15	13	6	7	0	2	1	0	0	2	1	2	1	2	1	0	0	4	5	0	0	7	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr21:10952958T>C	uc002yip.1	-	9	607	c.239A>G	c.(238-240)AAG>AGG	p.K80R	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.K62R|TPTE_uc002yir.1_Missense_Mutation_p.K42R|TPTE_uc010gkv.1_5'UTR	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	80					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTTCTTAATCTTGCTGCTGCA	0.254													8	28					0	0	0.008291	0	0		C	10952958	C	C	10952958	3	2	173	1	0	0	0	0	1	0	0	0	16456	1609	56	3	1480	3	TPTE	21	10952958	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08		10952958	37176937	235	90436											
SAMSN1	64092	broad.mit.edu	37	chr21	15858241	15858241	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaatgcgtgttcagtcacTtggctctgtgataataatct	9	14	11	7	1	4	1	2	1	2	0	4	2	4	2	0	2	1	2	0	2	3	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr21:15858241T>G	uc002yju.1	-	8	1196	c.1114A>C	c.(1114-1116)AGT>CGT	p.S372R	SAMSN1_uc010gky.1_Missense_Mutation_p.S204R|SAMSN1_uc002yjv.1_Missense_Mutation_p.S440R	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	372					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		GTTCAGTCACTTGGCTCTGTG	0.363													6	100					0	0	0.021553	0	0		G	15858241	G	G	15858241	3	3	173	1	0	0	0	0	1	0	0	0	13855	1609	56	5	11	5	SAMSN1	21	15858241	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	4905283	15858241	32271654	236	90437											
JAM2	58494	broad.mit.edu	37	chr21	27062235	27062235	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctccagattagagtggaAgaaactgggtcggagtgtct	10	11	13	7	1	1	3	0	0	1	3	4	5	3	5	2	3	1	0	2	3	3	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr21:27062235A>C	uc002ylp.1	+	3	736	c.191A>C	c.(190-192)AAG>ACG	p.K64T	JAM2_uc011ace.1_Missense_Mutation_p.K64T|JAM2_uc002ylq.1_RNA|JAM2_uc011acf.1_Intron|JAM2_uc010glh.1_RNA|JAM2_uc002ylr.1_Missense_Mutation_p.K64T|JAM2_uc010gli.1_Missense_Mutation_p.K64T	NM_021219	NP_067042	P57087	JAM2_HUMAN	junctional adhesion molecule 2 precursor	64	Ig-like V-type.|Extracellular (Potential).				blood coagulation|cell-cell adhesion|leukocyte migration	integral to plasma membrane|tight junction					0						TTAGAGTGGAAGAAACTGGGT	0.423													4	180					0	0	0.014758	0	0		C	27062235	C	C	27062235	3	2	173	1	0	0	0	0	1	0	0	0	7959	72	3	5	201	5	JAM2	21	27062235	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	11203994	27062235	21067660	237	90438											
APP	351	broad.mit.edu	37	chr21	27264118	27264118	+	Silent	SNP	A	G	G	1	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	atcactgtcgctatgacaacAccgcccaccatgagtccaat	12	8	6	15	2	1	2	1	2	0	0	3	2	2	2	4	0	1	1	4	0	3	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr21:27264118A>G	uc002ylz.2	-	17	2327	c.2127T>C	c.(2125-2127)GGT>GGC	p.G709G	APP_uc011acg.1_Silent_p.G217G|APP_uc010glk.2_Silent_p.G685G|APP_uc002yma.2_Silent_p.G690G|APP_uc011ach.1_Silent_p.G653G|APP_uc002ymb.2_Silent_p.G634G|APP_uc010glj.2_Silent_p.G578G|APP_uc011aci.1_Silent_p.G599G	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	709	Helical; (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				CTATGACAACACCGCCCACCA	0.403													13	42					0	0	0.020292	0	0		G	27264118	G	G	27264118	2	3	173	1	0	0	0	0	0	0	0	1	815	146	6	3		3	APP	21	27264118	Silent	SNP	A	TCGA-D7-6527-01A-11D-1800-08	201883	27264118	20865777	238	90439											
ADAMTS5	11096	broad.mit.edu	37	chr21	28304387	28304387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtcagcttgcacacatccGctggcaggacacctgcatat	10	8	10	13	1	1	0	1	0	0	0	2	1	2	1	2	3	3	5	2	3	1	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr21:28304387G>A	uc002ymg.2	-	6	2714	c.1985C>T	c.(1984-1986)GCG>GTG	p.A662V		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	662	Cys-rich.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GCACACATCCGCTGGCAGGAC	0.488													23	34					0	0	0.012319	0	0		A	28304387	A	A	28304387	3	1	173	1	0	0	0	0	1	0	0	0	269	1087	38	1	819	1	ADAMTS5	21	28304387	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	1040269	28304387	19825508	239	90440											
NAGA	4668	broad.mit.edu	37	chr22	42462769	42462769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcaggagaaggcgatggggCggcctgtggcattcagggca	8	6	19	8	2	1	1	1	0	0	1	1	3	1	1	1	7	1	3	1	7	1	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr22:42462769C>T	uc003bbx.2	-	6	679	c.542G>A	c.(541-543)CGC>CAC	p.R181H	NAGA_uc003bby.2_Missense_Mutation_p.R181H|NAGA_uc003bbw.3_Missense_Mutation_p.R181H	NM_000262	NP_000253	P17050	NAGAB_HUMAN	alpha-N-acetylgalactosaminidase precursor	181					glycoside catabolic process|glycosylceramide catabolic process|oligosaccharide metabolic process	lysosome	alpha-galactosidase activity|alpha-N-acetylgalactosaminidase activity|cation binding|protein homodimerization activity			central_nervous_system(1)	1						GGCGATGGGGCGGCCTGTGGC	0.632													3	3					0	0	0.014758	0	0		T	42462769	T	T	42462769	3	4	173	1	0	0	0	0	1	0	0	0	10159	768	27	1	713	1	NAGA	22	42462769	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08		42462769	8841797	240	90441											
TUBGCP6	85378	broad.mit.edu	37	chr22	50659547	50659547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcattggatacgtgtcCgtgggtgttccaccgtggct	4	12	15	10	3	0	0	0	0	0	0	2	1	2	1	3	4	1	4	3	4	1	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chr22:50659547C>T	uc003bkb.1	-	16	3753	c.3241G>A	c.(3241-3243)GGA>AGA	p.G1081R	TUBGCP6_uc003bka.1_Missense_Mutation_p.G168R|TUBGCP6_uc010har.1_Missense_Mutation_p.G1073R|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1081	9 X 27 AA tandem repeats.|3.				G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		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)		GATACGTGTCCGTGGGTGTTC	0.612													36	98					0	0	0.025465	0	0		T	50659547	T	T	50659547	3	4	173	1	0	0	0	0	1	0	0	0	16796	661	23	1	2258	1	TUBGCP6	22	50659547	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	8196778	50659547	645019	241	90442											
ACE2	59272	broad.mit.edu	37	chrX	15593858	15593858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaagaccatccacctccacTtctctaacatgtaagtaaat	15	11	3	12	0	1	1	0	0	1	1	4	1	3	1	4	0	1	2	4	0	6	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:15593858T>G	uc004cxa.1	-	10	1541	c.1373A>C	c.(1372-1374)AAG>ACG	p.K458T	ACE2_uc004cxb.2_Missense_Mutation_p.K458T	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	458	Extracellular (Potential).				angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	CCACCTCCACTTCTCTAACAT	0.378													20	16					0	0	0.008871	0	0		G	15593858	G	G	15593858	3	3	173	1	0	0	0	0	1	0	0	0	137	1609	56	5	1080	5	ACE2	23	15593858	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08		15593858	139676702	242	90443											
NR0B1	190	broad.mit.edu	37	chrX	30326665	30326665	+	Silent	SNP	C	T	T	0	0	0	1	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	ggcagcacctggaagcagggCaagtacttgacgaagcgcag	12	4	15	10	2	0	1	0	1	0	0	0	3	0	2	1	3	4	6	1	3	4	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:30326665C>T	uc004dcf.3	-	1	831	c.816G>A	c.(814-816)TTG>TTA	p.L272L		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	272	Ligand-binding (By similarity).				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	GGAAGCAGGGCAAGTACTTGA	0.662											OREG0019719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	5					0	0	0.014758	0	0		T	30326665	T	T	30326665	2	4	173	1	0	0	0	0	0	0	0	1	10632	709	25	2		2	NR0B1	23	30326665	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	14732807	30326665	124943895	243	90444											
USP9X	8239	broad.mit.edu	37	chrX	41075642	41075642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgtatgtcatacaggcGccagaaaaggtggtggaatg	13	7	15	6	2	1	1	1	0	0	1	1	3	1	2	1	4	2	1	1	4	6	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:41075642G>A	uc004dfb.2	+	35	6455	c.5822G>A	c.(5821-5823)CGC>CAC	p.R1941H	USP9X_uc004dfc.2_Missense_Mutation_p.R1941H	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1941					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TCATACAGGCGCCAGAAAAGG	0.378													89	16					0	0	0.01441	0	0		A	41075642	A	A	41075642	3	1	173	1	0	0	0	0	1	0	0	0	17116	1087	38	1	5956	1	USP9X	23	41075642	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	10748977	41075642	114194918	244	90445											
AR	367	broad.mit.edu	37	chrX	66765865	66765865	+	Missense_Mutation	SNP	T	C	C	0	1	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	cattggccgaatgcaaaggtTctctgctagacgacagcgca	11	8	11	11	3	1	1	0	0	1	1	2	3	1	1	1	2	3	4	1	2	3	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:66765865T>C	uc004dwu.1	+	1	1992	c.877T>C	c.(877-879)TCT>CCT	p.S293P	AR_uc011mpd.1_Missense_Mutation_p.S293P|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.S293P	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	291	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	ATGCAAAGGTTCTCTGCTAGA	0.567									Androgen_Insensitivity_Syndrome				11	25					0	0	0.010729	0	0		C	66765865	C	C	66765865	3	2	173	1	0	0	0	0	1	0	0	0	836	1783	62	3	879	3	AR	23	66765865	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	25690223	66765865	88504695	245	90446											
NLGN3	54413	broad.mit.edu	37	chrX	70375090	70375090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacagtggtgctaaacccGtcatggtctacatccacgga	10	8	12	11	2	2	0	1	0	1	0	3	2	3	2	2	4	3	1	2	4	3	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:70375090G>A	uc004dzd.1	+	4	804	c.604G>A	c.(604-606)GTC>ATC	p.V202I	NLGN3_uc010nlb.1_Missense_Mutation_p.V162I|NLGN3_uc004dzb.2_Missense_Mutation_p.V182I|NLGN3_uc004dzc.2_Missense_Mutation_p.V65I|NLGN3_uc011mps.1_Missense_Mutation_p.V162I|NLGN3_uc004dze.2_5'UTR|NLGN3_uc011mpr.1_Missense_Mutation_p.V162I	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	202	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					TGCTAAACCCGTCATGGTCTA	0.587													3	27					0	0	0.004672	0	0		A	70375090	A	A	70375090	3	1	173	1	0	0	0	0	1	0	0	0	10482	1145	40	1	618	1	NLGN3	23	70375090	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	3609225	70375090	84895470	246	90447											
KIAA2022	340533	broad.mit.edu	37	chrX	73961616	73961616	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgtaggtgtgaggttatTttccatggagactacttggg	7	16	14	4	0	0	2	0	1	0	1	1	3	1	2	1	4	1	3	1	4	3	7			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:73961616T>G	uc004eby.2	-	3	3393	c.2776A>C	c.(2776-2778)AAT>CAT	p.N926H		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	926					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GTGAGGTTATTTTCCATGGAG	0.478													6	24					0	0	0.001984	0	0		G	73961616	G	G	73961616	3	3	173	1	0	0	0	0	1	0	0	0	8285	1841	64	5	1782	5	KIAA2022	23	73961616	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	3586526	73961616	81308944	247	90448											
KLHL4	56062	broad.mit.edu	37	chrX	86919826	86919826	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgttcctcgagatgctgTtgctgtgtgccctcttggag	4	14	14	9	1	1	1	0	0	1	1	3	4	2	2	2	1	3	4	2	1	0	3			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:86919826T>G	uc004efb.2	+	10	2170	c.1988T>G	c.(1987-1989)GTT>GGT	p.V663G	KLHL4_uc004efa.2_Missense_Mutation_p.V663G	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	663	Kelch 5.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CGAGATGCTGTTGCTGTGTGC	0.428													10	26					0	0	0.006214	0	0		G	86919826	G	G	86919826	3	3	173	1	0	0	0	0	1	0	0	0	8407	1725	60	5	2026	5	KLHL4	23	86919826	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	12958210	86919826	68350734	248	90449											
DIAPH2	1730	broad.mit.edu	37	chrX	95993746	95993746	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaaggaagtattggatctCtttgaaaaaatgatggtaag	17	11	11	2	0	1	2	0	2	1	0	2	5	1	4	0	3	0	2	0	3	8	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:95993746C>A	uc004efu.3	+	3	723	c.327C>A	c.(325-327)CTC>CTA	p.L109L	DIAPH2_uc004eft.3_Silent_p.L109L|DIAPH2_uc004efs.2_Silent_p.L109L	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	109	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						TATTGGATCTCTTTGAAAAAA	0.363													15	32					5.01169e-05	5.16511e-05	0.00499	1	0		A	95993746	A	A	95993746	2	1	173	1	0	0	0	0	0	0	0	1	4525	900	32	5		5	DIAPH2	23	95993746	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	9073920	95993746	59276814	249	90450											
ARL13A	392509	broad.mit.edu	37	chrX	100242442	100242442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccatagttgaaggactgCgctggctattagctgtcatt	9	12	11	9	1	1	1	1	1	0	0	1	2	1	2	1	2	3	4	1	2	4	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:100242442C>T	uc004ego.2	+	6	666	c.550C>T	c.(550-552)CGC>TGC	p.R184C	ARL13A_uc011mrf.1_Missense_Mutation_p.R184C|ARL13A_uc010nng.2_Missense_Mutation_p.R184C	NM_001012990	NP_001013008	Q5H913	AR13A_HUMAN	ADP-ribosylation factor-like 13 isoform a	184							GTP binding			ovary(1)	1						TGAAGGACTGCGCTGGCTATT	0.473													23	22					0	0	0.014323	0	0		T	100242442	T	T	100242442	3	4	173	1	0	0	0	0	1	0	0	0	928	768	27	1	568	1	ARL13A	23	100242442	Missense_Mutation	SNP	C	TCGA-D7-6527-01A-11D-1800-08	4248696	100242442	55028118	250	90451											
NXT2	55916	broad.mit.edu	37	chrX	108785790	108785790	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgaccagtggaactgtgaAgtttgatggaaacaaacaac	15	9	11	6	0	0	3	0	3	0	0	0	5	0	5	1	2	4	1	1	2	5	1			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:108785790A>C	uc004eof.1	+	4	446	c.302A>C	c.(301-303)AAG>ACG	p.K101T	NXT2_uc004eoe.1_Missense_Mutation_p.K156T|NXT2_uc004eog.1_Missense_Mutation_p.K73T	NM_018698	NP_061168	Q9NPJ8	NXT2_HUMAN	nuclear transport factor 2-like export factor 2	101	NTF2.				mRNA transport|protein transport	cytoplasm|nucleus				ovary(1)	1						GGAACTGTGAAGTTTGATGGA	0.403													23	51					0	0	0.016522	0	0		C	108785790	C	C	108785790	3	2	173	1	0	0	0	0	1	0	0	0	10814	72	3	5	485	5	NXT2	23	108785790	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	8543348	108785790	46484770	251	90452											
GRIA3	2892	broad.mit.edu	37	chrX	122319754	122319754	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtgcagttatacaacacCaaccagaacaccaccgagaa	16	4	7	14	2	0	2	0	0	0	2	0	3	0	2	5	0	5	2	5	0	6	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:122319754C>T	uc004etq.3	+	3	473	c.180C>T	c.(178-180)ACC>ACT	p.T60T	GRIA3_uc004etr.3_Silent_p.T60T|GRIA3_uc004ets.3_RNA|GRIA3_uc011muf.1_Silent_p.T44T|GRIA3_uc010nqs.1_Silent_p.T60T	NM_007325	NP_015564	P42263	GRIA3_HUMAN	glutamate receptor, ionotrophic, AMPA 3 isoform	60	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5					L-Glutamic Acid(DB00142)	TATACAACACCAACCAGAACA	0.453													4	41					0	0	0.009096	0	0		T	122319754	T	T	122319754	2	4	173	1	0	0	0	0	0	0	0	1	6785	581	21	4		4	GRIA3	23	122319754	Silent	SNP	C	TCGA-D7-6527-01A-11D-1800-08	13533964	122319754	32950806	252	90453											
F9	2158	broad.mit.edu	37	chrX	138630607	138630607	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtttgctcctgtactgaGggatatcgacttgcagaaaa	10	12	12	7	1	0	2	0	1	0	1	2	4	1	3	1	2	3	4	1	2	4	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:138630607G>C	uc004fas.1	+	5	506	c.477G>C	c.(475-477)GAG>GAC	p.E159D	F9_uc004fat.1_Missense_Mutation_p.E121D	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	159	EGF-like 2.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CCTGTACTGAGGGATATCGAC	0.358													20	22					0	0	0.012319	0	0		C	138630607	C	C	138630607	3	2	173	1	0	0	0	0	1	0	0	0	5362	991	35	5	495	5	F9	23	138630607	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	16310853	138630607	16639953	253	90454											
SPANXC	64663	broad.mit.edu	37	chrX	140335763	140335763	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagttcctctggagatgttcTtttcacgttcctcctgtagc	5	16	8	12	1	3	1	1	0	2	1	6	2	6	1	3	1	1	4	3	1	1	6			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:140335763T>G	uc004fbk.2	-	2	237	c.181A>C	c.(181-183)AGA>CGA	p.R61R	SPANXC_uc004fbl.2_RNA	NM_022661	NP_073152	Q9NY87	SPNXC_HUMAN	sperm protein associated with the nucleus, X	61						cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					GGAGATGTTCTTTTCACGTTC	0.483													4	130					0	0	0.014758	0	0		G	140335763	G	G	140335763	2	3	173	1	0	0	0	0	0	0	0	1	15012	1617	56	5		5	SPANXC	23	140335763	Silent	SNP	T	TCGA-D7-6527-01A-11D-1800-08	1705156	140335763	14934797	254	90455											
SLITRK2	84631	broad.mit.edu	37	chrX	144904233	144904233	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcttcacctaggtaacaacgGgttacaggagatccgaacgg	12	8	11	10	3	2	1	1	0	1	1	3	3	3	1	2	4	4	2	2	4	5	4			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:144904233G>A	uc004fcd.2	+	5	1280	c.290G>A	c.(289-291)GGG>GAG	p.G97E	SLITRK2_uc010nsp.2_Missense_Mutation_p.G97E|SLITRK2_uc010nso.2_Missense_Mutation_p.G97E|SLITRK2_uc011mwq.1_Missense_Mutation_p.G97E|SLITRK2_uc011mwr.1_Missense_Mutation_p.G97E|SLITRK2_uc011mws.1_Missense_Mutation_p.G97E|SLITRK2_uc004fcg.2_Missense_Mutation_p.G97E|SLITRK2_uc011mwt.1_Missense_Mutation_p.G97E	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	97	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					GGTAACAACGGGTTACAGGAG	0.448													13	22					0	0	0.024245	0	0		A	144904233	A	A	144904233	3	1	173	1	0	0	0	0	1	0	0	0	14768	1232	43	4	292	4	SLITRK2	23	144904233	Missense_Mutation	SNP	G	TCGA-D7-6527-01A-11D-1800-08	4568470	144904233	10366327	255	90456											
FMR1NB	158521	broad.mit.edu	37	chrX	147088344	147088344	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaccacgagcttcaaatgtTttgctccatttagagatggt	10	13	10	8	1	1	1	1	0	0	1	2	4	2	2	2	2	2	3	2	2	2	5			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:147088344T>G	uc004fcm.2	+	3	594	c.520T>G	c.(520-522)TTT>GTT	p.F174V		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	174	P-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CTTCAAATGTTTTGCTCCATT	0.348													7	58					0	0	0.001984	0	0		G	147088344	G	G	147088344	3	3	173	1	0	0	0	0	1	0	0	0	5975	1841	64	5	530	5	FMR1NB	23	147088344	Missense_Mutation	SNP	T	TCGA-D7-6527-01A-11D-1800-08	2184111	147088344	8182216	256	90457											
MAGEA4	4103	broad.mit.edu	37	chrX	151092883	151092883	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaggaaactgctcacccaAgattgggtgcaggaaaacta	14	6	10	11	0	1	1	1	0	0	1	1	3	1	3	2	3	4	2	2	3	5	2			TCGA-D7-6527-01A-11D-1800-08	TCGA-D7-6527-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	dc537fcf-d910-4c4b-8af9-e7da429f2633	3729b122-72fa-41f5-95ba-fcef586c479d	g.chrX:151092883A>C	uc004fez.2	+	3	903	c.747A>C	c.(745-747)CAA>CAC	p.Q249H	MAGEA4_uc004ffa.2_Missense_Mutation_p.Q249H|MAGEA4_uc004ffb.2_Missense_Mutation_p.Q249H|MAGEA4_uc004ffc.2_Missense_Mutation_p.Q249H|MAGEA4_uc004ffd.2_Missense_Mutation_p.Q249H	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	249	MAGE.						protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					TGCTCACCCAAGATTGGGTGC	0.587													34	58					0	0	0.010818	0	0		C	151092883	C	C	151092883	3	2	173	1	0	0	0	0	1	0	0	0	9186	69	3	5	749	5	MAGEA4	23	151092883	Missense_Mutation	SNP	A	TCGA-D7-6527-01A-11D-1800-08	4004539	151092883	4177677	257	90458											
PRDM16	63976	broad.mit.edu	37	chr1	3328335	3328335	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctccatccttgtacccccGgccgcctctgctacctccca	4	9	5	23	2	1	0	0	0	1	0	4	0	4	0	9	1	3	2	9	1	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:3328335G>A	uc001akf.2	+	9	1654	c.1574G>A	c.(1573-1575)CGG>CAG	p.R525Q	PRDM16_uc001akc.2_Missense_Mutation_p.R525Q|PRDM16_uc001akd.2_Missense_Mutation_p.R525Q|PRDM16_uc001ake.2_Missense_Mutation_p.R525Q|PRDM16_uc009vlh.2_Missense_Mutation_p.R226Q	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	525	Pro-rich.				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	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)		TTGTACCCCCGGCCGCCTCTG	0.706			T	EVI1	MDS|AML								12	146					0	0	0.001855	0	0		A	3328335	A	A	3328335	3	1	174	1	0	0	0	0	1	0	0	0	12479	1116	39	1	1608	1	PRDM16	1	3328335	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08		3328335	245922286	1	90459											
PER3	8863	broad.mit.edu	37	chr1	7887365	7887365	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcacacctcgagcccgacCttcccacctgccgccatggt	6	6	8	21	4	0	0	0	0	0	0	2	2	1	0	8	1	2	1	8	1	0	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:7887365C>T	uc001aoo.2	+	17	2527	c.2352C>T	c.(2350-2352)ACC>ACT	p.T784T	PER3_uc009vmg.1_Silent_p.T792T|PER3_uc009vmh.1_Silent_p.T785T|PER3_uc001aop.2_Silent_p.T792T|PER3_uc010nzw.1_Silent_p.T473T	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	784	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		CGAGCCCGACCTTCCCACCTG	0.701													31	37					0	0	0.010818	0	0		T	7887365	T	T	7887365	2	4	174	1	0	0	0	0	0	0	0	1	11750	668	24	4		4	PER3	1	7887365	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4559030	7887365	241363256	2	90460											
PTCHD2	57540	broad.mit.edu	37	chr1	11561886	11561886	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggcgcatcgagctcatcttCctggcgcgcggcgacgcgga	5	7	15	14	8	2	0	1	0	1	0	4	3	3	1	1	4	1	2	1	4	0	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:11561886C>T	uc001ash.3	+	2	975	c.837C>T	c.(835-837)TTC>TTT	p.F279F	PTCHD2_uc001asi.1_Silent_p.F279F	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	279	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		AGCTCATCTTCCTGGCGCGCG	0.657													15	18					0	0	0.00499	0	0		T	11561886	T	T	11561886	2	4	174	1	0	0	0	0	0	0	0	1	12755	854	30	4		4	PTCHD2	1	11561886	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	3674521	11561886	237688735	3	90461											
RNF220	55182	broad.mit.edu	37	chr1	44878323	44878323	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgatgacactgggaagaAgatttttgctgtctctggcc	8	13	13	7	0	1	4	0	2	1	2	2	5	1	5	1	3	1	2	1	3	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:44878323A>C	uc001clv.1	+	2	914	c.554A>C	c.(553-555)AAG>ACG	p.K185T	RNF220_uc001clw.1_Missense_Mutation_p.K185T	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	185					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ACTGGGAAGAAGATTTTTGCT	0.498													7	72					0	0	0.00308	0	0		C	44878323	C	C	44878323	3	2	174	1	0	0	0	0	1	0	0	0	13508	72	3	5	556	5	RNF220	1	44878323	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	33316437	44878323	204372298	4	90462											
CYP4B1	1580	broad.mit.edu	37	chr1	47276838	47276838	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcccctgatgtgtatgacTtcttcctccagtggattggt	6	14	11	10	0	1	2	0	2	1	0	3	3	3	3	4	3	0	1	4	3	1	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:47276838T>G	uc001cqm.3	+	3	433	c.349T>G	c.(349-351)TTC>GTC	p.F117V	CYP4B1_uc009vyl.1_Intron|CYP4B1_uc001cqn.3_Missense_Mutation_p.F117V|CYP4B1_uc009vym.2_Intron|CYP4B1_uc010omk.1_Intron|CYP4B1_uc010oml.1_5'UTR	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	117					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					TGTGTATGACTTCTTCCTCCA	0.582													3	64					0	0	0.000602	0	0		G	47276838	G	G	47276838	3	3	174	1	0	0	0	0	1	0	0	0	4188	1609	56	5	359	5	CYP4B1	1	47276838	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2398515	47276838	201973783	5	90463											
DAB1	1600	broad.mit.edu	37	chr1	57537289	57537289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaatgagttgaaagagatctCtcaagtccagaataacaggt	17	9	9	6	0	2	4	1	2	1	2	4	5	3	4	1	1	1	1	1	1	5	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:57537289C>T	uc001cys.1	-	8	1138	c.464G>A	c.(463-465)AGA>AAA	p.R155K	DAB1_uc001cyt.1_Missense_Mutation_p.R155K|DAB1_uc001cyq.1_Missense_Mutation_p.R155K|DAB1_uc001cyr.1_Intron|DAB1_uc009vzw.1_Missense_Mutation_p.R155K|DAB1_uc009vzx.1_Missense_Mutation_p.R155K	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	155	PID.				cell differentiation|nervous system development					skin(2)|ovary(1)	3						AAAGAGATCTCTCAAGTCCAG	0.398													8	26					0	0	0.006214	0	0		T	57537289	T	T	57537289	3	4	174	1	0	0	0	0	1	0	0	0	4220	913	32	4	1239	4	DAB1	1	57537289	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	10260451	57537289	191713332	6	90464											
NFIA	4774	broad.mit.edu	37	chr1	61872278	61872278	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacaacccattccttccCaccccaatgttgccaccgcc	8	8	5	20	1	0	0	0	0	0	0	2	0	2	0	8	0	3	2	8	0	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:61872278C>T	uc001czw.2	+	9	1783	c.1299C>T	c.(1297-1299)CCC>CCT	p.P433P	NFIA_uc001czy.2_Silent_p.P425P|NFIA_uc010oos.1_Silent_p.P478P|NFIA_uc001czv.2_Silent_p.P433P|NFIA_uc001czx.2_Silent_p.P81P|NFIA_uc009wae.2_RNA	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1	433					DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						CATTCCTTCCCACCCCAATGT	0.602													3	28					0	0	0.004672	0	0		T	61872278	T	T	61872278	2	4	174	1	0	0	0	0	0	0	0	1	10389	581	21	4		4	NFIA	1	61872278	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4334989	61872278	187378343	7	90465											
INADL	10207	broad.mit.edu	37	chr1	62271131	62271131	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatatccagaaaaagtcccaGactctccagaaaatgagctg	17	7	7	10	0	1	4	0	1	1	3	4	4	3	4	3	0	1	1	3	0	6	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:62271131G>C	uc001dab.2	+	13	1675	c.1561G>C	c.(1561-1563)GAC>CAC	p.D521H	INADL_uc009waf.1_Missense_Mutation_p.D521H|INADL_uc001daa.2_Missense_Mutation_p.D521H|INADL_uc001dad.3_Missense_Mutation_p.D218H|INADL_uc001dac.2_RNA	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	521					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						AAAAGTCCCAGACTCTCCAGA	0.353													22	39					0	0	0.00278	0	0		C	62271131	C	C	62271131	3	2	174	1	0	0	0	0	1	0	0	0	7747	942	33	5	1607	5	INADL	1	62271131	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	398853	62271131	186979490	8	90466											
DIRAS3	9077	broad.mit.edu	37	chr1	68512611	68512611	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggccttcagctcttccaGggtttccttcttggtgactg	5	14	11	11	0	3	1	1	1	2	0	5	2	5	1	3	3	1	2	3	3	1	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:68512611G>A	uc001ded.2	-	2	665	c.370C>T	c.(370-372)CTG>TTG	p.L124L	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	124					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						AGCTCTTCCAGGGTTTCCTTC	0.552													13	190					0	0	0.00245	0	0		A	68512611	A	A	68512611	2	1	174	1	0	0	0	0	0	0	0	1	4538	991	35	4		4	DIRAS3	1	68512611	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	6241480	68512611	180738010	9	90467											
TTLL7	79739	broad.mit.edu	37	chr1	84369788	84369788	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttttacagagtccaattTtatgagccaatatgaagcca	13	14	7	7	0	0	3	0	2	0	1	1	3	1	3	3	0	3	1	3	0	6	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:84369788T>G	uc001djc.2	-	18	2578	c.2182A>C	c.(2182-2184)AAA>CAA	p.K728Q	TTLL7_uc001djb.2_RNA|TTLL7_uc001djd.2_RNA|TTLL7_uc001dje.2_RNA|TTLL7_uc001djf.2_RNA|TTLL7_uc001djg.2_RNA	NM_024686	NP_078962	Q6ZT98	TTLL7_HUMAN	tubulin tyrosine ligase-like family, member 7	728					cell differentiation|nervous system development|protein modification process	cilium|dendrite|microtubule basal body|perikaryon	tubulin-tyrosine ligase activity			ovary(1)	1				all cancers(265;0.0126)|Epithelial(280;0.0372)|OV - Ovarian serous cystadenocarcinoma(397;0.16)		GAGTCCAATTTTATGAGCCAA	0.333													20	46					0	0	0.00278	0	0		G	84369788	G	G	84369788	3	3	174	1	0	0	0	0	1	0	0	0	16758	1850	64	5	497	5	TTLL7	1	84369788	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	15857177	84369788	164880833	10	90468											
SLC44A3	126969	broad.mit.edu	37	chr1	95303425	95303425	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcctgtgtatcctcgcatTaggtaattctcagttaagtt	8	16	9	8	1	1	0	1	0	1	0	4	0	2	0	2	2	0	5	2	2	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:95303425T>G	uc001dqv.3	+	6	775	c.668T>G	c.(667-669)TTA>TGA	p.L223*	SLC44A3_uc001dqx.3_Nonsense_Mutation_p.L223*|SLC44A3_uc010otq.1_Nonsense_Mutation_p.L155*|SLC44A3_uc010otr.1_Nonsense_Mutation_p.L187*|SLC44A3_uc001dqw.3_Nonsense_Mutation_p.L175*|SLC44A3_uc010ots.1_Nonsense_Mutation_p.L143*|SLC44A3_uc009wds.2_Nonsense_Mutation_p.L126*|SLC44A3_uc010ott.1_Nonsense_Mutation_p.L143*|SLC44A3_uc010otu.1_RNA	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1	223	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	ATCCTCGCATTAGGTAATTCT	0.348													7	75					0	0	0.001984	0	0		G	95303425	G	G	95303425	4	3	174	1	0	0	0	0	0	1	0	0	14662	1764	61	5	690	5	SLC44A3	1	95303425	Nonsense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	10933637	95303425	153947196	11	90469											
FNDC7	163479	broad.mit.edu	37	chr1	109270515	109270515	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcctgtccgtggtgccgaActgtatgaaaccaaggctgt	8	11	11	11	2	1	1	0	1	1	0	3	2	2	1	4	2	3	2	4	2	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:109270515A>G	uc001dvx.2	+	7	1197	c.1197A>G	c.(1195-1197)GAA>GAG	p.E399E	FNDC7_uc010ova.1_Silent_p.E166E	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	400	Fibronectin type-III 5.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		GTGGTGCCGAACTGTATGAAA	0.512													12	87					0	0	0.010729	0	0		G	109270515	G	G	109270515	2	3	174	1	0	0	0	0	0	0	0	1	5987	40	2	3		3	FNDC7	1	109270515	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	13967090	109270515	139980106	12	90470											
PRUNE	58497	broad.mit.edu	37	chr1	151006649	151006649	+	Missense_Mutation	SNP	T	A	A	0	1	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	actctctgctgaggccgtctTcgagaagtgcagtcagatct	8	11	11	11	2	4	3	1	1	3	2	6	4	4	3	1	1	2	2	1	1	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:151006649T>A	uc001ewh.1	+	8	1437	c.1301T>A	c.(1300-1302)TTC>TAC	p.F434Y	PRUNE_uc001ewi.1_Missense_Mutation_p.F252Y|PRUNE_uc010pco.1_Missense_Mutation_p.F202Y|PRUNE_uc001ewj.1_Missense_Mutation_p.F149Y|PRUNE_uc001ewk.1_Missense_Mutation_p.F199Y|BNIPL_uc009wmi.2_5'Flank|BNIPL_uc001ewl.2_5'Flank	NM_021222	NP_067045	Q86TP1	PRUNE_HUMAN	prune	434						cytoplasm|focal adhesion|nucleus	inorganic diphosphatase activity|manganese ion binding|protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GAGGCCGTCTTCGAGAAGTGC	0.582													82	102					0	0	0.01441	0	0		A	151006649	A	A	151006649	3	1	174	1	0	0	0	0	1	0	0	0	12662	1783	62	5	1331	5	PRUNE	1	151006649	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	41736134	151006649	98243972	13	90471											
POGZ	23126	broad.mit.edu	37	chr1	151380596	151380596	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgatcatgtggttggcataAgctcgagaacagcaggtgct	10	11	13	7	1	1	2	1	1	0	1	2	3	1	2	0	3	4	5	0	3	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:151380596A>C	uc001eyd.1	-	15	2661	c.2355T>G	c.(2353-2355)GCT>GCG	p.A785A	POGZ_uc001eye.1_Silent_p.A732A|POGZ_uc010pdb.1_Silent_p.A776A|POGZ_uc001eyf.1_Silent_p.A741A|POGZ_uc010pdc.1_Silent_p.A723A|POGZ_uc009wmv.1_Silent_p.A690A|POGZ_uc010pdd.1_Silent_p.A276A	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	785	C2H2-type 8.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	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)			GGTTGGCATAAGCTCGAGAAC	0.393													10	69					0	0	0.006214	0	0		C	151380596	C	C	151380596	2	2	174	1	0	0	0	0	0	0	0	1	12205	59	3	5		5	POGZ	1	151380596	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	373947	151380596	97870025	14	90472											
TCHHL1	126637	broad.mit.edu	37	chr1	152059360	152059360	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggtctttgtgttgcttcTtttggtggtgaactttgggt	3	20	13	5	0	2	1	0	1	2	0	2	1	2	1	0	4	2	2	0	4	1	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:152059360T>C	uc001ezo.1	-	3	863	c.798A>G	c.(796-798)AAA>AAG	p.K266K		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	266							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GTGTTGCTTCTTTTGGTGGTG	0.428													22	208					0	0	0.00333	0	0		C	152059360	C	C	152059360	2	2	174	1	0	0	0	0	0	0	0	1	15726	1606	56	3		3	TCHHL1	1	152059360	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	678764	152059360	97191261	15	90473											
FLG	2312	broad.mit.edu	37	chr1	152280800	152280800	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatgtttttctgcttgcacTtctggatcctgactgcccac	6	16	7	12	0	2	1	0	1	2	0	3	2	3	2	2	1	3	3	2	1	1	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:152280800T>G	uc001ezu.1	-	3	6598	c.6562A>C	c.(6562-6564)AGT>CGT	p.S2188R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2188	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGCTTGCACTTCTGGATCCT	0.532									Ichthyosis				104	424					0	0	0.01441	0	0		G	152280800	G	G	152280800	3	3	174	1	0	0	0	0	1	0	0	0	5936	1609	56	5	5627	5	FLG	1	152280800	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	221440	152280800	96969821	16	90474											
FLG2	388698	broad.mit.edu	37	chr1	152329336	152329336	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgactgaatatagctaaatTgatttccttgccctccaaat	12	14	5	10	0	0	3	0	3	0	0	2	3	2	3	3	0	2	1	3	0	6	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:152329336T>C	uc001ezw.3	-	3	999	c.926A>G	c.(925-927)CAA>CGA	p.Q309R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	309	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATAGCTAAATTGATTTCCTTG	0.473													24	177					0	0	0.00333	0	0		C	152329336	C	C	152329336	3	2	174	1	0	0	0	0	1	0	0	0	5937	1812	63	3	6253	3	FLG2	1	152329336	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	48536	152329336	96921285	17	90475											
LMX1A	4009	broad.mit.edu	37	chr1	165218827	165218827	+	Missense_Mutation	SNP	T	G	G	0	1	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	tctgggcccgcataacaaacTcattgggagcgatggcctcg	9	8	12	12	3	2	0	1	0	1	0	3	2	2	1	2	3	3	1	2	3	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:165218827T>G	uc001gcy.1	-	3	535	c.314A>C	c.(313-315)GAG>GCG	p.E105A	LMX1A_uc001gcz.1_Missense_Mutation_p.E105A	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	105	LIM zinc-binding 2.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CATAACAAACTCATTGGGAGC	0.522													6	26					0	0	0.001168	0	0		G	165218827	G	G	165218827	3	3	174	1	0	0	0	0	1	0	0	0	8878	1551	54	5	858	5	LMX1A	1	165218827	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	12889491	165218827	84031794	18	90476											
TADA1	117143	broad.mit.edu	37	chr1	166831580	166831580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaacaaagtttcaagtcgtCatcatcttggggatcctttg	10	13	10	8	1	4	0	3	0	1	0	6	2	5	2	1	3	1	1	1	3	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:166831580C>T	uc001gdw.2	-	5	584	c.400G>A	c.(400-402)GAC>AAC	p.D134N	TADA1_uc001gdv.2_5'UTR	NM_053053	NP_444281	Q96BN2	TADA1_HUMAN	transcriptional adaptor 1-like	134					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(1)	1						TTCAAGTCGTCATCATCTTGG	0.438													4	58					0	0	0.009096	0	0		T	166831580	T	T	166831580	3	4	174	1	0	0	0	0	1	0	0	0	15534	826	29	4	623	4	TADA1	1	166831580	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	1612753	166831580	82419041	19	90477											
SLC9A11	284525	broad.mit.edu	37	chr1	173517591	173517591	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaacatttgtcaaaattttTtctgttttaaataaagttat	14	21	3	3	0	2	0	1	0	1	0	2	0	2	0	0	0	1	2	0	0	8	9			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:173517591T>G	uc001giz.2	-	12	1821	c.1398A>C	c.(1396-1398)GAA>GAC	p.E466D	SLC9A11_uc009wwe.2_Missense_Mutation_p.E24D|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	466					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TCAAAATTTTTTCTGTTTTAA	0.353													19	34					0	0	0.012319	0	0		G	173517591	G	G	173517591	3	3	174	1	0	0	0	0	1	0	0	0	14736	1838	64	5	2044	5	SLC9A11	1	173517591	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	6686011	173517591	75733030	20	90478											
C1orf27	54953	broad.mit.edu	37	chr1	186375301	186375301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttgtgtgattataaatttGacgatgagtcagctgaagaa	13	14	11	3	1	1	5	1	4	0	1	1	6	1	5	0	0	1	2	0	0	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:186375301G>A	uc001grw.2	+	13	1323	c.1087G>A	c.(1087-1089)GAC>AAC	p.D363N	C1orf27_uc010poq.1_Missense_Mutation_p.D340N|C1orf27_uc010por.1_Missense_Mutation_p.D331N	NM_017847	NP_060317	Q5SWX8	ODR4_HUMAN	odorant response abnormal 4 isoform 1	363						integral to membrane	oxidoreductase activity|zinc ion binding			ovary(1)	1						TTATAAATTTGACGATGAGTC	0.388													35	98					0	0	0.004878	0	0		A	186375301	A	A	186375301	3	1	174	1	0	0	0	0	1	0	0	0	2039	1290	45	4	1129	4	C1orf27	1	186375301	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	12857710	186375301	62875320	21	90479											
FAM58B	339521	broad.mit.edu	37	chr1	200182938	200182938	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgccatgtcttccatttacTtggccggcaaagtggaagag	9	12	11	9	1	1	1	0	0	1	1	2	2	2	2	3	3	2	1	3	3	3	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:200182938T>G	uc009wzi.1	+	1	283	c.247T>G	c.(247-249)TTG>GTG	p.L83V		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	83					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					TTCCATTTACTTGGCCGGCAA	0.527													23	176					0	0	0.00278	0	0		G	200182938	G	G	200182938	3	3	174	1	0	0	0	0	1	0	0	0	5605	1606	56	5	249	5	FAM58B	1	200182938	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	13807637	200182938	49067683	22	90480											
CHIT1	1118	broad.mit.edu	37	chr1	203188382	203188382	+	Missense_Mutation	SNP	A	C	C	1	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	cacatcatcaaagcccacccActggttgtcccggaagatgt	11	8	8	14	1	2	1	2	0	0	1	3	2	3	2	3	2	1	1	3	2	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:203188382A>C	uc001gzn.2	-	9	1087	c.991T>G	c.(991-993)TGG>GGG	p.W331G	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_RNA|CHIT1_uc009xal.1_Missense_Mutation_p.W122G|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Missense_Mutation_p.W322G	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	331					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						AAGCCCACCCACTGGTTGTCC	0.567													58	96					0	0	0.01441	0	0		C	203188382	C	C	203188382	3	2	174	1	0	0	0	0	1	0	0	0	3349	159	6	5	421	5	CHIT1	1	203188382	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	3005444	203188382	46062239	23	90481											
USH2A	7399	broad.mit.edu	37	chr1	216420388	216420388	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacatctaacccataaaagTtttctctgcaggtgtcacac	12	12	6	11	0	3	1	1	1	2	0	4	1	3	1	1	1	2	2	1	1	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:216420388T>A	uc001hku.1	-	13	2735	c.2348A>T	c.(2347-2349)AAC>ATC	p.N783I	USH2A_uc001hkv.2_Missense_Mutation_p.N783I	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	783	Laminin EGF-like 5.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CCCATAAAAGTTTTCTCTGCA	0.483										HNSCC(13;0.011)			31	64					0	0	0.008361	0	0		A	216420388	A	A	216420388	3	1	174	1	0	0	0	0	1	0	0	0	17062	1725	60	5	13514	5	USH2A	1	216420388	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	13232006	216420388	32830233	24	90482											
RYR2	6262	broad.mit.edu	37	chr1	237813289	237813289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgctggcacagagcaccacgCttctctcattgactcattac	9	11	7	14	1	3	2	2	1	1	1	4	2	3	2	1	1	3	4	1	1	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:237813289C>T	uc001hyl.1	+	50	7745	c.7625C>T	c.(7624-7626)GCT>GTT	p.A2542V		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2542	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GAGCACCACGCTTCTCTCATT	0.468													49	99					0	0	0.01441	0	0		T	237813289	T	T	237813289	3	4	174	1	0	0	0	0	1	0	0	0	13794	797	28	2	7823	2	RYR2	1	237813289	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	21392901	237813289	11437332	25	90483											
AKT3	10000	broad.mit.edu	37	chr1	243858949	243858949	+	Missense_Mutation	SNP	T	A	A																															ccacatcttgaggtttctctTtatatcctatgaatgagcca																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:243858949T>A	uc001iab.1	-	2	197	c.116A>T	c.(115-117)AAA>ATA	p.K39I	AKT3_uc001hzz.1_Missense_Mutation_p.K39I	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	39	PH.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			AGGTTTCTCTTTATATCCTAT	0.338													9	22					0	0	0.004482	0	0		A	243858949	A	A	243858949	3	1	174	1	0	0	0	0	1	0	0	0	481	1841	64	5	1419	5	AKT3	1	243858949	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	6045660	243858949	5391672	26	90484	167	2									
AKT3	10000	broad.mit.edu	37	chr1	243858952	243858952	+	Missense_Mutation	SNP	T	A	A																															catcttgaggtttctctttaTatcctatgaatgagccatct																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:243858952T>A	uc001iab.1	-	2	194	c.113A>T	c.(112-114)TAT>TTT	p.Y38F	AKT3_uc001hzz.1_Missense_Mutation_p.Y38F	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	38	PH.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			TTTCTCTTTATATCCTATGAA	0.338													10	21					0	0	0.006214	0	0		A	243858952	A	A	243858952	3	1	174	1	0	0	0	0	1	0	0	0	481	1406	49	5	1422	5	AKT3	1	243858952	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	3	243858952	5391669	27	90485	167	2									
OR2G6	391211	broad.mit.edu	37	chr1	248685027	248685027	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcagctagagaggtttcTttttgccatcattttgtact	7	17	8	9	0	3	1	2	0	1	1	3	2	3	1	2	1	3	3	2	1	2	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr1:248685027T>G	uc001ien.1	+	1	80	c.80T>G	c.(79-81)CTT>CGT	p.L27R		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GAGAGGTTTCTTTTTGCCATC	0.458													33	78					0	0	0.005524	0	0		G	248685027	G	G	248685027	3	3	174	1	0	0	0	0	1	0	0	0	11019	1609	56	5	82	5	OR2G6	1	248685027	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4826075	248685027	565594	28	90486											
MSGN1	343930	broad.mit.edu	37	chr2	17998077	17998077	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaggtggactacaatatgTtagctttccagcccacccac	11	10	8	12	0	0	1	0	0	0	1	1	2	1	2	3	2	3	2	3	2	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:17998077T>G	uc010yjt.1	+	1	292	c.292T>G	c.(292-294)TTA>GTA	p.L98V		NM_001105569	NP_001099039	A6NI15	MSGN1_HUMAN	mesogenin 1	98					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTACAATATGTTAGCTTTCCA	0.657													4	52					0	0	0.009096	0	0		G	17998077	G	G	17998077	3	3	174	1	0	0	0	0	1	0	0	0	9887	1722	60	5	294	5	MSGN1	2	17998077	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08		17998077	225201296	29	90487											
DNAJC5G	285126	broad.mit.edu	37	chr2	27503062	27503062	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgattttagaagcgaggaAaatagcgaagatgattttta	15	13	11	2	2	0	4	0	2	0	2	0	7	0	5	0	1	2	0	0	1	7	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:27503062A>C	uc002rjl.1	+	6	967	c.549A>C	c.(547-549)GAA>GAC	p.E183D	TRIM54_uc002rjn.2_5'Flank|TRIM54_uc002rjo.2_5'Flank|DNAJC5G_uc010yli.1_Missense_Mutation_p.K96T|DNAJC5G_uc002rjm.1_Missense_Mutation_p.E183D	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	183					protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAAGCGAGGAAAATAGCGAAG	0.338											OREG0014517	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	86	110					0	0	0.01441	0	0		C	27503062	C	C	27503062	3	2	174	1	0	0	0	0	1	0	0	0	4658	11	1	5	563	5	DNAJC5G	2	27503062	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	9504985	27503062	215696311	30	90488											
SUPT7L	9913	broad.mit.edu	37	chr2	27880285	27880285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggagagcacactgccaataCccacttcatggaatacctgc	12	7	9	13	0	1	1	1	0	0	1	1	3	1	2	3	2	5	1	3	2	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:27880285C>T	uc002rlh.1	-	4	1014	c.671G>A	c.(670-672)GGT>GAT	p.G224D	SUPT7L_uc002rli.1_Missense_Mutation_p.G224D|SUPT7L_uc010ymf.1_Missense_Mutation_p.G89D|SUPT7L_uc002rlj.1_Missense_Mutation_p.G222D|SUPT7L_uc010ezh.1_Missense_Mutation_p.G222D	NM_014860	NP_055675	O94864	ST65G_HUMAN	SPTF-associated factor 65 gamma	224					histone H3 acetylation|maintenance of protein location in nucleus|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					ACTGCCAATACCCACTTCATG	0.532													24	23					0	0	0.00333	0	0		T	27880285	T	T	27880285	3	4	174	1	0	0	0	0	1	0	0	0	15426	507	18	4	585	4	SUPT7L	2	27880285	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	377223	27880285	215319088	31	90489											
CLIP4	79745	broad.mit.edu	37	chr2	29383324	29383324	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttctttgggacaacaaacTtcgctccaggtaactcatct	10	12	8	11	1	3	0	1	0	2	0	5	1	4	1	1	3	3	3	1	3	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:29383324T>G	uc002rmv.2	+	12	1764	c.1525T>G	c.(1525-1527)TTC>GTC	p.F509V	CLIP4_uc002rmu.2_Missense_Mutation_p.F509V|CLIP4_uc010ezm.1_Missense_Mutation_p.F509V|CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	509	CAP-Gly 2.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GACAACAAACTTCGCTCCAGG	0.393													4	63					0	0	0.009096	0	0		G	29383324	G	G	29383324	3	3	174	1	0	0	0	0	1	0	0	0	3538	1609	56	5	1567	5	CLIP4	2	29383324	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1503039	29383324	213816049	32	90490											
ALK	238	broad.mit.edu	37	chr2	29450510	29450510	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcttccccatccatttcGgggtcattgtttgaggctgc	5	14	9	13	1	2	1	1	1	1	0	5	1	4	1	4	3	1	2	4	3	0	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:29450510G>A	uc002rmy.2	-	17	3751	c.2844C>T	c.(2842-2844)CCC>CCT	p.P948P		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	948	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	CATCCATTTCGGGGTCATTGT	0.512			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				21	88					0	0	0.012319	0	0		A	29450510	A	A	29450510	2	1	174	1	0	0	0	0	0	0	0	1	525	1103	39	1		1	ALK	2	29450510	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	67186	29450510	213748863	33	90491											
ALK	238	broad.mit.edu	37	chr2	29754908	29754908	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacggccagtgtgcagtgctCactgctgctcctcatccacg	6	9	11	15	2	2	0	2	0	0	0	4	1	4	0	3	1	4	4	3	1	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:29754908C>G	uc002rmy.2	-	4	1934	c.1027G>C	c.(1027-1029)GAG>CAG	p.E343Q		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	343	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GTGCAGTGCTCACTGCTGCTC	0.577			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				29	23					0	0	0.010818	0	0		G	29754908	G	G	29754908	3	3	174	1	0	0	0	0	1	0	0	0	525	835	29	5	3939	5	ALK	2	29754908	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	304398	29754908	213444465	34	90492											
STRN	6801	broad.mit.edu	37	chr2	37096829	37096829	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgacttctcaatgtaaacTtagggttccatgtcttcctc	9	15	7	10	0	2	1	1	1	2	0	6	1	4	1	2	1	1	2	2	1	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:37096829T>G	uc002rpn.2	-	11	1376	c.1367A>C	c.(1366-1368)AAG>ACG	p.K456T	STRN_uc010ezx.2_Missense_Mutation_p.K419T	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	456					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CAATGTAAACTTAGGGTTCCA	0.368													3	32					0	0	0.004672	0	0		G	37096829	G	G	37096829	3	3	174	1	0	0	0	0	1	0	0	0	15354	1609	56	5	1007	5	STRN	2	37096829	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	7341921	37096829	206102544	35	90493											
HEATR5B	54497	broad.mit.edu	37	chr2	37289138	37289138	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgggtgcgctgtaaagatAgcctgctattttgggcagca	8	12	13	8	1	0	1	0	0	0	1	0	1	0	1	1	2	4	5	1	2	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:37289138A>G	uc002rpp.1	-	11	1736	c.1640T>C	c.(1639-1641)CTA>CCA	p.L547P		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	547							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				CTGTAAAGATAGCCTGCTATT	0.363													24	65					0	0	0.007291	0	0		G	37289138	G	G	37289138	3	3	174	1	0	0	0	0	1	0	0	0	7048	420	15	3	4679	3	HEATR5B	2	37289138	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	192309	37289138	205910235	36	90494											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48896962	48896962	+	Missense_Mutation	SNP	A	C	C																															gatacatcttccaatgaagaAataggaagtacaagagatgc																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:48896962A>C	uc010yol.1	+	6	3098	c.3051A>C	c.(3049-3051)GAA>GAC	p.E1017D	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.E1064D|GTF2A1L_uc002rws.1_Missense_Mutation_p.E360D|GTF2A1L_uc010yom.1_Missense_Mutation_p.E326D|GTF2A1L_uc002rwt.2_Missense_Mutation_p.E360D	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1017					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			CCAATGAAGAAATAGGAAGTA	0.378													6	79					0	0	0.001168	0	0		C	48896962	C	C	48896962	3	2	174	1	0	0	0	0	1	0	0	0	15342	11	1	5	3222	5	STON1-GTF2A1L	2	48896962	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	11607824	48896962	194302411	37	90495	168	2									
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48896972	48896972	+	Missense_Mutation	SNP	A	G	G																															ccaatgaagaaataggaagtAcaagagatgcagatgagaat																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:48896972A>G	uc010yol.1	+	6	3108	c.3061A>G	c.(3061-3063)ACA>GCA	p.T1021A	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.T1068A|GTF2A1L_uc002rws.1_Missense_Mutation_p.T364A|GTF2A1L_uc010yom.1_Missense_Mutation_p.T330A|GTF2A1L_uc002rwt.2_Missense_Mutation_p.T364A	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1021					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AATAGGAAGTACAAGAGATGC	0.393													7	67					0	0	0.001984	0	0		G	48896972	G	G	48896972	3	3	174	1	0	0	0	0	1	0	0	0	15342	391	14	3	3232	3	STON1-GTF2A1L	2	48896972	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	10	48896972	194302401	38	90496	168	2									
CCDC88A	55704	broad.mit.edu	37	chr2	55527028	55527028	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tattgctagtggatgttctgCcactatcaaggctggctggt	7	14	12	8	0	2	0	1	0	1	0	2	1	2	1	1	4	2	4	1	4	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:55527028C>G	uc002ryv.2	-	29	5611	c.4769G>C	c.(4768-4770)GGC>GCC	p.G1590A	CCDC88A_uc010yoz.1_Missense_Mutation_p.G1563A|CCDC88A_uc010ypa.1_Missense_Mutation_p.G1590A|CCDC88A_uc002ryt.2_5'Flank|CCDC88A_uc010fbw.2_Intron|CCDC88A_uc002ryu.2_Missense_Mutation_p.G845A|CCDC88A_uc002rys.2_Missense_Mutation_p.G548A|CCDC88A_uc002ryw.2_Missense_Mutation_p.G874A|CCDC88A_uc010fby.1_Missense_Mutation_p.G442A	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1591					activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GGATGTTCTGCCACTATCAAG	0.378													63	71					0	0	0.01441	0	0		G	55527028	G	G	55527028	3	3	174	1	0	0	0	0	1	0	0	0	2866	739	26	5	859	5	CCDC88A	2	55527028	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	6630056	55527028	187672345	39	90497											
FAM161A	84140	broad.mit.edu	37	chr2	62069423	62069423	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	attagagtggtgaatatcagGaaagttcacaaagtcctcat	15	11	9	6	0	3	2	3	1	0	1	4	3	4	3	1	2	0	1	1	2	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:62069423G>T	uc010ypo.1	-	2	358	c.256C>A	c.(256-258)CCT>ACT	p.P86T	FAM161A_uc002sbm.3_Missense_Mutation_p.P86T|FAM161A_uc002sbn.3_5'UTR|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_5'UTR	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	86					response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						TGAATATCAGGAAAGTTCACA	0.408													3	9					0.004672	0.00477313	0.004672	1	0		T	62069423	T	T	62069423	3	4	174	1	0	0	0	0	1	0	0	0	5483	1174	41	5	1746	5	FAM161A	2	62069423	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	6542395	62069423	181129950	40	90498											
CLEC4F	165530	broad.mit.edu	37	chr2	71039670	71039670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacttcttgacactagaaAaataatataagcttccacca	18	10	4	9	0	1	3	0	1	1	2	2	3	2	3	2	0	1	1	2	0	7	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:71039670A>G	uc002shf.2	-	5	1525	c.1448T>C	c.(1447-1449)TTT>TCT	p.F483S	CLEC4F_uc010yqv.1_Missense_Mutation_p.F483S	NM_173535	NP_775806	Q8N1N0	CLC4F_HUMAN	C-type lectin, superfamily member 13	483	Extracellular (Potential).|C-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(5)	5						GACACTAGAAAAATAATATAA	0.522													35	115					0	0	0.004878	0	0		G	71039670	G	G	71039670	3	3	174	1	0	0	0	0	1	0	0	0	3519	14	1	3	333	3	CLEC4F	2	71039670	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	8970247	71039670	172159703	41	90499											
ELMOD3	84173	broad.mit.edu	37	chr2	85584355	85584355	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttgctctttccatagtaaaGaagaattaagagatggacag	15	11	9	6	0	1	3	0	0	1	3	2	5	2	4	1	1	1	2	1	1	6	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:85584355G>C	uc002spf.3	+	5	699	c.34G>C	c.(34-36)GAA>CAA	p.E12Q	ELMOD3_uc010fgg.2_RNA|ELMOD3_uc002spg.3_Missense_Mutation_p.E12Q|ELMOD3_uc002sph.3_Missense_Mutation_p.E12Q|ELMOD3_uc010ysn.1_Missense_Mutation_p.E12Q|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_RNA|RETSAT_uc002spd.2_5'Flank|RETSAT_uc010ysm.1_5'Flank|RETSAT_uc010fgf.2_5'Flank	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	12					phagocytosis	cytoskeleton				ovary(2)	2						CCATAGTAAAGAAGAATTAAG	0.348													21	27					0	0	0.014323	0	0		C	85584355	C	C	85584355	3	2	174	1	0	0	0	0	1	0	0	0	5078	943	33	5	36	5	ELMOD3	2	85584355	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	14544685	85584355	157615018	42	90500											
EIF2AK3	9451	broad.mit.edu	37	chr2	88874887	88874887	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatttcaatatgttcttttGtagcgaaaggatccattctg	10	17	8	6	1	3	1	1	1	2	0	4	3	4	2	1	1	1	2	1	1	4	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:88874887G>T	uc002stc.3	-	13	2316	c.2114C>A	c.(2113-2115)ACA>AAA	p.T705K		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	705	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						ATGTTCTTTTGTAGCGAAAGG	0.438													28	76					3.65163e-15	3.95314e-15	0.00632	1	0		T	88874887	T	T	88874887	3	4	174	1	0	0	0	0	1	0	0	0	5004	1377	48	5	1256	5	EIF2AK3	2	88874887	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	3290532	88874887	154324486	43	90501											
CNGA3	1261	broad.mit.edu	37	chr2	98996761	98996761	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttaaggaggtgtccagccaAgaaagcaatgcccaggcaaa	15	5	11	10	0	0	1	0	0	0	1	1	2	1	2	3	3	3	2	3	3	5	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:98996761A>G	uc002syt.2	+	4	756	c.339A>G	c.(337-339)CAA>CAG	p.Q113Q	CNGA3_uc002syu.2_Silent_p.Q113Q|CNGA3_uc010fij.2_Silent_p.Q117Q	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	113					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						TGTCCAGCCAAGAAAGCAATG	0.602													9	59					0	0	0.004482	0	0		G	98996761	G	G	98996761	2	3	174	1	0	0	0	0	0	0	0	1	3601	69	3	3		3	CNGA3	2	98996761	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	10121874	98996761	144202612	44	90502											
UXS1	80146	broad.mit.edu	37	chr2	106781218	106781218	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcttgctttcaatttttaGttcaccattttcctggatag	9	19	5	8	0	3	0	2	0	1	0	4	1	4	1	2	1	1	2	2	1	4	9			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:106781218G>C	uc002tdm.2	-	3	243	c.145C>G	c.(145-147)CTA>GTA	p.L49V	UXS1_uc002tdn.2_Missense_Mutation_p.L54V|UXS1_uc002tdo.2_Intron|UXS1_uc010ywh.1_Intron	NM_025076	NP_079352	Q8NBZ7	UXS1_HUMAN	UDP-glucuronate decarboxylase 1	49	Lumenal (Potential).				cellular metabolic process	Golgi cisterna membrane|integral to membrane	coenzyme binding|UDP-glucuronate decarboxylase activity			ovary(2)	2						TCAATTTTTAGTTCACCATTT	0.333													5	15					0	0	0.001168	0	0		C	106781218	C	C	106781218	3	2	174	1	0	0	0	0	1	0	0	0	17135	1020	36	5	1169	5	UXS1	2	106781218	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7784457	106781218	136418155	45	90503											
SLC35F5	80255	broad.mit.edu	37	chr2	114483031	114483031	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	cattaatactactttattggGaaactcgaagtcctcaaatc	14	13	5	9	1	1	0	1	0	0	0	4	2	2	1	1	1	3	0	1	1	7	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:114483031G>C	uc002tku.1	-	12	1598	c.1174C>G	c.(1174-1176)CCC>GCC	p.P392A	SLC35F5_uc002tkt.2_RNA	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	392					transport	integral to membrane					0						ACTTTATTGGGAAACTCGAAG	0.353													35	52					0	0	0.003271	0	0		C	114483031	C	C	114483031	3	2	174	1	0	0	0	0	1	0	0	0	14617	1174	41	5	413	5	SLC35F5	2	114483031	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7701813	114483031	128716342	46	90504											
CNTNAP5	129684	broad.mit.edu	37	chr2	125262020	125262020	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggaacaaggatggtctgcTtctgtccacagagctgtctg	9	11	12	9	0	3	1	0	0	3	1	4	3	4	3	1	3	3	2	1	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:125262020T>G	uc002tno.2	+	8	1575	c.1211T>G	c.(1210-1212)CTT>CGT	p.L404R	CNTNAP5_uc010flu.2_Missense_Mutation_p.L405R	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	404	Laminin G-like 2.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GATGGTCTGCTTCTGTCCACA	0.552													18	40					0	0	0.006122	0	0		G	125262020	G	G	125262020	3	3	174	1	0	0	0	0	1	0	0	0	3653	1609	56	5	1241	5	CNTNAP5	2	125262020	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	10778989	125262020	117937353	47	90505											
NCKAP5	344148	broad.mit.edu	37	chr2	133489583	133489583	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgagtctgggagtggaaaggTtccgatcccactgtccaatg	9	9	13	10	2	1	0	0	0	1	0	4	4	4	2	3	3	0	1	3	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:133489583T>G	uc002ttp.2	-	17	5544	c.5170A>C	c.(5170-5172)ACC>CCC	p.T1724P	NCKAP5_uc002ttq.2_Missense_Mutation_p.T405P	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1724							protein binding				0						AGTGGAAAGGTTCCGATCCCA	0.527													16	26					0	0	0.004007	0	0		G	133489583	G	G	133489583	3	3	174	1	0	0	0	0	1	0	0	0	10242	1725	60	5	575	5	NCKAP5	2	133489583	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	8227563	133489583	109709790	48	90506											
THSD7B	80731	broad.mit.edu	37	chr2	137814006	137814006	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaggtccgtggggaaggtgTacaggagactgtggtcccgg	7	8	19	7	2	0	1	0	0	0	1	2	3	2	2	2	7	1	2	2	7	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:137814006T>C	uc002tva.1	+	2	63	c.63T>C	c.(61-63)TGT>TGC	p.C21C	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_5'UTR	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GGGGAAGGTGTACAGGAGACT	0.473													4	66					0	0	0.000602	0	0		C	137814006	C	C	137814006	2	2	174	1	0	0	0	0	0	0	0	1	15905	1644	57	3		3	THSD7B	2	137814006	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4324423	137814006	105385367	49	90507											
THSD7B	80731	broad.mit.edu	37	chr2	137852465	137852465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgccttcaagattccttcCcattgactgttcagtcctgc	6	16	6	13	0	2	2	2	1	0	1	5	2	5	2	4	0	2	1	4	0	1	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:137852465C>T	uc002tva.1	+	3	880	c.880C>T	c.(880-882)CCA>TCA	p.P294S	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.P184S	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AGATTCCTTCCCATTGACTGT	0.458													24	148					0	0	0.003954	0	0		T	137852465	T	T	137852465	3	4	174	1	0	0	0	0	1	0	0	0	15905	623	22	4	890	4	THSD7B	2	137852465	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	38459	137852465	105346908	50	90508											
LRP1B	53353	broad.mit.edu	37	chr2	141004675	141004675	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtgctgatatgatcagacTtgctgctctttggggctggc	5	15	13	8	0	2	3	1	2	1	1	2	3	2	3	0	3	3	4	0	3	1	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:141004675T>G	uc002tvj.1	-	87	14276	c.13304A>C	c.(13303-13305)AAG>ACG	p.K4435T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4435	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATGATCAGACTTGCTGCTCTT	0.378										TSP Lung(27;0.18)			17	19					0	0	0.010504	0	0		G	141004675	G	G	141004675	3	3	174	1	0	0	0	0	1	0	0	0	8973	1609	56	5	515	5	LRP1B	2	141004675	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	3152210	141004675	102194698	51	90509											
XIRP2	129446	broad.mit.edu	37	chr2	168106793	168106793	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtcgagagtgaaacagtTtgaagcagagccaaataaaa	17	9	10	5	1	0	4	0	2	0	2	1	5	0	4	1	0	3	2	1	0	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:168106793T>G	uc002udx.2	+	8	8909	c.8891T>G	c.(8890-8892)TTT>TGT	p.F2964C	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.F2789C|XIRP2_uc010fpq.2_Missense_Mutation_p.F2742C|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.F310C	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2789	Potential.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTGAAACAGTTTGAAGCAGAG	0.378													4	118					0	0	0.009096	0	0		G	168106793	G	G	168106793	3	3	174	1	0	0	0	0	1	0	0	0	17456	1841	64	5	8921	5	XIRP2	2	168106793	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	27102118	168106793	75092580	52	90510											
DHRS9	10170	broad.mit.edu	37	chr2	169952128	169952128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtagagtgcatggaccacGctctaacaagtctcttccct	9	11	9	12	1	2	1	0	0	2	1	4	2	3	2	2	2	2	3	2	2	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:169952128G>A	uc002uep.2	+	8	2315	c.811G>A	c.(811-813)GCT>ACT	p.A271T	DHRS9_uc002ueq.2_Missense_Mutation_p.A271T|DHRS9_uc010zdc.1_Missense_Mutation_p.A331T|DHRS9_uc010zdd.1_Missense_Mutation_p.A271T|DHRS9_uc010zde.1_Missense_Mutation_p.A271T	NM_005771	NP_005762	Q9BPW9	DHRS9_HUMAN	NADP-dependent retinol dehydrogenase/reductase	271					9-cis-retinoic acid biosynthetic process|androgen metabolic process|epithelial cell differentiation|progesterone metabolic process|retinol metabolic process	integral to endoplasmic reticulum membrane|microsome	alcohol dehydrogenase (NAD) activity|binding|racemase and epimerase activity|retinol dehydrogenase activity|testosterone dehydrogenase (NAD+) activity				0						CATGGACCACGCTCTAACAAG	0.433													66	101					0	0	0.01441	0	0		A	169952128	A	A	169952128	3	1	174	1	0	0	0	0	1	0	0	0	4504	1087	38	1	825	1	DHRS9	2	169952128	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1845335	169952128	73247245	53	90511											
LRP2	4036	broad.mit.edu	37	chr2	170038698	170038698	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catattgagggtgaagggcaAgtcctctgggattatcaaag	12	10	13	6	0	2	2	1	2	1	0	3	3	3	3	1	3	0	1	1	3	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:170038698A>T	uc002ues.2	-	51	10190	c.9977T>A	c.(9976-9978)CTT>CAT	p.L3326H		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3326	Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTGAAGGGCAAGTCCTCTGGG	0.522													13	84					0	0	0.00245	0	0		T	170038698	T	T	170038698	3	4	174	1	0	0	0	0	1	0	0	0	8974	72	3	5	4106	5	LRP2	2	170038698	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	86570	170038698	73160675	54	90512											
TTN	7273	broad.mit.edu	37	chr2	179586841	179586841	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatacaggcttgatgtcaaAgaagggagatttcttgggtt	12	12	13	4	0	2	4	1	1	1	3	2	5	2	4	0	3	1	2	0	3	3	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:179586841A>C	uc010zfg.1	-	75	19041	c.18817T>G	c.(18817-18819)TTT>GTT	p.F6273V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.F2934V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7200							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGATGTCAAAGAAGGGAGAT	0.383													29	187					0	0	0.010818	0	0		C	179586841	C	C	179586841	3	2	174	1	0	0	0	0	1	0	0	0	16761	72	3	5	82120	5	TTN	2	179586841	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	9548143	179586841	63612532	55	90513											
TTN	7273	broad.mit.edu	37	chr2	179595331	179595331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	accttccagctggctgatttCcaagaaggcagtattgtcat	10	12	9	10	0	1	2	1	1	0	1	3	2	3	2	3	2	1	4	3	2	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:179595331C>T	uc010zfg.1	-	58	14421	c.14197G>A	c.(14197-14199)GAA>AAA	p.E4733K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E1394K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5660							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGCTGATTTCCAAGAAGGCA	0.448													14	106					0	0	0.001855	0	0		T	179595331	T	T	179595331	3	4	174	1	0	0	0	0	1	0	0	0	16761	864	30	4	86808	4	TTN	2	179595331	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	8490	179595331	63604042	56	90514											
TTN	7273	broad.mit.edu	37	chr2	179612541	179612541	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcattctgaacttgaacTtcttcataacatttttcttc	9	19	3	10	0	5	2	2	2	3	0	6	2	5	2	0	0	3	1	0	0	3	9			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:179612541T>G	uc002unb.2	-	46	14810	c.14586A>C	c.(14584-14586)GAA>GAC	p.E4862D	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAACTTGAACTTCTTCATAAC	0.358													11	55					0	0	0.008291	0	0		G	179612541	G	G	179612541	3	3	174	1	0	0	0	0	1	0	0	0	16761	1606	56	5	95711	5	TTN	2	179612541	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	17210	179612541	63586832	57	90515											
TTN	7273	broad.mit.edu	37	chr2	179614133	179614133	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcacaaatctgggaatttTttctctagaaggtatgcaac	13	13	8	7	0	2	1	0	0	2	1	3	2	2	2	0	2	3	3	0	2	6	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:179614133T>G	uc002unb.2	-	46	13218	c.12994A>C	c.(12994-12996)AAA>CAA	p.K4332Q	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGGGAATTTTTTCTCTAGAA	0.398													15	97					0	0	0.00245	0	0		G	179614133	G	G	179614133	3	3	174	1	0	0	0	0	1	0	0	0	16761	1850	64	5	97303	5	TTN	2	179614133	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1592	179614133	63585240	58	90516											
TTN	7273	broad.mit.edu	37	chr2	179644153	179644153	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattctatattcaatttcttTaataagtctctcttcaaagg	12	19	3	7	0	6	0	2	0	4	0	7	0	6	0	0	1	0	0	0	1	7	10			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:179644153T>C	uc010zfg.1	-	23	3990	c.3766A>G	c.(3766-3768)AAA>GAA	p.K1256E	TTN_uc010zfh.1_Missense_Mutation_p.K1210E|TTN_uc010zfi.1_Missense_Mutation_p.K1210E|TTN_uc010zfj.1_Missense_Mutation_p.K1210E|TTN_uc002unb.2_Missense_Mutation_p.K1256E|uc002unc.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1256							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAATTTCTTTAATAAGTCTC	0.289													8	18					0	0	0.004482	0	0		C	179644153	C	C	179644153	3	2	174	1	0	0	0	0	1	0	0	0	16761	1763	61	3	107582	3	TTN	2	179644153	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	30020	179644153	63555220	59	90517											
GLS	2744	broad.mit.edu	37	chr2	191796341	191796341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaaaaaaacttgatcctcGaagagaaggtggtgatcaaa	17	8	10	6	1	1	3	1	2	0	1	3	5	2	3	1	2	2	1	1	2	6	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:191796341G>A	uc002usf.2	+	14	1892	c.1628G>A	c.(1627-1629)CGA>CAA	p.R543Q	GLS_uc002use.2_Missense_Mutation_p.R543Q|GLS_uc002usg.1_Missense_Mutation_p.R204Q|GLS_uc002ush.2_Missense_Mutation_p.R204Q|GLS_uc010zgi.1_Missense_Mutation_p.R114Q|GLS_uc010zgj.1_Missense_Mutation_p.R48Q	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	543					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CTTGATCCTCGAAGAGAAGGT	0.299													10	61					0	0	0.010729	0	0		A	191796341	A	A	191796341	3	1	174	1	0	0	0	0	1	0	0	0	6478	1058	37	1	1682	1	GLS	2	191796341	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	12152188	191796341	51403032	60	90518											
DNAH7	56171	broad.mit.edu	37	chr2	196762419	196762419	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggtaaatcatgggataaaAattttggcagatttacatca	15	13	9	4	0	2	1	2	0	0	1	2	2	2	2	0	3	1	2	0	3	6	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:196762419A>C	uc002utj.3	-	29	4720	c.4619T>G	c.(4618-4620)TTT>TGT	p.F1540C		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1540					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ATGGGATAAAAATTTTGGCAG	0.284													10	18					0	0	0.008291	0	0		C	196762419	C	C	196762419	3	2	174	1	0	0	0	0	1	0	0	0	4612	14	1	5	7603	5	DNAH7	2	196762419	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	4966078	196762419	46436954	61	90519											
ZDBF2	57683	broad.mit.edu	37	chr2	207170929	207170929	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccccagtggctgtcacagaAacaaaacttcggaagaaggc	14	5	10	12	1	1	2	1	0	0	2	2	3	1	3	2	3	2	1	2	3	5	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:207170929A>C	uc002vbp.2	+	5	1927	c.1677A>C	c.(1675-1677)GAA>GAC	p.E559D		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	559							nucleic acid binding|zinc ion binding			ovary(3)	3						CTGTCACAGAAACAAAACTTC	0.433													14	9					0	0	0.00245	0	0		C	207170929	C	C	207170929	3	2	174	1	0	0	0	0	1	0	0	0	17624	11	1	5	1687	5	ZDBF2	2	207170929	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	10408510	207170929	36028444	62	90520											
MAP2	4133	broad.mit.edu	37	chr2	210558338	210558338	+	Missense_Mutation	SNP	T	G	G	0	1	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	cctccacagagcacactttcTcagaacagaaagaccaagag	16	5	7	13	0	1	5	1	0	1	5	3	5	2	5	3	0	2	1	3	0	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:210558338T>G	uc002vde.1	+	7	1692	c.1444T>G	c.(1444-1446)TCA>GCA	p.S482A	MAP2_uc002vdc.1_Missense_Mutation_p.S482A|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.S478A	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	482					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GCACACTTTCTCAGAACAGAA	0.443													4	39					0	0	0.009096	0	0		G	210558338	G	G	210558338	3	3	174	1	0	0	0	0	1	0	0	0	9253	1551	54	5	1458	5	MAP2	2	210558338	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	3387409	210558338	32641035	63	90521											
PAX3	5077	broad.mit.edu	37	chr2	223160324	223160324	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagctgaacatgcccgggTtctctcttttgtattcctca	6	14	7	14	1	3	1	1	1	2	0	5	1	4	1	3	1	3	3	3	1	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:223160324T>G	uc010fwo.2	-	3	740	c.374A>C	c.(373-375)AAC>ACC	p.N125T	PAX3_uc002vmt.1_Missense_Mutation_p.N125T|PAX3_uc002vmy.1_Missense_Mutation_p.N124T|PAX3_uc002vmv.1_Missense_Mutation_p.N125T|PAX3_uc002vmw.1_Missense_Mutation_p.N125T|PAX3_uc002vmx.1_Missense_Mutation_p.N125T|PAX3_uc002vmz.1_Missense_Mutation_p.N125T|PAX3_uc002vna.1_Missense_Mutation_p.N125T|CCDC140_uc002vnb.1_5'Flank	NM_181457	NP_852122	P23760	PAX3_HUMAN	paired box 3 isoform PAX3	125	Paired.				apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.N125K(1)	PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		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)		CATGCCCGGGTTCTCTCTTTT	0.537			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						10	46					0	0	0.008291	0	0		G	223160324	G	G	223160324	3	3	174	1	0	0	0	0	1	0	0	0	11499	1725	60	5	1304	5	PAX3	2	223160324	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	12601986	223160324	20039049	64	90522											
SCG2	7857	broad.mit.edu	37	chr2	224462806	224462806	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacaggtctggatggtctaAgtcagcctctgagatgtcat	10	11	12	8	0	5	1	2	1	3	1	5	4	5	2	1	3	2	0	1	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:224462806A>C	uc002vnm.2	-	2	1328	c.1195T>G	c.(1195-1197)TTA>GTA	p.L399V		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	399					angiogenesis|endothelial cell migration|eosinophil chemotaxis|induction of positive chemotaxis|inflammatory response|MAPKKK cascade|negative regulation of apoptosis|negative regulation of endothelial cell proliferation|positive regulation of endothelial cell proliferation|protein secretion	extracellular space|stored secretory granule	chemoattractant activity|cytokine activity			ovary(1)	1		Renal(207;0.0112)|Lung NSC(271;0.0185)|all_lung(227;0.0271)		Epithelial(121;8.16e-11)|all cancers(144;4.66e-08)|Lung(261;0.00714)|LUSC - Lung squamous cell carcinoma(224;0.008)		GGATGGTCTAAGTCAGCCTCT	0.532													29	29					0	0	0.007291	0	0		C	224462806	C	C	224462806	3	2	174	1	0	0	0	0	1	0	0	0	13916	69	3	5	662	5	SCG2	2	224462806	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	1302482	224462806	18736567	65	90523											
IRS1	3667	broad.mit.edu	37	chr2	227662033	227662033	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgttgggggcggtcagggtGgagggccccttgccacccat	4	7	17	13	2	1	0	1	0	0	0	1	1	1	1	5	6	1	1	5	6	0	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr2:227662033G>A	uc002voh.3	-	1	1474	c.1422C>T	c.(1420-1422)TCC>TCT	p.S474S		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	474					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CGGTCAGGGTGGAGGGCCCCT	0.642											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	65	39					0	0	0.01441	0	0		A	227662033	A	A	227662033	2	1	174	1	0	0	0	0	0	0	0	1	7856	1335	47	4		4	IRS1	2	227662033	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	3199227	227662033	15537340	66	90524											
SATB1	6304	broad.mit.edu	37	chr3	18427901	18427901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagaccgcacctggggaggaCggctgggtggtgtgctgatg	6	7	20	8	2	0	2	0	1	0	1	0	5	0	4	2	6	1	3	2	6	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:18427901C>T	uc003cbh.2	-	8	3144	c.1409G>A	c.(1408-1410)CGT>CAT	p.R470H	SATB1_uc003cbi.2_Missense_Mutation_p.R470H|SATB1_uc003cbj.2_Missense_Mutation_p.R470H	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	470					cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CTGGGGAGGACGGCTGGGTGG	0.488													10	80					0	0	0.008291	0	0		T	18427901	T	T	18427901	3	4	174	1	0	0	0	0	1	0	0	0	13878	536	19	1	898	1	SATB1	3	18427901	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08		18427901	179594529	67	90525											
KCNH8	131096	broad.mit.edu	37	chr3	19498345	19498345	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtaaaggctttaacctactgTgatctccagtgtatcatcct	10	14	7	10	0	2	1	1	1	1	0	4	1	3	1	3	1	2	3	3	1	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:19498345T>G	uc003cbk.1	+	11	2106	c.1911T>G	c.(1909-1911)TGT>TGG	p.C637W	KCNH8_uc010hex.1_Missense_Mutation_p.C98W	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	637	cNMP.|Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						TAACCTACTGTGATCTCCAGT	0.408													11	27					0	0	0.008291	0	0		G	19498345	G	G	19498345	3	3	174	1	0	0	0	0	1	0	0	0	8054	1702	59	5	1953	5	KCNH8	3	19498345	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1070444	19498345	178524085	68	90526											
SCN5A	6331	broad.mit.edu	37	chr3	38616871	38616871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtggtagcaggtcttgcGcaaccgccaccagaccttcc	8	8	11	14	2	1	1	0	0	1	1	2	2	2	1	5	2	3	3	5	2	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:38616871G>A	uc003cio.2	-	20	3777	c.3583C>T	c.(3583-3585)CGC>TGC	p.R1195C	SCN5A_uc003cin.2_Missense_Mutation_p.R1194C|SCN5A_uc003cil.3_Missense_Mutation_p.R1195C|SCN5A_uc010hhi.2_Missense_Mutation_p.R1195C|SCN5A_uc010hhk.2_Missense_Mutation_p.R1194C|SCN5A_uc011ayr.1_Missense_Mutation_p.R1141C|SCN5A_uc010hhj.1_Missense_Mutation_p.R805C	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1195					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CAGGTCTTGCGCAACCGCCAC	0.612													12	3					0	0	0.010729	0	0		A	38616871	A	A	38616871	3	1	174	1	0	0	0	0	1	0	0	0	13947	1087	38	1	2503	1	SCN5A	3	38616871	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	19118526	38616871	159405559	69	90527											
DOCK3	1795	broad.mit.edu	37	chr3	50971428	50971428	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctaggcagtatgaaactgtgGttccacttgaagattctatt	11	14	9	7	0	1	3	0	2	1	1	2	3	2	3	1	2	1	3	1	2	5	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:50971428G>T	uc011bds.1	+	5	258	c.235G>T	c.(235-237)GTT>TTT	p.V79F		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	79						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TGAAACTGTGGTTCCACTTGA	0.398													14	6					1.52009e-12	1.63064e-12	0.003163	1	0		T	50971428	T	T	50971428	3	4	174	1	0	0	0	0	1	0	0	0	4694	1261	44	5	253	5	DOCK3	3	50971428	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	12354557	50971428	147051002	70	90528											
ACTR8	93973	broad.mit.edu	37	chr3	53906522	53906522	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgtccaacgattccaaaAgttgcggggtaaaacaaagc	14	9	9	9	2	1	0	0	0	1	0	3	1	3	0	2	2	4	2	2	2	6	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:53906522A>C	uc003dhd.2	-	10	1250	c.1191T>G	c.(1189-1191)ACT>ACG	p.T397T	ACTR8_uc003dhb.2_Silent_p.T102T|ACTR8_uc003dhc.2_Silent_p.T286T	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	397					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding	p.T397I(1)		ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		CGATTCCAAAAGTTGCGGGGT	0.443													43	105					0	0	0.010771	0	0		C	53906522	C	C	53906522	2	2	174	1	0	0	0	0	0	0	0	1	217	59	3	5		5	ACTR8	3	53906522	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2935094	53906522	144115908	71	90529											
ERC2	26059	broad.mit.edu	37	chr3	56183132	56183132	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctcaagatcccttatgTttcgttccaatgaagcgatt	10	14	6	11	2	1	2	1	1	0	1	5	3	4	2	3	0	1	2	3	0	4	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:56183132T>G	uc003dhr.1	-	5	1434	c.1178A>C	c.(1177-1179)AAC>ACC	p.N393T		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	393	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		ATCCCTTATGTTTCGTTCCAA	0.328													9	28					0	0	0.006214	0	0		G	56183132	G	G	56183132	3	3	174	1	0	0	0	0	1	0	0	0	5219	1725	60	5	1737	5	ERC2	3	56183132	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2276610	56183132	141839298	72	90530											
SLC15A2	6565	broad.mit.edu	37	chr3	121641917	121641917	+	Missense_Mutation	SNP	A	C	C	1	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	ttatggatgtaaaggcactgAccagggtactattcctttat	11	14	9	7	0	0	1	0	1	0	0	1	2	1	2	2	3	1	3	2	3	6	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:121641917A>C	uc003eep.2	+	10	1051	c.898A>C	c.(898-900)ACC>CCC	p.T300P	SLC15A2_uc011bjn.1_Missense_Mutation_p.T269P	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	300	Helical; (Potential).				protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	AAAGGCACTGACCAGGGTACT	0.433													11	149					0	0	0.010729	0	0		C	121641917	C	C	121641917	3	2	174	1	0	0	0	0	1	0	0	0	14424	275	10	5	936	5	SLC15A2	3	121641917	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	65458785	121641917	76380513	73	90531											
SEMA5B	54437	broad.mit.edu	37	chr3	122629130	122629130	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctctgtcatcagggatcaAgttattcttgttcagggtct	7	15	11	8	0	7	0	4	0	3	0	7	1	7	1	0	3	0	3	0	3	2	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:122629130A>G	uc003efz.1	-	23	3620	c.3316T>C	c.(3316-3318)TTG>CTG	p.L1106L	SEMA5B_uc011bju.1_Silent_p.L1012L|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003efy.1_Silent_p.L84L	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	1106	Cytoplasmic (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		TCAGGGATCAAGTTATTCTTG	0.527													27	35					0	0	0.00632	0	0		G	122629130	G	G	122629130	2	3	174	1	0	0	0	0	0	0	0	1	14063	69	3	3		3	SEMA5B	3	122629130	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	987213	122629130	75393300	74	90532											
MYLK	4638	broad.mit.edu	37	chr3	123383036	123383036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagccgcagtgctcctggcGcgcggccaggatggtgagct	5	6	17	13	4	0	1	0	1	0	0	1	2	1	2	3	4	3	4	3	4	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:123383036G>A	uc003ego.2	-	23	4183	c.3901C>T	c.(3901-3903)CGC>TGC	p.R1301C	MYLK_uc010hrr.2_5'UTR|MYLK_uc011bjv.1_Missense_Mutation_p.R101C|MYLK_uc011bjw.1_Missense_Mutation_p.R1301C|MYLK_uc003egp.2_Missense_Mutation_p.R1232C|MYLK_uc003egq.2_Missense_Mutation_p.R1301C|MYLK_uc003egr.2_Missense_Mutation_p.R1232C|MYLK_uc003egs.2_Missense_Mutation_p.R1125C	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1301	Actin-binding (calcium/calmodulin- insensitive) (By similarity).|Ig-like C2-type 8.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TGCTCCTGGCGCGCGGCCAGG	0.627													20	113					0	0	0.00333	0	0		A	123383036	A	A	123383036	3	1	174	1	0	0	0	0	1	0	0	0	10074	1087	38	1	1891	1	MYLK	3	123383036	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	753906	123383036	74639394	75	90533											
MFSD1	64747	broad.mit.edu	37	chr3	158538076	158538076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatatttatcatctgtgtctGctattatgttgctgtgttcc	6	21	7	7	0	3	0	1	0	2	0	4	0	4	0	1	0	2	4	1	0	5	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:158538076G>A	uc003fcl.1	+	9	854	c.824G>A	c.(823-825)TGC>TAC	p.C275Y	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Missense_Mutation_p.C178Y|MFSD1_uc011bow.1_Missense_Mutation_p.C236Y|MFSD1_uc011box.1_Missense_Mutation_p.C202Y	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	275	Helical; (Potential).			C -> R (in Ref. 1; BAB20269).	transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			ATCTGTGTCTGCTATTATGTT	0.348													77	25					0	0	0.01441	0	0		A	158538076	A	A	158538076	3	1	174	1	0	0	0	0	1	0	0	0	9545	1319	46	2	1005	2	MFSD1	3	158538076	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	35155040	158538076	39484354	76	90534											
EIF4G1	1981	broad.mit.edu	37	chr3	184049780	184049780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagtgctgaaagcgcgagcGaagctgctgcagaaatacct	12	6	13	10	3	0	2	0	1	0	1	0	4	0	2	1	0	7	5	1	0	4	1	rs112264710	byFrequency	TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr3:184049780G>A	uc003fnp.2	+	32	4722	c.4524G>A	c.(4522-4524)GCG>GCA	p.A1508A	EIF4G1_uc003fnt.2_Silent_p.A1219A|EIF4G1_uc003fnq.2_Silent_p.A1421A|EIF4G1_uc003fnr.2_Silent_p.A1344A|EIF4G1_uc010hxx.2_Silent_p.A1515A|EIF4G1_uc003fns.2_Silent_p.A1468A|EIF4G1_uc010hxy.2_Silent_p.A1515A|EIF4G1_uc003fnv.3_Silent_p.A1509A|EIF4G1_uc003fnu.3_Silent_p.A1508A|EIF4G1_uc003fnw.2_Silent_p.A1515A|EIF4G1_uc003fnx.2_Silent_p.A1313A|EIF4G1_uc003fny.3_Silent_p.A1312A|EIF4G1_uc003foa.2_Silent_p.A180A	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1508	W2.|EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			AAGCGCGAGCGAAGCTGCTGC	0.547													8	56					0	0	0.00308	0	0		A	184049780	A	A	184049780	2	1	174	1	0	0	0	0	0	0	0	1	5044	1045	37	1		1	EIF4G1	3	184049780	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	25511704	184049780	13972650	77	90535											
SH3TC1	54436	broad.mit.edu	37	chr4	8233834	8233834	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	ccgacaaggtgctggaggggCagctcctggagaccatcagc	9	5	15	12	1	1	1	1	0	0	1	2	4	2	2	3	5	3	3	3	5	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:8233834C>T	uc003gkv.3	+	13	3183	c.3082C>T	c.(3082-3084)CAG>TAG	p.Q1028*	SH3TC1_uc003gkw.3_Nonsense_Mutation_p.Q952*|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1028	TPR 7.						binding			large_intestine(2)|pancreas(1)	3						GCTGGAGGGGCAGCTCCTGGA	0.532													6	24					0	0	0.001984	0	0		T	8233834	T	T	8233834	4	4	174	1	0	0	0	0	0	1	0	0	14286	711	25	2	3128	2	SH3TC1	4	8233834	Nonsense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08		8233834	182920442	78	90536											
KCNIP4	80333	broad.mit.edu	37	chr4	20751288	20751288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataatccagagcttacctcGaaactcacagctccattgtg	13	10	6	12	1	1	1	1	0	0	1	4	2	3	1	3	0	4	2	3	0	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:20751288G>A	uc003gqe.2	-	4	459	c.375C>T	c.(373-375)TTC>TTT	p.F125F	KCNIP4_uc003gqf.1_Silent_p.F121F|KCNIP4_uc003gqg.1_Silent_p.F80F|KCNIP4_uc003gqh.1_Silent_p.F117F|KCNIP4_uc003gqi.1_Silent_p.F80F|PACRGL_uc003gpu.2_Intron|PACRGL_uc003gpx.3_Intron|PACRGL_uc003gpw.2_Intron|KCNIP4_uc010iel.2_Silent_p.F122F|KCNIP4_uc003gqd.3_Silent_p.F105F	NM_147182	NP_671711	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 3	142	EF-hand 2.|1 (Potential).					plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				AGCTTACCTCGAAACTCACAG	0.358													5	8					0	0	0.001984	0	0		A	20751288	A	A	20751288	2	1	174	1	0	0	0	0	0	0	0	1	8058	1049	37	1		1	KCNIP4	4	20751288	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	12517454	20751288	170402988	79	90537											
OCIAD1	54940	broad.mit.edu	37	chr4	48853965	48853965	+	Missense_Mutation	SNP	A	G	G	1	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	ctatgaatgaatctgctcccActggtattactgatcatatt	11	15	6	9	0	2	3	1	3	1	0	3	3	3	3	1	1	2	2	1	1	6	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:48853965A>G	uc003gyo.2	+	7	777	c.520A>G	c.(520-522)ACT>GCT	p.T174A	OCIAD1_uc011bzk.1_RNA|OCIAD1_uc003gyr.2_Missense_Mutation_p.T174A|OCIAD1_uc003gyp.2_Missense_Mutation_p.T174A|OCIAD1_uc003gys.2_Missense_Mutation_p.T174A|OCIAD1_uc003gyq.2_Missense_Mutation_p.T174A|OCIAD1_uc010igk.2_Missense_Mutation_p.T179A	NM_017830	NP_060300	Q9NX40	OCAD1_HUMAN	OCIA domain containing 1 isoform 1	174						endosome	protein binding				0						ATCTGCTCCCACTGGTATTAC	0.358													38	41					0	0	0.006999	0	0		G	48853965	G	G	48853965	3	3	174	1	0	0	0	0	1	0	0	0	10836	159	6	3	561	3	OCIAD1	4	48853965	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	28102677	48853965	142300311	80	90538											
AASDH	132949	broad.mit.edu	37	chr4	57221402	57221402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tataaatggtcgcccaacttGatacctctgtgataccataa	13	12	6	10	1	1	2	0	2	1	0	2	2	1	2	3	1	3	0	3	1	7	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:57221402G>A	uc003hbn.2	-	6	1202	c.1049C>T	c.(1048-1050)TCA>TTA	p.S350L	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Missense_Mutation_p.S197L|AASDH_uc003hbo.2_Missense_Mutation_p.S250L|AASDH_uc011cab.1_5'UTR|AASDH_uc010ihc.2_Missense_Mutation_p.S350L|AASDH_uc003hbp.2_Missense_Mutation_p.S350L	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	350					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				CGCCCAACTTGATACCTCTGT	0.378													8	27					0	0	0.00308	0	0		A	57221402	A	A	57221402	3	1	174	1	0	0	0	0	1	0	0	0	22	1294	45	4	2287	4	AASDH	4	57221402	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	8367437	57221402	133932874	81	90539											
EPHA5	2044	broad.mit.edu	37	chr4	66356240	66356240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaggtgtttttcaggccGctttgccggggaaggtacct	7	11	14	9	2	1	1	1	0	0	1	1	2	1	2	3	5	2	3	3	5	2	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:66356240G>A	uc003hcy.2	-	5	1450	c.1257C>T	c.(1255-1257)AGC>AGT	p.S419S	EPHA5_uc003hcx.2_Silent_p.S350S|EPHA5_uc003hcz.2_Silent_p.S419S|EPHA5_uc011cah.1_Silent_p.S419S|EPHA5_uc011cai.1_Silent_p.S419S|EPHA5_uc003hda.2_Silent_p.S419S	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	419	Fibronectin type-III 1.|Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						TTTTCAGGCCGCTTTGCCGGG	0.502										TSP Lung(17;0.13)			24	23					0	0	0.003954	0	0		A	66356240	A	A	66356240	2	1	174	1	0	0	0	0	0	0	0	1	5178	1078	38	1		1	EPHA5	4	66356240	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	9134838	66356240	124798036	82	90540											
CENPC1	1060	broad.mit.edu	37	chr4	68383923	68383923	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaaacaatgttgaaaaacTttttttagcttgtcgttgaa	15	16	6	4	1	0	2	0	2	0	0	1	2	0	2	0	0	3	3	0	0	8	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:68383923T>A	uc003hdd.1	-	7	964	c.781A>T	c.(781-783)AGT>TGT	p.S261C	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.S261C	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	261	Nuclear localization signal (Potential).				mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						GTTGAAAAACTTTTTTTAGCT	0.313													5	7					0	0	0.001168	0	0		A	68383923	A	A	68383923	3	1	174	1	0	0	0	0	1	0	0	0	3232	1609	56	5	2102	5	CENPC1	4	68383923	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2027683	68383923	122770353	83	90541											
TMPRSS11B	132724	broad.mit.edu	37	chr4	69101927	69101927	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaagctgcgttttcacaaTtatcattgtatgtgactcca	10	15	8	8	1	2	2	2	2	0	0	3	2	3	2	1	0	2	3	1	0	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:69101927T>G	uc003hdw.3	-	3	318	c.182A>C	c.(181-183)AAT>ACT	p.N61T		NM_182502	NP_872308	Q86T26	TM11B_HUMAN	transmembrane protease, serine 11B	61	SEA.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						GTTTTCACAATTATCATTGTA	0.279													5	17					0	0	0.001984	0	0		G	69101927	G	G	69101927	3	3	174	1	0	0	0	0	1	0	0	0	16265	1493	52	5	1100	5	TMPRSS11B	4	69101927	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	718004	69101927	122052349	84	90542											
KLHL8	57563	broad.mit.edu	37	chr4	88104378	88104378	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagtatgcttccttggggtaGtccgaatggagtattcaaag	10	12	12	7	1	1	0	1	0	0	0	3	2	3	1	2	3	1	4	2	3	5	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:88104378G>A	uc011cdb.1	-	4	1314	c.929C>T	c.(928-930)ACT>ATT	p.T310I	KLHL8_uc003hql.1_Missense_Mutation_p.T310I|KLHL8_uc003hqm.1_Missense_Mutation_p.T234I|KLHL8_uc003hqn.1_Missense_Mutation_p.T127I|KLHL8_uc010ikj.1_Intron	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	310											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		CCTTGGGGTAGTCCGAATGGA	0.393													7	52					0	0	0.001984	0	0		A	88104378	A	A	88104378	3	1	174	1	0	0	0	0	1	0	0	0	8411	1029	36	4	961	4	KLHL8	4	88104378	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	19002451	88104378	103049898	85	90543											
INTU	27152	broad.mit.edu	37	chr4	128627894	128627894	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcctattctcagtaggctaCaaggtacttccaaagtagca	12	10	8	11	1	1	0	1	0	1	0	3	0	2	0	2	2	3	5	2	2	7	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:128627894C>A	uc003ifk.1	+	12	2111	c.2041C>A	c.(2041-2043)CAA>AAA	p.Q681K	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	681										ovary(1)	1						CAGTAGGCTACAAGGTACTTC	0.453													46	32					1.15505e-17	1.25908e-17	0.009718	1	0		A	128627894	A	A	128627894	3	1	174	1	0	0	0	0	1	0	0	0	7802	479	17	5	2087	5	INTU	4	128627894	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	40523516	128627894	62526382	86	90544											
PCDH18	54510	broad.mit.edu	37	chr4	138451451	138451451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttattcttgtgacatgaaAgccactttcagcccctttgg	8	14	7	12	0	2	2	1	2	1	0	2	2	2	2	4	1	2	0	4	1	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:138451451A>C	uc003ihe.3	-	1	2179	c.1792T>G	c.(1792-1794)TTT>GTT	p.F598V	PCDH18_uc003ihf.3_Missense_Mutation_p.F591V|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.F378V|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	598	Cadherin 6.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GTGACATGAAAGCCACTTTCA	0.443													12	129					0	0	0.010729	0	0		C	138451451	C	C	138451451	3	2	174	1	0	0	0	0	1	0	0	0	11532	72	3	5	1631	5	PCDH18	4	138451451	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	9823557	138451451	52702825	87	90545											
F11	2160	broad.mit.edu	37	chr4	187197505	187197505	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcccggttgcttgttttTtaccttcttttcccaggaat	5	19	6	11	1	2	0	1	0	1	0	4	1	4	1	3	2	2	3	3	2	2	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr4:187197505T>G	uc003iza.1	+	7	1049	c.716T>G	c.(715-717)TTT>TGT	p.F239C		NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	239	Apple 3.				blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		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)	TGCTTGTTTTTTACCTTCTTT	0.418													3	35					0	0	0.004672	0	0		G	187197505	G	G	187197505	3	3	174	1	0	0	0	0	1	0	0	0	5345	1841	64	5	738	5	F11	4	187197505	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	48746054	187197505	3956771	88	90546											
CEP72	55722	broad.mit.edu	37	chr5	620252	620252	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcatctcctcgttggcagaAgtgtttcggctccacgcctt	5	13	10	13	3	1	1	0	0	1	1	5	1	2	1	3	2	1	5	3	2	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:620252A>C	uc003jbf.2	+	3	351	c.279A>C	c.(277-279)GAA>GAC	p.E93D	CEP72_uc011clz.1_RNA	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	93	LRR 3.				G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			CGTTGGCAGAAGTGTTTCGGC	0.512													8	68					0	0	0.00308	0	0		C	620252	C	C	620252	3	2	174	1	0	0	0	0	1	0	0	0	3263	69	3	5	289	5	CEP72	5	620252	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08		620252	180295008	89	90547											
ADCY2	108	broad.mit.edu	37	chr5	7820785	7820785	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gtaggatggacagcaccggaGtcctggacaaaatacaggta	14	6	13	8	1	0	0	0	0	0	0	1	4	1	4	2	5	2	3	2	5	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:7820785G>T	uc003jdz.1	+	24	3173	c.3106G>T	c.(3106-3108)GTC>TTC	p.V1036F	ADCY2_uc011cmo.1_Missense_Mutation_p.V856F|ADCY2_uc010itm.1_Missense_Mutation_p.V232F	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	1036	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						CAGCACCGGAGTCCTGGACAA	0.473													27	39					2.61193e-14	2.81468e-14	0.009535	1	0		T	7820785	T	T	7820785	3	4	174	1	0	0	0	0	1	0	0	0	294	1029	36	5	3200	5	ADCY2	5	7820785	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7200533	7820785	173094475	90	90548											
CDH9	1007	broad.mit.edu	37	chr5	26886151	26886151	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaaaagaatttgtgacctcgGggagggtcatccttatccat	12	11	10	8	1	1	2	1	1	0	1	4	3	3	3	3	3	0	0	3	3	4	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:26886151G>A	uc003jgs.1	-	10	1723	c.1554C>T	c.(1552-1554)CCC>CCT	p.P518P	CDH9_uc011cnv.1_Silent_p.P111P	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	518	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TGTGACCTCGGGGAGGGTCAT	0.323													8	163					0	0	0.006214	0	0		A	26886151	A	A	26886151	2	1	174	1	0	0	0	0	0	0	0	1	3120	1219	43	4		4	CDH9	5	26886151	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	19065366	26886151	154029109	91	90549											
RAI14	26064	broad.mit.edu	37	chr5	34796122	34796122	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtgtggatgtgacagcccaAgatactaccggtatgtggtt	9	11	14	7	1	0	2	0	1	0	1	0	3	0	3	2	4	3	2	2	4	4	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:34796122A>C	uc003jir.2	+	4	442	c.246A>C	c.(244-246)CAA>CAC	p.Q82H	RAI14_uc010iur.2_Missense_Mutation_p.Q82H|RAI14_uc011coj.1_Missense_Mutation_p.Q82H|RAI14_uc010ius.1_Missense_Mutation_p.Q11H|RAI14_uc003jis.2_Missense_Mutation_p.Q85H|RAI14_uc003jit.2_Missense_Mutation_p.Q82H|RAI14_uc011cok.1_Missense_Mutation_p.Q74H	NM_015577	NP_056392	Q9P0K7	RAI14_HUMAN	retinoic acid induced 14 isoform a	82						cell cortex|cytoskeleton	protein binding			ovary(1)	1	all_lung(31;0.000191)					TGACAGCCCAAGATACTACCG	0.398													8	157					0	0	0.004482	0	0		C	34796122	C	C	34796122	3	2	174	1	0	0	0	0	1	0	0	0	13033	69	3	5	321	5	RAI14	5	34796122	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	7909971	34796122	146119138	92	90550											
DNAJC21	134218	broad.mit.edu	37	chr5	34941212	34941212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtcataggtaaagacagtGatgaggccgaggacgctgag	12	7	15	7	2	1	4	1	3	0	1	1	6	1	5	1	3	0	2	1	3	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:34941212G>A	uc003jjc.2	+	7	1134	c.907G>A	c.(907-909)GAT>AAT	p.D303N	DNAJC21_uc003jjb.2_Missense_Mutation_p.D303N|DNAJC21_uc010iuu.1_Missense_Mutation_p.D187N	NM_001012339	NP_001012339	Q5F1R6	DJC21_HUMAN	DnaJ homology subfamily A member 5 isoform 2	303	Glu-rich.				protein folding	ribosome	heat shock protein binding|nucleic acid binding|unfolded protein binding|zinc ion binding			breast(1)|skin(1)	2	all_lung(31;7.08e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			TAAAGACAGTGATGAGGCCGA	0.358													25	54					0	0	0.005443	0	0		A	34941212	A	A	34941212	3	1	174	1	0	0	0	0	1	0	0	0	4646	1290	45	4	933	4	DNAJC21	5	34941212	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	145090	34941212	145974048	93	90551											
LMBRD2	92255	broad.mit.edu	37	chr5	36116613	36116613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtgatgtgaggccaaaTaataatagttaaatacacga	16	11	9	5	1	1	2	0	2	1	0	1	3	1	2	1	2	1	1	1	2	7	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:36116613T>C	uc003jkb.1	-	11	1800	c.1385A>G	c.(1384-1386)TAT>TGT	p.Y462C		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	462	Cytoplasmic (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGAGGCCAAATAATAATAGTT	0.353													3	68					0	0	0.004672	0	0		C	36116613	C	C	36116613	3	2	174	1	0	0	0	0	1	0	0	0	8860	1406	49	3	734	3	LMBRD2	5	36116613	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1175401	36116613	144798647	94	90552											
LIFR	3977	broad.mit.edu	37	chr5	38490328	38490328	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaatcatggagcgtaataAttgatatccttgatttctgc	11	15	7	8	1	2	2	1	2	1	0	4	3	4	3	2	1	2	1	2	1	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:38490328A>G	uc010ive.1	-	15	2463	c.2131T>C	c.(2131-2133)TTA>CTA	p.L711L	LIFR_uc003jli.2_Silent_p.L711L	NM_001127671	NP_001121143	P42702	LIFR_HUMAN	leukemia inhibitory factor receptor precursor	711	Fibronectin type-III 5.|Extracellular (Potential).				positive regulation of cell proliferation	extracellular region|integral to plasma membrane	ciliary neurotrophic factor receptor binding|growth factor binding|leukemia inhibitory factor receptor activity			ovary(3)|large_intestine(1)	4	all_lung(31;0.00021)					GAGCGTAATAATTGATATCCT	0.313			T	PLAG1	salivary adenoma								38	75					0	0	0.01441	0	0		G	38490328	G	G	38490328	2	3	174	1	0	0	0	0	0	0	0	1	8796	98	4	3		3	LIFR	5	38490328	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2373715	38490328	142424932	95	90553											
RICTOR	253260	broad.mit.edu	37	chr5	39002699	39002699	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaatactggagtcttggatGagatatcgaagcgctcgtag	12	10	13	6	3	1	2	0	1	1	2	3	6	1	4	0	2	2	2	0	2	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:39002699G>A	uc003jlp.2	-	5	354	c.330C>T	c.(328-330)CTC>CTT	p.L110L	RICTOR_uc003jlo.2_Silent_p.L110L|RICTOR_uc010ivf.2_5'UTR|RICTOR_uc003jlq.1_Silent_p.L94L|RICTOR_uc011cpk.1_Silent_p.L110L	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	110					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					AGTCTTGGATGAGATATCGAA	0.348													57	106					0	0	0.01441	0	0		A	39002699	A	A	39002699	2	1	174	1	0	0	0	0	0	0	0	1	13383	1277	45	4		4	RICTOR	5	39002699	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	512371	39002699	141912561	96	90554											
NNT	23530	broad.mit.edu	37	chr5	43619206	43619206	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatcacagctgctggaaaAgttcctccagctaaggtagg	12	8	11	10	0	1	1	1	0	0	1	3	2	3	2	2	3	3	5	2	3	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:43619206A>C	uc003joe.2	+	5	927	c.672A>C	c.(670-672)AAA>AAC	p.K224N	NNT_uc003jof.2_Missense_Mutation_p.K224N	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	224	Mitochondrial matrix.				tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CTGCTGGAAAAGTTCCTCCAG	0.289													5	37					0	0	0.00308	0	0		C	43619206	C	C	43619206	3	2	174	1	0	0	0	0	1	0	0	0	10529	69	3	5	686	5	NNT	5	43619206	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	4616507	43619206	137296054	97	90555											
PIK3R1	5295	broad.mit.edu	37	chr5	67575545	67575545	+	Frame_Shift_Del	DEL	G	-	-																															gcagccgtttacagtgaaatGatttctttagctccaggttt																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:67575545delG	uc003jva.2	+	5	1178	c.618delG	c.(616-618)ATGfs	p.M206fs	PIK3R1_uc003jvb.2_Frame_Shift_Del_p.M206fs	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	206	Rho-GAP.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		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)	Isoproterenol(DB01064)	ACAGTGAAATGATTTCTTTAG	0.403			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			37	21	---	---	---	---						.	-	67575545	-	-	67575545	7	5	174	1	0	1	0	1	0	0	0	0	11937	1290	45	0	632	0	PIK3R1	5	67575545	Frame_Shift_Del	DEL	G	TCGA-D7-6528-01A-11D-1800-08	23956339	67575545	113339715	98	90556											
APC	324	broad.mit.edu	37	chr5	112175951	112175952	+	Frame_Shift_Ins	INS	-	A	A																															aaaccaagagaaagaggcagINSaaaaaactattgattctgaa																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:112175951_112175952insA	uc010jby.2	+	16	5040_5041	c.4660_4661insA	c.(4660-4662)GAAfs	p.E1554fs	APC_uc011cvt.1_Frame_Shift_Ins_p.E1536fs|APC_uc003kpz.3_Frame_Shift_Ins_p.E1554fs|APC_uc003kpy.3_Frame_Shift_Ins_p.E1554fs|APC_uc010jbz.2_Frame_Shift_Ins_p.E1271fs|APC_uc010jca.2_Frame_Shift_Ins_p.E854fs	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1554	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.T1556fs*3(35)|p.E1554fs*5(2)|p.E1554*(2)|p.?(1)|p.T1556fs*9(1)|p.K1192fs*3(1)|p.?fs(1)|p.E1554fs*11(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GAAAGAGGCAGAAAAAACTATT	0.342		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			20	21	---	---	---	---						.	A	112175952	A	A	112175951	7	5	174	1	0	1	1	0	0	0	0	0	763	943	33	0	4718	0	APC	5	112175951	Frame_Shift_Ins	INS	-	TCGA-D7-6528-01A-11D-1800-08	44600406	112175951	68739309	99	90557											
SNCAIP	9627	broad.mit.edu	37	chr5	121780267	121780267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttctgacagaccttggttGaatatggagcaaatgtcacc	11	13	9	8	0	2	3	1	2	1	1	2	4	2	4	2	2	1	2	2	2	3	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:121780267G>A	uc003ksw.1	+	8	1638	c.1432G>A	c.(1432-1434)GAA>AAA	p.E478K	SNCAIP_uc011cwl.1_Missense_Mutation_p.E36K|SNCAIP_uc003ksx.1_Missense_Mutation_p.E525K|SNCAIP_uc003ksy.1_Missense_Mutation_p.E112K|SNCAIP_uc003ksz.1_Missense_Mutation_p.E112K|SNCAIP_uc010jcu.2_Missense_Mutation_p.E74K|SNCAIP_uc011cwm.1_Missense_Mutation_p.E112K|SNCAIP_uc003kta.1_Missense_Mutation_p.E110K|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.E172K|SNCAIP_uc010jcx.1_Missense_Mutation_p.E418K|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_5'UTR	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	478	ANK 4.				cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		GACCTTGGTTGAATATGGAGC	0.478													22	107					0	0	0.00278	0	0		A	121780267	A	A	121780267	3	1	174	1	0	0	0	0	1	0	0	0	14866	1291	45	4	1458	4	SNCAIP	5	121780267	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	9604316	121780267	59134993	100	90558											
SLC27A6	28965	broad.mit.edu	37	chr5	128320858	128320858	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtagaagaaatccttccaAgcctctcagaaaatatcagt	15	9	7	10	1	2	3	2	0	1	3	5	3	4	3	3	1	1	1	3	1	7	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:128320858A>T	uc003kuy.2	+	3	910	c.514A>T	c.(514-516)AGC>TGC	p.S172C	SLC27A6_uc003kuz.2_Missense_Mutation_p.S172C	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	172					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		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)		AATCCTTCCAAGCCTCTCAGA	0.413													6	33					0	0	0.001168	0	0		T	128320858	T	T	128320858	3	4	174	1	0	0	0	0	1	0	0	0	14555	72	3	5	520	5	SLC27A6	5	128320858	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	6540591	128320858	52594402	101	90559											
PCDHA7	56141	broad.mit.edu	37	chr5	140216062	140216062	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctggtggatgtcaacgtGtacctgatcatcgccatctg	8	11	12	10	2	3	1	2	1	1	0	4	3	3	2	2	2	3	2	2	2	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:140216062G>T	uc003lhq.2	+	1	2094	c.2094G>T	c.(2092-2094)GTG>GTT	p.V698V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.V698V	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	698	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATGTCAACGTGTACCTGATCA	0.632													10	122					2.17888e-05	2.27027e-05	0.006214	1	0		T	140216062	T	T	140216062	2	4	174	1	0	0	0	0	0	0	0	1	11548	1364	48	5		5	PCDHA7	5	140216062	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	11895204	140216062	40699198	102	90560											
PCDHA8	56140	broad.mit.edu	37	chr5	140221014	140221014	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctccactactccgtcccCgaggaggccaaacacggcac	10	4	9	18	3	0	0	0	0	0	0	3	2	3	1	5	3	3	2	5	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:140221014C>T	uc003lhs.2	+	1	108	c.108C>T	c.(106-108)CCC>CCT	p.P36P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.P36P	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	36	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTCCGTCCCCGAGGAGGCCA	0.667													5	94					0	0	0.000602	0	0		T	140221014	T	T	140221014	2	4	174	1	0	0	0	0	0	0	0	1	11549	639	23	1		1	PCDHA8	5	140221014	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4952	140221014	40694246	103	90561											
PCDHB7	56129	broad.mit.edu	37	chr5	140554036	140554036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaccgcggctcccccgcGctgagcagcgaggcgctggt	6	4	15	16	6	0	2	0	1	0	1	1	3	1	2	3	3	2	4	3	3	0	0	rs17844465		TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:140554036G>A	uc003lit.2	+	1	1794	c.1620G>A	c.(1618-1620)GCG>GCA	p.A540A		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	540	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTCCCCCGCGCTGAGCAGCG	0.701													41	64					0	0	0.007835	0	0		A	140554036	A	A	140554036	2	1	174	1	0	0	0	0	0	0	0	1	11566	1074	38	1		1	PCDHB7	5	140554036	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	333022	140554036	40361224	104	90562											
PCDHB8	56128	broad.mit.edu	37	chr5	140559856	140559856	+	Silent	SNP	T	C	C	0	1	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	aggggcaccgggagcctgtcTcagaactatcagtacgaggt	10	7	14	10	2	2	1	2	0	1	1	3	3	2	2	2	4	3	2	2	4	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:140559856T>C	uc011dai.1	+	1	2427	c.2241T>C	c.(2239-2241)TCT>TCC	p.S747S	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	747	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGAGCCTGTCTCAGAACTATC	0.582													28	158					0	0	0.005443	0	0		C	140559856	C	C	140559856	2	2	174	1	0	0	0	0	0	0	0	1	11567	1538	54	3		3	PCDHB8	5	140559856	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	5820	140559856	40355404	105	90563											
PCDHB12	56124	broad.mit.edu	37	chr5	140588829	140588829	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaaccccacgcagttttTacaaattgagctccaggtca	14	9	7	11	1	1	1	1	1	0	0	2	2	2	1	3	1	3	3	3	1	4	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:140588829T>A	uc003liz.2	+	1	539	c.350T>A	c.(349-351)TTA>TAA	p.L117*	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	117	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACGCAGTTTTTACAAATTGAG	0.448													63	93					0	0	0.01441	0	0		A	140588829	A	A	140588829	4	1	174	1	0	0	0	0	0	1	0	0	11556	1764	61	5	352	5	PCDHB12	5	140588829	Nonsense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	28973	140588829	40326431	106	90564											
PCDHGA4	56111	broad.mit.edu	37	chr5	140734980	140734980	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgcatcgtctccagaggtagGacgcagcttttcgccctgaa	8	9	11	13	4	1	2	0	1	1	1	4	3	1	3	2	2	1	4	2	2	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:140734980G>A	uc003ljq.1	+	1	213	c.213G>A	c.(211-213)AGG>AGA	p.R71R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Silent_p.R71R	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	71	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGAGGTAGGACGCAGCTTT	0.637													7	132					0	0	0.00308	0	0		A	140734980	A	A	140734980	2	1	174	1	0	0	0	0	0	0	0	1	11575	1165	41	4		4	PCDHGA4	5	140734980	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	146151	140734980	40180280	107	90565											
KCTD16	57528	broad.mit.edu	37	chr5	143586929	143586929	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aaagcagagaccctgatcgaGccccagaaagatacacctcc	15	4	8	14	1	0	4	0	1	0	3	2	6	1	4	5	0	3	1	5	0	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:143586929G>A	uc003lnm.1	+	3	1281	c.652G>A	c.(652-654)GCC>ACC	p.A218T	KCTD16_uc003lnn.1_Missense_Mutation_p.A218T	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	218						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CCCTGATCGAGCCCCAGAAAG	0.443													6	52					0	0	0.001984	0	0		A	143586929	A	A	143586929	3	1	174	1	0	0	0	0	1	0	0	0	8119	971	34	2	654	2	KCTD16	5	143586929	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2851949	143586929	37328331	108	90566											
ADAM19	8728	broad.mit.edu	37	chr5	156918907	156918907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggaggtgttcctgcactgcCcctcaaagcaaatctgcacg	10	8	10	13	1	2	0	1	0	1	0	3	1	3	1	3	2	4	4	3	2	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:156918907C>T	uc003lwz.2	-	17	1986	c.1922G>A	c.(1921-1923)GGG>GAG	p.G641E	ADAM19_uc003lww.1_Missense_Mutation_p.G374E|ADAM19_uc003lwy.2_Missense_Mutation_p.G240E|ADAM19_uc011ddr.1_Missense_Mutation_p.G572E	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	641	Extracellular (Potential).|Cys-rich.				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	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)			CCTGCACTGCCCCTCAAAGCA	0.517													6	31					0	0	0.00308	0	0		T	156918907	T	T	156918907	3	4	174	1	0	0	0	0	1	0	0	0	240	623	22	4	862	4	ADAM19	5	156918907	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	13331978	156918907	23996353	109	90567											
GABRA1	2554	broad.mit.edu	37	chr5	161322838	161322838	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactatttcactaagagaggTtatgcatgggatggcaaaag	15	10	11	5	0	1	1	1	0	0	1	1	3	1	2	0	3	2	3	0	3	6	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:161322838T>G	uc010jiw.2	+	10	1491	c.1023T>G	c.(1021-1023)GGT>GGG	p.G341G	GABRA1_uc010jix.2_Silent_p.G341G|GABRA1_uc010jiy.2_Silent_p.G341G|GABRA1_uc003lyx.3_Silent_p.G341G|GABRA1_uc010jiz.2_Silent_p.G341G|GABRA1_uc010jja.2_Silent_p.G341G|GABRA1_uc010jjb.2_Silent_p.G341G	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	341	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	CTAAGAGAGGTTATGCATGGG	0.383													7	88					0	0	0.004482	0	0		G	161322838	G	G	161322838	2	3	174	1	0	0	0	0	0	0	0	1	6174	1712	60	5		5	GABRA1	5	161322838	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4403931	161322838	19592422	110	90568											
ZNF354C	30832	broad.mit.edu	37	chr5	178505938	178505938	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcttgaattggggaaaagcTtatttacaaatacagctctt	13	14	8	6	0	2	1	0	1	2	0	2	2	2	2	0	2	4	2	0	2	7	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr5:178505938T>C	uc003mju.2	+	5	620	c.505T>C	c.(505-507)TTA>CTA	p.L169L		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	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)		GGGGAAAAGCTTATTTACAAA	0.343													7	99					0	0	0.006214	0	0		C	178505938	C	C	178505938	2	2	174	1	0	0	0	0	0	0	0	1	17891	1606	56	3		3	ZNF354C	5	178505938	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	17183100	178505938	2409322	111	90569											
FAM65B	9750	broad.mit.edu	37	chr6	24873165	24873165	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtcaacttgtccagctccgTctggtgaacctccagatatt	8	13	8	12	1	2	2	1	1	1	1	5	2	5	2	4	1	3	1	4	1	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:24873165T>C	uc003neo.1	-	4	456	c.280A>G	c.(280-282)ACG>GCG	p.T94A	FAM65B_uc011djs.1_Missense_Mutation_p.T123A|FAM65B_uc011dju.1_Missense_Mutation_p.T128A|FAM65B_uc003nep.2_Missense_Mutation_p.T94A|FAM65B_uc011djt.1_Missense_Mutation_p.T94A	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	94	Potential.|Involved in cell filopodia formation.				cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						TCCAGCTCCGTCTGGTGAACC	0.408													31	15					0	0	0.003271	0	0		C	24873165	C	C	24873165	3	2	174	1	0	0	0	0	1	0	0	0	5614	1667	58	3	3016	3	FAM65B	6	24873165	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08		24873165	146241902	112	90570											
BAT2	7916	broad.mit.edu	37	chr6	31591675	31591675	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcaaacaggagcagtcCgaccccaagaggtagacaga	16	2	12	11	1	0	3	0	0	0	3	1	5	1	4	3	2	3	4	3	2	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:31591675C>T	uc003nvb.3	+	3	528	c.279C>T	c.(277-279)TCC>TCT	p.S93S	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Silent_p.S93S|BAT2_uc003nve.2_5'Flank	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	93	4 X 57 AA type A repeats.|1-1.					cytoplasm|nucleus	protein binding				0						AGGAGCAGTCCGACCCCAAGA	0.522													180	53					0	0	0.01441	0	0		T	31591675	T	T	31591675	2	4	174	1	0	0	0	0	0	0	0	1	1320	639	23	1		1	BAT2	6	31591675	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	6718510	31591675	139523392	113	90571											
VARS	7407	broad.mit.edu	37	chr6	31750409	31750409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcctcaaacctgggcaggCcctgggtaggaatgaggcct	8	7	15	11	0	1	1	1	1	0	0	1	2	1	2	4	6	1	2	4	6	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:31750409C>T	uc003nxe.2	-	16	2312	c.1889G>A	c.(1888-1890)GGC>GAC	p.G630D	VARS_uc003nxf.1_5'Flank|VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	630					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CCTGGGCAGGCCCTGGGTAGG	0.637													5	167					0	0	0.000602	0	0		T	31750409	T	T	31750409	3	4	174	1	0	0	0	0	1	0	0	0	17149	753	26	2	1965	2	VARS	6	31750409	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	158734	31750409	139364658	114	90572											
DNAH8	1769	broad.mit.edu	37	chr6	38783350	38783350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggcaacagcaaatccGtcccatcaagtctgtcattc	10	9	9	13	1	3	0	2	0	1	0	6	0	5	0	2	2	2	2	2	2	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:38783350G>A	uc003ooe.1	+	24	3389	c.2789G>A	c.(2788-2790)CGT>CAT	p.R930H		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CAGCAAATCCGTCCCATCAAG	0.463													6	24					0	0	0.001168	0	0		A	38783350	A	A	38783350	3	1	174	1	0	0	0	0	1	0	0	0	4613	1145	40	1	2875	1	DNAH8	6	38783350	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7032941	38783350	132331717	115	90573											
C6orf138	442213	broad.mit.edu	37	chr6	47846507	47846507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagctcaattgaggtgacGctaagaattagccagaagtt	13	9	10	9	1	1	4	1	2	0	2	1	4	1	4	2	1	2	3	2	1	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:47846507G>A	uc011dwm.1	-	3	2107	c.2022C>T	c.(2020-2022)AGC>AGT	p.S674S	C6orf138_uc011dwn.1_Silent_p.S438S	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	691	Helical; (Potential).					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						TTGAGGTGACGCTAAGAATTA	0.453													23	37					0	0	0.00333	0	0		A	47846507	A	A	47846507	2	1	174	1	0	0	0	0	0	0	0	1	2335	1078	38	1		1	C6orf138	6	47846507	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	9063157	47846507	123268560	116	90574											
TFAP2D	83741	broad.mit.edu	37	chr6	50712857	50712857	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcgggattttggctacacTtgtgaaacagagtttccagc	9	12	11	9	1	0	2	0	1	0	1	2	3	1	3	1	2	3	3	1	2	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:50712857T>C	uc003paf.2	+	6	1433	c.921T>C	c.(919-921)ACT>ACC	p.T307T	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	307	H-S-H (helix-span-helix), dimerization.						DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					TTGGCTACACTTGTGAAACAG	0.443													3	49					0	0	0.004672	0	0		C	50712857	C	C	50712857	2	2	174	1	0	0	0	0	0	0	0	1	15815	1596	56	3		3	TFAP2D	6	50712857	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2866350	50712857	120402210	117	90575											
DST	667	broad.mit.edu	37	chr6	56504281	56504281	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttcctagctatgttggtGtttctctcactccagtcata	6	19	6	10	0	3	0	2	0	1	0	6	0	5	0	2	1	1	3	2	1	3	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:56504281G>A	uc003pdf.2	-	20	2755	c.2727C>T	c.(2725-2727)AAC>AAT	p.N909N	DST_uc003pcz.3_Silent_p.N731N|DST_uc011dxj.1_Silent_p.N760N|DST_uc011dxk.1_Silent_p.N771N|DST_uc011dxl.1_Silent_p.N760N|DST_uc003pcy.3_Silent_p.N405N|DST_uc003pdb.2_Silent_p.N405N|DST_uc003pdc.3_Silent_p.N405N|DST_uc003pdd.3_Silent_p.N405N|DST_uc003pde.2_Silent_p.N847N	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	731	Spectrin 1.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CTATGTTGGTGTTTCTCTCAC	0.348													39	93					0	0	0.00874	0	0		A	56504281	A	A	56504281	2	1	174	1	0	0	0	0	0	0	0	1	4789	1368	48	4		4	DST	6	56504281	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	5791424	56504281	114610786	118	90576											
COL12A1	1303	broad.mit.edu	37	chr6	75799948	75799948	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtggacccggcgggcctggcTggttgcgactggactggtaa	5	8	18	10	3	0	0	0	0	0	0	0	3	0	2	2	7	1	3	2	7	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:75799948T>C	uc003phs.2	-	63	8985	c.8819A>G	c.(8818-8820)CAG>CGG	p.Q2940R	COL12A1_uc003pht.2_Missense_Mutation_p.Q1776R	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2940	Nonhelical region (NC2).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CGGGCCTGGCTGGTTGCGACT	0.572													14	325					0	0	0.00499	0	0		C	75799948	C	C	75799948	3	2	174	1	0	0	0	0	1	0	0	0	3672	1580	55	3	388	3	COL12A1	6	75799948	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	19295667	75799948	95315119	119	90577											
PGM3	5238	broad.mit.edu	37	chr6	83889610	83889610	+	Silent	SNP	A	G	G	1	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	agatgaaagtggccatctgcAtcatggtagtaataaacaat	16	10	9	6	0	2	2	1	1	1	1	2	2	2	2	1	2	2	3	1	2	6	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:83889610A>G	uc003pjv.2	-	7	904	c.864T>C	c.(862-864)GAT>GAC	p.D288D	PGM3_uc003pjw.2_Silent_p.D207D|PGM3_uc011dyz.1_Silent_p.D316D	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	288					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		GGCCATCTGCATCATGGTAGT	0.408													9	66					0	0	0.006214	0	0		G	83889610	G	G	83889610	2	3	174	1	0	0	0	0	0	0	0	1	11819	214	8	3		3	PGM3	6	83889610	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	8089662	83889610	87225457	120	90578											
MDN1	23195	broad.mit.edu	37	chr6	90405430	90405430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agccgaggctcacccagaggCtcccacgctgggctggctca	7	5	13	16	2	2	1	2	0	0	1	3	2	3	1	3	4	1	5	3	4	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:90405430C>T	uc003pnn.1	-	61	9781	c.9665G>A	c.(9664-9666)AGC>AAC	p.S3222N		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3222					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CACCCAGAGGCTCCCACGCTG	0.592													9	61					0	0	0.006214	0	0		T	90405430	T	T	90405430	3	4	174	1	0	0	0	0	1	0	0	0	9433	797	28	2	7293	2	MDN1	6	90405430	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	6515820	90405430	80709637	121	90579											
BEND3	57673	broad.mit.edu	37	chr6	107390518	107390518	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtccagacgcggtcgtttTtggcgcgtgggtagagcagc	5	9	18	9	5	0	2	0	0	0	2	2	2	1	2	1	4	2	3	1	4	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:107390518T>G	uc003prs.2	-	5	2527	c.1877A>C	c.(1876-1878)AAA>ACA	p.K626T		NM_001080450	NP_001073919	Q5T5X7	BEND3_HUMAN	BEN domain containing 3	626	BEN 3.									ovary(3)	3						GCGGTCGTTTTTGGCGCGTGG	0.642													3	28					0	0	0.009096	0	0		G	107390518	G	G	107390518	3	3	174	1	0	0	0	0	1	0	0	0	1400	1841	64	5	613	5	BEND3	6	107390518	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	16985088	107390518	63724549	122	90580											
RWDD1	51389	broad.mit.edu	37	chr6	116911490	116911490	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcttaaattggaaagccaAgtttgatgcagaactcttgg	12	14	9	6	0	2	2	0	1	2	1	2	3	2	3	1	2	3	2	1	2	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:116911490A>C	uc003pxd.2	+	5	633	c.470A>C	c.(469-471)AAG>ACG	p.K157T	RWDD1_uc003pxb.2_Missense_Mutation_p.K61T|RWDD1_uc003pxc.2_Missense_Mutation_p.K61T	NM_015952	NP_057036	Q9H446	RWDD1_HUMAN	RWD domain containing 1 isoform a	157	Interaction with DRG2 (By similarity).						protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.0312)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)|Epithelial(106;0.161)		TGGAAAGCCAAGTTTGATGCA	0.328													5	55					0	0	0.001168	0	0		C	116911490	C	C	116911490	3	2	174	1	0	0	0	0	1	0	0	0	13779	72	3	5	488	5	RWDD1	6	116911490	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	9520972	116911490	54203577	123	90581											
ROS1	6098	broad.mit.edu	37	chr6	117632217	117632217	+	Missense_Mutation	SNP	A	C	C	1	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	catccgttccaagtagacacAgccttttgaaatatctacac	13	11	5	12	1	1	2	0	1	1	1	3	2	3	2	3	0	2	2	3	0	5	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:117632217A>C	uc003pxp.1	-	39	6398	c.6199T>G	c.(6199-6201)TGT>GGT	p.C2067G	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2067	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	membrane fraction|sodium:potassium-exchanging ATPase complex	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(8)|ovary(6)|central_nervous_system(3)|skin(3)|stomach(2)|breast(2)|large_intestine(1)	25		all_cancers(87;0.00846)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0387)|OV - Ovarian serous cystadenocarcinoma(136;0.0954)|all cancers(137;0.137)		AAGTAGACACAGCCTTTTGAA	0.383			T	GOPC|ROS1	glioblastoma|NSCLC								9	83					0	0	0.010729	0	0		C	117632217	C	C	117632217	3	2	174	1	0	0	0	0	1	0	0	0	13556	188	7	5	864	5	ROS1	6	117632217	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	720727	117632217	53482850	124	90582											
C6orf58	352999	broad.mit.edu	37	chr6	127911272	127911272	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagcgcattttgagagaAgttgggtactggctgtggat	10	11	15	5	1	0	3	0	1	0	2	0	5	0	4	0	3	2	4	0	3	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:127911272A>C	uc003qbh.2	+	5	727	c.715A>C	c.(715-717)AGT>CGT	p.S239R		NM_001010905	NP_001010905	Q6P5S2	CF058_HUMAN	hypothetical protein LOC352999 precursor	239						extracellular region					0				GBM - Glioblastoma multiforme(226;0.0405)|all cancers(137;0.156)		TTTTGAGAGAAGTTGGGTACT	0.373													73	15					0	0	0.01441	0	0		C	127911272	C	C	127911272	3	2	174	1	0	0	0	0	1	0	0	0	2370	72	3	5	733	5	C6orf58	6	127911272	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	10279055	127911272	43203795	125	90583											
LAMA2	3908	broad.mit.edu	37	chr6	129636643	129636644	+	Missense_Mutation	DNP	CC	AT	AT																															gactctgaaggctgagcagaCcattctacccctggtagatg																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:129636643_129636644CC>AT	uc003qbn.2	+	25	3683_3684	c.3578_3579CC>AT	c.(3577-3579)ACC>AAT	p.T1193N	LAMA2_uc003qbo.2_Missense_Mutation_p.T1193N	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1193	Laminin IV type A 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GCTGAGCAGACCATTCTACCCC	0.47													4	82					0	0	0.004672	0	0		AT	129636644	AT	AT	129636643	3	1	174	1	0	0	0	0	1	0	0	0	8622	507	18	5	3676	5	LAMA2	6	129636643	Missense_Mutation	DNP	CC	TCGA-D7-6528-01A-11D-1800-08	1725371	129636643	41478424	126	90584											
OLIG3	167826	broad.mit.edu	37	chr6	137814944	137814944	+	Missense_Mutation	SNP	A	T	T	1	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	caggagtgtggcgatcttggAgagcttgcgcaccgacggcc	7	7	16	11	4	1	1	0	0	1	1	1	5	1	2	2	4	2	2	2	4	0	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:137814944A>T	uc003qhp.1	-	1	588	c.364T>A	c.(364-366)TCC>ACC	p.S122T		NM_175747	NP_786923	Q7RTU3	OLIG3_HUMAN	oligodendrocyte transcription factor 3	122	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0	Breast(32;0.165)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00161)|OV - Ovarian serous cystadenocarcinoma(155;0.00447)		GCGATCTTGGAGAGCTTGCGC	0.617													7	83					0	0	0.001984	0	0		T	137814944	T	T	137814944	3	4	174	1	0	0	0	0	1	0	0	0	10881	304	11	5	458	5	OLIG3	6	137814944	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	8178301	137814944	33300123	127	90585											
SYNE1	23345	broad.mit.edu	37	chr6	152603109	152603109	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctccagctgatcattcaActtctcctgttgaattcagt	8	16	5	12	0	4	2	3	2	1	0	7	2	6	2	3	0	2	2	3	0	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:152603109A>C	uc010kiw.2	-	97	18816	c.18214T>G	c.(18214-18216)TTG>GTG	p.L6072V	SYNE1_uc010kiv.2_Missense_Mutation_p.L596V|SYNE1_uc003qos.3_Missense_Mutation_p.L596V|SYNE1_uc003qot.3_Missense_Mutation_p.L6001V|SYNE1_uc003qou.3_Missense_Mutation_p.L6072V|SYNE1_uc010kiy.1_Missense_Mutation_p.L251V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6072	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TGATCATTCAACTTCTCCTGT	0.403										HNSCC(10;0.0054)			27	11					0	0	0.00632	0	0		C	152603109	C	C	152603109	3	2	174	1	0	0	0	0	1	0	0	0	15470	40	2	5	8452	5	SYNE1	6	152603109	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	14788165	152603109	18511958	128	90586											
TTLL2	83887	broad.mit.edu	37	chr6	167754541	167754541	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaacttgaaaccatggcttTtagaggtcaactacagccca	14	9	7	11	0	1	2	1	1	0	1	1	2	1	2	2	2	5	1	2	2	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr6:167754541T>G	uc003qvs.1	+	3	1241	c.1153T>G	c.(1153-1155)TTA>GTA	p.L385V	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	385	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		ACCATGGCTTTTAGAGGTCAA	0.413													24	188					0	0	0.00333	0	0		G	167754541	G	G	167754541	3	3	174	1	0	0	0	0	1	0	0	0	16753	1838	64	5	1163	5	TTLL2	6	167754541	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	15151432	167754541	3360526	129	90587											
DNAH11	8701	broad.mit.edu	37	chr7	21631031	21631031	+	Nonsense_Mutation	SNP	A	T	T	1	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	agcgcacacagaaaaacgtgAaggtgatccagcagaccatg	16	4	11	10	2	0	4	0	2	0	2	1	4	1	4	2	1	3	2	2	1	3	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:21631031A>T	uc003svc.2	+	14	2534	c.2503A>T	c.(2503-2505)AAG>TAG	p.K835*		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	835	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GAAAAACGTGAAGGTGATCCA	0.602									Kartagener_syndrome				16	49					0	0	0.004007	0	0		T	21631031	T	T	21631031	4	4	174	1	0	0	0	0	0	1	0	0	4605	247	9	5	2557	5	DNAH11	7	21631031	Nonsense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08		21631031	137507632	130	90588											
CCDC129	223075	broad.mit.edu	37	chr7	31690791	31690791	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggaagccatgaagacgatAtgccaaagtttccgggagta	14	8	12	7	2	0	2	0	1	0	1	1	5	1	4	3	2	2	2	3	2	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:31690791A>T	uc003tcj.1	+	12	3612	c.2619A>T	c.(2617-2619)ATA>ATT	p.I873I	CCDC129_uc011kad.1_Silent_p.I883I|CCDC129_uc003tci.1_Silent_p.I724I|CCDC129_uc011kae.1_Silent_p.I899I|CCDC129_uc003tck.1_Silent_p.I781I	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	873											0						TGAAGACGATATGCCAAAGTT	0.463													51	73					0	0	0.01441	0	0		T	31690791	T	T	31690791	2	4	174	1	0	0	0	0	0	0	0	1	2767	439	16	5		5	CCDC129	7	31690791	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	10059760	31690791	127447872	131	90589											
POU6F2	11281	broad.mit.edu	37	chr7	39247145	39247145	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacactgccaacagcgaatcTcaccaacatccaagggctgg	13	5	8	15	1	1	0	1	0	1	0	3	1	2	0	3	2	4	1	3	2	4	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:39247145T>C	uc003thb.1	+	4	479	c.437T>C	c.(436-438)CTC>CCC	p.L146P	POU6F2_uc010kxo.2_Missense_Mutation_p.L138P	NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	146					central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						ACAGCGAATCTCACCAACATC	0.567													7	89					0	0	0.001984	0	0		C	39247145	C	C	39247145	3	2	174	1	0	0	0	0	1	0	0	0	12304	1551	54	3	451	3	POU6F2	7	39247145	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	7556354	39247145	119891518	132	90590											
IGFBP3	3486	broad.mit.edu	37	chr7	45956889	45956889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgtagtcaactttgtagcGctggctgtctttagcatgcc	6	14	10	11	2	2	0	1	0	1	0	3	0	2	0	1	1	4	5	1	1	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:45956889G>A	uc003tns.2	-	2	685	c.553C>T	c.(553-555)CGC>TGC	p.R185C	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Missense_Mutation_p.R191C|IGFBP3_uc003tnt.2_Missense_Mutation_p.R88C	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	185					negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	ACTTTGTAGCGCTGGCTGTCT	0.507											OREG0018049	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	93	97					0	0	0.01441	0	0		A	45956889	A	A	45956889	3	1	174	1	0	0	0	0	1	0	0	0	7596	1087	38	1	334	1	IGFBP3	7	45956889	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	6709744	45956889	113181774	133	90591											
HUS1	3364	broad.mit.edu	37	chr7	48018032	48018032	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accagctccacggagaccgtGaggcagggaaagtgtttatt	11	8	13	9	2	0	2	0	1	0	1	1	4	1	3	3	3	1	3	3	3	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:48018032G>A	uc003tod.1	-	3	469	c.339C>T	c.(337-339)CTC>CTT	p.L113L	HUS1_uc003toe.1_Silent_p.L113L|HUS1_uc011kce.1_RNA	NM_004507	NP_004498	O60921	HUS1_HUMAN	HUS1 checkpoint protein	113					DNA damage checkpoint|DNA replication	Golgi apparatus|nucleolus|nucleoplasm	protein binding			ovary(2)|lung(2)|kidney(1)	5		Breast(660;0.00139)				CGGAGACCGTGAGGCAGGGAA	0.448								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					4	84					0	0	0.009096	0	0		A	48018032	A	A	48018032	2	1	174	1	0	0	0	0	0	0	0	1	7475	1277	45	4		4	HUS1	7	48018032	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2061143	48018032	111120631	134	90592											
PSPH	5723	broad.mit.edu	37	chr7	56087373	56087373	+	Silent	SNP	G	C	C	0	0	1	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	gagggctggatgagggctaaGcgctctgtgagagcagcttt	8	9	17	7	1	1	2	0	2	1	1	1	5	1	3	0	3	3	5	0	3	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:56087373G>C	uc003trg.2	-	4	558	c.195C>G	c.(193-195)CGC>CGG	p.R65R	PSPH_uc003trh.2_Silent_p.R65R|PSPH_uc003tri.2_Silent_p.R65R|PSPH_uc003trj.2_Silent_p.R94R	NM_004577	NP_004568	P78330	SERB_HUMAN	phosphoserine phosphatase	65		Substrate.		R->A,K: Loss of activity.	L-serine biosynthetic process	cytoplasm	calcium ion binding|magnesium ion binding|phosphoserine phosphatase activity|protein homodimerization activity			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			TGAGGGCTAAGCGCTCTGTGA	0.632													22	25					0	0	0.00278	0	0		C	56087373	C	C	56087373	2	2	174	1	0	0	0	0	0	0	0	1	12739	958	34	5		5	PSPH	7	56087373	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	8069341	56087373	103051290	135	90593											
ZNF273	10793	broad.mit.edu	37	chr7	64388278	64388278	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	taaagtccttcataaattctCaaattcaaatatacataaga	19	13	2	7	0	3	1	3	0	1	1	5	1	4	1	1	0	1	0	1	0	9	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:64388278C>G	uc003tto.2	+	4	648	c.572C>G	c.(571-573)TCA>TGA	p.S191*	ZNF273_uc003ttl.2_Nonsense_Mutation_p.S126*|ZNF273_uc003ttn.2_Nonsense_Mutation_p.S126*	NM_021148	NP_066971	Q14593	ZN273_HUMAN	zinc finger protein 273	191					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(55;0.0295)|all_lung(88;0.0691)				CATAAATTCTCAAATTCAAAT	0.308													32	47					0	0	0.013726	0	0		G	64388278	G	G	64388278	4	3	174	1	0	0	0	0	0	1	0	0	17833	838	29	5	586	5	ZNF273	7	64388278	Nonsense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	8300905	64388278	94750385	136	90594											
SEMA3A	10371	broad.mit.edu	37	chr7	83631275	83631275	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaagcagcactcacccgaAaaactgtcatttcttccagc	13	10	5	13	1	3	0	2	0	1	0	4	1	4	0	2	0	4	2	2	0	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:83631275A>C	uc003uhz.2	-	12	1763	c.1448T>G	c.(1447-1449)TTT>TGT	p.F483C		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	483	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						ACTCACCCGAAAAACTGTCAT	0.418													3	46					0	0	0.004672	0	0		C	83631275	C	C	83631275	3	2	174	1	0	0	0	0	1	0	0	0	14049	14	1	5	891	5	SEMA3A	7	83631275	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	19242997	83631275	75507388	137	90595											
GRM3	2913	broad.mit.edu	37	chr7	86468386	86468386	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtgcccccaatgaaatgaAgaatatgcaaccaggggatg	14	7	11	9	0	0	3	0	2	0	1	0	4	0	4	3	2	3	1	3	2	6	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:86468386A>C	uc003uid.2	+	4	2655	c.1556A>C	c.(1555-1557)AAG>ACG	p.K519T	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.K391T|GRM3_uc010leh.2_Missense_Mutation_p.K111T	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	519	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	AATGAAATGAAGAATATGCAA	0.522													53	79					0	0	0.01441	0	0		C	86468386	C	C	86468386	3	2	174	1	0	0	0	0	1	0	0	0	6814	72	3	5	1566	5	GRM3	7	86468386	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2837111	86468386	72670277	138	90596											
KIAA1324L	222223	broad.mit.edu	37	chr7	86539263	86539263	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcatctgaccctgccactaTttcttttactgtaaagtctg	9	16	5	11	0	4	1	1	1	3	0	4	1	4	1	2	0	2	1	2	0	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:86539263T>G	uc011kha.1	-	16	2409	c.2224A>C	c.(2224-2226)ATA>CTA	p.I742L	KIAA1324L_uc003uif.1_Missense_Mutation_p.I502L|KIAA1324L_uc011kgz.1_Missense_Mutation_p.I628L|KIAA1324L_uc003uie.2_Missense_Mutation_p.I575L	NM_001142749	NP_001136221	A8MWY0	K132L_HUMAN	hypothetical protein LOC222223 isoform 1	742	Extracellular (Potential).					integral to membrane				ovary(6)|skin(1)	7	Esophageal squamous(14;0.0058)					CCTGCCACTATTTCTTTTACT	0.378													24	49					0	0	0.00333	0	0		G	86539263	G	G	86539263	3	3	174	1	0	0	0	0	1	0	0	0	8240	1493	52	5	893	5	KIAA1324L	7	86539263	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	70877	86539263	72599400	139	90597											
CDK14	5218	broad.mit.edu	37	chr7	90675256	90675256	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatggcctggagttcattcTttaccacattttaagccagg	10	13	8	10	0	2	0	1	0	1	0	2	1	2	1	3	3	2	1	3	3	2	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:90675256T>A	uc003uky.2	+	11	1308	c.1086T>A	c.(1084-1086)TCT>TCA	p.S362S	CDK14_uc003ukz.1_Silent_p.S344S|CDK14_uc010les.1_Silent_p.S316S|CDK14_uc011khl.1_Silent_p.S233S	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	362	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GAGTTCATTCTTTACCACATT	0.383													4	55					0	0	0.009096	0	0		A	90675256	A	A	90675256	2	1	174	1	0	0	0	0	0	0	0	1	3133	1596	56	5		5	CDK14	7	90675256	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4135993	90675256	68463407	140	90598											
DYNC1I1	1780	broad.mit.edu	37	chr7	95664938	95664938	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgtgttttggtaggagagcaTggagctggtgtacaataagt	10	12	15	4	1	0	1	0	0	0	1	0	3	0	2	0	4	3	5	0	4	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:95664938T>C	uc003uoc.3	+	13	1566	c.1289T>C	c.(1288-1290)ATG>ACG	p.M430T	DYNC1I1_uc003uod.3_Missense_Mutation_p.M413T|DYNC1I1_uc003uob.2_Missense_Mutation_p.M393T|DYNC1I1_uc003uoe.3_Missense_Mutation_p.M410T|DYNC1I1_uc010lfl.2_Missense_Mutation_p.M419T	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	430					vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TAGGAGAGCATGGAGCTGGTG	0.468													70	74					0	0	0.01441	0	0		C	95664938	C	C	95664938	3	2	174	1	0	0	0	0	1	0	0	0	4848	1464	51	3	1335	3	DYNC1I1	7	95664938	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4989682	95664938	63473725	141	90599											
ACHE	43	broad.mit.edu	37	chr7	100490117	100490117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccaggagagcgtggaagcaCggtgttcaaagacgtaggcg	11	5	17	8	4	1	2	1	0	0	2	1	4	1	3	1	4	2	3	1	4	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:100490117C>T	uc003uxd.2	-	2	1547	c.1391G>A	c.(1390-1392)CGT>CAT	p.R464H	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Missense_Mutation_p.R464H|ACHE_uc003uxf.2_Missense_Mutation_p.R464H|ACHE_uc003uxg.2_Missense_Mutation_p.R464H|ACHE_uc003uxh.2_Missense_Mutation_p.R376H|ACHE_uc003uxi.2_Missense_Mutation_p.R464H	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	464					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	CGTGGAAGCACGGTGTTCAAA	0.647													36	34					0	0	0.005524	0	0		T	100490117	T	T	100490117	3	4	174	1	0	0	0	0	1	0	0	0	141	536	19	1	600	1	ACHE	7	100490117	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4825179	100490117	58648546	142	90600											
RELN	5649	broad.mit.edu	37	chr7	103191603	103191603	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgctggggtggtgctcGgtggagcataaagagctgac	7	9	18	7	1	0	2	0	1	0	1	1	3	0	3	0	5	5	5	0	5	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:103191603G>A	uc003vca.2	-	41	6373	c.6213C>T	c.(6211-6213)ACC>ACT	p.T2071T	RELN_uc010liz.2_Silent_p.T2071T	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2071					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GGTGGTGCTCGGTGGAGCATA	0.602													27	35					0	0	0.004656	0	0		A	103191603	A	A	103191603	2	1	174	1	0	0	0	0	0	0	0	1	13245	1103	39	1		1	RELN	7	103191603	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2701486	103191603	55947060	143	90601											
RELN	5649	broad.mit.edu	37	chr7	103338447	103338447	+	Silent	SNP	A	G	G	1	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	tacacttcacctacacgaagAttttcctgcttccactgaaa	12	12	4	13	1	1	2	1	1	0	1	3	3	3	2	3	0	3	1	3	0	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:103338447A>G	uc003vca.2	-	10	1156	c.996T>C	c.(994-996)AAT>AAC	p.N332N	RELN_uc010liz.2_Silent_p.N332N	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	332					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTACACGAAGATTTTCCTGCT	0.463													19	182					0	0	0.006122	0	0		G	103338447	G	G	103338447	2	3	174	1	0	0	0	0	0	0	0	1	13245	330	12	3		3	RELN	7	103338447	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	146844	103338447	55800216	144	90602											
PIK3CG	5294	broad.mit.edu	37	chr7	106545572	106545572	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggacatctgtgttaaggctTatctagcccttcgtcatcac	9	13	8	11	1	4	0	2	0	2	0	5	1	4	1	1	2	1	2	1	2	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:106545572T>C	uc003vdv.3	+	11	3134	c.3049T>C	c.(3049-3051)TAT>CAT	p.Y1017H	PIK3CG_uc003vdu.2_Missense_Mutation_p.Y1017H|PIK3CG_uc003vdw.2_Missense_Mutation_p.Y1017H	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	1017	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TGTTAAGGCTTATCTAGCCCT	0.398													91	107					0	0	0.01441	0	0		C	106545572	C	C	106545572	3	2	174	1	0	0	0	0	1	0	0	0	11935	1754	61	3	3087	3	PIK3CG	7	106545572	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	3207125	106545572	52593091	145	90603											
COG5	10466	broad.mit.edu	37	chr7	106924093	106924093	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cccgggggaaaaaccaagttGataggatcgaagagtcgaga	15	5	14	7	3	0	3	0	1	0	2	2	7	0	5	2	3	1	1	2	3	5	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:106924093G>C	uc003ved.2	-	13	2016	c.1491C>G	c.(1489-1491)ATC>ATG	p.I497M	COG5_uc003vec.2_Missense_Mutation_p.I497M|COG5_uc003vee.2_Missense_Mutation_p.I497M	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	497					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						AAACCAAGTTGATAGGATCGA	0.388													20	116					0	0	0.012319	0	0		C	106924093	C	C	106924093	3	2	174	1	0	0	0	0	1	0	0	0	3664	1280	45	5	1135	5	COG5	7	106924093	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	378521	106924093	52214570	146	90604											
FOXP2	93986	broad.mit.edu	37	chr7	114303506	114303506	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatattttttttttcagaAgtccaaccttagtaaaaaat	15	18	3	5	0	1	1	1	0	0	1	2	1	2	1	2	0	1	1	2	0	9	10			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:114303506A>C	uc003vhb.2	+	15	2145	c.1771A>C	c.(1771-1773)AGT>CGT	p.S591R	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Missense_Mutation_p.S616R|FOXP2_uc003vha.2_Missense_Mutation_p.S499R|FOXP2_uc011kmu.1_Missense_Mutation_p.S608R|FOXP2_uc011kmv.1_Missense_Mutation_p.S590R|FOXP2_uc010ljz.1_Missense_Mutation_p.S406R|FOXP2_uc003vhe.1_Missense_Mutation_p.S161R	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	591	Fork-head.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						TTTTTTCAGAAGTCCAACCTT	0.333													40	44					0	0	0.006999	0	0		C	114303506	C	C	114303506	3	2	174	1	0	0	0	0	1	0	0	0	6041	86	3	5	1992	5	FOXP2	7	114303506	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	7379413	114303506	44835157	147	90605											
LMOD2	442721	broad.mit.edu	37	chr7	123302861	123302861	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccaaaactccccaaaaaagtCcagactgtgaggagccgtcc	14	5	8	14	1	0	2	0	1	0	1	3	3	3	3	6	1	2	0	6	1	5	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:123302861C>T	uc003vky.2	+	2	1378	c.1221C>T	c.(1219-1221)GTC>GTT	p.V407V		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	407	Pro-rich.					cytoskeleton	actin binding|tropomyosin binding				0						CCAAAAAAGTCCAGACTGTGA	0.363													5	70					0	0	0.001168	0	0		T	123302861	T	T	123302861	2	4	174	1	0	0	0	0	0	0	0	1	8874	842	30	4		4	LMOD2	7	123302861	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	8999355	123302861	35835802	148	90606											
SLC37A3	84255	broad.mit.edu	37	chr7	140082276	140082276	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacactacaacatgatgatgGctgaactgggacagcagaga	16	6	11	8	0	0	4	0	3	0	1	0	6	0	5	0	2	5	2	0	2	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr7:140082276G>A	uc003vvo.2	-	2	217	c.51C>T	c.(49-51)AGC>AGT	p.S17S	SLC37A3_uc003vvp.2_Silent_p.S17S|SLC37A3_uc010lnh.2_Silent_p.S17S|SLC37A3_uc011kqz.1_RNA|SLC37A3_uc011kra.1_Silent_p.S17S|SLC37A3_uc011krb.1_Silent_p.S17S	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	17	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					CATGATGATGGCTGAACTGGG	0.443													24	58					0	0	0.005443	0	0		A	140082276	A	A	140082276	2	1	174	1	0	0	0	0	0	0	0	1	14624	1194	42	2		2	SLC37A3	7	140082276	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	16779415	140082276	19056387	149	90607											
SLC7A2	6542	broad.mit.edu	37	chr8	17409284	17409284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttccttaggtgaagaagttCggaatccccagaaagctatt	12	12	9	8	1	0	3	0	1	0	2	3	4	2	4	3	2	1	2	3	2	6	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:17409284C>T	uc011kyc.1	+	6	1013	c.844C>T	c.(844-846)CGG>TGG	p.R282W	SLC7A2_uc011kyd.1_Missense_Mutation_p.R322W|SLC7A2_uc011kye.1_Missense_Mutation_p.R322W|SLC7A2_uc011kyf.1_Missense_Mutation_p.R282W	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2	282	Cytoplasmic (Potential).				cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	TGAAGAAGTTCGGAATCCCCA	0.368													49	44					0	0	0.01441	0	0		T	17409284	T	T	17409284	3	4	174	1	0	0	0	0	1	0	0	0	14722	875	31	1	986	1	SLC7A2	8	17409284	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08		17409284	128954738	150	90608											
LZTS1	11178	broad.mit.edu	37	chr8	20112401	20112401	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggggtgtggacgggtcaaAgtccaccccagcctggcccc	6	5	16	14	1	1	0	1	0	0	0	2	1	2	1	6	6	1	0	6	6	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:20112401A>C	uc003wzr.2	-	1	403	c.292T>G	c.(292-294)TTT>GTT	p.F98V	LZTS1_uc010ltg.1_Missense_Mutation_p.F98V	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	98					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GACGGGTCAAAGTCCACCCCA	0.592													4	31					0	0	0.009096	0	0		C	20112401	C	C	20112401	3	2	174	1	0	0	0	0	1	0	0	0	9156	72	3	5	1510	5	LZTS1	8	20112401	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2703117	20112401	126251621	151	90609											
PDLIM2	64236	broad.mit.edu	37	chr8	22442530	22442530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacagtcactctctccacagGgctccgtgaggacatacact	10	8	8	15	1	2	1	1	1	1	0	5	2	4	2	2	2	1	1	2	2	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:22442530G>A	uc003xby.2	+	5	716	c.316G>A	c.(316-318)GGC>AGC	p.G106S	PDLIM2_uc003xbx.1_Missense_Mutation_p.G106S|PDLIM2_uc003xbz.2_Missense_Mutation_p.G106S|PDLIM2_uc003xca.2_Missense_Mutation_p.G106S|PDLIM2_uc003xcb.2_Missense_Mutation_p.G106S|PDLIM2_uc003xcc.1_Missense_Mutation_p.G106S	NM_021630	NP_067643	Q96JY6	PDLI2_HUMAN	PDZ and LIM domain 2 isoform 2	106						actin cytoskeleton|cell surface|cytoplasm|focal adhesion|nucleus	zinc ion binding				0		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00579)|Colorectal(74;0.0152)|COAD - Colon adenocarcinoma(73;0.0626)		CTCTCCACAGGGCTCCGTGAG	0.637													4	48					0	0	0.001168	0	0		A	22442530	A	A	22442530	3	1	174	1	0	0	0	0	1	0	0	0	11699	1246	43	4	330	4	PDLIM2	8	22442530	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2330129	22442530	123921492	152	90610											
FBXO16	157574	broad.mit.edu	37	chr8	28309947	28309947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcctctggagaattgcttGtaactagttgaacgtcagcg	9	14	10	8	2	2	2	1	1	1	1	3	3	3	2	1	1	4	3	1	1	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:28309947G>A	uc003xgu.2	-	6	652	c.554C>T	c.(553-555)ACA>ATA	p.T185I	ZNF395_uc003xgt.2_5'UTR|FBXO16_uc003xgv.2_Missense_Mutation_p.T172I|FBXO16_uc003xgw.2_Missense_Mutation_p.T172I	NM_172366	NP_758954	Q8IX29	FBX16_HUMAN	F-box only protein 16	185										ovary(1)	1		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)		AGAATTGCTTGTAACTAGTTG	0.378													6	38					0	0	0.001168	0	0		A	28309947	A	A	28309947	3	1	174	1	0	0	0	0	1	0	0	0	5743	1377	48	4	340	4	FBXO16	8	28309947	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	5867417	28309947	118054075	153	90611											
FUT10	84750	broad.mit.edu	37	chr8	33246606	33246606	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgagagctgtcagaagtcGctggttagagatctcaccct	9	10	11	11	1	2	3	2	1	1	3	4	5	2	3	2	1	1	3	2	1	2	1	rs139904591	by1000genomes	TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:33246606G>A	uc003xje.2	-	4	1443	c.1087C>T	c.(1087-1089)CGA>TGA	p.R363*	FUT10_uc003xjc.2_Nonsense_Mutation_p.R370*|FUT10_uc003xjd.2_Nonsense_Mutation_p.R335*|FUT10_uc011lbi.1_Nonsense_Mutation_p.R413*|FUT10_uc003xjf.2_Nonsense_Mutation_p.R301*|FUT10_uc003xjg.2_Nonsense_Mutation_p.R335*|FUT10_uc003xjh.2_Nonsense_Mutation_p.R363*	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	363	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		GTCAGAAGTCGCTGGTTAGAG	0.493													9	60					0	0	0.004482	0	0		A	33246606	A	A	33246606	4	1	174	1	0	0	0	0	0	1	0	0	6116	1095	38	1	360	1	FUT10	8	33246606	Nonsense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	4936659	33246606	113117416	154	90612											
GOT1L1	137362	broad.mit.edu	37	chr8	37791994	37791994	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcctgaccaggtattcCacctgctgggctaaaatcat	9	13	7	12	0	2	1	1	1	1	0	4	1	4	1	4	2	1	3	4	2	3	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:37791994C>T	uc011lbj.1	-	9	1183	c.1083G>A	c.(1081-1083)GTG>GTA	p.V361V		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	361					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			CCAGGTATTCCACCTGCTGGG	0.418													19	107					0	0	0.008871	0	0		T	37791994	T	T	37791994	2	4	174	1	0	0	0	0	0	0	0	1	6595	581	21	4		4	GOT1L1	8	37791994	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4545388	37791994	108572028	155	90613											
FAM110B	90362	broad.mit.edu	37	chr8	59059700	59059700	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggctaattctgacataaTatccctcaacttccgcagcg	12	10	7	12	2	2	1	1	1	1	0	4	1	4	1	2	1	2	2	2	1	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:59059700T>C	uc003xtj.1	+	5	1791	c.911T>C	c.(910-912)ATA>ACA	p.I304T		NM_147189	NP_671722	Q8TC76	F110B_HUMAN	hypothetical protein LOC90362	304						microtubule organizing center|mitochondrion|nucleus				large_intestine(1)	1		all_epithelial(80;0.025)|all_lung(136;0.0274)|Lung NSC(129;0.0355)				TCTGACATAATATCCCTCAAC	0.498													50	50					0	0	0.01441	0	0		C	59059700	C	C	59059700	3	2	174	1	0	0	0	0	1	0	0	0	5408	1406	49	3	913	3	FAM110B	8	59059700	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	21267706	59059700	87304322	156	90614											
CNBD1	168975	broad.mit.edu	37	chr8	88365898	88365898	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acttgtttatatggggaaacTtaaggagaaggagtcctttg	12	13	12	4	0	0	1	0	0	0	1	1	4	1	3	1	4	1	1	1	4	5	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:88365898T>C	uc003ydy.2	+	10	1235	c.1187T>C	c.(1186-1188)CTT>CCT	p.L396P		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	396	cNMP.									ovary(3)	3						ATGGGGAAACTTAAGGAGAAG	0.323													32	62					0	0	0.003271	0	0		C	88365898	C	C	88365898	3	2	174	1	0	0	0	0	1	0	0	0	3594	1609	56	3	1225	3	CNBD1	8	88365898	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	29306198	88365898	57998124	157	90615											
MMP16	4325	broad.mit.edu	37	chr8	89058904	89058904	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acatgttgcataccattttcTttgtgtacaaatgctccctg	9	16	6	10	0	1	0	0	0	1	0	2	0	2	0	2	0	4	4	2	0	3	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:89058904T>A	uc003yeb.3	-	9	1764	c.1482A>T	c.(1480-1482)AAA>AAT	p.K494N		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	494	Hemopexin-like 4.|Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						TACCATTTTCTTTGTGTACAA	0.393													20	65					0	0	0.007413	0	0		A	89058904	A	A	89058904	3	1	174	1	0	0	0	0	1	0	0	0	9673	1606	56	5	349	5	MMP16	8	89058904	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	693006	89058904	57305118	158	90616											
C8orf47	203111	broad.mit.edu	37	chr8	99101943	99101943	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atctccagaaatattggaagGaagtcagtttgtggaaacag	15	10	11	5	0	2	1	1	0	1	1	3	4	2	4	1	3	1	1	1	3	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:99101943G>C	uc003yih.1	+	2	846	c.698G>C	c.(697-699)GGA>GCA	p.G233A		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	233	Glu-rich.										0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			ATATTGGAAGGAAGTCAGTTT	0.468													16	25					0	0	0.004007	0	0		C	99101943	C	C	99101943	3	2	174	1	0	0	0	0	1	0	0	0	2435	1174	41	5	704	5	C8orf47	8	99101943	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	10043039	99101943	47262079	159	90617											
SPAG1	6674	broad.mit.edu	37	chr8	101252743	101252743	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagaagaccctgagaaacTtccgatagccaagcctaata	16	6	7	12	1	0	3	0	1	0	3	1	5	1	3	5	0	3	0	5	0	6	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:101252743T>G	uc003yjh.1	+	18	2479	c.2393T>G	c.(2392-2394)CTT>CGT	p.L798R	SPAG1_uc003yji.1_Missense_Mutation_p.L798R	NM_172218	NP_757367	Q07617	SPAG1_HUMAN	sperm associated antigen 1	798					single fertilization	cytoplasm	GTP binding|hydrolase activity			ovary(2)|central_nervous_system(1)	3	all_cancers(14;2.35e-05)|all_epithelial(15;5.2e-08)|Lung NSC(17;0.000283)|all_lung(17;0.000823)	Breast(495;0.195)	Epithelial(11;1.12e-09)|all cancers(13;1.26e-07)|OV - Ovarian serous cystadenocarcinoma(57;4.37e-05)|STAD - Stomach adenocarcinoma(118;0.0525)	KIRC - Kidney renal clear cell carcinoma(542;0.00178)|READ - Rectum adenocarcinoma(644;0.236)		CCTGAGAAACTTCCGATAGCC	0.488													20	53					0	0	0.007413	0	0		G	101252743	G	G	101252743	3	3	174	1	0	0	0	0	1	0	0	0	15000	1609	56	5	2459	5	SPAG1	8	101252743	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2150800	101252743	45111279	160	90618											
TM7SF4	81501	broad.mit.edu	37	chr8	105361735	105361735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtagattatctgctgtatCggctcattttctcagtgagc	7	16	9	9	1	3	2	2	1	2	1	5	2	3	2	0	1	2	4	0	1	3	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:105361735C>T	uc003ylx.1	+	2	1004	c.955C>T	c.(955-957)CGG>TGG	p.R319W		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	319					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TCTGCTGTATCGGCTCATTTT	0.473													147	148					0	0	0.01441	0	0		T	105361735	T	T	105361735	3	4	174	1	0	0	0	0	1	0	0	0	16001	875	31	1	957	1	TM7SF4	8	105361735	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4108992	105361735	41002287	161	90619											
PTK2	5747	broad.mit.edu	37	chr8	141745365	141745365	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctacctgagctgagctttaAgttcagtaaacctgggccgc	9	10	10	12	1	1	2	1	2	0	0	1	2	1	2	4	1	4	4	4	1	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:141745365A>G	uc003yvu.2	-	22	2245	c.2015T>C	c.(2014-2016)CTT>CCT	p.L672P	PTK2_uc003yvo.2_Missense_Mutation_p.L300P|PTK2_uc011ljq.1_Missense_Mutation_p.L367P|PTK2_uc003yvp.2_Missense_Mutation_p.L340P|PTK2_uc003yvq.2_Missense_Mutation_p.L198P|PTK2_uc003yvr.2_Missense_Mutation_p.L612P|PTK2_uc003yvs.2_Missense_Mutation_p.L672P|PTK2_uc003yvt.2_Missense_Mutation_p.L694P|PTK2_uc003yvv.2_Missense_Mutation_p.L572P|PTK2_uc011ljr.1_Missense_Mutation_p.L672P|MIR151_hsa-mir-151|MI0000809_5'Flank	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	672	Protein kinase.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			CTGAGCTTTAAGTTCAGTAAA	0.522													4	19					0	0	0.009096	0	0		G	141745365	G	G	141745365	3	3	174	1	0	0	0	0	1	0	0	0	12785	72	3	3	1187	3	PTK2	8	141745365	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	36383630	141745365	4618657	162	90620											
PPP1R16A	84988	broad.mit.edu	37	chr8	145725526	145725526	+	Missense_Mutation	SNP	A	T	T	1	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	cgacgggaacatgccctatgAcctgtgtgatgatgagcaga	11	8	13	9	2	0	5	0	4	0	1	0	7	0	6	2	1	3	1	2	1	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr8:145725526A>T	uc003zdd.2	+	5	1437	c.524A>T	c.(523-525)GAC>GTC	p.D175V	uc003zde.1_5'Flank|PPP1R16A_uc003zdf.2_Missense_Mutation_p.D175V|GPT_uc011lli.1_5'Flank	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	175						plasma membrane	protein binding				0	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)			ATGCCCTATGACCTGTGTGAT	0.672													6	18					0	0	0.008291	0	0		T	145725526	T	T	145725526	3	4	174	1	0	0	0	0	1	0	0	0	12387	275	10	5	538	5	PPP1R16A	8	145725526	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	3980161	145725526	638496	163	90621											
AK3	50808	broad.mit.edu	37	chr9	4719266	4719266	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgtgtcgatctgataagCtctatctagggcttctgcct	7	14	9	11	1	4	1	0	1	4	0	5	2	4	1	1	1	2	2	1	1	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:4719266C>A	uc003ziq.1	-	3	453	c.313G>T	c.(313-315)GCT>TCT	p.A105S	AK3_uc003zip.1_RNA|AK3_uc011lma.1_Missense_Mutation_p.A65S|AK3_uc003zir.1_Missense_Mutation_p.A35S	NM_016282	NP_057366	Q9UIJ7	KAD3_HUMAN	adenylate kinase 3	105					blood coagulation	mitochondrial matrix	ATP binding|GTP binding|nucleoside triphosphate adenylate kinase activity			ovary(2)	2	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0302)		ATCTGATAAGCTCTATCTAGG	0.398													28	58					3.90053e-15	4.21293e-15	0.012213	1	0		A	4719266	A	A	4719266	3	1	174	1	0	0	0	0	1	0	0	0	441	797	28	5	382	5	AK3	9	4719266	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08		4719266	136494165	164	90622											
RANBP6	26953	broad.mit.edu	37	chr9	6012492	6012492	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttgggaagattggaattaTttggaccaattacaactggg	12	14	11	4	0	0	1	0	0	0	1	0	4	0	4	1	4	2	0	1	4	6	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:6012492T>C	uc003zjr.2	-	1	3127	c.3116A>G	c.(3115-3117)AAT>AGT	p.N1039S	RANBP6_uc011lmf.1_Missense_Mutation_p.N687S|RANBP6_uc003zjs.2_Missense_Mutation_p.N627S	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	1039					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		ATTGGAATTATTTGGACCAAT	0.368													29	43					0	0	0.007291	0	0		C	6012492	C	C	6012492	3	2	174	1	0	0	0	0	1	0	0	0	13056	1493	52	3	205	3	RANBP6	9	6012492	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1293226	6012492	135200939	165	90623											
MPDZ	8777	broad.mit.edu	37	chr9	13192277	13192277	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttggtgattttccccaagTaaagttatgccatttacctg	9	16	7	9	0	1	1	0	1	1	0	2	1	2	1	4	1	2	2	4	1	5	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:13192277T>A	uc010mia.1	-	14	1878	c.1821A>T	c.(1819-1821)TTA>TTT	p.L607F	MPDZ_uc010mhy.2_Missense_Mutation_p.L607F|MPDZ_uc010mhz.2_Missense_Mutation_p.L607F|MPDZ_uc011lmn.1_Missense_Mutation_p.L607F|MPDZ_uc003zlb.3_Missense_Mutation_p.L607F	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	607	PDZ 4.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		TTTCCCCAAGTAAAGTTATGC	0.348													7	10					0	0	0.001984	0	0		A	13192277	A	A	13192277	3	1	174	1	0	0	0	0	1	0	0	0	9740	1635	57	5	4432	5	MPDZ	9	13192277	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	7179785	13192277	128021154	166	90624											
CNTLN	54875	broad.mit.edu	37	chr9	17273831	17273831	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtaataaacagactgaacTtatccagaaggatatggata	18	9	9	5	0	0	3	0	1	0	2	1	6	1	5	1	2	2	1	1	2	8	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:17273831T>G	uc003zmz.2	+	6	976	c.950T>G	c.(949-951)CTT>CGT	p.L317R	CNTLN_uc003zmx.3_Missense_Mutation_p.L317R|CNTLN_uc003zmy.2_Missense_Mutation_p.L317R|CNTLN_uc010mio.2_5'UTR	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	317						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		CAGACTGAACTTATCCAGAAG	0.303													22	113					0	0	0.012319	0	0		G	17273831	G	G	17273831	3	3	174	1	0	0	0	0	1	0	0	0	3642	1609	56	5	972	5	CNTLN	9	17273831	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4081554	17273831	123939600	167	90625											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18795443	18795443	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatcttggcaccagtggaAgcagatgtgggtttctacac	10	10	12	9	0	2	2	0	0	2	2	2	3	2	3	1	3	2	3	1	3	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:18795443A>C	uc003zne.3	+	20	3853	c.3726A>C	c.(3724-3726)GAA>GAC	p.E1242D		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	1242	Ig-like C2-type 2.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		CACCAGTGGAAGCAGATGTGG	0.463													8	93					0	0	0.004482	0	0		C	18795443	C	C	18795443	3	2	174	1	0	0	0	0	1	0	0	0	274	69	3	5	3808	5	ADAMTSL1	9	18795443	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	1521612	18795443	122417988	168	90626											
FLJ46321	389763	broad.mit.edu	37	chr9	84610036	84610036	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgctaaaagccctgtgTttagtgatgtgcctttccta	8	14	9	10	0	0	1	0	1	0	0	1	1	1	1	4	0	3	2	4	0	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:84610036T>G	uc004amn.2	+	4	4698	c.4651T>G	c.(4651-4653)TTT>GTT	p.F1551V		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1551						integral to membrane					0						AAGCCCTGTGTTTAGTGATGT	0.507													10	13					0	0	0.006214	0	0		G	84610036	G	G	84610036	3	3	174	1	0	0	0	0	1	0	0	0	5946	1725	60	5	4665	5	FLJ46321	9	84610036	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	65814593	84610036	56603395	169	90627											
KIF27	55582	broad.mit.edu	37	chr9	86518567	86518567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catccctatatggaatatgtGaactcttcctgcgtgggtcc	8	13	9	11	1	1	1	0	1	1	0	4	2	4	2	3	2	2	0	3	2	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:86518567G>A	uc004ana.2	-	4	1010	c.866C>T	c.(865-867)TCA>TTA	p.S289L	KIF27_uc010mpw.2_Missense_Mutation_p.S289L|KIF27_uc010mpx.2_Missense_Mutation_p.S289L	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	289					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						TGGAATATGTGAACTCTTCCT	0.453													50	64					0	0	0.01441	0	0		A	86518567	A	A	86518567	3	1	174	1	0	0	0	0	1	0	0	0	8312	1294	45	4	3399	4	KIF27	9	86518567	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1908531	86518567	54694864	170	90628											
CTSL1	1514	broad.mit.edu	37	chr9	90344590	90344590	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgatgaaggcagttgcaactGtggggcccatttctgttgct	7	13	13	8	0	1	2	0	2	1	0	1	2	1	2	1	3	3	5	1	3	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:90344590G>A	uc004aph.2	+	6	1074	c.724G>A	c.(724-726)GTG>ATG	p.V242M	CTSL1_uc004api.2_Missense_Mutation_p.V242M|CTSL1_uc004apj.2_Missense_Mutation_p.V187M|CTSL1_uc010mqh.2_Missense_Mutation_p.V60M|CTSL1_uc004apk.2_Missense_Mutation_p.V242M|CTSL1_uc004apl.2_Missense_Mutation_p.V242M	NM_001912	NP_001903	P07711	CATL1_HUMAN	cathepsin L1 preproprotein	242					macrophage apoptosis|proteolysis	extracellular region|lysosome|nucleus	cysteine-type endopeptidase activity|histone binding			ovary(3)	3					Glucagon recombinant(DB00040)	AGTTGCAACTGTGGGGCCCAT	0.428													16	85					0	0	0.006122	0	0		A	90344590	A	A	90344590	3	1	174	1	0	0	0	0	1	0	0	0	4041	1377	48	4	742	4	CTSL1	9	90344590	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	3826023	90344590	50868841	171	90629											
CYLC2	1539	broad.mit.edu	37	chr9	105767737	105767737	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaggtaagaaagataagaAgaagcccagtagtacagaca	22	4	10	5	0	0	5	0	0	0	5	0	5	0	5	1	1	2	3	1	1	9	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:105767737A>C	uc004bbs.2	+	5	894	c.824A>C	c.(823-825)AAG>ACG	p.K275T		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	275	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				AAAGATAAGAAGAAGCCCAGT	0.259													5	56					0	0	0.001168	0	0		C	105767737	C	C	105767737	3	2	174	1	0	0	0	0	1	0	0	0	4145	72	3	5	842	5	CYLC2	9	105767737	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	15423147	105767737	35445694	172	90630											
C9orf84	158401	broad.mit.edu	37	chr9	114454528	114454529	+	Frame_Shift_Ins	INS	-	A	A																															tgtatgaagtcacaggtggtINSaaaaaacttgagatttcttt																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:114454528_114454529insA	uc004bfr.2	-	25	3671_3672	c.3536_3537insT	c.(3535-3537)TTAfs	p.L1179fs	C9orf84_uc011lwt.1_RNA|C9orf84_uc004bfq.2_Frame_Shift_Ins_p.L1140fs|C9orf84_uc010mug.2_Frame_Shift_Ins_p.L1090fs	NM_173521	NP_775792	Q5VXU9	CI084_HUMAN	hypothetical protein LOC158401 isoform 1	1179										ovary(2)	2						TCACAGGTGGTAAAAAACTTGA	0.351													43	89	---	---	---	---						.	A	114454529	A	A	114454528	7	5	174	1	0	1	1	0	0	0	0	0	2503	1635	57	0	805	0	C9orf84	9	114454528	Frame_Shift_Ins	INS	-	TCGA-D7-6528-01A-11D-1800-08	8686791	114454528	26758903	173	90631											
COL5A1	1289	broad.mit.edu	37	chr9	137622253	137622253	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggaggagaaccccgacCagcccacagacccaggcgct	11	1	14	15	2	0	2	0	0	0	2	0	5	0	3	5	4	2	1	5	4	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:137622253C>T	uc004cfe.2	+	7	1478	c.1096C>T	c.(1096-1098)CAG>TAG	p.Q366*		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	366	Nonhelical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GAACCCCGACCAGCCCACAGA	0.592													42	76					0	0	0.011902	0	0		T	137622253	T	T	137622253	4	4	174	1	0	0	0	0	0	1	0	0	3699	595	21	4	1122	4	COL5A1	9	137622253	Nonsense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	23167725	137622253	3591178	174	90632											
GLT6D1	360203	broad.mit.edu	37	chr9	138515964	138515964	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggtgggtttattgaggtaAaaatatttgttaaggtgctt	11	17	12	1	0	0	1	0	1	0	0	0	1	0	1	0	4	1	4	0	4	7	9			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:138515964A>C	uc010nbd.1	-	5	1064	c.810T>G	c.(808-810)TTT>TTG	p.F270L		NM_182974	NP_892019	Q7Z4J2	GL6D1_HUMAN	glycosyltransferase 6 domain containing 1	270	Lumenal (Potential).				carbohydrate metabolic process	integral to membrane	transferase activity, transferring hexosyl groups			ovary(1)	1		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;4.3e-07)|Epithelial(140;1.58e-06)|all cancers(34;5.36e-05)		TATTGAGGTAAAAATATTTGT	0.368													3	103					0	0	0.004672	0	0		C	138515964	C	C	138515964	3	2	174	1	0	0	0	0	1	0	0	0	6483	11	1	5	24	5	GLT6D1	9	138515964	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	893711	138515964	2697467	175	90633											
CACNA1B	774	broad.mit.edu	37	chr9	141006876	141006876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagcagcatcagtgtgacGcggagttgaggaaggagatt	13	7	15	6	2	1	3	1	2	0	1	1	6	1	5	0	3	2	3	0	3	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr9:141006876G>A	uc004cog.2	+	39	5600	c.5455G>A	c.(5455-5457)GCG>ACG	p.A1819T	CACNA1B_uc004coi.2_Missense_Mutation_p.A1031T|CACNA1B_uc004cok.1_RNA|CACNA1B_uc010ncp.1_Missense_Mutation_p.A99T	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	1819	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCAGTGTGACGCGGAGTTGAG	0.557													21	33					0	0	0.012319	0	0		A	141006876	A	A	141006876	3	1	174	1	0	0	0	0	1	0	0	0	2542	1087	38	1	5609	1	CACNA1B	9	141006876	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2490912	141006876	206555	176	90634											
ITGA8	8516	broad.mit.edu	37	chr10	15650283	15650283	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagatgcacatactcttaaAgaaaagctatagaaaatagt	20	9	6	6	0	1	3	0	0	1	3	1	3	1	3	0	0	3	2	0	0	10	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:15650283A>C	uc001ioc.1	-	16	1560	c.1560T>G	c.(1558-1560)TCT>TCG	p.S520S	ITGA8_uc010qcb.1_Silent_p.S505S	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	520	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						ATACTCTTAAAGAAAAGCTAT	0.308													14	62					0	0	0.00499	0	0		C	15650283	C	C	15650283	2	2	174	1	0	0	0	0	0	0	0	1	7898	59	3	5		5	ITGA8	10	15650283	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08		15650283	119884464	177	90635											
VIM	7431	broad.mit.edu	37	chr10	17277380	17277380	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaagctgctggaaggcgaGgagagcaggtagggaactca	13	4	18	6	1	1	1	1	0	0	1	1	6	1	4	0	6	4	4	0	6	4	1	rs150986868		TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:17277380G>T	uc001iou.2	+	7	1634	c.1221G>T	c.(1219-1221)GAG>GAT	p.E407D	VIM_uc001iov.1_Missense_Mutation_p.E407D|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.E407D|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.E365D|VIM_uc001ipc.1_Missense_Mutation_p.E407D	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	407	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton	p.E407K(1)		large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						TGGAAGGCGAGGAGAGCAGGT	0.368													7	32					0.00198382	0.00203557	0.001984	1	0		T	17277380	T	T	17277380	3	4	174	1	0	0	0	0	1	0	0	0	17192	991	35	5	1243	5	VIM	10	17277380	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1627097	17277380	118257367	178	90636											
LYZL1	84569	broad.mit.edu	37	chr10	29599960	29599960	+	Missense_Mutation	SNP	A	C	C	1	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	tgagggcagagacctgtccgAgtggaaaaaaggctgtgagg	12	6	17	6	1	0	3	0	2	0	1	1	6	1	4	2	4	0	2	2	4	3	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:29599960A>C	uc001iul.2	+	5	614	c.557A>C	c.(556-558)GAG>GCG	p.E186A		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	140					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)				GACCTGTCCGAGTGGAAAAAA	0.507													61	53					0	0	0.01441	0	0		C	29599960	C	C	29599960	3	2	174	1	0	0	0	0	1	0	0	0	9149	304	11	5	575	5	LYZL1	10	29599960	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	12322580	29599960	105934787	179	90637											
ZEB1	6935	broad.mit.edu	37	chr10	31810825	31810825	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acggtcagccctgcagtccaAgaaccacccttgaaagtgat	12	7	9	13	1	1	3	1	2	0	1	2	3	2	3	4	1	3	1	4	1	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:31810825A>G	uc001ivs.3	+	7	2625	c.2562A>G	c.(2560-2562)CAA>CAG	p.Q854Q	ZEB1_uc001ivr.3_Silent_p.Q636Q|ZEB1_uc010qee.1_Silent_p.Q636Q|ZEB1_uc010qef.1_Silent_p.Q636Q|ZEB1_uc009xlj.1_Silent_p.Q780Q|ZEB1_uc010qeg.1_Silent_p.Q713Q|ZEB1_uc009xlk.1_Silent_p.Q636Q|ZEB1_uc001ivt.3_Silent_p.Q636Q|ZEB1_uc001ivu.3_Silent_p.Q855Q|ZEB1_uc001ivv.3_Silent_p.Q834Q|ZEB1_uc010qeh.1_Silent_p.Q787Q|ZEB1_uc009xlo.1_Silent_p.Q837Q|ZEB1_uc009xlp.2_Silent_p.Q838Q	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	854					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CTGCAGTCCAAGAACCACCCT	0.438													22	170					0	0	0.012319	0	0		G	31810825	G	G	31810825	2	3	174	1	0	0	0	0	0	0	0	1	17648	69	3	3		3	ZEB1	10	31810825	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2210865	31810825	103723922	180	90638											
LRRC18	474354	broad.mit.edu	37	chr10	50122031	50122031	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgataagattccggctaAggtccagctcgtccatgtca	9	11	9	12	2	1	2	1	1	0	1	6	2	5	2	4	2	1	2	4	2	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:50122031A>C	uc001jhd.2	-	1	250	c.170T>G	c.(169-171)CTT>CGT	p.L57R	WDFY4_uc001jha.3_Intron|LRRC18_uc001jhe.1_Missense_Mutation_p.L57R	NM_001006939	NP_001006940	Q8N456	LRC18_HUMAN	leucine rich repeat containing 18	57	LRR 2.					cytoplasm				ovary(1)|pancreas(1)	2						ATTCCGGCTAAGGTCCAGCTC	0.507													4	77					0	0	0.009096	0	0		C	50122031	C	C	50122031	3	2	174	1	0	0	0	0	1	0	0	0	8992	72	3	5	623	5	LRRC18	10	50122031	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	18311206	50122031	85412716	181	90639											
AGAP7	653268	broad.mit.edu	37	chr10	51465608	51465608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcacaccattggaacacaggGtgacgtatttctttttccat	10	13	8	10	1	1	1	0	1	1	0	2	2	2	2	2	2	1	2	2	2	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:51465608G>A	uc001jio.2	-	7	974	c.848C>T	c.(847-849)ACC>ATC	p.T283I	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	283	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						GGAACACAGGGTGACGTATTT	0.428													141	186					0	0	0.01441	0	0		A	51465608	A	A	51465608	3	1	174	1	0	0	0	0	1	0	0	0	373	1261	44	4	1147	4	AGAP7	10	51465608	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1343577	51465608	84069139	182	90640											
DKK1	22943	broad.mit.edu	37	chr10	54074383	54074383	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgcagtcagcgccgcGccgggaatcctgtacccggg	5	6	15	15	5	2	0	1	0	1	0	3	1	3	1	4	3	3	3	4	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:54074383G>A	uc001jjr.2	+	1	343	c.189G>A	c.(187-189)GCG>GCA	p.A63A	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	63					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TCAGCGCCGCGCCGGGAATCC	0.622											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	61					0	0	0.006214	0	0		A	54074383	A	A	54074383	2	1	174	1	0	0	0	0	0	0	0	1	4550	1074	38	1		1	DKK1	10	54074383	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2608775	54074383	81460364	183	90641											
FAM13C	220965	broad.mit.edu	37	chr10	61112135	61112135	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatacgctgtccaccagcacGgtcgcctctacattctgctg	8	10	8	15	3	2	0	0	0	2	0	4	0	3	0	3	1	4	3	3	1	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:61112135G>A	uc001jkn.2	-	4	353	c.219C>T	c.(217-219)ACC>ACT	p.T73T	FAM13C_uc001jko.2_Silent_p.T73T|FAM13C_uc010qid.1_5'UTR|FAM13C_uc010qie.1_5'UTR|FAM13C_uc010qif.1_Silent_p.T95T|FAM13C_uc001jkp.2_5'UTR	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	73										ovary(2)	2						CCACCAGCACGGTCGCCTCTA	0.582													28	33					0	0	0.007291	0	0		A	61112135	A	A	61112135	2	1	174	1	0	0	0	0	0	0	0	1	5465	1103	39	1		1	FAM13C	10	61112135	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7037752	61112135	74422612	184	90642											
UNC5B	219699	broad.mit.edu	37	chr10	73051239	73051239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgacctgacagccagcGccggcatctaccgcggaccc	7	5	10	19	4	1	2	0	2	1	0	2	3	2	3	6	2	3	1	6	2	1	1	rs141795100	byFrequency	TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:73051239G>A	uc001jro.2	+	10	1790	c.1345G>A	c.(1345-1347)GCC>ACC	p.A449T	UNC5B_uc001jrp.2_Missense_Mutation_p.A438T	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	449	Cytoplasmic (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						GACAGCCAGCGCCGGCATCTA	0.617													39	21					0	0	0.007835	0	0		A	73051239	A	A	73051239	3	1	174	1	0	0	0	0	1	0	0	0	17018	1087	38	1	1383	1	UNC5B	10	73051239	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	11939104	73051239	62483508	185	90643											
TTC18	118491	broad.mit.edu	37	chr10	75056898	75056898	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaaatgatgttgtcttcaAgtatttatctctcacaatct	11	18	4	8	0	6	1	3	1	3	0	7	1	6	1	0	0	0	2	0	0	5	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:75056898A>T	uc009xrc.2	-	16	1877	c.1756T>A	c.(1756-1758)TTG>ATG	p.L586M	TTC18_uc001jty.2_Missense_Mutation_p.L586M|TTC18_uc009xrd.1_Missense_Mutation_p.L400M|TTC18_uc001jtx.2_Translation_Start_Site	NM_145170	NP_660153	Q5T0N1	TTC18_HUMAN	tetratricopeptide repeat domain 18	586							binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					GTTGTCTTCAAGTATTTATCT	0.438													5	91					0	0	0.001984	0	0		T	75056898	T	T	75056898	3	4	174	1	0	0	0	0	1	0	0	0	16711	69	3	5	1661	5	TTC18	10	75056898	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2005659	75056898	60477849	186	90644											
ABCC2	1244	broad.mit.edu	37	chr10	101595995	101595995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatttctgaaacacaatgagGtgaggattgacaccaaccag	15	8	10	8	0	1	4	0	4	1	0	1	6	1	5	2	2	2	0	2	2	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:101595995G>A	uc001kqf.2	+	25	3701	c.3562G>A	c.(3562-3564)GTG>ATG	p.V1188M		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	1188	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	ACACAATGAGGTGAGGATTGA	0.498													6	66					0	0	0.00308	0	0		A	101595995	A	A	101595995	3	1	174	1	0	0	0	0	1	0	0	0	53	1261	44	4	3660	4	ABCC2	10	101595995	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	26539097	101595995	33938752	187	90645											
LDB1	8861	broad.mit.edu	37	chr10	103870449	103870449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagcgtgggatcagggtcCggccaatggctgtagagatg	9	8	17	7	2	1	1	1	0	0	1	2	3	2	2	2	4	1	3	2	4	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:103870449C>T	uc009xwz.2	-	6	705	c.362G>A	c.(361-363)CGG>CAG	p.R121Q	LDB1_uc001kuk.3_Missense_Mutation_p.R85Q|LDB1_uc001kul.3_Missense_Mutation_p.R85Q	NM_001113407	NP_001106878	Q86U70	LDB1_HUMAN	LIM domain binding 1 isoform 1	121					histone H3-K4 acetylation|negative regulation of erythrocyte differentiation|negative regulation of transcription, DNA-dependent|positive regulation of hemoglobin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription elongation, DNA-dependent|transcription, DNA-dependent|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	nuclear chromatin|protein complex	LIM domain binding|protein homodimerization activity|transcription corepressor activity			large_intestine(1)	1		Colorectal(252;0.122)		Epithelial(162;1.11e-07)|all cancers(201;1.82e-06)		GATCAGGGTCCGGCCAATGGC	0.552													15	15					0	0	0.008871	0	0		T	103870449	T	T	103870449	3	4	174	1	0	0	0	0	1	0	0	0	8711	652	23	1	897	1	LDB1	10	103870449	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	2274454	103870449	31664298	188	90646											
FAM45A	404636	broad.mit.edu	37	chr10	120896041	120896041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaccgttttcagaagtttCggctgatggagaaaagagag	13	9	13	6	2	1	4	1	1	0	3	2	6	1	4	1	2	1	4	1	2	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:120896041C>T	uc001ldw.2	+	9	1000	c.956C>T	c.(955-957)TCG>TTG	p.S319L	FAM45A_uc010qsv.1_Missense_Mutation_p.S311L|FAM45A_uc010qsw.1_Missense_Mutation_p.S168L|FAM45A_uc010qsx.1_RNA|FAM45A_uc010qsy.1_Missense_Mutation_p.S246L|FAM45A_uc010qsz.1_Missense_Mutation_p.S208L	NM_207009	NP_996892	Q8TCE6	FA45A_HUMAN	hypothetical protein LOC404636	319										ovary(1)	1		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0293)		TCAGAAGTTTCGGCTGATGGA	0.388													30	38					0	0	0.009718	0	0		T	120896041	T	T	120896041	3	4	174	1	0	0	0	0	1	0	0	0	5578	893	31	1	990	1	FAM45A	10	120896041	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	17025592	120896041	14638706	189	90647											
LHPP	64077	broad.mit.edu	37	chr10	126301905	126301905	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgcagaggcagtggacctGctgctgcagcacgccgacaa	9	5	13	14	3	0	1	0	0	0	1	1	3	0	2	2	2	4	6	2	2	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:126301905G>A	uc001lhs.1	+	7	809	c.789G>A	c.(787-789)CTG>CTA	p.L263L	LHPP_uc001lht.1_3'UTR|LHPP_uc009yai.1_Silent_p.L180L|LHPP_uc009yaj.1_RNA	NM_022126	NP_071409	Q9H008	LHPP_HUMAN	phospholysine phosphohistidine inorganic	263					protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.163)|Colorectal(40;0.187)		CAGTGGACCTGCTGCTGCAGC	0.438													33	64					0	0	0.004289	0	0		A	126301905	A	A	126301905	2	1	174	1	0	0	0	0	0	0	0	1	8785	1306	46	2		2	LHPP	10	126301905	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	5405864	126301905	9232842	190	90648											
SYCE1	93426	broad.mit.edu	37	chr10	135372434	135372434	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggtccgggcctctcctaggTctttattggctttctttttt	2	20	9	10	1	3	0	0	0	3	0	5	0	4	0	3	4	0	1	3	4	2	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr10:135372434T>C	uc001lno.2	-	4	323	c.218A>G	c.(217-219)GAC>GGC	p.D73G	CYP2E1_uc001lnl.1_3'UTR|SYCE1_uc001lnm.2_5'UTR|SYCE1_uc009ybn.2_Missense_Mutation_p.D73G|SYCE1_uc001lnn.2_Missense_Mutation_p.D37G	NM_001143764	NP_001137236	Q8N0S2	SYCE1_HUMAN	synaptonemal complex central element protein 1	73	Potential.				cell division	central element				ovary(1)	1		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)		CTCTCCTAGGTCTTTATTGGC	0.512													3	27					0	0	0.004672	0	0		C	135372434	C	C	135372434	3	2	174	1	0	0	0	0	1	0	0	0	15453	1667	58	3	920	3	SYCE1	10	135372434	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	9070529	135372434	162313	191	90649											
MUC6	4588	broad.mit.edu	37	chr11	1017413	1017413	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggagtgtgtggtgaaGggtgtgggtagcctgctgct	4	11	22	4	0	0	1	0	1	0	0	0	2	0	2	1	6	3	3	1	6	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:1017413G>T	uc001lsw.2	-	31	5439	c.5388C>A	c.(5386-5388)CCC>CCA	p.P1796P		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1796	Thr-rich.|2.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTGTGGTGAAGGGTGTGGGTA	0.592													30	595					6.45866e-13	6.94416e-13	0.00874	1	0		T	1017413	T	T	1017413	2	4	174	1	0	0	0	0	0	0	0	1	9998	987	35	5		5	MUC6	11	1017413	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08		1017413	133989103	192	90650											
OR51B2	79345	broad.mit.edu	37	chr11	5344612	5344612	+	Missense_Mutation	SNP	A	G	G	1	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	actactaaacctatgtttagAtaaaaggcggataatgccat	16	11	7	7	1	0	1	0	0	0	1	0	2	0	2	2	2	3	1	2	2	8	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:5344612A>G	uc001mao.1	-	1	971	c.916T>C	c.(916-918)TCT>CCT	p.S306P	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTATGTTTAGATAAAAGGCGG	0.363													15	22					0	0	0.003163	0	0		G	5344612	G	G	5344612	3	3	174	1	0	0	0	0	1	0	0	0	11108	333	12	3	26	3	OR51B2	11	5344612	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	4327199	5344612	129661904	193	90651											
OR56B1	387748	broad.mit.edu	37	chr11	5757774	5757774	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgtctgcatctctcaaaAtctccaatagctccaaattc	13	13	3	12	0	4	0	1	0	3	0	8	0	5	0	2	0	2	2	2	0	6	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:5757774A>G	uc001mbt.1	+	1	28	c.28A>G	c.(28-30)ATC>GTC	p.I10V	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|OR56B1_uc001mbs.1_Missense_Mutation_p.I10V|OR56B1_uc009yev.1_Missense_Mutation_p.I10V	NM_001005180	NP_001005180	Q8NGI3	O56B1_HUMAN	olfactory receptor, family 56, subfamily B,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.086)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.184)		ATCTCTCAAAATCTCCAATAG	0.433													22	37					0	0	0.010504	0	0		G	5757774	G	G	5757774	3	3	174	1	0	0	0	0	1	0	0	0	11156	101	4	3	30	3	OR56B1	11	5757774	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	413162	5757774	129248742	194	90652											
OR52N1	79473	broad.mit.edu	37	chr11	5809861	5809861	+	Nonsense_Mutation	SNP	A	T	T	1	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	gaaagaagggcaaggaagacAtacataggtctgtgtaaggc	16	6	14	5	0	1	2	0	0	1	2	1	4	1	3	0	4	1	2	0	4	7	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:5809861A>T	uc010qzo.1	-	1	186	c.186T>A	c.(184-186)TAT>TAA	p.Y62*	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	62	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		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)		CAAGGAAGACATACATAGGTC	0.453													29	40					0	0	0.005443	0	0		T	5809861	T	T	5809861	4	4	174	1	0	0	0	0	0	1	0	0	11146	224	8	5	779	5	OR52N1	11	5809861	Nonsense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	52087	5809861	129196655	195	90653											
APBB1	322	broad.mit.edu	37	chr11	6416828	6416828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcgactgaacacccctgCggacagtccaccctacacgc	11	4	8	18	3	0	1	0	1	0	0	1	3	1	2	4	1	4	0	4	1	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:6416828C>T	uc001mdb.1	-	14	2169	c.2069G>A	c.(2068-2070)CGC>CAC	p.R690H	APBB1_uc001mcz.1_Missense_Mutation_p.R309H|APBB1_uc001mdd.3_Missense_Mutation_p.R468H|APBB1_uc001mda.2_Missense_Mutation_p.R215H|APBB1_uc001mdc.1_Missense_Mutation_p.R688H|APBB1_uc001mcy.1_3'UTR	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	690	PID 2.				apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		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)		AACACCCCTGCGGACAGTCCA	0.652													12	14					0	0	0.00245	0	0		T	6416828	T	T	6416828	3	4	174	1	0	0	0	0	1	0	0	0	759	768	27	1	67	1	APBB1	11	6416828	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	606967	6416828	128589688	196	90654											
NLRP14	338323	broad.mit.edu	37	chr11	7060049	7060049	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggagtgtgtctctcaaaAtctttggcaagatgaacctg	10	12	10	9	0	3	2	1	1	2	1	4	3	3	3	2	2	1	1	2	2	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:7060049A>C	uc001mfb.1	+	2	555	c.232A>C	c.(232-234)ATC>CTC	p.I78L		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	78	DAPIN.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		GTCTCTCAAAATCTTTGGCAA	0.493													4	44					0	0	0.009096	0	0		C	7060049	C	C	7060049	3	2	174	1	0	0	0	0	1	0	0	0	10495	101	4	5	234	5	NLRP14	11	7060049	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	643221	7060049	127946467	197	90655											
GALNTL4	374378	broad.mit.edu	37	chr11	11394149	11394149	+	Silent	SNP	A	G	G	1	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	tggaagtactgccggtccacAatgaagcagccaatgagggc	12	6	13	10	1	0	2	0	2	0	0	1	3	1	3	3	3	4	2	3	3	5	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:11394149A>G	uc001mjo.2	-	6	1426	c.1005T>C	c.(1003-1005)ATT>ATC	p.I335I		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	335	Lumenal (Potential).|Catalytic subdomain B.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		GCCGGTCCACAATGAAGCAGC	0.602													13	18					0	0	0.00245	0	0		G	11394149	G	G	11394149	2	3	174	1	0	0	0	0	0	0	0	1	6238	126	5	3		3	GALNTL4	11	11394149	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	4334100	11394149	123612367	198	90656											
ANO5	203859	broad.mit.edu	37	chr11	22248854	22248854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttttttaatgcaggactcgGaagatggaagaacttatttt	12	16	9	4	1	0	2	0	0	0	2	1	5	0	5	0	3	2	1	0	3	5	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:22248854G>A	uc001mqi.2	+	7	687	c.370G>A	c.(370-372)GAA>AAA	p.E124K	ANO5_uc001mqj.2_Missense_Mutation_p.E123K	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	124	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						GCAGGACTCGGAAGATGGAAG	0.353													15	92					0	0	0.00499	0	0		A	22248854	A	A	22248854	3	1	174	1	0	0	0	0	1	0	0	0	700	1175	41	4	396	4	ANO5	11	22248854	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	10854705	22248854	112757662	199	90657											
SLC17A6	57084	broad.mit.edu	37	chr11	22381048	22381048	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttatggatgtgtcatctttgTcagaatactgcagggacttg	9	15	11	6	0	3	1	2	0	1	1	3	3	3	3	0	2	2	1	0	2	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:22381048T>G	uc001mqk.2	+	4	961	c.548T>G	c.(547-549)GTC>GGC	p.V183G		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	183	Helical; (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						GTCATCTTTGTCAGAATACTG	0.408													10	40					0	0	0.008291	0	0		G	22381048	G	G	22381048	3	3	174	1	0	0	0	0	1	0	0	0	14446	1667	58	5	562	5	SLC17A6	11	22381048	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	132194	22381048	112625468	200	90658											
GAS2	2620	broad.mit.edu	37	chr11	22833429	22833429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgaaacacgacccctgccGaatgctgcagatctcccgtg	9	8	10	14	3	1	2	0	1	1	1	2	4	1	2	4	0	4	3	4	0	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:22833429G>A	uc009yie.2	+	8	1115	c.809G>A	c.(808-810)CGA>CAA	p.R270Q	GAS2_uc001mqm.2_Missense_Mutation_p.R270Q|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Missense_Mutation_p.R270Q	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	270	GAR.				cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						GACCCCTGCCGAATGCTGCAG	0.463													12	51					0	0	0.010729	0	0		A	22833429	A	A	22833429	3	1	174	1	0	0	0	0	1	0	0	0	6260	1058	37	1	835	1	GAS2	11	22833429	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	452381	22833429	112173087	201	90659											
ANO3	63982	broad.mit.edu	37	chr11	26620487	26620487	+	Missense_Mutation	SNP	A	G	G	1	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	gggaaaacctgaaccacatcAgccttcctcagacaaagtca	15	6	7	13	0	3	2	3	1	0	1	4	3	4	3	4	1	3	0	4	1	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:26620487A>G	uc001mqt.3	+	16	1758	c.1613A>G	c.(1612-1614)CAG>CGG	p.Q538R	ANO3_uc010rdr.1_Missense_Mutation_p.Q522R|ANO3_uc010rds.1_Missense_Mutation_p.Q377R|ANO3_uc010rdt.1_Missense_Mutation_p.Q392R	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	538	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAACCACATCAGCCTTCCTCA	0.403													3	48					0	0	0.004672	0	0		G	26620487	G	G	26620487	3	3	174	1	0	0	0	0	1	0	0	0	698	188	7	3	1675	3	ANO3	11	26620487	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	3787058	26620487	108386029	202	90660											
OR4C13	283092	broad.mit.edu	37	chr11	49974148	49974148	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactgagatcccccatgtaCtttttcctggcctatctctc	6	15	5	15	0	2	1	1	1	1	1	6	2	4	1	4	1	1	1	4	1	2	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:49974148C>A	uc010rhz.1	+	1	174	c.174C>A	c.(172-174)TAC>TAA	p.Y58*		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CCCCCATGTACTTTTTCCTGG	0.423													40	172					9.9998e-32	1.10278e-31	0.011902	1	0		A	49974148	A	A	49974148	4	1	174	1	0	0	0	0	0	1	0	0	11066	576	20	5	176	5	OR4C13	11	49974148	Nonsense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	23353661	49974148	85032368	203	90661											
OR4A5	81318	broad.mit.edu	37	chr11	51412114	51412114	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaatagctggcccatgcaAccttggaaggaaatagtctt	14	10	9	8	0	1	0	0	0	1	0	1	2	1	2	2	3	3	2	2	3	7	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:51412114A>C	uc001nhi.1	-	1	282	c.282T>G	c.(280-282)GGT>GGG	p.G94G		NM_001005272	NP_001005272	Q8NH83	OR4A5_HUMAN	olfactory receptor, family 4, subfamily A,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(304;0.236)				GGCCCATGCAACCTTGGAAGG	0.448													18	30					0	0	0.00499	0	0		C	51412114	C	C	51412114	2	2	174	1	0	0	0	0	0	0	0	1	11062	30	2	5		5	OR4A5	11	51412114	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	1437966	51412114	83594402	204	90662											
OR5M8	219484	broad.mit.edu	37	chr11	56258219	56258219	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggaaatacatatgatgaagaGagaaaaagaaaggttccagc	20	6	11	4	0	0	5	0	2	0	3	1	7	1	6	1	2	2	1	1	2	7	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:56258219G>C	uc001nix.1	-	1	628	c.628C>G	c.(628-630)CTC>GTC	p.L210V		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					ATGATGAAGAGAGAAAAAGAA	0.433													31	28					0	0	0.009535	0	0		C	56258219	C	C	56258219	3	2	174	1	0	0	0	0	1	0	0	0	11195	942	33	5	311	5	OR5M8	11	56258219	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	4846105	56258219	78748297	205	90663											
APLNR	187	broad.mit.edu	37	chr11	57004241	57004241	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcccacaggggcagcgtcaCcacgaaggtcaggtcagcca	11	3	13	14	2	3	0	3	0	0	0	3	1	3	0	3	4	3	1	3	4	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:57004241C>A	uc001njo.2	-	1	687	c.238G>T	c.(238-240)GTG>TTG	p.V80L	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	80	Helical; Name=2; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						GGCAGCGTCACCACGAAGGTC	0.587													18	21					5.03518e-11	5.32871e-11	0.007413	1	0		A	57004241	A	A	57004241	3	1	174	1	0	0	0	0	1	0	0	0	777	507	18	5	908	5	APLNR	11	57004241	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	746022	57004241	78002275	206	90664											
SYTL2	54843	broad.mit.edu	37	chr11	85445318	85445318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actaaattctcctacttcccGaccatggattagcccaggac	11	10	6	14	1	1	0	0	0	1	0	3	3	2	2	4	2	2	0	4	2	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:85445318G>A	uc010rth.1	-	6	1327	c.1051C>T	c.(1051-1053)CGG>TGG	p.R351W	SYTL2_uc010rtg.1_Missense_Mutation_p.R352W|SYTL2_uc010rti.1_Missense_Mutation_p.R351W|SYTL2_uc010rtj.1_Missense_Mutation_p.R303W|SYTL2_uc001pbf.3_Missense_Mutation_p.R351W|SYTL2_uc010rtf.1_Missense_Mutation_p.R209W	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	351					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		CCTACTTCCCGACCATGGATT	0.458													10	153					0	0	0.006214	0	0		A	85445318	A	A	85445318	3	1	174	1	0	0	0	0	1	0	0	0	15508	1057	37	1	4286	1	SYTL2	11	85445318	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	28441077	85445318	49561198	207	90665											
FAT3	120114	broad.mit.edu	37	chr11	92531644	92531644	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggagtcaacagcaaaaaAgtttttcacggtggactcca	13	10	10	8	1	2	0	2	0	0	0	3	2	3	2	1	3	2	2	1	3	4	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:92531644A>C	uc001pdj.3	+	9	5482	c.5465A>C	c.(5464-5466)AAG>ACG	p.K1822T		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1822	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACAGCAAAAAAGTTTTTCACG	0.473										TCGA Ovarian(4;0.039)			4	37					0	0	0.009096	0	0		C	92531644	C	C	92531644	3	2	174	1	0	0	0	0	1	0	0	0	5705	72	3	5	5499	5	FAT3	11	92531644	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	7086326	92531644	42474872	208	90666											
DYNC2H1	79659	broad.mit.edu	37	chr11	103175338	103175338	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtaggttgccatgggtcaAggtcaagctgatttagcaat	10	13	12	6	0	2	1	2	1	0	0	2	1	2	1	1	3	3	4	1	3	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:103175338A>C	uc001pho.2	+	77	11415	c.11271A>C	c.(11269-11271)CAA>CAC	p.Q3757H	DYNC2H1_uc001phn.1_Missense_Mutation_p.Q3764H|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3757	AAA 6 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		CCATGGGTCAAGGTCAAGCTG	0.358													9	55					0	0	0.004482	0	0		C	103175338	C	C	103175338	3	2	174	1	0	0	0	0	1	0	0	0	4852	69	3	5	11602	5	DYNC2H1	11	103175338	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	10643694	103175338	31831178	209	90667											
CASP1	834	broad.mit.edu	37	chr11	104900547	104900547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgccttcccgaataccatgaGacatgaacaccaggaacgtg	13	7	9	12	2	0	2	0	2	0	1	1	5	1	3	4	1	4	0	4	1	4	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:104900547G>A	uc010rve.1	-	6	724	c.707C>T	c.(706-708)TCT>TTT	p.S236F	CASP1_uc001pig.2_Missense_Mutation_p.S143F|CASP1_uc001pik.2_Missense_Mutation_p.S199F|CASP1_uc010rvf.1_Missense_Mutation_p.S143F|CASP1_uc010rvg.1_Missense_Mutation_p.S215F|CASP1_uc010rvh.1_Missense_Mutation_p.S143F|CASP1_uc010rvi.1_Intron|CASP1_uc001pim.3_Missense_Mutation_p.S236F|CASP1_uc009yxi.2_Missense_Mutation_p.S215F|CASP1_uc010rvj.1_Missense_Mutation_p.S236F|CASP1_uc009yxj.2_Missense_Mutation_p.S81F|CASP1_uc010rvk.1_Missense_Mutation_p.S197F	NM_033292	NP_150634	P29466	CASP1_HUMAN	caspase 1 isoform alpha precursor	236					cellular response to mechanical stimulus|cellular response to organic substance|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis|signal transduction	cytosol	caspase activator activity|cysteine-type endopeptidase activity|protein binding			ovary(2)	2		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000525)|Epithelial(105;0.0128)|all cancers(92;0.0482)	Minocycline(DB01017)|Penicillamine(DB00859)	AATACCATGAGACATGAACAC	0.463													19	198					0	0	0.012319	0	0		A	104900547	A	A	104900547	3	1	174	1	0	0	0	0	1	0	0	0	2671	942	33	4	523	4	CASP1	11	104900547	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1725209	104900547	30105969	210	90668											
KIAA1826	84437	broad.mit.edu	37	chr11	105881326	105881326	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcatctatctcttcagtgaGagagtcatccaaatcagagg	12	12	8	9	0	6	3	4	1	2	2	8	4	7	3	1	1	0	0	1	1	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:105881326G>C	uc001piy.2	-	2	492	c.319C>G	c.(319-321)CTC>GTC	p.L107V	KIAA1826_uc001piz.2_Missense_Mutation_p.L107V	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	107						nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		TCTTCAGTGAGAGAGTCATCC	0.443													18	81					0	0	0.00499	0	0		C	105881326	C	C	105881326	3	2	174	1	0	0	0	0	1	0	0	0	8276	942	33	5	726	5	KIAA1826	11	105881326	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	980779	105881326	29125190	211	90669											
CUL5	8065	broad.mit.edu	37	chr11	107925631	107925631	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattaaaagaagaagaaaaAcgagcactacgttatttaga	22	8	7	4	2	0	4	0	0	0	4	0	5	0	4	0	0	3	2	0	0	10	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:107925631A>T	uc001pjv.2	+	7	1396	c.729A>T	c.(727-729)AAA>AAT	p.K243N	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	243					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		AAGAAGAAAAACGAGCACTAC	0.313													13	32					0	0	0.00245	0	0		T	107925631	T	T	107925631	3	4	174	1	0	0	0	0	1	0	0	0	4062	40	2	5	755	5	CUL5	11	107925631	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2044305	107925631	27080885	212	90670											
EXPH5	23086	broad.mit.edu	37	chr11	108380425	108380425	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actactgggagaatttgagcTtaatgactctgaggggttgg	10	12	14	5	0	1	4	0	3	1	1	1	5	1	4	0	4	2	2	0	4	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:108380425T>C	uc001pkk.2	-	6	5920	c.5809A>G	c.(5809-5811)AGC>GGC	p.S1937G	EXPH5_uc010rvy.1_Missense_Mutation_p.S1749G|EXPH5_uc010rvz.1_Missense_Mutation_p.S1781G|EXPH5_uc010rwa.1_Missense_Mutation_p.S1861G	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1937					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		GAATTTGAGCTTAATGACTCT	0.438													30	55					0	0	0.00632	0	0		C	108380425	C	C	108380425	3	2	174	1	0	0	0	0	1	0	0	0	5330	1609	56	3	164	3	EXPH5	11	108380425	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	454794	108380425	26626091	213	90671											
ALG9	79796	broad.mit.edu	37	chr11	111724443	111724443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgtttcatgaccagcaaatCaaaggcaatgggtaaactat	15	10	9	7	0	2	1	2	1	0	0	2	1	2	1	1	2	2	4	1	2	6	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:111724443C>T	uc001pmb.2	-	8	817	c.718G>A	c.(718-720)GAT>AAT	p.D240N	ALG9_uc001ply.2_Missense_Mutation_p.D69N|ALG9_uc001plz.2_Missense_Mutation_p.D69N|ALG9_uc010rwm.1_Missense_Mutation_p.D240N|ALG9_uc010rwn.1_Missense_Mutation_p.D194N|ALG9_uc010rwo.1_Missense_Mutation_p.D68N|ALG9_uc009yyh.1_Missense_Mutation_p.D135N	NM_001077690	NP_001071158	Q9H6U8	ALG9_HUMAN	asparagine-linked glycosylation 9 protein	240	Cytoplasmic (Potential).				dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			large_intestine(1)|ovary(1)	2		all_cancers(61;2.34e-15)|all_epithelial(67;1.72e-09)|Melanoma(852;1.91e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0112)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;6.81e-07)|BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|all cancers(92;1.3e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0587)		ACCAGCAAATCAAAGGCAATG	0.398													22	120					0	0	0.014323	0	0		T	111724443	T	T	111724443	3	4	174	1	0	0	0	0	1	0	0	0	524	826	29	4	1174	4	ALG9	11	111724443	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	3344018	111724443	23282073	214	90672											
CADM1	23705	broad.mit.edu	37	chr11	115109343	115109343	+	Missense_Mutation	SNP	T	G	G	0	1	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	gagttcactgctagaaaaatTcagcaactgaaacctgctgt	14	10	8	9	0	2	2	2	1	0	1	2	3	2	2	1	0	5	4	1	0	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:115109343T>G	uc001ppi.3	-	3	430	c.301A>C	c.(301-303)AAT>CAT	p.N101H	CADM1_uc001ppf.3_Missense_Mutation_p.N101H|CADM1_uc001ppk.3_Missense_Mutation_p.N101H|CADM1_uc001ppj.3_Missense_Mutation_p.N101H|CADM1_uc001ppl.2_Missense_Mutation_p.N101H	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	101	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		CTAGAAAAATTCAGCAACTGA	0.393													4	61					0	0	0.009096	0	0		G	115109343	G	G	115109343	3	3	174	1	0	0	0	0	1	0	0	0	2569	1783	62	5	1059	5	CADM1	11	115109343	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	3384900	115109343	19897173	215	90673											
AMICA1	120425	broad.mit.edu	37	chr11	118083275	118083275	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattcaggcccaaggaataAtctatagaagtcaaaggcaa	17	8	8	8	0	4	1	3	0	1	1	4	2	4	2	1	3	0	1	1	3	8	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:118083275A>G	uc001psk.2	-	3	219	c.45T>C	c.(43-45)GAT>GAC	p.D15D	AMICA1_uc001psh.2_5'UTR|AMICA1_uc009yzw.1_RNA|AMICA1_uc001psi.2_Silent_p.D5D|AMICA1_uc001psj.2_Silent_p.D15D|AMICA1_uc010rxw.1_5'UTR|AMICA1_uc010rxx.1_Silent_p.D15D|AMICA1_uc001psl.1_Intron	NM_001098526	NP_001091996	Q86YT9	JAML1_HUMAN	adhesion molecule, interacts with CXADR antigen	15					blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	cell junction|integral to membrane				ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CCAAGGAATAATCTATAGAAG	0.438													8	41					0	0	0.004482	0	0		G	118083275	G	G	118083275	2	3	174	1	0	0	0	0	0	0	0	1	574	115	4	3		3	AMICA1	11	118083275	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2973932	118083275	16923241	216	90674											
MLL	4297	broad.mit.edu	37	chr11	118375019	118375019	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gattccttggaagctcagctCagctcattggagtcaagccg	9	10	11	11	1	4	0	4	0	0	0	5	3	5	2	2	2	4	3	2	2	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:118375019C>T	uc001pta.2	+	27	8426	c.8403C>T	c.(8401-8403)CTC>CTT	p.L2801L	MLL_uc001ptb.2_Silent_p.L2804L	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2801					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AAGCTCAGCTCAGCTCATTGG	0.448			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								5	139					0	0	0.001168	0	0		T	118375019	T	T	118375019	2	4	174	1	0	0	0	0	0	0	0	1	9638	813	29	4		4	MLL	11	118375019	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	291744	118375019	16631497	217	90675											
POU2F3	25833	broad.mit.edu	37	chr11	120169080	120169080	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggaaaccaaatgtctgggcTaaatgccagcccatgtcagg	12	7	11	11	1	2	0	1	0	1	0	2	1	2	1	3	3	3	1	3	3	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:120169080T>A	uc001pxc.2	+	4	341	c.239T>A	c.(238-240)CTA>CAA	p.L80Q	POU2F3_uc010rzk.1_Silent_p.A18A|POU2F3_uc010rzl.1_Missense_Mutation_p.L10Q	NM_014352	NP_055167	Q9UKI9	PO2F3_HUMAN	POU transcription factor	80					negative regulation by host of viral transcription	cytoplasm	sequence-specific DNA binding			ovary(1)|skin(1)	2		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)		ATGTCTGGGCTAAATGCCAGC	0.527													9	207					0	0	0.004482	0	0		A	120169080	A	A	120169080	3	1	174	1	0	0	0	0	1	0	0	0	12292	1522	53	5	253	5	POU2F3	11	120169080	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1794061	120169080	14837436	218	90676											
C11orf63	79864	broad.mit.edu	37	chr11	122817501	122817501	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agaaaagaagcagcagtaagGtaataaaagcgccattttta	19	8	9	5	1	0	2	0	0	0	2	0	2	0	2	1	1	3	4	1	1	8	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:122817501G>C	uc001pym.2	+	6	2226	c.1929_splice	c.e6+1	p.K643_splice		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1											ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		CAGCAGTAAGGTAATAAAAGC	0.378													13	53					0	0	0.001855	0	0		C	122817501	C	C	122817501	5	2	174	1	0	0	0	0	0	0	1	0	1657	1275	44	5	2012	5	C11orf63	11	122817501	Splice_Site	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2648421	122817501	12189015	219	90677											
OR4D5	219875	broad.mit.edu	37	chr11	123811129	123811129	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcggacattccccatggacaAggccgtctctgtgctataca	9	10	9	13	2	1	0	0	0	1	0	4	2	2	2	3	3	2	1	3	3	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:123811129A>C	uc001pzk.1	+	1	806	c.806A>C	c.(805-807)AAG>ACG	p.K269T		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CCCATGGACAAGGCCGTCTCT	0.498													6	145					0	0	0.001168	0	0		C	123811129	C	C	123811129	3	2	174	1	0	0	0	0	1	0	0	0	11076	72	3	5	808	5	OR4D5	11	123811129	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	993628	123811129	11195387	220	90678											
OR8B2	26595	broad.mit.edu	37	chr11	124252930	124252930	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagatgacgaaaaagagaaAgaaaaacagccgagtcatgc	21	3	11	6	2	1	4	1	1	0	3	1	8	1	4	1	0	3	0	1	0	5	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:124252930A>C	uc010sai.1	-	1	310	c.310T>G	c.(310-312)TTT>GTT	p.F104V		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		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)		AAAAAGAGAAAGAAAAACAGC	0.388													13	64					0	0	0.00245	0	0		C	124252930	C	C	124252930	3	2	174	1	0	0	0	0	1	0	0	0	11246	72	3	5	634	5	OR8B2	11	124252930	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	441801	124252930	10753586	221	90679											
OR8B4	283162	broad.mit.edu	37	chr11	124294715	124294715	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctggagctctggctgttctGataatcccacaaggataaac	11	10	10	10	0	2	1	0	1	2	0	3	3	3	3	1	3	2	4	1	3	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr11:124294715G>C	uc010sak.1	-	1	53	c.53C>G	c.(52-54)TCA>TGA	p.S18*		NM_001005196	NP_001005196	Q96RC9	OR8B4_HUMAN	olfactory receptor, family 8, subfamily B,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0279)		TGGCTGTTCTGATAATCCCAC	0.478													12	65					0	0	0.013537	0	0		C	124294715	C	C	124294715	4	2	174	1	0	0	0	0	0	1	0	0	11248	1294	45	5	878	5	OR8B4	11	124294715	Nonsense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	41785	124294715	10711801	222	90680											
B4GALNT3	283358	broad.mit.edu	37	chr12	657427	657427	+	Missense_Mutation	SNP	A	T	T	1	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	acgaccctggagccaagttcAccatcattgactccctctcc	9	9	6	17	1	3	1	2	1	1	0	5	3	4	2	5	1	1	1	5	1	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:657427A>T	uc001qii.1	+	9	817	c.817A>T	c.(817-819)ACC>TCC	p.T273S	B4GALNT3_uc001qij.1_Missense_Mutation_p.T175S	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	273	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			AGCCAAGTTCACCATCATTGA	0.597													9	37					0	0	0.010729	0	0		T	657427	T	T	657427	3	4	174	1	0	0	0	0	1	0	0	0	1269	159	6	5	851	5	B4GALNT3	12	657427	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08		657427	133194468	223	90681											
VWF	7450	broad.mit.edu	37	chr12	6080778	6080778	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctacactcttccaggaaGactgggagtccccccgcggt	8	7	11	15	2	1	1	0	0	1	1	3	4	3	3	5	3	1	0	5	3	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:6080778G>T	uc001qnn.1	-	44	7785	c.7535C>A	c.(7534-7536)TCT>TAT	p.S2512Y	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2512					blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	CTTCCAGGAAGACTGGGAGTC	0.622													25	59					8.24728e-16	8.94878e-16	0.004656	1	0		T	6080778	T	T	6080778	3	4	174	1	0	0	0	0	1	0	0	0	17272	942	33	5	942	5	VWF	12	6080778	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	5423351	6080778	127771117	224	90682											
C1S	716	broad.mit.edu	37	chr12	7177878	7177878	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	cccagtgtgggacctatgggCtctacacacgggtaaagaac	11	7	12	11	1	1	1	0	0	1	1	1	2	1	2	2	3	2	2	2	3	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:7177878C>G	uc001qsj.2	+	15	2709	c.1990C>G	c.(1990-1992)CTC>GTC	p.L664V	C1S_uc001qsk.2_Missense_Mutation_p.L664V|C1S_uc001qsl.2_Missense_Mutation_p.L664V|C1S_uc009zfr.2_Missense_Mutation_p.L497V|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	664	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	GACCTATGGGCTCTACACACG	0.537													21	143					0	0	0.010504	0	0		G	7177878	G	G	7177878	3	3	174	1	0	0	0	0	1	0	0	0	1977	797	28	5	2032	5	C1S	12	7177878	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	1097100	7177878	126674017	225	90683											
AICDA	57379	broad.mit.edu	37	chr12	8758006	8758006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaggaggtgaaccaggtgaCgcggtagcagcggccagggt	9	4	18	10	3	0	2	0	2	0	0	0	3	0	3	3	6	3	2	3	6	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:8758006C>T	uc001qur.2	-	3	311	c.232G>A	c.(232-234)GTC>ATC	p.V78I	AICDA_uc001qup.1_Missense_Mutation_p.V73I|AICDA_uc001quq.1_Missense_Mutation_p.V73I|AICDA_uc009zgd.1_Intron	NM_020661	NP_065712	Q9GZX7	AICDA_HUMAN	activation-induced cytidine deaminase	78					B cell differentiation|DNA demethylation|mRNA processing|negative regulation of methylation-dependent chromatin silencing	cytoplasm	cytidine deaminase activity|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung SC(5;0.184)					AACCAGGTGACGCGGTAGCAG	0.617									Immune_Deficiency_with_Hyper-IgM				14	31					0	0	0.004007	0	0		T	8758006	T	T	8758006	3	4	174	1	0	0	0	0	1	0	0	0	422	536	19	1	376	1	AICDA	12	8758006	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	1580128	8758006	125093889	226	90684											
A2M	2	broad.mit.edu	37	chr12	9254148	9254148	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggtagttcatgagacatGggctcaaggtggacaaagct	12	8	14	7	0	2	1	2	1	0	1	2	3	2	2	0	4	1	4	0	4	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:9254148G>A	uc001qvk.1	-	12	1502	c.1389C>T	c.(1387-1389)CCC>CCT	p.P463P	A2M_uc009zgk.1_Silent_p.P313P	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	463					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	CATGAGACATGGGCTCAAGGT	0.507													8	31					0	0	0.00308	0	0		A	9254148	A	A	9254148	2	1	174	1	0	0	0	0	0	0	0	1	4	1335	47	4		4	A2M	12	9254148	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	496142	9254148	124597747	227	90685											
KLRF1	51348	broad.mit.edu	37	chr12	9994946	9994946	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacagaaaaacctaagacaAttaaactacgtatggattgg	19	9	7	6	1	0	2	0	0	0	2	0	3	0	3	1	2	4	1	1	2	9	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:9994946A>C	uc010sgw.1	+	6	565	c.501A>C	c.(499-501)CAA>CAC	p.Q167H	KLRF1_uc009zgw.2_Missense_Mutation_p.Q118H|KLRF1_uc009zgx.2_RNA|KLRF1_uc001qwm.2_RNA|KLRF1_uc009zgy.2_RNA|KLRF1_uc009zgz.2_Intron|KLRF1_uc009zha.2_Intron	NM_016523	NP_057607	Q9NZS2	KLRF1_HUMAN	killer cell lectin-like receptor subfamily F,	168	C-type lectin.|Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to plasma membrane	MHC class I receptor activity|sugar binding			large_intestine(1)	1						ACCTAAGACAATTAAACTACG	0.333													16	53					0	0	0.00499	0	0		C	9994946	C	C	9994946	3	2	174	1	0	0	0	0	1	0	0	0	8436	98	4	5	522	5	KLRF1	12	9994946	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	740798	9994946	123856949	228	90686											
TAS2R7	50837	broad.mit.edu	37	chr12	10954529	10954529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtggcactgagctgcattCgcctgatatgtctccgcagg	6	11	12	12	2	1	2	0	2	1	0	3	2	1	2	2	2	2	4	2	2	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:10954529C>T	uc001qyv.2	-	1	698	c.641G>A	c.(640-642)CGA>CAA	p.R214Q		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	214	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						GAGCTGCATTCGCCTGATATG	0.512													4	36					0	0	0.009096	0	0		T	10954529	T	T	10954529	3	4	174	1	0	0	0	0	1	0	0	0	15611	884	31	1	319	1	TAS2R7	12	10954529	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	959583	10954529	122897366	229	90687											
DDX47	51202	broad.mit.edu	37	chr12	12967079	12967079	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaagggtgtgacagatgtGttgtgtgaagcttgtgacca	9	12	14	6	0	0	4	0	3	0	1	1	4	1	4	2	1	1	2	2	1	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:12967079G>C	uc001rav.2	+	5	700	c.102G>C	c.(100-102)GTG>GTC	p.V34V	DDX47_uc009zhw.1_Silent_p.V34V|DDX47_uc001rax.2_Silent_p.V34V|DDX47_uc001ray.2_Silent_p.V34V|DDX47_uc010shn.1_Silent_p.V34V	NM_016355	NP_057439	Q9H0S4	DDX47_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 47	34	Q motif.					nucleolus|nucleolus	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding				0		Prostate(47;0.0526)		BRCA - Breast invasive adenocarcinoma(232;0.0354)		TGACAGATGTGTTGTGTGAAG	0.453													9	172					0	0	0.006214	0	0		C	12967079	C	C	12967079	2	2	174	1	0	0	0	0	0	0	0	1	4368	1364	48	5		5	DDX47	12	12967079	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2012550	12967079	120884816	230	90688											
C12orf69	440087	broad.mit.edu	37	chr12	14958991	14958991	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtaatggcatgattataTttttctgaggctgatttgaa	11	17	9	4	0	2	4	1	4	1	0	2	4	2	4	0	2	0	3	0	2	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:14958991T>G	uc001rck.1	-	2	697	c.624A>C	c.(622-624)AAA>AAC	p.K208N	WBP11_uc001rci.2_5'Flank|C12orf60_uc001rcj.3_Intron	NM_001013698	NP_001013720	A2RU48	CL069_HUMAN	hypothetical protein LOC440087	208						integral to membrane					0						CATGATTATATTTTTCTGAGG	0.408													40	67					0	0	0.00874	0	0		G	14958991	G	G	14958991	3	3	174	1	0	0	0	0	1	0	0	0	1714	1490	52	5	57	5	C12orf69	12	14958991	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1991912	14958991	118892904	231	90689											
H1FNT	341567	broad.mit.edu	37	chr12	48723523	48723523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccctggaggaccccagccgCgccccggagctcccggaggc	5	3	14	19	4	0	0	0	0	0	0	2	4	2	4	7	5	2	1	7	5	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:48723523C>T	uc001rrm.2	+	1	761	c.449C>T	c.(448-450)GCG>GTG	p.A150V		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	150	Arg-rich.				chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						ACCCCAGCCGCGCCCCGGAGC	0.701													10	11					0	0	0.006214	0	0		T	48723523	T	T	48723523	3	4	174	1	0	0	0	0	1	0	0	0	6937	768	27	1	451	1	H1FNT	12	48723523	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	33764532	48723523	85128372	232	90690											
KRT5	3852	broad.mit.edu	37	chr12	52908759	52908759	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccgggaggaggaggtGgtggagacaaatttgacgct	9	9	16	7	2	1	2	0	1	1	1	2	6	2	5	1	6	0	1	1	6	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:52908759G>A	uc001san.2	-	9	1903	c.1740C>T	c.(1738-1740)ACC>ACT	p.T580T		NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	580	Tail.|Ser-rich.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		AGGAGGAGGTGGTGGAGACAA	0.607													19	56					0	0	0.006122	0	0		A	52908759	A	A	52908759	2	1	174	1	0	0	0	0	0	0	0	1	8495	1335	47	4		4	KRT5	12	52908759	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	4185236	52908759	80943136	233	90691											
KRT78	196374	broad.mit.edu	37	chr12	53233611	53233611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatccagggaaagcttcGtgctcgtcagctcctggtac	8	9	10	14	2	1	0	1	0	0	0	5	1	3	1	3	2	4	4	3	2	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:53233611G>A	uc001sbc.1	-	7	1269	c.1205C>T	c.(1204-1206)ACG>ATG	p.T402M		NM_173352	NP_775487	Q8N1N4	K2C78_HUMAN	keratin 5b	402	Coil 2.|Rod.					keratin filament	protein binding|structural molecule activity			ovary(2)	2						GGAAAGCTTCGTGCTCGTCAG	0.612													20	53					0	0	0.007413	0	0		A	53233611	A	A	53233611	3	1	174	1	0	0	0	0	1	0	0	0	8507	1145	40	1	369	1	KRT78	12	53233611	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	324852	53233611	80618284	234	90692											
NCKAP1L	3071	broad.mit.edu	37	chr12	54914575	54914575	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccctgatttgtgctcacTttgtccactgcactcatgag	6	14	7	14	0	2	2	2	2	0	0	4	2	4	2	3	0	2	2	3	0	0	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:54914575T>G	uc001sgc.3	+	17	1802	c.1723T>G	c.(1723-1725)TTT>GTT	p.F575V	NCKAP1L_uc010sox.1_Missense_Mutation_p.F117V|NCKAP1L_uc010soy.1_Missense_Mutation_p.F525V	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	575					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TTGTGCTCACTTTGTCCACTG	0.463													18	259					0	0	0.006122	0	0		G	54914575	G	G	54914575	3	3	174	1	0	0	0	0	1	0	0	0	10241	1609	56	5	1789	5	NCKAP1L	12	54914575	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1680964	54914575	78937320	235	90693											
PTPRB	5787	broad.mit.edu	37	chr12	70965039	70965039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcctcagtgctcctgttgCgcaatgttagatccttaaca	9	13	8	11	1	1	1	1	0	0	1	4	1	4	1	3	0	3	4	3	0	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:70965039C>T	uc001swb.3	-	11	2513	c.2483G>A	c.(2482-2484)CGC>CAC	p.R828H	PTPRB_uc010sto.1_Missense_Mutation_p.R828H|PTPRB_uc010stp.1_Missense_Mutation_p.R738H|PTPRB_uc001swc.3_Missense_Mutation_p.R1046H|PTPRB_uc001swa.3_Missense_Mutation_p.R958H|PTPRB_uc001swd.3_Missense_Mutation_p.R1045H|PTPRB_uc009zrr.1_Missense_Mutation_p.R925H	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	828	Fibronectin type-III 10.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			GCTCCTGTTGCGCAATGTTAG	0.413													3	23					0	0	0.004672	0	0		T	70965039	T	T	70965039	3	4	174	1	0	0	0	0	1	0	0	0	12821	768	27	1	3598	1	PTPRB	12	70965039	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	16050464	70965039	62886856	236	90694											
NDUFA12	55967	broad.mit.edu	37	chr12	95397430	95397430	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtgatctgctgcagcccGcgtttcaggacctgcactaa	7	9	11	14	3	2	1	1	1	1	0	2	2	2	2	3	2	4	4	3	2	1	2	rs11554615		TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:95397430G>C	uc001tdl.2	-	1	82	c.27C>G	c.(25-27)CGC>CGG	p.R9R		NM_018838	NP_061326	Q9UI09	NDUAC_HUMAN	13kDa differentiation-associated protein	9					respiratory electron transport chain|respiratory gaseous exchange|response to oxidative stress|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity				0					NADH(DB00157)	GCTGCAGCCCGCGTTTCAGGA	0.652													45	69					0	0	0.01441	0	0		C	95397430	C	C	95397430	2	2	174	1	0	0	0	0	0	0	0	1	10281	1074	38	5		5	NDUFA12	12	95397430	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	24432391	95397430	38454465	237	90695											
UTP20	27340	broad.mit.edu	37	chr12	101759288	101759288	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccggaaagttcatgaaactTtacgccgaatcacagtggga	13	8	10	10	3	2	1	2	1	0	0	2	4	2	3	2	2	2	1	2	2	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:101759288T>G	uc001tia.1	+	46	6166	c.6010T>G	c.(6010-6012)TTA>GTA	p.L2004V		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	2004					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						TCATGAAACTTTACGCCGAAT	0.373													5	21					0	0	0.001168	0	0		G	101759288	G	G	101759288	3	3	174	1	0	0	0	0	1	0	0	0	17125	1838	64	5	6192	5	UTP20	12	101759288	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	6361858	101759288	32092607	238	90696											
ACACB	32	broad.mit.edu	37	chr12	109637357	109637357	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagctacgctgagatggaGgtgactgcagagccggccgt	9	6	16	10	3	0	3	0	2	0	2	0	5	0	4	2	3	5	4	2	3	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:109637357G>A	uc001tob.2	+	18	2897	c.2778G>A	c.(2776-2778)GAG>GAA	p.E926E	ACACB_uc001toc.2_Silent_p.E926E	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	926	Biotinyl-binding.				acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CTGAGATGGAGGTGACTGCAG	0.587													12	58					0	0	0.013537	0	0		A	109637357	A	A	109637357	2	1	174	1	0	0	0	0	0	0	0	1	107	1014	35	4		4	ACACB	12	109637357	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7878069	109637357	24214538	239	90697											
ERP29	10961	broad.mit.edu	37	chr12	112460298	112460298	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagatcatggggaagatcTtagaccaaggggaggacttc	13	8	14	6	0	2	4	1	1	1	3	3	7	2	7	1	5	0	0	1	5	4	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:112460298T>G	uc001ttk.1	+	3	746	c.628T>G	c.(628-630)TTA>GTA	p.L210V	ERP29_uc001ttl.1_3'UTR	NM_006817	NP_006808	P30040	ERP29_HUMAN	endoplasmic reticulum protein 29 isoform 1	210					intracellular protein transport|protein folding|protein secretion	endoplasmic reticulum lumen|melanosome	protein disulfide isomerase activity				0						GGGGAAGATCTTAGACCAAGG	0.532													12	48					0	0	0.013537	0	0		G	112460298	G	G	112460298	3	3	174	1	0	0	0	0	1	0	0	0	5250	1606	56	5	638	5	ERP29	12	112460298	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2822941	112460298	21391597	240	90698											
C12orf51	283450	broad.mit.edu	37	chr12	112630954	112630954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatgttgactttggattcGgaaattgggaactcttcgga	9	14	11	7	2	1	1	0	1	1	0	4	5	2	5	1	4	1	1	1	4	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:112630954G>A	uc009zwc.2	-	51	7749	c.7731C>T	c.(7729-7731)TCC>TCT	p.S2577S		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CTTTGGATTCGGAAATTGGGA	0.473													4	19					0	0	0.000602	0	0		A	112630954	A	A	112630954	2	1	174	1	0	0	0	0	0	0	0	1	1699	1103	39	1		1	C12orf51	12	112630954	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	170656	112630954	21220941	241	90699											
TPCN1	53373	broad.mit.edu	37	chr12	113705654	113705654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctggtctcaggtccacGccaccctggagctgtttgcc	4	10	10	17	1	2	0	1	0	2	0	4	1	3	1	5	3	2	2	5	3	0	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:113705654G>A	uc001tuw.2	+	5	718	c.421G>A	c.(421-423)GCC>ACC	p.A141T	TPCN1_uc001tux.2_Missense_Mutation_p.A213T|TPCN1_uc010syt.1_Missense_Mutation_p.A73T	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2	141	Helical; Name=S2 of repeat I; (Potential).					endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						TCAGGTCCACGCCACCCTGGA	0.612													10	7					0	0	0.008291	0	0		A	113705654	A	A	113705654	3	1	174	1	0	0	0	0	1	0	0	0	16421	1087	38	1	655	1	TPCN1	12	113705654	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1074700	113705654	20146241	242	90700											
SBNO1	55206	broad.mit.edu	37	chr12	123812541	123812541	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagaaccaacaggacataAgtttttggctttatgacact	14	12	8	7	0	0	3	0	2	0	1	0	4	0	4	1	2	2	2	1	2	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr12:123812541A>C	uc010tap.1	-	10	1330	c.1330T>G	c.(1330-1332)TTA>GTA	p.L444V	SBNO1_uc010tao.1_Missense_Mutation_p.L443V|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Missense_Mutation_p.L444V|SBNO1_uc001ueu.2_Missense_Mutation_p.L443V|SBNO1_uc001uev.2_Missense_Mutation_p.L442V|SBNO1_uc009zxy.1_Missense_Mutation_p.L409V	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	444							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		ACAGGACATAAGTTTTTGGCT	0.368													7	96					0	0	0.008291	0	0		C	123812541	C	C	123812541	3	2	174	1	0	0	0	0	1	0	0	0	13887	69	3	5	2939	5	SBNO1	12	123812541	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	10106887	123812541	10039354	243	90701											
SACS	26278	broad.mit.edu	37	chr13	23905608	23905608	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttcactcctaaactgtcaAgtttctcaccaatcctgtaa	12	14	3	12	0	3	0	3	0	1	0	6	0	5	0	3	0	1	2	3	0	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:23905608A>C	uc001uon.2	-	10	12996	c.12407T>G	c.(12406-12408)CTT>CGT	p.L4136R	SACS_uc001uoo.2_Missense_Mutation_p.L3989R|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	4136					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TAAACTGTCAAGTTTCTCACC	0.383													41	54					0	0	0.006999	0	0		C	23905608	C	C	23905608	3	2	174	1	0	0	0	0	1	0	0	0	13829	72	3	5	1336	5	SACS	13	23905608	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08		23905608	91264270	244	90702											
ATP12A	479	broad.mit.edu	37	chr13	25262594	25262594	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tctatcctcctgtgggtgggCgcctttctctgttggattgc	2	16	12	11	1	2	0	0	0	2	0	5	1	4	1	3	3	1	1	3	3	1	4	rs150504279	by1000genomes	TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:25262594C>T	uc001upp.2	+	4	553	c.366C>T	c.(364-366)GGC>GGT	p.G122G	ATP12A_uc010aaa.2_Silent_p.G122G	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	122	Helical; (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	TGTGGGTGGGCGCCTTTCTCT	0.572													67	258					0	0	0.01441	0	0		T	25262594	T	T	25262594	2	4	174	1	0	0	0	0	0	0	0	1	1123	755	27	1		1	ATP12A	13	25262594	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	1356986	25262594	89907284	245	90703											
RXFP2	122042	broad.mit.edu	37	chr13	32376379	32376379	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccaacttttttaaggacaAgttgaaacagctgctgcaca	15	10	7	9	0	0	1	0	1	0	0	0	2	0	2	1	1	6	4	1	1	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:32376379A>C	uc001utt.2	+	18	2173	c.2102A>C	c.(2101-2103)AAG>ACG	p.K701T	RXFP2_uc010aba.2_Missense_Mutation_p.K660T	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	701	Cytoplasmic (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		TTTAAGGACAAGTTGAAACAG	0.363													16	69					0	0	0.003163	0	0		C	32376379	C	C	32376379	3	2	174	1	0	0	0	0	1	0	0	0	13785	72	3	5	2172	5	RXFP2	13	32376379	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	7113785	32376379	82793499	246	90704											
STARD13	90627	broad.mit.edu	37	chr13	33859652	33859652	+	Missense_Mutation	SNP	T	G	G	0	1	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	atggcgtgctagaatccggcTcatcctgtaaggagagcgtc	9	9	13	10	3	1	2	1	0	0	2	4	3	3	2	2	3	2	3	2	3	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:33859652T>G	uc001uuw.2	-	1	250	c.124A>C	c.(124-126)AGC>CGC	p.S42R	STARD13_uc001uux.2_Intron|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Intron	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	42					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		AGAATCCGGCTCATCCTGTAA	0.498													69	90					0	0	0.01441	0	0		G	33859652	G	G	33859652	3	3	174	1	0	0	0	0	1	0	0	0	15281	1551	54	5	3422	5	STARD13	13	33859652	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1483273	33859652	81310226	247	90705											
CCDC70	83446	broad.mit.edu	37	chr13	52439824	52439824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agaaaaccttctggaaagagGaaaaatccttctgggaaatg	17	8	10	6	0	2	2	0	0	2	2	3	5	3	5	2	3	1	0	2	3	6	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:52439824G>A	uc001vfu.3	+	2	606	c.310G>A	c.(310-312)GAA>AAA	p.E104K	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	104						extracellular region|plasma membrane					0		Breast(56;0.000207)|Lung NSC(96;0.00145)|Prostate(109;0.0107)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;2.4e-08)		CTGGAAAGAGGAAAAATCCTT	0.473													14	137					0	0	0.004007	0	0		A	52439824	A	A	52439824	3	1	174	1	0	0	0	0	1	0	0	0	2846	1175	41	4	312	4	CCDC70	13	52439824	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	18580172	52439824	62730054	248	90706											
PCDH17	27253	broad.mit.edu	37	chr13	58299162	58299162	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaagcaagcagtcagtacTtgcccactgacagtcaatat	13	9	8	11	0	2	2	2	2	0	0	2	2	2	2	1	0	4	3	1	0	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:58299162T>A	uc001vhq.1	+	4	4106	c.3214T>A	c.(3214-3216)TTG>ATG	p.L1072M	PCDH17_uc010aec.1_Missense_Mutation_p.L1071M|PCDH17_uc001vhr.1_Missense_Mutation_p.L161M	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1072	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CAGTCAGTACTTGCCCACTGA	0.532													48	53					0	0	0.01441	0	0		A	58299162	A	A	58299162	3	1	174	1	0	0	0	0	1	0	0	0	11531	1606	56	5	3228	5	PCDH17	13	58299162	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	5859338	58299162	56870716	249	90707											
LMO7	4008	broad.mit.edu	37	chr13	76427387	76427387	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcaaaccgtgcctacatgcgGaacccctcctccagcgtgcc	8	7	8	18	3	1	0	1	0	0	0	3	1	3	1	7	1	7	0	7	1	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:76427387G>A	uc001vjv.2	+	25	4585	c.3825G>A	c.(3823-3825)CGG>CGA	p.R1275R	LMO7_uc010thv.1_Silent_p.R1226R|LMO7_uc010thw.1_Silent_p.R1152R	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	1560						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		CCTACATGCGGAACCCCTCCT	0.602													5	31					0	0	0.000602	0	0		A	76427387	A	A	76427387	2	1	174	1	0	0	0	0	0	0	0	1	8872	1161	41	4		4	LMO7	13	76427387	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	18128225	76427387	38742491	250	90708											
EDNRB	1910	broad.mit.edu	37	chr13	78492700	78492700	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgtccgcacagacttggaggCggctgcatgctgctacctgc	6	8	13	14	3	0	1	0	0	0	1	1	2	1	2	2	3	5	5	2	3	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:78492700C>T	uc001vko.2	-	1	267	c.9G>A	c.(7-9)CCG>CCA	p.P3P	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Silent_p.P3P|EDNRB_uc010aez.1_Silent_p.P3P|EDNRB_uc001vkp.1_Silent_p.P86P|EDNRB_uc010afa.1_Silent_p.P3P	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	3					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	GACTTGGAGGCGGCTGCATGC	0.642											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	17					0	0	0.004007	0	0		T	78492700	T	T	78492700	2	4	174	1	0	0	0	0	0	0	0	1	4926	755	27	1		1	EDNRB	13	78492700	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	2065313	78492700	36677178	251	90709											
RBM26	64062	broad.mit.edu	37	chr13	79940817	79940817	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggacctggcggtggtactggGggcctgagattcacaggtgg	6	8	19	8	1	1	1	1	1	0	1	1	3	1	2	2	8	1	1	2	8	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:79940817G>A	uc001vkz.2	-	7	1100	c.1086C>T	c.(1084-1086)CCC>CCT	p.P362P	RBM26_uc001vky.2_Silent_p.P362P|RBM26_uc001vla.2_Silent_p.P362P|RBM26_uc001vkx.2_Silent_p.P74P|RBM26_uc001vlb.1_RNA	NM_022118	NP_071401	Q5T8P6	RBM26_HUMAN	RNA binding motif protein 26	362	Pro-rich.				mRNA processing		nucleotide binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)		GBM - Glioblastoma multiforme(99;0.0188)		GTGGTACTGGGGGCCTGAGAT	0.527													15	75					0	0	0.006122	0	0		A	79940817	A	A	79940817	2	1	174	1	0	0	0	0	0	0	0	1	13151	1219	43	4		4	RBM26	13	79940817	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1448117	79940817	35229061	252	90710											
SLITRK1	114798	broad.mit.edu	37	chr13	84454576	84454576	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgttgttgcagttcatcTttaaacccgaccctgggatg	7	14	9	11	1	2	0	1	0	1	0	3	2	3	1	3	1	2	4	3	1	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:84454576T>G	uc001vlk.2	-	1	1953	c.1067A>C	c.(1066-1068)AAG>ACG	p.K356T		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	356	Extracellular (Potential).|LRRNT 2.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GCAGTTCATCTTTAAACCCGA	0.537													8	66					0	0	0.00308	0	0		G	84454576	G	G	84454576	3	3	174	1	0	0	0	0	1	0	0	0	14767	1609	56	5	1027	5	SLITRK1	13	84454576	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4513759	84454576	30715302	253	90711											
SLITRK5	26050	broad.mit.edu	37	chr13	88329798	88329798	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtacagcgtgtacggcGgcggcggcggcacgggcggc	5	4	20	12	8	0	0	0	0	0	0	0	0	0	0	0	7	4	4	0	7	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:88329798G>A	uc001vln.2	+	2	2374	c.2155G>A	c.(2155-2157)GGC>AGC	p.G719S	SLITRK5_uc010tic.1_Missense_Mutation_p.G478S	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	719	Cytoplasmic (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CGTGTACGGCGGCGGCGGCGG	0.647													38	43					0	0	0.00623	0	0		A	88329798	A	A	88329798	3	1	174	1	0	0	0	0	1	0	0	0	14771	1116	39	1	2157	1	SLITRK5	13	88329798	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	3875222	88329798	26840080	254	90712											
UGGT2	55757	broad.mit.edu	37	chr13	96579548	96579548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggtacaacattattcctatCcattagaaaatcaattgcat	15	13	5	8	0	1	1	1	0	0	1	3	1	3	1	2	1	3	2	2	1	8	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:96579548C>T	uc001vmt.2	-	18	2190	c.2020G>A	c.(2020-2022)GAT>AAT	p.D674N		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	674					post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						TTATTCCTATCCATTAGAAAA	0.299													27	50					0	0	0.005443	0	0		T	96579548	T	T	96579548	3	4	174	1	0	0	0	0	1	0	0	0	16968	855	30	4	2618	4	UGGT2	13	96579548	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	8249750	96579548	18590330	255	90713											
TFDP1	7027	broad.mit.edu	37	chr13	114290350	114290350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcggagcagcaggccagccGgccaccgccacccaactcag	9	2	12	18	3	1	0	1	0	0	0	1	1	1	1	6	3	5	2	6	3	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr13:114290350G>A	uc001vtw.2	+	9	958	c.746G>A	c.(745-747)CGG>CAG	p.R249Q	TFDP1_uc010tkd.1_Missense_Mutation_p.R154Q|TFDP1_uc010tke.1_Missense_Mutation_p.R154Q|TFDP1_uc001vty.3_Missense_Mutation_p.R249Q|TFDP1_uc001vtx.2_Missense_Mutation_p.R129Q	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	249	Dimerization (Potential).|Enhances binding of RB protein to E2F.				cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			CAGGCCAGCCGGCCACCGCCA	0.552										TSP Lung(29;0.18)			38	127					0	0	0.004878	0	0		A	114290350	A	A	114290350	3	1	174	1	0	0	0	0	1	0	0	0	15822	1116	39	1	776	1	TFDP1	13	114290350	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	17710802	114290350	879528	256	90714											
OR4K13	390433	broad.mit.edu	37	chr14	20502077	20502077	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataaataataggatttaagaGaggtgtgaaaattgtgtaaa	19	12	10	0	0	0	2	0	1	0	1	0	4	0	3	0	2	0	1	0	2	9	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:20502077G>T	uc010tkz.1	-	1	841	c.841C>A	c.(841-843)CTC>ATC	p.L281I		NM_001004714	NP_001004714	Q8NH42	OR4KD_HUMAN	olfactory receptor, family 4, subfamily K,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		GGATTTAAGAGAGGTGTGAAA	0.333													28	31					2.12542e-12	2.26967e-12	0.00632	1	0		T	20502077	T	T	20502077	3	4	174	1	0	0	0	0	1	0	0	0	11087	942	33	5	75	5	OR4K13	14	20502077	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08		20502077	86847463	257	90715											
RGS6	9628	broad.mit.edu	37	chr14	72926380	72926380	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactgctgggaacctgaaaAcactgactatggtgagaact	14	8	11	8	0	0	3	0	3	0	1	0	6	0	4	1	2	5	1	1	2	6	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:72926380A>C	uc001xna.3	+	6	906	c.383A>C	c.(382-384)AAC>ACC	p.N128T	RGS6_uc010ttn.1_Missense_Mutation_p.N128T|RGS6_uc001xmx.3_Missense_Mutation_p.N128T|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.N128T|RGS6_uc010ttp.1_Missense_Mutation_p.N59T|RGS6_uc001xmz.1_5'UTR|RGS6_uc010arg.2_RNA	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	128					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GAACCTGAAAACACTGACTAT	0.557													8	95					0	0	0.006214	0	0		C	72926380	C	C	72926380	3	2	174	1	0	0	0	0	1	0	0	0	13334	43	2	5	401	5	RGS6	14	72926380	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	52424303	72926380	34423160	258	90716											
KIAA0317	9870	broad.mit.edu	37	chr14	75139568	75139568	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catgtctgctgaccttcaggGtgactttggaatgtggtctt	6	15	12	8	0	3	2	1	2	2	0	3	3	3	3	1	3	1	1	1	3	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:75139568G>C	uc001xqb.2	-	11	1893	c.1388C>G	c.(1387-1389)ACC>AGC	p.T463S	KIAA0317_uc010tut.1_Missense_Mutation_p.T302S|KIAA0317_uc001xqc.2_Missense_Mutation_p.T463S	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	463					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		GACCTTCAGGGTGACTTTGGA	0.453													67	91					0	0	0.01441	0	0		C	75139568	C	C	75139568	3	2	174	1	0	0	0	0	1	0	0	0	8183	1261	44	5	1123	5	KIAA0317	14	75139568	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2213188	75139568	32209972	259	90717											
POMT2	29954	broad.mit.edu	37	chr14	77778318	77778318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggggcgggtgcacatcaaAgaaaaatgtacggttgatat	14	8	13	6	2	1	2	1	1	0	1	1	2	1	2	0	4	2	3	0	4	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:77778318A>G	uc001xti.2	-	2	508	c.307T>C	c.(307-309)TTT>CTT	p.F103L	POMT2_uc010asr.2_Intron	NM_013382	NP_037514	Q9UKY4	POMT2_HUMAN	protein-O-mannosyltransferase 2	103	Helical; (Potential).				protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0292)		TGCACATCAAAGAAAAATGTA	0.423													15	20					0	0	0.00245	0	0		G	77778318	G	G	77778318	3	3	174	1	0	0	0	0	1	0	0	0	12265	72	3	3	2025	3	POMT2	14	77778318	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2638750	77778318	29571222	260	90718											
KIAA1409	57578	broad.mit.edu	37	chr14	94112973	94112973	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattggcatccagtactaccTtttctaatcaagcagaaagg	13	11	8	9	0	2	1	1	0	1	1	3	2	3	1	2	2	3	3	2	2	5	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:94112973T>A	uc001ybv.1	+	34	5799	c.5716T>A	c.(5716-5718)TTT>ATT	p.F1906I	KIAA1409_uc001ybs.1_Missense_Mutation_p.F1884I	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2061						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		CAGTACTACCTTTTCTAATCA	0.403													8	38					0	0	0.006214	0	0		A	94112973	A	A	94112973	3	1	174	1	0	0	0	0	1	0	0	0	8246	1609	56	5	5780	5	KIAA1409	14	94112973	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	16334655	94112973	13236567	261	90719											
CLMN	79789	broad.mit.edu	37	chr14	95669187	95669187	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgagtacctgatggctgtcCatggggtcattctctttggt	5	16	12	8	0	2	2	1	2	1	0	4	2	3	2	2	4	1	2	2	4	1	4	rs150763369	byFrequency	TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:95669187C>A	uc001yef.2	-	9	2615	c.2499G>T	c.(2497-2499)ATG>ATT	p.M833I		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	833						integral to membrane	actin binding				0				Epithelial(152;0.193)		GATGGCTGTCCATGGGGTCAT	0.557													13	94					6.31663e-08	6.66991e-08	0.003163	1	0		A	95669187	A	A	95669187	3	1	174	1	0	0	0	0	1	0	0	0	3545	594	21	5	529	5	CLMN	14	95669187	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	1556214	95669187	11680353	262	90720											
DIO3	1735	broad.mit.edu	37	chr14	102028220	102028220	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggatttcttcaagcaggcGcacgagggcggtccggcgcc	6	8	15	12	5	2	0	1	0	1	0	3	2	3	1	2	5	1	2	2	5	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:102028220G>T	uc010txq.1	+	1	533	c.309G>T	c.(307-309)GCG>GCT	p.A103A	DIO3OS_uc001ykd.1_5'Flank|uc001yke.2_5'Flank|uc001ykf.2_5'Flank|uc001ykg.2_5'Flank|uc001ykh.3_5'Flank|MIR1247_hsa-mir-1247|MI0006382_5'Flank	NM_001362	NP_001353	P55073	IOD3_HUMAN	deiodinase, iodothyronine, type III	103	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process	endosome membrane|integral to membrane|plasma membrane	thyroxine 5'-deiodinase activity|thyroxine 5-deiodinase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		all_neural(303;0.185)				TCAAGCAGGCGCACGAGGGCG	0.657													12	58					1.49906e-05	1.56539e-05	0.00245	1	0		T	102028220	T	T	102028220	2	4	174	1	0	0	0	0	0	0	0	1	4532	1074	38	5		5	DIO3	14	102028220	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	6359033	102028220	5321320	263	90721											
AHNAK2	113146	broad.mit.edu	37	chr14	105415965	105415965	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgacatcgggggctgtcacTtccgccttggggcctttcag	4	11	13	13	3	2	0	2	0	0	0	5	1	3	0	3	4	0	1	3	4	0	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr14:105415965T>G	uc010axc.1	-	7	5943	c.5823A>C	c.(5821-5823)GAA>GAC	p.E1941D	AHNAK2_uc001ypx.2_Missense_Mutation_p.E1841D	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1941						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GGGCTGTCACTTCCGCCTTGG	0.607													7	294					0	0	0.00308	0	0		G	105415965	G	G	105415965	3	3	174	1	0	0	0	0	1	0	0	0	415	1606	56	5	11568	5	AHNAK2	14	105415965	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	3387745	105415965	1933575	264	90722											
C15orf55	256646	broad.mit.edu	37	chr15	34649257	34649257	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatagttccgagagaaacTtctgttagtaaaacacacag	15	9	8	9	1	1	1	0	0	1	1	2	3	2	1	2	0	2	3	2	0	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr15:34649257T>G	uc001zif.2	+	7	3119	c.2964T>G	c.(2962-2964)ACT>ACG	p.T988T	C15orf55_uc010ucc.1_Silent_p.T1016T|C15orf55_uc010ucd.1_Silent_p.T1006T	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	988						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		CGAGAGAAACTTCTGTTAGTA	0.473			T	BRD3|BRD4	lethal midline carcinoma								4	31					0	0	0.009096	0	0		G	34649257	G	G	34649257	2	3	174	1	0	0	0	0	0	0	0	1	1806	1596	56	5		5	C15orf55	15	34649257	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08		34649257	67882135	265	90723											
TLN2	83660	broad.mit.edu	37	chr15	62945507	62945507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggccaagctgcacacagatGatgaccgtaagtgtttgcag	12	8	12	9	1	0	3	0	2	0	1	0	3	0	3	2	1	3	5	2	1	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr15:62945507G>A	uc002alb.3	+	4	511	c.511G>A	c.(511-513)GAT>AAT	p.D171N		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	171	FERM.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GCACACAGATGATGACCGTAA	0.473													13	22					0	0	0.001855	0	0		A	62945507	A	A	62945507	3	1	174	1	0	0	0	0	1	0	0	0	15973	1290	45	4	525	4	TLN2	15	62945507	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	28296250	62945507	39585885	266	90724											
HERC1	8925	broad.mit.edu	37	chr15	63926976	63926976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagtcactctctctggaaGttttttgttagaggtatttc	7	18	9	7	0	3	1	1	0	2	1	5	2	3	2	0	2	1	4	0	2	3	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr15:63926976G>A	uc002amp.2	-	66	12674	c.12526C>T	c.(12526-12528)CTT>TTT	p.L4176F		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	4176	RCC1 11.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						CTCTCTGGAAGTTTTTTGTTA	0.423													4	14					0	0	0.009096	0	0		A	63926976	A	A	63926976	3	1	174	1	0	0	0	0	1	0	0	0	7073	1029	36	4	2111	4	HERC1	15	63926976	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	981469	63926976	38604416	267	90725											
WDR90	197335	broad.mit.edu	37	chr16	705073	705073	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtgggcctcggtggcgaGgtggtcgttctggcaaaggc	5	8	19	9	3	1	0	0	0	1	0	3	1	1	0	1	8	0	2	1	8	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:705073G>A	uc002cii.1	+	14	1536	c.1482G>A	c.(1480-1482)GAG>GAA	p.E494E	WDR90_uc002cig.1_Silent_p.E494E|WDR90_uc002cih.1_Silent_p.E495E|WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_5'UTR|WDR90_uc002cil.1_5'Flank|WDR90_uc002cim.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	494	WD 2.									ovary(1)	1		Hepatocellular(780;0.0218)				TCGGTGGCGAGGTGGTCGTTC	0.642													8	50					0	0	0.00308	0	0		A	705073	A	A	705073	2	1	174	1	0	0	0	0	0	0	0	1	17363	991	35	4		4	WDR90	16	705073	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08		705073	89649680	268	90726											
ZG16B	124220	broad.mit.edu	37	chr16	2882108	2882108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tccactagaggagccgaccaCtgagccaccagttaatctca	12	7	8	14	1	1	2	1	1	1	1	3	4	2	3	5	1	2	1	5	1	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:2882108C>T	uc002cru.2	+	4	651	c.575C>T	c.(574-576)ACT>ATT	p.T192I		NM_145252	NP_660295	Q96DA0	ZG16B_HUMAN	zymogen granule protein 16 homolog B precursor	192						extracellular region	sugar binding			ovary(1)	1						GAGCCGACCACTGAGCCACCA	0.562													22	74					0	0	0.00278	0	0		T	2882108	T	T	2882108	3	4	174	1	0	0	0	0	1	0	0	0	17697	565	20	4	589	4	ZG16B	16	2882108	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	2177035	2882108	87472645	269	90727											
GRIN2A	2903	broad.mit.edu	37	chr16	9934899	9934899	+	Missense_Mutation	SNP	A	G	G	1	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	cagttctggaaagcttcttcAgaatatcaatgcagaacccc	13	10	7	11	0	4	2	2	0	2	2	4	3	4	3	2	1	3	3	2	1	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:9934899A>G	uc002czo.3	-	6	1939	c.1391T>C	c.(1390-1392)CTG>CCG	p.L464P	GRIN2A_uc010uym.1_Missense_Mutation_p.L464P|GRIN2A_uc010uyn.1_Missense_Mutation_p.L307P|GRIN2A_uc002czr.3_Missense_Mutation_p.L464P	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	464	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AAGCTTCTTCAGAATATCAAT	0.353													14	58					0	0	0.003163	0	0		G	9934899	G	G	9934899	3	3	174	1	0	0	0	0	1	0	0	0	6795	188	7	3	3035	3	GRIN2A	16	9934899	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	7052791	9934899	80419854	270	90728											
USP31	57478	broad.mit.edu	37	chr16	23080245	23080245	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agagacttttacaggaagagGagaagaaggggatgtacttg	15	8	15	3	0	0	4	0	0	0	4	0	8	0	6	0	4	2	1	0	4	5	4	rs151219972	by1000genomes	TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:23080245G>C	uc002dll.2	-	16	3181	c.3181C>G	c.(3181-3183)CCT>GCT	p.P1061A	USP31_uc002dlk.2_Missense_Mutation_p.P333A|USP31_uc010vca.1_Missense_Mutation_p.P364A|USP31_uc010bxm.2_Missense_Mutation_p.P349A	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1061	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		ACAGGAAGAGGAGAAGAAGGG	0.557													40	54					0	0	0.007835	0	0		C	23080245	C	C	23080245	3	2	174	1	0	0	0	0	1	0	0	0	17088	1174	41	5	881	5	USP31	16	23080245	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	13145346	23080245	67274508	271	90729											
NSMCE1	197370	broad.mit.edu	37	chr16	27238064	27238064	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaggaggctgtgacagaTattgcagatcttcaccgcgt	10	10	13	8	2	2	4	1	2	1	2	2	6	2	5	1	2	1	2	1	2	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:27238064T>C	uc002doi.1	-	6	675	c.577A>G	c.(577-579)ATC>GTC	p.I193V	NSMCE1_uc002doj.1_RNA	NM_145080	NP_659547	Q8WV22	NSE1_HUMAN	non-SMC element 1 homolog	193	NSE1-type.				DNA recombination|DNA repair|intracellular signal transduction	nucleus	zinc ion binding				0						CTGTGACAGATATTGCAGATC	0.627													25	41					0	0	0.004656	0	0		C	27238064	C	C	27238064	3	2	174	1	0	0	0	0	1	0	0	0	10694	1406	49	3	235	3	NSMCE1	16	27238064	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4157819	27238064	63116689	272	90730											
CYLD	1540	broad.mit.edu	37	chr16	50825577	50825577	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgttagaatggtcttttatCaacagtaacctgaaatttgc	12	16	7	6	0	2	2	1	1	1	1	2	2	2	2	1	1	3	2	1	1	6	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:50825577C>G	uc002egp.1	+	15	2632	c.2217C>G	c.(2215-2217)ATC>ATG	p.I739M	CYLD_uc010cbs.1_Missense_Mutation_p.I736M|CYLD_uc002egq.1_Missense_Mutation_p.I736M|CYLD_uc002egr.1_Missense_Mutation_p.I736M	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	739					cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				GGTCTTTTATCAACAGTAACC	0.348			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				21	49					0	0	0.014323	0	0		G	50825577	G	G	50825577	3	3	174	1	0	0	0	0	1	0	0	0	4146	816	29	5	2267	5	CYLD	16	50825577	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	23587513	50825577	39529176	273	90731											
GPR97	222487	broad.mit.edu	37	chr16	57707259	57707259	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagcccaccgaagggccaAgaaacacctgcctggggagc	14	2	12	13	1	0	1	0	0	0	1	0	3	0	2	5	3	4	0	5	3	5	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:57707259A>C	uc002emh.2	+	2	188	c.85A>C	c.(85-87)AGA>CGA	p.R29R	GPR97_uc010cdc.2_Silent_p.R29R|GPR97_uc010vhv.1_5'UTR|GPR97_uc010cdd.2_RNA	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	29	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						CGAAGGGCCAAGAAACACCTG	0.443													8	40					0	0	0.00308	0	0		C	57707259	C	C	57707259	2	2	174	1	0	0	0	0	0	0	0	1	6736	64	3	5		5	GPR97	16	57707259	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	6881682	57707259	32647494	274	90732											
C16orf46	123775	broad.mit.edu	37	chr16	81095607	81095607	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcccccctcagtaggaggcTtggtctggaggctccagtgg	5	8	16	12	0	2	0	1	0	1	0	3	2	3	2	4	7	0	3	4	7	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:81095607T>C	uc002fgc.3	-	4	606	c.347A>G	c.(346-348)AAG>AGG	p.K116R	C16orf46_uc010chf.2_Missense_Mutation_p.K116R|C16orf46_uc010vno.1_5'UTR	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	116											0						AGTAGGAGGCTTGGTCTGGAG	0.617													5	127					0	0	0.000602	0	0		C	81095607	C	C	81095607	3	2	174	1	0	0	0	0	1	0	0	0	1818	1609	56	3	872	3	C16orf46	16	81095607	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	23388348	81095607	9259146	275	90733											
SNAI3	333929	broad.mit.edu	37	chr16	88748082	88748082	+	Silent	SNP	C	T	T	0	0	0	1	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	ttgtctcgggggaggaggggCaccaccagccccccacaggc	7	4	15	15	1	1	0	0	0	1	0	2	2	1	2	5	6	1	1	5	6	0	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr16:88748082C>T	uc002flj.2	-	2	185	c.117G>A	c.(115-117)GTG>GTA	p.V39V	MGC23284_uc002fli.3_Intron	NM_178310	NP_840101	Q3KNW1	SNAI3_HUMAN	snail homolog 3	39					oxidation-reduction process		copper ion binding|DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.048)		GGAGGAGGGGCACCACCAGCC	0.632													20	11					0	0	0.00278	0	0		T	88748082	T	T	88748082	2	4	174	1	0	0	0	0	0	0	0	1	14853	697	25	2		2	SNAI3	16	88748082	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	7652475	88748082	1606671	276	90734											
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	12	6	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs28934576	by1000genomes	TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:7577120C>T	uc002gim.2	-	8	1012	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			9	16					0	0	0.004482	0	0		T	7577120	T	T	7577120	3	4	174	1	0	0	0	0	1	0	0	0	16407	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08		7577120	73618090	277	90735											
GLP2R	9340	broad.mit.edu	37	chr17	9792877	9792877	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggcggctcctacatctagCcatgcgaggtcttggggagc	6	9	15	11	2	2	0	0	0	2	0	3	2	3	1	2	5	4	1	2	5	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:9792877C>A	uc002gmd.1	+	13	1517	c.1517C>A	c.(1516-1518)GCC>GAC	p.A506D		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	506	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	CTACATCTAGCCATGCGAGGT	0.622													22	29					7.45023e-12	7.90226e-12	0.010504	1	0		A	9792877	A	A	9792877	3	1	174	1	0	0	0	0	1	0	0	0	6468	739	26	5	1567	5	GLP2R	17	9792877	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	2215757	9792877	71402333	278	90736											
MYH1	4619	broad.mit.edu	37	chr17	10415739	10415739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtaccttcagtgccatctGgctcagcttgctcctcacgc	5	12	9	15	1	4	0	3	0	1	0	5	0	5	0	3	2	4	4	3	2	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:10415739G>A	uc002gmo.2	-	12	1227	c.1133C>T	c.(1132-1134)CCA>CTA	p.P378L	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	378	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AGTGCCATCTGGCTCAGCTTG	0.423													5	81					0	0	0.000602	0	0		A	10415739	A	A	10415739	3	1	174	1	0	0	0	0	1	0	0	0	10047	1348	47	4	4802	4	MYH1	17	10415739	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	622862	10415739	70779471	279	90737											
MYO15A	51168	broad.mit.edu	37	chr17	18044113	18044113	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgccaggtgcaaccccttGttcatgcgttgcctgaagcc	7	10	10	14	1	1	1	1	1	0	0	1	1	1	1	5	1	6	3	5	1	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:18044113G>A	uc010vxh.1	+	20	5711	c.5373G>A	c.(5371-5373)TTG>TTA	p.L1791L		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1791	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GCAACCCCTTGTTCATGCGTT	0.502											OREG0024223	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	25					0	0	0.01441	0	0		A	18044113	A	A	18044113	2	1	174	1	0	0	0	0	0	0	0	1	10081	1368	48	4		4	MYO15A	17	18044113	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7628374	18044113	63151097	280	90738											
SLFN12L	342615	broad.mit.edu	37	chr17	33802293	33802293	+	Silent	SNP	T	G	G	0	1	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	atgtggaaggtgtataggacTggaggcttgtcctgggaaat	10	11	16	4	0	0	0	0	0	0	0	1	4	1	4	1	6	0	2	1	6	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:33802293T>G	uc002hjn.2	-	5	2382	c.1503A>C	c.(1501-1503)CCA>CCC	p.P501P		NM_001145027	NP_001138499			schlafen family member 12-like											ovary(1)	1						TGTATAGGACTGGAGGCTTGT	0.453													11	48					0	0	0.013537	0	0		G	33802293	G	G	33802293	2	3	174	1	0	0	0	0	0	0	0	1	14760	1567	55	5		5	SLFN12L	17	33802293	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	15758180	33802293	47392917	281	90739											
GJD3	125111	broad.mit.edu	37	chr17	38520012	38520012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagaggcggcccacgagcGgcgactgcagctgcacggcg	7	2	17	15	6	0	1	0	0	0	1	0	3	0	1	2	4	4	3	2	4	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:38520012G>A	uc010cwz.2	-	1	934	c.56C>T	c.(55-57)CCG>CTG	p.P19L	uc010cxa.1_Missense_Mutation_p.R275Q	NM_152219	NP_689343	Q8N144	CXD3_HUMAN	gap junction protein, delta 3, 31.9kDa	19	Cytoplasmic (Potential).				cell communication|gap junction assembly	cell surface|connexon complex|integral to plasma membrane	protein binding				0		Breast(137;0.00328)	STAD - Stomach adenocarcinoma(5;0.00143)			GCCCACGAGCGGCGACTGCAG	0.701													6	13					0	0	0.001168	0	0		A	38520012	A	A	38520012	3	1	174	1	0	0	0	0	1	0	0	0	6433	1116	39	1	832	1	GJD3	17	38520012	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	4717719	38520012	42675198	282	90740											
MLX	6945	broad.mit.edu	37	chr17	40721590	40721590	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggaggtgtccacgttaCgcaaggatgtcaccgcccta	10	7	13	11	3	1	0	1	0	0	0	2	3	2	3	3	4	1	2	3	4	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:40721590C>T	uc002iag.2	+	6	669	c.604C>T	c.(604-606)CGC>TGC	p.R202C	MLX_uc002iaf.2_Missense_Mutation_p.R148C|MLX_uc002iah.2_Missense_Mutation_p.R118C	NM_170607	NP_733752	Q9UH92	MLX_HUMAN	transcription factor-like protein 4 isoform	202					energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		GTCCACGTTACGCAAGGATGT	0.498													14	34					0	0	0.003163	0	0		T	40721590	T	T	40721590	3	4	174	1	0	0	0	0	1	0	0	0	9653	536	19	1	626	1	MLX	17	40721590	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	2201578	40721590	40473620	283	90741											
MED13	9969	broad.mit.edu	37	chr17	60033154	60033154	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacacatgtctttgagccttTtacttagagactgcaagttt	10	16	7	8	0	1	2	0	1	1	1	1	3	1	2	1	0	4	2	1	0	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:60033154T>G	uc002izo.2	-	25	5746	c.5669A>C	c.(5668-5670)AAA>ACA	p.K1890T		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1890					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						TTTGAGCCTTTTACTTAGAGA	0.403													11	50					0	0	0.010729	0	0		G	60033154	G	G	60033154	3	3	174	1	0	0	0	0	1	0	0	0	9448	1841	64	5	879	5	MED13	17	60033154	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	19311564	60033154	21162056	284	90742											
MRC2	9902	broad.mit.edu	37	chr17	60742114	60742114	+	Silent	SNP	C	T	T	0	0	0	1	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	aacaccacggcctccctgggCatgtatgagtgtgaccggga	9	7	13	12	2	0	2	0	2	0	0	1	3	1	3	4	3	1	2	4	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:60742114C>T	uc002jad.2	+	2	726	c.324C>T	c.(322-324)GGC>GGT	p.G108G	MRC2_uc002jac.2_Silent_p.G108G	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	108	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CCTCCCTGGGCATGTATGAGT	0.607													11	49					0	0	0.010729	0	0		T	60742114	T	T	60742114	2	4	174	1	0	0	0	0	0	0	0	1	9776	697	25	2		2	MRC2	17	60742114	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	708960	60742114	20453096	285	90743											
BPTF	2186	broad.mit.edu	37	chr17	65888127	65888127	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgctgcacatgaagcaaatAaattatttaaggagggcaaa	17	8	9	7	1	0	1	0	1	0	0	0	2	0	2	1	2	2	4	1	2	7	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:65888127A>G	uc002jgf.2	+	5	2093	c.2032A>G	c.(2032-2034)AAA>GAA	p.K678E	BPTF_uc002jge.2_Missense_Mutation_p.K804E|BPTF_uc010wqm.1_Missense_Mutation_p.K741E	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	804					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGAAGCAAATAAATTATTTAA	0.408													11	17					0	0	0.010729	0	0		G	65888127	G	G	65888127	3	3	174	1	0	0	0	0	1	0	0	0	1498	363	13	3	2436	3	BPTF	17	65888127	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	5146013	65888127	15307083	286	90744											
NUP85	79902	broad.mit.edu	37	chr17	73231771	73231771	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggctcactggaaggttcCtgagaactgcttcaatgtgg	10	10	13	8	0	2	1	2	1	0	1	3	4	3	2	1	4	2	3	1	4	4	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:73231771C>T	uc002jng.1	+	19	2228	c.1968C>T	c.(1966-1968)TCC>TCT	p.S656S	NUP85_uc010dgd.1_Silent_p.S611S|NUP85_uc010wrv.1_Silent_p.S610S|NUP85_uc002jnh.1_Silent_p.S259S	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85	656					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			TGGAAGGTTCCTGAGAACTGC	0.398													5	53					0	0	0.001168	0	0		T	73231771	T	T	73231771	2	4	174	1	0	0	0	0	0	0	0	1	10789	668	24	4		4	NUP85	17	73231771	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	7343644	73231771	7963439	287	90745											
SYNGR2	9144	broad.mit.edu	37	chr17	76167882	76167882	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggacgacttcatccagaaTtacgttgaccccactccgga	10	9	9	13	3	1	2	1	1	0	1	3	5	3	4	4	2	1	1	4	2	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr17:76167882T>A	uc002juu.1	+	4	567	c.540T>A	c.(538-540)AAT>AAA	p.N180K	SYNGR2_uc002jut.2_Missense_Mutation_p.I210N|SYNGR2_uc002juv.1_Missense_Mutation_p.L134I|SYNGR2_uc010dhi.1_RNA	NM_004710	NP_004701	O43760	SNG2_HUMAN	synaptogyrin 2	180						integral to plasma membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.0994)			TCATCCAGAATTACGTTGACC	0.627													6	92					0	0	0.001984	0	0		A	76167882	A	A	76167882	3	1	174	1	0	0	0	0	1	0	0	0	15474	1490	52	5	554	5	SYNGR2	17	76167882	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2936111	76167882	5027328	288	90746											
CLUL1	27098	broad.mit.edu	37	chr18	633357	633357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggacagaggactgtgtGgggaacttgaccagaatttg	11	8	16	6	0	0	3	0	1	0	2	0	6	0	6	1	5	1	1	1	5	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:633357G>A	uc002kkp.2	+	6	1061	c.916G>A	c.(916-918)GGG>AGG	p.G306R	CLUL1_uc010wys.1_Missense_Mutation_p.G358R|CLUL1_uc002kkq.2_Missense_Mutation_p.G306R	NM_014410	NP_055225	Q15846	CLUL1_HUMAN	clusterin-like 1 (retinal) precursor	306					cell death	extracellular region				ovary(2)	2						AGGACTGTGTGGGGAACTTGA	0.403													19	37					0	0	0.008871	0	0		A	633357	A	A	633357	3	1	174	1	0	0	0	0	1	0	0	0	3573	1348	47	4	934	4	CLUL1	18	633357	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08		633357	77443891	289	90747											
ANKRD12	23253	broad.mit.edu	37	chr18	9256587	9256587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaattaagcaaaaagaaaagGaacggttgagaaaccgaaac	23	4	9	5	2	0	2	0	1	0	2	0	5	0	3	1	2	4	2	1	2	9	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:9256587G>A	uc002knv.2	+	9	3579	c.3322G>A	c.(3322-3324)GAA>AAA	p.E1108K	ANKRD12_uc002knw.2_Missense_Mutation_p.E1085K|ANKRD12_uc002knx.2_Missense_Mutation_p.E1085K|ANKRD12_uc010dkx.1_Missense_Mutation_p.E815K	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	1108						nucleus				ovary(2)|central_nervous_system(1)	3						AAAAGAAAAGGAACGGTTGAG	0.308													10	86					0	0	0.006214	0	0		A	9256587	A	A	9256587	3	1	174	1	0	0	0	0	1	0	0	0	640	1175	41	4	3352	4	ANKRD12	18	9256587	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	8623230	9256587	68820661	290	90748											
SPIRE1	56907	broad.mit.edu	37	chr18	12463377	12463377	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgggaactctgcctggaaggCggcaggaactgcctcacgtt	8	7	14	12	3	2	0	1	0	1	0	2	3	2	3	2	5	4	2	2	5	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:12463377C>T	uc002kre.2	-	12	1658	c.1611G>A	c.(1609-1611)CCG>CCA	p.P537P	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Silent_p.P403P|SPIRE1_uc010wzx.1_Silent_p.P326P|SPIRE1_uc010wzy.1_Silent_p.P523P	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	537						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						GCCTGGAAGGCGGCAGGAACT	0.488													23	59					0	0	0.00632	0	0		T	12463377	T	T	12463377	2	4	174	1	0	0	0	0	0	0	0	1	15096	755	27	1		1	SPIRE1	18	12463377	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	3206790	12463377	65613871	291	90749											
CEP192	55125	broad.mit.edu	37	chr18	13059133	13059133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caagaataaagccatcataaGacctcatgccacagaagaga	19	5	7	10	0	2	4	2	0	0	4	2	5	2	4	3	0	2	0	3	0	6	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:13059133G>A	uc010xac.1	+	21	4390	c.4310G>A	c.(4309-4311)AGA>AAA	p.R1437K	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.R962K|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_5'UTR|CEP192_uc002krs.1_Missense_Mutation_p.R1178K	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1437										ovary(4)|pancreas(1)	5						GCCATCATAAGACCTCATGCC	0.383													4	136					0	0	0.001168	0	0		A	13059133	A	A	13059133	3	1	174	1	0	0	0	0	1	0	0	0	3254	942	33	4	4388	4	CEP192	18	13059133	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	595756	13059133	65018115	292	90750											
POTEC	388468	broad.mit.edu	37	chr18	14542958	14542958	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagcagtggtggcaacacTtgcccatcttgctcctgagc	8	9	12	12	0	1	1	0	1	1	0	2	2	2	2	2	3	5	3	2	3	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:14542958T>G	uc010dln.2	-	1	642	c.188A>C	c.(187-189)AAG>ACG	p.K63T	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	63										skin(3)	3						GTGGCAACACTTGCCCATCTT	0.587													80	257					0	0	0.01441	0	0		G	14542958	G	G	14542958	3	3	174	1	0	0	0	0	1	0	0	0	12281	1609	56	5	1484	5	POTEC	18	14542958	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1483825	14542958	63534290	293	90751											
TTR	7276	broad.mit.edu	37	chr18	29172975	29172975	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gctgctgatgacacctgggaGccatttgcctctgggtaagt	7	11	13	10	0	1	2	0	2	1	0	1	3	1	3	3	2	3	3	3	2	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:29172975G>T	uc002kwx.3	+	2	322	c.186G>T	c.(184-186)GAG>GAT	p.E62D		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	62					transport	cytoplasm	hormone activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(10;0.00523)		Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Diflunisal(DB00861)|Dimethyl sulfoxide(DB01093)|Levothyroxine(DB00451)|Liothyronine(DB00279)	ACACCTGGGAGCCATTTGCCT	0.522													32	62					9.78306e-22	1.07137e-21	0.009535	1	0		T	29172975	T	T	29172975	3	4	174	1	0	0	0	0	1	0	0	0	16764	962	34	5	192	5	TTR	18	29172975	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	14630017	29172975	48904273	294	90752											
FHOD3	80206	broad.mit.edu	37	chr18	34205506	34205506	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgaggatggcgatgagacCacggagccaccccccagtgg	10	3	14	14	3	0	1	0	1	0	1	0	6	0	3	5	4	1	0	5	4	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:34205506C>T	uc002kzt.1	+	10	1087	c.990C>T	c.(988-990)ACC>ACT	p.T330T	FHOD3_uc002kzr.1_Silent_p.T330T|FHOD3_uc002kzs.1_Silent_p.T330T|FHOD3_uc002kzu.1_Silent_p.T155T|FHOD3_uc010dmz.1_Silent_p.T83T	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	330	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				GCGATGAGACCACGGAGCCAC	0.667													35	46					0	0	0.013726	0	0		T	34205506	T	T	34205506	2	4	174	1	0	0	0	0	0	0	0	1	5897	581	21	4		4	FHOD3	18	34205506	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	5032531	34205506	43871742	295	90753											
FHOD3	80206	broad.mit.edu	37	chr18	34289206	34289206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggcactagagcaagagccGgaagaaagagcctccctcag	14	3	12	12	1	1	4	1	0	0	4	2	5	2	5	3	2	3	2	3	2	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:34289206G>A	uc002kzt.1	+	14	1906	c.1809G>A	c.(1807-1809)CCG>CCA	p.P603P	FHOD3_uc002kzr.1_Silent_p.P603P|FHOD3_uc002kzs.1_Silent_p.P620P|FHOD3_uc010dmz.1_Silent_p.P335P|FHOD3_uc010dna.1_5'UTR	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	603					actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				AGCAAGAGCCGGAAGAAAGAG	0.607													36	71					0	0	0.004289	0	0		A	34289206	A	A	34289206	2	1	174	1	0	0	0	0	0	0	0	1	5897	1103	39	1		1	FHOD3	18	34289206	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	83700	34289206	43788042	296	90754											
CDH20	28316	broad.mit.edu	37	chr18	59157803	59157803	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccatgtggacttctggtaGaatgagcaatgcaaagaact	13	10	10	8	0	1	3	0	1	1	2	2	4	2	4	1	2	3	3	1	2	5	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:59157803G>T	uc010dps.1	+	1	29	c.17G>T	c.(16-18)AGA>ATA	p.R6I	CDH20_uc002lif.2_5'UTR	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	6					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)				ACTTCTGGTAGAATGAGCAAT	0.443													53	90					3.00063e-23	3.29371e-23	0.01441	1	0		T	59157803	T	T	59157803	3	4	174	1	0	0	0	0	1	0	0	0	3109	942	33	5	19	5	CDH20	18	59157803	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	24868597	59157803	18919445	297	90755											
RTTN	25914	broad.mit.edu	37	chr18	67802494	67802494	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcagtcacgacactacaAtcttcatgaaatattaagga	16	11	5	9	1	4	1	3	1	1	0	4	3	4	2	0	1	1	0	0	1	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:67802494A>T	uc002lkp.2	-	22	2879	c.2811T>A	c.(2809-2811)GAT>GAA	p.D937E	RTTN_uc002lko.2_RNA|RTTN_uc010xfb.1_Missense_Mutation_p.D25E	NM_173630	NP_775901	Q86VV8	RTTN_HUMAN	rotatin	937							binding			ovary(3)|pancreas(2)|skin(1)|breast(1)|central_nervous_system(1)	8		Esophageal squamous(42;0.129)				CGACACTACAATCTTCATGAA	0.279													5	89					0	0	0.001984	0	0		T	67802494	T	T	67802494	3	4	174	1	0	0	0	0	1	0	0	0	13762	98	4	5	3981	5	RTTN	18	67802494	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	8644691	67802494	10274754	298	90756											
PQLC1	80148	broad.mit.edu	37	chr18	77679395	77679395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgccagaagtggtgggggtCgaagtctagggcgagaggga	9	6	20	6	2	1	2	0	0	1	2	2	5	1	3	1	5	1	0	1	5	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr18:77679395C>T	uc002lnl.2	-	5	569	c.397G>A	c.(397-399)GAC>AAC	p.D133N	PQLC1_uc010dre.2_Missense_Mutation_p.D50N|PQLC1_uc002lnk.2_Missense_Mutation_p.D115N|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1	133						integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		TGGTGGGGGTCGAAGTCTAGG	0.607													11	18					0	0	0.010729	0	0		T	77679395	T	T	77679395	3	4	174	1	0	0	0	0	1	0	0	0	12440	884	31	1	426	1	PQLC1	18	77679395	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	9876901	77679395	397853	299	90757											
MIDN	90007	broad.mit.edu	37	chr19	1257094	1257094	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctccgtagaaaggcccggcgGgacgcgcggggtccgtacca	7	4	16	14	7	0	1	0	0	0	1	2	2	2	2	4	5	1	2	4	5	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:1257094G>C	uc002lrp.2	+	8	1745	c.1230G>C	c.(1228-1230)CGG>CGC	p.R410R		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	410						nucleolus					0		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)		AGGCCCGGCGGGACGCGCGGG	0.716													3	35					0	0	0.004672	0	0		C	1257094	C	C	1257094	2	2	174	1	0	0	0	0	0	0	0	1	9597	1219	43	5		5	MIDN	19	1257094	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08		1257094	57871889	300	90758											
EMR1	2015	broad.mit.edu	37	chr19	6921816	6921816	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggctgtgtgatcctggaAgcttctgagacatataccat	9	14	10	8	0	1	2	0	2	1	1	2	4	2	3	2	2	2	2	2	2	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:6921816A>G	uc002mfw.2	+	14	1751	c.1713A>G	c.(1711-1713)GAA>GAG	p.E571E	EMR1_uc010dvc.2_Silent_p.E571E|EMR1_uc010dvb.2_Silent_p.E519E|EMR1_uc010xji.1_Silent_p.E430E|EMR1_uc010xjj.1_Silent_p.E394E	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	571	GPS.|Extracellular (Potential).|Ser/Thr-rich.				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					TGATCCTGGAAGCTTCTGAGA	0.478													4	106					0	0	0.009096	0	0		G	6921816	G	G	6921816	2	3	174	1	0	0	0	0	0	0	0	1	5112	69	3	3		3	EMR1	19	6921816	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	5664722	6921816	52207167	301	90759											
MUC16	94025	broad.mit.edu	37	chr19	9046074	9046074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggtttctgtccctggatGggtggaaagtggggctgttt	4	14	17	6	0	1	0	0	0	1	0	2	2	2	2	1	6	0	4	1	6	1	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:9046074G>A	uc002mkp.2	-	5	35761	c.35557C>T	c.(35557-35559)CAT>TAT	p.H11853Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11855	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCCCTGGATGGGTGGAAAGT	0.483													60	51					0	0	0.01441	0	0		A	9046074	A	A	9046074	3	1	174	1	0	0	0	0	1	0	0	0	9991	1348	47	4	8286	4	MUC16	19	9046074	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2124258	9046074	50082909	302	90760											
MUC16	94025	broad.mit.edu	37	chr19	9062990	9062990	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgacttctgtcctggagacTtcagcagtggcaccagtggg	7	10	14	10	0	2	2	1	1	1	1	3	3	3	2	2	3	1	2	2	3	0	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:9062990T>G	uc002mkp.2	-	3	24660	c.24456A>C	c.(24454-24456)GAA>GAC	p.E8152D		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8154	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCCTGGAGACTTCAGCAGTGG	0.542													46	77					0	0	0.01441	0	0		G	9062990	G	G	9062990	3	3	174	1	0	0	0	0	1	0	0	0	9991	1606	56	5	19395	5	MUC16	19	9062990	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	16916	9062990	50065993	303	90761											
CPAMD8	27151	broad.mit.edu	37	chr19	17108002	17108002	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaccagctgcctctgcacGggggtggagtcatcgaacgc	7	7	13	14	3	2	0	1	0	1	0	4	2	3	1	3	3	4	2	3	3	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:17108002G>T	uc002nfb.2	-	11	1187	c.1155C>A	c.(1153-1155)CCC>CCA	p.P385P		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	338						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						GCCTCTGCACGGGGGTGGAGT	0.642													15	29					1.56452e-12	1.6745e-12	0.007413	1	0		T	17108002	T	T	17108002	2	4	174	1	0	0	0	0	0	0	0	1	3798	1103	39	5		5	CPAMD8	19	17108002	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	8045012	17108002	42020981	304	90762											
MYO9B	4650	broad.mit.edu	37	chr19	17283571	17283571	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catccatcccccaccaggacTtccgggagaagaacatggac	12	5	9	15	1	0	2	0	0	0	2	3	5	3	4	5	3	1	0	5	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:17283571T>G	uc010eak.2	+	13	2091	c.1939T>G	c.(1939-1941)TTC>GTC	p.F647V	MYO9B_uc002nfi.2_Missense_Mutation_p.F647V|MYO9B_uc002nfj.1_Missense_Mutation_p.F647V	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	647	Myosin head-like.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						CCACCAGGACTTCCGGGAGAA	0.657													6	97					0	0	0.00308	0	0		G	17283571	G	G	17283571	3	3	174	1	0	0	0	0	1	0	0	0	10103	1609	56	5	1985	5	MYO9B	19	17283571	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	175569	17283571	41845412	305	90763											
MYO9B	4650	broad.mit.edu	37	chr19	17322769	17322769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccctccccaccgtggccGcccctccacgacgaaggccg	5	3	10	23	5	0	0	0	0	0	0	2	2	2	0	10	2	0	0	10	2	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:17322769G>A	uc010eak.2	+	40	6276	c.6124G>A	c.(6124-6126)GCC>ACC	p.A2042T	MYO9B_uc002nfi.2_3'UTR|MYO9B_uc002nfm.1_3'UTR	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	2042	Tail.			TVAAPP -> PWPPLH (in Ref. 3; AAC26597).	actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						CACCGTGGCCGCCCCTCCACG	0.687													3	5					0	0	0.004672	0	0		A	17322769	A	A	17322769	3	1	174	1	0	0	0	0	1	0	0	0	10103	1087	38	1	6289	1	MYO9B	19	17322769	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	39198	17322769	41806214	306	90764											
IL12RB1	3594	broad.mit.edu	37	chr19	18180500	18180500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtggtcccgttggttccgaCgctgatattcagagccactg	6	11	13	11	3	1	2	1	1	0	1	3	3	3	2	3	3	1	3	3	3	1	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:18180500C>T	uc002nhw.1	-	10	1109	c.1045G>A	c.(1045-1047)GTC>ATC	p.V349I	IL12RB1_uc010xqb.1_Missense_Mutation_p.V349I|IL12RB1_uc002nhx.1_Missense_Mutation_p.V389I	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	349	Extracellular (Potential).|Fibronectin type-III 4.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						TTGGTTCCGACGCTGATATTC	0.602													24	74					0	0	0.007291	0	0		T	18180500	T	T	18180500	3	4	174	1	0	0	0	0	1	0	0	0	7642	536	19	1	975	1	IL12RB1	19	18180500	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	857731	18180500	40948483	307	90765											
ZNF208	7757	broad.mit.edu	37	chr19	22155008	22155008	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgcttcacatttgtagaatTtctctccagcatgagttttc	9	17	6	9	0	2	2	1	1	1	1	5	2	3	2	1	0	2	4	1	0	2	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:22155008T>G	uc002nqp.2	-	5	2677	c.2528A>C	c.(2527-2529)AAA>ACA	p.K843T	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TTTGTAGAATTTCTCTCCAGC	0.363													3	35					0	0	0.004672	0	0		G	22155008	G	G	22155008	3	3	174	1	0	0	0	0	1	0	0	0	17791	1841	64	5	1018	5	ZNF208	19	22155008	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	3974508	22155008	36973975	308	90766											
ZNF676	163223	broad.mit.edu	37	chr19	22364289	22364289	+	Missense_Mutation	SNP	T	A	A	0	1	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	taatttttaagtgtaaattcTcatgtccacatttgtcatat	12	19	4	6	0	2	0	2	0	1	0	4	0	3	0	1	0	0	1	1	0	5	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:22364289T>A	uc002nqs.1	-	3	548	c.230A>T	c.(229-231)GAG>GTG	p.E77V		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	77					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GTGTAAATTCTCATGTCCACA	0.338													23	58					0	0	0.00278	0	0		A	22364289	A	A	22364289	3	1	174	1	0	0	0	0	1	0	0	0	18108	1551	54	5	1540	5	ZNF676	19	22364289	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	209281	22364289	36764694	309	90767											
ZNF99	7652	broad.mit.edu	37	chr19	22941224	22941224	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaattaccttatgtacagtaAgttttgaggaccacttaaaa	15	13	7	6	0	0	1	0	1	0	0	0	3	0	2	2	1	2	3	2	1	7	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:22941224A>G	uc010xrh.1	-	5	1214	c.1214T>C	c.(1213-1215)CTT>CCT	p.L405P		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				ATGTACAGTAAGTTTTGAGGA	0.348													15	38					0	0	0.00499	0	0		G	22941224	G	G	22941224	3	3	174	1	0	0	0	0	1	0	0	0	18229	72	3	3	1910	3	ZNF99	19	22941224	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	576935	22941224	36187759	310	90768											
CLIP3	25999	broad.mit.edu	37	chr19	36515470	36515470	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tggccaccagtgccgcctctGccttgtccagggacatgtcc	5	9	11	16	1	1	0	0	0	1	0	3	1	3	1	7	2	2	0	7	2	0	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:36515470G>T	uc010eeq.1	-	6	1028	c.746C>A	c.(745-747)GCA>GAA	p.A249E	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.A249E	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	249					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			TGCCGCCTCTGCCTTGTCCAG	0.597													6	44					1.12685e-05	1.18194e-05	0.004482	1	0		T	36515470	T	T	36515470	3	4	174	1	0	0	0	0	1	0	0	0	3537	1319	46	5	929	5	CLIP3	19	36515470	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	13574246	36515470	22613513	311	90769											
ZFP14	57677	broad.mit.edu	37	chr19	36831555	36831555	+	Silent	SNP	A	G	G	1	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	cattcatagggtttctcacgAgtatgtattctctgatggcg	8	15	10	8	2	3	1	2	1	2	0	5	2	3	1	0	2	0	3	0	2	3	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:36831555A>G	uc002odx.1	-	4	1266	c.1173T>C	c.(1171-1173)ACT>ACC	p.T391T	ZFP14_uc010xtd.1_Silent_p.T392T|ZFP14_uc010eex.1_Silent_p.T391T	NM_020917	NP_065968	Q9HCL3	ZFP14_HUMAN	zinc finger protein 14-like	391					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Esophageal squamous(110;0.162)					GTTTCTCACGAGTATGTATTC	0.393													30	29					0	0	0.009535	0	0		G	36831555	G	G	36831555	2	3	174	1	0	0	0	0	0	0	0	1	17664	291	11	3		3	ZFP14	19	36831555	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	316085	36831555	22297428	312	90770											
CD177	57126	broad.mit.edu	37	chr19	43866347	43866347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctctgcgcgtgagaagcgtGatgtgcagcctcctgcctct	5	11	12	13	3	2	2	0	2	2	1	4	3	3	2	3	0	5	1	3	0	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:43866347G>A	uc002owi.2	+	10	1231	c.1189G>A	c.(1189-1191)GAT>AAT	p.D397N	CD177_uc010eis.2_RNA|CD177_uc002owj.2_RNA	NM_020406	NP_065139	Q8N6Q3	CD177_HUMAN	CD177 molecule precursor	397					blood coagulation|leukocyte migration	anchored to membrane|plasma membrane				central_nervous_system(1)	1		Prostate(69;0.00682)				TGAGAAGCGTGATGTGCAGCC	0.612													14	75					0	0	0.003163	0	0		A	43866347	A	A	43866347	3	1	174	1	0	0	0	0	1	0	0	0	2974	1290	45	4	1223	4	CD177	19	43866347	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7034792	43866347	15262636	313	90771											
CCDC8	83987	broad.mit.edu	37	chr19	46915030	46915030	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccccctcctcagctggggcCcctgccctctgattatctgc	3	10	9	19	0	3	1	1	1	2	0	4	1	4	1	6	2	3	1	6	2	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:46915030C>A	uc002pep.2	-	1	1890	c.1038G>T	c.(1036-1038)GGG>GGT	p.G346G		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	346						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		CAGCTGGGGCCCCTGCCCTCT	0.622													15	167					5.01169e-05	5.2104e-05	0.00499	1	0		A	46915030	A	A	46915030	2	1	174	1	0	0	0	0	0	0	0	1	2856	610	22	5		5	CCDC8	19	46915030	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	3048683	46915030	12213953	314	90772											
SIGLEC11	114132	broad.mit.edu	37	chr19	50461825	50461825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggcccagcagctgtggagGgtctgtggggagggaggaca	7	5	22	7	0	1	0	0	0	1	0	1	4	1	4	1	8	2	2	1	8	0	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:50461825G>A	uc010ybh.1	-	8	1457	c.1366C>T	c.(1366-1368)CCT>TCT	p.P456S	SIGLEC11_uc010ybi.1_Intron	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	456	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|central_nervous_system(2)|pancreas(1)	6		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00107)|OV - Ovarian serous cystadenocarcinoma(262;0.00517)		AGCTGTGGAGGGTCTGTGGGG	0.692													10	19					0	0	0.008291	0	0		A	50461825	A	A	50461825	3	1	174	1	0	0	0	0	1	0	0	0	14332	1232	43	4	746	4	SIGLEC11	19	50461825	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	3546795	50461825	8667158	315	90773											
MYBPC2	4606	broad.mit.edu	37	chr19	50949194	50949194	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaaggcccggtaccgcttCaagaaggacgggaagcgcca	11	5	13	12	4	2	1	2	0	0	1	2	3	2	3	3	4	2	2	3	4	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:50949194C>T	uc002psf.2	+	12	1242	c.1191C>T	c.(1189-1191)TTC>TTT	p.F397F		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	397	Ig-like C2-type 3.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		GGTACCGCTTCAAGAAGGACG	0.572													6	18					0	0	0.001168	0	0		T	50949194	T	T	50949194	2	4	174	1	0	0	0	0	0	0	0	1	10030	825	29	4		4	MYBPC2	19	50949194	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	487369	50949194	8179789	316	90774											
ZNF614	80110	broad.mit.edu	37	chr19	52520427	52520427	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcttctggttgattaaacTtaaacttgatttcaaatttt	11	20	4	6	0	3	2	1	2	2	0	4	2	3	2	0	1	2	1	0	1	5	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:52520427T>A	uc002pyj.2	-	5	826	c.424A>T	c.(424-426)AGT>TGT	p.S142C	ZNF614_uc002pyi.3_Missense_Mutation_p.S142C|ZNF614_uc010epj.2_Translation_Start_Site	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	5		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TTGATTAAACTTAAACTTGAT	0.328													6	43					0	0	0.001168	0	0		A	52520427	A	A	52520427	3	1	174	1	0	0	0	0	1	0	0	0	18064	1609	56	5	1337	5	ZNF614	19	52520427	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1571233	52520427	6608556	317	90775											
ZNF583	147949	broad.mit.edu	37	chr19	56935669	56935669	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatactatggagtcattcTtgactctttcctctccctca	7	17	4	13	0	6	1	3	1	3	0	8	2	7	2	2	1	1	0	2	1	2	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr19:56935669T>G	uc010ygl.1	+	5	1807	c.1642T>G	c.(1642-1644)TTG>GTG	p.L548V	ZNF583_uc002qnc.2_Missense_Mutation_p.L548V|ZNF583_uc010ygm.1_Missense_Mutation_p.L548V	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	548					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		ggagtcattcttgactctttc	0.174													11	14					0	0	0.008291	0	0		G	56935669	G	G	56935669	3	3	174	1	0	0	0	0	1	0	0	0	18040	1606	56	5	1656	5	ZNF583	19	56935669	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4415242	56935669	2193314	318	90776											
C20orf194	25943	broad.mit.edu	37	chr20	3296404	3296404	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcactgcttgctgggttttcTcagacaattttacttcatta	8	18	6	9	0	3	1	3	0	1	1	4	1	3	1	0	1	3	3	0	1	3	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:3296404T>C	uc002wii.2	-	19	1619	c.1568A>G	c.(1567-1569)GAG>GGG	p.E523G	C20orf194_uc002wij.3_Missense_Mutation_p.E262G|C20orf194_uc002wik.2_Missense_Mutation_p.E197G	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943	523											0						CTGGGTTTTCTCAGACAATTT	0.383													7	107					0	0	0.001984	0	0		C	3296404	C	C	3296404	3	2	174	1	0	0	0	0	1	0	0	0	2102	1551	54	3	2041	3	C20orf194	20	3296404	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08		3296404	59729116	319	90777											
ANKRD5	63926	broad.mit.edu	37	chr20	10025099	10025099	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggggtagtggaaatagttCgaggcatattggaaagagga	15	8	16	2	1	0	1	0	0	0	1	1	5	0	4	0	6	0	3	0	6	6	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:10025099C>T	uc002wno.2	+	5	997	c.604C>T	c.(604-606)CGA>TGA	p.R202*	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Nonsense_Mutation_p.R202*|ANKRD5_uc010gbz.2_Nonsense_Mutation_p.R13*	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	202	ANK 2.						calcium ion binding			ovary(1)|breast(1)	2						GGAAATAGTTCGAGGCATATT	0.438													39	127					0	0	0.00623	0	0		T	10025099	T	T	10025099	4	4	174	1	0	0	0	0	0	1	0	0	676	876	31	1	614	1	ANKRD5	20	10025099	Nonsense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	6728695	10025099	53000421	320	90778											
MACROD2	140733	broad.mit.edu	37	chr20	15866408	15866408	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgttttcctattttttaacaGacgataataatgaagaagaa	16	15	6	4	1	0	4	0	1	0	3	1	5	1	4	1	0	1	1	1	0	7	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:15866408G>C	uc002wou.2	+	10	992	c.728_splice	c.e10-1	p.D243_splice	MACROD2_uc002wot.2_Splice_Site_p.D243_splice|MACROD2_uc002woz.2_Splice_Site_p.D8_splice|MACROD2_uc002wpb.2_Splice_Site_p.D8_splice	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				TTTTTTAACAGACGATAATAA	0.294													24	149					0	0	0.003954	0	0		C	15866408	C	C	15866408	5	2	174	1	0	0	0	0	0	0	1	0	9164	956	33	5	765	5	MACROD2	20	15866408	Splice_Site	SNP	G	TCGA-D7-6528-01A-11D-1800-08	5841309	15866408	47159112	321	90779											
C20orf26	26074	broad.mit.edu	37	chr20	20278863	20278863	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcagtgcgaaaaatgggacTtacttccgaattcatattaa	14	11	9	7	2	1	0	1	0	0	0	2	3	2	1	1	2	2	1	1	2	6	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:20278863T>G	uc002wru.2	+	25	3331	c.3255T>G	c.(3253-3255)ACT>ACG	p.T1085T	C20orf26_uc002wrw.2_RNA	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	1085										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		AAAATGGGACTTACTTCCGAA	0.448													4	124					0	0	0.009096	0	0		G	20278863	G	G	20278863	2	3	174	1	0	0	0	0	0	0	0	1	2109	1596	56	5		5	C20orf26	20	20278863	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4412455	20278863	42746657	322	90780											
C20orf3	57136	broad.mit.edu	37	chr20	24952138	24952138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagtcccttgtatgcatcggCcacaaagagagtcccattgg	10	10	10	11	1	0	1	0	0	0	1	3	2	2	1	3	2	1	2	3	2	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:24952138C>A	uc002wty.2	-	5	597	c.496G>T	c.(496-498)GCC>TCC	p.A166S	C20orf3_uc002wtz.2_Missense_Mutation_p.A166S|C20orf3_uc010zsw.1_Missense_Mutation_p.A166S	NM_020531	NP_065392	Q9HDC9	APMAP_HUMAN	chromosome 20 open reading frame 3	166	Extracellular (Potential).				biosynthetic process	cell surface|integral to membrane	arylesterase activity|strictosidine synthase activity			ovary(1)	1						TATGCATCGGCCACAAAGAGA	0.433													38	127					5.04308e-16	5.48464e-16	0.00623	1	0		A	24952138	A	A	24952138	3	1	174	1	0	0	0	0	1	0	0	0	2112	739	26	5	774	5	C20orf3	20	24952138	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4673275	24952138	38073382	323	90781											
C20orf70	140683	broad.mit.edu	37	chr20	31763239	31763239	+	Missense_Mutation	SNP	T	C	C	0	1	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	cattggccagattatcaaccTgaaagcctccttggacctcc	10	10	7	14	0	1	2	1	1	0	1	3	3	3	3	6	2	2	0	6	2	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:31763239T>C	uc002wyo.1	+	5	508	c.437T>C	c.(436-438)CTG>CCG	p.L146P		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	146						extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						ATTATCAACCTGAAAGCCTCC	0.542													13	315					0	0	0.001855	0	0		C	31763239	C	C	31763239	3	2	174	1	0	0	0	0	1	0	0	0	2119	1580	55	3	451	3	C20orf70	20	31763239	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	6811101	31763239	31262281	324	90782											
GDF5	8200	broad.mit.edu	37	chr20	34025104	34025104	+	Missense_Mutation	SNP	A	G	G	1	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	ctttgtcaataaagctggtgAtggtgttggccaggccagcc	8	11	13	9	0	1	1	1	1	0	0	1	1	1	1	3	4	2	2	3	4	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:34025104A>G	uc002xck.1	-	1	924	c.605T>C	c.(604-606)ATC>ACC	p.I202T	GDF5_uc010gfc.1_Missense_Mutation_p.I202T|GDF5_uc010zvc.1_Missense_Mutation_p.I202T	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	202					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			AAAGCTGGTGATGGTGTTGGC	0.607													22	52					0	0	0.014323	0	0		G	34025104	G	G	34025104	3	3	174	1	0	0	0	0	1	0	0	0	6331	333	12	3	908	3	GDF5	20	34025104	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2261865	34025104	29000416	325	90783											
DLGAP4	22839	broad.mit.edu	37	chr20	35152740	35152740	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggggcctctgtgagcaaaActtggtgagtgtgattctcc	7	11	13	10	1	2	3	0	3	2	0	3	3	2	3	3	3	2	1	3	3	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:35152740A>C	uc002xff.2	+	11	3026	c.2591A>C	c.(2590-2592)AAC>ACC	p.N864T	DLGAP4_uc010zvp.1_Missense_Mutation_p.N864T|DLGAP4_uc002xfg.2_Missense_Mutation_p.N160T|DLGAP4_uc002xfh.2_Missense_Mutation_p.N328T|DLGAP4_uc002xfi.2_Missense_Mutation_p.N173T|DLGAP4_uc002xfj.2_Missense_Mutation_p.N160T|uc002xfk.3_Intron	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	867					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				TGTGAGCAAAACTTGGTGAGT	0.557													5	80					0	0	0.001168	0	0		C	35152740	C	C	35152740	3	2	174	1	0	0	0	0	1	0	0	0	4568	43	2	5	2753	5	DLGAP4	20	35152740	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	1127636	35152740	27872780	326	90784											
CHD6	84181	broad.mit.edu	37	chr20	40033690	40033690	+	Missense_Mutation	SNP	A	G	G	1	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	cttccgcagtcttttcagtcActgccgtaccacttttcgtt	5	16	6	14	3	3	0	2	0	1	0	5	0	4	0	3	0	2	3	3	0	1	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:40033690A>G	uc002xka.1	-	37	7869	c.7691T>C	c.(7690-7692)GTG>GCG	p.V2564A	CHD6_uc002xjz.1_Missense_Mutation_p.V101A	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2564					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CTTTTCAGTCACTGCCGTACC	0.517													88	157					0	0	0.01441	0	0		G	40033690	G	G	40033690	3	3	174	1	0	0	0	0	1	0	0	0	3332	159	6	3	460	3	CHD6	20	40033690	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	4880950	40033690	22991830	327	90785											
IFT52	51098	broad.mit.edu	37	chr20	42232466	42232466	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgatgctaggagaaggtggaGaatccagatttgacaccaat	14	9	12	6	0	0	5	0	2	0	3	1	7	1	5	2	3	1	1	2	3	4	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:42232466G>C	uc002xkw.2	+	4	396	c.274G>C	c.(274-276)GAA>CAA	p.E92Q	IFT52_uc010zwi.1_Intron|IFT52_uc002xky.2_Missense_Mutation_p.E92Q|IFT52_uc002xkx.2_RNA|IFT52_uc010ggn.2_Missense_Mutation_p.E92Q|IFT52_uc002xkz.2_Missense_Mutation_p.E92Q	NM_016004	NP_057088	Q9Y366	IFT52_HUMAN	intraflagellar transport 52 homolog	92						intraflagellar transport particle B|microtubule-based flagellum	protein C-terminus binding			ovary(2)	2		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			AGAAGGTGGAGAATCCAGATT	0.323													42	89					0	0	0.00874	0	0		C	42232466	C	C	42232466	3	2	174	1	0	0	0	0	1	0	0	0	7577	943	33	5	284	5	IFT52	20	42232466	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	2198776	42232466	20793054	328	90786											
TSHZ2	128553	broad.mit.edu	37	chr20	51872267	51872267	+	Missense_Mutation	SNP	T	G	G	0	1	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	cagcgtgtccaggcgctaccTgtttgagaacagcgatcagc	9	8	12	12	3	1	1	1	1	0	1	2	3	2	1	2	1	5	2	2	1	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:51872267T>G	uc002xwo.2	+	2	3226	c.2270T>G	c.(2269-2271)CTG>CGG	p.L757R		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	757					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGGCGCTACCTGTTTGAGAAC	0.522													49	118					0	0	0.01441	0	0		G	51872267	G	G	51872267	3	3	174	1	0	0	0	0	1	0	0	0	16650	1580	55	5	2276	5	TSHZ2	20	51872267	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	9639801	51872267	11153253	329	90787											
STX16	8675	broad.mit.edu	37	chr20	57246276	57246276	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tggtggaagagcgggaacgaGagattcgccagattgtacag	12	7	16	6	3	0	3	0	0	0	3	1	7	0	5	1	3	3	1	1	3	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:57246276G>C	uc002xzi.2	+	7	1450	c.715G>C	c.(715-717)GAG>CAG	p.E239Q	STX16_uc010zzq.1_Missense_Mutation_p.E53Q|STX16_uc002xzk.2_Missense_Mutation_p.E222Q|STX16_uc002xzm.2_Missense_Mutation_p.E235Q|STX16_uc002xzj.2_Missense_Mutation_p.E218Q|STX16_uc002xzl.2_Missense_Mutation_p.E53Q	NM_001001433	NP_001001433	O14662	STX16_HUMAN	syntaxin 16 isoform a	239	t-SNARE coiled-coil homology.|Cytoplasmic (Potential).				intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde transport, endosome to Golgi	Golgi membrane|integral to membrane|microsome|SNARE complex	SNAP receptor activity			ovary(1)	1	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;3.73e-09)|Epithelial(14;8.54e-06)|all cancers(14;6.89e-05)			GCGGGAACGAGAGATTCGCCA	0.478													38	130					0	0	0.00623	0	0		C	57246276	C	C	57246276	3	2	174	1	0	0	0	0	1	0	0	0	15364	943	33	5	741	5	STX16	20	57246276	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	5374009	57246276	5779244	330	90788											
GNAS	2778	broad.mit.edu	37	chr20	57415578	57415578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaccactgagcccgagacCgagcctgaagacgatcgcgg	10	3	12	16	5	0	4	0	2	0	2	1	7	0	4	5	1	2	0	5	1	1	0	rs148044699		TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:57415578C>T	uc002xzt.2	+	1	784	c.417C>T	c.(415-417)ACC>ACT	p.T139T	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			AGCCCGAGACCGAGCCTGAAG	0.652			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			31	128					0	0	0.012213	0	0		T	57415578	T	T	57415578	2	4	174	1	0	0	0	0	0	0	0	1	6525	639	23	1		1	GNAS	20	57415578	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	169302	57415578	5609942	331	90789											
SYCP2	10388	broad.mit.edu	37	chr20	58467103	58467103	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcaattctttctctgctTttctatgactttgcacattt	8	20	4	9	0	4	1	1	1	3	0	5	1	4	1	0	0	2	2	0	0	3	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:58467103T>G	uc002yaz.2	-	23	2445	c.2306A>C	c.(2305-2307)AAA>ACA	p.K769T		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	769					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			TTTCTCTGCTTTTCTATGACT	0.333													4	108					0	0	0.001168	0	0		G	58467103	G	G	58467103	3	3	174	1	0	0	0	0	1	0	0	0	15457	1841	64	5	2374	5	SYCP2	20	58467103	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1051525	58467103	4558417	332	90790											
CDH26	60437	broad.mit.edu	37	chr20	58545194	58545194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gatgggttatcaccaccttgGagctggaggaggaagacccg	10	7	15	9	1	1	1	1	0	0	1	1	6	1	5	3	5	1	2	3	5	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:58545194G>A	uc002ybe.2	+	3	484	c.184G>A	c.(184-186)GAG>AAG	p.E62K	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	62	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			CACCACCTTGGAGCTGGAGGA	0.507													39	128					0	0	0.010771	0	0		A	58545194	A	A	58545194	3	1	174	1	0	0	0	0	1	0	0	0	3113	1175	41	4	194	4	CDH26	20	58545194	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	78091	58545194	4480326	333	90791											
PCMTD2	55251	broad.mit.edu	37	chr20	62891494	62891494	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agacttggcatggaagcatgGaaacattcacctctcagccc	12	8	9	12	0	2	1	2	0	1	1	3	3	2	3	2	3	3	2	2	3	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr20:62891494G>C	uc002yil.3	+	2	376	c.176G>C	c.(175-177)GGA>GCA	p.G59A	PCMTD2_uc002yim.3_Missense_Mutation_p.G59A	NM_018257	NP_060727	Q9NV79	PCMD2_HUMAN	protein-L-isoaspartate (D-aspartate)	59						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TGGAAGCATGGAAACATTCAC	0.488													49	131					0	0	0.01441	0	0		C	62891494	C	C	62891494	3	2	174	1	0	0	0	0	1	0	0	0	11606	1174	41	5	178	5	PCMTD2	20	62891494	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	4346300	62891494	134026	334	90792											
NRIP1	8204	broad.mit.edu	37	chr21	16338789	16338789	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatggtggggaattccatttGatgaccagagagtgttgaga	11	12	14	4	0	0	4	0	3	0	2	1	7	1	5	2	3	0	1	2	3	2	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr21:16338789G>C	uc002yjx.2	-	4	2323	c.1725C>G	c.(1723-1725)ATC>ATG	p.I575M		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	575	Repression domain 2.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		AATTCCATTTGATGACCAGAG	0.453													123	199					0	0	0.01441	0	0		C	16338789	C	C	16338789	3	2	174	1	0	0	0	0	1	0	0	0	10671	1280	45	5	1755	5	NRIP1	21	16338789	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08		16338789	31791106	335	90793											
TIAM1	7074	broad.mit.edu	37	chr21	32624154	32624154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagttcttgacggccagggCgccggccttgcgcaccgtgc	5	7	15	14	5	1	1	0	1	1	0	1	2	1	1	4	3	2	2	4	3	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr21:32624154C>T	uc002yow.1	-	6	1787	c.1315G>A	c.(1315-1317)GCC>ACC	p.A439T	TIAM1_uc011adk.1_Missense_Mutation_p.A439T|TIAM1_uc011adl.1_Missense_Mutation_p.A439T|TIAM1_uc002yox.1_Missense_Mutation_p.A47T	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	439	PH 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						ACGGCCAGGGCGCCGGCCTTG	0.642													6	127					0	0	0.001984	0	0		T	32624154	T	T	32624154	3	4	174	1	0	0	0	0	1	0	0	0	15915	768	27	1	3556	1	TIAM1	21	32624154	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	16285365	32624154	15505741	336	90794											
B3GALT5	10317	broad.mit.edu	37	chr21	41033300	41033300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttttttccagggggcttaCgcttctccgtatgcctcttc	3	16	8	14	2	2	0	0	0	2	0	5	0	3	0	4	2	2	3	4	2	2	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr21:41033300C>T	uc002yyb.1	+	5	1406	c.814C>T	c.(814-816)CGC>TGC	p.R272C	B3GALT5_uc002yye.2_Missense_Mutation_p.R272C|B3GALT5_uc002yyi.1_Missense_Mutation_p.R272C|B3GALT5_uc002yyj.1_Missense_Mutation_p.R272C|B3GALT5_uc002yyk.1_Missense_Mutation_p.R272C|B3GALT5_uc002yyl.1_Missense_Mutation_p.R272C|B3GALT5_uc002yym.1_Missense_Mutation_p.R272C	NM_033173	NP_149363	Q9Y2C3	B3GT5_HUMAN	UDP-Gal:betaGlcNAc beta	272	Lumenal (Potential).				protein glycosylation	endoplasmic reticulum|Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			skin(1)	1		Prostate(19;2.55e-06)				AGGGGGCTTACGCTTCTCCGT	0.557													42	72					0	0	0.009718	0	0		T	41033300	T	T	41033300	3	4	174	1	0	0	0	0	1	0	0	0	1251	536	19	1	816	1	B3GALT5	21	41033300	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	8409146	41033300	7096595	337	90795											
DSCAM	1826	broad.mit.edu	37	chr21	41414515	41414515	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgcctcagttgctcttcCatcttggcgtgttcgtaggc	3	14	12	12	3	3	0	1	0	2	0	5	0	4	0	2	2	2	4	2	2	1	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr21:41414515C>G	uc002yyq.1	-	32	5921	c.5469G>C	c.(5467-5469)ATG>ATC	p.M1823I	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1823	Cytoplasmic (Potential).				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GTTGCTCTTCCATCTTGGCGT	0.532													32	68					0	0	0.012213	0	0		G	41414515	G	G	41414515	3	3	174	1	0	0	0	0	1	0	0	0	4774	594	21	5	577	5	DSCAM	21	41414515	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	381215	41414515	6715380	338	90796											
TRPM2	7226	broad.mit.edu	37	chr21	45838438	45838438	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcgaggacatcagcaataAgtatgggggctccggtgggc	10	7	16	8	2	1	0	1	0	0	0	3	3	2	1	1	5	1	3	1	5	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr21:45838438A>C	uc002zet.1	+	23	3674	c.3461A>C	c.(3460-3462)AAG>ACG	p.K1154T	TRPM2_uc002zeu.1_Missense_Mutation_p.K1154T|TRPM2_uc002zew.1_Missense_Mutation_p.K1154T|TRPM2_uc010gpt.1_Missense_Mutation_p.K1154T|TRPM2_uc002zex.1_Missense_Mutation_p.K940T|TRPM2_uc002zey.1_Missense_Mutation_p.K667T|uc011afe.1_Intron	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	1154	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						ATCAGCAATAAGTATGGGGGC	0.612													21	161					0	0	0.014323	0	0		C	45838438	C	C	45838438	3	2	174	1	0	0	0	0	1	0	0	0	16612	86	3	5	3547	5	TRPM2	21	45838438	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	4423923	45838438	2291457	339	90797											
CECR2	27443	broad.mit.edu	37	chr22	18016838	18016838	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaaagggcatggctgctGgctcaaggaaaggagctccc	12	5	15	9	0	1	1	1	0	0	1	2	4	2	3	1	5	2	5	1	5	4	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr22:18016838G>C	uc010gqw.1	+	9	1215	c.1089G>C	c.(1087-1089)CTG>CTC	p.L363L	CECR2_uc010gqv.1_Silent_p.L222L|CECR2_uc002zml.2_Silent_p.L222L|CECR2_uc002zmn.2_5'UTR	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	405					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		CATGGCTGCTGGCTCAAGGAA	0.488													16	44					0	0	0.004007	0	0		C	18016838	C	C	18016838	2	2	174	1	0	0	0	0	0	0	0	1	3209	1335	47	5		5	CECR2	22	18016838	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08		18016838	33287728	340	90798											
TOP3B	8940	broad.mit.edu	37	chr22	22313991	22313991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacaaagtagtggaacttcCtcttgaacacgtccagggtg	11	9	11	10	2	1	1	0	1	1	0	3	3	3	2	2	2	2	1	2	2	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr22:22313991C>T	uc002zvs.2	-	15	2207	c.1772G>A	c.(1771-1773)AGG>AAG	p.R591K	TOP3B_uc010gtm.1_Missense_Mutation_p.R136K|TOP3B_uc002zvr.2_Missense_Mutation_p.R316K|TOP3B_uc010gtl.2_Missense_Mutation_p.R591K|TOP3B_uc002zvt.3_Missense_Mutation_p.R591K	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	591					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		GTGGAACTTCCTCTTGAACAC	0.612													74	90					0	0	0.01441	0	0		T	22313991	T	T	22313991	3	4	174	1	0	0	0	0	1	0	0	0	16394	681	24	4	832	4	TOP3B	22	22313991	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	4297153	22313991	28990575	341	90799											
EWSR1	2130	broad.mit.edu	37	chr22	29695814	29695814	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgggaggaagaagaggagGacgtggaggacctggaaaaa	16	3	19	3	1	0	2	0	0	0	2	0	10	0	9	1	7	0	0	1	7	4	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr22:29695814G>T	uc003aet.2	+	16	2232	c.1904G>T	c.(1903-1905)GGA>GTA	p.G635V	EWSR1_uc003aev.2_Missense_Mutation_p.G640V|EWSR1_uc003aew.2_Missense_Mutation_p.G579V|EWSR1_uc003aex.2_Missense_Mutation_p.G634V|EWSR1_uc003aey.2_Missense_Mutation_p.G430V|EWSR1_uc003aez.2_Missense_Mutation_p.G296V	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	635	Arg/Gly/Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						AGAAGAGGAGGACGTGGAGGA	0.607			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								3	13					0.004672	0.00477313	0.004672	1	0		T	29695814	T	T	29695814	3	4	174	1	0	0	0	0	1	0	0	0	5304	1174	41	5	2083	5	EWSR1	22	29695814	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	7381823	29695814	21608752	342	90800											
NEFH	4744	broad.mit.edu	37	chr22	29885713	29885713	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtcccctgagaaggccaAgtccccagtgaaggaagaag	15	4	12	10	0	0	3	0	2	0	2	2	5	2	4	5	2	0	0	5	2	6	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr22:29885713A>T	uc003afo.2	+	4	2155	c.2084A>T	c.(2083-2085)AAG>ATG	p.K695M	NEFH_uc003afp.2_Translation_Start_Site	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	701	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.|20.				cell death|nervous system development	neurofilament					0						GAGAAGGCCAAGTCCCCAGTG	0.562													7	188					0	0	0.00308	0	0		T	29885713	T	T	29885713	3	4	174	1	0	0	0	0	1	0	0	0	10333	72	3	5	2098	5	NEFH	22	29885713	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	189899	29885713	21418853	343	90801											
KCNJ4	3761	broad.mit.edu	37	chr22	38823739	38823739	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggaacccatagccgatggtCgtctgcgtctccaccgagaa	9	7	11	14	5	2	1	0	0	2	1	4	4	2	2	4	2	3	0	4	2	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chr22:38823739C>T	uc003avs.1	-	2	496	c.399G>A	c.(397-399)ACG>ACA	p.T133T	KCNJ4_uc003avt.1_Silent_p.T133T	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	133					synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					AGCCGATGGTCGTCTGCGTCT	0.622													39	41					0	0	0.007835	0	0		T	38823739	T	T	38823739	2	4	174	1	0	0	0	0	0	0	0	1	8069	871	31	1		1	KCNJ4	22	38823739	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	8938026	38823739	12480827	344	90802											
GYG2	8908	broad.mit.edu	37	chrX	2799210	2799210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgactacatggggaaggacGcgtttgctcgcatccaggag	9	8	14	10	4	0	0	0	0	0	0	3	4	1	3	1	4	2	3	1	4	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:2799210G>A	uc004cqs.1	+	12	1744	c.1462G>A	c.(1462-1464)GCG>ACG	p.A488T	GYG2_uc004cqt.1_Missense_Mutation_p.A457T|GYG2_uc004cqu.1_Missense_Mutation_p.A456T|GYG2_uc004cqv.1_Missense_Mutation_p.A231T|GYG2_uc004cqw.1_Missense_Mutation_p.A448T|GYG2_uc004cqx.1_Missense_Mutation_p.A386T|GYG2_uc010ndc.1_Missense_Mutation_p.A266T	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	488					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGGGAAGGACGCGTTTGCTCG	0.557													3	18					0	0	0.004672	0	0		A	2799210	A	A	2799210	3	1	174	1	0	0	0	0	1	0	0	0	6922	1087	38	1	1504	1	GYG2	23	2799210	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08		2799210	152471350	345	90803											
TBL1X	6907	broad.mit.edu	37	chrX	9679769	9679769	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagccctgatgggaagtacTtggccagtggatccttcgac	8	10	12	11	1	1	1	1	1	0	0	3	4	2	3	3	3	2	1	3	3	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:9679769T>G	uc010ndq.2	+	16	1926	c.1558T>G	c.(1558-1560)TTG>GTG	p.L520V	TBL1X_uc004csq.3_Missense_Mutation_p.L469V|TBL1X_uc010ndr.2_Missense_Mutation_p.L469V|TBL1X_uc004csr.2_Missense_Mutation_p.L520V|TBL1X_uc004css.2_Missense_Mutation_p.L471V	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	520	WD 7.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)				TGGGAAGTACTTGGCCAGTGG	0.532													10	52					0	0	0.008291	0	0		G	9679769	G	G	9679769	3	3	174	1	0	0	0	0	1	0	0	0	15664	1606	56	5	1608	5	TBL1X	23	9679769	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	6880559	9679769	145590791	346	90804											
AMELX	265	broad.mit.edu	37	chrX	11316822	11316822	+	Missense_Mutation	SNP	T	G	G	0	1	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	cgtgatcccccagcaaccaaTgatgcccgttcctggccaac	9	7	8	17	2	0	2	0	2	0	0	2	2	2	2	6	1	4	2	6	1	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:11316822T>G	uc004cut.2	+	5	367	c.299T>G	c.(298-300)ATG>AGG	p.M100R	ARHGAP6_uc004cup.1_Intron|ARHGAP6_uc004cuo.1_Intron|ARHGAP6_uc004cur.1_Intron|ARHGAP6_uc004cun.1_Intron|ARHGAP6_uc011mif.1_Intron|AMELX_uc004cus.2_Missense_Mutation_p.M114R|AMELX_uc004cuu.2_Missense_Mutation_p.M84R	NM_001142	NP_001133	Q99217	AMELX_HUMAN	amelogenin (X chromosome) isoform 1 precursor	100					cell adhesion|cell proliferation|chondrocyte differentiation|enamel mineralization|epithelial to mesenchymal transition|ion homeostasis|odontogenesis of dentine-containing tooth|osteoblast differentiation|positive regulation of collagen biosynthetic process|positive regulation of tooth mineralization|signal transduction	proteinaceous extracellular matrix	cell surface binding|growth factor activity|hydroxyapatite binding|identical protein binding|structural constituent of tooth enamel				0						CAGCAACCAATGATGCCCGTT	0.642													10	156					0	0	0.008291	0	0		G	11316822	G	G	11316822	3	3	174	1	0	0	0	0	1	0	0	0	569	1464	51	5	359	5	AMELX	23	11316822	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1637053	11316822	143953738	347	90805											
TLR7	51284	broad.mit.edu	37	chrX	12905418	12905418	+	Silent	SNP	T	A	A	0	1	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	tttaccaagaacctaaaggtTctgcagaaactgatgatgaa	16	10	8	7	0	1	5	0	3	1	2	1	5	1	5	2	1	4	2	2	1	7	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:12905418T>A	uc004cvc.2	+	3	1930	c.1791T>A	c.(1789-1791)GTT>GTA	p.V597V		NM_016562	NP_057646	Q9NYK1	TLR7_HUMAN	toll-like receptor 7 precursor	597	LRR 20.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			ovary(2)|lung(2)|breast(1)	5					Imiquimod(DB00724)	ACCTAAAGGTTCTGCAGAAAC	0.398													57	122					0	0	0.01441	0	0		A	12905418	A	A	12905418	2	1	174	1	0	0	0	0	0	0	0	1	15981	1770	62	5		5	TLR7	23	12905418	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1588596	12905418	142365142	348	90806											
ACE2	59272	broad.mit.edu	37	chrX	15599426	15599426	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggtccgttagcatggaatTttcccagaatccttgagtca	9	13	10	9	1	1	2	1	1	0	1	4	3	4	3	3	2	1	2	3	2	3	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:15599426T>G	uc004cxa.1	-	8	1156	c.988A>C	c.(988-990)AAT>CAT	p.N330H	ACE2_uc004cxb.2_Missense_Mutation_p.N330H	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	330	Extracellular (Potential).				angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	AGCATGGAATTTTCCCAGAAT	0.493													25	192					0	0	0.003954	0	0		G	15599426	G	G	15599426	3	3	174	1	0	0	0	0	1	0	0	0	137	1841	64	5	1473	5	ACE2	23	15599426	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2694008	15599426	139671134	349	90807											
BEND2	139105	broad.mit.edu	37	chrX	18221885	18221885	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacatactgctgtaatgaacTtgaggagacaattctgggat	13	11	11	6	0	1	3	0	2	1	1	1	6	1	4	0	2	3	2	0	2	4	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:18221885T>G	uc004cyj.3	-	5	797	c.643A>C	c.(643-645)AGT>CGT	p.S215R	BEND2_uc010nfb.2_Missense_Mutation_p.S215R	NM_153346	NP_699177	Q8NDZ0	BEND2_HUMAN	BEN domain containing 2	215										ovary(3)|kidney(1)|central_nervous_system(1)	5						TGTAATGAACTTGAGGAGACA	0.468													8	182					0	0	0.004482	0	0		G	18221885	G	G	18221885	3	3	174	1	0	0	0	0	1	0	0	0	1399	1609	56	5	1822	5	BEND2	23	18221885	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2622459	18221885	137048675	350	90808											
FAM48B1	100130302	broad.mit.edu	37	chrX	24382605	24382605	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagaagccctctgtgcctctCattcaagctagcaggccctg	8	9	9	15	0	3	1	2	0	2	1	4	1	3	1	3	1	4	2	3	1	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:24382605C>T	uc011mjx.1	+	1	1728	c.1728C>T	c.(1726-1728)CTC>CTT	p.L576L		NM_001136234	NP_001129706			hypothetical protein LOC100130302											kidney(1)	1						CTGTGCCTCTCATTCAAGCTA	0.378													3	20					0	0	0.009096	0	0		T	24382605	T	T	24382605	2	4	174	1	0	0	0	0	0	0	0	1	5587	813	29	4		4	FAM48B1	23	24382605	Silent	SNP	C	TCGA-D7-6528-01A-11D-1800-08	6160720	24382605	130887955	351	90809											
DMD	1756	broad.mit.edu	37	chrX	31645908	31645908	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtaagccaggcaagaaacTtttccaggtccagggggaac	12	7	12	10	0	0	1	0	0	0	1	2	2	2	2	3	4	3	2	3	4	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:31645908T>G	uc004dda.1	-	55	8343	c.8099A>C	c.(8098-8100)AAG>ACG	p.K2700T	DMD_uc004dcr.1_Missense_Mutation_p.K240T|DMD_uc004dcs.1_Missense_Mutation_p.K240T|DMD_uc004dct.1_Missense_Mutation_p.K240T|DMD_uc004dcu.1_Missense_Mutation_p.K240T|DMD_uc004dcv.1_Missense_Mutation_p.K240T|DMD_uc004dcw.2_Missense_Mutation_p.K1356T|DMD_uc004dcx.2_Missense_Mutation_p.K1359T|DMD_uc004dcz.2_Missense_Mutation_p.K2577T|DMD_uc004dcy.1_Missense_Mutation_p.K2696T|DMD_uc004ddb.1_Missense_Mutation_p.K2692T	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2700	Spectrin 19.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GGCAAGAAACTTTTCCAGGTC	0.478													3	29					0	0	0.004672	0	0		G	31645908	G	G	31645908	3	3	174	1	0	0	0	0	1	0	0	0	4586	1609	56	5	3206	5	DMD	23	31645908	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	7263303	31645908	123624652	352	90810											
FAM47A	158724	broad.mit.edu	37	chrX	34150170	34150170	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatattttggggagtaaaaActcgtcacggcgacaaacga	15	8	11	7	4	1	1	1	0	0	1	2	4	1	2	0	3	2	1	0	3	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:34150170A>T	uc004ddg.2	-	1	259	c.226T>A	c.(226-228)TTT>ATT	p.F76I		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	76										ovary(4)|central_nervous_system(1)	5						GGGAGTAAAAACTCGTCACGG	0.532													5	138					0	0	0.000602	0	0		T	34150170	T	T	34150170	3	4	174	1	0	0	0	0	1	0	0	0	5583	43	2	5	2153	5	FAM47A	23	34150170	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	2504262	34150170	121120390	353	90811											
MAGEB16	139604	broad.mit.edu	37	chrX	35820769	35820769	+	Silent	SNP	T	C	C	0	1	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	gatgatgagagccacttctcTgagatcctcctgagagcttc	9	11	10	11	0	1	4	0	4	1	3	5	8	3	4	3	0	2	1	3	0	0	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:35820769T>C	uc010ngt.1	+	2	735	c.456T>C	c.(454-456)TCT>TCC	p.S152S		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	152	MAGE.									lung(3)|ovary(2)|breast(1)|skin(1)	7						GCCACTTCTCTGAGATCCTCC	0.443													35	83					0	0	0.003755	0	0		C	35820769	C	C	35820769	2	2	174	1	0	0	0	0	0	0	0	1	9192	1567	55	3		3	MAGEB16	23	35820769	Silent	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1670599	35820769	119449791	354	90812											
ATP6AP2	10159	broad.mit.edu	37	chrX	40460100	40460100	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tttgacacctccctcattagGaagacaaggactatccttga	12	11	7	11	0	1	3	1	2	0	1	3	5	3	5	3	2	0	0	3	2	4	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:40460100G>C	uc004det.2	+	8	927	c.825G>C	c.(823-825)AGG>AGC	p.R275S	ATP6AP2_uc010nhc.2_RNA|ATP6AP2_uc011mkl.1_Missense_Mutation_p.R199S|ATP6AP2_uc011mkm.1_Missense_Mutation_p.R243S|ATP6AP2_uc011mkn.1_Missense_Mutation_p.R197S|ATP6AP2_uc004deu.1_Missense_Mutation_p.R140S	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory	275	Extracellular (Potential).				angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0						CCCTCATTAGGAAGACAAGGA	0.358													40	43					0	0	0.006999	0	0		C	40460100	C	C	40460100	3	2	174	1	0	0	0	0	1	0	0	0	1168	1165	41	5	855	5	ATP6AP2	23	40460100	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	4639331	40460100	114810460	355	90813											
MED14	9282	broad.mit.edu	37	chrX	40552032	40552032	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagtcctgaatgttttccttGaactgctgcagcagcaatgc	10	12	9	10	0	0	2	0	2	0	0	2	2	2	2	2	0	6	5	2	0	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:40552032G>C	uc004dex.3	-	14	1913	c.1773C>G	c.(1771-1773)TTC>TTG	p.F591L		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	591	Interaction with SREBF1.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						TGTTTTCCTTGAACTGCTGCA	0.448													17	62					0	0	0.007413	0	0		C	40552032	C	C	40552032	3	2	174	1	0	0	0	0	1	0	0	0	9450	1281	45	5	2663	5	MED14	23	40552032	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	91932	40552032	114718528	356	90814											
USP11	8237	broad.mit.edu	37	chrX	47104478	47104478	+	Missense_Mutation	SNP	A	T	T	1	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	gcgttactatgacgaggtagAggctgaggtaaatgagatcc	12	9	14	6	2	0	4	0	3	0	2	1	6	1	4	1	3	1	4	1	3	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:47104478A>T	uc004dhp.2	+	16	2279	c.2279A>T	c.(2278-2280)GAG>GTG	p.E760V	USP11_uc004dhq.2_Missense_Mutation_p.E486V	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	760					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GACGAGGTAGAGGCTGAGGTA	0.562													4	41					0	0	0.009096	0	0		T	47104478	T	T	47104478	3	4	174	1	0	0	0	0	1	0	0	0	17068	304	11	5	2341	5	USP11	23	47104478	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	6552446	47104478	108166082	357	90815											
SYN1	6853	broad.mit.edu	37	chrX	47434138	47434138	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccctgcgggctgctgggaggTctggcggcccaagggcaggg	4	5	20	12	2	1	0	0	0	1	0	1	1	1	1	2	7	2	3	2	7	1	0			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:47434138T>C	uc004die.2	-	11	1471	c.1342A>G	c.(1342-1344)ACC>GCC	p.T448A	SYN1_uc004did.2_Missense_Mutation_p.T448A	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia	448	D; Pro-rich linker.					cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						TGCTGGGAGGTCTGGCGGCCC	0.677													7	13					0	0	0.00308	0	0		C	47434138	C	C	47434138	3	2	174	1	0	0	0	0	1	0	0	0	15465	1667	58	3	787	3	SYN1	23	47434138	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	329660	47434138	107836422	358	90816											
ZNF81	347344	broad.mit.edu	37	chrX	47775719	47775719	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaccctatgtttgtgctgaTtgtgggagggccttcatcca	8	13	11	9	0	1	1	1	1	0	0	2	2	2	2	3	2	2	2	3	2	2	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:47775719T>A	uc010nhy.1	+	6	2042	c.1674T>A	c.(1672-1674)GAT>GAA	p.D558E		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	558	C2H2-type 9.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				TTTGTGCTGATTGTGGGAGGG	0.423													5	42					0	0	0.000602	0	0		A	47775719	A	A	47775719	3	1	174	1	0	0	0	0	1	0	0	0	18199	1490	52	5	1688	5	ZNF81	23	47775719	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	341581	47775719	107494841	359	90817											
IQSEC2	23096	broad.mit.edu	37	chrX	53265548	53265548	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactgctgagtgcgccccgtTtgagcccatcgcctgccccg	5	8	11	17	4	0	2	0	2	0	0	1	2	0	2	6	0	5	2	6	0	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:53265548T>G	uc004dsd.2	-	13	3608	c.3407A>C	c.(3406-3408)AAA>ACA	p.K1136T	IQSEC2_uc004dsc.2_Missense_Mutation_p.K931T	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	1126					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						TGCGCCCCGTTTGAGCCCATC	0.657													3	15					0	0	0.004672	0	0		G	53265548	G	G	53265548	3	3	174	1	0	0	0	0	1	0	0	0	7834	1841	64	5	1071	5	IQSEC2	23	53265548	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	5489829	53265548	102005012	360	90818											
ALAS2	212	broad.mit.edu	37	chrX	55041235	55041235	+	Missense_Mutation	SNP	A	C	C	1	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	caggaaggcccctgtccatgAgtagctggcgcatgtgcttg	7	9	14	11	1	0	1	0	1	0	0	1	2	1	2	3	3	2	4	3	3	2	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:55041235A>C	uc004dua.3	-	9	1520	c.1382T>G	c.(1381-1383)CTC>CGC	p.L461R	ALAS2_uc004dub.3_Missense_Mutation_p.L448R|ALAS2_uc004dud.3_Missense_Mutation_p.L424R	NM_000032	NP_000023	P22557	HEM0_HUMAN	5-aminolevulinate synthase 2 isoform a	461					cellular iron ion homeostasis|erythrocyte differentiation|heme biosynthetic process|hemoglobin biosynthetic process|oxygen homeostasis|response to hypoxia	mitochondrial inner membrane|mitochondrial matrix	5-aminolevulinate synthase activity|coenzyme binding|glycine binding|protein binding|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(1)	1					Glycine(DB00145)	CCTGTCCATGAGTAGCTGGCG	0.607													6	9					0	0	0.001168	0	0		C	55041235	C	C	55041235	3	2	174	1	0	0	0	0	1	0	0	0	485	304	11	5	393	5	ALAS2	23	55041235	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	1775687	55041235	100229325	361	90819											
LAS1L	81887	broad.mit.edu	37	chrX	64738169	64738169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagacccgaagctggagctgGctggcttgacgctccaatac	9	7	12	13	2	0	2	0	1	0	1	1	4	1	3	2	3	3	5	2	3	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:64738169G>A	uc004dwa.1	-	12	1697	c.1625C>T	c.(1624-1626)GCC>GTC	p.A542V	LAS1L_uc004dwc.1_Missense_Mutation_p.A525V|LAS1L_uc004dwd.1_Missense_Mutation_p.A483V|LAS1L_uc004dvy.1_Missense_Mutation_p.A55V|LAS1L_uc004dvz.1_Missense_Mutation_p.A55V	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	542						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						GCTGGAGCTGGCTGGCTTGAC	0.552													12	129					0	0	0.004007	0	0		A	64738169	A	A	64738169	3	1	174	1	0	0	0	0	1	0	0	0	8652	1203	42	2	591	2	LAS1L	23	64738169	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	9696934	64738169	90532391	362	90820											
CXorf65	158830	broad.mit.edu	37	chrX	70323883	70323883	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagttggcgacctttattcTtcctgaagtctggtctgttc	5	17	10	9	1	3	2	0	2	3	0	5	3	4	2	2	2	0	2	2	2	2	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:70323883T>G	uc011mpo.1	-	6	520	c.506A>C	c.(505-507)AAG>ACG	p.K169T	CXorf65_uc011mpp.1_Missense_Mutation_p.K121T	NM_001025265	NP_001020436	A6NEN9	CX065_HUMAN	hypothetical protein LOC158830	169										central_nervous_system(1)	1						ACCTTTATTCTTCCTGAAGTC	0.383													7	61					0	0	0.001984	0	0		G	70323883	G	G	70323883	3	3	174	1	0	0	0	0	1	0	0	0	4120	1609	56	5	49	5	CXorf65	23	70323883	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	5585714	70323883	84946677	363	90821											
ITGB1BP2	26548	broad.mit.edu	37	chrX	70523493	70523493	+	Missense_Mutation	SNP	A	T	T	1	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	ttaggtttaccaaggccctgAgagtgatgctactccatgta	10	12	10	9	0	0	2	0	2	0	1	1	3	1	2	3	2	3	3	3	2	5	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:70523493A>T	uc004dzr.1	+	7	514	c.485A>T	c.(484-486)GAG>GTG	p.E162V	BCYRN1_uc011mpt.1_Intron|ITGB1BP2_uc004dzs.1_Missense_Mutation_p.E144V	NM_012278	NP_036410	Q9UKP3	ITBP2_HUMAN	integrin beta 1 binding protein 2	162	Cys-rich.|CHORD 2.				muscle organ development|signal transduction		SH3 domain binding			ovary(1)	1	Renal(35;0.156)					CAAGGCCCTGAGAGTGATGCT	0.512													7	73					0	0	0.004482	0	0		T	70523493	T	T	70523493	3	4	174	1	0	0	0	0	1	0	0	0	7908	304	11	5	511	5	ITGB1BP2	23	70523493	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	199610	70523493	84747067	364	90822											
NHSL2	340527	broad.mit.edu	37	chrX	71360037	71360037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctccggtggcccggaGgcctccaagcttggtccaca	7	6	13	15	2	0	0	0	0	0	0	3	2	3	1	6	5	2	1	6	5	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:71360037G>A	uc011mqa.1	+	6	2639	c.2639G>A	c.(2638-2640)AGG>AAG	p.R880K	NHSL2_uc004eak.1_Missense_Mutation_p.R514K|NHSL2_uc010nli.2_Missense_Mutation_p.R649K	NM_001013627	NP_001013649	Q5HYW2	NHSL2_HUMAN	NHS-like 2	880											0	Renal(35;0.156)					GTGGCCCGGAGGCCTCCAAGC	0.557													10	61					0	0	0.006214	0	0		A	71360037	A	A	71360037	3	1	174	1	0	0	0	0	1	0	0	0	10431	1000	35	4	2661	4	NHSL2	23	71360037	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	836544	71360037	83910523	365	90823											
NHSL2	340527	broad.mit.edu	37	chrX	71360088	71360088	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttcctgaggagtatgcacTaacttcaccaaccttggcta	10	12	8	11	0	1	1	1	1	0	0	2	2	2	2	3	2	3	4	3	2	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:71360088T>C	uc011mqa.1	+	6	2690	c.2690T>C	c.(2689-2691)CTA>CCA	p.L897P	NHSL2_uc004eak.1_Missense_Mutation_p.L531P|NHSL2_uc010nli.2_Missense_Mutation_p.L666P	NM_001013627	NP_001013649	Q5HYW2	NHSL2_HUMAN	NHS-like 2	897											0	Renal(35;0.156)					GAGTATGCACTAACTTCACCA	0.562													42	55					0	0	0.010771	0	0		C	71360088	C	C	71360088	3	2	174	1	0	0	0	0	1	0	0	0	10431	1522	53	3	2712	3	NHSL2	23	71360088	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	51	71360088	83910472	366	90824											
NAP1L2	4674	broad.mit.edu	37	chrX	72433801	72433801	+	Silent	SNP	A	G	G	1	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	tcatgacacatttcctcatcAtcacagtcctcagagtctga	11	12	5	13	0	6	3	5	2	1	1	8	3	8	3	2	0	0	0	2	0	0	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:72433801A>G	uc004ebi.2	-	1	884	c.528T>C	c.(526-528)GAT>GAC	p.D176D	NAP1L2_uc011mqj.1_Silent_p.D34D	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	176	Glu-rich (acidic).				nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					TTTCCTCATCATCACAGTCCT	0.383													9	139					0	0	0.006214	0	0		G	72433801	G	G	72433801	2	3	174	1	0	0	0	0	0	0	0	1	10175	214	8	3		3	NAP1L2	23	72433801	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	1073713	72433801	82836759	367	90825											
RLIM	51132	broad.mit.edu	37	chrX	73812036	73812036	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataggttctcacacctgcccGctcagaacgtgaaaatgtac	12	9	8	12	2	2	2	2	1	1	1	3	2	2	2	2	1	3	3	2	1	5	3	rs61754467		TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:73812036G>T	uc004ebu.2	-	5	1404	c.1114C>A	c.(1114-1116)CGG>AGG	p.R372R	RLIM_uc004ebw.2_Silent_p.R372R	NM_183353	NP_899196	Q9NVW2	RNF12_HUMAN	ring finger protein, LIM domain interacting	372					random inactivation of X chromosome|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|transcriptional repressor complex	transcription corepressor activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						ACACCTGCCCGCTCAGAACGT	0.443													22	131					2.21704e-12	2.36217e-12	0.00278	1	0		T	73812036	T	T	73812036	2	4	174	1	0	0	0	0	0	0	0	1	13415	1086	38	5		5	RLIM	23	73812036	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1378235	73812036	81458524	368	90826											
KIAA2022	340533	broad.mit.edu	37	chrX	73963244	73963244	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccttcctctttgcctttcTtcttgtccaagtttttatct	3	22	4	12	0	4	0	0	0	4	0	7	0	7	0	4	0	1	1	4	0	2	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:73963244T>C	uc004eby.2	-	3	1765	c.1148A>G	c.(1147-1149)AAG>AGG	p.K383R		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	383					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						TTTGCCTTTCTTCTTGTCCAA	0.453													9	321					0	0	0.004482	0	0		C	73963244	C	C	73963244	3	2	174	1	0	0	0	0	1	0	0	0	8285	1609	56	3	3410	3	KIAA2022	23	73963244	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	151208	73963244	81307316	369	90827											
ATRX	546	broad.mit.edu	37	chrX	76918897	76918897	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttctgtttctgcctttgactTctttatgctctttaggcttt	3	23	6	9	0	4	1	0	1	4	0	4	1	4	1	1	1	2	3	1	1	2	9			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:76918897T>G	uc004ecp.3	-	12	4326	c.4094A>C	c.(4093-4095)GAA>GCA	p.E1365A	ATRX_uc004ecq.3_Missense_Mutation_p.E1327A|ATRX_uc004eco.3_Missense_Mutation_p.E1150A|ATRX_uc004ecr.2_Missense_Mutation_p.E1297A	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1365					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GCCTTTGACTTCTTTATGCTC	0.323			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						22	173					0	0	0.005443	0	0		G	76918897	G	G	76918897	3	3	174	1	0	0	0	0	1	0	0	0	1209	1783	62	5	3480	5	ATRX	23	76918897	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	2955653	76918897	78351663	370	90828											
ATRX	546	broad.mit.edu	37	chrX	76939970	76939970	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagcaataccattggttgtTttcatccattattgtggaca	10	16	8	7	0	1	0	1	0	0	0	2	1	2	1	2	2	2	4	2	2	4	8			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:76939970T>G	uc004ecp.3	-	9	1010	c.778A>C	c.(778-780)AAC>CAC	p.N260H	ATRX_uc004ecq.3_Missense_Mutation_p.N222H|ATRX_uc004eco.3_Missense_Mutation_p.N45H|ATRX_uc004ecr.2_Missense_Mutation_p.N221H|ATRX_uc010nlx.1_Missense_Mutation_p.N260H|ATRX_uc010nly.1_Missense_Mutation_p.N205H	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	260	ADD.|PHD-type; atypical.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	CATTGGTTGTTTTCATCCATT	0.403			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						47	360					0	0	0.01441	0	0		G	76939970	G	G	76939970	3	3	174	1	0	0	0	0	1	0	0	0	1209	1841	64	5	6808	5	ATRX	23	76939970	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	21073	76939970	78330590	371	90829											
CHM	1121	broad.mit.edu	37	chrX	85155675	85155675	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgatctgaatctgtttttagGacagatctatctgtaatcag	11	16	8	6	0	5	3	1	2	4	1	5	4	5	4	0	1	0	2	0	1	4	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:85155675G>A	uc004eet.2	-	11	1419	c.1389C>T	c.(1387-1389)GTC>GTT	p.V463V	CHM_uc011mqz.1_Silent_p.V315V	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	463					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				CTGTTTTTAGGACAGATCTAT	0.269													7	19					0	0	0.004482	0	0		A	85155675	A	A	85155675	2	1	174	1	0	0	0	0	0	0	0	1	3353	1161	41	4		4	CHM	23	85155675	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	8215705	85155675	70114885	372	90830											
PCDH11X	27328	broad.mit.edu	37	chrX	91132001	91132001	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtctttaaggagacagagatTgaagtcagtataccagaaaa	17	9	10	5	0	2	4	1	1	1	3	2	6	2	4	1	1	1	1	1	1	6	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:91132001T>G	uc004efk.1	+	2	1607	c.762T>G	c.(760-762)ATT>ATG	p.I254M	PCDH11X_uc004efl.1_Missense_Mutation_p.I254M|PCDH11X_uc004efo.1_Missense_Mutation_p.I254M|PCDH11X_uc010nmv.1_Missense_Mutation_p.I254M|PCDH11X_uc004efm.1_Missense_Mutation_p.I254M|PCDH11X_uc004efn.1_Missense_Mutation_p.I254M|PCDH11X_uc004efh.1_Missense_Mutation_p.I254M|PCDH11X_uc004efj.1_Missense_Mutation_p.I254M	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	254	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						AGACAGAGATTGAAGTCAGTA	0.433													29	110					0	0	0.004289	0	0		G	91132001	G	G	91132001	3	3	174	1	0	0	0	0	1	0	0	0	11527	1800	63	5	768	5	PCDH11X	23	91132001	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	5976326	91132001	64138559	373	90831											
PCDH11X	27328	broad.mit.edu	37	chrX	91873823	91873823	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttttacaccatgtctgaaAgacttcatcccagtgatgat	12	13	7	9	0	2	4	1	3	1	1	3	4	3	4	2	0	1	1	2	0	2	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:91873823A>G	uc004efk.1	+	7	4773	c.3928A>G	c.(3928-3930)AGA>GGA	p.R1310G	PCDH11X_uc004efl.1_Missense_Mutation_p.R1300G|PCDH11X_uc004efo.1_Missense_Mutation_p.R1273G|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Missense_Mutation_p.R1302G|PCDH11X_uc004efn.1_Missense_Mutation_p.R1292G	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1310	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CATGTCTGAAAGACTTCATCC	0.483													13	337					0	0	0.00499	0	0		G	91873823	G	G	91873823	3	3	174	1	0	0	0	0	1	0	0	0	11527	64	3	3	4076	3	PCDH11X	23	91873823	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	741822	91873823	63396737	374	90832											
TCEAL3	85012	broad.mit.edu	37	chrX	102864315	102864315	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaagattatgtgccccGgaaagcaaaaagaaaaacgg	17	5	12	7	2	0	3	0	1	0	2	0	4	0	4	2	3	3	2	2	3	7	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:102864315G>A	uc004ekq.2	+	3	585	c.323G>A	c.(322-324)CGG>CAG	p.R108Q	TCEAL3_uc004ekr.2_Missense_Mutation_p.R108Q	NM_001006933	NP_001006934	Q969E4	TCAL3_HUMAN	transcription elongation factor A (SII)-like 3	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TATGTGCCCCGGAAAGCAAAA	0.597													73	157					0	0	0.01441	0	0		A	102864315	A	A	102864315	3	1	174	1	0	0	0	0	1	0	0	0	15697	1116	39	1	325	1	TCEAL3	23	102864315	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	10990492	102864315	52406245	375	90833											
RAB9B	51209	broad.mit.edu	37	chrX	103080330	103080330	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagtcacttgcctatcctCtttgtctaccttgttaccca	7	16	5	13	0	3	0	1	0	2	0	4	0	4	0	4	0	3	2	4	0	4	7			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:103080330C>A	uc004ell.1	-	3	670	c.385G>T	c.(385-387)GAG>TAG	p.E129*	RAB9B_uc004eli.1_Intron	NM_016370	NP_057454	Q9NP90	RAB9B_HUMAN	RAB9B, member RAS oncogene family	129					Golgi to endosome transport|protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			lung(3)	3						TGCCTATCCTCTTTGTCTACC	0.433													8	525					0.000274275	0.000282659	0.004482	1	0		A	103080330	A	A	103080330	4	1	174	1	0	0	0	0	0	1	0	0	12984	922	32	5	224	5	RAB9B	23	103080330	Nonsense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	216015	103080330	52190230	376	90834											
FAM199X	139231	broad.mit.edu	37	chrX	103431172	103431172	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgagtatctgagtcggaaagTgagtactgagatgggtcttc	10	12	14	5	1	2	4	0	4	2	1	4	6	2	5	0	2	1	2	0	2	3	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:103431172T>C	uc004elw.2	+	4	765	c.599T>C	c.(598-600)GTG>GCG	p.V200A	FAM199X_uc004elx.2_Missense_Mutation_p.V17A	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	200										ovary(1)	1						AGTCGGAAAGTGAGTACTGAG	0.333													7	116					0	0	0.004482	0	0		C	103431172	C	C	103431172	3	2	174	1	0	0	0	0	1	0	0	0	5541	1696	59	3	613	3	FAM199X	23	103431172	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	350842	103431172	51839388	377	90835											
MUM1L1	139221	broad.mit.edu	37	chrX	105450489	105450489	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggaagaaggtcaagcctCtgacaagtcattgcttccaa	13	9	10	9	0	3	3	2	2	1	1	4	4	4	4	2	2	2	1	2	2	5	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:105450489C>A	uc004emf.1	+	4	1713	c.1064C>A	c.(1063-1065)TCT>TAT	p.S355Y	MUM1L1_uc004emg.1_Missense_Mutation_p.S355Y	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	355										ovary(2)|pancreas(1)|skin(1)	4						GGTCAAGCCTCTGACAAGTCA	0.388													7	36					8.12818e-05	8.43187e-05	0.001984	1	0		A	105450489	A	A	105450489	3	1	174	1	0	0	0	0	1	0	0	0	10004	913	32	5	1066	5	MUM1L1	23	105450489	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	2019317	105450489	49820071	378	90836											
ATG4A	115201	broad.mit.edu	37	chrX	107396918	107396918	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggagtttgatctggaggaAgattttgagattctgagtgt	10	14	15	2	0	2	4	0	3	2	2	2	9	2	7	0	3	0	1	0	3	1	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:107396918A>C	uc004enr.2	+	13	1296	c.1173A>C	c.(1171-1173)GAA>GAC	p.E391D	ATG4A_uc004ent.2_Missense_Mutation_p.E329D|ATG4A_uc004ens.2_Missense_Mutation_p.E307D|ATG4A_uc011msl.1_Missense_Mutation_p.E245D|ATG4A_uc010npi.2_RNA|ATG4A_uc004enu.2_Missense_Mutation_p.E307D|COL4A6_uc011msm.1_Intron	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	391					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						ATCTGGAGGAAGATTTTGAGA	0.388													35	207					0	0	0.00623	0	0		C	107396918	C	C	107396918	3	2	174	1	0	0	0	0	1	0	0	0	1097	69	3	5	1223	5	ATG4A	23	107396918	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	1946429	107396918	47873642	379	90837											
GUCY2F	2986	broad.mit.edu	37	chrX	108652293	108652293	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttgatttgtcagtatgtcTtctaggctccctcgggaaca	7	15	9	10	1	4	1	1	1	3	0	6	2	5	2	1	2	1	2	1	2	3	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:108652293T>G	uc004eod.3	-	9	2172	c.1896A>C	c.(1894-1896)GAA>GAC	p.E632D	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	632	Protein kinase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TCAGTATGTCTTCTAGGCTCC	0.408													5	219					0	0	0.001168	0	0		G	108652293	G	G	108652293	3	3	174	1	0	0	0	0	1	0	0	0	6914	1606	56	5	1474	5	GUCY2F	23	108652293	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1255375	108652293	46618267	380	90838											
DOCK11	139818	broad.mit.edu	37	chrX	117700536	117700536	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcttttaatgaatttgcaGatgatgaaactagcagccaa	14	12	8	7	0	0	4	0	3	0	1	0	4	0	4	1	0	5	3	1	0	5	4			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:117700536G>A	uc004eqp.2	+	9	935	c.872_splice	c.e9-1	p.D291_splice	DOCK11_uc004eqq.2_Splice_Site_p.D57_splice	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11						blood coagulation	cytosol	GTP binding			ovary(3)	3						TGAATTTGCAGATGATGAAAC	0.413													12	36					0	0	0.013537	0	0		A	117700536	A	A	117700536	5	1	174	1	0	0	0	0	0	0	1	0	4692	956	33	4	905	4	DOCK11	23	117700536	Splice_Site	SNP	G	TCGA-D7-6528-01A-11D-1800-08	9048243	117700536	37570024	381	90839											
CXorf56	63932	broad.mit.edu	37	chrX	118694316	118694316	+	Frame_Shift_Del	DEL	G	-	-																															aatcacacgggaccggtcccGgggcctcatgggcaatttct																										TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:118694316delG	uc004erk.1	-	2	203	c.157delC	c.(157-159)CGGfs	p.R53fs	CXorf56_uc004erj.1_Frame_Shift_Del_p.R4fs|CXorf56_uc011mtu.1_Frame_Shift_Del_p.R53fs	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	53							protein binding				0						GACCGGTCCCGGGGCCTCATG	0.463													155	138	---	---	---	---						.	-	118694316	-	-	118694316	7	5	174	1	0	1	0	1	0	0	0	0	4115	1115	39	0	535	0	CXorf56	23	118694316	Frame_Shift_Del	DEL	G	TCGA-D7-6528-01A-11D-1800-08	993780	118694316	36576244	382	90840											
GLUD2	2747	broad.mit.edu	37	chrX	120182817	120182817	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacattttggttattccaGatctctacttgaatgctgga	11	15	8	7	0	1	2	0	1	1	1	3	4	2	3	1	2	3	2	1	2	4	6			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:120182817G>T	uc004eto.2	+	1	1356	c.1279G>T	c.(1279-1281)GAT>TAT	p.D427Y		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	427					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	GGTTATTCCAGATCTCTACTT	0.428													63	273					1.55088e-19	1.69449e-19	0.01441	1	0		T	120182817	T	T	120182817	3	4	174	1	0	0	0	0	1	0	0	0	6492	942	33	5	1281	5	GLUD2	23	120182817	Missense_Mutation	SNP	G	TCGA-D7-6528-01A-11D-1800-08	1488501	120182817	35087743	383	90841											
ODZ1	10178	broad.mit.edu	37	chrX	123540219	123540219	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcaagttggttgacatgagGacattttcacggttggaagt	10	13	13	5	1	2	2	2	2	0	0	2	4	2	4	0	4	0	3	0	4	2	5			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:123540219G>T	uc004euj.2	-	25	5146	c.5082C>A	c.(5080-5082)GTC>GTA	p.V1694V	ODZ1_uc011muj.1_Silent_p.V1700V|ODZ1_uc010nqy.2_Silent_p.V1701V	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1694	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TTGACATGAGGACATTTTCAC	0.438													76	177					4.09166e-32	4.52286e-32	0.01441	1	0		T	123540219	T	T	123540219	2	4	174	1	0	0	0	0	0	0	0	1	10853	1161	41	5		5	ODZ1	23	123540219	Silent	SNP	G	TCGA-D7-6528-01A-11D-1800-08	3357402	123540219	31730341	384	90842											
ODZ1	10178	broad.mit.edu	37	chrX	123775705	123775705	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actccagcgtccagaagaaaAgttccgtgtcctgagcactg	11	8	10	12	2	0	3	0	1	0	2	4	3	4	3	4	0	2	2	4	0	3	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:123775705A>C	uc004euj.2	-	11	2077	c.2013T>G	c.(2011-2013)ACT>ACG	p.T671T	ODZ1_uc011muj.1_Silent_p.T670T|ODZ1_uc010nqy.2_Silent_p.T671T	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	671	EGF-like 5.|Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						CCAGAAGAAAAGTTCCGTGTC	0.478													103	279					0	0	0.01441	0	0		C	123775705	C	C	123775705	2	2	174	1	0	0	0	0	0	0	0	1	10853	59	3	5		5	ODZ1	23	123775705	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	235486	123775705	31494855	385	90843											
BCORL1	63035	broad.mit.edu	37	chrX	129159091	129159091	+	Missense_Mutation	SNP	A	G	G	1	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	tcgaaaggtgagaaagacccAacgggacacccagtatcgca	15	4	11	11	3	0	2	0	1	0	2	2	5	0	3	2	2	1	2	2	2	4	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:129159091A>G	uc004evb.1	+	7	3929	c.3815A>G	c.(3814-3816)CAA>CGA	p.Q1272R	BCORL1_uc010nrd.1_Intron|BCORL1_uc004evc.1_Missense_Mutation_p.Q34R	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1272					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						AGAAAGACCCAACGGGACACC	0.592													14	180					0	0	0.00245	0	0		G	129159091	G	G	129159091	3	3	174	1	0	0	0	0	1	0	0	0	1388	130	5	3	3837	3	BCORL1	23	129159091	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	5383386	129159091	26111469	386	90844											
PLAC1	10761	broad.mit.edu	37	chrX	133700336	133700336	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactctcatggagcagggcTtggtgagccatggggacttt	7	11	14	9	0	1	1	1	1	1	0	2	3	1	3	1	5	3	2	1	5	1	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:133700336T>A	uc004exo.1	-	3	663	c.377A>T	c.(376-378)AAG>ATG	p.K126M	PLAC1_uc004exp.1_Missense_Mutation_p.K126M	NM_021796	NP_068568	Q9HBJ0	PLAC1_HUMAN	placenta-specific 1 precursor	126					placenta development	extracellular region				pancreas(1)	1	Acute lymphoblastic leukemia(192;0.000127)					GGAGCAGGGCTTGGTGAGCCA	0.537													12	236					0	0	0.010729	0	0		A	133700336	A	A	133700336	3	1	174	1	0	0	0	0	1	0	0	0	12031	1609	56	5	265	5	PLAC1	23	133700336	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	4541245	133700336	21570224	387	90845											
LDOC1	23641	broad.mit.edu	37	chrX	140271010	140271010	+	Missense_Mutation	SNP	T	A	A	0	1	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	acgccgtctgcacgataaacTcggggagccgggagctctcg	8	6	14	13	6	2	0	0	0	2	0	4	3	2	2	2	3	4	2	2	3	2	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:140271010T>A	uc004fbj.2	-	1	301	c.197A>T	c.(196-198)GAG>GTG	p.E66V		NM_012317	NP_036449	O95751	LDOC1_HUMAN	leucine zipper, down-regulated in cancer 1	66					negative regulation of cell proliferation	nucleus	protein binding				0	Acute lymphoblastic leukemia(192;7.65e-05)					CACGATAAACTCGGGGAGCCG	0.617													41	66					0	0	0.00623	0	0		A	140271010	A	A	140271010	3	1	174	1	0	0	0	0	1	0	0	0	8725	1551	54	5	247	5	LDOC1	23	140271010	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	6570674	140271010	14999550	388	90846											
AFF2	2334	broad.mit.edu	37	chrX	147743468	147743468	+	Missense_Mutation	SNP	A	T	T	1	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	ttgccaaccgagtccagaacAcgcttggaaactatgatgaa	14	8	9	10	2	0	3	0	2	0	1	1	5	1	4	3	1	4	1	3	1	5	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:147743468A>T	uc004fcp.2	+	3	699	c.220A>T	c.(220-222)ACG>TCG	p.T74S	AFF2_uc004fco.2_Missense_Mutation_p.T70S|AFF2_uc004fcq.2_Missense_Mutation_p.T70S|AFF2_uc004fcr.2_Missense_Mutation_p.T70S|AFF2_uc011mxb.1_Missense_Mutation_p.T74S|AFF2_uc004fcs.2_Missense_Mutation_p.T70S	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	74					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AGTCCAGAACACGCTTGGAAA	0.403													32	212					0	0	0.003271	0	0		T	147743468	T	T	147743468	3	4	174	1	0	0	0	0	1	0	0	0	357	159	6	5	230	5	AFF2	23	147743468	Missense_Mutation	SNP	A	TCGA-D7-6528-01A-11D-1800-08	7472458	147743468	7527092	389	90847											
IDS	3423	broad.mit.edu	37	chrX	148586601	148586601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcgtttcggatccgagggCgacgcagacggagctcagaa	9	6	15	11	6	1	2	1	0	0	2	3	6	2	4	1	3	2	3	1	3	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:148586601C>T	uc011mxe.1	-	1	265	c.67G>A	c.(67-69)GCC>ACC	p.A23T	IDS_uc011mxf.1_5'UTR|IDS_uc011mxg.1_5'UTR|IDS_uc010nsu.1_Intron|IDS_uc004fcw.3_Intron|IDS_uc011mxh.1_Missense_Mutation_p.A23T|IDS_uc011mxi.1_RNA|IDS_uc011mxj.1_Missense_Mutation_p.A23T	NM_000202	NP_000193	P22304	IDS_HUMAN	iduronate-2-sulfatase isoform a precursor	23						lysosome	iduronate-2-sulfatase activity|metal ion binding				0	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					GATCCGAGGGCGACGCAGACG	0.527													44	40					0	0	0.01441	0	0		T	148586601	T	T	148586601	3	4	174	1	0	0	0	0	1	0	0	0	7519	768	27	1	1651	1	IDS	23	148586601	Missense_Mutation	SNP	C	TCGA-D7-6528-01A-11D-1800-08	843133	148586601	6683959	390	90848											
MECP2	4204	broad.mit.edu	37	chrX	153296057	153296057	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcagacgctgctgctcaAgtcctggggctcaggggggc	5	9	16	11	1	2	1	2	0	0	1	3	1	3	1	1	5	3	5	1	5	1	1			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:153296057A>G	uc004fjv.2	-	4	1448	c.1222T>C	c.(1222-1224)TTG>CTG	p.L408L	MECP2_uc004fjw.2_Silent_p.L420L	NM_004992	NP_004983	P51608	MECP2_HUMAN	methyl CpG binding protein 2 isoform 1	408					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	heterochromatin|nucleus	double-stranded methylated DNA binding|protein domain specific binding|protein N-terminus binding|transcription corepressor activity				0	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)					CTGCTGCTCAAGTCCTGGGGC	0.682													23	206					0	0	0.00278	0	0		G	153296057	G	G	153296057	2	3	174	1	0	0	0	0	0	0	0	1	9441	69	3	3		3	MECP2	23	153296057	Silent	SNP	A	TCGA-D7-6528-01A-11D-1800-08	4709456	153296057	1974503	391	90849											
GDI1	2664	broad.mit.edu	37	chrX	153668347	153668347	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggtgtttgtggcaaacTtcgatgagaatgaccccaag	10	11	11	9	1	0	2	0	2	0	1	2	4	1	2	3	2	1	2	3	2	3	2			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:153668347T>C	uc004fli.3	+	5	790	c.448T>C	c.(448-450)TTC>CTC	p.F150L	GDI1_uc011mzo.1_Missense_Mutation_p.F150L|GDI1_uc004flj.2_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	150				NFD -> GTY (in Ref. 2; BAA08078).	protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGTGGCAAACTTCGATGAGAA	0.542													63	632					0	0	0.01441	0	0		C	153668347	C	C	153668347	3	2	174	1	0	0	0	0	1	0	0	0	6335	1609	56	3	466	3	GDI1	23	153668347	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	372290	153668347	1602213	392	90850											
VAMP7	6845	broad.mit.edu	37	chrX	155127890	155127890	+	Missense_Mutation	SNP	T	C	C	0	1	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	atgccatgaatagcgagttcTcaagtgtcttagctgcacag	11	11	10	9	1	2	1	1	1	2	0	3	2	2	1	1	0	4	3	1	0	4	3			TCGA-D7-6528-01A-11D-1800-08	TCGA-D7-6528-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	153a64ee-6322-4f2e-b3df-77ef7d3a4cf0	c7abc1e5-aa3a-44df-bfca-490332206b15	g.chrX:155127890T>C	uc004fnr.2	+	4	493	c.319T>C	c.(319-321)TCA>CCA	p.S107P	VAMP7_uc004fnt.2_Missense_Mutation_p.S66P|VAMP7_uc011naa.1_Missense_Mutation_p.S68P|VAMP7_uc011nab.1_Missense_Mutation_p.S6P|VAMP7_uc004fns.2_Missense_Mutation_p.S107P|VAMP7_uc011nac.1_Missense_Mutation_p.S40P	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1	107	Longin.|Cytoplasmic (Potential).				calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TAGCGAGTTCTCAAGTGTCTT	0.408													6	164					0	0	0.001984	0	0		C	155127890	C	C	155127890	3	2	174	1	0	0	0	0	1	0	0	0	17143	1551	54	3	329	3	VAMP7	23	155127890	Missense_Mutation	SNP	T	TCGA-D7-6528-01A-11D-1800-08	1459543	155127890	142670	393	90851											
KIF1B	23095	broad.mit.edu	37	chr1	10399860	10399860	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgatgaagcattctccacGgagcccctcaaaaacaatgg	14	7	8	12	1	2	2	1	2	1	0	3	3	2	3	3	2	3	1	3	2	4	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:10399860G>A	uc001aqx.3	+	32	3658	c.3456G>A	c.(3454-3456)ACG>ACA	p.T1152T	KIF1B_uc001aqw.3_Silent_p.T1106T|KIF1B_uc001aqy.2_Silent_p.T1126T|KIF1B_uc001aqz.2_Silent_p.T1152T|KIF1B_uc001ara.2_Silent_p.T1112T|KIF1B_uc001arb.2_Silent_p.T1138T	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1152					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		CATTCTCCACGGAGCCCCTCA	0.393													10	58					0	0	0.010729	0	0		A	10399860	A	A	10399860	2	1	175	1	0	0	0	0	0	0	0	1	8300	1103	39	1		1	KIF1B	1	10399860	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08		10399860	238850761	1	90852											
DFFA	1676	broad.mit.edu	37	chr1	10527292	10527292	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgatgctggacagatcttcTttcagctgcctggccacatt	8	13	9	11	0	3	2	1	1	2	1	3	3	3	3	2	2	3	2	2	2	0	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:10527292T>A	uc001arj.2	-	3	494	c.396A>T	c.(394-396)AAA>AAT	p.K132N	DFFA_uc001ark.2_Missense_Mutation_p.K132N	NM_004401	NP_004392	O00273	DFFA_HUMAN	DNA fragmentation factor, 45kDa, alpha	132					DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction|negative regulation of apoptosis	cytosol|mitochondrion|nucleoplasm|plasma membrane	deoxyribonuclease activity|identical protein binding				0	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)		ACAGATCTTCTTTCAGCTGCC	0.537													36	184					0	0	0.005524	0	0		A	10527292	A	A	10527292	3	1	175	1	0	0	0	0	1	0	0	0	4458	1606	56	5	639	5	DFFA	1	10527292	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	127432	10527292	238723329	2	90853											
NPPA	4878	broad.mit.edu	37	chr1	11907410	11907410	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggctgagagcagccccCgcttcttcattcggctcact	6	9	12	14	2	3	1	2	1	1	1	4	2	3	1	2	3	2	4	2	3	0	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:11907410C>T	uc001ati.2	-	2	309	c.210G>A	c.(208-210)GCG>GCA	p.A70A	CLCN6_uc010oav.1_Intron|CLCN6_uc010oaw.1_Intron|CLCN6_uc010oax.1_Intron|CLCN6_uc010oay.1_Intron|CLCN6_uc010oaz.1_Intron|CLCN6_uc010oba.1_Intron	NM_006172	NP_006163	P01160	ANF_HUMAN	natriuretic peptide precursor A preproprotein	70					cGMP biosynthetic process|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size	extracellular region	hormone activity			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.04e-06)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|Kidney(185;0.000733)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GAGCAGCCCCCGCTTCTTCAT	0.592													18	43					0	0	0.010504	0	0		T	11907410	T	T	11907410	2	4	175	1	0	0	0	0	0	0	0	1	10610	639	23	1		1	NPPA	1	11907410	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	1380118	11907410	237343211	3	90854											
PRAMEF12	390999	broad.mit.edu	37	chr1	12835687	12835687	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcttctcttttacccacaggCggtggaaacttcaagtgttg	8	14	9	10	1	3	0	1	0	2	0	4	1	3	1	1	3	2	1	1	3	3	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:12835687C>T	uc001aui.2	+	2	316	c.289C>T	c.(289-291)CGG>TGG	p.R97W		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	97										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TACCCACAGGCGGTGGAAACT	0.517													17	340					0	0	0.012319	0	0		T	12835687	T	T	12835687	3	4	175	1	0	0	0	0	1	0	0	0	12450	782	27	1	295	1	PRAMEF12	1	12835687	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	928277	12835687	236414934	4	90855											
SLC25A34	284723	broad.mit.edu	37	chr1	16064477	16064477	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtggccgtgggacaccaGcacaatcaccaggtgaggcc	10	4	14	13	1	1	1	1	1	0	0	1	2	1	2	4	4	1	2	4	4	1	0	rs12025441		TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:16064477G>A	uc001axb.1	+	2	604	c.432G>A	c.(430-432)CAG>CAA	p.Q144Q	SLC25A34_uc009vok.1_5'Flank	NM_207348	NP_997231	Q6PIV7	S2534_HUMAN	solute carrier family 25, member 34	144	Solcar 2.				transport	integral to membrane|mitochondrial inner membrane					0		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGGGACACCAGCACAATCACC	0.642													3	59					0	0	0.004672	0	0		A	16064477	A	A	16064477	2	1	175	1	0	0	0	0	0	0	0	1	14523	962	34	2		2	SLC25A34	1	16064477	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	3228790	16064477	233186144	5	90856											
ZNF362	149076	broad.mit.edu	37	chr1	33747303	33747303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccaagtcctttgccaacGcctcctacctggcccagcac	7	8	7	19	1	0	0	0	0	0	0	3	0	3	0	7	1	4	2	7	1	3	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:33747303G>A	uc001bxc.1	+	6	969	c.799G>A	c.(799-801)GCC>ACC	p.A267T		NM_152493	NP_689706	Q5T0B9	ZN362_HUMAN	zinc finger protein 362	267	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				CTTTGCCAACGCCTCCTACCT	0.592													27	180					0	0	0.00632	0	0		A	33747303	A	A	33747303	3	1	175	1	0	0	0	0	1	0	0	0	17893	1087	38	1	817	1	ZNF362	1	33747303	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	17682826	33747303	215503318	6	90857											
COL8A2	1296	broad.mit.edu	37	chr1	36563353	36563353	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgtaggtataggtggcCggcacgttgttcttgtacag	7	13	13	8	3	2	0	1	0	1	0	3	0	2	0	1	4	1	6	1	4	4	7			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:36563353C>T	uc001bzv.1	-	2	1936	c.1929G>A	c.(1927-1929)CCG>CCA	p.P643P	COL8A2_uc001bzw.1_Silent_p.P578P	NM_005202	NP_005193	P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2 precursor	643	C1q.|Nonhelical region (NC1).				angiogenesis|cell-cell adhesion|extracellular matrix organization	basement membrane|collagen	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TATAGGTGGCCGGCACGTTGT	0.602													7	95					0	0	0.001984	0	0		T	36563353	T	T	36563353	2	4	175	1	0	0	0	0	0	0	0	1	3709	639	23	1		1	COL8A2	1	36563353	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	2816050	36563353	212687268	7	90858											
KDM4A	9682	broad.mit.edu	37	chr1	44137280	44137280	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagctgccttggatctttctGtgaatcctgcgtctgtaggg	5	14	12	10	1	3	1	0	1	3	0	4	2	4	2	2	2	3	2	2	2	2	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:44137280G>A	uc001cjx.2	+	11	1634	c.1468G>A	c.(1468-1470)GTG>ATG	p.V490M	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	490					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						GGATCTTTCTGTGAATCCTGC	0.468													38	99					0	0	0.007835	0	0		A	44137280	A	A	44137280	3	1	175	1	0	0	0	0	1	0	0	0	8144	1377	48	4	1506	4	KDM4A	1	44137280	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	7573927	44137280	205113341	8	90859											
CACHD1	57685	broad.mit.edu	37	chr1	65139147	65139147	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattcaacaccagccttgcGgtaagttgatctgattcctt	11	13	7	10	1	2	2	1	2	1	0	3	2	3	2	3	1	3	2	3	1	3	6			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:65139147G>A	uc001dbo.1	+	19	2679	c.2574G>A	c.(2572-2574)GCG>GCA	p.A858A	CACHD1_uc001dbp.1_Silent_p.A613A|CACHD1_uc001dbq.1_Silent_p.A613A|CACHD1_uc010opa.1_Silent_p.A102A	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	909	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						CCAGCCTTGCGGTAAGTTGAT	0.398													8	117					0	0	0.010729	0	0		A	65139147	A	A	65139147	2	1	175	1	0	0	0	0	0	0	0	1	2540	1130	39	1		1	CACHD1	1	65139147	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	21001867	65139147	184111474	9	90860											
ANKRD35	148741	broad.mit.edu	37	chr1	145560139	145560139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaactgctcctgagccacGgagctgacgcgggggctgtg	6	7	16	12	3	0	3	0	3	0	0	1	4	1	4	2	3	4	3	2	3	1	0	rs150487019	by1000genomes	TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:145560139G>A	uc001eob.1	+	8	733	c.625G>A	c.(625-627)GGA>AGA	p.G209R	NBPF10_uc001emp.3_Intron|ANKRD35_uc010oyx.1_Missense_Mutation_p.G52R	NM_144698	NP_653299	Q8N283	ANR35_HUMAN	ankyrin repeat domain 35	209	ANK 5.									ovary(4)|skin(1)	5	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CCTGAGCCACGGAGCTGACGC	0.582													13	88					0	0	0.003163	0	0		A	145560139	A	A	145560139	3	1	175	1	0	0	0	0	1	0	0	0	664	1117	39	1	655	1	ANKRD35	1	145560139	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	80420992	145560139	103690482	10	90861											
FLG	2312	broad.mit.edu	37	chr1	152279018	152279018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacgaatggtgtcctgacCgtcttgggatgctgagtgcc	6	11	13	11	2	1	2	0	2	1	0	3	4	3	3	4	2	2	1	4	2	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:152279018C>T	uc001ezu.1	-	3	8380	c.8344G>A	c.(8344-8346)GGT>AGT	p.G2782S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2782	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTGTCCTGACCGTCTTGGGAT	0.602									Ichthyosis				73	755					0	0	0.01441	0	0		T	152279018	T	T	152279018	3	4	175	1	0	0	0	0	1	0	0	0	5936	652	23	1	3845	1	FLG	1	152279018	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	6718879	152279018	96971603	11	90862											
FAM189B	10712	broad.mit.edu	37	chr1	155223695	155223695	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtggagttaggggcaacTttcagttcctgccccgactc	7	10	12	12	1	1	0	1	0	0	0	3	2	2	1	3	4	2	3	3	4	2	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:155223695T>G	uc001fjm.2	-	4	1074	c.468A>C	c.(466-468)AAA>AAC	p.K156N	RAG1AP1_uc010pey.1_Intron|FAM189B_uc009wql.2_5'Flank|FAM189B_uc001fjn.2_Intron|FAM189B_uc001fjo.2_Missense_Mutation_p.K137N|FAM189B_uc001fjp.2_Intron|FAM189B_uc001fjq.1_Missense_Mutation_p.K156N	NM_006589	NP_006580	P81408	F189B_HUMAN	hypothetical protein LOC10712 isoform a	156						integral to membrane	WW domain binding			ovary(1)|breast(1)	2						TAGGGGCAACTTTCAGTTCCT	0.607													8	53					0	0	0.00308	0	0		G	155223695	G	G	155223695	3	3	175	1	0	0	0	0	1	0	0	0	5528	1606	56	5	1574	5	FAM189B	1	155223695	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	2944677	155223695	94026926	12	90863											
SMG5	23381	broad.mit.edu	37	chr1	156236454	156236454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggtgaaggcaatggctgcaCtgtactgcttggatcctgaa	9	10	14	8	0	0	2	0	2	0	0	1	3	1	3	1	4	3	5	1	4	4	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:156236454C>T	uc001foc.3	-	11	1282	c.1133G>A	c.(1132-1134)AGT>AAT	p.S378N	SMG5_uc009wrv.2_5'Flank	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	378					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					AATGGCTGCACTGTACTGCTT	0.557													9	56					0	0	0.013537	0	0		T	156236454	T	T	156236454	3	4	175	1	0	0	0	0	1	0	0	0	14821	565	20	4	1965	4	SMG5	1	156236454	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	1012759	156236454	93014167	13	90864											
ATP1A2	477	broad.mit.edu	37	chr1	160099970	160099970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagagcgcattctggacCggtgctccaccatcctggtg	6	8	11	16	2	1	1	0	0	1	1	3	2	3	2	6	3	2	2	6	3	0	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:160099970C>T	uc001fvc.2	+	12	1672	c.1540C>T	c.(1540-1542)CGG>TGG	p.R514W	ATP1A2_uc001fvb.2_Missense_Mutation_p.R514W|ATP1A2_uc001fvd.2_Missense_Mutation_p.R250W|ATP1A2_uc009wtg.1_Missense_Mutation_p.R202W	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	514	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	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)			CATTCTGGACCGGTGCTCCAC	0.587													34	125					0	0	0.003271	0	0		T	160099970	T	T	160099970	3	4	175	1	0	0	0	0	1	0	0	0	1130	643	23	1	1586	1	ATP1A2	1	160099970	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	3863516	160099970	89150651	14	90865											
ILDR2	387597	broad.mit.edu	37	chr1	166891981	166891981	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgcttctcatctgatGgaaagactggcggaaattgc	9	12	11	9	1	2	2	1	1	2	1	3	4	2	4	0	3	3	2	0	3	2	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:166891981G>A	uc001gdx.1	-	8	1116	c.1060C>T	c.(1060-1062)CAT>TAT	p.H354Y		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	354	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						CTCATCTGATGGAAAGACTGG	0.517													47	128					0	0	0.01441	0	0		A	166891981	A	A	166891981	3	1	175	1	0	0	0	0	1	0	0	0	7726	1348	47	4	871	4	ILDR2	1	166891981	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	6792011	166891981	82358640	15	90866											
CACNA1E	777	broad.mit.edu	37	chr1	181732633	181732633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtcagggctataccatacGcattttgctgtggacctttg	7	13	11	10	2	1	0	1	0	0	0	1	1	1	1	2	2	3	3	2	2	3	6			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:181732633G>A	uc001gow.2	+	34	4946	c.4781G>A	c.(4780-4782)CGC>CAC	p.R1594H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1482H|CACNA1E_uc001gox.1_Missense_Mutation_p.R820H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R820H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1594	Cytoplasmic (Potential).|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TATACCATACGCATTTTGCTG	0.512													12	39					0	0	0.010729	0	0		A	181732633	A	A	181732633	3	1	175	1	0	0	0	0	1	0	0	0	2545	1087	38	1	4915	1	CACNA1E	1	181732633	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	14840652	181732633	67517988	16	90867											
PLXNA2	5362	broad.mit.edu	37	chr1	208218522	208218522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacagtgtagttgagtttggCccctccagaggcaggagggc	8	8	15	10	0	0	2	0	1	0	1	1	3	1	3	3	4	0	4	3	4	1	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:208218522C>T	uc001hgz.2	-	19	4287	c.3529G>A	c.(3529-3531)GCC>ACC	p.A1177T		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1177	IPT/TIG 4.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TTGAGTTTGGCCCCTCCAGAG	0.438													4	133					0	0	0.009096	0	0		T	208218522	T	T	208218522	3	4	175	1	0	0	0	0	1	0	0	0	12139	739	26	2	2211	2	PLXNA2	1	208218522	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	26485889	208218522	41032099	17	90868											
OBSCN	84033	broad.mit.edu	37	chr1	228444584	228444584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgccggggagtacagctgCgaggcggggagccagcggct	6	4	20	11	5	0	0	0	0	0	0	1	3	0	2	2	6	5	3	2	6	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:228444584C>T	uc009xez.1	+	15	4586	c.4542C>T	c.(4540-4542)TGC>TGT	p.C1514C	OBSCN_uc001hsn.2_Silent_p.C1514C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1514	Ig-like 15.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGTACAGCTGCGAGGCGGGGA	0.647													23	65					0	0	0.00278	0	0		T	228444584	T	T	228444584	2	4	175	1	0	0	0	0	0	0	0	1	10831	776	27	1		1	OBSCN	1	228444584	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	20226062	228444584	20806037	18	90869											
ACTN2	88	broad.mit.edu	37	chr1	236902618	236902618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttttggaatggattcGtcgcacgatcccctggctgg	6	11	13	11	3	0	0	0	0	0	0	3	3	1	2	2	4	1	4	2	4	1	3	rs142482143	byFrequency	TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr1:236902618G>A	uc001hyf.2	+	10	1097	c.893G>A	c.(892-894)CGT>CAT	p.R298H	ACTN2_uc001hyg.2_Missense_Mutation_p.R90H|ACTN2_uc009xgi.1_Missense_Mutation_p.R298H|ACTN2_uc010pxu.1_Intron|ACTN2_uc001hyh.2_5'UTR	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	298	Spectrin 1.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			GAATGGATTCGTCGCACGATC	0.517													59	131					0	0	0.01441	0	0		A	236902618	A	A	236902618	3	1	175	1	0	0	0	0	1	0	0	0	205	1145	40	1	931	1	ACTN2	1	236902618	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	8458034	236902618	12348003	19	90870											
PXDN	7837	broad.mit.edu	37	chr2	1670014	1670014	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	atgatgaaagcggtggcatgGacgctgtcaatgttgttggt	9	12	15	5	2	1	2	1	2	0	0	1	3	1	3	0	4	1	4	0	4	2	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:1670014G>C	uc002qxa.2	-	10	1327	c.1263C>G	c.(1261-1263)GTC>GTG	p.V421V	PXDN_uc002qxb.1_Silent_p.V421V|PXDN_uc002qxc.1_Silent_p.V238V	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	421	Ig-like C2-type 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CGGTGGCATGGACGCTGTCAA	0.597													4	42					0	0	0.009096	0	0		C	1670014	C	C	1670014	2	2	175	1	0	0	0	0	0	0	0	1	12872	1161	41	5		5	PXDN	2	1670014	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08		1670014	241529359	20	90871											
KIDINS220	57498	broad.mit.edu	37	chr2	8870881	8870881	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttctctttcttctccaaagCctgtgctctcagaagaggct	7	15	7	12	0	4	2	1	0	4	2	7	2	4	2	2	1	2	2	2	1	2	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:8870881C>G	uc002qzc.2	-	30	5467	c.5285G>C	c.(5284-5286)GGC>GCC	p.G1762A	KIDINS220_uc010yiv.1_Intron|KIDINS220_uc002qzd.2_Missense_Mutation_p.G1663A|KIDINS220_uc002qzb.2_Missense_Mutation_p.G616A	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1762	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					TTCTCCAAAGCCTGTGCTCTC	0.438													25	75					0	0	0.005443	0	0		G	8870881	G	G	8870881	3	3	175	1	0	0	0	0	1	0	0	0	8287	739	26	5	34	5	KIDINS220	2	8870881	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	7200867	8870881	234328492	21	90872											
APOB	338	broad.mit.edu	37	chr2	21230333	21230333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgattattgtgtaaggtagaCgcatttcaggaattgttaaa	13	15	10	3	1	1	2	1	1	0	1	1	3	1	3	0	2	0	4	0	2	6	7			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:21230333C>T	uc002red.2	-	26	9535	c.9407G>A	c.(9406-9408)CGT>CAT	p.R3136H		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	3136					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GTAAGGTAGACGCATTTCAGG	0.373													14	136					0	0	0.003163	0	0		T	21230333	T	T	21230333	3	4	175	1	0	0	0	0	1	0	0	0	785	536	19	1	4300	1	APOB	2	21230333	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	12359452	21230333	221969040	22	90873											
CAD	790	broad.mit.edu	37	chr2	27454962	27454962	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaccgctggttcctgcacCgaatgaagcgtatcatcgca	9	9	10	13	5	1	1	1	1	0	0	4	3	2	1	3	1	2	5	3	1	3	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:27454962C>T	uc002rji.2	+	17	2677	c.2515C>T	c.(2515-2517)CGA>TGA	p.R839*	CAD_uc010eyw.2_Nonsense_Mutation_p.R776*	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	839	CPSase (Carbamoyl-phosphate synthase).|CPSase A.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GTTCCTGCACCGAATGAAGCG	0.552													60	78					0	0	0.01441	0	0		T	27454962	T	T	27454962	4	4	175	1	0	0	0	0	0	1	0	0	2568	644	23	1	2581	1	CAD	2	27454962	Nonsense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	6224629	27454962	215744411	23	90874											
C2orf16	84226	broad.mit.edu	37	chr2	27801051	27801051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggccaacccctcaaatggtaGaatatattgagttgactcca	13	10	8	10	0	1	3	1	2	0	1	2	3	2	3	4	2	1	2	4	2	6	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:27801051G>A	uc002rkz.3	+	1	1663	c.1612G>A	c.(1612-1614)GAA>AAA	p.E538K		NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	538										large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					TCAAATGGTAGAATATATTGA	0.408													11	64					0	0	0.013537	0	0		A	27801051	A	A	27801051	3	1	175	1	0	0	0	0	1	0	0	0	2160	943	33	4	1614	4	C2orf16	2	27801051	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	346089	27801051	215398322	24	90875											
CCDC88A	55704	broad.mit.edu	37	chr2	55544720	55544720	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtcttcaaggtctctatgTtccacctcaagatttttgtg	7	16	8	10	1	4	1	2	0	2	1	6	1	5	1	2	2	0	1	2	2	3	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:55544720T>C	uc002ryv.2	-	20	4421	c.3579A>G	c.(3577-3579)GAA>GAG	p.E1193E	CCDC88A_uc010yoz.1_Silent_p.E1194E|CCDC88A_uc010ypa.1_Silent_p.E1193E|CCDC88A_uc002ryu.2_Silent_p.E476E|CCDC88A_uc002rys.2_Silent_p.E179E|CCDC88A_uc002ryw.2_Silent_p.E477E|CCDC88A_uc010fby.1_Silent_p.E73E	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	1194	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GGTCTCTATGTTCCACCTCAA	0.313													3	128					0	0	0.009096	0	0		C	55544720	C	C	55544720	2	2	175	1	0	0	0	0	0	0	0	1	2866	1722	60	3		3	CCDC88A	2	55544720	Silent	SNP	T	TCGA-D7-6815-01A-11D-1882-08	27743669	55544720	187654653	25	90876											
MEIS1	4211	broad.mit.edu	37	chr2	66670035	66670035	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttctgtcataatgtaggTacacgaattatgtgacaatt	13	16	7	5	1	2	1	1	1	1	0	2	2	2	1	0	1	1	2	0	1	7	7			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:66670035T>C	uc002sdu.2	+	6	942	c.485T>C	c.(484-486)GTA>GCA	p.V162A	MEIS1_uc002sdt.2_Missense_Mutation_p.V162A|MEIS1_uc002sdv.2_Missense_Mutation_p.V160A|MEIS1_uc010yqh.1_RNA|MEIS1_uc010yqi.1_Missense_Mutation_p.V97A|MEIS1_uc002sdw.1_Missense_Mutation_p.V18A	NM_002398	NP_002389	O00470	MEIS1_HUMAN	Meis homeobox 1	162							sequence-specific DNA binding transcription factor activity				0						ATAATGTAGGTACACGAATTA	0.383													7	422					0	0	0.001984	0	0		C	66670035	C	C	66670035	3	2	175	1	0	0	0	0	1	0	0	0	9485	1652	57	3	507	3	MEIS1	2	66670035	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	11125315	66670035	176529338	26	90877											
TTN	7273	broad.mit.edu	37	chr2	179648873	179648873	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgctcacccctacttccTttttcacctcaacgccagct	7	13	4	17	1	3	1	3	1	0	0	4	1	4	1	5	0	4	2	5	0	2	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:179648873T>C	uc010zfg.1	-	16	2923	c.2699A>G	c.(2698-2700)AAG>AGG	p.K900R	TTN_uc010zfh.1_Missense_Mutation_p.K854R|TTN_uc010zfi.1_Missense_Mutation_p.K854R|TTN_uc010zfj.1_Missense_Mutation_p.K854R|TTN_uc002unb.2_Missense_Mutation_p.K900R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	900							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCTACTTCCTTTTTCACCTC	0.547													3	128					0	0	0.004672	0	0		C	179648873	C	C	179648873	3	2	175	1	0	0	0	0	1	0	0	0	16761	1609	56	3	108677	3	TTN	2	179648873	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	112978838	179648873	63550500	27	90878											
HIBCH	26275	broad.mit.edu	37	chr2	191161620	191161620	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttagtgttatgactccCgtgcaaccttttttttccaa	7	18	6	10	1	0	1	0	1	0	0	2	1	2	1	3	0	2	3	3	0	4	7			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:191161620C>T	uc002uru.2	-	3	221	c.138G>A	c.(136-138)ACG>ACA	p.T46T	HIBCH_uc002urv.2_Silent_p.T46T	NM_014362	NP_055177	Q6NVY1	HIBCH_HUMAN	3-hydroxyisobutyryl-Coenzyme A hydrolase isoform	46					branched chain family amino acid catabolic process	mitochondrial matrix	3-hydroxyisobutyryl-CoA hydrolase activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000586)|Epithelial(96;0.0286)|all cancers(119;0.0814)			TTATGACTCCCGTGCAACCTT	0.358													9	50					0	0	0.004482	0	0		T	191161620	T	T	191161620	2	4	175	1	0	0	0	0	0	0	0	1	7116	639	23	1		1	HIBCH	2	191161620	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	11512747	191161620	52037753	28	90879											
CTLA4	1493	broad.mit.edu	37	chr2	204735610	204735610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggagctcatgtacccaccGccatactacctgggcatagg	9	8	11	13	1	1	0	1	0	0	0	1	1	1	1	4	3	4	3	4	3	4	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr2:204735610G>A	uc002vak.1	+	2	568	c.411G>A	c.(409-411)CCG>CCA	p.P137P	CTLA4_uc002val.1_Silent_p.P137P|CTLA4_uc010fty.1_Intron|CTLA4_uc010ftz.1_Intron	NM_005214	NP_005205	P16410	CTLA4_HUMAN	cytotoxic T-lymphocyte-associated protein 4	137	Ig-like V-type.|Extracellular (Potential).				B cell receptor signaling pathway|immune response|negative regulation of B cell proliferation|negative regulation of regulatory T cell differentiation|positive regulation of apoptosis|response to DNA damage stimulus|T cell costimulation	clathrin-coated endocytic vesicle|external side of plasma membrane|Golgi apparatus|integral to plasma membrane|perinuclear region of cytoplasm					0					Abatacept(DB01281)	TGTACCCACCGCCATACTACC	0.512													26	25					0	0	0.004656	0	0		A	204735610	A	A	204735610	2	1	175	1	0	0	0	0	0	0	0	1	4014	1074	38	1		1	CTLA4	2	204735610	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	13573990	204735610	38463763	29	90880											
ITPR1	3708	broad.mit.edu	37	chr3	4699844	4699844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgcctctcgaagtaggttgCggaatgcccaagaaaagatg	13	7	12	9	3	1	2	0	0	1	2	2	4	1	3	2	2	2	2	2	2	6	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:4699844C>T	uc003bqa.2	+	13	1381	c.1033C>T	c.(1033-1035)CGG>TGG	p.R345W	ITPR1_uc010hca.1_Missense_Mutation_p.R330W|ITPR1_uc011asu.1_Intron|ITPR1_uc010hcb.1_Missense_Mutation_p.R330W	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	345	Cytoplasmic (Potential).|MIR 4.				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		AAGTAGGTTGCGGAATGCCCA	0.498													46	59					0	0	0.01441	0	0		T	4699844	T	T	4699844	3	4	175	1	0	0	0	0	1	0	0	0	7936	759	27	1	1075	1	ITPR1	3	4699844	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08		4699844	193322586	30	90881											
THRB	7068	broad.mit.edu	37	chr3	24185037	24185037	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctgccttgggcgttggtCgccacatgggcttcggtgac	3	11	16	11	3	0	1	0	1	0	0	2	1	0	1	2	5	1	3	2	5	0	3	rs115360190	by1000genomes	TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:24185037C>T	uc003ccx.3	-	8	1042	c.693G>A	c.(691-693)GCG>GCA	p.A231A	THRB_uc010hfe.2_Silent_p.A231A|THRB_uc003ccy.3_Silent_p.A231A|THRB_uc003ccz.3_Silent_p.A226A	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	231					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	GGGCGTTGGTCGCCACATGGG	0.483													44	139					0	0	0.01441	0	0		T	24185037	T	T	24185037	2	4	175	1	0	0	0	0	0	0	0	1	15900	871	31	1		1	THRB	3	24185037	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	19485193	24185037	173837393	31	90882											
GOLGA4	2803	broad.mit.edu	37	chr3	37368302	37368302	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaattagcagagttgaagaGaaaagctgaacaaaaaattg	22	7	9	3	0	0	4	0	2	0	2	0	5	0	4	0	0	3	3	0	0	10	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:37368302G>T	uc003cgv.2	+	14	5229	c.4925G>T	c.(4924-4926)AGA>ATA	p.R1642I	GOLGA4_uc010hgr.1_Missense_Mutation_p.R1203I|GOLGA4_uc003cgw.2_Missense_Mutation_p.R1664I|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.R1523I	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	1642	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GAGTTGAAGAGAAAAGCTGAA	0.363													11	95					9.70103e-10	1.10582e-09	0.008291	1	0		T	37368302	T	T	37368302	3	4	175	1	0	0	0	0	1	0	0	0	6570	942	33	5	5049	5	GOLGA4	3	37368302	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	13183265	37368302	160654128	32	90883											
TRAK1	22906	broad.mit.edu	37	chr3	42264549	42264549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtccttcactaacaccCgtgagtccacgaccaccatg	10	8	7	16	2	1	2	1	2	0	0	3	3	3	2	5	0	1	0	5	0	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:42264549C>T	uc003cky.2	+	16	2398	c.2182C>T	c.(2182-2184)CGT>TGT	p.R728C	TRAK1_uc011azi.1_Missense_Mutation_p.R707C	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	728					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						CACTAACACCCGTGAGTCCAC	0.612													26	44					0	0	0.005443	0	0		T	42264549	T	T	42264549	3	4	175	1	0	0	0	0	1	0	0	0	16475	652	23	1	2632	1	TRAK1	3	42264549	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	4896247	42264549	155757881	33	90884											
BSN	8927	broad.mit.edu	37	chr3	49691693	49691693	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcatctgacgcctccagccaGaccaggatggtacatgccag	10	6	11	14	1	1	2	0	1	1	1	2	3	2	3	5	2	3	2	5	2	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:49691693G>A	uc003cxe.3	+	5	4818	c.4704G>A	c.(4702-4704)CAG>CAA	p.Q1568Q		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1568					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCTCCAGCCAGACCAGGATGG	0.607													32	35					0	0	0.008361	0	0		A	49691693	A	A	49691693	2	1	175	1	0	0	0	0	0	0	0	1	1533	933	33	4		4	BSN	3	49691693	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	7427144	49691693	148330737	34	90885											
SEMA3F	6405	broad.mit.edu	37	chr3	50220987	50220987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggaagatgccctacccacGgccgggcacggtaaggaccc	10	3	14	14	3	0	1	0	0	0	1	0	3	0	3	4	5	2	2	4	5	3	2	rs137935899		TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:50220987G>A	uc003cyj.2	+	12	1421	c.1223G>A	c.(1222-1224)CGG>CAG	p.R408Q	SEMA3F_uc003cyk.2_Missense_Mutation_p.R377Q	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	408	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		CCCTACCCACGGCCGGGCACG	0.582													17	72					0	0	0.010504	0	0		A	50220987	A	A	50220987	3	1	175	1	0	0	0	0	1	0	0	0	14054	1116	39	1	1265	1	SEMA3F	3	50220987	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	529294	50220987	147801443	35	90886											
PHLDB2	90102	broad.mit.edu	37	chr3	111603367	111603367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctctcagagaagcctccctAttccaaatatagctcaaggc	12	9	7	13	0	2	1	2	0	1	1	5	2	4	1	3	1	2	2	3	1	6	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:111603367A>G	uc010hqa.2	+	2	854	c.443A>G	c.(442-444)TAT>TGT	p.Y148C	PHLDB2_uc003dyc.2_Missense_Mutation_p.Y175C|PHLDB2_uc003dyd.2_Missense_Mutation_p.Y148C|PHLDB2_uc003dyg.2_Missense_Mutation_p.Y148C|PHLDB2_uc003dyh.2_Missense_Mutation_p.Y148C|PHLDB2_uc003dye.3_Missense_Mutation_p.Y148C|PHLDB2_uc003dyf.3_Missense_Mutation_p.Y148C	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	148						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						AAGCCTCCCTATTCCAAATAT	0.507													60	130					0	0	0.01441	0	0		G	111603367	G	G	111603367	3	3	175	1	0	0	0	0	1	0	0	0	11871	449	16	3	530	3	PHLDB2	3	111603367	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	61382380	111603367	86419063	36	90887											
MED12L	116931	broad.mit.edu	37	chr3	151073819	151073819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaacggactaattgacttcGcaatacaggtgtcaaagaga	15	9	9	8	2	2	2	2	1	0	1	3	4	2	3	0	2	2	1	0	2	5	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:151073819G>A	uc003eyp.2	+	17	2586	c.2548G>A	c.(2548-2550)GCA>ACA	p.A850T	MED12L_uc011bnz.1_Missense_Mutation_p.A710T|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A14T	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	850					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AATTGACTTCGCAATACAGGT	0.403													20	54					0	0	0.014323	0	0		A	151073819	A	A	151073819	3	1	175	1	0	0	0	0	1	0	0	0	9447	1087	38	1	2614	1	MED12L	3	151073819	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	39470452	151073819	46948611	37	90888											
BCHE	590	broad.mit.edu	37	chr3	165503997	165503997	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cattgttgagcacgtagtttCgtcattattcttgttgactc	7	18	8	8	2	2	2	1	2	1	0	4	2	2	2	0	0	1	5	0	0	2	8			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:165503997C>T	uc003fem.3	-	3	1780	c.1620G>A	c.(1618-1620)ACG>ACA	p.T540T	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	540					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	CACGTAGTTTCGTCATTATTC	0.358													23	45					0	0	0.014323	0	0		T	165503997	T	T	165503997	2	4	175	1	0	0	0	0	0	0	0	1	1359	871	31	1		1	BCHE	3	165503997	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	14430178	165503997	32518433	38	90889											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; 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; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			13	66					0	0	0.003163	0	0		A	178936091	A	A	178936091	3	1	175	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	13432094	178936091	19086339	39	90890											
HTR3E	285242	broad.mit.edu	37	chr3	183823112	183823112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaataacagacgcatcccGgaacatccttcagacccatg	14	6	8	13	2	1	2	1	0	0	2	3	4	3	4	3	2	2	1	3	2	3	2	rs145547998	byFrequency	TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:183823112G>A	uc010hxq.2	+	6	1083	c.617G>A	c.(616-618)CGG>CAG	p.R206Q	HTR3E_uc003fml.3_Missense_Mutation_p.R191Q|HTR3E_uc003fmm.2_Missense_Mutation_p.R221Q|HTR3E_uc010hxr.2_Missense_Mutation_p.R232Q|HTR3E_uc003fmn.2_Missense_Mutation_p.R206Q	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	206	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			GACGCATCCCGGAACATCCTT	0.493													20	38					0	0	0.008871	0	0		A	183823112	A	A	183823112	3	1	175	1	0	0	0	0	1	0	0	0	7464	1116	39	1	680	1	HTR3E	3	183823112	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	4887021	183823112	14199318	40	90891											
EIF4G1	1981	broad.mit.edu	37	chr3	184041232	184041232	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctctcagcagggacccCgaaaagaaccacgcaagatc	13	3	11	14	3	1	2	1	0	1	2	3	4	1	3	3	2	2	3	3	2	4	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:184041232C>T	uc003fnp.2	+	15	2323	c.2125C>T	c.(2125-2127)CGA>TGA	p.R709*	EIF4G1_uc003fno.1_Nonsense_Mutation_p.R650*|EIF4G1_uc010hxw.1_Nonsense_Mutation_p.R545*|EIF4G1_uc003fnt.2_Nonsense_Mutation_p.R420*|EIF4G1_uc003fnq.2_Nonsense_Mutation_p.R622*|EIF4G1_uc003fnr.2_Nonsense_Mutation_p.R545*|EIF4G1_uc010hxx.2_Nonsense_Mutation_p.R716*|EIF4G1_uc003fns.2_Nonsense_Mutation_p.R669*|EIF4G1_uc010hxy.2_Nonsense_Mutation_p.R716*|EIF4G1_uc003fnv.3_Nonsense_Mutation_p.R710*|EIF4G1_uc003fnu.3_Nonsense_Mutation_p.R709*|EIF4G1_uc003fnw.2_Nonsense_Mutation_p.R716*|EIF4G1_uc003fnx.2_Nonsense_Mutation_p.R514*|EIF4G1_uc003fny.3_Nonsense_Mutation_p.R513*|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	709	eIF3/EIF4A-binding.|MIF4G.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GCAGGGACCCCGAAAAGAACC	0.532													95	277					0	0	0.01441	0	0		T	184041232	T	T	184041232	4	4	175	1	0	0	0	0	0	1	0	0	5044	644	23	1	2175	1	EIF4G1	3	184041232	Nonsense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	218120	184041232	13981198	41	90892											
FGF12	2257	broad.mit.edu	37	chr3	191861866	191861866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaacttttccttgaacGcccttgtttttctccaattt	7	18	4	12	1	1	2	0	1	1	1	4	2	3	2	4	0	2	1	4	0	3	7			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr3:191861866G>A	uc003fsx.2	-	5	1490	c.664C>T	c.(664-666)CGT>TGT	p.R222C	FGF12_uc003fsy.2_Missense_Mutation_p.R160C	NM_021032	NP_066360	P61328	FGF12_HUMAN	fibroblast growth factor 12 isoform 1	222					cell-cell signaling|heart development|JNK cascade|nervous system development|signal transduction	extracellular space|nucleus	growth factor activity|heparin binding			ovary(1)|skin(1)|lung(1)|pancreas(1)	4	all_cancers(143;1.72e-08)|Ovarian(172;0.0634)|Breast(254;0.247)	Lung NSC(153;0.21)	LUSC - Lung squamous cell carcinoma(58;5.45e-06)|Lung(62;6.17e-06)	GBM - Glioblastoma multiforme(46;0.00032)		TTCCTTGAACGCCCTTGTTTT	0.328													73	144					0	0	0.01441	0	0		A	191861866	A	A	191861866	3	1	175	1	0	0	0	0	1	0	0	0	5855	1087	38	1	71	1	FGF12	3	191861866	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	7820634	191861866	6160564	42	90893											
TRIO	7204	broad.mit.edu	37	chr5	14389501	14389503	+	In_Frame_Del	DEL	ATA	-	-																															gcaagaaatctacgaatttcAtaataagtgagtggcttttt																										TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:14389501_14389503delATA	uc003jff.2	+	25	4058_4060	c.4052_4054delATA	c.(4051-4056)CATAAT>CAT	p.N1353del	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_In_Frame_Del_p.N1304del|TRIO_uc003jfh.1_In_Frame_Del_p.N1002del	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1353	DH 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					TACGAATTTCATAATAAGTGAGT	0.399													4	9	---	---	---	---						.	-	14389503	-	-	14389501	7	5	175	1	0	1	0	1	0	0	0	0	16578	217	8	0	4150	0	TRIO	5	14389501	In_Frame_Del	DEL	ATA	TCGA-D7-6815-01A-11D-1882-08		14389501	166525759	43	90894											
RASA1	5921	broad.mit.edu	37	chr5	86672329	86672329	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtccctgcgtgttcgagcaCgatactctatggaaaaaatc	11	10	10	10	3	1	0	0	0	1	0	4	3	2	1	1	2	3	2	1	2	5	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:86672329C>T	uc003kiw.2	+	16	2249	c.2131C>T	c.(2131-2133)CGA>TGA	p.R711*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.R534*|RASA1_uc011ctv.1_Nonsense_Mutation_p.R544*|RASA1_uc011ctw.1_Nonsense_Mutation_p.R545*|RASA1_uc010jaw.2_Nonsense_Mutation_p.R533*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	711					cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		TGTTCGAGCACGATACTCTAT	0.393													5	27					0	0	0.000602	0	0		T	86672329	T	T	86672329	4	4	175	1	0	0	0	0	0	1	0	0	13085	528	19	1	2205	1	RASA1	5	86672329	Nonsense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	72282828	86672329	94242931	44	90895											
P4HA2	8974	broad.mit.edu	37	chr5	131530693	131530693	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttccccgctccgcaagaggTtgtaccagaacacagctgta	10	8	9	14	2	0	2	0	0	0	2	2	2	2	2	4	1	3	6	4	1	4	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:131530693T>C	uc003kwh.2	-	14	2027	c.1463A>G	c.(1462-1464)AAC>AGC	p.N488S	P4HA2_uc003kwg.2_Missense_Mutation_p.N486S|P4HA2_uc003kwi.2_Missense_Mutation_p.N486S|P4HA2_uc003kwk.2_Missense_Mutation_p.N486S|P4HA2_uc003kwl.2_Missense_Mutation_p.N488S|P4HA2_uc003kwj.2_Missense_Mutation_p.N486S	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	488	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	CCGCAAGAGGTTGTACCAGAA	0.537													5	47					0	0	0.001168	0	0		C	131530693	C	C	131530693	3	2	175	1	0	0	0	0	1	0	0	0	11376	1725	60	3	152	3	P4HA2	5	131530693	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	44858364	131530693	49384567	45	90896											
PCDHA4	56144	broad.mit.edu	37	chr5	140188676	140188676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgagatcagcacaacgcGtgccctggacgaaacggacg	11	4	14	12	6	1	1	1	0	0	1	1	5	1	3	1	3	4	1	1	3	2	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:140188676G>A	uc003lhi.2	+	1	2005	c.1904G>A	c.(1903-1905)CGT>CAT	p.R635H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.R635H|PCDHA4_uc011daa.1_Missense_Mutation_p.R635H	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	635	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCACAACGCGTGCCCTGGAC	0.682													46	42					0	0	0.01441	0	0		A	140188676	A	A	140188676	3	1	175	1	0	0	0	0	1	0	0	0	11545	1145	40	1	1906	1	PCDHA4	5	140188676	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	8657983	140188676	40726584	46	90897											
PCDHA6	56142	broad.mit.edu	37	chr5	140207964	140207964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgaccgcgaggagctgtgCgggcggagcgcggagtgcag	7	4	20	10	7	0	0	0	0	0	0	1	5	0	3	1	4	4	2	1	4	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:140207964C>T	uc003lho.2	+	1	315	c.288C>T	c.(286-288)TGC>TGT	p.C96C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.C96C|PCDHA6_uc011dab.1_Silent_p.C96C	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	96	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGAGCTGTGCGGGCGGAGCG	0.572													129	86					0	0	0.01441	0	0		T	140207964	T	T	140207964	2	4	175	1	0	0	0	0	0	0	0	1	11547	776	27	1		1	PCDHA6	5	140207964	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	19288	140207964	40707296	47	90898											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755558	140755558	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcgccctgctggacagagaCgcgctcaagcagagcctagt	9	5	13	14	4	1	2	1	0	0	2	1	4	1	3	2	1	3	3	2	1	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:140755558C>T	uc003ljy.1	+	1	1908	c.1908C>T	c.(1906-1908)GAC>GAT	p.D636D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.D636D	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	636	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGACAGAGACGCGCTCAAGC	0.701													9	77					0	0	0.004482	0	0		T	140755558	T	T	140755558	2	4	175	1	0	0	0	0	0	0	0	1	11577	535	19	1		1	PCDHGA6	5	140755558	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	547594	140755558	40159702	48	90899											
FAT2	2196	broad.mit.edu	37	chr5	150907625	150907625	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaatggtgaagtgcccaaGctggttccctcctatgaggc	8	10	13	10	0	0	3	0	3	0	0	2	3	2	3	3	3	2	2	3	3	4	2	rs145145475	by1000genomes	TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:150907625G>T	uc003lue.3	-	15	10109	c.10096C>A	c.(10096-10098)CTT>ATT	p.L3366I	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.L59I	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3366	Cadherin 30.|Extracellular (Potential).				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAGTGCCCAAGCTGGTTCCCT	0.567													62	26					6.66387e-47	8.01121e-47	0.01441	1	0		T	150907625	T	T	150907625	3	4	175	1	0	0	0	0	1	0	0	0	5704	971	34	5	2989	5	FAT2	5	150907625	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	10152067	150907625	30007635	49	90900											
GRIA1	2890	broad.mit.edu	37	chr5	153190663	153190663	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cccgcaacagcggggcaggaGccagcagcggcggcagtgga	9	1	18	13	4	0	0	0	0	0	0	0	2	0	2	2	6	5	4	2	6	1	0	rs139474308		TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr5:153190663G>T	uc003lva.3	+	16	2964	c.2599G>T	c.(2599-2601)GCC>TCC	p.A867S	GRIA1_uc003luy.3_Missense_Mutation_p.A867S|GRIA1_uc003luz.3_Missense_Mutation_p.A772S|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.A787S|GRIA1_uc011dcx.1_Missense_Mutation_p.A798S|GRIA1_uc011dcy.1_Missense_Mutation_p.A877S|GRIA1_uc011dcz.1_Missense_Mutation_p.A877S	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	867	Cytoplasmic (Potential).			AGA -> TAP (in Ref. 1; AAA58613).	synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding	p.A867S(1)		ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CGGGGCAGGAGCCAGCAGCGG	0.582													28	20					1.77063e-15	2.07202e-15	0.005443	1	0		T	153190663	T	T	153190663	3	4	175	1	0	0	0	0	1	0	0	0	6783	971	34	5	2780	5	GRIA1	5	153190663	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	2283038	153190663	27724597	50	90901											
OR10C1	442194	broad.mit.edu	37	chr6	29408180	29408180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccatctgtgaacccctcCgctacccactgctgctgagc	7	8	8	18	1	1	2	0	2	1	0	2	2	2	2	5	0	6	3	5	0	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:29408180C>T	uc011dlp.1	+	1	388	c.388C>T	c.(388-390)CGC>TGC	p.R130C	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGAACCCCTCCGCTACCCACT	0.622													26	73					0	0	0.00333	0	0		T	29408180	T	T	29408180	3	4	175	1	0	0	0	0	1	0	0	0	10917	652	23	1	390	1	OR10C1	6	29408180	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08		29408180	141706887	51	90902											
C6orf81	221481	broad.mit.edu	37	chr6	35705852	35705852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggactcaggtgagctccGgaggctcctcaactctttgg	6	9	14	12	2	3	1	2	1	1	0	5	3	5	3	2	5	2	2	2	5	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:35705852G>A	uc003ola.2	+	2	320	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	LOC285847_uc010jvy.1_5'Flank|C6orf81_uc003olb.1_Missense_Mutation_p.R71Q	NM_145028	NP_659465	Q5T9G4	CF081_HUMAN	hypothetical protein LOC221481	71							binding			ovary(1)	1						GGTGAGCTCCGGAGGCTCCTC	0.577											OREG0017379	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	103					0	0	0.01441	0	0		A	35705852	A	A	35705852	3	1	175	1	0	0	0	0	1	0	0	0	2375	1116	39	1	299	1	C6orf81	6	35705852	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	6297672	35705852	135409215	52	90903											
UNC5CL	222643	broad.mit.edu	37	chr6	41001837	41001837	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagggcttaccagcccctGggcttgggacagcgatgggg	7	6	16	12	1	0	0	0	0	0	0	0	2	0	1	3	5	3	2	3	5	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:41001837G>C	uc003opi.2	-	3	558	c.469C>G	c.(469-471)CAG>GAG	p.Q157E	UNC5CL_uc010jxe.1_Missense_Mutation_p.Q157E	NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	157	ZU5.|Cytoplasmic (Potential).				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					ACCAGCCCCTGGGCTTGGGAC	0.657													19	164					0	0	0.014323	0	0		C	41001837	C	C	41001837	3	2	175	1	0	0	0	0	1	0	0	0	17020	1357	47	5	1115	5	UNC5CL	6	41001837	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	5295985	41001837	130113230	53	90904											
GPR116	221395	broad.mit.edu	37	chr6	46823761	46823761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgatattggagaactcataGaaaacacaggtgtggatgaa	16	10	11	4	0	1	4	1	2	0	2	1	6	1	5	0	3	2	0	0	3	6	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:46823761G>A	uc003oyo.3	-	20	4200	c.3911C>T	c.(3910-3912)TCT>TTT	p.S1304F	GPR116_uc011dwj.1_Missense_Mutation_p.S859F|GPR116_uc011dwk.1_Missense_Mutation_p.S733F|GPR116_uc003oyp.3_Missense_Mutation_p.S1162F|GPR116_uc003oyq.3_Missense_Mutation_p.S1304F|GPR116_uc010jzi.1_Missense_Mutation_p.S956F	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1304	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			AGAACTCATAGAAAACACAGG	0.418													14	64					0	0	0.004007	0	0		A	46823761	A	A	46823761	3	1	175	1	0	0	0	0	1	0	0	0	6648	942	33	4	137	4	GPR116	6	46823761	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	5821924	46823761	124291306	54	90905											
CRISP3	10321	broad.mit.edu	37	chr6	49698923	49698923	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcaactggcacaaggtgctCcttgttcataagggacatat	11	10	11	9	0	1	0	1	0	0	0	2	1	2	1	1	4	2	4	1	4	4	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:49698923C>A	uc003ozs.2	-	7	578	c.563G>T	c.(562-564)GGA>GTA	p.G188V		NM_006061	NP_006052	P54108	CRIS3_HUMAN	cysteine-rich secretory protein 3 precursor	188					innate immune response	proteinaceous extracellular matrix|specific granule				skin(2)	2	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)			ACAAGGTGCTCCTTGTTCATA	0.318													54	77					2.23399e-28	2.64236e-28	0.01441	1	0		A	49698923	A	A	49698923	3	1	175	1	0	0	0	0	1	0	0	0	3884	855	30	5	182	5	CRISP3	6	49698923	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	2875162	49698923	121416144	55	90906											
TTK	7272	broad.mit.edu	37	chr6	80751871	80751871	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatagtggtggtgaaagtcaTaattcttcatcctccaagac	12	13	8	8	0	3	2	2	1	1	1	5	2	5	2	2	2	0	0	2	2	5	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:80751871T>C	uc003pjc.2	+	22	2600	c.2526T>C	c.(2524-2526)CAT>CAC	p.H842H	TTK_uc003pjb.3_Silent_p.H841H	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	842					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		GTGAAAGTCATAATTCTTCAT	0.294													25	90					0	0	0.007291	0	0		C	80751871	C	C	80751871	2	2	175	1	0	0	0	0	0	0	0	1	16746	1403	49	3		3	TTK	6	80751871	Silent	SNP	T	TCGA-D7-6815-01A-11D-1882-08	31052948	80751871	90363196	56	90907											
MCHR2	84539	broad.mit.edu	37	chr6	100390958	100390958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaggcccaaattgatccGgatggtcttgtaccttgttc	9	12	9	11	1	1	1	0	1	1	0	3	2	2	2	4	3	1	2	4	3	3	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:100390958G>A	uc003pqh.1	-	4	769	c.454C>T	c.(454-456)CGG>TGG	p.R152W	MCHR2_uc003pqi.1_Missense_Mutation_p.R152W	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	152	Cytoplasmic (Potential).		R -> Q (no changes in receptor binding or functional signaling).			integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		AAATTGATCCGGATGGTCTTG	0.473													15	209					0	0	0.007413	0	0		A	100390958	A	A	100390958	3	1	175	1	0	0	0	0	1	0	0	0	9401	1115	39	1	580	1	MCHR2	6	100390958	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	19639087	100390958	70724109	57	90908											
CLVS2	134829	broad.mit.edu	37	chr6	123332153	123332153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactggtggatattttgcGtgccatcttactttctttag	7	17	8	9	1	2	0	0	0	2	0	2	1	2	1	1	2	3	0	1	2	3	7			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:123332153G>A	uc003pzi.1	+	3	1282	c.413G>A	c.(412-414)CGT>CAT	p.R138H		NM_001010852	NP_001010852	Q5SYC1	CLVS2_HUMAN	retinaldehyde binding protein 1-like 2	138	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GATATTTTGCGTGCCATCTTA	0.378													5	178					0	0	0.001984	0	0		A	123332153	A	A	123332153	3	1	175	1	0	0	0	0	1	0	0	0	3575	1145	40	1	419	1	CLVS2	6	123332153	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	22941195	123332153	47782914	58	90909											
SYNE1	23345	broad.mit.edu	37	chr6	152651740	152651740	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactttgctcatcctcaagaAttgggcttcaagttcactca	11	13	6	11	0	5	1	5	0	0	1	6	1	6	1	1	1	2	3	1	1	4	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr6:152651740A>T	uc010kiw.2	-	78	14682	c.14080T>A	c.(14080-14082)TTC>ATC	p.F4694I	SYNE1_uc003qot.3_Missense_Mutation_p.F4623I|SYNE1_uc003qou.3_Missense_Mutation_p.F4694I|SYNE1_uc010kiz.2_Missense_Mutation_p.F449I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4694	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		ATCCTCAAGAATTGGGCTTCA	0.502										HNSCC(10;0.0054)			10	51					0	0	0.006214	0	0		T	152651740	T	T	152651740	3	4	175	1	0	0	0	0	1	0	0	0	15470	101	4	5	12662	5	SYNE1	6	152651740	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	29319587	152651740	18463327	59	90910											
ETV1	2115	broad.mit.edu	37	chr7	13971291	13971291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtttggctcagacatctggCgttggtacataggacgtcct	7	13	12	9	2	2	1	1	0	1	1	3	2	3	2	1	4	1	4	1	4	2	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:13971291C>T	uc011jxq.1	-	9	1377	c.638G>A	c.(637-639)CGC>CAC	p.R213H	ETV1_uc011jxn.1_Missense_Mutation_p.R173H|ETV1_uc011jxo.1_Missense_Mutation_p.R110H|ETV1_uc011jxp.1_Missense_Mutation_p.R155H|ETV1_uc003ssw.3_Missense_Mutation_p.R213H|ETV1_uc003ssx.2_RNA|ETV1_uc011jxr.1_Missense_Mutation_p.R195H|ETV1_uc011jxs.1_Missense_Mutation_p.R195H|ETV1_uc010ktv.2_Missense_Mutation_p.R82H	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a	213					transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						AGACATCTGGCGTTGGTACAT	0.532			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								17	50					0	0	0.004007	0	0		T	13971291	T	T	13971291	3	4	175	1	0	0	0	0	1	0	0	0	5285	768	27	1	819	1	ETV1	7	13971291	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08		13971291	145167372	60	90911											
TMEM195	392636	broad.mit.edu	37	chr7	15470727	15470727	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtccggcccacataataTtaacttctgcaaaacacata	14	10	6	11	1	1	0	0	0	1	0	2	0	2	0	2	2	3	1	2	2	6	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:15470727T>A	uc003stb.1	-	4	586	c.416A>T	c.(415-417)AAT>ATT	p.N139I		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	139					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						CCACATAATATTAACTTCTGC	0.398													8	64					0	0	0.004482	0	0		A	15470727	A	A	15470727	3	1	175	1	0	0	0	0	1	0	0	0	16142	1493	52	5	961	5	TMEM195	7	15470727	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	1499436	15470727	143667936	61	90912											
DNAH11	8701	broad.mit.edu	37	chr7	21779199	21779199	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgtctttcaggtatgatagaCagaaggtgatgcttaaagaa	14	12	11	4	0	2	5	1	2	1	3	2	5	2	5	0	2	1	2	0	2	6	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:21779199C>A	uc003svc.2	+	49	7874	c.7843C>A	c.(7843-7845)CAG>AAG	p.Q2615K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2615	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GTATGATAGACAGAAGGTGAT	0.373									Kartagener_syndrome				41	53					3.68427e-32	4.38129e-32	0.010771	1	0		A	21779199	A	A	21779199	3	1	175	1	0	0	0	0	1	0	0	0	4605	479	17	5	8034	5	DNAH11	7	21779199	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	6308472	21779199	137359464	62	90913											
KLHL7	55975	broad.mit.edu	37	chr7	23205329	23205329	+	Missense_Mutation	SNP	A	G	G	1	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	tgctacaggattatagctggAcagacatccgctgccccttt	9	11	9	12	1	0	1	0	0	0	1	1	3	1	3	3	2	4	3	3	2	3	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:23205329A>G	uc003svs.3	+	8	1242	c.949A>G	c.(949-951)ACA>GCA	p.T317A	KLHL7_uc003svr.3_Missense_Mutation_p.T295A|KLHL7_uc011jys.1_Missense_Mutation_p.T241A|KLHL7_uc011jyt.1_Missense_Mutation_p.T92A|KLHL7_uc003svt.2_Missense_Mutation_p.T269A|KLHL7_uc011jyv.1_Missense_Mutation_p.T92A	NM_001031710	NP_001026880	Q8IXQ5	KLHL7_HUMAN	kelch-like 7 isoform 1	317	Kelch 1.					Golgi apparatus|nucleolus|plasma membrane					0						TTATAGCTGGACAGACATCCG	0.388													16	57					0	0	0.008871	0	0		G	23205329	G	G	23205329	3	3	175	1	0	0	0	0	1	0	0	0	8410	275	10	3	1042	3	KLHL7	7	23205329	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	1426130	23205329	135933334	63	90914											
SEMA3D	223117	broad.mit.edu	37	chr7	84629053	84629053	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcaatgacattcaaagtCagcttcactatggtgtggat	11	14	8	8	0	4	1	4	1	1	0	5	2	4	2	0	2	1	1	0	2	3	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:84629053C>A	uc003uic.2	-	17	2077	c.2037G>T	c.(2035-2037)CTG>CTT	p.L679L	SEMA3D_uc010led.2_Silent_p.L679L|SEMA3D_uc003uib.2_Silent_p.L318L	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	679	Ig-like C2-type.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						CATTCAAAGTCAGCTTCACTA	0.463													10	89					9.70103e-10	1.10582e-09	0.008291	1	0		A	84629053	A	A	84629053	2	1	175	1	0	0	0	0	0	0	0	1	14052	813	29	5		5	SEMA3D	7	84629053	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	61423724	84629053	74509610	64	90915											
ZAN	7455	broad.mit.edu	37	chr7	100350655	100350655	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccatccccacggaaaaacTtaccatccccacggaaaaac	16	4	4	17	2	0	0	0	0	0	0	2	2	2	2	6	2	3	0	6	2	5	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:100350655T>G	uc003uwj.2	+	14	3092	c.2927T>G	c.(2926-2928)CTT>CGT	p.L976R	ZAN_uc003uwk.2_Missense_Mutation_p.L976R|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	976	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			ACGGAAAAACTTACCATCCCC	0.552													110	106					0	0	0.01441	0	0		G	100350655	G	G	100350655	3	3	175	1	0	0	0	0	1	0	0	0	17539	1609	56	5	2977	5	ZAN	7	100350655	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	15721602	100350655	58788008	65	90916											
EPHB4	2050	broad.mit.edu	37	chr7	100417377	100417377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggcgcacaggagcctcCgggtcggcactcccggcagc	6	3	16	16	4	0	0	0	0	0	0	3	1	2	1	3	5	2	4	3	5	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:100417377C>T	uc003uwn.1	-	6	1590	c.1099G>A	c.(1099-1101)GGA>AGA	p.G367R	EPHB4_uc003uwm.1_Missense_Mutation_p.G274R|EPHB4_uc010lhj.1_Missense_Mutation_p.G367R|EPHB4_uc011kkf.1_Missense_Mutation_p.G367R|EPHB4_uc011kkg.1_Intron|EPHB4_uc011kkh.1_Missense_Mutation_p.G367R	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	367	Extracellular (Potential).|Fibronectin type-III 1.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					CAGGAGCCTCCGGGTCGGCAC	0.697													8	15					0	0	0.00308	0	0		T	100417377	T	T	100417377	3	4	175	1	0	0	0	0	1	0	0	0	5185	661	23	1	1912	1	EPHB4	7	100417377	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	66722	100417377	58721286	66	90917											
DOCK4	9732	broad.mit.edu	37	chr7	111398842	111398842	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagtcacagcatatatctgCaaatctaggattcaagagtc	14	10	9	8	0	4	1	2	0	2	1	5	3	4	3	0	2	2	2	0	2	5	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:111398842C>T	uc003vfx.2	-	40	4409	c.4140G>A	c.(4138-4140)TTG>TTA	p.L1380L	DOCK4_uc011kml.1_Silent_p.L261L|DOCK4_uc011kmm.1_Silent_p.L287L|DOCK4_uc003vfw.2_Silent_p.L830L|DOCK4_uc003vfy.2_Silent_p.L1425L	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1380	DHR-2.			YLQ -> CIRTYKGWTQFGTAVITDVGRLGTQIITQIN (in Ref. 3; BAC05221).	cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CATATATCTGCAAATCTAGGA	0.478													6	41					0	0	0.00308	0	0		T	111398842	T	T	111398842	2	4	175	1	0	0	0	0	0	0	0	1	4695	709	25	2		2	DOCK4	7	111398842	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	10981465	111398842	47739821	67	90918											
ZNF282	8427	broad.mit.edu	37	chr7	148921431	148921431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaccagatgacgcaccgcGgcgagcggccctacaagtgc	9	3	13	16	5	0	2	0	1	0	1	0	3	0	2	4	2	3	1	4	2	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:148921431G>A	uc003wfm.2	+	8	1813	c.1708G>A	c.(1708-1710)GGC>AGC	p.G570S	ZNF282_uc011kun.1_3'UTR|ZNF282_uc003wfo.2_3'UTR	NM_003575	NP_003566	Q9UDV7	ZN282_HUMAN	zinc finger protein 282	570					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00171)	Lung(243;0.145)		GACGCACCGCGGCGAGCGGCC	0.657													18	16					0	0	0.00499	0	0		A	148921431	A	A	148921431	3	1	175	1	0	0	0	0	1	0	0	0	17844	1116	39	1	1738	1	ZNF282	7	148921431	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	37522589	148921431	10217232	68	90919											
FASTK	10922	broad.mit.edu	37	chr7	150775086	150775086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caggggtgccacccctgcttCccgagccaggatcctctcaa	7	7	10	17	1	1	0	1	0	1	0	4	2	3	1	6	3	3	1	6	3	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:150775086C>T	uc003wix.1	-	5	1017	c.919G>A	c.(919-921)GAA>AAA	p.E307K	uc011kvf.1_5'Flank|FASTK_uc003wiw.1_Missense_Mutation_p.E68K|FASTK_uc003wiy.1_Missense_Mutation_p.E166K|FASTK_uc003wiz.1_Missense_Mutation_p.E280K|FASTK_uc003wja.1_3'UTR	NM_006712	NP_006703	Q14296	FASTK_HUMAN	Fas-activated serine/threonine kinase isoform 1	307					apoptosis|induction of apoptosis by extracellular signals|regulation of RNA splicing		ATP binding|Fas-activated serine/threonine kinase activity|protein binding			lung(2)|stomach(2)	4			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)		ACCCCTGCTTCCCGAGCCAGG	0.577													38	64					0	0	0.006999	0	0		T	150775086	T	T	150775086	3	4	175	1	0	0	0	0	1	0	0	0	5698	864	30	4	754	4	FASTK	7	150775086	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	1853655	150775086	8363577	69	90920											
PRKAG2	51422	broad.mit.edu	37	chr7	151254294	151254294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acattcacggcggtcactccGtttctgtctccttttgtttg	4	17	8	12	3	4	0	2	0	2	0	6	0	5	0	2	2	0	2	2	2	0	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr7:151254294G>A	uc003wkk.2	-	16	2314	c.1703C>T	c.(1702-1704)ACG>ATG	p.T568M	PRKAG2_uc003wki.2_Missense_Mutation_p.T327M|PRKAG2_uc011kvl.1_Missense_Mutation_p.T443M|PRKAG2_uc003wkj.2_Missense_Mutation_p.T524M|PRKAG2_uc003wkl.2_3'UTR	NM_016203	NP_057287	Q9UGJ0	AAKG2_HUMAN	AMP-activated protein kinase gamma2 subunit	568					ATP biosynthetic process|carnitine shuttle|cell cycle arrest|fatty acid biosynthetic process|glycogen metabolic process|insulin receptor signaling pathway|intracellular protein kinase cascade|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein kinase activity|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation|regulation of glucose import|regulation of glycolysis|sterol biosynthetic process	AMP-activated protein kinase complex|cytosol|nucleoplasm	ADP binding|ATP binding|cAMP-dependent protein kinase inhibitor activity|cAMP-dependent protein kinase regulator activity|phosphorylase kinase regulator activity|protein kinase activator activity|protein kinase binding			breast(1)|kidney(1)	2	all_neural(206;0.187)	all_hematologic(28;0.0605)	OV - Ovarian serous cystadenocarcinoma(82;0.00252)	UCEC - Uterine corpus endometrioid carcinoma (81;0.185)		CGGTCACTCCGTTTCTGTCTC	0.493													179	183					0	0	0.01441	0	0		A	151254294	A	A	151254294	3	1	175	1	0	0	0	0	1	0	0	0	12523	1145	40	1	10	1	PRKAG2	7	151254294	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	479208	151254294	7884369	70	90921											
CLVS1	157807	broad.mit.edu	37	chr8	62212794	62212794	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggaaaaccgagaccattaCggcaggaagattcttttgct	12	10	10	9	2	1	2	0	0	1	2	1	5	1	4	2	3	3	2	2	3	4	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr8:62212794C>T	uc003xuh.2	+	2	732	c.408C>T	c.(406-408)TAC>TAT	p.Y136Y	CLVS1_uc003xug.2_Silent_p.Y136Y|CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Silent_p.Y136Y	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1	136	CRAL-TRIO.				lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						GAGACCATTACGGCAGGAAGA	0.443													39	49					0	0	0.00874	0	0		T	62212794	T	T	62212794	2	4	175	1	0	0	0	0	0	0	0	1	3574	547	19	1		1	CLVS1	8	62212794	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08		62212794	84151228	71	90922											
MATN2	4147	broad.mit.edu	37	chr8	98973727	98973727	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccagtgctacagtggctaCgccctggctgaggatgggaa	8	8	15	10	1	0	1	0	1	0	0	0	3	0	3	2	4	4	3	2	4	3	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr8:98973727C>T	uc003yic.2	+	5	1158	c.927C>T	c.(925-927)TAC>TAT	p.Y309Y	MATN2_uc003yib.1_Silent_p.Y309Y|MATN2_uc010mbh.1_Silent_p.Y309Y|MATN2_uc003yid.2_Silent_p.Y309Y|MATN2_uc003yie.1_Silent_p.Y309Y|MATN2_uc010mbi.1_Intron	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	309	EGF-like 2.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			ACAGTGGCTACGCCCTGGCTG	0.582													36	120					0	0	0.013726	0	0		T	98973727	T	T	98973727	2	4	175	1	0	0	0	0	0	0	0	1	9352	547	19	1		1	MATN2	8	98973727	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	36760933	98973727	47390295	72	90923											
ZFPM2	23414	broad.mit.edu	37	chr8	106815221	106815221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaatgcctttaccctggaGcaataaagaaagcaaaagga	18	6	8	9	0	0	1	0	0	0	1	0	3	0	3	2	2	4	2	2	2	8	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr8:106815221G>A	uc003ymd.2	+	8	2934	c.2911G>A	c.(2911-2913)GCA>ACA	p.A971T	ZFPM2_uc011lhs.1_Missense_Mutation_p.A702T	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	971					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TTACCCTGGAGCAATAAAGAA	0.408													4	40					0	0	0.000602	0	0		A	106815221	A	A	106815221	3	1	175	1	0	0	0	0	1	0	0	0	17683	971	34	2	2941	2	ZFPM2	8	106815221	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	7841494	106815221	39548801	73	90924			1	40		3	3	238	N	G_C_A	8.034712e-07
ZFPM2	23414	broad.mit.edu	37	chr8	106815238	106815238	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagcaataaagaaagcaaaAggagccgaccagctttctcc	16	5	10	10	1	1	1	0	0	1	1	2	4	1	3	3	2	4	3	3	2	6	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr8:106815238A>G	uc003ymd.2	+	8	2951	c.2928A>G	c.(2926-2928)AAA>AAG	p.K976K	ZFPM2_uc011lhs.1_Silent_p.K707K	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	976					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGAAAGCAAAAGGAGCCGACC	0.403													4	43					0	0	0.000602	0	0		G	106815238	G	G	106815238	2	3	175	1	0	0	0	0	0	0	0	1	17683	69	3	3		3	ZFPM2	8	106815238	Silent	SNP	A	TCGA-D7-6815-01A-11D-1882-08	17	106815238	39548784	74	90925			1	40		3	3	238	N	G_C_A	8.034712e-07
ZFPM2	23414	broad.mit.edu	37	chr8	106815458	106815458	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtgaatggtggactgaaaCaagatgagagacctgctgcc	13	8	13	7	0	0	5	0	3	0	2	0	7	0	6	2	2	3	1	2	2	4	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr8:106815458C>T	uc003ymd.2	+	8	3171	c.3148C>T	c.(3148-3150)CAA>TAA	p.Q1050*	ZFPM2_uc011lhs.1_Nonsense_Mutation_p.Q781*	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	1050					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TGGACTGAAACAAGATGAGAG	0.498													5	64					0	0	0.000602	0	0		T	106815458	T	T	106815458	4	4	175	1	0	0	0	0	0	1	0	0	17683	479	17	4	3178	4	ZFPM2	8	106815458	Nonsense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	220	106815458	39548564	75	90926			1	40		3	3	238	N	G_C_A	8.034712e-07
MTBP	27085	broad.mit.edu	37	chr8	121530251	121530251	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtgaaactccaaaacttGctacaaagaccagttcaggt	14	9	8	10	0	1	2	1	1	0	1	2	2	2	2	2	1	4	3	2	1	5	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr8:121530251G>C	uc003ypc.1	+	19	2452	c.2407G>C	c.(2407-2409)GCT>CCT	p.A803P		NM_022045	NP_071328	Q96DY7	MTBP_HUMAN	Mdm2, transformed 3T3 cell double minute 2, p53	803	Interaction with MDM2 (By similarity).				cell cycle arrest					skin(2)|ovary(1)	3	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)			TCCAAAACTTGCTACAAAGAC	0.393													16	108					0	0	0.003163	0	0		C	121530251	C	C	121530251	3	2	175	1	0	0	0	0	1	0	0	0	9930	1319	46	5	2481	5	MTBP	8	121530251	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	14714793	121530251	24833771	76	90927											
FAM83H	286077	broad.mit.edu	37	chr8	144809765	144809765	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgaggggagcaggtcgccGgcaggtgcccggcccccggg	4	2	20	15	5	0	0	0	0	0	0	1	2	0	1	5	7	2	2	5	7	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr8:144809765G>A	uc003yzk.2	-	5	1935	c.1866C>T	c.(1864-1866)GCC>GCT	p.A622A	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	622					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		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)			GCAGGTCGCCGGCAGGTGCCC	0.756													5	36					0	0	0.001984	0	0		A	144809765	A	A	144809765	2	1	175	1	0	0	0	0	0	0	0	1	5654	1103	39	1		1	FAM83H	8	144809765	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	23279514	144809765	1554257	77	90928											
JAK2	3717	broad.mit.edu	37	chr9	5089674	5089674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taatgtgatgtgtcatttagGgtaattttgggagtgtggag	9	16	15	1	0	1	1	1	1	0	0	1	3	1	3	0	3	0	1	0	3	3	6			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr9:5089674G>A	uc010mhm.2	+	19	2685	c.2572G>A	c.(2572-2574)GGT>AGT	p.G858S	JAK2_uc003ziw.2_Missense_Mutation_p.G858S	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	858	Protein kinase 2.|ATP (By similarity).				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		TGTCATTTAGGGTAATTTTGG	0.383		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				7	74					0	0	0.010729	0	0		A	5089674	A	A	5089674	3	1	175	1	0	0	0	0	1	0	0	0	7954	1246	43	4	2642	4	JAK2	9	5089674	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08		5089674	136123757	78	90929											
C9orf93	203238	broad.mit.edu	37	chr9	15846777	15846777	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatagacatcttacccagctGgagcaggacaagcgtcgact	13	7	10	11	2	1	1	0	0	1	1	2	4	1	3	1	2	4	2	1	2	4	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr9:15846777G>T	uc003zmd.2	+	22	3660	c.3345G>T	c.(3343-3345)CTG>CTT	p.L1115L	C9orf93_uc003zme.2_Silent_p.L1030L|C9orf93_uc011lmu.1_Silent_p.L1123L|C9orf93_uc003zmf.1_Silent_p.L423L	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1115	Potential.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		TTACCCAGCTGGAGCAGGACA	0.512													7	3					3.09899e-07	3.47845e-07	0.004482	1	0		T	15846777	T	T	15846777	2	4	175	1	0	0	0	0	0	0	0	1	2509	1335	47	5		5	C9orf93	9	15846777	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	10757103	15846777	125366654	79	90930											
RFK	55312	broad.mit.edu	37	chr9	79002415	79002415	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgtttcttagcttcttcaAtatcaccttgaattgctgaa	9	17	6	9	1	4	2	2	2	2	0	5	2	4	2	1	0	2	3	1	0	5	7			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr9:79002415A>G	uc004akd.2	-	4	725	c.389T>C	c.(388-390)ATT>ACT	p.I130T	RFK_uc004ake.2_3'UTR	NM_018339	NP_060809	Q969G6	RIFK_HUMAN	riboflavin kinase	123					riboflavin biosynthetic process	cytosol	ATP binding|metal ion binding|riboflavin kinase activity				0					Riboflavin(DB00140)	AGCTTCTTCAATATCACCTTG	0.323													34	89					0	0	0.003271	0	0		G	79002415	G	G	79002415	3	3	175	1	0	0	0	0	1	0	0	0	13276	101	4	3	103	3	RFK	9	79002415	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	63155638	79002415	62211016	80	90931											
TGFBR1	7046	broad.mit.edu	37	chr9	101904870	101904870	+	Silent	SNP	A	T	T	1	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	tcagattatcatgagcatggAtccctttttgattacttaaa	12	16	6	7	0	2	3	2	2	0	1	3	4	3	4	1	1	2	1	1	1	4	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr9:101904870A>T	uc004azc.2	+	5	934	c.858A>T	c.(856-858)GGA>GGT	p.G286G	TGFBR1_uc004azd.2_Silent_p.G209G|TGFBR1_uc011lvc.1_Silent_p.G217G	NM_004612	NP_004603	P36897	TGFR1_HUMAN	transforming growth factor, beta receptor I	286	Protein kinase.|Cytoplasmic (Potential).				activation of MAPKK activity|anterior/posterior pattern formation|artery morphogenesis|collagen fibril organization|embryonic cranial skeleton morphogenesis|germ cell migration|heart development|kidney development|neuron fate commitment|palate development|parathyroid gland development|pathway-restricted SMAD protein phosphorylation|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|pharyngeal system development|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of cellular component movement|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of SMAD protein import into nucleus|positive regulation of survival gene product expression|positive regulation of transcription, DNA-dependent|response to cholesterol|thymus development|transforming growth factor beta receptor signaling pathway		ATP binding|I-SMAD binding|metal ion binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type I|type II transforming growth factor beta receptor binding			lung(2)|ovary(1)	3		Acute lymphoblastic leukemia(62;0.0559)				ATGAGCATGGATCCCTTTTTG	0.428													26	77					0	0	0.00632	0	0		T	101904870	T	T	101904870	2	4	175	1	0	0	0	0	0	0	0	1	15846	320	12	5		5	TGFBR1	9	101904870	Silent	SNP	A	TCGA-D7-6815-01A-11D-1882-08	22902455	101904870	39308561	81	90932											
CYLC2	1539	broad.mit.edu	37	chr9	105767016	105767016	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taagaggagatcgtagacaaCcattatggatgtaccgttct	13	11	10	7	2	1	3	0	0	1	3	2	5	1	4	2	2	2	3	2	2	5	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr9:105767016C>A	uc004bbs.2	+	4	290	c.220C>A	c.(220-222)CCA>ACA	p.P74T		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	74	31 X 3 AA repeats of K-K-X.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				TCGTAGACAACCATTATGGAT	0.373													3	34					0.004672	0.0051392	0.004672	1	0		A	105767016	A	A	105767016	3	1	175	1	0	0	0	0	1	0	0	0	4145	507	18	5	234	5	CYLC2	9	105767016	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	3862146	105767016	35446415	82	90933											
ZFP37	7539	broad.mit.edu	37	chr9	115818962	115818962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatctggacgccgctggagaCcgacatggcggctacccgga	9	5	14	13	5	1	1	0	0	1	1	1	5	1	3	3	5	1	2	3	5	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr9:115818962C>T	uc004bgm.1	-	1	35	c.7G>A	c.(7-9)GTC>ATC	p.V3I	ZFP37_uc011lwz.1_Missense_Mutation_p.V3I|ZFP37_uc011lxa.1_Missense_Mutation_p.V3I	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	3						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CCGCTGGAGACCGACATGGCG	0.662													26	51					0	0	0.003954	0	0		T	115818962	T	T	115818962	3	4	175	1	0	0	0	0	1	0	0	0	17673	507	18	4	1901	4	ZFP37	9	115818962	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	10051946	115818962	25394469	83	90934											
CDC123	8872	broad.mit.edu	37	chr10	12277093	12277093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattcctggggctgagtttcGatgttttgtcaaggaaaaca	10	13	12	6	1	1	1	1	1	0	0	3	4	2	2	1	3	1	3	1	3	3	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr10:12277093G>A	uc001ill.2	+	8	820	c.536G>A	c.(535-537)CGA>CAA	p.R179Q	CDC123_uc001ilm.2_Missense_Mutation_p.R179Q	NM_006023	NP_006014	O75794	CD123_HUMAN	cell division cycle 123	179					cell cycle arrest|cell division|positive regulation of cell proliferation|regulation of mitotic cell cycle	cytoplasm				central_nervous_system(1)	1						GCTGAGTTTCGATGTTTTGTC	0.333													5	122					0	0	0.001168	0	0		A	12277093	A	A	12277093	3	1	175	1	0	0	0	0	1	0	0	0	3058	1058	37	1	566	1	CDC123	10	12277093	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08		12277093	123257654	84	90935											
AGAP7	653268	broad.mit.edu	37	chr10	51472552	51472552	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcatagttgtactcatGatattattgtcattgtaaga	12	15	9	5	0	2	2	2	1	0	1	2	2	2	2	0	1	2	5	0	1	5	8			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr10:51472552G>T	uc001jio.2	-	4	554	c.428C>A	c.(427-429)TCT>TAT	p.S143Y	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	143					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						TTGTACTCATGATATTATTGT	0.368													8	54					1.49906e-05	1.66562e-05	0.00245	1	0		T	51472552	T	T	51472552	3	4	175	1	0	0	0	0	1	0	0	0	373	1304	45	5	1579	5	AGAP7	10	51472552	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	39195459	51472552	84062195	85	90936											
BICC1	80114	broad.mit.edu	37	chr10	60573731	60573731	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctattggcagccctaagcgtAaacaaaacaaatcaagtgag	17	7	8	9	1	1	1	1	1	0	0	1	1	1	1	1	1	4	2	1	1	8	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr10:60573731A>G	uc001jki.1	+	18	2518	c.2518A>G	c.(2518-2520)AAA>GAA	p.K840E	BICC1_uc001jkj.1_Missense_Mutation_p.K481E	NM_001080512	NP_001073981	Q9H694	BICC1_HUMAN	bicaudal C homolog 1	840					multicellular organismal development		RNA binding			ovary(2)|lung(1)|skin(1)	4						CCCTAAGCGTAAACAAAACAA	0.433													25	55					0	0	0.004656	0	0		G	60573731	G	G	60573731	3	3	175	1	0	0	0	0	1	0	0	0	1428	363	13	3	2588	3	BICC1	10	60573731	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	9101179	60573731	74961016	86	90937											
JMJD1C	221037	broad.mit.edu	37	chr10	64977091	64977091	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atccatttaaggaataaggaCcttaaaaaaaacacaagaaa	23	7	5	6	0	0	1	0	0	0	1	1	3	1	3	2	2	1	0	2	2	9	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr10:64977091C>A	uc001jmn.2	-	5	854	c.554G>T	c.(553-555)GGT>GTT	p.G185V	JMJD1C_uc001jml.2_5'UTR|JMJD1C_uc001jmm.2_5'UTR|JMJD1C_uc010qiq.1_Missense_Mutation_p.G3V|JMJD1C_uc009xpi.2_Missense_Mutation_p.G3V|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_5'UTR	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	185					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					GGAATAAGGACCTTAAAAAAA	0.348													9	45					0.00829132	0.00907507	0.008291	1	0		A	64977091	A	A	64977091	3	1	175	1	0	0	0	0	1	0	0	0	7966	521	18	5	7156	5	JMJD1C	10	64977091	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	4403360	64977091	70557656	87	90938											
LRIT2	340745	broad.mit.edu	37	chr10	85982052	85982052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcaggcctcatattttgtgCcaggaaggaggtcatccaca	10	9	12	10	0	2	0	2	0	0	0	3	2	3	2	3	5	1	1	3	5	2	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr10:85982052C>T	uc001kcy.2	-	3	1285	c.1277G>A	c.(1276-1278)GGC>GAC	p.G426D	LRIT2_uc010qmc.1_Missense_Mutation_p.G436D	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	426	Fibronectin type-III.					integral to membrane				ovary(2)	2						ATATTTTGTGCCAGGAAGGAG	0.542													4	114					0	0	0.001168	0	0		T	85982052	T	T	85982052	3	4	175	1	0	0	0	0	1	0	0	0	8966	739	26	2	379	2	LRIT2	10	85982052	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	21004961	85982052	49552695	88	90939											
DMBT1	1755	broad.mit.edu	37	chr10	124359592	124359592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcacagcttcccagtcccGgccaacacctagtccaggtg	8	8	8	17	1	1	0	1	0	1	0	5	0	4	0	5	2	2	1	5	2	2	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr10:124359592G>A	uc001lgk.1	+	27	3399	c.3293G>A	c.(3292-3294)CGG>CAG	p.R1098Q	DMBT1_uc001lgl.1_Missense_Mutation_p.R1088Q|DMBT1_uc001lgm.1_Missense_Mutation_p.R599Q|DMBT1_uc009xzz.1_Missense_Mutation_p.R1098Q|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Missense_Mutation_p.R59Q	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1098					epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TCCCAGTCCCGGCCAACACCT	0.527													37	377					0	0	0.007835	0	0		A	124359592	A	A	124359592	3	1	175	1	0	0	0	0	1	0	0	0	4583	1116	39	1	3399	1	DMBT1	10	124359592	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	38377540	124359592	11175155	89	90940											
CTBP2	1488	broad.mit.edu	37	chr10	126691934	126691934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatttcctgcgtcgactgCgcgtcacagaaggccacagt	8	9	12	12	4	1	1	1	0	0	1	3	3	2	2	2	2	2	0	2	2	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr10:126691934C>T	uc009yak.2	-	4	473	c.186G>A	c.(184-186)GCG>GCA	p.A62A	CTBP2_uc009yal.2_Silent_p.A62A|CTBP2_uc001lif.3_Silent_p.A62A|CTBP2_uc001lih.3_Silent_p.A62A|CTBP2_uc001lid.3_Silent_p.A130A|CTBP2_uc001lie.3_Silent_p.A602A	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	62					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		GCGTCGACTGCGCGTCACAGA	0.677													4	100					0	0	0.000602	0	0		T	126691934	T	T	126691934	2	4	175	1	0	0	0	0	0	0	0	1	4001	755	27	1		1	CTBP2	10	126691934	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	2332342	126691934	8842813	90	90941											
OR8H1	219469	broad.mit.edu	37	chr11	56058005	56058005	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctaaaattggagacgtgtcGcagaaaaagtgacgaactac	16	7	11	7	3	0	3	0	1	0	2	1	5	0	3	0	1	2	2	0	1	6	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr11:56058005G>A	uc010rje.1	-	1	534	c.534C>T	c.(532-534)TGC>TGT	p.C178C		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	178	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					GAGACGTGTCGCAGAAAAAGT	0.438													19	27					0	0	0.014323	0	0		A	56058005	A	A	56058005	2	1	175	1	0	0	0	0	0	0	0	1	11256	1079	38	1		1	OR8H1	11	56058005	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08		56058005	78948511	91	90942											
PYGM	5837	broad.mit.edu	37	chr11	64520592	64520592	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttacacagaaccagccagcGccgaggggtgatgccgttgg	9	6	15	11	3	0	2	0	1	0	1	0	3	0	2	4	3	5	2	4	3	2	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr11:64520592G>A	uc001oax.3	-	12	2288	c.1471C>T	c.(1471-1473)CGC>TGC	p.R491C	PYGM_uc001oay.3_Missense_Mutation_p.R403C	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	491					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	ACCAGCCAGCGCCGAGGGGTG	0.572													8	374					0	0	0.004482	0	0		A	64520592	A	A	64520592	3	1	175	1	0	0	0	0	1	0	0	0	12887	1087	38	1	1093	1	PYGM	11	64520592	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	8462587	64520592	70485924	92	90943											
RSF1	51773	broad.mit.edu	37	chr11	77387955	77387955	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctgccctctggggtcgttTattttcttttctttcttcat	3	21	7	10	1	5	0	1	0	4	0	6	0	5	0	1	2	2	2	1	2	1	8			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr11:77387955T>C	uc001oyn.2	-	13	3343	c.3223A>G	c.(3223-3225)AAA>GAA	p.K1075E	RSF1_uc001oym.2_Missense_Mutation_p.K823E	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1075					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	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)			TGGGGTCGTTTATTTTCTTTT	0.468													4	118					0	0	0.000602	0	0		C	77387955	C	C	77387955	3	2	175	1	0	0	0	0	1	0	0	0	13724	1763	61	3	1118	3	RSF1	11	77387955	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	12867363	77387955	57618561	93	90944											
CCDC67	159989	broad.mit.edu	37	chr11	93104248	93104248	+	Silent	SNP	G	A	A	0	0	1	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	caactaaatggtaaaaaacaGtgcttagaagacagcagctc	18	7	8	8	0	0	2	0	0	0	2	1	2	0	2	0	1	5	4	0	1	8	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr11:93104248G>A	uc001pdq.2	+	7	691	c.591G>A	c.(589-591)CAG>CAA	p.Q197Q	CCDC67_uc001pdo.1_Silent_p.Q197Q|CCDC67_uc001pdp.2_Silent_p.Q197Q	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	197	Potential.									ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				GTAAAAAACAGTGCTTAGAAG	0.328													10	9					0	0	0.006214	0	0		A	93104248	A	A	93104248	2	1	175	1	0	0	0	0	0	0	0	1	2842	1020	36	4		4	CCDC67	11	93104248	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	15716293	93104248	41902268	94	90945											
CRYAB	1410	broad.mit.edu	37	chr11	111782347	111782347	+	Silent	SNP	C	T	T	0	0	0	1	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	gacgtcgggaaaagatcagaCtccaacaggtgctctccgaa	13	6	11	11	3	2	2	1	0	1	2	5	5	3	3	2	2	2	1	2	2	4	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr11:111782347C>T	uc001pmf.1	-	1	127	c.102G>A	c.(100-102)GAG>GAA	p.E34E	CRYAB_uc010rwp.1_Silent_p.E34E|HSPB2_uc001pmg.2_5'Flank|HSPB2_uc009yyj.2_5'Flank|C11orf52_uc001pmh.2_5'Flank	NM_001885	NP_001876	P02511	CRYAB_HUMAN	crystallin, alpha B	34					anti-apoptosis|muscle contraction|negative regulation of intracellular transport|protein folding|protein homooligomerization|response to heat	cytoplasm|nucleus	protein homodimerization activity|structural constituent of eye lens|unfolded protein binding				0		all_cancers(61;1.26e-15)|all_epithelial(67;9.52e-10)|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;3.57e-07)|BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|all cancers(92;6.57e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.051)		AAAGATCAGACTCCAACAGGT	0.597													9	20					0	0	0.004482	0	0		T	111782347	T	T	111782347	2	4	175	1	0	0	0	0	0	0	0	1	3909	564	20	4		4	CRYAB	11	111782347	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	18678099	111782347	23224169	95	90946											
CCDC153	283152	broad.mit.edu	37	chr11	119063944	119063944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctgcagggcatggcactggCgactcatctctggggtgggg	5	8	17	11	1	2	0	1	0	1	0	3	1	2	0	1	7	1	3	1	7	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr11:119063944C>T	uc010rze.1	-	5	354	c.266G>A	c.(265-267)CGC>CAC	p.R89H		NM_001145018	NP_001138490	Q494R4	CC153_HUMAN	coiled-coil domain containing 153	89	Potential.										0						ATGGCACTGGCGACTCATCTC	0.592													12	49					0	0	0.013537	0	0		T	119063944	T	T	119063944	3	4	175	1	0	0	0	0	1	0	0	0	2790	768	27	1	378	1	CCDC153	11	119063944	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	7281597	119063944	15942572	96	90947											
PUS3	83480	broad.mit.edu	37	chr11	125764059	125764059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaacatgtgagttttgacaGcatgattagcccacagttgt	12	12	9	8	0	0	3	0	3	0	0	0	3	0	3	1	0	3	3	1	0	2	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr11:125764059G>A	uc001qcy.2	-	4	1165	c.1067C>T	c.(1066-1068)GCT>GTT	p.A356V	HYLS1_uc009zbv.2_Intron|HYLS1_uc001qcx.3_Intron	NM_031307	NP_112597	Q9BZE2	PUS3_HUMAN	pseudouridylate synthase 3	356						nucleus	RNA binding			ovary(1)	1	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)		AGTTTTGACAGCATGATTAGC	0.428													4	72					0	0	0.009096	0	0		A	125764059	A	A	125764059	3	1	175	1	0	0	0	0	1	0	0	0	12857	971	34	2	382	2	PUS3	11	125764059	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	6700115	125764059	9242457	97	90948											
PDZRN4	29951	broad.mit.edu	37	chr12	41957359	41957359	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttgttttctagataaatgggGaagatgtccagaatcgagaa	14	12	11	4	1	1	4	0	0	1	4	3	6	2	5	1	2	0	1	1	2	6	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr12:41957359G>C	uc010skn.1	+	8	846	c.778G>C	c.(778-780)GAA>CAA	p.E260Q	PDZRN4_uc001rmq.3_Missense_Mutation_p.E201Q|PDZRN4_uc009zjz.2_Missense_Mutation_p.E199Q|PDZRN4_uc001rmr.2_Missense_Mutation_p.E86Q	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	459	PDZ 2.						ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				GATAAATGGGGAAGATGTCCA	0.418													6	67					0	0	0.001984	0	0		C	41957359	C	C	41957359	3	2	175	1	0	0	0	0	1	0	0	0	11729	1175	41	5	1478	5	PDZRN4	12	41957359	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08		41957359	91894536	98	90949											
PRPF40B	25766	broad.mit.edu	37	chr12	50036741	50036741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagcacctccacaccaaagGccgaaagcatggcaggaaag	15	2	10	14	1	0	0	0	0	0	0	1	2	1	1	5	3	2	3	5	3	3	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr12:50036741G>A	uc001rur.1	+	21	2148	c.2084G>A	c.(2083-2085)GGC>GAC	p.G695D	FMNL3_uc001ruv.1_3'UTR|FMNL3_uc001ruw.1_3'UTR|PRPF40B_uc001rup.1_Missense_Mutation_p.G716D|PRPF40B_uc001ruq.1_Missense_Mutation_p.G682D|PRPF40B_uc001rus.1_Missense_Mutation_p.G637D|FMNL3_uc001rut.1_3'UTR|FMNL3_uc001ruu.1_3'UTR	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	695					mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						CACACCAAAGGCCGAAAGCAT	0.542													8	25					0	0	0.00308	0	0		A	50036741	A	A	50036741	3	1	175	1	0	0	0	0	1	0	0	0	12594	1203	42	2	2166	2	PRPF40B	12	50036741	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	8079382	50036741	83815154	99	90950											
RDH5	5959	broad.mit.edu	37	chr12	56115030	56115030	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggttgctcagggaccGgcagagcctgcccgccagca	6	6	15	14	2	1	1	1	0	0	1	1	2	1	2	4	3	4	5	4	3	0	1	rs3138143		TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr12:56115030G>C	uc001shk.2	+	2	245	c.62G>C	c.(61-63)CGG>CCG	p.R21P	BLOC1S1_uc001shj.3_Intron|RDH5_uc010spt.1_Missense_Mutation_p.R21P|RDH5_uc010spu.1_Intron|RDH5_uc001shl.2_Missense_Mutation_p.R21P	NM_002905	NP_002896	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis and 9-cis)	21					response to stimulus|visual perception	membrane	binding|retinol dehydrogenase activity			ovary(1)	1					NADH(DB00157)|Vitamin A(DB00162)	CTCAGGGACCGGCAGAGCCTG	0.617											OREG0021907	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	144					0	0	0.00499	0	0		C	56115030	C	C	56115030	3	2	175	1	0	0	0	0	1	0	0	0	13220	1116	39	5	64	5	RDH5	12	56115030	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	6078289	56115030	77736865	100	90951											
FAM19A2	338811	broad.mit.edu	37	chr12	62147508	62147508	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctgcatatggcaccaccaTttctgttccactattgaagc	9	12	8	12	0	1	1	0	1	1	0	2	1	2	1	3	2	2	4	3	2	3	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr12:62147508T>A	uc001sqw.2	-	4	1792	c.279A>T	c.(277-279)AAA>AAT	p.K93N	FAM19A2_uc001sqv.2_RNA|FAM19A2_uc001sqx.2_Missense_Mutation_p.K93N|FAM19A2_uc001sqy.2_RNA	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine	93						cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		GGCACCACCATTTCTGTTCCA	0.383													9	90					0	0	0.006214	0	0		A	62147508	A	A	62147508	3	1	175	1	0	0	0	0	1	0	0	0	5543	1490	52	5	124	5	FAM19A2	12	62147508	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	6032478	62147508	71704387	101	90952											
DPY19L2	283417	broad.mit.edu	37	chr12	63976297	63976297	+	Missense_Mutation	SNP	A	C	C	1	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	actaacaactgcaatgtgtgAaaagccagctataaaacaca	19	7	6	9	0	0	1	0	1	0	0	0	1	0	1	1	0	6	2	1	0	8	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr12:63976297A>C	uc001srp.1	-	18	1795	c.1614T>G	c.(1612-1614)TTT>TTG	p.F538L	DPY19L2_uc010sso.1_5'UTR	NM_173812	NP_776173	Q6NUT2	D19L2_HUMAN	dpy-19-like 2	538	Helical; (Potential).				multicellular organismal development|spermatid development	integral to membrane				central_nervous_system(1)|skin(1)	2			GBM - Glioblastoma multiforme(1;2.77e-05)	GBM - Glioblastoma multiforme(28;0.044)		GCAATGTGTGAAAAGCCAGCT	0.289													4	34					0	0	0.009096	0	0		C	63976297	C	C	63976297	3	2	175	1	0	0	0	0	1	0	0	0	4747	243	9	5	682	5	DPY19L2	12	63976297	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	1828789	63976297	69875598	102	90953											
KCNC2	3747	broad.mit.edu	37	chr12	75601380	75601380	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaagagcggcccgcacacGtctgcggggcagtgcagctt	7	6	15	13	5	1	1	0	0	1	1	2	2	1	1	1	3	4	4	1	3	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr12:75601380G>A	uc001sxg.1	-	2	928	c.384C>T	c.(382-384)GAC>GAT	p.D128D	KCNC2_uc009zry.2_Silent_p.D128D|KCNC2_uc001sxe.2_Silent_p.D128D|KCNC2_uc001sxf.2_Silent_p.D128D|KCNC2_uc010stw.1_Silent_p.D128D	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	128	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						GCCCGCACACGTCTGCGGGGC	0.672													5	60					0	0	0.000602	0	0		A	75601380	A	A	75601380	2	1	175	1	0	0	0	0	0	0	0	1	8031	1136	40	1		1	KCNC2	12	75601380	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	11625083	75601380	58250515	103	90954											
GPR109B	8843	broad.mit.edu	37	chr12	123200189	123200189	+	Missense_Mutation	SNP	A	C	C	1	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	gtgacaatgtcccttcttggAatggttatttgaggttgggc	7	15	13	6	0	1	2	0	2	1	0	2	3	2	3	1	4	0	2	1	4	3	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr12:123200189A>C	uc001ucy.3	-	1	1251	c.1096T>G	c.(1096-1098)TCC>GCC	p.S366A	GPR81_uc001ucw.1_Intron	NM_006018	NP_006009	P49019	HCAR3_HUMAN	G protein-coupled receptor 109B	366	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	CCCTTCTTGGAATGGTTATTT	0.527													29	199					0	0	0.00632	0	0		C	123200189	C	C	123200189	3	2	175	1	0	0	0	0	1	0	0	0	6641	246	9	5	71	5	GPR109B	12	123200189	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	47598809	123200189	10651706	104	90955											
SACS	26278	broad.mit.edu	37	chr13	23929289	23929289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcattccataaggctgccgGgtctctccactggtccagct	6	11	9	15	1	2	0	1	0	1	0	6	0	5	0	4	3	2	2	4	3	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr13:23929289G>A	uc001uon.2	-	8	2051	c.1462C>T	c.(1462-1464)CCG>TCG	p.P488S	SACS_uc001uoo.2_Missense_Mutation_p.P341S|SACS_uc001uop.1_Missense_Mutation_p.P275S|SACS_uc001uoq.1_Missense_Mutation_p.P341S	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	488					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AAGGCTGCCGGGTCTCTCCAC	0.473													11	106					0	0	0.013537	0	0		A	23929289	A	A	23929289	3	1	175	1	0	0	0	0	1	0	0	0	13829	1232	43	4	12289	4	SACS	13	23929289	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08		23929289	91240589	105	90956											
DCLK1	9201	broad.mit.edu	37	chr13	36445395	36445396	+	Nonsense_Mutation	DNP	GG	TT	TT																															gcaggggacttgctacgcctGgacggtcctgggctcttggt																										TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr13:36445395_36445396GG>TT	uc001uvf.2	-	5	1138_1139	c.905_906CC>AA	c.(904-906)TCC>TAA	p.S302*	uc001uvi.1_Intron	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	302	Pro/Ser-rich.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		TGCTACGCCTGGACGGTCCTGG	0.52													22	181					0	0	0.004672	0	0		TT	36445396	TT	TT	36445395	4	4	175	1	0	0	0	0	0	1	0	0	4294	1335	47	5	1339	5	DCLK1	13	36445395	Nonsense_Mutation	DNP	GG	TCGA-D7-6815-01A-11D-1882-08	12516106	36445395	78724483	106	90957											
ELF1	1997	broad.mit.edu	37	chr13	41517138	41517138	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatcaggtttgtttttgtgCttcccccacaacctggacac	8	14	7	12	0	1	0	1	0	0	0	2	1	2	1	3	2	2	3	3	2	2	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr13:41517138C>T	uc001uxs.2	-	7	1129	c.756G>A	c.(754-756)AAG>AAA	p.K252K	ELF1_uc010tfc.1_Silent_p.K228K|ELF1_uc010acd.2_Silent_p.K145K	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	252	ETS.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		TGTTTTTGTGCTTCCCCCACA	0.388													49	64					0	0	0.01441	0	0		T	41517138	T	T	41517138	2	4	175	1	0	0	0	0	0	0	0	1	5061	796	28	2		2	ELF1	13	41517138	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	5071743	41517138	73652740	107	90958											
SPTB	6710	broad.mit.edu	37	chr14	65259772	65259772	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatttccatctcggccagcCacttctccttctctcccatc	5	13	4	19	1	3	0	0	0	3	0	9	0	5	0	5	1	1	1	5	1	0	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr14:65259772C>A	uc001xht.2	-	13	2663	c.2609G>T	c.(2608-2610)TGG>TTG	p.W870L	SPTB_uc001xhr.2_Missense_Mutation_p.W870L|SPTB_uc001xhs.2_Missense_Mutation_p.W870L|SPTB_uc001xhu.2_Missense_Mutation_p.W870L	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	870	Spectrin 6.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		CTCGGCCAGCCACTTCTCCTT	0.602													23	48					7.33532e-06	8.19173e-06	0.003954	1	0		A	65259772	A	A	65259772	3	1	175	1	0	0	0	0	1	0	0	0	15143	595	21	5	4538	5	SPTB	14	65259772	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08		65259772	42089768	108	90959											
SPATA7	55812	broad.mit.edu	37	chr14	88895764	88895764	+	Missense_Mutation	SNP	T	C	C	0	1	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	tagaagggcatgactcaacaTgggatgagattaaggatgat	15	9	13	4	0	1	4	1	3	0	2	1	7	1	6	0	3	1	1	0	3	4	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr14:88895764T>C	uc001xwq.2	+	8	1136	c.985T>C	c.(985-987)TGG>CGG	p.W329R	SPATA7_uc001xwr.2_Missense_Mutation_p.W297R|SPATA7_uc001xws.2_Missense_Mutation_p.W265R|SPATA7_uc001xwt.2_Missense_Mutation_p.W223R|SPATA7_uc001xwu.2_5'UTR	NM_018418	NP_060888	Q9P0W8	SPAT7_HUMAN	spermatogenesis-associated protein 7 isoform a	329					response to stimulus|visual perception					ovary(1)	1						TGACTCAACATGGGATGAGAT	0.358													19	76					0	0	0.012319	0	0		C	88895764	C	C	88895764	3	2	175	1	0	0	0	0	1	0	0	0	15039	1464	51	3	1015	3	SPATA7	14	88895764	Missense_Mutation	SNP	T	TCGA-D7-6815-01A-11D-1882-08	23635992	88895764	18453776	109	90960											
TECPR2	9895	broad.mit.edu	37	chr14	102931611	102931611	+	Silent	SNP	T	A	A	0	1	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	cttccagcctggataatgatTgagccacctgtccaggtaag	10	10	10	11	0	0	2	0	2	0	0	2	3	2	3	5	2	2	1	5	2	2	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr14:102931611T>A	uc001ylw.1	+	17	3922	c.3774T>A	c.(3772-3774)ATT>ATA	p.I1258I	TECPR2_uc010awl.2_Silent_p.I1258I|TECPR2_uc010txx.1_Silent_p.I421I	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1258	TECPR 4.						protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						GGATAATGATTGAGCCACCTG	0.502													13	57					0	0	0.00245	0	0		A	102931611	A	A	102931611	2	1	175	1	0	0	0	0	0	0	0	1	15769	1800	63	5		5	TECPR2	14	102931611	Silent	SNP	T	TCGA-D7-6815-01A-11D-1882-08	14035847	102931611	4417929	110	90961											
TNFAIP2	7127	broad.mit.edu	37	chr14	103600064	103600064	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctccctacgctggccGagatcattcgcctgcaggac	6	9	10	16	3	2	1	1	0	1	1	4	3	2	2	3	2	3	3	3	2	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr14:103600064G>T	uc001ymm.1	+	10	1878	c.1747G>T	c.(1747-1749)GAG>TAG	p.E583*	TNFAIP2_uc010awo.1_Nonsense_Mutation_p.E243*|TNFAIP2_uc010txz.1_Nonsense_Mutation_p.E252*|TNFAIP2_uc010tya.1_Nonsense_Mutation_p.E66*	NM_006291	NP_006282	Q03169	TNAP2_HUMAN	tumor necrosis factor, alpha-induced protein 2	583					angiogenesis|cell differentiation	extracellular space				central_nervous_system(1)	1		Melanoma(154;0.155)	Epithelial(46;0.191)			TACGCTGGCCGAGATCATTCG	0.647													13	18					3.27435e-08	3.69414e-08	0.00245	1	0		T	103600064	T	T	103600064	4	4	175	1	0	0	0	0	0	1	0	0	16298	1059	37	5	1785	5	TNFAIP2	14	103600064	Nonsense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	668453	103600064	3749476	111	90962											
KIF26A	26153	broad.mit.edu	37	chr14	104639830	104639831	+	In_Frame_Ins	INS	-	GAC	GAC																															gtctaccagtaccgcatggaINSgaagtgcggccggggaggaa																										TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr14:104639830_104639831insGAC	uc001yos.3	+	9	1847_1848	c.1847_1848insGAC	c.(1846-1848)GAG>GAGACG	p.616_617insT		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	616_617	Kinesin-motor.				blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		TACCGCATGGAGAAGTGCGGCC	0.688													8	15	---	---	---	---						.	GAC	104639831	GAC	GAC	104639830	7	5	175	1	0	1	1	0	0	0	0	0	8310	304	11	0	1881	0	KIF26A	14	104639830	In_Frame_Ins	INS	-	TCGA-D7-6815-01A-11D-1882-08	1039766	104639830	2709710	112	90963											
LCMT2	9836	broad.mit.edu	37	chr15	43622421	43622422	+	Missense_Mutation	DNP	GC	AA	AA																															tagagcgagtcgaagccagcGccgagagacaagatctgcgc																										TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr15:43622421_43622422GC>AA	uc001zrg.2	-	1	470_471	c.266_267GC>TT	c.(265-267)GGC>GTT	p.G89V	LCMT2_uc010udn.1_Intron|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	89		S-adenosyl-L-methionine; via carbonyl oxygen (By similarity).			tRNA processing		methyltransferase activity|protein binding				0		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)	CGAAGCCAGCGCCGAGAGACAA	0.658													26	28					0	0	0.004672	0	0		AA	43622422	AA	AA	43622421	3	1	175	1	0	0	0	0	1	0	0	0	8695	1074	38	1	1797	1	LCMT2	15	43622421	Missense_Mutation	DNP	GC	TCGA-D7-6815-01A-11D-1882-08		43622421	58908971	113	90964											
ACAN	176	broad.mit.edu	37	chr15	89382194	89382194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggaagtccagagcctgcGctccaatgactctggggtct	7	10	12	12	1	2	2	0	1	2	1	4	3	4	3	3	3	2	1	3	3	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr15:89382194G>A	uc010upo.1	+	3	745	c.371G>A	c.(370-372)CGC>CAC	p.R124H	ACAN_uc002bmx.2_Missense_Mutation_p.R124H|ACAN_uc010upp.1_Missense_Mutation_p.R124H|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	124					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CAGAGCCTGCGCTCCAATGAC	0.622													25	176					0	0	0.003954	0	0		A	89382194	A	A	89382194	3	1	175	1	0	0	0	0	1	0	0	0	117	1087	38	1	377	1	ACAN	15	89382194	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	45759773	89382194	13149198	114	90965											
TPSD1	23430	broad.mit.edu	37	chr16	1306318	1306318	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagatgctgagcctgctgCtgctggcgctgcccgtcctg	3	9	13	16	2	0	2	0	1	0	1	1	2	1	2	4	1	6	5	4	1	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:1306318C>T	uc002clb.1	+	1	46	c.37C>T	c.(37-39)CTG>TTG	p.L13L	TPSD1_uc010brm.1_5'Flank	NM_012217	NP_036349	Q9BZJ3	TRYD_HUMAN	tryptase delta 1 precursor	13					proteolysis	extracellular region	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				GAGCCTGCTGCTGCTGGCGCT	0.687													8	97					0	0	0.004482	0	0		T	1306318	T	T	1306318	2	4	175	1	0	0	0	0	0	0	0	1	16451	796	28	2		2	TPSD1	16	1306318	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08		1306318	89048435	115	90966											
BAIAP3	8938	broad.mit.edu	37	chr16	1398100	1398100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcctctgtccgcagttcCgtgcctgccgaggcgtgccg	2	9	14	16	5	1	0	0	0	1	0	3	1	3	0	6	2	3	2	6	2	0	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:1398100C>T	uc002clk.1	+	33	3258	c.3258C>T	c.(3256-3258)TCC>TCT	p.S1086S	BAIAP3_uc002clj.2_Silent_p.S1068S|BAIAP3_uc010uuz.1_Silent_p.S1051S|BAIAP3_uc010uva.1_Silent_p.S1023S|BAIAP3_uc010uvc.1_Silent_p.S1015S	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	1086	C2 2.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				TCCGCAGTTCCGTGCCTGCCG	0.597													18	40					0	0	0.010504	0	0		T	1398100	T	T	1398100	2	4	175	1	0	0	0	0	0	0	0	1	1305	639	23	1		1	BAIAP3	16	1398100	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	91782	1398100	88956653	116	90967											
ZSCAN10	84891	broad.mit.edu	37	chr16	3139286	3139286	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	cgggggctcggcctgctcctGcccgggctccgcatgggtag	2	7	17	15	4	0	0	0	0	0	0	3	0	2	0	4	5	2	5	4	5	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:3139286G>A	uc002ctv.1	-	5	2072	c.1984C>T	c.(1984-1986)CAG>TAG	p.Q662*	ZSCAN10_uc002cty.1_Nonsense_Mutation_p.Q323*|ZSCAN10_uc002ctw.1_Nonsense_Mutation_p.Q580*|ZSCAN10_uc002ctx.1_Nonsense_Mutation_p.Q590*	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	662					negative regulation of transcription, DNA-dependent|viral reproduction	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						GCCTGCTCCTGCCCGGGCTCC	0.711													6	17					0	0	0.001168	0	0		A	3139286	A	A	3139286	4	1	175	1	0	0	0	0	0	1	0	0	18252	1328	46	2	197	2	ZSCAN10	16	3139286	Nonsense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	1741186	3139286	87215467	117	90968											
NLRC3	197358	broad.mit.edu	37	chr16	3613636	3613636	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctctgcaggaagcagctgcaCggggcgccctgcagcagagc	8	4	15	14	2	1	1	0	0	1	1	1	2	1	2	1	3	7	6	1	3	1	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:3613636C>T	uc010btn.2	-	5	1713	c.1302G>A	c.(1300-1302)CCG>CCA	p.P434P		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	434	NACHT.				I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AGCAGCTGCACGGGGCGCCCT	0.577													12	23					0	0	0.001855	0	0		T	3613636	T	T	3613636	2	4	175	1	0	0	0	0	0	0	0	1	10487	523	19	1		1	NLRC3	16	3613636	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	474350	3613636	86741117	118	90969											
CREBBP	1387	broad.mit.edu	37	chr16	3779597	3779597	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgatgagctgcttgcacacCgggcagcccccgttggtctt	5	9	13	14	3	1	1	0	1	1	0	1	2	1	1	3	2	4	5	3	2	0	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:3779597C>T	uc002cvv.2	-	31	5655	c.5451G>A	c.(5449-5451)CCG>CCA	p.P1817P	CREBBP_uc002cvw.2_Silent_p.P1779P	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1817	TAZ-type 2.|Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GCTTGCACACCGGGCAGCCCC	0.602			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				39	142					0	0	0.007835	0	0		T	3779597	T	T	3779597	2	4	175	1	0	0	0	0	0	0	0	1	3864	639	23	1		1	CREBBP	16	3779597	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	165961	3779597	86575156	119	90970											
ZNF500	26048	broad.mit.edu	37	chr16	4802675	4802675	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcccacactcggggcacGggtagggcttctcgcctgtg	4	9	14	14	3	1	0	0	0	1	0	4	0	2	0	2	4	0	4	2	4	1	3	rs143815276		TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:4802675G>A	uc002cxp.1	-	6	1392	c.1145C>T	c.(1144-1146)CCG>CTG	p.P382L	ZNF500_uc002cxo.1_Missense_Mutation_p.P174L|ZNF500_uc010uxt.1_Missense_Mutation_p.P382L	NM_021646	NP_067678	O60304	ZN500_HUMAN	zinc finger protein 500	382	C2H2-type 3.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CTCGGGGCACGGGTAGGGCTT	0.657													12	27					0	0	0.013537	0	0		A	4802675	A	A	4802675	3	1	175	1	0	0	0	0	1	0	0	0	17973	1116	39	1	301	1	ZNF500	16	4802675	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	1023078	4802675	85552078	120	90971											
ARHGAP17	55114	broad.mit.edu	37	chr16	24942343	24942343	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aggggcggagtactggggggCgttggagtctggggaggggt	5	7	25	4	2	1	0	0	0	1	0	1	3	1	3	0	11	1	2	0	11	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:24942343C>T	uc002dnb.2	-	19	2370	c.2277G>A	c.(2275-2277)ACG>ACA	p.T759T	ARHGAP17_uc002dmx.2_Silent_p.T21T|ARHGAP17_uc002dmw.2_Silent_p.T21T|ARHGAP17_uc002dmy.2_Silent_p.T204T|ARHGAP17_uc002dmz.2_Silent_p.T283T|ARHGAP17_uc002dna.2_Silent_p.T486T|ARHGAP17_uc002dnc.2_Silent_p.T681T|ARHGAP17_uc010vcf.1_Silent_p.T502T|ARHGAP17_uc002dne.1_Silent_p.T21T	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	759	SH3-binding (Potential).|Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		TACTGGGGGGCGTTGGAGTCT	0.607													52	146					0	0	0.01441	0	0		T	24942343	T	T	24942343	2	4	175	1	0	0	0	0	0	0	0	1	867	755	27	1		1	ARHGAP17	16	24942343	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	20139668	24942343	65412410	121	90972											
CCDC101	112869	broad.mit.edu	37	chr16	28602110	28602110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagacacaccctgagcCggcgccgtgtcatcccgctg	7	5	12	17	4	1	2	1	1	0	1	2	3	2	2	5	2	1	1	5	2	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:28602110C>T	uc002dqf.2	+	9	804	c.619C>T	c.(619-621)CGG>TGG	p.R207W	uc010vct.1_Intron	NM_138414	NP_612423	Q96ES7	SGF29_HUMAN	coiled-coil domain containing 101	207	SGF29 C-terminal.				establishment of protein localization to chromatin|histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ada2/Gcn5/Ada3 transcription activator complex|SAGA-type complex	methylated histone residue binding			central_nervous_system(1)	1						CACCCTGAGCCGGCGCCGTGT	0.652													42	47					0	0	0.00874	0	0		T	28602110	T	T	28602110	3	4	175	1	0	0	0	0	1	0	0	0	2738	643	23	1	649	1	CCDC101	16	28602110	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	3659767	28602110	61752643	122	90973											
ITGAD	3681	broad.mit.edu	37	chr16	31435274	31435274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcagtttcggctgggtcCgcgaggtgtgtgggggcagc	4	10	18	9	3	1	0	1	0	1	0	4	1	2	0	1	5	1	3	1	5	0	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:31435274C>T	uc002ebv.1	+	27	3203	c.3154C>T	c.(3154-3156)CGC>TGC	p.R1052C	ITGAD_uc010cap.1_Missense_Mutation_p.R1053C	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	1052	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						CGGCTGGGTCCGCGAGGTGTG	0.642													8	29					0	0	0.00308	0	0		T	31435274	T	T	31435274	3	4	175	1	0	0	0	0	1	0	0	0	7900	652	23	1	3260	1	ITGAD	16	31435274	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	2833164	31435274	58919479	123	90974											
CDH16	1014	broad.mit.edu	37	chr16	66946243	66946243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggcaaaatccatgaggcGgaaggcgggctcgaggtcag	12	5	16	8	3	1	1	1	1	0	0	3	3	2	2	1	6	0	2	1	6	4	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:66946243G>A	uc002eql.2	-	12	1523	c.1450C>T	c.(1450-1452)CGC>TGC	p.R484C	CDH16_uc010cdy.2_Missense_Mutation_p.R484C|CDH16_uc002eqm.2_Missense_Mutation_p.R387C	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	484	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		TCCATGAGGCGGAAGGCGGGC	0.572													18	117					0	0	0.00499	0	0		A	66946243	A	A	66946243	3	1	175	1	0	0	0	0	1	0	0	0	3104	1116	39	1	1067	1	CDH16	16	66946243	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	35510969	66946243	23408510	124	90975											
PLEKHG4	25894	broad.mit.edu	37	chr16	67321045	67321045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggcctggacagctgacatctCccacctgctttggaggcagg	7	8	13	13	0	1	1	0	1	1	0	2	3	1	3	3	5	2	3	3	5	0	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:67321045C>T	uc002eso.3	+	17	5603	c.3068C>T	c.(3067-3069)TCC>TTC	p.S1023F	PLEKHG4_uc002esp.3_Missense_Mutation_p.S830F|PLEKHG4_uc002esq.3_Missense_Mutation_p.S1023F|PLEKHG4_uc010cef.2_Missense_Mutation_p.S1023F|PLEKHG4_uc002ess.3_Missense_Mutation_p.S1023F|PLEKHG4_uc010ceg.2_Missense_Mutation_p.S942F	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	1023	PH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GCTGACATCTCCCACCTGCTT	0.622													16	51					0	0	0.007413	0	0		T	67321045	T	T	67321045	3	4	175	1	0	0	0	0	1	0	0	0	12090	855	30	4	3134	4	PLEKHG4	16	67321045	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	374802	67321045	23033708	125	90976											
ZFP1	162239	broad.mit.edu	37	chr16	75203864	75203865	+	Frame_Shift_Ins	INS	-	CACAG	CACAG																															aaagtttgaactcaccacacINSaccagagaattcatacagga																										TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:75203864_75203865insCACAG	uc002fdo.2	+	4	1020_1021	c.856_857insCACAG	c.(856-858)CACfs	p.H286fs	ZFP1_uc002fdp.2_Frame_Shift_Ins_p.H231fs|ZFP1_uc010cgt.2_Frame_Shift_Ins_p.H253fs|ZFP1_uc010cgs.2_Frame_Shift_Ins_p.H231fs|ZFP1_uc002fdq.2_Frame_Shift_Ins_p.H286fs	NM_153688	NP_710155	Q6P2D0	ZFP1_HUMAN	zinc finger protein 1 homolog	286	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						ACTCACCACACACCAGAGAATT	0.421													23	34	---	---	---	---						.	CACAG	75203865	CACAG	CACAG	75203864	7	5	175	1	0	1	1	0	0	0	0	0	17661	478	17	0	866	0	ZFP1	16	75203864	Frame_Shift_Ins	INS	-	TCGA-D7-6815-01A-11D-1882-08	7882819	75203864	15150889	126	90977											
FAM92B	339145	broad.mit.edu	37	chr16	85143910	85143910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcagctcggggttctcGgagttggcaaagtcgatgag	7	8	16	10	4	1	1	0	1	1	0	4	3	1	2	1	4	1	5	1	4	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:85143910G>A	uc010vok.1	-	2	333	c.177C>T	c.(175-177)TCC>TCT	p.S59S		NM_198491	NP_940893	Q6ZTR7	FA92B_HUMAN	hypothetical protein LOC339145	59										central_nervous_system(1)	1						CGGGGTTCTCGGAGTTGGCAA	0.677													25	74					0	0	0.00632	0	0		A	85143910	A	A	85143910	2	1	175	1	0	0	0	0	0	0	0	1	5667	1103	39	1		1	FAM92B	16	85143910	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	9940046	85143910	5210843	127	90978											
ZC3H18	124245	broad.mit.edu	37	chr16	88643772	88643772	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcctaaatcccaagacCaggactcagaggtgaatgag	14	6	12	9	0	1	5	1	3	0	2	2	6	2	6	3	2	1	0	3	2	4	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr16:88643772C>T	uc002fky.2	+	2	441	c.241C>T	c.(241-243)CAG>TAG	p.Q81*	ZC3H18_uc010voy.1_Nonsense_Mutation_p.Q81*|ZC3H18_uc010voz.1_Nonsense_Mutation_p.Q81*|ZC3H18_uc010vpa.1_Nonsense_Mutation_p.Q81*	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	81						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		ATCCCAAGACCAGGACTCAGA	0.627													12	23					0	0	0.013537	0	0		T	88643772	T	T	88643772	4	4	175	1	0	0	0	0	0	1	0	0	17593	595	21	4	243	4	ZC3H18	16	88643772	Nonsense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	3499862	88643772	1710981	128	90979											
TSR1	55720	broad.mit.edu	37	chr17	2236864	2236864	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tactgaccctttgcctcgctCagctcctcctcagtgggcca	5	11	8	17	1	2	1	2	1	0	0	5	1	4	1	5	1	3	2	5	1	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:2236864C>T	uc002fuj.2	-	6	2085	c.1128G>A	c.(1126-1128)CTG>CTA	p.L376L		NM_018128	NP_060598	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation	376					ribosome assembly	nucleolus	protein binding			ovary(1)	1						TTGCCTCGCTCAGCTCCTCCT	0.493													27	101					0	0	0.009535	0	0		T	2236864	T	T	2236864	2	4	175	1	0	0	0	0	0	0	0	1	16690	813	29	4		4	TSR1	17	2236864	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08		2236864	78958346	129	90980											
TP53	7157	broad.mit.edu	37	chr17	7578406	7578406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctcatggtgggggcagCgcctcacaacctccgtcatg	7	7	13	14	3	3	0	3	0	0	0	4	0	4	0	3	3	3	2	3	3	1	0	rs28934578		TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:7578406C>T	uc002gim.2	-	5	718	c.524G>A	c.(523-525)CGC>CAC	p.R175H	TP53_uc002gig.1_Missense_Mutation_p.R175H|TP53_uc002gih.2_Missense_Mutation_p.R175H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43H|TP53_uc010cng.1_Missense_Mutation_p.R43H|TP53_uc002gii.1_Missense_Mutation_p.R43H|TP53_uc010cnh.1_Missense_Mutation_p.R175H|TP53_uc010cni.1_Missense_Mutation_p.R175H|TP53_uc002gij.2_Missense_Mutation_p.R175H|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82H|TP53_uc002gio.2_Missense_Mutation_p.R43H|TP53_uc010vug.1_Missense_Mutation_p.R136H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(729)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R43H(5)|p.R82H(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(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.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTGGGGGCAGCGCCTCACAAC	0.652	R175H(KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R175H(HCC1395_BREAST)|R175H(KLE_ENDOMETRIUM)|R175H(NCIH196_LUNG)|R175H(AU565_BREAST)|R175H(TYKNU_OVARY)|R175H(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|R175H(SKUT1_SOFT_TISSUE)|R175H(CAL33_UPPER_AERODIGESTIVE_TRACT)|R175H(LS123_LARGE_INTESTINE)|R175H(SKBR3_BREAST)|R175H(RKN_OVARY)|R175H(HUCCT1_BILIARY_TRACT)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			54	9					0	0	0.01441	0	0		T	7578406	T	T	7578406	3	4	175	1	0	0	0	0	1	0	0	0	16407	768	27	1	774	1	TP53	17	7578406	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	5341542	7578406	73616804	130	90981											
TAOK1	57551	broad.mit.edu	37	chr17	27807468	27807468	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctctgcttccatggcatcaCctgccaattcctttgtggga	6	13	9	13	0	2	0	1	0	1	0	4	1	4	1	4	2	2	3	4	2	1	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:27807468C>A	uc002hdz.1	+	7	726	c.532C>A	c.(532-534)CCT>ACT	p.P178T	TAOK1_uc010wbe.1_Missense_Mutation_p.P178T|TAOK1_uc010wbf.1_Missense_Mutation_p.P178T|TAOK1_uc002heb.1_Missense_Mutation_p.P4T	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	178	Protein kinase.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			CATGGCATCACCTGCCAATTC	0.418													22	28					1.64293e-13	1.90234e-13	0.00333	1	0		A	27807468	A	A	27807468	3	1	175	1	0	0	0	0	1	0	0	0	15572	507	18	5	554	5	TAOK1	17	27807468	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	20229062	27807468	53387742	131	90982											
MRM1	79922	broad.mit.edu	37	chr17	34958585	34958585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgtgccgctaccaggtcCaccagggtgtctgcatggag	8	8	13	12	1	1	0	0	0	1	0	2	1	2	1	4	3	3	2	4	3	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:34958585C>T	uc002hne.2	+	1	561	c.346C>T	c.(346-348)CAC>TAC	p.H116Y	MRM1_uc002hnf.2_5'UTR	NM_024864	NP_079140	Q6IN84	MRM1_HUMAN	mitochondrial rRNA methyltransferase 1 homolog	116					RNA processing	mitochondrion	RNA binding|RNA methyltransferase activity				0		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		CTACCAGGTCCACCAGGGTGT	0.697													7	72					0	0	0.00308	0	0		T	34958585	T	T	34958585	3	4	175	1	0	0	0	0	1	0	0	0	9789	594	21	4	348	4	MRM1	17	34958585	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	7151117	34958585	46236625	132	90983											
SRCIN1	80725	broad.mit.edu	37	chr17	36708247	36708247	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cagctcatgcaggttcagcgGggggctggggggtggcattt	5	9	19	8	1	2	0	2	0	0	0	2	0	2	0	0	8	3	5	0	8	0	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:36708247G>T	uc002hqd.2	-	14	2827	c.2602C>A	c.(2602-2604)CCG>ACG	p.P868T	SRCIN1_uc002hqf.1_Missense_Mutation_p.P740T|SRCIN1_uc002hqe.2_Missense_Mutation_p.P722T|SRCIN1_uc002hqg.2_Missense_Mutation_p.P174T	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	740					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						AGGTTCAGCGGGGGGCTGGGG	0.617													16	616					1.33834e-09	1.5177e-09	0.007413	1	0		T	36708247	T	T	36708247	3	4	175	1	0	0	0	0	1	0	0	0	15161	1232	43	5	973	5	SRCIN1	17	36708247	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	1749662	36708247	44486963	133	90984											
SRCIN1	80725	broad.mit.edu	37	chr17	36719105	36719105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgagccagggaaggcagcGtagaggggctcctttctgta	8	9	16	8	1	1	2	0	1	1	1	2	3	2	3	2	4	2	4	2	4	3	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:36719105G>A	uc002hqd.2	-	6	1017	c.792C>T	c.(790-792)TAC>TAT	p.Y264Y	SRCIN1_uc002hqf.1_Silent_p.Y136Y|SRCIN1_uc002hqe.2_Silent_p.Y118Y|SRCIN1_uc002hqh.1_Silent_p.Y324Y	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	136					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						GGAAGGCAGCGTAGAGGGGCT	0.642													8	256					0	0	0.006214	0	0		A	36719105	A	A	36719105	2	1	175	1	0	0	0	0	0	0	0	1	15161	1140	40	1		1	SRCIN1	17	36719105	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	10858	36719105	44476105	134	90985											
MLLT6	4302	broad.mit.edu	37	chr17	36874191	36874191	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atcccctcctctcccaagctGagagcagccacacaggtatg	10	7	8	16	0	1	1	0	1	1	1	4	2	3	1	5	1	3	3	5	1	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:36874191G>C	uc002hqi.3	+	12	1940	c.1927G>C	c.(1927-1929)GAG>CAG	p.E643Q	MLLT6_uc002hqj.2_Missense_Mutation_p.E78Q|MLLT6_uc002hqk.3_5'Flank	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	643					regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					CTCCCAAGCTGAGAGCAGCCA	0.542			T	MLL	AL								32	809					0	0	0.004289	0	0		C	36874191	C	C	36874191	3	2	175	1	0	0	0	0	1	0	0	0	9648	1291	45	5	1973	5	MLLT6	17	36874191	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	155086	36874191	44321019	135	90986											
PCGF2	7703	broad.mit.edu	37	chr17	36896639	36896639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagctctgtgattttgatcCgtgtagtccgatgcatgatt	7	16	10	8	2	2	3	1	3	1	0	4	4	4	3	2	0	2	3	2	0	1	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:36896639C>T	uc002hqp.1	-	3	260	c.17G>A	c.(16-18)CGG>CAG	p.R6Q	PCGF2_uc002hqn.1_Missense_Mutation_p.R6Q|PCGF2_uc002hqo.1_Missense_Mutation_p.R6Q|PCGF2_uc010cvo.1_Intron|PCGF2_uc002hqq.1_Missense_Mutation_p.R6Q	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110	6					negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					GATTTTGATCCGTGTAGTCCG	0.562													14	616					0	0	0.006122	0	0		T	36896639	T	T	36896639	3	4	175	1	0	0	0	0	1	0	0	0	11594	652	23	1	1053	1	PCGF2	17	36896639	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	22448	36896639	44298571	136	90987											
CA4	762	broad.mit.edu	37	chr17	58235657	58235657	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctcagagatgagcactacGatggcagagagcagcctgtt	12	8	12	9	1	1	3	1	1	1	2	2	6	1	3	1	1	4	4	1	1	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:58235657G>A	uc002iym.3	+	7	688	c.594G>A	c.(592-594)ACG>ACA	p.T198T	CA4_uc010wou.1_RNA	NM_000717	NP_000708	P22748	CAH4_HUMAN	carbonic anhydrase IV precursor	198					bicarbonate transport|one-carbon metabolic process	anchored to external side of plasma membrane|apical plasma membrane|brush border membrane|ER-Golgi intermediate compartment|membrane fraction|perinuclear region of cytoplasm|rough endoplasmic reticulum|secretory granule membrane|trans-Golgi network|transport vesicle membrane	carbonate dehydratase activity|protein binding|zinc ion binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.83e-12)|all cancers(12;6.83e-11)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Topiramate(DB00273)|Trichlormethiazide(DB01021)	TGAGCACTACGATGGCAGAGA	0.602													20	32					0	0	0.008871	0	0		A	58235657	A	A	58235657	2	1	175	1	0	0	0	0	0	0	0	1	2521	1045	37	1		1	CA4	17	58235657	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	21339018	58235657	22959553	137	90988											
KCNH6	81033	broad.mit.edu	37	chr17	61613084	61613084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgctgcggctggtgcgcGtagcacggaagctggaccgc	5	6	18	12	5	0	0	0	0	0	0	0	2	0	2	1	5	5	6	1	5	2	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:61613084G>A	uc002jay.2	+	6	1236	c.1156G>A	c.(1156-1158)GTA>ATA	p.V386I	KCNH6_uc002jax.1_Missense_Mutation_p.V386I|KCNH6_uc010wpl.1_Missense_Mutation_p.V263I|KCNH6_uc010wpm.1_Missense_Mutation_p.V386I|KCNH6_uc002jaz.1_Missense_Mutation_p.V386I	NM_030779	NP_110406	Q9H252	KCNH6_HUMAN	potassium voltage-gated channel, subfamily H,	386	Helical; Voltage-sensor; Name=Segment S4; (Potential).				regulation of transcription, DNA-dependent|signal transduction					skin(1)	1					Ibutilide(DB00308)	GCTGGTGCGCGTAGCACGGAA	0.617													29	42					0	0	0.007291	0	0		A	61613084	A	A	61613084	3	1	175	1	0	0	0	0	1	0	0	0	8052	1145	40	1	1178	1	KCNH6	17	61613084	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	3377427	61613084	19582126	138	90989											
GH2	2689	broad.mit.edu	37	chr17	61958860	61958860	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagagcaggccaaaagccagGagcagggacgtccgggagcc	12	1	16	12	2	0	1	0	0	0	1	1	4	1	4	4	4	4	2	4	4	2	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:61958860G>A	uc002jco.1	-	2	92	c.30C>T	c.(28-30)CTC>CTT	p.L10L	GH2_uc002jcj.2_Silent_p.L10L|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Silent_p.L10L|GH2_uc002jcm.1_Silent_p.L10L|GH2_uc002jcn.1_Silent_p.L10L	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	10						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						CAAAAGCCAGGAGCAGGGACG	0.607													50	140					0	0	0.01441	0	0		A	61958860	A	A	61958860	2	1	175	1	0	0	0	0	0	0	0	1	6383	1161	41	4		4	GH2	17	61958860	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	345776	61958860	19236350	139	90990											
SMURF2	64750	broad.mit.edu	37	chr17	62589599	62589599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgatggcattggaaagaagaCgaacacaaccgagaaatcca	18	5	10	8	2	0	4	0	1	0	3	1	7	1	5	2	2	2	1	2	2	5	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:62589599C>T	uc002jep.1	-	4	681	c.293G>A	c.(292-294)CGT>CAT	p.R98H	SMURF2_uc002jeq.1_5'UTR|SMURF2_uc002jer.1_5'UTR	NM_022739	NP_073576	Q9HAU4	SMUF2_HUMAN	SMAD specific E3 ubiquitin protein ligase 2	98	C2.				BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|membrane raft|nucleus|plasma membrane|ubiquitin ligase complex	identical protein binding|SMAD binding|ubiquitin-protein ligase activity			skin(3)|lung(1)	4	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;9.88e-12)			GGAAAGAAGACGAACACAACC	0.343													5	99					0	0	0.000602	0	0		T	62589599	T	T	62589599	3	4	175	1	0	0	0	0	1	0	0	0	14845	536	19	1	2017	1	SMURF2	17	62589599	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	630739	62589599	18605611	140	90991											
EXOC7	23265	broad.mit.edu	37	chr17	74080608	74080608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgagcccaccttgactcccGgctggaacacaggtagattc	9	9	10	13	1	0	3	0	2	0	1	2	4	1	4	3	3	2	2	3	3	2	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr17:74080608G>A	uc002jqs.2	-	17	2014	c.1919C>T	c.(1918-1920)CCG>CTG	p.P640L	EXOC7_uc002jqp.1_Missense_Mutation_p.P26L|EXOC7_uc010dgv.1_Missense_Mutation_p.P514L|EXOC7_uc002jqq.2_Missense_Mutation_p.P589L|EXOC7_uc010wsw.1_Missense_Mutation_p.P612L|EXOC7_uc010wsx.1_Missense_Mutation_p.P581L|EXOC7_uc002jqr.2_Missense_Mutation_p.P558L|EXOC7_uc010wsv.1_Missense_Mutation_p.P561L	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4	640					exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			CTTGACTCCCGGCTGGAACAC	0.542													12	66					0	0	0.001855	0	0		A	74080608	A	A	74080608	3	1	175	1	0	0	0	0	1	0	0	0	5318	1116	39	1	304	1	EXOC7	17	74080608	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	11491009	74080608	7114602	141	90992											
TCEB3C	162699	broad.mit.edu	37	chr18	44554665	44554665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgttttcgggttttgtccgCgggcgccgcgtgccggttgc	0	13	16	12	7	0	0	0	0	0	0	2	0	1	0	3	3	2	3	3	3	0	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr18:44554665C>T	uc010xdb.1	-	1	1785	c.1549G>A	c.(1549-1551)GCG>ACG	p.A517T	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_145653	NP_663628	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	517					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						GTTTTGTccgcgggcgccgcg	0.368													10	402					0	0	0.014323	0	0		T	44554665	T	T	44554665	3	4	175	1	0	0	0	0	1	0	0	0	15708	768	27	1	1738	1	TCEB3C	18	44554665	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08		44554665	33522583	142	90993											
MAPK4	5596	broad.mit.edu	37	chr18	48255791	48255791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggacaagctgctgtggcGcgacaacaagccgcaccact	10	5	11	15	3	0	0	0	0	0	0	0	2	0	1	3	2	4	3	3	2	3	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr18:48255791G>A	uc002lev.2	+	6	2331	c.1331G>A	c.(1330-1332)CGC>CAC	p.R444H	MAPK4_uc010xdm.1_Missense_Mutation_p.R233H|MAPK4_uc010doz.2_3'UTR	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	444					cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CTGCTGTGGCGCGACAACAAG	0.697													5	0					0	0	0.000602	0	0		A	48255791	A	A	48255791	3	1	175	1	0	0	0	0	1	0	0	0	9298	1087	38	1	1349	1	MAPK4	18	48255791	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	3701126	48255791	29821457	143	90994											
SMAD4	4089	broad.mit.edu	37	chr18	48593481	48593482	+	Frame_Shift_Ins	INS	-	T	T																															cacgcggtctttgtacagagINSttactacttagacagagaag																										TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr18:48593481_48593482insT	uc010xdp.1	+	10	1770_1771	c.1232_1233insT	c.(1231-1233)AGTfs	p.S411fs	SMAD4_uc002lfb.3_Frame_Shift_Ins_p.S256fs	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	411	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TTTGTACAGAGTTACTACTTAG	0.426									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				24	29	---	---	---	---						.	T	48593482	T	T	48593481	7	5	175	1	0	1	1	0	0	0	0	0	14785	1029	36	0	1266	0	SMAD4	18	48593481	Frame_Shift_Ins	INS	-	TCGA-D7-6815-01A-11D-1882-08	337690	48593481	29483767	144	90995											
SMAD4	4089	broad.mit.edu	37	chr18	48604674	48604674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatgaccttcgtcgcttatGcatactcaggatgagttttg	8	15	10	8	2	1	3	1	3	0	0	3	4	1	4	1	1	2	3	1	1	2	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr18:48604674G>A	uc010xdp.1	+	12	2034	c.1496G>A	c.(1495-1497)TGC>TAC	p.C499Y	SMAD4_uc002lfb.3_Missense_Mutation_p.C344Y	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	499	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.C499Y(2)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		CGTCGCTTATGCATACTCAGG	0.478									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				15	49					0	0	0.007413	0	0		A	48604674	A	A	48604674	3	1	175	1	0	0	0	0	1	0	0	0	14785	1319	46	2	1538	2	SMAD4	18	48604674	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	11193	48604674	29472574	145	90996											
SERPINB4	6318	broad.mit.edu	37	chr18	61309051	61309051	+	Silent	SNP	T	C	C	0	1	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	ttggcgatcttcagctcataTgcatcagtggatttgttgaa	9	15	10	7	1	4	1	3	1	1	0	4	3	4	2	0	2	2	3	0	2	2	5			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr18:61309051T>C	uc002ljf.2	-	4	380	c.294A>G	c.(292-294)GCA>GCG	p.A98A	SERPINB4_uc002lje.2_Silent_p.A98A|SERPINB4_uc002ljg.2_Intron	NM_002974	NP_002965	P48594	SPB4_HUMAN	serine (or cysteine) proteinase inhibitor, clade	98					immune response|regulation of proteolysis	cytoplasm|extracellular region	protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|lung(1)	3						TCAGCTCATATGCATCAGTGG	0.398													16	75					0	0	0.006122	0	0		C	61309051	C	C	61309051	2	2	175	1	0	0	0	0	0	0	0	1	14128	1451	51	3		3	SERPINB4	18	61309051	Silent	SNP	T	TCGA-D7-6815-01A-11D-1882-08	12704377	61309051	16768197	146	90997											
SAFB2	9667	broad.mit.edu	37	chr19	5622607	5622621	+	In_Frame_Del	DEL	CGCCCGCAGATCGAT	-	-																															aggttccgcttcttcagctcCgcccgcagatcgatcacccg																										TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr19:5622607_5622621delCGCCCGCAGATCGAT	uc002mcd.2	-	1	318_332	c.106_120delATCGATCTGCGGGCG	c.(106-120)ATCGATCTGCGGGCGdel	p.IDLRA36del	SAFB_uc010xiq.1_5'Flank|SAFB_uc002mcf.2_5'Flank|SAFB_uc002mcg.2_5'Flank|SAFB_uc002mce.3_5'Flank|SAFB_uc010xir.1_5'Flank|SAFB_uc010xis.1_5'Flank|SAFB_uc010xit.1_5'Flank|SAFB_uc010xiu.1_5'Flank|SAFB2_uc010xio.1_In_Frame_Del_p.IDLRA36del|SAFB2_uc010xip.1_RNA	NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	36_40	SAP.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		TCTTCAGCTCCGCCCGCAGATCGATCACCCGCAGC	0.712													6	2	---	---	---	---						.	-	5622621	-	-	5622607	7	5	175	1	0	1	0	1	0	0	0	0	13832	639	23	0	2825	0	SAFB2	19	5622607	In_Frame_Del	DEL	CGCCCGCAGATCGAT	TCGA-D7-6815-01A-11D-1882-08		5622607	53506376	147	90998											
SFRS14	10147	broad.mit.edu	37	chr19	19141867	19141867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaaagtctcctgtgtaattCgtctggctgccatgttattt	8	16	8	9	1	2	0	0	0	2	0	4	0	2	0	2	1	1	3	2	1	4	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr19:19141867C>T	uc002nkx.2	-	2	160	c.14G>A	c.(13-15)CGA>CAA	p.R5Q	SFRS14_uc002nkz.1_Missense_Mutation_p.R19Q|SFRS14_uc002nla.1_Missense_Mutation_p.R5Q|SFRS14_uc002nlb.2_Missense_Mutation_p.R5Q|SFRS14_uc010xqk.1_5'UTR|ARMC6_uc002nlc.2_5'Flank|ARMC6_uc002nld.2_5'Flank|ARMC6_uc010xql.1_5'Flank|ARMC6_uc002nle.2_5'Flank	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	5					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CTGTGTAATTCGTCTGGCTGC	0.338													56	152					0	0	0.01441	0	0		T	19141867	T	T	19141867	3	4	175	1	0	0	0	0	1	0	0	0	14195	884	31	1	3270	1	SFRS14	19	19141867	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	13519260	19141867	39987116	148	90999											
ZC3H4	23211	broad.mit.edu	37	chr19	47569645	47569645	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggggaggccgtggggtcgaAgcctttaaaaacatccttca	10	8	14	9	2	1	0	1	0	0	0	3	2	2	1	3	5	2	0	3	5	4	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr19:47569645A>G	uc002pga.3	-	15	3918	c.3880T>C	c.(3880-3882)TTC>CTC	p.F1294L	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	1294							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		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)		GTGGGGTCGAAGCCTTTAAAA	0.627													6	18					0	0	0.00308	0	0		G	47569645	G	G	47569645	3	3	175	1	0	0	0	0	1	0	0	0	17595	72	3	3	35	3	ZC3H4	19	47569645	Missense_Mutation	SNP	A	TCGA-D7-6815-01A-11D-1882-08	28427778	47569645	11559338	149	91000											
C19orf41	126123	broad.mit.edu	37	chr19	50666388	50666388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaaggggtcgcactgcaGgcagccccagcctccggggg	7	3	15	16	2	0	0	0	0	0	0	2	0	1	0	5	5	3	3	5	5	1	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr19:50666388G>A	uc002prp.1	-	1	151	c.64C>T	c.(64-66)CTG>TTG	p.L22L		NM_152358	NP_689571	Q6UXV1	IZUM2_HUMAN	hypothetical protein LOC126123 precursor	22	Extracellular (Potential).					integral to membrane					0		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00364)|OV - Ovarian serous cystadenocarcinoma(262;0.0052)		TCGCACTGCAGGCAGCCCCAG	0.706													8	7					0	0	0.00308	0	0		A	50666388	A	A	50666388	2	1	175	1	0	0	0	0	0	0	0	1	1927	991	35	4		4	C19orf41	19	50666388	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	3096743	50666388	8462595	150	91001											
CEACAM18	729767	broad.mit.edu	37	chr19	51981863	51981863	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggctgtgtctctggaGggacccctcctcctggagga	5	9	16	11	0	1	0	0	0	1	0	4	5	3	4	4	6	0	1	4	6	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr19:51981863G>A	uc002pwv.1	+	2	150	c.150G>A	c.(148-150)GAG>GAA	p.E50E		NM_001080405	NP_001073874	A8MTB9	CEA18_HUMAN	carcinoembryonic antigen-related cell adhesion	50						integral to membrane				skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.00148)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TGTCTCTGGAGGGACCCCTCC	0.627													8	18					0	0	0.004482	0	0		A	51981863	A	A	51981863	2	1	175	1	0	0	0	0	0	0	0	1	3192	991	35	4		4	CEACAM18	19	51981863	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	1315475	51981863	7147120	151	91002											
ZNF547	284306	broad.mit.edu	37	chr19	57889486	57889486	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cactgcagcaaagcagtgcaGtgaatgtgggaaattcttta	13	10	11	7	0	1	1	0	1	1	0	1	2	1	2	0	1	4	4	0	1	4	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr19:57889486G>A	uc002qol.2	+	4	1335	c.1142G>A	c.(1141-1143)AGT>AAT	p.S381N	ZNF547_uc002qpm.3_Intron|ZNF547_uc010ygx.1_Intron	NM_173631	NP_775902	Q8IVP9	ZN547_HUMAN	zinc finger protein 547	381	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AAGCAGTGCAGTGAATGTGGG	0.463													21	35					0	0	0.008871	0	0		A	57889486	A	A	57889486	3	1	175	1	0	0	0	0	1	0	0	0	18004	1029	36	4	1152	4	ZNF547	19	57889486	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	5907623	57889486	1239497	152	91003											
PLUNC	51297	broad.mit.edu	37	chr20	31828172	31828172	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccattcccctggaagcctgCaaatttctctgcttgatggg	7	12	9	13	0	1	1	0	1	1	0	3	2	2	2	4	2	3	2	4	2	2	3	rs115425643	byFrequency	TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr20:31828172C>A	uc002wyv.2	+	5	632	c.562C>A	c.(562-564)CAA>AAA	p.Q188K	PLUNC_uc002wyt.3_Missense_Mutation_p.Q188K|PLUNC_uc002wyu.3_Missense_Mutation_p.Q188K	NM_130852	NP_570913	Q9NP55	PLUNC_HUMAN	palate, lung and nasal epithelium associated	188					innate immune response	extracellular region	lipid binding				0						TGGAAGCCTGCAAATTTCTCT	0.522													30	297					8.4185e-14	9.79932e-14	0.012213	1	0		A	31828172	A	A	31828172	3	1	175	1	0	0	0	0	1	0	0	0	12134	711	25	5	576	5	PLUNC	20	31828172	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08		31828172	31197348	153	91004											
ZNF341	84905	broad.mit.edu	37	chr20	32341059	32341059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcctccaccactgcccccaCcgccaccacctcagcctcca	7	5	3	26	1	1	0	1	0	0	0	4	0	4	0	11	0	2	0	11	0	0	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr20:32341059C>T	uc002wzy.2	+	5	591	c.571C>T	c.(571-573)CCG>TCG	p.P191S	ZNF341_uc002wzx.2_Missense_Mutation_p.P191S|ZNF341_uc010geq.2_Missense_Mutation_p.P101S|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	191					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						actgcccccaccgccaccacc	0.388													31	51					0	0	0.010818	0	0		T	32341059	T	T	32341059	3	4	175	1	0	0	0	0	1	0	0	0	17882	507	18	4	589	4	ZNF341	20	32341059	Missense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	512887	32341059	30684461	154	91005											
LBP	3929	broad.mit.edu	37	chr20	36975024	36975024	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttggtcgccaggatcacCgacaagggactgcagtatgg	9	7	15	10	2	1	0	1	0	0	0	2	3	1	2	2	5	1	3	2	5	2	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr20:36975024C>T	uc002xic.1	+	1	140	c.105C>T	c.(103-105)ACC>ACT	p.T35T		NM_004139	NP_004130	P18428	LBP_HUMAN	lipopolysaccharide-binding protein precursor	35					acute-phase response|cellular defense response|cellular response to lipoteichoic acid|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|detection of molecule of bacterial origin|innate immune response|lipid transport|lipopolysaccharide transport|lipopolysaccharide-mediated signaling pathway|macrophage activation involved in immune response|negative regulation of tumor necrosis factor production|opsonization|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of macrophage activation|positive regulation of respiratory burst involved in inflammatory response|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of tumor necrosis factor production|Toll signaling pathway	extracellular space	Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|lipid binding|lipopolysaccharide binding|lipoteichoic acid binding|receptor binding			ovary(1)|central_nervous_system(1)	2		Myeloproliferative disorder(115;0.00878)				CCAGGATCACCGACAAGGGAC	0.632													10	98					0	0	0.010729	0	0		T	36975024	T	T	36975024	2	4	175	1	0	0	0	0	0	0	0	1	8667	639	23	1		1	LBP	20	36975024	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	4633965	36975024	26050496	155	91006											
TOP1	7150	broad.mit.edu	37	chr20	39728846	39728846	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agatgggcatgctgaagagaCgaatcatgcccgaggatata	14	7	13	7	2	1	3	1	1	0	2	1	7	1	4	1	2	2	2	1	2	4	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr20:39728846C>T	uc002xjl.2	+	12	1372	c.1126C>T	c.(1126-1128)CGA>TGA	p.R376*	uc002xjn.1_Intron	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	376					DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	GCTGAAGAGACGAATCATGCC	0.502			T	NUP98	AML*								23	76					0	0	0.00333	0	0		T	39728846	T	T	39728846	4	4	175	1	0	0	0	0	0	1	0	0	16389	528	19	1	1172	1	TOP1	20	39728846	Nonsense_Mutation	SNP	C	TCGA-D7-6815-01A-11D-1882-08	2753822	39728846	23296674	156	91007											
PSMG1	8624	broad.mit.edu	37	chr21	40555269	40555269	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtcctcagtcccagctcGgcacggcgccttcaccacct	5	9	8	19	4	2	0	2	0	0	0	6	0	4	0	5	2	1	2	5	2	0	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr21:40555269G>C	uc002yxi.2	-	1	172	c.43C>G	c.(43-45)CGA>GGA	p.R15G	PSMG1_uc002yxj.2_Missense_Mutation_p.R15G|PSMG1_uc010gob.2_5'UTR	NM_003720	NP_003711	O95456	PSMG1_HUMAN	Down syndrome critical region protein 2 isoform	15					proteasome assembly	endoplasmic reticulum	protein binding				0		Prostate(19;8.44e-08)				GTCCCAGCTCGGCACGGCGCC	0.582													4	5					0	0	0.000602	0	0		C	40555269	C	C	40555269	3	2	175	1	0	0	0	0	1	0	0	0	12733	1124	39	5	851	5	PSMG1	21	40555269	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08		40555269	7574626	157	91008											
CCDC116	164592	broad.mit.edu	37	chr22	21988517	21988517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagacagtggtggagaaggcGactgagcgcatggctgccat	10	6	17	8	2	0	3	0	1	0	2	0	6	0	3	1	4	2	2	1	4	1	0			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr22:21988517G>A	uc002zve.2	+	3	372	c.279G>A	c.(277-279)GCG>GCA	p.A93A	CCDC116_uc011aih.1_Silent_p.A93A	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	93	Potential.									ovary(1)|skin(1)	2	Colorectal(54;0.105)					TGGAGAAGGCGACTGAGCGCA	0.622													30	76					0	0	0.013726	0	0		A	21988517	A	A	21988517	2	1	175	1	0	0	0	0	0	0	0	1	2756	1045	37	1		1	CCDC116	22	21988517	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08		21988517	29316049	158	91009											
MN1	4330	broad.mit.edu	37	chr22	28193748	28193748	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accggcttgccgtcattcccCgacgtggattccagggtgta	6	10	12	13	4	1	0	1	0	0	0	3	2	3	1	5	3	1	2	5	3	1	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr22:28193748C>T	uc003adj.2	-	1	3739	c.2784G>A	c.(2782-2784)TCG>TCA	p.S928S		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	928							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CGTCATTCCCCGACGTGGATT	0.677			T	ETV6	AML|meningioma								7	11					0	0	0.00308	0	0		T	28193748	T	T	28193748	2	4	175	1	0	0	0	0	0	0	0	1	9691	639	23	1		1	MN1	22	28193748	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	6205231	28193748	23110818	159	91010											
SREBF2	6721	broad.mit.edu	37	chr22	42271599	42271599	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacaatgaggtggacctGaagatcgaggactttaatca	13	9	13	6	1	1	3	1	2	0	1	2	7	1	6	1	4	0	0	1	4	3	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chr22:42271599G>T	uc003bbi.2	+	7	1426	c.1257G>T	c.(1255-1257)CTG>CTT	p.L419L	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|SREBF2_uc003bbj.2_RNA	NM_004599	NP_004590	Q12772	SRBP2_HUMAN	sterol regulatory element-binding transcription	419	Interaction with LMNA (By similarity).|Cytoplasmic (Potential).				cholesterol metabolic process	ER to Golgi transport vesicle membrane|Golgi membrane|nucleus|SREBP-SCAP-Insig complex	protein C-terminus binding			breast(2)|ovary(1)|central_nervous_system(1)	4						AGGTGGACCTGAAGATCGAGG	0.517													67	235					2.26907e-38	2.71302e-38	0.01441	1	0		T	42271599	T	T	42271599	2	4	175	1	0	0	0	0	0	0	0	1	15167	1277	45	5		5	SREBF2	22	42271599	Silent	SNP	G	TCGA-D7-6815-01A-11D-1882-08	14077851	42271599	9032967	160	91011											
NR0B1	190	broad.mit.edu	37	chrX	30326860	30326860	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagagggtgctgccctgctgCgggtggtcttcaccgcaaaa	7	9	14	11	2	2	1	1	0	1	1	2	1	2	1	2	3	4	3	2	3	3	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chrX:30326860C>T	uc004dcf.3	-	1	636	c.621G>A	c.(619-621)CCG>CCA	p.P207P		NM_000475	NP_000466	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	207	4; truncated.|4 X 67 AA tandem repeats.				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			ovary(1)|lung(1)	2					Dexamethasone(DB01234)|Tretinoin(DB00755)	TGCCCTGCTGCGGGTGGTCTT	0.687											OREG0019719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	10					0	0	0.001168	0	0		T	30326860	T	T	30326860	2	4	175	1	0	0	0	0	0	0	0	1	10632	755	27	1		1	NR0B1	23	30326860	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08		30326860	124943700	161	91012											
PIM2	11040	broad.mit.edu	37	chrX	48776164	48776164	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgctaagcccgcagggcGtggacgcccggggcagcgca	7	2	16	16	6	0	0	0	0	0	0	0	1	0	1	3	4	2	4	3	4	1	1			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chrX:48776164G>A	uc004dls.2	-	1	250	c.-52C>T	c.(-54--50)CACGC>CATGC			NM_006875	NP_006866	Q9P1W9	PIM2_HUMAN	serine/threonine protein kinase pim-2						anti-apoptosis|cell proliferation|male meiosis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|response to virus		ATP binding|protein serine/threonine kinase activity			lung(3)|stomach(1)	4						CCCGCAGGGCGTGGACGCCCG	0.731													6	18					0	0	0.001168	0	0		A	48776164	A	A	48776164	1	1	175	1	0	0	0	0	0	0	0	0	11947	1160	40	1		1	PIM2	23	48776164	Translation_Start_Site	SNP	G	TCGA-D7-6815-01A-11D-1882-08	18449304	48776164	106494396	162	91013											
LAS1L	81887	broad.mit.edu	37	chrX	64754491	64754491	+	Silent	SNP	T	G	G	0	1	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	acgatgccgtgggccgagagTggcaacgaccctttcccttt	7	9	12	13	4	0	1	0	0	0	1	1	4	1	1	4	2	2	1	4	2	1	2			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chrX:64754491T>G	uc004dwa.1	-	1	177	c.105A>C	c.(103-105)CCA>CCC	p.P35P	LAS1L_uc004dwc.1_Silent_p.P35P|LAS1L_uc004dwd.1_Silent_p.P35P	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	35						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						GGGCCGAGAGTGGCAACGACC	0.617													10	11					0	0	0.006214	0	0		G	64754491	G	G	64754491	2	3	175	1	0	0	0	0	0	0	0	1	8652	1683	59	5		5	LAS1L	23	64754491	Silent	SNP	T	TCGA-D7-6815-01A-11D-1882-08	15978327	64754491	90516069	163	91014											
PCDH11X	27328	broad.mit.edu	37	chrX	91090711	91090711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagctagtgtacaagaccGgagatgtgccactgattcga	12	9	11	9	2	1	3	1	1	0	2	2	5	1	3	2	1	3	2	2	1	4	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chrX:91090711G>A	uc004efk.1	+	1	1053	c.208G>A	c.(208-210)GGA>AGA	p.G70R	PCDH11X_uc004efl.1_Missense_Mutation_p.G70R|PCDH11X_uc004efo.1_Missense_Mutation_p.G70R|PCDH11X_uc010nmv.1_Missense_Mutation_p.G70R|PCDH11X_uc004efm.1_Missense_Mutation_p.G70R|PCDH11X_uc004efn.1_Missense_Mutation_p.G70R|PCDH11X_uc004efh.1_Missense_Mutation_p.G70R|PCDH11X_uc004efj.1_Missense_Mutation_p.G70R	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	70	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						GTACAAGACCGGAGATGTGCC	0.458													73	128					0	0	0.01441	0	0		A	91090711	A	A	91090711	3	1	175	1	0	0	0	0	1	0	0	0	11527	1117	39	1	210	1	PCDH11X	23	91090711	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	26336220	91090711	64179849	164	91015											
XKRX	402415	broad.mit.edu	37	chrX	100178029	100178029	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttccacagtgtgaggtaCttaatcatggcctccaaaca	11	12	7	11	0	2	1	1	1	1	0	4	1	4	1	3	2	2	1	3	2	3	4			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chrX:100178029C>T	uc004egn.2	-	2	962	c.357G>A	c.(355-357)AAG>AAA	p.K119K	XKRX_uc011mre.1_Intron	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	119						integral to membrane|plasma membrane				breast(1)	1						GTGTGAGGTACTTAATCATGG	0.468													21	136					0	0	0.008871	0	0		T	100178029	T	T	100178029	2	4	175	1	0	0	0	0	0	0	0	1	17465	564	20	4		4	XKRX	23	100178029	Silent	SNP	C	TCGA-D7-6815-01A-11D-1882-08	9087318	100178029	55092531	165	91016											
KIAA1210	57481	broad.mit.edu	37	chrX	118223121	118223121	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aaggattcataaacacctgaGcctctgctgctactgagaga	13	9	9	10	0	2	3	1	2	1	1	2	5	2	4	2	1	5	2	2	1	4	3			TCGA-D7-6815-01A-11D-1882-08	TCGA-D7-6815-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	9536f736-63bc-4099-bd54-740f5910f4a8	033f45f0-c6fd-496e-8bf4-214102be013f	g.chrX:118223121G>T	uc004era.3	-	11	2072	c.2072C>A	c.(2071-2073)GCT>GAT	p.A691D		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	691										ovary(4)|skin(1)	5						AAACACCTGAGCCTCTGCTGC	0.463													19	56					1.01871e-10	1.17339e-10	0.008871	1	0		T	118223121	T	T	118223121	3	4	175	1	0	0	0	0	1	0	0	0	8230	971	34	5	3073	5	KIAA1210	23	118223121	Missense_Mutation	SNP	G	TCGA-D7-6815-01A-11D-1882-08	18045092	118223121	37047439	166	91017											
CDCA8	55143	broad.mit.edu	37	chr1	38169012	38169012	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggcctgacacccaggtttGactcaaggtgagtatcgagg	10	8	13	10	1	1	3	1	3	0	0	2	4	1	3	2	4	0	2	2	4	2	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr1:38169012G>C	uc001cbr.2	+	8	684	c.577G>C	c.(577-579)GAC>CAC	p.D193H	CDCA8_uc001cbs.2_Missense_Mutation_p.D193H|CDCA8_uc010oih.1_Missense_Mutation_p.D126H	NM_018101	NP_060571	Q53HL2	BOREA_HUMAN	cell division cycle associated 8	193					cell division|chromosome organization|mitotic metaphase|mitotic prometaphase	chromosome passenger complex|chromosome, centromeric region|cytosol|nucleolus|spindle	protein binding			central_nervous_system(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				ACCCAGGTTTGACTCAAGGTG	0.488													30	127					0	0	0.030593	0	0		C	38169012	C	C	38169012	3	2	176	1	0	0	0	0	1	0	0	0	3095	1290	45	5	603	5	CDCA8	1	38169012	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08		38169012	211081609	1	91018											
SGIP1	84251	broad.mit.edu	37	chr1	67109391	67109391	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	taggcaacatcgcactttccCcatcaccagtggtgagtgtt	9	11	9	12	1	1	1	1	1	0	0	3	1	2	1	3	2	1	3	3	2	2	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr1:67109391C>A	uc001dcr.2	+	7	665	c.448C>A	c.(448-450)CCA>ACA	p.P150T	SGIP1_uc010opd.1_5'UTR|SGIP1_uc001dcs.2_5'UTR|SGIP1_uc001dct.2_5'UTR	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	150					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						CGCACTTTCCCCATCACCAGT	0.383													22	142					1.17739e-12	1.37866e-12	0.027356	1	0		A	67109391	A	A	67109391	3	1	176	1	0	0	0	0	1	0	0	0	14231	623	22	5	474	5	SGIP1	1	67109391	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	28940379	67109391	182141230	2	91019											
ASH1L	55870	broad.mit.edu	37	chr1	155340643	155340643	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttttaggggctctttggttCtgattccccaacctttttcc	4	18	7	12	0	2	1	0	1	2	0	4	1	4	1	4	3	1	2	4	3	2	7			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr1:155340643C>T	uc009wqq.2	-	11	6959	c.6479G>A	c.(6478-6480)AGA>AAA	p.R2160K	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.R2155K	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2160	SET.				cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			CTCTTTGGTTCTGATTCCCCA	0.483													23	117					0	0	0.024334	0	0		T	155340643	T	T	155340643	3	4	176	1	0	0	0	0	1	0	0	0	1042	913	32	4	2502	4	ASH1L	1	155340643	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	88231252	155340643	93909978	3	91020											
HNRNPU	3192	broad.mit.edu	37	chr1	245022628	245022628	+	Missense_Mutation	SNP	T	C	C	0	1	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	gccaatacgaacttcatgtaTgtcaatatcttttgtatata	13	16	5	7	1	3	0	2	0	1	0	3	1	3	0	1	0	2	2	1	0	9	9			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr1:245022628T>C	uc001iaz.1	-	5	1284	c.1066A>G	c.(1066-1068)ATA>GTA	p.I356V	HNRNPU_uc001iaw.1_5'Flank|HNRNPU_uc001iax.1_RNA|HNRNPU_uc001iay.1_Missense_Mutation_p.I80V|HNRNPU_uc001iba.1_Missense_Mutation_p.I337V|HNRNPU_uc001ibb.1_Missense_Mutation_p.I44V	NM_031844	NP_114032	Q00839	HNRPU_HUMAN	heterogeneous nuclear ribonucleoprotein U	356	B30.2/SPRY.				CRD-mediated mRNA stabilization	catalytic step 2 spliceosome|cell surface|CRD-mediated mRNA stability complex|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	ATP binding|DNA binding|protein binding|RNA binding				0	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)			ACTTCATGTATGTCAATATCT	0.368													12	85					0	0	0.024245	0	0		C	245022628	C	C	245022628	3	2	176	1	0	0	0	0	1	0	0	0	7289	1464	51	3	1451	3	HNRNPU	1	245022628	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	89681985	245022628	4227993	4	91021											
OR14I1	401994	broad.mit.edu	37	chr1	248844940	248844940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagggattctgagcacCgttgagaagatttggaaata	13	10	12	6	1	1	4	0	3	1	2	1	7	1	6	2	2	1	2	2	2	4	4	rs112867044		TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr1:248844940C>T	uc001ieu.1	-	1	666	c.666G>A	c.(664-666)ACG>ACA	p.T222T		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTCTGAGCACCGTTGAGAAGA	0.478													76	81					0	0	0.01441	0	0		T	248844940	T	T	248844940	2	4	176	1	0	0	0	0	0	0	0	1	10966	639	23	1		1	OR14I1	1	248844940	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	3822312	248844940	405681	5	91022											
RASGRP3	25780	broad.mit.edu	37	chr2	33747139	33747139	+	Silent	SNP	T	C	C	0	1	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	ttggctgagcacctcactttTctggagcataaatcttttag	9	15	8	9	0	3	1	1	1	2	0	3	2	3	2	1	2	2	3	1	2	3	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:33747139T>C	uc002rox.2	+	8	1113	c.486T>C	c.(484-486)TTT>TTC	p.F162F	RASGRP3_uc010ync.1_Silent_p.F162F|RASGRP3_uc002roy.2_Silent_p.F162F	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	162	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					ACCTCACTTTTCTGGAGCATA	0.418													38	174					0	0	0.019004	0	0		C	33747139	C	C	33747139	2	2	176	1	0	0	0	0	0	0	0	1	13101	1780	62	3		3	RASGRP3	2	33747139	Silent	SNP	T	TCGA-D7-6817-01A-11D-1882-08		33747139	209452234	6	91023											
LHCGR	3973	broad.mit.edu	37	chr2	48915510	48915510	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtcttaatcgcagcttttGgtccaggtgaatagcatagg	10	13	11	7	1	1	1	0	1	1	0	3	1	2	1	1	3	2	3	1	3	4	5			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:48915510G>C	uc002rwu.3	-	11	1496	c.1426C>G	c.(1426-1428)CAA>GAA	p.Q476E	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	476	Cytoplasmic (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	CGCAGCTTTTGGTCCAGGTGA	0.443									Familial_Male-Limited_Precocious_Puberty				11	68					0	0	0.013537	0	0		C	48915510	C	C	48915510	3	2	176	1	0	0	0	0	1	0	0	0	8778	1357	47	5	677	5	LHCGR	2	48915510	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	15168371	48915510	194283863	7	91024											
NRXN1	9378	broad.mit.edu	37	chr2	50149136	50149136	+	Silent	SNP	A	G	G	1	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	tttttgttggagcttttcgcActgctgggttgtttctcctt	2	21	10	8	1	1	0	0	0	1	0	3	1	1	1	1	2	2	6	1	2	0	8			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:50149136A>G	uc010fbp.2	-	6	2082	c.1275T>C	c.(1273-1275)AGT>AGC	p.S425S	NRXN1_uc002rxb.3_Silent_p.S1159S|NRXN1_uc010fbq.2_Silent_p.S1530S|NRXN1_uc002rxe.3_Silent_p.S1460S|NRXN1_uc010yon.1_Silent_p.S125S|NRXN1_uc002rxa.3_Silent_p.S122S	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	425	Cytoplasmic (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AGCTTTTCGCACTGCTGGGTT	0.403													15	78					0	0	0.028581	0	0		G	50149136	G	G	50149136	2	3	176	1	0	0	0	0	0	0	0	1	10684	156	6	3		3	NRXN1	2	50149136	Silent	SNP	A	TCGA-D7-6817-01A-11D-1882-08	1233626	50149136	193050237	8	91025											
ATOH8	84913	broad.mit.edu	37	chr2	85981419	85981419	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcaaggagccggcgcggcGcgcgaacggctataaaactt	11	4	15	11	7	0	0	0	0	0	0	0	2	0	1	1	5	3	2	1	5	5	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:85981419G>C	uc002sqn.2	+	1	511	c.107G>C	c.(106-108)CGC>CCC	p.R36P	ATOH8_uc002sqm.3_Missense_Mutation_p.R36P	NM_032827	NP_116216	Q96SQ7	ATOH8_HUMAN	atonal homolog 8	36					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0						CCGGCGCGGCGCGCGAACGGC	0.662													12	47					0	0	0.013537	0	0		C	85981419	C	C	85981419	3	2	176	1	0	0	0	0	1	0	0	0	1115	1087	38	5	109	5	ATOH8	2	85981419	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	35832283	85981419	157217954	9	91026											
KCNIP3	30818	broad.mit.edu	37	chr2	96047430	96047430	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatctctacgacattaacaaGgatggctacatcaccaaaga	17	8	6	10	1	2	1	1	0	1	1	3	3	2	2	1	2	3	1	1	2	6	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:96047430G>T	uc002sup.2	+	6	649	c.534G>T	c.(532-534)AAG>AAT	p.K178N	KCNIP3_uc002suq.2_Missense_Mutation_p.K152N	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	178	EF-hand 3.|1 (By similarity).				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		ACATTAACAAGGATGGCTACA	0.403													26	134					1.5548e-18	1.83627e-18	0.027356	1	0		T	96047430	T	T	96047430	3	4	176	1	0	0	0	0	1	0	0	0	8057	991	35	5	663	5	KCNIP3	2	96047430	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	10066011	96047430	147151943	10	91027											
LCT	3938	broad.mit.edu	37	chr2	136594316	136594316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaaaggcttcggttctccGgagggtgctggcagggaggg	7	7	19	8	2	1	0	0	0	1	0	3	2	1	2	1	7	2	5	1	7	1	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:136594316G>A	uc002tuu.1	-	1	435	c.424C>T	c.(424-426)CGG>TGG	p.R142W		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	142	Extracellular (Potential).|4 X approximate repeats.|1.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TCGGTTCTCCGGAGGGTGCTG	0.592													16	53					0	0	0.028581	0	0		A	136594316	A	A	136594316	3	1	176	1	0	0	0	0	1	0	0	0	8709	1115	39	1	5427	1	LCT	2	136594316	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	40546886	136594316	106605057	11	91028											
THSD7B	80731	broad.mit.edu	37	chr2	138030105	138030105	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttttcctttacttcaggaAatgccacagtaaaacagtct	12	14	5	10	0	2	0	1	0	1	0	3	1	3	1	2	1	3	1	2	1	4	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:138030105A>C	uc002tva.1	+	10	2176	c.2176A>C	c.(2176-2178)AAT>CAT	p.N726H	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.N616H	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TACTTCAGGAAATGCCACAGT	0.383													3	30					0	0	0.004672	0	0		C	138030105	C	C	138030105	3	2	176	1	0	0	0	0	1	0	0	0	15905	14	1	5	2214	5	THSD7B	2	138030105	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	1435789	138030105	105169268	12	91029											
MBD5	55777	broad.mit.edu	37	chr2	149227248	149227248	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctttccagcaagtagttTactctcagcagcagccaaag	11	10	7	13	0	1	0	1	0	1	0	4	0	3	0	3	0	5	5	3	0	4	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:149227248T>G	uc002twm.3	+	9	2724	c.1736T>G	c.(1735-1737)TTA>TGA	p.L579*	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Nonsense_Mutation_p.L579*|MBD5_uc002twn.1_Nonsense_Mutation_p.L20*	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	579						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		GCAAGTAGTTTACTCTCAGCA	0.483													27	151					0	0	0.030593	0	0		G	149227248	G	G	149227248	4	3	176	1	0	0	0	0	0	1	0	0	9365	1764	61	5	1750	5	MBD5	2	149227248	Nonsense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	11197143	149227248	93972125	13	91030											
SCN1A	6323	broad.mit.edu	37	chr2	166848778	166848778	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaggccgatgttaaacaaCgcaggaagggacatcatcaa	16	5	12	8	2	2	0	2	0	0	0	2	4	2	3	1	4	2	2	1	4	5	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:166848778C>T	uc010zcz.1	-	26	4992	c.4974G>A	c.(4972-4974)GCG>GCA	p.A1658A		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1669	IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TGTTAAACAACGCAGGAAGGG	0.493													33	147					0	0	0.045705	0	0		T	166848778	T	T	166848778	2	4	176	1	0	0	0	0	0	0	0	1	13939	523	19	1		1	SCN1A	2	166848778	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	17621530	166848778	76350595	14	91031											
LRP2	4036	broad.mit.edu	37	chr2	170042284	170042284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgatgttactgttttgccGgcaggtctttccatctggtt	4	18	10	9	2	2	0	0	0	2	0	4	1	3	0	2	3	2	4	2	3	1	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:170042284G>A	uc002ues.2	-	50	9787	c.9574C>T	c.(9574-9576)CGG>TGG	p.R3192W		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3192	EGF-like 12; calcium-binding (Potential).|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTGTTTTGCCGGCAGGTCTTT	0.433													4	205					0	0	0.014758	0	0		A	170042284	A	A	170042284	3	1	176	1	0	0	0	0	1	0	0	0	8974	1115	39	1	4513	1	LRP2	2	170042284	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	3193506	170042284	73157089	15	91032											
KLHL23	151230	broad.mit.edu	37	chr2	170591630	170591630	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttacttggatggattatttActgatattactcttcagtgt	9	20	7	5	0	2	1	1	1	1	0	2	3	2	3	0	2	3	0	0	2	5	9			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:170591630A>T	uc002ufh.1	+	4	444	c.106A>T	c.(106-108)ACT>TCT	p.T36S	KLHL23_uc002ufi.1_Missense_Mutation_p.T36S	NM_144711	NP_653312	Q8NBE8	KLH23_HUMAN	kelch-like 23	36	BTB.										0						TGGATTATTTACTGATATTAC	0.358													29	104					0	0	0.041601	0	0		T	170591630	T	T	170591630	3	4	176	1	0	0	0	0	1	0	0	0	8394	391	14	5	108	5	KLHL23	2	170591630	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	549346	170591630	72607743	16	91033											
WIPF1	7456	broad.mit.edu	37	chr2	175436475	175436475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggaggaagaggacctgaaCgtcctggcgaaggtaacggg	11	4	19	7	3	0	2	0	1	0	1	1	6	1	5	2	7	2	1	2	7	4	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:175436475C>T	uc002uiy.2	-	6	1390	c.1058G>A	c.(1057-1059)CGT>CAT	p.R353H	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.R353H|WIPF1_uc010fqt.1_Missense_Mutation_p.R353H|WIPF1_uc002ujc.1_Missense_Mutation_p.R353H|WIPF1_uc002uiz.2_Missense_Mutation_p.R353H|WIPF1_uc002ujb.1_Missense_Mutation_p.R353H|WIPF1_uc010zep.1_Missense_Mutation_p.R353H	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	353	XRSGPXPPXP motif 1.|Pro-rich.				actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						AGGACCTGAACGTCCTGGCGA	0.617													34	127					0	0	0.012213	0	0		T	175436475	T	T	175436475	3	4	176	1	0	0	0	0	1	0	0	0	17393	536	19	1	469	1	WIPF1	2	175436475	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	4844845	175436475	67762898	17	91034											
TTN	7273	broad.mit.edu	37	chr2	179433173	179433173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcaaatttaacaggtcCttttggaggatcaggtttat	11	15	9	6	0	3	0	3	0	0	0	4	2	4	2	1	4	1	1	1	4	3	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:179433173C>T	uc010zfg.1	-	275	70206	c.69982G>A	c.(69982-69984)GGA>AGA	p.G23328R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G17023R|TTN_uc010zfi.1_Missense_Mutation_p.G16956R|TTN_uc010zfj.1_Missense_Mutation_p.G16831R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24255							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTAACAGGTCCTTTTGGAGGA	0.408													12	59					0	0	0.013537	0	0		T	179433173	T	T	179433173	3	4	176	1	0	0	0	0	1	0	0	0	16761	690	24	4	30441	4	TTN	2	179433173	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	3996698	179433173	63766200	18	91035											
HECW2	57520	broad.mit.edu	37	chr2	197298041	197298041	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gggtcatgttctctggcatgGagctctgggcggcaaggctc	5	10	16	10	1	3	0	1	0	2	0	5	1	3	1	0	6	1	5	0	6	1	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:197298041G>C	uc002utm.1	-	2	290	c.107C>G	c.(106-108)TCC>TGC	p.S36C		NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	36					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						CTCTGGCATGGAGCTCTGGGC	0.592													24	84					0	0	0.014323	0	0		C	197298041	C	C	197298041	3	2	176	1	0	0	0	0	1	0	0	0	7059	1174	41	5	4723	5	HECW2	2	197298041	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	17864868	197298041	45901332	19	91036											
PID1	55022	broad.mit.edu	37	chr2	229890556	229890556	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattgatctccctgtagaccCaggcgaagatgttggggctc	8	10	12	11	1	1	3	0	1	1	2	3	4	1	3	2	3	0	3	2	3	2	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:229890556C>G	uc002vpr.3	-	3	583	c.545G>C	c.(544-546)TGG>TCG	p.W182S	PID1_uc002vps.3_Missense_Mutation_p.W180S|PID1_uc002vpt.3_Missense_Mutation_p.W149S|PID1_uc002vpu.3_Missense_Mutation_p.W100S	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	182	PID.					cytoplasm				breast(3)|skin(1)	4		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)		CCTGTAGACCCAGGCGAAGAT	0.607													20	134					0	0	0.010504	0	0		G	229890556	G	G	229890556	3	3	176	1	0	0	0	0	1	0	0	0	11901	595	21	5	211	5	PID1	2	229890556	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	32592515	229890556	13308817	20	91037											
HDLBP	3069	broad.mit.edu	37	chr2	242206262	242206262	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttcagcaaaactctcttggGtcaaaactgcaacggaactc	13	9	8	11	1	3	0	2	0	1	0	5	1	3	1	0	2	6	3	0	2	6	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr2:242206262G>C	uc002waz.2	-	3	251	c.23C>G	c.(22-24)ACC>AGC	p.T8S	HDLBP_uc002wba.2_Missense_Mutation_p.T8S|HDLBP_uc002wbb.2_Missense_Mutation_p.T29S|HDLBP_uc010fzn.1_5'UTR	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	8					cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		ACTCTCTTGGGTCAAAACTGC	0.448													3	193					0	0	0.004672	0	0		C	242206262	C	C	242206262	3	2	176	1	0	0	0	0	1	0	0	0	7041	1261	44	5	3887	5	HDLBP	2	242206262	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	12315706	242206262	993111	21	91038											
NEK10	152110	broad.mit.edu	37	chr3	27326454	27326454	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actatgtacaacctatcatcTatataaatatcacaaaaggt	18	12	3	8	0	3	0	2	0	1	0	3	0	3	0	1	1	2	1	1	1	11	7			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr3:27326454T>A	uc003cdt.1	-	22	2064	c.1790_splice	c.e22-1	p.N597_splice	NEK10_uc003cds.1_Splice_Site	NM_199347	NP_955379	Q6ZWH5	NEK10_HUMAN	NIMA-related kinase 10 isoform 3								ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(5)|stomach(2)|central_nervous_system(2)|lung(2)|skin(1)|pancreas(1)	13						ACCTATCATCTATATAAATAT	0.383													4	30					0	0	0.009096	0	0		A	27326454	A	A	27326454	5	1	176	1	0	0	0	0	0	0	1	0	10341	1536	53	5	366	5	NEK10	3	27326454	Splice_Site	SNP	T	TCGA-D7-6817-01A-11D-1882-08		27326454	170695976	22	91039											
ARPP21	10777	broad.mit.edu	37	chr3	35778692	35778692	+	Missense_Mutation	SNP	T	A	A	0	1	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	cagccctttgtgaatcccgaTggaactcctgcaatatacaa	12	10	7	12	1	0	1	0	1	0	0	2	3	2	2	3	1	4	1	3	1	6	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr3:35778692T>A	uc003cgb.2	+	16	1746	c.1482T>A	c.(1480-1482)GAT>GAA	p.D494E	ARPP21_uc003cga.2_Missense_Mutation_p.D440E|ARPP21_uc011axy.1_Missense_Mutation_p.D460E|ARPP21_uc003cgf.2_Missense_Mutation_p.D295E|ARPP21_uc003cgg.2_5'UTR	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	494						cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						TGAATCCCGATGGAACTCCTG	0.542													16	126					0	0	0.024245	0	0		A	35778692	A	A	35778692	3	1	176	1	0	0	0	0	1	0	0	0	979	1461	51	5	1549	5	ARPP21	3	35778692	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	8452238	35778692	162243738	23	91040											
MYRIP	25924	broad.mit.edu	37	chr3	40231533	40231533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagctgtgtcccaggtcccGggccctgcccaggaaccccc	6	5	11	19	1	0	0	0	0	0	0	2	1	2	1	6	3	3	1	6	3	2	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr3:40231533G>A	uc003cka.2	+	10	1379	c.1244G>A	c.(1243-1245)CGG>CAG	p.R415Q	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Missense_Mutation_p.R415Q|MYRIP_uc010hhw.2_Missense_Mutation_p.R326Q|MYRIP_uc011ayz.1_Missense_Mutation_p.R228Q|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	415	Myosin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		CCCAGGTCCCGGGCCCTGCCC	0.637													5	258					0	0	0.014758	0	0		A	40231533	A	A	40231533	3	1	176	1	0	0	0	0	1	0	0	0	10118	1116	39	1	1278	1	MYRIP	3	40231533	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	4452841	40231533	157790897	24	91041											
BSN	8927	broad.mit.edu	37	chr3	49689341	49689341	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggatatcctggaggaagaCgaagactctgctgagtggag	12	7	16	6	1	1	3	0	1	1	2	2	9	2	7	1	4	1	1	1	4	3	1	rs147936824		TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr3:49689341C>T	uc003cxe.3	+	5	2466	c.2352C>T	c.(2350-2352)GAC>GAT	p.D784D		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	784					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		TGGAGGAAGACGAAGACTCTG	0.597													6	30					0	0	0.021553	0	0		T	49689341	T	T	49689341	2	4	176	1	0	0	0	0	0	0	0	1	1533	535	19	1		1	BSN	3	49689341	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	9457808	49689341	148333089	25	91042											
GPR128	84873	broad.mit.edu	37	chr3	100348472	100348472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctcatcaagcacccctaCagagttctgcaggaatggtg	10	10	9	12	0	3	1	2	0	1	1	4	2	4	2	3	2	3	3	3	2	3	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr3:100348472C>T	uc003duc.2	+	2	414	c.146C>T	c.(145-147)ACA>ATA	p.T49I		NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	49	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						AGCACCCCTACAGAGTTCTGC	0.403													21	35					0	0	0.010504	0	0		T	100348472	T	T	100348472	3	4	176	1	0	0	0	0	1	0	0	0	6656	478	17	4	152	4	GPR128	3	100348472	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	50659131	100348472	97673958	26	91043											
GP9	2815	broad.mit.edu	37	chr3	128780696	128780696	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggggctgtgggtggactgCaggggccacggactcacggc	6	6	19	10	2	1	0	1	0	0	0	1	2	1	2	1	8	1	2	1	8	0	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr3:128780696C>T	uc003elm.2	+	3	301	c.114C>T	c.(112-114)TGC>TGT	p.C38C		NM_000174	NP_000165	P14770	GPIX_HUMAN	glycoprotein IX (platelet) precursor	38	Extracellular (Potential).|LRRNT.				blood coagulation, intrinsic pathway|cell adhesion|platelet activation	integral to plasma membrane	protein binding				0					Quinine(DB00468)	GGGTGGACTGCAGGGGCCACG	0.697													6	22					0	0	0.021553	0	0		T	128780696	T	T	128780696	2	4	176	1	0	0	0	0	0	0	0	1	6600	718	25	2		2	GP9	3	128780696	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	28432224	128780696	69241734	27	91044											
ZNF595	152687	broad.mit.edu	37	chr4	60041	60041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acatgagacagcagccaaacCcccaggtaggtgagactgaa	15	4	11	11	0	0	3	0	3	0	2	0	5	0	3	3	2	3	2	3	2	3	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr4:60041C>T	uc003fzv.1	+	3	377	c.221C>T	c.(220-222)CCC>CTC	p.P74L	ZNF595_uc003fzu.1_RNA|ZNF718_uc003fzt.3_Missense_Mutation_p.P74L|ZNF595_uc010iay.1_RNA|ZNF595_uc011bus.1_Intron|ZNF595_uc011but.1_Intron	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	zinc finger protein 595	74					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0654)|Epithelial(2;0.0921)|all cancers(2;0.146)|LUSC - Lung squamous cell carcinoma(95;0.173)		GCAGCCAAACCCCCAGGTAGG	0.498													4	176					0	0	0.009096	0	0		T	60041	T	T	60041	3	4	176	1	0	0	0	0	1	0	0	0	18050	623	22	4	231	4	ZNF595	4	60041	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		60041	191094235	28	91045											
HTT	3064	broad.mit.edu	37	chr4	3182315	3182315	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataaagctgatgcaggaaaAgagcttgaaacccaaaaaga	21	5	9	6	0	0	4	0	2	0	2	0	5	0	5	1	1	4	3	1	1	8	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr4:3182315A>C	uc011bvq.1	+	37	4837	c.4692A>C	c.(4690-4692)AAA>AAC	p.K1564N		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1562					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		ATGCAGGAAAAGAGCTTGAAA	0.458													12	115					0	0	0.020292	0	0		C	3182315	C	C	3182315	3	2	176	1	0	0	0	0	1	0	0	0	7473	69	3	5	4828	5	HTT	4	3182315	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	3122274	3182315	187971961	29	91046											
SLIT2	9353	broad.mit.edu	37	chr4	20611744	20611744	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	cccaaaatcatcactaacttGtcaaagcagtccactctgaa	15	9	4	13	0	4	1	3	1	1	0	5	1	5	1	2	0	2	1	2	0	5	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr4:20611744G>C	uc003gpr.1	+	34	4005	c.3801G>C	c.(3799-3801)TTG>TTC	p.L1267F	SLIT2_uc003gps.1_Missense_Mutation_p.L1259F	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1267	Laminin G-like.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TCACTAACTTGTCAAAGCAGT	0.443													10	53					0	0	0.010729	0	0		C	20611744	C	C	20611744	3	2	176	1	0	0	0	0	1	0	0	0	14765	1368	48	5	3935	5	SLIT2	4	20611744	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	17429429	20611744	170542532	30	91047											
CWH43	80157	broad.mit.edu	37	chr4	48994096	48994096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccatagccacacttgatcGtattggcacaggtaatactg	11	11	9	10	1	0	1	0	1	0	0	1	1	0	1	2	2	3	3	2	2	4	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr4:48994096G>A	uc003gyv.2	+	4	682	c.500G>A	c.(499-501)CGT>CAT	p.R167H	CWH43_uc011bzl.1_Missense_Mutation_p.R140H	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	167					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ACACTTGATCGTATTGGCACA	0.373													12	57					0	0	0.016723	0	0		A	48994096	A	A	48994096	3	1	176	1	0	0	0	0	1	0	0	0	4076	1145	40	1	514	1	CWH43	4	48994096	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	28382352	48994096	142160180	31	91048											
PPAT	5471	broad.mit.edu	37	chr4	57261654	57261654	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttctgttttttaaactttAtcccttcttgtacagatgaa	9	20	4	8	0	2	2	0	1	2	1	3	2	3	2	1	0	2	2	1	0	5	9			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr4:57261654A>G	uc003hbr.2	-	11	1620	c.1418T>C	c.(1417-1419)ATA>ACA	p.I473T		NM_002703	NP_002694	Q06203	PUR1_HUMAN	phosphoribosyl pyrophosphate amidotransferase	473					glutamine metabolic process|nucleoside metabolic process|purine base biosynthetic process|purine ribonucleoside monophosphate biosynthetic process	cytosol	4 iron, 4 sulfur cluster binding|amidophosphoribosyltransferase activity|metal ion binding				0	Glioma(25;0.08)|all_neural(26;0.101)				L-Glutamine(DB00130)|Thioguanine(DB00352)	TTTAAACTTTATCCCTTCTTG	0.338													9	53					0	0	0.004482	0	0		G	57261654	G	G	57261654	3	3	176	1	0	0	0	0	1	0	0	0	12321	449	16	3	139	3	PPAT	4	57261654	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	8267558	57261654	133892622	32	91049											
GPRIN3	285513	broad.mit.edu	37	chr4	90170079	90170079	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agactcagctgcagctgcctGaatgtgcacctgtggcatga	9	9	12	11	0	1	3	1	2	0	1	1	3	1	3	2	1	5	5	2	1	1	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr4:90170079G>C	uc003hsm.1	-	2	1702	c.1183C>G	c.(1183-1185)CAG>GAG	p.Q395E		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	395										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GCAGCTGCCTGAATGTGCACC	0.557													31	120					0	0	0.037714	0	0		C	90170079	C	C	90170079	3	2	176	1	0	0	0	0	1	0	0	0	6747	1299	45	5	1151	5	GPRIN3	4	90170079	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	32908425	90170079	100984197	33	91050											
KIAA0947	23379	broad.mit.edu	37	chr5	5462426	5462426	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cctcaggccacagatctggaCtccagtgggacacatggcag	10	6	12	13	0	2	1	1	0	1	1	3	3	3	3	3	4	0	1	3	4	0	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr5:5462426C>A	uc003jdm.3	+	13	3201	c.2979C>A	c.(2977-2979)GAC>GAA	p.D993E		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	993										ovary(1)|central_nervous_system(1)	2						CAGATCTGGACTCCAGTGGGA	0.517													11	40					3.07112e-06	3.42068e-06	0.010729	1	0		A	5462426	A	A	5462426	3	1	176	1	0	0	0	0	1	0	0	0	8218	564	20	5	3029	5	KIAA0947	5	5462426	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		5462426	175452834	34	91051											
MTMR12	54545	broad.mit.edu	37	chr5	32233887	32233887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacatcttactttgaagcGcattcctttccgttggcctt	6	16	8	11	2	1	1	0	1	1	0	3	2	3	2	3	2	2	2	3	2	2	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr5:32233887G>A	uc003jhq.2	-	15	1836	c.1666C>T	c.(1666-1668)CGC>TGC	p.R556C	MTMR12_uc010iuk.2_Intron|MTMR12_uc010iul.2_Intron	NM_001040446	NP_001035536	Q9C0I1	MTMRC_HUMAN	myotubularin related protein 12	556	Myotubularin phosphatase.|Interaction with MTM1.					cytoplasm	phosphatase activity			ovary(1)	1						ACTTTGAAGCGCATTCCTTTC	0.473													4	156					0	0	0.014758	0	0		A	32233887	A	A	32233887	3	1	176	1	0	0	0	0	1	0	0	0	9959	1087	38	1	585	1	MTMR12	5	32233887	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	26771461	32233887	148681373	35	91052											
PCDHGB2	56103	broad.mit.edu	37	chr5	140741222	140741222	+	Missense_Mutation	SNP	T	C	C	0	1	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	gattttatcctacgtgtccgTgagcgcgcagagcggggtgg	6	10	16	9	5	0	2	0	1	0	1	2	3	2	2	2	3	3	1	2	3	2	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr5:140741222T>C	uc003ljs.1	+	1	1520	c.1520T>C	c.(1519-1521)GTG>GCG	p.V507A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.V507A|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	507	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACGTGTCCGTGAGCGCGCAG	0.647													3	71					0	0	0.004672	0	0		C	140741222	C	C	140741222	3	2	176	1	0	0	0	0	1	0	0	0	11582	1696	59	3	1522	3	PCDHGB2	5	140741222	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	108507335	140741222	40174038	36	91053											
EBF1	1879	broad.mit.edu	37	chr5	158141175	158141175	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctaccagatccgcagcccTtttgagtattacttcctgtc	7	15	6	13	1	1	2	0	1	1	1	4	2	3	2	4	0	3	2	4	0	3	7			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr5:158141175T>C	uc010jip.2	-	12	1443	c.1141A>G	c.(1141-1143)AGG>GGG	p.R381G	EBF1_uc011ddw.1_Missense_Mutation_p.R249G|EBF1_uc011ddx.1_Missense_Mutation_p.R382G|EBF1_uc003lxl.3_Missense_Mutation_p.R350G	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	381					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCCGCAGCCCTTTTGAGTATT	0.478			T	HMGA2	lipoma								4	257					0	0	0.009096	0	0		C	158141175	C	C	158141175	3	2	176	1	0	0	0	0	1	0	0	0	4886	1608	56	3	654	3	EBF1	5	158141175	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	17399953	158141175	22774085	37	91054											
HIST1H2BE	8344	broad.mit.edu	37	chr6	26184287	26184287	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcgcattacaacaagcgctcGaccatcacctccagggagat	12	6	9	14	3	1	1	1	0	0	1	3	3	2	1	3	1	3	2	3	1	3	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:26184287G>C	uc003ngt.2	+	1	264	c.264G>C	c.(262-264)TCG>TCC	p.S88S		NM_003523	NP_003514	P62807	H2B1C_HUMAN	histone cluster 1, H2be	88					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0						ACAAGCGCTCGACCATCACCT	0.607													47	166					0	0	0.01441	0	0		C	26184287	C	C	26184287	2	2	176	1	0	0	0	0	0	0	0	1	7160	1045	37	5		5	HIST1H2BE	6	26184287	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08		26184287	144930780	38	91055											
ZNF192	7745	broad.mit.edu	37	chr6	28120096	28120096	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttcgagaggagtggcttcttGatccatcacagaaggatctg	10	11	12	8	1	3	3	1	1	2	2	5	6	4	5	1	3	0	1	1	3	1	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:28120096G>C	uc003nkn.1	+	5	893	c.709G>C	c.(709-711)GAT>CAT	p.D237H	ZNF192_uc010jqx.1_Missense_Mutation_p.D237H|ZNF192_uc010jqy.1_Missense_Mutation_p.D50H|ZNF192_uc011dkz.1_Missense_Mutation_p.D50H	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	237	KRAB.				viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GTGGCTTCTTGATCCATCACA	0.438													24	113					0	0	0.030593	0	0		C	28120096	C	C	28120096	3	2	176	1	0	0	0	0	1	0	0	0	17781	1290	45	5	723	5	ZNF192	6	28120096	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	1935809	28120096	142994971	39	91056											
SYNGAP1	8831	broad.mit.edu	37	chr6	33403335	33403335	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctttgcctgtcggtctgCggccgaaagagacaaatgga	10	9	13	9	3	1	1	0	0	1	1	2	4	1	2	2	3	3	1	2	3	2	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:33403335C>T	uc011dri.1	+	7	902	c.707C>T	c.(706-708)GCG>GTG	p.A236V	SYNGAP1_uc003oeo.1_Missense_Mutation_p.A221V|SYNGAP1_uc010juy.2_Missense_Mutation_p.A221V|SYNGAP1_uc010juz.2_5'Flank	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	236	PH.				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						TGTCGGTCTGCGGCCGAAAGA	0.507													5	264					0	0	0.02938	0	0		T	33403335	T	T	33403335	3	4	176	1	0	0	0	0	1	0	0	0	15472	768	27	1	733	1	SYNGAP1	6	33403335	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	5283239	33403335	137711732	40	91057											
DNAH8	1769	broad.mit.edu	37	chr6	38877309	38877309	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aataggttggtgagaagttcCgtgcccgttctttgaaattt	9	15	11	6	2	1	2	0	2	1	1	2	3	2	2	2	2	1	3	2	2	4	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:38877309C>G	uc003ooe.1	+	63	9478	c.8878C>G	c.(8878-8880)CGT>GGT	p.R2960G	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8									p.R2960R(1)		skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TGAGAAGTTCCGTGCCCGTTC	0.338													15	108					0	0	0.0333	0	0		G	38877309	G	G	38877309	3	3	176	1	0	0	0	0	1	0	0	0	4613	652	23	5	9120	5	DNAH8	6	38877309	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	5473974	38877309	132237758	41	91058											
GPR115	221393	broad.mit.edu	37	chr6	47680166	47680166	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattctagactttcgagctcCagagaccattgagagtgtag	11	12	10	8	1	1	3	0	1	1	3	3	6	2	3	2	0	1	2	2	0	3	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:47680166C>A	uc003oza.1	+	5	632	c.374C>A	c.(373-375)CCA>CAA	p.P125Q	GPR115_uc003oyz.1_Missense_Mutation_p.P182Q|GPR115_uc003ozb.1_Missense_Mutation_p.P123Q	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	125	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						TTTCGAGCTCCAGAGACCATT	0.433													4	114					3.59834e-05	3.94378e-05	0.021553	1	0		A	47680166	A	A	47680166	3	1	176	1	0	0	0	0	1	0	0	0	6647	594	21	5	388	5	GPR115	6	47680166	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	8802857	47680166	123434901	42	91059											
FHL5	9457	broad.mit.edu	37	chr6	97051544	97051544	+	Missense_Mutation	SNP	A	C	C	1	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	cagcatcacttcttgggaagAaatatgtactaaaggatgac	15	10	9	7	0	2	2	1	1	1	1	2	4	2	4	0	2	2	2	0	2	6	5			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:97051544A>C	uc003pos.1	+	3	460	c.55A>C	c.(55-57)AAA>CAA	p.K19Q	FHL5_uc003pot.1_Missense_Mutation_p.K19Q	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator	19	C4-type (Potential).					nucleus	zinc ion binding			ovary(2)	2		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)		TCTTGGGAAGAAATATGTACT	0.338													20	80					0	0	0.010504	0	0		C	97051544	C	C	97051544	3	2	176	1	0	0	0	0	1	0	0	0	5895	247	9	5	57	5	FHL5	6	97051544	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	49371378	97051544	74063523	43	91060											
EYA4	2070	broad.mit.edu	37	chr6	133783490	133783490	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggccctatccacacattcTttctacaccagcagctcaaa	12	10	4	15	0	3	0	1	0	2	0	4	0	4	0	3	1	3	2	3	1	4	5			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:133783490T>G	uc003qec.3	+	8	913	c.455T>G	c.(454-456)CTT>CGT	p.L152R	EYA4_uc011ecq.1_Missense_Mutation_p.L98R|EYA4_uc011ecr.1_Missense_Mutation_p.L98R|EYA4_uc003qed.3_Missense_Mutation_p.L152R|EYA4_uc003qee.3_Missense_Mutation_p.L129R|EYA4_uc011ecs.1_Missense_Mutation_p.L152R|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	152			L -> R (in a colorectal cancer sample; somatic mutation).		anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity	p.L152R(1)		large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		CCACACATTCTTTCTACACCA	0.448													19	174					0	0	0.010504	0	0		G	133783490	G	G	133783490	3	3	176	1	0	0	0	0	1	0	0	0	5339	1609	56	5	481	5	EYA4	6	133783490	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	36731946	133783490	37331577	44	91061											
BCLAF1	9774	broad.mit.edu	37	chr6	136590668	136590668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccctggagcccttggaatctCcccgttctttacttctttct	4	16	6	15	1	4	0	0	0	4	0	5	2	4	2	4	2	2	1	4	2	2	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:136590668C>T	uc003qgx.1	-	9	2379	c.2126G>A	c.(2125-2127)GGA>GAA	p.G709E	BCLAF1_uc011edb.1_5'Flank|BCLAF1_uc003qgw.1_Missense_Mutation_p.G536E|BCLAF1_uc003qgy.1_Missense_Mutation_p.G707E|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.G707E	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	709					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		CTTGGAATCTCCCCGTTCTTT	0.393													6	112					0	0	0.008291	0	0		T	136590668	T	T	136590668	3	4	176	1	0	0	0	0	1	0	0	0	1384	855	30	4	656	4	BCLAF1	6	136590668	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	2807178	136590668	34524399	45	91062											
ESR1	2099	broad.mit.edu	37	chr6	152265607	152265607	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaacctggcagacagggagCtggttcacatgatcaactgg	11	7	12	11	0	2	2	2	1	0	1	2	3	2	3	2	4	3	3	2	4	2	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:152265607C>A	uc003qom.3	+	6	1430	c.1060C>A	c.(1060-1062)CTG>ATG	p.L354M	ESR1_uc010kin.2_Missense_Mutation_p.L354M|ESR1_uc010kio.2_Missense_Mutation_p.L356M|ESR1_uc010kip.2_Missense_Mutation_p.L353M|ESR1_uc003qon.3_Missense_Mutation_p.L354M|ESR1_uc003qoo.3_Missense_Mutation_p.L354M|ESR1_uc010kiq.2_Intron|ESR1_uc010kir.2_Intron|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Intron|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Intron|ESR1_uc011eex.1_Missense_Mutation_p.L135M|ESR1_uc010kit.1_Missense_Mutation_p.L91M|ESR1_uc011eey.1_Missense_Mutation_p.L91M	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	354	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	AGACAGGGAGCTGGTTCACAT	0.498													13	77					3.27435e-08	3.70732e-08	0.020292	1	0		A	152265607	A	A	152265607	3	1	176	1	0	0	0	0	1	0	0	0	5264	796	28	5	1074	5	ESR1	6	152265607	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	15674939	152265607	18849460	46	91063											
THBS2	7058	broad.mit.edu	37	chr6	169632105	169632105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtaggtggcgttggtggcGcagaccagattgaggttggg	6	10	20	5	2	0	3	0	1	0	2	0	3	0	3	1	7	0	4	1	7	1	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr6:169632105G>A	uc003qwt.2	-	14	2369	c.2121C>T	c.(2119-2121)TGC>TGT	p.C707C		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	707	TSP type-3 1.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CGTTGGTGGCGCAGACCAGAT	0.692													13	55					0	0	0.020292	0	0		A	169632105	A	A	169632105	2	1	176	1	0	0	0	0	0	0	0	1	15879	1079	38	1		1	THBS2	6	169632105	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	17366498	169632105	1482962	47	91064											
MAD1L1	8379	broad.mit.edu	37	chr7	2262355	2262355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcctgaagctgccggatgCgcgtcaggagctcctggttg	5	9	15	12	3	1	1	1	1	0	0	3	3	3	3	3	3	4	4	3	3	1	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr7:2262355C>T	uc003slh.1	-	5	592	c.326G>A	c.(325-327)CGC>CAC	p.R109H	MAD1L1_uc003slf.1_Missense_Mutation_p.R109H|MAD1L1_uc003slg.1_Missense_Mutation_p.R109H|MAD1L1_uc010ksh.1_Missense_Mutation_p.R109H|MAD1L1_uc003sli.1_5'UTR|MAD1L1_uc010ksi.1_Missense_Mutation_p.R62H|MAD1L1_uc010ksj.2_Missense_Mutation_p.R109H	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	109	Potential.				cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		CTGCCGGATGCGCGTCAGGAG	0.657													6	63					0	0	0.021553	0	0		T	2262355	T	T	2262355	3	4	176	1	0	0	0	0	1	0	0	0	9165	768	27	1	1890	1	MAD1L1	7	2262355	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		2262355	156876308	48	91065											
EPDR1	54749	broad.mit.edu	37	chr7	37960772	37960772	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggctcaaccagcgcgtgcgGgtgctggacgagaggaaggc	8	4	19	10	4	1	1	1	0	0	1	1	4	1	3	1	5	4	2	1	5	2	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr7:37960772G>A	uc003tfp.2	+	1	610	c.591G>A	c.(589-591)CGG>CGA	p.R197R	EPDR1_uc003tfq.2_Silent_p.R197R|EPDR1_uc010kxh.2_5'Flank	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	77					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						AGCGCGTGCGGGTGCTGGACG	0.701													3	31					0	0	0.009096	0	0		A	37960772	A	A	37960772	2	1	176	1	0	0	0	0	0	0	0	1	5171	1219	43	4		4	EPDR1	7	37960772	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	35698417	37960772	121177891	49	91066											
PHTF2	57157	broad.mit.edu	37	chr7	77523312	77523312	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtacagtttattaaactggTaagtgtttcaggatttttcc	10	18	8	5	0	1	0	1	0	0	0	2	1	2	1	1	2	2	4	1	2	5	8			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr7:77523312T>G	uc003ugs.3	+	4	342	c.216_splice	c.e4+2	p.L72_splice	PHTF2_uc003ugo.3_Intron|PHTF2_uc003ugp.2_Intron|PHTF2_uc003ugq.3_Intron|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugr.3_Splice_Site_p.L38_splice|PHTF2_uc003ugt.3_Splice_Site_p.L38_splice|PHTF2_uc003ugu.3_Intron	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						ATTAAACTGGTAAGTGTTTCA	0.398													26	79					0	0	0.030593	0	0		G	77523312	G	G	77523312	5	3	176	1	0	0	0	0	0	0	1	0	11882	1652	57	5	126	5	PHTF2	7	77523312	Splice_Site	SNP	T	TCGA-D7-6817-01A-11D-1882-08	39562540	77523312	81615351	50	91067											
AKAP9	10142	broad.mit.edu	37	chr7	91570197	91570198	+	Translation_Start_Site	INS	-	GGC	GGC																															gtttacgtggagacgaagatINSggcggcggcggcggcggtga																										TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr7:91570197_91570198insGGC	uc003ulg.2	+	1	9_10	c.-216_-215insGGC	c.(-218--213)GATGGC>GATGGCGGC		AKAP9_uc003uld.3_Translation_Start_Site|AKAP9_uc003ule.2_Translation_Start_Site|AKAP9_uc003ulf.2_Translation_Start_Site	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2						G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAGACGAAGATggcggcggcgg	0.629			T	BRAF	papillary thyroid								4	8	---	---	---	---						.	GGC	91570198	GGC	GGC	91570197	6	5	176	1	0	1	1	0	0	0	0	0	459	1479	51	0		0	AKAP9	7	91570197	Translation_Start_Site	INS	-	TCGA-D7-6817-01A-11D-1882-08	14046885	91570197	67568466	51	91068											
PREX2	80243	broad.mit.edu	37	chr8	68930132	68930133	+	Nonsense_Mutation	DNP	GT	TA	TA																															catcaaaagttgacaaaaatGtgacagaagaaacagtgaag																										TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr8:68930132_68930133GT>TA	uc003xxv.1	+	2	220_221	c.193_194GT>TA	c.(193-195)GTG>TAG	p.V65*	PREX2_uc003xxu.1_Nonsense_Mutation_p.V65*|PREX2_uc011lez.1_Intron	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	65	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TGACAAAAATGTGACAGAAGAA	0.396													6	18					0	0	0.004672	0	0		TA	68930133	TA	TA	68930132	4	4	176	1	0	0	0	0	0	1	0	0	12499	1377	48	5	199	5	PREX2	8	68930132	Nonsense_Mutation	DNP	GT	TCGA-D7-6817-01A-11D-1882-08		68930132	77433890	52	91069											
PREX2	80243	broad.mit.edu	37	chr8	68982086	68982086	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gtagggtgtaagattatattGtcgtcttcatagccttttta	9	18	9	5	1	2	1	1	0	1	1	3	1	2	1	1	1	1	2	1	1	6	10			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr8:68982086G>T	uc003xxv.1	+	13	1487	c.1460G>T	c.(1459-1461)TGT>TTT	p.C487F	PREX2_uc003xxu.1_Missense_Mutation_p.C487F|PREX2_uc011lez.1_Missense_Mutation_p.C422F	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	487					G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						AGATTATATTGTCGTCTTCAT	0.299													9	146					1.76689e-08	2.0172e-08	0.006214	1	0		T	68982086	T	T	68982086	3	4	176	1	0	0	0	0	1	0	0	0	12499	1377	48	5	1510	5	PREX2	8	68982086	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	51954	68982086	77381936	53	91070											
SLCO5A1	81796	broad.mit.edu	37	chr8	70594509	70594509	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacagactggctcatactcGtgtattttacaaccacaatt	12	12	5	12	1	1	1	1	0	0	1	2	1	1	1	2	1	3	2	2	1	5	5			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr8:70594509G>T	uc003xyl.2	-	7	2399	c.1692C>A	c.(1690-1692)CAC>CAA	p.H564Q	SLCO5A1_uc010lzb.2_Missense_Mutation_p.H509Q|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_Missense_Mutation_p.H564Q	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	564	Extracellular (Potential).|Kazal-like.					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			GCTCATACTCGTGTATTTTAC	0.433													17	108					3.32936e-07	3.73871e-07	0.038395	1	0		T	70594509	T	T	70594509	3	4	176	1	0	0	0	0	1	0	0	0	14756	1136	40	5	870	5	SLCO5A1	8	70594509	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	1612423	70594509	75769513	54	91071											
ZFHX4	79776	broad.mit.edu	37	chr8	77690640	77690640	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggaggacaacctcagtgagaTcttttttgttaaagattgcc	11	13	10	7	0	2	2	1	1	1	2	2	5	2	4	2	2	2	1	2	2	3	5			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr8:77690640T>A	uc003yav.2	+	4	3599	c.3212T>A	c.(3211-3213)ATC>AAC	p.I1071N	ZFHX4_uc003yau.1_Missense_Mutation_p.I1097N|ZFHX4_uc003yaw.1_Missense_Mutation_p.I1071N	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1071						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTCAGTGAGATCTTTTTTGTT	0.502										HNSCC(33;0.089)			26	239					0	0	0.024334	0	0		A	77690640	A	A	77690640	3	1	176	1	0	0	0	0	1	0	0	0	17660	1435	50	5	3300	5	ZFHX4	8	77690640	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	7096131	77690640	68673382	55	91072											
SLC26A7	115111	broad.mit.edu	37	chr8	92355626	92355626	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatagtttcttcatttttcTtctgcataccaagtgctgct	8	19	5	9	0	4	0	1	0	3	0	4	0	4	0	1	0	4	4	1	0	4	8			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr8:92355626T>G	uc003yex.2	+	10	1350	c.1072T>G	c.(1072-1074)TTC>GTC	p.F358V	SLC26A7_uc003yey.2_RNA|SLC26A7_uc003yez.2_Missense_Mutation_p.F358V|SLC26A7_uc003yfa.2_Missense_Mutation_p.F358V	NM_052832	NP_439897	Q8TE54	S26A7_HUMAN	solute carrier family 26, member 7 isoform a	358	Helical; (Potential).					basolateral plasma membrane|integral to membrane|recycling endosome membrane	anion:anion antiporter activity|bicarbonate transmembrane transporter activity|chloride channel activity|oxalate transmembrane transporter activity|sulfate transmembrane transporter activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(11;0.00802)			TTCATTTTTCTTCTGCATACC	0.428													5	35					0	0	0.021553	0	0		G	92355626	G	G	92355626	3	3	176	1	0	0	0	0	1	0	0	0	14547	1609	56	5	1102	5	SLC26A7	8	92355626	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	14664986	92355626	54008396	56	91073											
EIF3H	8667	broad.mit.edu	37	chr8	117671101	117671101	+	Silent	SNP	A	G	G	1	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	gcatgctggtaactaaactgAgagtccaggagtgcccgggt	10	8	14	9	1	0	1	0	1	0	1	1	3	1	2	2	3	4	3	2	3	3	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr8:117671101A>G	uc003yoa.2	-	3	434	c.408T>C	c.(406-408)TCT>TCC	p.S136S	EIF3H_uc003yob.2_Silent_p.S150S|EIF3H_uc011lhz.1_Silent_p.S136S	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	136	MPN.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(3)	3	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)					AACTAAACTGAGAGTCCAGGA	0.413													20	130					0	0	0.014323	0	0		G	117671101	G	G	117671101	2	3	176	1	0	0	0	0	0	0	0	1	5026	291	11	3		3	EIF3H	8	117671101	Silent	SNP	A	TCGA-D7-6817-01A-11D-1882-08	25315475	117671101	28692921	57	91074											
COL14A1	7373	broad.mit.edu	37	chr8	121256184	121256184	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ttcctgatactgaatacaaaGtcacagtgactcccatctac	13	11	5	12	0	2	3	1	3	1	0	4	3	4	3	2	0	3	0	2	0	5	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr8:121256184G>C	uc003yox.2	+	20	2681	c.2416G>C	c.(2416-2418)GTC>CTC	p.V806L	COL14A1_uc003yoy.2_Missense_Mutation_p.V484L	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	806	Fibronectin type-III 6.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TGAATACAAAGTCACAGTGAC	0.488													59	332					0	0	0.01441	0	0		C	121256184	C	C	121256184	3	2	176	1	0	0	0	0	1	0	0	0	3674	1029	36	5	2490	5	COL14A1	8	121256184	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	3585083	121256184	25107838	58	91075											
TLE4	7091	broad.mit.edu	37	chr9	82335006	82335006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagattgctccctgatggtCgcaccctaattgttggaggg	7	11	13	10	1	0	2	0	1	0	1	2	3	1	3	2	3	1	4	2	3	1	4	rs140356709		TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr9:82335006C>T	uc004ald.2	+	17	2560	c.1711C>T	c.(1711-1713)CGC>TGC	p.R571C	TLE4_uc004alc.2_Missense_Mutation_p.R546C|TLE4_uc010mpr.2_Missense_Mutation_p.R425C|TLE4_uc004ale.2_Missense_Mutation_p.R183C|TLE4_uc011lsq.1_Missense_Mutation_p.R514C|TLE4_uc010mps.2_Missense_Mutation_p.R470C|TLE4_uc004alf.2_Missense_Mutation_p.R485C	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment								p.R546C(1)		lung(2)|ovary(1)|breast(1)|skin(1)	5						CCCTGATGGTCGCACCCTAAT	0.517													31	45					0	0	0.045705	0	0		T	82335006	T	T	82335006	3	4	176	1	0	0	0	0	1	0	0	0	15966	884	31	1	1698	1	TLE4	9	82335006	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		82335006	58878425	59	91076											
PAPPA	5069	broad.mit.edu	37	chr9	118974146	118974146	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtggtgacccagggccagGaaatgacacctgtggctttc	8	9	13	11	0	0	2	0	2	0	0	1	3	0	3	3	4	0	1	3	4	1	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr9:118974146G>T	uc004bjn.2	+	4	2234	c.1853G>T	c.(1852-1854)GGA>GTA	p.G618V	PAPPA_uc011lxp.1_Intron|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	618					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						CCAGGGCCAGGAAATGACACC	0.532													65	245					2.5377e-55	3.04969e-55	0.01441	1	0		T	118974146	T	T	118974146	3	4	176	1	0	0	0	0	1	0	0	0	11451	1174	41	5	1867	5	PAPPA	9	118974146	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	36639140	118974146	22239285	60	91077											
ZNF33B	7582	broad.mit.edu	37	chr10	43089832	43089832	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttttcaaaacttcatttttcTctcgagtatgagtttcatca	10	19	4	8	1	5	1	4	1	1	0	7	2	5	1	0	0	1	2	0	0	3	7			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr10:43089832T>C	uc001jaf.1	-	5	681	c.566A>G	c.(565-567)GAG>GGG	p.E189G	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.E77G|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	189						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCATTTTTCTCTCGAGTATG	0.323													33	73					0	0	0.045705	0	0		C	43089832	C	C	43089832	3	2	176	1	0	0	0	0	1	0	0	0	17880	1551	54	3	1774	3	ZNF33B	10	43089832	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08		43089832	92444915	61	91078											
CDHR1	92211	broad.mit.edu	37	chr10	85962839	85962839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catggcccctgtcttcgtggGcacaccctactatggctatg	6	11	10	14	1	1	0	0	0	1	0	2	0	1	0	3	3	1	2	3	3	3	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr10:85962839G>A	uc001kcv.2	+	8	743	c.743G>A	c.(742-744)GGC>GAC	p.G248D	CDHR1_uc001kcw.2_Missense_Mutation_p.G248D|CDHR1_uc009xst.2_Missense_Mutation_p.G7D	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	248	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						GTCTTCGTGGGCACACCCTAC	0.612													4	80					0	0	0.014758	0	0		A	85962839	A	A	85962839	3	1	176	1	0	0	0	0	1	0	0	0	3121	1203	42	2	773	2	CDHR1	10	85962839	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	42873007	85962839	49571908	62	91079											
CEP55	55165	broad.mit.edu	37	chr10	95276832	95276832	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaatatgaagaaacccaaAaagaagttcacaatttaaat	23	8	5	5	0	1	3	1	1	0	2	1	4	1	3	1	0	1	1	1	0	11	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr10:95276832A>G	uc009xug.2	+	6	1002	c.820A>G	c.(820-822)AAA>GAA	p.K274E	CEP55_uc001kiq.3_Missense_Mutation_p.K274E	NM_001127182	NP_001120654	Q53EZ4	CEP55_HUMAN	centrosomal protein 55kDa	274	Potential.				cell division|mitosis	centriole|cleavage furrow|midbody					0		Colorectal(252;0.207)				AGAAACCCAAAAAGAAGTTCA	0.358													5	52					0	0	0.021553	0	0		G	95276832	G	G	95276832	3	3	176	1	0	0	0	0	1	0	0	0	3258	15	1	3	838	3	CEP55	10	95276832	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	9313993	95276832	40257915	63	91080											
TCERG1L	256536	broad.mit.edu	37	chr10	133106478	133106478	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttatttgggcaccaacctggGatgggctgaggtgctaacac	9	10	13	9	0	0	1	0	1	0	0	0	2	0	2	2	4	3	3	2	4	3	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr10:133106478G>C	uc001lkp.2	-	3	752	c.666C>G	c.(664-666)ATC>ATG	p.I222M		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	222										large_intestine(2)|ovary(2)	4		all_cancers(35;1.22e-10)|all_epithelial(44;2.65e-09)|Lung NSC(174;0.00188)|all_lung(145;0.00307)|Melanoma(40;0.0179)|all_neural(114;0.0424)|Breast(234;0.0743)|Colorectal(57;0.09)		all cancers(32;0.000899)|OV - Ovarian serous cystadenocarcinoma(35;0.0021)|Epithelial(32;0.00276)		ACCAACCTGGGATGGGCTGAG	0.453													3	17					0	0	0.004672	0	0		C	133106478	C	C	133106478	3	2	176	1	0	0	0	0	1	0	0	0	15711	1164	41	5	1134	5	TCERG1L	10	133106478	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	37829646	133106478	2428269	64	91081											
NUP98	4928	broad.mit.edu	37	chr11	3716751	3716751	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagtctgcttggagctgatgCcagtccaccaactgcatggt	8	10	12	11	0	1	1	0	1	1	0	2	3	2	2	3	2	5	3	3	2	1	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr11:3716751C>T	uc001lyh.2	-	26	4386	c.4095G>A	c.(4093-4095)TGG>TGA	p.W1365*	NUP98_uc001lyi.2_Nonsense_Mutation_p.W1365*|NUP98_uc001lyg.2_Nonsense_Mutation_p.W330*	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1382					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GGAGCTGATGCCAGTCCACCA	0.483			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								4	202					0	0	0.009096	0	0		T	3716751	T	T	3716751	4	4	176	1	0	0	0	0	0	1	0	0	10792	740	26	2	1339	2	NUP98	11	3716751	Nonsense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		3716751	131289765	65	91082											
MAPK8IP1	9479	broad.mit.edu	37	chr11	45924104	45924104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgggggtcggggccactcGcatcgagaccgaatccacta	8	6	13	14	4	0	1	0	0	0	1	4	3	1	1	4	4	0	1	4	4	2	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr11:45924104G>A	uc001nbr.2	+	5	956	c.786G>A	c.(784-786)TCG>TCA	p.S262S		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	262	JNK-binding domain (JBD).				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		GGGGCCACTCGCATCGAGACC	0.687													4	28					0	0	0.009096	0	0		A	45924104	A	A	45924104	2	1	176	1	0	0	0	0	0	0	0	1	9302	1074	38	1		1	MAPK8IP1	11	45924104	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	42207353	45924104	89082412	66	91083											
OR9G9	504191	broad.mit.edu	37	chr11	56468183	56468183	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcttctctgcagggctggCctatagtgagtgctacctgc	5	13	11	12	0	2	1	0	1	2	0	3	1	2	1	2	2	4	3	2	2	3	5			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr11:56468183C>A	uc010rjn.1	+	1	320	c.320C>A	c.(319-321)GCC>GAC	p.A107D		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	107	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCAGGGCTGGCCTATAGTGAG	0.537													16	177					6.38683e-12	7.41522e-12	0.037714	1	0		A	56468183	A	A	56468183	3	1	176	1	0	0	0	0	1	0	0	0	11271	739	26	5	322	5	OR9G9	11	56468183	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	10544079	56468183	78538333	67	91084											
ACTN3	89	broad.mit.edu	37	chr11	66330310	66330310	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaccatggtggaccccaAcgcagctggggtggtgacct	8	7	14	12	1	0	2	0	2	0	0	0	3	0	3	4	5	2	2	4	5	1	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr11:66330310A>T	uc001oio.1	+	21	2450	c.2432A>T	c.(2431-2433)AAC>ATC	p.N811I	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	811	EF-hand 2.|2; possibly ancestral.				focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle				0						GTGGACCCCAACGCAGCTGGG	0.567													48	246					0	0	0.01441	0	0		T	66330310	T	T	66330310	3	4	176	1	0	0	0	0	1	0	0	0	206	43	2	5	2510	5	ACTN3	11	66330310	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	9862127	66330310	68676206	68	91085											
ODZ4	26011	broad.mit.edu	37	chr11	78387401	78387401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcagccgcaaggagccatcGgccccgatgtagtagctgtt	9	7	13	12	3	0	0	0	0	0	0	1	2	0	1	4	2	4	6	4	2	3	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr11:78387401G>A	uc001ozl.3	-	30	5755	c.5292C>T	c.(5290-5292)GCC>GCT	p.A1764A	ODZ4_uc001ozk.3_5'UTR|ODZ4_uc009yvb.1_Silent_p.A348A	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1764	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AGGAGCCATCGGCCCCGATGT	0.627													15	23					0	0	0.024245	0	0		A	78387401	A	A	78387401	2	1	176	1	0	0	0	0	0	0	0	1	10856	1103	39	1		1	ODZ4	11	78387401	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	12057091	78387401	56619115	69	91086											
PGR	5241	broad.mit.edu	37	chr11	100999722	100999722	+	Missense_Mutation	SNP	A	G	G	1	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	ctgcggctgggcgacacagcAgtggggatccgacctcgggg	6	5	18	12	4	0	0	0	0	0	0	2	3	1	1	2	6	2	2	2	6	0	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr11:100999722A>G	uc001pgh.2	-	1	823	c.80T>C	c.(79-81)CTG>CCG	p.L27P	PGR_uc001pgi.2_Missense_Mutation_p.L27P|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	27	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	GCGACACAGCAGTGGGGATCC	0.667													7	20					0	0	0.02938	0	0		G	100999722	G	G	100999722	3	3	176	1	0	0	0	0	1	0	0	0	11824	188	7	3	2753	3	PGR	11	100999722	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	22612321	100999722	34006794	70	91087											
LRRK2	120892	broad.mit.edu	37	chr12	40689398	40689398	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggagcatcttgaaaagctGgagcttcaccagaatgcact	12	10	10	9	0	2	2	1	1	1	1	2	4	2	4	1	2	4	4	1	2	3	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr12:40689398G>T	uc001rmg.3	+	23	3169	c.3048G>T	c.(3046-3048)CTG>CTT	p.L1016L	LRRK2_uc001rmh.1_Silent_p.L638L|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1016	LRR 2.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				TTGAAAAGCTGGAGCTTCACC	0.363													9	54					0.00621372	0.00670298	0.006214	1	0		T	40689398	T	T	40689398	2	4	176	1	0	0	0	0	0	0	0	1	9051	1335	47	5		5	LRRK2	12	40689398	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08		40689398	93162497	71	91088											
ANKRD52	283373	broad.mit.edu	37	chr12	56650822	56650822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtttcgggaggcagcagcacGatgaagaggggtcagccaca	11	5	16	9	2	1	2	1	1	0	1	2	4	1	3	1	4	3	4	1	4	1	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr12:56650822G>A	uc001skm.3	-	4	328	c.238C>T	c.(238-240)CGT>TGT	p.R80C	ANKRD52_uc001skn.1_RNA	NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	80	ANK 3.						protein binding			ovary(2)	2						GCAGCAGCACGATGAAGAGGG	0.488													13	50					0	0	0.024245	0	0		A	56650822	A	A	56650822	3	1	176	1	0	0	0	0	1	0	0	0	678	1058	37	1	3092	1	ANKRD52	12	56650822	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	15961424	56650822	77201073	72	91089											
FZD10	11211	broad.mit.edu	37	chr12	130648028	130648028	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccacagcgcgcaggagcacCcgctgaaggacgggggcccc	8	1	15	17	4	0	1	0	1	0	0	0	3	0	3	4	4	2	3	4	4	1	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr12:130648028C>G	uc001uii.2	+	1	997	c.541C>G	c.(541-543)CCG>GCG	p.P181A	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	181	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GCAGGAGCACCCGCTGAAGGA	0.652													17	36					0	0	0.008871	0	0		G	130648028	G	G	130648028	3	3	176	1	0	0	0	0	1	0	0	0	6143	623	22	5	543	5	FZD10	12	130648028	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	73997206	130648028	3203867	73	91090											
MTUS2	23281	broad.mit.edu	37	chr13	29933476	29933476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggcccgtgaggctgagCggcagctggtgctgcggctg	4	6	19	12	4	0	2	0	2	0	0	0	2	0	2	1	5	4	6	1	5	0	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr13:29933476C>T	uc001usl.3	+	6	3071	c.3013C>T	c.(3013-3015)CGG>TGG	p.R1005W		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	995	Localization to the growing distal tip of microtubules.|Potential.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TGAGGCTGAGCGGCAGCTGGT	0.627													6	20					0	0	0.021553	0	0		T	29933476	T	T	29933476	3	4	176	1	0	0	0	0	1	0	0	0	9984	759	27	1	3035	1	MTUS2	13	29933476	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		29933476	85236402	74	91091											
FRY	10129	broad.mit.edu	37	chr13	32869526	32869526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagatccgggacatgatcCgcagggcccagagttaccga	10	6	14	11	3	0	3	0	1	0	2	2	6	2	4	4	3	1	2	4	3	1	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr13:32869526C>T	uc001utx.2	+	61	9467	c.8971C>T	c.(8971-8973)CGC>TGC	p.R2991C	FRY_uc010tdw.1_RNA|FRY_uc001utz.2_Missense_Mutation_p.R522C|FRY_uc010tdx.1_Missense_Mutation_p.R361C	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2991					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GGACATGATCCGCAGGGCCCA	0.567													13	98					0	0	0.013537	0	0		T	32869526	T	T	32869526	3	4	176	1	0	0	0	0	1	0	0	0	6077	652	23	1	9213	1	FRY	13	32869526	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	2936050	32869526	82300352	75	91092											
ATP7B	540	broad.mit.edu	37	chr13	52509058	52509058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtggccctgggggagtccCgccacctgtcatccatgcct	4	9	13	15	1	1	0	1	0	0	0	3	1	3	1	6	3	1	0	6	3	0	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr13:52509058C>T	uc001vfw.2	-	21	4389	c.4232G>A	c.(4231-4233)CGG>CAG	p.R1411Q	ATP7B_uc010adv.2_Missense_Mutation_p.R981Q|ATP7B_uc001vfx.2_Missense_Mutation_p.R1204Q|ATP7B_uc001vfy.2_Missense_Mutation_p.R1300Q|ATP7B_uc010tgt.1_Missense_Mutation_p.R1346Q|ATP7B_uc010tgu.1_Missense_Mutation_p.R1363Q|ATP7B_uc010tgv.1_Missense_Mutation_p.R1333Q|ATP7B_uc001vfv.2_Missense_Mutation_p.R683Q|ATP7B_uc010tgs.1_Missense_Mutation_p.R622Q	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1411	Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding	p.R1411W(1)		ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		GGGGGAGTCCCGCCACCTGTC	0.627									Wilson_disease				28	82					0	0	0.013726	0	0		T	52509058	T	T	52509058	3	4	176	1	0	0	0	0	1	0	0	0	1192	652	23	1	169	1	ATP7B	13	52509058	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	19639532	52509058	62660820	76	91093											
LRRC16B	90668	broad.mit.edu	37	chr14	24538052	24538052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggctgtgcccaggggcCgccagcctccccaggagcca	6	4	14	17	1	0	0	0	0	0	0	1	1	1	1	7	4	3	1	7	4	0	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr14:24538052C>T	uc001wlj.2	+	38	4016	c.3859C>T	c.(3859-3861)CGC>TGC	p.R1287C	LRRC16B_uc001wlk.2_Missense_Mutation_p.R340C|CPNE6_uc010tnv.1_5'Flank|CPNE6_uc001wlm.2_5'Flank|CPNE6_uc001wll.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	1287										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		GCCCAGGGGCCGCCAGCCTCC	0.642													8	35					0	0	0.038147	0	0		T	24538052	T	T	24538052	3	4	176	1	0	0	0	0	1	0	0	0	8990	652	23	1	4009	1	LRRC16B	14	24538052	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		24538052	82811488	77	91094											
NYNRIN	57523	broad.mit.edu	37	chr14	24884910	24884910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcgggctactgcttctacCgtgaggatgagtggtgtgct	5	13	15	8	2	1	2	0	2	1	0	2	3	1	3	1	3	4	3	1	3	2	3			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr14:24884910C>T	uc001wpf.3	+	9	4273	c.3955C>T	c.(3955-3957)CGT>TGT	p.R1319C		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1319					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						CTGCTTCTACCGTGAGGATGA	0.592													8	374					0	0	0.038147	0	0		T	24884910	T	T	24884910	3	4	176	1	0	0	0	0	1	0	0	0	10815	652	23	1	3985	1	NYNRIN	14	24884910	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	346858	24884910	82464630	78	91095											
COCH	1690	broad.mit.edu	37	chr14	31354637	31354637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgctcagaaattcttcacGgtagatgctggagtaagaaa	14	10	10	7	1	3	3	2	0	1	3	3	4	3	4	0	2	2	4	0	2	4	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr14:31354637G>A	uc001wqr.2	+	10	851	c.771G>A	c.(769-771)ACG>ACA	p.T257T	COCH_uc001wqp.2_Silent_p.T257T|COCH_uc001wqq.3_Silent_p.T257T|uc001wqs.2_RNA|COCH_uc001wqt.1_Silent_p.T108T	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	257	VWFA 1.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		AATTCTTCACGGTAGATGCTG	0.433													8	87					0	0	0.006214	0	0		A	31354637	A	A	31354637	2	1	176	1	0	0	0	0	0	0	0	1	3659	1103	39	1		1	COCH	14	31354637	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	6469727	31354637	75994903	79	91096											
PELI2	57161	broad.mit.edu	37	chr14	56757012	56757012	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcaaagtggaaaaacccCgacggccacatggatgggct	13	4	13	11	2	0	0	0	0	0	0	0	3	0	2	3	4	2	3	3	4	3	0	rs146968853		TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr14:56757012C>T	uc001xch.2	+	5	820	c.534C>T	c.(532-534)CCC>CCT	p.P178P		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	178					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						GGAAAAACCCCGACGGCCACA	0.517													21	115					0	0	0.014323	0	0		T	56757012	T	T	56757012	2	4	176	1	0	0	0	0	0	0	0	1	11741	639	23	1		1	PELI2	14	56757012	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	25402375	56757012	50592528	80	91097											
ESR2	2100	broad.mit.edu	37	chr14	64746715	64746715	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaccttgaatgcttcttttAaaaaaggccttacatccttc	11	15	5	10	0	1	1	0	1	1	0	3	1	2	1	3	1	3	2	3	1	6	7			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr14:64746715A>T	uc001xha.1	-	3	987	c.519T>A	c.(517-519)TTT>TTA	p.F173L	ESR2_uc001xgu.2_Missense_Mutation_p.F173L|ESR2_uc001xgv.2_Missense_Mutation_p.F173L|ESR2_uc001xgw.2_RNA|ESR2_uc001xgx.2_Missense_Mutation_p.F173L|ESR2_uc001xgy.1_Missense_Mutation_p.F173L|ESR2_uc001xgz.1_Missense_Mutation_p.F173L|ESR2_uc010aqb.1_Intron|ESR2_uc010aqc.1_Missense_Mutation_p.F173L	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	173	Nuclear receptor.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	TGCTTCTTTTAAAAAAGGCCT	0.413													62	258					0	0	0.01441	0	0		T	64746715	T	T	64746715	3	4	176	1	0	0	0	0	1	0	0	0	5265	359	13	5	1187	5	ESR2	14	64746715	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	7989703	64746715	42602825	81	91098											
ESRRB	2103	broad.mit.edu	37	chr14	76905997	76905997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcaacgccatccccaagCgcctgtgcctcgtgtgcggg	5	8	12	16	4	1	0	1	0	0	0	3	0	2	0	5	1	5	1	5	1	2	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr14:76905997C>T	uc001xsq.1	+	2	368	c.301C>T	c.(301-303)CGC>TGC	p.R101C	ESRRB_uc001xsr.2_Missense_Mutation_p.R101C|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	101						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		CATCCCCAAGCGCCTGTGCCT	0.622													11	39					0	0	0.008291	0	0		T	76905997	T	T	76905997	3	4	176	1	0	0	0	0	1	0	0	0	5269	768	27	1	303	1	ESRRB	14	76905997	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	12159282	76905997	30443543	82	91099											
STUB1	10273	broad.mit.edu	37	chr16	732036	732036	+	Missense_Mutation	SNP	A	C	C	1	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	acaggacaagtacatggcggAcatggacgagcttttttctc	11	10	11	9	2	1	0	0	0	1	0	2	4	1	3	0	4	2	2	0	4	2	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr16:732036A>C	uc002cit.2	+	5	1040	c.629A>C	c.(628-630)GAC>GCC	p.D210A	STUB1_uc002ciu.2_Missense_Mutation_p.D138A|STUB1_uc010bqz.2_RNA|STUB1_uc002civ.2_RNA|JMJD8_uc002ciw.1_3'UTR|JMJD8_uc002cix.1_3'UTR|JMJD8_uc002ciy.1_3'UTR	NM_005861	NP_005852	Q9UNE7	CHIP_HUMAN	STIP1 homology and U-box containing protein 1	210					cellular response to misfolded protein|DNA repair|misfolded or incompletely synthesized protein catabolic process|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K63-linked ubiquitination|protein maturation|regulation of glucocorticoid metabolic process|ubiquitin-dependent SMAD protein catabolic process	cytoplasm|nuclear inclusion body|ubiquitin conjugating enzyme complex|ubiquitin ligase complex	Hsp70 protein binding|Hsp90 protein binding|kinase binding|misfolded protein binding|protein binding, bridging|protein homodimerization activity|SMAD binding|TPR domain binding|ubiquitin-ubiquitin ligase activity				0		Hepatocellular(780;0.00335)				TACATGGCGGACATGGACGAG	0.582													11	304					0	0	0.020292	0	0		C	732036	C	C	732036	3	2	176	1	0	0	0	0	1	0	0	0	15360	275	10	5	647	5	STUB1	16	732036	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08		732036	89622717	83	91100											
KIAA0430	9665	broad.mit.edu	37	chr16	15703512	15703512	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggcatccggaaatggggTtggtgacgcagcaaatcaac	13	6	14	8	2	1	1	1	1	0	0	2	2	2	2	1	5	2	4	1	5	4	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr16:15703512T>C	uc002ddr.2	-	20	4015	c.3822A>G	c.(3820-3822)CAA>CAG	p.Q1274Q	KIAA0430_uc002ddq.2_Silent_p.Q1108Q|KIAA0430_uc010uzv.1_Silent_p.Q1270Q|KIAA0430_uc010uzw.1_Silent_p.Q1273Q	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	1273						peroxisome	nucleotide binding|RNA binding				0						GGAAATGGGGTTGGTGACGCA	0.403													14	72					0	0	0.020292	0	0		C	15703512	C	C	15703512	2	2	176	1	0	0	0	0	0	0	0	1	8193	1722	60	3		3	KIAA0430	16	15703512	Silent	SNP	T	TCGA-D7-6817-01A-11D-1882-08	14971476	15703512	74651241	84	91101											
TP53	7157	broad.mit.edu	37	chr17	7577120	7577120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcccaggacaggcacaaacaCgcacctcaaagctgttccgt	12	6	8	15	2	1	0	1	0	0	0	3	1	3	1	3	2	2	4	3	2	2	1	rs28934576	by1000genomes	TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr17:7577120C>T	uc002gim.2	-	8	1012	c.818G>A	c.(817-819)CGT>CAT	p.R273H	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141H|TP53_uc010cng.1_Missense_Mutation_p.R141H|TP53_uc002gii.1_Missense_Mutation_p.R141H|TP53_uc010cnh.1_Missense_Mutation_p.R273H|TP53_uc010cni.1_Missense_Mutation_p.R273H|TP53_uc002gij.2_Missense_Mutation_p.R273H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(469)|p.R273C(394)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGCACAAACACGCACCTCAAA	0.542	R273H(NCIH1793_LUNG)|R273H(MOLT13_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PANC1_PANCREAS)|R273H(NCIH508_LARGE_INTESTINE)|R273H(NCIH1975_LUNG)|R273H(U251MG_CENTRAL_NERVOUS_SYSTEM)|R273H(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273H(NCIH2405_LUNG)|R273H(HEC59_ENDOMETRIUM)|R273H(NCIH1155_LUNG)|R273H(HT_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(EN_ENDOMETRIUM)|R273H(SNB19_CENTRAL_NERVOUS_SYSTEM)|R273H(MDAMB468_BREAST)|R273H(SUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273H(SW620_LARGE_INTESTINE)|R273H(SUIT2_PANCREAS)|R273H(SW480_LARGE_INTESTINE)|R273H(SKMEL30_SKIN)|R273H(OC314_OVARY)|R273H(HEC6_ENDOMETRIUM)|R273H(HT29_LARGE_INTESTINE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			10	23					0	0	0.006214	0	0		T	7577120	T	T	7577120	3	4	176	1	0	0	0	0	1	0	0	0	16407	536	19	1	468	1	TP53	17	7577120	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		7577120	73618090	85	91102											
MYH8	4626	broad.mit.edu	37	chr17	10300235	10300235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gctgcttcgtcttctcaaggGaagcacatttggcgttcaca	8	12	10	11	2	3	0	2	0	2	0	5	1	3	1	0	2	2	4	0	2	2	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr17:10300235G>A	uc002gmm.2	-	31	4342	c.4247C>T	c.(4246-4248)TCC>TTC	p.S1416F	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1416	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CTTCTCAAGGGAAGCACATTT	0.498									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				15	105					0	0	0.0333	0	0		A	10300235	A	A	10300235	3	1	176	1	0	0	0	0	1	0	0	0	10059	1174	41	4	1606	4	MYH8	17	10300235	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	2723115	10300235	70894975	86	91103											
NOS2	4843	broad.mit.edu	37	chr17	26107840	26107840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaaggtcaggtgggatttcGaagagctcagggtcacggcc	10	7	15	9	2	3	1	3	0	0	1	4	3	3	2	1	5	1	1	1	5	2	1	rs34719207	byFrequency	TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr17:26107840G>A	uc002gzu.2	-	9	1221	c.957C>T	c.(955-957)TTC>TTT	p.F319F	NOS2_uc010crh.1_Silent_p.F319F|NOS2_uc010wab.1_Silent_p.F319F	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	319					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	GTGGGATTTCGAAGAGCTCAG	0.607													14	84					0	0	0.024245	0	0		A	26107840	A	A	26107840	2	1	176	1	0	0	0	0	0	0	0	1	10562	1049	37	1		1	NOS2	17	26107840	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	15807605	26107840	55087370	87	91104											
EVI2B	2124	broad.mit.edu	37	chr17	29631298	29631298	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatttataacagttctgcagGtggaggtggcagggattcat	10	13	13	5	0	2	0	1	0	1	0	2	2	2	2	0	5	2	3	0	5	3	6			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr17:29631298G>T	uc002hgk.2	-	2	1485	c.1330C>A	c.(1330-1332)CCT>ACT	p.P444T	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2B_uc010csq.2_Missense_Mutation_p.P459T	NM_006495	NP_006486	P34910	EVI2B_HUMAN	ecotropic viral integration site 2B precursor	444	Cytoplasmic (Potential).					cytoplasm|integral to plasma membrane				ovary(2)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;6.88e-13)|Epithelial(4;8.95e-12)|OV - Ovarian serous cystadenocarcinoma(4;1.01e-11)|GBM - Glioblastoma multiforme(4;0.184)		AGTTCTGCAGGTGGAGGTGGC	0.363													7	83					1.12685e-05	1.24499e-05	0.004482	1	0		T	29631298	T	T	29631298	3	4	176	1	0	0	0	0	1	0	0	0	5296	1261	44	5	20	5	EVI2B	17	29631298	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	3523458	29631298	51563912	88	91105											
KIF2B	84643	broad.mit.edu	37	chr17	51900738	51900738	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgtaccgccacgaaatGggttgcgatgatcccccaga	10	6	11	14	4	0	2	0	1	0	1	1	4	1	2	5	1	3	2	5	1	2	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr17:51900738G>C	uc002iua.2	+	1	500	c.344G>C	c.(343-345)TGG>TCG	p.W115S	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	115					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						GCCACGAAATGGGTTGCGATG	0.602													21	160					0	0	0.012319	0	0		C	51900738	C	C	51900738	3	2	176	1	0	0	0	0	1	0	0	0	8314	1357	47	5	346	5	KIF2B	17	51900738	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	22269440	51900738	29294472	89	91106											
MRC2	9902	broad.mit.edu	37	chr17	60742129	60742129	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggcatgtatgagtgtgaCcgggaagcactgaatcttcg	9	10	14	8	2	1	3	0	3	1	0	2	4	1	4	1	2	1	3	1	2	3	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr17:60742129C>G	uc002jad.2	+	2	741	c.339C>G	c.(337-339)GAC>GAG	p.D113E	MRC2_uc002jac.2_Missense_Mutation_p.D113E	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	113	Extracellular (Potential).|Ricin B-type lectin.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						ATGAGTGTGACCGGGAAGCAC	0.612													11	107					0	0	0.008291	0	0		G	60742129	G	G	60742129	3	3	176	1	0	0	0	0	1	0	0	0	9776	506	18	5	345	5	MRC2	17	60742129	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	8841391	60742129	20453081	90	91107											
CANT1	124583	broad.mit.edu	37	chr17	76989937	76989937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagcgctcctggctggcgcGgcgcggcaggaagaaccagc	7	4	17	13	5	0	1	0	0	0	1	1	2	1	2	2	5	3	4	2	5	3	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr17:76989937G>A	uc002jwn.2	-	6	1340	c.901C>T	c.(901-903)CGC>TGC	p.R301C	CANT1_uc002jwk.2_Missense_Mutation_p.R301C|CANT1_uc002jwj.2_Missense_Mutation_p.R301C|CANT1_uc002jwl.2_Intron|CANT1_uc002jwm.1_RNA	NM_001159772	NP_001153244	Q8WVQ1	CANT1_HUMAN	calcium activated nucleotidase 1	301	Lumenal (Potential).			R->A: Reduces activity by 99%.	positive regulation of I-kappaB kinase/NF-kappaB cascade	endoplasmic reticulum membrane|Golgi cisterna membrane|integral to membrane	calcium ion binding|nucleoside-diphosphatase activity|signal transducer activity				0			BRCA - Breast invasive adenocarcinoma(99;0.0362)|OV - Ovarian serous cystadenocarcinoma(97;0.139)			TGGCTGGCGCGGCGCGGCAGG	0.667			T	ETV4	prostate								7	22					0	0	0.02938	0	0		A	76989937	A	A	76989937	3	1	176	1	0	0	0	0	1	0	0	0	2620	1116	39	1	308	1	CANT1	17	76989937	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	16247808	76989937	4205273	91	91108											
TBXA2R	6915	broad.mit.edu	37	chr19	3600344	3600344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acggcagccagggtccacggCgtgccactcgaagagcgcgg	8	3	16	14	6	0	1	0	0	0	1	2	2	1	1	3	4	3	1	3	4	1	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr19:3600344C>T	uc002lyg.1	-	2	503	c.289G>A	c.(289-291)GCC>ACC	p.A97T	TBXA2R_uc002lye.1_Missense_Mutation_p.A97T	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	97	Extracellular (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	GGGTCCACGGCGTGCCACTCG	0.677													43	31					0	0	0.01441	0	0		T	3600344	T	T	3600344	3	4	176	1	0	0	0	0	1	0	0	0	15688	768	27	1	995	1	TBXA2R	19	3600344	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08		3600344	55528639	92	91109											
MUC16	94025	broad.mit.edu	37	chr19	9063102	9063102	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagggtcagggaggatgttGgttctgtctgaattctgcta	8	13	14	6	0	4	1	1	1	3	0	4	3	4	3	0	4	1	3	0	4	3	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr19:9063102G>T	uc002mkp.2	-	3	24548	c.24344C>A	c.(24343-24345)CCA>CAA	p.P8115Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8117	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAGGATGTTGGTTCTGTCTG	0.502													50	95					1.21353e-23	1.44569e-23	0.01441	1	0		T	9063102	T	T	9063102	3	4	176	1	0	0	0	0	1	0	0	0	9991	1348	47	5	19507	5	MUC16	19	9063102	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08	5462758	9063102	50065881	93	91110											
GRIK5	2901	broad.mit.edu	37	chr19	42510819	42510819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaagaaggtcatggtggagCcggcgtggatggtgccatac	9	7	18	7	2	1	1	1	0	0	1	1	4	1	4	2	7	3	0	2	7	3	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr19:42510819C>T	uc002osj.1	-	15	2050	c.2015G>A	c.(2014-2016)GGC>GAC	p.G672D	GRIK5_uc002osi.1_Missense_Mutation_p.G244D	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	672	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	CATGGTGGAGCCGGCGTGGAT	0.632													14	22					0	0	0.024245	0	0		T	42510819	T	T	42510819	3	4	176	1	0	0	0	0	1	0	0	0	6793	739	26	2	947	2	GRIK5	19	42510819	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	33447717	42510819	16618164	94	91111											
NCOA6	23054	broad.mit.edu	37	chr20	33324511	33324511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacctggtctggcaacagagGcctgcagtgctgtggttgaa	8	10	14	9	0	1	2	0	1	1	1	1	2	1	2	2	4	4	4	2	4	3	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr20:33324511G>A	uc002xav.2	-	13	8516	c.5945C>T	c.(5944-5946)GCC>GTC	p.A1982V	NCOA6_uc002xaw.2_Missense_Mutation_p.A1982V	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1982	EP300/CRSP3-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						GGCAACAGAGGCCTGCAGTGC	0.443													4	61					0	0	0.021553	0	0		A	33324511	A	A	33324511	3	1	176	1	0	0	0	0	1	0	0	0	10252	1203	42	2	262	2	NCOA6	20	33324511	Missense_Mutation	SNP	G	TCGA-D7-6817-01A-11D-1882-08		33324511	29701009	95	91112											
JPH2	57158	broad.mit.edu	37	chr20	42744524	42744524	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcggggcggtggccggggaCgagggcgcggactcggaccc	5	2	22	12	7	0	0	0	0	0	0	1	4	0	3	2	9	1	0	2	9	0	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr20:42744524C>T	uc002xli.1	-	4	2664	c.1791G>A	c.(1789-1791)TCG>TCA	p.S597S		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	597	Pro-rich.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TGGCCGGGGACGAGGGCGCGG	0.736													5	69					0	0	0.014758	0	0		T	42744524	T	T	42744524	2	4	176	1	0	0	0	0	0	0	0	1	7977	523	19	1		1	JPH2	20	42744524	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	9420013	42744524	20280996	96	91113											
APCDD1L	164284	broad.mit.edu	37	chr20	57036311	57036311	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaacaccagctcggtgccGccgcggaccctggtggatgg	7	6	14	14	4	1	0	1	0	0	0	2	2	1	2	4	5	3	1	4	5	1	0			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr20:57036311G>A	uc002xze.1	-	4	1227	c.1041C>T	c.(1039-1041)GGC>GGT	p.G347G	APCDD1L_uc010zzp.1_Silent_p.G358G	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	347						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			GCTCGGTGCCGCCGCGGACCC	0.657													14	59					0	0	0.020292	0	0		A	57036311	A	A	57036311	2	1	176	1	0	0	0	0	0	0	0	1	766	1074	38	1		1	APCDD1L	20	57036311	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	14291787	57036311	5989209	97	91114											
KCNQ2	3785	broad.mit.edu	37	chr20	62076114	62076114	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaagcgcaggctccggagCgcagatgtggcaaagacgtt	11	5	16	9	4	0	2	0	0	0	2	1	4	1	4	1	4	2	5	1	4	2	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr20:62076114C>T	uc002yey.1	-	4	765	c.588G>A	c.(586-588)GCG>GCA	p.A196A	KCNQ2_uc002yez.1_Silent_p.A196A|KCNQ2_uc002yfa.1_Silent_p.A196A|KCNQ2_uc002yfb.1_Silent_p.A196A|KCNQ2_uc011aax.1_Silent_p.A196A|KCNQ2_uc002yfc.1_Silent_p.A196A	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	196	Helical; Voltage-sensor; Name=Segment S4; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GGCTCCGGAGCGCAGATGTGG	0.642													4	60					0	0	0.009096	0	0		T	62076114	T	T	62076114	2	4	176	1	0	0	0	0	0	0	0	1	8099	755	27	1		1	KCNQ2	20	62076114	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	5039803	62076114	949406	98	91115											
RTEL1	51750	broad.mit.edu	37	chr20	62326251	62326251	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgacagcctataagcaagaCgacgacctcgacaaggtgct	13	6	10	12	3	0	2	0	1	0	1	1	5	0	2	2	1	3	2	2	1	4	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr20:62326251C>T	uc002yfu.1	+	32	3610	c.3267C>T	c.(3265-3267)GAC>GAT	p.D1089D	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Silent_p.D1089D|RTEL1_uc011abd.1_Silent_p.D1113D|RTEL1_uc011abe.1_Silent_p.D866D|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_Silent_p.D334D|TNFRSF6B_uc002yfy.2_5'Flank|TNFRSF6B_uc002yfz.2_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	1089					DNA repair|regulation of double-strand break repair via homologous recombination|telomere maintenance	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding				0	all_cancers(38;6.47e-12)|all_epithelial(29;3.75e-13)		Epithelial(9;1.25e-09)|all cancers(9;5.13e-09)|BRCA - Breast invasive adenocarcinoma(10;7.26e-05)|OV - Ovarian serous cystadenocarcinoma(5;0.00223)|Colorectal(105;0.107)			ATAAGCAAGACGACGACCTCG	0.662													16	193					0	0	0.012319	0	0		T	62326251	T	T	62326251	2	4	176	1	0	0	0	0	0	0	0	1	13745	535	19	1		1	RTEL1	20	62326251	Silent	SNP	C	TCGA-D7-6817-01A-11D-1882-08	250137	62326251	699269	99	91116											
HSF2BP	11077	broad.mit.edu	37	chr21	44949700	44949700	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgcggtttgcaggcggggGttgcggctcttggacattgc	3	11	18	9	3	1	0	0	0	1	0	1	1	1	1	0	6	4	5	0	6	0	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chr21:44949700G>A	uc002zdi.2	-	9	1271	c.939C>T	c.(937-939)AAC>AAT	p.N313N	HSF2BP_uc011aey.1_Silent_p.N238N	NM_007031	NP_008962	O75031	HSF2B_HUMAN	heat shock transcription factor 2 binding	313					spermatogenesis|transcription from RNA polymerase II promoter	cytosol	binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.18)		GCAGGCGGGGGTTGCGGCTCT	0.587													28	59					0	0	0.041601	0	0		A	44949700	A	A	44949700	2	1	176	1	0	0	0	0	0	0	0	1	7413	1252	44	4		4	HSF2BP	21	44949700	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08		44949700	3180195	100	91117											
SHOX	6473	broad.mit.edu	37	chrX	591691	591691	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagaaaagcaaggacggtaAcggcggaggcggaggcggcg	12	1	19	9	6	0	1	0	0	0	1	0	4	0	4	1	8	2	2	1	8	4	1			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chrX:591691A>G	uc004cph.1	+	2	750	c.59A>G	c.(58-60)AAC>AGC	p.N20S	SHOX_uc004cpi.2_Missense_Mutation_p.N20S	NM_000451	NP_000442	O15266	SHOX_HUMAN	short stature homeobox isoform SHOXa	20	Poly-Gly.				skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AAGGACGGTAACGGCGGAGGC	0.627													41	344					0	0	0.036044	0	0		G	591691	G	G	591691	3	3	176	1	0	0	0	0	1	0	0	0	14313	43	2	3	61	3	SHOX	23	591691	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08		591691	154678869	101	91118											
MAGEB1	4112	broad.mit.edu	37	chrX	30269232	30269232	+	Missense_Mutation	SNP	A	G	G	1	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	tgatgcctctcctgggtgtgAtcttcttaaagggcaactct	7	14	10	10	0	4	2	0	2	4	0	5	2	4	2	2	2	2	1	2	2	3	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chrX:30269232A>G	uc004dcc.2	+	4	942	c.622A>G	c.(622-624)ATC>GTC	p.I208V	MAGEB1_uc004dcd.2_Missense_Mutation_p.I208V|MAGEB1_uc004dce.2_Missense_Mutation_p.I208V	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	208	MAGE.										0						CCTGGGTGTGATCTTCTTAAA	0.488													14	6					0	0	0.016723	0	0		G	30269232	G	G	30269232	3	3	176	1	0	0	0	0	1	0	0	0	9190	333	12	3	624	3	MAGEB1	23	30269232	Missense_Mutation	SNP	A	TCGA-D7-6817-01A-11D-1882-08	29677541	30269232	125001328	102	91119											
CYLC1	1538	broad.mit.edu	37	chrX	83128313	83128313	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaattgttcacaaaaagaTaagaaagattcaaagaattc	23	9	5	4	0	2	4	2	0	0	4	3	4	2	4	0	0	0	1	0	0	8	5			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chrX:83128313T>A	uc004eei.1	+	4	618	c.597T>A	c.(595-597)GAT>GAA	p.D199E	CYLC1_uc004eeh.1_Missense_Mutation_p.D198E	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	199					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						CACAAAAAGATAAGAAAGATT	0.318													5	28					0	0	0.014758	0	0		A	83128313	A	A	83128313	3	1	176	1	0	0	0	0	1	0	0	0	4144	1403	49	5	611	5	CYLC1	23	83128313	Missense_Mutation	SNP	T	TCGA-D7-6817-01A-11D-1882-08	52859081	83128313	72142247	103	91120											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299536	125299536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgtggcctgactgcacGtccaccacaaacagcgtatt	10	9	10	12	2	0	2	0	2	0	0	1	2	1	2	3	1	3	2	3	1	2	2			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chrX:125299536G>A	uc004euk.1	-	1	399	c.372C>T	c.(370-372)GAC>GAT	p.D124D		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	124										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CTGACTGCACGTCCACCACAA	0.642													52	25					0	0	0.01441	0	0		A	125299536	A	A	125299536	2	1	176	1	0	0	0	0	0	0	0	1	4268	1136	40	1		1	DCAF12L2	23	125299536	Silent	SNP	G	TCGA-D7-6817-01A-11D-1882-08	42171223	125299536	29971024	104	91121											
CDR1	1038	broad.mit.edu	37	chrX	139865927	139865927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaaaatccaggtcttccagCcaatatatgtcttcctgaag	14	11	6	10	0	2	1	0	1	2	0	5	1	5	1	4	1	1	0	4	1	7	4			TCGA-D7-6817-01A-11D-1882-08	TCGA-D7-6817-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	b618ff45-c20e-47a8-a770-07be77c6f205	72dc01b0-d290-4a43-9b9e-9a14db9c36df	g.chrX:139865927C>T	uc004fbg.1	-	1	797	c.605G>A	c.(604-606)GGC>GAC	p.G202D	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	202	5.|5 X 6 AA approximate repeats.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				GGTCTTCCAGCCAATATATGT	0.448													30	67					0	0	0.015359	0	0		T	139865927	T	T	139865927	3	4	176	1	0	0	0	0	1	0	0	0	3174	739	26	2	187	2	CDR1	23	139865927	Missense_Mutation	SNP	C	TCGA-D7-6817-01A-11D-1882-08	14566391	139865927	15404633	105	91122											
AJAP1	55966	broad.mit.edu	37	chr1	4772679	4772679	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagaaggatcccaggtggggTtagcacaacggagccttcca	11	6	14	10	1	0	1	0	0	0	1	2	4	2	3	3	5	3	2	3	5	3	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:4772679T>G	uc001alm.1	+	2	1130	c.749T>G	c.(748-750)GTT>GGT	p.V250G	AJAP1_uc001aln.2_Missense_Mutation_p.V250G	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	250	Extracellular (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	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)		CCAGGTGGGGTTAGCACAACG	0.498													48	77					0	0	0.00361	0	0		G	4772679	G	G	4772679	3	3	177	1	0	0	0	0	1	0	0	0	438	1725	60	5	755	5	AJAP1	1	4772679	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08		4772679	244477942	1	91123											
HTR1D	3352	broad.mit.edu	37	chr1	23520606	23520606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaagggagatcttgagcGcctggagggtcctgggatcc	7	7	17	10	2	1	2	0	1	1	1	3	5	3	4	3	5	1	1	3	5	1	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:23520606G>A	uc001bgn.2	-	1	617	c.107C>T	c.(106-108)GCG>GTG	p.A36V		NM_000864	NP_000855	P28221	5HT1D_HUMAN	5-hydroxytryptamine (serotonin) receptor 1D	36	Extracellular (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|intestine smooth muscle contraction|synaptic transmission	integral to plasma membrane	serotonin receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000779)|all_lung(284;0.00135)|Breast(348;0.0385)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;4.69e-27)|Colorectal(126;4.86e-08)|COAD - Colon adenocarcinoma(152;2.86e-06)|GBM - Glioblastoma multiforme(114;0.00012)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(1967;0.00122)|STAD - Stomach adenocarcinoma(196;0.0123)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.083)|LUSC - Lung squamous cell carcinoma(448;0.185)	Almotriptan(DB00918)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Ziprasidone(DB00246)|Zolmitriptan(DB00315)	GATCTTGAGCGCCTGGAGGGT	0.572													32	96					0	0	0.009535	0	0		A	23520606	A	A	23520606	3	1	177	1	0	0	0	0	1	0	0	0	7454	1087	38	1	1030	1	HTR1D	1	23520606	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	18747927	23520606	225730015	2	91124											
MYOM3	127294	broad.mit.edu	37	chr1	24387551	24387551	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatatcggccgacttactCttctcgatgatggccaaggt	10	11	10	10	3	2	1	0	1	2	0	4	4	2	1	2	3	1	0	2	3	4	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:24387551C>A	uc001bin.3	-	35	4156	c.3993G>T	c.(3991-3993)AAG>AAT	p.K1331N	MYOM3_uc001bil.3_Missense_Mutation_p.K224N|MYOM3_uc001bim.3_Missense_Mutation_p.K988N	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1331										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		CCGACTTACTCTTCTCGATGA	0.493													15	55					0.00400662	0.00461875	0.004007	1	0		A	24387551	A	A	24387551	3	1	177	1	0	0	0	0	1	0	0	0	10111	927	32	5	332	5	MYOM3	1	24387551	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	866945	24387551	224863070	3	91125											
CSMD2	114784	broad.mit.edu	37	chr1	34112430	34112430	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcatagccaggctccaggTtaaagctggggaacaaaaac	15	6	11	9	0	1	0	1	0	0	0	2	1	2	1	2	4	4	3	2	4	6	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:34112430T>G	uc001bxn.1	-	29	4501	c.4472A>C	c.(4471-4473)AAC>ACC	p.N1491T	CSMD2_uc001bxm.1_Missense_Mutation_p.N1531T|CSMD2_uc001bxo.1_Missense_Mutation_p.N404T	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1491	CUB 9.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGGCTCCAGGTTAAAGCTGGG	0.552													6	18					0	0	0.001168	0	0		G	34112430	G	G	34112430	3	3	177	1	0	0	0	0	1	0	0	0	3948	1725	60	5	6155	5	CSMD2	1	34112430	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	9724879	34112430	215138191	4	91126											
WDR78	79819	broad.mit.edu	37	chr1	67292601	67292601	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaacgtcgtaaacaacagaAgtagctggataaaaactcaa	19	6	8	8	2	1	1	1	0	0	1	2	2	1	2	0	1	5	4	0	1	10	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:67292601A>T	uc001dcx.2	-	15	2297	c.2241T>A	c.(2239-2241)ACT>ACA	p.T747T	WDR78_uc009waw.2_Silent_p.T460T|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	747	WD 5.									ovary(2)	2						AAACAACAGAAGTAGCTGGAT	0.403													40	105					0	0	0.009718	0	0		T	67292601	T	T	67292601	2	4	177	1	0	0	0	0	0	0	0	1	17354	59	3	5		5	WDR78	1	67292601	Silent	SNP	A	TCGA-D7-6818-01A-11D-1882-08	33180171	67292601	181958020	5	91127											
IFI44L	10964	broad.mit.edu	37	chr1	79095598	79095598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatcaccagcataaccgagCgggtaagttatttccctgag	12	10	9	10	2	1	1	1	1	0	0	2	2	2	1	3	1	3	3	3	1	4	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:79095598C>T	uc010oro.1	+	4	900	c.721C>T	c.(721-723)CGG>TGG	p.R241W	IFI44L_uc010orp.1_5'UTR|IFI44L_uc010orq.1_Intron	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	241						cytoplasm					0						CATAACCGAGCGGGTAAGTTA	0.373													13	40					0	0	0.004007	0	0		T	79095598	T	T	79095598	3	4	177	1	0	0	0	0	1	0	0	0	7534	759	27	1	731	1	IFI44L	1	79095598	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	11802997	79095598	170155023	6	91128											
FLG2	388698	broad.mit.edu	37	chr1	152328611	152328611	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatagccagatgattgacTtgagccagaaccatgttggc	11	9	11	10	0	0	5	0	3	0	2	0	5	0	5	4	1	3	1	4	1	2	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:152328611T>G	uc001ezw.3	-	3	1724	c.1651A>C	c.(1651-1653)AGT>CGT	p.S551R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	551	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATGATTGACTTGAGCCAGAA	0.488													288	258					0	0	0.00361	0	0		G	152328611	G	G	152328611	3	3	177	1	0	0	0	0	1	0	0	0	5937	1609	56	5	5528	5	FLG2	1	152328611	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	73233013	152328611	96922010	7	91129											
C1orf43	25912	broad.mit.edu	37	chr1	154180004	154180004	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagtgcttggcacgtttactCttctgactggaggggaggta	8	12	14	7	1	2	1	0	1	2	0	2	3	2	3	0	5	2	4	0	5	3	5	rs11555361		TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:154180004C>G	uc001fei.2	-	7	1077	c.687G>C	c.(685-687)AAG>AAC	p.K229N	C1orf189_uc001fee.1_5'Flank|C1orf43_uc001fef.1_Missense_Mutation_p.K126N|C1orf43_uc001feg.2_Missense_Mutation_p.K195N|C1orf43_uc001feh.2_Missense_Mutation_p.K177N|C1orf43_uc001fej.2_Missense_Mutation_p.K211N|C1orf43_uc009wos.1_3'UTR	NM_001098616	NP_001092086	Q9BWL3	CA043_HUMAN	hypothetical protein LOC25912 isoform 3	229						integral to membrane	coenzyme binding|oxidoreductase activity				0	all_lung(78;1.98e-30)|Lung NSC(65;2.87e-28)|Hepatocellular(266;0.0877)					CACGTTTACTCTTCTGACTGG	0.502													11	238					0	0	0.001855	0	0		G	154180004	G	G	154180004	3	3	177	1	0	0	0	0	1	0	0	0	2043	912	32	5	78	5	C1orf43	1	154180004	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	1851393	154180004	95070617	8	91130											
OR10K2	391107	broad.mit.edu	37	chr1	158390476	158390476	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagaggatggcaaggaagaAgtacatggggatatgaaggg	16	5	18	2	0	0	3	0	1	0	2	0	7	0	6	0	6	1	2	0	6	6	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:158390476A>C	uc010pii.1	-	1	181	c.181T>G	c.(181-183)TTC>GTC	p.F61V		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					GCAAGGAAGAAGTACATGGGG	0.473													40	190					0	0	0.007835	0	0		C	158390476	C	C	158390476	3	2	177	1	0	0	0	0	1	0	0	0	10933	72	3	5	759	5	OR10K2	1	158390476	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	4210472	158390476	90860145	9	91131											
MNDA	4332	broad.mit.edu	37	chr1	158819011	158819011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaaaaacaaggaaggacCaatgaatgttaattgaaata	22	7	8	4	0	0	3	0	2	0	1	0	5	0	5	1	2	1	1	1	2	10	3	rs147701010	byFrequency	TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:158819011C>T	uc001fsz.1	+	7	1408	c.1208C>T	c.(1207-1209)CCA>CTA	p.P403L		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	403					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AAGGAAGGACCAATGAATGTT	0.313													13	30					0	0	0.004007	0	0		T	158819011	T	T	158819011	3	4	177	1	0	0	0	0	1	0	0	0	9694	594	21	4	1230	4	MNDA	1	158819011	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	428535	158819011	90431610	10	91132											
ATP1A4	480	broad.mit.edu	37	chr1	160147396	160147396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgatctgctgggcatccGcctccactgggaagataaat	9	11	11	10	1	1	2	0	1	1	1	3	3	3	3	3	2	1	3	3	2	3	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:160147396G>A	uc001fve.3	+	18	3157	c.2678G>A	c.(2677-2679)CGC>CAC	p.R893H	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.R396H|ATP1A4_uc001fvh.2_Missense_Mutation_p.R29H	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	893	Extracellular (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTGGGCATCCGCCTCCACTGG	0.498													7	132					0	0	0.001984	0	0		A	160147396	A	A	160147396	3	1	177	1	0	0	0	0	1	0	0	0	1132	1087	38	1	2748	1	ATP1A4	1	160147396	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	1328385	160147396	89103225	11	91133											
CD84	8832	broad.mit.edu	37	chr1	160518103	160518103	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttactgtcctgtgtgctggcTttccccatctgtgcaggaga	5	14	11	11	0	1	1	0	0	1	1	3	2	3	1	3	2	3	3	3	2	1	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:160518103T>G	uc001fwh.3	-	8	1005	c.981A>C	c.(979-981)AAA>AAC	p.K327N	CD84_uc001fwf.3_Missense_Mutation_p.K310N|CD84_uc001fwg.3_Missense_Mutation_p.K321N|CD84_uc009wtn.2_3'UTR|CD84_uc001fwi.3_Missense_Mutation_p.K196N	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	327	Cytoplasmic (Potential).				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			GTGTGCTGGCTTTCCCCATCT	0.498													11	47					0	0	0.000978	0	0		G	160518103	G	G	160518103	3	3	177	1	0	0	0	0	1	0	0	0	3045	1606	56	5	60	5	CD84	1	160518103	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	370707	160518103	88732518	12	91134											
QSOX1	5768	broad.mit.edu	37	chr1	180155295	180155295	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgcctggtggccctgaaaaAgtttgtggcagtgctggcca	7	9	15	10	1	0	1	0	1	0	0	0	1	0	1	3	4	1	3	3	4	2	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:180155295A>G	uc001gnz.2	+	8	1070	c.995A>G	c.(994-996)AAG>AGG	p.K332R	QSOX1_uc001gny.2_Missense_Mutation_p.K332R|QSOX1_uc001goa.2_Missense_Mutation_p.K332R	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	332					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						GCCCTGAAAAAGTTTGTGGCA	0.582													11	54					0	0	0.001368	0	0		G	180155295	G	G	180155295	3	3	177	1	0	0	0	0	1	0	0	0	12908	72	3	3	1025	3	QSOX1	1	180155295	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	19637192	180155295	69095326	13	91135											
USH2A	7399	broad.mit.edu	37	chr1	215914804	215914804	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagctgaccccagtgccttaAgaacaggagaattaagatcc	15	7	9	10	0	0	4	0	1	0	3	1	5	1	4	4	1	3	1	4	1	5	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:215914804A>G	uc001hku.1	-	60	12011	c.11624T>C	c.(11623-11625)CTT>CCT	p.L3875P		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3875	Fibronectin type-III 24.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CAGTGCCTTAAGAACAGGAGA	0.398										HNSCC(13;0.011)			26	125					0	0	0.007291	0	0		G	215914804	G	G	215914804	3	3	177	1	0	0	0	0	1	0	0	0	17062	72	3	3	4036	3	USH2A	1	215914804	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	35759509	215914804	33335817	14	91136											
USH2A	7399	broad.mit.edu	37	chr1	216373317	216373317	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaataggaatgatataacTtaaagtcaagtttccctctg	14	12	7	8	0	2	1	1	1	1	0	3	2	3	2	2	1	1	1	2	1	8	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:216373317T>G	uc001hku.1	-	17	3850	c.3463A>C	c.(3463-3465)AGT>CGT	p.S1155R	USH2A_uc001hkv.2_Missense_Mutation_p.S1155R	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1155	Extracellular (Potential).|Fibronectin type-III 2.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ATGATATAACTTAAAGTCAAG	0.428										HNSCC(13;0.011)			40	105					0	0	0.007835	0	0		G	216373317	G	G	216373317	3	3	177	1	0	0	0	0	1	0	0	0	17062	1609	56	5	12383	5	USH2A	1	216373317	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	458513	216373317	32877304	15	91137											
ITPKB	3707	broad.mit.edu	37	chr1	226923713	226923713	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttcagatctttcgcagcgtCccaacagggcaaaggctcca	10	9	9	13	2	2	1	1	0	1	1	5	1	4	1	2	2	2	3	2	2	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:226923713C>A	uc010pvo.1	-	2	1787	c.1447G>T	c.(1447-1449)GAC>TAC	p.D483Y	ITPKB_uc001hqh.2_Missense_Mutation_p.D483Y	NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	483							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				TTCGCAGCGTCCCAACAGGGC	0.627													17	127					1.99824e-07	2.38067e-07	0.00499	1	0		A	226923713	A	A	226923713	3	1	177	1	0	0	0	0	1	0	0	0	7934	855	30	5	1421	5	ITPKB	1	226923713	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	10550396	226923713	22326908	16	91138											
OR2L2	26246	broad.mit.edu	37	chr1	248201728	248201728	+	Silent	SNP	T	C	C	0	1	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	ctcatctttttggacatccaTctccacacacctatgtattt	9	16	3	13	0	3	0	1	0	2	0	5	1	4	1	3	1	0	1	3	1	2	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:248201728T>C	uc001idw.2	+	1	255	c.159T>C	c.(157-159)CAT>CAC	p.H53H	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TGGACATCCATCTCCACACAC	0.343													29	367					0	0	0.003271	0	0		C	248201728	C	C	248201728	2	2	177	1	0	0	0	0	0	0	0	1	11026	1432	50	3		3	OR2L2	1	248201728	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	21278015	248201728	1048893	17	91139											
OR2M3	127062	broad.mit.edu	37	chr1	248366812	248366812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggacttatgactgccttttCctggatcctgggctctacgg	5	14	11	11	1	1	1	0	1	1	0	3	3	3	3	3	4	2	1	3	4	2	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr1:248366812C>T	uc010pzg.1	+	1	443	c.443C>T	c.(442-444)TCC>TTC	p.S148F		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ACTGCCTTTTCCTGGATCCTG	0.458													62	243					0	0	0.00361	0	0		T	248366812	T	T	248366812	3	4	177	1	0	0	0	0	1	0	0	0	11030	855	30	4	445	4	OR2M3	1	248366812	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	165084	248366812	883809	18	91140											
SUPT7L	9913	broad.mit.edu	37	chr2	27878399	27878399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcctccttgatcttcacaGgtttagcgtcctctgtggcc	4	15	9	13	1	3	1	1	1	2	0	6	1	6	1	4	2	1	2	4	2	1	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:27878399G>A	uc002rlh.1	-	5	1158	c.815C>T	c.(814-816)CCT>CTT	p.P272L	SUPT7L_uc002rli.1_Missense_Mutation_p.P272L|SUPT7L_uc010ymf.1_Missense_Mutation_p.P137L|SUPT7L_uc002rlj.1_Missense_Mutation_p.P270L|SUPT7L_uc010ezh.1_Missense_Mutation_p.P270L	NM_014860	NP_055675	O94864	ST65G_HUMAN	SPTF-associated factor 65 gamma	272					histone H3 acetylation|maintenance of protein location in nucleus|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GATCTTCACAGGTTTAGCGTC	0.478													11	61					0	0	0.008291	0	0		A	27878399	A	A	27878399	3	1	177	1	0	0	0	0	1	0	0	0	15426	1000	35	4	437	4	SUPT7L	2	27878399	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08		27878399	215320974	19	91141											
TACR1	6869	broad.mit.edu	37	chr2	75276845	75276845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggcatgcttgaagcccagaCggaacctggagagcgagcag	12	4	15	10	2	0	3	0	1	0	2	0	6	0	4	2	3	5	3	2	3	2	1	rs148591370		TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:75276845C>T	uc002sng.2	-	5	1523	c.938G>A	c.(937-939)CGT>CAT	p.R313H		NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	313	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	GAAGCCCAGACGGAACCTGGA	0.597													4	30					0	0	0.001168	0	0		T	75276845	T	T	75276845	3	4	177	1	0	0	0	0	1	0	0	0	15530	536	19	1	289	1	TACR1	2	75276845	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	47398446	75276845	167922528	20	91142											
LONRF2	164832	broad.mit.edu	37	chr2	100906748	100906748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcaagatattcaatgtccGctgtgttatagccatctctg	9	15	7	10	1	3	1	2	0	1	1	5	1	4	1	2	0	1	2	2	0	5	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:100906748G>A	uc002tal.3	-	10	2532	c.1892C>T	c.(1891-1893)GCG>GTG	p.A631V	LONRF2_uc010yvs.1_RNA	NM_198461	NP_940863	Q1L5Z9	LONF2_HUMAN	LON peptidase N-terminal domain and ring finger	631	Lon.				proteolysis		ATP-dependent peptidase activity|zinc ion binding			large_intestine(1)|skin(1)	2						TTCAATGTCCGCTGTGTTATA	0.463													4	79					0	0	0.000602	0	0		A	100906748	A	A	100906748	3	1	177	1	0	0	0	0	1	0	0	0	8913	1087	38	1	384	1	LONRF2	2	100906748	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	25629903	100906748	142292625	21	91143											
CACNB4	785	broad.mit.edu	37	chr2	152727081	152727081	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggccccactaacaccacCggacgcattgacggtacaac	12	4	9	16	4	0	1	0	1	0	0	0	3	0	2	4	3	3	2	4	3	3	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:152727081C>T	uc002tya.2	-	8	731	c.663G>A	c.(661-663)CCG>CCA	p.P221P	CACNB4_uc002txy.2_Silent_p.P187P|CACNB4_uc002txz.2_Silent_p.P203P|CACNB4_uc010fnz.2_Silent_p.P221P|CACNB4_uc002tyb.2_Silent_p.P187P	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4	221					axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	CTAACACCACCGGACGCATTG	0.498													4	40					0	0	0.001168	0	0		T	152727081	T	T	152727081	2	4	177	1	0	0	0	0	0	0	0	1	2558	639	23	1		1	CACNB4	2	152727081	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	51820333	152727081	90472292	22	91144											
CSRNP3	80034	broad.mit.edu	37	chr2	166536175	166536175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcacatttcagagcatcCtgctgaaaattctttgagcc	11	12	7	11	0	3	3	2	2	1	1	4	3	4	3	2	0	3	2	2	0	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:166536175C>T	uc002udf.2	+	7	2046	c.1670C>T	c.(1669-1671)CCT>CTT	p.P557L	CSRNP3_uc002udg.2_Missense_Mutation_p.P557L	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	557					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						TCAGAGCATCCTGCTGAAAAT	0.433													9	151					0	0	0.006214	0	0		T	166536175	T	T	166536175	3	4	177	1	0	0	0	0	1	0	0	0	3968	681	24	4	1684	4	CSRNP3	2	166536175	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	13809094	166536175	76663198	23	91145											
SCN7A	6332	broad.mit.edu	37	chr2	167334146	167334146	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttagcaatatgctgttttaTaagttcaaaagactctttag	13	17	6	5	0	2	1	1	0	1	1	2	1	2	1	0	0	2	4	0	0	8	9			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:167334146T>G	uc002udu.1	-	2	188	c.61A>C	c.(61-63)ATA>CTA	p.I21L	SCN7A_uc002udv.1_Missense_Mutation_p.I21L	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	21					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TGCTGTTTTATAAGTTCAAAA	0.348													8	14					0	0	0.004482	0	0		G	167334146	G	G	167334146	3	3	177	1	0	0	0	0	1	0	0	0	13948	1406	49	5	5083	5	SCN7A	2	167334146	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	797971	167334146	75865227	24	91146											
LRP2	4036	broad.mit.edu	37	chr2	170034354	170034354	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtacacatggatgtcaaatGgtctgtgtgttgtgttcacc	8	14	12	7	0	3	0	2	0	1	0	3	1	3	1	1	3	1	3	1	3	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:170034354G>T	uc002ues.2	-	53	10565	c.10352C>A	c.(10351-10353)CCA>CAA	p.P3451Q		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3451	LDL-receptor class B 34.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GATGTCAAATGGTCTGTGTGT	0.428													58	251					9.04393e-38	1.10389e-37	0.00361	1	0		T	170034354	T	T	170034354	3	4	177	1	0	0	0	0	1	0	0	0	8974	1348	47	5	3723	5	LRP2	2	170034354	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	2700208	170034354	73165019	25	91147											
TTN	7273	broad.mit.edu	37	chr2	179583903	179583903	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactgaccttgcacagtcaGgactgctgagcactcatcgg	10	8	10	13	1	2	2	2	2	0	0	3	3	2	3	1	2	3	3	1	2	0	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:179583903G>A	uc010zfg.1	-	80	20706	c.20482C>T	c.(20482-20484)CTG>TTG	p.L6828L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.L3489L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7755							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCACAGTCAGGACTGCTGAG	0.507													15	70					0	0	0.003163	0	0		A	179583903	A	A	179583903	2	1	177	1	0	0	0	0	0	0	0	1	16761	991	35	4		4	TTN	2	179583903	Silent	SNP	G	TCGA-D7-6818-01A-11D-1882-08	9549549	179583903	63615470	26	91148											
ZSWIM2	151112	broad.mit.edu	37	chr2	187693166	187693166	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattttataatcataggttaAtttttttgaatttgaattat	14	22	4	1	0	1	2	1	2	0	0	1	2	1	2	0	1	0	1	0	1	8	10			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr2:187693166A>C	uc002upu.1	-	9	1487	c.1447T>G	c.(1447-1449)TTA>GTA	p.L483V		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	483					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			TCATAGGTTAATTTTTTTGAA	0.318													5	28					0	0	0.000602	0	0		C	187693166	C	C	187693166	3	2	177	1	0	0	0	0	1	0	0	0	18266	98	4	5	458	5	ZSWIM2	2	187693166	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	8109263	187693166	55506207	27	91149											
SATB1	6304	broad.mit.edu	37	chr3	18457585	18457585	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggggcatctgtcacgtaAgacagtggaactggattcca	11	9	12	9	1	3	1	2	0	1	1	4	3	4	3	1	4	1	2	1	4	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:18457585A>C	uc003cbh.2	-	4	2164	c.429T>G	c.(427-429)TCT>TCG	p.S143S	SATB1_uc003cbi.2_Silent_p.S143S|SATB1_uc003cbj.2_Silent_p.S143S	NM_002971	NP_002962	Q01826	SATB1_HUMAN	special AT-rich sequence binding protein 1	143	Protein interaction.|PDZ-like dimerization domain.				cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter	nuclear matrix|PML body	double-stranded DNA binding|sequence-specific DNA binding			skin(2)|ovary(1)|lung(1)	4						CTGTCACGTAAGACAGTGGAA	0.388													13	74					0	0	0.001368	0	0		C	18457585	C	C	18457585	2	2	177	1	0	0	0	0	0	0	0	1	13878	59	3	5		5	SATB1	3	18457585	Silent	SNP	A	TCGA-D7-6818-01A-11D-1882-08		18457585	179564845	28	91150											
DNAH1	25981	broad.mit.edu	37	chr3	52428625	52428625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccttctcttccgacttcGtgaagcacctctcagaattc	7	13	5	16	2	2	2	1	1	2	1	8	3	4	2	4	0	1	1	4	0	2	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:52428625G>A	uc011bef.1	+	67	11032	c.10771G>A	c.(10771-10773)GTG>ATG	p.V3591M	DNAH1_uc003ddv.2_Missense_Mutation_p.V449M	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3656					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		TTCCGACTTCGTGAAGCACCT	0.582													17	56					0	0	0.007413	0	0		A	52428625	A	A	52428625	3	1	177	1	0	0	0	0	1	0	0	0	4603	1145	40	1	11033	1	DNAH1	3	52428625	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	33971040	52428625	145593805	29	91151											
ADAMTS9	56999	broad.mit.edu	37	chr3	64635379	64635379	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtttattcacgttgtaaagGatgcctggcagttggacagg	9	13	13	6	1	1	0	1	0	0	0	1	2	1	2	1	4	1	5	1	4	3	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:64635379G>A	uc003dmg.2	-	10	1571	c.1539C>T	c.(1537-1539)ATC>ATT	p.I513I	ADAMTS9_uc011bfo.1_Silent_p.I485I|ADAMTS9_uc003dmh.1_Silent_p.I342I|ADAMTS9_uc003dmk.1_Silent_p.I513I	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	513	Disintegrin.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CGTTGTAAAGGATGCCTGGCA	0.468													19	58					0	0	0.007413	0	0		A	64635379	A	A	64635379	2	1	177	1	0	0	0	0	0	0	0	1	273	1164	41	4		4	ADAMTS9	3	64635379	Silent	SNP	G	TCGA-D7-6818-01A-11D-1882-08	12206754	64635379	133387051	30	91152											
ZBTB20	26137	broad.mit.edu	37	chr3	114069713	114069713	+	Silent	SNP	A	C	C	1	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	tgctcgggttgggtgggttcAgcctggctgtcccgcgccgc	1	10	17	13	4	1	0	1	0	0	0	3	0	2	0	3	4	2	4	3	4	0	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:114069713A>C	uc003ebi.2	-	4	1392	c.1212T>G	c.(1210-1212)GCT>GCG	p.A404A	ZBTB20_uc003ebj.2_Silent_p.A331A|ZBTB20_uc010hqp.2_Silent_p.A331A|ZBTB20_uc003ebk.2_Silent_p.A331A|ZBTB20_uc003ebl.2_Silent_p.A331A|ZBTB20_uc003ebm.2_Silent_p.A331A|ZBTB20_uc003ebn.2_Silent_p.A331A|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	404					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GGGTGGGTTCAGCCTGGCTGT	0.637													14	77					0	0	0.003163	0	0		C	114069713	C	C	114069713	2	2	177	1	0	0	0	0	0	0	0	1	17554	175	7	5		5	ZBTB20	3	114069713	Silent	SNP	A	TCGA-D7-6818-01A-11D-1882-08	49434334	114069713	83952717	31	91153											
KY	339855	broad.mit.edu	37	chr3	134322598	134322598	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaccaggactttggcaatAccatgcagcttcaatttgaa	12	12	7	10	0	2	1	2	1	0	0	2	2	2	2	2	2	3	3	2	2	4	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:134322598A>G	uc010hty.2	-	11	1871	c.1809T>C	c.(1807-1809)GGT>GGC	p.G603G	KY_uc011blw.1_3'UTR|KY_uc011blx.1_Silent_p.G582G	NM_178554	NP_848649	Q8NBH2	KY_HUMAN	kyphoscoliosis peptidase	Error:Variant_position_missing_in_Q8NBH2_after_alignment						cytoskeleton|Z disc	peptidase activity			ovary(2)	2						CTTTGGCAATACCATGCAGCT	0.572													5	73					0	0	0.001984	0	0		G	134322598	G	G	134322598	2	3	177	1	0	0	0	0	0	0	0	1	8602	378	14	3		3	KY	3	134322598	Silent	SNP	A	TCGA-D7-6818-01A-11D-1882-08	20252885	134322598	63699832	32	91154											
ZIC1	7545	broad.mit.edu	37	chr3	147128310	147128310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacacggccacacggacgcCgcgggccacctcctcttccc	6	4	9	22	5	1	0	0	0	1	0	3	1	3	1	7	3	0	0	7	3	0	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:147128310C>T	uc003ewe.2	+	1	1130	c.411C>T	c.(409-411)GCC>GCT	p.A137A		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	137					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						ACACGGACGCCGCGGGCCACC	0.721													9	16					0	0	0.004482	0	0		T	147128310	T	T	147128310	2	4	177	1	0	0	0	0	0	0	0	1	17703	639	23	1		1	ZIC1	3	147128310	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	12805712	147128310	50894120	33	91155											
FNDC3B	64778	broad.mit.edu	37	chr3	171965423	171965423	+	Missense_Mutation	SNP	A	G	G	1	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	agccatgtctccaacccatcAtctccctccctatctgactc	8	11	3	19	0	4	1	1	1	3	0	8	1	5	1	5	0	2	0	5	0	2	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:171965423A>G	uc003fhy.2	+	5	537	c.365A>G	c.(364-366)CAT>CGT	p.H122R	FNDC3B_uc003fhz.3_Missense_Mutation_p.H122R|FNDC3B_uc003fia.2_Missense_Mutation_p.H53R	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	122						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	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)		CCAACCCATCATCTCCCTCCC	0.527													46	146					0	0	0.00361	0	0		G	171965423	G	G	171965423	3	3	177	1	0	0	0	0	1	0	0	0	5984	217	8	3	379	3	FNDC3B	3	171965423	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	24837113	171965423	26057007	34	91156											
KCNMB2	10242	broad.mit.edu	37	chr3	178560470	178560470	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacctaaatgtggaaaaaaTtttgaagaatccatgtccct	16	12	6	7	0	0	2	0	1	0	1	2	3	2	3	3	1	1	0	3	1	8	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:178560470T>G	uc003fjd.2	+	5	796	c.453T>G	c.(451-453)AAT>AAG	p.N151K	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Missense_Mutation_p.N151K|KCNMB2_uc003fjf.2_Missense_Mutation_p.N151K|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_RNA	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	151	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			GTGGAAAAAATTTTGAAGAAT	0.403													22	80					0	0	0.002299	0	0		G	178560470	G	G	178560470	3	3	177	1	0	0	0	0	1	0	0	0	8091	1490	52	5	467	5	KCNMB2	3	178560470	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	6595047	178560470	19461960	35	91157											
C3orf59	151963	broad.mit.edu	37	chr3	192516834	192516834	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaggagcaagcaggcaccaAgtaaaacccactgatgacct	15	5	10	11	0	0	2	0	2	0	0	0	3	0	3	3	2	3	5	3	2	5	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:192516834A>C	uc011bsp.1	-	2	1138	c.817T>G	c.(817-819)TTG>GTG	p.L273V		NM_178496	NP_848591	Q8IYB1	M21D2_HUMAN	hypothetical protein LOC151963	273											0	all_cancers(143;1.56e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.8e-18)|LUSC - Lung squamous cell carcinoma(58;8.04e-06)|Lung(62;8.62e-06)	GBM - Glioblastoma multiforme(46;3.86e-05)		GCAGGCACCAAGTAAAACCCA	0.522													4	30					0	0	0.009096	0	0		C	192516834	C	C	192516834	3	2	177	1	0	0	0	0	1	0	0	0	2240	69	3	5	662	5	C3orf59	3	192516834	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	13956364	192516834	5505596	36	91158											
MUC4	4585	broad.mit.edu	37	chr3	195474111	195474111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccggagcaaccccagaagCgcaggaccacgaacgtcccg	11	1	11	18	5	0	1	0	0	0	1	1	4	1	3	6	2	4	2	6	2	3	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr3:195474111C>T	uc011bto.1	-	26	16251	c.15791G>A	c.(15790-15792)CGC>CAC	p.R5264H	MUC4_uc010hzq.2_Missense_Mutation_p.R249H|MUC4_uc003fuz.2_Missense_Mutation_p.R990H|MUC4_uc003fva.2_Missense_Mutation_p.R872H|MUC4_uc003fvb.2_Missense_Mutation_p.R908H|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.R908H|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.R872H|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.R956H|MUC4_uc011bti.1_Missense_Mutation_p.R956H|MUC4_uc011btj.1_Missense_Mutation_p.R1133H|MUC4_uc011btk.1_Missense_Mutation_p.R872H|MUC4_uc011btl.1_Missense_Mutation_p.R901H|MUC4_uc011btm.1_Missense_Mutation_p.R1081H|MUC4_uc011btn.1_Missense_Mutation_p.R872H|MUC4_uc003fvo.2_Missense_Mutation_p.R1156H|MUC4_uc003fvp.2_Missense_Mutation_p.R1105H	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	2149					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		ACCCCAGAAGCGCAGGACCAC	0.612													15	73					0	0	0.008871	0	0		T	195474111	T	T	195474111	3	4	177	1	0	0	0	0	1	0	0	0	9996	768	27	1	67	1	MUC4	3	195474111	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	2957277	195474111	2548319	37	91159											
SLIT2	9353	broad.mit.edu	37	chr4	20521042	20521042	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatcacagaactccccaaaAgtttatttgaaggactgttt	15	12	6	8	0	1	2	1	1	0	1	2	3	2	3	2	1	1	2	2	1	6	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr4:20521042A>G	uc003gpr.1	+	12	1300	c.1096A>G	c.(1096-1098)AGT>GGT	p.S366G	SLIT2_uc003gps.1_Missense_Mutation_p.S366G	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	366	LRR 9.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						ACTCCCCAAAAGTTTATTTGA	0.299													6	45					0	0	0.00308	0	0		G	20521042	G	G	20521042	3	3	177	1	0	0	0	0	1	0	0	0	14765	72	3	3	1142	3	SLIT2	4	20521042	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08		20521042	170633234	38	91160											
PPARGC1A	10891	broad.mit.edu	37	chr4	23833214	23833214	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcctcctggggtggagggGtgccgtcaggcatggaggaa	6	7	19	9	1	1	0	1	0	0	0	2	3	2	3	3	8	2	1	3	8	1	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr4:23833214G>C	uc003gqs.2	-	3	515	c.395C>G	c.(394-396)ACC>AGC	p.T132S	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	132					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GGGTGGAGGGGTGCCGTCAGG	0.557													6	185					0	0	0.001168	0	0		C	23833214	C	C	23833214	3	2	177	1	0	0	0	0	1	0	0	0	12319	1261	44	5	2045	5	PPARGC1A	4	23833214	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	3312172	23833214	167321062	39	91161											
TMPRSS11A	339967	broad.mit.edu	37	chr4	68780403	68780403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gttgcttgcagacatcatcaCttatgattttcactctggct	8	16	7	10	0	4	2	3	1	1	1	4	2	4	2	0	1	2	4	0	1	1	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr4:68780403C>T	uc003hdr.1	-	9	1128	c.1007G>A	c.(1006-1008)AGT>AAT	p.S336N	LOC550112_uc003hdl.3_Intron|TMPRSS11A_uc003hds.1_Missense_Mutation_p.S333N	NM_182606	NP_872412	Q6ZMR5	TM11A_HUMAN	transmembrane protease, serine 11A isoform 1	336	Peptidase S1.|Extracellular (Potential).				cell cycle|proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			skin(1)	1						GACATCATCACTTATGATTTT	0.398													24	78					0	0	0.00333	0	0		T	68780403	T	T	68780403	3	4	177	1	0	0	0	0	1	0	0	0	16264	565	20	4	266	4	TMPRSS11A	4	68780403	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	44947189	68780403	122373873	40	91162											
THAP6	152815	broad.mit.edu	37	chr4	76442037	76442037	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tattagcaatgaaaagacttGatgtgaatgcagccggcatt	14	11	10	6	1	0	4	0	3	0	1	0	4	0	4	1	1	3	3	1	1	6	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr4:76442037G>C	uc003him.2	+	3	233	c.136G>C	c.(136-138)GAT>CAT	p.D46H	RCHY1_uc003hij.2_5'Flank|RCHY1_uc003hik.2_5'Flank|RCHY1_uc003hil.2_5'Flank|RCHY1_uc010iip.2_5'Flank|RCHY1_uc010iiq.2_5'Flank|RCHY1_uc010iir.2_5'Flank|THAP6_uc010iis.1_Missense_Mutation_p.D5H|THAP6_uc003hin.2_Missense_Mutation_p.D46H|THAP6_uc011cbm.1_Missense_Mutation_p.D46H|THAP6_uc010iiu.1_RNA|THAP6_uc003hio.1_RNA|THAP6_uc010iiv.2_Missense_Mutation_p.D46H	NM_144721	NP_653322	Q8TBB0	THAP6_HUMAN	THAP domain containing 6	46	THAP-type.					microtubule cytoskeleton	DNA binding|metal ion binding				0			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			GAAAAGACTTGATGTGAATGC	0.333													18	48					0	0	0.008871	0	0		C	76442037	C	C	76442037	3	2	177	1	0	0	0	0	1	0	0	0	15873	1290	45	5	142	5	THAP6	4	76442037	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	7661634	76442037	114712239	41	91163											
THAP9	79725	broad.mit.edu	37	chr4	83822021	83822021	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgctcagccgggagcgcggCctctccttccaccagtgcgt	4	8	13	16	4	2	0	1	0	1	0	4	1	3	1	5	2	4	1	5	2	0	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr4:83822021C>A	uc003hnt.2	+	1	185	c.66C>A	c.(64-66)GGC>GGA	p.G22G	SEC31A_uc003hnm.2_5'Flank|uc003hnp.2_5'Flank|uc003hnq.2_5'Flank|uc003hnr.2_5'Flank|THAP9_uc003hns.1_5'UTR|THAP9_uc003hnu.1_RNA	NM_024672	NP_078948	Q9H5L6	THAP9_HUMAN	THAP domain containing 9	22	THAP-type.						DNA binding|metal ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	5		Hepatocellular(203;0.114)				GGGAGCGCGGCCTCTCCTTCC	0.493													42	105					5.78141e-17	6.98821e-17	0.003214	1	0		A	83822021	A	A	83822021	2	1	177	1	0	0	0	0	0	0	0	1	15876	726	26	5		5	THAP9	4	83822021	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	7379984	83822021	107332255	42	91164											
UNC5C	8633	broad.mit.edu	37	chr4	96140365	96140365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggatccagaattggagagTtggtcattgggattttgtct	8	15	14	4	0	2	2	1	0	1	2	3	5	3	4	1	4	0	1	1	4	1	5	rs147587723	byFrequency	TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr4:96140365T>C	uc003htp.1	-	9	1554	c.1400A>G	c.(1399-1401)AAC>AGC	p.N467S	UNC5C_uc010ilc.1_Missense_Mutation_p.N486S|UNC5C_uc003htq.2_Missense_Mutation_p.N486S	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	467	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		AATTGGAGAGTTGGTCATTGG	0.522													97	351					0	0	0.00361	0	0		C	96140365	C	C	96140365	3	2	177	1	0	0	0	0	1	0	0	0	17019	1725	60	3	1427	3	UNC5C	4	96140365	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	12318344	96140365	95013911	43	91165											
FAT4	79633	broad.mit.edu	37	chr4	126336146	126336146	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaagctttggatcgggaaAgtcagtccttctacaacttg	12	12	9	8	1	2	0	1	0	1	0	4	2	3	2	1	2	3	1	1	2	5	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr4:126336146A>G	uc003ifj.3	+	5	6028	c.6028A>G	c.(6028-6030)AGT>GGT	p.S2010G	FAT4_uc011cgp.1_Missense_Mutation_p.S308G	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2010	Cadherin 19.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GGATCGGGAAAGTCAGTCCTT	0.438													50	164					0	0	0.00361	0	0		G	126336146	G	G	126336146	3	3	177	1	0	0	0	0	1	0	0	0	5706	72	3	3	6046	3	FAT4	4	126336146	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	30195781	126336146	64818130	44	91166											
ADCY2	108	broad.mit.edu	37	chr5	7698445	7698445	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atctctccctaaccatgccaAgaactgtgtgaaaatggggc	12	9	9	11	0	1	2	0	1	1	1	3	2	2	2	3	2	3	0	3	2	5	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:7698445A>C	uc003jdz.1	+	7	1134	c.1067A>C	c.(1066-1068)AAG>ACG	p.K356T	ADCY2_uc011cmo.1_Missense_Mutation_p.K176T	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	356	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						AACCATGCCAAGAACTGTGTG	0.333													29	139					0	0	0.002445	0	0		C	7698445	C	C	7698445	3	2	177	1	0	0	0	0	1	0	0	0	294	72	3	5	1093	5	ADCY2	5	7698445	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08		7698445	173216815	45	91167											
ADAMTS12	81792	broad.mit.edu	37	chr5	33588882	33588882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtggggcccgcatgtcGccgagcatgcttcccactcc	4	7	11	19	4	0	0	0	0	0	0	3	1	2	0	6	2	2	3	6	2	0	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:33588882G>A	uc003jia.1	-	18	2850	c.2687C>T	c.(2686-2688)GCG>GTG	p.A896V	ADAMTS12_uc010iuq.1_Missense_Mutation_p.A811V	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	896	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CCCGCATGTCGCCGAGCATGC	0.592										HNSCC(64;0.19)	OREG0016553	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	112					0	0	0.001855	0	0		A	33588882	A	A	33588882	3	1	177	1	0	0	0	0	1	0	0	0	257	1087	38	1	2125	1	ADAMTS12	5	33588882	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	25890437	33588882	147326378	46	91168											
UGT3A1	133688	broad.mit.edu	37	chr5	35991293	35991293	+	Missense_Mutation	SNP	A	G	G	1	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	tggcagcctctgagagcaggAccccagaaagaaggaaggcc	13	3	14	11	0	1	3	0	1	1	3	1	6	1	5	4	4	2	2	4	4	3	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:35991293A>G	uc003jjv.1	-	1	207	c.50T>C	c.(49-51)GTC>GCC	p.V17A	UGT3A1_uc003jjw.1_RNA|UGT3A1_uc011coq.1_Missense_Mutation_p.V17A|UGT3A1_uc011cor.1_Missense_Mutation_p.V17A|UGT3A1_uc003jjy.1_Intron	NM_152404	NP_689617	Q6NUS8	UD3A1_HUMAN	UDP glycosyltransferase 3 family, polypeptide A1	17						integral to membrane	glucuronosyltransferase activity			ovary(2)|central_nervous_system(1)	3	all_lung(31;0.000197)		Epithelial(62;0.107)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGAGAGCAGGACCCCAGAAAG	0.617													23	212					0	0	0.002299	0	0		G	35991293	G	G	35991293	3	3	177	1	0	0	0	0	1	0	0	0	16989	275	10	3	1631	3	UGT3A1	5	35991293	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	2402411	35991293	144923967	47	91169											
NUP155	9631	broad.mit.edu	37	chr5	37292998	37292998	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctttcacaatttaaaacTtggctgggattctcaacata	13	14	5	9	0	2	0	2	0	1	0	3	1	2	1	1	2	3	1	1	2	6	7			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:37292998T>G	uc003jku.1	-	34	4138	c.4020A>C	c.(4018-4020)CAA>CAC	p.Q1340H	NUP155_uc003jkt.1_Missense_Mutation_p.Q1281H|NUP155_uc010iuz.1_Missense_Mutation_p.Q1276H	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	1340					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AATTTAAAACTTGGCTGGGAT	0.313													36	176					0	0	0.00623	0	0		G	37292998	G	G	37292998	3	3	177	1	0	0	0	0	1	0	0	0	10775	1606	56	5	163	5	NUP155	5	37292998	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	1301705	37292998	143622262	48	91170											
DAB2	1601	broad.mit.edu	37	chr5	39381699	39381699	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagcaaagatgtctgatgcaAgcaagtcattggctgaagac	14	8	12	7	0	2	4	1	2	1	2	2	5	2	4	0	1	3	4	0	1	4	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:39381699A>C	uc003jlx.2	-	11	1892	c.1361T>G	c.(1360-1362)CTT>CGT	p.L454R	DAB2_uc003jlw.2_Missense_Mutation_p.L433R	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	454					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			GTCTGATGCAAGCAAGTCATT	0.522													21	167					0	0	0.001882	0	0		C	39381699	C	C	39381699	3	2	177	1	0	0	0	0	1	0	0	0	4221	72	3	5	967	5	DAB2	5	39381699	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	2088701	39381699	141533561	49	91171											
IPO11	51194	broad.mit.edu	37	chr5	61747732	61747732	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacactggcatctaaacgacTtgctgctgatagaaaactat	14	10	8	9	1	1	2	0	1	1	1	1	4	1	2	0	1	4	3	0	1	6	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:61747732T>G	uc003jtc.2	+	5	678	c.488T>G	c.(487-489)CTT>CGT	p.L163R	IPO11_uc011cqr.1_Missense_Mutation_p.L203R|IPO11_uc003jtb.1_Missense_Mutation_p.L163R	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	163						cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		TCTAAACGACTTGCTGCTGAT	0.308													22	75					0	0	0.00333	0	0		G	61747732	G	G	61747732	3	3	177	1	0	0	0	0	1	0	0	0	7809	1609	56	5	626	5	IPO11	5	61747732	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	22366033	61747732	119167528	50	91172											
MCC	4163	broad.mit.edu	37	chr5	112478959	112478959	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctatcttcttgttgagctcCgcaatgacgctgtggagctc	6	14	10	11	2	3	2	0	2	3	0	5	3	4	3	1	1	2	5	1	1	2	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:112478959C>T	uc003kqj.3	-	3	800	c.270G>A	c.(268-270)GCG>GCA	p.A90A	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Silent_p.A280A|MCC_uc011cwb.1_Silent_p.A90A|MCC_uc010jcd.1_Silent_p.A52A	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	90					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		TGTTGAGCTCCGCAATGACGC	0.552													24	24					0	0	0.00333	0	0		T	112478959	T	T	112478959	2	4	177	1	0	0	0	0	0	0	0	1	9391	639	23	1		1	MCC	5	112478959	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	50731227	112478959	68436301	51	91173											
PCDHA6	56142	broad.mit.edu	37	chr5	140208881	140208881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagctggtgtccaccttcaAgaattactactcgttggtgc	9	12	9	11	1	1	1	1	0	0	1	3	1	2	1	2	2	4	2	2	2	5	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:140208881A>G	uc003lho.2	+	1	1232	c.1205A>G	c.(1204-1206)AAG>AGG	p.K402R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.K402R|PCDHA6_uc011dab.1_Missense_Mutation_p.K402R	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	402	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCACCTTCAAGAATTACTAC	0.602													49	267					0	0	0.00361	0	0		G	140208881	G	G	140208881	3	3	177	1	0	0	0	0	1	0	0	0	11547	72	3	3	1207	3	PCDHA6	5	140208881	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	27729922	140208881	40706379	52	91174											
JAKMIP2	9832	broad.mit.edu	37	chr5	147040689	147040689	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatttcctgtaagagcttaAggcgctctgtgtcaaacagt	11	12	9	9	1	2	1	1	0	1	1	3	1	3	1	1	1	2	3	1	1	4	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:147040689A>G	uc003loq.1	-	3	831	c.449T>C	c.(448-450)CTT>CCT	p.L150P	JAKMIP2_uc011dbx.1_Missense_Mutation_p.L108P|JAKMIP2_uc003lor.1_Missense_Mutation_p.L150P|uc003lop.1_3'UTR|JAKMIP2_uc010jgo.1_Missense_Mutation_p.L150P	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	150	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAAGAGCTTAAGGCGCTCTGT	0.552													39	167					0	0	0.009718	0	0		G	147040689	G	G	147040689	3	3	177	1	0	0	0	0	1	0	0	0	7957	72	3	3	2059	3	JAKMIP2	5	147040689	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	6831808	147040689	33874571	53	91175											
SPINK5	11005	broad.mit.edu	37	chr5	147480060	147480060	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttgtgaggaacggaaaacTtgcttgcaccagagagaacg	13	7	13	8	2	0	3	0	1	0	2	0	6	0	5	1	2	5	3	1	2	4	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:147480060T>C	uc003lox.2	+	13	1209	c.1136T>C	c.(1135-1137)CTT>CCT	p.L379P	SPINK5_uc010jgs.1_Missense_Mutation_p.L351P|SPINK5_uc010jgr.2_Missense_Mutation_p.L360P|SPINK5_uc003low.2_Missense_Mutation_p.L379P|SPINK5_uc003loy.2_Missense_Mutation_p.L379P	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	379	Kazal-like 6.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGGAAAACTTGCTTGCACC	0.473													6	73					0	0	0.00308	0	0		C	147480060	C	C	147480060	3	2	177	1	0	0	0	0	1	0	0	0	15087	1609	56	3	1186	3	SPINK5	5	147480060	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	439371	147480060	33435200	54	91176											
FOXI1	2299	broad.mit.edu	37	chr5	169535259	169535259	+	Missense_Mutation	SNP	A	G	G	1	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	gagcctcaccagggggcaccAccagctccccagagaagcgg	10	2	13	16	1	1	1	1	0	0	1	2	3	2	1	6	3	3	2	6	3	1	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr5:169535259A>G	uc003mai.3	+	2	826	c.781A>G	c.(781-783)ACC>GCC	p.T261A	FOXI1_uc003maj.3_Intron	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	261					epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGGGGGCACCACCAGCTCCCC	0.632									Pendred_syndrome				23	72					0	0	0.002299	0	0		G	169535259	G	G	169535259	3	3	177	1	0	0	0	0	1	0	0	0	6023	159	6	3	787	3	FOXI1	5	169535259	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	22055199	169535259	11380001	55	91177											
CDYL	9425	broad.mit.edu	37	chr6	4892402	4892402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtggacggctttcagagCgagagccctgagaaactgga	11	6	15	9	2	1	3	1	1	0	3	1	7	1	5	1	3	3	2	1	3	1	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:4892402C>T	uc003mwi.2	+	4	773	c.642C>T	c.(640-642)AGC>AGT	p.S214S	CDYL_uc003mwj.2_Silent_p.S160S|CDYL_uc003mwk.2_Intron|CDYL_uc011dhx.1_Silent_p.S28S|CDYL_uc011dhy.1_Silent_p.S28S	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	214					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		GCTTTCAGAGCGAGAGCCCTG	0.597													11	57					0	0	0.001855	0	0		T	4892402	T	T	4892402	2	4	177	1	0	0	0	0	0	0	0	1	3188	767	27	1		1	CDYL	6	4892402	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08		4892402	166222665	56	91178											
HIST1H1E	3008	broad.mit.edu	37	chr6	26156698	26156698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagaagaaggcccgcaagtCtgcaggtgcggccaagcgca	12	3	15	11	3	1	2	0	0	1	2	1	3	1	2	2	3	3	3	2	3	5	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:26156698C>T	uc003ngq.2	+	1	140	c.80C>T	c.(79-81)TCT>TTT	p.S27F	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	27					nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						GCCCGCAAGTCTGCAGGTGCG	0.652													19	176					0	0	0.007413	0	0		T	26156698	T	T	26156698	3	4	177	1	0	0	0	0	1	0	0	0	7142	913	32	4	82	4	HIST1H1E	6	26156698	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	21264296	26156698	144958369	57	91179											
C6orf25	80739	broad.mit.edu	37	chr6	31691171	31691171	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcctaaccatggctgtgtTtctgcagctgctaccgctgc	6	12	9	14	1	1	0	0	0	1	0	2	0	2	0	3	1	6	6	3	1	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:31691171T>C	uc011doc.1	+	1	11	c.11T>C	c.(10-12)TTT>TCT	p.F4S	LY6G6C_uc003nwh.2_5'Flank|LY6G6C_uc010jtd.2_5'Flank|C6orf25_uc003nwk.2_Missense_Mutation_p.F4S|C6orf25_uc011dod.1_Missense_Mutation_p.F4S|C6orf25_uc011doe.1_Missense_Mutation_p.F4S|C6orf25_uc003nwo.2_Missense_Mutation_p.F4S|C6orf25_uc003nwn.2_Missense_Mutation_p.F4S	NM_138272	NP_612116	O95866	G6B_HUMAN	G6B protein isoform G6b-B precursor	4						endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	heparin binding|receptor activity				0						ATGGCTGTGTTTCTGCAGCTG	0.627													8	37					0	0	0.006214	0	0		C	31691171	C	C	31691171	3	2	177	1	0	0	0	0	1	0	0	0	2363	1841	64	3	13	3	C6orf25	6	31691171	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	5534473	31691171	139423896	58	91180											
TINAG	27283	broad.mit.edu	37	chr6	54191625	54191625	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcacagaattacagccaaTtttggggaatgactttagaa	15	10	9	7	0	0	3	0	1	0	2	0	4	0	4	1	2	3	1	1	2	6	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:54191625T>A	uc003pcj.2	+	4	681	c.535T>A	c.(535-537)TTT>ATT	p.F179I	TINAG_uc010jzt.2_RNA	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	179					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			TTACAGCCAATTTTGGGGAAT	0.358													14	31					0	0	0.00245	0	0		A	54191625	A	A	54191625	3	1	177	1	0	0	0	0	1	0	0	0	15946	1493	52	5	549	5	TINAG	6	54191625	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	22500454	54191625	116923442	59	91181											
HMGCLL1	54511	broad.mit.edu	37	chr6	55406891	55406891	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccatccctaggcccaacTtctactattttaacaaactc	13	12	2	14	0	1	0	0	0	1	0	4	0	3	0	3	1	4	0	3	1	7	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:55406891T>A	uc003pcn.2	-	3	405	c.246A>T	c.(244-246)GAA>GAT	p.E82D	HMGCLL1_uc003pco.2_Missense_Mutation_p.E52D|HMGCLL1_uc010jzx.2_Translation_Start_Site|HMGCLL1_uc011dxc.1_Missense_Mutation_p.E52D|HMGCLL1_uc011dxd.1_Missense_Mutation_p.E52D|HMGCLL1_uc011dxe.1_Missense_Mutation_p.E52D|HMGCLL1_uc003pcp.2_Missense_Mutation_p.E52D	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	82							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			TAGGCCCAACTTCTACTATTT	0.313													6	20					0	0	0.001984	0	0		A	55406891	A	A	55406891	3	1	177	1	0	0	0	0	1	0	0	0	7246	1606	56	5	898	5	HMGCLL1	6	55406891	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	1215266	55406891	115708176	60	91182											
BAI3	577	broad.mit.edu	37	chr6	70042852	70042852	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttggtatttaataaacTtgtttccagagatggaatcc	12	16	7	6	0	0	1	0	0	0	1	2	3	2	2	2	2	1	2	2	2	5	8			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:70042852T>C	uc003pev.3	+	24	3588	c.3140T>C	c.(3139-3141)CTT>CCT	p.L1047P	BAI3_uc010kak.2_Missense_Mutation_p.L1047P|BAI3_uc011dxx.1_Missense_Mutation_p.L253P|BAI3_uc003pex.1_Missense_Mutation_p.L177P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1047	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TTTAATAAACTTGTTTCCAGA	0.383													9	35					0	0	0.008291	0	0		C	70042852	C	C	70042852	3	2	177	1	0	0	0	0	1	0	0	0	1301	1609	56	3	3226	3	BAI3	6	70042852	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	14635961	70042852	101072215	61	91183											
C6orf165	154313	broad.mit.edu	37	chr6	88173942	88173942	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgatgaggtcaaggtgaacTtaactagagatgtggatgaa	14	9	13	5	1	1	4	1	3	0	1	1	7	1	5	1	3	2	0	1	3	5	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:88173942T>G	uc003plv.2	+	13	1935	c.1843T>G	c.(1843-1845)TTA>GTA	p.L615V	SLC35A1_uc003plx.2_RNA|C6orf165_uc003plw.2_Missense_Mutation_p.L427V|C6orf165_uc010kbv.1_RNA	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	615										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		CAAGGTGAACTTAACTAGAGA	0.418													8	40					0	0	0.00308	0	0		G	88173942	G	G	88173942	3	3	177	1	0	0	0	0	1	0	0	0	2344	1606	56	5	1889	5	C6orf165	6	88173942	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	18131090	88173942	82941125	62	91184											
C6orf167	253714	broad.mit.edu	37	chr6	97626443	97626443	+	Missense_Mutation	SNP	T	A	A	0	1	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	atcttgtcagtttgaccaacTgtttcatgtactctttttct	7	20	5	9	0	5	1	2	1	3	0	5	1	5	1	1	0	2	3	1	0	2	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:97626443T>A	uc003ppb.2	-	18	2821	c.2555A>T	c.(2554-2556)CAG>CTG	p.Q852L	C6orf167_uc011eaf.1_Missense_Mutation_p.Q812L	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	852					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		TTTGACCAACTGTTTCATGTA	0.269													8	33					0	0	0.00308	0	0		A	97626443	A	A	97626443	3	1	177	1	0	0	0	0	1	0	0	0	2345	1580	55	5	1208	5	C6orf167	6	97626443	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	9452501	97626443	73488624	63	91185											
MICAL1	64780	broad.mit.edu	37	chr6	109766483	109766483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaatctcatttagtcgcCgttggatggtctgaggggta	7	13	12	9	2	3	1	2	1	2	0	5	2	3	2	2	4	0	2	2	4	3	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:109766483C>T	uc003ptj.2	-	21	3052	c.2798G>A	c.(2797-2799)CGG>CAG	p.R933Q	MICAL1_uc003ptk.2_Missense_Mutation_p.R933Q|MICAL1_uc010kdr.2_Missense_Mutation_p.R847Q|MICAL1_uc011eaq.1_Missense_Mutation_p.R952Q	NM_022765	NP_073602	Q8TDZ2	MICA1_HUMAN	microtubule associated monoxygenase, calponin	933	Potential.				cytoskeleton organization|signal transduction	cytoplasm|intermediate filament	SH3 domain binding|zinc ion binding			breast(2)|ovary(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0142)|all cancers(137;0.0197)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)|BRCA - Breast invasive adenocarcinoma(108;0.0574)		ATTTAGTCGCCGTTGGATGGT	0.542													12	65					0	0	0.001855	0	0		T	109766483	T	T	109766483	3	4	177	1	0	0	0	0	1	0	0	0	9587	652	23	1	421	1	MICAL1	6	109766483	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	12140040	109766483	61348584	64	91186											
SLC35F1	222553	broad.mit.edu	37	chr6	118556704	118556704	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctggcaattttacgacgaAgatggtggaagtacatgatt	12	12	11	6	2	0	2	0	1	0	1	1	5	1	3	1	3	2	2	1	3	5	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:118556704A>C	uc003pxx.3	+	3	583	c.382A>C	c.(382-384)AGA>CGA	p.R128R		NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	128					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		TTTACGACGAAGATGGTGGAA	0.393													13	68					0	0	0.001368	0	0		C	118556704	C	C	118556704	2	2	177	1	0	0	0	0	0	0	0	1	14613	64	3	5		5	SLC35F1	6	118556704	Silent	SNP	A	TCGA-D7-6818-01A-11D-1882-08	8790221	118556704	52558363	65	91187											
BCLAF1	9774	broad.mit.edu	37	chr6	136599544	136599544	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtttttcctgagaccctcGtcttttagaaacaggagatt	9	16	8	8	1	1	3	0	1	1	3	3	5	2	3	2	1	1	1	2	1	2	6	rs140155621	byFrequency	TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:136599544G>A	uc003qgx.1	-	4	728	c.475C>T	c.(475-477)CGA>TGA	p.R159*	BCLAF1_uc003qgw.1_Nonsense_Mutation_p.R159*|BCLAF1_uc003qgy.1_Nonsense_Mutation_p.R157*|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Nonsense_Mutation_p.R157*	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	159					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TGAGACCCTCGTCTTTTAGAA	0.433													33	368					0	0	0.002445	0	0		A	136599544	A	A	136599544	4	1	177	1	0	0	0	0	0	1	0	0	1384	1153	40	1	2327	1	BCLAF1	6	136599544	Nonsense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	18042840	136599544	34515523	66	91188											
UTRN	7402	broad.mit.edu	37	chr6	144844177	144844177	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagaccaactggacaaacTtggagagcagattgcagtca	16	6	10	9	0	1	3	1	0	0	3	1	5	1	4	1	2	4	2	1	2	3	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:144844177T>G	uc003qkt.2	+	40	5851	c.5759T>G	c.(5758-5760)CTT>CGT	p.L1920R		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1920	Spectrin 13.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CTGGACAAACTTGGAGAGCAG	0.373													9	51					0	0	0.006214	0	0		G	144844177	G	G	144844177	3	3	177	1	0	0	0	0	1	0	0	0	17129	1609	56	5	5917	5	UTRN	6	144844177	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	8244633	144844177	26270890	67	91189											
SYNE1	23345	broad.mit.edu	37	chr6	152809633	152809633	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttaaaaattactctgtcTtctctctggaaatgaggaga	12	14	7	8	0	4	2	0	1	4	1	6	4	5	3	1	2	1	0	1	2	5	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr6:152809633T>G	uc010kiw.2	-	12	1547	c.945A>C	c.(943-945)GAA>GAC	p.E315D	SYNE1_uc003qot.3_Missense_Mutation_p.E322D|SYNE1_uc003qou.3_Missense_Mutation_p.E315D|SYNE1_uc010kjb.1_Missense_Mutation_p.E298D|SYNE1_uc003qpa.1_Missense_Mutation_p.E315D	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	315	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTACTCTGTCTTCTCTCTGGA	0.299										HNSCC(10;0.0054)			5	28					0	0	0.000602	0	0		G	152809633	G	G	152809633	3	3	177	1	0	0	0	0	1	0	0	0	15470	1606	56	5	26061	5	SYNE1	6	152809633	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	7965456	152809633	18305434	68	91190											
THSD7A	221981	broad.mit.edu	37	chr7	11676525	11676525	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccctccacatgagcacacCacacagccctcgtttggatg	10	8	7	16	1	0	1	0	1	0	0	3	2	2	2	4	1	2	2	4	1	0	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr7:11676525C>T	uc003ssf.3	-	2	506	c.254G>A	c.(253-255)TGG>TAG	p.W85*		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	85	TSP type-1 1.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		ATGAGCACACCACACAGCCCT	0.478										HNSCC(18;0.044)			26	147					0	0	0.008361	0	0		T	11676525	T	T	11676525	4	4	177	1	0	0	0	0	0	1	0	0	15904	595	21	4	4823	4	THSD7A	7	11676525	Nonsense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08		11676525	147462138	69	91191											
CCDC129	223075	broad.mit.edu	37	chr7	31682809	31682809	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgatcatactcaagacaagTtccttcatgttgactctgag	12	13	7	9	0	4	4	3	3	1	1	5	4	5	4	1	0	1	2	1	0	3	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr7:31682809T>G	uc003tcj.1	+	11	2818	c.1825T>G	c.(1825-1827)TTC>GTC	p.F609V	CCDC129_uc011kad.1_Missense_Mutation_p.F619V|CCDC129_uc003tci.1_Missense_Mutation_p.F460V|CCDC129_uc011kae.1_Missense_Mutation_p.F635V|CCDC129_uc003tck.1_Missense_Mutation_p.F517V	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	609											0						TCAAGACAAGTTCCTTCATGT	0.493													23	129					0	0	0.002299	0	0		G	31682809	G	G	31682809	3	3	177	1	0	0	0	0	1	0	0	0	2767	1725	60	5	1863	5	CCDC129	7	31682809	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	20006284	31682809	127455854	70	91192											
GLI3	2737	broad.mit.edu	37	chr7	42005998	42005998	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggggtcgtaggagtcggcCacgctcacgttctgcggccg	5	8	16	12	6	2	0	1	0	1	0	4	1	2	1	2	5	1	3	2	5	1	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr7:42005998C>T	uc011kbh.1	-	15	2764	c.2673G>A	c.(2671-2673)GTG>GTA	p.V891V	GLI3_uc011kbg.1_Silent_p.V832V	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	891					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						AGGAGTCGGCCACGCTCACGT	0.731									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				8	33					0	0	0.00308	0	0		T	42005998	T	T	42005998	2	4	177	1	0	0	0	0	0	0	0	1	6454	581	21	4		4	GLI3	7	42005998	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	10323189	42005998	117132665	71	91193											
DLX5	1749	broad.mit.edu	37	chr7	96651605	96651605	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggccagctgaaagctggaAtaaatagtcctgggtttacg	11	9	13	8	2	0	1	0	1	0	0	1	2	1	2	2	3	3	3	2	3	6	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr7:96651605A>C	uc003uon.2	-	2	640	c.432T>G	c.(430-432)TAT>TAG	p.Y144*	DLX5_uc011kim.1_Nonsense_Mutation_p.Y144*	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	144	Homeobox.				cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	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)					GAAAGCTGGAATAAATAGTCC	0.502													39	107					0	0	0.006999	0	0		C	96651605	C	C	96651605	4	2	177	1	0	0	0	0	0	1	0	0	4580	108	4	5	445	5	DLX5	7	96651605	Nonsense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	54645607	96651605	62487058	72	91194											
DOCK4	9732	broad.mit.edu	37	chr7	111640575	111640575	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgggttttttaaggcaaAtcctctgtaccagcctgtgg	8	15	10	8	0	1	0	0	0	1	0	2	0	2	0	3	3	2	3	3	3	3	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr7:111640575A>G	uc003vfx.2	-	3	405	c.136T>C	c.(136-138)TTT>CTT	p.F46L	DOCK4_uc003vfy.2_Missense_Mutation_p.F46L|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.F46L|DOCK4_uc003vgb.1_5'UTR	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	46	SH3.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TTTAAGGCAAATCCTCTGTAC	0.244													3	5					0	0	0.009096	0	0		G	111640575	G	G	111640575	3	3	177	1	0	0	0	0	1	0	0	0	4695	101	4	3	5964	3	DOCK4	7	111640575	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	14988970	111640575	47498088	73	91195											
PTPRN2	5799	broad.mit.edu	37	chr7	157931083	157931083	+	Missense_Mutation	SNP	A	T	T	1	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	gggctgcctcgagctactccAtggtccacgccttgcatcag	6	9	11	15	2	1	0	1	0	0	0	4	1	3	0	4	2	4	3	4	2	1	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr7:157931083A>T	uc003wno.2	-	7	1156	c.1035T>A	c.(1033-1035)CAT>CAA	p.H345Q	PTPRN2_uc003wnp.2_Missense_Mutation_p.H328Q|PTPRN2_uc003wnq.2_Missense_Mutation_p.H345Q|PTPRN2_uc003wnr.2_Missense_Mutation_p.H307Q|PTPRN2_uc011kwa.1_Missense_Mutation_p.H368Q	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	345	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		GAGCTACTCCATGGTCCACGC	0.667													26	60					0	0	0.00333	0	0		T	157931083	T	T	157931083	3	4	177	1	0	0	0	0	1	0	0	0	12833	214	8	5	2080	5	PTPRN2	7	157931083	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	46290508	157931083	1207580	74	91196											
CSMD1	64478	broad.mit.edu	37	chr8	2823471	2823471	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgcctggatccccacaacTtataactaataaacagggaa	15	9	7	10	0	0	0	0	0	0	0	1	2	1	2	3	2	4	0	3	2	7	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:2823471T>G	uc011kwk.1	-	59	9499	c.9109A>C	c.(9109-9111)AGT>CGT	p.S3037R	CSMD1_uc011kwj.1_Missense_Mutation_p.S2366R|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3037	Extracellular (Potential).|Sushi 24.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TCCCCACAACTTATAACTAAT	0.408													9	16					0	0	0.008291	0	0		G	2823471	G	G	2823471	3	3	177	1	0	0	0	0	1	0	0	0	3947	1609	56	5	1636	5	CSMD1	8	2823471	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08		2823471	143540551	75	91197											
RP1L1	94137	broad.mit.edu	37	chr8	10466216	10466216	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagtttctcccctttcacTtatgccctctccctcctgct	3	15	3	20	0	3	0	1	0	2	0	6	0	4	0	6	0	2	2	6	0	1	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:10466216T>G	uc003wtc.2	-	4	5621	c.5392A>C	c.(5392-5394)AGT>CGT	p.S1798R		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1798					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCCCTTTCACTTATGCCCTCT	0.572													38	268					0	0	0.004878	0	0		G	10466216	G	G	10466216	3	3	177	1	0	0	0	0	1	0	0	0	13558	1609	56	5	1814	5	RP1L1	8	10466216	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	7642745	10466216	135897806	76	91198											
TUSC3	7991	broad.mit.edu	37	chr8	15480646	15480646	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagttccagacgctcaatcTtccgaatgaatggtgataaa	13	10	10	8	2	2	3	1	2	1	1	4	5	4	4	2	2	0	2	2	2	5	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:15480646T>G	uc003wwt.2	+	2	406	c.196T>G	c.(196-198)TTC>GTC	p.F66V	TUSC3_uc003wwr.2_Missense_Mutation_p.F66V|TUSC3_uc003wws.2_Missense_Mutation_p.F66V|TUSC3_uc003wwu.2_Missense_Mutation_p.F66V|TUSC3_uc003wwv.2_Missense_Mutation_p.F66V|TUSC3_uc003www.2_Missense_Mutation_p.F66V|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.F66V	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	66					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		ACGCTCAATCTTCCGAATGAA	0.388													15	84					0	0	0.003163	0	0		G	15480646	G	G	15480646	3	3	177	1	0	0	0	0	1	0	0	0	16804	1609	56	5	202	5	TUSC3	8	15480646	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	5014430	15480646	130883376	77	91199											
CHD7	55636	broad.mit.edu	37	chr8	61655158	61655158	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttcacagcctcagggaacTtatgcctctccacctcccat	8	10	5	18	0	3	0	2	0	1	0	5	1	4	1	6	1	3	0	6	1	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:61655158T>G	uc003xue.2	+	2	1644	c.1167T>G	c.(1165-1167)ACT>ACG	p.T389T		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	389	Pro-rich.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			CTCAGGGAACTTATGCCTCTC	0.527													28	105					0	0	0.00632	0	0		G	61655158	G	G	61655158	2	3	177	1	0	0	0	0	0	0	0	1	3333	1596	56	5		5	CHD7	8	61655158	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	46174512	61655158	84708864	78	91200											
CYP7B1	9420	broad.mit.edu	37	chr8	65527645	65527645	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggaaatccagaccctttcTtttgacctgttgactgcagc	8	13	9	11	0	1	3	0	2	1	1	2	4	2	4	3	1	2	2	3	1	1	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:65527645T>G	uc003xvj.2	-	4	1199	c.995A>C	c.(994-996)AAG>ACG	p.K332T		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	332					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				AGACCCTTTCTTTTGACCTGT	0.443													9	64					0	0	0.006214	0	0		G	65527645	G	G	65527645	3	3	177	1	0	0	0	0	1	0	0	0	4200	1609	56	5	537	5	CYP7B1	8	65527645	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	3872487	65527645	80836377	79	91201											
KCNB2	9312	broad.mit.edu	37	chr8	73848300	73848300	+	Missense_Mutation	SNP	A	T	T	1	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	ccgccaattagcacacgtggAggctgtgtgtattgcatggt	8	11	13	9	2	0	0	0	0	0	0	0	1	0	1	2	3	2	4	2	3	3	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:73848300A>T	uc003xzb.2	+	3	1298	c.710A>T	c.(709-711)GAG>GTG	p.E237V		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	237	Helical; Name=Segment S2; (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			GCACACGTGGAGGCTGTGTGT	0.458													20	116					0	0	0.007413	0	0		T	73848300	T	T	73848300	3	4	177	1	0	0	0	0	1	0	0	0	8029	304	11	5	716	5	KCNB2	8	73848300	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	8320655	73848300	72515722	80	91202											
ZFHX4	79776	broad.mit.edu	37	chr8	77616403	77616403	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctatgtggaacgacacaacTtgataatgaggtgccagaga	14	8	12	7	1	0	3	0	2	0	1	0	6	0	4	1	2	3	1	1	2	4	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:77616403T>C	uc003yav.2	+	2	467	c.80T>C	c.(79-81)CTT>CCT	p.L27P	ZFHX4_uc003yat.1_Missense_Mutation_p.L27P|ZFHX4_uc003yau.1_Missense_Mutation_p.L27P|ZFHX4_uc003yaw.1_Missense_Mutation_p.L27P	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	27						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACGACACAACTTGATAATGAG	0.498										HNSCC(33;0.089)			8	34					0	0	0.00308	0	0		C	77616403	C	C	77616403	3	2	177	1	0	0	0	0	1	0	0	0	17660	1609	56	3	82	3	ZFHX4	8	77616403	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	3768103	77616403	68747619	81	91203											
TMEM55A	55529	broad.mit.edu	37	chr8	92030645	92030645	+	Silent	SNP	C	G	G	0	0	0	1	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	gtgtttccacagtgcccacaCacgacccttgtaccttctgg	7	11	8	15	1	1	0	0	0	1	0	2	1	2	0	4	1	2	2	4	1	1	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:92030645C>G	uc003yes.2	-	4	685	c.459G>C	c.(457-459)GTG>GTC	p.V153V		NM_018710	NP_061180	Q8N4L2	TM55A_HUMAN	transmembrane protein 55A	153						integral to membrane|late endosome membrane|lysosomal membrane	hydrolase activity				0			BRCA - Breast invasive adenocarcinoma(11;0.033)			AGTGCCCACACACGACCCTTG	0.433													16	142					0	0	0.001882	0	0		G	92030645	G	G	92030645	2	3	177	1	0	0	0	0	0	0	0	1	16206	465	17	5		5	TMEM55A	8	92030645	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	14414242	92030645	54333377	82	91204											
RIMS2	9699	broad.mit.edu	37	chr8	105263871	105263871	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccgcatggatcacaaatcTtttatgggagtggcccagat	10	10	12	9	1	2	1	1	0	1	1	2	3	2	3	2	4	0	1	2	4	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:105263871T>G	uc003yls.2	+	28	4168	c.3927T>G	c.(3925-3927)TCT>TCG	p.S1309S	RIMS2_uc003ylp.2_Silent_p.S1291S|RIMS2_uc003ylq.2_Silent_p.S1105S|RIMS2_uc003ylr.2_Silent_p.S1130S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1353	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			ATCACAAATCTTTTATGGGAG	0.413										HNSCC(12;0.0054)			31	165					0	0	0.003755	0	0		G	105263871	G	G	105263871	2	3	177	1	0	0	0	0	0	0	0	1	13393	1596	56	5		5	RIMS2	8	105263871	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	13233226	105263871	41100151	83	91205											
ANGPT1	284	broad.mit.edu	37	chr8	108264166	108264166	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtagtgccactttatcccatTcagttttccatggttttgtc	6	18	7	10	0	1	0	1	0	0	0	4	0	3	0	3	1	1	3	3	1	2	8			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:108264166T>C	uc003ymn.2	-	9	1882	c.1414A>G	c.(1414-1416)AAT>GAT	p.N472D	ANGPT1_uc011lhv.1_Missense_Mutation_p.N272D|ANGPT1_uc003ymo.2_Missense_Mutation_p.N471D	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	472	Fibrinogen C-terminal.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TTTATCCCATTCAGTTTTCCA	0.403													38	185					0	0	0.009718	0	0		C	108264166	C	C	108264166	3	2	177	1	0	0	0	0	1	0	0	0	610	1783	62	3	86	3	ANGPT1	8	108264166	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	3000295	108264166	38099856	84	91206											
ZNF34	80778	broad.mit.edu	37	chr8	145998889	145998889	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaactgttgtggaaggccTtcccacactcgctgcacttg	7	11	11	12	1	0	0	0	0	0	0	2	2	1	2	2	3	2	3	2	3	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr8:145998889T>C	uc003zdy.3	-	6	1547	c.1445A>G	c.(1444-1446)AAG>AGG	p.K482R	ZNF34_uc010mgb.2_Missense_Mutation_p.K379R|ZNF34_uc003zdx.3_Missense_Mutation_p.K461R	NM_030580	NP_085057	Q8IZ26	ZNF34_HUMAN	zinc finger protein 34	482	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.221)	OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;5.18e-38)|all cancers(56;4.41e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.0179)		GTGGAAGGCCTTCCCACACTC	0.537													17	110					0	0	0.00499	0	0		C	145998889	C	C	145998889	3	2	177	1	0	0	0	0	1	0	0	0	17881	1609	56	3	241	3	ZNF34	8	145998889	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	37734723	145998889	365133	85	91207											
PTPRD	5789	broad.mit.edu	37	chr9	8341129	8341129	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcattgatgtaatcagatCcttctactccacggataggc	10	12	9	10	1	2	2	1	1	1	1	4	3	4	3	2	3	1	2	2	3	3	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr9:8341129C>A	uc003zkk.2	-	40	5798	c.5087G>T	c.(5086-5088)GGA>GTA	p.G1696V	PTPRD_uc003zkp.2_Missense_Mutation_p.G1290V|PTPRD_uc003zkq.2_Missense_Mutation_p.G1289V|PTPRD_uc003zkr.2_Missense_Mutation_p.G1280V|PTPRD_uc003zks.2_Missense_Mutation_p.G1289V|PTPRD_uc003zkl.2_Missense_Mutation_p.G1687V|PTPRD_uc003zkm.2_Missense_Mutation_p.G1683V|PTPRD_uc003zkn.2_Missense_Mutation_p.G1285V|PTPRD_uc003zko.2_Missense_Mutation_p.G1286V	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1696	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GTAATCAGATCCTTCTACTCC	0.388										TSP Lung(15;0.13)			27	146					1.17739e-12	1.41628e-12	0.005443	1	0		A	8341129	A	A	8341129	3	1	177	1	0	0	0	0	1	0	0	0	12824	855	30	5	675	5	PTPRD	9	8341129	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08		8341129	132872302	86	91208											
DENND4C	55667	broad.mit.edu	37	chr9	19346825	19346825	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgcagtgtccaggtctaAaacttttactgggcgtttca	9	13	9	10	1	2	0	1	0	1	0	3	0	3	0	2	2	3	2	2	2	3	4	rs144390071	byFrequency	TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr9:19346825A>C	uc003znq.2	+	18	3236	c.3203A>C	c.(3202-3204)AAA>ACA	p.K1068T	DENND4C_uc011lnc.1_Missense_Mutation_p.K398T|DENND4C_uc011lnd.1_Missense_Mutation_p.K356T|DENND4C_uc003znr.2_Missense_Mutation_p.K356T|DENND4C_uc003zns.2_Missense_Mutation_p.K250T|DENND4C_uc003znt.2_Missense_Mutation_p.K250T	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1068						integral to membrane				ovary(1)|skin(1)	2						TCCAGGTCTAAAACTTTTACT	0.478													20	110					0	0	0.010504	0	0		C	19346825	C	C	19346825	3	2	177	1	0	0	0	0	1	0	0	0	4441	14	1	5	3273	5	DENND4C	9	19346825	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	11005696	19346825	121866606	87	91209											
ZNF322B	387328	broad.mit.edu	37	chr9	99961628	99961628	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcacacataataagagctaAgttttcacacaagttttgct	14	13	5	9	0	2	1	2	0	0	1	2	1	2	1	0	0	2	4	0	0	4	7			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr9:99961628A>C	uc004axd.1	-	1	283	c.166T>G	c.(166-168)TTA>GTA	p.L56V	uc004axb.2_5'Flank|ZNF322B_uc004axc.1_5'Flank|uc010msl.1_Intron	NM_199005	NP_945356			zinc finger protein 322B												0		Acute lymphoblastic leukemia(62;0.158)				ATAAGAGCTAAGTTTTCACAC	0.358													73	289					0	0	0.00361	0	0		C	99961628	C	C	99961628	3	2	177	1	0	0	0	0	1	0	0	0	17867	69	3	5	1046	5	ZNF322B	9	99961628	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	80614803	99961628	41251803	88	91210											
ALAD	210	broad.mit.edu	37	chr9	116155727	116155727	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccattcttggagactcacGtgacaaagatggggtagatg	11	9	13	8	1	2	4	1	1	1	3	2	5	2	4	1	3	0	1	1	3	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr9:116155727G>A	uc011lxf.1	-	2	315	c.113C>T	c.(112-114)ACG>ATG	p.T38M	ALAD_uc011lxe.1_Missense_Mutation_p.T38M|ALAD_uc004bhl.3_Missense_Mutation_p.R12C	NM_000031	NP_000022	P13716	HEM2_HUMAN	delta-aminolevulinic acid dehydratase	38					heme biosynthetic process|protein homooligomerization	cytosol	identical protein binding|lead ion binding|porphobilinogen synthase activity|zinc ion binding				0					Aminolevulinic acid(DB00855)	GGAGACTCACGTGACAAAGAT	0.537													16	80					0	0	0.004007	0	0		A	116155727	A	A	116155727	3	1	177	1	0	0	0	0	1	0	0	0	483	1159	40	1	923	1	ALAD	9	116155727	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	16194099	116155727	25057704	89	91211											
DBC1	1620	broad.mit.edu	37	chr9	121976287	121976287	+	Missense_Mutation	SNP	A	G	G	1	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	ctggatgtccgtgatggggcAgttgcactgcggaaactcct	7	10	14	10	2	0	1	0	1	0	0	2	3	2	3	2	4	3	3	2	4	1	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr9:121976287A>G	uc004bkc.2	-	6	1288	c.832T>C	c.(832-834)TGC>CGC	p.C278R	DBC1_uc004bkd.2_Missense_Mutation_p.C278R	NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	278					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GTGATGGGGCAGTTGCACTGC	0.557													37	83					0	0	0.005524	0	0		G	121976287	G	G	121976287	3	3	177	1	0	0	0	0	1	0	0	0	4250	188	7	3	1465	3	DBC1	9	121976287	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	5820560	121976287	19237144	90	91212											
LHX3	8022	broad.mit.edu	37	chr9	139091542	139091542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcgctgcttggcggtttCgtagtccgccttgcacacga	5	11	11	14	5	0	0	0	0	0	0	3	1	1	0	3	2	2	5	3	2	1	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr9:139091542C>T	uc004cha.2	-	3	533	c.436G>A	c.(436-438)GAA>AAA	p.E146K	LHX3_uc004cgz.2_Missense_Mutation_p.E151K	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	146					inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		TTGGCGGTTTCGTAGTCCGCC	0.657													7	61					0	0	0.004482	0	0		T	139091542	T	T	139091542	3	4	177	1	0	0	0	0	1	0	0	0	8788	893	31	1	773	1	LHX3	9	139091542	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	17115255	139091542	2121889	91	91213											
AKR1C4	1109	broad.mit.edu	37	chr10	5242199	5242199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaatagaagctggcttccGccatattgattctgcttatt	10	14	8	9	1	1	2	0	1	1	1	2	2	2	2	2	1	3	4	2	1	5	7			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr10:5242199G>A	uc001ihw.2	+	2	173	c.140G>A	c.(139-141)CGC>CAC	p.R47H		NM_001818	NP_001809	P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4	47					androgen metabolic process|bile acid biosynthetic process	cytosol	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid transmembrane transporter activity|chlordecone reductase activity|electron carrier activity			ovary(1)	1					NADH(DB00157)	GCTGGCTTCCGCCATATTGAT	0.443													42	78					0	0	0.00874	0	0		A	5242199	A	A	5242199	3	1	177	1	0	0	0	0	1	0	0	0	472	1087	38	1	146	1	AKR1C4	10	5242199	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08		5242199	130292548	92	91214											
CUBN	8029	broad.mit.edu	37	chr10	17113494	17113494	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaagttgaggagaatgacTtggctttggggctggtggat	8	12	18	3	0	0	4	0	3	0	1	0	6	0	5	0	6	0	3	0	6	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr10:17113494T>C	uc001ioo.2	-	19	2608	c.2556A>G	c.(2554-2556)CAA>CAG	p.Q852Q		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	852	CUB 4.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGAGAATGACTTGGCTTTGGG	0.423													10	49					0	0	0.008291	0	0		C	17113494	C	C	17113494	2	2	177	1	0	0	0	0	0	0	0	1	4054	1606	56	3		3	CUBN	10	17113494	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	11871295	17113494	118421253	93	91215											
ARMC3	219681	broad.mit.edu	37	chr10	23292249	23292249	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgaggcagcttataataAgttgctcaataacaatcttt	14	13	7	7	0	2	1	1	1	1	0	2	1	2	1	0	1	3	4	0	1	6	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr10:23292249A>C	uc001irm.3	+	13	1720	c.1637A>C	c.(1636-1638)AAG>ACG	p.K546T	ARMC3_uc010qcv.1_Missense_Mutation_p.K546T|ARMC3_uc010qcw.1_Missense_Mutation_p.K283T	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	546							binding				0						GCTTATAATAAGTTGCTCAAT	0.348													26	72					0	0	0.00333	0	0		C	23292249	C	C	23292249	3	2	177	1	0	0	0	0	1	0	0	0	953	72	3	5	1683	5	ARMC3	10	23292249	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	6178755	23292249	112242498	94	91216											
PCDH15	65217	broad.mit.edu	37	chr10	55582808	55582808	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgggcccctcagagacttacTcttggcttgtattttgggtg	5	15	12	9	0	2	1	1	0	1	1	2	2	2	1	2	3	1	2	2	3	2	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr10:55582808T>C	uc001jju.1	-	33	5073	c.4678A>G	c.(4678-4680)AGT>GGT	p.S1560G	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.S1557G|PCDH15_uc010qhw.1_Missense_Mutation_p.S1520G|PCDH15_uc010qhx.1_Missense_Mutation_p.S1491G|PCDH15_uc010qhy.1_Missense_Mutation_p.S1567G|PCDH15_uc010qhz.1_Missense_Mutation_p.S1562G|PCDH15_uc010qia.1_Missense_Mutation_p.S1540G|PCDH15_uc010qib.1_Missense_Mutation_p.S1537G	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1560	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGAGACTTACTCTTGGCTTGT	0.423										HNSCC(58;0.16)			29	149					0	0	0.008361	0	0		C	55582808	C	C	55582808	3	2	177	1	0	0	0	0	1	0	0	0	11530	1551	54	3	2799	3	PCDH15	10	55582808	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	32290559	55582808	79951939	95	91217											
NRG3	10718	broad.mit.edu	37	chr10	84711261	84711261	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaaaggcaggtgctgtcaaTttcatgtatcatctttggaa	11	14	9	7	0	5	0	4	0	1	0	5	1	5	1	0	3	1	3	0	3	4	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr10:84711261T>G	uc001kco.2	+	5	1118	c.1091T>G	c.(1090-1092)ATT>AGT	p.I364S	NRG3_uc010qlz.1_Missense_Mutation_p.I363S|NRG3_uc001kcp.2_Missense_Mutation_p.I143S|NRG3_uc001kcq.2_Missense_Mutation_p.I14S|NRG3_uc001kcr.2_Missense_Mutation_p.I14S	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	364	Helical; Note=Internal signal sequence; (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		GTGCTGTCAATTTCATGTATC	0.383													24	98					0	0	0.002096	0	0		G	84711261	G	G	84711261	3	3	177	1	0	0	0	0	1	0	0	0	10668	1493	52	5	1277	5	NRG3	10	84711261	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	29128453	84711261	50823486	96	91218											
MKI67	4288	broad.mit.edu	37	chr10	129900854	129900854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctctcaccttattttcagGgaccgagtcttgtaatttgt	7	17	7	10	1	3	0	2	0	2	0	5	2	4	1	3	1	0	1	3	1	2	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr10:129900854G>A	uc001lke.2	-	13	9445	c.9250C>T	c.(9250-9252)CCT>TCT	p.P3084S	MKI67_uc001lkf.2_Missense_Mutation_p.P2724S|MKI67_uc009yav.1_Missense_Mutation_p.P2659S|MKI67_uc009yaw.1_Missense_Mutation_p.P2234S	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	3084					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTATTTTCAGGGACCGAGTCT	0.388													33	168					0	0	0.003271	0	0		A	129900854	A	A	129900854	3	1	177	1	0	0	0	0	1	0	0	0	9616	1232	43	4	532	4	MKI67	10	129900854	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	45189593	129900854	5633893	97	91219											
OR51T1	401665	broad.mit.edu	37	chr11	4904025	4904025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttacagcttgaagaccaAgacaatccgccaggctatgt	13	9	8	11	1	0	3	0	1	0	2	1	3	1	3	3	1	2	2	3	1	5	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:4904025A>G	uc010qyp.1	+	1	977	c.977A>G	c.(976-978)AAG>AGG	p.K326R		NM_001004759	NP_001004759	Q8NGJ9	O51T1_HUMAN	olfactory receptor, family 51, subfamily T,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)	3		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)		TTGAAGACCAAGACAATCCGC	0.483													22	84					0	0	0.00333	0	0		G	4904025	G	G	4904025	3	3	177	1	0	0	0	0	1	0	0	0	11125	72	3	3	979	3	OR51T1	11	4904025	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08		4904025	130102491	98	91220											
OR51B5	282763	broad.mit.edu	37	chr11	5364505	5364505	+	Missense_Mutation	SNP	A	G	G	1	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	aatctccctgtgatccagccAgaggactcccagcaccgtgg	9	7	10	15	1	1	2	0	1	1	1	4	3	3	3	5	2	2	1	5	2	1	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:5364505A>G	uc001map.1	-	1	250	c.250T>C	c.(250-252)TGG>CGG	p.W84R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.W84R	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	84	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGATCCAGCCAGAGGACTCCC	0.557													26	55					0	0	0.004656	0	0		G	5364505	G	G	5364505	3	3	177	1	0	0	0	0	1	0	0	0	11110	188	7	3	692	3	OR51B5	11	5364505	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	460480	5364505	129642011	99	91221											
CNGA4	1262	broad.mit.edu	37	chr11	6265440	6265440	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggatgatctacagaccaAgtttgctcgcctcctggctg	7	11	11	12	1	1	2	0	1	1	1	3	3	2	3	3	2	2	4	3	2	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:6265440A>C	uc001mco.2	+	6	1636	c.1529A>C	c.(1528-1530)AAG>ACG	p.K510T	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	510	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTACAGACCAAGTTTGCTCGC	0.587													16	61					0	0	0.00499	0	0		C	6265440	C	C	6265440	3	2	177	1	0	0	0	0	1	0	0	0	3602	72	3	5	1551	5	CNGA4	11	6265440	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	900935	6265440	128741076	100	91222											
NAV2	89797	broad.mit.edu	37	chr11	20077343	20077343	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accactgtcacccagatgagCttgtccaacccgaccatgct	10	8	7	16	1	1	2	1	1	0	1	2	3	2	2	5	0	3	2	5	0	1	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:20077343C>T	uc010rdm.1	+	20	5101	c.4740C>T	c.(4738-4740)AGC>AGT	p.S1580S	NAV2_uc001mpp.2_Silent_p.S1493S|NAV2_uc001mpr.3_Silent_p.S1557S|NAV2_uc001mpt.2_Silent_p.S606S|NAV2_uc009yhx.2_Silent_p.S621S|NAV2_uc009yhy.1_Silent_p.S519S|NAV2_uc009yhz.2_Silent_p.S202S|NAV2_uc001mpu.2_5'UTR	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1580	Ser-rich.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CCCAGATGAGCTTGTCCAACC	0.498													31	78					0	0	0.002445	0	0		T	20077343	T	T	20077343	2	4	177	1	0	0	0	0	0	0	0	1	10202	796	28	2		2	NAV2	11	20077343	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	13811903	20077343	114929173	101	91223											
GAS2	2620	broad.mit.edu	37	chr11	22833442	22833442	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccctgccgaatgctgcagatCtcccgtgtggatggcaaaac	9	8	11	13	2	1	1	0	0	1	1	2	3	1	2	3	2	4	3	3	2	3	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:22833442C>T	uc009yie.2	+	8	1128	c.822C>T	c.(820-822)ATC>ATT	p.I274I	GAS2_uc001mqm.2_Silent_p.I274I|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Silent_p.I274I	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	274					cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						TGCTGCAGATCTCCCGTGTGG	0.483													7	73					0	0	0.001984	0	0		T	22833442	T	T	22833442	2	4	177	1	0	0	0	0	0	0	0	1	6260	903	32	4		4	GAS2	11	22833442	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	2756099	22833442	112173074	102	91224											
WT1	7490	broad.mit.edu	37	chr11	32414236	32414236	+	Missense_Mutation	SNP	T	G	G	0	1	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	atgtctcctttggtgtctttTgagctggtctgaacgagaaa	8	15	11	7	1	3	3	0	2	3	1	4	4	3	3	1	2	2	1	1	2	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:32414236T>G	uc001mtn.1	-	8	1511	c.1315A>C	c.(1315-1317)AAA>CAA	p.K439Q	WT1_uc001mtl.1_Missense_Mutation_p.K227Q|WT1_uc001mtm.1_Missense_Mutation_p.K210Q|WT1_uc001mto.1_Missense_Mutation_p.K439Q|WT1_uc001mtp.1_Missense_Mutation_p.K422Q|WT1_uc001mtq.1_Missense_Mutation_p.K422Q|WT1_uc009yjs.1_RNA	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D	371	C2H2-type 2.|Important for interaction with target DNA.				adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			TGGTGTCTTTTGAGCTGGTCT	0.428			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				3	73					0	0	0.009096	0	0		G	32414236	G	G	32414236	3	3	177	1	0	0	0	0	1	0	0	0	17434	1821	63	5	250	5	WT1	11	32414236	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	9580794	32414236	102592280	103	91225											
OR5D14	219436	broad.mit.edu	37	chr11	55563186	55563186	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggatgatcataataatcaAgattaaccccaaatttcaca	17	11	5	8	0	3	2	3	1	0	1	3	3	3	3	2	1	1	0	2	1	5	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:55563186A>T	uc010rim.1	+	1	155	c.155A>T	c.(154-156)AAG>ATG	p.K52M		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	52	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				ATAATAATCAAGATTAACCCC	0.388													6	115					0	0	0.001984	0	0		T	55563186	T	T	55563186	3	4	177	1	0	0	0	0	1	0	0	0	11174	72	3	5	157	5	OR5D14	11	55563186	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	23148950	55563186	79443330	104	91226											
OR5D14	219436	broad.mit.edu	37	chr11	55563610	55563610	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctctgtgtctggctctgaTatactcatcccccacctgct	6	14	6	15	0	4	1	1	1	3	0	6	1	5	1	3	1	2	2	3	1	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:55563610T>A	uc010rim.1	+	1	579	c.579T>A	c.(577-579)GAT>GAA	p.D193E		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CTGGCTCTGATATACTCATCC	0.428													37	195					0	0	0.004289	0	0		A	55563610	A	A	55563610	3	1	177	1	0	0	0	0	1	0	0	0	11174	1403	49	5	581	5	OR5D14	11	55563610	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	424	55563610	79442906	105	91227											
OR5AP2	338675	broad.mit.edu	37	chr11	56409864	56409864	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaagtcctaagaggagaaAttctgttacttctgtttgat	12	14	10	5	0	2	3	0	1	2	2	3	5	3	4	1	2	1	2	1	2	4	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:56409864A>C	uc001njb.1	-	1	52	c.52T>G	c.(52-54)TTT>GTT	p.F18V		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						AAGAGGAGAAATTCTGTTACT	0.398													6	51					0	0	0.00308	0	0		C	56409864	C	C	56409864	3	2	177	1	0	0	0	0	1	0	0	0	11163	101	4	5	902	5	OR5AP2	11	56409864	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	846254	56409864	78596652	106	91228											
GPR137	56834	broad.mit.edu	37	chr11	64056123	64056123	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttgcctctcggtcctacTtctttgaccgggctgggcac	3	14	10	14	2	3	1	0	1	3	0	5	1	4	1	3	3	2	2	3	3	1	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:64056123T>G	uc001nzg.1	+	7	1269	c.961T>G	c.(961-963)TTC>GTC	p.F321V	GPR137_uc010rni.1_Missense_Mutation_p.F379V|GPR137_uc001nzf.2_Missense_Mutation_p.F271V|GPR137_uc001nzi.2_Missense_Mutation_p.F321V|GPR137_uc010rnj.1_Intron|KCNK4_uc009ypl.1_5'Flank|KCNK4_uc001nzj.1_5'Flank|KCNK4_uc001nzk.1_5'Flank|KCNK4_uc010rnk.1_5'Flank	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	321	Cytoplasmic (Potential).					integral to membrane				central_nervous_system(1)	1						TCGGTCCTACTTCTTTGACCG	0.617													7	13					0	0	0.001984	0	0		G	64056123	G	G	64056123	3	3	177	1	0	0	0	0	1	0	0	0	6660	1609	56	5	1165	5	GPR137	11	64056123	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	7646259	64056123	70950393	107	91229											
SLC22A11	55867	broad.mit.edu	37	chr11	64329765	64329765	+	Missense_Mutation	SNP	A	G	G	1	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	agtggaccacgaccagcaggAgggcggtcaccatgacggtg	10	4	16	11	3	1	1	1	1	0	0	1	4	1	3	3	5	1	1	3	5	0	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:64329765A>G	uc001oai.2	+	4	1053	c.679A>G	c.(679-681)AGG>GGG	p.R227G	SLC22A11_uc001oah.1_Missense_Mutation_p.E192G|SLC22A11_uc001oaj.2_Missense_Mutation_p.R227G|SLC22A11_uc009ypq.2_Missense_Mutation_p.R227G|SLC22A11_uc001oak.1_Missense_Mutation_p.R56G	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	227	Cytoplasmic (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	GACCAGCAGGAGGGCGGTCAC	0.687													6	97					0	0	0.001168	0	0		G	64329765	G	G	64329765	3	3	177	1	0	0	0	0	1	0	0	0	14467	295	11	3	693	3	SLC22A11	11	64329765	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	273642	64329765	70676751	108	91230											
RASGRP2	10235	broad.mit.edu	37	chr11	64496457	64496457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcacactctgggccctgCgccgacactcaactgacagg	8	6	11	16	2	3	1	2	1	1	0	3	2	3	1	2	3	2	1	2	3	1	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:64496457C>T	uc009ypu.2	-	15	1876	c.1649G>A	c.(1648-1650)CGC>CAC	p.R550H	RASGRP2_uc001oat.2_Missense_Mutation_p.R452H|RASGRP2_uc001oau.2_Missense_Mutation_p.R405H|RASGRP2_uc009ypv.2_Missense_Mutation_p.R550H|RASGRP2_uc009ypw.2_Missense_Mutation_p.R550H	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	550					platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						CTGGGCCCTGCGCCGACACTC	0.637													7	26					0	0	0.004482	0	0		T	64496457	T	T	64496457	3	4	177	1	0	0	0	0	1	0	0	0	13100	768	27	1	188	1	RASGRP2	11	64496457	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	166692	64496457	70510059	109	91231											
SPTBN2	6712	broad.mit.edu	37	chr11	66468026	66468026	+	Frame_Shift_Del	DEL	G	-	-																															gagcacgccctcagcctgacGagcatcccgcaggaatccct																										TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:66468026delG	uc001ojd.2	-	16	3616	c.3544delC	c.(3544-3546)CGTfs	p.R1182fs		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1182	Spectrin 9.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TCAGCCTGACGAGCATCCCGC	0.647													25	55	---	---	---	---						.	-	66468026	-	-	66468026	7	5	177	1	0	1	0	1	0	0	0	0	15145	1058	37	0	3716	0	SPTBN2	11	66468026	Frame_Shift_Del	DEL	G	TCGA-D7-6818-01A-11D-1882-08	1971569	66468026	68538490	110	91232											
NAALAD2	10003	broad.mit.edu	37	chr11	89880537	89880537	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctggcaggaacagaacaAaatttcttgcttgccaagaa	15	9	8	9	0	2	2	0	0	2	2	2	3	2	3	1	2	4	2	1	2	6	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:89880537A>C	uc001pdf.3	+	3	343	c.234A>C	c.(232-234)CAA>CAC	p.Q78H	NAALAD2_uc009yvx.2_Missense_Mutation_p.Q78H|NAALAD2_uc009yvy.2_Missense_Mutation_p.Q78H|NAALAD2_uc001pdd.2_Missense_Mutation_p.Q78H|NAALAD2_uc001pde.2_Missense_Mutation_p.Q78H	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	78	Extracellular (Potential).				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				GAACAGAACAAAATTTCTTGC	0.378													5	51					0	0	0.001984	0	0		C	89880537	C	C	89880537	3	2	177	1	0	0	0	0	1	0	0	0	10146	11	1	5	244	5	NAALAD2	11	89880537	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	23412511	89880537	45125979	111	91233											
DYNC2H1	79659	broad.mit.edu	37	chr11	103124033	103124033	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaccacgttatgtggtacaAataggtgacaaaattattga	15	11	10	5	1	0	2	0	2	0	0	0	3	0	3	1	3	1	2	1	3	7	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:103124033A>C	uc001pho.2	+	66	10206	c.10062A>C	c.(10060-10062)CAA>CAC	p.Q3354H	DYNC2H1_uc001phn.1_Missense_Mutation_p.Q3361H|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3354	AAA 5 (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		ATGTGGTACAAATAGGTGACA	0.318													23	29					0	0	0.00333	0	0		C	103124033	C	C	103124033	3	2	177	1	0	0	0	0	1	0	0	0	4852	11	1	5	10349	5	DYNC2H1	11	103124033	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	13243496	103124033	31882483	112	91234											
TTC12	54970	broad.mit.edu	37	chr11	113220875	113220875	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggactgttcacagacttggCtctggaagaaaggtaatttt	11	12	12	6	0	2	2	1	0	1	2	2	4	2	4	0	4	0	3	0	4	3	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:113220875C>T	uc001pnu.2	+	14	1340	c.1235C>T	c.(1234-1236)GCT>GTT	p.A412V	TTC12_uc001pnv.2_Missense_Mutation_p.A418V|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Missense_Mutation_p.A262V	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	412							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		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)		ACAGACTTGGCTCTGGAAGAA	0.368													6	101					0	0	0.001984	0	0		T	113220875	T	T	113220875	3	4	177	1	0	0	0	0	1	0	0	0	16705	797	28	2	1285	2	TTC12	11	113220875	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	10096842	113220875	21785641	113	91235											
ZBTB16	7704	broad.mit.edu	37	chr11	114118040	114118040	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcaatggctgtggcaagaAgttcagcctcaagcatcagc	11	8	12	10	0	3	1	3	0	0	1	3	1	3	1	1	2	4	5	1	2	4	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:114118040A>C	uc001pop.2	+	6	2009	c.1745A>C	c.(1744-1746)AAG>ACG	p.K582T	ZBTB16_uc001poq.2_Missense_Mutation_p.K582T	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	582	C2H2-type 7.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TGTGGCAAGAAGTTCAGCCTC	0.597													4	62					0	0	0.000602	0	0		C	114118040	C	C	114118040	3	2	177	1	0	0	0	0	1	0	0	0	17551	72	3	5	1763	5	ZBTB16	11	114118040	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	897165	114118040	20888476	114	91236											
BCL9L	283149	broad.mit.edu	37	chr11	118771672	118771672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttcaagtgccccatgcccGgtgagcccatctgattaata	10	10	8	13	1	2	2	1	2	1	0	2	2	2	2	4	1	3	0	4	1	3	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr11:118771672G>A	uc001pug.2	-	6	3745	c.2780C>T	c.(2779-2781)CCG>CTG	p.P927L	BCL9L_uc009zal.2_Missense_Mutation_p.P922L	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	927	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CCCCATGCCCGGTGAGCCCAT	0.627													13	60					0	0	0.001368	0	0		A	118771672	A	A	118771672	3	1	177	1	0	0	0	0	1	0	0	0	1383	1116	39	1	1731	1	BCL9L	11	118771672	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	4653632	118771672	16234844	115	91237											
USP5	8078	broad.mit.edu	37	chr12	6966040	6966040	+	Missense_Mutation	SNP	A	C	C	1	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	ctgtcaagctgggcaccatcAcccctgatggagctggtaca	9	8	11	13	0	2	1	2	1	0	0	2	2	2	2	3	3	3	4	3	3	2	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:6966040A>C	uc001qri.3	+	6	813	c.754A>C	c.(754-756)ACC>CCC	p.T252P	USP5_uc001qrh.3_Missense_Mutation_p.T252P	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	252	UBP-type.				positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding	p.T252I(1)		lung(2)|breast(1)|skin(1)	4						GGGCACCATCACCCCTGATGG	0.512													7	52					0	0	0.001368	0	0		C	6966040	C	C	6966040	3	2	177	1	0	0	0	0	1	0	0	0	17107	159	6	5	776	5	USP5	12	6966040	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08		6966040	126885855	116	91238											
CD163L1	283316	broad.mit.edu	37	chr12	7531837	7531837	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccctggacattcacctcaActtttccagcacacctgctg	9	10	5	17	0	2	0	2	0	0	0	3	1	3	1	4	1	3	2	4	1	1	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:7531837A>C	uc001qsy.2	-	9	2134	c.2108T>G	c.(2107-2109)GTT>GGT	p.V703G	CD163L1_uc010sge.1_Missense_Mutation_p.V713G	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	703	SRCR 7.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						ATTCACCTCAACTTTTCCAGC	0.478													16	61					0	0	0.004007	0	0		C	7531837	C	C	7531837	3	2	177	1	0	0	0	0	1	0	0	0	2971	43	2	5	2297	5	CD163L1	12	7531837	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	565797	7531837	126320058	117	91239											
LST-3TM12	338821	broad.mit.edu	37	chr12	21200120	21200120	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggtggagcaacagtatggTtggtctgcatctaagactaa	12	11	12	6	0	2	1	0	0	2	1	2	2	2	2	0	4	3	4	0	4	4	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:21200120T>G	uc010sin.1	+	7	963	c.963T>G	c.(961-963)GGT>GGG	p.G321G	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Silent_p.G368G	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	321						membrane	transporter activity				0						AACAGTATGGTTGGTCTGCAT	0.328													3	10					0	0	0.009096	0	0		G	21200120	G	G	21200120	2	3	177	1	0	0	0	0	0	0	0	1	9084	1712	60	5		5	LST-3TM12	12	21200120	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	13668283	21200120	112651775	118	91240											
ALG10	84920	broad.mit.edu	37	chr12	34177047	34177047	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcttcagtgttggcaacTtctatttactatatttgctt	7	21	5	8	0	3	0	1	0	2	0	4	0	3	0	0	1	3	3	0	1	5	11			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:34177047T>C	uc001rlm.2	+	2	641	c.322T>C	c.(322-324)TTC>CTC	p.F108L		NM_032834	NP_116223	Q5BKT4	AG10A_HUMAN	asparagine-linked glycosylation 10 homolog	108	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity			skin(1)	1	Lung NSC(5;3.82e-05)|Acute lymphoblastic leukemia(23;0.0142)|all_hematologic(23;0.0429)	Lung NSC(34;0.204)|all_lung(34;0.235)				TGTTGGCAACTTCTATTTACT	0.368													27	113					0	0	0.002096	0	0		C	34177047	C	C	34177047	3	2	177	1	0	0	0	0	1	0	0	0	511	1609	56	3	328	3	ALG10	12	34177047	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	12976927	34177047	99674848	119	91241											
ADAMTS20	80070	broad.mit.edu	37	chr12	43777757	43777757	+	Silent	SNP	T	C	C	0	1	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	tatacatccctctgctgaacTccagagccacaggtcacaga	12	8	7	14	0	2	3	1	1	1	2	4	3	4	3	3	1	4	1	3	1	3	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:43777757T>C	uc010skx.1	-	30	4476	c.4476A>G	c.(4474-4476)GGA>GGG	p.G1492G		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1492	TSP type-1 12.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TCTGCTGAACTCCAGAGCCAC	0.433													19	27					0	0	0.010504	0	0		C	43777757	C	C	43777757	2	2	177	1	0	0	0	0	0	0	0	1	266	1538	54	3		3	ADAMTS20	12	43777757	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	9600710	43777757	90074138	120	91242											
KRT73	319101	broad.mit.edu	37	chr12	53002152	53002152	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcccccgctgacagagctgGgccagtagccgtaggtgcca	8	5	14	14	2	0	2	0	1	0	1	0	2	0	2	5	2	4	4	5	2	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:53002152G>T	uc001sas.2	-	9	1486	c.1451C>A	c.(1450-1452)CCC>CAC	p.P484H		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	484	Tail.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		GACAGAGCTGGGCCAGTAGCC	0.652													6	43					0.00116845	0.00135322	0.001168	1	0		T	53002152	T	T	53002152	3	4	177	1	0	0	0	0	1	0	0	0	8502	1232	43	5	175	5	KRT73	12	53002152	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	9224395	53002152	80849743	121	91243											
PDE1B	5153	broad.mit.edu	37	chr12	54960855	54960855	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctctgctggaagccgtcTacatagatgagacacggtga	10	10	11	10	2	2	3	0	2	2	2	3	5	2	4	1	2	3	1	1	2	3	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:54960855T>C	uc001sgd.1	+	3	377	c.211T>C	c.(211-213)TAC>CAC	p.Y71H	PDE1B_uc010soz.1_5'UTR|PDE1B_uc010spa.1_Missense_Mutation_p.Y30H|PDE1B_uc001sgf.2_5'UTR|PDE1B_uc001sge.2_Missense_Mutation_p.Y51H|PDE1B_uc009znq.2_5'UTR	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	71					activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GGAAGCCGTCTACATAGATGa	0.264													7	17					0	0	0.00308	0	0		C	54960855	C	C	54960855	3	2	177	1	0	0	0	0	1	0	0	0	11653	1522	53	3	274	3	PDE1B	12	54960855	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	1958703	54960855	78891040	122	91244											
LRRIQ1	84125	broad.mit.edu	37	chr12	85449826	85449826	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaagatatttcaaatgatAagggtgatatagccaaaaat	18	12	8	3	0	1	4	1	3	0	1	1	4	1	4	1	1	1	0	1	1	8	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:85449826A>C	uc001tac.2	+	8	1366	c.1255A>C	c.(1255-1257)AAG>CAG	p.K419Q	LRRIQ1_uc001tab.1_Missense_Mutation_p.K419Q|LRRIQ1_uc001taa.1_Missense_Mutation_p.K394Q	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	419										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TTCAAATGATAAGGGTGATAT	0.318													12	133					0	0	0.004007	0	0		C	85449826	C	C	85449826	3	2	177	1	0	0	0	0	1	0	0	0	9047	363	13	5	1281	5	LRRIQ1	12	85449826	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	30488971	85449826	48402069	123	91245											
C12orf50	160419	broad.mit.edu	37	chr12	88388493	88388493	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcctttcatattggctaAgttttgtcggaactgtaaga	9	16	9	7	1	1	1	1	0	0	1	2	2	1	2	1	2	2	3	1	2	4	8			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:88388493A>C	uc001tam.1	-	7	677	c.509T>G	c.(508-510)CTT>CGT	p.L170R	C12orf50_uc001tan.2_Missense_Mutation_p.L224R	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	170										skin(2)|ovary(1)	3						ATATTGGCTAAGTTTTGTCGG	0.323													16	47					0	0	0.007413	0	0		C	88388493	C	C	88388493	3	2	177	1	0	0	0	0	1	0	0	0	1698	72	3	5	763	5	C12orf50	12	88388493	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	2938667	88388493	45463402	124	91246											
TAOK3	51347	broad.mit.edu	37	chr12	118619209	118619209	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagccacttgcttcttggcCagcttctccagctcgatgga	7	12	9	13	1	2	0	0	0	2	0	4	2	2	1	3	2	4	3	3	2	1	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr12:118619209C>A	uc001twx.2	-	15	1828	c.1533G>T	c.(1531-1533)CTG>CTT	p.L511L	TAOK3_uc001twv.2_Silent_p.L51L|TAOK3_uc001tww.2_Silent_p.L341L|TAOK3_uc001twy.3_Silent_p.L511L	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	511					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GCTTCTTGGCCAGCTTCTCCA	0.552											OREG0022177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	107					0.000132079	0.000155866	0.008871	1	0		A	118619209	A	A	118619209	2	1	177	1	0	0	0	0	0	0	0	1	15574	581	21	5		5	TAOK3	12	118619209	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	30230716	118619209	15232686	125	91247											
NALCN	259232	broad.mit.edu	37	chr13	101717888	101717888	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtagccgcagcaggaacTtgacgcggaacgtggggatc	10	5	16	10	4	0	1	0	1	0	0	1	4	0	4	1	4	4	4	1	4	3	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr13:101717888T>G	uc001vox.1	-	40	4661	c.4472A>C	c.(4471-4473)AAG>ACG	p.K1491T		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1491	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CAGCAGGAACTTGACGCGGAA	0.527													17	113					0	0	0.00499	0	0		G	101717888	G	G	101717888	3	3	177	1	0	0	0	0	1	0	0	0	10166	1609	56	5	764	5	NALCN	13	101717888	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08		101717888	13451990	126	91248											
NALCN	259232	broad.mit.edu	37	chr13	102051417	102051417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attatccgacagagactcatCaggaccaaagtcagtgactg	14	8	9	10	1	3	2	3	1	0	1	4	5	4	3	2	1	0	0	2	1	2	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr13:102051417C>T	uc001vox.1	-	2	250	c.61G>A	c.(61-63)GAT>AAT	p.D21N	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.D21N|NALCN_uc001vpa.2_Missense_Mutation_p.D21N	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	21	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGAGACTCATCAGGACCAAAG	0.458													79	41					0	0	0.00361	0	0		T	102051417	T	T	102051417	3	4	177	1	0	0	0	0	1	0	0	0	10166	826	29	4	5327	4	NALCN	13	102051417	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	333529	102051417	13118461	127	91249											
ACIN1	22985	broad.mit.edu	37	chr14	23530626	23530626	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcccattcacgctctgatCgagtccgctcccgccgctcc	5	9	8	19	5	2	1	1	1	1	0	7	3	6	1	5	0	0	3	5	0	0	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr14:23530626C>A	uc001wit.3	-	17	3807	c.3479G>T	c.(3478-3480)CGA>CTA	p.R1160L	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Missense_Mutation_p.R402L|ACIN1_uc001wiq.3_Missense_Mutation_p.R402L|ACIN1_uc001wir.3_Missense_Mutation_p.R433L|ACIN1_uc001wis.3_Missense_Mutation_p.R841L|ACIN1_uc010akg.2_Missense_Mutation_p.R1147L	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1160	Arg/Asp/Glu/Lys-rich.		R -> Q (in a colorectal cancer sample; somatic mutation).		apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding	p.R1160Q(1)		ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		ACGCTCTGATCGAGTCCGCTC	0.642													29	82					3.73988e-18	4.54259e-18	0.00632	1	0		A	23530626	A	A	23530626	3	1	177	1	0	0	0	0	1	0	0	0	142	884	31	5	558	5	ACIN1	14	23530626	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08		23530626	83818914	128	91250											
AKAP6	9472	broad.mit.edu	37	chr14	33292966	33292966	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctctactcccactgagaagTctttctcagaactggcttta	9	13	6	13	0	3	2	1	1	3	2	5	3	4	2	2	1	2	1	2	1	4	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr14:33292966T>C	uc001wrq.2	+	13	6117	c.5947T>C	c.(5947-5949)TCT>CCT	p.S1983P		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1983					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CACTGAGAAGTCTTTCTCAGA	0.413													16	84					0	0	0.00499	0	0		C	33292966	C	C	33292966	3	2	177	1	0	0	0	0	1	0	0	0	455	1667	58	3	5993	3	AKAP6	14	33292966	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	9762340	33292966	74056574	129	91251											
LRFN5	145581	broad.mit.edu	37	chr14	42356853	42356853	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtatgataacggaacacTtgacattcttatcacaactg	13	12	8	8	1	2	2	1	2	1	0	2	3	2	3	0	2	3	1	0	2	5	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr14:42356853T>C	uc001wvm.2	+	3	2223	c.1025T>C	c.(1024-1026)CTT>CCT	p.L342P	LRFN5_uc010ana.2_Missense_Mutation_p.L342P	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	342	Extracellular (Potential).|Ig-like.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AACGGAACACTTGACATTCTT	0.423										HNSCC(30;0.082)			25	81					0	0	0.004656	0	0		C	42356853	C	C	42356853	3	2	177	1	0	0	0	0	1	0	0	0	8959	1609	56	3	1027	3	LRFN5	14	42356853	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	9063887	42356853	64992687	130	91252											
SIX6	4990	broad.mit.edu	37	chr14	60976152	60976152	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttgaatttcagcccccaGcaagtggccggggtatgtga	9	10	12	10	1	2	2	1	2	1	0	2	2	2	2	3	3	2	2	3	3	3	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr14:60976152G>T	uc001xfa.3	+	1	215	c.36G>T	c.(34-36)CAG>CAT	p.Q12H		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	12					organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		TCAGCCCCCAGCAAGTGGCCG	0.697													17	51					3.52763e-06	4.18276e-06	0.00499	1	0		T	60976152	T	T	60976152	3	4	177	1	0	0	0	0	1	0	0	0	14376	962	34	5	38	5	SIX6	14	60976152	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	18619299	60976152	46373388	131	91253											
ACTN1	87	broad.mit.edu	37	chr14	69349291	69349291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcagagcttggtccctccGaggcaccagctgccgcacct	6	7	11	17	3	1	1	1	0	0	1	3	2	3	1	5	2	3	4	5	2	0	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr14:69349291G>A	uc001xkl.2	-	16	2147	c.1837C>T	c.(1837-1839)CGG>TGG	p.R613W	ACTN1_uc001xkk.2_Missense_Mutation_p.R209W|ACTN1_uc010ttb.1_Missense_Mutation_p.R548W|ACTN1_uc001xkm.2_Missense_Mutation_p.R613W|ACTN1_uc001xkn.2_Missense_Mutation_p.R613W|ACTN1_uc010ttc.1_Missense_Mutation_p.R198W	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	613	Interaction with DDN.|Spectrin 3.				focal adhesion assembly|negative regulation of cellular component movement|platelet activation|platelet degranulation|regulation of apoptosis	actin cytoskeleton|cytosol|extracellular region|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|sarcomere	actin binding|calcium ion binding|integrin binding|vinculin binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00605)|all cancers(60;0.00846)|OV - Ovarian serous cystadenocarcinoma(108;0.0654)		TGGTCCCTCCGAGGCACCAGC	0.597													8	62					0	0	0.006214	0	0		A	69349291	A	A	69349291	3	1	177	1	0	0	0	0	1	0	0	0	204	1057	37	1	935	1	ACTN1	14	69349291	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	8373139	69349291	38000249	132	91254											
HHIPL1	84439	broad.mit.edu	37	chr14	100123443	100123443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggagatggcgggatggccGgagacccctttgggacattt	7	9	16	9	2	0	2	0	0	0	2	0	6	0	4	3	6	0	0	3	6	0	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr14:100123443G>A	uc010avs.2	+	3	1074	c.1009G>A	c.(1009-1011)GGA>AGA	p.G337R	HHIPL1_uc001ygl.1_Missense_Mutation_p.G337R	NM_001127258	NP_001120730	Q96JK4	HIPL1_HUMAN	HHIP-like protein 1 isoform a	337					carbohydrate metabolic process	extracellular region|membrane	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding|scavenger receptor activity			skin(2)	2		Melanoma(154;0.128)				CGGGATGGCCGGAGACCCCTT	0.527													27	429					0	0	0.005443	0	0		A	100123443	A	A	100123443	3	1	177	1	0	0	0	0	1	0	0	0	7109	1117	39	1	1019	1	HHIPL1	14	100123443	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	30774152	100123443	7226097	133	91255											
SLC24A5	283652	broad.mit.edu	37	chr15	48414059	48414059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttccttaacaggaaatAgcacccaatgtgttatttct	11	15	5	10	0	1	0	0	0	1	0	2	1	2	1	3	1	2	2	3	1	5	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr15:48414059A>G	uc001zwe.2	+	2	200	c.127A>G	c.(127-129)AGC>GGC	p.S43G	SLC24A5_uc001zwd.2_Missense_Mutation_p.S43G|SLC24A5_uc010bel.2_Intron	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	43	Extracellular (Potential).				response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		AACAGGAAATAGCACCCAATG	0.428													3	100					0	0	0.004672	0	0		G	48414059	G	G	48414059	3	3	177	1	0	0	0	0	1	0	0	0	14494	420	15	3	133	3	SLC24A5	15	48414059	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08		48414059	54117333	134	91256											
SECISBP2L	9728	broad.mit.edu	37	chr15	49303966	49303966	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtggcaagtcatcaataAaatctaagtgcatttctgtt	12	14	7	8	0	4	0	2	0	2	0	4	0	4	0	1	1	1	3	1	1	5	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr15:49303966A>C	uc001zxe.1	-	13	1960	c.1826T>G	c.(1825-1827)TTT>TGT	p.F609C	SECISBP2L_uc001zxd.1_Missense_Mutation_p.F564C|SECISBP2L_uc010bep.1_Missense_Mutation_p.F371C	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	609										breast(1)|skin(1)	2						GTCATCAATAAAATCTAAGTG	0.403													9	35					0	0	0.006214	0	0		C	49303966	C	C	49303966	3	2	177	1	0	0	0	0	1	0	0	0	14032	14	1	5	1503	5	SECISBP2L	15	49303966	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	889907	49303966	53227426	135	91257											
PDE8A	5151	broad.mit.edu	37	chr15	85619125	85619125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	atcaaaactctcagaaaacaCagttattgttggtgtagtac	15	12	7	7	0	2	1	2	0	1	1	3	1	2	1	0	1	3	4	0	1	7	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr15:85619125C>T	uc002blh.2	+	4	656	c.467C>T	c.(466-468)ACA>ATA	p.T156I	PDE8A_uc002bli.2_Missense_Mutation_p.T156I|PDE8A_uc010bnc.2_5'UTR|PDE8A_uc010bnd.2_5'UTR|PDE8A_uc002blj.2_5'UTR|PDE8A_uc002blk.2_5'UTR	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	156					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			TCAGAAAACACAGTTATTGTT	0.279													61	261					0	0	0.00361	0	0		T	85619125	T	T	85619125	3	4	177	1	0	0	0	0	1	0	0	0	11672	478	17	4	481	4	PDE8A	15	85619125	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	36315159	85619125	16912267	136	91258											
NPRL3	8131	broad.mit.edu	37	chr16	160567	160567	+	Silent	SNP	C	T	T	0	0	0	1	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	ctggccagcttgcacttgggCaggatgtgatggaatgggga	8	9	17	7	0	0	1	0	1	0	0	0	4	0	4	1	6	2	3	1	6	1	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr16:160567C>T	uc002cfr.2	-	7	684	c.585G>A	c.(583-585)CTG>CTA	p.L195L	NPRL3_uc010uua.1_RNA|NPRL3_uc002cfp.1_RNA|NPRL3_uc002cfq.2_Silent_p.L16L|NPRL3_uc010uub.1_Silent_p.L170L|NPRL3_uc010uuc.1_Silent_p.L117L|NPRL3_uc002cfs.1_Silent_p.L170L	NM_001077350	NP_001070818	Q12980	NPRL3_HUMAN	conserved gene telomeric to alpha globin cluster	195							protein binding			ovary(1)	1						TGCACTTGGGCAGGATGTGAT	0.423													5	26					0	0	0.001984	0	0		T	160567	T	T	160567	2	4	177	1	0	0	0	0	0	0	0	1	10617	697	25	2		2	NPRL3	16	160567	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08		160567	90194186	137	91259											
MYH11	4629	broad.mit.edu	37	chr16	15841950	15841950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggttggggaagccctgccGgcagatgcgaatgccttcca	7	7	14	13	3	0	1	0	0	0	1	1	3	1	2	5	4	4	2	5	4	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr16:15841950G>A	uc002ddy.2	-	17	2241	c.2134C>T	c.(2134-2136)CGG>TGG	p.R712W	MYH11_uc002ddv.2_Missense_Mutation_p.R719W|MYH11_uc002ddw.2_Missense_Mutation_p.R712W|MYH11_uc002ddx.2_Missense_Mutation_p.R719W|MYH11_uc010bvg.2_Missense_Mutation_p.R544W	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	712	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AAGCCCTGCCGGCAGATGCGA	0.637			T	CBFB	AML								15	79					0	0	0.003163	0	0		A	15841950	A	A	15841950	3	1	177	1	0	0	0	0	1	0	0	0	10049	1115	39	1	3919	1	MYH11	16	15841950	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	15681383	15841950	74512803	138	91260											
ACSM2A	123876	broad.mit.edu	37	chr16	20481029	20481029	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgggtggctgaacttcaAgaaactactaaagtgagtat	14	11	11	5	0	1	4	1	3	0	1	1	4	1	4	0	2	3	2	0	2	7	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr16:20481029A>G	uc010bwe.2	+	5	823	c.584A>G	c.(583-585)AAG>AGG	p.K195R	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Missense_Mutation_p.K116R|ACSM2A_uc002dhf.3_Missense_Mutation_p.K195R|ACSM2A_uc002dhg.3_Missense_Mutation_p.K195R|ACSM2A_uc010vay.1_Missense_Mutation_p.K116R	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	195					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CTGAACTTCAAGAAACTACTA	0.269													37	236					0	0	0.00623	0	0		G	20481029	G	G	20481029	3	3	177	1	0	0	0	0	1	0	0	0	183	72	3	3	594	3	ACSM2A	16	20481029	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	4639079	20481029	69873724	139	91261											
TNRC6A	27327	broad.mit.edu	37	chr16	24801035	24801035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	catcaaatggagggttaaatCcaagcactttgaattcagct	14	11	8	8	0	2	1	2	1	0	0	3	2	3	2	1	2	2	3	1	2	5	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr16:24801035C>T	uc002dmm.2	+	6	1186	c.1072C>T	c.(1072-1074)CCA>TCA	p.P358S	TNRC6A_uc010bxs.2_Missense_Mutation_p.P105S|TNRC6A_uc010vcc.1_Missense_Mutation_p.P105S|TNRC6A_uc002dmn.2_Missense_Mutation_p.P105S|TNRC6A_uc002dmo.2_Missense_Mutation_p.P105S	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	358	Ser-rich.|Sufficient for interaction with EIF2C1, EIF2C3 and EIF2C4.|Sufficient for interaction with EIF2C2.|Sufficient for interaction with EIF2C2.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		AGGGTTAAATCCAAGCACTTT	0.453													23	126					0	0	0.00278	0	0		T	24801035	T	T	24801035	3	4	177	1	0	0	0	0	1	0	0	0	16365	855	30	4	1094	4	TNRC6A	16	24801035	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	4320006	24801035	65553718	140	91262											
C16orf92	146378	broad.mit.edu	37	chr16	30035099	30035099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggggacagagtctccgcGcttcttagacagacctgact	8	9	11	13	2	2	4	0	1	2	3	3	5	2	5	3	2	0	1	3	2	1	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr16:30035099G>A	uc002dvs.2	+	2	203	c.182G>A	c.(181-183)CGC>CAC	p.R61H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|C16orf92_uc002dvr.2_Missense_Mutation_p.R39H	NM_001109660	NP_001103130	Q96LL3	CP092_HUMAN	hypothetical protein LOC146378 isoform 2	61						integral to membrane					0						GAGTCTCCGCGCTTCTTAGAC	0.567													9	43					0	0	0.006214	0	0		A	30035099	A	A	30035099	3	1	177	1	0	0	0	0	1	0	0	0	1848	1087	38	1	202	1	C16orf92	16	30035099	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	5234064	30035099	60319654	141	91263											
SALL1	6299	broad.mit.edu	37	chr16	51174365	51174365	+	Missense_Mutation	SNP	A	G	G	1	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	cccggagtcacttttgactgAgcctggggggctggtggcag	5	9	17	10	1	1	2	1	2	0	0	1	3	1	3	2	6	1	2	2	6	0	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr16:51174365A>G	uc010vgs.1	-	2	1799	c.1768T>C	c.(1768-1770)TCA>CCA	p.S590P	SALL1_uc010vgr.1_Missense_Mutation_p.S493P|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	590					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CTTTTGACTGAGCCTGGGGGG	0.627													13	68					0	0	0.00245	0	0		G	51174365	G	G	51174365	3	3	177	1	0	0	0	0	1	0	0	0	13835	304	11	3	2214	3	SALL1	16	51174365	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	21139266	51174365	39180388	142	91264											
ADAMTS18	170692	broad.mit.edu	37	chr16	77325275	77325275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatttggtttcttaatattaCggcatcttcgctctgggaaa	9	16	9	7	2	3	0	0	0	3	0	4	2	3	1	0	3	1	3	0	3	4	6	rs150975249	byFrequency	TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr16:77325275C>T	uc002ffc.3	-	21	3709	c.3290G>A	c.(3289-3291)CGT>CAT	p.R1097H		NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1097	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CTTAATATTACGGCATCTTCG	0.502													63	197					0	0	0.00361	0	0		T	77325275	T	T	77325275	3	4	177	1	0	0	0	0	1	0	0	0	263	536	19	1	387	1	ADAMTS18	16	77325275	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	26150910	77325275	13029478	143	91265											
ANKFY1	51479	broad.mit.edu	37	chr17	4086708	4086708	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cctacctgacatttatatctGcctggtgctccagcaggaag	9	11	9	12	0	1	1	0	1	1	0	2	2	2	2	4	2	4	2	4	2	4	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:4086708G>A	uc002fxq.1	-	14	1975	c.1937C>T	c.(1936-1938)GCA>GTA	p.A646V	ANKFY1_uc002fxn.2_Missense_Mutation_p.A688V|ANKFY1_uc002fxo.2_Missense_Mutation_p.A646V|ANKFY1_uc002fxp.2_Missense_Mutation_p.A645V|ANKFY1_uc010ckp.2_Missense_Mutation_p.A587V	NM_016376	NP_057460	Q9P2R3	ANFY1_HUMAN	ankyrin repeat and FYVE domain containing 1	646	ANK 9.					endosome membrane	metal ion binding|protein binding			ovary(2)|skin(1)	3						ATTTATATCTGCCTGGTGCTC	0.517													33	70					0	0	0.002836	0	0		A	4086708	A	A	4086708	3	1	177	1	0	0	0	0	1	0	0	0	626	1319	46	2	1623	2	ANKFY1	17	4086708	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08		4086708	77108502	144	91266											
SOX15	6665	broad.mit.edu	37	chr17	7491725	7491725	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttaggggcatgggggcacCagcaaggggagggttgtatg	8	7	21	5	0	0	0	0	0	0	0	0	1	0	1	1	8	1	6	1	8	3	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:7491725C>G	uc002ghy.1	-	3	821	c.673G>C	c.(673-675)GGT>CGT	p.G225R	MPDU1_uc010vuc.1_Intron|SOX15_uc002ghz.1_Missense_Mutation_p.G225R	NM_006942	NP_008873	O60248	SOX15_HUMAN	SRY-box 15	225				GA -> VP (in Ref. 7; BAA78784).	chromatin organization|male gonad development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1						ATGGGGGCACCAGCAAGGGGA	0.617													93	115					0	0	0.00361	0	0		G	7491725	G	G	7491725	3	3	177	1	0	0	0	0	1	0	0	0	14971	594	21	5	32	5	SOX15	17	7491725	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	3405017	7491725	73703485	145	91267											
TP53	7157	broad.mit.edu	37	chr17	7577090	7577096	+	Frame_Shift_Del	DEL	CGCCGGT	-	-																															ggagattctcttcctctgtgCgccggtctctcccaggacag																								rs149633775	byFrequency	TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:7577090_7577096delCGCCGGT	uc002gim.2	-	8	1036_1042	c.842_848delACCGGCG	c.(841-849)GACCGGCGCfs	p.D281fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Frame_Shift_Del_p.D281fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.D149fs|TP53_uc010cng.1_Frame_Shift_Del_p.D149fs|TP53_uc002gii.1_Frame_Shift_Del_p.D149fs|TP53_uc010cnh.1_Frame_Shift_Del_p.D281fs|TP53_uc010cni.1_Frame_Shift_Del_p.D281fs|TP53_uc002gij.2_Frame_Shift_Del_p.D281fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	281_283	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> S (in a sporadic cancer; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> H (in a brain tumor with no family history; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(366)|p.R282G(27)|p.D281E(25)|p.R283P(23)|p.R282Q(21)|p.D281H(19)|p.D281N(18)|p.R283C(17)|p.R282P(14)|p.R283H(12)|p.D281G(10)|p.R282R(8)|p.0?(7)|p.D281Y(6)|p.D281D(5)|p.R283L(4)|p.R283fs*62(4)|p.R282L(3)|p.D281V(3)|p.R283G(2)|p.D281fs*63(2)|p.R280_D281delRD(2)|p.R283fs*63(2)|p.?(2)|p.R283fs*16(2)|p.R282fs*24(2)|p.D281A(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R283del(1)|p.R283S(1)|p.R283fs*22(1)|p.R282_E287delRRTEEE(1)|p.T284_G293del10(1)|p.G279fs*59(1)|p.D281fs*24(1)|p.S269fs*21(1)|p.R282fs*63(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.T284fs*57(1)|p.F270_D281del12(1)|p.R282H(1)|p.R283fs*56(1)|p.V272_K292del21(1)|p.R283fs*59(1)|p.C275fs*20(1)|p.D281R(1)|p.D281_R282delDR(1)|p.R280fs*62(1)|p.R283_T284>T(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCCTCTGTGCGCCGGTCTCTCCCAGG	0.556		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			18	29	---	---	---	---						.	-	7577096	-	-	7577090	7	5	177	1	0	1	0	1	0	0	0	0	16407	768	27	0	438	0	TP53	17	7577090	Frame_Shift_Del	DEL	CGCCGGT	TCGA-D7-6818-01A-11D-1882-08	85365	7577090	73618120	146	91268											
PIK3R5	23533	broad.mit.edu	37	chr17	8791715	8791715	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtgatactggttcgtcCagggggctgcagaggctccc	5	8	18	10	1	0	2	0	1	0	1	3	2	2	2	2	6	2	4	2	6	1	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:8791715C>T	uc002glt.2	-	10	1456	c.1389G>A	c.(1387-1389)CTG>CTA	p.L463L	PIK3R5_uc010vuz.1_Silent_p.L463L|PIK3R5_uc002glu.3_Silent_p.L77L|PIK3R5_uc010coa.1_3'UTR|PIK3R5_uc010cob.1_Silent_p.L77L	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	463					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						CTGGTTCGTCCAGGGGGCTGC	0.711													5	9					0	0	0.000602	0	0		T	8791715	T	T	8791715	2	4	177	1	0	0	0	0	0	0	0	1	11941	581	21	4		4	PIK3R5	17	8791715	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	1214625	8791715	72403495	147	91269											
NTN1	9423	broad.mit.edu	37	chr17	8926512	8926512	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcgcgactcgtacttctaCgcggtgtccgacctgcaggt	5	9	13	14	7	1	0	0	0	1	0	3	2	2	0	2	2	3	2	2	2	2	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:8926512C>T	uc002glw.3	+	2	929	c.822C>T	c.(820-822)TAC>TAT	p.Y274Y		NM_004822	NP_004813	O95631	NET1_HUMAN	netrin 1 precursor	274	Laminin N-terminal.				apoptosis|axon guidance		protein binding				0						CGTACTTCTACGCGGTGTCCG	0.706													4	12					0	0	0.009096	0	0		T	8926512	T	T	8926512	2	4	177	1	0	0	0	0	0	0	0	1	10719	547	19	1		1	NTN1	17	8926512	Silent	SNP	C	TCGA-D7-6818-01A-11D-1882-08	134797	8926512	72268698	148	91270											
DNAH9	1770	broad.mit.edu	37	chr17	11696975	11696975	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagaagtgctcaagaaaacTtttgatgtgagtattgccct	13	12	9	7	0	1	4	1	2	0	2	1	4	1	4	1	0	3	2	1	0	5	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:11696975T>G	uc002gne.2	+	42	8285	c.8217T>G	c.(8215-8217)ACT>ACG	p.T2739T	DNAH9_uc010coo.2_Silent_p.T2033T	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2739					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TCAAGAAAACTTTTGATGTGA	0.313													12	26					0	0	0.001855	0	0		G	11696975	G	G	11696975	2	3	177	1	0	0	0	0	0	0	0	1	4614	1596	56	5		5	DNAH9	17	11696975	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	2770463	11696975	69498235	149	91271											
NCOR1	9611	broad.mit.edu	37	chr17	16041498	16041498	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctccaagtatgatgcaattaGtccaaagttttttggatgct	11	15	8	7	0	0	1	0	1	0	0	2	2	2	2	2	1	2	4	2	1	5	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:16041498G>T	uc002gpo.2	-	13	1621	c.1381C>A	c.(1381-1383)CTA>ATA	p.L461I	NCOR1_uc002gpn.2_Missense_Mutation_p.L461I|NCOR1_uc002gpp.1_Missense_Mutation_p.L352I|NCOR1_uc002gpr.2_Missense_Mutation_p.L352I|NCOR1_uc002gps.1_Missense_Mutation_p.L470I|NCOR1_uc010coz.1_Missense_Mutation_p.L277I|NCOR1_uc010cpb.1_Missense_Mutation_p.L470I|NCOR1_uc010cpa.1_Missense_Mutation_p.L461I	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	461	SANT 1.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GATGCAATTAGTCCAAAGTTT	0.353													5	24					0.00116845	0.00135322	0.001168	1	0		T	16041498	T	T	16041498	3	4	177	1	0	0	0	0	1	0	0	0	10254	1020	36	5	6077	5	NCOR1	17	16041498	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	4344523	16041498	65153712	150	91272											
MPRIP	23164	broad.mit.edu	37	chr17	17077319	17077319	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	gaatgcccatctggcccaggCgctggaggccgagcggcagg	7	4	17	13	3	1	0	0	0	1	0	1	3	1	1	3	6	2	2	3	6	1	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:17077319C>G	uc002gqu.1	+	18	2575	c.2519C>G	c.(2518-2520)GCG>GGG	p.A840G	MPRIP_uc002gqv.1_Missense_Mutation_p.A840G|MPRIP_uc002gqw.1_Missense_Mutation_p.A595G|MPRIP_uc002gqx.1_Missense_Mutation_p.A1069G|MPRIP_uc002gqy.1_Missense_Mutation_p.A1069G|MPRIP_uc010cpl.1_Missense_Mutation_p.A66G|MPRIP_uc010cpm.1_Missense_Mutation_p.A66G	NM_201274	NP_958431	Q6WCQ1	MPRIP_HUMAN	myosin phosphatase-Rho interacting protein	840	Interaction with PPP1R12A.|Potential.					cytoplasm|cytoskeleton	actin binding				0						CTGGCCCAGGCGCTGGAGGCC	0.662													4	57					0	0	0.000602	0	0		G	17077319	G	G	17077319	3	3	177	1	0	0	0	0	1	0	0	0	9761	768	27	5	2589	5	MPRIP	17	17077319	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	1035821	17077319	64117891	151	91273											
ACOX1	51	broad.mit.edu	37	chr17	73945808	73945808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagagctcacctggctgcaCggagtttatatgcttcggtt	7	12	13	9	2	1	1	1	0	0	1	2	3	1	2	1	4	3	6	1	4	2	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr17:73945808C>T	uc002jqf.2	-	10	1759	c.1469G>A	c.(1468-1470)CGT>CAT	p.R490H	ACOX1_uc010wsq.1_Missense_Mutation_p.R452H|ACOX1_uc002jqe.2_Missense_Mutation_p.R490H|ACOX1_uc010wsr.1_Missense_Mutation_p.R422H	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	490					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						CCTGGCTGCACGGAGTTTATA	0.557													21	70					0	0	0.003954	0	0		T	73945808	T	T	73945808	3	4	177	1	0	0	0	0	1	0	0	0	158	536	19	1	533	1	ACOX1	17	73945808	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	56868489	73945808	7249402	152	91274											
FAM59A	64762	broad.mit.edu	37	chr18	29867223	29867223	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggaagttctgactttcccGggatgcctgctgattcttca	7	13	11	10	1	3	2	1	2	2	0	4	4	4	4	2	2	2	2	2	2	1	4	rs148857293		TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr18:29867223G>T	uc002kxl.2	-	4	1393	c.1337C>A	c.(1336-1338)CCG>CAG	p.P446Q	FAM59A_uc002kxk.1_Missense_Mutation_p.P446Q	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	446										ovary(1)|skin(1)	2						TGACTTTCCCGGGATGCCTGC	0.542													5	165					0.00116845	0.00135322	0.001168	1	0		T	29867223	T	T	29867223	3	4	177	1	0	0	0	0	1	0	0	0	5606	1116	39	5	1302	5	FAM59A	18	29867223	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08		29867223	48210025	153	91275											
LIPG	9388	broad.mit.edu	37	chr18	47101837	47101837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgtcctccacacctacacgCgttccttcggcttgagcatt	7	12	7	15	3	0	1	0	1	0	0	4	1	3	1	4	1	2	3	4	1	1	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr18:47101837C>T	uc002ldv.2	+	5	922	c.670C>T	c.(670-672)CGT>TGT	p.R224C	LIPG_uc002ldu.1_Missense_Mutation_p.R224C|LIPG_uc010xdh.1_Intron	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	224					cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						CACCTACACGCGTTCCTTCGG	0.557													16	61					0	0	0.004007	0	0		T	47101837	T	T	47101837	3	4	177	1	0	0	0	0	1	0	0	0	8840	768	27	1	688	1	LIPG	18	47101837	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	17234614	47101837	30975411	154	91276											
DDX49	54555	broad.mit.edu	37	chr19	19032555	19032555	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgcatcatcgtcggtggcaTgggtacgggagctgggaggc	6	8	18	9	3	1	0	1	0	0	0	3	2	1	2	0	6	3	4	0	6	1	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr19:19032555T>C	uc002nkq.1	+	3	380	c.323T>C	c.(322-324)ATG>ACG	p.M108T	COPE_uc002nkk.2_5'Flank|COPE_uc002nkl.2_5'Flank|COPE_uc002nkm.2_5'Flank|COPE_uc002nkn.2_5'Flank|HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkr.1_RNA|DDX49_uc002nks.1_Missense_Mutation_p.M1T|DDX49_uc002nkt.1_5'Flank	NM_019070	NP_061943	Q9Y6V7	DDX49_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 49	108	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			Epithelial(12;0.0289)			GTCGGTGGCATGGGTACGGGA	0.642													33	47					0	0	0.002836	0	0		C	19032555	C	C	19032555	3	2	177	1	0	0	0	0	1	0	0	0	4369	1464	51	3	333	3	DDX49	19	19032555	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08		19032555	40096428	155	91277											
ZNF98	148198	broad.mit.edu	37	chr19	22574432	22574432	+	Silent	SNP	T	C	C	0	1	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	ccagtatgaatcatcttatgTctgttaagaatagaggagtt	13	14	9	5	0	3	3	1	1	2	2	3	4	3	4	1	1	0	3	1	1	6	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr19:22574432T>C	uc002nqt.2	-	4	1727	c.1605A>G	c.(1603-1605)AGA>AGG	p.R535R		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	535	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				TCATCTTATGTCTGTTAAGAA	0.363													11	36					0	0	0.00245	0	0		C	22574432	C	C	22574432	2	2	177	1	0	0	0	0	0	0	0	1	18228	1664	58	3		3	ZNF98	19	22574432	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	3541877	22574432	36554551	156	91278											
ZNF98	148198	broad.mit.edu	37	chr19	22574473	22574473	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttaaaggctttgccgcattCttcacacttgtagggtttct	7	16	9	9	1	3	0	1	0	2	0	3	0	3	0	1	2	1	5	1	2	3	7			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr19:22574473C>T	uc002nqt.2	-	4	1686	c.1564G>A	c.(1564-1566)GAA>AAA	p.E522K		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	522	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				TTGCCGCATTCTTCACACTTG	0.393													8	54					0	0	0.006214	0	0		T	22574473	T	T	22574473	3	4	177	1	0	0	0	0	1	0	0	0	18228	922	32	4	158	4	ZNF98	19	22574473	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	41	22574473	36554510	157	91279											
FCGBP	8857	broad.mit.edu	37	chr19	40361014	40361014	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	acaggatccctggcaggtgcGagtgcagatggagtagtggc	9	7	17	8	1	0	1	0	0	0	1	1	4	1	3	1	5	2	3	1	5	1	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr19:40361014G>C	uc002omp.3	-	33	15402	c.15394C>G	c.(15394-15396)CGC>GGC	p.R5132G		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5132	Cys-rich.|TIL 12.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TGGCAGGTGCGAGTGCAGATG	0.637													10	49					0	0	0.008291	0	0		C	40361014	C	C	40361014	3	2	177	1	0	0	0	0	1	0	0	0	5792	1058	37	5	839	5	FCGBP	19	40361014	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	17786541	40361014	18767969	158	91280											
FCGBP	8857	broad.mit.edu	37	chr19	40382289	40382289	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagcagtactcacgacagaAgtccggccgcctccactcgc	9	5	11	16	4	1	1	1	0	0	1	4	3	3	2	4	2	2	2	4	2	2	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr19:40382289A>C	uc002omp.3	-	22	10605	c.10597T>G	c.(10597-10599)TTC>GTC	p.F3533V		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	3533						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			TCACGACAGAAGTCCGGCCGC	0.652													16	145					0	0	0.00333	0	0		C	40382289	C	C	40382289	3	2	177	1	0	0	0	0	1	0	0	0	5792	72	3	5	5680	5	FCGBP	19	40382289	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	21275	40382289	18746694	159	91281											
NLRP9	338321	broad.mit.edu	37	chr19	56243743	56243743	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacctgggtcaagagggttTgaggctgaaccacacttgct	9	9	12	11	0	1	3	1	2	0	1	1	3	1	3	3	3	2	3	3	3	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr19:56243743T>C	uc002qly.2	-	2	1482	c.1454A>G	c.(1453-1455)CAA>CGA	p.Q485R		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	485						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CAAGAGGGTTTGAGGCTGAAC	0.473													42	160					0	0	0.009718	0	0		C	56243743	C	C	56243743	3	2	177	1	0	0	0	0	1	0	0	0	10503	1812	63	3	1553	3	NLRP9	19	56243743	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	15861454	56243743	2885240	160	91282											
LIPI	149998	broad.mit.edu	37	chr21	15538686	15538686	+	Missense_Mutation	SNP	A	G	G	1	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	aaatactgtcagtatacctgAgaaaattgatttaggacagc	16	11	8	6	0	1	2	1	2	0	1	1	4	1	3	1	1	3	1	1	1	7	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr21:15538686A>G	uc002yjm.2	-	5	803	c.793T>C	c.(793-795)TCA>CCA	p.S265P	LIPI_uc010gkw.1_Intron	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	244					lipid catabolic process	extracellular region|extracellular space|membrane|plasma membrane	heparin binding|phospholipase activity			ovary(2)	2				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.0015)|Colorectal(24;0.00693)|Lung(58;0.166)		AGTATACCTGAGAAAATTGAT	0.348													3	87					0	0	0.004672	0	0		G	15538686	G	G	15538686	3	3	177	1	0	0	0	0	1	0	0	0	8842	304	11	3	676	3	LIPI	21	15538686	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08		15538686	32591209	161	91283											
BRWD1	54014	broad.mit.edu	37	chr21	40608669	40608669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggaggctgcaaattgatgCccgcatcagctgtccaatcg	11	8	11	11	2	1	1	1	1	0	0	3	2	2	2	2	2	3	4	2	2	3	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chr21:40608669C>T	uc002yxk.1	-	23	2757	c.2618G>A	c.(2617-2619)GGC>GAC	p.G873D	BRWD1_uc010goc.1_5'UTR|BRWD1_uc002yxl.2_Missense_Mutation_p.G873D|BRWD1_uc010goe.1_RNA|BRWD1_uc010gof.1_Missense_Mutation_p.G326D|BRWD1_uc010gog.1_RNA|BRWD1_uc010goh.1_RNA|BRWD1_uc010goi.1_Missense_Mutation_p.G549D	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	873					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				CAAATTGATGCCCGCATCAGC	0.403													18	80					0	0	0.010504	0	0		T	40608669	T	T	40608669	3	4	177	1	0	0	0	0	1	0	0	0	1528	739	26	2	4663	2	BRWD1	21	40608669	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08	25069983	40608669	7521226	162	91284											
TLR8	51311	broad.mit.edu	37	chrX	12940244	12940244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcttgactgaaaatgattcaCggtataacaatatgtatgtc	14	14	7	6	1	2	3	1	3	1	0	3	3	2	3	0	1	1	2	0	1	7	6			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:12940244C>T	uc004cve.2	+	2	3153	c.3085C>T	c.(3085-3087)CGG>TGG	p.R1029W	TLR8_uc004cvd.2_Missense_Mutation_p.R1047W	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	1029	Cytoplasmic (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						AAATGATTCACGGTATAACAA	0.403													118	75					0	0	0.00361	0	0		T	12940244	T	T	12940244	3	4	177	1	0	0	0	0	1	0	0	0	15982	527	19	1	3091	1	TLR8	23	12940244	Missense_Mutation	SNP	C	TCGA-D7-6818-01A-11D-1882-08		12940244	142330316	163	91285											
MAGEB6	158809	broad.mit.edu	37	chrX	26212865	26212865	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gatcttcatgaacggcaactGtgccactgaagaggaggtct	11	9	12	9	1	3	3	1	2	2	1	3	5	3	4	1	3	3	1	1	3	3	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:26212865G>A	uc004dbr.2	+	2	1051	c.902G>A	c.(901-903)TGT>TAT	p.C301Y	MAGEB6_uc010ngc.1_Missense_Mutation_p.C81Y	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	301	MAGE.									ovary(3)	3						AACGGCAACTGTGCCACTGAA	0.517													66	255					0	0	0.00361	0	0		A	26212865	A	A	26212865	3	1	177	1	0	0	0	0	1	0	0	0	9197	1377	48	4	904	4	MAGEB6	23	26212865	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	13272621	26212865	129057695	164	91286											
DMD	1756	broad.mit.edu	37	chrX	32430014	32430014	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatgctctgttcaagcaacTtttgcctccttacagcctaa	9	13	7	12	0	2	0	1	0	1	0	3	1	3	1	3	1	6	3	3	1	4	5			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:32430014T>G	uc004dda.1	-	30	4332	c.4088A>C	c.(4087-4089)AAG>ACG	p.K1363T	DMD_uc004dcw.2_Missense_Mutation_p.K19T|DMD_uc004dcx.2_Missense_Mutation_p.K22T|DMD_uc004dcz.2_Missense_Mutation_p.K1240T|DMD_uc004dcy.1_Missense_Mutation_p.K1359T|DMD_uc004ddb.1_Missense_Mutation_p.K1355T|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1363	Spectrin 9.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TTCAAGCAACTTTTGCCTCCT	0.393													20	29					0	0	0.010504	0	0		G	32430014	G	G	32430014	3	3	177	1	0	0	0	0	1	0	0	0	4586	1609	56	5	7317	5	DMD	23	32430014	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	6217149	32430014	122840546	165	91287											
FAM47B	170062	broad.mit.edu	37	chrX	34961619	34961619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcgggtgtccagtctccGcccagagcctcccaagactc	7	7	10	17	2	1	2	0	0	1	2	6	3	3	2	5	1	1	0	5	1	1	0			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:34961619G>A	uc004ddi.1	+	1	689	c.671G>A	c.(670-672)CGC>CAC	p.R224H		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	224	Pro-rich.									ovary(3)|breast(1)	4						TCCAGTCTCCGCCCAGAGCCT	0.657													26	92					0	0	0.007291	0	0		A	34961619	A	A	34961619	3	1	177	1	0	0	0	0	1	0	0	0	5584	1087	38	1	673	1	FAM47B	23	34961619	Missense_Mutation	SNP	G	TCGA-D7-6818-01A-11D-1882-08	2531605	34961619	120308941	166	91288											
NRK	203447	broad.mit.edu	37	chrX	105132295	105132295	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttattccataggatgaggaAgaggatctcaggactgaact	13	10	11	7	0	1	3	1	2	1	1	3	7	2	7	1	4	1	0	1	4	4	3			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:105132295A>C	uc004emd.2	+	5	564	c.261A>C	c.(259-261)GAA>GAC	p.E87D	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	87	Protein kinase.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						AGGATGAGGAAGAGGATCTCA	0.413										HNSCC(51;0.14)			3	7					0	0	0.004672	0	0		C	105132295	C	C	105132295	3	2	177	1	0	0	0	0	1	0	0	0	10674	69	3	5	279	5	NRK	23	105132295	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	70170676	105132295	50138265	167	91289											
NRK	203447	broad.mit.edu	37	chrX	105189886	105189886	+	Missense_Mutation	SNP	A	G	G	1	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	atgcattgatcaatcagcagActctgaaggagactacatgt	14	10	9	8	0	3	4	2	2	1	2	3	5	3	4	0	1	3	2	0	1	3	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:105189886A>G	uc004emd.2	+	25	4385	c.4082A>G	c.(4081-4083)GAC>GGC	p.D1361G	NRK_uc011msi.1_5'Flank	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1361	CNH.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						CAATCAGCAGACTCTGAAGGA	0.438										HNSCC(51;0.14)			19	36					0	0	0.001882	0	0		G	105189886	G	G	105189886	3	3	177	1	0	0	0	0	1	0	0	0	10674	275	10	3	4180	3	NRK	23	105189886	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	57591	105189886	50080674	168	91290											
TBC1D8B	54885	broad.mit.edu	37	chrX	106110054	106110054	+	Missense_Mutation	SNP	A	G	G	1	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	gtacaatggaagttttactgAgaagcttaagctgcttttta	12	15	9	5	0	0	1	0	1	0	1	0	3	0	2	0	1	5	5	0	1	7	7			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:106110054A>G	uc004emo.2	+	17	2855	c.2690A>G	c.(2689-2691)GAG>GGG	p.E897G	MORC4_uc004emp.3_Intron	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	897						intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGTTTTACTGAGAAGCTTAAG	0.299													10	96					0	0	0.000978	0	0		G	106110054	G	G	106110054	3	3	177	1	0	0	0	0	1	0	0	0	15651	304	11	3	2822	3	TBC1D8B	23	106110054	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	920168	106110054	49160506	169	91291											
RGAG1	57529	broad.mit.edu	37	chrX	109695009	109695009	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaatgatgtctaatccGccagtgagagcaacagcctc	12	9	9	11	1	2	3	0	3	2	1	4	4	3	3	3	0	3	1	3	0	3	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:109695009G>T	uc004eor.1	+	3	1410	c.1164G>T	c.(1162-1164)CCG>CCT	p.P388P	RGAG1_uc011msr.1_Silent_p.P388P	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	388										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						TGTCTAATCCGCCAGTGAGAG	0.552													85	219					1.02218e-41	1.25381e-41	0.00361	1	0		T	109695009	T	T	109695009	2	4	177	1	0	0	0	0	0	0	0	1	13299	1074	38	5		5	RGAG1	23	109695009	Silent	SNP	G	TCGA-D7-6818-01A-11D-1882-08	3584955	109695009	45575551	170	91292											
CDR1	1038	broad.mit.edu	37	chrX	139866175	139866175	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttccagaaaatccttgtcTtcccttaaatctatagcttc	10	16	3	12	0	3	1	0	0	3	1	7	1	6	1	3	0	1	1	3	0	6	7			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:139866175T>G	uc004fbg.1	-	1	549	c.357A>C	c.(355-357)GAA>GAC	p.E119D	uc004fbf.1_RNA	NM_004065	NP_004056	P51861	CDR1_HUMAN	cerebellar degeneration-related protein 1,	119	23 X 6 AA approximate repeats.|20.										0	Acute lymphoblastic leukemia(192;7.65e-05)	Lung SC(4;0.051)				AATCCTTGTCTTCCCTTAAAT	0.443													25	85					0	0	0.00278	0	0		G	139866175	G	G	139866175	3	3	177	1	0	0	0	0	1	0	0	0	3174	1606	56	5	435	5	CDR1	23	139866175	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	30171166	139866175	15404385	171	91293											
MAGEC1	9947	broad.mit.edu	37	chrX	140995251	140995251	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgctcctgagggggaggaTtccctgtctcctctccaaat	7	11	11	12	0	2	1	0	1	2	0	6	3	4	3	4	3	1	1	4	3	1	1			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:140995251T>G	uc004fbt.2	+	4	2347	c.2061T>G	c.(2059-2061)GAT>GAG	p.D687E	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	687							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGGGAGGATTCCCTGTCTC	0.577										HNSCC(15;0.026)			53	39					0	0	0.00361	0	0		G	140995251	G	G	140995251	3	3	177	1	0	0	0	0	1	0	0	0	9198	1490	52	5	2067	5	MAGEC1	23	140995251	Missense_Mutation	SNP	T	TCGA-D7-6818-01A-11D-1882-08	1129076	140995251	14275309	172	91294											
MAGEC2	51438	broad.mit.edu	37	chrX	141290853	141290853	+	Silent	SNP	T	C	C	0	1	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	actttcttcttgatgctttcTgaatgggctctcggacccca	6	15	8	12	1	4	2	0	2	4	0	5	3	4	3	2	2	1	2	2	2	1	4			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:141290853T>C	uc004fbu.1	-	3	1269	c.921A>G	c.(919-921)TCA>TCG	p.S307S		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	307	MAGE.					cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGATGCTTTCTGAATGGGCTC	0.463										HNSCC(46;0.14)			22	58					0	0	0.001882	0	0		C	141290853	C	C	141290853	2	2	177	1	0	0	0	0	0	0	0	1	9199	1567	55	3		3	MAGEC2	23	141290853	Silent	SNP	T	TCGA-D7-6818-01A-11D-1882-08	295602	141290853	13979707	173	91295											
MAGEA11	4110	broad.mit.edu	37	chrX	148797474	148797474	+	Missense_Mutation	SNP	A	G	G	1	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	ctgctgacctaaccagagtcAtcatgcctcttgagcaaaga	12	9	8	12	0	3	4	2	2	1	2	3	4	3	4	3	0	4	2	3	0	2	2			TCGA-D7-6818-01A-11D-1882-08	TCGA-D7-6818-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	03c9ac9e-ffb4-4fbc-bdf1-e4aee1ebf4e4	e43a8401-dcc9-4189-ba15-228d8e9d0875	g.chrX:148797474A>G	uc004fdq.2	+	5	430	c.328A>G	c.(328-330)ATC>GTC	p.I110V	HSFX2_uc004fdl.2_Intron|HSFX1_uc004fdm.2_Intron|MAGEA11_uc004fdr.2_Missense_Mutation_p.I81V	NM_005366	NP_005357	P43364	MAGAB_HUMAN	melanoma antigen family A, 11 isoform a	110						cytoplasm|nucleus	protein binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)|Colorectal(9;0.0662)					AACCAGAGTCATCATGCCTCT	0.577													75	46					0	0	0.00361	0	0		G	148797474	G	G	148797474	3	3	177	1	0	0	0	0	1	0	0	0	9183	217	8	3	355	3	MAGEA11	23	148797474	Missense_Mutation	SNP	A	TCGA-D7-6818-01A-11D-1882-08	7506621	148797474	6473086	174	91296											
AMY2B	280	broad.mit.edu	37	chr1	104118115	104118115	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcatccttatggttttacaCgagtaatgtcaagctaccgt	10	14	7	10	2	2	0	2	0	0	0	3	1	3	0	2	1	3	3	2	1	5	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:104118115C>T	uc001duq.2	+	9	1670	c.1054C>T	c.(1054-1056)CGA>TGA	p.R352*	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Nonsense_Mutation_p.R352*|AMY2B_uc001dus.1_RNA	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	352		Chloride (By similarity).			carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TGGTTTTACACGAGTAATGTC	0.338													19	426					0	0	0.008871	0	0		T	104118115	T	T	104118115	4	4	178	1	0	0	0	0	0	1	0	0	595	528	19	1	1080	1	AMY2B	1	104118115	Nonsense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08		104118115	145132506	1	91297											
ATP1A1	476	broad.mit.edu	37	chr1	116941382	116941382	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gattcttctggatgacaactTtgcctcaattgtgactggag	9	14	10	8	0	3	2	1	2	2	0	3	5	3	4	1	2	2	0	1	2	2	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:116941382T>G	uc001ege.2	+	16	2603	c.2264T>G	c.(2263-2265)TTT>TGT	p.F755C	ATP1A1_uc010owv.1_Missense_Mutation_p.F724C|ATP1A1_uc010oww.1_Missense_Mutation_p.F755C|ATP1A1_uc010owx.1_Missense_Mutation_p.F724C|C1orf203_uc009whb.2_Intron|ATP1A1_uc001egh.2_5'Flank	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	755	Cytoplasmic (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	GATGACAACTTTGCCTCAATT	0.443													67	90					0	0	0.01441	0	0		G	116941382	G	G	116941382	3	3	178	1	0	0	0	0	1	0	0	0	1129	1841	64	5	2342	5	ATP1A1	1	116941382	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	12823267	116941382	132309239	2	91298											
HRNR	388697	broad.mit.edu	37	chr1	152188153	152188153	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctaagccagaagagtgaccGgagccagactcatatgggcc	12	5	12	12	1	1	4	1	1	0	3	1	5	1	5	5	2	2	0	5	2	3	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:152188153G>A	uc001ezt.1	-	3	6028	c.5952C>T	c.(5950-5952)TCC>TCT	p.S1984S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1984	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAGAGTGACCGGAGCCAGACT	0.592													35	543					0	0	0.013726	0	0		A	152188153	A	A	152188153	2	1	178	1	0	0	0	0	0	0	0	1	7375	1103	39	1		1	HRNR	1	152188153	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	35246771	152188153	97062468	3	91299											
HRNR	388697	broad.mit.edu	37	chr1	152190998	152190998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagactcatatgggccacggCttgaagaccaccctgagcca	11	6	10	14	1	1	4	1	2	0	2	1	4	1	4	4	2	1	1	4	2	2	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:152190998C>T	uc001ezt.1	-	3	3183	c.3107G>A	c.(3106-3108)AGC>AAC	p.S1036N		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1036	12.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGGCCACGGCTTGAAGACCA	0.592													16	473					0	0	0.004007	0	0		T	152190998	T	T	152190998	3	4	178	1	0	0	0	0	1	0	0	0	7375	797	28	2	5449	2	HRNR	1	152190998	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	2845	152190998	97059623	4	91300											
FLG	2312	broad.mit.edu	37	chr1	152285533	152285533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttcctacttgtcctgggcCccgatgattgtccctggccc	3	12	11	15	1	0	1	0	1	0	0	3	2	3	1	6	3	1	1	6	3	1	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:152285533C>T	uc001ezu.1	-	3	1865	c.1829G>A	c.(1828-1830)GGG>GAG	p.G610E	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	610	Filaggrin 3.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTCCTGGGCCCCGATGATTG	0.572									Ichthyosis				185	356					0	0	0.01441	0	0		T	152285533	T	T	152285533	3	4	178	1	0	0	0	0	1	0	0	0	5936	623	22	4	10360	4	FLG	1	152285533	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	94535	152285533	96965088	5	91301											
LCE2D	353141	broad.mit.edu	37	chr1	152636662	152636662	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	accccaaaatgtccacctaaGtgtccccccaaatgcccacc	12	6	4	19	0	0	0	0	0	0	0	2	0	2	0	9	0	1	0	9	0	4	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:152636662G>C	uc001fag.2	+	2	136	c.81G>C	c.(79-81)AAG>AAC	p.K27N		NM_178430	NP_848517	Q5TA82	LCE2D_HUMAN	late cornified envelope 2D	27	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTCCACCTAAGTGTCCCCCCA	0.582													59	130					0	0	0.01441	0	0		C	152636662	C	C	152636662	3	2	178	1	0	0	0	0	1	0	0	0	8684	1020	36	5	83	5	LCE2D	1	152636662	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	351129	152636662	96613959	6	91302											
NHLH1	4807	broad.mit.edu	37	chr1	160340766	160340766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtaccgcacggcccacgccaCgcgagaacgcatccgcgtgg	8	3	13	17	8	0	1	0	0	0	1	1	2	1	1	4	2	2	3	4	2	2	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:160340766C>T	uc001fwa.2	+	2	687	c.245C>T	c.(244-246)ACG>ATG	p.T82M		NM_005598	NP_005589	Q02575	HEN1_HUMAN	nescient helix loop helix 1	82	Basic motif.				cell differentiation|central nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	all_cancers(52;7.11e-19)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCCCACGCCACGCGAGAACGC	0.582													21	38					0	0	0.010504	0	0		T	160340766	T	T	160340766	3	4	178	1	0	0	0	0	1	0	0	0	10422	536	19	1	247	1	NHLH1	1	160340766	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	7704104	160340766	88909855	7	91303											
PAPPA2	60676	broad.mit.edu	37	chr1	176709162	176709162	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatccactgattatcaatgtGacccatcaccagaatgtcct	13	11	5	12	0	2	3	2	2	0	1	4	3	4	3	4	0	0	0	4	0	4	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:176709162G>C	uc001gkz.2	+	14	5145	c.3981G>C	c.(3979-3981)GTG>GTC	p.V1327V	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1327					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						TTATCAATGTGACCCATCACC	0.458													35	193					0	0	0.006999	0	0		C	176709162	C	C	176709162	2	2	178	1	0	0	0	0	0	0	0	1	11452	1277	45	5		5	PAPPA2	1	176709162	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	16368396	176709162	72541459	8	91304											
F13B	2165	broad.mit.edu	37	chr1	197021789	197021789	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagtacataaaggatatttCacttctcctctgttgcactg	10	15	6	10	0	3	0	1	0	2	0	4	1	3	1	1	1	2	3	1	1	5	7			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:197021789C>A	uc001gtt.1	-	9	1574	c.1530G>T	c.(1528-1530)GTG>GTT	p.V510V		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	510	Sushi 8.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						AAGGATATTTCACTTCTCCTC	0.323													14	37					2.31682e-05	3.04497e-05	0.003163	1	0		A	197021789	A	A	197021789	2	1	178	1	0	0	0	0	0	0	0	1	5349	813	29	5		5	F13B	1	197021789	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08	20312627	197021789	52228832	9	91305											
ADORA1	134	broad.mit.edu	37	chr1	203134527	203134527	+	Silent	SNP	C	T	T	0	0	0	1	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	cgggcctgggcagccaacggCagcatgggggagcccgtgat	7	4	18	12	3	0	1	0	1	0	0	0	2	0	2	3	5	4	3	3	5	1	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:203134527C>T	uc001gze.1	+	4	913	c.480C>T	c.(478-480)GGC>GGT	p.G160G	FMOD_uc010pqi.1_Intron|ADORA1_uc001gzf.1_Silent_p.G160G|ADORA1_uc010pqg.1_Silent_p.G92G|ADORA1_uc009xak.1_Nonsense_Mutation_p.Q86*|ADORA1_uc010pqh.1_Silent_p.G193G	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	160	Extracellular (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CAGCCAACGGCAGCATGGGGG	0.592													10	66					0	0	0.008291	0	0		T	203134527	T	T	203134527	2	4	178	1	0	0	0	0	0	0	0	1	326	697	25	2		2	ADORA1	1	203134527	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08	6112738	203134527	46116094	10	91306											
SIPA1L2	57568	broad.mit.edu	37	chr1	232600638	232600638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagcacagttgtctaccgagGacaggaggacacattctcct	11	8	10	12	1	2	0	0	0	2	0	3	4	2	3	2	3	2	2	2	3	1	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr1:232600638G>A	uc001hvg.2	-	7	2926	c.2768C>T	c.(2767-2769)TCC>TTC	p.S923F	SIPA1L2_uc001hvf.2_5'Flank	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	923					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GTCTACCGAGGACAGGAGGAC	0.413													4	81					0	0	0.009096	0	0		A	232600638	A	A	232600638	3	1	178	1	0	0	0	0	1	0	0	0	14355	1174	41	4	2460	4	SIPA1L2	1	232600638	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	29466111	232600638	16649983	11	91307											
DTNB	1838	broad.mit.edu	37	chr2	25656795	25656795	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacctgtttttgttttccaGttctgcaataagctgtcttt	6	21	6	8	0	2	0	0	0	2	0	3	0	3	0	2	0	3	5	2	0	3	8			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:25656795G>C	uc002rgh.2	-	13	1577	c.1327C>G	c.(1327-1329)CTG>GTG	p.L443V	DTNB_uc002rgg.2_Missense_Mutation_p.L72V|DTNB_uc010yko.1_Missense_Mutation_p.L386V|DTNB_uc010ykp.1_Missense_Mutation_p.L239V|DTNB_uc002rgo.2_Missense_Mutation_p.L234V|DTNB_uc002rgi.2_Missense_Mutation_p.L443V|DTNB_uc002rgj.2_Missense_Mutation_p.L443V|DTNB_uc002rgk.2_Missense_Mutation_p.L413V|DTNB_uc002rgl.2_Missense_Mutation_p.L413V|DTNB_uc002rgq.2_Missense_Mutation_p.L443V|DTNB_uc002rgm.2_Missense_Mutation_p.L413V|DTNB_uc002rgn.2_Missense_Mutation_p.L239V|DTNB_uc002rgr.1_Missense_Mutation_p.L432V|DTNB_uc010ykq.1_Missense_Mutation_p.L296V	NM_021907	NP_068707	O60941	DTNB_HUMAN	dystrobrevin, beta isoform 1	443	Potential.|Syntrophin-binding region.					cytoplasm	calcium ion binding|zinc ion binding			large_intestine(2)|ovary(2)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTGTTTTCCAGTTCTGCAATA	0.438													19	170					0	0	0.012319	0	0		C	25656795	C	C	25656795	3	2	178	1	0	0	0	0	1	0	0	0	4795	1020	36	5	588	5	DTNB	2	25656795	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08		25656795	217542578	12	91308											
ASXL2	55252	broad.mit.edu	37	chr2	25966067	25966067	+	Missense_Mutation	SNP	A	C	C	1	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	ttggtgtgtgtcaatgctggAgtccctcagctccttagctg	5	14	12	10	0	2	0	2	0	0	0	4	1	4	1	2	2	3	3	2	2	2	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:25966067A>C	uc002rgs.2	-	12	3360	c.3139T>G	c.(3139-3141)TCC>GCC	p.S1047A	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1047					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCAATGCTGGAGTCCCTCAGC	0.517													14	47					0	0	0.004007	0	0		C	25966067	C	C	25966067	3	2	178	1	0	0	0	0	1	0	0	0	1068	304	11	5	1172	5	ASXL2	2	25966067	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	309272	25966067	217233306	13	91309											
ZNF512	84450	broad.mit.edu	37	chr2	27838091	27838091	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caggaagtactacataaatgGaagacagatatcaagaaata	21	7	8	5	0	1	3	1	0	0	3	1	5	1	5	0	2	2	1	0	2	10	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:27838091G>A	uc002rla.2	+	11	1275	c.1188G>A	c.(1186-1188)TGG>TGA	p.W396*	ZNF512_uc010ylv.1_Nonsense_Mutation_p.W317*|ZNF512_uc010ylw.1_Nonsense_Mutation_p.W367*|ZNF512_uc002rlb.2_Nonsense_Mutation_p.W317*|ZNF512_uc010ylx.1_Nonsense_Mutation_p.W317*|ZNF512_uc002rlc.2_Nonsense_Mutation_p.W317*|ZNF512_uc010yly.1_RNA|ZNF512_uc010ylz.1_Nonsense_Mutation_p.W289*	NM_032434	NP_115810	Q96ME7	ZN512_HUMAN	zinc finger protein 512	396					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TACATAAATGGAAGACAGATA	0.318													44	149					0	0	0.01441	0	0		A	27838091	A	A	27838091	4	1	178	1	0	0	0	0	0	1	0	0	17981	1183	41	4	1230	4	ZNF512	2	27838091	Nonsense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	1872024	27838091	215361282	14	91310											
CEBPZ	10153	broad.mit.edu	37	chr2	37455880	37455880	+	Silent	SNP	A	G	G	1	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	actttcggtgtggtactgccAttctcatcagaatgtggttc	7	15	10	9	1	2	1	2	0	1	1	5	1	2	1	1	3	2	2	1	3	2	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:37455880A>G	uc002rpz.2	-	2	486	c.456T>C	c.(454-456)AAT>AAC	p.N152N	C2orf56_uc010ynj.1_5'Flank|C2orf56_uc002rqa.3_5'Flank|C2orf56_uc002rqc.3_5'Flank|C2orf56_uc010ynk.1_5'Flank|C2orf56_uc010ynl.1_5'Flank	NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	152					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				TGGTACTGCCATTCTCATCAG	0.338													58	113					0	0	0.01441	0	0		G	37455880	G	G	37455880	2	3	178	1	0	0	0	0	0	0	0	1	3207	214	8	3		3	CEBPZ	2	37455880	Silent	SNP	A	TCGA-D7-6820-01A-11D-1882-08	9617789	37455880	205743493	15	91311											
IMMT	10989	broad.mit.edu	37	chr2	86378626	86378626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatgagggagttcagatcatCagtagagagcttgtcagcta	13	10	12	6	0	4	3	4	1	0	2	4	5	4	4	0	1	2	4	0	1	3	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:86378626C>T	uc002sqz.3	-	12	1583	c.1195G>A	c.(1195-1197)GAT>AAT	p.D399N	IMMT_uc002sqy.3_Missense_Mutation_p.D140N|IMMT_uc002srb.3_Missense_Mutation_p.D388N|IMMT_uc002sra.3_Missense_Mutation_p.D398N|IMMT_uc010ytd.1_Missense_Mutation_p.D387N|IMMT_uc010yte.1_Missense_Mutation_p.D352N|IMMT_uc002src.1_Missense_Mutation_p.D135N	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	399	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						TTCAGATCATCAGTAGAGAGC	0.408													8	77					0	0	0.00308	0	0		T	86378626	T	T	86378626	3	4	178	1	0	0	0	0	1	0	0	0	7734	826	29	4	1097	4	IMMT	2	86378626	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	48922746	86378626	156820747	16	91312											
CCDC74A	90557	broad.mit.edu	37	chr2	132285734	132285734	+	Missense_Mutation	SNP	A	C	C	1	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	gcagttcctgcagcagcagcActcggagatgctggccaagc	9	6	13	13	1	0	1	0	0	0	1	2	2	1	1	2	2	6	7	2	2	1	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:132285734A>C	uc002tta.2	+	1	243	c.191A>C	c.(190-192)CAC>CCC	p.H64P	CCDC74A_uc010fnb.1_Missense_Mutation_p.H64P|CCDC74A_uc002ttb.2_Missense_Mutation_p.H64P	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	64	Potential.									skin(1)	1						CAGCAGCAGCACTCGGAGATG	0.652													22	38					0	0	0.008361	0	0		C	132285734	C	C	132285734	3	2	178	1	0	0	0	0	1	0	0	0	2850	159	6	5	193	5	CCDC74A	2	132285734	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	45907108	132285734	110913639	17	91313											
ZAK	51776	broad.mit.edu	37	chr2	174047608	174047608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttctctgggatcactctatGattacattaacagtaacaga	13	13	6	9	0	3	2	1	1	2	1	4	3	3	3	0	1	3	1	0	1	4	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:174047608G>A	uc002uhz.2	+	4	474	c.274G>A	c.(274-276)GAT>AAT	p.D92N	ZAK_uc002uhx.2_Missense_Mutation_p.D92N|ZAK_uc002uhy.2_Missense_Mutation_p.D92N|ZAK_uc010zei.1_5'UTR|ZAK_uc002uia.1_Missense_Mutation_p.D92N	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	92	Protein kinase.				activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			ATCACTCTATGATTACATTAA	0.299													22	44					0	0	0.00632	0	0		A	174047608	A	A	174047608	3	1	178	1	0	0	0	0	1	0	0	0	17538	1290	45	4	284	4	ZAK	2	174047608	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	41761874	174047608	69151765	18	91314											
TFPI	7035	broad.mit.edu	37	chr2	188348868	188348868	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccaaaaaggctgggaaccTtggttgattgcggagtcagg	11	9	14	7	1	1	1	1	1	0	0	1	3	1	3	2	5	3	2	2	5	4	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:188348868T>A	uc002upx.2	-	6	644	c.611A>T	c.(610-612)AAG>ATG	p.K204M	TFPI_uc002upy.2_Missense_Mutation_p.K204M|TFPI_uc002upz.2_Missense_Mutation_p.K200M|TFPI_uc002uqa.2_Missense_Mutation_p.K204M|TFPI_uc002uqb.2_Missense_Mutation_p.K204M	NM_006287	NP_006278	P10646	TFPI1_HUMAN	tissue factor pathway inhibitor isoform a	204					blood coagulation, extrinsic pathway	extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0554)		Coagulation factor VIIa(DB00036)	GCTGGGAACCTTGGTTGATTG	0.388													17	120					0	0	0.014323	0	0		A	188348868	A	A	188348868	3	1	178	1	0	0	0	0	1	0	0	0	15833	1609	56	5	447	5	TFPI	2	188348868	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	14301260	188348868	54850505	19	91315											
DNAH7	56171	broad.mit.edu	37	chr2	196729058	196729058	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggttttatcccgctggcgatCtaactgacgcatcttatcac	8	13	8	12	3	3	1	1	1	2	0	4	2	4	1	1	2	1	3	1	2	3	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:196729058C>G	uc002utj.3	-	41	7422	c.7321G>C	c.(7321-7323)GAT>CAT	p.D2441H		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2441	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CGCTGGCGATCTAACTGACGC	0.443													6	109					0	0	0.001168	0	0		G	196729058	G	G	196729058	3	3	178	1	0	0	0	0	1	0	0	0	4612	913	32	5	4853	5	DNAH7	2	196729058	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	8380190	196729058	46470315	20	91316											
ERBB4	2066	broad.mit.edu	37	chr2	212288966	212288966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaataaatcagggatttctCgcgttggaattccatcatag	12	13	8	8	2	3	0	2	0	1	0	5	2	4	2	1	2	0	1	1	2	5	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:212288966C>T	uc002veg.1	-	23	2878	c.2780G>A	c.(2779-2781)CGA>CAA	p.R927Q	ERBB4_uc002veh.1_Missense_Mutation_p.R927Q|ERBB4_uc010zji.1_Missense_Mutation_p.R917Q|ERBB4_uc010zjj.1_Missense_Mutation_p.R917Q	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	927	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		AGGGATTTCTCGCGTTGGAAT	0.383										TSP Lung(8;0.080)			19	31					0	0	0.008871	0	0		T	212288966	T	T	212288966	3	4	178	1	0	0	0	0	1	0	0	0	5217	884	31	1	1170	1	ERBB4	2	212288966	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	15559908	212288966	30910407	21	91317											
COL6A3	1293	broad.mit.edu	37	chr2	238280910	238280910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctctatgagggtgcgaacGtactggaactcaggcccggc	8	8	13	12	3	2	1	1	1	1	0	3	3	2	2	1	4	4	1	1	4	4	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr2:238280910G>A	uc002vwl.2	-	9	4035	c.3750C>T	c.(3748-3750)TAC>TAT	p.Y1250Y	COL6A3_uc002vwo.2_Silent_p.Y1044Y|COL6A3_uc010znj.1_Silent_p.Y643Y|COL6A3_uc002vwq.2_Silent_p.Y1044Y|COL6A3_uc002vwr.2_Silent_p.Y843Y	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1250	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GGGTGCGAACGTACTGGAACT	0.572													22	39					0	0	0.012319	0	0		A	238280910	A	A	238280910	2	1	178	1	0	0	0	0	0	0	0	1	3704	1140	40	1		1	COL6A3	2	238280910	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	25991944	238280910	4918463	22	91318											
SRGAP3	9901	broad.mit.edu	37	chr3	9100112	9100112	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tattcagctgagagataggtCcggaaggtgcgggccaggct	9	8	16	8	2	1	2	1	1	0	1	2	4	2	3	2	5	2	2	2	5	3	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:9100112C>T	uc003brf.1	-	7	1522	c.846G>A	c.(844-846)CGG>CGA	p.R282R	SRGAP3_uc003brg.1_Silent_p.R282R|SRGAP3_uc003bri.1_RNA|SRGAP3_uc003brj.1_Silent_p.R142R	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	282					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		AGAGATAGGTCCGGAAGGTGC	0.572			T	RAF1	pilocytic astrocytoma								12	140					0	0	0.010729	0	0		T	9100112	T	T	9100112	2	4	178	1	0	0	0	0	0	0	0	1	15172	842	30	4		4	SRGAP3	3	9100112	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08		9100112	188922318	23	91319											
THRB	7068	broad.mit.edu	37	chr3	24164613	24164613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacacaggcaagccccgggCgatctgcggggaagagagaa	13	2	15	11	3	1	2	0	0	1	2	1	5	1	3	2	4	3	1	2	4	4	0	rs121918708		TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:24164613C>T	uc003ccx.3	-	11	1497	c.1148G>A	c.(1147-1149)CGC>CAC	p.R383H	THRB_uc010hfe.2_Missense_Mutation_p.R383H|THRB_uc003ccy.3_Missense_Mutation_p.R383H|THRB_uc003ccz.3_Missense_Mutation_p.R378H	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	383	Ligand-binding.|Interaction with NR2F6.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	AAGCCCCGGGCGATCTGCGGG	0.498													7	146					0	0	0.001984	0	0		T	24164613	T	T	24164613	3	4	178	1	0	0	0	0	1	0	0	0	15900	768	27	1	241	1	THRB	3	24164613	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	15064501	24164613	173857817	24	91320											
SUSD5	26032	broad.mit.edu	37	chr3	33195166	33195166	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accactgtggttgtctccagCagaaaactgctttttggtgt	8	14	10	9	0	1	1	0	0	1	1	2	1	1	1	2	2	3	3	2	2	2	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:33195166C>A	uc003cfo.1	-	5	1376	c.958G>T	c.(958-960)GCT>TCT	p.A320S		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	320	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						TTGTCTCCAGCAGAAAACTGC	0.517													10	66					2.17888e-05	2.88427e-05	0.006214	1	0		A	33195166	A	A	33195166	3	1	178	1	0	0	0	0	1	0	0	0	15436	710	25	5	935	5	SUSD5	3	33195166	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	9030553	33195166	164827264	25	91321											
KLHL18	23276	broad.mit.edu	37	chr3	47364083	47364083	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tggaggctctgatcaactttGcctacaacggcaaccttgcc	9	10	9	13	1	2	1	1	1	1	0	2	2	2	2	3	3	6	2	3	3	4	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:47364083G>T	uc003crd.2	+	3	412	c.286G>T	c.(286-288)GCC>TCC	p.A96S	KLHL18_uc003crc.2_Missense_Mutation_p.A96S|KLHL18_uc011bav.1_5'UTR	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	96	BTB.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		GATCAACTTTGCCTACAACGG	0.557													16	70					3.45872e-05	4.5135e-05	0.004007	1	0		T	47364083	T	T	47364083	3	4	178	1	0	0	0	0	1	0	0	0	8389	1319	46	5	296	5	KLHL18	3	47364083	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	14168917	47364083	150658347	26	91322											
CADPS	8618	broad.mit.edu	37	chr3	62459960	62459960	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaaaatctgttgatcgactgGttttttgcagcttaacttca	10	16	8	7	1	2	1	1	1	1	0	3	3	2	1	0	1	3	4	0	1	3	6	rs151301388		TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:62459960G>T	uc003dll.2	-	24	3725	c.3365C>A	c.(3364-3366)ACC>AAC	p.T1122N	CADPS_uc003dlj.1_Missense_Mutation_p.T72N|CADPS_uc003dlk.1_Missense_Mutation_p.T570N|CADPS_uc003dlm.2_Missense_Mutation_p.T1083N|CADPS_uc003dln.2_Missense_Mutation_p.T1043N	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	1122	Interaction with DRD2.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		TGATCGACTGGTTTTTTGCAG	0.393													36	119					3.61848e-18	5.00602e-18	0.007835	1	0		T	62459960	T	T	62459960	3	4	178	1	0	0	0	0	1	0	0	0	2573	1261	44	5	724	5	CADPS	3	62459960	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	15095877	62459960	135562470	27	91323											
ROBO1	6091	broad.mit.edu	37	chr3	78656095	78656095	+	Missense_Mutation	SNP	A	G	G	1	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	ttcttgcatccatagaagggAgttttggcaccactacaggt	10	12	10	9	0	1	1	0	0	1	1	2	2	2	2	2	3	2	3	2	3	3	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:78656095A>G	uc003dqe.2	-	29	4740	c.4532T>C	c.(4531-4533)CTC>CCC	p.L1511P	ROBO1_uc003dqb.2_Missense_Mutation_p.L1472P|ROBO1_uc003dqc.2_Missense_Mutation_p.L1411P|ROBO1_uc003dqd.2_Missense_Mutation_p.L1466P|ROBO1_uc010hoh.2_Missense_Mutation_p.L703P|ROBO1_uc011bgl.1_Missense_Mutation_p.L1083P	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1511	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		CATAGAAGGGAGTTTTGGCAC	0.488													10	279					0	0	0.008291	0	0		G	78656095	G	G	78656095	3	3	178	1	0	0	0	0	1	0	0	0	13538	304	11	3	435	3	ROBO1	3	78656095	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	16196135	78656095	119366335	28	91324											
EPHA3	2042	broad.mit.edu	37	chr3	89390956	89390956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taatataaacgagacctcagTtatcctggactggagttggc	12	11	10	8	1	1	1	1	0	0	1	2	4	2	3	2	3	1	2	2	3	5	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:89390956T>C	uc003dqy.2	+	5	1247	c.1022T>C	c.(1021-1023)GTT>GCT	p.V341A	EPHA3_uc003dqx.1_Missense_Mutation_p.V341A|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	341	Extracellular (Potential).|Fibronectin type-III 1.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		GAGACCTCAGTTATCCTGGAC	0.413										TSP Lung(6;0.00050)			5	84					0	0	0.001168	0	0		C	89390956	C	C	89390956	3	2	178	1	0	0	0	0	1	0	0	0	5176	1725	60	3	1040	3	EPHA3	3	89390956	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	10734861	89390956	108631474	29	91325											
FILIP1L	11259	broad.mit.edu	37	chr3	99569912	99569912	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgatcaattagcttctttAatctgaaaaatgtaaagtgc	14	15	6	6	0	3	2	1	2	2	0	3	2	3	2	0	0	2	2	0	0	7	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:99569912A>T	uc003dtm.2	-	5	1071	c.608T>A	c.(607-609)TTA>TAA	p.L203*	C3orf26_uc003dtk.1_Intron|C3orf26_uc003dtl.2_Intron|FILIP1L_uc003dto.2_Nonsense_Mutation_p.L203*|FILIP1L_uc010hpf.2_5'UTR|FILIP1L_uc010hpg.2_5'UTR|FILIP1L_uc003dtn.2_5'UTR|FILIP1L_uc003dtp.1_5'UTR	NM_182909	NP_878913	Q4L180	FIL1L_HUMAN	filamin A interacting protein 1-like isoform 1	203	Potential.					cytoplasm|membrane|myosin complex|nucleus				ovary(1)	1						TAGCTTCTTTAATCTGAAAAA	0.328													22	195					0	0	0.00278	0	0		T	99569912	T	T	99569912	4	4	178	1	0	0	0	0	0	1	0	0	5909	372	13	5	2828	5	FILIP1L	3	99569912	Nonsense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	10178956	99569912	98452518	30	91326											
SLC7A14	57709	broad.mit.edu	37	chr3	170244454	170244454	+	Missense_Mutation	SNP	A	T	T	1	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	atgcgacggctgcaatgatgAaggacacaatgacaccaggt	14	6	12	9	2	0	3	0	3	0	0	0	5	0	4	1	3	2	2	1	3	3	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:170244454A>T	uc003fgz.2	-	2	588	c.272T>A	c.(271-273)TTC>TAC	p.F91Y	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	91	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			TGCAATGATGAAGGACACAAT	0.532													61	54					0	0	0.01441	0	0		T	170244454	T	T	170244454	3	4	178	1	0	0	0	0	1	0	0	0	14721	246	9	5	2071	5	SLC7A14	3	170244454	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	70674542	170244454	27777976	31	91327											
ATP11B	23200	broad.mit.edu	37	chr3	182587059	182587059	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggagctgagtcatcaattctCcctaaatgtataggtggaga	12	11	11	7	0	3	2	2	1	1	1	4	4	3	3	1	3	1	2	1	3	5	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr3:182587059C>G	uc003flb.2	+	17	2063	c.1806C>G	c.(1804-1806)CTC>CTG	p.L602L	ATP11B_uc003flc.2_Silent_p.L186L	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	602	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	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)			CATCAATTCTCCCTAAATGTA	0.284													6	26					0	0	0.00308	0	0		G	182587059	G	G	182587059	2	3	178	1	0	0	0	0	0	0	0	1	1121	842	30	5		5	ATP11B	3	182587059	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08	12342605	182587059	15435371	32	91328											
WDFY3	23001	broad.mit.edu	37	chr4	85674913	85674913	+	Silent	SNP	A	G	G	1	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	gctaatgcacacaggaagtcAgggctcatccacatggaggc	12	6	12	11	0	2	0	2	0	0	0	3	2	3	2	1	4	1	3	1	4	2	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr4:85674913A>G	uc003hpd.2	-	35	6084	c.5676T>C	c.(5674-5676)CCT>CCC	p.P1892P		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1892						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ACAGGAAGTCAGGGCTCATCC	0.488													4	76					0	0	0.000602	0	0		G	85674913	G	G	85674913	2	3	178	1	0	0	0	0	0	0	0	1	17296	175	7	3		3	WDFY3	4	85674913	Silent	SNP	A	TCGA-D7-6820-01A-11D-1882-08		85674913	105479363	33	91329											
KIAA1430	57587	broad.mit.edu	37	chr4	186097014	186097014	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atataactttgggggatgatCagccgatctaggaattgtac	12	12	11	6	1	2	1	1	1	1	0	2	4	2	3	1	3	3	1	1	3	5	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr4:186097014C>T	uc003ixf.3	-	3	1393	c.1246G>A	c.(1246-1248)GAT>AAT	p.D416N	KIAA1430_uc003ixg.2_Missense_Mutation_p.D416N	NM_020827	NP_065878	Q9P2B7	K1430_HUMAN	hypothetical protein LOC57587	416	Potential.										0		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;9.44e-26)|Epithelial(43;2.64e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.66e-11)|Colorectal(24;6.03e-05)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000331)|COAD - Colon adenocarcinoma(29;0.000427)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00924)|READ - Rectum adenocarcinoma(43;0.165)		GGGGGATGATCAGCCGATCTA	0.423													60	39					0	0	0.01441	0	0		T	186097014	T	T	186097014	3	4	178	1	0	0	0	0	1	0	0	0	8248	826	29	4	364	4	KIAA1430	4	186097014	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	100422101	186097014	5057262	34	91330											
KIF2A	3796	broad.mit.edu	37	chr5	61659532	61659532	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacattgtagaacatccggtCaaacatctgcaaatgcacat	15	9	6	11	1	2	1	1	0	1	1	3	1	3	1	1	1	4	3	1	1	4	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr5:61659532C>G	uc003jsy.3	+	14	1584	c.1273C>G	c.(1273-1275)CAA>GAA	p.Q425E	KIF2A_uc003jsz.3_Missense_Mutation_p.Q425E|KIF2A_uc010iwp.2_Missense_Mutation_p.Q406E|KIF2A_uc003jsx.3_Missense_Mutation_p.Q405E|KIF2A_uc010iwq.2_Missense_Mutation_p.Q228E	NM_004520	NP_004511	O00139	KIF2A_HUMAN	kinesin heavy chain member 2 isoform 1	425	Kinesin-motor.				blood coagulation|cell differentiation|cell division|microtubule-based movement|mitotic prometaphase|mitotic spindle organization|nervous system development	centrosome|cytosol|microtubule|spindle pole	ATP binding|microtubule motor activity|protein binding				0		Lung NSC(810;8.94e-06)|Prostate(74;0.0132)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.14)		AACATCCGGTCAAACATCTGC	0.333													42	51					0	0	0.013114	0	0		G	61659532	G	G	61659532	3	3	178	1	0	0	0	0	1	0	0	0	8313	827	29	5	1327	5	KIF2A	5	61659532	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08		61659532	119255728	35	91331											
PCDHA11	56138	broad.mit.edu	37	chr5	140250587	140250587	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcgagataagcacaacGcgtgccctggacgaggcaga	12	3	15	11	5	0	2	0	0	0	2	0	5	0	3	1	3	3	2	1	3	2	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr5:140250587G>A	uc003lia.2	+	1	2757	c.1899G>A	c.(1897-1899)ACG>ACA	p.T633T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.T633T	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	633	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TAAGCACAACGCGTGCCCTGG	0.662													13	92					0	0	0.001855	0	0		A	140250587	A	A	140250587	2	1	178	1	0	0	0	0	0	0	0	1	11540	1074	38	1		1	PCDHA11	5	140250587	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	78591055	140250587	40664673	36	91332											
PCDHB14	56122	broad.mit.edu	37	chr5	140603470	140603470	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacataaatgatcactccccTacatttctagacaaggaaat	16	10	5	10	0	2	2	1	1	1	1	3	4	3	3	2	1	1	0	2	1	6	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr5:140603470T>G	uc003ljb.2	+	1	393	c.393T>G	c.(391-393)CCT>CCG	p.P131P	PCDHB14_uc011dal.1_Intron	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	131	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCACTCCCCTACATTTCTAG	0.418													3	129					0	0	0.000602	0	0		G	140603470	G	G	140603470	2	3	178	1	0	0	0	0	0	0	0	1	11558	1509	53	5		5	PCDHB14	5	140603470	Silent	SNP	T	TCGA-D7-6820-01A-11D-1882-08	352883	140603470	40311790	37	91333											
WWC1	23286	broad.mit.edu	37	chr5	167858361	167858361	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgttcaatgaggtgttctGggtatccatgtcctatccag	8	14	11	8	0	2	1	1	1	1	0	5	1	5	1	3	2	0	3	3	2	3	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr5:167858361G>A	uc003lzu.2	+	15	2285	c.2192G>A	c.(2191-2193)TGG>TAG	p.W731*	WWC1_uc003lzv.2_Nonsense_Mutation_p.W731*|WWC1_uc011den.1_Nonsense_Mutation_p.W731*|WWC1_uc003lzw.2_Nonsense_Mutation_p.W530*|WWC1_uc010jjf.1_5'UTR	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	731	C2.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		GAGGTGTTCTGGGTATCCATG	0.562													46	60					0	0	0.01441	0	0		A	167858361	A	A	167858361	4	1	178	1	0	0	0	0	0	1	0	0	17437	1357	47	4	2250	4	WWC1	5	167858361	Nonsense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	27254891	167858361	13056899	38	91334											
CAGE1	285782	broad.mit.edu	37	chr6	7373546	7373546	+	Missense_Mutation	SNP	T	G	G	0	1	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	agtctagatttcagtttctgTctttcttccaggttttcctt	5	21	6	9	0	5	1	1	0	4	1	7	1	7	1	2	1	0	2	2	1	1	8			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr6:7373546T>G	uc003mxi.2	-	4	1819	c.1098A>C	c.(1096-1098)AGA>AGC	p.R366S	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Missense_Mutation_p.R257S|CAGE1_uc003mxk.1_Missense_Mutation_p.R257S	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	502	Potential.										0	Ovarian(93;0.0418)					TCAGTTTCTGTCTTTCTTCCA	0.363													3	32					0	0	0.004672	0	0		G	7373546	G	G	7373546	3	3	178	1	0	0	0	0	1	0	0	0	2575	1664	58	5	1159	5	CAGE1	6	7373546	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08		7373546	163741521	39	91335											
ITPR3	3710	broad.mit.edu	37	chr6	33636823	33636823	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tactcagaagaggaagtgtgGctcacgtggactgacaagaa	14	7	13	7	1	2	4	2	1	0	3	2	6	2	6	0	3	1	1	0	3	5	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr6:33636823G>C	uc011drk.1	+	18	2298	c.2079G>C	c.(2077-2079)TGG>TGC	p.W693C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	693	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						AGGAAGTGTGGCTCACGTGGA	0.592													43	81					0	0	0.00874	0	0		C	33636823	C	C	33636823	3	2	178	1	0	0	0	0	1	0	0	0	7938	1212	42	5	2149	5	ITPR3	6	33636823	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	26263277	33636823	137478244	40	91336											
SMAP1	60682	broad.mit.edu	37	chr6	71562283	71562283	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaccaacgggaacacaacGgtgccacccctgaacgatga	13	4	11	13	3	0	3	0	3	0	0	0	5	0	4	4	2	5	0	4	2	4	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr6:71562283G>A	uc003pfr.2	+	8	953	c.705G>A	c.(703-705)ACG>ACA	p.T235T	SMAP1_uc003pfs.2_Silent_p.T208T|SMAP1_uc010kao.2_Silent_p.T208T|SMAP1_uc010kap.2_Silent_p.T225T	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	235					regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0						GGAACACAACGGTGCCACCCC	0.453													36	117					0	0	0.013726	0	0		A	71562283	A	A	71562283	2	1	178	1	0	0	0	0	0	0	0	1	14791	1103	39	1		1	SMAP1	6	71562283	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	37925460	71562283	99552784	41	91337											
MAP3K7	6885	broad.mit.edu	37	chr6	91269867	91269867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gataagccactccttgggaaCactgtaaacaccaactcatt	14	9	6	12	0	1	0	1	0	0	0	2	2	2	1	3	1	4	1	3	1	5	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr6:91269867C>T	uc003pnz.1	-	5	572	c.410G>A	c.(409-411)TGT>TAT	p.C137Y	MAP3K7_uc003poa.1_Missense_Mutation_p.C137Y|MAP3K7_uc003pob.1_Missense_Mutation_p.C137Y|MAP3K7_uc003poc.1_Missense_Mutation_p.C137Y	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	137	Protein kinase.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		TCCTTGGGAACACTGTAAACA	0.443													39	67					0	0	0.009718	0	0		T	91269867	T	T	91269867	3	4	178	1	0	0	0	0	1	0	0	0	9273	478	17	4	1462	4	MAP3K7	6	91269867	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	19707584	91269867	79845200	42	91338											
AIM1	202	broad.mit.edu	37	chr6	106991352	106991352	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcctttctttgaaggaaaatGtgtggaactagaaacaggaa	15	10	11	5	0	1	2	0	1	1	1	1	5	1	5	1	3	2	0	1	3	7	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr6:106991352G>A	uc003prh.2	+	9	4182	c.3695G>A	c.(3694-3696)TGT>TAT	p.C1232Y	AIM1_uc003pri.2_Missense_Mutation_p.C36Y	NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1232	Beta/gamma crystallin 'Greek key' 5.						sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	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)		GAAGGAAAATGTGTGGAACTA	0.393													70	132					0	0	0.01441	0	0		A	106991352	A	A	106991352	3	1	178	1	0	0	0	0	1	0	0	0	430	1377	48	4	3729	4	AIM1	6	106991352	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	15721485	106991352	64123715	43	91339											
KIF25	3834	broad.mit.edu	37	chr6	168440804	168440804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggaggtctgcagctcagggCgaagcaccccaccctggtgc	7	6	14	14	1	2	0	1	0	1	0	2	2	2	1	3	4	4	3	3	4	1	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr6:168440804C>T	uc003qwk.1	+	6	816	c.554C>T	c.(553-555)GCG>GTG	p.A185V	KIF25_uc003qwl.1_Missense_Mutation_p.A185V	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	185	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		CAGCTCAGGGCGAAGCACCCC	0.592													10	97					0	0	0.008291	0	0		T	168440804	T	T	168440804	3	4	178	1	0	0	0	0	1	0	0	0	8309	768	27	1	572	1	KIF25	6	168440804	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	61449452	168440804	2674263	44	91340											
THBS2	7058	broad.mit.edu	37	chr6	169626379	169626379	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgtagggacaattgtctcGttcattgaagacatctgtaa	12	12	10	7	2	3	2	1	1	2	1	4	4	3	3	0	1	0	3	0	1	4	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr6:169626379G>A	uc003qwt.2	-	17	2682	c.2434C>T	c.(2434-2436)CGA>TGA	p.R812*		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	812	TSP type-3 4.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CAATTGTCTCGTTCATTGAAG	0.463													20	45					0	0	0.008871	0	0		A	169626379	A	A	169626379	4	1	178	1	0	0	0	0	0	1	0	0	15879	1153	40	1	1112	1	THBS2	6	169626379	Nonsense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	1185575	169626379	1488688	45	91341											
SP8	221833	broad.mit.edu	37	chr7	20824871	20824871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggtagatgccctgcagccCgtccacagaggtgtgcacct	7	7	13	14	2	0	2	0	0	0	2	1	2	1	2	4	2	4	3	4	2	1	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr7:20824871C>T	uc003suy.2	-	3	752	c.511G>A	c.(511-513)GGG>AGG	p.G171R	SP8_uc003suz.2_Missense_Mutation_p.G189R	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	171					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						CCCTGCAGCCCGTCCACAGAG	0.587													4	22					0	0	0.000602	0	0		T	20824871	T	T	20824871	3	4	178	1	0	0	0	0	1	0	0	0	14995	652	23	1	965	1	SP8	7	20824871	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08		20824871	138313792	46	91342											
ANLN	54443	broad.mit.edu	37	chr7	36489415	36489415	+	Missense_Mutation	SNP	A	G	G	1	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	atgaccgagagactcttgtcAgccaatgcagggacacactc	12	7	10	12	1	2	2	1	1	1	1	3	5	2	3	2	1	2	1	2	1	1	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr7:36489415A>G	uc003tff.2	+	23	3424	c.3220A>G	c.(3220-3222)AGC>GGC	p.S1074G	ANLN_uc011kaz.1_Missense_Mutation_p.S986G|ANLN_uc003tfg.2_Missense_Mutation_p.S1037G|ANLN_uc010kxe.2_Missense_Mutation_p.S1036G	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	1074	PH.|Localization to the cleavage furrow.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						GACTCTTGTCAGCCAATGCAG	0.403													3	77					0	0	0.009096	0	0		G	36489415	G	G	36489415	3	3	178	1	0	0	0	0	1	0	0	0	694	188	7	3	3310	3	ANLN	7	36489415	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	15664544	36489415	122649248	47	91343											
RBM28	55131	broad.mit.edu	37	chr7	127953233	127953233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctgcagaactcacctgctCggacgataattgctgcttct	8	12	8	13	2	2	1	1	0	1	1	4	3	3	2	2	1	5	4	2	1	2	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr7:127953233C>T	uc003vmp.2	-	18	2255	c.2140G>A	c.(2140-2142)GAG>AAG	p.E714K	RBM28_uc003vmo.2_Missense_Mutation_p.E256K|RBM28_uc011koj.1_Missense_Mutation_p.E573K	NM_018077	NP_060547	Q9NW13	RBM28_HUMAN	RNA binding motif protein 28	714					mRNA processing|RNA splicing	Golgi apparatus|nucleolus|spliceosomal complex	nucleotide binding|RNA binding			ovary(2)	2						CTCACCTGCTCGGACGATAAT	0.473													10	102					0	0	0.006214	0	0		T	127953233	T	T	127953233	3	4	178	1	0	0	0	0	1	0	0	0	13153	893	31	1	147	1	RBM28	7	127953233	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	91463818	127953233	31185430	48	91344											
DEFB135	613209	broad.mit.edu	37	chr8	11842018	11842018	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggccaaaatgtctaaaaaaCgaacaatatcgtattttgtg	16	11	7	7	3	1	0	0	0	1	0	2	1	1	0	1	1	2	1	1	1	9	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr8:11842018C>T	uc003wuw.1	+	2	153	c.153C>T	c.(151-153)AAC>AAT	p.N51N		NM_001033017	NP_001028189	Q30KP9	DB135_HUMAN	beta-defensin 135 precursor	51					defense response to bacterium	extracellular region					0						GTCTAAAAAACGAACAATATC	0.383													275	57					0	0	0.01441	0	0		T	11842018	T	T	11842018	2	4	178	1	0	0	0	0	0	0	0	1	4425	535	19	1		1	DEFB135	8	11842018	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08		11842018	134522004	49	91345											
TRPA1	8989	broad.mit.edu	37	chr8	72977792	72977792	+	Missense_Mutation	SNP	A	G	G	1	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	tagttctatgctcaagcaagAcctaaaaaaaggggagaata	18	8	9	6	0	2	2	1	0	1	2	2	3	2	2	1	2	2	3	1	2	10	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr8:72977792A>G	uc003xza.2	-	4	621	c.446T>C	c.(445-447)GTC>GCC	p.V149A		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	149	Cytoplasmic (Potential).|ANK 3.					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CTCAAGCAAGACCTAAAAAAA	0.294													21	33					0	0	0.010504	0	0		G	72977792	G	G	72977792	3	3	178	1	0	0	0	0	1	0	0	0	16603	289	10	3	3009	3	TRPA1	8	72977792	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	61135774	72977792	73386230	50	91346											
GNE	10020	broad.mit.edu	37	chr9	36222978	36222978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttcccgaggatttacacGgccacctgtggaaatgcctg	8	10	10	13	2	0	0	0	0	0	0	2	3	2	2	5	3	2	0	5	3	2	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr9:36222978G>A	uc010mlh.2	-	9	1644	c.1429C>T	c.(1429-1431)CGT>TGT	p.R477C	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Intron|GNE_uc011lpl.1_Missense_Mutation_p.R367C|GNE_uc010mli.2_Missense_Mutation_p.R508C|GNE_uc010mlj.2_Missense_Mutation_p.R472C	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	477	UDP-N-acetylglucosamine 2-epimerase.|N-acetylmannosamine kinase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			GGATTTACACGGCCACCTGTG	0.468													4	140					0	0	0.000602	0	0		A	36222978	A	A	36222978	3	1	178	1	0	0	0	0	1	0	0	0	6537	1116	39	1	755	1	GNE	9	36222978	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08		36222978	104990453	51	91347											
CNTNAP3	79937	broad.mit.edu	37	chr9	39178303	39178303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttattggttttaaaggttttTtatcaagtctatacagcaga	12	18	7	4	0	2	1	1	0	1	1	2	1	2	1	0	2	2	3	0	2	7	9			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr9:39178303T>C	uc004abi.2	-	5	832	c.593A>G	c.(592-594)AAA>AGA	p.K198R	CNTNAP3_uc004abj.2_Missense_Mutation_p.K198R|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.K198R|CNTNAP3_uc011lqs.1_Missense_Mutation_p.K198R|CNTNAP3_uc004abl.1_Missense_Mutation_p.K110R	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	198	Extracellular (Potential).|Laminin G-like 1.				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TAAAGGTTTTTTATCAAGTCT	0.323													37	129					0	0	0.00623	0	0		C	39178303	C	C	39178303	3	2	178	1	0	0	0	0	1	0	0	0	3651	1841	64	3	3353	3	CNTNAP3	9	39178303	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	2955325	39178303	102035128	52	91348											
C9orf171	389799	broad.mit.edu	37	chr9	135374805	135374805	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagcagcccacctgcccccaCgagctgacccggaattatat	10	6	8	17	2	0	1	0	1	0	0	0	3	0	2	5	1	4	2	5	1	3	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr9:135374805C>T	uc004cbn.2	+	4	498	c.450C>T	c.(448-450)CAC>CAT	p.H150H	C9orf171_uc004cbo.2_Silent_p.H114H	NM_207417	NP_997300	Q6ZQR2	CI171_HUMAN	hypothetical protein LOC389799	150										ovary(4)|large_intestine(1)	5						CCTGCCCCCACGAGCTGACCC	0.627													63	44					0	0	0.01441	0	0		T	135374805	T	T	135374805	2	4	178	1	0	0	0	0	0	0	0	1	2473	535	19	1		1	C9orf171	9	135374805	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08	96196502	135374805	5838626	53	91349											
SLC16A9	220963	broad.mit.edu	37	chr10	61424004	61424004	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgttgaaatcaggccaagCgctaggcctcggcgatcgtc	8	8	12	13	4	1	1	1	1	0	0	4	2	1	1	3	3	1	2	3	3	3	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr10:61424004C>T	uc010qig.1	-	4	866	c.417G>A	c.(415-417)GCG>GCA	p.A139A		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	139	Helical; (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						TCAGGCCAAGCGCTAGGCCTC	0.398													18	59					0	0	0.006122	0	0		T	61424004	T	T	61424004	2	4	178	1	0	0	0	0	0	0	0	1	14440	755	27	1		1	SLC16A9	10	61424004	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08		61424004	74110743	54	91350											
LRIT1	26103	broad.mit.edu	37	chr10	85997381	85997381	+	Missense_Mutation	SNP	A	G	G	1	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	ccgctccaggcgcagtctggAggtgtccggggggatggacg	5	6	19	11	4	1	0	0	0	1	0	3	3	3	3	3	7	0	2	3	7	0	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr10:85997381A>G	uc001kcz.1	-	2	206	c.184T>C	c.(184-186)TCC>CCC	p.S62P		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	62	LRR 1.|Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						CGCAGTCTGGAGGTGTCCGGG	0.657													3	111					0	0	0.009096	0	0		G	85997381	G	G	85997381	3	3	178	1	0	0	0	0	1	0	0	0	8965	304	11	3	1699	3	LRIT1	10	85997381	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	24573377	85997381	49537366	55	91351											
PDZD8	118987	broad.mit.edu	37	chr10	119133926	119133926	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttcttgagctggttgacGatgatggaggtgagctgggg	7	12	17	5	1	2	4	0	4	2	0	2	6	2	5	0	5	2	3	0	5	0	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr10:119133926G>A	uc001lde.1	-	1	1012	c.813C>T	c.(811-813)ATC>ATT	p.I271I		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	271					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GCTGGTTGACGATGATGGAGG	0.597													39	70					0	0	0.010771	0	0		A	119133926	A	A	119133926	2	1	178	1	0	0	0	0	0	0	0	1	11724	1048	37	1		1	PDZD8	10	119133926	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	33136545	119133926	16400821	56	91352											
CTSD	1509	broad.mit.edu	37	chr11	1774867	1774867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtccatgcccatgaagcCgctcaggcagagggtcttcc	8	8	12	13	1	2	2	1	1	1	1	4	3	4	2	4	2	2	2	4	2	1	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:1774867C>T	uc001luc.1	-	9	1238	c.1105G>A	c.(1105-1107)GGC>AGC	p.G369S	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	369					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CCCATGAAGCCGCTCAGGCAG	0.657													15	61					0	0	0.00499	0	0		T	1774867	T	T	1774867	3	4	178	1	0	0	0	0	1	0	0	0	4035	652	23	1	137	1	CTSD	11	1774867	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08		1774867	133231649	57	91353											
OR51M1	390059	broad.mit.edu	37	chr11	5410875	5410875	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgctggccctcactgacCtggggctgtgtgtgtccacg	3	11	13	14	1	1	1	1	1	0	0	2	1	2	1	4	3	1	2	4	3	0	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:5410875C>G	uc010qzc.1	+	1	247	c.247C>G	c.(247-249)CTG>GTG	p.L83V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	83						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCTCACTGACCTGGGGCTGTG	0.478													18	138					0	0	0.006122	0	0		G	5410875	G	G	5410875	3	3	178	1	0	0	0	0	1	0	0	0	11122	680	24	5	249	5	OR51M1	11	5410875	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	3636008	5410875	129595641	58	91354											
NLRP10	338322	broad.mit.edu	37	chr11	7982173	7982173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagcttgcttctcatccGtgaaataggagctgaagtac	10	11	11	9	1	2	2	2	2	1	0	4	3	3	3	1	2	4	4	1	2	4	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:7982173G>A	uc001mfv.1	-	2	1003	c.986C>T	c.(985-987)ACG>ATG	p.T329M		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	329	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CTTCTCATCCGTGAAATAGGA	0.507													10	141					0	0	0.010729	0	0		A	7982173	A	A	7982173	3	1	178	1	0	0	0	0	1	0	0	0	10491	1145	40	1	985	1	NLRP10	11	7982173	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	2571298	7982173	127024343	59	91355											
OR4A15	81328	broad.mit.edu	37	chr11	55135528	55135528	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aggggcaaaaggttttatttGtcacattcttactaatctac	12	15	7	7	0	3	0	1	0	2	0	3	0	3	0	0	3	2	2	0	3	6	7			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:55135528G>T	uc010rif.1	+	1	169	c.169G>T	c.(169-171)GTC>TTC	p.V57F		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	57	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGTTTTATTTGTCACATTCTT	0.428													29	36					3.69857e-22	5.15558e-22	0.008361	1	0		T	55135528	T	T	55135528	3	4	178	1	0	0	0	0	1	0	0	0	11059	1377	48	5	171	5	OR4A15	11	55135528	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	47153355	55135528	79870988	60	91356											
MS4A14	84689	broad.mit.edu	37	chr11	60183390	60183390	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taaaactcgaagatatatcaCctgaagacttgccatcccaa	16	9	5	11	1	1	3	1	1	0	2	3	4	2	3	3	0	2	0	3	0	7	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:60183390C>A	uc001npj.2	+	5	1514	c.949C>A	c.(949-951)CCT>ACT	p.P317T	MS4A14_uc001npi.2_Missense_Mutation_p.P205T|MS4A14_uc001npn.2_Missense_Mutation_p.P55T|MS4A14_uc001npk.2_Missense_Mutation_p.P300T|MS4A14_uc001npl.2_Missense_Mutation_p.P55T|MS4A14_uc001npm.2_Missense_Mutation_p.P55T	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	317						integral to membrane	receptor activity			breast(1)	1						AGATATATCACCTGAAGACTT	0.443													35	50					2.66277e-13	3.65633e-13	0.006999	1	0		A	60183390	A	A	60183390	3	1	178	1	0	0	0	0	1	0	0	0	9876	507	18	5	967	5	MS4A14	11	60183390	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	5047862	60183390	74823126	61	91357											
CAPN5	726	broad.mit.edu	37	chr11	76829348	76829348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggacccgcgacagaacCgcggtggcggctgcatcaac	10	4	14	13	5	1	2	1	1	0	1	1	4	1	3	2	4	3	2	2	4	2	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:76829348C>T	uc001oxx.2	+	8	1302	c.1117C>T	c.(1117-1119)CGC>TGC	p.R373C	CAPN5_uc009yup.2_Missense_Mutation_p.R413C|CAPN5_uc009yuq.2_Missense_Mutation_p.R409C|CAPN5_uc001oxy.2_Missense_Mutation_p.R413C|CAPN5_uc001oya.2_5'Flank	NM_004055	NP_004046	O15484	CAN5_HUMAN	calpain 5	373	Domain III.				proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0						GCGACAGAACCGCGGTGGCGG	0.627													9	9					0	0	0.004482	0	0		T	76829348	T	T	76829348	3	4	178	1	0	0	0	0	1	0	0	0	2632	652	23	1	1143	1	CAPN5	11	76829348	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	16645958	76829348	58177168	62	91358											
PCF11	51585	broad.mit.edu	37	chr11	82874885	82874885	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatacgtctagcatccatgtGaatcctaaatttttaaataa	16	14	4	7	1	1	1	0	1	1	0	3	1	3	1	2	0	2	1	2	0	9	7			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:82874885G>A	uc001ozx.3	+	3	828	c.483G>A	c.(481-483)GTG>GTA	p.V161V	PCF11_uc010rsu.1_Silent_p.V161V	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	161					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						GCATCCATGTGAATCCTAAAT	0.343													4	31					0	0	0.009096	0	0		A	82874885	A	A	82874885	2	1	178	1	0	0	0	0	0	0	0	1	11592	1277	45	4		4	PCF11	11	82874885	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	6045537	82874885	52131631	63	91359											
TECTA	7007	broad.mit.edu	37	chr11	121032936	121032936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctatgggcttctcgatcCcctcccattctacgagtcct	5	13	7	16	2	2	0	0	0	2	0	6	2	5	0	4	1	2	2	4	1	2	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:121032936C>T	uc010rzo.1	+	15	5129	c.5129C>T	c.(5128-5130)CCC>CTC	p.P1710L		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1710					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CTTCTCGATCCCCTCCCATTC	0.602													5	61					0	0	0.001168	0	0		T	121032936	T	T	121032936	3	4	178	1	0	0	0	0	1	0	0	0	15772	623	22	4	5187	4	TECTA	11	121032936	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	38158051	121032936	13973580	64	91360											
OR8D2	283160	broad.mit.edu	37	chr11	124189623	124189623	+	Silent	SNP	T	C	C	0	1	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	gacatgcgggtagtatggacTgtggcccacagaaaacccag	12	6	13	10	1	0	1	0	0	0	1	0	3	0	2	2	3	2	2	2	3	4	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr11:124189623T>C	uc010sah.1	-	1	471	c.471A>G	c.(469-471)ACA>ACG	p.T157T		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	157	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		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;0.0525)		TAGTATGGACTGTGGCCCACA	0.453													15	64					0	0	0.004007	0	0		C	124189623	C	C	124189623	2	2	178	1	0	0	0	0	0	0	0	1	11251	1567	55	3		3	OR8D2	11	124189623	Silent	SNP	T	TCGA-D7-6820-01A-11D-1882-08	3156687	124189623	10816893	65	91361											
GALNT8	26290	broad.mit.edu	37	chr12	4874570	4874570	+	Missense_Mutation	SNP	A	G	G	1	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	ctactatcacctaactggggAgctctatgtgggacaactga	11	10	10	10	0	2	1	1	1	1	0	2	3	2	3	1	3	4	1	1	3	5	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:4874570A>G	uc001qne.1	+	10	1711	c.1619A>G	c.(1618-1620)GAG>GGG	p.E540G		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	540	Ricin B-type lectin.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						CTAACTGGGGAGCTCTATGTG	0.498													15	29					0	0	0.00245	0	0		G	4874570	G	G	4874570	3	3	178	1	0	0	0	0	1	0	0	0	6234	304	11	3	1657	3	GALNT8	12	4874570	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08		4874570	128977325	66	91362											
C12orf35	55196	broad.mit.edu	37	chr12	32136728	32136728	+	Missense_Mutation	SNP	A	G	G	1	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	aaaaacaattagataataccActgaaaataaagactttggt	21	10	5	5	0	0	3	0	1	0	2	0	3	0	3	1	1	2	0	1	1	10	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:32136728A>G	uc001rks.2	+	4	3253	c.2839A>G	c.(2839-2841)ACT>GCT	p.T947A		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	947										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			AGATAATACCACTGAAAATAA	0.393													16	64					0	0	0.003163	0	0		G	32136728	G	G	32136728	3	3	178	1	0	0	0	0	1	0	0	0	1685	159	6	3	2841	3	C12orf35	12	32136728	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	27262158	32136728	101715167	67	91363											
COL2A1	1280	broad.mit.edu	37	chr12	48367927	48367927	+	Missense_Mutation	SNP	A	G	G	1	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	tgctattgccctctgcccggAtctccacgtcattggagccc	5	11	9	16	2	3	0	1	0	2	0	4	2	3	2	4	2	4	1	4	2	1	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:48367927A>G	uc001rqu.2	-	53	4443	c.4262T>C	c.(4261-4263)ATC>ACC	p.I1421T	COL2A1_uc001rqt.2_Missense_Mutation_p.I202T|COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.I1352T	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	1421	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CTCTGCCCGGATCTCCACGTC	0.582													30	56					0	0	0.007291	0	0		G	48367927	G	G	48367927	3	3	178	1	0	0	0	0	1	0	0	0	3690	333	12	3	209	3	COL2A1	12	48367927	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	16231199	48367927	85483968	68	91364											
BAZ2A	11176	broad.mit.edu	37	chr12	56993020	56993020	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctgctgctgggctttctcgGcccctcaacagtacccggcg	4	9	11	17	3	2	0	1	0	1	0	3	0	2	0	4	3	4	4	4	3	2	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:56993020G>A	uc001slq.1	-	27	5495	c.5301C>T	c.(5299-5301)GGC>GGT	p.G1767G	BAZ2A_uc001slp.1_Silent_p.G1765G|BAZ2A_uc001slo.1_Silent_p.G573G|BAZ2A_uc009zov.1_Silent_p.G733G|BAZ2A_uc009zow.1_Silent_p.G1735G	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1767					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						GGCTTTCTCGGCCCCTCAACA	0.602													5	18					0	0	0.000602	0	0		A	56993020	A	A	56993020	2	1	178	1	0	0	0	0	0	0	0	1	1332	1190	42	2		2	BAZ2A	12	56993020	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	8625093	56993020	76858875	69	91365											
TRHDE	29953	broad.mit.edu	37	chr12	72863563	72863563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagctgtgcctaagcatccGtatgctgctatggagaactg	9	12	11	9	1	0	1	0	0	0	1	1	2	1	1	2	1	6	5	2	1	5	4	rs149072587	byFrequency	TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:72863563G>A	uc001sxa.2	+	4	1236	c.1206G>A	c.(1204-1206)CCG>CCA	p.P402P		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	402	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						CTAAGCATCCGTATGCTGCTA	0.368													43	59					0	0	0.01441	0	0		A	72863563	A	A	72863563	2	1	178	1	0	0	0	0	0	0	0	1	16505	1132	40	1		1	TRHDE	12	72863563	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	15870543	72863563	60988332	70	91366											
ANKS1B	56899	broad.mit.edu	37	chr12	100206067	100206067	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttgttgatgcctcatactGaagtagtttgagaactatgt	11	16	9	5	0	1	3	1	3	0	1	1	4	1	3	1	0	3	3	1	0	5	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:100206067G>A	uc001tge.1	-	3	655	c.238C>T	c.(238-240)CAG>TAG	p.Q80*	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Nonsense_Mutation_p.Q80*	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	80	ANK 2.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		GCCTCATACTGAAGTAGTTTG	0.348													24	54					0	0	0.003954	0	0		A	100206067	A	A	100206067	4	1	178	1	0	0	0	0	0	1	0	0	689	1299	45	4	3892	4	ANKS1B	12	100206067	Nonsense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	27342504	100206067	33645828	71	91367											
PTPN11	5781	broad.mit.edu	37	chr12	112891073	112891073	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaaaacatggtagttttcTtgtacgagagagccagagcc	13	9	12	7	1	1	2	0	0	1	2	1	5	1	3	2	2	4	3	2	2	4	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:112891073T>A	uc001ttx.2	+	4	787	c.407T>A	c.(406-408)CTT>CAT	p.L136H	PTPN11_uc001ttw.1_Missense_Mutation_p.L136H	NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	136	SH2 2.				axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding			haematopoietic_and_lymphoid_tissue(375)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|skin(1)|ovary(1)|NS(1)|kidney(1)	392						GGTAGTTTTCTTGTACGAGAG	0.403			Mis		JMML|AML|MDS		Noonan Syndrome		Noonan_syndrome				38	113					0	0	0.005524	0	0		A	112891073	A	A	112891073	3	1	178	1	0	0	0	0	1	0	0	0	12803	1609	56	5	421	5	PTPN11	12	112891073	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	12685006	112891073	20960822	72	91368											
OASL	8638	broad.mit.edu	37	chr12	121458498	121458498	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccagctgctgctgcttttTaggaagcccctgctggtctt	4	15	10	12	0	1	0	0	0	1	0	2	1	2	1	3	2	6	5	3	2	2	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:121458498T>A	uc001tzj.1	-	6	1417	c.1411A>T	c.(1411-1413)AAA>TAA	p.K471*	OASL_uc001tzk.1_3'UTR	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	471	Ubiquitin-like 2.				interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TGCTGCTTTTTAGGAAGCCCC	0.537													42	70					0	0	0.010771	0	0		A	121458498	A	A	121458498	4	1	178	1	0	0	0	0	0	1	0	0	10821	1763	61	5	137	5	OASL	12	121458498	Nonsense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	8567425	121458498	12393397	73	91369											
VPS33A	65082	broad.mit.edu	37	chr12	122750940	122750940	+	Missense_Mutation	SNP	A	C	C	1	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	taggttcactcggccgtaggAcagatgagccgccatcttgc	8	9	12	12	3	2	2	1	1	1	1	3	3	2	3	3	3	2	2	3	3	2	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:122750940A>C	uc001ucd.2	-	1	129	c.16T>G	c.(16-18)TCC>GCC	p.S6A	VPS33A_uc001ucc.2_RNA|VPS33A_uc001uce.2_Missense_Mutation_p.S6A	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	6					lysosome localization|melanosome localization|platelet formation|protein transport|regulation of developmental pigmentation|vesicle docking involved in exocytosis	early endosome|late endosome membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			skin(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000336)|Epithelial(86;0.000606)|BRCA - Breast invasive adenocarcinoma(302;0.23)		CGGCCGTAGGACAGATGAGCC	0.652													3	60					0	0	0.004672	0	0		C	122750940	C	C	122750940	3	2	178	1	0	0	0	0	1	0	0	0	17227	275	10	5	1826	5	VPS33A	12	122750940	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	1292442	122750940	11100955	74	91370											
ULK1	8408	broad.mit.edu	37	chr12	132380356	132380356	+	Missense_Mutation	SNP	T	A	A	0	1	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	acatgaaaacatcgtggcccTgtacgacttccaggtaaggc	12	8	10	11	2	0	1	0	1	0	0	2	2	1	1	2	3	2	2	2	3	4	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr12:132380356T>A	uc001uje.2	+	3	501	c.233T>A	c.(232-234)CTG>CAG	p.L78Q		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	78	Protein kinase.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		ATCGTGGCCCTGTACGACTTC	0.627													10	66					0	0	0.008291	0	0		A	132380356	A	A	132380356	3	1	178	1	0	0	0	0	1	0	0	0	17001	1580	55	5	243	5	ULK1	12	132380356	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	9629416	132380356	1471539	75	91371											
C13orf34	79866	broad.mit.edu	37	chr13	73303150	73303150	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggatccctgttttaaatccTtttgaaagtcctagtgatta	11	16	7	7	0	0	2	0	2	0	0	3	3	3	3	3	1	0	1	3	1	5	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr13:73303150T>A	uc001viv.1	+	2	191	c.72T>A	c.(70-72)CCT>CCA	p.P24P	C13orf37_uc001viu.2_5'Flank|C13orf34_uc010thq.1_5'UTR|C13orf34_uc010aen.1_Silent_p.P99P|C13orf34_uc010thr.1_5'UTR|C13orf34_uc001viw.1_Silent_p.P24P	NM_024808	NP_079084	Q6PGQ7	BORA_HUMAN	aurora borealis	24					cell division|mitosis|regulation of mitosis|regulation of mitotic spindle organization|regulation of protein localization		protein kinase binding				0		Breast(118;0.0735)		GBM - Glioblastoma multiforme(99;0.000227)		TTTTAAATCCTTTTGAAAGTC	0.358													87	182					0	0	0.01441	0	0		A	73303150	A	A	73303150	2	1	178	1	0	0	0	0	0	0	0	1	1731	1596	56	5		5	C13orf34	13	73303150	Silent	SNP	T	TCGA-D7-6820-01A-11D-1882-08		73303150	41866728	76	91372											
MYCBP2	23077	broad.mit.edu	37	chr13	77636799	77636799	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acgatctacgtggtcctgatCaagaacacatagggatgcga	13	8	11	9	3	2	2	1	1	1	1	3	5	3	3	1	2	3	0	1	2	4	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr13:77636799C>G	uc001vkf.2	-	75	12683	c.12592G>C	c.(12592-12594)GAT>CAT	p.D4198H	MYCBP2_uc010aev.2_Missense_Mutation_p.D3602H|MYCBP2_uc001vke.2_Missense_Mutation_p.D815H	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	4198					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TGGTCCTGATCAAGAACACAT	0.428													59	86					0	0	0.01441	0	0		G	77636799	G	G	77636799	3	3	178	1	0	0	0	0	1	0	0	0	10036	826	29	5	1370	5	MYCBP2	13	77636799	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	4333649	77636799	37533079	77	91373											
MYCBP2	23077	broad.mit.edu	37	chr13	77671759	77671759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatcatattctgggaagcaGctttgatagtagccaaagag	15	10	10	6	0	2	2	1	1	1	1	2	3	2	3	1	1	3	3	1	1	6	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr13:77671759G>A	uc001vkf.2	-	57	9507	c.9416C>T	c.(9415-9417)GCT>GTT	p.A3139V	MYCBP2_uc010aev.2_Missense_Mutation_p.A2543V|MYCBP2_uc001vkg.1_Missense_Mutation_p.A662V|MYCBP2_uc010aew.2_Missense_Mutation_p.A525V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3139					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTGGGAAGCAGCTTTGATAGT	0.299													4	62					0	0	0.000602	0	0		A	77671759	A	A	77671759	3	1	178	1	0	0	0	0	1	0	0	0	10036	971	34	2	4618	2	MYCBP2	13	77671759	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	34960	77671759	37498119	78	91374											
ZIC5	85416	broad.mit.edu	37	chr13	100622668	100622688	+	In_Frame_Del	DEL	GGCGGCGGCGGCGGCGGCGGC	-	-																															cgccgccggccgggggcggtGgcggcggcggcggcggcggc																										TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr13:100622668_100622688delGGCGGCGGCGGCGGCGGCGGC	uc001vom.1	-	1	1491_1511	c.1242_1262delGCCGCCGCCGCCGCCGCCGCC	c.(1240-1263)CCGCCGCCGCCGCCGCCGCCGCCA>CCA	p.414_421PPPPPPPP>P		NM_033132	NP_149123	Q96T25	ZIC5_HUMAN	zinc finger protein of the cerebellum 5	414_421	Pro-rich.				cell differentiation	nucleus	DNA binding|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					cgggggcggtggcggcggcggcggcggcggcggcggcggcg	0.511													12	12	---	---	---	---						.	-	100622688	-	-	100622668	7	5	178	1	0	1	0	1	0	0	0	0	17707	1348	47	0	737	0	ZIC5	13	100622668	In_Frame_Del	DEL	GGCGGCGGCGGCGGCGGCGGC	TCGA-D7-6820-01A-11D-1882-08	22950909	100622668	14547210	79	91375											
NALCN	259232	broad.mit.edu	37	chr13	101797186	101797186	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctgtttggaaatttttcaAagattcgcaggcgtaaaggg	11	13	12	5	2	2	1	1	0	1	1	3	2	2	2	0	3	0	3	0	3	4	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr13:101797186A>C	uc001vox.1	-	16	2090	c.1901T>G	c.(1900-1902)TTT>TGT	p.F634C	NALCN_uc001voy.2_Missense_Mutation_p.F349C	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	634	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AAATTTTTCAAAGATTCGCAG	0.358													105	251					0	0	0.01441	0	0		C	101797186	C	C	101797186	3	2	178	1	0	0	0	0	1	0	0	0	10166	14	1	5	3431	5	NALCN	13	101797186	Missense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	1174518	101797186	13372692	80	91376											
TRIM9	114088	broad.mit.edu	37	chr14	51467488	51467488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggctgtttccaggacaaCgtagcgctgttgttgtgggt	5	13	16	7	2	0	0	0	0	0	0	1	1	1	1	1	4	2	6	1	4	2	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr14:51467488C>T	uc001wyx.3	-	6	2142	c.1377G>A	c.(1375-1377)ACG>ACA	p.T459T	TRIM9_uc001wyy.2_Silent_p.T455T|TRIM9_uc001wyz.3_Silent_p.T459T	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	459	Fibronectin type-III.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					TCCAGGACAACGTAGCGCTGT	0.532													32	61					0	0	0.013726	0	0		T	51467488	T	T	51467488	2	4	178	1	0	0	0	0	0	0	0	1	16575	523	19	1		1	TRIM9	14	51467488	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08		51467488	55882052	81	91377											
KLC1	3831	broad.mit.edu	37	chr14	104053664	104053664	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggacttctacaaggaatttTtaagtaaaaattttcagaag	16	13	7	5	1	2	1	1	0	1	1	2	3	2	3	0	2	1	1	0	2	8	8			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr14:104053664T>A	uc010tyd.1	+	4	479	c.439T>A	c.(439-441)TTA>ATA	p.L147I	C14orf153_uc001ynl.3_RNA|C14orf153_uc010tyc.1_Missense_Mutation_p.L160I	NM_005552	NP_005543	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 1	106					blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				CAAGGAATTTTTAAGTAAAAA	0.338													6	26					0	0	0.00308	0	0		A	104053664	A	A	104053664	3	1	178	1	0	0	0	0	1	0	0	0	8349	1838	64	5		5	KLC1	14	104053664	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	52586176	104053664	3295876	82	91378											
ADSSL1	122622	broad.mit.edu	37	chr14	105201396	105201396	+	Nonsense_Mutation	SNP	A	T	T	1	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	acacggtggtggtggatgggAaagagtacgacttccacctg	10	8	15	8	2	0	1	0	0	0	1	1	4	1	3	2	5	1	1	2	5	2	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr14:105201396A>T	uc001ypd.2	+	2	306	c.232A>T	c.(232-234)AAA>TAA	p.K78*	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Nonsense_Mutation_p.K121*|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	78					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	GGTGGATGGGAAAGAGTACGA	0.612													5	31					0	0	0.000602	0	0		T	105201396	T	T	105201396	4	4	178	1	0	0	0	0	0	1	0	0	348	247	9	5	563	5	ADSSL1	14	105201396	Nonsense_Mutation	SNP	A	TCGA-D7-6820-01A-11D-1882-08	1147732	105201396	2148144	83	91379											
IGDCC3	9543	broad.mit.edu	37	chr15	65621754	65621754	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggggtccggctgccctgCtgcgctggccggggggaaca	3	7	18	13	3	1	0	0	0	1	0	2	1	2	1	3	7	4	3	3	7	1	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr15:65621754C>A	uc002aos.2	-	13	2431	c.2179G>T	c.(2179-2181)GCA>TCA	p.A727S	IGDCC3_uc002aor.1_Missense_Mutation_p.A14S	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	727	Cytoplasmic (Potential).									ovary(3)	3						GGCTGCCCTGCTGCGCTGGCC	0.642													75	174					1.53276e-45	2.15288e-45	0.01441	1	0		A	65621754	A	A	65621754	3	1	178	1	0	0	0	0	1	0	0	0	7584	797	28	5	273	5	IGDCC3	15	65621754	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08		65621754	36909638	84	91380											
AXIN1	8312	broad.mit.edu	37	chr16	354405	354405	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcctccgcgaacttctgagGctccacgcggacctccttcg	5	9	9	18	5	1	1	0	1	1	0	6	3	5	2	5	2	1	1	5	2	1	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr16:354405G>C	uc002cgp.1	-	5	1330	c.1153C>G	c.(1153-1155)CCT>GCT	p.P385A	AXIN1_uc002cgq.1_Missense_Mutation_p.P385A	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	385	Interaction with GSK3B (By similarity).				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				AACTTCTGAGGCTCCACGCGG	0.642													17	45					0	0	0.006122	0	0		C	354405	C	C	354405	3	2	178	1	0	0	0	0	1	0	0	0	1237	1203	42	5	1463	5	AXIN1	16	354405	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08		354405	90000348	85	91381											
IGFALS	3483	broad.mit.edu	37	chr16	1841608	1841608	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	gcggttgtgggacaggtccaGccatcgcagcgccttcaggc	6	7	15	13	3	1	0	1	0	0	0	3	1	2	1	3	4	2	2	3	4	0	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr16:1841608G>C	uc002cmy.2	-	2	892	c.811C>G	c.(811-813)CTG>GTG	p.L271V	IGFALS_uc010uvn.1_Missense_Mutation_p.L309V|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	271	LRR 9.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						GACAGGTCCAGCCATCGCAGC	0.692													2	2					0	0	0.004672	0	0		C	1841608	C	C	1841608	3	2	178	1	0	0	0	0	1	0	0	0	7593	962	34	5	1010	5	IGFALS	16	1841608	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	1487203	1841608	88513145	86	91382											
LRRC29	26231	broad.mit.edu	37	chr16	67241591	67241591	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagctgggcttggaagcgtcTgacggcggccatgttgatgc	6	9	16	10	3	1	2	0	2	1	0	1	3	1	3	1	4	3	3	1	4	1	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr16:67241591T>C	uc002esd.2	-	4	1486	c.589A>G	c.(589-591)AGA>GGA	p.R197G	LRRC29_uc002ese.2_Missense_Mutation_p.R197G|LRRC29_uc002esf.2_Missense_Mutation_p.R197G|LRRC29_uc002esg.2_Missense_Mutation_p.R197G	NM_012163	NP_036295	Q8WV35	LRC29_HUMAN	F-box and leucine-rich repeat protein 9	197	LRR 7.										0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		TGGAAGCGTCTGACGGCGGCC	0.642													11	48					0	0	0.008291	0	0		C	67241591	C	C	67241591	3	2	178	1	0	0	0	0	1	0	0	0	9001	1588	55	3	86	3	LRRC29	16	67241591	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	65399983	67241591	23113162	87	91383											
GALNS	2588	broad.mit.edu	37	chr16	88884510	88884510	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggtgatcctgctgagggcctCctggtactcggcgctggcaa	5	9	15	12	2	0	2	0	2	0	0	3	2	2	2	3	5	2	4	3	5	2	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr16:88884510C>G	uc002fly.3	-	13	1476	c.1387G>C	c.(1387-1389)GAG>CAG	p.E463Q	GALNS_uc002flx.2_RNA|GALNS_uc010cid.2_Missense_Mutation_p.E469Q|GALNS_uc002flz.3_Missense_Mutation_p.E146Q	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	463						lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	CTGAGGGCCTCCTGGTACTCG	0.667													4	9					0	0	0.009096	0	0		G	88884510	G	G	88884510	3	3	178	1	0	0	0	0	1	0	0	0	6221	864	30	5	189	5	GALNS	16	88884510	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	21642919	88884510	1470243	88	91384											
BCL6B	255877	broad.mit.edu	37	chr17	6927474	6927474	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctctgcccgggggtccCgaagcgagaggcttcgcccc	4	7	13	17	4	2	1	0	0	2	1	5	3	3	1	4	3	2	1	4	3	1	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:6927474C>T	uc002geg.2	+	3	309	c.252C>T	c.(250-252)CCC>CCT	p.P84P	BCL6B_uc010clt.1_Silent_p.P84P	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	84	BTB.					nucleus	zinc ion binding			skin(1)	1						CCGGGGGTCCCGAAGCGAGAG	0.602													88	93					0	0	0.01441	0	0		T	6927474	T	T	6927474	2	4	178	1	0	0	0	0	0	0	0	1	1378	639	23	1		1	BCL6B	17	6927474	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08		6927474	74267736	89	91385											
ZBTB4	57659	broad.mit.edu	37	chr17	7369455	7369455	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggagcactgcaagtcaggGgcctgggcctcagccctgtc	7	6	15	13	0	2	0	2	0	0	0	3	1	2	1	3	4	3	2	3	4	1	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:7369455G>A	uc002ghc.3	-	3	916	c.666C>T	c.(664-666)GCC>GCT	p.A222A	ZBTB4_uc002ghd.3_Silent_p.A222A	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	222					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GCAAGTCAGGGGCCTGGGCCT	0.692													6	38					0	0	0.001168	0	0		A	7369455	A	A	7369455	2	1	178	1	0	0	0	0	0	0	0	1	17566	1219	43	4		4	ZBTB4	17	7369455	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	441981	7369455	73825755	90	91386											
TP53	7157	broad.mit.edu	37	chr17	7577570	7577570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cccatgcaggaactgttacaCatgtagttgtagtggatggt	10	12	12	7	0	0	0	0	0	0	0	0	2	0	2	1	3	3	5	1	3	4	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:7577570C>T	uc002gim.2	-	7	905	c.711G>A	c.(709-711)ATG>ATA	p.M237I	TP53_uc002gig.1_Missense_Mutation_p.M237I|TP53_uc002gih.2_Missense_Mutation_p.M237I|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.M105I|TP53_uc010cng.1_Missense_Mutation_p.M105I|TP53_uc002gii.1_Missense_Mutation_p.M105I|TP53_uc010cnh.1_Missense_Mutation_p.M237I|TP53_uc010cni.1_Missense_Mutation_p.M237I|TP53_uc002gij.2_Missense_Mutation_p.M237I|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.M144I|TP53_uc002gio.2_Missense_Mutation_p.M105I	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	237	|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		M -> L (in sporadic cancers; somatic mutation).|M -> K (in sporadic cancers; somatic mutation).|M -> I (in LFS; germline mutation and in sporadic cancers; somatic mutation).|M -> R (in sporadic cancers; somatic mutation).|M -> T (in sporadic cancers; somatic mutation).|M -> V (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.M237I(99)|p.M237K(8)|p.0?(7)|p.M237V(6)|p.M237fs*10(4)|p.M237R(3)|p.M237T(2)|p.M237L(2)|p.Y236_M237delYM(1)|p.Y236_M237insXX(1)|p.M237_N239delMCN(1)|p.H233fs*6(1)|p.M144I(1)|p.Y236_M243delYMCNSSCM(1)|p.C238fs*2(1)|p.V225fs*23(1)|p.M237_C238insX(1)|p.Y236_M237>*L(1)|p.H233_C242del10(1)|p.M237fs*1(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AACTGTTACACATGTAGTTGT	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			35	51					0	0	0.00623	0	0		T	7577570	T	T	7577570	3	4	178	1	0	0	0	0	1	0	0	0	16407	478	17	4	579	4	TP53	17	7577570	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	208115	7577570	73617640	91	91387											
KCNJ12	3768	broad.mit.edu	37	chr17	21319829	21319829	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgtgacgaggaggatgaggCggacggagaccaggacggcc	10	2	19	10	5	0	3	0	2	0	1	0	9	0	7	3	7	0	0	3	7	0	0			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:21319829C>T	uc002gyv.1	+	3	1880	c.1175C>T	c.(1174-1176)GCG>GTG	p.A392V		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	392	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GAGGATGAGGCGGACGGAGAC	0.657										Prostate(3;0.18)			6	69					0	0	0.00308	0	0		T	21319829	T	T	21319829	3	4	178	1	0	0	0	0	1	0	0	0	8062	768	27	1	1177	1	KCNJ12	17	21319829	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	13742259	21319829	59875381	92	91388											
HOXB13	10481	broad.mit.edu	37	chr17	46805729	46805729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaaccataaggcacgggaGctggggacgtcccctggggc	9	5	16	11	2	0	0	0	0	0	0	1	2	1	2	3	6	2	3	3	6	2	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:46805729G>A	uc002ioa.2	-	1	383	c.227C>T	c.(226-228)GCT>GTT	p.A76V		NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	76					angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGGCACGGGAGCTGGGGACGT	0.657													65	52					0	0	0.01441	0	0		A	46805729	A	A	46805729	3	1	178	1	0	0	0	0	1	0	0	0	7316	971	34	2	635	2	HOXB13	17	46805729	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	25485900	46805729	34389481	93	91389											
SCN4A	6329	broad.mit.edu	37	chr17	62045625	62045625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagctgcagtcctaccagcGcaaagacgctcaggcagaag	13	4	12	12	2	1	3	1	0	0	3	2	3	2	3	2	1	4	5	2	1	3	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:62045625G>A	uc002jds.1	-	6	871	c.794C>T	c.(793-795)GCG>GTG	p.A265V		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	265	I.|Helical; Name=S5 of repeat I; (Potential).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TCCTACCAGCGCAAAGACGCT	0.582													5	214					0	0	0.000602	0	0		A	62045625	A	A	62045625	3	1	178	1	0	0	0	0	1	0	0	0	13945	1087	38	1	4792	1	SCN4A	17	62045625	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	15239896	62045625	19149585	94	91390											
GNA13	10672	broad.mit.edu	37	chr17	63052577	63052577	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggatcttcaccagccgcttCacataggtcttttcccgaga	9	11	8	13	2	4	1	2	0	2	1	5	3	5	2	3	2	1	1	3	2	1	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:63052577C>T	uc002jfc.2	-	1	344	c.135G>A	c.(133-135)GTG>GTA	p.V45V	GNA13_uc010wqh.1_5'Flank	NM_006572	NP_006563	Q14344	GNA13_HUMAN	guanine nucleotide binding protein (G protein),	45					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase D activity|cellular component movement|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex|melanosome	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity|type 1 angiotensin receptor binding				0						CCAGCCGCTTCACATAGGTCT	0.622													9	388					0	0	0.008291	0	0		T	63052577	T	T	63052577	2	4	178	1	0	0	0	0	0	0	0	1	6516	813	29	4		4	GNA13	17	63052577	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08	1006952	63052577	18142633	95	91391											
ABCA5	23461	broad.mit.edu	37	chr17	67303037	67303037	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tttctacaacagcagtttctCccataataacagctttagtt	12	15	4	10	0	2	0	0	0	2	0	3	0	2	0	1	0	5	4	1	0	5	8			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr17:67303037C>G	uc002jif.2	-	5	1835	c.617G>C	c.(616-618)GGA>GCA	p.G206A	ABCA5_uc002jig.2_Missense_Mutation_p.G206A|ABCA5_uc002jih.2_Missense_Mutation_p.G206A|ABCA5_uc010dfe.2_Missense_Mutation_p.G206A	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	206					cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					AGCAGTTTCTCCCATAATAAC	0.313													4	331					0	0	0.000602	0	0		G	67303037	G	G	67303037	3	3	178	1	0	0	0	0	1	0	0	0	35	855	30	5	4447	5	ABCA5	17	67303037	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	4250460	67303037	13892173	96	91392											
ANKRD12	23253	broad.mit.edu	37	chr18	9255014	9255014	+	Silent	SNP	T	C	C	0	1	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	cagcctgatcttgttcggtaTgataatacagaatctgaatt	12	14	8	7	1	2	4	0	3	2	1	3	4	2	4	1	1	2	2	1	1	5	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr18:9255014T>C	uc002knv.2	+	9	2006	c.1749T>C	c.(1747-1749)TAT>TAC	p.Y583Y	ANKRD12_uc002knw.2_Silent_p.Y560Y|ANKRD12_uc002knx.2_Silent_p.Y560Y|ANKRD12_uc010dkx.1_Silent_p.Y290Y	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	583						nucleus				ovary(2)|central_nervous_system(1)	3						TTGTTCGGTATGATAATACAG	0.328													38	94					0	0	0.00623	0	0		C	9255014	C	C	9255014	2	2	178	1	0	0	0	0	0	0	0	1	640	1471	51	3		3	ANKRD12	18	9255014	Silent	SNP	T	TCGA-D7-6820-01A-11D-1882-08		9255014	68822234	97	91393											
POTEC	388468	broad.mit.edu	37	chr18	14533160	14533160	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggagaagattgactatacTtgctgatccacaacatacag	16	9	8	8	0	0	4	0	2	0	2	1	5	1	4	1	1	4	1	1	1	6	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr18:14533160T>C	uc010dln.2	-	5	1409	c.955A>G	c.(955-957)AGT>GGT	p.S319G	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	319	ANK 6.									skin(3)	3						TTGACTATACTTGCTGATCCA	0.353													62	186					0	0	0.01441	0	0		C	14533160	C	C	14533160	3	2	178	1	0	0	0	0	1	0	0	0	12281	1609	56	3	701	3	POTEC	18	14533160	Missense_Mutation	SNP	T	TCGA-D7-6820-01A-11D-1882-08	5278146	14533160	63544088	98	91394											
ZNF521	25925	broad.mit.edu	37	chr18	22805131	22805131	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagctttctttttcacgatGgcactttctccaggtctgat	6	17	7	11	1	5	1	2	1	3	0	6	2	5	1	1	2	1	2	1	2	0	4			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr18:22805131G>T	uc002kvk.2	-	4	2998	c.2751C>A	c.(2749-2751)GCC>GCA	p.A917A	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.A917A|ZNF521_uc002kvl.2_Silent_p.A697A	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	917					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TTTTCACGATGGCACTTTCTC	0.488			T	PAX5	ALL								7	98					1.06961e-07	1.42615e-07	0.00308	1	0		T	22805131	T	T	22805131	2	4	178	1	0	0	0	0	0	0	0	1	17990	1335	47	5		5	ZNF521	18	22805131	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	8271971	22805131	55272117	99	91395											
KCTD1	284252	broad.mit.edu	37	chr18	24035839	24035839	+	Silent	SNP	T	C	C	0	1	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	caggagcccacgatttcaaaTcctctttgctgcaacctctc	9	11	6	15	1	3	0	1	0	2	0	5	2	4	1	3	1	4	2	3	1	2	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr18:24035839T>C	uc002kvw.2	-	5	1202	c.642A>G	c.(640-642)GGA>GGG	p.G214G	KCTD1_uc010xbj.1_Silent_p.G822G|KCTD1_uc010xbk.1_Silent_p.G214G|KCTD1_uc002kvy.2_3'UTR	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	214					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			CGATTTCAAATCCTCTTTGCT	0.562													31	32					0	0	0.009535	0	0		C	24035839	C	C	24035839	2	2	178	1	0	0	0	0	0	0	0	1	8112	1422	50	3		3	KCTD1	18	24035839	Silent	SNP	T	TCGA-D7-6820-01A-11D-1882-08	1230708	24035839	54041409	100	91396											
TCEB3C	162699	broad.mit.edu	37	chr18	44549225	44549225	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggttcaagaaccgagtagggGaccccttccacgtcgccgag	9	6	13	13	4	1	1	1	0	0	1	3	4	2	2	5	3	1	2	5	3	3	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr18:44549225G>A	uc010dnr.2	-	1	1074	c.1074C>T	c.(1072-1074)GTC>GTT	p.V358V	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_001100817	NP_001094287	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	358	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding				0						CCGAGTAGGGGACCCCTTCCA	0.642													13	393					0	0	0.008361	0	0		A	44549225	A	A	44549225	2	1	178	1	0	0	0	0	0	0	0	1	15708	1161	41	4		4	TCEB3C	18	44549225	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	20513386	44549225	33528023	101	91397											
PCSK4	54760	broad.mit.edu	37	chr19	1488005	1488005	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccttctcgatgccatcGtccagcacagagaccacgat	9	9	9	14	3	1	1	0	0	1	1	5	4	3	1	4	1	2	1	4	1	0	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr19:1488005G>A	uc002ltb.1	-	4	536	c.474C>T	c.(472-474)GAC>GAT	p.D158D	PCSK4_uc002lta.2_Translation_Start_Site	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	158	Catalytic (By similarity).	Charge relay system (By similarity).			proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGATGCCATCGTCCAGCACAG	0.682													74	57					0	0	0.01441	0	0		A	1488005	A	A	1488005	2	1	178	1	0	0	0	0	0	0	0	1	11621	1136	40	1		1	PCSK4	19	1488005	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08		1488005	57640978	102	91398											
KCNJ14	3770	broad.mit.edu	37	chr19	48967993	48967993	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatggggctgctagccccCgagttctcacaccaaccctg	9	7	10	15	1	1	1	1	0	1	1	2	2	1	1	4	2	3	3	4	2	3	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr19:48967993C>T	uc002pje.1	+	3	1675	c.1270C>T	c.(1270-1272)CGA>TGA	p.R424*	KCNJ14_uc002pjf.1_Nonsense_Mutation_p.R424*	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14	424	Cytoplasmic (By similarity).					voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		TGCTAGCCCCCGAGTTCTCAC	0.572													49	37					0	0	0.01441	0	0		T	48967993	T	T	48967993	4	4	178	1	0	0	0	0	0	1	0	0	8064	644	23	1	1276	1	KCNJ14	19	48967993	Nonsense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	47479988	48967993	10160990	103	91399											
ZNF132	7691	broad.mit.edu	37	chr19	58944795	58944795	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggtgtgaactttctggtgCcgaacaagtgtagatctttc	8	14	11	8	1	2	2	0	1	2	1	3	3	2	2	1	2	3	1	1	2	4	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr19:58944795C>T	uc002qst.3	-	3	2417	c.2016G>A	c.(2014-2016)CGG>CGA	p.R672R		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	672	C2H2-type 17.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		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)		CTTTCTGGTGCCGAACAAGTG	0.448													38	57					0	0	0.005524	0	0		T	58944795	T	T	58944795	2	4	178	1	0	0	0	0	0	0	0	1	17747	726	26	2		2	ZNF132	19	58944795	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08	9976802	58944795	184188	104	91400											
SLC23A2	9962	broad.mit.edu	37	chr20	4854604	4854604	+	Silent	SNP	C	A	A	0	0	0	1	1	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	gggtatggaaccttaaaccaCggggctaccagaagcacgcc	12	5	12	12	2	0	1	0	0	0	1	0	2	0	2	4	4	4	3	4	4	6	3	rs62636560	byFrequency	TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr20:4854604C>A	uc002wlg.1	-	11	1455	c.1080G>T	c.(1078-1080)CCG>CCT	p.P360P	SLC23A2_uc010zqr.1_Silent_p.P245P|SLC23A2_uc002wlh.1_Silent_p.P360P|SLC23A2_uc002wli.2_Silent_p.P359P	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	360					L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						CCTTAAACCACGGGGCTACCA	0.547													5	96					0.000602214	0.000780334	0.000602	1	0		A	4854604	A	A	4854604	2	1	178	1	0	0	0	0	0	0	0	1	14488	523	19	5		5	SLC23A2	20	4854604	Silent	SNP	C	TCGA-D7-6820-01A-11D-1882-08		4854604	58170916	105	91401											
XRN2	22803	broad.mit.edu	37	chr20	21306950	21306950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atggtgtaaagattccagttGatgccagtaaacctaatcca	14	11	8	8	0	0	2	0	1	0	1	2	2	2	2	4	1	2	3	4	1	5	5			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr20:21306950G>A	uc002wsf.1	+	2	204	c.109G>A	c.(109-111)GAT>AAT	p.D37N	XRN2_uc002wsg.1_Intron|XRN2_uc010zsk.1_5'UTR	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	37					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GATTCCAGTTGATGCCAGTAA	0.363													10	67					0	0	0.013537	0	0		A	21306950	A	A	21306950	3	1	178	1	0	0	0	0	1	0	0	0	17486	1290	45	4	115	4	XRN2	20	21306950	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	16452346	21306950	41718570	106	91402											
SSTR4	6754	broad.mit.edu	37	chr20	23016831	23016831	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tacctgctcatcgtgggcaaGatgcgcgccgtggccctgcg	5	8	14	14	5	1	1	1	0	0	1	2	1	1	1	3	2	4	2	3	2	2	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr20:23016831G>C	uc002wsr.2	+	1	775	c.711G>C	c.(709-711)AAG>AAC	p.K237N		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	237	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					TCGTGGGCAAGATGCGCGCCG	0.642													39	54					0	0	0.004878	0	0		C	23016831	C	C	23016831	3	2	178	1	0	0	0	0	1	0	0	0	15225	933	33	5	713	5	SSTR4	20	23016831	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	1709881	23016831	40008689	107	91403											
NANP	140838	broad.mit.edu	37	chr20	25597072	25597072	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccttttgtttcctggattGcttcttcccaatgtgaagtc	6	17	7	11	0	1	1	0	1	1	0	4	2	3	2	3	1	1	2	3	1	2	6			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr20:25597072G>C	uc002wuy.2	-	2	300	c.236C>G	c.(235-237)GCA>GGA	p.A79G		NM_152667	NP_689880	Q8TBE9	NANP_HUMAN	N-acetylneuraminic acid phosphatase	79					N-acetylneuraminate biosynthetic process		N-acylneuraminate-9-phosphatase activity|phosphoglycolate phosphatase activity				0						TTCCTGGATTGCTTCTTCCCA	0.363													6	81					0	0	0.001168	0	0		C	25597072	C	C	25597072	3	2	178	1	0	0	0	0	1	0	0	0	10172	1319	46	5	514	5	NANP	20	25597072	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	2580241	25597072	37428448	108	91404											
TAF4	6874	broad.mit.edu	37	chr20	60582625	60582625	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggaaaggcacaaggtaaGgttgaggtgaagaattaagt	16	8	14	3	0	1	3	1	2	0	1	1	4	1	4	0	5	0	3	0	5	6	3	rs6089604		TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr20:60582625G>C	uc002ybs.2	-	6	1952	c.1952C>G	c.(1951-1953)CCT>CGT	p.P651R		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	651	TAFH.				interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			CACAAGGTAAGGTTGAGGTGA	0.478													57	248					0	0	0.01441	0	0		C	60582625	C	C	60582625	3	2	178	1	0	0	0	0	1	0	0	0	15551	1000	35	5	1345	5	TAF4	20	60582625	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08	34985553	60582625	2442895	109	91405											
MYO18B	84700	broad.mit.edu	37	chr22	26224916	26224916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagcggacctttgtctccaCgctacagcgatatcaagagg	10	8	10	13	3	2	1	1	0	1	1	3	3	2	2	3	2	3	1	3	2	3	3			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr22:26224916C>T	uc003abz.1	+	15	3210	c.2960C>T	c.(2959-2961)ACG>ATG	p.T987M	MYO18B_uc003aca.1_Missense_Mutation_p.T868M|MYO18B_uc010guy.1_Missense_Mutation_p.T868M|MYO18B_uc010guz.1_Missense_Mutation_p.T868M|MYO18B_uc011aka.1_Missense_Mutation_p.T141M|MYO18B_uc011akb.1_Missense_Mutation_p.T500M	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	987	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TTTGTCTCCACGCTACAGCGA	0.597													24	20					0	0	0.003954	0	0		T	26224916	T	T	26224916	3	4	178	1	0	0	0	0	1	0	0	0	10084	536	19	1	3014	1	MYO18B	22	26224916	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08		26224916	25079650	110	91406											
MYH9	4627	broad.mit.edu	37	chr22	36690172	36690172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttgtcggccagctctgtgCgcacgcgctctccctcgttg	2	11	11	17	5	2	0	0	0	2	0	5	0	2	0	3	1	2	4	3	1	0	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chr22:36690172C>T	uc003apg.2	-	28	4034	c.3803G>A	c.(3802-3804)CGC>CAC	p.R1268H		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1268	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						CAGCTCTGTGCGCACGCGCTC	0.667			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				49	50					0	0	0.01441	0	0		T	36690172	T	T	36690172	3	4	178	1	0	0	0	0	1	0	0	0	10060	768	27	1	2135	1	MYH9	22	36690172	Missense_Mutation	SNP	C	TCGA-D7-6820-01A-11D-1882-08	10465256	36690172	14614394	111	91407											
TBC1D25	4943	broad.mit.edu	37	chrX	48418150	48418150	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaggacctggaattcatccGcagcacggtcctcaaggatg	10	8	12	11	2	2	1	2	1	0	0	4	4	4	4	3	4	1	2	3	4	2	1			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chrX:48418150G>T	uc004dka.1	+	6	965	c.854G>T	c.(853-855)CGC>CTC	p.R285L	TBC1D25_uc011mly.1_Missense_Mutation_p.R227L|TBC1D25_uc004dkb.1_Missense_Mutation_p.R31L|TBC1D25_uc011mlz.1_Missense_Mutation_p.R31L|TBC1D25_uc011mma.1_Missense_Mutation_p.R31L|TBC1D25_uc004dkc.1_Missense_Mutation_p.R31L|TBC1D25_uc011mmb.1_Missense_Mutation_p.R289L|TBC1D25_uc011mmc.1_Missense_Mutation_p.R31L|TBC1D25_uc011mmd.1_Missense_Mutation_p.R31L	NM_002536	NP_002527	Q3MII6	TBC25_HUMAN	TBC1 domain family, member 25	285	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(1)	1						GAATTCATCCGCAGCACGGTC	0.627													16	15					9.16793e-09	1.23131e-08	0.00499	1	0		T	48418150	T	T	48418150	3	4	178	1	0	0	0	0	1	0	0	0	15640	1087	38	5	876	5	TBC1D25	23	48418150	Missense_Mutation	SNP	G	TCGA-D7-6820-01A-11D-1882-08		48418150	106852410	112	91408											
TFDP3	51270	broad.mit.edu	37	chrX	132351883	132351883	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaacttggcgaccagctcGcccaccacttcctggcagga	8	7	10	16	2	0	1	0	1	0	0	2	3	1	2	4	3	2	2	4	3	1	2			TCGA-D7-6820-01A-11D-1882-08	TCGA-D7-6820-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	554922f2-ed07-44d7-ac3a-7e91e1b30ba6	e2135723-2e4d-4cab-bebb-35f7653d2e34	g.chrX:132351883G>A	uc004exb.1	-	1	494	c.405C>T	c.(403-405)GGC>GGT	p.G135G		NM_016521	NP_057605	Q5H9I0	TFDP3_HUMAN	transcription factor Dp family, member 3	135	Potential.					transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CGACCAGCTCGCCCACCACTT	0.552													40	25					0	0	0.007835	0	0		A	132351883	A	A	132351883	2	1	178	1	0	0	0	0	0	0	0	1	15824	1074	38	1		1	TFDP3	23	132351883	Silent	SNP	G	TCGA-D7-6820-01A-11D-1882-08	83933733	132351883	22918677	113	91409											
TNFRSF8	943	broad.mit.edu	37	chr1	12169629	12169629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtcccccctgcaggcacggCgcagaagaacacggtctgtg	8	6	13	14	3	1	2	0	0	1	2	2	2	2	2	3	3	2	3	3	3	2	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:12169629C>T	uc001atq.2	+	5	650	c.428C>T	c.(427-429)GCG>GTG	p.A143V	TNFRSF8_uc010obc.1_Missense_Mutation_p.A32V	NM_001243	NP_001234	P28908	TNR8_HUMAN	tumor necrosis factor receptor superfamily,	143	TNFR-Cys 3.|Extracellular (Potential).				cellular response to mechanical stimulus|negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of TRAIL biosynthetic process|positive regulation of tumor necrosis factor biosynthetic process	cytoplasm|integral to membrane|plasma membrane				skin(2)|ovary(1)|pancreas(1)|central_nervous_system(1)	5	Ovarian(185;0.249)	Lung NSC(185;8.71e-05)|all_lung(284;9.89e-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;5.66e-06)|COAD - Colon adenocarcinoma(227;0.000261)|BRCA - Breast invasive adenocarcinoma(304;0.000304)|Kidney(185;0.000777)|KIRC - Kidney renal clear cell carcinoma(229;0.00261)|STAD - Stomach adenocarcinoma(313;0.0073)|READ - Rectum adenocarcinoma(331;0.0649)		GCAGGCACGGCGCAGAAGAAC	0.612													39	9					0	0	0.013114	0	0		T	12169629	T	T	12169629	3	4	179	1	0	0	0	0	1	0	0	0	16324	768	27	1	446	1	TNFRSF8	1	12169629	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08		12169629	237080992	1	91410											
DLGAP3	58512	broad.mit.edu	37	chr1	35370218	35370218	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactccaccagcctgtggacTtggcctggtgccgcccatcc	6	8	10	17	1	0	0	0	0	0	0	2	1	2	1	7	3	3	0	7	3	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:35370218T>C	uc001byc.2	-	1	767	c.767A>G	c.(766-768)AAG>AGG	p.K256R		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	256					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GCCTGTGGACTTGGCCTGGTG	0.537													56	106					0	0	0.01441	0	0		C	35370218	C	C	35370218	3	2	179	1	0	0	0	0	1	0	0	0	4567	1609	56	3	2212	3	DLGAP3	1	35370218	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	23200589	35370218	213880403	2	91411											
HIVEP3	59269	broad.mit.edu	37	chr1	42046841	42046841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggatgttggctgggtgagGcatgagctgggggagatgga	7	8	23	3	0	0	3	0	2	0	1	0	6	0	5	0	8	1	4	0	8	0	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:42046841G>A	uc001cgz.3	-	4	4841	c.3628C>T	c.(3628-3630)CCT>TCT	p.P1210S	HIVEP3_uc001cha.3_Missense_Mutation_p.P1210S|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1210					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GCTGGGTGAGGCATGAGCTGG	0.602													4	114					0	0	0.000602	0	0		A	42046841	A	A	42046841	3	1	179	1	0	0	0	0	1	0	0	0	7204	1203	42	2	3616	2	HIVEP3	1	42046841	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	6676623	42046841	207203780	3	91412											
TIE1	7075	broad.mit.edu	37	chr1	43775063	43775063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccccatctcttttagtccaCcaaggccattgtggagccag	8	10	8	15	0	1	0	0	0	1	0	3	1	2	1	6	2	1	0	6	2	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:43775063C>T	uc001ciu.2	+	9	1272	c.1193C>T	c.(1192-1194)ACC>ATC	p.T398I	TIE1_uc010okd.1_Missense_Mutation_p.T398I|TIE1_uc010oke.1_Missense_Mutation_p.T353I|TIE1_uc009vwq.2_Missense_Mutation_p.T354I|TIE1_uc010okf.1_Missense_Mutation_p.T43I|TIE1_uc010okg.1_Missense_Mutation_p.T43I|TIE1_uc010okc.1_Silent_p.H306H	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	398	Ig-like C2-type 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TTTTAGTCCACCAAGGCCATT	0.607													22	49					0	0	0.004656	0	0		T	43775063	T	T	43775063	3	4	179	1	0	0	0	0	1	0	0	0	15918	507	18	4	1227	4	TIE1	1	43775063	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	1728222	43775063	205475558	4	91413											
ZSWIM5	57643	broad.mit.edu	37	chr1	45484944	45484944	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtagcctcagtaggggtgaAgagtgtgtaccagctctgca	10	9	14	8	0	2	2	1	1	1	1	2	2	2	2	2	2	4	5	2	2	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:45484944A>T	uc001cnd.2	-	14	2968	c.2740T>A	c.(2740-2742)TTC>ATC	p.F914I		NM_020883	NP_065934	Q9P217	ZSWM5_HUMAN	zinc finger, SWIM domain containing 5	914							zinc ion binding				0	Acute lymphoblastic leukemia(166;0.155)					GTAGGGGTGAAGAGTGTGTAC	0.587											OREG0013450	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	46					0	0	0.003271	0	0		T	45484944	T	T	45484944	3	4	179	1	0	0	0	0	1	0	0	0	18269	72	3	5	821	5	ZSWIM5	1	45484944	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	1709881	45484944	203765677	5	91414											
LRRC7	57554	broad.mit.edu	37	chr1	70501901	70501901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccaaacttgttctgctagGgaaggacaaaaaaggtaaca	17	7	9	8	0	1	0	0	0	1	0	1	2	1	2	1	3	3	3	1	3	7	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:70501901G>A	uc001dep.2	+	17	2009	c.1979G>A	c.(1978-1980)GGG>GAG	p.G660E	LRRC7_uc009wbg.2_Intron|LRRC7_uc001deq.2_5'Flank	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	660						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GTTCTGCTAGGGAAGGACAAA	0.413													29	64					0	0	0.009535	0	0		A	70501901	A	A	70501901	3	1	179	1	0	0	0	0	1	0	0	0	9038	1232	43	4	2045	4	LRRC7	1	70501901	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	25016957	70501901	178748720	6	91415											
ELTD1	64123	broad.mit.edu	37	chr1	79392725	79392725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataagaagttgtcagatgatGaaagcaaaggaccaatactc	18	8	9	6	0	1	4	1	2	0	2	2	5	1	5	1	1	2	2	1	1	6	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:79392725G>A	uc001diq.3	-	8	1085	c.929C>T	c.(928-930)TCA>TTA	p.S310L		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	310	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		GTCAGATGATGAAAGCAAAGG	0.303													23	37					0	0	0.00278	0	0		A	79392725	A	A	79392725	3	1	179	1	0	0	0	0	1	0	0	0	5092	1294	45	4	1175	4	ELTD1	1	79392725	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	8890824	79392725	169857896	7	91416											
DDX20	11218	broad.mit.edu	37	chr1	112308719	112308719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gactcccgttgaaaactccaCcaacagtcagcaccaggtca	13	6	7	15	1	2	1	2	1	0	0	4	2	4	1	4	1	3	2	4	1	3	1	rs145908941		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:112308719C>A	uc001ebs.2	+	11	2030	c.1673C>A	c.(1672-1674)ACC>AAC	p.T558N	DDX20_uc010owf.1_Missense_Mutation_p.T320N|DDX20_uc001ebt.2_Missense_Mutation_p.T166N	NM_007204	NP_009135	Q9UHI6	DDX20_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 20	558					assembly of spliceosomal tri-snRNP|ncRNA metabolic process	Cajal body|cytoskeleton|cytosol|spliceosomal complex	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding			lung(1)|kidney(1)	2		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)		GAAAACTCCACCAACAGTCAG	0.448													5	119					0.00116845	0.00125215	0.001168	1	0		A	112308719	A	A	112308719	3	1	179	1	0	0	0	0	1	0	0	0	4351	507	18	5	1715	5	DDX20	1	112308719	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	32915994	112308719	136941902	8	91417											
HRNR	388697	broad.mit.edu	37	chr1	152191590	152191590	+	Missense_Mutation	SNP	A	G	G	1	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	tccatgtcgtccctggctagAgaagtgacctgaggcagaac	10	8	12	11	1	0	4	0	2	0	2	3	5	2	4	3	2	1	2	3	2	3	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:152191590A>G	uc001ezt.1	-	3	2591	c.2515T>C	c.(2515-2517)TCT>CCT	p.S839P		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	839	9.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCCTGGCTAGAGAAGTGACCT	0.542													7	267					0	0	0.004482	0	0		G	152191590	G	G	152191590	3	3	179	1	0	0	0	0	1	0	0	0	7375	304	11	3	6041	3	HRNR	1	152191590	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	39882871	152191590	97059031	9	91418											
FLG	2312	broad.mit.edu	37	chr1	152283455	152283455	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggtgtctggagccatctcTtgactgctcccgagaagatc	8	10	12	11	1	2	3	0	1	2	2	5	5	3	4	2	2	2	1	2	2	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:152283455T>C	uc001ezu.1	-	3	3943	c.3907A>G	c.(3907-3909)AGA>GGA	p.R1303G	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1303	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			gagccatctcttgactgctcc	0.373									Ichthyosis				100	572					0	0	0.01441	0	0		C	152283455	C	C	152283455	3	2	179	1	0	0	0	0	1	0	0	0	5936	1617	56	3	8282	3	FLG	1	152283455	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	91865	152283455	96967166	10	91419											
FLG2	388698	broad.mit.edu	37	chr1	152329104	152329104	+	Silent	SNP	T	G	G	0	1	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	ttactacaagactggctaccTccagacccatattgtccaca	12	10	5	14	0	0	2	0	0	0	2	2	2	2	2	4	1	3	1	4	1	5	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:152329104T>G	uc001ezw.3	-	3	1231	c.1158A>C	c.(1156-1158)GGA>GGC	p.G386G	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	386	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ACTGGCTACCTCCAGACCCAT	0.433													30	234					0	0	0.008361	0	0		G	152329104	G	G	152329104	2	3	179	1	0	0	0	0	0	0	0	1	5937	1538	54	5		5	FLG2	1	152329104	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	45649	152329104	96921517	11	91420											
FLG2	388698	broad.mit.edu	37	chr1	152329376	152329376	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctatgtgactgacaagaacTtgaagcattttgtggccttc	10	14	9	8	0	1	4	0	3	1	1	2	4	1	4	1	1	2	1	1	1	4	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:152329376T>G	uc001ezw.3	-	3	959	c.886A>C	c.(886-888)AGT>CGT	p.S296R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	296	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGACAAGAACTTGAAGCATTT	0.473													43	451					0	0	0.01441	0	0		G	152329376	G	G	152329376	3	3	179	1	0	0	0	0	1	0	0	0	5937	1609	56	5	6293	5	FLG2	1	152329376	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	272	152329376	96921245	12	91421											
LCE1C	353133	broad.mit.edu	37	chr1	152777877	152777877	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactttgggggacactttggGgtggggcacttgggagggca	6	9	19	7	0	0	0	0	0	0	0	0	2	0	2	0	8	0	2	0	8	0	3	rs138242706		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:152777877G>C	uc001fap.1	-	2	129	c.78C>G	c.(76-78)ACC>ACG	p.T26T		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	26	Pro-rich.				keratinization						0	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	0.413													20	97					0	0	0.008871	0	0		C	152777877	C	C	152777877	2	2	179	1	0	0	0	0	0	0	0	1	8677	1219	43	5		5	LCE1C	1	152777877	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	448501	152777877	96472744	13	91422											
C1orf61	10485	broad.mit.edu	37	chr1	156377704	156377704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcaggacgcagaggcaccGttctgtacacctggtggaga	9	7	15	10	2	1	2	0	0	1	2	1	4	1	3	2	5	1	5	2	5	1	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:156377704G>A	uc001fou.1	-	5	352	c.235C>T	c.(235-237)CGG>TGG	p.R79W	C1orf61_uc001fot.1_5'Flank|C1orf61_uc001fov.1_RNA|C1orf61_uc001fow.1_Intron|C1orf61_uc001fox.1_Intron	NM_006365	NP_006356	Q13536	CROC4_HUMAN	transcriptional activator of the c-fos promoter	79						nucleus				skin(1)	1	Hepatocellular(266;0.158)					CAGAGGCACCGTTCTGTACAC	0.567													6	24					0	0	0.001168	0	0		A	156377704	A	A	156377704	3	1	179	1	0	0	0	0	1	0	0	0	2055	1144	40	1	247	1	C1orf61	1	156377704	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	3599827	156377704	92872917	14	91423											
CD1E	913	broad.mit.edu	37	chr1	158324317	158324317	+	Missense_Mutation	SNP	T	A	A	0	1	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	gactcatggctgggacactgTcttgggcaccatccgctttc	6	11	11	13	1	2	0	1	0	1	0	4	2	3	1	2	3	0	3	2	3	0	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:158324317T>A	uc001fse.2	+	2	448	c.209T>A	c.(208-210)GTC>GAC	p.V70D	CD1E_uc010pid.1_Missense_Mutation_p.V68D|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Missense_Mutation_p.V70D|CD1E_uc001fsk.2_Missense_Mutation_p.V70D|CD1E_uc001fsj.2_Missense_Mutation_p.V70D|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.V70D|CD1E_uc001fry.2_Missense_Mutation_p.V70D|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Missense_Mutation_p.V70D|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Missense_Mutation_p.V70D|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	70					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					TGGGACACTGTCTTGGGCACC	0.532													29	75					0	0	0.008361	0	0		A	158324317	A	A	158324317	3	1	179	1	0	0	0	0	1	0	0	0	2981	1667	58	5	215	5	CD1E	1	158324317	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	1946613	158324317	90926304	15	91424											
TNN	63923	broad.mit.edu	37	chr1	175048581	175048581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctggcctgccccggggcGtgcagcggccacgggcgttg	2	5	19	15	6	0	0	0	0	0	0	0	0	0	0	4	6	3	3	4	6	0	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:175048581G>A	uc001gkl.1	+	3	635	c.522G>A	c.(520-522)GCG>GCA	p.A174A	TNN_uc010pmx.1_Silent_p.A174A	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	174	EGF-like 1.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GCCCCGGGGCGTGCAGCGGCC	0.736													16	2					0	0	0.004007	0	0		A	175048581	A	A	175048581	2	1	179	1	0	0	0	0	0	0	0	1	16348	1132	40	1		1	TNN	1	175048581	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	16724264	175048581	74202040	16	91425											
CACNA1E	777	broad.mit.edu	37	chr1	181726082	181726082	+	Silent	SNP	T	C	C	0	1	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	gttctgcagcactctgtagaTgtgacagaggaagaccgagg	11	8	14	8	1	2	4	0	1	2	3	2	6	2	5	1	2	2	4	1	2	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:181726082T>C	uc001gow.2	+	30	4314	c.4149T>C	c.(4147-4149)GAT>GAC	p.D1383D	CACNA1E_uc009wxs.2_Silent_p.D1271D|CACNA1E_uc001gox.1_Silent_p.D609D|CACNA1E_uc009wxt.2_Silent_p.D609D	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1383	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						ACTCTGTAGATGTGACAGAGG	0.468													63	281					0	0	0.01441	0	0		C	181726082	C	C	181726082	2	2	179	1	0	0	0	0	0	0	0	1	2545	1461	51	3		3	CACNA1E	1	181726082	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	6677501	181726082	67524539	17	91426											
NMNAT2	23057	broad.mit.edu	37	chr1	183253135	183253135	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgcagtcccactcaccaatcTcttcataccgcatcaccgtg	9	9	5	18	3	4	0	3	0	1	0	6	0	5	0	4	0	1	2	4	0	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:183253135T>C	uc001gqc.1	-	7	904	c.569A>G	c.(568-570)GAG>GGG	p.E190G	NMNAT2_uc001gqb.1_Missense_Mutation_p.E185G|NMNAT2_uc001gqd.2_Missense_Mutation_p.E85G	NM_015039	NP_055854	Q9BZQ4	NMNA2_HUMAN	nicotinamide mononucleotide adenylyltransferase	190					water-soluble vitamin metabolic process	Golgi membrane|nucleus	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity			skin(1)	1						CTCACCAATCTCTTCATACCG	0.527													34	184					0	0	0.006999	0	0		C	183253135	C	C	183253135	3	2	179	1	0	0	0	0	1	0	0	0	10518	1551	54	3	374	3	NMNAT2	1	183253135	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	1527053	183253135	65997486	18	91427											
HMCN1	83872	broad.mit.edu	37	chr1	186024787	186024787	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaggaatgactgacaaaaaAtatgacttaagtgtccatgg	16	9	10	6	0	0	3	0	3	0	0	1	4	1	4	1	2	0	1	1	2	6	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:186024787A>C	uc001grq.1	+	45	7354	c.7125A>C	c.(7123-7125)AAA>AAC	p.K2375N		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2375	Ig-like C2-type 21.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CTGACAAAAAATATGACTTAA	0.423													25	137					0	0	0.00632	0	0		C	186024787	C	C	186024787	3	2	179	1	0	0	0	0	1	0	0	0	7236	98	4	5	7303	5	HMCN1	1	186024787	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2771652	186024787	63225834	19	91428											
HMCN1	83872	broad.mit.edu	37	chr1	186060048	186060048	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgaaacagaaagaatcCggtatgtttaaaaataatct	17	11	9	4	1	1	3	0	1	1	2	2	3	2	3	1	2	1	2	1	2	8	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:186060048C>T	uc001grq.1	+	64	10115	c.9886C>T	c.(9886-9888)CGA>TGA	p.R3296*		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3296	Ig-like C2-type 31.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGAAAGAATCCGGTATGTTTA	0.353													30	95					0	0	0.010818	0	0		T	186060048	T	T	186060048	4	4	179	1	0	0	0	0	0	1	0	0	7236	666	23	1	10140	1	HMCN1	1	186060048	Nonsense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	35261	186060048	63190573	20	91429											
KCNT2	343450	broad.mit.edu	37	chr1	196311337	196311337	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtacatcttctgccattgTtctggcgattgctggccttc	4	15	9	13	2	3	0	0	0	3	0	4	1	3	0	3	2	3	3	3	2	1	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:196311337T>G	uc001gtd.1	-	15	1485	c.1425A>C	c.(1423-1425)GAA>GAC	p.E475D	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Intron|KCNT2_uc001gtf.1_Missense_Mutation_p.E475D|KCNT2_uc001gtg.1_RNA|KCNT2_uc009wyu.2_Missense_Mutation_p.E475D|KCNT2_uc001gth.1_5'UTR	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	475	Cytoplasmic (Potential).|RCK N-terminal.					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						TCTGCCATTGTTCTGGCGATT	0.323													48	76					0	0	0.01441	0	0		G	196311337	G	G	196311337	3	3	179	1	0	0	0	0	1	0	0	0	8108	1722	60	5	2038	5	KCNT2	1	196311337	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	10251289	196311337	52939284	21	91430											
CFHR1	3078	broad.mit.edu	37	chr1	196796126	196796126	+	Missense_Mutation	SNP	A	T	T	1	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	ggtccacccctcccaaatgcAggtccactggtaagtacaat	11	8	8	14	0	0	0	0	0	0	0	3	0	3	0	5	3	2	3	5	3	4	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:196796126A>T	uc001gtn.2	+	3	535	c.421A>T	c.(421-423)AGG>TGG	p.R141W	CFHR1_uc001gtm.2_Intron	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	141	Sushi 2.				complement activation	extracellular space					0						TCCCAAATGCAGGTCCACTGG	0.373													19	135					0	0	0.012319	0	0		T	196796126	T	T	196796126	3	4	179	1	0	0	0	0	1	0	0	0	3287	179	7	5	431	5	CFHR1	1	196796126	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	484789	196796126	52454495	22	91431											
CFHR1	3078	broad.mit.edu	37	chr1	196797212	196797212	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctactcagacacttcctgtgTgaatccgcccacagtacaaa	12	9	6	14	1	1	2	1	1	0	1	3	2	3	2	3	0	2	1	3	0	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:196797212T>C	uc001gtn.2	+	4	557	c.443T>C	c.(442-444)GTG>GCG	p.V148A	CFHR1_uc001gtm.2_Missense_Mutation_p.V52A	NM_002113	NP_002104	Q03591	FHR1_HUMAN	complement factor H-related 1 precursor	148	Sushi 3.				complement activation	extracellular space					0						ACTTCCTGTGTGAATCCGCCC	0.383													39	47					0	0	0.011902	0	0		C	196797212	C	C	196797212	3	2	179	1	0	0	0	0	1	0	0	0	3287	1696	59	3	457	3	CFHR1	1	196797212	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	1086	196797212	52453409	23	91432											
CFHR2	3080	broad.mit.edu	37	chr1	196927034	196927034	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttagtttctgcagaaaaAtgtgggccccctccacctat	9	14	7	11	0	1	1	0	0	1	1	2	1	2	1	4	1	1	2	4	1	4	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:196927034A>C	uc001gtq.1	+	4	521	c.444A>C	c.(442-444)AAA>AAC	p.K148N	CFHR2_uc001gtr.1_Missense_Mutation_p.K24N	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	148	Sushi 3.					extracellular region				skin(2)|ovary(1)	3						CTGCAGAAAAATGTGGGCCCC	0.378													26	129					0	0	0.003954	0	0		C	196927034	C	C	196927034	3	2	179	1	0	0	0	0	1	0	0	0	3288	98	4	5	458	5	CFHR2	1	196927034	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	129822	196927034	52323587	24	91433											
ZBTB41	360023	broad.mit.edu	37	chr1	197159959	197159959	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtgcattttcaggatgaAatctatcagaggaaaagaaa	16	11	9	5	0	3	3	2	1	1	2	3	5	3	5	0	2	1	1	0	2	5	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:197159959A>T	uc001gtx.1	-	3	1400	c.1331T>A	c.(1330-1332)TTT>TAT	p.F444Y	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	444	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TTCAGGATGAAATCTATCAGA	0.274													17	26					0	0	0.007413	0	0		T	197159959	T	T	197159959	3	4	179	1	0	0	0	0	1	0	0	0	17568	14	1	5	1430	5	ZBTB41	1	197159959	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	232925	197159959	52090662	25	91434											
KIF14	9928	broad.mit.edu	37	chr1	200569554	200569554	+	Missense_Mutation	SNP	A	G	G	1	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	ggatgttatttcttgccgacAgagcctgtatcgttcagggt	7	14	12	8	2	2	1	1	0	1	1	3	3	2	2	2	2	2	3	2	2	2	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:200569554A>G	uc010ppk.1	-	12	2669	c.2230T>C	c.(2230-2232)TGT>CGT	p.C744R	KIF14_uc010ppj.1_Missense_Mutation_p.C253R	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	744	Potential.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						TCTTGCCGACAGAGCCTGTAT	0.393													115	144					0	0	0.01441	0	0		G	200569554	G	G	200569554	3	3	179	1	0	0	0	0	1	0	0	0	8292	188	7	3	2792	3	KIF14	1	200569554	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	3409595	200569554	48681067	26	91435											
PM20D1	148811	broad.mit.edu	37	chr1	205814505	205814505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccatagatgatgccatcaCgctccaacccagagaatggg	13	6	10	12	1	1	3	1	1	0	2	2	5	2	3	4	1	2	1	4	1	3	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:205814505C>T	uc001hdj.2	-	3	482	c.437G>A	c.(436-438)CGT>CAT	p.R146H	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	146						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			GATGCCATCACGCTCCAACCC	0.567													37	177					0	0	0.004878	0	0		T	205814505	T	T	205814505	3	4	179	1	0	0	0	0	1	0	0	0	12147	536	19	1	1115	1	PM20D1	1	205814505	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	5244951	205814505	43436116	27	91436											
USH2A	7399	broad.mit.edu	37	chr1	216369967	216369967	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgatgtcataccccacaacTtttcctcttgtaacattatc	10	16	3	12	0	2	1	1	1	1	0	4	1	3	1	3	0	3	1	3	0	4	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:216369967T>G	uc001hku.1	-	19	4566	c.4179A>C	c.(4177-4179)AAA>AAC	p.K1393N	USH2A_uc001hkv.2_Missense_Mutation_p.K1393N	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1393	Extracellular (Potential).|Fibronectin type-III 4.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		ACCCCACAACTTTTCCTCTTG	0.408										HNSCC(13;0.011)			27	112					0	0	0.00632	0	0		G	216369967	G	G	216369967	3	3	179	1	0	0	0	0	1	0	0	0	17062	1606	56	5	11659	5	USH2A	1	216369967	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	10555462	216369967	32880654	28	91437											
USH2A	7399	broad.mit.edu	37	chr1	216372990	216372990	+	Missense_Mutation	SNP	A	T	T	1	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	atttagttccgctggtggagAccattctacatgaagttctg	9	14	10	8	1	2	2	0	1	2	1	3	3	3	2	2	2	1	3	2	2	3	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:216372990A>T	uc001hku.1	-	17	4177	c.3790T>A	c.(3790-3792)TCT>ACT	p.S1264T	USH2A_uc001hkv.2_Missense_Mutation_p.S1264T	NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1264	Fibronectin type-III 3.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GCTGGTGGAGACCATTCTACA	0.438										HNSCC(13;0.011)			54	73					0	0	0.01441	0	0		T	216372990	T	T	216372990	3	4	179	1	0	0	0	0	1	0	0	0	17062	275	10	5	12056	5	USH2A	1	216372990	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	3023	216372990	32877631	29	91438											
TGFB2	7042	broad.mit.edu	37	chr1	218607762	218607762	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattacatcatcccaaataaAagtgaagaactagaagcaag	21	7	6	7	0	1	3	1	1	0	2	2	3	2	3	1	0	3	1	1	0	10	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:218607762A>C	uc001hlm.2	+	4	1379	c.726A>C	c.(724-726)AAA>AAC	p.K242N	TGFB2_uc001hln.2_Missense_Mutation_p.K270N|TGFB2_uc010pue.1_RNA|TGFB2_uc001hlo.2_RNA	NM_003238	NP_003229	P61812	TGFB2_HUMAN	transforming growth factor, beta 2 isoform 2	242					activation of protein kinase activity|angiogenesis|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cardioblast differentiation|catagen|cell cycle arrest|cell death|cell growth|cell-cell junction organization|cell-cell signaling|collagen fibril organization|dopamine biosynthetic process|embryonic digestive tract development|eye development|glial cell migration|hair follicle morphogenesis|hemopoiesis|menstrual cycle phase|negative regulation of alkaline phosphatase activity|negative regulation of cell growth|negative regulation of epithelial cell proliferation|negative regulation of immune response|negative regulation of macrophage cytokine production|neuron development|neutrophil chemotaxis|odontogenesis|pathway-restricted SMAD protein phosphorylation|platelet activation|platelet degranulation|positive regulation of cardioblast differentiation|positive regulation of catagen|positive regulation of cell adhesion mediated by integrin|positive regulation of cell cycle|positive regulation of cell division|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of epithelial cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of heart contraction|positive regulation of immune response|positive regulation of integrin biosynthetic process|positive regulation of neuron apoptosis|positive regulation of ossification|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein secretion|positive regulation of stress-activated MAPK cascade|regulation of transforming growth factor-beta2 production|response to hypoxia|response to progesterone stimulus|salivary gland morphogenesis|SMAD protein import into nucleus|somatic stem cell division|transforming growth factor beta receptor signaling pathway	axon|extracellular matrix|extracellular space|neuronal cell body|platelet alpha granule lumen	beta-amyloid binding|cytokine activity|growth factor activity|protein heterodimerization activity|protein homodimerization activity|receptor signaling protein serine/threonine kinase activity|type II transforming growth factor beta receptor binding				0				all cancers(67;0.0459)|OV - Ovarian serous cystadenocarcinoma(81;0.049)|GBM - Glioblastoma multiforme(131;0.0776)		TCCCAAATAAAAGTGAAGAAC	0.388													7	36					0	0	0.004482	0	0		C	218607762	C	C	218607762	3	2	179	1	0	0	0	0	1	0	0	0	15843	11	1	5	828	5	TGFB2	1	218607762	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2234772	218607762	30642859	30	91439											
RYR2	6262	broad.mit.edu	37	chr1	237666672	237666672	+	Missense_Mutation	SNP	T	C	C	0	1	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	tccttgttatgaagctgttcTgccaaaagaaaagttgaaag	14	12	9	6	0	1	3	0	2	1	1	2	3	2	3	2	0	2	4	2	0	7	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:237666672T>C	uc001hyl.1	+	22	2600	c.2480T>C	c.(2479-2481)CTG>CCG	p.L827P		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	827	Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GAAGCTGTTCTGCCAAAAGAA	0.488													18	73					0	0	0.007413	0	0		C	237666672	C	C	237666672	3	2	179	1	0	0	0	0	1	0	0	0	13794	1580	55	3	2566	3	RYR2	1	237666672	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	19058910	237666672	11583949	31	91440											
RYR2	6262	broad.mit.edu	37	chr1	237841399	237841399	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttatgaacaagaaatcaAgttctttgcaaaagtacagt	16	11	6	8	0	2	2	1	1	1	1	2	2	2	2	1	0	3	3	1	0	8	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:237841399A>C	uc001hyl.1	+	61	9002	c.8882A>C	c.(8881-8883)AAG>ACG	p.K2961T	RYR2_uc010pxz.1_Intron	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2961	Modulator (Potential).|Cytoplasmic (By similarity).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CAAGAAATCAAGTTCTTTGCA	0.363													13	26					0	0	0.00245	0	0		C	237841399	C	C	237841399	3	2	179	1	0	0	0	0	1	0	0	0	13794	72	3	5	9124	5	RYR2	1	237841399	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	174727	237841399	11409222	32	91441											
OR13G1	441933	broad.mit.edu	37	chr1	247836046	247836046	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccagagaccatgtgaacaAgaagagctgggacatgcagc	14	5	12	10	0	0	4	0	1	0	3	1	6	1	5	2	1	4	2	2	1	3	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:247836046A>C	uc001idi.1	-	1	298	c.298T>G	c.(298-300)TTG>GTG	p.L100V		NM_001005487	NP_001005487	Q8NGZ3	O13G1_HUMAN	olfactory receptor, family 13, subfamily G,	100	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	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)			CATGTGAACAAGAAGAGCTGG	0.463													16	43					0	0	0.004007	0	0		C	247836046	C	C	247836046	3	2	179	1	0	0	0	0	1	0	0	0	10961	69	3	5	629	5	OR13G1	1	247836046	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	9994647	247836046	1414575	33	91442											
OR2M4	26245	broad.mit.edu	37	chr1	248402431	248402431	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctcctcagtcaactgtcCcttatggacctcatgctcat	7	14	5	15	0	4	0	4	0	0	0	7	1	7	1	4	1	2	1	4	1	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr1:248402431C>T	uc010pzh.1	+	1	201	c.201C>T	c.(199-201)TCC>TCT	p.S67S		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GTCAACTGTCCCTTATGGACC	0.463													69	175					0	0	0.01441	0	0		T	248402431	T	T	248402431	2	4	179	1	0	0	0	0	0	0	0	1	11031	610	22	4		4	OR2M4	1	248402431	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	566385	248402431	848190	34	91443											
NRXN1	9378	broad.mit.edu	37	chr2	50724791	50724791	+	Silent	SNP	T	C	C	0	1	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	gaagaaagataccgtcgttcTgtgatgatgccagtctctat	11	12	10	8	2	2	4	0	2	2	2	4	5	2	4	2	0	2	1	2	0	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:50724791T>C	uc010fbq.2	-	14	4156	c.2679A>G	c.(2677-2679)ACA>ACG	p.T893T	NRXN1_uc002rxb.3_Silent_p.T525T|NRXN1_uc002rxe.3_Silent_p.T853T|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			ACCGTCGTTCTGTGATGATGC	0.408													32	64					0	0	0.004289	0	0		C	50724791	C	C	50724791	2	2	179	1	0	0	0	0	0	0	0	1	10684	1567	55	3		3	NRXN1	2	50724791	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08		50724791	192474582	35	91444											
CCT4	10575	broad.mit.edu	37	chr2	62106082	62106082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggtcgagacatgtcagtCaagatttcaatgcccttttc	11	12	8	10	1	3	2	3	0	0	2	5	3	3	2	1	1	1	0	1	1	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:62106082C>A	uc002sbo.2	-	5	593	c.444G>T	c.(442-444)TTG>TTT	p.L148F	CCT4_uc010ypp.1_Missense_Mutation_p.L92F|CCT4_uc010ypq.1_5'UTR|CCT4_uc010ypr.1_Missense_Mutation_p.L92F|CCT4_uc010yps.1_Missense_Mutation_p.L118F	NM_006430	NP_006421	P50991	TCPD_HUMAN	chaperonin containing TCP1, subunit 4 (delta)	148					'de novo' posttranslational protein folding	melanosome|microtubule organizing center|nucleus	ATP binding|unfolded protein binding			ovary(2)	2	Lung NSC(7;0.035)|all_lung(7;0.0691)		LUSC - Lung squamous cell carcinoma(7;6.5e-06)|Epithelial(17;0.0647)|all cancers(80;0.221)			ACATGTCAGTCAAGATTTCAA	0.398													20	21					1.28384e-07	1.39244e-07	0.012319	1	0		A	62106082	A	A	62106082	3	1	179	1	0	0	0	0	1	0	0	0	2958	825	29	5	1215	5	CCT4	2	62106082	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	11381291	62106082	181093291	36	91445											
MOGS	7841	broad.mit.edu	37	chr2	74689328	74689328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttcggaggaaagccaagtCgtcagggtcaccaacctcta	11	8	10	12	2	3	0	2	0	1	0	5	2	3	2	3	3	2	0	3	3	4	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:74689328C>T	uc010ffj.2	-	4	1751	c.1588G>A	c.(1588-1590)GAC>AAC	p.D530N	MOGS_uc010ffh.2_Missense_Mutation_p.D255N|MOGS_uc010yrt.1_Missense_Mutation_p.D411N|MOGS_uc010ffi.2_Missense_Mutation_p.D424N	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	530	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						AAAGCCAAGTCGTCAGGGTCA	0.597													40	69					0	0	0.00623	0	0		T	74689328	T	T	74689328	3	4	179	1	0	0	0	0	1	0	0	0	9715	884	31	1	929	1	MOGS	2	74689328	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	12583246	74689328	168510045	37	91446											
LIPT1	51601	broad.mit.edu	37	chr2	99778961	99778961	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctatcaccattgcactttaTtatgtagtactgatgggacg	10	14	8	9	1	1	1	1	1	0	0	1	2	1	2	2	1	2	3	2	1	5	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:99778961T>C	uc002szm.3	+	4	881	c.541T>C	c.(541-543)TTA>CTA	p.L181L	MRPL30_uc002szl.1_Intron|LIPT1_uc002szn.3_Silent_p.L181L|LIPT1_uc002szo.3_Silent_p.L181L|LIPT1_uc002szp.3_Silent_p.L181L|LIPT1_uc002szq.3_Silent_p.L181L|MRPL30_uc002szr.2_Intron	NM_145198	NP_660199	Q9Y234	LIPT_HUMAN	lipoyltransferase 1 precursor	181					lipid metabolic process|protein lipoylation	mitochondrion	acyltransferase activity				0					Lipoic Acid(DB00166)	TTGCACTTTATTATGTAGTAC	0.428													25	61					0	0	0.003954	0	0		C	99778961	C	C	99778961	2	2	179	1	0	0	0	0	0	0	0	1	8846	1490	52	3		3	LIPT1	2	99778961	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	25089633	99778961	143420412	38	91447											
ANAPC1	64682	broad.mit.edu	37	chr2	112608407	112608407	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggagtactaacgccatcTagtggagtactgggccgagg	9	10	14	8	2	1	0	0	0	1	0	1	3	1	2	2	4	3	2	2	4	4	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:112608407T>A	uc002thi.2	-	14	1843	c.1596A>T	c.(1594-1596)CTA>CTT	p.L532L		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	532					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						TAACGCCATCTAGTGGAGTAC	0.433													5	77					0	0	0.001168	0	0		A	112608407	A	A	112608407	2	1	179	1	0	0	0	0	0	0	0	1	598	1509	53	5		5	ANAPC1	2	112608407	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	12829446	112608407	130590966	39	91448											
CNTNAP5	129684	broad.mit.edu	37	chr2	125521689	125521689	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggagttttcctagaaaatcTtggcattaaagacttcattc	12	14	7	8	1	2	2	1	0	1	2	4	3	3	3	1	2	0	2	1	2	5	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:125521689T>G	uc002tno.2	+	16	2859	c.2495T>G	c.(2494-2496)CTT>CGT	p.L832R	CNTNAP5_uc010flu.2_Missense_Mutation_p.L833R	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	832	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CTAGAAAATCTTGGCATTAAA	0.343													49	94					0	0	0.01441	0	0		G	125521689	G	G	125521689	3	3	179	1	0	0	0	0	1	0	0	0	3653	1609	56	5	2557	5	CNTNAP5	2	125521689	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	12913282	125521689	117677684	40	91449											
NEB	4703	broad.mit.edu	37	chr2	152512437	152512437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcggtatttctgatcactgGcatattcagttgctttcttg	6	17	10	8	1	4	1	2	1	2	0	4	1	4	1	0	3	1	4	0	3	2	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:152512437G>A	uc010fnx.2	-	50	6787	c.6596C>T	c.(6595-6597)GCC>GTC	p.A2199V		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	2199	Nebulin 58.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTGATCACTGGCATATTCAGT	0.463													4	115					0	0	0.009096	0	0		A	152512437	A	A	152512437	3	1	179	1	0	0	0	0	1	0	0	0	10321	1203	42	2	19622	2	NEB	2	152512437	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	26990748	152512437	90686936	41	91450											
SCN7A	6332	broad.mit.edu	37	chr2	167284375	167284375	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctacaatcttgcagcaggTtttcctgatgttctgccaga	8	14	8	11	0	3	2	0	1	3	1	4	2	4	2	2	1	4	4	2	1	2	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:167284375T>G	uc002udu.1	-	17	2903	c.2776A>C	c.(2776-2778)ACC>CCC	p.T926P	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	926					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TTGCAGCAGGTTTTCCTGATG	0.448													15	37					0	0	0.00245	0	0		G	167284375	G	G	167284375	3	3	179	1	0	0	0	0	1	0	0	0	13948	1725	60	5	2308	5	SCN7A	2	167284375	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	14771938	167284375	75914998	42	91451											
SCN7A	6332	broad.mit.edu	37	chr2	167297957	167297957	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaaaggaatacaccaggaTtggcctgcaacctccataca	16	7	7	11	0	0	0	0	0	0	0	1	2	1	2	4	3	4	1	4	3	7	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:167297957T>G	uc002udu.1	-	14	2233	c.2106A>C	c.(2104-2106)CAA>CAC	p.Q702H	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	702					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TACACCAGGATTGGCCTGCAA	0.413													18	22					0	0	0.007413	0	0		G	167297957	G	G	167297957	3	3	179	1	0	0	0	0	1	0	0	0	13948	1490	52	5	2990	5	SCN7A	2	167297957	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	13582	167297957	75901416	43	91452											
SCN7A	6332	broad.mit.edu	37	chr2	167300144	167300144	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccatatggatgcattgcaaTtattttaaaaatcatttctg	13	16	5	7	0	2	0	1	0	1	0	2	1	2	1	1	1	2	2	1	1	6	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:167300144T>G	uc002udu.1	-	13	1796	c.1669A>C	c.(1669-1671)ATT>CTT	p.I557L	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	557	Helical; Name=S2 of repeat II; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TGCATTGCAATTATTTTAAAA	0.318													2	4					0	0	0.004672	0	0		G	167300144	G	G	167300144	3	3	179	1	0	0	0	0	1	0	0	0	13948	1493	52	5	3431	5	SCN7A	2	167300144	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2187	167300144	75899229	44	91453											
XIRP2	129446	broad.mit.edu	37	chr2	168101280	168101280	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cataagggagatgtcaaaacTtgtacttggctctttgaaac	13	12	9	7	0	2	2	1	1	1	1	2	3	2	2	0	2	3	2	0	2	5	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:168101280T>C	uc002udx.2	+	8	3396	c.3378T>C	c.(3376-3378)ACT>ACC	p.T1126T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.T951T|XIRP2_uc010fpq.2_Silent_p.T904T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	951	Xin 17.				actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ATGTCAAAACTTGTACTTGGC	0.398													19	29					0	0	0.008871	0	0		C	168101280	C	C	168101280	2	2	179	1	0	0	0	0	0	0	0	1	17456	1596	56	3		3	XIRP2	2	168101280	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	801136	168101280	75098093	45	91454											
ABCB11	8647	broad.mit.edu	37	chr2	169780314	169780314	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaccctctctggctttgtCtagagcaacctgcaccgtct	6	11	8	16	2	3	1	0	0	3	1	4	2	3	1	4	1	3	3	4	1	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:169780314C>A	uc002ueo.1	-	28	3910	c.3784G>T	c.(3784-3786)GAC>TAC	p.D1262Y	ABCB11_uc010zda.1_Missense_Mutation_p.D680Y|ABCB11_uc010zdb.1_Missense_Mutation_p.D738Y	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	1262	Cytoplasmic (Potential).|ABC transporter 2.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	CTGGCTTTGTCTAGAGCAACC	0.517													20	38					1.28384e-07	1.39244e-07	0.012319	1	0		A	169780314	A	A	169780314	3	1	179	1	0	0	0	0	1	0	0	0	42	913	32	5	185	5	ABCB11	2	169780314	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	1679034	169780314	73419059	46	91455											
EVX2	344191	broad.mit.edu	37	chr2	176945351	176945351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcgacgaagccgcggcCgccgcgcctgaggctgcagc	7	2	17	15	7	0	1	0	1	0	0	0	3	0	1	4	3	3	2	4	3	2	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:176945351C>T	uc010zeu.1	-	3	1101	c.915G>A	c.(913-915)GCG>GCA	p.A305A		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	305	Poly-Ala.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		AAgccgcggccgccgcgcctg	0.507													11	11					0	0	0.010729	0	0		T	176945351	T	T	176945351	2	4	179	1	0	0	0	0	0	0	0	1	5303	639	23	1		1	EVX2	2	176945351	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	7165037	176945351	66254022	47	91456											
TTN	7273	broad.mit.edu	37	chr2	179391989	179391989	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctgttagaactttgccttcaTcaatgctgatatcagatgga	11	14	8	8	0	3	3	3	1	0	2	3	4	3	4	1	1	3	2	1	1	4	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179391989T>A	uc010zfg.1	-	312	100246	c.100022A>T	c.(100021-100023)GAT>GTT	p.D33341V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D27036V|TTN_uc010zfi.1_Missense_Mutation_p.D26969V|TTN_uc010zfj.1_Missense_Mutation_p.D26844V|TTN_uc002umq.2_Missense_Mutation_p.D257V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34268							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTGCCTTCATCAATGCTGAT	0.398													12	25					0	0	0.013537	0	0		A	179391989	A	A	179391989	3	1	179	1	0	0	0	0	1	0	0	0	16761	1435	50	5	253	5	TTN	2	179391989	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2446638	179391989	63807384	48	91457											
TTN	7273	broad.mit.edu	37	chr2	179466402	179466402	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacccatgactttaactctgCaatttgcagtcttttgtcct	8	17	5	11	0	2	1	0	1	2	0	3	1	3	1	2	0	4	2	2	0	3	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179466402C>A	uc010zfg.1	-	235	47935	c.47711G>T	c.(47710-47712)TGC>TTC	p.C15904F	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.C9599F|TTN_uc010zfi.1_Missense_Mutation_p.C9532F|TTN_uc010zfj.1_Missense_Mutation_p.C9407F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16831							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTAACTCTGCAATTTGCAGT	0.333													35	110					3.3946e-10	3.74973e-10	0.005524	1	0		A	179466402	A	A	179466402	3	1	179	1	0	0	0	0	1	0	0	0	16761	710	25	5	52586	5	TTN	2	179466402	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	74413	179466402	63732971	49	91458											
TTN	7273	broad.mit.edu	37	chr2	179500379	179500379	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctatatcacaggcaaaaataGctgtccccttgggtttcaca	12	11	7	11	0	2	0	2	0	0	0	3	0	3	0	2	2	1	3	2	2	5	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179500379G>T	uc010zfg.1	-	176	34192	c.33968C>A	c.(33967-33969)GCT>GAT	p.A11323D	TTN_uc010zfh.1_Missense_Mutation_p.A5018D|TTN_uc010zfi.1_Missense_Mutation_p.A4951D|TTN_uc010zfj.1_Missense_Mutation_p.A4826D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12250							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGCAAAAATAGCTGTCCCCTT	0.373													9	10					1.58986e-06	1.71916e-06	0.008291	1	0		T	179500379	T	T	179500379	3	4	179	1	0	0	0	0	1	0	0	0	16761	971	34	5	66565	5	TTN	2	179500379	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	33977	179500379	63698994	50	91459											
TTN	7273	broad.mit.edu	37	chr2	179522877	179522877	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgcggcttcttgaggaacTtctggcacttgaaagatatt	9	14	10	8	1	3	3	0	2	3	1	3	4	3	4	0	3	2	2	0	3	3	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179522877T>G	uc010zfk.1	-	29	2543	c.1995A>C	c.(1993-1995)GAA>GAC	p.E665D	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron			Q8WZ42	TITIN_HUMAN	SubName: Full=Titin; Flags: Fragment;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTGAGGAACTTCTGGCACTT	0.413													29	59					0	0	0.013726	0	0		G	179522877	G	G	179522877	3	3	179	1	0	0	0	0	1	0	0	0	16761	1624	56	5		5	TTN	2	179522877	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	22498	179522877	63676496	51	91460											
TTN	7273	broad.mit.edu	37	chr2	179583663	179583663	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggctcattccaggcaaaacTtccacagaatcaggggtttg	12	9	10	10	0	2	1	2	0	0	1	4	1	4	1	2	4	1	3	2	4	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179583663T>G	uc010zfg.1	-	81	20756	c.20532A>C	c.(20530-20532)GAA>GAC	p.E6844D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E3505D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7771							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGGCAAAACTTCCACAGAAT	0.478													9	15					0	0	0.006214	0	0		G	179583663	G	G	179583663	3	3	179	1	0	0	0	0	1	0	0	0	16761	1606	56	5	80381	5	TTN	2	179583663	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	60786	179583663	63615710	52	91461											
TTN	7273	broad.mit.edu	37	chr2	179595679	179595679	+	Missense_Mutation	SNP	T	G	G	0	1	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	attaattctagccttgcagcTgctcctcccaacatcatttt	9	15	4	13	0	2	0	1	0	1	0	4	0	4	0	3	0	5	3	3	0	3	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179595679T>G	uc010zfg.1	-	57	14205	c.13981A>C	c.(13981-13983)AGC>CGC	p.S4661R	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S1322R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5588							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCCTTGCAGCTGCTCCTCCCA	0.363													100	205					0	0	0.01441	0	0		G	179595679	G	G	179595679	3	3	179	1	0	0	0	0	1	0	0	0	16761	1580	55	5	87028	5	TTN	2	179595679	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	12016	179595679	63603694	53	91462											
TTN	7273	broad.mit.edu	37	chr2	179604391	179604391	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagatatttagattcaacTtctggttcagtaatgggttc	11	16	8	6	0	4	2	3	0	1	2	5	2	4	2	0	2	1	3	0	2	4	8			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179604391T>C	uc010zfh.1	-	46	13280	c.13056A>G	c.(13054-13056)GAA>GAG	p.E4352E	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.E4285E|TTN_uc010zfj.1_Silent_p.E4160E|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	4278							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGATTCAACTTCTGGTTCAG	0.398													52	100					0	0	0.01441	0	0		C	179604391	C	C	179604391	2	2	179	1	0	0	0	0	0	0	0	1	16761	1606	56	3		3	TTN	2	179604391	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	8712	179604391	63594982	54	91463											
TTN	7273	broad.mit.edu	37	chr2	179640745	179640745	+	Missense_Mutation	SNP	A	C	C																															ttcctggttcatgtacgtgaAactcaggccttggttcagga																										TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179640745A>C	uc010zfg.1	-	28	6070	c.5846T>G	c.(5845-5847)TTT>TGT	p.F1949C	TTN_uc010zfh.1_Missense_Mutation_p.F1903C|TTN_uc010zfi.1_Missense_Mutation_p.F1903C|TTN_uc010zfj.1_Missense_Mutation_p.F1903C|TTN_uc002unb.2_Missense_Mutation_p.F1949C|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1949							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGTACGTGAAACTCAGGCCT	0.428													92	171					0	0	0.01441	0	0		C	179640745	C	C	179640745	3	2	179	1	0	0	0	0	1	0	0	0	16761	14	1	5	105482	5	TTN	2	179640745	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	36354	179640745	63558628	55	91464	169	2									
TTN	7273	broad.mit.edu	37	chr2	179640748	179640748	+	Missense_Mutation	SNP	T	G	G																															ctggttcatgtacgtgaaacTcaggccttggttcaggagct																										TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179640748T>G	uc010zfg.1	-	28	6067	c.5843A>C	c.(5842-5844)GAG>GCG	p.E1948A	TTN_uc010zfh.1_Missense_Mutation_p.E1902A|TTN_uc010zfi.1_Missense_Mutation_p.E1902A|TTN_uc010zfj.1_Missense_Mutation_p.E1902A|TTN_uc002unb.2_Missense_Mutation_p.E1948A|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1948							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACGTGAAACTCAGGCCTTGG	0.423													92	174					0	0	0.01441	0	0		G	179640748	G	G	179640748	3	3	179	1	0	0	0	0	1	0	0	0	16761	1551	54	5	105485	5	TTN	2	179640748	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	3	179640748	63558625	56	91465	169	2									
TTN	7273	broad.mit.edu	37	chr2	179643981	179643981	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaatggatatccagacatcTtgcaatgaaaagtgacaccc	15	9	8	9	0	1	3	0	2	1	1	2	4	2	4	2	1	1	2	2	1	5	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:179643981T>C	uc010zfg.1	-	23	4162	c.3938A>G	c.(3937-3939)AAG>AGG	p.K1313R	TTN_uc010zfh.1_Missense_Mutation_p.K1267R|TTN_uc010zfi.1_Missense_Mutation_p.K1267R|TTN_uc010zfj.1_Missense_Mutation_p.K1267R|TTN_uc002unb.2_Missense_Mutation_p.K1313R|uc002unc.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1313							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCAGACATCTTGCAATGAAA	0.328													31	52					0	0	0.003271	0	0		C	179643981	C	C	179643981	3	2	179	1	0	0	0	0	1	0	0	0	16761	1609	56	3	107410	3	TTN	2	179643981	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	3233	179643981	63555392	57	91466											
MAP2	4133	broad.mit.edu	37	chr2	210561456	210561456	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacagtctccagagatgaAgtgagaaggaaaaaaggttc	17	6	12	6	0	1	3	0	2	1	2	3	6	1	4	1	2	1	2	1	2	5	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:210561456A>C	uc002vde.1	+	8	4619	c.4371A>C	c.(4369-4371)GAA>GAC	p.E1457D	MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.E1453D	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1457	Calmodulin-binding (Potential).				central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	CCAGAGATGAAGTGAGAAGGA	0.343													22	33					0	0	0.00278	0	0		C	210561456	C	C	210561456	3	2	179	1	0	0	0	0	1	0	0	0	9253	69	3	5	4389	5	MAP2	2	210561456	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	30917475	210561456	32637917	58	91467											
ABCA12	26154	broad.mit.edu	37	chr2	215797379	215797379	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taagactccatctggtcatcTtgtgagtcaacacttatagt	11	14	7	9	0	4	2	2	1	2	1	5	2	5	2	1	1	1	0	1	1	4	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:215797379T>C	uc002vew.2	-	53	7987	c.7767A>G	c.(7765-7767)CAA>CAG	p.Q2589Q	ABCA12_uc002vev.2_Silent_p.Q2271Q|ABCA12_uc010zjn.1_Silent_p.Q1516Q	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2589					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TCTGGTCATCTTGTGAGTCAA	0.433													16	20					0	0	0.004007	0	0		C	215797379	C	C	215797379	2	2	179	1	0	0	0	0	0	0	0	1	30	1606	56	3		3	ABCA12	2	215797379	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	5235923	215797379	27401994	59	91468											
ABCA12	26154	broad.mit.edu	37	chr2	215840651	215840651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggataacctgagcaatgaGacctttccagttcctgcggg	10	9	12	10	1	0	2	0	2	0	1	2	5	2	3	4	2	3	2	4	2	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:215840651G>A	uc002vew.2	-	34	5459	c.5239C>T	c.(5239-5241)CTC>TTC	p.L1747F	ABCA12_uc002vev.2_Missense_Mutation_p.L1429F|ABCA12_uc010zjn.1_Missense_Mutation_p.L674F	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1747	Helical; (Potential).				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		TGAGCAATGAGACCTTTCCAG	0.498													18	51					0	0	0.007413	0	0		A	215840651	A	A	215840651	3	1	179	1	0	0	0	0	1	0	0	0	30	942	33	4	2628	4	ABCA12	2	215840651	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	43272	215840651	27358722	60	91469											
ACSL3	2181	broad.mit.edu	37	chr2	223773616	223773616	+	Nonsense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaacatacattccgttttaTtttttctccgagtcaagaca	11	17	4	9	2	2	1	1	0	1	1	4	2	3	1	2	0	2	1	2	0	4	8			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:223773616T>G	uc002vni.2	+	4	577	c.126T>G	c.(124-126)TAT>TAG	p.Y42*	ACSL3_uc002vnj.2_Nonsense_Mutation_p.Y42*	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3	42	Cytoplasmic (Potential).				long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	TTCCGTTTTATTTTTTCTCCG	0.294			T	ETV1	prostate								33	104					0	0	0.003271	0	0		G	223773616	G	G	223773616	4	3	179	1	0	0	0	0	0	1	0	0	178	1500	52	5	128	5	ACSL3	2	223773616	Nonsense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	7932965	223773616	19425757	61	91470											
DOCK10	55619	broad.mit.edu	37	chr2	225796292	225796292	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcatcactggggaagaacaAgagatcttgaagaggatcat	15	8	12	6	0	4	4	3	1	1	3	4	7	4	6	0	3	1	0	0	3	4	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:225796292A>C	uc010fwz.1	-	2	456	c.217T>G	c.(217-219)TTG>GTG	p.L73V	DOCK10_uc002vob.2_Missense_Mutation_p.L67V|DOCK10_uc002vod.1_Missense_Mutation_p.L73V	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	73							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		GGGAAGAACAAGAGATCTTGA	0.433													7	18					0	0	0.004482	0	0		C	225796292	C	C	225796292	3	2	179	1	0	0	0	0	1	0	0	0	4691	69	3	5	6563	5	DOCK10	2	225796292	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2022676	225796292	17403081	62	91471											
PID1	55022	broad.mit.edu	37	chr2	229890475	229890475	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatggcgtgggccagtttcTtggcctcgagcttgctctcg	3	13	13	12	3	3	0	1	0	2	0	5	1	3	0	2	3	2	3	2	3	0	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:229890475T>C	uc002vpr.3	-	3	664	c.626A>G	c.(625-627)AAG>AGG	p.K209R	PID1_uc002vps.3_Missense_Mutation_p.K207R|PID1_uc002vpt.3_Missense_Mutation_p.K176R|PID1_uc002vpu.3_Missense_Mutation_p.K127R	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	209	PID.					cytoplasm				breast(3)|skin(1)	4		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)		GGCCAGTTTCTTGGCCTCGAG	0.577													33	79					0	0	0.004289	0	0		C	229890475	C	C	229890475	3	2	179	1	0	0	0	0	1	0	0	0	11901	1609	56	3	130	3	PID1	2	229890475	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	4094183	229890475	13308898	63	91472											
DNAJB3	414061	broad.mit.edu	37	chr2	234652384	234652384	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtcatagatatcgcgtttcTtggcgtccgacaacacctcg	8	11	10	12	5	2	1	1	0	1	1	5	2	3	1	2	2	1	1	2	2	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr2:234652384T>A	uc002vuz.2	-	1	278	c.179A>T	c.(178-180)AAG>ATG	p.K60M	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron	NM_001001394	NP_001001394	Q8WWF6	DNJB3_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 3	60	J.				protein folding		heat shock protein binding|unfolded protein binding				0						ATCGCGTTTCTTGGCGTCCGA	0.622													106	168					0	0	0.01441	0	0		A	234652384	A	A	234652384	3	1	179	1	0	0	0	0	1	0	0	0	4627	1609	56	5	262	5	DNAJB3	2	234652384	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	4761909	234652384	8546989	64	91473											
LRRN1	57633	broad.mit.edu	37	chr3	3886560	3886560	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgacacacaagtgcttctcTtacagagcaataacatcgca	14	9	7	11	1	1	2	0	1	1	1	3	2	1	2	0	0	4	3	0	0	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:3886560T>C	uc003bpt.3	+	2	996	c.235T>C	c.(235-237)TTA>CTA	p.L79L	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	79	Extracellular (Potential).|LRR 1.					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		AGTGCTTCTCTTACAGAGCAA	0.433													29	110					0	0	0.009535	0	0		C	3886560	C	C	3886560	2	2	179	1	0	0	0	0	0	0	0	1	9052	1606	56	3		3	LRRN1	3	3886560	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08		3886560	194135870	65	91474											
LRRC3B	116135	broad.mit.edu	37	chr3	26751365	26751365	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttcctcctgaaacagtcTtactgtatctggactccaat	10	14	5	12	0	3	1	0	1	3	0	6	2	6	2	3	1	2	1	3	1	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:26751365T>G	uc003cdp.2	+	2	791	c.202T>G	c.(202-204)TTA>GTA	p.L68V	LRRC3B_uc003cdq.2_Missense_Mutation_p.L68V	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	68	LRR 1.					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						TGAAACAGTCTTACTGTATCT	0.418													22	75					0	0	0.012319	0	0		G	26751365	G	G	26751365	3	3	179	1	0	0	0	0	1	0	0	0	9014	1606	56	5	204	5	LRRC3B	3	26751365	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	22864805	26751365	171271065	66	91475											
GOLGA4	2803	broad.mit.edu	37	chr3	37365440	37365440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagcaaacagaactagaatCattatcttctgaactgtcag	16	10	7	8	0	4	3	2	1	2	2	4	4	4	3	0	0	4	1	0	0	7	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:37365440C>T	uc003cgv.2	+	14	2367	c.2063C>T	c.(2062-2064)TCA>TTA	p.S688L	GOLGA4_uc010hgr.1_Missense_Mutation_p.S249L|GOLGA4_uc003cgw.2_Missense_Mutation_p.S710L|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.S569L	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	688	Potential.|Glu-rich.				Golgi to plasma membrane protein transport	Golgi membrane|trans-Golgi network	protein binding			ovary(2)|breast(1)|central_nervous_system(1)	4						GAACTAGAATCATTATCTTCT	0.343													15	53					0	0	0.003163	0	0		T	37365440	T	T	37365440	3	4	179	1	0	0	0	0	1	0	0	0	6570	838	29	4	2187	4	GOLGA4	3	37365440	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	10614075	37365440	160656990	67	91476											
CTNNB1	1499	broad.mit.edu	37	chr3	41266113	41266113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctggactctggaatccattCtggtgccactaccacagctc	8	10	8	15	0	2	0	0	0	2	0	4	2	3	2	4	3	3	1	4	3	2	2	rs121913403		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:41266113C>T	uc010hia.1	+	4	266	c.110C>T	c.(109-111)TCT>TTT	p.S37F	CTNNB1_uc003ckp.2_Missense_Mutation_p.S37F|CTNNB1_uc003ckq.2_Missense_Mutation_p.S37F|CTNNB1_uc003ckr.2_Missense_Mutation_p.S37F|CTNNB1_uc011azf.1_Missense_Mutation_p.S30F|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	37			S -> C (in PTR, hepatoblastoma and ovarian cancer).|SG -> W (in hepatocellular carcinoma).|S -> F (in PTR).|S -> A (in MDB and hepatocellular carcinoma; enhances transactivation of target genes).|S -> Y (in hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.S37F(147)|p.S37C(124)|p.A5_A80del(63)|p.S37A(59)|p.S37Y(23)|p.S37P(16)|p.H24_S47del(9)|p.A5_A80>D(7)|p.A5_Q143del(7)|p.Q28_H134del(5)|p.W25_I140del(4)|p.V22_G38del(3)|p.T3_A126del(2)|p.M5_N141>D(2)|p.D32_S47del(2)|p.V22_L139>V(2)|p.A5_Y142>D(2)|p.A5fs*7(2)|p.?(2)|p.L10_N141del(2)|p.D6_A43del(1)|p.E9_S47del(1)|p.Q28_Q61del(1)|p.A20_R151del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.H24_G38del(1)|p.Y30_A97del(1)|p.A20_A80del(1)|p.Q28_A43del(1)|p.E15_I140>V(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.A20_L148del(1)|p.V22_A80del(1)|p.V22_G80>NNNNN(1)|p.GIHS34?(1)|p.A20_Q143del(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.M1_A87del(1)|p.V22_T102del(1)|p.S23_A39del(1)|p.A21_A80del(1)|p.P16_K133del(1)|p.D6_I140del(1)|p.Q28_I140del(1)|p.E9_A80del(1)|p.G34_S37del(1)|p.I35_S37>T(1)|p.I35_K170del(1)|p.M14_S45del(1)|p.M8_G50del(1)|p.A5_G80>(1)|p.S37S(1)|p.S37T(1)|p.V22_S71>A(1)|p.A5_T59del(1)|p.M1_V173del(1)|p.A5_R90del(1)|p.V22_Y64del(1)|p.M8_A80del(1)|p.S33_S37del(1)|p.E9_I140del(1)|p.Y30_T40del(1)|p.M1_T42del(1)|p.S37_G38>W(1)|p.A5_Q143>E(1)|p.I35_G38del(1)|p.H36_E53>L(1)|p.A5_Q72del(1)|p.Y30_A80del(1)|p.D32fs*9(1)|p.S37_A39>S(1)|p.D6_K133del(1)|p.A5_T42del(1)|p.A5_D144>D(1)|p.A5_T40del(1)|p.D17_A126del(1)|p.A5_E54del(1)|p.I35_T41del(1)|p.W25_A80del(1)|p.A20_Q72del(1)|p.A20_S111del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GGAATCCATTCTGGTGCCACT	0.498	S37F(HUTU80_SMALL_INTESTINE)|S37C(SNU398_LIVER)|S37C(JHUEM2_ENDOMETRIUM)	15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				15	70					0	0	0.004007	0	0		T	41266113	T	T	41266113	3	4	179	1	0	0	0	0	1	0	0	0	4019	913	32	4	116	4	CTNNB1	3	41266113	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	3900673	41266113	156756317	68	91477											
CTNNB1	1499	broad.mit.edu	37	chr3	41268778	41268778	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttacgaaaaactactgtggaCcacaagcagagtgctgaagg	15	7	11	8	1	0	2	0	1	0	1	0	4	0	3	1	2	5	2	1	2	6	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:41268778C>A	uc010hia.1	+	8	1172	c.1016C>A	c.(1015-1017)ACC>AAC	p.T339N	CTNNB1_uc003ckp.2_Missense_Mutation_p.T339N|CTNNB1_uc003ckq.2_Missense_Mutation_p.T339N|CTNNB1_uc003ckr.2_Missense_Mutation_p.T339N|CTNNB1_uc011azf.1_Missense_Mutation_p.T332N|CTNNB1_uc011azg.1_Missense_Mutation_p.T267N|uc010hib.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	339	ARM 5.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	CTACTGTGGACCACAAGCAGA	0.383		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				17	129					6.49762e-13	7.26681e-13	0.006122	1	0		A	41268778	A	A	41268778	3	1	179	1	0	0	0	0	1	0	0	0	4019	507	18	5	1038	5	CTNNB1	3	41268778	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	2665	41268778	156753652	69	91478											
RAD54L2	23132	broad.mit.edu	37	chr3	51673938	51673938	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccagactggagtcctagaAaactctcccaagatggtact	13	9	8	11	0	1	3	0	0	1	3	3	4	2	4	3	2	3	1	3	2	6	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:51673938A>C	uc011bdt.1	+	13	2279	c.2154A>C	c.(2152-2154)GAA>GAC	p.E718D	RAD54L2_uc003dbh.2_Missense_Mutation_p.E309D|RAD54L2_uc011bdu.1_Missense_Mutation_p.E412D|RAD54L2_uc003dbj.2_Missense_Mutation_p.E44D	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	718						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GAGTCCTAGAAAACTCTCCCA	0.453													6	17					0	0	0.001984	0	0		C	51673938	C	C	51673938	3	2	179	1	0	0	0	0	1	0	0	0	13019	11	1	5	2200	5	RAD54L2	3	51673938	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	10405160	51673938	146348492	70	91479											
OR5H14	403273	broad.mit.edu	37	chr3	97868690	97868690	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcatatgtaggtggtcttcTtcatgctttaatccatgaag	9	16	9	7	0	4	1	2	1	2	0	5	1	5	1	1	2	1	2	1	2	4	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:97868690T>G	uc003dsg.1	+	1	461	c.461T>G	c.(460-462)CTT>CGT	p.L154R		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GGTGGTCTTCTTCATGCTTTA	0.368													6	211					0	0	0.001984	0	0		G	97868690	G	G	97868690	3	3	179	1	0	0	0	0	1	0	0	0	11179	1609	56	5	463	5	OR5H14	3	97868690	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	46194752	97868690	100153740	71	91480											
ZXDC	79364	broad.mit.edu	37	chr3	126194495	126194495	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccaagaaagagtcgcCgtcgctgtcgtcctcggcgg	8	6	13	14	6	0	2	0	0	0	2	5	2	1	2	3	2	1	2	3	2	2	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:126194495C>G	uc003eiv.2	-	1	268	c.214G>C	c.(214-216)GGC>CGC	p.G72R	ZXDC_uc010hsh.2_RNA|ZXDC_uc003eix.2_Missense_Mutation_p.G72R	NM_025112	NP_079388	Q2QGD7	ZXDC_HUMAN	ZXD family zinc finger C isoform 1	72					positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|LRR domain binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.155)		AAAGAGTCGCCGTCGCTGTCG	0.478													7	15					0	0	0.006214	0	0		G	126194495	G	G	126194495	3	3	179	1	0	0	0	0	1	0	0	0	18277	652	23	5	2408	5	ZXDC	3	126194495	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	28325805	126194495	71827935	72	91481											
CCRL1	51554	broad.mit.edu	37	chr3	132319585	132319585	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaataatgtgcaaaataaCttcagccttgtacacactaa	18	10	5	8	0	1	0	1	0	0	0	1	1	1	0	1	0	4	2	1	0	8	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:132319585C>T	uc003eow.2	+	2	427	c.344C>T	c.(343-345)ACT>ATT	p.T115I	ACAD11_uc003eov.3_Intron|ACAD11_uc011blr.1_Intron|CCRL1_uc003eox.2_Missense_Mutation_p.T115I	NM_016557	NP_057641	Q9NPB9	CCRL1_HUMAN	chemokine (C-C motif) receptor-like 1	115	Helical; Name=3; (Potential).				chemotaxis|immune response	integral to plasma membrane	C-C chemokine receptor activity				0						TGCAAAATAACTTCAGCCTTG	0.408													29	176					0	0	0.007835	0	0		T	132319585	T	T	132319585	3	4	179	1	0	0	0	0	1	0	0	0	2952	565	20	4	346	4	CCRL1	3	132319585	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	6125090	132319585	65702845	73	91482											
CLSTN2	64084	broad.mit.edu	37	chr3	140281094	140281094	+	Missense_Mutation	SNP	A	C	C	1	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	cttggagctcaaccacagtgAgctccaccaacgacacctgg	11	6	9	15	1	1	1	1	1	0	0	2	3	2	2	4	2	4	2	4	2	2	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:140281094A>C	uc003etn.2	+	13	2346	c.2156A>C	c.(2155-2157)GAG>GCG	p.E719A		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	719	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						AACCACAGTGAGCTCCACCAA	0.517										HNSCC(16;0.037)			16	41					0	0	0.004007	0	0		C	140281094	C	C	140281094	3	2	179	1	0	0	0	0	1	0	0	0	3565	304	11	5	2206	5	CLSTN2	3	140281094	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	7961509	140281094	57741336	74	91483											
SI	6476	broad.mit.edu	37	chr3	164758792	164758792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttataaaacagagtgtagaGgaagggtaataaggtgtagc	16	10	13	2	0	0	2	0	0	0	2	0	3	0	3	0	3	2	3	0	3	8	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:164758792G>A	uc003fei.2	-	18	2157	c.2095C>T	c.(2095-2097)CTC>TTC	p.L699F		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	699	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	AGAGTGTAGAGGAAGGGTAAT	0.363										HNSCC(35;0.089)			42	102					0	0	0.011902	0	0		A	164758792	A	A	164758792	3	1	179	1	0	0	0	0	1	0	0	0	14322	1000	35	4	3512	4	SI	3	164758792	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	24477698	164758792	33263638	75	91484											
WDR49	151790	broad.mit.edu	37	chr3	167240189	167240189	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctccttagaaaataaagaAatttccttttgaatctcact	14	15	3	9	0	1	3	1	1	1	2	5	3	4	3	3	0	0	0	3	0	7	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:167240189A>C	uc003fev.1	-	12	1938	c.1632T>G	c.(1630-1632)ATT>ATG	p.I544M	WDR49_uc003feu.1_Missense_Mutation_p.I369M|WDR49_uc011bpd.1_Intron|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	544										large_intestine(1)|ovary(1)|skin(1)	3						AAAATAAAGAAATTTCCTTTT	0.313													28	44					0	0	0.007291	0	0		C	167240189	C	C	167240189	3	2	179	1	0	0	0	0	1	0	0	0	17328	10	1	5	477	5	WDR49	3	167240189	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2481397	167240189	30782241	76	91485											
MUC4	4585	broad.mit.edu	37	chr3	195515821	195515821	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccctgcagtggaggcctcaGagagggtgggatgaaaggtg	9	7	18	7	0	1	2	1	1	0	1	2	5	2	4	2	5	1	1	2	5	1	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr3:195515821G>C	uc011bto.1	-	2	3090	c.2630C>G	c.(2629-2631)TCT>TGT	p.S877C	MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.S759C	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	882	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGAGGCCTCAGAGAGGGTGGG	0.602													7	22					0	0	0.001984	0	0		C	195515821	C	C	195515821	3	2	179	1	0	0	0	0	1	0	0	0	9996	942	33	5		5	MUC4	3	195515821	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	28275632	195515821	2506609	77	91486											
SLIT2	9353	broad.mit.edu	37	chr4	20255569	20255569	+	Missense_Mutation	SNP	T	G	G	0	1	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	cacagtggactgtcacgggcTggcgctgcgcagcgtgccca	6	6	15	14	4	1	0	1	0	0	0	1	1	1	1	1	3	3	3	1	3	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr4:20255569T>G	uc003gpr.1	+	1	335	c.131T>G	c.(130-132)CTG>CGG	p.L44R	SLIT2_uc003gps.1_Missense_Mutation_p.L44R	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	44	LRRNT.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TGTCACGGGCTGGCGCTGCGC	0.667													36	75					0	0	0.004289	0	0		G	20255569	G	G	20255569	3	3	179	1	0	0	0	0	1	0	0	0	14765	1580	55	5	133	5	SLIT2	4	20255569	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08		20255569	170898707	78	91487											
NDST4	64579	broad.mit.edu	37	chr4	115891689	115891689	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgtgaggaaaccaccagaacTcatccacagaccgaagtaaa	17	5	8	11	1	1	3	1	1	0	2	2	5	2	4	4	1	2	1	4	1	5	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr4:115891689T>G	uc003ibu.2	-	4	1797	c.1118A>C	c.(1117-1119)GAG>GCG	p.E373A	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	373	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		CCACCAGAACTCATCCACAGA	0.403													10	28					0	0	0.001855	0	0		G	115891689	G	G	115891689	3	3	179	1	0	0	0	0	1	0	0	0	10277	1551	54	5	1544	5	NDST4	4	115891689	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	95636120	115891689	75262587	79	91488											
TRAM1L1	133022	broad.mit.edu	37	chr4	118005450	118005450	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgcaaagattatgaagatTtctctttcctctttggcgga	9	16	8	8	1	2	3	0	1	2	2	4	4	3	4	1	2	1	1	1	2	3	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr4:118005450T>G	uc003ibv.3	-	1	1287	c.1100A>C	c.(1099-1101)AAA>ACA	p.K367T		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	367	Cytoplasmic (Potential).				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						TTATGAAGATTTCTCTTTCCT	0.368													64	90					0	0	0.01441	0	0		G	118005450	G	G	118005450	3	3	179	1	0	0	0	0	1	0	0	0	16478	1841	64	5	13	5	TRAM1L1	4	118005450	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2113761	118005450	73148826	80	91489											
QRFPR	84109	broad.mit.edu	37	chr4	122301756	122301756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcgtcaggttgtggtccCgcagcagccgagagaactgc	7	6	14	14	4	1	1	1	0	0	1	2	3	2	1	3	2	4	3	3	2	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr4:122301756C>T	uc010inj.1	-	1	426	c.47G>A	c.(46-48)CGG>CAG	p.R16Q	QRFPR_uc010ink.1_RNA|QRFPR_uc003ids.2_Missense_Mutation_p.R16Q|QRFPR_uc010inl.1_Missense_Mutation_p.R16Q	NM_198179	NP_937822	Q96P65	QRFPR_HUMAN	G protein-coupled receptor 103	16	Extracellular (Potential).					plasma membrane	neuropeptide Y receptor activity				0						GTTGTGGTCCCGCAGCAGCCG	0.687													5	13					0	0	0.001168	0	0		T	122301756	T	T	122301756	3	4	179	1	0	0	0	0	1	0	0	0	12903	652	23	1	1272	1	QRFPR	4	122301756	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	4296306	122301756	68852520	81	91490											
INTU	27152	broad.mit.edu	37	chr4	128626767	128626767	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttatttgatatgcagtcatTtgcccaaggatgatcttatt	10	17	8	6	0	2	2	1	2	1	0	2	3	2	3	1	1	2	2	1	1	4	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr4:128626767T>A	uc003ifk.1	+	11	1658	c.1588T>A	c.(1588-1590)TTG>ATG	p.L530M	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	530										ovary(1)	1						ATGCAGTCATTTGCCCAAGGA	0.373													51	88					0	0	0.01441	0	0		A	128626767	A	A	128626767	3	1	179	1	0	0	0	0	1	0	0	0	7802	1838	64	5	1630	5	INTU	4	128626767	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	6325011	128626767	62527509	82	91491											
DCHS2	54798	broad.mit.edu	37	chr4	155250772	155250772	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaccgccatggtggcgtttCgtggtggggagccgcggtct	5	9	17	10	5	1	0	0	0	1	0	2	1	1	1	3	6	2	1	3	6	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr4:155250772C>T	uc003inw.2	-	11	2456	c.2456G>A	c.(2455-2457)CGA>CAA	p.R819Q	DCHS2_uc003inx.2_Missense_Mutation_p.R1274Q	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	819	Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GGTGGCGTTTCGTGGTGGGGA	0.542													23	16					0	0	0.00333	0	0		T	155250772	T	T	155250772	3	4	179	1	0	0	0	0	1	0	0	0	4291	884	31	1	6450	1	DCHS2	4	155250772	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	26624005	155250772	35903504	83	91492											
GUCY1B3	2983	broad.mit.edu	37	chr4	156717663	156717663	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctttttctatgttcaccaagGtaatcatttttagattaatt	11	20	4	6	0	3	1	2	0	1	1	3	1	3	1	1	1	0	2	1	1	5	10			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr4:156717663G>T	uc003ipc.2	+	8	1144	c.977_splice	c.e8+1	p.S326_splice	GUCY1B3_uc011cio.1_Splice_Site_p.S348_splice|GUCY1B3_uc011cip.1_Splice_Site_p.S306_splice|GUCY1B3_uc003ipd.2_Splice_Site_p.S254_splice|GUCY1B3_uc010iqf.2_Splice_Site_p.S326_splice|GUCY1B3_uc010iqg.2_Splice_Site_p.S254_splice|GUCY1B3_uc011ciq.1_Splice_Site_p.S254_splice	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3						blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		GTTCACCAAGGTAATCATTTT	0.348													13	7					1.05317e-09	1.15978e-09	0.00245	1	0		T	156717663	T	T	156717663	5	4	179	1	0	0	0	0	0	0	1	0	6911	1275	44	5	1008	5	GUCY1B3	4	156717663	Splice_Site	SNP	G	TCGA-D7-6822-01A-11D-1882-08	1466891	156717663	34436613	84	91493											
CDH6	1004	broad.mit.edu	37	chr5	31313505	31313505	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgatttttacatcgaaacTtcttgaccgagaaacactgc	12	13	6	10	3	1	2	0	1	1	1	3	5	1	2	1	0	4	0	1	0	3	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:31313505T>G	uc003jhe.1	+	8	1660	c.1334T>G	c.(1333-1335)CTT>CGT	p.L445R	CDH6_uc003jhd.1_Missense_Mutation_p.L445R	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	445	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						ACATCGAAACTTCTTGACCGA	0.403													40	85					0	0	0.006999	0	0		G	31313505	G	G	31313505	3	3	179	1	0	0	0	0	1	0	0	0	3117	1609	56	5	1360	5	CDH6	5	31313505	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08		31313505	149601755	85	91494											
CCL28	56477	broad.mit.edu	37	chr5	43412389	43412389	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggccgcacagacagccaaGgccacgatggcgagtcctct	10	4	13	14	3	1	1	0	0	1	1	2	3	2	1	4	3	1	1	4	3	1	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:43412389G>C	uc003jnu.2	-	1	100	c.30C>G	c.(28-30)GCC>GCG	p.A10A	CCL28_uc003jns.2_RNA|CCL28_uc003jnt.2_RNA	NM_148672	NP_683513	Q9NRJ3	CCL28_HUMAN	chemokine (C-C motif) ligand 28 precursor	10					chemotaxis|immune response	extracellular space	chemokine activity			ovary(1)|kidney(1)	2						AGACAGCCAAGGCCACGATGG	0.572													4	23					0	0	0.000602	0	0		C	43412389	C	C	43412389	2	2	179	1	0	0	0	0	0	0	0	1	2903	987	35	5		5	CCL28	5	43412389	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	12098884	43412389	137502871	86	91495											
FGF10	2255	broad.mit.edu	37	chr5	44310564	44310564	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccttcttgttcatggctaAgtaatagttgctgttaatgg	8	16	9	8	0	2	0	1	0	1	0	2	0	2	0	2	2	1	6	2	2	4	8			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:44310564A>C	uc003jog.1	-	2	394	c.394T>G	c.(394-396)TTA>GTA	p.L132V		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	132					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					TTCATGGCTAAGTAATAGTTG	0.358													12	22					0	0	0.001855	0	0		C	44310564	C	C	44310564	3	2	179	1	0	0	0	0	1	0	0	0	5853	69	3	5	240	5	FGF10	5	44310564	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	898175	44310564	136604696	87	91496											
DHX29	54505	broad.mit.edu	37	chr5	54585143	54585144	+	Frame_Shift_Ins	INS	-	C	C																															gatttttcaaataaattaaaINSattcaatgcactttctcctt																										TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:54585143_54585144insC	uc003jpx.2	-	8	1140_1141	c.1020_1021insG	c.(1018-1023)AATTTTfs	p.N340fs	DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	340_341							ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				AATAAATTAAAATTCAATGCAC	0.347													17	28	---	---	---	---						.	C	54585144	C	C	54585143	7	5	179	1	0	1	1	0	0	0	0	0	4509	14	1	0	3168	0	DHX29	5	54585143	Frame_Shift_Ins	INS	-	TCGA-D7-6822-01A-11D-1882-08	10274579	54585143	126330117	88	91497											
CAMK4	814	broad.mit.edu	37	chr5	110710585	110710585	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaactgagataggagttcTtcttcgcctctcacatccaa	12	11	7	11	1	3	2	1	1	3	2	6	4	4	3	2	1	1	1	2	1	4	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:110710585T>G	uc011cvj.1	+	4	377	c.278T>G	c.(277-279)CTT>CGT	p.L93R	CAMK4_uc003kpf.2_Missense_Mutation_p.L93R|CAMK4_uc010jbv.2_Intron	NM_001744	NP_001735	Q16566	KCC4_HUMAN	calcium/calmodulin-dependent protein kinase IV	93	Protein kinase.				activation of phospholipase C activity|nerve growth factor receptor signaling pathway|synaptic transmission	cytosol|nucleoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(3)|lung(2)	5		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)		ATAGGAGTTCTTCTTCGCCTC	0.383													24	17					0	0	0.007291	0	0		G	110710585	G	G	110710585	3	3	179	1	0	0	0	0	1	0	0	0	2608	1609	56	5	288	5	CAMK4	5	110710585	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	56125442	110710585	70204675	89	91498											
FBN2	2201	broad.mit.edu	37	chr5	127873078	127873078	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgtcctcgccggcggacGcggctggccactgcggcacc	3	6	15	17	6	0	0	0	0	0	0	2	1	1	1	4	5	2	3	4	5	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:127873078G>A	uc003kuu.2	-	1	658	c.219C>T	c.(217-219)CGC>CGT	p.R73R	FBN2_uc003kuv.2_Silent_p.R73R|FBN2_uc003kuw.3_Silent_p.R73R|FBN2_uc003kux.1_Silent_p.R73R	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	73					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GCCGGCGGACGCGGCTGGCCA	0.697													15	10					0	0	0.00499	0	0		A	127873078	A	A	127873078	2	1	179	1	0	0	0	0	0	0	0	1	5717	1074	38	1		1	FBN2	5	127873078	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	17162493	127873078	53042182	90	91499											
PCDHB1	29930	broad.mit.edu	37	chr5	140432474	140432474	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgcggtttttattggcaaAgtccatgctgaggatcttga	8	14	11	8	1	1	2	0	2	1	0	2	3	2	3	2	3	2	3	2	3	2	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:140432474A>T	uc003lik.1	+	1	1496	c.1419A>T	c.(1417-1419)AAA>AAT	p.K473N		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	473	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTATTGGCAAAGTCCATGCTG	0.398													26	20					0	0	0.005443	0	0		T	140432474	T	T	140432474	3	4	179	1	0	0	0	0	1	0	0	0	11553	69	3	5	1421	5	PCDHB1	5	140432474	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	12559396	140432474	40482786	91	91500											
PCDH1	5097	broad.mit.edu	37	chr5	141244931	141244931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgcctcacaacttcgggcGcctggtggaatgtgtattcg	7	10	13	11	4	1	0	1	0	0	0	3	2	1	1	2	3	1	1	2	3	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:141244931G>A	uc003llq.2	-	3	1082	c.965C>T	c.(964-966)GCG>GTG	p.A322V	PCDH1_uc003llp.2_Missense_Mutation_p.A322V|PCDH1_uc011dbf.1_Missense_Mutation_p.A300V	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	322	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		AACTTCGGGCGCCTGGTGGAA	0.537													45	23					0	0	0.013114	0	0		A	141244931	A	A	141244931	3	1	179	1	0	0	0	0	1	0	0	0	11525	1087	38	1	2844	1	PCDH1	5	141244931	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	812457	141244931	39670329	92	91501											
RNF145	153830	broad.mit.edu	37	chr5	158588590	158588590	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctggctcttttctgaattccTcaaccataaataagacataa	14	13	4	10	0	3	2	1	1	2	1	4	2	4	2	2	1	1	1	2	1	6	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:158588590T>G	uc003lxp.2	-	10	1623	c.1310A>C	c.(1309-1311)GAG>GCG	p.E437A	RNF145_uc011ddy.1_Missense_Mutation_p.E451A|RNF145_uc003lxo.1_Missense_Mutation_p.E465A|RNF145_uc011ddz.1_Missense_Mutation_p.E454A|RNF145_uc010jiq.1_Missense_Mutation_p.E467A	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	437						integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTGAATTCCTCAACCATAAA	0.363													13	15					0	0	0.001855	0	0		G	158588590	G	G	158588590	3	3	179	1	0	0	0	0	1	0	0	0	13472	1551	54	5	689	5	RNF145	5	158588590	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	17343659	158588590	22326670	93	91502											
GABRA1	2554	broad.mit.edu	37	chr5	161277869	161277869	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttgggcctggatcctccttcTgagcacactgactggaagaa	9	10	11	11	0	1	3	0	2	1	1	3	5	3	5	3	3	1	1	3	3	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:161277869T>C	uc010jiw.2	+	3	521	c.53T>C	c.(52-54)CTG>CCG	p.L18P	GABRA1_uc010jix.2_Missense_Mutation_p.L18P|GABRA1_uc010jiy.2_Missense_Mutation_p.L18P|GABRA1_uc003lyx.3_Missense_Mutation_p.L18P|GABRA1_uc010jiz.2_Missense_Mutation_p.L18P|GABRA1_uc010jja.2_Missense_Mutation_p.L18P|GABRA1_uc010jjb.2_Missense_Mutation_p.L18P	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	18					gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	ATCCTCCTTCTGAGCACACTG	0.428													34	28					0	0	0.004878	0	0		C	161277869	C	C	161277869	3	2	179	1	0	0	0	0	1	0	0	0	6174	1580	55	3	55	3	GABRA1	5	161277869	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2689279	161277869	19637391	94	91503											
GABRA1	2554	broad.mit.edu	37	chr5	161324259	161324259	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catagaacctaaagaggtcaAgcccgaaacaaaaccaccag	19	3	7	12	1	1	2	1	0	0	2	1	3	1	2	4	1	4	0	4	1	8	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr5:161324259A>G	uc010jiw.2	+	11	1670	c.1202A>G	c.(1201-1203)AAG>AGG	p.K401R	GABRA1_uc010jix.2_Missense_Mutation_p.K401R|GABRA1_uc010jiy.2_Missense_Mutation_p.K401R|GABRA1_uc003lyx.3_Missense_Mutation_p.K401R|GABRA1_uc010jiz.2_Missense_Mutation_p.K401R|GABRA1_uc010jja.2_Missense_Mutation_p.K401R|GABRA1_uc010jjb.2_Missense_Mutation_p.K401R	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	401	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	AAAGAGGTCAAGCCCGAAACA	0.483													56	43					0	0	0.01441	0	0		G	161324259	G	G	161324259	3	3	179	1	0	0	0	0	1	0	0	0	6174	72	3	3	1236	3	GABRA1	5	161324259	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	46390	161324259	19591001	95	91504											
ALDH5A1	7915	broad.mit.edu	37	chr6	24502805	24502805	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgatacaaaataaggatGaccttgccagaataatcaca	19	9	6	7	0	1	3	1	2	0	1	1	4	1	4	2	1	2	0	2	1	7	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:24502805G>T	uc003neg.2	+	2	437	c.409G>T	c.(409-411)GAC>TAC	p.D137Y	ALDH5A1_uc003nef.2_Missense_Mutation_p.D137Y	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	137					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	AAATAAGGATGACCTTGCCAG	0.383													19	39					1.56452e-12	1.7443e-12	0.007413	1	0		T	24502805	T	T	24502805	3	4	179	1	0	0	0	0	1	0	0	0	502	1290	45	5	415	5	ALDH5A1	6	24502805	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08		24502805	146612262	96	91505											
HIST1H2AM	8336	broad.mit.edu	37	chr6	27860692	27860692	+	Missense_Mutation	SNP	A	G	G	1	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	gctgcaagtggcgcgggatgAtgcgggtctttttgttgtcg	4	13	17	7	4	1	1	0	1	1	0	2	2	1	2	0	3	2	3	0	3	1	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:27860692A>G	uc003nkb.1	-	1	272	c.236T>C	c.(235-237)ATC>ACC	p.I79T	HIST1H3J_uc003nka.2_5'Flank|HIST1H2BO_uc003nkc.1_5'Flank	NM_003514	NP_003505	P0C0S8	H2A1_HUMAN	histone cluster 1, H2am	79					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding			ovary(2)	2						GCGCGGGATGATGCGGGTCTT	0.622													7	295					0	0	0.00308	0	0		G	27860692	G	G	27860692	3	3	179	1	0	0	0	0	1	0	0	0	7155	333	12	3	160	3	HIST1H2AM	6	27860692	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	3357887	27860692	143254375	97	91506											
OR2J3	442186	broad.mit.edu	37	chr6	29080491	29080491	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattctcaagatcaaggcaAgttcattgccctcttttata	13	14	5	9	0	4	1	3	0	2	1	5	1	4	1	1	1	1	2	1	1	6	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:29080491A>C	uc011dll.1	+	1	824	c.824A>C	c.(823-825)AAG>ACG	p.K275T		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GATCAAGGCAAGTTCATTGCC	0.438													29	93					0	0	0.007291	0	0		C	29080491	C	C	29080491	3	2	179	1	0	0	0	0	1	0	0	0	11023	72	3	5	826	5	OR2J3	6	29080491	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	1219799	29080491	142034576	98	91507											
FGD2	221472	broad.mit.edu	37	chr6	36982750	36982750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctctaacaccctgctccGtgagggcccggtcctcaaga	7	7	9	18	2	2	2	1	1	1	1	4	2	4	2	6	2	2	1	6	2	2	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:36982750G>A	uc010jwp.1	+	8	1136	c.965G>A	c.(964-966)CGT>CAT	p.R322H	FGD2_uc003ong.2_Missense_Mutation_p.R44H|FGD2_uc011dtv.1_Translation_Start_Site|FGD2_uc003oni.1_Missense_Mutation_p.R128H	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	322	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						ACCCTGCTCCGTGAGGGCCCG	0.637													19	63					0	0	0.007413	0	0		A	36982750	A	A	36982750	3	1	179	1	0	0	0	0	1	0	0	0	5847	1145	40	1	995	1	FGD2	6	36982750	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	7902259	36982750	134132317	99	91508											
TMEM63B	55362	broad.mit.edu	37	chr6	44119697	44119697	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcctgctcatgtacatgatCcggctctgcctggcgcgctc	4	10	12	15	3	2	1	1	1	1	0	4	1	3	1	3	3	3	4	3	3	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:44119697C>A	uc003owr.2	+	19	1852	c.1788C>A	c.(1786-1788)ATC>ATA	p.I596I	TMEM63B_uc003ows.2_Silent_p.I499I|TMEM63B_uc010jyz.2_RNA	NM_018426	NP_060896	Q5T3F8	TM63B_HUMAN	transmembrane protein 63B	596						integral to membrane	nucleotide binding|protein binding			pancreas(2)|central_nervous_system(1)	3	all_cancers(18;1.66e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00309)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0215)			TGTACATGATCCGGCTCTGCC	0.677											OREG0017465	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	40					9.16793e-09	1.00651e-08	0.00499	1	0		A	44119697	A	A	44119697	2	1	179	1	0	0	0	0	0	0	0	1	16216	845	30	5		5	TMEM63B	6	44119697	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	7136947	44119697	126995370	100	91509											
HMGCLL1	54511	broad.mit.edu	37	chr6	55360220	55360220	+	Silent	SNP	A	T	T	1	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	caaagagtacaaaatacctgAagggccgtaaggatatttgc	16	8	10	7	1	0	2	0	1	0	1	0	3	0	3	2	2	3	2	2	2	8	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:55360220A>T	uc003pcn.2	-	8	1041	c.882T>A	c.(880-882)CTT>CTA	p.L294L	HMGCLL1_uc003pco.2_Silent_p.L264L|HMGCLL1_uc010jzx.2_Silent_p.L165L|HMGCLL1_uc011dxc.1_Silent_p.L232L|HMGCLL1_uc011dxd.1_Silent_p.L161L|HMGCLL1_uc011dxe.1_Intron	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	294							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			AAAATACCTGAAGGGCCGTAA	0.383													17	70					0	0	0.007413	0	0		T	55360220	T	T	55360220	2	4	179	1	0	0	0	0	0	0	0	1	7246	233	9	5		5	HMGCLL1	6	55360220	Silent	SNP	A	TCGA-D7-6822-01A-11D-1882-08	11240523	55360220	115754847	101	91510											
BMP5	653	broad.mit.edu	37	chr6	55639011	55639011	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggtccctgtcttcccacaAgaccagcagattttacgttg	9	11	9	12	1	1	2	0	0	1	2	3	3	3	2	3	1	2	2	3	1	2	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:55639011A>G	uc003pcq.2	-	4	1575	c.863T>C	c.(862-864)CTT>CCT	p.L288P	BMP5_uc011dxf.1_Missense_Mutation_p.L288P	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	288					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TCTTCCCACAAGACCAGCAGA	0.433													36	152					0	0	0.004289	0	0		G	55639011	G	G	55639011	3	3	179	1	0	0	0	0	1	0	0	0	1464	72	3	3	517	3	BMP5	6	55639011	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	278791	55639011	115476056	102	91511											
BAI3	577	broad.mit.edu	37	chr6	69666638	69666638	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtcagggtgcagtgataAcagggcagcaatgtgaagga	12	7	15	7	0	1	2	1	2	0	0	1	3	1	3	1	3	3	3	1	3	3	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:69666638A>C	uc003pev.3	+	8	1910	c.1462A>C	c.(1462-1464)ACA>CCA	p.T488P	BAI3_uc010kak.2_Missense_Mutation_p.T488P	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	488	TSP type-1 4.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGCAGTGATAACAGGGCAGCA	0.493													35	173					0	0	0.005524	0	0		C	69666638	C	C	69666638	3	2	179	1	0	0	0	0	1	0	0	0	1301	43	2	5	1484	5	BAI3	6	69666638	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	14027627	69666638	101448429	103	91512											
OGFRL1	79627	broad.mit.edu	37	chr6	72011128	72011128	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatcactcgtattcttaaAagccttggtgagcttggata	12	13	9	7	1	2	2	1	1	1	1	3	3	2	3	1	2	2	2	1	2	5	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:72011128A>C	uc003pfx.1	+	7	895	c.732A>C	c.(730-732)AAA>AAC	p.K244N		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1	244						membrane	receptor activity				0						GTATTCTTAAAAGCCTTGGTG	0.378													132	448					0	0	0.01441	0	0		C	72011128	C	C	72011128	3	2	179	1	0	0	0	0	1	0	0	0	10863	11	1	5	758	5	OGFRL1	6	72011128	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2344490	72011128	99103939	104	91513											
RIMS1	22999	broad.mit.edu	37	chr6	72957723	72957723	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttttctcattttaggttcaAgttcctttgaatctcagaag	9	19	6	7	0	3	2	3	1	2	1	6	2	4	2	1	1	0	2	1	1	4	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:72957723A>C	uc003pga.2	+	12	2211	c.2134A>C	c.(2134-2136)AGT>CGT	p.S712R	RIMS1_uc011dyb.1_Missense_Mutation_p.S338R|RIMS1_uc003pgc.2_Missense_Mutation_p.S338R|RIMS1_uc010kaq.2_Missense_Mutation_p.S186R|RIMS1_uc011dyc.1_Missense_Mutation_p.S186R|RIMS1_uc010kar.2_Missense_Mutation_p.S105R|RIMS1_uc011dyd.1_Missense_Mutation_p.S171R|RIMS1_uc003pgf.2_5'Flank|RIMS1_uc003pgg.2_5'Flank|RIMS1_uc003pgi.2_5'Flank|RIMS1_uc003pgh.2_5'Flank|RIMS1_uc003pgd.2_5'Flank|RIMS1_uc003pge.2_5'Flank|RIMS1_uc003pgb.3_Missense_Mutation_p.S338R|RIMS1_uc010kas.1_Missense_Mutation_p.S171R	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	712					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				TTTAGGTTCAAGTTCCTTTGA	0.323													38	154					0	0	0.007835	0	0		C	72957723	C	C	72957723	3	2	179	1	0	0	0	0	1	0	0	0	13392	72	3	5	2343	5	RIMS1	6	72957723	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	946595	72957723	98157344	105	91514											
COL12A1	1303	broad.mit.edu	37	chr6	75818831	75818831	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgatgtctttttctataattTcatagcagtcaatgtaaatc	12	18	5	6	0	4	1	2	1	2	0	5	1	4	1	0	0	1	2	0	0	6	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:75818831T>C	uc003phs.2	-	52	8169	c.8003A>G	c.(8002-8004)GAA>GGA	p.E2668G	COL12A1_uc003pht.2_Missense_Mutation_p.E1504G	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2668	TSP N-terminal.|Nonhelical region (NC3).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTCTATAATTTCATAGCAGTC	0.303													26	103					0	0	0.004656	0	0		C	75818831	C	C	75818831	3	2	179	1	0	0	0	0	1	0	0	0	3672	1783	62	3	1248	3	COL12A1	6	75818831	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2861108	75818831	95296236	106	91515											
TTK	7272	broad.mit.edu	37	chr6	80717577	80717596	+	Frame_Shift_Del	DEL	ACTGGTTGAGTTTGTTGCTC	-	-																															gatggcaaacaacccagaggActggttgagtttgttgctca																										TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:80717577_80717596delACTGGTTGAGTTTGTTGCTC	uc003pjc.2	+	3	265_284	c.191_210delACTGGTTGAGTTTGTTGCTC	c.(190-210)GACTGGTTGAGTTTGTTGCTCfs	p.D64fs	TTK_uc003pjb.3_Frame_Shift_Del_p.D64fs	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	64_70					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		AACCCAGAGGACTGGTTGAGTTTGTTGCTCAAACTAGAGA	0.364													20	39	---	---	---	---						.	-	80717596	-	-	80717577	7	5	179	1	0	1	0	1	0	0	0	0	16746	275	10	0	197	0	TTK	6	80717577	Frame_Shift_Del	DEL	ACTGGTTGAGTTTGTTGCTC	TCGA-D7-6822-01A-11D-1882-08	4898746	80717577	90397490	107	91516											
MCHR2	84539	broad.mit.edu	37	chr6	100369098	100369098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcaccatctttgtcaacttCatcactctctgttttggtac	8	16	5	12	0	5	0	3	0	2	0	6	0	5	0	1	1	3	3	1	1	2	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:100369098C>T	uc003pqh.1	-	6	1056	c.741G>A	c.(739-741)ATG>ATA	p.M247I	MCHR2_uc003pqi.1_Missense_Mutation_p.M247I	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	247	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		TTGTCAACTTCATCACTCTCT	0.448													30	111					0	0	0.003755	0	0		T	100369098	T	T	100369098	3	4	179	1	0	0	0	0	1	0	0	0	9401	826	29	4	285	4	MCHR2	6	100369098	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	19651521	100369098	70745969	108	91517											
KPNA5	3841	broad.mit.edu	37	chr6	117047700	117047700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcctgttttgattgagattCttcagaaagcagagtttcgt	9	17	9	6	1	2	4	1	2	1	3	4	5	3	4	1	0	1	3	1	0	1	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:117047700C>T	uc003pxh.2	+	12	1299	c.1168C>T	c.(1168-1170)CTT>TTT	p.L390F		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5	387	NLS binding site (minor) (By similarity).|ARM 8.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		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)		GATTGAGATTCTTCAGAAAGC	0.343													25	91					0	0	0.00632	0	0		T	117047700	T	T	117047700	3	4	179	1	0	0	0	0	1	0	0	0	8449	913	32	4	1214	4	KPNA5	6	117047700	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	16678602	117047700	54067367	109	91518											
TRDN	10345	broad.mit.edu	37	chr6	123653049	123653049	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctttagggaagctggaacTttctcttctttccctttaat	7	18	6	10	0	2	0	0	0	2	0	5	2	4	2	2	2	2	1	2	2	4	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:123653049T>G	uc003pzj.1	-	23	1468	c.1446A>C	c.(1444-1446)AAA>AAC	p.K482N	TRDN_uc010kem.1_5'UTR	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	482	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		AAGCTGGAACTTTCTCTTCTT	0.328													4	10					0	0	0.009096	0	0		G	123653049	G	G	123653049	3	3	179	1	0	0	0	0	1	0	0	0	16494	1606	56	5	819	5	TRDN	6	123653049	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	6605349	123653049	47462018	110	91519											
LTV1	84946	broad.mit.edu	37	chr6	144178565	144178565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataaggcaacaggagaggaaGagggaatggatatacagtat	18	6	14	3	0	0	2	0	0	0	2	0	6	0	5	0	5	2	2	0	5	7	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:144178565G>A	uc003qjs.2	+	5	630	c.523G>A	c.(523-525)GAG>AAG	p.E175K	LTV1_uc003qju.1_5'UTR|C6orf94_uc010khj.2_5'UTR	NM_032860	NP_116249	Q96GA3	LTV1_HUMAN	LTV1 homolog	175	Asp-rich.									ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)		AGGAGAGGAAGAGGGAATGGA	0.368													69	137					0	0	0.01441	0	0		A	144178565	A	A	144178565	3	1	179	1	0	0	0	0	1	0	0	0	9099	943	33	4	541	4	LTV1	6	144178565	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	20525516	144178565	26936502	111	91520											
UTRN	7402	broad.mit.edu	37	chr6	145157547	145157547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatcacacgtctgaggattCagaacttatagcagaagcaa	15	8	8	10	1	3	3	2	1	1	2	3	4	3	4	1	1	3	2	1	1	5	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:145157547C>T	uc003qkt.2	+	70	10027	c.9935C>T	c.(9934-9936)TCA>TTA	p.S3312L		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3312					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCTGAGGATTCAGAACTTATA	0.517													50	137					0	0	0.01441	0	0		T	145157547	T	T	145157547	3	4	179	1	0	0	0	0	1	0	0	0	17129	838	29	4	10213	4	UTRN	6	145157547	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	978982	145157547	25957520	112	91521											
SYNE1	23345	broad.mit.edu	37	chr6	152639292	152639292	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtcagttttcctatcttcTtggccagtggcttacccagt	6	15	8	12	0	3	0	1	0	2	0	4	0	4	0	3	2	1	2	3	2	2	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr6:152639292T>G	uc010kiw.2	-	86	17098	c.16496A>C	c.(16495-16497)AAG>ACG	p.K5499T	SYNE1_uc010kiv.2_Missense_Mutation_p.K23T|SYNE1_uc003qos.3_Missense_Mutation_p.K23T|SYNE1_uc003qot.3_Missense_Mutation_p.K5428T|SYNE1_uc003qou.3_Missense_Mutation_p.K5499T|SYNE1_uc010kiz.2_Missense_Mutation_p.K1254T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5499	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCCTATCTTCTTGGCCAGTGG	0.453										HNSCC(10;0.0054)			48	137					0	0	0.01441	0	0		G	152639292	G	G	152639292	3	3	179	1	0	0	0	0	1	0	0	0	15470	1609	56	5	10214	5	SYNE1	6	152639292	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	7481745	152639292	18475775	113	91522											
ETV1	2115	broad.mit.edu	37	chr7	13950864	13950864	+	Splice_Site	DEL	C	-	-																															ttcagtggtggacaacttaaCttctgttctgctgggatgag																										TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:13950864delC	uc011jxq.1	-	10	1609	c.870_splice	c.e10+1	p.E290_splice	ETV1_uc011jxn.1_Splice_Site_p.E250_splice|ETV1_uc011jxo.1_Splice_Site_p.E187_splice|ETV1_uc011jxp.1_Splice_Site_p.E232_splice|ETV1_uc003ssw.3_Intron|ETV1_uc003ssx.2_Splice_Site|ETV1_uc011jxr.1_Splice_Site_p.E272_splice|ETV1_uc011jxs.1_Splice_Site_p.E272_splice|ETV1_uc010ktv.2_Splice_Site_p.E159_splice	NM_004956	NP_004947	P50549	ETV1_HUMAN	ets variant gene 1 isoform a						transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		TMPRSS2/ETV1(24)|EWSR1/ETV1(7)	prostate(24)|soft_tissue(4)|bone(3)|lung(2)|central_nervous_system(1)|ovary(1)	35						GACAACTTAACTTCTGTTCTG	0.383			T	EWSR1|TMPRSS2|SLC45A3|C15orf21|HNRNPA2B1. ACSL3	Ewing sarcoma|prostate								33	52	---	---	---	---						.	-	13950864	-	-	13950864	8	5	179	1	0	1	0	1	0	0	1	0	5285	579	20	0	582	0	ETV1	7	13950864	Splice_Site	DEL	C	TCGA-D7-6822-01A-11D-1882-08		13950864	145187799	114	91523											
SP4	6671	broad.mit.edu	37	chr7	21516783	21516783	+	Missense_Mutation	SNP	A	T	T	1	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	ttggaggaattgctaatgccAcgataggtgctgttagtcct	9	13	12	7	1	0	0	0	0	0	0	1	3	1	2	2	3	3	3	2	3	4	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:21516783A>T	uc003sva.2	+	4	1946	c.1765A>T	c.(1765-1767)ACG>TCG	p.T589S	SP4_uc003svb.2_Missense_Mutation_p.T276S	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	589					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						TGCTAATGCCACGATAGGTGC	0.473													18	52					0	0	0.007413	0	0		T	21516783	T	T	21516783	3	4	179	1	0	0	0	0	1	0	0	0	14991	159	6	5	1779	5	SP4	7	21516783	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	7565919	21516783	137621880	115	91524											
CCDC129	223075	broad.mit.edu	37	chr7	31617987	31617987	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagaacttatttcagactaAcaagctcaagagcttgtctc	13	11	8	9	0	3	3	2	0	1	3	4	4	3	3	0	1	4	2	0	1	5	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:31617987A>C	uc003tcj.1	+	8	2102	c.1109A>C	c.(1108-1110)AAC>ACC	p.N370T	CCDC129_uc011kad.1_Missense_Mutation_p.N380T|CCDC129_uc003tci.1_Intron|CCDC129_uc011kae.1_Missense_Mutation_p.N396T|CCDC129_uc003tck.1_Missense_Mutation_p.N278T	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	370											0						TTTCAGACTAACAAGCTCAAG	0.507													4	66					0	0	0.000602	0	0		C	31617987	C	C	31617987	3	2	179	1	0	0	0	0	1	0	0	0	2767	43	2	5	1135	5	CCDC129	7	31617987	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	10101204	31617987	127520676	116	91525											
KBTBD2	25948	broad.mit.edu	37	chr7	32909492	32909492	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatttctacccatgagtcaGaccttggaaaataacagtac	14	10	6	11	0	2	2	1	1	1	1	2	3	2	3	3	1	3	1	3	1	5	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:32909492G>T	uc003tdb.2	-	4	1996	c.1337C>A	c.(1336-1338)TCT>TAT	p.S446Y	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	446	Kelch 3.										0			GBM - Glioblastoma multiforme(11;0.0499)			CCATGAGTCAGACCTTGGAAA	0.428													11	101					0.00829132	0.00885888	0.008291	1	0		T	32909492	T	T	32909492	3	4	179	1	0	0	0	0	1	0	0	0	8009	942	33	5	538	5	KBTBD2	7	32909492	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	1291505	32909492	126229171	117	91526											
KBTBD2	25948	broad.mit.edu	37	chr7	32909937	32909937	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagctggtgggctacataActtgtaaactttttctgctt	9	16	8	8	0	2	0	1	0	1	0	2	0	2	0	0	2	5	4	0	2	4	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:32909937A>G	uc003tdb.2	-	4	1551	c.892T>C	c.(892-894)TTA>CTA	p.L298L	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	298											0			GBM - Glioblastoma multiforme(11;0.0499)			GGGCTACATAACTTGTAAACT	0.393													15	83					0	0	0.004007	0	0		G	32909937	G	G	32909937	2	3	179	1	0	0	0	0	0	0	0	1	8009	40	2	3		3	KBTBD2	7	32909937	Silent	SNP	A	TCGA-D7-6822-01A-11D-1882-08	445	32909937	126228726	118	91527											
AMPH	273	broad.mit.edu	37	chr7	38505774	38505774	+	Missense_Mutation	SNP	A	T	T	1	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	aattatcgtcatgactcaccAccgcaatttccttatgaaac	13	12	4	12	2	2	2	2	2	0	0	4	2	3	2	3	0	1	1	3	0	5	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:38505774A>T	uc003tgu.2	-	8	734	c.665T>A	c.(664-666)GTG>GAG	p.V222E	AMPH_uc003tgv.2_Missense_Mutation_p.V222E|AMPH_uc003tgt.2_5'Flank	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	222	BAR.				endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						ATGACTCACCACCGCAATTTC	0.358													7	40					0	0	0.004482	0	0		T	38505774	T	T	38505774	3	4	179	1	0	0	0	0	1	0	0	0	588	173	6	5	1478	5	AMPH	7	38505774	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	5595837	38505774	120632889	119	91528											
COBL	23242	broad.mit.edu	37	chr7	51111178	51111178	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtcactgcagtcttcCtggtctgtggcccacttgtc	3	14	10	14	0	3	0	1	0	2	0	6	0	5	0	3	3	1	1	3	3	0	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:51111178C>T	uc003tpr.3	-	8	1493	c.1308G>A	c.(1306-1308)CAG>CAA	p.Q436Q	COBL_uc003tps.2_Silent_p.Q493Q|COBL_uc011kcl.1_Silent_p.Q436Q|COBL_uc010kzc.2_Silent_p.Q436Q|COBL_uc003tpp.3_Silent_p.Q222Q|COBL_uc003tpq.3_Silent_p.Q377Q	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog	436										skin(3)|ovary(2)	5	Glioma(55;0.08)					TGCAGTCTTCCTGGTCTGTGG	0.567													47	115					0	0	0.01441	0	0		T	51111178	T	T	51111178	2	4	179	1	0	0	0	0	0	0	0	1	3656	680	24	4		4	COBL	7	51111178	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	12605404	51111178	108027485	120	91529											
ZNF92	168374	broad.mit.edu	37	chr7	64863616	64863616	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacataagaaaattcatactAgagagtattcttacaaatgt	19	12	5	5	0	2	2	1	0	1	2	2	3	2	2	0	0	3	1	0	0	9	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:64863616A>G	uc003ttz.2	+	4	732	c.589A>G	c.(589-591)AGA>GGA	p.R197G	ZNF92_uc003tua.2_Missense_Mutation_p.R128G|ZNF92_uc010kzu.2_Missense_Mutation_p.R165G|ZNF92_uc003tub.2_Missense_Mutation_p.R121G	NM_152626	NP_689839	Q03936	ZNF92_HUMAN	zinc finger protein 92 isoform 2	197						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(55;0.159)				AATTCATACTAGAGAGTATTC	0.323													9	13					0	0	0.006214	0	0		G	64863616	G	G	64863616	3	3	179	1	0	0	0	0	1	0	0	0	18226	412	15	3	603	3	ZNF92	7	64863616	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	13752438	64863616	94275047	121	91530											
MAGI2	9863	broad.mit.edu	37	chr7	77789342	77789342	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcaaatttcagcacttacTtatagtggatccagactcag	13	11	8	9	0	2	1	2	0	0	1	3	2	3	2	1	2	2	2	1	2	4	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:77789342T>G	uc003ugx.2	-	16	3099	c.2845A>C	c.(2845-2847)ACT>CCT	p.T949P	MAGI2_uc003ugy.2_Missense_Mutation_p.T935P|MAGI2_uc010ldx.1_Missense_Mutation_p.T542P	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	949	PDZ 5.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CAGCACTTACTTATAGTGGAT	0.463													33	71					0	0	0.004878	0	0		G	77789342	G	G	77789342	3	3	179	1	0	0	0	0	1	0	0	0	9209	1623	56	5	1550	5	MAGI2	7	77789342	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	12925726	77789342	81349321	122	91531											
HGF	3082	broad.mit.edu	37	chr7	81335016	81335016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcttttcaggaattgtgCatccataattaggtaaatca	12	15	8	6	0	3	0	2	0	1	0	4	1	4	1	1	3	1	2	1	3	5	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:81335016C>T	uc003uhl.2	-	16	1976	c.1811G>A	c.(1810-1812)TGC>TAC	p.C604Y	HGF_uc003uhm.2_Missense_Mutation_p.C599Y	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1	604	Peptidase S1.				epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						AGGAATTGTGCATCCATAATT	0.363													9	20					0	0	0.008291	0	0		T	81335016	T	T	81335016	3	4	179	1	0	0	0	0	1	0	0	0	7101	710	25	2	387	2	HGF	7	81335016	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	3545674	81335016	77803647	123	91532											
PCLO	27445	broad.mit.edu	37	chr7	82387933	82387933	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accaaaagtttgtgccagttGactattctttttctgagatc	10	16	7	8	0	2	2	0	2	2	1	3	3	2	2	2	0	1	2	2	0	3	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:82387933G>A	uc003uhx.2	-	25	15676	c.15387C>T	c.(15385-15387)GTC>GTT	p.V5129V		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	5052					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TGTGCCAGTTGACTATTCTTT	0.388													81	163					0	0	0.01441	0	0		A	82387933	A	A	82387933	2	1	179	1	0	0	0	0	0	0	0	1	11602	1277	45	4		4	PCLO	7	82387933	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	1052917	82387933	76750730	124	91533											
PCLO	27445	broad.mit.edu	37	chr7	82582534	82582534	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgtaataactacataagTttctgtgagggatttggaaa	15	13	9	4	0	1	1	0	1	1	0	1	3	1	3	0	2	2	2	0	2	6	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:82582534T>G	uc003uhx.2	-	5	8024	c.7735A>C	c.(7735-7737)ACT>CCT	p.T2579P	PCLO_uc003uhv.2_Missense_Mutation_p.T2579P|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2510					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTACATAAGTTTCTGTGAGG	0.443													75	129					0	0	0.01441	0	0		G	82582534	G	G	82582534	3	3	179	1	0	0	0	0	1	0	0	0	11602	1725	60	5	7794	5	PCLO	7	82582534	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	194601	82582534	76556129	125	91534											
ZNF804B	219578	broad.mit.edu	37	chr7	88963087	88963087	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaactgcagataagtgcaAgtgctgcaggtttgcaaata	15	9	10	7	0	0	1	0	0	0	1	0	1	0	1	0	1	6	6	0	1	5	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:88963087A>C	uc011khi.1	+	4	1329	c.791A>C	c.(790-792)AAG>ACG	p.K264T		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	264						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GATAAGTGCAAGTGCTGCAGG	0.373										HNSCC(36;0.09)			12	21					0	0	0.010729	0	0		C	88963087	C	C	88963087	3	2	179	1	0	0	0	0	1	0	0	0	18196	72	3	5	805	5	ZNF804B	7	88963087	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	6380553	88963087	70175576	126	91535											
PPP1R3A	5506	broad.mit.edu	37	chr7	113518368	113518368	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaattgcctgctcattagTtgacactgaaatttcagtat	12	14	7	8	0	2	2	2	2	0	0	2	2	2	2	1	0	3	4	1	0	4	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:113518368T>C	uc010ljy.1	-	4	2810	c.2779A>G	c.(2779-2781)ACT>GCT	p.T927A		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	927					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TGCTCATTAGTTGACACTGAA	0.378													20	59					0	0	0.014323	0	0		C	113518368	C	C	113518368	3	2	179	1	0	0	0	0	1	0	0	0	12393	1725	60	3	593	3	PPP1R3A	7	113518368	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	24555281	113518368	45620295	127	91536											
TSPAN12	23554	broad.mit.edu	37	chr7	120446741	120446741	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	aaatatactactccacagcaCttaaactgcaaaaaaaatca	21	8	2	10	0	1	0	1	0	0	0	2	0	2	0	1	0	5	2	1	0	10	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:120446741C>A	uc003vjk.2	-	7	848	c.474G>T	c.(472-474)AAG>AAT	p.K158N	TSPAN12_uc010lkj.2_Missense_Mutation_p.K31N	NM_012338	NP_036470	O95859	TSN12_HUMAN	transmembrane 4 superfamily member 12	158	Extracellular (Potential).				angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)					CTCCACAGCACTTAAACTGCA	0.373													11	28					9.31168e-06	1.00387e-05	0.001855	1	0		A	120446741	A	A	120446741	3	1	179	1	0	0	0	0	1	0	0	0	16662	564	20	5	451	5	TSPAN12	7	120446741	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	6928373	120446741	38691922	128	91537											
DGKI	9162	broad.mit.edu	37	chr7	137170147	137170147	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaactctctgggagccagaAgaaactgactgtaggtccta	12	9	11	9	0	1	4	0	2	1	2	3	5	2	5	2	2	3	1	2	2	5	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr7:137170147A>T	uc003vtt.2	-	24	2401	c.2400T>A	c.(2398-2400)TCT>TCA	p.S800S	DGKI_uc003vtu.2_Silent_p.S500S	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	800					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						GGGAGCCAGAAGAAACTGACT	0.368													11	10					0	0	0.00245	0	0		T	137170147	T	T	137170147	2	4	179	1	0	0	0	0	0	0	0	1	4477	59	3	5		5	DGKI	7	137170147	Silent	SNP	A	TCGA-D7-6822-01A-11D-1882-08	16723406	137170147	21968516	129	91538											
MYOM2	9172	broad.mit.edu	37	chr8	2077170	2077170	+	Silent	SNP	G	A	A	0	0	1	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	ccagaaggaatacgacttcaGtgtttcatgaagtattttac	13	13	8	7	1	2	2	2	1	0	1	2	4	2	3	1	1	2	2	1	1	6	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:2077170G>A	uc003wpx.3	+	32	3888	c.3750G>A	c.(3748-3750)CAG>CAA	p.Q1250Q	MYOM2_uc011kwi.1_Silent_p.Q675Q	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	1250					muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		TACGACTTCAGTGTTTCATGA	0.458													22	89					0	0	0.009535	0	0		A	2077170	A	A	2077170	2	1	179	1	0	0	0	0	0	0	0	1	10110	1020	36	4		4	MYOM2	8	2077170	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08		2077170	144286852	130	91539											
CSMD1	64478	broad.mit.edu	37	chr8	2857642	2857642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaatcgggtctggggaacCgcagtggccagctaaaaatg	12	6	13	10	2	1	0	0	0	1	0	2	1	1	1	2	4	2	2	2	4	5	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:2857642C>T	uc011kwk.1	-	53	8434	c.8044G>A	c.(8044-8046)GGT>AGT	p.G2682S	CSMD1_uc011kwj.1_Missense_Mutation_p.G2011S|CSMD1_uc010lrg.2_Missense_Mutation_p.G692S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2682	Extracellular (Potential).|Sushi 18.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TCTGGGGAACCGCAGTGGCCA	0.408													31	92					0	0	0.012213	0	0		T	2857642	T	T	2857642	3	4	179	1	0	0	0	0	1	0	0	0	3947	652	23	1	2725	1	CSMD1	8	2857642	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	780472	2857642	143506380	131	91540											
UNC5D	137970	broad.mit.edu	37	chr8	35606063	35606063	+	Silent	SNP	T	C	C	0	1	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	agcctccagtcagatggctcTgaggtgctcctgagtcctga	7	10	12	12	0	2	4	1	3	1	1	5	4	5	4	4	2	2	2	4	2	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:35606063T>C	uc003xjr.1	+	12	2113	c.1785T>C	c.(1783-1785)TCT>TCC	p.S595S	UNC5D_uc003xjs.1_Silent_p.S590S|UNC5D_uc003xju.1_Silent_p.S171S	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	595	ZU5.|Cytoplasmic (Potential).				apoptosis|axon guidance	integral to membrane	receptor activity			upper_aerodigestive_tract(2)|ovary(2)|pancreas(1)|skin(1)	6				READ - Rectum adenocarcinoma(1;1.31e-05)|Colorectal(1;0.000723)		CAGATGGCTCTGAGGTGCTCC	0.488													40	167					0	0	0.010771	0	0		C	35606063	C	C	35606063	2	2	179	1	0	0	0	0	0	0	0	1	17021	1567	55	3		3	UNC5D	8	35606063	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	32748421	35606063	110757959	132	91541											
WHSC1L1	54904	broad.mit.edu	37	chr8	38135877	38135877	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	atctgctccacagtggcactCcgttctgccgttgcccagac	6	10	9	16	2	2	1	0	0	2	1	4	1	4	1	4	1	3	4	4	1	0	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:38135877C>G	uc003xli.2	-	22	4332	c.3814G>C	c.(3814-3816)GAG>CAG	p.E1272Q	WHSC1L1_uc011lbm.1_Missense_Mutation_p.E1261Q|WHSC1L1_uc010lwe.2_Missense_Mutation_p.E1223Q|WHSC1L1_uc003xlh.2_Missense_Mutation_p.E51Q	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1272	Post-SET.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	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)			CAGTGGCACTCCGTTCTGCCG	0.483			T	NUP98	AML								8	49					0	0	0.010729	0	0		G	38135877	G	G	38135877	3	3	179	1	0	0	0	0	1	0	0	0	17389	864	30	5	511	5	WHSC1L1	8	38135877	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	2529814	38135877	108228145	133	91542											
ADAM32	203102	broad.mit.edu	37	chr8	39091556	39091556	+	Silent	SNP	A	G	G	1	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	aaattgcctcgaacagttccAgatccactggctgtcaaaaa	14	9	7	11	1	1	1	1	0	0	1	4	2	3	1	3	1	2	2	3	1	4	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:39091556A>G	uc003xmt.3	+	16	2018	c.1773A>G	c.(1771-1773)CCA>CCG	p.P591P	ADAM32_uc011lch.1_Silent_p.P492P|ADAM32_uc003xmu.3_Silent_p.P485P|ADAM32_uc003xmv.2_Intron	NM_145004	NP_659441	Q8TC27	ADA32_HUMAN	a disintegrin and metalloprotease domain 32	591	Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)|kidney(1)	3		all_cancers(7;3e-05)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00771)|Breast(189;0.0503)	LUSC - Lung squamous cell carcinoma(45;6.2e-07)|Colorectal(1;0.00699)|READ - Rectum adenocarcinoma(1;0.146)			GAACAGTTCCAGATCCACTGG	0.313													3	12					0	0	0.004672	0	0		G	39091556	G	G	39091556	2	3	179	1	0	0	0	0	0	0	0	1	249	175	7	3		3	ADAM32	8	39091556	Silent	SNP	A	TCGA-D7-6822-01A-11D-1882-08	955679	39091556	107272466	134	91543											
KIAA0146	23514	broad.mit.edu	37	chr8	48647875	48647875	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttatcactgcagagctacGaagtgaagagtgtcctcgga	11	11	11	8	2	1	3	1	1	0	2	3	5	2	4	1	1	3	2	1	1	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:48647875G>A	uc003xqd.2	+	20	2620	c.2611G>A	c.(2611-2613)GAA>AAA	p.E871K	KIAA0146_uc011ldc.1_Missense_Mutation_p.E801K|KIAA0146_uc011ldd.1_Missense_Mutation_p.R811Q|KIAA0146_uc003xqe.2_Missense_Mutation_p.E346K|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc010lxt.2_Silent_p.T503T|KIAA0146_uc011ldf.1_Missense_Mutation_p.E376K|KIAA0146_uc011ldg.1_Missense_Mutation_p.E361K|KIAA0146_uc003xqg.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	871											0		Lung NSC(58;0.175)				GCAGAGCTACGAAGTGAAGAG	0.517													12	324					0	0	0.00245	0	0		A	48647875	A	A	48647875	3	1	179	1	0	0	0	0	1	0	0	0	8173	1059	37	1	2689	1	KIAA0146	8	48647875	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	9556319	48647875	97716147	135	91544											
SNAI2	6591	broad.mit.edu	37	chr8	49831428	49831428	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagagacattctggagaaggTtttggagcagtttttgcact	10	13	13	5	0	1	2	0	0	1	2	1	6	1	3	0	3	2	4	0	3	1	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:49831428T>G	uc003xqp.2	-	3	909	c.745A>C	c.(745-747)ACC>CCC	p.T249P		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	249	C2H2-type 5; atypical.				canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CTGGAGAAGGTTTTGGAGCAG	0.458													49	208					0	0	0.01441	0	0		G	49831428	G	G	49831428	3	3	179	1	0	0	0	0	1	0	0	0	14852	1725	60	5	65	5	SNAI2	8	49831428	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	1183553	49831428	96532594	136	91545											
PXDNL	137902	broad.mit.edu	37	chr8	52321405	52321405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taagggctttccggagggagGccaaggaaagcctgtcttca	10	8	14	9	1	2	0	1	0	1	0	3	3	3	3	3	5	1	1	3	5	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:52321405G>A	uc003xqu.3	-	17	2880	c.2779C>T	c.(2779-2781)CCT>TCT	p.P927S	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	927					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CCGGAGGGAGGCCAAGGAAAG	0.637													11	36					0	0	0.010729	0	0		A	52321405	A	A	52321405	3	1	179	1	0	0	0	0	1	0	0	0	12873	1203	42	2	1640	2	PXDNL	8	52321405	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	2489977	52321405	94042617	137	91546											
PRDM14	63978	broad.mit.edu	37	chr8	70970953	70970953	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctcaaaggatcgtttgcaGagagaacagggaaatttcct	13	11	10	7	1	1	2	1	0	1	2	4	5	2	4	1	2	2	2	1	2	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:70970953G>A	uc003xym.2	-	6	1510	c.1308C>T	c.(1306-1308)CTC>CTT	p.L436L		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	436	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			ATCGTTTGCAGAGAGAACAGG	0.473													30	95					0	0	0.010818	0	0		A	70970953	A	A	70970953	2	1	179	1	0	0	0	0	0	0	0	1	12477	929	33	4		4	PRDM14	8	70970953	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	18649548	70970953	75393069	138	91547											
TRPA1	8989	broad.mit.edu	37	chr8	72964896	72964896	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtgaagtgcaaggtgcaaAaaggaggcctgctgcttgtt	10	11	14	6	0	0	1	0	1	0	0	0	2	0	2	1	3	4	5	1	3	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:72964896A>C	uc003xza.2	-	14	1924	c.1749T>G	c.(1747-1749)TTT>TTG	p.F583L	uc011lff.1_RNA|uc003xyy.2_RNA	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	583	ANK 15.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	CAAGGTGCAAAAAGGAGGCCT	0.493													61	191					0	0	0.01441	0	0		C	72964896	C	C	72964896	3	2	179	1	0	0	0	0	1	0	0	0	16603	11	1	5	1666	5	TRPA1	8	72964896	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	1993943	72964896	73399126	139	91548											
ZFPM2	23414	broad.mit.edu	37	chr8	106813376	106813376	+	Missense_Mutation	SNP	T	C	C	0	1	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	actttcaccaacacctgttcTcccatctcactcaagctgcc	9	11	3	18	0	4	0	3	0	2	0	6	0	4	0	4	0	3	2	4	0	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:106813376T>C	uc003ymd.2	+	8	1089	c.1066T>C	c.(1066-1068)TCC>CCC	p.S356P	ZFPM2_uc011lhs.1_Missense_Mutation_p.S87P|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	356	C2H2-type 2.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			ACACCTGTTCTCCCATCTCAC	0.507													164	245					0	0	0.01441	0	0		C	106813376	C	C	106813376	3	2	179	1	0	0	0	0	1	0	0	0	17683	1551	54	3	1096	3	ZFPM2	8	106813376	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	33848480	106813376	39550646	140	91549											
CSMD3	114788	broad.mit.edu	37	chr8	113243805	113243805	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccaaattgtccataatcTttgccttgaataaatccttg	12	14	6	9	0	1	1	0	1	1	0	3	1	3	1	4	1	1	0	4	1	5	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:113243805T>G	uc003ynu.2	-	69	10956	c.10797A>C	c.(10795-10797)AAA>AAC	p.K3599N	CSMD3_uc003yns.2_Missense_Mutation_p.K2801N|CSMD3_uc003ynt.2_Missense_Mutation_p.K3559N|CSMD3_uc011lhx.1_Missense_Mutation_p.K3430N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3599	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GTCCATAATCTTTGCCTTGAA	0.338										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			61	275					0	0	0.01441	0	0		G	113243805	G	G	113243805	3	3	179	1	0	0	0	0	1	0	0	0	3949	1606	56	5	338	5	CSMD3	8	113243805	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	6430429	113243805	33120217	141	91550											
CSMD3	114788	broad.mit.edu	37	chr8	113563095	113563095	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttccgtatcaaaagcaagaaActgcaagctgtgggagaacc	15	7	10	9	1	1	2	1	0	0	2	2	3	2	2	2	1	5	4	2	1	7	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:113563095A>G	uc003ynu.2	-	27	4528	c.4369T>C	c.(4369-4371)TTT>CTT	p.F1457L	CSMD3_uc003yns.2_Missense_Mutation_p.F729L|CSMD3_uc003ynt.2_Missense_Mutation_p.F1417L|CSMD3_uc011lhx.1_Missense_Mutation_p.F1353L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1457	Extracellular (Potential).|CUB 8.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AAAGCAAGAAACTGCAAGCTG	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			30	50					0	0	0.003271	0	0		G	113563095	G	G	113563095	3	3	179	1	0	0	0	0	1	0	0	0	3949	43	2	3	6934	3	CSMD3	8	113563095	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	319290	113563095	32800927	142	91551											
CSMD3	114788	broad.mit.edu	37	chr8	113662404	113662404	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattaccatcacaggttggaAgtggatgactccaccagtgg	11	10	11	9	0	1	1	1	1	0	0	2	3	2	3	3	4	1	1	3	4	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:113662404A>C	uc003ynu.2	-	19	3338	c.3179T>G	c.(3178-3180)CTT>CGT	p.L1060R	CSMD3_uc003yns.2_Missense_Mutation_p.L332R|CSMD3_uc003ynt.2_Missense_Mutation_p.L1020R|CSMD3_uc011lhx.1_Missense_Mutation_p.L956R	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1060	Extracellular (Potential).|Sushi 5.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACAGGTTGGAAGTGGATGACT	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			32	150					0	0	0.003755	0	0		C	113662404	C	C	113662404	3	2	179	1	0	0	0	0	1	0	0	0	3949	72	3	5	8156	5	CSMD3	8	113662404	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	99309	113662404	32701618	143	91552											
SLC30A8	169026	broad.mit.edu	37	chr8	118174111	118174111	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgtgctaattagtgcacTtattatctactttaaggtga	11	16	8	6	0	1	1	0	1	1	0	1	1	1	1	0	1	3	2	0	1	6	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:118174111T>G	uc003yoh.2	+	5	937	c.707T>G	c.(706-708)CTT>CGT	p.L236R	SLC30A8_uc010mcz.2_Missense_Mutation_p.L187R|SLC30A8_uc011lia.1_Missense_Mutation_p.L187R|SLC30A8_uc003yog.2_Missense_Mutation_p.L187R	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	236	Helical; (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			ATTAGTGCACTTATTATCTAC	0.408													27	99					0	0	0.00632	0	0		G	118174111	G	G	118174111	3	3	179	1	0	0	0	0	1	0	0	0	14586	1609	56	5	725	5	SLC30A8	8	118174111	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	4511707	118174111	28189911	144	91553											
COL22A1	169044	broad.mit.edu	37	chr8	139715560	139715560	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaacttacagttccaggtaAcccgggagggcctgcaggac	10	7	13	11	1	0	0	0	0	0	0	1	2	1	2	3	4	4	4	3	4	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:139715560A>C	uc003yvd.2	-	31	2995	c.2548T>G	c.(2548-2550)TTA>GTA	p.L850V	COL22A1_uc011ljo.1_Missense_Mutation_p.L150V	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	850	Pro-rich.|Gly-rich.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GTTCCAGGTAACCCGGGAGGG	0.468										HNSCC(7;0.00092)			20	96					0	0	0.00333	0	0		C	139715560	C	C	139715560	3	2	179	1	0	0	0	0	1	0	0	0	3684	40	2	5	2472	5	COL22A1	8	139715560	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	21541449	139715560	6648462	145	91554											
EPPK1	83481	broad.mit.edu	37	chr8	144941902	144941902	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttgatgccttggttttgCgtctctgtttcttcaattgt	4	21	8	8	1	3	1	1	1	2	0	4	1	3	1	1	1	2	2	1	1	1	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr8:144941902C>T	uc003zaa.1	-	1	5533	c.5520G>A	c.(5518-5520)ACG>ACA	p.T1840T		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1840						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CTTGGTTTTGCGTCTCTGTTT	0.542													10	393					0	0	0.013537	0	0		T	144941902	T	T	144941902	2	4	179	1	0	0	0	0	0	0	0	1	5198	755	27	1		1	EPPK1	8	144941902	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	5226342	144941902	1422120	146	91555											
PTPRD	5789	broad.mit.edu	37	chr9	8341911	8341911	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccataaatatctacagtttTttcatgctttattctttcta	10	20	3	8	0	4	0	1	0	3	0	4	0	4	0	1	0	2	2	1	0	6	11			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:8341911T>A	uc003zkk.2	-	39	5440	c.4729A>T	c.(4729-4731)AAA>TAA	p.K1577*	PTPRD_uc003zkp.2_Nonsense_Mutation_p.K1171*|PTPRD_uc003zkq.2_Nonsense_Mutation_p.K1170*|PTPRD_uc003zkr.2_Nonsense_Mutation_p.K1161*|PTPRD_uc003zks.2_Nonsense_Mutation_p.K1170*|PTPRD_uc003zkl.2_Nonsense_Mutation_p.K1568*|PTPRD_uc003zkm.2_Nonsense_Mutation_p.K1564*|PTPRD_uc003zkn.2_Nonsense_Mutation_p.K1166*|PTPRD_uc003zko.2_Nonsense_Mutation_p.K1167*	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1577	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TCTACAGTTTTTTCATGCTTT	0.388										TSP Lung(15;0.13)			31	135					0	0	0.009535	0	0		A	8341911	A	A	8341911	4	1	179	1	0	0	0	0	0	1	0	0	12824	1850	64	5	1037	5	PTPRD	9	8341911	Nonsense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08		8341911	132871520	147	91556											
DNAI1	27019	broad.mit.edu	37	chr9	34517452	34517452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagctctcacccaatttgcGcaagatgccaaaggtacagg	13	7	9	12	1	1	1	1	0	1	1	2	1	1	1	2	2	4	3	2	2	5	2	rs150107677		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:34517452G>A	uc003zum.2	+	19	2181	c.1988G>A	c.(1987-1989)CGC>CAC	p.R663H		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	663	WD 5.				cell projection organization	cilium axoneme|cytoplasm|dynein complex|microtubule	motor activity				0	all_epithelial(49;0.244)		LUSC - Lung squamous cell carcinoma(29;0.0107)|STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.0222)		CCCAATTTGCGCAAGATGCCA	0.443									Kartagener_syndrome				26	83					0	0	0.007291	0	0		A	34517452	A	A	34517452	3	1	179	1	0	0	0	0	1	0	0	0	4615	1087	38	1	2062	1	DNAI1	9	34517452	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	26175541	34517452	106695979	148	91557											
TMEM2	23670	broad.mit.edu	37	chr9	74319525	74319525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatacttgttgaagttgacGaggtatagaaatgtagtccg	13	12	11	5	2	0	3	0	2	0	1	1	4	1	3	1	1	1	4	1	1	6	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:74319525G>A	uc011lsa.1	-	18	3720	c.3180C>T	c.(3178-3180)CTC>CTT	p.L1060L	TMEM2_uc011lrz.1_Silent_p.L53L|TMEM2_uc010mos.2_Silent_p.L997L|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1060						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TGAAGTTGACGAGGTATAGAA	0.428													18	51					0	0	0.006122	0	0		A	74319525	A	A	74319525	2	1	179	1	0	0	0	0	0	0	0	1	16146	1045	37	1		1	TMEM2	9	74319525	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	39802073	74319525	66893906	149	91558											
COL15A1	1306	broad.mit.edu	37	chr9	101818614	101818614	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctgcctgggccacctggcTttggaagacctggtgatcct	5	11	13	12	0	1	2	0	1	1	1	2	3	2	3	5	4	1	1	5	4	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:101818614T>A	uc004azb.1	+	35	3471	c.3265T>A	c.(3265-3267)TTT>ATT	p.F1089I		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1089	Triple-helical region 8 (COL8).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GCCACCTGGCTTTGGAAGACC	0.627													39	67					0	0	0.005524	0	0		A	101818614	A	A	101818614	3	1	179	1	0	0	0	0	1	0	0	0	3675	1609	56	5	3403	5	COL15A1	9	101818614	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	27499089	101818614	39394817	150	91559											
SMC2	10592	broad.mit.edu	37	chr9	106864469	106864469	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaattggaaaaaagaaaaGataaggtctgaacatatgta	22	8	9	2	0	1	4	0	1	1	3	1	5	1	5	0	2	1	1	0	2	11	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:106864469G>C	uc004bbv.2	+	8	1153	c.865G>C	c.(865-867)GAT>CAT	p.D289H	SMC2_uc004bbu.1_Missense_Mutation_p.D289H|SMC2_uc004bbw.2_Missense_Mutation_p.D289H|SMC2_uc011lvl.1_Missense_Mutation_p.D289H|SMC2_uc010mtg.1_Missense_Mutation_p.D144H|SMC2_uc010mth.1_Missense_Mutation_p.D239H|SMC2_uc004bbx.2_Missense_Mutation_p.D289H	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	structural maintenance of chromosomes 2	289	Potential.				cell division|mitotic chromosome condensation|symbiosis, encompassing mutualism through parasitism	condensin complex|cytoplasm|nuclear chromosome	ATP binding|protein heterodimerization activity			ovary(4)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|breast(1)	9						AAAAAGAAAAGATAAGGTCTG	0.269													12	23					0	0	0.010729	0	0		C	106864469	C	C	106864469	3	2	179	1	0	0	0	0	1	0	0	0	14808	942	33	5	891	5	SMC2	9	106864469	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	5045855	106864469	34348962	151	91560											
TLR4	7099	broad.mit.edu	37	chr9	120474967	120474967	+	Missense_Mutation	SNP	T	G	G	0	1	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	gacctttccagcaacaagatTcaaagtatttattgcacaga	15	11	6	9	0	1	2	1	0	0	2	2	3	2	2	2	0	3	3	2	0	5	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:120474967T>G	uc004bjz.2	+	3	852	c.561T>G	c.(559-561)ATT>ATG	p.I187M	TLR4_uc004bka.2_Missense_Mutation_p.I147M|TLR4_uc004bkb.2_Translation_Start_Site	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	187	Extracellular (Potential).|LRR 6.				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						GCAACAAGATTCAAAGTATTT	0.393													29	60					0	0	0.013726	0	0		G	120474967	G	G	120474967	3	3	179	1	0	0	0	0	1	0	0	0	15978	1771	62	5	571	5	TLR4	9	120474967	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	13610498	120474967	20738464	152	91561											
DAB2IP	153090	broad.mit.edu	37	chr9	124535628	124535628	+	Missense_Mutation	SNP	A	C	C	1	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	ggacgccccccaacctgctgAgcaccctgcagtacccaaga	10	4	9	18	1	0	2	0	1	0	1	0	3	0	3	6	1	5	4	6	1	3	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:124535628A>C	uc004bln.2	+	12	2806	c.2737A>C	c.(2737-2739)AGC>CGC	p.S913R	DAB2IP_uc004blo.2_Missense_Mutation_p.S817R|DAB2IP_uc004blp.2_Missense_Mutation_p.S346R	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	941	Pro-rich.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CAACCTGCTGAGCACCCTGCA	0.542													3	7					0	0	0.009096	0	0		C	124535628	C	C	124535628	3	2	179	1	0	0	0	0	1	0	0	0	4222	304	11	5	2783	5	DAB2IP	9	124535628	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	4060661	124535628	16677803	153	91562											
LMX1B	4010	broad.mit.edu	37	chr9	129455843	129455843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagacgggcctcagtgtgcGcgtggtccaggtctggtttc	4	11	16	10	3	2	1	1	1	1	1	4	2	3	1	2	4	1	1	2	4	0	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:129455843G>A	uc004bqj.2	+	5	763	c.713G>A	c.(712-714)CGC>CAC	p.R238H	LMX1B_uc004bqi.2_Missense_Mutation_p.R238H|LMX1B_uc011maa.1_Missense_Mutation_p.R238H	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	238	Homeobox.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTCAGTGTGCGCGTGGTCCAG	0.647									Nail-Patella_Syndrome				45	23					0	0	0.01441	0	0		A	129455843	A	A	129455843	3	1	179	1	0	0	0	0	1	0	0	0	8879	1087	38	1	800	1	LMX1B	9	129455843	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	4920215	129455843	11757588	154	91563											
TTF1	7270	broad.mit.edu	37	chr9	135277625	135277625	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacagaaagccaggactccTcctggtgggattctgactga	10	8	11	12	0	1	3	0	2	1	1	3	5	3	5	4	3	1	0	4	3	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr9:135277625T>C	uc004cbl.2	-	2	636	c.584A>G	c.(583-585)GAG>GGG	p.E195G	TTF1_uc011mcp.1_RNA|TTF1_uc004cbm.2_Intron	NM_007344	NP_031370	Q15361	TTF1_HUMAN	transcription termination factor, RNA polymerase	195	N-terminal region (NRD) (By similarity).				negative regulation of DNA replication|regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription	nucleolus|nucleoplasm	DNA binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;4.25e-06)|Epithelial(140;9.09e-05)		CCAGGACTCCTCCTGGTGGGA	0.468													17	44					0	0	0.010504	0	0		C	135277625	C	C	135277625	3	2	179	1	0	0	0	0	1	0	0	0	16744	1551	54	3	2173	3	TTF1	9	135277625	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	5821782	135277625	5935806	155	91564											
FRMD4A	55691	broad.mit.edu	37	chr10	13698746	13698746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtccgaggaggtggagctgGtgtgcgacaggcggctgtgc	5	8	20	8	3	0	0	0	0	0	0	1	4	1	2	1	6	3	2	1	6	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:13698746G>A	uc001ims.2	-	22	3195	c.2843C>T	c.(2842-2844)ACC>ATC	p.T948I	FRMD4A_uc009xjf.1_Missense_Mutation_p.T948I	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	948	Ser-rich.					cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						GGTGGAGCTGGTGTGCGACAG	0.677													22	24					0	0	0.005443	0	0		A	13698746	A	A	13698746	3	1	179	1	0	0	0	0	1	0	0	0	6065	1261	44	4	288	4	FRMD4A	10	13698746	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08		13698746	121836001	156	91565											
ZEB1	6935	broad.mit.edu	37	chr10	31810641	31810641	+	Missense_Mutation	SNP	T	A	A	0	1	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	agaaccagttgtaaatgtaaTcccaccaagtgccaacccca	15	7	6	13	0	0	1	0	0	0	1	1	1	1	1	6	0	3	3	6	0	6	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:31810641T>A	uc001ivs.3	+	7	2441	c.2378T>A	c.(2377-2379)ATC>AAC	p.I793N	ZEB1_uc001ivr.3_Missense_Mutation_p.I575N|ZEB1_uc010qee.1_Missense_Mutation_p.I575N|ZEB1_uc010qef.1_Missense_Mutation_p.I575N|ZEB1_uc009xlj.1_Missense_Mutation_p.I719N|ZEB1_uc010qeg.1_Missense_Mutation_p.I652N|ZEB1_uc009xlk.1_Missense_Mutation_p.I575N|ZEB1_uc001ivt.3_Missense_Mutation_p.I575N|ZEB1_uc001ivu.3_Missense_Mutation_p.I794N|ZEB1_uc001ivv.3_Missense_Mutation_p.I773N|ZEB1_uc010qeh.1_Missense_Mutation_p.I726N|ZEB1_uc009xlo.1_Missense_Mutation_p.I776N|ZEB1_uc009xlp.2_Missense_Mutation_p.I777N	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	793					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				GTAAATGTAATCCCACCAAGT	0.453													22	42					0	0	0.014323	0	0		A	31810641	A	A	31810641	3	1	179	1	0	0	0	0	1	0	0	0	17648	1435	50	5	2418	5	ZEB1	10	31810641	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	18111895	31810641	103724106	157	91566											
ZEB1	6935	broad.mit.edu	37	chr10	31815887	31815887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcacagggcgactcggacGagagagagagtttgacaagg	12	5	15	9	3	1	3	1	1	0	2	2	8	1	4	1	3	0	1	1	3	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:31815887G>A	uc001ivs.3	+	9	3133	c.3070G>A	c.(3070-3072)GAG>AAG	p.E1024K	ZEB1_uc001ivr.3_Missense_Mutation_p.E806K|ZEB1_uc010qee.1_Missense_Mutation_p.E806K|ZEB1_uc010qef.1_Missense_Mutation_p.E806K|ZEB1_uc001ivt.3_Missense_Mutation_p.E806K|ZEB1_uc001ivu.3_Missense_Mutation_p.E1025K|ZEB1_uc001ivv.3_Missense_Mutation_p.E1004K|ZEB1_uc010qeh.1_Missense_Mutation_p.E957K|ZEB1_uc009xlp.2_Missense_Mutation_p.E1008K	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	1024	Glu-rich (acidic).				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CGACTCGGACGAGAGAGAGAG	0.398													19	17					0	0	0.006122	0	0		A	31815887	A	A	31815887	3	1	179	1	0	0	0	0	1	0	0	0	17648	1059	37	1	3118	1	ZEB1	10	31815887	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	5246	31815887	103718860	158	91567											
KIF5B	3799	broad.mit.edu	37	chr10	32323763	32323763	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtgttcttaattgttttGgccctaagagatgtaattgg	9	17	10	5	0	1	1	0	0	1	1	1	2	1	1	1	2	0	3	1	2	3	8			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:32323763G>C	uc001iwe.3	-	11	1436	c.966C>G	c.(964-966)GCC>GCG	p.A322A		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	322	Kinesin-motor.				stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				TAATTGTTTTGGCCCTAAGAG	0.303													9	37					0	0	0.006214	0	0		C	32323763	C	C	32323763	2	2	179	1	0	0	0	0	0	0	0	1	8322	1335	47	5		5	KIF5B	10	32323763	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	507876	32323763	103210984	159	91568											
PRKG1	5592	broad.mit.edu	37	chr10	53667323	53667323	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcaagcttgctgatgtccTtgaagaggtaattgttttta	10	15	10	6	0	0	3	0	2	0	1	1	3	1	3	1	1	3	5	1	1	4	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:53667323T>C	uc001jjm.2	+	5	904	c.710T>C	c.(709-711)CTT>CCT	p.L237P	PRKG1_uc001jjn.2_Missense_Mutation_p.L252P|PRKG1_uc001jjo.2_Missense_Mutation_p.L252P	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform	237	cGMP 2.				actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		GCTGATGTCCTTGAAGAGGTA	0.443													49	68					0	0	0.01441	0	0		C	53667323	C	C	53667323	3	2	179	1	0	0	0	0	1	0	0	0	12544	1609	56	3	1043	3	PRKG1	10	53667323	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	21343560	53667323	81867424	160	91569											
H2AFY2	55506	broad.mit.edu	37	chr10	71868938	71868938	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagaagctaaagtccgtcGcgttcccgcctttccccagc	9	8	8	16	4	0	1	0	0	0	1	4	1	3	1	5	0	2	2	5	0	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:71868938G>A	uc001jqm.2	+	8	1387	c.928G>A	c.(928-930)GCG>ACG	p.A310T	H2AFY2_uc001jqn.2_RNA|AIFM2_uc010qjg.1_Intron	NM_018649	NP_061119	Q9P0M6	H2AW_HUMAN	H2A histone family, member Y2	310	Macro.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding			skin(1)	1						AAAGTCCGTCGCGTTCCCGCC	0.542													18	35					0	0	0.010504	0	0		A	71868938	A	A	71868938	3	1	179	1	0	0	0	0	1	0	0	0	6946	1087	38	1	954	1	H2AFY2	10	71868938	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	18201615	71868938	63665809	161	91570											
MYOZ1	58529	broad.mit.edu	37	chr10	75391755	75391755	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtctacaggctccccaGagctcagccagggaataggg	10	7	13	11	0	2	1	1	0	1	1	3	2	3	2	3	3	3	3	3	3	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:75391755G>T	uc001jur.2	-	6	1198	c.833C>A	c.(832-834)TCT>TAT	p.S278Y		NM_021245	NP_067068	Q9NP98	MYOZ1_HUMAN	myozenin 1	278					myofibril assembly	nucleus|pseudopodium	FATZ binding			ovary(2)	2	Prostate(51;0.0112)					AGGCTCCCCAGAGCTCAGCCA	0.527													19	35					1.00905e-13	1.13202e-13	0.008871	1	0		T	75391755	T	T	75391755	3	4	179	1	0	0	0	0	1	0	0	0	10113	942	33	5	70	5	MYOZ1	10	75391755	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	3522817	75391755	60142992	162	91571											
POLR3A	11128	broad.mit.edu	37	chr10	79770279	79770279	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcggttccccattcctcgggGttacaagatttgctttagtc	6	14	10	11	2	0	1	0	0	0	1	4	1	2	1	3	3	2	3	3	3	3	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:79770279G>T	uc001jzn.2	-	12	1686	c.1592C>A	c.(1591-1593)ACC>AAC	p.T531N		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	531					innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			ATTCCTCGGGGTTACAAGATT	0.448													33	44					4.62619e-21	5.22265e-21	0.004289	1	0		T	79770279	T	T	79770279	3	4	179	1	0	0	0	0	1	0	0	0	12247	1261	44	5	2660	5	POLR3A	10	79770279	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	4378524	79770279	55764468	163	91572											
SH2D4B	387694	broad.mit.edu	37	chr10	82369292	82369292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggaacaccaagttcatcGccccctggttccatggtagc	10	8	10	13	1	1	1	1	0	0	1	3	2	2	2	4	3	2	3	4	3	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:82369292G>A	uc001kck.1	+	6	1400	c.970G>A	c.(970-972)GCC>ACC	p.A324T	SH2D4B_uc001kcl.1_Missense_Mutation_p.A276T|SH2D4B_uc001kcm.1_Missense_Mutation_p.A71T	NM_207372	NP_997255	Q5SQS7	SH24B_HUMAN	SH2 domain containing 4B isoform 1	323											0			Colorectal(32;0.229)			CAAGTTCATCGCCCCCTGGTT	0.597													41	70					0	0	0.01441	0	0		A	82369292	A	A	82369292	3	1	179	1	0	0	0	0	1	0	0	0	14261	1087	38	1	1036	1	SH2D4B	10	82369292	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	2599013	82369292	53165455	164	91573											
GRID1	2894	broad.mit.edu	37	chr10	87362286	87362286	+	Missense_Mutation	SNP	A	C	C	1	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	gcagaaaggtgctgaccgagAgctgggtgttctggtactcc	8	9	15	9	1	1	3	0	1	1	2	2	4	2	3	2	3	3	5	2	3	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:87362286A>C	uc001kdl.1	-	16	2875	c.2774T>G	c.(2773-2775)CTC>CGC	p.L925R	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.L496R|uc001kdk.1_Intron	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	925	Cytoplasmic (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	GCTGACCGAGAGCTGGGTGTT	0.652										Multiple Myeloma(13;0.14)			10	33					0	0	0.008291	0	0		C	87362286	C	C	87362286	3	2	179	1	0	0	0	0	1	0	0	0	6787	304	11	5	259	5	GRID1	10	87362286	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	4992994	87362286	48172461	165	91574											
ATRNL1	26033	broad.mit.edu	37	chr10	117026287	117026287	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaataggtccatgtatataTttgggggattttctagtgta	10	18	10	3	0	1	0	0	0	1	0	2	1	2	1	1	3	0	2	1	3	7	10			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:117026287T>A	uc001lcg.2	+	12	2172	c.1786T>A	c.(1786-1788)TTT>ATT	p.F596I		NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	596	Kelch 6.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		CATGTATATATTTGGGGGATT	0.313													33	64					0	0	0.003755	0	0		A	117026287	A	A	117026287	3	1	179	1	0	0	0	0	1	0	0	0	1208	1493	52	5	1832	5	ATRNL1	10	117026287	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	29664001	117026287	18508460	166	91575											
HTRA1	5654	broad.mit.edu	37	chr10	124273782	124273782	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccgccaatgatgtcagcgaCgtcattaaaagggaaagcac	14	7	10	10	3	2	1	2	1	0	0	3	3	3	2	2	1	2	1	2	1	4	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:124273782C>T	uc001lgj.2	+	9	1478	c.1350C>T	c.(1348-1350)GAC>GAT	p.D450D		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	450	PDZ.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				ATGTCAGCGACGTCATTAAAA	0.483													20	184					0	0	0.012319	0	0		T	124273782	T	T	124273782	2	4	179	1	0	0	0	0	0	0	0	1	7469	535	19	1		1	HTRA1	10	124273782	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	7247495	124273782	11260965	167	91576											
CPXM2	119587	broad.mit.edu	37	chr10	125528097	125528097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggggaggacgtgaatcCgcgtctcctccaccaggtgg	7	6	17	11	3	1	1	0	1	1	0	4	4	3	4	4	6	0	0	4	6	1	0	rs139425659	byFrequency	TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:125528097C>T	uc001lhk.1	-	9	1569	c.1244G>A	c.(1243-1245)CGG>CAG	p.R415Q	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	415					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		GACGTGAATCCGCGTCTCCTC	0.637													36	77					0	0	0.005524	0	0		T	125528097	T	T	125528097	3	4	179	1	0	0	0	0	1	0	0	0	3841	652	23	1	1050	1	CPXM2	10	125528097	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	1254315	125528097	10006650	168	91577											
INPP5A	3632	broad.mit.edu	37	chr10	134579334	134579334	+	Missense_Mutation	SNP	A	G	G	1	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	acagactgtatgaactggacAtctcgttccctcccaggtat	10	11	8	12	1	1	2	0	1	1	1	4	3	3	3	2	2	1	3	2	2	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr10:134579334A>G	uc001llp.2	+	12	1209	c.961A>G	c.(961-963)ATC>GTC	p.I321V	INPP5A_uc001llo.1_Missense_Mutation_p.I321V|INPP5A_uc001llq.2_Missense_Mutation_p.I216V	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	321					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		TGAACTGGACATCTCGTTCCC	0.488													29	58					0	0	0.010818	0	0		G	134579334	G	G	134579334	3	3	179	1	0	0	0	0	1	0	0	0	7770	217	8	3	1007	3	INPP5A	10	134579334	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	9051237	134579334	955413	169	91578											
ART5	116969	broad.mit.edu	37	chr11	3661431	3661431	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaagccctcgacgcttgtcCtcccaggtctcctgggctgc	4	10	11	16	2	1	0	0	0	1	0	5	1	3	0	4	2	2	3	4	2	1	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:3661431C>G	uc001lyb.1	-	2	621	c.228G>C	c.(226-228)GAG>GAC	p.E76D	ART5_uc001lyc.1_Missense_Mutation_p.E76D|ART5_uc001lyd.2_Missense_Mutation_p.E76D|ART5_uc009yea.2_Missense_Mutation_p.E76D	NM_053017	NP_443750	Q96L15	NAR5_HUMAN	ADP-ribosyltransferase 5 precursor	76						extracellular region	NAD(P)+-protein-arginine ADP-ribosyltransferase activity			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0336)|LUSC - Lung squamous cell carcinoma(625;0.19)		GACGCTTGTCCTCCCAGGTCT	0.582													46	46					0	0	0.01441	0	0		G	3661431	G	G	3661431	3	3	179	1	0	0	0	0	1	0	0	0	1001	680	24	5	659	5	ART5	11	3661431	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08		3661431	131345085	170	91579											
NUP98	4928	broad.mit.edu	37	chr11	3716775	3716775	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaccaactgcatggtgagCagctcccggactgactggct	8	8	11	14	1	0	2	0	2	0	0	2	3	2	3	3	3	4	4	3	3	1	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:3716775C>T	uc001lyh.2	-	26	4362	c.4071G>A	c.(4069-4071)CTG>CTA	p.L1357L	NUP98_uc001lyi.2_Silent_p.L1357L|NUP98_uc001lyg.2_Silent_p.L322L	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1374					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		GCATGGTGAGCAGCTCCCGGA	0.483			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								126	106					0	0	0.01441	0	0		T	3716775	T	T	3716775	2	4	179	1	0	0	0	0	0	0	0	1	10792	697	25	2		2	NUP98	11	3716775	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	55344	3716775	131289741	171	91580											
OR51L1	119682	broad.mit.edu	37	chr11	5021135	5021135	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtctaggaattctccacaAgtttgtcctaaggaggaggt	10	12	11	8	1	2	0	0	0	2	0	5	3	3	3	2	4	0	1	2	4	4	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:5021135A>G	uc010qyu.1	+	1	923	c.923A>G	c.(922-924)AAG>AGG	p.K308R		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ATTCTCCACAAGTTTGTCCTA	0.403													17	42					0	0	0.007413	0	0		G	5021135	G	G	5021135	3	3	179	1	0	0	0	0	1	0	0	0	11121	72	3	3	925	3	OR51L1	11	5021135	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	1304360	5021135	129985381	172	91581											
NLRP10	338322	broad.mit.edu	37	chr11	7982281	7982281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattcctcaaagccaggggcCgggtggtgatgagaagggag	10	6	18	7	1	1	2	1	2	0	1	2	5	2	3	3	5	1	0	3	5	2	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:7982281C>T	uc001mfv.1	-	2	895	c.878G>A	c.(877-879)CGG>CAG	p.R293Q		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	293	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AGCCAGGGGCCGGGTGGTGAT	0.542													54	82					0	0	0.01441	0	0		T	7982281	T	T	7982281	3	4	179	1	0	0	0	0	1	0	0	0	10491	652	23	1	1093	1	NLRP10	11	7982281	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	2961146	7982281	127024235	173	91582											
ANO5	203859	broad.mit.edu	37	chr11	22294501	22294501	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgtttggcaagacattcTttatggaatggctgtccttt	8	16	11	6	0	1	1	0	0	1	1	2	2	2	2	1	4	0	3	1	4	3	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:22294501T>G	uc001mqi.2	+	19	2518	c.2201T>G	c.(2200-2202)CTT>CGT	p.L734R	ANO5_uc001mqj.2_Missense_Mutation_p.L733R	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	734	Helical; (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						CAAGACATTCTTTATGGAATG	0.423													52	85					0	0	0.01441	0	0		G	22294501	G	G	22294501	3	3	179	1	0	0	0	0	1	0	0	0	700	1609	56	5	2275	5	ANO5	11	22294501	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	14312220	22294501	112712015	174	91583											
MPPED2	744	broad.mit.edu	37	chr11	30516921	30516921	+	Missense_Mutation	SNP	T	C	C	0	1	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	tactgtttgtcaggagggacTgaacattgtcaaagtcctct	10	13	10	8	0	3	1	2	1	1	0	4	3	4	3	1	2	2	1	1	2	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:30516921T>C	uc001msr.2	-	3	578	c.458A>G	c.(457-459)CAG>CGG	p.Q153R	MPPED2_uc001msq.3_Missense_Mutation_p.Q153R|MPPED2_uc009yji.2_Missense_Mutation_p.Q27R	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	153					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						CAGGAGGGACTGAACATTGTC	0.418													35	42					0	0	0.003755	0	0		C	30516921	C	C	30516921	3	2	179	1	0	0	0	0	1	0	0	0	9760	1580	55	3	514	3	MPPED2	11	30516921	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	8222420	30516921	104489595	175	91584											
OR5D13	390142	broad.mit.edu	37	chr11	55541616	55541616	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagatgcgatctgcaagtGggcgccagaaaactttctcc	11	9	11	10	2	2	3	0	1	2	2	3	4	2	3	2	1	3	1	2	1	4	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:55541616G>T	uc010ril.1	+	1	703	c.703G>T	c.(703-705)GGG>TGG	p.G235W		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				ATCTGCAAGTGGGCGCCAGAA	0.408													52	73					7.34454e-26	8.31764e-26	0.01441	1	0		T	55541616	T	T	55541616	3	4	179	1	0	0	0	0	1	0	0	0	11173	1348	47	5	705	5	OR5D13	11	55541616	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	25024695	55541616	79464900	176	91585											
OR8H1	219469	broad.mit.edu	37	chr11	56058469	56058469	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtataaagagggccatctGgacctcttcagaatctgaca	13	10	9	9	0	4	3	1	1	3	2	4	4	4	4	2	2	0	1	2	2	5	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:56058469G>A	uc010rje.1	-	1	70	c.70C>T	c.(70-72)CAG>TAG	p.Q24*		NM_001005199	NP_001005199	Q8NGG4	OR8H1_HUMAN	olfactory receptor, family 8, subfamily H,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3	Esophageal squamous(21;0.00448)					AGGGCCATCTGGACCTCTTCA	0.423													33	76					0	0	0.010818	0	0		A	56058469	A	A	56058469	4	1	179	1	0	0	0	0	0	1	0	0	11256	1357	47	4	867	4	OR8H1	11	56058469	Nonsense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	516853	56058469	78948047	177	91586											
OR8K1	390157	broad.mit.edu	37	chr11	56113852	56113852	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctagcattctttgagatttTcatcatctctgagctcttta	8	18	6	9	0	5	2	2	2	3	1	6	3	5	2	0	0	2	3	0	0	2	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:56113852T>C	uc010rjg.1	+	1	338	c.338T>C	c.(337-339)TTC>TCC	p.F113S		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	113	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TTTGAGATTTTCATCATCTCT	0.403										HNSCC(65;0.19)			69	138					0	0	0.01441	0	0		C	56113852	C	C	56113852	3	2	179	1	0	0	0	0	1	0	0	0	11262	1783	62	3	340	3	OR8K1	11	56113852	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	55383	56113852	78892664	178	91587											
CPSF7	79869	broad.mit.edu	37	chr11	61183777	61183777	+	Silent	SNP	A	G	G	1	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	tggataccaggaggaggaggAgggaccccaaagcttgagga	13	4	17	7	0	0	1	0	1	0	0	0	8	0	8	3	7	2	1	3	7	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:61183777A>G	uc001nrq.2	-	6	899	c.765T>C	c.(763-765)CCT>CCC	p.P255P	CPSF7_uc001nro.2_Silent_p.P246P|CPSF7_uc001nrp.2_Silent_p.P298P|CPSF7_uc001nrr.2_Silent_p.P246P|CPSF7_uc001nrs.1_Silent_p.P156P	NM_001136040	NP_001129512	Q8N684	CPSF7_HUMAN	pre-mRNA cleavage factor I, 59 kDa subunit	255	Pro-rich.				mRNA 3'-end processing|nuclear mRNA splicing, via spliceosome|protein tetramerization|termination of RNA polymerase II transcription	mRNA cleavage factor complex	nucleotide binding|protein binding|RNA binding			central_nervous_system(1)	1						GAGGAGGAGGAGGGACCCCAA	0.617													3	63					0	0	0.004672	0	0		G	61183777	G	G	61183777	2	3	179	1	0	0	0	0	0	0	0	1	3833	291	11	3		3	CPSF7	11	61183777	Silent	SNP	A	TCGA-D7-6822-01A-11D-1882-08	5069925	61183777	73822739	179	91588											
C11orf82	220042	broad.mit.edu	37	chr11	82645281	82645281	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctattcttggacctgattcTtgttcagaagtcaaatgttg	9	16	8	8	0	4	2	2	1	2	1	4	3	4	3	2	1	0	2	2	1	3	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:82645281T>C	uc001ozt.2	+	6	3145	c.2901T>C	c.(2899-2901)TCT>TCC	p.S967S	C11orf82_uc010rsr.1_Silent_p.S666S|C11orf82_uc010rss.1_Silent_p.S666S|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	967					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						GACCTGATTCTTGTTCAGAAG	0.408													35	43					0	0	0.003271	0	0		C	82645281	C	C	82645281	2	2	179	1	0	0	0	0	0	0	0	1	1668	1596	56	3		3	C11orf82	11	82645281	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	21461504	82645281	52361235	180	91589											
DLG2	1740	broad.mit.edu	37	chr11	83177774	83177774	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggttccagagacctgggTtttatgaagatggcaatggg	11	10	15	5	0	0	4	0	1	0	3	1	5	1	4	2	4	0	3	2	4	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:83177774T>G	uc001paj.2	-	21	2694	c.2391A>C	c.(2389-2391)AAA>AAC	p.K797N	DLG2_uc001pai.2_Missense_Mutation_p.K676N|DLG2_uc010rsy.1_Missense_Mutation_p.K746N|DLG2_uc010rsz.1_Missense_Mutation_p.K793N|DLG2_uc010rta.1_Missense_Mutation_p.K779N|DLG2_uc001pak.2_Missense_Mutation_p.K902N|DLG2_uc010rtb.1_Missense_Mutation_p.K764N|DLG2_uc010rsw.1_Missense_Mutation_p.K261N|DLG2_uc010rsx.1_Missense_Mutation_p.K274N	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	797	Guanylate kinase-like.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				GAGACCTGGGTTTTATGAAGA	0.428													40	79					0	0	0.01441	0	0		G	83177774	G	G	83177774	3	3	179	1	0	0	0	0	1	0	0	0	4561	1722	60	5	233	5	DLG2	11	83177774	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	532493	83177774	51828742	181	91590											
NAALAD2	10003	broad.mit.edu	37	chr11	89891405	89891405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgatgcagaaatattattaCggtatagttttcttgttgga	12	17	9	3	1	1	2	0	1	1	1	1	3	1	3	0	2	2	4	0	2	6	9	rs138601382		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:89891405C>T	uc001pdf.3	+	7	998	c.889C>T	c.(889-891)CGC>TGC	p.R297C	NAALAD2_uc009yvx.2_Missense_Mutation_p.R297W|NAALAD2_uc009yvy.2_Intron|NAALAD2_uc001pdd.2_Missense_Mutation_p.R297W|NAALAD2_uc001pde.2_Intron	NM_005467	NP_005458	Q9Y3Q0	NALD2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	297	Extracellular (Potential).|NAALADase.				proteolysis	integral to membrane	carboxypeptidase activity|dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity|serine-type peptidase activity			pancreas(1)|skin(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				AATATTATTACGGTATAGTTT	0.323													32	88					0	0	0.013726	0	0		T	89891405	T	T	89891405	3	4	179	1	0	0	0	0	1	0	0	0	10146	550	19	1	915	1	NAALAD2	11	89891405	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	6713631	89891405	45115111	182	91591											
GPR83	10888	broad.mit.edu	37	chr11	94113910	94113910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctggctcagggaagtctGgcaggcagagggagcgcaca	10	4	17	10	1	2	1	1	0	1	1	2	3	2	3	0	5	2	5	0	5	1	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:94113910G>A	uc001pet.2	-	4	849	c.677C>T	c.(676-678)CCA>CTA	p.P226L		NM_016540	NP_057624	Q9NYM4	GPR83_HUMAN	G protein-coupled receptor 83 precursor	226	Extracellular (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			central_nervous_system(2)|ovary(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGGGAAGTCTGGCAGGCAGAG	0.567													17	41					0	0	0.007413	0	0		A	94113910	A	A	94113910	3	1	179	1	0	0	0	0	1	0	0	0	6728	1348	47	4	598	4	GPR83	11	94113910	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	4222505	94113910	40892606	183	91592											
PGR	5241	broad.mit.edu	37	chr11	100920697	100920697	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatactttcatacagaggaaCtcttcttggctaacttgaag	13	13	7	8	0	3	2	1	1	2	1	3	3	3	3	0	2	4	1	0	2	6	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:100920697C>T	uc001pgh.2	-	6	3194	c.2451G>A	c.(2449-2451)GAG>GAA	p.E817E	PGR_uc001pgg.2_Silent_p.E198E|PGR_uc001pgi.2_Silent_p.E715E|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	817	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TACAGAGGAACTCTTCTTGGC	0.358													15	28					0	0	0.00245	0	0		T	100920697	T	T	100920697	2	4	179	1	0	0	0	0	0	0	0	1	11824	564	20	4		4	PGR	11	100920697	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	6806787	100920697	34085819	184	91593											
ELMOD1	55531	broad.mit.edu	37	chr11	107518203	107518203	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcctacagttatggaaaTtcttgaagcccaatactcca	12	14	5	10	0	1	1	0	1	1	0	3	2	3	2	3	1	3	1	3	1	6	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:107518203T>G	uc010rvs.1	+	7	834	c.430T>G	c.(430-432)TTC>GTC	p.F144V	ELMOD1_uc001pjm.2_Missense_Mutation_p.F144V|ELMOD1_uc010rvt.1_Missense_Mutation_p.F138V	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	144	ELMO.				phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		GTTATGGAAATTCTTGAAGCC	0.383													21	41					0	0	0.00333	0	0		G	107518203	G	G	107518203	3	3	179	1	0	0	0	0	1	0	0	0	5076	1493	52	5	452	5	ELMOD1	11	107518203	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	6597506	107518203	27488313	185	91594											
MPZL2	10205	broad.mit.edu	37	chr11	118133693	118133693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgaaaattccaggtcactgTtagagcatcacccacagggg	13	7	10	11	1	2	1	2	0	0	1	3	2	3	1	2	3	1	2	2	3	3	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:118133693T>G	uc001psn.2	-	2	319	c.178A>C	c.(178-180)ACA>CCA	p.T60P	MPZL2_uc001pso.2_Missense_Mutation_p.T60P|MPZL2_uc001psp.1_Missense_Mutation_p.T60P	NM_005797	NP_005788	O60487	MPZL2_HUMAN	myelin protein zero-like 2 precursor	60	Extracellular (Potential).|Ig-like V-type.				anatomical structure morphogenesis|homophilic cell adhesion	cytoskeleton|integral to membrane				skin(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		CAGGTCACTGTTAGAGCATCA	0.458													5	256					0	0	0.001168	0	0		G	118133693	G	G	118133693	3	3	179	1	0	0	0	0	1	0	0	0	9768	1725	60	5	485	5	MPZL2	11	118133693	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	10615490	118133693	16872823	186	91595											
OR8D1	283159	broad.mit.edu	37	chr11	124179779	124179779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaatgctttcttcacatccTtattcctcagactgtatatt	9	19	3	10	0	3	1	2	0	1	1	5	1	5	1	2	0	1	2	2	0	4	8	rs148332664		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr11:124179779T>C	uc010sag.1	-	1	884	c.884A>G	c.(883-885)AAG>AGG	p.K295R		NM_001002917	NP_001002917	Q8WZ84	OR8D1_HUMAN	olfactory receptor, family 8, subfamily D,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0528)		CTTCACATCCTTATTCCTCAG	0.423													31	45					0	0	0.012213	0	0		C	124179779	C	C	124179779	3	2	179	1	0	0	0	0	1	0	0	0	11250	1609	56	3	45	3	OR8D1	11	124179779	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	6046086	124179779	10826737	187	91596											
GPRC5D	55507	broad.mit.edu	37	chr12	13103044	13103044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaccccaaagagaaagtagCgtacgggggcagtttgttga	13	7	14	7	2	0	2	0	1	0	1	0	4	0	2	2	2	3	5	2	2	5	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:13103044C>T	uc010shp.1	-	1	275	c.275G>A	c.(274-276)CGC>CAC	p.R92H		NM_018654	NP_061124	Q9NZD1	GPC5D_HUMAN	G protein-coupled receptor, family C, group 5,	92	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		GAGAAAGTAGCGTACGGGGGC	0.537													20	13					0	0	0.010504	0	0		T	13103044	T	T	13103044	3	4	179	1	0	0	0	0	1	0	0	0	6743	768	27	1	772	1	GPRC5D	12	13103044	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08		13103044	120748851	188	91597											
ADAMTS20	80070	broad.mit.edu	37	chr12	43771298	43771298	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcgatggagcttatgtttcTtagtagatgggatctcggtg	7	15	14	5	2	2	1	0	0	2	1	4	4	2	3	0	3	1	3	0	3	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:43771298T>C	uc010skx.1	-	32	4865	c.4865A>G	c.(4864-4866)AAG>AGG	p.K1622R		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1622	TSP type-1 14.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		CTTATGTTTCTTAGTAGATGG	0.383													31	38					0	0	0.003755	0	0		C	43771298	C	C	43771298	3	2	179	1	0	0	0	0	1	0	0	0	266	1609	56	3	898	3	ADAMTS20	12	43771298	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	30668254	43771298	90080597	189	91598											
SARNP	84324	broad.mit.edu	37	chr12	56211464	56211464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtacctttagcttatggaGctccaccgtctcggtcgcca	6	11	10	14	4	1	0	0	0	1	0	4	1	2	1	4	3	3	3	4	3	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:56211464G>A	uc001sht.2	-	1	77	c.22C>T	c.(22-24)CTC>TTC	p.L8F	SARNP_uc009zoa.2_RNA|SARNP_uc001shs.3_RNA|DNAJC14_uc001shu.1_Intron|SARNP_uc001shv.3_Missense_Mutation_p.L8F|ORMDL2_uc001shw.1_5'Flank	NM_033082	NP_149073	P82979	SARNP_HUMAN	cytokine induced protein 29 kDa	8	SAP.				regulation of transcription, DNA-dependent|regulation of translation|transcription, DNA-dependent	nucleus	DNA binding|protein binding|RNA binding				0						AGCTTATGGAGCTCCACCGTC	0.577													28	56					0	0	0.010818	0	0		A	56211464	A	A	56211464	3	1	179	1	0	0	0	0	1	0	0	0	13868	971	34	2	654	2	SARNP	12	56211464	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	12440166	56211464	77640431	190	91599											
ESYT1	23344	broad.mit.edu	37	chr12	56532198	56532198	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccctccacaggtgctgcaggTgaatagtttgatccagactc	9	10	10	12	0	0	3	0	2	0	1	3	3	2	3	3	2	2	3	3	2	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:56532198T>A	uc001sjq.2	+	22	2398	c.2348T>A	c.(2347-2349)GTG>GAG	p.V783E	ESYT1_uc001sjr.2_Missense_Mutation_p.V793E	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	783						integral to membrane				ovary(4)|skin(1)	5						GTGCTGCAGGTGAATAGTTTG	0.592													25	17					0	0	0.00333	0	0		A	56532198	A	A	56532198	3	1	179	1	0	0	0	0	1	0	0	0	5272	1696	59	5	2464	5	ESYT1	12	56532198	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	320734	56532198	77319697	191	91600											
SPRYD4	283377	broad.mit.edu	37	chr12	56863084	56863084	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcccgggatagctgcattgGtgttgatgatcgttcctggg	5	13	15	8	2	0	2	0	2	0	0	3	3	2	3	2	3	2	4	2	3	1	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:56863084G>T	uc001sli.3	+	2	422	c.347G>T	c.(346-348)GGT>GTT	p.G116V	SPRYD4_uc010sqo.1_Missense_Mutation_p.G104V	NM_207344	NP_997227	Q8WW59	SPRY4_HUMAN	SPRY domain containing 4	116	B30.2/SPRY.					nucleus					0						AGCTGCATTGGTGTTGATGAT	0.562													55	134					4.48484e-38	5.11129e-38	0.01441	1	0		T	56863084	T	T	56863084	3	4	179	1	0	0	0	0	1	0	0	0	15135	1261	44	5	353	5	SPRYD4	12	56863084	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	330886	56863084	76988811	192	91601											
LRP1	4035	broad.mit.edu	37	chr12	57588239	57588239	+	Missense_Mutation	SNP	A	G	G	1	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	cgcacccagctgggtgtgtgAtggcgccaatgactgtgggg	6	8	17	10	2	0	2	0	2	0	0	0	2	0	2	2	4	1	2	2	4	1	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:57588239A>G	uc001snd.2	+	49	8487	c.8021A>G	c.(8020-8022)GAT>GGT	p.D2674G	MIR1228_hsa-mir-1228|MI0006318_5'Flank	NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	2674	LDL-receptor class A 14.|Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity			ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TGGGTGTGTGATGGCGCCAAT	0.677													48	122					0	0	0.01441	0	0		G	57588239	G	G	57588239	3	3	179	1	0	0	0	0	1	0	0	0	8969	333	12	3	8215	3	LRP1	12	57588239	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	725155	57588239	76263656	193	91602											
E2F7	144455	broad.mit.edu	37	chr12	77423789	77423789	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtcatccctctctgaccctGaccctgacgctggtccctcc	4	11	7	19	1	2	3	1	3	1	0	6	3	5	3	5	1	0	1	5	1	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:77423789G>A	uc001sym.3	-	10	1942	c.1706C>T	c.(1705-1707)TCA>TTA	p.S569L	E2F7_uc009zse.2_Missense_Mutation_p.S56L	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	569					cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						CTCTGACCCTGACCCTGACGC	0.577													42	78					0	0	0.009718	0	0		A	77423789	A	A	77423789	3	1	179	1	0	0	0	0	1	0	0	0	4878	1294	45	4	1045	4	E2F7	12	77423789	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	19835550	77423789	56428106	194	91603											
NAV3	89795	broad.mit.edu	37	chr12	78362351	78362351	+	Silent	SNP	T	C	C	0	1	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	gggctgtttttcagtttatcTcgctacaagcagcaacaaca	11	12	8	10	1	2	0	1	0	1	0	3	0	2	0	0	1	5	6	0	1	5	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:78362351T>C	uc001syp.2	+	5	713	c.540T>C	c.(538-540)TCT>TCC	p.S180S	NAV3_uc001syo.2_Silent_p.S180S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	180	CH.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						TCAGTTTATCTCGCTACAAGC	0.393										HNSCC(70;0.22)			28	45					0	0	0.012213	0	0		C	78362351	C	C	78362351	2	2	179	1	0	0	0	0	0	0	0	1	10203	1538	54	3		3	NAV3	12	78362351	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	938562	78362351	55489544	195	91604											
C12orf63	374467	broad.mit.edu	37	chr12	97098562	97098562	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaaacttcttaccagtaaAgaaaatatacaggtaaggat	19	9	8	5	0	1	1	0	0	1	1	1	3	1	3	1	3	3	2	1	3	10	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:97098562A>C	uc001tet.1	+	14	1869	c.1791A>C	c.(1789-1791)AAA>AAC	p.K597N		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	597										skin(6)|ovary(1)	7						TTACCAGTAAAGAAAATATAC	0.274													6	10					0	0	0.00308	0	0		C	97098562	C	C	97098562	3	2	179	1	0	0	0	0	1	0	0	0	1709	69	3	5	1841	5	C12orf63	12	97098562	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	18736211	97098562	36753333	196	91605											
TAOK3	51347	broad.mit.edu	37	chr12	118673381	118673381	+	Missense_Mutation	SNP	A	C	C	1	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	accagtaaggtgtgcccacgAaggagttggcaggagaagcc	12	5	15	9	1	0	1	0	0	0	1	0	4	0	2	3	4	2	3	3	4	3	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr12:118673381A>C	uc001twx.2	-	8	828	c.533T>G	c.(532-534)TTC>TGC	p.F178C	TAOK3_uc001tww.2_Missense_Mutation_p.F8C|TAOK3_uc001twy.3_Missense_Mutation_p.F178C	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	178	Protein kinase.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGTGCCCACGAAGGAGTTGGC	0.403													22	46					0	0	0.004656	0	0		C	118673381	C	C	118673381	3	2	179	1	0	0	0	0	1	0	0	0	15574	246	9	5	2219	5	TAOK3	12	118673381	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	21574819	118673381	15178514	197	91606											
NBEA	26960	broad.mit.edu	37	chr13	35735957	35735957	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaggatttcgaggaatgcCaatgactgaggaacagcgac	13	9	12	7	2	0	2	0	2	0	0	1	7	0	5	1	3	3	0	1	3	4	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr13:35735957C>G	uc001uvb.2	+	24	4138	c.3932C>G	c.(3931-3933)CCA>CGA	p.P1311R	NBEA_uc010abi.2_Missense_Mutation_p.P2R	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1311						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CGAGGAATGCCAATGACTGAG	0.483													8	19					0	0	0.006214	0	0		G	35735957	G	G	35735957	3	3	179	1	0	0	0	0	1	0	0	0	10205	594	21	5	4022	5	NBEA	13	35735957	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08		35735957	79433921	198	91607											
FOXO1	2308	broad.mit.edu	37	chr13	41134122	41134122	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccataggttgacatgacCgaattagggcccatcatgac	11	9	10	11	1	1	3	1	3	0	0	1	4	1	3	3	2	1	1	3	2	3	3	rs34650827	byFrequency	TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr13:41134122C>T	uc001uxl.3	-	2	1891	c.1506G>A	c.(1504-1506)TCG>TCA	p.S502S	FOXO1_uc010acc.1_Silent_p.S317S	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	502					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		TTGACATGACCGAATTAGGGC	0.527													22	48					0	0	0.014323	0	0		T	41134122	T	T	41134122	2	4	179	1	0	0	0	0	0	0	0	1	6037	639	23	1		1	FOXO1	13	41134122	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	5398165	41134122	74035756	199	91608											
SIAH3	283514	broad.mit.edu	37	chr13	46357648	46357648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtccccgtccgtaatcaccGagtccacgcactcaagaaca	12	6	7	16	4	2	1	2	0	0	1	5	2	5	1	5	0	1	2	5	0	3	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr13:46357648G>A	uc001vap.2	-	2	762	c.680C>T	c.(679-681)TCG>TTG	p.S227L		NM_198849	NP_942146	Q8IW03	SIAH3_HUMAN	seven in absentia homolog 3	227					multicellular organismal development|ubiquitin-dependent protein catabolic process	nucleus	metal ion binding			ovary(1)|skin(1)	2						CGTAATCACCGAGTCCACGCA	0.612													31	40					0	0	0.009535	0	0		A	46357648	A	A	46357648	3	1	179	1	0	0	0	0	1	0	0	0	14326	1059	37	1	133	1	SIAH3	13	46357648	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	5223526	46357648	68812230	200	91609											
PCDH20	64881	broad.mit.edu	37	chr13	61987191	61987191	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagcattggtccccaagtcTttatccacagcctggacagc	9	10	9	13	0	1	1	0	1	1	0	3	2	3	2	4	2	3	1	4	2	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr13:61987191T>G	uc001vid.3	-	2	1405	c.1041A>C	c.(1039-1041)AAA>AAC	p.K347N	PCDH20_uc010thj.1_Missense_Mutation_p.K347N	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	320	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		TCCCCAAGTCTTTATCCACAG	0.428													52	78					0	0	0.01441	0	0		G	61987191	G	G	61987191	3	3	179	1	0	0	0	0	1	0	0	0	11534	1606	56	5	1818	5	PCDH20	13	61987191	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	15629543	61987191	53182687	201	91610											
SLITRK1	114798	broad.mit.edu	37	chr13	84453706	84453706	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgtctcttggaccgctttCggttcctcaggataaacacg	7	12	9	13	4	2	0	1	0	1	0	6	2	3	2	2	3	1	2	2	3	2	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr13:84453706C>T	uc001vlk.2	-	1	2823	c.1937G>A	c.(1936-1938)CGA>CAA	p.R646Q		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	646	Cytoplasmic (Potential).					integral to membrane		p.R646*(1)		ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GGACCGCTTTCGGTTCCTCAG	0.562													17	33					0	0	0.00499	0	0		T	84453706	T	T	84453706	3	4	179	1	0	0	0	0	1	0	0	0	14767	884	31	1	157	1	SLITRK1	13	84453706	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	22466515	84453706	30716172	202	91611											
SLITRK1	114798	broad.mit.edu	37	chr13	84455053	84455053	+	Missense_Mutation	SNP	A	C	C	1	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	taccagggatttgctccaagAcctcctcatagggcagcgtt	9	10	10	12	1	1	1	1	0	0	1	3	2	3	2	4	2	3	3	4	2	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr13:84455053A>C	uc001vlk.2	-	1	1476	c.590T>G	c.(589-591)GTC>GGC	p.V197G		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	197	Extracellular (Potential).|LRR 6.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		TTGCTCCAAGACCTCCTCATA	0.532													28	47					0	0	0.00632	0	0		C	84455053	C	C	84455053	3	2	179	1	0	0	0	0	1	0	0	0	14767	275	10	5	1504	5	SLITRK1	13	84455053	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	1347	84455053	30714825	203	91612											
COL4A1	1282	broad.mit.edu	37	chr13	110822922	110822922	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggctggccctgaggtccGcggtctcctttgggcccctc	2	9	13	17	2	1	1	0	1	1	0	4	1	2	1	6	5	0	1	6	5	0	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr13:110822922G>A	uc001vqw.3	-	42	3836	c.3714C>T	c.(3712-3714)CGC>CGT	p.R1238R	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1238	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			CCTGAGGTCCGCGGTCTCCTT	0.632													6	12					0	0	0.001984	0	0		A	110822922	A	A	110822922	2	1	179	1	0	0	0	0	0	0	0	1	3692	1074	38	1		1	COL4A1	13	110822922	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	26367869	110822922	4346956	204	91613											
SLC7A8	23428	broad.mit.edu	37	chr14	23634555	23634555	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaagcaggtggggaagagCggctgcagcacgtagttgga	10	5	20	6	2	0	1	0	0	0	1	0	4	0	4	0	6	4	6	0	6	3	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr14:23634555C>T	uc001wiz.2	-	3	1173	c.447G>A	c.(445-447)CCG>CCA	p.P149P	SLC7A8_uc010akj.2_Silent_p.P149P	NM_012244	NP_036376	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (cationic amino acid	149					blood coagulation|cellular amino acid metabolic process|leukocyte migration|metal ion homeostasis|response to toxin	basolateral plasma membrane|cytoplasm|integral to plasma membrane	neutral amino acid transmembrane transporter activity|organic cation transmembrane transporter activity|peptide antigen binding|protein binding|toxin transporter activity			ovary(1)	1	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.00809)	L-Alanine(DB00160)|L-Glutamine(DB00130)|L-Phenylalanine(DB00120)	TGGGGAAGAGCGGCTGCAGCA	0.582													13	23					0	0	0.013537	0	0		T	23634555	T	T	23634555	2	4	179	1	0	0	0	0	0	0	0	1	14729	755	27	1		1	SLC7A8	14	23634555	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08		23634555	83714985	205	91614											
SLC22A17	51310	broad.mit.edu	37	chr14	23816789	23816789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catggagagaagaaggatgcCccggcggccaaatcggtcca	12	4	14	11	3	0	2	0	0	0	2	2	5	1	4	4	5	1	0	4	5	3	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr14:23816789C>T	uc001wjl.2	-	7	1152	c.1096G>A	c.(1096-1098)GGC>AGC	p.G366S	SLC22A17_uc010akk.2_Missense_Mutation_p.G148S|SLC22A17_uc001wjn.2_RNA|SLC22A17_uc001wjm.2_Missense_Mutation_p.G366S	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	366	Helical; (Potential).				siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		AGAAGGATGCCCCGGCGGCCA	0.627													16	34					0	0	0.003163	0	0		T	23816789	T	T	23816789	3	4	179	1	0	0	0	0	1	0	0	0	14473	623	22	4	532	4	SLC22A17	14	23816789	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	182234	23816789	83532751	206	91615											
FAM179B	23116	broad.mit.edu	37	chr14	45432289	45432289	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagaacgcttatacaacaagGactggaaagtaccgatgccc	15	6	10	10	2	0	1	0	0	0	1	0	5	0	3	2	2	5	2	2	2	7	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr14:45432289G>C	uc001wvv.2	+	1	874	c.665G>C	c.(664-666)GGA>GCA	p.G222A	FAM179B_uc001wvw.2_Missense_Mutation_p.G222A|FAM179B_uc010anc.2_RNA|KLHL28_uc001wvq.2_5'Flank|KLHL28_uc001wvr.2_5'Flank|FAM179B_uc010anb.1_Missense_Mutation_p.G222A|FAM179B_uc001wvu.2_Missense_Mutation_p.G222A	NM_015091	NP_055906	Q9Y4F4	F179B_HUMAN	hypothetical protein LOC23116	222							binding			skin(2)|upper_aerodigestive_tract(1)	3						ATACAACAAGGACTGGAAAGT	0.507													41	96					0	0	0.007835	0	0		C	45432289	C	C	45432289	3	2	179	1	0	0	0	0	1	0	0	0	5517	1174	41	5	667	5	FAM179B	14	45432289	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	21615500	45432289	61917251	207	91616											
YLPM1	56252	broad.mit.edu	37	chr14	75296047	75296047	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgagcctgggaagaagaggGtaagagactttgtcaataac	14	8	13	6	0	1	4	1	1	0	3	1	6	1	5	1	2	2	1	1	2	5	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr14:75296047G>A	uc001xqj.3	+	19	6418	c.6294_splice	c.e19+1	p.R2098_splice	YLPM1_uc001xql.3_Splice_Site	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		GAAGAAGAGGGTAAGAGACTT	0.453													27	61					0	0	0.005443	0	0		A	75296047	A	A	75296047	5	1	179	1	0	0	0	0	0	0	1	0	17512	1275	44	4	6369	4	YLPM1	14	75296047	Splice_Site	SNP	G	TCGA-D7-6822-01A-11D-1882-08	29863758	75296047	32053493	208	91617											
NRXN3	9369	broad.mit.edu	37	chr14	79117589	79117589	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgggctcggacgacttcTtctatgtaggaggaagccca	8	10	13	10	2	2	0	0	0	2	0	3	4	2	3	1	4	2	3	1	4	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr14:79117589T>G	uc001xun.2	+	3	513	c.22T>G	c.(22-24)TTC>GTC	p.F8V	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.F142V	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	381	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GGACGACTTCTTCTATGTAGG	0.522													37	134					0	0	0.010771	0	0		G	79117589	G	G	79117589	3	3	179	1	0	0	0	0	1	0	0	0	10686	1609	56	5	24	5	NRXN3	14	79117589	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	3821542	79117589	28231951	209	91618											
OR4N4	283694	broad.mit.edu	37	chr15	22382782	22382782	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatcactcagctctttttcTtgcacttccttggaggaggg	6	14	10	11	0	4	0	2	0	2	0	5	2	5	2	1	3	2	3	1	3	0	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr15:22382782T>G	uc001yuc.1	+	7	1291	c.310T>G	c.(310-312)TTG>GTG	p.L104V	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.L104V	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GCTCTTTTTCTTGCACTTCCT	0.507													27	68					0	0	0.01441	0	0		G	22382782	G	G	22382782	3	3	179	1	0	0	0	0	1	0	0	0	11097	1606	56	5	312	5	OR4N4	15	22382782	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08		22382782	80148610	210	91619											
RYR3	6263	broad.mit.edu	37	chr15	33916158	33916158	+	Missense_Mutation	SNP	T	A	A	0	1	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	gatgctgatggcattagagaTctcttgggtaccacccagtt	9	12	11	9	0	1	2	0	1	1	1	2	4	1	2	2	2	2	4	2	2	2	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr15:33916158T>A	uc001zhi.2	+	20	2578	c.2508T>A	c.(2506-2508)GAT>GAA	p.D836E	RYR3_uc010bar.2_Missense_Mutation_p.D836E	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	836	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GCATTAGAGATCTCTTGGGTA	0.488													11	304					0	0	0.00245	0	0		A	33916158	A	A	33916158	3	1	179	1	0	0	0	0	1	0	0	0	13795	1432	50	5	2586	5	RYR3	15	33916158	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	11533376	33916158	68615234	211	91620											
BNC1	646	broad.mit.edu	37	chr15	83933195	83933195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggggtcctgactttggtcatGaccctgctccaacatatatt	8	13	9	11	0	1	2	1	2	0	0	3	2	3	2	3	3	2	1	3	3	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr15:83933195G>A	uc002bjt.1	-	4	896	c.808C>T	c.(808-810)CAT>TAT	p.H270Y	BNC1_uc010uos.1_Missense_Mutation_p.H258Y	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	270					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CTTTGGTCATGACCCTGCTCC	0.483													23	49					0	0	0.00278	0	0		A	83933195	A	A	83933195	3	1	179	1	0	0	0	0	1	0	0	0	1475	1290	45	4	2184	4	BNC1	15	83933195	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	50017037	83933195	18598197	212	91621											
ADAMTS17	170691	broad.mit.edu	37	chr15	100537680	100537680	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgggggcccgggcagtagagGggccgcgtagcgacgtgtgt	5	5	21	10	6	0	1	0	0	0	1	0	2	0	1	2	5	1	3	2	5	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr15:100537680G>C	uc002bvv.1	-	19	2785	c.2706C>G	c.(2704-2706)CCC>CCG	p.P902P		NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	902	TSP type-1 3.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		ggcAGTAGAGGGGCCGCGTAG	0.572													10	49					0	0	0.006214	0	0		C	100537680	C	C	100537680	2	2	179	1	0	0	0	0	0	0	0	1	262	1219	43	5		5	ADAMTS17	15	100537680	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	16604485	100537680	1993712	213	91622											
PDZD9	255762	broad.mit.edu	37	chr16	21995670	21995670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaaatgcatctgaggtagagGaggtagaggaggaagagctt	15	7	16	3	0	1	4	0	1	1	3	1	7	1	7	0	5	2	4	0	5	5	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr16:21995670G>A	uc002dka.1	-	5	844	c.527C>T	c.(526-528)TCC>TTC	p.S176F		NM_173806	NP_776167	Q8IXQ8	PDZD9_HUMAN	hypothetical protein LOC255762	238										pancreas(1)	1						TGAGGTAGAGGAGGTAGAGGA	0.463													131	99					0	0	0.01441	0	0		A	21995670	A	A	21995670	3	1	179	1	0	0	0	0	1	0	0	0	11725	1174	41	4	85	4	PDZD9	16	21995670	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08		21995670	68359083	214	91623											
HS3ST4	9951	broad.mit.edu	37	chr16	26147171	26147171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accggaccctcgggctgatcGatgcttcctggagtgccatt	6	10	12	13	3	0	1	0	1	0	0	3	4	1	3	4	3	2	2	4	3	0	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr16:26147171G>A	uc002dof.2	+	2	1365	c.973G>A	c.(973-975)GAT>AAT	p.D325N		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	325	Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		CGGGCTGATCGATGCTTCCTG	0.542													93	79					0	0	0.01441	0	0		A	26147171	A	A	26147171	3	1	179	1	0	0	0	0	1	0	0	0	7383	1058	37	1	979	1	HS3ST4	16	26147171	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	4151501	26147171	64207582	215	91624											
ITGAM	3684	broad.mit.edu	37	chr16	31336626	31336626	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gggccccgggagttcaacgtGacagtgactgtgagaaatga	11	7	15	8	2	1	4	1	4	0	1	1	6	1	5	2	2	1	1	2	2	2	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr16:31336626G>C	uc002ebq.2	+	20	2504	c.2406G>C	c.(2404-2406)GTG>GTC	p.V802V	ITGAM_uc002ebr.2_Silent_p.V803V|ITGAM_uc010can.2_Silent_p.V208V|ITGAM_uc002ebs.1_Silent_p.V208V|ITGAM_uc010vfj.1_RNA	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	802	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						AGTTCAACGTGACAGTGACTG	0.617													11	45					0	0	0.001855	0	0		C	31336626	C	C	31336626	2	2	179	1	0	0	0	0	0	0	0	1	7903	1277	45	5		5	ITGAM	16	31336626	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	5189455	31336626	59018127	216	91625											
CBLN1	869	broad.mit.edu	37	chr16	49313480	49313480	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtcaccagcgaaggctgaAatcaccggccacccgtttag	10	7	11	13	3	2	1	2	1	0	0	2	2	2	1	4	3	1	2	4	3	3	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr16:49313480A>C	uc002efq.2	-	3	756	c.417T>G	c.(415-417)ATT>ATG	p.I139M		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	139	C1q.|Necessary for interaction with CBLN3, and homotrimerization (By similarity).				nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				CGAAGGCTGAAATCACCGGCC	0.612													19	47					0	0	0.010504	0	0		C	49313480	C	C	49313480	3	2	179	1	0	0	0	0	1	0	0	0	2707	10	1	5	168	5	CBLN1	16	49313480	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	17976854	49313480	41041273	217	91626											
CNOT1	23019	broad.mit.edu	37	chr16	58572769	58572769	+	Missense_Mutation	SNP	A	G	G	1	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	ggcattccctgtagcgcagcAgaaggtcagcatcagcacca	11	6	11	13	1	2	1	2	0	0	1	3	1	3	1	2	2	4	6	2	2	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr16:58572769A>G	uc002env.2	-	36	5335	c.5042T>C	c.(5041-5043)CTG>CCG	p.L1681P	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.L1676P|CNOT1_uc010vik.1_Missense_Mutation_p.L638P	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1681					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		GTAGCGCAGCAGAAGGTCAGC	0.507													29	85					0	0	0.007291	0	0		G	58572769	G	G	58572769	3	3	179	1	0	0	0	0	1	0	0	0	3620	188	7	3	2144	3	CNOT1	16	58572769	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	9259289	58572769	31781984	218	91627											
CDH11	1009	broad.mit.edu	37	chr16	65016134	65016134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagggccattgctgataaacTtcgggtcgatgtgcacgttg	9	11	13	8	3	0	1	0	1	0	0	2	2	0	1	1	2	3	3	1	2	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr16:65016134T>G	uc002eoi.2	-	8	1504	c.1070A>C	c.(1069-1071)AAG>ACG	p.K357T	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.K357T|CDH11_uc010vin.1_Missense_Mutation_p.K231T|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	357	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GCTGATAAACTTCGGGTCGAT	0.478			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			35	90					0	0	0.013726	0	0		G	65016134	G	G	65016134	3	3	179	1	0	0	0	0	1	0	0	0	3100	1609	56	5	1344	5	CDH11	16	65016134	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	6443365	65016134	25338619	219	91628											
CBFB	865	broad.mit.edu	37	chr16	67063330	67063330	+	Missense_Mutation	SNP	A	C	C	1	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	gatgccgcgcgtcgtgcccgAccagagaagcaagttcgaga	10	5	14	12	6	0	2	0	0	0	2	2	6	0	2	3	0	3	2	3	0	2	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr16:67063330A>C	uc002era.2	+	1	281	c.20A>C	c.(19-21)GAC>GCC	p.D7A	CBFB_uc002erb.2_Missense_Mutation_p.D7A|CBFB_uc010vja.1_Missense_Mutation_p.D7A	NM_001755	NP_001746	Q13951	PEBB_HUMAN	core-binding factor, beta subunit isoform 2	7					transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			breast(2)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00189)|Epithelial(162;0.00755)|all cancers(182;0.066)		GTCGTGCCCGACCAGAGAAGC	0.622			T	MYH11	AML								8	14					0	0	0.004482	0	0		C	67063330	C	C	67063330	3	2	179	1	0	0	0	0	1	0	0	0	2702	275	10	5	22	5	CBFB	16	67063330	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2047196	67063330	23291423	220	91629											
ZFP3	124961	broad.mit.edu	37	chr17	4995828	4995828	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tatgaatgtaatgaatgtggGaaaacttttggccagaactc	14	12	10	5	0	0	3	0	2	0	1	1	4	0	4	1	2	2	1	1	2	7	4	rs146498999		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:4995828G>A	uc002gaq.2	+	2	1154	c.1029G>A	c.(1027-1029)GGG>GGA	p.G343G		NM_153018	NP_694563	Q96NJ6	ZFP3_HUMAN	zinc finger protein-3	343	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATGAATGTGGGAAAACTTTTG	0.438													14	50					0	0	0.00245	0	0		A	4995828	A	A	4995828	2	1	179	1	0	0	0	0	0	0	0	1	17668	1161	41	4		4	ZFP3	17	4995828	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08		4995828	76199382	221	91630											
TP53	7157	broad.mit.edu	37	chr17	7577087	7577087	+	Frame_Shift_Del	DEL	G	-	-																															tgcggagattctcttcctctGtgcgccggtctctcccagga																										TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:7577087delG	uc002gim.2	-	8	1045	c.851delC	c.(850-852)ACAfs	p.T284fs	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Frame_Shift_Del_p.T284fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.T152fs|TP53_uc010cng.1_Frame_Shift_Del_p.T152fs|TP53_uc002gii.1_Frame_Shift_Del_p.T152fs|TP53_uc010cnh.1_Frame_Shift_Del_p.T284fs|TP53_uc010cni.1_Frame_Shift_Del_p.T284fs|TP53_uc002gij.2_Frame_Shift_Del_p.T284fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	284	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in sporadic cancers; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).|T -> P (in sporadic cancers; somatic mutation).|T -> I (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.T284P(7)|p.T284fs*61(3)|p.T284T(3)|p.T284A(3)|p.?(2)|p.T284fs*21(2)|p.T284fs*62(2)|p.R283fs*16(2)|p.T284I(1)|p.C275fs*20(1)|p.R282_E287delRRTEEE(1)|p.L265_K305del41(1)|p.T284fs*57(1)|p.T284_G293del10(1)|p.G279fs*59(1)|p.R283fs*56(1)|p.R283_T284>T(1)|p.S269fs*21(1)|p.V272_K292del21(1)|p.R283fs*59(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CTCTTCCTCTGTGCGCCGGTC	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			48	15	---	---	---	---						.	-	7577087	-	-	7577087	7	5	179	1	0	1	0	1	0	0	0	0	16407	1377	48	0	435	0	TP53	17	7577087	Frame_Shift_Del	DEL	G	TCGA-D7-6822-01A-11D-1882-08	2581259	7577087	73618123	222	91631											
GUCY2D	3000	broad.mit.edu	37	chr17	7918766	7918766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagtgccgtgggcactttcCgcatgcgccatatgcctgag	6	10	12	13	3	1	1	1	1	0	0	2	1	2	1	4	1	3	2	4	1	1	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:7918766C>T	uc002gjt.2	+	15	2964	c.2890C>T	c.(2890-2892)CGC>TGC	p.R964C		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	964	Guanylate cyclase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				GGGCACTTTCCGCATGCGCCA	0.632													11	27					0	0	0.008291	0	0		T	7918766	T	T	7918766	3	4	179	1	0	0	0	0	1	0	0	0	6913	652	23	1	2944	1	GUCY2D	17	7918766	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	341679	7918766	73276444	223	91632											
CDK12	51755	broad.mit.edu	37	chr17	37618685	37618685	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	accagcacaggcgttcccggGacttactaaaagctaaacag	14	6	9	12	2	0	0	0	0	0	0	1	1	1	1	2	2	4	3	2	2	5	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:37618685G>C	uc010cvv.2	+	1	947	c.361G>C	c.(361-363)GAC>CAC	p.D121H	CDK12_uc010wef.1_Missense_Mutation_p.D121H|CDK12_uc002hrw.3_Missense_Mutation_p.D121H	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	121					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						GCGTTCCCGGGACTTACTAAA	0.522										TCGA Ovarian(9;0.13)			26	38					0	0	0.00632	0	0		C	37618685	C	C	37618685	3	2	179	1	0	0	0	0	1	0	0	0	3131	1174	41	5	363	5	CDK12	17	37618685	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	29699919	37618685	43576525	224	91633											
WIPF2	147179	broad.mit.edu	37	chr17	38433367	38433367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagtattccttccatccaGtagaagactttcctgctcca	11	12	5	13	0	0	2	0	0	0	2	5	2	5	2	5	0	1	3	5	0	4	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:38433367G>A	uc002hug.1	+	7	1453	c.1213G>A	c.(1213-1215)GTA>ATA	p.V405I	WIPF2_uc002huh.1_Missense_Mutation_p.V255I|WIPF2_uc010cww.1_Missense_Mutation_p.V255I|WIPF2_uc002hui.1_Missense_Mutation_p.V405I|WIPF2_uc010cwx.1_Missense_Mutation_p.V147I|WIPF2_uc010cwy.1_Missense_Mutation_p.V405I	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	405						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CTTCCATCCAGTAGAAGACTT	0.388										HNSCC(43;0.11)			39	94					0	0	0.007835	0	0		A	38433367	A	A	38433367	3	1	179	1	0	0	0	0	1	0	0	0	17394	1029	36	4	1235	4	WIPF2	17	38433367	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	814682	38433367	42761843	225	91634											
SOST	50964	broad.mit.edu	37	chr17	41832885	41832885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaggcgcaccttgcgcGcgcgcggcgcctcaccaccg	5	3	12	21	8	1	0	1	0	0	0	1	0	1	0	6	2	1	1	6	2	0	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:41832885G>A	uc002iec.1	-	2	514	c.467C>T	c.(466-468)GCG>GTG	p.A156V		NM_025237	NP_079513	Q9BQB4	SOST_HUMAN	sclerostin precursor	156	CTCK.				negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of ossification|negative regulation of protein complex assembly|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway		heparin binding|protein binding				0		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		CACCTTGCGCGCGCGCGGCGC	0.711													17	25					0	0	0.006122	0	0		A	41832885	A	A	41832885	3	1	179	1	0	0	0	0	1	0	0	0	14963	1087	38	1	178	1	SOST	17	41832885	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	3399518	41832885	39362325	226	91635											
SKAP1	8631	broad.mit.edu	37	chr17	46262095	46262095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgtcctacctcatagctgCgcctatcctgggaggtcagt	6	11	11	13	2	2	0	2	0	0	0	4	1	4	1	4	2	4	1	4	2	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:46262095C>T	uc002ini.1	-	7	669	c.557G>A	c.(556-558)CGC>CAC	p.R186H	SKAP1_uc002inj.1_Missense_Mutation_p.R186H|SKAP1_uc010dbd.1_Missense_Mutation_p.R92H|SKAP1_uc010dbe.1_Missense_Mutation_p.R186H	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform	186	PH.				positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						CTCATAGCTGCGCCTATCCTG	0.522													226	225					0	0	0.01441	0	0		T	46262095	T	T	46262095	3	4	179	1	0	0	0	0	1	0	0	0	14380	768	27	1	546	1	SKAP1	17	46262095	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	4429210	46262095	34933115	227	91636											
UNC13D	201294	broad.mit.edu	37	chr17	73831582	73831582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccggctggaaccagcggtGgaaattatccagggccagga	10	5	16	10	2	0	0	0	0	0	0	1	3	1	3	4	7	2	1	4	7	3	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:73831582G>A	uc002jpp.2	-	20	2136	c.1756C>T	c.(1756-1758)CAC>TAC	p.H586Y	UNC13D_uc010wsk.1_Missense_Mutation_p.H586Y|UNC13D_uc002jpq.1_Missense_Mutation_p.H236Y	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	586	MHD1.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			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)			AACCAGCGGTGGAAATTATCC	0.687									Familial_Hemophagocytic_Lymphohistiocytosis				16	2					0	0	0.004007	0	0		A	73831582	A	A	73831582	3	1	179	1	0	0	0	0	1	0	0	0	17013	1348	47	4	1568	4	UNC13D	17	73831582	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	27569487	73831582	7363628	228	91637											
PGS1	9489	broad.mit.edu	37	chr17	76394412	76394412	+	Missense_Mutation	SNP	A	C	C	1	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	caaggtctccattctcttagActtcacgcggggctcacgag	8	10	10	13	3	4	1	2	0	2	1	6	2	4	1	1	3	0	1	1	3	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr17:76394412A>C	uc002jvm.2	+	4	503	c.491A>C	c.(490-492)GAC>GCC	p.D164A	PGS1_uc010wtt.1_RNA|PGS1_uc010dho.2_5'Flank|PGS1_uc002jvn.2_5'Flank|PGS1_uc002jvo.2_5'Flank|PGS1_uc002jvp.1_5'Flank	NM_024419	NP_077733	Q32NB8	PGPS1_HUMAN	phosphatidylglycerophosphate synthase 1	164					phospholipid biosynthetic process	endoplasmic reticulum|mitochondrion	ATP binding|CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(99;0.00144)|OV - Ovarian serous cystadenocarcinoma(97;0.031)			ATTCTCTTAGACTTCACGCGG	0.517													65	213					0	0	0.01441	0	0		C	76394412	C	C	76394412	3	2	179	1	0	0	0	0	1	0	0	0	11827	275	10	5	505	5	PGS1	17	76394412	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2562830	76394412	4800798	229	91638											
PTPRM	5797	broad.mit.edu	37	chr18	8113616	8113616	+	Silent	SNP	A	G	G	1	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	tcacagtactactttgctgcAgaatttcctgcagacagcct	10	12	7	12	0	1	2	1	0	0	2	2	2	2	2	2	0	6	4	2	0	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr18:8113616A>G	uc002knn.3	+	12	2492	c.1989A>G	c.(1987-1989)GCA>GCG	p.A663A	PTPRM_uc010dkv.2_Silent_p.A663A|PTPRM_uc010wzl.1_Silent_p.A450A	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	663	Fibronectin type-III 4.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				ACTTTGCTGCAGAATTTCCTG	0.428													34	60					0	0	0.004289	0	0		G	8113616	G	G	8113616	2	3	179	1	0	0	0	0	0	0	0	1	12831	175	7	3		3	PTPRM	18	8113616	Silent	SNP	A	TCGA-D7-6822-01A-11D-1882-08		8113616	69963632	230	91639											
KIAA0802	23255	broad.mit.edu	37	chr18	8824700	8824700	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttctgcttttcccagggcGgtgtccgtgtcctccatgtc	2	16	10	13	2	1	0	0	0	1	0	6	0	5	0	4	2	1	1	4	2	0	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr18:8824700G>A	uc002knr.2	+	15	3334	c.3192G>A	c.(3190-3192)GCG>GCA	p.A1064A	KIAA0802_uc002knq.2_Silent_p.A1023A|KIAA0802_uc002kns.2_Silent_p.A404A	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1374											0						TTCCCAGGGCGGTGTCCGTGT	0.577													9	14					0	0	0.006214	0	0		A	8824700	A	A	8824700	2	1	179	1	0	0	0	0	0	0	0	1	8210	1103	39	1		1	KIAA0802	18	8824700	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	711084	8824700	69252548	231	91640											
CDH2	1000	broad.mit.edu	37	chr18	25532149	25532149	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaccatacatgtcagcaaGtttcttgaaccgtggccccc	9	10	7	15	1	2	1	1	1	1	0	3	1	3	1	5	1	3	2	5	1	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr18:25532149G>C	uc002kwg.2	-	16	3148	c.2689C>G	c.(2689-2691)CTT>GTT	p.L897V	CDH2_uc010xbn.1_Missense_Mutation_p.L866V	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	897	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ATGTCAGCAAGTTTCTTGAAC	0.463													35	61					0	0	0.005524	0	0		C	25532149	C	C	25532149	3	2	179	1	0	0	0	0	1	0	0	0	3108	1029	36	5	35	5	CDH2	18	25532149	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	16707449	25532149	52545099	232	91641											
CDH2	1000	broad.mit.edu	37	chr18	25593870	25593870	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccattgcagttgctaaacTtcactgtaaaagataagaaa	16	12	6	7	0	1	2	1	0	0	2	2	2	2	2	1	0	3	4	1	0	6	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr18:25593870T>G	uc002kwg.2	-	3	635	c.176A>C	c.(175-177)AAG>ACG	p.K59T	CDH2_uc010xbn.1_Missense_Mutation_p.K28T	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	59					adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						GTTGCTAAACTTCACTGTAAA	0.358													18	24					0	0	0.006122	0	0		G	25593870	G	G	25593870	3	3	179	1	0	0	0	0	1	0	0	0	3108	1609	56	5	2600	5	CDH2	18	25593870	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	61721	25593870	52483378	233	91642											
NFIC	4782	broad.mit.edu	37	chr19	3433553	3433553	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagagctttgtcacctccggCgtgttcagcgtcactgagct	6	11	12	12	3	3	2	3	1	0	1	4	3	4	2	2	1	3	3	2	1	0	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:3433553C>T	uc010xhi.1	+	4	734	c.672C>T	c.(670-672)GGC>GGT	p.G224G	NFIC_uc002lxo.2_Silent_p.G215G|NFIC_uc010xhh.1_Silent_p.G215G|NFIC_uc002lxp.2_Silent_p.G224G|NFIC_uc010xhj.1_Silent_p.G224G|NFIC_uc002lxq.1_Silent_p.G176G	NM_205843	NP_995315	P08651	NFIC_HUMAN	nuclear factor I/C isoform 2	224					DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.8e-05)|Epithelial(107;2.94e-108)|BRCA - Breast invasive adenocarcinoma(158;0.00154)|STAD - Stomach adenocarcinoma(1328;0.191)		TCACCTCCGGCGTGTTCAGCG	0.627													11	33					0	0	0.013537	0	0		T	3433553	T	T	3433553	2	4	179	1	0	0	0	0	0	0	0	1	10391	755	27	1		1	NFIC	19	3433553	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08		3433553	55695430	234	91643											
ITGB1BP3	27231	broad.mit.edu	37	chr19	3938712	3938712	+	Missense_Mutation	SNP	A	G	G	1	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	cgtccagccagaggcctcggAcacccacatcctcctcctgg	7	6	9	19	2	0	1	0	0	0	1	5	2	4	2	7	3	1	0	7	3	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:3938712A>G	uc002lyz.3	+	5	568	c.278A>G	c.(277-279)GAC>GGC	p.D93G	ITGB1BP3_uc010xia.1_Missense_Mutation_p.D98G	NM_170678	NP_733778	Q9NPI5	NRK2_HUMAN	integrin beta 1 binding protein 3	93					pyridine nucleotide biosynthetic process		ATP binding|metal ion binding|protein binding|ribosylnicotinamide kinase activity			skin(2)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00463)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGGCCTCGGACACCCACATC	0.642													10	27					0	0	0.006214	0	0		G	3938712	G	G	3938712	3	3	179	1	0	0	0	0	1	0	0	0	7909	275	10	3	292	3	ITGB1BP3	19	3938712	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	505159	3938712	55190271	235	91644											
NCAN	1463	broad.mit.edu	37	chr19	19356206	19356206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtggcgcatgaaagcGggcgctggaacgatgtcccc	8	7	16	10	4	0	2	0	2	0	0	1	4	1	3	2	4	2	2	2	4	2	0	rs150818380		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:19356206G>A	uc002nlz.2	+	13	3676	c.3577G>A	c.(3577-3579)GGG>AGG	p.G1193R	NCAN_uc002nma.2_Intron	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1193	C-type lectin.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GCATGAAAGCGGGCGCTGGAA	0.557													27	51					0	0	0.007291	0	0		A	19356206	A	A	19356206	3	1	179	1	0	0	0	0	1	0	0	0	10223	1116	39	1	3623	1	NCAN	19	19356206	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	15417494	19356206	39772777	236	91645											
ZNF99	7652	broad.mit.edu	37	chr19	22942268	22942268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagactttcacatatttgTtacactgaaatatttttccc	13	16	4	8	0	1	2	1	1	0	1	2	3	2	2	1	0	1	1	1	0	5	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:22942268T>C	uc010xrh.1	-	4	506	c.506A>G	c.(505-507)AAC>AGC	p.N169S		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				CACATATTTGTTACACTGAAA	0.289													15	31					0	0	0.00245	0	0		C	22942268	C	C	22942268	3	2	179	1	0	0	0	0	1	0	0	0	18229	1725	60	3	2622	3	ZNF99	19	22942268	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	3586062	22942268	36186715	237	91646											
ZNF536	9745	broad.mit.edu	37	chr19	31040160	31040160	+	Missense_Mutation	SNP	A	G	G	1	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	gcggggacagcctgcagcccAcaggcacctcccagcccgtc	7	3	12	19	2	0	0	0	0	0	0	2	1	1	1	5	3	4	2	5	3	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:31040160A>G	uc002nsu.1	+	4	3772	c.3634A>G	c.(3634-3636)ACA>GCA	p.T1212A	ZNF536_uc010edd.1_Missense_Mutation_p.T1212A	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1212					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CCTGCAGCCCACAGGCACCTC	0.602													21	70					0	0	0.010504	0	0		G	31040160	G	G	31040160	3	3	179	1	0	0	0	0	1	0	0	0	17999	159	6	3	3644	3	ZNF536	19	31040160	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	8097892	31040160	28088823	238	91647											
SNRPA	6626	broad.mit.edu	37	chr19	41269579	41269579	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctgtccatgcttttcaatCagtaagtggggcctgtggct	6	14	12	9	0	2	0	2	0	0	0	3	0	3	0	2	3	2	4	2	3	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:41269579C>T	uc002ooz.2	+	5	1223	c.688C>T	c.(688-690)CAG>TAG	p.Q230*	SNRPA_uc002opa.2_Nonsense_Mutation_p.Q180*	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	230	RRM 2.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			GCTTTTCAATCAGTAAGTGGG	0.562													12	200					0	0	0.001855	0	0		T	41269579	T	T	41269579	4	4	179	1	0	0	0	0	0	1	0	0	14884	840	29	4	706	4	SNRPA	19	41269579	Nonsense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	10229419	41269579	17859404	239	91648											
CEACAM7	1087	broad.mit.edu	37	chr19	42181400	42181400	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgacagcggtcccagctgaGaggtcaggtgaacttgcttg	8	9	14	10	1	1	3	1	3	0	1	2	4	2	3	1	3	4	2	1	3	1	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:42181400G>A	uc002ori.1	-	4	740	c.738C>T	c.(736-738)CTC>CTT	p.L246L	CEACAM7_uc010ehx.2_Silent_p.L246L|CEACAM7_uc010ehy.1_Silent_p.L153L	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	246						anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		TCCCAGCTGAGAGGTCAGGTG	0.483													17	128					0	0	0.008871	0	0		A	42181400	A	A	42181400	2	1	179	1	0	0	0	0	0	0	0	1	3200	929	33	4		4	CEACAM7	19	42181400	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	911821	42181400	16947583	240	91649											
ZNF285	26974	broad.mit.edu	37	chr19	44892160	44892160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atcctgactcacagttaaatCccggatcctttgtttccaaa	11	13	5	12	1	1	1	1	1	0	0	5	2	5	2	4	1	0	2	4	1	3	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:44892160C>T	uc002ozd.3	-	4	334	c.247G>A	c.(247-249)GAT>AAT	p.D83N	ZFP112_uc010xwz.1_Intron|ZNF285_uc010xxa.1_Missense_Mutation_p.D90N	NM_152354	NP_689567	Q96NJ3	ZN285_HUMAN	zinc finger protein 285	83	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(2)	4						ACAGTTAAATCCCGGATCCTT	0.423													5	206					0	0	0.000602	0	0		T	44892160	T	T	44892160	3	4	179	1	0	0	0	0	1	0	0	0	17847	855	30	4	1529	4	ZNF285	19	44892160	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	2710760	44892160	14236823	241	91650											
LRRC4B	94030	broad.mit.edu	37	chr19	51021951	51021951	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	tgaggccggcgggcgcatgaCagcgggcgcagcacgtcgtg	6	4	19	12	7	0	2	0	2	0	0	1	2	0	2	1	4	2	3	1	4	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:51021951C>G	uc002pss.2	-	3	1156	c.1019G>C	c.(1018-1020)TGT>TCT	p.C340S		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	340	LRRCT.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		GGGCGCATGACAGCGGGCGCA	0.657													18	49					0	0	0.006122	0	0		G	51021951	G	G	51021951	3	3	179	1	0	0	0	0	1	0	0	0	9025	478	17	5	1126	5	LRRC4B	19	51021951	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	6129791	51021951	8107032	242	91651											
ZNF665	79788	broad.mit.edu	37	chr19	53669151	53669151	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	cttctctccagtatgaattcTcttatgacttgttagccgtg	7	17	7	10	1	2	2	0	2	2	0	5	2	3	2	2	0	1	2	2	0	4	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:53669151T>A	uc010eqm.1	-	4	692	c.592A>T	c.(592-594)AGA>TGA	p.R198*		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	133	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		GTATGAATTCTCTTATGACTT	0.393													69	249					0	0	0.01441	0	0		A	53669151	A	A	53669151	4	1	179	1	0	0	0	0	0	1	0	0	18098	1559	54	5	1448	5	ZNF665	19	53669151	Nonsense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2647200	53669151	5459832	243	91652											
ZNF665	79788	broad.mit.edu	37	chr19	53669240	53669240	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctcgattattaggagacttcTcaacttgattgtattcataa	12	16	6	7	1	2	2	2	1	1	1	4	4	2	2	0	1	1	1	0	1	5	8			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:53669240T>G	uc010eqm.1	-	4	603	c.503A>C	c.(502-504)GAG>GCG	p.E168A		NM_024733	NP_079009	Q9H7R5	ZN665_HUMAN	zinc finger protein 665	103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0196)		AGGAGACTTCTCAACTTGATT	0.363													70	269					0	0	0.01441	0	0		G	53669240	G	G	53669240	3	3	179	1	0	0	0	0	1	0	0	0	18098	1551	54	5	1537	5	ZNF665	19	53669240	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	89	53669240	5459743	244	91653											
LAIR1	3903	broad.mit.edu	37	chr19	54866947	54866947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactgtggggacacagccCgggctgtcctctgtgtgagg	5	9	17	10	1	1	1	0	1	1	0	2	3	2	3	2	5	1	1	2	5	0	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:54866947C>T	uc002qfk.1	-	10	1104	c.794G>A	c.(793-795)CGG>CAG	p.R265Q	LAIR1_uc002qfl.1_Missense_Mutation_p.R248Q|LAIR1_uc002qfm.1_Missense_Mutation_p.R264Q|LAIR1_uc002qfn.1_Missense_Mutation_p.R247Q|LAIR1_uc010yex.1_Missense_Mutation_p.R258Q|LAIR1_uc002qfo.2_Missense_Mutation_p.R247Q	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	265	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		GGACACAGCCCGGGCTGTCCT	0.632													44	163					0	0	0.013114	0	0		T	54866947	T	T	54866947	3	4	179	1	0	0	0	0	1	0	0	0	8618	652	23	1	73	1	LAIR1	19	54866947	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	1197707	54866947	4262036	245	91654											
ZFP28	140612	broad.mit.edu	37	chr19	57066167	57066167	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacccatacaggagagaaAccatatgagtgcaaggaatg	19	5	10	7	0	0	2	0	1	0	1	0	5	0	4	2	2	4	1	2	2	7	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr19:57066167A>C	uc002qnj.2	+	8	2084	c.2013A>C	c.(2011-2013)AAA>AAC	p.K671N	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	671					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		CAGGAGAGAAACCATATGAGT	0.458													19	95					0	0	0.007413	0	0		C	57066167	C	C	57066167	3	2	179	1	0	0	0	0	1	0	0	0	17667	40	2	5	2043	5	ZFP28	19	57066167	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	2199220	57066167	2062816	246	91655											
ATRN	8455	broad.mit.edu	37	chr20	3578562	3578562	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctttccatagatactcttcTtattgactatcagttcacct	9	18	3	11	0	5	2	2	1	3	1	6	2	6	2	2	0	1	1	2	0	4	8			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:3578562T>G	uc002wim.2	+	22	3569	c.3479T>G	c.(3478-3480)CTT>CGT	p.L1160R	ATRN_uc002wil.2_Missense_Mutation_p.L1160R	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	1160	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						GATACTCTTCTTATTGACTAT	0.323													66	164					0	0	0.01441	0	0		G	3578562	G	G	3578562	3	3	179	1	0	0	0	0	1	0	0	0	1207	1609	56	5	3565	5	ATRN	20	3578562	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08		3578562	59446958	247	91656											
PLCB1	23236	broad.mit.edu	37	chr20	8755266	8755266	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatgctgaaatgacccaaaAgttaatagacttgaaggaca	17	8	10	6	0	0	4	0	3	0	1	0	6	0	6	1	2	1	2	1	2	6	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:8755266A>C	uc002wnb.2	+	27	3014	c.3011A>C	c.(3010-3012)AAG>ACG	p.K1004T	PLCB1_uc010zrb.1_Missense_Mutation_p.K903T|PLCB1_uc002wna.2_Missense_Mutation_p.K1004T|PLCB1_uc002wnc.1_Missense_Mutation_p.K903T|PLCB1_uc002wnd.1_Missense_Mutation_p.K581T	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1004					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						ATGACCCAAAAGTTAATAGAC	0.433													47	105					0	0	0.01441	0	0		C	8755266	C	C	8755266	3	2	179	1	0	0	0	0	1	0	0	0	12046	72	3	5	3117	5	PLCB1	20	8755266	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	5176704	8755266	54270254	248	91657											
PAK7	57144	broad.mit.edu	37	chr20	9525024	9525024	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacccccttacctctgtccCataaggtagcctagaaatca	11	10	6	14	0	2	2	1	1	1	1	3	2	3	2	5	1	2	1	5	1	5	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:9525024C>G	uc002wnl.2	-	9	2406	c.1861G>C	c.(1861-1863)GGG>CGG	p.G621R	PAK7_uc002wnk.2_Missense_Mutation_p.G621R|PAK7_uc002wnj.2_Missense_Mutation_p.G621R|PAK7_uc010gby.1_Intron	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	621	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			ACCTCTGTCCCATAAGGTAGC	0.542													6	252					0	0	0.001984	0	0		G	9525024	G	G	9525024	3	3	179	1	0	0	0	0	1	0	0	0	11424	594	21	5	310	5	PAK7	20	9525024	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	769758	9525024	53500496	249	91658											
ANKRD5	63926	broad.mit.edu	37	chr20	10030351	10030351	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagaacagctggctgccatCgctcaccttcatgagaaaac	12	8	8	13	1	3	2	3	1	0	2	4	3	3	2	2	1	4	3	2	1	3	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:10030351C>T	uc002wno.2	+	7	1527	c.1134C>T	c.(1132-1134)ATC>ATT	p.I378I	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Silent_p.I378I|ANKRD5_uc010gbz.2_Silent_p.I189I	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	378							calcium ion binding			ovary(1)|breast(1)	2						TGGCTGCCATCGCTCACCTTC	0.453													38	113					0	0	0.007835	0	0		T	10030351	T	T	10030351	2	4	179	1	0	0	0	0	0	0	0	1	676	874	31	1		1	ANKRD5	20	10030351	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	505327	10030351	52995169	250	91659											
SPTLC3	55304	broad.mit.edu	37	chr20	13140736	13140736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcgcagaagctcgggctcGgttttgtgtttcagcggcac	5	11	13	12	4	1	1	1	0	0	1	4	1	1	1	1	3	2	6	1	3	1	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:13140736G>A	uc002wod.1	+	11	1791	c.1502G>A	c.(1501-1503)CGG>CAG	p.R501Q		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	501					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	GCTCGGGCTCGGTTTTGTGTT	0.512													32	101					0	0	0.012213	0	0		A	13140736	A	A	13140736	3	1	179	1	0	0	0	0	1	0	0	0	15150	1116	39	1	1544	1	SPTLC3	20	13140736	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	3110385	13140736	49884784	251	91660											
PAX1	5075	broad.mit.edu	37	chr20	21687603	21687603	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagatgggcagccaccccGgggtcccgggcacggcgggc	6	2	17	16	4	0	1	0	0	0	1	1	1	1	1	5	6	1	2	5	6	1	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:21687603G>T	uc002wsj.2	+	2	868	c.814G>T	c.(814-816)GGG>TGG	p.G272W	PAX1_uc010zsl.1_Missense_Mutation_p.G272W|PAX1_uc010zsm.1_Missense_Mutation_p.G248W	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	272					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CAGCCACCCCGGGGTCCCGGG	0.682													22	77					2.89027e-11	3.20249e-11	0.014323	1	0		T	21687603	T	T	21687603	3	4	179	1	0	0	0	0	1	0	0	0	11497	1116	39	5	820	5	PAX1	20	21687603	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	8546867	21687603	41337917	252	91661											
ASXL1	171023	broad.mit.edu	37	chr20	31021453	31021453	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ggtcccgaattcccagttgaGtctgtggcttctcggatcca	6	12	11	12	2	2	1	0	1	2	0	6	3	5	2	3	3	0	2	3	3	1	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:31021453G>C	uc002wxs.2	+	11	1878	c.1452G>C	c.(1450-1452)GAG>GAC	p.E484D	ASXL1_uc010geb.2_Missense_Mutation_p.E375D	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	484					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TCCCAGTTGAGTCTGTGGCTT	0.592			F|N|Mis		MDS|CMML								46	247					0	0	0.01441	0	0		C	31021453	C	C	31021453	3	2	179	1	0	0	0	0	1	0	0	0	1067	1020	36	5	1504	5	ASXL1	20	31021453	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	9333850	31021453	32004067	253	91662											
GGT7	2686	broad.mit.edu	37	chr20	33437798	33437798	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggttggactgcaggtccggGtgtaggcggccgcgggccag	5	6	20	10	4	0	0	0	0	0	0	1	1	1	1	3	7	1	3	3	7	1	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:33437798G>C	uc002xay.2	-	14	1834	c.1791C>G	c.(1789-1791)CAC>CAG	p.H597Q	GGT7_uc010gex.2_RNA|GGT7_uc002xaz.1_Missense_Mutation_p.H614Q	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	597	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						GCAGGTCCGGGTGTAGGCGGC	0.602													3	78					0	0	0.009096	0	0		C	33437798	C	C	33437798	3	2	179	1	0	0	0	0	1	0	0	0	6379	1252	44	5	205	5	GGT7	20	33437798	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	2416345	33437798	29587722	254	91663											
ZNF335	63925	broad.mit.edu	37	chr20	44587966	44587966	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggctcctcagggtggcgcctCccccattcctcgaagctgct	4	9	11	17	2	1	0	1	0	0	0	5	1	4	0	5	3	2	3	5	3	1	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:44587966C>T	uc002xqw.2	-	15	2250	c.2127G>A	c.(2125-2127)GGG>GGA	p.G709G	ZNF335_uc010zxk.1_Silent_p.G554G	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	709					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				GGTGGCGCCTCCCCCATTCCT	0.647													27	72					0	0	0.004656	0	0		T	44587966	T	T	44587966	2	4	179	1	0	0	0	0	0	0	0	1	17877	842	30	4		4	ZNF335	20	44587966	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	11150168	44587966	18437554	255	91664											
ZNF335	63925	broad.mit.edu	37	chr20	44596236	44596236	+	Silent	SNP	A	T	T	1	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	gaggtgctccacttccgtagAcgtccttttttaccagctgc	6	13	9	13	2	0	1	0	0	0	1	3	2	3	1	4	1	4	3	4	1	2	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:44596236A>T	uc002xqw.2	-	6	975	c.852T>A	c.(850-852)CGT>CGA	p.R284R	ZNF335_uc010zxk.1_Silent_p.R129R|ZNF335_uc002xqx.1_Silent_p.R252R|ZNF335_uc002xqy.2_Silent_p.R129R	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	284					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				ACTTCCGTAGACGTCCTTTTT	0.577													50	79					0	0	0.01441	0	0		T	44596236	T	T	44596236	2	4	179	1	0	0	0	0	0	0	0	1	17877	262	10	5		5	ZNF335	20	44596236	Silent	SNP	A	TCGA-D7-6822-01A-11D-1882-08	8270	44596236	18429284	256	91665											
COL20A1	57642	broad.mit.edu	37	chr20	61939894	61939894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttattcctgctgctcccaagGccttgccctgacccacgtgc	5	11	8	17	1	0	1	0	1	0	0	2	1	2	1	5	1	4	2	5	1	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:61939894G>A	uc011aau.1	+	8	876	c.776G>A	c.(775-777)GGC>GAC	p.G259D	COL20A1_uc011aav.1_Missense_Mutation_p.G80D	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	259	VWFA.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					TGCTCCCAAGGCCTTGCCCTG	0.647													3	15					0	0	0.004672	0	0		A	61939894	A	A	61939894	3	1	179	1	0	0	0	0	1	0	0	0	3682	1217	42	2	802	2	COL20A1	20	61939894	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	17343658	61939894	1085626	257	91666											
MYT1	4661	broad.mit.edu	37	chr20	62851193	62851193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggtgtgaagtctcccgacgCctcccagcgccacagcagca	8	5	11	17	4	1	1	0	1	1	0	3	2	2	1	4	1	3	2	4	1	1	0			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr20:62851193C>T	uc002yii.2	+	13	2463	c.2099C>T	c.(2098-2100)GCC>GTC	p.A700V	MYT1_uc002yih.2_Missense_Mutation_p.A402V|MYT1_uc002yij.2_Missense_Mutation_p.A359V	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	700	Ser-rich.				cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					TCTCCCGACGCCTCCCAGCGC	0.577													11	36					0	0	0.008291	0	0		T	62851193	T	T	62851193	3	4	179	1	0	0	0	0	1	0	0	0	10124	739	26	2	2141	2	MYT1	20	62851193	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	911299	62851193	174327	258	91667											
TPTE	7179	broad.mit.edu	37	chr21	11012949	11012949	+	RNA	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttgtgacaatttgtgctAcaagtgaagatccacagcag	12	12	9	8	0	0	3	0	2	0	1	1	3	1	3	1	0	3	2	1	0	4	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr21:11012949A>G	uc002yis.1	-	9		c.1672T>C						P56180	TPTE_HUMAN	Homo sapiens putative tyrosine phosphatase mRNA, complete cds.						signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		AATTTGTGCTACAAGTGAAGA	0.279													15	56					0	0	0.007413	0	0		G	11012949	G	G	11012949	1	3	179	0	1	0	0	0	0	0	0	0	16456	406	14	3		3	TPTE	21	11012949	RNA	SNP	A	TCGA-D7-6822-01A-11D-1882-08		11012949	37116946	259	91668											
ADAMTS5	11096	broad.mit.edu	37	chr21	28327188	28327188	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaatgatgcccacataaAtcctgcccaggagaaagaaa	17	6	8	10	0	0	4	0	2	0	2	1	5	1	4	3	1	2	0	3	1	5	1			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr21:28327188A>C	uc002ymg.2	-	2	1836	c.1107T>G	c.(1105-1107)GAT>GAG	p.D369E		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	369	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						GCCCACATAAATCCTGCCCAG	0.483													38	17					0	0	0.004289	0	0		C	28327188	C	C	28327188	3	2	179	1	0	0	0	0	1	0	0	0	269	98	4	5	1713	5	ADAMTS5	21	28327188	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	17314239	28327188	19802707	260	91669											
GRIK1	2897	broad.mit.edu	37	chr21	30927571	30927571	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcatcatatgcagcttcccTtcttcttggagttgaagaat	9	16	7	9	0	4	2	2	1	2	1	5	3	5	3	1	1	2	3	1	1	3	7			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr21:30927571T>G	uc002yno.1	-	16	2873	c.2409A>C	c.(2407-2409)GAA>GAC	p.E803D	GRIK1_uc002ynn.2_Missense_Mutation_p.E788D|GRIK1_uc011acs.1_Missense_Mutation_p.E803D|GRIK1_uc011act.1_Missense_Mutation_p.E664D	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	803	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GCAGCTTCCCTTCTTCTTGGA	0.448													47	123					0	0	0.01441	0	0		G	30927571	G	G	30927571	3	3	179	1	0	0	0	0	1	0	0	0	6789	1606	56	5	515	5	GRIK1	21	30927571	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2600383	30927571	17202324	261	91670											
DSCR6	53820	broad.mit.edu	37	chr21	38390197	38390197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttacccatgtcaaagcGtcaagaatacctgcggagtt	12	11	8	10	2	2	1	2	0	0	1	2	2	2	2	2	1	4	1	2	1	6	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr21:38390197G>A	uc002yvv.2	+	4	473	c.263G>A	c.(262-264)CGT>CAT	p.R88H	DSCR6_uc011aec.1_5'UTR|DSCR6_uc010gnd.2_5'UTR	NM_018962	NP_061835	P57055	DSCR6_HUMAN	Down syndrome critical region protein 6	88	Ripply homology domain.					nucleus				breast(1)	1		Myeloproliferative disorder(46;0.0632)				ATGTCAAAGCGTCAAGAATAC	0.448													19	41					0	0	0.010504	0	0		A	38390197	A	A	38390197	3	1	179	1	0	0	0	0	1	0	0	0	4779	1145	40	1	277	1	DSCR6	21	38390197	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	7462626	38390197	9739698	262	91671											
ERG	2078	broad.mit.edu	37	chr21	39755499	39755499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcttctgtgggtgggcGtgataggagcccatgtacgg	6	12	15	8	2	3	1	1	1	2	0	3	2	3	2	1	4	2	1	1	4	2	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr21:39755499G>A	uc010gnw.2	-	12	1582	c.1287C>T	c.(1285-1287)CAC>CAT	p.H429H	ERG_uc002yxa.2_Silent_p.H422H|ERG_uc011aek.1_Silent_p.H330H|ERG_uc010gnv.2_Silent_p.H306H|ERG_uc010gnx.2_Silent_p.H405H|ERG_uc011ael.1_Silent_p.H429H|ERG_uc002yxb.2_Silent_p.H405H	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	429					cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				GTGGGTGGGCGTGATAGGAGC	0.592													58	48					0	0	0.01441	0	0		A	39755499	A	A	39755499	2	1	179	1	0	0	0	0	0	0	0	1	5230	1136	40	1		1	ERG	21	39755499	Silent	SNP	G	TCGA-D7-6822-01A-11D-1882-08	1365302	39755499	8374396	263	91672											
TRMT2A	27037	broad.mit.edu	37	chr22	20104493	20104511	+	Splice_Site	DEL	GGCCTGTCACAAGGGAAGT	-	-																															cgcctggccacctcgtcctgGgcctgtcacaagggaagtgg																								rs11544956		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr22:20104493_20104511delGGCCTGTCACAAGGGAAGT	uc002zrk.1	-	2	150	c.-65_splice	c.e2-1		TRMT2A_uc002zrl.1_5'UTR|TRMT2A_uc002zrm.1_5'UTR|TRMT2A_uc002zrn.1_5'UTR|TRMT2A_uc011ahk.1_5'UTR|RANBP1_uc011ahl.1_5'Flank|RANBP1_uc002zro.1_5'Flank|RANBP1_uc002zrp.2_5'Flank	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C						RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						CCTCGTCCTGGGCCTGTCACAAGGGAAGTGGCCTGTCAC	0.699													3	6	---	---	---	---						.	-	20104511	-	-	20104493	8	5	179	1	0	1	0	1	0	0	1	0	16591	1247	43	0		0	TRMT2A	22	20104493	Splice_Site	DEL	GGCCTGTCACAAGGGAAGT	TCGA-D7-6822-01A-11D-1882-08		20104493	31200073	264	91673											
SGSM1	129049	broad.mit.edu	37	chr22	25251628	25251628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacccttctctatggcaaaaAcaacgttcttgttcagccgg	10	11	7	13	2	3	0	1	0	2	0	4	0	3	0	2	2	3	3	2	2	4	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr22:25251628A>G	uc003abg.2	+	8	939	c.782A>G	c.(781-783)AAC>AGC	p.N261S	SGSM1_uc003abh.2_Missense_Mutation_p.N261S|SGSM1_uc010guu.1_Missense_Mutation_p.N261S|SGSM1_uc003abj.2_Missense_Mutation_p.N261S|SGSM1_uc003abi.1_Missense_Mutation_p.N236S|SGSM1_uc003abf.2_Missense_Mutation_p.N261S	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	261						Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						TATGGCAAAAACAACGTTCTT	0.547													17	41					0	0	0.007413	0	0		G	25251628	G	G	25251628	3	3	179	1	0	0	0	0	1	0	0	0	14247	43	2	3	812	3	SGSM1	22	25251628	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	5147135	25251628	26052938	265	91674											
APOL2	23780	broad.mit.edu	37	chr22	36623750	36623750	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atatgcgggggtggggcataCgctcctaactgagggttggc	7	9	17	8	2	0	1	0	1	0	0	1	1	1	1	1	6	3	3	1	6	3	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr22:36623750C>T	uc003aoz.2	-	5	1050	c.714G>A	c.(712-714)GCG>GCA	p.A238A	APOL2_uc011amm.1_Silent_p.A350A|APOL2_uc003apa.2_Silent_p.A238A	NM_030882	NP_112092	Q9BQE5	APOL2_HUMAN	apolipoprotein L2	238					acute-phase response|cholesterol metabolic process|lipid transport|lipoprotein metabolic process|maternal process involved in female pregnancy|multicellular organismal development	endoplasmic reticulum membrane|extracellular region	high-density lipoprotein particle binding|lipid binding|receptor binding				0						GTGGGGCATACGCTCCTAACT	0.542													49	108					0	0	0.01441	0	0		T	36623750	T	T	36623750	2	4	179	1	0	0	0	0	0	0	0	1	806	523	19	1		1	APOL2	22	36623750	Silent	SNP	C	TCGA-D7-6822-01A-11D-1882-08	11372122	36623750	14680816	266	91675											
RANGAP1	5905	broad.mit.edu	37	chr22	41670686	41670686	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgttgccttccagacgcagaGcctccaagctgtcaaagtct	9	10	9	13	1	2	2	1	0	1	2	4	2	4	2	4	0	3	3	4	0	2	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chr22:41670686G>A	uc003azs.2	-	2	1628	c.158C>T	c.(157-159)GCT>GTT	p.A53V	RANGAP1_uc003azt.2_Missense_Mutation_p.A53V|RANGAP1_uc003azu.2_Missense_Mutation_p.A53V|RANGAP1_uc011aoz.1_Missense_Mutation_p.A43V	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	53	LRR 1.				mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						CAGACGCAGAGCCTCCAAGCT	0.512													42	77					0	0	0.010771	0	0		A	41670686	A	A	41670686	3	1	179	1	0	0	0	0	1	0	0	0	13058	971	34	2	1661	2	RANGAP1	22	41670686	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	5046936	41670686	9633880	267	91676											
ARSF	416	broad.mit.edu	37	chrX	3002505	3002505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taacctttgggaagctgagcGgctgggtctctgttccctgg	5	12	14	10	1	1	1	0	1	1	0	3	2	2	2	2	4	3	3	2	4	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:3002505G>A	uc004cre.1	+	6	849	c.628G>A	c.(628-630)GGC>AGC	p.G210S	ARSF_uc004crf.1_Missense_Mutation_p.G210S	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	210						extracellular region	arylsulfatase activity|metal ion binding	p.G210S(1)		ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAAGCTGAGCGGCTGGGTCTC	0.522													36	11					0	0	0.004289	0	0		A	3002505	A	A	3002505	3	1	179	1	0	0	0	0	1	0	0	0	992	1116	39	1	646	1	ARSF	23	3002505	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08		3002505	152268055	268	91677											
FRMPD4	9758	broad.mit.edu	37	chrX	12736165	12736165	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtcttcacgagacagtCaacacctgagcacttttaat	11	12	7	11	1	3	2	2	1	1	1	3	3	3	2	1	0	2	1	1	0	2	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:12736165C>A	uc004cuz.1	+	16	3726	c.3220C>A	c.(3220-3222)CAA>AAA	p.Q1074K	FRMPD4_uc011mij.1_Missense_Mutation_p.Q1066K	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1074					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						ACGAGACAGTCAACACCTGAG	0.473													39	17					1.47197e-15	1.65654e-15	0.007835	1	0		A	12736165	A	A	12736165	3	1	179	1	0	0	0	0	1	0	0	0	6073	827	29	5	3282	5	FRMPD4	23	12736165	Missense_Mutation	SNP	C	TCGA-D7-6822-01A-11D-1882-08	9733660	12736165	142534395	269	91678											
DCAF8L2	347442	broad.mit.edu	37	chrX	27765043	27765043	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaaggcagcacagacggcTtaccagacttagggactgaa	15	5	12	9	1	0	4	0	1	0	3	0	5	0	5	1	3	2	3	1	3	5	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:27765043T>C	uc011mjy.1	+	1	118	c.31T>C	c.(31-33)TTA>CTA	p.L11L		NM_001136533	NP_001130005			DDB1 and CUL4 associated factor 8-like 2											central_nervous_system(1)|pancreas(1)	2						CACAGACGGCTTACCAGACTT	0.552													12	6					0	0	0.003163	0	0		C	27765043	C	C	27765043	2	2	179	1	0	0	0	0	0	0	0	1	4281	1606	56	3		3	DCAF8L2	23	27765043	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	15028878	27765043	127505517	270	91679											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29935668	29935668	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggatgaaaggagaaaaatTtattgaagatctggatgaaa	18	10	11	2	0	1	5	0	3	1	2	1	8	1	7	0	3	0	0	0	3	6	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:29935668T>G	uc004dby.2	+	7	1374	c.866T>G	c.(865-867)TTT>TGT	p.F289C		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	289	Extracellular (Potential).|Ig-like C2-type 3.				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GGAGAAAAATTTATTGAAGAT	0.363													31	16					0	0	0.013726	0	0		G	29935668	G	G	29935668	3	3	179	1	0	0	0	0	1	0	0	0	7677	1841	64	5	888	5	IL1RAPL1	23	29935668	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	2170625	29935668	125334892	271	91680											
STARD8	9754	broad.mit.edu	37	chrX	67937258	67937258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaccgtgagcctaccacccGagccagcagacttgcccttg	8	7	9	17	2	1	2	1	1	0	1	1	3	1	2	6	0	5	1	6	0	1	3	rs149322857		TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:67937258G>A	uc004dxa.2	+	5	634	c.262G>A	c.(262-264)GAG>AAG	p.E88K	STARD8_uc004dxb.2_Missense_Mutation_p.E168K|STARD8_uc004dxc.3_Missense_Mutation_p.E88K	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	88					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						CCTACCACCCGAGCCAGCAGA	0.677													16	19					0	0	0.003163	0	0		A	67937258	A	A	67937258	3	1	179	1	0	0	0	0	1	0	0	0	15288	1059	37	1	524	1	STARD8	23	67937258	Missense_Mutation	SNP	G	TCGA-D7-6822-01A-11D-1882-08	38001590	67937258	87333302	272	91681											
ZDHHC15	158866	broad.mit.edu	37	chrX	74698782	74698782	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttccagtaggtccaggtaaAgaacacaaagatggcatggt	14	8	11	8	0	0	2	0	0	0	2	2	2	2	2	2	4	1	3	2	4	5	3			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:74698782A>C	uc004ecg.2	-	3	680	c.202T>G	c.(202-204)TTT>GTT	p.F68V	ZDHHC15_uc004ech.2_Missense_Mutation_p.F59V|ZDHHC15_uc011mqo.1_RNA|ZDHHC15_uc004eci.2_Missense_Mutation_p.F59V	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	68	Helical; (Potential).					integral to membrane	zinc ion binding			ovary(2)	2						GTCCAGGTAAAGAACACAAAG	0.323													21	22					0	0	0.00278	0	0		C	74698782	C	C	74698782	3	2	179	1	0	0	0	0	1	0	0	0	17630	72	3	5	927	5	ZDHHC15	23	74698782	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	6761524	74698782	80571778	273	91682											
FAM46D	169966	broad.mit.edu	37	chrX	79698243	79698243	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgaatggttccgtagcaAgttacatacttgcaagccac	12	11	9	9	1	0	1	0	1	0	0	1	2	1	1	2	1	5	5	2	1	6	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:79698243A>C	uc004edl.1	+	5	539	c.205A>C	c.(205-207)AGT>CGT	p.S69R	FAM46D_uc004edm.1_Missense_Mutation_p.S69R	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	69										lung(2)	2						TTCCGTAGCAAGTTACATACT	0.378													35	50					0	0	0.003271	0	0		C	79698243	C	C	79698243	3	2	179	1	0	0	0	0	1	0	0	0	5582	72	3	5	207	5	FAM46D	23	79698243	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	4999461	79698243	75572317	274	91683											
HDX	139324	broad.mit.edu	37	chrX	83599419	83599419	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctcctcttggaggtggaactTcaatccccattaaacgatat	11	12	7	11	1	2	0	1	0	1	0	4	3	4	2	3	3	2	0	3	3	5	4			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:83599419T>G	uc004eek.1	-	6	1608	c.1499A>C	c.(1498-1500)GAA>GCA	p.E500A	HDX_uc011mqv.1_Missense_Mutation_p.E500A|HDX_uc004eel.1_Missense_Mutation_p.E442A	NM_144657	NP_653258	Q7Z353	HDX_HUMAN	highly divergent homeobox	500						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)	2						AGGTGGAACTTCAATCCCCAT	0.428													30	51					0	0	0.010818	0	0		G	83599419	G	G	83599419	3	3	179	1	0	0	0	0	1	0	0	0	7042	1783	62	5	593	5	HDX	23	83599419	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	3901176	83599419	71671141	275	91684											
PCDH11X	27328	broad.mit.edu	37	chrX	91090643	91090643	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcgacttgttgaaagaccTtaacttgtcgctgattccaa	11	12	9	9	2	0	3	0	2	0	1	2	4	1	3	2	1	1	2	2	1	3	5			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:91090643T>G	uc004efk.1	+	1	985	c.140T>G	c.(139-141)CTT>CGT	p.L47R	PCDH11X_uc004efl.1_Missense_Mutation_p.L47R|PCDH11X_uc004efo.1_Missense_Mutation_p.L47R|PCDH11X_uc010nmv.1_Missense_Mutation_p.L47R|PCDH11X_uc004efm.1_Missense_Mutation_p.L47R|PCDH11X_uc004efn.1_Missense_Mutation_p.L47R|PCDH11X_uc004efh.1_Missense_Mutation_p.L47R|PCDH11X_uc004efj.1_Missense_Mutation_p.L47R	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	47	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TTGAAAGACCTTAACTTGTCG	0.473													26	69					0	0	0.004656	0	0		G	91090643	G	G	91090643	3	3	179	1	0	0	0	0	1	0	0	0	11527	1609	56	5	142	5	PCDH11X	23	91090643	Missense_Mutation	SNP	T	TCGA-D7-6822-01A-11D-1882-08	7491224	91090643	64179917	276	91685											
MAGEC1	9947	broad.mit.edu	37	chrX	140993256	140993256	+	Silent	SNP	T	C	C	0	1	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	cagagttcctctgagagtccTcagagttgtcctgaggggga	8	10	14	9	0	2	4	1	2	1	3	5	6	5	5	3	2	0	2	3	2	0	2			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:140993256T>C	uc004fbt.2	+	4	352	c.66T>C	c.(64-66)CCT>CCC	p.P22P	MAGEC1_uc010nsl.1_5'UTR	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	22							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CTGAGAGTCCTCAGAGTTGTC	0.512										HNSCC(15;0.026)			48	70					0	0	0.01441	0	0		C	140993256	C	C	140993256	2	2	179	1	0	0	0	0	0	0	0	1	9198	1538	54	3		3	MAGEC1	23	140993256	Silent	SNP	T	TCGA-D7-6822-01A-11D-1882-08	49902613	140993256	14277304	277	91686											
SPANXN1	494118	broad.mit.edu	37	chrX	144337294	144337294	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttgctacaggaaagctaAgaaaatacattcaaatcaac	18	10	6	7	0	2	1	2	0	0	1	2	2	2	2	0	1	5	3	0	1	8	6			TCGA-D7-6822-01A-11D-1882-08	TCGA-D7-6822-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	1021b60d-f7b2-43b0-b2cc-f282d619d533	1bbfeaa7-ec73-45fd-8527-771d952afd70	g.chrX:144337294A>T	uc004fcb.2	+	2	179	c.179A>T	c.(178-180)AAG>ATG	p.K60M		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein	60											0	Acute lymphoblastic leukemia(192;6.56e-05)					AGGAAAGCTAAGAAAATACAT	0.448													56	68					0	0	0.01441	0	0		T	144337294	T	T	144337294	3	4	179	1	0	0	0	0	1	0	0	0	15015	72	3	5	185	5	SPANXN1	23	144337294	Missense_Mutation	SNP	A	TCGA-D7-6822-01A-11D-1882-08	3344038	144337294	10933266	278	91687											
CLSTN1	22883	broad.mit.edu	37	chr1	9809625	9809625	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtactgaggcgactggctcGtcacatgtctccaggtggat	7	11	13	10	2	2	1	1	1	1	0	4	3	2	2	1	4	1	2	1	4	1	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:9809625G>C	uc001aqh.2	-	7	1638	c.879C>G	c.(877-879)GAC>GAG	p.D293E	CLSTN1_uc001aqi.2_Missense_Mutation_p.D283E|CLSTN1_uc010oag.1_Missense_Mutation_p.D293E	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	293	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		CGACTGGCTCGTCACATGTCT	0.572													9	84					0	0	0.004482	0	0		C	9809625	C	C	9809625	3	2	180	1	0	0	0	0	1	0	0	0	3564	1136	40	5	2118	5	CLSTN1	1	9809625	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08		9809625	239440996	1	91688											
CLCNKA	1187	broad.mit.edu	37	chr1	16359716	16359716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtccctcttcgtgacatcgCggggcagagctgtgggctgc	5	9	15	12	3	1	2	0	1	1	1	4	2	2	2	1	3	2	3	1	3	0	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:16359716C>T	uc001axu.2	+	19	2061	c.1981C>T	c.(1981-1983)CGG>TGG	p.R661W	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.R660W|CLCNKA_uc010obw.1_Missense_Mutation_p.R618W|CLCNKB_uc001axw.3_Intron	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	661	CBS 2.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	CGTGACATCGCGGGGCAGAGC	0.612											OREG0013132	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	119					0	0	0.011902	0	0		T	16359716	T	T	16359716	3	4	180	1	0	0	0	0	1	0	0	0	3472	759	27	1	2051	1	CLCNKA	1	16359716	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	6550091	16359716	232890905	2	91689											
ASH1L	55870	broad.mit.edu	37	chr1	155408474	155408474	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttaagattttattgacatgGtctaggtttttctttgtggc	7	21	9	4	0	2	2	0	1	2	1	2	2	2	2	0	3	0	1	0	3	3	9			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:155408474G>A	uc009wqq.2	-	5	5952	c.5472C>T	c.(5470-5472)GAC>GAT	p.D1824D	ASH1L_uc001fkt.2_Silent_p.D1824D	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1824					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TATTGACATGGTCTAGGTTTT	0.448													19	226					0	0	0.008871	0	0		A	155408474	A	A	155408474	2	1	180	1	0	0	0	0	0	0	0	1	1042	1252	44	4		4	ASH1L	1	155408474	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	139048758	155408474	93842147	3	91690											
SPTA1	6708	broad.mit.edu	37	chr1	158623116	158623116	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcctggctcttctcgtcGccgctgtgggagcatcggga	3	12	14	12	4	2	0	0	0	2	0	6	2	3	2	2	3	1	4	2	3	0	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:158623116G>A	uc001fst.1	-	22	3335	c.3136C>T	c.(3136-3138)CGA>TGA	p.R1046*		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1046					actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCTTCTCGTCGCCGCTGTGGG	0.537													19	108					0	0	0.006122	0	0		A	158623116	A	A	158623116	4	1	180	1	0	0	0	0	0	1	0	0	15141	1095	38	1	4247	1	SPTA1	1	158623116	Nonsense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	3214642	158623116	90627505	4	91691											
LRRC52	440699	broad.mit.edu	37	chr1	165513859	165513859	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcatctaccttgacctcaGctccaacaacctaacctcga	12	9	3	17	1	3	1	2	1	1	0	5	2	4	1	5	0	5	1	5	0	4	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:165513859G>C	uc001gde.2	+	1	382	c.326G>C	c.(325-327)AGC>ACC	p.S109T	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	109	LRR 3.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					CTTGACCTCAGCTCCAACAAC	0.488													23	252					0	0	0.014323	0	0		C	165513859	C	C	165513859	3	2	180	1	0	0	0	0	1	0	0	0	9028	971	34	5	328	5	LRRC52	1	165513859	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	6890743	165513859	83736762	5	91692											
DSTYK	25778	broad.mit.edu	37	chr1	205132996	205132996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagccactgcctgattaagtCgggagatgatgagttcctgg	9	11	13	8	1	0	4	0	3	0	1	2	5	1	4	3	2	2	1	3	2	2	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:205132996C>T	uc001hbw.2	-	4	1476	c.1412G>A	c.(1411-1413)CGA>CAA	p.R471Q	DSTYK_uc001hbx.2_Missense_Mutation_p.R471Q|DSTYK_uc001hby.1_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	471						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						CTGATTAAGTCGGGAGATGAT	0.512													21	65					0	0	0.012319	0	0		T	205132996	T	T	205132996	3	4	180	1	0	0	0	0	1	0	0	0	4791	884	31	1	1417	1	DSTYK	1	205132996	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	39619137	205132996	44117625	6	91693											
TRAF3IP3	80342	broad.mit.edu	37	chr1	209933511	209933511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccaatgtgaccacttgcCgccaggtggggaagacgctg	8	7	14	12	2	0	2	0	1	0	1	1	3	1	3	4	3	1	1	4	3	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:209933511C>T	uc001hho.2	+	3	417	c.127C>T	c.(127-129)CGC>TGC	p.R43C	TRAF3IP3_uc001hhl.2_Missense_Mutation_p.R43C|TRAF3IP3_uc001hhm.1_Missense_Mutation_p.R43C|TRAF3IP3_uc001hhn.2_Missense_Mutation_p.R43C|TRAF3IP3_uc009xcr.2_Missense_Mutation_p.R43C	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	43	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		GACCACTTGCCGCCAGGTGGG	0.612													15	27					0	0	0.00245	0	0		T	209933511	T	T	209933511	3	4	180	1	0	0	0	0	1	0	0	0	16468	652	23	1	129	1	TRAF3IP3	1	209933511	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	4800515	209933511	39317110	7	91694											
CENPF	1063	broad.mit.edu	37	chr1	214818018	214818018	+	Missense_Mutation	SNP	T	A	A	0	1	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	taaagatgctcagcaggaccTcaatctagacattgagaaaa	17	8	8	8	0	3	3	2	1	1	3	3	5	3	4	1	1	2	2	1	1	6	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:214818018T>A	uc001hkm.2	+	13	5279	c.5105T>A	c.(5104-5106)CTC>CAC	p.L1702H		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1798					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		CAGCAGGACCTCAATCTAGAC	0.438													9	63					0	0	0.006214	0	0		A	214818018	A	A	214818018	3	1	180	1	0	0	0	0	1	0	0	0	3234	1551	54	5	5151	5	CENPF	1	214818018	Missense_Mutation	SNP	T	TCGA-D7-8570-01A-11D-2340-08	4884507	214818018	34432603	8	91695											
TLR5	7100	broad.mit.edu	37	chr1	223285526	223285526	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaacttctggccaggccaGcaaatgtgttctggtcagga	9	10	12	10	0	3	1	1	1	2	0	3	2	3	2	2	4	2	2	2	4	2	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr1:223285526G>C	uc001hnv.1	-	4	1294	c.848C>G	c.(847-849)GCT>GGT	p.A283G	TLR5_uc001hnw.1_Missense_Mutation_p.A283G	NM_003268	NP_003259	O60602	TLR5_HUMAN	toll-like receptor 5 precursor	283	Extracellular (Potential).				cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of toll-like receptor signaling pathway	integral to membrane|plasma membrane	interleukin-1 receptor binding|transmembrane receptor activity			ovary(2)|lung(1)|skin(1)	4				GBM - Glioblastoma multiforme(131;0.0851)		GGCCAGGCCAGCAAATGTGTT	0.483													9	91					0	0	0.004482	0	0		C	223285526	C	C	223285526	3	2	180	1	0	0	0	0	1	0	0	0	15979	971	34	5	1732	5	TLR5	1	223285526	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	8467508	223285526	25965095	9	91696											
CPSF3	51692	broad.mit.edu	37	chr2	9580739	9580739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccatgaatgacaaaatcCgcaaacagatcaacatcaat	19	7	5	10	1	2	3	2	2	0	1	3	3	3	3	2	0	3	1	2	0	6	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:9580739C>T	uc002qzo.1	+	8	915	c.880C>T	c.(880-882)CGC>TGC	p.R294C	CPSF3_uc010ewx.1_Missense_Mutation_p.R294C|CPSF3_uc002qzp.1_Missense_Mutation_p.R257C	NM_016207	NP_057291	Q9UKF6	CPSF3_HUMAN	cleavage and polyadenylation specific factor 3,	294					histone mRNA 3'-end processing|mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex|ribonucleoprotein complex	5'-3' exonuclease activity|endoribonuclease activity|metal ion binding|protein binding|RNA binding			breast(2)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;2.39e-25)|all_epithelial(98;8.75e-19)|Lung NSC(108;2.38e-06)|Ovarian(717;0.0308)		all cancers(51;2.2e-40)|Epithelial(75;6.71e-35)|OV - Ovarian serous cystadenocarcinoma(76;4.35e-21)|STAD - Stomach adenocarcinoma(1183;0.00644)		TGACAAAATCCGCAAACAGAT	0.383													18	104					0	0	0.006122	0	0		T	9580739	T	T	9580739	3	4	180	1	0	0	0	0	1	0	0	0	3829	652	23	1	910	1	CPSF3	2	9580739	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08		9580739	233618634	10	91697											
CLIP4	79745	broad.mit.edu	37	chr2	29383251	29383251	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatagccgttgcgagggggaActccgcctcggagagagagt	10	6	16	9	4	0	2	0	0	0	2	2	6	1	3	3	3	3	1	3	3	3	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:29383251A>T	uc002rmv.2	+	12	1691	c.1452A>T	c.(1450-1452)GAA>GAT	p.E484D	CLIP4_uc002rmu.2_Missense_Mutation_p.E484D|CLIP4_uc010ezm.1_Missense_Mutation_p.E484D|CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	484										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GCGAGGGGGAACTCCGCCTCG	0.498													9	61					0	0	0.010729	0	0		T	29383251	T	T	29383251	3	4	180	1	0	0	0	0	1	0	0	0	3538	40	2	5	1494	5	CLIP4	2	29383251	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	19802512	29383251	213816122	11	91698											
MAL	4118	broad.mit.edu	37	chr2	95713846	95713846	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtacataattggagcccacgGtggagagacttcctgggtca	10	9	13	9	1	1	1	1	0	0	1	2	4	2	3	2	4	2	1	2	4	2	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:95713846G>T	uc002stx.1	+	2	295	c.236G>T	c.(235-237)GGT>GTT	p.G79V	MAL_uc002sty.1_Intron|MAL_uc002stz.1_Missense_Mutation_p.G79V|MAL_uc002sua.1_Intron	NM_002371	NP_002362	P21145	MAL_HUMAN	T-lymphocyte maturation-associated protein	79	Cytoplasmic (Potential).|MARVEL.				apical protein localization|cell differentiation|central nervous system development|induction of apoptosis|membrane raft polarization|myelination	apical plasma membrane|endoplasmic reticulum|endosome|integral to plasma membrane|membrane raft	apoptotic protease activator activity|channel activity|lipid binding|structural constituent of myelin sheath				0				STAD - Stomach adenocarcinoma(1183;0.18)		GGAGCCCACGGTGGAGAGACT	0.617													5	30					5.9392e-07	6.60653e-07	0.001168	1	0		T	95713846	T	T	95713846	3	4	180	1	0	0	0	0	1	0	0	0	9217	1261	44	5	242	5	MAL	2	95713846	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	66330595	95713846	147485527	12	91699											
ZNF2	7549	broad.mit.edu	37	chr2	95847608	95847608	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaccctcgctatcagtgtaaCgagtgtggcaaagctttctt	9	12	10	10	2	2	0	1	0	1	0	3	2	2	0	1	1	2	4	1	1	3	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:95847608C>T	uc002suf.2	+	6	1494	c.1032C>T	c.(1030-1032)AAC>AAT	p.N344N	ZNF2_uc002sug.2_Silent_p.N302N|ZNF2_uc010yue.1_Silent_p.N307N|ZNF2_uc010fhs.2_Silent_p.N265N	NM_021088	NP_066574	Q9BSG1	ZNF2_HUMAN	zinc finger protein 2 isoform a	344	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(717;0.00768)		READ - Rectum adenocarcinoma(193;0.0222)		ATCAGTGTAACGAGTGTGGCA	0.493													10	94					0	0	0.008291	0	0		T	95847608	T	T	95847608	2	4	180	1	0	0	0	0	0	0	0	1	17785	535	19	1		1	ZNF2	2	95847608	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	133762	95847608	147351765	13	91700											
MBD5	55777	broad.mit.edu	37	chr2	149240903	149240903	+	Missense_Mutation	SNP	A	T	T	1	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	accatcttccacaccccttgAaccccagcctcctcagttct	8	10	3	20	0	3	1	1	1	2	0	5	1	5	1	8	0	2	1	8	0	1	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:149240903A>T	uc002twm.3	+	10	3731	c.2743A>T	c.(2743-2745)AAC>TAC	p.N915Y	MBD5_uc010zbs.1_RNA|MBD5_uc010fns.2_Missense_Mutation_p.N915Y|MBD5_uc002two.2_5'Flank|MBD5_uc002twp.2_5'Flank	NM_018328	NP_060798	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	915						chromosome|nucleus	chromatin binding|DNA binding			skin(3)|ovary(2)	5				BRCA - Breast invasive adenocarcinoma(221;0.0569)		ACACCCCTTGAACCCCAGCCT	0.468													33	184					0	0	0.003755	0	0		T	149240903	T	T	149240903	3	4	180	1	0	0	0	0	1	0	0	0	9365	246	9	5	2761	5	MBD5	2	149240903	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	53393295	149240903	93958470	14	91701											
SCN1A	6323	broad.mit.edu	37	chr2	166848344	166848344	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagttgcatcgggatcaaacTtctcccaaacctcatagaac	13	9	7	12	1	3	1	2	0	1	1	5	3	3	2	2	1	4	2	2	1	4	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:166848344T>G	uc010zcz.1	-	26	5426	c.5408A>C	c.(5407-5409)AAG>ACG	p.K1803T		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1814	IV.		WEKF -> C (in SMEI).			voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	GGGATCAAACTTCTCCCAAAC	0.453													25	160					0	0	0.00333	0	0		G	166848344	G	G	166848344	3	3	180	1	0	0	0	0	1	0	0	0	13939	1609	56	5	592	5	SCN1A	2	166848344	Missense_Mutation	SNP	T	TCGA-D7-8570-01A-11D-2340-08	17607441	166848344	76351029	15	91702											
HOXD4	3233	broad.mit.edu	37	chr2	177017437	177017437	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatttcattttaacaggtatCtgacaaggcgccgtcggatt	11	13	9	8	3	2	1	1	1	1	0	3	2	2	2	1	3	1	1	1	3	4	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:177017437C>G	uc002uks.2	+	2	784	c.535C>G	c.(535-537)CTG>GTG	p.L179V		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	179	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		TAACAGGTATCTGACAAGGCG	0.527													7	72					0	0	0.001984	0	0		G	177017437	G	G	177017437	3	3	180	1	0	0	0	0	1	0	0	0	7340	912	32	5	541	5	HOXD4	2	177017437	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	10169093	177017437	66181936	16	91703											
CASP8	841	broad.mit.edu	37	chr2	202151266	202151266	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	aaaaacatggggaaacagatGcctcagcctactttcacact	15	8	7	11	0	2	1	2	0	0	1	2	2	2	2	2	2	5	0	2	2	4	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:202151266G>C	uc002uxr.1	+	10	1598	c.1389G>C	c.(1387-1389)ATG>ATC	p.M463I	CASP8_uc002uxp.1_Missense_Mutation_p.M480I|CASP8_uc002uxq.1_Missense_Mutation_p.M448I|CASP8_uc002uxt.1_Missense_Mutation_p.M522I|CASP8_uc002uxu.1_RNA|CASP8_uc002uxw.1_Missense_Mutation_p.M448I|CASP8_uc002uxy.1_Intron|CASP8_uc002uxx.1_Intron|CASP8_uc010ftf.2_Missense_Mutation_p.M379I	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	463					activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						GGAAACAGATGCCTCAGCCTA	0.318										HNSCC(4;0.00038)			5	53					0	0	0.014758	0	0		C	202151266	C	C	202151266	3	2	180	1	0	0	0	0	1	0	0	0	2680	1319	46	5	1700	5	CASP8	2	202151266	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	25133829	202151266	41048107	17	91704											
COL6A3	1293	broad.mit.edu	37	chr2	238249128	238249128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcaacagcctcccgaagcGcatcaaaggctcctcgttga	10	7	10	14	3	1	1	1	1	0	0	4	2	3	1	3	2	3	4	3	2	3	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr2:238249128G>A	uc002vwl.2	-	38	8716	c.8431C>T	c.(8431-8433)CGC>TGC	p.R2811C	COL6A3_uc002vwo.2_Missense_Mutation_p.R2605C|COL6A3_uc010znj.1_Missense_Mutation_p.R2204C|COL6A3_uc002vwj.2_Missense_Mutation_p.R192C	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2811	VWFA 12.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CTCCCGAAGCGCATCAAAGGC	0.552													6	46					0	0	0.001168	0	0		A	238249128	A	A	238249128	3	1	180	1	0	0	0	0	1	0	0	0	3704	1087	38	1	1130	1	COL6A3	2	238249128	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	36097862	238249128	4950245	18	91705											
GNL3	26354	broad.mit.edu	37	chr3	52725622	52725622	+	Silent	SNP	T	G	G	0	1	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	caagaacagatgtgtaatgtTggtgtatccatggggcttac	11	12	12	6	0	0	2	0	0	0	2	1	2	1	2	1	3	2	4	1	3	5	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr3:52725622T>G	uc003dfd.2	+	9	1019	c.846T>G	c.(844-846)GTT>GTG	p.V282V	GNL3_uc003dfe.2_Silent_p.V270V|GNL3_uc003dff.2_Silent_p.V270V|SNORD69_uc003dfh.1_5'Flank	NM_014366	NP_055181	Q9BVP2	GNL3_HUMAN	guanine nucleotide binding protein-like 3	282	G.|Intermediate (By similarity).				regulation of cell proliferation	nucleolus	GTP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;6.75e-05)|Kidney(197;0.000611)|KIRC - Kidney renal clear cell carcinoma(197;0.000773)|OV - Ovarian serous cystadenocarcinoma(275;0.048)		TGTGTAATGTTGGTGTATCCA	0.338													8	49					0	0	0.006214	0	0		G	52725622	G	G	52725622	2	3	180	1	0	0	0	0	0	0	0	1	6552	1799	63	5		5	GNL3	3	52725622	Silent	SNP	T	TCGA-D7-8570-01A-11D-2340-08		52725622	145296808	19	91706											
CEP63	80254	broad.mit.edu	37	chr3	134276999	134276999	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	attaggcaaaagagatttcaCtagcagacctccaggagaat	16	8	9	8	0	1	3	1	0	0	3	2	5	2	3	2	2	1	2	2	2	5	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr3:134276999C>G	uc003eqo.1	+	14	1932	c.1483C>G	c.(1483-1485)CTA>GTA	p.L495V	CEP63_uc003eql.1_Intron|CEP63_uc003eqm.2_Intron|CEP63_uc003eqn.1_Intron	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	495	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						AGAGATTTCACTAGCAGACCT	0.338													13	88					0	0	0.001855	0	0		G	134276999	G	G	134276999	3	3	180	1	0	0	0	0	1	0	0	0	3260	564	20	5	1529	5	CEP63	3	134276999	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	81551377	134276999	63745431	20	91707											
KIAA1109	84162	broad.mit.edu	37	chr4	123161241	123161241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcttcatttgtttctgcGttaggtggagaagatgatgt	8	15	13	5	1	2	3	1	1	1	2	2	4	2	3	0	3	1	3	0	3	2	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr4:123161241G>A	uc003ieh.2	+	27	4449	c.4404G>A	c.(4402-4404)GCG>GCA	p.A1468A	KIAA1109_uc003iei.1_Silent_p.A1221A|KIAA1109_uc010ins.1_Silent_p.A811A|KIAA1109_uc003iek.2_Silent_p.A87A	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1468					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						TTGTTTCTGCGTTAGGTGGAG	0.418													8	81					0	0	0.00308	0	0		A	123161241	A	A	123161241	2	1	180	1	0	0	0	0	0	0	0	1	8224	1132	40	1		1	KIAA1109	4	123161241	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08		123161241	67993035	21	91708											
PCDH10	57575	broad.mit.edu	37	chr4	134072398	134072398	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	caccgtgaaggaagcggtgaGtgagggcgcggcgcccggca	8	3	19	11	6	0	3	0	3	0	0	0	4	0	4	2	5	1	1	2	5	2	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr4:134072398G>T	uc003iha.2	+	1	1929	c.1103G>T	c.(1102-1104)AGT>ATT	p.S368I	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.S368I	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	368	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GAAGCGGTGAGTGAGGGCGCG	0.627													22	96					7.41877e-09	8.29897e-09	0.012319	1	0		T	134072398	T	T	134072398	3	4	180	1	0	0	0	0	1	0	0	0	11526	1029	36	5	1105	5	PCDH10	4	134072398	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	10911157	134072398	57081878	22	91709											
INPP4B	8821	broad.mit.edu	37	chr4	143007328	143007328	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccacataatttctacattcTttctttttttggattggata	9	20	5	7	0	3	0	0	0	3	0	3	2	3	2	1	2	1	0	1	2	3	10			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr4:143007328T>A	uc003iix.3	-	25	3051	c.2456A>T	c.(2455-2457)AAG>ATG	p.K819M	INPP4B_uc003iiw.3_Missense_Mutation_p.K819M|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_Missense_Mutation_p.K634M|INPP4B_uc011cho.1_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	819					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					TTCTACATTCTTTCTTTTTTT	0.333													8	40					0	0	0.00308	0	0		A	143007328	A	A	143007328	3	1	180	1	0	0	0	0	1	0	0	0	7769	1609	56	5	330	5	INPP4B	4	143007328	Missense_Mutation	SNP	T	TCGA-D7-8570-01A-11D-2340-08	8934930	143007328	48146948	23	91710											
FGG	2266	broad.mit.edu	37	chr4	155533323	155533323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataagtagacaggaaatctgCaatgccacaggtagttggac	15	8	11	7	0	1	1	0	0	1	1	1	3	1	3	1	3	2	4	1	3	5	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr4:155533323C>T	uc003ioj.2	-	3	295	c.154G>A	c.(154-156)GCA>ACA	p.A52T	FGG_uc003iog.2_Missense_Mutation_p.A52T|FGG_uc003ioh.2_Missense_Mutation_p.A52T|FGG_uc010ipx.2_5'UTR|FGG_uc010ipy.2_Intron|FGG_uc003ioi.2_5'Flank|FGG_uc003iok.2_Missense_Mutation_p.A52T	NM_021870	NP_068656	P02679	FIBG_HUMAN	fibrinogen, gamma chain isoform gamma-B	52					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding				0	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	AGGAAATCTGCAATGCCACAG	0.328													6	32					0	0	0.001168	0	0		T	155533323	T	T	155533323	3	4	180	1	0	0	0	0	1	0	0	0	5884	710	25	2	1254	2	FGG	4	155533323	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	12525995	155533323	35620953	24	91711											
CDH9	1007	broad.mit.edu	37	chr5	26988325	26988325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccgtcatcttttgtcagaCccgctatctttttgcttgat	6	18	6	11	2	4	2	2	1	2	1	4	2	4	2	2	0	2	2	2	0	2	7			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr5:26988325C>A	uc003jgs.1	-	2	285	c.116G>T	c.(115-117)GGT>GTT	p.G39V	CDH9_uc010iug.2_Missense_Mutation_p.G39V	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	39					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TTTTGTCAGACCCGCTATCTT	0.393													32	48					1.88708e-17	2.14737e-17	0.008361	1	0		A	26988325	A	A	26988325	3	1	180	1	0	0	0	0	1	0	0	0	3120	507	18	5	2297	5	CDH9	5	26988325	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08		26988325	153926935	25	91712											
NUP155	9631	broad.mit.edu	37	chr5	37333694	37333694	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctactttcaattcatctatCgcagaaagagcccaggaatg	13	11	7	10	1	4	2	2	0	2	2	5	3	4	3	1	1	2	1	1	1	5	4	rs142662644	byFrequency	TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr5:37333694C>T	uc003jku.1	-	13	1507	c.1389G>A	c.(1387-1389)GCG>GCA	p.A463A	NUP155_uc003jkt.1_Silent_p.A404A|NUP155_uc010iuz.1_Silent_p.A463A	NM_153485	NP_705618	O75694	NU155_HUMAN	nucleoporin 155kDa isoform 1	463					carbohydrate metabolic process|glucose transport|mRNA transport|nucleocytoplasmic transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear membrane|nuclear pore	protein binding|structural constituent of nuclear pore|transporter activity			ovary(1)	1	all_lung(31;0.000137)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ATTCATCTATCGCAGAAAGAG	0.328													5	66					0	0	0.001168	0	0		T	37333694	T	T	37333694	2	4	180	1	0	0	0	0	0	0	0	1	10775	871	31	1		1	NUP155	5	37333694	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	10345369	37333694	143581566	26	91713											
OXCT1	5019	broad.mit.edu	37	chr5	41862794	41862794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcttttacagcttctactGgatctgtataaaacttggta	10	17	7	7	0	3	0	0	0	3	0	3	1	3	1	0	2	4	3	0	2	6	8			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr5:41862794G>A	uc003jmn.2	-	2	468	c.137C>T	c.(136-138)CCA>CTA	p.P46L		NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	46					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	AGCTTCTACTGGATCTGTATA	0.358													7	86					0	0	0.00308	0	0		A	41862794	A	A	41862794	3	1	180	1	0	0	0	0	1	0	0	0	11348	1348	47	4	1489	4	OXCT1	5	41862794	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	4529100	41862794	139052466	27	91714											
PCDHA10	56139	broad.mit.edu	37	chr5	140237313	140237313	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctggacgagaacgacaaCgctcccgcgctgctggcgtc	7	6	14	14	6	0	1	0	0	0	1	2	4	1	2	1	2	4	4	1	2	2	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr5:140237313C>T	uc003lhx.2	+	1	1680	c.1680C>T	c.(1678-1680)AAC>AAT	p.N560N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Silent_p.N560N	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	560	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGAACGACAACGCTCCCGCGC	0.682													21	37					0	0	0.010504	0	0		T	140237313	T	T	140237313	2	4	180	1	0	0	0	0	0	0	0	1	11539	535	19	1		1	PCDHA10	5	140237313	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	98374519	140237313	40677947	28	91715											
PCDHB2	56133	broad.mit.edu	37	chr5	140474846	140474846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactactttcttaatagaaCgtgcccaggacttggatgta	12	12	9	8	1	1	1	0	0	1	1	1	4	1	3	1	2	4	1	1	2	6	6			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr5:140474846C>T	uc003lil.2	+	1	610	c.472C>T	c.(472-474)CGT>TGT	p.R158C	PCDHB2_uc003lim.1_Translation_Start_Site	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	158	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTTAATAGAACGTGCCCAGGA	0.383													14	24					0	0	0.00245	0	0		T	140474846	T	T	140474846	3	4	180	1	0	0	0	0	1	0	0	0	11561	536	19	1	474	1	PCDHB2	5	140474846	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	237533	140474846	40440414	29	91716											
PRSS16	10279	broad.mit.edu	37	chr6	27215755	27215755	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggggccaggtgctgcagcCctcccaaaagtggggtggct	6	7	16	12	0	0	0	0	0	0	0	1	0	1	0	3	6	3	3	3	6	2	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr6:27215755C>T	uc003nja.2	+	2	177	c.165C>T	c.(163-165)GCC>GCT	p.A55A	PRSS16_uc011dkt.1_RNA|PRSS16_uc003njb.2_Silent_p.A55A|PRSS16_uc010jqq.1_5'Flank|PRSS16_uc010jqr.1_5'Flank|PRSS16_uc003njc.1_5'Flank	NM_005865	NP_005856	Q9NQE7	TSSP_HUMAN	protease, serine, 16 precursor	55					protein catabolic process|proteolysis	cytoplasmic membrane-bounded vesicle	serine-type peptidase activity			ovary(2)|central_nervous_system(2)|skin(1)	5						GTGCTGCAGCCCTCCCAAAAG	0.637													6	29					0	0	0.001168	0	0		T	27215755	T	T	27215755	2	4	180	1	0	0	0	0	0	0	0	1	12638	610	22	4		4	PRSS16	6	27215755	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08		27215755	143899312	30	91717											
OR2B3	442184	broad.mit.edu	37	chr6	29054811	29054811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggactgtagttgtggtatagCagagatctaagatggagaga	13	10	15	3	0	1	3	0	0	1	3	1	7	1	5	0	3	1	4	0	3	4	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr6:29054811C>T	uc003nlx.2	-	1	280	c.215G>A	c.(214-216)TGC>TAC	p.C72Y		NM_001005226	NP_001005226			olfactory receptor, family 2, subfamily B,											skin(1)	1						TGTGGTATAGCAGAGATCTAA	0.423													15	98					0	0	0.003163	0	0		T	29054811	T	T	29054811	3	4	180	1	0	0	0	0	1	0	0	0	11009	710	25	2	730	2	OR2B3	6	29054811	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	1839056	29054811	142060256	31	91718											
LRFN2	57497	broad.mit.edu	37	chr6	40359728	40359728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagctgccaaaagtccccCgggcccccaccaggtcactc	8	4	10	19	2	1	0	1	0	0	0	3	1	2	1	6	3	2	1	6	3	2	0	rs146316351	byFrequency	TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr6:40359728C>T	uc003oph.1	-	3	2789	c.2324G>A	c.(2323-2325)CGG>CAG	p.R775Q		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	775	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					AAAAGTCCCCCGGGCCCCCAC	0.607													8	50					0	0	0.004482	0	0		T	40359728	T	T	40359728	3	4	180	1	0	0	0	0	1	0	0	0	8956	652	23	1	49	1	LRFN2	6	40359728	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	11304917	40359728	130755339	32	91719											
MRPS10	55173	broad.mit.edu	37	chr6	42185576	42185576	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cacacagcaccgaacgctgtCcgcgccgccatcttgccggt	7	6	10	18	6	1	0	0	0	1	0	2	1	2	0	5	1	3	2	5	1	1	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr6:42185576C>T	uc003osa.3	-	1	58	c.12G>A	c.(10-12)CGG>CGA	p.R4R	MRPS10_uc011dup.1_5'UTR	NM_018141	NP_060611	P82664	RT10_HUMAN	mitochondrial ribosomal protein S10	4					translation	actin cytoskeleton|mitochondrion|ribosome	structural constituent of ribosome				0	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00528)			CGAACGCTGTCCGCGCCGCCA	0.592													4	17					0	0	0.009096	0	0		T	42185576	T	T	42185576	2	4	180	1	0	0	0	0	0	0	0	1	9839	842	30	4		4	MRPS10	6	42185576	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	1825848	42185576	128929491	33	91720											
EYS	346007	broad.mit.edu	37	chr6	66204885	66204885	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgtcccaacactcagcCacttagaattaacagtgtgc	13	10	7	11	0	1	1	1	0	0	1	2	1	2	1	2	0	4	0	2	0	5	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr6:66204885C>A	uc011dxu.1	-	4	957	c.419G>T	c.(418-420)TGG>TTG	p.W140L	EYS_uc003peq.2_Missense_Mutation_p.W140L|EYS_uc003per.1_Missense_Mutation_p.W140L|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	140					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						AACACTCAGCCACTTAGAATT	0.423													11	72					3.86212e-05	4.11129e-05	0.008291	1	0		A	66204885	A	A	66204885	3	1	180	1	0	0	0	0	1	0	0	0	5340	595	21	5	9137	5	EYS	6	66204885	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	24019309	66204885	104910182	34	91721											
RIMS1	22999	broad.mit.edu	37	chr6	72984077	72984077	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatggtccccctccctagatAggagacgacctcctagtccc	8	8	9	16	1	0	2	0	0	0	2	4	5	4	2	6	2	0	0	6	2	3	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr6:72984077A>T	uc003pga.2	+	23	3501	c.3424A>T	c.(3424-3426)AGG>TGG	p.R1142W	RIMS1_uc011dyb.1_Intron|RIMS1_uc003pgc.2_Intron|RIMS1_uc010kaq.2_Intron|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Intron|RIMS1_uc003pgg.2_Missense_Mutation_p.R295W|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Intron|RIMS1_uc003pge.2_Intron|RIMS1_uc011dye.1_Intron|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1142					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CTCCCTAGATAGGAGACGACC	0.463													7	27					0	0	0.001984	0	0		T	72984077	T	T	72984077	3	4	180	1	0	0	0	0	1	0	0	0	13392	411	15	5	3677	5	RIMS1	6	72984077	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	6779192	72984077	98130990	35	91722											
OPRM1	4988	broad.mit.edu	37	chr6	154439830	154439830	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctttcagctagaaaatctgGaagcagaaactgctccgttg	12	10	9	10	1	2	2	1	0	1	2	3	3	3	3	2	1	4	4	2	1	5	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr6:154439830G>T	uc003qpr.2	+	4	1414	c.1177G>T	c.(1177-1179)GAA>TAA	p.E393*	OPRM1_uc011efc.1_Nonsense_Mutation_p.E312*|OPRM1_uc011efd.1_Nonsense_Mutation_p.E293*|OPRM1_uc011efe.1_Nonsense_Mutation_p.E486*|OPRM1_uc003qpt.1_Intron|OPRM1_uc003qps.2_RNA|OPRM1_uc010kjg.2_Nonsense_Mutation_p.E293*	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	393	Cytoplasmic (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	AGAAAATCTGGAAGCAGAAAC	0.458													22	87					3.5997e-14	4.04966e-14	0.014323	1	0		T	154439830	T	T	154439830	4	4	180	1	0	0	0	0	0	1	0	0	10906	1175	41	5	1981	5	OPRM1	6	154439830	Nonsense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	81455753	154439830	16675237	36	91723											
NUPL2	11097	broad.mit.edu	37	chr7	23221774	23221774	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgctggaacgaacatcccGgtgctaggggtgcaggagga	9	6	18	8	2	0	0	0	0	0	0	1	4	1	3	1	7	5	3	1	7	3	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:23221774G>C	uc003svu.2	+	1	329	c.70G>C	c.(70-72)GGT>CGT	p.G24R	NUPL2_uc003svv.2_RNA|NUPL2_uc003svw.2_5'UTR|NUPL2_uc011jyw.1_RNA|NUPL2_uc003svx.2_5'UTR	NM_007342	NP_031368	O15504	NUPL2_HUMAN	nucleoporin like 2	24	C3H1-type.				carbohydrate metabolic process|glucose transport|mRNA transport|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nuclear pore	nuclear export signal receptor activity|nucleic acid binding|zinc ion binding			skin(2)|ovary(1)	3						CGAACATCCCGGTGCTAGGGG	0.627													4	29					0	0	0.014758	0	0		C	23221774	C	C	23221774	3	2	180	1	0	0	0	0	1	0	0	0	10794	1116	39	5	72	5	NUPL2	7	23221774	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08		23221774	135916889	37	91724											
OSBPL3	26031	broad.mit.edu	37	chr7	24905023	24905023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atggaactcgtgtctcaccaCcacaagaaaatgatacattg	15	9	7	10	1	1	2	1	1	1	1	3	3	1	3	2	1	2	0	2	1	5	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:24905023C>T	uc003sxf.2	-	7	1016	c.611G>A	c.(610-612)GGT>GAT	p.G204D	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.G204D|OSBPL3_uc003sxh.2_Missense_Mutation_p.G204D|OSBPL3_uc003sxi.2_Missense_Mutation_p.G204D	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	204					lipid transport		lipid binding|protein binding			skin(1)	1						TGTCTCACCACCACAAGAAAA	0.403													60	194					0	0	0.01441	0	0		T	24905023	T	T	24905023	3	4	180	1	0	0	0	0	1	0	0	0	11298	507	18	4	2120	4	OSBPL3	7	24905023	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	1683249	24905023	134233640	38	91725											
POM121L12	285877	broad.mit.edu	37	chr7	53103907	53103907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggagactctgctgggggcGctcagccagtgccccaaggg	6	5	17	13	2	2	1	1	0	1	1	2	2	2	1	3	4	3	2	3	4	1	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:53103907G>A	uc003tpz.2	+	1	559	c.543G>A	c.(541-543)GCG>GCA	p.A181A		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	181											0						TGCTGGGGGCGCTCAGCCAGT	0.582													7	45					0	0	0.00308	0	0		A	53103907	A	A	53103907	2	1	180	1	0	0	0	0	0	0	0	1	12260	1074	38	1		1	POM121L12	7	53103907	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	28198884	53103907	106034756	39	91726											
POM121	9883	broad.mit.edu	37	chr7	72399003	72399003	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgcttcttttgtgcctaAgtaagtgggagtccatccgg	6	12	11	12	2	1	0	0	0	1	0	3	1	3	1	5	2	1	2	5	2	2	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:72399003A>T	uc003twk.2	+	4	1103	c.1103A>T	c.(1102-1104)AAG>ATG	p.K368M	POM121_uc003twj.2_Missense_Mutation_p.K103M|POM121_uc010lam.1_Missense_Mutation_p.K103M	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	368	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				TTTGTGCCTAAGTAAGTGGGA	0.468													19	150					0	0	0.007413	0	0		T	72399003	T	T	72399003	3	4	180	1	0	0	0	0	1	0	0	0	12258	86	3	5	318	5	POM121	7	72399003	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	19295096	72399003	86739660	40	91727											
CDK14	5218	broad.mit.edu	37	chr7	90419944	90419944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gctgcaggaagaagaagggaCacctttcacagctatcaggg	13	6	13	9	0	2	2	2	0	0	2	2	4	2	4	1	3	2	3	1	3	4	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:90419944C>T	uc003uky.2	+	5	743	c.521C>T	c.(520-522)ACA>ATA	p.T174I	CDK14_uc003ukt.1_Missense_Mutation_p.T128I|CDK14_uc003ukv.1_Missense_Mutation_p.T128I|CDK14_uc003uku.1_Missense_Mutation_p.T128I|CDK14_uc003ukx.1_RNA|CDK14_uc003ukz.1_Missense_Mutation_p.T156I|CDK14_uc010les.1_Missense_Mutation_p.T128I|CDK14_uc011khl.1_Missense_Mutation_p.T45I	NM_012395	NP_036527	O94921	CDK14_HUMAN	PFTAIRE protein kinase 1	174	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasmic cyclin-dependent protein kinase holoenzyme complex|nucleus|plasma membrane	ATP binding|cyclin binding|cyclin-dependent protein kinase activity			lung(3)|ovary(1)	4						GAAGAAGGGACACCTTTCACA	0.408													6	72					0	0	0.001168	0	0		T	90419944	T	T	90419944	3	4	180	1	0	0	0	0	1	0	0	0	3133	478	17	4	481	4	CDK14	7	90419944	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	18020941	90419944	68718719	41	91728											
FZD1	8321	broad.mit.edu	37	chr7	90896065	90896065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcttctggatctggtccGgcaagaccctcaactcctgg	6	9	12	14	2	3	1	1	0	2	1	5	2	5	2	3	5	1	2	3	5	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:90896065G>A	uc003ula.2	+	1	2283	c.1870G>A	c.(1870-1872)GGC>AGC	p.G624S		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	624	Cytoplasmic (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	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)			GATCTGGTCCGGCAAGACCCT	0.597													13	57					0	0	0.00245	0	0		A	90896065	A	A	90896065	3	1	180	1	0	0	0	0	1	0	0	0	6142	1116	39	1	1872	1	FZD1	7	90896065	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	476121	90896065	68242598	42	91729											
FLNC	2318	broad.mit.edu	37	chr7	128487899	128487899	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgggcgcccctgcaggtGgctgtgctgggccccacagg	3	5	18	15	2	0	0	0	0	0	0	0	0	0	0	5	6	2	3	5	6	0	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:128487899G>C	uc003vnz.3	+	25	4646	c.4437G>C	c.(4435-4437)GTG>GTC	p.V1479V	FLNC_uc003voa.3_Silent_p.V1479V	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1479	Filamin 13.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CCCTGCAGGTGGCTGTGCTGG	0.697													13	68					0	0	0.003163	0	0		C	128487899	C	C	128487899	2	2	180	1	0	0	0	0	0	0	0	1	5949	1335	47	5		5	FLNC	7	128487899	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	37591834	128487899	30650764	43	91730											
GIMAP1	170575	broad.mit.edu	37	chr7	150417616	150417616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagagaaccgggccttgcGcgagctggtggccgagtgcg	7	5	17	12	5	0	1	0	0	0	1	0	4	0	1	3	3	4	1	3	3	1	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr7:150417616G>A	uc003whq.2	+	3	611	c.524G>A	c.(523-525)CGC>CAC	p.R175H	GIMAP1_uc003whp.2_Missense_Mutation_p.R183H	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	175	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGGCCTTGCGCGAGCTGGTG	0.652													13	50					0	0	0.00245	0	0		A	150417616	A	A	150417616	3	1	180	1	0	0	0	0	1	0	0	0	6394	1087	38	1	530	1	GIMAP1	7	150417616	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	21929717	150417616	8721047	44	91731											
ST18	9705	broad.mit.edu	37	chr8	53073962	53073962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatggtggtgtttttcgtcCttgcactgtttgtatgagag	7	17	12	5	1	0	1	0	1	0	1	2	2	1	1	1	2	1	4	1	2	2	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr8:53073962C>T	uc003xqz.2	-	9	1723	c.1567G>A	c.(1567-1569)GGA>AGA	p.G523R	ST18_uc011ldq.1_Missense_Mutation_p.G170R|ST18_uc011ldr.1_Missense_Mutation_p.G488R|ST18_uc011lds.1_Missense_Mutation_p.G428R|ST18_uc003xra.2_Missense_Mutation_p.G523R|ST18_uc003xrb.2_Missense_Mutation_p.G523R	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	523						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				GTTTTTCGTCCTTGCACTGTT	0.428													24	96					0	0	0.00333	0	0		T	53073962	T	T	53073962	3	4	180	1	0	0	0	0	1	0	0	0	15237	690	24	4	1628	4	ST18	8	53073962	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08		53073962	93290060	45	91732											
C8orf34	116328	broad.mit.edu	37	chr8	69434170	69434170	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaagcaaaaatgaccaatGggaaagtgaagatagtggct	19	6	12	4	0	0	4	0	2	0	2	0	5	0	5	1	2	1	2	1	2	8	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr8:69434170G>A	uc010lyz.2	+	6	693	c.644G>A	c.(643-645)TGG>TAG	p.W215*	C8orf34_uc010lyy.1_Nonsense_Mutation_p.W215*|C8orf34_uc003xyb.2_Nonsense_Mutation_p.W190*	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	215					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			AATGACCAATGGGAAAGTGAA	0.418													6	41					0	0	0.001168	0	0		A	69434170	A	A	69434170	4	1	180	1	0	0	0	0	0	1	0	0	2425	1357	47	4	587	4	C8orf34	8	69434170	Nonsense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	16360208	69434170	76929852	46	91733											
ZNF704	619279	broad.mit.edu	37	chr8	81605248	81605248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgggcttaccgttcggccGcacgggaggacttcgaacca	7	7	13	14	5	0	0	0	0	0	0	2	3	0	2	4	4	2	3	4	4	2	3	rs148333158		TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr8:81605248G>A	uc003yby.1	-	3	548	c.316C>T	c.(316-318)CGG>TGG	p.R106W		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	106						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			CCGTTCGGCCGCACGGGAGGA	0.522													11	25					0	0	0.010729	0	0		A	81605248	A	A	81605248	3	1	180	1	0	0	0	0	1	0	0	0	18132	1086	38	1	950	1	ZNF704	8	81605248	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	12171078	81605248	64758774	47	91734											
ZFPM2	23414	broad.mit.edu	37	chr8	106814853	106814853	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggacgaccacgtctcccaAaaggctgctggactatcacg	10	6	11	14	4	2	0	1	0	1	0	3	3	2	2	2	3	1	2	2	3	3	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr8:106814853A>G	uc003ymd.2	+	8	2566	c.2543A>G	c.(2542-2544)AAA>AGA	p.K848R	ZFPM2_uc011lhs.1_Missense_Mutation_p.K579R	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	848					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			ACGTCTCCCAAAAGGCTGCTG	0.478													4	19					0	0	0.001168	0	0		G	106814853	G	G	106814853	3	3	180	1	0	0	0	0	1	0	0	0	17683	14	1	3	2573	3	ZFPM2	8	106814853	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	25209605	106814853	39549169	48	91735											
PARP10	84875	broad.mit.edu	37	chr8	145059422	145059422	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccagctcctcgggctccaGgatgtcgtagtgggggacaa	8	7	15	11	2	0	0	0	0	0	0	4	2	2	2	3	4	2	3	3	4	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr8:145059422G>C	uc003zal.3	-	5	856	c.748C>G	c.(748-750)CTG>GTG	p.L250V	PARP10_uc003zak.3_5'UTR|PARP10_uc011lku.1_Missense_Mutation_p.L262V|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Missense_Mutation_p.L250V|PARP10_uc010mfn.1_Missense_Mutation_p.L165V|PARP10_uc010mfo.1_3'UTR	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	250						Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TCGGGCTCCAGgatgtcgtag	0.333													10	25					0	0	0.008291	0	0		C	145059422	C	C	145059422	3	2	180	1	0	0	0	0	1	0	0	0	11474	991	35	5	2357	5	PARP10	8	145059422	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	38244569	145059422	1304600	49	91736											
CNTLN	54875	broad.mit.edu	37	chr9	17484457	17484457	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggtcagatttagaggaaatAttagacacagaagatcaagt	17	9	10	5	1	2	5	2	0	0	5	2	6	2	6	0	2	0	0	0	2	6	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr9:17484457A>G	uc003zmz.2	+	24	4043	c.4017A>G	c.(4015-4017)ATA>ATG	p.I1339M	CNTLN_uc003zmy.2_Missense_Mutation_p.I1340M|CNTLN_uc010mio.2_Missense_Mutation_p.I1019M	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1340						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		TAGAGGAAATATTAGACACAG	0.333													13	69					0	0	0.001855	0	0		G	17484457	G	G	17484457	3	3	180	1	0	0	0	0	1	0	0	0	3642	439	16	3	4144	3	CNTLN	9	17484457	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08		17484457	123728974	50	91737											
GOLGA1	2800	broad.mit.edu	37	chr9	127643517	127643517	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttcagcaacactgacacaGcttttataagatgaaaagcc	16	9	7	9	0	1	3	1	2	0	1	1	3	1	3	1	0	4	3	1	0	5	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr9:127643517G>C	uc004bpc.2	-	22	2498	c.2156C>G	c.(2155-2157)GCT>GGT	p.A719G	GOLGA1_uc010mws.2_RNA	NM_002077	NP_002068	Q92805	GOGA1_HUMAN	golgin 97	719	GRIP.					Golgi cisterna membrane				ovary(1)	1						CACTGACACAGCTTTTATAAG	0.493													19	120					0	0	0.008871	0	0		C	127643517	C	C	127643517	3	2	180	1	0	0	0	0	1	0	0	0	6566	971	34	5	155	5	GOLGA1	9	127643517	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	110159060	127643517	13569914	51	91738											
SCAI	286205	broad.mit.edu	37	chr9	127734104	127734104	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcaaaaagagagtgaagagGctacctcgctgagattgatc	14	9	11	7	1	1	5	1	3	0	3	3	7	1	5	1	1	1	2	1	1	4	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr9:127734104G>C	uc004bpe.2	-	16	1500	c.1419C>G	c.(1417-1419)AGC>AGG	p.S473R	SCAI_uc004bpd.2_Missense_Mutation_p.S496R|SCAI_uc010mwu.2_Intron	NM_001144877	NP_001138349	Q8N9R8	SCAI_HUMAN	suppressor of cancer cell invasion isoform 2	473	Helical; (Potential).				negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|integral to membrane|nucleus	protein binding|transcription corepressor activity			ovary(2)|breast(2)|central_nervous_system(1)	5						GAGTGAAGAGGCTACCTCGCT	0.358													13	65					0	0	0.013537	0	0		C	127734104	C	C	127734104	3	2	180	1	0	0	0	0	1	0	0	0	13894	1194	42	5	413	5	SCAI	9	127734104	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	90587	127734104	13479327	52	91739											
ZWINT	11130	broad.mit.edu	37	chr10	58120068	58120068	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acataccaccacaaactcaaCcaggatcttggctggcagtt	13	8	7	13	0	2	0	1	0	1	0	2	1	2	1	3	3	3	3	3	3	3	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:58120068C>G	uc001jjx.1	-	2	155	c.118G>C	c.(118-120)GTT>CTT	p.V40L	ZWINT_uc001jjy.1_Missense_Mutation_p.V40L|ZWINT_uc001jka.1_Missense_Mutation_p.V40L|ZWINT_uc009xoy.1_RNA	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	40					cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0						ACAAACTCAACCAGGATCTTG	0.572													9	39					0	0	0.006214	0	0		G	58120068	G	G	58120068	3	3	180	1	0	0	0	0	1	0	0	0	18274	507	18	5	743	5	ZWINT	10	58120068	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08		58120068	77414679	53	91740											
HK1	3098	broad.mit.edu	37	chr10	71142523	71142523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagatgctgccctccttcGtccggagaactcccgacggg	7	9	11	14	4	0	2	0	0	0	2	4	4	3	2	4	2	3	1	4	2	2	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:71142523G>A	uc001jpl.3	+	10	1647	c.1546G>A	c.(1546-1548)GTC>ATC	p.V516I	HK1_uc001jpg.3_Missense_Mutation_p.V504I|HK1_uc001jph.3_Missense_Mutation_p.V520I|HK1_uc001jpi.3_Missense_Mutation_p.V520I|HK1_uc001jpj.3_Missense_Mutation_p.V551I|HK1_uc001jpk.3_Missense_Mutation_p.V515I|HK1_uc009xqd.2_Missense_Mutation_p.V394I	NM_000188	NP_000179	P19367	HXK1_HUMAN	hexokinase 1 isoform HKI	516	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane|nucleus	ATP binding|glucokinase activity			ovary(1)	1						GCCCTCCTTCGTCCGGAGAAC	0.632													4	21					0	0	0.009096	0	0		A	71142523	A	A	71142523	3	1	180	1	0	0	0	0	1	0	0	0	7206	1145	40	1	1762	1	HK1	10	71142523	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	13022455	71142523	64392224	54	91741											
SAR1A	56681	broad.mit.edu	37	chr10	71921409	71921409	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ggaacatgttggcccaatctGtcatctttgagcatgtgaag	10	12	11	8	0	3	2	1	2	2	0	3	3	3	3	1	2	2	2	1	2	3	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:71921409G>C	uc010qjh.1	-	4	347	c.144C>G	c.(142-144)GAC>GAG	p.D48E	SAR1A_uc010qji.1_Missense_Mutation_p.D48E|SAR1A_uc010qjj.1_Missense_Mutation_p.D5E	NM_001142648	NP_001136120	Q9NR31	SAR1A_HUMAN	SAR1a gene homolog 1	48					ER to Golgi vesicle-mediated transport|intracellular protein transport	Golgi apparatus	GTP binding|GTPase activity				0						GGCCCAATCTGTCATCTTTGA	0.388													17	76					0	0	0.004007	0	0		C	71921409	C	C	71921409	3	2	180	1	0	0	0	0	1	0	0	0	13864	1368	48	5	472	5	SAR1A	10	71921409	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	778886	71921409	63613338	55	91742											
BTAF1	9044	broad.mit.edu	37	chr10	93753597	93753597	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaatacaatcgacataaaTaattttggtatacacatatt	18	13	5	5	1	0	0	0	0	0	0	1	2	0	1	0	2	2	1	0	2	9	9			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:93753597T>A	uc001khr.2	+	22	3290	c.3192T>A	c.(3190-3192)AAT>AAA	p.N1064K	BTAF1_uc001kht.1_Missense_Mutation_p.N502K	NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1064					negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TCGACATAAATAATTTTGGTA	0.323													5	27					0	0	0.014758	0	0		A	93753597	A	A	93753597	3	1	180	1	0	0	0	0	1	0	0	0	1539	1403	49	5	3278	5	BTAF1	10	93753597	Missense_Mutation	SNP	T	TCGA-D7-8570-01A-11D-2340-08	21832188	93753597	41781150	56	91743											
RBP4	5950	broad.mit.edu	37	chr10	95360237	95360237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgaaggtgcccaccatgtCtgcgcacacgtcccagttac	8	9	10	14	2	1	1	0	1	1	0	2	1	2	1	3	1	3	2	3	1	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:95360237C>T	uc001kit.2	-	4	352	c.268G>A	c.(268-270)GAC>AAC	p.D90N		NM_006744	NP_006735	P02753	RET4_HUMAN	retinol-binding protein 4, plasma precursor	90					cardiac muscle tissue development|embryonic organ morphogenesis|embryonic retina morphogenesis in camera-type eye|embryonic skeletal system development|female genitalia morphogenesis|gluconeogenesis|glucose homeostasis|heart trabecula formation|lung development|maintenance of gastrointestinal epithelium|negative regulation of cardiac muscle cell proliferation|positive regulation of immunoglobulin secretion|positive regulation of insulin secretion|response to retinoic acid|retinol metabolic process|urinary bladder development|uterus development|vagina development	extracellular space	protein binding|retinal binding|retinol binding				0		Colorectal(252;0.122)			Vitamin A(DB00162)	CCCACCATGTCTGCGCACACG	0.582													14	64					0	0	0.004007	0	0		T	95360237	T	T	95360237	3	4	180	1	0	0	0	0	1	0	0	0	13183	913	32	4	349	4	RBP4	10	95360237	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	1606640	95360237	40174510	57	91744											
ABCC2	1244	broad.mit.edu	37	chr10	101590129	101590129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagtgtggaagagatccccGaagatgcagcctccataacc	12	6	10	13	1	0	2	0	0	0	2	2	5	2	3	6	1	3	1	6	1	3	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:101590129G>A	uc001kqf.2	+	20	2825	c.2686G>A	c.(2686-2688)GAA>AAA	p.E896K		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	896	Cytoplasmic (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	AGAGATCCCCGAAGATGCAGC	0.507													22	106					0	0	0.014323	0	0		A	101590129	A	A	101590129	3	1	180	1	0	0	0	0	1	0	0	0	53	1059	37	1	2764	1	ABCC2	10	101590129	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	6229892	101590129	33944618	58	91745											
GFRA1	2674	broad.mit.edu	37	chr10	117884945	117884945	+	Missense_Mutation	SNP	A	G	G	1	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	ggcacttgcggcggttgcagAcatcgttggacacgctggtg	6	9	16	10	4	0	1	0	0	0	1	1	2	0	2	0	5	2	5	0	5	0	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:117884945A>G	uc001lcj.2	-	6	1255	c.557T>C	c.(556-558)GTC>GCC	p.V186A	GFRA1_uc001lci.2_Missense_Mutation_p.V181A|GFRA1_uc009xyr.2_Missense_Mutation_p.V181A	NM_005264	NP_005255	P56159	GFRA1_HUMAN	GDNF family receptor alpha 1 isoform a	186	2.				axon guidance	anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity			ovary(1)|pancreas(1)	2		Lung NSC(174;0.21)		all cancers(201;0.0337)		GCGGTTGCAGACATCGTTGGA	0.597													9	30					0	0	0.013537	0	0		G	117884945	G	G	117884945	3	3	180	1	0	0	0	0	1	0	0	0	6362	275	10	3	864	3	GFRA1	10	117884945	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	16294816	117884945	17649802	59	91746											
NKX6-2	84504	broad.mit.edu	37	chr10	134598811	134598811	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctctcggtcatgcccagCgagtaggcgagacgcgcgcg	6	6	16	13	7	2	1	1	0	1	1	3	3	2	1	1	3	2	2	1	3	1	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr10:134598811C>T	uc001llr.2	-	2	637	c.552G>A	c.(550-552)TCG>TCA	p.S184S		NM_177400	NP_796374	Q9C056	NKX62_HUMAN	NK6 transcription factor related, locus 2	184	Homeobox.					nucleus	sequence-specific DNA binding transcription factor activity				0		all_cancers(35;2.79e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0584)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;4.06e-05)|Epithelial(32;5.53e-05)|all cancers(32;5.99e-05)		TCATGCCCAGCGAGTAGGCGA	0.692													4	18					0	0	0.009096	0	0		T	134598811	T	T	134598811	2	4	180	1	0	0	0	0	0	0	0	1	10477	755	27	1		1	NKX6-2	10	134598811	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	16713866	134598811	935936	60	91747											
MUC5B	727897	broad.mit.edu	37	chr11	1155765	1155765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccagctgaccaagggctcCgtcctggtcaacggccaccc	8	6	10	17	2	1	1	1	1	0	0	4	1	4	1	6	3	2	2	6	3	2	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:1155765C>T	uc009ycr.1	+	5	579	c.453C>T	c.(451-453)TCC>TCT	p.S151S		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	147	VWFD 1.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCAAGGGCTCCGTCCTGGTCA	0.662													11	24					0	0	0.001855	0	0		T	1155765	T	T	1155765	2	4	180	1	0	0	0	0	0	0	0	1	9997	667	23	1		1	MUC5B	11	1155765	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08		1155765	133850751	61	91748											
LIN7C	55327	broad.mit.edu	37	chr11	27528282	27528282	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctctctccagccgcacgggTtcccctagcgccgccatctt	4	9	8	20	4	2	0	0	0	2	0	5	0	4	0	7	1	2	2	7	1	1	3	rs142535769	by1000genomes	TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:27528282T>C	uc001mrl.2	-	1	45	c.18A>G	c.(16-18)GAA>GAG	p.E6E	LIN7C_uc009yii.2_Silent_p.E6E|BDNFOS_uc001mrm.2_5'Flank|BDNFOS_uc009yij.2_5'Flank|BDNFOS_uc009yik.2_5'Flank|BDNFOS_uc009yil.2_5'Flank|BDNFOS_uc001mrp.2_5'Flank|BDNFOS_uc009yim.2_5'Flank|BDNFOS_uc009yin.2_5'Flank|BDNFOS_uc009yio.2_5'Flank|BDNFOS_uc009yip.2_5'Flank|BDNFOS_uc001mrn.2_5'Flank|BDNFOS_uc009yiq.2_5'Flank|BDNFOS_uc001mro.2_5'Flank|BDNFOS_uc009yir.2_5'Flank|BDNFOS_uc009yis.2_5'Flank|BDNFOS_uc009yit.2_5'Flank|BDNFOS_uc009yiu.2_5'Flank|BDNFOS_uc009yiv.2_5'Flank|BDNFOS_uc009yiw.2_5'Flank|BDNFOS_uc009yix.2_5'Flank|BDNFOS_uc009yiy.2_5'Flank|BDNFOS_uc009yiz.2_5'Flank|BDNFOS_uc001mrq.3_5'Flank|BDNFOS_uc001mrr.3_5'Flank|BDNFOS_uc009yja.2_5'Flank|BDNFOS_uc009yjb.2_5'Flank	NM_018362	NP_060832	Q9NUP9	LIN7C_HUMAN	lin-7 homolog C	6	Kinase interacting site (By similarity).				exocytosis|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction					0						GCCGCACGGGTTCCCCTAGCG	0.662													4	68					0	0	0.009096	0	0		C	27528282	C	C	27528282	2	2	180	1	0	0	0	0	0	0	0	1	8829	1722	60	3		3	LIN7C	11	27528282	Silent	SNP	T	TCGA-D7-8570-01A-11D-2340-08	26372517	27528282	107478234	62	91749											
PTPRJ	5795	broad.mit.edu	37	chr11	48177352	48177352	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttttcttttaatgtcacaGatgatatttcccgtgtcaaa	10	19	5	7	1	3	2	2	1	1	1	4	2	4	2	1	0	0	0	1	0	3	7			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:48177352G>C	uc001ngp.3	+	20	3585	c.3230_splice	c.e20-1	p.Y1077_splice		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J						contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TAATGTCACAGATGATATTTC	0.388													5	39					0	0	0.014758	0	0		C	48177352	C	C	48177352	5	2	180	1	0	0	0	0	0	0	1	0	12829	956	33	5	3316	5	PTPRJ	11	48177352	Splice_Site	SNP	G	TCGA-D7-8570-01A-11D-2340-08	20649070	48177352	86829164	63	91750											
DTX4	23220	broad.mit.edu	37	chr11	58956751	58956751	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaataaaatccatcccagggGtttccaacacaagccgcaag	16	6	7	12	1	0	0	0	0	0	0	3	0	3	0	4	2	2	2	4	2	6	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:58956751G>T	uc001nns.2	+	4	1371	c.1114G>T	c.(1114-1116)GTT>TTT	p.V372F	DTX4_uc001nnr.2_Missense_Mutation_p.V266F	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	372					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				CATCCCAGGGGTTTCCAACAC	0.473													4	8					0.00909568	0.00933132	0.009096	1	0		T	58956751	T	T	58956751	3	4	180	1	0	0	0	0	1	0	0	0	4803	1261	44	5	1128	5	DTX4	11	58956751	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	10779399	58956751	76049765	64	91751											
MS4A15	219995	broad.mit.edu	37	chr11	60531284	60531284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggcctctgcccacctccGgccattctgcccacatccat	6	9	7	19	1	2	0	0	0	2	0	4	0	4	0	7	2	2	0	7	2	0	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:60531284G>A	uc009ynf.1	+	2	298	c.78G>A	c.(76-78)CCG>CCA	p.P26P	MS4A15_uc001npx.2_Intron|MS4A15_uc001npy.2_RNA|MS4A15_uc009yng.1_Silent_p.P26P	NM_001098835	NP_001092305	Q8N5U1	M4A15_HUMAN	membrane-spanning 4-domains, subfamily A, member	26						integral to membrane	receptor activity			lung(1)	1						GCCCACCTCCGGCCATTCTGC	0.602													17	106					0	0	0.006122	0	0		A	60531284	A	A	60531284	2	1	180	1	0	0	0	0	0	0	0	1	9877	1103	39	1		1	MS4A15	11	60531284	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	1574533	60531284	74475232	65	91752											
SCGB2A2	4250	broad.mit.edu	37	chr11	62037723	62037723	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggtcctcatgctggcggcccTctcccagcactgctacgcag	5	8	11	17	2	2	0	1	0	1	0	4	0	3	0	3	3	4	4	3	3	1	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:62037723T>A	uc001ntc.2	+	1	94	c.35T>A	c.(34-36)CTC>CAC	p.L12H	SCGB2A2_uc009ynx.2_Missense_Mutation_p.L12H	NM_002411	NP_002402	Q13296	SG2A2_HUMAN	secretoglobin, family 2A, member 2 precursor	12						extracellular region	steroid binding			ovary(1)	1						CTGGCGGCCCTCTCCCAGCAC	0.607													21	129					0	0	0.008871	0	0		A	62037723	A	A	62037723	3	1	180	1	0	0	0	0	1	0	0	0	13925	1551	54	5	37	5	SCGB2A2	11	62037723	Missense_Mutation	SNP	T	TCGA-D7-8570-01A-11D-2340-08	1506439	62037723	72968793	66	91753											
RSF1	51773	broad.mit.edu	37	chr11	77409649	77409649	+	Silent	SNP	G	A	A	0	0	1	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	gctgcagatgatttttcactGccagacccttcactttcatc	8	14	6	13	0	3	3	3	1	0	2	4	3	3	3	2	0	2	2	2	0	0	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:77409649G>A	uc001oyn.2	-	7	2718	c.2598C>T	c.(2596-2598)GGC>GGT	p.G866G	RSF1_uc001oym.2_Silent_p.G614G	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	866					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	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)			ATTTTTCACTGCCAGACCCTT	0.433													18	103					0	0	0.006122	0	0		A	77409649	A	A	77409649	2	1	180	1	0	0	0	0	0	0	0	1	13724	1306	46	2		2	RSF1	11	77409649	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	15371926	77409649	57596867	67	91754											
KCTD21	283219	broad.mit.edu	37	chr11	77884828	77884828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtccttttacctgtacCgtattaatcgaataatctta	10	16	7	8	2	1	0	0	0	1	0	3	1	2	0	3	2	2	2	3	2	7	7			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:77884828C>A	uc001ozb.2	-	2	848	c.773G>T	c.(772-774)CGG>CTG	p.R258L		NM_001029859	NP_001025030	Q4G0X4	KCD21_HUMAN	potassium channel tetramerisation domain	258						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	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;1.46e-24)			TTACCTGTACCGTATTAATCG	0.498													13	116					5.50884e-06	5.89594e-06	0.013537	1	0		A	77884828	A	A	77884828	3	1	180	1	0	0	0	0	1	0	0	0	8125	652	23	5	13	5	KCTD21	11	77884828	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	475179	77884828	57121688	68	91755											
GRM5	2915	broad.mit.edu	37	chr11	88781018	88781018	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttctttcaaaagtaagactGacaggatcaacagaaggacc	16	8	8	9	0	3	3	2	1	1	2	3	5	3	5	1	2	1	1	1	2	5	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:88781018G>C	uc001pcq.2	-	1	223	c.23C>G	c.(22-24)TCA>TGA	p.S8*	GRM5_uc009yvm.2_Nonsense_Mutation_p.S8*|GRM5_uc009yvn.1_Nonsense_Mutation_p.S8*	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	8					activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	AAGTAAGACTGACAGGATCAA	0.473													7	57					0	0	0.001984	0	0		C	88781018	C	C	88781018	4	2	180	1	0	0	0	0	0	1	0	0	6816	1294	45	5	3651	5	GRM5	11	88781018	Nonsense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	10896190	88781018	46225498	69	91756											
SESN3	143686	broad.mit.edu	37	chr11	94923017	94923017	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcattaagatttttcagtcTttgtggcacatattccaaac	11	17	5	8	0	3	1	2	0	1	1	4	1	4	1	1	1	1	1	1	1	3	7			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:94923017T>G	uc001pfk.1	-	4	673	c.451A>C	c.(451-453)AGA>CGA	p.R151R	SESN3_uc010rug.1_Intron|SESN3_uc001pfl.2_Silent_p.R151R	NM_144665	NP_653266	P58005	SESN3_HUMAN	sestrin 3	151					cell cycle arrest	nucleus					0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		TTTTTCAGTCTTTGTGGCACA	0.348													7	56					0	0	0.00308	0	0		G	94923017	G	G	94923017	2	3	180	1	0	0	0	0	0	0	0	1	14151	1617	56	5		5	SESN3	11	94923017	Silent	SNP	T	TCGA-D7-8570-01A-11D-2340-08	6141999	94923017	40083499	70	91757											
BIRC2	329	broad.mit.edu	37	chr11	102220931	102220931	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctgtagctttattcagaatCtggtttcagctagtctggga	8	15	11	7	0	4	1	2	0	2	1	4	2	4	2	0	2	2	5	0	2	4	6			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:102220931C>G	uc001pgy.2	+	2	1745	c.346C>G	c.(346-348)CTG>GTG	p.L116V	BIRC2_uc010ruq.1_Missense_Mutation_p.L67V|BIRC2_uc010rur.1_Missense_Mutation_p.L116V	NM_001166	NP_001157	Q13490	BIRC2_HUMAN	baculoviral IAP repeat-containing protein 2	116					cell surface receptor linked signaling pathway|cellular component disassembly involved in apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	CD40 receptor complex|cytosol|internal side of plasma membrane	protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3	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)|Epithelial(9;0.11)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0144)		TATTCAGAATCTGGTTTCAGC	0.413													22	127					0	0	0.014323	0	0		G	102220931	G	G	102220931	3	3	180	1	0	0	0	0	1	0	0	0	1436	912	32	5	348	5	BIRC2	11	102220931	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	7297914	102220931	32785585	71	91758											
BCL9L	283149	broad.mit.edu	37	chr11	118771876	118771876	+	Missense_Mutation	SNP	A	G	G	1	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	tattgcccatgtcctgggacAtggcttggtagggtccctgg	5	12	14	10	0	0	0	0	0	0	0	2	1	2	1	3	5	1	2	3	5	2	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:118771876A>G	uc001pug.2	-	6	3541	c.2576T>C	c.(2575-2577)ATG>ACG	p.M859T	BCL9L_uc009zal.2_Missense_Mutation_p.M854T	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	859					negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GTCCTGGGACATGGCTTGGTA	0.602													11	72					0	0	0.008291	0	0		G	118771876	G	G	118771876	3	3	180	1	0	0	0	0	1	0	0	0	1383	217	8	3	1935	3	BCL9L	11	118771876	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	16550945	118771876	16234640	72	91759											
SORL1	6653	broad.mit.edu	37	chr11	121495981	121495981	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctgctgtacgatgagctggGgtctggtgagttgcgattgc	5	12	16	8	2	1	2	0	2	1	0	1	4	1	2	1	3	5	4	1	3	1	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr11:121495981G>C	uc001pxx.2	+	46	6439	c.6359G>C	c.(6358-6360)GGG>GCG	p.G2120A	SORL1_uc010rzp.1_Missense_Mutation_p.G966A|SORL1_uc010rzq.1_Missense_Mutation_p.G735A	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	2120	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		GATGAGCTGGGGTCTGGTGAG	0.473													11	57					0	0	0.008291	0	0		C	121495981	C	C	121495981	3	2	180	1	0	0	0	0	1	0	0	0	14959	1232	43	5	6541	5	SORL1	11	121495981	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	2724105	121495981	13510535	73	91760											
NTF3	4908	broad.mit.edu	37	chr12	5603686	5603686	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagacgctacaactcaccGcgggtcctgctgagcgacag	10	5	12	14	4	1	2	1	1	0	1	2	4	2	2	2	1	4	2	2	1	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:5603686G>A	uc001qnl.3	+	1	389	c.306G>A	c.(304-306)CCG>CCA	p.P102P	NTF3_uc001qnk.3_Silent_p.P115P	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	102					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						ACAACTCACCGCGGGTCCTGC	0.642													11	67					0	0	0.008291	0	0		A	5603686	A	A	5603686	2	1	180	1	0	0	0	0	0	0	0	1	10715	1074	38	1		1	NTF3	12	5603686	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08		5603686	128248209	74	91761											
TAS2R20	259295	broad.mit.edu	37	chr12	11150144	11150144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aataagtctggagaaattgaCgatcttgagcaaataaaata	19	10	8	4	1	2	3	0	2	2	1	2	5	2	3	0	1	1	1	0	1	7	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:11150144C>T	uc001qzm.2	-	1	331	c.331G>A	c.(331-333)GTC>ATC	p.V111I	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176889	NP_795370	P59543	T2R20_HUMAN	taste receptor, type 2, member 20	111	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						GAGAAATTGACGATCTTGAGC	0.358													16	98					0	0	0.00499	0	0		T	11150144	T	T	11150144	3	4	180	1	0	0	0	0	1	0	0	0	15596	536	19	1	602	1	TAS2R20	12	11150144	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	5546458	11150144	122701751	75	91762											
PLBD1	79887	broad.mit.edu	37	chr12	14664633	14664633	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaatgtaaaaatcatccagaGactccaaaaaccctacagga	19	6	6	10	0	1	1	1	0	0	1	3	4	3	2	3	1	2	1	3	1	7	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:14664633G>C	uc001rcc.1	-	7	1018	c.857C>G	c.(856-858)TCT>TGT	p.S286C		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	286					lipid catabolic process	extracellular region	hydrolase activity				0						ATCATCCAGAGACTCCAAAAA	0.373													13	56					0	0	0.001855	0	0		C	14664633	C	C	14664633	3	2	180	1	0	0	0	0	1	0	0	0	12044	942	33	5	824	5	PLBD1	12	14664633	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	3514489	14664633	119187262	76	91763											
MLL2	8085	broad.mit.edu	37	chr12	49421805	49421805	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactcaccaggaccctcagcTtcccccttctttggctcagt	6	11	6	18	0	4	0	3	0	1	0	5	1	5	1	4	2	1	2	4	2	0	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:49421805T>A	uc001rta.3	-	46	14502	c.14502A>T	c.(14500-14502)GAA>GAT	p.E4834D		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4834					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GACCCTCAGCTTCCCCCTTCT	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			8	35					0	0	0.006214	0	0		A	49421805	A	A	49421805	3	1	180	1	0	0	0	0	1	0	0	0	9639	1606	56	5	2147	5	MLL2	12	49421805	Missense_Mutation	SNP	T	TCGA-D7-8570-01A-11D-2340-08	34757172	49421805	84430090	77	91764											
PFDN5	5204	broad.mit.edu	37	chr12	53689700	53689700	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtggaagccaaggactgtctGaacgtgctgaacaagagcaa	14	6	13	8	1	1	3	0	2	1	1	1	5	1	5	1	2	5	2	1	2	6	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:53689700G>C	uc001scl.2	+	2	267	c.150G>C	c.(148-150)CTG>CTC	p.L50L	PFDN5_uc001scm.2_Intron|PFDN5_uc001scn.2_RNA|PFDN5_uc001sco.2_RNA	NM_002624	NP_002615	Q99471	PFD5_HUMAN	prefoldin subunit 5 isoform alpha	50					'de novo' posttranslational protein folding|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent	nucleus|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)	1						AGGACTGTCTGAACGTGCTGA	0.537													6	24					0	0	0.001984	0	0		C	53689700	C	C	53689700	2	2	180	1	0	0	0	0	0	0	0	1	11777	1277	45	5		5	PFDN5	12	53689700	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	4267895	53689700	80162195	78	91765											
OS9	10956	broad.mit.edu	37	chr12	58090082	58090082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagcagcatcgtcttaaaCgctaccacagccagacctat	13	7	6	15	2	1	1	0	0	1	1	2	1	1	1	4	0	5	3	4	0	5	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:58090082C>T	uc001spj.2	+	5	564	c.505C>T	c.(505-507)CGC>TGC	p.R169C	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Missense_Mutation_p.R169C|OS9_uc001spl.2_Missense_Mutation_p.R169C|OS9_uc001spm.2_Missense_Mutation_p.R169C|OS9_uc001spn.2_Missense_Mutation_p.R169C|OS9_uc010sry.1_Intron|OS9_uc010srz.1_Missense_Mutation_p.R110C	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	169	PRKCSH.				ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			TCGTCTTAAACGCTACCACAG	0.562													7	57					0	0	0.001984	0	0		T	58090082	T	T	58090082	3	4	180	1	0	0	0	0	1	0	0	0	11291	536	19	1	523	1	OS9	12	58090082	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	4400382	58090082	75761813	79	91766											
TSFM	10102	broad.mit.edu	37	chr12	58176625	58176625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtgtttctggtcgcgcGgaccgggagctacccggtga	4	8	17	12	7	1	1	0	1	1	0	2	3	1	3	2	4	2	2	2	4	1	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:58176625G>A	uc001sqi.2	+	1	90	c.41G>A	c.(40-42)CGG>CAG	p.R14Q	TSFM_uc010sse.1_5'UTR|TSFM_uc001sqh.2_Missense_Mutation_p.R14Q|TSFM_uc010ssf.1_Missense_Mutation_p.R14Q	NM_005726	NP_005717	P43897	EFTS_HUMAN	Ts translation elongation factor, mitochondrial	14					regulation of transcription elongation, DNA-dependent	mitochondrion|nucleus	translation elongation factor activity				0	all_cancers(7;6.31e-80)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					CTGGTCGCGCGGACCGGGAGC	0.642											OREG0021954	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	2	4					0	0	0.004672	0	0		A	58176625	A	A	58176625	3	1	180	1	0	0	0	0	1	0	0	0	16641	1116	39	1	43	1	TSFM	12	58176625	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	86543	58176625	75675270	80	91767											
IRAK3	11213	broad.mit.edu	37	chr12	66638317	66638317	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaactaactgattttgcCatggcacacttccggtccca	10	10	6	15	1	0	1	0	1	0	0	2	1	2	1	4	2	3	1	4	2	2	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:66638317C>G	uc001sth.2	+	9	1041	c.939C>G	c.(937-939)GCC>GCG	p.A313A	IRAK3_uc010ssy.1_Silent_p.A252A	NM_007199	NP_009130	Q9Y616	IRAK3_HUMAN	interleukin-1 receptor-associated kinase 3	313	Protein kinase.				interleukin-1-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|negative regulation of innate immune response|negative regulation of interleukin-12 production|negative regulation of interleukin-6 production|negative regulation of macrophage cytokine production|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein catabolic process|negative regulation of protein complex disassembly|negative regulation of toll-like receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of macrophage tolerance induction|positive regulation of NF-kappaB transcription factor activity|response to exogenous dsRNA|response to lipopolysaccharide|response to peptidoglycan	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein heterodimerization activity|protein homodimerization activity|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(2)|central_nervous_system(1)	8				GBM - Glioblastoma multiforme(28;0.0203)		CTGATTTTGCCATGGCACACT	0.408													17	89					0	0	0.007413	0	0		G	66638317	G	G	66638317	2	3	180	1	0	0	0	0	0	0	0	1	7840	581	21	5		5	IRAK3	12	66638317	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	8461692	66638317	67213578	81	91768											
NCOR2	9612	broad.mit.edu	37	chr12	124827739	124827739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcgtcgacgtcagctttCggtcctgggatgccttgctg	4	11	15	11	4	1	0	1	0	0	0	4	3	2	1	2	3	3	2	2	3	0	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:124827739C>T	uc010tba.1	-	33	4889	c.4772G>A	c.(4771-4773)CGA>CAA	p.R1591Q	NCOR2_uc010tay.1_Missense_Mutation_p.R1590Q|NCOR2_uc010taz.1_Missense_Mutation_p.R1574Q|NCOR2_uc010tbb.1_Missense_Mutation_p.R1583Q|NCOR2_uc010tbc.1_Missense_Mutation_p.R1573Q	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1591					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CGTCAGCTTTCGGTCCTGGGA	0.632													4	23					0	0	0.009096	0	0		T	124827739	T	T	124827739	3	4	180	1	0	0	0	0	1	0	0	0	10255	884	31	1	2856	1	NCOR2	12	124827739	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	58189422	124827739	9024156	82	91769											
POLE	5426	broad.mit.edu	37	chr12	133209266	133209266	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgggaagggctccgacCgccccctcggcctcctggga	5	5	13	18	4	1	0	1	0	0	0	4	3	3	2	7	4	0	1	7	4	1	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr12:133209266C>G	uc001uks.1	-	44	6164	c.6120G>C	c.(6118-6120)GCG>GCC	p.A2040A	POLE_uc001ukq.1_Silent_p.A250A|POLE_uc001ukr.1_Silent_p.A844A|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2040					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		GGGCTCCGACCGCCCCCTCGG	0.657								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					5	34					0	0	0.014758	0	0		G	133209266	G	G	133209266	2	3	180	1	0	0	0	0	0	0	0	1	12215	639	23	5		5	POLE	12	133209266	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	8381527	133209266	642629	83	91770											
SGCG	6445	broad.mit.edu	37	chr13	23824841	23824841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcagaaggggaggtcacaGgcaggttaaaagtcggtgag	13	6	16	6	1	2	2	2	1	0	1	3	3	2	3	0	6	0	2	0	6	3	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr13:23824841G>A	uc001uom.2	+	4	525	c.370G>A	c.(370-372)GGC>AGC	p.G124S	SGCG_uc009zzv.2_Missense_Mutation_p.G124S|SGCG_uc009zzw.2_Missense_Mutation_p.G124S	NM_000231	NP_000222	Q13326	SGCG_HUMAN	gamma sarcoglycan	124	Extracellular (Potential).				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma					0		all_cancers(29;4.34e-23)|all_epithelial(30;4.4e-19)|all_lung(29;2.45e-18)|Lung SC(185;0.0228)|Breast(139;0.188)		all cancers(112;0.00255)|Epithelial(112;0.0129)|OV - Ovarian serous cystadenocarcinoma(117;0.0365)|Lung(94;0.205)		GGAGGTCACAGGCAGGTTAAA	0.403													4	16					0	0	0.014758	0	0		A	23824841	A	A	23824841	3	1	180	1	0	0	0	0	1	0	0	0	14228	1000	35	4	380	4	SGCG	13	23824841	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08		23824841	91345037	84	91771											
B3GALTL	145173	broad.mit.edu	37	chr13	31891748	31891748	+	Silent	SNP	G	A	A	0	0	1	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	agctgttatgactccggcgaGcctgtgtttctgggagagcg	6	11	15	9	3	1	2	0	1	1	1	2	4	2	2	2	2	3	3	2	2	1	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr13:31891748G>A	uc010aaz.2	+	13	1220	c.1110G>A	c.(1108-1110)GAG>GAA	p.E370E	B3GALTL_uc001utn.3_RNA	NM_194318	NP_919299	Q6Y288	B3GLT_HUMAN	beta 1,3-galactosyltransferase-like	370	Lumenal (Potential).				fucose metabolic process	endoplasmic reticulum membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2		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)		ACTCCGGCGAGCCTGTGTTTC	0.507													11	81					0	0	0.008291	0	0		A	31891748	A	A	31891748	2	1	180	1	0	0	0	0	0	0	0	1	1253	962	34	2		2	B3GALTL	13	31891748	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	8066907	31891748	83278130	85	91772											
COG6	57511	broad.mit.edu	37	chr13	40251606	40251606	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgttttgaaaattacagcCaaaaattagagataagagct	17	12	7	5	0	0	3	0	1	0	2	0	4	0	3	1	0	3	2	1	0	7	6			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr13:40251606C>T	uc001uxh.2	+	5	530	c.430C>T	c.(430-432)CAA>TAA	p.Q144*	COG6_uc001uxi.2_Nonsense_Mutation_p.Q92*|COG6_uc010acb.2_Nonsense_Mutation_p.Q144*	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	144					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		AAATTACAGCCAAAAATTAGA	0.333													8	48					0	0	0.00308	0	0		T	40251606	T	T	40251606	4	4	180	1	0	0	0	0	0	1	0	0	3665	608	21	4	448	4	COG6	13	40251606	Nonsense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	8359858	40251606	74918272	86	91773											
PCDH20	64881	broad.mit.edu	37	chr13	61987362	61987362	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacccaccatcctcagctatGatgatgctcacatactggtc	10	10	7	14	0	2	2	2	2	0	0	4	3	3	2	3	1	3	2	3	1	2	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr13:61987362G>C	uc001vid.3	-	2	1234	c.870C>G	c.(868-870)ATC>ATG	p.I290M	PCDH20_uc010thj.1_Missense_Mutation_p.I290M	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	263	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		CCTCAGCTATGATGATGCTCA	0.527													18	68					0	0	0.007413	0	0		C	61987362	C	C	61987362	3	2	180	1	0	0	0	0	1	0	0	0	11534	1280	45	5	1989	5	PCDH20	13	61987362	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	21735756	61987362	53182516	87	91774											
SLC7A8	23428	broad.mit.edu	37	chr14	23652065	23652065	+	Missense_Mutation	SNP	T	A	A	0	1	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	cctcggggctggcgtccgacTcgcccccacctgggtgtttc	2	9	13	17	4	0	0	0	0	0	0	4	1	1	0	5	4	0	2	5	4	0	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr14:23652065T>A	uc001wiz.2	-	1	785	c.59A>T	c.(58-60)GAG>GTG	p.E20V	SLC7A8_uc010akj.2_Missense_Mutation_p.E20V	NM_012244	NP_036376	Q9UHI5	LAT2_HUMAN	solute carrier family 7 (cationic amino acid	20					blood coagulation|cellular amino acid metabolic process|leukocyte migration|metal ion homeostasis|response to toxin	basolateral plasma membrane|cytoplasm|integral to plasma membrane	neutral amino acid transmembrane transporter activity|organic cation transmembrane transporter activity|peptide antigen binding|protein binding|toxin transporter activity			ovary(1)	1	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.00809)	L-Alanine(DB00160)|L-Glutamine(DB00130)|L-Phenylalanine(DB00120)	GGCGTCCGACTCGCCCCCACC	0.572													28	160					0	0	0.00632	0	0		A	23652065	A	A	23652065	3	1	180	1	0	0	0	0	1	0	0	0	14729	1551	54	5	1592	5	SLC7A8	14	23652065	Missense_Mutation	SNP	T	TCGA-D7-8570-01A-11D-2340-08		23652065	83697475	88	91775											
CMTM5	116173	broad.mit.edu	37	chr14	23848585	23848585	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgagatggcacccggggcCagccagggtgagtgcctgtg	7	6	17	11	1	0	2	0	2	0	1	0	3	0	2	4	4	2	1	4	4	0	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr14:23848585C>G	uc010akm.2	+	5	1095	c.651C>G	c.(649-651)GCC>GCG	p.A217A	CMTM5_uc001wjs.2_Silent_p.A150A|CMTM5_uc001wjt.2_Silent_p.A119A|CMTM5_uc010akn.2_Silent_p.A112A|CMTM5_uc001wju.2_Silent_p.A99A|CMTM5_uc010ako.2_RNA	NM_138460	NP_612469	Q96DZ9	CKLF5_HUMAN	chemokine-like factor superfamily 5 isoform a	217					chemotaxis	extracellular space|integral to membrane	cytokine activity				0	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.0064)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0382)		CACCCGGGGCCAGCCAGGGTG	0.587													17	74					0	0	0.004007	0	0		G	23848585	G	G	23848585	2	3	180	1	0	0	0	0	0	0	0	1	3589	581	21	5		5	CMTM5	14	23848585	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	196520	23848585	83500955	89	91776											
G2E3	55632	broad.mit.edu	37	chr14	31071327	31071327	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacctggatcccagagtaaaGatctactgaggtatgtattt	12	12	9	8	0	1	3	0	1	1	2	2	4	2	4	2	2	1	3	2	2	5	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr14:31071327G>C	uc001wqk.2	+	10	1154	c.1000G>C	c.(1000-1002)GAT>CAT	p.D334H	G2E3_uc010tpe.1_Missense_Mutation_p.D249H|G2E3_uc010tpf.1_Missense_Mutation_p.D288H	NM_017769	NP_060239	Q7L622	G2E3_HUMAN	G2/M-phase specific E3 ubiquitin ligase	334					apoptosis|multicellular organismal development|protein modification process	Golgi apparatus|nucleolus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CCAGAGTAAAGATCTACTGAG	0.328													7	46					0	0	0.001984	0	0		C	31071327	C	C	31071327	3	2	180	1	0	0	0	0	1	0	0	0	6154	942	33	5	1034	5	G2E3	14	31071327	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	7222742	31071327	76278213	90	91777											
PSMC1	5700	broad.mit.edu	37	chr14	90735757	90735757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaagatatgactccaattctGgtggtgagagagaaattcag	15	10	11	5	0	2	4	1	2	1	3	3	6	3	4	1	2	0	0	1	2	4	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr14:90735757G>A	uc001xyf.2	+	9	946	c.898G>A	c.(898-900)GGT>AGT	p.G300S	PSMC1_uc001xyg.2_Missense_Mutation_p.G227S|PSMC1_uc001xyh.2_Missense_Mutation_p.G227S	NM_002802	NP_002793	P62191	PRS4_HUMAN	proteasome 26S ATPase subunit 1	300					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0		all_cancers(154;0.142)		COAD - Colon adenocarcinoma(157;0.21)		CTCCAATTCTGGTGGTGAGAG	0.428													16	84					0	0	0.003163	0	0		A	90735757	A	A	90735757	3	1	180	1	0	0	0	0	1	0	0	0	12707	1348	47	4	932	4	PSMC1	14	90735757	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	59664430	90735757	16613783	91	91778											
UBE3A	7337	broad.mit.edu	37	chr15	25616254	25616254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcatcattcactagatttCgactgttaaattcattgctt	11	17	4	9	1	4	1	4	0	0	1	5	2	4	1	0	0	1	2	0	0	3	7	rs140204238		TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr15:25616254C>T	uc001zaq.2	-	4	1076	c.1076G>A	c.(1075-1077)CGA>CAA	p.R359Q	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.R336Q|UBE3A_uc001zas.2_Missense_Mutation_p.R356Q|UBE3A_uc001zat.2_Missense_Mutation_p.R336Q	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	359				R -> RNLVNEFNSR (in Ref. 7; AA sequence).	brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		CACTAGATTTCGACTGTTAAA	0.383													31	113					0	0	0.007291	0	0		T	25616254	T	T	25616254	3	4	180	1	0	0	0	0	1	0	0	0	16905	884	31	1	1583	1	UBE3A	15	25616254	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08		25616254	76915138	92	91779											
IVD	3712	broad.mit.edu	37	chr15	40703835	40703835	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	cctgattgtctatgccaagaCagatctggctgctgtgccag	8	11	11	11	0	2	3	0	1	2	2	2	3	2	3	3	1	3	2	3	1	2	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr15:40703835C>G	uc001zls.3	+	6	975	c.641C>G	c.(640-642)ACA>AGA	p.T214R	IVD_uc001zlq.2_Missense_Mutation_p.T184R	NM_002225	NP_002216	P26440	IVD_HUMAN	isovaleryl Coenzyme A dehydrogenase isoform 1	211					leucine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|isovaleryl-CoA dehydrogenase activity			ovary(1)	1		all_cancers(109;1.19e-18)|all_epithelial(112;1.52e-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;3.65e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0808)		TATGCCAAGACAGATCTGGCT	0.537													3	35					0	0	0.009096	0	0		G	40703835	G	G	40703835	3	3	180	1	0	0	0	0	1	0	0	0	7944	478	17	5	663	5	IVD	15	40703835	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	15087581	40703835	61827557	93	91780											
BAHD1	22893	broad.mit.edu	37	chr15	40751171	40751171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggtcctcctccaagaagCggccccggctgggggacctt	5	7	14	15	2	0	1	0	0	0	1	3	2	3	2	6	5	1	2	6	5	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr15:40751171C>T	uc001zlu.2	+	2	579	c.508C>T	c.(508-510)CGG>TGG	p.R170W	BAHD1_uc001zlt.2_Missense_Mutation_p.R170W|BAHD1_uc010bbp.1_Missense_Mutation_p.R170W|BAHD1_uc001zlv.2_Missense_Mutation_p.R170W	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	170					heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		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)		CTCCAAGAAGCGGCCCCGGCT	0.687													4	44					0	0	0.009096	0	0		T	40751171	T	T	40751171	3	4	180	1	0	0	0	0	1	0	0	0	1298	759	27	1	510	1	BAHD1	15	40751171	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	47336	40751171	61780221	94	91781											
SPG11	80208	broad.mit.edu	37	chr15	44888535	44888535	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatgactgggctgaagtActggataagggatttcacct	11	12	12	6	0	1	3	1	3	0	0	1	5	1	5	1	3	1	2	1	3	4	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr15:44888535A>C	uc001ztx.2	-	25	4211	c.4180T>G	c.(4180-4182)TAC>GAC	p.Y1394D	SPG11_uc010ueh.1_Missense_Mutation_p.Y1394D|SPG11_uc010uei.1_Missense_Mutation_p.Y1394D|SPG11_uc001zty.1_Missense_Mutation_p.Y123D	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1394	Cytoplasmic (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		GGGCTGAAGTACTGGATAAGG	0.438													11	47					0	0	0.010729	0	0		C	44888535	C	C	44888535	3	2	180	1	0	0	0	0	1	0	0	0	15066	391	14	5	3215	5	SPG11	15	44888535	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	4137364	44888535	57642857	95	91782											
CACNA1H	8912	broad.mit.edu	37	chr16	1245993	1245993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggaccgtgcgggtgctgCggcccctccgcgccatcaac	5	6	13	17	5	2	0	2	0	0	0	3	1	3	1	5	3	4	1	5	3	1	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr16:1245993C>T	uc002cks.2	+	5	861	c.613C>T	c.(613-615)CGG>TGG	p.R205W	CACNA1H_uc002ckt.2_Missense_Mutation_p.R205W	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	205	Helical; Name=S4 of repeat I; (Potential).|I.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GCGGGTGCTGCGGCCCCTCCG	0.657													9	41					0	0	0.004482	0	0		T	1245993	T	T	1245993	3	4	180	1	0	0	0	0	1	0	0	0	2548	759	27	1	627	1	CACNA1H	16	1245993	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08		1245993	89108760	96	91783											
A2BP1	54715	broad.mit.edu	37	chr16	7568355	7568355	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactccgagcagagcccggcGgacacgagcgctcagaccgt	9	3	13	16	6	1	2	1	0	0	2	2	5	2	3	3	2	3	2	3	2	0	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr16:7568355G>A	uc002cys.2	+	5	1222	c.234G>A	c.(232-234)GCG>GCA	p.A78A	A2BP1_uc010buf.1_Silent_p.A78A|A2BP1_uc002cyr.1_Silent_p.A78A|A2BP1_uc002cyt.2_Silent_p.A78A|A2BP1_uc010uxz.1_Silent_p.A121A|A2BP1_uc010uya.1_Silent_p.A114A|A2BP1_uc002cyv.1_Silent_p.A78A|A2BP1_uc010uyb.1_Silent_p.A78A|A2BP1_uc002cyw.2_Silent_p.A98A|A2BP1_uc002cyy.2_Silent_p.A98A|A2BP1_uc002cyx.2_Silent_p.A98A|A2BP1_uc010uyc.1_Silent_p.A98A	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	78					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		AGAGCCCGGCGGACACGAGCG	0.652													22	137					0	0	0.016522	0	0		A	7568355	A	A	7568355	2	1	180	1	0	0	0	0	0	0	0	1	3	1103	39	1		1	A2BP1	16	7568355	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	6322362	7568355	82786398	97	91784											
ARHGAP17	55114	broad.mit.edu	37	chr16	24942523	24942523	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacaagctgctggagtacctCcggggtgctgagagctggga	8	7	17	9	1	0	1	0	1	0	1	1	5	1	3	2	4	5	5	2	4	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr16:24942523C>A	uc002dnb.2	-	19	2190	c.2097G>T	c.(2095-2097)CGG>CGT	p.R699R	ARHGAP17_uc002dmx.2_5'UTR|ARHGAP17_uc002dmw.2_5'UTR|ARHGAP17_uc002dmy.2_Silent_p.R144R|ARHGAP17_uc002dmz.2_Silent_p.R223R|ARHGAP17_uc002dna.2_Silent_p.R426R|ARHGAP17_uc002dnc.2_Silent_p.R621R|ARHGAP17_uc010vcf.1_Silent_p.R442R|ARHGAP17_uc002dne.1_5'UTR	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1	699	Pro-rich.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		TGGAGTACCTCCGGGGTGCTG	0.667													23	86					1.55795e-14	1.7627e-14	0.012319	1	0		A	24942523	A	A	24942523	2	1	180	1	0	0	0	0	0	0	0	1	867	842	30	5		5	ARHGAP17	16	24942523	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	17374168	24942523	65412230	98	91785											
MT1M	4499	broad.mit.edu	37	chr16	56667294	56667294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctgcacgtgcaaagagtGcaaatgcacctcctgcaaga	12	7	9	13	1	0	2	0	0	0	2	2	2	2	2	3	0	5	5	3	0	3	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr16:56667294G>A	uc002ejn.2	+	2	181	c.71G>A	c.(70-72)TGC>TAC	p.C24Y	MT1A_uc002eji.2_Intron|MT1M_uc010vhe.1_RNA|uc002ejo.1_5'Flank|uc002ejp.1_5'Flank	NM_176870	NP_789846	Q8N339	MT1M_HUMAN	metallothionein 1M	24	Beta.	Divalent metal cation; cluster B.					metal ion binding			ovary(1)	1						TGCAAAGAGTGCAAATGCACC	0.577													11	76					0	0	0.013537	0	0		A	56667294	A	A	56667294	3	1	180	1	0	0	0	0	1	0	0	0	9921	1319	46	2	77	2	MT1M	16	56667294	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	31724771	56667294	33687459	99	91786											
CDH8	1006	broad.mit.edu	37	chr16	61687567	61687567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcgcccagtctcttaaagCggggaccccagtcactgagg	8	8	12	13	2	2	1	1	1	1	0	4	2	2	2	3	3	1	1	3	3	2	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr16:61687567C>T	uc002eog.1	-	12	2597	c.2345G>A	c.(2344-2346)CGC>CAC	p.R782H		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	782	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TCTCTTAAAGCGGGGACCCCA	0.473													15	70					0	0	0.00245	0	0		T	61687567	T	T	61687567	3	4	180	1	0	0	0	0	1	0	0	0	3119	768	27	1	58	1	CDH8	16	61687567	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	5020273	61687567	28667186	100	91787											
PDPR	55066	broad.mit.edu	37	chr16	70190507	70190507	+	Missense_Mutation	SNP	A	T	T	1	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	ggccttggtggggagagcccAtttaccggaatgggcagtat	8	9	16	8	1	0	1	0	0	0	1	0	3	0	2	3	6	2	2	3	6	3	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr16:70190507A>T	uc002eyf.1	+	19	3322	c.2365A>T	c.(2365-2367)ATT>TTT	p.I789F	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.I689F|PDPR_uc002eyg.1_Missense_Mutation_p.I456F|PDPR_uc002eyh.2_Missense_Mutation_p.I134F|PDPR_uc010vls.1_Missense_Mutation_p.I134F	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	789					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		GGGAGAGCCCATTTACCGGAA	0.532													22	228					0	0	0.016522	0	0		T	70190507	T	T	70190507	3	4	180	1	0	0	0	0	1	0	0	0	11708	217	8	5	2431	5	PDPR	16	70190507	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	8502940	70190507	20164246	101	91788											
CAMTA2	23125	broad.mit.edu	37	chr17	4873788	4873788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctcgtttaatccgctccGgtgtggcttcgatgatctgc	4	14	10	13	4	2	1	0	1	2	0	6	2	4	1	3	2	1	3	3	2	1	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:4873788G>A	uc002gah.1	-	17	2960	c.2852C>T	c.(2851-2853)CCG>CTG	p.P951L	SPAG7_uc002gae.2_5'Flank|SPAG7_uc002gaf.2_5'Flank|CAMTA2_uc010cku.1_Missense_Mutation_p.P974L|CAMTA2_uc002gag.1_Missense_Mutation_p.P950L|CAMTA2_uc002gai.1_Missense_Mutation_p.P953L|CAMTA2_uc010ckv.1_Missense_Mutation_p.P598L	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	951					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						AATCCGCTCCGGTGTGGCTTC	0.607													22	78					0	0	0.012319	0	0		A	4873788	A	A	4873788	3	1	180	1	0	0	0	0	1	0	0	0	2617	1116	39	1	834	1	CAMTA2	17	4873788	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08		4873788	76321422	102	91789											
DNAH2	146754	broad.mit.edu	37	chr17	7662770	7662770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggatgctgtacatgattCggctggaccgcatgatggag	9	10	15	7	2	0	2	0	2	0	0	1	5	0	5	1	4	2	4	1	4	1	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:7662770C>T	uc002giu.1	+	15	2493	c.2479C>T	c.(2479-2481)CGG>TGG	p.R827W		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	827	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GTACATGATTCGGCTGGACCG	0.522													16	56					0	0	0.003163	0	0		T	7662770	T	T	7662770	3	4	180	1	0	0	0	0	1	0	0	0	4608	875	31	1	2537	1	DNAH2	17	7662770	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	2788982	7662770	73532440	103	91790											
DNAH9	1770	broad.mit.edu	37	chr17	11774939	11774939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggactcgcttctgaaaacGtgaggtgggcagatgccgtg	9	8	16	8	3	1	3	0	2	1	1	2	5	1	4	1	3	2	2	1	3	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:11774939G>A	uc002gne.2	+	52	10146	c.10078G>A	c.(10078-10080)GTG>ATG	p.V3360M	DNAH9_uc010coo.2_Missense_Mutation_p.V2654M	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3360					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TTCTGAAAACGTGAGGTGGGC	0.473													17	98					0	0	0.006122	0	0		A	11774939	A	A	11774939	3	1	180	1	0	0	0	0	1	0	0	0	4614	1145	40	1	10284	1	DNAH9	17	11774939	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	4112169	11774939	69420271	104	91791											
NUFIP2	57532	broad.mit.edu	37	chr17	27614063	27614063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgctttcctttgggccgatCatcaaactttttgctgctca	7	16	7	11	1	3	0	3	0	0	0	4	1	4	0	2	1	4	3	2	1	1	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:27614063C>T	uc002hdy.3	-	2	1038	c.949G>A	c.(949-951)GAT>AAT	p.D317N	NUFIP2_uc002hdx.3_Intron	NM_020772	NP_065823	Q7Z417	NUFP2_HUMAN	nuclear fragile X mental retardation protein	317						nucleus|polysomal ribosome	protein binding|RNA binding			skin(2)|ovary(1)|breast(1)	4			BRCA - Breast invasive adenocarcinoma(11;0.000457)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			TTGGGCCGATCATCAAACTTT	0.493													26	125					0	0	0.00333	0	0		T	27614063	T	T	27614063	3	4	180	1	0	0	0	0	1	0	0	0	10768	826	29	4	1150	4	NUFIP2	17	27614063	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	15839124	27614063	53581147	105	91792											
KRT12	3859	broad.mit.edu	37	chr17	39023097	39023097	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaggcctccatcattgccCgagagaatacctagagagcc	13	6	10	12	1	1	3	1	0	0	3	2	6	2	3	5	1	3	0	5	1	4	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:39023097C>T	uc002hvk.2	-	1	366	c.342G>A	c.(340-342)TCG>TCA	p.S114S		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	114	Head.|Gly-rich.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CATCATTGCCCGAGAGAATAC	0.512													32	170					0	0	0.010818	0	0		T	39023097	T	T	39023097	2	4	180	1	0	0	0	0	0	0	0	1	8465	639	23	1		1	KRT12	17	39023097	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	11409034	39023097	42172113	106	91793											
WNK4	65266	broad.mit.edu	37	chr17	40935985	40935985	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttccgggagatgaagccGcgggtccttcagcgctggag	6	7	17	11	5	1	2	1	1	0	1	3	4	3	3	3	4	2	2	3	4	1	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:40935985G>A	uc002ibj.2	+	3	843	c.822G>A	c.(820-822)CCG>CCA	p.P274P	WNK4_uc010wgx.1_5'UTR|WNK4_uc002ibk.1_Silent_p.P46P|WNK4_uc010wgy.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	274	Protein kinase.				intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		AGATGAAGCCGCGGGTCCTTC	0.652													8	38					0	0	0.004482	0	0		A	40935985	A	A	40935985	2	1	180	1	0	0	0	0	0	0	0	1	17406	1074	38	1		1	WNK4	17	40935985	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	1912888	40935985	40259225	107	91794											
GFAP	2670	broad.mit.edu	37	chr17	42989090	42989090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggactgcaactggcgccGgtagtcgttggcttcgtgct	6	10	14	11	4	0	0	0	0	0	0	2	1	0	1	1	4	3	5	1	4	3	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:42989090G>A	uc002ihq.2	-	5	916	c.856C>T	c.(856-858)CGG>TGG	p.R286W	GFAP_uc002ihr.2_Missense_Mutation_p.R286W|GFAP_uc010wjg.1_RNA	NM_002055	NP_002046	P14136	GFAP_HUMAN	glial fibrillary acidic protein isoform 1	286	Coil 2B.|Rod.					cytoplasm|intermediate filament	structural constituent of cytoskeleton			ovary(1)|pancreas(1)	2		Prostate(33;0.0959)				AACTGGCGCCGGTAGTCGTTG	0.692													4	53					0	0	0.009096	0	0		A	42989090	A	A	42989090	3	1	180	1	0	0	0	0	1	0	0	0	6352	1115	39	1	591	1	GFAP	17	42989090	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	2053105	42989090	38206120	108	91795											
FMNL1	752	broad.mit.edu	37	chr17	43320665	43320665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcaacctgggggccgagCgcatctgccaagccattgag	9	5	15	12	2	1	1	0	1	1	0	1	2	1	1	4	3	4	2	4	3	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:43320665C>T	uc002iin.2	+	17	2391	c.2191C>T	c.(2191-2193)CGC>TGC	p.R731C	FMNL1_uc002iiq.2_Missense_Mutation_p.R309C|FMNL1_uc010dag.2_RNA	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	731	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GGGGGCCGAGCGCATCTGCCA	0.617													6	43					0	0	0.001984	0	0		T	43320665	T	T	43320665	3	4	180	1	0	0	0	0	1	0	0	0	5965	768	27	1	2257	1	FMNL1	17	43320665	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	331575	43320665	37874545	109	91796											
ABCA10	10349	broad.mit.edu	37	chr17	67212089	67212089	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaagagaaatccagccaaaCcagcgagcataggtttcctt	14	8	9	10	1	0	2	0	1	0	1	2	4	2	2	4	1	4	2	4	1	4	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:67212089C>G	uc010dfa.1	-	9	1604	c.725G>C	c.(724-726)GGT>GCT	p.G242A	ABCA10_uc010wqt.1_RNA|ABCA10_uc010dfb.1_5'Flank|ABCA10_uc010dfc.1_Missense_Mutation_p.G134A	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	242	Helical; (Potential).				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TCCAGCCAAACCAGCGAGCAT	0.383													10	73					0	0	0.006214	0	0		G	67212089	G	G	67212089	3	3	180	1	0	0	0	0	1	0	0	0	29	507	18	5	4034	5	ABCA10	17	67212089	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	23891424	67212089	13983121	110	91797											
TMC8	147138	broad.mit.edu	37	chr17	76129507	76129507	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccttcaccaacacctatctCttctacggtgcgtaccgagt	8	11	7	15	3	3	0	1	0	2	0	4	1	3	0	4	1	4	1	4	1	4	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:76129507C>G	uc002jup.2	+	6	934	c.552C>G	c.(550-552)CTC>CTG	p.L184L	TMC6_uc002jul.1_5'Flank|TMC8_uc002juq.2_5'UTR|TMC8_uc010wtr.1_5'Flank	NM_152468	NP_689681	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	184	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			ACACCTATCTCTTCTACGGTG	0.498									Epidermodysplasia_Verruciformis_Familial_Clustering_of				18	69					0	0	0.006122	0	0		G	76129507	G	G	76129507	2	3	180	1	0	0	0	0	0	0	0	1	16016	900	32	5		5	TMC8	17	76129507	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	8917418	76129507	5065703	111	91798											
SOCS3	9021	broad.mit.edu	37	chr17	76354545	76354545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaactcccgaatgggccccGgcagctgggtgactttctca	7	8	13	13	2	1	1	1	1	1	0	3	3	2	2	3	4	2	2	3	4	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr17:76354545G>A	uc002jvl.2	-	2	1048	c.632C>T	c.(631-633)CCG>CTG	p.P211L		NM_003955	NP_003946	O14543	SOCS3_HUMAN	suppressor of cytokine signaling 3	211	SOCS box.				anti-apoptosis|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|regulation of growth|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytosol	protein kinase inhibitor activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.000688)|OV - Ovarian serous cystadenocarcinoma(97;0.0554)			AATGGGCCCCGGCAGCTGGGT	0.632													8	47					0	0	0.00308	0	0		A	76354545	A	A	76354545	3	1	180	1	0	0	0	0	1	0	0	0	14940	1116	39	1	49	1	SOCS3	17	76354545	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	225038	76354545	4840665	112	91799											
MUC16	94025	broad.mit.edu	37	chr19	9087354	9087354	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggacataggtggaaaaatAgcaaatgtactcatgggtga	15	9	13	4	0	1	1	1	1	0	0	1	3	1	3	0	4	2	2	0	4	6	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:9087354A>G	uc002mkp.2	-	1	4665	c.4461T>C	c.(4459-4461)GCT>GCC	p.A1487A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1487	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGGAAAAATAGCAAATGTAC	0.438													39	169					0	0	0.004878	0	0		G	9087354	G	G	9087354	2	3	180	1	0	0	0	0	0	0	0	1	9991	407	15	3		3	MUC16	19	9087354	Silent	SNP	A	TCGA-D7-8570-01A-11D-2340-08		9087354	50041629	113	91800											
FAM129C	199786	broad.mit.edu	37	chr19	17644500	17644500	+	Silent	SNP	T	A	A	0	1	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	cttttggatgctctctgcccTgaatccttgggtaagggtcc	5	14	11	11	0	1	1	0	1	1	0	4	2	3	2	3	3	2	2	3	3	2	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:17644500T>A	uc010xpr.1	+	5	648	c.510T>A	c.(508-510)CCT>CCA	p.P170P	FAM129C_uc010xpq.1_Silent_p.P170P|FAM129C_uc010xps.1_Silent_p.P139P|FAM129C_uc010xpt.1_RNA	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	170											0						CTCTCTGCCCTGAATCCTTGG	0.393													6	54					0	0	0.001168	0	0		A	17644500	A	A	17644500	2	1	180	1	0	0	0	0	0	0	0	1	5449	1567	55	5		5	FAM129C	19	17644500	Silent	SNP	T	TCGA-D7-8570-01A-11D-2340-08	8557146	17644500	41484483	114	91801											
TMEM149	79713	broad.mit.edu	37	chr19	36231285	36231285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggagtcccatctgcacctctCtgcagcgccacggggttctg	5	9	12	15	2	3	0	0	0	3	0	5	1	4	1	3	3	3	3	3	3	0	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:36231285C>T	uc002obc.2	-	3	439	c.338G>A	c.(337-339)AGA>AAA	p.R113K	TMEM149_uc002obb.2_Intron|TMEM149_uc002obd.3_Missense_Mutation_p.R113K|TMEM149_uc010xsy.1_RNA|TMEM149_uc010eej.2_Missense_Mutation_p.R193K	NM_024660	NP_078936	Q9H665	IGFR1_HUMAN	transmembrane protein 149 precursor	113	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding|receptor activity				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTGCACCTCTCTGCAGCGCCA	0.731													12	24					0	0	0.010729	0	0		T	36231285	T	T	36231285	3	4	180	1	0	0	0	0	1	0	0	0	16087	913	32	4	741	4	TMEM149	19	36231285	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	18586785	36231285	22897698	115	91802											
CYP2S1	29785	broad.mit.edu	37	chr19	41704707	41704707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggctgccttcacagtcCggcaggtgcagcagcaccag	7	7	12	15	1	1	0	1	0	0	0	2	0	2	0	4	3	4	5	4	3	0	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:41704707C>T	uc002opw.2	+	5	803	c.748C>T	c.(748-750)CGG>TGG	p.R250W	CYP2F1_uc010xvw.1_Intron|CYP2S1_uc010xvx.1_Intron	NM_030622	NP_085125	Q96SQ9	CP2S1_HUMAN	cytochrome P450, family 2, subfamily S,	250					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity			skin(1)	1						CTTCACAGTCCGGCAGGTGCA	0.642													36	104					0	0	0.004289	0	0		T	41704707	T	T	41704707	3	4	180	1	0	0	0	0	1	0	0	0	4177	643	23	1	766	1	CYP2S1	19	41704707	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	5473422	41704707	17424276	116	91803											
SPHK2	56848	broad.mit.edu	37	chr19	49132886	49132886	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctacgccgcggcccgtgcCttccgcctagagccgctcac	4	6	12	19	6	1	1	1	0	0	1	2	1	2	1	6	2	3	2	6	2	2	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:49132886C>T	uc002pjr.2	+	7	2187	c.1821C>T	c.(1819-1821)GCC>GCT	p.A607A	SPHK2_uc010xzt.1_Silent_p.A548A|SPHK2_uc002pjs.2_Silent_p.A607A|SPHK2_uc002pjt.2_Silent_p.A401A|SPHK2_uc002pju.2_Intron|SPHK2_uc002pjv.2_Silent_p.A571A|SPHK2_uc002pjw.2_Silent_p.A669A	NM_020126	NP_064511	Q9NRA0	SPHK2_HUMAN	sphingosine kinase 2	607					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|anti-apoptosis|cell proliferation|sphinganine-1-phosphate biosynthetic process	cytosol|lysosomal membrane|membrane fraction	ATP binding|D-erythro-sphingosine kinase activity|diacylglycerol kinase activity|Ras GTPase binding|sphinganine kinase activity			lung(1)	1		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;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		CGGCCCGTGCCTTCCGCCTAG	0.677													4	13					0	0	0.009096	0	0		T	49132886	T	T	49132886	2	4	180	1	0	0	0	0	0	0	0	1	15072	668	24	4		4	SPHK2	19	49132886	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	7428179	49132886	9996097	117	91804											
ZNF677	342926	broad.mit.edu	37	chr19	53741803	53741803	+	Silent	SNP	A	G	G	1	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	cccttgcttgtaaatccaacAgaaatatctgaaagatatta	16	12	5	8	0	1	3	0	1	1	2	2	3	2	3	2	0	2	2	2	0	8	6			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:53741803A>G	uc002qbf.1	-	5	362	c.177T>C	c.(175-177)TCT>TCC	p.S59S	ZNF677_uc002qbg.1_Silent_p.S59S	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	59	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		TAAATCCAACAGAAATATCTG	0.299													24	66					0	0	0.016522	0	0		G	53741803	G	G	53741803	2	3	180	1	0	0	0	0	0	0	0	1	18109	175	7	3		3	ZNF677	19	53741803	Silent	SNP	A	TCGA-D7-8570-01A-11D-2340-08	4608917	53741803	5387180	118	91805											
PRKCG	5582	broad.mit.edu	37	chr19	54401213	54401213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctttctcctttccacagCgggtgcggatgggcccctct	3	14	10	14	2	3	0	0	0	3	0	5	1	4	1	4	3	2	0	4	3	0	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:54401213C>T	uc002qcq.1	+	10	1222	c.940C>T	c.(940-942)CGG>TGG	p.R314W	PRKCG_uc010yef.1_Silent_p.S284S|PRKCG_uc010yeg.1_Missense_Mutation_p.R314W|PRKCG_uc010yeh.1_Missense_Mutation_p.R201W	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	314				RVRM -> VSRT (in Ref. 3; AAA60102).	activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		CTTTCCACAGCGGGTGCGGAT	0.473													22	212					0	0	0.010504	0	0		T	54401213	T	T	54401213	3	4	180	1	0	0	0	0	1	0	0	0	12534	782	27	1	978	1	PRKCG	19	54401213	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	659410	54401213	4727770	119	91806											
PRPF31	26121	broad.mit.edu	37	chr19	54621676	54621676	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggatgtctctggcagatgaGctcttagctgatctcgaaga	9	11	13	8	1	3	4	0	2	3	2	5	6	3	5	0	2	2	3	0	2	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:54621676G>A	uc002qdh.2	+	2	414	c.18G>A	c.(16-18)GAG>GAA	p.E6E	TFPT_uc010yej.1_5'Flank|TFPT_uc010erd.2_5'Flank|PRPF31_uc010yek.1_Silent_p.E6E	NM_015629	NP_056444	Q8WWY3	PRP31_HUMAN	pre-mRNA processing factor 31 homolog	6					assembly of spliceosomal tri-snRNP	Cajal body|MLL1 complex|nuclear speck|U4 snRNP|U4/U6 x U5 tri-snRNP complex|U4atac snRNP	RNA binding|snRNP binding			ovary(1)	1	all_cancers(19;0.00681)|all_epithelial(19;0.00362)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TGGCAGATGAGCTCTTAGCTG	0.323													14	110					0	0	0.001855	0	0		A	54621676	A	A	54621676	2	1	180	1	0	0	0	0	0	0	0	1	12588	962	34	2		2	PRPF31	19	54621676	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	220463	54621676	4507307	120	91807											
CNOT3	4849	broad.mit.edu	37	chr19	54657452	54657452	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctccactgttcctcccccagGgcactaaggcacagtatctg	8	9	8	16	0	1	0	0	0	1	0	4	0	4	0	4	2	0	4	4	2	2	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:54657452G>T	uc002qdj.1	+	17	2349	c.2038G>T	c.(2038-2040)GGC>TGC	p.G680C	CNOT3_uc010yel.1_Missense_Mutation_p.R707S|CNOT3_uc002qdi.2_Missense_Mutation_p.R591S|CNOT3_uc002qdk.1_Missense_Mutation_p.G680C|CNOT3_uc010ere.1_RNA|CNOT3_uc002qdl.2_Missense_Mutation_p.G135C	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	680					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CCTCCCCCAGGGCACTAAGGC	0.627													16	57					1.3612e-06	1.50569e-06	0.003163	1	0		T	54657452	T	T	54657452	3	4	180	1	0	0	0	0	1	0	0	0	3623	1246	43	5	2100	5	CNOT3	19	54657452	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	35776	54657452	4471531	121	91808											
LILRB2	10288	broad.mit.edu	37	chr19	54778550	54778550	+	Missense_Mutation	SNP	A	G	G	1	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	ctccgggctagtggatggccAgggtggcgtagatgctgggc	5	8	19	9	2	0	1	0	0	0	1	1	2	1	2	2	6	1	3	2	6	2	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:54778550A>G	uc002qfb.2	-	14	2050	c.1784T>C	c.(1783-1785)CTG>CCG	p.L595P	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_3'UTR|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Missense_Mutation_p.L594P|LILRB2_uc010yet.1_Missense_Mutation_p.L479P	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	595	ITIM motif 3.|Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTGGATGGCCAGGGTGGCGTA	0.612													5	88					0	0	0.014758	0	0		G	54778550	G	G	54778550	3	3	180	1	0	0	0	0	1	0	0	0	8807	188	7	3	16	3	LILRB2	19	54778550	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	121098	54778550	4350433	122	91809											
KIR3DL1	3811	broad.mit.edu	37	chr19	55329954	55329954	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcttcaacatgagccctgtGaccacagcacatgcagggaa	13	6	10	12	0	1	2	1	2	0	0	1	3	1	3	2	1	5	3	2	1	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:55329954G>A	uc002qhk.3	+	3	318	c.255G>A	c.(253-255)GTG>GTA	p.V85V	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Silent_p.V27V|KIR3DL1_uc010esf.2_Intron|KIR3DL1_uc010yfo.1_Silent_p.V27V|KIR3DL1_uc002qhl.3_Silent_p.V85V	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	85	Extracellular (Potential).|Ig-like C2-type 1.				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		TGAGCCCTGTGACCACAGCAC	0.512													13	66					0	0	0.003163	0	0		A	55329954	A	A	55329954	2	1	180	1	0	0	0	0	0	0	0	1	8336	1277	45	4		4	KIR3DL1	19	55329954	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	551404	55329954	3799029	123	91810											
AURKC	6795	broad.mit.edu	37	chr19	57746683	57746683	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atttccaggcttctcagataCcagcccttggagagactgcc	9	10	9	13	0	1	2	1	0	1	2	3	4	2	3	4	2	3	1	4	2	1	4			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:57746683C>A	uc002qoe.2	+	7	1017	c.828C>A	c.(826-828)TAC>TAA	p.Y276*	AURKC_uc002qoc.2_Nonsense_Mutation_p.Y257*|AURKC_uc002qod.2_Nonsense_Mutation_p.Y242*|AURKC_uc010etv.2_Nonsense_Mutation_p.Y273*	NM_001015878	NP_001015878	Q9UQB9	AURKC_HUMAN	aurora kinase C isoform 1	276	Protein kinase.				cell cycle|cytokinesis	condensed chromosome|cytoplasm|midbody|spindle midzone	ATP binding|protein serine/threonine kinase activity			lung(4)|ovary(2)	6		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0122)		TTCTCAGATACCAGCCCTTGG	0.577													7	82					8.12818e-05	8.60631e-05	0.001984	1	0		A	57746683	A	A	57746683	4	1	180	1	0	0	0	0	0	1	0	0	1225	518	18	5	859	5	AURKC	19	57746683	Nonsense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	2416729	57746683	1382300	124	91811											
ZSCAN18	65982	broad.mit.edu	37	chr19	58601477	58601477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctggtagacaaattccCggaaacgcaggcgggagaac	12	5	12	12	3	0	2	0	0	0	2	2	4	2	3	3	4	2	2	3	4	4	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr19:58601477C>T	uc002qri.2	-	2	467	c.158G>A	c.(157-159)CGG>CAG	p.R53Q	ZSCAN18_uc002qrj.3_Missense_Mutation_p.R53Q|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.R53Q|ZSCAN18_uc010yht.1_Missense_Mutation_p.R109Q|ZSCAN18_uc002qrk.1_Missense_Mutation_p.R53Q|ZSCAN18_uc002qrl.2_Missense_Mutation_p.R53Q	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	53	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GACAAATTCCCGGAAACGCAG	0.677													13	43					0	0	0.00245	0	0		T	58601477	T	T	58601477	3	4	180	1	0	0	0	0	1	0	0	0	18255	652	23	1	1398	1	ZSCAN18	19	58601477	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08	854794	58601477	527506	125	91812											
GGTLC1	92086	broad.mit.edu	37	chr20	23967200	23967200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagatcgggtgagtggtgtCgtcagagatctgggcccgga	7	8	19	7	3	2	3	1	1	1	2	4	6	2	4	1	5	0	0	1	5	0	0			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr20:23967200C>T	uc002wts.2	-	2	182	c.49G>A	c.(49-51)GAC>AAC	p.D17N	GGTLC1_uc002wtu.2_Missense_Mutation_p.D17N	NM_178312	NP_842564	Q9BX51	GGTL1_HUMAN	gamma-glutamyltransferase light chain 1	17							gamma-glutamyltransferase activity			ovary(1)	1						TGAGTGGTGTCGTCAGAGATC	0.637													8	74					0	0	0.004482	0	0		T	23967200	T	T	23967200	3	4	180	1	0	0	0	0	1	0	0	0	6380	884	31	1	648	1	GGTLC1	20	23967200	Missense_Mutation	SNP	C	TCGA-D7-8570-01A-11D-2340-08		23967200	39058320	126	91813											
EPB41L1	2036	broad.mit.edu	37	chr20	34775685	34775685	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagacctgcaccatgccaaGgtaccaccagcttcctgggt	9	8	10	14	0	0	1	0	0	0	1	1	1	1	1	6	2	4	4	6	2	3	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr20:34775685G>C	uc002xfb.2	+	8	1044	c.873G>C	c.(871-873)AAG>AAC	p.K291N	EPB41L1_uc002xeu.2_Missense_Mutation_p.K229N|EPB41L1_uc010zvo.1_Missense_Mutation_p.K291N|EPB41L1_uc002xev.2_Missense_Mutation_p.K291N|EPB41L1_uc002xew.2_Missense_Mutation_p.K194N|EPB41L1_uc002xex.2_Missense_Mutation_p.K260N|EPB41L1_uc002xey.2_Missense_Mutation_p.K218N|EPB41L1_uc002xez.2_Missense_Mutation_p.K229N	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	291	FERM.				cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					ACCATGCCAAGGTACCACCAG	0.537													6	25					0	0	0.001168	0	0		C	34775685	C	C	34775685	3	2	180	1	0	0	0	0	1	0	0	0	5160	1014	35	5	899	5	EPB41L1	20	34775685	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	10808485	34775685	28249835	127	91814											
PCIF1	63935	broad.mit.edu	37	chr20	44574499	44574499	+	Missense_Mutation	SNP	A	T	T	1	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	agggagagatggtcaaggtcAgccgcaactacttcagcaag	13	6	13	9	1	3	1	3	0	0	1	3	3	3	2	1	3	4	2	1	3	4	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr20:44574499A>T	uc002xqs.2	+	12	1632	c.1318A>T	c.(1318-1320)AGC>TGC	p.S440C	PCIF1_uc002xqt.2_Missense_Mutation_p.S20C|PCIF1_uc002xqu.2_5'Flank	NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	440						nucleus				skin(1)	1						GGTCAAGGTCAGCCGCAACTA	0.587													5	116					0	0	0.001168	0	0		T	44574499	T	T	44574499	3	4	180	1	0	0	0	0	1	0	0	0	11599	188	7	5	1356	5	PCIF1	20	44574499	Missense_Mutation	SNP	A	TCGA-D7-8570-01A-11D-2340-08	9798814	44574499	18451021	128	91815											
SLCO4A1	28231	broad.mit.edu	37	chr20	61287965	61287965	+	Silent	SNP	C	T	T	0	0	0	1	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	gctgcccatagccccctggaCaccagcaagcagcccctctg	8	5	9	19	0	1	0	0	0	1	0	1	1	1	1	6	1	5	3	6	1	2	1			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr20:61287965C>T	uc002ydb.1	+	2	364	c.159C>T	c.(157-159)GAC>GAT	p.D53D	SLCO4A1_uc002ydc.1_RNA	NM_016354	NP_057438	Q96BD0	SO4A1_HUMAN	solute carrier organic anion transporter family	53	Cytoplasmic (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(1)	1	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;2.33e-06)			GCCCCCTGGACACCAGCAAGC	0.716													5	11					0	0	0.014758	0	0		T	61287965	T	T	61287965	2	4	180	1	0	0	0	0	0	0	0	1	14754	477	17	4		4	SLCO4A1	20	61287965	Silent	SNP	C	TCGA-D7-8570-01A-11D-2340-08	16713466	61287965	1737555	129	91816											
DIDO1	11083	broad.mit.edu	37	chr20	61542173	61542173	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatacagggcgttggggtcGtaaccctcacattcaggctt	9	10	11	11	2	2	0	2	0	0	0	3	0	2	0	1	4	2	3	1	4	3	5			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr20:61542173G>A	uc002ydr.1	-	3	1056	c.792C>T	c.(790-792)TAC>TAT	p.Y264Y	DIDO1_uc002yds.1_Silent_p.Y264Y|DIDO1_uc002ydt.1_Silent_p.Y264Y|DIDO1_uc002ydu.1_Silent_p.Y264Y|DIDO1_uc002ydv.1_Silent_p.Y264Y|DIDO1_uc002ydw.1_Silent_p.Y264Y|DIDO1_uc002ydx.1_Silent_p.Y264Y|DIDO1_uc011aao.1_Silent_p.Y264Y	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	264					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CGTTGGGGTCGTAACCCTCAC	0.537													21	142					0	0	0.008871	0	0		A	61542173	A	A	61542173	2	1	180	1	0	0	0	0	0	0	0	1	4528	1140	40	1		1	DIDO1	20	61542173	Silent	SNP	G	TCGA-D7-8570-01A-11D-2340-08	254208	61542173	1483347	130	91817											
ARVCF	421	broad.mit.edu	37	chr22	19967604	19967604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcagggtcccgccagcgcGgctccttgcgggcgctatcc	3	7	14	17	5	1	0	1	0	0	0	4	0	4	0	4	3	2	3	4	3	1	2			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr22:19967604G>A	uc002zqz.2	-	6	1329	c.1058C>T	c.(1057-1059)CCG>CTG	p.P353L	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_3'UTR	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	353	ARM 1.				cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CCGCCAGCGCGGCTCCTTGCG	0.721													3	7					0	0	0.004672	0	0		A	19967604	A	A	19967604	3	1	180	1	0	0	0	0	1	0	0	0	1004	1116	39	1	1886	1	ARVCF	22	19967604	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08		19967604	31336962	131	91818											
EFCAB6	64800	broad.mit.edu	37	chr22	43933323	43933323	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccttgcattctttcaggaGctggcgccagcagccctgga	6	10	11	14	1	2	0	1	0	1	0	3	2	3	2	3	3	4	3	3	3	0	3			TCGA-D7-8570-01A-11D-2340-08	TCGA-D7-8570-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	429aad6f-816d-4739-baa3-b0ebf2fcd501	37b5cb53-cfff-47ae-9769-b5df2c72f1e5	g.chr22:43933323G>T	uc003bdy.1	-	29	4197	c.3982C>A	c.(3982-3984)CTC>ATC	p.L1328I	EFCAB6_uc003bdz.1_Missense_Mutation_p.L1176I|EFCAB6_uc010gzi.1_Missense_Mutation_p.L1176I	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	1328	Interaction with PARK7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TCTTTCAGGAGCTGGCGCCAG	0.567													28	88					1.08971e-26	1.25444e-26	0.00632	1	0		T	43933323	T	T	43933323	3	4	180	1	0	0	0	0	1	0	0	0	4945	971	34	5	539	5	EFCAB6	22	43933323	Missense_Mutation	SNP	G	TCGA-D7-8570-01A-11D-2340-08	23965719	43933323	7371243	132	91819											
ZBTB8A	653121	broad.mit.edu	37	chr1	33060694	33060694	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	attcaagtgcccgtactgcaCacatgtggtgaagcggaagg	11	8	13	9	2	1	1	1	1	0	0	1	2	1	2	1	3	4	2	1	3	4	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:33060694C>A	uc001bvn.2	+	4	1348	c.863C>A	c.(862-864)ACA>AAA	p.T288K	ZBTB8A_uc001bvk.2_RNA|ZBTB8A_uc001bvm.2_Missense_Mutation_p.T288K	NM_001040441	NP_001035531	Q96BR9	ZBT8A_HUMAN	zinc finger and BTB domain containing 8A	288	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCGTACTGCACACATGTGGTG	0.453													28	67					1.42536e-11	1.62692e-11	0.099896	1	0		A	33060694	A	A	33060694	3	1	181	1	0	0	0	0	1	0	0	0	17581	478	17	5	869	5	ZBTB8A	1	33060694	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08		33060694	216189927	1	91820											
TMEM125	128218	broad.mit.edu	37	chr1	43738884	43738884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggctcgcttttgctgctggGcctgctgctgtatcaagtgg	3	13	15	10	1	1	0	1	0	0	0	2	0	1	0	1	3	4	7	1	3	2	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:43738884G>A	uc001cir.2	+	4	1061	c.491G>A	c.(490-492)GGC>GAC	p.G164D	EBNA1BP2_uc001cio.2_5'Flank|TMEM125_uc001cis.2_Missense_Mutation_p.G164D	NM_144626	NP_653227	Q96AQ2	TM125_HUMAN	transmembrane protein 125	164	Helical; (Potential).					integral to membrane				breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TTGCTGCTGGGCCTGCTGCTG	0.677													5	38					0	0	0.014758	0	0		A	43738884	A	A	43738884	3	1	181	1	0	0	0	0	1	0	0	0	16062	1203	42	2	493	2	TMEM125	1	43738884	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	10678190	43738884	205511737	2	91821											
NASP	4678	broad.mit.edu	37	chr1	46073520	46073520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtggatgtgggtggggacGagccagaggagaaggtagtt	10	7	20	4	1	0	2	0	0	0	2	0	6	0	4	1	6	1	2	1	6	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:46073520G>A	uc001coi.1	+	6	1039	c.937G>A	c.(937-939)GAG>AAG	p.E313K	NASP_uc010olq.1_Missense_Mutation_p.E276K|NASP_uc001coh.1_Missense_Mutation_p.E315K|NASP_uc001coj.1_Intron|NASP_uc010olr.1_Missense_Mutation_p.E249K|NASP_uc001cok.1_Missense_Mutation_p.E196K	NM_002482	NP_002473	P49321	NASP_HUMAN	nuclear autoantigenic sperm protein isoform 2	313	Glu-rich (acidic).				blastocyst development|cell cycle|cell proliferation|DNA replication|histone exchange|protein transport	cytoplasm|nucleus	Hsp90 protein binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.211)					GGGTGGGGACGAGCCAGAGGA	0.532													12	55					0	0	0.080935	0	0		A	46073520	A	A	46073520	3	1	181	1	0	0	0	0	1	0	0	0	10190	1059	37	1	1036	1	NASP	1	46073520	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	2334636	46073520	203177101	3	91822											
IFI44L	10964	broad.mit.edu	37	chr1	79093939	79093939	+	Silent	SNP	G	T	T	0	0	1	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	attattgatgagcaactggtGtgtcgtttatcgaaaacgga	12	13	11	5	3	0	2	0	2	0	0	2	4	0	3	0	2	3	2	0	2	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:79093939G>T	uc010oro.1	+	2	518	c.339G>T	c.(337-339)GTG>GTT	p.V113V	IFI44L_uc010orp.1_Intron|IFI44L_uc010orq.1_Intron	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	113						cytoplasm					0						AGCAACTGGTGTGTCGTTTAT	0.299													4	41					0.00024832	0.000253938	0.150653	1	0		T	79093939	T	T	79093939	2	4	181	1	0	0	0	0	0	0	0	1	7534	1364	48	5		5	IFI44L	1	79093939	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	33020419	79093939	170156682	4	91823											
EVI5	7813	broad.mit.edu	37	chr1	92979379	92979379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attttccgtgcaaaggaaaaCcaacaccagtttcctgtaag	14	10	7	10	1	0	0	0	0	0	0	2	1	2	1	4	1	3	3	4	1	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:92979379C>T	uc001dox.2	-	18	2277	c.2267G>A	c.(2266-2268)GGT>GAT	p.G756D	EVI5_uc010otf.1_Missense_Mutation_p.G767D	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	756	Targeting to the centrosomes.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		CAAAGGAAAACCAACACCAGT	0.438													9	96					0	0	0.047766	0	0		T	92979379	T	T	92979379	3	4	181	1	0	0	0	0	1	0	0	0	5297	507	18	4	169	4	EVI5	1	92979379	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	13885440	92979379	156271242	5	91824											
VAV3	10451	broad.mit.edu	37	chr1	108145689	108145689	+	Silent	SNP	T	C	C	0	1	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	ttaatgctaattgcatattcTcctgactctttggtcctgtg	7	18	7	9	0	2	1	0	1	2	0	4	1	3	1	2	1	2	2	2	1	3	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:108145689T>C	uc001dvk.1	-	23	2166	c.2112A>G	c.(2110-2112)GGA>GGG	p.G704G	VAV3_uc010ouu.1_Silent_p.G108G|VAV3_uc001dvj.1_Silent_p.G144G|VAV3_uc010ouv.1_Silent_p.G108G|VAV3_uc010ouw.1_Silent_p.G704G	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform	704	SH2.				angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		TTGCATATTCTCCTGACTCTT	0.373													22	91					0	0	0.083992	0	0		C	108145689	C	C	108145689	2	2	181	1	0	0	0	0	0	0	0	1	17159	1538	54	3		3	VAV3	1	108145689	Silent	SNP	T	TCGA-D7-8572-01A-11D-2340-08	15166310	108145689	141104932	6	91825											
KCND3	3752	broad.mit.edu	37	chr1	112525240	112525240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaatcagctcatcctgccGcttgttcttgtcggccgggg	5	11	12	13	3	3	0	2	0	1	0	5	1	4	0	3	3	2	3	3	3	1	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:112525240G>A	uc001ebu.1	-	2	589	c.109C>T	c.(109-111)CGG>TGG	p.R37W	KCND3_uc001ebv.1_Missense_Mutation_p.R37W	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	37	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		TCATCCTGCCGCTTGTTCTTG	0.682													12	41					0	0	0.105934	0	0		A	112525240	A	A	112525240	3	1	181	1	0	0	0	0	1	0	0	0	8036	1086	38	1	1886	1	KCND3	1	112525240	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	4379551	112525240	136725381	7	91826											
SYT6	148281	broad.mit.edu	37	chr1	114640394	114640394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaaggagtgccagtgtgcGatgggcttccgggggtatgc	7	8	17	9	2	0	0	0	0	0	0	1	2	1	1	3	4	3	2	3	4	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:114640394G>A	uc001eev.2	-	6	1465	c.1215C>T	c.(1213-1215)ATC>ATT	p.I405I	SYT6_uc001eeu.2_Silent_p.I50I	NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	490	Cytoplasmic (Potential).|Necessary for cell membrane association (isoform 2) (By similarity).				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCCAGTGTGCGATGGGCTTCC	0.577													17	77					0	0	0.175082	0	0		A	114640394	A	A	114640394	2	1	181	1	0	0	0	0	0	0	0	1	15503	1048	37	1		1	SYT6	1	114640394	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	2115154	114640394	134610227	8	91827											
SPAG17	200162	broad.mit.edu	37	chr1	118538991	118538991	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagacagtatgggtcctctAcctggctgttcctgcactgg	6	11	11	13	0	1	1	0	0	1	1	3	1	3	1	4	3	2	4	4	3	2	3	rs140829839		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:118538991A>C	uc001ehk.2	-	34	5121	c.5053_splice	c.e34+1	p.G1685_splice		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17							cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TGGGTCCTCTACCTGGCTGTT	0.423													20	63					0	0	0.043863	0	0		C	118538991	C	C	118538991	5	2	181	1	0	0	0	0	0	0	1	0	15004	405	14	5	1676	5	SPAG17	1	118538991	Splice_Site	SNP	A	TCGA-D7-8572-01A-11D-2340-08	3898597	118538991	130711630	9	91828											
PPIAL4E	730262	broad.mit.edu	37	chr1	148644440	148644440	+	Missense_Mutation	SNP	A	T	T	1	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	ttttcatctgtgctgccaagActgagtggttggatggcaag	8	13	13	7	0	2	2	1	1	1	1	2	3	2	3	1	3	2	3	1	3	2	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:148644440A>T	uc010paz.1	+	1	430	c.355A>T	c.(355-357)ACT>TCT	p.T119S		NM_001144032	NP_001137504	F5H284	F5H284_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	119					protein folding		peptidyl-prolyl cis-trans isomerase activity				0						TGCTGCCAAGACTGAGTGGTT	0.488													43	122					0	0	0.139131	0	0		T	148644440	T	T	148644440	3	4	181	1	0	0	0	0	1	0	0	0	12339	275	10	5	357	5	PPIAL4E	1	148644440	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	30105449	148644440	100606181	10	91829											
FLG	2312	broad.mit.edu	37	chr1	152275264	152275264	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacataaacctgggtccttaTtaatatacgttgcataatac	14	13	5	9	1	0	0	0	0	0	0	1	0	1	0	2	1	4	2	2	1	8	8			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:152275264T>C	uc001ezu.1	-	3	12134	c.12098A>G	c.(12097-12099)AAT>AGT	p.N4033S		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	4033					keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGGTCCTTATTAATATACGT	0.353									Ichthyosis				18	73					0	0	0.043863	0	0		C	152275264	C	C	152275264	3	2	181	1	0	0	0	0	1	0	0	0	5936	1493	52	3	91	3	FLG	1	152275264	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	3630824	152275264	96975357	11	91830											
OR6K6	128371	broad.mit.edu	37	chr1	158725554	158725554	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttttcaaccccatcatcTatagcctgaaaaacaaggac	14	10	4	13	0	3	1	2	1	1	0	3	2	3	2	4	1	3	0	4	1	6	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:158725554T>C	uc001fsw.1	+	1	949	c.949T>C	c.(949-951)TAT>CAT	p.Y317H		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	317	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					CCCCATCATCTATAGCCTGAA	0.443													5	82					0	0	0.021553	0	0		C	158725554	C	C	158725554	3	2	181	1	0	0	0	0	1	0	0	0	11223	1522	53	3	951	3	OR6K6	1	158725554	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	6450290	158725554	90525067	12	91831											
OR10J1	26476	broad.mit.edu	37	chr1	159410409	159410409	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccagctgatctcggtgacCtacactgtcatcactcccct	8	10	7	16	1	3	2	2	2	1	0	5	3	4	2	4	1	2	1	4	1	1	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:159410409C>G	uc010piv.1	+	1	861	c.861C>G	c.(859-861)ACC>ACG	p.T287T	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	287	Helical; Name=7; (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					TCTCGGTGACCTACACTGTCA	0.507													19	82					0	0	0.043863	0	0		G	159410409	G	G	159410409	2	3	181	1	0	0	0	0	0	0	0	1	10929	668	24	5		5	OR10J1	1	159410409	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	684855	159410409	89840212	13	91832											
NME7	29922	broad.mit.edu	37	chr1	169200055	169200055	+	Silent	SNP	G	A	A	0	0	1	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	gaatacatttctgtcaccatGtcctatgatatgtaatataa	14	15	5	7	0	2	1	1	1	1	0	3	2	3	1	2	0	1	1	2	0	7	7			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:169200055G>A	uc001gfu.2	-	10	1129	c.891C>T	c.(889-891)GAC>GAT	p.D297D	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Silent_p.D261D	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	297					CTP biosynthetic process|GTP biosynthetic process|UTP biosynthetic process	centrosome	ATP binding|metal ion binding|nucleoside diphosphate kinase activity			central_nervous_system(1)	1	all_hematologic(923;0.208)					CTGTCACCATGTCCTATGATA	0.249													8	37					0	0	0.038147	0	0		A	169200055	A	A	169200055	2	1	181	1	0	0	0	0	0	0	0	1	10515	1368	48	4		4	NME7	1	169200055	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	9789646	169200055	80050566	14	91833											
KIFAP3	22920	broad.mit.edu	37	chr1	170015873	170015873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttttcctgacaatgaatcaCggcggttctgtagatagtac	10	13	9	9	2	2	3	1	2	1	1	3	3	3	3	1	2	1	3	1	2	5	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:170015873C>T	uc001ggv.2	-	3	570	c.299G>A	c.(298-300)CGT>CAT	p.R100H	KIFAP3_uc010ply.1_Translation_Start_Site|KIFAP3_uc001ggw.1_Missense_Mutation_p.R56H	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3	100					blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CAATGAATCACGGCGGTTCTG	0.368													23	126					0	0	0.0918	0	0		T	170015873	T	T	170015873	3	4	181	1	0	0	0	0	1	0	0	0	8327	536	19	1	2151	1	KIFAP3	1	170015873	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	815818	170015873	79234748	15	91834											
ESRRG	2104	broad.mit.edu	37	chr1	216692635	216692635	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactggtcttcgtccattaTataatcgtctgcatagacaa	11	13	8	9	2	2	1	0	0	2	1	5	2	3	2	1	2	1	1	1	2	5	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:216692635T>A	uc001hkw.1	-	6	1157	c.991A>T	c.(991-993)ATA>TTA	p.I331L	ESRRG_uc001hky.1_Missense_Mutation_p.I308L|ESRRG_uc009xdp.1_Missense_Mutation_p.I308L|ESRRG_uc001hkz.1_Missense_Mutation_p.I269L|ESRRG_uc010puc.1_Missense_Mutation_p.I308L|ESRRG_uc001hla.1_Missense_Mutation_p.I308L|ESRRG_uc001hlb.1_Missense_Mutation_p.I308L|ESRRG_uc010pud.1_Missense_Mutation_p.I139L|ESRRG_uc001hlc.1_Missense_Mutation_p.I308L|ESRRG_uc001hld.1_Missense_Mutation_p.I308L|ESRRG_uc001hkx.1_Missense_Mutation_p.I343L|ESRRG_uc009xdo.1_Missense_Mutation_p.I308L|ESRRG_uc001hle.1_Missense_Mutation_p.I308L	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	331					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TCGTCCATTATATAATCGTCT	0.418													5	67					0	0	0.014758	0	0		A	216692635	A	A	216692635	3	1	181	1	0	0	0	0	1	0	0	0	5270	1406	49	5	393	5	ESRRG	1	216692635	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	46676762	216692635	32557986	16	91835											
ARID4B	51742	broad.mit.edu	37	chr1	235403717	235403717	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagctcatcaatctgtttccTatcatcctcatcttcatcac	9	16	2	14	0	8	0	6	0	2	0	10	0	10	0	2	0	1	2	2	0	3	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:235403717T>A	uc001hwq.2	-	8	994	c.496A>T	c.(496-498)AGG>TGG	p.R166W	ARID4B_uc001hwr.2_Missense_Mutation_p.R166W|ARID4B_uc001hws.3_Missense_Mutation_p.R166W|ARID4B_uc001hwu.1_Missense_Mutation_p.R166W|ARID4B_uc001hwt.3_5'UTR	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			ATCTGTTTCCTATCATCCTCA	0.368													9	36					0	0	0.047766	0	0		A	235403717	A	A	235403717	3	1	181	1	0	0	0	0	1	0	0	0	920	1521	53	5	3510	5	ARID4B	1	235403717	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	18711082	235403717	13846904	17	91836											
WDR64	128025	broad.mit.edu	37	chr1	241912907	241912907	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgaaggtgttgccggagggGaaagactggaaggaggacga	13	5	19	4	2	0	2	0	1	0	1	0	8	0	7	1	7	1	1	1	7	3	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr1:241912907G>A	uc001hzf.1	+	8	936	c.783G>A	c.(781-783)GGG>GGA	p.G261G	WDR64_uc001hzg.1_Silent_p.G7G	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	541										skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			TGCCGGAGGGGAAAGACTGGA	0.522													15	75					0	0	0.11911	0	0		A	241912907	A	A	241912907	2	1	181	1	0	0	0	0	0	0	0	1	17341	1161	41	4		4	WDR64	1	241912907	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	6509190	241912907	7337714	18	91837											
WDR35	57539	broad.mit.edu	37	chr2	20166586	20166586	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaacatatttttcattgtTtttcgtatcccagaagacaa	12	18	4	7	1	1	2	1	0	0	2	3	2	2	2	1	0	1	2	1	0	5	9			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:20166586T>A	uc002rdi.2	-	10	1201	c.1093A>T	c.(1093-1095)AAC>TAC	p.N365Y	WDR35_uc002rdj.2_Missense_Mutation_p.N365Y|WDR35_uc010ext.2_RNA|WDR35_uc002rdh.2_5'UTR	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1	365										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTTCATTGTTTTTCGTATCC	0.368													16	56					0	0	0.160694	0	0		A	20166586	A	A	20166586	3	1	181	1	0	0	0	0	1	0	0	0	17315	1841	64	5	2528	5	WDR35	2	20166586	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08		20166586	223032787	19	91838											
PUM2	23369	broad.mit.edu	37	chr2	20507793	20507793	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgctgctgttgagctgcagTtaactgttgaactgttagtg	7	16	12	6	0	0	2	0	2	0	0	0	2	0	2	0	0	6	8	0	0	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:20507793T>G	uc002rds.1	-	6	852	c.829A>C	c.(829-831)ACT>CCT	p.T277P	PUM2_uc002rdt.1_Missense_Mutation_p.T277P|PUM2_uc002rdr.2_Missense_Mutation_p.T216P|PUM2_uc010yjy.1_Missense_Mutation_p.T277P|PUM2_uc002rdu.1_Missense_Mutation_p.T277P|PUM2_uc010yjz.1_Missense_Mutation_p.T216P	NM_015317	NP_056132	Q8TB72	PUM2_HUMAN	pumilio homolog 2	277					regulation of translation	perinuclear region of cytoplasm|stress granule	protein binding|RNA binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGAGCTGCAGTTAACTGTTGA	0.358													18	71					0	0	0.175082	0	0		G	20507793	G	G	20507793	3	3	181	1	0	0	0	0	1	0	0	0	12851	1725	60	5	2425	5	PUM2	2	20507793	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	341207	20507793	222691580	20	91839											
MFSD9	84804	broad.mit.edu	37	chr2	103335079	103335079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacgccaataagggtgcCgctggcctgggccccgccca	6	4	12	19	3	0	0	0	0	0	0	0	0	0	0	8	3	1	1	8	3	2	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:103335079C>T	uc002tcb.2	-	6	1293	c.1225G>A	c.(1225-1227)GGC>AGC	p.G409S	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	409					transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						ATAAGGGTGCCGCTGGCCTGG	0.667													12	40					0	0	0.132662	0	0		T	103335079	T	T	103335079	3	4	181	1	0	0	0	0	1	0	0	0	9557	652	23	1	203	1	MFSD9	2	103335079	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	82827286	103335079	139864294	21	91840											
CKAP2L	150468	broad.mit.edu	37	chr2	113514603	113514603	+	Silent	SNP	C	T	T	0	0	0	1	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	tgaaaactcttgctagaaggCttagagtatgggttagaaga	14	11	12	4	0	1	5	0	1	1	4	1	5	1	5	0	2	2	4	0	2	8	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:113514603C>T	uc002tie.2	-	4	424	c.345G>A	c.(343-345)AAG>AAA	p.K115K	CKAP2L_uc002tif.2_5'UTR|CKAP2L_uc010yxp.1_5'UTR|CKAP2L_uc010yxq.1_5'UTR	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like	115						centrosome					0						TGCTAGAAGGCTTAGAGTATG	0.448													48	191					0	0	0.139131	0	0		T	113514603	T	T	113514603	2	4	181	1	0	0	0	0	0	0	0	1	3446	796	28	2		2	CKAP2L	2	113514603	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	10179524	113514603	129684770	22	91841											
SCN3A	6328	broad.mit.edu	37	chr2	166011006	166011006	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgttcgagcatctgctGaaattcggcctctttttgtt	7	16	9	9	2	2	1	0	1	2	0	4	2	2	1	1	1	3	5	1	1	2	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:166011006G>T	uc002ucx.2	-	11	1828	c.1336C>A	c.(1336-1338)CAG>AAG	p.Q446K	SCN3A_uc002ucy.2_Missense_Mutation_p.Q446K|SCN3A_uc002ucz.2_Missense_Mutation_p.Q446K|SCN3A_uc002uda.1_Missense_Mutation_p.Q315K|SCN3A_uc002udb.1_Missense_Mutation_p.Q315K	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	446						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	AGCATCTGCTGAAATTCGGCC	0.398													14	83					1.49906e-05	1.56846e-05	0.11911	1	0		T	166011006	T	T	166011006	3	4	181	1	0	0	0	0	1	0	0	0	13943	1299	45	5	4738	5	SCN3A	2	166011006	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	52496403	166011006	77188367	23	91842											
STK39	27347	broad.mit.edu	37	chr2	169018346	169018346	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaatattaccagctttCaaatccctattagaaaaaaa	20	10	4	7	0	1	3	1	0	0	3	2	3	2	3	2	0	2	1	2	0	10	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:169018346C>A	uc002uea.2	-	5	739	c.579G>T	c.(577-579)TTG>TTT	p.L193F		NM_013233	NP_037365	Q9UEW8	STK39_HUMAN	serine threonine kinase 39 (STE20/SPS1 homolog,	193	Protein kinase.				response to stress	cytoplasm|nucleus	ATP binding|protein binding|receptor signaling protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2						TACCAGCTTTCAAATCCCTAT	0.308													5	37					1.23904e-05	1.30852e-05	0.014758	1	0		A	169018346	A	A	169018346	3	1	181	1	0	0	0	0	1	0	0	0	15330	825	29	5	1114	5	STK39	2	169018346	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3007340	169018346	74181027	24	91843											
ECEL1	9427	broad.mit.edu	37	chr2	233350955	233350955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcggggatggcgtggcGccgcagccaaccgccgcagg	5	4	18	14	7	0	0	0	0	0	0	2	1	0	1	4	5	2	2	4	5	1	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:233350955G>A	uc002vsv.2	-	2	614	c.409C>T	c.(409-411)CGC>TGC	p.R137C	ECEL1_uc010fya.1_Missense_Mutation_p.R137C|ECEL1_uc010fyb.1_5'UTR	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	137	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		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)		ATGGCGTGGCGCCGCAGCCAA	0.642													6	18					0	0	0.02938	0	0		A	233350955	A	A	233350955	3	1	181	1	0	0	0	0	1	0	0	0	4897	1087	38	1	1986	1	ECEL1	2	233350955	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	64332609	233350955	9848418	25	91844											
PDCD1	5133	broad.mit.edu	37	chr2	242794972	242794972	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcctcggggaaggcggcCagcttgtccgtctggttgct	3	10	16	12	4	1	0	0	0	1	0	4	1	3	1	3	6	2	3	3	6	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr2:242794972C>T	uc002wcq.3	-	2	305	c.237G>A	c.(235-237)CTG>CTA	p.L79L	PDCD1_uc010fzs.2_Silent_p.L10L|PDCD1_uc010fzt.2_Intron	NM_005018	NP_005009	Q15116	PDCD1_HUMAN	programmed cell death 1 precursor	79	Ig-like V-type.|Extracellular (Potential).				apoptosis|humoral immune response|multicellular organismal development|T cell costimulation	integral to membrane	protein tyrosine phosphatase activity|signal transducer activity			ovary(1)	1		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;3.84e-33)|all cancers(36;8.08e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.41e-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;0.0219)		GGAAGGCGGCCAGCTTGTCCG	0.632													8	33					0	0	0.038147	0	0		T	242794972	T	T	242794972	2	4	181	1	0	0	0	0	0	0	0	1	11634	581	21	4		4	PDCD1	2	242794972	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	9444017	242794972	404401	26	91845											
CRBN	51185	broad.mit.edu	37	chr3	3192625	3192625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcaacagagcagatcgcGttaagccccaaaatttttga	13	9	10	9	2	0	3	0	1	0	2	1	3	0	3	2	1	3	3	2	1	4	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:3192625G>A	uc003bpq.2	-	11	1272	c.1253C>T	c.(1252-1254)ACG>ATG	p.T418M	CRBN_uc003bpr.2_Missense_Mutation_p.T417M|CRBN_uc010hbw.2_Missense_Mutation_p.T374M	NM_016302	NP_057386	Q96SW2	CRBN_HUMAN	cereblon	418	Thalidomide-binding.				proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul4A-RING ubiquitin ligase complex|cytoplasm|membrane|nucleus	ATP-dependent peptidase activity|protein binding			ovary(1)	1				Epithelial(13;0.00244)|OV - Ovarian serous cystadenocarcinoma(96;0.00617)|all cancers(10;0.0079)		AGCAGATCGCGTTAAGCCCCA	0.428													9	36					0	0	0.047766	0	0		A	3192625	A	A	3192625	3	1	181	1	0	0	0	0	1	0	0	0	3854	1145	40	1	79	1	CRBN	3	3192625	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		3192625	194829805	27	91846											
JAGN1	84522	broad.mit.edu	37	chr3	9934908	9934908	+	Silent	SNP	C	T	T	0	0	0	1	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	cagcagctctaccgccatggCaaggcctaccgtttcctctt	7	10	8	16	2	2	0	0	0	2	0	3	0	3	0	5	2	4	4	5	2	3	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:9934908C>T	uc003btt.3	+	2	535	c.399C>T	c.(397-399)GGC>GGT	p.G133G	CIDEC_uc003bto.2_Intron	NM_032492	NP_115881	Q8N5M9	JAGN1_HUMAN	jagunal homolog 1	133	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(1)	1	Medulloblastoma(99;0.227)					ACCGCCATGGCAAGGCCTACC	0.522													13	81					0	0	0.105934	0	0		T	9934908	T	T	9934908	2	4	181	1	0	0	0	0	0	0	0	1	7952	697	25	2		2	JAGN1	3	9934908	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	6742283	9934908	188087522	28	91847											
SUSD5	26032	broad.mit.edu	37	chr3	33194911	33194911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgatcaggagtaactaggaCgttttcatccagccctactg	10	11	9	11	1	2	1	2	1	0	0	3	3	3	3	2	2	3	2	2	2	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:33194911C>T	uc003cfo.1	-	5	1631	c.1213G>A	c.(1213-1215)GTC>ATC	p.V405I		NM_015551	NP_056366	O60279	SUSD5_HUMAN	sushi domain containing 5 precursor	405	Extracellular (Potential).				cell adhesion	integral to membrane	hyaluronic acid binding			ovary(1)|central_nervous_system(1)	2						GTAACTAGGACGTTTTCATCC	0.532													7	24					0	0	0.02938	0	0		T	33194911	T	T	33194911	3	4	181	1	0	0	0	0	1	0	0	0	15436	536	19	1	680	1	SUSD5	3	33194911	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	23260003	33194911	164827519	29	91848											
LRRFIP2	9209	broad.mit.edu	37	chr3	37114295	37114295	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcataccccaatttttttatCtttccaaagaagtgtctcct	10	17	3	11	0	3	1	1	0	2	1	5	1	4	1	4	0	1	0	4	0	5	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:37114295C>G	uc003cgp.2	-	22	1873	c.1450G>C	c.(1450-1452)GAT>CAT	p.D484H	LRRFIP2_uc011ayf.1_Missense_Mutation_p.D300H|LRRFIP2_uc003cgr.2_Intron|LRRFIP2_uc003cgs.3_Intron|LRRFIP2_uc003cgt.3_Intron	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	484	Potential.				Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						ATTTTTTTATCTTTCCAAAGA	0.418													8	60					0	0	0.047766	0	0		G	37114295	G	G	37114295	3	3	181	1	0	0	0	0	1	0	0	0	9046	913	32	5	747	5	LRRFIP2	3	37114295	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3919384	37114295	160908135	30	91849											
CELSR3	1951	broad.mit.edu	37	chr3	48683606	48683606	+	Silent	SNP	C	T	T	0	0	0	1	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	aactctaggctgatgggggaCtccaggattccccttaggaa	10	9	12	10	0	1	1	0	1	1	0	3	4	3	4	3	5	1	1	3	5	4	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:48683606C>T	uc003cul.2	-	22	7661	c.7380G>A	c.(7378-7380)GAG>GAA	p.E2460E	CELSR3_uc003cuf.1_Silent_p.E2530E|CELSR3_uc010hkf.2_5'Flank|CELSR3_uc010hkg.2_Silent_p.E443E	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2460	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TGATGGGGGACTCCAGGATTC	0.602													9	25					0	0	0.047766	0	0		T	48683606	T	T	48683606	2	4	181	1	0	0	0	0	0	0	0	1	3226	564	20	4		4	CELSR3	3	48683606	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	11569311	48683606	149338824	31	91850											
NISCH	11188	broad.mit.edu	37	chr3	52521725	52521725	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacttcggcatcgcagtcttCgagatcccgcaccaggagtc	8	8	11	14	4	1	1	0	0	1	1	6	4	2	2	2	2	0	3	2	2	0	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:52521725C>T	uc011beg.1	+	17	2289	c.2217C>T	c.(2215-2217)TTC>TTT	p.F739F	NISCH_uc003ded.3_Silent_p.F739F|NISCH_uc003dee.3_Silent_p.F228F|NISCH_uc003deg.1_RNA	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	739	Interaction with LIMK (By similarity).|Interaction with ITGA5 (By similarity).|Interaction with PAK1 (By similarity).				apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				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)		TCGCAGTCTTCGAGATCCCGC	0.612													22	72					0	0	0.069288	0	0		T	52521725	T	T	52521725	2	4	181	1	0	0	0	0	0	0	0	1	10451	883	31	1		1	NISCH	3	52521725	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3838119	52521725	145500705	32	91851											
ARL13B	200894	broad.mit.edu	37	chr3	93768322	93768322	+	Missense_Mutation	SNP	A	T	T	1	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	agaaccacttaatatagatgActgtgctcctgagagtccaa	14	10	8	9	0	0	4	0	2	0	3	2	5	2	4	3	0	2	1	3	0	5	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:93768322A>T	uc003drc.2	+	8	1383	c.1097A>T	c.(1096-1098)GAC>GTC	p.D366V	ARL13B_uc010hop.2_Missense_Mutation_p.D217V|ARL13B_uc003drd.2_Missense_Mutation_p.D259V|ARL13B_uc003dre.2_Missense_Mutation_p.D351V|ARL13B_uc003drf.2_Missense_Mutation_p.D366V|ARL13B_uc003drg.2_Missense_Mutation_p.D263V	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	366							GTP binding				0						AATATAGATGACTGTGCTCCT	0.378													21	58					0	0	0.076483	0	0		T	93768322	T	T	93768322	3	4	181	1	0	0	0	0	1	0	0	0	929	275	10	5	1127	5	ARL13B	3	93768322	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	41246597	93768322	104254108	33	91852											
SMC4	10051	broad.mit.edu	37	chr3	160148502	160148502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcttgaggacaaagcagcaGaggtcgtaaagaatacaaat	17	7	11	6	1	1	3	0	1	1	2	2	4	1	4	0	2	3	3	0	2	6	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:160148502G>A	uc003fdh.2	+	19	3024	c.2911G>A	c.(2911-2913)GAG>AAG	p.E971K	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.E946K|SMC4_uc003fdj.2_Missense_Mutation_p.E971K|SMC4_uc010hwd.2_Missense_Mutation_p.E971K|SMC4_uc003fdl.2_Missense_Mutation_p.E674K	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	971	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			CAAAGCAGCAGAGGTCGTAAA	0.408													11	60					0	0	0.09319	0	0		A	160148502	A	A	160148502	3	1	181	1	0	0	0	0	1	0	0	0	14810	943	33	4	2981	4	SMC4	3	160148502	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	66380180	160148502	37873928	34	91853											
SMC4	10051	broad.mit.edu	37	chr3	160150896	160150896	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttagttcattggctttagtaTttgctcttcaccactacaag	9	17	6	9	0	3	0	2	0	1	0	3	0	3	0	1	1	2	4	1	1	5	9			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:160150896T>G	uc003fdh.2	+	23	3726	c.3613T>G	c.(3613-3615)TTT>GTT	p.F1205V	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.F1180V|SMC4_uc003fdj.2_Missense_Mutation_p.F1205V|SMC4_uc010hwd.2_Missense_Mutation_p.F1147V|SMC4_uc003fdl.2_Missense_Mutation_p.F908V	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	1205	Ala/Asp-rich (DA-box).				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			GGCTTTAGTATTTGCTCTTCA	0.368													24	109					0	0	0.083992	0	0		G	160150896	G	G	160150896	3	3	181	1	0	0	0	0	1	0	0	0	14810	1493	52	5	3699	5	SMC4	3	160150896	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	2394	160150896	37871534	35	91854											
MCCC1	56922	broad.mit.edu	37	chr3	182733324	182733324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtagaacactttctttaCtgtgccatcctttggagact	8	16	7	10	0	2	2	0	0	2	2	3	3	3	2	2	1	3	1	2	1	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:182733324C>T	uc003fle.2	-	19	2217	c.2080G>A	c.(2080-2082)GTA>ATA	p.V694I	MCCC1_uc010hxi.2_RNA|MCCC1_uc011bqo.1_RNA|MCCC1_uc003flf.2_Missense_Mutation_p.V577I|MCCC1_uc003flg.2_Missense_Mutation_p.V585I	NM_020166	NP_064551	Q96RQ3	MCCA_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 1 (alpha)	694	Biotinyl-binding.				biotin metabolic process|leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.84e-14)|Ovarian(172;0.0355)		all cancers(12;1.8e-44)|Epithelial(37;3.23e-38)|LUSC - Lung squamous cell carcinoma(7;5.04e-25)|Lung(8;5.03e-23)|OV - Ovarian serous cystadenocarcinoma(80;5.07e-21)		Biotin(DB00121)	ACTTTCTTTACTGTGCCATCC	0.433													37	147					0	0	0.080422	0	0		T	182733324	T	T	182733324	3	4	181	1	0	0	0	0	1	0	0	0	9392	565	20	4	101	4	MCCC1	3	182733324	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	22582428	182733324	15289106	36	91855											
C3orf70	285382	broad.mit.edu	37	chr3	184801261	184801261	+	Missense_Mutation	SNP	T	G	G	0	1	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	cggtgagcgagactgagatcTgaatggtgtttgtgggttcc	7	12	16	6	2	1	4	0	3	1	2	2	6	2	4	1	3	1	2	1	3	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:184801261T>G	uc003fpd.2	-	2	478	c.287A>C	c.(286-288)CAG>CCG	p.Q96P		NM_001025266	NP_001020437	A6NLC5	CC070_HUMAN	hypothetical protein LOC285382	96											0						GACTGAGATCTGAATGGTGTT	0.502													21	100					0	0	0.055883	0	0		G	184801261	G	G	184801261	3	3	181	1	0	0	0	0	1	0	0	0	2245	1580	55	5	469	5	C3orf70	3	184801261	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	2067937	184801261	13221169	37	91856											
BCL6	604	broad.mit.edu	37	chr3	187447510	187447510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactatcacatgggagtgccCgctccttggggaaggggttg	7	9	15	10	1	1	0	1	0	0	0	2	2	2	2	2	5	1	2	2	5	2	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr3:187447510C>T	uc003frp.3	-	5	1140	c.683G>A	c.(682-684)CGG>CAG	p.R228Q	BCL6_uc011bsf.1_Missense_Mutation_p.R228Q|BCL6_uc010hza.2_Missense_Mutation_p.R126Q|BCL6_uc003frq.1_Missense_Mutation_p.R228Q	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	228					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		TGGGAGTGCCCGCTCCTTGGG	0.587			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								9	29					0	0	0.047766	0	0		T	187447510	T	T	187447510	3	4	181	1	0	0	0	0	1	0	0	0	1377	652	23	1	1461	1	BCL6	3	187447510	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	2646249	187447510	10574920	38	91857											
PDGFRA	5156	broad.mit.edu	37	chr4	55133725	55133725	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcttccctgtacagagaaagGtttcattgaaatcaaaccca	14	11	6	10	0	3	2	2	1	1	1	4	3	4	2	2	1	2	2	2	1	4	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr4:55133725G>T	uc003han.3	+	7	1269	c.938G>T	c.(937-939)GGT>GTT	p.G313V	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.G207V|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	313	Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	ACAGAGAAAGGTTTCATTGAA	0.448			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			9	78					0.000673444	0.000685578	0.069234	1	0		T	55133725	T	T	55133725	3	4	181	1	0	0	0	0	1	0	0	0	11680	1261	44	5	960	5	PDGFRA	4	55133725	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		55133725	136020551	39	91858											
TMEM165	55858	broad.mit.edu	37	chr4	56277800	56277800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaatatttacaccagcagCtccagttcataccaataaag	17	9	5	10	0	1	0	1	0	0	0	2	1	2	0	3	0	4	3	3	0	8	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr4:56277800C>T	uc003hax.2	+	2	494	c.227C>T	c.(226-228)GCT>GTT	p.A76V	TMEM165_uc011bzy.1_Missense_Mutation_p.A13V	NM_018475	NP_060945	Q9HC07	TM165_HUMAN	transmembrane protein 165	76						integral to membrane					0	Lung NSC(11;0.00545)|Glioma(25;0.08)|all_neural(26;0.101)|all_epithelial(27;0.135)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0103)			ACACCAGCAGCTCCAGTTCAT	0.289													11	52					0	0	0.069234	0	0		T	56277800	T	T	56277800	3	4	181	1	0	0	0	0	1	0	0	0	16105	797	28	2	233	2	TMEM165	4	56277800	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	1144075	56277800	134876476	40	91859											
HERC5	51191	broad.mit.edu	37	chr4	89388332	89388332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccgcttccagtgaaagtatCatcaagtgaagaactcaaac	15	8	8	10	1	3	3	3	2	0	1	4	3	4	3	2	0	2	2	2	0	6	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr4:89388332C>T	uc003hrt.2	+	7	1187	c.1034C>T	c.(1033-1035)TCA>TTA	p.S345L	HERC5_uc011cdm.1_5'Flank	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	345	RCC1 5.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		GTGAAAGTATCATCAAGTGAA	0.393													22	72					0	0	0.062417	0	0		T	89388332	T	T	89388332	3	4	181	1	0	0	0	0	1	0	0	0	7077	838	29	4	1060	4	HERC5	4	89388332	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	33110532	89388332	101765944	41	91860											
MMRN1	22915	broad.mit.edu	37	chr4	90856716	90856716	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ctgaagttctctttccaatgGacaataagatggacaaaatg	15	11	8	7	0	1	2	0	1	1	1	3	4	2	4	1	2	0	1	1	2	6	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr4:90856716G>C	uc003hst.2	+	6	1956	c.1885G>C	c.(1885-1887)GAC>CAC	p.D629H	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.D371H	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	629	Potential.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		CTTTCCAATGGACAATAAGAT	0.363													21	111					0	0	0.076483	0	0		C	90856716	C	C	90856716	3	2	181	1	0	0	0	0	1	0	0	0	9688	1174	41	5	1907	5	MMRN1	4	90856716	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	1468384	90856716	100297560	42	91861											
PDHA2	5161	broad.mit.edu	37	chr4	96762399	96762399	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaattaggccatcacatCtacagcagtgattcatcttt	13	12	7	9	0	4	2	2	1	2	1	4	3	4	2	1	1	2	1	1	1	4	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr4:96762399C>A	uc003htr.3	+	1	1161	c.1098C>A	c.(1096-1098)ATC>ATA	p.I366I		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	366					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	GCCATCACATCTACAGCAGTG	0.433													23	76					2.70639e-06	2.88512e-06	0.069288	1	0		A	96762399	A	A	96762399	2	1	181	1	0	0	0	0	0	0	0	1	11684	903	32	5		5	PDHA2	4	96762399	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	5905683	96762399	94391877	43	91862											
PRDM9	56979	broad.mit.edu	37	chr5	23521209	23521209	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcaaatttactgaatgcaagTggctcagagcaggctcagaa	14	8	11	8	0	2	3	2	1	0	2	2	3	2	3	0	2	3	5	0	2	5	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:23521209T>A	uc003jgo.2	+	6	611	c.429T>A	c.(427-429)AGT>AGA	p.S143R		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	143					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						TGAATGCAAGTGGCTCAGAGC	0.423										HNSCC(3;0.000094)			12	68					0	0	0.09319	0	0		A	23521209	A	A	23521209	3	1	181	1	0	0	0	0	1	0	0	0	12485	1693	59	5	447	5	PRDM9	5	23521209	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08		23521209	157394051	44	91863											
PRKAA1	5562	broad.mit.edu	37	chr5	40764627	40764627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtacataccatcaatactaCggaaatccagtagataagtt	16	11	6	8	1	1	1	1	0	0	1	2	2	2	2	2	1	4	3	2	1	8	7			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:40764627C>T	uc003jmc.2	-	8	1430	c.1424G>A	c.(1423-1425)CGT>CAT	p.R475H	PRKAA1_uc003jmb.2_Missense_Mutation_p.R490H	NM_006251	NP_006242	Q13131	AAPK1_HUMAN	protein kinase, AMP-activated, alpha 1 catalytic	475					activation of MAPK activity|cell cycle arrest|cholesterol biosynthetic process|fatty acid biosynthetic process|insulin receptor signaling pathway|negative regulation of glucosylceramide biosynthetic process|positive regulation of anti-apoptosis|positive regulation of cholesterol biosynthetic process|regulation of fatty acid oxidation|response to hypoxia	cytosol	ATP binding|cAMP-dependent protein kinase activity|metal ion binding|protein binding			breast(1)	1					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Phenformin(DB00914)	ATCAATACTACGGAAATCCAG	0.368													7	32					0	0	0.02938	0	0		T	40764627	T	T	40764627	3	4	181	1	0	0	0	0	1	0	0	0	12515	536	19	1	263	1	PRKAA1	5	40764627	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	17243418	40764627	140150633	45	91864											
PIK3R1	5295	broad.mit.edu	37	chr5	67589663	67589663	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatatacccgcacatcccagGtgagttttctatgaaaatca	14	11	6	10	1	2	2	1	2	1	0	3	2	3	2	2	1	1	2	2	1	6	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:67589663G>A	uc003jva.2	+	11	1985	c.1425_splice	c.e11+1	p.Q475_splice	PIK3R1_uc003jvb.2_Splice_Site_p.Q475_splice|PIK3R1_uc003jvc.2_Splice_Site_p.Q175_splice|PIK3R1_uc003jvd.2_Splice_Site_p.Q205_splice|PIK3R1_uc003jve.2_Splice_Site_p.Q154_splice|PIK3R1_uc011crb.1_Splice_Site_p.Q145_splice	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1						epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.D434_Q475del(1)|p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		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)	Isoproterenol(DB01064)	CACATCCCAGGTGAGTTTTCT	0.294			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			16	61					0	0	0.132662	0	0		A	67589663	A	A	67589663	5	1	181	1	0	0	0	0	0	0	1	0	11937	1275	44	4	1594	4	PIK3R1	5	67589663	Splice_Site	SNP	G	TCGA-D7-8572-01A-11D-2340-08	26825036	67589663	113325597	46	91865											
RAD17	5884	broad.mit.edu	37	chr5	68692242	68692242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agacacgctctttactcaggGaatatagcacatctatagct	13	11	7	10	1	3	1	1	0	2	1	3	2	3	2	0	1	3	3	0	1	6	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:68692242G>A	uc003jwo.2	+	13	1536	c.1474G>A	c.(1474-1476)GAA>AAA	p.E492K	RAD17_uc003jwg.2_Missense_Mutation_p.E481K|RAD17_uc003jwh.2_Missense_Mutation_p.E481K|RAD17_uc003jwi.2_Missense_Mutation_p.E481K|RAD17_uc003jwj.2_Missense_Mutation_p.E481K|RAD17_uc003jwk.2_Missense_Mutation_p.E481K|RAD17_uc003jwl.2_Missense_Mutation_p.E481K|RAD17_uc003jwm.2_Missense_Mutation_p.E316K|RAD17_uc003jwn.2_Missense_Mutation_p.E395K|RAD17_uc003jwp.2_Missense_Mutation_p.E52K	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2	492	Interaction with MCM7.				cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		TTTACTCAGGGAATATAGCAC	0.383								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					4	30					0	0	0.150653	0	0		A	68692242	A	A	68692242	3	1	181	1	0	0	0	0	1	0	0	0	13004	1175	41	4	1537	4	RAD17	5	68692242	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	1102579	68692242	112223018	47	91866											
ACOT12	134526	broad.mit.edu	37	chr5	80655815	80655815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agcagccagattatgttccaCatgatcttgttcagttagaa	12	13	8	8	0	2	3	1	1	1	2	3	3	3	3	2	0	2	4	2	0	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:80655815C>T	uc003khl.3	-	5	458	c.403G>A	c.(403-405)GTG>ATG	p.V135M	RNU5E_uc011cto.1_Intron|ACOT12_uc003khm.2_Missense_Mutation_p.V135M	NM_130767	NP_570123	Q8WYK0	ACO12_HUMAN	acyl-CoA thioesterase 12	135					acyl-CoA metabolic process|fatty acid metabolic process	cytosol	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(1)|kidney(1)	2		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)		TTATGTTCCACATGATCTTGT	0.323													10	47					0	0	0.069234	0	0		T	80655815	T	T	80655815	3	4	181	1	0	0	0	0	1	0	0	0	150	478	17	4	1308	4	ACOT12	5	80655815	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	11963573	80655815	100259445	48	91867											
PKD2L2	27039	broad.mit.edu	37	chr5	137271538	137271538	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagagaggcttgagaaaaAgtattattctatggaaattc	17	11	10	3	0	1	2	0	1	1	2	2	6	1	3	0	2	0	2	0	2	7	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:137271538A>T	uc003lby.2	+	13	1780	c.1724A>T	c.(1723-1725)AAG>ATG	p.K575M	PKD2L2_uc003lbw.1_Missense_Mutation_p.K575M|PKD2L2_uc003lbx.2_Missense_Mutation_p.K474M|PKD2L2_uc011cyi.1_Missense_Mutation_p.K183M	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2	575	Cytoplasmic (Potential).|Potential.					integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTTGAGAAAAAGTATTATTCT	0.378													15	61					0	0	0.132662	0	0		T	137271538	T	T	137271538	3	4	181	1	0	0	0	0	1	0	0	0	11987	72	3	5	1774	5	PKD2L2	5	137271538	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	56615723	137271538	43643722	49	91868											
PCDHA1	56147	broad.mit.edu	37	chr5	140167716	140167716	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gtcctatgaactgcagccggCagcaggcggcgcgcgcatcc	7	5	14	15	5	0	1	0	1	0	0	2	1	2	1	3	3	4	4	3	3	2	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:140167716C>A	uc003lhb.2	+	1	1841	c.1841C>A	c.(1840-1842)GCA>GAA	p.A614E	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.A614E	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	614	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCAGCCGGCAGCAGGCGGC	0.677													21	84					9.95505e-16	1.16572e-15	0.069288	1	0		A	140167716	A	A	140167716	3	1	181	1	0	0	0	0	1	0	0	0	11538	710	25	5	1843	5	PCDHA1	5	140167716	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	2896178	140167716	40747544	50	91869											
ARAP3	64411	broad.mit.edu	37	chr5	141053171	141053171	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttcccctcccagcacccaCccctgaggggagagcttgtc	6	7	9	19	0	0	2	0	1	0	1	3	3	2	2	7	2	2	2	7	2	0	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:141053171C>A	uc003llm.2	-	5	980	c.902_splice	c.e5+1	p.G301_splice	ARAP3_uc011dbe.1_5'Flank|ARAP3_uc003lln.2_Splice_Site_p.G223_splice|ARAP3_uc003llo.1_Splice_Site_p.G301_splice	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH						cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						CCAGCACCCACCCCTGAGGGG	0.622													15	74					0.000219431	0.000225416	0.11911	1	0		A	141053171	A	A	141053171	5	1	181	1	0	0	0	0	0	0	1	0	840	521	18	5	3847	5	ARAP3	5	141053171	Splice_Site	SNP	C	TCGA-D7-8572-01A-11D-2340-08	885455	141053171	39862089	51	91870											
FAF2	23197	broad.mit.edu	37	chr5	175919208	175919208	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccaggtttgctcttcgtTttatacggcctgaccctcgc	4	14	8	15	3	1	1	0	1	1	0	4	1	2	1	4	2	2	3	4	2	2	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr5:175919208T>G	uc003mej.3	+	5	411	c.358T>G	c.(358-360)TTT>GTT	p.F120V		NM_014613	NP_055428	Q96CS3	FAF2_HUMAN	UBX domain containing 8	120					response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1						TGCTCTTCGTTTTATACGGCC	0.473													33	110					0	0	0.173368	0	0		G	175919208	G	G	175919208	3	3	181	1	0	0	0	0	1	0	0	0	5381	1841	64	5	376	5	FAF2	5	175919208	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	34866037	175919208	4996052	52	91871											
CAGE1	285782	broad.mit.edu	37	chr6	7373629	7373629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttgggcctctttttcccGtttcaacaagtccaaagcag	8	14	7	12	1	3	0	1	0	2	0	5	0	5	0	3	1	2	2	3	1	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:7373629G>A	uc003mxi.2	-	4	1736	c.1015C>T	c.(1015-1017)CGG>TGG	p.R339W	CAGE1_uc003mxh.2_RNA|CAGE1_uc003mxj.2_Missense_Mutation_p.R230W|CAGE1_uc003mxk.1_Missense_Mutation_p.R230W	NM_205864	NP_995586	Q8TC20	CAGE1_HUMAN	cancer antigen 1	475	Potential.										0	Ovarian(93;0.0418)					TCTTTTTCCCGTTTCAACAAG	0.403													12	30					0	0	0.09319	0	0		A	7373629	A	A	7373629	3	1	181	1	0	0	0	0	1	0	0	0	2575	1144	40	1	1242	1	CAGE1	6	7373629	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		7373629	163741438	53	91872											
BMP6	654	broad.mit.edu	37	chr6	7880471	7880471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccccaaaccgtgctgtgcGccaactaagctaaatgccat	11	8	8	14	2	0	0	0	0	0	0	1	0	1	0	5	0	6	2	5	0	5	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:7880471G>A	uc003mxu.3	+	7	1615	c.1437G>A	c.(1435-1437)GCG>GCA	p.A479A		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	479					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					CGTGCTGTGCGCCAACTAAGC	0.448													38	147					0	0	0.086207	0	0		A	7880471	A	A	7880471	2	1	181	1	0	0	0	0	0	0	0	1	1465	1074	38	1		1	BMP6	6	7880471	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	506842	7880471	163234596	54	91873											
HIST1H2AG	8969	broad.mit.edu	37	chr6	27100904	27100904	+	Silent	SNP	C	G	G	0	0	0	1	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	cgcgctaaggccaagactcgCtcttctagggccggtctcca	7	8	11	15	4	3	1	0	0	3	1	5	1	3	1	3	3	0	2	3	3	3	3	rs147278636		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:27100904C>G	uc003niw.2	+	1	88	c.54C>G	c.(52-54)CGC>CGG	p.R18R	HIST1H2BJ_uc003niu.1_5'Flank|HIST1H2BJ_uc003niv.2_5'Flank	NM_021064	NP_066408	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ag	18					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						CCAAGACTCGCTCTTCTAGGG	0.647													20	46					0	0	0.043863	0	0		G	27100904	G	G	27100904	2	3	181	1	0	0	0	0	0	0	0	1	7149	784	28	5		5	HIST1H2AG	6	27100904	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	19220433	27100904	144014163	55	91874											
OR5V1	81696	broad.mit.edu	37	chr6	29323142	29323142	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggggtaacaacactgtaCaacactgaaaccaacctatc	16	7	7	11	0	0	1	0	1	0	0	1	1	0	1	2	2	6	2	2	2	7	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:29323142C>A	uc011dlo.1	-	1	913	c.831G>T	c.(829-831)TTG>TTT	p.L277F		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	277	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						CAACACTGTACAACACTGAAA	0.418													34	159					9.17885e-22	1.08608e-21	0.183431	1	0		A	29323142	A	A	29323142	3	1	181	1	0	0	0	0	1	0	0	0	11203	477	17	5	137	5	OR5V1	6	29323142	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	2222238	29323142	141791925	56	91875											
DNAH8	1769	broad.mit.edu	37	chr6	38835970	38835970	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatatgaacctttccaaaCtggtatcttctctgaattct	11	15	6	9	0	3	3	0	2	3	1	5	4	4	3	2	1	2	1	2	1	5	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:38835970C>A	uc003ooe.1	+	46	6775	c.6175C>A	c.(6175-6177)CTG>ATG	p.L2059M		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCTTTCCAAACTGGTATCTTC	0.388													14	45					2.61681e-11	2.957e-11	0.11911	1	0		A	38835970	A	A	38835970	3	1	181	1	0	0	0	0	1	0	0	0	4613	564	20	5	6349	5	DNAH8	6	38835970	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	9512828	38835970	132279097	57	91876											
BAI3	577	broad.mit.edu	37	chr6	69348940	69348940	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtttttctacagtatgatAaaaattttattcaaatacgt	14	18	4	5	2	2	1	1	1	1	0	3	1	2	1	0	0	2	2	0	0	8	9			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:69348940A>G	uc003pev.3	+	3	821	c.373A>G	c.(373-375)AAA>GAA	p.K125E	BAI3_uc010kak.2_Missense_Mutation_p.K125E	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	125	CUB.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				ACAGTATGATAAAAATTTTAT	0.289													16	42					0	0	0.146539	0	0		G	69348940	G	G	69348940	3	3	181	1	0	0	0	0	1	0	0	0	1301	363	13	3	375	3	BAI3	6	69348940	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	30512970	69348940	101766127	58	91877											
RIMS1	22999	broad.mit.edu	37	chr6	72678732	72678732	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgcctgcaaaacaccaAgaaatgctgaaaaccagccc	15	5	7	14	0	0	2	0	1	0	1	0	2	0	2	4	0	7	3	4	0	6	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:72678732A>G	uc003pga.2	+	2	288	c.211A>G	c.(211-213)AGA>GGA	p.R71G		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	71	RabBD.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CAAAACACCAAGAAATGCTGA	0.453													28	97					0	0	0.116897	0	0		G	72678732	G	G	72678732	3	3	181	1	0	0	0	0	1	0	0	0	13392	64	3	3	217	3	RIMS1	6	72678732	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	3329792	72678732	98436335	59	91878											
DDX43	55510	broad.mit.edu	37	chr6	74123758	74123758	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agagtctctgcatggagataGagaacagagagatcgggaga	15	6	15	5	1	1	6	0	0	1	6	3	10	1	6	0	2	2	1	0	2	2	1	rs139170485		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:74123758G>C	uc003pgw.2	+	13	1906	c.1562G>C	c.(1561-1563)AGA>ACA	p.R521T		NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	521	Helicase C-terminal.					intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						CATGGAGATAGAGAACAGAGA	0.363													12	45					0	0	0.09319	0	0		C	74123758	C	C	74123758	3	2	181	1	0	0	0	0	1	0	0	0	4366	942	33	5	1612	5	DDX43	6	74123758	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	1445026	74123758	96991309	60	91879											
SLC17A5	26503	broad.mit.edu	37	chr6	74351547	74351547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcattttcccccctattttgCtggcaacatatcctccagga	8	13	6	14	0	0	0	0	0	0	0	3	1	3	1	5	2	2	3	5	2	3	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:74351547C>T	uc003phn.3	-	3	520	c.392G>A	c.(391-393)AGC>AAC	p.S131N	SLC17A5_uc010kay.2_RNA|SLC17A5_uc011dyo.1_Silent_p.Q29Q	NM_012434	NP_036566	Q9NRA2	S17A5_HUMAN	sialin	131					anion transport	integral to plasma membrane|lysosomal membrane|membrane fraction	sialic acid:hydrogen symporter activity			skin(5)|central_nervous_system(1)	6						CCCTATTTTGCTGGCAACATA	0.473													40	164					0	0	0.086207	0	0		T	74351547	T	T	74351547	3	4	181	1	0	0	0	0	1	0	0	0	14445	797	28	2	1131	2	SLC17A5	6	74351547	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	227789	74351547	96763520	61	91880											
PGM3	5238	broad.mit.edu	37	chr6	83900610	83900610	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacagctaataatcccatgCgaaacatgacatgatcaaga	17	7	8	9	1	1	3	1	2	0	1	2	5	2	4	1	1	3	1	1	1	4	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:83900610C>G	uc003pjv.2	-	2	162	c.122G>C	c.(121-123)CGC>CCC	p.R41P	PGM3_uc003pjw.2_Intron|PGM3_uc011dyz.1_Missense_Mutation_p.R69P|RWDD2A_uc003pjx.3_5'Flank|RWDD2A_uc011dza.1_5'Flank	NM_015599	NP_056414	O95394	AGM1_HUMAN	phosphoglucomutase 3	41					dolichol-linked oligosaccharide biosynthetic process|embryo development ending in birth or egg hatching|glucose 1-phosphate metabolic process|hemopoiesis|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	magnesium ion binding|phosphoacetylglucosamine mutase activity|phosphoglucomutase activity				0		all_cancers(76;0.000504)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.068)		BRCA - Breast invasive adenocarcinoma(397;0.0478)		TAATCCCATGCGAAACATGAC	0.458													24	85					0	0	0.076483	0	0		G	83900610	G	G	83900610	3	3	181	1	0	0	0	0	1	0	0	0	11819	768	27	5	1554	5	PGM3	6	83900610	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	9549063	83900610	87214457	62	91881											
ASCC3	10973	broad.mit.edu	37	chr6	101094585	101094585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcttccatcataacagaaGgaatctgatgaacacattgt	15	11	7	8	0	2	3	1	2	1	1	3	4	3	4	1	1	3	1	1	1	4	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:101094585G>A	uc003pqk.2	-	22	3868	c.3539C>T	c.(3538-3540)CCT>CTT	p.P1180L		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1180	SEC63 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CATAACAGAAGGAATCTGATG	0.403													8	47					0	0	0.038147	0	0		A	101094585	A	A	101094585	3	1	181	1	0	0	0	0	1	0	0	0	1034	1000	35	4	3153	4	ASCC3	6	101094585	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	17193975	101094585	70020482	63	91882											
QRSL1	55278	broad.mit.edu	37	chr6	107100220	107100220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attcgatggatgtgccaggaAtcttaaccagatgtgtggat	11	12	12	6	1	1	1	0	0	1	1	2	5	1	4	2	3	2	0	2	3	2	2	rs144191952		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:107100220A>G	uc003prm.2	+	6	810	c.694A>G	c.(694-696)ATC>GTC	p.I232V	QRSL1_uc003prl.2_Missense_Mutation_p.I232V	NM_018292	NP_060762	Q9H0R6	QRSL1_HUMAN	glutaminyl-tRNA synthase	232					translation		ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;0.00768)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.248)	Epithelial(6;0.000334)|all cancers(7;0.00157)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0152)	BRCA - Breast invasive adenocarcinoma(108;0.118)|all cancers(137;0.167)|Epithelial(106;0.176)		TGTGCCAGGAATCTTAACCAG	0.413													24	99					0	0	0.0918	0	0		G	107100220	G	G	107100220	3	3	181	1	0	0	0	0	1	0	0	0	12906	101	4	3	716	3	QRSL1	6	107100220	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	6005635	107100220	64014847	64	91883											
SEC63	11231	broad.mit.edu	37	chr6	108234618	108234618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcccaatttttccgggactCttcatccgttaaactagcat	9	15	5	12	2	2	0	1	0	1	0	5	1	5	1	3	1	2	2	3	1	4	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:108234618C>T	uc003psc.3	-	5	735	c.466G>A	c.(466-468)GAG>AAG	p.E156K	SEC63_uc003psb.3_Missense_Mutation_p.E16K	NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	156	J.|Lumenal (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)		TTCCGGGACTCTTCATCCGTT	0.343													34	123					0	0	0.064281	0	0		T	108234618	T	T	108234618	3	4	181	1	0	0	0	0	1	0	0	0	14030	922	32	4	1884	4	SEC63	6	108234618	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	1134398	108234618	62880449	65	91884											
TUBE1	51175	broad.mit.edu	37	chr6	112393234	112393234	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acggaacacaggctggtcttCcagccttcttgattccagga	9	10	10	12	1	2	1	0	1	2	0	4	3	4	3	3	4	2	1	3	4	1	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:112393234C>T	uc003pvq.2	-	11	1254	c.1140G>A	c.(1138-1140)TGG>TGA	p.W380*	TUBE1_uc003pvr.2_Nonsense_Mutation_p.W305*	NM_016262	NP_057346	Q9UJT0	TBE_HUMAN	tubulin, epsilon 1	380					centrosome cycle|microtubule-based movement|protein polymerization	microtubule|pericentriolar material	GTP binding|GTPase activity|structural constituent of cytoskeleton			ovary(1)	1		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)		GGCTGGTCTTCCAGCCTTCTT	0.398													18	78					0	0	0.049695	0	0		T	112393234	T	T	112393234	4	4	181	1	0	0	0	0	0	1	0	0	16789	856	30	4	295	4	TUBE1	6	112393234	Nonsense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	4158616	112393234	58721833	66	91885											
SERINC1	57515	broad.mit.edu	37	chr6	122766247	122766247	+	Missense_Mutation	SNP	A	T	T	1	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	cgagtgtccaaacatacagcAcgatgccaatccaactggaa	15	6	8	12	2	0	0	0	0	0	0	2	3	2	1	3	1	5	1	3	1	5	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr6:122766247A>T	uc003pyy.1	-	10	1374	c.1304T>A	c.(1303-1305)GTG>GAG	p.V435E	SERINC1_uc003pyx.1_RNA	NM_020755	NP_065806	Q9NRX5	SERC1_HUMAN	serine incorporator 1	435	Helical; (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	L-serine transmembrane transporter activity|protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.126)		AACATACAGCACGATGCCAAT	0.413													10	49					0	0	0.080935	0	0		T	122766247	T	T	122766247	3	4	181	1	0	0	0	0	1	0	0	0	14104	159	6	5	61	5	SERINC1	6	122766247	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	10373013	122766247	48348820	67	91886											
HDAC9	9734	broad.mit.edu	37	chr7	18631206	18631206	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagtaaatcagcaacgaaAgacactccaactaatggaaa	19	6	7	9	1	1	2	1	1	0	1	2	4	2	3	1	1	3	2	1	1	7	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:18631206A>C	uc003suh.2	+	4	515	c.474A>C	c.(472-474)AAA>AAC	p.K158N	HDAC9_uc003sue.2_Missense_Mutation_p.K158N|HDAC9_uc011jyd.1_Missense_Mutation_p.K158N|HDAC9_uc003sui.2_Missense_Mutation_p.K161N|HDAC9_uc003suj.2_Missense_Mutation_p.K161N|HDAC9_uc011jya.1_Missense_Mutation_p.K199N|HDAC9_uc003sua.1_Missense_Mutation_p.K180N|HDAC9_uc011jyb.1_Missense_Mutation_p.K158N|HDAC9_uc003sud.1_Missense_Mutation_p.K158N|HDAC9_uc011jyc.1_Missense_Mutation_p.K161N|HDAC9_uc003suf.1_Missense_Mutation_p.K189N|HDAC9_uc010kud.1_Missense_Mutation_p.K161N|HDAC9_uc011jye.1_Missense_Mutation_p.K130N|HDAC9_uc011jyf.1_Missense_Mutation_p.K127N|HDAC9_uc010kue.1_5'UTR	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	158					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	CAGCAACGAAAGACACTCCAA	0.383													11	30					0	0	0.080935	0	0		C	18631206	C	C	18631206	3	2	181	1	0	0	0	0	1	0	0	0	7030	69	3	5	497	5	HDAC9	7	18631206	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08		18631206	140507457	68	91887											
WBSCR17	64409	broad.mit.edu	37	chr7	71036364	71036364	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcatggatgtatacggaggaGaaaatattgaactgggaatc	15	9	13	4	1	0	2	0	1	0	1	1	6	0	5	0	4	2	2	0	4	7	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:71036364G>C	uc003tvy.2	+	6	1057	c.1057G>C	c.(1057-1059)GAA>CAA	p.E353Q	WBSCR17_uc003tvz.2_Missense_Mutation_p.E52Q	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	353	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				ATACGGAGGAGAAAATATTGA	0.507													22	84					0	0	0.062417	0	0		C	71036364	C	C	71036364	3	2	181	1	0	0	0	0	1	0	0	0	17290	943	33	5	1079	5	WBSCR17	7	71036364	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	52405158	71036364	88102299	69	91888											
MAGI2	9863	broad.mit.edu	37	chr7	77797390	77797390	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaggcggccatctctgtcGgctgagcccatggcaatgac	8	8	13	12	2	1	3	0	3	1	0	3	3	1	3	2	4	1	2	2	4	2	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:77797390G>A	uc003ugx.2	-	15	2693	c.2439C>T	c.(2437-2439)GCC>GCT	p.A813A	MAGI2_uc003ugy.2_Silent_p.A799A|MAGI2_uc010ldx.1_Silent_p.A406A	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	813	PDZ 4.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CATCTCTGTCGGCTGAGCCCA	0.453													27	87					0	0	0.108266	0	0		A	77797390	A	A	77797390	2	1	181	1	0	0	0	0	0	0	0	1	9209	1103	39	1		1	MAGI2	7	77797390	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	6761026	77797390	81341273	70	91889											
SEMA3E	9723	broad.mit.edu	37	chr7	82997332	82997332	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaaccaaggtccatcttaAccactctgtcatctgtcttc	10	13	5	13	0	5	0	1	0	4	0	7	0	6	0	3	1	2	1	3	1	4	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:82997332A>G	uc003uhy.1	-	17	2364	c.1898T>C	c.(1897-1899)GTT>GCT	p.V633A		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	633	Ig-like C2-type.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				GTCCATCTTAACCACTCTGTC	0.418													16	76					0	0	0.160694	0	0		G	82997332	G	G	82997332	3	3	181	1	0	0	0	0	1	0	0	0	14053	43	2	3	433	3	SEMA3E	7	82997332	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	5199942	82997332	76141331	71	91890											
CYP51A1	1595	broad.mit.edu	37	chr7	91743061	91743061	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aattcacagtgggaaagtatCcatcaatgagatcaaattca	17	10	7	7	0	4	1	4	1	0	1	5	3	5	2	1	1	0	1	1	1	5	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:91743061C>A	uc003ulm.3	-	10	1610	c.1448G>T	c.(1447-1449)GGA>GTA	p.G483V	CYP51A1_uc011khn.1_Missense_Mutation_p.G378V|CYP51A1_uc003uln.3_Missense_Mutation_p.G420V	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	477					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	GGGAAAGTATCCATCAATGAG	0.368													21	77					1.50039e-11	1.70396e-11	0.062417	1	0		A	91743061	A	A	91743061	3	1	181	1	0	0	0	0	1	0	0	0	4198	855	30	5	85	5	CYP51A1	7	91743061	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	8745729	91743061	67395602	72	91891											
FLNC	2318	broad.mit.edu	37	chr7	128478750	128478750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaggacaagggtgacagcaCgttccgctgcacatacagac	12	5	13	11	2	0	2	0	1	0	1	1	4	1	4	1	3	3	4	1	3	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:128478750C>T	uc003vnz.3	+	8	1513	c.1304C>T	c.(1303-1305)ACG>ATG	p.T435M	FLNC_uc003voa.3_Missense_Mutation_p.T435M	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	435	Filamin 2.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGTGACAGCACGTTCCGCTGC	0.657													9	127					0	0	0.047766	0	0		T	128478750	T	T	128478750	3	4	181	1	0	0	0	0	1	0	0	0	5949	536	19	1	1334	1	FLNC	7	128478750	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	36735689	128478750	30659913	73	91892											
TRIM24	8805	broad.mit.edu	37	chr7	138265374	138265374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgaatatgattgtgatgctCccagtcacaactcagaaaaa	15	11	7	8	0	2	4	2	3	0	1	3	4	3	4	1	0	2	1	1	0	5	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:138265374C>T	uc003vuc.2	+	16	2868	c.2653C>T	c.(2653-2655)CCC>TCC	p.P885S	TRIM24_uc003vub.2_Missense_Mutation_p.P851S	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	885					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						TTGTGATGCTCCCAGTCACAA	0.368													37	112					0	0	0.064281	0	0		T	138265374	T	T	138265374	3	4	181	1	0	0	0	0	1	0	0	0	16524	855	30	4	2715	4	TRIM24	7	138265374	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	9786624	138265374	20873289	74	91893											
MKRN1	23608	broad.mit.edu	37	chr7	140171773	140171773	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	agaggtcatgcgagtagcgaCagttgtctccttccttacaa	10	11	10	10	2	2	1	1	0	1	1	4	3	3	1	2	1	3	2	2	1	3	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:140171773C>G	uc003vvt.2	-	2	449	c.224G>C	c.(223-225)TGT>TCT	p.C75S	MKRN1_uc003vvs.2_Missense_Mutation_p.C11S|MKRN1_uc011krd.1_5'UTR|MKRN1_uc003vvv.3_Missense_Mutation_p.C75S|MKRN1_uc003vvu.3_Missense_Mutation_p.C11S	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	75	C3H1-type 1.						ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					CGAGTAGCGACAGTTGTCTCC	0.403													16	67					0	0	0.146539	0	0		G	140171773	G	G	140171773	3	3	181	1	0	0	0	0	1	0	0	0	9624	478	17	5	1256	5	MKRN1	7	140171773	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	1906399	140171773	18966890	75	91894											
CNTNAP2	26047	broad.mit.edu	37	chr7	146471365	146471365	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtcttttgttttcagaaAaatgtgatgagccacttgtc	9	17	8	7	0	3	3	1	2	2	1	4	3	3	3	1	0	1	1	1	0	2	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr7:146471365A>G	uc003weu.1	+	2	616	c.100A>G	c.(100-102)AAA>GAA	p.K34E		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	34	Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GTTTTCAGAAAAATGTGATGA	0.428										HNSCC(39;0.1)			4	18					0	0	0.150653	0	0		G	146471365	G	G	146471365	3	3	181	1	0	0	0	0	1	0	0	0	3650	15	1	3	106	3	CNTNAP2	7	146471365	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	6299592	146471365	12667298	76	91895											
SGK223	157285	broad.mit.edu	37	chr8	8185863	8185863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttttctgggggagtggagggGgctgctgggggccactgggg	3	9	23	6	0	1	0	0	0	1	0	1	2	1	2	1	9	1	2	1	9	0	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:8185863G>A	uc003wsh.3	-	4	2429	c.2429C>T	c.(2428-2430)CCC>CTC	p.P810L		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	810							ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GAGTGGAGGGGGCTGCTGGGG	0.637													14	66					0	0	0.105934	0	0		A	8185863	A	A	8185863	3	1	181	1	0	0	0	0	1	0	0	0	14235	1232	43	4	1787	4	SGK223	8	8185863	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		8185863	138178159	77	91896											
ESCO2	157570	broad.mit.edu	37	chr8	27634042	27634042	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atagactgccatcagcaaatCaaggctcaccatttaaatct	15	10	5	11	0	4	1	3	0	1	1	4	1	4	1	2	1	2	2	2	1	5	3	rs141222001		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:27634042C>T	uc003xgg.2	+	3	300	c.217C>T	c.(217-219)CAA>TAA	p.Q73*	ESCO2_uc010luy.1_RNA|ESCO2_uc003xgh.2_Nonsense_Mutation_p.Q73*	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	73					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		ATCAGCAAATCAAGGCTCACC	0.378									SC_Phocomelia_syndrome				9	45					0	0	0.058154	0	0		T	27634042	T	T	27634042	4	4	181	1	0	0	0	0	0	1	0	0	5257	827	29	4	223	4	ESCO2	8	27634042	Nonsense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	19448179	27634042	118729980	78	91897											
ADAM9	8754	broad.mit.edu	37	chr8	38874807	38874807	+	Silent	SNP	C	T	T	0	0	0	1	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	aacagctctcattttgagcaCatcatttatcgaatggatga	13	13	7	8	1	2	2	2	2	1	0	4	4	2	3	0	1	3	2	0	1	3	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:38874807C>T	uc003xmr.2	+	6	558	c.480C>T	c.(478-480)CAC>CAT	p.H160H	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	160	Extracellular (Potential).				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			ATTTTGAGCACATCATTTATC	0.398													13	63					0	0	0.105934	0	0		T	38874807	T	T	38874807	2	4	181	1	0	0	0	0	0	0	0	1	253	477	17	4		4	ADAM9	8	38874807	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	11240765	38874807	107489215	79	91898											
MYST3	7994	broad.mit.edu	37	chr8	41798853	41798853	+	Missense_Mutation	SNP	T	C	C	0	1	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	gactatcatgaggaaggactTgtttgctcaaacgtgtagaa	13	11	11	6	1	2	2	2	1	0	1	2	5	2	4	0	2	2	3	0	2	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:41798853T>C	uc010lxb.2	-	16	3090	c.2546A>G	c.(2545-2547)CAA>CGA	p.Q849R	MYST3_uc010lxc.2_Missense_Mutation_p.Q849R|MYST3_uc003xon.3_Missense_Mutation_p.Q849R	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	849					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AGGAAGGACTTGTTTGCTCAA	0.443													14	62					0	0	0.105934	0	0		C	41798853	C	C	41798853	3	2	181	1	0	0	0	0	1	0	0	0	10122	1812	63	3	3480	3	MYST3	8	41798853	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	2924046	41798853	104565169	80	91899											
KCNB2	9312	broad.mit.edu	37	chr8	73849089	73849089	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgggccaggaaggctctgtCggaaacaagctccaacaagt	12	6	13	10	1	1	0	0	0	1	0	3	2	2	2	2	4	3	2	2	4	5	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:73849089C>T	uc003xzb.2	+	3	2087	c.1499C>T	c.(1498-1500)TCG>TTG	p.S500L		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	500	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			AAGGCTCTGTCGGAAACAAGC	0.557													23	121					0	0	0.069288	0	0		T	73849089	T	T	73849089	3	4	181	1	0	0	0	0	1	0	0	0	8029	893	31	1	1505	1	KCNB2	8	73849089	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	32050236	73849089	72514933	81	91900											
STAU2	27067	broad.mit.edu	37	chr8	74526145	74526145	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaactctcctactgacactCgagtaacaaagcttttcata	14	11	5	11	1	2	2	1	1	1	1	4	3	2	2	1	0	4	2	1	0	5	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:74526145C>A	uc003xzm.2	-	9	961	c.725G>T	c.(724-726)CGA>CTA	p.R242L	STAU2_uc011lfg.1_Missense_Mutation_p.R70L|STAU2_uc003xzn.2_Missense_Mutation_p.R210L|STAU2_uc011lfh.1_Missense_Mutation_p.R138L|STAU2_uc003xzo.2_Missense_Mutation_p.R242L|STAU2_uc003xzp.2_Missense_Mutation_p.R210L|STAU2_uc011lfi.1_Missense_Mutation_p.R204L|STAU2_uc003xzq.2_Missense_Mutation_p.R22L|STAU2_uc010lzk.2_Missense_Mutation_p.R210L|STAU2_uc010lzl.1_Missense_Mutation_p.R70L	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	242	DRBM 3.				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			TACTGACACTCGAGTAACAAA	0.378													10	29					9.31168e-06	9.88e-06	0.105934	1	0		A	74526145	A	A	74526145	3	1	181	1	0	0	0	0	1	0	0	0	15298	884	31	5	1139	5	STAU2	8	74526145	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	677056	74526145	71837877	82	91901											
ZFHX4	79776	broad.mit.edu	37	chr8	77690554	77690554	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtacaacatgtccgttcGgtgaagcatcagcagactga	11	9	11	10	2	1	3	1	2	0	1	3	3	2	3	1	2	4	4	1	2	3	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:77690554G>C	uc003yav.2	+	4	3513	c.3126G>C	c.(3124-3126)TCG>TCC	p.S1042S	ZFHX4_uc003yau.1_Silent_p.S1068S|ZFHX4_uc003yaw.1_Silent_p.S1042S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1042	C2H2-type 7.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ATGTCCGTTCGGTGAAGCATC	0.512										HNSCC(33;0.089)			13	168					0	0	0.09319	0	0		C	77690554	C	C	77690554	2	2	181	1	0	0	0	0	0	0	0	1	17660	1103	39	5		5	ZFHX4	8	77690554	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	3164409	77690554	68673468	83	91902											
CSMD3	114788	broad.mit.edu	37	chr8	113318256	113318256	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacacagcgaggggtcttgTtatgattgctccatgttcca	9	12	10	10	1	1	1	0	1	1	0	3	2	3	1	2	2	3	3	2	2	2	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:113318256T>A	uc003ynu.2	-	51	8210	c.8051A>T	c.(8050-8052)AAC>ATC	p.N2684I	CSMD3_uc003yns.2_Missense_Mutation_p.N1886I|CSMD3_uc003ynt.2_Missense_Mutation_p.N2644I|CSMD3_uc011lhx.1_Missense_Mutation_p.N2580I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2684	Extracellular (Potential).|Sushi 15.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGGGGTCTTGTTATGATTGCT	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			37	135					0	0	0.092188	0	0		A	113318256	A	A	113318256	3	1	181	1	0	0	0	0	1	0	0	0	3949	1725	60	5	3156	5	CSMD3	8	113318256	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	35627702	113318256	33045766	84	91903											
CSMD3	114788	broad.mit.edu	37	chr8	113348959	113348959	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccattcccagggggtactCttacaagccaaaaacaatct	13	9	7	12	0	2	0	0	0	2	0	3	0	3	0	3	2	5	1	3	2	6	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:113348959C>A	uc003ynu.2	-	44	7100	c.6941G>T	c.(6940-6942)AGA>ATA	p.R2314I	CSMD3_uc003yns.2_Missense_Mutation_p.R1516I|CSMD3_uc003ynt.2_Missense_Mutation_p.R2274I|CSMD3_uc011lhx.1_Missense_Mutation_p.R2210I|CSMD3_uc003ynw.1_Missense_Mutation_p.R25I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2314	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AGGGGGTACTCTTACAAGCCA	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			22	115					6.44725e-10	7.24915e-10	0.069288	1	0		A	113348959	A	A	113348959	3	1	181	1	0	0	0	0	1	0	0	0	3949	913	32	5	4294	5	CSMD3	8	113348959	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	30703	113348959	33015063	85	91904											
POU5F1B	5462	broad.mit.edu	37	chr8	128428897	128428897	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acactgcagatcagccacatCgcccagcagcttgggctcga	10	6	10	15	2	1	1	1	0	0	1	3	2	1	1	2	1	4	4	2	1	0	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr8:128428897C>T	uc003ysf.2	+	1	1041	c.786C>T	c.(784-786)ATC>ATT	p.I262I	uc003ysc.1_Intron|uc003ysd.1_Intron|LOC727677_uc003yse.1_Intron|uc011liu.1_5'Flank	NM_001159542	NP_001153014	Q06416	P5F1B_HUMAN	POU class 5 homeobox 1B	262	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCAGCCACATCGCCCAGCAGC	0.567													3	11					0	0	0.115264	0	0		T	128428897	T	T	128428897	2	4	181	1	0	0	0	0	0	0	0	1	12301	874	31	1		1	POU5F1B	8	128428897	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	15079938	128428897	17935125	86	91905											
JAK2	3717	broad.mit.edu	37	chr9	5069141	5069141	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatcttttgaattgttaccaGatggaaactgttcgctcaga	11	14	9	7	1	2	3	1	1	1	2	3	5	2	4	1	1	2	3	1	1	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr9:5069141G>A	uc010mhm.2	+	10	1559	c.1446G>A	c.(1444-1446)CAG>CAA	p.Q482Q	JAK2_uc003ziw.2_Silent_p.Q482Q	NM_004972	NP_004963	O60674	JAK2_HUMAN	Janus kinase 2	482	SH2; atypical.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		PCM1/JAK2(30)|PAX5/JAK2(18)|ETV6/JAK2(11)|BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)	haematopoietic_and_lymphoid_tissue(28629)|lung(5)|breast(5)|ovary(1)|liver(1)	28641	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		ATTGTTACCAGATGGAAACTG	0.323		1	T|Mis|O	ETV6|PCM1|BCR	ALL|AML|MPD| CML				Polycythemia_Vera_Familial				12	53					0	0	0.080935	0	0		A	5069141	A	A	5069141	2	1	181	1	0	0	0	0	0	0	0	1	7954	933	33	4		4	JAK2	9	5069141	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08		5069141	136144290	87	91906											
IFNA10	3446	broad.mit.edu	37	chr9	21206570	21206570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgcaagtttgttgaaaacGagagggatctcatgatttct	11	15	10	5	1	2	3	1	2	2	1	3	5	2	4	0	1	2	3	0	1	3	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr9:21206570G>A	uc003zoq.1	-	1	573	c.527C>T	c.(526-528)TCG>TTG	p.S176L	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	176					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		TGTTGAAAACGAGAGGGATCT	0.388													25	355					0	0	0.108266	0	0		A	21206570	A	A	21206570	3	1	181	1	0	0	0	0	1	0	0	0	7548	1059	37	1	46	1	IFNA10	9	21206570	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	16137429	21206570	120006861	88	91907											
IFNA6	3443	broad.mit.edu	37	chr9	21350353	21350353	+	Silent	SNP	T	C	C	0	1	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	aacctttcttgcaagtttctTgatgaagagaaggatctcat	12	14	8	7	0	3	3	1	2	3	1	4	5	3	4	1	1	2	2	1	1	4	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr9:21350353T>C	uc011lni.1	-	1	534	c.534A>G	c.(532-534)TCA>TCG	p.S178S		NM_021002	NP_066282	P05013	IFNA6_HUMAN	interferon, alpha 6 precursor	178					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;7.66e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.116)		GCAAGTTTCTTGATGAAGAGA	0.438													67	259					0	0	0.139131	0	0		C	21350353	C	C	21350353	2	2	181	1	0	0	0	0	0	0	0	1	7557	1799	63	3		3	IFNA6	9	21350353	Silent	SNP	T	TCGA-D7-8572-01A-11D-2340-08	143783	21350353	119863078	89	91908											
HNRNPK	3190	broad.mit.edu	37	chr9	86585140	86585140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgtaatggtaatgatcCgatcttcggatccttctaaa	10	15	7	9	2	2	1	0	1	2	0	6	3	5	2	3	2	0	2	3	2	4	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr9:86585140C>T	uc004ang.3	-	16	1522	c.1298G>A	c.(1297-1299)CGG>CAG	p.R433Q	HNRNPK_uc011lsw.1_Missense_Mutation_p.R193Q|HNRNPK_uc004and.3_Missense_Mutation_p.R193Q|HNRNPK_uc004ank.3_Missense_Mutation_p.R432Q|HNRNPK_uc004anf.3_Missense_Mutation_p.R433Q|HNRNPK_uc004anh.3_Missense_Mutation_p.R409Q|HNRNPK_uc011lsx.1_Missense_Mutation_p.R409Q|HNRNPK_uc004ani.3_Missense_Mutation_p.R432Q|HNRNPK_uc004anj.3_Missense_Mutation_p.R432Q|HNRNPK_uc004ann.3_Missense_Mutation_p.R408Q|HNRNPK_uc004anl.3_Missense_Mutation_p.R433Q|HNRNPK_uc004anm.3_Missense_Mutation_p.R433Q|uc004ano.1_5'Flank|MIR7-1_hsa-mir-7-1|MI0000263_5'Flank	NM_031262	NP_112552	P61978	HNRPK_HUMAN	heterogeneous nuclear ribonucleoprotein K	433	KH 3.				interspecies interaction between organisms|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of low-density lipoprotein particle clearance|signal transduction	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nuclear chromatin|nucleoplasm	protein binding|RNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|single-stranded DNA binding			skin(1)	1						GGTAATGATCCGATCTTCGGA	0.413													18	71					0	0	0.175082	0	0		T	86585140	T	T	86585140	3	4	181	1	0	0	0	0	1	0	0	0	7285	652	23	1	139	1	HNRNPK	9	86585140	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	65234787	86585140	54628291	90	91909											
ZNF79	7633	broad.mit.edu	37	chr9	130206660	130206660	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tatgagtgcagtgaatgtggGaaggccttcagccagagctc	10	9	14	8	0	1	3	1	2	0	1	2	4	1	4	2	2	3	2	2	2	3	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr9:130206660G>A	uc004bqw.3	+	5	1095	c.681G>A	c.(679-681)GGG>GGA	p.G227G	ZNF79_uc011maf.1_Silent_p.G203G|ZNF79_uc011mag.1_Silent_p.G203G	NM_007135	NP_009066	Q15937	ZNF79_HUMAN	zinc finger protein 79	227	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						GTGAATGTGGGAAGGCCTTCA	0.493													20	84					0	0	0.043863	0	0		A	130206660	A	A	130206660	2	1	181	1	0	0	0	0	0	0	0	1	18186	1161	41	4		4	ZNF79	9	130206660	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	43621520	130206660	11006771	91	91910											
BAT2L1	84726	broad.mit.edu	37	chr9	134321941	134321941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctaaggacccctctctccGcccggctcagcctgtccgaa	6	9	8	18	3	3	0	1	0	2	0	6	2	5	1	6	2	1	1	6	2	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr9:134321941G>A	uc004can.3	+	6	822	c.767G>A	c.(766-768)CGC>CAC	p.R256H	BAT2L1_uc010mzj.1_5'Flank|BAT2L1_uc004cam.1_Missense_Mutation_p.R256H	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	256							protein binding				0						CCCTCTCTCCGCCCGGCTCAG	0.562													6	31					0	0	0.038147	0	0		A	134321941	A	A	134321941	3	1	181	1	0	0	0	0	1	0	0	0	1321	1087	38	1	789	1	BAT2L1	9	134321941	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	4115281	134321941	6891490	92	91911											
PCDH15	65217	broad.mit.edu	37	chr10	55581798	55581798	+	Silent	SNP	T	G	G																															atttgactgtacatgttagcTactgatttttcaagttctgc																										TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr10:55581798T>G	uc001jju.1	-	33	6083	c.5688A>C	c.(5686-5688)GTA>GTC	p.V1896V	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Silent_p.V750V|PCDH15_uc010qhv.1_Silent_p.V1893V|PCDH15_uc010qhw.1_Silent_p.V1856V|PCDH15_uc010qhx.1_Silent_p.V1827V|PCDH15_uc010qhy.1_Silent_p.V1903V|PCDH15_uc010qhz.1_Silent_p.V1898V|PCDH15_uc010qia.1_Silent_p.V1876V|PCDH15_uc010qib.1_Silent_p.V1873V	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1896	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ACATGTTAGCTACTGATTTTT	0.368										HNSCC(58;0.16)			28	153					0	0	0.108266	0	0		G	55581798	G	G	55581798	2	3	181	1	0	0	0	0	0	0	0	1	11530	1509	53	5		5	PCDH15	10	55581798	Silent	SNP	T	TCGA-D7-8572-01A-11D-2340-08		55581798	79952949	93	91912	170	2									
PCDH15	65217	broad.mit.edu	37	chr10	55581808	55581808	+	Missense_Mutation	SNP	T	C	C																															acatgttagctactgattttTcaagttctgctaagttttta																										TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr10:55581808T>C	uc001jju.1	-	33	6073	c.5678A>G	c.(5677-5679)GAA>GGA	p.E1893G	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Missense_Mutation_p.E747G|PCDH15_uc010qhv.1_Missense_Mutation_p.E1890G|PCDH15_uc010qhw.1_Missense_Mutation_p.E1853G|PCDH15_uc010qhx.1_Missense_Mutation_p.E1824G|PCDH15_uc010qhy.1_Missense_Mutation_p.E1900G|PCDH15_uc010qhz.1_Missense_Mutation_p.E1895G|PCDH15_uc010qia.1_Missense_Mutation_p.E1873G|PCDH15_uc010qib.1_Missense_Mutation_p.E1870G	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1893	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TACTGATTTTTCAAGTTCTGC	0.373										HNSCC(58;0.16)			26	164					0	0	0.099896	0	0		C	55581808	C	C	55581808	3	2	181	1	0	0	0	0	1	0	0	0	11530	1783	62	3	1799	3	PCDH15	10	55581808	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	10	55581808	79952939	94	91913	170	2									
ANK3	288	broad.mit.edu	37	chr10	61894095	61894095	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcataggagcttctgttCaaggtgtaagacctatccga	10	11	11	9	2	2	1	1	0	1	1	3	3	3	2	2	2	2	4	2	2	4	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr10:61894095C>A	uc001jky.2	-	25	2967	c.2775G>T	c.(2773-2775)TTG>TTT	p.L925F	ANK3_uc001jkw.2_Missense_Mutation_p.L59F|ANK3_uc009xpa.2_Missense_Mutation_p.L59F|ANK3_uc001jkx.2_Missense_Mutation_p.L103F|ANK3_uc010qih.1_Missense_Mutation_p.L926F|ANK3_uc001jkz.3_Missense_Mutation_p.L919F|ANK3_uc001jla.1_5'UTR|ANK3_uc001jlb.1_Missense_Mutation_p.L432F	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	925					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AGCTTCTGTTCAAGGTGTAAG	0.403													10	35					1.58986e-06	1.711e-06	0.069234	1	0		A	61894095	A	A	61894095	3	1	181	1	0	0	0	0	1	0	0	0	622	825	29	5	10747	5	ANK3	10	61894095	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	6312287	61894095	73640652	95	91914											
TET1	80312	broad.mit.edu	37	chr10	70450738	70450738	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agactgcttcagccacaccaGctccactgaagaatgacgca	13	6	8	14	1	1	4	1	2	0	2	2	4	2	4	3	0	3	3	3	0	2	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr10:70450738G>C	uc001jok.3	+	12	6083	c.5578G>C	c.(5578-5580)GCT>CCT	p.A1860P		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1860					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AGCCACACCAGCTCCACTGAA	0.542													30	76					0	0	0.144211	0	0		C	70450738	C	C	70450738	3	2	181	1	0	0	0	0	1	0	0	0	15794	971	34	5	5620	5	TET1	10	70450738	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	8556643	70450738	65084009	96	91915											
HELLS	3070	broad.mit.edu	37	chr10	96354483	96354483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggatcttcaggcccaggataGatgtcatagaattggtcaga	12	10	12	7	0	4	3	3	0	1	3	4	5	4	5	1	4	0	0	1	4	3	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr10:96354483G>A	uc001kjt.2	+	19	2225	c.2120G>A	c.(2119-2121)AGA>AAA	p.R707K	HELLS_uc001kjs.2_Missense_Mutation_p.R691K|HELLS_uc009xul.2_Missense_Mutation_p.R609K|HELLS_uc009xum.2_Missense_Mutation_p.R577K|HELLS_uc009xun.2_Missense_Mutation_p.R583K|HELLS_uc009xuo.2_Missense_Mutation_p.R753K|HELLS_uc001kju.2_Missense_Mutation_p.R346K|HELLS_uc009xup.2_RNA|HELLS_uc009xuq.2_Missense_Mutation_p.R569K|HELLS_uc009xur.2_RNA	NM_018063	NP_060533	Q9NRZ9	HELLS_HUMAN	helicase, lymphoid-specific	707	Helicase C-terminal.				cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		GCCCAGGATAGATGTCATAGA	0.358													32	35					0	0	0.069456	0	0		A	96354483	A	A	96354483	3	1	181	1	0	0	0	0	1	0	0	0	7062	942	33	4	2194	4	HELLS	10	96354483	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	25903745	96354483	39180264	97	91916											
DHDPSL	112817	broad.mit.edu	37	chr10	99371384	99371384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgctgaggaggaggcactgCgcatggatttcaccagcaac	10	6	13	12	2	1	1	1	1	0	0	1	4	1	4	2	4	3	4	2	4	1	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr10:99371384C>T	uc001kny.2	+	7	1311	c.952C>T	c.(952-954)CGC>TGC	p.R318C	DHDPSL_uc001knz.2_Missense_Mutation_p.R155C|PI4K2A_uc010qoy.1_Intron	NM_138413	NP_612422	Q86XE5	HOGA1_HUMAN	DHDPS-like protein isoform 1	318					glyoxylate catabolic process	mitochondrion	4-hydroxy-2-oxoglutarate aldolase activity				0						GGAGGCACTGCGCATGGATTT	0.632													5	22					0	0	0.014758	0	0		T	99371384	T	T	99371384	3	4	181	1	0	0	0	0	1	0	0	0	4486	768	27	1	978	1	DHDPSL	10	99371384	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3016901	99371384	36163363	98	91917											
OR6A2	8590	broad.mit.edu	37	chr11	6816802	6816802	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggttcctaattgccataatGatgagtgtgttctcagtcag	9	15	10	7	0	2	2	2	2	1	0	4	2	3	2	2	1	1	2	2	1	2	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:6816802G>T	uc001mes.1	-	1	338	c.138C>A	c.(136-138)ATC>ATA	p.I46I		NM_003696	NP_003687	O95222	OR6A2_HUMAN	olfactory receptor, family 6, subfamily A,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TTGCCATAATGATGAGTGTGT	0.458													26	99					2.65835e-16	3.12909e-16	0.125774	1	0		T	6816802	T	T	6816802	2	4	181	1	0	0	0	0	0	0	0	1	11205	1280	45	5		5	OR6A2	11	6816802	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08		6816802	128189714	99	91918											
HIPK3	10114	broad.mit.edu	37	chr11	33375082	33375082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atactggatttccactgagtCcaacaaaactcagccagtat	14	10	6	11	0	1	1	1	1	0	0	3	2	3	2	3	1	4	1	3	1	5	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:33375082C>A	uc001mul.1	+	17	3886	c.3616C>A	c.(3616-3618)CCA>ACA	p.P1206T	HIPK3_uc001mum.1_Missense_Mutation_p.P1185T|HIPK3_uc009yjv.1_Missense_Mutation_p.P1185T	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	1206					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						TCCACTGAGTCCAACAAAACT	0.363													8	82					0.000157383	0.000162414	0.038147	1	0		A	33375082	A	A	33375082	3	1	181	1	0	0	0	0	1	0	0	0	7134	855	30	5	3678	5	HIPK3	11	33375082	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	26558280	33375082	101631434	100	91919											
F2	2147	broad.mit.edu	37	chr11	46750965	46750965	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atacaaggggcgggtgacagGctggggcaacctgaaggaga	12	4	18	7	1	0	3	0	2	0	1	0	4	0	3	1	7	2	2	1	7	4	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:46750965G>C	uc001ndf.3	+	12	1551	c.1508G>C	c.(1507-1509)GGC>GCC	p.G503A	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	503	Peptidase S1.				activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	CGGGTGACAGGCTGGGGCAAC	0.647													20	75					0	0	0.083992	0	0		C	46750965	C	C	46750965	3	2	181	1	0	0	0	0	1	0	0	0	5350	1203	42	5	1554	5	F2	11	46750965	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	13375883	46750965	88255551	101	91920											
LRP4	4038	broad.mit.edu	37	chr11	46912013	46912013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctggaggcctcaatacggGgggtgttgccccagtctgtc	5	10	15	11	1	2	0	1	0	1	0	3	1	2	1	3	5	3	2	3	5	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:46912013G>A	uc001ndn.3	-	14	1876	c.1730C>T	c.(1729-1731)CCC>CTC	p.P577L		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	577	Extracellular (Potential).|LDL-receptor class B 3.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CTCAATACGGGGGGTGTTGCC	0.537											OREG0020948	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	38					0	0	0.038147	0	0		A	46912013	A	A	46912013	3	1	181	1	0	0	0	0	1	0	0	0	8977	1232	43	4	4087	4	LRP4	11	46912013	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	161048	46912013	88094503	102	91921											
TNKS1BP1	85456	broad.mit.edu	37	chr11	57080878	57080878	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gactggagcacaccttcagaGaatcggcgctgaaccaggct	11	6	12	12	2	1	2	1	1	0	1	2	5	1	3	2	3	2	3	2	3	2	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:57080878G>A	uc001njr.2	-	4	1596	c.1284C>T	c.(1282-1284)TTC>TTT	p.F428F	TNKS1BP1_uc001njs.2_Silent_p.F428F|TNKS1BP1_uc009ymd.1_5'UTR	NM_033396	NP_203754	Q9C0C2	TB182_HUMAN	tankyrase 1-binding protein 1	428	Pro-rich.|Acidic.				nuclear-transcribed mRNA poly(A) tail shortening|telomere maintenance via telomerase	cytoskeleton|cytosol|nuclear telomeric heterochromatin	ankyrin binding|enzyme binding			skin(1)	1		all_epithelial(135;0.21)				CACCTTCAGAGAATCGGCGCT	0.657													9	40					0	0	0.047766	0	0		A	57080878	A	A	57080878	2	1	181	1	0	0	0	0	0	0	0	1	16345	933	33	4		4	TNKS1BP1	11	57080878	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	10168865	57080878	77925638	103	91922											
IGHMBP2	3508	broad.mit.edu	37	chr11	68679026	68679026	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cctggcactgggaaaaccacGactgtggttgagatcattct	10	10	11	10	1	2	1	1	1	1	1	2	4	2	2	2	3	1	2	2	3	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:68679026G>C	uc001ook.1	+	5	768	c.666G>C	c.(664-666)ACG>ACC	p.T222T	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	222					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GGAAAACCACGACTGTGGTTG	0.527													13	64					0	0	0.09319	0	0		C	68679026	C	C	68679026	2	2	181	1	0	0	0	0	0	0	0	1	7607	1045	37	5		5	IGHMBP2	11	68679026	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	11598148	68679026	66327490	104	91923											
C11orf30	56946	broad.mit.edu	37	chr11	76255390	76255390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagagatggacactttagacCctcagacaggtctgttttac	12	11	9	9	0	2	3	1	0	1	3	2	5	2	4	1	2	1	1	1	2	3	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:76255390C>T	uc001oxl.2	+	19	2940	c.2797C>T	c.(2797-2799)CCT>TCT	p.P933S	C11orf30_uc001oxm.2_Missense_Mutation_p.P835S|C11orf30_uc010rsb.1_Missense_Mutation_p.P948S|C11orf30_uc010rsc.1_Missense_Mutation_p.P934S|C11orf30_uc001oxn.2_Missense_Mutation_p.P934S|C11orf30_uc010rsd.1_Missense_Mutation_p.P842S|C11orf30_uc001oxo.1_Missense_Mutation_p.P287S|C11orf30_uc010rse.1_Missense_Mutation_p.P180S|C11orf30_uc001oxp.2_Missense_Mutation_p.P33S	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	933					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						CACTTTAGACCCTCAGACAGG	0.493													26	68					0	0	0.099896	0	0		T	76255390	T	T	76255390	3	4	181	1	0	0	0	0	1	0	0	0	1639	623	22	4	2867	4	C11orf30	11	76255390	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	7576364	76255390	58751126	105	91924											
FAT3	120114	broad.mit.edu	37	chr11	92087849	92087849	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	attcaagtggaagccagagaCaaagacttaggttctaatgg	15	9	11	6	0	2	2	1	0	1	2	2	4	2	3	1	3	1	1	1	3	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:92087849C>A	uc001pdj.3	+	1	2588	c.2571C>A	c.(2569-2571)GAC>GAA	p.D857E		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	857	Cadherin 8.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AAGCCAGAGACAAAGACTTAG	0.398										TCGA Ovarian(4;0.039)			19	45					3.32936e-07	3.63495e-07	0.175082	1	0		A	92087849	A	A	92087849	3	1	181	1	0	0	0	0	1	0	0	0	5705	477	17	5	2573	5	FAT3	11	92087849	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	15832459	92087849	42918667	106	91925											
CNTN5	53942	broad.mit.edu	37	chr11	99690317	99690317	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctccacttcatatgctgCtttgttaagaattaagaaga	12	15	6	8	0	2	3	1	0	1	3	4	3	3	3	1	0	2	3	1	0	5	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:99690317C>A	uc001pga.2	+	4	437	c.98C>A	c.(97-99)GCT>GAT	p.A33D	CNTN5_uc009ywv.1_Missense_Mutation_p.A33D|CNTN5_uc001pfz.2_Missense_Mutation_p.A33D|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	33					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		TCATATGCTGCTTTGTTAAGA	0.348													8	90					3.09899e-07	3.39986e-07	0.047766	1	0		A	99690317	A	A	99690317	3	1	181	1	0	0	0	0	1	0	0	0	3647	797	28	5	104	5	CNTN5	11	99690317	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	7602468	99690317	35316199	107	91926											
GRIA4	2893	broad.mit.edu	37	chr11	105850358	105850358	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatccatcactgggagtgtGggagagaatggccgcgtctt	8	11	14	8	2	2	1	1	0	1	1	3	4	3	3	2	3	0	0	2	3	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:105850358G>C	uc001pix.2	+	17	3047	c.2601G>C	c.(2599-2601)GTG>GTC	p.V867V	GRIA4_uc001piw.2_3'UTR|GRIA4_uc009yxl.1_RNA	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	867	Cytoplasmic (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	CTGGGAGTGTGGGAGAGAATG	0.507													22	71					0	0	0.069288	0	0		C	105850358	C	C	105850358	2	2	181	1	0	0	0	0	0	0	0	1	6786	1335	47	5		5	GRIA4	11	105850358	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	6160041	105850358	29156158	108	91927											
CUL5	8065	broad.mit.edu	37	chr11	107965145	107965145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatgccagcggattatgtaAacaagcttgctagaatgttt	12	13	10	6	1	0	1	0	0	0	1	0	2	0	2	1	1	5	5	1	1	7	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:107965145A>G	uc001pjv.2	+	14	2138	c.1471A>G	c.(1471-1473)AAC>GAC	p.N491D	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	491					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		GGATTATGTAAACAAGCTTGC	0.299													17	54					0	0	0.160694	0	0		G	107965145	G	G	107965145	3	3	181	1	0	0	0	0	1	0	0	0	4062	14	1	3	1525	3	CUL5	11	107965145	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	2114787	107965145	27041371	109	91928											
BUD13	84811	broad.mit.edu	37	chr11	116619288	116619288	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcttctgttcaaatccattGgatctgcaatcaaaagagac	13	11	7	10	1	4	1	2	0	2	1	5	3	5	2	1	1	1	3	1	1	4	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:116619288G>C	uc001ppn.2	-	10	1804	c.1770C>G	c.(1768-1770)TCC>TCG	p.S590S	BUD13_uc001ppo.2_Silent_p.S456S	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	590										large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		CAAATCCATTGGATCTGCAAT	0.433													18	50					0	0	0.049695	0	0		C	116619288	C	C	116619288	2	2	181	1	0	0	0	0	0	0	0	1	1576	1335	47	5		5	BUD13	11	116619288	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	8654143	116619288	18387228	110	91929											
ARHGEF12	23365	broad.mit.edu	37	chr11	120352120	120352120	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcagaatactcactcCgatggggcaatttcaccatt	10	12	6	13	1	4	1	3	0	1	1	6	2	5	1	3	2	1	1	3	2	3	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:120352120C>A	uc001pxl.1	+	39	4396	c.4389C>A	c.(4387-4389)TCC>TCA	p.S1463S	ARHGEF12_uc009zau.1_Silent_p.S1360S	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	Rho guanine nucleotide exchange factor (GEF) 12	1463					apoptosis|axon guidance|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(2)|breast(2)|skin(2)|ovary(1)	7		Breast(109;0.000813)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.0831)|all_hematologic(192;0.107)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.231)		ATACTCACTCCGATGGGGCAA	0.537			T	MLL	AML								26	64					7.92952e-12	9.09681e-12	0.0918	1	0		A	120352120	A	A	120352120	2	1	181	1	0	0	0	0	0	0	0	1	897	639	23	5		5	ARHGEF12	11	120352120	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3732832	120352120	14654396	111	91930											
OR8B3	390271	broad.mit.edu	37	chr11	124266663	124266663	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaatgagaacaaccacctcGttgacataggtgctggtgca	13	8	10	10	1	0	2	0	2	0	1	1	3	0	2	2	2	4	3	2	2	4	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:124266663G>A	uc010saj.1	-	1	585	c.585C>T	c.(583-585)AAC>AAT	p.N195N	OR8B2_uc001qab.3_Intron	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	195	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		CAACCACCTCGTTGACATAGG	0.428													28	101					0	0	0.144211	0	0		A	124266663	A	A	124266663	2	1	181	1	0	0	0	0	0	0	0	1	11247	1136	40	1		1	OR8B3	11	124266663	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	3914543	124266663	10739853	112	91931											
GLB1L2	89944	broad.mit.edu	37	chr11	134238567	134238567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaaccgtgtctgccattgtgGacgccggctcctccatcaac	8	9	9	15	3	2	0	1	0	1	0	4	1	4	1	5	2	3	1	5	2	2	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr11:134238567G>A	uc001qhp.2	+	10	1107	c.919G>A	c.(919-921)GAC>AAC	p.D307N	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	307					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TGCCATTGTGGACGCCGGCTC	0.527													15	74					0	0	0.11911	0	0		A	134238567	A	A	134238567	3	1	181	1	0	0	0	0	1	0	0	0	6444	1174	41	4	957	4	GLB1L2	11	134238567	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	9971904	134238567	767949	113	91932											
KCNA5	3741	broad.mit.edu	37	chr12	5154411	5154411	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcgatgtggtggccatcttCccctacttcatcaccctggg	6	12	9	14	1	3	0	2	0	1	0	5	1	4	0	4	3	1	0	4	3	1	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:5154411C>A	uc001qni.2	+	1	1327	c.1098C>A	c.(1096-1098)TTC>TTA	p.F366L		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	366	Helical; Name=Segment S3; (Potential).					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TGGCCATCTTCCCCTACTTCA	0.622													31	96					1.38854e-25	1.66037e-25	0.134883	1	0		A	5154411	A	A	5154411	3	1	181	1	0	0	0	0	1	0	0	0	8022	854	30	5	1100	5	KCNA5	12	5154411	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08		5154411	128697484	114	91933											
LOH12CR1	118426	broad.mit.edu	37	chr12	12588569	12588569	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctcctttgaagggctattGagtggccagacttccccaac	8	12	9	12	0	1	3	0	2	1	1	3	3	2	3	4	2	1	1	4	2	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:12588569G>C	uc001ral.2	+	3	576	c.210G>C	c.(208-210)TTG>TTC	p.L70F	LOH12CR1_uc009zhu.2_Missense_Mutation_p.L22F	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12	70										ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		AAGGGCTATTGAGTGGCCAGA	0.403													8	56					0	0	0.038147	0	0		C	12588569	C	C	12588569	3	2	181	1	0	0	0	0	1	0	0	0	8909	1281	45	5	220	5	LOH12CR1	12	12588569	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	7434158	12588569	121263326	115	91934											
GPRC5A	9052	broad.mit.edu	37	chr12	13061936	13061936	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctccgccttggctgcCaatggctgggtgttcctgtt	3	13	12	13	1	1	0	1	0	0	0	3	0	3	0	4	3	2	5	4	3	1	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:13061936C>T	uc001rba.2	+	2	1403	c.753C>T	c.(751-753)GCC>GCT	p.A251A	GPRC5A_uc001raz.2_Silent_p.A251A	NM_003979	NP_003970	Q8NFJ5	RAI3_HUMAN	G protein-coupled receptor, family C, group 5,	251	Helical; Name=7; (Potential).					cytoplasmic vesicle membrane|Golgi apparatus|integral to plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.141)		BRCA - Breast invasive adenocarcinoma(232;0.0708)	Tretinoin(DB00755)	CCTTGGCTGCCAATGGCTGGG	0.537													13	72					0	0	0.09319	0	0		T	13061936	T	T	13061936	2	4	181	1	0	0	0	0	0	0	0	1	6740	581	21	4		4	GPRC5A	12	13061936	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	473367	13061936	120789959	116	91935											
CASC1	55259	broad.mit.edu	37	chr12	25263069	25263069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacatatcataccttaaataCgacttttgtagaattacata	16	15	3	7	1	1	1	1	0	0	1	1	2	1	1	1	0	4	1	1	0	10	10	rs150985883		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:25263069C>T	uc001rgl.2	-	14	1949	c.1867G>A	c.(1867-1869)GTA>ATA	p.V623I	CASC1_uc001rgk.2_Missense_Mutation_p.V629I|CASC1_uc001rgm.3_Missense_Mutation_p.V687I|CASC1_uc001rgj.2_Missense_Mutation_p.V583I|CASC1_uc010sje.1_Missense_Mutation_p.V564I|CASC1_uc010sjf.1_Missense_Mutation_p.V511I	NM_001082973	NP_001076442	Q6TDU7	CASC1_HUMAN	cancer susceptibility candidate 1 isoform b	623										ovary(2)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Melanoma(3;0.0301)|Colorectal(261;0.11)		OV - Ovarian serous cystadenocarcinoma(3;7.42e-20)|Epithelial(3;7.58e-16)|all cancers(3;1.07e-13)			ACCTTAAATACGACTTTTGTA	0.373													13	47					0	0	0.105934	0	0		T	25263069	T	T	25263069	3	4	181	1	0	0	0	0	1	0	0	0	2663	536	19	1	291	1	CASC1	12	25263069	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	12201133	25263069	108588826	117	91936											
CPNE8	144402	broad.mit.edu	37	chr12	39047804	39047804	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggatctcagctaggacatcTttagccaatctagccatgct	10	11	9	11	0	3	0	1	0	3	0	4	2	3	2	2	2	4	2	2	2	4	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:39047804T>C	uc001rls.1	-	20	1659	c.1575A>G	c.(1573-1575)AAA>AAG	p.K525K	CPNE8_uc001rlr.1_Silent_p.K184K	NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	525										pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				CTAGGACATCTTTAGCCAATC	0.463													9	48					0	0	0.047766	0	0		C	39047804	C	C	39047804	2	2	181	1	0	0	0	0	0	0	0	1	3821	1606	56	3		3	CPNE8	12	39047804	Silent	SNP	T	TCGA-D7-8572-01A-11D-2340-08	13784735	39047804	94804091	118	91937											
CSRNP2	81566	broad.mit.edu	37	chr12	51470289	51470289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgagttggaaactgatgagCccacatccacatcatcaaac	14	8	7	12	0	2	3	2	3	0	0	3	4	3	4	2	1	3	1	2	1	2	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:51470289C>T	uc001rxu.1	-	2	354	c.56G>A	c.(55-57)GGC>GAC	p.G19D		NM_030809	NP_110436	Q9H175	CSRN2_HUMAN	TGF-beta induced apoptosis protein 12	19					apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						AACTGATGAGCCCACATCCAC	0.532													17	101					0	0	0.160694	0	0		T	51470289	T	T	51470289	3	4	181	1	0	0	0	0	1	0	0	0	3967	739	26	2	1591	2	CSRNP2	12	51470289	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	12422485	51470289	82381606	119	91938											
KRT73	319101	broad.mit.edu	37	chr12	53009973	53009973	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttgtagtcctccaccacTtcgcgcacgctcctcagctc	5	12	6	18	3	2	0	1	0	1	0	7	0	5	0	4	0	1	4	4	0	1	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:53009973T>A	uc001sas.2	-	2	674	c.639A>T	c.(637-639)GAA>GAT	p.E213D		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	213	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CCTCCACCACTTCGCGCACGC	0.622													26	83					0	0	0.0918	0	0		A	53009973	A	A	53009973	3	1	181	1	0	0	0	0	1	0	0	0	8502	1606	56	5	1015	5	KRT73	12	53009973	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	1539684	53009973	80841922	120	91939											
ESYT1	23344	broad.mit.edu	37	chr12	56525997	56525997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctactcccccattcagctcaCtctctgacaccatgatcatg	9	11	4	17	0	4	2	3	2	1	0	6	2	5	2	3	0	2	1	3	0	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:56525997C>T	uc001sjq.2	+	8	915	c.865C>T	c.(865-867)CTC>TTC	p.L289F	ESYT1_uc001sjr.2_Missense_Mutation_p.L289F	NM_015292	NP_056107	Q9BSJ8	ESYT1_HUMAN	extended synaptotagmin-like protein 1	289						integral to membrane				ovary(4)|skin(1)	5						ATTCAGCTCACTCTCTGACAC	0.507													52	221					0	0	0.139131	0	0		T	56525997	T	T	56525997	3	4	181	1	0	0	0	0	1	0	0	0	5272	565	20	4	895	4	ESYT1	12	56525997	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3516024	56525997	77325898	121	91940											
COQ10A	93058	broad.mit.edu	37	chr12	56664067	56664067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaaacagccatcccccGtgaactgatgttccatgagg	11	8	9	13	1	0	4	0	3	0	1	3	4	3	4	5	1	3	1	5	1	2	1	rs148374703	by1000genomes	TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:56664067G>A	uc001sko.3	+	5	971	c.710G>A	c.(709-711)CGT>CAT	p.R237H	COQ10A_uc001skp.3_Missense_Mutation_p.R205H|COQ10A_uc001skq.3_Missense_Mutation_p.R220H	NM_144576	NP_653177	Q96MF6	CQ10A_HUMAN	coenzyme Q10 homolog A isoform a	237						mitochondrial inner membrane				ovary(1)	1						GCCATCCCCCGTGAACTGATG	0.507													22	105					0	0	0.069288	0	0		A	56664067	A	A	56664067	3	1	181	1	0	0	0	0	1	0	0	0	3746	1145	40	1	770	1	COQ10A	12	56664067	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	138070	56664067	77187828	122	91941											
NAV3	89795	broad.mit.edu	37	chr12	78513117	78513117	+	Silent	SNP	T	C	C	0	1	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	gcaggaaaaagcagtggagaTgaagggaaaaagcccccctc	16	3	13	9	0	0	2	0	1	0	1	1	5	0	4	3	3	2	2	3	3	5	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:78513117T>C	uc001syp.2	+	15	3314	c.3141T>C	c.(3139-3141)GAT>GAC	p.D1047D	NAV3_uc001syo.2_Silent_p.D1047D|NAV3_uc010sub.1_Silent_p.D547D|NAV3_uc009zsf.2_Silent_p.D55D	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1047	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity	p.D1047N(1)		large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						GCAGTGGAGATGAAGGGAAAA	0.478										HNSCC(70;0.22)			27	117					0	0	0.0918	0	0		C	78513117	C	C	78513117	2	2	181	1	0	0	0	0	0	0	0	1	10203	1461	51	3		3	NAV3	12	78513117	Silent	SNP	T	TCGA-D7-8572-01A-11D-2340-08	21849050	78513117	55338778	123	91942											
UBE3B	89910	broad.mit.edu	37	chr12	109972568	109972568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctacgccatcagcatgaacaCgggctttgaactctcctagc	10	9	8	14	2	2	2	1	2	1	0	3	2	2	2	2	1	5	2	2	1	4	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:109972568C>T	uc001top.2	+	28	3791	c.3188C>T	c.(3187-3189)ACG>ATG	p.T1063M	UBE3B_uc001toq.2_Missense_Mutation_p.T1063M|UBE3B_uc001tos.2_Missense_Mutation_p.T490M|UBE3B_uc001tot.2_Missense_Mutation_p.T181M|UBE3B_uc010sxp.1_3'UTR	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	1063	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						AGCATGAACACGGGCTTTGAA	0.617													7	60					0	0	0.038147	0	0		T	109972568	T	T	109972568	3	4	181	1	0	0	0	0	1	0	0	0	16906	536	19	1	3290	1	UBE3B	12	109972568	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	31459451	109972568	23879327	124	91943											
GLTP	51228	broad.mit.edu	37	chr12	110318161	110318161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcagcggcttcagcaagtGttcggccagcagcgccattt	7	8	14	12	3	1	0	1	0	0	0	2	0	1	0	2	3	4	5	2	3	1	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:110318161G>A	uc001tpm.2	-	1	133	c.19C>T	c.(19-21)CAC>TAC	p.H7Y	GLTP_uc010sxt.1_RNA	NM_016433	NP_057517	Q9NZD2	GLTP_HUMAN	glycolipid transfer protein	7						cytoplasm	glycolipid binding|glycolipid transporter activity				0		Lung NSC(355;2.38e-06)|Breast(359;0.00354)|Myeloproliferative disorder(1001;0.0122)		BRCA - Breast invasive adenocarcinoma(302;0.0025)		TTCAGCAAGTGTTCGGCCAGC	0.483													5	19					0	0	0.021553	0	0		A	110318161	A	A	110318161	3	1	181	1	0	0	0	0	1	0	0	0	6486	1377	48	4	630	4	GLTP	12	110318161	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	345593	110318161	23533734	125	91944											
TCHP	84260	broad.mit.edu	37	chr12	110350867	110350867	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcgcagcgcacgggacagacTgatgagcgaggtaatcccag	11	4	15	11	4	0	3	0	2	0	1	1	5	1	4	1	2	2	3	1	2	1	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:110350867T>A	uc001tpn.2	+	10	1277	c.1124T>A	c.(1123-1125)CTG>CAG	p.L375Q	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.L375Q	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	375	Trichohyalin/plectin homology domain.|Glu-rich.|Interaction with keratin proteins.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						CGGGACAGACTGATGAGCGAG	0.607													7	31					0	0	0.038147	0	0		A	110350867	A	A	110350867	3	1	181	1	0	0	0	0	1	0	0	0	15727	1580	55	5	1158	5	TCHP	12	110350867	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	32706	110350867	23501028	126	91945											
RPLP0	6175	broad.mit.edu	37	chr12	120635143	120635143	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accttttcagcaagtgggaaGgtgtaatccgtctccacaga	11	10	10	10	1	2	1	1	0	1	1	4	2	3	2	3	2	1	2	3	2	3	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr12:120635143G>C	uc001txp.2	-	7	1011	c.774C>G	c.(772-774)ACC>ACG	p.T258T	GCN1L1_uc001txo.2_5'Flank|RPLP0_uc001txq.2_Silent_p.T258T|RPLP0_uc001txr.2_Silent_p.T196T	NM_053275	NP_444505	P05388	RLA0_HUMAN	ribosomal protein P0	258					endocrine pancreas development|interspecies interaction between organisms|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAAGTGGGAAGGTGTAATCCG	0.498													12	40					0	0	0.080935	0	0		C	120635143	C	C	120635143	2	2	181	1	0	0	0	0	0	0	0	1	13629	987	35	5		5	RPLP0	12	120635143	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	10284276	120635143	13216752	127	91946											
PCDH9	5101	broad.mit.edu	37	chr13	67800353	67800353	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacatcagtaggtgctggTttttcttccagagtaatgtt	8	15	9	9	0	2	1	1	0	1	1	3	1	3	1	2	2	1	5	2	2	2	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr13:67800353T>C	uc001vik.2	-	2	2912	c.2220A>G	c.(2218-2220)AAA>AAG	p.K740K	PCDH9_uc001vil.2_Silent_p.K740K|PCDH9_uc010thl.1_Silent_p.K740K|PCDH9_uc001vin.3_Silent_p.K740K	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	740	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		TAGGTGCTGGTTTTTCTTCCA	0.423													18	91					0	0	0.160694	0	0		C	67800353	C	C	67800353	2	2	181	1	0	0	0	0	0	0	0	1	11537	1722	60	3		3	PCDH9	13	67800353	Silent	SNP	T	TCGA-D7-8572-01A-11D-2340-08		67800353	47369525	128	91947											
LMO7	4008	broad.mit.edu	37	chr13	76381790	76381790	+	Silent	SNP	C	T	T	0	0	0	1	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	atggcagccctggatcctgaCttagagaatgatgatttctt	10	13	10	8	0	1	4	0	3	1	1	2	6	2	5	2	2	1	1	2	2	2	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr13:76381790C>T	uc001vjv.2	+	7	1432	c.672C>T	c.(670-672)GAC>GAT	p.D224D	LMO7_uc010thv.1_Intron|LMO7_uc001vjt.1_Intron|LMO7_uc010thw.1_Intron|LMO7_uc001vjw.1_Silent_p.D130D	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	509						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		TGGATCCTGACTTAGAGAATG	0.463													18	72					0	0	0.160694	0	0		T	76381790	T	T	76381790	2	4	181	1	0	0	0	0	0	0	0	1	8872	564	20	4		4	LMO7	13	76381790	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	8581437	76381790	38788088	129	91948											
SLITRK6	84189	broad.mit.edu	37	chr13	86370408	86370408	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaaaagtcatttgtgtgaAgcatcgtcaagccgttattt	12	13	9	7	2	2	2	2	1	0	1	3	2	2	2	1	0	2	2	1	0	5	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr13:86370408A>C	uc001vll.1	-	2	695	c.236T>G	c.(235-237)CTT>CGT	p.L79R	SLITRK6_uc010afe.1_5'Flank	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	79	Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		ATTTGTGTGAAGCATCGTCAA	0.373													32	158					0	0	0.163468	0	0		C	86370408	C	C	86370408	3	2	181	1	0	0	0	0	1	0	0	0	14772	72	3	5	2293	5	SLITRK6	13	86370408	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	9988618	86370408	28799470	130	91949											
GPC5	2262	broad.mit.edu	37	chr13	93518574	93518574	+	Missense_Mutation	SNP	T	G	G	0	1	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	cttcagtgatgtaaagcaaaTccatcaaacagacactggca	16	8	7	10	0	2	2	2	1	0	1	3	2	3	2	1	1	2	3	1	1	4	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr13:93518574T>G	uc010tif.1	+	8	1967	c.1601T>G	c.(1600-1602)ATC>AGC	p.I534S		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	534						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				GTAAAGCAAATCCATCAAACA	0.428													19	96					0	0	0.043863	0	0		G	93518574	G	G	93518574	3	3	181	1	0	0	0	0	1	0	0	0	6616	1435	50	5	1631	5	GPC5	13	93518574	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	7148166	93518574	21651304	131	91950											
NALCN	259232	broad.mit.edu	37	chr13	101717887	101717887	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcagtagccgcagcaggaaCttgacgcggaacgtggggat	10	5	16	10	5	0	1	0	1	0	0	0	4	0	4	1	4	4	4	1	4	3	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr13:101717887C>T	uc001vox.1	-	40	4662	c.4473G>A	c.(4471-4473)AAG>AAA	p.K1491K		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1491	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GCAGCAGGAACTTGACGCGGA	0.532													20	57					0	0	0.055883	0	0		T	101717887	T	T	101717887	2	4	181	1	0	0	0	0	0	0	0	1	10166	564	20	4		4	NALCN	13	101717887	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	8199313	101717887	13451991	132	91951											
CHD8	57680	broad.mit.edu	37	chr14	21862288	21862288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgccgaagcaattctataCggtagagagtccgtgaggct	11	8	13	9	4	1	2	0	1	1	1	2	4	2	2	2	2	3	3	2	2	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr14:21862288C>T	uc001was.1	-	32	4923	c.4829G>A	c.(4828-4830)CGT>CAT	p.R1610H	CHD8_uc001war.1_Missense_Mutation_p.R1506H|SNORD9_uc001wat.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1889					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CAATTCTATACGGTAGAGAGT	0.512													17	56					0	0	0.160694	0	0		T	21862288	T	T	21862288	3	4	181	1	0	0	0	0	1	0	0	0	3334	536	19	1	2107	1	CHD8	14	21862288	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08		21862288	85487252	133	91952											
NUBPL	80224	broad.mit.edu	37	chr14	32034253	32034253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcactagcagcgaacgattCggtaggtgtttattaataga	12	12	11	6	3	0	1	0	0	0	1	1	3	0	1	0	2	4	4	0	2	6	7	rs35433432		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr14:32034253C>T	uc001wrk.3	+	3	345	c.290C>T	c.(289-291)TCG>TTG	p.S97L	NUBPL_uc010amj.2_RNA	NM_025152	NP_079428	Q8TB37	NUBPL_HUMAN	nucleotide binding protein-like	97					mitochondrial respiratory chain complex I assembly|mitochondrion morphogenesis	mitochondrion	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding				0	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.214)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0677)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0102)		GCGAACGATTCGGTAGGTGtt	0.244													18	51					0	0	0.043863	0	0		T	32034253	T	T	32034253	3	4	181	1	0	0	0	0	1	0	0	0	10736	898	31	1	300	1	NUBPL	14	32034253	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	10171965	32034253	75315287	134	91953											
SRP54	6729	broad.mit.edu	37	chr14	35483028	35483028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcgctgccacaaaaagtcCgattattttcattggtacag	12	12	8	9	2	1	0	1	0	0	0	3	1	2	0	2	1	2	2	2	1	4	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr14:35483028C>T	uc001wso.2	+	10	1157	c.806C>T	c.(805-807)CCG>CTG	p.P269L	SRP54_uc010tpp.1_Missense_Mutation_p.P220L|SRP54_uc010tpq.1_Missense_Mutation_p.P205L	NM_003136	NP_003127	P61011	SRP54_HUMAN	signal recognition particle 54kDa isoform 1	269	G-domain.				GTP catabolic process|response to drug|SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|SRP-dependent cotranslational protein targeting to membrane, translocation	cytosol|nuclear speck|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|drug binding|endoplasmic reticulum signal peptide binding|GDP binding|GTP binding|nucleoside-triphosphatase activity|ribonucleoprotein binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;2.48e-05)|Lung(238;3.13e-05)|Epithelial(34;0.0314)|all cancers(34;0.0797)|BRCA - Breast invasive adenocarcinoma(188;0.243)	GBM - Glioblastoma multiforme(112;0.0396)		ACAAAAAGTCCGATTATTTTC	0.368													17	81					0	0	0.160694	0	0		T	35483028	T	T	35483028	3	4	181	1	0	0	0	0	1	0	0	0	15180	652	23	1	840	1	SRP54	14	35483028	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3448775	35483028	71866512	135	91954											
SPTB	6710	broad.mit.edu	37	chr14	65251009	65251009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttcatgggaagccagctctgCcacaaacgcctggtgcttta	9	10	10	12	1	2	0	1	0	1	0	2	1	2	1	3	2	5	2	3	2	3	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr14:65251009C>T	uc001xht.2	-	18	4012	c.3958G>A	c.(3958-3960)GCA>ACA	p.A1320T	SPTB_uc001xhr.2_Missense_Mutation_p.A1320T|SPTB_uc001xhs.2_Missense_Mutation_p.A1320T|SPTB_uc001xhu.2_Missense_Mutation_p.A1320T|SPTB_uc010aqi.2_5'Flank	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1320	Spectrin 10.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GCCAGCTCTGCCACAAACGCC	0.522													25	76					0	0	0.076483	0	0		T	65251009	T	T	65251009	3	4	181	1	0	0	0	0	1	0	0	0	15143	739	26	2	3169	2	SPTB	14	65251009	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	29767981	65251009	42098531	136	91955											
OCA2	4948	broad.mit.edu	37	chr15	28260028	28260028	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gagccatcaaaagagggacaGcctgggtctgctgcagggag	11	5	16	9	0	2	1	1	0	1	1	2	4	2	3	2	3	4	2	2	3	2	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr15:28260028G>A	uc001zbh.3	-	9	1048	c.938C>T	c.(937-939)GCT>GTT	p.A313V	OCA2_uc010ayv.2_Missense_Mutation_p.A313V	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	313	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		AAGAGGGACAGCCTGGGTCTG	0.577									Oculocutaneous_Albinism				8	30					0	0	0.047766	0	0		A	28260028	A	A	28260028	3	1	181	1	0	0	0	0	1	0	0	0	10834	971	34	2	1642	2	OCA2	15	28260028	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		28260028	74271364	137	91956											
TJP1	7082	broad.mit.edu	37	chr15	30019161	30019161	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catagttaagacgatcaactGcatttggtgttacatctaat	13	14	7	7	1	2	1	1	0	1	1	2	2	2	1	0	1	3	3	0	1	5	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr15:30019161G>T	uc001zcr.2	-	17	2610	c.2135C>A	c.(2134-2136)GCA>GAA	p.A712E	TJP1_uc010azl.2_Missense_Mutation_p.A700E|TJP1_uc001zcq.2_Missense_Mutation_p.A716E|TJP1_uc001zcs.2_Missense_Mutation_p.A712E	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	712	Guanylate kinase-like.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		ACGATCAACTGCATTTGGTGT	0.328													23	112					6.36457e-07	6.88227e-07	0.0918	1	0		T	30019161	T	T	30019161	3	4	181	1	0	0	0	0	1	0	0	0	15954	1319	46	5	3159	5	TJP1	15	30019161	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	1759133	30019161	72512231	138	91957											
FBN1	2200	broad.mit.edu	37	chr15	48829849	48829849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatttggaatgaagccacggCggcaggggtgaggctgggca	9	7	18	7	2	0	2	0	2	0	0	0	3	0	3	1	7	1	3	1	7	3	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr15:48829849C>T	uc001zwx.1	-	7	1023	c.695G>A	c.(694-696)CGC>CAC	p.R232H		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	232	TB 1.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GAAGCCACGGCGGCAGGGGTG	0.552													19	95					0	0	0.043863	0	0		T	48829849	T	T	48829849	3	4	181	1	0	0	0	0	1	0	0	0	5716	768	27	1	8160	1	FBN1	15	48829849	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	18810688	48829849	53701543	139	91958											
GABPB1	2553	broad.mit.edu	37	chr15	50570977	50570977	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gctgtttctgaagagcttctCtctcctaattaaaagaagag	12	13	8	8	0	3	4	0	1	3	3	5	4	3	4	1	0	1	3	1	0	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr15:50570977C>G	uc001zyb.2	-	9	1464	c.1040G>C	c.(1039-1041)AGA>ACA	p.R347T	GABPB1_uc001zya.2_Missense_Mutation_p.R335T|GABPB1_uc010ufg.1_Missense_Mutation_p.R271T	NM_005254	NP_005245	Q06547	GABP1_HUMAN	GA binding protein transcription factor, beta	347					positive regulation of transcription from RNA polymerase II promoter	nucleus	protein binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)	1						AAGAGCTTCTCTCTCCTAATT	0.338													5	66					0	0	0.014758	0	0		G	50570977	G	G	50570977	3	3	181	1	0	0	0	0	1	0	0	0	6172	913	32	5	151	5	GABPB1	15	50570977	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	1741128	50570977	51960415	140	91959											
HERC1	8925	broad.mit.edu	37	chr15	63984726	63984726	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagaaaaactaaaaaatccCctagatggagttcggctgca	17	7	9	8	1	0	2	0	0	0	2	2	4	1	3	2	2	2	3	2	2	7	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr15:63984726C>A	uc002amp.2	-	31	5862	c.5714G>T	c.(5713-5715)GGG>GTG	p.G1905V		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	1905					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TAAAAAATCCCCTAGATGGAG	0.388													12	28					6.40141e-05	6.63633e-05	0.080935	1	0		A	63984726	A	A	63984726	3	1	181	1	0	0	0	0	1	0	0	0	7073	623	22	5	9063	5	HERC1	15	63984726	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	13413749	63984726	38546666	141	91960											
SNUPN	10073	broad.mit.edu	37	chr15	75901916	75901916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taccttttgctgttgagtttCgcctgttgcctcctggcaga	4	16	10	11	1	0	2	0	1	0	1	2	2	1	2	4	1	3	5	4	1	1	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr15:75901916C>T	uc002ban.2	-	5	575	c.485G>A	c.(484-486)CGA>CAA	p.R162Q	SNUPN_uc002bao.2_Missense_Mutation_p.R162Q|SNUPN_uc002bap.2_Missense_Mutation_p.R204Q|SNUPN_uc002baq.2_Missense_Mutation_p.R162Q|SNUPN_uc002bar.2_Missense_Mutation_p.R162Q|SNUPN_uc002bas.2_Missense_Mutation_p.R162Q	NM_005701	NP_005692	O95149	SPN1_HUMAN	snurportin 1	162					ncRNA metabolic process|protein import into nucleus|spliceosomal snRNP assembly	cytosol|nuclear pore	protein transporter activity|RNA cap binding			pancreas(1)	1						TGTTGAGTTTCGCCTGTTGCC	0.403													5	76					0	0	0.014758	0	0		T	75901916	T	T	75901916	3	4	181	1	0	0	0	0	1	0	0	0	14902	884	31	1	617	1	SNUPN	15	75901916	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	11917190	75901916	26629476	142	91961											
CCNF	899	broad.mit.edu	37	chr16	2482985	2482985	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactcccagctgaaggacctGgtggacaaccacgccagtgt	10	6	11	14	1	0	1	0	1	0	0	1	3	1	3	4	3	2	1	4	3	2	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr16:2482985G>C	uc002cqd.1	+	3	283	c.195G>C	c.(193-195)CTG>CTC	p.L65L	CCNF_uc002cqe.1_Intron	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	65	F-box.				cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				TGAAGGACCTGGTGGACAACC	0.612													4	17					0	0	0.014758	0	0		C	2482985	C	C	2482985	2	2	181	1	0	0	0	0	0	0	0	1	2925	1335	47	5		5	CCNF	16	2482985	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08		2482985	87871768	143	91962											
SRRM2	23524	broad.mit.edu	37	chr16	2814071	2814071	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatgctactgcatcacctcCtagacagaaagacaaattta	15	9	7	10	0	1	3	1	0	0	3	2	4	2	4	2	1	3	2	2	1	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr16:2814071C>G	uc002crk.2	+	11	4091	c.3542C>G	c.(3541-3543)CCT>CGT	p.P1181R	SRRM2_uc002crj.1_Missense_Mutation_p.P1085R|SRRM2_uc002crl.1_Missense_Mutation_p.P1181R|SRRM2_uc010bsu.1_Missense_Mutation_p.P1085R	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	1181	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCATCACCTCCTAGACAGAAA	0.473													8	159					0	0	0.038147	0	0		G	2814071	G	G	2814071	3	3	181	1	0	0	0	0	1	0	0	0	15194	681	24	5	3580	5	SRRM2	16	2814071	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	331086	2814071	87540682	144	91963											
KIAA0430	9665	broad.mit.edu	37	chr16	15719275	15719275	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ttgtagcagatccagaatttGcctgtgacccttttccaggc	8	13	9	11	0	0	3	0	1	0	2	2	3	2	3	4	1	2	2	4	1	2	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr16:15719275G>C	uc002ddr.2	-	8	2100	c.1907C>G	c.(1906-1908)GCA>GGA	p.A636G	KIAA0430_uc002ddq.2_Intron|KIAA0430_uc010uzv.1_Missense_Mutation_p.A632G|KIAA0430_uc010uzw.1_Missense_Mutation_p.A634G	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	635						peroxisome	nucleotide binding|RNA binding				0						TCCAGAATTTGCCTGTGACCC	0.373													17	83					0	0	0.043863	0	0		C	15719275	C	C	15719275	3	2	181	1	0	0	0	0	1	0	0	0	8193	1319	46	5	3404	5	KIAA0430	16	15719275	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	12905204	15719275	74635478	145	91964											
DNAH3	55567	broad.mit.edu	37	chr16	21108730	21108730	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataggctgtcgaccacagctGctcataaggtactttgttct	9	13	9	10	1	2	0	1	0	1	0	3	1	2	0	1	2	3	5	1	2	3	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr16:21108730G>A	uc010vbe.1	-	18	2611	c.2611C>T	c.(2611-2613)CAG>TAG	p.Q871*		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	871	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GACCACAGCTGCTCATAAGGT	0.483													29	120					0	0	0.134883	0	0		A	21108730	A	A	21108730	4	1	181	1	0	0	0	0	0	1	0	0	4609	1328	46	2	9918	2	DNAH3	16	21108730	Nonsense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	5389455	21108730	69246023	146	91965											
CDH1	999	broad.mit.edu	37	chr16	68847282	68847282	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cactgaaagtgactgatgctGatgcccccaataccccagcg	11	7	9	14	1	0	4	0	4	0	0	0	4	0	4	4	0	4	1	4	0	3	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr16:68847282G>C	uc002ewg.1	+	9	1328	c.1204G>C	c.(1204-1206)GAT>CAT	p.D402H	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Intron	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	402	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.Y380_K440del(5)|p.D402N(2)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		GACTGATGCTGATGCCCCCAA	0.473			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				14	170					0	0	0.105934	0	0		C	68847282	C	C	68847282	3	2	181	1	0	0	0	0	1	0	0	0	3098	1290	45	5	1238	5	CDH1	16	68847282	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	47738552	68847282	21507471	147	91966											
GLG1	2734	broad.mit.edu	37	chr16	74524978	74524978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgtagggtccgcccttttCgatgtaatccggaacaatgg	9	11	12	9	3	0	0	0	0	0	0	3	2	2	1	3	3	1	2	3	3	4	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr16:74524978C>T	uc002fcy.3	-	8	1420	c.1370G>A	c.(1369-1371)CGA>CAA	p.R457Q	GLG1_uc002fcx.2_Missense_Mutation_p.R457Q|GLG1_uc002fcw.3_Missense_Mutation_p.R446Q|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	457	Extracellular (Potential).|Cys-rich GLG1 6.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						CCGCCCTTTTCGATGTAATCC	0.507													35	117					0	0	0.163468	0	0		T	74524978	T	T	74524978	3	4	181	1	0	0	0	0	1	0	0	0	6451	884	31	1	2325	1	GLG1	16	74524978	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	5677696	74524978	15829775	148	91967											
SCARF1	8578	broad.mit.edu	37	chr17	1538386	1538386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcttgaccttggcttccGcctggcctttctggaagcta	4	13	9	15	1	2	1	0	1	2	0	3	2	3	2	5	3	1	2	5	3	2	5	rs144425748	byFrequency	TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:1538386G>T	uc002fsz.1	-	11	2209	c.2159C>A	c.(2158-2160)GCG>GAG	p.A720E	SCARF1_uc002fsy.1_3'UTR|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.A634E	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	720	Gly-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CTTGGCTTCCGCCTGGCCTTT	0.632													15	40					2.23348e-06	2.39226e-06	0.146539	1	0		T	1538386	T	T	1538386	3	4	181	1	0	0	0	0	1	0	0	0	13908	1087	38	5	337	5	SCARF1	17	1538386	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		1538386	79656824	149	91968											
ZZEF1	23140	broad.mit.edu	37	chr17	3920947	3920947	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatagctctgctgcagttcGctctctgtgctggagatcag	6	12	12	11	1	3	1	1	0	2	1	5	2	3	1	0	1	4	7	0	1	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:3920947G>A	uc002fxe.2	-	48	7783	c.7719C>T	c.(7717-7719)AGC>AGT	p.S2573S	ZZEF1_uc002fxg.1_5'Flank	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2573							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCTGCAGTTCGCTCTCTGTGC	0.592													19	74					0	0	0.043863	0	0		A	3920947	A	A	3920947	2	1	181	1	0	0	0	0	0	0	0	1	18280	1078	38	1		1	ZZEF1	17	3920947	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	2382561	3920947	77274263	150	91969											
ALOXE3	59344	broad.mit.edu	37	chr17	8012632	8012632	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggcccgtgctcatgaggtaGatgaggccttgcctcccgat	7	9	13	12	2	1	3	1	2	0	1	2	4	2	3	4	3	2	2	4	3	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:8012632G>A	uc010cnr.2	-	12	1792	c.1422C>T	c.(1420-1422)ATC>ATT	p.I474I	ALOXE3_uc002gka.2_Silent_p.I630I|ALOXE3_uc010vuo.1_Silent_p.I606I	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	474	Lipoxygenase.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						TCATGAGGTAGATGAGGCCTT	0.652													12	28					0	0	0.09319	0	0		A	8012632	A	A	8012632	2	1	181	1	0	0	0	0	0	0	0	1	542	932	33	4		4	ALOXE3	17	8012632	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	4091685	8012632	73182578	151	91970											
COX10	1352	broad.mit.edu	37	chr17	14110524	14110524	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggacgcagggccccctccCagctgagagcactgggacgc	7	3	16	15	2	0	1	0	1	0	1	1	4	1	3	3	4	2	3	3	4	0	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:14110524C>T	uc002gof.3	+	7	1530	c.1326C>T	c.(1324-1326)CCC>CCT	p.P442P	COX10_uc010vvs.1_Silent_p.P225P|COX10_uc010vvt.1_Silent_p.P250P	NM_001303	NP_001294	Q12887	COX10_HUMAN	heme A:farnesyltransferase precursor	442					heme a biosynthetic process|heme O biosynthetic process|respiratory chain complex IV assembly	integral to membrane|mitochondrial membrane	protoheme IX farnesyltransferase activity				0		all_lung(20;0.06)|Lung SC(565;0.168)		UCEC - Uterine corpus endometrioid carcinoma (92;0.106)		GGCCCCCTCCCAGCTGAGAGC	0.632													15	16					0	0	0.146539	0	0		T	14110524	T	T	14110524	2	4	181	1	0	0	0	0	0	0	0	1	3765	581	21	4		4	COX10	17	14110524	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	6097892	14110524	67084686	152	91971											
FLCN	201163	broad.mit.edu	37	chr17	17119728	17119728	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggggggatctgcacgtgCgggctgagccccaggaagtt	6	7	19	9	2	1	1	0	1	1	0	1	3	1	3	2	6	3	3	2	6	1	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:17119728C>T	uc002gra.3	-	11	1770	c.1266G>A	c.(1264-1266)CCG>CCA	p.P422P	PLD6_uc010cpn.2_RNA	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	422					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						TCTGCACGTGCGGGCTGAGCC	0.677									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				3	22					0	0	0.115264	0	0		T	17119728	T	T	17119728	2	4	181	1	0	0	0	0	0	0	0	1	5935	755	27	1		1	FLCN	17	17119728	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	3009204	17119728	64075482	153	91972											
MLLT6	4302	broad.mit.edu	37	chr17	36865461	36865461	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggagcagggccgggagagCaaggcggcctcgggagcctg	8	2	21	10	3	0	1	0	0	0	1	1	5	0	3	3	6	3	2	3	6	1	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:36865461C>A	uc002hqi.3	+	5	403	c.390C>A	c.(388-390)AGC>AGA	p.S130R	MLLT6_uc010wdr.1_Missense_Mutation_p.S130R|MLLT6_uc010cvm.1_Missense_Mutation_p.S130R	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	130	PHD-type 2.				regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					GCCGGGAGAGCAAGGCGGCCT	0.642			T	MLL	AL								36	173					7.53189e-24	8.95899e-24	0.09836	1	0		A	36865461	A	A	36865461	3	1	181	1	0	0	0	0	1	0	0	0	9648	709	25	5	408	5	MLLT6	17	36865461	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	19745733	36865461	44329749	154	91973											
KRTAP4-7	100132476	broad.mit.edu	37	chr17	39240780	39240780	+	Missense_Mutation	SNP	A	T	T	1	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	agtctgtgtgctgccagcccAcctgctgccgccccagctgc	4	8	11	18	1	1	0	0	0	1	0	1	0	1	0	6	0	7	3	6	0	0	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:39240780A>T	uc010wfn.1	+	1	322	c.322A>T	c.(322-324)ACC>TCC	p.T108S		NM_033061	NP_149050			keratin associated protein 4-7												0						ctgccagcccacctgctgccg	0.184													8	13					0	0	0.038147	0	0		T	39240780	T	T	39240780	3	4	181	1	0	0	0	0	1	0	0	0	8571	159	6	5	324	5	KRTAP4-7	17	39240780	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	2375319	39240780	41954430	155	91974											
STAT3	6774	broad.mit.edu	37	chr17	40476813	40476813	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaactgccagctcaggacctCggccacttgatcccaggttc	8	8	10	15	1	1	1	1	1	0	0	4	3	2	2	4	3	3	2	4	3	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:40476813C>T	uc002hzl.1	-	17	1756	c.1516G>A	c.(1516-1518)GAG>AAG	p.E506K	STAT3_uc002hzk.1_Missense_Mutation_p.E506K|STAT3_uc002hzm.1_Missense_Mutation_p.E506K|STAT3_uc010wgh.1_Missense_Mutation_p.E408K|STAT3_uc002hzn.1_Missense_Mutation_p.E506K	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	506					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		CTCAGGACCTCGGCCACTTGA	0.502									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				5	73					0	0	0.02938	0	0		T	40476813	T	T	40476813	3	4	181	1	0	0	0	0	1	0	0	0	15291	893	31	1	828	1	STAT3	17	40476813	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	1236033	40476813	40718397	156	91975											
PTRF	284119	broad.mit.edu	37	chr17	40557205	40557205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtccacgcgccgcaggcCgctgcgcttgatacgctctg	4	8	13	16	7	1	1	0	1	1	0	3	1	2	1	3	1	2	4	3	1	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:40557205C>T	uc002hzo.2	-	2	832	c.673G>A	c.(673-675)GGC>AGC	p.G225S	PTRF_uc010wgi.1_Missense_Mutation_p.G207S	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor	225	Potential.				regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription initiation from RNA polymerase I promoter	caveola|cytosol|endoplasmic reticulum|microsome|mitochondrion|nucleoplasm	protein binding|rRNA primary transcript binding			breast(1)	1		all_cancers(22;0.00146)|Breast(137;0.00116)|all_epithelial(22;0.0134)		BRCA - Breast invasive adenocarcinoma(366;0.193)		CGCCGCAGGCCGCTGCGCTTG	0.632													29	132					0	0	0.125774	0	0		T	40557205	T	T	40557205	3	4	181	1	0	0	0	0	1	0	0	0	12840	652	23	1	503	1	PTRF	17	40557205	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	80392	40557205	40638005	157	91976											
DNAH17	8632	broad.mit.edu	37	chr17	76563093	76563093	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacctaccgagtctccaggGtccaagggatcatatttgca	10	9	11	11	1	2	0	1	0	1	0	4	3	3	2	4	3	2	1	4	3	3	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr17:76563093G>C	uc002jvv.1	-	6	652	c.546C>G	c.(544-546)GAC>GAG	p.D182E						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			AGTCTCCAGGGTCCAAGGGAT	0.582													5	18					0	0	0.021553	0	0		C	76563093	C	C	76563093	3	2	181	1	0	0	0	0	1	0	0	0	4607	1252	44	5	12236	5	DNAH17	17	76563093	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	36005888	76563093	4632117	158	91977											
OSBPL1A	114876	broad.mit.edu	37	chr18	21751427	21751427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	attccttaccaaaaaggccaCatggcttaaaattcaacaca	17	9	4	11	0	1	0	1	0	0	0	2	0	2	0	3	2	2	1	3	2	6	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr18:21751427C>T	uc002kve.2	-	23	2411	c.2237G>A	c.(2236-2238)TGT>TAT	p.C746Y	OSBPL1A_uc002kvd.2_Missense_Mutation_p.C233Y|OSBPL1A_uc010xbc.1_Missense_Mutation_p.C364Y	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	746					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					AAAAAGGCCACATGGCTTAAA	0.303													9	126					0	0	0.058154	0	0		T	21751427	T	T	21751427	3	4	181	1	0	0	0	0	1	0	0	0	11296	478	17	4	639	4	OSBPL1A	18	21751427	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08		21751427	56325821	159	91978											
DSC2	1824	broad.mit.edu	37	chr18	28651610	28651610	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caacaatattgcaaggatggCccactttccaagttgtactc	12	11	7	11	0	0	0	0	0	0	0	2	1	1	1	2	2	3	3	2	2	6	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr18:28651610C>A	uc002kwl.3	-	13	2540	c.2086G>T	c.(2086-2088)GCC>TCC	p.A696S	DSC2_uc002kwk.3_Missense_Mutation_p.A696S	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	696	Helical; (Potential).				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			GCAAGGATGGCCCACTTTCCA	0.403													14	48					1.05317e-09	1.1783e-09	0.11911	1	0		A	28651610	A	A	28651610	3	1	181	1	0	0	0	0	1	0	0	0	4772	739	26	5	675	5	DSC2	18	28651610	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	6900183	28651610	49425638	160	91979											
ZNF397	84307	broad.mit.edu	37	chr18	32822695	32822695	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagagttgcacacaaaggaGcagatcttagaactgctggt	13	8	11	9	0	1	3	0	0	1	3	1	4	1	4	1	2	4	4	1	2	3	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr18:32822695G>A	uc010dmp.2	+	2	417	c.261G>A	c.(259-261)GAG>GAA	p.E87E	ZNF397_uc002kyi.2_Silent_p.E87E|ZNF397_uc010dmq.2_Silent_p.E87E|ZNF397_uc010dmr.2_Intron|ZNF397_uc002kyj.2_Silent_p.E87E|ZNF397_uc002kyk.1_Silent_p.E87E	NM_001135178	NP_001128650	Q8NF99	ZN397_HUMAN	zinc finger protein 397 isoform 1	87	SCAN box.				viral reproduction	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						ACACAAAGGAGCAGATCTTAG	0.532													23	53					0	0	0.069288	0	0		A	32822695	A	A	32822695	2	1	181	1	0	0	0	0	0	0	0	1	17908	962	34	2		2	ZNF397	18	32822695	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	4171085	32822695	45254553	161	91980											
DCC	1630	broad.mit.edu	37	chr18	50734058	50734058	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatgtctccagaatatagagGttgatggactatcttataaa	14	14	8	5	0	2	3	0	1	2	2	3	4	2	4	1	2	0	1	1	2	8	7			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr18:50734058G>T	uc002lfe.1	+	11	2319	c.1732G>T	c.(1732-1734)GTT>TTT	p.V578F	DCC_uc010xdr.1_Missense_Mutation_p.V426F|DCC_uc010dpf.1_Missense_Mutation_p.V233F	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	578	Extracellular (Potential).|Fibronectin type-III 2.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		GAATATAGAGGTTGATGGACT	0.383													15	83					1.49906e-05	1.56846e-05	0.11911	1	0		T	50734058	T	T	50734058	3	4	181	1	0	0	0	0	1	0	0	0	4285	1261	44	5	1774	5	DCC	18	50734058	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	17911363	50734058	27343190	162	91981											
STXBP2	6813	broad.mit.edu	37	chr19	7704638	7704638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttgaagacatcaacaaacGgcgggaacccattcccagtc	13	7	9	12	2	1	2	1	1	0	1	3	3	2	3	2	2	3	1	2	2	4	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:7704638G>A	uc002mha.3	+	4	236	c.191G>A	c.(190-192)CGG>CAG	p.R64Q	STXBP2_uc002mhb.3_Missense_Mutation_p.R64Q|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Missense_Mutation_p.R64Q|STXBP2_uc010dvk.2_Missense_Mutation_p.R32Q|STXBP2_uc002mhc.3_5'UTR|STXBP2_uc010dvl.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	64					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						ATCAACAAACGGCGGGAACCC	0.498													6	19					0	0	0.047766	0	0		A	7704638	A	A	7704638	3	1	181	1	0	0	0	0	1	0	0	0	15378	1116	39	1	205	1	STXBP2	19	7704638	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		7704638	51424345	163	91982											
OR7D2	162998	broad.mit.edu	37	chr19	9297113	9297113	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgggatcattttctcttattCacgaattgcttcatccataa	10	17	5	9	1	4	0	3	0	1	0	6	2	5	1	1	1	1	1	1	1	3	7			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:9297113C>G	uc002mkz.1	+	1	844	c.656C>G	c.(655-657)TCA>TGA	p.S219*		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	219	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TTCTCTTATTCACGAATTGCT	0.458													29	96					0	0	0.116897	0	0		G	9297113	G	G	9297113	4	3	181	1	0	0	0	0	0	1	0	0	11238	838	29	5	658	5	OR7D2	19	9297113	Nonsense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	1592475	9297113	49831870	164	91983											
LDLR	3949	broad.mit.edu	37	chr19	11224398	11224398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacgttattcagggagaacGgctccaagccaagggccatc	13	6	11	11	2	1	1	1	0	0	1	3	2	2	1	3	3	3	2	3	3	5	2	rs141673997	byFrequency	TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:11224398G>A	uc002mqk.3	+	10	1714	c.1546G>A	c.(1546-1548)GGC>AGC	p.G516S	LDLR_uc010xlk.1_Missense_Mutation_p.G516S|LDLR_uc010xll.1_Missense_Mutation_p.G475S|LDLR_uc010xlm.1_Missense_Mutation_p.G369S|LDLR_uc010xln.1_Missense_Mutation_p.G389S|LDLR_uc010xlo.1_Missense_Mutation_p.G348S	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	516	Extracellular (Potential).|LDL-receptor class B 3.				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		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)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	CAGGGAGAACGGCTCCAAGCC	0.572													14	49					0	0	0.132662	0	0		A	11224398	A	A	11224398	3	1	181	1	0	0	0	0	1	0	0	0	8720	1116	39	1	1584	1	LDLR	19	11224398	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	1927285	11224398	47904585	165	91984											
NR2F6	2063	broad.mit.edu	37	chr19	17355924	17355924	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggcgtcgctggcggcaccggGgggcgaggccgagtcgtcct	3	5	20	13	7	0	0	0	0	0	0	3	2	1	0	3	7	0	2	3	7	0	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:17355924G>A	uc002nfq.2	-	1	228	c.106C>T	c.(106-108)CCC>TCC	p.P36S		NM_005234	NP_005225	P10588	NR2F6_HUMAN	nuclear receptor subfamily 2, group F, member 6	36					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding				0						GCGGCACCGGGGGGCGAGGCC	0.771													3	4					0	0	0.115264	0	0		A	17355924	A	A	17355924	3	1	181	1	0	0	0	0	1	0	0	0	10648	1232	43	4	1124	4	NR2F6	19	17355924	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	6131526	17355924	41773059	166	91985											
ZNF431	170959	broad.mit.edu	37	chr19	21365482	21365482	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaagacataaaagattctTttcaacaagtaatactgaga	19	10	6	6	0	2	3	1	1	1	3	2	4	2	3	0	0	3	2	0	0	7	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:21365482T>A	uc002npp.2	+	5	523	c.376T>A	c.(376-378)TTT>ATT	p.F126I	ZNF431_uc010ecq.2_Missense_Mutation_p.F35I|ZNF431_uc010ecr.2_Missense_Mutation_p.F127I	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	126					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						AAAAGATTCTTTTCAACAAGT	0.338													15	49					0	0	0.146539	0	0		A	21365482	A	A	21365482	3	1	181	1	0	0	0	0	1	0	0	0	17930	1841	64	5	394	5	ZNF431	19	21365482	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	4009558	21365482	37763501	167	91986											
UBA2	10054	broad.mit.edu	37	chr19	34935939	34935939	+	Silent	SNP	A	C	C	1	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	gccgaagccagagctagagcAtctaatgaagatggtgacat	14	7	12	8	1	1	5	0	2	1	3	1	6	1	5	2	1	3	2	2	1	4	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:34935939A>C	uc002nvk.2	+	8	754	c.684A>C	c.(682-684)GCA>GCC	p.A228A	UBA2_uc010xrx.1_Silent_p.A101A|UBA2_uc002nvl.2_Silent_p.A132A	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	228					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GAGCTAGAGCATCTAATGAAG	0.358													28	90					0	0	0.144211	0	0		C	34935939	C	C	34935939	2	2	181	1	0	0	0	0	0	0	0	1	16854	204	8	5		5	UBA2	19	34935939	Silent	SNP	A	TCGA-D7-8572-01A-11D-2340-08	13570457	34935939	24193044	168	91987											
RYR1	6261	broad.mit.edu	37	chr19	38986957	38986957	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atggtcaacgtcctcgggggCggcgagtccaaggtgagggc	7	6	18	10	4	1	1	1	1	0	0	4	2	3	1	2	6	1	0	2	6	2	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:38986957C>T	uc002oit.2	+	40	6781	c.6651C>T	c.(6649-6651)GGC>GGT	p.G2217G	RYR1_uc002oiu.2_Silent_p.G2217G|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2217	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TCCTCGGGGGCGGCGAGTCCA	0.637													7	91					0	0	0.02938	0	0		T	38986957	T	T	38986957	2	4	181	1	0	0	0	0	0	0	0	1	13793	755	27	1		1	RYR1	19	38986957	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	4051018	38986957	20142026	169	91988											
PNMAL2	57469	broad.mit.edu	37	chr19	46998642	46998642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcctgctccaggccctcCgggatgccggtgaccagcag	5	7	13	16	2	1	1	0	1	1	0	3	2	3	2	6	3	4	2	6	3	0	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:46998642C>T	uc002pes.2	-	1	528	c.81G>A	c.(79-81)CCG>CCA	p.P27P	uc002peu.1_3'UTR	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	27										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ccaggccctccgggatgccgg	0.065													6	71					0	0	0.021553	0	0		T	46998642	T	T	46998642	2	4	181	1	0	0	0	0	0	0	0	1	12177	639	23	1		1	PNMAL2	19	46998642	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	8011685	46998642	12130341	170	91989											
SCAF1	58506	broad.mit.edu	37	chr19	50156700	50156700	+	Silent	SNP	A	C	C	1	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	actgaggaggctggggtccgAggtggggcggaggaggagga	8	4	24	5	2	0	1	0	1	0	0	1	7	1	6	1	11	0	1	1	11	0	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:50156700A>C	uc002poq.2	+	7	3178	c.3054A>C	c.(3052-3054)CGA>CGC	p.R1018R		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	1018	Glu-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		CTGGGGTCCGAGGTGGGGCgg	0.498													5	10					0	0	0.021553	0	0		C	50156700	C	C	50156700	2	2	181	1	0	0	0	0	0	0	0	1	13893	291	11	5		5	SCAF1	19	50156700	Silent	SNP	A	TCGA-D7-8572-01A-11D-2340-08	3158058	50156700	8972283	171	91990											
ZNF415	55786	broad.mit.edu	37	chr19	53612111	53612111	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aatgccttgcaaggcttgaaGtctgactgaagactttacca	12	11	9	9	0	1	4	0	3	1	1	1	4	1	4	2	1	3	2	2	1	5	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:53612111G>T	uc002qax.2	-	7	1680	c.1331C>A	c.(1330-1332)ACT>AAT	p.T444N	ZNF415_uc002qat.2_Missense_Mutation_p.T408N|ZNF415_uc002qaw.2_Missense_Mutation_p.T396N|ZNF415_uc010yds.1_Missense_Mutation_p.T396N|ZNF415_uc010ydt.1_Missense_Mutation_p.T396N|ZNF415_uc002qau.2_Missense_Mutation_p.T383N|ZNF415_uc002qav.2_Missense_Mutation_p.T408N|ZNF415_uc002qba.2_Missense_Mutation_p.T166N|ZNF415_uc002qay.2_Missense_Mutation_p.T383N|ZNF415_uc002qaz.2_Missense_Mutation_p.T444N	NR_028343		Q09FC8	ZN415_HUMAN	RecName: Full=Zinc finger protein 415;	444	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.0191)		AAGGCTTGAAGTCTGACTGAA	0.413													18	68					5.01169e-05	5.21955e-05	0.160694	1	0		T	53612111	T	T	53612111	3	4	181	1	0	0	0	0	1	0	0	0	17917	1029	36	5	484	5	ZNF415	19	53612111	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	3455411	53612111	5516872	172	91991											
ZNF813	126017	broad.mit.edu	37	chr19	53994018	53994018	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcaatttcaacatccCaaagaatttcttgtaggccc	11	13	4	13	0	3	1	2	0	1	1	5	1	5	1	3	1	1	1	3	1	5	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:53994018C>G	uc002qbu.2	+	4	660	c.532C>G	c.(532-534)CAA>GAA	p.Q178E	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	178					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		TTCAACATCCCAAAGAATTTC	0.398													36	175					0	0	0.069456	0	0		G	53994018	G	G	53994018	3	3	181	1	0	0	0	0	1	0	0	0	18200	595	21	5	542	5	ZNF813	19	53994018	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	381907	53994018	5134965	173	91992											
MZF1	7593	broad.mit.edu	37	chr19	59073782	59073782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcagtggtagggcttttcgCcggtgtgtgtcctctgatga	4	13	15	9	3	1	2	0	2	1	0	3	2	2	2	2	3	0	3	2	3	1	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr19:59073782C>T	uc002qto.2	-	6	2423	c.1862G>A	c.(1861-1863)GGC>GAC	p.G621D	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_Missense_Mutation_p.G621D	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	621					viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		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)		GGGCTTTTCGCCGGTGTGTGT	0.672													3	7					0	0	0.150653	0	0		T	59073782	T	T	59073782	3	4	181	1	0	0	0	0	1	0	0	0	10126	739	26	2	346	2	MZF1	19	59073782	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	5079764	59073782	55201	174	91993											
ENTPD6	955	broad.mit.edu	37	chr20	25187932	25187932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaggcccacagccccctggGgacagctgcagacgggcacg	8	2	15	16	2	0	1	0	0	0	1	0	2	0	2	3	4	3	4	3	4	0	0	rs140692182	byFrequency	TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr20:25187932G>A	uc002wuj.2	+	3	455	c.275G>A	c.(274-276)GGG>GAG	p.G92E	ENTPD6_uc010zsy.1_Missense_Mutation_p.G92E|ENTPD6_uc010gdj.1_Missense_Mutation_p.G64E|ENTPD6_uc010zsz.1_Intron|ENTPD6_uc002wum.2_Missense_Mutation_p.G75E|ENTPD6_uc010zta.1_Missense_Mutation_p.G92E|ENTPD6_uc002wun.2_Missense_Mutation_p.G92E|ENTPD6_uc002wuk.2_Missense_Mutation_p.G91E|ENTPD6_uc002wul.2_Missense_Mutation_p.G91E|ENTPD6_uc010ztb.1_Missense_Mutation_p.G64E|ENTPD6_uc010ztc.1_Missense_Mutation_p.G64E|ENTPD6_uc002wuo.2_Intron|ENTPD6_uc010ztd.1_5'Flank	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	92	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						AGCCCCCTGGGGACAGCTGCA	0.662													6	36					0	0	0.02938	0	0		A	25187932	A	A	25187932	3	1	181	1	0	0	0	0	1	0	0	0	5151	1232	43	4	288	4	ENTPD6	20	25187932	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08		25187932	37837588	175	91994											
C20orf160	140706	broad.mit.edu	37	chr20	30605902	30605902	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tcattctgcgaatccctacgCacgagatcgccgccgcctcc	7	8	8	18	6	2	1	1	0	1	1	5	3	4	1	5	0	2	1	5	0	2	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr20:30605902C>A	uc002wxf.2	+	4	416	c.403C>A	c.(403-405)CAC>AAC	p.H135N		NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	135										central_nervous_system(3)|ovary(1)	4						AATCCCTACGCACGAGATCGC	0.552													7	19					0.00198382	0.00200153	0.02938	1	0		A	30605902	A	A	30605902	3	1	181	1	0	0	0	0	1	0	0	0	2096	710	25	5	417	5	C20orf160	20	30605902	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	5417970	30605902	32419618	176	91995											
CEP250	11190	broad.mit.edu	37	chr20	34063452	34063452	+	Missense_Mutation	SNP	T	G	G	0	1	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	gaggcaagagcaaacggaagTgaccgcagcgctggctaggg	12	3	17	9	3	0	2	0	1	0	1	0	4	0	3	1	4	3	5	1	4	4	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr20:34063452T>G	uc002xcm.2	+	16	2368	c.1697T>G	c.(1696-1698)GTG>GGG	p.V566G	CEP250_uc010zve.1_5'UTR|CEP250_uc010zvd.1_Intron	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	566	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CAAACGGAAGTGACCGCAGCG	0.567													22	115					0	0	0.083992	0	0		G	34063452	G	G	34063452	3	3	181	1	0	0	0	0	1	0	0	0	3255	1696	59	5	1743	5	CEP250	20	34063452	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	3457550	34063452	28962068	177	91996											
SEMG2	6407	broad.mit.edu	37	chr20	43851491	43851491	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggccataaggaaaataaaatAtcataccaatcttcgagtac	18	9	6	8	1	2	0	1	0	1	0	3	2	2	1	2	2	2	1	2	2	9	6			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr20:43851491A>G	uc010ggz.2	+	2	1275	c.1218A>G	c.(1216-1218)ATA>ATG	p.I406M	SEMG2_uc002xnk.2_Missense_Mutation_p.I406M|SEMG2_uc002xnl.2_Intron	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	406	Repeat-rich region.|4 X 60 AA tandem repeats, type I.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				AAAATAAAATATCATACCAAT	0.383													12	120					0	0	0.105934	0	0		G	43851491	G	G	43851491	3	3	181	1	0	0	0	0	1	0	0	0	14070	439	16	3	1224	3	SEMG2	20	43851491	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	9788039	43851491	19174029	178	91997											
SEMG2	6407	broad.mit.edu	37	chr20	43851686	43851686	+	Silent	SNP	A	G	G	1	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	aaaatgtcataccaatcttcAagtacagaagaaagacgact	19	8	6	8	1	3	3	2	0	1	3	3	4	3	3	1	0	2	1	1	0	8	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr20:43851686A>G	uc010ggz.2	+	2	1470	c.1413A>G	c.(1411-1413)TCA>TCG	p.S471S	SEMG2_uc002xnk.2_Silent_p.S471S|SEMG2_uc002xnl.2_Intron	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	471	Repeat-rich region.|4 X 60 AA tandem repeats, type I.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				ACCAATCTTCAAGTACAGAAG	0.383													8	134					0	0	0.038147	0	0		G	43851686	G	G	43851686	2	3	181	1	0	0	0	0	0	0	0	1	14070	117	5	3		3	SEMG2	20	43851686	Silent	SNP	A	TCGA-D7-8572-01A-11D-2340-08	195	43851686	19173834	179	91998											
CHRNA4	1137	broad.mit.edu	37	chr20	61990948	61990948	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaagcggacgaggaccacGtccgagatgttggccacggg	9	4	16	12	6	0	1	0	0	0	1	1	6	1	3	4	4	1	1	4	4	1	1	rs112051150		TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr20:61990948G>T	uc002yes.2	-	2	358	c.180C>A	c.(178-180)GAC>GAA	p.D60E	CHRNA4_uc002yet.1_Intron|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_5'UTR|CHRNA4_uc002yev.1_5'UTR|CHRNA4_uc010gkf.1_5'UTR	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	60	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	CGAGGACCACGTCCGAGATGT	0.632													20	40					3.5997e-14	4.17196e-14	0.069288	1	0		T	61990948	T	T	61990948	3	4	181	1	0	0	0	0	1	0	0	0	3388	1136	40	5	1723	5	CHRNA4	20	61990948	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	18139262	61990948	1034572	180	91999											
KRTAP24-1	643803	broad.mit.edu	37	chr21	31654953	31654953	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacactgaagacttggcctgCtgatggggagttgcagggca	9	8	16	8	0	0	3	0	2	0	1	0	5	0	4	1	4	2	4	1	4	1	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr21:31654953C>A	uc002ynv.2	-	1	324	c.298G>T	c.(298-300)GCA>TCA	p.A100S		NM_001085455	NP_001078924	Q3LI83	KR241_HUMAN	keratin associated protein 24-1	100						keratin filament	structural molecule activity				0						ACTTGGCCTGCTGATGGGGAG	0.403													21	59					6.33239e-15	7.3769e-15	0.055883	1	0		A	31654953	A	A	31654953	3	1	181	1	0	0	0	0	1	0	0	0	8558	797	28	5	470	5	KRTAP24-1	21	31654953	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08		31654953	16474942	181	92000											
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709591	31709591	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcccttgaggcttgcaggTtggcagctctgggctacaaa	7	12	12	10	0	1	1	0	1	1	0	2	1	2	1	1	4	3	6	1	4	2	5			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr21:31709591T>G	uc002ynx.1	-	1	422	c.396A>C	c.(394-396)CAA>CAC	p.Q132H		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	132						intermediate filament				ovary(2)	2						GGCTTGCAGGTTGGCAGCTCT	0.493													44	180					0	0	0.11126	0	0		G	31709591	G	G	31709591	3	3	181	1	0	0	0	0	1	0	0	0	8560	1722	60	5	231	5	KRTAP27-1	21	31709591	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	54638	31709591	16420304	182	92001											
TIAM1	7074	broad.mit.edu	37	chr21	32624274	32624274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccggcctcctccaggctctCgctgttggtggtgctcatct	2	12	12	15	2	3	0	1	0	2	0	6	0	5	0	4	4	1	4	4	4	0	1			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr21:32624274C>T	uc002yow.1	-	6	1667	c.1195G>A	c.(1195-1197)GAG>AAG	p.E399K	TIAM1_uc011adk.1_Missense_Mutation_p.E399K|TIAM1_uc011adl.1_Missense_Mutation_p.E399K|TIAM1_uc002yox.1_Missense_Mutation_p.E7K	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	399					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TCCAGGCTCTCGCTGTTGGTG	0.692													11	68					0	0	0.09319	0	0		T	32624274	T	T	32624274	3	4	181	1	0	0	0	0	1	0	0	0	15915	893	31	1	3676	1	TIAM1	21	32624274	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	914683	32624274	15505621	183	92002											
HLCS	3141	broad.mit.edu	37	chr21	38128941	38128941	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacagtcacgactctggcGatgagataatcggctcttaa	12	9	10	10	3	3	1	1	1	2	1	4	4	3	1	0	2	1	2	0	2	2	2	rs150263699	byFrequency	TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr21:38128941G>T	uc010gnb.2	-	10	3112	c.1911C>A	c.(1909-1911)ATC>ATA	p.I637I	HLCS_uc002yvs.2_Silent_p.I637I	NM_000411	NP_000402	P50747	BPL1_HUMAN	holocarboxylase synthetase	637					cell proliferation|histone biotinylation|response to biotin	chromatin|cytosol|mitochondrion|nuclear lamina|nuclear matrix	ATP binding|biotin binding|biotin-[acetyl-CoA-carboxylase] ligase activity|biotin-[methylcrotonoyl-CoA-carboxylase] ligase activity|biotin-[methylmalonyl-CoA-carboxytransferase] ligase activity|biotin-[propionyl-CoA-carboxylase (ATP-hydrolyzing)] ligase activity|enzyme binding			ovary(2)|breast(1)|kidney(1)|liver(1)	5		Myeloproliferative disorder(46;0.0422)			Biotin(DB00121)	CGACTCTGGCGATGAGATAAT	0.473													24	117					4.26978e-12	4.92331e-12	0.083992	1	0		T	38128941	T	T	38128941	2	4	181	1	0	0	0	0	0	0	0	1	7229	1048	37	5		5	HLCS	21	38128941	Silent	SNP	G	TCGA-D7-8572-01A-11D-2340-08	5504667	38128941	10000954	184	92003											
BRWD1	54014	broad.mit.edu	37	chr21	40590130	40590130	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtaaagatcggttggatAagctactacagtacagtact	13	12	10	6	1	0	1	0	0	0	1	1	2	0	2	0	2	5	5	0	2	7	7			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr21:40590130A>T	uc002yxk.1	-	31	3746	c.3607T>A	c.(3607-3609)TAT>AAT	p.Y1203N	BRWD1_uc010goc.1_Intron|BRWD1_uc002yxl.2_Missense_Mutation_p.Y1203N|BRWD1_uc010god.1_Missense_Mutation_p.Y169N	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1203	Bromo 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				TCGGTTGGATAAGCTACTACA	0.368													5	60					0	0	0.014758	0	0		T	40590130	T	T	40590130	3	4	181	1	0	0	0	0	1	0	0	0	1528	362	13	5	3642	5	BRWD1	21	40590130	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08	2461189	40590130	7539765	185	92004											
U2AF1	7307	broad.mit.edu	37	chr21	44514835	44514835	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	cagctcggcgtggatcggctGtccattaaaccaacggttat	9	10	11	11	4	0	0	0	0	0	0	3	1	1	1	2	4	3	3	2	4	4	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr21:44514835G>A	uc002zda.1	-	6	496	c.412C>T	c.(412-414)CAG>TAG	p.Q138*	U2AF1_uc002zcy.1_Nonsense_Mutation_p.Q65*|U2AF1_uc002zcz.1_Nonsense_Mutation_p.Q65*|U2AF1_uc002zdb.1_Nonsense_Mutation_p.Q138*|U2AF1_uc010gpi.1_Nonsense_Mutation_p.Q138*	NM_001025203	NP_001020374	Q01081	U2AF1_HUMAN	U2 small nuclear RNA auxillary factor 1 isoform	138	RRM.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	Cajal body|catalytic step 2 spliceosome|nuclear speck	nucleotide binding|RNA binding|zinc ion binding				0						TGGATCGGCTGTCCATTAAAC	0.532													12	39					0	0	0.080935	0	0		A	44514835	A	A	44514835	4	1	181	1	0	0	0	0	0	1	0	0	16847	1386	48	4	322	4	U2AF1	21	44514835	Nonsense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	3924705	44514835	3615060	186	92005											
SLC7A4	6545	broad.mit.edu	37	chr22	21385491	21385491	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgacaatgaagagaatgacaAgcaggctgatggccgagaag	16	5	14	6	1	0	6	0	4	0	2	0	8	0	6	1	2	1	2	1	2	5	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr22:21385491A>C	uc002zud.2	-	2	679	c.611T>G	c.(610-612)CTT>CGT	p.L204R	SLC7A4_uc002zue.2_Missense_Mutation_p.L204R	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	204	Helical; (Potential).				cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	GAGAATGACAAGCAGGCTGAT	0.602													7	52					0	0	0.038147	0	0		C	21385491	C	C	21385491	3	2	181	1	0	0	0	0	1	0	0	0	14724	72	3	5	1312	5	SLC7A4	22	21385491	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08		21385491	29919075	187	92006											
DDT	1652	broad.mit.edu	37	chr22	24313812	24313812	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gggaaaaagcggataagtatCcttcaggagacagagaaaaa	19	5	12	5	1	1	2	1	0	0	2	2	6	2	4	1	3	1	1	1	3	6	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr22:24313812C>T	uc002zyz.3	-	3	362	c.285G>A	c.(283-285)CGG>CGA	p.R95R	DDT_uc011ajf.1_Intron|DDTL_uc002zyy.3_3'UTR|DDT_uc002zza.3_Silent_p.R95R	NM_001084392	NP_001077861	P30046	DOPD_HUMAN	D-dopachrome tautomerase	95					melanin biosynthetic process	cytoplasm	D-dopachrome decarboxylase activity|dopachrome isomerase activity|protein binding				0						GGATAAGTATCCTTCAGGAGA	0.507													7	33					0	0	0.02938	0	0		T	24313812	T	T	24313812	2	4	181	1	0	0	0	0	0	0	0	1	4342	869	30	4		4	DDT	22	24313812	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	2928321	24313812	26990754	188	92007											
GRAP2	9402	broad.mit.edu	37	chr22	40365500	40365500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatgcggccctcatgcatcGgagacacacagacccagtgc	11	5	11	14	2	1	2	1	0	0	2	2	4	1	2	2	2	3	1	2	2	1	0			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chr22:40365500G>A	uc003ayh.1	+	7	1039	c.776G>A	c.(775-777)CGG>CAG	p.R259Q	GRAP2_uc003ayi.2_RNA|GRAP2_uc011aom.1_Missense_Mutation_p.R233Q|GRAP2_uc011aon.1_Missense_Mutation_p.R193Q|GRAP2_uc010gya.1_Missense_Mutation_p.R259Q|GRAP2_uc011aoo.1_Missense_Mutation_p.R187Q|GRAP2_uc011aop.1_Missense_Mutation_p.R219Q|GRAP2_uc011aoq.1_Missense_Mutation_p.R146Q|GRAP2_uc003ayj.1_Missense_Mutation_p.R259Q	NM_004810	NP_004801	O75791	GRAP2_HUMAN	GRB2-related adaptor protein 2	259					cell-cell signaling|Ras protein signal transduction|T cell costimulation|T cell receptor signaling pathway	cytosol	SH3/SH2 adaptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						CTCATGCATCGGAGACACACA	0.572													18	47					0	0	0.160694	0	0		A	40365500	A	A	40365500	3	1	181	1	0	0	0	0	1	0	0	0	6770	1116	39	1	798	1	GRAP2	22	40365500	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	16051688	40365500	10939066	189	92008											
IL1RAPL1	11141	broad.mit.edu	37	chrX	28807512	28807512	+	Missense_Mutation	SNP	A	G	G	1	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	tatacgctacttttactcagAgtttgaaggttgtgaccaaa	12	14	8	7	1	1	3	1	2	0	1	1	3	1	3	1	1	3	3	1	1	6	7			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chrX:28807512A>G	uc004dby.2	+	2	560	c.52A>G	c.(52-54)AGT>GGT	p.S18G		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	18					innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TTTTACTCAGAGTTTGAAGGT	0.378													16	27					0	0	0.146539	0	0		G	28807512	G	G	28807512	3	3	181	1	0	0	0	0	1	0	0	0	7677	304	11	3	54	3	IL1RAPL1	23	28807512	Missense_Mutation	SNP	A	TCGA-D7-8572-01A-11D-2340-08		28807512	126463048	190	92009											
WNK3	65267	broad.mit.edu	37	chrX	54263436	54263436	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttctgattcatcatcactGctcattggggaagatggcga	10	13	10	8	1	5	2	4	1	1	1	5	4	5	3	0	3	1	1	0	3	1	3			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chrX:54263436G>T	uc004dtd.1	-	20	4861	c.4422C>A	c.(4420-4422)AGC>AGA	p.S1474R	WNK3_uc004dtc.1_Missense_Mutation_p.S1521R	NM_001002838	NP_001002838	Q9BYP7	WNK3_HUMAN	WNK lysine deficient protein kinase 3 isoform 2	1474					intracellular protein kinase cascade|positive regulation of establishment of protein localization in plasma membrane|positive regulation of peptidyl-threonine phosphorylation|positive regulation of rubidium ion transmembrane transporter activity|positive regulation of rubidium ion transport|positive regulation of sodium ion transmembrane transporter activity|positive regulation of sodium ion transport|protein autophosphorylation	adherens junction|tight junction	ATP binding|protein binding|protein serine/threonine kinase activity|rubidium ion transmembrane transporter activity|sodium ion transmembrane transporter activity			lung(4)|ovary(3)|kidney(2)|central_nervous_system(2)	11						CATCATCACTGCTCATTGGGG	0.423													53	86					1.77205e-36	2.13023e-36	0.139131	1	0		T	54263436	T	T	54263436	3	4	181	1	0	0	0	0	1	0	0	0	17405	1310	46	5	859	5	WNK3	23	54263436	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	25455924	54263436	101007124	191	92010											
ZXDA	7789	broad.mit.edu	37	chrX	57934628	57934628	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgtcagtagttctgagacacTgttttcacaaagggtgctcg	9	13	11	8	1	3	1	2	1	1	1	4	2	3	1	0	1	1	4	0	1	2	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chrX:57934628T>G	uc004dve.2	-	1	2440	c.2227A>C	c.(2227-2229)AGT>CGT	p.S743R		NM_007156	NP_009087	P98168	ZXDA_HUMAN	zinc finger, X-linked, duplicated A	743					positive regulation of transcription, DNA-dependent	nucleus	C2H2 zinc finger domain binding|identical protein binding|nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						TCTGAGACACTGTTTTCACAA	0.498													22	31					0	0	0.055883	0	0		G	57934628	G	G	57934628	3	3	181	1	0	0	0	0	1	0	0	0	18275	1580	55	5	176	5	ZXDA	23	57934628	Missense_Mutation	SNP	T	TCGA-D7-8572-01A-11D-2340-08	3671192	57934628	97335932	192	92011											
KLHL4	56062	broad.mit.edu	37	chrX	86880644	86880644	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaccagttccatgtttaCtggtgatcttgagtgtcaga	10	14	10	7	0	2	4	1	3	1	1	3	4	3	4	2	1	2	2	2	1	2	4			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chrX:86880644C>A	uc004efb.2	+	6	1354	c.1172C>A	c.(1171-1173)ACT>AAT	p.T391N	KLHL4_uc004efa.2_Missense_Mutation_p.T391N	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	391						cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TCCATGTTTACTGGTGATCTT	0.408													20	16					4.96729e-08	5.47613e-08	0.049695	1	0		A	86880644	A	A	86880644	3	1	181	1	0	0	0	0	1	0	0	0	8407	565	20	5	1194	5	KLHL4	23	86880644	Missense_Mutation	SNP	C	TCGA-D7-8572-01A-11D-2340-08	28946016	86880644	68389916	193	92012											
CT47B1	643311	broad.mit.edu	37	chrX	120008811	120008811	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggttcctctgtggcctcCtctgtgagcttctcctctgc	1	14	10	16	1	4	1	0	1	4	0	7	1	6	1	5	2	2	2	5	2	0	2			TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chrX:120008811C>T	uc011muc.1	-	1	969	c.714G>A	c.(712-714)GAG>GAA	p.E238E		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	238											0						ctgtggcctcctctgtgagct	0.552													45	62					0	0	0.117977	0	0		T	120008811	T	T	120008811	2	4	181	1	0	0	0	0	0	0	0	1	3992	680	24	4		4	CT47B1	23	120008811	Silent	SNP	C	TCGA-D7-8572-01A-11D-2340-08	33128167	120008811	35261749	194	92013											
CD40LG	959	broad.mit.edu	37	chrX	135741443	135741443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagttccgccaaaccttgcGggcaacaatccattcacttg	11	9	7	14	2	1	0	1	0	0	0	3	0	3	0	4	1	3	2	4	1	3	4	rs148594123	byFrequency	TCGA-D7-8572-01A-11D-2340-08	TCGA-D7-8572-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	584e46d6-280d-4aaa-b03e-5fd7ece08d77	a0e40acf-0a3e-4b8d-b504-22a3001b1191	g.chrX:135741443G>A	uc004faa.2	+	5	727	c.655G>A	c.(655-657)GGG>AGG	p.G219R	CD40LG_uc010nsd.2_Missense_Mutation_p.G198R	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	219	Extracellular (Potential).		G -> R.		anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	CAAACCTTGCGGGCAACAATC	0.498									Immune_Deficiency_with_Hyper-IgM				10	170					0	0	0.080935	0	0		A	135741443	A	A	135741443	3	1	181	1	0	0	0	0	1	0	0	0	3019	1116	39	1	673	1	CD40LG	23	135741443	Missense_Mutation	SNP	G	TCGA-D7-8572-01A-11D-2340-08	15732632	135741443	19529117	195	92014											
LRRC41	10489	broad.mit.edu	37	chr1	46746843	46746843	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tggctagggggccctgcattCcctggcacaccagggttgtc	5	9	14	13	0	0	0	0	0	0	0	2	0	1	0	3	5	1	4	3	5	1	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr1:46746843C>G	uc001cpn.2	-	5	1754	c.1710G>C	c.(1708-1710)GGG>GGC	p.G570G	LRRC41_uc010omb.1_Silent_p.G570G	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	570										ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					GCCCTGCATTCCCTGGCACAC	0.577													18	40					0	0	0.038395	0	0		G	46746843	G	G	46746843	2	3	182	1	0	0	0	0	0	0	0	1	9017	842	30	5		5	LRRC41	1	46746843	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08		46746843	202503778	1	92015											
GBP4	115361	broad.mit.edu	37	chr1	89657071	89657071	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttctggcacttcgtccatAtgatttaaatattgcttgtc	8	18	6	9	1	2	1	0	1	2	0	5	1	3	1	1	1	1	2	1	1	4	8			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr1:89657071A>G	uc001dnb.2	-	6	905	c.789T>C	c.(787-789)CAT>CAC	p.H263H		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	263						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		CTTCGTCCATATGATTTAAAT	0.398													16	61					0	0	0.028581	0	0		G	89657071	G	G	89657071	2	3	182	1	0	0	0	0	0	0	0	1	6291	446	16	3		3	GBP4	1	89657071	Silent	SNP	A	TCGA-D7-8573-01A-11D-2340-08	42910228	89657071	159593550	2	92016											
PKLR	5313	broad.mit.edu	37	chr1	155263039	155263039	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctccacagcaccaatggcGgtgacctcagtgggatcacg	9	6	12	14	2	2	1	2	1	0	0	3	2	3	2	4	3	1	1	4	3	1	0	rs146708702	byFrequency	TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr1:155263039G>A	uc001fkb.3	-	9	1404	c.1365C>T	c.(1363-1365)ACC>ACT	p.T455T	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Silent_p.T424T	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	455					endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	CACCAATGGCGGTGACCTCAG	0.607													40	40					0	0	0.080422	0	0		A	155263039	A	A	155263039	2	1	182	1	0	0	0	0	0	0	0	1	11995	1103	39	1		1	PKLR	1	155263039	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08	65605968	155263039	93987582	3	92017											
HHIPL2	79802	broad.mit.edu	37	chr1	222696035	222696035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcctcttgccctggcGgacgtggggccccactctgg	2	10	12	17	2	2	0	0	0	2	0	4	1	4	1	5	5	1	0	5	5	0	2	rs144597197	byFrequency	TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr1:222696035G>A	uc001hnh.1	-	9	2141	c.2083C>T	c.(2083-2085)CGC>TGC	p.R695C		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	695					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		TTGCCCTGGCGGACGTGGGGC	0.562													159	181					0	0	0.048971	0	0		A	222696035	A	A	222696035	3	1	182	1	0	0	0	0	1	0	0	0	7110	1116	39	1	95	1	HHIPL2	1	222696035	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	67432996	222696035	26554586	4	92018											
WNT9A	7483	broad.mit.edu	37	chr1	228109319	228109319	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagggccttgtcaccaccCggctctgtgtgttatggccg	4	10	14	13	2	2	0	1	0	1	0	2	0	2	0	4	4	0	3	4	4	1	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr1:228109319C>A	uc001hri.2	-	4	1086	c.998G>T	c.(997-999)CGG>CTG	p.R333L		NM_003395	NP_003386	O14904	WNT9A_HUMAN	wingless-type MMTV integration site family,	333					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|cornea development in camera-type eye|embryonic arm morphogenesis|embryonic skeletal joint morphogenesis|endoderm development|iris morphogenesis|mitotic cell cycle G1/S transition checkpoint|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|neuron differentiation|positive regulation of smoothened signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding|signal transducer activity			central_nervous_system(1)|pancreas(1)	2		Prostate(94;0.0405)				TGTCACCACCCGGCTCTGTGT	0.652													9	41					3.07112e-06	3.11948e-06	0.080935	1	0		A	228109319	A	A	228109319	3	1	182	1	0	0	0	0	1	0	0	0	17424	652	23	5	103	5	WNT9A	1	228109319	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	5413284	228109319	21141302	5	92019											
AKT3	10000	broad.mit.edu	37	chr1	243727110	243727110	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcaaagtccaaaatctgtaAtttttatgtggccatctttg	11	16	7	7	0	2	0	0	0	2	0	3	0	3	0	2	1	1	2	2	1	5	5			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr1:243727110A>C	uc001iab.1	-	9	941	c.860T>G	c.(859-861)ATT>AGT	p.I287S	AKT3_uc001hzz.1_Missense_Mutation_p.I287S	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	287	Protein kinase.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			AAAATCTGTAATTTTTATGTG	0.393													39	38					0	0	0.092188	0	0		C	243727110	C	C	243727110	3	2	182	1	0	0	0	0	1	0	0	0	481	101	4	5	647	5	AKT3	1	243727110	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	15617791	243727110	5523511	6	92020											
ADAM17	6868	broad.mit.edu	37	chr2	9676834	9676834	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccatactaaccaaccacGtgtccagtgaagaagtcctg	12	8	8	13	1	0	2	0	1	0	1	3	2	3	2	5	0	3	1	5	0	5	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr2:9676834G>A	uc002qzu.2	-	3	537	c.354C>T	c.(352-354)CAC>CAT	p.H118H	ADAM17_uc010ewy.2_Silent_p.H118H|ADAM17_uc010ewz.2_Intron|ADAM17_uc010exb.1_Silent_p.H118H|ADAM17_uc002qzv.2_Silent_p.H118H	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	118					B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		AACCAACCACGTGTCCAGTGA	0.428													15	56					0	0	0.024245	0	0		A	9676834	A	A	9676834	2	1	182	1	0	0	0	0	0	0	0	1	238	1136	40	1		1	ADAM17	2	9676834	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08		9676834	233522539	7	92021											
SOS1	6654	broad.mit.edu	37	chr2	39213093	39213093	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgctttgtcgtggaggaaCaggcggcccagcaatggaat	10	8	15	8	2	0	0	0	0	0	0	1	3	0	3	1	5	3	2	1	5	3	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr2:39213093C>A	uc002rrk.3	-	23	3915	c.3874G>T	c.(3874-3876)GTT>TTT	p.V1292F	SOS1_uc002rrj.3_Missense_Mutation_p.V891F	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	1292					apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				CGTGGAGGAACAGGCGGCCCA	0.512									Noonan_syndrome				14	147					2.61681e-11	2.72233e-11	0.020292	1	0		A	39213093	A	A	39213093	3	1	182	1	0	0	0	0	1	0	0	0	14961	478	17	5	131	5	SOS1	2	39213093	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	29536259	39213093	203986280	8	92022											
PRPF40A	55660	broad.mit.edu	37	chr2	153572629	153572629	+	Silent	SNP	A	G	G	1	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	attggggcataatgcatgccAgggtgccccatctgaaaaac	12	8	11	10	0	1	1	0	1	1	0	1	1	1	1	3	3	4	2	3	3	3	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr2:153572629A>G	uc002tyi.2	-	2	190	c.177T>C	c.(175-177)CCT>CCC	p.P59P	ARL6IP6_uc002tyn.2_5'Flank|ARL6IP6_uc002tym.2_5'Flank|PRPF40A_uc002tyh.3_Silent_p.P32P|PRPF40A_uc010zcd.1_Silent_p.P32P|PRPF40A_uc002tyj.2_5'UTR|PRPF40A_uc002tyl.1_Silent_p.P59P	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	59					mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						AATGCATGCCAGGGTGCCCCA	0.443													29	43					0	0	0.108266	0	0		G	153572629	G	G	153572629	2	3	182	1	0	0	0	0	0	0	0	1	12593	175	7	3		3	PRPF40A	2	153572629	Silent	SNP	A	TCGA-D7-8573-01A-11D-2340-08	114359536	153572629	89626744	9	92023											
ITGA6	3655	broad.mit.edu	37	chr2	173335747	173335747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacactttttttgacatgaAcatctttgaagatgggcctt	11	16	7	7	0	1	4	0	3	1	1	1	4	1	4	1	1	2	0	1	1	3	6			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr2:173335747A>C	uc002uhp.1	+	5	892	c.689A>C	c.(688-690)AAC>ACC	p.N230T	ITGA6_uc010fqk.1_Missense_Mutation_p.N116T|ITGA6_uc010zdy.1_Intron|ITGA6_uc002uho.1_Missense_Mutation_p.N230T|ITGA6_uc010fql.2_RNA	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	230	Extracellular (Potential).				blood coagulation|cell adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|leukocyte migration|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter	integrin complex	protein binding|receptor activity			ovary(1)|lung(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0979)			TTTGACATGAACATCTTTGAA	0.373													7	69					0	0	0.02938	0	0		C	173335747	C	C	173335747	3	2	182	1	0	0	0	0	1	0	0	0	7896	43	2	5	707	5	ITGA6	2	173335747	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	19763118	173335747	69863626	10	92024											
COL6A3	1293	broad.mit.edu	37	chr2	238303388	238303388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacttgctatttcttttaacGctccttcatctgcatcctca	7	17	3	14	1	4	0	2	0	2	0	6	0	6	0	2	0	3	3	2	0	2	6			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr2:238303388G>A	uc002vwl.2	-	3	836	c.551C>T	c.(550-552)GCG>GTG	p.A184V	COL6A3_uc002vwo.2_Intron|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Intron|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Missense_Mutation_p.A184V	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	184	VWFA 1.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TTCTTTTAACGCTCCTTCATC	0.438													6	102					0	0	0.02938	0	0		A	238303388	A	A	238303388	3	1	182	1	0	0	0	0	1	0	0	0	3704	1087	38	1	9197	1	COL6A3	2	238303388	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	64967641	238303388	4895985	11	92025											
TMPPE	643853	broad.mit.edu	37	chr3	33135527	33135527	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gggagccaatgagcaagagcGagttgacaaacagggcaagc	15	3	15	8	1	0	3	0	2	0	1	0	5	0	4	1	2	5	3	1	2	4	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr3:33135527G>C	uc003cfk.2	-	2	352	c.161C>G	c.(160-162)TCG>TGG	p.S54W	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Intron	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	54	Helical; (Potential).					integral to membrane	metal ion binding				0						GAGCAAGAGCGAGTTGACAAA	0.572													5	37					0	0	0.021553	0	0		C	33135527	C	C	33135527	3	2	182	1	0	0	0	0	1	0	0	0	16263	1059	37	5	1204	5	TMPPE	3	33135527	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08		33135527	164886903	12	92026											
HPS3	84343	broad.mit.edu	37	chr3	148889990	148889990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atatcttctctattgcagtcGaaagaaaccattgacttaaa	15	13	5	8	1	2	2	0	1	2	1	4	3	2	2	1	0	2	1	1	0	6	6			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr3:148889990G>A	uc003ewu.1	+	17	3136	c.2996G>A	c.(2995-2997)CGA>CAA	p.R999Q	CP_uc011bnr.1_Intron|HPS3_uc011bnq.1_Missense_Mutation_p.R834Q|HPS3_uc003ewv.1_RNA	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein	999						cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			TATTGCAGTCGAAAGAAACCA	0.348									Hermansky-Pudlak_syndrome				9	42					0	0	0.069234	0	0		A	148889990	A	A	148889990	3	1	182	1	0	0	0	0	1	0	0	0	7356	1058	37	1	3062	1	HPS3	3	148889990	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	115754463	148889990	49132440	13	92027											
SLC26A1	10861	broad.mit.edu	37	chr4	983161	983161	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgaactctgtggcatcctcGtagaaggccgtgtccccgat	7	10	11	13	4	1	1	0	0	1	1	5	3	3	1	4	2	1	2	4	2	3	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr4:983161G>A	uc003gcb.2	-	4	1944	c.1566C>T	c.(1564-1566)TAC>TAT	p.Y522Y	SLC26A1_uc003gbx.2_Intron|IDUA_uc003gby.2_Intron|IDUA_uc003gbz.2_Intron|IDUA_uc003gca.2_Intron|SLC26A1_uc003gcc.2_Silent_p.Y522Y	NM_213613	NP_998778	Q9H2B4	S26A1_HUMAN	solute carrier family 26, member 1 isoform a	522						integral to membrane|plasma membrane	secondary active sulfate transmembrane transporter activity			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			TGGCATCCTCGTAGAAGGCCG	0.687													3	6					0	0	0.004672	0	0		A	983161	A	A	983161	2	1	182	1	0	0	0	0	0	0	0	1	14539	1140	40	1		1	SLC26A1	4	983161	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08		983161	190171115	14	92028											
LETM1	3954	broad.mit.edu	37	chr4	1843118	1843118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtggccgttgaggatgcGccagagcatgcgtgccgcga	6	7	17	11	5	0	2	0	1	0	1	0	4	0	3	3	2	4	3	3	2	0	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr4:1843118G>A	uc003gdv.2	-	3	847	c.550C>T	c.(550-552)CGC>TGC	p.R184C	LETM1_uc010icc.2_5'Flank|LETM1_uc011bvg.1_Missense_Mutation_p.R184C	NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	184	Mitochondrial intermembrane (Potential).|LETM1.				cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			TTGAGGATGCGCCAGAGCATG	0.527													10	25					0	0	0.058154	0	0		A	1843118	A	A	1843118	3	1	182	1	0	0	0	0	1	0	0	0	8750	1087	38	1	1717	1	LETM1	4	1843118	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	859957	1843118	189311158	15	92029											
WDFY3	23001	broad.mit.edu	37	chr4	85701357	85701357	+	Silent	SNP	A	G	G	1	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	gctgcatataacccttccacAtcagaggccatggccaccag	11	7	8	15	0	1	1	1	0	0	1	2	1	2	1	5	2	2	2	5	2	2	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr4:85701357A>G	uc003hpd.2	-	26	4677	c.4269T>C	c.(4267-4269)GAT>GAC	p.D1423D		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1423						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ACCCTTCCACATCAGAGGCCA	0.507													34	87					0	0	0.050027	0	0		G	85701357	G	G	85701357	2	3	182	1	0	0	0	0	0	0	0	1	17296	214	8	3		3	WDFY3	4	85701357	Silent	SNP	A	TCGA-D7-8573-01A-11D-2340-08	83858239	85701357	105452919	16	92030											
EGF	1950	broad.mit.edu	37	chr4	110882065	110882065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaatcatggctgtactcttgGgtgtaaaaacacccctggat	11	11	10	9	0	2	0	1	0	1	0	2	2	2	1	2	3	2	3	2	3	5	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr4:110882065G>A	uc003hzy.3	+	7	1561	c.1109G>A	c.(1108-1110)GGG>GAG	p.G370E	EGF_uc011cfu.1_Missense_Mutation_p.G328E|EGF_uc011cfv.1_Missense_Mutation_p.G370E	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	370	EGF-like 2; calcium-binding (Potential).|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	TGTACTCTTGGGTGTAAAAAC	0.393													7	33					0	0	0.038147	0	0		A	110882065	A	A	110882065	3	1	182	1	0	0	0	0	1	0	0	0	4968	1232	43	4	1135	4	EGF	4	110882065	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	25180708	110882065	80272211	17	92031											
DCHS2	54798	broad.mit.edu	37	chr4	155254019	155254019	+	Missense_Mutation	SNP	T	C	C	0	1	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	taagaggcgaggctgcacgcTgggggccaagtgggtgcgcc	7	5	19	10	3	0	1	0	0	0	1	0	2	0	1	2	5	2	3	2	5	2	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr4:155254019T>C	uc003inw.2	-	9	1844	c.1844A>G	c.(1843-1845)CAG>CGG	p.Q615R	DCHS2_uc003inx.2_Missense_Mutation_p.Q1114R	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	615	Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GGCTGCACGCTGGGGGCCAAG	0.542													15	30					0	0	0.024245	0	0		C	155254019	C	C	155254019	3	2	182	1	0	0	0	0	1	0	0	0	4291	1580	55	3	7070	3	DCHS2	4	155254019	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08	44371954	155254019	35900257	18	92032											
SLC45A2	51151	broad.mit.edu	37	chr5	33951681	33951681	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaataaagtgaggaaaacacGgagttgatgcacaagcccca	17	5	11	8	1	0	2	0	2	0	0	0	5	0	4	2	2	3	2	2	2	6	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:33951681G>A	uc003jid.2	-	5	1226	c.1134C>T	c.(1132-1134)TCC>TCT	p.S378S	SLC45A2_uc003jie.2_Silent_p.S378S|SLC45A2_uc003jif.3_3'UTR|SLC45A2_uc011coe.1_3'UTR	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	378	Helical; Name=8; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AGGAAAACACGGAGTTGATGC	0.433													71	53					0	0	0.048971	0	0		A	33951681	A	A	33951681	2	1	182	1	0	0	0	0	0	0	0	1	14666	1103	39	1		1	SLC45A2	5	33951681	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08		33951681	146963579	19	92033											
TMEM171	134285	broad.mit.edu	37	chr5	72419284	72419284	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttctgcttctttgtcttCggcgccgtcttgttgtgtgt	1	20	10	10	3	5	0	0	0	5	0	6	0	5	0	1	1	1	2	1	1	0	6			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:72419284C>T	uc003kcm.2	+	2	288	c.84C>T	c.(82-84)TTC>TTT	p.F28F	TMEM171_uc003kcn.3_Silent_p.F28F	NM_173490	NP_775761	Q8WVE6	TM171_HUMAN	transmembrane protein 171 isoform 1	28	Helical; (Potential).					integral to membrane					0		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.87e-54)|Lung(70;0.115)		TCTTTGTCTTCGGCGCCGTCT	0.577													55	26					0	0	0.048971	0	0		T	72419284	T	T	72419284	2	4	182	1	0	0	0	0	0	0	0	1	16113	883	31	1		1	TMEM171	5	72419284	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08	38467603	72419284	108495976	20	92034											
PCDHB10	56126	broad.mit.edu	37	chr5	140573784	140573784	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgcgcgtgctggtgctggaCgccaacgacaactcgccctt	6	8	13	14	5	0	0	0	0	0	0	1	2	0	1	2	2	5	2	2	2	2	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:140573784C>T	uc003lix.2	+	1	1833	c.1659C>T	c.(1657-1659)GAC>GAT	p.D553D		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	553	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGGTGCTGGACGCCAACGACA	0.716													6	122					0	0	0.021553	0	0		T	140573784	T	T	140573784	2	4	182	1	0	0	0	0	0	0	0	1	11554	535	19	1		1	PCDHB10	5	140573784	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08	68154500	140573784	40341476	21	92035											
PCDHGA4	56111	broad.mit.edu	37	chr5	140736646	140736646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcacacaggcgaggtgCgcaccgcacgggccctgctg	6	4	16	15	4	0	0	0	0	0	0	0	1	0	0	2	4	3	5	2	4	0	0			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:140736646C>T	uc003ljq.1	+	1	1879	c.1879C>T	c.(1879-1881)CGC>TGC	p.R627C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.R627C	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	627	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGCGAGGTGCGCACCGCACG	0.632													40	19					0	0	0.080422	0	0		T	140736646	T	T	140736646	3	4	182	1	0	0	0	0	1	0	0	0	11575	768	27	1	1881	1	PCDHGA4	5	140736646	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	162862	140736646	40178614	22	92036											
PDGFRB	5159	broad.mit.edu	37	chr5	149505106	149505106	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggccgtcagagctcacagacTcaatcaccttccatcggatc	10	8	8	15	2	4	2	4	0	0	2	7	3	5	3	3	2	1	1	3	2	1	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:149505106T>G	uc003lro.2	-	12	2178	c.1709A>C	c.(1708-1710)GAG>GCG	p.E570A	PDGFRB_uc010jhd.2_Missense_Mutation_p.E409A	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	570	Cytoplasmic (Potential).				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GCTCACAGACTCAATCACCTT	0.577			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								10	60					0	0	0.069234	0	0		G	149505106	G	G	149505106	3	3	182	1	0	0	0	0	1	0	0	0	11681	1551	54	5	1659	5	PDGFRB	5	149505106	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08	8768460	149505106	31410154	23	92037											
C5orf40	408263	broad.mit.edu	37	chr5	156770404	156770404	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttctcctcgtggtggaaGctgtagcgaagatagccaga	10	9	12	10	2	1	2	0	0	1	2	3	4	1	3	3	2	3	2	3	2	4	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:156770404G>A	uc003lwu.2	-	2	329	c.141C>T	c.(139-141)AGC>AGT	p.S47S	CYFIP2_uc003lwq.2_Intron|CYFIP2_uc011ddn.1_Intron|CYFIP2_uc011ddo.1_Intron|CYFIP2_uc003lwr.2_Intron|CYFIP2_uc003lws.2_Intron|CYFIP2_uc003lwt.2_Intron|CYFIP2_uc011ddp.1_Intron	NM_001001343	NP_001001343	Q8TBE3	FNDC9_HUMAN	hypothetical protein LOC408263	47	Fibronectin type-III.					integral to membrane					0	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.0999)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CGTGGTGGAAGCTGTAGCGAA	0.537													54	32					0	0	0.048971	0	0		A	156770404	A	A	156770404	2	1	182	1	0	0	0	0	0	0	0	1	2302	962	34	2		2	C5orf40	5	156770404	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08	7265298	156770404	24144856	24	92038											
GABRA1	2554	broad.mit.edu	37	chr5	161300176	161300176	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggaaggatgaaaggttaaaAtttaaaggacctatgacagt	17	10	11	3	0	0	2	0	2	0	0	0	5	0	5	1	4	0	1	1	4	7	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:161300176A>C	uc010jiw.2	+	6	777	c.309A>C	c.(307-309)AAA>AAC	p.K103N	GABRA1_uc010jix.2_Missense_Mutation_p.K103N|GABRA1_uc010jiy.2_Missense_Mutation_p.K103N|GABRA1_uc003lyx.3_Missense_Mutation_p.K103N|GABRA1_uc010jiz.2_Missense_Mutation_p.K103N|GABRA1_uc010jja.2_Missense_Mutation_p.K103N|GABRA1_uc010jjb.2_Missense_Mutation_p.K103N	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	103	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	AAAGGTTAAAATTTAAAGGAC	0.383													79	31					0	0	0.048971	0	0		C	161300176	C	C	161300176	3	2	182	1	0	0	0	0	1	0	0	0	6174	98	4	5	323	5	GABRA1	5	161300176	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	4529772	161300176	19615084	25	92039											
FOXI1	2299	broad.mit.edu	37	chr5	169535494	169535495	+	Missense_Mutation	DNP	AC	CA	CA																															cggtgggggtgactgggcgaAccccatgcccaccaacatgc																										TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr5:169535494_169535495AC>CA	uc003mai.3	+	2	1061_1062	c.1016_1017AC>CA	c.(1015-1017)AAC>ACA	p.N339T	FOXI1_uc003maj.3_Missense_Mutation_p.N244T	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	339					epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GACTGGGCGAACCCCATGCCCA	0.579									Pendred_syndrome				19	30					0	0	0.004672	0	0		CA	169535495	CA	CA	169535494	3	2	182	1	0	0	0	0	1	0	0	0	6023	43	2	5	1022	5	FOXI1	5	169535494	Missense_Mutation	DNP	AC	TCGA-D7-8573-01A-11D-2340-08	8235318	169535494	11379766	26	92040											
SLC17A1	6568	broad.mit.edu	37	chr6	25813353	25813353	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaggatgtgatgtattcCttttcactgatgcttataca	10	15	10	6	0	1	2	1	2	0	0	2	4	2	4	1	2	2	2	1	2	3	6			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:25813353C>T	uc003nfh.3	-	7	821	c.705G>A	c.(703-705)AAG>AAA	p.K235K	SLC17A1_uc011djy.1_Intron|SLC17A1_uc010jqb.1_Silent_p.K233K|SLC17A1_uc010jqc.1_Silent_p.K233K	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	235					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						TGATGTATTCCTTTTCACTGA	0.448													22	68					0	0	0.055883	0	0		T	25813353	T	T	25813353	2	4	182	1	0	0	0	0	0	0	0	1	14441	680	24	4		4	SLC17A1	6	25813353	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08		25813353	145301714	27	92041											
BAT2	7916	broad.mit.edu	37	chr6	31605358	31605358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgggttgcccccacccCgctgagggagttcctcttgc	4	9	12	16	1	1	1	0	1	1	0	2	2	2	2	6	2	3	3	6	2	0	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:31605358C>T	uc003nvb.3	+	31	6718	c.6469C>T	c.(6469-6471)CGC>TGC	p.R2157C	BAT2_uc003nvc.3_Missense_Mutation_p.R2157C	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	2157						cytoplasm|nucleus	protein binding				0						GCCCCCACCCCGCTGAGGGAG	0.662													11	26					0	0	0.069234	0	0		T	31605358	T	T	31605358	3	4	182	1	0	0	0	0	1	0	0	0	1320	652	23	1	6587	1	BAT2	6	31605358	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	5792005	31605358	139509709	28	92042											
C4A	720	broad.mit.edu	37	chr6	31996297	31996297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcggcttggttgtcacgggGcagcagcacctggtgagctt	5	10	16	10	2	1	1	1	1	0	0	1	1	1	1	1	5	4	6	1	5	0	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:31996297G>A	uc011dpd.1	+	25	3269	c.3218G>A	c.(3217-3219)GGC>GAC	p.G1073D	C4A_uc011dpe.1_Missense_Mutation_p.G1073D	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	1073					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						TTGTCACGGGGCAGCAGCACC	0.617													3	33					0	0	0.004672	0	0		A	31996297	A	A	31996297	3	1	182	1	0	0	0	0	1	0	0	0	2250	1203	42	2	8378	2	C4A	6	31996297	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	390939	31996297	139118770	29	92043											
MCM3	4172	broad.mit.edu	37	chr6	52137104	52137104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccccaggcactcaccctggCggtgtctgagctcatgctat	6	9	10	16	1	3	1	2	1	1	0	3	1	3	1	3	3	2	3	3	3	1	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:52137104C>T	uc003pan.1	-	12	1932	c.1822G>A	c.(1822-1824)GCC>ACC	p.A608T	MCM3_uc011dwu.1_Missense_Mutation_p.A562T	NM_002388	NP_002379	P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	608					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	alpha DNA polymerase:primase complex|centrosome|MCM complex|perinuclear region of cytoplasm	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)|lung(1)|skin(1)	3	Lung NSC(77;0.0931)					CTCACCCTGGCGGTGTCTGAG	0.552													16	62					0	0	0.043863	0	0		T	52137104	T	T	52137104	3	4	182	1	0	0	0	0	1	0	0	0	9405	768	27	1	628	1	MCM3	6	52137104	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	20140807	52137104	118977963	30	92044											
BAI3	577	broad.mit.edu	37	chr6	70049284	70049284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctttgacgtggatgtctgCggttctggccatgacagata	7	12	14	8	2	2	3	0	2	2	1	2	4	2	4	1	4	1	2	1	4	1	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:70049284C>T	uc003pev.3	+	26	3795	c.3347C>T	c.(3346-3348)GCG>GTG	p.A1116V	BAI3_uc010kak.2_Missense_Mutation_p.A1116V|BAI3_uc011dxx.1_Missense_Mutation_p.A322V|BAI3_uc003pex.1_Missense_Mutation_p.A246V	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1116	Helical; Name=6; (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGGATGTCTGCGGTTCTGGCC	0.443													67	92					0	0	0.048971	0	0		T	70049284	T	T	70049284	3	4	182	1	0	0	0	0	1	0	0	0	1301	768	27	1	3441	1	BAI3	6	70049284	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	17912180	70049284	101065783	31	92045											
FILIP1	27145	broad.mit.edu	37	chr6	76023075	76023075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcttcctggaaggatttccGtatgaatacagctggcgttt	8	15	10	8	2	1	1	0	1	1	0	3	3	3	3	2	3	2	3	2	3	4	6			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:76023075G>A	uc003pia.2	-	5	2846	c.2473C>T	c.(2473-2475)CGG>TGG	p.R825W	FILIP1_uc003phy.1_Missense_Mutation_p.R825W|FILIP1_uc003phz.2_Missense_Mutation_p.R726W|FILIP1_uc010kbe.2_Missense_Mutation_p.R828W|FILIP1_uc003pib.1_Missense_Mutation_p.R577W	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	825										skin(3)|ovary(1)	4						AAGGATTTCCGTATGAATACA	0.463													109	148					0	0	0.048971	0	0		A	76023075	A	A	76023075	3	1	182	1	0	0	0	0	1	0	0	0	5908	1144	40	1	1176	1	FILIP1	6	76023075	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	5973791	76023075	95091992	32	92046											
MDN1	23195	broad.mit.edu	37	chr6	90387382	90387382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcttgagggttttttgaaCgggcccaagcaagacctttg	8	13	11	9	1	1	3	0	2	1	1	2	3	1	3	2	2	2	2	2	2	3	5	rs77256291	byFrequency	TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:90387382C>T	uc003pnn.1	-	76	12562	c.12446G>A	c.(12445-12447)CGT>CAT	p.R4149H		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4149					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GTTTTTTGAACGGGCCCAAGC	0.463													14	110					0	0	0.024245	0	0		T	90387382	T	T	90387382	3	4	182	1	0	0	0	0	1	0	0	0	9433	536	19	1	4452	1	MDN1	6	90387382	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	14364307	90387382	80727685	33	92047											
FUT9	10690	broad.mit.edu	37	chr6	96651315	96651315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaaggatgccatctcacaaCggaccgttcactgtacaaca	13	7	7	14	2	2	0	2	0	1	0	3	2	2	2	3	2	4	2	3	2	4	2	rs144101900		TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:96651315C>T	uc003pop.3	+	3	625	c.284C>T	c.(283-285)ACG>ATG	p.T95M		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	95	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		CATCTCACAACGGACCGTTCA	0.478													5	83					0	0	0.014758	0	0		T	96651315	T	T	96651315	3	4	182	1	0	0	0	0	1	0	0	0	6125	536	19	1	286	1	FUT9	6	96651315	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	6263933	96651315	74463752	34	92048											
KIAA1244	57221	broad.mit.edu	37	chr6	138617959	138617959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcctgtaggagaagttaaatCcactcaagaccgaaaaagcg	16	7	9	9	2	1	2	1	0	0	2	3	4	3	2	3	1	1	2	3	1	7	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:138617959C>T	uc003qhu.2	+	21	3515	c.3515C>T	c.(3514-3516)TCC>TTC	p.S1172F		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1172					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		GAAGTTAAATCCACTCAAGAC	0.502													11	133					0	0	0.09319	0	0		T	138617959	T	T	138617959	3	4	182	1	0	0	0	0	1	0	0	0	8233	855	30	4	3597	4	KIAA1244	6	138617959	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	41966644	138617959	32497108	35	92049											
SHPRH	257218	broad.mit.edu	37	chr6	146214432	146214432	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgggctccaccaagagaacaTgagttgcttcaatgatagtt	12	11	10	8	0	1	3	1	2	0	1	2	4	2	3	2	1	2	4	2	1	4	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:146214432T>C	uc003qlf.2	-	28	5192	c.4793A>G	c.(4792-4794)CAT>CGT	p.H1598R	SHPRH_uc003qld.2_Missense_Mutation_p.H1602R|SHPRH_uc003qle.2_Missense_Mutation_p.H1602R	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1598	Helicase C-terminal.				DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CAAGAGAACATGAGTTGCTTC	0.443													6	43					0	0	0.021553	0	0		C	146214432	C	C	146214432	3	2	182	1	0	0	0	0	1	0	0	0	14316	1464	51	3	287	3	SHPRH	6	146214432	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08	7596473	146214432	24900635	36	92050											
PDE10A	10846	broad.mit.edu	37	chr6	165809927	165809927	+	Missense_Mutation	SNP	A	G	G	1	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	tacccggtaaatgcactctgAgtggcgaattctatgataca	12	11	9	9	2	2	2	0	2	2	0	2	3	2	2	1	2	3	2	1	2	6	5			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr6:165809927A>G	uc003qun.2	-	15	1511	c.1270T>C	c.(1270-1272)TCA>CCA	p.S424P	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.S354P|PDE10A_uc003quo.2_Missense_Mutation_p.S434P	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	424					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	ATGCACTCTGAGTGGCGAATT	0.403													10	77					0	0	0.058154	0	0		G	165809927	G	G	165809927	3	3	182	1	0	0	0	0	1	0	0	0	11649	304	11	3	1105	3	PDE10A	6	165809927	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	19595495	165809927	5305140	37	92051											
ZDHHC4	55146	broad.mit.edu	37	chr7	6623050	6623050	+	Missense_Mutation	SNP	T	A	A	0	1	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	atttaaggaaaccagctcgaTccaagcactgcagtgagtgt	13	9	10	9	1	0	1	0	1	0	0	2	3	1	2	2	1	4	3	2	1	3	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr7:6623050T>A	uc003sqi.2	+	7	842	c.484T>A	c.(484-486)TCC>ACC	p.S162T	ZDHHC4_uc003sqg.2_Missense_Mutation_p.S162T|ZDHHC4_uc003sql.2_Missense_Mutation_p.S162T|ZDHHC4_uc003sqh.2_Missense_Mutation_p.S162T|ZDHHC4_uc003sqj.2_Missense_Mutation_p.S162T|ZDHHC4_uc003sqk.2_Missense_Mutation_p.S162T|ZDHHC4_uc003sqm.2_Missense_Mutation_p.S162T	NM_001134388	NP_001127860	Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	162	DHHC-type.					integral to membrane	acyltransferase activity|zinc ion binding			breast(1)|pancreas(1)	2		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		ACCAGCTCGATCCAAGCACTG	0.448													17	31					0	0	0.0333	0	0		A	6623050	A	A	6623050	3	1	182	1	0	0	0	0	1	0	0	0	17642	1435	50	5	498	5	ZDHHC4	7	6623050	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08		6623050	152515613	38	92052											
SP8	221833	broad.mit.edu	37	chr7	20824781	20824781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgccggccgagcccacctCgcccgcagcacccaggcccg	5	1	13	22	6	0	0	0	0	0	0	1	1	0	0	7	3	2	2	7	3	0	0			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr7:20824781C>T	uc003suy.2	-	3	842	c.601G>A	c.(601-603)GAG>AAG	p.E201K	SP8_uc003suz.2_Missense_Mutation_p.E219K	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	201					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						GAGCCCACCTCGCCCGCAGCA	0.731													3	6					0	0	0.009096	0	0		T	20824781	T	T	20824781	3	4	182	1	0	0	0	0	1	0	0	0	14995	893	31	1	875	1	SP8	7	20824781	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	14201731	20824781	138313882	39	92053											
ABCA13	154664	broad.mit.edu	37	chr7	48312083	48312083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgaaccacaaaaacaagaAgttgataaaattttgactca	19	10	5	7	0	2	4	1	3	1	1	2	4	2	4	1	0	2	1	1	0	7	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr7:48312083A>C	uc003toq.2	+	17	2845	c.2820A>C	c.(2818-2820)GAA>GAC	p.E940D	ABCA13_uc010kyr.2_Missense_Mutation_p.E443D	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	940					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AAAAACAAGAAGTTGATAAAA	0.368													18	45					0	0	0.043863	0	0		C	48312083	C	C	48312083	3	2	182	1	0	0	0	0	1	0	0	0	31	69	3	5	2715	5	ABCA13	7	48312083	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	27487302	48312083	110826580	40	92054											
PEG10	23089	broad.mit.edu	37	chr7	94293259	94293259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatgaccggccgtgctgccCgttgggcctcagcaaagctg	6	8	14	13	3	1	2	1	2	0	0	1	2	1	2	4	2	4	4	4	2	1	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr7:94293259C>T	uc011kie.1	+	2	836	c.619C>T	c.(619-621)CGT>TGT	p.R207C		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	131	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CCGTGCTGCCCGTTGGGCCTC	0.547													71	85					0	0	0.048971	0	0		T	94293259	T	T	94293259	3	4	182	1	0	0	0	0	1	0	0	0	11738	652	23	1	625	1	PEG10	7	94293259	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	45981176	94293259	64845404	41	92055											
SLC37A3	84255	broad.mit.edu	37	chr7	140045671	140045671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttgcaaaagaatactcacgaCtatacccgatgagggaccca	15	7	8	11	2	1	2	1	1	0	1	1	5	1	3	2	1	3	1	2	1	6	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr7:140045671C>T	uc003vvo.2	-	11	1290	c.1124G>A	c.(1123-1125)AGT>AAT	p.S375N	SLC37A3_uc003vvn.2_5'Flank|SLC37A3_uc003vvp.2_Intron|SLC37A3_uc010lnh.2_Missense_Mutation_p.S375N	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	375	Helical; (Potential).				carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					ATACTCACGACTATACCCGAT	0.493													27	79					0	0	0.0918	0	0		T	140045671	T	T	140045671	3	4	182	1	0	0	0	0	1	0	0	0	14624	565	20	4	529	4	SLC37A3	7	140045671	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	45752412	140045671	19092992	42	92056											
NOM1	64434	broad.mit.edu	37	chr7	156755738	156755738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggttctgagacgcagcttCgcgtctcctgggacagtgtc	6	10	13	12	3	2	1	0	1	2	1	5	3	2	2	1	2	1	3	1	2	0	2	rs138117452		TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr7:156755738C>T	uc003wmy.2	+	6	1795	c.1780C>T	c.(1780-1782)CGC>TGC	p.R594C	NOM1_uc010lqp.1_Missense_Mutation_p.R43C	NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	594					RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GACGCAGCTTCGCGTCTCCTG	0.562													12	27					0	0	0.09319	0	0		T	156755738	T	T	156755738	3	4	182	1	0	0	0	0	1	0	0	0	10549	884	31	1	1802	1	NOM1	7	156755738	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	16710067	156755738	2382925	43	92057											
DENND3	22898	broad.mit.edu	37	chr8	142165949	142165949	+	Missense_Mutation	SNP	A	T	T	1	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	atgattccttgttttctaggAagccgacggtttagttctga	8	16	10	7	2	2	2	0	2	2	0	3	4	3	3	2	2	1	3	2	2	3	8			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr8:142165949A>T	uc003yvy.2	+	8	1114	c.836A>T	c.(835-837)GAA>GTA	p.E279V	DENND3_uc010mep.2_Missense_Mutation_p.E292V|DENND3_uc003yvz.1_5'Flank	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	279	DENN.									ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GTTTTCTAGGAAGCCGACGGT	0.393													5	78					0	0	0.014758	0	0		T	142165949	T	T	142165949	3	4	182	1	0	0	0	0	1	0	0	0	4438	260	9	5	862	5	DENND3	8	142165949	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08		142165949	4198073	44	92058											
CYC1	1537	broad.mit.edu	37	chr8	145150852	145150852	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atggctctgcattcggctgtGagtgccagtgacctggagct	6	11	14	10	1	1	2	0	2	1	0	2	3	1	3	2	3	3	4	2	3	0	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr8:145150852G>C	uc003zaz.3	+	2	289	c.246G>C	c.(244-246)GTG>GTC	p.V82V	CYC1_uc003zay.2_Silent_p.V23V	NM_001916	NP_001907	P08574	CY1_HUMAN	cytochrome c-1	82					respiratory electron transport chain|transport	cell junction|integral to membrane|mitochondrial inner membrane|respiratory chain	electron transporter, transferring electrons from CoQH2-cytochrome c reductase complex and cytochrome c oxidase complex activity|heme binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;8.71e-40)|all cancers(56;3e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ATTCGGCTGTGAGTGCCAGTG	0.662											OREG0019052	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	52					0	0	0.059317	0	0		C	145150852	C	C	145150852	2	2	182	1	0	0	0	0	0	0	0	1	4138	1277	45	5		5	CYC1	8	145150852	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08	2984903	145150852	1213170	45	92059											
NPR2	4882	broad.mit.edu	37	chr9	35792588	35792588	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgggccgggcactgccCgtggacctgcggtttgtcag	3	9	16	13	3	2	0	1	0	1	0	2	1	2	1	3	4	2	3	3	4	0	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr9:35792588C>T	uc003zyd.2	+	1	183	c.183C>T	c.(181-183)CCC>CCT	p.P61P	NPR2_uc010mlb.2_Silent_p.P61P	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	61	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	GGGCACTGCCCGTGGACCTGC	0.662													14	60					0	0	0.105934	0	0		T	35792588	T	T	35792588	2	4	182	1	0	0	0	0	0	0	0	1	10614	639	23	1		1	NPR2	9	35792588	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08		35792588	105420843	46	92060											
TJP2	9414	broad.mit.edu	37	chr9	71852827	71852827	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acctgtggtcttattcggccCcatagctgatatagcaatgg	9	12	10	10	1	1	1	0	1	1	0	2	1	1	1	3	3	2	2	3	3	5	5			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr9:71852827C>G	uc004ahe.2	+	15	2413	c.2213C>G	c.(2212-2214)CCC>CGC	p.P738R	TJP2_uc011lrs.1_Missense_Mutation_p.P715R|TJP2_uc011lrt.1_Missense_Mutation_p.P715R|TJP2_uc004ahd.2_Missense_Mutation_p.P738R|TJP2_uc004ahf.2_Missense_Mutation_p.P738R|TJP2_uc011lru.1_Missense_Mutation_p.P742R|TJP2_uc011lrv.1_Missense_Mutation_p.P760R	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	738	Guanylate kinase-like.				cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						TTATTCGGCCCCATAGCTGAT	0.363													27	27					0	0	0.041601	0	0		G	71852827	G	G	71852827	3	3	182	1	0	0	0	0	1	0	0	0	15955	623	22	5	2428	5	TJP2	9	71852827	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	36060239	71852827	69360604	47	92061											
PCSK5	5125	broad.mit.edu	37	chr9	78711019	78711019	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcctacgataagaaaatcGtacgtgacatgtgcatgccc	13	9	9	10	3	0	2	0	1	0	1	2	3	1	2	2	0	4	2	2	0	5	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr9:78711019G>A	uc004ajz.2	+	8	1645	c.1107_splice	c.e8+1	p.I369_splice	PCSK5_uc004ajy.2_Splice_Site_p.I369_splice|PCSK5_uc004aka.2_Splice_Site	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5						anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						TAAGAAAATCGTACGTGACAT	0.398													8	23					0	0	0.047766	0	0		A	78711019	A	A	78711019	5	1	182	1	0	0	0	0	0	0	1	0	11622	1159	40	1	1138	1	PCSK5	9	78711019	Splice_Site	SNP	G	TCGA-D7-8573-01A-11D-2340-08	6858192	78711019	62502412	48	92062											
PRUNE2	158471	broad.mit.edu	37	chr9	79322403	79322403	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaatccttcactttggtaActatttctacttggccatca	10	16	4	11	0	3	0	2	0	1	0	4	0	4	0	2	2	2	1	2	2	5	8			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr9:79322403A>G	uc010mpk.2	-	8	4911	c.4787T>C	c.(4786-4788)GTT>GCT	p.V1596A		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1596					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CACTTTGGTAACTATTTCTAC	0.373													10	40					0	0	0.058154	0	0		G	79322403	G	G	79322403	3	3	182	1	0	0	0	0	1	0	0	0	12663	43	2	3	4527	3	PRUNE2	9	79322403	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	611384	79322403	61891028	49	92063											
XPA	7507	broad.mit.edu	37	chr9	100447318	100447318	+	Missense_Mutation	SNP	A	G	G	1	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	aaacttcaagagacctcttcAcaatctacaacacaaaatcc	18	8	2	13	0	4	1	2	0	2	1	5	2	5	1	2	0	3	0	2	0	7	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr9:100447318A>G	uc004axr.3	-	5	677	c.560T>C	c.(559-561)GTG>GCG	p.V187A	XPA_uc004axs.3_RNA	NM_000380	NP_000371	P23025	XPA_HUMAN	xeroderma pigmentosum, complementation group A	187					nucleotide-excision repair, DNA damage removal	nucleoplasm	damaged DNA binding|metal ion binding|nucleotide binding|protein domain specific binding|protein homodimerization activity			breast(1)	1		Acute lymphoblastic leukemia(62;0.158)				AGACCTCTTCACAATCTACAA	0.338			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				20	31					0	0	0.049695	0	0		G	100447318	G	G	100447318	3	3	182	1	0	0	0	0	1	0	0	0	17466	159	6	3	269	3	XPA	9	100447318	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	21124915	100447318	40766113	50	92064											
ZER1	10444	broad.mit.edu	37	chr9	131517699	131517699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcactcattgacgagcCggtcacagatctcgctgggc	7	9	11	14	3	4	2	3	1	1	1	5	3	4	2	1	2	2	2	1	2	0	1	rs148381372		TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr9:131517699C>T	uc004bwa.1	-	2	579	c.146G>A	c.(145-147)CGG>CAG	p.R49Q		NM_006336	NP_006327	Q7Z7L7	ZER1_HUMAN	zyg-11 homolog B (C. elegans)-like	49					ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1						ATTGACGAGCCGGTCACAGAT	0.582													56	69					0	0	0.048971	0	0		T	131517699	T	T	131517699	3	4	182	1	0	0	0	0	1	0	0	0	17650	652	23	1	2214	1	ZER1	9	131517699	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	31070381	131517699	9695732	51	92065											
NCOA4	8031	broad.mit.edu	37	chr10	51580946	51580946	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaacaaagatctagccaatCaagtctctgtgtgcctggag	14	9	9	9	0	3	1	1	0	2	1	4	2	3	2	2	1	3	0	2	1	6	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr10:51580946C>T	uc001jis.3	+	4	552	c.349C>T	c.(349-351)CAA>TAA	p.Q117*	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Nonsense_Mutation_p.Q133*|NCOA4_uc010qhd.1_Nonsense_Mutation_p.Q133*|NCOA4_uc010qhe.1_Intron|NCOA4_uc010qhf.1_Intron|NCOA4_uc001jit.2_Nonsense_Mutation_p.Q117*|NCOA4_uc009xoo.2_Nonsense_Mutation_p.Q117*	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	117					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						TCTAGCCAATCAAGTCTCTGT	0.368			T	RET	papillary thyroid 								16	32					0	0	0.028581	0	0		T	51580946	T	T	51580946	4	4	182	1	0	0	0	0	0	1	0	0	10250	827	29	4	411	4	NCOA4	10	51580946	Nonsense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08		51580946	83953801	52	92066											
ZNF143	7702	broad.mit.edu	37	chr11	9534124	9534124	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaacaagttacactcatatCccaggatgggactcagcatg	13	9	8	11	0	3	0	3	0	0	0	4	2	4	2	1	2	3	2	1	2	4	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr11:9534124C>A	uc001mhr.2	+	13	1623	c.1505C>A	c.(1504-1506)TCC>TAC	p.S502Y	ZNF143_uc009yfu.2_Missense_Mutation_p.S501Y|ZNF143_uc010rby.1_Missense_Mutation_p.S471Y	NM_003442	NP_003433	P52747	ZN143_HUMAN	zinc finger protein 143	502					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding|zinc ion binding				0				all cancers(16;4.12e-09)|Epithelial(150;2.29e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0212)		ACACTCATATCCCAGGATGGG	0.458													30	72					7.26314e-15	7.67988e-15	0.034045	1	0		A	9534124	A	A	9534124	3	1	182	1	0	0	0	0	1	0	0	0	17757	855	30	5	1551	5	ZNF143	11	9534124	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08		9534124	125472392	53	92067											
QSER1	79832	broad.mit.edu	37	chr11	32956285	32956285	+	Missense_Mutation	SNP	A	T	T	1	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	ttaccttagggggtgacgacAgtggtgtgtcaatgaaccca	10	10	13	8	1	1	2	1	2	0	0	1	3	1	2	2	3	2	0	2	3	4	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr11:32956285A>T	uc001mty.2	+	4	3361	c.3094A>T	c.(3094-3096)AGT>TGT	p.S1032C	QSER1_uc001mtz.1_Missense_Mutation_p.S793C|QSER1_uc001mua.2_Missense_Mutation_p.S537C	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	1032										ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					GGGTGACGACAGTGGTGTGTC	0.428													36	41					0	0	0.064281	0	0		T	32956285	T	T	32956285	3	4	182	1	0	0	0	0	1	0	0	0	12907	188	7	5	3100	5	QSER1	11	32956285	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	23422161	32956285	102050231	54	92068											
MARK2	2011	broad.mit.edu	37	chr11	63606995	63606995	+	Frame_Shift_Del	DEL	C	-	-																															cgccatgtccagcgctcggaCccccctacccacgctgaacg																										TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr11:63606995delC	uc001nxw.2	+	1	596	c.17delC	c.(16-18)ACCfs	p.T6fs	MARK2_uc001nxx.2_Frame_Shift_Del_p.T6fs|MARK2_uc001nxy.2_Frame_Shift_Del_p.T6fs|MARK2_uc001nxv.3_Frame_Shift_Del_p.T6fs	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	6					cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						AGCGCTCGGACCCCCCTACCC	0.692													2	4	---	---	---	---						.	-	63606995	-	-	63606995	7	5	182	1	0	1	0	1	0	0	0	0	9331	507	18	0	19	0	MARK2	11	63606995	Frame_Shift_Del	DEL	C	TCGA-D7-8573-01A-11D-2340-08	30650710	63606995	71399521	55	92069											
TYR	7299	broad.mit.edu	37	chr11	89028354	89028354	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attaagtcctatttggaacaAgcgagtcggatctggtcatg	11	12	11	7	2	2	0	1	0	1	0	4	3	3	2	1	3	2	0	1	3	4	3	rs148363723		TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr11:89028354A>C	uc001pcs.2	+	5	1492	c.1410A>C	c.(1408-1410)CAA>CAC	p.Q470H		NM_000372	NP_000363	P14679	TYRO_HUMAN	tyrosinase precursor	470	Lumenal, melanosome (Potential).				eye pigment biosynthetic process|melanin biosynthetic process from tyrosine|visual perception	Golgi-associated vesicle|integral to membrane|lysosome|melanosome membrane|perinuclear region of cytoplasm	copper ion binding|monophenol monooxygenase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.0033)			Azelaic Acid(DB00548)|Mimosine(DB01055)|NADH(DB00157)	ATTTGGAACAAGCGAGTCGGA	0.493									Oculocutaneous_Albinism				12	50					0	0	0.105934	0	0		C	89028354	C	C	89028354	3	2	182	1	0	0	0	0	1	0	0	0	16839	69	3	5	1428	5	TYR	11	89028354	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	25421359	89028354	45978162	56	92070											
ATM	472	broad.mit.edu	37	chr11	108121429	108121429	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cctttttttttttttttaggCtacagattgcaacccaatta	9	20	4	8	0	0	1	0	0	0	1	0	1	0	1	2	1	3	2	2	1	5	11			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr11:108121429C>A	uc001pkb.1	+	10	1622	c.1237C>A	c.(1237-1239)CTA>ATA	p.L413I	ATM_uc009yxr.1_Missense_Mutation_p.L413I	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	413					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		TTTTTTTAGGCTACAGATTGC	0.318			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)			9	52					7.48243e-07	7.72187e-07	0.058154	1	0		A	108121429	A	A	108121429	3	1	182	1	0	0	0	0	1	0	0	0	1110	811	28	5	1271	5	ATM	11	108121429	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	19093075	108121429	26885087	57	92071											
NTM	50863	broad.mit.edu	37	chr11	132016184	132016184	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcccttcaggtgcactaTtgacaaccgggtcacccggg	7	10	10	14	2	3	1	2	1	1	0	4	1	4	1	3	3	2	1	3	3	2	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr11:132016184T>G	uc001qgp.2	+	2	840	c.176T>G	c.(175-177)ATT>AGT	p.I59S	NTM_uc001qgm.2_Missense_Mutation_p.I59S|NTM_uc010sch.1_Missense_Mutation_p.I50S|NTM_uc010sci.1_Missense_Mutation_p.I59S|NTM_uc010scj.1_Missense_Mutation_p.I18S|NTM_uc001qgo.2_Missense_Mutation_p.I59S|NTM_uc001qgq.2_Missense_Mutation_p.I59S	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	59	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						AGGTGCACTATTGACAACCGG	0.567													13	30					0	0	0.09319	0	0		G	132016184	G	G	132016184	3	3	182	1	0	0	0	0	1	0	0	0	10718	1493	52	5	268	5	NTM	11	132016184	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08	23894755	132016184	2990332	58	92072											
GABARAPL1	23710	broad.mit.edu	37	chr12	10373115	10373115	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattcttctttgtcaacaaCaccatccctcccaccagtgc	9	13	3	16	0	3	0	1	0	2	0	5	0	5	0	4	0	3	0	4	0	3	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:10373115C>T	uc001qxs.2	+	3	486	c.246C>T	c.(244-246)AAC>AAT	p.N82N	GABARAPL1_uc010shb.1_Silent_p.N82N|GABARAPL1_uc001qxt.2_RNA|GABARAPL1_uc001qxu.2_RNA	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1	82						autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0						TTGTCAACAACACCATCCCTC	0.498													12	77					0	0	0.105934	0	0		T	10373115	T	T	10373115	2	4	182	1	0	0	0	0	0	0	0	1	6167	477	17	4		4	GABARAPL1	12	10373115	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08		10373115	123478780	59	92073											
KLRC3	3823	broad.mit.edu	37	chr12	10573147	10573147	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggttcctctttgtttactCatctctgcagctgtgtgatg	6	17	9	9	0	3	1	1	1	2	0	5	1	4	1	1	1	3	4	1	1	2	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:10573147C>A	uc001qyf.2	-	1	48	c.3G>T	c.(1-3)ATG>ATT	p.M1I	KLRC3_uc001qyh.2_Intron|KLRC3_uc001qyi.1_Missense_Mutation_p.M1I|KLRC3_uc010shc.1_Missense_Mutation_p.M1I|KLRC3_uc010shd.1_Missense_Mutation_p.M1I	NM_002261	NP_002252	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C,	1	Cytoplasmic (Potential).				cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|skin(1)	3						TTTGTTTACTCATCTCTGCAG	0.448													17	61					4.63292e-17	4.93923e-17	0.049695	1	0		A	10573147	A	A	10573147	3	1	182	1	0	0	0	0	1	0	0	0	8433	826	29	5	843	5	KLRC3	12	10573147	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	200032	10573147	123278748	60	92074											
KLRC3	3823	broad.mit.edu	37	chr12	10588583	10588583	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggttcctctttgtttattCatctctgcagctgtgtgatg	6	18	9	8	0	3	1	1	1	2	0	5	1	4	1	1	1	2	4	1	1	2	5			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:10588583C>A	uc001qyh.2	-	1	10	c.3G>T	c.(1-3)ATG>ATT	p.M1I	KLRC2_uc010she.1_Missense_Mutation_p.M1I|KLRC2_uc001qyk.2_Missense_Mutation_p.M1I	NM_002261	NP_002252	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C,	1	Cytoplasmic (Potential).				cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|skin(1)	3						TTTGTTTATTCATCTCTGCAG	0.448													22	138					1.39806e-14	1.46625e-14	0.037714	1	0		A	10588583	A	A	10588583	3	1	182	1	0	0	0	0	1	0	0	0	8433	826	29	5		5	KLRC3	12	10588583	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	15436	10588583	123263312	61	92075											
BICD1	636	broad.mit.edu	37	chr12	32481286	32481286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccttaatgccataatcCgggaccaaatcaagcatctg	15	8	6	12	1	2	0	1	0	1	0	3	1	3	1	4	1	3	1	4	1	5	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:32481286C>T	uc001rku.2	+	5	1978	c.1897C>T	c.(1897-1899)CGG>TGG	p.R633W	BICD1_uc001rkv.2_Missense_Mutation_p.R633W|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	633					anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			TGCCATAATCCGGGACCAAAT	0.483													64	85					0	0	0.048971	0	0		T	32481286	T	T	32481286	3	4	182	1	0	0	0	0	1	0	0	0	1429	643	23	1	1915	1	BICD1	12	32481286	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	21892703	32481286	101370609	62	92076											
RPAP3	79657	broad.mit.edu	37	chr12	48091496	48091496	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtcaagctcatcaaggaTacggtcctaaaatcaaaaga	16	10	7	8	1	4	1	4	0	0	1	5	2	5	2	1	2	2	1	1	2	7	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:48091496T>C	uc001rpr.2	-	4	417	c.301A>G	c.(301-303)ATC>GTC	p.I101V	RPAP3_uc010slk.1_5'UTR|RPAP3_uc001rps.2_Missense_Mutation_p.I101V	NM_024604	NP_078880	Q9H6T3	RPAP3_HUMAN	RNA polymerase II associated protein 3 isoform	101							binding			ovary(1)	1	Lung SC(27;0.192)					TCATCAAGGATACGGTCCTAA	0.353													30	69					0	0	0.034045	0	0		C	48091496	C	C	48091496	3	2	182	1	0	0	0	0	1	0	0	0	13568	1406	49	3	1752	3	RPAP3	12	48091496	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08	15610210	48091496	85760399	63	92077											
RDH16	8608	broad.mit.edu	37	chr12	57348759	57348759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaccaaaaagtgacaccCggcccatgacactggagacg	13	4	9	15	2	0	3	0	2	0	1	1	4	1	3	4	2	0	0	4	2	2	0			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:57348759C>T	uc001smi.3	-	2	675	c.503G>A	c.(502-504)CGG>CAG	p.R168Q	RDH16_uc009zpa.2_Intron	NM_003708	NP_003699	O75452	RDH16_HUMAN	retinol dehydrogenase 16	168	Cytoplasmic (Potential).				lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	binding|electron carrier activity|retinol dehydrogenase activity				0						AAGTGACACCCGGCCCATGAC	0.587													14	61					0	0	0.105934	0	0		T	57348759	T	T	57348759	3	4	182	1	0	0	0	0	1	0	0	0	13219	652	23	1	462	1	RDH16	12	57348759	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	9257263	57348759	76503136	64	92078											
TSPAN31	6302	broad.mit.edu	37	chr12	58139600	58139600	+	Missense_Mutation	SNP	A	G	G	1	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	tggtgtccagcatccacatcAtcggcggagtcattgctgtg	7	11	12	11	2	2	0	2	0	0	0	5	1	4	1	2	3	2	2	2	3	0	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:58139600A>G	uc001spt.2	+	2	290	c.136A>G	c.(136-138)ATC>GTC	p.I46V	TSPAN31_uc009zqb.2_Missense_Mutation_p.I46V|TSPAN31_uc010ssa.1_5'UTR	NM_005981	NP_005972	Q12999	TSN31_HUMAN	sarcoma amplified sequence	46	Helical; (Potential).				positive regulation of cell proliferation	integral to plasma membrane|membrane fraction					0	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)			CATCCACATCATCGGCGGAGT	0.542													30	67					0	0	0.045705	0	0		G	58139600	G	G	58139600	3	3	182	1	0	0	0	0	1	0	0	0	16672	217	8	3	142	3	TSPAN31	12	58139600	Missense_Mutation	SNP	A	TCGA-D7-8573-01A-11D-2340-08	790841	58139600	75712295	65	92079											
ASCL1	429	broad.mit.edu	37	chr12	103352565	103352565	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgagcatgacgcggtgagCgccgccttccaggcaggcgt	7	5	16	13	6	0	2	0	2	0	0	1	4	1	2	3	3	2	2	3	3	0	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:103352565C>T	uc001tjr.3	+	1	1114	c.543C>T	c.(541-543)AGC>AGT	p.S181S		NM_004316	NP_004307	P50553	ASCL1_HUMAN	achaete-scute complex homolog 1	181					cerebral cortex GABAergic interneuron differentiation|negative regulation of apoptosis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|noradrenergic neuron fate commitment|Notch signaling pathway|positive regulation of neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|response to retinoic acid|sympathetic nervous system development	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0						ACGCGGTGAGCGCCGCCTTCC	0.647													6	57					0	0	0.021553	0	0		T	103352565	T	T	103352565	2	4	182	1	0	0	0	0	0	0	0	1	1035	767	27	1		1	ASCL1	12	103352565	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08	45212965	103352565	30499330	66	92080											
ACACB	32	broad.mit.edu	37	chr12	109680320	109680320	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctccctacgtcaccaaggatCtgctccaggccaagcgattc	9	8	8	16	2	2	0	1	0	1	0	5	2	4	1	4	2	3	1	4	2	3	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr12:109680320C>G	uc001tob.2	+	37	5220	c.5101C>G	c.(5101-5103)CTG>GTG	p.L1701V	ACACB_uc001toc.2_Missense_Mutation_p.L1701V|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.L367V	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1701					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CACCAAGGATCTGCTCCAGGC	0.567													12	79					0	0	0.09319	0	0		G	109680320	G	G	109680320	3	3	182	1	0	0	0	0	1	0	0	0	107	912	32	5	5243	5	ACACB	12	109680320	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	6327755	109680320	24171575	67	92081											
SERPINE3	647174	broad.mit.edu	37	chr13	51921358	51921358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatgatgcaccaaacgaccGaggtcaactacggtgagctc	12	6	10	13	3	1	2	1	2	0	0	2	4	1	2	3	2	5	2	3	2	3	1	rs116923084	by1000genomes	TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr13:51921358G>A	uc001vfh.2	+	3	748	c.688G>A	c.(688-690)GAG>AAG	p.E230K	SERPINE3_uc010tgp.1_Missense_Mutation_p.E230K	NM_001101320	NP_001094790	A8MV23	SERP3_HUMAN	nexin-related serine protease inhibitor	230					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)	2						CCAAACGACCGAGGTCAACTA	0.582													4	22					0	0	0.009096	0	0		A	51921358	A	A	51921358	3	1	182	1	0	0	0	0	1	0	0	0	14138	1059	37	1	698	1	SERPINE3	13	51921358	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08		51921358	63248520	68	92082											
SLITRK1	114798	broad.mit.edu	37	chr13	84454740	84454740	+	Silent	SNP	T	C	C	0	1	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	cctccgtttggagcagacccTggtgtggcatgatcctcttg	5	12	12	12	1	1	2	0	1	1	1	3	3	3	3	4	3	1	3	4	3	0	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr13:84454740T>C	uc001vlk.2	-	1	1789	c.903A>G	c.(901-903)CCA>CCG	p.P301P		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	301	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		GAGCAGACCCTGGTGTGGCAT	0.557													6	67					0	0	0.021553	0	0		C	84454740	C	C	84454740	2	2	182	1	0	0	0	0	0	0	0	1	14767	1567	55	3		3	SLITRK1	13	84454740	Silent	SNP	T	TCGA-D7-8573-01A-11D-2340-08	32533382	84454740	30715138	69	92083											
KIF26A	26153	broad.mit.edu	37	chr14	104624226	104624226	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctggtcacccccaccccGggctcggtggggggctccac	3	5	14	19	2	1	0	1	0	0	0	3	0	2	0	6	6	0	2	6	6	0	0			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr14:104624226G>A	uc001yos.3	+	4	870	c.870G>A	c.(868-870)CCG>CCA	p.P290P		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	290					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		CCCCCACCCCGGGCTCGGTGG	0.692													6	10					0	0	0.021553	0	0		A	104624226	A	A	104624226	2	1	182	1	0	0	0	0	0	0	0	1	8310	1103	39	1		1	KIF26A	14	104624226	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08		104624226	2725314	70	92084											
GABRA5	2558	broad.mit.edu	37	chr15	27128531	27128531	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagctggaaagatgaaagGcttcggtttaaggggcccat	13	8	13	7	1	0	2	0	1	0	1	1	3	0	3	1	5	1	3	1	5	4	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr15:27128531G>T	uc001zbd.1	+	7	663	c.324G>T	c.(322-324)AGG>AGT	p.R108S	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	108	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AAGATGAAAGGCTTCGGTTTA	0.572													58	39					9.53978e-28	1.03414e-27	0.048971	1	0		T	27128531	T	T	27128531	3	4	182	1	0	0	0	0	1	0	0	0	6178	1194	42	5	338	5	GABRA5	15	27128531	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08		27128531	75402861	71	92085											
LINGO1	84894	broad.mit.edu	37	chr15	77907869	77907869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcttcaggcggttgctgCggagacccagcgtccggagg	6	7	17	11	4	1	2	1	1	0	1	2	4	2	3	2	5	4	3	2	5	0	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr15:77907869C>T	uc002bct.1	-	2	432	c.380G>A	c.(379-381)CGC>CAC	p.R127H	LINGO1_uc002bcu.1_Missense_Mutation_p.R121H	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	127	Extracellular (Potential).|LRR 3.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GCGGTTGCTGCGGAGACCCAG	0.602													6	37					0	0	0.021553	0	0		T	77907869	T	T	77907869	3	4	182	1	0	0	0	0	1	0	0	0	8831	768	27	1	1486	1	LINGO1	15	77907869	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	50779338	77907869	24623523	72	92086											
ACSBG1	23205	broad.mit.edu	37	chr15	78526816	78526816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtccccgtgtgggcagcCgtatccagctccagaattgc	6	8	14	13	2	0	1	0	0	0	1	3	1	3	1	5	3	3	3	5	3	2	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr15:78526816C>T	uc002bdh.2	-	1	84	c.28G>A	c.(28-30)GGC>AGC	p.G10S	ACSBG1_uc010umw.1_Missense_Mutation_p.G10S|ACSBG1_uc010umx.1_5'UTR|ACSBG1_uc010umy.1_5'UTR	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	10					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						TGTGGGCAGCCGTATCCAGCT	0.582													61	102					0	0	0.048971	0	0		T	78526816	T	T	78526816	3	4	182	1	0	0	0	0	1	0	0	0	173	652	23	1	2202	1	ACSBG1	15	78526816	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	618947	78526816	24004576	73	92087											
KSR1	8844	broad.mit.edu	37	chr17	25924413	25924413	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccatccagcgccaccacGccccccaacccctcacctgg	9	3	5	24	2	1	0	1	0	0	0	2	0	2	0	10	1	3	0	10	1	2	0			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr17:25924413G>A	uc010crg.2	+	10	1453	c.1008G>A	c.(1006-1008)ACG>ACA	p.T336T	KSR1_uc002gzj.1_RNA|KSR1_uc002gzm.2_Silent_p.T137T	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	kinase suppressor of ras	471					Ras protein signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(1)	4	Lung NSC(42;0.00836)		BRCA - Breast invasive adenocarcinoma(3;0.00122)	UCEC - Uterine corpus endometrioid carcinoma (53;0.168)		GCGCCACCACGCCCCCCAACC	0.617													4	32					0	0	0.021553	0	0		A	25924413	A	A	25924413	2	1	182	1	0	0	0	0	0	0	0	1	8597	1074	38	1		1	KSR1	17	25924413	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08		25924413	55270797	74	92088											
JUP	3728	broad.mit.edu	37	chr17	39919515	39919515	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtggcacaggtgaggacgTtgacgtcatccacactcagc	9	7	12	13	3	2	2	2	2	0	0	3	3	3	3	2	3	1	2	2	3	0	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr17:39919515T>C	uc002hxq.2	-	8	1494	c.1217A>G	c.(1216-1218)AAC>AGC	p.N406S	JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Missense_Mutation_p.N406S|JUP_uc002hxs.2_Missense_Mutation_p.N406S	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	406	ARM 5.				adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		GGTGAGGACGTTGACGTCATC	0.577													22	32					0	0	0.076483	0	0		C	39919515	C	C	39919515	3	2	182	1	0	0	0	0	1	0	0	0	7988	1725	60	3	1048	3	JUP	17	39919515	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08	13995102	39919515	41275695	75	92089											
THOC4	10189	broad.mit.edu	37	chr17	79846121	79846121	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccccgggactcactctcGcattataggcgtccagctgg	6	9	10	16	3	2	0	1	0	1	0	5	1	4	1	3	3	1	2	3	3	2	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr17:79846121G>C	uc002kbu.2	-	5	782	c.776C>G	c.(775-777)GCG>GGG	p.A259G		NM_005782	NP_005773	Q86V81	THOC4_HUMAN	THO complex 4	252					intronless viral mRNA export from host nucleus|mRNA 3'-end processing|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear speck|transcription export complex	nucleotide binding|protein binding|RNA binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			ACTCACTCTCGCATTATAGGC	0.632													18	31					0	0	0.038395	0	0		C	79846121	C	C	79846121	3	2	182	1	0	0	0	0	1	0	0	0	15892	1087	38	5	26	5	THOC4	17	79846121	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	39926606	79846121	1349089	76	92090											
DTNA	1837	broad.mit.edu	37	chr18	32398276	32398276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catagcaaccagcaccaaatGaaagagtacacgtcatgggt	16	6	9	10	1	1	2	1	1	0	1	1	2	1	2	2	1	4	3	2	1	5	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr18:32398276G>A	uc010dmn.1	+	7	859	c.858G>A	c.(856-858)ATG>ATA	p.M286I	DTNA_uc002kxu.2_Missense_Mutation_p.M286I|DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Missense_Mutation_p.M286I|DTNA_uc002kxw.2_Missense_Mutation_p.M286I|DTNA_uc002kxx.2_Missense_Mutation_p.M286I|DTNA_uc010dmj.2_Missense_Mutation_p.M286I|DTNA_uc002kxz.2_Missense_Mutation_p.M286I|DTNA_uc002kxy.2_Missense_Mutation_p.M286I|DTNA_uc010dmk.1_RNA|DTNA_uc010dml.2_Missense_Mutation_p.M286I|DTNA_uc002kyb.3_Missense_Mutation_p.M286I|DTNA_uc010dmm.2_Missense_Mutation_p.M286I|DTNA_uc010xby.1_Missense_Mutation_p.M36I|DTNA_uc010dmo.2_5'Flank|DTNA_uc002kyd.3_5'Flank|DTNA_uc010xbz.1_5'Flank|DTNA_uc010xca.1_5'Flank|DTNA_uc002kye.2_5'Flank	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	286	Interaction with MAGEE1 (By similarity).				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						AGCACCAAATGAAAGAGTACA	0.502													11	26					0	0	0.080935	0	0		A	32398276	A	A	32398276	3	1	182	1	0	0	0	0	1	0	0	0	4794	1290	45	4	884	4	DTNA	18	32398276	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08		32398276	45678972	77	92091											
TMEM91	641649	broad.mit.edu	37	chr19	41888765	41888765	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgaccacctcggcttggctgTcttctccatgctgtgttgtt	3	15	10	13	2	2	0	0	0	2	0	4	1	2	0	3	2	1	5	3	2	0	4			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr19:41888765T>C	uc002oqk.3	+	3	650	c.299T>C	c.(298-300)GTC>GCC	p.V100A	CYP2F1_uc010xvw.1_Intron|TMEM91_uc002oqi.2_Missense_Mutation_p.V100A|TMEM91_uc010ehq.2_Missense_Mutation_p.V100A|TMEM91_uc002oql.2_Missense_Mutation_p.V100A|TMEM91_uc010ehr.2_Missense_Mutation_p.V100A|TMEM91_uc010ehs.2_Missense_Mutation_p.V100A|TMEM91_uc010eht.2_Missense_Mutation_p.V100A|BCKDHA_uc002oqm.3_Intron|TMEM91_uc002oqn.2_Missense_Mutation_p.V100A	NM_001098821	NP_001092291	Q6ZNR0	TMM91_HUMAN	transmembrane protein 91 isoform a	100	Helical; (Potential).				response to biotic stimulus	integral to membrane					0						GGCTTGGCTGTCTTCTCCATG	0.567													55	524					0	0	0.048971	0	0		C	41888765	C	C	41888765	3	2	182	1	0	0	0	0	1	0	0	0	16245	1667	58	3	305	3	TMEM91	19	41888765	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08		41888765	17240218	78	92092											
DBP	1628	broad.mit.edu	37	chr19	49136834	49136834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttgatagggcaagatcaGctgggtcgggttcaaaggtc	9	10	15	7	1	2	2	2	1	0	1	4	2	2	2	0	4	2	4	0	4	3	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr19:49136834G>A	uc002pjx.3	-	3	1017	c.629C>T	c.(628-630)GCT>GTT	p.A210V	DBP_uc002pjy.2_3'UTR|DBP_uc010elz.1_Missense_Mutation_p.A210V	NM_001352	NP_001343	Q10586	DBP_HUMAN	D site of albumin promoter (albumin D-box)	210	Pro-rich (proline/acidic region (PAR)).				regulation of transcription from RNA polymerase II promoter|rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		GGCAAGATCAGCTGGGTCGGG	0.557													56	79					0	0	0.048971	0	0		A	49136834	A	A	49136834	3	1	182	1	0	0	0	0	1	0	0	0	4259	971	34	2	356	2	DBP	19	49136834	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	7248069	49136834	9992149	79	92093											
SHANK1	50944	broad.mit.edu	37	chr19	51192535	51192535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctccttaatgatgtaatCgctggcagggaggcaggaga	10	10	13	8	1	1	2	0	1	1	1	3	4	1	3	1	4	0	4	1	4	2	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr19:51192535C>T	uc002psx.1	-	15	1985	c.1966G>A	c.(1966-1968)GAT>AAT	p.D656N	SHANK1_uc002psw.1_Missense_Mutation_p.D40N	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	656					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		ATGATGTAATCGCTGGCAGGG	0.607													16	49					0	0	0.024245	0	0		T	51192535	T	T	51192535	3	4	182	1	0	0	0	0	1	0	0	0	14289	898	31	1	4555	1	SHANK1	19	51192535	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	2055701	51192535	7936448	80	92094											
SIGLEC10	89790	broad.mit.edu	37	chr19	51918541	51918541	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acccgaggcagctccaggacCccggggtctgagggctggga	7	4	17	13	2	1	1	0	1	1	0	2	4	2	3	4	6	1	3	4	6	0	0			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr19:51918541C>T	uc002pwo.2	-	7	1840	c.1224G>A	c.(1222-1224)GGG>GGA	p.G408G	SIGLEC10_uc002pwp.2_Silent_p.G350G|SIGLEC10_uc002pwq.2_Silent_p.G350G|SIGLEC10_uc002pwr.2_Silent_p.G408G|SIGLEC10_uc010ycy.1_Silent_p.G318G|SIGLEC10_uc010ycz.1_Silent_p.G360G|SIGLEC10_uc010eow.2_Silent_p.G220G|SIGLEC10_uc002pws.1_Silent_p.G244G	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	408	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GCTCCAGGACCCCGGGGTCTG	0.672													19	64					0	0	0.049695	0	0		T	51918541	T	T	51918541	2	4	182	1	0	0	0	0	0	0	0	1	14331	610	22	4		4	SIGLEC10	19	51918541	Silent	SNP	C	TCGA-D7-8573-01A-11D-2340-08	726006	51918541	7210442	81	92095											
NLRP7	199713	broad.mit.edu	37	chr19	55451653	55451653	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gttttccccacgcctgcgggGccgtgcagcaccaccgtgta	5	8	12	16	4	0	0	0	0	0	0	1	0	1	0	6	2	3	4	6	2	1	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr19:55451653G>A	uc002qih.3	-	4	610	c.534C>T	c.(532-534)GGC>GGT	p.G178G	NLRP7_uc002qig.3_Silent_p.G178G|NLRP7_uc002qii.3_Silent_p.G178G|NLRP7_uc010esk.2_Silent_p.G178G|NLRP7_uc010esl.2_Silent_p.G206G	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	178	NACHT.|ATP (Potential).						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CGCCTGCGGGGCCGTGCAGCA	0.547													30	138					0	0	0.037714	0	0		A	55451653	A	A	55451653	2	1	182	1	0	0	0	0	0	0	0	1	10501	1190	42	2		2	NLRP7	19	55451653	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08	3533112	55451653	3677330	82	92096											
NLRP13	126204	broad.mit.edu	37	chr19	56419268	56419268	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcagcttgctgttaccCtgaagggcaataatgaggtc	9	11	13	8	0	1	2	1	2	0	0	2	2	1	2	1	3	3	4	1	3	4	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr19:56419268C>A	uc010ygg.1	-	7	2362	c.2337G>T	c.(2335-2337)CAG>CAT	p.Q779H		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	779							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TGCTGTTACCCTGAAGGGCAA	0.502													62	55					1.31726e-23	1.41606e-23	0.048971	1	0		A	56419268	A	A	56419268	3	1	182	1	0	0	0	0	1	0	0	0	10494	680	24	5	812	5	NLRP13	19	56419268	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	967615	56419268	2709715	83	92097											
ZNF551	90233	broad.mit.edu	37	chr19	58199305	58199305	+	Silent	SNP	T	A	A	0	1	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	cagcaccggagacttcatacTggagaaaggccttatgaatg	13	8	11	9	1	1	3	1	1	0	2	1	5	1	3	2	3	2	1	2	3	4	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr19:58199305T>A	uc002qpw.3	+	3	1837	c.1614T>A	c.(1612-1614)ACT>ACA	p.T538T	ZNF551_uc002qpv.3_Silent_p.T481T|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GACTTCATACTGGAGAAAGGC	0.458													9	105					0	0	0.047766	0	0		A	58199305	A	A	58199305	2	1	182	1	0	0	0	0	0	0	0	1	18008	1567	55	5		5	ZNF551	19	58199305	Silent	SNP	T	TCGA-D7-8573-01A-11D-2340-08	1780037	58199305	929678	84	92098											
HCK	3055	broad.mit.edu	37	chr20	30671747	30671747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accctcggcagggagataccGtgaaacattacaagatccgg	13	6	11	11	3	0	3	0	1	0	2	2	4	1	3	3	3	3	1	3	3	4	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr20:30671747G>A	uc002wxh.2	+	7	754	c.583G>A	c.(583-585)GTG>ATG	p.V195M	HCK_uc010gdy.2_Missense_Mutation_p.V174M|HCK_uc002wxi.2_Missense_Mutation_p.V173M	NM_002110	NP_002101	P08631	HCK_HUMAN	hemopoietic cell kinase isoform p61HCK	195	SH2.				interspecies interaction between organisms|mesoderm development|regulation of defense response to virus by virus|viral reproduction	caveola|cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(4)|ovary(2)|central_nervous_system(2)|pancreas(1)	9			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			GGGAGATACCGTGAAACATTA	0.552													74	47					0	0	0.048971	0	0		A	30671747	A	A	30671747	3	1	182	1	0	0	0	0	1	0	0	0	7010	1145	40	1	615	1	HCK	20	30671747	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08		30671747	32353773	85	92099											
NPEPL1	79716	broad.mit.edu	37	chr20	57269511	57269511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccggaggtctttgcttccGcctgtgccctggcccgggcc	2	9	14	16	3	1	0	0	0	1	0	2	1	2	1	6	4	3	1	6	4	0	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr20:57269511G>A	uc010zzs.1	+	3	465	c.370G>A	c.(370-372)GCC>ACC	p.A124T	NPEPL1_uc010zzr.1_Missense_Mutation_p.A76T|NPEPL1_uc002xzn.2_RNA|NPEPL1_uc010gjo.1_Missense_Mutation_p.A96T|NPEPL1_uc002xzp.2_Missense_Mutation_p.A12T	NM_024663	NP_078939	Q8NDH3	PEPL1_HUMAN	aminopeptidase-like 1	124					proteolysis	cytoplasm	aminopeptidase activity|manganese ion binding|metalloexopeptidase activity				0	all_lung(29;0.0175)		BRCA - Breast invasive adenocarcinoma(13;2.88e-09)|Colorectal(105;0.109)			CTTTGCTTCCGCCTGTGCCCT	0.662													35	93					0	0	0.080422	0	0		A	57269511	A	A	57269511	3	1	182	1	0	0	0	0	1	0	0	0	10593	1087	38	1	226	1	NPEPL1	20	57269511	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	26597764	57269511	5756009	86	92100											
BHLHE23	128408	broad.mit.edu	37	chr20	61637750	61637750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggtcgtgcatgcgccgcCgctcgcgcgcgttgatgctg	3	10	15	13	8	0	1	0	1	0	0	2	1	0	1	2	1	3	4	2	1	1	2			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr20:61637750C>T	uc002yeb.2	-	1	638	c.329G>A	c.(328-330)CGG>CAG	p.R110Q	uc002yec.1_5'Flank	NM_080606	NP_542173	Q8NDY6	BHE23_HUMAN	basic helix-loop-helix domain containing, class	110	Arg-rich.|Helix-loop-helix motif.				transcription, DNA-dependent	nucleus	DNA binding				0						CATGcgccgccgctcgcgcgc	0.313													6	10					0	0	0.021553	0	0		T	61637750	T	T	61637750	3	4	182	1	0	0	0	0	1	0	0	0	1423	652	23	1	352	1	BHLHE23	20	61637750	Missense_Mutation	SNP	C	TCGA-D7-8573-01A-11D-2340-08	4368239	61637750	1387770	87	92101											
CHRNA4	1137	broad.mit.edu	37	chr20	61981757	61981757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggcatggtgtgcgtgcGtggcgagcggtggtgcacgt	3	9	22	7	5	0	0	0	0	0	0	0	1	0	0	0	6	4	2	0	6	0	0	rs56175056	byFrequency	TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr20:61981757G>A	uc002yes.2	-	5	1184	c.1006C>T	c.(1006-1008)CGC>TGC	p.R336C	CHRNA4_uc002yet.1_Missense_Mutation_p.R160C|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.R265C|CHRNA4_uc002yev.1_Missense_Mutation_p.R160C|CHRNA4_uc010gkf.1_Missense_Mutation_p.R160C	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	336	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GTGTGCGTGCGTGGCGAGCGG	0.612													37	63					0	0	0.104719	0	0		A	61981757	A	A	61981757	3	1	182	1	0	0	0	0	1	0	0	0	3388	1145	40	1	885	1	CHRNA4	20	61981757	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08	344007	61981757	1043763	88	92102											
APP	351	broad.mit.edu	37	chr21	27254029	27254029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggttggattttcgtagccGttctgctgcatcttggacag	6	15	12	8	2	2	0	0	0	2	0	3	2	2	2	1	3	3	5	1	3	2	7	rs142218254		TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr21:27254029G>A	uc002ylz.2	-	18	2465	c.2265C>T	c.(2263-2265)AAC>AAT	p.N755N	APP_uc011acg.1_Silent_p.N263N|APP_uc010glk.2_Silent_p.N731N|APP_uc002yma.2_Silent_p.N736N|APP_uc011ach.1_Silent_p.N699N|APP_uc002ymb.2_Silent_p.N680N|APP_uc010glj.2_Silent_p.N624N|APP_uc011aci.1_Silent_p.N645N	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	755	Cytoplasmic (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				TTTCGTAGCCGTTCTGCTGCA	0.478											OREG0026148	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	55					0	0	0.02938	0	0		A	27254029	A	A	27254029	2	1	182	1	0	0	0	0	0	0	0	1	815	1136	40	1		1	APP	21	27254029	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08		27254029	20875866	89	92103											
ADAMTS1	9510	broad.mit.edu	37	chr21	28214836	28214836	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccaccaggctaactgaaTtacgaatgctggggtgtttg	10	10	11	10	1	0	1	0	1	0	0	0	2	0	1	3	3	3	3	3	3	4	3			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr21:28214836T>C	uc002ymf.2	-	2	1354	c.899A>G	c.(898-900)AAT>AGT	p.N300S		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	300	Peptidase M12B.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		GCTAACTGAATTACGAATGCT	0.517													17	41					0	0	0.0333	0	0		C	28214836	C	C	28214836	3	2	182	1	0	0	0	0	1	0	0	0	255	1493	52	3	2036	3	ADAMTS1	21	28214836	Missense_Mutation	SNP	T	TCGA-D7-8573-01A-11D-2340-08	960807	28214836	19915059	90	92104											
HMOX1	3162	broad.mit.edu	37	chr22	35789509	35789509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagcccccactcaacacccGctcccaggctccgcttctcc	7	6	6	22	2	2	0	1	0	1	0	5	1	4	0	6	1	2	3	6	1	2	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chr22:35789509G>A	uc003ant.1	+	5	865	c.785G>A	c.(784-786)CGC>CAC	p.R262H		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	262					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	CTCAACACCCGCTCCCAGGCT	0.577													41	158					0	0	0.086207	0	0		A	35789509	A	A	35789509	3	1	182	1	0	0	0	0	1	0	0	0	7259	1087	38	1	803	1	HMOX1	22	35789509	Missense_Mutation	SNP	G	TCGA-D7-8573-01A-11D-2340-08		35789509	15515057	91	92105											
NLGN4X	57502	broad.mit.edu	37	chrX	5821348	5821348	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtactgcgcgtgcaggtcGgcggtggccacggcgggggc	3	5	20	13	7	0	0	0	0	0	0	1	0	0	0	2	7	3	2	2	7	1	1			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chrX:5821348G>A	uc010ndh.2	-	5	1872	c.1371C>T	c.(1369-1371)GCC>GCT	p.A457A	NLGN4X_uc004crp.2_Silent_p.A477A|NLGN4X_uc004crq.2_Silent_p.A457A|NLGN4X_uc010ndi.2_Silent_p.A494A|NLGN4X_uc004crr.2_Silent_p.A457A|NLGN4X_uc010ndj.2_Silent_p.A457A	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	457	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CGTGCAGGTCGGCGGTGGCCA	0.617													51	12					0	0	0.048971	0	0		A	5821348	A	A	5821348	2	1	182	1	0	0	0	0	0	0	0	1	10483	1103	39	1		1	NLGN4X	23	5821348	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08		5821348	149449212	92	92106											
DCAF8L1	139425	broad.mit.edu	37	chrX	27998138	27998138	+	Silent	SNP	G	A	A	0	0	1	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	aaattaacacatttgattgtGtcattatttctgtgcccctt	10	18	5	8	0	2	1	1	1	1	0	2	1	2	1	2	0	2	0	2	0	3	6			TCGA-D7-8573-01A-11D-2340-08	TCGA-D7-8573-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	d708deec-6b8e-4d4b-ab32-3bbb564038a9	1c3ae5aa-6b14-4794-9910-435917bdf4d4	g.chrX:27998138G>A	uc004dbx.1	-	1	1429	c.1314C>T	c.(1312-1314)GAC>GAT	p.D438D		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	438	WD 6.									ovary(3)|skin(1)	4						ATTTGATTGTGTCATTATTTC	0.443													8	33					0	0	0.038147	0	0		A	27998138	A	A	27998138	2	1	182	1	0	0	0	0	0	0	0	1	4280	1368	48	4		4	DCAF8L1	23	27998138	Silent	SNP	G	TCGA-D7-8573-01A-11D-2340-08	22176790	27998138	127272422	93	92107											
PRAMEF11	440560	broad.mit.edu	37	chr1	12887623	12887623	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcacccatgggccatagcTtcagaccaaaccatccagaa	15	5	7	14	0	1	2	1	0	0	2	2	2	2	2	5	1	3	2	5	1	4	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr1:12887623T>G	uc001auk.2	-	3	430	c.234A>C	c.(232-234)GAA>GAC	p.E78D		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	78											0						GGGCCATAGCTTCAGACCAAA	0.473													26	474					0	0	0.004656	0	0		G	12887623	G	G	12887623	3	3	183	1	0	0	0	0	1	0	0	0	12449	1606	56	5	1084	5	PRAMEF11	1	12887623	Missense_Mutation	SNP	T	TCGA-D7-8574-01A-13D-2340-08		12887623	236362998	1	92108											
SLC1A7	6512	broad.mit.edu	37	chr1	53558323	53558323	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagtagagcaggggcaGgataaagagcccgtggagca	15	3	17	6	1	0	3	0	0	0	3	0	6	0	5	1	4	3	4	1	4	5	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr1:53558323G>A	uc001cuy.2	-	7	1102	c.934C>T	c.(934-936)CTG>TTG	p.L312L	SLC1A7_uc001cux.2_5'Flank	NM_006671	NP_006662	O00341	EAA5_HUMAN	solute carrier family 1 (glutamate transporter),	312	Helical; (Potential).					integral to membrane|plasma membrane	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|large_intestine(1)	3				Colorectal(1306;0.234)	L-Glutamic Acid(DB00142)	AGCAGGGGCAGGATAAAGAGC	0.592													7	79					0	0	0.00308	0	0		A	53558323	A	A	53558323	2	1	183	1	0	0	0	0	0	0	0	1	14462	991	35	4		4	SLC1A7	1	53558323	Silent	SNP	G	TCGA-D7-8574-01A-13D-2340-08	40670700	53558323	195692298	2	92109											
CNN3	1266	broad.mit.edu	37	chr1	95367785	95367785	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcataccataagcctgaatAgctttaataaagttgccaat	15	13	5	8	0	1	1	1	1	0	0	1	1	1	1	3	0	4	2	3	0	8	8			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr1:95367785A>G	uc010otw.1	-	5	358	c.276T>C	c.(274-276)GCT>GCC	p.A92A	CNN3_uc010otv.1_Silent_p.A51A|CNN3_uc001dqz.3_Silent_p.A92A|CNN3_uc010otx.1_Intron	NM_001839	NP_001830	Q15417	CNN3_HUMAN	calponin 3	92	CH.				actomyosin structure organization|smooth muscle contraction		actin binding|calmodulin binding|tropomyosin binding|troponin C binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00948)		all cancers(265;0.0325)|Epithelial(280;0.0861)		AAGCCTGAATAGCTTTAATAA	0.343													7	38					0	0	0.00308	0	0		G	95367785	G	G	95367785	2	3	183	1	0	0	0	0	0	0	0	1	3614	407	15	3		3	CNN3	1	95367785	Silent	SNP	A	TCGA-D7-8574-01A-13D-2340-08	41809462	95367785	153882836	3	92110											
OLFML2B	25903	broad.mit.edu	37	chr1	161967627	161967627	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacttacctatgacattccGgatgtcatcttcttcttcgg	8	15	7	11	2	4	1	1	1	3	0	6	3	5	2	2	2	2	0	2	2	3	6			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr1:161967627G>A	uc001gbu.2	-	6	1886	c.1462C>T	c.(1462-1464)CGG>TGG	p.R488W	OLFML2B_uc010pkq.1_Missense_Mutation_p.R489W	NM_015441	NP_056256	Q68BL8	OLM2B_HUMAN	olfactomedin-like 2B precursor	488										skin(1)	1	all_hematologic(112;0.156)		BRCA - Breast invasive adenocarcinoma(70;0.0172)			ATGACATTCCGGATGTCATCT	0.552													15	235					0	0	0.00499	0	0		A	161967627	A	A	161967627	3	1	183	1	0	0	0	0	1	0	0	0	10877	1115	39	1	802	1	OLFML2B	1	161967627	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08	66599842	161967627	87282994	4	92111											
TNR	7143	broad.mit.edu	37	chr1	175292512	175292512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaactgtaaggactgcCgttttctccctgccatgaga	9	11	9	12	1	2	2	1	1	1	2	3	4	2	3	3	1	3	2	3	1	2	3			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr1:175292512C>T	uc001gkp.1	-	21	4139	c.4058G>A	c.(4057-4059)CGG>CAG	p.R1353Q	TNR_uc009wwu.1_Missense_Mutation_p.R1353Q	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1353					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					TAAGGACTGCCGTTTTCTCCC	0.473													7	100					0	0	0.00308	0	0		T	175292512	T	T	175292512	3	4	183	1	0	0	0	0	1	0	0	0	16363	652	23	1	22	1	TNR	1	175292512	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08	13324885	175292512	73958109	5	92112											
FOSL2	2355	broad.mit.edu	37	chr2	28635103	28635103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcattgctgggggcttctacGgtgaggagcccctgcacacc	6	8	14	13	1	1	1	0	1	1	0	1	2	1	2	3	4	4	4	3	4	1	3			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr2:28635103G>A	uc002rma.2	+	4	1578	c.769G>A	c.(769-771)GGT>AGT	p.G257S	FOSL2_uc010ymi.1_Missense_Mutation_p.G218S	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	257					cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					GGGCTTCTACGGTGAGGAGCC	0.647													4	53					0	0	0.009096	0	0		A	28635103	A	A	28635103	3	1	183	1	0	0	0	0	1	0	0	0	6002	1116	39	1	783	1	FOSL2	2	28635103	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08		28635103	214564270	6	92113											
RANBP2	5903	broad.mit.edu	37	chr2	109399073	109399073	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacatttgaagaatgtcagCagaatttaatgaaactccag	18	10	7	6	0	1	4	1	2	0	2	2	4	2	4	1	0	3	1	1	0	6	3			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr2:109399073C>A	uc002tem.3	+	28	9250	c.9124C>A	c.(9124-9126)CAG>AAG	p.Q3042K		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	3042	RanBD1 4.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AGAATGTCAGCAGAATTTAAT	0.398													8	81					0.000157383	0.000179417	0.00308	1	0		A	109399073	A	A	109399073	3	1	183	1	0	0	0	0	1	0	0	0	13053	711	25	5	9234	5	RANBP2	2	109399073	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08	80763970	109399073	133800300	7	92114											
RHOA	387	broad.mit.edu	37	chr3	49405956	49405956	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcataatcttcctgcccaGctgtgtcccacaaagccaac	11	9	6	15	0	2	0	1	0	1	0	4	1	4	0	4	0	4	1	4	0	3	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr3:49405956G>T	uc003cwu.2	-	3	458	c.182C>A	c.(181-183)GCT>GAT	p.A61D	RHOA_uc010hku.2_Translation_Start_Site	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	61	GTP (By similarity).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	TTCCTGCCCAGCTGTGTCCCA	0.473													6	90					2.7689e-08	3.43102e-08	0.001984	1	0		T	49405956	T	T	49405956	3	4	183	1	0	0	0	0	1	0	0	0	13356	971	34	5	411	5	RHOA	3	49405956	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08		49405956	148616474	8	92115											
MYH15	22989	broad.mit.edu	37	chr3	108159995	108159995	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagtcagctcagaatttatcTcctcttcttcctccaccctc	7	14	3	17	0	5	1	2	0	3	1	9	1	7	1	4	0	1	1	4	0	2	4			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr3:108159995T>C	uc003dxa.1	-	24	2885	c.2828A>G	c.(2827-2829)GAG>GGG	p.E943G		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	943	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						AGAATTTATCTCCTCTTCTTC	0.478													6	101					0	0	0.001984	0	0		C	108159995	C	C	108159995	3	2	183	1	0	0	0	0	1	0	0	0	10052	1551	54	3	3088	3	MYH15	3	108159995	Missense_Mutation	SNP	T	TCGA-D7-8574-01A-13D-2340-08	58754039	108159995	89862435	9	92116											
MME	4311	broad.mit.edu	37	chr3	154886414	154886414	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacctggcaggtggacagcaCgtatgtcattagcattctct	9	11	11	10	1	2	0	1	0	1	0	3	2	2	1	1	3	2	4	1	3	2	3			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr3:154886414C>T	uc010hvr.1	+	19	2125	c.1914C>T	c.(1912-1914)CAC>CAT	p.H638H	MME_uc003fab.1_Silent_p.H638H|MME_uc003fac.1_Silent_p.H638H|MME_uc003fad.1_Silent_p.H638H|MME_uc003fae.1_Silent_p.H638H	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	638	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GTGGACAGCACGTATGTCATT	0.383													9	82					0	0	0.004482	0	0		T	154886414	T	T	154886414	2	4	183	1	0	0	0	0	0	0	0	1	9663	550	19	1		1	MME	3	154886414	Silent	SNP	C	TCGA-D7-8574-01A-13D-2340-08	46726419	154886414	43136016	10	92117											
CLCN2	1181	broad.mit.edu	37	chr3	184073198	184073198	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaccagggtgaggaagacGttggcacgtggtgggttcca	9	8	17	7	2	0	3	0	2	0	1	1	4	1	4	2	5	0	3	2	5	1	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr3:184073198G>A	uc003foi.2	-	12	1414	c.1290C>T	c.(1288-1290)AAC>AAT	p.N430N	CLCN2_uc003foh.2_Translation_Start_Site|CLCN2_uc010hya.1_Silent_p.N430N|CLCN2_uc011brl.1_Silent_p.N430N|CLCN2_uc011brm.1_Silent_p.N386N|CLCN2_uc011brn.1_Silent_p.N430N	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	430	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	TGAGGAAGACGTTGGCACGTG	0.522													4	48					0	0	0.009096	0	0		A	184073198	A	A	184073198	2	1	183	1	0	0	0	0	0	0	0	1	3466	1136	40	1		1	CLCN2	3	184073198	Silent	SNP	G	TCGA-D7-8574-01A-13D-2340-08	29186784	184073198	13949232	11	92118											
OR14J1	442191	broad.mit.edu	37	chr6	29274611	29274611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattatcaccatcattaccGtggaccgtcgtctccattcc	8	13	5	15	3	4	0	3	0	1	0	7	1	5	1	5	1	1	0	5	1	2	3			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr6:29274611G>A	uc011dln.1	+	1	145	c.145G>A	c.(145-147)GTG>ATG	p.V49M		NM_030946	NP_112208	Q9UGF5	O14J1_HUMAN	olfactory receptor, family 5, subfamily U member	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CATCATTACCGTGGACCGTCG	0.468													13	135					0	0	0.016723	0	0		A	29274611	A	A	29274611	3	1	183	1	0	0	0	0	1	0	0	0	10967	1145	40	1	147	1	OR14J1	6	29274611	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08		29274611	141840456	12	92119											
C6orf1	221491	broad.mit.edu	37	chr6	34214824	34214824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcccccaagtgctcaccttGgggtctcccatgtcagagag	7	8	12	14	0	3	1	2	0	1	1	4	2	3	1	4	3	1	1	4	3	1	1			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr6:34214824G>A	uc003ojf.2	-	4	714	c.122C>T	c.(121-123)CCA>CTA	p.P41L	uc003oje.1_5'Flank|C6orf1_uc003ojg.2_Missense_Mutation_p.P41L|C6orf1_uc003ojh.2_Missense_Mutation_p.P41L|C6orf1_uc003oji.2_RNA	NM_178508	NP_848603	Q86T20	CF001_HUMAN	hypothetical protein LOC221491 precursor	41						extracellular region					0		Ovarian(999;0.0228)		BRCA - Breast invasive adenocarcinoma(397;1.11e-10)		TGCTCACCTTGGGGTCTCCCA	0.607											OREG0017364	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	125					0	0	0.003163	0	0		A	34214824	A	A	34214824	3	1	183	1	0	0	0	0	1	0	0	0	2319	1348	47	4	365	4	C6orf1	6	34214824	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08	4940213	34214824	136900243	13	92120											
HSF2	3298	broad.mit.edu	37	chr6	122743424	122743424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagaaactaatgaggatGttatatctgatccctccaag	13	12	7	9	0	1	3	0	2	1	1	4	4	4	4	3	1	1	1	3	1	5	4			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr6:122743424G>A	uc003pyu.2	+	8	998	c.811G>A	c.(811-813)GTT>ATT	p.V271I	HSF2_uc003pyv.2_Missense_Mutation_p.V271I	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	271					response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		TAATGAGGATGTTATATCTGA	0.313													9	165					0	0	0.006214	0	0		A	122743424	A	A	122743424	3	1	183	1	0	0	0	0	1	0	0	0	7412	1377	48	4	841	4	HSF2	6	122743424	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08	88528600	122743424	48371643	14	92121											
C7orf27	221927	broad.mit.edu	37	chr7	2594051	2594051	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagccgggagcagctgggcGcattctgggtccatggtgag	7	7	18	9	2	1	2	0	1	1	1	2	3	2	3	2	4	3	3	2	4	0	1			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr7:2594051G>A	uc003smi.2	-	2	57	c.15C>T	c.(13-15)TGC>TGT	p.C5C	C7orf27_uc003smj.1_Silent_p.C5C	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	5					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		GCAGCTGGGCGCATTCTGGGT	0.597													6	42					0	0	0.001168	0	0		A	2594051	A	A	2594051	2	1	183	1	0	0	0	0	0	0	0	1	2385	1079	38	1		1	C7orf27	7	2594051	Silent	SNP	G	TCGA-D7-8574-01A-13D-2340-08		2594051	156544612	15	92122											
RABEPK	10244	broad.mit.edu	37	chr9	127990211	127990211	+	Silent	SNP	A	G	G	1	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	actctgacctggtcacagccAgagacacttggaaatcctcc	11	8	8	14	0	2	2	1	1	1	1	4	4	4	3	4	2	1	0	4	2	1	1			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr9:127990211A>G	uc004bpi.2	+	7	722	c.549A>G	c.(547-549)CCA>CCG	p.P183P	RABEPK_uc004bpj.2_Silent_p.P132P|RABEPK_uc004bpk.2_Silent_p.P183P|RABEPK_uc004bpl.1_Silent_p.P132P|RABEPK_uc004bpm.2_Silent_p.P183P	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	183	Kelch 3.				receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						GGTCACAGCCAGAGACACTTG	0.483													6	57					0	0	0.001168	0	0		G	127990211	G	G	127990211	2	3	183	1	0	0	0	0	0	0	0	1	12988	175	7	3		3	RABEPK	9	127990211	Silent	SNP	A	TCGA-D7-8574-01A-13D-2340-08		127990211	13223220	16	92123											
PPFIBP1	8496	broad.mit.edu	37	chr12	27841317	27841317	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacttggcagaatatgcGcccaatctcagaggcagtgg	10	8	14	9	1	1	2	1	0	1	2	2	3	1	3	1	4	1	2	1	4	3	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr12:27841317G>A	uc001ric.1	+	25	2852	c.2475G>A	c.(2473-2475)GCG>GCA	p.A825A	PPFIBP1_uc010sjr.1_Silent_p.A656A|PPFIBP1_uc001rib.1_Silent_p.A819A|PPFIBP1_uc001ria.2_Silent_p.A794A|PPFIBP1_uc001rid.1_Silent_p.A672A|PPFIBP1_uc001rif.1_Silent_p.A332A	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	825	SAM 3.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					CAGAATATGCGCCCAATCTCA	0.473													18	285					0	0	0.007413	0	0		A	27841317	A	A	27841317	2	1	183	1	0	0	0	0	0	0	0	1	12332	1074	38	1		1	PPFIBP1	12	27841317	Silent	SNP	G	TCGA-D7-8574-01A-13D-2340-08		27841317	106010578	17	92124											
SLC17A8	246213	broad.mit.edu	37	chr12	100811871	100811871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attctcatggggatctcaaaCggagtgggaaccctctctgg	9	10	12	10	1	3	0	2	0	3	0	6	3	3	3	1	5	2	0	1	5	2	1			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr12:100811871C>T	uc010svi.1	+	11	1675	c.1362C>T	c.(1360-1362)AAC>AAT	p.N454N	SLC17A8_uc009ztx.2_Silent_p.N404N	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	454	Helical; (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						GGATCTCAAACGGAGTGGGAA	0.488													7	113					0	0	0.00308	0	0		T	100811871	T	T	100811871	2	4	183	1	0	0	0	0	0	0	0	1	14448	535	19	1		1	SLC17A8	12	100811871	Silent	SNP	C	TCGA-D7-8574-01A-13D-2340-08	72970554	100811871	33040024	18	92125											
NRXN3	9369	broad.mit.edu	37	chr14	80271525	80271525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agactttgttgaatgtgagcCgagtacaggtaggtcaggtc	10	11	14	6	1	1	3	1	2	0	1	2	4	1	3	1	3	2	3	1	3	3	4			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr14:80271525C>T	uc001xun.2	+	16	3367	c.2876C>T	c.(2875-2877)CCG>CTG	p.P959L	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.P327L|NRXN3_uc010asw.2_Missense_Mutation_p.P357L|NRXN3_uc001xur.3_Missense_Mutation_p.P327L	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1332	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		GAATGTGAGCCGAGTACAGGT	0.333													9	104					0	0	0.006214	0	0		T	80271525	T	T	80271525	3	4	183	1	0	0	0	0	1	0	0	0	10686	652	23	1	3275	1	NRXN3	14	80271525	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08		80271525	27078015	19	92126											
ATP8B4	79895	broad.mit.edu	37	chr15	50223420	50223420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttatggtctctggggtcCgggatttaaaaatgaaccca	10	13	11	7	1	1	1	0	1	1	0	3	2	2	2	2	4	1	1	2	4	5	4			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr15:50223420C>T	uc001zxu.2	-	16	1680	c.1538G>A	c.(1537-1539)CGG>CAG	p.R513Q	ATP8B4_uc010ber.2_Missense_Mutation_p.R386Q|ATP8B4_uc010ufd.1_Intron|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	513	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		CTCTGGGGTCCGGGATTTAAA	0.398													5	80					0	0	0.014758	0	0		T	50223420	T	T	50223420	3	4	183	1	0	0	0	0	1	0	0	0	1198	652	23	1	2092	1	ATP8B4	15	50223420	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08		50223420	52307972	20	92127											
IL16	3603	broad.mit.edu	37	chr15	81589340	81589340	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagccctagtgcctctgcCggctgcccaggacctggtat	7	8	12	14	1	1	1	0	0	1	1	1	2	1	2	5	3	4	2	5	3	3	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr15:81589340C>T	uc002bgh.3	+	13	2350	c.1974C>T	c.(1972-1974)GCC>GCT	p.A658A	IL16_uc010blq.1_Silent_p.A612A|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.A700A|IL16_uc002bgg.2_Silent_p.A658A|IL16_uc002bgi.1_Silent_p.A48A|IL16_uc002bgj.2_Silent_p.A152A|IL16_uc002bgk.2_5'UTR|IL16_uc002bgl.1_5'UTR|IL16_uc010unq.1_5'Flank	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	658					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						GTGCCTCTGCCGGCTGCCCAG	0.592													5	39					0	0	0.014758	0	0		T	81589340	T	T	81589340	2	4	183	1	0	0	0	0	0	0	0	1	7649	639	23	1		1	IL16	15	81589340	Silent	SNP	C	TCGA-D7-8574-01A-13D-2340-08	31365920	81589340	20942052	21	92128											
CNOT1	23019	broad.mit.edu	37	chr16	58619350	58619350	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggatcctgtccattagaatgTcccgtttttcagggtataaa	10	14	9	8	1	1	1	1	0	0	1	4	2	4	2	3	2	0	2	3	2	5	5			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr16:58619350T>G	uc002env.2	-	8	991	c.698A>C	c.(697-699)GAC>GCC	p.D233A	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.D233A|CNOT1_uc002enx.2_Missense_Mutation_p.D233A|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	233					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		CATTAGAATGTCCCGTTTTTC	0.453													8	78					0	0	0.00308	0	0		G	58619350	G	G	58619350	3	3	183	1	0	0	0	0	1	0	0	0	3620	1667	58	5	6822	5	CNOT1	16	58619350	Missense_Mutation	SNP	T	TCGA-D7-8574-01A-13D-2340-08		58619350	31735403	22	92129											
CDH1	999	broad.mit.edu	37	chr16	68842595	68842595	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctttcattttgtcttcaGatcaaatccaacaaagacaa	14	15	3	9	0	5	2	3	0	2	2	6	2	6	2	1	0	1	0	1	0	4	5			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr16:68842595G>T	uc002ewg.1	+	5	656	c.532_splice	c.e5-1	p.I178_splice	CDH1_uc010vlj.1_Splice_Site|CDH1_uc010cfg.1_Splice_Site_p.I178_splice	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein						adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(4)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		TTTGTCTTCAGATCAAATCCA	0.418			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				7	34					2.7689e-08	3.43102e-08	0.001984	1	0		T	68842595	T	T	68842595	5	4	183	1	0	0	0	0	0	0	1	0	3098	956	33	5	549	5	CDH1	16	68842595	Splice_Site	SNP	G	TCGA-D7-8574-01A-13D-2340-08	10223245	68842595	21512158	23	92130											
IMP5	162540	broad.mit.edu	37	chr17	43923555	43923555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggtactcaaagtgccccGgctaagagtctccgccttga	9	9	10	13	2	2	2	1	1	1	1	3	2	2	2	4	2	2	2	4	2	3	3			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr17:43923555G>A	uc010wka.1	+	1	1283	c.1283G>A	c.(1282-1284)CGG>CAG	p.R428Q	LOC100128977_uc010wjz.1_Intron	NM_175882	NP_787078	Q8IUH8	IMP5_HUMAN	intramembrane protease 5 precursor	428	Cytoplasmic (Potential).					integral to membrane	aspartic-type endopeptidase activity			pancreas(2)	2	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.148)		AAAGTGCCCCGGCTAAGAGTC	0.587													8	94					0	0	0.004482	0	0		A	43923555	A	A	43923555	3	1	183	1	0	0	0	0	1	0	0	0	7737	1116	39	1	1285	1	IMP5	17	43923555	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08		43923555	37271655	24	92131											
CACNA1G	8913	broad.mit.edu	37	chr17	48680542	48680542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggtgctgcggctgctgcGgaccctgcgcccgctcaggt	3	7	17	14	4	1	0	1	0	0	0	1	2	1	1	2	4	5	4	2	4	0	0			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr17:48680542G>A	uc002irk.1	+	21	4523	c.4151G>A	c.(4150-4152)CGG>CAG	p.R1384Q	CACNA1G_uc002iri.1_Missense_Mutation_p.R1384Q|CACNA1G_uc002irj.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002irl.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002irm.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002irn.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002iro.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002irp.1_Missense_Mutation_p.R1384Q|CACNA1G_uc002irq.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002irr.1_Missense_Mutation_p.R1384Q|CACNA1G_uc002irs.1_Missense_Mutation_p.R1384Q|CACNA1G_uc002irt.1_Missense_Mutation_p.R1384Q|CACNA1G_uc002irv.1_Missense_Mutation_p.R1384Q|CACNA1G_uc002irw.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002iru.1_Missense_Mutation_p.R1361Q|CACNA1G_uc002irx.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002iry.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002irz.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002isa.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002isb.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002isc.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002isd.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002ise.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002isf.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002isg.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002ish.1_Missense_Mutation_p.R1297Q|CACNA1G_uc002isi.1_Missense_Mutation_p.R1274Q|CACNA1G_uc002isj.2_Missense_Mutation_p.R108Q	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1384	III.|Helical; Name=S4 of repeat III; (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CGGCTGCTGCGGACCCTGCGC	0.657													4	37					0	0	0.001168	0	0		A	48680542	A	A	48680542	3	1	183	1	0	0	0	0	1	0	0	0	2547	1116	39	1	4233	1	CACNA1G	17	48680542	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08	4756987	48680542	32514668	25	92132											
ME2	4200	broad.mit.edu	37	chr18	48443718	48443718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcatttttttgtgattaaggCtgttgtagtgactgatggag	8	17	13	3	0	0	3	0	3	0	0	0	4	0	4	0	2	0	4	0	2	2	6			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr18:48443718C>T	uc002ley.2	+	6	726	c.470C>T	c.(469-471)GCT>GTT	p.A157V	ME2_uc010dpd.2_Missense_Mutation_p.A157V	NM_002396	NP_002387	P23368	MAOM_HUMAN	malic enzyme 2, NAD(+)-dependent, mitochondrial	157					malate metabolic process	mitochondrial matrix	electron carrier activity|malate dehydrogenase (decarboxylating) activity|malate dehydrogenase (oxaloacetate-decarboxylating) activity|metal ion binding|NAD binding				0		Colorectal(6;0.0273)|all_epithelial(6;0.118)		Colorectal(21;0.0313)|READ - Rectum adenocarcinoma(32;0.105)|STAD - Stomach adenocarcinoma(97;0.184)	NADH(DB00157)	GTGATTAAGGCTGTTGTAGTG	0.338													7	80					0	0	0.001984	0	0		T	48443718	T	T	48443718	3	4	183	1	0	0	0	0	1	0	0	0	9436	811	28	2	488	2	ME2	18	48443718	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08		48443718	29633530	26	92133											
CREB3L3	84699	broad.mit.edu	37	chr19	4154997	4154997	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgagacacgtggagctgggCgagggctggggtcacgtcaa	8	6	18	9	3	2	1	2	1	0	1	2	4	2	2	0	5	1	2	0	5	1	0			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr19:4154997C>T	uc002lzl.2	+	2	245	c.129C>T	c.(127-129)GGC>GGT	p.G43G	CREB3L3_uc002lzm.2_Silent_p.G34G|CREB3L3_uc010xib.1_Silent_p.G34G|CREB3L3_uc010xic.1_Silent_p.G34G	NM_032607	NP_115996	Q68CJ9	CR3L3_HUMAN	cAMP responsive element binding protein 3-like	43	Cytoplasmic (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0232)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGAGCTGGGCGAGGGCTGGG	0.642													6	88					0	0	0.001984	0	0		T	4154997	T	T	4154997	2	4	183	1	0	0	0	0	0	0	0	1	3861	755	27	1		1	CREB3L3	19	4154997	Silent	SNP	C	TCGA-D7-8574-01A-13D-2340-08		4154997	54973986	27	92134											
RDH8	50700	broad.mit.edu	37	chr19	10129502	10129502	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactttttcggagctgtcCgtctcgtcaaagctgtgctt	6	14	9	12	3	2	0	1	0	1	0	5	1	3	1	2	1	4	3	2	1	2	3			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr19:10129502C>A	uc002mmr.2	+	3	607	c.358C>A	c.(358-360)CGT>AGT	p.R120S		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	120					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	CGGAGCTGTCCGTCTCGTCAA	0.587													7	94					8.12818e-05	9.45523e-05	0.001984	1	0		A	10129502	A	A	10129502	3	1	183	1	0	0	0	0	1	0	0	0	13221	652	23	5	368	5	RDH8	19	10129502	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08	5974505	10129502	48999481	28	92135											
C20orf194	25943	broad.mit.edu	37	chr20	3355774	3355774	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcttcttcatcttcataCtgaagagacaaatcaaaaga	15	10	7	9	1	5	3	3	1	2	2	5	4	5	3	0	1	1	1	0	1	5	4			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr20:3355774C>T	uc002wii.2	-	5	460	c.409_splice	c.e5-1	p.Y137_splice	C20orf194_uc002wik.2_Splice_Site|C20orf194_uc010gay.1_Splice_Site	NM_001009984	NP_001009984	Q5TEA3	CT194_HUMAN	hypothetical protein LOC25943												0						CATCTTCATACTGAAGAGACA	0.383													14	149					0	0	0.016723	0	0		T	3355774	T	T	3355774	5	4	183	1	0	0	0	0	0	0	1	0	2102	579	20	4	3257	4	C20orf194	20	3355774	Splice_Site	SNP	C	TCGA-D7-8574-01A-13D-2340-08		3355774	59669746	29	92136											
CD93	22918	broad.mit.edu	37	chr20	23065099	23065099	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aataaaagcagcttttgcccGtcagtgccatcgttgttttg	9	14	9	9	2	1	0	1	0	0	0	2	0	1	0	2	0	4	4	2	0	3	6			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr20:23065099G>A	uc002wsv.2	-	1	1879	c.1731C>T	c.(1729-1731)GAC>GAT	p.D577D		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	577	Extracellular (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GCTTTTGCCCGTCAGTGCCAT	0.617													9	112					0	0	0.006214	0	0		A	23065099	A	A	23065099	2	1	183	1	0	0	0	0	0	0	0	1	3050	1136	40	1		1	CD93	20	23065099	Silent	SNP	G	TCGA-D7-8574-01A-13D-2340-08	19709325	23065099	39960421	30	92137											
GNAS	2778	broad.mit.edu	37	chr20	57484421	57484421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggacctgcttcgctgccGtgtcctgacttctggaatct	5	13	10	13	2	3	1	1	1	2	0	5	3	4	3	3	2	2	2	3	2	1	2	rs121913495		TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chr20:57484421G>A	uc002xzw.2	+	8	2816	c.2531G>A	c.(2530-2532)CGT>CAT	p.R844H	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R142H|GNAS_uc002xzx.2_Missense_Mutation_p.R142H|GNAS_uc010gjr.2_Missense_Mutation_p.R92H|GNAS_uc002xzy.2_Missense_Mutation_p.R127H|GNAS_uc002yaa.2_Missense_Mutation_p.R187H|GNAS_uc010zzt.1_Missense_Mutation_p.R202H|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Missense_Mutation_p.R92H|GNAS_uc002yae.2_Missense_Mutation_p.R126H	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	201	GTP (By similarity).		R -> L (in non-MAS endocrine tumors).|R -> S (in AIMAH, pituitary tumor and polyostotic fibrous dysplasia).|R -> H (in MAS, somatotrophinoma and AIMAH).|R -> G (in MAS).		activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity	p.R201H(37)|p.R201L(1)|p.R844H(1)		pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CTTCGCTGCCGTGTCCTGACT	0.423			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			6	67					0	0	0.001168	0	0		A	57484421	A	A	57484421	3	1	183	1	0	0	0	0	1	0	0	0	6525	1145	40	1	3449	1	GNAS	20	57484421	Missense_Mutation	SNP	G	TCGA-D7-8574-01A-13D-2340-08	34419322	57484421	5541099	31	92138											
NHS	4810	broad.mit.edu	37	chrX	17745826	17745826	+	Silent	SNP	G	A	A	0	0	1	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	tccactgaagacaccatactGtcctttttagactcttctgc	9	14	5	13	0	2	3	0	1	2	2	4	3	4	3	3	0	2	0	3	0	3	5			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chrX:17745826G>A	uc004cxx.2	+	6	3875	c.3537G>A	c.(3535-3537)CTG>CTA	p.L1179L	NHS_uc011mix.1_Silent_p.L1200L|NHS_uc004cxy.2_Silent_p.L1023L|NHS_uc004cxz.2_Silent_p.L1002L|NHS_uc004cya.2_Silent_p.L902L	NM_198270	NP_938011	Q6T4R5	NHS_HUMAN	Nance-Horan syndrome protein isoform 1	1179						nucleus				skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	Hepatocellular(33;0.183)					ACACCATACTGTCCTTTTTAG	0.413													19	67					0	0	0.008871	0	0		A	17745826	A	A	17745826	2	1	183	1	0	0	0	0	0	0	0	1	10430	1364	48	4		4	NHS	23	17745826	Silent	SNP	G	TCGA-D7-8574-01A-13D-2340-08		17745826	137524734	32	92139											
MAGEB10	139422	broad.mit.edu	37	chrX	27840218	27840218	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtaccagcaagtgcccaaCagtgatcctccacgctatca	12	7	8	14	1	1	1	1	1	0	0	3	2	3	1	4	0	4	3	4	0	4	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chrX:27840218C>A	uc004dbw.2	+	3	1022	c.795C>A	c.(793-795)AAC>AAA	p.N265K		NM_182506	NP_872312	Q96LZ2	MAGBA_HUMAN	melanoma antigen family B, 10	265	MAGE.									lung(1)|breast(1)|central_nervous_system(1)	3						AAGTGCCCAACAGTGATCCTC	0.458													6	31					3.59834e-05	4.27302e-05	0.001168	1	0		A	27840218	A	A	27840218	3	1	183	1	0	0	0	0	1	0	0	0	9191	477	17	5	797	5	MAGEB10	23	27840218	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08	10094392	27840218	127430342	33	92140											
PCDH19	57526	broad.mit.edu	37	chrX	99551591	99551591	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgttgaccttggggctgCagatggtcacatcgacagtc	7	10	13	11	2	1	2	1	1	0	1	3	3	1	2	1	3	1	4	1	3	0	2			TCGA-D7-8574-01A-13D-2340-08	TCGA-D7-8574-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	b8bb9319-5450-418d-874c-e117448cecfe	2c754412-22e7-471f-b5f7-a390110559b7	g.chrX:99551591C>A	uc010nmz.2	-	6	4807	c.3131G>T	c.(3130-3132)TGC>TTC	p.C1044F	PCDH19_uc004efw.3_Missense_Mutation_p.C996F|PCDH19_uc004efx.3_Missense_Mutation_p.C997F	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	1044	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CTTGGGGCTGCAGATGGTCAC	0.592													5	25					0.00116845	0.0012808	0.001168	1	0		A	99551591	A	A	99551591	3	1	183	1	0	0	0	0	1	0	0	0	11533	710	25	5	319	5	PCDH19	23	99551591	Missense_Mutation	SNP	C	TCGA-D7-8574-01A-13D-2340-08	71711373	99551591	55718969	34	92141											
CAMTA1	23261	broad.mit.edu	37	chr1	7725168	7725168	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtcgccgaggtggtctcggCcgcctcggcccagggcaccc	3	5	15	18	6	1	0	0	0	1	0	4	1	1	0	5	5	0	1	5	5	0	0			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:7725168C>A	uc001aoi.2	+	9	2768	c.2561C>A	c.(2560-2562)GCC>GAC	p.A854D		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	854					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GTGGTCTCGGCCGCCTCGGCC	0.672													37	32					1.06647e-15	1.14589e-15	0.017118	1	0		A	7725168	A	A	7725168	3	1	184	1	0	0	0	0	1	0	0	0	2616	739	26	5	2595	5	CAMTA1	1	7725168	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		7725168	241525453	1	92142											
EPHA2	1969	broad.mit.edu	37	chr1	16460017	16460017	+	Missense_Mutation	SNP	A	C	C	1	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	gagtgacacaggatggatggAtctcggtagtgaacttcaac	12	9	13	7	1	2	2	1	2	1	0	3	6	2	5	0	4	2	1	0	4	3	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:16460017A>C	uc001aya.1	-	10	1960	c.1823T>G	c.(1822-1824)ATC>AGC	p.I608S		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	608	Mediates interaction with ARHGEF16 and ELMO2.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	GGATGGATGGATCTCGGTAGT	0.592													5	41					0	0	0.021553	0	0		C	16460017	C	C	16460017	3	2	184	1	0	0	0	0	1	0	0	0	5175	333	12	5	1139	5	EPHA2	1	16460017	Missense_Mutation	SNP	A	TCGA-D7-8576-01A-11D-2340-08	8734849	16460017	232790604	2	92143											
HPCAL4	51440	broad.mit.edu	37	chr1	40150246	40150246	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaggtcctccagcacctcGggggccagcttgctgttggt	6	9	13	13	1	0	0	0	0	0	0	3	0	2	0	4	4	3	4	4	4	1	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:40150246G>A	uc001cdr.2	-	2	150	c.30C>T	c.(28-30)CCC>CCT	p.P10P	HPCAL4_uc010oix.1_Silent_p.P10P	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	10					central nervous system development	intracellular	calcium ion binding	p.P10H(1)		central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CCAGCACCTCGGGGGCCAGCT	0.627													11	13					0	0	0.008291	0	0		A	40150246	A	A	40150246	2	1	184	1	0	0	0	0	0	0	0	1	7347	1103	39	1		1	HPCAL4	1	40150246	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	23690229	40150246	209100375	3	92144											
KCNJ10	3766	broad.mit.edu	37	chr1	160011396	160011396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagatggcaggtgtgaactcGtagccccaaaggatctcctc	10	8	12	11	1	1	2	0	1	1	1	4	4	1	3	3	3	2	2	3	3	3	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:160011396G>A	uc001fuw.1	-	2	1077	c.927C>T	c.(925-927)TAC>TAT	p.Y309Y		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	309	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GTGTGAACTCGTAGCCCCAAA	0.532													7	58					0	0	0.001984	0	0		A	160011396	A	A	160011396	2	1	184	1	0	0	0	0	0	0	0	1	8060	1140	40	1		1	KCNJ10	1	160011396	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	119861150	160011396	89239225	4	92145											
GLT25D2	23127	broad.mit.edu	37	chr1	183938600	183938600	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtagtctggggtcctcttaTagaagccctgtaaaagagca	11	10	11	9	1	2	2	0	0	2	2	3	2	3	2	2	2	2	3	2	2	6	4	rs35937944	byFrequency	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:183938600T>C	uc001gqr.2	-	5	1007	c.635A>G	c.(634-636)TAT>TGT	p.Y212C	GLT25D2_uc010poj.1_Missense_Mutation_p.Y212C|GLT25D2_uc001gqs.2_Missense_Mutation_p.Y92C	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	212					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						GGTCCTCTTATAGAAGCCCTG	0.463													4	64					0	0	0.014758	0	0		C	183938600	C	C	183938600	3	2	184	1	0	0	0	0	1	0	0	0	6482	1406	49	3	1277	3	GLT25D2	1	183938600	Missense_Mutation	SNP	T	TCGA-D7-8576-01A-11D-2340-08	23927204	183938600	65312021	5	92146											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200818182	200818182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaactagaagaaaagaggcGtgctatagaagcccagaaaa	20	4	11	6	1	0	5	0	0	0	5	0	6	0	5	1	1	3	1	1	1	10	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr1:200818182G>A	uc001gvl.2	+	12	2588	c.2318G>A	c.(2317-2319)CGT>CAT	p.R773H	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.R762H|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.R746H	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	773						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GAAAAGAGGCGTGCTATAGAA	0.448													32	42					0	0	0.009535	0	0		A	200818182	A	A	200818182	3	1	184	1	0	0	0	0	1	0	0	0	2615	1145	40	1	2327	1	CAMSAP1L1	1	200818182	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	16879582	200818182	48432439	6	92147											
SOX11	6664	broad.mit.edu	37	chr2	5833478	5833480	+	In_Frame_Del	DEL	GGC	-	-																															gcctgcgcgtgagcggctcgGgcggcggcggcgcgggcaag																										TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:5833478_5833480delGGC	uc002qyj.2	+	1	680_682	c.625_627delGGC	c.(625-627)GGCdel	p.G212del		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	212	Poly-Gly.				cardiac ventricle formation|closure of optic fissure|cornea development in camera-type eye|embryonic digestive tract morphogenesis|embryonic skeletal system morphogenesis|eyelid development in camera-type eye|glial cell proliferation|hard palate development|lens morphogenesis in camera-type eye|limb bud formation|lung morphogenesis|negative regulation of cell death|negative regulation of glial cell proliferation|negative regulation of lymphocyte proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription regulatory region DNA binding|neural crest cell development|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|outflow tract morphogenesis|positive regulation of BMP signaling pathway|positive regulation of hippo signaling cascade|positive regulation of hormone secretion|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of ossification|positive regulation of osteoblast differentiation|positive regulation of stem cell proliferation|regulation of transforming growth factor beta receptor signaling pathway|signal transduction involved in G1/S transition checkpoint|soft palate development|somite development|spinal cord development|sympathetic nervous system development|ventricular septum morphogenesis	cytoplasm|nucleolus	enhancer sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			OV - Ovarian serous cystadenocarcinoma(76;0.132)		GAGCGGCTCGGGCGGCGGCGGCG	0.517													2	4	---	---	---	---						.	-	5833480	-	-	5833478	7	5	184	1	0	1	0	1	0	0	0	0	14967	1232	43	0	627	0	SOX11	2	5833478	In_Frame_Del	DEL	GGC	TCGA-D7-8576-01A-11D-2340-08		5833478	237365895	7	92148											
EHD3	30845	broad.mit.edu	37	chr2	31489161	31489161	+	Missense_Mutation	SNP	A	G	G	1	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	catggtgctagtgcgccaggAggagtcacagcggcccatcc	8	6	14	13	2	1	0	1	0	0	0	2	2	2	2	3	4	3	1	3	4	1	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:31489161A>G	uc002rnu.2	+	6	1807	c.1199A>G	c.(1198-1200)GAG>GGG	p.E400G	EHD3_uc010ymt.1_3'UTR	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	400					blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GTGCGCCAGGAGGAGTCACAG	0.622													3	32					0	0	0.004672	0	0		G	31489161	G	G	31489161	3	3	184	1	0	0	0	0	1	0	0	0	4985	304	11	3	1221	3	EHD3	2	31489161	Missense_Mutation	SNP	A	TCGA-D7-8576-01A-11D-2340-08	25655683	31489161	211710212	8	92149											
LRRTM4	80059	broad.mit.edu	37	chr2	77746894	77746894	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	cacatctgcagttctttgggCaagctctctgagcacccgtg	7	11	10	13	1	3	1	0	1	3	0	4	1	3	1	1	1	3	5	1	1	1	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:77746894C>G	uc002snr.2	-	3	516	c.101G>C	c.(100-102)TGC>TCC	p.C34S	LRRTM4_uc002snq.2_Missense_Mutation_p.C34S|LRRTM4_uc002sns.2_Missense_Mutation_p.C34S|LRRTM4_uc002snt.2_Missense_Mutation_p.C35S	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	34	Extracellular (Potential).|LRRNT.					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		GTTCTTTGGGCAAGCTCTCTG	0.473													21	16					0	0	0.008871	0	0		G	77746894	G	G	77746894	3	3	184	1	0	0	0	0	1	0	0	0	9060	710	25	5	1685	5	LRRTM4	2	77746894	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	46257733	77746894	165452479	9	92150											
MARCH4	57574	broad.mit.edu	37	chr2	217142429	217142429	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatgaagccatacatcccGtagcagatctggaagagaag	14	7	10	10	1	1	3	0	1	1	2	3	5	3	4	3	1	3	2	3	1	5	2	rs138565372	by1000genomes	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:217142429G>A	uc002vgb.2	-	3	2598	c.831C>T	c.(829-831)TAC>TAT	p.Y277Y		NM_020814	NP_065865	Q9P2E8	MARH4_HUMAN	membrane-associated ring finger (C3HC4) 4	277	Helical; (Potential).					Golgi membrane|Golgi stack|integral to membrane|trans-Golgi network	ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Renal(323;0.0854)		Epithelial(149;2.19e-05)|all cancers(144;0.00121)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(261;0.0125)		CATACATCCCGTAGCAGATCT	0.557													84	88					0	0	0.01441	0	0		A	217142429	A	A	217142429	2	1	184	1	0	0	0	0	0	0	0	1	9321	1140	40	1		1	MARCH4	2	217142429	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	139395535	217142429	26056944	10	92151											
KIF1A	547	broad.mit.edu	37	chr2	241709052	241709052	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgctgcacacctctccatCcggatggcttctgtccgccg	4	9	9	19	4	2	0	0	0	2	0	5	1	4	1	6	2	1	3	6	2	0	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr2:241709052C>A	uc002vzy.2	-	15	1532	c.1386G>T	c.(1384-1386)CGG>CGT	p.R462R	KIF1A_uc010fzk.2_Silent_p.R471R|KIF1A_uc002vzz.1_Silent_p.R471R	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	462	Potential.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		ACCTCTCCATCCGGATGGCTT	0.622													4	14					0.00024832	0.000250803	0.009096	1	0		A	241709052	A	A	241709052	2	1	184	1	0	0	0	0	0	0	0	1	8299	842	30	5		5	KIF1A	2	241709052	Silent	SNP	C	TCGA-D7-8576-01A-11D-2340-08	24566623	241709052	1490321	11	92152											
COL7A1	1294	broad.mit.edu	37	chr3	48630223	48630223	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctacctcctgccgctcactCggcagtggctgtcccagccc	4	8	9	20	2	1	0	1	0	0	0	4	0	3	0	6	2	3	3	6	2	1	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr3:48630223C>T	uc003ctz.2	-	6	832	c.831G>A	c.(829-831)CCG>CCA	p.P277P		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	277	Nonhelical region (NC1).|Fibronectin type-III 1.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GCCGCTCACTCGGCAGTGGCT	0.607													13	50					0	0	0.016723	0	0		T	48630223	T	T	48630223	2	4	184	1	0	0	0	0	0	0	0	1	3707	871	31	1		1	COL7A1	3	48630223	Silent	SNP	C	TCGA-D7-8576-01A-11D-2340-08		48630223	149392207	12	92153											
WDR6	11180	broad.mit.edu	37	chr3	49049728	49049728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgcagaatattgggcactGctttgggcacagcgcccgtg	7	9	15	10	2	0	1	0	0	0	1	0	1	0	1	1	3	3	4	1	3	2	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr3:49049728G>A	uc003cvj.2	+	2	989	c.851G>A	c.(850-852)TGC>TAC	p.C284Y	WDR6_uc011bbx.1_Missense_Mutation_p.C155Y|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.C228Y|WDR6_uc011bbz.1_Missense_Mutation_p.C203Y	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	254					cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		ATTGGGCACTGCTTTGGGCAC	0.557													23	77					0	0	0.014323	0	0		A	49049728	A	A	49049728	3	1	184	1	0	0	0	0	1	0	0	0	17336	1319	46	2	857	2	WDR6	3	49049728	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	419505	49049728	148972702	13	92154											
GRM2	2912	broad.mit.edu	37	chr3	51747088	51747088	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttccgtgaattctgggaGcagaggttccgctgcagctt	6	12	14	9	2	1	2	0	1	1	1	3	3	3	3	2	3	3	6	2	3	1	4			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr3:51747088G>C	uc010hlv.2	+	3	1289	c.1050G>C	c.(1048-1050)GAG>GAC	p.E350D	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	350	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	AATTCTGGGAGCAGAGGTTCC	0.592													10	15					0	0	0.008291	0	0		C	51747088	C	C	51747088	3	2	184	1	0	0	0	0	1	0	0	0	6813	962	34	5	1056	5	GRM2	3	51747088	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	2697360	51747088	146275342	14	92155											
SPON2	10417	broad.mit.edu	37	chr4	1164196	1164196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtatgtccgttacctgaggCgctgtctacaatctcattgt	7	15	9	10	2	2	1	1	1	2	0	4	1	3	1	2	1	2	3	2	1	4	4			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:1164196C>T	uc003gcn.3	-	4	832	c.805G>A	c.(805-807)GCC>ACC	p.A269T	SPON2_uc003gco.3_Missense_Mutation_p.A269T|SPON2_uc010ibr.2_Missense_Mutation_p.A269T|SPON2_uc003gcm.1_3'UTR	NM_012445	NP_036577	Q9BUD6	SPON2_HUMAN	spondin 2, extracellular matrix protein	269					axon guidance|cell adhesion|innate immune response	proteinaceous extracellular matrix	metal ion binding			central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.00805)	UCEC - Uterine corpus endometrioid carcinoma (64;0.139)|Colorectal(103;0.19)		TTACCTGAGGCGCTGTCTACA	0.617													52	122					0	0	0.01441	0	0		T	1164196	T	T	1164196	3	4	184	1	0	0	0	0	1	0	0	0	15108	768	27	1	198	1	SPON2	4	1164196	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		1164196	189990080	15	92156											
CENPC1	1060	broad.mit.edu	37	chr4	68383923	68383923	+	Frame_Shift_Del	DEL	T	-	-																															taaaaacaatgttgaaaaacTttttttagcttgtcgttgaa																										TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:68383923delT	uc003hdd.1	-	7	964	c.781delA	c.(781-783)AGTfs	p.S261fs	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Frame_Shift_Del_p.S261fs	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	261	Nuclear localization signal (Potential).				mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						GTTGAAAAACTTTTTTTAGCT	0.313													2	4	---	---	---	---						.	-	68383923	-	-	68383923	7	5	184	1	0	1	0	1	0	0	0	0	3232	1609	56	0	2102	0	CENPC1	4	68383923	Frame_Shift_Del	DEL	T	TCGA-D7-8576-01A-11D-2340-08	67219727	68383923	122770353	16	92157											
WDFY3	23001	broad.mit.edu	37	chr4	85617299	85617299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagattaagtcaatccactCatgtagatgggcactcacgt	13	10	9	9	1	3	2	3	0	0	2	4	3	4	2	1	1	0	2	1	1	4	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:85617299C>T	uc003hpd.2	-	58	9133	c.8725G>A	c.(8725-8727)GAG>AAG	p.E2909K	WDFY3_uc003hpe.1_Missense_Mutation_p.E520K	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2909	BEACH.					cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TCAATCCACTCATGTAGATGG	0.403													15	120					0	0	0.020292	0	0		T	85617299	T	T	85617299	3	4	184	1	0	0	0	0	1	0	0	0	17296	835	29	4	1899	4	WDFY3	4	85617299	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	17233376	85617299	105536977	17	92158											
SEC24B	10427	broad.mit.edu	37	chr4	110460756	110460756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagaattttttcagcatttGattgaagaccggacagaggc	12	11	11	7	1	1	5	1	2	0	3	1	6	1	6	1	2	1	2	1	2	2	5			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:110460756G>A	uc003hzk.2	+	24	3787	c.3732G>A	c.(3730-3732)TTG>TTA	p.L1244L	SEC24B_uc003hzl.2_Silent_p.L1209L|SEC24B_uc011cfp.1_Silent_p.L1274L|SEC24B_uc011cfq.1_Silent_p.L1243L|SEC24B_uc011cfr.1_Silent_p.L1208L	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	1244					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		TTCAGCATTTGATTGAAGACC	0.308													11	52					0	0	0.010729	0	0		A	110460756	A	A	110460756	2	1	184	1	0	0	0	0	0	0	0	1	14020	1281	45	4		4	SEC24B	4	110460756	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	24843457	110460756	80693520	18	92159											
TTC29	83894	broad.mit.edu	37	chr4	147755035	147755035	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtctgtggagattttacaGtaagtgtcaaggacctatca	12	12	11	6	0	3	1	2	0	1	1	3	3	3	2	1	3	1	1	1	3	4	4			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr4:147755035G>A	uc003ikw.3	-	9	1127	c.900C>T	c.(898-900)TAC>TAT	p.Y300Y	TTC29_uc010ipc.2_RNA|TTC29_uc003ikx.3_Silent_p.Y326Y|TTC29_uc010ipd.1_Silent_p.Y300Y	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	300	TPR 3.						binding				0	all_hematologic(180;0.151)					AGATTTTACAGTAAGTGTCAA	0.393													6	30					0	0	0.021553	0	0		A	147755035	A	A	147755035	2	1	184	1	0	0	0	0	0	0	0	1	16722	1024	36	4		4	TTC29	4	147755035	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	37294279	147755035	43399241	19	92160											
PLEKHG4B	153478	broad.mit.edu	37	chr5	140749	140749	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caccactcagcaggctccagGcctgggggccacctaggagg	8	4	14	15	0	1	0	1	0	0	0	2	1	2	1	5	6	1	2	5	6	1	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140749G>A	uc003jak.2	+	1	377	c.327G>A	c.(325-327)AGG>AGA	p.R109R		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	109					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CAGGCTCCAGGCCTGGGGGCC	0.647													6	9					0	0	0.001984	0	0		A	140749	A	A	140749	2	1	184	1	0	0	0	0	0	0	0	1	12091	1194	42	2		2	PLEKHG4B	5	140749	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08		140749	180774511	20	92161											
ADAMTS16	170690	broad.mit.edu	37	chr5	5237184	5237184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccatgctcggaggatagccGtaatgtttgtatagatggga	10	12	13	6	2	0	1	0	0	0	1	2	4	1	4	2	3	2	4	2	3	4	5			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:5237184G>A	uc003jdl.2	+	14	2264	c.2126G>A	c.(2125-2127)CGT>CAT	p.R709H	ADAMTS16_uc003jdk.1_Missense_Mutation_p.R709H|ADAMTS16_uc010itk.1_Intron	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	709	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GAGGATAGCCGTAATGTTTGT	0.279													24	73					0	0	0.024334	0	0		A	5237184	A	A	5237184	3	1	184	1	0	0	0	0	1	0	0	0	261	1145	40	1	2180	1	ADAMTS16	5	5237184	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	5096435	5237184	175678076	21	92162											
AMACR	23600	broad.mit.edu	37	chr5	33989517	33989517	+	Missense_Mutation	SNP	T	G	G	0	1	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	accactctgccttcgtcttcTctgcaaatacatctgcaaac	10	12	4	15	1	4	0	0	0	4	0	6	0	4	0	2	0	5	2	2	0	3	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:33989517T>G	uc003jig.2	-	5	912	c.830A>C	c.(829-831)GAG>GCG	p.E277A	AMACR_uc003jih.2_3'UTR|AMACR_uc003jii.2_Missense_Mutation_p.E262A|AMACR_uc003jij.2_Missense_Mutation_p.E277A	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	277					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						CTTCGTCTTCTCTGCAAATAC	0.443													4	59					0	0	0.009096	0	0		G	33989517	G	G	33989517	3	3	184	1	0	0	0	0	1	0	0	0	562	1551	54	5	380	5	AMACR	5	33989517	Missense_Mutation	SNP	T	TCGA-D7-8576-01A-11D-2340-08	28752333	33989517	146925743	22	92163											
PCDHA9	9752	broad.mit.edu	37	chr5	140229393	140229393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcgccttcactgtgggccaCggccagggtgtctgtggagg	4	9	16	12	2	2	0	1	0	1	0	3	1	2	1	3	5	0	0	3	5	0	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140229393C>T	uc003lhu.2	+	1	2037	c.1313C>T	c.(1312-1314)ACG>ATG	p.T438M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.T438M	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	438	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGTGGGCCACGGCCAGGGTG	0.657													59	111					0	0	0.01441	0	0		T	140229393	T	T	140229393	3	4	184	1	0	0	0	0	1	0	0	0	11550	536	19	1	1315	1	PCDHA9	5	140229393	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	106239876	140229393	40685867	23	92164											
PCDHGA9	56107	broad.mit.edu	37	chr5	140782934	140782934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agttccaggccgaaagtctgGaagtaaaaattaacgaaatc	17	8	9	7	2	1	0	0	0	1	0	3	3	2	1	2	2	1	2	2	2	7	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140782934G>A	uc003lkh.1	+	1	415	c.415G>A	c.(415-417)GAA>AAA	p.E139K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.E139K	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	139	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAAAGTCTGGAAGTAAAAAT	0.458													48	94					0	0	0.01441	0	0		A	140782934	A	A	140782934	3	1	184	1	0	0	0	0	1	0	0	0	11580	1175	41	4	417	4	PCDHGA9	5	140782934	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	553541	140782934	40132326	24	92165			1	41		2	2	16	G		3.246413e-05
PCDHGA9	56107	broad.mit.edu	37	chr5	140782949	140782949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctggaagtaaaaattaacGaaatcgcggttcctggagca	14	9	11	7	3	1	0	0	0	1	0	3	3	2	2	1	3	2	3	1	3	6	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr5:140782949G>A	uc003lkh.1	+	1	430	c.430G>A	c.(430-432)GAA>AAA	p.E144K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc011dax.1_Missense_Mutation_p.E144K	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	144	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAAATTAACGAAATCGCGGT	0.473													44	94					0	0	0.009718	0	0		A	140782949	A	A	140782949	3	1	184	1	0	0	0	0	1	0	0	0	11580	1059	37	1	432	1	PCDHGA9	5	140782949	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	15	140782949	40132311	25	92166			1	41		2	2	16	G		3.246413e-05
C6orf127	340204	broad.mit.edu	37	chr6	35754860	35754860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caattgcgagtcgcactgcgCggagaaggggtccgagggca	9	5	17	10	5	0	1	0	0	0	1	2	4	1	1	1	4	2	2	1	4	2	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr6:35754860C>T	uc003old.3	+	2	242	c.185C>T	c.(184-186)GCG>GTG	p.A62V		NM_001010886	NP_001010886	A2RUU4	CF127_HUMAN	hypothetical protein LOC340204 precursor	62					digestion|lipid catabolic process	extracellular region	enzyme activator activity			skin(1)	1						TCGCACTGCGCGGAGAAGGGG	0.662													6	12					0	0	0.001984	0	0		T	35754860	T	T	35754860	3	4	184	1	0	0	0	0	1	0	0	0	2330	768	27	1	191	1	C6orf127	6	35754860	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		35754860	135360207	26	92167											
PTPRK	5796	broad.mit.edu	37	chr6	128643430	128643430	+	Silent	SNP	T	G	G	0	1	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	ttttctccagggtcgtgatcTgaagagtccactatcatata	10	14	8	9	1	3	3	1	2	2	1	6	3	4	3	2	1	0	0	2	1	4	5			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr6:128643430T>G	uc003qbk.2	-	3	616	c.249A>C	c.(247-249)TCA>TCC	p.S83S	PTPRK_uc003qbj.2_Silent_p.S83S|PTPRK_uc010kfc.2_Silent_p.S83S|PTPRK_uc011ebu.1_Silent_p.S83S|PTPRK_uc003qbl.1_Intron|PTPRK_uc011ebv.1_Silent_p.S83S|PTPRK_uc003qbm.3_Silent_p.S12S	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	83	Extracellular (Potential).|MAM.				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		GGTCGTGATCTGAAGAGTCCA	0.358													13	117					0	0	0.020292	0	0		G	128643430	G	G	128643430	2	3	184	1	0	0	0	0	0	0	0	1	12830	1567	55	5		5	PTPRK	6	128643430	Silent	SNP	T	TCGA-D7-8576-01A-11D-2340-08	92888570	128643430	42471637	27	92168											
SDK1	221935	broad.mit.edu	37	chr7	4188947	4188947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccaggcagaagtgaccgcaCgcagcctccggctccagtgg	8	4	13	16	3	0	2	0	1	0	1	2	2	2	2	5	3	1	4	5	3	1	0	rs146602325		TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:4188947C>T	uc003smx.2	+	30	4616	c.4477C>T	c.(4477-4479)CGC>TGC	p.R1493C	SDK1_uc010kso.2_Missense_Mutation_p.R769C|SDK1_uc003smy.2_Translation_Start_Site	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1493	Fibronectin type-III 9.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		AGTGACCGCACGCAGCCTCCG	0.677													3	18					0	0	0.004672	0	0		T	4188947	T	T	4188947	3	4	184	1	0	0	0	0	1	0	0	0	13993	536	19	1	4595	1	SDK1	7	4188947	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		4188947	154949716	28	92169											
AHR	196	broad.mit.edu	37	chr7	17379566	17379566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttatttcctgtaatcagcCtgtattaccacaacattcca	11	15	3	12	0	1	0	1	0	0	0	3	0	3	0	4	0	3	2	4	0	5	7			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:17379566C>T	uc011jxz.1	+	10	2730	c.2117C>T	c.(2116-2118)CCT>CTT	p.P706L	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	706					apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					TGTAATCAGCCTGTATTACCA	0.398													44	114					0	0	0.007835	0	0		T	17379566	T	T	17379566	3	4	184	1	0	0	0	0	1	0	0	0	416	681	24	4	2155	4	AHR	7	17379566	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	13190619	17379566	141759097	29	92170											
HDAC9	9734	broad.mit.edu	37	chr7	18705931	18705931	+	Silent	SNP	C	T	T	0	0	0	1	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	gaccaggcgatgcaggaagaCagagcgccctctagtggcaa	12	4	14	11	2	1	2	0	0	1	2	1	5	1	3	2	3	2	2	2	3	3	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr7:18705931C>T	uc003suh.2	+	11	1595	c.1554C>T	c.(1552-1554)GAC>GAT	p.D518D	HDAC9_uc003sue.2_Silent_p.D518D|HDAC9_uc011jyd.1_Silent_p.D518D|HDAC9_uc003sui.2_Silent_p.D521D|HDAC9_uc003suj.2_Silent_p.D477D|HDAC9_uc011jya.1_Silent_p.D515D|HDAC9_uc003sua.1_Silent_p.D496D|HDAC9_uc011jyb.1_Silent_p.D474D|HDAC9_uc003sud.1_Silent_p.D518D|HDAC9_uc011jyc.1_Silent_p.D477D|HDAC9_uc003suf.1_Silent_p.D549D|HDAC9_uc010kud.1_Silent_p.D521D|HDAC9_uc011jye.1_Silent_p.D490D|HDAC9_uc011jyf.1_Silent_p.D441D|HDAC9_uc010kue.1_Intron	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	518					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	TGCAGGAAGACAGAGCGCCCT	0.542											OREG0017877	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	75					0	0	0.021022	0	0		T	18705931	T	T	18705931	2	4	184	1	0	0	0	0	0	0	0	1	7030	477	17	4		4	HDAC9	7	18705931	Silent	SNP	C	TCGA-D7-8576-01A-11D-2340-08	1326365	18705931	140432732	30	92171											
WRN	7486	broad.mit.edu	37	chr8	30977918	30977918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttgtcacgtcctctgggctCctgcagacattaacttaaat	9	13	7	12	1	2	1	1	0	1	1	4	1	4	1	2	1	2	2	2	1	3	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr8:30977918C>T	uc003xio.3	+	21	3396	c.2608C>T	c.(2608-2610)CCT>TCT	p.P870S	WRN_uc010lvk.2_Missense_Mutation_p.P337S	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	870	Helicase C-terminal.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CCTCTGGGCTCCTGCAGACAT	0.373			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				29	91					0	0	0.027356	0	0		T	30977918	T	T	30977918	3	4	184	1	0	0	0	0	1	0	0	0	17428	855	30	4	2686	4	WRN	8	30977918	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		30977918	115386104	31	92172											
FUT10	84750	broad.mit.edu	37	chr8	33230241	33230241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagctcaaaggtggagtccGgagtggtgagaaagcaaaca	15	5	15	6	1	1	2	1	1	0	2	2	5	2	4	1	4	3	2	1	4	3	0			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr8:33230241G>A	uc003xje.2	-	5	1650	c.1294C>T	c.(1294-1296)CGG>TGG	p.R432W	FUT10_uc003xjc.2_Missense_Mutation_p.R439W|FUT10_uc003xjd.2_Missense_Mutation_p.R404W|FUT10_uc011lbi.1_Missense_Mutation_p.R482W	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	432	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		GGTGGAGTCCGGAGTGGTGAG	0.507													21	55					0	0	0.010504	0	0		A	33230241	A	A	33230241	3	1	184	1	0	0	0	0	1	0	0	0	6116	1115	39	1	149	1	FUT10	8	33230241	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	2252323	33230241	113133781	32	92173											
DEPDC6	64798	broad.mit.edu	37	chr8	120942125	120942125	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	agaaaggatgacggcaccttCccattggataatgaagtgaa	15	8	11	7	1	0	4	0	3	0	1	1	6	1	6	2	3	0	1	2	3	4	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr8:120942125C>G	uc003yow.3	+	3	559	c.372C>G	c.(370-372)TTC>TTG	p.F124L	DEPDC6_uc011lid.1_Intron	NM_022783	NP_073620	Q8TB45	DPTOR_HUMAN	DEP domain containing 6	124					intracellular signal transduction|negative regulation of cell size|negative regulation of protein kinase activity|negative regulation of TOR signaling cascade|regulation of apoptosis	intracellular	protein binding				0	Lung NSC(37;9.35e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			ACGGCACCTTCCCATTGGATA	0.408													65	95					0	0	0.01441	0	0		G	120942125	G	G	120942125	3	3	184	1	0	0	0	0	1	0	0	0	4449	854	30	5	382	5	DEPDC6	8	120942125	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	87711884	120942125	25421897	33	92174											
ANK3	288	broad.mit.edu	37	chr10	61847969	61847969	+	Missense_Mutation	SNP	A	G	G	1	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	aagatgcttgaacaaggggcActgtggtgctgctcagaatt	11	10	13	7	0	1	3	1	1	0	2	1	3	1	3	0	3	4	4	0	3	4	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr10:61847969A>G	uc001jky.2	-	29	3668	c.3476T>C	c.(3475-3477)GTG>GCG	p.V1159A	ANK3_uc001jkw.2_Missense_Mutation_p.V293A|ANK3_uc009xpa.2_Missense_Mutation_p.V293A|ANK3_uc001jkx.2_Missense_Mutation_p.V337A|ANK3_uc010qih.1_Missense_Mutation_p.V1160A|ANK3_uc001jkz.3_Missense_Mutation_p.V1153A|ANK3_uc001jla.1_Missense_Mutation_p.V225A|ANK3_uc001jlb.1_Missense_Mutation_p.V677A	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1159					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AACAAGGGGCACTGTGGTGCT	0.478													60	73					0	0	0.01441	0	0		G	61847969	G	G	61847969	3	3	184	1	0	0	0	0	1	0	0	0	622	159	6	3	10030	3	ANK3	10	61847969	Missense_Mutation	SNP	A	TCGA-D7-8576-01A-11D-2340-08		61847969	73686778	34	92175											
TSPAN32	10077	broad.mit.edu	37	chr11	2334953	2334953	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaaaggtacgtcccacgtcCggcggcaggagctggcggcc	7	5	16	13	5	0	1	0	1	0	0	2	2	2	2	3	6	2	3	3	6	2	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr11:2334953C>T	uc001lvy.1	+	5	561	c.424C>T	c.(424-426)CGG>TGG	p.R142W	TSPAN32_uc001lvx.1_Intron|TSPAN32_uc009ydk.1_Missense_Mutation_p.R152W|TSPAN32_uc010qxk.1_Missense_Mutation_p.R177W|TSPAN32_uc009ydl.1_RNA|TSPAN32_uc001lvz.1_Missense_Mutation_p.R112W|TSPAN32_uc001lwb.1_Missense_Mutation_p.R112W|TSPAN32_uc001lwc.1_Missense_Mutation_p.R87W|TSPAN32_uc001lwd.1_5'Flank	NM_139022	NP_620591	Q96QS1	TSN32_HUMAN	tumor-suppressing subtransferable candidate 6	142					cell-cell signaling	integral to membrane				central_nervous_system(1)	1		all_epithelial(84;4.89e-05)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.00791)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000533)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		GTCCCACGTCCGGCGGCAGGA	0.647													3	7					0	0	0.009096	0	0		T	2334953	T	T	2334953	3	4	184	1	0	0	0	0	1	0	0	0	16673	643	23	1	442	1	TSPAN32	11	2334953	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		2334953	132671563	35	92176											
DLG2	1740	broad.mit.edu	37	chr11	83252774	83252774	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcactgtctccctccagcaTgactctcctggcttgccacc	5	11	6	19	0	3	1	1	1	2	0	6	1	4	1	5	1	2	2	5	1	0	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr11:83252774T>C	uc001paj.2	-	15	2056	c.1753A>G	c.(1753-1755)ATG>GTG	p.M585V	DLG2_uc001pai.2_Missense_Mutation_p.M482V|DLG2_uc010rsy.1_Missense_Mutation_p.M552V|DLG2_uc010rsz.1_Missense_Mutation_p.M585V|DLG2_uc010rta.1_Missense_Mutation_p.M585V|DLG2_uc001pak.2_Missense_Mutation_p.M690V|DLG2_uc010rtb.1_Missense_Mutation_p.M552V|DLG2_uc010rsw.1_Missense_Mutation_p.M67V|DLG2_uc010rsx.1_Missense_Mutation_p.M66V	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	585	SH3.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CCCTCCAGCATGACTCTCCTG	0.478													12	77					0	0	0.016723	0	0		C	83252774	C	C	83252774	3	2	184	1	0	0	0	0	1	0	0	0	4561	1464	51	3	945	3	DLG2	11	83252774	Missense_Mutation	SNP	T	TCGA-D7-8576-01A-11D-2340-08	80917821	83252774	51753742	36	92177											
ABCC9	10060	broad.mit.edu	37	chr12	21958215	21958215	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaaagactaaaacaaGgcctgcatccataatagaag	19	6	7	9	0	1	3	1	0	0	3	2	3	2	3	2	1	2	1	2	1	8	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:21958215G>C	uc001rfi.1	-	38	4563	c.4543C>G	c.(4543-4545)CTT>GTT	p.L1515V	ABCC9_uc001rfh.2_Intron|ABCC9_uc001rfj.1_Missense_Mutation_p.L1479V|ABCC9_uc001rfg.2_Intron	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1515	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ACTAAAACAAGGCCTGCATCC	0.403													17	34					0	0	0.007413	0	0		C	21958215	C	C	21958215	3	2	184	1	0	0	0	0	1	0	0	0	59	1000	35	5	252	5	ABCC9	12	21958215	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08		21958215	111893680	37	92178											
LRRK2	120892	broad.mit.edu	37	chr12	40618972	40618972	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggggtgcgaagaggacgaGgaaactctgaagaagttgat	14	6	16	5	2	1	4	0	2	1	2	1	8	1	6	0	4	2	1	0	4	4	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:40618972G>A	uc001rmg.3	+	1	160	c.39G>A	c.(37-39)GAG>GAA	p.E13E		NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	13					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AAGAGGACGAGGAAACTCTGA	0.562													5	31					0	0	0.014758	0	0		A	40618972	A	A	40618972	2	1	184	1	0	0	0	0	0	0	0	1	9051	991	35	4		4	LRRK2	12	40618972	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	18660757	40618972	93232923	38	92179											
ITGB7	3695	broad.mit.edu	37	chr12	53585371	53585371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgtctgcctcttgaaagCgaggattgatggtggtcgtg	7	12	15	7	2	2	2	0	2	2	0	3	5	2	3	1	3	2	0	1	3	1	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:53585371C>T	uc009zmv.2	-	15	2437	c.2366G>A	c.(2365-2367)CGC>CAC	p.R789H	ITGB7_uc001scc.2_Missense_Mutation_p.R789H|ITGB7_uc010snz.1_RNA	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	789	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						CTCTTGAAAGCGAGGATTGAT	0.507													14	66					0	0	0.028581	0	0		T	53585371	T	T	53585371	3	4	184	1	0	0	0	0	1	0	0	0	7916	768	27	1	34	1	ITGB7	12	53585371	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	12966399	53585371	80266524	39	92180											
NOS1	4842	broad.mit.edu	37	chr12	117768839	117768839	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cgaacagaaatgacattgggCtggatttgctgaacaccgaa	14	8	11	8	2	0	3	0	2	0	1	0	6	0	4	1	2	3	2	1	2	4	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:117768839C>A	uc001twm.1	-	2	722	c.36G>T	c.(34-36)CAG>CAT	p.Q12H		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	12	Interaction with NOSIP (By similarity).				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TGACATTGGGCTGGATTTGCT	0.517													25	94					4.87955e-14	5.1337e-14	0.027356	1	0		A	117768839	A	A	117768839	3	1	184	1	0	0	0	0	1	0	0	0	10560	796	28	5	4380	5	NOS1	12	117768839	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	64183468	117768839	16083056	40	92181											
SFRS8	6433	broad.mit.edu	37	chr12	132195869	132195869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccggcggtgggggcagccGagtggagctcttggttttcg	3	10	19	9	4	1	0	0	0	1	0	2	2	1	1	2	6	3	3	2	6	0	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr12:132195869G>A	uc001uja.1	+	1	235	c.95G>A	c.(94-96)CGA>CAA	p.R32Q	SFRS8_uc010tbn.1_Missense_Mutation_p.R32Q|SFRS8_uc001ujb.1_5'UTR|SFRS8_uc001uiz.1_5'UTR	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	32					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		GGGGGCAGCCGAGTGGAGCTC	0.697													5	33					0	0	0.014758	0	0		A	132195869	A	A	132195869	3	1	184	1	0	0	0	0	1	0	0	0	14208	1058	37	1	97	1	SFRS8	12	132195869	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	14427030	132195869	1656026	41	92182											
PABPC3	5042	broad.mit.edu	37	chr13	25670907	25670907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctagggcaaaagagttcCccaatgtttacatcaagaat	15	9	9	8	0	1	2	1	0	0	2	2	3	2	2	2	1	2	4	2	1	7	4	rs76264750	byFrequency	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr13:25670907C>T	uc001upy.2	+	1	632	c.571C>T	c.(571-573)CCC>TCC	p.P191S		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	191	RRM 3.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		AAAAGAGTTCCCCAATGTTTA	0.428													35	101					0	0	0.019004	0	0		T	25670907	T	T	25670907	3	4	184	1	0	0	0	0	1	0	0	0	11384	623	22	4	573	4	PABPC3	13	25670907	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		25670907	89498971	42	92183											
MTUS2	23281	broad.mit.edu	37	chr13	30077317	30077317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcggggccctcctctccgGccagagtcagcacaacaccc	7	5	9	20	2	2	1	1	0	1	1	5	1	3	1	6	3	2	1	6	3	1	0			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr13:30077317G>A	uc001usl.3	+	14	4172	c.4114G>A	c.(4114-4116)GCC>ACC	p.A1372T	MTUS2_uc001usm.3_Missense_Mutation_p.A341T|MTUS2_uc010aau.2_Missense_Mutation_p.A251T|MTUS2_uc010tdq.1_Missense_Mutation_p.A124T	NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	1362						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						CTCCTCTCCGGCCAGAGTCAG	0.652													4	55					0	0	0.014758	0	0		A	30077317	A	A	30077317	3	1	184	1	0	0	0	0	1	0	0	0	9984	1203	42	2	4226	2	MTUS2	13	30077317	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	4406410	30077317	85092561	43	92184											
CBLN3	643866	broad.mit.edu	37	chr14	24897156	24897156	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gtcaggatcattggcaaaggCtgagatgacaggccacgtgt	11	8	14	8	1	2	2	2	2	0	1	2	4	2	3	1	4	0	2	1	4	1	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr14:24897156C>G	uc001wpg.3	-	3	928	c.457G>C	c.(457-459)GCC>CCC	p.A153P	KHNYN_uc010tpc.1_5'Flank|KHNYN_uc001wph.3_5'Flank|KHNYN_uc010alw.2_5'Flank	NM_001039771	NP_001034860	Q6UW01	CBLN3_HUMAN	cerebellin 3 precursor	153	Necessary for interaction with CBLN3, and homotrimerization (By similarity).|C1q.					cell junction|extracellular region|synapse				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(265;0.00159)		TTGGCAAAGGCTGAGATGACA	0.647													6	77					0	0	0.021553	0	0		G	24897156	G	G	24897156	3	3	184	1	0	0	0	0	1	0	0	0	2709	797	28	5	164	5	CBLN3	14	24897156	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		24897156	82452384	44	92185											
SIVA1	10572	broad.mit.edu	37	chr14	105223032	105223032	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgtgagcgagccctgtgCgggcagtgtgtgcgcacctg	5	8	17	11	3	0	1	0	1	0	0	0	2	0	1	2	1	4	2	2	1	0	0			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr14:105223032C>T	uc001yph.2	+	3	474	c.405C>T	c.(403-405)TGC>TGT	p.C135C	INF2_uc010tyi.1_Intron|SIVA1_uc010tyj.1_Silent_p.C135C|SIVA1_uc001ypg.1_3'UTR|SIVA1_uc001ypi.2_Silent_p.C70C	NM_006427	NP_006418	O15304	SIVA_HUMAN	CD27-binding (Siva) protein isoform 1	135					activation of caspase activity by cytochrome c|activation-induced cell death of T cells|apoptosis|induction of apoptosis|interspecies interaction between organisms|negative regulation of anti-apoptosis|negative regulation of NF-kappaB transcription factor activity	cytoplasm|mitochondrion|nucleoplasm|nucleus	caspase activator activity|CD27 receptor binding|metal ion binding|viral receptor activity|zinc ion binding				0		all_cancers(154;0.14)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.173)		GAGCCCTGTGCGGGCAGTGTG	0.642													23	14					0	0	0.016522	0	0		T	105223032	T	T	105223032	2	4	184	1	0	0	0	0	0	0	0	1	14370	776	27	1		1	SIVA1	14	105223032	Silent	SNP	C	TCGA-D7-8576-01A-11D-2340-08	80325876	105223032	2126508	45	92186											
ZSCAN29	146050	broad.mit.edu	37	chr15	43661186	43661186	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cctgtggtcccaggtctgggCttcttgccctctctttcttg	1	16	10	14	0	4	0	0	0	4	0	6	0	5	0	3	3	1	1	3	3	0	4			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr15:43661186C>A	uc001zrk.1	-	2	605	c.458G>T	c.(457-459)AGC>ATC	p.S153I	ZSCAN29_uc001zrj.1_Missense_Mutation_p.S33I|ZSCAN29_uc010bdf.1_Missense_Mutation_p.S152I|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Missense_Mutation_p.S152I|ZSCAN29_uc001zrm.2_Missense_Mutation_p.S152I|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	153					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		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;8.97e-07)		CAGGTCTGGGCTTCTTGCCCT	0.512													27	218					2.44723e-14	2.60179e-14	0.024334	1	0		A	43661186	A	A	43661186	3	1	184	1	0	0	0	0	1	0	0	0	18261	797	28	5	2116	5	ZSCAN29	15	43661186	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		43661186	58870206	46	92187											
FBN1	2200	broad.mit.edu	37	chr15	48741086	48741086	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggatttcttgacattcattAcgatctgtaaataagaagca	14	13	8	6	1	3	2	1	1	2	1	3	4	3	3	0	1	2	2	0	1	5	6			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr15:48741086A>G	uc001zwx.1	-	46	5878	c.5550T>C	c.(5548-5550)CGT>CGC	p.R1850R	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	1850	EGF-like 31; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GACATTCATTACGATCTGTAA	0.353													12	18					0	0	0.010729	0	0		G	48741086	G	G	48741086	2	3	184	1	0	0	0	0	0	0	0	1	5716	378	14	3		3	FBN1	15	48741086	Silent	SNP	A	TCGA-D7-8576-01A-11D-2340-08	5079900	48741086	53790306	47	92188											
OTOA	146183	broad.mit.edu	37	chr16	21698948	21698948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctccctcgggacctgcGcgaggatgcctttaagaacc	7	7	13	14	4	0	1	0	0	0	1	2	4	1	3	4	3	3	1	4	3	2	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr16:21698948G>A	uc002djh.2	+	7	615	c.614G>A	c.(613-615)CGC>CAC	p.R205H	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.R126H	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	205					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		CGGGACCTGCGCGAGGATGCC	0.423													13	33					0	0	0.016723	0	0		A	21698948	A	A	21698948	3	1	184	1	0	0	0	0	1	0	0	0	11321	1087	38	1	674	1	OTOA	16	21698948	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08		21698948	68655805	48	92189											
TP53	7157	broad.mit.edu	37	chr17	7577121	7577121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggacaggcacaaacacGcacctcaaagctgttccgtc	12	5	8	16	2	1	0	1	0	0	0	3	1	2	1	3	2	2	4	3	2	2	1	rs121913343		TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:7577121G>A	uc002gim.2	-	8	1011	c.817C>T	c.(817-819)CGT>TGT	p.R273C	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R273C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R141C|TP53_uc010cng.1_Missense_Mutation_p.R141C|TP53_uc002gii.1_Missense_Mutation_p.R141C|TP53_uc010cnh.1_Missense_Mutation_p.R273C|TP53_uc010cni.1_Missense_Mutation_p.R273C|TP53_uc002gij.2_Missense_Mutation_p.R273C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	273	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> N (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> S (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|R -> P (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R273H(467)|p.R273C(396)|p.R273L(83)|p.R273P(24)|p.R273S(11)|p.R273G(9)|p.0?(7)|p.R273fs*72(3)|p.?(2)|p.R273fs*33(2)|p.F270fs*72(1)|p.R273_C275delRVC(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.R273R(1)|p.E258fs*71(1)|p.R273fs*71(1)|p.F270_D281del12(1)|p.E271_R273delEVR(1)|p.V272_K292del21(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCACAAACACGCACCTCAAAG	0.542	R273C(SH10TC_STOMACH)|R273C(SUDHL4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(8MGBA_CENTRAL_NERVOUS_SYSTEM)|R273C(SW1783_CENTRAL_NERVOUS_SYSTEM)|R273C(BL70_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(SW1710_URINARY_TRACT)|R273C(RH30_SOFT_TISSUE)|R273C(PANC0213_PANCREAS)|R273C(SJRH30_SOFT_TISSUE)|R273C(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(RDES_BONE)|R273C(TT2609C02_THYROID)|R273C(MFE319_ENDOMETRIUM)|R273C(RPMI8402_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R273C(EFO27_OVARY)|R273C(NCIH1048_LUNG)|R273C(KARPAS299_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			20	11					0	0	0.007413	0	0		A	7577121	A	A	7577121	3	1	184	1	0	0	0	0	1	0	0	0	16407	1087	38	1	469	1	TP53	17	7577121	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08		7577121	73618089	49	92190											
MYH4	4622	broad.mit.edu	37	chr17	10368834	10368834	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggcgctttttgcctcGgtaggctgtcaccacctcag	4	12	10	15	2	2	0	2	0	0	0	4	0	3	0	4	3	1	3	4	3	1	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:10368834G>A	uc002gmn.2	-	5	541	c.430C>T	c.(430-432)CGA>TGA	p.R144*	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	144	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						TTTTTGCCTCGGTAGGCTGTC	0.537													60	64					0	0	0.01441	0	0		A	10368834	A	A	10368834	4	1	184	1	0	0	0	0	0	1	0	0	10055	1124	39	1	5533	1	MYH4	17	10368834	Nonsense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	2791713	10368834	70826376	50	92191											
WNK4	65266	broad.mit.edu	37	chr17	40936102	40936102	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtctttatcacgggaccTactggctctgtcaaaatcgg	10	12	9	10	2	4	0	2	0	2	0	5	1	4	1	1	3	1	1	1	3	5	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:40936102T>C	uc002ibj.2	+	3	960	c.939T>C	c.(937-939)CCT>CCC	p.P313P	WNK4_uc010wgx.1_Missense_Mutation_p.L7P|WNK4_uc002ibk.1_Silent_p.P85P|WNK4_uc010wgy.1_5'Flank	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	313	Protein kinase.				intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		TCACGGGACCTACTGGCTCTG	0.602													16	174					0	0	0.024245	0	0		C	40936102	C	C	40936102	2	2	184	1	0	0	0	0	0	0	0	1	17406	1509	53	3		3	WNK4	17	40936102	Silent	SNP	T	TCGA-D7-8576-01A-11D-2340-08	30567268	40936102	40259108	51	92192											
KIF2B	84643	broad.mit.edu	37	chr17	51901905	51901905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaactcacactggtgctccGggactcctttataggccaga	10	9	9	13	1	1	1	1	0	0	1	3	2	3	2	3	3	2	1	3	3	3	3	rs143245314	byFrequency	TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr17:51901905G>A	uc002iua.2	+	1	1667	c.1511G>A	c.(1510-1512)CGG>CAG	p.R504Q	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	504					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CTGGTGCTCCGGGACTCCTTT	0.473													26	45					0	0	0.021523	0	0		A	51901905	A	A	51901905	3	1	184	1	0	0	0	0	1	0	0	0	8314	1116	39	1	1513	1	KIF2B	17	51901905	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	10965803	51901905	29293305	52	92193											
LAMA3	3909	broad.mit.edu	37	chr18	21399825	21399825	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcctgaaaacaactactattTcccagatttgcatcatatga	14	12	5	10	0	1	3	1	2	0	1	2	3	2	3	2	0	4	1	2	0	6	5			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr18:21399825T>A	uc002kuq.2	+	19	2254	c.2168T>A	c.(2167-2169)TTC>TAC	p.F723Y	LAMA3_uc002kur.2_Missense_Mutation_p.F723Y	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	723	Domain V.|Laminin EGF-like 8.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AACTACTATTTCCCAGATTTG	0.378													5	101					0	0	0.001984	0	0		A	21399825	A	A	21399825	3	1	184	1	0	0	0	0	1	0	0	0	8623	1783	62	5	2242	5	LAMA3	18	21399825	Missense_Mutation	SNP	T	TCGA-D7-8576-01A-11D-2340-08		21399825	56677423	53	92194											
KIAA1632	57724	broad.mit.edu	37	chr18	43490580	43490580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgccctctgctggaacacGgagggccttgcttgcagcat	7	9	12	13	1	1	0	0	0	1	0	1	2	1	2	2	3	6	4	2	3	1	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr18:43490580G>A	uc002lbm.2	-	23	4211	c.4111C>T	c.(4111-4113)CGT>TGT	p.R1371C	KIAA1632_uc002lbo.1_Missense_Mutation_p.R1371C|KIAA1632_uc010xcq.1_5'UTR|KIAA1632_uc010xcr.1_RNA|KIAA1632_uc010xcs.1_RNA|KIAA1632_uc002lbn.2_Missense_Mutation_p.R246C	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	1371					autophagy						0						GCTGGAACACGGAGGGCCTTG	0.522											OREG0024952	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	31					0	0	0.009535	0	0		A	43490580	A	A	43490580	3	1	184	1	0	0	0	0	1	0	0	0	8265	1116	39	1	3716	1	KIAA1632	18	43490580	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	22090755	43490580	34586668	54	92195											
ZNF556	80032	broad.mit.edu	37	chr19	2877321	2877321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcagtaaaggtaataaacGtggaagaaccttcagaaaga	20	6	10	5	1	1	3	1	0	0	3	1	4	1	4	1	2	3	3	1	2	9	4			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:2877321G>T	uc002lwp.1	+	4	452	c.365G>T	c.(364-366)CGT>CTT	p.R122L	ZNF556_uc002lwq.2_Missense_Mutation_p.R121L	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	122					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTAATAAACGTGGAAGAACC	0.373													22	64					8.04996e-18	8.74243e-18	0.012319	1	0		T	2877321	T	T	2877321	3	4	184	1	0	0	0	0	1	0	0	0	18012	1145	40	5	379	5	ZNF556	19	2877321	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08		2877321	56251662	55	92196											
KDM4B	23030	broad.mit.edu	37	chr19	5033012	5033012	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacgtggcctacatagagtcGcagggagcccaccgggcggg	8	5	16	12	4	0	1	0	0	0	1	1	2	0	2	3	4	3	1	3	4	3	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:5033012G>A	uc002mbq.3	+	3	337	c.111G>A	c.(109-111)TCG>TCA	p.S37S	KDM4B_uc010xil.1_Silent_p.S37S|KDM4B_uc010xim.1_Silent_p.S37S	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	37	JmjN.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						ACATAGAGTCGCAGGGAGCCC	0.622													80	127					0	0	0.01441	0	0		A	5033012	A	A	5033012	2	1	184	1	0	0	0	0	0	0	0	1	8145	1074	38	1		1	KDM4B	19	5033012	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	2155691	5033012	54095971	56	92197											
UNC13A	23025	broad.mit.edu	37	chr19	17756598	17756598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgcgggatttgatgtcGtcatcctcgtcccagacgcg	6	11	11	13	6	2	2	2	1	0	1	6	3	4	3	2	1	0	0	2	1	0	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:17756598G>A	uc002nhd.2	-	19	2505	c.2505C>T	c.(2503-2505)GAC>GAT	p.D835D		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	747	C2 2.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ATTTGATGTCGTCATCCTCGT	0.592													15	17					0	0	0.020292	0	0		A	17756598	A	A	17756598	2	1	184	1	0	0	0	0	0	0	0	1	17010	1136	40	1		1	UNC13A	19	17756598	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08	12723586	17756598	41372385	57	92198											
TSHZ3	57616	broad.mit.edu	37	chr19	31767753	31767753	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaaggagtcctgatttgggaCgcacaatcgttacaaaagaa	15	8	11	7	2	0	2	0	1	0	1	2	5	1	4	1	2	1	2	1	2	6	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:31767753C>T	uc002nsy.3	-	2	3011	c.2946G>A	c.(2944-2946)GCG>GCA	p.A982A		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	982	C2H2-type 4.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TGATTTGGGACGCACAATCGT	0.498													22	48					0	0	0.012319	0	0		T	31767753	T	T	31767753	2	4	184	1	0	0	0	0	0	0	0	1	16651	523	19	1		1	TSHZ3	19	31767753	Silent	SNP	C	TCGA-D7-8576-01A-11D-2340-08	14011155	31767753	27361230	58	92199											
LMTK3	114783	broad.mit.edu	37	chr19	49000878	49000886	+	In_Frame_Del	DEL	GCGGTGGCG	-	-																															tgcctccggtggcggtggcaGcggtggcggcggtggctgcg																								rs72051300		TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr19:49000878_49000886delGCGGTGGCG	uc002pjk.2	-	12	3527_3535	c.3527_3535delCGCCACCGC	c.(3526-3537)CCGCCACCGCTG>CTG	p.PPP1176del		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		ggcggtggcagcggtggcggcggtggctg	0.526													4	5	---	---	---	---						.	-	49000886	-	-	49000878	7	5	184	1	0	1	0	1	0	0	0	0	8877	962	34	0	954	0	LMTK3	19	49000878	In_Frame_Del	DEL	GCGGTGGCG	TCGA-D7-8576-01A-11D-2340-08	17233125	49000878	10128105	59	92200											
APP	351	broad.mit.edu	37	chr21	27425588	27425588	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccagtgaagatgagtttcGcaaacatccatcctctcctg	10	11	8	12	1	1	3	0	2	1	1	5	3	3	3	4	0	2	2	4	0	2	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr21:27425588G>A	uc002ylz.2	-	4	632	c.432C>T	c.(430-432)TGC>TGT	p.C144C	APP_uc010glk.2_Silent_p.C139C|APP_uc002yma.2_Silent_p.C144C|APP_uc011ach.1_Silent_p.C88C|APP_uc002ymb.2_Silent_p.C144C|APP_uc010glj.2_Silent_p.C88C|APP_uc011aci.1_Silent_p.C109C|APP_uc011acj.1_Silent_p.C144C	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	144	Extracellular (Potential).	Required for Cu(2+) reduction.		C->S: Binds copper. No dimer formation. No copper reducing activity.	adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				GATGAGTTTCGCAAACATCCA	0.453													13	70					0	0	0.013537	0	0		A	27425588	A	A	27425588	2	1	184	1	0	0	0	0	0	0	0	1	815	1079	38	1		1	APP	21	27425588	Silent	SNP	G	TCGA-D7-8576-01A-11D-2340-08		27425588	20704307	60	92201											
KRTAP26-1	388818	broad.mit.edu	37	chr21	31691973	31691973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctggtaactattgagcagCggcctcagtggacgacagcc	9	7	14	11	2	1	1	1	1	0	0	1	3	1	2	2	4	4	3	2	4	2	3			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr21:31691973C>T	uc002ynw.2	-	1	635	c.381G>A	c.(379-381)CCG>CCA	p.P127P		NM_203405	NP_981950	Q6PEX3	KR261_HUMAN	keratin associated protein 26-1	127						intermediate filament				ovary(1)	1						TATTGAGCAGCGGCCTCAGTG	0.532													34	56					0	0	0.012213	0	0		T	31691973	T	T	31691973	2	4	184	1	0	0	0	0	0	0	0	1	8559	755	27	1		1	KRTAP26-1	21	31691973	Silent	SNP	C	TCGA-D7-8576-01A-11D-2340-08	4266385	31691973	16437922	61	92202											
MICAL3	57553	broad.mit.edu	37	chr22	18347703	18347703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggccacggcgttggccCgtccgtttgcatctgtggtg	3	11	15	12	4	1	0	0	0	1	0	2	0	2	0	3	4	2	4	3	4	0	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr22:18347703C>T	uc002zng.3	-	19	2920	c.2567G>A	c.(2566-2568)CGG>CAG	p.R856Q	MICAL3_uc011agl.1_Missense_Mutation_p.R856Q|MICAL3_uc002znh.2_Missense_Mutation_p.R856Q|MICAL3_uc002znj.1_Missense_Mutation_p.R584Q|MICAL3_uc002znk.1_Missense_Mutation_p.R856Q|MICAL3_uc002znl.1_Missense_Mutation_p.R489Q|MICAL3_uc002znm.2_Missense_Mutation_p.R357Q|MICAL3_uc010grf.2_Missense_Mutation_p.R980Q	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	856						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		GGCGTTGGCCCGTCCGTTTGC	0.582													20	67					0	0	0.010504	0	0		T	18347703	T	T	18347703	3	4	184	1	0	0	0	0	1	0	0	0	9589	652	23	1	3846	1	MICAL3	22	18347703	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		18347703	32956863	62	92203											
HIRA	7290	broad.mit.edu	37	chr22	19341023	19341023	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaggcacggagaagagccGggcagcctgccttcccgagc	9	4	15	13	3	0	3	0	1	0	2	1	5	1	3	4	3	4	2	4	3	1	1			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chr22:19341023G>C	uc002zpf.1	-	23	2924	c.2704C>G	c.(2704-2706)CGG>GGG	p.R902G	HIRA_uc011agx.1_Missense_Mutation_p.R768G|HIRA_uc010grn.1_Missense_Mutation_p.R695G|HIRA_uc010gro.1_Missense_Mutation_p.R858G|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	902	Interaction with histone H4.				chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					GAGAAGAGCCGGGCAGCCTGC	0.612													16	7					0	0	0.028581	0	0		C	19341023	C	C	19341023	3	2	184	1	0	0	0	0	1	0	0	0	7136	1115	39	5	361	5	HIRA	22	19341023	Missense_Mutation	SNP	G	TCGA-D7-8576-01A-11D-2340-08	993320	19341023	31963543	63	92204											
FAM47B	170062	broad.mit.edu	37	chrX	34962140	34962140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtcggatgccccatctcCgcctggtgcttcccataact	7	10	9	15	2	1	1	0	0	1	1	4	2	2	2	5	2	3	1	5	2	1	2			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:34962140C>T	uc004ddi.1	+	1	1210	c.1192C>T	c.(1192-1194)CGC>TGC	p.R398C		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	398										ovary(3)|breast(1)	4						GCCCCATCTCCGCCTGGTGCT	0.582													7	66					0	0	0.001984	0	0		T	34962140	T	T	34962140	3	4	184	1	0	0	0	0	1	0	0	0	5584	652	23	1	1194	1	FAM47B	23	34962140	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08		34962140	120308420	64	92205											
SHROOM4	57477	broad.mit.edu	37	chrX	50376816	50376816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agcagtagaagccttcaattCcttgttgtcacctgggttgg	8	13	11	9	0	2	1	2	0	0	1	3	1	3	1	3	2	2	4	3	2	3	6			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:50376816C>T	uc004dpe.2	-	4	2283	c.2257G>A	c.(2257-2259)GAA>AAA	p.E753K	SHROOM4_uc004dpd.3_RNA|SHROOM4_uc004dpf.1_Missense_Mutation_p.E637K	NM_020717	NP_065768	Q9ULL8	SHRM4_HUMAN	shroom family member 4	753					actin filament organization|brain development|cell morphogenesis|cognition	apical plasma membrane|basal plasma membrane|internal side of plasma membrane|nucleus	actin filament binding			upper_aerodigestive_tract(1)	1	Ovarian(276;0.236)					GCCTTCAATTCCTTGTTGTCA	0.498													11	87					0	0	0.008291	0	0		T	50376816	T	T	50376816	3	4	184	1	0	0	0	0	1	0	0	0	14321	864	30	4	2248	4	SHROOM4	23	50376816	Missense_Mutation	SNP	C	TCGA-D7-8576-01A-11D-2340-08	15414676	50376816	104893744	65	92206											
TRMT2B	79979	broad.mit.edu	37	chrX	100274308	100274308	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggttcaccacagcaacaAttgactgtccatcttccttt	9	13	6	13	0	2	1	1	1	1	0	4	1	4	1	3	1	2	2	3	1	2	4			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:100274308A>G	uc004egq.2	-	11	1552	c.1253T>C	c.(1252-1254)ATT>ACT	p.I418T	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.I418T|TRMT2B_uc004egs.2_Missense_Mutation_p.I418T|TRMT2B_uc004egt.2_Missense_Mutation_p.I418T|TRMT2B_uc004egu.2_Missense_Mutation_p.I299T|TRMT2B_uc004egv.2_Missense_Mutation_p.I373T	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	418							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						CACAGCAACAATTGACTGTCC	0.468													11	55					0	0	0.008291	0	0		G	100274308	G	G	100274308	3	3	184	1	0	0	0	0	1	0	0	0	16592	101	4	3	273	3	TRMT2B	23	100274308	Missense_Mutation	SNP	A	TCGA-D7-8576-01A-11D-2340-08	49897492	100274308	54996252	66	92207											
F9	2158	broad.mit.edu	37	chrX	138633424	138633424	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggtcaattcccttggcagGtactttatactgatggtgtg	8	14	11	8	0	1	1	1	1	0	0	2	1	2	1	1	4	2	2	1	4	4	6			TCGA-D7-8576-01A-11D-2340-08	TCGA-D7-8576-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	55fb5533-c4fb-4868-8763-265bb849e87e	d42e8bcc-afc8-4482-aae0-94de92c6d54d	g.chrX:138633424G>A	uc004fas.1	+	6	752	c.723_splice	c.e6+1	p.Q241_splice	F9_uc004fat.1_Splice_Site_p.Q203_splice	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein						blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	CCCTTGGCAGGTACTTTATAC	0.458													27	31					0	0	0.027356	0	0		A	138633424	A	A	138633424	5	1	184	1	0	0	0	0	0	0	1	0	5362	1275	44	4	746	4	F9	23	138633424	Splice_Site	SNP	G	TCGA-D7-8576-01A-11D-2340-08	38359116	138633424	16637136	67	92208											
NADK	65220	broad.mit.edu	37	chr1	1696699	1696699	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctccccagggcgggcgaGgcagacaggctgcgagactt	7	5	17	12	3	0	2	0	0	0	2	1	4	1	2	2	4	2	3	2	4	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:1696699G>C	uc009vkw.2	-	2	268	c.147C>G	c.(145-147)GCC>GCG	p.A49A	NADK_uc001aic.2_Silent_p.A49A|NADK_uc001aid.3_Silent_p.A49A|NADK_uc001aie.2_Silent_p.A49A|NADK_uc009vkx.1_5'UTR	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	49					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		GGGCGGGCGAGGCAGACAGGC	0.567													22	66					0	0	0.069288	0	0		C	1696699	C	C	1696699	2	2	185	1	0	0	0	0	0	0	0	1	10155	987	35	5		5	NADK	1	1696699	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		1696699	247553922	1	92209											
C1orf127	148345	broad.mit.edu	37	chr1	11008300	11008300	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggccccctccctggggagaCcaggccctgtctggcgtggc	3	7	15	16	1	1	1	0	0	1	1	2	2	2	1	5	6	0	0	5	6	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:11008300C>G	uc010oao.1	-	8	1450	c.1445G>C	c.(1444-1446)GGT>GCT	p.G482A	C1orf127_uc001arr.1_Missense_Mutation_p.G464A|C1orf127_uc001ars.1_Missense_Mutation_p.G456A	NM_173507	NP_775778	B7ZLG7	B7ZLG7_HUMAN	hypothetical protein LOC148345	482										ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;0.000226)|all_lung(284;0.000302)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.71e-07)|COAD - Colon adenocarcinoma(227;7.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000305)|Kidney(185;0.000785)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|READ - Rectum adenocarcinoma(331;0.0509)		CCTGGGGAGACCAGGCCCTGT	0.642													52	97					0	0	0.139131	0	0		G	11008300	G	G	11008300	3	3	185	1	0	0	0	0	1	0	0	0	1997	507	18	5	583	5	C1orf127	1	11008300	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	9311601	11008300	238242321	2	92210											
FBXO44	93611	broad.mit.edu	37	chr1	11721234	11721234	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccggcgtccgctacatctgGtttcagcacggcggcgtgga	5	8	14	14	6	2	0	1	0	1	0	3	1	3	1	2	5	2	3	2	5	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:11721234G>A	uc001asm.2	+	6	798	c.672G>A	c.(670-672)TGG>TGA	p.W224*	FBXO44_uc001ask.2_Missense_Mutation_p.V183I|FBXO44_uc001asl.2_Nonsense_Mutation_p.W224*|FBXO44_uc001asn.2_Missense_Mutation_p.V183I|FBXO44_uc010oar.1_Missense_Mutation_p.V215I|FBXO44_uc010oas.1_Nonsense_Mutation_p.W84*|FBXO6_uc001aso.2_5'Flank	NM_033182	NP_149438	Q9H4M3	FBX44_HUMAN	F-box protein 44 isoform 1	224	FBA.				protein catabolic process	SCF ubiquitin ligase complex	protein binding			ovary(1)	1	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;5.41e-06)|COAD - Colon adenocarcinoma(227;0.000255)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000758)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		GCTACATCTGGTTTCAGCACG	0.627													105	36					0	0	0.139131	0	0		A	11721234	A	A	11721234	4	1	185	1	0	0	0	0	0	1	0	0	5767	1270	44	4	690	4	FBXO44	1	11721234	Nonsense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	712934	11721234	237529387	3	92211											
NECAP2	55707	broad.mit.edu	37	chr1	16775642	16775642	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccagaacccagaccaaggCcctaaactggacctgggctt	11	5	10	15	0	0	2	0	0	0	2	0	3	0	3	5	3	2	1	5	3	4	2	rs143289277	byFrequency	TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:16775642C>A	uc001ayo.2	+	5	525	c.435C>A	c.(433-435)GGC>GGA	p.G145G	NECAP2_uc001ayp.3_RNA|NECAP2_uc010ocd.1_Silent_p.G119G|NECAP2_uc001ayq.2_Silent_p.G145G	NM_018090	NP_060560	Q9NVZ3	NECP2_HUMAN	NECAP endocytosis associated 2 isoform 1	145					endocytosis|protein transport	clathrin vesicle coat|coated pit|plasma membrane					0		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|Kidney(64;0.000181)|KIRC - Kidney renal clear cell carcinoma(64;0.00268)|STAD - Stomach adenocarcinoma(196;0.012)|READ - Rectum adenocarcinoma(331;0.0649)		CAGACCAAGGCCCTAAACTGG	0.532													10	7					5.16669e-11	5.68042e-11	0.080935	1	0		A	16775642	A	A	16775642	2	1	185	1	0	0	0	0	0	0	0	1	10327	726	26	5		5	NECAP2	1	16775642	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	5054408	16775642	232474979	4	92212											
PLA2G2E	30814	broad.mit.edu	37	chr1	20249208	20249208	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctgtcatcttctcgatCatcaccccaaactgaaccag	10	11	5	15	1	5	1	3	1	2	0	6	2	5	1	4	0	3	0	4	0	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:20249208C>A	uc001bct.1	-	2	139	c.81G>T	c.(79-81)ATG>ATT	p.M27I		NM_014589	NP_055404	Q9NZK7	PA2GE_HUMAN	phospholipase A2, group IIE precursor	27					inflammatory response|lipid catabolic process|phospholipid metabolic process	extracellular region	calcium ion binding|phospholipase A2 activity				0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00459)|Lung NSC(340;0.00475)|Breast(348;0.00526)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|COAD - Colon adenocarcinoma(152;1.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|GBM - Glioblastoma multiforme(114;0.000146)|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)		TCTTCTCGATCATCACCCCAA	0.527													24	55					2.79863e-10	3.0509e-10	0.099896	1	0		A	20249208	A	A	20249208	3	1	185	1	0	0	0	0	1	0	0	0	12017	826	29	5	359	5	PLA2G2E	1	20249208	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3473566	20249208	229001413	5	92213											
PINK1	65018	broad.mit.edu	37	chr1	20964478	20964478	+	Silent	SNP	A	G	G	1	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	tatgaagccaccatgcctacAttgccccagaacctggaggt	11	8	9	13	0	0	2	0	1	0	1	0	3	0	3	6	2	5	0	6	2	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:20964478A>G	uc001bdm.2	+	2	625	c.531A>G	c.(529-531)ACA>ACG	p.T177T		NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	177	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCATGCCTACATTGCCCCAGA	0.602													28	53					0	0	0.116897	0	0		G	20964478	G	G	20964478	2	3	185	1	0	0	0	0	0	0	0	1	11951	204	8	3		3	PINK1	1	20964478	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	715270	20964478	228286143	6	92214											
LAPTM5	7805	broad.mit.edu	37	chr1	31214496	31214496	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagccctcaccttgactacGccgatcagtaggctcaggct	8	9	10	14	2	3	2	3	2	0	0	3	3	3	2	3	2	2	3	3	2	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:31214496G>A	uc001bsc.2	-	3	340	c.249C>T	c.(247-249)GGC>GGT	p.G83G		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	83	Helical; (Potential).				transport	integral to plasma membrane|lysosomal membrane					0		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)		CCTTGACTACGCCGATCAGTA	0.607													4	4					0	0	0.009096	0	0		A	31214496	A	A	31214496	2	1	185	1	0	0	0	0	0	0	0	1	8642	1074	38	1		1	LAPTM5	1	31214496	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	10250018	31214496	218036125	7	92215											
CSMD2	114784	broad.mit.edu	37	chr1	34238273	34238273	+	Silent	SNP	G	A	A	0	0	1	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	tggcactcaaacttgagtgtGtcaccgtggtgaaaccggga	10	9	13	9	2	2	2	2	2	0	0	2	3	2	3	2	3	2	1	2	3	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:34238273G>A	uc001bxn.1	-	13	1652	c.1623C>T	c.(1621-1623)GAC>GAT	p.D541D	CSMD2_uc001bxm.1_Silent_p.D581D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	541	Sushi 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ACTTGAGTGTGTCACCGTGGT	0.557													74	19					0	0	0.139131	0	0		A	34238273	A	A	34238273	2	1	185	1	0	0	0	0	0	0	0	1	3948	1368	48	4		4	CSMD2	1	34238273	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3023777	34238273	215012348	8	92216											
CSF3R	1441	broad.mit.edu	37	chr1	36938265	36938265	+	Silent	SNP	C	T	T	0	0	0	1	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	gggctggggtccatggtccgCagcatggggggctccagttt	4	9	18	10	1	0	0	0	0	0	0	3	0	3	0	3	7	1	5	3	7	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:36938265C>T	uc001caw.1	-	7	874	c.696G>A	c.(694-696)CTG>CTA	p.L232L	CSF3R_uc001cat.1_5'Flank|CSF3R_uc009vvc.1_5'Flank|CSF3R_uc001cau.1_5'Flank|CSF3R_uc001cav.1_Silent_p.L232L|CSF3R_uc001cax.1_Silent_p.L232L|CSF3R_uc001cay.1_Silent_p.L232L	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a	232	Extracellular (Potential).				cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CCATGGTCCGCAGCATGGGGG	0.627													4	17					0	0	0.009096	0	0		T	36938265	T	T	36938265	2	4	185	1	0	0	0	0	0	0	0	1	3940	697	25	2		2	CSF3R	1	36938265	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2699992	36938265	212312356	9	92217											
EPHA10	284656	broad.mit.edu	37	chr1	38197083	38197083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cactcacacacactacttacCctcccccagggtctgtactt	9	10	4	18	0	2	0	1	0	1	0	3	0	3	0	3	1	3	1	3	1	3	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:38197083C>T	uc009vvi.2	-	7	1749	c.1663G>A	c.(1663-1665)GCT>ACT	p.A555T	EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	555	Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CACTACTTACCCTCCCCCAGG	0.577													86	49					0	0	0.139131	0	0		T	38197083	T	T	38197083	3	4	185	1	0	0	0	0	1	0	0	0	5174	637	22	4	1407	4	EPHA10	1	38197083	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1258818	38197083	211053538	10	92218											
COL9A2	1298	broad.mit.edu	37	chr1	40768858	40768858	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcagtggcatcccggccCtgaaagcagaggcctttcag	8	8	13	12	1	2	2	2	1	0	1	3	2	3	2	3	4	1	2	3	4	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:40768858C>G	uc001cfh.1	-	29	1619	c.1549_splice	c.e29-1	p.G517_splice	COL9A2_uc001cfi.1_Splice_Site_p.G336_splice	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor						axon guidance|skeletal system development	collagen type IX				ovary(2)	2	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;2.08e-17)			CATCCCGGCCCTGAAAGCAGA	0.627													7	29					0	0	0.038147	0	0		G	40768858	G	G	40768858	5	3	185	1	0	0	0	0	0	0	1	0	3711	695	24	5	537	5	COL9A2	1	40768858	Splice_Site	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2571775	40768858	208481763	11	92219											
COL9A2	1298	broad.mit.edu	37	chr1	40770188	40770188	+	Missense_Mutation	SNP	T	C	C	0	1	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	gttgccccactggacccctcTcgccttggtcaccctgaaat	6	10	8	17	1	2	1	1	1	1	0	3	2	2	2	6	2	1	1	6	2	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:40770188T>C	uc001cfh.1	-	23	1245	c.1175A>G	c.(1174-1176)GAG>GGG	p.E392G	COL9A2_uc001cfi.1_Missense_Mutation_p.E211G	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	392	Triple-helical region 3 (COL3).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	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;2.08e-17)			TGGACCCCTCTCGCCTTGGTC	0.617													10	44					0	0	0.105934	0	0		C	40770188	C	C	40770188	3	2	185	1	0	0	0	0	1	0	0	0	3711	1551	54	3	934	3	COL9A2	1	40770188	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	1330	40770188	208480433	12	92220											
C1orf87	127795	broad.mit.edu	37	chr1	60456444	60456444	+	Silent	SNP	C	T	T	0	0	0	1	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	attttctgagggctcagggaCaggttgtaaatgagattgta	11	13	13	4	0	2	2	1	2	1	1	2	4	2	3	0	3	0	4	0	3	3	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:60456444C>T	uc001czs.1	-	12	1634	c.1542G>A	c.(1540-1542)CTG>CTA	p.L514L	C1orf87_uc001czr.1_Silent_p.L106L	NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	514							calcium ion binding			ovary(1)|breast(1)	2						GGCTCAGGGACAGGTTGTAAA	0.483													109	76					0	0	0.139131	0	0		T	60456444	T	T	60456444	2	4	185	1	0	0	0	0	0	0	0	1	2067	465	17	4		4	C1orf87	1	60456444	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	19686256	60456444	188794177	13	92221											
DNAJC6	9829	broad.mit.edu	37	chr1	65858259	65858259	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcatggagtcaagaagccCagcaaaaagcagcaggagcc	15	3	11	12	0	2	1	2	0	0	1	2	3	2	3	3	2	5	3	3	2	4	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:65858259C>A	uc001dcd.1	+	12	1607	c.1443C>A	c.(1441-1443)CCC>CCA	p.P481P	DNAJC6_uc001dcc.1_Silent_p.P512P|DNAJC6_uc010opc.1_Silent_p.P468P|DNAJC6_uc001dce.1_Silent_p.P538P	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	481	Pro-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						TCAAGAAGCCCAGCAAAAAGC	0.532													15	6					2.23348e-06	2.36163e-06	0.146539	1	0		A	65858259	A	A	65858259	2	1	185	1	0	0	0	0	0	0	0	1	4659	581	21	5		5	DNAJC6	1	65858259	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	5401815	65858259	183392362	14	92222											
AKNAD1	254268	broad.mit.edu	37	chr1	109395133	109395133	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agccttctcttgagggtcatCtgctatgaaaataatttgat	11	15	8	7	0	3	3	1	3	2	0	4	3	3	3	1	1	2	1	1	1	4	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:109395133C>G	uc001dwa.2	-	2	423	c.154G>C	c.(154-156)GAT>CAT	p.D52H	AKNAD1_uc010ovb.1_Intron|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	52										ovary(3)	3						TGAGGGTCATCTGCTATGAAA	0.383													33	58					0	0	0.050027	0	0		G	109395133	G	G	109395133	3	3	185	1	0	0	0	0	1	0	0	0	464	913	32	5	2416	5	AKNAD1	1	109395133	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	43536874	109395133	139855488	15	92223											
SYT6	148281	broad.mit.edu	37	chr1	114641809	114641809	+	Missense_Mutation	SNP	A	C	C	1	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	cctcattgtagacaggattgAgagtgtttttctttatggtt	8	18	10	5	0	2	2	1	1	1	2	2	4	2	3	1	2	0	3	1	2	2	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:114641809A>C	uc001eev.2	-	5	1266	c.1016T>G	c.(1015-1017)CTC>CGC	p.L339R	SYT6_uc001eeu.2_5'UTR	NM_205848	NP_995320	Q5T7P8	SYT6_HUMAN	synaptotagmin VI	424	Cytoplasmic (Potential).|C2 2.				acrosomal vesicle exocytosis	cell junction|cytosol|integral to membrane|perinuclear endoplasmic reticulum|peripheral to membrane of membrane fraction|synaptic vesicle membrane	clathrin binding|metal ion binding|protein homodimerization activity|syntaxin binding|transporter activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Lung SC(450;0.184)	all_cancers(81;4.41e-08)|all_epithelial(167;5.18e-08)|all_lung(203;1.58e-05)|Lung NSC(69;2.82e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GACAGGATTGAGAGTGTTTTT	0.463													41	79					0	0	0.092188	0	0		C	114641809	C	C	114641809	3	2	185	1	0	0	0	0	1	0	0	0	15503	304	11	5	273	5	SYT6	1	114641809	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	5246676	114641809	134608812	16	92224											
PRUNE	58497	broad.mit.edu	37	chr1	151006687	151006687	+	Missense_Mutation	SNP	A	C	C	1	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	tctcactgtcacagtctaccAcagcctccctgtccaagaag	10	9	6	16	0	3	1	2	0	2	1	6	1	5	1	4	0	2	0	4	0	3	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:151006687A>C	uc001ewh.1	+	8	1475	c.1339A>C	c.(1339-1341)ACA>CCA	p.T447P	PRUNE_uc001ewi.1_Missense_Mutation_p.T265P|PRUNE_uc010pco.1_Missense_Mutation_p.T215P|PRUNE_uc001ewj.1_Missense_Mutation_p.T162P|PRUNE_uc001ewk.1_Missense_Mutation_p.T212P|BNIPL_uc009wmi.2_5'Flank|BNIPL_uc001ewl.2_5'Flank	NM_021222	NP_067045	Q86TP1	PRUNE_HUMAN	prune	447						cytoplasm|focal adhesion|nucleus	inorganic diphosphatase activity|manganese ion binding|protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ACAGTCTACCACAGCCTCCCT	0.522													50	142					0	0	0.139131	0	0		C	151006687	C	C	151006687	3	2	185	1	0	0	0	0	1	0	0	0	12662	159	6	5	1369	5	PRUNE	1	151006687	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	36364878	151006687	98243934	17	92225											
CDC42SE1	56882	broad.mit.edu	37	chr1	151026763	151026763	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatggcctatctcggtttCccttggatctcatctgctcc	4	15	7	15	1	3	0	1	0	3	0	8	1	6	1	4	3	1	2	4	3	1	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:151026763C>A	uc001ewo.2	-	5	770	c.200G>T	c.(199-201)GGA>GTA	p.G67V	CDC42SE1_uc001ewp.2_Missense_Mutation_p.G67V	NM_001038707	NP_001033796	Q9NRR8	C42S1_HUMAN	CDC42 small effector 1	67					phagocytosis|regulation of cell shape|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase inhibitor activity				0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			ATCTCGGTTTCCCTTGGATCT	0.448													69	262					6.86016e-32	8.24498e-32	0.139131	1	0		A	151026763	A	A	151026763	3	1	185	1	0	0	0	0	1	0	0	0	3082	855	30	5	43	5	CDC42SE1	1	151026763	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	20076	151026763	98223858	18	92226											
RFX5	5993	broad.mit.edu	37	chr1	151314729	151314729	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgaagcacatgctcctttAagtctttattaccctgtggt	8	17	7	9	0	1	1	0	1	1	0	2	1	2	1	2	1	3	2	2	1	4	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:151314729A>T	uc001exv.1	-	11	1998	c.1784T>A	c.(1783-1785)TTA>TAA	p.L595*	RFX5_uc001exw.1_Nonsense_Mutation_p.L595*|RFX5_uc009wmr.1_Nonsense_Mutation_p.L595*|RFX5_uc010pcx.1_Nonsense_Mutation_p.L555*	NM_001025603	NP_001020774	P48382	RFX5_HUMAN	regulatory factor X, 5	595						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	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)			ATGCTCCTTTAAGTCTTTATT	0.473													104	73					0	0	0.139131	0	0		T	151314729	T	T	151314729	4	4	185	1	0	0	0	0	0	1	0	0	13291	372	13	5	70	5	RFX5	1	151314729	Nonsense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	287966	151314729	97935892	19	92227											
SNX27	81609	broad.mit.edu	37	chr1	151634671	151634671	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtgtgtccgacgtagagctGagagtagcattaccagatgg	10	9	15	7	2	0	3	0	1	0	3	1	5	1	3	2	2	3	4	2	2	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:151634671G>C	uc001eyn.1	+	5	847	c.831G>C	c.(829-831)CTG>CTC	p.L277L	SNX27_uc001eyo.2_Silent_p.L184L|SNX27_uc001eyp.2_Silent_p.L91L	NM_030918	NP_112180	Q96L92	SNX27_HUMAN	sorting nexin family member 27	277	Ras-associating.				cell communication|protein transport|signal transduction	cytosol|early endosome	phosphatidylinositol binding|protein binding			ovary(2)|central_nervous_system(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			ACGTAGAGCTGAGAGTAGCAT	0.403													16	55					0	0	0.043863	0	0		C	151634671	C	C	151634671	2	2	185	1	0	0	0	0	0	0	0	1	14922	1277	45	5		5	SNX27	1	151634671	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	319942	151634671	97615950	20	92228											
TCHHL1	126637	broad.mit.edu	37	chr1	152059360	152059360	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggtctttgtgttgcttcTtttggtggtgaactttgggt	3	20	13	5	0	2	1	0	1	2	0	2	1	2	1	0	4	2	2	0	4	1	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:152059360T>C	uc001ezo.1	-	3	863	c.798A>G	c.(796-798)AAA>AAG	p.K266K		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	266							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GTGTTGCTTCTTTTGGTGGTG	0.428													79	177					0	0	0.139131	0	0		C	152059360	C	C	152059360	2	2	185	1	0	0	0	0	0	0	0	1	15726	1606	56	3		3	TCHHL1	1	152059360	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	424689	152059360	97191261	21	92229											
TCHH	7062	broad.mit.edu	37	chr1	152086500	152086500	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctccatcacaatcatgagaGacatactgattgaaaatttc	15	11	6	9	0	2	4	2	3	0	1	4	5	3	4	1	0	1	1	1	0	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:152086500G>A	uc001ezp.2	-	1	57	c.57C>T	c.(55-57)GTC>GTT	p.V19V	TCHH_uc009wne.1_Silent_p.V19V	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	19	S-100-like.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AATCATGAGAGACATACTGAT	0.368													25	87					0	0	0.099896	0	0		A	152086500	A	A	152086500	2	1	185	1	0	0	0	0	0	0	0	1	15725	929	33	4		4	TCHH	1	152086500	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	27140	152086500	97164121	22	92230											
HRNR	388697	broad.mit.edu	37	chr1	152187700	152187700	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcctgatctagagccgtgTtgtccgtagccagaggagtg	7	11	14	9	2	1	3	0	1	1	2	3	4	3	4	4	1	2	2	4	1	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:152187700T>C	uc001ezt.1	-	3	6481	c.6405A>G	c.(6403-6405)CAA>CAG	p.Q2135Q		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2135					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TAGAGCCGTGTTGTCCGTAGC	0.567													34	672					0	0	0.086207	0	0		C	152187700	C	C	152187700	2	2	185	1	0	0	0	0	0	0	0	1	7375	1722	60	3		3	HRNR	1	152187700	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	101200	152187700	97062921	23	92231											
KPRP	448834	broad.mit.edu	37	chr1	152733487	152733487	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcacccagagccttgtccaCgaccagagccaattcccctg	10	6	8	17	1	0	2	0	0	0	2	2	3	2	2	7	0	3	1	7	0	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:152733487C>T	uc001fal.1	+	2	1481	c.1423C>T	c.(1423-1425)CGA>TGA	p.R475*		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	475	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCCTTGTCCACGACCAGAGCC	0.672													91	93					0	0	0.139131	0	0		T	152733487	T	T	152733487	4	4	185	1	0	0	0	0	0	1	0	0	8452	528	19	1	1425	1	KPRP	1	152733487	Nonsense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	545787	152733487	96517134	24	92232											
RUSC1	23623	broad.mit.edu	37	chr1	155297948	155297948	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcccttcttttaggagaccaTctagctggctgcccccgaca	7	11	8	15	1	2	1	0	0	2	1	3	3	3	1	4	2	2	2	4	2	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:155297948T>C	uc001fkj.2	+	9	2651	c.2422T>C	c.(2422-2424)TCT>CCT	p.S808P	RAG1AP1_uc010pey.1_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.S702P|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_Missense_Mutation_p.S339P|RUSC1_uc001fkl.2_Missense_Mutation_p.S398P|RUSC1_uc001fkp.2_Missense_Mutation_p.S339P|RUSC1_uc001fkq.2_Missense_Mutation_p.S233P|RUSC1_uc010pgb.1_Missense_Mutation_p.S306P|RUSC1_uc009wqp.1_Missense_Mutation_p.S333P|RUSC1_uc001fkn.2_Missense_Mutation_p.S117P|RUSC1_uc001fko.2_RNA|RUSC1_uc001fkr.2_Missense_Mutation_p.S339P|RUSC1_uc001fks.2_Intron	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	808						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			TAGGAGACCATCTAGCTGGCT	0.587													22	368					0	0	0.108266	0	0		C	155297948	C	C	155297948	3	2	185	1	0	0	0	0	1	0	0	0	13775	1435	50	3	2583	3	RUSC1	1	155297948	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	2564461	155297948	93952673	25	92233											
OR10K2	391107	broad.mit.edu	37	chr1	158390537	158390537	+	Silent	SNP	G	T	T	0	0	1	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	gaaatgatgattgcattggtGcccagagtgaacaggtagag	13	9	14	5	0	0	5	0	3	0	2	0	6	0	5	1	2	3	2	1	2	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:158390537G>T	uc010pii.1	-	1	120	c.120C>A	c.(118-120)GGC>GGA	p.G40G		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TTGCATTGGTGCCCAGAGTGA	0.517													90	68					1.09326e-46	1.33048e-46	0.139131	1	0		T	158390537	T	T	158390537	2	4	185	1	0	0	0	0	0	0	0	1	10933	1306	46	5		5	OR10K2	1	158390537	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3092589	158390537	90860084	26	92234											
OR6K2	81448	broad.mit.edu	37	chr1	158669861	158669861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccactacctgaatcatgacGatggctcgtgtgtctgtgca	8	12	10	11	2	2	2	1	2	1	0	4	3	3	2	2	1	2	2	2	1	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:158669861G>A	uc001fsu.1	-	1	582	c.582C>T	c.(580-582)ATC>ATT	p.I194I		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					GAATCATGACGATGGCTCGTG	0.468													49	116					0	0	0.139131	0	0		A	158669861	A	A	158669861	2	1	185	1	0	0	0	0	0	0	0	1	11221	1048	37	1		1	OR6K2	1	158669861	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	279324	158669861	90580760	27	92235											
MNDA	4332	broad.mit.edu	37	chr1	158813857	158813857	+	Missense_Mutation	SNP	A	T	T	1	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	cacatctgcagctgtggatcAtcccccactaccccagacct	9	8	6	18	0	2	1	1	0	1	1	3	2	3	2	5	1	3	2	5	1	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:158813857A>T	uc001fsz.1	+	4	715	c.515A>T	c.(514-516)CAT>CTT	p.H172L		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	172					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GCTGTGGATCATCCCCCACTA	0.498													72	188					0	0	0.139131	0	0		T	158813857	T	T	158813857	3	4	185	1	0	0	0	0	1	0	0	0	9694	217	8	5	525	5	MNDA	1	158813857	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	143996	158813857	90436764	28	92236											
LY9	4063	broad.mit.edu	37	chr1	160786398	160786398	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcacaggcaggctgaggaagCccaaaatcacgtggagcctc	12	5	12	12	1	2	1	2	1	0	0	3	3	2	3	2	4	2	2	2	4	3	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:160786398C>G	uc001fwu.2	+	5	1137	c.1087C>G	c.(1087-1089)CCC>GCC	p.P363A	LY9_uc001fwv.2_Missense_Mutation_p.P363A|LY9_uc001fww.2_Intron|LY9_uc001fwx.2_Intron|LY9_uc001fwy.1_Intron|LY9_uc001fwz.2_Missense_Mutation_p.P15A	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	363	Extracellular (Potential).|Ig-like V-type 2.				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			GCTGAGGAAGCCCAAAATCAC	0.542													6	8					0	0	0.021553	0	0		G	160786398	G	G	160786398	3	3	185	1	0	0	0	0	1	0	0	0	9119	739	26	5	1237	5	LY9	1	160786398	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1972541	160786398	88464223	29	92237											
RGS4	5999	broad.mit.edu	37	chr1	163044202	163044202	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaggcccagaagaagatttTcaacctgatggagaaggatt	14	9	12	6	0	1	6	1	2	0	4	1	8	1	7	2	3	1	0	2	3	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:163044202T>C	uc009wuy.2	+	5	981	c.470T>C	c.(469-471)TTC>TCC	p.F157S	RGS4_uc001gcl.3_Missense_Mutation_p.F254S|RGS4_uc009wuz.2_3'UTR|RGS4_uc009wva.2_Missense_Mutation_p.F139S	NM_005613	NP_005604	P49798	RGS4_HUMAN	regulator of G-protein signaling 4 isoform 2	157	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(2)|central_nervous_system(1)	3						AAGAAGATTTTCAACCTGATG	0.507													139	410					0	0	0.139131	0	0		C	163044202	C	C	163044202	3	2	185	1	0	0	0	0	1	0	0	0	13332	1783	62	3	783	3	RGS4	1	163044202	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	2257804	163044202	86206419	30	92238											
POGK	57645	broad.mit.edu	37	chr1	166818400	166818400	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagtttcagttcagccgggGcatgcgccgcagttacgacg	8	8	14	11	5	2	0	2	0	0	0	2	2	2	0	2	2	3	5	2	2	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:166818400G>T	uc001gdt.1	+	5	704	c.584G>T	c.(583-585)GGC>GTC	p.G195V	POGK_uc010ple.1_Missense_Mutation_p.G110V|POGK_uc010plf.1_Missense_Mutation_p.G77V	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	195					multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						TTCAGCCGGGGCATGCGCCGC	0.557													16	62					3.45872e-05	3.59818e-05	0.146539	1	0		T	166818400	T	T	166818400	3	4	185	1	0	0	0	0	1	0	0	0	12204	1203	42	5	598	5	POGK	1	166818400	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3774198	166818400	82432221	31	92239											
SELP	6403	broad.mit.edu	37	chr1	169559386	169559386	+	Nonstop_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atctttatagggatcttaccTtaaggactcgggtcaaatgc	11	13	9	8	1	3	0	1	0	2	0	4	2	3	2	1	3	2	0	1	3	5	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:169559386T>G	uc001ggi.3	-	16	2558	c.2493A>C	c.(2491-2493)TAA>TAC	p.*831Y	SELP_uc001ggh.2_Nonstop_Mutation_p.*626Y|SELP_uc009wvr.2_Nonstop_Mutation_p.*830Y	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	831					platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	GGATCTTACCTTAAGGACTCG	0.333													28	81					0	0	0.054565	0	0		G	169559386	G	G	169559386	4	3	185	1	0	0	0	0	0	0	0	0	14044	1623	56	5	3	5	SELP	1	169559386	Nonstop_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	2740986	169559386	79691235	32	92240											
SELP	6403	broad.mit.edu	37	chr1	169559420	169559420	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgcagcgtttgtaaaaActccatatgttcctaggtgg	12	12	9	8	1	0	0	0	0	0	0	2	0	2	0	2	2	3	4	2	2	6	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:169559420A>C	uc001ggi.3	-	16	2524	c.2459T>G	c.(2458-2460)GTT>GGT	p.V820G	SELP_uc001ggh.2_Missense_Mutation_p.V615G|SELP_uc009wvr.2_Missense_Mutation_p.V819G	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	820	Endocytosis signal (Probable).|Cytoplasmic (Potential).				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	GTTTGTAAAAACTCCATATGT	0.373													34	93					0	0	0.080422	0	0		C	169559420	C	C	169559420	3	2	185	1	0	0	0	0	1	0	0	0	14044	43	2	5	37	5	SELP	1	169559420	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	34	169559420	79691201	33	92241											
BAT2L2	23215	broad.mit.edu	37	chr1	171484978	171484978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgatgacaactatggacctgGacccagtttacgtccaccaa	12	9	8	12	1	0	2	0	2	0	0	1	4	1	4	4	2	2	1	4	2	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:171484978G>A	uc010pmg.1	+	5	766	c.500G>A	c.(499-501)GGA>GAA	p.G167E	BAT2L2_uc001ghq.1_Missense_Mutation_p.G164E|BAT2L2_uc001ghr.1_Missense_Mutation_p.G169E	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	167							protein C-terminus binding				0						TATGGACCTGGACCCAGTTTA	0.403													24	60					0	0	0.099896	0	0		A	171484978	A	A	171484978	3	1	185	1	0	0	0	0	1	0	0	0	1322	1174	41	4	514	4	BAT2L2	1	171484978	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1925558	171484978	77765643	34	92242											
LGR6	59352	broad.mit.edu	37	chr1	202287851	202287851	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttccctgtcacgcccgaggCcgtcaagtctgtcctgctgg	4	10	11	16	3	3	0	2	0	1	0	5	1	5	0	4	2	1	1	4	2	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:202287851C>A	uc001gxu.2	+	18	2420	c.2420C>A	c.(2419-2421)GCC>GAC	p.A807D	LGR6_uc001gxv.2_Missense_Mutation_p.A755D|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.A668D	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	807	Extracellular (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						ACGCCCGAGGCCGTCAAGTCT	0.647													56	89					2.23044e-30	2.67238e-30	0.139131	1	0		A	202287851	A	A	202287851	3	1	185	1	0	0	0	0	1	0	0	0	8774	739	26	5	2637	5	LGR6	1	202287851	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	30802873	202287851	46962770	35	92243											
DSTYK	25778	broad.mit.edu	37	chr1	205156872	205156872	+	Missense_Mutation	SNP	A	C	C	1	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	gatcagtatgcaagggaggcAgtccacaatctgctggaggt	11	8	14	8	0	2	0	1	0	1	0	3	3	3	2	1	4	2	4	1	4	3	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:205156872A>C	uc001hbw.2	-	2	392	c.328T>G	c.(328-330)TGC>GGC	p.C110G	DSTYK_uc001hbx.2_Missense_Mutation_p.C110G	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	110						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						CAAGGGAGGCAGTCCACAATC	0.468													6	48					0	0	0.02938	0	0		C	205156872	C	C	205156872	3	2	185	1	0	0	0	0	1	0	0	0	4791	188	7	5	2509	5	DSTYK	1	205156872	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	2869021	205156872	44093749	36	92244											
DTL	51514	broad.mit.edu	37	chr1	212238293	212238293	+	Silent	SNP	A	G	G	1	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	caagtgaatcaaatcagtggAgctcacaatacctcagacaa	17	7	7	10	0	4	2	4	1	0	1	4	3	4	3	1	1	2	1	1	1	6	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:212238293A>G	uc009xdc.2	+	7	875	c.561A>G	c.(559-561)GGA>GGG	p.G187G	DTL_uc010ptb.1_Silent_p.G145G|DTL_uc001hiz.3_5'UTR	NM_016448	NP_057532	Q9NZJ0	DTL_HUMAN	denticleless homolog	187					DNA replication|G2/M transition DNA damage checkpoint|protein monoubiquitination|protein polyubiquitination|response to UV|translesion synthesis|ubiquitin-dependent protein catabolic process	centrosome|Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|nuclear membrane	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00796)|all cancers(67;0.0385)|Epithelial(68;0.102)		AAATCAGTGGAGCTCACAATA	0.368													25	54					0	0	0.059317	0	0		G	212238293	G	G	212238293	2	3	185	1	0	0	0	0	0	0	0	1	4793	291	11	3		3	DTL	1	212238293	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	7081421	212238293	37012328	37	92245											
CABC1	56997	broad.mit.edu	37	chr1	227174341	227174341	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gcacaggaagatggggggctCcttcctcatctgctccaagc	8	8	12	13	0	2	1	1	0	1	1	5	2	5	2	3	4	2	3	3	4	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:227174341C>G	uc001hqm.1	+	20	5266	c.1847C>G	c.(1846-1848)TCC>TGC	p.S616C	CABC1_uc001hqn.1_Missense_Mutation_p.S616C|CABC1_uc009xeq.1_Missense_Mutation_p.S564C|CABC1_uc010pvq.1_Missense_Mutation_p.S337C|CABC1_uc010pvr.1_Missense_Mutation_p.S290C|CABC1_uc001hqo.1_Missense_Mutation_p.S337C|CABC1_uc009xer.1_Missense_Mutation_p.S132C	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	616					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				ATGGGGGGCTCCTTCCTCATC	0.612													8	112					0	0	0.047766	0	0		G	227174341	G	G	227174341	3	3	185	1	0	0	0	0	1	0	0	0	2530	855	30	5	1901	5	CABC1	1	227174341	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	14936048	227174341	22076280	38	92246											
PCNXL2	80003	broad.mit.edu	37	chr1	233136182	233136182	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cactgcgccccgccaggccgGgtcgccctcgtggcagatga	5	5	14	17	5	0	2	0	1	0	1	2	2	0	2	5	3	1	1	5	3	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:233136182G>T	uc001hvl.2	-	30	5432	c.5197C>A	c.(5197-5199)CCG>ACG	p.P1733T	PCNXL2_uc001hvk.1_Missense_Mutation_p.P385T|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1733						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				CGCCAGGCCGGGTCGCCCTCG	0.617													18	41					1.00905e-13	1.13849e-13	0.049695	1	0		T	233136182	T	T	233136182	3	4	185	1	0	0	0	0	1	0	0	0	11611	1232	43	5	1236	5	PCNXL2	1	233136182	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	5961841	233136182	16114439	39	92247											
MTR	4548	broad.mit.edu	37	chr1	237026804	237026804	+	Silent	SNP	C	T	T	0	0	0	1	1	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	actgttaaaggcgacgtgcaCgacataggcaagaacatagt	15	7	11	8	3	0	1	0	0	0	1	0	3	0	1	0	2	2	3	0	2	6	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:237026804C>T	uc001hyi.3	+	22	2778	c.2355C>T	c.(2353-2355)CAC>CAT	p.H785H	MTR_uc010pxw.1_Silent_p.H378H|MTR_uc010pxx.1_Silent_p.H734H|MTR_uc010pxy.1_Silent_p.H639H	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	785	B12-binding.	Cobalt (cobalamin axial ligand) (By similarity).			nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	GCGACGTGCACGACATAGGCA	0.488													24	33					0	0	0.099896	0	0		T	237026804	T	T	237026804	2	4	185	1	0	0	0	0	0	0	0	1	9976	535	19	1		1	MTR	1	237026804	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3890622	237026804	12223817	40	92248											
C1orf100	200159	broad.mit.edu	37	chr1	244541857	244541857	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcattcgatatatttgtCttcgaagacattcaaagcct	12	14	5	10	2	3	1	2	0	1	1	5	3	3	1	1	0	1	0	1	0	4	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:244541857C>A	uc001iah.2	+	4	354	c.241C>A	c.(241-243)CTT>ATT	p.L81I	C1orf100_uc001iai.2_Intron	NM_001012970	NP_001012988	Q5SVJ3	CA100_HUMAN	hypothetical protein LOC200159	81											0	all_cancers(71;3.94e-05)|all_epithelial(71;0.000138)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|all_lung(81;0.0736)|Ovarian(71;0.0761)|Lung NSC(105;0.103)		all cancers(7;8.19e-08)|GBM - Glioblastoma multiforme(7;2.05e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.000984)			ATATATTTGTCTTCGAAGACA	0.403													35	45					7.65355e-07	8.18211e-07	0.050027	1	0		A	244541857	A	A	244541857	3	1	185	1	0	0	0	0	1	0	0	0	1978	913	32	5	251	5	C1orf100	1	244541857	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	7515053	244541857	4708764	41	92249											
CNST	163882	broad.mit.edu	37	chr1	246754949	246754949	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtgacagcgtggaaaggagtGtgacctgtctgccttctgca	8	10	14	9	1	2	2	0	2	2	0	2	4	2	4	2	2	3	1	2	2	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:246754949G>A	uc001ibp.2	+	2	463	c.85G>A	c.(85-87)GTG>ATG	p.V29M	CNST_uc001ibo.3_Missense_Mutation_p.V29M	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	29					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						GGAAAGGAGTGTGACCTGTCT	0.488													33	67					0	0	0.144211	0	0		A	246754949	A	A	246754949	3	1	185	1	0	0	0	0	1	0	0	0	3637	1377	48	4	87	4	CNST	1	246754949	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	2213092	246754949	2495672	42	92250											
NLRP3	114548	broad.mit.edu	37	chr1	247599290	247599290	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttggtcagctgctgcctCacatcagcatgttgtcagga	8	11	12	10	0	4	0	4	0	0	0	4	1	4	1	1	3	4	5	1	3	0	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr1:247599290C>A	uc001icr.2	+	8	2655	c.2517C>A	c.(2515-2517)CTC>CTA	p.L839L	NLRP3_uc001ics.2_Intron|NLRP3_uc001icu.2_Silent_p.L839L|NLRP3_uc001icw.2_Silent_p.L782L|NLRP3_uc001icv.2_Intron|NLRP3_uc010pyw.1_Silent_p.L817L	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	839	LRR 4.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GCTGCTGCCTCACATCAGCAT	0.542													37	52					4.92203e-23	5.77219e-23	0.086207	1	0		A	247599290	A	A	247599290	2	1	185	1	0	0	0	0	0	0	0	1	10497	813	29	5		5	NLRP3	1	247599290	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	844341	247599290	1651331	43	92251											
MYT1L	23040	broad.mit.edu	37	chr2	1926074	1926075	+	Frame_Shift_Ins	INS	-	T	T																															tacctttaccatagtatggcINStttttgacatggctgtcact																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:1926074_1926075insT	uc002qxe.2	-	10	2293_2294	c.1466_1467insA	c.(1465-1467)AAGfs	p.K489fs	MYT1L_uc002qxd.2_Frame_Shift_Ins_p.K489fs|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	489					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CATAGTATGGCTTTTTGACATG	0.45													31	15	---	---	---	---						.	T	1926075	T	T	1926074	7	5	185	1	0	1	1	0	0	0	0	0	10125	796	28	0	2151	0	MYT1L	2	1926074	Frame_Shift_Ins	INS	-	TCGA-D7-A4YT-01A-11D-A25D-08		1926074	241273299	44	92252											
OTOF	9381	broad.mit.edu	37	chr2	26699838	26699838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agaagagcaggtccttggagGgcacacgggcataggcgaca	12	4	16	9	2	0	2	0	0	0	2	1	4	1	3	1	5	1	3	1	5	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:26699838G>A	uc002rhk.2	-	22	2724	c.2597C>T	c.(2596-2598)CCC>CTC	p.P866L	OTOF_uc002rhh.2_Missense_Mutation_p.P119L|OTOF_uc002rhi.2_Missense_Mutation_p.P176L|OTOF_uc002rhj.2_Missense_Mutation_p.P119L	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	866	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTCCTTGGAGGGCACACGGGC	0.612													22	17					0	0	0.055883	0	0		A	26699838	A	A	26699838	3	1	185	1	0	0	0	0	1	0	0	0	11322	1232	43	4	3681	4	OTOF	2	26699838	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	24773764	26699838	216499535	45	92253											
KIAA1841	84542	broad.mit.edu	37	chr2	61310371	61310371	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgaactgtattaatgcaaAtcttctcacacgtatagctg	13	13	6	9	1	2	1	1	1	2	0	3	1	2	1	0	0	3	4	0	0	6	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:61310371A>C	uc002saw.3	+	8	1115	c.812A>C	c.(811-813)AAT>ACT	p.N271T	KIAA1841_uc002sax.3_Missense_Mutation_p.N125T|KIAA1841_uc002say.2_Missense_Mutation_p.N271T|KIAA1841_uc002sav.3_Missense_Mutation_p.N271T	NM_001129993	NP_001123465	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform a	271											0			Epithelial(17;0.193)			ATTAATGCAAATCTTCTCACA	0.299													14	53					0	0	0.11911	0	0		C	61310371	C	C	61310371	3	2	185	1	0	0	0	0	1	0	0	0	8277	101	4	5	834	5	KIAA1841	2	61310371	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	34610533	61310371	181889002	46	92254											
VPS54	51542	broad.mit.edu	37	chr2	64144060	64144060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgcatactgttgtccctcGacaataagaacttcagctgg	11	11	8	11	1	1	1	1	0	0	1	3	2	2	1	1	1	4	3	1	1	4	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:64144060G>A	uc002scq.2	-	16	2365	c.2202C>T	c.(2200-2202)GTC>GTT	p.V734V	VPS54_uc002scp.2_Silent_p.V722V|VPS54_uc002scn.2_5'UTR|VPS54_uc002sco.2_Silent_p.V219V|VPS54_uc010fct.2_Silent_p.V581V	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	734					protein transport|retrograde transport, endosome to Golgi						0						GTTGTCCCTCGACAATAAGAA	0.388													19	55					0	0	0.076483	0	0		A	64144060	A	A	64144060	2	1	185	1	0	0	0	0	0	0	0	1	17242	1045	37	1		1	VPS54	2	64144060	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	2833689	64144060	179055313	47	92255											
ZNF638	27332	broad.mit.edu	37	chr2	71653954	71653954	+	Missense_Mutation	SNP	A	T	T	1	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	agatgaattaattgaccaagAtgattgcatttcccacagtg	14	12	8	7	0	0	5	0	3	0	2	1	5	1	5	2	0	1	1	2	0	3	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:71653954A>T	uc002shx.2	+	24	5274	c.4955A>T	c.(4954-4956)GAT>GTT	p.D1652V	ZNF638_uc002shy.2_Missense_Mutation_p.D1652V|ZNF638_uc002shz.2_Missense_Mutation_p.D1652V|ZNF638_uc002sia.2_Missense_Mutation_p.D1652V|ZNF638_uc002sib.1_3'UTR|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Missense_Mutation_p.D749V|ZNF638_uc002sid.2_Missense_Mutation_p.D21V	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1652					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						ATTGACCAAGATGATTGCATT	0.353													28	77					0	0	0.108266	0	0		T	71653954	T	T	71653954	3	4	185	1	0	0	0	0	1	0	0	0	18080	333	12	5	5045	5	ZNF638	2	71653954	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	7509894	71653954	171545419	48	92256											
DYSF	8291	broad.mit.edu	37	chr2	71747335	71747335	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgggcaccatttacagagagCcccgtgagttctcaccactt	9	10	9	13	1	1	2	1	1	1	1	2	3	1	2	4	1	2	2	4	1	1	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:71747335C>A	uc002sie.2	+	10	1310	c.934C>A	c.(934-936)CCC>ACC	p.P312T	DYSF_uc010feg.2_Missense_Mutation_p.P343T|DYSF_uc010feh.2_Missense_Mutation_p.P312T|DYSF_uc002sig.3_Missense_Mutation_p.P312T|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.P312T|DYSF_uc010fef.2_Missense_Mutation_p.P343T|DYSF_uc010fei.2_Missense_Mutation_p.P343T|DYSF_uc010fek.2_Missense_Mutation_p.P344T|DYSF_uc010fej.2_Missense_Mutation_p.P313T|DYSF_uc010fel.2_Missense_Mutation_p.P313T|DYSF_uc010feo.2_Missense_Mutation_p.P344T|DYSF_uc010fem.2_Missense_Mutation_p.P313T|DYSF_uc010fen.2_Missense_Mutation_p.P344T|DYSF_uc002sif.2_Missense_Mutation_p.P313T	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	312	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						TTACAGAGAGCCCCGTGAGTT	0.458													51	169					3.74213e-36	4.53982e-36	0.139131	1	0		A	71747335	A	A	71747335	3	1	185	1	0	0	0	0	1	0	0	0	4865	739	26	5	1164	5	DYSF	2	71747335	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	93381	71747335	171452038	49	92257											
DYSF	8291	broad.mit.edu	37	chr2	71883377	71883377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caagctgtaccggggcaagaCgcaggaggagacagaagatc	14	3	15	9	2	0	4	0	0	0	4	1	6	0	5	1	4	2	4	1	4	4	1	rs144422408		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:71883377C>T	uc002sie.2	+	42	4971	c.4595C>T	c.(4594-4596)ACG>ATG	p.T1532M	DYSF_uc010feg.2_Missense_Mutation_p.T1563M|DYSF_uc010feh.2_Missense_Mutation_p.T1539M|DYSF_uc002sig.3_Missense_Mutation_p.T1518M|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Missense_Mutation_p.T1553M|DYSF_uc010fef.2_Missense_Mutation_p.T1570M|DYSF_uc010fei.2_Missense_Mutation_p.T1549M|DYSF_uc010fek.2_Missense_Mutation_p.T1550M|DYSF_uc010fej.2_Missense_Mutation_p.T1540M|DYSF_uc010fel.2_Missense_Mutation_p.T1519M|DYSF_uc010feo.2_Missense_Mutation_p.T1564M|DYSF_uc010fem.2_Missense_Mutation_p.T1554M|DYSF_uc010fen.2_Missense_Mutation_p.T1571M|DYSF_uc002sif.2_Missense_Mutation_p.T1533M|DYSF_uc010yqy.1_Missense_Mutation_p.T413M|DYSF_uc010yqz.1_Missense_Mutation_p.T293M	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1532	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CGGGGCAAGACGCAGGAGGAG	0.522													102	366					0	0	0.139131	0	0		T	71883377	T	T	71883377	3	4	185	1	0	0	0	0	1	0	0	0	4865	536	19	1	5020	1	DYSF	2	71883377	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	136042	71883377	171315996	50	92258											
ALMS1	7840	broad.mit.edu	37	chr2	73784420	73784420	+	Silent	SNP	A	C	C	1	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	cagcaagagattcacagtacAagggcagtgactgaggctgc	13	6	13	9	0	1	3	1	2	0	1	1	4	1	3	0	2	3	4	0	2	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:73784420A>C	uc002sje.1	+	16	10266	c.10155A>C	c.(10153-10155)ACA>ACC	p.T3385T	ALMS1_uc002sjf.1_Silent_p.T3341T|ALMS1_uc002sjg.2_Silent_p.T2771T|ALMS1_uc002sjh.1_Silent_p.T2771T|ALMS1_uc010fev.1_Silent_p.T143T	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3383					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTCACAGTACAAGGGCAGTGA	0.423													29	65					0	0	0.134883	0	0		C	73784420	C	C	73784420	2	2	185	1	0	0	0	0	0	0	0	1	535	117	5	5		5	ALMS1	2	73784420	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	1901043	73784420	169414953	51	92259											
TCF7L1	83439	broad.mit.edu	37	chr2	85536584	85536584	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcaccaagtctgcccactAagctccccccgacccctgca	8	6	7	20	1	2	0	1	0	1	0	3	1	3	0	7	1	3	2	7	1	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:85536584A>G	uc002soy.2	+	12	1840	c.1766A>G	c.(1765-1767)TAA>TGA	p.*589*		NM_031283	NP_112573	Q9HCS4	TF7L1_HUMAN	HMG-box transcription factor TCF-3	589					chromatin organization|regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)|central_nervous_system(1)	3						TCTGCCCACTAAGCTCCCCCC	0.557													24	45					0	0	0.134883	0	0		G	85536584	G	G	85536584	2	3	185	1	0	0	0	0	0	0	0	1	15722	369	13	3		3	TCF7L1	2	85536584	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	11752164	85536584	157662789	52	92260											
ASTL	431705	broad.mit.edu	37	chr2	96789646	96789646	+	Silent	SNP	T	C	C	0	1	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	acacagccccctggcagagcTgggcttccctggacagggac	8	5	13	15	0	0	1	0	0	0	1	1	3	1	3	3	4	2	3	3	4	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:96789646T>C	uc010yui.1	-	9	1239	c.1239A>G	c.(1237-1239)CCA>CCG	p.P413P		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	413					proteolysis		metalloendopeptidase activity|zinc ion binding				0						CTGGCAGAGCTGGGCTTCCCT	0.587													44	60					0	0	0.139131	0	0		C	96789646	C	C	96789646	2	2	185	1	0	0	0	0	0	0	0	1	1064	1567	55	3		3	ASTL	2	96789646	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	11253062	96789646	146409727	53	92261											
MAP4K4	9448	broad.mit.edu	37	chr2	102476248	102476248	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgcagcagccgccaccaccGcagcaggaaaggagcaagcc	12	1	12	16	3	0	0	0	0	0	0	1	2	0	2	5	2	5	5	5	2	2	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:102476248G>A	uc002tbg.2	+	15	1681	c.1626G>A	c.(1624-1626)CCG>CCA	p.P542P	MAP4K4_uc002tbc.2_Silent_p.P542P|MAP4K4_uc002tbd.2_Silent_p.P511P|MAP4K4_uc002tbe.2_Silent_p.P511P|MAP4K4_uc002tbf.2_Silent_p.P511P|MAP4K4_uc010yvy.1_Silent_p.P511P|MAP4K4_uc002tbh.2_Silent_p.P511P|MAP4K4_uc002tbi.2_Silent_p.P395P|MAP4K4_uc010yvz.1_Silent_p.P491P|MAP4K4_uc002tbk.2_Silent_p.P51P|MAP4K4_uc002tbj.1_Silent_p.P407P	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	542					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CGCCACCACCGCAGCAGGAAA	0.592													8	9					0	0	0.047766	0	0		A	102476248	A	A	102476248	2	1	185	1	0	0	0	0	0	0	0	1	9280	1074	38	1		1	MAP4K4	2	102476248	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	5686602	102476248	140723125	54	92262											
CCDC74B	91409	broad.mit.edu	37	chr2	130897829	130897829	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctaagtgtggtgggctttcGcaggggaaggggcaggatca	8	8	18	7	1	1	0	1	0	0	0	2	2	1	2	1	7	0	3	1	7	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:130897829G>A	uc002tqm.1	-	5	861	c.799C>T	c.(799-801)CGA>TGA	p.R267*	CCDC74B_uc010yzw.1_Nonsense_Mutation_p.R369*|CCDC74B_uc002tqn.1_Nonsense_Mutation_p.R201*	NM_207310	NP_997193	Q96LY2	CC74B_HUMAN	coiled-coil domain containing 74B	267											0	Colorectal(110;0.1)					GTGGGCTTTCGCAGGGGAAGG	0.647													63	97					0	0	0.139131	0	0		A	130897829	A	A	130897829	4	1	185	1	0	0	0	0	0	1	0	0	2851	1095	38	1	359	1	CCDC74B	2	130897829	Nonsense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	28421581	130897829	112301544	55	92263											
LCT	3938	broad.mit.edu	37	chr2	136566925	136566925	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcagcctgttgtaataatCaaccccatgactgttgatag	12	12	8	9	0	2	2	2	2	0	0	2	3	2	2	3	0	2	3	3	0	4	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:136566925C>A	uc002tuu.1	-	8	3003	c.2992G>T	c.(2992-2994)GAT>TAT	p.D998Y		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	998	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TTGTAATAATCAACCCCATGA	0.507													19	33					1.96292e-10	2.14591e-10	0.055883	1	0		A	136566925	A	A	136566925	3	1	185	1	0	0	0	0	1	0	0	0	8709	826	29	5	2831	5	LCT	2	136566925	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	5669096	136566925	106632448	56	92264											
KCNJ3	3760	broad.mit.edu	37	chr2	155566194	155566194	+	Missense_Mutation	SNP	A	C	C	1	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	ttttagtacaggggcagatcAactttttcttgtgtcccccc	7	15	8	11	0	2	1	1	0	1	1	3	1	3	1	3	2	2	2	3	2	3	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:155566194A>C	uc002tyv.1	+	2	977	c.782A>C	c.(781-783)CAA>CCA	p.Q261P	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	261	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	GGGGCAGATCAACTTTTTCTT	0.483													42	58					0	0	0.124865	0	0		C	155566194	C	C	155566194	3	2	185	1	0	0	0	0	1	0	0	0	8068	130	5	5	788	5	KCNJ3	2	155566194	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	18999269	155566194	87633179	57	92265											
SCN3A	6328	broad.mit.edu	37	chr2	166026964	166026964	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaccaaaatcttgatagcaAttttcctaacagggtttagt	13	14	7	7	0	1	1	0	1	1	0	2	1	2	1	2	1	3	3	2	1	7	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:166026964A>C	uc002ucx.2	-	4	851	c.359T>G	c.(358-360)ATT>AGT	p.I120S	SCN3A_uc002ucy.2_Missense_Mutation_p.I120S|SCN3A_uc002ucz.2_Missense_Mutation_p.I120S|SCN3A_uc002uda.1_5'Flank|SCN3A_uc002udb.1_5'Flank	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	120						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	CTTGATAGCAATTTTCCTAAC	0.303													18	36					0	0	0.038395	0	0		C	166026964	C	C	166026964	3	2	185	1	0	0	0	0	1	0	0	0	13943	101	4	5	5839	5	SCN3A	2	166026964	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	10460770	166026964	77172409	58	92266											
G6PC2	57818	broad.mit.edu	37	chr2	169763222	169763222	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttttggttgattcaaatcagTgtctgcatctccagagtatt	9	17	8	7	0	4	2	2	1	2	1	5	2	4	2	1	1	1	3	1	1	2	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:169763222T>A	uc002uem.2	+	4	581	c.489T>A	c.(487-489)AGT>AGA	p.S163R	G6PC2_uc002uen.2_Intron|G6PC2_uc010fpv.2_Missense_Mutation_p.S47R	NM_021176	NP_066999	Q9NQR9	G6PC2_HUMAN	islet-specific glucose-6-phosphatase-related	163	Helical; (Potential).				gluconeogenesis|glucose homeostasis|glucose transport|regulation of insulin secretion|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			pancreas(1)	1						TTCAAATCAGTGTCTGCATCT	0.373													52	105					0	0	0.139131	0	0		A	169763222	A	A	169763222	3	1	185	1	0	0	0	0	1	0	0	0	6158	1693	59	5	503	5	G6PC2	2	169763222	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	3736258	169763222	73436151	59	92267											
HOXD3	3232	broad.mit.edu	37	chr2	177036786	177036786	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccggtgtacgtgggcggcaaCttcgtcgagtccatggcgcc	5	8	15	13	6	0	0	0	0	0	0	3	1	1	0	3	4	2	2	3	4	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:177036786C>T	uc002ukt.1	+	3	1259	c.1083C>T	c.(1081-1083)AAC>AAT	p.N361N		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	361					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		TGGGCGGCAACTTCGTCGAGT	0.701													9	19					0	0	0.047766	0	0		T	177036786	T	T	177036786	2	4	185	1	0	0	0	0	0	0	0	1	7339	564	20	4		4	HOXD3	2	177036786	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	7273564	177036786	66162587	60	92268											
TTN	7273	broad.mit.edu	37	chr2	179470142	179470142	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatattcagattccgcaccTtcatcatcttgtatgactac	10	16	4	11	1	4	2	3	1	1	1	5	2	5	2	2	0	1	2	2	0	4	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:179470142T>A	uc010zfg.1	-	228	46400	c.46176A>T	c.(46174-46176)GAA>GAT	p.E15392D	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E9087D|TTN_uc010zfi.1_Missense_Mutation_p.E9020D|TTN_uc010zfj.1_Missense_Mutation_p.E8895D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16319							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATTCCGCACCTTCATCATCTT	0.333													18	27					0	0	0.038395	0	0		A	179470142	A	A	179470142	3	1	185	1	0	0	0	0	1	0	0	0	16761	1623	56	5	54149	5	TTN	2	179470142	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	2433356	179470142	63729231	61	92269											
TTN	7273	broad.mit.edu	37	chr2	179631273	179631273	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttcaatgccatctttatAccagtgggcatcaacatcgt	11	13	7	10	1	3	0	2	0	1	0	4	1	3	0	2	1	3	1	2	1	4	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:179631273A>G	uc010zfg.1	-	41	9762	c.9538T>C	c.(9538-9540)TAT>CAT	p.Y3180H	TTN_uc010zfh.1_Missense_Mutation_p.Y3134H|TTN_uc010zfi.1_Missense_Mutation_p.Y3134H|TTN_uc010zfj.1_Missense_Mutation_p.Y3134H|TTN_uc002umz.1_5'Flank|TTN_uc002unb.2_Missense_Mutation_p.Y3180H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3180							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCATCTTTATACCAGTGGGCA	0.383													5	71					0	0	0.014758	0	0		G	179631273	G	G	179631273	3	3	185	1	0	0	0	0	1	0	0	0	16761	391	14	3	101738	3	TTN	2	179631273	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	161131	179631273	63568100	62	92270											
TTN	7273	broad.mit.edu	37	chr2	179635333	179635333	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgacattagggtgtgtaagcTcgacagtgaaaacagcatcc	13	9	11	8	1	0	2	0	2	0	0	2	3	1	2	1	1	3	3	1	1	4	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:179635333T>G	uc010zfg.1	-	35	8410	c.8186A>C	c.(8185-8187)GAG>GCG	p.E2729A	TTN_uc010zfh.1_Missense_Mutation_p.E2683A|TTN_uc010zfi.1_Missense_Mutation_p.E2683A|TTN_uc010zfj.1_Missense_Mutation_p.E2683A|TTN_uc002unb.2_Missense_Mutation_p.E2729A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2729							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGTGTAAGCTCGACAGTGAA	0.383													36	62					0	0	0.074837	0	0		G	179635333	G	G	179635333	3	3	185	1	0	0	0	0	1	0	0	0	16761	1551	54	5	103114	5	TTN	2	179635333	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	4060	179635333	63564040	63	92271											
LANCL1	10314	broad.mit.edu	37	chr2	211319933	211319933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaaaggaaggtgatggagCgcttggttaagcagttcaga	13	8	14	6	1	1	2	1	1	0	1	1	4	1	4	0	4	2	4	0	4	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:211319933C>T	uc010zjh.1	-	4	380	c.305G>A	c.(304-306)CGC>CAC	p.R102H	LANCL1_uc002ved.2_Missense_Mutation_p.R102H|LANCL1_uc010fuq.2_Missense_Mutation_p.R102H	NM_001136574	NP_001130046	O43813	LANC1_HUMAN	lanthionine synthetase C-like protein 1	102						cytoplasm|integral to plasma membrane|microtubule cytoskeleton|nucleus	catalytic activity|G-protein coupled receptor activity|glutathione binding|low-density lipoprotein particle receptor binding|SH3 domain binding|zinc ion binding				0				Epithelial(149;0.00562)|Lung(261;0.0468)|LUSC - Lung squamous cell carcinoma(261;0.0495)|all cancers(144;0.0569)		GGTGATGGAGCGCTTGGTTAA	0.483													30	68					0	0	0.144211	0	0		T	211319933	T	T	211319933	3	4	185	1	0	0	0	0	1	0	0	0	8636	768	27	1	922	1	LANCL1	2	211319933	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	31684600	211319933	31879440	64	92272											
SPEG	10290	broad.mit.edu	37	chr2	220353257	220353257	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagccctcagtgatcatCgtgtcctgcaaagatgggcg	9	9	12	11	2	3	3	3	1	0	2	5	3	4	3	2	1	2	1	2	1	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:220353257C>A	uc010fwg.2	+	33	7896	c.7896C>A	c.(7894-7896)ATC>ATA	p.I2632I		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2632	Ig-like 9.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		CAGTGATCATCGTGTCCTGCA	0.632													44	72					2.0833e-19	2.41388e-19	0.139131	1	0		A	220353257	A	A	220353257	2	1	185	1	0	0	0	0	0	0	0	1	15061	874	31	5		5	SPEG	2	220353257	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	9033324	220353257	22846116	65	92273											
GIGYF2	26058	broad.mit.edu	37	chr2	233599885	233599885	+	Translation_Start_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtttcttcacatataaaaatCtattgtaaaaatacggaaaa	19	13	4	5	1	3	0	1	0	2	0	3	1	3	1	0	1	1	2	0	1	11	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:233599885C>G	uc002vti.3	+	5	315	c.-22C>G	c.(-24--20)ATCTA>ATGTA		GIGYF2_uc002vte.2_RNA|GIGYF2_uc002vtf.2_RNA|GIGYF2_uc010zmj.1_Translation_Start_Site|GIGYF2_uc002vtg.2_Translation_Start_Site|GIGYF2_uc002vtj.3_Translation_Start_Site|GIGYF2_uc002vtk.3_Translation_Start_Site|GIGYF2_uc002vth.3_Translation_Start_Site|GIGYF2_uc002vtl.2_RNA|GIGYF2_uc010zmk.1_RNA	NM_015575	NP_056390	Q6Y7W6	PERQ2_HUMAN	GRB10 interacting GYF protein 2 isoform b						cell death		protein binding			ovary(4)|central_nervous_system(3)	7		Breast(86;0.00279)|all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;7.37e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000472)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Lung(119;0.0118)|GBM - Glioblastoma multiforme(43;0.0145)		ATATAAAAATCTATTGTAAAA	0.353													16	12					0	0	0.146539	0	0		G	233599885	G	G	233599885	1	3	185	1	0	0	0	0	0	0	0	0	6393	928	32	5		5	GIGYF2	2	233599885	Translation_Start_Site	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	13246628	233599885	9599488	66	92274											
UGT1A4	54657	broad.mit.edu	37	chr2	234627873	234627873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagctactgcataatgaggCcctgatcaggcacctgaatg	11	8	12	10	0	1	3	1	3	0	0	1	4	1	4	2	3	3	3	2	3	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:234627873C>T	uc002vux.2	+	1	436	c.407C>T	c.(406-408)GCC>GTC	p.A136V	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Missense_Mutation_p.A136V	NM_007120	NP_009051	P22310	UD14_HUMAN	UDP glycosyltransferase 1 family, polypeptide A4	136					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;3.49e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000504)|Lung(119;0.0026)|LUSC - Lung squamous cell carcinoma(224;0.00624)	Imipramine(DB00458)|Lamotrigine(DB00555)|Paricalcitol(DB00910)|Trifluoperazine(DB00831)	CATAATGAGGCCCTGATCAGG	0.458													75	129					0	0	0.139131	0	0		T	234627873	T	T	234627873	3	4	185	1	0	0	0	0	1	0	0	0	16973	739	26	2	409	2	UGT1A4	2	234627873	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1027988	234627873	8571500	67	92275											
IQCA1	79781	broad.mit.edu	37	chr2	237247012	237247012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggaaggtgttttttcaggCgtttaggttcattctgggag	6	15	16	4	1	3	0	2	0	1	0	3	2	3	2	0	6	0	3	0	6	2	7			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:237247012C>T	uc002vvz.1	-	17	2152	c.1970G>A	c.(1969-1971)CGC>CAC	p.R657H	IQCA1_uc002vwb.2_Missense_Mutation_p.R665H|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Missense_Mutation_p.R616H	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	657							ATP binding			ovary(1)	1						TTTTTTCAGGCGTTTAGGTTC	0.408													28	42					0	0	0.045705	0	0		T	237247012	T	T	237247012	3	4	185	1	0	0	0	0	1	0	0	0	7818	768	27	1	510	1	IQCA1	2	237247012	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2619139	237247012	5952361	68	92276											
ASB1	51665	broad.mit.edu	37	chr2	239344628	239344628	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacgcctctcgcgtgggccgGgcagacatcctgaaggccct	6	6	13	16	4	1	2	0	1	1	1	3	2	2	2	4	3	0	1	4	3	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:239344628G>T	uc002vyg.2	+	3	554	c.468G>T	c.(466-468)CGG>CGT	p.R156R		NM_001040445	NP_001035535	Q9Y576	ASB1_HUMAN	ankyrin repeat and SOCS box-containing protein	156	ANK 4.				intracellular signal transduction|negative regulation of cytokine biosynthetic process						0		all_epithelial(40;2.65e-14)|Breast(86;7.61e-05)|Renal(207;0.00183)|all_lung(227;0.0283)|Ovarian(221;0.0365)|Lung NSC(271;0.0941)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;2.04e-26)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;2.88e-05)|Lung(119;0.000383)|LUSC - Lung squamous cell carcinoma(224;0.00644)		GCGTGGGCCGGGCAGACATCC	0.542													22	16					1.36565e-18	1.57763e-18	0.076483	1	0		T	239344628	T	T	239344628	2	4	185	1	0	0	0	0	0	0	0	1	1014	1219	43	5		5	ASB1	2	239344628	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	2097616	239344628	3854745	69	92277											
HDLBP	3069	broad.mit.edu	37	chr2	242186471	242186472	+	Frame_Shift_Ins	INS	-	T	T																															gcagcggacaagttatcaccINStttttaatgtttgcgcctcc																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr2:242186471_242186472insT	uc002waz.2	-	15	2045_2046	c.1817_1818insA	c.(1816-1818)AAGfs	p.K606fs	HDLBP_uc002wba.2_Frame_Shift_Ins_p.K606fs|HDLBP_uc002wbb.2_Frame_Shift_Ins_p.K558fs	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	606	KH 7.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		AAGTTATCACCTTTTTAATGTT	0.401													18	38	---	---	---	---						.	T	242186472	T	T	242186471	7	5	185	1	0	1	1	0	0	0	0	0	7041	695	24	0	2044	0	HDLBP	2	242186471	Frame_Shift_Ins	INS	-	TCGA-D7-A4YT-01A-11D-A25D-08	2841843	242186471	1012902	70	92278											
LMCD1	29995	broad.mit.edu	37	chr3	8590314	8590314	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagtgacaggcacagagggtGccttttaccgccgccgccag	8	6	13	14	3	0	2	0	1	0	1	0	2	0	2	5	2	2	1	5	2	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:8590314G>A	uc003bqq.2	+	4	562	c.448G>A	c.(448-450)GCC>ACC	p.A150T	LMCD1_uc011atd.1_Missense_Mutation_p.A77T|LMCD1_uc011ate.1_Missense_Mutation_p.A38T|LMCD1_uc011atf.1_Missense_Mutation_p.A77T	NM_014583	NP_055398	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	150	PET.				positive regulation of calcineurin-NFAT signaling pathway|regulation of cardiac muscle hypertrophy|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	transcription corepressor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(96;0.124)		CACAGAGGGTGCCTTTTACCG	0.567													27	73					0	0	0.116897	0	0		A	8590314	A	A	8590314	3	1	185	1	0	0	0	0	1	0	0	0	8861	1319	46	2	462	2	LMCD1	3	8590314	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		8590314	189432116	71	92279											
TTLL3	26140	broad.mit.edu	37	chr3	9859368	9859368	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccggaatttgccgtggtttGatgaggttgatgccaactcc	7	13	12	9	2	0	3	0	3	0	0	2	4	2	4	4	3	3	2	4	3	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:9859368G>C	uc003btg.2	+	5	571	c.355G>C	c.(355-357)GAT>CAT	p.D119H	ARPC4_uc003btc.1_Intron|TTLL3_uc003btd.3_Missense_Mutation_p.D119H|TTLL3_uc003btf.3_5'UTR|TTLL3_uc010hco.1_Missense_Mutation_p.D55H|TTLL3_uc003bth.3_5'UTR|TTLL3_uc011atj.1_Missense_Mutation_p.D55H|TTLL3_uc003btj.3_5'UTR|TTLL3_uc003bti.3_5'UTR	NM_001025930	NP_001021100	Q9Y4R7	TTLL3_HUMAN	tubulin tyrosine ligase-like family, member 3	119					axoneme assembly|cilium assembly|protein polyglycylation	cilium axoneme|cytoplasm|microtubule	protein-glycine ligase activity, initiating|tubulin-tyrosine ligase activity			large_intestine(2)	2	Medulloblastoma(99;0.227)					GCCGTGGTTTGATGAGGTTGA	0.562													62	106					0	0	0.139131	0	0		C	9859368	C	C	9859368	3	2	185	1	0	0	0	0	1	0	0	0	16754	1290	45	5	369	5	TTLL3	3	9859368	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1269054	9859368	188163062	72	92280											
IL17RE	132014	broad.mit.edu	37	chr3	9948410	9948410	+	Silent	SNP	T	A	A	0	1	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	aggaagctgctgcctcgtcgTcacctgtctgagaagagcca	9	8	12	12	2	2	2	1	1	1	2	4	4	2	3	3	1	4	2	3	1	2	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:9948410T>A	uc003btu.2	+	6	504	c.387T>A	c.(385-387)CGT>CGA	p.R129R	CIDEC_uc003bto.2_Intron|IL17RE_uc003btv.2_Silent_p.R129R|IL17RE_uc011atn.1_RNA|IL17RE_uc003btw.2_Silent_p.R129R|IL17RE_uc003btx.2_Silent_p.R13R|IL17RE_uc010hcq.2_Silent_p.R129R|IL17RE_uc003bty.2_RNA	NM_153483	NP_705616	Q8NFR9	I17RE_HUMAN	interleukin 17 receptor E isoform 1	129	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane	receptor activity			central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(96;5.34e-64)		TGCCTCGTCGTCACCTGTCTG	0.418													55	84					0	0	0.139131	0	0		A	9948410	A	A	9948410	2	1	185	1	0	0	0	0	0	0	0	1	7659	1654	58	5		5	IL17RE	3	9948410	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	89042	9948410	188074020	73	92281											
GRIP2	80852	broad.mit.edu	37	chr3	14545116	14545116	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gactgaccacatgactccagGtcttcgagagcttctccaaa	11	9	8	13	1	2	3	0	2	2	1	5	5	3	3	3	1	1	1	3	1	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:14545116G>A	uc011avi.1	-	22	2931	c.2931C>T	c.(2929-2931)GAC>GAT	p.D977D	GRIP2_uc010heh.2_RNA|GRIP2_uc011avh.1_Silent_p.D508D	NM_001080423	NP_001073892	Q9C0E4	GRIP2_HUMAN	glutamate receptor interacting protein 2	879					synaptic transmission	cytosol|plasma membrane	protein binding			pancreas(1)	1						ATGACTCCAGGTCTTCGAGAG	0.622													7	12					0	0	0.02938	0	0		A	14545116	A	A	14545116	2	1	185	1	0	0	0	0	0	0	0	1	6804	1252	44	4		4	GRIP2	3	14545116	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	4596706	14545116	183477314	74	92282											
TGFBR2	7048	broad.mit.edu	37	chr3	30713543	30713543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agtatgcctcttggaagacaGagaaggacatcttctcagac	13	9	10	9	0	3	3	1	0	3	3	4	6	3	5	1	2	1	1	1	2	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:30713543G>A	uc003ceo.2	+	4	1250	c.868G>A	c.(868-870)GAG>AAG	p.E290K	TGFBR2_uc003cen.2_Missense_Mutation_p.E315K	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	290	Protein kinase.|Cytoplasmic (Potential).				activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding			pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						TTGGAAGACAGAGAAGGACAT	0.483													43	27					0	0	0.131918	0	0		A	30713543	A	A	30713543	3	1	185	1	0	0	0	0	1	0	0	0	15847	943	33	4	961	4	TGFBR2	3	30713543	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	16168427	30713543	167308887	75	92283											
RBM5	10181	broad.mit.edu	37	chr3	50148182	50148182	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tatgatccgacaacagggctCtattatgaccccaactcgca	12	9	7	13	2	1	2	0	2	1	0	3	3	2	2	3	1	2	2	3	1	5	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:50148182C>G	uc003cyg.2	+	17	1582	c.1434C>G	c.(1432-1434)CTC>CTG	p.L478L	RBM5_uc011bdj.1_Silent_p.L422L|RBM5_uc011bdk.1_Silent_p.L306L|RBM5_uc003cyh.2_5'Flank	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	478	Required for interaction with U2AF2.|Sufficient for interaction with ACIN1, PRPF8, SFRS3, SNRPB, SNRPN, SNRNP70 and SNRNP200.				apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAACAGGGCTCTATTATGACC	0.393													4	44					0	0	0.014758	0	0		G	50148182	G	G	50148182	2	3	185	1	0	0	0	0	0	0	0	1	13168	900	32	5		5	RBM5	3	50148182	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	19434639	50148182	147874248	76	92284											
ATXN7	6314	broad.mit.edu	37	chr3	63968005	63968005	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctcaataccaaagccaaCcttgccttcacctggacaga	12	7	5	17	0	2	1	2	0	0	1	2	2	2	2	7	1	4	0	7	1	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:63968005C>A	uc003dlw.3	+	7	1449	c.896C>A	c.(895-897)ACC>AAC	p.T299N	ATXN7_uc003dlv.2_Missense_Mutation_p.T299N|ATXN7_uc010hnv.2_Missense_Mutation_p.T299N|ATXN7_uc011bfn.1_Missense_Mutation_p.T154N	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	299					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		CCAAAGCCAACCTTGCCTTCA	0.488													23	36					6.36457e-07	6.82296e-07	0.0918	1	0		A	63968005	A	A	63968005	3	1	185	1	0	0	0	0	1	0	0	0	1216	507	18	5	982	5	ATXN7	3	63968005	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	13819823	63968005	134054425	77	92285											
GPR128	84873	broad.mit.edu	37	chr3	100362456	100362456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgcacagactgagcttcagGtcttgcttaatatgacgaaa	13	11	9	8	1	2	3	1	2	1	1	2	4	2	3	0	1	3	3	0	1	3	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:100362456G>A	uc003duc.2	+	8	1193	c.925G>A	c.(925-927)GTC>ATC	p.V309I	GPR128_uc011bhc.1_Intron	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	309	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TGAGCTTCAGGTCTTGCTTAA	0.363													26	40					0	0	0.045705	0	0		A	100362456	A	A	100362456	3	1	185	1	0	0	0	0	1	0	0	0	6656	1261	44	4	955	4	GPR128	3	100362456	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	36394451	100362456	97659974	78	92286											
ARHGAP31	57514	broad.mit.edu	37	chr3	119133205	119133205	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cccggaaagagaagactcatCcaggaaattgaggacagatc	16	5	11	9	1	1	4	1	1	0	3	3	8	2	7	2	3	0	0	2	3	3	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:119133205C>G	uc003ecj.3	+	12	2961	c.2429C>G	c.(2428-2430)TCC>TGC	p.S810C		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	810					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						GAAGACTCATCCAGGAAATTG	0.562													21	44					0	0	0.069288	0	0		G	119133205	G	G	119133205	3	3	185	1	0	0	0	0	1	0	0	0	880	855	30	5	2475	5	ARHGAP31	3	119133205	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	18770749	119133205	78889225	79	92287											
COL6A6	131873	broad.mit.edu	37	chr3	130279257	130279257	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	taatttgttcccatatttctGtgaaccaagattccggtaag	11	15	7	8	1	1	2	0	1	1	1	3	2	3	2	3	1	1	2	3	1	5	7			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:130279257G>C	uc010htl.2	+	1	80	c.49G>C	c.(49-51)GTG>CTG	p.V17L		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	17					axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCATATTTCTGTGAACCAAGA	0.279													16	33					0	0	0.038395	0	0		C	130279257	C	C	130279257	3	2	185	1	0	0	0	0	1	0	0	0	3706	1377	48	5	51	5	COL6A6	3	130279257	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	11146052	130279257	67743173	80	92288											
CEP70	80321	broad.mit.edu	37	chr3	138248274	138248274	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctgtagtcgttttcttcTtctgactgactttcatcttc	4	22	5	10	1	6	2	1	2	5	0	8	2	6	2	0	0	0	2	0	0	1	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:138248274T>G	uc003esl.2	-	9	921	c.723A>C	c.(721-723)GAA>GAC	p.E241D	CEP70_uc011bmk.1_Missense_Mutation_p.E221D|CEP70_uc011bml.1_Missense_Mutation_p.E223D|CEP70_uc011bmm.1_Missense_Mutation_p.E89D|CEP70_uc003esm.2_Missense_Mutation_p.E241D	NM_024491	NP_077817	Q8NHQ1	CEP70_HUMAN	centrosomal protein 70 kDa	241					G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding			skin(1)	1						CGTTTTCTTCTTCTGACTGAC	0.294													39	56					0	0	0.09836	0	0		G	138248274	G	G	138248274	3	3	185	1	0	0	0	0	1	0	0	0	3262	1606	56	5	1110	5	CEP70	3	138248274	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	7969017	138248274	59774156	81	92289											
FOXL2	668	broad.mit.edu	37	chr3	138665218	138665218	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcgccgccgccctcgcgcGgcaccttgatgaagcactcg	5	6	12	18	7	0	2	0	2	0	0	3	2	0	2	4	1	1	3	4	1	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:138665218G>T	uc003esw.2	-	1	765	c.347C>A	c.(346-348)CCG>CAG	p.P116Q	uc003esv.1_5'Flank|C3orf72_uc003esx.1_5'Flank|C3orf72_uc011bmr.1_5'Flank	NM_023067	NP_075555	P58012	FOXL2_HUMAN	forkhead box L2	116	Fork-head.				convergent extension|DNA fragmentation involved in apoptotic nuclear change|embryonic eye morphogenesis|extraocular skeletal muscle development|female somatic sex determination|induction of apoptosis|menstruation|negative regulation of transcription, DNA-dependent|ovarian follicle development|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin conjugating enzyme binding			ovary(266)|large_intestine(1)|skin(1)	268						GCCCTCGCGCGGCACCTTGAT	0.607			Mis		granulosa-cell tumour of the ovary		Blepharophimosis|ptosis and epicanthus inversus Types I|II; Premature ovarian failure type III						26	36					7.33532e-06	7.67235e-06	0.0918	1	0		T	138665218	T	T	138665218	3	4	185	1	0	0	0	0	1	0	0	0	6031	1116	39	5	787	5	FOXL2	3	138665218	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	416944	138665218	59357212	82	92290											
ATR	545	broad.mit.edu	37	chr3	142188342	142188342	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatatggagctaaatagtttGtatgctctgtgataaccttg	11	15	10	5	0	1	1	0	1	1	0	1	3	1	2	1	1	3	4	1	1	6	7			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:142188342G>C	uc003eux.3	-	38	6511	c.6389C>G	c.(6388-6390)ACA>AGA	p.T2130R	ATR_uc003euy.1_Missense_Mutation_p.T16R	NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	2130	FAT.				cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TAAATAGTTTGTATGCTCTGT	0.348								Other_conserved_DNA_damage_response_genes					34	51					0	0	0.074837	0	0		C	142188342	C	C	142188342	3	2	185	1	0	0	0	0	1	0	0	0	1205	1377	48	5	1585	5	ATR	3	142188342	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3523124	142188342	55834088	83	92291											
AADACL2	344752	broad.mit.edu	37	chr3	151463297	151463297	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttattattctttctttaaagCtataggctggctcctcaaca	10	17	5	9	0	3	0	1	0	2	0	4	0	4	0	1	2	2	3	1	2	7	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:151463297C>A	uc003ezc.2	+	4	552	c.432C>A	c.(430-432)GAC>GAA	p.D144E	AADACL2_uc010hvn.2_5'UTR	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2 precursor	144						extracellular region|integral to membrane	carboxylesterase activity				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TTCTTTAAAGCTATAGGCTGG	0.343													63	153					4.01556e-35	4.85632e-35	0.139131	1	0		A	151463297	A	A	151463297	3	1	185	1	0	0	0	0	1	0	0	0	11	811	28	5	446	5	AADACL2	3	151463297	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	9274955	151463297	46559133	84	92292											
USP13	8975	broad.mit.edu	37	chr3	179459996	179459996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccttcagaggaaccgcatCggctcagaaaacccaagcga	14	5	9	13	3	2	2	2	0	0	2	4	4	3	3	3	2	3	2	3	2	4	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:179459996C>T	uc003fkh.2	+	12	1473	c.1392C>T	c.(1390-1392)ATC>ATT	p.I464I	USP13_uc003fkf.2_Silent_p.I464I	NM_003940	NP_003931	Q92995	UBP13_HUMAN	ubiquitin thiolesterase 13	464					ubiquitin-dependent protein catabolic process		cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(1)	1	all_cancers(143;7.79e-15)|Ovarian(172;0.0338)|Breast(254;0.148)		OV - Ovarian serous cystadenocarcinoma(80;1e-25)|GBM - Glioblastoma multiforme(14;0.0169)			GGAACCGCATCGGCTCAGAAA	0.448													16	30					0	0	0.049695	0	0		T	179459996	T	T	179459996	2	4	185	1	0	0	0	0	0	0	0	1	17070	874	31	1		1	USP13	3	179459996	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	27996699	179459996	18562434	85	92293											
VPS8	23355	broad.mit.edu	37	chr3	184573502	184573502	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccatctccctacttagatgGatccttccagtgtgccactg	7	13	7	14	0	1	1	0	0	1	1	5	2	4	2	5	1	2	0	5	1	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:184573502G>T	uc003fpb.1	+	13	1204	c.1033G>T	c.(1033-1035)GAT>TAT	p.D345Y	VPS8_uc010hyd.1_Missense_Mutation_p.D345Y	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	347							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TACTTAGATGGATCCTTCCAG	0.348													61	68					1.64573e-32	1.98411e-32	0.139131	1	0		T	184573502	T	T	184573502	3	4	185	1	0	0	0	0	1	0	0	0	17244	1174	41	5	1085	5	VPS8	3	184573502	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	5113506	184573502	13448928	86	92294											
ATP13A5	344905	broad.mit.edu	37	chr3	193031864	193031864	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggttctccaccagctgccaGgtcacagaggcaggaacaaa	12	6	11	12	0	2	1	1	0	1	1	3	2	2	2	3	4	3	3	3	4	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:193031864G>A	uc011bsq.1	-	19	2277	c.2277C>T	c.(2275-2277)ACC>ACT	p.T759T		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	759					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CCAGCTGCCAGGTCACAGAGG	0.507													54	75					0	0	0.139131	0	0		A	193031864	A	A	193031864	2	1	185	1	0	0	0	0	0	0	0	1	1128	987	35	4		4	ATP13A5	3	193031864	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	8458362	193031864	4990566	87	92295											
TNK2	10188	broad.mit.edu	37	chr3	195594114	195594114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcactcctctgtggtcaCcccatgcaccatggcctgca	6	9	9	17	0	2	0	1	0	1	0	3	0	3	0	5	3	2	3	5	3	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr3:195594114C>T	uc003fvu.1	-	13	3451	c.2908G>A	c.(2908-2910)GTG>ATG	p.V970M	TNK2_uc003fvq.1_Missense_Mutation_p.V379M|TNK2_uc003fvr.1_Missense_Mutation_p.V497M|TNK2_uc003fvs.1_Intron|TNK2_uc003fvt.1_Intron	NM_005781	NP_005772	Q07912	ACK1_HUMAN	tyrosine kinase, non-receptor, 2 isoform 1	970	UBA.			Missing (in Ref. 4; AAH08884).	positive regulation of peptidyl-tyrosine phosphorylation|protein ubiquitination|small GTPase mediated signal transduction	adherens junction|cytoplasmic vesicle membrane|endosome|nucleus	ATP binding|GTPase inhibitor activity|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|central_nervous_system(3)|lung(2)|stomach(1)|skin(1)	10	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)	TCTGTGGTCACCCCATGCACC	0.687													7	50					0	0	0.02938	0	0		T	195594114	T	T	195594114	3	4	185	1	0	0	0	0	1	0	0	0	16343	507	18	4	220	4	TNK2	3	195594114	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2562250	195594114	2428316	88	92296											
BOD1L	259282	broad.mit.edu	37	chr4	13606144	13606144	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgataatttcctttcattccTatgtttactttttcgttcgg	6	22	5	8	2	1	1	1	1	0	0	5	1	3	1	2	1	1	2	2	1	3	10			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:13606144T>A	uc003gmz.1	-	10	2497	c.2380A>T	c.(2380-2382)AGG>TGG	p.R794W	BOD1L_uc010idr.1_Missense_Mutation_p.R131W	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	794	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						CTTTCATTCCTATGTTTACTT	0.299													9	18					0	0	0.058154	0	0		A	13606144	A	A	13606144	3	1	185	1	0	0	0	0	1	0	0	0	1484	1521	53	5	6843	5	BOD1L	4	13606144	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08		13606144	177548132	89	92297											
GABRB1	2560	broad.mit.edu	37	chr4	47427764	47427764	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	gagtggctcggaagtgctcaCgagcgtgagcgaccccaagg	9	5	16	11	4	1	1	1	1	0	0	2	5	1	2	2	3	3	2	2	3	2	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:47427764C>G	uc003gxh.2	+	9	1528	c.1154C>G	c.(1153-1155)ACG>AGG	p.T385R	GABRB1_uc011bze.1_Missense_Mutation_p.T315R	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	385	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GAAGTGCTCACGAGCGTGAGC	0.622													30	68					0	0	0.144211	0	0		G	47427764	G	G	47427764	3	3	185	1	0	0	0	0	1	0	0	0	6180	536	19	5	1188	5	GABRB1	4	47427764	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	33821620	47427764	143726512	90	92298											
UGT2B4	7363	broad.mit.edu	37	chr4	70346533	70346533	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtgcttggctcctttatggCgcatgacaaattcaatccag	9	12	10	10	1	1	1	1	1	0	0	3	1	3	1	2	3	1	3	2	3	3	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:70346533C>T	uc003hek.3	-	6	1453	c.1406G>A	c.(1405-1407)CGC>CAC	p.R469H	UGT2B4_uc011cap.1_Missense_Mutation_p.R333H|UGT2B4_uc003hel.3_3'UTR	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	469					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TCCTTTATGGCGCATGACAAA	0.473													59	119					0	0	0.139131	0	0		T	70346533	T	T	70346533	3	4	185	1	0	0	0	0	1	0	0	0	16987	768	27	1	184	1	UGT2B4	4	70346533	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	22918769	70346533	120807743	91	92299											
SULT1B1	27284	broad.mit.edu	37	chr4	70596360	70596360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcatcattcaggttcttctCtagaaatctaatgatcttct	10	17	4	10	0	8	2	3	1	5	1	9	2	8	2	0	1	0	1	0	1	3	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:70596360C>T	uc003hen.2	-	7	935	c.637G>A	c.(637-639)GAG>AAG	p.E213K		NM_014465	NP_055280	O43704	ST1B1_HUMAN	sulfotransferase family, cytosolic, 1B, member	213	PAPS (By similarity).				3'-phosphoadenosine 5'-phosphosulfate metabolic process|cellular biogenic amine metabolic process|flavonoid metabolic process|steroid metabolic process|sulfation|thyroid hormone metabolic process|xenobiotic metabolic process	cytosol					0						AGGTTCTTCTCTAGAAATCTA	0.343													18	23					0	0	0.043863	0	0		T	70596360	T	T	70596360	3	4	185	1	0	0	0	0	1	0	0	0	15401	922	32	4	261	4	SULT1B1	4	70596360	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	249827	70596360	120557916	92	92300											
ARHGAP24	83478	broad.mit.edu	37	chr4	86491782	86491782	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggtggctgaggaagcaaGgaggctttgtcaagacttgg	9	9	18	5	0	1	2	1	1	0	1	1	4	1	4	0	6	1	3	0	6	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:86491782G>T	uc003hpk.2	+	2	537	c.88G>T	c.(88-90)GGA>TGA	p.G30*	ARHGAP24_uc003hpi.1_Nonsense_Mutation_p.G30*|ARHGAP24_uc003hpj.2_Nonsense_Mutation_p.G30*	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1	30	PH.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		GAGGAAGCAAGGAGGCTTTGT	0.502													11	65					0.00010058	0.000103522	0.09319	1	0		T	86491782	T	T	86491782	4	4	185	1	0	0	0	0	0	1	0	0	873	1001	35	5	90	5	ARHGAP24	4	86491782	Nonsense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	15895422	86491782	104662494	93	92301											
HERC5	51191	broad.mit.edu	37	chr4	89385112	89385112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctgagcttgttgggtataGagtgactcagatagcatgtg	9	12	15	5	0	1	4	1	2	0	2	1	4	1	4	0	2	2	5	0	2	3	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:89385112G>A	uc003hrt.2	+	6	1040	c.887G>A	c.(886-888)AGA>AAA	p.R296K		NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	296	RCC1 4.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		GTTGGGTATAGAGTGACTCAG	0.373													38	56					0	0	0.092188	0	0		A	89385112	A	A	89385112	3	1	185	1	0	0	0	0	1	0	0	0	7077	942	33	4	909	4	HERC5	4	89385112	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	2893330	89385112	101769164	94	92302											
ADAD1	132612	broad.mit.edu	37	chr4	123336756	123336756	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gattgtggatggcctgagtgGgaagatcactgaaaggttaa	12	10	15	4	0	1	3	1	2	0	1	1	6	1	5	1	4	0	1	1	4	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:123336756G>T	uc003ieo.2	+	11	1704	c.1472G>T	c.(1471-1473)GGG>GTG	p.G491V	ADAD1_uc003iep.2_Missense_Mutation_p.G480V|ADAD1_uc003ieq.2_Missense_Mutation_p.G473V	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	491	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						GGCCTGAGTGGGAAGATCACT	0.348													38	74					9.9191e-30	1.18478e-29	0.104719	1	0		T	123336756	T	T	123336756	3	4	185	1	0	0	0	0	1	0	0	0	231	1232	43	5	1506	5	ADAD1	4	123336756	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	33951644	123336756	67817520	95	92303											
INTU	27152	broad.mit.edu	37	chr4	128632186	128632186	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taagtggctctatccaccctCagctaataaagaatttccat	13	12	5	11	0	2	1	1	0	1	1	4	1	4	1	3	1	1	2	3	1	6	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:128632186C>T	uc003ifk.1	+	14	2558	c.2488C>T	c.(2488-2490)CAG>TAG	p.Q830*	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	830										ovary(1)	1						TATCCACCCTCAGCTAATAAA	0.428													28	33					0	0	0.116897	0	0		T	128632186	T	T	128632186	4	4	185	1	0	0	0	0	0	1	0	0	7802	827	29	4	2542	4	INTU	4	128632186	Nonsense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	5295430	128632186	62522090	96	92304											
HSPA4L	22824	broad.mit.edu	37	chr4	128725170	128725170	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctattttctcacagggctCaatttgaacaactgtgtgct	9	16	7	9	0	3	1	2	1	2	0	4	1	3	1	0	1	3	2	0	1	4	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:128725170C>G	uc003ifm.2	+	8	1166	c.913C>G	c.(913-915)CAA>GAA	p.Q305E	HSPA4L_uc010iny.1_Missense_Mutation_p.Q264E|HSPA4L_uc011cgr.1_Missense_Mutation_p.Q272E	NM_014278	NP_055093	O95757	HS74L_HUMAN	heat shock 70kDa protein 4-like	305					protein folding|response to unfolded protein	cytoplasm|nucleus	ATP binding|protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4						TCACAGGGCTCAATTTGAACA	0.348													21	46					0	0	0.099896	0	0		G	128725170	G	G	128725170	3	3	185	1	0	0	0	0	1	0	0	0	7429	827	29	5	943	5	HSPA4L	4	128725170	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	92984	128725170	62429106	97	92305											
INPP4B	8821	broad.mit.edu	37	chr4	143191883	143191883	+	Missense_Mutation	SNP	A	G	G	1	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	caatctcccccatcttcacgAcactgacttctatggtgcca	9	11	5	16	1	4	1	1	1	3	0	5	2	4	1	3	1	1	0	3	1	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr4:143191883A>G	uc003iix.3	-	11	1143	c.548T>C	c.(547-549)GTC>GCC	p.V183A	INPP4B_uc003iiw.3_Missense_Mutation_p.V183A|INPP4B_uc011chm.1_RNA|INPP4B_uc011chn.1_5'UTR|INPP4B_uc011cho.1_RNA|INPP4B_uc011chp.1_Missense_Mutation_p.V54A	NM_003866	NP_003857	O15327	INP4B_HUMAN	inositol polyphosphate-4-phosphatase, type II,	183					signal transduction		phosphatidylinositol-3,4-bisphosphate 4-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity			ovary(1)|lung(1)	2	all_hematologic(180;0.158)					CATCTTCACGACACTGACTTC	0.453													41	32					0	0	0.139131	0	0		G	143191883	G	G	143191883	3	3	185	1	0	0	0	0	1	0	0	0	7769	275	10	3	2294	3	INPP4B	4	143191883	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	14466713	143191883	47962393	98	92306											
CDH18	1016	broad.mit.edu	37	chr5	19721493	19721493	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagaagtagggttgtccttgGagaatgctgtaaaccacccg	11	9	13	8	1	0	2	0	0	0	2	1	4	1	2	3	2	2	4	3	2	5	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:19721493G>A	uc003jgc.2	-	4	983	c.606C>T	c.(604-606)CTC>CTT	p.L202L	CDH18_uc003jgd.2_Silent_p.L202L|CDH18_uc011cnm.1_Silent_p.L202L	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	202	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GTTGTCCTTGGAGAATGCTGT	0.473													50	66					0	0	0.139131	0	0		A	19721493	A	A	19721493	2	1	185	1	0	0	0	0	0	0	0	1	3106	1161	41	4		4	CDH18	5	19721493	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		19721493	161193767	99	92307											
GOLPH3	64083	broad.mit.edu	37	chr5	32135789	32135789	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggagcatctgacttacagaTtacctaaaaagaaagcaaaa	19	8	7	7	0	1	3	0	1	1	2	1	4	1	4	1	1	4	2	1	1	8	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:32135789T>C	uc003jhp.1	-	3	646	c.361A>G	c.(361-363)ATC>GTC	p.I121V		NM_022130	NP_071413	Q9H4A6	GOLP3_HUMAN	golgi phosphoprotein 3	121					cell proliferation|positive regulation of TOR signaling cascade|regulation of mitochondrion organization	cytosol|endosome|Golgi cisterna membrane|mitochondrial intermembrane space|plasma membrane|trans-Golgi network	protein binding			ovary(1)	1						GACTTACAGATTACCTAAAAA	0.358													27	33					0	0	0.116897	0	0		C	32135789	C	C	32135789	3	2	185	1	0	0	0	0	1	0	0	0	6583	1493	52	3	543	3	GOLPH3	5	32135789	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	12414296	32135789	148779471	100	92308											
PRLR	5618	broad.mit.edu	37	chr5	35086401	35086401	+	Missense_Mutation	SNP	A	G	G	1	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	gaatgtttccttattgggagAacgacatttaaagatctcag	13	13	9	6	1	1	2	1	0	1	2	3	5	2	2	1	1	1	1	1	1	5	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:35086401A>G	uc003jjm.2	-	4	642	c.112T>C	c.(112-114)TCT>CCT	p.S38P	PRLR_uc003jjg.1_Missense_Mutation_p.S38P|PRLR_uc003jjh.1_Missense_Mutation_p.S38P|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Missense_Mutation_p.S38P|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Intron|PRLR_uc010iuw.1_5'UTR	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	38	Fibronectin type-III 1.|Extracellular (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TTATTGGGAGAACGACATTTA	0.448													35	52					0	0	0.074837	0	0		G	35086401	G	G	35086401	3	3	185	1	0	0	0	0	1	0	0	0	12553	246	9	3	1784	3	PRLR	5	35086401	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	2950612	35086401	145828859	101	92309											
C5orf44	80006	broad.mit.edu	37	chr5	64946672	64946672	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gagttatacaactcaggctgGagaaaaaatgtatttcagaa	17	10	9	5	0	2	2	2	0	0	2	2	4	2	2	0	2	2	3	0	2	8	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:64946672G>C	uc003jtz.3	+	6	794	c.464G>C	c.(463-465)GGA>GCA	p.G155A	C5orf44_uc003jua.3_Missense_Mutation_p.G155A|C5orf44_uc003juc.3_Missense_Mutation_p.G155A|C5orf44_uc010iwv.2_Missense_Mutation_p.G155A	NM_024941	NP_079217	A5PLN9	CE044_HUMAN	hypothetical protein LOC80006 isoform 2	155										ovary(1)	1						ACTCAGGCTGGAGAAAAAATG	0.303													3	28					0	0	0.115264	0	0		C	64946672	C	C	64946672	3	2	185	1	0	0	0	0	1	0	0	0	2306	1174	41	5	486	5	C5orf44	5	64946672	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	29860271	64946672	115968588	102	92310											
MAP1B	4131	broad.mit.edu	37	chr5	71495728	71495728	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccaatatcgactctgaagaCgagtcggaaaccatccccac	13	6	8	14	3	1	2	0	1	1	1	4	5	2	3	4	1	1	0	4	1	4	1	rs77733766	byFrequency	TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:71495728C>T	uc003kbw.3	+	5	6787	c.6546C>T	c.(6544-6546)GAC>GAT	p.D2182D	MAP1B_uc010iyw.1_Silent_p.D2199D|MAP1B_uc010iyx.1_Silent_p.D2056D|MAP1B_uc010iyy.1_Silent_p.D2056D	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2182						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		ACTCTGAAGACGAGTCGGAAA	0.597													57	92					0	0	0.139131	0	0		T	71495728	T	T	71495728	2	4	185	1	0	0	0	0	0	0	0	1	9246	535	19	1		1	MAP1B	5	71495728	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6549056	71495728	109419532	103	92311											
FER	2241	broad.mit.edu	37	chr5	108521949	108521949	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctttggcatccttctctGggagaccttcagcttagggg	6	12	13	10	0	2	1	1	0	1	1	4	3	3	1	2	4	2	3	2	4	1	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:108521949G>C	uc003kop.1	+	19	2636	c.2252G>C	c.(2251-2253)TGG>TCG	p.W751S	FER_uc011cvg.1_Missense_Mutation_p.W576S	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	751	Protein kinase.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		ATCCTTCTCTGGGAGACCTTC	0.473													61	33					0	0	0.139131	0	0		C	108521949	C	C	108521949	3	2	185	1	0	0	0	0	1	0	0	0	5827	1357	47	5	2318	5	FER	5	108521949	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	37026221	108521949	72393311	104	92312											
PDLIM4	8572	broad.mit.edu	37	chr5	131607543	131607543	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacggccagcaagctgggcGctccgctgagcggcctgcag	6	4	15	16	4	0	1	0	1	0	0	1	1	1	1	4	3	4	5	4	3	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:131607543G>C	uc003kwn.2	+	6	807	c.730G>C	c.(730-732)GCT>CCT	p.A244P	uc003kwm.3_Intron|PDLIM4_uc003kwp.2_Intron|PDLIM4_uc003kwo.2_Missense_Mutation_p.A352P	NM_003687	NP_003678	P50479	PDLI4_HUMAN	PDZ and LIM domain 4 isoform 1	244							protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CAAGCTGGGCGCTCCGCTGAG	0.726													9	11					0	0	0.058154	0	0		C	131607543	C	C	131607543	3	2	185	1	0	0	0	0	1	0	0	0	11701	1087	38	5	752	5	PDLIM4	5	131607543	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	23085594	131607543	49307717	105	92313											
CTNNA1	1495	broad.mit.edu	37	chr5	138269667	138269667	+	Silent	SNP	G	A	A																															ccagagaaaaagccattggtGaagagagagaaacaggatga																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:138269667G>A	uc003ldh.2	+	18	2705	c.2610G>A	c.(2608-2610)GTG>GTA	p.V870V	CTNNA1_uc011cyx.1_Silent_p.V767V|CTNNA1_uc011cyy.1_Silent_p.V747V|CTNNA1_uc003ldi.2_Silent_p.V568V|CTNNA1_uc003ldj.2_3'UTR|CTNNA1_uc003ldl.2_Silent_p.V500V	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	870					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGCCATTGGTGAAGAGAGAGA	0.502													16	37					0	0	0.132662	0	0		A	138269667	A	A	138269667	2	1	185	1	0	0	0	0	0	0	0	1	4015	1277	45	4		4	CTNNA1	5	138269667	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	6662124	138269667	42645593	106	92314	171	2									
CTNNA1	1495	broad.mit.edu	37	chr5	138269676	138269676	+	Missense_Mutation	SNP	G	C	C																															aagccattggtgaagagagaGaaacaggatgagacacagac																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:138269676G>C	uc003ldh.2	+	18	2714	c.2619G>C	c.(2617-2619)GAG>GAC	p.E873D	CTNNA1_uc011cyx.1_Missense_Mutation_p.E770D|CTNNA1_uc011cyy.1_Missense_Mutation_p.E750D|CTNNA1_uc003ldi.2_Missense_Mutation_p.E571D|CTNNA1_uc003ldj.2_3'UTR|CTNNA1_uc003ldl.2_Missense_Mutation_p.E503D	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	873					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TGAAGAGAGAGAAACAGGATG	0.493													19	36					0	0	0.043863	0	0		C	138269676	C	C	138269676	3	2	185	1	0	0	0	0	1	0	0	0	4015	933	33	5	2685	5	CTNNA1	5	138269676	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	9	138269676	42645584	107	92315	171	2									
PCDHGA2	56113	broad.mit.edu	37	chr5	140719889	140719889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatcaacgacaacgcacccGccttctcccgcacatcctac	11	6	4	20	4	2	0	1	0	1	0	4	1	3	0	4	0	3	2	4	0	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:140719889G>A	uc003ljk.1	+	1	1536	c.1351G>A	c.(1351-1353)GCC>ACC	p.A451T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Missense_Mutation_p.A451T	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	451	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAACGCACCCGCCTTCTCCCG	0.552													35	46					0	0	0.080422	0	0		A	140719889	A	A	140719889	3	1	185	1	0	0	0	0	1	0	0	0	11573	1087	38	1	1353	1	PCDHGA2	5	140719889	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	2450213	140719889	40195371	108	92316											
SH3RF2	153769	broad.mit.edu	37	chr5	145439568	145439568	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcccctcctccccctcagcCgtggtggtggagatggggtc	4	9	13	15	1	1	1	1	0	0	1	5	2	4	1	6	5	1	0	6	5	0	0	rs142262740	by1000genomes	TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:145439568C>T	uc003lnt.2	+	9	1933	c.1695C>T	c.(1693-1695)GCC>GCT	p.A565A	SH3RF2_uc011dbl.1_Silent_p.A565A|SH3RF2_uc011dbm.1_Silent_p.A50A|SH3RF2_uc003lnu.2_Silent_p.A56A|SH3RF2_uc011dbn.1_Silent_p.A56A|SH3RF2_uc011dbo.1_Silent_p.A22A	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	565							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCCCCTCAGCCGTGGTGGTGG	0.672													27	65					0	0	0.125774	0	0		T	145439568	T	T	145439568	2	4	185	1	0	0	0	0	0	0	0	1	14284	639	23	1		1	SH3RF2	5	145439568	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	4719679	145439568	35475692	109	92317											
CSNK1A1	1452	broad.mit.edu	37	chr5	148885058	148885058	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttgcctgtgggggtttGggcctgctgaccctgcccac	2	12	14	13	0	0	1	0	1	0	0	0	1	0	1	4	3	4	3	4	3	0	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:148885058G>C	uc003lqx.1	-	9	1438	c.958C>G	c.(958-960)CAA>GAA	p.Q320E	CSNK1A1_uc011dcb.1_Missense_Mutation_p.Q229E|CSNK1A1_uc011dcc.1_Missense_Mutation_p.Q259E|CSNK1A1_uc003lqv.1_Missense_Mutation_p.Q231E|CSNK1A1_uc003lqw.1_Missense_Mutation_p.Q348E|CSNK1A1_uc003lqy.1_Missense_Mutation_p.Q320E|CSNK1A1_uc010jha.1_Missense_Mutation_p.Q320E	NM_001892	NP_001883	P48729	KC1A_HUMAN	casein kinase 1, alpha 1 isoform 2	320					cell division|mitosis|Wnt receptor signaling pathway	centrosome|condensed chromosome kinetochore|cytosol|nuclear speck	ATP binding|protein binding|protein binding|protein serine/threonine kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;0.0407)		GTGGGGGTTTGGGCCTGCTGA	0.453													31	53					0	0	0.050027	0	0		C	148885058	C	C	148885058	3	2	185	1	0	0	0	0	1	0	0	0	3953	1357	47	5	63	5	CSNK1A1	5	148885058	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3445490	148885058	32030202	110	92318											
NUDCD2	134492	broad.mit.edu	37	chr5	162880981	162880981	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaaaaaaagcagttatttctCaaggtttgagaaatctggtc	15	12	9	5	0	2	1	1	1	2	1	4	3	2	1	0	2	1	3	0	2	6	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:162880981C>G	uc003lze.2	-	4	553	c.466G>C	c.(466-468)GAG>CAG	p.E156Q		NM_145266	NP_660309	Q8WVJ2	NUDC2_HUMAN	NudC domain containing 2	156						intracellular					0	Renal(175;0.000281)	Medulloblastoma(196;0.0207)|all_neural(177;0.0966)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0981)|OV - Ovarian serous cystadenocarcinoma(192;0.183)|Epithelial(171;0.247)		AGTTATTTCTCAAGGTTTGAG	0.358													26	66					0	0	0.144211	0	0		G	162880981	G	G	162880981	3	3	185	1	0	0	0	0	1	0	0	0	10742	835	29	5	11	5	NUDCD2	5	162880981	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	13995923	162880981	18034279	111	92319											
TMED9	54732	broad.mit.edu	37	chr5	177022391	177022391	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatgcggcacctcaagagcTtctttgaagccaagaagctt	12	9	10	10	1	2	4	1	1	1	3	2	4	2	4	2	1	4	3	2	1	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr5:177022391T>G	uc003mhx.2	+	5	685	c.682T>G	c.(682-684)TTC>GTC	p.F228V	TMED9_uc010jko.2_RNA	NM_017510	NP_059980	Q9BVK6	TMED9_HUMAN	transmembrane emp24 protein transport domain	228	Cytoplasmic (Potential).				transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|integral to membrane					0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCTCAAGAGCTTCTTTGAAGC	0.582													32	52					0	0	0.080422	0	0		G	177022391	G	G	177022391	3	3	185	1	0	0	0	0	1	0	0	0	16037	1609	56	5	700	5	TMED9	5	177022391	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	14141410	177022391	3892869	112	92320											
ATXN1	6310	broad.mit.edu	37	chr6	16326666	16326666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgaactgtatcacggccaCgcccgggctatggctgtctt	6	9	13	13	4	2	0	1	0	1	0	2	1	2	0	2	4	1	3	2	4	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:16326666C>T	uc003nbt.2	-	8	2847	c.1876G>A	c.(1876-1878)GTG>ATG	p.V626M	ATXN1_uc010jpi.2_Missense_Mutation_p.V626M|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	626	Interaction with USP7.|RNA-binding.|AXH.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				ATCACGGCCACGCCCGGGCTA	0.552													22	55					0	0	0.069288	0	0		T	16326666	T	T	16326666	3	4	185	1	0	0	0	0	1	0	0	0	1210	536	19	1	579	1	ATXN1	6	16326666	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08		16326666	154788401	113	92321											
SCAND3	114821	broad.mit.edu	37	chr6	28543077	28543077	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgttctgcagaactctggcTttggcaggtctgagacttcc	6	14	11	10	0	3	2	0	1	3	2	4	3	4	2	1	3	2	4	1	3	1	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:28543077T>A	uc003nlo.2	-	3	2023	c.1405A>T	c.(1405-1407)AGC>TGC	p.S469C		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	469	Integrase catalytic.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GAACTCTGGCTTTGGCAGGTC	0.423													28	86					0	0	0.099896	0	0		A	28543077	A	A	28543077	3	1	185	1	0	0	0	0	1	0	0	0	13901	1609	56	5	2580	5	SCAND3	6	28543077	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	12216411	28543077	142571990	114	92322											
ABCF1	23	broad.mit.edu	37	chr6	30554043	30554043	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgtgcgcttcacttttccaGaccccccaccactcagccct	6	10	5	20	1	2	1	2	0	0	1	3	1	3	1	6	0	2	1	6	0	0	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:30554043G>C	uc003nql.2	+	18	1941	c.1846G>C	c.(1846-1848)GAC>CAC	p.D616H	ABCF1_uc003nqm.2_Missense_Mutation_p.D578H|ABCF1_uc010jsb.2_Intron	NM_001025091	NP_001020262	Q8NE71	ABCF1_HUMAN	ATP-binding cassette, sub-family F, member 1	616					inflammatory response|translational initiation	nuclear envelope|nuclear envelope|nucleoplasm|nucleoplasm|polysomal ribosome	ATP binding|ATP binding|ATPase activity|protein binding|ribosome binding|translation activator activity|translation factor activity, nucleic acid binding			ovary(2)	2						CACTTTTCCAGACCCCCCACC	0.597													19	83					0	0	0.062417	0	0		C	30554043	C	C	30554043	3	2	185	1	0	0	0	0	1	0	0	0	65	942	33	5	1916	5	ABCF1	6	30554043	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	2010966	30554043	140561024	115	92323											
DOM3Z	1797	broad.mit.edu	37	chr6	31938570	31938570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ggccacgttggtgttaacctCcccagaggggtctggggagc	6	8	16	11	1	1	1	0	0	1	1	2	2	2	2	4	6	2	2	4	6	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:31938570C>T	uc003nyo.1	-	3	1159	c.625G>A	c.(625-627)GAG>AAG	p.E209K	DOM3Z_uc003nyp.1_Missense_Mutation_p.E209K|DOM3Z_uc003nyq.1_Intron|DOM3Z_uc003nyr.1_Missense_Mutation_p.E209K|DOM3Z_uc003nys.1_3'UTR|DOM3Z_uc010jtl.1_3'UTR|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_005510	NP_005501	O77932	DOM3Z_HUMAN	DOM-3 homolog Z	209							identical protein binding|metal ion binding|nucleotide binding				0						GTGTTAACCTCCCCAGAGGGG	0.622													12	46					0	0	0.105934	0	0		T	31938570	T	T	31938570	3	4	185	1	0	0	0	0	1	0	0	0	4711	864	30	4	581	4	DOM3Z	6	31938570	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1384527	31938570	139176497	116	92324											
BRPF3	27154	broad.mit.edu	37	chr6	36181868	36181868	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgagcctttgcaacgcttGctcagtgacaatggcatcaa	12	10	9	10	1	2	2	2	2	0	0	2	2	2	2	1	1	4	4	1	1	4	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:36181868G>C	uc003olv.3	+	8	2918	c.2694G>C	c.(2692-2694)TTG>TTC	p.L898F	BRPF3_uc010jwb.2_Intron|BRPF3_uc011dtj.1_Intron|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Intron	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	898					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TGCAACGCTTGCTCAGTGACA	0.542													66	176					0	0	0.139131	0	0		C	36181868	C	C	36181868	3	2	185	1	0	0	0	0	1	0	0	0	1524	1310	46	5	2720	5	BRPF3	6	36181868	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	4243298	36181868	134933199	117	92325											
C6orf89	221477	broad.mit.edu	37	chr6	36882162	36882162	+	Missense_Mutation	SNP	T	A	A	0	1	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	acacctgaaggtgatgctccTggaagacgccccaaggaaat	13	6	11	11	1	0	3	0	2	0	1	1	5	1	5	4	3	1	1	4	3	4	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:36882162T>A	uc003omx.2	+	5	790	c.506T>A	c.(505-507)CTG>CAG	p.L169Q	C6orf89_uc003omv.2_Missense_Mutation_p.L63Q|C6orf89_uc003omw.2_Missense_Mutation_p.L176Q|C6orf89_uc011dtr.1_Missense_Mutation_p.L63Q|C6orf89_uc003omy.2_Missense_Mutation_p.L3Q	NM_152734	NP_689947	Q6UWU4	CF089_HUMAN	hypothetical protein LOC221477	169						integral to membrane				ovary(1)	1						GTGATGCTCCTGGAAGACGCC	0.542													14	102					0	0	0.11911	0	0		A	36882162	A	A	36882162	3	1	185	1	0	0	0	0	1	0	0	0	2376	1580	55	5	541	5	C6orf89	6	36882162	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	700294	36882162	134232905	118	92326											
RNF8	9025	broad.mit.edu	37	chr6	37336407	37336407	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aagttactgaagaagactggGagacaatatatccttgtctt	14	12	9	6	0	1	4	0	1	1	3	2	5	2	4	1	1	1	1	1	1	7	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:37336407G>C	uc003onq.3	+	3	581	c.388G>C	c.(388-390)GAG>CAG	p.E130Q	RNF8_uc003onr.3_Missense_Mutation_p.E130Q|RNF8_uc011dtx.1_Missense_Mutation_p.E62Q	NM_003958	NP_003949	O76064	RNF8_HUMAN	ring finger protein 8 isoform 1	130					cell division|double-strand break repair|histone H2A ubiquitination|histone H2B ubiquitination|mitosis|positive regulation of DNA repair|response to ionizing radiation	midbody|nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						AGAAGACTGGGAGACAATATA	0.378													27	96					0	0	0.125774	0	0		C	37336407	C	C	37336407	3	2	185	1	0	0	0	0	1	0	0	0	13525	1175	41	5	398	5	RNF8	6	37336407	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	454245	37336407	133778660	119	92327											
CD2AP	23607	broad.mit.edu	37	chr6	47575752	47575752	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaattaaaaaaagatacatgCtactctccaaaggtgaggtg	17	9	9	6	0	1	2	0	1	1	1	2	3	1	2	1	2	3	1	1	2	8	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:47575752C>G	uc003oyw.2	+	15	2076	c.1620C>G	c.(1618-1620)TGC>TGG	p.C540W		NM_012120	NP_036252	Q9Y5K6	CD2AP_HUMAN	CD2-associated protein	540					cell division|mitosis|protein complex assembly|signal transduction|substrate-dependent cell migration, cell extension	cytoplasm|filamentous actin|nucleolus|plasma membrane|ruffle	SH3 domain binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2			Lung(136;0.105)|LUSC - Lung squamous cell carcinoma(51;0.138)			AAGATACATGCTACTCTCCAA	0.393													24	38					0	0	0.076483	0	0		G	47575752	G	G	47575752	3	3	185	1	0	0	0	0	1	0	0	0	2997	805	28	5	1678	5	CD2AP	6	47575752	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	10239345	47575752	123539315	120	92328											
ANKRD6	22881	broad.mit.edu	37	chr6	90333683	90333683	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatcaccctaaaaagaggaaCaggcatcggtgttcatcccc	14	7	8	12	1	2	1	2	0	0	1	4	2	3	2	3	3	1	2	3	3	5	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:90333683C>T	uc003pni.3	+	12	1466	c.1125C>T	c.(1123-1125)AAC>AAT	p.N375N	ANKRD6_uc003pne.3_Silent_p.N375N|ANKRD6_uc003pnf.3_Silent_p.N340N|ANKRD6_uc011dzy.1_Silent_p.N375N|ANKRD6_uc010kcd.2_Silent_p.N316N|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_5'UTR|LYRM2_uc010kcf.1_Intron|ANKRD6_uc003pnj.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	375							protein binding			ovary(2)|pancreas(1)	3		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)		AAAAGAGGAACAGGCATCGGT	0.542													16	34					0	0	0.146539	0	0		T	90333683	T	T	90333683	2	4	185	1	0	0	0	0	0	0	0	1	685	477	17	4		4	ANKRD6	6	90333683	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	42757931	90333683	80781384	121	92329											
SLC35F1	222553	broad.mit.edu	37	chr6	118556701	118556701	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acctcctggcaattttacgaCgaagatggtggaagtacatg	12	10	11	8	2	0	1	0	0	0	1	1	4	1	2	2	3	2	2	2	3	5	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:118556701C>T	uc003pxx.3	+	3	580	c.379C>T	c.(379-381)CGA>TGA	p.R127*		NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1	127					transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		AATTTTACGACGAAGATGGTG	0.388													16	47					0	0	0.055883	0	0		T	118556701	T	T	118556701	4	4	185	1	0	0	0	0	0	1	0	0	14613	528	19	1	389	1	SLC35F1	6	118556701	Nonsense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	28223018	118556701	52558366	122	92330											
SAMD3	154075	broad.mit.edu	37	chr6	130465893	130465893	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaaatataaagaaaattcGcagacctccatgttgaaagg	17	10	7	7	1	1	3	0	1	1	2	3	3	2	3	2	1	0	2	2	1	8	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:130465893G>C	uc003qbv.2	-	13	1661	c.1335C>G	c.(1333-1335)TGC>TGG	p.C445W	SAMD3_uc003qbx.2_Missense_Mutation_p.C445W|SAMD3_uc003qbw.2_Missense_Mutation_p.C445W	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	445										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		AAGAAAATTCGCAGACCTCCA	0.423													13	95					0	0	0.09319	0	0		C	130465893	C	C	130465893	3	2	185	1	0	0	0	0	1	0	0	0	13845	1079	38	5	231	5	SAMD3	6	130465893	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	11909192	130465893	40649174	123	92331											
TNFAIP3	7128	broad.mit.edu	37	chr6	138192409	138192409	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gctttgtatttgagcaatatGcggaaagctgtgaagatacg	12	12	12	5	2	0	3	0	2	0	1	0	4	0	4	0	1	4	4	0	1	6	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:138192409G>T	uc003qhr.2	+	2	111	c.45G>T	c.(43-45)ATG>ATT	p.M15I	TNFAIP3_uc003qhs.2_Missense_Mutation_p.M15I	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	15					anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		TGAGCAATATGCGGAAAGCTG	0.403			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma						OREG0031869	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	26	120					2.61193e-14	2.95561e-14	0.144211	1	0		T	138192409	T	T	138192409	3	4	185	1	0	0	0	0	1	0	0	0	16299	1319	46	5	47	5	TNFAIP3	6	138192409	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	7726516	138192409	32922658	124	92332											
UTRN	7402	broad.mit.edu	37	chr6	144749929	144749929	+	Missense_Mutation	SNP	C	A	A																															ttcagacctgatctcttcagCtgggataaagttgtcaaaat																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:144749929C>A	uc003qkt.2	+	7	686	c.594C>A	c.(592-594)AGC>AGA	p.S198R	UTRN_uc010khq.1_Missense_Mutation_p.S198R	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	198	CH 2.|Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		ATCTCTTCAGCTGGGATAAAG	0.348													12	40					5.50884e-06	5.77756e-06	0.09319	1	0		A	144749929	A	A	144749929	3	1	185	1	0	0	0	0	1	0	0	0	17129	796	28	5	620	5	UTRN	6	144749929	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6557520	144749929	26365138	125	92333	172	2									
UTRN	7402	broad.mit.edu	37	chr6	144749936	144749936	+	Missense_Mutation	SNP	A	G	G																															ctgatctcttcagctgggatAaagttgtcaaaatgtcacca																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:144749936A>G	uc003qkt.2	+	7	693	c.601A>G	c.(601-603)AAA>GAA	p.K201E	UTRN_uc010khq.1_Missense_Mutation_p.K201E	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	201	CH 2.|Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CAGCTGGGATAAAGTTGTCAA	0.353													10	43					0	0	0.080935	0	0		G	144749936	G	G	144749936	3	3	185	1	0	0	0	0	1	0	0	0	17129	363	13	3	627	3	UTRN	6	144749936	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	7	144749936	26365131	126	92334	172	2									
AKAP12	9590	broad.mit.edu	37	chr6	151670624	151670624	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagccggcagaaagtgcccaCgagccccggttatcagctga	10	5	13	13	3	1	2	1	1	0	1	1	4	1	2	4	2	4	3	4	2	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:151670624C>T	uc011eep.1	+	4	1338	c.1098C>T	c.(1096-1098)CAC>CAT	p.H366H	AKAP12_uc003qoe.2_Silent_p.H366H|AKAP12_uc003qof.2_Silent_p.H268H|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.H261H	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	366	Involved in PKC-binding (Probable).				G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		AAAGTGCCCACGAGCCCCGGT	0.562													52	114					0	0	0.139131	0	0		T	151670624	T	T	151670624	2	4	185	1	0	0	0	0	0	0	0	1	448	535	19	1		1	AKAP12	6	151670624	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6920688	151670624	19444443	127	92335											
MAS1	4142	broad.mit.edu	37	chr6	160328818	160328818	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaacagtagcgccaacccTttcatttacttctttgtggg	9	14	7	11	1	3	0	2	0	1	0	3	0	3	0	2	1	4	1	2	1	4	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:160328818T>A	uc003qsz.2	+	1	845	c.831T>A	c.(829-831)CCT>CCA	p.P277P		NM_002377	NP_002368	P04201	MAS_HUMAN	MAS1 oncogene	277	Helical; Name=7; (Potential).				anatomical structure morphogenesis|cell proliferation|protein kinase C signaling cascade	integral to plasma membrane	angiotensin type II receptor activity			ovary(2)|lung(2)	4		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.44e-18)|BRCA - Breast invasive adenocarcinoma(81;5.6e-06)		GCGCCAACCCTTTCATTTACT	0.448													47	85					0	0	0.139131	0	0		A	160328818	A	A	160328818	2	1	185	1	0	0	0	0	0	0	0	1	9338	1596	56	5		5	MAS1	6	160328818	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	8658194	160328818	10786249	128	92336											
T	6862	broad.mit.edu	37	chr6	166580155	166580155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttcatccagtgggccccGaagttgggcgagtcggggtg	5	8	17	11	3	1	0	1	0	0	0	3	2	2	0	4	4	0	1	4	4	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr6:166580155G>T	uc003quu.1	-	3	889	c.396C>A	c.(394-396)TTC>TTA	p.F132L	T_uc003qut.1_Missense_Mutation_p.F132L|T_uc003quv.1_Missense_Mutation_p.F132L	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	132	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		AGTGGGCCCCGAAGTTGGGCG	0.657									Chordoma_Familial_Clustering_of				33	65					9.65021e-13	1.07626e-12	0.045705	1	0		T	166580155	T	T	166580155	3	4	185	1	0	0	0	0	1	0	0	0	15513	1049	37	5	939	5	T	6	166580155	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	6251337	166580155	4534912	129	92337											
GPNMB	10457	broad.mit.edu	37	chr7	23309691	23309691	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagatgtgtctgctgactgtGagacgaaccttcaatgggtc	9	11	13	8	1	2	3	1	2	1	2	3	6	2	3	1	1	2	1	1	1	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:23309691G>C	uc003swc.2	+	9	1523	c.1362G>C	c.(1360-1362)GTG>GTC	p.V454V	GPNMB_uc003swb.2_Silent_p.V442V|GPNMB_uc011jyy.1_Silent_p.V396V|GPNMB_uc011jyz.1_Silent_p.V343V	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	454	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			TGCTGACTGTGAGACGAACCT	0.552													36	96					0	0	0.059317	0	0		C	23309691	C	C	23309691	2	2	185	1	0	0	0	0	0	0	0	1	6635	1277	45	5		5	GPNMB	7	23309691	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		23309691	135828972	130	92338											
NOD1	10392	broad.mit.edu	37	chr7	30491602	30491602	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcacctcctcctgggtgaaGacaaagaggctcttctccat	9	10	9	13	0	2	3	0	1	2	2	5	3	4	3	4	2	1	2	4	2	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:30491602G>C	uc003tav.2	-	6	1954	c.1431C>G	c.(1429-1431)GTC>GTG	p.V477V		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	477	NACHT.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						CCTGGGTGAAGACAAAGAGGC	0.692													25	53					0	0	0.125774	0	0		C	30491602	C	C	30491602	2	2	185	1	0	0	0	0	0	0	0	1	10535	929	33	5		5	NOD1	7	30491602	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	7181911	30491602	128647061	131	92339											
SFRP4	6424	broad.mit.edu	37	chr7	37947099	37947099	+	Silent	SNP	T	C	C	0	1	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	gctcacactcttttcgggttTgttctcttctgggcactcct	3	17	8	13	1	4	0	1	0	3	0	7	0	5	0	1	2	0	4	1	2	0	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:37947099T>C	uc003tfo.3	-	6	1409	c.1023A>G	c.(1021-1023)ACA>ACG	p.T341T		NM_003014	NP_003005	Q6FHJ7	SFRP4_HUMAN	secreted frizzled-related  protein 4 precursor	341					brain development|cell differentiation|decidualization|embryo development|epithelium development|gonad development|mammary gland involution|menstrual cycle phase|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell proliferation|negative regulation of JNK cascade|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of sodium-dependent phosphate transport|phosphate ion homeostasis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of epidermal cell differentiation|positive regulation of gene expression|positive regulation of receptor internalization|vasculature development|Wnt receptor signaling pathway	cell surface|cytoplasm|extracellular space|nucleus	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(1)	1						TTTTCGGGTTTGTTCTCTTCT	0.512													61	93					0	0	0.139131	0	0		C	37947099	C	C	37947099	2	2	185	1	0	0	0	0	0	0	0	1	14188	1799	63	3		3	SFRP4	7	37947099	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	7455497	37947099	121191564	132	92340											
INHBA	3624	broad.mit.edu	37	chr7	41729775	41729775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccaggagaaccaagctggCgccactctcctggcactgct	8	6	11	16	1	1	1	0	0	1	1	2	2	1	1	4	3	3	3	4	3	2	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:41729775C>T	uc003thq.2	-	2	989	c.754G>A	c.(754-756)GCC>ACC	p.A252T	INHBA_uc003thr.2_Missense_Mutation_p.A252T	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	252					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						ACCAAGCTGGCGCCACTCTCC	0.378										TSP Lung(11;0.080)			13	19					0	0	0.105934	0	0		T	41729775	T	T	41729775	3	4	185	1	0	0	0	0	1	0	0	0	7757	768	27	1	530	1	INHBA	7	41729775	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3782676	41729775	117408888	133	92341											
AUTS2	26053	broad.mit.edu	37	chr7	70227930	70227930	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgattgtccccaagatatcgGgtctagagagaagccaggag	12	7	13	9	2	1	3	0	0	1	3	3	6	2	4	3	2	1	0	3	2	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:70227930G>T	uc003tvw.3	+	7	1560	c.817G>T	c.(817-819)GGT>TGT	p.G273C	AUTS2_uc003tvx.3_Missense_Mutation_p.G273C	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	273										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CAAGATATCGGGTCTAGAGAG	0.537													55	110					3.21867e-24	3.79764e-24	0.139131	1	0		T	70227930	T	T	70227930	3	4	185	1	0	0	0	0	1	0	0	0	1226	1232	43	5	988	5	AUTS2	7	70227930	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	28498155	70227930	88910733	134	92342											
AUTS2	26053	broad.mit.edu	37	chr7	70228154	70228154	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacagggccctcctgaGgcccagctccagcctgcccc	6	4	9	22	0	0	1	0	1	0	0	2	1	2	1	9	2	3	1	9	2	0	0	rs151096425		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:70228154G>T	uc003tvw.3	+	7	1784	c.1041G>T	c.(1039-1041)GAG>GAT	p.E347D	AUTS2_uc003tvx.3_Missense_Mutation_p.E347D	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	347								p.E347K(1)		ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		GCCCTCCTGAGGCCCAGCTCC	0.677													29	29					2.85442e-18	3.28768e-18	0.045705	1	0		T	70228154	T	T	70228154	3	4	185	1	0	0	0	0	1	0	0	0	1226	991	35	5	1212	5	AUTS2	7	70228154	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	224	70228154	88910509	135	92343											
RUNDC3B	154661	broad.mit.edu	37	chr7	87436707	87436707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggactgtgctaaagaataatGatttaagatcgagacaagag	17	9	11	4	1	0	5	0	1	0	4	1	7	0	6	0	1	1	1	0	1	6	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:87436707G>A	uc003ujb.2	+	10	1438	c.1027G>A	c.(1027-1029)GAT>AAT	p.D343N	RUNDC3B_uc011khd.1_Missense_Mutation_p.D326N|RUNDC3B_uc011khe.1_Missense_Mutation_p.D326N|RUNDC3B_uc003ujc.2_Intron|RUNDC3B_uc003ujd.2_Intron	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	343										skin(1)	1	Esophageal squamous(14;0.00164)					AAAGAATAATGATTTAAGATC	0.433													35	72					0	0	0.086207	0	0		A	87436707	A	A	87436707	3	1	185	1	0	0	0	0	1	0	0	0	13770	1290	45	4	1065	4	RUNDC3B	7	87436707	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	17208553	87436707	71701956	136	92344											
CYP51A1	1595	broad.mit.edu	37	chr7	91752481	91752481	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctccacagactgttttctGttctaaataacatttttttt	9	20	3	9	0	3	1	0	0	3	1	4	1	3	1	1	0	1	2	1	0	3	9			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:91752481G>A	uc003ulm.3	-	7	1201	c.1039C>T	c.(1039-1041)CAG>TAG	p.Q347*	CYP51A1_uc011khn.1_Nonsense_Mutation_p.Q242*|CYP51A1_uc003uln.3_Nonsense_Mutation_p.Q284*	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	341					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	ACTGTTTTCTGTTCTAAATAA	0.403													34	99					0	0	0.059317	0	0		A	91752481	A	A	91752481	4	1	185	1	0	0	0	0	0	1	0	0	4198	1386	48	4	506	4	CYP51A1	7	91752481	Nonsense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	4315774	91752481	67386182	137	92345											
TECPR1	25851	broad.mit.edu	37	chr7	97863002	97863002	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgttgggtctggcctccCtgctgccctcggctgggcag	1	10	16	14	2	1	0	0	0	1	0	3	0	2	0	3	4	2	4	3	4	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:97863002C>G	uc003upg.2	-	11	1608	c.1403G>C	c.(1402-1404)AGG>ACG	p.R468T	TECPR1_uc003uph.1_Missense_Mutation_p.R398T	NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	468						integral to membrane	protein binding			pancreas(1)	1						TCTGGCCTCCCTGCTGCCCTC	0.662													7	54					0	0	0.069234	0	0		G	97863002	G	G	97863002	3	3	185	1	0	0	0	0	1	0	0	0	15768	681	24	5	2158	5	TECPR1	7	97863002	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6110521	97863002	61275661	138	92346											
GAL3ST4	79690	broad.mit.edu	37	chr7	99757827	99757827	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctctcggcgagcccggagCtcggccacagctgtctgcag	5	6	14	16	4	2	0	0	0	2	0	4	2	2	1	3	3	4	3	3	3	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:99757827C>T	uc003utt.2	-	3	2202	c.1185G>A	c.(1183-1185)GAG>GAA	p.E395E	C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Silent_p.E395E|GAL3ST4_uc010lgq.2_Silent_p.E333E	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	395	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GAGCCCGGAGCTCGGCCACAG	0.607													9	155					0	0	0.047766	0	0		T	99757827	T	T	99757827	2	4	185	1	0	0	0	0	0	0	0	1	6215	796	28	2		2	GAL3ST4	7	99757827	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1894825	99757827	59380836	139	92347											
PTN	5764	broad.mit.edu	37	chr7	136939673	136939673	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaaaatgaatgccaagaaGgcagctgcaaattttcgacg	16	8	10	7	2	0	3	0	2	0	1	1	4	0	3	1	1	3	3	1	1	6	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:136939673G>T	uc003vtq.2	-	2	411	c.48C>A	c.(46-48)GCC>GCA	p.A16A	PTN_uc010lmx.2_Silent_p.A16A|PTN_uc003vtr.1_Silent_p.A16A	NM_002825	NP_002816	P21246	PTN_HUMAN	pleiotrophin	16					nervous system development|positive regulation of cell division|positive regulation of cell proliferation|transmembrane receptor protein tyrosine phosphatase signaling pathway	endoplasmic reticulum|extracellular space	growth factor activity|heparin binding|protein phosphatase inhibitor activity			upper_aerodigestive_tract(1)|pancreas(1)	2						ATGCCAAGAAGGCAGCTGCAA	0.463													17	24					4.14922e-12	4.58785e-12	0.146539	1	0		T	136939673	T	T	136939673	2	4	185	1	0	0	0	0	0	0	0	1	12791	987	35	5		5	PTN	7	136939673	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	37181846	136939673	22198990	140	92348											
TAS2R38	5726	broad.mit.edu	37	chr7	141673474	141673474	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ataggacacagtgcggatgcGagttagagtcaacatgatgt	13	9	13	6	2	1	2	1	1	0	1	1	5	1	4	0	2	3	1	0	2	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:141673474G>C	uc003vwx.1	-	1	100	c.16C>G	c.(16-18)CGC>GGC	p.R6G		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	6	Extracellular (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					GTGCGGATGCGAGTTAGAGTC	0.448													40	80					0	0	0.139131	0	0		C	141673474	C	C	141673474	3	2	185	1	0	0	0	0	1	0	0	0	15600	1058	37	5	989	5	TAS2R38	7	141673474	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	4733801	141673474	17465189	141	92349											
REPIN1	29803	broad.mit.edu	37	chr7	150068727	150068727	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaggctgggtggccctggttCtgcatctgcgggcccattca	4	10	15	12	1	3	0	1	0	2	0	3	1	3	0	2	5	2	3	2	5	0	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:150068727C>T	uc010lpq.1	+	4	886	c.397C>T	c.(397-399)CTG>TTG	p.L133L	REPIN1_uc003whd.2_Silent_p.L122L|REPIN1_uc010lpr.1_Silent_p.L190L|REPIN1_uc003whc.2_Silent_p.L133L|REPIN1_uc003whe.2_Silent_p.L133L	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	133	C2H2-type 3.				DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			GGCCCTGGTTCTGCATCTGCG	0.637													10	6					0	0	0.080935	0	0		T	150068727	T	T	150068727	2	4	185	1	0	0	0	0	0	0	0	1	13252	912	32	4		4	REPIN1	7	150068727	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	8395253	150068727	9069936	142	92350											
GALNTL5	168391	broad.mit.edu	37	chr7	151711795	151711795	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggacatatcagtaagaaaCaaactggaaaaccttctaca	19	8	6	8	0	2	1	1	0	1	1	2	3	2	3	1	2	4	1	1	2	8	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:151711795C>A	uc003wkp.2	+	8	1316	c.1093C>A	c.(1093-1095)CAA>AAA	p.Q365K	GALNTL5_uc003wkq.2_Missense_Mutation_p.Q116K|GALNTL5_uc003wkr.2_RNA|GALNTL5_uc003wks.2_RNA|GALNTL5_uc010lqf.2_Missense_Mutation_p.Q254K	NM_145292	NP_660335	Q7Z4T8	GLTL5_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	365	Lumenal (Potential).					Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)	2	all_neural(206;0.187)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00427)	UCEC - Uterine corpus endometrioid carcinoma (81;0.18)|BRCA - Breast invasive adenocarcinoma(188;0.166)		CAGTAAGAAACAAACTGGAAA	0.418													25	61					3.01185e-09	3.27412e-09	0.0918	1	0		A	151711795	A	A	151711795	3	1	185	1	0	0	0	0	1	0	0	0	6239	479	17	5	1119	5	GALNTL5	7	151711795	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1643068	151711795	7426868	143	92351											
MLL3	58508	broad.mit.edu	37	chr7	151845953	151845953	+	Missense_Mutation	SNP	T	G	G	0	1	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	cacttcttccatttcattccTctccattttttattgagcgg	6	19	4	12	1	3	1	1	1	2	0	6	1	5	1	3	1	1	0	3	1	1	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr7:151845953T>G	uc003wla.2	-	52	13278	c.13059A>C	c.(13057-13059)AGA>AGC	p.R4353S	MLL3_uc003wkz.2_Missense_Mutation_p.R3471S|MLL3_uc003wkx.2_Missense_Mutation_p.R511S|MLL3_uc003wky.2_Missense_Mutation_p.R1917S	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4353					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATTTCATTCCTCTCCATTTTT	0.433			N		medulloblastoma								12	38					0	0	0.11911	0	0		G	151845953	G	G	151845953	3	3	185	1	0	0	0	0	1	0	0	0	9640	1548	54	5	1708	5	MLL3	7	151845953	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	134158	151845953	7292710	144	92352											
FAM86B1	85002	broad.mit.edu	37	chr8	12043996	12043996	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctctaatgagaggccattgaGaaggacattccctcggagct	11	9	11	10	1	1	2	0	2	1	2	3	6	2	4	2	3	1	1	2	3	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:12043996G>C	uc010lse.2	-	5	550	c.505C>G	c.(505-507)CTC>GTC	p.L169V	FAM66D_uc011kxp.1_Intron|FAM86B1_uc003wvf.3_Intron|FAM86B1_uc003wvi.3_Intron|FAM86B1_uc010lsd.2_Intron|FAM86B1_uc003wvh.3_Intron|FAM86B1_uc011kxq.1_Intron|FAM86B1_uc010lsf.2_Intron|FAM86B1_uc003wvj.3_Missense_Mutation_p.L103V|FAM86B1_uc003wvk.3_Missense_Mutation_p.L203V|FAM86B1_uc010lsg.2_Intron|FAM86B1_uc003wvl.3_Intron	NM_001083537	NP_001077006	Q8N7N1	F86B1_HUMAN	hypothetical protein LOC85002	169											0			STAD - Stomach adenocarcinoma(15;0.033)	COAD - Colon adenocarcinoma(149;0.0965)		AGGCCATTGAGAAGGACATTC	0.597													6	67					0	0	0.11911	0	0		C	12043996	C	C	12043996	3	2	185	1	0	0	0	0	1	0	0	0	5658	942	33	5	397	5	FAM86B1	8	12043996	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		12043996	134320026	145	92353											
POLB	5423	broad.mit.edu	37	chr8	42202482	42202482	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccttatagaaaagcagcatCtgttatagcaaaatacccac	16	10	5	10	0	1	1	0	0	1	1	2	1	2	1	2	0	4	4	2	0	9	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:42202482C>G	uc003xoz.1	+	3	244	c.131C>G	c.(130-132)TCT>TGT	p.S44C	POLB_uc003xpa.1_Missense_Mutation_p.S44C|POLB_uc011lcs.1_Translation_Start_Site	NM_002690	NP_002681	P06746	DPOLB_HUMAN	DNA-directed DNA polymerase beta	44					DNA-dependent DNA replication	cytoplasm|nucleoplasm|spindle microtubule	DNA-(apurinic or apyrimidinic site) lyase activity|DNA-directed DNA polymerase activity|enzyme binding|metal ion binding|microtubule binding			ovary(1)|breast(1)	2	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.18e-11)|Lung(22;0.00467)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|LUSC - Lung squamous cell carcinoma(45;0.024)		Cytarabine(DB00987)	AAAGCAGCATCTGTTATAGCA	0.338								DNA_polymerases_(catalytic_subunits)					42	67					0	0	0.131918	0	0		G	42202482	G	G	42202482	3	3	185	1	0	0	0	0	1	0	0	0	12208	913	32	5	141	5	POLB	8	42202482	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	30158486	42202482	104161540	146	92354											
ST18	9705	broad.mit.edu	37	chr8	53062442	53062442	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggagttggaatagaagtGttagaggaagttaggggtgc	13	9	18	1	0	0	2	0	0	0	2	0	6	0	5	0	5	1	3	0	5	7	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:53062442G>T	uc003xqz.2	-	11	2058	c.1902C>A	c.(1900-1902)AAC>AAA	p.N634K	ST18_uc011ldq.1_Missense_Mutation_p.N281K|ST18_uc011ldr.1_Missense_Mutation_p.N599K|ST18_uc011lds.1_Missense_Mutation_p.N539K|ST18_uc003xra.2_Missense_Mutation_p.N634K|ST18_uc003xrb.2_Missense_Mutation_p.N634K	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	634						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				GAATAGAAGTGTTAGAGGAAG	0.453													11	86					4.3838e-07	4.71259e-07	0.105934	1	0		T	53062442	T	T	53062442	3	4	185	1	0	0	0	0	1	0	0	0	15237	1368	48	5	1285	5	ST18	8	53062442	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	10859960	53062442	93301580	147	92355											
RRS1	23212	broad.mit.edu	37	chr8	67342340	67342340	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctgggggcaagaggaaagGgggcccgcccagccagggag	9	1	20	11	1	0	1	0	0	0	1	0	3	0	3	4	6	1	1	4	6	2	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:67342340G>C	uc003xwa.2	+	1	1078	c.974G>C	c.(973-975)GGG>GCG	p.G325A	ADHFE1_uc003xwb.3_5'Flank|ADHFE1_uc003xwd.3_5'Flank|ADHFE1_uc003xwc.3_5'Flank|ADHFE1_uc003xwe.3_5'Flank|ADHFE1_uc003xwf.3_5'Flank|ADHFE1_uc011les.1_5'Flank|ADHFE1_uc011leq.1_5'Flank|ADHFE1_uc011ler.1_5'Flank	NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	325	Arg/Gly/Lys-rich.				mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		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)			AAGAGGAAAGGGGGCCCGCCC	0.642													23	33					0	0	0.069288	0	0		C	67342340	C	C	67342340	3	2	185	1	0	0	0	0	1	0	0	0	13717	1232	43	5	976	5	RRS1	8	67342340	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	14279898	67342340	79021682	148	92356											
STK3	6788	broad.mit.edu	37	chr8	99761538	99761538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atctaattatgtctgagacaGagccagcgccacagtactcc	12	9	8	12	1	2	2	0	1	2	2	3	3	3	2	3	0	3	1	3	0	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:99761538G>A	uc003yip.2	-	4	458	c.317C>T	c.(316-318)TCT>TTT	p.S106F	STK3_uc003yio.2_Missense_Mutation_p.S134F|STK3_uc010mbm.1_Missense_Mutation_p.S106F	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	106	Protein kinase.				apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		GTCTGAGACAGAGCCAGCGCC	0.318													43	98					0	0	0.139131	0	0		A	99761538	A	A	99761538	3	1	185	1	0	0	0	0	1	0	0	0	15320	942	33	4	1190	4	STK3	8	99761538	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	32419198	99761538	46602484	149	92357											
TRPS1	7227	broad.mit.edu	37	chr8	116616365	116616373	+	In_Frame_Del	DEL	AGAGTGCAC	-	-																															aggagacaagtgcagaagcaAgagtgcacagtgggaacaat																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:116616365_116616373delAGAGTGCAC	uc003ynz.2	-	3	2243_2251	c.1784_1792delGTGCACTCT	c.(1783-1794)TGTGCACTCTTG>TTG	p.CAL595del	TRPS1_uc011lhy.1_In_Frame_Del_p.CAL599del|TRPS1_uc003yny.2_In_Frame_Del_p.CAL608del|TRPS1_uc010mcy.2_In_Frame_Del_p.CAL595del	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	595_597					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGCAGAAGCAAGAGTGCACAGTGGGAACA	0.483									Langer-Giedion_syndrome				30	55	---	---	---	---						.	-	116616373	-	-	116616365	7	5	185	1	0	1	0	1	0	0	0	0	16619	69	3	0	2069	0	TRPS1	8	116616365	In_Frame_Del	DEL	AGAGTGCAC	TCGA-D7-A4YT-01A-11D-A25D-08	16854827	116616365	29747657	150	92358											
ZHX2	22882	broad.mit.edu	37	chr8	123966231	123966231	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactggctgaatcagactcCgactgcgtccctgcagaggc	9	7	12	13	2	1	3	1	1	0	2	3	5	3	3	2	2	3	2	2	2	2	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:123966231C>T	uc003ypk.1	+	3	3048	c.2481C>T	c.(2479-2481)TCC>TCT	p.S827S		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	827						cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AATCAGACTCCGACTGCGTCC	0.587													20	41					0	0	0.076483	0	0		T	123966231	T	T	123966231	2	4	185	1	0	0	0	0	0	0	0	1	17701	639	23	1		1	ZHX2	8	123966231	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	7349866	123966231	22397791	151	92359											
FAM83A	84985	broad.mit.edu	37	chr8	124219604	124219604	+	Missense_Mutation	SNP	T	G	G	0	1	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	agcagcagtggctccgccagTgaccgcacgtcctccaaccc	8	5	10	18	3	0	1	0	1	0	0	3	1	3	1	6	1	3	4	6	1	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:124219604T>G	uc003ypv.2	+	5	2995	c.981T>G	c.(979-981)AGT>AGG	p.S327R	FAM83A_uc003ypw.2_Missense_Mutation_p.S327R|FAM83A_uc003ypy.2_Missense_Mutation_p.S271R|FAM83A_uc003ypx.2_Missense_Mutation_p.S327R|FAM83A_uc003ypz.2_Missense_Mutation_p.S327R	NM_032899	NP_116288	Q86UY5	FA83A_HUMAN	hypothetical protein LOC84985 isoform a	327	Ser-rich.									ovary(3)|skin(1)	4	Lung NSC(37;1.55e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GCTCCGCCAGTGACCGCACGT	0.731													4	56					0	0	0.014758	0	0		G	124219604	G	G	124219604	3	3	185	1	0	0	0	0	1	0	0	0	5647	1693	59	5	995	5	FAM83A	8	124219604	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	253373	124219604	22144418	152	92360											
ATAD2	29028	broad.mit.edu	37	chr8	124359446	124359446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttcacaacggtggacagtgCctgcccaggtgatgtcacag	9	9	12	11	1	2	1	2	1	0	0	2	2	2	2	2	3	3	0	2	3	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:124359446C>T	uc003yqh.3	-	16	2206	c.2098G>A	c.(2098-2100)GCA>ACA	p.A700T	ATAD2_uc011lii.1_Missense_Mutation_p.A491T|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.A700T	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	700					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			GTGGACAGTGCCTGCCCAGGT	0.438													46	157					0	0	0.139131	0	0		T	124359446	T	T	124359446	3	4	185	1	0	0	0	0	1	0	0	0	1072	739	26	2	2126	2	ATAD2	8	124359446	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	139842	124359446	22004576	153	92361											
TG	7038	broad.mit.edu	37	chr8	133980211	133980211	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaggccctgttccggaaGaaaggtgagcacttggagag	12	6	14	9	1	0	3	0	1	0	2	1	5	1	4	3	4	1	2	3	4	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:133980211G>T	uc003ytw.2	+	31	5900	c.5859G>T	c.(5857-5859)AAG>AAT	p.K1953N	TG_uc010mdw.2_Missense_Mutation_p.K712N|TG_uc011ljb.1_Missense_Mutation_p.K322N|TG_uc011ljc.1_Missense_Mutation_p.K107N|TG_uc010mdx.1_RNA	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1953	Type IIIA.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TGTTCCGGAAGAAAGGTGAGC	0.473													7	49					0.00198382	0.00202036	0.02938	1	0		T	133980211	T	T	133980211	3	4	185	1	0	0	0	0	1	0	0	0	15838	933	33	5	5981	5	TG	8	133980211	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	9620765	133980211	12383811	154	92362											
ZC3H3	23144	broad.mit.edu	37	chr8	144620387	144620387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaagaggaggaggcagaggGgctggaggccttccacttgt	9	6	19	7	0	0	2	0	0	0	2	1	6	1	6	2	8	0	2	2	8	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr8:144620387G>A	uc003yyd.2	-	2	1179	c.1150C>T	c.(1150-1152)CCC>TCC	p.P384S		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	384	Poly-Ser.				mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	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)			GAGGCAGAGGGGCTGGAGGCC	0.657													37	116					0	0	0.104719	0	0		A	144620387	A	A	144620387	3	1	185	1	0	0	0	0	1	0	0	0	17594	1232	43	4	1740	4	ZC3H3	8	144620387	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	10640176	144620387	1743635	155	92363											
CDC37L1	55664	broad.mit.edu	37	chr9	4697116	4697116	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtatgttgagtcgatgggatGatagccagagatttttgtct	9	15	13	4	1	1	3	0	2	1	1	2	6	1	4	1	1	1	2	1	1	2	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:4697116G>C	uc003zio.2	+	4	739	c.529G>C	c.(529-531)GAT>CAT	p.D177H		NM_017913	NP_060383	Q7L3B6	CD37L_HUMAN	cell division cycle 37 homolog (S.	177	Self-association and interaction with Hsp90.					cytoplasm					0	all_hematologic(13;0.137)	Breast(48;0.238)		GBM - Glioblastoma multiforme(50;0.0318)		TCGATGGGATGATAGCCAGAG	0.343													28	79					0	0	0.144211	0	0		C	4697116	C	C	4697116	3	2	185	1	0	0	0	0	1	0	0	0	3072	1290	45	5	543	5	CDC37L1	9	4697116	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		4697116	136516315	156	92364											
RANBP6	26953	broad.mit.edu	37	chr9	6013104	6013104	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcatcctcatcttgcagaGacatctcaacctgttgatca	11	13	5	12	0	5	2	4	1	2	1	7	3	6	2	2	0	2	2	2	0	1	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:6013104G>C	uc003zjr.2	-	1	2515	c.2504C>G	c.(2503-2505)TCT>TGT	p.S835C	RANBP6_uc011lmf.1_Missense_Mutation_p.S483C|RANBP6_uc003zjs.2_Missense_Mutation_p.S423C	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	835	Potential.				protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		ATCTTGCAGAGACATCTCAAC	0.348													91	107					0	0	0.139131	0	0		C	6013104	C	C	6013104	3	2	185	1	0	0	0	0	1	0	0	0	13056	942	33	5	817	5	RANBP6	9	6013104	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1315988	6013104	135200327	157	92365											
SH3GL2	6456	broad.mit.edu	37	chr9	17795579	17795579	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgctgccgagctctgtaCgactttgaacctgaaaatga	10	10	9	12	2	1	3	0	3	1	0	1	5	1	3	3	0	5	3	3	0	4	2	rs143422821		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:17795579C>T	uc003zna.2	+	9	1185	c.897C>T	c.(895-897)TAC>TAT	p.Y299Y	SH3GL2_uc011lmy.1_Silent_p.Y252Y	NM_003026	NP_003017	Q99962	SH3G2_HUMAN	SH3-domain GRB2-like 2	299	SH3.				axon guidance|central nervous system development|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport	cytosol|Golgi membrane|plasma membrane	identical protein binding|lipid binding			skin(1)	1				GBM - Glioblastoma multiforme(50;2.71e-10)|Lung(42;0.203)		GAGCTCTGTACGACTTTGAAC	0.463													14	11					0	0	0.146539	0	0		T	17795579	T	T	17795579	2	4	185	1	0	0	0	0	0	0	0	1	14276	547	19	1		1	SH3GL2	9	17795579	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	11782475	17795579	123417852	158	92366											
GRIN3A	116443	broad.mit.edu	37	chr9	104433073	104433073	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggggtctagacagagttGgccagcagggcacaagcctt	10	7	14	10	0	1	2	0	0	1	2	1	2	1	2	2	4	2	3	2	4	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:104433073G>T	uc004bbp.1	-	3	2222	c.1621C>A	c.(1621-1623)CAA>AAA	p.Q541K	GRIN3A_uc004bbq.1_Missense_Mutation_p.Q541K	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	541	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	AGACAGAGTTGGCCAGCAGGG	0.458													56	42					4.17463e-26	4.95577e-26	0.139131	1	0		T	104433073	T	T	104433073	3	4	185	1	0	0	0	0	1	0	0	0	6799	1357	47	5	1754	5	GRIN3A	9	104433073	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	86637494	104433073	36780358	159	92367											
PTGR1	22949	broad.mit.edu	37	chr9	114348359	114348359	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcttttccagatctttcCcatcagaaatggagtgcgtt	9	13	9	10	1	2	2	1	0	1	2	4	3	4	3	2	1	2	3	2	1	1	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:114348359C>G	uc004bfh.2	-	5	399	c.296G>C	c.(295-297)GGG>GCG	p.G99A	PTGR1_uc011lwr.1_Missense_Mutation_p.G99A|PTGR1_uc004bfi.3_Missense_Mutation_p.G99A|PTGR1_uc004bfj.3_5'UTR|PTGR1_uc010mue.2_Missense_Mutation_p.G99A	NM_012212	NP_036344	Q14914	PTGR1_HUMAN	prostaglandin reductase 1 isoform 1	99					leukotriene metabolic process	cytoplasm	15-oxoprostaglandin 13-oxidase activity|2-alkenal reductase activity|alcohol dehydrogenase (NAD) activity|zinc ion binding				0						CAGATCTTTCCCATCAGAAAT	0.463													42	121					0	0	0.139131	0	0		G	114348359	G	G	114348359	3	3	185	1	0	0	0	0	1	0	0	0	12776	623	22	5	748	5	PTGR1	9	114348359	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	9915286	114348359	26865072	160	92368											
PHF19	26147	broad.mit.edu	37	chr9	123620386	123620386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggacagggatgagtcatcttCactgatgctctcaaatgtgt	10	12	11	8	0	4	2	3	2	2	0	5	4	4	4	0	2	1	1	0	2	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:123620386C>T	uc004bks.1	-	15	1832	c.1579G>A	c.(1579-1581)GAA>AAA	p.E527K	PHF19_uc011lyf.1_Missense_Mutation_p.E318K|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	527					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						GAGTCATCTTCACTGATGCTC	0.587													42	64					0	0	0.131918	0	0		T	123620386	T	T	123620386	3	4	185	1	0	0	0	0	1	0	0	0	11848	835	29	4	167	4	PHF19	9	123620386	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	9272027	123620386	17593045	161	92369											
PHF19	26147	broad.mit.edu	37	chr9	123620439	123620439	+	Missense_Mutation	SNP	A	T	T	1	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	cttcgtctggccgctcggggActgaagccccctctgcactg	4	9	12	16	3	2	1	0	1	2	0	4	2	2	2	3	3	2	2	3	3	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:123620439A>T	uc004bks.1	-	15	1779	c.1526T>A	c.(1525-1527)GTC>GAC	p.V509D	PHF19_uc011lyf.1_Missense_Mutation_p.V300D|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	509					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						CCGCTCGGGGACTGAAGCCCC	0.592													26	39					0	0	0.116897	0	0		T	123620439	T	T	123620439	3	4	185	1	0	0	0	0	1	0	0	0	11848	275	10	5	220	5	PHF19	9	123620439	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	53	123620439	17592992	162	92370											
LHX2	9355	broad.mit.edu	37	chr9	126794769	126794769	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaaacacgggcgtggacaAgtcgacagacgcggcgctgc	11	3	16	11	6	0	1	0	0	0	1	1	4	0	3	0	4	2	1	0	4	3	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:126794769A>T	uc004boe.1	+	5	1743	c.1004A>T	c.(1003-1005)AAG>ATG	p.K335M	LHX2_uc010mwi.1_Missense_Mutation_p.K343M	NM_004789	NP_004780	P50458	LHX2_HUMAN	LIM homeobox protein 2	335						nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGCGTGGACAAGTCGACAGAC	0.672													62	21					0	0	0.139131	0	0		T	126794769	T	T	126794769	3	4	185	1	0	0	0	0	1	0	0	0	8787	72	3	5	1022	5	LHX2	9	126794769	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	3174330	126794769	14418662	163	92371											
MAPKAP1	79109	broad.mit.edu	37	chr9	128246724	128246724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgctcacacacttacctAgctgtacgtcggttgtgaat	9	12	8	12	2	1	1	1	1	0	0	2	1	1	1	2	1	4	4	2	1	4	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:128246724A>G	uc004bpv.2	-	9	1538	c.1205T>C	c.(1204-1206)CTA>CCA	p.L402P	MAPKAP1_uc011lzt.1_Missense_Mutation_p.L205P|MAPKAP1_uc010mwz.2_RNA|MAPKAP1_uc011lzu.1_Missense_Mutation_p.L205P|MAPKAP1_uc011lzv.1_Missense_Mutation_p.L110P|MAPKAP1_uc004bpw.2_Missense_Mutation_p.L210P|MAPKAP1_uc004bpx.2_Missense_Mutation_p.L210P|MAPKAP1_uc004bpy.2_Missense_Mutation_p.L366P|MAPKAP1_uc004bpz.2_Intron|MAPKAP1_uc010mxa.2_RNA	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	402					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						ACACTTACCTAGCTGTACGTC	0.448													36	46					0	0	0.09836	0	0		G	128246724	G	G	128246724	3	3	185	1	0	0	0	0	1	0	0	0	9306	420	15	3	379	3	MAPKAP1	9	128246724	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	1451955	128246724	12966707	164	92372											
CERCAM	51148	broad.mit.edu	37	chr9	131186865	131186865	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctttcgacgacatcatCgtcttcgcctatgcctgcca	6	12	8	15	4	2	0	1	0	1	0	5	2	2	0	4	1	2	0	4	1	1	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:131186865C>A	uc004buz.3	+	5	1136	c.738C>A	c.(736-738)ATC>ATA	p.I246I	CERCAM_uc004buy.1_Silent_p.I168I|CERCAM_uc010mxz.2_Silent_p.I168I|CERCAM_uc010mya.1_Silent_p.I87I	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	246					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						ACGACATCATCGTCTTCGCCT	0.473													65	100					3.00167e-28	3.5743e-28	0.139131	1	0		A	131186865	A	A	131186865	2	1	185	1	0	0	0	0	0	0	0	1	3269	874	31	5		5	CERCAM	9	131186865	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2940141	131186865	10026566	165	92373											
GTF3C5	9328	broad.mit.edu	37	chr9	135932246	135932246	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagaccagcgacgagctcagGgacaccatgtccctcatgat	12	6	10	13	2	2	2	2	1	0	1	3	5	3	3	3	1	2	1	3	1	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:135932246G>A	uc004cci.3	+	10	1681	c.1344G>A	c.(1342-1344)AGG>AGA	p.R448R	GTF3C5_uc004ccj.3_Silent_p.R455R	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	448						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		ACGAGCTCAGGGACACCATGT	0.597													18	189					0	0	0.043863	0	0		A	135932246	A	A	135932246	2	1	185	1	0	0	0	0	0	0	0	1	6892	1223	43	4		4	GTF3C5	9	135932246	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	4745381	135932246	5281185	166	92374											
FCN2	2220	broad.mit.edu	37	chr9	137778399	137778399	+	Missense_Mutation	SNP	A	T	T	1	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	ggtcctgggggccttcgtggAgggcagtgcgggtgagtgtc	3	9	21	8	2	0	1	0	1	0	0	3	2	1	2	2	6	1	1	2	6	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:137778399A>T	uc004cfg.1	+	7	693	c.683A>T	c.(682-684)GAG>GTG	p.E228V	FCN2_uc004cfh.1_Missense_Mutation_p.E190V	NM_004108	NP_004099	Q15485	FCN2_HUMAN	ficolin 2 isoform a precursor	228	Fibrinogen C-terminal.				complement activation, lectin pathway|opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|calcium-dependent protein binding|receptor binding|sugar binding			large_intestine(1)	1		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.58e-08)|Epithelial(140;6.41e-08)|all cancers(34;3.96e-07)		GCCTTCGTGGAGGGCAGTGCG	0.557													35	211					0	0	0.092188	0	0		T	137778399	T	T	137778399	3	4	185	1	0	0	0	0	1	0	0	0	5806	304	11	5	709	5	FCN2	9	137778399	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	1846153	137778399	3435032	167	92375											
CAMSAP1	157922	broad.mit.edu	37	chr9	138712788	138712788	+	Missense_Mutation	SNP	T	G	G	0	1	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	cctcgtcgggggccttcaggTcggagaggtccacttcaatg	6	9	14	12	3	2	1	2	0	0	1	6	2	3	1	3	5	0	0	3	5	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:138712788T>G	uc004cgr.3	-	11	3719	c.3719A>C	c.(3718-3720)GAC>GCC	p.D1240A	CAMSAP1_uc004cgq.3_Missense_Mutation_p.D1130A|CAMSAP1_uc010nbg.2_Missense_Mutation_p.D962A	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1240						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GGCCTTCAGGTCGGAGAGGTC	0.642													12	61					0	0	0.080935	0	0		G	138712788	G	G	138712788	3	3	185	1	0	0	0	0	1	0	0	0	2614	1667	58	5	1117	5	CAMSAP1	9	138712788	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	934389	138712788	2500643	168	92376											
UBAC1	10422	broad.mit.edu	37	chr9	138825266	138825266	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacgtgcgatttagtgtctGgaagattctagagatctgca	10	13	11	7	2	3	2	0	0	3	2	3	5	3	3	0	1	3	1	0	1	4	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:138825266G>A	uc004cgt.2	-	10	1416	c.1198C>T	c.(1198-1200)CAG>TAG	p.Q400*	UBAC1_uc004cgs.1_Intron|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	400						Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		TTTAGTGTCTGGAAGATTCTA	0.572													40	225					0	0	0.124865	0	0		A	138825266	A	A	138825266	4	1	185	1	0	0	0	0	0	1	0	0	16860	1357	47	4	23	4	UBAC1	9	138825266	Nonsense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	112478	138825266	2388165	169	92377											
MAN1B1	11253	broad.mit.edu	37	chr9	139995507	139995507	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaagttacactttgaaaagGacgtggacgtcaacctgttt	13	11	10	7	2	1	2	1	1	0	1	1	4	1	4	1	2	2	2	1	2	5	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:139995507G>T	uc004cld.2	+	7	1002	c.967G>T	c.(967-969)GAC>TAC	p.D323Y	MAN1B1_uc004clc.2_Missense_Mutation_p.D224Y|MAN1B1_uc011meo.1_Missense_Mutation_p.D224Y|MAN1B1_uc011mep.1_Missense_Mutation_p.D323Y|MAN1B1_uc010ncc.2_RNA|MAN1B1_uc004clf.1_5'Flank	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	323	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		CTTTGAAAAGGACGTGGACGT	0.512													16	157					8.34094e-07	8.8924e-07	0.049695	1	0		T	139995507	T	T	139995507	3	4	185	1	0	0	0	0	1	0	0	0	9230	1174	41	5	993	5	MAN1B1	9	139995507	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1170241	139995507	1217924	170	92378											
PNPLA7	375775	broad.mit.edu	37	chr9	140435144	140435144	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggacgctgtctcccgccaGaacctctttcaccaccacct	7	9	7	18	2	3	1	1	0	2	1	4	2	3	2	6	1	1	1	6	1	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr9:140435144G>A	uc004cnf.2	-	7	959	c.622C>T	c.(622-624)CTG>TTG	p.L208L	PNPLA7_uc010ncj.1_Silent_p.L233L	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	208	cNMP 1.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		TCTCCCGCCAGAACCTCTTTC	0.701													6	36					0	0	0.021553	0	0		A	140435144	A	A	140435144	2	1	185	1	0	0	0	0	0	0	0	1	12189	933	33	4		4	PNPLA7	9	140435144	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	439637	140435144	778287	171	92379											
NEBL	10529	broad.mit.edu	37	chr10	21101759	21101759	+	Silent	SNP	A	C	C	1	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	gggtggacccctttataggcAgcatcgctgaccacctgggt	7	9	13	12	1	0	1	0	1	0	0	1	2	0	2	4	4	1	3	4	4	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:21101759A>C	uc001iqi.2	-	24	2854	c.2457T>G	c.(2455-2457)GCT>GCG	p.A819A	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Silent_p.A156A	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	819	Nebulin 23.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CTTTATAGGCAGCATCGCTGA	0.527													5	51					0	0	0.014758	0	0		C	21101759	C	C	21101759	2	2	185	1	0	0	0	0	0	0	0	1	10322	175	7	5		5	NEBL	10	21101759	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08		21101759	114432988	172	92380											
YME1L1	10730	broad.mit.edu	37	chr10	27412510	27412510	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacggctggctcccacaccCacaaacatctcatcaaattc	13	8	4	16	1	2	0	2	0	1	0	5	0	3	0	2	2	2	2	2	2	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:27412510C>G	uc001iti.2	-	11	1421	c.1239G>C	c.(1237-1239)GTG>GTC	p.V413V	YME1L1_uc001itj.2_Silent_p.V356V|YME1L1_uc010qdl.1_Silent_p.V323V|YME1L1_uc009xkv.2_Intron	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	413					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						CTCCCACACCCACAAACATCT	0.443													54	119					0	0	0.139131	0	0		G	27412510	G	G	27412510	2	3	185	1	0	0	0	0	0	0	0	1	17513	581	21	5		5	YME1L1	10	27412510	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6310751	27412510	108122237	173	92381											
GPRIN2	9721	broad.mit.edu	37	chr10	46999887	46999887	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgtcagcccaggatgctgGtgtgcaggcggccccagtgg	5	7	17	12	1	1	0	1	0	0	0	1	1	1	1	3	5	3	3	3	5	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:46999887G>T	uc001jec.2	+	3	1142	c.1007G>T	c.(1006-1008)GGT>GTT	p.G336V	GPRIN2_uc010qfq.1_Missense_Mutation_p.G99V	NM_014696	NP_055511	O60269	GRIN2_HUMAN	G protein-regulated inducer of neurite outgrowth	336											0						CAGGATGCTGGTGTGCAGGCG	0.647													16	71					4.7546e-09	5.15415e-09	0.146539	1	0		T	46999887	T	T	46999887	3	4	185	1	0	0	0	0	1	0	0	0	6746	1261	44	5	1009	5	GPRIN2	10	46999887	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	19587377	46999887	88534860	174	92382											
OGDHL	55753	broad.mit.edu	37	chr10	50948874	50948874	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctggtcatggagaacatgGtgccggtgactgcagagaca	10	8	14	9	1	1	3	1	1	0	2	2	5	2	3	2	4	3	1	2	4	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:50948874G>T	uc001jie.2	-	16	2164	c.2022C>A	c.(2020-2022)CAC>CAA	p.H674Q	OGDHL_uc009xog.2_Missense_Mutation_p.H701Q|OGDHL_uc010qgt.1_Missense_Mutation_p.H617Q|OGDHL_uc010qgu.1_Missense_Mutation_p.H465Q	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	674					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GGAGAACATGGTGCCGGTGAC	0.637													27	57					1.88708e-17	2.16707e-17	0.134883	1	0		T	50948874	T	T	50948874	3	4	185	1	0	0	0	0	1	0	0	0	10859	1252	44	5	1042	5	OGDHL	10	50948874	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3948987	50948874	84585873	175	92383											
NDUFB8	4714	broad.mit.edu	37	chr10	102289218	102289218	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggcggcccgttcttctgggGtcctaggatagggccccggg	3	8	17	13	4	2	0	0	0	2	0	3	1	3	1	4	7	0	1	4	7	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:102289218G>T	uc001kri.1	-	2	159	c.131C>A	c.(130-132)ACC>AAC	p.T44N	SEC31B_uc009xwo.1_5'UTR|SEC31B_uc010qpq.1_5'UTR|SEC31B_uc010qpr.1_RNA	NM_005004	NP_004995	O95169	NDUB8_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	44				T -> I (in Ref. 4 and 5).	mitochondrial electron transport, NADH to ubiquinone|transport	endoplasmic reticulum|integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0		Colorectal(252;0.234)		Epithelial(162;5.68e-10)|all cancers(201;4.05e-08)	NADH(DB00157)	TTCTTCTGGGGTCCTAGGATA	0.582													66	50					8.13855e-26	9.63186e-26	0.139131	1	0		T	102289218	T	T	102289218	3	4	185	1	0	0	0	0	1	0	0	0	10306	1261	44	5	445	5	NDUFB8	10	102289218	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	51340344	102289218	33245529	176	92384											
PPRC1	23082	broad.mit.edu	37	chr10	103899167	103899167	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagcagctggtgatgagaGcatctcctccctgagtgagc	8	8	13	12	0	1	4	0	4	1	1	3	5	2	4	3	1	4	3	3	1	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:103899167G>C	uc001kum.2	+	5	941	c.902G>C	c.(901-903)AGC>ACC	p.S301T	PPRC1_uc001kun.2_Missense_Mutation_p.S181T|PPRC1_uc010qqj.1_Missense_Mutation_p.S301T|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	301					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GGTGATGAGAGCATCTCCTCC	0.587													33	82					0	0	0.050027	0	0		C	103899167	C	C	103899167	3	2	185	1	0	0	0	0	1	0	0	0	12432	971	34	5	920	5	PPRC1	10	103899167	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1609949	103899167	31635580	177	92385											
SORCS3	22986	broad.mit.edu	37	chr10	107005390	107005390	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggctgctgggaatgccCtcatccaggacacaaaagag	12	6	13	10	0	1	1	1	0	0	1	2	3	2	3	2	4	2	2	2	4	3	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:107005390C>A	uc001kyi.1	+	21	3186	c.2959C>A	c.(2959-2961)CTC>ATC	p.L987I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	987	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TGGGAATGCCCTCATCCAGGA	0.498													13	108					5.50884e-06	5.77756e-06	0.09319	1	0		A	107005390	A	A	107005390	3	1	185	1	0	0	0	0	1	0	0	0	14957	681	24	5	3041	5	SORCS3	10	107005390	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3106223	107005390	28529357	178	92386											
GPAM	57678	broad.mit.edu	37	chr10	113933596	113933596	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccacttctgcaattgcctCttgtactctggtatgaaaat	10	14	7	10	0	3	1	0	1	3	0	3	1	3	1	2	1	4	3	2	1	5	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:113933596C>A	uc009xxy.1	-	7	619	c.421G>T	c.(421-423)GAG>TAG	p.E141*	GPAM_uc001kzp.2_Nonsense_Mutation_p.E141*|GPAM_uc001kzq.1_Nonsense_Mutation_p.E141*	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	141					phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		GCAATTGCCTCTTGTACTCTG	0.363													30	72					1.45844e-13	1.64074e-13	0.054565	1	0		A	113933596	A	A	113933596	4	1	185	1	0	0	0	0	0	1	0	0	6603	922	32	5	2129	5	GPAM	10	113933596	Nonsense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6928206	113933596	21601151	179	92387											
DOCK1	1793	broad.mit.edu	37	chr10	129237406	129237406	+	Missense_Mutation	SNP	A	C	C	1	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	agaaggaaaaaaggaacagcAaacatcaagagatatttgag	22	5	10	4	0	1	3	1	1	0	2	1	6	1	5	0	2	3	1	0	2	8	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr10:129237406A>C	uc001ljt.2	+	49	5177	c.5113A>C	c.(5113-5115)AAA>CAA	p.K1705Q	DOCK1_uc010qun.1_Missense_Mutation_p.K1726Q|DOCK1_uc009yaq.2_Missense_Mutation_p.K700Q	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1705					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		aaggaaCAGCAAACATCAAGA	0.388													5	16					0	0	0.014758	0	0		C	129237406	C	C	129237406	3	2	185	1	0	0	0	0	1	0	0	0	4690	131	5	5	5307	5	DOCK1	10	129237406	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	15303810	129237406	6297341	180	92388											
OR51G2	81282	broad.mit.edu	37	chr11	4936194	4936194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaatctctcagccctggaggCgatggacagcacggtgcgca	9	6	14	12	3	2	0	1	0	1	0	3	4	2	2	1	4	3	2	1	4	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:4936194C>T	uc001lzr.1	-	1	700	c.700G>A	c.(700-702)GCC>ACC	p.A234T		NM_001005238	NP_001005238	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		GCCCTGGAGGCGATGGACAGC	0.522													5	52					0	0	0.014758	0	0		T	4936194	T	T	4936194	3	4	185	1	0	0	0	0	1	0	0	0	11118	768	27	1	248	1	OR51G2	11	4936194	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08		4936194	130070322	181	92389											
EIF3F	8665	broad.mit.edu	37	chr11	8009235	8009235	+	Silent	SNP	T	G	G	0	1	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	tacgagagacgcaacgagggTgctgcccgagttatcgggac	10	6	15	10	5	0	1	0	0	0	1	1	6	0	2	1	2	4	3	1	2	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:8009235T>G	uc001mfw.2	+	1	369	c.336T>G	c.(334-336)GGT>GGG	p.G112G	EIF3F_uc010rbj.1_5'UTR	NM_003754	NP_003745	O00303	EIF3F_HUMAN	eukaryotic translation initiation factor 3,	112	MPN.					cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			lung(1)	1				Epithelial(150;1.44e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GCAACGAGGGTGCTGCCCGAG	0.557											OREG0020726	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	29					0	0	0.058154	0	0		G	8009235	G	G	8009235	2	3	185	1	0	0	0	0	0	0	0	1	5024	1683	59	5		5	EIF3F	11	8009235	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	3073041	8009235	126997281	182	92390											
RCN1	5954	broad.mit.edu	37	chr11	32124954	32124972	+	Frame_Shift_Del	DEL	GATCCTCCCTCAAGATTAT	-	-																															aaagatgagattcgccactgGatcctccctcaagattatga																								rs139483311	byFrequency	TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:32124954_32124972delGATCCTCCCTCAAGATTAT	uc010reb.1	+	5	1082_1100	c.816_834delGATCCTCCCTCAAGATTAT	c.(814-834)TGGATCCTCCCTCAAGATTATfs	p.W272fs	RCN1_uc010rea.1_Frame_Shift_Del_p.W221fs|RCN1_uc001mtk.2_Frame_Shift_Del_p.W106fs	NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor	272_278	EF-hand 5.					endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					TTCGCCACTGGATCCTCCCTCAAGATTATGATCATGCAC	0.461													27	48	---	---	---	---						.	-	32124972	-	-	32124954	7	5	185	1	0	1	0	1	0	0	0	0	13204	1183	41	0	834	0	RCN1	11	32124954	Frame_Shift_Del	DEL	GATCCTCCCTCAAGATTAT	TCGA-D7-A4YT-01A-11D-A25D-08	24115719	32124954	102881562	183	92391											
C11orf84	144097	broad.mit.edu	37	chr11	63585493	63585493	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacatcttggagcagcaccCtcacaccttggacctgagcc	9	7	9	16	0	2	1	1	1	1	0	2	3	2	3	4	2	3	3	4	2	0	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:63585493C>G	uc001nxt.2	+	2	580	c.344C>G	c.(343-345)CCT>CGT	p.P115R		NM_138471	NP_612480	Q9BUA3	CK084_HUMAN	hypothetical protein LOC144097	115											0						GAGCAGCACCCTCACACCTTG	0.642													35	53					0	0	0.054565	0	0		G	63585493	G	G	63585493	3	3	185	1	0	0	0	0	1	0	0	0	1670	681	24	5	350	5	C11orf84	11	63585493	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	31460539	63585493	71421023	184	92392											
FAT3	120114	broad.mit.edu	37	chr11	92085453	92085453	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatgagaactcagcagcaAggacctacgtcaacagccag	14	6	10	11	1	2	1	2	1	0	1	2	3	2	2	2	1	6	3	2	1	5	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:92085453A>T	uc001pdj.3	+	1	192	c.175A>T	c.(175-177)AGG>TGG	p.R59W		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	59	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CTCAGCAGCAAGGACCTACGT	0.493										TCGA Ovarian(4;0.039)			24	30					0	0	0.076483	0	0		T	92085453	T	T	92085453	3	4	185	1	0	0	0	0	1	0	0	0	5705	63	3	5	177	5	FAT3	11	92085453	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	28499960	92085453	42921063	185	92393											
USP28	57646	broad.mit.edu	37	chr11	113704991	113704991	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgacttcgacaattttCaagtacattttgtggcagac	11	15	8	7	1	1	2	1	1	0	1	2	3	1	2	0	1	1	3	0	1	4	7			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:113704991C>A	uc001poh.2	-	6	634	c.601G>T	c.(601-603)GAA>TAA	p.E201*	USP28_uc010rwy.1_Nonsense_Mutation_p.E76*|USP28_uc001poi.2_5'UTR|USP28_uc001poj.3_Nonsense_Mutation_p.E201*|USP28_uc010rwz.1_Nonsense_Mutation_p.E201*	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	201					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		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)		CGACAATTTTCAAGTACATTT	0.368													19	20					4.96729e-08	5.35471e-08	0.049695	1	0		A	113704991	A	A	113704991	4	1	185	1	0	0	0	0	0	1	0	0	17084	835	29	5	2712	5	USP28	11	113704991	Nonsense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	21619538	113704991	21301525	186	92394											
DSCAML1	57453	broad.mit.edu	37	chr11	117335803	117335803	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccccgtggccttcatctcCacgatgctgtactgcccgtt	4	12	8	17	3	2	0	1	0	1	0	4	1	3	0	5	1	3	3	5	1	1	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:117335803C>A	uc001prh.1	-	17	3302	c.3300G>T	c.(3298-3300)GTG>GTT	p.V1100V		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1040	Extracellular (Potential).|Fibronectin type-III 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CCTTCATCTCCACGATGCTGT	0.602													36	37					1.22674e-20	1.42997e-20	0.104719	1	0		A	117335803	A	A	117335803	2	1	185	1	0	0	0	0	0	0	0	1	4775	581	21	5		5	DSCAML1	11	117335803	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3630812	117335803	17670713	187	92395											
TRAPPC4	51399	broad.mit.edu	37	chr11	118889967	118889967	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taattacccggtgtccattcGatttggccggccccgcctca	6	11	9	15	4	1	0	1	0	0	0	3	1	2	0	6	3	1	0	6	3	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:118889967G>T	uc010ryo.1	+	2	555	c.290G>T	c.(289-291)CGA>CTA	p.R97L	RPS25_uc001pun.2_5'Flank|TRAPPC4_uc010ryn.1_Missense_Mutation_p.R97L|TRAPPC4_uc010ryp.1_Intron|TRAPPC4_uc001pup.2_RNA|TRAPPC4_uc010ryq.1_Missense_Mutation_p.R97L	NM_016146	NP_057230	Q9Y296	TPPC4_HUMAN	trafficking protein particle complex 4	97					dendrite development|ER to Golgi vesicle-mediated transport	cis-Golgi network|dendrite|endoplasmic reticulum|Golgi stack|synaptic vesicle	protein binding				0	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)		GTGTCCATTCGATTTGGCCGG	0.557													37	23					9.85913e-13	1.0964e-12	0.11126	1	0		T	118889967	T	T	118889967	3	4	185	1	0	0	0	0	1	0	0	0	16487	1058	37	5	296	5	TRAPPC4	11	118889967	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1554164	118889967	16116549	188	92396											
C11orf63	79864	broad.mit.edu	37	chr11	122775027	122775027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccgggatcacgtggccctCggcgaaggaaatccaaacaa	12	5	12	12	4	1	0	1	0	0	0	3	3	2	2	3	4	2	0	3	4	4	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:122775027C>T	uc001pym.2	+	3	1036	c.739C>T	c.(739-741)CGG>TGG	p.R247W	C11orf63_uc001pyl.1_Missense_Mutation_p.R247W	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	247										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		ACGTGGCCCTCGGCGAAGGAA	0.478													8	108					0	0	0.038147	0	0		T	122775027	T	T	122775027	3	4	185	1	0	0	0	0	1	0	0	0	1657	875	31	1	745	1	C11orf63	11	122775027	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3885060	122775027	12231489	189	92397											
FAM118B	79607	broad.mit.edu	37	chr11	126110710	126110710	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcttccaagcttaaaaaCtaagaagcctcgagaacttg	14	9	8	10	1	0	2	0	0	0	2	2	3	1	2	2	0	5	3	2	0	7	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:126110710C>G	uc001qdf.2	+	4	293	c.110C>G	c.(109-111)ACT>AGT	p.T37S	FAM118B_uc009zca.2_Missense_Mutation_p.T41S|FAM118B_uc001qdg.2_Missense_Mutation_p.T37S	NM_024556	NP_078832	Q9BPY3	F118B_HUMAN	hypothetical protein LOC79607	37											0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0784)		AGCTTAAAAACTAAGAAGCCT	0.443													35	201					0	0	0.086207	0	0		G	126110710	G	G	126110710	3	3	185	1	0	0	0	0	1	0	0	0	5423	565	20	5	116	5	FAM118B	11	126110710	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3335683	126110710	8895806	190	92398											
GLB1L2	89944	broad.mit.edu	37	chr11	134240919	134240919	+	Silent	SNP	G	A	A	0	0	1	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	cagccaatcaagtctgaaaaGcccatcaacatggagaacct	16	6	7	12	0	3	2	2	1	1	1	3	3	3	2	3	1	4	0	3	1	6	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr11:134240919G>A	uc001qhp.2	+	13	1421	c.1233G>A	c.(1231-1233)AAG>AAA	p.K411K	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	411					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		AGTCTGAAAAGCCCATCAACA	0.562													53	117					0	0	0.139131	0	0		A	134240919	A	A	134240919	2	1	185	1	0	0	0	0	0	0	0	1	6444	962	34	2		2	GLB1L2	11	134240919	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	8130209	134240919	765597	191	92399											
MFAP5	8076	broad.mit.edu	37	chr12	8808404	8808404	+	Silent	SNP	T	G	G	0	1	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	ggatcttctgtgaatgtttcTggagtcgcttgagtcacatc	7	15	11	8	1	4	2	1	2	3	0	6	4	4	4	0	2	0	2	0	2	1	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:8808404T>G	uc001qut.1	-	4	330	c.117A>C	c.(115-117)CCA>CCC	p.P39P	MFAP5_uc001qus.2_Silent_p.P39P|MFAP5_uc009zge.1_Silent_p.P39P	NM_003480	NP_003471	Q13361	MFAP5_HUMAN	microfibrillar associated protein 5 precursor	39						microfibril	extracellular matrix structural constituent			breast(1)	1	Lung SC(5;0.184)					TGAATGTTTCTGGAGTCGCTT	0.343													46	30					0	0	0.139131	0	0		G	8808404	G	G	8808404	2	3	185	1	0	0	0	0	0	0	0	1	9536	1567	55	5		5	MFAP5	12	8808404	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08		8808404	125043491	192	92400											
CACNB3	784	broad.mit.edu	37	chr12	49221573	49221573	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	acacacctcggggctgcctaGtgctaacgggcatgaccccc	8	6	11	16	2	0	1	0	1	0	0	1	1	0	1	4	3	3	3	4	3	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:49221573G>C	uc001rsl.1	+	13	1547	c.1346G>C	c.(1345-1347)AGT>ACT	p.S449T	CACNB3_uc010sly.1_Missense_Mutation_p.S436T|CACNB3_uc010slz.1_Missense_Mutation_p.S448T|CACNB3_uc001rsk.1_Missense_Mutation_p.S296T	NM_000725	NP_000716	P54284	CACB3_HUMAN	calcium channel, voltage-dependent, beta 3	449					axon guidance|membrane depolarization|synaptic transmission	cytosol|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0					Verapamil(DB00661)	GGGCTGCCTAGTGCTAACGGG	0.622													30	55					0	0	0.059317	0	0		C	49221573	C	C	49221573	3	2	185	1	0	0	0	0	1	0	0	0	2557	1029	36	5	1396	5	CACNB3	12	49221573	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	40413169	49221573	84630322	193	92401											
ACCN2	41	broad.mit.edu	37	chr12	50471146	50471146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgtgtggggggagactGgtacgtcacccacttcaggg	6	9	16	10	1	2	1	2	0	0	1	2	2	2	1	2	5	2	1	2	5	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:50471146G>A	uc001rvw.2	+	4	938	c.709G>A	c.(709-711)GAC>AAC	p.D237N	ACCN2_uc001rvv.2_Missense_Mutation_p.D237N|ACCN2_uc009zln.2_Missense_Mutation_p.D28N|ACCN2_uc009zlo.2_Missense_Mutation_p.D237N	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	237	Extracellular (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	GGGGGAGACTGGTACGTCACC	0.657													15	30					0	0	0.0333	0	0		A	50471146	A	A	50471146	3	1	185	1	0	0	0	0	1	0	0	0	129	1362	47	4	719	4	ACCN2	12	50471146	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1249573	50471146	83380749	194	92402											
LASS5	91012	broad.mit.edu	37	chr12	50560935	50560935	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ccgccgccagcgggaacaccGagaggatgtgccggccgcgg	7	2	17	15	7	0	1	0	0	0	1	0	4	0	3	6	4	3	0	6	4	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:50560935G>C	uc001rwd.3	-	1	163	c.146C>G	c.(145-147)TCG>TGG	p.S49W	LASS5_uc001rwe.3_5'UTR|LASS5_uc001rwf.3_RNA|LASS5_uc010smq.1_5'UTR	NM_147190	NP_671723	Q8N5B7	CERS5_HUMAN	LAG1 homolog, ceramide synthase 5	49	Helical; (Potential).				ceramide biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity				0						CGGGAACACCGAGAGGATGTG	0.607													8	9					0	0	0.038147	0	0		C	50560935	C	C	50560935	3	2	185	1	0	0	0	0	1	0	0	0	8658	1059	37	5	1072	5	LASS5	12	50560935	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	89789	50560935	83290960	195	92403											
SCN8A	6334	broad.mit.edu	37	chr12	52200766	52200766	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accattgagctcatcgctatGgatctgccaatggtgagcgg	9	10	12	10	2	2	2	1	2	1	0	3	3	2	3	2	3	3	2	2	3	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:52200766G>A	uc001ryw.2	+	27	5674	c.5496G>A	c.(5494-5496)ATG>ATA	p.M1832I		NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1832					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	TCATCGCTATGGATCTGCCAA	0.552													53	53					0	0	0.139131	0	0		A	52200766	A	A	52200766	3	1	185	1	0	0	0	0	1	0	0	0	13949	1348	47	4	5598	4	SCN8A	12	52200766	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1639831	52200766	81651129	196	92404											
HOXC9	3225	broad.mit.edu	37	chr12	54394041	54394041	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctcacgacaatgaagacctCctagcgtccaggtttccggc	9	9	9	14	3	1	2	1	1	1	1	5	3	4	2	4	2	1	1	4	2	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:54394041C>T	uc001sep.2	+	2	167	c.69C>T	c.(67-69)CTC>CTT	p.L23L	HOXC9_uc001seq.2_Silent_p.L23L	NM_006897	NP_008828	P31274	HXC9_HUMAN	homeobox C9	23					multicellular organismal development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)|skin(1)	3						ATGAAGACCTCCTAGCGTCCA	0.572													29	54					0	0	0.134883	0	0		T	54394041	T	T	54394041	2	4	185	1	0	0	0	0	0	0	0	1	7333	842	30	4		4	HOXC9	12	54394041	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2193275	54394041	79457854	197	92405											
SYT1	6857	broad.mit.edu	37	chr12	79693214	79693214	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctagtgatggctgtatatgaTtttgatcgtttctctaagca	9	17	9	6	1	1	3	0	3	1	0	3	3	1	3	0	1	1	4	0	1	4	7			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:79693214T>C	uc001sys.2	+	9	1364	c.693T>C	c.(691-693)GAT>GAC	p.D231D	SYT1_uc001syt.2_Silent_p.D231D|SYT1_uc001syu.2_Silent_p.D228D|SYT1_uc001syv.2_Silent_p.D231D	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	231	Cytoplasmic (Potential).|Phospholipid binding (Probable).|C2 1.	Calcium 2 (By similarity).|Calcium 1 (By similarity).			detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						CTGTATATGATTTTGATCGTT	0.383													62	37					0	0	0.139131	0	0		C	79693214	C	C	79693214	2	2	185	1	0	0	0	0	0	0	0	1	15490	1490	52	3		3	SYT1	12	79693214	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	25299173	79693214	54158681	198	92406											
PPP1R12A	4659	broad.mit.edu	37	chr12	80214680	80214680	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agattcaatacgggatgcatTtttctctggttcaataatca	12	15	7	7	1	4	1	3	0	1	1	5	2	4	2	0	2	2	2	0	2	4	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:80214680T>G	uc001syz.2	-	8	1255	c.988A>C	c.(988-990)AAT>CAT	p.N330H	PPP1R12A_uc010suc.1_Missense_Mutation_p.N243H|PPP1R12A_uc001sza.2_Missense_Mutation_p.N330H|PPP1R12A_uc010sud.1_Missense_Mutation_p.N330H|PPP1R12A_uc001szb.2_Missense_Mutation_p.N330H|PPP1R12A_uc001szc.2_Missense_Mutation_p.N330H	NM_002480	NP_002471	O14974	MYPT1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	330						contractile fiber	protein binding|signal transducer activity			ovary(2)|breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	7						CGGGATGCATTTTTCTCTGGT	0.353													8	17					0	0	0.038147	0	0		G	80214680	G	G	80214680	3	3	185	1	0	0	0	0	1	0	0	0	12376	1841	64	5	2176	5	PPP1R12A	12	80214680	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	521466	80214680	53637215	199	92407											
SSH1	54434	broad.mit.edu	37	chr12	109182012	109182012	+	Missense_Mutation	SNP	T	A	A	0	1	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	cttcagtggggaagagacggTgaggcccgccagccggagcc	8	4	17	12	3	1	2	1	1	0	1	1	5	1	4	4	5	2	0	4	5	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:109182012T>A	uc001tnm.2	-	15	2989	c.2902A>T	c.(2902-2904)ACC>TCC	p.T968S	SSH1_uc001tnl.2_Missense_Mutation_p.T656S	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	968	Interaction with YWHAG.				actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						GAAGAGACGGTGAGGCCCGCC	0.632													97	204					0	0	0.139131	0	0		A	109182012	A	A	109182012	3	1	185	1	0	0	0	0	1	0	0	0	15209	1696	59	5	251	5	SSH1	12	109182012	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	28967332	109182012	24669883	200	92408											
TCHP	84260	broad.mit.edu	37	chr12	110341905	110341905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgcaggaaagaagaatccggGagcagcacgggaagctgaaa	16	3	15	7	2	0	3	0	1	0	2	1	6	1	6	1	3	4	4	1	3	5	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr12:110341905G>A	uc001tpn.2	+	3	505	c.352G>A	c.(352-354)GAG>AAG	p.E118K	TCHP_uc001tpo.1_RNA|TCHP_uc001tpp.2_Missense_Mutation_p.E118K	NM_001143852	NP_001137324	Q9BT92	TCHP_HUMAN	trichoplein	118	Glu-rich.|Potential.|Interaction with keratin proteins.				apoptosis|negative regulation of cell growth	apical cortex|centrosome|keratin filament|mitochondrion|plasma membrane	protein binding			skin(1)	1						AAGAATCCGGGAGCAGCACGG	0.572													5	4					0	0	0.02938	0	0		A	110341905	A	A	110341905	3	1	185	1	0	0	0	0	1	0	0	0	15727	1175	41	4	358	4	TCHP	12	110341905	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1159893	110341905	23509990	201	92409											
SACS	26278	broad.mit.edu	37	chr13	23912295	23912295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatgaacgtggtattccatCgtccttttgtatctgttttc	6	19	7	9	2	2	1	1	1	1	0	6	1	4	1	2	1	1	3	2	1	3	7			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr13:23912295C>T	uc001uon.2	-	10	6309	c.5720G>A	c.(5719-5721)CGA>CAA	p.R1907Q	SACS_uc001uoo.2_Missense_Mutation_p.R1760Q|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1907					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GGTATTCCATCGTCCTTTTGT	0.403													24	41					0	0	0.069288	0	0		T	23912295	T	T	23912295	3	4	185	1	0	0	0	0	1	0	0	0	13829	884	31	1	8023	1	SACS	13	23912295	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08		23912295	91257583	202	92410											
POSTN	10631	broad.mit.edu	37	chr13	38154009	38154009	+	Missense_Mutation	SNP	T	A	A	0	1	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	tccacttacgtatcagaattTctttttcttcactagtcatt	9	19	3	10	1	5	1	3	0	2	1	6	1	6	1	1	0	1	1	1	0	4	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr13:38154009T>A	uc001uwo.3	-	12	1767	c.1649A>T	c.(1648-1650)GAA>GTA	p.E550V	POSTN_uc010tet.1_Missense_Mutation_p.E78V|POSTN_uc001uwp.3_Missense_Mutation_p.E550V|POSTN_uc001uwr.2_Missense_Mutation_p.E550V|POSTN_uc001uwq.2_Missense_Mutation_p.E550V|POSTN_uc010teu.1_Missense_Mutation_p.E550V|POSTN_uc010tev.1_Missense_Mutation_p.E550V|POSTN_uc010tew.1_Missense_Mutation_p.E550V|POSTN_uc010tex.1_Missense_Mutation_p.E465V	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	550	FAS1 4.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		TATCAGAATTTCTTTTTCTTC	0.403													56	33					0	0	0.139131	0	0		A	38154009	A	A	38154009	3	1	185	1	0	0	0	0	1	0	0	0	12278	1783	62	5	909	5	POSTN	13	38154009	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	14241714	38154009	77015869	203	92411											
HTR2A	3356	broad.mit.edu	37	chr13	47409208	47409208	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtactgacactgaatatAccgtgaaaaggctgacctat	13	11	8	9	1	0	4	0	4	0	0	0	4	0	4	2	1	2	2	2	1	7	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr13:47409208A>G	uc001vbq.2	-	3	1314	c.1180T>C	c.(1180-1182)TAT>CAT	p.Y394H	HTR2A_uc001vbr.2_Missense_Mutation_p.Y294H|HTR2A_uc010acr.2_Missense_Mutation_p.Y394H	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	394	Cytoplasmic (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CACTGAATATACCGTGAAAAG	0.418													14	105					0	0	0.105934	0	0		G	47409208	G	G	47409208	3	3	185	1	0	0	0	0	1	0	0	0	7457	391	14	3	239	3	HTR2A	13	47409208	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	9255199	47409208	67760670	204	92412											
SLITRK1	114798	broad.mit.edu	37	chr13	84454661	84454661	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtttgttcctggagctacCcgtcgctatcgctgctgtgg	3	13	14	11	3	0	0	0	0	0	0	3	1	1	1	2	3	3	6	2	3	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr13:84454661C>A	uc001vlk.2	-	1	1868	c.982G>T	c.(982-984)GGT>TGT	p.G328C		NM_052910	NP_443142	Q96PX8	SLIK1_HUMAN	slit and trk like 1 protein precursor	328	Extracellular (Potential).					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	Medulloblastoma(90;0.18)	Breast(118;0.212)		GBM - Glioblastoma multiforme(99;0.07)		CTGGAGCTACCCGTCGCTATC	0.547													43	88					3.4345e-17	3.9324e-17	0.124865	1	0		A	84454661	A	A	84454661	3	1	185	1	0	0	0	0	1	0	0	0	14767	623	22	5	1112	5	SLITRK1	13	84454661	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	37045453	84454661	30715217	205	92413											
TEP1	7011	broad.mit.edu	37	chr14	20845494	20845494	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtcctagcacaggcttctgGaatctggacaggagccagag	11	7	13	10	0	2	1	0	0	2	1	3	4	3	4	2	4	2	2	2	4	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:20845494G>T	uc001vxe.2	-	41	6073	c.6033C>A	c.(6031-6033)TTC>TTA	p.F2011L	TEP1_uc010ahk.2_Missense_Mutation_p.F1354L|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.F1903L|TEP1_uc010tlh.1_Missense_Mutation_p.F349L	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2011	WD 10.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CAGGCTTCTGGAATCTGGACA	0.527													7	22					8.12818e-05	8.38829e-05	0.02938	1	0		T	20845494	T	T	20845494	3	4	185	1	0	0	0	0	1	0	0	0	15784	1165	41	5	1910	5	TEP1	14	20845494	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		20845494	86504046	206	92414											
OR5AU1	390445	broad.mit.edu	37	chr14	21623524	21623524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagtgacgacatgagcacCgcagaatttcagactaaaga	15	7	11	8	2	1	6	1	3	0	3	1	7	1	6	1	0	1	2	1	0	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:21623524C>T	uc010tlp.1	-	1	661	c.661G>A	c.(661-663)GGT>AGT	p.G221S		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	221	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		ACATGAGCACCGCAGAATTTC	0.498													15	34					0	0	0.132662	0	0		T	21623524	T	T	21623524	3	4	185	1	0	0	0	0	1	0	0	0	11166	652	23	1	430	1	OR5AU1	14	21623524	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	778030	21623524	85726016	207	92415											
FOXG1	2290	broad.mit.edu	37	chr14	29237814	29237814	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggccgcgtcctcctccacGtcgccgcaggccccctcgac	4	5	11	21	6	0	0	0	0	0	0	5	1	3	0	7	2	0	1	7	2	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:29237814G>A	uc001wqe.2	+	1	1528	c.1329G>A	c.(1327-1329)ACG>ACA	p.T443T		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	443					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		CCTCCTCCACGTCGCCGCAGG	0.607													29	47					0	0	0.050027	0	0		A	29237814	A	A	29237814	2	1	185	1	0	0	0	0	0	0	0	1	6021	1132	40	1		1	FOXG1	14	29237814	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	7614290	29237814	78111726	208	92416											
HEATR5A	25938	broad.mit.edu	37	chr14	31819924	31819924	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgttccaatataagaagcCtacaatcagaaataacagga	18	8	7	8	0	1	2	1	0	0	2	2	3	2	3	2	1	3	2	2	1	8	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:31819924C>A	uc001wrf.3	-	11	1610	c.1533_splice	c.e11-1	p.R511_splice	HEATR5A_uc010ami.2_Splice_Site_p.R409_splice|HEATR5A_uc001wrg.1_Splice_Site_p.R393_splice|HEATR5A_uc010tpk.1_Splice_Site_p.R804_splice	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A								binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		TATAAGAAGCCTACAATCAGA	0.259													4	2					0.00909568	0.00919067	0.009096	1	0		A	31819924	A	A	31819924	5	1	185	1	0	0	0	0	0	0	1	0	7047	695	24	5	3809	5	HEATR5A	14	31819924	Splice_Site	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2582110	31819924	75529616	209	92417											
MIPOL1	145282	broad.mit.edu	37	chr14	37754628	37754628	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagcaattgcacgagccaAgcatatggaaatgtctctaa	15	9	9	8	1	1	1	0	1	1	0	2	3	1	2	1	1	4	3	1	1	6	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:37754628A>G	uc001wuc.2	+	8	1102	c.599A>G	c.(598-600)AAG>AGG	p.K200R	MIPOL1_uc010amr.2_Intron|MIPOL1_uc001wub.3_Missense_Mutation_p.K169R|MIPOL1_uc001wud.2_Missense_Mutation_p.K200R|MIPOL1_uc010ams.2_Missense_Mutation_p.K200R|MIPOL1_uc001wue.2_Missense_Mutation_p.K169R|MIPOL1_uc010amt.2_Missense_Mutation_p.K19R	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	200	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		GCACGAGCCAAGCATATGGAA	0.373													32	69					0	0	0.064281	0	0		G	37754628	G	G	37754628	3	3	185	1	0	0	0	0	1	0	0	0	9611	72	3	3	617	3	MIPOL1	14	37754628	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	5934704	37754628	69594912	210	92418											
C14orf166	51637	broad.mit.edu	37	chr14	52471144	52471144	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagaggagctcagagagctAcagacaaaaatcaacgaagc	19	4	10	8	1	2	3	2	0	0	3	2	6	2	4	0	1	5	2	0	1	6	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:52471144A>G	uc010aod.2	+	8	775	c.645A>G	c.(643-645)CTA>CTG	p.L215L	C14orf166_uc001wzm.3_Silent_p.L81L|C14orf166_uc001wzn.3_Silent_p.L77L	NM_016039	NP_057123	Q9Y224	CN166_HUMAN	homeobox prox 1	215						microtubule organizing center|nucleus|perinuclear region of cytoplasm|tRNA-splicing ligase complex	identical protein binding				0	Breast(41;0.0639)|all_epithelial(31;0.101)					TCAGAGAGCTACAGACAAAAA	0.413													19	37					0	0	0.038395	0	0		G	52471144	G	G	52471144	2	3	185	1	0	0	0	0	0	0	0	1	1759	378	14	3		3	C14orf166	14	52471144	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	14716516	52471144	54878396	211	92419											
KIAA0586	9786	broad.mit.edu	37	chr14	58953857	58953857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cggatcatgatatggcttttCctgtgaaagaaatatgtgct	11	14	10	6	1	1	3	1	2	0	1	2	4	2	4	1	2	1	2	1	2	4	4	rs77810875		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:58953857C>T	uc001xdv.3	+	21	3322	c.3049C>T	c.(3049-3051)CCT>TCT	p.P1017S	KIAA0586_uc010trr.1_Missense_Mutation_p.P1134S|KIAA0586_uc001xdt.3_Missense_Mutation_p.P1049S|KIAA0586_uc001xdu.3_Missense_Mutation_p.P1078S|KIAA0586_uc010trs.1_Missense_Mutation_p.P1008S|KIAA0586_uc010trt.1_Missense_Mutation_p.P953S|KIAA0586_uc010tru.1_Missense_Mutation_p.P953S	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	1017										ovary(1)	1						TATGGCTTTTCCTGTGAAAGA	0.368													15	41					0	0	0.0333	0	0		T	58953857	T	T	58953857	3	4	185	1	0	0	0	0	1	0	0	0	8202	855	30	4	3131	4	KIAA0586	14	58953857	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6482713	58953857	48395683	212	92420											
ZBTB1	22890	broad.mit.edu	37	chr14	64990077	64990077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagcagtttttaagagagCgtcagttgcgactgcacaat	13	10	11	7	2	1	1	1	0	0	1	1	4	1	1	0	0	4	4	0	0	3	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:64990077C>T	uc001xhh.3	+	4	2286	c.1855C>T	c.(1855-1857)CGT>TGT	p.R619C	ZBTB1_uc010aqg.2_Missense_Mutation_p.R619C|ZBTB1_uc001xhi.2_Missense_Mutation_p.R619C	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	619	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		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)		TTTAAGAGAGCGTCAGTTGCG	0.403													36	94					0	0	0.104719	0	0		T	64990077	T	T	64990077	3	4	185	1	0	0	0	0	1	0	0	0	17547	768	27	1	1857	1	ZBTB1	14	64990077	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6036220	64990077	42359463	213	92421											
SPTB	6710	broad.mit.edu	37	chr14	65268106	65268106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttcagcttatcaaagtcGatcaggtcgggcctggggac	8	10	12	11	2	3	0	3	0	0	0	6	2	4	1	2	4	1	1	2	4	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:65268106G>A	uc001xht.2	-	6	714	c.660C>T	c.(658-660)ATC>ATT	p.I220I	SPTB_uc001xhr.2_Silent_p.I220I|SPTB_uc001xhs.2_Silent_p.I220I|SPTB_uc001xhu.2_Silent_p.I220I	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	220	Actin-binding.|CH 2.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TATCAAAGTCGATCAGGTCGG	0.582											OREG0022735	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	41					0	0	0.049695	0	0		A	65268106	A	A	65268106	2	1	185	1	0	0	0	0	0	0	0	1	15143	1048	37	1		1	SPTB	14	65268106	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	278029	65268106	42081434	214	92422											
C14orf115	55237	broad.mit.edu	37	chr14	74825436	74825436	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacatgatcgctaccacgaaGttcaaggcccaggccaagct	12	6	10	13	2	1	1	1	1	0	0	2	3	1	1	3	2	2	3	3	2	4	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:74825436G>T	uc001xpw.3	+	2	2141	c.1950G>T	c.(1948-1950)AAG>AAT	p.K650N		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	650					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		CTACCACGAAGTTCAAGGCCC	0.612													35	49					1.36161e-19	1.58242e-19	0.069456	1	0		T	74825436	T	T	74825436	3	4	185	1	0	0	0	0	1	0	0	0	1743	1020	36	5	1952	5	C14orf115	14	74825436	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	9557330	74825436	32524104	215	92423											
TMED8	283578	broad.mit.edu	37	chr14	77809767	77809767	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctctttgcccagcttgctttTgaattccttcaccttggcaa	6	16	6	13	0	2	1	1	1	1	0	3	1	3	1	3	1	3	3	3	1	2	7			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:77809767T>C	uc001xto.1	-	5	514	c.514A>G	c.(514-516)AAA>GAA	p.K172E	TMED8_uc010ast.1_RNA|TMED8_uc001xtn.1_Missense_Mutation_p.K16E	NM_213601	NP_998766	Q6PL24	TMED8_HUMAN	transmembrane emp24 protein transport domain	172	GOLD.				transport	integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0281)		AGCTTGCTTTTGAATTCCTTC	0.537													14	24					0	0	0.146539	0	0		C	77809767	C	C	77809767	3	2	185	1	0	0	0	0	1	0	0	0	16036	1821	63	3	470	3	TMED8	14	77809767	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	2984331	77809767	29539773	216	92424											
C14orf174	161394	broad.mit.edu	37	chr14	77857387	77857387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcaggagctcctggaaattGaagagccattattcaaacgc	13	8	10	10	2	1	2	1	1	0	1	2	4	2	4	2	2	3	2	2	2	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:77857387G>A	uc001xtq.1	+	3	1825	c.1825G>A	c.(1825-1827)GAA>AAA	p.E609K		NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	609											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		CCTGGAAATTGAAGAGCCATT	0.383													25	64					0	0	0.0918	0	0		A	77857387	A	A	77857387	3	1	185	1	0	0	0	0	1	0	0	0	1762	1291	45	4	1835	4	C14orf174	14	77857387	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	47620	77857387	29492153	217	92425											
TTC7B	145567	broad.mit.edu	37	chr14	91044497	91044497	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggggctgatggctaaggcctCttcataccaccgccgcgcct	6	8	12	15	3	2	1	1	1	1	0	2	1	2	1	5	4	1	2	5	4	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:91044497C>G	uc001xyp.2	-	19	2385	c.2263G>C	c.(2263-2265)GAG>CAG	p.E755Q	TTC7B_uc001xyo.2_Missense_Mutation_p.E199Q|TTC7B_uc010ats.2_RNA	NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	755	TPR 9.						binding			ovary(2)	2		Melanoma(154;0.222)				GCTAAGGCCTCTTCATACCAC	0.632													6	5					0	0	0.021553	0	0		G	91044497	G	G	91044497	3	3	185	1	0	0	0	0	1	0	0	0	16739	922	32	5	276	5	TTC7B	14	91044497	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	13187110	91044497	16305043	218	92426											
JAG2	3714	broad.mit.edu	37	chr14	105609319	105609319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtagagcacgtccttgtGgccccccggccgctcaatgg	5	8	13	15	3	1	1	1	0	0	1	2	1	2	1	5	4	1	3	5	4	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr14:105609319G>A	uc001yqg.2	-	26	3834	c.3430C>T	c.(3430-3432)CAC>TAC	p.H1144Y	JAG2_uc010axf.2_5'UTR|JAG2_uc001yqf.2_Missense_Mutation_p.H548Y|JAG2_uc001yqh.2_Missense_Mutation_p.H1106Y	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	1144	Cytoplasmic (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		ACGTCCTTGTGGCCCCCCGGC	0.473													15	12					0	0	0.076483	0	0		A	105609319	A	A	105609319	3	1	185	1	0	0	0	0	1	0	0	0	7951	1348	47	4	290	4	JAG2	14	105609319	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	14564822	105609319	1740221	219	92427											
TRPM1	4308	broad.mit.edu	37	chr15	31339349	31339349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagttgttgtaaagggtccGaaagtttttccgagtgtagt	10	14	12	5	2	0	0	0	0	0	0	2	2	2	0	2	1	0	5	2	1	5	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:31339349G>A	uc001zfm.2	-	14	1791	c.1663C>T	c.(1663-1665)CGG>TGG	p.R555W	TRPM1_uc010azy.2_Missense_Mutation_p.R462W|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	555	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		TAAAGGGTCCGAAAGTTTTTC	0.517													41	55					0	0	0.131918	0	0		A	31339349	A	A	31339349	3	1	185	1	0	0	0	0	1	0	0	0	16611	1057	37	1	3204	1	TRPM1	15	31339349	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		31339349	71192043	220	92428											
C15orf29	79768	broad.mit.edu	37	chr15	34440952	34440952	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcatggtcctgagaaacCtgaaaggcaataatctgatt	13	12	9	7	0	2	3	1	3	1	1	3	4	3	3	2	2	1	2	2	2	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:34440952C>G	uc001zhp.2	-	5	599	c.439_splice	c.e5-1	p.V147_splice	C15orf29_uc010ubz.1_Splice_Site_p.V51_splice|C15orf29_uc010uca.1_Intron	NM_024713	NP_078989	Q9H079	CO029_HUMAN	hypothetical protein LOC79768							nucleolus				ovary(1)	1		all_lung(180;1.86e-06)		all cancers(64;5.49e-18)|GBM - Glioblastoma multiforme(113;8.91e-07)|BRCA - Breast invasive adenocarcinoma(123;0.026)|Lung(196;0.229)		CCTGAGAAACCTGAAAGGCAA	0.338													18	26					0	0	0.043863	0	0		G	34440952	G	G	34440952	5	3	185	1	0	0	0	0	0	0	1	0	1792	695	24	5	500	5	C15orf29	15	34440952	Splice_Site	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3101603	34440952	68090440	221	92429											
ACTC1	70	broad.mit.edu	37	chr15	35082638	35082638	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcatttgcggtggacaatgGatgggcctgcctcatcgtac	8	10	13	10	2	1	0	1	0	0	0	2	2	1	2	2	4	4	2	2	4	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:35082638G>C	uc001ziu.1	-	7	1352	c.1109C>G	c.(1108-1110)TCC>TGC	p.S370C	uc001zit.1_Intron	NM_005159	NP_005150	P68032	ACTC_HUMAN	cardiac muscle alpha actin 1 proprotein	370					apoptosis|cardiac muscle tissue morphogenesis|cardiac myofibril assembly|muscle filament sliding|skeletal muscle thin filament assembly	actomyosin, actin part|cytosol|I band	ATP binding|ATPase activity|myosin binding			upper_aerodigestive_tract(1)|ovary(1)	2		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)		GTGGACAATGGATGGGCCTGC	0.502													32	46					0	0	0.064281	0	0		C	35082638	C	C	35082638	3	2	185	1	0	0	0	0	1	0	0	0	195	1174	41	5	28	5	ACTC1	15	35082638	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	641686	35082638	67448754	222	92430											
FBN1	2200	broad.mit.edu	37	chr15	48797306	48797306	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagtgttgacgcaacgccCattcatgcagatcccagggg	10	8	11	12	2	2	2	2	1	0	1	3	2	3	2	2	2	2	3	2	2	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:48797306C>G	uc001zwx.1	-	16	2204	c.1876G>C	c.(1876-1878)GGG>CGG	p.G626R		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	626	EGF-like 10; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		ACGCAACGCCCATTCATGCAG	0.443													35	67					0	0	0.054565	0	0		G	48797306	G	G	48797306	3	3	185	1	0	0	0	0	1	0	0	0	5716	594	21	5	6943	5	FBN1	15	48797306	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	13714668	48797306	53734086	223	92431											
CGNL1	84952	broad.mit.edu	37	chr15	57838432	57838432	+	Silent	SNP	C	T	T	0	0	0	1	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	ctcaactccatgaagaaggaCttaaggtgggcaggtgtgga	12	8	14	7	0	1	2	1	1	0	1	2	4	2	4	1	5	1	1	1	5	4	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:57838432C>T	uc002aeg.2	+	18	3844	c.3768C>T	c.(3766-3768)GAC>GAT	p.D1256D	CGNL1_uc010bfw.2_Silent_p.D1256D	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	1256	Potential.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		TGAAGAAGGACTTAAGGTGGG	0.532													3	5					0	0	0.115264	0	0		T	57838432	T	T	57838432	2	4	185	1	0	0	0	0	0	0	0	1	3307	564	20	4		4	CGNL1	15	57838432	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	9041126	57838432	44692960	224	92432											
TLN2	83660	broad.mit.edu	37	chr15	63040577	63040577	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acagagagcatcaatcaactCatcactctgtgtacccaaca	15	8	5	13	0	5	1	4	0	1	1	5	2	5	1	1	0	4	2	1	0	4	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:63040577C>G	uc002alb.3	+	30	4053	c.4053C>G	c.(4051-4053)CTC>CTG	p.L1351L	TLN2_uc002alc.3_5'UTR	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1351					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						TCAATCAACTCATCACTCTGT	0.473													36	66					0	0	0.139131	0	0		G	63040577	G	G	63040577	2	3	185	1	0	0	0	0	0	0	0	1	15973	813	29	5		5	TLN2	15	63040577	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	5202145	63040577	39490815	225	92433											
TPM1	7168	broad.mit.edu	37	chr15	63335135	63335135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcggcggaagacaggaGcaagcaggtctgcgcctccc	10	3	16	12	3	1	1	0	0	1	1	2	4	2	3	2	5	3	2	2	5	3	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:63335135G>A	uc002alg.2	+	1	298	c.107G>A	c.(106-108)AGC>AAC	p.S36N	TPM1_uc002alh.2_Missense_Mutation_p.S36N|TPM1_uc010bgn.2_RNA|TPM1_uc002ali.2_Missense_Mutation_p.S36N|TPM1_uc002alj.2_Missense_Mutation_p.S36N|TPM1_uc002alk.2_Missense_Mutation_p.S36N|TPM1_uc002all.2_Missense_Mutation_p.S36N|TPM1_uc002alm.2_Missense_Mutation_p.S36N|TPM1_uc010uie.1_Missense_Mutation_p.S36N|TPM1_uc002alp.2_Missense_Mutation_p.S36N	NM_001018005	NP_001018005	P09493	TPM1_HUMAN	tropomyosin 1 alpha chain isoform 1	36	By similarity.				cardiac muscle contraction|cellular component movement|cellular response to reactive oxygen species|muscle filament sliding|negative regulation of cell migration|positive regulation of ATPase activity|positive regulation of cell adhesion|positive regulation of heart rate by epinephrine|positive regulation of stress fiber assembly|regulation of muscle contraction|ruffle organization|sarcomere organization|ventricular cardiac muscle tissue morphogenesis|wound healing	bleb|cytosol|muscle thin filament tropomyosin|ruffle membrane|stress fiber	actin binding|structural constituent of cytoskeleton|structural constituent of muscle				0						GAAGACAGGAGCAAGCAGGTC	0.682													8	6					0	0	0.038147	0	0		A	63335135	A	A	63335135	3	1	185	1	0	0	0	0	1	0	0	0	16431	971	34	2	109	2	TPM1	15	63335135	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	294558	63335135	39196257	226	92434											
DPP8	54878	broad.mit.edu	37	chr15	65792991	65792991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtgataaattccactacCggcttgaaacagaaatgttc	14	11	7	9	2	0	3	0	2	0	1	2	3	1	3	2	1	3	2	2	1	6	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:65792991C>T	uc002aov.2	-	4	2125	c.547G>A	c.(547-549)GGT>AGT	p.G183S	DPP8_uc002aow.2_Missense_Mutation_p.G183S|DPP8_uc010uiv.1_RNA|DPP8_uc002aox.2_Missense_Mutation_p.G167S|DPP8_uc002aoy.2_Missense_Mutation_p.G183S|DPP8_uc002aoz.2_Missense_Mutation_p.G167S|DPP8_uc010bhj.2_Missense_Mutation_p.G183S|DPP8_uc002apa.2_Missense_Mutation_p.G80S	NM_130434	NP_569118	Q6V1X1	DPP8_HUMAN	dipeptidyl peptidase 8 isoform 1	183					immune response|proteolysis	cytoplasm|membrane|nucleus	aminopeptidase activity|dipeptidyl-peptidase activity|serine-type peptidase activity			ovary(1)	1						ATTCCACTACCGGCTTGAAAC	0.398													49	114					0	0	0.139131	0	0		T	65792991	T	T	65792991	3	4	185	1	0	0	0	0	1	0	0	0	4738	652	23	1	2217	1	DPP8	15	65792991	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2457856	65792991	36738401	227	92435											
TBC1D21	161514	broad.mit.edu	37	chr15	74180816	74180816	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	atgctgatgagctgatctctGccgcctgcgtggtttatgct	5	14	12	10	2	1	3	0	3	1	0	2	3	1	3	2	1	5	4	2	1	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:74180816G>T	uc002avz.2	+	10	1023	c.940G>T	c.(940-942)GCC>TCC	p.A314S	TBC1D21_uc010ulc.1_Missense_Mutation_p.A278S	NM_153356	NP_699187	Q8IYX1	TBC21_HUMAN	TBC1 domain family, member 21	314						intracellular	Rab GTPase activator activity			ovary(2)	2						GCTGATCTCTGCCGCCTGCGT	0.448													9	25					3.07112e-06	3.23848e-06	0.080935	1	0		T	74180816	T	T	74180816	3	4	185	1	0	0	0	0	1	0	0	0	15635	1319	46	5	978	5	TBC1D21	15	74180816	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	8387825	74180816	28350576	228	92436											
C15orf39	56905	broad.mit.edu	37	chr15	75500588	75500588	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccggctcgagctcaGgctccagcttcagcccggga	5	7	12	17	3	2	0	2	0	0	0	5	2	4	1	4	3	4	5	4	3	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:75500588G>A	uc002azp.3	+	2	2519	c.2199G>A	c.(2197-2199)CAG>CAA	p.Q733Q	C15orf39_uc002azq.3_Silent_p.Q733Q|C15orf39_uc002azr.3_Silent_p.Q131Q	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	733											0						ctcgagctcaggctccagctt	0.244													4	10					0	0	0.014758	0	0		A	75500588	A	A	75500588	2	1	185	1	0	0	0	0	0	0	0	1	1796	991	35	4		4	C15orf39	15	75500588	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1319772	75500588	27030804	229	92437											
MEX3B	84206	broad.mit.edu	37	chr15	82336071	82336071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcctcccggggaccgctcGaactgggcccagataagtgg	7	5	14	15	4	0	1	0	0	0	1	2	3	1	2	5	4	1	1	5	4	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:82336071G>A	uc002bgq.1	-	2	1455	c.1140C>T	c.(1138-1140)TTC>TTT	p.F380F		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	380					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						GGGACCGCTCGAACTGGGCCC	0.542													17	36					0	0	0.038395	0	0		A	82336071	A	A	82336071	2	1	185	1	0	0	0	0	0	0	0	1	9528	1049	37	1		1	MEX3B	15	82336071	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	6835483	82336071	20195321	230	92438											
WHAMM	123720	broad.mit.edu	37	chr15	83499525	83499525	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggaagctggtaatgtgaaaAgccccaagtgtcaaaactgt	14	8	11	8	1	1	1	1	1	0	0	1	2	1	2	2	2	3	2	2	2	7	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:83499525A>C	uc002bje.2	+	9	2322	c.1816A>C	c.(1816-1818)AGC>CGC	p.S606R		NM_001080435	NP_001073904	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi	606						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding				0						TAATGTGAAAAGCCCCAAGTG	0.458													12	37					0	0	0.09319	0	0		C	83499525	C	C	83499525	3	2	185	1	0	0	0	0	1	0	0	0	17387	72	3	5	1850	5	WHAMM	15	83499525	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	1163454	83499525	19031867	231	92439											
IGF1R	3480	broad.mit.edu	37	chr15	99500476	99500476	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccagagaacatggagagcgtCcccctggacccctcggcctc	8	5	11	17	2	0	2	0	0	0	2	3	5	1	3	6	3	2	0	6	3	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:99500476C>T	uc002bul.2	+	21	3959	c.3909C>T	c.(3907-3909)GTC>GTT	p.V1303V	IGF1R_uc010bon.2_Silent_p.V1302V	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	1303	Cytoplasmic (Potential).				anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	TGGAGAGCGTCCCCCTGGACC	0.672													11	64					0	0	0.080935	0	0		T	99500476	T	T	99500476	2	4	185	1	0	0	0	0	0	0	0	1	7587	842	30	4		4	IGF1R	15	99500476	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	16000951	99500476	3030916	232	92440											
OR4F15	390649	broad.mit.edu	37	chr15	102358635	102358635	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attacagcccctaagatgatTtgtgatattttcaagaagca	14	13	7	7	0	1	4	1	2	0	2	1	4	1	4	2	0	3	1	2	0	5	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr15:102358635T>C	uc010uts.1	+	1	246	c.246T>C	c.(244-246)ATT>ATC	p.I82I		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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)			CTAAGATGATTTGTGATATTT	0.453													179	76					0	0	0.139131	0	0		C	102358635	C	C	102358635	2	2	185	1	0	0	0	0	0	0	0	1	11080	1829	64	3		3	OR4F15	15	102358635	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	2858159	102358635	172757	233	92441											
CHTF18	63922	broad.mit.edu	37	chr16	841339	841339	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggaggagatgctggaggctgGgctggacccgagccagcgac	8	4	19	10	2	0	1	0	0	0	1	0	7	0	4	2	6	3	3	2	6	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:841339G>T	uc002cke.3	+	8	1136	c.1073G>T	c.(1072-1074)GGG>GTG	p.G358V	RPUSD1_uc002ckb.2_5'Flank|RPUSD1_uc002ckc.2_5'Flank|RPUSD1_uc002ckd.2_5'Flank|CHTF18_uc010uus.1_3'UTR|CHTF18_uc010bre.1_RNA|CHTF18_uc002ckf.3_Missense_Mutation_p.G386V|CHTF18_uc010brf.2_5'UTR|CHTF18_uc002ckg.3_5'UTR	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	358					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity			kidney(1)	1		Hepatocellular(780;0.00335)				CTGGAGGCTGGGCTGGACCCG	0.687													9	12					6.42651e-13	7.20887e-13	0.080935	1	0		T	841339	T	T	841339	3	4	185	1	0	0	0	0	1	0	0	0	3417	1232	43	5	1103	5	CHTF18	16	841339	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		841339	89513414	234	92442											
ABAT	18	broad.mit.edu	37	chr16	8870335	8870335	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggccctgctcacaggactGctggacctccaggtaacacc	10	6	10	15	0	1	0	1	0	0	0	2	2	2	2	4	4	3	3	4	4	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:8870335G>A	uc002czc.3	+	14	1423	c.1257G>A	c.(1255-1257)CTG>CTA	p.L419L	ABAT_uc002czd.3_Silent_p.L419L|ABAT_uc010buh.2_Silent_p.L361L|ABAT_uc010bui.2_Silent_p.L419L	NM_020686	NP_065737	P80404	GABT_HUMAN	4-aminobutyrate aminotransferase precursor	419					behavioral response to cocaine|gamma-aminobutyric acid catabolic process|neurotransmitter catabolic process|neurotransmitter secretion	4-aminobutyrate transaminase complex|mitochondrial matrix	(S)-3-amino-2-methylpropionate transaminase activity|4-aminobutyrate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|succinate-semialdehyde dehydrogenase binding			upper_aerodigestive_tract(1)	1					Divalproex sodium(DB00510)|Isoniazid(DB00951)|L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)|Tiagabine(DB00906)|Valproic Acid(DB00313)|Vigabatrin(DB01080)	TCACAGGACTGCTGGACCTCC	0.632													8	20					0	0	0.047766	0	0		A	8870335	A	A	8870335	2	1	185	1	0	0	0	0	0	0	0	1	27	1306	46	2		2	ABAT	16	8870335	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	8028996	8870335	81484418	235	92443											
GRIN2A	2903	broad.mit.edu	37	chr16	9862770	9862770	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccgtgaaacagaagcgcaGcttccagtagaagaggtgct	12	6	13	10	2	0	4	0	1	0	3	1	4	1	4	2	1	4	4	2	1	4	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:9862770G>C	uc002czo.3	-	12	3081	c.2533C>G	c.(2533-2535)CTG>GTG	p.L845V	GRIN2A_uc010uym.1_Missense_Mutation_p.L845V|GRIN2A_uc010uyn.1_Missense_Mutation_p.L688V|GRIN2A_uc002czr.3_Missense_Mutation_p.L845V	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	845	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CAGAAGCGCAGCTTCCAGTAG	0.582													39	81					0	0	0.092188	0	0		C	9862770	C	C	9862770	3	2	185	1	0	0	0	0	1	0	0	0	6795	962	34	5	1869	5	GRIN2A	16	9862770	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	992435	9862770	80491983	236	92444											
NOMO1	23420	broad.mit.edu	37	chr16	14960412	14960412	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttggtgtttgcttttgcagTaagcatcatgcatgaggatt	8	17	11	5	0	1	1	1	1	0	0	1	2	1	2	0	2	4	6	0	2	1	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:14960412T>G	uc002dcv.2	+	15	1736	c.1670T>G	c.(1669-1671)ATA>AGA	p.I557R		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	557	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						GCTTTTGCAGTAAGCATCATG	0.478													45	77					0	0	0.139131	0	0		G	14960412	G	G	14960412	3	3	185	1	0	0	0	0	1	0	0	0	10550	1652	57	5	1728	5	NOMO1	16	14960412	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	5097642	14960412	75394341	237	92445											
NOMO1	23420	broad.mit.edu	37	chr16	14960427	14960427	+	Missense_Mutation	SNP	A	C	C	1	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	tgcagtaagcatcatgcatgAggattggtgctggaagaaca	13	9	13	6	0	1	2	1	1	0	1	1	4	1	4	0	3	5	5	0	3	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:14960427A>C	uc002dcv.2	+	15	1751	c.1685A>C	c.(1684-1686)GAG>GCG	p.E562A		NM_014287	NP_055102	Q15155	NOMO1_HUMAN	nodal modulator 1 precursor	562	Extracellular (Potential).					integral to membrane	carbohydrate binding|carboxypeptidase activity|protein binding			ovary(1)	1						ATCATGCATGAGGATTGGTGC	0.507													43	91					0	0	0.139131	0	0		C	14960427	C	C	14960427	3	2	185	1	0	0	0	0	1	0	0	0	10550	304	11	5	1743	5	NOMO1	16	14960427	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	15	14960427	75394326	238	92446											
XYLT1	64131	broad.mit.edu	37	chr16	17252692	17252692	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgaggtgctaccttgcaTtgtcccggccgtgtgacttc	4	13	13	11	2	0	2	0	2	0	0	2	2	1	2	3	3	3	3	3	3	1	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:17252692T>A	uc002dfa.2	-	6	1449	c.1364A>T	c.(1363-1365)AAT>ATT	p.N455I		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	455	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CTACCTTGCATTGTCCCGGCC	0.473													29	52					0	0	0.045705	0	0		A	17252692	A	A	17252692	3	1	185	1	0	0	0	0	1	0	0	0	17489	1493	52	5	1543	5	XYLT1	16	17252692	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	2292265	17252692	73102061	239	92447											
SEPT1	1731	broad.mit.edu	37	chr16	30393094	30393094	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tcctcaccagtcagagcagtCcactgagtccccaaagccag	11	6	8	16	0	2	2	2	1	0	1	5	2	5	2	6	0	2	1	6	0	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:30393094C>G	uc002dxy.2	-	5	479	c.292G>C	c.(292-294)GAC>CAC	p.D98H	SEPT1_uc002dxx.2_Intron|SEPT1_uc010veq.1_Missense_Mutation_p.D145H	NM_052838	NP_443070	Q8WYJ6	SEPT1_HUMAN	septin 1	98					cell cycle|cell division	microtubule organizing center|septin complex	GTP binding|protein binding			ovary(1)	1			Colorectal(24;0.193)			TCAGAGCAGTCCACTGAGTCC	0.582													33	65					0	0	0.074837	0	0		G	30393094	G	G	30393094	3	3	185	1	0	0	0	0	1	0	0	0	14084	855	30	5	843	5	SEPT1	16	30393094	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	13140402	30393094	59961659	240	92448											
GPR97	222487	broad.mit.edu	37	chr16	57714457	57714457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacggtgcatatcctcacacGcatctcccaggcgggctgtg	7	8	11	15	3	2	0	1	0	1	0	4	0	3	0	2	3	1	3	2	3	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:57714457G>A	uc002emh.2	+	8	912	c.809G>A	c.(808-810)CGC>CAC	p.R270H	GPR97_uc010vhv.1_Missense_Mutation_p.R150H|GPR97_uc010cdd.2_RNA|GPR97_uc010cde.2_5'UTR	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	270	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						ATCCTCACACGCATCTCCCAG	0.577													15	15					0	0	0.038395	0	0		A	57714457	A	A	57714457	3	1	185	1	0	0	0	0	1	0	0	0	6736	1087	38	1	839	1	GPR97	16	57714457	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	27321363	57714457	32640296	241	92449											
MLYCD	23417	broad.mit.edu	37	chr16	83940601	83940601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttttcaggaaatgaatGgggtgctgaaaggaatgctc	11	11	12	7	0	1	2	1	2	0	0	3	4	2	4	1	4	2	2	1	4	4	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:83940601G>A	uc002fgz.2	+	2	558	c.538G>A	c.(538-540)GGG>AGG	p.G180R		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	180					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						GGAAATGAATGGGGTGCTGAA	0.478													9	86					0	0	0.047766	0	0		A	83940601	A	A	83940601	3	1	185	1	0	0	0	0	1	0	0	0	9656	1348	47	4	544	4	MLYCD	16	83940601	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	26226144	83940601	6414152	242	92450											
KCNG4	93107	broad.mit.edu	37	chr16	84270991	84270991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtaaaggcccttgatggacGgcgtctccatggggctggac	8	8	15	10	2	1	1	0	1	1	0	2	3	1	3	2	6	0	2	2	6	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr16:84270991G>A	uc010voc.1	-	2	222	c.101C>T	c.(100-102)CCG>CTG	p.P34L	KCNG4_uc002fhu.1_Missense_Mutation_p.P34L	NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	34	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						CTTGATGGACGGCGTCTCCAT	0.632													31	12					0	0	0.050027	0	0		A	84270991	A	A	84270991	3	1	185	1	0	0	0	0	1	0	0	0	8046	1116	39	1	1464	1	KCNG4	16	84270991	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	330390	84270991	6083762	243	92451											
SMG6	23293	broad.mit.edu	37	chr17	2090057	2090057	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggggagcagctccttcaGgtccgggacaaaggaagaca	12	5	14	10	1	1	1	1	0	0	1	3	4	3	4	2	5	2	2	2	5	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:2090057G>A	uc002fub.1	-	12	3110	c.3055C>T	c.(3055-3057)CTG>TTG	p.L1019L	SMG6_uc010vqv.1_Silent_p.L111L	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	1019					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						AGCTCCTTCAGGTCCGGGACA	0.577													43	51					0	0	0.09836	0	0		A	2090057	A	A	2090057	2	1	185	1	0	0	0	0	0	0	0	1	14822	991	35	4		4	SMG6	17	2090057	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08		2090057	79105153	244	92452											
SENP3	26168	broad.mit.edu	37	chr17	7468308	7468308	+	Missense_Mutation	SNP	A	C	C	1	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	aattccttcaaacgtatggcAgcctcatacccctcagcact	11	10	5	15	1	3	0	3	0	0	0	4	0	4	0	4	1	4	3	4	1	4	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:7468308A>C	uc002ghm.2	+	4	1261	c.988A>C	c.(988-990)AGC>CGC	p.S330R	EIF4A1_uc002gho.1_5'UTR|SENP3_uc002ghn.1_Missense_Mutation_p.S165R	NM_015670	NP_056485	Q9H4L4	SENP3_HUMAN	SUMO1/sentrin/SMT3 specific protease 3	330					proteolysis	MLL1 complex|nucleolus	cysteine-type peptidase activity			ovary(1)|central_nervous_system(1)	2		Prostate(122;0.157)				AACGTATGGCAGCCTCATACC	0.552													19	22					0	0	0.043863	0	0		C	7468308	C	C	7468308	3	2	185	1	0	0	0	0	1	0	0	0	14073	188	7	5	998	5	SENP3	17	7468308	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	5378251	7468308	73726902	245	92453											
RAI1	10743	broad.mit.edu	37	chr17	17698318	17698318	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	ccaaggacttcagcccagggCtgtttgaagacccttccgtg	8	9	11	13	1	1	2	1	1	0	1	2	3	2	3	4	2	1	2	4	2	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:17698318C>G	uc002grm.2	+	3	2525	c.2056C>G	c.(2056-2058)CTG>GTG	p.L686V	RAI1_uc002grn.1_Missense_Mutation_p.L686V	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	686						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CAGCCCAGGGCTGTTTGAAGA	0.637													28	47					0	0	0.116897	0	0		G	17698318	G	G	17698318	3	3	185	1	0	0	0	0	1	0	0	0	13032	796	28	5	2058	5	RAI1	17	17698318	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	10230010	17698318	63496892	246	92454											
RAD51L3	5892	broad.mit.edu	37	chr17	33428247	33428247	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagatttggccagacacgcCatgcgccggccgcctgatgc	8	6	13	14	4	0	3	0	1	0	2	0	4	0	3	5	2	2	0	5	2	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:33428247C>A	uc002hir.2	-	9	1132	c.876G>T	c.(874-876)ATG>ATT	p.M292I	RFFL_uc002hiq.2_Missense_Mutation_p.M133I|RAD51L3_uc010ctj.2_Missense_Mutation_p.G111C|RAD51L3_uc010wcd.1_Missense_Mutation_p.M312I|RAD51L3_uc002his.2_Missense_Mutation_p.M180I|RAD51L3_uc010ctk.2_Missense_Mutation_p.M173I|RAD51L3_uc010wce.1_Missense_Mutation_p.M173I|RAD51L3_uc002hit.2_Missense_Mutation_p.M173I|RAD51L3_uc002hiu.2_Missense_Mutation_p.M115I	NM_002878	NP_002869	O75771	RA51D_HUMAN	RAD51-like 3 isoform 1	292					DNA repair|reciprocal meiotic recombination	nucleus	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding				0		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		CCAGACACGCCATGCGCCGGC	0.617								Direct_reversal_of_damage|Homologous_recombination					36	199					1.32136e-16	1.50845e-16	0.104719	1	0		A	33428247	A	A	33428247	3	1	185	1	0	0	0	0	1	0	0	0	13015	594	21	5	118	5	RAD51L3	17	33428247	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	15729929	33428247	47766963	247	92455											
KRTAP4-2	85291	broad.mit.edu	37	chr17	39334306	39334306	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggacacacagcagctgggGcggcagcaggtggtcctgca	8	5	16	12	1	0	0	0	0	0	0	1	1	1	1	1	6	4	5	1	6	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:39334306G>T	uc002hwd.2	-	1	155	c.111C>A	c.(109-111)CGC>CGA	p.R37R		NM_033062	NP_149051	Q9BYR5	KRA42_HUMAN	keratin associated protein 4-2	37	5.|20 X 5 AA repeats OF C-C-[GRQVS]-[SPT]- [VSTQ].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			AGCAGCTGGGGCGGCAGCAGG	0.657													29	195					9.65021e-13	1.07626e-12	0.045705	1	0		T	39334306	T	T	39334306	2	4	185	1	0	0	0	0	0	0	0	1	8567	1190	42	5		5	KRTAP4-2	17	39334306	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	5906059	39334306	41860904	248	92456											
GAST	2520	broad.mit.edu	37	chr17	39871710	39871710	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgcagcgactgtgtgtgtatGtgctgatctttgcactggct	5	15	13	8	1	1	1	0	1	1	0	1	2	1	1	0	1	4	5	0	1	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:39871710G>A	uc002hxl.2	+	2	54	c.22G>A	c.(22-24)GTG>ATG	p.V8M	JUP_uc010wfs.1_Intron	NM_000805	NP_000796	P01350	GAST_HUMAN	gastrin preproprotein	8						extracellular region	hormone activity				0		Breast(137;0.000307)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			GTGTGTGTATGTGCTGATCTT	0.592													143	659					0	0	0.139131	0	0		A	39871710	A	A	39871710	3	1	185	1	0	0	0	0	1	0	0	0	6267	1377	48	4	24	4	GAST	17	39871710	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	537404	39871710	41323500	249	92457											
KAT2A	2648	broad.mit.edu	37	chr17	40269797	40269797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acggagccgcttggcatcctCcagggtcaggttctctggga	6	9	14	12	2	2	0	1	0	1	0	5	2	4	2	3	5	1	3	3	5	0	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:40269797C>T	uc002hyx.2	-	9	1387	c.1327G>A	c.(1327-1329)GAG>AAG	p.E443K		NM_021078	NP_066564	Q92830	KAT2A_HUMAN	general control of amino acid synthesis 5-like	443					chromatin remodeling|histone deubiquitination|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	H3 histone acetyltransferase activity|histone deacetylase binding|protein binding|transcription coactivator activity			upper_aerodigestive_tract(1)|lung(1)	2						TTGGCATCCTCCAGGGTCAGG	0.572													16	64					0	0	0.0333	0	0		T	40269797	T	T	40269797	3	4	185	1	0	0	0	0	1	0	0	0	7997	864	30	4	1226	4	KAT2A	17	40269797	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	398087	40269797	40925413	250	92458											
BECN1	8678	broad.mit.edu	37	chr17	40966663	40966663	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcgacccagcctgaagtTattgattgtgccaaactgtc	10	10	10	11	1	0	2	0	2	0	0	1	3	0	2	3	1	3	1	3	1	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:40966663T>C	uc002ibo.3	-	9	994	c.859A>G	c.(859-861)AAC>GAC	p.N287D	BECN1_uc010whb.1_Missense_Mutation_p.N200D|BECN1_uc010whc.1_Missense_Mutation_p.N211D|BECN1_uc002ibn.2_Missense_Mutation_p.N287D	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	287					anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		AGCCTGAAGTTATTGATTGTG	0.498													47	46					0	0	0.139131	0	0		C	40966663	C	C	40966663	3	2	185	1	0	0	0	0	1	0	0	0	1397	1754	61	3	509	3	BECN1	17	40966663	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	696866	40966663	40228547	251	92459											
GIP	2695	broad.mit.edu	37	chr17	47041686	47041686	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcactcattcttcttcccCttttgggccagcagccagtt	6	14	6	15	0	4	0	2	0	2	0	5	0	5	0	4	1	2	2	4	1	0	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:47041686C>G	uc002iol.1	-	3	341	c.243G>C	c.(241-243)AAG>AAC	p.K81N		NM_004123	NP_004114	P09681	GIP_HUMAN	gastric inhibitory polypeptide preproprotein	81					energy reserve metabolic process|signal transduction	extracellular region|soluble fraction	hormone activity			skin(1)	1						TCTTCTTCCCCTTTTGGGCCA	0.557													47	151					0	0	0.139131	0	0		G	47041686	G	G	47041686	3	3	185	1	0	0	0	0	1	0	0	0	6406	680	24	5	234	5	GIP	17	47041686	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	6075023	47041686	34153524	252	92460											
LUC7L3	51747	broad.mit.edu	37	chr17	48817692	48817692	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgaaaaaattcatgatgaAaatctacgaaaacagtaagt	20	10	7	4	1	2	3	1	3	1	0	2	4	2	3	0	0	2	1	0	0	9	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:48817692A>G	uc002isr.2	+	3	309	c.192A>G	c.(190-192)GAA>GAG	p.E64E	LUC7L3_uc002isp.1_5'UTR|LUC7L3_uc010wmw.1_5'UTR|LUC7L3_uc002isq.2_Silent_p.E64E|LUC7L3_uc002iss.2_Silent_p.E64E	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3	64					apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						TTCATGATGAAAATCTACGAA	0.323													32	22					0	0	0.069456	0	0		G	48817692	G	G	48817692	2	3	185	1	0	0	0	0	0	0	0	1	9102	11	1	3		3	LUC7L3	17	48817692	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	1776006	48817692	32377518	253	92461											
RNF43	54894	broad.mit.edu	37	chr17	56440698	56440720	+	Frame_Shift_Del	DEL	CCATCAGCTTCTCAGCGTCATTA	-	-																															ttggttcttgtacacaaactCcatcagcttctcagcgtcat																								rs145164323		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:56440698_56440720delCCATCAGCTTCTCAGCGTCATTA	uc002iwf.2	-	4	2454_2476	c.498_520delTAATGACGCTGAGAAGCTGATGG	c.(496-522)GGTAATGACGCTGAGAAGCTGATGGAGfs	p.G166fs	RNF43_uc010wnv.1_Frame_Shift_Del_p.G125fs|RNF43_uc002iwh.3_Frame_Shift_Del_p.G166fs|RNF43_uc002iwg.3_Frame_Shift_Del_p.G166fs|RNF43_uc010dcw.2_Frame_Shift_Del_p.G39fs	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	166_174	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TACACAAACTCCATCAGCTTCTCAGCGTCATTACCCCAGATCA	0.583													23	37	---	---	---	---						.	-	56440720	-	-	56440698	7	5	185	1	0	1	0	1	0	0	0	0	13520	864	30	0	1855	0	RNF43	17	56440698	Frame_Shift_Del	DEL	CCATCAGCTTCTCAGCGTCATTA	TCGA-D7-A4YT-01A-11D-A25D-08	7623006	56440698	24754512	254	92462											
MRC2	9902	broad.mit.edu	37	chr17	60765989	60765989	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgggcacctggggagccCtctggccctagccctgctcc	5	7	12	17	0	1	0	0	0	1	0	2	1	2	1	5	4	4	2	5	4	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:60765989C>G	uc002jad.2	+	22	3591	c.3189C>G	c.(3187-3189)CCC>CCG	p.P1063P	MRC2_uc002jae.2_Silent_p.P134P|MRC2_uc002jaf.2_Missense_Mutation_p.P9R	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	1063	Extracellular (Potential).|C-type lectin 6.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CTGGGGAGCCCTCTGGCCCTA	0.632													61	83					0	0	0.139131	0	0		G	60765989	G	G	60765989	2	3	185	1	0	0	0	0	0	0	0	1	9776	668	24	5		5	MRC2	17	60765989	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	4325291	60765989	20429221	255	92463											
SCN4A	6329	broad.mit.edu	37	chr17	62049151	62049151	+	Missense_Mutation	SNP	A	C	C	1	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	atgtgaagtcgtcgacacagAagcctcgggccagtatcttg	10	9	12	10	3	1	2	0	1	1	1	4	3	1	2	2	1	1	1	2	1	3	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:62049151A>C	uc002jds.1	-	4	619	c.542T>G	c.(541-543)TTC>TGC	p.F181C		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	181	I.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GTCGACACAGAAGCCTCGGGC	0.607													21	25					0	0	0.049695	0	0		C	62049151	C	C	62049151	3	2	185	1	0	0	0	0	1	0	0	0	13945	246	9	5	5052	5	SCN4A	17	62049151	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	1283162	62049151	19146059	256	92464											
ENGASE	64772	broad.mit.edu	37	chr17	77077146	77077146	+	Missense_Mutation	SNP	A	T	T	1	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	atggcaagacgaactcaaccAgcacaacaggtgagcctgca	15	4	10	12	1	1	2	1	1	0	1	1	3	1	2	2	2	6	3	2	2	4	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:77077146A>T	uc002jwv.2	+	6	871	c.863A>T	c.(862-864)CAG>CTG	p.Q288L	ENGASE_uc002jwu.1_Missense_Mutation_p.Q288L|ENGASE_uc010wtz.1_Missense_Mutation_p.Q102L|ENGASE_uc002jww.2_5'UTR	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	288						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						GAACTCAACCAGCACAACAGG	0.657													7	2					0	0	0.02938	0	0		T	77077146	T	T	77077146	3	4	185	1	0	0	0	0	1	0	0	0	5126	188	7	5	885	5	ENGASE	17	77077146	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	15027995	77077146	4118064	257	92465											
DUS1L	64118	broad.mit.edu	37	chr17	80016246	80016246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcagtctctttggaggctCgcttcttgcagcagccgcgg	4	11	13	13	3	2	0	0	0	2	0	4	1	2	1	1	3	4	5	1	3	0	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:80016246C>T	uc002kdq.2	-	12	1672	c.1253G>A	c.(1252-1254)CGA>CAA	p.R418Q	DUS1L_uc002kdp.2_Silent_p.A284A|DUS1L_uc002kdr.2_Missense_Mutation_p.R418Q|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	418					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	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)			TTTGGAGGCTCGCTTCTTGCA	0.672													8	157					0	0	0.038147	0	0		T	80016246	T	T	80016246	3	4	185	1	0	0	0	0	1	0	0	0	4811	884	31	1	176	1	DUS1L	17	80016246	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2939100	80016246	1178964	258	92466											
DUS1L	64118	broad.mit.edu	37	chr17	80019827	80019827	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcacccgacaggggccccttCtgctccttggtgcgtccgtg	3	9	13	16	3	1	0	0	0	1	0	3	1	3	0	5	3	2	2	5	3	0	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr17:80019827C>T	uc002kdq.2	-	5	962	c.543G>A	c.(541-543)CAG>CAA	p.Q181Q	DUS1L_uc002kdp.2_Silent_p.Q50Q|DUS1L_uc002kdr.2_Silent_p.Q181Q|DUS1L_uc002kds.2_RNA|DUS1L_uc002kdt.2_RNA|DUS1L_uc010wvi.1_Silent_p.Q164Q	NM_022156	NP_071439	Q6P1R4	DUS1L_HUMAN	PP3111 protein	181					tRNA processing		flavin adenine dinucleotide binding|tRNA dihydrouridine synthase activity			skin(1)	1	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)			GGGGCCCCTTCTGCTCCTTGG	0.498													111	32					0	0	0.139131	0	0		T	80019827	T	T	80019827	2	4	185	1	0	0	0	0	0	0	0	1	4811	912	32	4		4	DUS1L	17	80019827	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	3581	80019827	1175383	259	92467											
CABYR	26256	broad.mit.edu	37	chr18	21736628	21736628	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaagcaacagctctgctctCtgacacatctttgaaaggtc	12	10	8	11	0	3	3	0	2	3	1	5	3	3	3	0	1	4	3	0	1	3	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr18:21736628C>G	uc002kux.2	+	4	1315	c.1163C>G	c.(1162-1164)TCT>TGT	p.S388C	CABYR_uc010xbb.1_Missense_Mutation_p.S290C|CABYR_uc002kuy.2_Intron|CABYR_uc002kuz.2_Intron|CABYR_uc002kva.2_Missense_Mutation_p.S370C|CABYR_uc002kvb.2_Intron|CABYR_uc002kvc.2_Intron|CABYR_uc010dlw.2_RNA	NM_012189	NP_036321	O75952	CABYR_HUMAN	calcium-binding tyrosine	388					ciliary or flagellar motility|signal transduction|sperm capacitation	cytoplasm|cytoskeleton|flagellum|motile cilium|nucleus	calcium ion binding|cAMP-dependent protein kinase regulator activity|enzyme binding|protein heterodimerization activity|SH3 domain binding				0	all_cancers(21;9.13e-05)|all_epithelial(16;5.49e-07)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0305)|Ovarian(20;0.17)					GCTCTGCTCTCTGACACATCT	0.428													27	44					0	0	0.0918	0	0		G	21736628	G	G	21736628	3	3	185	1	0	0	0	0	1	0	0	0	2539	913	32	5	1173	5	CABYR	18	21736628	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08		21736628	56340620	260	92468											
PHLPP1	23239	broad.mit.edu	37	chr18	60646462	60646462	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttcgaaagcctggaggctAttttgctgccccggctcagc	6	11	11	13	2	2	0	1	0	1	0	3	2	2	1	3	3	4	3	3	3	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr18:60646462A>G	uc002lis.2	+	18	3594	c.3416A>G	c.(3415-3417)TAT>TGT	p.Y1139C		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1651					apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						CCTGGAGGCTATTTTGCTGCC	0.512													7	4					0	0	0.038147	0	0		G	60646462	G	G	60646462	3	3	185	1	0	0	0	0	1	0	0	0	11873	449	16	3	5018	3	PHLPP1	18	60646462	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	38909834	60646462	17430786	261	92469											
GALR1	2587	broad.mit.edu	37	chr18	74962768	74962768	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggcctacctgctcttctgCatccccttccaggccaccgt	4	11	7	19	1	2	0	0	0	2	0	4	0	4	0	7	2	3	2	7	2	1	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr18:74962768C>T	uc002lms.3	+	1	761	c.264C>T	c.(262-264)TGC>TGT	p.C88C		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	88	Helical; Name=2; (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		TGCTCTTCTGCATCCCCTTCC	0.627													47	95					0	0	0.139131	0	0		T	74962768	T	T	74962768	2	4	185	1	0	0	0	0	0	0	0	1	6242	718	25	2		2	GALR1	18	74962768	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	14316306	74962768	3114480	262	92470											
SBNO2	22904	broad.mit.edu	37	chr19	1109765	1109765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtagatctcctcgatacCgggagcaaggtctagggggg	8	8	15	10	3	2	1	0	0	2	1	5	3	2	2	2	5	2	2	2	5	4	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:1109765C>T	uc002lrk.3	-	27	3278	c.3040G>A	c.(3040-3042)GGT>AGT	p.G1014S	SBNO2_uc002lri.3_5'Flank|SBNO2_uc002lrj.3_Missense_Mutation_p.G957S|SBNO2_uc010dse.2_Missense_Mutation_p.G997S|SBNO2_uc010xgj.1_Intron	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	1014					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		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)		TCCTCGATACCGGGAGCAAGG	0.672													6	34					0	0	0.021553	0	0		T	1109765	T	T	1109765	3	4	185	1	0	0	0	0	1	0	0	0	13888	652	23	1	1084	1	SBNO2	19	1109765	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08		1109765	58019218	263	92471											
STK11	6794	broad.mit.edu	37	chr19	1219322	1219322	+	Splice_Site	SNP	C	G	G	0	0	0	1	1	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	tgtgtgtccttagcgccccaCgtatatggtgatggagtact	7	13	12	9	2	0	1	0	1	0	0	1	2	1	2	3	2	2	2	3	2	4	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:1219322C>G	uc002lrl.1	+	3	1490	c.375_splice	c.e3-1	p.M125_splice		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11						anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)|p.?(2)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		TAGCGCCCCACGTATATGGTG	0.657		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			3	6					0	0	0.115264	0	0		G	1219322	G	G	1219322	5	3	185	1	0	0	0	0	0	0	1	0	15312	550	19	5	384	5	STK11	19	1219322	Splice_Site	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	109557	1219322	57909661	264	92472											
PTPRS	5802	broad.mit.edu	37	chr19	5218806	5218806	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggttcttacctgtcgggTttgctgttcccgaaagcaga	6	13	12	10	2	1	1	0	0	1	1	3	2	2	1	2	2	3	6	2	2	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:5218806T>G	uc002mbv.2	-	24	4161	c.3927A>C	c.(3925-3927)AAA>AAC	p.K1309N	PTPRS_uc002mbu.1_Missense_Mutation_p.K878N|PTPRS_uc010xin.1_Missense_Mutation_p.K878N|PTPRS_uc002mbw.2_Missense_Mutation_p.K1287N|PTPRS_uc002mbx.2_Missense_Mutation_p.K882N|PTPRS_uc002mby.2_Missense_Mutation_p.K878N	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1309	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		ACCTGTCGGGTTTGCTGTTCC	0.517													18	46					0	0	0.038395	0	0		G	5218806	G	G	5218806	3	3	185	1	0	0	0	0	1	0	0	0	12836	1722	60	5	1979	5	PTPRS	19	5218806	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	3999484	5218806	53910177	265	92473											
SLC25A23	79085	broad.mit.edu	37	chr19	6444244	6444244	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggatatggtaccgcaggcCaggagcacgaggatgcctgg	9	6	16	10	2	0	0	0	0	0	0	0	4	0	3	3	6	3	3	3	6	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:6444244C>T	uc002mex.1	-	9	1282	c.1140G>A	c.(1138-1140)CTG>CTA	p.L380L	SLC25A23_uc010duu.1_RNA|SLC25A23_uc002meu.2_RNA|SLC25A23_uc002mev.2_RNA|SLC25A23_uc002mew.1_RNA|SLC25A23_uc010xjd.1_Silent_p.L141L	NM_024103	NP_077008	Q9BV35	SCMC3_HUMAN	solute carrier family 25, member 23	380	Helical; Name=5; (Potential).|Solcar 3.				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)|pancreas(1)	2						TACCGCAGGCCAGGAGCACGA	0.642													4	12					0	0	0.009096	0	0		T	6444244	T	T	6444244	2	4	185	1	0	0	0	0	0	0	0	1	14511	581	21	4		4	SLC25A23	19	6444244	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1225438	6444244	52684739	266	92474											
ARHGEF18	23370	broad.mit.edu	37	chr19	7523439	7523439	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttacaaaagctcatcgtGagggaagtggccaacgagga	13	7	13	8	3	1	1	1	1	0	0	3	4	1	3	1	3	3	2	1	3	5	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:7523439G>T	uc002mgi.2	+	9	1912	c.1659G>T	c.(1657-1659)GTG>GTT	p.V553V	ARHGEF18_uc010xjm.1_Silent_p.V395V|ARHGEF18_uc002mgh.2_Silent_p.V395V|ARHGEF18_uc002mgj.1_Silent_p.V196V	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	553	PH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				AGCTCATCGTGAGGGAAGTGG	0.537													34	46					8.69298e-16	9.89466e-16	0.092188	1	0		T	7523439	T	T	7523439	2	4	185	1	0	0	0	0	0	0	0	1	901	1277	45	5		5	ARHGEF18	19	7523439	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1079195	7523439	51605544	267	92475											
STXBP2	6813	broad.mit.edu	37	chr19	7711164	7711164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctccagccggctggagccGagagaacgcatggagcccac	10	3	13	15	3	0	1	0	0	0	1	1	5	1	3	5	3	4	2	5	3	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:7711164G>A	uc002mha.3	+	16	1431	c.1386G>A	c.(1384-1386)CCG>CCA	p.P462P	STXBP2_uc002mhb.3_Silent_p.P459P|STXBP2_uc010dvj.2_RNA|STXBP2_uc010xjr.1_Silent_p.P473P|STXBP2_uc010dvk.2_Silent_p.P430P|STXBP2_uc002mhc.3_Intron|STXBP2_uc002mhe.1_Silent_p.P90P	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a	462					leukocyte mediated cytotoxicity|neutrophil degranulation|protein transport|regulation of mast cell degranulation|vesicle docking involved in exocytosis	azurophil granule|cytolytic granule|cytosol|specific granule|tertiary granule	syntaxin-3 binding			central_nervous_system(1)	1						GGCTGGAGCCGAGAGAACGCA	0.677													5	7					0	0	0.038147	0	0		A	7711164	A	A	7711164	2	1	185	1	0	0	0	0	0	0	0	1	15378	1045	37	1		1	STXBP2	19	7711164	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	187725	7711164	51417819	268	92476											
ACP5	54	broad.mit.edu	37	chr19	11687884	11687884	+	Silent	SNP	G	A	A	0	0	1	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	gcacagacctggaacctcttGtcattgatgtcttgcacacc	9	11	8	13	0	3	2	1	1	2	1	3	3	3	3	3	1	2	2	3	1	1	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:11687884G>A	uc002msg.3	-	2	395	c.249C>T	c.(247-249)GAC>GAT	p.D83D	ACP5_uc002msh.3_Silent_p.D83D|ACP5_uc002msi.3_Silent_p.D83D|ACP5_uc002msj.3_Silent_p.D83D|ACP5_uc010dye.1_Silent_p.D83D	NM_001611	NP_001602	P13686	PPA5_HUMAN	acid phosphatase 5, tartrate resistant	83					water-soluble vitamin metabolic process	cytosol|integral to membrane|lysosome	acid phosphatase activity|ferric iron binding|ferrous iron binding			central_nervous_system(1)	1						GGAACCTCTTGTCATTGATGT	0.562													31	49					0	0	0.050027	0	0		A	11687884	A	A	11687884	2	1	185	1	0	0	0	0	0	0	0	1	164	1368	48	4		4	ACP5	19	11687884	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3976720	11687884	47441099	269	92477											
KLF1	10661	broad.mit.edu	37	chr19	12996891	12996891	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtcctcagacttcacgtgGaggggcggctccgtggggtc	4	9	17	11	3	2	1	2	0	0	1	5	2	4	2	2	7	0	1	2	7	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:12996891G>T	uc002mvo.2	-	2	216	c.153C>A	c.(151-153)CTC>CTA	p.L51L		NM_006563	NP_006554	Q13351	KLF1_HUMAN	erythroid Kruppel-like factor	51	Pro-rich.				erythrocyte differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0		Hepatocellular(1079;0.137)		GBM - Glioblastoma multiforme(1328;0.00016)|Lung(535;0.171)|STAD - Stomach adenocarcinoma(1328;0.18)		ACTTCACGTGGAGGGGCGGCT	0.697													14	24					2.23348e-06	2.36163e-06	0.146539	1	0		T	12996891	T	T	12996891	2	4	185	1	0	0	0	0	0	0	0	1	8353	1161	41	5		5	KLF1	19	12996891	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1309007	12996891	46132092	270	92478											
RAB3A	5864	broad.mit.edu	37	chr19	18311163	18311163	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcactgcattgaaggattcCtcgttggtgatgtcatacat	9	14	10	8	1	1	2	1	2	0	0	3	3	2	3	1	2	3	3	1	2	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:18311163C>T	uc002nie.2	-	3	490	c.321G>A	c.(319-321)GAG>GAA	p.E107E		NM_002866	NP_002857	P20336	RAB3A_HUMAN	RAB3A, member RAS oncogene family	107					glutamate secretion|protein transport|small GTPase mediated signal transduction	clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|plasma membrane|synaptic vesicle	GTP binding|GTPase activity				0						TGAAGGATTCCTCGTTGGTGA	0.413													44	60					0	0	0.139131	0	0		T	18311163	T	T	18311163	2	4	185	1	0	0	0	0	0	0	0	1	12956	680	24	4		4	RAB3A	19	18311163	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	5314272	18311163	40817820	271	92479											
GRAMD1A	57655	broad.mit.edu	37	chr19	35510135	35510135	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtggggacagcaagtgccaCcagcgccgggtgctgacgta	9	5	16	11	3	0	1	0	1	0	0	0	2	0	2	3	3	4	3	3	3	2	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:35510135C>G	uc010xse.1	+	12	1391	c.1254C>G	c.(1252-1254)CAC>CAG	p.H418Q	GRAMD1A_uc002nxk.2_Missense_Mutation_p.H411Q|GRAMD1A_uc002nxl.2_Missense_Mutation_p.H184Q|GRAMD1A_uc010xsf.1_Missense_Mutation_p.H423Q|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_Missense_Mutation_p.H33Q	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	418						integral to membrane					0	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)			GCAAGTGCCACCAGCGCCGGG	0.667													28	41					0	0	0.116897	0	0		G	35510135	G	G	35510135	3	3	185	1	0	0	0	0	1	0	0	0	6763	506	18	5	1300	5	GRAMD1A	19	35510135	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	17198972	35510135	23618848	272	92480											
ARHGAP33	115703	broad.mit.edu	37	chr19	36273737	36273737	+	Missense_Mutation	SNP	A	C	C	1	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	acaccagcatgcatgcccgcAacctggccattgtctgggca	9	7	10	15	1	1	0	0	0	1	0	1	0	1	0	4	2	4	4	4	2	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:36273737A>C	uc002obr.1	+	15	1472	c.1387A>C	c.(1387-1389)AAC>CAC	p.N463H	ARHGAP33_uc002obs.1_Missense_Mutation_p.N463H|ARHGAP33_uc002obt.1_Missense_Mutation_p.N327H|ARHGAP33_uc010eel.2_Missense_Mutation_p.N51H|ARHGAP33_uc002obv.1_Missense_Mutation_p.N51H	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	463	Rho-GAP.				cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						GCATGCCCGCAACCTGGCCAT	0.657													5	15					0	0	0.021553	0	0		C	36273737	C	C	36273737	3	2	185	1	0	0	0	0	1	0	0	0	882	130	5	5	1445	5	ARHGAP33	19	36273737	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	763602	36273737	22855246	273	92481											
ACTN4	81	broad.mit.edu	37	chr19	39207941	39207941	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgccttcatgccctccgaGggcaagatggtctcggtgag	6	8	13	14	3	2	2	1	1	1	1	4	3	3	2	4	3	1	1	4	3	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:39207941G>A	uc002oja.1	+	10	1187	c.1128G>A	c.(1126-1128)GAG>GAA	p.E376E	ACTN4_uc010egc.1_Silent_p.E376E	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	376	Spectrin 1.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TGCCCTCCGAGGGCAAGATGG	0.617													17	18					0	0	0.038395	0	0		A	39207941	A	A	39207941	2	1	185	1	0	0	0	0	0	0	0	1	207	991	35	4		4	ACTN4	19	39207941	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	2934204	39207941	19921042	274	92482											
SPTBN4	57731	broad.mit.edu	37	chr19	41009957	41009957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggcttgtgggtgcccggcGgacacgacttgagcagaacc	7	7	16	11	3	0	2	0	1	0	1	0	4	0	3	2	4	3	2	2	4	1	2	rs145007629		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:41009957G>A	uc002ony.2	+	12	1669	c.1583G>A	c.(1582-1584)CGG>CAG	p.R528Q	SPTBN4_uc002onx.2_Missense_Mutation_p.R528Q|SPTBN4_uc002onz.2_Missense_Mutation_p.R528Q	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	528	Spectrin 3.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GGTGCCCGGCGGACACGACTT	0.652													12	81					0	0	0.105934	0	0		A	41009957	A	A	41009957	3	1	185	1	0	0	0	0	1	0	0	0	15146	1116	39	1	1625	1	SPTBN4	19	41009957	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1802016	41009957	18119026	275	92483											
LTBP4	8425	broad.mit.edu	37	chr19	41115559	41115559	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gctcagcccccagggcacccGatgcattggtgagcaagacg	9	5	13	14	2	1	2	1	1	0	1	1	3	1	2	3	2	3	4	3	2	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:41115559G>C	uc002ooh.1	+	13	1751	c.1751G>C	c.(1750-1752)CGA>CCA	p.R584P	LTBP4_uc002oog.1_Missense_Mutation_p.R547P|LTBP4_uc002ooi.1_Missense_Mutation_p.R517P|LTBP4_uc002ooj.1_5'Flank|LTBP4_uc010xvo.1_5'Flank|LTBP4_uc010ehb.1_5'Flank|LTBP4_uc002ook.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	584	Cys-rich.|EGF-like 3.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CAGGGCACCCGATGCATTGGT	0.692													19	27					0	0	0.049695	0	0		C	41115559	C	C	41115559	3	2	185	1	0	0	0	0	1	0	0	0	9094	1058	37	5	2094	5	LTBP4	19	41115559	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	105602	41115559	18013424	276	92484											
GRIK5	2901	broad.mit.edu	37	chr19	42510076	42510076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcatgtagttccacatgcGctggtacgtttggtaccgtg	6	13	12	10	3	0	0	0	0	0	0	1	0	1	0	2	2	4	7	2	2	3	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:42510076G>A	uc002osj.1	-	16	2097	c.2062C>T	c.(2062-2064)CGC>TGC	p.R688C	GRIK5_uc002osi.1_Missense_Mutation_p.R260C	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	688	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	TTCCACATGCGCTGGTACGTT	0.587													5	8					0	0	0.021553	0	0		A	42510076	A	A	42510076	3	1	185	1	0	0	0	0	1	0	0	0	6793	1087	38	1	896	1	GRIK5	19	42510076	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1394517	42510076	16618907	277	92485											
GSK3A	2931	broad.mit.edu	37	chr19	42736796	42736796	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tactccagcaggctagagcaGagcgcgatggcctctggcgg	8	6	15	12	3	1	2	0	0	1	2	2	3	2	2	2	4	4	3	2	4	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:42736796G>A	uc002otb.1	-	9	1256	c.1137C>T	c.(1135-1137)CTC>CTT	p.L379L	GSK3A_uc002ota.1_Silent_p.L297L|GSK3A_uc002otc.2_RNA	NM_019884	NP_063937	P49840	GSK3A_HUMAN	glycogen synthase kinase 3 alpha	379	Protein kinase.				insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of insulin receptor signaling pathway|negative regulation of transferase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein catabolic process	beta-catenin destruction complex|cytosol	ATP binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|tau-protein kinase activity			ovary(2)|lung(2)	4		Prostate(69;0.00682)				GGCTAGAGCAGAGCGCGATGG	0.587													15	35					0	0	0.146539	0	0		A	42736796	A	A	42736796	2	1	185	1	0	0	0	0	0	0	0	1	6839	929	33	4		4	GSK3A	19	42736796	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	226720	42736796	16392187	278	92486											
IRGC	56269	broad.mit.edu	37	chr19	44223739	44223739	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	gaggtctcgcctgagactgtCctgcggctctattcccagtc	5	11	11	14	2	2	1	0	1	2	1	6	3	4	1	3	2	1	1	3	2	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:44223739C>G	uc002oxh.2	+	2	1176	c.1029C>G	c.(1027-1029)GTC>GTG	p.V343V		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	343						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				CTGAGACTGTCCTGCGGCTCT	0.672													12	29					0	0	0.11911	0	0		G	44223739	G	G	44223739	2	3	185	1	0	0	0	0	0	0	0	1	7854	842	30	5		5	IRGC	19	44223739	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1486943	44223739	14905244	279	92487											
ZNF230	7773	broad.mit.edu	37	chr19	44514462	44514462	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggaccacatgaagactgcCcttgccagcaaatctgggaa	13	6	10	12	0	1	2	0	1	1	1	1	4	1	4	3	2	3	1	3	2	3	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:44514462C>A	uc002oyb.1	+	5	522	c.271C>A	c.(271-273)CCT>ACT	p.P91T		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	91	KRNB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				TGAAGACTGCCCTTGCCAGCA	0.438													12	33					0.00244969	0.00248827	0.11911	1	0		A	44514462	A	A	44514462	3	1	185	1	0	0	0	0	1	0	0	0	17809	623	22	5	285	5	ZNF230	19	44514462	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	290723	44514462	14614521	280	92488											
ZNF233	353355	broad.mit.edu	37	chr19	44778486	44778486	+	Missense_Mutation	SNP	A	G	G	1	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	ccaagaccatcagcaagtccAtactggagagaatccctaca	15	6	7	13	0	1	2	1	0	0	2	3	4	3	3	4	1	3	1	4	1	5	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:44778486A>G	uc002oyz.1	+	5	1800	c.1673A>G	c.(1672-1674)CAT>CGT	p.H558R	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Missense_Mutation_p.H373R	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	558	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)				CAGCAAGTCCATACTGGAGAG	0.478													25	40					0	0	0.0918	0	0		G	44778486	G	G	44778486	3	3	185	1	0	0	0	0	1	0	0	0	17811	217	8	3	1687	3	ZNF233	19	44778486	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	264024	44778486	14350497	281	92489											
ZNF296	162979	broad.mit.edu	37	chr19	45574995	45574995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccgtgcatgcggcggtggCggttgagcttactgctctgg	3	11	17	10	4	1	1	0	1	1	0	1	1	1	1	1	5	6	4	1	5	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:45574995C>T	uc002pao.2	-	3	1349	c.1292G>A	c.(1291-1293)CGC>CAC	p.R431H		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	431	C2H2-type 5.				regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCGGCGGTGGCGGTTGAGCTT	0.667													34	61					0	0	0.054565	0	0		T	45574995	T	T	45574995	3	4	185	1	0	0	0	0	1	0	0	0	17853	768	27	1	139	1	ZNF296	19	45574995	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	796509	45574995	13553988	282	92490											
PPM1N	147699	broad.mit.edu	37	chr19	46002514	46002514	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	cagaggtggccgcactggcaCgccaggctgaggacgagttc	8	5	16	12	3	0	2	0	1	0	1	1	4	0	3	2	5	0	4	2	5	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:46002514C>A	uc002pce.2	+	1	784	c.784C>A	c.(784-786)CGC>AGC	p.R262S	RTN2_uc002pcb.2_5'Flank|RTN2_uc002pcc.2_5'Flank|RTN2_uc002pcd.2_5'Flank|PPM1N_uc002pcf.2_5'Flank	NM_001080401	NP_001073870	Q8N819	PPM1N_HUMAN	protein phosphatase 1B-like	262	PP2C-like.						magnesium ion binding|manganese ion binding|phosphoprotein phosphatase activity				0						CGCACTGGCACGCCAGGCTGA	0.662													7	61					0.000157383	0.000161558	0.038147	1	0		A	46002514	A	A	46002514	3	1	185	1	0	0	0	0	1	0	0	0	12368	536	19	5	786	5	PPM1N	19	46002514	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	427519	46002514	13126469	283	92491											
CCDC9	26093	broad.mit.edu	37	chr19	47774720	47774720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggctgcccccaccgggatcCcctgcagtgagcaggcccac	7	4	12	18	1	0	1	0	1	0	0	1	2	1	2	6	3	3	3	6	3	0	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:47774720C>T	uc010xym.1	+	12	1588	c.1381C>T	c.(1381-1383)CCC>TCC	p.P461S		NM_015603	NP_056418	Q9Y3X0	CCDC9_HUMAN	coiled-coil domain containing 9	461											0		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)		CACCGGGATCCCCTGCAGTGA	0.512													8	66					0	0	0.047766	0	0		T	47774720	T	T	47774720	3	4	185	1	0	0	0	0	1	0	0	0	2870	623	22	4	1423	4	CCDC9	19	47774720	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1772206	47774720	11354263	284	92492											
EHD2	30846	broad.mit.edu	37	chr19	48244185	48244185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtttcactcgctgaagccGaagctgctagaggcactgga	11	8	12	10	2	1	2	1	1	0	1	2	4	1	3	1	2	3	5	1	2	4	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:48244185G>A	uc002phj.3	+	6	1378	c.1128G>A	c.(1126-1128)CCG>CCA	p.P376P	EHD2_uc010xyu.1_Silent_p.P240P|EHD2_uc010xyv.1_Silent_p.P59P	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	376					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		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)		CGCTGAAGCCGAAGCTGCTAG	0.642													20	42					0	0	0.049695	0	0		A	48244185	A	A	48244185	2	1	185	1	0	0	0	0	0	0	0	1	4984	1045	37	1		1	EHD2	19	48244185	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	469465	48244185	10884798	285	92493											
ZNF677	342926	broad.mit.edu	37	chr19	53741187	53741187	+	Missense_Mutation	SNP	A	G	G	1	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	agcctttccacagtcattacActtgtatgatttttctctaa	10	17	4	10	0	2	1	1	1	1	0	4	1	3	1	2	0	2	1	2	0	3	7	rs141599719		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:53741187A>G	uc002qbf.1	-	5	978	c.793T>C	c.(793-795)TGT>CGT	p.C265R	ZNF677_uc002qbg.1_Missense_Mutation_p.C265R	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	265	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		CAGTCATTACACTTGTATGAT	0.343													20	44					0	0	0.062417	0	0		G	53741187	G	G	53741187	3	3	185	1	0	0	0	0	1	0	0	0	18109	159	6	3	965	3	ZNF677	19	53741187	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	5497002	53741187	5387796	286	92494											
PRKCG	5582	broad.mit.edu	37	chr19	54409676	54409676	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgactgggagcggctggaaCgattggagatcccgcctcct	7	9	14	11	3	0	2	0	1	0	1	2	6	2	4	3	4	2	1	3	4	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:54409676C>T	uc002qcq.1	+	17	2152	c.1870C>T	c.(1870-1872)CGA>TGA	p.R624*	PRKCG_uc010yeg.1_Nonsense_Mutation_p.R624*|PRKCG_uc010yeh.1_Nonsense_Mutation_p.R475*	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	624	AGC-kinase C-terminal.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GCGGCTGGAACGATTGGAGAT	0.622											OREG0025667	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	6					0	0	0.014758	0	0		T	54409676	T	T	54409676	4	4	185	1	0	0	0	0	0	1	0	0	12534	528	19	1	1936	1	PRKCG	19	54409676	Nonsense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	668489	54409676	4719307	287	92495											
TMEM190	147744	broad.mit.edu	37	chr19	55889085	55889085	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	tgctaccaccagcgtccagaCggtgagggctcctggcccca	7	6	12	16	2	0	2	0	1	0	1	2	2	2	2	6	3	3	2	6	3	1	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:55889085C>G	uc002qkt.1	+	3	237	c.219C>G	c.(217-219)GAC>GAG	p.D73E		NM_139172	NP_631911	Q8WZ59	TM190_HUMAN	transmembrane protein 190 precursor	73	Extracellular (Potential).					integral to membrane					0	Breast(117;0.191)		BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		AGCGTCCAGACGGTGAGGGCT	0.682													35	53					0	0	0.074837	0	0		G	55889085	G	G	55889085	3	3	185	1	0	0	0	0	1	0	0	0	16139	550	19	5	229	5	TMEM190	19	55889085	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1479409	55889085	3239898	288	92496											
NLRP4	147945	broad.mit.edu	37	chr19	56388502	56388502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgttgtgtcgggctctgaCgcatacggattgccgcttag	5	12	14	10	4	1	1	0	1	1	0	2	2	1	2	1	2	2	5	1	2	2	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:56388502C>T	uc002qmd.3	+	8	3088	c.2666C>T	c.(2665-2667)ACG>ATG	p.T889M	NLRP4_uc002qmf.2_Missense_Mutation_p.T814M|NLRP4_uc010etf.2_Missense_Mutation_p.T664M	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	889							ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		CGGGCTCTGACGCATACGGAT	0.493													50	93					0	0	0.139131	0	0		T	56388502	T	T	56388502	3	4	185	1	0	0	0	0	1	0	0	0	10498	536	19	1	2692	1	NLRP4	19	56388502	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	499417	56388502	2740481	289	92497											
ZSCAN4	201516	broad.mit.edu	37	chr19	58189625	58189625	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaggcaatcaaatagtttcCctaatcatcatccaggaaga	16	9	6	10	0	3	1	3	0	0	1	5	2	5	2	2	2	0	2	2	2	6	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr19:58189625C>T	uc002qpu.2	+	5	1351	c.654C>T	c.(652-654)TCC>TCT	p.S218S		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	218					telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		AAATAGTTTCCCTAATCATCA	0.403													23	39					0	0	0.083992	0	0		T	58189625	T	T	58189625	2	4	185	1	0	0	0	0	0	0	0	1	18262	610	22	4		4	ZSCAN4	19	58189625	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	1801123	58189625	939358	290	92498											
TGM6	343641	broad.mit.edu	37	chr20	2384321	2384321	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgtgtttgcggaggtcaaCgccgactacatcacctggct	7	11	11	12	4	2	0	2	0	0	0	3	2	2	1	2	3	3	2	2	3	2	3	rs145029765		TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:2384321C>T	uc002wfy.1	+	9	1249	c.1188C>T	c.(1186-1188)AAC>AAT	p.N396N	TGM6_uc010gal.1_Silent_p.N396N	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	396		Calcium (By similarity).			cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	CGGAGGTCAACGCCGACTACA	0.617													7	108					0	0	0.02938	0	0		T	2384321	T	T	2384321	2	4	185	1	0	0	0	0	0	0	0	1	15859	535	19	1		1	TGM6	20	2384321	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08		2384321	60641199	291	92499											
SLC4A11	83959	broad.mit.edu	37	chr20	3211489	3211489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccggctatggtcttctgcaCgtctgtgggggtgcggaggt	3	11	17	10	3	3	0	0	0	3	0	3	1	3	1	1	6	2	2	1	6	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:3211489C>T	uc002wig.2	-	10	1267	c.1219G>A	c.(1219-1221)GTG>ATG	p.V407M	SLC4A11_uc010zqe.1_Missense_Mutation_p.V434M|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.V391M	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	407	Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						GTCTTCTGCACGTCTGTGGGG	0.711													37	48					0	0	0.080422	0	0		T	3211489	T	T	3211489	3	4	185	1	0	0	0	0	1	0	0	0	14677	536	19	1	1496	1	SLC4A11	20	3211489	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	827168	3211489	59814031	292	92500											
ESF1	51575	broad.mit.edu	37	chr20	13763319	13763319	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtaaattctttgctatcCttcttcggacttatgtttga	7	20	7	7	1	2	1	0	1	2	0	4	2	3	2	1	1	1	3	1	1	4	8			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:13763319C>A	uc002woj.2	-	2	576	c.468G>T	c.(466-468)AAG>AAT	p.K156N	ESF1_uc002wok.1_Missense_Mutation_p.K156N|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	156	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						CTTTGCTATCCTTCTTCGGAC	0.274													16	29					1.3612e-06	1.44721e-06	0.132662	1	0		A	13763319	A	A	13763319	3	1	185	1	0	0	0	0	1	0	0	0	5259	680	24	5	2139	5	ESF1	20	13763319	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	10551830	13763319	49262201	293	92501											
CBFA2T2	9139	broad.mit.edu	37	chr20	32224501	32224501	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatacgtacctgtggagttTtggaaaaaaacaggtatgtg	13	11	13	4	1	0	0	0	0	0	0	0	3	0	3	1	4	3	3	1	4	6	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:32224501T>C	uc002wzg.1	+	10	1848	c.1311T>C	c.(1309-1311)TTT>TTC	p.F437F	CBFA2T2_uc010zug.1_Silent_p.F211F|CBFA2T2_uc002wze.1_Silent_p.F428F|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.F408F|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_5'Flank	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	437						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						CTGTGGAGTTTTGGAAAAAAA	0.438													43	64					0	0	0.117977	0	0		C	32224501	C	C	32224501	2	2	185	1	0	0	0	0	0	0	0	1	2700	1838	64	3		3	CBFA2T2	20	32224501	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	18461182	32224501	30801019	294	92502											
RALGAPB	57148	broad.mit.edu	37	chr20	37174983	37174983	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgattaaatactccaggctgCcaaccataaacaagcatagt	16	9	6	10	0	0	1	0	1	0	0	1	1	1	1	3	1	5	2	3	1	8	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:37174983C>A	uc002xiw.2	+	19	3069	c.2812C>A	c.(2812-2814)CCA>ACA	p.P938T	RALGAPB_uc002xix.2_Missense_Mutation_p.P934T|RALGAPB_uc002xiy.1_Missense_Mutation_p.P938T|RALGAPB_uc002xiz.2_Missense_Mutation_p.P716T|RALGAPB_uc002xja.1_Missense_Mutation_p.P665T	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	938					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CTCCAGGCTGCCAACCATAAA	0.443													35	60					8.53417e-09	9.22549e-09	0.054565	1	0		A	37174983	A	A	37174983	3	1	185	1	0	0	0	0	1	0	0	0	13040	739	26	5	2882	5	RALGAPB	20	37174983	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	4950482	37174983	25850537	295	92503											
PTPRT	11122	broad.mit.edu	37	chr20	40790084	40790084	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggatggcgggttggaactGgtcccgggggtagctcatct	5	9	17	10	3	2	0	1	0	1	0	3	2	3	2	2	7	2	3	2	7	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:40790084G>T	uc002xkg.2	-	17	2774	c.2590C>A	c.(2590-2592)CAG>AAG	p.Q864K	PTPRT_uc010ggj.2_Missense_Mutation_p.Q883K|PTPRT_uc010ggi.2_Missense_Mutation_p.Q67K	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	864	Cytoplasmic (Potential).				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GGTTGGAACTGGTCCCGGGGG	0.612													34	164					1.49673e-21	1.74996e-21	0.086207	1	0		T	40790084	T	T	40790084	3	4	185	1	0	0	0	0	1	0	0	0	12837	1357	47	5	1795	5	PTPRT	20	40790084	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3615101	40790084	22235436	296	92504											
CYP24A1	1591	broad.mit.edu	37	chr20	52774059	52774059	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccaacgttcaggtctaaaCtgacttgaatcttcaaaatt	14	12	6	9	1	4	2	2	2	2	0	4	2	4	2	1	1	3	1	1	1	6	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:52774059C>T	uc002xwv.2	-	10	1700	c.1302G>A	c.(1300-1302)CAG>CAA	p.Q434Q	CYP24A1_uc002xwu.1_Silent_p.Q292Q|CYP24A1_uc002xww.2_Intron	NM_000782	NP_000773	Q07973	CP24A_HUMAN	cytochrome P450 family 24 subfamily A	434					hormone biosynthetic process|osteoblast differentiation|vitamin D catabolic process|vitamin D receptor signaling pathway|xenobiotic metabolic process	mitochondrial inner membrane	1-alpha,25-dihydroxyvitamin D3 24-hydroxylase activity|electron carrier activity|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3	Lung NSC(4;1.08e-05)|all_lung(4;2.7e-05)		STAD - Stomach adenocarcinoma(23;0.206)		Calcidiol(DB00146)|Calcitriol(DB00136)|Cholecalciferol(DB00169)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	CAGGTCTAAACTGACTTGAAT	0.398													44	127					0	0	0.139131	0	0		T	52774059	T	T	52774059	2	4	185	1	0	0	0	0	0	0	0	1	4157	564	20	4		4	CYP24A1	20	52774059	Silent	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	11983975	52774059	10251461	297	92505											
OPRL1	4987	broad.mit.edu	37	chr20	62724306	62724306	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatgtacgtcatcctcaGgtaggctgggccccaaggtt	7	11	12	11	1	3	0	3	0	0	0	4	0	4	0	3	4	1	4	3	4	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr20:62724306G>T	uc002yic.2	+	3	635	c.233G>T	c.(232-234)AGG>ATG	p.R78M	OPRL1_uc002yid.2_Missense_Mutation_p.R78M|OPRL1_uc002yif.3_Intron	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	78	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					GTCATCCTCAGGTAGGCTGGG	0.622													37	13					1.07637e-12	1.19356e-12	0.074837	1	0		T	62724306	T	T	62724306	3	4	185	1	0	0	0	0	1	0	0	0	10905	1014	35	5	235	5	OPRL1	20	62724306	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	9950247	62724306	301214	298	92506											
DOPEY2	9980	broad.mit.edu	37	chr21	37617880	37617880	+	Missense_Mutation	SNP	A	T	T	1	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	cgacgaggaggcggacttggAgctccaggccctcaccacat	9	5	13	14	3	1	0	1	0	0	0	2	5	2	3	3	5	1	1	3	5	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr21:37617880A>T	uc002yvg.2	+	19	3681	c.3602A>T	c.(3601-3603)GAG>GTG	p.E1201V	DOPEY2_uc011aeb.1_Missense_Mutation_p.E1150V|DOPEY2_uc002yvh.2_Missense_Mutation_p.E52V	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1201					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						GCGGACTTGGAGCTCCAGGCC	0.617													25	9					0	0	0.083992	0	0		T	37617880	T	T	37617880	3	4	185	1	0	0	0	0	1	0	0	0	4714	304	11	5	3672	5	DOPEY2	21	37617880	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08		37617880	10512015	299	92507											
RSPH1	89765	broad.mit.edu	37	chr21	43916250	43916257	+	Frame_Shift_Del	DEL	TCATTCTC	-	-																															caggagctctcaccccaataTcattctctccctcctcctcc																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr21:43916250_43916257delTCATTCTC	uc002zbg.2	-	1	145_152	c.40_47delGAGAATGA	c.(40-48)GAGAATGATfs	p.E14fs	SLC37A1_uc002zbh.1_RNA	NM_080860	NP_543136	Q8WYR4	RSPH1_HUMAN	testis-specific gene A2	14_16					meiosis	cytosol|nucleus				ovary(1)	1						CACCCCAATATCATTCTCTCCCTCCTCC	0.635													26	29	---	---	---	---						.	-	43916257	-	-	43916250	7	5	185	1	0	1	0	1	0	0	0	0	13727	1435	50	0	918	0	RSPH1	21	43916250	Frame_Shift_Del	DEL	TCATTCTC	TCGA-D7-A4YT-01A-11D-A25D-08	6298370	43916250	4213645	300	92508											
PCNT	5116	broad.mit.edu	37	chr21	47786946	47786946	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcaagagttggagaaactGaagcggaaacacgaagggga	17	4	14	6	2	1	3	1	1	0	2	1	7	1	5	0	4	3	1	0	4	5	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr21:47786946G>A	uc002zji.3	+	15	3164	c.3057G>A	c.(3055-3057)CTG>CTA	p.L1019L	PCNT_uc002zjj.2_Silent_p.L901L	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1019	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					TGGAGAAACTGAAGCGGAAAC	0.547													48	32					0	0	0.139131	0	0		A	47786946	A	A	47786946	2	1	185	1	0	0	0	0	0	0	0	1	11609	1277	45	4		4	PCNT	21	47786946	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	3870696	47786946	342949	301	92509											
OR11H1	81061	broad.mit.edu	37	chr22	16448951	16448952	+	Frame_Shift_Ins	INS	-	T	T																															caaagtttcaattttctgcaINStccctgtagaatgtccgagt																										TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr22:16448951_16448952insT	uc011agd.1	-	1	853_854	c.853_854insA	c.(853-855)ATGfs	p.M285fs		NM_001005239	NP_001005239	Q8NG94	O11H1_HUMAN	olfactory receptor, family 11, subfamily H,	285	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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)		AATTTTCTGCATCCCTGTAGAA	0.465													21	30	---	---	---	---						.	T	16448952	T	T	16448951	7	5	185	1	0	1	1	0	0	0	0	0	10945	217	8	0	128	0	OR11H1	22	16448951	Frame_Shift_Ins	INS	-	TCGA-D7-A4YT-01A-11D-A25D-08		16448951	34855615	302	92510											
IL17RA	23765	broad.mit.edu	37	chr22	17577950	17577950	+	Splice_Site	SNP	A	T	T	1	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	aaccaccctcttttttccacAggggctaaactgcacggtca	10	10	7	14	1	2	0	1	0	1	0	3	0	3	0	3	3	3	2	3	3	3	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr22:17577950A>T	uc002zly.2	+	2	272	c.139_splice	c.e2-2	p.G47_splice	IL17RA_uc010gqt.2_Splice_Site_p.G47_splice	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor						fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		TTTTTTCCACAGGGGCTAAAC	0.463													32	57					0	0	0.086207	0	0		T	17577950	T	T	17577950	5	4	185	1	0	0	0	0	0	0	1	0	7655	202	7	5	143	5	IL17RA	22	17577950	Splice_Site	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	1128999	17577950	33726616	303	92511											
APOL5	80831	broad.mit.edu	37	chr22	36123193	36123193	+	Missense_Mutation	SNP	A	G	G	1	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	aggcgagccagacctgttccAgctcccggggcagggctgtt	6	7	15	13	2	0	1	0	0	0	1	2	2	2	1	4	4	2	5	4	4	0	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr22:36123193A>G	uc003aof.2	+	3	1078	c.1078A>G	c.(1078-1080)AGC>GGC	p.S360G		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	360					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						GACCTGTTCCAGCTCCCGGGG	0.587													30	41					0	0	0.134883	0	0		G	36123193	G	G	36123193	3	3	185	1	0	0	0	0	1	0	0	0	809	188	7	3	1088	3	APOL5	22	36123193	Missense_Mutation	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	18545243	36123193	15181373	304	92512											
CYTH4	27128	broad.mit.edu	37	chr22	37690712	37690712	+	Missense_Mutation	SNP	T	A	A	0	1	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	accccacagaagctgaaggaTgagattgcagatgtgtttgc	12	9	12	8	0	0	4	0	2	0	3	0	6	0	5	2	1	3	3	2	1	2	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr22:37690712T>A	uc003arf.2	+	3	230	c.114T>A	c.(112-114)GAT>GAA	p.D38E	CYTH4_uc003ard.3_Missense_Mutation_p.D38E|CYTH4_uc003are.2_Missense_Mutation_p.D38E|CYTH4_uc011amw.1_5'UTR|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	38	Potential.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						AGCTGAAGGATGAGATTGCAG	0.607													42	54					0	0	0.139131	0	0		A	37690712	A	A	37690712	3	1	185	1	0	0	0	0	1	0	0	0	4209	1461	51	5	124	5	CYTH4	22	37690712	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	1567519	37690712	13613854	305	92513											
MICALL1	85377	broad.mit.edu	37	chr22	38322052	38322052	+	Splice_Site	SNP	T	C	C	0	1	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	cccagcgcgtccccactgggTgagtgcctttcctggagctc	4	9	12	16	2	0	1	0	1	0	0	3	2	2	2	5	2	3	1	5	2	0	1			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr22:38322052T>C	uc003aui.2	+	8	1549	c.1465_splice	c.e8+2	p.A489_splice		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13							cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					CCCCACTGGGTGAGTGCCTTT	0.627													8	23					0	0	0.058154	0	0		C	38322052	C	C	38322052	5	2	185	1	0	0	0	0	0	0	1	0	9591	1710	59	3	1497	3	MICALL1	22	38322052	Splice_Site	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	631340	38322052	12982514	306	92514											
PHF21B	112885	broad.mit.edu	37	chr22	45312274	45312274	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggaggtggagatgatggcGtaggccacccccgcactgct	7	6	17	11	2	0	2	0	1	0	1	0	4	0	3	3	6	1	3	3	6	1	1	rs115694109	byFrequency	TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chr22:45312274G>A	uc003bfn.2	-	4	601	c.450C>T	c.(448-450)TAC>TAT	p.Y150Y	PHF21B_uc003bfm.2_Translation_Start_Site|PHF21B_uc011aqk.1_Silent_p.Y138Y|PHF21B_uc011aql.1_Silent_p.Y150Y|PHF21B_uc011aqm.1_Silent_p.Y138Y	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1	150							zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		AGATGATGGCGTAGGCCACCC	0.692													13	16					0	0	0.105934	0	0		A	45312274	A	A	45312274	2	1	185	1	0	0	0	0	0	0	0	1	11853	1140	40	1		1	PHF21B	22	45312274	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	6990222	45312274	5992292	307	92515											
FAM9B	171483	broad.mit.edu	37	chrX	8995918	8995918	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atagaacagacctttacgaaTtggtcacgtagcagcttcat	13	11	8	9	2	2	2	2	0	0	2	2	3	2	2	1	1	4	3	1	1	5	6			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:8995918T>C	uc011mhu.1	-	6	572	c.483A>G	c.(481-483)CAA>CAG	p.Q161Q	FAM9B_uc011mhv.1_RNA|FAM9B_uc004csh.2_Silent_p.Q201Q	NM_205849	NP_995321	Q8IZU0	FAM9B_HUMAN	family with sequence similarity 9, member B	161						nucleus					0		Hepatocellular(5;0.219)				CCTTTACGAATTGGTCACGTA	0.363													28	61					0	0	0.116897	0	0		C	8995918	C	C	8995918	2	2	185	1	0	0	0	0	0	0	0	1	5674	1490	52	3		3	FAM9B	23	8995918	Silent	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08		8995918	146274642	308	92516											
ARHGAP6	395	broad.mit.edu	37	chrX	11162130	11162130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccttggtccaggagaactttCccttgactttgacgacgaca	9	11	9	12	2	0	3	0	2	0	1	2	6	2	3	3	2	1	0	3	2	1	4			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:11162130C>T	uc004cup.1	-	11	3019	c.2146G>A	c.(2146-2148)GAA>AAA	p.E716K	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.E716K|ARHGAP6_uc004cum.1_Missense_Mutation_p.E513K|ARHGAP6_uc004cun.1_Missense_Mutation_p.E536K|ARHGAP6_uc010neb.1_Missense_Mutation_p.E538K|ARHGAP6_uc011mif.1_3'UTR	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	716					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						GGAGAACTTTCCCTTGACTTT	0.592											OREG0019666	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	210	38					0	0	0.139131	0	0		T	11162130	T	T	11162130	3	4	185	1	0	0	0	0	1	0	0	0	887	864	30	4	912	4	ARHGAP6	23	11162130	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	2166212	11162130	144108430	309	92517											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29301315	29301315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cattgctacaggacagtggtCtctacgcctgtgtcatcagg	8	11	11	11	1	3	0	2	0	1	0	4	1	3	1	1	3	3	1	1	3	2	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:29301315C>T	uc004dby.2	+	3	851	c.343C>T	c.(343-345)CTC>TTC	p.L115F		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1	115	Ig-like C2-type 1.|Extracellular (Potential).				innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						GGACAGTGGTCTCTACGCCTG	0.438													37	14					0	0	0.09836	0	0		T	29301315	T	T	29301315	3	4	185	1	0	0	0	0	1	0	0	0	7677	913	32	4	349	4	IL1RAPL1	23	29301315	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	18139185	29301315	125969245	310	92518											
WDR13	64743	broad.mit.edu	37	chrX	48460231	48460231	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccacaggcaagaaagtgaaGgggggctccagcaagctgac	13	4	14	10	0	0	3	0	2	0	1	2	3	2	3	2	4	2	4	2	4	4	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:48460231G>A	uc004dkh.1	+	7	1038	c.891G>A	c.(889-891)AAG>AAA	p.K297K	WDR13_uc010nif.1_Silent_p.K175K|WDR13_uc004dki.1_Silent_p.K205K|WDR13_uc004dkj.1_Silent_p.K297K|WDR13_uc004dkk.1_Silent_p.K205K|WDR13_uc004dkl.3_Silent_p.K205K	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein	297						cytoplasm|nucleus				ovary(2)	2						AGAAAGTGAAGGGGGGCTCCA	0.582													11	10					0	0	0.069234	0	0		A	48460231	A	A	48460231	2	1	185	1	0	0	0	0	0	0	0	1	17301	991	35	4		4	WDR13	23	48460231	Silent	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	19158916	48460231	106810329	311	92519											
GATA1	2623	broad.mit.edu	37	chrX	48651642	48651642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaccaccacgacactgtggCggagaaatgccagtggggat	11	5	14	11	3	0	1	0	0	0	1	0	5	0	2	3	4	1	0	3	4	1	0			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:48651642C>T	uc004dkq.3	+	5	899	c.808C>T	c.(808-810)CGG>TGG	p.R270W		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	270	GATA-type 2.				basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						GACACTGTGGCGGAGAAATGC	0.602			Mis|F		megakaryoblastic leukemia of Downs Syndrome								22	7					0	0	0.069288	0	0		T	48651642	T	T	48651642	3	4	185	1	0	0	0	0	1	0	0	0	6268	759	27	1	822	1	GATA1	23	48651642	Missense_Mutation	SNP	C	TCGA-D7-A4YT-01A-11D-A25D-08	191411	48651642	106618918	312	92520											
PGK1	5230	broad.mit.edu	37	chrX	77378856	77378856	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccactgtggcttctggcatAcctgctggctggatggtgag	5	11	15	10	0	1	1	0	1	1	0	1	2	1	2	2	5	2	4	2	5	1	2			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:77378856A>T	uc004ecz.3	+	8	1093	c.921A>T	c.(919-921)ATA>ATT	p.I307I	PGK1_uc010nlz.2_RNA|PGK1_uc011mqq.1_Silent_p.I279I	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1	307					gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						CTTCTGGCATACCTGCTGGCT	0.463													12	7					0	0	0.105934	0	0		T	77378856	T	T	77378856	2	4	185	1	0	0	0	0	0	0	0	1	11809	381	14	5		5	PGK1	23	77378856	Silent	SNP	A	TCGA-D7-A4YT-01A-11D-A25D-08	28727214	77378856	77891704	313	92521											
CYLC1	1538	broad.mit.edu	37	chrX	83129174	83129174	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgcagaatctactgaaatGgaatctgatttggagttaaa	16	12	9	4	0	2	3	0	2	2	1	2	5	2	5	0	2	2	2	0	2	7	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:83129174G>A	uc004eei.1	+	4	1479	c.1458G>A	c.(1456-1458)ATG>ATA	p.M486I	CYLC1_uc004eeh.1_Missense_Mutation_p.M485I	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	486	6.				cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						CTACTGAAATGGAATCTGATT	0.338													14	4					0	0	0.11911	0	0		A	83129174	A	A	83129174	3	1	185	1	0	0	0	0	1	0	0	0	4144	1348	47	4	1472	4	CYLC1	23	83129174	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	5750318	83129174	72141386	314	92522											
ZNF711	7552	broad.mit.edu	37	chrX	84526498	84526498	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggaagattcatcagtgcagGcactgtgactttaaaacatc	14	10	9	8	0	2	2	2	1	0	1	3	3	2	3	0	2	2	2	0	2	3	3			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:84526498G>C	uc004eeo.2	+	9	2297	c.1950G>C	c.(1948-1950)AGG>AGC	p.R650S	ZNF711_uc004eep.2_Missense_Mutation_p.R650S|ZNF711_uc004eeq.2_Missense_Mutation_p.R696S|ZNF711_uc011mqy.1_Missense_Mutation_p.R249S	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	650	C2H2-type 9.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						ATCAGTGCAGGCACTGTGACT	0.393													32	11					0	0	0.050027	0	0		C	84526498	C	C	84526498	3	2	185	1	0	0	0	0	1	0	0	0	18141	1194	42	5	1976	5	ZNF711	23	84526498	Missense_Mutation	SNP	G	TCGA-D7-A4YT-01A-11D-A25D-08	1397324	84526498	70744062	315	92523											
AFF2	2334	broad.mit.edu	37	chrX	148037909	148037909	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaatgaagagccaacattTtcacctattcctgtcatgca	13	12	6	10	0	2	2	2	1	0	1	3	2	3	2	3	0	3	2	3	0	4	5			TCGA-D7-A4YT-01A-11D-A25D-08	TCGA-D7-A4YT-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	f16cadc2-52ef-49b2-8cec-8929f4719d95	1cfe678d-c4cf-457a-8958-7c915f02eef7	g.chrX:148037909T>A	uc004fcp.2	+	11	2813	c.2334T>A	c.(2332-2334)TTT>TTA	p.F778L	AFF2_uc004fcq.2_Missense_Mutation_p.F768L|AFF2_uc004fcr.2_Missense_Mutation_p.F739L|AFF2_uc011mxb.1_Missense_Mutation_p.F743L|AFF2_uc004fcs.2_Missense_Mutation_p.F745L|AFF2_uc011mxc.1_Missense_Mutation_p.F419L	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	778					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AGCCAACATTTTCACCTATTC	0.453													4	55					0	0	0.009096	0	0		A	148037909	A	A	148037909	3	1	185	1	0	0	0	0	1	0	0	0	357	1838	64	5	2431	5	AFF2	23	148037909	Missense_Mutation	SNP	T	TCGA-D7-A4YT-01A-11D-A25D-08	63511411	148037909	7232651	316	92524											
CA6	765	broad.mit.edu	37	chr1	9030988	9030988	+	Silent	SNP	C	A	A	0	0	0	1	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	accatccacaacgattaccgCaggacccagcccctgaacca	13	4	6	18	2	0	1	0	1	0	0	1	3	1	2	7	1	4	1	7	1	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:9030988C>A	uc001apm.2	+	7	816	c.792C>A	c.(790-792)CGC>CGA	p.R264R	CA6_uc009vmn.2_Silent_p.R204R	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	264					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		ACGATTACCGCAGGACCCAGC	0.522													26	86					2.12542e-12	2.38811e-12	0.00632	1	0		A	9030988	A	A	9030988	2	1	186	1	0	0	0	0	0	0	0	1	2524	697	25	5		5	CA6	1	9030988	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		9030988	240219633	1	92525											
ARID1A	8289	broad.mit.edu	37	chr1	27100390	27100390	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtatcaacagcaacagcagGtgaggagggtagctgggaat	13	7	15	6	0	1	1	1	1	0	0	1	3	1	3	0	4	5	5	0	4	5	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:27100390G>C	uc001bmv.1	+	17	4474	c.4101_splice	c.e17+1	p.Q1367_splice	ARID1A_uc001bmt.1_Splice_Site_p.Q1366_splice|ARID1A_uc001bmu.1_Splice_Site_p.Q1367_splice|ARID1A_uc001bmw.1_Splice_Site_p.Q984_splice|ARID1A_uc001bmx.1_Splice_Site_p.Q213_splice|ARID1A_uc009vsm.1_Splice_Site|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a						androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GCAACAGCAGGTGAGGAGGGT	0.483			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								31	116					0	0	0.013726	0	0		C	27100390	C	C	27100390	5	2	186	1	0	0	0	0	0	0	1	0	913	1275	44	5	4168	5	ARID1A	1	27100390	Splice_Site	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	18069402	27100390	222150231	2	92526											
WASF2	10163	broad.mit.edu	37	chr1	27742538	27742538	+	Missense_Mutation	SNP	A	G	G	1	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	ctgcagcatcttctccttccAaagatcaaagaagtatgaag	14	10	7	10	0	3	3	1	1	2	2	5	3	4	3	2	0	2	3	2	0	5	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:27742538A>G	uc001bof.1	-	5	694	c.478T>C	c.(478-480)TGG>CGG	p.W160R	WASF2_uc010ofl.1_Missense_Mutation_p.W160R	NM_006990	NP_008921	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	160				WK->ED: Constitutive induction of the formation of actin filaments. Strongly enhances formation of lamellipodia.	actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		TTCTCCTTCCAAAGATCAAAG	0.463													14	118					0	0	0.003163	0	0		G	27742538	G	G	27742538	3	3	186	1	0	0	0	0	1	0	0	0	17279	130	5	3	1038	3	WASF2	1	27742538	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	642148	27742538	221508083	3	92527											
ODF2L	57489	broad.mit.edu	37	chr1	86826191	86826191	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcattttcaacagatacaActtcatccttcaaagcagca	14	12	4	11	0	4	1	4	0	0	1	5	1	5	1	1	0	5	3	1	0	4	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:86826191A>T	uc001dll.1	-	12	1512	c.1172T>A	c.(1171-1173)GTT>GAT	p.V391D	ODF2L_uc001dlm.1_Missense_Mutation_p.V362D|ODF2L_uc001dln.2_Missense_Mutation_p.V362D|ODF2L_uc001dlo.2_Missense_Mutation_p.V231D|ODF2L_uc001dlp.2_Missense_Mutation_p.V391D|ODF2L_uc010osg.1_Missense_Mutation_p.V362D|ODF2L_uc001dlq.1_Missense_Mutation_p.V192D|ODF2L_uc009wcr.1_Missense_Mutation_p.V231D	NM_020729	NP_065780	Q9ULJ1	ODF2L_HUMAN	outer dense fiber of sperm tails 2-like isoform	391	Potential.					centrosome				ovary(1)	1				all cancers(265;0.0313)|Epithelial(280;0.0611)		AACAGATACAACTTCATCCTT	0.294													9	50					0	0	0.010729	0	0		T	86826191	T	T	86826191	3	4	186	1	0	0	0	0	1	0	0	0	10847	43	2	5	942	5	ODF2L	1	86826191	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	59083653	86826191	162424430	4	92528											
OLFM3	118427	broad.mit.edu	37	chr1	102302454	102302454	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttccagtagttggcgaAgttgcctgcttttggcatcc	5	15	10	11	1	0	0	0	0	0	0	2	1	2	0	4	2	2	5	4	2	2	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:102302454A>C	uc001duf.2	-	2	328	c.257T>G	c.(256-258)CTT>CGT	p.L86R	OLFM3_uc001dug.2_Missense_Mutation_p.L66R|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_5'UTR|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	86	Potential.					extracellular region				ovary(2)|skin(1)	3		all_epithelial(167;1.87e-06)|all_lung(203;8.12e-05)|Lung NSC(277;0.000189)		all cancers(265;0.0843)|Epithelial(280;0.0921)|COAD - Colon adenocarcinoma(174;0.145)		TAGTTGGCGAAGTTGCCTGCT	0.463													22	84					0	0	0.014323	0	0		C	102302454	C	C	102302454	3	2	186	1	0	0	0	0	1	0	0	0	10873	72	3	5	1199	5	OLFM3	1	102302454	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	15476263	102302454	146948167	5	92529											
KCNA10	3744	broad.mit.edu	37	chr1	111060346	111060346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagccccttggagtggcgcGagagcttgaagatgcggaag	9	6	17	9	3	0	3	0	1	0	2	0	6	0	5	2	3	3	2	2	3	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:111060346G>A	uc001dzt.1	-	1	1452	c.1064C>T	c.(1063-1065)TCG>TTG	p.S355L		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	355	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		GGAGTGGCGCGAGAGCTTGAA	0.577													17	130					0	0	0.007413	0	0		A	111060346	A	A	111060346	3	1	186	1	0	0	0	0	1	0	0	0	8018	1059	37	1	475	1	KCNA10	1	111060346	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	8757892	111060346	138190275	6	92530											
DCLRE1B	64858	broad.mit.edu	37	chr1	114454003	114454003	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaagccgaaaaatccacagCtcccaccctgatatccacgt	14	6	5	16	2	0	1	0	1	0	0	3	2	3	1	5	0	2	1	5	0	4	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:114454003C>A	uc001eeg.2	+	4	960	c.789C>A	c.(787-789)AGC>AGA	p.S263R	DCLRE1B_uc001eeh.2_Missense_Mutation_p.S137R|DCLRE1B_uc001eei.2_Missense_Mutation_p.S137R	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	263					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		AAATCCACAGCTCCCACCCTG	0.532								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					15	98					1.15088e-07	1.26935e-07	0.004007	1	0		A	114454003	A	A	114454003	3	1	186	1	0	0	0	0	1	0	0	0	4298	796	28	5	803	5	DCLRE1B	1	114454003	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	3393657	114454003	134796618	7	92531											
HIST2H2AC	8338	broad.mit.edu	37	chr1	149858669	149858669	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcgggtgggggccggcgcgCccgtctacatggcggcggtc	3	5	20	13	7	1	0	0	0	1	0	2	0	1	0	2	7	2	0	2	7	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:149858669C>G	uc001etd.2	+	1	145	c.145C>G	c.(145-147)CCC>GCC	p.P49A	HIST2H2BE_uc001etc.2_5'Flank	NM_003517	NP_003508	Q16777	H2A2C_HUMAN	histone cluster 2, H2ac	49					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GGCCGGCGCGCCCGTCTACAT	0.697													21	73					0	0	0.014323	0	0		G	149858669	G	G	149858669	3	3	186	1	0	0	0	0	1	0	0	0	7194	739	26	5	147	5	HIST2H2AC	1	149858669	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	35404666	149858669	99391952	8	92532											
DENND4B	9909	broad.mit.edu	37	chr1	153914345	153914345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagaggagccatgctcacGcttccaagggtaggcggtgg	8	6	17	10	2	1	1	1	0	0	1	2	2	2	2	2	6	2	4	2	6	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:153914345G>A	uc001fdd.1	-	6	1456	c.1055C>T	c.(1054-1056)GCG>GTG	p.A352V		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	352	DENN.									ovary(1)	1	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)			CCATGCTCACGCTTCCAAGGG	0.637													14	46					0	0	0.006122	0	0		A	153914345	A	A	153914345	3	1	186	1	0	0	0	0	1	0	0	0	4440	1101	38	1	3527	1	DENND4B	1	153914345	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	4055676	153914345	95336276	9	92533											
CD5L	922	broad.mit.edu	37	chr1	157803243	157803243	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccatacgcccttgtgcaGcacctccagtcgcccagagc	7	6	9	19	2	0	1	0	0	0	1	2	1	1	1	6	0	4	2	6	0	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:157803243G>T	uc001frk.3	-	5	921	c.778C>A	c.(778-780)CTG>ATG	p.L260M		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	260	SRCR 3.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCCTTGTGCAGCACCTCCAGT	0.572													15	143					1.15088e-07	1.26935e-07	0.004007	1	0		T	157803243	T	T	157803243	3	4	186	1	0	0	0	0	1	0	0	0	3030	962	34	5	273	5	CD5L	1	157803243	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	3888898	157803243	91447378	10	92534											
CD1C	911	broad.mit.edu	37	chr1	158259792	158259792	+	Translation_Start_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatataggtacagagggataAgtttgctaagaacagagatc	17	9	11	4	0	0	3	0	0	0	3	1	5	0	4	0	2	3	3	0	2	7	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:158259792A>T	uc001fru.2	+	1	230	c.-62A>T	c.(-64--60)TAAGT>TATGT		CD1C_uc001frv.2_5'Flank	NM_001765	NP_001756	P29017	CD1C_HUMAN	CD1C antigen precursor						antigen processing and presentation|T cell activation involved in immune response	endosome membrane|integral to plasma membrane	endogenous lipid antigen binding|exogenous lipid antigen binding|glycolipid binding|lipopeptide binding			ovary(2)|skin(1)|pancreas(1)	4	all_hematologic(112;0.0378)					CAGAGGGATAAGTTTGCTAAG	0.438													10	28					0	0	0.006214	0	0		T	158259792	T	T	158259792	1	4	186	1	0	0	0	0	0	0	0	0	2979	87	3	5		5	CD1C	1	158259792	Translation_Start_Site	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	456549	158259792	90990829	11	92535											
SPTA1	6708	broad.mit.edu	37	chr1	158606546	158606546	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagctcactcgtatcaacTtctccctaaaatcaaggaag	13	9	8	11	1	4	0	3	0	1	0	6	2	4	2	1	2	2	2	1	2	6	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:158606546T>G	uc001fst.1	-	37	5394	c.5195A>C	c.(5194-5196)AAG>ACG	p.K1732T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1732	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCGTATCAACTTCTCCCTAAA	0.473													40	84					0	0	0.007835	0	0		G	158606546	G	G	158606546	3	3	186	1	0	0	0	0	1	0	0	0	15141	1609	56	5	2128	5	SPTA1	1	158606546	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	346754	158606546	90644075	12	92536											
SPTA1	6708	broad.mit.edu	37	chr1	158607915	158607915	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgtgcagctgccaattcTtggacattcaggaaacgctt	9	12	11	9	1	2	0	1	0	1	0	2	2	2	2	1	3	4	3	1	3	2	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:158607915T>C	uc001fst.1	-	36	5296	c.5097A>G	c.(5095-5097)CAA>CAG	p.Q1699Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1699	Spectrin 16.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					CTGCCAATTCTTGGACATTCA	0.428													15	63					0	0	0.00245	0	0		C	158607915	C	C	158607915	2	2	186	1	0	0	0	0	0	0	0	1	15141	1606	56	3		3	SPTA1	1	158607915	Silent	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	1369	158607915	90642706	13	92537											
LMX1A	4009	broad.mit.edu	37	chr1	165177350	165177350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgctgctgctgctgctgtCgcctggccagcttcttcatc	2	14	10	15	1	2	0	1	0	1	0	4	0	2	0	2	1	6	6	2	1	0	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:165177350C>T	uc001gcy.1	-	6	988	c.767G>A	c.(766-768)CGA>CAA	p.R256Q	LMX1A_uc001gcz.1_Missense_Mutation_p.R256Q|LMX1A_uc001gcw.1_5'UTR|LMX1A_uc001gcx.1_Missense_Mutation_p.R7Q	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	256	Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CTGCTGCTGTCGCCTGGCCAG	0.562													8	21					0	0	0.004482	0	0		T	165177350	T	T	165177350	3	4	186	1	0	0	0	0	1	0	0	0	8878	884	31	1	393	1	LMX1A	1	165177350	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	6569435	165177350	84073271	14	92538											
CR1	1378	broad.mit.edu	37	chr1	207753894	207753894	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttgggtcaactccctcatGgccgtgtgctatttccactt	5	15	8	13	1	3	0	2	0	1	0	5	0	5	0	3	2	2	1	3	2	2	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:207753894G>T	uc001hfy.2	+	23	3942	c.3802G>T	c.(3802-3804)GGC>TGC	p.G1268C	CR1_uc009xcl.1_Missense_Mutation_p.G818C|CR1_uc001hfx.2_Missense_Mutation_p.G1718C	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1268	Sushi 20.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						ACTCCCTCATGGCCGTGTGCT	0.423													46	204					1.39843e-22	1.6198e-22	0.01441	1	0		T	207753894	T	T	207753894	3	4	186	1	0	0	0	0	1	0	0	0	3843	1348	47	5	5274	5	CR1	1	207753894	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	42576544	207753894	41496727	15	92539											
CENPF	1063	broad.mit.edu	37	chr1	214816265	214816265	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgtagatgaagtattttgCagcagtctgcaggaggagaa	13	10	14	4	0	1	3	0	1	1	2	1	5	1	4	0	2	3	5	0	2	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:214816265C>A	uc001hkm.2	+	12	4758	c.4584C>A	c.(4582-4584)TGC>TGA	p.C1528*		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1624	1-2.|2 X 96 AA approximate tandem repeats.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		AAGTATTTTGCAGCAGTCTGC	0.478													16	56					7.07596e-05	7.60856e-05	0.006122	1	0		A	214816265	A	A	214816265	4	1	186	1	0	0	0	0	0	1	0	0	3234	718	25	5	4626	5	CENPF	1	214816265	Nonsense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	7062371	214816265	34434356	16	92540											
CHML	1122	broad.mit.edu	37	chr1	241798734	241798734	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcaccaatctcttcaacgTtgtcctccatatcctgactg	9	12	6	14	1	2	1	1	1	1	0	6	2	5	1	4	0	2	2	4	0	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:241798734T>C	uc001hzd.2	-	1	499	c.335A>G	c.(334-336)AAC>AGC	p.N112S	OPN3_uc001hza.2_Intron|OPN3_uc001hzb.2_Intron|OPN3_uc001hzc.2_Intron	NM_001821	NP_001812	P26374	RAE2_HUMAN	choroideremia-like Rab escort protein 2	112					intracellular protein transport|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(4)|skin(2)	6	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			CTCTTCAACGTTGTCCTCCAT	0.433													31	214					0	0	0.010818	0	0		C	241798734	C	C	241798734	3	2	186	1	0	0	0	0	1	0	0	0	3354	1725	60	3	1639	3	CHML	1	241798734	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	26982469	241798734	7451887	17	92541											
OR2M5	127059	broad.mit.edu	37	chr1	248308749	248308749	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggctggttgtgccacacaAattttcttctatgtatcact	9	16	7	9	0	3	0	1	0	2	0	3	0	3	0	1	2	1	3	1	2	3	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:248308749A>C	uc010pze.1	+	1	300	c.300A>C	c.(298-300)CAA>CAC	p.Q100H		NM_001004690	NP_001004690	A3KFT3	OR2M5_HUMAN	olfactory receptor, family 2, subfamily M,	100	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0388)			GTGCCACACAAATTTTCTTCT	0.463													76	275					0	0	0.01441	0	0		C	248308749	C	C	248308749	3	2	186	1	0	0	0	0	1	0	0	0	11032	11	1	5	302	5	OR2M5	1	248308749	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	6510015	248308749	941872	18	92542											
OR14I1	401994	broad.mit.edu	37	chr1	248845550	248845550	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcagcacctgcagctccCagataccagaaaactccatc	12	6	7	16	1	0	2	0	0	0	2	3	2	2	2	4	0	6	4	4	0	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr1:248845550C>A	uc001ieu.1	-	1	56	c.56G>T	c.(55-57)TGG>TTG	p.W19L		NM_001004734	NP_001004734	A6ND48	O14I1_HUMAN	olfactory receptor, family 14, subfamily I,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTGCAGCTCCCAGATACCAGA	0.468													7	38					1.12685e-05	1.22484e-05	0.004482	1	0		A	248845550	A	A	248845550	3	1	186	1	0	0	0	0	1	0	0	0	10966	595	21	5	883	5	OR14I1	1	248845550	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	536801	248845550	405071	19	92543											
KCNK3	3777	broad.mit.edu	37	chr2	26950835	26950835	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggcctactactactgcttcaTcaccctcaccaccatcggct	8	10	5	18	1	3	0	3	0	0	0	4	0	3	0	4	2	4	2	4	2	3	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:26950835T>C	uc002rhn.2	+	2	747	c.584T>C	c.(583-585)ATC>ACC	p.I195T		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	195					synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TACTGCTTCATCACCCTCACC	0.612													18	41					0	0	0.008871	0	0		C	26950835	C	C	26950835	3	2	186	1	0	0	0	0	1	0	0	0	8083	1435	50	3	590	3	KCNK3	2	26950835	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08		26950835	216248538	20	92544											
SLC8A1	6546	broad.mit.edu	37	chr2	40657239	40657239	+	Missense_Mutation	SNP	A	G	G	1	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	cttggggttcccaaatgggcAaaatcacccctttcttacag	10	11	8	12	0	2	0	1	0	1	0	3	0	3	0	3	3	1	2	3	3	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:40657239A>G	uc002rrx.2	-	1	206	c.182T>C	c.(181-183)TTG>TCG	p.L61S	SLC8A1_uc002rry.2_Missense_Mutation_p.L61S|SLC8A1_uc002rrz.2_Missense_Mutation_p.L61S|SLC8A1_uc002rsa.2_Missense_Mutation_p.L61S|SLC8A1_uc002rsd.3_Missense_Mutation_p.L61S|SLC8A1_uc002rsb.1_Missense_Mutation_p.L61S|SLC8A1_uc010fan.1_Missense_Mutation_p.L61S|SLC8A1_uc002rsc.1_Missense_Mutation_p.L61S	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	61	Extracellular (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	CCAAATGGGCAAAATCACCCC	0.428													21	75					0	0	0.008871	0	0		G	40657239	G	G	40657239	3	3	186	1	0	0	0	0	1	0	0	0	14731	131	5	3	2887	3	SLC8A1	2	40657239	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	13706404	40657239	202542134	21	92545											
PREPL	9581	broad.mit.edu	37	chr2	44554027	44554027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgagttttttagttaggcGgccatcagcgtgccactgga	8	13	12	8	2	1	1	1	1	0	0	1	2	1	2	2	3	2	2	2	3	2	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:44554027G>A	uc002ruf.2	-	10	1605	c.1570C>T	c.(1570-1572)CGC>TGC	p.R524C	PREPL_uc002rug.2_Missense_Mutation_p.R458C|PREPL_uc002ruh.2_Missense_Mutation_p.R462C|PREPL_uc010fax.2_Missense_Mutation_p.R524C|PREPL_uc002rui.3_Missense_Mutation_p.R435C|PREPL_uc002ruj.1_Missense_Mutation_p.R435C|PREPL_uc002ruk.1_Missense_Mutation_p.R524C	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	524					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TTAGTTAGGCGGCCATCAGCG	0.453													7	40					0	0	0.00308	0	0		A	44554027	A	A	44554027	3	1	186	1	0	0	0	0	1	0	0	0	12497	1116	39	1	633	1	PREPL	2	44554027	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	3896788	44554027	198645346	22	92546											
PNPT1	87178	broad.mit.edu	37	chr2	55920812	55920812	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacctgttgcctaagtcCacggccacagctcgagaccc	8	8	8	17	2	0	1	0	0	0	1	2	2	1	1	6	1	3	2	6	1	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:55920812C>G	uc002rzf.2	-	1	200	c.147G>C	c.(145-147)GTG>GTC	p.V49V	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	49					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGCCTAAGTCCACGGCCACAG	0.562													8	83					0	0	0.004482	0	0		G	55920812	G	G	55920812	2	3	186	1	0	0	0	0	0	0	0	1	12192	581	21	5		5	PNPT1	2	55920812	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	11366785	55920812	187278561	23	92547											
KRCC1	51315	broad.mit.edu	37	chr2	88327339	88327339	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggtcccaaagcatttcCtcctctgtcctttcttggcc	5	14	7	15	0	2	0	0	0	2	0	6	1	6	0	5	2	1	1	5	2	1	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:88327339C>T	uc002sso.1	-	4	1138	c.744G>A	c.(742-744)GAG>GAA	p.E248E	KRCC1_uc002ssp.1_Silent_p.E248E	NM_016618	NP_057702	Q9NPI7	KRCC1_HUMAN	lysine-rich coiled-coil 1	248	Potential.									ovary(1)	1						AAAGCATTTCCTCCTCTGTCC	0.378													12	79					0	0	0.003163	0	0		T	88327339	T	T	88327339	2	4	186	1	0	0	0	0	0	0	0	1	8457	680	24	4		4	KRCC1	2	88327339	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	32406527	88327339	154872034	24	92548											
SNRNP200	23020	broad.mit.edu	37	chr2	96944719	96944719	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actggcaatggctcatataaGaacttcttgaagaaatcctg	14	11	8	8	0	2	3	1	1	1	2	3	3	3	3	1	2	1	2	1	2	6	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:96944719G>C	uc002svu.2	-	37	5237	c.5151C>G	c.(5149-5151)TTC>TTG	p.F1717L	SNRNP200_uc002svt.2_Missense_Mutation_p.F327L|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1717	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						GCTCATATAAGAACTTCTTGA	0.463													19	47					0	0	0.014323	0	0		C	96944719	C	C	96944719	3	2	186	1	0	0	0	0	1	0	0	0	14877	933	33	5	1295	5	SNRNP200	2	96944719	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	8617380	96944719	146254654	25	92549											
LMAN2L	81562	broad.mit.edu	37	chr2	97400258	97400258	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactcccagtctctcaggaaAcatggctaaagtgagaaaga	16	7	9	9	0	2	2	1	1	1	2	4	4	3	3	1	2	2	1	1	2	5	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:97400258A>T	uc002swu.2	-	3	348	c.312T>A	c.(310-312)TGT>TGA	p.C104*	LMAN2L_uc002swv.2_Nonsense_Mutation_p.C104*|LMAN2L_uc010yut.1_5'UTR|LMAN2L_uc010yuu.1_5'UTR|LMAN2L_uc010yuv.1_5'UTR|LMAN2L_uc010yuw.1_5'UTR|LMAN2L_uc002sww.2_5'UTR|LMAN2L_uc010yux.1_5'UTR	NM_030805	NP_110432	Q9H0V9	LMA2L_HUMAN	lectin, mannose-binding 2-like isoform 2	104	L-type lectin-like.|Lumenal (Potential).				ER to Golgi vesicle-mediated transport|protein folding|protein transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle|Golgi membrane|integral to membrane	mannose binding|metal ion binding				0						CTCTCAGGAAACATGGCTAAA	0.443													18	54					0	0	0.007413	0	0		T	97400258	T	T	97400258	4	4	186	1	0	0	0	0	0	1	0	0	8856	41	2	5	795	5	LMAN2L	2	97400258	Nonsense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	455539	97400258	145799115	26	92550											
C2orf55	343990	broad.mit.edu	37	chr2	99439596	99439596	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgtccgtggccggggcacaCgggcctgcggggggcgcctc	2	6	19	14	5	0	0	0	0	0	0	2	0	1	0	4	7	1	1	4	7	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:99439596C>T	uc002szf.1	-	7	1434	c.1140G>A	c.(1138-1140)CCG>CCA	p.P380P		NM_207362	NP_997245	Q6NV74	CB055_HUMAN	hypothetical protein LOC343990	380	Pro-rich.										0						CCGGGGCACACGGGCCTGCGG	0.751													10	14					0	0	0.008291	0	0		T	99439596	T	T	99439596	2	4	186	1	0	0	0	0	0	0	0	1	2179	523	19	1		1	C2orf55	2	99439596	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	2039338	99439596	143759777	27	92551											
EDAR	10913	broad.mit.edu	37	chr2	109524386	109524386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgacagcaggcacagctccGgggagccctgcttgtcaggg	7	5	16	13	2	1	0	1	0	0	0	2	2	2	1	2	4	4	4	2	4	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:109524386G>A	uc002teq.3	-	10	1324	c.893C>T	c.(892-894)CCG>CTG	p.P298L	EDAR_uc010fjn.2_Missense_Mutation_p.P330L|EDAR_uc010yws.1_Missense_Mutation_p.P330L	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	298	Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						GCACAGCTCCGGGGAGCCCTG	0.622													18	75					0	0	0.010504	0	0		A	109524386	A	A	109524386	3	1	186	1	0	0	0	0	1	0	0	0	4911	1116	39	1	465	1	EDAR	2	109524386	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	10084790	109524386	133674987	28	92552											
ACOXL	55289	broad.mit.edu	37	chr2	111542390	111542390	+	Missense_Mutation	SNP	A	G	G	1	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	cggacatggccacaggagtgAaggtgagaggcgccgggcac	10	3	18	10	3	0	2	0	2	0	1	0	5	0	4	2	6	0	1	2	6	1	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:111542390A>G	uc002tgr.3	+	3	381	c.157A>G	c.(157-159)AAG>GAG	p.K53E	ACOXL_uc010fkc.2_Missense_Mutation_p.K53E|ACOXL_uc010yxk.1_Missense_Mutation_p.K53E	NM_001105516	NP_001098986	Q9NUZ1	ACOXL_HUMAN	acyl-Coenzyme A oxidase-like 2	53					fatty acid beta-oxidation	peroxisome	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity				0						CACAGGAGTGAAGGTGAGAGG	0.498													10	39					0	0	0.008291	0	0		G	111542390	G	G	111542390	3	3	186	1	0	0	0	0	1	0	0	0	161	247	9	3	163	3	ACOXL	2	111542390	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	2018004	111542390	131656983	29	92553											
GPR148	344561	broad.mit.edu	37	chr2	131486823	131486823	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatgccccaagcagccagCaacacttccttgggcctggg	8	7	11	15	0	0	0	0	0	0	0	1	0	1	0	5	2	6	3	5	2	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:131486823C>A	uc002trv.1	+	1	101	c.99C>A	c.(97-99)AGC>AGA	p.S33R		NM_207364	NP_997247	Q8TDV2	GP148_HUMAN	G protein-coupled receptor 148	33	Extracellular (Potential).			CMPQAASNTSLGLGDLRVPSSMLYWLFLPSSLLAAA -> S S (in Ref. 2; AAP34196).		integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1	Colorectal(110;0.1)					AAGCAGCCAGCAACACTTCCT	0.627													13	78					0.00010058	0.000107764	0.013537	1	0		A	131486823	A	A	131486823	3	1	186	1	0	0	0	0	1	0	0	0	6668	709	25	5	101	5	GPR148	2	131486823	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	19944433	131486823	111712550	30	92554											
THSD7B	80731	broad.mit.edu	37	chr2	137852666	137852666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaggcctgcattgttgaaGgagaacttctgcagcaatgt	12	10	12	7	0	1	3	0	1	1	2	1	4	1	3	1	2	4	4	1	2	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:137852666G>A	uc002tva.1	+	3	1081	c.1081G>A	c.(1081-1083)GGA>AGA	p.G361R	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.G251R	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		CATTGTTGAAGGAGAACTTCT	0.448													11	32					0	0	0.013537	0	0		A	137852666	A	A	137852666	3	1	186	1	0	0	0	0	1	0	0	0	15905	1001	35	4	1091	4	THSD7B	2	137852666	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	6365843	137852666	105346707	31	92555											
LRP1B	53353	broad.mit.edu	37	chr2	141299347	141299347	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctttctattataacttaCagctattggtgtcattggca	9	18	7	7	0	2	0	1	0	1	0	2	0	2	0	0	2	4	3	0	2	5	9			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:141299347C>A	uc002tvj.1	-	44	8359	c.7387_splice	c.e44+1	p.C2463_splice		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B						protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTATAACTTACAGCTATTGGT	0.338										TSP Lung(27;0.18)			22	100					7.41877e-09	8.24308e-09	0.012319	1	0		A	141299347	A	A	141299347	5	1	186	1	0	0	0	0	0	0	1	0	8973	492	17	5	6603	5	LRP1B	2	141299347	Splice_Site	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	3446681	141299347	101900026	32	92556											
BAZ2B	29994	broad.mit.edu	37	chr2	160295025	160295025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagattcctcctttgcctgaGagctttggaaaataaatgga	12	12	9	8	0	0	2	0	1	0	2	2	5	2	4	3	2	2	1	3	2	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:160295025G>A	uc002uao.2	-	8	1434	c.1082C>T	c.(1081-1083)TCT>TTT	p.S361F	BAZ2B_uc002uap.2_Missense_Mutation_p.S359F|BAZ2B_uc002uas.1_Missense_Mutation_p.S298F|BAZ2B_uc002uau.1_Missense_Mutation_p.S359F|BAZ2B_uc002uaq.1_Missense_Mutation_p.S289F|BAZ2B_uc002uat.3_3'UTR|BAZ2B_uc010fop.1_Missense_Mutation_p.S359F	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	361					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CTTTGCCTGAGAGCTTTGGAA	0.443													20	84					0	0	0.008871	0	0		A	160295025	A	A	160295025	3	1	186	1	0	0	0	0	1	0	0	0	1333	942	33	4	5544	4	BAZ2B	2	160295025	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	18995678	160295025	82904348	33	92557											
TTN	7273	broad.mit.edu	37	chr2	179398461	179398461	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtttgattttctgacctGatttataccatgttacatga	9	18	7	7	0	1	4	0	4	1	0	1	4	1	4	2	1	2	2	2	1	3	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:179398461G>T	uc010zfg.1	-	307	95401	c.95177C>A	c.(95176-95178)TCA>TAA	p.S31726*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.S25421*|TTN_uc010zfi.1_Nonsense_Mutation_p.S25354*|TTN_uc010zfj.1_Nonsense_Mutation_p.S25229*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32653							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCTGACCTGATTTATACCA	0.398													11	35					0.000673444	0.000699077	0.008291	1	0		T	179398461	T	T	179398461	4	4	186	1	0	0	0	0	0	1	0	0	16761	1294	45	5	5118	5	TTN	2	179398461	Nonsense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	19103436	179398461	63800912	34	92558											
TTN	7273	broad.mit.edu	37	chr2	179443586	179443586	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggccttcccctacaccaTatttattttcggcactgacc	8	13	5	15	1	1	1	1	1	0	0	3	1	2	1	5	2	1	1	5	2	3	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:179443586T>C	uc010zfg.1	-	269	60691	c.60467A>G	c.(60466-60468)TAT>TGT	p.Y20156C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.Y13851C|TTN_uc010zfi.1_Missense_Mutation_p.Y13784C|TTN_uc010zfj.1_Missense_Mutation_p.Y13659C|uc002umv.1_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21083							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCTACACCATATTTATTTTC	0.458													28	82					0	0	0.009535	0	0		C	179443586	C	C	179443586	3	2	186	1	0	0	0	0	1	0	0	0	16761	1406	49	3	39980	3	TTN	2	179443586	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	45125	179443586	63755787	35	92559											
SSFA2	6744	broad.mit.edu	37	chr2	182780063	182780063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaccagccttattttaatGaatcagaggaggagtctctt	13	12	9	7	0	2	3	1	1	1	2	3	5	2	5	2	2	1	0	2	2	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:182780063G>A	uc002uoi.2	+	11	2018	c.1696G>A	c.(1696-1698)GAA>AAA	p.E566K	SSFA2_uc002uoh.2_Missense_Mutation_p.E566K|SSFA2_uc002uoj.2_Missense_Mutation_p.E566K|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.E413K|SSFA2_uc002uol.2_Missense_Mutation_p.E413K|SSFA2_uc002uom.2_Missense_Mutation_p.E34K	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	566						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TTATTTTAATGAATCAGAGGA	0.473													14	39					0	0	0.001855	0	0		A	182780063	A	A	182780063	3	1	186	1	0	0	0	0	1	0	0	0	15208	1291	45	4	1738	4	SSFA2	2	182780063	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	3336477	182780063	60419310	36	92560											
HECW2	57520	broad.mit.edu	37	chr2	197185083	197185083	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcatgaacagaagacgtaAcctccactttaaactggagg	14	9	8	10	1	1	3	1	1	0	2	2	4	2	4	2	2	3	1	2	2	5	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:197185083A>C	uc002utm.1	-	8	1148	c.965T>G	c.(964-966)GTT>GGT	p.V322G	HECW2_uc002utl.1_Intron	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	322					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						AGAAGACGTAACCTCCACTTT	0.408													4	25					0	0	0.009096	0	0		C	197185083	C	C	197185083	3	2	186	1	0	0	0	0	1	0	0	0	7059	43	2	5	3841	5	HECW2	2	197185083	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	14405020	197185083	46014290	37	92561											
ALS2CR12	130540	broad.mit.edu	37	chr2	202208958	202208958	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgtcagctctgagatttGctcttctaggtcagaaatga	9	14	10	8	0	5	3	2	2	3	2	5	4	5	3	0	1	3	3	0	1	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:202208958G>T	uc010ftg.2	-	6	841	c.397C>A	c.(397-399)CAA>AAA	p.Q133K	ALS2CR12_uc002uya.3_Missense_Mutation_p.Q133K|ALS2CR12_uc010fth.2_RNA	NM_139163	NP_631902	Q96Q35	AL2SB_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	133	Potential.				regulation of GTPase activity		protein binding	p.Q133H(1)		ovary(1)|breast(1)|central_nervous_system(1)	3						TCTGAGATTTGCTCTTCTAGG	0.433													26	109					9.39395e-14	1.06347e-13	0.00632	1	0		T	202208958	T	T	202208958	3	4	186	1	0	0	0	0	1	0	0	0	553	1328	46	5	980	5	ALS2CR12	2	202208958	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	5023875	202208958	40990415	38	92562											
CRYGD	1421	broad.mit.edu	37	chr2	208988868	208988868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggcaggagcggaccgagtCgctgaggcccatccactgct	7	5	15	14	4	0	1	0	1	0	0	2	4	1	3	3	4	2	3	3	4	0	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:208988868C>T	uc002vcn.3	-	2	336	c.220G>A	c.(220-222)GAC>AAC	p.D74N		NM_006891	NP_008822	P07320	CRGD_HUMAN	crystallin, gamma D	74	Beta/gamma crystallin 'Greek key' 2.				cellular response to reactive oxygen species|visual perception	soluble fraction	protein binding|structural constituent of eye lens				0				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.0858)|Lung(261;0.133)		CGGACCGAGTCGCTGAGGCCC	0.612													12	42					0	0	0.013537	0	0		T	208988868	T	T	208988868	3	4	186	1	0	0	0	0	1	0	0	0	3920	884	31	1	312	1	CRYGD	2	208988868	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	6779910	208988868	34210505	39	92563											
ERBB4	2066	broad.mit.edu	37	chr2	212251789	212251789	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccctgtgccacaggagcTtctggaattgtgctagttgg	7	11	13	10	0	1	0	0	0	1	0	1	2	1	2	2	3	3	4	2	3	2	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:212251789T>C	uc002veg.1	-	27	3368	c.3270A>G	c.(3268-3270)GAA>GAG	p.E1090E	ERBB4_uc002veh.1_Silent_p.E1074E|ERBB4_uc010zji.1_Silent_p.E1080E|ERBB4_uc010zjj.1_Silent_p.E1064E	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1090	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CCACAGGAGCTTCTGGAATTG	0.502										TSP Lung(8;0.080)			34	121					0	0	0.004289	0	0		C	212251789	C	C	212251789	2	2	186	1	0	0	0	0	0	0	0	1	5217	1606	56	3		3	ERBB4	2	212251789	Silent	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	3262921	212251789	30947584	40	92564											
CRYBA2	1412	broad.mit.edu	37	chr2	219856890	219856890	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgctgccactccaggcGctccagcgaggatagtctcc	6	8	11	16	2	1	0	0	0	1	0	4	2	3	1	4	2	4	3	4	2	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:219856890G>A	uc002vjj.1	-	3	272	c.237C>T	c.(235-237)AGC>AGT	p.S79S	CRYBA2_uc002vjk.1_Silent_p.S79S	NM_057094	NP_476435	P53672	CRBA2_HUMAN	crystallin, beta A2	79	Beta/gamma crystallin 'Greek key' 2.						structural constituent of eye lens				0		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CACTCCAGGCGCTCCAGCGAG	0.612													5	29					0	0	0.000602	0	0		A	219856890	A	A	219856890	2	1	186	1	0	0	0	0	0	0	0	1	3911	1078	38	1		1	CRYBA2	2	219856890	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	7605101	219856890	23342483	41	92565											
DNER	92737	broad.mit.edu	37	chr2	230223363	230223363	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggccgggatttctttcCaaacctgaaatcagagagaa	13	9	10	9	1	2	3	1	1	1	2	3	5	3	4	3	2	2	1	3	2	3	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:230223363C>A	uc002vpv.2	-	13	2254	c.2107G>T	c.(2107-2109)GGA>TGA	p.G703*		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	703	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		GATTTCTTTCCAAACCTGAAA	0.363													13	50					1.61879e-10	1.81208e-10	0.013537	1	0		A	230223363	A	A	230223363	4	1	186	1	0	0	0	0	0	1	0	0	4673	603	21	5	110	5	DNER	2	230223363	Nonsense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	10366473	230223363	12976010	42	92566											
SP100	6672	broad.mit.edu	37	chr2	231371021	231371021	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgccttggtcttacaggaaCctcaaagaagtgtatacaga	13	11	9	8	0	2	2	1	0	1	2	2	3	2	3	2	2	4	1	2	2	6	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:231371021C>A	uc002vqt.2	+	22	2015	c.1874C>A	c.(1873-1875)ACC>AAC	p.T625N	SP100_uc002vqs.2_Missense_Mutation_p.T625N|SP100_uc002vqu.1_Missense_Mutation_p.T625N|SP100_uc010fxp.1_5'UTR	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	625	SAND.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		CTTACAGGAACCTCAAAGAAG	0.507													8	84					0.000442599	0.000462647	0.006214	1	0		A	231371021	A	A	231371021	3	1	186	1	0	0	0	0	1	0	0	0	14985	507	18	5	1960	5	SP100	2	231371021	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1147658	231371021	11828352	43	92567											
ANO7	50636	broad.mit.edu	37	chr2	242155602	242155602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaggggccctgggaggacGactatgagcttgtgccctgt	6	8	16	11	1	0	1	0	1	0	0	0	4	0	3	3	4	2	1	3	4	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr2:242155602G>A	uc002wax.2	+	19	2186	c.2083G>A	c.(2083-2085)GAC>AAC	p.D695N		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	695	Extracellular (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						CTGGGAGGACGACTATGAGCT	0.627													5	21					0	0	0.000602	0	0		A	242155602	A	A	242155602	3	1	186	1	0	0	0	0	1	0	0	0	702	1058	37	1	2229	1	ANO7	2	242155602	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	10784581	242155602	1043771	44	92568											
SUMF1	285362	broad.mit.edu	37	chr3	4494657	4494657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaatagtaactctcctcGcaggtgcttccccatcctgc	8	11	6	16	1	2	0	1	0	1	0	6	0	4	0	4	1	3	3	4	1	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:4494657G>A	uc003bpz.1	-	2	372	c.347C>T	c.(346-348)GCG>GTG	p.A116V	SUMF1_uc003bps.1_RNA|SUMF1_uc011ass.1_Missense_Mutation_p.A116V|SUMF1_uc010hby.1_Missense_Mutation_p.A116V|SUMF1_uc011ast.1_Missense_Mutation_p.A116V	NM_182760	NP_877437	Q8NBK3	SUMF1_HUMAN	sulfatase modifying factor 1 isoform 1	116						endoplasmic reticulum lumen	metal ion binding|oxidoreductase activity			upper_aerodigestive_tract(1)	1		Melanoma(143;0.068)|Colorectal(144;0.233)		Epithelial(13;0.0147)|OV - Ovarian serous cystadenocarcinoma(96;0.0444)|all cancers(10;0.0549)		AACTCTCCTCGCAGGTGCTTC	0.438													5	48					0	0	0.001168	0	0		A	4494657	A	A	4494657	3	1	186	1	0	0	0	0	1	0	0	0	15410	1087	38	1	809	1	SUMF1	3	4494657	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		4494657	193527773	45	92569											
ARPP21	10777	broad.mit.edu	37	chr3	35778739	35778739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccagtcagcagcccctgcGaagcgccatggtggggcagt	8	5	14	14	2	1	0	1	0	0	0	1	1	1	0	4	3	4	2	4	3	1	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:35778739G>A	uc003cgb.2	+	16	1793	c.1529G>A	c.(1528-1530)CGA>CAA	p.R510Q	ARPP21_uc003cga.2_Missense_Mutation_p.R456Q|ARPP21_uc011axy.1_Missense_Mutation_p.R476Q|ARPP21_uc003cgf.2_Missense_Mutation_p.R311Q|ARPP21_uc003cgg.2_5'UTR	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	510	Gln-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						CAGCCCCTGCGAAGCGCCATG	0.612													13	77					0	0	0.001855	0	0		A	35778739	A	A	35778739	3	1	186	1	0	0	0	0	1	0	0	0	979	1058	37	1	1596	1	ARPP21	3	35778739	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	31284082	35778739	162243691	46	92570											
XIRP1	165904	broad.mit.edu	37	chr3	39229243	39229243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcgttcctgctgctccCgttggtggatcatctccagg	3	14	11	13	2	3	0	1	0	2	0	7	1	5	1	3	3	2	4	3	3	0	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:39229243C>T	uc003cjk.1	-	2	1915	c.1694G>A	c.(1693-1695)CGG>CAG	p.R565Q	XIRP1_uc003cji.2_Missense_Mutation_p.R565Q|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	565	Interaction with CTNNB1 (By similarity).						actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CTGCTGCTCCCGTTGGTGGAT	0.622													17	60					0	0	0.006122	0	0		T	39229243	T	T	39229243	3	4	186	1	0	0	0	0	1	0	0	0	17455	652	23	1	3841	1	XIRP1	3	39229243	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	3450504	39229243	158793187	47	92571											
RHOA	387	broad.mit.edu	37	chr3	49412900	49412900	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctcgatatctgccacataGttctcaaacactgtgggcac	11	10	7	13	1	2	0	1	0	2	0	4	1	2	0	2	1	2	2	2	1	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:49412900G>C	uc003cwu.2	-	2	399	c.123C>G	c.(121-123)AAC>AAG	p.N41K	RHOA_uc010hku.2_5'UTR	NM_001664	NP_001655	P61586	RHOA_HUMAN	ras homolog gene family, member A precursor	41	Effector region (Potential).				axon guidance|interspecies interaction between organisms|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of axonogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of neuron differentiation|positive regulation of NF-kappaB import into nucleus|positive regulation of stress fiber assembly|regulation of cell migration|regulation of small GTPase mediated signal transduction|Rho protein signal transduction|spindle assembly involved in mitosis	cytoskeleton|cytosol|plasma membrane	GTP binding|GTPase activity|myosin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;8.58e-05)|Kidney(197;0.0023)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	Atorvastatin(DB01076)|Simvastatin(DB00641)	CTGCCACATAGTTCTCAAACA	0.438													30	115					0	0	0.003755	0	0		C	49412900	C	C	49412900	3	2	186	1	0	0	0	0	1	0	0	0	13356	1020	36	5	474	5	RHOA	3	49412900	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	10183657	49412900	148609530	48	92572											
AMIGO3	386724	broad.mit.edu	37	chr3	49756171	49756171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtactcgcgcgcaaagtcgCgcacggcgctcaggccccgc	6	4	13	18	9	1	0	1	0	0	0	3	0	1	0	2	2	1	4	2	2	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:49756171C>T	uc003cxj.2	-	1	1068	c.728G>A	c.(727-729)CGC>CAC	p.R243H	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	243	Extracellular (Potential).|LRRCT.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CGCAAAGTCGCGCACGGCGCT	0.637													5	57					0	0	0.001168	0	0		T	49756171	T	T	49756171	3	4	186	1	0	0	0	0	1	0	0	0	577	768	27	1	790	1	AMIGO3	3	49756171	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	343271	49756171	148266259	49	92573											
PBRM1	55193	broad.mit.edu	37	chr3	52702550	52702550	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcattgttaaaaagaagctgGaagtcagcagtcagcaaatt	16	9	10	6	0	2	1	2	0	0	1	2	2	2	2	0	1	3	5	0	1	6	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:52702550G>A	uc003des.2	-	3	360	c.348C>T	c.(346-348)TTC>TTT	p.F116F	PBRM1_uc003dex.2_RNA|PBRM1_uc003deq.2_Silent_p.F116F|PBRM1_uc003der.2_Silent_p.F116F|PBRM1_uc003det.2_Silent_p.F116F|PBRM1_uc003deu.2_Silent_p.F116F|PBRM1_uc003dev.2_RNA|PBRM1_uc003dew.2_Silent_p.F116F|PBRM1_uc010hmk.1_Silent_p.F116F|PBRM1_uc003dey.2_Silent_p.F116F|PBRM1_uc003dez.1_Silent_p.F116F|PBRM1_uc003dfb.1_Silent_p.F14F	NM_181042	NP_060635	Q86U86	PB1_HUMAN	polybromo 1 isoform 4	116	Bromo 1.				chromatin remodeling|mitosis|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear chromosome	chromatin binding|DNA binding|protein binding			kidney(136)|breast(4)	140				BRCA - Breast invasive adenocarcinoma(193;1.8e-05)|Kidney(197;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00122)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)		AAAGAAGCTGGAAGTCAGCAG	0.303			Mis|N|F|S|D|O		clear cell renal carcinoma|breast								3	21					0	0	0.009096	0	0		A	52702550	A	A	52702550	2	1	186	1	0	0	0	0	0	0	0	1	11510	1165	41	4		4	PBRM1	3	52702550	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	2946379	52702550	145319880	50	92574											
C3orf64	285203	broad.mit.edu	37	chr3	69028852	69028852	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcccagtctggaaggaaaAgtaaatgggtcagaccagct	14	6	12	9	0	2	1	1	0	1	1	2	3	2	3	2	3	2	2	2	3	5	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:69028852A>C	uc003dnl.2	-	16	1706	c.1301T>G	c.(1300-1302)CTT>CGT	p.L434R	C3orf64_uc003dnj.2_Missense_Mutation_p.L113R|C3orf64_uc003dnk.2_Missense_Mutation_p.L350R|C3orf64_uc011bfw.1_RNA	NM_173654	NP_775925	Q5NDL2	AER61_HUMAN	AER61 glycosyltransferase	434						extracellular region	transferase activity, transferring glycosyl groups			ovary(1)	1		Lung NSC(201;0.126)		BRCA - Breast invasive adenocarcinoma(55;4.61e-05)|Epithelial(33;0.000291)|LUSC - Lung squamous cell carcinoma(21;0.0127)|KIRC - Kidney renal clear cell carcinoma(39;0.216)		TGGAAGGAAAAGTAAATGGGT	0.408													15	47					0	0	0.003163	0	0		C	69028852	C	C	69028852	3	2	186	1	0	0	0	0	1	0	0	0	2243	72	3	5	294	5	C3orf64	3	69028852	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	16326302	69028852	128993578	51	92575											
ZPLD1	131368	broad.mit.edu	37	chr3	102187912	102187912	+	Missense_Mutation	SNP	T	A	A	0	1	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	gaaacacaagaatcagaaaaTgtccactgtcttcttgcact	15	10	6	10	0	3	2	1	0	2	2	4	3	4	2	1	0	2	1	1	0	5	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:102187912T>A	uc003dvs.1	+	15	1748	c.866T>A	c.(865-867)ATG>AAG	p.M289K	ZPLD1_uc003dvt.1_Missense_Mutation_p.M305K|ZPLD1_uc011bhg.1_Missense_Mutation_p.M289K	NM_175056	NP_778226	Q8TCW7	ZPLD1_HUMAN	zona pellucida-like domain containing 1	289	ZP.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)|central_nervous_system(1)	5						AATCAGAAAATGTCCACTGTC	0.468													20	70					0	0	0.008871	0	0		A	102187912	A	A	102187912	3	1	186	1	0	0	0	0	1	0	0	0	18246	1464	51	5	944	5	ZPLD1	3	102187912	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	33159060	102187912	95834518	52	92576											
BBX	56987	broad.mit.edu	37	chr3	107474490	107474490	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtgctgagcctgtaaaaCgctgtggaaagtctgcactc	9	10	13	9	1	1	1	0	1	1	0	2	2	1	2	1	2	4	4	1	2	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:107474490C>T	uc010hpr.2	+	10	1198	c.871C>T	c.(871-873)CGC>TGC	p.R291C	BBX_uc003dwk.3_Missense_Mutation_p.R291C|BBX_uc003dwl.3_Missense_Mutation_p.R291C|BBX_uc010hps.1_Missense_Mutation_p.R312C|BBX_uc003dwm.3_Missense_Mutation_p.R291C	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	291					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			GCCTGTAAAACGCTGTGGAAA	0.383													23	95					0	0	0.005443	0	0		T	107474490	T	T	107474490	3	4	186	1	0	0	0	0	1	0	0	0	1344	536	19	1	897	1	BBX	3	107474490	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	5286578	107474490	90547940	53	92577											
BOC	91653	broad.mit.edu	37	chr3	113002434	113002434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccatcgttctcatcatcGtcaccttcatccccttctgc	5	14	4	18	2	5	0	4	0	2	0	10	0	7	0	4	0	1	2	4	0	0	3	rs116501937	by1000genomes	TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:113002434G>A	uc003dzx.2	+	16	3229	c.2608G>A	c.(2608-2610)GTC>ATC	p.V870I	BOC_uc003dzy.2_Missense_Mutation_p.V870I|BOC_uc003dzz.2_Missense_Mutation_p.V871I|BOC_uc003eab.2_Missense_Mutation_p.V571I|BOC_uc003eac.2_Missense_Mutation_p.V185I	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	870	Helical; (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TCTCATCATCGTCACCTTCAT	0.607													10	92					0	0	0.006214	0	0		A	113002434	A	A	113002434	3	1	186	1	0	0	0	0	1	0	0	0	1482	1145	40	1	2662	1	BOC	3	113002434	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	5527944	113002434	85019996	54	92578											
TIGIT	201633	broad.mit.edu	37	chr3	114014537	114014537	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccagcttctggccatttgTaatgctgacttggggtggca	7	12	13	9	0	1	1	0	1	1	0	1	2	1	1	2	4	2	4	2	4	1	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:114014537T>G	uc003ebg.1	+	2	241	c.207T>G	c.(205-207)TGT>TGG	p.C69W		NM_173799	NP_776160	Q495A1	TIGIT_HUMAN	T cell immunoreceptor with Ig and ITIM domains	69	Extracellular (Potential).|Ig-like V-type.				negative regulation of interleukin-12 production|negative regulation of T cell activation|positive regulation of interleukin-10 production	cell surface|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)	1						TGGCCATTTGTAATGCTGACT	0.577													21	62					0	0	0.010504	0	0		G	114014537	G	G	114014537	3	3	186	1	0	0	0	0	1	0	0	0	15927	1644	57	5	213	5	TIGIT	3	114014537	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	1012103	114014537	84007893	55	92579											
NPHP3	27031	broad.mit.edu	37	chr3	132418811	132418811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgatgatgctgccttgatgaCgagcagagagtttttccagc	9	12	12	8	1	0	5	0	4	0	1	1	7	1	5	2	0	4	3	2	0	0	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:132418811C>T	uc003epe.1	-	12	1915	c.1838G>A	c.(1837-1839)CGT>CAT	p.R613H	NPHP3_uc003epd.1_5'UTR|NPHP3_uc003epf.1_Missense_Mutation_p.R368H	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	613					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						GCCTTGATGACGAGCAGAGAG	0.418													9	89					0	0	0.006214	0	0		T	132418811	T	T	132418811	3	4	186	1	0	0	0	0	1	0	0	0	10599	536	19	1	2218	1	NPHP3	3	132418811	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	18404274	132418811	65603619	56	92580											
SLCO2A1	6578	broad.mit.edu	37	chr3	133653654	133653654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcatgcccagcgccttgtagCccatctgcaggcccaggtac	7	7	11	16	1	1	0	0	0	1	0	1	0	1	0	4	2	5	4	4	2	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:133653654C>T	uc003eqa.3	-	14	2109	c.1835G>A	c.(1834-1836)GGC>GAC	p.G612D	SLCO2A1_uc003eqb.3_Missense_Mutation_p.G536D	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	612	Helical; Name=12; (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						CGCCTTGTAGCCCATCTGCAG	0.622													7	44					0	0	0.001984	0	0		T	133653654	T	T	133653654	3	4	186	1	0	0	0	0	1	0	0	0	14751	739	26	2	100	2	SLCO2A1	3	133653654	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1234843	133653654	64368776	57	92581											
MED12L	116931	broad.mit.edu	37	chr3	150877793	150877793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccccagccctggcccccccGgccctggcatgagccccgtg	3	4	11	23	2	0	1	0	1	0	0	0	1	0	1	9	3	2	1	9	3	0	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:150877793G>A	uc003eyp.2	+	7	1050	c.1012G>A	c.(1012-1014)GGC>AGC	p.G338S	MED12L_uc011bnz.1_Intron|MED12L_uc003eyn.2_Missense_Mutation_p.G338S|MED12L_uc003eyo.2_Missense_Mutation_p.G338S	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	338					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TGGCCCCCCCGGCCCTGGCAT	0.587													37	113					0	0	0.006999	0	0		A	150877793	A	A	150877793	3	1	186	1	0	0	0	0	1	0	0	0	9447	1116	39	1	1038	1	MED12L	3	150877793	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	17224139	150877793	47144637	58	92582											
MED12L	116931	broad.mit.edu	37	chr3	151095885	151095885	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggaagagtgctgaaagccGctggggaagagctggagaag	14	4	18	5	1	0	4	0	1	0	3	0	7	0	6	1	4	3	3	1	4	5	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:151095885G>T	uc003eyp.2	+	29	4335	c.4297G>T	c.(4297-4299)GCT>TCT	p.A1433S	MED12L_uc011bnz.1_Missense_Mutation_p.A1293S|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A596S	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1433					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GCTGAAAGCCGCTGGGGAAGA	0.532													6	69					0.00198382	0.00203817	0.001984	1	0		T	151095885	T	T	151095885	3	4	186	1	0	0	0	0	1	0	0	0	9447	1087	38	5	4411	5	MED12L	3	151095885	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	218092	151095885	46926545	59	92583											
SCHIP1	29970	broad.mit.edu	37	chr3	159614519	159614519	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgttttacagacatgctGaaagtcagcagaagcacatg	15	10	9	7	0	1	3	1	1	0	2	1	3	1	3	0	0	4	4	0	0	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:159614519G>T	uc003fcs.1	+	8	1486	c.1420G>T	c.(1420-1422)GAA>TAA	p.E474*	SCHIP1_uc003fcq.1_Nonsense_Mutation_p.E550*|SCHIP1_uc003fcr.1_Nonsense_Mutation_p.E463*|SCHIP1_uc003fct.1_Nonsense_Mutation_p.E461*|SCHIP1_uc003fcu.1_Nonsense_Mutation_p.E231*|SCHIP1_uc003fcv.1_Nonsense_Mutation_p.E247*	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	474						cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			CAGACATGCTGAAAGTCAGCA	0.373													7	18					5.18039e-06	5.65134e-06	0.00308	1	0		T	159614519	T	T	159614519	4	4	186	1	0	0	0	0	0	1	0	0	13929	1291	45	5	1450	5	SCHIP1	3	159614519	Nonsense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	8518634	159614519	38407911	60	92584											
ZBBX	79740	broad.mit.edu	37	chr3	167083738	167083738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgaccaatttgcccacttttCcagatttccagtaatactcg	10	14	5	12	1	0	2	0	1	0	1	3	2	2	2	4	0	2	1	4	0	3	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:167083738C>T	uc003fep.2	-	6	532	c.209G>A	c.(208-210)GGA>GAA	p.G70E	ZBBX_uc011bpc.1_Missense_Mutation_p.G70E|ZBBX_uc003feq.2_Missense_Mutation_p.G41E	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	70						intracellular	zinc ion binding			ovary(2)	2						GCCCACTTTTCCAGATTTCCA	0.289													4	36					0	0	0.009096	0	0		T	167083738	T	T	167083738	3	4	186	1	0	0	0	0	1	0	0	0	17542	855	30	4	2257	4	ZBBX	3	167083738	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	7469219	167083738	30938692	61	92585											
LRRC31	79782	broad.mit.edu	37	chr3	169557820	169557820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttctttttttatcttggtCaaagcattctagttcttcct	6	21	5	9	0	5	0	1	0	4	0	6	0	6	0	1	1	1	3	1	1	3	10			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:169557820C>T	uc003fgc.1	-	9	1686	c.1609G>A	c.(1609-1611)GAC>AAC	p.D537N	LRRC31_uc010hwp.1_Missense_Mutation_p.D481N	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	537										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			TTATCTTGGTCAAAGCATTCT	0.403													19	43					0	0	0.006122	0	0		T	169557820	T	T	169557820	3	4	186	1	0	0	0	0	1	0	0	0	9004	826	29	4	53	4	LRRC31	3	169557820	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	2474082	169557820	28464610	62	92586											
IL1RAP	3556	broad.mit.edu	37	chr3	190338192	190338192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatccagaaaatggacgtacGtttcatctcaccaggactct	12	11	7	11	2	3	1	2	0	2	1	5	3	4	3	2	2	1	2	2	2	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:190338192G>A	uc003fsm.1	+	6	872	c.666G>A	c.(664-666)ACG>ACA	p.T222T	IL1RAP_uc003fsk.2_Silent_p.T222T|IL1RAP_uc003fsl.2_Silent_p.T222T|IL1RAP_uc010hzf.2_Silent_p.T81T|IL1RAP_uc010hzg.1_Silent_p.T222T|IL1RAP_uc003fsn.1_RNA|IL1RAP_uc003fso.1_Silent_p.T222T|IL1RAP_uc003fsp.1_RNA|IL1RAP_uc003fsq.2_Silent_p.T222T	NM_002182	NP_002173	Q9NPH3	IL1AP_HUMAN	interleukin 1 receptor accessory protein isoform	222	Extracellular (Potential).|Ig-like C2-type 2.				inflammatory response|innate immune response|protein complex assembly	extracellular region|integral to plasma membrane				ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0733)|Breast(254;0.21)		Lung(62;1.95e-06)|LUSC - Lung squamous cell carcinoma(58;2.05e-06)	GBM - Glioblastoma multiforme(93;0.00851)		ATGGACGTACGTTTCATCTCA	0.363													5	95					0	0	0.001984	0	0		A	190338192	A	A	190338192	2	1	186	1	0	0	0	0	0	0	0	1	7676	1132	40	1		1	IL1RAP	3	190338192	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	20780372	190338192	7684238	63	92587											
MUC4	4585	broad.mit.edu	37	chr3	195505242	195505242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggcagtgctgggaatggtgGaaatgatggtctgggaggtt	8	11	19	3	0	1	1	0	1	1	0	1	4	1	4	0	7	1	3	0	7	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr3:195505242G>A	uc011bto.1	-	4	12951	c.12491C>T	c.(12490-12492)TCC>TTC	p.S4164F	MUC4_uc003fva.2_5'UTR|MUC4_uc003fvb.2_5'UTR|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_5'UTR|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_5'UTR|MUC4_uc011bti.1_5'UTR|MUC4_uc011btj.1_Missense_Mutation_p.S33F|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_5'UTR|MUC4_uc011btm.1_Missense_Mutation_p.S33F|MUC4_uc011btn.1_5'UTR|MUC4_uc003fvo.2_Missense_Mutation_p.S56F|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.S904F	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1049					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGAATGGTGGAAATGATGGT	0.587													21	46					0	0	0.014323	0	0		A	195505242	A	A	195505242	3	1	186	1	0	0	0	0	1	0	0	0	9996	1174	41	4	3455	4	MUC4	3	195505242	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	5167050	195505242	2517188	64	92588											
ZBTB49	166793	broad.mit.edu	37	chr4	4304670	4304670	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgtgagaattttaattgCattagtgagacggagaggcc	12	12	13	4	1	0	3	0	2	0	3	0	6	0	3	1	2	1	2	1	2	3	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr4:4304670C>T	uc003ghu.2	+	3	1282	c.1107C>T	c.(1105-1107)TGC>TGT	p.C369C	ZBTB49_uc003ghv.2_5'UTR|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Silent_p.C69C	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	369					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						ATTTTAATTGCATTAGTGAGA	0.468													10	39					0	0	0.008291	0	0		T	4304670	T	T	4304670	2	4	186	1	0	0	0	0	0	0	0	1	17575	718	25	2		2	ZBTB49	4	4304670	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		4304670	186849606	65	92589											
SULT1E1	6783	broad.mit.edu	37	chr4	70723267	70723267	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatctggtcttgcctggaaCgcttccacattatcccaata	9	13	6	13	1	3	0	1	0	2	0	5	1	5	1	3	2	2	1	3	2	4	4	rs138937330		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr4:70723267C>T	uc003heo.2	-	2	209	c.96G>A	c.(94-96)GCG>GCA	p.A32A	SULT1E1_uc010ihv.1_Silent_p.A32A	NM_005420	NP_005411	P49888	ST1E1_HUMAN	estrogen sulfotransferase	32					3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol|nuclear membrane	estrone sulfotransferase activity|flavonol 3-sulfotransferase activity|steroid binding|steroid sulfotransferase activity			ovary(1)	1						TTGCCTGGAACGCTTCCACAT	0.348													20	30					0	0	0.008871	0	0		T	70723267	T	T	70723267	2	4	186	1	0	0	0	0	0	0	0	1	15405	523	19	1		1	SULT1E1	4	70723267	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	66418597	70723267	120431009	66	92590											
PCDH18	54510	broad.mit.edu	37	chr4	138452262	138452262	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgaatttggacccaaatcTtgagcctgaacatcaatctc	13	12	6	10	0	3	3	1	3	2	0	4	4	3	4	2	1	2	0	2	1	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr4:138452262T>C	uc003ihe.3	-	1	1368	c.981A>G	c.(979-981)CAA>CAG	p.Q327Q	PCDH18_uc003ihf.3_Silent_p.Q320Q|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Silent_p.Q107Q|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	327	Cadherin 3.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GACCCAAATCTTGAGCCTGAA	0.353													11	17					0	0	0.010729	0	0		C	138452262	C	C	138452262	2	2	186	1	0	0	0	0	0	0	0	1	11532	1606	56	3		3	PCDH18	4	138452262	Silent	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	67728995	138452262	52702014	67	92591											
WDR17	116966	broad.mit.edu	37	chr4	177082116	177082116	+	Missense_Mutation	SNP	T	A	A	0	1	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	tttccgtgcctaaaggagctTcatattctgatgatatctac	10	15	7	9	1	3	2	1	2	2	0	4	3	4	3	2	1	3	1	2	1	5	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr4:177082116T>A	uc003iuj.2	+	21	2941	c.2785T>A	c.(2785-2787)TCA>ACA	p.S929T	WDR17_uc003iuk.2_Missense_Mutation_p.S905T|WDR17_uc003ium.3_Missense_Mutation_p.S905T|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.S148T	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	929										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TAAAGGAGCTTCATATTCTGA	0.343													5	26					0	0	0.000602	0	0		A	177082116	A	A	177082116	3	1	186	1	0	0	0	0	1	0	0	0	17303	1783	62	5	2863	5	WDR17	4	177082116	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	38629854	177082116	14072160	68	92592											
SEMA5A	9037	broad.mit.edu	37	chr5	9044528	9044528	+	Missense_Mutation	SNP	T	G	G	0	1	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	acttgtccagtttgttgatgTggttggttatgctggtatta	6	19	12	4	0	0	1	0	1	0	0	1	1	1	1	1	3	1	6	1	3	3	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:9044528T>G	uc003jek.2	-	22	3774	c.3062A>C	c.(3061-3063)CAC>CCC	p.H1021P		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	1021	Cytoplasmic (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						TTTGTTGATGTGGTTGGTTAT	0.488													20	79					0	0	0.008871	0	0		G	9044528	G	G	9044528	3	3	186	1	0	0	0	0	1	0	0	0	14062	1696	59	5	170	5	SEMA5A	5	9044528	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08		9044528	171870732	69	92593											
CDH10	1008	broad.mit.edu	37	chr5	24487971	24487971	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggggtgcggtggggtcaAgatcatgctcttttagcctt	6	12	16	7	1	3	1	2	0	1	1	3	1	3	1	1	6	3	1	1	6	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:24487971A>G	uc003jgr.1	-	12	2500	c.2168T>C	c.(2167-2169)CTT>CCT	p.L723P	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	723	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		GGTGGGGTCAAGATCATGCTC	0.443										HNSCC(23;0.051)			24	60					0	0	0.00333	0	0		G	24487971	G	G	24487971	3	3	186	1	0	0	0	0	1	0	0	0	3099	72	3	3	202	3	CDH10	5	24487971	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	15443443	24487971	156427289	70	92594											
ADAMTS12	81792	broad.mit.edu	37	chr5	33614400	33614400	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtactgccagaagtacatctGctgctcaacatcattgtcaa	12	11	7	11	0	4	1	3	0	1	1	4	1	4	1	1	0	6	4	1	0	5	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:33614400G>T	uc003jia.1	-	16	2633	c.2470C>A	c.(2470-2472)CAG>AAG	p.Q824K	ADAMTS12_uc010iuq.1_Missense_Mutation_p.Q739K	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	824	TSP type-1 2.|Spacer 1.			Missing (in Ref. 1; CAC20419).	proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						AAGTACATCTGCTGCTCAACA	0.512										HNSCC(64;0.19)			9	22					0.000442599	0.000462647	0.006214	1	0		T	33614400	T	T	33614400	3	4	186	1	0	0	0	0	1	0	0	0	257	1328	46	5	2350	5	ADAMTS12	5	33614400	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	9126429	33614400	147300860	71	92595											
RXFP3	51289	broad.mit.edu	37	chr5	33936965	33936965	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggccaacacgagtggtaaCgcgtcgctgcagcttccgga	8	6	14	13	6	0	0	0	0	0	0	2	2	1	1	2	3	4	4	2	3	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:33936965C>T	uc003jic.1	+	1	477	c.120C>T	c.(118-120)AAC>AAT	p.N40N		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	40	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CGAGTGGTAACGCGTCGCTGC	0.667													22	101					0	0	0.003954	0	0		T	33936965	T	T	33936965	2	4	186	1	0	0	0	0	0	0	0	1	13786	535	19	1		1	RXFP3	5	33936965	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	322565	33936965	146978295	72	92596											
ITGA1	3672	broad.mit.edu	37	chr5	52229783	52229783	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacagtccctgaagttattaAttctactgaggacattggaa	13	12	9	7	0	1	2	0	2	1	0	2	5	2	4	1	2	1	1	1	2	5	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:52229783A>G	uc003jou.2	+	23	2973	c.2921A>G	c.(2920-2922)AAT>AGT	p.N974S	ITGA1_uc003jov.2_RNA|ITGA1_uc003jow.2_Missense_Mutation_p.N505S	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor	974	Extracellular (Potential).				axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				GAAGTTATTAATTCTACTGAG	0.269													9	49					0	0	0.010729	0	0		G	52229783	G	G	52229783	3	3	186	1	0	0	0	0	1	0	0	0	7888	101	4	3	3011	3	ITGA1	5	52229783	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	18292818	52229783	128685477	73	92597											
VCAN	1462	broad.mit.edu	37	chr5	82837805	82837805	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtgtggtgccttggctaAgtccacagacttctgagagg	8	10	14	9	0	1	2	0	1	1	2	2	3	2	2	2	4	1	1	2	4	1	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:82837805A>C	uc003kii.3	+	8	9339	c.8983A>C	c.(8983-8985)AGT>CGT	p.S2995R	VCAN_uc003kij.3_Missense_Mutation_p.S2008R|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.S1659R	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2995	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GCCTTGGCTAAGTCCACAGAC	0.502													5	51					0	0	0.000602	0	0		C	82837805	C	C	82837805	3	2	186	1	0	0	0	0	1	0	0	0	17164	72	3	5	9009	5	VCAN	5	82837805	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	30608022	82837805	98077455	74	92598											
FAM81B	153643	broad.mit.edu	37	chr5	94749783	94749783	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaggaggacatctctgcttgCctgcaggggacccatggctt	8	9	13	11	0	1	0	0	0	1	0	2	3	1	3	2	5	3	3	2	5	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:94749783C>G	uc003kla.1	+	4	472	c.426C>G	c.(424-426)TGC>TGG	p.C142W	FAM81B_uc010jbe.1_5'UTR	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	142										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		TCTCTGCTTGCCTGCAGGGGA	0.527													6	61					0	0	0.001984	0	0		G	94749783	G	G	94749783	3	3	186	1	0	0	0	0	1	0	0	0	5643	747	26	5	440	5	FAM81B	5	94749783	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	11911978	94749783	86165477	75	92599											
ADAMTS19	171019	broad.mit.edu	37	chr5	129039996	129039996	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtaccaacccaagaaagaAgtgtgtcctctctaccagac	14	8	7	12	0	1	3	0	0	1	3	3	3	2	3	4	0	3	1	4	0	6	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:129039996A>C	uc003kvb.1	+	21	3206	c.3206A>C	c.(3205-3207)AAG>ACG	p.K1069T	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1069	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		CCAAGAAAGAAGTGTGTCCTC	0.458													24	129					0	0	0.00333	0	0		C	129039996	C	C	129039996	3	2	186	1	0	0	0	0	1	0	0	0	264	72	3	5	3288	5	ADAMTS19	5	129039996	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	34290213	129039996	51875264	76	92600											
RAPGEF6	51735	broad.mit.edu	37	chr5	130825266	130825266	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttggtcttcacagtaagtgCaagatgagtattattcctca	11	14	9	7	0	3	2	2	1	1	1	4	2	4	2	1	1	1	4	1	1	4	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:130825266C>G	uc003kvn.1	-	15	2019	c.1813G>C	c.(1813-1815)GCA>CCA	p.A605P	RAPGEF6_uc003kvp.1_Missense_Mutation_p.A655P|RAPGEF6_uc003kvo.1_Missense_Mutation_p.A605P|RAPGEF6_uc010jdi.1_Missense_Mutation_p.A605P|RAPGEF6_uc010jdj.1_Missense_Mutation_p.A605P|RAPGEF6_uc003kvq.2_Missense_Mutation_p.A322P|RAPGEF6_uc003kvr.2_Missense_Mutation_p.A605P|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.A605P	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	605	PDZ.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		ACAGTAAGTGCAAGATGAGTA	0.289													5	20					0	0	0.001984	0	0		G	130825266	G	G	130825266	3	3	186	1	0	0	0	0	1	0	0	0	13073	710	25	5	3534	5	RAPGEF6	5	130825266	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1785270	130825266	50089994	77	92601											
SPOCK1	6695	broad.mit.edu	37	chr5	136324155	136324155	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactcattgttagaaagcTtgccatccttgaaggagtca	12	11	8	10	0	2	2	2	1	0	1	3	3	3	3	3	1	2	2	3	1	3	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:136324155T>G	uc003lbo.2	-	7	1075	c.884A>C	c.(883-885)AAG>ACG	p.K295T	SPOCK1_uc003lbp.2_Missense_Mutation_p.K295T	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	295					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GTTAGAAAGCTTGCCATCCTT	0.532													23	80					0	0	0.003954	0	0		G	136324155	G	G	136324155	3	3	186	1	0	0	0	0	1	0	0	0	15104	1609	56	5	451	5	SPOCK1	5	136324155	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	5498889	136324155	44591105	78	92602											
HNRNPA0	10949	broad.mit.edu	37	chr5	137088877	137088877	+	Silent	SNP	G	A	A	0	0	1	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	tagccacccccaccgccataGccgcctctgtaaggtccact	8	7	7	19	2	1	0	0	0	1	0	2	0	2	0	8	1	2	1	8	1	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:137088877G>A	uc003lbt.2	-	1	1163	c.879C>T	c.(877-879)GGC>GGT	p.G293G	MYOT_uc011cye.1_Intron|HNRNPA0_uc010jeo.2_RNA	NM_006805	NP_006796	Q13151	ROA0_HUMAN	heterogeneous nuclear ribonucleoprotein A0	293	Gly-rich.				nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|RNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CACCGCCATAGCCGCCTCTGT	0.468													17	28					0	0	0.012319	0	0		A	137088877	A	A	137088877	2	1	186	1	0	0	0	0	0	0	0	1	7272	958	34	2		2	HNRNPA0	5	137088877	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	764722	137088877	43826383	79	92603											
CDC25C	995	broad.mit.edu	37	chr5	137661584	137661584	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accattcggagtgctacaaaGaagctgtgcctaaaaaagag	16	7	10	8	1	0	2	0	0	0	2	1	3	0	3	2	1	4	2	2	1	6	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:137661584G>C	uc003lcp.1	-	6	650	c.379C>G	c.(379-381)CTT>GTT	p.L127V	CDC25C_uc003lcq.1_Intron|CDC25C_uc003lcr.1_Missense_Mutation_p.L127V|CDC25C_uc011cyp.1_Missense_Mutation_p.L144V|CDC25C_uc003lcs.1_Missense_Mutation_p.L205V|CDC25C_uc010jet.1_Intron|CDC25C_uc003lct.1_Intron|CDC25C_uc003lcu.1_Missense_Mutation_p.L84V	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	127					cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GTGCTACAAAGAAGCTGTGCC	0.443													7	49					0	0	0.00308	0	0		C	137661584	C	C	137661584	3	2	186	1	0	0	0	0	1	0	0	0	3067	942	33	5	1078	5	CDC25C	5	137661584	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	572707	137661584	43253676	80	92604											
PCDHA8	56140	broad.mit.edu	37	chr5	140222910	140222910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggccacggttctggtgtcGctggtggagagcggccaggc	5	7	18	11	4	1	1	0	0	1	1	2	2	1	1	2	7	1	2	2	7	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:140222910G>A	uc003lhs.2	+	1	2004	c.2004G>A	c.(2002-2004)TCG>TCA	p.S668S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.S668S	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	668	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCTGGTGTCGCTGGTGGAGA	0.637													19	96					0	0	0.008871	0	0		A	140222910	A	A	140222910	2	1	186	1	0	0	0	0	0	0	0	1	11549	1074	38	1		1	PCDHA8	5	140222910	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	2561326	140222910	40692350	81	92605											
PCDHB16	57717	broad.mit.edu	37	chr5	140562740	140562740	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttggataaagagctggatcgGgaggaggagcctcaactaag	13	7	15	6	1	1	1	1	0	0	1	2	6	1	6	1	5	3	1	1	5	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:140562740G>A	uc003liv.2	+	1	1761	c.606G>A	c.(604-606)CGG>CGA	p.R202R	PCDHB16_uc010jfw.1_Intron	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	202	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCTGGATCGGGAGGAGGAGC	0.498													6	53					0	0	0.001168	0	0		A	140562740	A	A	140562740	2	1	186	1	0	0	0	0	0	0	0	1	11560	1219	43	4		4	PCDHB16	5	140562740	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	339830	140562740	40352520	82	92606											
ADAM19	8728	broad.mit.edu	37	chr5	156929870	156929870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacccgttcccacacctccGgcctccatacaacatcctgg	9	8	5	19	2	0	0	0	0	0	0	4	0	4	0	7	2	3	1	7	2	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr5:156929870G>A	uc003lwz.2	-	12	1313	c.1249C>T	c.(1249-1251)CGG>TGG	p.R417W	ADAM19_uc003lww.1_Missense_Mutation_p.R150W|ADAM19_uc003lwy.2_Missense_Mutation_p.R16W|ADAM19_uc011ddr.1_Missense_Mutation_p.R348W	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	417	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	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)			CCACACCTCCGGCCTCCATAC	0.537													29	98					0	0	0.008361	0	0		A	156929870	A	A	156929870	3	1	186	1	0	0	0	0	1	0	0	0	240	1115	39	1	1555	1	ADAM19	5	156929870	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	16367130	156929870	23985390	83	92607											
SOX4	6659	broad.mit.edu	37	chr6	21595667	21595667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcgcgtctacctgttcggcgGcctgggcacgtcgtcgtcgc	2	9	15	15	8	1	0	0	0	1	0	5	0	1	0	2	3	1	2	2	3	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:21595667G>A	uc003ndi.2	+	1	1696	c.902G>A	c.(901-903)GGC>GAC	p.G301D		NM_003107	NP_003098	Q06945	SOX4_HUMAN	SRY (sex determining region Y)-box 4	301					canonical Wnt receptor signaling pathway|cardiac ventricle formation|cellular response to glucose stimulus|DNA damage response, detection of DNA damage|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|glial cell development|glial cell proliferation|limb bud formation|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein export from nucleus|negative regulation of protein ubiquitination|neural tube formation|neuroepithelial cell differentiation|noradrenergic neuron differentiation|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|positive regulation of insulin secretion|positive regulation of N-terminal peptidyl-lysine acetylation|positive regulation of translation|pro-B cell differentiation|protein stabilization|skeletal system development|spinal cord motor neuron differentiation|sympathetic nervous system development|T cell differentiation	mitochondrion|nucleus	core promoter sequence-specific DNA binding|protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription coactivator activity				0	Ovarian(93;0.163)		all cancers(50;0.0751)|Epithelial(50;0.155)			CTGTTCGGCGGCCTGGGCACG	0.766													10	17					0	0	0.010729	0	0		A	21595667	A	A	21595667	3	1	186	1	0	0	0	0	1	0	0	0	14978	1203	42	2	904	2	SOX4	6	21595667	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		21595667	149519400	84	92608											
ZNF165	7718	broad.mit.edu	37	chr6	28057156	28057156	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcacactggagaaaaacccTatgaatgcagtgagtgtgga	14	9	11	7	0	1	3	1	2	0	1	1	5	1	4	1	2	2	1	1	2	4	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:28057156T>A	uc003nkg.2	+	5	2450	c.1366T>A	c.(1366-1368)TAT>AAT	p.Y456N	ZNF165_uc003nkh.2_Missense_Mutation_p.Y456N|ZNF165_uc003nki.3_Missense_Mutation_p.Y456N|ZSCAN12P1_uc003nkj.3_5'Flank	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	456	C2H2-type 6.				viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGAAAAACCCTATGAATGCAG	0.428													12	32					0	0	0.013537	0	0		A	28057156	A	A	28057156	3	1	186	1	0	0	0	0	1	0	0	0	17765	1522	53	5	1376	5	ZNF165	6	28057156	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	6461489	28057156	143057911	85	92609											
ZKSCAN4	387032	broad.mit.edu	37	chr6	28217613	28217613	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggtcaccaacgggaacCtagaagtcacgatttttagt	11	10	9	11	2	2	1	2	0	0	1	2	3	2	2	3	2	2	0	3	2	5	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:28217613C>G	uc003nks.1	-	2	668	c.424_splice	c.e2-1	p.V142_splice	ZKSCAN4_uc011dlb.1_Splice_Site	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						CAACGGGAACCTAGAAGTCAC	0.353													19	164					0	0	0.012319	0	0		G	28217613	G	G	28217613	5	3	186	1	0	0	0	0	0	0	1	0	17714	695	24	5	1230	5	ZKSCAN4	6	28217613	Splice_Site	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	160457	28217613	142897454	86	92610											
MDC1	9656	broad.mit.edu	37	chr6	30680604	30680604	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	ctgtatcactaccagcctggCtctcctgcagatgggccagg	7	9	11	14	0	2	1	1	0	1	1	3	1	2	1	4	3	3	3	4	3	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:30680604C>G	uc003nrg.3	-	5	1555	c.1115G>C	c.(1114-1116)AGC>ACC	p.S372T	MDC1_uc003nrf.3_Missense_Mutation_p.S26T|MDC1_uc011dmp.1_Missense_Mutation_p.S244T|MDC1_uc003nrh.1_Missense_Mutation_p.S244T|MDC1_uc003nri.2_Missense_Mutation_p.S372T	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	372	Required for nuclear localization (NLS1).				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						ACCAGCCTGGCTCTCCTGCAG	0.537								Other_conserved_DNA_damage_response_genes					48	89					0	0	0.01441	0	0		G	30680604	G	G	30680604	3	3	186	1	0	0	0	0	1	0	0	0	9421	797	28	5	5198	5	MDC1	6	30680604	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	2462991	30680604	140434463	87	92611											
DOM3Z	1797	broad.mit.edu	37	chr6	31938737	31938737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccatgtacataagctcccGgaggagcggtggccgagcaa	10	6	13	12	3	0	0	0	0	0	0	2	3	2	2	3	4	4	3	3	4	3	2	rs147759642		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:31938737G>A	uc003nyo.1	-	2	1078	c.544C>T	c.(544-546)CGG>TGG	p.R182W	DOM3Z_uc003nyp.1_Missense_Mutation_p.R182W|DOM3Z_uc003nyq.1_5'UTR|DOM3Z_uc003nyr.1_Missense_Mutation_p.R182W|DOM3Z_uc003nys.1_Missense_Mutation_p.R182W|DOM3Z_uc010jtl.1_3'UTR|STK19_uc003nyt.2_5'Flank|STK19_uc011dow.1_5'Flank|STK19_uc011dox.1_5'Flank|STK19_uc003nyv.2_5'Flank|STK19_uc003nyw.2_5'Flank|STK19_uc010jtn.1_5'Flank	NM_005510	NP_005501	O77932	DOM3Z_HUMAN	DOM-3 homolog Z	182							identical protein binding|metal ion binding|nucleotide binding				0						ATAAGCTCCCGGAGGAGCGGT	0.592													4	156					0	0	0.009096	0	0		A	31938737	A	A	31938737	3	1	186	1	0	0	0	0	1	0	0	0	4711	1115	39	1	666	1	DOM3Z	6	31938737	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1258133	31938737	139176330	88	92612											
PTK7	5754	broad.mit.edu	37	chr6	43096749	43096749	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgtcttcatcaagcagccGtcctcccaggatgcactgca	9	10	8	14	1	3	0	2	0	1	0	5	1	5	1	3	1	4	3	3	1	1	2	rs151242533		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:43096749G>A	uc003oub.1	+	2	312	c.114G>A	c.(112-114)CCG>CCA	p.P38P	PTK7_uc003ouc.1_Silent_p.P38P|PTK7_uc003oud.1_Silent_p.P38P|PTK7_uc003oue.1_Silent_p.P38P|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Silent_p.P46P|PTK7_uc003oua.2_Silent_p.P38P	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	38	Ig-like C2-type 1.|Extracellular (Potential).				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			TCAAGCAGCCGTCCTCCCAGG	0.637													7	85					0	0	0.006214	0	0		A	43096749	A	A	43096749	2	1	186	1	0	0	0	0	0	0	0	1	12788	1132	40	1		1	PTK7	6	43096749	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	11158012	43096749	128018318	89	92613											
KHDRBS2	202559	broad.mit.edu	37	chr6	62390958	62390958	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcgggttgtggcccattcTtctggtgctgtgaaaaagag	8	11	15	7	1	2	2	0	1	2	1	2	3	2	2	1	3	2	2	1	3	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:62390958T>A	uc003peg.2	-	9	1207	c.960A>T	c.(958-960)GAA>GAT	p.E320D		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	320					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		TGGCCCATTCTTCTGGTGCTG	0.448													7	36					0	0	0.006214	0	0		A	62390958	A	A	62390958	3	1	186	1	0	0	0	0	1	0	0	0	8163	1606	56	5	93	5	KHDRBS2	6	62390958	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	19294209	62390958	108724109	90	92614											
MCHR2	84539	broad.mit.edu	37	chr6	100382309	100382309	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctgttgatacatctcccaAgtatagcataaaattaaaat	16	14	4	7	0	2	1	0	1	2	0	3	1	2	1	1	0	2	3	1	0	8	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:100382309A>C	uc003pqh.1	-	5	987	c.672T>G	c.(670-672)ACT>ACG	p.T224T	MCHR2_uc003pqi.1_Silent_p.T224T	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	224	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	8		all_cancers(76;4.87e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0309)|Colorectal(196;0.069)		BRCA - Breast invasive adenocarcinoma(108;0.0429)		ACATCTCCCAAGTATAGCATA	0.299													26	79					0	0	0.00632	0	0		C	100382309	C	C	100382309	2	2	186	1	0	0	0	0	0	0	0	1	9401	59	3	5		5	MCHR2	6	100382309	Silent	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	37991351	100382309	70732758	91	92615											
QRSL1	55278	broad.mit.edu	37	chr6	107088263	107088263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggccaaattacaccaacaGagctctgtcaaaaatgtctc	16	8	6	11	0	3	1	1	0	2	1	4	1	3	1	2	1	3	1	2	1	6	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:107088263G>A	uc003prm.2	+	2	180	c.64G>A	c.(64-66)GAG>AAG	p.E22K	QRSL1_uc003prl.2_Missense_Mutation_p.E22K	NM_018292	NP_060762	Q9H0R6	QRSL1_HUMAN	glutaminyl-tRNA synthase	22					translation		ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;0.00768)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.248)	Epithelial(6;0.000334)|all cancers(7;0.00157)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0152)	BRCA - Breast invasive adenocarcinoma(108;0.118)|all cancers(137;0.167)|Epithelial(106;0.176)		TACACCAACAGAGCTCTGTCA	0.373													22	39					0	0	0.00333	0	0		A	107088263	A	A	107088263	3	1	186	1	0	0	0	0	1	0	0	0	12906	943	33	4	70	4	QRSL1	6	107088263	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	6705954	107088263	64026804	92	92616											
LAMA4	3910	broad.mit.edu	37	chr6	112512889	112512889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagtagccaggagcgcaacGttcacacttgaatccggtgg	11	8	12	10	3	1	1	1	1	0	0	2	2	2	2	2	3	3	3	2	3	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:112512889G>A	uc003pvu.2	-	6	976	c.667C>T	c.(667-669)CGT>TGT	p.R223C	LAMA4_uc003pvv.2_Missense_Mutation_p.R223C|LAMA4_uc003pvt.2_Missense_Mutation_p.R223C	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	223	Laminin EGF-like 3.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GGAGCGCAACGTTCACACTTG	0.502													20	27					0	0	0.010504	0	0		A	112512889	A	A	112512889	3	1	186	1	0	0	0	0	1	0	0	0	8624	1145	40	1	4940	1	LAMA4	6	112512889	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	5424626	112512889	58602178	93	92617											
TAAR5	9038	broad.mit.edu	37	chr6	132909837	132909837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggtacaaatcaacagtgCgtgtctgcggtgagaagacc	11	9	12	9	2	2	2	1	1	1	2	2	3	2	2	1	2	4	1	1	2	4	2	rs145127866	byFrequency	TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:132909837C>T	uc003qdk.2	-	1	1041	c.989G>A	c.(988-990)CGC>CAC	p.R330H		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	330	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		ATCAACAGTGCGTGTCTGCGG	0.493													12	52					0	0	0.013537	0	0		T	132909837	T	T	132909837	3	4	186	1	0	0	0	0	1	0	0	0	15516	768	27	1	28	1	TAAR5	6	132909837	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	20396948	132909837	38205230	94	92618											
TBPL1	9519	broad.mit.edu	37	chr6	134305750	134305750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcctgctgtgtgctatcGgataaaatctctaagagcta	11	13	8	9	1	2	1	1	0	1	1	5	2	3	2	1	1	3	3	1	1	5	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:134305750G>A	uc010kgg.2	+	6	982	c.422G>A	c.(421-423)CGG>CAG	p.R141Q	TBPL1_uc003qel.2_Missense_Mutation_p.R141Q	NM_004865	NP_004856	P62380	TBPL1_HUMAN	TBP-like 1	141					regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	cytoplasm	DNA binding|protein binding|transcription coactivator activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00591)|OV - Ovarian serous cystadenocarcinoma(155;0.00848)		GTGTGCTATCGGATAAAATCT	0.313													4	22					0	0	0.009096	0	0		A	134305750	A	A	134305750	3	1	186	1	0	0	0	0	1	0	0	0	15670	1116	39	1	440	1	TBPL1	6	134305750	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1395913	134305750	36809317	95	92619											
HIVEP2	3097	broad.mit.edu	37	chr6	143093770	143093770	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtcctcttcatcccctacGctcttctctttccggcgttt	2	17	6	16	3	4	0	1	0	3	0	8	0	7	0	4	1	1	2	4	1	1	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:143093770G>A	uc003qjd.2	-	5	2849	c.2106C>T	c.(2104-2106)AGC>AGT	p.S702S		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	702					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CATCCCCTACGCTCTTCTCTT	0.512													13	110					0	0	0.00499	0	0		A	143093770	A	A	143093770	2	1	186	1	0	0	0	0	0	0	0	1	7203	1078	38	1		1	HIVEP2	6	143093770	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	8788020	143093770	28021297	96	92620											
STX11	8676	broad.mit.edu	37	chr6	144507996	144507996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcttcctcacgtccatgcggCgcctcagcagcatcaagcgc	7	7	10	17	4	3	0	3	0	0	0	5	0	5	0	3	1	4	3	3	1	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:144507996C>T	uc003qks.3	+	2	424	c.232C>T	c.(232-234)CGC>TGC	p.R78C		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	78					cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		GTCCATGCGGCGCCTCAGCAG	0.627									Familial_Hemophagocytic_Lymphohistiocytosis				9	27					0	0	0.013537	0	0		T	144507996	T	T	144507996	3	4	186	1	0	0	0	0	1	0	0	0	15362	768	27	1	234	1	STX11	6	144507996	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1414226	144507996	26607071	97	92621											
UTRN	7402	broad.mit.edu	37	chr6	144801088	144801088	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgagtacaagtcaccagaAgagcttgagagtgctgtgga	12	10	13	6	0	1	4	1	2	0	3	1	6	1	5	1	1	3	3	1	1	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:144801088A>C	uc003qkt.2	+	25	3569	c.3477A>C	c.(3475-3477)GAA>GAC	p.E1159D	UTRN_uc010khq.1_Missense_Mutation_p.E1159D	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1159	Spectrin 8.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AGTCACCAGAAGAGCTTGAGA	0.517													22	54					0	0	0.00278	0	0		C	144801088	C	C	144801088	3	2	186	1	0	0	0	0	1	0	0	0	17129	69	3	5	3575	5	UTRN	6	144801088	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	293092	144801088	26313979	98	92622											
PACRG	135138	broad.mit.edu	37	chr6	163735984	163735984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttatcaacattaagtacGtggtcccaacctacgagtct	11	12	6	12	2	2	0	1	0	1	0	3	1	3	0	3	1	4	1	3	1	6	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:163735984G>A	uc003qua.2	+	7	1080	c.856G>A	c.(856-858)GTG>ATG	p.V286M	PACRG_uc003qub.2_Missense_Mutation_p.V247M|PACRG_uc003quc.2_Missense_Mutation_p.V247M|LOC285796_uc011egh.1_Intron	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	286											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		CATTAAGTACGTGGTCCCAAC	0.507													18	49					0	0	0.012319	0	0		A	163735984	A	A	163735984	3	1	186	1	0	0	0	0	1	0	0	0	11389	1145	40	1	878	1	PACRG	6	163735984	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	18934896	163735984	7379083	99	92623											
DLL1	28514	broad.mit.edu	37	chr6	170592364	170592364	+	Missense_Mutation	SNP	T	G	G	0	1	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	tctcctcccctgaggagcccTggggctggcacttggtgtca	4	10	13	14	0	2	1	1	1	1	0	4	2	3	2	4	5	1	2	4	5	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:170592364T>G	uc003qxm.2	-	9	2473	c.2003A>C	c.(2002-2004)CAG>CCG	p.Q668P		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	668	Cytoplasmic (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		TGAGGAGCCCTGGGGCTGGCA	0.677													10	21					0	0	0.006214	0	0		G	170592364	G	G	170592364	3	3	186	1	0	0	0	0	1	0	0	0	4572	1580	55	5	180	5	DLL1	6	170592364	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	6856380	170592364	522703	100	92624											
DLL1	28514	broad.mit.edu	37	chr6	170594140	170594140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgttaaagcaagggccGtccgcacaggtcatggcact	9	6	11	15	3	1	0	1	0	0	0	2	0	2	0	4	3	1	4	4	3	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr6:170594140G>A	uc003qxm.2	-	8	1586	c.1116C>T	c.(1114-1116)GAC>GAT	p.D372D		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	372	Extracellular (Potential).|EGF-like 5.				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		AGCAAGGGCCGTCCGCACAGG	0.582													9	43					0	0	0.010729	0	0		A	170594140	A	A	170594140	2	1	186	1	0	0	0	0	0	0	0	1	4572	1136	40	1		1	DLL1	6	170594140	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1776	170594140	520927	101	92625											
SDK1	221935	broad.mit.edu	37	chr7	4026879	4026879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcttcccacagccacgccGtggtgctctcttgggtccgg	4	11	11	15	3	2	0	0	0	2	0	5	0	4	0	4	3	2	1	4	3	0	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:4026879G>A	uc003smx.2	+	14	2195	c.2056G>A	c.(2056-2058)GTG>ATG	p.V686M		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	686	Fibronectin type-III 1.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CAGCCACGCCGTGGTGCTCTC	0.458													27	119					0	0	0.00632	0	0		A	4026879	A	A	4026879	3	1	186	1	0	0	0	0	1	0	0	0	13993	1145	40	1	2110	1	SDK1	7	4026879	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		4026879	155111784	102	92626											
SDK1	221935	broad.mit.edu	37	chr7	4218127	4218127	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaccctgcagatttaaagaaGtaccggcgctatgaagtaat	15	9	9	8	2	0	3	0	1	0	2	0	3	0	3	2	1	3	4	2	1	8	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:4218127G>T	uc003smx.2	+	35	5146	c.5007G>T	c.(5005-5007)AAG>AAT	p.K1669N	SDK1_uc010kso.2_Missense_Mutation_p.K925N|SDK1_uc003smy.2_Missense_Mutation_p.K156N	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1669	Fibronectin type-III 10.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		ATTTAAAGAAGTACCGGCGCT	0.522													23	172					8.24728e-16	9.47964e-16	0.004656	1	0		T	4218127	T	T	4218127	3	4	186	1	0	0	0	0	1	0	0	0	13993	1020	36	5	5145	5	SDK1	7	4218127	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	191248	4218127	154920536	103	92627											
SDK1	221935	broad.mit.edu	37	chr7	4247869	4247869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcagccttcaacgccgccGgagatggacctaagagtgac	11	7	11	12	3	2	3	2	1	0	2	2	5	2	4	4	2	2	0	4	2	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:4247869G>A	uc003smx.2	+	37	5492	c.5353G>A	c.(5353-5355)GGA>AGA	p.G1785R	SDK1_uc010kso.2_Missense_Mutation_p.G1041R|SDK1_uc003smy.2_Missense_Mutation_p.G272R	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1785	Fibronectin type-III 11.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CAACGCCGCCGGAGATGGACC	0.602													8	45					0	0	0.004482	0	0		A	4247869	A	A	4247869	3	1	186	1	0	0	0	0	1	0	0	0	13993	1117	39	1	5499	1	SDK1	7	4247869	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	29742	4247869	154890794	104	92628											
TXNDC3	51314	broad.mit.edu	37	chr7	37907454	37907454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatctgaggatcaacctgagGtcgaagcccaggttacacct	11	8	11	11	1	2	2	1	2	1	0	3	5	2	3	3	3	3	1	3	3	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:37907454G>A	uc003tfn.2	+	11	1144	c.772G>A	c.(772-774)GTC>ATC	p.V258I		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	258					cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						TCAACCTGAGGTCGAAGCCCA	0.438									Kartagener_syndrome				9	21					0	0	0.004482	0	0		A	37907454	A	A	37907454	3	1	186	1	0	0	0	0	1	0	0	0	16824	1261	44	4	806	4	TXNDC3	7	37907454	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	33659585	37907454	121231209	105	92629											
URGCP	55665	broad.mit.edu	37	chr7	43917267	43917267	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggctcccccacgtctgtggTgcccccatgctttggtctca	3	11	10	17	2	2	0	1	0	2	0	4	0	3	0	4	3	2	2	4	3	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:43917267T>C	uc003tiw.2	-	6	1852	c.1795A>G	c.(1795-1797)ACC>GCC	p.T599A	URGCP_uc003tiu.2_Missense_Mutation_p.T556A|URGCP_uc003tiv.2_Missense_Mutation_p.T524A|URGCP_uc003tix.2_Missense_Mutation_p.T590A|URGCP_uc003tiy.2_Missense_Mutation_p.T556A|URGCP_uc003tiz.2_Missense_Mutation_p.T556A|URGCP_uc011kbj.1_Missense_Mutation_p.T556A	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	599					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						ACGTCTGTGGTGCCCCCATGC	0.632													24	81					0	0	0.003954	0	0		C	43917267	C	C	43917267	3	2	186	1	0	0	0	0	1	0	0	0	17052	1696	59	3	1004	3	URGCP	7	43917267	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	6009813	43917267	115221396	106	92630											
VSTM2A	222008	broad.mit.edu	37	chr7	54612434	54612434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatccaatggtggttcctgCgggggccggaggacctggat	7	8	17	9	2	0	1	0	0	0	1	2	4	2	4	4	7	1	1	4	7	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:54612434C>T	uc010kzf.2	+	2	604	c.199C>T	c.(199-201)CGG>TGG	p.R67W	VSTM2A_uc010kze.2_Missense_Mutation_p.R67W|VSTM2A_uc003tqc.3_Missense_Mutation_p.R67W	NM_182546	NP_872352	Q8TAG5	VTM2A_HUMAN	V-set and transmembrane domain containing 2	67	Ig-like V-type.					extracellular region					0			STAD - Stomach adenocarcinoma(5;0.0525)			GTGGTTCCTGCGGGGGCCGGA	0.721													10	25					0	0	0.010729	0	0		T	54612434	T	T	54612434	3	4	186	1	0	0	0	0	1	0	0	0	17255	759	27	1	205	1	VSTM2A	7	54612434	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	10695167	54612434	104526229	107	92631											
ZNF716	441234	broad.mit.edu	37	chr7	57522244	57522244	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggatcatgctcagcagaatTtatatagagatgtgatgtta	13	14	10	4	0	2	3	2	1	0	2	2	5	2	4	0	1	2	3	0	1	5	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:57522244T>A	uc011kdi.1	+	2	230	c.118T>A	c.(118-120)TTA>ATA	p.L40I		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						TCAGCAGAATTTATATAGAGA	0.373													11	54					0	0	0.013537	0	0		A	57522244	A	A	57522244	3	1	186	1	0	0	0	0	1	0	0	0	18144	1838	64	5	124	5	ZNF716	7	57522244	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	2909810	57522244	101616419	108	92632											
ZNF716	441234	broad.mit.edu	37	chr7	57529438	57529438	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taactgctcctcaacccttaAgaaacataagataattcata	17	11	3	10	0	2	2	2	0	0	2	3	2	3	2	2	0	4	1	2	0	7	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:57529438A>G	uc011kdi.1	+	4	1383	c.1271A>G	c.(1270-1272)AAG>AGG	p.K424R		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						TCAACCCTTAAGAAACATAAG	0.383													5	16					0	0	0.001168	0	0		G	57529438	G	G	57529438	3	3	186	1	0	0	0	0	1	0	0	0	18144	72	3	3	1285	3	ZNF716	7	57529438	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	7194	57529438	101609225	109	92633											
TYW1	55253	broad.mit.edu	37	chr7	66479483	66479483	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgatttggcaaaacttacCtgaagggtatgagatatgcg	12	12	11	6	2	0	2	0	2	0	1	1	4	0	2	1	2	3	2	1	2	6	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:66479483C>A	uc003tvn.2	+	5	654	c.505C>A	c.(505-507)CTG>ATG	p.L169M	TYW1_uc010lai.2_RNA	NM_018264	NP_060734	Q9NV66	TYW1_HUMAN	radical S-adenosyl methionine and flavodoxin	169	Flavodoxin-like.				tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity			skin(1)	1		Lung NSC(55;0.0846)|all_lung(88;0.183)				CAAAACTTACCTGAAGGGTAT	0.428													46	165					1.61004e-24	1.87214e-24	0.01441	1	0		A	66479483	A	A	66479483	3	1	186	1	0	0	0	0	1	0	0	0	16844	680	24	5	523	5	TYW1	7	66479483	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	8950045	66479483	92659180	110	92634											
PCLO	27445	broad.mit.edu	37	chr7	82545713	82545713	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggtataaactggctgaaTtcagtttggggagcagttct	9	13	14	5	0	2	1	1	1	1	0	2	2	2	2	0	5	2	5	0	5	4	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:82545713T>G	uc003uhx.2	-	7	11878	c.11589A>C	c.(11587-11589)GAA>GAC	p.E3863D	PCLO_uc003uhv.2_Missense_Mutation_p.E3863D|PCLO_uc010lec.2_Missense_Mutation_p.E828D	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3794	Gln-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ACTGGCTGAATTCAGTTTGGG	0.458													74	240					0	0	0.01441	0	0		G	82545713	G	G	82545713	3	3	186	1	0	0	0	0	1	0	0	0	11602	1490	52	5	3932	5	PCLO	7	82545713	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	16066230	82545713	76592950	111	92635											
SEMA3A	10371	broad.mit.edu	37	chr7	83590815	83590815	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttgccgacgttgttttcGgtcccttttccaaacttgtt	4	18	7	12	3	0	0	0	0	0	0	3	1	2	0	4	1	2	3	4	1	1	8			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:83590815G>A	uc003uhz.2	-	17	2503	c.2188C>T	c.(2188-2190)CGA>TGA	p.R730*		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	730	Arg/Lys-rich (basic).				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						CGTTGTTTTCGGTCCCTTTTC	0.468													22	78					0	0	0.010504	0	0		A	83590815	A	A	83590815	4	1	186	1	0	0	0	0	0	1	0	0	14049	1124	39	1	131	1	SEMA3A	7	83590815	Nonsense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1045102	83590815	75547848	112	92636											
COL1A2	1278	broad.mit.edu	37	chr7	94038121	94038121	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gccctccaggcttcccaggtGcccctggccccaaggtaaaa	8	6	10	17	0	0	0	0	0	0	0	2	0	2	0	7	4	1	2	7	4	3	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:94038121G>A	uc003ung.1	+	16	1249	c.778G>A	c.(778-780)GCC>ACC	p.A260T	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	260					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	CTTCCCAGGTGCCCCTGGCCC	0.433										HNSCC(75;0.22)			8	24					0	0	0.013537	0	0		A	94038121	A	A	94038121	3	1	186	1	0	0	0	0	1	0	0	0	3681	1319	46	2	840	2	COL1A2	7	94038121	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	10447306	94038121	65100542	113	92637											
RELN	5649	broad.mit.edu	37	chr7	103143594	103143594	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cactgagggaccagataattCcaactcacaccgaagtcagt	14	7	8	12	1	2	2	2	1	0	1	3	4	3	3	3	1	1	0	3	1	3	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:103143594C>T	uc003vca.2	-	52	8518	c.8358G>A	c.(8356-8358)TGG>TGA	p.W2786*	RELN_uc010liz.2_Nonsense_Mutation_p.W2786*	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2786	BNR 13.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCAGATAATTCCAACTCACAC	0.413													16	54					0	0	0.007413	0	0		T	103143594	T	T	103143594	4	4	186	1	0	0	0	0	0	1	0	0	13245	856	30	4	2080	4	RELN	7	103143594	Nonsense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	9105473	103143594	55995069	114	92638											
PTPRZ1	5803	broad.mit.edu	37	chr7	121650904	121650904	+	Missense_Mutation	SNP	A	G	G	1	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	ctatcccattcatctctgagAacatatcccaagggtatata	13	12	5	11	0	2	1	1	1	1	1	5	2	4	1	2	1	1	1	2	1	7	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:121650904A>G	uc003vjy.2	+	12	2199	c.1804A>G	c.(1804-1806)AAC>GAC	p.N602D	PTPRZ1_uc003vjz.2_Missense_Mutation_p.N602D|PTPRZ1_uc011knt.1_Missense_Mutation_p.N52D	NM_002851	NP_002842	P23471	PTPRZ_HUMAN	protein tyrosine phosphatase, receptor-type,	602	Extracellular (Potential).				central nervous system development	integral to plasma membrane	protein binding|protein tyrosine/threonine phosphatase activity|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|large_intestine(2)|lung(2)|central_nervous_system(1)|kidney(1)	9						CATCTCTGAGAACATATCCCA	0.423													14	36					0	0	0.004007	0	0		G	121650904	G	G	121650904	3	3	186	1	0	0	0	0	1	0	0	0	12839	246	9	3	1850	3	PTPRZ1	7	121650904	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	18507310	121650904	37487759	115	92639											
GRM8	2918	broad.mit.edu	37	chr7	126086287	126086287	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcagctgtcaccacagccTtgaagctcctcttgcgtttt	6	13	9	13	1	2	1	1	1	1	0	3	1	3	1	3	1	4	4	3	1	1	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:126086287T>G	uc003vlr.2	-	9	2881	c.2570A>C	c.(2569-2571)AAG>ACG	p.K857T	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.K857T|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	857	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CACCACAGCCTTGAAGCTCCT	0.418										HNSCC(24;0.065)			25	104					0	0	0.00333	0	0		G	126086287	G	G	126086287	3	3	186	1	0	0	0	0	1	0	0	0	6819	1609	56	5	214	5	GRM8	7	126086287	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	4435383	126086287	33052376	116	92640											
GRM8	2918	broad.mit.edu	37	chr7	126086390	126086390	+	Missense_Mutation	SNP	T	G	G	0	1	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	agatactgaagcacttaaacTcatggagacagtaagtgttg	15	10	10	6	0	1	3	1	1	0	2	1	4	1	3	0	1	3	3	0	1	5	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:126086390T>G	uc003vlr.2	-	9	2778	c.2467A>C	c.(2467-2469)AGT>CGT	p.S823R	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.S823R|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	823	Helical; Name=7; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GCACTTAAACTCATGGAGACA	0.368										HNSCC(24;0.065)			10	39					0	0	0.008291	0	0		G	126086390	G	G	126086390	3	3	186	1	0	0	0	0	1	0	0	0	6819	1551	54	5	317	5	GRM8	7	126086390	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	103	126086390	33052273	117	92641											
GCC1	79571	broad.mit.edu	37	chr7	127223170	127223170	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acctgctggaggctgctagaGccagtgtcttgttctccagg	6	11	13	11	0	2	1	0	0	2	1	3	2	2	2	3	3	3	4	3	3	1	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:127223170G>A	uc003vma.2	-	2	1644	c.1226C>T	c.(1225-1227)GCT>GTT	p.A409V		NM_024523	NP_078799	Q96CN9	GCC1_HUMAN	Golgi coiled-coil protein 1	409	Potential.					Golgi membrane|plasma membrane	protein binding			ovary(2)	2						GGCTGCTAGAGCCAGTGTCTT	0.542													24	69					0	0	0.003954	0	0		A	127223170	A	A	127223170	3	1	186	1	0	0	0	0	1	0	0	0	6300	971	34	2	1105	2	GCC1	7	127223170	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1136780	127223170	31915493	118	92642											
DGKI	9162	broad.mit.edu	37	chr7	137096916	137096916	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtaggaagatatcttacCttcataagatcaccagctat	13	13	7	8	0	3	2	2	0	1	2	3	3	3	3	2	2	2	2	2	2	6	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:137096916C>T	uc003vtt.2	-	30	2824	c.2823G>A	c.(2821-2823)AAG>AAA	p.K941K	DGKI_uc003vtu.2_Silent_p.K610K	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	941					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						GATATCTTACCTTCATAAGAT	0.343													12	42					0	0	0.013537	0	0		T	137096916	T	T	137096916	2	4	186	1	0	0	0	0	0	0	0	1	4477	695	24	4		4	DGKI	7	137096916	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	9873746	137096916	22041747	119	92643											
OR9A4	130075	broad.mit.edu	37	chr7	141619330	141619330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctacaattgtctccaacGcctacatcatctccaccatt	10	12	2	17	1	3	0	1	0	2	0	6	0	4	0	5	0	3	0	5	0	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:141619330G>A	uc003vwu.1	+	1	655	c.655G>A	c.(655-657)GCC>ACC	p.A219T		NM_001001656	NP_001001656	Q8NGU2	OR9A4_HUMAN	olfactory receptor, family 9, subfamily A,	219	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.0171)					TGTCTCCAACGCCTACATCAT	0.448													20	95					0	0	0.00333	0	0		A	141619330	A	A	141619330	3	1	186	1	0	0	0	0	1	0	0	0	11268	1087	38	1	657	1	OR9A4	7	141619330	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	4522414	141619330	17519333	120	92644											
LRRC61	65999	broad.mit.edu	37	chr7	150034324	150034324	+	Missense_Mutation	SNP	A	C	C	1	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	ggctgggctaccgtgcctggAgtacctgcggctccgagacc	5	7	15	14	3	0	1	0	0	0	1	1	3	1	2	5	4	4	4	5	4	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:150034324A>C	uc003wgv.2	+	3	1048	c.374A>C	c.(373-375)GAG>GCG	p.E125A	LRRC61_uc003wgx.2_Missense_Mutation_p.E125A|LRRC61_uc003wgw.2_Missense_Mutation_p.E125A|LRRC61_uc003wgz.3_Missense_Mutation_p.E125A	NM_023942	NP_076431	Q9BV99	LRC61_HUMAN	leucine rich repeat containing 61	125											0			OV - Ovarian serous cystadenocarcinoma(82;0.011)			CCGTGCCTGGAGTACCTGCGG	0.657													8	28					0	0	0.00308	0	0		C	150034324	C	C	150034324	3	2	186	1	0	0	0	0	1	0	0	0	9035	304	11	5	376	5	LRRC61	7	150034324	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	8414994	150034324	9104339	121	92645											
MLL3	58508	broad.mit.edu	37	chr7	151927304	151927304	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtaaattgtcaagttcaaaCctgattcaaagtgaacttgt	15	13	7	6	0	3	2	3	2	0	0	3	2	3	2	1	0	2	2	1	0	6	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:151927304C>T	uc003wla.2	-	17	3090	c.2871_splice	c.e17+1	p.Q957_splice	MLL3_uc003wkz.2_Splice_Site_p.Q18_splice	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3						intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CAAGTTCAAACCTGATTCAAA	0.343			N		medulloblastoma								4	21					0	0	0.001168	0	0		T	151927304	T	T	151927304	5	4	186	1	0	0	0	0	0	0	1	0	9640	521	18	4	12035	4	MLL3	7	151927304	Splice_Site	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1892980	151927304	7211359	122	92646											
NOM1	64434	broad.mit.edu	37	chr7	156762348	156762348	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacgtgctgagagagaaagCtgaccttgcaacgaagtgtc	13	7	12	9	2	0	3	0	2	0	2	1	6	0	3	1	0	5	3	1	0	4	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr7:156762348C>G	uc003wmy.2	+	11	2549	c.2534C>G	c.(2533-2535)GCT>GGT	p.A845G		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	845					RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		AGAGAGAAAGCTGACCTTGCA	0.512													31	118					0	0	0.013726	0	0		G	156762348	G	G	156762348	3	3	186	1	0	0	0	0	1	0	0	0	10549	797	28	5	2576	5	NOM1	7	156762348	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	4835044	156762348	2376315	123	92647											
KCTD9	54793	broad.mit.edu	37	chr8	25301820	25301820	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcacttaccaataaatggctCtccttcacaaacaaacaaaa	18	9	2	12	0	3	0	2	0	1	0	4	0	3	0	2	1	3	1	2	1	8	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr8:25301820C>G	uc003xeo.2	-	3	360	c.202G>C	c.(202-204)GAG>CAG	p.E68Q	PPP2R2A_uc003xek.2_Intron	NM_017634	NP_060104	Q7L273	KCTD9_HUMAN	potassium channel tetramerisation domain	68	KHA.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		all_cancers(63;0.0164)|Ovarian(32;0.000878)|all_epithelial(46;0.00542)|Breast(100;0.0164)|Hepatocellular(4;0.114)|Prostate(55;0.191)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Epithelial(17;2.39e-12)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0438)		ATAAATGGCTCTCCTTCACAA	0.284													7	20					0	0	0.001984	0	0		G	25301820	G	G	25301820	3	3	186	1	0	0	0	0	1	0	0	0	8132	922	32	5	1007	5	KCTD9	8	25301820	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		25301820	121062202	124	92648											
C8orf80	389643	broad.mit.edu	37	chr8	27905066	27905066	+	Frame_Shift_Del	DEL	G	-	-																															agcctgctgccagtactcctGggcgctgactgtatacacca																										TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr8:27905066delG	uc003xgm.3	-	11	1413	c.1270delC	c.(1270-1272)CAGfs	p.Q424fs		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	424						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		CAGTACTCCTGGGCGCTGACT	0.453													2	4	---	---	---	---						.	-	27905066	-	-	27905066	7	5	186	1	0	1	0	1	0	0	0	0	2442	1357	47	0	1156	0	C8orf80	8	27905066	Frame_Shift_Del	DEL	G	TCGA-D7-A4YU-01A-21D-A25D-08	2603246	27905066	118458956	125	92649											
CYP7B1	9420	broad.mit.edu	37	chr8	65536986	65536986	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagaactgtgaaagtgtcaCcatgttgcttttgaagtgtt	11	14	11	5	0	1	3	1	2	0	1	1	4	1	3	1	0	2	3	1	0	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr8:65536986C>G	uc003xvj.2	-	2	437	c.233G>C	c.(232-234)GGT>GCT	p.G78A		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	78					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				GAAAGTGTCACCATGTTGCTT	0.368													10	116					0	0	0.010729	0	0		G	65536986	G	G	65536986	3	3	186	1	0	0	0	0	1	0	0	0	4200	507	18	5	1307	5	CYP7B1	8	65536986	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	37631920	65536986	80827036	126	92650											
FAM135B	51059	broad.mit.edu	37	chr8	139164936	139164936	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcttccacctactaccacTttgcttagcccagtcctgtc	6	13	6	16	0	0	0	0	0	0	0	3	0	2	0	5	1	4	2	5	1	3	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr8:139164936T>G	uc003yuy.2	-	13	1953	c.1782A>C	c.(1780-1782)AAA>AAC	p.K594N	FAM135B_uc003yux.2_Missense_Mutation_p.K495N|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.K156N|FAM135B_uc003yvb.2_Missense_Mutation_p.K156N	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	594										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			CTACTACCACTTTGCTTAGCC	0.468										HNSCC(54;0.14)			23	152					0	0	0.003954	0	0		G	139164936	G	G	139164936	3	3	186	1	0	0	0	0	1	0	0	0	5460	1606	56	5	2470	5	FAM135B	8	139164936	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	73627950	139164936	7199086	127	92651											
FAM135B	51059	broad.mit.edu	37	chr8	139263121	139263121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagccaccagggcagcatGgacggtcaccgagatcacag	12	3	13	13	2	2	2	2	0	0	2	2	4	2	3	3	3	2	2	3	3	0	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr8:139263121G>A	uc003yuy.2	-	6	676	c.505C>T	c.(505-507)CAT>TAT	p.H169Y	FAM135B_uc003yux.2_Missense_Mutation_p.H70Y|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	169										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			AGGGCAGCATGGACGGTCACC	0.582										HNSCC(54;0.14)			14	110					0	0	0.00245	0	0		A	139263121	A	A	139263121	3	1	186	1	0	0	0	0	1	0	0	0	5460	1348	47	4	3775	4	FAM135B	8	139263121	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	98185	139263121	7100901	128	92652											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18706804	18706804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgtggggacccaggtgcGaatagtcaggtgccaggtgc	7	8	18	8	1	1	0	1	0	0	0	1	2	1	1	2	6	3	0	2	6	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:18706804G>A	uc003zne.3	+	14	1761	c.1634G>A	c.(1633-1635)CGA>CAA	p.R545Q		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	545	TSP type-1 4.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		ACCCAGGTGCGAATAGTCAGG	0.602													3	11					0	0	0.004672	0	0		A	18706804	A	A	18706804	3	1	186	1	0	0	0	0	1	0	0	0	274	1058	37	1	1692	1	ADAMTSL1	9	18706804	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		18706804	122506627	129	92653											
TRPM3	80036	broad.mit.edu	37	chr9	73442926	73442926	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggacatggtctggtatggCcggacaacctgcagggtatc	8	10	14	9	1	1	0	0	0	1	0	2	2	1	2	2	6	2	3	2	6	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:73442926C>T	uc004aid.2	-	6	1054	c.810G>A	c.(808-810)CGG>CGA	p.R270R	TRPM3_uc004ahu.2_Silent_p.R100R|TRPM3_uc004ahv.2_Silent_p.R100R|TRPM3_uc004ahw.2_Silent_p.R117R|TRPM3_uc004ahx.2_Silent_p.R117R|TRPM3_uc004ahy.2_Silent_p.R117R|TRPM3_uc004ahz.2_Silent_p.R117R|TRPM3_uc004aia.2_Silent_p.R117R|TRPM3_uc004aib.2_Silent_p.R117R|TRPM3_uc004aic.2_Silent_p.R270R|TRPM3_uc010mor.2_Silent_p.R270R|TRPM3_uc004aie.2_Silent_p.R117R|TRPM3_uc004aif.2_Silent_p.R117R|TRPM3_uc004aig.2_Silent_p.R117R|TRPM3_uc004aii.2_Silent_p.R272R	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	270	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						TCTGGTATGGCCGGACAACCT	0.458													4	97					0	0	0.009096	0	0		T	73442926	T	T	73442926	2	4	186	1	0	0	0	0	0	0	0	1	16613	726	26	2		2	TRPM3	9	73442926	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	54736122	73442926	67770505	130	92654											
TRPM6	140803	broad.mit.edu	37	chr9	77377031	77377031	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaggatgtgtttggctgaAgccatggtcccacctctgag	10	10	12	9	0	1	2	0	2	1	0	2	3	2	3	3	3	1	2	3	3	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:77377031A>C	uc004ajl.1	-	26	4794	c.4556T>G	c.(4555-4557)CTT>CGT	p.L1519R	TRPM6_uc004ajk.1_Missense_Mutation_p.L1514R|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Missense_Mutation_p.L475R	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1519	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GTTTGGCTGAAGCCATGGTCC	0.498													5	47					0	0	0.001168	0	0		C	77377031	C	C	77377031	3	2	186	1	0	0	0	0	1	0	0	0	16616	72	3	5	1568	5	TRPM6	9	77377031	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	3934105	77377031	63836400	131	92655											
PALM2-AKAP2	445815	broad.mit.edu	37	chr9	112899268	112899268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccgcaggaaaaaaccatcGaggagcagctggacgaggaa	15	2	13	11	3	0	0	0	0	0	0	1	6	0	4	3	4	3	3	3	4	4	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:112899268G>A	uc004bei.2	+	9	2332	c.2140G>A	c.(2140-2142)GAG>AAG	p.E714K	PALM2-AKAP2_uc004bek.3_Missense_Mutation_p.E482K|PALM2-AKAP2_uc004bej.3_Missense_Mutation_p.E482K|PALM2-AKAP2_uc004bel.1_Missense_Mutation_p.E292K|AKAP2_uc011lwi.1_Missense_Mutation_p.E340K|AKAP2_uc004bem.2_Missense_Mutation_p.E340K|PALM2-AKAP2_uc010mtw.1_Missense_Mutation_p.E300K|AKAP2_uc011lwj.1_Missense_Mutation_p.E251K|PALM2-AKAP2_uc004ben.2_Missense_Mutation_p.E251K	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	251	Potential.						enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						AAAAACCATCGAGGAGCAGCT	0.453													5	43					0	0	0.001984	0	0		A	112899268	A	A	112899268	3	1	186	1	0	0	0	0	1	0	0	0	11429	1059	37	1	1474	1	PALM2-AKAP2	9	112899268	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	35522237	112899268	28314163	132	92656											
TNC	3371	broad.mit.edu	37	chr9	117791715	117791715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtagaagttctcgcgtccGtttttgcgtctcaggaacac	7	13	11	10	4	2	1	1	0	2	1	5	2	3	2	1	2	2	3	1	2	3	4	rs150281525		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:117791715G>A	uc004bjj.3	-	25	6455	c.6093C>T	c.(6091-6093)AAC>AAT	p.N2031N	TNC_uc010mvf.2_Silent_p.N1758N	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	2031	Fibrinogen C-terminal.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TCTCGCGTCCGTTTTTGCGTC	0.383													27	50					0	0	0.008361	0	0		A	117791715	A	A	117791715	2	1	186	1	0	0	0	0	0	0	0	1	16295	1136	40	1		1	TNC	9	117791715	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	4892447	117791715	23421716	133	92657											
PAPPA	5069	broad.mit.edu	37	chr9	118973933	118973933	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacaggtggcattgtcttgaAcccatctttctatggcatgc	8	14	9	10	0	3	1	0	1	3	0	3	1	3	1	1	3	3	2	1	3	3	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:118973933A>C	uc004bjn.2	+	4	2021	c.1640A>C	c.(1639-1641)AAC>ACC	p.N547T	PAPPA_uc011lxp.1_Intron|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	547	Metalloprotease.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						ATTGTCTTGAACCCATCTTTC	0.502													16	45					0	0	0.007413	0	0		C	118973933	C	C	118973933	3	2	186	1	0	0	0	0	1	0	0	0	11451	43	2	5	1654	5	PAPPA	9	118973933	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	1182218	118973933	22239498	134	92658											
RXRA	6256	broad.mit.edu	37	chr9	137300121	137300121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaccaagcacatctgcGccatctgcggggaccgctcc	7	7	9	18	3	3	0	1	0	2	0	4	1	4	1	5	2	3	2	5	2	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:137300121G>A	uc004cfb.2	+	3	568	c.406G>A	c.(406-408)GCC>ACC	p.A136T	RXRA_uc004cfc.1_Missense_Mutation_p.A39T	NM_002957	NP_002948	P19793	RXRA_HUMAN	retinoid X receptor, alpha	136	NR C4-type.|Nuclear receptor.				cellular lipid metabolic process|cholesterol metabolic process|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to retinoic acid|vitamin metabolic process	nuclear chromatin|nucleoplasm	enzyme binding|ligand-regulated transcription factor activity|protein heterodimerization activity|retinoic acid-responsive element binding|retinoid-X receptor activity|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|transcription coactivator activity|vitamin D receptor binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(145;4.66e-08)|Epithelial(140;6.72e-08)|all cancers(34;2.22e-07)	Acitretin(DB00459)|Adapalene(DB00210)|Alitretinoin(DB00523)|Etretinate(DB00926)	GCACATCTGCGCCATCTGCGG	0.657													3	39					0	0	0.004672	0	0		A	137300121	A	A	137300121	3	1	186	1	0	0	0	0	1	0	0	0	13788	1087	38	1	416	1	RXRA	9	137300121	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	18326188	137300121	3913310	135	92659											
KIAA0649	9858	broad.mit.edu	37	chr9	138377878	138377878	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagtgacgggtccctgtccGcaagcccactcttctactcc	6	9	9	17	2	2	1	0	1	2	0	5	1	5	1	4	1	2	2	4	1	2	2	rs142927502		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr9:138377878G>A	uc004cfr.1	+	4	2071	c.1522G>A	c.(1522-1524)GCA>ACA	p.A508T		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	508						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		GTCCCTGTCCGCAAGCCCACT	0.602													3	58					0	0	0.009096	0	0		A	138377878	A	A	138377878	3	1	186	1	0	0	0	0	1	0	0	0	8203	1087	38	1	1524	1	KIAA0649	9	138377878	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1077757	138377878	2835553	136	92660											
SFMBT2	57713	broad.mit.edu	37	chr10	7409728	7409728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccccgtaaccgcagtagcGcagaagcagcagctgcccgc	9	4	11	17	4	0	1	0	0	0	1	1	1	1	1	4	0	6	7	4	0	3	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:7409728G>A	uc009xio.1	-	4	410	c.319C>T	c.(319-321)CGC>TGC	p.R107C	SFMBT2_uc001ijn.1_Missense_Mutation_p.R107C|SFMBT2_uc010qay.1_Missense_Mutation_p.R107C|SFMBT2_uc001ijo.1_Missense_Mutation_p.R107C	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	107	MBT 1.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						CCGCAGTAGCGCAGAAGCAGC	0.577													13	88					0	0	0.004007	0	0		A	7409728	A	A	7409728	3	1	186	1	0	0	0	0	1	0	0	0	14183	1087	38	1	2437	1	SFMBT2	10	7409728	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		7409728	128125019	137	92661											
CUBN	8029	broad.mit.edu	37	chr10	17061928	17061928	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagcttgtagtactccctgGagggggcaggtctactccac	7	9	14	11	0	1	0	0	0	1	0	3	2	3	2	2	5	3	4	2	5	3	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:17061928G>T	uc001ioo.2	-	28	4124	c.4072C>A	c.(4072-4074)CCA>ACA	p.P1358T		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1358	CUB 8.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GTACTCCCTGGAGGGGGCAGG	0.488													7	128					0.000157383	0.000168025	0.00308	1	0		T	17061928	T	T	17061928	3	4	186	1	0	0	0	0	1	0	0	0	4054	1174	41	5	6959	5	CUBN	10	17061928	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	9652200	17061928	118472819	138	92662											
NEBL	10529	broad.mit.edu	37	chr10	21112165	21112165	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttcttctggttttctttaActctctttagttctggagga	5	21	8	7	0	5	0	0	0	5	0	6	2	5	2	0	3	1	3	0	3	2	9			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:21112165A>C	uc001iqi.2	-	19	2331	c.1934T>G	c.(1933-1935)GTT>GGT	p.V645G	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	645	Nebulin 18.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GTTTTCTTTAACTCTCTTTAG	0.284													44	46					0	0	0.01441	0	0		C	21112165	C	C	21112165	3	2	186	1	0	0	0	0	1	0	0	0	10322	43	2	5	1150	5	NEBL	10	21112165	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	4050237	21112165	114422582	139	92663											
FAM13C	220965	broad.mit.edu	37	chr10	61012739	61012739	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttccctgtggacggtcttcaTcagagtcctcttcctcctgc	4	14	8	15	1	4	1	2	0	2	1	8	2	8	2	4	2	1	0	4	2	0	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:61012739T>G	uc001jkn.2	-	13	1486	c.1352A>C	c.(1351-1353)GAT>GCT	p.D451A	FAM13C_uc001jko.2_Missense_Mutation_p.D353A|FAM13C_uc010qid.1_Missense_Mutation_p.D367A|FAM13C_uc010qie.1_Missense_Mutation_p.D368A|FAM13C_uc010qif.1_Missense_Mutation_p.D473A	NM_198215	NP_937858	Q8NE31	FA13C_HUMAN	hypothetical protein LOC220965 isoform 1	451										ovary(2)	2						ACGGTCTTCATCAGAGTCCTC	0.478													6	84					0	0	0.00308	0	0		G	61012739	G	G	61012739	3	3	186	1	0	0	0	0	1	0	0	0	5465	1435	50	5	417	5	FAM13C	10	61012739	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	39900574	61012739	74522008	140	92664											
ZNF365	22891	broad.mit.edu	37	chr10	64425905	64425905	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagagaaagtgtctctacaAgtcaaagcaggaatatcagc	16	7	10	8	0	3	1	2	0	1	1	4	3	3	2	0	1	3	2	0	1	6	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:64425905A>C	uc001jmd.1	+	6	833	c.499A>C	c.(499-501)AGT>CGT	p.S167R	ZNF365_uc001jmc.2_Missense_Mutation_p.S413R|ZNF365_uc001jme.1_RNA|ZNF365_uc001jmf.1_RNA|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	167										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					TGTCTCTACAAGTCAAAGCAG	0.373													20	39					0	0	0.00278	0	0		C	64425905	C	C	64425905	3	2	186	1	0	0	0	0	1	0	0	0	17894	72	3	5	1995	5	ZNF365	10	64425905	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	3413166	64425905	71108842	141	92665											
KCNMA1	3778	broad.mit.edu	37	chr10	78709036	78709036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcggcatcaccaggttcCggaggccgatcagggctgag	8	5	17	11	3	2	1	2	1	0	0	3	4	3	3	3	6	1	3	3	6	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:78709036C>T	uc001jxn.2	-	22	2750	c.2573G>A	c.(2572-2574)CGG>CAG	p.R858Q	KCNMA1_uc001jxj.2_Missense_Mutation_p.R804Q|KCNMA1_uc001jxk.1_Missense_Mutation_p.R476Q|KCNMA1_uc009xrt.1_Missense_Mutation_p.R649Q|KCNMA1_uc001jxl.1_Missense_Mutation_p.R483Q|KCNMA1_uc001jxo.2_Missense_Mutation_p.R841Q|KCNMA1_uc001jxm.2_Missense_Mutation_p.R800Q|KCNMA1_uc001jxq.2_Missense_Mutation_p.R803Q	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	858	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CACCAGGTTCCGGAGGCCGAT	0.557													24	50					0	0	0.00278	0	0		T	78709036	T	T	78709036	3	4	186	1	0	0	0	0	1	0	0	0	8089	652	23	1	1194	1	KCNMA1	10	78709036	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	14283131	78709036	56825711	142	92666											
KIF20B	9585	broad.mit.edu	37	chr10	91484893	91484893	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	agaagcagcgaaagacatttGtgccacaaaagttgaaactg	17	7	10	7	1	0	3	0	1	0	2	0	4	0	3	1	0	4	2	1	0	5	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:91484893G>T	uc001kgs.1	+	15	2051	c.1979G>T	c.(1978-1980)TGT>TTT	p.C660F	KIF20B_uc001kgr.1_Missense_Mutation_p.C660F|KIF20B_uc001kgt.1_5'UTR	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	660					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						AAAGACATTTGTGCCACAAAA	0.373													18	51					1.96292e-10	2.18913e-10	0.010504	1	0		T	91484893	T	T	91484893	3	4	186	1	0	0	0	0	1	0	0	0	8303	1377	48	5	2033	5	KIF20B	10	91484893	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	12775857	91484893	44049854	143	92667											
KIF11	3832	broad.mit.edu	37	chr10	94409609	94409610	+	Frame_Shift_Del	DEL	AA	-	-																															aaggtacgacaccacagaggAaaagttatttatacccatca																										TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:94409609_94409610delAA	uc001kic.2	+	20	3096_3097	c.2788_2789delAA	c.(2788-2790)AAAfs	p.K930fs	KIF11_uc010qnq.1_RNA	NM_004523	NP_004514	P52732	KIF11_HUMAN	kinesin family member 11	930					blood coagulation|cell division|microtubule-based movement|spindle assembly involved in mitosis	chromatin remodeling complex|cytosol|kinesin complex|microtubule|spindle pole	ATP binding|microtubule motor activity|protein kinase binding			skin(1)	1						ACCACAGAGGAAAAGTTATTTA	0.337													38	65	---	---	---	---						.	-	94409610	-	-	94409609	7	5	186	1	0	1	0	1	0	0	0	0	8288	247	9	0	2866	0	KIF11	10	94409609	Frame_Shift_Del	DEL	AA	TCGA-D7-A4YU-01A-21D-A25D-08	2924716	94409609	41125138	144	92668											
C10orf95	79946	broad.mit.edu	37	chr10	104210877	104210877	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccccccaggcggctgctgttCttactgggggctcctgcgga	3	9	14	15	2	1	0	0	0	1	0	2	1	2	1	4	5	3	4	4	5	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:104210877C>G	uc001kvo.1	-	2	186	c.111G>C	c.(109-111)AAG>AAC	p.K37N	uc001kvp.1_Intron|uc001kvq.1_Intron|uc001kvr.1_5'Flank	NM_024886	NP_079162	Q9H7T3	CJ095_HUMAN	hypothetical protein LOC79946	37										liver(1)	1		Colorectal(252;0.207)		Epithelial(162;8.34e-09)|all cancers(201;1.95e-07)|BRCA - Breast invasive adenocarcinoma(275;0.213)		GGCTGCTGTTCTTACTGGGGG	0.657													11	20					0	0	0.010729	0	0		G	104210877	G	G	104210877	3	3	186	1	0	0	0	0	1	0	0	0	1629	912	32	5	666	5	C10orf95	10	104210877	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	9801268	104210877	31323870	145	92669											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118228808	118228808	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacattattttttaaacacaGggtccctttccccatttgcc	9	15	4	13	0	0	0	0	0	0	0	2	0	2	0	4	1	2	0	4	1	3	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:118228808G>T	uc001lcl.3	+	9	1140	c.1039G>T	c.(1039-1041)GGG>TGG	p.G347W		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	347					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		TTTAAACACAGGGTCCCTTTC	0.294													5	50					0.000602214	0.000627307	0.000602	1	0		T	118228808	T	T	118228808	3	4	186	1	0	0	0	0	1	0	0	0	12171	1000	35	5	1073	5	PNLIPRP3	10	118228808	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	14017931	118228808	17305939	146	92670											
PTPRE	5791	broad.mit.edu	37	chr10	129869126	129869126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaggacgggcaacttgccgGcaaacatgaagaaggccagg	13	4	15	9	2	0	3	0	2	0	1	0	4	0	4	2	5	3	2	2	5	4	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr10:129869126G>A	uc001lkb.2	+	15	1627	c.1348G>A	c.(1348-1350)GCA>ACA	p.A450T	PTPRE_uc009yat.2_Missense_Mutation_p.A461T|PTPRE_uc009yau.2_Missense_Mutation_p.A450T|PTPRE_uc001lkd.2_Missense_Mutation_p.A392T|PTPRE_uc010quq.1_Missense_Mutation_p.A351T	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	450	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				CAACTTGCCGGCAAACATGAA	0.552													3	47					0	0	0.009096	0	0		A	129869126	A	A	129869126	3	1	186	1	0	0	0	0	1	0	0	0	12825	1203	42	2	1437	2	PTPRE	10	129869126	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	11640318	129869126	5665621	147	92671											
OR52E6	390078	broad.mit.edu	37	chr11	5862280	5862280	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gattgagggtgggaggaacaAccacatatagattagccaag	15	7	13	6	0	0	2	0	1	0	1	0	5	0	4	2	3	3	0	2	3	6	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:5862280A>T	uc010qzq.1	-	1	848	c.848T>A	c.(847-849)GTT>GAT	p.V283D	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	283	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGAGGAACAACCACATATAG	0.403													8	50					0	0	0.006214	0	0		T	5862280	T	T	5862280	3	4	186	1	0	0	0	0	1	0	0	0	11136	43	2	5	95	5	OR52E6	11	5862280	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08		5862280	129144236	148	92672											
OR10A4	283297	broad.mit.edu	37	chr11	6898077	6898077	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtacttcttcctcagaaacTtgtccttcctggagataggt	8	15	8	10	0	2	2	1	0	1	2	5	3	5	2	3	2	2	1	3	2	3	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:6898077T>G	uc010rat.1	+	1	199	c.199T>G	c.(199-201)TTG>GTG	p.L67V		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCTCAGAAACTTGTCCTTCCT	0.458													19	131					0	0	0.012319	0	0		G	6898077	G	G	6898077	3	3	186	1	0	0	0	0	1	0	0	0	10911	1606	56	5	201	5	OR10A4	11	6898077	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	1035797	6898077	128108439	149	92673											
NRIP3	56675	broad.mit.edu	37	chr11	9009769	9009769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccaagggacacggggacCgcttcggagcttagacaggt	9	5	16	11	3	0	1	0	0	0	1	1	4	0	4	2	6	1	2	2	6	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:9009769C>T	uc001mhg.2	-	2	349	c.235G>A	c.(235-237)GGT>AGT	p.G79S	NRIP3_uc010rbu.1_Missense_Mutation_p.G79S	NM_020645	NP_065696	Q9NQ35	NRIP3_HUMAN	nuclear receptor interacting protein 3	79					proteolysis		aspartic-type endopeptidase activity				0				Epithelial(150;4.77e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0241)		ACACGGGGACCGCTTCGGAGC	0.493													32	83					0	0	0.010818	0	0		T	9009769	T	T	9009769	3	4	186	1	0	0	0	0	1	0	0	0	10673	652	23	1	514	1	NRIP3	11	9009769	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	2111692	9009769	125996747	150	92674											
OR4X2	119764	broad.mit.edu	37	chr11	48267435	48267435	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tctaccactctgcccatagaCaagatggtggctgtgttcta	9	12	9	11	0	3	2	0	0	3	2	3	2	3	2	2	2	2	2	2	2	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:48267435C>A	uc001ngs.1	+	1	780	c.780C>A	c.(778-780)GAC>GAA	p.D260E		NM_001004727	NP_001004727	Q8NGF9	OR4X2_HUMAN	olfactory receptor, family 4, subfamily X,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCCCATAGACAAGATGGTGG	0.512													9	43					0.000442599	0.000462647	0.006214	1	0		A	48267435	A	A	48267435	3	1	186	1	0	0	0	0	1	0	0	0	11104	477	17	5	782	5	OR4X2	11	48267435	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	39257666	48267435	86739081	151	92675											
DAGLA	747	broad.mit.edu	37	chr11	61511242	61511242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaggcttccgcagcatcCggggctcccccagcctccac	5	6	9	21	2	1	0	1	0	0	0	5	0	5	0	7	3	2	4	7	3	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:61511242C>T	uc001nsa.2	+	20	2521	c.2410C>T	c.(2410-2412)CGG>TGG	p.R804W		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	804	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		CCGCAGCATCCGGGGCTCCCC	0.662													27	140					0	0	0.005443	0	0		T	61511242	T	T	61511242	3	4	186	1	0	0	0	0	1	0	0	0	4229	643	23	1	2484	1	DAGLA	11	61511242	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	13243807	61511242	73495274	152	92676											
AHNAK	79026	broad.mit.edu	37	chr11	62299852	62299852	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaacatcggggcctttaagTtttccccccagaccctccaa	9	11	6	15	1	0	1	0	0	0	1	3	1	2	1	6	2	1	1	6	2	3	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:62299852T>C	uc001ntl.2	-	5	2337	c.2037A>G	c.(2035-2037)AAA>AAG	p.K679K	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	679					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGCCTTTAAGTTTTCCCCCCA	0.473													25	132					0	0	0.004656	0	0		C	62299852	C	C	62299852	2	2	186	1	0	0	0	0	0	0	0	1	414	1722	60	3		3	AHNAK	11	62299852	Silent	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	788610	62299852	72706664	153	92677											
NUDT22	84304	broad.mit.edu	37	chr11	63994300	63994300	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accctggctcttcgacgcccCcaagttccgcctgcactcag	6	8	8	19	3	2	0	1	0	1	0	4	1	3	0	5	1	1	3	5	1	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:63994300C>G	uc001nyp.3	+	2	356	c.176C>G	c.(175-177)CCC>CGC	p.P59R	TRPT1_uc010rnc.1_5'Flank|TRPT1_uc010rnd.1_5'Flank|TRPT1_uc001nyn.2_5'Flank|TRPT1_uc001nyo.2_5'Flank|TRPT1_uc010rne.1_5'Flank|TRPT1_uc010rnf.1_5'Flank|NUDT22_uc009ypd.2_Missense_Mutation_p.P59R|NUDT22_uc009ype.2_Missense_Mutation_p.P59R|NUDT22_uc001nyq.3_Missense_Mutation_p.P59R|NUDT22_uc010rng.1_5'Flank	NM_032344	NP_115720	Q9BRQ3	NUD22_HUMAN	nudix (nucleoside diphosphate linked moiety	59							hydrolase activity				0						TTCGACGCCCCCAAGTTCCGC	0.677													12	82					0	0	0.001855	0	0		G	63994300	G	G	63994300	3	3	186	1	0	0	0	0	1	0	0	0	10758	623	22	5	178	5	NUDT22	11	63994300	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1694448	63994300	71012216	154	92678											
NADSYN1	55191	broad.mit.edu	37	chr11	71209472	71209472	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaccacgctcacacccgcGtaccacgccgagaactacag	12	4	8	17	5	1	2	1	1	0	1	1	3	1	2	4	0	3	2	4	0	3	2	rs147528912	byFrequency	TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:71209472G>A	uc001oqn.2	+	20	2094	c.1968G>A	c.(1966-1968)GCG>GCA	p.A656A	NADSYN1_uc001oqo.2_Silent_p.A396A|NADSYN1_uc001oqp.2_Silent_p.A285A	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	656	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TCACACCCGCGTACCACGCCG	0.522													14	76					0	0	0.004007	0	0		A	71209472	A	A	71209472	2	1	186	1	0	0	0	0	0	0	0	1	10156	1132	40	1		1	NADSYN1	11	71209472	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	7215172	71209472	63797044	155	92679											
NUMA1	4926	broad.mit.edu	37	chr11	71715019	71715019	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgcgcggagaacggcgggTtccactgcgagtgttggggg	7	7	19	8	5	0	1	0	0	0	1	1	3	1	1	1	5	3	2	1	5	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:71715019T>G	uc001orl.1	-	26	6422	c.6250A>C	c.(6250-6252)ACC>CCC	p.T2084P	IL18BP_uc009ysu.1_Intron|NUMA1_uc001orj.2_Missense_Mutation_p.T266P|NUMA1_uc009ysw.1_Missense_Mutation_p.T1651P|NUMA1_uc001ork.1_Missense_Mutation_p.T948P|NUMA1_uc001orm.1_Missense_Mutation_p.T2070P	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	2084					G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						GAACGGCGGGTTCCACTGCGA	0.647			T	RARA	APL								10	79					0	0	0.009535	0	0		G	71715019	G	G	71715019	3	3	186	1	0	0	0	0	1	0	0	0	10769	1725	60	5	105	5	NUMA1	11	71715019	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	505547	71715019	63291497	156	92680											
FCHSD2	9873	broad.mit.edu	37	chr11	72553748	72553748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgatgggaaaactccaataCgcccattgaattccccttcc	11	9	6	15	2	0	1	0	1	0	0	3	3	3	2	6	1	2	0	6	1	5	4	rs147782509		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:72553748C>T	uc009ytl.2	-	17	2065	c.1844G>A	c.(1843-1845)CGT>CAT	p.R615H	FCHSD2_uc010rrg.1_Missense_Mutation_p.R479H|FCHSD2_uc001oth.3_Missense_Mutation_p.R559H|ATG16L2_uc009ytj.1_3'UTR	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	615	SH3 2.						protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			AACTCCAATACGCCCATTGAA	0.453													22	46					0	0	0.014323	0	0		T	72553748	T	T	72553748	3	4	186	1	0	0	0	0	1	0	0	0	5804	536	19	1	394	1	FCHSD2	11	72553748	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	838729	72553748	62452768	157	92681											
KLHL35	283212	broad.mit.edu	37	chr11	75134734	75134734	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgccttgaagcctccacttAccacagggctggggaggaca	9	7	12	13	0	0	1	0	1	0	0	1	3	1	3	4	4	3	1	4	4	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:75134734A>G	uc001owm.1	-	5	1122	c.903_splice	c.e5+1	p.V301_splice		NM_001039548	NP_001034637	Q6PF15	KLH35_HUMAN	kelch-like 35												0						GCCTCCACTTACCACAGGGCT	0.473													19	137					0	0	0.007413	0	0		G	75134734	G	G	75134734	5	3	186	1	0	0	0	0	0	0	1	0	8404	405	14	3	194	3	KLHL35	11	75134734	Splice_Site	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	2580986	75134734	59871782	158	92682											
TRIM49	57093	broad.mit.edu	37	chr11	89537579	89537579	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaccgggtctatgaagtagTtcatgcacagggggcagatg	10	9	15	7	1	2	3	1	2	1	1	2	3	2	3	1	3	1	4	1	3	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:89537579T>G	uc001pdb.2	-	3	388	c.59A>C	c.(58-60)AAC>ACC	p.N20T		NM_020358	NP_065091	P0CI25	TRI49_HUMAN	ring finger protein 18	20	RING-type.					intracellular	zinc ion binding				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00556)				TATGAAGTAGTTCATGCACAG	0.483													5	40					0	0	0.006214	0	0		G	89537579	G	G	89537579	3	3	186	1	0	0	0	0	1	0	0	0	16550	1725	60	5	1323	5	TRIM49	11	89537579	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	14402845	89537579	45468937	159	92683											
FAT3	120114	broad.mit.edu	37	chr11	92534886	92534886	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctgaccttggagaggcattcTctctttcctccacggccttg	5	13	9	14	1	2	2	0	1	2	1	5	3	4	2	4	3	0	1	4	3	0	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:92534886T>G	uc001pdj.3	+	9	8724	c.8707T>G	c.(8707-8709)TCT>GCT	p.S2903A		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2903	Cadherin 26.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGAGGCATTCTCTCTTTCCTC	0.527										TCGA Ovarian(4;0.039)			23	46					0	0	0.00278	0	0		G	92534886	G	G	92534886	3	3	186	1	0	0	0	0	1	0	0	0	5705	1551	54	5	8741	5	FAT3	11	92534886	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	2997307	92534886	42471630	160	92684											
FAM55D	54827	broad.mit.edu	37	chr11	114453577	114453577	+	Missense_Mutation	SNP	A	G	G	1	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	tggtggtgttcacgtgggtgAaaggtctgggtgggatctgc	5	12	19	5	1	3	1	1	1	2	0	3	2	3	2	0	6	1	1	0	6	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:114453577A>G	uc001ppc.2	-	3	444	c.263T>C	c.(262-264)TTC>TCC	p.F88S	FAM55D_uc001ppd.2_5'UTR	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	88						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		CACGTGGGTGAAAGGTCTGGG	0.498													72	167					0	0	0.01441	0	0		G	114453577	G	G	114453577	3	3	186	1	0	0	0	0	1	0	0	0	5601	246	9	3	1387	3	FAM55D	11	114453577	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	21918691	114453577	20552939	161	92685											
OR10G4	390264	broad.mit.edu	37	chr11	123886648	123886648	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgtcctatgatcgctacTtggccatcagttacccgctc	7	13	7	14	2	2	1	2	1	0	0	5	1	3	1	3	1	2	3	3	1	3	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:123886648T>C	uc010sac.1	+	1	367	c.367T>C	c.(367-369)TTG>CTG	p.L123L		NM_001004462	NP_001004462	Q8NGN3	O10G4_HUMAN	olfactory receptor, family 10, subfamily G,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		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)		TGATCGCTACTTGGCCATCAG	0.567													33	107					0	0	0.010771	0	0		C	123886648	C	C	123886648	2	2	186	1	0	0	0	0	0	0	0	1	10920	1606	56	3		3	OR10G4	11	123886648	Silent	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	9433071	123886648	11119868	162	92686											
OR8D2	283160	broad.mit.edu	37	chr11	124189952	124189952	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgagaactgagagcaattaAgaagatcatgcccaggttcc	14	9	10	8	0	1	4	1	2	0	4	2	6	2	4	2	1	3	2	2	1	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:124189952A>G	uc010sah.1	-	1	142	c.142T>C	c.(142-144)TTA>CTA	p.L48L		NM_001002918	NP_001002918	Q9GZM6	OR8D2_HUMAN	olfactory receptor, family 8, subfamily D,	48	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)|central_nervous_system(1)|pancreas(1)	3		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;0.0525)		AGAGCAATTAAGAAGATCATG	0.453													25	56					0	0	0.005443	0	0		G	124189952	G	G	124189952	2	3	186	1	0	0	0	0	0	0	0	1	11251	69	3	3		3	OR8D2	11	124189952	Silent	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	303304	124189952	10816564	163	92687											
NTM	50863	broad.mit.edu	37	chr11	132177683	132177683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccaatgacgtggccgcGcccgtggtacggagagtaaa	9	6	14	12	5	0	2	0	1	0	1	1	3	1	2	4	3	1	2	4	3	4	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr11:132177683G>A	uc001qgp.2	+	4	1291	c.627G>A	c.(625-627)GCG>GCA	p.A209A	NTM_uc001qgm.2_Silent_p.A209A|NTM_uc010sch.1_Silent_p.A200A|NTM_uc010sci.1_Silent_p.A209A|NTM_uc010scj.1_Silent_p.A168A|NTM_uc001qgo.2_Silent_p.A209A|NTM_uc001qgq.2_Silent_p.A209A|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	209	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						ACGTGGCCGCGCCCGTGGTAC	0.582													6	30					0	0	0.001168	0	0		A	132177683	A	A	132177683	2	1	186	1	0	0	0	0	0	0	0	1	10718	1074	38	1		1	NTM	11	132177683	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	7987731	132177683	2828833	164	92688											
PDE3A	5139	broad.mit.edu	37	chr12	20523121	20523121	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtgtccgccgagatgtcCggctgcagcagcaagtccca	7	7	13	14	4	0	1	0	0	0	1	4	2	3	1	4	1	3	4	4	1	1	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:20523121C>T	uc001reh.1	+	1	925	c.903C>T	c.(901-903)TCC>TCT	p.S301S		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	301					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CCGAGATGTCCGGCTGCAGCA	0.587													13	35					0	0	0.013537	0	0		T	20523121	T	T	20523121	2	4	186	1	0	0	0	0	0	0	0	1	11656	639	23	1		1	PDE3A	12	20523121	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		20523121	113328774	165	92689											
LRRK2	120892	broad.mit.edu	37	chr12	40692165	40692165	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcgaaatgacattggacccTcagtggttttagatcctaca	11	12	8	10	1	1	2	1	1	0	1	3	4	2	3	2	2	1	1	2	2	3	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:40692165T>C	uc001rmg.3	+	24	3338	c.3217T>C	c.(3217-3219)TCA>CCA	p.S1073P	LRRK2_uc001rmh.1_Missense_Mutation_p.S695P|LRRK2_uc009zjw.2_5'UTR	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1073	LRR 4.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CATTGGACCCTCAGTGGTTTT	0.368													10	61					0	0	0.010729	0	0		C	40692165	C	C	40692165	3	2	186	1	0	0	0	0	1	0	0	0	9051	1551	54	3	3311	3	LRRK2	12	40692165	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	20169044	40692165	93159730	166	92690											
DDX23	9416	broad.mit.edu	37	chr12	49224310	49224310	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggatggtgcctggcttatgcTgggcatctgggtggttggct	3	13	18	7	0	1	0	0	0	1	0	1	1	1	1	1	7	2	5	1	7	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:49224310T>C	uc001rsm.2	-	17	2496	c.2405A>G	c.(2404-2406)CAG>CGG	p.Q802R		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	802						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						TGGCTTATGCTGGGCATCTGG	0.562													9	87					0	0	0.006214	0	0		C	49224310	C	C	49224310	3	2	186	1	0	0	0	0	1	0	0	0	4353	1580	55	3	61	3	DDX23	12	49224310	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	8532145	49224310	84627585	167	92691											
KRT73	319101	broad.mit.edu	37	chr12	53009982	53009982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctccaccacttcgcgcacGctcctcagctccgagtccag	6	8	7	20	4	1	0	1	0	0	0	7	1	6	0	6	0	1	3	6	0	0	1	rs116369374	by1000genomes	TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:53009982G>A	uc001sas.2	-	2	665	c.630C>T	c.(628-630)AGC>AGT	p.S210S		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	210	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		CTTCGCGCACGCTCCTCAGCT	0.622													33	74					0	0	0.003271	0	0		A	53009982	A	A	53009982	2	1	186	1	0	0	0	0	0	0	0	1	8502	1078	38	1		1	KRT73	12	53009982	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	3785672	53009982	80841913	168	92692											
ERBB3	2065	broad.mit.edu	37	chr12	56478854	56478854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccattgcccaacctccgcGtggtgcgagggacccaggtc	7	7	12	15	3	0	0	0	0	0	0	2	2	1	1	5	3	4	0	5	3	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:56478854G>A	uc001sjh.2	+	3	503	c.310G>A	c.(310-312)GTG>ATG	p.V104M	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45M|ERBB3_uc001sjg.2_Missense_Mutation_p.V104M	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAACCTCCGCGTGGTGCGAGG	0.517													23	125					0	0	0.00278	0	0		A	56478854	A	A	56478854	3	1	186	1	0	0	0	0	1	0	0	0	5216	1145	40	1	320	1	ERBB3	12	56478854	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	3468872	56478854	77373041	169	92693											
PTPRB	5787	broad.mit.edu	37	chr12	71016170	71016170	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaccccctccttttacCtcttcagtggtgctggagaa	8	11	7	15	0	2	1	1	0	1	1	3	2	3	1	4	2	2	1	4	2	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:71016170C>G	uc001swc.3	-	3	752	c.708G>C	c.(706-708)GAG>GAC	p.E236D	PTPRB_uc001swa.3_Missense_Mutation_p.E236D|PTPRB_uc001swd.3_Missense_Mutation_p.E235D|PTPRB_uc009zrr.1_Missense_Mutation_p.E115D|PTPRB_uc001swe.2_Missense_Mutation_p.E236D	NM_001109754	NP_001103224	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			CTCCTTTTACCTCTTCAGTGG	0.512													16	73					0	0	0.006122	0	0		G	71016170	G	G	71016170	3	3	186	1	0	0	0	0	1	0	0	0	12821	695	24	5	6125	5	PTPRB	12	71016170	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	14537316	71016170	62835725	170	92694											
E2F7	144455	broad.mit.edu	37	chr12	77436957	77436957	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ctggtcagaacattggctatGtcatagaggcgtcgtacctt	9	12	11	9	2	2	2	2	0	0	2	3	2	2	2	1	3	2	2	1	3	4	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:77436957G>C	uc001sym.3	-	7	1247	c.1011C>G	c.(1009-1011)GAC>GAG	p.D337E		NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	337	Potential.				cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						CATTGGCTATGTCATAGAGGC	0.453													16	73					0	0	0.00499	0	0		C	77436957	C	C	77436957	3	2	186	1	0	0	0	0	1	0	0	0	4878	1368	48	5	1752	5	E2F7	12	77436957	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	6420787	77436957	56414938	171	92695											
TMCC3	57458	broad.mit.edu	37	chr12	94976035	94976035	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gatggagtgagctgatttctGattcttcttctcaaagactt	9	16	9	7	0	4	4	1	3	4	1	5	6	4	5	0	1	1	1	0	1	1	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:94976035G>C	uc001tdj.2	-	2	476	c.358C>G	c.(358-360)CAG>GAG	p.Q120E	TMCC3_uc001tdi.2_Missense_Mutation_p.Q89E	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	120	Potential.					integral to membrane				ovary(1)|skin(1)	2						GCTGATTTCTGATTCTTCTTC	0.488													21	51					0	0	0.010504	0	0		C	94976035	C	C	94976035	3	2	186	1	0	0	0	0	1	0	0	0	16019	1299	45	5	1087	5	TMCC3	12	94976035	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	17539078	94976035	38875860	172	92696											
NUAK1	9891	broad.mit.edu	37	chr12	106461395	106461395	+	Missense_Mutation	SNP	T	G	G	0	1	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	gggcctcttagaactcaactTggatgggctttcaggcactg	8	11	12	10	0	3	1	2	0	1	1	3	2	3	2	1	4	2	2	1	4	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:106461395T>G	uc001tlj.1	-	7	2551	c.1171A>C	c.(1171-1173)AAG>CAG	p.K391Q		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	391							ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						GAACTCAACTTGGATGGGCTT	0.527													20	100					0	0	0.010504	0	0		G	106461395	G	G	106461395	3	3	186	1	0	0	0	0	1	0	0	0	10731	1821	63	5	818	5	NUAK1	12	106461395	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	11485360	106461395	27390500	173	92697											
POLR3B	55703	broad.mit.edu	37	chr12	106897865	106897865	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttgtttcaaaggcaaccCactgaaggacggtctcgtga	12	9	10	10	2	2	2	1	2	1	0	3	3	2	3	1	3	2	2	1	3	4	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:106897865C>A	uc001tlp.2	+	27	3327	c.3105C>A	c.(3103-3105)CCC>CCA	p.P1035P	POLR3B_uc001tlq.2_Silent_p.P977P	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	1035					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						AAAGGCAACCCACTGAAGGAC	0.323													4	96					0.00116845	0.00120458	0.001168	1	0		A	106897865	A	A	106897865	2	1	186	1	0	0	0	0	0	0	0	1	12248	581	21	5		5	POLR3B	12	106897865	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	436470	106897865	26954030	174	92698											
NAA25	80018	broad.mit.edu	37	chr12	112480946	112480946	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacaagataaaaagagcttaTctggcactgagaacagccag	17	6	10	8	0	1	3	0	1	1	3	1	5	1	3	1	1	3	2	1	1	6	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:112480946T>C	uc001ttm.2	-	19	2340	c.2320A>G	c.(2320-2322)ATA>GTA	p.I774V	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Missense_Mutation_p.I746V|NAA25_uc009zwa.1_Missense_Mutation_p.I774V	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	774						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						AAAGAGCTTATCTGGCACTGA	0.378													9	47					0	0	0.006214	0	0		C	112480946	C	C	112480946	3	2	186	1	0	0	0	0	1	0	0	0	10139	1435	50	3	622	3	NAA25	12	112480946	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	5583081	112480946	21370949	175	92699											
FZD10	11211	broad.mit.edu	37	chr12	130648665	130648665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcagcatggacgtcaacgCgctcaccggcttcgtgctca	7	7	13	14	5	3	0	3	0	0	0	4	1	3	1	1	3	3	5	1	3	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:130648665C>T	uc001uii.2	+	1	1634	c.1178C>T	c.(1177-1179)GCG>GTG	p.A393V	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	393	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GACGTCAACGCGCTCACCGGC	0.657													22	51					0	0	0.00278	0	0		T	130648665	T	T	130648665	3	4	186	1	0	0	0	0	1	0	0	0	6143	768	27	1	1180	1	FZD10	12	130648665	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	18167719	130648665	3203230	176	92700											
DDX51	317781	broad.mit.edu	37	chr12	132624651	132624651	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagcgctcaccggtgcacGtaggttctcaggtactgggg	6	8	15	12	3	2	0	2	0	1	0	3	0	2	0	2	5	3	5	2	5	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr12:132624651G>A	uc001ujy.3	-	12	1806	c.1767C>T	c.(1765-1767)TAC>TAT	p.Y589Y		NM_175066	NP_778236	Q8N8A6	DDX51_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 51	589	Helicase C-terminal.				rRNA processing	nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			lung(1)|pancreas(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.241)		OV - Ovarian serous cystadenocarcinoma(86;7.59e-08)|Epithelial(86;3.62e-07)|all cancers(50;2.13e-05)		ACCGGTGCACGTAGGTTCTCA	0.682													35	81					0	0	0.009718	0	0		A	132624651	A	A	132624651	2	1	186	1	0	0	0	0	0	0	0	1	4372	1140	40	1		1	DDX51	12	132624651	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1975986	132624651	1227244	177	92701											
MPHOSPH8	54737	broad.mit.edu	37	chr13	20235930	20235930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaaaggcgcgaaagtgaaCggtcggcagaagaacgggac	16	2	15	8	5	0	3	0	1	0	2	1	5	0	4	0	4	2	1	0	4	6	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr13:20235930C>T	uc001umh.2	+	8	1893	c.1884C>T	c.(1882-1884)AAC>AAT	p.N628N	MPHOSPH8_uc001umg.2_Silent_p.N628N	NM_017520	NP_059990	Q99549	MPP8_HUMAN	M-phase phosphoprotein 8	628	ANK 1.				cell cycle	cytoplasm|nucleus					0		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)		CGAAAGTGAACGGTCGGCAGA	0.552													10	76					0	0	0.010729	0	0		T	20235930	T	T	20235930	2	4	186	1	0	0	0	0	0	0	0	1	9745	535	19	1		1	MPHOSPH8	13	20235930	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		20235930	94933948	178	92702											
CCNA1	8900	broad.mit.edu	37	chr13	37014301	37014301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgacaaggagtgtgcgtcaGgactgagaacctggctaagg	11	6	16	8	2	1	1	1	1	0	1	1	5	1	3	1	4	2	1	1	4	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr13:37014301G>A	uc001uvr.3	+	6	1429	c.1079G>A	c.(1078-1080)AGG>AAG	p.R360K	CCNA1_uc010teo.1_Missense_Mutation_p.R316K|CCNA1_uc010abq.2_Missense_Mutation_p.R316K|CCNA1_uc010abp.2_Missense_Mutation_p.R316K|CCNA1_uc001uvs.3_Missense_Mutation_p.R359K|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	360					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		GTGTGCGTCAGGACTGAGAAC	0.468													9	108					0	0	0.001855	0	0		A	37014301	A	A	37014301	3	1	186	1	0	0	0	0	1	0	0	0	2912	1000	35	4	1101	4	CCNA1	13	37014301	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	16778371	37014301	78155577	179	92703											
POSTN	10631	broad.mit.edu	37	chr13	38172767	38172767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggtcccgacccctgatacGactatgagccaagatcttgt	9	11	9	12	2	1	3	0	2	1	1	2	5	2	3	4	1	2	0	4	1	3	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr13:38172767G>A	uc001uwo.3	-	1	215	c.97C>T	c.(97-99)CGT>TGT	p.R33C	POSTN_uc001uwp.3_Missense_Mutation_p.R33C|POSTN_uc001uwr.2_Missense_Mutation_p.R33C|POSTN_uc001uwq.2_Missense_Mutation_p.R33C|POSTN_uc010teu.1_Missense_Mutation_p.R33C|POSTN_uc010tev.1_Missense_Mutation_p.R33C|POSTN_uc010tew.1_Missense_Mutation_p.R33C|POSTN_uc010tex.1_Intron	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	33					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		CCCCTGATACGACTATGAGCC	0.378													9	45					0	0	0.010729	0	0		A	38172767	A	A	38172767	3	1	186	1	0	0	0	0	1	0	0	0	12278	1058	37	1	2505	1	POSTN	13	38172767	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1158466	38172767	76997111	180	92704											
C13orf18	80183	broad.mit.edu	37	chr13	46946558	46946558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccagagtgatcgctgatcCcttcccagggctccacagga	8	8	11	14	1	0	3	0	2	0	1	4	4	3	4	4	2	1	2	4	2	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr13:46946558C>T	uc010acl.2	-	3	658	c.53G>A	c.(52-54)GGG>GAG	p.G18E	C13orf18_uc001vbf.3_Intron|C13orf18_uc001vbg.3_5'UTR|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_Intron|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Missense_Mutation_p.G18E|C13orf18_uc001vbh.3_Missense_Mutation_p.G18E|C13orf18_uc001vbi.3_Intron|C13orf18_uc010aco.1_Missense_Mutation_p.G18E|C13orf18_uc010tga.1_Intron	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	18											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		ATCGCTGATCCCTTCCCAGGG	0.502													3	11					0	0	0.004672	0	0		T	46946558	T	T	46946558	3	4	186	1	0	0	0	0	1	0	0	0	1723	623	22	4	1987	4	C13orf18	13	46946558	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	8773791	46946558	68223320	181	92705											
MYCBP2	23077	broad.mit.edu	37	chr13	77635848	77635848	+	Silent	SNP	G	A	A	0	0	1	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	aggtgaaggaatctgtcacaGtctgtacataaatttccaca	14	11	8	8	0	3	1	1	1	2	0	4	2	4	2	1	2	1	1	1	2	5	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr13:77635848G>A	uc001vkf.2	-	76	12829	c.12738C>T	c.(12736-12738)GAC>GAT	p.D4246D	MYCBP2_uc010aev.2_Silent_p.D3650D|MYCBP2_uc001vke.2_Silent_p.D863D	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	4246					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		ATCTGTCACAGTCTGTACATA	0.358													4	26					0	0	0.000602	0	0		A	77635848	A	A	77635848	2	1	186	1	0	0	0	0	0	0	0	1	10036	1020	36	4		4	MYCBP2	13	77635848	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	30689290	77635848	37534030	182	92706											
STK24	8428	broad.mit.edu	37	chr13	99109504	99109504	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctaggtagatggcccctcGcagctcttcaatggacccca	8	8	10	15	2	2	1	1	0	1	1	3	2	2	2	4	3	1	4	4	3	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr13:99109504G>A	uc001vnm.1	-	10	1448	c.1213C>T	c.(1213-1215)CGA>TGA	p.R405*	STK24_uc001vnn.1_Nonsense_Mutation_p.R393*|STK24_uc010tim.1_Nonsense_Mutation_p.R374*	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a	405					cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			ATGGCCCCTCGCAGCTCTTCA	0.612													10	24					0	0	0.006214	0	0		A	99109504	A	A	99109504	4	1	186	1	0	0	0	0	0	1	0	0	15318	1095	38	1	126	1	STK24	13	99109504	Nonsense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	21473656	99109504	16060374	183	92707											
RIPK3	11035	broad.mit.edu	37	chr14	24805445	24805445	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttcaggatctttagggcctTcttgcgaacctactggtggg	6	13	12	10	1	3	0	1	0	2	0	3	2	3	1	2	4	3	0	2	4	3	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr14:24805445T>C	uc001wpb.2	-	10	1703	c.1493A>G	c.(1492-1494)GAA>GGA	p.E498G	ADCY4_uc001wov.2_5'Flank|ADCY4_uc001wow.2_5'Flank|ADCY4_uc010toh.1_5'Flank|ADCY4_uc001wox.2_5'Flank|ADCY4_uc001woy.2_5'Flank|ADCY4_uc001woz.3_5'Flank|RIPK3_uc001wpa.2_Missense_Mutation_p.E298G|RIPK3_uc010alq.2_RNA|RIPK3_uc010toi.1_Missense_Mutation_p.E277G	NM_006871	NP_006862	Q9Y572	RIPK3_HUMAN	receptor-interacting serine-threonine kinase 3	498					apoptosis|induction of apoptosis by extracellular signals	cytoplasm	ATP binding|protein binding|transcription coactivator activity			central_nervous_system(2)|ovary(1)|lung(1)	4				GBM - Glioblastoma multiforme(265;0.0181)		TTTAGGGCCTTCTTGCGAACC	0.547													7	55					0	0	0.004482	0	0		C	24805445	C	C	24805445	3	2	186	1	0	0	0	0	1	0	0	0	13407	1783	62	3	67	3	RIPK3	14	24805445	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08		24805445	82544095	184	92708											
NPAS3	64067	broad.mit.edu	37	chr14	34270197	34270197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtgagcgcagctagcctgaCgcagatgcccgccggcaacg	9	4	14	14	5	0	3	0	2	0	1	0	3	0	3	3	1	5	4	3	1	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr14:34270197C>T	uc001wru.2	+	12	2748	c.2684C>T	c.(2683-2685)ACG>ATG	p.T895M	NPAS3_uc001wrs.2_Missense_Mutation_p.T882M|NPAS3_uc001wrt.2_Missense_Mutation_p.T863M|NPAS3_uc001wrv.2_Missense_Mutation_p.T865M	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	895					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GCTAGCCTGACGCAGATGCCC	0.657													4	8					0	0	0.009096	0	0		T	34270197	T	T	34270197	3	4	186	1	0	0	0	0	1	0	0	0	10583	536	19	1	2785	1	NPAS3	14	34270197	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	9464752	34270197	73079343	185	92709											
HSP90AA1	3320	broad.mit.edu	37	chr14	102552358	102552358	+	Missense_Mutation	SNP	A	G	G	1	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	ttccagtatccacaatagtgAgagttcgatcttgtttgttc	9	16	8	8	1	1	1	0	1	1	1	5	3	3	1	2	0	0	4	2	0	3	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr14:102552358A>G	uc001yku.3	-	3	456	c.266T>C	c.(265-267)CTC>CCC	p.L89P	HSP90AA1_uc001ykv.3_Missense_Mutation_p.L211P|HSP90AA1_uc001ykw.1_Intron|HSP90AA1_uc001ykx.1_Missense_Mutation_p.L78P	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	89					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	CACAATAGTGAGAGTTCGATC	0.423													9	54					0	0	0.004482	0	0		G	102552358	G	G	102552358	3	3	186	1	0	0	0	0	1	0	0	0	7417	304	11	3	1968	3	HSP90AA1	14	102552358	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	68282161	102552358	4797182	186	92710											
PAK6	56924	broad.mit.edu	37	chr15	40564645	40564645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctggcacgcccagatcaGcaccagcaacctgtacctgc	10	5	8	18	1	1	1	1	0	0	1	1	1	1	1	5	1	5	4	5	1	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:40564645G>A	uc010bbl.2	+	6	1519	c.1079G>A	c.(1078-1080)AGC>AAC	p.S360N	PAK6_uc010bbm.2_Missense_Mutation_p.S360N|PAK6_uc001zky.3_Missense_Mutation_p.S360N|PAK6_uc010bbn.2_Missense_Mutation_p.S360N|PAK6_uc001zlb.2_Missense_Mutation_p.S360N	NM_001128628	NP_001122100	Q9NQU5	PAK6_HUMAN	p21-activated kinase 6	360	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(5)|large_intestine(1)|ovary(1)|skin(1)	8		all_cancers(109;1.13e-18)|all_epithelial(112;1.62e-15)|Lung NSC(122;5.67e-11)|all_lung(180;1.41e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0823)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.51e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0544)		GCCCAGATCAGCACCAGCAAC	0.672													11	26					0	0	0.013537	0	0		A	40564645	A	A	40564645	3	1	186	1	0	0	0	0	1	0	0	0	11423	971	34	2	1089	2	PAK6	15	40564645	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		40564645	61966747	187	92711											
FBN1	2200	broad.mit.edu	37	chr15	48807654	48807655	+	Missense_Mutation	DNP	AA	CT	CT																															cggcaactcccaggagttggAatgcagcgtccattttgaca																										TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:48807654_48807655AA>CT	uc001zwx.1	-	12	1725_1726	c.1397_1398TT>AG	c.(1396-1398)ATT>AAG	p.I466K		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	466	EGF-like 6.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CAGGAGTTGGAATGCAGCGTCC	0.5													7	41					0	0	0.004672	0	0		CT	48807655	CT	CT	48807654	3	2	186	1	0	0	0	0	1	0	0	0	5716	242	9	5	7437	5	FBN1	15	48807654	Missense_Mutation	DNP	AA	TCGA-D7-A4YU-01A-21D-A25D-08	8243009	48807654	53723738	188	92712											
FBN1	2200	broad.mit.edu	37	chr15	48818420	48818420	+	Missense_Mutation	SNP	A	G	G	1	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	tgtacattcacccccttcacAgattccaggaatggtgctgc	9	11	8	13	0	2	1	2	0	0	1	3	2	3	2	3	2	3	2	3	2	2	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:48818420A>G	uc001zwx.1	-	9	1223	c.895T>C	c.(895-897)TGT>CGT	p.C299R		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	299	EGF-like 5; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CCCCCTTCACAGATTCCAGGA	0.398													23	62					0	0	0.00333	0	0		G	48818420	G	G	48818420	3	3	186	1	0	0	0	0	1	0	0	0	5716	188	7	3	7952	3	FBN1	15	48818420	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	10766	48818420	53712972	189	92713											
RNF111	54778	broad.mit.edu	37	chr15	59381897	59381897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaggctatcctcacatccGttacatttcatcaggattgg	9	12	9	11	1	3	0	3	0	0	0	5	1	5	1	2	4	1	3	2	4	2	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:59381897G>A	uc002afv.2	+	11	2861	c.2582G>A	c.(2581-2583)CGT>CAT	p.R861H	RNF111_uc002afs.2_Missense_Mutation_p.R861H|RNF111_uc002aft.2_Missense_Mutation_p.R870H|RNF111_uc002afu.2_Missense_Mutation_p.R860H|RNF111_uc002afw.2_Missense_Mutation_p.R870H|RNF111_uc002afx.2_Missense_Mutation_p.R387H|RNF111_uc002afy.2_Missense_Mutation_p.R12H	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	861					multicellular organismal development|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2				all cancers(107;0.194)		CCTCACATCCGTTACATTTCA	0.348													39	118					0	0	0.01441	0	0		A	59381897	A	A	59381897	3	1	186	1	0	0	0	0	1	0	0	0	13450	1145	40	1	2620	1	RNF111	15	59381897	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	10563477	59381897	43149495	190	92714											
NARG2	79664	broad.mit.edu	37	chr15	60741737	60741737	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttttgcattcctcagggcCaccatccataccagtgacca	10	11	6	14	0	1	1	1	1	0	0	3	1	3	1	6	1	2	1	6	1	1	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:60741737C>A	uc002agp.2	-	10	1664	c.1429G>T	c.(1429-1431)GGC>TGC	p.G477C	NARG2_uc002ago.2_Missense_Mutation_p.G340C|NARG2_uc002agq.3_Missense_Mutation_p.G145C	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	477						nucleus				ovary(1)|lung(1)	2						TCCTCAGGGCCACCATCCATA	0.388													8	56					0.000274275	0.000290751	0.004482	1	0		A	60741737	A	A	60741737	3	1	186	1	0	0	0	0	1	0	0	0	10187	594	21	5	1547	5	NARG2	15	60741737	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1359840	60741737	41789655	191	92715											
PTPLAD1	51495	broad.mit.edu	37	chr15	65862541	65862541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtgcaattgaaattttcaGgtgggtagaaatgccaggat	13	11	13	4	0	1	2	1	1	0	1	1	4	1	3	1	3	2	2	1	3	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:65862541G>A	uc002apc.2	+	8	921	c.773G>A	c.(772-774)AGG>AAG	p.R258K	PTPLAD1_uc002apb.1_RNA|PTPLAD1_uc010uiw.1_Missense_Mutation_p.R203K	NM_016395	NP_057479	Q9P035	HACD3_HUMAN	protein tyrosine phosphatase-like A domain	258	Cytoplasmic (Potential).				activation of JUN kinase activity|fatty acid biosynthetic process|I-kappaB kinase/NF-kappaB cascade|Rac protein signal transduction	endoplasmic reticulum membrane|integral to membrane	GTPase activator activity|lyase activity|protein binding				0						GAAATTTTCAGGTGGGTAGAA	0.393													3	46					0	0	0.004672	0	0		A	65862541	A	A	65862541	3	1	186	1	0	0	0	0	1	0	0	0	12798	1014	35	4	803	4	PTPLAD1	15	65862541	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	5120804	65862541	36668851	192	92716											
CPEB1	64506	broad.mit.edu	37	chr15	83296110	83296110	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatcttttatccttcctgcTtcttcttcctagacacagaa	9	16	3	13	0	3	2	0	0	3	2	6	2	6	2	3	0	1	1	3	0	4	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:83296110T>G	uc002bit.2	-	2	341	c.204A>C	c.(202-204)GAA>GAC	p.E68D	CPEB1_uc002biu.2_Missense_Mutation_p.E35D|CPEB1_uc010uof.1_5'UTR|CPEB1_uc002biv.2_Missense_Mutation_p.E8D	NM_001079533	NP_001073001	Q9BZB8	CPEB1_HUMAN	cytoplasmic polyadenylation element binding	8					mRNA processing|regulation of translation	cell junction|cytoplasmic mRNA processing body|dendrite|postsynaptic density|postsynaptic membrane	nucleotide binding|RNA binding			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(143;0.229)			TCCTTCCTGCTTCTTCTTCCT	0.393													8	16					0	0	0.00308	0	0		G	83296110	G	G	83296110	3	3	186	1	0	0	0	0	1	0	0	0	3803	1606	56	5	1720	5	CPEB1	15	83296110	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	17433569	83296110	19235282	193	92717											
RGMA	56963	broad.mit.edu	37	chr15	93595502	93595502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgtgcgcaggcgtggctgCgaggtggggccatccttgga	5	7	19	10	4	0	0	0	0	0	0	1	2	1	1	2	6	3	2	2	6	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr15:93595502C>T	uc002bss.1	-	3	638	c.366G>A	c.(364-366)TCG>TCA	p.S122S	RGMA_uc002bsq.1_Silent_p.S106S|RGMA_uc010boi.1_Silent_p.S13S|RGMA_uc002bsr.1_Silent_p.S13S|RGMA_uc010urc.1_Silent_p.S130S	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor	122					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			GGCGTGGCTGCGAGGTGGGGC	0.667													6	34					0	0	0.001168	0	0		T	93595502	T	T	93595502	2	4	186	1	0	0	0	0	0	0	0	1	13305	755	27	1		1	RGMA	15	93595502	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	10299392	93595502	8935890	194	92718											
NPW	283869	broad.mit.edu	37	chr16	2070128	2070128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccgccgggcccctggccaggGacaccctctcccccgaaccc	5	3	10	23	3	1	0	0	0	1	0	2	2	1	1	9	3	1	0	9	3	1	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr16:2070128G>A	uc002coh.3	+	1	608	c.226G>A	c.(226-228)GAC>AAC	p.D76N		NM_001099456	NP_001092926	Q8N729	NPW_HUMAN	neuropeptide W preproprotein	76					feeding behavior|neuropeptide signaling pathway	extracellular region					0						ccTGGCCAGGGACACCCTCTC	0.597													4	12					0	0	0.009096	0	0		A	2070128	A	A	2070128	3	1	186	1	0	0	0	0	1	0	0	0	10625	1174	41	4	228	4	NPW	16	2070128	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		2070128	88284625	195	92719											
C16orf92	146378	broad.mit.edu	37	chr16	30035367	30035367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctggtgggcttgctggtgGtggcgttcttctttctcctt	0	18	13	10	1	3	0	0	0	3	0	5	0	4	0	2	5	1	3	2	5	0	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr16:30035367G>A	uc002dvs.2	+	3	358	c.337G>A	c.(337-339)GTG>ATG	p.V113M	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|C16orf92_uc002dvr.2_Missense_Mutation_p.V91M	NM_001109660	NP_001103130	Q96LL3	CP092_HUMAN	hypothetical protein LOC146378 isoform 2	113	Helical; (Potential).					integral to membrane					0						CTTGCTGGTGGTGGCGTTCTT	0.577													24	104					0	0	0.003954	0	0		A	30035367	A	A	30035367	3	1	186	1	0	0	0	0	1	0	0	0	1848	1261	44	4	361	4	C16orf92	16	30035367	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	27965239	30035367	60319386	196	92720											
IRX5	10265	broad.mit.edu	37	chr16	54967412	54967412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacgagggctctccatgccCaccgtgtcccgggcccatag	7	6	12	16	3	1	0	0	0	1	0	3	2	2	0	5	2	2	1	5	2	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr16:54967412C>T	uc002ehv.2	+	3	1079	c.1079C>T	c.(1078-1080)CCA>CTA	p.P360L	IRX5_uc002ehw.2_Missense_Mutation_p.P294L	NM_005853	NP_005844	P78411	IRX5_HUMAN	iroquois homeobox protein 5	360					response to stimulus|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|vitamin D binding				0						TCTCCATGCCCACCGTGTCCC	0.701													6	18					0	0	0.001984	0	0		T	54967412	T	T	54967412	3	4	186	1	0	0	0	0	1	0	0	0	7863	594	21	4	1089	4	IRX5	16	54967412	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	24932045	54967412	35387341	197	92721											
DPEP3	64180	broad.mit.edu	37	chr16	68011675	68011675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gacccttcttatcaaggtgtCcgatgcataggacaaatcta	12	11	8	10	1	3	0	1	0	2	0	4	3	4	1	2	2	1	1	2	2	5	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr16:68011675C>T	uc002evc.3	-	6	983	c.889G>A	c.(889-891)GAC>AAC	p.D297N	DPEP3_uc010cex.2_Missense_Mutation_p.D297N	NM_022357	NP_071752	Q9H4B8	DPEP3_HUMAN	dipeptidase 3 isoform a	272					meiosis	anchored to membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			breast(3)	3		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0117)|Epithelial(162;0.0481)|all cancers(182;0.236)		ATCAAGGTGTCCGATGCATAG	0.488													10	19					0	0	0.008291	0	0		T	68011675	T	T	68011675	3	4	186	1	0	0	0	0	1	0	0	0	4721	855	30	4	672	4	DPEP3	16	68011675	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	13044263	68011675	22343078	198	92722											
CDH1	999	broad.mit.edu	37	chr16	68842415	68842415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagagactgggttattcCtcccatcagctgcccagaaa	12	8	10	11	0	1	3	1	0	0	3	3	5	3	3	3	1	2	2	3	1	3	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr16:68842415C>T	uc002ewg.1	+	4	600	c.476C>T	c.(475-477)CCT>CTT	p.P159L	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.P159L	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	159	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.V157_Q177del(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		TGGGTTATTCCTCCCATCAGC	0.473			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				12	61					0	0	0.00245	0	0		T	68842415	T	T	68842415	3	4	186	1	0	0	0	0	1	0	0	0	3098	681	24	4	490	4	CDH1	16	68842415	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	830740	68842415	21512338	199	92723											
YWHAE	7531	broad.mit.edu	37	chr17	1264561	1264561	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtcgtttcctgtggcaaAttctgccagatacctgtggt	6	14	10	11	1	1	1	0	0	1	1	3	1	2	1	4	2	2	2	4	2	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:1264561A>T	uc002fsj.2	-	4	555	c.403T>A	c.(403-405)TTT>ATT	p.F135I	YWHAE_uc002fsk.2_Missense_Mutation_p.F113I|YWHAE_uc010vqh.1_RNA|YWHAE_uc010vqi.1_Intron	NM_006761	NP_006752	P62258	1433E_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	135					apoptosis|G2/M transition of mitotic cell cycle|induction of apoptosis by extracellular signals|interspecies interaction between organisms|intracellular signal transduction|nerve growth factor receptor signaling pathway	cytosol|melanosome	histone deacetylase binding|phosphoserine binding			lung(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(18;0.203)	UCEC - Uterine corpus endometrioid carcinoma (25;0.0887)		CCTGTGGCAAATTCTGCCAGA	0.388													16	65					0	0	0.003163	0	0		T	1264561	T	T	1264561	3	4	186	1	0	0	0	0	1	0	0	0	17528	101	4	5	376	5	YWHAE	17	1264561	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08		1264561	79930649	200	92724											
TP53	7157	broad.mit.edu	37	chr17	7578275	7578275	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttccactcggataagatgctGaggaggggccagacctaaga	12	7	13	9	1	0	4	0	1	0	3	2	6	1	6	3	4	1	1	3	4	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:7578275G>A	uc002gim.2	-	6	768	c.574C>T	c.(574-576)CAG>TAG	p.Q192*	TP53_uc002gig.1_Nonsense_Mutation_p.Q192*|TP53_uc002gih.2_Nonsense_Mutation_p.Q192*|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Nonsense_Mutation_p.Q60*|TP53_uc010cng.1_Nonsense_Mutation_p.Q60*|TP53_uc002gii.1_Nonsense_Mutation_p.Q60*|TP53_uc010cnh.1_Nonsense_Mutation_p.Q192*|TP53_uc010cni.1_Nonsense_Mutation_p.Q192*|TP53_uc002gij.2_Nonsense_Mutation_p.Q192*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.Q99*|TP53_uc002gio.2_Nonsense_Mutation_p.Q60*|TP53_uc010vug.1_Nonsense_Mutation_p.Q153*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	192	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Q -> P (in sporadic cancers; somatic mutation).|Q -> H (in sporadic cancers; somatic mutation).|Q -> R (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|Q -> L (in sporadic cancers; somatic mutation).|Q -> K (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q192*(64)|p.0?(7)|p.Q192R(5)|p.A189_V197delAPPQHLIRV(4)|p.Q192H(3)|p.P191fs*53(2)|p.G187fs*16(2)|p.Q192Q(2)|p.P191del(2)|p.K164_P219del(1)|p.P191fs*6(1)|p.A189_Q192>E(1)|p.P191fs*15(1)|p.P191_Q192delPQ(1)|p.Q192>XXXXXXXXX(1)|p.Q192K(1)|p.A189fs*53(1)|p.Q192fs*56(1)|p.Q192del(1)|p.Q192fs*16(1)|p.L188_P191del(1)|p.Q192fs*30(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATAAGATGCTGAGGAGGGGCC	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			17	20					0	0	0.004007	0	0		A	7578275	A	A	7578275	4	1	186	1	0	0	0	0	0	1	0	0	16407	1299	45	4	720	4	TP53	17	7578275	Nonsense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	6313714	7578275	73616935	201	92725											
SEZ6	124925	broad.mit.edu	37	chr17	27284988	27284988	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctggcatgagggcaggtccTcactccaagttaggtcccac	8	9	11	13	0	2	1	1	1	1	0	5	1	5	1	3	4	0	3	3	4	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:27284988T>C	uc002hdp.2	-	11	2473	c.2279A>G	c.(2278-2280)GAG>GGG	p.E760G	SEZ6_uc010crx.1_5'Flank|SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.E760G|SEZ6_uc002hdq.1_Missense_Mutation_p.E635G	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	760	Extracellular (Potential).|Sushi 3.					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			GGGCAGGTCCTCACTCCAAGT	0.468													9	34					0	0	0.004482	0	0		C	27284988	C	C	27284988	3	2	186	1	0	0	0	0	1	0	0	0	14167	1551	54	3	746	3	SEZ6	17	27284988	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	19706713	27284988	53910222	202	92726											
ANKRD13B	124930	broad.mit.edu	37	chr17	27939281	27939281	+	Silent	SNP	A	G	G	1	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	cgtctgcctcctggcttcccAgttaagattggtgagaccgc	6	11	11	13	2	1	2	0	1	1	2	3	3	3	2	4	2	1	2	4	2	1	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:27939281A>G	uc002hei.2	+	11	1361	c.1248A>G	c.(1246-1248)CCA>CCG	p.P416P	ANKRD13B_uc002heh.2_Silent_p.P284P|ANKRD13B_uc002hej.2_RNA|ANKRD13B_uc002hek.2_5'Flank	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	416											0						CTGGCTTCCCAGTTAAGATTG	0.622													21	71					0	0	0.00333	0	0		G	27939281	G	G	27939281	2	3	186	1	0	0	0	0	0	0	0	1	642	175	7	3		3	ANKRD13B	17	27939281	Silent	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	654293	27939281	53255929	203	92727											
NEUROD2	4761	broad.mit.edu	37	chr17	37762570	37762570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggccgctcgccctccgcctCgtccagtccttcttcctcct	1	11	8	21	4	1	0	0	0	1	0	8	0	6	0	8	1	0	1	8	1	0	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:37762570C>T	uc002hry.2	-	2	483	c.283G>A	c.(283-285)GAG>AAG	p.E95K		NM_006160	NP_006151	Q15784	NDF2_HUMAN	neurogenic differentiation 2	95					cellular response to calcium ion|cellular response to electrical stimulus|cerebellar cortex development|negative regulation of synapse maturation|positive regulation of calcium-mediated signaling|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of synapse maturation|positive regulation of synaptic plasticity|protein ubiquitination|regulation of transcription from RNA polymerase II promoter	nucleus	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|Lung(15;0.00549)|LUAD - Lung adenocarcinoma(14;0.0664)			CCCTCCGCCTCGTCCAGTCCT	0.502													4	12					0	0	0.009096	0	0		T	37762570	T	T	37762570	3	4	186	1	0	0	0	0	1	0	0	0	10368	893	31	1	869	1	NEUROD2	17	37762570	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	9823289	37762570	43432640	204	92728											
KRT10	3858	broad.mit.edu	37	chr17	38978350	38978350	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcttccagagcccgaactTtgtccaagtaggaagccagg	11	9	10	11	1	1	1	0	0	1	1	3	3	3	2	4	2	3	1	4	2	4	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:38978350T>C	uc002hvi.2	-	1	514	c.488A>G	c.(487-489)AAA>AGA	p.K163R	KRT10_uc010cxd.2_5'Flank|TMEM99_uc002hvj.1_Intron	NM_000421	NP_000412	P13645	K1C10_HUMAN	keratin 10	163	Coil 1A.|Rod.|Gly-rich.				epidermis development		protein binding|structural constituent of epidermis				0		Breast(137;0.000301)				AGCCCGAACTTTGTCCAAGTA	0.418													15	98					0	0	0.003163	0	0		C	38978350	C	C	38978350	3	2	186	1	0	0	0	0	1	0	0	0	8464	1841	64	3	1298	3	KRT10	17	38978350	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	1215780	38978350	42216860	205	92729											
KRT20	54474	broad.mit.edu	37	chr17	39041346	39041346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccataaacgctgggtgtcGtcccgaggcgctgcatgccc	6	7	12	16	4	0	0	0	0	0	0	2	1	1	0	4	2	3	3	4	2	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:39041346G>A	uc002hvl.2	-	1	134	c.92C>T	c.(91-93)ACG>ATG	p.T31M		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	31	Head.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				GCTGGGTGTCGTCCCGAGGCG	0.607													5	64					0	0	0.001984	0	0		A	39041346	A	A	39041346	3	1	186	1	0	0	0	0	1	0	0	0	8474	1145	40	1	1214	1	KRT20	17	39041346	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	62996	39041346	42153864	206	92730											
CNTNAP1	8506	broad.mit.edu	37	chr17	40839908	40839908	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cttttctcccgtctgggggaCgggctgggccacgtggagct	3	10	16	12	3	2	0	0	0	2	0	3	2	2	2	2	5	1	2	2	5	0	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:40839908C>T	uc002iay.2	+	8	1431	c.1215C>T	c.(1213-1215)GAC>GAT	p.D405D	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	405	Laminin G-like 2.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GTCTGGGGGACGGGCTGGGCC	0.652													27	109					0	0	0.009535	0	0		T	40839908	T	T	40839908	2	4	186	1	0	0	0	0	0	0	0	1	3649	535	19	1		1	CNTNAP1	17	40839908	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1798562	40839908	40355302	207	92731											
SOST	50964	broad.mit.edu	37	chr17	41833119	41833119	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtgcagctcgcggcagctgTactcggacacgtctgtggag	7	8	15	11	4	1	0	0	0	1	0	3	2	1	2	0	3	4	5	0	3	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:41833119T>G	uc002iec.1	-	2	280	c.233A>C	c.(232-234)TAC>TCC	p.Y78S		NM_025237	NP_079513	Q9BQB4	SOST_HUMAN	sclerostin precursor	78					negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of ossification|negative regulation of protein complex assembly|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway		heparin binding|protein binding				0		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		GCGGCAGCTGTACTCGGACAC	0.726													4	10					0	0	0.009096	0	0		G	41833119	G	G	41833119	3	3	186	1	0	0	0	0	1	0	0	0	14963	1638	57	5	412	5	SOST	17	41833119	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	993211	41833119	39362091	208	92732											
MPP3	4356	broad.mit.edu	37	chr17	41907136	41907136	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaaattcttctgggcaacCgtgtcatgtaccatgagcac	11	11	8	11	1	4	1	2	1	2	0	4	1	4	1	2	1	3	3	2	1	4	3	rs34890360		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:41907136C>T	uc002iei.3	-	7	493	c.327G>A	c.(325-327)ACG>ACA	p.T109T	MPP3_uc002ieh.2_Silent_p.T134T|MPP3_uc002iej.2_RNA|MPP3_uc010czi.1_Silent_p.T109T|MPP3_uc010wik.1_Silent_p.T134T|MPP3_uc010czj.1_3'UTR	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	109	L27 2.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity	p.T109T(1)		large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		TCTGGGCAACCGTGTCATGTA	0.572													13	82					0	0	0.00245	0	0		T	41907136	T	T	41907136	2	4	186	1	0	0	0	0	0	0	0	1	9753	639	23	1		1	MPP3	17	41907136	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	74017	41907136	39288074	209	92733											
BTBD17	388419	broad.mit.edu	37	chr17	72353345	72353345	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aacttggcgtagtgcagcggCgacgcggcgtggaactggta	8	7	17	9	6	0	0	0	0	0	0	0	2	0	1	0	5	4	3	0	5	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:72353345C>T	uc002jkn.2	-	3	888	c.888G>A	c.(886-888)TCG>TCA	p.S296S		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	296						extracellular region					0						AGTGCAGCGGCGACGCGGCGT	0.716													4	9					0	0	0.001168	0	0		T	72353345	T	T	72353345	2	4	186	1	0	0	0	0	0	0	0	1	1545	755	27	1		1	BTBD17	17	72353345	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	30446209	72353345	8841865	210	92734											
TMEM104	54868	broad.mit.edu	37	chr17	72832361	72832361	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacatgtacaccctcaacttCgcgcgctgtgacgtcgtggg	7	9	12	13	5	1	1	1	1	0	0	3	2	1	1	1	1	2	2	1	1	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr17:72832361C>T	uc002jls.3	+	10	1188	c.1026C>T	c.(1024-1026)TTC>TTT	p.F342F	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Silent_p.F342F	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	342	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					CCCTCAACTTCGCGCGCTGTG	0.612													57	118					0	0	0.01441	0	0		T	72832361	T	T	72832361	2	4	186	1	0	0	0	0	0	0	0	1	16043	883	31	1		1	TMEM104	17	72832361	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	479016	72832361	8362849	211	92735											
PTPRM	5797	broad.mit.edu	37	chr18	8343485	8343485	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacgaaaacactgcaagtatCatcatggtgaccaatcttgt	14	10	7	10	1	3	1	2	1	1	0	3	2	3	1	1	1	2	2	1	1	5	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:8343485C>G	uc002knn.3	+	21	3485	c.2982C>G	c.(2980-2982)ATC>ATG	p.I994M	PTPRM_uc010dkv.2_Missense_Mutation_p.I1007M|PTPRM_uc010wzl.1_Missense_Mutation_p.I781M	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	994	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CTGCAAGTATCATCATGGTGA	0.453													32	58					0	0	0.004289	0	0		G	8343485	G	G	8343485	3	3	186	1	0	0	0	0	1	0	0	0	12831	816	29	5	3111	5	PTPRM	18	8343485	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		8343485	69733763	212	92736											
CEP192	55125	broad.mit.edu	37	chr18	13049226	13049226	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgatacttgggatttatcTttgcccaaagaacaaactac	13	13	6	9	0	2	2	0	1	2	1	2	3	2	3	1	1	5	0	1	1	6	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:13049226T>G	uc010xac.1	+	16	2516	c.2436T>G	c.(2434-2436)TCT>TCG	p.S812S	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Silent_p.S337S|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Silent_p.S553S	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	812										ovary(4)|pancreas(1)	5						GGGATTTATCTTTGCCCAAAG	0.373													12	37					0	0	0.013537	0	0		G	13049226	G	G	13049226	2	3	186	1	0	0	0	0	0	0	0	1	3254	1596	56	5		5	CEP192	18	13049226	Silent	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	4705741	13049226	65028022	213	92737											
CTAGE1	64693	broad.mit.edu	37	chr18	19995611	19995611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aaaacctctcggtaaatagaCatttctcattgcaaatggag	15	11	7	8	1	2	1	1	0	2	1	4	2	2	2	1	2	2	2	1	2	6	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:19995611C>T	uc002ktv.1	-	1	2268	c.2164G>A	c.(2164-2166)GTC>ATC	p.V722I		NM_172241	NP_758441	Q96RT6	CTGE2_HUMAN	cutaneous T-cell lymphoma-associated antigen 1	722	Pro-rich.					integral to membrane				ovary(1)	1	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)					GGTAAATAGACATTTCTCATT	0.507													9	28					0	0	0.006214	0	0		T	19995611	T	T	19995611	3	4	186	1	0	0	0	0	1	0	0	0	3995	478	17	4	77	4	CTAGE1	18	19995611	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	6946385	19995611	58081637	214	92738											
ZNF521	25925	broad.mit.edu	37	chr18	22806293	22806293	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatgaacctgtctaatatgcTcttccagggaagagtcagtg	12	11	10	8	0	3	2	1	1	2	1	4	3	4	3	2	1	2	1	2	1	5	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:22806293T>C	uc002kvk.2	-	4	1836	c.1589A>G	c.(1588-1590)GAG>GGG	p.E530G	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.E530G|ZNF521_uc002kvl.2_Missense_Mutation_p.E310G	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	530	C2H2-type 12.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TCTAATATGCTCTTCCAGGGA	0.458			T	PAX5	ALL								13	44					0	0	0.001855	0	0		C	22806293	C	C	22806293	3	2	186	1	0	0	0	0	1	0	0	0	17990	1551	54	3	2366	3	ZNF521	18	22806293	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	2810682	22806293	55270955	215	92739											
ZNF521	25925	broad.mit.edu	37	chr18	22806855	22806855	+	Missense_Mutation	SNP	T	C	C	0	1	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	caccgtgaccagggaagggcTgttgctgtgattgcatgact	8	10	14	9	1	0	3	0	3	0	0	0	4	0	4	2	2	2	4	2	2	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:22806855T>C	uc002kvk.2	-	4	1274	c.1027A>G	c.(1027-1029)AGC>GGC	p.S343G	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.S343G|ZNF521_uc002kvl.2_Missense_Mutation_p.S123G	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	343					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					AGGGAAGGGCTGTTGCTGTGA	0.547			T	PAX5	ALL								16	25					0	0	0.00499	0	0		C	22806855	C	C	22806855	3	2	186	1	0	0	0	0	1	0	0	0	17990	1580	55	3	2928	3	ZNF521	18	22806855	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	562	22806855	55270393	216	92740											
CELF4	56853	broad.mit.edu	37	chr18	34833871	34833871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctggatggcggtctgcGcgctggccgggttgtcgaag	3	9	19	10	5	1	0	0	0	1	0	2	2	1	1	2	6	1	2	2	6	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:34833871G>A	uc002lae.2	-	12	1760	c.1364C>T	c.(1363-1365)GCG>GTG	p.A455V	CELF4_uc010dnd.1_Missense_Mutation_p.A453V|CELF4_uc002lag.2_Missense_Mutation_p.A417V|CELF4_uc002laf.2_Missense_Mutation_p.A449V	NM_020180	NP_064565	Q9BZC1	CELF4_HUMAN	bruno-like 4, RNA binding protein isoform 1	455	RRM 3.				embryo development|germ cell development|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	BRE binding|nucleotide binding|translation repressor activity, nucleic acid binding			ovary(2)	2						GGCGGTCTGCGCGCTGGCCGG	0.532													10	63					0	0	0.013537	0	0		A	34833871	A	A	34833871	3	1	186	1	0	0	0	0	1	0	0	0	3221	1087	38	1	100	1	CELF4	18	34833871	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	12027016	34833871	43243377	217	92741											
SYT4	6860	broad.mit.edu	37	chr18	40854178	40854178	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttatcatctgctccaaaCttctttttgctatttaggtt	7	22	4	8	0	3	0	1	0	2	0	4	0	4	0	1	1	3	3	1	1	4	10			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:40854178C>A	uc002law.2	-	2	585	c.216G>T	c.(214-216)AAG>AAT	p.K72N	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Missense_Mutation_p.K54N|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	72	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						CTGCTCCAAACTTCTTTTTGC	0.363													6	38					3.59834e-05	3.89711e-05	0.001168	1	0		A	40854178	A	A	40854178	3	1	186	1	0	0	0	0	1	0	0	0	15501	564	20	5	1073	5	SYT4	18	40854178	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	6020307	40854178	37223070	218	92742											
KIAA1632	57724	broad.mit.edu	37	chr18	43510773	43510773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catagaagaaagacacttctCaaagttggtaaaatgttctg	16	11	8	6	0	2	3	1	0	2	3	3	3	2	3	0	1	0	3	0	1	6	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:43510773C>T	uc002lbm.2	-	12	2381	c.2281G>A	c.(2281-2283)GAG>AAG	p.E761K	KIAA1632_uc002lbo.1_Missense_Mutation_p.E761K	NM_020964	NP_066015	Q9HCE0	EPG5_HUMAN	hypothetical protein LOC57724	761					autophagy						0						AGACACTTCTCAAAGTTGGTA	0.378													6	19					0	0	0.001168	0	0		T	43510773	T	T	43510773	3	4	186	1	0	0	0	0	1	0	0	0	8265	835	29	4	5590	4	KIAA1632	18	43510773	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	2656595	43510773	34566475	219	92743											
DCC	1630	broad.mit.edu	37	chr18	51013309	51013309	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctcagtggaccgaggtttCggagcaggaagaagtcagtg	10	8	15	8	2	2	1	2	0	1	1	4	5	2	4	1	4	1	2	1	4	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:51013309C>T	uc002lfe.1	+	26	4466	c.3879C>T	c.(3877-3879)TTC>TTT	p.F1293F	DCC_uc010dpf.1_Silent_p.F928F	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1293	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		ACCGAGGTTTCGGAGCAGGAA	0.473													27	38					0	0	0.005443	0	0		T	51013309	T	T	51013309	2	4	186	1	0	0	0	0	0	0	0	1	4285	883	31	1		1	DCC	18	51013309	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	7502536	51013309	27063939	220	92744											
RNF152	220441	broad.mit.edu	37	chr18	59483266	59483266	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcctcctggggagccccaCcttgcagaggctgctgttca	5	8	12	16	1	1	1	1	0	0	1	2	2	2	2	6	3	3	4	6	3	0	2	rs146480133		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:59483266C>A	uc002lih.1	-	2	843	c.431G>T	c.(430-432)GGT>GTT	p.G144V		NM_173557	NP_775828	Q8N8N0	RN152_HUMAN	ring finger protein 152	144					apoptosis|protein K48-linked ubiquitination	integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding			breast(1)	1		Colorectal(73;0.186)				GGGAGCCCCACCTTGCAGAGG	0.677													9	45					0.000442599	0.000462647	0.006214	1	0		A	59483266	A	A	59483266	3	1	186	1	0	0	0	0	1	0	0	0	13478	507	18	5	184	5	RNF152	18	59483266	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	8469957	59483266	18593982	221	92745											
ZNF236	7776	broad.mit.edu	37	chr18	74620433	74620433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtggtcgcagcgaaccccGaggccatgctggacctggag	8	5	16	12	3	0	0	0	0	0	0	1	4	0	2	4	5	3	2	4	5	1	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr18:74620433G>A	uc002lmi.2	+	14	2647	c.2449G>A	c.(2449-2451)GAG>AAG	p.E817K	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	817					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AGCGAACCCCGAGGCCATGCT	0.627													23	54					0	0	0.014323	0	0		A	74620433	A	A	74620433	3	1	186	1	0	0	0	0	1	0	0	0	17814	1059	37	1	2503	1	ZNF236	18	74620433	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	15137167	74620433	3456815	222	92746											
THEG	51298	broad.mit.edu	37	chr19	367066	367066	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgaggcacctacttactGgccaagtgaaggaggcggtt	9	8	14	10	1	0	2	0	2	0	0	0	3	0	3	3	5	2	2	3	5	4	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:367066G>T	uc002lol.2	-	7	951	c.912C>A	c.(910-912)GCC>GCA	p.A304A	THEG_uc002lom.2_Silent_p.A280A	NM_016585	NP_057669	Q9P2T0	THEG_HUMAN	Theg homolog isoform 1	304	THEG 5.				cell differentiation|chaperone-mediated protein complex assembly|multicellular organismal development|spermatogenesis	nucleus	protein binding			ovary(1)	1		all_cancers(10;1.13e-36)|all_epithelial(18;1.46e-23)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.1e-06)|all_lung(49;1.55e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTACTTACTGGCCAAGTGAA	0.572													35	150					3.62531e-18	4.18305e-18	0.004289	1	0		T	367066	T	T	367066	2	4	186	1	0	0	0	0	0	0	0	1	15882	1362	47	5		5	THEG	19	367066	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08		367066	58761917	223	92747											
MKNK2	2872	broad.mit.edu	37	chr19	2043500	2043500	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggcaagggtggctcacctAcctgtgtccctggcactggt	5	10	14	12	0	1	0	1	0	0	0	2	0	2	0	3	5	1	3	3	5	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:2043500A>T	uc002lus.2	-	6	664	c.419_splice	c.e6+1	p.R140_splice	MKNK2_uc002luq.1_5'Flank|MKNK2_uc010xgu.1_Splice_Site|MKNK2_uc010xgv.1_Splice_Site_p.R9_splice|MKNK2_uc002lur.2_Splice_Site_p.R140_splice|MKNK2_uc002lut.1_5'Flank	NM_199054	NP_951009	Q9HBH9	MKNK2_HUMAN	MAP kinase-interacting serine/threonine kinase 2						cell surface receptor linked signaling pathway|intracellular protein kinase cascade|regulation of translation		ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(1)|breast(1)	2		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)		TGGCTCACCTACCTGTGTCCC	0.587													8	38					0	0	0.008291	0	0		T	2043500	T	T	2043500	5	4	186	1	0	0	0	0	0	0	1	0	9623	405	14	5	1107	5	MKNK2	19	2043500	Splice_Site	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	1676434	2043500	57085483	224	92748											
PIP5K1C	23396	broad.mit.edu	37	chr19	3656413	3656413	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggccacgcaccatgtagtagCcagggagcagcttctgcagg	9	6	14	12	1	1	0	0	0	1	0	1	1	1	1	3	3	4	6	3	3	2	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:3656413C>A	uc002lyj.1	-	6	668	c.611G>T	c.(610-612)GGC>GTC	p.G204V	PIP5K1C_uc010xhq.1_Missense_Mutation_p.G204V|PIP5K1C_uc010xhr.1_Missense_Mutation_p.G204V	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	204	PIPK.				axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		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)		CATGTAGTAGCCAGGGAGCAG	0.637													12	83					2.62699e-14	2.98521e-14	0.003163	1	0		A	3656413	A	A	3656413	3	1	186	1	0	0	0	0	1	0	0	0	11960	739	26	5	1447	5	PIP5K1C	19	3656413	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1612913	3656413	55472570	225	92749											
ZBTB7A	51341	broad.mit.edu	37	chr19	4047779	4047779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccggctgtgaagttaccgtCggtggcggccccggggccac	4	7	16	14	5	0	1	0	1	0	0	2	1	1	1	5	6	1	2	5	6	2	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:4047779C>T	uc002lzh.2	-	3	1801	c.1726G>A	c.(1726-1728)GAC>AAC	p.D576N	ZBTB7A_uc002lzi.2_Missense_Mutation_p.D576N	NM_015898	NP_056982	O95365	ZBT7A_HUMAN	zinc finger and BTB domain containing 7A	576					cell differentiation|multicellular organismal development|transcription, DNA-dependent	nucleus	DNA binding|histone acetyltransferase binding|zinc ion binding			pancreas(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.014)|STAD - Stomach adenocarcinoma(1328;0.18)		AAGTTACCGTCGGTGGCGGCC	0.542													25	51					0	0	0.010818	0	0		T	4047779	T	T	4047779	3	4	186	1	0	0	0	0	1	0	0	0	17578	884	31	1	32	1	ZBTB7A	19	4047779	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	391366	4047779	55081204	226	92750											
SAFB	6294	broad.mit.edu	37	chr19	5668283	5668283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcaggcccagcgatgcccGcttcactcgccgctactgag	7	6	12	16	4	1	1	1	1	0	0	2	3	1	1	3	1	4	3	3	1	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:5668283G>A	uc002mcf.2	+	21	2782	c.2729G>A	c.(2728-2730)CGC>CAC	p.R910H	SAFB_uc002mcg.2_Missense_Mutation_p.R912H|SAFB_uc002mce.3_Missense_Mutation_p.R911H|SAFB_uc010xir.1_Missense_Mutation_p.R909H|SAFB_uc010xis.1_Missense_Mutation_p.R843H|SAFB_uc010xit.1_Missense_Mutation_p.R754H|SAFB_uc010xiu.1_Missense_Mutation_p.R711H	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	910	Interaction with SAFB2.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		AGCGATGCCCGCTTCACTCGC	0.592													11	56					0	0	0.001855	0	0		A	5668283	A	A	5668283	3	1	186	1	0	0	0	0	1	0	0	0	13831	1087	38	1	2811	1	SAFB	19	5668283	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1620504	5668283	53460700	227	92751											
TUBB4	10382	broad.mit.edu	37	chr19	6495840	6495840	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacaccaggtggttgaggtCcccgtaggtgggggtggtca	6	8	18	9	2	1	1	1	1	0	0	2	2	2	1	3	7	0	2	3	7	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:6495840C>A	uc002mfg.1	-	4	777	c.670G>T	c.(670-672)GAC>TAC	p.D224Y	TUBB4_uc002mff.1_Missense_Mutation_p.D152Y|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	224					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		TGGTTGAGGTCCCCGTAGGTG	0.627													13	150					1.52009e-12	1.71439e-12	0.003163	1	0		A	6495840	A	A	6495840	3	1	186	1	0	0	0	0	1	0	0	0	16784	855	30	5	668	5	TUBB4	19	6495840	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	827557	6495840	52633143	228	92752											
C3	718	broad.mit.edu	37	chr19	6707206	6707206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggagatgaaacgggtccggCgctggcacgagaacctcatg	10	5	16	10	4	1	3	1	1	0	2	2	5	2	3	2	4	2	2	2	4	2	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:6707206C>T	uc002mfm.2	-	17	2188	c.2126G>A	c.(2125-2127)CGC>CAC	p.R709H		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	709	Anaphylatoxin-like.				complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		ACGGGTCCGGCGCTGGCACGA	0.662													3	39					0	0	0.004672	0	0		T	6707206	T	T	6707206	3	4	186	1	0	0	0	0	1	0	0	0	2207	768	27	1	2965	1	C3	19	6707206	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	211366	6707206	52421777	229	92753											
ZNF358	140467	broad.mit.edu	37	chr19	7584566	7584566	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgctccccgcccccgccagCccgccccggcccttctcctg	1	6	9	25	4	1	0	0	0	1	0	3	0	2	0	10	1	2	1	10	1	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:7584566C>T	uc002mgn.2	+	2	608	c.438C>T	c.(436-438)AGC>AGT	p.S146S	MCOLN1_uc010dvh.1_5'Flank|MCOLN1_uc002mgo.2_5'Flank|MCOLN1_uc002mgp.2_5'Flank	NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	146					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						cccccgccagcccgccccggc	0.602													3	20					0	0	0.004672	0	0		T	7584566	T	T	7584566	2	4	186	1	0	0	0	0	0	0	0	1	17892	738	26	2		2	ZNF358	19	7584566	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	877360	7584566	51544417	230	92754											
OR7D4	125958	broad.mit.edu	37	chr19	9325365	9325365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggaggtgggagtcagagCtgacggccagaatgatgagc	10	7	18	6	1	1	5	1	3	0	2	1	7	1	7	1	4	2	1	1	4	1	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:9325365C>T	uc002mla.1	-	1	149	c.149G>A	c.(148-150)AGC>AAC	p.S50N		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGAGTCAGAGCTGACGGCCAG	0.547													19	76					0	0	0.007413	0	0		T	9325365	T	T	9325365	3	4	186	1	0	0	0	0	1	0	0	0	11239	797	28	2	793	2	OR7D4	19	9325365	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1740799	9325365	49803618	231	92755											
ZNF85	7639	broad.mit.edu	37	chr19	21131694	21131694	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaagtatggatgagtgtaAgatgcacaaaggaggttgta	15	10	14	2	0	0	3	0	2	0	1	0	5	0	5	0	3	1	5	0	3	5	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:21131694A>C	uc002npg.3	+	4	501	c.374A>C	c.(373-375)AAG>ACG	p.K125T	ZNF85_uc010ecn.2_Missense_Mutation_p.K60T|ZNF85_uc010eco.2_Missense_Mutation_p.K73T|ZNF85_uc002npi.2_Missense_Mutation_p.K66T	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	125						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						GATGAGTGTAAGATGCACAAA	0.323													10	35					0	0	0.006214	0	0		C	21131694	C	C	21131694	3	2	186	1	0	0	0	0	1	0	0	0	18218	72	3	5	388	5	ZNF85	19	21131694	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	11806329	21131694	37997289	232	92756											
ZNF208	7757	broad.mit.edu	37	chr19	22157195	22157195	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttataataagtaagggttGaggaccagttaaaagctttg	14	13	10	4	0	1	1	0	1	1	0	1	2	1	2	1	2	1	4	1	2	6	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:22157195G>T	uc002nqp.2	-	4	790	c.641C>A	c.(640-642)TCA>TAA	p.S214*	ZNF208_uc002nqo.1_Intron|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				AGTAAGGGTTGAGGACCAGTT	0.358													10	37					0.000978159	0.00101189	0.010729	1	0		T	22157195	T	T	22157195	4	4	186	1	0	0	0	0	0	1	0	0	17791	1294	45	5	3205	5	ZNF208	19	22157195	Nonsense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	1025501	22157195	36971788	233	92757											
ZNF257	113835	broad.mit.edu	37	chr19	22271400	22271400	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaattcataatagagagaAgcccttcaaatatgatgaat	18	10	8	5	0	2	5	2	2	0	3	2	7	2	5	1	0	1	0	1	0	7	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:22271400A>C	uc010ecx.2	+	4	1017	c.848A>C	c.(847-849)AAG>ACG	p.K283T	ZNF257_uc010ecy.2_Missense_Mutation_p.K251T	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				AATAGAGAGAAGCCCTTCAAA	0.388													8	22					0	0	0.004482	0	0		C	22271400	C	C	22271400	3	2	186	1	0	0	0	0	1	0	0	0	17825	72	3	5	862	5	ZNF257	19	22271400	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	114205	22271400	36857583	234	92758											
ZNF790	388536	broad.mit.edu	37	chr19	37310610	37310610	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgtctgatattgaataacTtctgaatcaggaagaaaggt	15	12	9	5	0	3	4	1	3	2	1	3	5	3	5	0	2	1	0	0	2	6	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:37310610T>G	uc002oew.2	-	5	755	c.636A>C	c.(634-636)GAA>GAC	p.E212D	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	212	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			ATTGAATAACTTCTGAATCAG	0.338													12	37					0	0	0.010729	0	0		G	37310610	G	G	37310610	3	3	186	1	0	0	0	0	1	0	0	0	18187	1606	56	5	1278	5	ZNF790	19	37310610	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	15039210	37310610	21818373	235	92759											
ZNF296	162979	broad.mit.edu	37	chr19	45575376	45575376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcatggacagccggctccGgaggggctgcagaggcctgc	7	4	17	13	2	0	1	0	0	0	1	1	3	1	3	3	6	4	4	3	6	0	0	rs143888878		TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:45575376G>A	uc002pao.2	-	3	968	c.911C>T	c.(910-912)CCG>CTG	p.P304L		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	304					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCCGGCTCCGGAGGGGCTGC	0.706													26	77					0	0	0.004656	0	0		A	45575376	A	A	45575376	3	1	186	1	0	0	0	0	1	0	0	0	17853	1116	39	1	520	1	ZNF296	19	45575376	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	8264766	45575376	13553607	236	92760											
PRR12	57479	broad.mit.edu	37	chr19	50098208	50098208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccctcttcactgggcttcGagcgcctggcagggggcggt	3	9	16	13	3	2	0	1	0	1	0	3	1	2	0	2	5	2	2	2	5	0	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:50098208G>A	uc002poo.3	+	4	616	c.616G>A	c.(616-618)GAG>AAG	p.E206K		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		ACTGGGCTTCGAGCGCCTGGC	0.701													3	8					0	0	0.004672	0	0		A	50098208	A	A	50098208	3	1	186	1	0	0	0	0	1	0	0	0	12606	1059	37	1	630	1	PRR12	19	50098208	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	4522832	50098208	9030775	237	92761											
CPT1C	126129	broad.mit.edu	37	chr19	50204612	50204612	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctggccgccacccgatgctGttcagttaccagcgctccct	5	10	9	17	3	2	0	1	0	1	0	3	1	3	0	5	1	3	4	5	1	1	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:50204612G>A	uc002ppj.2	+	5	697	c.492G>A	c.(490-492)CTG>CTA	p.L164L	CPT1C_uc002ppl.3_Intron|CPT1C_uc002ppi.2_Silent_p.L81L|CPT1C_uc002ppk.2_Silent_p.L164L|CPT1C_uc010eng.2_Silent_p.L164L|CPT1C_uc010enh.2_Silent_p.L164L|CPT1C_uc010ybc.1_Silent_p.L2L	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	164	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		ACCCGATGCTGTTCAGTTACC	0.647													9	35					0	0	0.013537	0	0		A	50204612	A	A	50204612	2	1	186	1	0	0	0	0	0	0	0	1	3836	1364	48	4		4	CPT1C	19	50204612	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	106404	50204612	8924371	238	92762											
NR1H2	7376	broad.mit.edu	37	chr19	50885722	50885722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctccctcaggaccagctgCgcttcccgcgcatgctcatg	5	9	9	18	3	2	0	2	0	0	0	5	1	5	1	4	1	3	4	4	1	0	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:50885722C>T	uc010enw.2	+	11	1525	c.1249C>T	c.(1249-1251)CGC>TGC	p.R417C	NR1H2_uc002prv.3_RNA|NR1H2_uc002prz.3_Missense_Mutation_p.R372C|NR1H2_uc002psa.3_Missense_Mutation_p.R319C|POLD1_uc002psb.3_5'Flank|POLD1_uc002psc.3_5'Flank|POLD1_uc010enx.2_5'Flank	NM_007121	NP_009052	P55055	NR1H2_HUMAN	nuclear receptor subfamily 1, group H, member 2	416	Ligand-binding (Potential).				negative regulation of cholesterol storage|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of pinocytosis|negative regulation of transcription, DNA-dependent|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		GGACCAGCTGCGCTTCCCGCG	0.677													3	15					0	0	0.004672	0	0		T	50885722	T	T	50885722	3	4	186	1	0	0	0	0	1	0	0	0	10636	768	27	1	1276	1	NR1H2	19	50885722	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	681110	50885722	8243261	239	92763											
ZNF615	284370	broad.mit.edu	37	chr19	52497583	52497583	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgtatgagttctctgatggTccattagtctggattttctg	6	18	10	7	0	3	2	0	2	3	0	5	3	4	3	1	2	0	2	1	2	2	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:52497583T>C	uc002pye.1	-	6	1038	c.746A>G	c.(745-747)GAC>GGC	p.D249G	ZNF615_uc002pyf.1_Missense_Mutation_p.D260G|ZNF615_uc002pyg.1_Missense_Mutation_p.D141G|ZNF615_uc002pyh.1_Missense_Mutation_p.D260G|ZNF615_uc010epi.1_Missense_Mutation_p.D256G|ZNF615_uc010ydg.1_Missense_Mutation_p.D254G	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	249	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TCTCTGATGGTCCATTAGTCT	0.378													32	106					0	0	0.009535	0	0		C	52497583	C	C	52497583	3	2	186	1	0	0	0	0	1	0	0	0	18065	1667	58	3	1453	3	ZNF615	19	52497583	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	1611861	52497583	6631400	240	92764											
ZNF606	80095	broad.mit.edu	37	chr19	58491010	58491010	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atattctcatattctttgtaAttatactggttttctccaac	10	20	3	8	0	3	0	1	0	3	0	5	0	3	0	1	1	2	2	1	1	6	10			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr19:58491010A>G	uc002qqw.2	-	7	1656	c.1038T>C	c.(1036-1038)AAT>AAC	p.N346N	ZNF606_uc010yhp.1_Silent_p.N256N	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	346					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		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)		ATTCTTTGTAATTATACTGGT	0.323													21	53					0	0	0.010504	0	0		G	58491010	G	G	58491010	2	3	186	1	0	0	0	0	0	0	0	1	18057	98	4	3		3	ZNF606	19	58491010	Silent	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	5993427	58491010	637973	241	92765											
C20orf160	140706	broad.mit.edu	37	chr20	30602748	30602748	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctggtgttccccaaggcCgggcgccgggcagcctgtag	5	6	17	13	3	0	0	0	0	0	0	1	0	1	0	5	5	1	4	5	5	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr20:30602748C>T	uc002wxf.2	+	2	85	c.72C>T	c.(70-72)GCC>GCT	p.A24A		NM_080625	NP_542192	Q9NUG4	CT160_HUMAN	hypothetical protein LOC140706	24										central_nervous_system(3)|ovary(1)	4						TCCCCAAGGCCGGGCGCCGGG	0.582													15	211					0	0	0.003163	0	0		T	30602748	T	T	30602748	2	4	186	1	0	0	0	0	0	0	0	1	2096	639	23	1		1	C20orf160	20	30602748	Silent	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		30602748	32422772	242	92766											
BLCAP	10904	broad.mit.edu	37	chr20	36147344	36147344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caacgccgggatcatgcgccGattctggaagcggggaatcg	9	6	15	11	6	2	0	1	0	1	0	3	4	2	3	2	4	3	0	2	4	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr20:36147344G>A	uc002xha.2	-	2	436	c.233C>T	c.(232-234)TCG>TTG	p.S78L	BLCAP_uc002xhb.2_Missense_Mutation_p.S78L|BLCAP_uc002xhc.2_Missense_Mutation_p.S78L|NNAT_uc002xhd.2_5'Flank|NNAT_uc002xhe.2_5'Flank	NM_006698	NP_006689	P62952	BLCAP_HUMAN	bladder cancer associated protein	78					apoptosis|cell cycle	integral to membrane					0		Myeloproliferative disorder(115;0.00878)				ATCATGCGCCGATTCTGGAAG	0.547													13	85					0	0	0.004007	0	0		A	36147344	A	A	36147344	3	1	186	1	0	0	0	0	1	0	0	0	1443	1059	37	1	34	1	BLCAP	20	36147344	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	5544596	36147344	26878176	243	92767											
SPINLW1	57119	broad.mit.edu	37	chr20	44174305	44174305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatctaaacatttttttcCgcagctgaagacacaacact	14	11	6	10	1	1	3	0	1	1	2	2	4	2	3	1	0	3	2	1	0	4	4	rs112762127	byFrequency	TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr20:44174305C>T	uc002xou.2	-	2	228	c.196G>A	c.(196-198)GGA>AGA	p.G66R	SPINLW1_uc010zxc.1_Missense_Mutation_p.G66R|SPINLW1_uc002xot.2_Missense_Mutation_p.G50R|SPINLW1_uc002xov.1_Missense_Mutation_p.G66R	NM_020398	NP_065131	O95925	EPPI_HUMAN	serine peptidase inhibitor-like, with Kunitz and	66	WAP.					extracellular region	serine-type endopeptidase inhibitor activity			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				CATTTTTTTCCGCAGCTGAAG	0.448													90	151					0	0	0.01441	0	0		T	44174305	T	T	44174305	3	4	186	1	0	0	0	0	1	0	0	0	15092	661	23	1	217	1	SPINLW1	20	44174305	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	8026961	44174305	18851215	244	92768											
KCNG1	3755	broad.mit.edu	37	chr20	49626481	49626481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagccgcagcttgcccgcgCgcaggaaggtcaggatagtg	8	5	16	12	4	1	0	1	0	0	0	1	2	1	2	2	3	3	4	2	3	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr20:49626481C>T	uc002xwa.3	-	2	690	c.395G>A	c.(394-396)CGC>CAC	p.R132H	KCNG1_uc002xwb.2_Missense_Mutation_p.R132H	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	132	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						CTTGCCCGCGCGCAGGAAGGT	0.647													7	76					0	0	0.001984	0	0		T	49626481	T	T	49626481	3	4	186	1	0	0	0	0	1	0	0	0	8043	768	27	1	1154	1	KCNG1	20	49626481	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	5452176	49626481	13399039	245	92769											
TMPRSS15	5651	broad.mit.edu	37	chr21	19653531	19653531	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtccacttggatggctctaAgtttctcctgaaaattgtaa	10	15	8	8	0	2	1	0	1	2	0	4	2	3	2	2	2	0	3	2	2	4	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr21:19653531A>C	uc002ykw.2	-	22	2525	c.2494T>G	c.(2494-2496)TTA>GTA	p.L832V		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	832	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						GATGGCTCTAAGTTTCTCCTG	0.373													25	57					0	0	0.004656	0	0		C	19653531	C	C	19653531	3	2	186	1	0	0	0	0	1	0	0	0	16271	69	3	5	581	5	TMPRSS15	21	19653531	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08		19653531	28476364	246	92770											
TIAM1	7074	broad.mit.edu	37	chr21	32493119	32493119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtttcgagccagccgcCgcctcctcctcccaagagac	7	7	8	19	3	0	1	0	0	0	1	4	3	3	1	8	0	2	1	8	0	1	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr21:32493119C>T	uc002yow.1	-	29	4815	c.4343G>A	c.(4342-4344)CGG>CAG	p.R1448Q	TIAM1_uc011adk.1_3'UTR|TIAM1_uc011adl.1_Missense_Mutation_p.R1388Q	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1448	Poly-Arg.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AGCCAGCCGCCGCCTCCTCCT	0.537													17	21					0	0	0.007413	0	0		T	32493119	T	T	32493119	3	4	186	1	0	0	0	0	1	0	0	0	15915	652	23	1	436	1	TIAM1	21	32493119	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	12839588	32493119	15636776	247	92771											
MN1	4330	broad.mit.edu	37	chr22	28194004	28194004	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgaaggtcacgttgaggTtgggggccccgaggctggcg	5	9	19	8	3	1	2	1	2	0	0	1	3	1	2	2	6	0	4	2	6	1	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr22:28194004T>A	uc003adj.2	-	1	3483	c.2528A>T	c.(2527-2529)AAC>ATC	p.N843I		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	843							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CACGTTGAGGTTGGGGGCCCC	0.637			T	ETV6	AML|meningioma								45	143					0	0	0.01441	0	0		A	28194004	A	A	28194004	3	1	186	1	0	0	0	0	1	0	0	0	9691	1725	60	5	1442	5	MN1	22	28194004	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08		28194004	23110562	248	92772											
RFPL1	5988	broad.mit.edu	37	chr22	29837692	29837692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcgctttacctgtggcCgccactactgggaggtggac	5	9	12	15	2	0	0	0	0	0	0	1	2	0	2	5	4	2	1	5	4	2	3	rs142632131	byFrequency	TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chr22:29837692C>T	uc003afn.2	+	2	744	c.535C>T	c.(535-537)CGC>TGC	p.R179C	RFPL1S_uc003afm.1_RNA	NM_021026	NP_066306	O75677	RFPL1_HUMAN	ret finger protein-like 1	179	B30.2/SPRY.						zinc ion binding				0						TACCTGTGGCCGCCACTACTG	0.567													26	109					0	0	0.009535	0	0		T	29837692	T	T	29837692	3	4	186	1	0	0	0	0	1	0	0	0	13278	652	23	1	541	1	RFPL1	22	29837692	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	1643688	29837692	21466874	249	92773											
CRLF2	64109	broad.mit.edu	37	chrX	1327788	1327788	+	RNA	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaagtagatgatctgaatCtgtactccttctgctagaca	11	14	8	8	0	3	5	0	3	3	2	4	5	4	5	1	0	2	3	1	0	5	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:1327788C>G	uc004cpm.1	-	2		c.93G>C						Q9HC73	CRLF2_HUMAN	Homo sapiens mRNA for IL-XR, complete cds.							extracellular region|integral to membrane|plasma membrane	receptor activity			haematopoietic_and_lymphoid_tissue(7)	7		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)				TGATCTGAATCTGTACTCCTT	0.373			Mis|T	P2RY8|IGH@	B-ALL|Downs associated ALL								27	102					0	0	0.00632	0	0		G	1327788	G	G	1327788	1	3	186	0	1	0	0	0	0	0	0	0	3890	912	32	5		5	CRLF2	23	1327788	RNA	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		1327788	153942772	250	92774											
FRMPD4	9758	broad.mit.edu	37	chrX	12627882	12627882	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgacgaccctcggttagaGagctgccaaatcatccctcc	9	10	8	14	2	1	2	1	1	0	1	4	4	3	2	4	1	2	2	4	1	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:12627882G>A	uc004cuz.1	+	3	707	c.201G>A	c.(199-201)GAG>GAA	p.E67E	FRMPD4_uc011mij.1_Silent_p.E59E	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	67					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						CTCGGTTAGAGAGCTGCCAAA	0.522													23	27					0	0	0.00278	0	0		A	12627882	A	A	12627882	2	1	186	1	0	0	0	0	0	0	0	1	6073	933	33	4		4	FRMPD4	23	12627882	Silent	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	11300094	12627882	142642678	251	92775											
RPGR	6103	broad.mit.edu	37	chrX	38176655	38176655	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgagggacacagacattaCttacattttttaaaccaatt	14	13	6	8	0	0	2	0	1	0	1	0	3	0	3	1	1	3	1	1	1	5	6			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:38176655C>G	uc004ded.1	-	6	701	c.533G>C	c.(532-534)AGT>ACT	p.S178T	RPGR_uc004deb.2_Missense_Mutation_p.S178T|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_RNA	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	178	RCC1 3.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						ACAGACATTACTTACATTTTT	0.373													3	24					0	0	0.009096	0	0		G	38176655	G	G	38176655	3	3	186	1	0	0	0	0	1	0	0	0	13573	565	20	5	3524	5	RPGR	23	38176655	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08	25548773	38176655	117093905	252	92776											
MED12	9968	broad.mit.edu	37	chrX	70347218	70347218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaagcatgggatgaaccGgtccgatggctcctctgcag	8	8	14	11	3	1	2	0	2	1	0	3	4	3	3	3	3	3	3	3	3	2	0			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:70347218G>A	uc004dyy.2	+	21	3081	c.2882G>A	c.(2881-2883)CGG>CAG	p.R961Q	MED12_uc011mpq.1_Missense_Mutation_p.R961Q|MED12_uc004dyz.2_Missense_Mutation_p.R961Q|MED12_uc004dza.2_Missense_Mutation_p.R808Q|MED12_uc010nla.2_5'Flank	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	961			R -> W (in OKS).		androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GGGATGAACCGGTCCGATGGC	0.522													9	18					0	0	0.006214	0	0		A	70347218	A	A	70347218	3	1	186	1	0	0	0	0	1	0	0	0	9446	1116	39	1	2964	1	MED12	23	70347218	Missense_Mutation	SNP	G	TCGA-D7-A4YU-01A-21D-A25D-08	32170563	70347218	84923342	253	92777											
KLHL4	56062	broad.mit.edu	37	chrX	86887303	86887303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcaatttggagtcgcagTtattgataataagctctatg	11	15	9	6	1	2	1	1	1	1	0	3	2	2	2	0	1	1	4	0	1	5	7			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:86887303T>C	uc004efb.2	+	7	1600	c.1418T>C	c.(1417-1419)GTT>GCT	p.V473A	KLHL4_uc004efa.2_Missense_Mutation_p.V473A	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	473	Kelch 1.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GGAGTCGCAGTTATTGATAAT	0.403													16	28					0	0	0.004007	0	0		C	86887303	C	C	86887303	3	2	186	1	0	0	0	0	1	0	0	0	8407	1725	60	3	1444	3	KLHL4	23	86887303	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	16540085	86887303	68383257	254	92778											
CPXCR1	53336	broad.mit.edu	37	chrX	88008710	88008710	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagacccccattcccagaAaattggtctctcacaagccc	11	9	5	16	0	3	2	2	0	1	2	5	2	4	2	4	1	1	0	4	1	3	3			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:88008710A>T	uc004efd.3	+	3	554	c.295A>T	c.(295-297)AAA>TAA	p.K99*	CPXCR1_uc004efc.3_Nonsense_Mutation_p.K99*	NM_033048	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	99						intracellular	zinc ion binding			ovary(3)	3						CATTCCCAGAAAATTGGTCTC	0.408													12	6					0	0	0.001855	0	0		T	88008710	T	T	88008710	4	4	186	1	0	0	0	0	0	1	0	0	3839	15	1	5	297	5	CPXCR1	23	88008710	Nonsense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	1121407	88008710	67261850	255	92779											
DCAF12L2	340578	broad.mit.edu	37	chrX	125298766	125298766	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggccctctcctccaggaacTtctgggcgcggatgtcatag	7	9	12	13	2	3	0	1	0	2	0	5	2	4	2	3	4	1	0	3	4	2	2			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:125298766T>G	uc004euk.1	-	1	1169	c.1142A>C	c.(1141-1143)AAG>ACG	p.K381T		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	381	WD 4.									lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						CTCCAGGAACTTCTGGGCGCG	0.632													32	40					0	0	0.003755	0	0		G	125298766	G	G	125298766	3	3	186	1	0	0	0	0	1	0	0	0	4268	1609	56	5	253	5	DCAF12L2	23	125298766	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	37290056	125298766	29971794	256	92780											
GABRE	2564	broad.mit.edu	37	chrX	151123878	151123878	+	Missense_Mutation	SNP	T	G	G	0	1	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	agcatgggcttttgtctggtTgtagatcaggaagttgagca	9	13	14	5	0	2	2	1	1	1	1	2	3	2	3	0	3	2	6	0	3	2	5			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:151123878T>G	uc004ffi.2	-	8	1153	c.1099A>C	c.(1099-1101)AAC>CAC	p.N367H	GABRE_uc011myd.1_RNA	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	367	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TTTGTCTGGTTGTAGATCAGG	0.493													10	27					0	0	0.008291	0	0		G	151123878	G	G	151123878	3	3	186	1	0	0	0	0	1	0	0	0	6184	1812	63	5	429	5	GABRE	23	151123878	Missense_Mutation	SNP	T	TCGA-D7-A4YU-01A-21D-A25D-08	25825112	151123878	4146682	257	92781											
PNMA3	29944	broad.mit.edu	37	chrX	152226465	152226465	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagtctggaggggctggaAgtagccccaaggccacctgc	9	5	16	11	0	1	1	0	0	1	1	1	4	1	3	4	5	2	2	4	5	3	1			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrX:152226465A>T	uc004fhc.2	+	2	1389	c.1053A>T	c.(1051-1053)GAA>GAT	p.E351D	PNMA5_uc004fha.3_5'Flank|PNMA3_uc004fhd.2_5'Flank	NM_013364	NP_037496	Q9UL41	PNMA3_HUMAN	paraneoplastic cancer-testis-brain antigen	351					apoptosis	nucleolus	nucleic acid binding|zinc ion binding			skin(2)|large_intestine(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					AGGGGCTGGAAGTAGCCCCAA	0.428													11	12					0	0	0.008291	0	0		T	152226465	T	T	152226465	3	4	186	1	0	0	0	0	1	0	0	0	12174	69	3	5	1055	5	PNMA3	23	152226465	Missense_Mutation	SNP	A	TCGA-D7-A4YU-01A-21D-A25D-08	1102587	152226465	3044095	258	92782											
SRY	6736	broad.mit.edu	37	chrY	2655179	2655179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgttgtccagttgcacttCgctgcagagtaccgaagcgg	7	10	12	12	3	0	1	0	0	0	1	2	2	1	1	3	1	4	6	3	1	2	4			TCGA-D7-A4YU-01A-21D-A25D-08	TCGA-D7-A4YU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	63220bf2-a703-4487-b97c-3be4140b4f0d	63ddf1ce-74da-436e-ab08-d445c7b1860a	g.chrY:2655179C>T	uc004fqg.1	-	1	614	c.466G>A	c.(466-468)GAA>AAA	p.E156K		NM_003140	NP_003131	Q05066	SRY_HUMAN	sex determining region Y	156					cell differentiation|male sex determination|positive regulation of transcription, DNA-dependent|sex differentiation	cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0						AGTTGCACTTCGCTGCAGAGT	0.527									Swyer_syndrome				7	4					0	0	0.001984	0	0		T	2655179	T	T	2655179	3	4	186	1	0	0	0	0	1	0	0	0	15199	893	31	1	152	1	SRY	24	2655179	Missense_Mutation	SNP	C	TCGA-D7-A4YU-01A-21D-A25D-08		2655179	56718387	259	92783											
KIAA1751	85452	broad.mit.edu	37	chr1	1919973	1919973	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcttctcagtgaaaagctCttgctcctcatgcatcttat	9	15	5	12	0	5	1	2	1	4	0	7	1	6	1	1	0	3	3	1	0	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:1919973C>A	uc001aim.1	-	4	430	c.274G>T	c.(274-276)GAG>TAG	p.E92*	KIAA1751_uc009vkz.1_Nonsense_Mutation_p.E92*|KIAA1751_uc001ain.1_Nonsense_Mutation_p.E92*	NM_001080484	NP_001073953	Q9C0B2	K1751_HUMAN	hypothetical protein LOC85452	92										pancreas(1)	1	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;6.04e-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)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;8.79e-39)|OV - Ovarian serous cystadenocarcinoma(86;9.61e-25)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;4.84e-05)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		GTGAAAAGCTCTTGCTCCTCA	0.562													19	58					1.33834e-09	1.4209e-09	1	1	0		A	1919973	A	A	1919973	4	1	187	1	0	0	0	0	0	1	0	0	8272	922	32	5	2074	5	KIAA1751	1	1919973	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		1919973	247330648	1	92784											
MORN1	79906	broad.mit.edu	37	chr1	2318864	2318864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgggcgccagaccttcccGcatgccgtgggagacctccc	5	7	13	16	3	0	2	0	0	0	2	2	3	2	2	6	2	1	1	6	2	0	1	rs144594161	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:2318864G>A	uc001ajb.1	-	4	373	c.352C>T	c.(352-354)CGG>TGG	p.R118W	MORN1_uc009vld.2_Missense_Mutation_p.R94W|MORN1_uc001ajd.1_Missense_Mutation_p.R118W|MORN1_uc010nyy.1_Silent_p.C60C	NM_024848	NP_079124	Q5T089	MORN1_HUMAN	MORN repeat containing 1	118	MORN 4.									ovary(2)|central_nervous_system(1)	3	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)		AGACCTTCCCGCATGCCGTGG	0.602													21	102					0	0	1	0	0		A	2318864	A	A	2318864	3	1	187	1	0	0	0	0	1	0	0	0	9726	1086	38	1	1185	1	MORN1	1	2318864	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	398891	2318864	246931757	2	92785											
SLC2A5	6518	broad.mit.edu	37	chr1	9118284	9118284	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	caaaggcagctatcagggttGccagggcaagcacaagcgtc	12	5	13	11	1	1	0	1	0	0	0	2	0	1	0	1	3	4	5	1	3	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:9118284G>A	uc001apo.2	-	2	351	c.59C>T	c.(58-60)GCA>GTA	p.A20V	SLC2A5_uc010nzz.1_Intron|SLC2A5_uc010oaa.1_5'UTR|SLC2A5_uc010oab.1_Missense_Mutation_p.A20V|SLC2A5_uc010oac.1_Missense_Mutation_p.A20V|SLC2A5_uc001app.3_Missense_Mutation_p.A20V	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	20	Helical; Name=1; (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		TATCAGGGTTGCCAGGGCAAG	0.572													14	37					0	0	1	0	0		A	9118284	A	A	9118284	3	1	187	1	0	0	0	0	1	0	0	0	14573	1319	46	2	1654	2	SLC2A5	1	9118284	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6799420	9118284	240132337	3	92786											
NMNAT1	64802	broad.mit.edu	37	chr1	10032227	10032227	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttgtttgagctggccaaGgactacatgaatggaacagg	12	9	14	6	0	0	2	0	2	0	0	0	4	0	4	1	5	3	3	1	5	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:10032227G>A	uc001aqp.2	+	2	240	c.96G>A	c.(94-96)AAG>AAA	p.K32K		NM_022787	NP_073624	Q9HAN9	NMNA1_HUMAN	nicotinamide mononucleotide adenylyltransferase	32					water-soluble vitamin metabolic process	nucleoplasm	ATP binding|nicotinamide-nucleotide adenylyltransferase activity|nicotinate-nucleotide adenylyltransferase activity|protein binding				0		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;6.31e-08)|COAD - Colon adenocarcinoma(227;1.54e-05)|Kidney(185;0.00028)|BRCA - Breast invasive adenocarcinoma(304;0.00032)|KIRC - Kidney renal clear cell carcinoma(229;0.00101)|STAD - Stomach adenocarcinoma(132;0.00908)|READ - Rectum adenocarcinoma(331;0.0419)		AGCTGGCCAAGGACTACATGA	0.363													48	146					0	0	1	0	0		A	10032227	A	A	10032227	2	1	187	1	0	0	0	0	0	0	0	1	10517	991	35	4		4	NMNAT1	1	10032227	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	913943	10032227	239218394	4	92787											
AADACL3	126767	broad.mit.edu	37	chr1	12779578	12779578	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcccgatgttgtggtcacGgatttccgctttgggacaat	7	13	12	9	3	1	0	1	0	0	0	3	4	3	2	2	3	0	2	2	3	1	3	rs139336643	by1000genomes	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:12779578G>A	uc009vnn.1	+	2	332	c.99G>A	c.(97-99)ACG>ACA	p.T33T	AADACL3_uc001aug.1_Intron	NM_001103170	NP_001096640	Q5VUY0	ADCL3_HUMAN	arylacetamide deacetylase-like 3 isoform 1	33							hydrolase activity				0	Ovarian(185;0.249)	Lung NSC(185;8.27e-05)|all_lung(284;9.47e-05)|Renal(390;0.000147)|Colorectal(325;0.000583)|Breast(348;0.000596)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.00217)|KIRC - Kidney renal clear cell carcinoma(229;0.00579)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		TTGTGGTCACGGATTTCCGCT	0.512													33	116					0	0	1	0	0		A	12779578	A	A	12779578	2	1	187	1	0	0	0	0	0	0	0	1	12	1103	39	1		1	AADACL3	1	12779578	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2747351	12779578	236471043	5	92788											
PRAMEF1	65121	broad.mit.edu	37	chr1	12853598	12853598	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactgatgaagacgcttcaTttggagaccttaaaagcatt	13	12	8	8	1	2	4	2	2	0	2	2	5	2	4	1	1	1	2	1	1	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:12853598T>C	uc001auj.1	+	2	325	c.222T>C	c.(220-222)CAT>CAC	p.H74H		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	74											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGACGCTTCATTTGGAGACCT	0.557													37	108					0	0	1	0	0		C	12853598	C	C	12853598	2	2	187	1	0	0	0	0	0	0	0	1	12447	1490	52	3		3	PRAMEF1	1	12853598	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	74020	12853598	236397023	6	92789											
LOC649330	649330	broad.mit.edu	37	chr1	12908041	12908041	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatacttggaaaagatcgcCtccacatccgatttcttgac	11	11	6	13	2	1	2	0	1	1	1	4	4	3	3	4	1	1	0	4	1	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:12908041C>A	uc009vno.2	-	1	197	c.102G>T	c.(100-102)GAG>GAT	p.E34D	HNRNPCL1_uc010obf.1_Missense_Mutation_p.E34D	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	34							nucleic acid binding|nucleotide binding				0						AAAAGATCGCCTCCACATCCG	0.473													20	213					2.27731e-05	2.35911e-05	1	1	0		A	12908041	A	A	12908041	3	1	187	1	0	0	0	0	1	0	0	0	8903	680	24	5	783	5	LOC649330	1	12908041	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	54443	12908041	236342580	7	92790											
TAS1R2	80834	broad.mit.edu	37	chr1	19166144	19166144	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgctgttgaagtaggcgggCgtgttgcgctccgggtagaa	7	10	17	7	4	0	2	0	1	0	1	1	2	1	2	1	3	2	6	1	3	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:19166144C>T	uc001bba.1	-	6	2470	c.2469G>A	c.(2467-2469)ACG>ACA	p.T823T		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	823	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		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)	AGTAGGCGGGCGTGTTGCGCT	0.612													18	44					0	0	1	0	0		T	19166144	T	T	19166144	2	4	187	1	0	0	0	0	0	0	0	1	15588	755	27	1		1	TAS1R2	1	19166144	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6258103	19166144	230084477	8	92791											
UBR4	23352	broad.mit.edu	37	chr1	19423058	19423058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgaaatctctgatccctgCgagtctgttaagcatgcatt	9	14	8	10	1	2	2	0	2	2	0	4	3	3	2	1	0	3	3	1	0	2	3	rs142148172		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:19423058C>T	uc001bbi.2	-	92	13481	c.13477G>A	c.(13477-13479)GCA>ACA	p.A4493T	UBR4_uc010ocv.1_Missense_Mutation_p.A56T|UBR4_uc009vph.2_Missense_Mutation_p.A127T|UBR4_uc010ocw.1_Missense_Mutation_p.A157T|UBR4_uc001bbg.2_Missense_Mutation_p.A204T|UBR4_uc001bbh.2_Missense_Mutation_p.A202T	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	4493					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CTGATCCCTGCGAGTCTGTTA	0.498													58	209					0	0	1	0	0		T	19423058	T	T	19423058	3	4	187	1	0	0	0	0	1	0	0	0	16930	768	27	1	2134	1	UBR4	1	19423058	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	256914	19423058	229827563	9	92792											
HTR6	3362	broad.mit.edu	37	chr1	19992867	19992867	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggtgccatatgcttcacCtactgcaggatcctgctagc	7	11	10	13	1	1	0	1	0	0	0	3	1	2	1	3	2	6	3	3	2	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:19992867C>A	uc001bcl.2	+	1	1088	c.621C>A	c.(619-621)ACC>ACA	p.T207T		NM_000871	NP_000862	P50406	5HT6R_HUMAN	5-hydroxytryptamine (serotonin) receptor 6	207	Helical; Name=5; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	histamine receptor activity|protein binding			ovary(1)	1		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)	Granisetron(DB00889)|Ondansetron(DB00904)|Sertindole(DB06144)	TATGCTTCACCTACTGCAGGA	0.667													24	69					1.66031e-10	1.77332e-10	1	1	0		A	19992867	A	A	19992867	2	1	187	1	0	0	0	0	0	0	0	1	7467	668	24	5		5	HTR6	1	19992867	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	569809	19992867	229257754	10	92793											
UBXN11	91544	broad.mit.edu	37	chr1	26610635	26610635	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttagcattggcctcacctGcaaggtgtccctgatggggc	7	10	13	11	0	1	1	1	1	0	0	2	1	2	1	3	4	2	3	3	4	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:26610635G>T	uc001blw.2	-	13	1348	c.1075C>A	c.(1075-1077)CAG>AAG	p.Q359K	UBXN11_uc001blz.1_Missense_Mutation_p.Q326K|UBXN11_uc001blv.2_Missense_Mutation_p.Q321K|UBXN11_uc001bly.2_Missense_Mutation_p.Q239K|UBXN11_uc001blx.2_Missense_Mutation_p.Q117K|UBXN11_uc001bma.2_Missense_Mutation_p.Q326K|UBXN11_uc001bmb.1_Missense_Mutation_p.Q359K	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	359						cytoplasm|cytoskeleton				ovary(1)	1						GGCCTCACCTGCAAGGTGTCC	0.577													48	144					1.54886e-18	1.70375e-18	1	1	0		T	26610635	T	T	26610635	3	4	187	1	0	0	0	0	1	0	0	0	16939	1328	46	5	503	5	UBXN11	1	26610635	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6617768	26610635	222639986	11	92794											
BAI2	576	broad.mit.edu	37	chr1	32207741	32207741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgccacgctgcacttccGgctgcgctgttgggtcccat	3	9	12	17	4	0	0	0	0	0	0	2	0	2	0	4	2	2	5	4	2	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:32207741G>A	uc001btn.2	-	8	1684	c.1330C>T	c.(1330-1332)CGG>TGG	p.R444W	BAI2_uc010ogo.1_Missense_Mutation_p.R86W|BAI2_uc010ogp.1_Missense_Mutation_p.R377W|BAI2_uc010ogq.1_Missense_Mutation_p.R444W|BAI2_uc001bto.2_Missense_Mutation_p.R444W|BAI2_uc001btq.1_Missense_Mutation_p.R377W|BAI2_uc010ogr.1_Missense_Mutation_p.R377W	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	444	TSP type-1 3.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		CTGCACTTCCGGCTGCGCTGT	0.667													16	43					0	0	1	0	0		A	32207741	A	A	32207741	3	1	187	1	0	0	0	0	1	0	0	0	1300	1115	39	1	3531	1	BAI2	1	32207741	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5597106	32207741	217042880	12	92795											
CSMD2	114784	broad.mit.edu	37	chr1	34238278	34238278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaaacttgagtgtgtcacCgtggtgaaaccgggagcctt	9	10	12	10	2	2	2	2	2	0	0	2	3	2	3	3	2	3	0	3	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:34238278C>T	uc001bxn.1	-	13	1647	c.1618G>A	c.(1618-1620)GGT>AGT	p.G540S	CSMD2_uc001bxm.1_Missense_Mutation_p.G580S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	540	Sushi 3.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGTGTGTCACCGTGGTGAAAC	0.542													33	90					0	0	1	0	0		T	34238278	T	T	34238278	3	4	187	1	0	0	0	0	1	0	0	0	3948	652	23	1	9073	1	CSMD2	1	34238278	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2030537	34238278	215012343	13	92796											
CSMD2	114784	broad.mit.edu	37	chr1	34401395	34401395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggggaagtcccacgtggcGctgttctcagagccagcgtg	7	7	16	11	3	1	1	1	0	1	1	3	2	2	2	2	3	2	2	2	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:34401395G>A	uc001bxn.1	-	4	587	c.558C>T	c.(556-558)AGC>AGT	p.S186S	CSMD2_uc001bxm.1_Silent_p.S226S	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	186	Sushi 1.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CCCACGTGGCGCTGTTCTCAG	0.632													21	48					0	0	1	0	0		A	34401395	A	A	34401395	2	1	187	1	0	0	0	0	0	0	0	1	3948	1078	38	1		1	CSMD2	1	34401395	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	163117	34401395	214849226	14	92797											
COL9A2	1298	broad.mit.edu	37	chr1	40775807	40775807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagtggcaccgatagcGcccaccatgcctttatatcc	8	8	9	16	2	0	0	0	0	0	0	1	1	1	0	6	2	2	1	6	2	3	4	rs150444024	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:40775807G>A	uc001cfh.1	-	15	838	c.768C>T	c.(766-768)GGC>GGT	p.G256G	COL9A2_uc001cfi.1_Silent_p.G75G	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	256	Triple-helical region 3 (COL3).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	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;2.08e-17)			CACCGATAGCGCCCACCATGC	0.617													38	84					0	0	1	0	0		A	40775807	A	A	40775807	2	1	187	1	0	0	0	0	0	0	0	1	3711	1074	38	1		1	COL9A2	1	40775807	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6374412	40775807	208474814	15	92798											
HIVEP3	59269	broad.mit.edu	37	chr1	42045430	42045430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctgtcatgcggggcttgcggGagctggatggcacaagcctt	6	9	16	10	2	1	0	1	0	0	0	1	2	1	2	1	5	4	3	1	5	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:42045430G>A	uc001cgz.3	-	4	6252	c.5039C>T	c.(5038-5040)TCC>TTC	p.S1680F	HIVEP3_uc001cha.3_Missense_Mutation_p.S1680F|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1680					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GGGCTTGCGGGAGCTGGATGG	0.512													19	68					0	0	1	0	0		A	42045430	A	A	42045430	3	1	187	1	0	0	0	0	1	0	0	0	7204	1174	41	4	2205	4	HIVEP3	1	42045430	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1269623	42045430	207205191	16	92799											
ZNF691	51058	broad.mit.edu	37	chr1	43317170	43317170	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcaagagcttcagccagagtGccacgctagctgtgcatcac	10	7	11	13	1	2	2	2	0	0	2	2	2	2	2	2	0	5	5	2	0	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:43317170G>A	uc001cih.2	+	2	673	c.622G>A	c.(622-624)GCC>ACC	p.A208T	ZNF691_uc001cig.2_Missense_Mutation_p.A181T|ZNF691_uc009vwm.2_Missense_Mutation_p.A201T	NM_015911	NP_056995	Q5VV52	ZN691_HUMAN	zinc finger protein 691	212	C2H2-type 4.					nucleus	DNA binding|zinc ion binding			ovary(2)	2	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CAGCCAGAGTGCCACGCTAGC	0.602													19	64					0	0	1	0	0		A	43317170	A	A	43317170	3	1	187	1	0	0	0	0	1	0	0	0	18121	1319	46	2	543	2	ZNF691	1	43317170	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1271740	43317170	205933451	17	92800											
PTPRF	5792	broad.mit.edu	37	chr1	44069448	44069448	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttcggcaaggatgaccaGcacttcacagtcaccggcct	10	8	10	13	2	2	1	2	1	0	0	3	3	2	2	3	3	1	2	3	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:44069448G>A	uc001cjr.2	+	16	2965	c.2625G>A	c.(2623-2625)CAG>CAA	p.Q875Q	PTPRF_uc001cjs.2_Silent_p.Q866Q|PTPRF_uc001cju.2_Intron|PTPRF_uc009vwt.2_Silent_p.Q435Q|PTPRF_uc001cjv.2_Silent_p.Q335Q|PTPRF_uc001cjw.2_Silent_p.Q101Q	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	875	Extracellular (Potential).|Fibronectin type-III 6.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGGATGACCAGCACTTCACAG	0.622													16	72					0	0	1	0	0		A	44069448	A	A	44069448	2	1	187	1	0	0	0	0	0	0	0	1	12826	962	34	2		2	PTPRF	1	44069448	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	752278	44069448	205181173	18	92801											
TMEM53	79639	broad.mit.edu	37	chr1	45120567	45120567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaacaggcgcagcatggcGgcccggcgctccaggatggc	8	3	16	14	4	0	0	0	0	0	0	1	1	1	1	2	6	3	4	2	6	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:45120567G>A	uc001cmc.2	-	3	534	c.498C>T	c.(496-498)GCC>GCT	p.A166A	TMEM53_uc001cmb.1_Intron|TMEM53_uc001cmd.2_Silent_p.A93A|TMEM53_uc009vxh.1_Silent_p.A49A|TMEM53_uc010ola.1_Silent_p.A49A	NM_024587	NP_078863	Q6P2H8	TMM53_HUMAN	transmembrane protein 53	166						integral to membrane				ovary(2)	2	Acute lymphoblastic leukemia(166;0.155)					GCAGCATGGCGGCCCGGCGCT	0.662													12	34					0	0	1	0	0		A	45120567	A	A	45120567	2	1	187	1	0	0	0	0	0	0	0	1	16204	1103	39	1		1	TMEM53	1	45120567	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1051119	45120567	204130054	19	92802											
PTCH2	8643	broad.mit.edu	37	chr1	45292983	45292983	+	Splice_Site	SNP	T	C	C	0	1	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	tcaaaggcagcctggattccTgggggagaccaggatagggt	10	7	16	8	0	1	1	1	0	0	1	2	4	2	3	3	6	1	1	3	6	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:45292983T>C	uc010olf.1	-	16	2384	c.2372_splice	c.e16-1	p.G791_splice	PTCH2_uc010olg.1_Splice_Site_p.G489_splice	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2						protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					CCTGGATTCCTGGGGGAGACC	0.642									Basal_Cell_Nevus_syndrome				28	90					0	0	1	0	0		C	45292983	C	C	45292983	5	2	187	1	0	0	0	0	0	0	1	0	12753	1594	55	3	1289	3	PTCH2	1	45292983	Splice_Site	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	172416	45292983	203957638	20	92803											
CYP4B1	1580	broad.mit.edu	37	chr1	47279636	47279636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactctgttgatgcagcagCgccttgtgtccttccagtac	6	13	9	13	1	2	1	1	1	1	0	4	1	4	1	3	0	4	4	3	0	1	4	rs144659997	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:47279636C>T	uc001cqm.3	+	6	757	c.673C>T	c.(673-675)CGC>TGC	p.R225C	CYP4B1_uc009vyl.1_Missense_Mutation_p.R62C|CYP4B1_uc001cqn.3_Missense_Mutation_p.R226C|CYP4B1_uc009vym.2_Missense_Mutation_p.R211C|CYP4B1_uc010omk.1_Missense_Mutation_p.R62C|CYP4B1_uc010oml.1_Missense_Mutation_p.R63C	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	225					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					GATGCAGCAGCGCCTTGTGTC	0.582													32	145					0	0	1	0	0		T	47279636	T	T	47279636	3	4	187	1	0	0	0	0	1	0	0	0	4188	768	27	1	698	1	CYP4B1	1	47279636	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1986653	47279636	201970985	21	92804											
SLC5A9	200010	broad.mit.edu	37	chr1	48701406	48701406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgtctctccccaggtctgCgggggctgatgattgccgtg	3	11	14	13	3	2	2	0	2	2	0	5	2	3	2	3	3	2	1	3	3	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:48701406C>T	uc001cro.2	+	10	1199	c.1147C>T	c.(1147-1149)CGG>TGG	p.R383W	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Missense_Mutation_p.R408W|SLC5A9_uc010omt.1_Missense_Mutation_p.R397W|SLC5A9_uc001crp.2_Missense_Mutation_p.R50W|SLC5A9_uc010omu.1_Missense_Mutation_p.R50W	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	383	Extracellular (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						CCCAGGTCTGCGGGGGCTGAT	0.582													12	34					0	0	1	0	0		T	48701406	T	T	48701406	3	4	187	1	0	0	0	0	1	0	0	0	14697	759	27	1	1264	1	SLC5A9	1	48701406	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1421770	48701406	200549215	22	92805											
DNAJC6	9829	broad.mit.edu	37	chr1	65852598	65852598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtcaaccattgggagcCggctacaggctaaggtatgg	10	8	15	8	1	1	1	1	1	0	0	1	2	1	2	2	6	3	3	2	6	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:65852598C>T	uc001dcd.1	+	8	1092	c.928C>T	c.(928-930)CGG>TGG	p.R310W	DNAJC6_uc001dcc.1_Missense_Mutation_p.R341W|DNAJC6_uc010opc.1_Missense_Mutation_p.R297W|DNAJC6_uc001dce.1_Missense_Mutation_p.R367W	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	310	C2 tensin-type.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						CATTGGGAGCCGGCTACAGGC	0.428													27	80					0	0	1	0	0		T	65852598	T	T	65852598	3	4	187	1	0	0	0	0	1	0	0	0	4659	643	23	1	958	1	DNAJC6	1	65852598	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	17151192	65852598	183398023	23	92806											
IL23R	149233	broad.mit.edu	37	chr1	67724745	67724745	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgaggagttgccatctatTaatacttattttccacaaaa	15	14	5	7	0	1	1	0	1	1	0	2	2	2	2	2	1	2	1	2	1	7	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:67724745T>C	uc001ddo.2	+	11	1909	c.1824T>C	c.(1822-1824)ATT>ATC	p.I608I	IL23R_uc009waz.2_Silent_p.I405I|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Silent_p.I206I|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Silent_p.I190I|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Silent_p.I354I|IL23R_uc010opn.1_Silent_p.I453I|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Silent_p.I405I|IL23R_uc010opt.1_Silent_p.I249I|IL23R_uc010opu.1_Silent_p.I304I|IL23R_uc010opv.1_Silent_p.I366I|IL23R_uc010opw.1_Silent_p.I243I|IL23R_uc010opx.1_Silent_p.I249I|IL23R_uc010opy.1_Silent_p.I375I|IL23R_uc010opz.1_Silent_p.I249I|IL23R_uc010oqa.1_Silent_p.I249I|IL23R_uc010oqb.1_Silent_p.I437I|IL23R_uc010oqc.1_Silent_p.I324I|IL23R_uc010oqd.1_Silent_p.I243I|IL23R_uc010oqe.1_Silent_p.I206I|IL23R_uc010oqf.1_Silent_p.I206I|IL23R_uc010oqg.1_Silent_p.I206I|IL23R_uc010oqh.1_Silent_p.I249I|IL23R_uc001dds.2_Silent_p.I353I|IL23R_uc001ddt.2_Silent_p.I206I	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	608	Cytoplasmic (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						TGCCATCTATTAATACTTATT	0.388													18	61					0	0	1	0	0		C	67724745	C	C	67724745	2	2	187	1	0	0	0	0	0	0	0	1	7692	1742	61	3		3	IL23R	1	67724745	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1872147	67724745	181525876	24	92807											
HHLA3	11147	broad.mit.edu	37	chr1	70820683	70820683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttaaaccctccggatctgagCctcccgcagaggaatgcaga	11	7	10	13	2	1	3	0	1	1	2	3	5	3	5	4	2	3	2	4	2	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:70820683C>T	uc001dfa.2	+	1	191	c.49C>T	c.(49-51)CCT>TCT	p.P17S	ANKRD13C_uc001dex.3_5'Flank|ANKRD13C_uc009wbk.2_5'Flank|ANKRD13C_uc001dey.3_5'Flank|HHLA3_uc010oqp.1_RNA|HHLA3_uc001dfb.2_Missense_Mutation_p.P17S|HHLA3_uc001dfc.2_Missense_Mutation_p.P17S	NM_001036645	NP_001031722	Q9XRX5	HHLA3_HUMAN	HERV-H LTR-associating 3 isoform 2	17							protein binding				0						CGGATCTGAGCCTCCCGCAGA	0.468													5	46					0	0	1	0	0		T	70820683	T	T	70820683	3	4	187	1	0	0	0	0	1	0	0	0	7112	739	26	2	51	2	HHLA3	1	70820683	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3095938	70820683	178429938	25	92808											
LRRIQ3	127255	broad.mit.edu	37	chr1	74648472	74648472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tattctttaactttgcaaacCcattgtcatgaagatagagt	13	15	6	7	0	2	3	1	1	1	2	2	3	2	3	1	0	3	1	1	0	5	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:74648472C>A	uc001dfy.3	-	3	515	c.323G>T	c.(322-324)GGG>GTG	p.G108V	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	108	LRR 3.									ovary(2)	2						CTTTGCAAACCCATTGTCATG	0.313													12	35					0.0167234	0.0169136	1	1	0		A	74648472	A	A	74648472	3	1	187	1	0	0	0	0	1	0	0	0	9048	623	22	5	1575	5	LRRIQ3	1	74648472	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3827789	74648472	174602149	26	92809											
SSX2IP	117178	broad.mit.edu	37	chr1	85136860	85136860	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aattatttagacttaattacCtgaagacagacctggatctg	14	13	7	7	0	1	4	0	1	1	3	1	5	1	5	2	1	1	0	2	1	6	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:85136860C>A	uc001dkh.2	-	3	318	c.43G>T	c.(43-45)GAA>TAA	p.E15*	SSX2IP_uc001dkf.2_5'Flank|SSX2IP_uc001dkg.2_RNA|SSX2IP_uc010orz.1_Intron|SSX2IP_uc001dki.2_Nonsense_Mutation_p.E15*|SSX2IP_uc010osa.1_Intron|SSX2IP_uc001dkj.2_Nonsense_Mutation_p.E15*|SSX2IP_uc009wci.2_Intron|SSX2IP_uc001dkk.1_Intron	NM_014021	NP_054740	Q9Y2D8	ADIP_HUMAN	synovial sarcoma, X breakpoint 2 interacting	15					cell adhesion	nucleus|protein complex				ovary(2)	2				all cancers(265;0.0053)|Epithelial(280;0.0214)|OV - Ovarian serous cystadenocarcinoma(397;0.173)		ACTTAATTACCTGAAGACAGA	0.343													11	52					5.16669e-11	5.54613e-11	1	1	0		A	85136860	A	A	85136860	4	1	187	1	0	0	0	0	0	1	0	0	15229	695	24	5	1853	5	SSX2IP	1	85136860	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	10488388	85136860	164113761	27	92810											
CLCA4	22802	broad.mit.edu	37	chr1	87025638	87025638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtgactacagcttctacGtacctgtttgaagccacaga	11	11	9	10	1	1	3	0	2	1	1	1	3	1	3	2	1	5	3	2	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:87025638G>A	uc009wcs.2	+	2	227	c.183G>A	c.(181-183)ACG>ACA	p.T61T	CLCA4_uc009wct.2_5'UTR|CLCA4_uc009wcu.2_5'UTR	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	61						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		CAGCTTCTACGTACCTGTTTG	0.348													36	122					0	0	1	0	0		A	87025638	A	A	87025638	2	1	187	1	0	0	0	0	0	0	0	1	3462	1132	40	1		1	CLCA4	1	87025638	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1888778	87025638	162224983	28	92811											
CLCA4	22802	broad.mit.edu	37	chr1	87043755	87043755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccaggctgggtagtgaacGgtgagtaactcatgatattt	11	12	12	6	1	1	3	1	3	0	0	1	3	1	3	1	3	3	3	1	3	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:87043755G>A	uc009wcs.2	+	12	2166	c.2122G>A	c.(2122-2124)GGG>AGG	p.G708R	CLCA4_uc009wct.2_Missense_Mutation_p.G471R|CLCA4_uc009wcu.2_Missense_Mutation_p.G528R	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4	708						apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		GGTAGTGAACGGTGAGTAACT	0.388													5	21					0	0	1	0	0		A	87043755	A	A	87043755	3	1	187	1	0	0	0	0	1	0	0	0	3462	1130	39	1	2168	1	CLCA4	1	87043755	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	18117	87043755	162206866	29	92812											
HFM1	164045	broad.mit.edu	37	chr1	91781980	91781980	+	Frame_Shift_Del	DEL	T	-	-																															ccttgcatctgtctcttctaTttttttaaaggaagtcaaac																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:91781980delT	uc001doa.3	-	26	2966	c.2866delA	c.(2866-2868)ATAfs	p.I956fs	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Frame_Shift_Del_p.I635fs|HFM1_uc001dob.3_Frame_Shift_Del_p.I144fs|HFM1_uc010osv.1_Frame_Shift_Del_p.I640fs	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	956	SEC63.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		GTCTCTTCTATTTTTTTAAAG	0.294													42	86	---	---	---	---						.	-	91781980	-	-	91781980	7	5	187	1	0	1	0	1	0	0	0	0	7099	1493	52	0	1497	0	HFM1	1	91781980	Frame_Shift_Del	DEL	T	TCGA-D7-A4YV-01A-11D-A25D-08	4738225	91781980	157468641	30	92813											
BTBD8	284697	broad.mit.edu	37	chr1	92568203	92568203	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaggatatcagtgacaGagatgatgatttcatttcca	13	12	9	7	0	2	5	2	3	0	2	4	7	4	6	2	1	0	0	2	1	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:92568203G>T	uc001doo.2	+	3	788	c.521G>T	c.(520-522)AGA>ATA	p.R174I	BTBD8_uc010otc.1_RNA	NM_183242	NP_899065	Q5XKL5	BTBD8_HUMAN	BTB (POZ) domain containing 8	174						nucleus				ovary(1)	1		all_lung(203;0.0484)|Lung NSC(277;0.126)|Glioma(108;0.222)		all cancers(265;0.0153)|Epithelial(280;0.0982)		ATCAGTGACAGAGATGATGAT	0.333													12	49					0.000978159	0.000999708	1	1	0		T	92568203	T	T	92568203	3	4	187	1	0	0	0	0	1	0	0	0	1550	942	33	5	531	5	BTBD8	1	92568203	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	786223	92568203	156682418	31	92814											
ABCA4	24	broad.mit.edu	37	chr1	94520763	94520763	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaagctgaattcgtcccCttccgtgggactgttcccga	7	10	11	13	3	0	1	0	1	0	0	4	4	3	3	4	2	1	2	4	2	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:94520763C>A	uc001dqh.2	-	16	2595	c.2491G>T	c.(2491-2493)GGG>TGG	p.G831W	ABCA4_uc010otn.1_Missense_Mutation_p.G757W	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	831					phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		AATTCGTCCCCTTCCGTGGGA	0.537													29	60					2.14196e-07	2.25169e-07	1	1	0		A	94520763	A	A	94520763	3	1	187	1	0	0	0	0	1	0	0	0	34	681	24	5	4470	5	ABCA4	1	94520763	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1952560	94520763	154729858	32	92815											
LPPR4	9890	broad.mit.edu	37	chr1	99771242	99771242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctttctctcaaacactaggGcttgtatgctgtggggaatt	8	14	11	8	0	2	0	1	0	1	0	3	1	2	1	0	3	2	4	0	3	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:99771242G>A	uc001dse.2	+	7	1074	c.968G>A	c.(967-969)GGC>GAC	p.G323D	LPPR4_uc010oue.1_Missense_Mutation_p.G265D	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	323	Helical; (Potential).						phosphatidate phosphatase activity			ovary(3)	3		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)		AAACACTAGGGCTTGTATGCT	0.453													4	70					0	0	1	0	0		A	99771242	A	A	99771242	3	1	187	1	0	0	0	0	1	0	0	0	8945	1217	42	2	994	2	LPPR4	1	99771242	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5250479	99771242	149479379	33	92816											
ATXN7L2	127002	broad.mit.edu	37	chr1	110033760	110033760	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgtagccaggcagagtgCatgggcgggagccaggctat	8	6	17	10	1	0	1	0	0	0	1	0	2	0	2	3	4	3	4	3	4	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:110033760C>T	uc001dxr.2	+	10	1590	c.1575C>T	c.(1573-1575)TGC>TGT	p.C525C	ATXN7L2_uc001dxs.2_Silent_p.C152C|ATXN7L2_uc001dxt.2_Silent_p.C28C|CYB561D1_uc010ovl.1_5'Flank|CYB561D1_uc010ovm.1_5'Flank|CYB561D1_uc001dxu.2_5'Flank|CYB561D1_uc001dxw.2_5'Flank|CYB561D1_uc010ovn.1_5'Flank|CYB561D1_uc010ovo.1_5'Flank|CYB561D1_uc009wfd.2_5'Flank|CYB561D1_uc010ovp.1_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	525										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)		AGGCAGAGTGCATGGGCGGGA	0.657											OREG0013635	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	41					0	0	1	0	0		T	110033760	T	T	110033760	2	4	187	1	0	0	0	0	0	0	0	1	1218	718	25	2		2	ATXN7L2	1	110033760	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	10262518	110033760	139216861	34	92817											
GPR61	83873	broad.mit.edu	37	chr1	110086193	110086193	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtgttgggaagggtctcCtgggaggaaggagctcccag	8	7	17	9	0	1	0	0	0	1	0	3	4	2	4	3	5	1	2	3	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:110086193C>A	uc001dxy.2	+	2	1232	c.549C>A	c.(547-549)TCC>TCA	p.S183S		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	183	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		GAAGGGTCTCCTGGGAGGAAG	0.607													4	73					0.150653	0.151078	1	1	0		A	110086193	A	A	110086193	2	1	187	1	0	0	0	0	0	0	0	1	6717	668	24	5		5	GPR61	1	110086193	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	52433	110086193	139164428	35	92818											
KCNC4	3749	broad.mit.edu	37	chr1	110765765	110765765	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcctgacctacatcgagggCgtatgtgtgctgtggttcac	7	12	12	10	2	1	1	1	1	0	0	3	2	2	1	2	2	2	3	2	2	2	3	rs151032487		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:110765765C>T	uc001dzh.2	+	2	915	c.858C>T	c.(856-858)GGC>GGT	p.G286G	KCNC4_uc001dzf.2_Silent_p.G286G|KCNC4_uc009wfr.2_Silent_p.G286G|KCNC4_uc001dzg.2_Silent_p.G286G|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	286	Helical; Name=Segment S2; (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		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)		ACATCGAGGGCGTATGTGTGC	0.582													44	123					0	0	1	0	0		T	110765765	T	T	110765765	2	4	187	1	0	0	0	0	0	0	0	1	8033	755	27	1		1	KCNC4	1	110765765	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	679572	110765765	138484856	36	92819											
RBM15	64783	broad.mit.edu	37	chr1	110882916	110882916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagatcactttcccctggtGgcgctgctttgggatacaga	8	11	12	10	1	1	2	1	0	0	2	2	4	2	3	2	3	2	2	2	3	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:110882916G>T	uc001dzl.1	+	1	972	c.889G>T	c.(889-891)GGC>TGC	p.G297C	RBM15_uc001dzm.1_Missense_Mutation_p.G297C|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	297					interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		TTCCCCTGGTGGCGCTGCTTT	0.627			T	MKL1	acute megakaryocytic leukemia								38	119					2.24893e-16	2.4561e-16	1	1	0		T	110882916	T	T	110882916	3	4	187	1	0	0	0	0	1	0	0	0	13141	1348	47	5	891	5	RBM15	1	110882916	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	117151	110882916	138367705	37	92820											
WNT2B	7482	broad.mit.edu	37	chr1	113052050	113052050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgacgctgccggcccgcGtagacacgtcctggtggtaa	6	8	14	13	5	0	2	0	1	0	1	1	2	1	2	3	3	2	4	3	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:113052050G>A	uc001ecb.2	+	1	681	c.166G>A	c.(166-168)GTA>ATA	p.V56I	WNT2B_uc001eca.2_Intron|WNT2B_uc009wgg.2_Intron	NM_024494	NP_078613	Q93097	WNT2B_HUMAN	wingless-type MMTV integration site family,	56					chondrocyte differentiation|cornea development in camera-type eye|dorsal/ventral axis specification|forebrain regionalization|hemopoietic stem cell proliferation|iris morphogenesis|lens development in camera-type eye|lung induction|male gonad development|neuron differentiation|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding|signal transducer activity			ovary(2)|breast(2)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;7.31e-07)|all_epithelial(167;4.59e-06)|all_lung(203;2.56e-05)|Lung NSC(69;4.38e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GCCGGCCCGCGTAGACACGTC	0.721													22	40					0	0	1	0	0		A	113052050	A	A	113052050	3	1	187	1	0	0	0	0	1	0	0	0	17413	1145	40	1	301	1	WNT2B	1	113052050	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2169134	113052050	136198571	38	92821											
NOTCH2	4853	broad.mit.edu	37	chr1	120493447	120493447	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacattcatcaatattcacCtggcagttatagcctgtaga	12	12	7	10	0	3	1	3	0	0	1	3	1	3	1	2	1	1	4	2	1	5	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:120493447C>A	uc001eik.2	-	15	2635	c.2379G>T	c.(2377-2379)CAG>CAT	p.Q793H	NOTCH2_uc001eil.2_Missense_Mutation_p.Q793H|NOTCH2_uc001eim.3_Missense_Mutation_p.Q710H	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	793	Extracellular (Potential).|EGF-like 20; calcium-binding (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAATATTCACCTGGCAGTTAT	0.408			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				40	110					1.465e-08	1.55075e-08	1	1	0		A	120493447	A	A	120493447	3	1	187	1	0	0	0	0	1	0	0	0	10567	680	24	5	5116	5	NOTCH2	1	120493447	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7441397	120493447	128757174	39	92822											
PDE4DIP	9659	broad.mit.edu	37	chr1	144922001	144922001	+	Missense_Mutation	SNP	T	A	A	0	1	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	agaataaagcactctgaagaTcaagcagagctacctgttgc	15	8	9	9	0	2	4	1	1	1	3	2	4	2	4	1	0	5	4	1	0	6	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:144922001T>A	uc001elw.3	-	9	1319	c.1028A>T	c.(1027-1029)GAT>GTT	p.D343V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.D409V|PDE4DIP_uc001emc.1_Missense_Mutation_p.D343V|PDE4DIP_uc001emd.1_Missense_Mutation_p.D343V|PDE4DIP_uc001emb.1_Missense_Mutation_p.D506V|PDE4DIP_uc001eme.1_5'UTR|PDE4DIP_uc001emf.1_Missense_Mutation_p.D130V	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	343					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		ACTCTGAAGATCAAGCAGAGC	0.493			T	PDGFRB	MPD								26	206					0	0	1	0	0		A	144922001	A	A	144922001	3	1	187	1	0	0	0	0	1	0	0	0	11662	1435	50	5	6166	5	PDE4DIP	1	144922001	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	24428554	144922001	104328620	40	92823											
HFE2	148738	broad.mit.edu	37	chr1	145415461	145415461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctctgcactcggcgcaccGcccgcacctgccgcggggac	4	4	13	20	7	1	0	0	0	1	0	2	1	1	1	4	3	2	4	4	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:145415461G>A	uc001eni.2	+	3	605	c.280G>A	c.(280-282)GCC>ACC	p.A94T	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Intron|HFE2_uc001enk.2_5'UTR|HFE2_uc001enl.2_Intron	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	94					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TCGGCGCACCGCCCGCACCTG	0.692													18	88					0	0	1	0	0		A	145415461	A	A	145415461	3	1	187	1	0	0	0	0	1	0	0	0	7098	1087	38	1	286	1	HFE2	1	145415461	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	493460	145415461	103835160	41	92824											
TMOD4	29765	broad.mit.edu	37	chr1	151145996	151145996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaatgtcacacatttcagCatctgtggcatgtgccagtg	9	12	10	10	0	3	0	2	0	1	0	3	0	3	0	1	1	3	3	1	1	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:151145996C>T	uc001exc.3	-	4	566	c.376G>A	c.(376-378)GCT>ACT	p.A126T	TMOD4_uc001exb.2_5'Flank|TMOD4_uc001exd.2_RNA|TMOD4_uc010pct.1_Intron	NM_013353	NP_037485	Q9NZQ9	TMOD4_HUMAN	tropomodulin 4 (muscle)	126					muscle contraction	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(1)	1	Lung SC(34;0.00471)|Ovarian(49;0.0147)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			CACATTTCAGCATCTGTGGCA	0.547													35	118					0	0	1	0	0		T	151145996	T	T	151145996	3	4	187	1	0	0	0	0	1	0	0	0	16261	710	25	2	689	2	TMOD4	1	151145996	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5730535	151145996	98104625	42	92825											
TDRKH	11022	broad.mit.edu	37	chr1	151753980	151753980	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaatattggctccttgccGgccaatgatgagtttcacag	9	14	9	9	1	1	2	1	2	0	0	2	2	2	2	3	2	1	2	3	2	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:151753980G>A	uc009wnb.1	-	3	390	c.208C>T	c.(208-210)CGG>TGG	p.R70W	TDRKH_uc001eyy.2_5'UTR|TDRKH_uc001ezb.3_Missense_Mutation_p.R70W|TDRKH_uc001ezc.3_Missense_Mutation_p.R70W|TDRKH_uc001eza.3_Missense_Mutation_p.R70W|TDRKH_uc001ezd.3_Missense_Mutation_p.R70W|TDRKH_uc010pdn.1_5'UTR	NM_006862	NP_006853	Q9Y2W6	TDRKH_HUMAN	tudor and KH domain containing isoform a	70	KH 1.						RNA binding			ovary(1)|pancreas(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			GCTCCTTGCCGGCCAATGATG	0.463													22	58					0	0	1	0	0		A	151753980	A	A	151753980	3	1	187	1	0	0	0	0	1	0	0	0	15762	1115	39	1	1521	1	TDRKH	1	151753980	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	607984	151753980	97496641	43	92826											
LINGO4	339398	broad.mit.edu	37	chr1	151774063	151774063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccaaagtccaggtggcggCggagccggagcagccagagg	9	3	18	11	3	0	1	0	0	0	1	1	3	1	3	4	6	4	1	4	6	1	0	rs142939659		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:151774063C>T	uc001ezf.1	-	2	1308	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	373	Extracellular (Potential).|LRRCT.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CAGGTGGCGGCGGAGCCGGAG	0.617													21	45					0	0	1	0	0		T	151774063	T	T	151774063	3	4	187	1	0	0	0	0	1	0	0	0	8834	768	27	1	667	1	LINGO4	1	151774063	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	20083	151774063	97476558	44	92827											
TCHH	7062	broad.mit.edu	37	chr1	152081442	152081442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagctgctgttcctcctcGcggaattttctgtcgcggtc	3	14	10	14	4	2	0	1	0	1	0	7	1	4	1	2	2	2	3	2	2	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:152081442G>A	uc001ezp.2	-	2	4251	c.4251C>T	c.(4249-4251)CGC>CGT	p.R1417R	TCHH_uc009wne.1_Silent_p.R1417R	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	1417	23 X 26 AA approximate tandem repeats.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GTTCCTCCTCGCGGAATTTTC	0.587													34	108					0	0	1	0	0		A	152081442	A	A	152081442	2	1	187	1	0	0	0	0	0	0	0	1	15725	1074	38	1		1	TCHH	1	152081442	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	307379	152081442	97169179	45	92828											
RUSC1	23623	broad.mit.edu	37	chr1	155291940	155291940	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcagtctacttgcgggacCtccctggtgatgaggatgcc	6	11	12	12	1	2	2	1	2	2	0	4	4	3	4	3	3	3	0	3	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:155291940C>A	uc001fkj.2	+	2	605	c.376C>A	c.(376-378)CTC>ATC	p.L126I	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_5'Flank|C1orf104_uc001fki.2_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.L126I|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_5'Flank|RUSC1_uc001fkl.2_5'Flank|RUSC1_uc001fkp.2_5'Flank|RUSC1_uc001fkq.2_5'Flank|RUSC1_uc010pgb.1_5'Flank|RUSC1_uc009wqp.1_5'Flank|RUSC1_uc001fkn.2_5'Flank|RUSC1_uc001fko.2_5'Flank|RUSC1_uc001fkr.2_5'Flank	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	126						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			CTTGCGGGACCTCCCTGGTGA	0.647													14	60					1.99824e-07	2.10268e-07	1	1	0		A	155291940	A	A	155291940	3	1	187	1	0	0	0	0	1	0	0	0	13775	681	24	5	378	5	RUSC1	1	155291940	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3210498	155291940	93958681	46	92829											
YY1AP1	55249	broad.mit.edu	37	chr1	155630355	155630355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtattgggtgaggaatcCggagcaccattttgctcgga	8	11	14	8	2	0	1	0	1	0	0	2	4	1	4	2	4	2	4	2	4	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:155630355C>T	uc001fln.2	-	11	1508	c.1484G>A	c.(1483-1485)CGG>CAG	p.R495Q	YY1AP1_uc001flg.2_Missense_Mutation_p.R234Q|YY1AP1_uc010pgg.1_Missense_Mutation_p.R334Q|YY1AP1_uc010pgh.1_Missense_Mutation_p.R438Q|YY1AP1_uc010pgi.1_Missense_Mutation_p.R587Q|YY1AP1_uc001flh.2_Missense_Mutation_p.R567Q|YY1AP1_uc009wqt.2_Missense_Mutation_p.R418Q|YY1AP1_uc001flk.2_Missense_Mutation_p.R438Q|YY1AP1_uc001fll.2_Missense_Mutation_p.R449Q|YY1AP1_uc009wqv.2_Missense_Mutation_p.R166Q|YY1AP1_uc001flm.2_Missense_Mutation_p.R438Q|YY1AP1_uc001fli.2_Missense_Mutation_p.R449Q|YY1AP1_uc009wqu.2_Missense_Mutation_p.R282Q|YY1AP1_uc001flj.2_Missense_Mutation_p.R429Q|YY1AP1_uc009wqw.2_Missense_Mutation_p.R418Q|YY1AP1_uc001flo.2_Missense_Mutation_p.R383Q|YY1AP1_uc001flp.2_Missense_Mutation_p.R449Q|YY1AP1_uc010pgj.1_3'UTR	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	495					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GTGAGGAATCCGGAGCACCAT	0.552													21	78					0	0	1	0	0		T	155630355	T	T	155630355	3	4	187	1	0	0	0	0	1	0	0	0	17534	652	23	1	910	1	YY1AP1	1	155630355	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	338415	155630355	93620266	47	92830											
NES	10763	broad.mit.edu	37	chr1	156639679	156639679	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	accctggcccccaccgcccaGcccctggctccctcccctcc	3	5	6	27	1	0	0	0	0	0	0	3	0	3	0	11	2	1	1	11	2	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:156639679G>T	uc001fpq.2	-	4	4434	c.4301C>A	c.(4300-4302)GCT>GAT	p.A1434D		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1434	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CCACCGCCCAGCCCCTGGctc	0.458													12	23					1.08611e-07	1.14514e-07	1	1	0		T	156639679	T	T	156639679	3	4	187	1	0	0	0	0	1	0	0	0	10356	971	34	5	568	5	NES	1	156639679	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1009324	156639679	92610942	48	92831											
FCRL3	115352	broad.mit.edu	37	chr1	157660199	157660199	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccccaaggtgtcatcctcGtgataaaaccagtacaggat	12	10	8	11	1	1	1	1	1	0	0	4	2	3	2	4	2	2	1	4	2	4	3	rs141302640		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:157660199G>A	uc001frb.2	-	9	1828	c.1536C>T	c.(1534-1536)CAC>CAT	p.H512H	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Silent_p.H512H|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Silent_p.H238H|FCRL3_uc001frc.1_Silent_p.H512H	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	512	Ig-like C2-type 6.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TGTCATCCTCGTGATAAAACC	0.582													17	82					0	0	1	0	0		A	157660199	A	A	157660199	2	1	187	1	0	0	0	0	0	0	0	1	5810	1136	40	1		1	FCRL3	1	157660199	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1020520	157660199	91590422	49	92832											
FCRL3	115352	broad.mit.edu	37	chr1	157665355	157665355	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtcccccaccacagtgtggGccctgggagccctgaaggtg	6	6	15	14	0	0	1	0	1	0	0	1	2	1	2	5	4	1	0	5	4	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:157665355G>C	uc001frb.2	-	8	1467	c.1175C>G	c.(1174-1176)GCC>GGC	p.A392G	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.A392G|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_Missense_Mutation_p.A118G|FCRL3_uc001frc.1_Missense_Mutation_p.A392G	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	392	Ig-like C2-type 5.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					CACAGTGTGGGCCCTGGGAGC	0.572													17	55					0	0	1	0	0		C	157665355	C	C	157665355	3	2	187	1	0	0	0	0	1	0	0	0	5810	1203	42	5	1061	5	FCRL3	1	157665355	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5156	157665355	91585266	50	92833											
SPTA1	6708	broad.mit.edu	37	chr1	158647573	158647573	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttgccatagtcctcagaGgtgagtacaggttccttctc	7	14	9	11	0	3	2	1	1	2	1	6	2	5	2	3	2	2	2	3	2	2	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:158647573G>T	uc001fst.1	-	7	1063	c.864C>A	c.(862-864)ACC>ACA	p.T288T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	288	Spectrin 4.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGTCCTCAGAGGTGAGTACAG	0.463													23	70					1.26454e-06	1.32022e-06	1	1	0		T	158647573	T	T	158647573	2	4	187	1	0	0	0	0	0	0	0	1	15141	987	35	5		5	SPTA1	1	158647573	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	982218	158647573	90603048	51	92834											
MNDA	4332	broad.mit.edu	37	chr1	158813189	158813189	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatcggaagcaagagggaGgattcctgtagctcaggtaa	13	7	14	7	1	1	1	1	0	0	1	3	5	2	4	1	4	2	4	1	4	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:158813189G>T	uc001fsz.1	+	3	586	c.386G>T	c.(385-387)AGG>ATG	p.R129M		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	129					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GCAAGAGGGAGGATTCCTGTA	0.473													4	18					1.23904e-05	1.2848e-05	1	1	0		T	158813189	T	T	158813189	3	4	187	1	0	0	0	0	1	0	0	0	9694	1000	35	5	392	5	MNDA	1	158813189	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	165616	158813189	90437432	52	92835											
PYHIN1	149628	broad.mit.edu	37	chr1	158914815	158914815	+	Missense_Mutation	SNP	A	G	G	1	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	tgccaccaacaaccccatccAgcagttccttcaccaaggta	12	7	5	17	0	1	0	1	0	0	0	3	0	3	0	7	1	4	3	7	1	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:158914815A>G	uc001ftb.2	+	7	1587	c.1342A>G	c.(1342-1344)AGC>GGC	p.S448G	PYHIN1_uc001ftc.2_Missense_Mutation_p.S439G|PYHIN1_uc001ftd.2_Missense_Mutation_p.S448G|PYHIN1_uc001fte.2_Missense_Mutation_p.S439G	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	448					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					AACCCCATCCAGCAGTTCCTT	0.458													10	137					0	0	1	0	0		G	158914815	G	G	158914815	3	3	187	1	0	0	0	0	1	0	0	0	12890	188	7	3	1364	3	PYHIN1	1	158914815	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	101626	158914815	90335806	53	92836											
IGSF9	57549	broad.mit.edu	37	chr1	159900491	159900491	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcttctcaccttccggagCagacaagacgatttcgctga	11	9	9	12	3	1	3	1	1	1	2	4	5	2	4	2	1	2	3	2	1	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:159900491C>A	uc001fur.2	-	14	2002	c.1804G>T	c.(1804-1806)GCT>TCT	p.A602S	IGSF9_uc001fuq.2_Missense_Mutation_p.A586S|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	602	Fibronectin type-III 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CCTTCCGGAGCAGACAAGACG	0.607													14	57					0.00185496	0.00189039	1	1	0		A	159900491	A	A	159900491	3	1	187	1	0	0	0	0	1	0	0	0	7621	710	25	5	1767	5	IGSF9	1	159900491	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	985676	159900491	89350130	54	92837											
FCGR2A	2212	broad.mit.edu	37	chr1	161487843	161487843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actatgaaacagctgacggcGgctacatgactctgaacccc	12	7	9	13	2	1	4	0	4	1	0	1	4	1	4	2	2	4	2	2	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:161487843G>A	uc001gan.2	+	7	912	c.859G>A	c.(859-861)GGC>AGC	p.G287S	FCGR2A_uc001gam.2_Missense_Mutation_p.G286S|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	287	Cytoplasmic (Potential).					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	AGCTGACGGCGGCTACATGAC	0.299													25	110					0	0	1	0	0		A	161487843	A	A	161487843	3	1	187	1	0	0	0	0	1	0	0	0	5795	1116	39	1	885	1	FCGR2A	1	161487843	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1587352	161487843	87762778	55	92838											
SH2D1B	117157	broad.mit.edu	37	chr1	162372593	162372593	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagacaatatttttaaacCtgtggaaaaaatgactgtgt	15	14	8	4	0	0	2	0	1	0	1	0	3	0	3	1	1	1	1	1	1	8	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:162372593C>A	uc001gbz.1	-	2	257	c.135_splice	c.e2-1	p.S45_splice	SH2D1B_uc001gca.1_Splice_Site_p.S45_splice	NM_053282	NP_444512	O14796	SH21B_HUMAN	SH2 domain containing 1B											pancreas(1)	1	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			ATTTTTAAACCTGTGGAAAAA	0.343													15	35					6.94344e-10	7.39387e-10	1	1	0		A	162372593	A	A	162372593	5	1	187	1	0	0	0	0	0	0	1	0	14256	695	24	5	276	5	SH2D1B	1	162372593	Splice_Site	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	884750	162372593	86878028	56	92839											
GPA33	10223	broad.mit.edu	37	chr1	167024308	167024308	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataatgagggctgcaaccacGcccaccgcgatgcccacata	12	5	9	15	3	0	1	0	1	0	0	0	2	0	1	4	1	3	2	4	1	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:167024308G>A	uc001gea.1	-	6	1076	c.732C>T	c.(730-732)GGC>GGT	p.G244G		NM_005814	NP_005805	Q99795	GPA33_HUMAN	transmembrane glycoprotein A33 precursor	244	Helical; (Potential).					integral to plasma membrane	receptor activity				0						CTGCAACCACGCCCACCGCGA	0.582													16	58					0	0	1	0	0		A	167024308	A	A	167024308	2	1	187	1	0	0	0	0	0	0	0	1	6601	1074	38	1		1	GPA33	1	167024308	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4651715	167024308	82226313	57	92840											
SLC19A2	10560	broad.mit.edu	37	chr1	169446634	169446634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	taagagagatgacattcaggCtgaacagcgaccagcctgcc	13	6	11	11	1	1	4	1	2	0	2	1	6	1	4	3	1	4	1	3	1	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:169446634C>T	uc001gge.3	-	2	770	c.566G>A	c.(565-567)AGC>AAC	p.S189N	SLC19A2_uc001ggf.3_Intron	NM_006996	NP_008927	O60779	S19A2_HUMAN	solute carrier family 19, member 2	189	Extracellular (Potential).				thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|folic acid transporter activity|reduced folate carrier activity|thiamine uptake transmembrane transporter activity				0	all_hematologic(923;0.208)					GACATTCAGGCTGAACAGCGA	0.493													16	48					0	0	1	0	0		T	169446634	T	T	169446634	3	4	187	1	0	0	0	0	1	0	0	0	14454	797	28	2	947	2	SLC19A2	1	169446634	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2422326	169446634	79803987	58	92841											
BAT2L2	23215	broad.mit.edu	37	chr1	171504578	171504578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgagcagaggaggaacccGttttcactagacaagacagc	13	8	11	9	1	1	4	1	1	0	3	1	6	1	6	1	2	3	2	1	2	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:171504578G>A	uc010pmg.1	+	13	2145	c.1879G>A	c.(1879-1881)GTT>ATT	p.V627I		NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	627	Glu-rich.						protein C-terminus binding				0						GGAGGAACCCGTTTTCACTAG	0.423													11	40					0	0	1	0	0		A	171504578	A	A	171504578	3	1	187	1	0	0	0	0	1	0	0	0	1322	1145	40	1	1925	1	BAT2L2	1	171504578	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2057944	171504578	77746043	59	92842											
PIGC	5279	broad.mit.edu	37	chr1	172411046	172411046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggacagtaggcctcccacGgctgaaaatgcaaaaagcag	15	5	11	10	1	0	1	0	1	0	0	1	2	1	2	2	3	2	4	2	3	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:172411046G>A	uc001gil.2	-	2	998	c.717C>T	c.(715-717)GCC>GCT	p.A239A	PIGC_uc001gii.1_Intron|PIGC_uc001gij.1_Intron|C1orf105_uc001gik.2_Intron|PIGC_uc001gin.2_Silent_p.A239A|PIGC_uc001gio.2_Silent_p.A239A	NM_153747	NP_714969	Q92535	PIGC_HUMAN	phosphatidylinositol glycan, class C	239	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity			lung(1)	1						GGCCTCCCACGGCTGAAAATG	0.507													19	66					0	0	1	0	0		A	172411046	A	A	172411046	2	1	187	1	0	0	0	0	0	0	0	1	11905	1103	39	1		1	PIGC	1	172411046	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	906468	172411046	76839575	60	92843											
CACNA1E	777	broad.mit.edu	37	chr1	181620522	181620522	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attggctgtacttcatccccCtcatcatcattggatccttc	7	15	5	14	0	4	0	4	0	0	0	7	1	6	1	3	2	1	2	3	2	1	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:181620522C>A	uc001gow.2	+	7	1165	c.1000C>A	c.(1000-1002)CTC>ATC	p.L334I	CACNA1E_uc009wxr.2_Missense_Mutation_p.L241I|CACNA1E_uc009wxs.2_Missense_Mutation_p.L241I	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	334	I.|Helical; Name=S6 of repeat I.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						CTTCATCCCCCTCATCATCAT	0.433													5	93					0.0215528	0.0217361	1	1	0		A	181620522	A	A	181620522	3	1	187	1	0	0	0	0	1	0	0	0	2545	681	24	5	1026	5	CACNA1E	1	181620522	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9209476	181620522	67630099	61	92844											
GLUL	2752	broad.mit.edu	37	chr1	182353567	182353567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtactggaagggctcatcGccggtttcattgagaagaca	10	11	12	8	2	2	2	2	1	0	2	3	4	2	3	1	3	1	3	1	3	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:182353567G>A	uc001gpa.1	-	7	1307	c.1095C>T	c.(1093-1095)GGC>GGT	p.G365G	GLUL_uc010pnt.1_Silent_p.G152G|GLUL_uc001gpb.1_Silent_p.G365G|GLUL_uc001gpc.1_Silent_p.G365G|GLUL_uc001gpd.1_Silent_p.G365G	NM_001033056	NP_001028228	P15104	GLNA_HUMAN	glutamine synthetase	365					cell proliferation|glutamine biosynthetic process|neurotransmitter uptake	cytosol|Golgi apparatus|mitochondrion	ATP binding|glutamate decarboxylase activity|glutamate-ammonia ligase activity|identical protein binding				0					Asparaginase(DB00023)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)|L-Methionine(DB00134)	AGGGCTCATCGCCGGTTTCAT	0.527													11	27					0	0	1	0	0		A	182353567	A	A	182353567	2	1	187	1	0	0	0	0	0	0	0	1	6493	1074	38	1		1	GLUL	1	182353567	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	733045	182353567	66897054	62	92845											
DHX9	1660	broad.mit.edu	37	chr1	182856560	182856560	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggacagggaagaggaggtggCggctattaaaacttggttat	12	9	16	4	1	0	1	0	0	0	1	0	4	0	4	0	7	1	2	0	7	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:182856560C>T	uc001gpr.2	+	28	3967	c.3804C>T	c.(3802-3804)GGC>GGT	p.G1268G	DHX9_uc001gps.2_Silent_p.G1054G|DHX9_uc001gpt.2_Silent_p.G547G|DHX9_uc009wyd.2_Silent_p.G233G	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	1268				FGQGRGGGGY -> LDIEEEVAAIKLGYVSSVCRQ (in Ref. 1; AAB48855).	CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						GAGGAGGTGGCGGCTATTAAA	0.493													9	19					0	0	1	0	0		T	182856560	T	T	182856560	2	4	187	1	0	0	0	0	0	0	0	1	4522	755	27	1		1	DHX9	1	182856560	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	502993	182856560	66394061	63	92846											
HMCN1	83872	broad.mit.edu	37	chr1	186030998	186030998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggaggcaggatgctacGgctgatgcagaccacaatgg	11	6	15	9	1	0	2	0	1	0	1	0	4	0	4	1	5	4	5	1	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:186030998G>A	uc001grq.1	+	47	7557	c.7328G>A	c.(7327-7329)CGG>CAG	p.R2443Q		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2443	Ig-like C2-type 22.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AGGATGCTACGGCTGATGCAG	0.398													10	53					0	0	1	0	0		A	186030998	A	A	186030998	3	1	187	1	0	0	0	0	1	0	0	0	7236	1116	39	1	7514	1	HMCN1	1	186030998	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3174438	186030998	63219623	64	92847											
HMCN1	83872	broad.mit.edu	37	chr1	186105833	186105833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcttgagccagtggaaaCtgttattaatgctggtggca	10	12	11	8	0	1	1	0	1	1	0	1	2	1	2	1	3	3	3	1	3	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:186105833C>T	uc001grq.1	+	87	13575	c.13346C>T	c.(13345-13347)ACT>ATT	p.T4449I	HMCN1_uc001grs.1_Missense_Mutation_p.T18I	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4449	Ig-like C2-type 44.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CCAGTGGAAACTGTTATTAAT	0.408													14	71					0	0	1	0	0		T	186105833	T	T	186105833	3	4	187	1	0	0	0	0	1	0	0	0	7236	565	20	4	13692	4	HMCN1	1	186105833	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	74835	186105833	63144788	65	92848											
TPR	7175	broad.mit.edu	37	chr1	186310500	186310500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcatcagttcttcatgctGagccattgtttttgcagtta	7	18	7	9	0	4	1	3	1	1	0	4	1	4	1	1	0	3	5	1	0	1	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:186310500G>A	uc001grv.2	-	28	4069	c.3772C>T	c.(3772-3774)CAG>TAG	p.Q1258*		NM_003292	NP_003283	P12270	TPR_HUMAN	nuclear pore complex-associated protein TPR	1258	Potential.				carbohydrate metabolic process|glucose transport|mitotic cell cycle spindle assembly checkpoint|mRNA transport|protein import into nucleus|regulation of glucose transport|seryl-tRNA aminoacylation|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytoplasm|nuclear membrane|nuclear pore|nucleoplasm	ATP binding|protein binding|serine-tRNA ligase activity			ovary(2)|lung(2)|urinary_tract(1)|central_nervous_system(1)|skin(1)	7		Breast(1374;0.000659)|Lung SC(1967;0.0262)|Prostate(1639;0.157)		Colorectal(1306;1.12e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00553)		TCTTCATGCTGAGCCATTGTT	0.348			T	NTRK1	papillary thyroid								4	36					0	0	1	0	0		A	186310500	A	A	186310500	4	1	187	1	0	0	0	0	0	1	0	0	16442	1299	45	4	3415	4	TPR	1	186310500	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	204667	186310500	62940121	66	92849											
FAM58B	339521	broad.mit.edu	37	chr1	200183336	200183336	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgaggtgcccgccgaggtCgaggctgagaagctgtggtg	6	7	19	9	4	0	1	0	1	0	1	2	5	0	1	2	4	2	2	2	4	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:200183336C>T	uc009wzi.1	+	1	681	c.645C>T	c.(643-645)GTC>GTT	p.V215V		NM_001105517	NP_001098987	P0C7Q3	FA58B_HUMAN	family with sequence similarity 58 member B	215					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	Prostate(682;0.19)					CCGCCGAGGTCGAGGCTGAGA	0.557													17	57					0	0	1	0	0		T	200183336	T	T	200183336	2	4	187	1	0	0	0	0	0	0	0	1	5605	871	31	1		1	FAM58B	1	200183336	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	13872836	200183336	49067285	67	92850											
PKP1	5317	broad.mit.edu	37	chr1	201286806	201286806	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcaacctggtgttcaggaGcaccaccaacaagctggaga	12	5	12	12	1	1	1	1	0	0	1	1	3	1	2	3	3	4	4	3	3	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:201286806G>T	uc001gwd.2	+	5	1204	c.953G>T	c.(952-954)AGC>ATC	p.S318I	PKP1_uc001gwe.2_Missense_Mutation_p.S318I|PKP1_uc009wzm.2_5'UTR	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	318	ARM 3.				cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						GTGTTCAGGAGCACCACCAAC	0.652													16	37					6.72482e-11	7.2042e-11	1	1	0		T	201286806	T	T	201286806	3	4	187	1	0	0	0	0	1	0	0	0	12003	971	34	5	971	5	PKP1	1	201286806	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1103470	201286806	47963815	68	92851											
LAD1	3898	broad.mit.edu	37	chr1	201351409	201351409	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	cagcgaggagtcagatttctGtccccactgagtcctctcgg	7	10	11	13	2	3	2	1	1	2	1	6	4	5	3	3	2	1	0	3	2	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:201351409G>A	uc001gwm.2	-	9	1754	c.1519C>T	c.(1519-1521)CAG>TAG	p.Q507*		NM_005558	NP_005549	O00515	LAD1_HUMAN	ladinin 1	507						basement membrane	structural molecule activity				0						TCAGATTTCTGTCCCCACTGA	0.602													21	106					0	0	1	0	0		A	201351409	A	A	201351409	4	1	187	1	0	0	0	0	0	1	0	0	8615	1386	48	4	42	4	LAD1	1	201351409	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	64603	201351409	47899212	69	92852											
DSTYK	25778	broad.mit.edu	37	chr1	205138544	205138544	+	Silent	SNP	A	G	G	1	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	aggttcagggccttggctgcAtccaccaggcgagtctgtaa	8	9	13	11	1	2	0	1	0	1	0	3	1	3	0	3	4	1	4	3	4	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:205138544A>G	uc001hbw.2	-	3	1135	c.1071T>C	c.(1069-1071)GAT>GAC	p.D357D	DSTYK_uc001hbx.2_Silent_p.D357D|DSTYK_uc001hby.1_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	357						cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						CCTTGGCTGCATCCACCAGGC	0.517													17	62					0	0	1	0	0		G	205138544	G	G	205138544	2	3	187	1	0	0	0	0	0	0	0	1	4791	214	8	3		3	DSTYK	1	205138544	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	3787135	205138544	44112077	70	92853											
PTPN14	5784	broad.mit.edu	37	chr1	214542949	214542949	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatccgttcgaaacttcgtgGtgaccttgaacttgccatag	10	12	9	10	3	0	2	0	2	0	0	3	3	1	2	3	1	3	1	3	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:214542949G>C	uc001hkk.1	-	17	3393	c.3122C>G	c.(3121-3123)ACC>AGC	p.T1041S		NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	1041	Tyrosine-protein phosphatase.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		AAACTTCGTGGTGACCTTGAA	0.478													55	200					0	0	1	0	0		C	214542949	C	C	214542949	3	2	187	1	0	0	0	0	1	0	0	0	12806	1261	44	5	453	5	PTPN14	1	214542949	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9404405	214542949	34707672	71	92854											
PTPN14	5784	broad.mit.edu	37	chr1	214638021	214638021	+	Silent	SNP	T	C	C	0	1	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	gcctccaggcattcttgcccTgtgctttccaccgacagcgt	5	11	9	16	2	1	0	0	0	1	0	3	1	3	0	5	1	3	2	5	1	0	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:214638021T>C	uc001hkk.1	-	2	397	c.126A>G	c.(124-126)ACA>ACG	p.T42T	PTPN14_uc010pty.1_Intron	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	42	FERM.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		ATTCTTGCCCTGTGCTTTCCA	0.587													20	40					0	0	1	0	0		C	214638021	C	C	214638021	2	2	187	1	0	0	0	0	0	0	0	1	12806	1567	55	3		3	PTPN14	1	214638021	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	95072	214638021	34612600	72	92855											
MARK1	4139	broad.mit.edu	37	chr1	220791774	220791774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcccaccctatgctgctccCgagcttttccaaggaaagaa	11	8	8	14	1	0	1	0	0	0	1	2	3	2	2	4	1	4	3	4	1	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:220791774C>T	uc001hmn.3	+	8	1272	c.675C>T	c.(673-675)CCC>CCT	p.P225P	MARK1_uc009xdw.2_Silent_p.P225P|MARK1_uc010pun.1_Silent_p.P225P|MARK1_uc001hmm.3_Silent_p.P203P	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	225	Protein kinase.				intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		ATGCTGCTCCCGAGCTTTTCC	0.428													19	50					0	0	1	0	0		T	220791774	T	T	220791774	2	4	187	1	0	0	0	0	0	0	0	1	9330	639	23	1		1	MARK1	1	220791774	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6153753	220791774	28458847	73	92856											
DISP1	84976	broad.mit.edu	37	chr1	223116452	223116452	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ccctttgactagccatagcaGtcaccaagagtgccatcccg	10	8	8	15	1	1	2	1	1	0	1	2	2	2	2	5	0	3	1	5	0	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:223116452G>C	uc001hnu.1	+	2	434	c.287G>C	c.(286-288)AGT>ACT	p.S96T		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	96					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AGCCATAGCAGTCACCAAGAG	0.522													5	127					0	0	1	0	0		C	223116452	C	C	223116452	3	2	187	1	0	0	0	0	1	0	0	0	4545	1029	36	5	289	5	DISP1	1	223116452	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2324678	223116452	26134169	74	92857											
OBSCN	84033	broad.mit.edu	37	chr1	228404781	228404781	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtggctgggggcccggcGcagtttgagtgtgagacctc	4	8	18	11	3	0	2	0	2	0	1	1	3	0	2	3	4	0	3	3	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:228404781G>A	uc009xez.1	+	8	2489	c.2445G>A	c.(2443-2445)GCG>GCA	p.A815A	OBSCN_uc001hsn.2_Silent_p.A815A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	815	Ig-like 8.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGGCCCGGCGCAGTTTGAGT	0.647													17	31					0	0	1	0	0		A	228404781	A	A	228404781	2	1	187	1	0	0	0	0	0	0	0	1	10831	1074	38	1		1	OBSCN	1	228404781	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5288329	228404781	20845840	75	92858											
OBSCN	84033	broad.mit.edu	37	chr1	228476477	228476477	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggacagacatagcctgagGcaggacggggctgtgtgcga	9	5	19	8	2	0	2	0	1	0	1	0	5	0	4	1	6	2	2	1	6	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:228476477G>A	uc009xez.1	+	38	10271	c.10227G>A	c.(10225-10227)AGG>AGA	p.R3409R	OBSCN_uc001hsn.2_Silent_p.R3409R|OBSCN_uc001hsq.1_Silent_p.R665R	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3409	Ig-like 34.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ATAGCCTGAGGCAGGACGGGG	0.657													34	52					0	0	1	0	0		A	228476477	A	A	228476477	2	1	187	1	0	0	0	0	0	0	0	1	10831	1194	42	2		2	OBSCN	1	228476477	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	71696	228476477	20774144	76	92859											
SIPA1L2	57568	broad.mit.edu	37	chr1	232629283	232629283	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccattacctcacttgtcCtgaaagccaccctgtagttg	8	11	7	15	0	1	1	1	1	0	0	2	1	2	1	6	0	2	2	6	0	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:232629283C>A	uc001hvg.2	-	2	1765	c.1607G>T	c.(1606-1608)AGG>ATG	p.R536M		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	536					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				CTCACTTGTCCTGAAAGCCAC	0.468													81	269					1.39294e-53	1.5498e-53	1	1	0		A	232629283	A	A	232629283	3	1	187	1	0	0	0	0	1	0	0	0	14355	681	24	5	3641	5	SIPA1L2	1	232629283	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4152806	232629283	16621338	77	92860											
HEATR1	55127	broad.mit.edu	37	chr1	236755385	236755385	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcctttaagtgttcctctaAtacaacatctaatgttctgg	10	17	5	9	0	3	0	0	0	3	0	5	0	5	0	2	1	2	2	2	1	5	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:236755385A>T	uc001hyd.1	-	11	1455	c.1330T>A	c.(1330-1332)TTA>ATA	p.L444I		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	444					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TGTTCCTCTAATACAACATCT	0.318													15	56					0	0	1	0	0		T	236755385	T	T	236755385	3	4	187	1	0	0	0	0	1	0	0	0	7043	98	4	5	5244	5	HEATR1	1	236755385	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	4126102	236755385	12495236	78	92861											
OR1C1	26188	broad.mit.edu	37	chr1	247921546	247921546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagtacataggggaatggaGgtgagagtcaaagccaatcg	15	6	15	5	1	1	1	1	1	0	1	2	5	1	3	1	4	2	1	1	4	6	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:247921546G>A	uc010pza.1	-	1	163	c.163C>T	c.(163-165)CTC>TTC	p.L55F		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GGGGAATGGAGGTGAGAGTCA	0.473													10	26					0	0	1	0	0		A	247921546	A	A	247921546	3	1	187	1	0	0	0	0	1	0	0	0	10971	1000	35	4	783	4	OR1C1	1	247921546	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	11166161	247921546	1329075	79	92862											
OR2L2	26246	broad.mit.edu	37	chr1	248202124	248202124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgttccagctatgttgacGctagcctgcacagacacttg	9	11	10	11	1	0	2	0	1	0	1	1	3	1	2	2	0	3	5	2	0	2	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr1:248202124G>A	uc001idw.2	+	1	651	c.555G>A	c.(553-555)ACG>ACA	p.T185T	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			CTATGTTGACGCTAGCCTGCA	0.448													51	231					0	0	1	0	0		A	248202124	A	A	248202124	2	1	187	1	0	0	0	0	0	0	0	1	11026	1074	38	1		1	OR2L2	1	248202124	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	280578	248202124	1048497	80	92863											
NT5C1B	93034	broad.mit.edu	37	chr2	18766000	18766000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attccagcggctgcgagtccCgggtctggcggatttcccgc	4	9	14	14	5	1	0	0	0	1	0	4	2	4	1	3	4	2	1	3	4	0	2	rs150624428		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:18766000C>T	uc002rcz.2	-	5	787	c.683G>A	c.(682-684)CGG>CAG	p.R228Q	NT5C1B_uc002rcy.2_Missense_Mutation_p.R228Q|NT5C1B_uc010exr.2_Missense_Mutation_p.R170Q|NT5C1B_uc010yju.1_Missense_Mutation_p.R168Q|NT5C1B_uc002rda.2_Missense_Mutation_p.R168Q|NT5C1B_uc010yjv.1_Missense_Mutation_p.R245Q|NT5C1B_uc010yjw.1_Missense_Mutation_p.R211Q|NT5C1B_uc010exs.2_Missense_Mutation_p.R230Q|NT5C1B_uc002rdb.1_Missense_Mutation_p.R20Q	NM_001002006	NP_001002006	Q96P26	5NT1B_HUMAN	5' nucleotidase, cytosolic IB isoform 1	228					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			skin(2)|ovary(1)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.177)	Ovarian(717;0.208)				CTGCGAGTCCCGGGTCTGGCG	0.682													6	24					0	0	1	0	0		T	18766000	T	T	18766000	3	4	187	1	0	0	0	0	1	0	0	0	10705	652	23	1	1173	1	NT5C1B	2	18766000	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		18766000	224433373	81	92864											
KIF3C	3797	broad.mit.edu	37	chr2	26204561	26204561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcaggggcctcacggtttCgtcatacaggtcggcctgct	6	11	12	12	3	3	0	3	0	0	0	5	0	3	0	2	5	2	2	2	5	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:26204561C>T	uc002rgu.2	-	1	883	c.226G>A	c.(226-228)GAA>AAA	p.E76K	KIF3C_uc010eyj.1_RNA|KIF3C_uc010ykr.1_Missense_Mutation_p.E76K	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C	76	Kinesin-motor.				blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTCACGGTTTCGTCATACAGG	0.627													27	90					0	0	1	0	0		T	26204561	T	T	26204561	3	4	187	1	0	0	0	0	1	0	0	0	8318	893	31	1	2187	1	KIF3C	2	26204561	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7438561	26204561	216994812	82	92865											
DPYSL5	56896	broad.mit.edu	37	chr2	27157486	27157486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaccactgcacatgccacGctgacaggcttacactacta	12	7	6	16	1	0	1	0	1	0	0	0	1	0	1	3	1	4	3	3	1	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:27157486G>A	uc002rhu.3	+	8	989	c.831G>A	c.(829-831)ACG>ACA	p.T277T	DPYSL5_uc002rhv.3_Silent_p.T277T	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	277					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CACATGCCACGCTGACAGGCT	0.522													69	181					0	0	1	0	0		A	27157486	A	A	27157486	2	1	187	1	0	0	0	0	0	0	0	1	4756	1074	38	1		1	DPYSL5	2	27157486	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	952925	27157486	216041887	83	92866											
MPV17	4358	broad.mit.edu	37	chr2	27535564	27535564	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacctgatccaacaacatctTcttcagtgcatccactttgg	10	12	5	14	0	3	1	1	1	2	0	5	1	5	1	3	1	3	1	3	1	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:27535564T>C	uc002rjr.2	-	3	309	c.262A>G	c.(262-264)AAG>GAG	p.K88E	MPV17_uc002rjq.2_Missense_Mutation_p.K88E|MPV17_uc002rjs.2_Missense_Mutation_p.K88E|MPV17_uc002rjt.2_RNA	NM_002437	NP_002428	P39210	MPV17_HUMAN	Mpv17 protein	88					cellular response to reactive oxygen species|glomerular basement membrane development|homeostatic process|inner ear development|mitochondrial genome maintenance|regulation of reactive oxygen species metabolic process	integral to peroxisomal membrane|mitochondrial inner membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACAACATCTTCTTCAGTGCA	0.522													16	48					0	0	1	0	0		C	27535564	C	C	27535564	3	2	187	1	0	0	0	0	1	0	0	0	9763	1792	62	3	288	3	MPV17	2	27535564	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	378078	27535564	215663809	84	92867											
GTF3C2	2976	broad.mit.edu	37	chr2	27565017	27565017	+	Missense_Mutation	SNP	A	G	G	1	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	tcggtttggtggggctgctcAccttggggccctcaggacag	4	10	16	11	1	2	0	2	0	0	0	3	1	2	1	2	7	1	3	2	7	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:27565017A>G	uc002rjv.1	-	5	1016	c.653T>C	c.(652-654)GTG>GCG	p.V218A	GTF3C2_uc002rju.1_Missense_Mutation_p.V229A|GTF3C2_uc002rjw.1_Missense_Mutation_p.V218A|GTF3C2_uc010eyz.1_Missense_Mutation_p.V218A	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	218						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGGCTGCTCACCTTGGGGCC	0.587													18	49					0	0	1	0	0		G	27565017	G	G	27565017	3	3	187	1	0	0	0	0	1	0	0	0	6889	159	6	3	2146	3	GTF3C2	2	27565017	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	29453	27565017	215634356	85	92868											
ALK	238	broad.mit.edu	37	chr2	29416153	29416153	+	Silent	SNP	T	C	C	0	1	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	gtatcctcgtaatgaccagcTccaggggcagtagcggcttc	8	9	12	12	2	0	1	0	1	0	0	4	1	2	1	3	3	2	6	3	3	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:29416153T>C	uc002rmy.2	-	29	5707	c.4800A>G	c.(4798-4800)GGA>GGG	p.G1600G	ALK_uc010ymo.1_Silent_p.G532G	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1600	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	AATGACCAGCTCCAGGGGCAG	0.542			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				14	49					0	0	1	0	0		C	29416153	C	C	29416153	2	2	187	1	0	0	0	0	0	0	0	1	525	1538	54	3		3	ALK	2	29416153	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1851136	29416153	213783220	86	92869											
HEATR5B	54497	broad.mit.edu	37	chr2	37297377	37297377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catacgtgttacaaacctgcGtaactccaactctcacttca	12	11	4	14	2	2	0	2	0	1	0	4	0	3	0	2	0	6	2	2	0	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:37297377G>A	uc002rpp.1	-	7	1019	c.923C>T	c.(922-924)ACG>ATG	p.T308M		NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	308							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				ACAAACCTGCGTAACTCCAAC	0.299													41	139					0	0	1	0	0		A	37297377	A	A	37297377	3	1	187	1	0	0	0	0	1	0	0	0	7048	1145	40	1	5412	1	HEATR5B	2	37297377	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7881224	37297377	205901996	87	92870											
SLC8A1	6546	broad.mit.edu	37	chr2	40656208	40656208	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aaagaagatcttactaacagGgtcattttcagtcacttcag	14	12	7	8	0	5	2	4	0	1	2	5	2	5	2	0	1	2	0	0	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:40656208G>T	uc002rrx.2	-	1	1237	c.1213C>A	c.(1213-1215)CCT>ACT	p.P405T	SLC8A1_uc002rry.2_Missense_Mutation_p.P405T|SLC8A1_uc002rrz.2_Missense_Mutation_p.P405T|SLC8A1_uc002rsa.2_Missense_Mutation_p.P405T|SLC8A1_uc002rsd.3_Missense_Mutation_p.P405T|SLC8A1_uc002rsb.1_Missense_Mutation_p.P405T|SLC8A1_uc010fan.1_Missense_Mutation_p.P405T|SLC8A1_uc002rsc.1_Missense_Mutation_p.P405T	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	405	Calx-beta 1.|Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	TTACTAACAGGGTCATTTTCA	0.468													22	52					1.22574e-08	1.29877e-08	1	1	0		T	40656208	T	T	40656208	3	4	187	1	0	0	0	0	1	0	0	0	14731	1232	43	5	1856	5	SLC8A1	2	40656208	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3358831	40656208	202543165	88	92871											
MTA3	57504	broad.mit.edu	37	chr2	42935094	42935094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccacctaatatgcagtgtaGattatgtgcaatttgttggc	10	14	9	8	0	0	1	0	0	0	1	0	1	0	1	2	1	2	4	2	1	5	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:42935094G>A	uc002rso.1	+	14	1701	c.1031G>A	c.(1030-1032)AGA>AAA	p.R344K	MTA3_uc002rsp.1_Missense_Mutation_p.R344K|MTA3_uc002rsq.2_Missense_Mutation_p.R401K|MTA3_uc002rsr.2_Missense_Mutation_p.R400K	NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3	401	GATA-type; atypical.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						ATGCAGTGTAGATTATGTGCA	0.383													22	61					0	0	1	0	0		A	42935094	A	A	42935094	3	1	187	1	0	0	0	0	1	0	0	0	9928	942	33	4	1252	4	MTA3	2	42935094	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2278886	42935094	200264279	89	92872											
ZFP36L2	678	broad.mit.edu	37	chr2	43452232	43452232	+	Silent	SNP	G	C	C	0	0	1	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	aggtgcaacgcatcgcgcgtGccaaaggcacgcaggtcccc	9	4	13	15	5	0	0	0	0	0	0	2	0	1	0	3	3	3	4	3	3	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:43452232G>C	uc002rsv.3	-	2	1002	c.711C>G	c.(709-711)GGC>GGG	p.G237G	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	237					cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				CATCGCGCGTGCCAAAGGCAC	0.597													3	29					0	0	1	0	0		C	43452232	C	C	43452232	2	2	187	1	0	0	0	0	0	0	0	1	17672	1306	46	5		5	ZFP36L2	2	43452232	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	517138	43452232	199747141	90	92873											
ABCG8	64241	broad.mit.edu	37	chr2	44078772	44078772	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcactggccgaggtcacggCggcaagatcaagtcaggcca	11	5	13	12	3	4	1	4	0	0	1	4	2	4	1	2	5	0	1	2	5	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:44078772C>T	uc002rtq.2	+	4	462	c.372C>T	c.(370-372)GGC>GGT	p.G124G	ABCG8_uc010yoa.1_Silent_p.G124G	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	124	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GAGGTCACGGCGGCAAGATCA	0.617													23	58					0	0	1	0	0		T	44078772	T	T	44078772	2	4	187	1	0	0	0	0	0	0	0	1	72	755	27	1		1	ABCG8	2	44078772	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	626540	44078772	199120601	91	92874											
FOXN2	3344	broad.mit.edu	37	chr2	48602243	48602243	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgttgtgcatccaggtctagCgtgtcttccctgtcttctgt	3	16	10	12	2	4	0	0	0	4	0	6	0	6	0	2	1	2	2	2	1	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:48602243C>T	uc002rwh.1	+	7	1272	c.957C>T	c.(955-957)AGC>AGT	p.S319S		NM_002158	NP_002149	P32314	FOXN2_HUMAN	T-cell leukemia virus enhancer factor	319					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.0272)|LUSC - Lung squamous cell carcinoma(58;0.036)			CCAGGTCTAGCGTGTCTTCCC	0.438													16	36					0	0	1	0	0		T	48602243	T	T	48602243	2	4	187	1	0	0	0	0	0	0	0	1	6034	767	27	1		1	FOXN2	2	48602243	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4523471	48602243	194597130	92	92875											
STON1-GTF2A1L	286749	broad.mit.edu	37	chr2	48808508	48808508	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgagaaccaagactcacttAgaagtttgtctatgcactgt	12	12	8	9	0	2	3	1	1	1	3	2	4	2	3	1	0	2	2	1	0	5	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:48808508A>C	uc010yol.1	+	1	783	c.736A>C	c.(736-738)AGA>CGA	p.R246R	STON1_uc002rwo.3_Silent_p.R246R|STON1_uc010fbm.2_Silent_p.R246R|STON1-GTF2A1L_uc002rwp.1_Silent_p.R246R|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.R246R	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	246					endocytosis|intracellular protein transport|transcription initiation from RNA polymerase II promoter	clathrin adaptor complex|transcription factor TFIIA complex				ovary(3)|pancreas(1)|skin(1)	5		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			AGACTCACTTAGAAGTTTGTC	0.433													22	75					0	0	1	0	0		C	48808508	C	C	48808508	2	2	187	1	0	0	0	0	0	0	0	1	15342	412	15	5		5	STON1-GTF2A1L	2	48808508	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	206265	48808508	194390865	93	92876											
NRXN1	9378	broad.mit.edu	37	chr2	51254659	51254659	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttggctgcagtccttgccGcggaagccggttcgcgagca	5	8	14	14	5	0	0	0	0	0	0	2	2	1	1	4	3	4	4	4	3	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:51254659G>A	uc010fbq.2	-	2	2230	c.753C>T	c.(751-753)CGC>CGT	p.R251R	NRXN1_uc002rxe.3_Silent_p.R251R|NRXN1_uc002rxd.1_Silent_p.R251R	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			AGTCCTTGCCGCGGAAGCCGG	0.746													9	33					0	0	1	0	0		A	51254659	A	A	51254659	2	1	187	1	0	0	0	0	0	0	0	1	10684	1074	38	1		1	NRXN1	2	51254659	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2446151	51254659	191944714	94	92877											
PSME4	23198	broad.mit.edu	37	chr2	54122183	54122183	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctgccaagcttaggctgCtcttccacaccagcataaac	10	10	6	15	0	2	0	0	0	2	0	3	0	3	0	3	1	5	4	3	1	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:54122183C>T	uc002rxp.2	-	34	3929	c.3873G>A	c.(3871-3873)GAG>GAA	p.E1291E	PSME4_uc010yop.1_Silent_p.E1177E|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Silent_p.E666E|PSME4_uc010fbv.1_Silent_p.E435E	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1291					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			GCTTAGGCTGCTCTTCCACAC	0.383													23	101					0	0	1	0	0		T	54122183	T	T	54122183	2	4	187	1	0	0	0	0	0	0	0	1	12731	796	28	2		2	PSME4	2	54122183	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2867524	54122183	189077190	95	92878											
BCL11A	53335	broad.mit.edu	37	chr2	60688530	60688530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccaccctctcgctctccGtcagctcctcctcctcctct	3	12	4	22	2	4	0	1	0	3	0	11	0	9	0	7	0	1	2	7	0	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:60688530G>A	uc002sae.1	-	4	1745	c.1517C>T	c.(1516-1518)ACG>ATG	p.T506M	BCL11A_uc002sab.2_Missense_Mutation_p.T506M|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.T175M|BCL11A_uc010ypj.1_Missense_Mutation_p.T472M|BCL11A_uc002sad.1_Missense_Mutation_p.T354M|BCL11A_uc002saf.1_Missense_Mutation_p.T472M	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	506	Glu-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CTCGCTCTCCGTCAGctcctc	0.453			T	IGH@	B-CLL								3	11					0	0	1	0	0		A	60688530	A	A	60688530	3	1	187	1	0	0	0	0	1	0	0	0	1364	1145	40	1	1100	1	BCL11A	2	60688530	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6566347	60688530	182510843	96	92879											
CEP68	23177	broad.mit.edu	37	chr2	65296839	65296839	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacaggccagtgatgccaaCagagagcccgtagctgagag	12	4	13	12	1	0	3	0	2	0	2	0	5	0	3	4	1	4	2	4	1	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:65296839C>T	uc002sdl.3	+	2	475	c.261C>T	c.(259-261)AAC>AAT	p.N87N	CEP68_uc002sdj.2_Silent_p.N87N|CEP68_uc010yqb.1_Silent_p.N87N|CEP68_uc002sdk.3_Silent_p.N87N|CEP68_uc010yqc.1_Silent_p.N87N|CEP68_uc010yqd.1_Silent_p.N87N	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	87					centrosome organization	centrosome				skin(1)	1						GTGATGCCAACAGAGAGCCCG	0.632													19	43					0	0	1	0	0		T	65296839	T	T	65296839	2	4	187	1	0	0	0	0	0	0	0	1	3261	477	17	4		4	CEP68	2	65296839	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4608309	65296839	177902534	97	92880											
VAX2	25806	broad.mit.edu	37	chr2	71148374	71148374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtatgtggtgggccgcgagCgcactgagctggcccgccag	6	6	17	12	4	0	1	0	1	0	0	0	2	0	1	3	3	2	3	3	3	1	1	rs150176075		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:71148374C>T	uc002shh.2	+	2	426	c.394C>T	c.(394-396)CGC>TGC	p.R132C		NM_012476	NP_036608	Q9UIW0	VAX2_HUMAN	ventral anterior homeobox 2	132	Homeobox.				ectoderm development|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGCCGCGAGCGCACTGAGCT	0.657													16	48					0	0	1	0	0		T	71148374	T	T	71148374	3	4	187	1	0	0	0	0	1	0	0	0	17161	768	27	1	400	1	VAX2	2	71148374	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5851535	71148374	172050999	98	92881											
ATP6V1B1	525	broad.mit.edu	37	chr2	71191897	71191897	+	Missense_Mutation	SNP	A	C	C	1	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	tgccatcgggaaggacgtgcAggccatgaaggcagtagttg	10	7	16	8	2	0	1	0	1	0	0	1	3	0	3	2	4	2	4	2	4	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:71191897A>C	uc002shj.2	+	13	1367	c.1280A>C	c.(1279-1281)CAG>CCG	p.Q427P	ATP6V1B1_uc010fdv.2_Missense_Mutation_p.Q410P|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Missense_Mutation_p.Q385P	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	427					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						AAGGACGTGCAGGCCATGAAG	0.607											OREG0014686	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	36					0	0	1	0	0		C	71191897	C	C	71191897	3	2	187	1	0	0	0	0	1	0	0	0	1179	188	7	5	1330	5	ATP6V1B1	2	71191897	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	43523	71191897	172007476	99	92882											
C2orf7	84279	broad.mit.edu	37	chr2	73455925	73455925	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcaaggagccctcacccGtctcggccgagcaggaagag	10	3	15	13	3	2	1	1	0	1	1	3	5	2	3	3	4	2	2	3	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:73455925G>A	uc002siy.2	-	4	512	c.444C>T	c.(442-444)GAC>GAT	p.D148D		NM_032319	NP_115695	Q9BSG0	PADC1_HUMAN	chromosome 2 open reading frame 7 precursor	148	PA.					extracellular region					0						GCCCTCACCCGTCTCGGCCGA	0.597													14	17					0	0	1	0	0		A	73455925	A	A	73455925	2	1	187	1	0	0	0	0	0	0	0	1	2192	1136	40	1		1	C2orf7	2	73455925	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2264028	73455925	169743448	100	92883											
RTKN	6242	broad.mit.edu	37	chr2	74653396	74653396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgactggagccaagtgcGaggttggcctttgctgcaga	7	10	16	8	1	0	2	0	1	0	1	0	4	0	3	2	4	4	3	2	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:74653396G>A	uc002sle.2	-	12	1783	c.1666C>T	c.(1666-1668)CGC>TGC	p.R556C	RTKN_uc002slc.2_Missense_Mutation_p.R543C|RTKN_uc002sld.2_Missense_Mutation_p.R506C	NM_001015055	NP_001015055	Q9BST9	RTKN_HUMAN	rhotekin isoform a	556					apoptosis|regulation of anti-apoptosis|Rho protein signal transduction	intracellular	GTP binding|GTP-Rho binding|GTPase inhibitor activity			skin(1)	1						AGCCAAGTGCGAGGTTGGCCT	0.622													59	207					0	0	1	0	0		A	74653396	A	A	74653396	3	1	187	1	0	0	0	0	1	0	0	0	13747	1058	37	1	29	1	RTKN	2	74653396	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1197471	74653396	168545977	101	92884											
TACR1	6869	broad.mit.edu	37	chr2	75278554	75278554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggcgaaggtgcacaccacGacaatcatcattttgaccac	13	8	8	12	2	2	1	2	1	0	0	2	3	2	1	2	2	1	1	2	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:75278554G>A	uc002sng.2	-	4	1341	c.756C>T	c.(754-756)GTC>GTT	p.V252V	TACR1_uc002snh.2_Silent_p.V252V	NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long	252	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	TGCACACCACGACAATCATCA	0.562													17	40					0	0	1	0	0		A	75278554	A	A	75278554	2	1	187	1	0	0	0	0	0	0	0	1	15530	1045	37	1		1	TACR1	2	75278554	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	625158	75278554	167920819	102	92885											
RMND5A	64795	broad.mit.edu	37	chr2	86993070	86993070	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctacttgatgcaaaccagtgGgctgatatctgtgacatctt	10	13	9	9	0	2	3	0	3	2	0	2	3	2	3	1	1	3	2	1	1	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:86993070G>A	uc010ytm.1	+	6	1154	c.777G>A	c.(775-777)TGG>TGA	p.W259*	RMND5A_uc002srs.3_Intron|RMND5A_uc002srr.2_Nonsense_Mutation_p.W259*	NM_022780	NP_073617	Q9H871	RMD5A_HUMAN	required for meiotic nuclear division 5 homolog	259										ovary(1)|skin(1)	2						CAAACCAGTGGGCTGATATCT	0.483													5	93					0	0	1	0	0		A	86993070	A	A	86993070	4	1	187	1	0	0	0	0	0	1	0	0	13422	1241	43	4	799	4	RMND5A	2	86993070	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	11714516	86993070	156206303	103	92886											
FER1L5	90342	broad.mit.edu	37	chr2	97366180	97366180	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtggagacccgcacactgtAcagccacagccagccaggca	11	3	11	16	2	0	1	0	0	0	1	0	2	0	1	4	2	4	3	4	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:97366180A>G	uc010fia.2	+	44	5123	c.5123A>G	c.(5122-5124)TAC>TGC	p.Y1708C	FER1L5_uc002sws.3_Missense_Mutation_p.Y426C|FER1L5_uc002swt.3_Missense_Mutation_p.Y426C|FER1L5_uc010yus.1_Missense_Mutation_p.Y425C	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2	1708						integral to membrane				ovary(1)	1						CGCACACTGTACAGCCACAGC	0.597													20	64					0	0	1	0	0		G	97366180	G	G	97366180	3	3	187	1	0	0	0	0	1	0	0	0	5828	391	14	3	5297	3	FER1L5	2	97366180	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	10373110	97366180	145833193	104	92887											
FER1L5	90342	broad.mit.edu	37	chr2	97368480	97368480	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtgtccagagccagaaggTaacaggcctggggcgtgagg	9	6	18	8	1	0	3	0	1	0	2	1	3	1	3	3	5	2	1	3	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:97368480T>C	uc010fia.2	+	47	5505	c.5505_splice	c.e47+2	p.K1835_splice	FER1L5_uc002sws.3_Splice_Site_p.K544_splice|FER1L5_uc002swt.3_Splice_Site_p.K544_splice|FER1L5_uc010yus.1_Splice_Site_p.K543_splice	NM_001113382	NP_001106853	A0AVI2	FR1L5_HUMAN	fer-1-like 5 isoform 2							integral to membrane				ovary(1)	1						AGCCAGAAGGTAACAGGCCTG	0.622													5	18					0	0	1	0	0		C	97368480	C	C	97368480	5	2	187	1	0	0	0	0	0	0	1	0	5828	1652	57	3	5693	3	FER1L5	2	97368480	Splice_Site	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2300	97368480	145830893	105	92888											
VWA3B	200403	broad.mit.edu	37	chr2	98744813	98744813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacacagtgtccttcaacGccagaggagaaggcactata	13	8	9	11	1	2	2	1	0	1	2	3	3	3	2	2	2	2	1	2	2	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:98744813G>A	uc002syo.2	+	6	1078	c.814G>A	c.(814-816)GCC>ACC	p.A272T	VWA3B_uc010yvh.1_Missense_Mutation_p.A122T|VWA3B_uc002syj.2_RNA|VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Intron|VWA3B_uc002sym.2_Missense_Mutation_p.A272T|VWA3B_uc002syn.1_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	272										ovary(3)|large_intestine(2)|skin(1)	6						GTCCTTCAACGCCAGAGGAGA	0.517													27	67					0	0	1	0	0		A	98744813	A	A	98744813	3	1	187	1	0	0	0	0	1	0	0	0	17267	1087	38	1	832	1	VWA3B	2	98744813	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1376333	98744813	144454560	106	92889											
AFF3	3899	broad.mit.edu	37	chr2	100170816	100170816	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggccatctcccagtagtcGtagctgtgcaggatgctgtt	6	12	12	11	2	1	0	0	0	1	0	4	1	1	1	2	2	3	6	2	2	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:100170816G>A	uc002tag.2	-	23	3752	c.3516C>T	c.(3514-3516)TAC>TAT	p.Y1172Y	AFF3_uc002taf.2_Silent_p.Y1197Y	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1172					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						CCCAGTAGTCGTAGCTGTGCA	0.552													31	98					0	0	1	0	0		A	100170816	A	A	100170816	2	1	187	1	0	0	0	0	0	0	0	1	358	1140	40	1		1	AFF3	2	100170816	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1426003	100170816	143028557	107	92890											
SLC9A2	6549	broad.mit.edu	37	chr2	103324646	103324646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atttgcagcccagagccaggCgcttcttgccagaacagttc	9	9	10	13	1	1	2	0	0	1	2	2	2	1	2	3	1	5	3	3	1	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:103324646C>T	uc002tca.2	+	12	2279	c.2137C>T	c.(2137-2139)CGC>TGC	p.R713C		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	713	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						CAGAGCCAGGCGCTTCTTGCC	0.527													31	126					0	0	1	0	0		T	103324646	T	T	103324646	3	4	187	1	0	0	0	0	1	0	0	0	14737	768	27	1	2183	1	SLC9A2	2	103324646	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3153830	103324646	139874727	108	92891											
POU3F3	5455	broad.mit.edu	37	chr2	105472918	105472918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcggacgaggacacgcCgacgtcggacgacctggagc	9	3	15	14	7	0	0	0	0	0	0	2	7	0	4	2	4	1	1	2	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:105472918C>T	uc010ywg.1	+	1	950	c.950C>T	c.(949-951)CCG>CTG	p.P317L		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	317	POU-specific.				metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						GAGGACACGCCGACGTCGGAC	0.627													3	19					0	0	1	0	0		T	105472918	T	T	105472918	3	4	187	1	0	0	0	0	1	0	0	0	12295	652	23	1	952	1	POU3F3	2	105472918	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2148272	105472918	137726455	109	92892											
ST6GAL2	84620	broad.mit.edu	37	chr2	107459935	107459935	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	cacccgcctcctctggacctGtgcagccggaaaagccccct	7	6	9	19	2	1	0	0	0	1	0	2	2	2	2	7	2	3	1	7	2	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:107459935G>A	uc002tdq.2	-	2	618	c.499C>T	c.(499-501)CAG>TAG	p.Q167*	ST6GAL2_uc002tdr.2_Nonsense_Mutation_p.Q167*|ST6GAL2_uc002tds.3_Nonsense_Mutation_p.Q167*	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	167	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						CTCTGGACCTGTGCAGCCGGA	0.662													50	139					0	0	1	0	0		A	107459935	A	A	107459935	4	1	187	1	0	0	0	0	0	1	0	0	15247	1386	48	4	1197	4	ST6GAL2	2	107459935	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1987017	107459935	135739438	110	92893											
SULT1C3	442038	broad.mit.edu	37	chr2	108875249	108875249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgcaaaagacatgcacCggatcctctacctcttctac	10	9	8	14	1	3	1	0	0	3	1	4	2	4	2	3	2	4	3	3	2	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:108875249C>T	uc010ywo.1	+	5	586	c.586C>T	c.(586-588)CGG>TGG	p.R196W		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	196						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						AGACATGCACCGGATCCTCTA	0.463													22	53					0	0	1	0	0		T	108875249	T	T	108875249	3	4	187	1	0	0	0	0	1	0	0	0	15403	643	23	1	604	1	SULT1C3	2	108875249	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1415314	108875249	134324124	111	92894											
C1QL2	165257	broad.mit.edu	37	chr2	119915206	119915206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatgctggtgccgtcgcCgccgcgcatgaggatgtggt	5	8	15	13	5	0	1	0	1	0	0	1	2	0	2	4	3	2	2	4	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:119915206C>T	uc002tlo.2	-	1	1266	c.640G>A	c.(640-642)GGC>AGC	p.G214S		NM_182528	NP_872334	Q7Z5L3	C1QL2_HUMAN	complement component 1, q subcomponent-like 2	214	C1q.					collagen				pancreas(1)	1						GTGCCGTCGCCGCCGCGCATG	0.637										HNSCC(49;0.14)			10	45					0	0	1	0	0		T	119915206	T	T	119915206	3	4	187	1	0	0	0	0	1	0	0	0	1962	652	23	1	231	1	C1QL2	2	119915206	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	11039957	119915206	123284167	112	92895											
BIN1	274	broad.mit.edu	37	chr2	127828171	127828171	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tccctgccgggccaatcgggCtcatacacctcctgcagaca	8	7	9	17	2	1	1	1	0	0	1	4	1	3	1	5	2	3	2	5	2	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:127828171C>A	uc002tns.1	-	4	618	c.273G>T	c.(271-273)GAG>GAT	p.E91D	BIN1_uc010yzf.1_Missense_Mutation_p.E67D|BIN1_uc010yzg.1_Missense_Mutation_p.E91D|BIN1_uc002tnu.1_Missense_Mutation_p.E91D|BIN1_uc002toa.1_Missense_Mutation_p.E91D|BIN1_uc002tnt.1_Missense_Mutation_p.E91D|BIN1_uc002tnv.1_Missense_Mutation_p.E91D|BIN1_uc002tnw.1_Missense_Mutation_p.E91D|BIN1_uc002tnx.1_Missense_Mutation_p.E91D|BIN1_uc002tny.1_Missense_Mutation_p.E91D|BIN1_uc002tnz.1_Missense_Mutation_p.E91D|BIN1_uc002tob.1_Missense_Mutation_p.E91D|BIN1_uc002toc.1_Missense_Mutation_p.E91D	NM_139343	NP_647593	O00499	BIN1_HUMAN	bridging integrator 1 isoform 1	91	BAR.|Interaction with BIN2.				cell proliferation|endocytosis|interspecies interaction between organisms|multicellular organismal development	actin cytoskeleton|nucleus				ovary(2)|central_nervous_system(2)|skin(2)|lung(1)	7	Colorectal(110;0.0831)			BRCA - Breast invasive adenocarcinoma(221;0.073)		GCCAATCGGGCTCATACACCT	0.592													33	115					1.45844e-13	1.57665e-13	1	1	0		A	127828171	A	A	127828171	3	1	187	1	0	0	0	0	1	0	0	0	1433	796	28	5	1621	5	BIN1	2	127828171	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7912965	127828171	115371202	113	92896											
MGAT5	4249	broad.mit.edu	37	chr2	135099177	135099177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccaggtcctcgttcacctggGactcctgaccaaggaatctg	8	9	10	14	1	2	1	1	1	1	0	5	3	4	3	5	3	0	1	5	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:135099177G>A	uc002ttv.1	+	7	969	c.824G>A	c.(823-825)GGA>GAA	p.G275E		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	275	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0964)		GTTCACCTGGGACTCCTGACC	0.433													11	49					0	0	1	0	0		A	135099177	A	A	135099177	3	1	187	1	0	0	0	0	1	0	0	0	9566	1174	41	4	850	4	MGAT5	2	135099177	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7271006	135099177	108100196	114	92897											
DARS	1615	broad.mit.edu	37	chr2	136670055	136670055	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttaaaaccaaattacttaCgggatttcttgggtcaggca	13	12	8	8	1	2	0	1	0	1	0	2	1	2	1	1	3	3	1	1	3	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:136670055C>T	uc002tux.1	-	13	1414	c.1230_splice	c.e13+1	p.P410_splice	DARS_uc010fnj.1_Splice_Site_p.P310_splice	NM_001349	NP_001340	P14868	SYDC_HUMAN	aspartyl-tRNA synthetase						aspartyl-tRNA aminoacylation|protein complex assembly	cytosol|nuclear membrane|plasma membrane|soluble fraction	aminoacylase activity|aspartate-tRNA ligase activity|ATP binding|nucleic acid binding|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.168)	L-Aspartic Acid(DB00128)	AAATTACTTACGGGATTTCTT	0.299													28	66					0	0	1	0	0		T	136670055	T	T	136670055	5	4	187	1	0	0	0	0	0	0	1	0	4244	550	19	1	290	1	DARS	2	136670055	Splice_Site	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1570878	136670055	106529318	115	92898											
SPOPL	339745	broad.mit.edu	37	chr2	139316735	139316735	+	Silent	SNP	A	G	G	1	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	tgcagttttttcgtgagaggAcaagaatttaaagctcataa	14	13	9	5	1	1	2	1	1	0	2	2	4	1	3	0	1	2	3	0	1	5	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:139316735A>G	uc002tvh.2	+	6	1024	c.624A>G	c.(622-624)GGA>GGG	p.G208G		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	208	BTB.					nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		TCGTGAGAGGACAAGAATTTA	0.333													48	100					0	0	1	0	0		G	139316735	G	G	139316735	2	3	187	1	0	0	0	0	0	0	0	1	15110	262	10	3		3	SPOPL	2	139316735	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	2646680	139316735	103882638	116	92899											
BAZ2B	29994	broad.mit.edu	37	chr2	160206241	160206241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggtgataaagcaaatGgatttaagccaacaggattc	17	8	11	5	0	0	2	0	1	0	1	1	5	0	4	1	3	3	1	1	3	6	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:160206241G>A	uc002uao.2	-	28	5193	c.4841C>T	c.(4840-4842)CCA>CTA	p.P1614L	BAZ2B_uc002uap.2_Missense_Mutation_p.P1578L	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	1614					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						TAAAGCAAATGGATTTAAGCC	0.433													10	48					0	0	1	0	0		A	160206241	A	A	160206241	3	1	187	1	0	0	0	0	1	0	0	0	1333	1348	47	4	1705	4	BAZ2B	2	160206241	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	20889506	160206241	82993132	117	92900											
FASTKD1	79675	broad.mit.edu	37	chr2	170394546	170394546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattatattgttgacagaagCggtcatgaaaccatggaatc	14	12	9	6	1	1	3	1	2	0	1	2	4	1	4	1	2	2	1	1	2	6	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:170394546C>T	uc002uev.3	-	11	2439	c.2051G>A	c.(2050-2052)CGC>CAC	p.R684H	FASTKD1_uc002uew.3_Intron|FASTKD1_uc002uex.3_Intron	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1	684					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						TTGACAGAAGCGGTCATGAAA	0.348													44	126					0	0	1	0	0		T	170394546	T	T	170394546	3	4	187	1	0	0	0	0	1	0	0	0	5699	768	27	1	512	1	FASTKD1	2	170394546	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	10188305	170394546	72804827	118	92901											
HOXD10	3236	broad.mit.edu	37	chr2	176982219	176982219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcccaggtggagagccccGaggccaaaggcggccttccc	7	5	13	16	2	1	1	0	0	1	1	3	3	2	1	6	5	1	0	6	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:176982219G>A	uc002ukj.2	+	1	728	c.658G>A	c.(658-660)GAG>AAG	p.E220K		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	220						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GGAGAGCCCCGAGGCCAAAGG	0.622													9	43					0	0	1	0	0		A	176982219	A	A	176982219	3	1	187	1	0	0	0	0	1	0	0	0	7335	1059	37	1	660	1	HOXD10	2	176982219	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6587673	176982219	66217154	119	92902											
HOXD4	3233	broad.mit.edu	37	chr2	177016724	177016724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccgaccccaagcagccGccctccgggacggcactcaa	9	3	10	19	4	1	0	1	0	0	0	3	2	3	1	6	2	2	2	6	2	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:177016724G>A	uc002uks.2	+	1	612	c.363G>A	c.(361-363)CCG>CCA	p.P121P		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	121						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		CCAAGCAGCCGCCCTCCGGGA	0.488													10	25					0	0	1	0	0		A	177016724	A	A	177016724	2	1	187	1	0	0	0	0	0	0	0	1	7340	1074	38	1		1	HOXD4	2	177016724	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	34505	177016724	66182649	120	92903											
TTN	7273	broad.mit.edu	37	chr2	179470216	179470216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcattgacagctttgacacGgaactcatacatttggtgtt	10	15	8	8	1	2	2	2	2	0	0	2	3	2	3	0	2	3	2	0	2	2	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:179470216G>A	uc010zfg.1	-	228	46326	c.46102C>T	c.(46102-46104)CGT>TGT	p.R15368C	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9063C|TTN_uc010zfi.1_Missense_Mutation_p.R8996C|TTN_uc010zfj.1_Missense_Mutation_p.R8871C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16295							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTTTGACACGGAACTCATAC	0.388													14	70					0	0	1	0	0		A	179470216	A	A	179470216	3	1	187	1	0	0	0	0	1	0	0	0	16761	1116	39	1	54223	1	TTN	2	179470216	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2453492	179470216	63729157	121	92904											
TTN	7273	broad.mit.edu	37	chr2	179482697	179482697	+	Missense_Mutation	SNP	A	G	G	1	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	tcttgtctcttaattcaatgAcgtagtttgtgatctcagca	9	17	7	8	1	4	2	2	2	3	0	6	2	4	2	0	0	1	3	0	0	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:179482697A>G	uc010zfg.1	-	202	39901	c.39677T>C	c.(39676-39678)GTC>GCC	p.V13226A	TTN_uc010zfh.1_Missense_Mutation_p.V6921A|TTN_uc010zfi.1_Missense_Mutation_p.V6854A|TTN_uc010zfj.1_Missense_Mutation_p.V6729A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14153							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAATTCAATGACGTAGTTTGT	0.453													30	87					0	0	1	0	0		G	179482697	G	G	179482697	3	3	187	1	0	0	0	0	1	0	0	0	16761	275	10	3	60752	3	TTN	2	179482697	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	12481	179482697	63716676	122	92905											
GLS	2744	broad.mit.edu	37	chr2	191818296	191818296	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ttcttttcttcacaggtaaaGtcagtgataaatcttttgtt	10	19	6	6	0	5	1	2	1	3	0	5	1	5	1	0	1	0	2	0	1	4	9			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:191818296G>T	uc002usf.2	+	15	1920	c.1656G>T	c.(1654-1656)AAG>AAT	p.K552N	GLS_uc002ush.2_Missense_Mutation_p.K213N|GLS_uc010zgi.1_Missense_Mutation_p.K123N|GLS_uc010zgj.1_Missense_Mutation_p.K57N	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	552					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CACAGGTAAAGTCAGTGATAA	0.388													41	174					2.38262e-10	2.54226e-10	1	1	0		T	191818296	T	T	191818296	3	4	187	1	0	0	0	0	1	0	0	0	6478	1020	36	5	1714	5	GLS	2	191818296	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	12335599	191818296	51381077	123	92906											
GTF3C3	9330	broad.mit.edu	37	chr2	197657712	197657712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttggtttcacgattgagaaCcatctccaatacaaatacat	14	12	5	10	1	2	1	1	1	1	1	3	3	2	1	2	1	3	1	2	1	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:197657712C>T	uc002uts.2	-	3	469	c.379G>A	c.(379-381)GTT>ATT	p.V127I	GTF3C3_uc010zgu.1_Missense_Mutation_p.V127I|GTF3C3_uc002utu.2_Missense_Mutation_p.V127I	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	127						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						CGATTGAGAACCATCTCCAAT	0.264													7	35					0	0	1	0	0		T	197657712	T	T	197657712	3	4	187	1	0	0	0	0	1	0	0	0	6890	507	18	4	2345	4	GTF3C3	2	197657712	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5839416	197657712	45541661	124	92907											
HSPD1	3329	broad.mit.edu	37	chr2	198353798	198353798	+	Silent	SNP	T	C	C	0	1	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	tccttttcatattcactagtTgtgacatctaactgctcaat	10	17	4	10	0	4	1	3	1	1	0	5	1	5	1	1	0	2	2	1	0	4	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:198353798T>C	uc002uui.2	-	9	1280	c.1143A>G	c.(1141-1143)ACA>ACG	p.T381T	HSPD1_uc002uuj.2_Silent_p.T379T|HSPD1_uc010zgx.1_Silent_p.T372T|HSPD1_uc010fsm.2_Silent_p.T192T|HSPD1_uc002uuk.2_Silent_p.T381T	NM_002156	NP_002147	P10809	CH60_HUMAN	chaperonin	381					'de novo' protein folding|activation of caspase activity|B cell cytokine production|B cell proliferation|chaperone-mediated protein complex assembly|interspecies interaction between organisms|isotype switching to IgG isotypes|MyD88-dependent toll-like receptor signaling pathway|negative regulation of apoptosis|positive regulation of apoptosis|positive regulation of interferon-alpha production|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of macrophage activation|positive regulation of T cell activation|positive regulation of T cell mediated immune response to tumor cell|protein maturation|protein refolding|protein stabilization|response to unfolded protein|T cell activation	cell surface|coated pit|coated vesicle|cytosol|early endosome|extracellular space|lipopolysaccharide receptor complex|mitochondrial inner membrane|mitochondrial matrix|stored secretory granule	ATP binding|ATPase activity|cell surface binding|chaperone binding|DNA replication origin binding|lipopolysaccharide binding|p53 binding|single-stranded DNA binding				0			Epithelial(96;0.225)			ATTCACTAGTTGTGACATCTA	0.363													30	88					0	0	1	0	0		C	198353798	C	C	198353798	2	2	187	1	0	0	0	0	0	0	0	1	7444	1799	63	3		3	HSPD1	2	198353798	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	696086	198353798	44845575	125	92908											
NDUFB3	4709	broad.mit.edu	37	chr2	201943745	201943745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaagggatccatggggccGgtaagatgaattaagtaatt	13	10	13	5	1	0	2	0	1	0	1	1	3	1	3	2	4	0	3	2	4	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:201943745G>A	uc002uwx.3	+	2	463	c.140G>A	c.(139-141)CGC>CAC	p.R47H		NM_002491	NP_002482	O43676	NDUB3_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	47					mitochondrial electron transport, NADH to ubiquinone|transport	integral to membrane|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity				0					NADH(DB00157)	CCATGGGGCCGGTAAGATGAA	0.383													12	44					0	0	1	0	0		A	201943745	A	A	201943745	3	1	187	1	0	0	0	0	1	0	0	0	10301	1130	39	1	142	1	NDUFB3	2	201943745	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3589947	201943745	41255628	126	92909											
NOP58	51602	broad.mit.edu	37	chr2	203157521	203157521	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgattgaaatctctgaatatCgaacccagctctatgaatat	14	13	6	8	1	2	4	0	4	2	0	4	5	2	4	1	0	2	1	1	0	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:203157521C>T	uc002uzb.2	+	9	952	c.802C>T	c.(802-804)CGA>TGA	p.R268*	SNORD11_uc002uzd.1_5'Flank	NM_015934	NP_057018	Q9Y2X3	NOP58_HUMAN	NOP58 ribonucleoprotein homolog	268	Nop.				cell growth|rRNA processing|snRNP protein import into nucleus	box C/D snoRNP complex|Cajal body|cytoplasm|pre-snoRNP complex	protein binding|snoRNA binding				0						CTCTGAATATCGAACCCAGCT	0.373													25	73					0	0	1	0	0		T	203157521	T	T	203157521	4	4	187	1	0	0	0	0	0	1	0	0	10559	876	31	1	836	1	NOP58	2	203157521	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1213776	203157521	40041852	127	92910											
FZD5	7855	broad.mit.edu	37	chr2	208631779	208631779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggtcctgcctgtgagcGcggcgctcgcctcggggtag	2	7	17	15	6	0	1	0	1	0	0	3	1	1	1	4	4	2	2	4	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:208631779G>A	uc002vcj.2	-	2	2095	c.1685C>T	c.(1684-1686)GCG>GTG	p.A562V		NM_003468	NP_003459	Q13467	FZD5_HUMAN	frizzled 5 precursor	562	Cytoplasmic (Potential).				angiogenesis|anterior/posterior axis specification, embryo|axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to molecule of bacterial origin|embryonic camera-type eye development|gonad development|labyrinthine layer blood vessel development|positive regulation of interferon-gamma production|positive regulation of transcription from RNA polymerase II promoter|post-embryonic camera-type eye development|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell projection|cell surface|Golgi membrane|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|protein kinase binding|Wnt-protein binding			ovary(2)|lung(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.13)|Lung(261;0.134)		GCCTGTGAGCGCGGCGCTCGC	0.652													17	33					0	0	1	0	0		A	208631779	A	A	208631779	3	1	187	1	0	0	0	0	1	0	0	0	6147	1087	38	1	76	1	FZD5	2	208631779	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5474258	208631779	34567594	128	92911											
FZD5	7855	broad.mit.edu	37	chr2	208633129	208633129	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggcgagcagccggccttgGcgcgctcgcacaccgagcgg	5	3	17	16	8	0	0	0	0	0	0	1	2	0	0	3	4	3	3	3	4	0	1	rs148031109		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:208633129G>T	uc002vcj.2	-	2	745	c.335C>A	c.(334-336)GCC>GAC	p.A112D		NM_003468	NP_003459	Q13467	FZD5_HUMAN	frizzled 5 precursor	112	FZ.|Extracellular (Potential).				angiogenesis|anterior/posterior axis specification, embryo|axonogenesis|brain development|canonical Wnt receptor signaling pathway|cellular response to molecule of bacterial origin|embryonic camera-type eye development|gonad development|labyrinthine layer blood vessel development|positive regulation of interferon-gamma production|positive regulation of transcription from RNA polymerase II promoter|post-embryonic camera-type eye development|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell projection|cell surface|Golgi membrane|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|protein kinase binding|Wnt-protein binding			ovary(2)|lung(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0703)|Epithelial(149;0.13)|Lung(261;0.134)		GCCGGCCTTGGCGCGCTCGCA	0.706													6	17					0.0381472	0.0383991	1	1	0		T	208633129	T	T	208633129	3	4	187	1	0	0	0	0	1	0	0	0	6147	1203	42	5	1426	5	FZD5	2	208633129	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1350	208633129	34566244	129	92912											
PTH2R	5746	broad.mit.edu	37	chr2	209307125	209307125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctctatgtaatgtataccGttggctactccatctctttt	7	17	6	11	1	2	0	0	0	2	0	4	0	3	0	3	1	2	4	3	1	5	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:209307125G>A	uc002vdb.2	+	5	661	c.448G>A	c.(448-450)GTT>ATT	p.V150I	PTH2R_uc010zjb.1_Missense_Mutation_p.V161I	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	150	Helical; Name=1; (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		AATGTATACCGTTGGCTACTC	0.418													39	120					0	0	1	0	0		A	209307125	A	A	209307125	3	1	187	1	0	0	0	0	1	0	0	0	12783	1145	40	1	466	1	PTH2R	2	209307125	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	673996	209307125	33892248	130	92913											
ABCA12	26154	broad.mit.edu	37	chr2	215884358	215884358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggtacagtaagctggctgCtatttcggtgcccagctctg	7	12	12	10	1	1	0	0	0	1	0	2	0	1	0	1	3	5	6	1	3	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:215884358C>T	uc002vew.2	-	12	1670	c.1450G>A	c.(1450-1452)GCA>ACA	p.A484T	ABCA12_uc002vev.2_Missense_Mutation_p.A166T|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	484					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AAGCTGGCTGCTATTTCGGTG	0.433													7	37					0	0	1	0	0		T	215884358	T	T	215884358	3	4	187	1	0	0	0	0	1	0	0	0	30	797	28	2	6505	2	ABCA12	2	215884358	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6577233	215884358	27315015	131	92914											
MREG	55686	broad.mit.edu	37	chr2	216811832	216811832	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcatagttgagcttctgcCactcctgcaggaaaataaaa	14	11	7	9	0	2	1	1	1	1	0	3	2	3	2	2	1	3	3	2	1	6	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:216811832C>T	uc002vfo.2	-	3	556	c.260G>A	c.(259-261)TGG>TAG	p.W87*	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	87						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		GAGCTTCTGCCACTCCTGCAG	0.403													3	12					0	0	1	0	0		T	216811832	T	T	216811832	4	4	187	1	0	0	0	0	0	1	0	0	9778	595	21	4	396	4	MREG	2	216811832	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	927474	216811832	26387541	132	92915											
ABCB6	10058	broad.mit.edu	37	chr2	220075526	220075526	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcttcagtccccgctcGcccacctgtgtcctgtaccc	4	10	7	20	2	2	0	2	0	0	0	5	0	4	0	6	0	2	3	6	0	1	2	rs145427690		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:220075526G>A	uc002vkc.1	-	16	2440	c.2163C>T	c.(2161-2163)GGC>GGT	p.G721G	ABCB6_uc010fwe.1_Silent_p.G675G	NM_005689	NP_005680	Q9NP58	ABCB6_HUMAN	ATP-binding cassette, sub-family B, member 6	721	ABC transporter.				cadmium ion transmembrane transport|cellular iron ion homeostasis|detoxification of cadmium ion|porphyrin biosynthetic process	ATP-binding cassette (ABC) transporter complex|Golgi apparatus|integral to mitochondrial outer membrane|plasma membrane|vacuolar membrane	ATP binding|efflux transmembrane transporter activity|heme binding|heme-transporting ATPase activity			breast(1)|central_nervous_system(1)	2		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)		GTCCCCGCTCGCCCACCTGTG	0.617													4	23					0	0	1	0	0		A	220075526	A	A	220075526	2	1	187	1	0	0	0	0	0	0	0	1	45	1074	38	1		1	ABCB6	2	220075526	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3263694	220075526	23123847	133	92916											
GMPPA	29926	broad.mit.edu	37	chr2	220371039	220371039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgggacgctgggcccgcGtggagggtacccccagtgac	5	5	17	14	4	0	1	0	1	0	0	0	3	0	3	4	4	1	2	4	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:220371039G>A	uc002vlr.2	+	12	1125	c.1057G>A	c.(1057-1059)GTG>ATG	p.V353M	GMPPA_uc002vls.2_Missense_Mutation_p.V353M|GMPPA_uc002vlt.2_Missense_Mutation_p.V406M|GMPPA_uc002vlu.2_Missense_Mutation_p.V406M|GMPPA_uc002vlv.2_Missense_Mutation_p.V353M|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Missense_Mutation_p.V353M	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	353					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		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)		CTGGGCCCGCGTGGAGGGTAC	0.622													31	82					0	0	1	0	0		A	220371039	A	A	220371039	3	1	187	1	0	0	0	0	1	0	0	0	6509	1145	40	1	1099	1	GMPPA	2	220371039	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	295513	220371039	22828334	134	92917											
EPHA4	2043	broad.mit.edu	37	chr2	222429021	222429021	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggtgatccaatcagttcGtagccagttattctggctgg	7	13	12	9	2	2	1	1	1	1	0	5	1	3	1	2	3	1	4	2	3	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:222429021G>A	uc002vmq.2	-	3	295	c.253C>T	c.(253-255)CGA>TGA	p.R85*	EPHA4_uc002vmr.2_Nonsense_Mutation_p.R85*|EPHA4_uc010zlm.1_Nonsense_Mutation_p.R26*|EPHA4_uc010zln.1_Nonsense_Mutation_p.R85*	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	85	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		CAATCAGTTCGTAGCCAGTTA	0.473													40	127					0	0	1	0	0		A	222429021	A	A	222429021	4	1	187	1	0	0	0	0	0	1	0	0	5177	1153	40	1	2767	1	EPHA4	2	222429021	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2057982	222429021	20770352	135	92918											
KIAA1486	57624	broad.mit.edu	37	chr2	226447216	226447216	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttacccctctggaggtcacGaagcttcccgtgctggaaaa	9	9	10	13	2	2	0	1	0	1	0	3	3	3	2	3	3	3	2	3	3	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:226447216G>A	uc002voe.2	+	4	1258	c.1083G>A	c.(1081-1083)ACG>ACA	p.T361T	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.T131T	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	361	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		TGGAGGTCACGAAGCTTCCCG	0.642													7	24					0	0	1	0	0		A	226447216	A	A	226447216	2	1	187	1	0	0	0	0	0	0	0	1	8253	1045	37	1		1	KIAA1486	2	226447216	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4018195	226447216	16752157	136	92919											
B3GNT7	93010	broad.mit.edu	37	chr2	232263333	232263333	+	Silent	SNP	T	C	C	0	1	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	ccgccgtatgcaggcggcggTggcttcctcatggccggcag	4	7	16	14	5	1	0	1	0	0	0	2	0	2	0	4	6	1	4	4	6	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:232263333T>C	uc002vrs.2	+	2	1083	c.903T>C	c.(901-903)GGT>GGC	p.G301G		NM_145236	NP_660279	Q8NFL0	B3GN7_HUMAN	UDP-GlcNAc:betaGal	301	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;3.22e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0139)		CAGGCGGCGGTGGCTTCCTCA	0.652													7	24					0	0	1	0	0		C	232263333	C	C	232263333	2	2	187	1	0	0	0	0	0	0	0	1	1263	1683	59	3		3	B3GNT7	2	232263333	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	5816117	232263333	10936040	137	92920											
ECEL1	9427	broad.mit.edu	37	chr2	233346258	233346258	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcatagagacggacgatGcactcagcctttcgcaggaa	11	9	11	10	3	2	1	2	0	0	1	3	5	2	3	1	2	2	2	1	2	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:233346258G>A	uc002vsv.2	-	14	2152	c.1947C>T	c.(1945-1947)TGC>TGT	p.C649C	ECEL1_uc010fya.1_Silent_p.C647C|ECEL1_uc010fyb.1_Silent_p.C356C	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	649	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		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)		GACGGACGATGCACTCAGCCT	0.652													9	21					0	0	1	0	0		A	233346258	A	A	233346258	2	1	187	1	0	0	0	0	0	0	0	1	4897	1311	46	2		2	ECEL1	2	233346258	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1082925	233346258	9853115	138	92921											
TRPM8	79054	broad.mit.edu	37	chr2	234875353	234875353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagcaactgtctggagctggCggtggaggccacagaccagc	10	5	15	11	1	1	1	0	0	1	1	1	3	1	3	2	5	4	2	2	5	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:234875353C>T	uc002vvh.2	+	15	2019	c.1979C>T	c.(1978-1980)GCG>GTG	p.A660V	TRPM8_uc010fyj.2_Missense_Mutation_p.A348V	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	660	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	CTGGAGCTGGCGGTGGAGGCC	0.552													6	17					0	0	1	0	0		T	234875353	T	T	234875353	3	4	187	1	0	0	0	0	1	0	0	0	16618	768	27	1	2033	1	TRPM8	2	234875353	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1529095	234875353	8324020	139	92922											
COL6A3	1293	broad.mit.edu	37	chr2	238277427	238277427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgaggaacggatcacctggGcgaacctggacacatcgtcc	10	5	12	14	4	1	0	1	0	0	0	3	5	2	3	4	4	2	0	4	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:238277427G>T	uc002vwl.2	-	10	4964	c.4679C>A	c.(4678-4680)GCC>GAC	p.A1560D	COL6A3_uc002vwo.2_Missense_Mutation_p.A1354D|COL6A3_uc010znj.1_Missense_Mutation_p.A953D	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1560	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GATCACCTGGGCGAACCTGGA	0.572													27	116					2.41591e-17	2.64659e-17	1	1	0		T	238277427	T	T	238277427	3	4	187	1	0	0	0	0	1	0	0	0	3704	1203	42	5	4994	5	COL6A3	2	238277427	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3402074	238277427	4921946	140	92923											
ILKAP	80895	broad.mit.edu	37	chr2	239079299	239079299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgcggacttcccttcccGggtctggatcttttcatcct	3	14	10	14	2	3	0	1	0	2	0	6	2	6	2	3	4	1	1	3	4	0	4	rs142248095		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:239079299G>A	uc002vxv.2	-	12	1187	c.1057C>T	c.(1057-1059)CGG>TGG	p.R353W	ILKAP_uc010zns.1_Missense_Mutation_p.R285W|ILKAP_uc002vxw.2_Missense_Mutation_p.R233W	NM_030768	NP_110395	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated protein	353	PP2C-like.					cytoplasm|protein serine/threonine phosphatase complex	metal ion binding|protein binding			ovary(3)	3		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)		TTCCCTTCCCGGGTCTGGATC	0.587													19	34					0	0	1	0	0		A	239079299	A	A	239079299	3	1	187	1	0	0	0	0	1	0	0	0	7730	1115	39	1	125	1	ILKAP	2	239079299	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	801872	239079299	4120074	141	92924											
KIF1A	547	broad.mit.edu	37	chr2	241697895	241697895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgcggtcgtacatctcccGcatcaggtccagacgctgcc	7	7	11	16	5	2	1	1	0	1	1	5	1	3	1	3	2	3	3	3	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:241697895G>A	uc002vzy.2	-	25	2583	c.2437C>T	c.(2437-2439)CGG>TGG	p.R813W	KIF1A_uc010fzk.2_Missense_Mutation_p.R822W|KIF1A_uc002vzz.1_Missense_Mutation_p.R822W	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	813	Potential.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		TACATCTCCCGCATCAGGTCC	0.647													10	15					0	0	1	0	0		A	241697895	A	A	241697895	3	1	187	1	0	0	0	0	1	0	0	0	8299	1086	38	1	2727	1	KIF1A	2	241697895	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2618596	241697895	1501478	142	92925											
SNED1	25992	broad.mit.edu	37	chr2	242002305	242002305	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgcagcacaggctatgagggCgcccactgtgagctgggtaa	9	7	15	10	1	0	2	0	2	0	0	0	2	0	2	1	3	3	5	1	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr2:242002305C>T	uc002wah.1	+	17	2355	c.2355C>T	c.(2353-2355)GGC>GGT	p.G785G	SNED1_uc002wai.1_5'Flank|SNED1_uc002waj.1_5'Flank|SNED1_uc002wak.2_5'Flank	NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	785	EGF-like 11; calcium-binding (Potential).				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		GCTATGAGGGCGCCCACTGTG	0.657													3	12					0	0	1	0	0		T	242002305	T	T	242002305	2	4	187	1	0	0	0	0	0	0	0	1	14870	755	27	1		1	SNED1	2	242002305	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	304410	242002305	1197068	143	92926											
ITPR1	3708	broad.mit.edu	37	chr3	4669509	4669509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaagcagttctggaaagccGctaagcctggggccaacagc	13	5	12	11	1	1	0	0	0	1	0	1	1	1	1	3	3	5	3	3	3	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:4669509G>A	uc003bqa.2	+	5	574	c.226G>A	c.(226-228)GCT>ACT	p.A76T	ITPR1_uc010hbz.2_Missense_Mutation_p.A76T|ITPR1_uc010hca.1_Missense_Mutation_p.A76T|ITPR1_uc011asu.1_Missense_Mutation_p.A76T|ITPR1_uc010hcb.1_Missense_Mutation_p.A76T	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	76	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		CTGGAAAGCCGCTAAGCCTGG	0.522													28	116					0	0	1	0	0		A	4669509	A	A	4669509	3	1	187	1	0	0	0	0	1	0	0	0	7936	1087	38	1	236	1	ITPR1	3	4669509	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		4669509	193352921	144	92927											
ITPR1	3708	broad.mit.edu	37	chr3	4810245	4810245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggtccgggatcagctcctgGaggcctccgctgccaccagg	6	6	14	15	2	1	0	1	0	0	0	4	2	4	2	6	5	2	2	6	5	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:4810245G>A	uc003bqa.2	+	43	5980	c.5632G>A	c.(5632-5634)GAG>AAG	p.E1878K	ITPR1_uc010hca.1_Missense_Mutation_p.E1863K|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.E848K	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1926	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TCAGCTCCTGGAGGCCTCCGC	0.587													10	39					0	0	1	0	0		A	4810245	A	A	4810245	3	1	187	1	0	0	0	0	1	0	0	0	7936	1175	41	4	5950	4	ITPR1	3	4810245	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	140736	4810245	193212185	145	92928											
SETD5	55209	broad.mit.edu	37	chr3	9488801	9488801	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttagagaaaagaaagaagcGgcgggatcagcccttggaac	15	5	13	8	2	1	3	1	0	0	3	1	6	1	5	1	3	3	0	1	3	6	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:9488801G>A	uc003brt.2	+	14	2027	c.1592G>A	c.(1591-1593)CGG>CAG	p.R531Q	SETD5_uc003brs.1_Missense_Mutation_p.R512Q|SETD5_uc003bru.2_Missense_Mutation_p.R433Q|SETD5_uc003brv.2_Missense_Mutation_p.R420Q|SETD5_uc010hck.2_Missense_Mutation_p.R13Q|SETD5_uc003brx.2_Missense_Mutation_p.R200Q	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	531										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		AGAAAGAAGCGGCGGGATCAG	0.448													19	46					0	0	1	0	0		A	9488801	A	A	9488801	3	1	187	1	0	0	0	0	1	0	0	0	14159	1116	39	1	1638	1	SETD5	3	9488801	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4678556	9488801	188533629	146	92929											
BRPF1	7862	broad.mit.edu	37	chr3	9780731	9780731	+	Silent	SNP	C	T	T	0	0	0	1	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	gacgaggaagtagagtatgaCatggacgaggaggactacat	15	6	15	5	2	0	2	0	1	0	1	0	9	0	6	0	4	1	2	0	4	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:9780731C>T	uc003bse.2	+	3	1047	c.648C>T	c.(646-648)GAC>GAT	p.D216D	BRPF1_uc003bsf.2_Silent_p.D216D|BRPF1_uc003bsg.2_Silent_p.D216D|BRPF1_uc011ati.1_Silent_p.D216D	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	216	Interaction with MYST3 and MYST4.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					TAGAGTATGACATGGACGAGG	0.502													11	33					0	0	1	0	0		T	9780731	T	T	9780731	2	4	187	1	0	0	0	0	0	0	0	1	1523	477	17	4		4	BRPF1	3	9780731	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	291930	9780731	188241699	147	92930											
ATP2B2	491	broad.mit.edu	37	chr3	10370624	10370624	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcttgttgagggatgacggCgggctcgagttctgcttgag	5	13	16	7	3	2	3	0	3	2	0	3	5	2	4	0	3	1	4	0	3	0	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:10370624C>T	uc003bvt.2	-	23	4045	c.3606G>A	c.(3604-3606)CCG>CCA	p.P1202P	ATP2B2_uc003bvv.2_Silent_p.P1157P|ATP2B2_uc003bvw.2_Silent_p.P1157P|ATP2B2_uc003bvs.2_RNA|ATP2B2_uc010hdo.2_Silent_p.P907P|hsa-mir-378b|MI0014154_5'Flank	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	1202	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GGGATGACGGCGGGCTCGAGT	0.562													24	71					0	0	1	0	0		T	10370624	T	T	10370624	2	4	187	1	0	0	0	0	0	0	0	1	1141	755	27	1		1	ATP2B2	3	10370624	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	589893	10370624	187651806	148	92931											
SLC6A1	6529	broad.mit.edu	37	chr3	11070970	11070970	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccaggctcctccgcaacCgcagagagctcttcattgct	8	8	8	17	2	2	1	1	0	1	1	4	2	4	1	5	1	3	5	5	1	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:11070970C>T	uc010hdq.2	+	12	1666	c.1255C>T	c.(1255-1257)CGC>TGC	p.R419C		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	419					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	CCTCCGCAACCGCAGAGAGCT	0.572													6	33					0	0	1	0	0		T	11070970	T	T	11070970	3	4	187	1	0	0	0	0	1	0	0	0	14698	652	23	1	1293	1	SLC6A1	3	11070970	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	700346	11070970	186951460	149	92932											
FBLN2	2199	broad.mit.edu	37	chr3	13612536	13612536	+	Frame_Shift_Del	DEL	C	-	-																															gtccaggcaggcgcagggggCcccccagctgctctgggagg																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:13612536delC	uc011avb.1	+	2	806	c.681delC	c.(679-681)GGCfs	p.G227fs	FBLN2_uc011auz.1_Frame_Shift_Del_p.G253fs|FBLN2_uc011ava.1_Frame_Shift_Del_p.G227fs|FBLN2_uc011avc.1_Frame_Shift_Del_p.G227fs	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	227	Subdomain NB (Cys-free).|N.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			GCGCAGGGGGCCCCCCAGCTG	0.701													4	8	---	---	---	---						.	-	13612536	-	-	13612536	7	5	187	1	0	1	0	1	0	0	0	0	5713	726	26	0		0	FBLN2	3	13612536	Frame_Shift_Del	DEL	C	TCGA-D7-A4YV-01A-11D-A25D-08	2541566	13612536	184409894	150	92933											
FBLN2	2199	broad.mit.edu	37	chr3	13613154	13613154	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cattctatccccagaagtagCcctgaaggtaagaccctgtc	11	9	8	13	0	1	3	0	1	1	2	3	3	2	3	4	1	1	2	4	1	5	4	rs111711686		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:13613154C>T	uc011avb.1	+	2	1424	c.1299C>T	c.(1297-1299)AGC>AGT	p.S433S	FBLN2_uc011auz.1_Silent_p.S459S|FBLN2_uc011ava.1_Silent_p.S433S|FBLN2_uc011avc.1_Silent_p.S433S	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	433	Subdomain NB (Cys-free).|N.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			CCAGAAGTAGCCCTGAAGGTA	0.622													7	8					0	0	1	0	0		T	13613154	T	T	13613154	2	4	187	1	0	0	0	0	0	0	0	1	5713	738	26	2		2	FBLN2	3	13613154	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	618	13613154	184409276	151	92934											
FGD5	152273	broad.mit.edu	37	chr3	14861613	14861613	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgacttccctcacaggaagCccctatgagttcttcccaac	9	10	7	15	0	2	2	1	2	1	0	4	3	4	3	4	1	2	1	4	1	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:14861613C>T	uc003bzc.2	+	1	1145	c.1035C>T	c.(1033-1035)AGC>AGT	p.S345S	FGD5_uc011avk.1_Silent_p.S345S	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	345					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						TCACAGGAAGCCCCTATGAGT	0.517													28	89					0	0	1	0	0		T	14861613	T	T	14861613	2	4	187	1	0	0	0	0	0	0	0	1	5850	738	26	2		2	FGD5	3	14861613	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1248459	14861613	183160817	152	92935											
CLASP2	23122	broad.mit.edu	37	chr3	33626368	33626368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agagctcacagtggacagggCtgttgtggtcagaactcttc	9	10	13	9	0	3	2	2	0	1	2	4	3	3	3	0	3	2	3	0	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:33626368C>T	uc003cfu.2	-	22	2467	c.2113G>A	c.(2113-2115)GCC>ACC	p.A705T	CLASP2_uc003cft.2_RNA|CLASP2_uc010hgb.2_RNA|CLASP2_uc011axt.1_Missense_Mutation_p.A298T	NM_015097	NP_055912	B2RTR1	B2RTR1_HUMAN	CLIP-associating protein 2	706										ovary(3)|central_nervous_system(1)	4						GTGGACAGGGCTGTTGTGGTC	0.483													25	63					0	0	1	0	0		T	33626368	T	T	33626368	3	4	187	1	0	0	0	0	1	0	0	0	3458	797	28	2	2475	2	CLASP2	3	33626368	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	18764755	33626368	164396062	153	92936											
TRANK1	9881	broad.mit.edu	37	chr3	36874817	36874817	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaggaggatttccaagcccCctggagccaggcccagaatc	10	6	12	13	0	0	2	0	1	0	1	2	5	1	5	5	4	2	0	5	4	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:36874817C>A	uc003cgj.2	-	12	4777	c.4475G>T	c.(4474-4476)GGG>GTG	p.G1492V		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2042					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TTCCAAGCCCCCTGGAGCCAG	0.522													10	34					1.58986e-06	1.65663e-06	1	1	0		A	36874817	A	A	36874817	3	1	187	1	0	0	0	0	1	0	0	0	16480	623	22	5	2664	5	TRANK1	3	36874817	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3248449	36874817	161147613	154	92937											
CCDC13	152206	broad.mit.edu	37	chr3	42751226	42751226	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgggcacatcggagagctgGgcaaaggatgggtccttctt	9	8	15	9	2	1	1	0	0	1	1	3	3	2	2	1	5	1	3	1	5	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:42751226G>T	uc003cly.3	-	15	2022	c.1938C>A	c.(1936-1938)GCC>GCA	p.A646A		NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	646										ovary(1)	1						CGGAGAGCTGGGCAAAGGATG	0.597													31	129					2.08457e-15	2.26731e-15	1	1	0		T	42751226	T	T	42751226	2	4	187	1	0	0	0	0	0	0	0	1	2768	1219	43	5		5	CCDC13	3	42751226	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5876409	42751226	155271204	155	92938											
ZNF197	10168	broad.mit.edu	37	chr3	44684230	44684230	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatccactctggggaaaaAccctataaatgtgatgaatg	16	9	9	7	0	1	3	0	2	1	1	2	4	2	4	2	2	1	0	2	2	7	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:44684230A>C	uc003cnm.2	+	6	1814	c.1608A>C	c.(1606-1608)AAA>AAC	p.K536N	ZNF197_uc003cnn.2_Intron|ZNF197_uc003cno.2_Intron|ZNF197_uc003cnp.2_Intron	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	536					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		CTGGGGAAAAACCCTATAAAT	0.418													30	96					0	0	1	0	0		C	44684230	C	C	44684230	3	2	187	1	0	0	0	0	1	0	0	0	17784	40	2	5	1626	5	ZNF197	3	44684230	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1933004	44684230	153338200	156	92939											
PRSS50	29122	broad.mit.edu	37	chr3	46754425	46754425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccctgtgggtgtcctccgcaCacatcatctgggacttgatg	6	11	11	13	1	2	1	1	1	1	0	4	2	4	2	3	2	0	1	3	2	0	1	rs143437619	by1000genomes	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:46754425C>T	uc003cqe.1	-	5	946	c.887G>A	c.(886-888)TGT>TAT	p.C296Y	PRSS50_uc003cqf.1_Missense_Mutation_p.C210Y	NM_013270	NP_037402	Q9UI38	TSP50_HUMAN	testes-specific protease 50 precursor	296	Peptidase S1.				proteolysis	endoplasmic reticulum	serine-type endopeptidase activity|threonine-type endopeptidase activity				0						GTCCTCCGCACACATCATCTG	0.498													43	143					0	0	1	0	0		T	46754425	T	T	46754425	3	4	187	1	0	0	0	0	1	0	0	0	12653	478	17	4	278	4	PRSS50	3	46754425	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2070195	46754425	151268005	157	92940											
PTPN23	25930	broad.mit.edu	37	chr3	47452631	47452631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcctgcgccgaggcgccGcagctgcagacctgctctcc	4	7	12	18	4	1	1	0	0	1	1	2	2	1	1	5	1	5	4	5	1	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:47452631G>A	uc003crf.1	+	20	3439	c.3343G>A	c.(3343-3345)GCA>ACA	p.A1115T	PTPN23_uc011baw.1_Missense_Mutation_p.A1080T|PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.A985T|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1115	His.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CCGAGGCGCCGCAGCTGCAGA	0.711													3	9					0	0	1	0	0		A	47452631	A	A	47452631	3	1	187	1	0	0	0	0	1	0	0	0	12813	1087	38	1	3421	1	PTPN23	3	47452631	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	698206	47452631	150569799	158	92941											
BSN	8927	broad.mit.edu	37	chr3	49688124	49688124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccgacccccctgccgcCgcccacctcacagcagcccc	7	2	8	24	3	1	1	1	0	0	1	1	2	1	1	10	0	4	1	10	0	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:49688124C>T	uc003cxe.3	+	4	1712	c.1598C>T	c.(1597-1599)CCG>CTG	p.P533L		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	533					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCCCTGCCGCCGCCCACCTCA	0.642													52	127					0	0	1	0	0		T	49688124	T	T	49688124	3	4	187	1	0	0	0	0	1	0	0	0	1533	652	23	1	1612	1	BSN	3	49688124	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2235493	49688124	148334306	159	92942											
IP6K1	9807	broad.mit.edu	37	chr3	49764604	49764604	+	Missense_Mutation	SNP	A	G	G	1	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	tgatgctgatgaggttctccAggccaaacacgtagcctctg	9	10	11	11	1	2	3	0	3	2	0	3	3	2	3	3	2	3	3	3	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:49764604A>G	uc003cxm.1	-	6	1592	c.1277T>C	c.(1276-1278)CTG>CCG	p.L426P	IP6K1_uc003cxn.1_Missense_Mutation_p.L261P|IP6K1_uc011bcv.1_Missense_Mutation_p.L261P|IP6K1_uc003cxo.2_3'UTR	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	426					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						GAGGTTCTCCAGGCCAAACAC	0.587													20	55					0	0	1	0	0		G	49764604	G	G	49764604	3	3	187	1	0	0	0	0	1	0	0	0	7804	188	7	3	52	3	IP6K1	3	49764604	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	76480	49764604	148257826	160	92943											
C3orf54	389119	broad.mit.edu	37	chr3	49842206	49842206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgacggaggtgggcaccGtgcccgtgctcggccccctc	3	6	17	15	4	0	1	0	1	0	0	2	2	0	2	4	5	2	2	4	5	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:49842206G>A	uc003cxq.1	+	2	783	c.650G>A	c.(649-651)CGT>CAT	p.R217H		NM_203370	NP_976248	Q96EL1	CC054_HUMAN	hypothetical protein LOC389119	215											0				BRCA - Breast invasive adenocarcinoma(193;3.55e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GGTGGGCACCGTGCCCGTGCT	0.652													46	120					0	0	1	0	0		A	49842206	A	A	49842206	3	1	187	1	0	0	0	0	1	0	0	0	2236	1145	40	1	656	1	C3orf54	3	49842206	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	77602	49842206	148180224	161	92944											
RAD54L2	23132	broad.mit.edu	37	chr3	51675812	51675812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgaggaattccttggaaaacGagaagtaccctgtccacctg	12	8	10	11	2	0	1	0	0	0	1	2	5	2	3	4	2	2	1	4	2	5	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:51675812G>A	uc011bdt.1	+	14	2404	c.2279G>A	c.(2278-2280)CGA>CAA	p.R760Q	RAD54L2_uc003dbh.2_Missense_Mutation_p.R351Q|RAD54L2_uc011bdu.1_Missense_Mutation_p.R454Q|RAD54L2_uc003dbj.2_Missense_Mutation_p.R86Q	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	760	Helicase C-terminal.					nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		CTTGGAAAACGAGAAGTACCC	0.483													4	11					0	0	1	0	0		A	51675812	A	A	51675812	3	1	187	1	0	0	0	0	1	0	0	0	13019	1058	37	1	2329	1	RAD54L2	3	51675812	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1833606	51675812	146346618	162	92945											
TLR9	54106	broad.mit.edu	37	chr3	52255795	52255795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccaggcacaggtggaagCagtaccagaggtcccagcca	12	3	14	12	0	0	1	0	0	0	1	1	2	1	2	4	5	3	3	4	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:52255795C>T	uc003dda.1	-	2	3171	c.2537G>A	c.(2536-2538)TGC>TAC	p.C846Y	TLR9_uc003ddb.2_Missense_Mutation_p.C943Y	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	846	Cytoplasmic (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	CAGGTGGAAGCAGTACCAGAG	0.647													25	64					0	0	1	0	0		T	52255795	T	T	52255795	3	4	187	1	0	0	0	0	1	0	0	0	15983	710	25	2	565	2	TLR9	3	52255795	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	579983	52255795	145766635	163	92946											
STAB1	23166	broad.mit.edu	37	chr3	52552802	52552802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctaccacgtggttggctgtCggcggctgcggagcgaggac	5	7	18	11	5	0	0	0	0	0	0	1	3	0	2	1	6	3	4	1	6	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:52552802C>T	uc003dej.2	+	48	5025	c.4951C>T	c.(4951-4953)CGG>TGG	p.R1651W	STAB1_uc003dek.1_5'UTR|STAB1_uc003del.2_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1651	Extracellular (Potential).|FAS1 5.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GGTTGGCTGTCGGCGGCTGCG	0.657													15	30					0	0	1	0	0		T	52552802	T	T	52552802	3	4	187	1	0	0	0	0	1	0	0	0	15262	875	31	1	5141	1	STAB1	3	52552802	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	297007	52552802	145469628	164	92947											
IL17RD	54756	broad.mit.edu	37	chr3	57135251	57135251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagtaggcgaaacactggaCgacattcatgtgattctggc	12	9	12	8	2	2	1	1	1	1	0	2	5	2	2	0	3	1	1	0	3	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:57135251C>T	uc003dil.2	-	11	1209	c.1120G>A	c.(1120-1122)GTC>ATC	p.V374I	IL17RD_uc003dik.2_Missense_Mutation_p.V350I|IL17RD_uc010hna.2_Missense_Mutation_p.V230I|IL17RD_uc011bex.1_Missense_Mutation_p.V230I	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	374	SEFIR.|Cytoplasmic (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		AAACACTGGACGACATTCATG	0.537													11	24					0	0	1	0	0		T	57135251	T	T	57135251	3	4	187	1	0	0	0	0	1	0	0	0	7658	536	19	1	1111	1	IL17RD	3	57135251	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4582449	57135251	140887179	165	92948											
CRYBG3	131544	broad.mit.edu	37	chr3	97595964	97595964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caatatatgacaagaggagaGagacagattatagtgacaaa	20	7	10	4	0	0	6	0	2	0	4	0	8	0	6	0	1	0	0	0	1	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:97595964G>A	uc003drx.2	+	1	146	c.82G>A	c.(82-84)GAG>AAG	p.E28K		NM_153605	NP_705833			beta-gamma crystallin domain containing 3												0						CAAGAGGAGAGAGACAGATTA	0.388													18	43					0	0	1	0	0		A	97595964	A	A	97595964	3	1	187	1	0	0	0	0	1	0	0	0	3916	943	33	4	84	4	CRYBG3	3	97595964	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	40460713	97595964	100426466	166	92949											
PLCXD2	257068	broad.mit.edu	37	chr3	111432785	111432785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcagtaccccttcctgtggCcaggaaagaagattccagcg	11	7	11	12	1	0	2	0	0	0	2	2	3	2	3	5	2	3	2	5	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:111432785C>T	uc003dya.2	+	3	1262	c.676C>T	c.(676-678)CCA>TCA	p.P226S	PLCXD2_uc003dyb.2_Missense_Mutation_p.P226S|PLCXD2_uc003dxz.2_Missense_Mutation_p.P226S	NM_001134478	NP_001127950	Q0VAA5	PLCX2_HUMAN	phosphatidylinositol-specific phospholipase C, X	226					intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(1)	1						CTTCCTGTGGCCAGGAAAGAA	0.483													6	72					0	0	1	0	0		T	111432785	T	T	111432785	3	4	187	1	0	0	0	0	1	0	0	0	12061	739	26	2	686	2	PLCXD2	3	111432785	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	13836821	111432785	86589645	167	92950											
BOC	91653	broad.mit.edu	37	chr3	112998694	112998694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctacaagtttcgagtcCgggctctgaacatgctgggg	7	10	12	12	2	1	1	0	1	1	0	4	2	3	1	3	3	3	3	3	3	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:112998694C>T	uc003dzx.2	+	13	2665	c.2044C>T	c.(2044-2046)CGG>TGG	p.R682W	BOC_uc003dzy.2_Missense_Mutation_p.R682W|BOC_uc003dzz.2_Missense_Mutation_p.R683W|BOC_uc003eab.2_Missense_Mutation_p.R383W|BOC_uc003eac.2_5'UTR	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	682	Fibronectin type-III 2.|Extracellular (Potential).				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			GTTTCGAGTCCGGGCTCTGAA	0.627													30	120					0	0	1	0	0		T	112998694	T	T	112998694	3	4	187	1	0	0	0	0	1	0	0	0	1482	643	23	1	2086	1	BOC	3	112998694	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1565909	112998694	85023736	168	92951											
POPDC2	64091	broad.mit.edu	37	chr3	119379220	119379220	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcctgcttccacctaatgcaCgctgaaccctgcaagagaag	11	8	8	14	1	0	2	0	1	0	1	2	3	2	2	4	0	4	4	4	0	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:119379220C>T	uc003ecx.1	-	1	185	c.51G>A	c.(49-51)GCG>GCA	p.A17A	POPDC2_uc010hqw.1_Silent_p.A17A|POPDC2_uc003ecy.1_Intron	NM_022135	NP_071418	Q9HBU9	POPD2_HUMAN	popeye protein 2	17						integral to membrane				central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.242)		ACCTAATGCACGCTGAACCCT	0.567													13	45					0	0	1	0	0		T	119379220	T	T	119379220	2	4	187	1	0	0	0	0	0	0	0	1	12274	523	19	1		1	POPDC2	3	119379220	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6380526	119379220	78643210	169	92952											
NR1I2	8856	broad.mit.edu	37	chr3	119526207	119526207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcagatgaggaagtcggagGtccccaaatctgccgtgtat	10	8	13	10	3	1	2	0	1	1	1	3	4	2	4	3	3	1	2	3	3	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:119526207G>A	uc003edj.2	+	2	1949	c.110G>A	c.(109-111)GGT>GAT	p.G37D	NR1I2_uc003edi.2_Missense_Mutation_p.G37D|NR1I2_uc003edk.2_Missense_Mutation_p.G76D	NM_003889	NP_003880	O75469	NR1I2_HUMAN	nuclear receptor subfamily 1, group I, member 2	37					drug export|exogenous drug catabolic process|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid metabolic process|xenobiotic metabolic process|xenobiotic transport	nucleoplasm	drug binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(114;0.175)	Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Rifampin(DB01045)|Vitamin E(DB00163)	GAAGTCGGAGGTCCCCAAATC	0.502													23	75					0	0	1	0	0		A	119526207	A	A	119526207	3	1	187	1	0	0	0	0	1	0	0	0	10639	1261	44	4	233	4	NR1I2	3	119526207	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	146987	119526207	78496223	170	92953											
SLC15A2	6565	broad.mit.edu	37	chr3	121658339	121658339	+	Silent	SNP	T	C	C	0	1	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	ggtcttgagttttcttattcTcaggtaagtttttgcaaata	9	19	8	5	0	3	1	1	1	3	0	4	1	3	1	0	2	1	4	0	2	4	9			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:121658339T>C	uc003eep.2	+	20	2058	c.1905T>C	c.(1903-1905)TCT>TCC	p.S635S	SLC15A2_uc011bjn.1_Silent_p.S604S	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	635					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	TTTCTTATTCTCAGGTAAGTT	0.398													5	105					0	0	1	0	0		C	121658339	C	C	121658339	2	2	187	1	0	0	0	0	0	0	0	1	14424	1538	54	3		3	SLC15A2	3	121658339	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2132132	121658339	76364091	171	92954											
UMPS	7372	broad.mit.edu	37	chr3	124462820	124462820	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttattggcaaacgaggttcCgatatcatcattgtaggtcg	10	13	11	7	3	2	0	2	0	0	0	4	2	3	0	1	3	1	4	1	3	4	6	rs112541424	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:124462820C>T	uc003ehl.3	+	6	1438	c.1332C>T	c.(1330-1332)TCC>TCT	p.S444S	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Silent_p.S266S|UMPS_uc011bkb.1_Silent_p.S352S|UMPS_uc011bkc.1_Silent_p.S266S|UMPS_uc003ehn.3_Silent_p.S266S|UMPS_uc011bkd.1_Silent_p.S169S	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	444	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		AACGAGGTTCCGATATCATCA	0.413													26	51					0	0	1	0	0		T	124462820	T	T	124462820	2	4	187	1	0	0	0	0	0	0	0	1	17007	639	23	1		1	UMPS	3	124462820	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2804481	124462820	73559610	172	92955											
PLXNA1	5361	broad.mit.edu	37	chr3	126735442	126735442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatcaacatcaaccgcGcccagctcaccaaccctgag	12	6	5	18	2	5	1	5	1	0	0	5	1	5	1	4	0	4	1	4	0	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:126735442G>A	uc003ejg.2	+	15	3032	c.3028G>A	c.(3028-3030)GCC>ACC	p.A1010T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1033	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CATCAACCGCGCCCAGCTCAC	0.637													29	68					0	0	1	0	0		A	126735442	A	A	126735442	3	1	187	1	0	0	0	0	1	0	0	0	12138	1087	38	1	3155	1	PLXNA1	3	126735442	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2272622	126735442	71286988	173	92956											
IFT122	55764	broad.mit.edu	37	chr3	129202444	129202444	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtgcaccggcagaagctGcagggctttgtggtcggcta	6	9	15	11	2	0	1	0	0	0	1	1	1	0	1	2	4	3	6	2	4	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:129202444G>A	uc003emm.2	+	15	1976	c.1770G>A	c.(1768-1770)CTG>CTA	p.L590L	IFT122_uc003eml.2_Silent_p.L641L|IFT122_uc003emn.2_Silent_p.L531L|IFT122_uc003emo.2_Silent_p.L479L|IFT122_uc003emp.2_Silent_p.L440L|IFT122_uc010htc.2_Silent_p.L582L|IFT122_uc011bky.1_Silent_p.L381L|IFT122_uc003emq.2_Silent_p.L430L|IFT122_uc003emr.2_Silent_p.L381L|IFT122_uc011bla.1_Silent_p.L381L|IFT122_uc011bkx.1_Silent_p.L430L|IFT122_uc011bkz.1_RNA|IFT122_uc010htd.1_Silent_p.L69L	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	590					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						GGCAGAAGCTGCAGGGCTTTG	0.577													8	28					0	0	1	0	0		A	129202444	A	A	129202444	2	1	187	1	0	0	0	0	0	0	0	1	7571	1306	46	2		2	IFT122	3	129202444	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2467002	129202444	68819986	174	92957											
COL6A6	131873	broad.mit.edu	37	chr3	130285684	130285684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattgctccccataaggtgcGggttggggccgttcagtatg	6	11	14	10	2	1	0	1	0	0	0	2	0	2	0	3	4	2	4	3	4	2	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:130285684G>A	uc010htl.2	+	4	1452	c.1421G>A	c.(1420-1422)CGG>CAG	p.R474Q		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	474	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CATAAGGTGCGGGTTGGGGCC	0.493													31	113					0	0	1	0	0		A	130285684	A	A	130285684	3	1	187	1	0	0	0	0	1	0	0	0	3706	1116	39	1	1435	1	COL6A6	3	130285684	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1083240	130285684	67736746	175	92958											
COL6A6	131873	broad.mit.edu	37	chr3	130368359	130368359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgcttgaaatcattcccGtggtgatcactttcagcaac	9	11	9	12	3	3	2	3	2	0	0	4	2	4	2	1	1	2	2	1	1	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:130368359G>A	uc010htl.2	+	32	5717	c.5686G>A	c.(5686-5688)GTG>ATG	p.V1896M	COL6A6_uc003eni.3_Intron	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1896	VWFA 8.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						AATCATTCCCGTGGTGATCAC	0.522													3	9					0	0	1	0	0		A	130368359	A	A	130368359	3	1	187	1	0	0	0	0	1	0	0	0	3706	1145	40	1	5812	1	COL6A6	3	130368359	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	82675	130368359	67654071	176	92959											
EPHB1	2047	broad.mit.edu	37	chr3	134967327	134967327	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggaacccggcaagtctcaAgactgtggcaaccatcaccg	11	5	10	15	3	2	1	2	0	1	1	3	2	2	2	4	3	2	2	4	3	4	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:134967327A>C	uc003eqt.2	+	14	2886	c.2666A>C	c.(2665-2667)AAG>ACG	p.K889T	EPHB1_uc003equ.2_Missense_Mutation_p.K450T	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	889	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCAAGTCTCAAGACTGTGGCA	0.552													4	13					0	0	1	0	0		C	134967327	C	C	134967327	3	2	187	1	0	0	0	0	1	0	0	0	5182	72	3	5	2720	5	EPHB1	3	134967327	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	4598968	134967327	63055103	177	92960											
PRR23A	729627	broad.mit.edu	37	chr3	138724463	138724463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaggcggaattccgggtcGaagaaggggcctggagagtg	11	5	19	6	3	0	3	0	0	0	3	2	6	1	4	2	6	0	0	2	6	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:138724463G>A	uc011bms.1	-	1	648	c.648C>T	c.(646-648)TTC>TTT	p.F216F		NM_001134659	NP_001128131	A6NEV1	PR23A_HUMAN	proline rich 23A	216	Pro-rich.										0						ATTCCGGGTCGAAGAAGGGGC	0.662													8	15					0	0	1	0	0		A	138724463	A	A	138724463	2	1	187	1	0	0	0	0	0	0	0	1	12616	1049	37	1		1	PRR23A	3	138724463	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3757136	138724463	59297967	178	92961											
PRR23B	389151	broad.mit.edu	37	chr3	138739117	138739117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacgtcctccctgacagcGcccaggaaaacgtccacttc	10	6	8	17	4	0	1	0	1	0	0	4	3	3	2	4	1	2	0	4	1	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:138739117G>A	uc003esy.1	-	1	652	c.387C>T	c.(385-387)GGC>GGT	p.G129G		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	129										breast(1)	1						CCCTGACAGCGCCCAGGAAAA	0.647													22	57					0	0	1	0	0		A	138739117	A	A	138739117	2	1	187	1	0	0	0	0	0	0	0	1	12617	1074	38	1		1	PRR23B	3	138739117	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	14654	138739117	59283313	179	92962											
PAQR9	344838	broad.mit.edu	37	chr3	142681852	142681852	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggaagggcacgtcgccGccgctcaggaagaacagacg	10	4	16	11	5	1	2	1	0	0	2	2	4	1	4	2	4	1	2	2	4	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:142681852G>A	uc003evg.2	-	1	327	c.327C>T	c.(325-327)GGC>GGT	p.G109G	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	109	Extracellular (Potential).					integral to membrane	receptor activity				0						GCACGTCGCCGCCGCTCAGGA	0.622													16	25					0	0	1	0	0		A	142681852	A	A	142681852	2	1	187	1	0	0	0	0	0	0	0	1	11461	1074	38	1		1	PAQR9	3	142681852	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3942735	142681852	55340578	180	92963											
ZIC1	7545	broad.mit.edu	37	chr3	147130449	147130449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctacacgcatcccagttCgctgcgcaaacacatgaagg	11	7	9	14	3	0	1	0	1	0	0	3	1	2	1	2	1	3	4	2	1	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:147130449C>T	uc003ewe.2	+	2	1846	c.1127C>T	c.(1126-1128)TCG>TTG	p.S376L		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	376	C2H2-type 5.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CATCCCAGTTCGCTGCGCAAA	0.592													21	60					0	0	1	0	0		T	147130449	T	T	147130449	3	4	187	1	0	0	0	0	1	0	0	0	17703	893	31	1	1133	1	ZIC1	3	147130449	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4448597	147130449	50891981	181	92964											
GYG1	2992	broad.mit.edu	37	chr3	148741948	148741948	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgaggcccatgatcccaaCatgactcatccagagtttct	11	10	8	12	0	2	4	1	3	1	1	4	4	4	4	3	1	1	1	3	1	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:148741948C>T	uc003ewn.2	+	6	770	c.717C>T	c.(715-717)AAC>AAT	p.N239N	GYG1_uc011bnp.1_Missense_Mutation_p.T193I|GYG1_uc003ewo.2_Silent_p.N239N|GYG1_uc003ewp.2_Intron	NM_004130	NP_004121	P46976	GLYG_HUMAN	glycogenin 1	239					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	glycogenin glucosyltransferase activity|metal ion binding|protein binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			ATGATCCCAACATGACTCATC	0.433													4	65					0	0	1	0	0		T	148741948	T	T	148741948	2	4	187	1	0	0	0	0	0	0	0	1	6921	477	17	4		4	GYG1	3	148741948	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1611499	148741948	49280482	182	92965											
SHOX2	6474	broad.mit.edu	37	chr3	157820483	157820483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacctgcactcgggcctccGacaggcccagtcgctggctc	5	7	12	17	3	0	0	0	0	0	0	4	1	1	0	4	3	2	4	4	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:157820483G>A	uc003fbr.2	-	2	678	c.539C>T	c.(538-540)TCG>TTG	p.S180L	SHOX2_uc003fbs.2_Missense_Mutation_p.S204L|SHOX2_uc010hvw.2_Missense_Mutation_p.S180L	NM_006884	NP_006875	O60902	SHOX2_HUMAN	short stature homeobox 2 isoform a	180	Homeobox.				nervous system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			Lung(72;0.00318)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TCGGGCCTCCGACAGGCCCAG	0.622													24	68					0	0	1	0	0		A	157820483	A	A	157820483	3	1	187	1	0	0	0	0	1	0	0	0	14314	1059	37	1	472	1	SHOX2	3	157820483	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9078535	157820483	40201947	183	92966											
BCHE	590	broad.mit.edu	37	chr3	165547357	165547357	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatggatctactcaaaatttCctcggcttttgtgtaattat	10	18	6	7	1	2	0	1	0	1	0	4	1	3	1	1	2	1	2	1	2	6	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:165547357C>A	uc003fem.3	-	2	1625	c.1465G>T	c.(1465-1467)GAA>TAA	p.E489*	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	489					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	CTCAAAATTTCCTCGGCTTTT	0.398													23	56					7.87624e-14	8.52328e-14	1	1	0		A	165547357	A	A	165547357	4	1	187	1	0	0	0	0	0	1	0	0	1359	864	30	5	355	5	BCHE	3	165547357	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7726874	165547357	32475073	184	92967											
BCHE	590	broad.mit.edu	37	chr3	165547582	165547582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacatcacccaaggcctcacGgtagttttcaggtctctgat	10	11	8	12	1	4	1	3	1	1	0	5	1	4	1	2	3	1	2	2	3	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:165547582G>A	uc003fem.3	-	2	1400	c.1240C>T	c.(1240-1242)CGT>TGT	p.R414C	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	414			R -> C (in BChE deficiency).		choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	AAGGCCTCACGGTAGTTTTCA	0.403													27	58					0	0	1	0	0		A	165547582	A	A	165547582	3	1	187	1	0	0	0	0	1	0	0	0	1359	1116	39	1	580	1	BCHE	3	165547582	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	225	165547582	32474848	185	92968											
SPATA16	83893	broad.mit.edu	37	chr3	172834946	172834946	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactgtcctgctgccaaggcGtatttcttttgtctatagca	8	15	8	10	1	2	0	0	0	2	0	3	0	3	0	2	1	4	3	2	1	5	6	rs146363552		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:172834946G>A	uc003fin.3	-	2	734	c.576C>T	c.(574-576)TAC>TAT	p.Y192Y		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	192					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			CTGCCAAGGCGTATTTCTTTT	0.403													29	130					0	0	1	0	0		A	172834946	A	A	172834946	2	1	187	1	0	0	0	0	0	0	0	1	15026	1140	40	1		1	SPATA16	3	172834946	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7287364	172834946	25187484	186	92969											
PIK3CA	5290	broad.mit.edu	37	chr3	178916936	178916936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattgaaccagtaggcaaccGtgaagaaaagatcctcaatc	17	7	8	9	1	1	4	1	2	0	2	3	4	2	4	3	1	2	2	3	1	8	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:178916936G>A	uc003fjk.2	+	2	480	c.323G>A	c.(322-324)CGT>CAT	p.R108H		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	108	PI3K-ABD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R108H(5)|p.G106_R108del(2)|p.R108P(1)|p.R108del(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GTAGGCAACCGTGAAGAAAAG	0.338		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			17	57					0	0	1	0	0		A	178916936	A	A	178916936	3	1	187	1	0	0	0	0	1	0	0	0	11932	1145	40	1	325	1	PIK3CA	3	178916936	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6081990	178916936	19105494	187	92970											
DCUN1D1	54165	broad.mit.edu	37	chr3	182662919	182662919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttgtcccagcaatttgagggCgtgcaaattccacaaagtca	12	10	9	10	1	1	1	1	1	0	0	3	1	3	1	2	1	2	2	2	1	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:182662919C>T	uc003fld.1	-	7	792	c.743G>A	c.(742-744)CGC>CAC	p.R248H	DCUN1D1_uc011bqn.1_Missense_Mutation_p.R105H	NM_020640	NP_065691	Q96GG9	DCNL1_HUMAN	RP42 homolog	248	DCUN1.					ubiquitin ligase complex	protein binding			ovary(1)	1	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)			AATTTGAGGGCGTGCAAATTC	0.373													19	40					0	0	1	0	0		T	182662919	T	T	182662919	3	4	187	1	0	0	0	0	1	0	0	0	4316	768	27	1	40	1	DCUN1D1	3	182662919	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3745983	182662919	15359511	188	92971											
LAMP3	27074	broad.mit.edu	37	chr3	182872122	182872122	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgctgcagtaggttgagaaTaatctctggtttctggaaat	10	14	11	6	0	2	1	0	1	2	1	3	3	2	2	0	3	2	5	0	3	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:182872122T>C	uc003flh.3	-	2	331	c.107A>G	c.(106-108)TAT>TGT	p.Y36C		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	36	Lumenal (Potential).				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			AGGTTGAGAATAATCTCTGGT	0.393													29	84					0	0	1	0	0		C	182872122	C	C	182872122	3	2	187	1	0	0	0	0	1	0	0	0	8635	1406	49	3	1163	3	LAMP3	3	182872122	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	209203	182872122	15150308	189	92972											
KLHL24	54800	broad.mit.edu	37	chr3	183368193	183368193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagagaggatcttggggtgCgtgattccccagcaactaag	11	8	13	9	1	1	2	0	1	1	1	2	4	2	3	2	3	3	1	2	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:183368193C>T	uc003flv.2	+	3	344	c.49C>T	c.(49-51)CGT>TGT	p.R17C	KLHL24_uc003flw.2_Missense_Mutation_p.R17C|KLHL24_uc003flx.2_Missense_Mutation_p.R17C	NM_017644	NP_060114	Q6TFL4	KLH24_HUMAN	DRE1 protein	17						axon|cytoplasm|perikaryon				ovary(1)	1	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)			TCTTGGGGTGCGTGATTCCCC	0.413													17	46					0	0	1	0	0		T	183368193	T	T	183368193	3	4	187	1	0	0	0	0	1	0	0	0	8395	768	27	1	51	1	KLHL24	3	183368193	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	496071	183368193	14654237	190	92973											
MUC4	4585	broad.mit.edu	37	chr3	195481223	195481223	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcggccgaaggtgcccccGtcacacttgcagccagccac	8	5	11	17	3	1	0	1	0	0	0	1	1	1	0	5	2	5	1	5	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:195481223G>A	uc011bto.1	-	20	15265	c.14805C>T	c.(14803-14805)GAC>GAT	p.D4935D	MUC4_uc010hzq.2_5'Flank|MUC4_uc003fuz.2_Silent_p.D661D|MUC4_uc003fva.2_Silent_p.D543D|MUC4_uc003fvb.2_Silent_p.D579D|MUC4_uc003fvc.2_Intron|MUC4_uc003fvd.2_Intron|MUC4_uc003fve.2_Silent_p.D579D|MUC4_uc010hzr.2_Intron|MUC4_uc011btf.1_Silent_p.D543D|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Silent_p.D627D|MUC4_uc011bti.1_Silent_p.D627D|MUC4_uc011btj.1_Silent_p.D804D|MUC4_uc011btk.1_Silent_p.D543D|MUC4_uc011btl.1_Silent_p.D572D|MUC4_uc011btm.1_Silent_p.D752D|MUC4_uc011btn.1_Silent_p.D543D|MUC4_uc003fvo.2_Silent_p.D827D|MUC4_uc003fvp.2_Silent_p.D776D	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1820					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGGTGCCCCCGTCACACTTGC	0.652													13	37					0	0	1	0	0		A	195481223	A	A	195481223	2	1	187	1	0	0	0	0	0	0	0	1	9996	1136	40	1		1	MUC4	3	195481223	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	12113030	195481223	2541207	191	92974											
MFI2	4241	broad.mit.edu	37	chr3	196743090	196743090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagagcagacccttcatggCgtgcaggtactcatggccca	10	7	11	13	1	2	2	2	0	0	2	2	2	2	2	2	3	3	3	2	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:196743090C>T	uc003fxk.3	-	8	1164	c.1051G>A	c.(1051-1053)GCC>ACC	p.A351T		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	351	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		CCCTTCATGGCGTGCAGGTAC	0.602													17	22					0	0	1	0	0		T	196743090	T	T	196743090	3	4	187	1	0	0	0	0	1	0	0	0	9540	768	27	1	1201	1	MFI2	3	196743090	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1261867	196743090	1279340	192	92975											
BDH1	622	broad.mit.edu	37	chr3	197239128	197239128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcccagggggtacatctcatAgcgcaggcagtccgagaaag	11	5	14	11	2	1	1	1	0	1	1	3	2	2	1	2	3	2	3	2	3	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr3:197239128A>G	uc003fxr.2	-	8	1072	c.670T>C	c.(670-672)TAT>CAT	p.Y224H	BDH1_uc003fxs.2_Missense_Mutation_p.Y224H|BDH1_uc003fxt.2_Missense_Mutation_p.Y137H|BDH1_uc003fxu.2_Missense_Mutation_p.Y224H	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	224					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	TACATCTCATAGCGCAGGCAG	0.622													14	53					0	0	1	0	0		G	197239128	G	G	197239128	3	3	187	1	0	0	0	0	1	0	0	0	1391	420	15	3	365	3	BDH1	3	197239128	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	496038	197239128	783302	193	92976											
ZNF732	654254	broad.mit.edu	37	chr4	265307	265307	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttgccacactcttcacattTgtaaggtttctctccagtat	8	17	5	11	0	3	0	1	0	2	0	5	0	4	0	2	1	1	3	2	1	2	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:265307T>C	uc011buu.1	-	3	1350	c.1336A>G	c.(1336-1338)AAA>GAA	p.K446E	ZNF732_uc010ibb.1_Intron	NM_001137608	NP_001131080	B4DXR9	ZN732_HUMAN	zinc finger protein 732	447	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTTCACATTTGTAAGGTTTC	0.418													3	19					0	0	1	0	0		C	265307	C	C	265307	3	2	187	1	0	0	0	0	1	0	0	0	18148	1821	63	3	422	3	ZNF732	4	265307	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08		265307	190888969	194	92977											
GAK	2580	broad.mit.edu	37	chr4	860170	860170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acccaggtgcaggaagtcggCgctgcaggatgggggcggag	8	4	20	9	3	0	0	0	0	0	0	1	3	0	3	1	7	2	3	1	7	1	0	rs140672161		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:860170C>T	uc003gbm.3	-	22	3224	c.3025G>A	c.(3025-3027)GCC>ACC	p.A1009T	GAK_uc003gbn.3_Missense_Mutation_p.A930T|GAK_uc010ibi.2_Missense_Mutation_p.A190T|GAK_uc010ibj.2_RNA|GAK_uc003gbl.3_Missense_Mutation_p.A862T	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	1009					cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		AGGAAGTCGGCGCTGCAGGAT	0.627													14	57					0	0	1	0	0		T	860170	T	T	860170	3	4	187	1	0	0	0	0	1	0	0	0	6210	768	27	1	938	1	GAK	4	860170	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	594863	860170	190294106	195	92978											
EVC2	132884	broad.mit.edu	37	chr4	5624401	5624401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctccccctccagctgctcGgcccgtgcagccatctcctt	3	10	7	21	2	1	0	0	0	1	0	6	0	4	0	7	1	4	3	7	1	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:5624401G>A	uc003gij.2	-	14	2418	c.2364C>T	c.(2362-2364)GCC>GCT	p.A788A	EVC2_uc011bwb.1_Silent_p.A228A|EVC2_uc003gik.2_Silent_p.A708A	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	788	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						CCAGCTGCTCGGCCCGTGCAG	0.647													15	42					0	0	1	0	0		A	5624401	A	A	5624401	2	1	187	1	0	0	0	0	0	0	0	1	5294	1103	39	1		1	EVC2	4	5624401	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4764231	5624401	185529875	196	92979											
EVC	2121	broad.mit.edu	37	chr4	5733348	5733348	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcagccgcaccttcctccGggtgaacgccttccctgaag	6	9	9	17	3	1	2	1	2	1	0	5	2	4	2	6	1	2	1	6	1	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:5733348G>T	uc003gil.1	+	4	765	c.581G>T	c.(580-582)CGG>CTG	p.R194L	EVC_uc003gim.1_RNA	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	194					muscle organ development	integral to membrane		p.R194R(1)		ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				ACCTTCCTCCGGGTGAACGCC	0.627													17	45					1.67942e-08	1.77595e-08	1	1	0		T	5733348	T	T	5733348	3	4	187	1	0	0	0	0	1	0	0	0	5293	1116	39	5	595	5	EVC	4	5733348	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	108947	5733348	185420928	197	92980											
WFS1	7466	broad.mit.edu	37	chr4	6303575	6303575	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaaggagaccaacatggcgCgcacccagatcctctgcagc	11	4	12	14	2	1	2	0	0	1	2	2	4	2	3	3	3	3	2	3	3	2	0	rs112967046		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:6303575C>T	uc003giy.2	+	8	2219	c.2053C>T	c.(2053-2055)CGC>TGC	p.R685C	WFS1_uc003gix.2_Missense_Mutation_p.R685C|WFS1_uc003giz.2_Missense_Mutation_p.R503C	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	685					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CAACATGGCGCGCACCCAGAT	0.637													22	48					0	0	1	0	0		T	6303575	T	T	6303575	3	4	187	1	0	0	0	0	1	0	0	0	17386	768	27	1	2079	1	WFS1	4	6303575	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	570227	6303575	184850701	198	92981											
CCDC96	257236	broad.mit.edu	37	chr4	7044597	7044597	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccttgatcttggacggccgCgcggccaggctttccccgtc	3	9	13	16	5	1	1	0	1	1	0	3	2	2	2	5	4	0	1	5	4	0	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:7044597C>T	uc003gjv.2	-	1	132	c.69G>A	c.(67-69)GCG>GCA	p.A23A	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	23											0						TGGACGGCCGCGCGGCCAGGC	0.706													3	12					0	0	1	0	0		T	7044597	T	T	7044597	2	4	187	1	0	0	0	0	0	0	0	1	2877	755	27	1		1	CCDC96	4	7044597	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	741022	7044597	184109679	199	92982											
SORCS2	57537	broad.mit.edu	37	chr4	7728548	7728548	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgacaacgcggttttcGgacacgggcgacgtgcgtgt	6	10	15	10	7	1	1	0	1	1	0	2	3	1	2	0	3	2	1	0	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:7728548G>A	uc003gkb.3	+	21	2787	c.2787G>A	c.(2785-2787)TCG>TCA	p.S929S	SORCS2_uc011bwi.1_Silent_p.S757S	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	929	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						CGCGGTTTTCGGACACGGGCG	0.657													33	100					0	0	1	0	0		A	7728548	A	A	7728548	2	1	187	1	0	0	0	0	0	0	0	1	14956	1103	39	1		1	SORCS2	4	7728548	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	683951	7728548	183425728	200	92983											
BOD1L	259282	broad.mit.edu	37	chr4	13600885	13600885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaagaaaggaatgctcagCcacggtcccttgaacaggtg	13	6	13	9	1	1	2	1	1	0	1	2	4	2	4	2	4	3	1	2	4	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:13600885C>T	uc003gmz.1	-	10	7756	c.7639G>A	c.(7639-7641)GCT>ACT	p.A2547T	BOD1L_uc010idr.1_Missense_Mutation_p.A1884T	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2547							DNA binding			ovary(5)|breast(1)	6						GAATGCTCAGCCACGGTCCCT	0.488											OREG0016115	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	26					0	0	1	0	0		T	13600885	T	T	13600885	3	4	187	1	0	0	0	0	1	0	0	0	1484	739	26	2	1584	2	BOD1L	4	13600885	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5872337	13600885	177553391	201	92984											
KLF3	51274	broad.mit.edu	37	chr4	38690460	38690460	+	Frame_Shift_Del	DEL	A	-	-																															ccttcttccagcccaccgatAaaaaaatactcacccccttc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:38690460delA	uc003gth.3	+	3	644	c.312delA	c.(310-312)ATAfs	p.I104fs	KLF3_uc003gtg.2_Frame_Shift_Del_p.I104fs	NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	104	Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						GCCCACCGATAAAAAAATACT	0.617													45	80	---	---	---	---						.	-	38690460	-	-	38690460	7	5	187	1	0	1	0	1	0	0	0	0	8363	352	13	0	318	0	KLF3	4	38690460	Frame_Shift_Del	DEL	A	TCGA-D7-A4YV-01A-11D-A25D-08	25089575	38690460	152463816	202	92985											
WDR19	57728	broad.mit.edu	37	chr4	39188158	39188158	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatgttctgattgctttcaGagctgattatattgtgaaaa	11	18	8	4	0	2	4	1	3	1	1	2	4	2	4	0	0	2	3	0	0	5	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:39188158G>T	uc003gtv.2	+	3	253	c.99_splice	c.e3-1	p.G33_splice	WDR19_uc010ifl.1_Splice_Site|WDR19_uc003gtu.1_Splice_Site_p.G33_splice|WDR19_uc011byi.1_Splice_Site	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19						cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						ATTGCTTTCAGAGCTGATTAT	0.209													7	15					0.000157383	0.000162093	1	1	0		T	39188158	T	T	39188158	5	4	187	1	0	0	0	0	0	0	1	0	17305	956	33	5	108	5	WDR19	4	39188158	Splice_Site	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	497698	39188158	151966118	203	92986											
CORIN	10699	broad.mit.edu	37	chr4	47788851	47788851	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgctctggttataaattgtAtttgtaagaataacatcgga	13	15	9	4	1	1	1	0	0	1	1	2	2	1	2	0	2	2	4	0	2	7	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:47788851A>G	uc003gxm.2	-	3	393	c.300T>C	c.(298-300)AAT>AAC	p.N100N	CORIN_uc011bzf.1_5'UTR|CORIN_uc011bzg.1_Intron|CORIN_uc011bzh.1_Silent_p.N100N|CORIN_uc011bzi.1_Silent_p.N100N|CORIN_uc003gxn.3_Silent_p.N100N	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	100	Extracellular (Potential).				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						TATAAATTGTATTTGTAAGAA	0.443													17	32					0	0	1	0	0		G	47788851	G	G	47788851	2	3	187	1	0	0	0	0	0	0	0	1	3755	446	16	3		3	CORIN	4	47788851	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	8600693	47788851	143365425	204	92987											
EPHA5	2044	broad.mit.edu	37	chr4	66189849	66189849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagttacaatggcaccattcCgtttaccagctgcaccttca	11	11	6	13	1	1	0	1	0	0	0	2	0	2	0	4	1	4	5	4	1	4	5	rs139793674		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:66189849C>T	uc003hcy.2	-	18	3290	c.3097G>A	c.(3097-3099)GGA>AGA	p.G1033R	EPHA5_uc003hcx.2_Missense_Mutation_p.G965R|EPHA5_uc003hcz.2_Missense_Mutation_p.G1011R|EPHA5_uc011cah.1_Missense_Mutation_p.G1034R|EPHA5_uc011cai.1_Missense_Mutation_p.G1012R	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	1033	Cytoplasmic (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						GGCACCATTCCGTTTACCAGC	0.418										TSP Lung(17;0.13)			8	63					0	0	1	0	0		T	66189849	T	T	66189849	3	4	187	1	0	0	0	0	1	0	0	0	5178	661	23	1	20	1	EPHA5	4	66189849	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	18400998	66189849	124964427	205	92988											
TMPRSS11D	9407	broad.mit.edu	37	chr4	68688175	68688175	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atccccacaataaaccaaagCcgccgtgagtcttcttgtac	12	9	6	14	2	2	1	0	1	2	0	3	1	3	1	5	0	3	1	5	0	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:68688175C>T	uc003hdq.2	-	10	1202	c.1137G>A	c.(1135-1137)CGG>CGA	p.R379R	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_Silent_p.R160R|TMPRSS11D_uc011caj.1_Silent_p.R262R	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	379	Peptidase S1.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						TAAACCAAAGCCGCCGTGAGT	0.463													22	96					0	0	1	0	0		T	68688175	T	T	68688175	2	4	187	1	0	0	0	0	0	0	0	1	16266	726	26	2		2	TMPRSS11D	4	68688175	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2498326	68688175	122466101	206	92989											
SMR3A	26952	broad.mit.edu	37	chr4	71232500	71232500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtccagggagatttccacCacccctttctccaccctatg	7	11	7	16	0	1	1	0	0	1	1	4	2	3	1	7	2	0	0	7	2	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:71232500C>A	uc003hfg.1	+	3	275	c.194C>A	c.(193-195)CCA>CAA	p.P65Q	SMR3B_uc011cas.1_Intron	NM_012390	NP_036522	Q99954	SMR3A_HUMAN	submaxillary gland androgen regulated protein 3	65	Pro-rich.					extracellular region					0		all_hematologic(202;0.196)				AGATTTCCACCACCCCTTTCT	0.547													24	96					9.57634e-11	1.02487e-10	1	1	0		A	71232500	A	A	71232500	3	1	187	1	0	0	0	0	1	0	0	0	14836	594	21	5	200	5	SMR3A	4	71232500	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2544325	71232500	119921776	207	92990											
GK2	2712	broad.mit.edu	37	chr4	80328918	80328918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttactgcactgaagtaagtgCtgagtggaaggcctgtctta	10	12	12	7	0	1	2	0	2	1	0	1	3	1	3	1	2	3	3	1	2	5	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:80328918C>T	uc003hlu.2	-	1	455	c.437G>A	c.(436-438)AGC>AAC	p.S146N		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	146					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						GAAGTAAGTGCTGAGTGGAAG	0.413													38	94					0	0	1	0	0		T	80328918	T	T	80328918	3	4	187	1	0	0	0	0	1	0	0	0	6436	797	28	2	1228	2	GK2	4	80328918	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9096418	80328918	110825358	208	92991											
FAM13A	10144	broad.mit.edu	37	chr4	89859380	89859380	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgttccttcatgccttcaagCccaggtggcacactagaaac	10	10	8	13	0	2	1	2	0	0	1	3	1	3	1	3	2	3	2	3	2	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:89859380C>T	uc003hse.1	-	5	826	c.618G>A	c.(616-618)GGG>GGA	p.G206G	FAM13A_uc003hsf.1_5'UTR|FAM13A_uc003hsh.1_Silent_p.G20G	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	206	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						TGCCTTCAAGCCCAGGTGGCA	0.393													11	38					0	0	1	0	0		T	89859380	T	T	89859380	2	4	187	1	0	0	0	0	0	0	0	1	5463	726	26	2		2	FAM13A	4	89859380	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9530462	89859380	101294896	209	92992											
UNC5C	8633	broad.mit.edu	37	chr4	96140425	96140425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agacaggtcctctgtacatgGctgcagctgacgtgaggtct	8	10	13	10	1	2	3	0	2	2	1	3	3	3	3	1	3	3	4	1	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:96140425G>A	uc003htp.1	-	9	1494	c.1340C>T	c.(1339-1341)GCC>GTC	p.A447V	UNC5C_uc010ilc.1_Missense_Mutation_p.A466V|UNC5C_uc003htq.2_Missense_Mutation_p.A466V	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	447	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TCTGTACATGGCTGCAGCTGA	0.483													71	192					0	0	1	0	0		A	96140425	A	A	96140425	3	1	187	1	0	0	0	0	1	0	0	0	17019	1203	42	2	1487	2	UNC5C	4	96140425	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6281045	96140425	95013851	210	92993											
RG9MTD2	93587	broad.mit.edu	37	chr4	100479244	100479244	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcaaaactacagtcaataaTaaggcgaagggtgctatgaa	18	8	9	6	1	2	1	2	1	0	0	2	2	2	1	0	2	3	1	0	2	9	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:100479244T>C	uc003huy.2	-	3	623	c.310A>G	c.(310-312)ATT>GTT	p.I104V	RG9MTD2_uc003huz.3_Missense_Mutation_p.I104V|RG9MTD2_uc003hva.3_Missense_Mutation_p.I104V	NM_152292	NP_689505	Q8TBZ6	RG9D2_HUMAN	RNA (guanine-9-) methyltransferase domain	104							methyltransferase activity			ovary(2)|breast(1)	3				OV - Ovarian serous cystadenocarcinoma(123;1.7e-08)		CAGTCAATAATAAGGCGAAGG	0.348													8	26					0	0	1	0	0		C	100479244	C	C	100479244	3	2	187	1	0	0	0	0	1	0	0	0	13297	1406	49	3	733	3	RG9MTD2	4	100479244	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	4338819	100479244	90675032	211	92994											
DNAJB14	79982	broad.mit.edu	37	chr4	100824939	100824939	+	Missense_Mutation	SNP	A	G	G	1	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	tagtcacataatcttcctccAcactcttttctaccttttgt	8	18	2	13	0	4	0	1	0	3	0	6	0	6	0	3	0	1	0	3	0	3	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:100824939A>G	uc003hvl.2	-	7	1110	c.959T>C	c.(958-960)GTG>GCG	p.V320A	DNAJB14_uc003hvk.2_Missense_Mutation_p.V235A|DNAJB14_uc010ili.2_Missense_Mutation_p.V253A	NM_001031723	NP_001026893	Q8TBM8	DJB14_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 14	320					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;4.59e-09)		ATCTTCCTCCACACTCTTTTC	0.299													10	41					0	0	1	0	0		G	100824939	G	G	100824939	3	3	187	1	0	0	0	0	1	0	0	0	4625	159	6	3	188	3	DNAJB14	4	100824939	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	345695	100824939	90329337	212	92995											
DKK2	27123	broad.mit.edu	37	chr4	107846975	107846975	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccattattgcagcgggtactGgggcagcacatgccatctcg	8	9	12	12	2	1	0	0	0	1	0	2	0	1	0	2	3	5	4	2	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:107846975G>T	uc003hyi.2	-	2	1059	c.354C>A	c.(352-354)CCC>CCA	p.P118P	DKK2_uc010ilw.1_RNA|DKK2_uc003hyj.1_Silent_p.P118P	NM_014421	NP_055236	Q9UBU2	DKK2_HUMAN	dickkopf homolog 2 precursor	118	DKK-type Cys-1.				multicellular organismal development|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular space				ovary(3)|lung(1)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.34e-06)		AGCGGGTACTGGGGCAGCACA	0.502													43	125					4.10826e-27	4.55194e-27	1	1	0		T	107846975	T	T	107846975	2	4	187	1	0	0	0	0	0	0	0	1	4551	1335	47	5		5	DKK2	4	107846975	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7022036	107846975	83307301	213	92996											
ALPK1	80216	broad.mit.edu	37	chr4	113350368	113350368	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagcctgcaagctggcagctGccttcagtgcctatacgccg	8	8	11	14	2	1	0	1	0	0	0	1	0	1	0	4	1	7	4	4	1	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:113350368G>A	uc003iap.3	+	10	1138	c.859G>A	c.(859-861)GCC>ACC	p.A287T	ALPK1_uc003ian.3_Missense_Mutation_p.A287T|ALPK1_uc011cfx.1_Missense_Mutation_p.A209T|ALPK1_uc003iao.3_RNA|ALPK1_uc010imo.2_Missense_Mutation_p.A115T	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	287							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		GCTGGCAGCTGCCTTCAGTGC	0.552													54	167					0	0	1	0	0		A	113350368	A	A	113350368	3	1	187	1	0	0	0	0	1	0	0	0	544	1319	46	2	889	2	ALPK1	4	113350368	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5503393	113350368	77803908	214	92997											
ANK2	287	broad.mit.edu	37	chr4	114267082	114267082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatacgactcaggaaccttgCggacgactatcatttatgaa	13	10	9	9	3	2	1	2	1	0	0	2	6	2	3	1	2	3	0	1	2	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:114267082C>T	uc003ibe.3	+	35	4375	c.4275C>T	c.(4273-4275)TGC>TGT	p.C1425C	ANK2_uc003ibd.3_Silent_p.C1416C|ANK2_uc003ibf.3_Silent_p.C1425C|ANK2_uc011cgc.1_Silent_p.C601C|ANK2_uc003ibg.3_Silent_p.C420C|ANK2_uc003ibh.3_Silent_p.C99C|ANK2_uc011cgb.1_Silent_p.C1440C	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1392					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AGGAACCTTGCGGACGACTAT	0.403													18	50					0	0	1	0	0		T	114267082	T	T	114267082	2	4	187	1	0	0	0	0	0	0	0	1	621	776	27	1		1	ANK2	4	114267082	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	916714	114267082	76887194	215	92998											
PDE5A	8654	broad.mit.edu	37	chr4	120527968	120527968	+	Silent	SNP	G	A	A	0	0	1	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	gttatttgaaacttcttccaGtgttgaaccttcagcaacat	11	15	6	9	0	2	2	1	2	1	0	3	2	3	2	2	0	4	3	2	0	4	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:120527968G>A	uc003idh.2	-	2	792	c.637C>T	c.(637-639)CTG>TTG	p.L213L	PDE5A_uc003idf.2_Silent_p.L171L|PDE5A_uc003idg.2_Silent_p.L161L	NM_001083	NP_001074	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 1	213	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|zinc ion binding				0					Dipyridamole(DB00975)|Pentoxifylline(DB00806)|Sildenafil(DB00203)|Tadalafil(DB00820)|Theophylline(DB00277)|Vardenafil(DB00862)	ACTTCTTCCAGTGTTGAACCT	0.453													43	114					0	0	1	0	0		A	120527968	A	A	120527968	2	1	187	1	0	0	0	0	0	0	0	1	11663	1020	36	4		4	PDE5A	4	120527968	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6260886	120527968	70626308	216	92999											
SPATA5	166378	broad.mit.edu	37	chr4	123949476	123949476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaggagttcttctctatgggCcacctgggtgctctaaaaca	10	11	10	10	0	3	0	0	0	3	0	4	1	3	1	2	3	2	2	2	3	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:123949476C>T	uc003iez.3	+	11	2078	c.2005C>T	c.(2005-2007)CCA>TCA	p.P669S	SPATA5_uc003iey.2_Missense_Mutation_p.P668S	NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	669	ATP 2 (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						TCTCTATGGGCCACCTGGGTG	0.423													34	85					0	0	1	0	0		T	123949476	T	T	123949476	3	4	187	1	0	0	0	0	1	0	0	0	15036	739	26	2	2047	2	SPATA5	4	123949476	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3421508	123949476	67204800	217	93000											
INTU	27152	broad.mit.edu	37	chr4	128584639	128584639	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatttagtcaagcttctctGgggagaagaggttgaaggta	11	12	14	4	0	2	4	1	2	1	2	3	5	2	4	0	4	1	3	0	4	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:128584639G>T	uc003ifk.1	+	4	942	c.872G>T	c.(871-873)TGG>TTG	p.W291L	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	291										ovary(1)	1						AAGCTTCTCTGGGGAGAAGAG	0.428													4	86					0.184627	0.184627	1	1	0		T	128584639	T	T	128584639	3	4	187	1	0	0	0	0	1	0	0	0	7802	1357	47	5	886	5	INTU	4	128584639	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4635163	128584639	62569637	218	93001											
PCDH10	57575	broad.mit.edu	37	chr4	134073642	134073642	+	Missense_Mutation	SNP	A	G	G	1	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	gggcgcgcaagaagaaactcAgcaagtcagacatcatgctg	14	5	12	10	2	3	3	3	0	0	3	3	3	3	3	0	1	3	3	0	1	4	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:134073642A>G	uc003iha.2	+	1	3173	c.2347A>G	c.(2347-2349)AGC>GGC	p.S783G	PCDH10_uc003igz.2_Missense_Mutation_p.S783G	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	783	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GAAGAAACTCAGCAAGTCAGA	0.622													11	28					0	0	1	0	0		G	134073642	G	G	134073642	3	3	187	1	0	0	0	0	1	0	0	0	11526	188	7	3	2349	3	PCDH10	4	134073642	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	5489003	134073642	57080634	219	93002											
PCDH10	57575	broad.mit.edu	37	chr4	134084249	134084249	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgctgattatcgcagcaAtctgcatgttcctggcatgg	7	12	12	10	1	1	1	0	1	1	0	3	1	2	1	1	3	3	7	1	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:134084249A>T	uc003iha.2	+	4	3741	c.2915A>T	c.(2914-2916)AAT>ATT	p.N972I		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	972	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TATCGCAGCAATCTGCATGTT	0.527													30	74					0	0	1	0	0		T	134084249	T	T	134084249	3	4	187	1	0	0	0	0	1	0	0	0	11526	101	4	5	2989	5	PCDH10	4	134084249	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	10607	134084249	57070027	220	93003											
PCDH18	54510	broad.mit.edu	37	chr4	138452481	138452481	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accggggagttttctaagagTtgtattatataagattgctg	11	15	11	4	1	1	2	0	0	1	2	1	3	1	3	1	2	1	4	1	2	5	9			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:138452481T>C	uc003ihe.3	-	1	1149	c.762A>G	c.(760-762)CAA>CAG	p.Q254Q	PCDH18_uc003ihf.3_Silent_p.Q247Q|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Silent_p.Q34Q|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	254	Cadherin 3.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					TTTCTAAGAGTTGTATTATAT	0.438													29	64					0	0	1	0	0		C	138452481	C	C	138452481	2	2	187	1	0	0	0	0	0	0	0	1	11532	1722	60	3		3	PCDH18	4	138452481	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	4368232	138452481	52701795	221	93004											
NAA15	80155	broad.mit.edu	37	chr4	140264042	140264042	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatcatggattggttatgcTattgcttaccatttattaga	10	17	8	6	0	1	1	1	0	0	1	1	2	1	2	1	2	3	4	1	2	5	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:140264042T>C	uc003ihu.1	+	5	721	c.465T>C	c.(463-465)GCT>GCC	p.A155A		NM_057175	NP_476516	Q9BXJ9	NAA15_HUMAN	NMDA receptor regulated 1	155	TPR 3.				angiogenesis|cell differentiation|N-terminal protein amino acid acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|transcription factor complex	protein binding			ovary(1)|skin(1)	2						TTGGTTATGCTATTGCTTACC	0.338													20	79					0	0	1	0	0		C	140264042	C	C	140264042	2	2	187	1	0	0	0	0	0	0	0	1	10136	1509	53	3		3	NAA15	4	140264042	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1811561	140264042	50890234	222	93005											
ZNF827	152485	broad.mit.edu	37	chr4	146770683	146770683	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgggttcctctttaatcTtcaccatctgtgtttccttg	5	18	6	12	0	4	0	1	0	3	0	6	0	6	0	4	1	0	2	4	1	1	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:146770683T>G	uc003ikn.2	-	6	2060	c.2012A>C	c.(2011-2013)AAG>ACG	p.K671T	ZNF827_uc003ikm.2_Missense_Mutation_p.K671T|ZNF827_uc010iox.2_Missense_Mutation_p.K321T	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	671					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					CTCTTTAATCTTCACCATCTG	0.453													38	90					0	0	1	0	0		G	146770683	G	G	146770683	3	3	187	1	0	0	0	0	1	0	0	0	18205	1609	56	5	1253	5	ZNF827	4	146770683	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	6506641	146770683	44383593	223	93006											
RPS3A	6189	broad.mit.edu	37	chr4	152024210	152024210	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaggtgcagacaaatgactTgaaagaagtggtcaataaat	18	8	11	4	0	1	5	1	2	0	3	1	5	1	5	0	2	1	1	0	2	6	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:152024210T>C	uc003ilz.2	+	4	593	c.542T>C	c.(541-543)TTG>TCG	p.L181S	RPS3A_uc011cie.1_Missense_Mutation_p.L181S|SNORD73A_uc003ima.1_5'Flank	NM_001006	NP_000997	P61247	RS3A_HUMAN	ribosomal protein S3a	181					cell differentiation|endocrine pancreas development|induction of apoptosis|translational elongation|translational initiation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome			ovary(1)	1	all_hematologic(180;0.093)					ACAAATGACTTGAAAGAAGTG	0.428													6	23					0	0	1	0	0		C	152024210	C	C	152024210	3	2	187	1	0	0	0	0	1	0	0	0	13669	1821	63	3	556	3	RPS3A	4	152024210	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	5253527	152024210	39130066	224	93007											
SFRP2	6423	broad.mit.edu	37	chr4	154702746	154702746	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgttgatgtcgttcatctCctcacaggtgcactgcaagc	7	11	10	13	3	3	1	2	1	1	0	5	1	3	1	1	1	3	4	1	1	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:154702746C>A	uc003inv.1	-	3	986	c.745G>T	c.(745-747)GAG>TAG	p.E249*		NM_003013	NP_003004	Q96HF1	SFRP2_HUMAN	secreted frizzled-related protein 2 precursor	249	NTR.				brain development|cardiac left ventricle morphogenesis|cell-cell signaling|dermatome development|hemopoietic stem cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|negative regulation of cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell adhesion mediated by integrin|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of fat cell differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of stem cell division|sclerotome development	cytoplasm|extracellular matrix|extracellular space|plasma membrane	fibronectin binding|integrin binding|PDZ domain binding|receptor agonist activity|Wnt receptor activity|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.093)	Renal(120;0.117)				TCGTTCATCTCCTCACAGGTG	0.552													23	57					6.21321e-17	6.79948e-17	1	1	0		A	154702746	A	A	154702746	4	1	187	1	0	0	0	0	0	1	0	0	14187	864	30	5	146	5	SFRP2	4	154702746	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2678536	154702746	36451530	225	93008											
DCHS2	54798	broad.mit.edu	37	chr4	155163835	155163835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagaggggagaaaagctgggGcattgtcatttatatcagtc	12	10	13	6	0	2	2	2	0	0	2	3	3	2	2	0	4	1	2	0	4	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:155163835G>A	uc003inw.2	-	22	5666	c.5666C>T	c.(5665-5667)GCC>GTC	p.A1889V		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1889	Cadherin 16.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AAAAGCTGGGGCATTGTCATT	0.383													28	100					0	0	1	0	0		A	155163835	A	A	155163835	3	1	187	1	0	0	0	0	1	0	0	0	4291	1203	42	2	3100	2	DCHS2	4	155163835	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	461089	155163835	35990441	226	93009											
FNIP2	57600	broad.mit.edu	37	chr4	159789592	159789592	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacagggtttcctgagtgcCcagagggcactgacagtaga	10	7	14	10	1	0	4	0	2	0	2	1	5	1	4	2	2	1	3	2	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:159789592C>A	uc003iqe.3	+	13	1987	c.1804C>A	c.(1804-1806)CCA>ACA	p.P602T		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	602	Interaction with PRKAA1.				DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		TCCTGAGTGCCCAGAGGGCAC	0.592													12	49					2.62699e-14	2.84857e-14	1	1	0		A	159789592	A	A	159789592	3	1	187	1	0	0	0	0	1	0	0	0	5990	623	22	5	1854	5	FNIP2	4	159789592	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4625757	159789592	31364684	227	93010											
VEGFC	7424	broad.mit.edu	37	chr4	177713407	177713407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggcgcctcgcgaggacccGggagcagcgcagcggcgagc	6	1	19	15	8	0	0	0	0	0	0	1	4	0	2	2	4	4	2	2	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:177713407G>A	uc003ius.1	-	1	489	c.59C>T	c.(58-60)CCG>CTG	p.P20L		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	20					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		GCGAGGACCCGGGAGCAGCGC	0.498													4	16					0	0	1	0	0		A	177713407	A	A	177713407	3	1	187	1	0	0	0	0	1	0	0	0	17178	1116	39	1	1231	1	VEGFC	4	177713407	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	17923815	177713407	13440869	228	93011											
C4orf41	60684	broad.mit.edu	37	chr4	184627978	184627978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatctgccgtcatttgggcGtgtcagagagtcgttacctg	7	12	13	9	3	3	2	2	0	1	2	4	3	3	2	2	1	2	1	2	1	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:184627978G>A	uc003ivx.2	+	28	3250	c.3074G>A	c.(3073-3075)CGT>CAT	p.R1025H	C4orf41_uc003ivw.2_Missense_Mutation_p.R1025H|C4orf41_uc010isc.2_Missense_Mutation_p.R369H|C4orf41_uc003ivy.2_Missense_Mutation_p.R631H	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	1025											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		TCATTTGGGCGTGTCAGAGAG	0.418													15	53					0	0	1	0	0		A	184627978	A	A	184627978	3	1	187	1	0	0	0	0	1	0	0	0	2273	1145	40	1	3180	1	C4orf41	4	184627978	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6914571	184627978	6526298	229	93012											
F11	2160	broad.mit.edu	37	chr4	187206920	187206920	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtataaaatggcagaaagcgGgtatgatattgccttgttga	13	12	12	4	1	0	3	0	2	0	1	0	3	0	3	1	2	2	4	1	2	6	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:187206920G>T	uc003iza.1	+	12	1766	c.1433G>T	c.(1432-1434)GGG>GTG	p.G478V		NM_000128	NP_000119	P03951	FA11_HUMAN	coagulation factor XI precursor	478	Peptidase S1.				blood coagulation, intrinsic pathway|plasminogen activation|positive regulation of fibrinolysis	extracellular space|plasma membrane	heparin binding|serine-type endopeptidase activity				0		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)	GCAGAAAGCGGGTATGATATT	0.363													19	92					7.41877e-09	7.86862e-09	1	1	0		T	187206920	T	T	187206920	3	4	187	1	0	0	0	0	1	0	0	0	5345	1232	43	5	1475	5	F11	4	187206920	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2578942	187206920	3947356	230	93013											
FAT1	2195	broad.mit.edu	37	chr4	187517817	187517817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgcttttcggtgcccgtGcacagactcggggttaaaag	8	10	12	11	3	0	1	0	0	0	1	2	1	0	1	1	3	3	3	1	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:187517817G>A	uc003izf.2	-	25	13065	c.12877C>T	c.(12877-12879)CAC>TAC	p.H4293Y	FAT1_uc010isn.2_5'Flank|FAT1_uc003ize.2_Missense_Mutation_p.H184Y	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4293	Cytoplasmic (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CGGTGCCCGTGCACAGACTCG	0.552										HNSCC(5;0.00058)			13	39					0	0	1	0	0		A	187517817	A	A	187517817	3	1	187	1	0	0	0	0	1	0	0	0	5703	1319	46	2	901	2	FAT1	4	187517817	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	310897	187517817	3636459	231	93014											
FAT1	2195	broad.mit.edu	37	chr4	187584590	187584590	+	Missense_Mutation	SNP	A	G	G	1	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	ctttaggagaattttccatgAtttctgggtaataaacaggc	12	14	9	6	0	1	2	0	1	1	1	2	3	2	2	1	3	1	1	1	3	5	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:187584590A>G	uc003izf.2	-	3	3631	c.3443T>C	c.(3442-3444)ATC>ACC	p.I1148T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1148	Extracellular (Potential).|Cadherin 10.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATTTTCCATGATTTCTGGGTA	0.269										HNSCC(5;0.00058)			32	90					0	0	1	0	0		G	187584590	G	G	187584590	3	3	187	1	0	0	0	0	1	0	0	0	5703	333	12	3	10423	3	FAT1	4	187584590	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	66773	187584590	3569686	232	93015											
FAT1	2195	broad.mit.edu	37	chr4	187628366	187628366	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttaacaacacccgtcacGctgtcaattgaaaatgtgtc	13	11	7	10	2	2	1	2	1	0	0	3	1	2	1	1	0	2	2	1	0	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr4:187628366G>A	uc003izf.2	-	2	2804	c.2616C>T	c.(2614-2616)AGC>AGT	p.S872S	FAT1_uc010iso.1_Silent_p.S872S	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	872	Extracellular (Potential).|Cadherin 7.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CACCCGTCACGCTGTCAATTG	0.512										HNSCC(5;0.00058)			23	47					0	0	1	0	0		A	187628366	A	A	187628366	2	1	187	1	0	0	0	0	0	0	0	1	5703	1078	38	1		1	FAT1	4	187628366	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	43776	187628366	3525910	233	93016											
AHRR	57491	broad.mit.edu	37	chr5	353844	353844	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccagaccatctccccacaGgaggcccgccgtgggggcag	8	3	13	17	2	1	1	0	0	1	1	2	2	1	2	6	4	0	1	6	4	0	0	rs111551936		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:353844G>A	uc003jav.2	+	3	119	c.75_splice	c.e3-1	p.Q25_splice	AHRR_uc003jaw.2_Splice_Site_p.Q21_splice|AHRR_uc010isy.2_Intron|AHRR_uc010isz.2_Splice_Site_p.Q21_splice	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			TCTCCCCACAGGAGGCCCGCC	0.662													7	27					0	0	1	0	0		A	353844	A	A	353844	5	1	187	1	0	0	0	0	0	0	1	0	417	1014	35	4	84	4	AHRR	5	353844	Splice_Site	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		353844	180561416	234	93017											
SLC6A19	340024	broad.mit.edu	37	chr5	1216779	1216779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggttccgcgccacacagCgctacgacgactgcttcagc	7	8	11	15	5	1	0	1	0	0	0	2	2	2	0	2	1	4	3	2	1	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:1216779C>T	uc003jbw.3	+	7	1050	c.994C>T	c.(994-996)CGC>TGC	p.R332C		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	332	Extracellular (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CGCCACACAGCGCTACGACGA	0.622													14	42					0	0	1	0	0		T	1216779	T	T	1216779	3	4	187	1	0	0	0	0	1	0	0	0	14707	768	27	1	1020	1	SLC6A19	5	1216779	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	862935	1216779	179698481	235	93018											
SLC6A18	348932	broad.mit.edu	37	chr5	1246084	1246084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttgctcagctgctcacccGgcggaggcggacgtggaggg	5	6	18	12	4	2	0	2	0	0	0	2	3	2	3	1	6	3	4	1	6	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:1246084G>A	uc003jby.1	+	12	1901	c.1778G>A	c.(1777-1779)CGG>CAG	p.R593Q		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	593	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CTGCTCACCCGGCGGAGGCGG	0.731													8	18					0	0	1	0	0		A	1246084	A	A	1246084	3	1	187	1	0	0	0	0	1	0	0	0	14706	1116	39	1	1824	1	SLC6A18	5	1246084	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	29305	1246084	179669176	236	93019											
SLC6A3	6531	broad.mit.edu	37	chr5	1414836	1414836	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacgtccccgatgggcacacTgtgcttctgtgccatgtacc	6	10	10	15	2	1	0	0	0	1	0	2	1	2	0	4	1	3	3	4	1	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:1414836T>C	uc003jck.2	-	8	1247	c.1126A>G	c.(1126-1128)AGT>GGT	p.S376G		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	376					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	ATGGGCACACTGTGCTTCTGT	0.612													12	51					0	0	1	0	0		C	1414836	C	C	1414836	3	2	187	1	0	0	0	0	1	0	0	0	14710	1580	55	3	768	3	SLC6A3	5	1414836	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	168752	1414836	179500424	237	93020											
ADCY2	108	broad.mit.edu	37	chr5	7784525	7784525	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgggctctgtgtctctctCtatattcttcatcacactgc	6	16	6	13	0	6	0	2	0	4	0	8	0	6	0	0	1	1	1	0	1	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:7784525C>A	uc003jdz.1	+	19	2499	c.2432C>A	c.(2431-2433)TCT>TAT	p.S811Y	ADCY2_uc011cmo.1_Missense_Mutation_p.S631Y|ADCY2_uc010itm.1_Missense_Mutation_p.S7Y	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	811	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						GTGTCTCTCTCTATATTCTTC	0.378													19	83					3.5997e-14	3.89937e-14	1	1	0		A	7784525	A	A	7784525	3	1	187	1	0	0	0	0	1	0	0	0	294	913	32	5	2506	5	ADCY2	5	7784525	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6369689	7784525	173130735	238	93021											
PRDM9	56979	broad.mit.edu	37	chr5	23527861	23527861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacaggggagaagccctaCgtctgcagggaggatgagta	12	5	15	9	1	1	2	0	1	1	1	1	5	1	4	1	4	3	2	1	4	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:23527861C>T	uc003jgo.2	+	11	2846	c.2664C>T	c.(2662-2664)TAC>TAT	p.Y888Y		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	888					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGAAGCCCTACGTCTGCAGGG	0.527										HNSCC(3;0.000094)			21	48					0	0	1	0	0		T	23527861	T	T	23527861	2	4	187	1	0	0	0	0	0	0	0	1	12485	547	19	1		1	PRDM9	5	23527861	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	15743336	23527861	157387399	239	93022											
CDH10	1008	broad.mit.edu	37	chr5	24535293	24535293	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggttgtccccgataagcCtcccatctggccgcccatgt	6	10	10	15	2	1	0	0	0	1	0	3	1	3	0	6	2	1	1	6	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:24535293C>A	uc003jgr.1	-	5	1074	c.742G>T	c.(742-744)GGC>TGC	p.G248C	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	248	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCCGATAAGCCTCCCATCTGG	0.502										HNSCC(23;0.051)			14	49					1.41608e-15	1.54337e-15	1	1	0		A	24535293	A	A	24535293	3	1	187	1	0	0	0	0	1	0	0	0	3099	681	24	5	1656	5	CDH10	5	24535293	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1007432	24535293	156379967	240	93023											
C7	730	broad.mit.edu	37	chr5	40981654	40981654	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgtcaccagcataaggccTtgtgctgcggaaacccagta	10	9	10	12	1	2	0	1	0	1	0	2	1	2	1	3	2	4	3	3	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:40981654T>G	uc003jmh.2	+	18	2625	c.2511T>G	c.(2509-2511)CCT>CCG	p.P837P		NM_000587	NP_000578	P10643	CO7_HUMAN	complement component 7 precursor	837	Complement control factor I module 2.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	extracellular region|membrane attack complex					0		Ovarian(839;0.0112)				GCATAAGGCCTTGTGCTGCGG	0.577													6	22					0	0	1	0	0		G	40981654	G	G	40981654	2	3	187	1	0	0	0	0	0	0	0	1	2378	1596	56	5		5	C7	5	40981654	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	16446361	40981654	139933606	241	93024											
HCN1	348980	broad.mit.edu	37	chr5	45303883	45303883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagtcacaaaattaggatccGcattagcaaataaaggcatt	17	9	7	8	1	1	0	1	0	0	0	2	1	2	1	1	2	1	3	1	2	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:45303883G>A	uc003jok.2	-	6	1461	c.1436C>T	c.(1435-1437)GCG>GTG	p.A479V		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	479	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ATTAGGATCCGCATTAGCAAA	0.383													6	104					0	0	1	0	0		A	45303883	A	A	45303883	3	1	187	1	0	0	0	0	1	0	0	0	7012	1087	38	1	1248	1	HCN1	5	45303883	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4322229	45303883	135611377	242	93025											
SFRS12	140890	broad.mit.edu	37	chr5	65457976	65457976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttgggagctataccagcaGcagcactagaccccaacatt	12	8	9	12	0	0	1	0	0	0	1	0	2	0	2	3	1	6	5	3	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:65457976G>A	uc003juo.2	+	5	763	c.103G>A	c.(103-105)GCA>ACA	p.A35T	SFRS12_uc003jun.2_Missense_Mutation_p.A151T|SFRS12_uc010iwy.2_Missense_Mutation_p.A35T	NM_139168	NP_631907	Q8WXA9	SREK1_HUMAN	splicing factor, arginine/serine-rich 12 isoform	35					mRNA processing|RNA splicing	spliceosomal complex	nucleic acid binding|nucleotide binding|protein binding				0		Lung NSC(167;9.34e-06)|Prostate(74;0.00187)|Ovarian(174;0.0545)|Breast(144;0.0928)|Colorectal(97;0.234)		Lung(70;0.00449)		TATACCAGCAGCAGCACTAGA	0.413													31	63					0	0	1	0	0		A	65457976	A	A	65457976	3	1	187	1	0	0	0	0	1	0	0	0	14192	971	34	2	465	2	SFRS12	5	65457976	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	20154093	65457976	115457284	243	93026											
CMYA5	202333	broad.mit.edu	37	chr5	79095310	79095310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcatcaacgcagagagCgagcagttgctcttcatcat	11	11	8	11	2	6	1	4	0	2	1	6	3	6	1	0	0	4	4	0	0	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:79095310C>T	uc003kgc.2	+	13	12153	c.12081C>T	c.(12079-12081)AGC>AGT	p.S4027S		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	4027	B30.2/SPRY.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ACGCAGAGAGCGAGCAGTTGC	0.507													10	44					0	0	1	0	0		T	79095310	T	T	79095310	2	4	187	1	0	0	0	0	0	0	0	1	3593	767	27	1		1	CMYA5	5	79095310	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	13637334	79095310	101819950	244	93027											
SSBP2	23635	broad.mit.edu	37	chr5	80770364	80770364	+	Silent	SNP	T	C	C	0	1	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	gggagtaatggctgacttccTgggacacctccaagtgccta	9	9	12	11	0	0	1	0	1	0	0	2	3	2	3	4	3	1	2	4	3	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:80770364T>C	uc003kho.2	-	7	661	c.450A>G	c.(448-450)CCA>CCG	p.P150P	SSBP2_uc010jar.2_Silent_p.P38P|SSBP2_uc003khn.2_Silent_p.P24P|SSBP2_uc003khp.2_Silent_p.P150P|SSBP2_uc011ctp.1_Silent_p.P130P|SSBP2_uc011ctq.1_Silent_p.P120P|SSBP2_uc011ctr.1_Silent_p.P120P	NM_012446	NP_036578	P81877	SSBP2_HUMAN	single-stranded DNA binding protein 2	150	Gly-rich.|Pro-rich.				regulation of transcription, DNA-dependent	cytoplasm|nucleus	single-stranded DNA binding		SSBP2/JAK2(4)	haematopoietic_and_lymphoid_tissue(4)|skin(1)	5		Lung NSC(167;0.00154)|all_lung(232;0.00179)|Ovarian(174;0.0338)		OV - Ovarian serous cystadenocarcinoma(54;1.07e-41)|Epithelial(54;2.79e-35)|all cancers(79;1.18e-29)		GCTGACTTCCTGGGACACCTC	0.338													20	34					0	0	1	0	0		C	80770364	C	C	80770364	2	2	187	1	0	0	0	0	0	0	0	1	15205	1567	55	3		3	SSBP2	5	80770364	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1675054	80770364	100144896	245	93028											
NR2F1	7025	broad.mit.edu	37	chr5	92923744	92923744	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcgctgctgctgcgcgcCgagccctaccccacgtcgcg	4	7	11	19	7	1	0	0	0	1	0	3	1	1	0	4	0	5	3	4	0	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:92923744C>T	uc003kkj.2	+	2	2272	c.585C>T	c.(583-585)GCC>GCT	p.A195A		NM_005654	NP_005645	P10589	COT1_HUMAN	nuclear receptor subfamily 2, group F, member 1	195					negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding			urinary_tract(1)|ovary(1)|lung(1)	3		all_cancers(142;1.62e-05)|all_epithelial(76;1.51e-07)|all_lung(232;0.0126)|Lung NSC(167;0.0155)|Ovarian(174;0.0218)|Prostate(281;0.173)|Colorectal(57;0.19)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0416)|all cancers(79;9.57e-18)		TGCTGCGCGCCGAGCCCTACC	0.647													24	71					0	0	1	0	0		T	92923744	T	T	92923744	2	4	187	1	0	0	0	0	0	0	0	1	10646	639	23	1		1	NR2F1	5	92923744	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	12153380	92923744	87991516	246	93029											
APC	324	broad.mit.edu	37	chr5	112173858	112173858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaagtttggagagagaacGcggaattggtctaggcaact	13	9	14	5	2	1	3	0	0	1	3	1	6	1	4	0	4	2	2	0	4	6	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:112173858G>A	uc010jby.2	+	16	2947	c.2567G>A	c.(2566-2568)CGC>CAC	p.R856H	APC_uc011cvt.1_Missense_Mutation_p.R838H|APC_uc003kpz.3_Missense_Mutation_p.R856H|APC_uc003kpy.3_Missense_Mutation_p.R856H|APC_uc010jbz.2_Missense_Mutation_p.R573H|APC_uc010jca.2_Missense_Mutation_p.R156H	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	856	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R856fs*6(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GAGAGAGAACGCGGAATTGGT	0.443		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			16	46					0	0	1	0	0		A	112173858	A	A	112173858	3	1	187	1	0	0	0	0	1	0	0	0	763	1087	38	1	2625	1	APC	5	112173858	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	19250114	112173858	68741402	247	93030											
KCNN2	3781	broad.mit.edu	37	chr5	113831808	113831808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtcacttacaatgctgagCggtcccggtcctcgtccagg	7	9	11	14	4	1	1	1	1	0	0	5	1	4	1	3	3	3	1	3	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:113831808C>T	uc003kqo.2	+	8	2126	c.1669C>T	c.(1669-1671)CGG>TGG	p.R557W	KCNN2_uc003kqp.2_Missense_Mutation_p.R209W|KCNN2_uc010jcg.2_RNA|uc003kqr.1_RNA	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	557						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		CAATGCTGAGCGGTCCCGGTC	0.527													15	96					0	0	1	0	0		T	113831808	T	T	113831808	3	4	187	1	0	0	0	0	1	0	0	0	8095	759	27	1	1699	1	KCNN2	5	113831808	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1657950	113831808	67083452	248	93031											
ZNF608	57507	broad.mit.edu	37	chr5	123982598	123982598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggtttttgttaggctccGgagtagagggagcttttgag	8	14	15	4	1	0	2	0	1	0	1	1	4	1	4	1	4	1	5	1	4	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:123982598G>A	uc003ktq.1	-	4	3602	c.3479C>T	c.(3478-3480)CCG>CTG	p.P1160L	ZNF608_uc003ktr.1_Intron|ZNF608_uc003kts.1_Missense_Mutation_p.P1160L|ZNF608_uc003ktt.1_Missense_Mutation_p.P1160L|ZNF608_uc003ktp.1_5'Flank	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1160						intracellular	zinc ion binding			skin(3)|ovary(2)|lung(1)	6		all_cancers(142;0.186)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.00126)|Epithelial(69;0.00238)|all cancers(49;0.00783)		GTTAGGCTCCGGAGTAGAGGG	0.463													37	109					0	0	1	0	0		A	123982598	A	A	123982598	3	1	187	1	0	0	0	0	1	0	0	0	18059	1116	39	1	1083	1	ZNF608	5	123982598	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	10150790	123982598	56932662	249	93032											
MEGF10	84466	broad.mit.edu	37	chr5	126769169	126769169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatggcatctgcgagtgtgCaccaggcttccgaggcacca	8	8	13	12	2	1	1	0	1	1	0	2	3	2	1	3	3	2	4	3	3	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:126769169C>T	uc003kuh.3	+	15	2170	c.1808C>T	c.(1807-1809)GCA>GTA	p.A603V	MEGF10_uc003kui.3_Missense_Mutation_p.A603V	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	603	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.|EGF-like 11.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		TGCGAGTGTGCACCAGGCTTC	0.547													29	60					0	0	1	0	0		T	126769169	T	T	126769169	3	4	187	1	0	0	0	0	1	0	0	0	9478	710	25	2	1858	2	MEGF10	5	126769169	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2786571	126769169	54146091	250	93033											
CHSY3	337876	broad.mit.edu	37	chr5	129240751	129240751	+	Frame_Shift_Del	DEL	C	-	-																															cacggcaggagcagtcgccgCcccccgcgcgccaggatctc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:129240751delC	uc003kvd.2	+	1	229	c.229delC	c.(229-231)CCCfs	p.P77fs		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	77	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		GCAGTCGCCGCCCCCCGCGCG	0.736													6	10	---	---	---	---						.	-	129240751	-	-	129240751	7	5	187	1	0	1	0	1	0	0	0	0	3416	739	26	0	231	0	CHSY3	5	129240751	Frame_Shift_Del	DEL	C	TCGA-D7-A4YV-01A-11D-A25D-08	2471582	129240751	51674509	251	93034											
CHSY3	337876	broad.mit.edu	37	chr5	129243833	129243833	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gcctctctacctgggacagaCtggcctggggaatattgaag	9	9	13	10	0	1	2	0	1	1	1	2	4	1	4	3	4	1	0	3	4	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:129243833C>G	uc003kvd.2	+	2	866	c.866C>G	c.(865-867)ACT>AGT	p.T289S		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	289	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		CTGGGACAGACTGGCCTGGGG	0.453													18	39					0	0	1	0	0		G	129243833	G	G	129243833	3	3	187	1	0	0	0	0	1	0	0	0	3416	565	20	5	872	5	CHSY3	5	129243833	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3082	129243833	51671427	252	93035											
LRRTM2	26045	broad.mit.edu	37	chr5	138210079	138210079	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagagcccttgtctgtggcGtttggcactgagtggaagcc	7	10	15	9	1	1	2	0	1	1	1	1	4	1	3	2	3	2	2	2	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:138210079G>A	uc011cyz.1	-	2	628	c.171C>T	c.(169-171)AAC>AAT	p.N57N	CTNNA1_uc003ldh.2_Intron|CTNNA1_uc011cyx.1_Intron|CTNNA1_uc011cyy.1_Intron|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Intron|LRRTM2_uc010jez.2_Intron|LRRTM2_uc011cza.1_Intron|CTNNA1_uc003ldl.2_5'Flank	NM_015564	NP_056379	O43300	LRRT2_HUMAN	leucine rich repeat transmembrane neuronal 2	57	Extracellular (Potential).|LRRNT.					cell junction|integral to membrane|postsynaptic membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TGTCTGTGGCGTTTGGCACTG	0.547													11	31					0	0	1	0	0		A	138210079	A	A	138210079	2	1	187	1	0	0	0	0	0	0	0	1	9058	1136	40	1		1	LRRTM2	5	138210079	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8966246	138210079	42705181	253	93036											
CTNNA1	1495	broad.mit.edu	37	chr5	138266343	138266343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagatgacagactttacccGgtgagcagcaccccggcccc	9	5	12	15	2	0	4	0	2	0	2	0	5	0	4	5	3	3	2	5	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:138266343G>A	uc003ldh.2	+	15	2287	c.2192G>A	c.(2191-2193)CGA>CAA	p.R731Q	CTNNA1_uc011cyx.1_Missense_Mutation_p.R628Q|CTNNA1_uc011cyy.1_Missense_Mutation_p.R608Q|CTNNA1_uc003ldi.2_Missense_Mutation_p.R429Q|CTNNA1_uc003ldj.2_Missense_Mutation_p.R731Q|CTNNA1_uc003ldl.2_Missense_Mutation_p.R361Q	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	731					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GACTTTACCCGGTGAGCAGCA	0.577													43	98					0	0	1	0	0		A	138266343	A	A	138266343	3	1	187	1	0	0	0	0	1	0	0	0	4015	1130	39	1	2246	1	CTNNA1	5	138266343	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	56264	138266343	42648917	254	93037											
SLC23A1	9963	broad.mit.edu	37	chr5	138715404	138715404	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atccagggtgcaatagccatGatgtcaccacgggcatcggt	10	8	12	11	2	1	1	1	1	0	0	3	1	2	1	3	3	2	2	3	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:138715404G>A	uc003leh.2	-	8	985	c.888C>T	c.(886-888)ATC>ATT	p.I296I	SLC23A1_uc003leg.2_Silent_p.I300I	NM_005847	NP_005838	Q9UHI7	S23A1_HUMAN	solute carrier family 23 (nucleobase	296					brain development|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|response to toxin|transepithelial L-ascorbic acid transport|water-soluble vitamin metabolic process	apical plasma membrane|cytoplasm|integral to plasma membrane|intracellular organelle|membrane fraction	dehydroascorbic acid transporter activity|L-ascorbate:sodium symporter activity|nucleobase transmembrane transporter activity|protein binding|sodium-dependent L-ascorbate transmembrane transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)		Vitamin C(DB00126)	CAATAGCCATGATGTCACCAC	0.602													18	48					0	0	1	0	0		A	138715404	A	A	138715404	2	1	187	1	0	0	0	0	0	0	0	1	14487	1280	45	4		4	SLC23A1	5	138715404	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	449061	138715404	42199856	255	93038											
PSD2	84249	broad.mit.edu	37	chr5	139189281	139189281	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcctagccctggggccaGacttgaacattctggaagat	10	9	12	10	0	1	3	0	1	1	2	1	4	1	4	3	4	2	0	3	4	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:139189281G>T	uc003leu.1	+	2	461	c.256G>T	c.(256-258)GAC>TAC	p.D86Y		NM_032289	NP_115665	Q9BQI7	PSD2_HUMAN	pleckstrin and Sec7 domain containing 2	86					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGGGGCCAGACTTGAACAT	0.617													47	110					2.56175e-15	2.78349e-15	1	1	0		T	139189281	T	T	139189281	3	4	187	1	0	0	0	0	1	0	0	0	12669	942	33	5	258	5	PSD2	5	139189281	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	473877	139189281	41725979	256	93039											
TMCO6	55374	broad.mit.edu	37	chr5	140021628	140021628	+	Nonsense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctacctctccagtcacagctCagacttcatagtaagccctg	10	10	6	15	0	4	1	3	0	1	1	5	1	4	1	3	0	3	2	3	0	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140021628C>G	uc003lgl.2	+	4	589	c.488C>G	c.(487-489)TCA>TGA	p.S163*	TMCO6_uc011czj.1_3'UTR|TMCO6_uc003lgm.2_Nonsense_Mutation_p.S163*|TMCO6_uc010jft.2_Intron|TMCO6_uc003lgn.2_Nonsense_Mutation_p.S54*|TMCO6_uc003lgo.2_5'Flank	NM_018502	NP_060972	Q96DC7	TMCO6_HUMAN	transmembrane and coiled-coil domains 6	163					protein import into nucleus	cytoplasm|nuclear pore	binding|protein transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCACAGCTCAGACTTCATA	0.512													30	106					0	0	1	0	0		G	140021628	G	G	140021628	4	3	187	1	0	0	0	0	0	1	0	0	16025	838	29	5	502	5	TMCO6	5	140021628	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	832347	140021628	40893632	257	93040											
IK	3550	broad.mit.edu	37	chr5	140039781	140039781	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagagtgctacccagccacGtatgtgaaacctggttaagg	11	8	12	10	1	0	2	0	1	0	1	0	2	0	2	3	2	4	4	3	2	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140039781G>A	uc003lgq.2	+	15	1465	c.1355_splice	c.e15+1	p.T452_splice		NM_006083	NP_006074	Q13123	RED_HUMAN	RED protein						cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCCAGCCACGTATGTGAAAC	0.443													8	23					0	0	1	0	0		A	140039781	A	A	140039781	5	1	187	1	0	0	0	0	0	0	1	0	7624	1159	40	1	1414	1	IK	5	140039781	Splice_Site	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	18153	140039781	40875479	258	93041											
PCDHA3	56145	broad.mit.edu	37	chr5	140182211	140182211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggctgccacatcttcacgGtgtctgcgcgggacgcggac	5	7	15	14	6	3	0	1	0	2	0	3	2	3	2	1	4	2	1	1	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140182211G>A	uc003lhf.2	+	1	1429	c.1429G>A	c.(1429-1431)GTG>ATG	p.V477M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.V477M	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	477	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATCTTCACGGTGTCTGCGCG	0.667													37	128					0	0	1	0	0		A	140182211	A	A	140182211	3	1	187	1	0	0	0	0	1	0	0	0	11544	1261	44	4	1431	4	PCDHA3	5	140182211	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	142430	140182211	40733049	259	93042											
PCDHA8	56140	broad.mit.edu	37	chr5	140221632	140221632	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgataatgctcccactttCgaacagtctgaatacgaagt	14	11	7	9	2	1	2	0	2	1	0	3	4	2	2	1	0	3	1	1	0	6	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140221632C>T	uc003lhs.2	+	1	726	c.726C>T	c.(724-726)TTC>TTT	p.F242F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.F242F	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	242	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCCACTTTCGAACAGTCTG	0.473													10	50					0	0	1	0	0		T	140221632	T	T	140221632	2	4	187	1	0	0	0	0	0	0	0	1	11549	883	31	1		1	PCDHA8	5	140221632	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	39421	140221632	40693628	260	93043											
PCDHA10	56139	broad.mit.edu	37	chr5	140237471	140237471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgtatgaattgcagtcggCggcggttggtgcacgcatcc	6	10	15	10	5	0	1	0	1	0	0	3	1	1	1	1	4	2	5	1	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140237471C>T	uc003lhx.2	+	1	1838	c.1838C>T	c.(1837-1839)GCG>GTG	p.A613V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Missense_Mutation_p.A613V	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	613	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGCAGTCGGCGGCGGTTGGT	0.642													11	14					0	0	1	0	0		T	140237471	T	T	140237471	3	4	187	1	0	0	0	0	1	0	0	0	11539	768	27	1	1840	1	PCDHA10	5	140237471	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	15839	140237471	40677789	261	93044											
PCDHA12	56137	broad.mit.edu	37	chr5	140257310	140257310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggggagttggtcttactcGcagcagaggaggcagagggt	8	8	19	6	1	1	2	0	0	1	2	2	4	1	4	0	6	2	4	0	6	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140257310G>A	uc003lic.2	+	1	2380	c.2253G>A	c.(2251-2253)TCG>TCA	p.S751S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.S751S	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	751	5 X 4 AA repeats of P-X-X-P.|Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCTTACTCGCAGCAGAGGA	0.647													12	34					0	0	1	0	0		A	140257310	A	A	140257310	2	1	187	1	0	0	0	0	0	0	0	1	11541	1074	38	1		1	PCDHA12	5	140257310	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	19839	140257310	40657950	262	93045											
PCDHB14	56122	broad.mit.edu	37	chr5	140604991	140604991	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gagcgcgacgcggccaagcaCaggctggtggtgctggtcaa	8	5	17	11	4	1	0	1	0	0	0	1	2	1	0	1	5	3	3	1	5	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140604991C>G	uc003ljb.2	+	1	1914	c.1914C>G	c.(1912-1914)CAC>CAG	p.H638Q	PCDHB14_uc011dal.1_Missense_Mutation_p.H485Q	NM_018934	NP_061757	Q9Y5E9	PCDBE_HUMAN	protocadherin beta 14 precursor	638	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGCCAAGCACAGGCTGGTGG	0.701													10	64					0	0	1	0	0		G	140604991	G	G	140604991	3	3	187	1	0	0	0	0	1	0	0	0	11558	477	17	5	1916	5	PCDHB14	5	140604991	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	347681	140604991	40310269	263	93046											
PCDHGB2	56103	broad.mit.edu	37	chr5	140740030	140740030	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggatttcgatactgtcGctgaaaatccactaaatatt	12	15	6	8	2	1	1	0	1	1	0	4	3	2	2	1	1	1	1	1	1	6	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140740030G>A	uc003ljs.1	+	1	328	c.328G>A	c.(328-330)GCT>ACT	p.A110T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.A110T	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	110	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGATACTGTCGCTGAAAATCC	0.383													26	76					0	0	1	0	0		A	140740030	A	A	140740030	3	1	187	1	0	0	0	0	1	0	0	0	11582	1087	38	1	330	1	PCDHGB2	5	140740030	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	135039	140740030	40175230	264	93047											
PCDHGA5	56110	broad.mit.edu	37	chr5	140746185	140746185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctccctcaccgcggactCgaggaagagtcacctgatct	8	8	11	14	3	4	2	2	1	2	1	6	5	4	4	3	3	0	0	3	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140746185C>T	uc003lju.1	+	1	2288	c.2288C>T	c.(2287-2289)TCG>TTG	p.S763L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.S763L	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	763	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCGCGGACTCGAGGAAGAGT	0.582													40	151					0	0	1	0	0		T	140746185	T	T	140746185	3	4	187	1	0	0	0	0	1	0	0	0	11576	893	31	1	2290	1	PCDHGA5	5	140746185	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6155	140746185	40169075	265	93048											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763130	140763130	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatggcggcgacccgcccCgatccagcaccgcccacatc	7	4	10	20	5	0	1	0	1	0	0	2	3	1	1	6	2	1	1	6	2	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140763130C>T	uc003lka.1	+	1	664	c.664C>T	c.(664-666)CGA>TGA	p.R222*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Nonsense_Mutation_p.R222*	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	222	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGACCCGCCCCGATCCAGCAC	0.607													5	21					0	0	1	0	0		T	140763130	T	T	140763130	4	4	187	1	0	0	0	0	0	1	0	0	11578	644	23	1	666	1	PCDHGA7	5	140763130	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	16945	140763130	40152130	266	93049											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768795	140768795	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtaaatgacaacgctccGgttttctcacagtcttccta	10	13	7	11	2	2	1	1	1	2	0	5	2	4	1	2	1	1	3	2	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140768795G>A	uc003lkc.1	+	1	1344	c.1344G>A	c.(1342-1344)CCG>CCA	p.P448P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.P448P	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	448	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAACGCTCCGGTTTTCTCAC	0.532													9	148					0	0	1	0	0		A	140768795	A	A	140768795	2	1	187	1	0	0	0	0	0	0	0	1	11584	1103	39	1		1	PCDHGB4	5	140768795	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5665	140768795	40146465	267	93050											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773876	140773876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaggacacgctgcagggggCgcccctgtcctcgtatatct	6	8	13	14	4	1	0	0	0	1	0	3	2	2	1	3	3	1	3	3	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:140773876C>T	uc003lkd.1	+	1	2394	c.1496C>T	c.(1495-1497)GCG>GTG	p.A499V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.A499V	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	499	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCAGGGGGCGCCCCTGTCC	0.567													18	35					0	0	1	0	0		T	140773876	T	T	140773876	3	4	187	1	0	0	0	0	1	0	0	0	11579	768	27	1	1498	1	PCDHGA8	5	140773876	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5081	140773876	40141384	268	93051											
PCDH12	51294	broad.mit.edu	37	chr5	141334608	141334608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcagccacagacagccGgaccaggctccgcaggatct	11	3	13	14	2	1	1	0	0	1	1	2	4	2	3	4	4	2	3	4	4	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:141334608G>A	uc003llx.2	-	1	4020	c.2809C>T	c.(2809-2811)CGG>TGG	p.R937W		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	937	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGACAGCCGGACCAGGCTC	0.612													19	93					0	0	1	0	0		A	141334608	A	A	141334608	3	1	187	1	0	0	0	0	1	0	0	0	11529	1115	39	1	761	1	PCDH12	5	141334608	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	560732	141334608	39580652	269	93052											
SPRY4	81848	broad.mit.edu	37	chr5	141694395	141694395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcacagagctggggcgcccGctgaaggagatccaatggtg	9	6	15	11	2	1	3	1	1	0	2	2	4	2	3	2	4	1	2	2	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:141694395G>A	uc003lml.2	-	2	538	c.279C>T	c.(277-279)AGC>AGT	p.S93S	SPRY4_uc010jgi.1_Silent_p.S116S	NM_001127496	NP_001120968	Q9C004	SPY4_HUMAN	sprouty homolog 4 isoform 2	93					multicellular organismal development	cytoplasm|ruffle membrane	protein binding			ovary(1)|lung(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGGCGCCCGCTGAAGGAGA	0.677									Testicular_Cancer_Familial_Clustering_of				31	67					0	0	1	0	0		A	141694395	A	A	141694395	2	1	187	1	0	0	0	0	0	0	0	1	15133	1078	38	1		1	SPRY4	5	141694395	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	359787	141694395	39220865	270	93053											
KCTD16	57528	broad.mit.edu	37	chr5	143853254	143853254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agatggtcaccctcacactgCgattgctgctgcaagaatgg	10	9	11	11	1	2	2	2	0	0	2	2	3	2	2	1	2	4	3	1	2	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:143853254C>T	uc003lnm.1	+	4	1493	c.864C>T	c.(862-864)TGC>TGT	p.C288C	KCTD16_uc003lnn.1_Silent_p.C288C	NM_020768	NP_065819	Q68DU8	KCD16_HUMAN	potassium channel tetramerisation domain	288						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(2)|ovary(1)|skin(1)	4		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00111)|Kidney(363;0.00176)			CCTCACACTGCGATTGCTGCT	0.522													13	59					0	0	1	0	0		T	143853254	T	T	143853254	2	4	187	1	0	0	0	0	0	0	0	1	8119	776	27	1		1	KCTD16	5	143853254	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2158859	143853254	37062006	271	93054											
JAKMIP2	9832	broad.mit.edu	37	chr5	147029959	147029959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctggaatttctcgttttgggCtgctcatgttgcactcagcc	5	15	10	11	1	3	0	2	0	1	0	4	1	3	1	1	2	3	5	1	2	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:147029959C>T	uc003loq.1	-	4	1161	c.779G>A	c.(778-780)AGC>AAC	p.S260N	JAKMIP2_uc011dbx.1_Missense_Mutation_p.S218N|JAKMIP2_uc003lor.1_Missense_Mutation_p.S260N|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.S260N	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	260						Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTTTTGGGCTGCTCATGTT	0.483													18	72					0	0	1	0	0		T	147029959	T	T	147029959	3	4	187	1	0	0	0	0	1	0	0	0	7957	797	28	2	1725	2	JAKMIP2	5	147029959	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3176705	147029959	33885301	272	93055											
FBXO38	81545	broad.mit.edu	37	chr5	147818048	147818048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaccgcatcatatacctacGcccaatgcagcaggtaacga	15	6	7	13	3	1	0	1	0	0	0	1	1	1	0	3	1	6	4	3	1	6	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:147818048G>A	uc003lpf.1	+	18	3131	c.3011G>A	c.(3010-3012)CGC>CAC	p.R1004H	FBXO38_uc003lpg.1_Missense_Mutation_p.R929H|FBXO38_uc003lph.2_Missense_Mutation_p.R759H	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	1004						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATATACCTACGCCCAATGCAG	0.408													17	87					0	0	1	0	0		A	147818048	A	A	147818048	3	1	187	1	0	0	0	0	1	0	0	0	5760	1087	38	1	3077	1	FBXO38	5	147818048	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	788089	147818048	33097212	273	93056											
SLC36A2	153201	broad.mit.edu	37	chr5	150718651	150718651	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatcagccaaaaacacaatGtacacacagcagaagccaag	19	5	6	11	0	1	1	1	0	0	1	1	1	1	1	2	0	5	2	2	0	7	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:150718651G>A	uc003lty.2	-	5	625	c.495C>T	c.(493-495)TAC>TAT	p.Y165Y	GM2A_uc011dcs.1_Intron|SLC36A2_uc003ltz.2_Intron|SLC36A2_uc003lua.2_Intron|SLC36A2_uc010jhv.2_Silent_p.Y165Y|SLC36A2_uc011dct.1_Silent_p.Y165Y	NM_181776	NP_861441	Q495M3	S36A2_HUMAN	solute carrier family 36, member 2	165	Helical; (Potential).				cellular nitrogen compound metabolic process	cytoplasm|integral to membrane|plasma membrane	glycine transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.243)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAAACACAATGTACACACAGC	0.358													38	91					0	0	1	0	0		A	150718651	A	A	150718651	2	1	187	1	0	0	0	0	0	0	0	1	14619	1372	48	4		4	SLC36A2	5	150718651	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2900603	150718651	30196609	274	93057											
FAT2	2196	broad.mit.edu	37	chr5	150917383	150917383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatccagcttgaattcatgcGccccagggccatgcagagaa	11	7	11	12	1	1	2	1	1	0	1	2	4	2	2	4	1	3	2	4	1	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:150917383G>A	uc003lue.3	-	11	9177	c.9164C>T	c.(9163-9165)GCG>GTG	p.A3055V	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3055	Extracellular (Potential).|Cadherin 27.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAATTCATGCGCCCCAGGGCC	0.463													19	56					0	0	1	0	0		A	150917383	A	A	150917383	3	1	187	1	0	0	0	0	1	0	0	0	5704	1087	38	1	3937	1	FAT2	5	150917383	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	198732	150917383	29997877	275	93058											
C5orf54	63920	broad.mit.edu	37	chr5	159821572	159821572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaagaaagcctgaaataggCgatgatttggagctctccct	13	9	10	9	1	1	3	0	2	1	1	2	5	1	4	2	2	2	1	2	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:159821572C>T	uc003lye.1	-	2	1390	c.926G>A	c.(925-927)CGC>CAC	p.R309H	C5orf54_uc003lyf.1_Missense_Mutation_p.R309H	NM_022090	NP_071373	Q8IZ13	CE054_HUMAN	transposon-derived Buster3 transposase-like	309										pancreas(1)	1						ctgaaataggcgatgatttgg	0													16	86					0	0	1	0	0		T	159821572	T	T	159821572	3	4	187	1	0	0	0	0	1	0	0	0	2313	768	27	1	862	1	C5orf54	5	159821572	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	8904189	159821572	21093688	276	93059											
SLU7	10569	broad.mit.edu	37	chr5	159835380	159835380	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagattccggacagtaattcGtctcttggagtcaaaattct	11	13	9	8	2	3	1	1	0	2	1	6	4	4	3	1	2	0	1	1	2	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:159835380G>A	uc003lyg.2	-	8	930	c.775C>T	c.(775-777)CGA>TGA	p.R259*		NM_006425	NP_006416	O95391	SLU7_HUMAN	step II splicing factor SLU7	259					alternative nuclear mRNA splicing, via spliceosome|nuclear mRNA 3'-splice site recognition	catalytic step 2 spliceosome|cytoplasm|nuclear speck|small nuclear ribonucleoprotein complex	pre-mRNA 3'-splice site binding|second spliceosomal transesterification activity|zinc ion binding			ovary(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			ACAGTAATTCGTCTCTTGGAG	0.358													16	52					0	0	1	0	0		A	159835380	A	A	159835380	4	1	187	1	0	0	0	0	0	1	0	0	14780	1153	40	1	1021	1	SLU7	5	159835380	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	13808	159835380	21079880	277	93060											
MAT2B	27430	broad.mit.edu	37	chr5	162943693	162943693	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gatgtggccactgtgtgccgGcagctagcagagaagagaat	11	7	15	8	1	0	2	0	0	0	2	0	5	0	2	2	2	3	3	2	2	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:162943693G>A	uc003lzk.2	+	5	804	c.696G>A	c.(694-696)CGG>CGA	p.R232R	MAT2B_uc003lzj.2_Silent_p.R221R|MAT2B_uc003lzl.1_Silent_p.R232R|MAT2B_uc003lzm.2_5'Flank	NM_013283	NP_037415	Q9NZL9	MAT2B_HUMAN	methionine adenosyltransferase II, beta isoform	232					extracellular polysaccharide biosynthetic process|methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol|methionine adenosyltransferase complex|nucleus	dTDP-4-dehydrorhamnose reductase activity|methionine adenosyltransferase regulator activity|protein binding			upper_aerodigestive_tract(1)	1	Renal(175;0.000281)	Medulloblastoma(196;0.0208)|all_neural(177;0.0765)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.027)|OV - Ovarian serous cystadenocarcinoma(192;0.0406)|Epithelial(171;0.0797)	L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	CTGTGTGCCGGCAGCTAGCAG	0.478													18	53					0	0	1	0	0		A	162943693	A	A	162943693	2	1	187	1	0	0	0	0	0	0	0	1	9349	1190	42	2		2	MAT2B	5	162943693	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3108313	162943693	17971567	278	93061											
ODZ2	57451	broad.mit.edu	37	chr5	167675370	167675370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctagatttgaagaactacGtgacaggtgaggattctgcc	12	10	12	7	1	1	5	0	3	1	2	1	6	1	6	1	2	4	1	1	2	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:167675370G>A	uc010jjd.2	+	27	7399	c.7399G>A	c.(7399-7401)GTG>ATG	p.V2467M	ODZ2_uc003lzr.3_Missense_Mutation_p.V2237M|ODZ2_uc003lzt.3_Missense_Mutation_p.V1840M|ODZ2_uc010jje.2_Missense_Mutation_p.V1731M	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GAAGAACTACGTGACAGGTGA	0.517													6	13					0	0	1	0	0		A	167675370	A	A	167675370	3	1	187	1	0	0	0	0	1	0	0	0	10854	1145	40	1	7505	1	ODZ2	5	167675370	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4731677	167675370	13239890	279	93062											
WWC1	23286	broad.mit.edu	37	chr5	167891734	167891734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agccgtccccacccccacagCcttcctcggtcaagtcgctg	6	7	8	20	3	1	0	1	0	0	0	5	0	3	0	7	1	2	1	7	1	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:167891734C>T	uc003lzu.2	+	21	3010	c.2917C>T	c.(2917-2919)CCT>TCT	p.P973S	WWC1_uc003lzv.2_Missense_Mutation_p.P979S|WWC1_uc011den.1_Missense_Mutation_p.P979S|WWC1_uc003lzw.2_Missense_Mutation_p.P772S|WWC1_uc010jjf.1_Missense_Mutation_p.P245S	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	973	Interaction with PRKCZ.|Interaction with histone H3.				cell migration|positive regulation of MAPKKK cascade|regulation of hippo signaling cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|ruffle membrane	protein binding|transcription coactivator activity			ovary(2)|skin(2)|breast(1)	5	Renal(175;0.000212)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0399)|all_neural(177;0.0577)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0364)|Epithelial(171;0.0765)|OV - Ovarian serous cystadenocarcinoma(192;0.0918)		ACCCCCACAGCCTTCCTCGGT	0.587													15	50					0	0	1	0	0		T	167891734	T	T	167891734	3	4	187	1	0	0	0	0	1	0	0	0	17437	753	26	2	3017	2	WWC1	5	167891734	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	216364	167891734	13023526	280	93063											
N4BP3	23138	broad.mit.edu	37	chr5	177548704	177548704	+	Missense_Mutation	SNP	A	C	C	1	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	aggcagctgtgagactgatgActgcaagagcaggggcctgc	10	6	16	9	0	0	4	0	3	0	2	0	5	0	4	1	3	4	4	1	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:177548704A>C	uc003mik.1	+	5	1584	c.1337A>C	c.(1336-1338)GAC>GCC	p.D446A	N4BP3_uc003mil.1_Missense_Mutation_p.D115A	NM_015111	NP_055926	O15049	N4BP3_HUMAN	Nedd4 binding protein 3	446	Potential.					cytoplasmic vesicle membrane					0	all_cancers(89;0.00294)|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)			GAGACTGATGACTGCAAGAGC	0.692													4	36					0	0	1	0	0		C	177548704	C	C	177548704	3	2	187	1	0	0	0	0	1	0	0	0	10131	275	10	5	1351	5	N4BP3	5	177548704	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	9656970	177548704	3366556	281	93064											
HNRNPH1	3187	broad.mit.edu	37	chr5	179044892	179044892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtagagccaccatcccCgtatctgtgatcagacattc	12	9	8	12	1	2	3	1	1	1	2	4	4	3	3	4	0	1	2	4	0	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:179044892C>T	uc003mkf.3	-	8	935	c.829G>A	c.(829-831)GGG>AGG	p.G277R	HNRNPH1_uc011dgn.1_Missense_Mutation_p.G7R|HNRNPH1_uc003mkg.3_Missense_Mutation_p.G185R|HNRNPH1_uc003mke.3_Missense_Mutation_p.G277R|HNRNPH1_uc003mkh.3_Missense_Mutation_p.G277R	NM_005520	NP_005511	P31943	HNRH1_HUMAN	heterogeneous nuclear ribonucleoprotein H1	277	2 X 16 AA Gly-rich approximate repeats.				regulation of RNA splicing	actin cytoskeleton|catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|poly(U) RNA binding|protein binding				0						CCACCATCCCCGTATCTGTGA	0.418													19	67					0	0	1	0	0		T	179044892	T	T	179044892	3	4	187	1	0	0	0	0	1	0	0	0	7282	652	23	1	544	1	HNRNPH1	5	179044892	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1496188	179044892	1870368	282	93065											
TBC1D9B	23061	broad.mit.edu	37	chr5	179306143	179306143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtacatgcacacgccacGcccgtactcgaagaagtgga	11	5	12	13	5	0	1	0	0	0	1	1	3	0	2	2	2	3	3	2	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:179306143G>A	uc003mlh.2	-	9	1508	c.1471C>T	c.(1471-1473)CGT>TGT	p.R491C	TBC1D9B_uc003mli.2_Missense_Mutation_p.R491C|TBC1D9B_uc003mlj.2_Missense_Mutation_p.R491C	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	491						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CACACGCCACGCCCGTACTCG	0.612													6	14					0	0	1	0	0		A	179306143	A	A	179306143	3	1	187	1	0	0	0	0	1	0	0	0	15653	1087	38	1	2337	1	TBC1D9B	5	179306143	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	261251	179306143	1609117	283	93066											
MAPK9	5601	broad.mit.edu	37	chr5	179676069	179676069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagttagtgcacgctgtccGggccaggccaaagtcaagga	11	6	14	10	2	1	0	1	0	0	0	2	2	2	1	3	3	1	3	3	3	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr5:179676069G>A	uc003mls.3	-	6	791	c.520C>T	c.(520-522)CGG>TGG	p.R174W	MAPK9_uc003mlt.3_Missense_Mutation_p.R174W|MAPK9_uc010jlc.2_Missense_Mutation_p.R174W|MAPK9_uc003mlv.3_Missense_Mutation_p.R174W|MAPK9_uc011dgx.1_Missense_Mutation_p.R174W	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	174	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CACGCTGTCCGGGCCAGGCCA	0.488													38	138					0	0	1	0	0		A	179676069	A	A	179676069	3	1	187	1	0	0	0	0	1	0	0	0	9305	1115	39	1	904	1	MAPK9	5	179676069	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	369926	179676069	1239191	284	93067											
BMP6	654	broad.mit.edu	37	chr6	7727711	7727711	+	Frame_Shift_Del	DEL	C	-	-																															cgtcccagcgtcggcagccgCccccgggcgccgcgcacccg																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:7727711delC	uc003mxu.3	+	1	701	c.523delC	c.(523-525)CCCfs	p.P175fs		NM_001718	NP_001709	P22004	BMP6_HUMAN	bone morphogenetic protein 6 preproprotein	175					BMP signaling pathway|cartilage development|growth|immune response|positive regulation of aldosterone biosynthetic process|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|SMAD protein signal transduction	extracellular space	BMP receptor binding|cytokine activity|growth factor activity|protein heterodimerization activity			large_intestine(2)|ovary(1)	3	Ovarian(93;0.0721)					TCGGCAGCCGCCCCCGGGCGC	0.751													7	11	---	---	---	---						.	-	7727711	-	-	7727711	7	5	187	1	0	1	0	1	0	0	0	0	1465	739	26	0	525	0	BMP6	6	7727711	Frame_Shift_Del	DEL	C	TCGA-D7-A4YV-01A-11D-A25D-08		7727711	163387356	285	93068											
GCNT2	2651	broad.mit.edu	37	chr6	10530035	10530035	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaggacacctacagccccgaCgaacatttctgggtgacact	12	7	9	13	2	1	1	0	1	1	0	1	4	1	2	3	2	3	0	3	2	3	2	rs150542637	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:10530035C>T	uc010joo.2	+	3	1442	c.891C>T	c.(889-891)GAC>GAT	p.D297D	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Silent_p.D296D|GCNT2_uc010jon.2_Silent_p.D296D	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	297	Lumenal (Potential).					Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(2)	2	Ovarian(93;0.107)|Breast(50;0.148)	all_hematologic(90;0.107)		KIRC - Kidney renal clear cell carcinoma(1;0.099)|Kidney(1;0.119)		ACAGCCCCGACGAACATTTCT	0.473													28	99					0	0	1	0	0		T	10530035	T	T	10530035	2	4	187	1	0	0	0	0	0	0	0	1	6316	535	19	1		1	GCNT2	6	10530035	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2802324	10530035	160585032	286	93069											
MBOAT1	154141	broad.mit.edu	37	chr6	20144502	20144502	+	Missense_Mutation	SNP	A	C	C	1	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	ggaagatgtatattcggctgAtgtggcatattgtaagatat	12	14	12	3	1	0	3	0	1	0	2	1	4	0	4	0	3	0	4	0	3	6	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:20144502A>C	uc003ncx.1	-	4	573	c.368T>G	c.(367-369)ATC>AGC	p.I123S	MBOAT1_uc011dji.1_5'UTR	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	123					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			TATTCGGCTGATGTGGCATAT	0.353													27	75					0	0	1	0	0		C	20144502	C	C	20144502	3	2	187	1	0	0	0	0	1	0	0	0	9374	333	12	5	1159	5	MBOAT1	6	20144502	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	9614467	20144502	150970565	287	93070											
HIST1H2BA	255626	broad.mit.edu	37	chr6	25727363	25727363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatatctttgagcgtatagCgagcgaggcatcacgtttgg	9	12	13	7	4	2	2	1	2	1	0	2	4	2	2	0	2	3	3	0	2	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:25727363C>T	uc003nfd.2	+	1	227	c.227C>T	c.(226-228)GCG>GTG	p.A76V	HIST1H2AA_uc003nfc.2_5'Flank	NM_170610	NP_733759	Q96A08	H2B1A_HUMAN	histone cluster 1, H2ba	76					nucleosome assembly	nucleosome|nucleus	DNA binding			kidney(1)	1						GAGCGTATAGCGAGCGAGGCA	0.502													12	63					0	0	1	0	0		T	25727363	T	T	25727363	3	4	187	1	0	0	0	0	1	0	0	0	7156	768	27	1	229	1	HIST1H2BA	6	25727363	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5582861	25727363	145387704	288	93071											
SLC17A4	10050	broad.mit.edu	37	chr6	25777084	25777084	+	Missense_Mutation	SNP	A	G	G	1	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	tcgtgtccctgccctgggtcAgatccagccacagcatgacc	7	8	10	16	1	1	2	1	1	0	1	4	2	3	2	5	1	3	1	5	1	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:25777084A>G	uc003nfe.2	+	10	1284	c.1165A>G	c.(1165-1167)AGA>GGA	p.R389G	SLC17A4_uc011djx.1_Missense_Mutation_p.R159G|SLC17A4_uc003nff.1_Missense_Mutation_p.R178G|SLC17A4_uc003nfg.2_Missense_Mutation_p.R326G|SLC17A4_uc010jqa.2_Intron	NM_005495	NP_005486	Q9Y2C5	S17A4_HUMAN	solute carrier family 17 (sodium phosphate),	389					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			skin(1)	1						GCCCTGGGTCAGATCCAGCCA	0.537													40	126					0	0	1	0	0		G	25777084	G	G	25777084	3	3	187	1	0	0	0	0	1	0	0	0	14444	180	7	3	1199	3	SLC17A4	6	25777084	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	49721	25777084	145337983	289	93072											
HIST1H2AD	3013	broad.mit.edu	37	chr6	26199464	26199464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttccgccttgcttgccgcgtCcggacattttgaattcttaa	6	15	8	12	4	1	1	0	1	1	0	3	2	3	2	4	1	2	1	4	1	2	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:26199464C>T	uc003ngw.2	-	1	8	c.8G>A	c.(7-9)GGA>GAA	p.G3E	HIST1H3D_uc003ngv.2_5'UTR|HIST1H2BF_uc003ngx.2_5'Flank	NM_021065	NP_066409	P20671	H2A1D_HUMAN	histone cluster 1, H2ad	3					nucleosome assembly	nucleosome|nucleus	DNA binding				0		all_hematologic(11;0.196)				CTTGCCGCGTCCGGACATTTT	0.498													3	19					0	0	1	0	0		T	26199464	T	T	26199464	3	4	187	1	0	0	0	0	1	0	0	0	7147	869	30	4	388	4	HIST1H2AD	6	26199464	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	422380	26199464	144915603	290	93073											
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100413	27100413	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaccttgtacacatagatGgaatagctctccttgcggct	11	11	9	10	1	1	2	0	0	1	2	2	3	1	3	2	2	4	3	2	2	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:27100413G>A	uc003niv.2	-	1	163	c.117C>T	c.(115-117)TCC>TCT	p.S39S	HIST1H2BJ_uc003niu.1_RNA|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	39					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						ACACATAGATGGAATAGCTCT	0.542													19	235					0	0	1	0	0		A	27100413	A	A	27100413	2	1	187	1	0	0	0	0	0	0	0	1	7165	1335	47	4		4	HIST1H2BJ	6	27100413	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	900949	27100413	144014654	291	93074											
HIST1H2AH	85235	broad.mit.edu	37	chr6	27115219	27115219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcaaagtcaccatcgcGcagggtggtgtcttgcccaa	8	8	13	12	2	2	0	1	0	1	0	3	0	2	0	2	3	1	2	2	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:27115219G>A	uc003niz.2	+	1	312	c.312G>A	c.(310-312)GCG>GCA	p.A104A	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	104					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TCACCATCGCGCAGGGTGGTG	0.562													33	75					0	0	1	0	0		A	27115219	A	A	27115219	2	1	187	1	0	0	0	0	0	0	0	1	7150	1074	38	1		1	HIST1H2AH	6	27115219	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	14806	27115219	143999848	292	93075											
MDC1	9656	broad.mit.edu	37	chr6	30681832	30681832	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggctcccacagtctcggaGgataggtgccttgtcccagg	8	8	13	12	1	1	0	0	0	1	0	4	2	3	2	3	5	1	1	3	5	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:30681832G>T	uc003nrg.3	-	3	705	c.265C>A	c.(265-267)CTC>ATC	p.L89I	MDC1_uc003nrf.3_5'Flank|MDC1_uc011dmp.1_5'UTR|MDC1_uc003nrh.1_5'UTR|MDC1_uc003nri.2_Missense_Mutation_p.L89I	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	89	Interaction with the MRN complex.|FHA.|Interaction with CHEK2.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CAGTCTCGGAGGATAGGTGCC	0.522								Other_conserved_DNA_damage_response_genes					16	70					1.99824e-07	2.10268e-07	1	1	0		T	30681832	T	T	30681832	3	4	187	1	0	0	0	0	1	0	0	0	9421	1000	35	5	6056	5	MDC1	6	30681832	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3566613	30681832	140433235	293	93076											
MICB	4277	broad.mit.edu	37	chr6	31474135	31474135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagaccaagacacactatCgcgctatgcaggcagactgc	13	6	10	12	2	0	4	0	1	0	3	1	4	0	4	1	1	2	3	1	1	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:31474135C>T	uc003ntn.3	+	3	657	c.541C>T	c.(541-543)CGC>TGC	p.R181C	MICB_uc011dnm.1_Missense_Mutation_p.R149C|MICB_uc003nto.3_Missense_Mutation_p.R138C	NM_005931	NP_005922	Q29980	MICB_HUMAN	MHC class I polypeptide-related sequence B	181	Extracellular (Potential).				antigen processing and presentation|cytolysis|gamma-delta T cell activation|immune response|immune response-activating cell surface receptor signaling pathway|interspecies interaction between organisms|negative regulation of defense response to virus by host|response to heat|response to oxidative stress|response to retinoic acid	integral to plasma membrane|MHC class I protein complex	natural killer cell lectin-like receptor binding				0						GACACACTATCGCGCTATGCA	0.537													16	39					0	0	1	0	0		T	31474135	T	T	31474135	3	4	187	1	0	0	0	0	1	0	0	0	9593	884	31	1	551	1	MICB	6	31474135	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	792303	31474135	139640932	294	93077											
BAT1	7919	broad.mit.edu	37	chr6	31500674	31500674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacttcgtctcatcatccacGaagatctccattggctgggg	9	11	9	12	2	3	1	2	0	2	1	7	2	4	1	2	3	1	1	2	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:31500674G>A	uc003ntt.2	-	7	1381	c.750C>T	c.(748-750)TTC>TTT	p.F250F	BAT1_uc003ntq.2_5'Flank|BAT1_uc003ntr.2_Silent_p.F57F|BAT1_uc003nts.2_Silent_p.F250F|BAT1_uc011dnn.1_Silent_p.F172F|BAT1_uc003ntu.2_Silent_p.F250F|BAT1_uc003ntv.2_Silent_p.F250F	NM_004640	NP_004631	Q13838	DX39B_HUMAN	HLA-B associated transcript 1	250					intronless viral mRNA export from host nucleus|RNA secondary structure unwinding|spliceosome assembly	nuclear speck|spliceosomal complex|transcription export complex	ATP binding|ATP-dependent protein binding|ATP-dependent RNA helicase activity|identical protein binding|U4 snRNA binding|U6 snRNA binding				0						CATCATCCACGAAGATCTCCA	0.378													17	34					0	0	1	0	0		A	31500674	A	A	31500674	2	1	187	1	0	0	0	0	0	0	0	1	1319	1049	37	1		1	BAT1	6	31500674	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	26539	31500674	139614393	295	93078											
DAXX	1616	broad.mit.edu	37	chr6	33288600	33288600	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taacctgatgcccacatctcGgaaggcatcctgagccatga	11	8	9	13	1	1	3	0	3	1	0	3	4	2	4	4	2	3	1	4	2	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:33288600G>A	uc003oec.2	-	3	1156	c.952C>T	c.(952-954)CGA>TGA	p.R318*	ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Nonsense_Mutation_p.R243*|DAXX_uc011dre.1_Nonsense_Mutation_p.R330*|DAXX_uc003oed.2_Nonsense_Mutation_p.R318*|DAXX_uc010juw.2_Nonsense_Mutation_p.R243*	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	318					activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						CCCACATCTCGGAAGGCATCC	0.582			Mis|F|N		Pancreatic neuroendocrine tumors								35	119					0	0	1	0	0		A	33288600	A	A	33288600	4	1	187	1	0	0	0	0	0	1	0	0	4246	1124	39	1	1294	1	DAXX	6	33288600	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1787926	33288600	137826467	296	93079											
ZBTB9	221504	broad.mit.edu	37	chr6	33423758	33423758	+	Missense_Mutation	SNP	A	C	C	1	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	ggaacccttcgagcctaaggAggagatatcaggaagcggaa	14	5	14	8	2	1	1	1	0	0	1	2	7	1	5	2	5	3	0	2	5	5	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:33423758A>C	uc003oeq.2	+	2	1149	c.881A>C	c.(880-882)GAG>GCG	p.E294A		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	294					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GAGCCTAAGGAGGAGATATCA	0.537													32	84					0	0	1	0	0		C	33423758	C	C	33423758	3	2	187	1	0	0	0	0	1	0	0	0	17583	304	11	5	883	5	ZBTB9	6	33423758	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	135158	33423758	137691309	297	93080											
GRM4	2914	broad.mit.edu	37	chr6	34101001	34101001	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttaggcagcaggtccgggtcGttgttgatgcgatccagggc	6	10	16	9	3	0	1	0	1	0	0	3	2	2	1	2	4	2	4	2	4	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:34101001G>A	uc003oir.3	-	1	443	c.273C>T	c.(271-273)AAC>AAT	p.N91N	GRM4_uc011dsn.1_Silent_p.N91N|GRM4_uc010jvh.2_Silent_p.N91N|GRM4_uc010jvi.2_Translation_Start_Site|GRM4_uc010jvk.1_Silent_p.N10N	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	91	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	GGTCCGGGTCGTTGTTGATGC	0.622													10	30					0	0	1	0	0		A	34101001	A	A	34101001	2	1	187	1	0	0	0	0	0	0	0	1	6815	1136	40	1		1	GRM4	6	34101001	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	677243	34101001	137014066	298	93081											
SCUBE3	222663	broad.mit.edu	37	chr6	35210956	35210956	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggcctggtagccggggagCgagcagagccgatggagtcc	7	4	19	11	4	0	1	0	0	0	1	1	5	1	3	4	5	4	2	4	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:35210956C>T	uc003okf.1	+	15	1858	c.1852C>T	c.(1852-1854)CGA>TGA	p.R618*	SCUBE3_uc003okg.1_Nonsense_Mutation_p.R617*|SCUBE3_uc003okh.1_Nonsense_Mutation_p.R505*	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	618					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						AGCCGGGGAGCGAGCAGAGCC	0.622													22	60					0	0	1	0	0		T	35210956	T	T	35210956	4	4	187	1	0	0	0	0	0	1	0	0	13971	760	27	1	1910	1	SCUBE3	6	35210956	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1109955	35210956	135904111	299	93082											
ETV7	51513	broad.mit.edu	37	chr6	36339242	36339242	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtccaccttgccaggccagGgtcatccaggtggccgaagt	7	7	14	13	1	1	0	1	0	0	0	3	1	3	0	6	5	1	0	6	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:36339242G>T	uc003omb.2	-	5	678	c.529C>A	c.(529-531)CCT>ACT	p.P177T	ETV7_uc003olz.1_Missense_Mutation_p.P177T|ETV7_uc003oma.1_Missense_Mutation_p.P122T|ETV7_uc010jwg.2_RNA|ETV7_uc003omc.2_Missense_Mutation_p.P122T|ETV7_uc010jwj.2_Missense_Mutation_p.P118T|ETV7_uc010jwh.2_Missense_Mutation_p.P96T|ETV7_uc010jwi.2_Intron|ETV7_uc011dtl.1_Missense_Mutation_p.P26T	NM_016135	NP_057219	Q9Y603	ETV7_HUMAN	ets variant 7	177					organ morphogenesis|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						GCCAGGCCAGGGTCATCCAGG	0.642													4	11					0.00909568	0.00920787	1	1	0		T	36339242	T	T	36339242	3	4	187	1	0	0	0	0	1	0	0	0	5292	1232	43	5	512	5	ETV7	6	36339242	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1128286	36339242	134775825	300	93083											
DNAH8	1769	broad.mit.edu	37	chr6	38831683	38831683	+	Silent	SNP	T	C	C	0	1	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	ggttcctggggctgttttgaTgagtttaacagaattgaatt	9	16	12	4	0	0	4	0	3	0	1	1	4	1	4	1	3	1	4	1	3	3	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:38831683T>C	uc003ooe.1	+	43	6294	c.5694T>C	c.(5692-5694)GAT>GAC	p.D1898D		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GCTGTTTTGATGAGTTTAACA	0.328													28	82					0	0	1	0	0		C	38831683	C	C	38831683	2	2	187	1	0	0	0	0	0	0	0	1	4613	1461	51	3		3	DNAH8	6	38831683	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2492441	38831683	132283384	301	93084											
FOXP4	116113	broad.mit.edu	37	chr6	41562613	41562613	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgcacccacagaacgcCgtgcgccacaacctcagcct	10	5	7	19	3	2	1	2	0	0	1	2	1	2	1	5	0	5	1	5	0	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:41562613C>T	uc003oql.2	+	14	2000	c.1542C>T	c.(1540-1542)GCC>GCT	p.A514A	FOXP4_uc003oqm.2_Silent_p.A512A|FOXP4_uc003oqn.2_Silent_p.A501A	NM_001012426	NP_001012426	Q8IVH2	FOXP4_HUMAN	forkhead box P4 isoform 1	514	Fork-head.				embryonic foregut morphogenesis|heart development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					CACAGAACGCCGTGCGCCACA	0.607											OREG0004067	type=REGULATORY REGION|Gene=FOXP4|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	12	44					0	0	1	0	0		T	41562613	T	T	41562613	2	4	187	1	0	0	0	0	0	0	0	1	6043	639	23	1		1	FOXP4	6	41562613	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2730930	41562613	129552454	302	93085											
ZNF318	24149	broad.mit.edu	37	chr6	43325106	43325106	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctggcaagatccagttctcGaaactcagggtcgagaaacc	12	8	10	11	2	3	2	1	0	2	2	6	4	4	2	2	2	2	2	2	2	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:43325106G>A	uc003oux.2	-	3	1024	c.946C>T	c.(946-948)CGA>TGA	p.R316*	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	316	Potential.				meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			TCCAGTTCTCGAAACTCAGGG	0.522													11	34					0	0	1	0	0		A	43325106	A	A	43325106	4	1	187	1	0	0	0	0	0	1	0	0	17861	1066	37	1	5925	1	ZNF318	6	43325106	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1762493	43325106	127789961	303	93086											
ENPP4	22875	broad.mit.edu	37	chr6	46107818	46107818	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgaggaaagactaaataaTattactatgtggctaaacaa	18	12	7	4	0	0	2	0	1	0	1	0	3	0	3	0	2	2	1	0	2	10	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:46107818T>C	uc003oxy.2	+	2	757	c.498T>C	c.(496-498)AAT>AAC	p.N166N		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	166	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						GACTAAATAATATTACTATGT	0.408													47	75					0	0	1	0	0		C	46107818	C	C	46107818	2	2	187	1	0	0	0	0	0	0	0	1	5140	1403	49	3		3	ENPP4	6	46107818	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2782712	46107818	125007249	304	93087											
TNFRSF21	27242	broad.mit.edu	37	chr6	47254169	47254169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacagggcaactgctgcagaCgcgcaggcttgtgttggtac	8	8	14	11	2	0	1	0	0	0	1	0	1	0	1	0	3	4	7	0	3	2	3	rs142206681	by1000genomes	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:47254169C>T	uc003oyv.2	-	2	692	c.259G>A	c.(259-261)GTC>ATC	p.V87I		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	87	Extracellular (Potential).|TNFR-Cys 1.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			CTGCTGCAGACGCGCAGGCTT	0.537													16	47					0	0	1	0	0		T	47254169	T	T	47254169	3	4	187	1	0	0	0	0	1	0	0	0	16320	536	19	1	1728	1	TNFRSF21	6	47254169	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1146351	47254169	123860898	305	93088											
PGK2	5232	broad.mit.edu	37	chr6	49754076	49754076	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtaatccttacaccattCttttgtgctttggccatgat	10	16	6	9	0	1	1	0	1	1	0	2	1	2	1	3	1	2	2	3	1	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:49754076C>A	uc003ozu.2	-	1	932	c.825G>T	c.(823-825)AAG>AAT	p.K275N		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	275					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					TTACACCATTCTTTTGTGCTT	0.428													42	120					9.84934e-19	1.08455e-18	1	1	0		A	49754076	A	A	49754076	3	1	187	1	0	0	0	0	1	0	0	0	11810	912	32	5	432	5	PGK2	6	49754076	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2499907	49754076	121360991	306	93089											
BMP5	653	broad.mit.edu	37	chr6	55623807	55623807	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	caaaaacaaagcttaccagaGtctgaactatagcgtggttg	15	9	9	8	1	1	2	0	1	1	1	1	2	1	2	1	1	5	2	1	1	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:55623807G>A	uc003pcq.2	-	6	1923	c.1211C>T	c.(1210-1212)ACT>ATT	p.T404I	BMP5_uc011dxf.1_Intron	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	404					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			GCTTACCAGAGTCTGAACTAT	0.348													22	63					0	0	1	0	0		A	55623807	A	A	55623807	3	1	187	1	0	0	0	0	1	0	0	0	1464	1029	36	4	161	4	BMP5	6	55623807	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5869731	55623807	115491260	307	93090											
EYS	346007	broad.mit.edu	37	chr6	66044985	66044985	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatctgagaaaacatagatAccgatattcctgactgtctt	13	12	6	10	1	2	3	0	2	2	2	3	5	3	3	3	0	2	0	3	0	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:66044985A>G	uc011dxu.1	-	11	2192	c.1654T>C	c.(1654-1656)TAT>CAT	p.Y552H	EYS_uc003peq.2_Missense_Mutation_p.Y552H|EYS_uc003per.1_Missense_Mutation_p.Y552H	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	552					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						AAACATAGATACCGATATTCC	0.353													15	49					0	0	1	0	0		G	66044985	G	G	66044985	3	3	187	1	0	0	0	0	1	0	0	0	5340	391	14	3	7874	3	EYS	6	66044985	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	10421178	66044985	105070082	308	93091											
TTK	7272	broad.mit.edu	37	chr6	80751906	80751906	+	Frame_Shift_Del	DEL	G	-	-																															caagacttttgaaaaaaaaaGgggaaaaaaatgatttgcag																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:80751906delG	uc003pjc.2	+	22	2635	c.2561delG	c.(2560-2562)AGGfs	p.R854fs	TTK_uc003pjb.3_Frame_Shift_Del_p.R853fs	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	854					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		GAAAAAAAAAGGGGAAAAAAA	0.308													20	31	---	---	---	---						.	-	80751906	-	-	80751906	7	5	187	1	0	1	0	1	0	0	0	0	16746	1000	35	0	2643	0	TTK	6	80751906	Frame_Shift_Del	DEL	G	TCGA-D7-A4YV-01A-11D-A25D-08	14706921	80751906	90363161	309	93092											
DOPEY1	23033	broad.mit.edu	37	chr6	83845559	83845559	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgttatccaggagaggagaGtgacaagcatttcatgcaaa	14	9	11	7	0	1	3	1	1	0	2	2	5	2	3	1	2	2	3	1	2	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:83845559G>A	uc003pjs.1	+	20	3352	c.3092G>A	c.(3091-3093)AGT>AAT	p.S1031N	DOPEY1_uc011dyy.1_Missense_Mutation_p.S1022N|DOPEY1_uc010kbl.1_Missense_Mutation_p.S1022N|DOPEY1_uc003pjt.2_5'Flank	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1031					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		GGAGAGGAGAGTGACAAGCAT	0.378													30	62					0	0	1	0	0		A	83845559	A	A	83845559	3	1	187	1	0	0	0	0	1	0	0	0	4713	1029	36	4	3162	4	DOPEY1	6	83845559	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3093653	83845559	87269508	310	93093											
SFRS13B	135295	broad.mit.edu	37	chr6	89808605	89808605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccttgctgaggtagaccGccttggtaatgatttggaac	8	12	12	9	1	0	3	0	2	0	1	0	4	0	4	3	3	3	3	3	3	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:89808605G>A	uc003pmy.3	-	5	672	c.478C>T	c.(478-480)CGG>TGG	p.R160W		NM_080743	NP_542781	Q8WXF0	SRS12_HUMAN	serine-arginine repressor protein	160	Arg/Ser-rich (RS domain).				assembly of spliceosomal tri-snRNP|cytoplasmic transport|negative regulation of nuclear mRNA splicing, via spliceosome|nuclear mRNA 5'-splice site recognition|regulation of alternative nuclear mRNA splicing, via spliceosome	nucleoplasm	nucleotide binding|RNA binding|RS domain binding|unfolded protein binding				0						GAGGTAGACCGCCTTGGTAAT	0.438													55	167					0	0	1	0	0		A	89808605	A	A	89808605	3	1	187	1	0	0	0	0	1	0	0	0	14194	1086	38	1	311	1	SFRS13B	6	89808605	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5963046	89808605	81306462	311	93094											
UBE2J1	51465	broad.mit.edu	37	chr6	90052126	90052126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataaactcctccatcaaaatCggagtctgggggccctctaa	12	9	8	12	1	3	0	1	0	2	0	6	1	5	1	3	3	1	0	3	3	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:90052126C>T	uc010kcb.2	-	4	327	c.154G>A	c.(154-156)GAT>AAT	p.D52N	UBE2J1_uc003pnc.2_Missense_Mutation_p.D52N	NM_016021	NP_057105	Q9Y385	UB2J1_HUMAN	ubiquitin-conjugating enzyme E2, J1	52	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	ATP binding|ubiquitin-protein ligase activity				0		all_cancers(76;1.65e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.45e-10)|all_hematologic(105;7.74e-07)|all_epithelial(107;2.5e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0139)		CCATCAAAATCGGAGTCTGGG	0.403													10	51					0	0	1	0	0		T	90052126	T	T	90052126	3	4	187	1	0	0	0	0	1	0	0	0	16886	884	31	1	826	1	UBE2J1	6	90052126	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	243521	90052126	81062941	312	93095											
FUT9	10690	broad.mit.edu	37	chr6	96652014	96652014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcactgtaaatcttccacGattttgggaatcacatgcat	11	15	6	9	1	3	0	2	0	1	0	4	2	4	1	1	1	1	2	1	1	3	5	rs142793962		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:96652014G>A	uc003pop.3	+	3	1324	c.983G>A	c.(982-984)CGA>CAA	p.R328Q		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	328	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity	p.R328Q(1)		skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		AATCTTCCACGATTTTGGGAA	0.358													21	58					0	0	1	0	0		A	96652014	A	A	96652014	3	1	187	1	0	0	0	0	1	0	0	0	6125	1058	37	1	985	1	FUT9	6	96652014	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6599888	96652014	74463053	313	93096											
SOBP	55084	broad.mit.edu	37	chr6	107854724	107854724	+	Silent	SNP	C	A	A	0	0	0	1	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	cagaaagtgggaatcaagcgCtattccctgagtatgggaag	13	8	13	7	1	1	2	1	1	0	1	2	4	2	4	1	2	1	2	1	2	6	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:107854724C>A	uc003prx.2	+	4	987	c.483C>A	c.(481-483)CGC>CGA	p.R161R	SOBP_uc003prw.1_Silent_p.R161R	NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	161	FCS-type 1.						metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		GAATCAAGCGCTATTCCCTGA	0.428													27	118					2.4375e-19	2.68679e-19	1	1	0		A	107854724	A	A	107854724	2	1	187	1	0	0	0	0	0	0	0	1	14937	784	28	5		5	SOBP	6	107854724	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	11202710	107854724	63260343	314	93097											
REV3L	5980	broad.mit.edu	37	chr6	111654417	111654417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtgattggaaatccaaaaCgagaacagagttgctataga	18	8	10	5	1	0	4	0	1	0	3	1	6	1	5	1	1	3	2	1	1	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:111654417C>T	uc003puy.3	-	23	8157	c.7834G>A	c.(7834-7836)GTT>ATT	p.V2612I	REV3L_uc003pux.3_Missense_Mutation_p.V2534I|REV3L_uc003puz.3_Missense_Mutation_p.V2534I|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2612					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		AAATCCAAAACGAGAACAGAG	0.438								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					6	33					0	0	1	0	0		T	111654417	T	T	111654417	3	4	187	1	0	0	0	0	1	0	0	0	13265	536	19	1	1598	1	REV3L	6	111654417	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3799693	111654417	59460650	315	93098											
FYN	2534	broad.mit.edu	37	chr6	112024133	112024133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtttcaaactgggcccGggtggtaatgtagtatccac	10	11	12	8	1	1	0	1	0	0	0	2	0	2	0	2	3	1	4	2	3	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:112024133G>A	uc003pvj.2	-	7	992	c.652C>T	c.(652-654)CGG>TGG	p.R218W	FYN_uc003pvi.2_Missense_Mutation_p.R218W|FYN_uc003pvk.2_Missense_Mutation_p.R218W|FYN_uc003pvh.2_Missense_Mutation_p.R218W|FYN_uc010kdy.1_Missense_Mutation_p.R24W	NM_002037	NP_002028	P06241	FYN_HUMAN	protein-tyrosine kinase fyn isoform a	218	SH2.				axon guidance|calcium ion transport|feeding behavior|interspecies interaction between organisms|intracellular protein kinase cascade|learning|leukocyte migration|platelet activation|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|endosome|plasma membrane	ATP binding|glycoprotein binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|central_nervous_system(1)|skin(1)	7		all_cancers(87;1.37e-05)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00125)|Colorectal(196;0.0211)		all cancers(137;0.0451)|OV - Ovarian serous cystadenocarcinoma(136;0.0476)|Epithelial(106;0.102)	Dasatinib(DB01254)	AACTGGGCCCGGGTGGTAATG	0.408													25	40					0	0	1	0	0		A	112024133	A	A	112024133	3	1	187	1	0	0	0	0	1	0	0	0	6140	1115	39	1	1149	1	FYN	6	112024133	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	369716	112024133	59090934	316	93099											
C6orf174	387104	broad.mit.edu	37	chr6	127796885	127796885	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggccgcgagtcgtcgtcGctctccttcttgcccgcgtc	2	10	13	16	7	2	0	0	0	2	0	7	2	2	1	3	2	1	1	3	2	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:127796885G>A	uc003qbd.2	-	6	3151	c.2286C>T	c.(2284-2286)AGC>AGT	p.S762S	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	762						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		AGTCGTCGTCGCTCTCCTTCT	0.701													38	82					0	0	1	0	0		A	127796885	A	A	127796885	2	1	187	1	0	0	0	0	0	0	0	1	2348	1078	38	1		1	C6orf174	6	127796885	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	15772752	127796885	43318182	317	93100											
PERP	64065	broad.mit.edu	37	chr6	138428376	138428376	+	Silent	SNP	G	A	A	0	0	1	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	tggtcgctagactgcaaccaGccgcggccggccagcgcgat	7	5	14	15	6	0	1	0	0	0	1	1	2	0	1	4	3	4	2	4	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:138428376G>A	uc003qht.2	-	1	285	c.102C>T	c.(100-102)GGC>GGT	p.G34G		NM_022121	NP_071404	Q96FX8	PERP_HUMAN	PERP, TP53 apoptosis effector	34					apoptosis|cell adhesion	desmosome|Golgi apparatus|integral to membrane|nucleus					0	Breast(32;0.0799)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000878)|OV - Ovarian serous cystadenocarcinoma(155;0.000997)		ACTGCAACCAGCCGCGGCCGG	0.692													30	65					0	0	1	0	0		A	138428376	A	A	138428376	2	1	187	1	0	0	0	0	0	0	0	1	11751	958	34	2		2	PERP	6	138428376	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	10631491	138428376	32686691	318	93101											
SYNE1	23345	broad.mit.edu	37	chr6	152708388	152708388	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggtcaagcaggacgaacTtctctttcagacctggctgt	8	11	12	10	1	3	1	2	0	1	1	4	3	3	2	1	4	2	2	1	4	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:152708388T>G	uc010kiw.2	-	54	8908	c.8306A>C	c.(8305-8307)AAG>ACG	p.K2769T	SYNE1_uc003qot.3_Missense_Mutation_p.K2776T|SYNE1_uc003qou.3_Missense_Mutation_p.K2769T|SYNE1_uc010kjb.1_Missense_Mutation_p.K2752T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2769	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CAGGACGAACTTCTCTTTCAG	0.483										HNSCC(10;0.0054)			34	110					0	0	1	0	0		G	152708388	G	G	152708388	3	3	187	1	0	0	0	0	1	0	0	0	15470	1609	56	5	18532	5	SYNE1	6	152708388	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	14280012	152708388	18406679	319	93102											
PLG	5340	broad.mit.edu	37	chr6	161135924	161135924	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggactctcagagcccacacGctcatggatacattccttcc	9	9	8	15	1	2	1	2	0	1	1	5	3	4	3	3	2	2	1	3	2	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:161135924G>T	uc003qtm.3	+	6	709	c.646G>T	c.(646-648)GCT>TCT	p.A216S		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	216	Kringle 2.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	GAGCCCACACGCTCATGGATA	0.443													13	31					0.000219431	0.000225779	1	1	0		T	161135924	T	T	161135924	3	4	187	1	0	0	0	0	1	0	0	0	12105	1087	38	5	672	5	PLG	6	161135924	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8427536	161135924	9979143	320	93103											
MAP3K4	4216	broad.mit.edu	37	chr6	161523007	161523007	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctgagtcgtcactcaagccCcacggaggagcgagatggtg	9	6	14	12	3	2	2	2	1	0	1	3	5	2	4	3	3	2	0	3	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:161523007C>A	uc003qtn.2	+	18	3900	c.3758C>A	c.(3757-3759)CCC>CAC	p.P1253H	MAP3K4_uc010kkc.1_Missense_Mutation_p.P1249H|MAP3K4_uc003qto.2_Missense_Mutation_p.P1203H|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_Missense_Mutation_p.P706H|MAP3K4_uc003qtp.2_Missense_Mutation_p.P189H|MAP3K4_uc003qtq.2_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	1253					activation of MAPKK activity|JNK cascade|positive regulation of JUN kinase activity	perinuclear region of cytoplasm	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			ovary(3)|lung(3)|skin(2)|stomach(1)	9		Breast(66;0.000776)|Ovarian(120;0.0367)|Prostate(117;0.0771)		OV - Ovarian serous cystadenocarcinoma(65;1.85e-18)|BRCA - Breast invasive adenocarcinoma(81;3.04e-05)		CACTCAAGCCCCACGGAGGAG	0.438													16	59					3.41278e-10	3.6378e-10	1	1	0		A	161523007	A	A	161523007	3	1	187	1	0	0	0	0	1	0	0	0	9270	623	22	5	3828	5	MAP3K4	6	161523007	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	387083	161523007	9592060	321	93104											
PSMB1	5689	broad.mit.edu	37	chr6	170858188	170858188	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaaaatcttctccagcaaTtgccagtatagtactgagga	13	11	8	9	0	2	1	0	1	2	0	3	2	2	2	2	1	4	4	2	1	6	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr6:170858188T>A	uc011ehe.1	-	2	214	c.127A>T	c.(127-129)ATT>TTT	p.I43F	PSMB1_uc003qxq.2_RNA|PSMB1_uc003qxr.2_5'UTR	NM_002793	NP_002784	P20618	PSB1_HUMAN	proteasome beta 1 subunit precursor	43					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cell junction|cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity			ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.0563)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;7.5e-23)|BRCA - Breast invasive adenocarcinoma(81;4.88e-06)|GBM - Glioblastoma multiforme(31;0.00643)	Bortezomib(DB00188)	TCTCCAGCAATTGCCAGTATA	0.368													16	32					0	0	1	0	0		A	170858188	A	A	170858188	3	1	187	1	0	0	0	0	1	0	0	0	12696	1493	52	5	618	5	PSMB1	6	170858188	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	9335181	170858188	256879	322	93105											
PRKAR1B	5575	broad.mit.edu	37	chr7	751062	751062	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagtctttgaggacctgctgGatcccgtgcagctgcacgta	7	10	12	12	2	1	1	0	1	1	0	2	3	2	3	2	2	4	5	2	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:751062G>A	uc003siu.1	-	3	187	c.81C>T	c.(79-81)ATC>ATT	p.I27I	PRKAR1B_uc003siv.2_Silent_p.I27I|PRKAR1B_uc003siw.1_Silent_p.I27I	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	27	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		GGACCTGCTGGATCCCGTGCA	0.632													29	78					0	0	1	0	0		A	751062	A	A	751062	2	1	187	1	0	0	0	0	0	0	0	1	12526	1164	41	4		4	PRKAR1B	7	751062	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		751062	158387601	323	93106											
AMZ1	155185	broad.mit.edu	37	chr7	2749293	2749293	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggtcacgtgccacgagctctGccaccttctgggcctgggga	5	8	14	14	2	3	0	1	0	2	0	3	2	3	1	4	4	3	1	4	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:2749293G>A	uc003smr.1	+	6	1152	c.791G>A	c.(790-792)TGC>TAC	p.C264Y	AMZ1_uc003sms.1_Silent_p.L207L|AMZ1_uc011jwa.1_Missense_Mutation_p.C13Y	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	264							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		CACGAGCTCTGCCACCTTCTG	0.706											OREG0017838	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	58					0	0	1	0	0		A	2749293	A	A	2749293	3	1	187	1	0	0	0	0	1	0	0	0	596	1319	46	2	809	2	AMZ1	7	2749293	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1998231	2749293	156389370	324	93107											
FSCN1	6624	broad.mit.edu	37	chr7	5633137	5633137	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgctacagcgtgcagacCgccgaccaccgcttcctgcg	7	5	11	18	6	0	1	0	0	0	1	1	2	1	1	5	0	5	3	5	0	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:5633137C>T	uc003sou.2	+	1	684	c.570C>T	c.(568-570)ACC>ACT	p.T190T		NM_003088	NP_003079	Q16658	FSCN1_HUMAN	fascin 1	190					actin filament bundle assembly|cell migration|cell proliferation	cell junction|cytoplasm|filopodium|invadopodium|stress fiber	actin filament binding|drug binding|protein binding, bridging			ovary(1)	1		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;1.21e-13)		GCGTGCAGACCGCCGACCACC	0.736													3	26					0	0	1	0	0		T	5633137	T	T	5633137	2	4	187	1	0	0	0	0	0	0	0	1	6081	639	23	1		1	FSCN1	7	5633137	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2883844	5633137	153505526	325	93108											
SP8	221833	broad.mit.edu	37	chr7	20824584	20824584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcaggtgcgaggaggcGccgctgctgaaggccgagtg	7	5	19	10	4	0	2	0	2	0	0	0	5	0	3	2	4	3	3	2	4	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:20824584G>A	uc003suy.2	-	3	1039	c.798C>T	c.(796-798)GGC>GGT	p.G266G	SP8_uc003suz.2_Silent_p.G284G	NM_198956	NP_945194	Q8IXZ3	SP8_HUMAN	Sp8 transcription factor isoform 2	266					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						GCGAGGAGGCGCCGCTGCTGA	0.706													3	5					0	0	1	0	0		A	20824584	A	A	20824584	2	1	187	1	0	0	0	0	0	0	0	1	14995	1074	38	1		1	SP8	7	20824584	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	15191447	20824584	138314079	326	93109											
SP4	6671	broad.mit.edu	37	chr7	21470090	21470090	+	Missense_Mutation	SNP	T	C	C	0	1	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	agggcagacgattcagaccaTccagcagcagcctttacaga	13	6	10	12	1	1	3	1	0	0	3	2	4	2	3	3	1	4	3	3	1	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:21470090T>C	uc003sva.2	+	3	1488	c.1307T>C	c.(1306-1308)ATC>ACC	p.I436T	SP4_uc003svb.2_Missense_Mutation_p.I123T	NM_003112	NP_003103	Q02446	SP4_HUMAN	Sp4 transcription factor	436					regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(3)|skin(2)	5						ATTCAGACCATCCAGCAGCAG	0.478													38	111					0	0	1	0	0		C	21470090	C	C	21470090	3	2	187	1	0	0	0	0	1	0	0	0	14991	1435	50	3	1317	3	SP4	7	21470090	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	645506	21470090	137668573	327	93110											
CCDC126	90693	broad.mit.edu	37	chr7	23651149	23651149	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacacagtggatgtcgagaAcggtgcttctatggcaggat	11	9	14	7	2	1	1	0	0	1	1	2	5	1	3	0	4	3	2	0	4	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:23651149A>G	uc003swl.2	+	3	672	c.215A>G	c.(214-216)AAC>AGC	p.N72S	CCDC126_uc003swm.2_Missense_Mutation_p.N72S|CCDC126_uc003swn.2_Missense_Mutation_p.N72S	NM_138771	NP_620126	Q96EE4	CC126_HUMAN	coiled-coil domain containing 126 precursor	72						extracellular region				ovary(1)|skin(1)	2						GATGTCGAGAACGGTGCTTCT	0.368													35	85					0	0	1	0	0		G	23651149	G	G	23651149	3	3	187	1	0	0	0	0	1	0	0	0	2765	43	2	3	217	3	CCDC126	7	23651149	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	2181059	23651149	135487514	328	93111											
CCDC129	223075	broad.mit.edu	37	chr7	31682938	31682938	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcacagtgaaatcacacctTatgcaactgaccttgctcaa	14	9	6	12	0	2	2	2	2	0	0	2	2	2	2	2	0	4	3	2	0	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:31682938T>C	uc003tcj.1	+	11	2947	c.1954T>C	c.(1954-1956)TAT>CAT	p.Y652H	CCDC129_uc011kad.1_Missense_Mutation_p.Y662H|CCDC129_uc003tci.1_Missense_Mutation_p.Y503H|CCDC129_uc011kae.1_Missense_Mutation_p.Y678H|CCDC129_uc003tck.1_Missense_Mutation_p.Y560H	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	652											0						AATCACACCTTATGCAACTGA	0.488													5	62					0	0	1	0	0		C	31682938	C	C	31682938	3	2	187	1	0	0	0	0	1	0	0	0	2767	1754	61	3	1992	3	CCDC129	7	31682938	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	8031789	31682938	127455725	329	93112											
NPSR1	387129	broad.mit.edu	37	chr7	34867042	34867042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggtcctcattgtgatcGcctggagcctgtcttttctg	4	14	11	12	1	3	1	1	1	2	0	5	2	4	2	4	2	1	0	4	2	0	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:34867042G>A	uc003teg.1	+	5	636	c.508G>A	c.(508-510)GCC>ACC	p.A170T	AAA1_uc010kwq.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Missense_Mutation_p.A170T|NPSR1_uc010kwt.1_Missense_Mutation_p.A17T|NPSR1_uc010kwu.1_5'UTR|NPSR1_uc010kwv.1_Missense_Mutation_p.A104T|NPSR1_uc003tei.1_Missense_Mutation_p.A170T|NPSR1_uc010kww.1_Missense_Mutation_p.A159T|NPSR1_uc011kar.1_Missense_Mutation_p.A104T|AAA1_uc010kwy.2_Intron|AAA1_uc003tek.3_Intron	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	170	Helical; Name=4; (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	CATTGTGATCGCCTGGAGCCT	0.512													17	35					0	0	1	0	0		A	34867042	A	A	34867042	3	1	187	1	0	0	0	0	1	0	0	0	10619	1087	38	1	526	1	NPSR1	7	34867042	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3184104	34867042	124271621	330	93113											
NPSR1	387129	broad.mit.edu	37	chr7	34888209	34888209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatcattcagaacctgccagCattgaatagtgccatcaacc	13	9	7	12	0	3	2	3	1	0	1	3	3	3	2	4	0	5	1	4	0	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:34888209C>T	uc003teg.1	+	8	1087	c.959C>T	c.(958-960)GCA>GTA	p.A320V	AAA1_uc010kwq.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Missense_Mutation_p.A320V|NPSR1_uc010kwt.1_Missense_Mutation_p.A167V|NPSR1_uc010kwu.1_Missense_Mutation_p.A110V|NPSR1_uc010kwv.1_Missense_Mutation_p.A254V|NPSR1_uc003tei.1_Missense_Mutation_p.A320V|NPSR1_uc010kww.1_Missense_Mutation_p.A309V|NPSR1_uc011kar.1_Missense_Mutation_p.A254V	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	320	Helical; Name=7; (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	AACCTGCCAGCATTGAATAGT	0.498													40	149					0	0	1	0	0		T	34888209	T	T	34888209	3	4	187	1	0	0	0	0	1	0	0	0	10619	710	25	2	989	2	NPSR1	7	34888209	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	21167	34888209	124250454	331	93114											
ANLN	54443	broad.mit.edu	37	chr7	36447449	36447449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctattagtcctctgaaaaCgggggtatcgaaaccaattg	12	11	9	9	2	1	1	0	1	1	0	4	2	3	1	3	2	2	1	3	2	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:36447449C>T	uc003tff.2	+	5	1184	c.980C>T	c.(979-981)ACG>ATG	p.T327M	ANLN_uc011kaz.1_Missense_Mutation_p.T239M|ANLN_uc003tfg.2_Missense_Mutation_p.T327M|ANLN_uc010kxe.2_Missense_Mutation_p.T327M	NM_018685	NP_061155	Q9NQW6	ANLN_HUMAN	anillin, actin binding protein	327	Interaction with F-actin.				cytokinesis|mitosis|regulation of exit from mitosis|septin ring assembly	actomyosin contractile ring|nucleus	actin binding			ovary(2)|skin(1)	3						CCTCTGAAAACGGGGGTATCG	0.393													15	46					0	0	1	0	0		T	36447449	T	T	36447449	3	4	187	1	0	0	0	0	1	0	0	0	694	536	19	1	998	1	ANLN	7	36447449	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1559240	36447449	122691214	332	93115											
INHBA	3624	broad.mit.edu	37	chr7	41729812	41729812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcacaggcaatccgaacGtccagggagctcttgccctg	8	8	11	14	2	2	0	1	0	1	0	4	2	4	1	3	2	4	3	3	2	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:41729812G>A	uc003thq.2	-	2	952	c.717C>T	c.(715-717)GAC>GAT	p.D239D	INHBA_uc003thr.2_Silent_p.D239D	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	239					cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6						CAATCCGAACGTCCAGGGAGC	0.468										TSP Lung(11;0.080)			6	43					0	0	1	0	0		A	41729812	A	A	41729812	2	1	187	1	0	0	0	0	0	0	0	1	7757	1136	40	1		1	INHBA	7	41729812	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5282363	41729812	117408851	333	93116											
STK17A	9263	broad.mit.edu	37	chr7	43647881	43647881	+	Missense_Mutation	SNP	A	T	T	1	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	tgggggtgaaatctttgaccAgtgtgttgcagacagagaag	11	10	15	5	0	1	4	0	2	1	2	1	5	1	4	1	2	1	2	1	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:43647881A>T	uc003tih.2	+	3	597	c.446A>T	c.(445-447)CAG>CTG	p.Q149L		NM_004760	NP_004751	Q9UEE5	ST17A_HUMAN	serine/threonine kinase 17a	149	Protein kinase.				apoptosis|induction of apoptosis|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity			skin(2)	2						ATCTTTGACCAGTGTGTTGCA	0.373													13	38					0	0	1	0	0		T	43647881	T	T	43647881	3	4	187	1	0	0	0	0	1	0	0	0	15315	188	7	5	456	5	STK17A	7	43647881	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1918069	43647881	115490782	334	93117											
ADCY1	107	broad.mit.edu	37	chr7	45614596	45614596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgcccggggttccgccgggGccgctggggggccagcgacc	2	3	19	17	6	0	0	0	0	0	0	1	1	1	0	7	7	1	2	7	7	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:45614596G>A	uc003tne.3	+	1	472	c.454G>A	c.(454-456)GCC>ACC	p.A152T	ADCY1_uc003tnd.2_5'UTR	NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	152					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	ttccgccggggccgctggggg	0.507													5	19					0	0	1	0	0		A	45614596	A	A	45614596	3	1	187	1	0	0	0	0	1	0	0	0	292	1203	42	2	456	2	ADCY1	7	45614596	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1966715	45614596	113524067	335	93118											
TNS3	64759	broad.mit.edu	37	chr7	47409180	47409180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcttttcttcctcaccttcgCgtaaaggctgccatcgacag	7	12	8	14	3	2	0	1	0	1	0	5	1	3	0	3	1	1	3	3	1	2	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:47409180C>T	uc003tnv.2	-	17	1430	c.1063G>A	c.(1063-1065)GCG>ACG	p.A355T	TNS3_uc003tnw.2_Missense_Mutation_p.A355T	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	355						focal adhesion	protein binding			ovary(4)	4						CTCACCTTCGCGTAAAGGCTG	0.607													12	48					0	0	1	0	0		T	47409180	T	T	47409180	3	4	187	1	0	0	0	0	1	0	0	0	16369	768	27	1	3334	1	TNS3	7	47409180	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1794584	47409180	111729483	336	93119											
SUMF2	25870	broad.mit.edu	37	chr7	56136300	56136300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtgaaaccctttgccatcGacatatttcctgtcaccaac	11	11	5	14	1	1	1	1	1	0	0	3	2	2	1	4	0	3	0	4	0	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:56136300G>A	uc003trv.2	+	2	281	c.250G>A	c.(250-252)GAC>AAC	p.D84N	PSPH_uc003trj.2_Intron|SUMF2_uc003tro.2_Missense_Mutation_p.D84N|SUMF2_uc011kcv.1_RNA|SUMF2_uc011kcw.1_Missense_Mutation_p.D84N|SUMF2_uc011kcx.1_Missense_Mutation_p.D84N|SUMF2_uc003trt.2_Intron|SUMF2_uc011kcy.1_Missense_Mutation_p.D84N|SUMF2_uc011kcz.1_Missense_Mutation_p.D84N|SUMF2_uc003tru.2_RNA|SUMF2_uc011kda.1_5'UTR|SUMF2_uc003trx.2_RNA	NM_001130069	NP_001123541	Q8NBJ7	SUMF2_HUMAN	sulfatase modifying factor 2 isoform e	65						endoplasmic reticulum lumen	metal ion binding			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CTTTGCCATCGACATATTTCC	0.453													6	31					0	0	1	0	0		A	56136300	A	A	56136300	3	1	187	1	0	0	0	0	1	0	0	0	15411	1058	37	1	256	1	SUMF2	7	56136300	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8727120	56136300	103002363	337	93120											
GUSB	2990	broad.mit.edu	37	chr7	65444796	65444796	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgatggcgatagtgattcGgagccgggagggcaggggcc	7	7	20	7	3	0	2	0	2	0	0	1	5	0	4	2	6	1	2	2	6	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:65444796G>A	uc003tun.2	-	3	575	c.499C>T	c.(499-501)CGA>TGA	p.R167*	GUSB_uc011kdt.1_Intron|GUSB_uc010kzw.1_Intron	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	167					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						ATAGTGATTCGGAGCCGGGAG	0.622													16	69					0	0	1	0	0		A	65444796	A	A	65444796	4	1	187	1	0	0	0	0	0	1	0	0	6918	1124	39	1	1496	1	GUSB	7	65444796	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9308496	65444796	93693867	338	93121											
AUTS2	26053	broad.mit.edu	37	chr7	70255373	70255373	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcatcagccccctcccgggCggagagcgcttcccgtaccc	5	5	12	19	4	1	1	1	0	0	1	3	2	3	1	5	3	3	3	5	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:70255373C>T	uc003tvw.3	+	19	3914	c.3171C>T	c.(3169-3171)GGC>GGT	p.G1057G	AUTS2_uc003tvx.3_Silent_p.G1033G|AUTS2_uc011keg.1_Silent_p.G509G	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	1057										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCCTCCCGGGCGGAGAGCGCT	0.627													7	28					0	0	1	0	0		T	70255373	T	T	70255373	2	4	187	1	0	0	0	0	0	0	0	1	1226	755	27	1		1	AUTS2	7	70255373	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4810577	70255373	88883290	339	93122											
POM121	9883	broad.mit.edu	37	chr7	72418920	72418920	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggaagggacccaataacCtttcaaaacgcaaactgctg	15	6	9	11	2	1	0	1	0	0	0	1	3	1	2	2	2	4	2	2	2	6	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:72418920C>A	uc010lam.1	+	16	3952	c.2911C>A	c.(2911-2913)CTT>ATT	p.L971I	NSUN5P2_uc003twl.2_RNA|NSUN5P2_uc003twm.2_3'UTR|NSUN5P2_uc003twn.2_3'UTR|NSUN5P2_uc003two.2_3'UTR|NSUN5P2_uc003twq.2_3'UTR|NSUN5P2_uc010lan.1_3'UTR|NSUN5P2_uc003twp.2_3'UTR	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				ACCCAATAACCTTTCAAAACG	0.527													37	67					1.67305e-13	1.80682e-13	1	1	0		A	72418920	A	A	72418920	3	1	187	1	0	0	0	0	1	0	0	0	12258	696	24	5		5	POM121	7	72418920	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2163547	72418920	86719743	340	93123											
NCF1	653361	broad.mit.edu	37	chr7	74197373	74197373	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atggctctgtccacgggggaCgtggtggaggtcgtagagaa	8	8	18	7	3	1	1	0	0	1	1	3	4	2	3	1	6	0	2	1	6	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:74197373C>T	uc003ubb.2	+	6	613	c.543C>T	c.(541-543)GAC>GAT	p.D181D	NCF1_uc010lbs.1_Silent_p.D181D|NCF1_uc011kfh.1_Missense_Mutation_p.R101C	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	181	SH3 1.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						CCACGGGGGACGTGGTGGAGG	0.642													14	36					0	0	1	0	0		T	74197373	T	T	74197373	2	4	187	1	0	0	0	0	0	0	0	1	10235	535	19	1		1	NCF1	7	74197373	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1778453	74197373	84941290	341	93124											
RUNDC3B	154661	broad.mit.edu	37	chr7	87258228	87258228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgagcgcccgcaatgctgCggtggagaggaggaacctga	9	5	16	11	3	0	3	0	2	0	1	0	6	0	5	3	4	4	2	3	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:87258228C>T	uc003ujb.2	+	1	500	c.89C>T	c.(88-90)GCG>GTG	p.A30V	ABCB1_uc003uiz.1_Intron|ABCB1_uc003uja.1_Intron|ABCB1_uc010lei.1_Intron|RUNDC3B_uc011khd.1_Missense_Mutation_p.A30V|RUNDC3B_uc011khe.1_Missense_Mutation_p.A30V|RUNDC3B_uc003ujc.2_Missense_Mutation_p.A30V	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	30										skin(1)	1	Esophageal squamous(14;0.00164)					CGCAATGCTGCGGTGGAGAGG	0.726													8	25					0	0	1	0	0		T	87258228	T	T	87258228	3	4	187	1	0	0	0	0	1	0	0	0	13770	768	27	1	91	1	RUNDC3B	7	87258228	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	13060855	87258228	71880435	342	93125											
CLDN12	9069	broad.mit.edu	37	chr7	90042012	90042012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggctgtcgggatgtccacGcagccacagtcctttccttc	5	11	11	14	2	0	0	0	0	0	0	5	1	3	1	4	2	1	2	4	2	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:90042012G>A	uc003ukp.2	+	5	658	c.22G>A	c.(22-24)GCA>ACA	p.A8T	CLDN12_uc003ukq.2_Missense_Mutation_p.A8T|CLDN12_uc010leq.2_Missense_Mutation_p.A8T|CLDN12_uc003ukr.2_Missense_Mutation_p.A8T|CLDN12_uc003uks.2_Missense_Mutation_p.A8T	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	8	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						GGATGTCCACGCAGCCACAGT	0.522													11	68					0	0	1	0	0		A	90042012	A	A	90042012	3	1	187	1	0	0	0	0	1	0	0	0	3477	1087	38	1	24	1	CLDN12	7	90042012	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2783784	90042012	69096651	343	93126											
LMTK2	22853	broad.mit.edu	37	chr7	97823250	97823250	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgcctggaagccagaaagaGccagccagatgaaagttgtc	13	6	12	10	0	0	4	0	1	0	3	1	5	0	5	4	1	4	1	4	1	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:97823250G>A	uc003upd.1	+	11	3766	c.3473G>A	c.(3472-3474)AGC>AAC	p.S1158N		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1158					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					GCCAGAAAGAGCCAGCCAGAT	0.592													9	52					0	0	1	0	0		A	97823250	A	A	97823250	3	1	187	1	0	0	0	0	1	0	0	0	8876	971	34	2	3515	2	LMTK2	7	97823250	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7781238	97823250	61315413	344	93127											
TAF6	6878	broad.mit.edu	37	chr7	99709365	99709368	+	Frame_Shift_Del	DEL	AGAG	-	-																															actcacgtatttttctagatAgagcgtggggttgtccatca																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:99709365_99709368delAGAG	uc003uti.2	-	9	964_967	c.883_886delCTCT	c.(883-888)CTCTATfs	p.L295fs	TAF6_uc003utg.2_Frame_Shift_Del_p.L217fs|TAF6_uc003uth.2_Frame_Shift_Del_p.L352fs|TAF6_uc003utk.2_Frame_Shift_Del_p.L295fs|TAF6_uc011kji.1_Frame_Shift_Del_p.L332fs|TAF6_uc003utj.2_Frame_Shift_Del_p.L285fs|TAF6_uc003utl.2_Frame_Shift_Del_p.L295fs|TAF6_uc003utm.2_Frame_Shift_Del_p.L295fs|TAF6_uc003utn.1_RNA	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	295_296					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TTTTCTAGATAGAGCGTGGGGTTG	0.51													34	77	---	---	---	---						.	-	99709368	-	-	99709365	7	5	187	1	0	1	0	1	0	0	0	0	15555	420	15	0	1175	0	TAF6	7	99709365	Frame_Shift_Del	DEL	AGAG	TCGA-D7-A4YV-01A-11D-A25D-08	1886115	99709365	59429298	345	93128											
AGFG2	3268	broad.mit.edu	37	chr7	100153232	100153232	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtttcttccacctacaGgccagacaccttcccaagga	10	11	6	14	0	1	1	0	0	1	1	3	2	3	2	5	2	1	1	5	2	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:100153232G>A	uc003uvf.2	+	6	888	c.752_splice	c.e6-1	p.G251_splice	AGFG2_uc003uvg.1_Splice_Site_p.W144_splice|AGFG2_uc010lgy.2_Splice_Site_p.A113_splice	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2						regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						TCCACCTACAGGCCAGACACC	0.338													50	137					0	0	1	0	0		A	100153232	A	A	100153232	5	1	187	1	0	0	0	0	0	0	1	0	381	1014	35	4	773	4	AGFG2	7	100153232	Splice_Site	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	443867	100153232	58985431	346	93129											
SLC12A9	56996	broad.mit.edu	37	chr7	100457805	100457805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accggccaaggttgtgtcccGagggggaaacccctgggcag	8	5	16	12	2	0	0	0	0	0	0	1	2	1	1	5	5	1	2	5	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:100457805G>A	uc003uwp.2	+	9	1311	c.1169G>A	c.(1168-1170)CGA>CAA	p.R390Q	SLC12A9_uc003uwq.2_Missense_Mutation_p.R301Q|SLC12A9_uc011kki.1_5'UTR|SLC12A9_uc003uwr.2_Missense_Mutation_p.R126Q|SLC12A9_uc003uws.2_5'UTR|SLC12A9_uc003uwt.2_Missense_Mutation_p.R126Q|SLC12A9_uc003uwv.2_5'UTR	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	390	Cytoplasmic (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					GTTGTGTCCCGAGGGGGAAAC	0.597													16	60					0	0	1	0	0		A	100457805	A	A	100457805	3	1	187	1	0	0	0	0	1	0	0	0	14415	1058	37	1	1199	1	SLC12A9	7	100457805	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	304573	100457805	58680858	347	93130											
MUC17	140453	broad.mit.edu	37	chr7	100679976	100679976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatacctgtcagcaccacgcCggtactcagttctgaggcta	9	10	9	13	2	3	1	2	1	1	0	3	1	3	1	3	2	3	4	3	2	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:100679976C>T	uc003uxp.1	+	3	5332	c.5279C>T	c.(5278-5280)CCG>CTG	p.P1760L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1760	Extracellular (Potential).|59 X approximate tandem repeats.|27.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AGCACCACGCCGGTACTCAGT	0.507													119	389					0	0	1	0	0		T	100679976	T	T	100679976	3	4	187	1	0	0	0	0	1	0	0	0	9992	652	23	1	5289	1	MUC17	7	100679976	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	222171	100679976	58458687	348	93131											
MUC17	140453	broad.mit.edu	37	chr7	100684965	100684965	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacaccctttcaacaactcCtgtggactccaacactctgg	11	10	5	15	0	2	0	1	0	1	0	4	1	4	1	3	2	4	0	3	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:100684965C>A	uc003uxp.1	+	3	10321	c.10268C>A	c.(10267-10269)CCT>CAT	p.P3423H	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3423	Extracellular (Potential).|55.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCAACAACTCCTGTGGACTCC	0.502													23	340					5.35356e-11	5.74095e-11	1	1	0		A	100684965	A	A	100684965	3	1	187	1	0	0	0	0	1	0	0	0	9992	681	24	5	10278	5	MUC17	7	100684965	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4989	100684965	58453698	349	93132											
CUX1	1523	broad.mit.edu	37	chr7	101845023	101845023	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaaaaatgaggtgggcCgcagcggtgcctggaaggac	11	5	18	7	2	0	2	0	2	0	0	0	4	0	4	2	6	2	1	2	6	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:101845023C>T	uc003uyx.3	+	18	2484	c.2446C>T	c.(2446-2448)CGC>TGC	p.R816C	CUX1_uc003uys.3_Missense_Mutation_p.R827C|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	816					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						TGAGGTGGGCCGCAGCGGTGC	0.672													6	27					0	0	1	0	0		T	101845023	T	T	101845023	3	4	187	1	0	0	0	0	1	0	0	0	4067	652	23	1	2583	1	CUX1	7	101845023	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1160058	101845023	57293640	350	93133											
C7orf53	286006	broad.mit.edu	37	chr7	112127027	112127027	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaaactcaggaaatggaagCcggagtctgttttttgtggg	11	11	13	6	1	2	0	1	0	1	0	2	3	2	3	1	4	2	1	1	4	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:112127027C>T	uc011kmq.1	+	3	312	c.177C>T	c.(175-177)AGC>AGT	p.S59S	C7orf53_uc003vgl.2_RNA|C7orf53_uc003vgm.2_Silent_p.S59S	NM_001134468	NP_001127940	Q8N8F7	CG053_HUMAN	hypothetical protein LOC286006	59						integral to membrane				ovary(1)	1						GAAATGGAAGCCGGAGTCTGT	0.418													17	48					0	0	1	0	0		T	112127027	T	T	112127027	2	4	187	1	0	0	0	0	0	0	0	1	2405	738	26	2		2	C7orf53	7	112127027	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	10282004	112127027	47011636	351	93134											
ASZ1	136991	broad.mit.edu	37	chr7	117067496	117067496	+	Nonsense_Mutation	SNP	G	A	A																															gccagccactggcaggcctcGcagcgcgctcgccgccatgc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:117067496G>A	uc003vjb.2	-	1	82	c.19C>T	c.(19-21)CGA>TGA	p.R7*	ASZ1_uc011kno.1_Nonsense_Mutation_p.R7*|ASZ1_uc011knp.1_5'UTR	NM_130768	NP_570124	Q8WWH4	ASZ1_HUMAN	ankyrin repeat, SAM and basic leucine zipper	7					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(10;0.00156)|all_lung(10;0.00175)		STAD - Stomach adenocarcinoma(10;0.000512)			GGCAGGCCTCGCAGCGCGCTC	0.692											OREG0003439	type=REGULATORY REGION|Gene=ASZ1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	18	52					0	0	1	0	0		A	117067496	A	A	117067496	4	1	187	1	0	0	0	0	0	1	0	0	1070	1095	38	1	1460	1	ASZ1	7	117067496	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4940469	117067496	42071167	352	93135	173	2									
ASZ1	136991	broad.mit.edu	37	chr7	117067501	117067501	+	Missense_Mutation	SNP	G	C	C																															ccactggcaggcctcgcagcGcgctcgccgccatgccagcc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:117067501G>C	uc003vjb.2	-	1	77	c.14C>G	c.(13-15)GCG>GGG	p.A5G	ASZ1_uc011kno.1_Missense_Mutation_p.A5G|ASZ1_uc011knp.1_5'UTR	NM_130768	NP_570124	Q8WWH4	ASZ1_HUMAN	ankyrin repeat, SAM and basic leucine zipper	5					cell differentiation|DNA methylation involved in gamete generation|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	signal transducer activity			central_nervous_system(2)|ovary(1)	3	Lung NSC(10;0.00156)|all_lung(10;0.00175)		STAD - Stomach adenocarcinoma(10;0.000512)			GCCTCGCAGCGCGCTCGCCGC	0.687											OREG0003439	type=REGULATORY REGION|Gene=ASZ1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	15	52					0	0	1	0	0		C	117067501	C	C	117067501	3	2	187	1	0	0	0	0	1	0	0	0	1070	1087	38	5	1465	5	ASZ1	7	117067501	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5	117067501	42071162	353	93136	173	2									
ASB15	142685	broad.mit.edu	37	chr7	123269054	123269054	+	Missense_Mutation	SNP	A	G	G	1	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	aaaatggttttgatgtcaacActctacttgctgaccacatt	12	14	6	9	0	2	2	1	2	1	0	2	2	2	2	1	1	3	2	1	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:123269054A>G	uc003vku.1	+	10	1298	c.1006A>G	c.(1006-1008)ACT>GCT	p.T336A	ASB15_uc003vkw.1_Missense_Mutation_p.T336A	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	336	ANK 6.				intracellular signal transduction					skin(2)|lung(1)	3						TGATGTCAACACTCTACTTGC	0.433													22	116					0	0	1	0	0		G	123269054	G	G	123269054	3	3	187	1	0	0	0	0	1	0	0	0	1020	159	6	3	1032	3	ASB15	7	123269054	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	6201553	123269054	35869609	354	93137											
ASB15	142685	broad.mit.edu	37	chr7	123269134	123269134	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tttggcgtttctaataatgaCgttcattgcacagaagtcct	10	15	8	8	2	2	2	1	1	1	1	3	2	3	2	1	1	1	3	1	1	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:123269134C>T	uc003vku.1	+	10	1378	c.1086C>T	c.(1084-1086)GAC>GAT	p.D362D	ASB15_uc003vkw.1_Silent_p.D362D	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	362	ANK 7.				intracellular signal transduction					skin(2)|lung(1)	3						CTAATAATGACGTTCATTGCA	0.438													25	96					0	0	1	0	0		T	123269134	T	T	123269134	2	4	187	1	0	0	0	0	0	0	0	1	1020	535	19	1		1	ASB15	7	123269134	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	80	123269134	35869529	355	93138											
FLNC	2318	broad.mit.edu	37	chr7	128470896	128470896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacctcagcgacgggctcCggctcatcgcgctgctcgag	5	6	14	16	7	2	0	2	0	0	0	5	3	3	0	2	2	2	4	2	2	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:128470896C>T	uc003vnz.3	+	1	414	c.205C>T	c.(205-207)CGG>TGG	p.R69W	FLNC_uc003voa.3_Missense_Mutation_p.R69W	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	69	CH 1.|Actin-binding.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CGACGGGCTCCGGCTCATCGC	0.622													15	36					0	0	1	0	0		T	128470896	T	T	128470896	3	4	187	1	0	0	0	0	1	0	0	0	5949	643	23	1	207	1	FLNC	7	128470896	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5201762	128470896	30667767	356	93139											
CPA4	51200	broad.mit.edu	37	chr7	129948150	129948150	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtggctttttcagaacCgattatggaggaagacgcgg	9	11	14	7	3	1	2	1	0	0	2	1	5	1	4	1	5	1	1	1	5	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:129948150C>T	uc003vpr.2	+	8	753	c.706C>T	c.(706-708)CGA>TGA	p.R236*	CPA4_uc011kpd.1_Nonsense_Mutation_p.R203*|CPA4_uc011kpe.1_Nonsense_Mutation_p.R132*	NM_016352	NP_057436	Q9UI42	CBPA4_HUMAN	carboxypeptidase A4 preproprotein	236					histone acetylation|proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					TTTTCAGAACCGATTATGGAG	0.557													16	48					0	0	1	0	0		T	129948150	T	T	129948150	4	4	187	1	0	0	0	0	0	1	0	0	3795	644	23	1	736	1	CPA4	7	129948150	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1477254	129948150	29190513	357	93140											
AKR1B10	57016	broad.mit.edu	37	chr7	134223007	134223007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccaagtctgtgacaccagCacgcattgttgagaacattc	11	9	8	13	1	1	2	0	2	1	1	2	3	1	2	3	0	2	3	3	0	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:134223007C>T	uc003vrr.2	+	8	1123	c.803C>T	c.(802-804)GCA>GTA	p.A268V		NM_020299	NP_064695	O60218	AK1BA_HUMAN	aldo-keto reductase family 1, member B10	268	NADP.				cellular aldehyde metabolic process|digestion|steroid metabolic process	cytoplasm	aldo-keto reductase (NADP) activity|protein binding			skin(5)	5						GTGACACCAGCACGCATTGTT	0.532													37	125					0	0	1	0	0		T	134223007	T	T	134223007	3	4	187	1	0	0	0	0	1	0	0	0	467	710	25	2	833	2	AKR1B10	7	134223007	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4274857	134223007	24915656	358	93141											
C7orf49	78996	broad.mit.edu	37	chr7	134851523	134851523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cctcttcctcactgctgctcCcagaacttgtgtgaggcgac	6	11	9	15	1	2	2	1	1	1	1	4	3	4	2	3	1	3	2	3	1	1	2	rs10237382		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:134851523C>T	uc003vsl.2	-	4	581	c.314G>A	c.(313-315)GGG>GAG	p.G105E	C7orf49_uc003vsh.2_Intron|C7orf49_uc003vsj.2_Missense_Mutation_p.G76E|C7orf49_uc003vsk.2_RNA|C7orf49_uc003vsm.2_RNA|C7orf49_uc003vsn.2_Missense_Mutation_p.G104E|C7orf49_uc003vso.2_Missense_Mutation_p.G50E	NM_024033	NP_076938	Q9BWK5	MRI_HUMAN	modulator of retrovirus infection	105						cytoplasm				large_intestine(1)|ovary(1)	2						ACTGCTGCTCCCAGAACTTGT	0.652													36	77					0	0	1	0	0		T	134851523	T	T	134851523	3	4	187	1	0	0	0	0	1	0	0	0	2401	623	22	4	163	4	C7orf49	7	134851523	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	628516	134851523	24287140	359	93142											
TRIM24	8805	broad.mit.edu	37	chr7	138269680	138269680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaaaagcattgaagaacGccagttgcttaaataatatg	16	10	7	8	1	1	2	1	1	0	1	1	2	1	2	2	0	3	3	2	0	8	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:138269680G>A	uc003vuc.2	+	19	3352	c.3137G>A	c.(3136-3138)CGC>CAC	p.R1046H	TRIM24_uc003vub.2_Missense_Mutation_p.R1012H	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	1046					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						ATTGAAGAACGCCAGTTGCTT	0.343													17	54					0	0	1	0	0		A	138269680	A	A	138269680	3	1	187	1	0	0	0	0	1	0	0	0	16524	1087	38	1	3211	1	TRIM24	7	138269680	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3418157	138269680	20868983	360	93143											
MGAM	8972	broad.mit.edu	37	chr7	141721431	141721431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagtgccccacgaacacGtgcagtccttcagtggaaat	11	9	10	11	2	1	1	1	1	0	0	2	3	2	2	3	1	3	1	3	1	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:141721431G>A	uc003vwy.2	+	6	658	c.604G>A	c.(604-606)GTG>ATG	p.V202M		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	202	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	CCACGAACACGTGCAGTCCTT	0.438													14	60					0	0	1	0	0		A	141721431	A	A	141721431	3	1	187	1	0	0	0	0	1	0	0	0	9559	1145	40	1	622	1	MGAM	7	141721431	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3451751	141721431	17417232	361	93144											
TRPV6	55503	broad.mit.edu	37	chr7	142583219	142583219	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcagaacttgctccataGgcagagaattagccctttct	10	12	8	11	0	2	2	0	0	2	2	3	3	3	2	2	1	4	3	2	1	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:142583219G>T	uc003wbx.1	-	1	259	c.43C>A	c.(43-45)CTA>ATA	p.L15I		NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	15	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					TTGCTCCATAGGCAGAGAATT	0.617													5	134					0.000602214	0.000616663	1	1	0		T	142583219	T	T	142583219	3	4	187	1	0	0	0	0	1	0	0	0	16626	991	35	5	2194	5	TRPV6	7	142583219	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	861788	142583219	16555444	362	93145											
ZNF786	136051	broad.mit.edu	37	chr7	148767808	148767808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcagctgcgccttcaggcGgaaactcttgtcacacttgg	8	9	12	12	2	3	0	2	0	1	0	3	2	3	1	1	3	4	2	1	3	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:148767808G>A	uc003wfh.2	-	4	2193	c.2056C>T	c.(2056-2058)CGC>TGC	p.R686C	ZNF786_uc011kuk.1_Missense_Mutation_p.R649C|ZNF786_uc003wfi.2_Missense_Mutation_p.R600C	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	686	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			GCCTTCAGGCGGAAACTCTTG	0.557													36	117					0	0	1	0	0		A	148767808	A	A	148767808	3	1	187	1	0	0	0	0	1	0	0	0	18183	1116	39	1	296	1	ZNF786	7	148767808	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6184589	148767808	10370855	363	93146											
ZNF786	136051	broad.mit.edu	37	chr7	148768294	148768295	+	Missense_Mutation	DNP	GC	AA	AA																															cactctcaggtgctcacggaGcttgcactggtgggtgaagc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:148768294_148768295GC>AA	uc003wfh.2	-	4	1706_1707	c.1569_1570GC>TT	c.(1567-1572)AAGCTC>AATTTC	p.523_524KL>NF	ZNF786_uc011kuk.1_Missense_Mutation_p.486_487KL>NF|ZNF786_uc003wfi.2_Missense_Mutation_p.437_438KL>NF	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	523_524	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TGCTCACGGAGCTTGCACTGGT	0.653													15	29					0	0	1	0	0		AA	148768295	AA	AA	148768294	3	1	187	1	0	0	0	0	1	0	0	0	18183	971	34	2	782	2	ZNF786	7	148768294	Missense_Mutation	DNP	GC	TCGA-D7-A4YV-01A-11D-A25D-08	486	148768294	10370369	364	93147											
ZNF777	27153	broad.mit.edu	37	chr7	149129661	149129661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagggcccctccttgatgtGgttgcgctggtggatgatga	5	12	16	8	1	0	3	0	3	0	0	1	4	1	4	3	4	1	3	3	4	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:149129661G>A	uc003wfv.2	-	6	1865	c.1702C>T	c.(1702-1704)CAC>TAC	p.H568Y		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	568	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			TCCTTGATGTGGTTGCGCTGG	0.647													8	26					0	0	1	0	0		A	149129661	A	A	149129661	3	1	187	1	0	0	0	0	1	0	0	0	18175	1348	47	4	797	4	ZNF777	7	149129661	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	361367	149129661	10009002	365	93148											
GIMAP8	155038	broad.mit.edu	37	chr7	150164346	150164346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggtgttggagctccttcGcaaggttgagtctttggtga	6	13	14	8	1	1	2	0	2	1	0	3	3	2	3	2	4	1	4	2	4	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:150164346G>A	uc003whj.2	+	2	890	c.560G>A	c.(559-561)CGC>CAC	p.R187H		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	187						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GAGCTCCTTCGCAAGGTTGAG	0.433													32	94					0	0	1	0	0		A	150164346	A	A	150164346	3	1	187	1	0	0	0	0	1	0	0	0	6400	1087	38	1	562	1	GIMAP8	7	150164346	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1034685	150164346	8974317	366	93149											
ATG9B	285973	broad.mit.edu	37	chr7	150721322	150721322	+	Frame_Shift_Del	DEL	G	-	-																															gtgggaggggaaaatgaggaGggggagcttcttgtatgagg																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:150721322delG	uc011kvc.1	-	1	265	c.189delC	c.(187-189)CCCfs	p.P63fs	ATG9B_uc003wig.3_5'Flank	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	63	Pro-rich.|Cytoplasmic (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AAAATGAGGAGGGGGAGCTTC	0.632													6	9	---	---	---	---						.	-	150721322	-	-	150721322	7	5	187	1	0	1	0	1	0	0	0	0	1104	987	35	0	2636	0	ATG9B	7	150721322	Frame_Shift_Del	DEL	G	TCGA-D7-A4YV-01A-11D-A25D-08	556976	150721322	8417341	367	93150											
MLL3	58508	broad.mit.edu	37	chr7	151970829	151970829	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgtgttctggacaaagcaGgaagatgtgactgaaatcct	14	10	11	6	0	1	3	0	2	1	1	2	5	2	5	1	2	1	2	1	2	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:151970829G>A	uc003wla.2	-	7	1192	c.973C>T	c.(973-975)CTG>TTG	p.L325L		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	325					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGACAAAGCAGGAAGATGTGA	0.398			N		medulloblastoma								15	258					0	0	1	0	0		A	151970829	A	A	151970829	2	1	187	1	0	0	0	0	0	0	0	1	9640	991	35	4		4	MLL3	7	151970829	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1249507	151970829	7167834	368	93151											
MLL3	58508	broad.mit.edu	37	chr7	152007084	152007084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagacaacagctttgtccacGttcactaacaatggttcttc	11	12	7	11	1	2	1	1	0	1	1	4	2	3	1	1	1	3	3	1	1	3	5	rs143544942	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:152007084G>A	uc003wla.2	-	6	1035	c.816C>T	c.(814-816)AAC>AAT	p.N272N		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	272					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTTTGTCCACGTTCACTAACA	0.393			N		medulloblastoma								11	54					0	0	1	0	0		A	152007084	A	A	152007084	2	1	187	1	0	0	0	0	0	0	0	1	9640	1136	40	1		1	MLL3	7	152007084	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	36255	152007084	7131579	369	93152											
DPP6	1804	broad.mit.edu	37	chr7	154585857	154585857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtgacctggctgaaccgggCgcagaacgtgtccatcctca	8	7	12	14	4	1	3	1	2	0	1	3	3	3	3	4	2	2	2	4	2	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:154585857C>T	uc003wlk.2	+	11	1334	c.1205C>T	c.(1204-1206)GCG>GTG	p.A402V	DPP6_uc003wli.2_Missense_Mutation_p.A338V|DPP6_uc003wlm.2_Missense_Mutation_p.A340V|DPP6_uc011kvq.1_Missense_Mutation_p.A295V	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	402	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CTGAACCGGGCGCAGAACGTG	0.632													7	14					0	0	1	0	0		T	154585857	T	T	154585857	3	4	187	1	0	0	0	0	1	0	0	0	4736	768	27	1	1363	1	DPP6	7	154585857	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2578773	154585857	4552806	370	93153											
DPP6	1804	broad.mit.edu	37	chr7	154598810	154598810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagcatggacttcttcctgCtcaagtgcgaaggtcagctc	9	11	10	11	1	3	0	2	0	1	0	5	2	4	1	1	2	4	3	1	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr7:154598810C>T	uc003wlk.2	+	16	1783	c.1654C>T	c.(1654-1656)CTC>TTC	p.L552F	DPP6_uc003wli.2_Missense_Mutation_p.L488F|DPP6_uc003wlm.2_Missense_Mutation_p.L490F|DPP6_uc011kvq.1_Missense_Mutation_p.L445F	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	552	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CTTCTTCCTGCTCAAGTGCGA	0.607													34	82					0	0	1	0	0		T	154598810	T	T	154598810	3	4	187	1	0	0	0	0	1	0	0	0	4736	797	28	2	1832	2	DPP6	7	154598810	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	12953	154598810	4539853	371	93154											
ARHGEF10	9639	broad.mit.edu	37	chr8	1893747	1893747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcagggtccacgctccGcctttttcacacggaaactc	8	9	7	17	3	2	0	2	0	0	0	5	1	4	1	4	2	1	1	4	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:1893747G>A	uc003wpr.2	+	27	3501	c.3323G>A	c.(3322-3324)CGC>CAC	p.R1108H	ARHGEF10_uc003wps.2_Missense_Mutation_p.R1070H|ARHGEF10_uc010lre.2_Missense_Mutation_p.R759H	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	1133					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TCCACGCTCCGCCTTTTTCAC	0.622													19	58					0	0	1	0	0		A	1893747	A	A	1893747	3	1	187	1	0	0	0	0	1	0	0	0	894	1087	38	1	3425	1	ARHGEF10	8	1893747	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		1893747	144470275	372	93155											
PINX1	54984	broad.mit.edu	37	chr8	10623027	10623027	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcctctttttgggcttcaGggtgaagtcccggccctcag	4	13	11	13	1	4	1	2	1	2	0	6	1	5	1	3	3	0	1	3	3	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:10623027G>A	uc003wth.2	-	7	904	c.871C>T	c.(871-873)CTG>TTG	p.L291L	SOX7_uc011kwz.1_Intron|PINX1_uc003wti.2_3'UTR	NM_017884	NP_060354	Q96BK5	PINX1_HUMAN	PIN2-interacting protein 1	291	TBM.|Telomerase inhibitory domain (TID).			L->A: Abolishes interaction with TERF1.	mitotic metaphase plate congression|negative regulation of cell proliferation	chromosome, telomeric region|condensed chromosome kinetochore|mitochondrion|nuclear chromosome|nucleolus|spindle	protein binding|telomerase inhibitor activity|telomeric RNA binding			lung(1)|kidney(1)|skin(1)	3				Kidney(29;0.0595)|COAD - Colon adenocarcinoma(149;0.105)|KIRC - Kidney renal clear cell carcinoma(542;0.201)		TTGGGCTTCAGGGTGAAGTCC	0.537													5	55					0	0	1	0	0		A	10623027	A	A	10623027	2	1	187	1	0	0	0	0	0	0	0	1	11952	991	35	4		4	PINX1	8	10623027	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8729280	10623027	135740995	373	93156											
XKR6	286046	broad.mit.edu	37	chr8	11058331	11058331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaggctctgcaccagcagcGacggcaccagcacgaagaag	12	3	12	14	3	2	1	1	0	1	1	2	3	2	1	2	2	4	5	2	2	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:11058331G>A	uc003wtk.1	-	1	545	c.518C>T	c.(517-519)TCG>TTG	p.S173L		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	173	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		CACCAGCAGCGACGGCACCAG	0.692													25	86					0	0	1	0	0		A	11058331	A	A	11058331	3	1	187	1	0	0	0	0	1	0	0	0	17461	1059	37	1	1419	1	XKR6	8	11058331	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	435304	11058331	135305691	374	93157											
FGL1	2267	broad.mit.edu	37	chr8	17722224	17722224	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttttagccgtgtaggggccGctgtagtatacaccattcag	8	12	12	9	2	1	0	1	0	0	0	1	0	1	0	3	2	2	5	3	2	5	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:17722224G>T	uc003wxx.2	-	9	1140	c.816C>A	c.(814-816)AGC>AGA	p.S272R	FGL1_uc003wxy.2_Missense_Mutation_p.S272R|FGL1_uc003wxz.2_Missense_Mutation_p.S271R|FGL1_uc003wya.2_Missense_Mutation_p.S272R|FGL1_uc003wyb.2_Missense_Mutation_p.S272R|FGL1_uc003wyc.2_Missense_Mutation_p.S272R|FGL1_uc003wyd.2_RNA|FGL1_uc003wye.2_Missense_Mutation_p.S322R|FGL1_uc003wyf.2_Missense_Mutation_p.S242R	NM_201553	NP_963847	Q08830	FGL1_HUMAN	fibrinogen-like 1 precursor	272	Fibrinogen C-terminal.				signal transduction	fibrinogen complex	receptor binding				0				Colorectal(111;0.0573)|COAD - Colon adenocarcinoma(73;0.215)		TGTAGGGGCCGCTGTAGTATA	0.428													5	44					0.184627	0.184627	1	1	0		T	17722224	T	T	17722224	3	4	187	1	0	0	0	0	1	0	0	0	5886	1078	38	5	126	5	FGL1	8	17722224	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6663893	17722224	128641798	375	93158											
ATP6V1B2	526	broad.mit.edu	37	chr8	20077788	20077788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttaaggtccttacgaaaatCgcactgtctttgagactttg	10	15	8	8	2	1	1	0	1	1	1	3	3	2	1	1	1	1	1	1	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:20077788C>T	uc003wzp.2	+	14	1625	c.1411C>T	c.(1411-1413)CGC>TGC	p.R471C	ATP6V1B2_uc003wzq.1_RNA	NM_001693	NP_001684	P21281	VATB2_HUMAN	vacuolar H+ATPase B2	471					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|endomembrane system|Golgi apparatus|melanosome|plasma membrane|proton-transporting V-type ATPase, V1 domain	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0				Colorectal(74;0.0535)|COAD - Colon adenocarcinoma(73;0.211)		TTACGAAAATCGCACTGTCTT	0.393													15	103					0	0	1	0	0		T	20077788	T	T	20077788	3	4	187	1	0	0	0	0	1	0	0	0	1180	884	31	1	1465	1	ATP6V1B2	8	20077788	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2355564	20077788	126286234	376	93159											
EGR3	1960	broad.mit.edu	37	chr8	22548121	22548121	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcttgcgctcgtcgctgcgCgcaaacttgcgcccgcagaa	6	7	12	16	8	0	1	0	0	0	1	2	1	0	1	1	0	4	5	1	0	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:22548121C>T	uc003xcm.1	-	2	1387	c.1029G>A	c.(1027-1029)GCG>GCA	p.A343A	EGR3_uc011kzn.1_Silent_p.A305A|EGR3_uc011kzo.1_Silent_p.A289A	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	343	C2H2-type 3.				circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		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)		CGTCGCTGCGCGCAAACTTGC	0.652													30	111					0	0	1	0	0		T	22548121	T	T	22548121	2	4	187	1	0	0	0	0	0	0	0	1	4979	755	27	1		1	EGR3	8	22548121	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2470333	22548121	123815901	377	93160											
ENTPD4	9583	broad.mit.edu	37	chr8	23290496	23290496	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctccatccagagggcggcGgccgagctgctccggggagt	5	6	16	14	4	0	1	0	0	0	1	4	3	4	2	5	5	2	2	5	5	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:23290496G>C	uc003xdl.2	-	13	1958	c.1794C>G	c.(1792-1794)GCC>GCG	p.A598A	ENTPD4_uc011kzu.1_Intron|ENTPD4_uc003xdm.2_Silent_p.A590A	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	598	Cytoplasmic (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		AGAGGGCGGCGGCCGAGCTGC	0.642													7	28					0	0	1	0	0		C	23290496	C	C	23290496	2	2	187	1	0	0	0	0	0	0	0	1	5149	1103	39	5		5	ENTPD4	8	23290496	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	742375	23290496	123073526	378	93161											
C8orf80	389643	broad.mit.edu	37	chr8	27922054	27922054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacctttttccacatctcGtccctcttgctgttgaagtc	5	16	6	14	1	3	1	1	1	2	0	7	1	5	1	3	0	1	2	3	0	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:27922054G>A	uc003xgm.3	-	7	1049	c.906C>T	c.(904-906)GAC>GAT	p.D302D		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	302						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		TCCACATCTCGTCCCTCTTGC	0.493													12	45					0	0	1	0	0		A	27922054	A	A	27922054	2	1	187	1	0	0	0	0	0	0	0	1	2442	1136	40	1		1	C8orf80	8	27922054	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4631558	27922054	118441968	379	93162											
HMBOX1	79618	broad.mit.edu	37	chr8	28908656	28908656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caacgaaatcaagacagaggCcctggatgatgactgatcag	15	6	11	9	1	2	5	2	3	0	2	2	7	2	6	1	2	1	0	1	2	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:28908656C>T	uc003xhd.3	+	10	1589	c.1247C>T	c.(1246-1248)GCC>GTC	p.A416V	HMBOX1_uc003xhc.3_Intron|HMBOX1_uc010lve.2_RNA|HMBOX1_uc003xhe.2_Missense_Mutation_p.A416V|HMBOX1_uc011lay.1_Missense_Mutation_p.A439V|HMBOX1_uc003xhf.2_Missense_Mutation_p.A402V|HMBOX1_uc003xhg.2_3'UTR	NM_001135726	NP_001129198	Q6NT76	HMBX1_HUMAN	homeobox containing 1	416					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(32;0.0192)		KIRC - Kidney renal clear cell carcinoma(542;0.135)|Kidney(114;0.161)		AAGACAGAGGCCCTGGATGAT	0.473													4	86					0	0	1	0	0		T	28908656	T	T	28908656	3	4	187	1	0	0	0	0	1	0	0	0	7234	739	26	2	1281	2	HMBOX1	8	28908656	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	986602	28908656	117455366	380	93163											
WRN	7486	broad.mit.edu	37	chr8	30977901	30977901	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgatggacttcaaagttcttGtcacgtcctctgggctcctg	6	14	10	11	1	4	1	2	1	2	0	6	2	6	2	2	2	0	2	2	2	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:30977901G>A	uc003xio.3	+	21	3379	c.2591G>A	c.(2590-2592)TGT>TAT	p.C864Y	WRN_uc010lvk.2_Missense_Mutation_p.C331Y	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	864	Helicase C-terminal.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		CAAAGTTCTTGTCACGTCCTC	0.388			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				20	66					0	0	1	0	0		A	30977901	A	A	30977901	3	1	187	1	0	0	0	0	1	0	0	0	17428	1377	48	4	2669	4	WRN	8	30977901	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2069245	30977901	115386121	381	93164											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37732311	37732311	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttttcaccttcactgccCttagccacatccttcttccc	5	14	5	17	0	3	0	2	0	1	0	5	0	5	0	5	1	2	1	5	1	1	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:37732311C>A	uc003xkm.1	-	3	1388	c.1344G>T	c.(1342-1344)AAG>AAT	p.K448N	RAB11FIP1_uc010lvz.1_Missense_Mutation_p.K296N|RAB11FIP1_uc003xkn.1_Missense_Mutation_p.K448N|RAB11FIP1_uc003xkl.1_5'Flank|RAB11FIP1_uc003xko.1_5'Flank|RAB11FIP1_uc003xkp.1_Missense_Mutation_p.K296N	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	448					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CTTCACTGCCCTTAGCCACAT	0.572													62	289					8.65233e-54	9.63678e-54	1	1	0		A	37732311	A	A	37732311	3	1	187	1	0	0	0	0	1	0	0	0	12918	680	24	5	2523	5	RAB11FIP1	8	37732311	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6754410	37732311	108631711	382	93165											
FGFR1	2260	broad.mit.edu	37	chr8	38275752	38275752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagtattattacctgtccCgaggcagctcccagcgaggg	10	8	11	12	2	0	0	0	0	0	0	2	2	2	0	3	2	3	3	3	2	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:38275752C>T	uc003xlp.2	-	11	2366	c.1424G>A	c.(1423-1425)CGG>CAG	p.R475Q	FGFR1_uc010lwf.2_RNA|FGFR1_uc011lbo.1_Missense_Mutation_p.R473Q|FGFR1_uc011lbp.1_Missense_Mutation_p.R386Q|FGFR1_uc011lbq.1_Missense_Mutation_p.R384Q|FGFR1_uc010lwk.2_Missense_Mutation_p.R465Q	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	475	Cytoplasmic (Potential).				axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	TTACCTGTCCCGAGGCAGCTC	0.532		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						37	144					0	0	1	0	0		T	38275752	T	T	38275752	3	4	187	1	0	0	0	0	1	0	0	0	5877	652	23	1	1080	1	FGFR1	8	38275752	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	543441	38275752	108088270	383	93166											
PLEKHA2	59339	broad.mit.edu	37	chr8	38810883	38810883	+	Silent	SNP	T	G	G	0	1	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	catgaatgtctggtcaagtcTgggtaattgtgtctgctttt	7	17	11	6	0	4	1	1	1	3	0	4	1	4	1	0	2	1	2	0	2	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:38810883T>G	uc003xmi.3	+	9	1005	c.771T>G	c.(769-771)TCT>TCG	p.S257S	PLEKHA2_uc011lce.1_Silent_p.S207S	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	257	PH 2.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			TGGTCAAGTCTGGGTAATTGT	0.428													31	140					0	0	1	0	0		G	38810883	G	G	38810883	2	3	187	1	0	0	0	0	0	0	0	1	12075	1567	55	5		5	PLEKHA2	8	38810883	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	535131	38810883	107553139	384	93167											
HTRA4	203100	broad.mit.edu	37	chr8	38832633	38832633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgccatcggtggttcacGtgcagctgtggggcaggtaa	6	9	17	9	3	1	0	1	0	0	0	2	0	1	0	1	6	2	5	1	6	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:38832633G>A	uc003xmj.2	+	2	665	c.550G>A	c.(550-552)GTG>ATG	p.V184M		NM_153692	NP_710159	P83105	HTRA4_HUMAN	HtrA serine peptidase 4 precursor	184					proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_lung(54;0.0344)|Hepatocellular(245;0.0512)|Lung NSC(58;0.0955)	LUSC - Lung squamous cell carcinoma(45;1.5e-07)			GGTGGTTCACGTGCAGCTGTG	0.577													51	186					0	0	1	0	0		A	38832633	A	A	38832633	3	1	187	1	0	0	0	0	1	0	0	0	7472	1145	40	1	556	1	HTRA4	8	38832633	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	21750	38832633	107531389	385	93168											
SNAI2	6591	broad.mit.edu	37	chr8	49833819	49833819	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcttgaccaggaaggagcgCggcatcttgccagcgggtct	7	9	14	11	3	3	1	0	1	3	0	3	3	3	3	2	4	3	1	2	4	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:49833819C>T	uc003xqp.2	-	1	170	c.6G>A	c.(4-6)CCG>CCA	p.P2P		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	2					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				GGAAGGAGCGCGGCATCTTGC	0.592													27	113					0	0	1	0	0		T	49833819	T	T	49833819	2	4	187	1	0	0	0	0	0	0	0	1	14852	755	27	1		1	SNAI2	8	49833819	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	11001186	49833819	96530203	386	93169											
RB1CC1	9821	broad.mit.edu	37	chr8	53548618	53548618	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtttttcttcagacaacataTgaatattttctctaaaagtg	13	17	5	6	0	3	2	1	1	2	1	4	2	3	2	0	0	1	1	0	0	6	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:53548618T>C	uc003xre.3	-	19	4907	c.4349A>G	c.(4348-4350)CAT>CGT	p.H1450R	RB1CC1_uc003xrf.3_Missense_Mutation_p.H1450R	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	1450	Potential.				autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				AGACAACATATGAATATTTTC	0.269													12	44					0	0	1	0	0		C	53548618	C	C	53548618	3	2	187	1	0	0	0	0	1	0	0	0	13124	1464	51	3	459	3	RB1CC1	8	53548618	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	3714799	53548618	92815404	387	93170											
CHD7	55636	broad.mit.edu	37	chr8	61763086	61763086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactccatgcgagctgacccCgcgctgtgctttctggaacg	7	9	11	14	4	1	1	0	1	1	0	2	3	2	2	3	1	5	3	3	1	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:61763086C>T	uc003xue.2	+	26	5916	c.5439C>T	c.(5437-5439)CCC>CCT	p.P1813P		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1813					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GAGCTGACCCCGCGCTGTGCT	0.542													5	26					0	0	1	0	0		T	61763086	T	T	61763086	2	4	187	1	0	0	0	0	0	0	0	1	3333	639	23	1		1	CHD7	8	61763086	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	8214468	61763086	84600936	388	93171											
ASPH	444	broad.mit.edu	37	chr8	62415991	62415991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catccacgatgaatatcagcCggaaagatgaggcatcctgc	13	7	10	11	2	1	3	1	2	0	1	3	5	3	4	3	2	2	1	3	2	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:62415991C>T	uc003xuj.2	-	25	2473	c.2204G>A	c.(2203-2205)CGG>CAG	p.R735Q	ASPH_uc011leg.1_Missense_Mutation_p.R706Q	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	735	Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	GAATATCAGCCGGAAAGATGA	0.507													6	40					0	0	1	0	0		T	62415991	T	T	62415991	3	4	187	1	0	0	0	0	1	0	0	0	1054	652	23	1	76	1	ASPH	8	62415991	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	652905	62415991	83948031	389	93172											
TRPA1	8989	broad.mit.edu	37	chr8	72945932	72945932	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgaaggaaacaagttgtgCaaaggacagaactggatgtg	15	8	14	4	0	0	2	0	1	0	1	0	5	0	5	0	3	3	2	0	3	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:72945932C>A	uc003xza.2	-	23	2990	c.2815G>T	c.(2815-2817)GCA>TCA	p.A939S	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	939	Extracellular (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	ACAAGTTGTGCAAAGGACAGA	0.353													13	52					2.27111e-07	2.38511e-07	1	1	0		A	72945932	A	A	72945932	3	1	187	1	0	0	0	0	1	0	0	0	16603	710	25	5	564	5	TRPA1	8	72945932	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	10529941	72945932	73418090	390	93173											
TRPA1	8989	broad.mit.edu	37	chr8	72948688	72948688	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatatccataaaataattcCttttctgggatagaaaagaa	17	14	5	5	0	1	2	0	0	1	2	3	3	3	3	2	1	0	0	2	1	9	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:72948688C>A	uc003xza.2	-	21	2565	c.2390G>T	c.(2389-2391)AGG>ATG	p.R797M	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	797	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AAAATAATTCCTTTTCTGGGA	0.348													10	30					1.58986e-06	1.65663e-06	1	1	0		A	72948688	A	A	72948688	3	1	187	1	0	0	0	0	1	0	0	0	16603	681	24	5	997	5	TRPA1	8	72948688	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2756	72948688	73415334	391	93174											
GDAP1	54332	broad.mit.edu	37	chr8	75276516	75276516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggttggtttgcttgcaGgagtgggatattttgctttt	4	20	14	3	0	0	0	0	0	0	0	0	2	0	2	0	4	3	5	0	4	1	9			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:75276516G>A	uc003yah.2	+	6	1070	c.991G>A	c.(991-993)GGA>AGA	p.G331R	GDAP1_uc011lfj.1_Missense_Mutation_p.G216R|GDAP1_uc003yai.2_Missense_Mutation_p.G263R	NM_018972	NP_061845	Q8TB36	GDAP1_HUMAN	ganglioside-induced differentiation-associated	331						cytoplasm					0	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)			TTTGCTTGCAGGAGTGGGATA	0.443													16	90					0	0	1	0	0		A	75276516	A	A	75276516	3	1	187	1	0	0	0	0	1	0	0	0	6322	1001	35	4	1013	4	GDAP1	8	75276516	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2327828	75276516	71087506	392	93175											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885496	88885496	+	Missense_Mutation	SNP	A	G	G	1	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	cattaaacagcaaaggagtcAtgattgcaaactgctgggcc	14	8	10	9	0	1	1	1	1	0	0	1	2	1	2	1	2	5	3	1	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:88885496A>G	uc003ydz.2	-	1	801	c.704T>C	c.(703-705)ATG>ACG	p.M235T		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	235										ovary(1)	1						CAAAGGAGTCATGATTGCAAA	0.537													27	129					0	0	1	0	0		G	88885496	G	G	88885496	3	3	187	1	0	0	0	0	1	0	0	0	4275	217	8	3	487	3	DCAF4L2	8	88885496	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	13608980	88885496	57478526	393	93176											
C8orf47	203111	broad.mit.edu	37	chr8	99076899	99076900	+	Frame_Shift_Ins	INS	-	G	G																															gtgtctgcgctccccgcaatINSgggctgctccagcagcgccc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:99076899_99076900insG	uc003yih.1	+	1	150_151	c.2_3insG	c.(1-3)ATGfs	p.M1fs		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	1											0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			CTCCCCGCAATGGGCTGCTCCA	0.609													3	6	---	---	---	---						.	G	99076900	G	G	99076899	7	5	187	1	0	1	1	0	0	0	0	0	2435	1464	51	0	4	0	C8orf47	8	99076899	Frame_Shift_Ins	INS	-	TCGA-D7-A4YV-01A-11D-A25D-08	10191403	99076899	47287123	394	93177											
LRP12	29967	broad.mit.edu	37	chr8	105503644	105503644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaatgacccagaatgacGtgatcttgcaaaattaaaaa	18	8	7	8	1	1	4	0	3	1	1	1	4	1	4	2	0	2	1	2	0	7	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:105503644G>A	uc003yma.2	-	7	1932	c.1837C>T	c.(1837-1839)CGT>TGT	p.R613C	LRP12_uc003ymb.2_Missense_Mutation_p.R594C|LRP12_uc003ylz.2_Missense_Mutation_p.R19C	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	613	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCAGAATGACGTGATCTTGCA	0.453													13	75					0	0	1	0	0		A	105503644	A	A	105503644	3	1	187	1	0	0	0	0	1	0	0	0	8972	1145	40	1	746	1	LRP12	8	105503644	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6426745	105503644	40860378	395	93178											
PKHD1L1	93035	broad.mit.edu	37	chr8	110477474	110477474	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgttgatggctcacttacaGgtaatgttattttttaattt	10	20	7	4	0	1	1	1	1	0	0	1	1	1	1	0	2	1	4	0	2	4	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:110477474G>T	uc003yne.2	+	49	8517	c.8413G>T	c.(8413-8415)GGG>TGG	p.G2805W		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2805	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTCACTTACAGGTAATGTTAT	0.284										HNSCC(38;0.096)			3	36					0.004672	0.00473862	1	1	0		T	110477474	T	T	110477474	3	4	187	1	0	0	0	0	1	0	0	0	11991	1014	35	5	8607	5	PKHD1L1	8	110477474	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4973830	110477474	35886548	396	93179											
CSMD3	114788	broad.mit.edu	37	chr8	113529433	113529433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcatggggacccctgggtcaCgacacgcagtggcaacagaa	11	5	13	12	2	2	1	2	0	0	1	2	3	2	2	2	4	1	2	2	4	2	0	rs138068999		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:113529433C>T	uc003ynu.2	-	28	4745	c.4586G>A	c.(4585-4587)CGT>CAT	p.R1529H	CSMD3_uc003yns.2_Missense_Mutation_p.R801H|CSMD3_uc003ynt.2_Missense_Mutation_p.R1489H|CSMD3_uc011lhx.1_Missense_Mutation_p.R1425H	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1529	Extracellular (Potential).|Sushi 8.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCCTGGGTCACGACACGCAGT	0.413										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			12	54					0	0	1	0	0		T	113529433	T	T	113529433	3	4	187	1	0	0	0	0	1	0	0	0	3949	536	19	1	6713	1	CSMD3	8	113529433	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3051959	113529433	32834589	397	93180											
NOV	4856	broad.mit.edu	37	chr8	120435322	120435322	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactgtcctaagaacaatGaggccttcctccaggagctg	11	8	9	13	0	0	2	0	1	0	1	3	3	3	3	5	2	3	1	5	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:120435322G>T	uc003yoq.2	+	5	1245	c.1024G>T	c.(1024-1026)GAG>TAG	p.E342*		NM_002514	NP_002505	P48745	NOV_HUMAN	nephroblastoma overexpressed precursor	342					regulation of cell growth		growth factor activity|insulin-like growth factor binding			ovary(2)|skin(2)|kidney(1)	5	all_cancers(13;3.84e-26)|Lung NSC(37;1.19e-08)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.000507)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TAAGAACAATGAGGCCTTCCT	0.532													40	215					7.77092e-38	8.63705e-38	1	1	0		T	120435322	T	T	120435322	4	4	187	1	0	0	0	0	0	1	0	0	10572	1291	45	5	1042	5	NOV	8	120435322	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6905889	120435322	25928700	398	93181											
COL14A1	7373	broad.mit.edu	37	chr8	121292217	121292217	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggccgatgcagattactcGgagttggttagcattggcag	8	11	15	7	2	0	1	0	0	0	1	1	3	0	2	1	4	3	5	1	4	2	4	rs78388021	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:121292217G>A	uc003yox.2	+	29	3790	c.3525G>A	c.(3523-3525)TCG>TCA	p.S1175S	COL14A1_uc003yoz.2_Silent_p.S140S	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1175	VWFA 2.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CAGATTACTCGGAGTTGGTTA	0.408													16	63					0	0	1	0	0		A	121292217	A	A	121292217	2	1	187	1	0	0	0	0	0	0	0	1	3674	1103	39	1		1	COL14A1	8	121292217	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	856895	121292217	25071805	399	93182											
ATAD2	29028	broad.mit.edu	37	chr8	124338217	124338217	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaacagtgatgagctgctgCtgttctacctgggaacgtct	8	12	11	10	1	3	2	1	2	2	0	3	3	3	3	1	1	6	4	1	1	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:124338217C>T	uc003yqh.3	-	26	4026	c.3918G>A	c.(3916-3918)CAG>CAA	p.Q1306Q	ATAD2_uc011lii.1_Silent_p.Q1097Q|ATAD2_uc003yqi.3_RNA	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	1306					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TGAGCTGCTGCTGTTCTACCT	0.378													4	83					0	0	1	0	0		T	124338217	T	T	124338217	2	4	187	1	0	0	0	0	0	0	0	1	1072	796	28	2		2	ATAD2	8	124338217	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3046000	124338217	22025805	400	93183											
ATAD2	29028	broad.mit.edu	37	chr8	124382167	124382167	+	Missense_Mutation	SNP	A	T	T	1	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	tcttcatcatcttcatcatcAtcatcatcatcatcatcgtc	10	16	1	14	1	12	0	10	0	2	0	14	0	12	0	0	0	0	0	0	0	0	2	rs149531312	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:124382167A>T	uc003yqh.3	-	7	933	c.825T>A	c.(823-825)GAT>GAA	p.D275E	ATAD2_uc011lii.1_Missense_Mutation_p.D66E|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.D275E	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	275	Asp-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			cttcatcatcatcatcatcat	0.179													7	26					0	0	1	0	0		T	124382167	T	T	124382167	3	4	187	1	0	0	0	0	1	0	0	0	1072	214	8	5	3435	5	ATAD2	8	124382167	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	43950	124382167	21981855	401	93184											
WDYHV1	55093	broad.mit.edu	37	chr8	124449545	124449545	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaattggagagagcctcCgccgccatatccctgcattg	8	9	12	12	2	0	1	0	0	0	1	2	4	2	3	5	2	2	1	5	2	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:124449545C>T	uc003yqn.1	+	5	604	c.479C>T	c.(478-480)CCG>CTG	p.P160L	WDYHV1_uc011lij.1_Missense_Mutation_p.P100L|WDYHV1_uc003yqo.1_RNA	NM_018024	NP_060494	Q96HA8	NTAQ1_HUMAN	WDYHV motif containing 1	160					protein modification process	cytosol|nucleus	protein binding|protein N-terminal glutamine amidohydrolase activity			ovary(1)|skin(1)	2						AGAGAGCCTCCGCCGCCATAT	0.468													11	35					0	0	1	0	0		T	124449545	T	T	124449545	3	4	187	1	0	0	0	0	1	0	0	0	17369	652	23	1	497	1	WDYHV1	8	124449545	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	67378	124449545	21914477	402	93185											
ANXA13	312	broad.mit.edu	37	chr8	124696923	124696923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccttcatcgacttgtacagaCgttcagcaaaatagtcctca	12	11	6	12	2	3	1	3	0	0	1	5	2	4	1	2	0	2	3	2	0	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:124696923C>T	uc003yqu.2	-	10	831	c.758G>A	c.(757-759)CGT>CAT	p.R253H	ANXA13_uc003yqt.2_Missense_Mutation_p.R294H	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a	253					cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			CTTGTACAGACGTTCAGCAAA	0.517													22	115					0	0	1	0	0		T	124696923	T	T	124696923	3	4	187	1	0	0	0	0	1	0	0	0	717	536	19	1	200	1	ANXA13	8	124696923	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	247378	124696923	21667099	403	93186											
FAM91A1	157769	broad.mit.edu	37	chr8	124810440	124810440	+	Missense_Mutation	SNP	A	G	G	1	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	ttgtttccatggctcccctcAccaatgaaatccggcctgtc	7	12	7	15	1	1	1	1	1	0	0	5	1	4	1	6	2	0	2	6	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:124810440A>G	uc003yqv.2	+	16	1583	c.1522A>G	c.(1522-1524)ACC>GCC	p.T508A	FAM91A1_uc011lik.1_Missense_Mutation_p.T508A|FAM91A1_uc011lil.1_Missense_Mutation_p.T266A	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	508										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			GGCTCCCCTCACCAATGAAAT	0.478													17	92					0	0	1	0	0		G	124810440	G	G	124810440	3	3	187	1	0	0	0	0	1	0	0	0	5665	159	6	3	1584	3	FAM91A1	8	124810440	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	113517	124810440	21553582	404	93187											
TG	7038	broad.mit.edu	37	chr8	134025948	134025948	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaagctgcacacatagtctGcagggtcagaactgccgact	12	7	10	12	1	2	1	1	0	1	1	2	2	2	1	1	1	5	3	1	1	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:134025948G>T	uc003ytw.2	+	37	6542	c.6501G>T	c.(6499-6501)CTG>CTT	p.L2167L	TG_uc010mdw.2_Silent_p.L926L|TG_uc011ljb.1_Silent_p.L536L|TG_uc011ljc.1_Silent_p.L300L	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2167	Type IIIA.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CACATAGTCTGCAGGGTCAGA	0.532													18	55					7.07596e-05	7.31594e-05	1	1	0		T	134025948	T	T	134025948	2	4	187	1	0	0	0	0	0	0	0	1	15838	1306	46	5		5	TG	8	134025948	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9215508	134025948	12338074	405	93188											
FAM135B	51059	broad.mit.edu	37	chr8	139153505	139153505	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcccagagagtgacaggaaCgtgtggagtttgttgaggta	10	9	17	5	1	0	3	0	2	0	1	0	6	0	5	1	4	1	3	1	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:139153505C>T	uc003yuy.2	-	17	3897	c.3726G>A	c.(3724-3726)ACG>ACA	p.T1242T	FAM135B_uc003yux.2_Silent_p.T1143T|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1242										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			GTGACAGGAACGTGTGGAGTT	0.507										HNSCC(54;0.14)			25	107					0	0	1	0	0		T	139153505	T	T	139153505	2	4	187	1	0	0	0	0	0	0	0	1	5460	523	19	1		1	FAM135B	8	139153505	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5127557	139153505	7210517	406	93189											
EIF2C2	27161	broad.mit.edu	37	chr8	141566043	141566043	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcacccgcccagtcacGtctgtcatctcatctttgac	7	11	7	16	2	5	1	3	1	3	0	6	1	5	1	2	0	2	2	2	0	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:141566043G>A	uc003yvn.2	-	10	1261	c.1221C>T	c.(1219-1221)GAC>GAT	p.D407D	EIF2C2_uc010men.2_Silent_p.D330D|EIF2C2_uc010meo.2_Silent_p.D407D	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	407					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GCCCAGTCACGTCTGTCATCT	0.577													20	79					0	0	1	0	0		A	141566043	A	A	141566043	2	1	187	1	0	0	0	0	0	0	0	1	5012	1136	40	1		1	EIF2C2	8	141566043	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2412538	141566043	4797979	407	93190											
FLJ43860	389690	broad.mit.edu	37	chr8	142458045	142458045	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcctcctgggcctgctgCttgggctagggctcgctggg	1	9	17	14	2	0	0	0	0	0	0	2	0	1	0	4	4	2	5	4	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:142458045C>T	uc003ywi.2	-	23	2862	c.2781G>A	c.(2779-2781)AAG>AAA	p.K927K	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	927							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGGCCTGCTGCTTGGGCTAGG	0.652													3	24					0	0	1	0	0		T	142458045	T	T	142458045	2	4	187	1	0	0	0	0	0	0	0	1	5944	796	28	2		2	FLJ43860	8	142458045	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	892002	142458045	3905977	408	93191											
ZNF696	79943	broad.mit.edu	37	chr8	144378347	144378347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatccacagctcgcacGtggtccggcaccagcgggcg	6	6	12	17	5	1	0	1	0	0	0	4	0	3	0	4	3	2	3	4	3	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:144378347G>A	uc003yxy.3	+	3	911	c.502G>A	c.(502-504)GTG>ATG	p.V168M		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	168	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CAGCTCGCACGTGGTCCGGCA	0.687													3	23					0	0	1	0	0		A	144378347	A	A	144378347	3	1	187	1	0	0	0	0	1	0	0	0	18124	1145	40	1	508	1	ZNF696	8	144378347	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1920302	144378347	1985675	409	93192											
TOP1MT	116447	broad.mit.edu	37	chr8	144391637	144391637	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcaaagtcttctcctgccaTggcgagagcccaggcgaacc	9	8	10	14	2	3	1	1	0	2	1	4	3	3	1	4	2	3	0	4	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:144391637T>C	uc003yxz.2	-	14	1799	c.1780A>G	c.(1780-1782)ATG>GTG	p.M594V	TOP1MT_uc011lkd.1_Missense_Mutation_p.M496V|TOP1MT_uc011lke.1_Missense_Mutation_p.M496V|TOP1MT_uc010mfb.2_Missense_Mutation_p.M496V|TOP1MT_uc011lkf.1_3'UTR	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	594					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	TCTCCTGCCATGGCGAGAGCC	0.502													21	76					0	0	1	0	0		C	144391637	C	C	144391637	3	2	187	1	0	0	0	0	1	0	0	0	16390	1464	51	3	29	3	TOP1MT	8	144391637	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	13290	144391637	1972385	410	93193											
ZC3H3	23144	broad.mit.edu	37	chr8	144620765	144620765	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	tctcctgtccccaaggagctGtggagcacagctggccacgg	7	7	13	14	1	1	0	0	0	1	0	3	2	2	2	4	4	3	3	4	4	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:144620765G>A	uc003yyd.2	-	2	801	c.772C>T	c.(772-774)CAG>TAG	p.Q258*		NM_015117	NP_055932	Q8IXZ2	ZC3H3_HUMAN	zinc finger CCCH-type containing 3	258					mRNA polyadenylation|poly(A)+ mRNA export from nucleus|regulation of mRNA export from nucleus	nucleus	nucleic acid binding|zinc ion binding			skin(1)	1	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)			CCAAGGAGCTGTGGAGCACAG	0.672													17	82					0	0	1	0	0		A	144620765	A	A	144620765	4	1	187	1	0	0	0	0	0	1	0	0	17594	1386	48	4	2118	4	ZC3H3	8	144620765	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	229128	144620765	1743257	411	93194											
SCRIB	23513	broad.mit.edu	37	chr8	144877464	144877464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactgcggcttctgtggcctCgggcccccagtgcagggtct	3	9	14	15	2	2	0	0	0	2	0	3	0	2	0	3	4	2	2	3	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:144877464C>T	uc003yzp.1	-	26	3761	c.3754G>A	c.(3754-3756)GAG>AAG	p.E1252K	SCRIB_uc003yzn.1_5'UTR|SCRIB_uc003yzo.1_Missense_Mutation_p.E1252K	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1252					activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TCTGTGGCCTCGGGCCCCCAG	0.687													40	109					0	0	1	0	0		T	144877464	T	T	144877464	3	4	187	1	0	0	0	0	1	0	0	0	13962	893	31	1	1261	1	SCRIB	8	144877464	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	256699	144877464	1486558	412	93195											
NRBP2	340371	broad.mit.edu	37	chr8	144918173	144918173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcagctgccggtgcagccGgtcttccagcaccagaagca	8	6	13	14	2	2	1	1	0	1	1	3	1	3	1	4	3	6	4	4	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:144918173G>A	uc011lkt.1	-	16	1485	c.1345C>T	c.(1345-1347)CGG>TGG	p.R449W	NRBP2_uc003yzv.2_Missense_Mutation_p.R206W|NRBP2_uc003yzz.1_Missense_Mutation_p.R99W|NRBP2_uc003yzw.2_Missense_Mutation_p.R241W|NRBP2_uc010mfl.2_Missense_Mutation_p.R241W|NRBP2_uc010mfm.2_Missense_Mutation_p.R206W|NRBP2_uc011lks.1_Missense_Mutation_p.R206W|NRBP2_uc003yzy.2_Missense_Mutation_p.R206W	NM_178564	NP_848659	Q9NSY0	NRBP2_HUMAN	nuclear receptor binding protein 2	449					negative regulation of neuron apoptosis|neuron differentiation	cytoplasm	ATP binding|protein kinase activity			central_nervous_system(2)	2	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)			CGGTGCAGCCGGTCTTCCAGC	0.741													10	14					0	0	1	0	0		A	144918173	A	A	144918173	3	1	187	1	0	0	0	0	1	0	0	0	10662	1115	39	1	172	1	NRBP2	8	144918173	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	40709	144918173	1445849	413	93196											
PLEC	5339	broad.mit.edu	37	chr8	144994837	144994837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acagggccacggccatgtcgGatggcagcaggtctttcttc	7	9	13	12	2	2	0	0	0	2	0	4	1	2	1	2	5	1	2	2	5	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:144994837G>A	uc003zaf.1	-	32	9733	c.9563C>T	c.(9562-9564)TCC>TTC	p.S3188F	PLEC_uc003zab.1_Missense_Mutation_p.S3051F|PLEC_uc003zac.1_Missense_Mutation_p.S3055F|PLEC_uc003zad.2_Missense_Mutation_p.S3051F|PLEC_uc003zae.1_Missense_Mutation_p.S3019F|PLEC_uc003zag.1_Missense_Mutation_p.S3029F|PLEC_uc003zah.2_Missense_Mutation_p.S3037F|PLEC_uc003zaj.2_Missense_Mutation_p.S3078F	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3188	Globular 2.|Plectin 7.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGCCATGTCGGATGGCAGCAG	0.667													18	69					0	0	1	0	0		A	144994837	A	A	144994837	3	1	187	1	0	0	0	0	1	0	0	0	12071	1174	41	4	4495	4	PLEC	8	144994837	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	76664	144994837	1369185	414	93197											
SCRT1	83482	broad.mit.edu	37	chr8	145557015	145557015	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgaatgcgtctgcatgtgCgcgcgcaggttggagcggtc	5	8	17	11	6	1	0	0	0	1	0	2	2	1	1	1	3	4	3	1	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:145557015C>T	uc003zbw.1	-	2	991	c.879G>A	c.(877-879)GCG>GCA	p.A293A		NM_031309	NP_112599	Q9BWW7	SCRT1_HUMAN	scratch	293	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			TCTGCATGTGCGCGCGCAGGT	0.637													5	26					0	0	1	0	0		T	145557015	T	T	145557015	2	4	187	1	0	0	0	0	0	0	0	1	13966	755	27	1		1	SCRT1	8	145557015	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	562178	145557015	807007	415	93198											
KIFC2	90990	broad.mit.edu	37	chr8	145693130	145693130	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agcagcagctggaacagcagGaggaggagttgggtcgactg	11	5	18	7	1	0	0	0	0	0	0	1	5	0	4	0	5	5	5	0	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:145693130G>C	uc003zcz.2	+	6	714	c.649G>C	c.(649-651)GAG>CAG	p.E217Q	CYHR1_uc003zcv.2_5'Flank|CYHR1_uc003zcw.2_5'Flank|CYHR1_uc003zcx.2_5'Flank|CYHR1_uc003zcy.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	217	Potential.|Gln-rich.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			GGAACAGCAGGAGGAGGAGTT	0.637											OREG0019057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	60					0	0	1	0	0		C	145693130	C	C	145693130	3	2	187	1	0	0	0	0	1	0	0	0	8329	1175	41	5	671	5	KIFC2	8	145693130	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	136115	145693130	670892	416	93199											
RECQL4	9401	broad.mit.edu	37	chr8	145740361	145740361	+	Missense_Mutation	SNP	T	C	C	0	1	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	caggggagagacgaccaacgTgaggcaggggctgcgccggc	9	2	19	11	4	0	2	0	1	0	1	0	5	0	3	2	6	2	2	2	6	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr8:145740361T>C	uc003zdj.2	-	9	1611	c.1579A>G	c.(1579-1581)ACG>GCG	p.T527A		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	527	Helicase ATP-binding.				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			ACGACCAACGTGAGGCAGGGG	0.637			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				7	30					0	0	1	0	0		C	145740361	C	C	145740361	3	2	187	1	0	0	0	0	1	0	0	0	13227	1696	59	3	2100	3	RECQL4	8	145740361	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	47231	145740361	623661	417	93200											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													15	70					0	0	1	0	0		G	164038	G	G	164038	5	3	187	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		164038	141049393	418	93201											
VLDLR	7436	broad.mit.edu	37	chr9	2644970	2644970	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcccagatattgatgaatgCcaaaatccaggaatctgcag	14	9	8	10	0	1	3	0	2	1	1	3	4	3	4	3	1	2	1	3	1	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:2644970C>T	uc003zhk.1	+	9	1597	c.1200C>T	c.(1198-1200)TGC>TGT	p.C400C	VLDLR_uc003zhl.1_Silent_p.C400C|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Silent_p.C359C	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	400	Extracellular (Potential).|EGF-like 2; calcium-binding (Potential).				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		TTGATGAATGCCAAAATCCAG	0.428													39	121					0	0	1	0	0		T	2644970	T	T	2644970	2	4	187	1	0	0	0	0	0	0	0	1	17200	747	26	2		2	VLDLR	9	2644970	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2480932	2644970	138568461	419	93202											
CNTLN	54875	broad.mit.edu	37	chr9	17457549	17457549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttggatttggctgggcttCggaaagaaaaagaagattta	14	12	12	3	1	0	3	0	0	0	3	1	5	0	5	0	4	0	2	0	4	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:17457549C>T	uc003zmz.2	+	19	3165	c.3139C>T	c.(3139-3141)CGG>TGG	p.R1047W	CNTLN_uc003zmy.2_Missense_Mutation_p.R1048W|CNTLN_uc010mio.2_Missense_Mutation_p.R727W	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1048	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		GGCTGGGCTTCGGAAAGAAAA	0.269													17	71					0	0	1	0	0		T	17457549	T	T	17457549	3	4	187	1	0	0	0	0	1	0	0	0	3642	875	31	1	3246	1	CNTLN	9	17457549	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	14812579	17457549	123755882	420	93203											
TEK	7010	broad.mit.edu	37	chr9	27217741	27217741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	actgaattacagtgtgtacaCaaccaacagtgatgtgtgag	14	10	10	7	0	0	3	0	3	0	0	0	3	0	3	1	0	4	1	1	0	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:27217741C>T	uc003zqi.3	+	19	3489	c.3047C>T	c.(3046-3048)ACA>ATA	p.T1016I	TEK_uc011lno.1_Missense_Mutation_p.T973I|TEK_uc011lnp.1_Missense_Mutation_p.T868I	NM_000459	NP_000450	Q02763	TIE2_HUMAN	TEK tyrosine kinase, endothelial precursor	1016	Protein kinase.|Cytoplasmic (Potential).				angiogenesis|blood coagulation|cell-cell signaling|leukocyte migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase B signaling cascade|protein oligomerization|transmembrane receptor protein tyrosine kinase signaling pathway	apical plasma membrane|basolateral plasma membrane|cell surface|integral to plasma membrane|membrane raft|microvillus	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			ovary(3)|central_nervous_system(3)|breast(3)|lung(2)|kidney(1)	12		all_neural(11;7.57e-10)|Myeloproliferative disorder(762;0.0255)		Lung(218;4.08e-05)|LUSC - Lung squamous cell carcinoma(38;0.00027)		AGTGTGTACACAACCAACAGT	0.428													19	60					0	0	1	0	0		T	27217741	T	T	27217741	3	4	187	1	0	0	0	0	1	0	0	0	15776	478	17	4	3121	4	TEK	9	27217741	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9760192	27217741	113995690	421	93204											
NOL6	65083	broad.mit.edu	37	chr9	33469244	33469244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcggtaccaggcagagcGcacattgttcttggttggca	7	10	12	12	2	1	1	0	0	1	1	2	1	1	1	2	4	2	6	2	4	1	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:33469244G>A	uc003zsz.2	-	6	924	c.823C>T	c.(823-825)CGC>TGC	p.R275C	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zta.2_Missense_Mutation_p.R275C|NOL6_uc010mjv.2_Missense_Mutation_p.R275C|NOL6_uc011lob.1_Missense_Mutation_p.R215C|NOL6_uc003ztb.1_Missense_Mutation_p.R275C	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	275					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		CAGGCAGAGCGCACATTGTTC	0.617													36	77					0	0	1	0	0		A	33469244	A	A	33469244	3	1	187	1	0	0	0	0	1	0	0	0	10544	1087	38	1	2701	1	NOL6	9	33469244	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6251503	33469244	107744187	422	93205											
STOML2	30968	broad.mit.edu	37	chr9	35101939	35101939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcaggtaaaggactccatCgatttgcagagttacattgt	11	11	11	8	2	0	1	0	0	0	1	2	3	1	2	1	2	2	4	1	2	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:35101939C>T	uc003zwi.2	-	4	367	c.304G>A	c.(304-306)GAT>AAT	p.D102N	STOML2_uc003zwh.2_5'UTR|STOML2_uc003zwj.2_5'UTR|STOML2_uc011lou.1_Missense_Mutation_p.D102N|STOML2_uc003zwk.2_Missense_Mutation_p.D51N	NM_013442	NP_038470	Q9UJZ1	STML2_HUMAN	stomatin (EPB72)-like 2	102						cytoskeleton	receptor binding				0			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			AGGACTCCATCGATTTGCAGA	0.473													20	63					0	0	1	0	0		T	35101939	T	T	35101939	3	4	187	1	0	0	0	0	1	0	0	0	15339	884	31	1	794	1	STOML2	9	35101939	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1632695	35101939	106111492	423	93206											
DCAF10	79269	broad.mit.edu	37	chr9	37861193	37861193	+	Silent	SNP	C	T	T	0	0	0	1	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	gtgcgacctgtctcacctcgCtgttctctacgactgactca	6	12	8	15	3	3	1	2	1	2	0	6	3	3	1	2	0	2	2	2	0	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:37861193C>T	uc004aao.2	+	7	1442	c.1368C>T	c.(1366-1368)CGC>CGT	p.R456R	DCAF10_uc010mlz.2_Silent_p.R283R|DCAF10_uc004aap.2_Silent_p.R107R	NM_024345	NP_077321	Q5QP82	DCA10_HUMAN	WD repeat domain 32	456						CUL4 RING ubiquitin ligase complex				central_nervous_system(1)	1						TCTCACCTCGCTGTTCTCTAC	0.483													34	95					0	0	1	0	0		T	37861193	T	T	37861193	2	4	187	1	0	0	0	0	0	0	0	1	4264	784	28	2		2	DCAF10	9	37861193	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2759254	37861193	103352238	424	93207											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	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	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													12	84					0	0	1	0	0		G	70993145	G	G	70993145	3	3	187	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	33131952	70993145	70220286	425	93208											
VPS13A	23230	broad.mit.edu	37	chr9	79910753	79910753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aataaagctgagtgaaatgcGactatacaggtaagcttttc	15	11	9	6	1	0	2	0	2	0	0	1	3	0	2	0	1	4	3	0	1	7	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:79910753G>A	uc004akr.2	+	33	4063	c.3803G>A	c.(3802-3804)CGA>CAA	p.R1268Q	VPS13A_uc004akp.3_Missense_Mutation_p.R1268Q|VPS13A_uc004akq.3_Missense_Mutation_p.R1268Q|VPS13A_uc004aks.2_Missense_Mutation_p.R1229Q|VPS13A_uc010mpo.1_5'UTR	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1268	TPR 4.				Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AGTGAAATGCGACTATACAGG	0.348													9	44					0	0	1	0	0		A	79910753	A	A	79910753	3	1	187	1	0	0	0	0	1	0	0	0	17215	1058	37	1	3933	1	VPS13A	9	79910753	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8917608	79910753	61302678	426	93209											
GNAQ	2776	broad.mit.edu	37	chr9	80430566	80430566	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agataattgatattctcgtcGtctatcatagcattcctgga	11	15	7	8	2	3	2	1	1	2	1	6	3	4	3	1	1	1	1	1	1	4	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:80430566G>A	uc004akw.2	-	3	483	c.442C>T	c.(442-444)CGA>TGA	p.R148*	GNAQ_uc011lso.1_Translation_Start_Site	NM_002072	NP_002063	P50148	GNAQ_HUMAN	guanine nucleotide binding protein (G protein),	148					activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity			eye(136)|skin(44)|meninges(11)|ovary(1)|kidney(1)	193						TATTCTCGTCGTCTATCATAG	0.378			Mis		uveal melanoma								17	36					0	0	1	0	0		A	80430566	A	A	80430566	4	1	187	1	0	0	0	0	0	1	0	0	6524	1153	40	1	657	1	GNAQ	9	80430566	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	519813	80430566	60782865	427	93210											
AGTPBP1	23287	broad.mit.edu	37	chr9	88272486	88272486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttctatgccggttatcatggCggtgccaatctacataaatt	10	14	8	9	2	3	0	1	0	2	0	3	0	3	0	2	3	3	1	2	3	6	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:88272486C>T	uc011ltd.1	-	9	806	c.773G>A	c.(772-774)CGC>CAC	p.R258H	AGTPBP1_uc011ltc.1_Missense_Mutation_p.R156H|AGTPBP1_uc010mqc.2_Missense_Mutation_p.R258H|AGTPBP1_uc011lte.1_Missense_Mutation_p.R310H	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	258					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						GTTATCATGGCGGTGCCAATC	0.353													18	29					0	0	1	0	0		T	88272486	T	T	88272486	3	4	187	1	0	0	0	0	1	0	0	0	400	768	27	1	2855	1	AGTPBP1	9	88272486	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7841920	88272486	52940945	428	93211											
OMD	4958	broad.mit.edu	37	chr9	95179158	95179158	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagaaggcaaaccaggaGgcattgattctaatctgtta	14	10	11	6	0	2	3	0	2	2	1	2	4	2	4	1	3	1	3	1	3	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:95179158G>T	uc004asd.3	-	2	1052	c.683C>A	c.(682-684)CCT>CAT	p.P228H	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron	NM_005014	NP_005005	Q99983	OMD_HUMAN	osteomodulin precursor	228	LRR 6.				cell adhesion	proteinaceous extracellular matrix				ovary(2)	2						CAAACCAGGAGGCATTGATTC	0.328			T	USP6	aneurysmal bone cysts								28	92					2.08457e-15	2.26731e-15	1	1	0		T	95179158	T	T	95179158	3	4	187	1	0	0	0	0	1	0	0	0	10884	1000	35	5	590	5	OMD	9	95179158	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6906672	95179158	46034273	429	93212											
C9orf129	445577	broad.mit.edu	37	chr9	96080728	96080728	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctggggcagggcacactggCggagctgcttgctcagtagg	6	7	18	10	1	1	0	1	0	0	0	1	1	1	1	0	6	3	7	0	6	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:96080728C>T	uc010mre.2	-	5	907	c.543G>A	c.(541-543)CCG>CCA	p.P181P	WNK2_uc011lud.1_3'UTR|WNK2_uc004atj.2_Intron|WNK2_uc004atk.2_3'UTR	NM_001098808	NP_001092278	Q5T035	CI129_HUMAN	hypothetical protein LOC445577	181										ovary(1)	1						GGCACACTGGCGGAGCTGCTT	0.612													17	96					0	0	1	0	0		T	96080728	T	T	96080728	2	4	187	1	0	0	0	0	0	0	0	1	2459	755	27	1		1	C9orf129	9	96080728	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	901570	96080728	45132703	430	93213											
BARX1	56033	broad.mit.edu	37	chr9	96715033	96715033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttcttccacttcatcctcCgattctggtaccacgtcttc	5	17	4	15	2	4	0	1	0	3	0	8	1	7	0	4	1	1	1	4	1	1	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:96715033C>T	uc010mrh.2	-	3	758	c.578G>A	c.(577-579)CGG>CAG	p.R193Q	BARX1_uc004aud.2_Missense_Mutation_p.R39Q	NM_021570	NP_067545	Q9HBU1	BARX1_HUMAN	BARX homeobox 1	193	Homeobox.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTTCATCCTCCGATTCTGGTA	0.572													18	43					0	0	1	0	0		T	96715033	T	T	96715033	3	4	187	1	0	0	0	0	1	0	0	0	1316	652	23	1	194	1	BARX1	9	96715033	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	634305	96715033	44498398	431	93214											
TBC1D2	55357	broad.mit.edu	37	chr9	101014205	101014205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcatcgcttgcttggtggCggcctgagaagcacaaggat	9	8	14	10	2	0	1	0	1	0	1	1	3	0	2	1	4	3	4	1	4	2	2	rs140114775	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:101014205C>T	uc011lvb.1	-	2	553	c.373G>A	c.(373-375)GCC>ACC	p.A125T	TBC1D2_uc004ayq.2_Missense_Mutation_p.A125T|TBC1D2_uc004ayr.2_Intron|TBC1D2_uc004ayo.3_Missense_Mutation_p.A125T	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	125	PH.|Interaction with CADH1.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		TGCTTGGTGGCGGCCTGAGAA	0.607													19	66					0	0	1	0	0		T	101014205	T	T	101014205	3	4	187	1	0	0	0	0	1	0	0	0	15633	768	27	1	2428	1	TBC1D2	9	101014205	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4299172	101014205	40199226	432	93215											
ZNF462	58499	broad.mit.edu	37	chr9	109689884	109689884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtgatccggcagcatacgGccaccattcgaagcctctgc	9	8	10	14	3	1	1	0	1	1	0	3	2	2	1	4	2	4	2	4	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:109689884G>A	uc004bcz.2	+	3	3980	c.3691G>A	c.(3691-3693)GCC>ACC	p.A1231T	ZNF462_uc010mto.2_Missense_Mutation_p.A1079T|ZNF462_uc004bda.2_Missense_Mutation_p.A1079T	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1231					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GCAGCATACGGCCACCATTCG	0.537													82	193					0	0	1	0	0		A	109689884	A	A	109689884	3	1	187	1	0	0	0	0	1	0	0	0	17951	1203	42	2	3697	2	ZNF462	9	109689884	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8675679	109689884	31523547	433	93216											
ZFP37	7539	broad.mit.edu	37	chr9	115806463	115806463	+	Silent	SNP	A	G	G	1	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	ctgccattcttcttagcttgAgttttcttcttgactgcaac	6	18	6	11	0	4	2	0	2	4	0	4	2	4	2	1	0	4	3	1	0	2	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:115806463A>G	uc004bgm.1	-	4	463	c.435T>C	c.(433-435)ACT>ACC	p.T145T	ZFP37_uc011lwz.1_Silent_p.T160T|ZFP37_uc011lxa.1_Silent_p.T146T	NM_003408	NP_003399	Q9Y6Q3	ZFP37_HUMAN	zinc finger protein 37 homolog	145						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TCTTAGCTTGAGTTTTCTTCT	0.353													25	107					0	0	1	0	0		G	115806463	G	G	115806463	2	3	187	1	0	0	0	0	0	0	0	1	17673	291	11	3		3	ZFP37	9	115806463	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	6116579	115806463	25406968	434	93217											
ZNF618	114991	broad.mit.edu	37	chr9	116811801	116811801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacctggcggccatcctgaCgccggtgaagcaggcagtca	9	5	13	14	3	1	2	1	2	0	0	2	2	2	2	4	4	2	2	4	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:116811801C>T	uc004bid.2	+	15	2318	c.2219C>T	c.(2218-2220)ACG>ATG	p.T740M	ZNF618_uc004bic.2_Missense_Mutation_p.T647M|ZNF618_uc011lxi.1_Missense_Mutation_p.T707M|ZNF618_uc011lxj.1_Missense_Mutation_p.T708M|ZNF618_uc010mvb.2_Missense_Mutation_p.T330M	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	740					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCATCCTGACGCCGGTGAAG	0.612													6	21					0	0	1	0	0		T	116811801	T	T	116811801	3	4	187	1	0	0	0	0	1	0	0	0	18067	536	19	1	1994	1	ZNF618	9	116811801	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1005338	116811801	24401630	435	93218											
TNC	3371	broad.mit.edu	37	chr9	117849200	117849200	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgcctgcaaagccatcgtgGcacacacacaagccatctac	12	6	7	16	2	1	0	0	0	1	0	3	0	1	0	3	1	4	2	3	1	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:117849200G>A	uc004bjj.3	-	3	1172	c.810C>T	c.(808-810)TGC>TGT	p.C270C	TNC_uc010mvf.2_Silent_p.C270C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	270	EGF-like 4.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						AGCCATCGTGGCACACACACA	0.562													21	83					0	0	1	0	0		A	117849200	A	A	117849200	2	1	187	1	0	0	0	0	0	0	0	1	16295	1195	42	2		2	TNC	9	117849200	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1037399	117849200	23364231	436	93219											
ASTN2	23245	broad.mit.edu	37	chr9	119495677	119495677	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtctggcacatgtgtcttaCcagtgagcagttggaggtct	7	12	14	8	0	3	1	0	1	3	0	3	2	3	2	1	4	2	3	1	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:119495677C>T	uc004bjs.1	-	14	2622	c.2521_splice	c.e14+1	p.G841_splice	ASTN2_uc004bjr.1_Splice_Site_p.G837_splice|ASTN2_uc004bjt.1_Splice_Site_p.G790_splice	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c							integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						ATGTGTCTTACCAGTGAGCAG	0.612													54	216					0	0	1	0	0		T	119495677	T	T	119495677	5	4	187	1	0	0	0	0	0	0	1	0	1066	521	18	4	1769	4	ASTN2	9	119495677	Splice_Site	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1646477	119495677	21717754	437	93220											
TRAF1	7185	broad.mit.edu	37	chr9	123673661	123673661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggccgactcatggcacCgcctggtgacattggtgatc	8	8	12	13	2	1	2	1	2	0	0	2	3	1	2	3	4	0	1	3	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:123673661C>T	uc004bku.1	-	6	1408	c.836G>A	c.(835-837)CGG>CAG	p.R279Q	TRAF1_uc011lyg.1_Missense_Mutation_p.R157Q|TRAF1_uc010mvl.1_Missense_Mutation_p.R279Q	NM_005658	NP_005649	Q13077	TRAF1_HUMAN	TNF receptor-associated factor 1	279	MATH.				apoptosis|positive regulation of NF-kappaB transcription factor activity|protein complex assembly|regulation of apoptosis|signal transduction	cytoplasm	protein binding|zinc ion binding			skin(2)|ovary(1)	3						CTCATGGCACCGCCTGGTGAC	0.622													8	48					0	0	1	0	0		T	123673661	T	T	123673661	3	4	187	1	0	0	0	0	1	0	0	0	16463	652	23	1	426	1	TRAF1	9	123673661	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4177984	123673661	17539770	438	93221											
MAPKAP1	79109	broad.mit.edu	37	chr9	128347904	128347904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatcaggtcctgcaccctggCgctggccattgtcaccacgg	6	8	12	15	2	2	0	2	0	0	0	3	1	3	0	4	4	1	2	4	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:128347904C>T	uc004bpv.2	-	5	934	c.601G>A	c.(601-603)GCC>ACC	p.A201T	MAPKAP1_uc011lzt.1_Missense_Mutation_p.A4T|MAPKAP1_uc010mwz.2_RNA|MAPKAP1_uc011lzu.1_Missense_Mutation_p.A4T|MAPKAP1_uc011lzv.1_Missense_Mutation_p.A4T|MAPKAP1_uc004bpw.2_Missense_Mutation_p.A9T|MAPKAP1_uc004bpx.2_Missense_Mutation_p.A9T|MAPKAP1_uc004bpy.2_Missense_Mutation_p.A201T|MAPKAP1_uc004bpz.2_Missense_Mutation_p.A201T|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc010mxb.1_Missense_Mutation_p.A4T|MAPKAP1_uc004bqa.2_Missense_Mutation_p.A201T|MAPKAP1_uc010mxc.1_Missense_Mutation_p.A73T	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	201					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						TGCACCCTGGCGCTGGCCATT	0.542													26	86					0	0	1	0	0		T	128347904	T	T	128347904	3	4	187	1	0	0	0	0	1	0	0	0	9306	768	27	1	1017	1	MAPKAP1	9	128347904	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4674243	128347904	12865527	439	93222											
METTL11A	28989	broad.mit.edu	37	chr9	132397705	132397705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggcaggagaacctccccGatgagatctaccatgtctat	12	8	10	11	1	2	3	0	1	2	3	3	6	3	3	4	2	2	1	4	2	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:132397705G>A	uc004byd.1	+	4	828	c.634G>A	c.(634-636)GAT>AAT	p.D212N	METTL11A_uc010myw.1_RNA|METTL11A_uc011mbs.1_3'UTR|ASB6_uc004bye.1_3'UTR|ASB6_uc004byf.1_3'UTR|ASB6_uc004byg.1_3'UTR|ASB6_uc011mbt.1_3'UTR|ASB6_uc010myx.1_3'UTR	NM_014064	NP_054783	Q9BV86	NTM1A_HUMAN	methyltransferase like 11A	212					chromosome segregation|N-terminal peptidyl-proline dimethylation|N-terminal peptidyl-serine dimethylation|N-terminal peptidyl-serine trimethylation|spindle organization	nucleus	protein binding|protein methyltransferase activity				0						GAACCTCCCCGATGAGATCTA	0.632													43	119					0	0	1	0	0		A	132397705	A	A	132397705	3	1	187	1	0	0	0	0	1	0	0	0	9513	1058	37	1	644	1	METTL11A	9	132397705	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4049801	132397705	8815726	440	93223											
PPAPDC3	84814	broad.mit.edu	37	chr9	134165625	134165625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccctccttcaagggcatcGccttcaactccctgctggcc	6	9	7	19	1	2	0	2	0	0	0	5	0	4	0	6	2	2	2	6	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:134165625G>A	uc004cal.2	+	1	545	c.241G>A	c.(241-243)GCC>ACC	p.A81T		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	81	interaction with MTOR (By similarity).|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CAAGGGCATCGCCTTCAACTC	0.657													23	95					0	0	1	0	0		A	134165625	A	A	134165625	3	1	187	1	0	0	0	0	1	0	0	0	12315	1087	38	1	243	1	PPAPDC3	9	134165625	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1767920	134165625	7047806	441	93224											
UCK1	83549	broad.mit.edu	37	chr9	134404971	134404971	+	Missense_Mutation	SNP	T	A	A	0	1	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	tcaaatcattatcaaaggcaTctgcagggttggagacaaag	15	9	10	7	0	4	1	3	0	1	1	4	2	4	1	0	3	1	3	0	3	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:134404971T>A	uc004cay.2	-	3	370	c.269A>T	c.(268-270)GAT>GTT	p.D90V	UCK1_uc010mzk.2_Missense_Mutation_p.D81V|UCK1_uc004cba.2_Missense_Mutation_p.D90V|UCK1_uc004caz.2_RNA	NM_031432	NP_113620	Q9HA47	UCK1_HUMAN	uridine-cytidine kinase 1 isoform a	90					pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;2.34e-05)|Epithelial(140;0.000219)		ATCAAAGGCATCTGCAGGGTT	0.547													25	79					0	0	1	0	0		A	134404971	A	A	134404971	3	1	187	1	0	0	0	0	1	0	0	0	16949	1449	50	5	584	5	UCK1	9	134404971	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	239346	134404971	6808460	442	93225											
UCK1	83549	broad.mit.edu	37	chr9	134405956	134405956	+	Missense_Mutation	SNP	A	G	G	1	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	tgtagaacctgtcctggctcAggatgaccaccttccgctgc	7	10	10	14	1	1	2	1	1	0	1	3	3	3	3	5	2	2	3	5	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:134405956A>G	uc004cay.2	-	2	286	c.185T>C	c.(184-186)CTG>CCG	p.L62P	UCK1_uc010mzk.2_Missense_Mutation_p.L53P|UCK1_uc004cba.2_Missense_Mutation_p.L62P|UCK1_uc004caz.2_RNA	NM_031432	NP_113620	Q9HA47	UCK1_HUMAN	uridine-cytidine kinase 1 isoform a	62					pyrimidine base metabolic process|pyrimidine nucleoside salvage	cytosol	ATP binding|phosphotransferase activity, alcohol group as acceptor|uridine kinase activity				0				OV - Ovarian serous cystadenocarcinoma(145;2.34e-05)|Epithelial(140;0.000219)		GTCCTGGCTCAGGATGACCAC	0.552													41	141					0	0	1	0	0		G	134405956	G	G	134405956	3	3	187	1	0	0	0	0	1	0	0	0	16949	188	7	3	672	3	UCK1	9	134405956	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	985	134405956	6807475	443	93226											
NTNG2	84628	broad.mit.edu	37	chr9	135114621	135114621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggctgggctactaccgcaaCggctcggcagagctggatga	8	6	15	12	4	0	2	0	1	0	1	1	3	0	3	1	5	4	6	1	5	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:135114621C>T	uc004cbh.2	+	6	1961	c.1185C>T	c.(1183-1185)AAC>AAT	p.N395N		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	395	Laminin EGF-like 2.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		ACTACCGCAACGGCTCGGCAG	0.607													14	58					0	0	1	0	0		T	135114621	T	T	135114621	2	4	187	1	0	0	0	0	0	0	0	1	10724	535	19	1		1	NTNG2	9	135114621	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	708665	135114621	6098810	444	93227											
SETX	23064	broad.mit.edu	37	chr9	135202830	135202830	+	Silent	SNP	G	A	A	0	0	1	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	tcagattctggtacaaatatGtcagaattctgtgctgtatg	11	15	9	6	0	4	2	2	0	2	2	4	2	4	2	0	1	2	3	0	1	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:135202830G>A	uc004cbk.2	-	10	4338	c.4155C>T	c.(4153-4155)GAC>GAT	p.D1385D	SETX_uc004cbj.2_Silent_p.D1004D|SETX_uc010mzt.2_Silent_p.D1004D	NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	1385					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		GTACAAATATGTCAGAATTCT	0.373													22	76					0	0	1	0	0		A	135202830	A	A	135202830	2	1	187	1	0	0	0	0	0	0	0	1	14166	1368	48	4		4	SETX	9	135202830	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	88209	135202830	6010601	445	93228											
C9orf171	389799	broad.mit.edu	37	chr9	135285799	135285799	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccgttccggcatggagaaCgagcggctgggggtcgtgcg	6	7	18	10	6	0	1	0	0	0	1	3	3	2	1	2	5	3	3	2	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:135285799C>T	uc004cbn.2	+	1	189	c.141C>T	c.(139-141)AAC>AAT	p.N47N	C9orf171_uc004cbo.2_Silent_p.N47N	NM_207417	NP_997300	Q6ZQR2	CI171_HUMAN	hypothetical protein LOC389799	47										ovary(4)|large_intestine(1)	5						GCATGGAGAACGAGCGGCTGG	0.602													8	15					0	0	1	0	0		T	135285799	T	T	135285799	2	4	187	1	0	0	0	0	0	0	0	1	2473	535	19	1		1	C9orf171	9	135285799	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	82969	135285799	5927632	446	93229											
DBH	1621	broad.mit.edu	37	chr9	136513045	136513045	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acgcggggatcatggagctgGgactggtgtacacgccagtg	8	7	17	9	3	1	0	1	0	0	0	1	3	1	3	1	5	2	2	1	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:136513045G>T	uc004cel.2	+	6	1111	c.1102G>T	c.(1102-1104)GGA>TGA	p.G368*		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	368	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	CATGGAGCTGGGACTGGTGTA	0.612													4	40					0.00909568	0.00920787	1	1	0		T	136513045	T	T	136513045	4	4	187	1	0	0	0	0	0	1	0	0	4253	1233	43	5	1124	5	DBH	9	136513045	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1227246	136513045	4700386	447	93230											
SOHLH1	402381	broad.mit.edu	37	chr9	138591262	138591262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcctcacttgcatcccctgaCggtagggattctggagacct	7	11	10	13	1	2	2	1	1	1	1	4	4	4	3	4	3	1	2	4	3	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:138591262C>T	uc004cgl.2	-	1	113	c.52G>A	c.(52-54)GTC>ATC	p.V18I	KCNT1_uc011mdq.1_5'Flank|KCNT1_uc011mdr.1_5'Flank|KCNT1_uc010nbf.2_5'Flank|SOHLH1_uc010nbe.2_Missense_Mutation_p.V18I	NM_001012415	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic	18					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			breast(1)|central_nervous_system(1)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		CATCCCCTGACGGTAGGGATT	0.677													4	22					0	0	1	0	0		T	138591262	T	T	138591262	3	4	187	1	0	0	0	0	1	0	0	0	14948	536	19	1	1184	1	SOHLH1	9	138591262	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2078217	138591262	2622169	448	93231											
SNAPC4	6621	broad.mit.edu	37	chr9	139270819	139270819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctgctcacaccagccGcctccgcttccgggtgtgcc	4	8	10	19	3	1	0	1	0	0	0	3	0	3	0	7	1	4	3	7	1	0	1	rs144652680	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:139270819G>A	uc004chh.2	-	22	4408	c.4399C>T	c.(4399-4401)CGG>TGG	p.R1467W	CARD9_uc004chg.3_5'Flank|CARD9_uc011mdw.1_5'Flank|CARD9_uc011mdx.1_5'Flank|CARD9_uc010nbj.2_5'Flank	NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1467					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CACACCAGCCGCCTCCGCTTC	0.627													40	124					0	0	1	0	0		A	139270819	A	A	139270819	3	1	187	1	0	0	0	0	1	0	0	0	14862	1086	38	1	14	1	SNAPC4	9	139270819	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	679557	139270819	1942612	449	93232											
INPP5E	56623	broad.mit.edu	37	chr9	139325467	139325467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcaccgtgtatgagggcGtcctctgcttggaggtgctg	4	11	15	11	2	2	1	1	1	1	0	3	2	3	2	3	3	2	3	3	3	1	2	rs75342839	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:139325467G>A	uc004cho.2	-	8	2037	c.1652C>T	c.(1651-1653)ACG>ATG	p.T551M	INPP5E_uc010nbm.2_Missense_Mutation_p.T550M	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	551						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		GTATGAGGGCGTCCTCTGCTT	0.612													20	34					0	0	1	0	0		A	139325467	A	A	139325467	3	1	187	1	0	0	0	0	1	0	0	0	7773	1145	40	1	294	1	INPP5E	9	139325467	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	54648	139325467	1887964	450	93233											
SEC16A	9919	broad.mit.edu	37	chr9	139368831	139368831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttctggatttgacagctcCgaaaacatggctttgggtag	9	13	11	8	1	1	1	0	1	1	0	2	3	2	2	1	3	2	3	1	3	3	4	rs3812593		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:139368831C>T	uc004chx.2	-	3	3546	c.3237G>A	c.(3235-3237)TCG>TCA	p.S1079S	SEC16A_uc004chv.3_Silent_p.S469S|SEC16A_uc004chw.2_Silent_p.S1079S|SEC16A_uc010nbn.2_Silent_p.S1079S|SEC16A_uc010nbo.1_Silent_p.S1079S	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	901					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		TTGACAGCTCCGAAAACATGG	0.607													14	23					0	0	1	0	0		T	139368831	T	T	139368831	2	4	187	1	0	0	0	0	0	0	0	1	14011	639	23	1		1	SEC16A	9	139368831	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	43364	139368831	1844600	451	93234											
NOTCH1	4851	broad.mit.edu	37	chr9	139390736	139390736	+	Frame_Shift_Del	DEL	G	-	-																															gaggagtagctgtgctgcgaGgggggcgtcaggaactgggc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:139390736delG	uc004chz.2	-	34	7455	c.7455delC	c.(7453-7455)CCCfs	p.P2485fs		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	2485	Cytoplasmic (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		TGTGCTGCGAGGGGGGCGTCA	0.687			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			6	10	---	---	---	---						.	-	139390736	-	-	139390736	7	5	187	1	0	1	0	1	0	0	0	0	10566	987	35	0	216	0	NOTCH1	9	139390736	Frame_Shift_Del	DEL	G	TCGA-D7-A4YV-01A-11D-A25D-08	21905	139390736	1822695	452	93235											
NOTCH1	4851	broad.mit.edu	37	chr9	139402689	139402689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcacagcaggttaccttgtCgctgcgcagccacctcacag	8	7	11	15	2	1	0	1	0	0	0	2	0	1	0	3	2	4	5	3	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:139402689C>T	uc004chz.2	-	20	3320	c.3320G>A	c.(3319-3321)CGA>CAA	p.R1107Q	NOTCH1_uc004cia.1_Missense_Mutation_p.R337Q	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1107	Extracellular (Potential).|EGF-like 29.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GTTACCTTGTCGCTGCGCAGC	0.677			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			14	48					0	0	1	0	0		T	139402689	T	T	139402689	3	4	187	1	0	0	0	0	1	0	0	0	10566	884	31	1	4407	1	NOTCH1	9	139402689	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	11953	139402689	1810742	453	93236											
ABCA2	20	broad.mit.edu	37	chr9	139904678	139904678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggcctcgccccccgtcGtgctctcgtcgccggtcagc	3	7	12	19	7	2	0	1	0	1	0	6	1	2	0	5	2	2	1	5	2	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:139904678G>A	uc011mem.1	-	40	6465	c.6317C>T	c.(6316-6318)ACG>ATG	p.T2106M	ABCA2_uc011mel.1_Missense_Mutation_p.T2107M|ABCA2_uc004ckl.1_Missense_Mutation_p.T2037M|ABCA2_uc004ckm.1_Missense_Mutation_p.T2137M	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	2106	ABC transporter 2.				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GCCCCCCGTCGTGCTCTCGTC	0.706													8	16					0	0	1	0	0		A	139904678	A	A	139904678	3	1	187	1	0	0	0	0	1	0	0	0	32	1145	40	1	1026	1	ABCA2	9	139904678	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	501989	139904678	1308753	454	93237											
MAN1B1	11253	broad.mit.edu	37	chr9	139994162	139994162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactagtgcatctgaactatCgccagaagggcgtgattgac	11	10	11	9	2	1	4	0	3	1	1	2	4	1	4	1	1	3	1	1	1	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:139994162C>T	uc004cld.2	+	6	780	c.745C>T	c.(745-747)CGC>TGC	p.R249C	MAN1B1_uc004clc.2_Missense_Mutation_p.R150C|MAN1B1_uc011meo.1_Missense_Mutation_p.R150C|MAN1B1_uc011mep.1_Missense_Mutation_p.R249C|MAN1B1_uc010ncc.2_RNA	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	249	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		TCTGAACTATCGCCAGAAGGG	0.587													50	119					0	0	1	0	0		T	139994162	T	T	139994162	3	4	187	1	0	0	0	0	1	0	0	0	9230	884	31	1	767	1	MAN1B1	9	139994162	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	89484	139994162	1219269	455	93238											
EXD3	54932	broad.mit.edu	37	chr9	140242530	140242530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcaaactcacctcggccGccctgcggtggtcttcacca	6	7	9	19	4	3	0	2	0	1	0	4	0	3	0	5	3	2	1	5	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr9:140242530G>A	uc004cmp.2	-	17	2187	c.1991C>T	c.(1990-1992)GCG>GTG	p.A664V	C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Missense_Mutation_p.A315V|EXD3_uc004cmq.1_RNA	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3	664					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						CACCTCGGCCGCCCTGCGGTG	0.647													9	34					0	0	1	0	0		A	140242530	A	A	140242530	3	1	187	1	0	0	0	0	1	0	0	0	5307	1087	38	1	663	1	EXD3	9	140242530	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	248368	140242530	970901	456	93239											
UCN3	114131	broad.mit.edu	37	chr10	5415694	5415694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggagagatgctgatgcCggtccacttcctgctgctcc	6	9	13	13	1	0	2	0	1	0	1	3	4	3	3	4	2	4	4	4	2	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:5415694C>T	uc001ihx.1	+	2	235	c.11C>T	c.(10-12)CCG>CTG	p.P4L		NM_053049	NP_444277	Q969E3	UCN3_HUMAN	urocortin 3 preproprotein	4						extracellular region	hormone activity				0						ATGCTGATGCCGGTCCACTTC	0.602													17	79					0	0	1	0	0		T	5415694	T	T	5415694	3	4	187	1	0	0	0	0	1	0	0	0	16955	652	23	1	13	1	UCN3	10	5415694	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		5415694	130119053	457	93240											
PTPLA	9200	broad.mit.edu	37	chr10	17632370	17632370	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttgcagagatcatttaatcaTccttttctacaatcacctct	11	16	3	11	0	5	1	3	0	2	1	6	2	6	1	2	0	2	1	2	0	3	6	rs140078758		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:17632370T>A	uc001ipg.2	-	7	895	c.860A>T	c.(859-861)GAT>GTT	p.D287V		NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	287	Cytoplasmic (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						CATTTAATCATCCTTTTCTAC	0.323													25	85					0	0	1	0	0		A	17632370	A	A	17632370	3	1	187	1	0	0	0	0	1	0	0	0	12797	1435	50	5	10	5	PTPLA	10	17632370	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	12216676	17632370	117902377	458	93241											
NEBL	10529	broad.mit.edu	37	chr10	21101815	21101815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctctgtcacaggatcgtccaCgacgggagtaaagcctctcc	9	8	10	14	3	3	0	1	0	2	0	6	3	4	2	3	2	1	1	3	2	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:21101815C>T	uc001iqi.2	-	24	2798	c.2401G>A	c.(2401-2403)GTG>ATG	p.V801M	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Missense_Mutation_p.V138M	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	801	Nebulin 23.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GGATCGTCCACGACGGGAGTA	0.463													24	50					0	0	1	0	0		T	21101815	T	T	21101815	3	4	187	1	0	0	0	0	1	0	0	0	10322	536	19	1	663	1	NEBL	10	21101815	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3469445	21101815	114432932	459	93242											
RET	5979	broad.mit.edu	37	chr10	43606743	43606743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctctggtgccaactgcagcaCgctaggggtggtcacctcag	7	8	13	13	1	3	0	2	0	1	0	3	0	3	0	2	4	4	3	2	4	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:43606743C>T	uc001jal.2	+	7	1542	c.1352C>T	c.(1351-1353)ACG>ATG	p.T451M	RET_uc001jak.1_Missense_Mutation_p.T451M|RET_uc010qez.1_Missense_Mutation_p.T197M	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	451	Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	AACTGCAGCACGCTAGGGGTG	0.582		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				38	114					0	0	1	0	0		T	43606743	T	T	43606743	3	4	187	1	0	0	0	0	1	0	0	0	13260	536	19	1	1378	1	RET	10	43606743	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	22504928	43606743	91928004	460	93243											
C10orf72	196740	broad.mit.edu	37	chr10	50315810	50315810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaggcgcagcctccgccGtttggcgctgcggctgaaat	6	7	14	14	5	0	1	0	1	0	0	1	1	1	1	3	3	3	5	3	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:50315810G>A	uc001jhf.2	-	2	315	c.286C>T	c.(286-288)CGG>TGG	p.R96W	C10orf72_uc001jhh.2_Missense_Mutation_p.R96W	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	96	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						AGCCTCCGCCGTTTGGCGCTG	0.607													23	75					0	0	1	0	0		A	50315810	A	A	50315810	3	1	187	1	0	0	0	0	1	0	0	0	1618	1144	40	1	827	1	C10orf72	10	50315810	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6709067	50315810	85218937	461	93244											
OGDHL	55753	broad.mit.edu	37	chr10	50955158	50955158	+	Missense_Mutation	SNP	A	G	G	1	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	gtccactgcctccaggtgggAggggttggcaaccagcgaca	8	6	15	12	1	0	0	0	0	0	0	2	2	2	1	4	5	3	2	4	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:50955158A>G	uc001jie.2	-	9	1226	c.1084T>C	c.(1084-1086)TCC>CCC	p.S362P	OGDHL_uc009xog.2_Missense_Mutation_p.S389P|OGDHL_uc010qgt.1_Missense_Mutation_p.S305P|OGDHL_uc010qgu.1_Missense_Mutation_p.S153P|OGDHL_uc009xoh.2_Missense_Mutation_p.S153P	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	362					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						TCCAGGTGGGAGGGGTTGGCA	0.607													23	84					0	0	1	0	0		G	50955158	G	G	50955158	3	3	187	1	0	0	0	0	1	0	0	0	10859	304	11	3	2008	3	OGDHL	10	50955158	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	639348	50955158	84579589	462	93245											
OGDHL	55753	broad.mit.edu	37	chr10	50955201	50955201	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgttccggttggtgacGcggttgatcctctcatggta	5	14	14	8	3	1	3	1	3	1	0	4	3	3	3	2	4	0	4	2	4	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:50955201G>A	uc001jie.2	-	9	1183	c.1041C>T	c.(1039-1041)CGC>CGT	p.R347R	OGDHL_uc009xog.2_Silent_p.R374R|OGDHL_uc010qgt.1_Silent_p.R290R|OGDHL_uc010qgu.1_Silent_p.R138R|OGDHL_uc009xoh.2_Silent_p.R138R	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	347					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GGTTGGTGACGCGGTTGATCC	0.587													22	76					0	0	1	0	0		A	50955201	A	A	50955201	2	1	187	1	0	0	0	0	0	0	0	1	10859	1074	38	1		1	OGDHL	10	50955201	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	43	50955201	84579546	463	93246											
PCDH15	65217	broad.mit.edu	37	chr10	55581906	55581906	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgatagctgtgtcatagaGgacttaattttctcggcagg	9	14	12	6	1	2	2	1	1	1	1	3	3	2	3	0	3	1	3	0	3	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:55581906G>T	uc001jju.1	-	33	5975	c.5580C>A	c.(5578-5580)TCC>TCA	p.S1860S	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.S1857S|PCDH15_uc010qhw.1_Silent_p.S1820S|PCDH15_uc010qhx.1_Silent_p.S1791S|PCDH15_uc010qhy.1_Silent_p.S1867S|PCDH15_uc010qhz.1_Silent_p.S1862S|PCDH15_uc010qia.1_Silent_p.S1840S|PCDH15_uc010qib.1_Silent_p.S1837S	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1860	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				GTGTCATAGAGGACTTAATTT	0.388										HNSCC(58;0.16)			33	148					1.69901e-12	1.82931e-12	1	1	0		T	55581906	T	T	55581906	2	4	187	1	0	0	0	0	0	0	0	1	11530	987	35	5		5	PCDH15	10	55581906	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4626705	55581906	79952841	464	93247											
ANK3	288	broad.mit.edu	37	chr10	61958143	61958143	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatgatccaaaaggaacgcGgccacatcctcatgcccctc	11	6	7	17	2	1	1	1	1	0	0	4	2	3	2	6	2	2	0	6	2	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:61958143G>A	uc001jky.2	-	14	1836	c.1644C>T	c.(1642-1644)GCC>GCT	p.A548A	ANK3_uc010qih.1_Silent_p.A531A|ANK3_uc001jkz.3_Silent_p.A542A|ANK3_uc001jlb.1_Silent_p.A77A|ANK3_uc001jlc.1_Silent_p.A209A	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	548	ANK 15.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						AAAGGAACGCGGCCACATCCT	0.498													16	85					0	0	1	0	0		A	61958143	A	A	61958143	2	1	187	1	0	0	0	0	0	0	0	1	622	1103	39	1		1	ANK3	10	61958143	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6376237	61958143	73576604	465	93248											
DNA2	1763	broad.mit.edu	37	chr10	70202690	70202690	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacatttccgaagcaggcaTtagccagatattttggtgat	11	14	9	7	1	0	2	0	1	0	1	1	3	1	2	2	2	3	2	2	2	4	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:70202690T>C	uc001jof.2	-	9	1657	c.1657A>G	c.(1657-1659)ATG>GTG	p.M553V	DNA2_uc001jog.1_Missense_Mutation_p.M467V|DNA2_uc001joh.1_RNA	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog	467					base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						GAAGCAGGCATTAGCCAGATA	0.368													4	24					0	0	1	0	0		C	70202690	C	C	70202690	3	2	187	1	0	0	0	0	1	0	0	0	4602	1493	52	3	1835	3	DNA2	10	70202690	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	8244547	70202690	65332057	466	93249											
TET1	80312	broad.mit.edu	37	chr10	70332938	70332938	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacgagtagaatctcttaaGttatctgattcttacctgga	11	15	7	8	1	4	2	1	1	3	1	5	4	4	3	1	1	1	2	1	1	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:70332938G>T	uc001jok.3	+	2	1348	c.843G>T	c.(841-843)AAG>AAT	p.K281N		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	281					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AATCTCTTAAGTTATCTGATT	0.428													20	82					1.37522e-17	1.50963e-17	1	1	0		T	70332938	T	T	70332938	3	4	187	1	0	0	0	0	1	0	0	0	15794	1020	36	5	845	5	TET1	10	70332938	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	130248	70332938	65201809	467	93250											
TET1	80312	broad.mit.edu	37	chr10	70450669	70450669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttattcgctgatgccatccGctcctcacccagtgaaagag	9	10	8	14	2	1	3	1	2	0	1	4	3	3	3	4	0	1	2	4	0	2	2	rs146039331		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:70450669G>A	uc001jok.3	+	12	6014	c.5509G>A	c.(5509-5511)GCT>ACT	p.A1837T		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1837					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GATGCCATCCGCTCCTCACCC	0.483													39	85					0	0	1	0	0		A	70450669	A	A	70450669	3	1	187	1	0	0	0	0	1	0	0	0	15794	1087	38	1	5551	1	TET1	10	70450669	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	117731	70450669	65084078	468	93251											
CDH23	64072	broad.mit.edu	37	chr10	73405660	73405660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcatctccccgacctccGtccaggggaaggcggacatt	8	8	10	15	3	3	0	2	0	1	0	6	3	5	2	5	4	0	0	5	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:73405660G>A	uc001jrx.3	+	12	1590	c.1213G>A	c.(1213-1215)GTC>ATC	p.V405I	CDH23_uc001jrw.3_Missense_Mutation_p.V405I|CDH23_uc001jry.2_Missense_Mutation_p.V21I|CDH23_uc001jrz.2_Missense_Mutation_p.V21I	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	405	Cadherin 4.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCCGACCTCCGTCCAGGGGAA	0.567													13	27					0	0	1	0	0		A	73405660	A	A	73405660	3	1	187	1	0	0	0	0	1	0	0	0	3111	1145	40	1	1342	1	CDH23	10	73405660	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2954991	73405660	62129087	469	93252											
FUT11	170384	broad.mit.edu	37	chr10	75535344	75535344	+	Frame_Shift_Del	DEL	G	-	-																															tattggcaaggtctggaccaGggggaagctctcactgccat																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:75535344delG	uc001jva.2	+	3	1423	c.1380delG	c.(1378-1380)CAGfs	p.Q460fs	FUT11_uc001juz.1_3'UTR	NM_173540	NP_775811	Q495W5	FUT11_HUMAN	fucosyltransferase 11 (alpha (1,3)	460	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity				0	Prostate(51;0.0112)					GTCTGGACCAGGGGGAAGCTC	0.433													29	63	---	---	---	---						.	-	75535344	-	-	75535344	7	5	187	1	0	1	0	1	0	0	0	0	6117	991	35	0	1390	0	FUT11	10	75535344	Frame_Shift_Del	DEL	G	TCGA-D7-A4YV-01A-11D-A25D-08	2129684	75535344	59999403	470	93253											
KCNMA1	3778	broad.mit.edu	37	chr10	78713616	78713616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaacatcccagtagagtcGtacttcttcacattggagtc	11	12	8	10	1	2	2	1	1	1	1	5	3	3	3	1	1	2	2	1	1	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:78713616G>A	uc001jxn.2	-	21	2604	c.2427C>T	c.(2425-2427)TAC>TAT	p.Y809Y	KCNMA1_uc001jxj.2_Silent_p.Y755Y|KCNMA1_uc001jxk.1_Silent_p.Y427Y|KCNMA1_uc009xrt.1_Silent_p.Y600Y|KCNMA1_uc001jxl.1_Silent_p.Y434Y|KCNMA1_uc001jxo.2_Silent_p.Y751Y|KCNMA1_uc001jxm.2_Silent_p.Y751Y|KCNMA1_uc001jxq.2_Silent_p.Y754Y	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	809	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CAGTAGAGTCGTACTTCTTCA	0.488													22	52					0	0	1	0	0		A	78713616	A	A	78713616	2	1	187	1	0	0	0	0	0	0	0	1	8089	1140	40	1		1	KCNMA1	10	78713616	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3178272	78713616	56821131	471	93254											
FAM35A	54537	broad.mit.edu	37	chr10	88911847	88911847	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atacagaatttctcagtataAttacctccagccaggttgct	12	13	6	10	0	1	1	1	0	1	1	3	1	2	1	3	1	4	3	3	1	5	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:88911847A>T	uc001kei.3	+	3	850	c.736A>T	c.(736-738)ATT>TTT	p.I246F		NM_019054	NP_061927	Q86V20	FA35A_HUMAN	hypothetical protein LOC54537	246										ovary(2)|skin(2)	4						TCTCAGTATAATTACCTCCAG	0.388													14	38					0	0	1	0	0		T	88911847	T	T	88911847	3	4	187	1	0	0	0	0	1	0	0	0	5567	101	4	5	738	5	FAM35A	10	88911847	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	10198231	88911847	46622900	472	93255											
PCGF5	84333	broad.mit.edu	37	chr10	93038067	93038067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcgaccaagaattgatttCggttagaccaaggggcccag	12	9	11	9	2	0	3	0	1	0	2	2	4	0	3	3	3	0	1	3	3	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:93038067C>T	uc001khh.2	+	10	1012	c.765C>T	c.(763-765)TTC>TTT	p.F255F	PCGF5_uc010qnk.1_Silent_p.F255F|PCGF5_uc001khi.2_Silent_p.F255F	NM_032373	NP_115749	Q86SE9	PCGF5_HUMAN	polycomb group ring finger 5	255					regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|PcG protein complex	zinc ion binding			lung(1)	1						GAATTGATTTCGGTTAGACCA	0.388													13	42					0	0	1	0	0		T	93038067	T	T	93038067	2	4	187	1	0	0	0	0	0	0	0	1	11596	883	31	1		1	PCGF5	10	93038067	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4126220	93038067	42496680	473	93256											
ENTPD1	953	broad.mit.edu	37	chr10	97605164	97605164	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaccaataatcaggaaacCtttggagctttggaccttgg	13	10	10	8	0	1	0	1	0	0	0	1	4	1	3	3	4	3	1	3	4	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:97605164C>A	uc001klh.3	+	6	948	c.624C>A	c.(622-624)ACC>ACA	p.T208T	ENTPD1_uc001kle.1_Silent_p.T215T|ENTPD1_uc001kli.3_Silent_p.T215T|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Silent_p.T220T|ENTPD1_uc010qok.1_Silent_p.T100T|ENTPD1_uc010qol.1_Silent_p.T100T|ENTPD1_uc010qom.1_Silent_p.T208T|ENTPD1_uc010qon.1_Silent_p.T70T|ENTPD1_uc009xva.2_Silent_p.T70T|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	208	Extracellular (Potential).			T -> TGET (in Ref. 8; AA sequence).	cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		ATCAGGAAACCTTTGGAGCTT	0.463													63	128					1.08241e-25	1.19682e-25	1	1	0		A	97605164	A	A	97605164	2	1	187	1	0	0	0	0	0	0	0	1	5146	668	24	5		5	ENTPD1	10	97605164	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4567097	97605164	37929583	474	93257											
DNTT	1791	broad.mit.edu	37	chr10	98079060	98079060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaccaacccaggccccccGaagactccaccaattgctgt	11	5	7	18	1	0	1	0	0	0	1	1	2	1	1	7	1	3	2	7	1	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:98079060G>A	uc001kmf.2	+	3	590	c.420G>A	c.(418-420)CCG>CCA	p.P140P	DNTT_uc001kmg.2_Silent_p.P140P	NM_004088	NP_004079	P04053	TDT_HUMAN	terminal deoxynucleotidyltransferase isoform 1	140					DNA modification	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(1)	1		Colorectal(252;0.0815)|all_hematologic(284;0.224)		Epithelial(162;7.97e-08)|all cancers(201;1.89e-06)		CAGGCCCCCCGAAGACTCCAC	0.393													32	110					0	0	1	0	0		A	98079060	A	A	98079060	2	1	187	1	0	0	0	0	0	0	0	1	4686	1045	37	1		1	DNTT	10	98079060	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	473896	98079060	37455687	475	93258											
HPS6	79803	broad.mit.edu	37	chr10	103825418	103825418	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctagtcgcgtcgcgagggCccggcgcggagctagagcgg	5	5	19	12	8	0	1	0	0	0	1	2	3	0	2	1	4	3	2	1	4	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:103825418C>G	uc001kuj.2	+	1	272	c.187C>G	c.(187-189)CCC>GCC	p.P63A		NM_024747	NP_079023	Q86YV9	HPS6_HUMAN	Hermansky-Pudlak syndrome-6	63						cytosol|early endosome membrane|endoplasmic reticulum|microsome					0		Colorectal(252;0.122)		Epithelial(162;5.93e-08)|all cancers(201;1.03e-06)		GTCGCGAGGGCCCGGCGCGGA	0.761									Hermansky-Pudlak_syndrome				4	7					0	0	1	0	0		G	103825418	G	G	103825418	3	3	187	1	0	0	0	0	1	0	0	0	7359	739	26	5	189	5	HPS6	10	103825418	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5746358	103825418	31709329	476	93259											
NFKB2	4791	broad.mit.edu	37	chr10	104161261	104161261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catggagccacccctgacccCgcccagcccagcaggtgaga	9	3	11	18	1	0	2	0	2	0	1	0	4	0	3	7	2	3	1	7	2	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:104161261C>T	uc001kvb.2	+	20	2544	c.2279C>T	c.(2278-2280)CCG>CTG	p.P760L	NFKB2_uc001kva.2_Missense_Mutation_p.P760L|NFKB2_uc001kvd.2_Missense_Mutation_p.P760L|NFKB2_uc009xxc.2_Missense_Mutation_p.P760L	NM_001077494	NP_001070962	Q00653	NFKB2_HUMAN	nuclear factor of kappa light polypeptide gene	760			Missing (in truncated form p80HT).|Missing (in truncated form LB40).|Missing (in truncated form EB308).		innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	Bcl3/NF-kappaB2 complex|cytosol|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(3)	3		Colorectal(252;0.00957)		Epithelial(162;3.4e-08)|all cancers(201;6.41e-07)		CCCCTGACCCCGCCCAGCCCA	0.602			T	IGH@	B-NHL								10	40					0	0	1	0	0		T	104161261	T	T	104161261	3	4	187	1	0	0	0	0	1	0	0	0	10395	652	23	1	2353	1	NFKB2	10	104161261	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	335843	104161261	31373486	477	93260											
TMEM180	79847	broad.mit.edu	37	chr10	104231116	104231116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcagctggcacgccatcGgaacttcctgtggttcgtga	6	9	13	13	4	0	1	0	1	0	0	3	2	1	2	3	4	2	4	3	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:104231116G>A	uc001kvt.2	+	6	1010	c.791G>A	c.(790-792)CGG>CAG	p.R264Q	TMEM180_uc001kvs.2_Missense_Mutation_p.R113Q|TMEM180_uc010qql.1_5'UTR|TMEM180_uc010qqm.1_Missense_Mutation_p.R113Q|TMEM180_uc001kvu.2_Missense_Mutation_p.R264Q	NM_024789	NP_079065	Q14CX5	TM180_HUMAN	transmembrane protein 180	264						integral to membrane				ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GCACGCCATCGGAACTTCCTG	0.622													19	71					0	0	1	0	0		A	104231116	A	A	104231116	3	1	187	1	0	0	0	0	1	0	0	0	16124	1116	39	1	805	1	TMEM180	10	104231116	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	69855	104231116	31303631	478	93261											
DUSP5	1847	broad.mit.edu	37	chr10	112258088	112258088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctacgtgctgcccgacgaggCggcgcgcgcgcggctcctgc	3	5	16	17	9	0	0	0	0	0	0	1	2	1	0	2	3	4	2	2	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:112258088C>T	uc001kzd.2	+	1	464	c.209C>T	c.(208-210)GCG>GTG	p.A70V		NM_004419	NP_004410	Q16690	DUS5_HUMAN	dual specificity phosphatase 5	70	Nuclear localization signal (Potential).|Rhodanese.				endoderm formation|inactivation of MAPK activity	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1		Breast(234;0.0848)		Epithelial(162;0.000276)|all cancers(201;0.00465)|BRCA - Breast invasive adenocarcinoma(275;0.12)		CCCGACGAGGCGGCGCGCGCG	0.647													5	9					0	0	1	0	0		T	112258088	T	T	112258088	3	4	187	1	0	0	0	0	1	0	0	0	4834	768	27	1	211	1	DUSP5	10	112258088	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	8026972	112258088	23276659	479	93262											
VWA2	340706	broad.mit.edu	37	chr10	116049200	116049200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatccacgtggcagcttacGccgacctgcggtaccaccag	8	7	11	15	4	0	1	0	1	0	0	1	2	1	1	5	2	4	3	5	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:116049200G>A	uc001lbl.1	+	12	2395	c.2074G>A	c.(2074-2076)GCC>ACC	p.A692T	VWA2_uc001lbk.1_Missense_Mutation_p.A692T|VWA2_uc009xyf.1_Missense_Mutation_p.A388T	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	692	VWFA 3.					extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		GGCAGCTTACGCCGACCTGCG	0.647													19	68					0	0	1	0	0		A	116049200	A	A	116049200	3	1	187	1	0	0	0	0	1	0	0	0	17265	1087	38	1	2116	1	VWA2	10	116049200	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3791112	116049200	19485547	480	93263											
HTRA1	5654	broad.mit.edu	37	chr10	124266390	124266390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggactacatccagaccgacGccatcatcaacgtgagcctc	11	7	8	15	3	2	2	2	1	0	1	4	4	3	3	4	1	3	0	4	1	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:124266390G>A	uc001lgj.2	+	4	1089	c.961G>A	c.(961-963)GCC>ACC	p.A321T		NM_002775	NP_002766	Q92743	HTRA1_HUMAN	HtrA serine peptidase 1 precursor	321	Serine protease.				proteolysis|regulation of cell growth	extracellular space	insulin-like growth factor binding|serine-type endopeptidase activity				0		all_neural(114;0.0765)|Lung NSC(174;0.133)|all_lung(145;0.163)|Breast(234;0.238)				CCAGACCGACGCCATCATCAA	0.592													10	33					0	0	1	0	0		A	124266390	A	A	124266390	3	1	187	1	0	0	0	0	1	0	0	0	7469	1087	38	1	975	1	HTRA1	10	124266390	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8217190	124266390	11268357	481	93264											
HMX3	340784	broad.mit.edu	37	chr10	124896863	124896863	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgccgcaagaagaagacGcgcacagtcttctcgcgcag	10	5	13	13	6	2	3	0	0	2	3	3	3	2	3	1	0	1	3	1	0	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:124896863G>A	uc010quc.1	+	2	690	c.690G>A	c.(688-690)ACG>ACA	p.T230T		NM_001105574	NP_001099044	A6NHT5	HMX3_HUMAN	H6 family homeobox 3	230	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.122)|COAD - Colon adenocarcinoma(40;0.141)		AGAAGAAGACGCGCACAGTCT	0.667													5	14					0	0	1	0	0		A	124896863	A	A	124896863	2	1	187	1	0	0	0	0	0	0	0	1	7264	1074	38	1		1	HMX3	10	124896863	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	630473	124896863	10637884	482	93265											
HMX3	340784	broad.mit.edu	37	chr10	124896921	124896921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccaccttcgacatgaagCgctatctgagcagctcggag	10	8	11	12	3	1	2	0	2	1	0	4	4	2	3	2	1	3	3	2	1	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:124896921C>T	uc010quc.1	+	2	748	c.748C>T	c.(748-750)CGC>TGC	p.R250C		NM_001105574	NP_001099044	A6NHT5	HMX3_HUMAN	H6 family homeobox 3	250	Homeobox.				cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.122)|COAD - Colon adenocarcinoma(40;0.141)		CGACATGAAGCGCTATCTGAG	0.612													9	36					0	0	1	0	0		T	124896921	T	T	124896921	3	4	187	1	0	0	0	0	1	0	0	0	7264	768	27	1	754	1	HMX3	10	124896921	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	58	124896921	10637826	483	93266											
MMP21	118856	broad.mit.edu	37	chr10	127462428	127462428	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccagcttgatgtcgacCgcggccccgggggcggccag	6	4	16	15	5	0	1	0	1	0	0	1	2	0	1	5	4	2	1	5	4	1	1	rs150959910		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:127462428C>T	uc001liu.2	-	2	669	c.669G>A	c.(667-669)GCG>GCA	p.A223A		NM_147191	NP_671724	Q8N119	MMP21_HUMAN	matrix metalloproteinase 21 preproprotein	223					proteolysis	extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TGATGTCGACCGCGGCCCCGG	0.731													22	61					0	0	1	0	0		T	127462428	T	T	127462428	2	4	187	1	0	0	0	0	0	0	0	1	9678	639	23	1		1	MMP21	10	127462428	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2565507	127462428	8072319	484	93267											
MKI67	4288	broad.mit.edu	37	chr10	129913669	129913669	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcatagagaggaaagctggCgcccacagccttgctgggag	10	6	14	11	1	1	1	1	0	0	1	1	4	1	3	2	3	3	2	2	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:129913669C>T	uc001lke.2	-	7	1198	c.1003G>A	c.(1003-1005)GCC>ACC	p.A335T	MKI67_uc001lkf.2_Intron|MKI67_uc009yav.1_Intron|MKI67_uc009yaw.1_Intron	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	335					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GGAAAGCTGGCGCCCACAGCC	0.493													27	75					0	0	1	0	0		T	129913669	T	T	129913669	3	4	187	1	0	0	0	0	1	0	0	0	9616	768	27	1	8803	1	MKI67	10	129913669	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2451241	129913669	5621078	485	93268											
KNDC1	85442	broad.mit.edu	37	chr10	134999993	134999993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgggttccctgtgcaggcCgcagcacggacaggggccct	6	5	16	14	3	0	0	0	0	0	0	1	2	1	1	3	5	2	4	3	5	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr10:134999993C>T	uc001llz.1	+	6	1142	c.1141C>T	c.(1141-1143)CGC>TGC	p.R381C	KNDC1_uc001lma.1_Missense_Mutation_p.R316C	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	381					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CTGTGCAGGCCGCAGCACGGA	0.672													6	22					0	0	1	0	0		T	134999993	T	T	134999993	3	4	187	1	0	0	0	0	1	0	0	0	8442	652	23	1	1163	1	KNDC1	10	134999993	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5086324	134999993	534754	486	93269											
ANO9	338440	broad.mit.edu	37	chr11	420496	420496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcgcggcaccaggcgccGctgcaaccagaccatcttga	8	6	11	16	4	1	2	0	1	1	1	1	2	1	2	4	2	3	3	4	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:420496G>A	uc001lpi.2	-	19	1838	c.1753C>T	c.(1753-1755)CGG>TGG	p.R585W	ANO9_uc001lph.2_Missense_Mutation_p.R278W|ANO9_uc010qvv.1_Missense_Mutation_p.R441W	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	585	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						ACCAGGCGCCGCTGCAACCAG	0.701													7	13					0	0	1	0	0		A	420496	A	A	420496	3	1	187	1	0	0	0	0	1	0	0	0	704	1086	38	1	615	1	ANO9	11	420496	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		420496	134586020	487	93270											
DEAF1	10522	broad.mit.edu	37	chr11	688398	688398	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgctcccatctgtgtggacGacaatcagtgtcgctttttc	7	14	9	11	2	2	0	1	0	1	0	5	2	3	1	1	1	1	2	1	1	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:688398G>A	uc001lqq.1	-	3	1143	c.450C>T	c.(448-450)GTC>GTT	p.V150V	DEAF1_uc009ycf.1_5'Flank	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	150					embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		CTGTGTGGACGACAATCAGTG	0.622													16	50					0	0	1	0	0		A	688398	A	A	688398	2	1	187	1	0	0	0	0	0	0	0	1	4383	1045	37	1		1	DEAF1	11	688398	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	267902	688398	134318118	488	93271											
MUC2	4583	broad.mit.edu	37	chr11	1094719	1094719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttcagcccccacccccagcaCtgtgcagacgaccaccacca	10	4	6	21	1	1	1	1	0	0	1	1	2	1	1	7	0	3	2	7	0	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:1094719C>T	uc001lsx.1	+	34	12920	c.12893C>T	c.(12892-12894)ACT>ATT	p.T4298I		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4298						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ACCCCCAGCACTGTGCAGACG	0.637													8	88					0	0	1	0	0		T	1094719	T	T	1094719	3	4	187	1	0	0	0	0	1	0	0	0	9993	565	20	4	5921	4	MUC2	11	1094719	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	406321	1094719	133911797	489	93272											
MUC5B	727897	broad.mit.edu	37	chr11	1253735	1253735	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcccaacagtgccttctcGcgctgccactccatcatcaa	9	9	6	17	2	3	0	2	0	1	0	6	1	5	0	4	0	3	1	4	0	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:1253735G>A	uc009ycr.1	+	32	4002	c.3876G>A	c.(3874-3876)TCG>TCA	p.S1292S	MUC5B_uc009yct.1_Silent_p.S633S|MUC5B_uc001ltb.2_Silent_p.S636S|MUC5B_uc001lta.2_Silent_p.S301S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	633	VWFD 2.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GTGCCTTCTCGCGCTGCCACT	0.672													8	9					0	0	1	0	0		A	1253735	A	A	1253735	2	1	187	1	0	0	0	0	0	0	0	1	9997	1074	38	1		1	MUC5B	11	1253735	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	159016	1253735	133752781	490	93273											
MUC5B	727897	broad.mit.edu	37	chr11	1268790	1268790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagcagccccacatcGgcccccataaccacggtggt	8	5	9	19	2	0	0	0	0	0	0	1	0	0	0	6	3	4	1	6	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:1268790G>A	uc009ycr.1	+	50	12390	c.12264G>A	c.(12262-12264)TCG>TCA	p.S4088S	MUC5B_uc001ltb.2_Silent_p.S3563S	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3560	7 X Cys-rich subdomain repeats.|Thr-rich.|HAT 2.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCCCCACATCGGCCCCCATAA	0.701													16	60					0	0	1	0	0		A	1268790	A	A	1268790	2	1	187	1	0	0	0	0	0	0	0	1	9997	1103	39	1		1	MUC5B	11	1268790	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	15055	1268790	133737726	491	93274											
KRTAP5-1	387264	broad.mit.edu	37	chr11	1605918	1605918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggatcccccacaagaacCgcagccccccttgcagcctc	8	6	7	20	1	0	1	0	0	0	1	2	2	1	2	7	1	4	2	7	1	2	2	rs145180041		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:1605918C>T	uc001ltu.1	-	1	596	c.562G>A	c.(562-564)GGT>AGT	p.G188S	LOC338651_uc009ycx.1_Intron|LOC338651_uc001ltt.1_Intron	NM_001005922	NP_001005922	Q6L8H4	KRA51_HUMAN	keratin associated protein 5-1	188	8 X 4 AA repeats of C-C-X-P.					keratin filament					0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CCACAAGAACCGCAGCCCCCC	0.677													15	41					0	0	1	0	0		T	1605918	T	T	1605918	3	4	187	1	0	0	0	0	1	0	0	0	8574	652	23	1	278	1	KRTAP5-1	11	1605918	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	337128	1605918	133400598	492	93275											
OR56A5	390084	broad.mit.edu	37	chr11	5989378	5989378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggccatgatcatgaatgtgCaggactccatagtcagaaaa	15	8	10	8	0	2	3	2	2	0	1	3	4	3	4	2	2	1	1	2	2	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:5989378C>T	uc010qzu.1	-	1	347	c.347G>A	c.(346-348)TGC>TAC	p.C116Y		NM_001146033	NP_001139505	P0C7T3	O56A5_HUMAN	olfactory receptor, family 56, subfamily A,	116	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	olfactory receptor activity				0						CATGAATGTGCAGGACTCCAT	0.493													6	31					0	0	1	0	0		T	5989378	T	T	5989378	3	4	187	1	0	0	0	0	1	0	0	0	11155	710	25	2	596	2	OR56A5	11	5989378	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4383460	5989378	129017138	493	93276											
FAM160A2	84067	broad.mit.edu	37	chr11	6239210	6239210	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcaggggtaggccgtcGgccagggctggaggcggggg	4	5	22	10	3	1	0	0	0	1	0	2	1	1	1	2	9	1	3	2	9	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:6239210G>A	uc001mcl.3	-	9	1965	c.1606C>T	c.(1606-1608)CGA>TGA	p.R536*	FAM160A2_uc001mck.3_Nonsense_Mutation_p.R550*|FAM160A2_uc001mcm.2_Nonsense_Mutation_p.R536*	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	536					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						GTAGGCCGTCGGCCAGGGCTG	0.657													11	50					0	0	1	0	0		A	6239210	A	A	6239210	4	1	187	1	0	0	0	0	0	1	0	0	5480	1124	39	1	1328	1	FAM160A2	11	6239210	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	249832	6239210	128767306	494	93277											
CNGA4	1262	broad.mit.edu	37	chr11	6261463	6261463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaaccgctttctccgcGcgccccgcctcttcgaggcc	3	8	11	19	6	2	1	0	1	2	0	4	2	2	1	6	2	1	2	6	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:6261463G>A	uc001mco.2	+	4	546	c.439G>A	c.(439-441)GCG>ACG	p.A147T	CNGA4_uc010raa.1_Intron|CNGA4_uc001mcn.2_Missense_Mutation_p.A107T	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	147	Extracellular (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CTTTCTCCGCGCGCCCCGCCT	0.587													59	155					0	0	1	0	0		A	6261463	A	A	6261463	3	1	187	1	0	0	0	0	1	0	0	0	3602	1087	38	1	453	1	CNGA4	11	6261463	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	22253	6261463	128745053	495	93278											
RRP8	23378	broad.mit.edu	37	chr11	6622702	6622702	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggctgaaacttgttcttAcatcttctcttgttcttttg	5	20	8	8	0	4	1	0	1	4	0	5	1	4	1	0	2	2	3	0	2	2	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:6622702A>G	uc001med.2	-	3	673	c.594T>C	c.(592-594)TGT>TGC	p.C198C	ILK_uc001mee.2_5'Flank|ILK_uc001mef.2_5'Flank|ILK_uc010rap.1_5'Flank|ILK_uc010raq.1_5'Flank|ILK_uc001meg.2_5'Flank|ILK_uc001meh.2_5'Flank	NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	198					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						ACTTGTTCTTACATCTTCTCT	0.552													28	78					0	0	1	0	0		G	6622702	G	G	6622702	2	3	187	1	0	0	0	0	0	0	0	1	13715	389	14	3		3	RRP8	11	6622702	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	361239	6622702	128383814	496	93279											
DCHS1	8642	broad.mit.edu	37	chr11	6651257	6651257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtgcagccggaagtggcCgtccccgccagatgccagcc	7	5	14	15	3	0	2	0	1	0	1	1	3	1	3	7	2	4	1	7	2	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:6651257C>T	uc001mem.1	-	10	5178	c.4768G>A	c.(4768-4770)GGC>AGC	p.G1590S		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1590	Cadherin 15.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CGGAAGTGGCCGTCCCCGCCA	0.682													16	29					0	0	1	0	0		T	6651257	T	T	6651257	3	4	187	1	0	0	0	0	1	0	0	0	4290	652	23	1	5176	1	DCHS1	11	6651257	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	28555	6651257	128355259	497	93280											
OR2D2	120776	broad.mit.edu	37	chr11	6913341	6913341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcatgatgttagggtaacGcagaggattgcagattgcaa	12	10	14	5	1	1	3	1	1	0	2	1	4	1	4	0	3	3	5	0	3	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:6913341G>A	uc010rau.1	-	1	391	c.391C>T	c.(391-393)CGT>TGT	p.R131C		NM_003700	NP_003691	Q9H210	OR2D2_HUMAN	olfactory receptor, family 2, subfamily D,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.68e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TTAGGGTAACGCAGAGGATTG	0.498													18	63					0	0	1	0	0		A	6913341	A	A	6913341	3	1	187	1	0	0	0	0	1	0	0	0	11013	1087	38	1	538	1	OR2D2	11	6913341	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	262084	6913341	128093175	498	93281											
MICAL2	9645	broad.mit.edu	37	chr11	12225871	12225871	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctgggagccaaagtggtCgtggtggagaagagggactc	10	7	17	7	1	0	2	0	0	0	2	2	5	0	4	2	5	2	0	2	5	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:12225871C>T	uc001mjz.2	+	4	627	c.339C>T	c.(337-339)GTC>GTT	p.V113V	MICAL2_uc010rch.1_Silent_p.V113V|MICAL2_uc001mjy.2_Silent_p.V113V|MICAL2_uc001mka.2_Silent_p.V113V|MICAL2_uc010rci.1_Silent_p.V113V|MICAL2_uc001mkb.2_Silent_p.V113V|MICAL2_uc001mkc.2_Silent_p.V113V	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	113	FAD (Potential).					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		CCAAAGTGGTCGTGGTGGAGA	0.567													26	55					0	0	1	0	0		T	12225871	T	T	12225871	2	4	187	1	0	0	0	0	0	0	0	1	9588	871	31	1		1	MICAL2	11	12225871	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5312530	12225871	122780645	499	93282											
MICAL2	9645	broad.mit.edu	37	chr11	12264287	12264287	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aggagaaggcggctcaccttGcctccatgtttggacacggg	8	8	14	11	2	1	1	1	0	0	1	2	3	2	2	3	5	1	2	3	5	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:12264287G>A	uc001mjz.2	+	20	2914	c.2626G>A	c.(2626-2628)GCC>ACC	p.A876T	MICAL2_uc010rch.1_Intron|MICAL2_uc001mka.2_Missense_Mutation_p.A876T|MICAL2_uc010rci.1_Missense_Mutation_p.A876T|MICAL2_uc001mkb.2_Intron|MICAL2_uc001mkc.2_Intron|MICAL2_uc001mkd.2_Intron|MICAL2_uc010rcj.1_Intron|MICAL2_uc001mkf.2_RNA	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	876						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		GGCTCACCTTGCCTCCATGTT	0.512													23	62					0	0	1	0	0		A	12264287	A	A	12264287	3	1	187	1	0	0	0	0	1	0	0	0	9588	1319	46	2	2696	2	MICAL2	11	12264287	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	38416	12264287	122742229	500	93283											
FAR1	84188	broad.mit.edu	37	chr11	13749177	13749177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttgggaactaagaagtaCgtattgaatgaagaaatgtc	15	11	11	4	1	0	4	0	2	0	2	1	5	0	5	0	1	3	3	0	1	8	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:13749177C>T	uc001mld.2	+	11	1487	c.1332C>T	c.(1330-1332)TAC>TAT	p.Y444Y		NM_032228	NP_115604	Q8WVX9	FACR1_HUMAN	fatty acyl CoA reductase 1	444					ether lipid biosynthetic process	integral to membrane|peroxisomal matrix|peroxisomal membrane	protein binding			ovary(1)|skin(1)	2						CTAAGAAGTACGTATTGAATG	0.373													6	98					0	0	1	0	0		T	13749177	T	T	13749177	2	4	187	1	0	0	0	0	0	0	0	1	5688	547	19	1		1	FAR1	11	13749177	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1484890	13749177	121257339	501	93284											
NAV2	89797	broad.mit.edu	37	chr11	20078176	20078176	+	Splice_Site	SNP	T	C	C	0	1	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	cacgcaaggtatgagttaggTgagtaagcagtcaaaattct	14	10	11	6	1	2	2	1	2	1	0	2	2	2	2	0	2	1	5	0	2	6	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:20078176T>C	uc010rdm.1	+	21	5360	c.4999_splice	c.e21+2	p.V1667_splice	NAV2_uc001mpp.2_Intron|NAV2_uc001mpr.3_Intron|NAV2_uc001mpt.2_Intron|NAV2_uc009yhx.2_Intron|NAV2_uc009yhy.1_Intron|NAV2_uc009yhz.2_Intron|NAV2_uc001mpu.2_Intron	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2							nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						ATGAGTTAGGTGAGTAAGCAG	0.448													14	30					0	0	1	0	0		C	20078176	C	C	20078176	5	2	187	1	0	0	0	0	0	0	1	0	10202	1711	59	3		3	NAV2	11	20078176	Splice_Site	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	6328999	20078176	114928340	502	93285											
TCP11L1	55346	broad.mit.edu	37	chr11	33087384	33087384	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcattacagacagttttAatggaccagtctcgcttcca	11	14	6	10	1	2	1	1	0	1	1	4	2	3	2	2	1	1	2	2	1	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:33087384A>G	uc001mud.2	+	8	1381	c.981A>G	c.(979-981)TTA>TTG	p.L327L	TCP11L1_uc009yju.2_Silent_p.L142L|TCP11L1_uc010rei.1_Silent_p.L327L|TCP11L1_uc001mue.2_Silent_p.L327L|TCP11L1_uc001muf.1_RNA	NM_018393	NP_060863	Q9NUJ3	T11L1_HUMAN	t-complex 11 (mouse) like 1	327											0						AGACAGTTTTAATGGACCAGT	0.592											OREG0020866	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	58	183					0	0	1	0	0		G	33087384	G	G	33087384	2	3	187	1	0	0	0	0	0	0	0	1	15739	359	13	3		3	TCP11L1	11	33087384	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	13009208	33087384	101919132	503	93286											
COMMD9	29099	broad.mit.edu	37	chr11	36293244	36293244	+	RNA	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atacataaggaggaagagtgGgaatggcatcaggtaccaag	16	6	14	5	0	1	1	1	0	0	1	1	4	1	4	1	5	2	2	1	5	6	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:36293244G>T	uc009yki.1	-	2		c.328C>A						Q9P000	COMD9_HUMAN	Homo sapiens cDNA FLJ45212 fis, clone BRCAN2018667.											ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				AGGAAGAGTGGGAATGGCATC	0.358													6	29					0.00116845	0.0011919	1	1	0		T	36293244	T	T	36293244	1	4	187	0	1	0	0	0	0	0	0	0	3726	1247	43	5		5	COMMD9	11	36293244	RNA	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3205860	36293244	98713272	504	93287											
CHST1	8534	broad.mit.edu	37	chr11	45672341	45672341	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggctctcctcgcacagtcGctcggccagcccggcctctg	3	7	13	18	4	2	0	0	0	2	0	6	0	2	0	4	4	1	3	4	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:45672341G>A	uc001mys.1	-	4	804	c.133C>T	c.(133-135)CGA>TGA	p.R45*		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	45	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		TCGCACAGTCGCTCGGCCAGC	0.667													26	82					0	0	1	0	0		A	45672341	A	A	45672341	4	1	187	1	0	0	0	0	0	1	0	0	3400	1095	38	1	1106	1	CHST1	11	45672341	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9379097	45672341	89334175	505	93288											
CREB3L1	90993	broad.mit.edu	37	chr11	46339020	46339020	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accccctggccgcagacggcGtctacacggccagccagagt	8	4	12	17	4	1	2	0	0	1	2	1	2	1	2	5	3	2	1	5	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:46339020G>A	uc001ncf.2	+	10	1675	c.1240G>A	c.(1240-1242)GTC>ATC	p.V414I	CREB3L1_uc001ncg.2_Missense_Mutation_p.V48I	NM_052854	NP_443086	Q96BA8	CR3L1_HUMAN	cAMP responsive element binding protein 3-like	414	Lumenal (Potential).				response to unfolded protein	endoplasmic reticulum membrane|integral to membrane|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		FUS/CREB3L1(6)	soft_tissue(6)|ovary(2)	8				GBM - Glioblastoma multiforme(35;0.0285)		CGCAGACGGCGTCTACACGGC	0.657			T	FUS	myxofibrosarcoma								18	34					0	0	1	0	0		A	46339020	A	A	46339020	3	1	187	1	0	0	0	0	1	0	0	0	3859	1145	40	1	1278	1	CREB3L1	11	46339020	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	666679	46339020	88667496	506	93289											
ZNF408	79797	broad.mit.edu	37	chr11	46726912	46726912	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggaggcccacttgtgcccGgtgtgtggcaaggccctccg	4	7	17	13	2	0	0	0	0	0	0	1	1	1	1	4	6	1	1	4	6	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:46726912G>A	uc001nde.1	+	5	1892	c.1662G>A	c.(1660-1662)CCG>CCA	p.P554P	ZNF408_uc010rgw.1_Silent_p.P546P	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	554	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						ACTTGTGCCCGGTGTGTGGCA	0.667													11	34					0	0	1	0	0		A	46726912	A	A	46726912	2	1	187	1	0	0	0	0	0	0	0	1	17913	1103	39	1		1	ZNF408	11	46726912	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	387892	46726912	88279604	507	93290											
LRP4	4038	broad.mit.edu	37	chr11	46918528	46918528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtgacagcggaactgttctgCcgtacacatggaggtggctg	8	9	15	9	2	1	1	0	1	1	0	1	3	1	3	1	4	4	3	1	4	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:46918528C>T	uc001ndn.3	-	8	960	c.814G>A	c.(814-816)GCA>ACA	p.A272T		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	272	Extracellular (Potential).|LDL-receptor class A 7.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		AACTGTTCTGCCGTACACATG	0.552													26	74					0	0	1	0	0		T	46918528	T	T	46918528	3	4	187	1	0	0	0	0	1	0	0	0	8977	739	26	2	5027	2	LRP4	11	46918528	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	191616	46918528	88087988	508	93291											
PACSIN3	29763	broad.mit.edu	37	chr11	47202237	47202237	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttctccagtgtgccatactgGgggcctgcagggagggacag	7	8	16	10	0	1	0	0	0	1	0	2	2	1	2	3	4	3	1	3	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:47202237G>T	uc001ndw.2	-	5	554	c.216C>A	c.(214-216)CCC>CCA	p.P72P	PACSIN3_uc001ndx.2_Silent_p.P72P|PACSIN3_uc001ndy.2_Silent_p.P72P|PACSIN3_uc001ndz.2_RNA|PACSIN3_uc001nea.2_RNA	NM_016223	NP_057307	Q9UKS6	PACN3_HUMAN	protein kinase C and casein kinase substrate in	72	FCH.				endocytosis|negative regulation of endocytosis|positive regulation of membrane protein ectodomain proteolysis	cytoplasm|plasma membrane	cytoskeletal protein binding				0						TGCCATACTGGGGGCCTGCAG	0.652													6	23					5.18039e-06	5.38741e-06	1	1	0		T	47202237	T	T	47202237	2	4	187	1	0	0	0	0	0	0	0	1	11395	1219	43	5		5	PACSIN3	11	47202237	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	283709	47202237	87804279	509	93292											
OR1S1	219959	broad.mit.edu	37	chr11	57982468	57982468	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatctatcctttgctgatatTtcctccatttccaactcagt	9	17	3	12	0	2	1	1	1	1	0	6	1	6	1	4	0	2	1	4	0	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:57982468T>C	uc010rkc.1	+	1	252	c.252T>C	c.(250-252)ATT>ATC	p.I84I		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	84	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)				TTGCTGATATTTCCTCCATTT	0.433													49	134					0	0	1	0	0		C	57982468	C	C	57982468	2	2	187	1	0	0	0	0	0	0	0	1	10991	1829	64	3		3	OR1S1	11	57982468	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	10780231	57982468	77024048	510	93293											
OR5B2	390190	broad.mit.edu	37	chr11	58190331	58190331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaggcacctacactggccGtcatggtggtggtgtagtgt	7	10	15	9	1	1	0	1	0	0	0	1	1	1	0	2	5	1	2	2	5	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:58190331G>A	uc010rkg.1	-	1	404	c.404C>T	c.(403-405)ACG>ATG	p.T135M		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TACACTGGCCGTCATGGTGGT	0.507													26	55					0	0	1	0	0		A	58190331	A	A	58190331	3	1	187	1	0	0	0	0	1	0	0	0	11169	1145	40	1	529	1	OR5B2	11	58190331	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	207863	58190331	76816185	511	93294											
GLYATL2	219970	broad.mit.edu	37	chr11	58602201	58602201	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatcctagaaaatcctggaGgcagcgttcaatatatttca	15	11	7	8	1	2	1	2	0	0	1	4	2	4	2	2	2	1	2	2	2	7	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:58602201G>T	uc001nnd.3	-	6	717	c.586C>A	c.(586-588)CTC>ATC	p.L196I	GLYATL2_uc009ymq.2_Missense_Mutation_p.L196I	NM_145016	NP_659453	Q8WU03	GLYL2_HUMAN	glycine-N-acyltransferase-like 2	196						mitochondrion	glycine N-acyltransferase activity			ovary(1)|skin(1)	2		Breast(21;0.0044)|all_epithelial(135;0.0216)			Glycine(DB00145)	AAATCCTGGAGGCAGCGTTCA	0.448													19	42					3.32936e-07	3.48961e-07	1	1	0		T	58602201	T	T	58602201	3	4	187	1	0	0	0	0	1	0	0	0	6496	1000	35	5	302	5	GLYATL2	11	58602201	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	411870	58602201	76404315	512	93295											
OSBP	5007	broad.mit.edu	37	chr11	59344479	59344479	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaagctctgagaagtagtAcatgttttctgcattcttcc	10	14	8	9	0	3	1	0	1	3	1	4	2	4	1	1	0	4	6	1	0	4	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:59344479A>G	uc001noc.1	-	13	2560	c.2080T>C	c.(2080-2082)TAC>CAC	p.Y694H	OSBP_uc009ymr.1_RNA	NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	694					lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		GAGAAGTAGTACATGTTTTCT	0.458													42	91					0	0	1	0	0		G	59344479	G	G	59344479	3	3	187	1	0	0	0	0	1	0	0	0	11292	391	14	3	351	3	OSBP	11	59344479	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	742278	59344479	75662037	513	93296											
PATL1	219988	broad.mit.edu	37	chr11	59419061	59419061	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacagcatcaatcatttttcGgggattattcacactagaaa	15	12	6	8	1	3	1	3	0	0	1	4	2	3	2	0	2	2	1	0	2	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:59419061G>A	uc001noe.3	-	12	1623	c.1480C>T	c.(1480-1482)CGA>TGA	p.R494*	PATL1_uc009yms.1_Nonsense_Mutation_p.R464*|PATL1_uc010rkw.1_Nonsense_Mutation_p.R199*	NM_152716	NP_689929	Q86TB9	PATL1_HUMAN	protein associated with topoisomerase II homolog	494	Region C.				cytoplasmic mRNA processing body assembly|deadenylation-dependent decapping of nuclear-transcribed mRNA	cytoplasmic mRNA processing body	protein binding|RNA binding			ovary(1)	1						ATCATTTTTCGGGGATTATTC	0.368													7	24					0	0	1	0	0		A	59419061	A	A	59419061	4	1	187	1	0	0	0	0	0	1	0	0	11494	1124	39	1	864	1	PATL1	11	59419061	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	74582	59419061	75587455	514	93297											
AHNAK	79026	broad.mit.edu	37	chr11	62296450	62296450	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacctttgacatcaacttgCggccctctgagatcaccttc	8	11	8	14	1	3	2	2	2	1	1	4	4	3	3	3	2	2	0	3	2	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:62296450C>T	uc001ntl.2	-	5	5739	c.5439G>A	c.(5437-5439)CCG>CCA	p.P1813P	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1813					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CATCAACTTGCGGCCCTCTGA	0.502													20	218					0	0	1	0	0		T	62296450	T	T	62296450	2	4	187	1	0	0	0	0	0	0	0	1	414	755	27	1		1	AHNAK	11	62296450	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2877389	62296450	72710066	515	93298											
AHNAK	79026	broad.mit.edu	37	chr11	62303479	62303479	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacctcctgcacaaagacgCcgtcgtccctctgggcgatg	7	8	10	16	4	2	1	1	0	1	1	5	2	4	1	4	1	1	1	4	1	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:62303479C>T	uc001ntl.2	-	3	392	c.92G>A	c.(91-93)GGC>GAC	p.G31D	AHNAK_uc001ntk.1_Missense_Mutation_p.G31D	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	31	PDZ.				nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CACAAAGACGCCGTCGTCCCT	0.647													14	60					0	0	1	0	0		T	62303479	T	T	62303479	3	4	187	1	0	0	0	0	1	0	0	0	414	739	26	2	17708	2	AHNAK	11	62303479	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7029	62303479	72703037	516	93299											
INTS5	80789	broad.mit.edu	37	chr11	62414812	62414812	+	Missense_Mutation	SNP	T	C	C	0	1	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	caggaggcttccctcagccaTgacagccactaaggtgcagg	10	6	12	13	0	1	1	1	1	0	0	2	2	2	2	3	4	3	2	3	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:62414812T>C	uc001nud.2	-	2	2793	c.2740A>G	c.(2740-2742)ATG>GTG	p.M914V	GANAB_uc001nua.2_5'Flank|GANAB_uc001nub.2_5'Flank|GANAB_uc001nuc.2_5'Flank|GANAB_uc010rma.1_5'Flank|GANAB_uc010rmb.1_5'Flank	NM_030628	NP_085131	Q6P9B9	INT5_HUMAN	integrator complex subunit 5	914					snRNA processing	integral to membrane|integrator complex	protein binding			ovary(2)	2						CCCTCAGCCATGACAGCCACT	0.617													49	150					0	0	1	0	0		C	62414812	C	C	62414812	3	2	187	1	0	0	0	0	1	0	0	0	7797	1464	51	3	323	3	INTS5	11	62414812	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	111333	62414812	72591704	517	93300											
LGALS12	85329	broad.mit.edu	37	chr11	63283104	63283104	+	Silent	SNP	A	G	G	1	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	agggcctccttcgcagacagAactctggcctggatctcccg	7	8	11	15	2	2	2	0	0	2	2	5	3	3	3	4	3	1	1	4	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:63283104A>G	uc001nxa.2	+	8	1124	c.783A>G	c.(781-783)AGA>AGG	p.R261R	LGALS12_uc001nxb.2_Silent_p.R252R|LGALS12_uc001nxc.2_Silent_p.R262R|LGALS12_uc001nxd.2_Silent_p.R200R|LGALS12_uc001nxe.2_Silent_p.R191R|LGALS12_uc009yot.2_Silent_p.R221R	NM_033101	NP_149092	Q96DT0	LEG12_HUMAN	lectin, galactoside-binding, soluble, 12 isoform	261	Galectin 2.				apoptosis|induction of apoptosis by intracellular signals	nucleus	lactose binding			ovary(2)	2						TCGCAGACAGAACTCTGGCCT	0.557													11	42					0	0	1	0	0		G	63283104	G	G	63283104	2	3	187	1	0	0	0	0	0	0	0	1	8755	243	9	3		3	LGALS12	11	63283104	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	868292	63283104	71723412	518	93301											
RARRES3	5920	broad.mit.edu	37	chr11	63307030	63307030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagacctgattgagattttcCgccttggctatgagcactgg	8	12	12	9	1	0	4	0	3	0	2	1	6	1	4	3	2	1	2	3	2	1	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:63307030C>T	uc001nxf.3	+	2	120	c.52C>T	c.(52-54)CGC>TGC	p.R18C		NM_004585	NP_004576	Q9UL19	TIG3_HUMAN	retinoic acid receptor responder (tazarotene	18					lipid catabolic process|negative regulation of cell proliferation		hydrolase activity			ovary(1)	1						TGAGATTTTCCGCCTTGGCTA	0.483													28	93					0	0	1	0	0		T	63307030	T	T	63307030	3	4	187	1	0	0	0	0	1	0	0	0	13082	652	23	1	58	1	RARRES3	11	63307030	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	23926	63307030	71699486	519	93302											
SLC22A11	55867	broad.mit.edu	37	chr11	64337280	64337280	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtgctgttcttcctcccGgagacccagggacttccgct	4	12	11	14	2	1	1	0	0	1	1	4	3	4	2	4	2	1	4	4	2	0	4	rs34836439		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:64337280G>A	uc001oai.2	+	9	1913	c.1539G>A	c.(1537-1539)CCG>CCA	p.P513P	SLC22A11_uc001oaj.2_Intron|SLC22A11_uc009ypq.2_Silent_p.P405P	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	513	Cytoplasmic (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	TCTTCCTCCCGGAGACCCAGG	0.622													28	80					0	0	1	0	0		A	64337280	A	A	64337280	2	1	187	1	0	0	0	0	0	0	0	1	14467	1103	39	1		1	SLC22A11	11	64337280	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1030250	64337280	70669236	520	93303											
EHD1	10938	broad.mit.edu	37	chr11	64622143	64622143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcgccgtagccgtgccCgaacggcccgttcatggtgc	4	7	12	18	6	1	0	1	0	0	0	2	1	1	0	6	2	4	2	6	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:64622143C>T	uc001obu.1	-	5	1522	c.1267G>A	c.(1267-1269)GGG>AGG	p.G423R	EHD1_uc001obt.1_Missense_Mutation_p.G106R|EHD1_uc001obv.1_Missense_Mutation_p.G423R|EHD1_uc010rnq.1_Missense_Mutation_p.G437R	NM_006795	NP_006786	Q9H4M9	EHD1_HUMAN	EH-domain containing 1	423					blood coagulation|cholesterol homeostasis|endocytic recycling|intracellular protein transport|low-density lipoprotein particle clearance|positive regulation of cholesterol storage|protein homooligomerization	early endosome membrane|lipid particle|plasma membrane|platelet dense tubular network membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|protein binding				0						TAGCCGTGCCCGAACGGCCCG	0.667													46	107					0	0	1	0	0		T	64622143	T	T	64622143	3	4	187	1	0	0	0	0	1	0	0	0	4983	652	23	1	341	1	EHD1	11	64622143	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	284863	64622143	70384373	521	93304											
SLC22A20	440044	broad.mit.edu	37	chr11	64981434	64981434	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgctgctgctgccctgcGgcctgctggcctgccacaac	3	8	11	19	1	0	0	0	0	0	0	0	0	0	0	5	2	8	4	5	2	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:64981434G>A	uc010roc.1	+	1	88	c.85G>A	c.(85-87)GGC>AGC	p.G29S	SLC22A20_uc010rob.1_Missense_Mutation_p.G29S	NM_001004326	NP_001004326	A6NK97	S22AK_HUMAN	solute carrier family 22, member 20	29	Helical; (Potential).				ion transport	integral to membrane	transmembrane transporter activity			central_nervous_system(1)	1						GCTGCCCTGCGGCCTGCTGGC	0.667													9	23					0	0	1	0	0		A	64981434	A	A	64981434	3	1	187	1	0	0	0	0	1	0	0	0	14476	1116	39	1	93	1	SLC22A20	11	64981434	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	359291	64981434	70025082	522	93305											
EHBP1L1	254102	broad.mit.edu	37	chr11	65347567	65347567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaggagtctaaggggcagCggaaggtgctggccacggcc	9	4	17	11	2	1	0	0	0	1	0	1	2	1	2	2	7	2	2	2	7	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:65347567C>T	uc001oeo.3	+	5	593	c.328C>T	c.(328-330)CGG>TGG	p.R110W	EHBP1L1_uc001oep.1_5'Flank	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	110										central_nervous_system(1)	1						TAAGGGGCAGCGGAAGGTGCT	0.652													3	26					0	0	1	0	0		T	65347567	T	T	65347567	3	4	187	1	0	0	0	0	1	0	0	0	4982	759	27	1	346	1	EHBP1L1	11	65347567	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	366133	65347567	69658949	523	93306											
SIPA1	6494	broad.mit.edu	37	chr11	65408583	65408583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggcgaggccaggccccccaCgccagccagcccccgtgccc	6	1	12	22	3	0	0	0	0	0	0	0	1	0	0	9	3	3	0	9	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:65408583C>T	uc001ofb.2	+	2	358	c.191C>T	c.(190-192)ACG>ATG	p.T64M	SIPA1_uc010rom.1_Missense_Mutation_p.T64M|SIPA1_uc001ofd.2_Missense_Mutation_p.T64M	NM_006747	NP_006738	Q96FS4	SIPA1_HUMAN	signal-induced proliferation-associated protein	64					cell proliferation|cytoskeleton organization|intracellular signal transduction|negative regulation of cell adhesion|negative regulation of cell cycle|negative regulation of cell growth	cytosol|endomembrane system|membrane|perinuclear region of cytoplasm	Rap GTPase activator activity				0						AGGCCCCCCACGCCAGCCAGC	0.736													7	23					0	0	1	0	0		T	65408583	T	T	65408583	3	4	187	1	0	0	0	0	1	0	0	0	14353	536	19	1	193	1	SIPA1	11	65408583	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	61016	65408583	69597933	524	93307											
MUS81	80198	broad.mit.edu	37	chr11	65632486	65632486	+	Splice_Site	SNP	A	G	G	1	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	cctcagtcccttcttccctcAgggccacaccctacgcagcc	6	8	6	21	1	3	0	2	0	1	0	5	0	5	0	6	1	2	1	6	1	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:65632486A>G	uc001ofv.3	+	13	1626	c.1273_splice	c.e13-2	p.G425_splice	MUS81_uc001ofw.3_Intron|MUS81_uc001ofx.3_5'UTR	NM_025128	NP_079404	Q96NY9	MUS81_HUMAN	MUS81 endonuclease homolog						DNA recombination|DNA repair	nucleolus	3'-flap endonuclease activity|DNA binding|metal ion binding|protein binding				0				READ - Rectum adenocarcinoma(159;0.166)		TTCTTCCCTCAGGGCCACACC	0.642								Homologous_recombination					27	87					0	0	1	0	0		G	65632486	G	G	65632486	5	3	187	1	0	0	0	0	0	0	1	0	10006	202	7	3	1321	3	MUS81	11	65632486	Splice_Site	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	223903	65632486	69374030	525	93308											
BBS1	582	broad.mit.edu	37	chr11	66287195	66287195	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcctggtgcttgacccCgaggccttcaccattttagc	6	11	10	14	1	1	1	1	1	0	0	2	3	2	1	5	2	3	2	5	2	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:66287195C>T	uc001oij.1	+	8	711	c.699C>T	c.(697-699)CCC>CCT	p.P233P	BBS1_uc001oii.1_Silent_p.P270P|BBS1_uc010rpf.1_RNA|BBS1_uc010rpg.1_Intron|BBS1_uc001oik.1_Silent_p.P157P|BBS1_uc001oil.1_Silent_p.P233P	NM_024649	NP_078925	Q8NFJ9	BBS1_HUMAN	Bardet-Biedl syndrome 1	233					nonmotile primary cilium assembly|photoreceptor cell maintenance|response to stimulus|retina homeostasis	BBSome|cilium membrane|cytoplasm	protein binding			ovary(1)	1						TGCTTGACCCCGAGGCCTTCA	0.597									Bardet-Biedl_syndrome				4	41					0	0	1	0	0		T	66287195	T	T	66287195	2	4	187	1	0	0	0	0	0	0	0	1	1336	639	23	1		1	BBS1	11	66287195	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	654709	66287195	68719321	526	93309											
LRFN4	78999	broad.mit.edu	37	chr11	66625421	66625421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggggccccctgacttccGcaacatgacgggactggtgg	6	7	14	14	2	0	2	0	2	0	0	1	3	1	3	4	5	1	1	4	5	1	1	rs143224387	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:66625421G>A	uc001ojr.2	+	1	546	c.206G>A	c.(205-207)CGC>CAC	p.R69H	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojq.1_Missense_Mutation_p.R69H|LRFN4_uc001ojs.2_Missense_Mutation_p.R69H	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	69	Extracellular (Potential).|LRR 1.					integral to membrane					0						CCTGACTTCCGCAACATGACG	0.662													8	43					0	0	1	0	0		A	66625421	A	A	66625421	3	1	187	1	0	0	0	0	1	0	0	0	8958	1087	38	1	208	1	LRFN4	11	66625421	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	338226	66625421	68381095	527	93310											
PC	5091	broad.mit.edu	37	chr11	66638891	66638891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcatcctggcaggcctgggCgaagtccgctcgctcagaga	7	7	14	13	3	1	1	1	0	0	1	4	3	3	1	3	3	1	4	3	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:66638891C>T	uc001ojn.1	-	4	431	c.382G>A	c.(382-384)GCC>ACC	p.A128T	PC_uc001ojo.1_Missense_Mutation_p.A128T|PC_uc001ojp.1_Missense_Mutation_p.A128T	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	128	Biotin carboxylation.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	CAGGCCTGGGCGAAGTCCGCT	0.632													7	151					0	0	1	0	0		T	66638891	T	T	66638891	3	4	187	1	0	0	0	0	1	0	0	0	11516	768	27	1	3226	1	PC	11	66638891	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	13470	66638891	68367625	528	93311											
PC	5091	broad.mit.edu	37	chr11	66638919	66638919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcgctcagagaggaacccGtagccagggtgcactgcatc	9	6	13	13	2	1	1	1	0	0	1	3	3	1	2	2	2	4	5	2	2	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:66638919G>A	uc001ojn.1	-	4	403	c.354C>T	c.(352-354)TAC>TAT	p.Y118Y	PC_uc001ojo.1_Silent_p.Y118Y|PC_uc001ojp.1_Silent_p.Y118Y	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	118	Biotin carboxylation.				gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	AGAGGAACCCGTAGCCAGGGT	0.627													40	108					0	0	1	0	0		A	66638919	A	A	66638919	2	1	187	1	0	0	0	0	0	0	0	1	11516	1140	40	1		1	PC	11	66638919	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	28	66638919	68367597	529	93312											
CORO1B	57175	broad.mit.edu	37	chr11	67207611	67207611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcgatctcgcacttgctgaCctccaggccccgcttgggca	5	8	12	16	3	1	1	0	1	1	0	3	2	2	1	4	3	1	4	4	3	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:67207611C>T	uc001olj.1	-	7	1021	c.985G>A	c.(985-987)GTC>ATC	p.V329I	PTPRCAP_uc001oli.1_5'Flank|CORO1B_uc009yrs.1_RNA|CORO1B_uc001olk.1_Missense_Mutation_p.V329I|CORO1B_uc009yrt.1_RNA|CORO1B_uc009yru.1_RNA|CORO1B_uc001oll.1_Missense_Mutation_p.V329I	NM_020441	NP_065174	Q9BR76	COR1B_HUMAN	coronin, actin binding protein, 1B	329					actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin filament binding			large_intestine(1)|ovary(1)	2			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CACTTGCTGACCTCCAGGCCC	0.617													17	82					0	0	1	0	0		T	67207611	T	T	67207611	3	4	187	1	0	0	0	0	1	0	0	0	3757	507	18	4	500	4	CORO1B	11	67207611	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	568692	67207611	67798905	530	93313											
XRRA1	143570	broad.mit.edu	37	chr11	74554923	74554923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagcctctgtaatgttccGgggatcccgcaagcgaatga	9	9	13	10	3	1	1	0	1	1	0	3	4	3	3	3	3	2	3	3	3	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:74554923G>A	uc009yub.2	-	18	2433	c.2101C>T	c.(2101-2103)CGG>TGG	p.R701W	XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovn.2_Missense_Mutation_p.R324W|XRRA1_uc001ovo.2_Missense_Mutation_p.R309W|XRRA1_uc001ovq.3_Intron|XRRA1_uc001ovp.3_Missense_Mutation_p.R426W|XRRA1_uc001ovr.2_Missense_Mutation_p.R324W|XRRA1_uc001ovs.1_3'UTR	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	701					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						GTAATGTTCCGGGGATCCCGC	0.552													4	15					0	0	1	0	0		A	74554923	A	A	74554923	3	1	187	1	0	0	0	0	1	0	0	0	17487	1115	39	1	285	1	XRRA1	11	74554923	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7347312	74554923	60451593	531	93314											
MYO7A	4647	broad.mit.edu	37	chr11	76910863	76910863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggataaccccaaccccGgtgagtggctgctggtatgg	8	8	14	11	1	0	1	0	1	0	0	0	2	0	2	4	5	4	4	4	5	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:76910863G>A	uc001oyb.2	+	35	5124	c.4852G>A	c.(4852-4854)GCA>ACA	p.A1618T	MYO7A_uc010rsm.1_Missense_Mutation_p.A1569T|MYO7A_uc001oyc.2_Missense_Mutation_p.A1580T|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.G791S	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1618	SH3.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CCCCAACCCCGGTGAGTGGCT	0.453													5	23					0	0	1	0	0		A	76910863	A	A	76910863	3	1	187	1	0	0	0	0	1	0	0	0	10100	1130	39	1	5020	1	MYO7A	11	76910863	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2355940	76910863	58095653	532	93315											
BIRC2	329	broad.mit.edu	37	chr11	102248749	102248749	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctggaagaacaattgaggagGttgcaagaagaacgaacttg	16	7	13	5	1	0	4	0	1	0	3	0	7	0	6	0	3	4	2	0	3	7	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:102248749G>A	uc001pgy.2	+	9	3091	c.1692G>A	c.(1690-1692)AGG>AGA	p.R564R	BIRC2_uc010ruq.1_Silent_p.R515R|BIRC2_uc010rur.1_Silent_p.R564R	NM_001166	NP_001157	Q13490	BIRC2_HUMAN	baculoviral IAP repeat-containing protein 2	564					cell surface receptor linked signaling pathway|cellular component disassembly involved in apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	CD40 receptor complex|cytosol|internal side of plasma membrane	protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3	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)|Epithelial(9;0.11)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0144)		AATTGAGGAGGTTGCAAGAAG	0.358													30	68					0	0	1	0	0		A	102248749	A	A	102248749	2	1	187	1	0	0	0	0	0	0	0	1	1436	1252	44	4		4	BIRC2	11	102248749	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	25337886	102248749	32757767	533	93316											
MMP8	4317	broad.mit.edu	37	chr11	102586154	102586154	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttgtagctgaggatgcCttctccagaagtacctaacg	9	12	9	11	1	2	2	0	1	2	1	3	3	2	3	3	1	4	3	3	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:102586154C>A	uc001phe.2	-	7	1016	c.917G>T	c.(916-918)AGG>ATG	p.R306M	MMP8_uc010rut.1_Missense_Mutation_p.R241M|MMP8_uc010ruu.1_Missense_Mutation_p.R283M	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	306	Hemopexin-like 1.				collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CTGAGGATGCCTTCTCCAGAA	0.413													26	49					1.75199e-13	1.89016e-13	1	1	0		A	102586154	A	A	102586154	3	1	187	1	0	0	0	0	1	0	0	0	9686	681	24	5	502	5	MMP8	11	102586154	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	337405	102586154	32420362	534	93317											
ATM	472	broad.mit.edu	37	chr11	108129784	108129784	+	Silent	SNP	A	C	C	1	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	aagctaatgaatgacattgcAgatatttgtaaaagtttagt	16	14	8	3	0	0	3	0	2	0	1	0	3	0	3	0	0	2	4	0	0	7	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:108129784A>C	uc001pkb.1	+	16	2833	c.2448A>C	c.(2446-2448)GCA>GCC	p.A816A	ATM_uc009yxr.1_Silent_p.A816A	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	816					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		ATGACATTGCAGATATTTGTA	0.244			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)			7	30					0	0	1	0	0		C	108129784	C	C	108129784	2	2	187	1	0	0	0	0	0	0	0	1	1110	175	7	5		5	ATM	11	108129784	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	5543630	108129784	26876732	535	93318											
TEX12	56158	broad.mit.edu	37	chr11	112042549	112042549	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatagatgaactcttcaaAgaagccaatgctattgaaaa	18	9	8	6	0	2	5	1	2	1	3	2	6	2	5	1	0	3	1	1	0	8	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:112042549A>T	uc001pnc.2	+	5	414	c.282A>T	c.(280-282)AAA>AAT	p.K94N	TEX12_uc001pnd.2_Missense_Mutation_p.K94N	NM_031275	NP_112565	Q9BXU0	TEX12_HUMAN	testis expressed sequence 12	94											0		all_cancers(61;5.7e-14)|all_epithelial(67;3.4e-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;1.2e-06)|BRCA - Breast invasive adenocarcinoma(274;1.4e-06)|all cancers(92;1.97e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0512)		AACTCTTCAAAGAAGCCAATG	0.313													25	87					0	0	1	0	0		T	112042549	T	T	112042549	3	4	187	1	0	0	0	0	1	0	0	0	15800	69	3	5	296	5	TEX12	11	112042549	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	3912765	112042549	22963967	536	93319											
NCAM1	4684	broad.mit.edu	37	chr11	113078710	113078710	+	Missense_Mutation	SNP	A	G	G	1	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	cgagcaggatgcgaccatccAcctcaaagtctttggtaggg	10	8	12	11	2	2	0	1	0	1	0	3	3	3	1	3	3	2	2	3	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:113078710A>G	uc009yyq.1	+	7	1242	c.548A>G	c.(547-549)CAC>CGC	p.H183R	NCAM1_uc001pno.2_Missense_Mutation_p.H183R	NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	301	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		GCGACCATCCACCTCAAAGTC	0.418													5	13					0	0	1	0	0		G	113078710	G	G	113078710	3	3	187	1	0	0	0	0	1	0	0	0	10221	159	6	3	929	3	NCAM1	11	113078710	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1036161	113078710	21927806	537	93320											
ANKK1	255239	broad.mit.edu	37	chr11	113270239	113270239	+	Frame_Shift_Del	DEL	G	-	-																															gtcaagctgctgaccagccaGggggctgagttggatgctca																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:113270239delG	uc001pny.2	+	8	1642	c.1548delG	c.(1546-1548)CAGfs	p.Q516fs		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	516	ANK 5.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		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)		TGACCAGCCAGGGGGCTGAGT	0.602													9	15	---	---	---	---						.	-	113270239	-	-	113270239	7	5	187	1	0	1	0	1	0	0	0	0	631	991	35	0	1578	0	ANKK1	11	113270239	Frame_Shift_Del	DEL	G	TCGA-D7-A4YV-01A-11D-A25D-08	191529	113270239	21736277	538	93321											
CADM1	23705	broad.mit.edu	37	chr11	115102146	115102146	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatagcagtgcagttgacTtcaatctcctcaccttccac	9	11	6	15	0	3	1	2	1	1	0	5	1	4	1	4	0	2	3	4	0	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:115102146T>G	uc001ppi.3	-	4	618	c.489A>C	c.(487-489)GAA>GAC	p.E163D	CADM1_uc001ppf.3_Missense_Mutation_p.E163D|CADM1_uc001ppk.3_Missense_Mutation_p.E163D|CADM1_uc001ppj.3_Missense_Mutation_p.E163D|CADM1_uc001ppl.2_Missense_Mutation_p.E163D	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	163	Ig-like C2-type 1.|Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TGCAGTTGACTTCAATCTCCT	0.453													24	80					0	0	1	0	0		G	115102146	G	G	115102146	3	3	187	1	0	0	0	0	1	0	0	0	2569	1606	56	5	867	5	CADM1	11	115102146	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1831907	115102146	19904370	539	93322											
CEP164	22897	broad.mit.edu	37	chr11	117261922	117261922	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagcagctggaaggggaGaggaaagaagtgagctagtc	14	4	19	4	0	0	3	0	1	0	2	1	7	0	6	0	5	3	3	0	5	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:117261922G>T	uc001prc.2	+	17	2421	c.2274G>T	c.(2272-2274)GAG>GAT	p.E758D	CEP164_uc001prb.2_Missense_Mutation_p.E761D|CEP164_uc010rxk.1_Missense_Mutation_p.E732D|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Missense_Mutation_p.E191D	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	758	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		TGGAAGGGGAGAGGAAAGAAG	0.577													3	25					0.004672	0.00473862	1	1	0		T	117261922	T	T	117261922	3	4	187	1	0	0	0	0	1	0	0	0	3252	933	33	5	2332	5	CEP164	11	117261922	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2159776	117261922	17744594	540	93323											
SCN2B	6327	broad.mit.edu	37	chr11	118039430	118039430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattgaggacgttgagggtgGcaggtactgtgacctccatg	8	10	15	8	1	0	3	0	3	0	0	1	4	1	4	2	4	1	3	2	4	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:118039430G>A	uc001psf.2	-	2	298	c.107C>T	c.(106-108)GCC>GTC	p.A36V		NM_004588	NP_004579	O60939	SCN2B_HUMAN	sodium channel, voltage-gated, type II, beta	36	Ig-like C2-type.|Extracellular (Potential).				synaptic transmission	voltage-gated sodium channel complex	voltage-gated sodium channel activity				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.19e-05)|Epithelial(105;0.00117)		GTTGAGGGTGGCAGGTACTGT	0.592													56	140					0	0	1	0	0		A	118039430	A	A	118039430	3	1	187	1	0	0	0	0	1	0	0	0	13942	1203	42	2	552	2	SCN2B	11	118039430	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	777508	118039430	16967086	541	93324											
HSPA8	3312	broad.mit.edu	37	chr11	122930436	122930436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtatagaagtcgattccttCatagagagaatcgatctcaa	14	11	9	7	2	2	3	2	0	1	3	6	6	3	3	1	1	0	1	1	1	6	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:122930436C>T	uc001pyo.2	-	5	943	c.865G>A	c.(865-867)GAA>AAA	p.E289K	HSPA8_uc009zbc.2_Missense_Mutation_p.E53K|HSPA8_uc001pyp.2_Missense_Mutation_p.E289K|HSPA8_uc010rzu.1_Missense_Mutation_p.E212K|HSPA8_uc009zbd.1_Missense_Mutation_p.E289K	NM_006597	NP_006588	P11142	HSP7C_HUMAN	heat shock 70kDa protein 8 isoform 1	289	Interaction with BAG1.				cellular membrane organization|interspecies interaction between organisms|mRNA metabolic process|negative regulation of transcription, DNA-dependent|neurotransmitter secretion|post-Golgi vesicle-mediated transport|protein folding|response to unfolded protein|transcription, DNA-dependent	cell surface|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|melanosome|plasma membrane|ribonucleoprotein complex	ATP binding|ATPase activity, coupled|protein binding			central_nervous_system(7)|lung(1)	8		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)		TCGATTCCTTCATAGAGAGAA	0.517													11	39					0	0	1	0	0		T	122930436	T	T	122930436	3	4	187	1	0	0	0	0	1	0	0	0	7432	835	29	4	1095	4	HSPA8	11	122930436	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4891006	122930436	12076080	542	93325											
SIAE	54414	broad.mit.edu	37	chr11	124524549	124524549	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacgttcaagccgtcacatAcctgaggtgggcttagacca	10	8	11	12	2	2	2	2	1	0	1	2	2	2	2	3	2	2	3	3	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:124524549A>G	uc001qan.2	-	4	657	c.544_splice	c.e4+1	p.E182_splice		NM_170601	NP_733746	Q9HAT2	SIAE_HUMAN	sialate O-acetylesterase precursor							extracellular region|lysosome	carboxylesterase activity|sialate O-acetylesterase activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0243)		GCCGTCACATACCTGAGGTGG	0.468													40	147					0	0	1	0	0		G	124524549	G	G	124524549	5	3	187	1	0	0	0	0	0	0	1	0	14323	405	14	3	1053	3	SIAE	11	124524549	Splice_Site	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1594113	124524549	10481967	543	93326											
NTM	50863	broad.mit.edu	37	chr11	132204964	132204964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcgccgtcagcgaggtgaGcaacggcacgtcgaggaggg	9	3	19	10	6	1	1	1	1	0	0	2	4	1	2	1	5	3	2	1	5	1	0	rs147788695	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:132204964G>A	uc001qgp.2	+	7	1623	c.959G>A	c.(958-960)AGC>AAC	p.S320N	NTM_uc001qgm.2_Missense_Mutation_p.S320N|NTM_uc010sch.1_Missense_Mutation_p.S322N|NTM_uc010sci.1_Missense_Mutation_p.S331N|NTM_uc010scj.1_Missense_Mutation_p.S279N|NTM_uc001qgq.2_Missense_Mutation_p.S331N|NTM_uc001qgr.2_Missense_Mutation_p.S102N	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	320					cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						AGCGAGGTGAGCAACGGCACG	0.607													45	142					0	0	1	0	0		A	132204964	A	A	132204964	3	1	187	1	0	0	0	0	1	0	0	0	10718	971	34	2	1125	2	NTM	11	132204964	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7680415	132204964	2801552	544	93327											
GLB1L3	112937	broad.mit.edu	37	chr11	134182352	134182352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccatctgctccggaggccGcctccgtgcccacgctcatg	4	8	11	18	4	2	0	1	0	1	0	5	1	5	1	6	2	2	2	6	2	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr11:134182352G>A	uc009zdf.2	+	14	1757	c.1397G>A	c.(1396-1398)CGC>CAC	p.R466H	GLB1L3_uc001qho.3_RNA	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	466					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		TCCGGAGGCCGCCTCCGTGCC	0.607													13	40					0	0	1	0	0		A	134182352	A	A	134182352	3	1	187	1	0	0	0	0	1	0	0	0	6445	1087	38	1	1451	1	GLB1L3	11	134182352	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1977388	134182352	824164	545	93328											
NRIP2	83714	broad.mit.edu	37	chr12	2936456	2936456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagcactccgtgctccaggtCgatgcagcactgcggggtgt	6	8	14	13	3	0	0	0	0	0	0	3	1	2	0	2	3	5	4	2	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:2936456C>T	uc001qlc.2	-	6	835	c.763G>A	c.(763-765)GAC>AAC	p.D255N	ITFG2_uc010sec.1_Intron|NRIP2_uc010sed.1_Missense_Mutation_p.D255N	NM_031474	NP_113662	Q9BQI9	NRIP2_HUMAN	nuclear receptor interacting protein 2	255					proteolysis|transcription, DNA-dependent	cytoplasm|nucleus	aspartic-type endopeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			TGCTCCAGGTCGATGCAGCAC	0.622													13	19					0	0	1	0	0		T	2936456	T	T	2936456	3	4	187	1	0	0	0	0	1	0	0	0	10672	884	31	1	86	1	NRIP2	12	2936456	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		2936456	130915439	546	93329											
EFCAB4B	84766	broad.mit.edu	37	chr12	3763474	3763474	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagtccgctccagctccCgggccagctcctggttagtg	6	8	13	14	2	0	0	0	0	0	0	4	1	4	1	5	3	2	4	5	3	2	1	rs145685842		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:3763474C>A	uc001qmj.2	-	10	1522	c.950G>T	c.(949-951)CGG>CTG	p.R317L	EFCAB4B_uc010sen.1_Missense_Mutation_p.R317L|EFCAB4B_uc010seo.1_Missense_Mutation_p.R317L|EFCAB4B_uc001qmi.1_RNA	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c	317	Potential.				activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			CTCCAGCTCCCGGGCCAGCTC	0.562													19	76					2.32416e-17	2.54869e-17	1	1	0		A	3763474	A	A	3763474	3	1	187	1	0	0	0	0	1	0	0	0	4943	652	23	5	1481	5	EFCAB4B	12	3763474	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	827018	3763474	130088421	547	93330											
DYRK4	8798	broad.mit.edu	37	chr12	4708291	4708291	+	Missense_Mutation	SNP	A	G	G	1	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	ctgttttgaagtgcttgcagAtgctttcggtagagaaaatc	10	14	11	6	1	0	3	0	1	0	2	2	4	0	3	0	1	3	5	0	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:4708291A>G	uc001qmx.2	+	7	818	c.658A>G	c.(658-660)ATG>GTG	p.M220V	DYRK4_uc009zeh.1_Missense_Mutation_p.M335V|DYRK4_uc001qmy.1_Missense_Mutation_p.M220V	NM_003845	NP_003836	Q9NR20	DYRK4_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	220	Protein kinase.					Golgi apparatus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|skin(1)	3			Colorectal(7;0.103)			GTGCTTGCAGATGCTTTCGGT	0.448													25	97					0	0	1	0	0		G	4708291	G	G	4708291	3	3	187	1	0	0	0	0	1	0	0	0	4864	333	12	3	676	3	DYRK4	12	4708291	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	944817	4708291	129143604	548	93331											
KCNA6	3742	broad.mit.edu	37	chr12	4920472	4920472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcagtggttacaatgaccaCggtaggttacggggacatgt	10	9	15	7	2	0	1	0	1	0	0	0	2	0	2	1	6	2	4	1	6	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:4920472C>T	uc001qng.2	+	1	2131	c.1265C>T	c.(1264-1266)ACG>ATG	p.T422M		NM_002235	NP_002226	P17658	KCNA6_HUMAN	potassium voltage-gated channel, shaker-related	422	Selectivity filter (By similarity).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(2)|ovary(1)	3						ACAATGACCACGGTAGGTTAC	0.592										HNSCC(72;0.22)			32	92					0	0	1	0	0		T	4920472	T	T	4920472	3	4	187	1	0	0	0	0	1	0	0	0	8023	536	19	1	1267	1	KCNA6	12	4920472	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	212181	4920472	128931423	549	93332											
CHD4	1108	broad.mit.edu	37	chr12	6705221	6705221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtcgtaatcctggatctccaCatcctcactctcccaagaag	10	10	6	15	1	3	1	1	0	2	1	8	2	5	2	4	1	0	1	4	1	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:6705221C>T	uc001qpo.2	-	13	2139	c.1975G>A	c.(1975-1977)GTG>ATG	p.V659M	CHD4_uc001qpn.2_Missense_Mutation_p.V652M|CHD4_uc001qpp.2_Missense_Mutation_p.V656M	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	659	Chromo 2.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						TGGATCTCCACATCCTCACTC	0.448													6	109					0	0	1	0	0		T	6705221	T	T	6705221	3	4	187	1	0	0	0	0	1	0	0	0	3330	478	17	4	3875	4	CHD4	12	6705221	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1784749	6705221	127146674	550	93333											
CLSTN3	9746	broad.mit.edu	37	chr12	7303192	7303192	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgaggcaggctcgttatcgGctgcgacacggagctgccct	6	8	14	13	4	0	1	0	1	0	0	2	3	0	2	1	4	3	5	1	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:7303192G>A	uc001qsr.2	+	15	2576	c.2298G>A	c.(2296-2298)CGG>CGA	p.R766R	CLSTN3_uc001qss.2_Silent_p.R778R	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	766	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CTCGTTATCGGCTGCGACACG	0.577													25	46					0	0	1	0	0		A	7303192	A	A	7303192	2	1	187	1	0	0	0	0	0	0	0	1	3566	1190	42	2		2	CLSTN3	12	7303192	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	597971	7303192	126548703	551	93334											
RIMKLB	57494	broad.mit.edu	37	chr12	8906585	8906585	+	Missense_Mutation	SNP	A	T	T	1	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	gttccagaagtatgttaaagAgtctcatggacgggatgtac	12	11	12	6	1	1	2	1	0	1	2	3	4	2	4	1	2	1	4	1	2	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:8906585A>T	uc001quu.2	+	5	844	c.593A>T	c.(592-594)GAG>GTG	p.E198V	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.E198V|RIMKLB_uc010sgl.1_Missense_Mutation_p.E198V|RIMKLB_uc001quw.2_Missense_Mutation_p.E198V	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	198	ATP-grasp.|ATP (By similarity).				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						TATGTTAAAGAGTCTCATGGA	0.478													51	92					0	0	1	0	0		T	8906585	T	T	8906585	3	4	187	1	0	0	0	0	1	0	0	0	13391	304	11	5	607	5	RIMKLB	12	8906585	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1603393	8906585	124945310	552	93335											
PZP	5858	broad.mit.edu	37	chr12	9318785	9318785	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaacatatggtctctctacTactcctagacctgctaaagt	11	12	7	11	0	2	1	0	0	2	1	4	2	3	2	2	2	4	1	2	2	7	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:9318785T>G	uc001qvl.2	-	18	2150	c.2121A>C	c.(2119-2121)GTA>GTC	p.V707V	PZP_uc009zgl.2_Silent_p.V576V|PZP_uc010sgo.1_RNA|PZP_uc009zgm.1_Silent_p.V39V	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GTCTCTCTACTACTCCTAGAC	0.373													12	60					0	0	1	0	0		G	9318785	G	G	9318785	2	3	187	1	0	0	0	0	0	0	0	1	12894	1509	53	5		5	PZP	12	9318785	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	412200	9318785	124533110	553	93336											
OLR1	4973	broad.mit.edu	37	chr12	10321711	10321711	+	Missense_Mutation	SNP	A	G	G	1	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	taatggtcactactaatcccAggcaaaggacccctagagtc	13	8	8	12	0	1	1	1	0	0	1	3	2	2	2	3	3	1	1	3	3	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:10321711A>G	uc001qxo.1	-	2	254	c.140T>C	c.(139-141)CTG>CCG	p.L47P	OLR1_uc010sgz.1_5'Flank|OLR1_uc010sha.1_Missense_Mutation_p.L47P	NM_002543	NP_002534	P78380	OLR1_HUMAN	oxidized low density lipoprotein (lectin-like)	47	Helical; Signal-anchor for type II membrane protein; (Potential).				blood circulation|blood coagulation|inflammatory response|leukocyte migration|proteolysis	extracellular region|integral to plasma membrane|membrane fraction	sugar binding			ovary(1)	1						TACTAATCCCAGGCAAAGGAC	0.453													20	55					0	0	1	0	0		G	10321711	G	G	10321711	3	3	187	1	0	0	0	0	1	0	0	0	10882	188	7	3	701	3	OLR1	12	10321711	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1002926	10321711	123530184	554	93337											
GRIN2B	2904	broad.mit.edu	37	chr12	13716251	13716251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttccttctgcaggtccacGaaggtgtcgtaggagtgctg	6	12	13	10	2	2	0	0	0	2	0	5	2	4	1	2	3	2	3	2	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:13716251G>A	uc001rbt.2	-	13	4100	c.3921C>T	c.(3919-3921)TTC>TTT	p.F1307F		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1307	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GCAGGTCCACGAAGGTGTCGT	0.592													36	115					0	0	1	0	0		A	13716251	A	A	13716251	2	1	187	1	0	0	0	0	0	0	0	1	6796	1049	37	1		1	GRIN2B	12	13716251	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3394540	13716251	120135644	555	93338											
PDE3A	5139	broad.mit.edu	37	chr12	20792849	20792849	+	Missense_Mutation	SNP	A	G	G	1	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	ttccaattagggaatttatgAattattttcatgctttggag	11	18	8	4	0	1	1	1	1	0	0	2	3	2	3	1	2	1	1	1	2	6	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:20792849A>G	uc001reh.1	+	10	2231	c.2209A>G	c.(2209-2211)AAT>GAT	p.N737D		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	737	Catalytic (By similarity).				lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	GGAATTTATGAATTATTTTCA	0.279													28	53					0	0	1	0	0		G	20792849	G	G	20792849	3	3	187	1	0	0	0	0	1	0	0	0	11656	246	9	3	2247	3	PDE3A	12	20792849	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	7076598	20792849	113059046	556	93339											
PPFIBP1	8496	broad.mit.edu	37	chr12	27829455	27829455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacaaccccttcggcactcGaaaagtcagatcttcctttg	10	11	7	13	2	2	2	1	1	1	1	5	3	3	2	3	1	1	1	3	1	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:27829455G>A	uc001ric.1	+	18	1933	c.1556G>A	c.(1555-1557)CGA>CAA	p.R519Q	PPFIBP1_uc010sjr.1_Missense_Mutation_p.R350Q|PPFIBP1_uc001rib.1_Missense_Mutation_p.R502Q|PPFIBP1_uc001ria.2_Missense_Mutation_p.R488Q|PPFIBP1_uc001rid.1_Missense_Mutation_p.R366Q|PPFIBP1_uc001rif.1_5'Flank	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	519					cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					TTCGGCACTCGAAAAGTCAGA	0.512													34	113					0	0	1	0	0		A	27829455	A	A	27829455	3	1	187	1	0	0	0	0	1	0	0	0	12332	1058	37	1	1609	1	PPFIBP1	12	27829455	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7036606	27829455	106022440	557	93340											
PPFIBP1	8496	broad.mit.edu	37	chr12	27829478	27829478	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcagatcttcctttggcCggggcttttttaaaatcaaa	11	14	8	8	1	3	1	2	0	1	1	4	1	4	1	2	3	0	1	2	3	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:27829478C>G	uc001ric.1	+	18	1956	c.1579C>G	c.(1579-1581)CGG>GGG	p.R527G	PPFIBP1_uc010sjr.1_Missense_Mutation_p.R358G|PPFIBP1_uc001rib.1_Missense_Mutation_p.R510G|PPFIBP1_uc001ria.2_Missense_Mutation_p.R496G|PPFIBP1_uc001rid.1_Missense_Mutation_p.R374G|PPFIBP1_uc001rif.1_5'Flank	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	527					cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					TTCCTTTGGCCGGGGCTTTTT	0.502													30	100					0	0	1	0	0		G	27829478	G	G	27829478	3	3	187	1	0	0	0	0	1	0	0	0	12332	643	23	5	1632	5	PPFIBP1	12	27829478	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	23	27829478	106022417	558	93341											
PTHLH	5744	broad.mit.edu	37	chr12	28116399	28116399	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgccgttttttcttttcctGctccttgcgtttcccgggct	0	19	8	14	4	1	0	0	0	1	0	5	0	4	0	4	1	2	4	4	1	0	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:28116399G>A	uc001rik.2	-	3	709	c.406C>T	c.(406-408)CAG>TAG	p.Q136*	PTHLH_uc001ril.2_Nonsense_Mutation_p.Q136*|PTHLH_uc001rim.2_Nonsense_Mutation_p.Q136*|PTHLH_uc001rin.2_Nonsense_Mutation_p.Q136*	NM_198966	NP_945317	P12272	PTHR_HUMAN	parathyroid hormone-like hormone isoform 1	136					activation of adenylate cyclase activity by G-protein signaling pathway|cAMP metabolic process|cell-cell signaling|epidermis development|female pregnancy|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation	cytoplasm|extracellular space|nucleus	hormone activity|peptide hormone receptor binding			breast(1)	1	Lung SC(9;0.184)					TTCTTTTCCTGCTCCTTGCGT	0.527													16	101					0	0	1	0	0		A	28116399	A	A	28116399	4	1	187	1	0	0	0	0	0	1	0	0	12784	1328	46	2	139	2	PTHLH	12	28116399	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	286921	28116399	105735496	559	93342											
TSPAN11	441631	broad.mit.edu	37	chr12	31135580	31135580	+	Silent	SNP	G	A	A	0	0	1	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	tgctgcaagacagtggtggtGcgctgcggccagcgggccca	6	6	17	12	3	0	1	0	0	0	1	0	1	0	1	2	4	5	3	2	4	1	0	rs143482979		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:31135580G>A	uc010sju.1	+	6	950	c.570G>A	c.(568-570)GTG>GTA	p.V190V	TSPAN11_uc001rjp.2_Silent_p.V190V|TSPAN11_uc010sjv.1_Silent_p.V180V	NM_001080509	NP_001073978	A1L157	TSN11_HUMAN	tetraspanin 11	190						integral to membrane					0	all_lung(12;3.11e-10)|Lung NSC(12;5.24e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)					CAGTGGTGGTGCGCTGCGGCC	0.657													9	9					0	0	1	0	0		A	31135580	A	A	31135580	2	1	187	1	0	0	0	0	0	0	0	1	16661	1306	46	2		2	TSPAN11	12	31135580	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3019181	31135580	102716315	560	93343											
ARID2	196528	broad.mit.edu	37	chr12	46285562	46285562	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactacttttattttttataGgtggtttcagacaccctcac	9	18	5	9	0	2	1	2	0	0	1	2	1	2	1	1	2	2	1	1	2	5	9	rs79280775		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:46285562G>C	uc001ros.1	+	17	4923	c.4923_splice	c.e17-1	p.K1641_splice	ARID2_uc001ror.2_Splice_Site_p.K1641_splice|ARID2_uc009zkg.1_Splice_Site_p.K1097_splice|ARID2_uc009zkh.1_Splice_Site_p.K1268_splice|ARID2_uc001rou.1_Splice_Site_p.K975_splice	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		ATTTTTTATAGGTGGTTTCAG	0.368													25	58					0	0	1	0	0		C	46285562	C	C	46285562	5	2	187	1	0	0	0	0	0	0	1	0	915	1014	35	5	4988	5	ARID2	12	46285562	Splice_Site	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	15149982	46285562	87566333	561	93344											
ADCY6	112	broad.mit.edu	37	chr12	49170977	49170977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctgacacacagtagtaaCagtcccccaagatcttgatc	12	8	7	14	0	1	3	0	2	1	1	3	3	2	3	3	0	1	2	3	0	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:49170977C>T	uc001rsh.3	-	5	1946	c.1286G>A	c.(1285-1287)TGT>TAT	p.C429Y	ADCY6_uc001rsj.3_Missense_Mutation_p.C429Y|ADCY6_uc001rsi.3_Missense_Mutation_p.C429Y|ADCY6_uc010slw.1_5'Flank	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	429	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane	ATP binding|metal ion binding				0						ACAGTAGTAACAGTCCCCCAA	0.567													106	116					0	0	1	0	0		T	49170977	T	T	49170977	3	4	187	1	0	0	0	0	1	0	0	0	298	478	17	4	2288	4	ADCY6	12	49170977	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2885415	49170977	84680918	562	93345											
WNT1	7471	broad.mit.edu	37	chr12	49374303	49374303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggttccatcgaatcctgcaCgtgtgactaccggcggcgcg	7	8	13	13	6	0	1	0	1	0	0	3	2	2	1	3	3	2	2	3	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:49374303C>T	uc001rsu.2	+	3	653	c.455C>T	c.(454-456)ACG>ATG	p.T152M		NM_005430	NP_005421	P04628	WNT1_HUMAN	wingless-type MMTV integration site family,	152					brain segmentation|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|central nervous system morphogenesis|cerebellum formation|dermatome development|diencephalon development|embryonic axis specification|forebrain anterior/posterior pattern formation|fourth ventricle development|hemopoietic stem cell proliferation|hepatocyte differentiation|inner ear morphogenesis|mesoderm morphogenesis|midbrain development|midbrain-hindbrain boundary maturation during brain development|negative regulation of cell-cell adhesion|negative regulation of cell-substrate adhesion|negative regulation of DNA damage checkpoint|negative regulation of fat cell differentiation|neuron fate determination|positive regulation of fibroblast proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of lamellipodium assembly|positive regulation of Notch signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to wounding|signal transduction in response to DNA damage|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled-2 binding|transcription regulatory region DNA binding			kidney(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.244)		GAATCCTGCACGTGTGACTAc	0.532													10	51					0	0	1	0	0		T	49374303	T	T	49374303	3	4	187	1	0	0	0	0	1	0	0	0	17407	536	19	1	465	1	WNT1	12	49374303	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	203326	49374303	84477592	563	93346											
MLL2	8085	broad.mit.edu	37	chr12	49434384	49434384	+	Frame_Shift_Del	DEL	G	-	-																															cacagcagctctcagggggcGgaggttggggccgaggagtc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:49434384delG	uc001rta.3	-	31	7169	c.7169delC	c.(7168-7170)CCGfs	p.P2390fs		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2390	Pro-rich.|Poly-Pro.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTCAGGGGGCGGAGGTTGGGG	0.632			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			21	37	---	---	---	---						.	-	49434384	-	-	49434384	7	5	187	1	0	1	0	1	0	0	0	0	9639	1116	39	0	9540	0	MLL2	12	49434384	Frame_Shift_Del	DEL	G	TCGA-D7-A4YV-01A-11D-A25D-08	60081	49434384	84417511	564	93347											
KRT6C	286887	broad.mit.edu	37	chr12	52867151	52867151	+	Frame_Shift_Del	DEL	C	-	-																															ggcacacagggaagccagggCccccaaagccaccagcaagg																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:52867151delC	uc001sal.3	-	1	419	c.371delG	c.(370-372)GGCfs	p.G124fs		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	124	Head.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		GAAGCCAGGGCCCCCAAAGCC	0.627													8	1	---	---	---	---						.	-	52867151	-	-	52867151	7	5	187	1	0	1	0	1	0	0	0	0	8498	739	26	0	1359	0	KRT6C	12	52867151	Frame_Shift_Del	DEL	C	TCGA-D7-A4YV-01A-11D-A25D-08	3432767	52867151	80984744	565	93348											
KRT72	140807	broad.mit.edu	37	chr12	52981443	52981443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctctccagcagcttgcGgtaggtggcgatctccatat	6	11	11	13	3	2	0	0	0	2	0	5	1	2	0	2	3	3	4	2	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:52981443G>A	uc001sar.2	-	7	1368	c.1282C>T	c.(1282-1284)CGC>TGC	p.R428C	KRT72_uc001saq.2_Missense_Mutation_p.R428C|KRT72_uc010sns.1_Missense_Mutation_p.R386C|KRT72_uc010snt.1_Missense_Mutation_p.R240C	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	428	Coil 2.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		AGCAGCTTGCGGTAGGTGGCG	0.612													61	93					0	0	1	0	0		A	52981443	A	A	52981443	3	1	187	1	0	0	0	0	1	0	0	0	8501	1116	39	1	265	1	KRT72	12	52981443	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	114292	52981443	80870452	566	93349											
TENC1	23371	broad.mit.edu	37	chr12	53452869	53452869	+	Frame_Shift_Del	DEL	C	-	-																															ggggtcccctggatggcagtCcttatgcccaggtgcagcgg																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:53452869delC	uc001sbp.2	+	18	1579	c.1444delC	c.(1444-1446)CCTfs	p.P482fs	TENC1_uc001sbl.2_Frame_Shift_Del_p.P358fs|TENC1_uc001sbn.2_Frame_Shift_Del_p.P492fs|TENC1_uc001sbq.2_5'UTR|TENC1_uc001sbr.2_RNA|TENC1_uc009zmr.2_5'UTR|TENC1_uc001sbs.2_5'Flank	NM_170754	NP_736610	Q63HR2	TENC1_HUMAN	tensin like C1 domain containing phosphatase	482					intracellular signal transduction|negative regulation of cell proliferation	focal adhesion	metal ion binding|phosphoprotein phosphatase activity|protein binding			ovary(1)|pancreas(1)	2						GGATGGCAGTCCTTATGCCCA	0.667													62	120	---	---	---	---						.	-	53452869	-	-	53452869	7	5	187	1	0	1	0	1	0	0	0	0	15783	855	30	0	1623	0	TENC1	12	53452869	Frame_Shift_Del	DEL	C	TCGA-D7-A4YV-01A-11D-A25D-08	471426	53452869	80399026	567	93350											
HOXC6	3223	broad.mit.edu	37	chr12	54423566	54423566	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcgcatcgagatcgccaaCgcgctttgcctgaccgagcg	7	6	13	15	8	0	2	0	1	0	1	2	4	0	2	3	1	3	2	3	1	1	1	rs61736613	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:54423566C>T	uc001sev.2	+	2	640	c.528C>T	c.(526-528)AAC>AAT	p.N176N	HOXC6_uc001ses.2_Silent_p.N94N|HOXC5_uc001set.2_Intron|HOXC4_uc001seu.2_Intron	NM_004503	NP_004494	P09630	HXC6_HUMAN	homeobox C6 isoform 1	176	Homeobox.				regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|upper_aerodigestive_tract(1)	3						AGATCGCCAACGCGCTTTGCC	0.567													35	159					0	0	1	0	0		T	54423566	T	T	54423566	2	4	187	1	0	0	0	0	0	0	0	1	7331	535	19	1		1	HOXC6	12	54423566	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	970697	54423566	79428329	568	93351											
GDF11	10220	broad.mit.edu	37	chr12	56142639	56142639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggccattggcagagcatcGacttcaagcaagtgctacac	12	7	10	12	1	1	1	1	0	0	1	2	2	1	1	1	2	4	4	1	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:56142639G>A	uc001shq.2	+	2	752	c.715G>A	c.(715-717)GAC>AAC	p.D239N	GDF11_uc010spv.1_Missense_Mutation_p.D239N	NM_005811	NP_005802	O95390	GDF11_HUMAN	growth differentiation factor 11 precursor	239					growth|mesoderm development|skeletal system development	extracellular space	cytokine activity|growth factor activity			kidney(1)	1						GCAGAGCATCGACTTCAAGCA	0.612													9	29					0	0	1	0	0		A	56142639	A	A	56142639	3	1	187	1	0	0	0	0	1	0	0	0	6327	1058	37	1	721	1	GDF11	12	56142639	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1719073	56142639	77709256	569	93352											
ERBB3	2065	broad.mit.edu	37	chr12	56478854	56478854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccattgcccaacctccgcGtggtgcgagggacccaggtc	7	7	12	15	3	0	0	0	0	0	0	2	2	1	1	5	3	4	0	5	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:56478854G>A	uc001sjh.2	+	3	503	c.310G>A	c.(310-312)GTG>ATG	p.V104M	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.V45M|ERBB3_uc001sjg.2_Missense_Mutation_p.V104M	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	104	Extracellular (Potential).		V -> M (in an ovarian mucinous carcinoma sample; somatic mutation).		cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity	p.V104M(1)		lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CAACCTCCGCGTGGTGCGAGG	0.517													31	172					0	0	1	0	0		A	56478854	A	A	56478854	3	1	187	1	0	0	0	0	1	0	0	0	5216	1145	40	1	320	1	ERBB3	12	56478854	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	336215	56478854	77373041	570	93353											
BAZ2A	11176	broad.mit.edu	37	chr12	56993984	56993984	+	Splice_Site	SNP	C	T	T	0	0	0	1	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	tggagggtgggagtcactcaCatctctgtagtggtgccctc	6	11	14	10	0	3	0	2	0	1	0	5	2	3	2	1	4	1	1	1	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:56993984C>T	uc001slq.1	-	24	5092	c.4898_splice	c.e24+1	p.I1633_splice	BAZ2A_uc001slp.1_Splice_Site_p.I1631_splice|BAZ2A_uc001slo.1_Splice_Site_p.I439_splice|BAZ2A_uc009zov.1_Splice_Site_p.I599_splice|BAZ2A_uc009zow.1_Splice_Site_p.I1601_splice	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A						chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						GAGTCACTCACATCTCTGTAG	0.552													17	41					0	0	1	0	0		T	56993984	T	T	56993984	5	4	187	1	0	0	0	0	0	0	1	0	1332	492	17	4	842	4	BAZ2A	12	56993984	Splice_Site	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	515130	56993984	76857911	571	93354											
PRIM1	5557	broad.mit.edu	37	chr12	57127957	57127957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttaagaagttctccttttCgggatttatccagattttca	9	18	6	8	1	3	2	1	0	2	2	6	3	4	3	2	1	0	1	2	1	3	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:57127957C>T	uc001smd.2	-	12	1281	c.1217G>A	c.(1216-1218)CGA>CAA	p.R406Q		NM_000946	NP_000937	P49642	PRI1_HUMAN	DNA primase polypeptide 1	406					DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	DNA primase activity|metal ion binding				0						TTCTCCTTTTCGGGATTTATC	0.308													19	30					0	0	1	0	0		T	57127957	T	T	57127957	3	4	187	1	0	0	0	0	1	0	0	0	12512	884	31	1	53	1	PRIM1	12	57127957	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	133973	57127957	76723938	572	93355											
DDIT3	1649	broad.mit.edu	37	chr12	57910907	57910907	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctggttctggctcctcCtcagtcagccaagccagaga	7	10	10	14	0	4	1	2	0	2	1	6	2	6	1	4	2	3	3	4	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:57910907C>A	uc001soi.2	-	4	375	c.195G>T	c.(193-195)GAG>GAT	p.E65D	MARS_uc001sof.1_Intron|DDIT3_uc009zps.2_Missense_Mutation_p.E88D|DDIT3_uc009zpt.2_Missense_Mutation_p.E88D	NM_004083	NP_004074	P35638	DDIT3_HUMAN	DNA-damage-inducible transcript 3	65					cell cycle arrest|cell redox homeostasis|mRNA transcription from RNA polymerase II promoter|negative regulation of determination of dorsal identity|regulation of DNA-dependent transcription in response to stress|response to DNA damage stimulus	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding		FUS/DDIT3(623)|EWSR1/DDIT3(43)	soft_tissue(666)|large_intestine(1)|central_nervous_system(1)|lung(1)|skin(1)|ovary(1)	671						CTGGCTCCTCCTCAGTCAGCC	0.512			T	FUS	liposarcoma								52	49					3.68337e-26	4.07693e-26	1	1	0		A	57910907	A	A	57910907	3	1	187	1	0	0	0	0	1	0	0	0	4333	680	24	5	318	5	DDIT3	12	57910907	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	782950	57910907	75940988	573	93356											
KIF5A	3798	broad.mit.edu	37	chr12	57966494	57966494	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagtgtcattgtgggcaaCggggagattaagctggtgag	9	11	16	5	1	2	2	2	1	0	1	2	3	2	2	0	4	2	2	0	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:57966494C>T	uc001sor.1	+	15	1909	c.1701C>T	c.(1699-1701)AAC>AAT	p.N567N	KIF5A_uc010srr.1_Silent_p.N478N	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	567					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						TTGTGGGCAACGGGGAGATTA	0.547													40	180					0	0	1	0	0		T	57966494	T	T	57966494	2	4	187	1	0	0	0	0	0	0	0	1	8321	535	19	1		1	KIF5A	12	57966494	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	55587	57966494	75885401	574	93357											
GEFT	115557	broad.mit.edu	37	chr12	58006728	58006728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attagaatcctattccattgCgggcagtgaggggagtatat	11	12	12	6	1	0	2	0	1	0	1	2	3	2	3	2	3	1	2	2	3	5	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:58006728C>T	uc001spb.2	+	2	573	c.113C>T	c.(112-114)GCG>GTG	p.A38V	GEFT_uc009zpy.2_Missense_Mutation_p.A77V|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Intron|uc001spc.2_RNA|GEFT_uc001spd.2_5'Flank	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	38					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					TATTCCATTGCGGGCAGTGAG	0.493													117	176					0	0	1	0	0		T	58006728	T	T	58006728	3	4	187	1	0	0	0	0	1	0	0	0	6343	768	27	1	341	1	GEFT	12	58006728	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	40234	58006728	75845167	575	93358											
TPH2	121278	broad.mit.edu	37	chr12	72335393	72335393	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cctaactctggcaaaaatgaCgacaaaggcaacaagggaag	18	4	10	9	1	1	1	0	1	1	0	1	3	1	2	1	3	2	2	1	3	7	1	rs74510566		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:72335393C>T	uc009zrw.1	+	2	276	c.135C>T	c.(133-135)GAC>GAT	p.D45D	TPH2_uc001swy.2_Translation_Start_Site	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	45					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity	p.D45D(1)		ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	GCAAAAATGACGACAAAGGCA	0.393													15	41					0	0	1	0	0		T	72335393	T	T	72335393	2	4	187	1	0	0	0	0	0	0	0	1	16428	535	19	1		1	TPH2	12	72335393	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	14328665	72335393	61516502	576	93359											
CEP290	80184	broad.mit.edu	37	chr12	88453675	88453675	+	Frame_Shift_Del	DEL	T	-	-																															atcagtcataaaagtcatacTtttttaagttctttacgaag																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:88453675delT	uc001tar.2	-	48	6989	c.6645delA	c.(6643-6645)AAAfs	p.K2215fs	CEP290_uc001taq.2_Frame_Shift_Del_p.K1275fs	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	2215	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						AAAGTCATACTTTTTTAAGTT	0.333													5	8	---	---	---	---						.	-	88453675	-	-	88453675	7	5	187	1	0	1	0	1	0	0	0	0	3256	1623	56	0	822	0	CEP290	12	88453675	Frame_Shift_Del	DEL	T	TCGA-D7-A4YV-01A-11D-A25D-08	16118282	88453675	45398220	577	93360											
C12orf12	196477	broad.mit.edu	37	chr12	91348255	91348255	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggtgggcgccagggccctcCccagcacccccagttagagc	6	4	14	17	1	0	1	0	0	0	1	1	1	1	1	6	3	2	2	6	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:91348255C>A	uc001tbj.2	-	1	699	c.265G>T	c.(265-267)GGA>TGA	p.G89*		NM_152638	NP_689851	Q8TC90	CL012_HUMAN	hypothetical protein LOC196477	89										central_nervous_system(1)|pancreas(1)	2						CAGGGCCCTCCCCAGCACCCC	0.637													14	37					0.0202918	0.0205032	1	1	0		A	91348255	A	A	91348255	4	1	187	1	0	0	0	0	0	1	0	0	1679	632	22	5	959	5	C12orf12	12	91348255	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2894580	91348255	42503640	578	93361											
STAB2	55576	broad.mit.edu	37	chr12	104031830	104031830	+	Missense_Mutation	SNP	A	G	G	1	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	acgaaaaatctgccaccctcAtgctcattgtacgtacctgg	11	10	7	13	2	3	0	2	0	1	0	3	1	3	0	3	1	4	3	3	1	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:104031830A>G	uc001tjw.2	+	8	932	c.746A>G	c.(745-747)CAT>CGT	p.H249R		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	249	Extracellular (Potential).|EGF-like 4.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TGCCACCCTCATGCTCATTGT	0.507													74	114					0	0	1	0	0		G	104031830	G	G	104031830	3	3	187	1	0	0	0	0	1	0	0	0	15263	217	8	3	776	3	STAB2	12	104031830	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	12683575	104031830	29820065	579	93362											
BTBD11	121551	broad.mit.edu	37	chr12	108010875	108010875	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ttcctctgcagctcctcctgGatgctggggccaaggtggaa	6	10	13	12	0	1	0	0	0	1	0	4	2	4	2	4	5	3	3	4	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:108010875G>C	uc001tmk.1	+	8	2532	c.2011G>C	c.(2011-2013)GAT>CAT	p.D671H	BTBD11_uc009zut.1_Missense_Mutation_p.D671H|BTBD11_uc001tmj.2_Missense_Mutation_p.D671H|BTBD11_uc001tml.1_Missense_Mutation_p.D208H	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	671	ANK 2.					integral to membrane	DNA binding			skin(2)|ovary(1)	3						GCTCCTCCTGGATGCTGGGGC	0.587													60	99					0	0	1	0	0		C	108010875	C	C	108010875	3	2	187	1	0	0	0	0	1	0	0	0	1542	1174	41	5	2146	5	BTBD11	12	108010875	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3979045	108010875	25841020	580	93363											
WSCD2	9671	broad.mit.edu	37	chr12	108600079	108600079	+	Silent	SNP	C	A	A	0	0	0	1	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	cccaaagccaagtacatcggCtgctacctggatgacaccca	12	6	8	15	1	0	1	0	1	0	0	1	2	0	2	4	2	4	3	4	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:108600079C>A	uc001tms.2	+	3	1140	c.396C>A	c.(394-396)GGC>GGA	p.G132G	WSCD2_uc001tmt.2_Silent_p.G132G	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	132	WSC 1.					integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						AGTACATCGGCTGCTACCTGG	0.512													16	69					8.00594e-06	8.31776e-06	1	1	0		A	108600079	A	A	108600079	2	1	187	1	0	0	0	0	0	0	0	1	17433	784	28	5		5	WSCD2	12	108600079	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	589204	108600079	25251816	581	93364											
SSH1	54434	broad.mit.edu	37	chr12	109181783	109181783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcagcttttgctcatccacGaagggctctttaagttttct	7	16	8	10	1	4	0	2	0	2	0	5	1	5	0	1	1	2	4	1	1	2	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:109181783G>A	uc001tnm.2	-	15	3218	c.3131C>T	c.(3130-3132)TCG>TTG	p.S1044L	SSH1_uc001tnl.2_Missense_Mutation_p.S732L	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	1044	Interaction with YWHAG.				actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						GCTCATCCACGAAGGGCTCTT	0.547													37	100					0	0	1	0	0		A	109181783	A	A	109181783	3	1	187	1	0	0	0	0	1	0	0	0	15209	1059	37	1	22	1	SSH1	12	109181783	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	581704	109181783	24670112	582	93365											
MMAB	326625	broad.mit.edu	37	chr12	109998867	109998867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctctcggcccggcggcacaCggcccggcagaaatgcagcg	7	4	14	16	6	1	1	0	0	1	1	3	1	1	1	2	5	2	3	2	5	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:109998867C>T	uc001tou.2	-	7	635	c.562G>A	c.(562-564)GTG>ATG	p.V188M	MMAB_uc001tov.2_RNA|MMAB_uc001tow.2_RNA|MMAB_uc010sxq.1_Missense_Mutation_p.V97M|MMAB_uc001tox.2_Missense_Mutation_p.V136M	NM_052845	NP_443077	Q96EY8	MMAB_HUMAN	cob(I)alamin adenosyltransferase precursor	188					cobalamin biosynthetic process	mitochondrion	ATP binding|cob(I)yrinic acid a,c-diamide adenosyltransferase activity				0					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CGGCGGCACACGGCCCGGCAG	0.438													31	49					0	0	1	0	0		T	109998867	T	T	109998867	3	4	187	1	0	0	0	0	1	0	0	0	9658	536	19	1	202	1	MMAB	12	109998867	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	817084	109998867	23853028	583	93366											
C12orf51	283450	broad.mit.edu	37	chr12	112647918	112647918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcattgtcactgtcagatgCcatggcgaaaggcagggcct	10	9	12	10	1	3	1	3	0	0	1	3	2	3	1	2	3	1	1	2	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:112647918C>T	uc009zwc.2	-	43	6520	c.6502G>A	c.(6502-6504)GCA>ACA	p.A2168T	C12orf51_uc001ttr.1_Missense_Mutation_p.A343T	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CTGTCAGATGCCATGGCGAAA	0.597													21	77					0	0	1	0	0		T	112647918	T	T	112647918	3	4	187	1	0	0	0	0	1	0	0	0	1699	739	26	2	5596	2	C12orf51	12	112647918	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2649051	112647918	21203977	584	93367											
C12orf51	283450	broad.mit.edu	37	chr12	112669482	112669482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggtggctttccgcagggcgGctgcagcctcttctgtaatc	4	12	13	12	2	2	0	0	0	2	0	4	0	3	0	2	4	2	5	2	4	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:112669482G>A	uc009zwc.2	-	32	4787	c.4769C>T	c.(4768-4770)GCC>GTC	p.A1590V		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CCGCAGGGCGGCTGCAGCCTC	0.527													20	16					0	0	1	0	0		A	112669482	A	A	112669482	3	1	187	1	0	0	0	0	1	0	0	0	1699	1203	42	2	7373	2	C12orf51	12	112669482	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	21564	112669482	21182413	585	93368											
OAS1	4938	broad.mit.edu	37	chr12	113354535	113354535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctgagaaggcagctcacGaaacccaggtatgctatccc	12	7	9	13	1	1	1	1	1	0	1	2	3	2	1	3	2	4	4	3	2	5	3	rs144257676	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:113354535G>A	uc001tud.2	+	4	982	c.876G>A	c.(874-876)ACG>ACA	p.T292T	OAS1_uc010syn.1_Silent_p.T291T|OAS1_uc010syo.1_3'UTR|OAS1_uc001tub.2_Silent_p.T292T|OAS1_uc001tuc.2_Silent_p.T292T|OAS1_uc009zwf.2_Silent_p.T291T	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	292					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						GGCAGCTCACGAAACCCAGGT	0.453													12	88					0	0	1	0	0		A	113354535	A	A	113354535	2	1	187	1	0	0	0	0	0	0	0	1	10818	1045	37	1		1	OAS1	12	113354535	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	685053	113354535	20497360	586	93369											
TBX5	6910	broad.mit.edu	37	chr12	114793421	114793421	+	Silent	SNP	A	G	G	1	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	gatagagtccttggcacgccAtgagagtagaggaactcagg	12	7	14	8	1	1	3	1	1	0	3	2	6	2	4	2	3	1	2	2	3	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:114793421A>G	uc001tvo.2	-	9	1968	c.1473T>C	c.(1471-1473)CAT>CAC	p.H491H	TBX5_uc001tvp.2_Silent_p.H491H|TBX5_uc001tvq.2_Silent_p.H441H	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	491					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		TTGGCACGCCATGAGAGTAGA	0.602													15	69					0	0	1	0	0		G	114793421	G	G	114793421	2	3	187	1	0	0	0	0	0	0	0	1	15686	214	8	3		3	TBX5	12	114793421	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1438886	114793421	19058474	587	93370											
SIRT4	23409	broad.mit.edu	37	chr12	120750797	120750797	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggcgtgtctgaaactgaaTtctcgttgtggagagttgct	7	15	13	6	2	2	3	0	2	2	1	3	4	2	3	0	2	2	3	0	2	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:120750797T>C	uc001tyc.2	+	4	923	c.903T>C	c.(901-903)AAT>AAC	p.N301N		NM_012240	NP_036372	Q9Y6E7	SIRT4_HUMAN	sirtuin 4	301	Deacetylase sirtuin-type.				chromatin silencing|negative regulation of insulin secretion|protein ADP-ribosylation|protein deacetylation	mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|protein binding|zinc ion binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGAAACTGAATTCTCGTTGTG	0.493													32	136					0	0	1	0	0		C	120750797	C	C	120750797	2	2	187	1	0	0	0	0	0	0	0	1	14365	1490	52	3		3	SIRT4	12	120750797	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	5957376	120750797	13101098	588	93371											
P2RX4	5025	broad.mit.edu	37	chr12	121660807	121660807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtcaagacgtgtgaggtggCggcctggtgcccggtggagg	5	8	20	8	3	1	2	1	1	0	1	1	3	1	3	2	7	1	0	2	7	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:121660807C>T	uc001tzr.2	+	5	789	c.485C>T	c.(484-486)GCG>GTG	p.A162V	P2RX4_uc010szr.1_Intron|P2RX4_uc010szs.1_Intron|P2RX4_uc009zxc.2_Intron|P2RX4_uc001tzs.2_Missense_Mutation_p.A178V|P2RX4_uc009zxb.2_RNA|P2RX4_uc010szt.1_Missense_Mutation_p.A61V	NM_002560	NP_002551	Q99571	P2RX4_HUMAN	purinergic receptor P2X4	162	Extracellular (Potential).				endothelial cell activation|negative regulation of cardiac muscle hypertrophy|positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|regulation of apoptosis|regulation of blood pressure|regulation of sodium ion transport|relaxation of cardiac muscle|response to ATP|response to fluid shear stress|sensory perception of pain|tissue homeostasis	cell junction|perinuclear region of cytoplasm	cadherin binding|copper ion binding|extracellular ATP-gated cation channel activity|protein homodimerization activity|purinergic nucleotide receptor activity|receptor binding|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					TGTGAGGTGGCGGCCTGGTGC	0.522													15	26					0	0	1	0	0		T	121660807	T	T	121660807	3	4	187	1	0	0	0	0	1	0	0	0	11361	768	27	1	503	1	P2RX4	12	121660807	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	910010	121660807	12191088	589	93372											
B3GNT4	79369	broad.mit.edu	37	chr12	122691861	122691861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaccgcctcagccccctcGagatgtggaccatgtgggca	7	8	11	15	2	2	1	2	0	0	1	3	3	2	2	5	2	1	1	5	2	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:122691861G>A	uc001ubx.2	+	3	1281	c.1063G>A	c.(1063-1065)GAG>AAG	p.E355K	B3GNT4_uc001uby.2_Missense_Mutation_p.E330K	NM_030765	NP_110392	Q9C0J1	B3GN4_HUMAN	UDP-GlcNAc:betaGal	355	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000297)|Epithelial(86;0.000497)|BRCA - Breast invasive adenocarcinoma(302;0.222)		CAGCCCCCTCGAGATGTGGAC	0.627													9	38					0	0	1	0	0		A	122691861	A	A	122691861	3	1	187	1	0	0	0	0	1	0	0	0	1260	1059	37	1	1069	1	B3GNT4	12	122691861	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1031054	122691861	11160034	590	93373											
NCOR2	9612	broad.mit.edu	37	chr12	124826544	124826544	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgtgtcggggtagccGcggatgaggtagggtgggta	5	7	21	8	5	0	1	0	1	0	0	1	2	0	2	3	6	1	3	3	6	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:124826544G>A	uc010tba.1	-	34	5154	c.5037C>T	c.(5035-5037)CGC>CGT	p.R1679R	NCOR2_uc010tay.1_Silent_p.R1678R|NCOR2_uc010taz.1_Silent_p.R1662R|NCOR2_uc010tbb.1_Silent_p.R1671R|NCOR2_uc010tbc.1_Silent_p.R1661R|NCOR2_uc010tax.1_5'Flank	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1679					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		CGGGGTAGCCGCGGATGAGGT	0.672													15	71					0	0	1	0	0		A	124826544	A	A	124826544	2	1	187	1	0	0	0	0	0	0	0	1	10255	1074	38	1		1	NCOR2	12	124826544	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2134683	124826544	9025351	591	93374											
AACS	65985	broad.mit.edu	37	chr12	125613904	125613904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcggtctggggagagagcGgcgagctggtgtgtactaag	8	7	20	6	3	1	1	0	0	1	1	1	4	1	2	0	6	3	2	0	6	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:125613904G>A	uc001uhc.2	+	14	1653	c.1447G>A	c.(1447-1449)GGC>AGC	p.G483S	AACS_uc001uhd.2_Missense_Mutation_p.G483S|AACS_uc009zyh.2_Intron|AACS_uc009zyi.2_Missense_Mutation_p.G81S	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	483					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		GGGAGAGAGCGGCGAGCTGGT	0.522													15	290					0	0	1	0	0		A	125613904	A	A	125613904	3	1	187	1	0	0	0	0	1	0	0	0	9	1116	39	1	1501	1	AACS	12	125613904	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	787360	125613904	8237991	592	93375											
FZD10	11211	broad.mit.edu	37	chr12	130648101	130648101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaccacgtggagaagagcgCgtcgtgcgcgccgctctgca	7	5	14	15	7	1	2	0	0	1	2	2	3	1	2	3	1	3	2	3	1	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:130648101C>T	uc001uii.2	+	1	1070	c.614C>T	c.(613-615)GCG>GTG	p.A205V	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	205	Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GAGAAGAGCGCGTCGTGCGCG	0.622													5	38					0	0	1	0	0		T	130648101	T	T	130648101	3	4	187	1	0	0	0	0	1	0	0	0	6143	768	27	1	616	1	FZD10	12	130648101	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5034197	130648101	3203794	593	93376											
PIWIL1	9271	broad.mit.edu	37	chr12	130856060	130856060	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgctccttgccagtacGcccacaagctggcttttctt	5	14	7	15	1	1	0	0	0	1	0	3	0	3	0	4	1	4	4	4	1	2	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:130856060G>T	uc001uik.2	+	21	2593	c.2503G>T	c.(2503-2505)GCC>TCC	p.A835S		NM_004764	NP_004755	Q96J94	PIWL1_HUMAN	piwi-like 1	835	Piwi.				gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatid development	chromatoid body|P granule	mRNA binding|piRNA binding|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.02e-06)|Epithelial(86;3.85e-05)|all cancers(50;4.65e-05)		TTGCCAGTACGCCCACAAGCT	0.453													62	118					2.32099e-22	2.56366e-22	1	1	0		T	130856060	T	T	130856060	3	4	187	1	0	0	0	0	1	0	0	0	11976	1087	38	5	2581	5	PIWIL1	12	130856060	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	207959	130856060	2995835	594	93377											
ULK1	8408	broad.mit.edu	37	chr12	132393282	132393282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaaaggcatcatccaccGcgacctgaaaccgcagaaca	15	3	8	15	3	1	2	1	1	0	1	2	3	2	2	4	1	3	3	4	1	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:132393282G>A	uc001uje.2	+	6	678	c.410G>A	c.(409-411)CGC>CAC	p.R137H		NM_003565	NP_003556	O75385	ULK1_HUMAN	Unc-51-like kinase 1	137	Protein kinase.				autophagy|protein localization|regulation of autophagy	autophagic vacuole|cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	ATP binding|protein complex binding|protein serine/threonine kinase activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.07e-08)|Epithelial(86;2.56e-07)|all cancers(50;3.01e-07)		ATCATCCACCGCGACCTGAAA	0.602													11	32					0	0	1	0	0		A	132393282	A	A	132393282	3	1	187	1	0	0	0	0	1	0	0	0	17001	1087	38	1	432	1	ULK1	12	132393282	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1537222	132393282	1458613	595	93378											
EP400	57634	broad.mit.edu	37	chr12	132549334	132549334	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcagacctcgcagccgcCgcagcagcagagcccccagc	9	2	12	18	3	0	2	0	0	0	2	1	2	0	2	5	0	6	5	5	0	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:132549334C>A	uc001ujn.2	+	47	8491	c.8456C>A	c.(8455-8457)CCG>CAG	p.P2819Q	EP400_uc001ujl.2_Missense_Mutation_p.P2818Q|EP400_uc001ujm.2_Missense_Mutation_p.P2738Q|EP400_uc001ujp.2_Missense_Mutation_p.P36Q	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2855					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		TCGCAGCCGCCGCAGCAGCAG	0.706													7	63					0.0293803	0.0296023	1	1	0		A	132549334	A	A	132549334	3	1	187	1	0	0	0	0	1	0	0	0	5157	652	23	5	8639	5	EP400	12	132549334	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	156052	132549334	1302561	596	93379											
EP400	57634	broad.mit.edu	37	chr12	132551511	132551511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggtcagccacagaaggcaGcaggtgcccgccccagcaca	10	3	12	16	2	1	1	1	0	0	1	2	1	1	1	4	3	4	3	4	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr12:132551511G>A	uc001ujn.2	+	48	8781	c.8746G>A	c.(8746-8748)GCA>ACA	p.A2916T	EP400_uc001ujl.2_Missense_Mutation_p.A2915T|EP400_uc001ujm.2_Missense_Mutation_p.A2835T|EP400_uc001ujp.2_Missense_Mutation_p.A126T	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2952					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		ACAGAAGGCAGCAGGTGCCCG	0.667													4	25					0	0	1	0	0		A	132551511	A	A	132551511	3	1	187	1	0	0	0	0	1	0	0	0	5157	971	34	2	8933	2	EP400	12	132551511	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2177	132551511	1300384	597	93380											
ZMYM2	7750	broad.mit.edu	37	chr13	20608469	20608469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgcatagttacatattgcGaatactgtcaagaggagaag	15	11	10	5	1	1	2	1	0	0	2	1	4	1	2	0	1	4	2	0	1	7	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:20608469G>A	uc001umr.2	+	12	2342	c.2044G>A	c.(2044-2046)GAA>AAA	p.E682K	ZMYM2_uc001ums.2_Missense_Mutation_p.E682K|ZMYM2_uc001umt.2_Missense_Mutation_p.E682K|ZMYM2_uc010tco.1_RNA|ZMYM2_uc001umv.2_Missense_Mutation_p.E62K|ZMYM2_uc001umw.2_Missense_Mutation_p.E135K	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	682	MYM-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TACATATTGCGAATACTGTCA	0.388													24	61					0	0	1	0	0		A	20608469	A	A	20608469	3	1	187	1	0	0	0	0	1	0	0	0	17725	1059	37	1	2078	1	ZMYM2	13	20608469	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		20608469	94561409	598	93381											
TNFRSF19	55504	broad.mit.edu	37	chr13	24233255	24233255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cccacgggacacggcgctggCtgccgttatctgcagcgctc	5	7	13	16	5	1	0	0	0	1	0	2	1	1	1	2	3	3	5	2	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:24233255C>T	uc001uov.1	+	6	576	c.512C>T	c.(511-513)GCT>GTT	p.A171V	TNFRSF19_uc001uot.2_Missense_Mutation_p.A171V|TNFRSF19_uc010tcu.1_Missense_Mutation_p.A39V|TNFRSF19_uc001uow.2_Missense_Mutation_p.A171V	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	171	Helical; (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		ACGGCGCTGGCTGCCGTTATC	0.582													20	69					0	0	1	0	0		T	24233255	T	T	24233255	3	4	187	1	0	0	0	0	1	0	0	0	16317	797	28	2	530	2	TNFRSF19	13	24233255	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3624786	24233255	90936623	599	93382											
MIPEP	4285	broad.mit.edu	37	chr13	24413805	24413805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctgatgtggtttgtctgCtcgctgaaaaaaatcacagt	11	12	9	9	1	2	2	1	2	1	0	3	2	2	2	1	1	1	3	1	1	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:24413805C>T	uc001uox.3	-	12	1421	c.1321G>A	c.(1321-1323)GCA>ACA	p.A441T		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	441					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		GGTTTGTCTGCTCGCTGAAAA	0.348													13	70					0	0	1	0	0		T	24413805	T	T	24413805	3	4	187	1	0	0	0	0	1	0	0	0	9610	797	28	2	852	2	MIPEP	13	24413805	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	180550	24413805	90756073	600	93383											
FLT3	2322	broad.mit.edu	37	chr13	28592636	28592636	+	Missense_Mutation	SNP	T	G	G	0	1	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	aacatagttggaatcactcaTgatatctcgagccaatccaa	15	10	6	10	1	3	1	2	1	1	0	5	3	4	2	2	1	2	1	2	1	6	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:28592636T>G	uc001urw.2	-	20	2591	c.2509A>C	c.(2509-2511)ATG>CTG	p.M837L	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Intron	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	837	Protein kinase.|Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity	p.I836del(3)|p.D835_M837>VFP(2)|p.M837P(2)|p.D835_S838del(1)		haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	GAATCACTCATGATATCTCGA	0.443			Mis|O		AML|ALL								18	65					0	0	1	0	0		G	28592636	G	G	28592636	3	3	187	1	0	0	0	0	1	0	0	0	5956	1464	51	5	492	5	FLT3	13	28592636	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	4178831	28592636	86577242	601	93384											
SLC46A3	283537	broad.mit.edu	37	chr13	29287531	29287531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaagcaaacagagccaaaCgctggttgcaagagcaccaa	17	3	10	11	1	0	2	0	0	0	2	0	2	0	2	2	1	6	6	2	1	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:29287531C>T	uc001usi.2	-	2	1316	c.346G>A	c.(346-348)GTT>ATT	p.V116I	SLC46A3_uc001usg.2_Missense_Mutation_p.V41I|SLC46A3_uc001usj.2_Missense_Mutation_p.V116I|SLC46A3_uc001ush.2_Missense_Mutation_p.V116I|SLC46A3_uc001usk.2_Missense_Mutation_p.V41I	NM_181785	NP_861450	Q7Z3Q1	S46A3_HUMAN	solute carrier family 46, member 3 isoform a	116	Helical; (Potential).				transmembrane transport	integral to membrane				central_nervous_system(1)|skin(1)	2		Lung SC(185;0.0367)		all cancers(112;0.159)		CAGAGCCAAACGCTGGTTGCA	0.413													10	40					0	0	1	0	0		T	29287531	T	T	29287531	3	4	187	1	0	0	0	0	1	0	0	0	14671	536	19	1	1069	1	SLC46A3	13	29287531	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	694895	29287531	85882347	602	93385											
STARD13	90627	broad.mit.edu	37	chr13	33703176	33703176	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttccacatcactgggtgtCgtccgaccttctgagacaga	8	11	9	13	2	2	2	1	1	1	2	5	4	4	2	3	1	0	0	3	1	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:33703176C>T	uc001uuw.2	-	5	1764	c.1638G>A	c.(1636-1638)ACG>ACA	p.T546T	STARD13_uc001uuu.2_Silent_p.T538T|STARD13_uc001uuv.2_Silent_p.T428T|STARD13_uc001uux.2_Silent_p.T511T|STARD13_uc010tec.1_RNA|STARD13_uc010abh.1_Silent_p.T531T	NM_178006	NP_821074	Q9Y3M8	STA13_HUMAN	StAR-related lipid transfer (START) domain	546					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|lipid particle|mitochondrial membrane	GTPase activator activity|protein binding			ovary(2)|pancreas(1)|skin(1)	4	all_epithelial(80;0.155)	Lung SC(185;0.0367)		all cancers(112;1.31e-05)|Epithelial(112;0.000142)|BRCA - Breast invasive adenocarcinoma(63;0.00936)|OV - Ovarian serous cystadenocarcinoma(117;0.0533)|Lung(94;0.143)|GBM - Glioblastoma multiforme(144;0.143)		CACTGGGTGTCGTCCGACCTT	0.483													24	66					0	0	1	0	0		T	33703176	T	T	33703176	2	4	187	1	0	0	0	0	0	0	0	1	15281	871	31	1		1	STARD13	13	33703176	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4415645	33703176	81466702	603	93386											
FREM2	341640	broad.mit.edu	37	chr13	39338488	39338488	+	Missense_Mutation	SNP	A	T	T	1	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	ttcgtctgaattgggcatggAtctcctttgaaaaggaatat	11	14	10	6	1	2	2	0	2	2	0	4	4	2	4	1	3	0	1	1	3	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:39338488A>T	uc001uwv.2	+	3	5620	c.5311A>T	c.(5311-5313)ATC>TTC	p.I1771F		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	1771	Calx-beta 1.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		TTGGGCATGGATCTCCTTTGA	0.343													4	81					0	0	1	0	0		T	39338488	T	T	39338488	3	4	187	1	0	0	0	0	1	0	0	0	6059	333	12	5	5321	5	FREM2	13	39338488	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	5635312	39338488	75831390	604	93387											
STOML3	161003	broad.mit.edu	37	chr13	39541050	39541050	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggcagaggaaacacaatcGtagaattcttctcggtggct	11	10	12	8	2	2	2	0	0	2	2	4	3	2	3	0	4	1	3	0	4	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:39541050G>A	uc001uwx.2	-	7	926	c.788C>T	c.(787-789)ACG>ATG	p.T263M	STOML3_uc010tez.1_Missense_Mutation_p.T254M	NM_145286	NP_660329	Q8TAV4	STML3_HUMAN	stomatin-like 3 isoform 1	263	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(1)	1		Lung NSC(96;1.42e-05)|Prostate(109;0.00851)|Breast(139;0.0199)|Lung SC(185;0.0743)		all cancers(112;2.93e-08)|Epithelial(112;3.64e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00107)|BRCA - Breast invasive adenocarcinoma(63;0.00349)|GBM - Glioblastoma multiforme(144;0.0137)		AAACACAATCGTAGAATTCTT	0.522													20	68					0	0	1	0	0		A	39541050	A	A	39541050	3	1	187	1	0	0	0	0	1	0	0	0	15340	1145	40	1	91	1	STOML3	13	39541050	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	202562	39541050	75628828	605	93388											
ZC3H13	23091	broad.mit.edu	37	chr13	46542109	46542109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagatcttgaatggacctgtCgatctgactctggagaactt	10	12	10	9	1	3	4	0	2	3	2	4	7	3	5	1	2	1	0	1	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:46542109C>T	uc010tfw.1	-	14	3857	c.3851G>A	c.(3850-3852)CGA>CAA	p.R1284Q	ZC3H13_uc001vaq.2_5'UTR|ZC3H13_uc001vas.1_Missense_Mutation_p.R1284Q	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1284	Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		ATGGACCTGTCGATCTGACTC	0.323													47	149					0	0	1	0	0		T	46542109	T	T	46542109	3	4	187	1	0	0	0	0	1	0	0	0	17590	884	31	1	855	1	ZC3H13	13	46542109	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7001059	46542109	68627769	606	93389											
KCNRG	283518	broad.mit.edu	37	chr13	50590127	50590127	+	Silent	SNP	G	A	A	0	0	1	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	cagatgaccttacttccactGcctccacaaagaccttctta	11	11	4	15	0	1	3	0	1	1	2	3	3	3	3	5	0	2	0	5	0	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:50590127G>A	uc001vdu.2	+	1	738	c.498G>A	c.(496-498)CTG>CTA	p.L166L	DLEU2_uc001vdn.1_Intron|DLEU2_uc001vdo.1_Intron|KCNRG_uc001vdt.2_Silent_p.L166L|TRIM13_uc001vdp.1_3'UTR|TRIM13_uc001vdq.1_3'UTR|TRIM13_uc001vdr.1_3'UTR|TRIM13_uc001vds.1_3'UTR	NM_173605	NP_775876	Q8N5I3	KCNRG_HUMAN	potassium channel regulator isoform 1	166						voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0		Acute lymphoblastic leukemia(7;3.41e-06)|Lung NSC(96;3.08e-05)|Breast(56;9.7e-05)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;1.48e-10)|COAD - Colon adenocarcinoma(199;0.204)		TACTTCCACTGCCTCCACAAA	0.453													19	58					0	0	1	0	0		A	50590127	A	A	50590127	2	1	187	1	0	0	0	0	0	0	0	1	8103	1306	46	2		2	KCNRG	13	50590127	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4048018	50590127	64579751	607	93390											
SLITRK5	26050	broad.mit.edu	37	chr13	88329509	88329509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagatgtagtagtttccacGcccacaccctcctctatcca	9	11	5	16	1	2	1	1	0	1	1	5	1	5	1	5	0	0	3	5	0	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:88329509G>A	uc001vln.2	+	2	2085	c.1866G>A	c.(1864-1866)ACG>ACA	p.T622T	SLITRK5_uc010tic.1_Silent_p.T381T	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	622	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TAGTTTCCACGCCCACACCCT	0.607													46	160					0	0	1	0	0		A	88329509	A	A	88329509	2	1	187	1	0	0	0	0	0	0	0	1	14771	1074	38	1		1	SLITRK5	13	88329509	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	37739382	88329509	26840369	608	93391											
MBNL2	10150	broad.mit.edu	37	chr13	98009823	98009823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcggtctttaaccccagcGtcttgcactaccagcaggct	7	9	10	15	3	2	0	0	0	2	0	2	0	2	0	3	2	5	3	3	2	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:98009823G>A	uc010aft.2	+	6	1708	c.892G>A	c.(892-894)GTC>ATC	p.V298I	MBNL2_uc001vmz.2_Missense_Mutation_p.V298I|MBNL2_uc001vna.2_Missense_Mutation_p.V298I|MBNL2_uc001vnb.2_RNA|MBNL2_uc010tij.1_Missense_Mutation_p.V143I|MBNL2_uc001vnc.2_Missense_Mutation_p.V31I	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1	298					mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			TAACCCCAGCGTCTTGCACTA	0.532													31	106					0	0	1	0	0		A	98009823	A	A	98009823	3	1	187	1	0	0	0	0	1	0	0	0	9372	1145	40	1	910	1	MBNL2	13	98009823	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9680314	98009823	17160055	609	93392											
DOCK9	23348	broad.mit.edu	37	chr13	99533825	99533825	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacataccttaacatatgacCtcaagtggctctccaatcct	12	12	4	13	0	2	1	1	1	1	0	4	1	3	1	4	1	3	1	4	1	6	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:99533825C>A	uc001vnt.2	-	25	2790	c.2735G>T	c.(2734-2736)AGG>ATG	p.R912M	DOCK9_uc001vnw.2_Missense_Mutation_p.R911M|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.R912M|DOCK9_uc010tis.1_Missense_Mutation_p.R911M|DOCK9_uc010tit.1_Missense_Mutation_p.R912M|DOCK9_uc010afu.1_Missense_Mutation_p.R758M	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	912					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AACATATGACCTCAAGTGGCT	0.403													4	10					0.184627	0.184627	1	1	0		A	99533825	A	A	99533825	3	1	187	1	0	0	0	0	1	0	0	0	4700	681	24	5	3663	5	DOCK9	13	99533825	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1524002	99533825	15636053	610	93393											
NALCN	259232	broad.mit.edu	37	chr13	101735484	101735484	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgggccaggacgagtaatgCgattgtcctcttaaaaaatg	12	10	11	8	2	1	0	0	0	1	0	2	3	2	1	2	2	1	1	2	2	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:101735484C>T	uc001vox.1	-	32	3838	c.3649G>A	c.(3649-3651)GCA>ACA	p.A1217T		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1217	Helical; Name=S1 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ACGAGTAATGCGATTGTCCTC	0.423													16	57					0	0	1	0	0		T	101735484	T	T	101735484	3	4	187	1	0	0	0	0	1	0	0	0	10166	768	27	1	1619	1	NALCN	13	101735484	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2201659	101735484	13434394	611	93394											
ING1	3621	broad.mit.edu	37	chr13	111372025	111372025	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccaaggccaaggcggagCgagaggcgtcccctgccgac	8	3	15	15	4	0	1	0	0	0	1	2	4	2	2	5	4	2	1	5	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:111372025C>T	uc001vri.2	+	2	1447	c.1015C>T	c.(1015-1017)CGA>TGA	p.R339*	ING1_uc001vrf.2_Nonsense_Mutation_p.R152*|ING1_uc001vrg.2_Nonsense_Mutation_p.R127*|ING1_uc001vrh.2_Nonsense_Mutation_p.R196*	NM_005537	NP_005528	Q9UK53	ING1_HUMAN	inhibitor of growth family, member 1 isoform D	339					cell cycle|negative regulation of cell growth|negative regulation of cell proliferation	nucleus	zinc ion binding			ovary(1)	1	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)			CAAGGCGGAGCGAGAGGCGTC	0.627													17	50					0	0	1	0	0		T	111372025	T	T	111372025	4	4	187	1	0	0	0	0	0	1	0	0	7751	760	27	1	1169	1	ING1	13	111372025	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9636541	111372025	3797853	612	93395											
F7	2155	broad.mit.edu	37	chr13	113772750	113772750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcacgacctcagcgagcacGacggggatgagcagagccgg	11	2	16	12	5	1	2	1	1	0	1	1	6	1	3	2	3	5	3	2	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr13:113772750G>A	uc001vsv.2	+	9	880	c.829G>A	c.(829-831)GAC>AAC	p.D277N	F7_uc001vsw.2_Missense_Mutation_p.D255N|F7_uc010tjt.1_Missense_Mutation_p.D208N	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	277	Peptidase S1.		D -> N (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	CAGCGAGCACGACGGGGATGA	0.682													6	115					0	0	1	0	0		A	113772750	A	A	113772750	3	1	187	1	0	0	0	0	1	0	0	0	5357	1058	37	1	863	1	F7	13	113772750	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2400725	113772750	1397128	613	93396											
RBM23	55147	broad.mit.edu	37	chr14	23375437	23375437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaggactcctgtaatgcacaCgatcctcacgacgatggtcc	10	8	10	13	3	1	0	1	0	0	0	4	5	4	1	3	2	1	2	3	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:23375437C>T	uc001whg.2	-	5	567	c.368G>A	c.(367-369)CGT>CAT	p.R123H	RBM23_uc001whh.2_Missense_Mutation_p.R107H|RBM23_uc001whi.2_Missense_Mutation_p.R107H|RBM23_uc010tne.1_Translation_Start_Site|RBM23_uc001whj.2_Translation_Start_Site|RBM23_uc001whk.1_Missense_Mutation_p.R123H	NM_001077351	NP_001070819	Q86U06	RBM23_HUMAN	RNA binding motif protein 23 isoform 1	123	Arg-rich.				mRNA processing	nucleus	nucleotide binding|RNA binding			skin(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.0128)		GTAATGCACACGATCCTCACG	0.493													13	60					0	0	1	0	0		T	23375437	T	T	23375437	3	4	187	1	0	0	0	0	1	0	0	0	13148	536	19	1	991	1	RBM23	14	23375437	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		23375437	83974103	614	93397											
HOMEZ	57594	broad.mit.edu	37	chr14	23746064	23746064	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgacggtagactactcGggctcgagtctcttctattt	6	13	10	12	4	2	1	0	0	2	1	6	3	3	1	1	2	1	2	1	2	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:23746064G>A	uc001wja.2	-	2	521	c.373C>T	c.(373-375)CGA>TGA	p.R125*	HOMEZ_uc001wjb.2_Nonsense_Mutation_p.R127*	NM_020834	NP_065885	Q8IX15	HOMEZ_HUMAN	homeodomain leucine zipper protein	125						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00643)		TAGACTACTCGGGCTCGAGTC	0.532													49	137					0	0	1	0	0		A	23746064	A	A	23746064	4	1	187	1	0	0	0	0	0	1	0	0	7297	1124	39	1	1283	1	HOMEZ	14	23746064	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	370627	23746064	83603476	615	93398											
CPNE6	9362	broad.mit.edu	37	chr14	24546405	24546405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcactgacggtgtggtgagcGacatggctgagactcgcact	8	9	14	10	3	1	3	1	3	0	1	2	5	1	3	0	3	1	2	0	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:24546405G>A	uc001wll.2	+	15	1441	c.1342G>A	c.(1342-1344)GAC>AAC	p.D448N	CPNE6_uc010tnv.1_Missense_Mutation_p.D503N|CPNE6_uc001wlm.2_Missense_Mutation_p.D273N|CPNE6_uc001wln.2_Missense_Mutation_p.D116N	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	448	VWFA.				lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		TGTGGTGAGCGACATGGCTGA	0.597													12	61					0	0	1	0	0		A	24546405	A	A	24546405	3	1	187	1	0	0	0	0	1	0	0	0	3819	1058	37	1	1396	1	CPNE6	14	24546405	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	800341	24546405	82803135	616	93399											
IPO4	79711	broad.mit.edu	37	chr14	24651519	24651519	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatggcaggaaaccggcaaAgaatggggcaaaggagtctc	15	5	14	7	1	1	1	0	0	1	1	2	3	1	3	1	6	1	3	1	6	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:24651519A>C	uc001wmv.1	-	25	2694	c.2563T>G	c.(2563-2565)TTT>GTT	p.F855V	IPO4_uc001wmt.1_Missense_Mutation_p.F333V|IPO4_uc001wmu.2_Missense_Mutation_p.F517V|IPO4_uc001wmx.1_Missense_Mutation_p.F719V|IPO4_uc001wmy.1_Missense_Mutation_p.F719V|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Missense_Mutation_p.F855V	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	855					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		AAACCGGCAAAGAATGGGGCA	0.612													5	31					0	0	1	0	0		C	24651519	C	C	24651519	3	2	187	1	0	0	0	0	1	0	0	0	7811	72	3	5	706	5	IPO4	14	24651519	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	105114	24651519	82698021	617	93400											
GZMH	2999	broad.mit.edu	37	chr14	25077550	25077550	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcttccgactcttctcttGcagaaactgaacaaaggcca	11	10	6	14	1	3	2	0	1	3	1	5	3	4	2	3	1	3	1	3	1	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:25077550G>A	uc001wpr.1	-	2	169	c.124C>T	c.(124-126)CAA>TAA	p.Q42*	GZMH_uc010aly.1_Nonsense_Mutation_p.Q42*|GZMH_uc010alz.1_Nonsense_Mutation_p.Q42*	NM_033423	NP_219491	P20718	GRAH_HUMAN	granzyme H precursor	42	Peptidase S1.				apoptosis|cytolysis|proteolysis	cytoplasm	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(265;0.0267)		CTCTTCTCTTGCAGAAACTGA	0.547													61	161					0	0	1	0	0		A	25077550	A	A	25077550	4	1	187	1	0	0	0	0	0	1	0	0	6933	1328	46	2	632	2	GZMH	14	25077550	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	426031	25077550	82271990	618	93401											
NPAS3	64067	broad.mit.edu	37	chr14	33684481	33684481	+	Silent	SNP	G	A	A	0	0	1	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	tatgaattggccaagttgttGcctcttcctgcagccattac	8	14	8	11	0	1	1	0	1	1	0	2	1	2	1	4	1	4	3	4	1	4	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:33684481G>A	uc001wru.2	+	3	298	c.234G>A	c.(232-234)TTG>TTA	p.L78L	NPAS3_uc001wrs.2_Silent_p.L48L|NPAS3_uc001wrt.2_Silent_p.L48L|NPAS3_uc001wrv.2_Silent_p.L48L|NPAS3_uc001wrw.2_5'UTR	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	78	Helix-loop-helix motif.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		CCAAGTTGTTGCCTCTTCCTG	0.473													32	86					0	0	1	0	0		A	33684481	A	A	33684481	2	1	187	1	0	0	0	0	0	0	0	1	10583	1310	46	2		2	NPAS3	14	33684481	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8606931	33684481	73665059	619	93402											
MIPOL1	145282	broad.mit.edu	37	chr14	37969213	37969213	+	Missense_Mutation	SNP	T	A	A	0	1	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	aaaacagagagaacattgttTccatcactcaacaacaaaat	20	8	4	9	0	2	2	2	0	0	2	3	3	3	2	1	0	4	1	1	0	7	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:37969213T>A	uc001wuc.2	+	13	1635	c.1132T>A	c.(1132-1134)TCC>ACC	p.S378T	MIPOL1_uc010amr.2_RNA|MIPOL1_uc001wub.3_Missense_Mutation_p.S347T|MIPOL1_uc001wud.2_Missense_Mutation_p.S378T|MIPOL1_uc010ams.2_Missense_Mutation_p.S378T|MIPOL1_uc001wue.2_Missense_Mutation_p.S347T|MIPOL1_uc010amt.2_Missense_Mutation_p.S197T	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1	378	Potential.									ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		GAACATTGTTTCCATCACTCA	0.368													30	66					0	0	1	0	0		A	37969213	A	A	37969213	3	1	187	1	0	0	0	0	1	0	0	0	9611	1783	62	5	1170	5	MIPOL1	14	37969213	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	4284732	37969213	69380327	620	93403											
LRFN5	145581	broad.mit.edu	37	chr14	42356114	42356114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattacacctcatgctttcGctgacctacgaaatttgagg	10	14	7	10	2	1	2	1	2	0	0	2	3	1	2	2	1	3	2	2	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:42356114G>A	uc001wvm.2	+	3	1484	c.286G>A	c.(286-288)GCT>ACT	p.A96T	LRFN5_uc010ana.2_Missense_Mutation_p.A96T	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	96	Extracellular (Potential).|LRR 2.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TCATGCTTTCGCTGACCTACG	0.348										HNSCC(30;0.082)			19	48					0	0	1	0	0		A	42356114	A	A	42356114	3	1	187	1	0	0	0	0	1	0	0	0	8959	1087	38	1	288	1	LRFN5	14	42356114	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4386901	42356114	64993426	621	93404											
LRFN5	145581	broad.mit.edu	37	chr14	42360855	42360855	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccaaacaagctgtgggacaCgaagagaatgcccagtgttg	13	7	12	9	1	0	1	0	0	0	1	1	4	1	2	2	1	3	2	2	1	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:42360855C>T	uc001wvm.2	+	4	2986	c.1788C>T	c.(1786-1788)CAC>CAT	p.H596H	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	596	Cytoplasmic (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CTGTGGGACACGAAGAGAATG	0.473										HNSCC(30;0.082)			16	45					0	0	1	0	0		T	42360855	T	T	42360855	2	4	187	1	0	0	0	0	0	0	0	1	8959	535	19	1		1	LRFN5	14	42360855	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4741	42360855	64988685	622	93405											
ATP5S	27109	broad.mit.edu	37	chr14	50789395	50789395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagattcaggcgatcgacGccaccgactcttgtatcatg	11	9	9	12	4	3	1	2	0	1	1	4	4	3	1	2	1	0	1	2	1	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:50789395G>A	uc001wxw.1	+	3	1011	c.319G>A	c.(319-321)GCC>ACC	p.A107T	ATP5S_uc001wxv.2_Missense_Mutation_p.A107T|ATP5S_uc001wxx.1_Missense_Mutation_p.A107T|ATP5S_uc010ant.1_Missense_Mutation_p.A79T	NM_001003803	NP_001003803	Q99766	ATP5S_HUMAN	ATP synthase, H+ transporting, mitochondrial F0	107					ATP biosynthetic process	mitochondrial inner membrane|proton-transporting ATP synthase complex, coupling factor F(o)	hydrogen ion transmembrane transporter activity			ovary(1)|skin(1)	2	all_epithelial(31;0.000636)|Breast(41;0.0102)			OV - Ovarian serous cystadenocarcinoma(311;0.0685)		GGCGATCGACGCCACCGACTC	0.488													24	58					0	0	1	0	0		A	50789395	A	A	50789395	3	1	187	1	0	0	0	0	1	0	0	0	1164	1087	38	1	329	1	ATP5S	14	50789395	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8428540	50789395	56560145	623	93406											
CGRRF1	10668	broad.mit.edu	37	chr14	55004968	55004968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactgggtactcttaccatGcagacacacatgcctgtgtg	10	10	10	11	0	1	1	0	0	1	1	1	2	1	1	2	1	5	2	2	1	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:55004968G>A	uc001xay.2	+	6	957	c.866G>A	c.(865-867)TGC>TAC	p.C289Y	CGRRF1_uc001xaz.2_RNA	NM_006568	NP_006559	Q99675	CGRF1_HUMAN	cell growth regulator with ring finger domain 1	289	RING-type.				cell cycle arrest|negative regulation of cell proliferation|response to stress		zinc ion binding			ovary(1)	1						CTCTTACCATGCAGACACACA	0.468													17	54					0	0	1	0	0		A	55004968	A	A	55004968	3	1	187	1	0	0	0	0	1	0	0	0	3309	1319	46	2	888	2	CGRRF1	14	55004968	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4215573	55004968	52344572	624	93407											
GPR135	64582	broad.mit.edu	37	chr14	59930776	59930776	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcgaaatgttgggattgCggatggcgtagatgacaggg	10	9	17	5	3	0	2	0	1	0	1	1	5	0	4	0	4	1	3	0	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:59930776C>T	uc010apj.2	-	1	1284	c.1169G>A	c.(1168-1170)CGC>CAC	p.R390H	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	390	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		GTTGGGATTGCGGATGGCGTA	0.652													13	49					0	0	1	0	0		T	59930776	T	T	59930776	3	4	187	1	0	0	0	0	1	0	0	0	6659	768	27	1	319	1	GPR135	14	59930776	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4925808	59930776	47418764	625	93408											
DHRS7	51635	broad.mit.edu	37	chr14	60619659	60619659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtttgagcagccttacccGgagagcatgcttgctagcac	9	9	12	11	1	0	2	0	1	0	1	0	4	0	2	2	1	7	6	2	1	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:60619659G>A	uc001xes.2	-	4	815	c.631C>T	c.(631-633)CGG>TGG	p.R211W	C14orf135_uc001xeq.2_Intron|DHRS7_uc001xet.2_Missense_Mutation_p.R161W|DHRS7_uc001xeu.2_Missense_Mutation_p.R211W	NM_016029	NP_057113	Q9Y394	DHRS7_HUMAN	dehydrogenase/reductase (SDR family) member 7	211							binding|oxidoreductase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.121)		AGCCTTACCCGGAGAGCATGC	0.453													17	31					0	0	1	0	0		A	60619659	A	A	60619659	3	1	187	1	0	0	0	0	1	0	0	0	4501	1115	39	1	404	1	DHRS7	14	60619659	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	688883	60619659	46729881	626	93409											
DCAF5	8816	broad.mit.edu	37	chr14	69520750	69520750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaggccatttcagaccCgcaacaatctttgtgtagga	11	10	8	12	1	3	1	2	0	1	1	3	2	3	2	2	2	1	2	2	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:69520750C>T	uc001xkp.2	-	9	2872	c.2653G>A	c.(2653-2655)GGG>AGG	p.G885R	DCAF5_uc001xkq.2_Missense_Mutation_p.G884R	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	885						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						ATTTCAGACCCGCAACAATCT	0.577													12	66					0	0	1	0	0		T	69520750	T	T	69520750	3	4	187	1	0	0	0	0	1	0	0	0	4276	652	23	1	179	1	DCAF5	14	69520750	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	8901091	69520750	37828790	627	93410											
ZFYVE1	53349	broad.mit.edu	37	chr14	73440842	73440842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagtgttctgcacggcctCgcccaccttccgagcaatga	8	8	10	15	3	1	2	0	1	1	1	3	3	2	2	4	1	2	3	4	1	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:73440842C>T	uc001xnm.2	-	11	2687	c.2047G>A	c.(2047-2049)GAG>AAG	p.E683K	ZFYVE1_uc001xnl.2_Missense_Mutation_p.E268K|ZFYVE1_uc010arj.2_Missense_Mutation_p.E669K	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1	683						endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		TGCACGGCCTCGCCCACCTTC	0.557													37	71					0	0	1	0	0		T	73440842	T	T	73440842	3	4	187	1	0	0	0	0	1	0	0	0	17688	893	31	1	294	1	ZFYVE1	14	73440842	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3920092	73440842	33908698	628	93411											
YLPM1	56252	broad.mit.edu	37	chr14	75295977	75295977	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgggaggccattgccagCagaatggaggattatcttca	11	9	13	8	0	2	1	1	0	1	1	2	5	2	4	2	4	2	1	2	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:75295977C>T	uc001xqj.3	+	19	6349	c.6225C>T	c.(6223-6225)AGC>AGT	p.S2075S	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1880					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		CCATTGCCAGCAGAATGGAGG	0.473													21	64					0	0	1	0	0		T	75295977	T	T	75295977	2	4	187	1	0	0	0	0	0	0	0	1	17512	709	25	2		2	YLPM1	14	75295977	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1855135	75295977	32053563	629	93412											
FLVCR2	55640	broad.mit.edu	37	chr14	76045412	76045412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctcggtccatcccagcGtctcggtccatcccagcgtc	4	9	10	18	5	2	0	0	0	2	0	9	0	6	0	4	2	2	0	4	2	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:76045412G>A	uc001xrs.2	+	1	473	c.97G>A	c.(97-99)GTC>ATC	p.V33I		NM_017791	NP_060261	Q9UPI3	FLVC2_HUMAN	feline leukemia virus subgroup C cellular	33	8 X 6 AA tandem repeats of P-S-[VS]-S- [VIAG]-[HNP].|2.				transmembrane transport	integral to membrane|plasma membrane	heme binding|heme transporter activity				0				BRCA - Breast invasive adenocarcinoma(234;0.029)		CCATCCCAGCGTCTCGGTCCA	0.642													67	111					0	0	1	0	0		A	76045412	A	A	76045412	3	1	187	1	0	0	0	0	1	0	0	0	5960	1145	40	1	99	1	FLVCR2	14	76045412	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	749435	76045412	31304128	630	93413											
NRXN3	9369	broad.mit.edu	37	chr14	78710050	78710050	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagggaccctgtggtgagcGtccctgtgaaaatggtggga	8	8	17	8	2	0	2	0	2	0	0	1	5	1	4	2	4	1	0	2	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:78710050G>A	uc001xum.1	+	2		c.1407G>A						Q9Y4C0	NRX3A_HUMAN	Homo sapiens mRNA for KIAA0743 protein, partial cds.						axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TGTGGTGAGCGTCCCTGTGAA	0.567													24	51					0	0	1	0	0		A	78710050	A	A	78710050	1	1	187	0	1	0	0	0	0	0	0	0	10686	1160	40	1		1	NRXN3	14	78710050	RNA	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2664638	78710050	28639490	631	93414											
KCNK13	56659	broad.mit.edu	37	chr14	90528631	90528631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctggccgcgctcatcGtgctctacctgctgggcggc	2	10	14	15	4	2	0	1	0	1	0	3	0	2	0	2	3	5	5	2	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:90528631G>A	uc001xye.1	+	1	524	c.82G>A	c.(82-84)GTG>ATG	p.V28M		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	28	Helical; (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				CGCGCTCATCGTGCTCTACCT	0.731													7	5					0	0	1	0	0		A	90528631	A	A	90528631	3	1	187	1	0	0	0	0	1	0	0	0	8077	1145	40	1	84	1	KCNK13	14	90528631	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	11818581	90528631	16820909	632	93415											
BCL11B	64919	broad.mit.edu	37	chr14	99641282	99641282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtcgtcgcccgcgtcccCgccgcccgccgcacgcttca	2	6	11	22	10	1	0	1	0	0	0	5	0	2	0	6	0	0	2	6	0	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:99641282C>T	uc001yga.2	-	4	2158	c.1891G>A	c.(1891-1893)GGG>AGG	p.G631R	BCL11B_uc001ygb.2_Missense_Mutation_p.G560R	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	631	Gly-rich.					nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		cccgcgtccccgccgcccgcc	0.383			T	TLX3	T-ALL								3	8					0	0	1	0	0		T	99641282	T	T	99641282	3	4	187	1	0	0	0	0	1	0	0	0	1365	652	23	1	797	1	BCL11B	14	99641282	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9112651	99641282	7708258	633	93416											
BCL11B	64919	broad.mit.edu	37	chr14	99641913	99641913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctcttggctggcggctgCgggggcggcgtgccgccagg	1	8	20	12	5	1	0	0	0	1	0	1	0	1	0	2	7	3	3	2	7	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:99641913C>T	uc001yga.2	-	4	1527	c.1260G>A	c.(1258-1260)CCG>CCA	p.P420P	BCL11B_uc001ygb.2_Silent_p.P349P	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	420						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		CTGGCGGCTGCGGGGGCGGCG	0.682			T	TLX3	T-ALL								4	13					0	0	1	0	0		T	99641913	T	T	99641913	2	4	187	1	0	0	0	0	0	0	0	1	1365	755	27	1		1	BCL11B	14	99641913	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	631	99641913	7707627	634	93417											
WDR25	79446	broad.mit.edu	37	chr14	100992293	100992293	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagttcctgagcagcacagaCgcttccacccgggactcagc	9	6	11	15	2	1	2	1	1	0	1	3	4	3	3	3	1	3	4	3	1	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:100992293C>T	uc010avx.2	+	5	1281	c.1188C>T	c.(1186-1188)GAC>GAT	p.D396D	WDR25_uc001yhm.2_Silent_p.D388D|WDR25_uc001yhn.2_Silent_p.D396D|WDR25_uc010avy.2_RNA|WDR25_uc001yho.2_Silent_p.D139D	NM_001161476	NP_001154948	Q64LD2	WDR25_HUMAN	WD repeat domain 25	396	WD 4.										0		Melanoma(154;0.212)				GCAGCACAGACGCTTCCACCC	0.547													23	61					0	0	1	0	0		T	100992293	T	T	100992293	2	4	187	1	0	0	0	0	0	0	0	1	17308	535	19	1		1	WDR25	14	100992293	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1350380	100992293	6357247	635	93418											
C14orf73	91828	broad.mit.edu	37	chr14	103573763	103573763	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcccctctgtccccagccGctcttcagggttgtgtgcac	4	10	10	17	1	3	0	1	0	2	0	4	0	4	0	5	1	3	3	5	1	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:103573763G>A	uc001ymk.2	+	8	1660	c.1584G>A	c.(1582-1584)CCG>CCA	p.P528P		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	528											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GTCCCCAGCCGCTCTTCAGGG	0.637													14	59					0	0	1	0	0		A	103573763	A	A	103573763	2	1	187	1	0	0	0	0	0	0	0	1	1782	1074	38	1		1	C14orf73	14	103573763	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2581470	103573763	3775777	636	93419											
ZFYVE21	79038	broad.mit.edu	37	chr14	104199060	104199060	+	Silent	SNP	C	T	T	0	0	0	1	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	gtggaggacgtgactgtgggCaggaggcaggcggtggcgtg	6	6	23	6	3	0	1	0	1	0	0	0	4	0	4	0	8	0	2	0	8	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr14:104199060C>T	uc001yoc.2	+	6	664	c.630C>T	c.(628-630)GGC>GGT	p.G210G	ZFYVE21_uc001yod.2_Silent_p.G228G|ZFYVE21_uc001yoe.2_RNA	NM_024071	NP_076976	Q9BQ24	ZFY21_HUMAN	zinc finger, FYVE domain containing 21	210						cytoplasmic membrane-bounded vesicle|focal adhesion	metal ion binding				0		Melanoma(154;0.226)		Epithelial(152;0.245)		TGACTGTGGGCAGGAGGCAGG	0.632													11	129					0	0	1	0	0		T	104199060	T	T	104199060	2	4	187	1	0	0	0	0	0	0	0	1	17692	697	25	2		2	ZFYVE21	14	104199060	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	625297	104199060	3150480	637	93420											
CYFIP1	23191	broad.mit.edu	37	chr15	22997854	22997854	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctttccagaacatcttgccgCgagtccatgtgaaaggtgag	10	10	11	10	2	1	3	0	2	1	1	3	4	3	3	3	1	2	0	3	1	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:22997854C>T	uc001yus.2	+	27	3204	c.3100C>T	c.(3100-3102)CGA>TGA	p.R1034*	CYFIP1_uc001yut.2_Nonsense_Mutation_p.R1034*|CYFIP1_uc001yuu.2_Nonsense_Mutation_p.R603*|CYFIP1_uc001yuv.2_Nonsense_Mutation_p.R228*	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1034					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CATCTTGCCGCGAGTCCATGT	0.572													32	113					0	0	1	0	0		T	22997854	T	T	22997854	4	4	187	1	0	0	0	0	0	1	0	0	4140	760	27	1	3583	1	CYFIP1	15	22997854	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		22997854	79533538	638	93421											
NDN	4692	broad.mit.edu	37	chr15	23932077	23932077	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgccttctgcaccagctgCgccggggctggcggtgccgg	2	7	17	15	5	1	0	0	0	1	0	1	0	1	0	4	5	5	3	4	5	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:23932077C>T	uc001ywk.2	-	1	374	c.288G>A	c.(286-288)GCG>GCA	p.A96A		NM_002487	NP_002478	Q99608	NECD_HUMAN	necdin	96					negative regulation of cell proliferation|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perikaryon	DNA binding				0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00179)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		GCACCAGCTGCGCCGGGGCTG	0.677									Prader-Willi_syndrome				13	42					0	0	1	0	0		T	23932077	T	T	23932077	2	4	187	1	0	0	0	0	0	0	0	1	10266	755	27	1		1	NDN	15	23932077	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	934223	23932077	78599315	639	93422											
GABRB3	2562	broad.mit.edu	37	chr15	26866614	26866614	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcaagcgtgaggttgagaGggatcccagaataggcgagc	11	7	16	7	2	1	3	1	2	0	2	2	6	2	4	1	3	2	1	1	3	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:26866614G>T	uc001zaz.2	-	4	450	c.308C>A	c.(307-309)CCT>CAT	p.P103H	GABRB3_uc010uae.1_Missense_Mutation_p.P18H|GABRB3_uc001zba.2_Missense_Mutation_p.P103H|GABRB3_uc001zbb.2_Missense_Mutation_p.P159H|GABRB3_uc001zbc.2_RNA	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	103	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	GAGGTTGAGAGGGATCCCAGA	0.418													24	75					2.48779e-11	2.67588e-11	1	1	0		T	26866614	T	T	26866614	3	4	187	1	0	0	0	0	1	0	0	0	6182	1000	35	5	1137	5	GABRB3	15	26866614	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2934537	26866614	75664778	640	93423											
OTUD7A	161725	broad.mit.edu	37	chr15	31776256	31776256	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggccgcagtagcggcgtcGcggcgccgctgctcctgctc	2	6	16	17	8	0	0	0	0	0	0	3	0	1	0	3	3	3	5	3	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:31776256G>A	uc001zfq.2	-	11	2115	c.2022C>T	c.(2020-2022)CGC>CGT	p.R674R	OTUD7A_uc001zfr.2_Silent_p.R681R	NM_130901	NP_570971	Q8TE49	OTU7A_HUMAN	OTU domain containing 7A	674						cytoplasm|nucleus	cysteine-type peptidase activity|DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		all_lung(180;1.6e-09)		all cancers(64;2.44e-19)|Epithelial(43;6.82e-14)|GBM - Glioblastoma multiforme(186;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00189)|Lung(196;0.208)		tagcggcgTCGCGGCGCCGCT	0.488													11	4					0	0	1	0	0		A	31776256	A	A	31776256	2	1	187	1	0	0	0	0	0	0	0	1	11337	1074	38	1		1	OTUD7A	15	31776256	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4909642	31776256	70755136	641	93424											
AQR	9716	broad.mit.edu	37	chr15	35174732	35174732	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcttgaccaagtcatgtcGttttaaggcagcatgagtac	11	12	10	8	1	1	2	1	2	0	0	2	2	1	2	1	1	3	5	1	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:35174732G>A	uc001ziv.2	-	27	3317	c.3136C>T	c.(3136-3138)CGA>TGA	p.R1046*		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1046						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AAGTCATGTCGTTTTAAGGCA	0.353													8	29					0	0	1	0	0		A	35174732	A	A	35174732	4	1	187	1	0	0	0	0	0	1	0	0	835	1153	40	1	1357	1	AQR	15	35174732	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3398476	35174732	67356660	642	93425											
ZNF770	54989	broad.mit.edu	37	chr15	35273570	35273570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgcgacaatttacataaccGaatctaaggcaaccactttc	14	11	5	11	2	1	0	0	0	1	0	2	2	1	0	2	1	4	1	2	1	6	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:35273570G>A	uc001ziw.2	-	3	2377	c.2066C>T	c.(2065-2067)TCG>TTG	p.S689L		NM_014106	NP_054825	Q6IQ21	ZN770_HUMAN	zinc finger protein 770	689					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(122;4.59e-10)|all_lung(180;8.78e-09)		all cancers(64;1.97e-18)|GBM - Glioblastoma multiforme(113;2.11e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0643)		TTACATAACCGAATCTAAGGC	0.388													9	34					0	0	1	0	0		A	35273570	A	A	35273570	3	1	187	1	0	0	0	0	1	0	0	0	18168	1059	37	1	13	1	ZNF770	15	35273570	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	98838	35273570	67257822	643	93426											
PLA2G4D	283748	broad.mit.edu	37	chr15	42379564	42379564	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgactggtgtcggtgagCgtcttggtcttaaacttcat	7	14	13	7	2	3	2	1	2	2	0	4	3	3	3	0	4	2	0	0	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:42379564C>T	uc001zox.2	-	3	284	c.189G>A	c.(187-189)ACG>ACA	p.T63T		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD	63	C2.				phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		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)		TGTCGGTGAGCGTCTTGGTCT	0.552													45	151					0	0	1	0	0		T	42379564	T	T	42379564	2	4	187	1	0	0	0	0	0	0	0	1	12023	755	27	1		1	PLA2G4D	15	42379564	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7105994	42379564	60151828	644	93427											
CDAN1	146059	broad.mit.edu	37	chr15	43021535	43021535	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccactactgcctgacacccaCgaagcgagcagtttccggag	10	6	10	15	3	0	1	0	1	0	0	1	4	1	2	4	1	4	2	4	1	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:43021535C>T	uc001zql.2	-	18	2550	c.2433G>A	c.(2431-2433)TCG>TCA	p.S811S	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Silent_p.S137S	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	811						integral to membrane	protein binding			ovary(2)	2		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)		CTGACACCCACGAAGCGAGCA	0.567													26	86					0	0	1	0	0		T	43021535	T	T	43021535	2	4	187	1	0	0	0	0	0	0	0	1	3057	523	19	1		1	CDAN1	15	43021535	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	641971	43021535	59509857	645	93428											
ELL3	80237	broad.mit.edu	37	chr15	44066858	44066858	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatcttcttgctcccaatcTtctccctcttgtaaatcctg	6	17	3	15	0	6	0	1	0	5	0	9	0	8	0	3	0	1	2	3	0	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:44066858T>G	uc001zsw.1	-	7	1162	c.759A>C	c.(757-759)GAA>GAC	p.E253D	ELL3_uc001zsv.1_Missense_Mutation_p.E207D|ELL3_uc001zsx.1_Missense_Mutation_p.E138D|uc001zsy.2_5'Flank	NM_025165	NP_079441	Q9HB65	ELL3_HUMAN	elongation factor RNA polymerase II-like 3	253					positive regulation of transcription elongation, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				ovary(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;7.81e-07)		GCTCCCAATCTTCTCCCTCTT	0.473													41	151					0	0	1	0	0		G	44066858	G	G	44066858	3	3	187	1	0	0	0	0	1	0	0	0	5072	1606	56	5	454	5	ELL3	15	44066858	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1045323	44066858	58464534	646	93429											
SPG11	80208	broad.mit.edu	37	chr15	44856842	44856842	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaagaatcacttgctggtAtaaaatttcagcccaatctg	13	14	6	8	0	3	1	2	0	1	1	3	1	3	1	1	1	2	2	1	1	6	6	rs149711747		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:44856842A>G	uc001ztx.2	-	39	7085	c.7054T>C	c.(7054-7056)TAC>CAC	p.Y2352H	SPG11_uc010bdw.2_Missense_Mutation_p.Y482H|SPG11_uc010ueh.1_Missense_Mutation_p.Y2239H|SPG11_uc010uei.1_Intron	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	2352	Extracellular (Potential).				cell death	cytosol|integral to membrane|nucleus	protein binding			ovary(4)|skin(1)	5		all_cancers(109;1.29e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;1.34e-07)|all_lung(180;1.21e-06)|Melanoma(134;0.0122)		all cancers(107;2.93e-22)|GBM - Glioblastoma multiforme(94;1.55e-06)|COAD - Colon adenocarcinoma(120;0.0432)|Colorectal(105;0.0484)|Lung(196;0.104)|LUSC - Lung squamous cell carcinoma(244;0.214)		ACTTGCTGGTATAAAATTTCA	0.378													21	42					0	0	1	0	0		G	44856842	G	G	44856842	3	3	187	1	0	0	0	0	1	0	0	0	15066	449	16	3	285	3	SPG11	15	44856842	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	789984	44856842	57674550	647	93430											
SORD	6652	broad.mit.edu	37	chr15	45364620	45364620	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtggatatcaagggcgtgTttcgatactgcaacacgtga	11	10	13	7	3	1	1	1	1	0	0	2	3	1	2	0	3	3	2	0	3	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:45364620T>C	uc001zul.3	+	8	1033	c.892T>C	c.(892-894)TTT>CTT	p.F298L	SORD_uc001zum.3_Missense_Mutation_p.F298L|SORD_uc010bdz.2_Missense_Mutation_p.F219L	NM_003104	NP_003095	Q00796	DHSO_HUMAN	sorbitol dehydrogenase	298					fructose biosynthetic process|glucose metabolic process|L-xylitol catabolic process|sorbitol catabolic process|sperm motility	cilium|extracellular space|flagellum|membrane fraction|mitochondrial membrane|soluble fraction	L-iditol 2-dehydrogenase activity|NAD binding|sugar binding|zinc ion binding				0		all_cancers(109;3.43e-12)|all_epithelial(112;2.33e-10)|Lung NSC(122;6.01e-07)|all_lung(180;4.38e-06)|Melanoma(134;0.0122)		all cancers(107;1.6e-18)|GBM - Glioblastoma multiforme(94;4.95e-07)|COAD - Colon adenocarcinoma(120;0.0704)|Colorectal(133;0.0706)	NADH(DB00157)	CAAGGGCGTGTTTCGATACTG	0.617													9	6					0	0	1	0	0		C	45364620	C	C	45364620	3	2	187	1	0	0	0	0	1	0	0	0	14958	1725	60	3	922	3	SORD	15	45364620	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	507778	45364620	57166772	648	93431											
DUOX2	50506	broad.mit.edu	37	chr15	45392007	45392007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ataagagaacatgaaggagaCgctggccgccgtgcctcgtg	11	6	14	10	4	0	3	0	1	0	2	1	5	0	3	3	2	2	1	3	2	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:45392007C>T	uc010bea.2	-	25	3471	c.3268G>A	c.(3268-3270)GTC>ATC	p.V1090I	DUOX2_uc001zun.2_Missense_Mutation_p.V1090I	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1090	Interaction with TXNDC11 (By similarity).|Helical; (Potential).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		ATGAAGGAGACGCTGGCCGCC	0.577													19	77					0	0	1	0	0		T	45392007	T	T	45392007	3	4	187	1	0	0	0	0	1	0	0	0	4807	536	19	1	1418	1	DUOX2	15	45392007	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	27387	45392007	57139385	649	93432											
AP4E1	23431	broad.mit.edu	37	chr15	51250726	51250726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacctcttagataaggaaaCgccagaggaagttatagcta	15	9	9	8	1	1	2	0	0	1	2	1	4	1	4	2	2	3	2	2	2	8	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:51250726C>T	uc001zyx.1	+	14	1616	c.1586C>T	c.(1585-1587)ACG>ATG	p.T529M		NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	529					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		GATAAGGAAACGCCAGAGGAA	0.338													11	28					0	0	1	0	0		T	51250726	T	T	51250726	3	4	187	1	0	0	0	0	1	0	0	0	752	536	19	1	1640	1	AP4E1	15	51250726	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5858719	51250726	51280666	650	93433											
MYO5A	4644	broad.mit.edu	37	chr15	52668563	52668563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcgggcctggtagccccGcacgtatctctgcatggtga	6	9	12	14	3	1	1	0	1	1	0	3	1	1	1	4	3	2	4	4	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:52668563G>A	uc002aby.2	-	19	2645	c.2401C>T	c.(2401-2403)CGG>TGG	p.R801W	MYO5A_uc002abx.3_Missense_Mutation_p.R801W|MYO5A_uc010uge.1_Missense_Mutation_p.R670W	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	801	IQ 2.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TGGTAGCCCCGCACGTATCTC	0.562													3	41					0	0	1	0	0		A	52668563	A	A	52668563	3	1	187	1	0	0	0	0	1	0	0	0	10096	1086	38	1	3258	1	MYO5A	15	52668563	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1417837	52668563	49862829	651	93434											
CGNL1	84952	broad.mit.edu	37	chr15	57730401	57730401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggtgcctagcaggcacatcGttttctgaaaatgggccacc	9	9	11	12	2	1	1	0	1	1	0	2	1	1	1	3	3	2	3	3	3	3	3	rs143019005		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:57730401G>A	uc002aeg.2	+	2	280	c.204G>A	c.(202-204)TCG>TCA	p.S68S	CGNL1_uc010bfw.2_Silent_p.S68S	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	68	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		CAGGCACATCGTTTTCTGAAA	0.493													14	93					0	0	1	0	0		A	57730401	A	A	57730401	2	1	187	1	0	0	0	0	0	0	0	1	3307	1132	40	1		1	CGNL1	15	57730401	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5061838	57730401	44800991	652	93435											
SLTM	79811	broad.mit.edu	37	chr15	59182634	59182634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taatgcgttctcgctctcgaCgctctctctctgcaatctct	5	15	6	15	4	5	0	0	0	5	0	10	1	5	0	0	0	2	4	0	0	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:59182634C>T	uc002afp.2	-	15	2013	c.1925G>A	c.(1924-1926)CGT>CAT	p.R642H	SLTM_uc002afn.2_Missense_Mutation_p.R184H|SLTM_uc002afo.2_Missense_Mutation_p.R624H|SLTM_uc002afq.2_Missense_Mutation_p.R211H|SLTM_uc010bgd.2_Missense_Mutation_p.R211H	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	642	Arg/Glu-rich.|Potential.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TCGCTCTCGACGCTCTCTCTC	0.403													25	90					0	0	1	0	0		T	59182634	T	T	59182634	3	4	187	1	0	0	0	0	1	0	0	0	14779	536	19	1	1207	1	SLTM	15	59182634	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1452233	59182634	43348758	653	93436											
IGDCC3	9543	broad.mit.edu	37	chr15	65627671	65627671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggctgatccggatactggCgatgtttgaggccacacagt	8	10	14	9	2	0	2	0	2	0	0	1	4	1	3	2	4	1	2	2	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:65627671C>T	uc002aos.2	-	4	895	c.643G>A	c.(643-645)GCC>ACC	p.A215T		NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	215	Extracellular (Potential).|Ig-like C2-type 2.									ovary(3)	3						CGGATACTGGCGATGTTTGAG	0.607													25	83					0	0	1	0	0		T	65627671	T	T	65627671	3	4	187	1	0	0	0	0	1	0	0	0	7584	768	27	1	1845	1	IGDCC3	15	65627671	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6445037	65627671	36903721	654	93437											
LBXCOR1	390598	broad.mit.edu	37	chr15	68119726	68119726	+	Silent	SNP	A	G	G	1	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	gcggcagccgtggcggcggcAgcggcggcggcagcggcagc	4	1	22	14	8	0	0	0	0	0	0	0	0	0	0	1	8	4	4	1	8	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:68119726A>G	uc002aqy.1	+	3	1428	c.1428A>G	c.(1426-1428)GCA>GCG	p.A476A		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	520					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						tggcggcggcagcggcggcgg	0.507													3	7					0	0	1	0	0		G	68119726	G	G	68119726	2	3	187	1	0	0	0	0	0	0	0	1	8671	175	7	3		3	LBXCOR1	15	68119726	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	2492055	68119726	34411666	655	93438											
PIAS1	8554	broad.mit.edu	37	chr15	68466135	68466135	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tctcatctacaatgttttgaCgcaactctttacattcagat	11	16	4	10	1	4	2	2	1	3	1	5	2	4	2	0	0	3	2	0	0	4	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:68466135C>T	uc002aqz.2	+	9	1170	c.1074C>T	c.(1072-1074)GAC>GAT	p.D358D	PIAS1_uc002ara.2_5'Flank	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	358	SP-RING-type.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						AATGTTTTGACGCAACTCTTT	0.378													7	26					0	0	1	0	0		T	68466135	T	T	68466135	2	4	187	1	0	0	0	0	0	0	0	1	11894	535	19	1		1	PIAS1	15	68466135	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	346409	68466135	34065257	656	93439											
FEM1B	10116	broad.mit.edu	37	chr15	68583314	68583314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagtgcccttcatattatcGttcagtacaacaggcccatc	11	11	6	13	1	2	0	2	0	0	0	4	0	2	0	2	1	3	2	2	1	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:68583314G>A	uc002arg.2	+	2	2233	c.1618G>A	c.(1618-1620)GTT>ATT	p.V540I	FEM1B_uc002arh.2_Missense_Mutation_p.V460I	NM_015322	NP_056137	Q9UK73	FEM1B_HUMAN	fem-1 homolog b	540	ANK 8.				apoptosis|induction of apoptosis|regulation of DNA damage checkpoint|regulation of ubiquitin-protein ligase activity	cytoplasm|nucleus	death receptor binding|ubiquitin-protein ligase activity				0						TCATATTATCGTTCAGTACAA	0.473													49	117					0	0	1	0	0		A	68583314	A	A	68583314	3	1	187	1	0	0	0	0	1	0	0	0	5824	1145	40	1	1624	1	FEM1B	15	68583314	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	117179	68583314	33948078	657	93440											
NOX5	79400	broad.mit.edu	37	chr15	69329504	69329504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcggactggcagtgtcccGcatggcagccgtgtgcatca	7	8	13	13	3	1	0	1	0	0	0	3	1	2	1	2	3	2	4	2	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:69329504G>A	uc002ars.1	+	8	1345	c.1325G>A	c.(1324-1326)CGC>CAC	p.R442H	NOX5_uc002arp.1_Missense_Mutation_p.R424H|NOX5_uc002arq.1_Missense_Mutation_p.R396H|NOX5_uc010bid.1_Missense_Mutation_p.R407H|NOX5_uc002arr.1_Missense_Mutation_p.R414H|NOX5_uc010bie.1_Missense_Mutation_p.R242H|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	442	FAD-binding FR-type.|Helical; (Potential).				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						GCAGTGTCCCGCATGGCAGCC	0.562													15	39					0	0	1	0	0		A	69329504	A	A	69329504	3	1	187	1	0	0	0	0	1	0	0	0	10578	1087	38	1	1388	1	NOX5	15	69329504	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	746190	69329504	33201888	658	93441											
PAQR5	54852	broad.mit.edu	37	chr15	69677138	69677138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccacttgtgtccagctgtgCgcacaccttcagctctatgt	6	12	8	15	1	2	0	1	0	1	0	3	0	3	0	3	0	3	3	3	0	1	3	rs142266731	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:69677138C>T	uc002arz.2	+	5	680	c.302C>T	c.(301-303)GCG>GTG	p.A101V	PAQR5_uc002asa.2_Missense_Mutation_p.A101V	NM_017705	NP_060175	Q9NXK6	MPRG_HUMAN	progestin and adipoQ receptor family member V	101	Helical; Name=2; (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane	receptor activity|steroid binding			ovary(2)	2						TCCAGCTGTGCGCACACCTTC	0.522													37	78					0	0	1	0	0		T	69677138	T	T	69677138	3	4	187	1	0	0	0	0	1	0	0	0	11457	768	27	1	312	1	PAQR5	15	69677138	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	347634	69677138	32854254	659	93442											
ADPGK	83440	broad.mit.edu	37	chr15	73052857	73052857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctttggaccaactggaccGcaaagaagaacctggaggca	14	5	12	10	1	0	2	0	0	0	2	0	5	0	5	3	4	3	3	3	4	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:73052857G>A	uc002avg.3	-	4	628	c.534C>T	c.(532-534)TGC>TGT	p.C178C	ADPGK_uc010ukw.1_Silent_p.C120C|ADPGK_uc002avf.3_Silent_p.C178C|ADPGK_uc002avi.3_Silent_p.C56C|ADPGK_uc002avh.3_5'UTR	NM_031284	NP_112574	Q9BRR6	ADPGK_HUMAN	ADP-dependent glucokinase	178	ADPK.				glycolysis	extracellular region	ADP-specific glucokinase activity|metal ion binding				0						CAACTGGACCGCAAAGAAGAA	0.502													21	89					0	0	1	0	0		A	73052857	A	A	73052857	2	1	187	1	0	0	0	0	0	0	0	1	330	1079	38	1		1	ADPGK	15	73052857	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3375719	73052857	29478535	660	93443											
STOML1	9399	broad.mit.edu	37	chr15	74281035	74281035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgttctgggctgtcatgcGtgtggctgtgttcaggtctt	2	15	16	8	2	4	0	2	0	2	0	4	0	4	0	0	4	1	4	0	4	0	3	rs116083516	by1000genomes	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:74281035G>A	uc002awe.2	-	4	570	c.499C>T	c.(499-501)CGC>TGC	p.R167C	STOML1_uc002awf.2_Missense_Mutation_p.R167C|STOML1_uc010bje.2_Missense_Mutation_p.R167C|STOML1_uc010uld.1_Missense_Mutation_p.R125C|STOML1_uc002awh.2_Missense_Mutation_p.R117C|STOML1_uc002awg.2_Missense_Mutation_p.R117C|STOML1_uc002awi.2_Missense_Mutation_p.R80C	NM_004809	NP_004800	Q9UBI4	STML1_HUMAN	stomatin (EPB72)-like 1	167	Cytoplasmic (Potential).					integral to membrane	sterol binding			skin(1)	1						GCTGTCATGCGTGTGGCTGTG	0.597													34	107					0	0	1	0	0		A	74281035	A	A	74281035	3	1	187	1	0	0	0	0	1	0	0	0	15338	1145	40	1	713	1	STOML1	15	74281035	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1228178	74281035	28250357	661	93444											
CSK	1445	broad.mit.edu	37	chr15	75091203	75091203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagccaaaaacaaggtgggcCgtgagggcatcatcccagcc	13	4	12	12	1	1	1	1	1	0	0	2	1	2	1	4	3	3	1	4	3	4	0	rs144688425		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:75091203C>T	uc010bkb.1	+	5	349	c.166C>T	c.(166-168)CGT>TGT	p.R56C	CSK_uc010bka.2_Silent_p.A158A|CSK_uc002ays.2_Missense_Mutation_p.R56C|CSK_uc010bkc.1_5'Flank	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	56	Interaction with PTPN8 (By similarity).|SH3.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						CAAGGTGGGCCGTGAGGGCAT	0.632													12	46					0	0	1	0	0		T	75091203	T	T	75091203	3	4	187	1	0	0	0	0	1	0	0	0	3946	652	23	1	176	1	CSK	15	75091203	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	810168	75091203	27440189	662	93445											
C15orf39	56905	broad.mit.edu	37	chr15	75500385	75500385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcacctttgcctgcagccGtggtcccgtccacgcccacc	4	7	10	20	4	0	0	0	0	0	0	2	0	2	0	7	2	3	2	7	2	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:75500385G>A	uc002azp.3	+	2	2316	c.1996G>A	c.(1996-1998)GTG>ATG	p.V666M	C15orf39_uc002azq.3_Missense_Mutation_p.V666M|C15orf39_uc002azr.3_Missense_Mutation_p.V64M	NM_015492	NP_056307	Q6ZRI6	CO039_HUMAN	hypothetical protein LOC56905	666											0						GCCTGCAGCCGTGGTCCCGTC	0.607													28	86					0	0	1	0	0		A	75500385	A	A	75500385	3	1	187	1	0	0	0	0	1	0	0	0	1796	1145	40	1	1998	1	C15orf39	15	75500385	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	409182	75500385	27031007	663	93446											
CTSH	1512	broad.mit.edu	37	chr15	79220087	79220087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctacatccttgacaaagcCgatggcctttccaggttgga	9	10	11	11	1	0	1	0	1	0	0	2	3	2	2	4	4	2	2	4	4	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:79220087C>T	uc002ben.2	-	10	728	c.631G>A	c.(631-633)GGC>AGC	p.G211S	CTSH_uc010unf.1_RNA|CTSH_uc010bll.1_Missense_Mutation_p.G63S	NM_148979	NP_683880	P09668	CATH_HUMAN	cathepsin H isoform b precursor	223					protein destabilization|proteolysis	lysosome	cysteine-type endopeptidase activity			central_nervous_system(2)|large_intestine(1)	3						TTGACAAAGCCGATGGCCTTT	0.532													23	66					0	0	1	0	0		T	79220087	T	T	79220087	3	4	187	1	0	0	0	0	1	0	0	0	4039	652	23	1	356	1	CTSH	15	79220087	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3719702	79220087	23311305	664	93447											
EFTUD1	79631	broad.mit.edu	37	chr15	82444713	82444713	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgggggttttgtgattgtTtctctgaatggaataatagg	8	18	13	2	0	1	2	0	2	1	0	2	3	1	3	0	4	0	2	0	4	4	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:82444713T>C	uc002bgt.1	-	18	2251	c.2082A>G	c.(2080-2082)GAA>GAG	p.E694E	EFTUD1_uc002bgs.1_Silent_p.E65E|EFTUD1_uc002bgu.1_Silent_p.E643E	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	694					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1						TTGTGATTGTTTCTCTGAATG	0.333													30	86					0	0	1	0	0		C	82444713	C	C	82444713	2	2	187	1	0	0	0	0	0	0	0	1	4966	1838	64	3		3	EFTUD1	15	82444713	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	3224626	82444713	20086679	665	93448											
MAN2A2	4122	broad.mit.edu	37	chr15	91453768	91453768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagcctggctgcagctcacGctcgccgctctggtctggct	4	9	12	16	3	3	0	1	0	2	0	4	0	3	0	2	3	3	6	2	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:91453768G>A	uc010bnz.2	+	11	1730	c.1615G>A	c.(1615-1617)GCT>ACT	p.A539T	MAN2A2_uc010boa.2_Missense_Mutation_p.A581T|MAN2A2_uc002bqc.2_Missense_Mutation_p.A539T|MAN2A2_uc010uql.1_Missense_Mutation_p.A201T|MAN2A2_uc010uqm.1_Missense_Mutation_p.A118T|MAN2A2_uc010uqn.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	539	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TGCAGCTCACGCTCGCCGCTC	0.632													23	46					0	0	1	0	0		A	91453768	A	A	91453768	3	1	187	1	0	0	0	0	1	0	0	0	9233	1087	38	1	1653	1	MAN2A2	15	91453768	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9009055	91453768	11077624	666	93449											
PCSK6	5046	broad.mit.edu	37	chr15	101938761	101938761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgaccacatctgtgacatCgccgtccagcatgcggatgc	8	8	10	15	4	1	1	0	1	1	0	4	3	2	2	3	1	3	1	3	1	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr15:101938761C>T	uc002bwy.2	-	8	1158	c.844G>A	c.(844-846)GAT>AAT	p.D282N	PCSK6_uc010bpd.2_Missense_Mutation_p.D152N|PCSK6_uc010bpe.2_Missense_Mutation_p.D282N|PCSK6_uc002bxa.2_Missense_Mutation_p.D282N|PCSK6_uc002bxb.2_Missense_Mutation_p.D282N|PCSK6_uc002bxc.1_Missense_Mutation_p.D282N|PCSK6_uc002bxd.1_Missense_Mutation_p.D282N|PCSK6_uc002bxe.2_Missense_Mutation_p.D282N|PCSK6_uc002bxg.1_Missense_Mutation_p.D282N	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	282	Catalytic.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TCTGTGACATCGCCGTCCAGC	0.652													20	61					0	0	1	0	0		T	101938761	T	T	101938761	3	4	187	1	0	0	0	0	1	0	0	0	11623	884	31	1	2608	1	PCSK6	15	101938761	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	10484993	101938761	592631	667	93450											
SOLH	6650	broad.mit.edu	37	chr16	602866	602866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccattcctgtgcccagggcCgtgagggcatgacctgctac	6	8	13	14	1	0	2	0	2	0	0	1	2	1	2	5	2	3	2	5	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:602866C>T	uc002chi.2	+	13	3271	c.2908C>T	c.(2908-2910)CGT>TGT	p.R970C	SOLH_uc002chj.2_Missense_Mutation_p.R30C	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	970					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				TGCCCAGGGCCGTGAGGGCAT	0.677													8	24					0	0	1	0	0		T	602866	T	T	602866	3	4	187	1	0	0	0	0	1	0	0	0	14950	652	23	1	2946	1	SOLH	16	602866	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		602866	89751887	668	93451											
RHBDL1	9028	broad.mit.edu	37	chr16	726267	726267	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcctgatgctcccagccagCctggcccagccctttggtcc	5	8	10	18	0	0	1	0	1	0	0	2	1	2	1	7	2	5	1	7	2	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:726267C>A	uc002cis.1	+	1	193	c.166C>A	c.(166-168)CCT>ACT	p.P56T	RHBDL1_uc002cir.1_Intron|RHBDL1_uc010uun.1_Intron	NM_003961	NP_003952	O75783	RHBL1_HUMAN	rhomboid protease 1	56					proteolysis|signal transduction	integral to plasma membrane|membrane fraction	calcium ion binding|serine-type endopeptidase activity				0		Hepatocellular(780;0.0218)				TCCCAGCCAGCCTGGCCCAGC	0.677													6	4					0.00116845	0.0011919	1	1	0		A	726267	A	A	726267	3	1	187	1	0	0	0	0	1	0	0	0	13346	739	26	5	168	5	RHBDL1	16	726267	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	123401	726267	89628486	669	93452											
MSLNL	401827	broad.mit.edu	37	chr16	820111	820111	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggtgggtggtgctggggggCcccctggtgccgtgggctgg	0	9	23	9	1	0	0	0	0	0	0	0	0	0	0	3	9	2	2	3	9	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:820111C>G	uc002cjz.1	-	15	2874	c.2874G>C	c.(2872-2874)GGG>GGC	p.G958G	MIR662_hsa-mir-662|MI0003670_5'Flank	NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	607	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						TGCTGGGGGGCCCCCTGGTGC	0.726													4	6					0	0	1	0	0		G	820111	G	G	820111	2	3	187	1	0	0	0	0	0	0	0	1	9900	726	26	5		5	MSLNL	16	820111	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	93844	820111	89534642	670	93453											
LMF1	64788	broad.mit.edu	37	chr16	918962	918962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggcgggggcctgcccGcgaaggggttgtgtgccagc	4	6	19	12	3	0	0	0	0	0	0	0	1	0	0	4	5	3	1	4	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:918962G>A	uc002ckj.2	-	10	1515	c.1511C>T	c.(1510-1512)GCG>GTG	p.A504V	LMF1_uc010brg.2_RNA|LMF1_uc010brh.2_Missense_Mutation_p.A287V|LMF1_uc010bri.2_Missense_Mutation_p.A267V|LMF1_uc002ckk.2_Missense_Mutation_p.A287V	NM_022773	NP_073610	Q96S06	LMF1_HUMAN	lipase maturation factor 1	504	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0		Hepatocellular(780;0.00308)				GGGCCTGCCCGCGAAGGGGTT	0.667													25	102					0	0	1	0	0		A	918962	A	A	918962	3	1	187	1	0	0	0	0	1	0	0	0	8862	1087	38	1	200	1	LMF1	16	918962	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	98851	918962	89435791	671	93454											
PTX4	390667	broad.mit.edu	37	chr16	1537746	1537746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagggtgaggtccaaggcccGcagccgcgtgtctactttcc	6	8	13	14	3	1	1	0	1	1	0	3	1	3	1	4	3	2	1	4	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:1537746G>A	uc010uvf.1	-	2	352	c.352C>T	c.(352-354)CGG>TGG	p.R118W		NM_001013658	NP_001013680	Q96A99	PTX4_HUMAN	neuronal pentraxin II-like	123						extracellular region	metal ion binding				0						TCCAAGGCCCGCAGCCGCGTG	0.692													17	56					0	0	1	0	0		A	1537746	A	A	1537746	3	1	187	1	0	0	0	0	1	0	0	0	12848	1086	38	1	1076	1	PTX4	16	1537746	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	618784	1537746	88817007	672	93455											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1810419	1810419	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaatgacctgattgccaAggtcgaccagctgtccgggg	10	7	14	10	2	0	3	0	2	0	1	2	5	1	3	4	3	2	1	4	3	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:1810419A>C	uc002cmk.2	+	12	1460	c.1340A>C	c.(1339-1341)AAG>ACG	p.K447T	MAPK8IP3_uc002cml.2_Missense_Mutation_p.K441T|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.K448T	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	447	Potential.				vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						CTGATTGCCAAGGTCGACCAG	0.557													24	86					0	0	1	0	0		C	1810419	C	C	1810419	3	2	187	1	0	0	0	0	1	0	0	0	9304	72	3	5	1402	5	MAPK8IP3	16	1810419	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	272673	1810419	88544334	673	93456											
CASKIN1	57524	broad.mit.edu	37	chr16	2230946	2230946	+	Frame_Shift_Del	DEL	G	-	-																															ctgtcggcggcagcagctgcGgggtgggcttcaccttggcc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:2230946delG	uc010bsg.1	-	18	2455	c.2423delC	c.(2422-2424)CCGfs	p.P808fs		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	808	Pro-rich.				signal transduction	cytoplasm				skin(2)	2						CAGCAGCTGCGGGGTGGGCTT	0.711													5	8	---	---	---	---						.	-	2230946	-	-	2230946	7	5	187	1	0	1	0	1	0	0	0	0	2669	1116	39	0	1884	0	CASKIN1	16	2230946	Frame_Shift_Del	DEL	G	TCGA-D7-A4YV-01A-11D-A25D-08	420527	2230946	88123807	674	93457											
GRIN2A	2903	broad.mit.edu	37	chr16	10274018	10274018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgaggtcgcacacgtgcGtgatgaggctcttggggtcg	7	9	16	9	4	1	3	0	3	1	0	3	3	1	3	0	4	1	2	0	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:10274018G>A	uc002czo.3	-	2	799	c.251C>T	c.(250-252)ACG>ATG	p.T84M	GRIN2A_uc010uym.1_Missense_Mutation_p.T84M|GRIN2A_uc002czr.3_Missense_Mutation_p.T84M|GRIN2A_uc010buk.2_Missense_Mutation_p.T84M	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	84	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GCACACGTGCGTGATGAGGCT	0.647													38	112					0	0	1	0	0		A	10274018	A	A	10274018	3	1	187	1	0	0	0	0	1	0	0	0	6795	1145	40	1	4191	1	GRIN2A	16	10274018	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	8043072	10274018	80080735	675	93458											
MYH11	4629	broad.mit.edu	37	chr16	15820852	15820852	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaggacccgcagctccccGgccaggtctgcgttctcttt	4	9	10	18	3	2	0	0	0	2	0	4	1	3	1	5	3	2	3	5	3	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:15820852G>A	uc002ddy.2	-	28	3818	c.3711C>T	c.(3709-3711)GCC>GCT	p.A1237A	MYH11_uc002ddv.2_Silent_p.A1244A|MYH11_uc002ddw.2_Silent_p.A1237A|MYH11_uc002ddx.2_Silent_p.A1244A|MYH11_uc010bvg.2_Silent_p.A1069A|MYH11_uc010bvh.2_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1237	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GCAGCTCCCCGGCCAGGTCTG	0.602			T	CBFB	AML								92	281					0	0	1	0	0		A	15820852	A	A	15820852	2	1	187	1	0	0	0	0	0	0	0	1	10049	1103	39	1		1	MYH11	16	15820852	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5546834	15820852	74533901	676	93459											
ACSM2B	348158	broad.mit.edu	37	chr16	20548601	20548601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgcgcacgggcttttccGgacatcttccactccttgtc	5	12	8	16	3	1	0	0	0	1	0	5	1	4	1	3	2	1	2	3	2	0	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:20548601G>A	uc002dhj.3	-	15	1923	c.1713C>T	c.(1711-1713)TCC>TCT	p.S571S	ACSM2B_uc002dhk.3_Silent_p.S571S	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	571					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						GGGCTTTTCCGGACATCTTCC	0.463													55	216					0	0	1	0	0		A	20548601	A	A	20548601	2	1	187	1	0	0	0	0	0	0	0	1	184	1103	39	1		1	ACSM2B	16	20548601	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4727749	20548601	69806152	677	93460											
DCTN5	84516	broad.mit.edu	37	chr16	23676952	23676952	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agattttaatttcaggggcgCcgatgtgtgttgaaagactg	10	13	13	5	2	1	3	1	1	0	2	1	4	1	3	1	2	0	1	1	2	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:23676952C>T	uc002dly.1	+	5	411	c.354C>T	c.(352-354)CGC>CGT	p.R118R		NM_032486	NP_115875	Q9BTE1	DCTN5_HUMAN	dynactin 5	118						centrosome	transferase activity			upper_aerodigestive_tract(1)	1				GBM - Glioblastoma multiforme(48;0.0156)		TTCAGGGGCGCCGATGTGTGT	0.428													13	45					0	0	1	0	0		T	23676952	T	T	23676952	2	4	187	1	0	0	0	0	0	0	0	1	4313	726	26	2		2	DCTN5	16	23676952	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3128351	23676952	66677801	678	93461											
TNRC6A	27327	broad.mit.edu	37	chr16	24802783	24802783	+	Silent	SNP	A	T	T	1	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	tggggagattcgtcaaagccAgtcagctctccagactggaa	11	8	12	10	1	3	2	2	0	1	2	5	4	3	3	2	3	2	1	2	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:24802783A>T	uc002dmm.2	+	6	2934	c.2820A>T	c.(2818-2820)CCA>CCT	p.P940P	TNRC6A_uc010bxs.2_Silent_p.P687P|TNRC6A_uc010vcc.1_Silent_p.P687P|TNRC6A_uc002dmn.2_Silent_p.P687P|TNRC6A_uc002dmo.2_Silent_p.P687P	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	940	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		CGTCAAAGCCAGTCAGCTCTC	0.527													14	69					0	0	1	0	0		T	24802783	T	T	24802783	2	4	187	1	0	0	0	0	0	0	0	1	16365	175	7	5		5	TNRC6A	16	24802783	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1125831	24802783	65551970	679	93462											
IL21R	50615	broad.mit.edu	37	chr16	27445682	27445682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccaggctggggctgccccGacctcgtctgctacaccgat	5	8	11	17	3	1	0	0	0	1	0	3	2	2	0	5	3	3	3	5	3	1	1	rs149169230		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:27445682G>A	uc002doq.1	+	3	297	c.64G>A	c.(64-66)GAC>AAC	p.D22N	IL21R_uc002dor.1_Missense_Mutation_p.D22N|IL21R_uc002dos.1_Missense_Mutation_p.D22N	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	22	Extracellular (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						GGGCTGCCCCGACCTCGTCTG	0.632			T	BCL6	NHL								14	33					0	0	1	0	0		A	27445682	A	A	27445682	3	1	187	1	0	0	0	0	1	0	0	0	7687	1058	37	1	70	1	IL21R	16	27445682	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2642899	27445682	62909071	680	93463											
GTF3C1	2975	broad.mit.edu	37	chr16	27499592	27499592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagggtccttcttcagcCgcttccgcttctggcttttc	2	15	8	16	2	3	0	1	0	2	0	7	0	6	0	4	2	1	3	4	2	0	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:27499592C>T	uc002dov.1	-	23	3696	c.3656G>A	c.(3655-3657)CGG>CAG	p.R1219Q	GTF3C1_uc002dou.2_Missense_Mutation_p.R1219Q	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1219	Arg/Lys-rich (basic).					transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CTTCTTCAGCCGCTTCCGCTT	0.522													43	160					0	0	1	0	0		T	27499592	T	T	27499592	3	4	187	1	0	0	0	0	1	0	0	0	6888	652	23	1	2733	1	GTF3C1	16	27499592	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	53910	27499592	62855161	681	93464											
KIAA0556	23247	broad.mit.edu	37	chr16	27761440	27761440	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctggctggcccccttcacGcggggcagatcccactccat	5	8	11	17	2	2	1	1	0	1	1	4	1	4	1	4	4	0	2	4	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:27761440G>A	uc002dow.2	+	16	3183	c.3159G>A	c.(3157-3159)ACG>ACA	p.T1053T		NM_015202	NP_056017	O60303	K0556_HUMAN	hypothetical protein LOC23247	1053										ovary(4)|large_intestine(2)|upper_aerodigestive_tract(1)|skin(1)	8						CCCCCTTCACGCGGGGCAGAT	0.547													13	52					0	0	1	0	0		A	27761440	A	A	27761440	2	1	187	1	0	0	0	0	0	0	0	1	8199	1074	38	1		1	KIAA0556	16	27761440	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	261848	27761440	62593313	682	93465											
LAT	27040	broad.mit.edu	37	chr16	28997873	28997873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctttgaagccaacagtgtggCgagctacgagaacgagggtg	11	7	15	8	3	0	2	0	1	0	1	0	5	0	2	1	2	5	1	1	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:28997873C>T	uc002dsd.2	+	6	675	c.323C>T	c.(322-324)GCG>GTG	p.A108V	uc010vct.1_Intron|LAT_uc010vdj.1_Missense_Mutation_p.A144V|LAT_uc002dsb.2_Missense_Mutation_p.A108V|LAT_uc002dsc.2_Missense_Mutation_p.A107V|LAT_uc010vdk.1_Intron|LAT_uc010vdl.1_Missense_Mutation_p.A107V	NM_014387	NP_055202	O43561	LAT_HUMAN	linker for activation of T cells isoform a	108	Cytoplasmic (Potential).				calcium-mediated signaling|integrin-mediated signaling pathway|mast cell degranulation|platelet activation|Ras protein signal transduction|regulation of T cell activation|T cell receptor signaling pathway	immunological synapse|integral to membrane|intracellular|membrane raft	SH3/SH2 adaptor activity				0		Hepatocellular(780;0.244)				AACAGTGTGGCGAGCTACGAG	0.632													4	71					0	0	1	0	0		T	28997873	T	T	28997873	3	4	187	1	0	0	0	0	1	0	0	0	8660	768	27	1	457	1	LAT	16	28997873	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1236433	28997873	61356880	683	93466											
GDPD3	79153	broad.mit.edu	37	chr16	30124114	30124114	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgagcgctgggccatggaGctgtgggggtgaaggtcagc	6	7	19	9	2	1	1	1	1	0	0	2	3	2	2	2	5	3	2	2	5	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:30124114G>A	uc002dwp.2	-	3	262	c.183C>T	c.(181-183)AAC>AAT	p.N61N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_5'UTR|LOC100271831_uc010vei.1_5'Flank	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	61	Extracellular (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						GGGCCATGGAGCTGTGGGGGT	0.652											OREG0023731	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	52					0	0	1	0	0		A	30124114	A	A	30124114	2	1	187	1	0	0	0	0	0	0	0	1	6340	985	34	2		2	GDPD3	16	30124114	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1126241	30124114	60230639	684	93467											
ZNF668	79759	broad.mit.edu	37	chr16	31075642	31075642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacctcttcagagcagtctgCcggcccatgtgtggcagcgt	6	9	12	14	2	3	1	1	0	2	1	3	1	3	1	3	2	3	2	3	2	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:31075642C>T	uc010caf.2	-	2	496	c.139G>A	c.(139-141)GCA>ACA	p.A47T	ZNF668_uc002eao.2_Missense_Mutation_p.A47T|ZNF668_uc010cag.1_Missense_Mutation_p.A47T	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	47					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						GAGCAGTCTGCCGGCCCATGT	0.637													21	88					0	0	1	0	0		T	31075642	T	T	31075642	3	4	187	1	0	0	0	0	1	0	0	0	18100	739	26	2	1728	2	ZNF668	16	31075642	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	951528	31075642	59279111	685	93468											
ITGAX	3687	broad.mit.edu	37	chr16	31368597	31368597	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgcggccccaccgtgcaccaCgagtgcgggaggaacatgta	9	5	14	13	4	0	0	0	0	0	0	0	3	0	2	4	3	4	2	4	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:31368597C>T	uc002ebu.1	+	5	409	c.342C>T	c.(340-342)CAC>CAT	p.H114H	ITGAX_uc010cao.1_3'UTR|ITGAX_uc002ebt.2_Silent_p.H114H	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	114	FG-GAP 2.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCGTGCACCACGAGTGCGGGA	0.692													3	12					0	0	1	0	0		T	31368597	T	T	31368597	2	4	187	1	0	0	0	0	0	0	0	1	7905	535	19	1		1	ITGAX	16	31368597	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	292955	31368597	58986156	686	93469											
ITGAD	3681	broad.mit.edu	37	chr16	31422475	31422475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgacctgatcctcattgggGccccccattactatgagcag	8	9	9	15	1	1	2	1	2	0	0	2	3	2	2	6	2	2	1	6	2	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:31422475G>A	uc002ebv.1	+	13	1484	c.1435G>A	c.(1435-1437)GCC>ACC	p.A479T	ITGAD_uc010cap.1_Missense_Mutation_p.A479T	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	479	Extracellular (Potential).|FG-GAP 5.				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						CCTCATTGGGGCCCCCCATTA	0.652													29	95					0	0	1	0	0		A	31422475	A	A	31422475	3	1	187	1	0	0	0	0	1	0	0	0	7900	1203	42	2	1485	2	ITGAD	16	31422475	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	53878	31422475	58932278	687	93470											
TGFB1I1	7041	broad.mit.edu	37	chr16	31487822	31487822	+	Silent	SNP	C	T	T	0	0	0	1	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	aagatggtgaccgccttgggCactcactggcacccagagca	10	6	12	13	1	1	3	1	1	0	2	1	3	1	3	3	3	1	3	3	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:31487822C>T	uc002ecd.1	+	9	935	c.909C>T	c.(907-909)GGC>GGT	p.G303G	TGFB1I1_uc002ece.1_Silent_p.G286G|TGFB1I1_uc010caq.1_Silent_p.G142G	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	303	LIM zinc-binding 2.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						CCGCCTTGGGCACTCACTGGC	0.637													6	20					0	0	1	0	0		T	31487822	T	T	31487822	2	4	187	1	0	0	0	0	0	0	0	1	15842	697	25	2		2	TGFB1I1	16	31487822	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	65347	31487822	58866931	688	93471											
ITFG1	81533	broad.mit.edu	37	chr16	47493063	47493063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atagggtgcattctggtctgCcaaaaagacgattaagtcat	13	11	10	7	1	3	1	1	0	2	1	3	2	3	1	1	2	2	1	1	2	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:47493063C>T	uc002eet.2	-	2	294	c.232G>A	c.(232-234)GCA>ACA	p.A78T	ITFG1_uc010vgh.1_5'UTR|PHKB_uc010vgi.1_5'Flank|PHKB_uc002eeu.3_5'Flank|PHKB_uc002eev.3_5'Flank|ITFG1_uc010cbf.1_5'UTR	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	78						extracellular region|integral to membrane				ovary(1)|central_nervous_system(1)	2		all_cancers(37;0.0613)|all_lung(18;0.0543)|Lung NSC(13;0.227)				TTCTGGTCTGCCAAAAAGACG	0.264													12	71					0	0	1	0	0		T	47493063	T	T	47493063	3	4	187	1	0	0	0	0	1	0	0	0	7885	739	26	2	1674	2	ITFG1	16	47493063	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	16005241	47493063	42861690	689	93472											
LPCAT2	54947	broad.mit.edu	37	chr16	55613052	55613052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgaggatggctacataaCggaggaagagttctccacca	13	8	12	8	1	1	3	0	2	1	1	2	6	1	6	2	4	2	2	2	4	3	3	rs142090669	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:55613052C>T	uc002eie.3	+	13	1527	c.1346C>T	c.(1345-1347)ACG>ATG	p.T449M	LPCAT2_uc002eic.2_Missense_Mutation_p.T179M	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	449	2 (Potential).|EF-hand 2.|Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						GGCTACATAACGGAGGAAGAG	0.433													31	73					0	0	1	0	0		T	55613052	T	T	55613052	3	4	187	1	0	0	0	0	1	0	0	0	8929	536	19	1	1396	1	LPCAT2	16	55613052	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	8119989	55613052	34741701	690	93473											
MMP15	4324	broad.mit.edu	37	chr16	58073847	58073847	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtgcgcagggccttccgcgTgtgggagcaggccacgcccc	4	5	17	15	4	0	0	0	0	0	0	1	1	1	1	5	4	2	2	5	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:58073847T>C	uc002ena.2	+	4	1482	c.509T>C	c.(508-510)GTG>GCG	p.V170A		NM_002428	NP_002419	P51511	MMP15_HUMAN	matrix metalloproteinase 15 preproprotein	170	Extracellular (Potential).				protein modification process|proteolysis	extracellular matrix|integral to plasma membrane	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|protein binding|zinc ion binding			central_nervous_system(2)|breast(1)	3						GCCTTCCGCGTGTGGGAGCAG	0.632													7	62					0	0	1	0	0		C	58073847	C	C	58073847	3	2	187	1	0	0	0	0	1	0	0	0	9672	1696	59	3	523	3	MMP15	16	58073847	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2460795	58073847	32280906	691	93474											
EXOC3L	283849	broad.mit.edu	37	chr16	67221678	67221678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctccagctcccgaaggctcaCatatgcctccaagaactgtt	10	9	7	15	1	1	1	1	0	0	1	4	2	4	1	4	1	3	3	4	1	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:67221678C>T	uc002erx.1	-	5	731	c.490G>A	c.(490-492)GTG>ATG	p.V164M	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Missense_Mutation_p.V108M|EXOC3L_uc010vje.1_Missense_Mutation_p.V103M	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	164	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		CGAAGGCTCACATATGCCTCC	0.602													29	64					0	0	1	0	0		T	67221678	T	T	67221678	3	4	187	1	0	0	0	0	1	0	0	0	5312	478	17	4	1790	4	EXOC3L	16	67221678	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9147831	67221678	23133075	692	93475											
SMPD3	55512	broad.mit.edu	37	chr16	68405383	68405383	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctccgggctgctgctgtcGacagggtccccagaggctgg	4	8	15	14	2	0	1	0	0	0	1	4	2	3	1	4	4	2	4	4	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:68405383G>A	uc002ewa.2	-	3	1124	c.702C>T	c.(700-702)GTC>GTT	p.V234V	SMPD3_uc010cfe.2_Silent_p.V234V|SMPD3_uc010vlh.1_Silent_p.V234V	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	234	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	TGCTGCTGTCGACAGGGTCCC	0.697													14	26					0	0	1	0	0		A	68405383	A	A	68405383	2	1	187	1	0	0	0	0	0	0	0	1	14831	1045	37	1		1	SMPD3	16	68405383	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1183705	68405383	21949370	693	93476											
AP1G1	164	broad.mit.edu	37	chr16	71779166	71779166	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcccaacaaatccaataaaTcattggcctaaacaaggtaa	18	8	4	11	0	1	0	1	0	0	0	3	0	3	0	3	2	2	1	3	2	9	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:71779166T>A	uc010cgg.2	-	19	2194	c.1880A>T	c.(1879-1881)GAT>GTT	p.D627V	AP1G1_uc002fba.2_Missense_Mutation_p.D630V|AP1G1_uc002fbb.2_Missense_Mutation_p.D650V|AP1G1_uc002faz.2_Missense_Mutation_p.D44V	NM_001128	NP_001119	O43747	AP1G1_HUMAN	adaptor-related protein complex 1, gamma 1	627					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane|recycling endosome	kinesin binding|protein transporter activity			ovary(2)	2		Ovarian(137;0.125)				ATCCAATAAATCATTGGCCTA	0.358													18	31					0	0	1	0	0		A	71779166	A	A	71779166	3	1	187	1	0	0	0	0	1	0	0	0	732	1435	50	5	608	5	AP1G1	16	71779166	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	3373783	71779166	18575587	694	93477											
CDYL2	124359	broad.mit.edu	37	chr16	80718950	80718950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcccacgtgtcctcggtgCtcccgtagcctttccatcgg	3	11	10	17	4	0	0	0	0	0	0	6	0	4	0	5	2	2	3	5	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:80718950C>T	uc002ffs.2	-	2	206	c.101G>A	c.(100-102)AGC>AAC	p.S34N		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	34	Chromo.					nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						GTCCTCGGTGCTCCCGTAGCC	0.483													44	136					0	0	1	0	0		T	80718950	T	T	80718950	3	4	187	1	0	0	0	0	1	0	0	0	3189	797	28	2	1443	2	CDYL2	16	80718950	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	8939784	80718950	9635803	695	93478											
KLHL36	79786	broad.mit.edu	37	chr16	84690609	84690609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcgcaacctgctggccGtgtgcagcgactacttcaac	8	8	9	16	3	1	0	1	0	0	0	2	1	1	0	3	1	6	3	3	1	3	2	rs140616787		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:84690609G>A	uc002fig.2	+	3	337	c.196G>A	c.(196-198)GTG>ATG	p.V66M	KLHL36_uc010chl.2_Missense_Mutation_p.V65M	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	66	BTB.									skin(2)	2						CCTGCTGGCCGTGTGCAGCGA	0.632													20	65					0	0	1	0	0		A	84690609	A	A	84690609	3	1	187	1	0	0	0	0	1	0	0	0	8405	1145	40	1	202	1	KLHL36	16	84690609	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3971659	84690609	5664144	696	93479											
COX4NB	10328	broad.mit.edu	37	chr16	85814059	85814059	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtaggcgctacgcagtccatCgtaaacttggtgttgtctac	8	12	11	10	3	1	0	0	0	1	0	3	0	2	0	1	2	3	5	1	2	5	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:85814059C>T	uc002fjd.2	-	4	646	c.399G>A	c.(397-399)ACG>ACA	p.T133T	COX4NB_uc010vol.1_Intron	NM_006067	NP_006058	O43402	CX4NB_HUMAN	COX4 neighbor isoform 1	133						mitochondrion|nucleus					0						CGCAGTCCATCGTAAACTTGG	0.607													7	24					0	0	1	0	0		T	85814059	T	T	85814059	2	4	187	1	0	0	0	0	0	0	0	1	3774	871	31	1		1	COX4NB	16	85814059	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1123450	85814059	4540694	697	93480											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445497	87445497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgggtgctggaagtagttggCgtagctgacagtcaggccac	8	8	16	9	2	1	1	1	1	0	0	1	2	1	2	1	4	2	5	1	4	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:87445497C>T	uc002fjz.1	-	12	2446	c.2419G>A	c.(2419-2421)GCC>ACC	p.A807T	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.A583T	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	807					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		AAGTAGTTGGCGTAGCTGACA	0.672													4	6					0	0	1	0	0		T	87445497	T	T	87445497	3	4	187	1	0	0	0	0	1	0	0	0	17608	768	27	1	438	1	ZCCHC14	16	87445497	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1631438	87445497	2909256	698	93481											
CDH15	1013	broad.mit.edu	37	chr16	89257844	89257844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcccccttcctcaagggcGgctggtacagagccatcgtc	6	8	11	16	3	1	1	1	0	0	1	5	1	3	1	4	3	2	2	4	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:89257844G>A	uc002fmt.2	+	9	1416	c.1339G>A	c.(1339-1341)GGC>AGC	p.G447S		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	447	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		CCTCAAGGGCGGCTGGTACAG	0.692													27	45					0	0	1	0	0		A	89257844	A	A	89257844	3	1	187	1	0	0	0	0	1	0	0	0	3103	1116	39	1	1373	1	CDH15	16	89257844	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1812347	89257844	1096909	699	93482											
ANKRD11	29123	broad.mit.edu	37	chr16	89341276	89341276	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagcagcatcgtgcaggcGctgaatggcactgcctggtt	7	9	13	12	2	0	1	0	1	0	0	2	1	1	1	2	3	4	6	2	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr16:89341276G>A	uc002fmx.1	-	11	8120	c.7659C>T	c.(7657-7659)AGC>AGT	p.S2553S	ANKRD11_uc002fmy.1_Silent_p.S2553S	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2553						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TCGTGCAGGCGCTGAATGGCA	0.622													17	60					0	0	1	0	0		A	89341276	A	A	89341276	2	1	187	1	0	0	0	0	0	0	0	1	639	1078	38	1		1	ANKRD11	16	89341276	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	83432	89341276	1013477	700	93483											
RNMTL1	55178	broad.mit.edu	37	chr17	694859	694859	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	attatcaataatctggaatgGgaaaccgtgcccaattacct	14	11	7	9	1	2	0	1	0	1	0	2	2	2	2	3	2	3	0	3	2	7	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:694859G>T	uc002frw.2	+	4	919	c.813G>T	c.(811-813)TGG>TGT	p.W271C		NM_018146	NP_060616	Q9HC36	RMTL1_HUMAN	RNA methyltransferase like 1	271					RNA processing		protein binding|RNA binding|RNA methyltransferase activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0219)		ATCTGGAATGGGAAACCGTGC	0.527													28	74					1.13719e-10	1.21581e-10	1	1	0		T	694859	T	T	694859	3	4	187	1	0	0	0	0	1	0	0	0	13532	1241	43	5	827	5	RNMTL1	17	694859	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		694859	80500351	701	93484											
PELP1	27043	broad.mit.edu	37	chr17	4585839	4585839	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaataggtcatacaagcCttcattccttccaatgctga	12	11	8	10	0	2	1	2	1	0	0	4	2	4	2	3	2	3	1	3	2	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:4585839C>A	uc002fyi.3	-	5	826	c.600G>T	c.(598-600)AAG>AAT	p.K200N	PELP1_uc010vsf.1_Missense_Mutation_p.K53N	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	200					transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						TCATACAAGCCTTCATTCCTT	0.488													19	43					5.26018e-13	5.6693e-13	1	1	0		A	4585839	A	A	4585839	3	1	187	1	0	0	0	0	1	0	0	0	11744	680	24	5	2844	5	PELP1	17	4585839	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3890980	4585839	76609371	702	93485											
PLD2	5338	broad.mit.edu	37	chr17	4722104	4722104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtattcaatcctgcatcGccttaaagcagccagtgagt	11	10	10	10	1	1	1	1	1	0	0	3	2	2	2	3	1	3	3	3	1	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:4722104G>A	uc002fzc.2	+	21	2260	c.2159G>A	c.(2158-2160)CGC>CAC	p.R720H	PLD2_uc002fzd.2_Missense_Mutation_p.R720H	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	720	Catalytic.				cell communication|cytoskeleton organization|small GTPase mediated signal transduction		NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5					Choline(DB00122)	ATCCTGCATCGCCTTAAAGCA	0.637													39	111					0	0	1	0	0		A	4722104	A	A	4722104	3	1	187	1	0	0	0	0	1	0	0	0	12065	1087	38	1	2237	1	PLD2	17	4722104	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	136265	4722104	76473106	703	93486											
POLR2A	5430	broad.mit.edu	37	chr17	7399624	7399624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagacaatgaaagttttgCgctgtgtctgcttcttctgc	8	15	10	8	1	3	3	0	2	3	1	3	3	3	3	0	0	3	3	0	0	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:7399624C>T	uc002ghf.3	+	3	556	c.322C>T	c.(322-324)CGC>TGC	p.R108C	POLR2A_uc002ghe.2_Missense_Mutation_p.R108C	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	108					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GAAAGTTTTGCGCTGTGTCTG	0.562													32	147					0	0	1	0	0		T	7399624	T	T	7399624	3	4	187	1	0	0	0	0	1	0	0	0	12233	768	27	1	332	1	POLR2A	17	7399624	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2677520	7399624	73795586	704	93487											
CHD3	1107	broad.mit.edu	37	chr17	7814849	7814849	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgggggcattggtgtcagaCgggctggatcggaaggagcc	7	7	20	7	2	1	1	1	0	0	1	2	4	1	4	1	7	1	2	1	7	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:7814849C>T	uc002gje.2	+	40	6099	c.5949C>T	c.(5947-5949)GAC>GAT	p.D1983D	CHD3_uc002gjd.2_Silent_p.D2042D|CHD3_uc002gjf.2_Silent_p.D1949D|CHD3_uc002gjh.2_Silent_p.D560D|CHD3_uc002gjj.2_Silent_p.D146D	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1983					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				TGGTGTCAGACGGGCTGGATC	0.612													7	117					0	0	1	0	0		T	7814849	T	T	7814849	2	4	187	1	0	0	0	0	0	0	0	1	3329	535	19	1		1	CHD3	17	7814849	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	415225	7814849	73380361	705	93488											
ODF4	146852	broad.mit.edu	37	chr17	8243371	8243371	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggtgaagtggtgctcaagaTggatgcagagtactctggga	10	9	17	5	0	2	3	1	1	1	2	2	5	2	5	0	4	3	3	0	4	3	1	rs140462392	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:8243371T>C	uc002gle.1	+	1	184	c.2T>C	c.(1-3)ATG>ACG	p.M1T		NM_153007	NP_694552	Q2M2E3	ODFP4_HUMAN	outer dense fiber of sperm tails 4	1					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)	1						GTGCTCAAGATGGATGCAGAG	0.507													4	20					0	0	1	0	0		C	8243371	C	C	8243371	3	2	187	1	0	0	0	0	1	0	0	0	10852	1464	51	3	4	3	ODF4	17	8243371	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	428522	8243371	72951839	706	93489											
MYH10	4628	broad.mit.edu	37	chr17	8451698	8451698	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagaaatatttccaaactgTagcactgaagatactacttt	17	12	5	7	0	0	3	0	1	0	2	1	3	1	3	1	0	4	2	1	0	8	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:8451698T>C	uc002gll.2	-	10	1158	c.1062A>G	c.(1060-1062)CTA>CTG	p.L354L	MYH10_uc002glm.2_Silent_p.L364L|MYH10_uc010cnx.2_Silent_p.L363L	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	354	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TTCCAAACTGTAGCACTGAAG	0.294													18	57					0	0	1	0	0		C	8451698	C	C	8451698	2	2	187	1	0	0	0	0	0	0	0	1	10048	1625	57	3		3	MYH10	17	8451698	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	208327	8451698	72743512	707	93490											
MYH13	8735	broad.mit.edu	37	chr17	10248819	10248819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcaatgtccaagacccCgatgaagtactgcctgggct	10	7	11	13	1	0	2	0	1	0	1	1	3	1	2	5	1	3	3	5	1	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:10248819C>T	uc002gmk.1	-	14	1468	c.1378G>A	c.(1378-1380)GGG>AGG	p.G460R	MYH13_uc010vvf.1_Missense_Mutation_p.G135R	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	460	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCCAAGACCCCGATGAAGTAC	0.507													30	133					0	0	1	0	0		T	10248819	T	T	10248819	3	4	187	1	0	0	0	0	1	0	0	0	10050	652	23	1	4550	1	MYH13	17	10248819	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1797121	10248819	70946391	708	93491											
MYH2	4620	broad.mit.edu	37	chr17	10448726	10448726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggggcggggcctcctggcGctttttgcctcggtaggctg	1	11	18	11	3	0	0	0	0	0	0	2	0	1	0	3	7	1	3	3	7	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:10448726G>A	uc010coi.2	-	5	570	c.442C>T	c.(442-444)CGC>TGC	p.R148C	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R148C|MYH2_uc010coj.2_Missense_Mutation_p.R148C	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	148	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GCCTCCTGGCGCTTTTTGCCT	0.537													63	180					0	0	1	0	0		A	10448726	A	A	10448726	3	1	187	1	0	0	0	0	1	0	0	0	10053	1087	38	1	5527	1	MYH2	17	10448726	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	199907	10448726	70746484	709	93492											
MYH3	4621	broad.mit.edu	37	chr17	10535908	10535908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccatcttcttcttgagcCggatggcttcattcctgctc	4	15	7	15	1	4	1	1	1	3	0	7	2	6	2	4	2	2	2	4	2	0	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:10535908C>T	uc002gmq.1	-	33	4918	c.4841G>A	c.(4840-4842)CGG>CAG	p.R1614Q		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1614	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CTTCTTGAGCCGGATGGCTTC	0.582													93	280					0	0	1	0	0		T	10535908	T	T	10535908	3	4	187	1	0	0	0	0	1	0	0	0	10054	652	23	1	1013	1	MYH3	17	10535908	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	87182	10535908	70659302	710	93493											
HS3ST3A1	9955	broad.mit.edu	37	chr17	13400128	13400128	+	Missense_Mutation	SNP	T	G	G	0	1	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	cccgtccagggttctgggcaTcaggtccctgagaaacgcaa	9	7	12	13	2	2	1	1	1	1	1	4	2	4	1	3	3	1	3	3	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:13400128T>G	uc002gob.1	-	2	1405	c.607A>C	c.(607-609)ATG>CTG	p.M203L		NM_006042	NP_006033	Q9Y663	HS3SA_HUMAN	heparan sulfate D-glucosaminyl	203	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity			ovary(1)|central_nervous_system(1)	2		all_lung(20;0.114)		UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GTTCTGGGCATCAGGTCCCTG	0.502													9	62					0	0	1	0	0		G	13400128	G	G	13400128	3	3	187	1	0	0	0	0	1	0	0	0	7381	1435	50	5	617	5	HS3ST3A1	17	13400128	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2864220	13400128	67795082	711	93494											
NCOR1	9611	broad.mit.edu	37	chr17	16012111	16012111	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttgagataccttcgctgtctTctggattttcttcttcattg	5	20	7	9	1	5	1	1	1	4	1	6	3	5	2	1	1	1	1	1	1	1	9			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:16012111T>A	uc002gpo.2	-	19	2411	c.2171A>T	c.(2170-2172)GAA>GTA	p.E724V	NCOR1_uc002gpn.2_Missense_Mutation_p.E724V|NCOR1_uc002gpp.1_Missense_Mutation_p.E615V|NCOR1_uc002gpr.2_Missense_Mutation_p.E615V	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	724					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		TTCGCTGTCTTCTGGATTTTC	0.383													25	45					0	0	1	0	0		A	16012111	A	A	16012111	3	1	187	1	0	0	0	0	1	0	0	0	10254	1783	62	5	5263	5	NCOR1	17	16012111	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2611983	16012111	65183099	712	93495											
MYO15A	51168	broad.mit.edu	37	chr17	18042911	18042911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtgctggacctgttcgtaCggagccggacacgggtaagc	8	8	15	10	4	0	0	0	0	0	0	1	3	0	3	2	4	4	4	2	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:18042911C>T	uc010vxh.1	+	18	5535	c.5197C>T	c.(5197-5199)CGG>TGG	p.R1733W		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1733	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCTGTTCGTACGGAGCCGGAC	0.642													12	36					0	0	1	0	0		T	18042911	T	T	18042911	3	4	187	1	0	0	0	0	1	0	0	0	10081	527	19	1	5263	1	MYO15A	17	18042911	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2030800	18042911	63152299	713	93496											
SMCR8	140775	broad.mit.edu	37	chr17	18220410	18220410	+	Missense_Mutation	SNP	A	C	C	1	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	ggagcaggaactgggagatgAggagtacaaggaagtggaag	15	4	19	3	0	0	2	0	1	0	1	0	8	0	7	0	6	3	2	0	6	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:18220410A>C	uc002gsy.3	+	1	1817	c.1307A>C	c.(1306-1308)GAG>GCG	p.E436A		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	436										central_nervous_system(1)	1						CTGGGAGATGAGGAGTACAAG	0.453													14	70					0	0	1	0	0		C	18220410	C	C	18220410	3	2	187	1	0	0	0	0	1	0	0	0	14817	304	11	5	1309	5	SMCR8	17	18220410	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	177499	18220410	62974800	714	93497											
CYTSB	92521	broad.mit.edu	37	chr17	20135577	20135577	+	Missense_Mutation	SNP	A	T	T	1	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	cgcagtggtggtggccaatgAcatcaagtgtgaggcccagc	9	7	15	10	1	1	2	1	2	0	0	1	2	1	2	2	4	1	1	2	4	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:20135577A>T	uc002gwq.2	+	7	2355	c.2210A>T	c.(2209-2211)GAC>GTC	p.D737V	CYTSB_uc010cqx.2_Missense_Mutation_p.D737V|CYTSB_uc002gwr.2_Missense_Mutation_p.D737V|CYTSB_uc002gws.2_Missense_Mutation_p.D737V|CYTSB_uc002gwv.2_Missense_Mutation_p.D656V|CYTSB_uc010vzf.1_Missense_Mutation_p.D77V|CYTSB_uc002gww.2_Missense_Mutation_p.D513V|CYTSB_uc002gwt.2_Missense_Mutation_p.D656V|CYTSB_uc002gwu.2_Missense_Mutation_p.D656V	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	737	Potential.					nucleus					0						GTGGCCAATGACATCAAGTGT	0.592													33	97					0	0	1	0	0		T	20135577	T	T	20135577	3	4	187	1	0	0	0	0	1	0	0	0	4213	275	10	5	2276	5	CYTSB	17	20135577	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1915167	20135577	61059633	715	93498											
FOXN1	8456	broad.mit.edu	37	chr17	26851931	26851931	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctggcttctcagcagaGgcctggtgtaacgggctccc	5	9	13	14	1	1	1	1	0	1	1	3	1	2	1	3	4	3	4	3	4	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:26851931G>T	uc010crm.2	+	3	732	c.534G>T	c.(532-534)GAG>GAT	p.E178D	FOXN1_uc002hbj.2_Missense_Mutation_p.E178D	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	178					defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	Lung NSC(42;0.00431)					TCTCAGCAGAGGCCTGGTGTA	0.642													13	31					1.05317e-09	1.11926e-09	1	1	0		T	26851931	T	T	26851931	3	4	187	1	0	0	0	0	1	0	0	0	6033	991	35	5	540	5	FOXN1	17	26851931	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6716354	26851931	54343279	716	93499											
NUFIP2	57532	broad.mit.edu	37	chr17	27613259	27613259	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaggctccactctcactagTagtcccagattttagaatgc	11	12	7	11	0	1	2	1	0	1	2	4	2	3	2	2	1	1	2	2	1	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:27613259T>C	uc002hdy.3	-	2	1842	c.1753A>G	c.(1753-1755)ACT>GCT	p.T585A	NUFIP2_uc002hdx.3_Intron	NM_020772	NP_065823	Q7Z417	NUFP2_HUMAN	nuclear fragile X mental retardation protein	585						nucleus|polysomal ribosome	protein binding|RNA binding			skin(2)|ovary(1)|breast(1)	4			BRCA - Breast invasive adenocarcinoma(11;0.000457)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			CTCTCACTAGTAGTCCCAGAT	0.473													21	59					0	0	1	0	0		C	27613259	C	C	27613259	3	2	187	1	0	0	0	0	1	0	0	0	10768	1638	57	3	346	3	NUFIP2	17	27613259	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	761328	27613259	53581951	717	93500											
ANKRD13B	124930	broad.mit.edu	37	chr17	27938981	27938981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaactttgagctgggcaacCgtgatatgggccgccccatg	8	8	12	13	2	0	2	0	2	0	0	0	2	0	2	5	2	3	2	5	2	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:27938981C>T	uc002hei.2	+	10	1170	c.1057C>T	c.(1057-1059)CGT>TGT	p.R353C	ANKRD13B_uc002heh.2_Missense_Mutation_p.R221C|ANKRD13B_uc002hej.2_RNA|ANKRD13B_uc002hek.2_5'Flank	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	353											0						GCTGGGCAACCGTGATATGGG	0.602													13	43					0	0	1	0	0		T	27938981	T	T	27938981	3	4	187	1	0	0	0	0	1	0	0	0	642	652	23	1	1095	1	ANKRD13B	17	27938981	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	325722	27938981	53256229	718	93501											
SLFN11	91607	broad.mit.edu	37	chr17	33690288	33690288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttgggtcagcaggatccGagttagggagctcttggtat	8	12	15	6	1	2	0	1	0	1	0	3	3	3	2	1	4	2	5	1	4	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:33690288G>A	uc010ctp.2	-	4	981	c.539C>T	c.(538-540)TCG>TTG	p.S180L	SLFN11_uc010ctq.2_Missense_Mutation_p.S180L|SLFN11_uc002hjh.3_Missense_Mutation_p.S180L|SLFN11_uc002hjg.3_Missense_Mutation_p.S180L|SLFN11_uc010ctr.2_Missense_Mutation_p.S180L	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	180						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AGCAGGATCCGAGTTAGGGAG	0.428													42	144					0	0	1	0	0		A	33690288	A	A	33690288	3	1	187	1	0	0	0	0	1	0	0	0	14758	1059	37	1	2182	1	SLFN11	17	33690288	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5751307	33690288	47504922	719	93502											
KRT12	3859	broad.mit.edu	37	chr17	39020063	39020063	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccactccgggggcagcGtccatttctacgctgacctc	6	9	11	15	3	1	1	0	1	1	0	5	1	4	1	4	3	2	2	4	3	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:39020063G>A	uc002hvk.2	-	4	885	c.861C>T	c.(859-861)GAC>GAT	p.D287D		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	287	Rod.|Linker 12.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CGGGGGCAGCGTCCATTTCTA	0.557													11	38					0	0	1	0	0		A	39020063	A	A	39020063	2	1	187	1	0	0	0	0	0	0	0	1	8465	1136	40	1		1	KRT12	17	39020063	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5329775	39020063	42175147	720	93503											
KRT23	25984	broad.mit.edu	37	chr17	39092801	39092801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccggccccagccacctcCggcgccatggaaggaggccg	6	2	16	17	4	0	0	0	0	0	0	1	2	1	2	8	6	1	0	8	6	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:39092801C>T	uc002hvm.1	-	2	644	c.55G>A	c.(55-57)GGA>AGA	p.G19R	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.G19R|KRT23_uc002hvn.1_Missense_Mutation_p.G19R	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	19	Head.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				CAGCCACCTCCGGCGCCATGG	0.692													17	57					0	0	1	0	0		T	39092801	T	T	39092801	3	4	187	1	0	0	0	0	1	0	0	0	8476	661	23	1	1245	1	KRT23	17	39092801	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	72738	39092801	42102409	721	93504											
MLX	6945	broad.mit.edu	37	chr17	40721266	40721266	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgtccccacttgccagcaGcaggacttctccattggctc	7	10	8	16	1	1	0	0	0	1	0	5	1	2	1	4	2	3	3	4	2	0	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:40721266G>A	uc002iag.2	+	5	548	c.483G>A	c.(481-483)CAG>CAA	p.Q161Q	MLX_uc002iaf.2_Silent_p.Q107Q|MLX_uc002iah.2_Silent_p.Q77Q	NM_170607	NP_733752	Q9UH92	MLX_HUMAN	transcription factor-like protein 4 isoform	161					energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		CTTGCCAGCAGCAGGACTTCT	0.512													30	116					0	0	1	0	0		A	40721266	A	A	40721266	2	1	187	1	0	0	0	0	0	0	0	1	9653	962	34	2		2	MLX	17	40721266	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1628465	40721266	40473944	722	93505											
CNTNAP1	8506	broad.mit.edu	37	chr17	40839042	40839042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagacctggccgtgcggcGccattcccggatcaccttcg	5	7	12	17	6	1	1	1	0	0	1	3	2	2	2	5	3	1	1	5	3	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:40839042G>A	uc002iay.2	+	7	1238	c.1022G>A	c.(1021-1023)CGC>CAC	p.R341H	CNTNAP1_uc010wgs.1_RNA	NM_003632	NP_003623	P78357	CNTP1_HUMAN	contactin associated protein 1 precursor	341	Laminin G-like 1.|Extracellular (Potential).				axon guidance|cell adhesion	paranode region of axon	receptor activity|receptor binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(3)|breast(3)|upper_aerodigestive_tract(1)|lung(1)	8		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.143)		GCCGTGCGGCGCCATTCCCGG	0.597													17	54					0	0	1	0	0		A	40839042	A	A	40839042	3	1	187	1	0	0	0	0	1	0	0	0	3649	1087	38	1	1048	1	CNTNAP1	17	40839042	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	117776	40839042	40356168	723	93506											
KIF18B	146909	broad.mit.edu	37	chr17	43008979	43008979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatacctactgcttagaaCggtccccatccagttcccgt	10	10	7	14	2	0	2	0	0	0	2	3	2	3	2	5	1	4	2	5	1	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:43008979C>T	uc010wji.1	-	11	1645	c.1544G>A	c.(1543-1545)CGT>CAT	p.R515H	KIF18B_uc002iht.2_Missense_Mutation_p.R515H|KIF18B_uc010wjh.1_Missense_Mutation_p.R503H	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				CTGCTTAGAACGGTCCCCATC	0.567													8	95					0	0	1	0	0		T	43008979	T	T	43008979	3	4	187	1	0	0	0	0	1	0	0	0	8297	536	19	1	1046	1	KIF18B	17	43008979	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2169937	43008979	38186231	724	93507											
RPRML	388394	broad.mit.edu	37	chr17	45056238	45056238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggaccccgtcgctggcggCcagcggtgcgccccctggac	3	4	17	17	5	0	0	0	0	0	0	1	2	0	2	5	6	2	1	5	6	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:45056238C>T	uc002ilb.2	-	1	377	c.136G>A	c.(136-138)GCC>ACC	p.A46T	GOSR2_uc010wkh.1_Intron	NM_203400	NP_981945	Q8N4K4	RPRML_HUMAN	reprimo-like	46						integral to membrane					0						TCGCTGGCGGCCAGCGGTGCG	0.667													5	8					0	0	1	0	0		T	45056238	T	T	45056238	3	4	187	1	0	0	0	0	1	0	0	0	13644	739	26	2	230	2	RPRML	17	45056238	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2047259	45056238	36138972	725	93508											
SNF8	11267	broad.mit.edu	37	chr17	47014454	47014454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcgtaatagaagtcccccaCgcccagcatctcagaccaaa	13	7	6	15	2	1	2	1	0	1	2	4	2	2	2	4	0	1	2	4	0	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:47014454C>T	uc002ioj.2	-	4	335	c.277G>A	c.(277-279)GTG>ATG	p.V93M	SNF8_uc002iok.2_Missense_Mutation_p.V93M	NM_007241	NP_009172	Q96H20	SNF8_HUMAN	EAP30 subunit of ELL complex	93					cellular membrane organization|endosome transport|protein transport|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytosol|late endosome membrane|transcription factor complex	transcription factor binding				0						AAGTCCCCCACGCCCAGCATC	0.458													48	132					0	0	1	0	0		T	47014454	T	T	47014454	3	4	187	1	0	0	0	0	1	0	0	0	14871	536	19	1	519	1	SNF8	17	47014454	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1958216	47014454	34180756	726	93509											
SPAG9	9043	broad.mit.edu	37	chr17	49098699	49098699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagtggtagctttagatcCgccttggctaacatcagaaa	11	11	11	8	1	1	2	1	0	0	2	2	3	2	3	2	3	2	3	2	3	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:49098699C>T	uc002itc.2	-	7	1020	c.811G>A	c.(811-813)GGA>AGA	p.G271R	SPAG9_uc002itb.2_Missense_Mutation_p.G257R|SPAG9_uc002itd.2_Missense_Mutation_p.G257R|SPAG9_uc002itf.2_Missense_Mutation_p.G92R|SPAG9_uc002ita.2_Missense_Mutation_p.G114R|SPAG9_uc002ite.2_Missense_Mutation_p.G101R	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	271					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			GCTTTAGATCCGCCTTGGCTA	0.348													34	71					0	0	1	0	0		T	49098699	T	T	49098699	3	4	187	1	0	0	0	0	1	0	0	0	15010	661	23	1	3250	1	SPAG9	17	49098699	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2084245	49098699	32096511	727	93510											
COIL	8161	broad.mit.edu	37	chr17	55019433	55019433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagcgtactccactacctcgGctccattttcattgtgataa	9	13	6	13	2	1	1	1	1	0	0	4	1	3	1	3	1	3	2	3	1	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:55019433G>A	uc002iuu.2	-	6	1641	c.1610C>T	c.(1609-1611)GCC>GTC	p.A537V		NM_004645	NP_004636	P38432	COIL_HUMAN	coilin	537						Cajal body|nucleolus	protein C-terminus binding			ovary(1)	1	Breast(9;6.15e-08)					CACTACCTCGGCTCCATTTTC	0.438													28	94					0	0	1	0	0		A	55019433	A	A	55019433	3	1	187	1	0	0	0	0	1	0	0	0	3668	1203	42	2	128	2	COIL	17	55019433	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5920734	55019433	26175777	728	93511											
OR4D1	26689	broad.mit.edu	37	chr17	56233062	56233062	+	Missense_Mutation	SNP	A	G	G	1	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	cttctactgtgatgttccccAagtactgagacttgcctgca	8	13	8	12	0	1	2	0	2	1	1	2	3	2	2	3	0	4	3	3	0	3	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:56233062A>G	uc010wno.1	+	1	548	c.548A>G	c.(547-549)CAA>CGA	p.Q183R	MSX2P1_uc002ivn.2_5'Flank	NM_012374	NP_036506	Q15615	OR4D1_HUMAN	olfactory receptor, family 4, subfamily D,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GATGTTCCCCAAGTACTGAGA	0.512													33	95					0	0	1	0	0		G	56233062	G	G	56233062	3	3	187	1	0	0	0	0	1	0	0	0	11072	130	5	3	550	3	OR4D1	17	56233062	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1213629	56233062	24962148	729	93512											
TEX14	56155	broad.mit.edu	37	chr17	56663303	56663303	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcgctgccaatccgtgttttCtgggctcctaatggggggct	4	13	13	11	2	1	0	0	0	1	0	4	0	3	0	3	4	1	4	3	4	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:56663303C>G	uc010dcz.1	-	18	3065	c.2947G>C	c.(2947-2949)GAA>CAA	p.E983Q	TEX14_uc002iwr.1_Missense_Mutation_p.E977Q|TEX14_uc002iws.1_Missense_Mutation_p.E977Q|TEX14_uc010dda.1_Missense_Mutation_p.E757Q	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	983						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCCGTGTTTTCTGGGCTCCTA	0.517													39	105					0	0	1	0	0		G	56663303	G	G	56663303	3	3	187	1	0	0	0	0	1	0	0	0	15803	922	32	5	1610	5	TEX14	17	56663303	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	430241	56663303	24531907	730	93513											
BRIP1	83990	broad.mit.edu	37	chr17	59763509	59763509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggtgctgaatctgctgccGtacccatttagaaagtccta	10	12	9	10	1	1	2	0	1	1	1	2	2	2	2	3	1	4	3	3	1	5	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:59763509G>A	uc002izk.1	-	19	2734	c.2593C>T	c.(2593-2595)CGG>TGG	p.R865W	BRIP1_uc002izl.1_Missense_Mutation_p.R246W	NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	865					DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						ATCTGCTGCCGTACCCATTTA	0.348			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				27	71					0	0	1	0	0		A	59763509	A	A	59763509	3	1	187	1	0	0	0	0	1	0	0	0	1517	1144	40	1	1164	1	BRIP1	17	59763509	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3100206	59763509	21431701	731	93514											
ACE	1636	broad.mit.edu	37	chr17	61574527	61574527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggcccctcccagacagcGgccgcgtcagcttcctgggc	6	5	13	17	3	1	1	1	0	0	1	3	1	3	1	5	3	2	1	5	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:61574527G>A	uc002jau.1	+	25	3743	c.3721G>A	c.(3721-3723)GGC>AGC	p.G1241S	ACE_uc002jav.1_Missense_Mutation_p.G667S|ACE_uc010ddv.1_Missense_Mutation_p.G468S|ACE_uc010wpj.1_Missense_Mutation_p.G626S|ACE_uc002jaw.1_Intron|ACE_uc010wpk.1_Missense_Mutation_p.G446S	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1241	Extracellular (Potential).				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	CCCAGACAGCGGCCGCGTCAG	0.542													4	18					0	0	1	0	0		A	61574527	A	A	61574527	3	1	187	1	0	0	0	0	1	0	0	0	136	1116	39	1	4022	1	ACE	17	61574527	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1811018	61574527	19620683	732	93515											
LRRC37A3	374819	broad.mit.edu	37	chr17	62892219	62892219	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacttcatgatgttctggaGgctgacctggggtctcctgc	5	13	13	10	0	3	3	1	3	2	0	4	4	3	4	2	4	1	2	2	4	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:62892219G>T	uc002jey.2	-	3	1688	c.1157C>A	c.(1156-1158)CCT>CAT	p.P386H	LRRC37A3_uc010wqg.1_Intron|LRRC37A3_uc010wqf.1_Intron	NM_199340	NP_955372	O60309	L37A3_HUMAN	leucine rich repeat containing 37, member A3	386	Extracellular (Potential).					integral to membrane					0						ATGTTCTGGAGGCTGACCTGG	0.527													36	258					1.63429e-32	1.81267e-32	1	1	0		T	62892219	T	T	62892219	3	4	187	1	0	0	0	0	1	0	0	0	9011	1000	35	5	3795	5	LRRC37A3	17	62892219	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1317692	62892219	18302991	733	93516											
ABCA8	10351	broad.mit.edu	37	chr17	66925743	66925743	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaagaggctgaagactaccaTgaagccagacaaaatgataa	20	5	9	7	0	0	6	0	3	0	3	0	6	0	6	2	1	2	1	2	1	7	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:66925743T>C	uc002jhp.2	-	7	1077	c.898A>G	c.(898-900)ATG>GTG	p.M300V	ABCA8_uc002jhq.2_Missense_Mutation_p.M300V|ABCA8_uc010wqq.1_Missense_Mutation_p.M300V|ABCA8_uc010wqr.1_Missense_Mutation_p.M239V|ABCA8_uc002jhr.2_Missense_Mutation_p.M300V	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	300	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					AAGACTACCATGAAGCCAGAC	0.393													9	56					0	0	1	0	0		C	66925743	C	C	66925743	3	2	187	1	0	0	0	0	1	0	0	0	38	1464	51	3	3975	3	ABCA8	17	66925743	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	4033524	66925743	14269467	734	93517											
ABCA9	10350	broad.mit.edu	37	chr17	67041434	67041434	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgaatagttcaaatccaaTtcatccatgcttttttcatc	12	17	3	9	0	3	1	3	1	0	0	6	1	5	1	2	0	1	2	2	0	4	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:67041434T>A	uc002jhu.2	-	4	491	c.348A>T	c.(346-348)GAA>GAT	p.E116D	ABCA9_uc010dez.2_Missense_Mutation_p.E116D|ABCA9_uc002jhv.2_Missense_Mutation_p.E116D	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	116					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					TCAAATCCAATTCATCCATGC	0.393													16	92					0	0	1	0	0		A	67041434	A	A	67041434	3	1	187	1	0	0	0	0	1	0	0	0	39	1490	52	5	4670	5	ABCA9	17	67041434	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	115691	67041434	14153776	735	93518											
SLC25A19	60386	broad.mit.edu	37	chr17	73274374	73274374	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaaacctgggggccttcgcTcctatacatggtccccacgg	8	8	11	14	2	0	0	0	0	0	0	3	1	2	0	5	4	2	1	5	4	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:73274374T>C	uc002jns.3	-	4	1412	c.502A>G	c.(502-504)AGC>GGC	p.S168G	SLC25A19_uc010dge.2_Missense_Mutation_p.S111G|SLC25A19_uc002jnv.3_Missense_Mutation_p.S168G|SLC25A19_uc002jnu.3_Missense_Mutation_p.S168G|SLC25A19_uc002jnw.3_Missense_Mutation_p.S168G|SLC25A19_uc002jnt.3_Missense_Mutation_p.S168G	NM_021734	NP_068380	Q9HC21	TPC_HUMAN	solute carrier family 25, member 19	168	Solcar 2.					integral to membrane|mitochondrial inner membrane	binding|deoxynucleotide transmembrane transporter activity			ovary(1)	1	all_cancers(13;5.98e-08)|all_epithelial(9;1.16e-08)|Breast(9;3.1e-08)		all cancers(21;6.82e-07)|Epithelial(20;6.86e-06)			GGGCCTTCGCTCCTATACATG	0.552													52	113					0	0	1	0	0		C	73274374	C	C	73274374	3	2	187	1	0	0	0	0	1	0	0	0	14506	1551	54	3	472	3	SLC25A19	17	73274374	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	6232940	73274374	7920836	736	93519											
EVPL	2125	broad.mit.edu	37	chr17	74019498	74019498	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccgctcgtgcagctgcttgaTgctgtcaagaaggtggccgg	6	9	15	11	3	1	2	1	1	0	1	2	2	1	2	2	3	4	5	2	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:74019498T>C	uc002jqi.2	-	4	583	c.355A>G	c.(355-357)ATC>GTC	p.I119V	EVPL_uc010wss.1_Missense_Mutation_p.I119V|EVPL_uc010wst.1_5'UTR	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	119	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						AGCTGCTTGATGCTGTCAAGA	0.652													18	54					0	0	1	0	0		C	74019498	C	C	74019498	3	2	187	1	0	0	0	0	1	0	0	0	5300	1478	51	3	5822	3	EVPL	17	74019498	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	745124	74019498	7175712	737	93520											
CARD14	79092	broad.mit.edu	37	chr17	78156499	78156499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggaagaacggggccatcGccttcctggagagcctgaag	10	5	16	10	2	0	3	0	1	0	2	2	6	1	4	4	4	2	0	4	4	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:78156499G>A	uc002jxw.1	+	3	454	c.259G>A	c.(259-261)GCC>ACC	p.A87T	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Missense_Mutation_p.A87T|CARD14_uc010wud.1_5'Flank	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	87	CARD.				activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			CGGGGCCATCGCCTTCCTGGA	0.587													14	33					0	0	1	0	0		A	78156499	A	A	78156499	3	1	187	1	0	0	0	0	1	0	0	0	2649	1087	38	1	265	1	CARD14	17	78156499	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4137001	78156499	3038711	738	93521											
FASN	2194	broad.mit.edu	37	chr17	80049217	80049217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcggtggcggggacagccGcgatgtcgttcagcatgctc	5	8	17	11	5	1	0	1	0	0	0	3	2	1	1	1	5	3	3	1	5	0	1	rs143812680		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:80049217G>A	uc002kdu.2	-	9	1490	c.1373C>T	c.(1372-1374)GCG>GTG	p.A458V	FASN_uc002kdw.1_5'Flank	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	458	Acyl and malonyl transferases (By similarity).				energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	GGGGACAGCCGCGATGTCGTT	0.716													5	13					0	0	1	0	0		A	80049217	A	A	80049217	3	1	187	1	0	0	0	0	1	0	0	0	5697	1087	38	1	6302	1	FASN	17	80049217	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1892718	80049217	1145993	739	93522											
FOXK2	3607	broad.mit.edu	37	chr17	80559219	80559219	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttggcaacacacgcatcCgcatcggcctccctgcccac	8	7	8	18	3	0	0	0	0	0	0	3	0	2	0	4	2	2	4	4	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr17:80559219C>T	uc002kfn.2	+	9	1998	c.1827C>T	c.(1825-1827)TCC>TCT	p.S609S	FOXK2_uc010diu.2_Missense_Mutation_p.P317L|FOXK2_uc002kfo.2_RNA|FOXK2_uc002kfp.2_RNA	NM_004514	NP_004505	Q01167	FOXK2_HUMAN	forkhead box K2	609					embryo development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0	Breast(20;0.00106)|all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.0371)|BRCA - Breast invasive adenocarcinoma(99;0.0415)			CACACGCATCCGCATCGGCCT	0.612													14	75					0	0	1	0	0		T	80559219	T	T	80559219	2	4	187	1	0	0	0	0	0	0	0	1	6029	639	23	1		1	FOXK2	17	80559219	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	510002	80559219	635991	740	93523											
ENOSF1	55556	broad.mit.edu	37	chr18	677824	677824	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtcaatctggaggaactGcagggccttcgcctgtagga	9	9	13	10	1	2	0	1	0	1	0	3	3	2	3	2	4	2	2	2	4	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:677824G>A	uc002kku.3	-	13	1042	c.967C>T	c.(967-969)CAG>TAG	p.Q323*	ENOSF1_uc002kkt.3_Nonsense_Mutation_p.Q241*|ENOSF1_uc010dke.2_RNA|ENOSF1_uc010dkf.2_Nonsense_Mutation_p.Q330*|ENOSF1_uc002kkv.3_Nonsense_Mutation_p.Q310*|ENOSF1_uc002kkw.3_Nonsense_Mutation_p.Q142*|ENOSF1_uc002kkx.3_Nonsense_Mutation_p.Q247*	NM_017512	NP_059982	Q7L5Y1	ENOF1_HUMAN	enolase superfamily 1 isoform rTS beta	323					cellular amino acid catabolic process	mitochondrion	isomerase activity|metal ion binding			ovary(1)	1						TGGAGGAACTGCAGGGCCTTC	0.468													29	102					0	0	1	0	0		A	677824	A	A	677824	4	1	187	1	0	0	0	0	0	1	0	0	5133	1328	46	2	380	2	ENOSF1	18	677824	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		677824	77399424	741	93524											
LAMA1	284217	broad.mit.edu	37	chr18	7049225	7049225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgggtgaaagatcgtcagcgCttggtctgccattgatgagt	8	12	14	7	2	2	4	1	3	1	1	3	4	2	4	1	2	2	1	1	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:7049225C>T	uc002knm.2	-	5	714	c.620G>A	c.(619-621)AGC>AAC	p.S207N	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	207	Laminin N-terminal.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATCGTCAGCGCTTGGTCTGCC	0.363													29	118					0	0	1	0	0		T	7049225	T	T	7049225	3	4	187	1	0	0	0	0	1	0	0	0	8621	797	28	2	8843	2	LAMA1	18	7049225	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6371401	7049225	71028023	742	93525											
PTPRM	5797	broad.mit.edu	37	chr18	8370957	8370957	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaagttaccctaatagaaAcagaactactggcagaatat	18	10	6	7	0	0	3	0	0	0	3	0	3	0	3	1	1	4	2	1	1	10	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:8370957A>G	uc002knn.3	+	22	3588	c.3085A>G	c.(3085-3087)ACA>GCA	p.T1029A	PTPRM_uc010dkv.2_Missense_Mutation_p.T1042A|PTPRM_uc010wzl.1_Missense_Mutation_p.T816A	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1029	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CCTAATAGAAACAGAACTACT	0.333													17	52					0	0	1	0	0		G	8370957	G	G	8370957	3	3	187	1	0	0	0	0	1	0	0	0	12831	43	2	3	3218	3	PTPRM	18	8370957	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1321732	8370957	69706291	743	93526											
TUBB6	84617	broad.mit.edu	37	chr18	12325604	12325604	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgcctggcttcgcgccGctcaccagccgcggcagcca	5	7	11	18	5	2	0	2	0	0	0	3	0	2	0	5	2	3	3	5	2	0	2	rs140883153		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:12325604G>A	uc002kqw.2	+	4	861	c.816G>A	c.(814-816)CCG>CCA	p.P272P	TUBB6_uc002kqv.2_Silent_p.P200P|TUBB6_uc010dld.2_RNA|TUBB6_uc002kqx.2_Silent_p.P235P|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	272					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		GCTTCGCGCCGCTCACCAGCC	0.682													16	50					0	0	1	0	0		A	12325604	A	A	12325604	2	1	187	1	0	0	0	0	0	0	0	1	16786	1074	38	1		1	TUBB6	18	12325604	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3954647	12325604	65751644	744	93527											
TUBB6	84617	broad.mit.edu	37	chr18	12325851	12325851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtgaaggtggccgtgtgcGacatcccgccccgcggcctg	5	6	15	15	6	0	1	0	1	0	0	1	2	1	1	5	3	1	0	5	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:12325851G>A	uc002kqw.2	+	4	1108	c.1063G>A	c.(1063-1065)GAC>AAC	p.D355N	TUBB6_uc002kqv.2_Missense_Mutation_p.D283N|TUBB6_uc002kqx.2_Missense_Mutation_p.D318N|TUBB6_uc002kqy.2_Intron	NM_032525	NP_115914	Q9BUF5	TBB6_HUMAN	tubulin, beta 6	355					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0				READ - Rectum adenocarcinoma(1;0.0649)		GGCCGTGTGCGACATCCCGCC	0.592													49	182					0	0	1	0	0		A	12325851	A	A	12325851	3	1	187	1	0	0	0	0	1	0	0	0	16786	1058	37	1	1077	1	TUBB6	18	12325851	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	247	12325851	65751397	745	93528											
ZNF519	162655	broad.mit.edu	37	chr18	14105730	14105730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctggtaaaagctttgccaCgttctttatatttcactgat	9	16	6	10	1	2	1	1	1	1	0	2	1	2	1	2	1	2	3	2	1	4	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:14105730C>T	uc002kst.1	-	3	962	c.809G>A	c.(808-810)CGT>CAT	p.R270H	ZNF519_uc002ksq.1_Intron|ZNF519_uc002ksr.1_Intron|ZNF519_uc010dlm.1_Intron	NM_145287	NP_660330	Q8TB69	ZN519_HUMAN	zinc finger protein 519	270					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGCTTTGCCACGTTCTTTATA	0.318													11	42					0	0	1	0	0		T	14105730	T	T	14105730	3	4	187	1	0	0	0	0	1	0	0	0	17989	536	19	1	817	1	ZNF519	18	14105730	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1779879	14105730	63971518	746	93529											
NPC1	4864	broad.mit.edu	37	chr18	21114441	21114441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggcaagtgcctcttccGcgcgctccacgcggctgcct	3	9	13	16	5	1	0	0	0	1	0	3	0	3	0	4	2	2	3	4	2	1	1	rs113371321		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:21114441G>A	uc002kum.3	-	23	3834	c.3560C>T	c.(3559-3561)GCG>GTG	p.A1187V	NPC1_uc010dlu.1_5'Flank|NPC1_uc010xaz.1_Missense_Mutation_p.A920V	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	1187					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TGCCTCTTCCGCGCGCTCCAC	0.587													11	36					0	0	1	0	0		A	21114441	A	A	21114441	3	1	187	1	0	0	0	0	1	0	0	0	10589	1087	38	1	288	1	NPC1	18	21114441	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7008711	21114441	56962807	747	93530											
HRH4	59340	broad.mit.edu	37	chr18	22057071	22057071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcaaggagatctctttctGcatcgacagaagttcctgca	10	12	8	11	1	3	2	1	0	2	2	6	4	4	2	1	1	2	3	1	1	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:22057071G>A	uc002kvi.2	+	3	818	c.718G>A	c.(718-720)GCA>ACA	p.A240T	HRH4_uc010xbd.1_3'UTR|HRH4_uc010dlx.2_Missense_Mutation_p.A152T	NM_021624	NP_067637	Q9H3N8	HRH4_HUMAN	histamine H4 receptor isoform 1	240	Cytoplasmic (Potential).					integral to membrane|plasma membrane	histamine receptor activity			ovary(2)	2	all_cancers(21;0.000545)|all_epithelial(16;6.56e-06)|Lung NSC(20;0.0027)|all_lung(20;0.0085)|Colorectal(14;0.0361)|Ovarian(20;0.0991)				Clozapine(DB00363)	ATCTCTTTCTGCATCGACAGA	0.443													28	98					0	0	1	0	0		A	22057071	A	A	22057071	3	1	187	1	0	0	0	0	1	0	0	0	7374	1319	46	2	728	2	HRH4	18	22057071	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	942630	22057071	56020177	748	93531											
CHST9	83539	broad.mit.edu	37	chr18	24722666	24722666	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttacctgtatgttgttcTtcaatccagacttgcaaata	10	16	7	8	0	2	1	1	0	1	1	3	1	3	1	2	0	2	5	2	0	5	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:24722666T>G	uc002kwd.2	-	1	306	c.108A>C	c.(106-108)GAA>GAC	p.E36D	C18orf16_uc010xbm.1_Intron|CHST9_uc002kwe.2_Missense_Mutation_p.E36D	NM_031422	NP_113610	Q7L1S5	CHST9_HUMAN	GalNAc-4-sulfotransferase 2	36	Lumenal (Potential).				carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity			ovary(2)|skin(1)	3	all_lung(6;0.0145)|Ovarian(20;0.124)					TATGTTGTTCTTCAATCCAGA	0.328													16	39					0	0	1	0	0		G	24722666	G	G	24722666	3	3	187	1	0	0	0	0	1	0	0	0	3414	1606	56	5	1243	5	CHST9	18	24722666	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	2665595	24722666	53354582	749	93532											
C18orf34	374864	broad.mit.edu	37	chr18	30926291	30926291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcttcttcagcgtctgccCggtcagtttctagactttta	7	15	8	11	2	5	1	2	0	3	1	5	1	5	1	1	1	3	2	1	1	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:30926291C>T	uc002kxn.2	-	8	684	c.542G>A	c.(541-543)CGG>CAG	p.R181Q	C18orf34_uc010xbr.1_Missense_Mutation_p.R181Q|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.R181Q|C18orf34_uc002kxp.2_Missense_Mutation_p.R181Q	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	181	Potential.									ovary(1)	1						AGCGTCTGCCCGGTCAGTTTC	0.378													19	58					0	0	1	0	0		T	30926291	T	T	30926291	3	4	187	1	0	0	0	0	1	0	0	0	1905	652	23	1	2121	1	C18orf34	18	30926291	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6203625	30926291	47150957	750	93533											
ZBTB7C	201501	broad.mit.edu	37	chr18	45567085	45567085	+	Frame_Shift_Del	DEL	C	-	-																															gtcatcctcctcccccccgtCccccccaggctccatgatct																								rs115080210	by1000genomes	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:45567085delC	uc002lda.2	-	1	410	c.394delG	c.(394-396)GACfs	p.D132fs	ZBTB7C_uc002ldb.2_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dnu.2_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dnv.2_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010dnw.2_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dnx.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dny.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dnz.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010dob.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doc.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dod.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010doe.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dof.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dog.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doh.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010doi.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doj.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dok.1_Frame_Shift_Del_p.D181fs|ZBTB7C_uc010dol.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010doa.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010don.1_Frame_Shift_Del_p.D140fs|ZBTB7C_uc010doo.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dop.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010doq.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dor.1_Frame_Shift_Del_p.D154fs|ZBTB7C_uc010dos.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dot.1_Frame_Shift_Del_p.D132fs|ZBTB7C_uc010dou.1_Frame_Shift_Del_p.D141fs|ZBTB7C_uc010dom.1_Frame_Shift_Del_p.D141fs	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	132	Glu-rich.|Asp-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						tcccccccgtcccccCCAGGC	0.289													10	23	---	---	---	---						.	-	45567085	-	-	45567085	7	5	187	1	0	1	0	1	0	0	0	0	17580	855	30	0	1473	0	ZBTB7C	18	45567085	Frame_Shift_Del	DEL	C	TCGA-D7-A4YV-01A-11D-A25D-08	14640794	45567085	32510163	751	93534											
PIGN	23556	broad.mit.edu	37	chr18	59806256	59806256	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtactgcatttgtaaacatgCtctctgctttgaagagatca	11	14	8	8	0	2	2	1	1	1	1	3	3	2	2	0	0	5	5	0	0	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr18:59806256C>A	uc002lii.3	-	13	1524	c.1076G>T	c.(1075-1077)AGC>ATC	p.S359I	PIGN_uc002lij.3_Missense_Mutation_p.S359I	NM_176787	NP_789744	O95427	PIGN_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	359	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	phosphotransferase activity, for other substituted phosphate groups			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	5		Colorectal(73;0.187)				TGTAAACATGCTCTCTGCTTT	0.343													4	14					0.00024832	0.000254767	1	1	0		A	59806256	A	A	59806256	3	1	187	1	0	0	0	0	1	0	0	0	11912	797	28	5	1795	5	PIGN	18	59806256	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	14239171	59806256	18270992	752	93535											
RNF126	55658	broad.mit.edu	37	chr19	651816	651816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccgaaagcaaactgtcCgtagccctgcggcagcgtga	10	6	13	12	4	0	1	0	1	0	0	1	3	1	1	3	1	6	3	3	1	3	1	rs139851549		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:651816C>T	uc010drs.2	-	4	344	c.238G>A	c.(238-240)GGA>AGA	p.G80R	RNF126_uc002lpi.2_5'UTR	NM_194460	NP_919442	Q9BV68	RN126_HUMAN	ring finger protein 126	80							protein binding|zinc ion binding				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAAACTGTCCGTAGCCCTGC	0.687													19	70					0	0	1	0	0		T	651816	T	T	651816	3	4	187	1	0	0	0	0	1	0	0	0	13460	661	23	1	721	1	RNF126	19	651816	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		651816	58477167	753	93536											
PTBP1	5725	broad.mit.edu	37	chr19	805125	805125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagagccgtgactacacacGcccagacctgccttccgggg	9	5	11	16	3	0	3	0	1	0	2	1	3	1	3	5	2	3	0	5	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:805125G>A	uc002lpr.2	+	8	936	c.830G>A	c.(829-831)CGC>CAC	p.R277H	PTBP1_uc002lpp.2_Missense_Mutation_p.R277H|PTBP1_uc002lpq.2_Missense_Mutation_p.R277H|PTBP1_uc002lps.2_Intron|PTBP1_uc002lpt.2_RNA|PTBP1_uc002lpu.1_Missense_Mutation_p.R247H	NM_031991	NP_114368	P26599	PTBP1_HUMAN	polypyrimidine tract-binding protein 1 isoform	277					negative regulation of muscle cell differentiation|nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	mRNA binding|nucleotide binding|poly-pyrimidine tract binding|protein binding			kidney(1)|skin(1)	2		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;0.000172)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACTACACACGCCCAGACCTG	0.617													47	160					0	0	1	0	0		A	805125	A	A	805125	3	1	187	1	0	0	0	0	1	0	0	0	12747	1087	38	1	860	1	PTBP1	19	805125	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	153309	805125	58323858	754	93537											
ELANE	1991	broad.mit.edu	37	chr19	855752	855752	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctctgccgtcgcagcaaCgtctgcactctcgtgagggg	5	9	12	15	4	3	1	0	1	3	0	6	1	4	1	2	2	4	3	2	2	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:855752C>T	uc002lqb.2	+	4	593	c.555C>T	c.(553-555)AAC>AAT	p.N185N		NM_001972	NP_001963	P08246	ELNE_HUMAN	neutrophil elastase preproprotein	185	Peptidase S1.				cellular calcium ion homeostasis|negative regulation of chemokine biosynthetic process|negative regulation of chemotaxis|negative regulation of inflammatory response|negative regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of MAP kinase activity|positive regulation of smooth muscle cell proliferation|protein catabolic process|proteolysis|response to UV	cell surface|extracellular region|stored secretory granule	bacterial cell surface binding|cytokine binding|heparin binding			pancreas(1)	1					Alpha-1-proteinase inhibitor(DB00058)|Filgrastim(DB00099)|Pegfilgrastim(DB00019)	GTCGCAGCAACGTCTGCACTC	0.687									Kostmann_syndrome				23	83					0	0	1	0	0		T	855752	T	T	855752	2	4	187	1	0	0	0	0	0	0	0	1	5056	535	19	1		1	ELANE	19	855752	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	50627	855752	58273231	755	93538											
ABCA7	10347	broad.mit.edu	37	chr19	1063545	1063545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggccccaccccacagacCgctggctcgggcctggcgcg	4	5	13	19	4	1	1	0	0	1	1	2	1	1	1	6	4	0	2	6	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:1063545C>T	uc002lqw.3	+	43	5946	c.5715C>T	c.(5713-5715)ACC>ACT	p.T1905T	ABCA7_uc002lqy.2_Silent_p.T358T|ABCA7_uc010dsc.2_RNA|HMHA1_uc010xgd.1_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1905	ABC transporter 2.				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		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)		CCCCACAGACCGCTGGCTCGG	0.662													8	46					0	0	1	0	0		T	1063545	T	T	1063545	2	4	187	1	0	0	0	0	0	0	0	1	37	639	23	1		1	ABCA7	19	1063545	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	207793	1063545	58065438	756	93539											
APC2	10297	broad.mit.edu	37	chr19	1460271	1460271	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacctggcgctgcgccgctaCgcgggcatgaccctcaccaa	8	5	11	17	5	1	1	1	1	0	0	1	1	1	1	4	2	3	3	4	2	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:1460271C>T	uc002lsr.1	+	11	1603	c.1395C>T	c.(1393-1395)TAC>TAT	p.Y465Y	APC2_uc002lss.1_Silent_p.Y47Y|APC2_uc002lst.1_Silent_p.Y465Y|APC2_uc002lsu.1_Silent_p.Y464Y|uc002lsv.2_5'Flank	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	465					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGCGCCGCTACGCGGGCATGA	0.642													36	70					0	0	1	0	0		T	1460271	T	T	1460271	2	4	187	1	0	0	0	0	0	0	0	1	764	547	19	1		1	APC2	19	1460271	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	396726	1460271	57668712	757	93540											
PCSK4	54760	broad.mit.edu	37	chr19	1483747	1483747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcccggcgtccagcagcccGtatccgtagtgatggctcac	7	7	12	15	4	1	1	1	1	0	0	3	1	3	1	4	2	3	4	4	2	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:1483747G>A	uc002ltb.1	-	11	1355	c.1293C>T	c.(1291-1293)TAC>TAT	p.Y431Y	PCSK4_uc002lsz.2_Translation_Start_Site|PCSK4_uc002lta.2_Silent_p.Y243Y	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	431					proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCAGCCCGTATCCGTAGT	0.557													9	26					0	0	1	0	0		A	1483747	A	A	1483747	2	1	187	1	0	0	0	0	0	0	0	1	11621	1140	40	1		1	PCSK4	19	1483747	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	23476	1483747	57645236	758	93541											
THOP1	7064	broad.mit.edu	37	chr19	2807737	2807737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggcatgaggacgtgcGgctctacaccgcgagggacg	7	6	16	12	5	1	1	0	1	1	0	1	4	1	3	2	4	3	2	2	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:2807737G>A	uc002lwj.2	+	8	1339	c.1184G>A	c.(1183-1185)CGG>CAG	p.R395Q	THOP1_uc010xgz.1_Missense_Mutation_p.R274Q|THOP1_uc002lwk.2_5'Flank	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	395					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGGACGTGCGGCTCTACACC	0.716													11	27					0	0	1	0	0		A	2807737	A	A	2807737	3	1	187	1	0	0	0	0	1	0	0	0	15896	1116	39	1	1214	1	THOP1	19	2807737	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1323990	2807737	56321246	759	93542											
NCLN	56926	broad.mit.edu	37	chr19	3207443	3207443	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttggcattgctgcctacctCggcatggcctacgtggctgt	4	12	13	12	2	0	0	0	0	0	0	1	0	0	0	3	4	4	5	3	4	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:3207443C>T	uc002lxi.2	+	14	1762	c.1608C>T	c.(1606-1608)CTC>CTT	p.L536L	NCLN_uc002lxh.1_RNA|NCLN_uc002lxj.1_RNA|NCLN_uc002lxk.2_Silent_p.L180L	NM_020170	NP_064555	Q969V3	NCLN_HUMAN	nicalin precursor	536	Helical; (Potential).				proteolysis|regulation of signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	peptidase activity|protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.83e-113)|Epithelial(107;1.65e-111)|all cancers(105;1.53e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00139)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCCTACCTCGGCATGGCCT	0.672													40	148					0	0	1	0	0		T	3207443	T	T	3207443	2	4	187	1	0	0	0	0	0	0	0	1	10246	871	31	1		1	NCLN	19	3207443	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	399706	3207443	55921540	760	93543											
GIPC3	126326	broad.mit.edu	37	chr19	3590055	3590055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgtccaccatggtggagaCgtccaagaagacagcgagcg	12	4	14	11	4	0	3	0	0	0	3	2	5	2	3	3	2	3	0	3	2	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:3590055C>T	uc002lyd.3	+	6	833	c.806C>T	c.(805-807)ACG>ATG	p.T269M		NM_133261	NP_573568	Q8TF64	GIPC3_HUMAN	GIPC PDZ domain containing family, member 3	269										breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0025)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGGTGGAGACGTCCAAGAAG	0.652													8	14					0	0	1	0	0		T	3590055	T	T	3590055	3	4	187	1	0	0	0	0	1	0	0	0	6409	536	19	1	828	1	GIPC3	19	3590055	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	382612	3590055	55538928	761	93544											
DAPK3	1613	broad.mit.edu	37	chr19	3964788	3964788	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctccaggatgaggaccacGtccgtcttgttctcgaagat	9	10	11	11	3	2	2	0	1	2	1	5	5	4	4	3	2	1	2	3	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:3964788G>A	uc002lzc.1	-	2	357	c.264C>T	c.(262-264)GAC>GAT	p.D88D	DAPK3_uc002lzb.1_5'Flank|DAPK3_uc002lzd.1_Silent_p.D88D	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	88	Protein kinase.				apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		TGAGGACCACGTCCGTCTTGT	0.622													22	74					0	0	1	0	0		A	3964788	A	A	3964788	2	1	187	1	0	0	0	0	0	0	0	1	4240	1136	40	1		1	DAPK3	19	3964788	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	374733	3964788	55164195	762	93545											
UBXN6	80700	broad.mit.edu	37	chr19	4446914	4446914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccttccaggcagttaatgcGctcctgggggtggagatggg	6	9	16	10	1	0	1	0	0	0	1	2	2	2	1	3	5	1	3	3	5	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:4446914G>A	uc002man.1	-	7	715	c.619C>T	c.(619-621)CGC>TGC	p.R207C	UBXN6_uc010dty.1_Missense_Mutation_p.R111C|UBXN6_uc002mam.1_Missense_Mutation_p.R154C	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	207	PUB.					microtubule organizing center|nucleus	protein binding				0						CAGTTAATGCGCTCCTGGGGG	0.642													4	27					0	0	1	0	0		A	4446914	A	A	4446914	3	1	187	1	0	0	0	0	1	0	0	0	16943	1087	38	1	726	1	UBXN6	19	4446914	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	482126	4446914	54682069	763	93546											
PTPRS	5802	broad.mit.edu	37	chr19	5220166	5220166	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgagatgtcctggatgagCtgcgggaacagagtcatggg	9	8	17	7	2	1	3	1	2	0	2	2	6	2	5	1	3	3	1	1	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:5220166C>A	uc002mbv.2	-	22	3784	c.3550_splice	c.e22-1	p.L1184_splice	PTPRS_uc002mbu.1_Splice_Site_p.L753_splice|PTPRS_uc010xin.1_Splice_Site_p.L753_splice|PTPRS_uc002mbw.2_Splice_Site_p.L1162_splice|PTPRS_uc002mbx.2_Splice_Site_p.L757_splice|PTPRS_uc002mby.2_Splice_Site_p.L753_splice	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,						cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CCTGGATGAGCTGCGGGAACA	0.637													9	19					0.00448238	0.0045593	1	1	0		A	5220166	A	A	5220166	5	1	187	1	0	0	0	0	0	0	1	0	12836	811	28	5	2365	5	PTPRS	19	5220166	Splice_Site	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	773252	5220166	53908817	764	93547											
TNFSF14	8740	broad.mit.edu	37	chr19	6665011	6665011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgttcatccagcacacggaCgaccaccttctccccagcct	8	7	7	19	3	2	0	1	0	1	0	4	2	3	1	6	1	2	2	6	1	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:6665011C>T	uc002mfk.1	-	5	1031	c.649G>A	c.(649-651)GTC>ATC	p.V217I	TNFSF14_uc002mfj.1_Missense_Mutation_p.V181I	NM_003807	NP_003798	O43557	TNF14_HUMAN	tumor necrosis factor ligand superfamily, member	217	Extracellular (Potential).				cellular response to mechanical stimulus|immune response|induction of apoptosis|release of cytoplasmic sequestered NF-kappaB|T cell homeostasis|T cell proliferation	cytoplasm|extracellular space|integral to membrane|plasma membrane	caspase inhibitor activity|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1						AGCACACGGACGACCACCTTC	0.622													27	86					0	0	1	0	0		T	6665011	T	T	6665011	3	4	187	1	0	0	0	0	1	0	0	0	16332	536	19	1	77	1	TNFSF14	19	6665011	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1444845	6665011	52463972	765	93548											
GPR108	56927	broad.mit.edu	37	chr19	6732382	6732382	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgatgaagaggagggcGcccttcagcctgaaggagca	11	6	16	8	1	1	4	1	3	0	1	1	6	1	6	2	4	2	1	2	4	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:6732382G>A	uc002mfp.2	-	12	1063	c.1017C>T	c.(1015-1017)GGC>GGT	p.G339G	GPR108_uc010duv.2_5'Flank|GPR108_uc002mfn.2_Silent_p.G10G|GPR108_uc002mfo.3_Silent_p.G97G|GPR108_uc010duw.2_RNA	NM_001080452	NP_001073921	Q9NPR9	GP108_HUMAN	G protein-coupled receptor 108 isoform 1	339	Helical; Name=3; (Potential).					integral to membrane					0						AGAGGAGGGCGCCCTTCAGCC	0.627													30	72					0	0	1	0	0		A	6732382	A	A	6732382	2	1	187	1	0	0	0	0	0	0	0	1	6639	1074	38	1		1	GPR108	19	6732382	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	67371	6732382	52396601	766	93549											
TIMM44	10469	broad.mit.edu	37	chr19	7999073	7999073	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttggctgcttcctccacGccctccttgattttccggcc	2	14	8	17	2	1	1	0	1	1	0	5	1	5	1	6	2	1	2	6	2	0	5	rs149061456	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:7999073G>T	uc002miz.2	-	5	446	c.444C>A	c.(442-444)GGC>GGA	p.G148G	TIMM44_uc002mja.2_5'UTR|TIMM44_uc010dvx.1_RNA	NM_006351	NP_006342	O43615	TIM44_HUMAN	translocase of inner mitochondrial membrane 44	148					protein targeting to mitochondrion	mitochondrial inner membrane presequence translocase complex|mitochondrial matrix	ATP binding|P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						CTTCCTCCACGCCCTCCTTGA	0.632													47	87					6.32628e-17	6.91613e-17	1	1	0		T	7999073	T	T	7999073	2	4	187	1	0	0	0	0	0	0	0	1	15937	1074	38	5		5	TIMM44	19	7999073	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1266691	7999073	51129910	767	93550											
ELAVL1	1994	broad.mit.edu	37	chr19	8056648	8056648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgatcaaattcgttctccCgatgtcacccctgcagtctt	8	12	7	14	3	4	0	2	0	2	0	6	3	4	0	3	0	1	2	3	0	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:8056648C>T	uc002mjb.2	-	2	219	c.52G>A	c.(52-54)GGG>AGG	p.G18R		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	18					3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0						TTCGTTCTCCCGATGTCACCC	0.423													27	81					0	0	1	0	0		T	8056648	T	T	8056648	3	4	187	1	0	0	0	0	1	0	0	0	5057	652	23	1	948	1	ELAVL1	19	8056648	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	57575	8056648	51072335	768	93551											
OR2Z1	284383	broad.mit.edu	37	chr19	8841803	8841803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatcctgtacttatgagacGccaggtatgtctgctgatga	9	13	11	8	1	1	3	0	3	1	1	2	4	2	3	2	1	2	4	2	1	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:8841803G>A	uc010xkg.1	+	1	413	c.413G>A	c.(412-414)CGC>CAC	p.R138H		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						CTTATGAGACGCCAGGTATGT	0.557													5	111					0	0	1	0	0		A	8841803	A	A	8841803	3	1	187	1	0	0	0	0	1	0	0	0	11055	1087	38	1	415	1	OR2Z1	19	8841803	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	785155	8841803	50287180	769	93552											
OLFM2	93145	broad.mit.edu	37	chr19	9965006	9965006	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggttgtggaagggcacGtccgtgtactcgtaactgga	8	11	14	8	3	0	0	0	0	0	0	2	2	1	2	1	4	3	4	1	4	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:9965006G>A	uc002mmp.2	-	6	1249	c.1221C>T	c.(1219-1221)GAC>GAT	p.D407D	OLFM2_uc002mmo.2_Silent_p.D329D	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	407	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						GGAAGGGCACGTCCGTGTACT	0.562													40	123					0	0	1	0	0		A	9965006	A	A	9965006	2	1	187	1	0	0	0	0	0	0	0	1	10872	1136	40	1		1	OLFM2	19	9965006	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1123203	9965006	49163977	770	93553											
OLFM2	93145	broad.mit.edu	37	chr19	9965191	9965191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgggtccagccggctgaccaCgatgttgcccgcgttctggt	4	9	14	14	5	1	1	0	1	1	0	2	2	2	1	4	3	2	3	4	3	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:9965191C>T	uc002mmp.2	-	6	1064	c.1036G>A	c.(1036-1038)GTG>ATG	p.V346M	OLFM2_uc002mmo.2_Missense_Mutation_p.V268M	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	346	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						CGGCTGACCACGATGTTGCCC	0.652													37	82					0	0	1	0	0		T	9965191	T	T	9965191	3	4	187	1	0	0	0	0	1	0	0	0	10872	536	19	1	332	1	OLFM2	19	9965191	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	185	9965191	49163792	771	93554											
COL5A3	50509	broad.mit.edu	37	chr19	10087919	10087919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actcaccgcgtctcctttatCgcctttactccccttgtgtc	4	15	5	17	3	2	0	1	0	1	0	6	0	3	0	5	0	1	0	5	0	2	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:10087919C>T	uc002mmq.1	-	44	3360	c.3274G>A	c.(3274-3276)GAT>AAT	p.D1092N		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1092	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			TCTCCTTTATCGCCTTTACTC	0.607													21	50					0	0	1	0	0		T	10087919	T	T	10087919	3	4	187	1	0	0	0	0	1	0	0	0	3701	884	31	1	2059	1	COL5A3	19	10087919	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	122728	10087919	49041064	772	93555											
DNM2	1785	broad.mit.edu	37	chr19	10940910	10940910	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gattcctgttcccgtgggggCagcagcctccttctcggcgc	3	10	13	15	3	1	0	0	0	1	0	5	1	4	0	4	3	2	3	4	3	0	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:10940910C>T	uc002mps.1	+	20	2563	c.2399C>T	c.(2398-2400)GCA>GTA	p.A800V	DNM2_uc010dxk.2_Intron|DNM2_uc002mpt.1_Missense_Mutation_p.A800V|DNM2_uc002mpv.1_Missense_Mutation_p.A796V|DNM2_uc002mpu.1_Missense_Mutation_p.A796V|DNM2_uc010dxl.1_Missense_Mutation_p.A800V|DNM2_uc002mpw.2_Missense_Mutation_p.A529V|DNM2_uc002mpx.1_Missense_Mutation_p.A156V	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	800	Pro-rich.				G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			CCCGTGGGGGCAGCAGCCTCC	0.697													27	115					0	0	1	0	0		T	10940910	T	T	10940910	3	4	187	1	0	0	0	0	1	0	0	0	4678	710	25	2	2620	2	DNM2	19	10940910	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	852991	10940910	48188073	773	93556											
LYL1	4066	broad.mit.edu	37	chr19	13211729	13211729	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtggagagttgcagcagcGggggccgcagagtgcccagc	7	4	20	10	2	0	2	0	0	0	2	0	3	0	2	2	4	5	4	2	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:13211729G>T	uc002mwi.2	-	2	618	c.257C>A	c.(256-258)CCG>CAG	p.P86Q		NM_005583	NP_005574	P12980	LYL1_HUMAN	lymphoblastic leukemia derived sequence 1	86					B cell differentiation|blood vessel maturation|definitive hemopoiesis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding				0			OV - Ovarian serous cystadenocarcinoma(19;6.08e-22)			TTGCAGCAGCGGGGGCCGCAG	0.682			T	TRB@	T-ALL								3	4					0.115264	0.115916	1	1	0		T	13211729	T	T	13211729	3	4	187	1	0	0	0	0	1	0	0	0	9124	1116	39	5	597	5	LYL1	19	13211729	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2270819	13211729	45917254	774	93557											
DDX39	10212	broad.mit.edu	37	chr19	14521142	14521142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	atctcctgcacatcccgccgCatgtctaggtggggagggca	7	8	13	13	2	2	0	0	0	2	0	4	1	3	1	3	4	1	3	3	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:14521142C>T	uc010xnp.1	-	6	663	c.618G>A	c.(616-618)ATG>ATA	p.M206I	DDX39_uc002myo.2_Missense_Mutation_p.M206I|DDX39_uc010dzl.2_RNA|DDX39_uc010dzm.1_Missense_Mutation_p.M206I	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	206	Helicase ATP-binding.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						CATCCCGCCGCATGTCTAGGT	0.632													13	45					0	0	1	0	0		T	14521142	T	T	14521142	3	4	187	1	0	0	0	0	1	0	0	0	4360	710	25	2	689	2	DDX39	19	14521142	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1309413	14521142	44607841	775	93558											
PKN1	5585	broad.mit.edu	37	chr19	14561788	14561788	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggagacttggggagctgccCgccgaccaccccaaggggcg	7	3	16	15	4	0	1	0	0	0	1	0	4	0	2	5	5	2	1	5	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:14561788C>T	uc002myp.2	+	6	1005	c.837C>T	c.(835-837)CCC>CCT	p.P279P	PKN1_uc002myq.2_Silent_p.P285P	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	279	REM 3.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						GGGAGCTGCCCGCCGACCACC	0.682													4	12					0	0	1	0	0		T	14561788	T	T	14561788	2	4	187	1	0	0	0	0	0	0	0	1	11998	639	23	1		1	PKN1	19	14561788	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	40646	14561788	44567195	776	93559											
TECR	9524	broad.mit.edu	37	chr19	14675085	14675085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccatggcactatgcctttgCgcaacatcttcaaggtgaga	10	10	9	12	1	2	1	1	1	1	1	2	2	2	1	2	2	3	2	2	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:14675085C>T	uc002mza.2	+	7	602	c.475C>T	c.(475-477)CGC>TGC	p.R159C	TECR_uc002mzb.2_Missense_Mutation_p.R174C|TECR_uc010xns.1_Missense_Mutation_p.R4C|TECR_uc002mzc.2_Missense_Mutation_p.R4C|TECR_uc002mzd.2_Missense_Mutation_p.R159C|TECR_uc002mze.2_5'Flank|TECR_uc002mzf.1_5'Flank	NM_138501	NP_612510	Q9NZ01	TECR_HUMAN	glycoprotein, synaptic 2	159					fatty acid elongation|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	trans-2-enoyl-CoA reductase (NADPH) activity|very long-chain-acyl-CoA dehydrogenase activity				0						TATGCCTTTGCGCAACATCTT	0.343													13	38					0	0	1	0	0		T	14675085	T	T	14675085	3	4	187	1	0	0	0	0	1	0	0	0	15770	768	27	1	501	1	TECR	19	14675085	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	113297	14675085	44453898	777	93560											
EMR2	30817	broad.mit.edu	37	chr19	14876168	14876168	+	Missense_Mutation	SNP	T	G	G	0	1	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	gccaagcctggcttgtagtcTctgcccaggtcctggacttt	5	12	11	13	0	1	0	0	0	1	0	3	1	2	1	4	3	2	2	4	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:14876168T>G	uc002mzp.1	-	10	1326	c.870A>C	c.(868-870)AGA>AGC	p.R290S	EMR2_uc010dzs.1_5'UTR|EMR2_uc010xnw.1_Missense_Mutation_p.R290S|EMR2_uc002mzo.1_Missense_Mutation_p.R290S|EMR2_uc002mzq.1_Missense_Mutation_p.R241S|EMR2_uc002mzr.1_Missense_Mutation_p.R241S|EMR2_uc002mzs.1_Missense_Mutation_p.R148S|EMR2_uc002mzt.1_Missense_Mutation_p.R197S|EMR2_uc002mzu.1_Missense_Mutation_p.R197S|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	290	Extracellular (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GCTTGTAGTCTCTGCCCAGGT	0.597													33	110					0	0	1	0	0		G	14876168	G	G	14876168	3	3	187	1	0	0	0	0	1	0	0	0	5113	1548	54	5	1649	5	EMR2	19	14876168	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	201083	14876168	44252815	778	93561											
CALR3	125972	broad.mit.edu	37	chr19	16591434	16591434	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttcataccttggtttcGccccaggtggccttgccaaa	6	12	10	13	1	1	0	1	0	0	0	2	0	1	0	5	3	3	2	5	3	2	5	rs143913852		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:16591434G>A	uc002ned.2	-	8	1065	c.1002C>T	c.(1000-1002)GGC>GGT	p.G334G	MED26_uc002nee.2_RNA	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	334	C-domain.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						CCTTGGTTTCGCCCCAGGTGG	0.318													17	35					0	0	1	0	0		A	16591434	A	A	16591434	2	1	187	1	0	0	0	0	0	0	0	1	2596	1074	38	1		1	CALR3	19	16591434	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1715266	16591434	42537549	779	93562											
MYO9B	4650	broad.mit.edu	37	chr19	17316104	17316104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgccacaagaagtgcgtgCacaagattcagagccactgc	12	6	10	13	1	1	3	1	0	0	3	1	3	1	3	3	0	5	1	3	0	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:17316104C>T	uc010eak.2	+	31	5175	c.5023C>T	c.(5023-5025)CAC>TAC	p.H1675Y	MYO9B_uc002nfi.2_Missense_Mutation_p.H1675Y|MYO9B_uc002nfj.1_Missense_Mutation_p.H1675Y|MYO9B_uc002nfl.1_Intron|MYO9B_uc002nfm.1_5'Flank	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1675	Tail.|Phorbol-ester/DAG-type.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						GAAGTGCGTGCACAAGATTCA	0.587													14	54					0	0	1	0	0		T	17316104	T	T	17316104	3	4	187	1	0	0	0	0	1	0	0	0	10103	710	25	2	5141	2	MYO9B	19	17316104	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	724670	17316104	41812879	780	93563											
GLT25D1	79709	broad.mit.edu	37	chr19	17679366	17679366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctatccgcaagcgagacCgccggggctgctttgcagtt	6	9	12	14	4	0	1	0	0	0	1	2	2	2	1	4	2	3	5	4	2	2	3	rs142308296		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:17679366C>T	uc002nhc.1	+	5	685	c.673C>T	c.(673-675)CGC>TGC	p.R225C	GLT25D1_uc010eax.1_5'UTR	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	225					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						CAAGCGAGACCGCCGGGGCTG	0.617													19	63					0	0	1	0	0		T	17679366	T	T	17679366	3	4	187	1	0	0	0	0	1	0	0	0	6481	652	23	1	691	1	GLT25D1	19	17679366	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	363262	17679366	41449617	781	93564											
KIAA0892	23383	broad.mit.edu	37	chr19	19453672	19453672	+	Missense_Mutation	SNP	A	G	G	1	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	tcatgcagctggagaagctcAagagtaagtcaggtgctcgg	11	8	14	8	1	3	2	3	0	0	2	4	3	3	2	0	3	4	5	0	3	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:19453672A>G	uc002nmk.3	+	9	1009	c.970A>G	c.(970-972)AAG>GAG	p.K324E	KIAA0892_uc002nml.3_5'Flank|KIAA0892_uc010ecd.2_5'Flank	NM_015329	NP_056144	Q9Y6X3	SCC4_HUMAN	hypothetical protein LOC23383 precursor	324					cell division|maintenance of mitotic sister chromatid cohesion	chromatin|nucleoplasm|SMC loading complex	protein N-terminus binding				0						GGAGAAGCTCAAGAGTAAGTC	0.622											OREG0025380	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	136					0	0	1	0	0		G	19453672	G	G	19453672	3	3	187	1	0	0	0	0	1	0	0	0	8212	131	5	3	1004	3	KIAA0892	19	19453672	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1774306	19453672	39675311	782	93565											
CILP2	148113	broad.mit.edu	37	chr19	19655136	19655136	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcgctttccgcagagcCgacggcaaaccctactcggg	7	7	12	15	5	1	1	0	0	1	1	3	2	2	1	3	3	3	3	3	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:19655136C>T	uc002nmv.3	+	8	1867	c.1782C>T	c.(1780-1782)GCC>GCT	p.A594A	CILP2_uc002nmw.3_Silent_p.A600A	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	594						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						TCCGCAGAGCCGACGGCAAAC	0.672													34	98					0	0	1	0	0		T	19655136	T	T	19655136	2	4	187	1	0	0	0	0	0	0	0	1	3433	639	23	1		1	CILP2	19	19655136	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	201464	19655136	39473847	783	93566											
ZNF681	148213	broad.mit.edu	37	chr19	23926579	23926579	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttgccacatttttcacaTtggtagggtttctctccagt	6	17	8	10	0	2	0	1	0	1	0	4	0	3	0	2	2	1	3	2	2	1	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:23926579T>G	uc002nrk.3	-	4	1915	c.1773A>C	c.(1771-1773)CAA>CAC	p.Q591H	ZNF681_uc002nrl.3_Missense_Mutation_p.Q522H|ZNF681_uc002nrj.3_Missense_Mutation_p.Q522H	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	591	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				ATTTTTCACATTGGTAGGGTT	0.383													7	34					0	0	1	0	0		G	23926579	G	G	23926579	3	3	187	1	0	0	0	0	1	0	0	0	18113	1490	52	5	168	5	ZNF681	19	23926579	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	4271443	23926579	35202404	784	93567											
ATP4A	495	broad.mit.edu	37	chr19	36045880	36045880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcacccgaggggcaggggcaCgctgacggtgatgtagatga	9	5	18	9	3	0	4	0	3	0	1	0	5	0	4	1	5	0	5	1	5	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:36045880C>T	uc002oal.1	-	16	2454	c.2425G>A	c.(2425-2427)GTG>ATG	p.V809M	ATP4A_uc010eee.1_Translation_Start_Site	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	809	Lumenal (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GGCAGGGGCACGCTGACGGTG	0.542													17	39					0	0	1	0	0		T	36045880	T	T	36045880	3	4	187	1	0	0	0	0	1	0	0	0	1146	536	19	1	710	1	ATP4A	19	36045880	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	12119301	36045880	23083103	785	93568											
LRFN3	79414	broad.mit.edu	37	chr19	36431206	36431206	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgaggaggagtttgtctgCgagccgcccgtggtgactca	6	8	17	10	4	2	1	1	1	1	0	2	5	2	3	2	4	2	1	2	4	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:36431206C>T	uc002oco.2	+	2	1331	c.879C>T	c.(877-879)TGC>TGT	p.C293C		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	293	LRRCT.|Extracellular (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AGTTTGTCTGCGAGCCGCCCG	0.741													5	17					0	0	1	0	0		T	36431206	T	T	36431206	2	4	187	1	0	0	0	0	0	0	0	1	8957	776	27	1		1	LRFN3	19	36431206	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	385326	36431206	22697777	786	93569											
ZNF568	374900	broad.mit.edu	37	chr19	37440779	37440779	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgacctcattagacatgagCgaattcatgctggagagaaa	14	10	10	7	1	2	4	2	2	0	2	2	7	2	5	1	1	2	1	1	1	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:37440779C>T	uc002ofc.2	+	7	1239	c.724C>T	c.(724-726)CGA>TGA	p.R242*	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Nonsense_Mutation_p.R166*|ZNF568_uc010efe.2_Nonsense_Mutation_p.R166*|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	242	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TAGACATGAGCGAATTCATGC	0.378													17	70					0	0	1	0	0		T	37440779	T	T	37440779	4	4	187	1	0	0	0	0	0	1	0	0	18024	760	27	1	742	1	ZNF568	19	37440779	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1009573	37440779	21688204	787	93570											
SIPA1L3	23094	broad.mit.edu	37	chr19	38655373	38655373	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggaagtatgggcctttgtggCgggggtcgcgaggccgctgg	4	8	21	8	4	0	0	0	0	0	0	1	2	0	1	2	7	0	2	2	7	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:38655373C>T	uc002ohk.2	+	15	4544	c.4035C>T	c.(4033-4035)GGC>GGT	p.G1345G		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1345					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCCTTTGTGGCGGGGGTCGCG	0.692													10	21					0	0	1	0	0		T	38655373	T	T	38655373	2	4	187	1	0	0	0	0	0	0	0	1	14356	755	27	1		1	SIPA1L3	19	38655373	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1214594	38655373	20473610	788	93571											
GGN	199720	broad.mit.edu	37	chr19	38877282	38877282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggccgtctggccctggttgCggggcccagcctggctttct	1	10	15	15	3	2	0	0	0	2	0	2	0	2	0	4	6	2	2	4	6	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:38877282C>T	uc002oij.1	-	3	755	c.620G>A	c.(619-621)CGC>CAC	p.R207H	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Missense_Mutation_p.R124H	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	207	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GCCCTGGTTGCGGGGCCCAGC	0.701													9	14					0	0	1	0	0		T	38877282	T	T	38877282	3	4	187	1	0	0	0	0	1	0	0	0	6373	768	27	1	1346	1	GGN	19	38877282	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	221909	38877282	20251701	789	93572											
RYR1	6261	broad.mit.edu	37	chr19	38951153	38951153	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtatcgacgggaggggccCcgggggcctcacctggtggg	5	5	20	11	3	1	0	1	0	0	0	2	3	1	1	4	7	0	1	4	7	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:38951153C>T	uc002oit.2	+	20	2629	c.2499C>T	c.(2497-2499)CCC>CCT	p.P833P	RYR1_uc002oiu.2_Silent_p.P833P	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	833	Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGGAGGGGCCCCGGGGGCCTC	0.642													39	104					0	0	1	0	0		T	38951153	T	T	38951153	2	4	187	1	0	0	0	0	0	0	0	1	13793	610	22	4		4	RYR1	19	38951153	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	73871	38951153	20177830	790	93573											
RYR1	6261	broad.mit.edu	37	chr19	38956958	38956958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgaagccaccaagcgcaGcaaccgggacagcctctgcc	11	3	12	15	2	1	1	0	1	1	0	1	3	1	3	5	2	6	2	5	2	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:38956958G>A	uc002oit.2	+	24	3228	c.3098G>A	c.(3097-3099)AGC>AAC	p.S1033N	RYR1_uc002oiu.2_Missense_Mutation_p.S1033N	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1033	6 X approximate repeats.|2.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ACCAAGCGCAGCAACCGGGAC	0.632													3	15					0	0	1	0	0		A	38956958	A	A	38956958	3	1	187	1	0	0	0	0	1	0	0	0	13793	971	34	2	3192	2	RYR1	19	38956958	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5805	38956958	20172025	791	93574											
FCGBP	8857	broad.mit.edu	37	chr19	40421158	40421158	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcctccacccgcacggcGcgcgtgtagctcacagtctg	5	6	13	17	6	2	0	1	0	1	0	3	0	3	0	3	2	1	3	3	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:40421158G>A	uc002omp.3	-	5	2771	c.2763C>T	c.(2761-2763)CGC>CGT	p.R921R		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	921	VWFD 2.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			CCCGCACGGCGCGCGTGTAGC	0.711													5	20					0	0	1	0	0		A	40421158	A	A	40421158	2	1	187	1	0	0	0	0	0	0	0	1	5792	1074	38	1		1	FCGBP	19	40421158	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1464200	40421158	18707825	792	93575											
MAP3K10	4294	broad.mit.edu	37	chr19	40718777	40718777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagtgggacatggagcCgcggtgggcccccaaagaag	11	3	18	9	2	0	1	0	0	0	1	0	5	0	4	3	5	1	0	3	5	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:40718777C>T	uc002ona.2	+	7	1906	c.1618C>T	c.(1618-1620)CGC>TGC	p.R540C	MAP3K10_uc002onb.2_5'UTR	NM_002446	NP_002437	Q02779	M3K10_HUMAN	mitogen-activated protein kinase kinase kinase	540					activation of JUN kinase activity|induction of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of JNK cascade|protein autophosphorylation|smoothened signaling pathway	cytoplasm	ATP binding|bHLH transcription factor binding|JUN kinase kinase kinase activity|protein homodimerization activity|transcription corepressor activity			ovary(2)|lung(2)|skin(1)|pancreas(1)	6						GACATGGAGCCGCGGTGGGCC	0.542													7	11					0	0	1	0	0		T	40718777	T	T	40718777	3	4	187	1	0	0	0	0	1	0	0	0	9262	652	23	1	1644	1	MAP3K10	19	40718777	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	297619	40718777	18410206	793	93576											
ARHGEF1	9138	broad.mit.edu	37	chr19	42406062	42406062	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggtgacagaggcggcccaCgtgcgcatgctgcgggtgct	5	7	17	12	4	0	2	0	1	0	1	0	2	0	2	1	4	4	3	1	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:42406062C>T	uc002orx.2	+	15	1402	c.1293C>T	c.(1291-1293)CAC>CAT	p.H431H	ARHGEF1_uc002ory.2_Silent_p.H398H|ARHGEF1_uc002orz.2_Silent_p.H269H|ARHGEF1_uc002osa.2_Silent_p.H446H|ARHGEF1_uc002osb.2_Silent_p.H413H|ARHGEF1_uc002osc.2_Silent_p.H185H|ARHGEF1_uc002osd.2_Silent_p.H90H|ARHGEF1_uc002ose.2_5'Flank	NM_004706	NP_004697	Q92888	ARHG1_HUMAN	Rho guanine nucleotide exchange factor 1 isoform	431	DH.				cell proliferation|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(3)|large_intestine(1)	4		Renal(1328;0.000518)|Hepatocellular(1079;0.0046)|Medulloblastoma(540;0.0425)		Epithelial(262;5.89e-46)|GBM - Glioblastoma multiforme(1328;2.49e-12)|STAD - Stomach adenocarcinoma(1328;0.00644)		AGGCGGCCCACGTGCGCATGC	0.622													16	32					0	0	1	0	0		T	42406062	T	T	42406062	2	4	187	1	0	0	0	0	0	0	0	1	893	535	19	1		1	ARHGEF1	19	42406062	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1687285	42406062	16722921	794	93577											
ZNF574	64763	broad.mit.edu	37	chr19	42583217	42583217	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcacctccgggccacaccCaccaaggctcctgcccctgt	7	5	8	21	2	0	0	0	0	0	0	2	0	2	0	8	2	1	2	8	2	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:42583217C>T	uc002osm.3	+	2	628	c.459C>T	c.(457-459)CCC>CCT	p.P153P	ZNF574_uc002osk.3_Silent_p.P243P	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574	153					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				GGGCCACACCCACCAAGGCTC	0.637													30	92					0	0	1	0	0		T	42583217	T	T	42583217	2	4	187	1	0	0	0	0	0	0	0	1	18031	581	21	4		4	ZNF574	19	42583217	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	177155	42583217	16545766	795	93578											
IRGC	56269	broad.mit.edu	37	chr19	44223329	44223329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggctgcgggaggccggcGtggctgaccctcgcatcttc	4	7	16	14	5	1	1	0	1	1	0	3	2	1	2	2	5	2	3	2	5	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:44223329G>A	uc002oxh.2	+	2	766	c.619G>A	c.(619-621)GTG>ATG	p.V207M		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	207						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				GGAGGCCGGCGTGGCTGACCC	0.711													16	50					0	0	1	0	0		A	44223329	A	A	44223329	3	1	187	1	0	0	0	0	1	0	0	0	7854	1145	40	1	621	1	IRGC	19	44223329	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1640112	44223329	14905654	796	93579											
ZNF221	7638	broad.mit.edu	37	chr19	44470166	44470166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgcaacagaaaccttaccGttgtaatgaatgtaaacagt	15	10	8	8	2	0	2	0	1	0	1	0	2	0	2	2	0	5	4	2	0	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:44470166G>A	uc002oxx.2	+	6	840	c.512G>A	c.(511-513)CGT>CAT	p.R171H	ZNF221_uc010ejb.1_Missense_Mutation_p.R171H|ZNF221_uc010xws.1_Missense_Mutation_p.R171H	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	171	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				AAACCTTACCGTTGTAATGAA	0.418													24	99					0	0	1	0	0		A	44470166	A	A	44470166	3	1	187	1	0	0	0	0	1	0	0	0	17800	1145	40	1	526	1	ZNF221	19	44470166	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	246837	44470166	14658817	797	93580											
CEACAM20	125931	broad.mit.edu	37	chr19	45029181	45029181	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggggtcccaaacacaGgcagaacaacatcctcactt	12	7	8	14	0	1	1	1	0	0	1	4	1	4	1	3	3	3	1	3	3	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:45029181G>T	uc010ejn.1	-	2	165	c.149C>A	c.(148-150)CCT>CAT	p.P50H	CEACAM20_uc010ejo.1_Missense_Mutation_p.P50H|CEACAM20_uc010ejp.1_Missense_Mutation_p.P50H|CEACAM20_uc010ejq.1_Missense_Mutation_p.P50H	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	50	Extracellular (Potential).					integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				CCCAAACACAGGCAGAACAAC	0.557													20	68					9.95505e-16	1.0861e-15	1	1	0		T	45029181	T	T	45029181	3	4	187	1	0	0	0	0	1	0	0	0	3194	1000	35	5	1686	5	CEACAM20	19	45029181	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	559015	45029181	14099802	798	93581											
CEACAM16	388551	broad.mit.edu	37	chr19	45207422	45207422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaacggtggggccctgcccGtcgctctccgcctgggcctg	2	8	14	17	4	2	0	1	0	1	0	4	0	2	0	5	4	2	1	5	4	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:45207422G>A	uc010xxd.1	+	4	723	c.517G>A	c.(517-519)GTC>ATC	p.V173I	CEACAM16_uc002ozq.2_Missense_Mutation_p.V232I	NM_001039213	NP_001034302	A7LI12	A7LI12_HUMAN	carcinoembryonic antigen-related cell adhesion	173										ovary(1)	1	Lung NSC(12;0.000698)|all_lung(12;0.002)	Prostate(69;0.0376)|Ovarian(192;0.231)				GGCCCTGCCCGTCGCTCTCCG	0.706													4	7					0	0	1	0	0		A	45207422	A	A	45207422	3	1	187	1	0	0	0	0	1	0	0	0	3191	1145	40	1	527	1	CEACAM16	19	45207422	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	178241	45207422	13921561	799	93582											
CEACAM16	388551	broad.mit.edu	37	chr19	45209019	45209019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggcaggccctaaagaacgGccaagaccacctcaacatca	14	3	9	15	2	2	2	2	0	0	2	2	2	2	2	4	3	2	1	4	3	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:45209019G>A	uc010xxd.1	+	5	1027	c.821G>A	c.(820-822)GGC>GAC	p.G274D	CEACAM16_uc002ozq.2_Missense_Mutation_p.G333D	NM_001039213	NP_001034302	A7LI12	A7LI12_HUMAN	carcinoembryonic antigen-related cell adhesion	274										ovary(1)	1	Lung NSC(12;0.000698)|all_lung(12;0.002)	Prostate(69;0.0376)|Ovarian(192;0.231)				CTAAAGAACGGCCAAGACCAC	0.567													19	53					0	0	1	0	0		A	45209019	A	A	45209019	3	1	187	1	0	0	0	0	1	0	0	0	3191	1203	42	2	835	2	CEACAM16	19	45209019	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1597	45209019	13919964	800	93583											
APOE	348	broad.mit.edu	37	chr19	45412333	45412333	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggcggaggtgcgcgccaaGctggaggagcaggcccagca	8	3	19	11	3	0	0	0	0	0	0	0	3	0	3	2	6	4	3	2	6	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:45412333G>A	uc002pab.2	+	4	863	c.780G>A	c.(778-780)AAG>AAA	p.K260K		NM_000041	NP_000032	P02649	APOE_HUMAN	apolipoprotein E precursor	260					anti-apoptosis|Cdc42 protein signal transduction|cell death|cGMP-mediated signaling|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|cytoskeleton organization|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|induction of apoptosis|intracellular transport|negative regulation of blood vessel endothelial cell migration|negative regulation of cholesterol biosynthetic process|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of platelet activation|nitric oxide mediated signal transduction|phospholipid efflux|positive regulation of cGMP biosynthetic process|positive regulation of cholesterol efflux|positive regulation of cholesterol esterification|positive regulation of low-density lipoprotein particle receptor catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of nitric-oxide synthase activity|receptor-mediated endocytosis|regulation of axon extension|regulation of neuronal synaptic plasticity|response to reactive oxygen species|reverse cholesterol transport|synaptic transmission, cholinergic|triglyceride metabolic process|very-low-density lipoprotein particle clearance|very-low-density lipoprotein particle remodeling	chylomicron|dendrite|high-density lipoprotein particle|intermediate-density lipoprotein particle|low-density lipoprotein particle|neuronal cell body|very-low-density lipoprotein particle	antioxidant activity|beta-amyloid binding|heparin binding|low-density lipoprotein particle receptor binding|metal chelating activity|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding|protein heterodimerization activity|protein homodimerization activity|tau protein binding|very-low-density lipoprotein particle receptor binding				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)	Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	TGCGCGCCAAGCTGGAGGAGC	0.711													4	5					0	0	1	0	0		A	45412333	A	A	45412333	2	1	187	1	0	0	0	0	0	0	0	1	802	962	34	2		2	APOE	19	45412333	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	203314	45412333	13716650	801	93584											
NKPD1	284353	broad.mit.edu	37	chr19	45655517	45655517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtgaaggggaagtcggcGcccaggaagcgctcgaagag	11	3	18	9	5	0	2	0	1	0	1	2	5	0	4	1	5	1	1	1	5	4	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:45655517G>A	uc010xxi.1	-	4	2178	c.2178C>T	c.(2176-2178)GGC>GGT	p.G726G		NM_198478	NP_940880			NTPase, KAP family P-loop domain containing 1												0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00863)|GBM - Glioblastoma multiforme(486;0.231)		GGAAGTCGGCGCCCAGGAAGC	0.672													4	11					0	0	1	0	0		A	45655517	A	A	45655517	2	1	187	1	0	0	0	0	0	0	0	1	10465	1074	38	1		1	NKPD1	19	45655517	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	243184	45655517	13473466	802	93585											
RTN2	6253	broad.mit.edu	37	chr19	45997939	45997939	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcctcaggtcttccagagggCgctcggatggaggcgcggtg	5	7	18	11	4	2	1	1	0	1	1	4	3	3	3	2	6	0	1	2	6	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:45997939C>T	uc002pcb.2	-	3	632	c.404G>A	c.(403-405)CGC>CAC	p.R135H	RTN2_uc002pcc.2_Missense_Mutation_p.R135H|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	135						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		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)		TTCCAGAGGGCGCTCGGATGG	0.687													28	79					0	0	1	0	0		T	45997939	T	T	45997939	3	4	187	1	0	0	0	0	1	0	0	0	13751	768	27	1	1269	1	RTN2	19	45997939	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	342422	45997939	13131044	803	93586											
FBXO46	23403	broad.mit.edu	37	chr19	46216144	46216144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggccggtccaccttgctcggCggacacaaagactacaggcg	9	5	13	14	4	0	1	0	0	0	1	2	2	1	2	3	5	2	1	3	5	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:46216144C>T	uc002pcy.2	-	2	735	c.610G>A	c.(610-612)GCC>ACC	p.A204T	FBXO46_uc002pcz.2_Missense_Mutation_p.A204T	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	204							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		CCTTGCTCGGCGGACACAAAG	0.682													9	23					0	0	1	0	0		T	46216144	T	T	46216144	3	4	187	1	0	0	0	0	1	0	0	0	5769	768	27	1	1205	1	FBXO46	19	46216144	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	218205	46216144	12912839	804	93587											
PRKD2	25865	broad.mit.edu	37	chr19	47177820	47177820	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccgccagcccctgcatgtcgTggtcctgtggtggacaggcc	4	8	14	15	2	0	0	0	0	0	0	2	1	1	1	6	4	2	1	6	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:47177820T>C	uc002pfh.2	-	19	2939	c.2597A>G	c.(2596-2598)CAC>CGC	p.H866R	PRKD2_uc002pfd.2_Missense_Mutation_p.H240R|PRKD2_uc010eks.2_Missense_Mutation_p.H269R|PRKD2_uc010ekt.2_Missense_Mutation_p.H133R|PRKD2_uc002pfe.2_Missense_Mutation_p.H396R|PRKD2_uc002pff.2_Missense_Mutation_p.H386R|PRKD2_uc002pfg.2_Missense_Mutation_p.H709R|PRKD2_uc002pfi.2_Missense_Mutation_p.H866R|PRKD2_uc002pfj.2_Missense_Mutation_p.H866R|PRKD2_uc010xye.1_Missense_Mutation_p.H876R|PRKD2_uc002pfk.2_Missense_Mutation_p.H709R	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	866					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		CTGCATGTCGTGGTCCTGTGG	0.652													10	23					0	0	1	0	0		C	47177820	C	C	47177820	3	2	187	1	0	0	0	0	1	0	0	0	12541	1696	59	3	43	3	PRKD2	19	47177820	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	961676	47177820	11951163	805	93588											
EHD2	30846	broad.mit.edu	37	chr19	48220236	48220236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacccggacaagcccttcCgcaaactcaaccctttcgga	10	7	8	16	3	1	0	1	0	0	0	3	3	2	3	4	3	3	1	4	3	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:48220236C>T	uc002phj.3	+	2	617	c.367C>T	c.(367-369)CGC>TGC	p.R123C	EHD2_uc010xyu.1_Intron	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	123					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		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)		CAAGCCCTTCCGCAAACTCAA	0.542													21	71					0	0	1	0	0		T	48220236	T	T	48220236	3	4	187	1	0	0	0	0	1	0	0	0	4984	652	23	1	369	1	EHD2	19	48220236	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1042416	48220236	10908747	806	93589											
FUT1	2523	broad.mit.edu	37	chr19	49253904	49253904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtggacgccgacaaaggtgCgcgggcggtcccctgtgcgg	5	5	18	13	7	0	0	0	0	0	0	1	2	1	1	3	5	2	0	3	5	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:49253904C>T	uc002pkk.2	-	4	1610	c.635G>A	c.(634-636)CGC>CAC	p.R212H		NM_000148	NP_000139	P19526	FUT1_HUMAN	fucosyltransferase 1	212	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to plasma membrane|membrane fraction	galactoside 2-alpha-L-fucosyltransferase activity			ovary(1)	1		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000135)|all cancers(93;0.000354)|Epithelial(262;0.0191)|GBM - Glioblastoma multiforme(486;0.0222)		GACAAAGGTGCGCGGGCGGTC	0.677													52	134					0	0	1	0	0		T	49253904	T	T	49253904	3	4	187	1	0	0	0	0	1	0	0	0	6115	768	27	1	466	1	FUT1	19	49253904	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1033668	49253904	9875079	807	93590											
FGF21	26291	broad.mit.edu	37	chr19	49260233	49260233	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gagttattcaaatcttgggaGtcaagacatccaggttcctg	11	12	10	8	0	3	1	2	0	1	1	5	3	5	2	2	2	0	2	2	2	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:49260233G>A	uc002pkn.1	+	3	858	c.286G>A	c.(286-288)GTC>ATC	p.V96I	FUT1_uc002pkk.2_5'Flank|FUT1_uc002pkm.1_5'Flank|FGF21_uc002pko.1_Missense_Mutation_p.V96I	NM_019113	NP_061986	Q9NSA1	FGF21_HUMAN	fibroblast growth factor 21 precursor	96					cell-cell signaling|positive regulation of ERK1 and ERK2 cascade|positive regulation of glucose import	extracellular region|soluble fraction	growth factor activity			breast(1)	1		all_lung(116;1.7e-06)|all_epithelial(76;3.52e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000348)|Epithelial(262;0.019)|GBM - Glioblastoma multiforme(486;0.022)		AATCTTGGGAGTCAAGACATC	0.567													45	146					0	0	1	0	0		A	49260233	A	A	49260233	3	1	187	1	0	0	0	0	1	0	0	0	5864	1029	36	4	292	4	FGF21	19	49260233	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6329	49260233	9868750	808	93591											
PRR12	57479	broad.mit.edu	37	chr19	50099902	50099902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccgcccccacctcccacGgcccagtctacccagcccac	6	4	5	26	2	1	0	0	0	1	0	3	0	3	0	9	1	2	0	9	1	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:50099902G>A	uc002poo.3	+	4	2310	c.2310G>A	c.(2308-2310)ACG>ACA	p.T770T		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CACCTCCCACGGCCCAGTCTA	0.711													16	29					0	0	1	0	0		A	50099902	A	A	50099902	2	1	187	1	0	0	0	0	0	0	0	1	12606	1103	39	1		1	PRR12	19	50099902	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	839669	50099902	9029081	809	93592											
SHANK1	50944	broad.mit.edu	37	chr19	51169601	51169601	+	Silent	SNP	A	G	G	1	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	tgaagcttggagctgagttcActgatgatgctggcttttac	8	14	12	7	0	1	4	1	4	0	0	1	5	1	5	0	2	4	5	0	2	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:51169601A>G	uc002psx.1	-	22	5635	c.5616T>C	c.(5614-5616)AGT>AGC	p.S1872S	SHANK1_uc002psw.1_Silent_p.S1256S	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1872					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		AGCTGAGTTCACTGATGATGC	0.697													12	22					0	0	1	0	0		G	51169601	G	G	51169601	2	3	187	1	0	0	0	0	0	0	0	1	14289	156	6	3		3	SHANK1	19	51169601	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	1069699	51169601	7959382	810	93593											
ACPT	93650	broad.mit.edu	37	chr19	51296990	51296990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcctccccagatgtcctgcGgactcttgcccagatctcgg	5	9	11	16	2	2	2	0	0	2	2	5	3	4	3	5	3	2	0	5	3	0	1	rs141753566	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:51296990G>A	uc002pta.1	+	7	695	c.695G>A	c.(694-696)CGG>CAG	p.R232Q		NM_033068	NP_149059	Q9BZG2	PPAT_HUMAN	testicular acid phosphatase precursor	232	Extracellular (Potential).					integral to membrane	acid phosphatase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		GATGTCCTGCGGACTCTTGCC	0.637													12	51					0	0	1	0	0		A	51296990	A	A	51296990	3	1	187	1	0	0	0	0	1	0	0	0	168	1116	39	1	721	1	ACPT	19	51296990	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	127389	51296990	7831993	811	93594											
SIGLEC12	89858	broad.mit.edu	37	chr19	52002870	52002870	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atccaggtgatcgtggggggCgtcccctgttcacaggccca	6	8	14	13	2	1	1	1	1	0	0	4	1	3	1	4	5	0	1	4	5	0	1	rs148225737		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:52002870C>T	uc002pwx.1	-	3	965	c.909G>A	c.(907-909)ACG>ACA	p.T303T	SIGLEC12_uc002pww.1_Silent_p.T185T|SIGLEC12_uc010eoy.1_Silent_p.T30T	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	303	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		TCGTGGGGGGCGTCCCCTGTT	0.662													26	68					0	0	1	0	0		T	52002870	T	T	52002870	2	4	187	1	0	0	0	0	0	0	0	1	14333	755	27	1		1	SIGLEC12	19	52002870	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	705880	52002870	7126113	812	93595											
FPR2	2358	broad.mit.edu	37	chr19	52271988	52271988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctggctacactgttctgcGgatcctcccattggtggtgc	4	13	12	12	1	1	0	0	0	1	0	3	1	3	1	2	4	4	3	2	4	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:52271988G>A	uc002pxr.2	+	2	122	c.77G>A	c.(76-78)CGG>CAG	p.R26Q	FPR2_uc002pxs.3_Missense_Mutation_p.R26Q|FPR2_uc010epf.2_Missense_Mutation_p.R26Q	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	26	Extracellular (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						ACTGTTCTGCGGATCCTCCCA	0.532													25	48					0	0	1	0	0		A	52271988	A	A	52271988	3	1	187	1	0	0	0	0	1	0	0	0	6053	1116	39	1	79	1	FPR2	19	52271988	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	269118	52271988	6856995	813	93596											
ZNF610	162963	broad.mit.edu	37	chr19	52869924	52869924	+	Silent	SNP	T	C	C	0	1	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	gagagaccttacaagtgtaaTgcatgtggcaaggtcttcaa	13	10	11	7	0	2	1	1	0	1	1	2	3	2	1	1	2	2	3	1	2	5	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:52869924T>C	uc002pyx.3	+	6	1699	c.1293T>C	c.(1291-1293)AAT>AAC	p.N431N	ZNF610_uc002pyy.3_Silent_p.N431N|ZNF610_uc002pyz.3_Silent_p.N388N|ZNF610_uc002pza.2_Silent_p.N431N	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	431	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		ACAAGTGTAATGCATGTGGCA	0.398													12	44					0	0	1	0	0		C	52869924	C	C	52869924	2	2	187	1	0	0	0	0	0	0	0	1	18061	1461	51	3		3	ZNF610	19	52869924	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	597936	52869924	6259059	814	93597											
ZNF845	91664	broad.mit.edu	37	chr19	53854380	53854380	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcattcgcatctgcctgaacTccacatgtttcagaccgaag	10	11	7	13	2	3	2	2	1	1	1	5	3	4	2	3	0	2	2	3	0	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:53854380T>C	uc010ydv.1	+	4	569	c.452T>C	c.(451-453)CTC>CCC	p.L151P	ZNF845_uc010ydw.1_Missense_Mutation_p.L151P	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	151					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGCCTGAACTCCACATGTTT	0.428													51	138					0	0	1	0	0		C	53854380	C	C	53854380	3	2	187	1	0	0	0	0	1	0	0	0	18216	1551	54	3	462	3	ZNF845	19	53854380	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	984456	53854380	5274603	815	93598											
NLRP12	91662	broad.mit.edu	37	chr19	54312988	54312988	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatgtgctccatcttggagGcaatgttgctgaccacgatc	8	11	10	12	1	1	1	0	1	1	0	3	3	2	2	3	2	2	4	3	2	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:54312988G>A	uc002qch.3	-	3	2145	c.1925C>T	c.(1924-1926)GCC>GTC	p.A642V	NLRP12_uc010eqw.2_5'Flank|NLRP12_uc002qci.3_Missense_Mutation_p.A642V|NLRP12_uc002qcj.3_Missense_Mutation_p.A642V|NLRP12_uc002qck.3_RNA|NLRP12_uc010eqx.2_Missense_Mutation_p.A642V	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	642					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		CATCTTGGAGGCAATGTTGCT	0.587													22	52					0	0	1	0	0		A	54312988	A	A	54312988	3	1	187	1	0	0	0	0	1	0	0	0	10493	1203	42	2	1388	2	NLRP12	19	54312988	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	458608	54312988	4815995	816	93599											
ISOC2	79763	broad.mit.edu	37	chr19	55966693	55966693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctaggaggtccagggtcGtgttctgtgggtagagagag	7	10	19	5	1	2	2	0	0	2	2	4	4	3	3	1	5	0	2	1	5	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:55966693G>A	uc002qlb.2	-	4	527	c.353C>T	c.(352-354)ACG>ATG	p.T118M	ISOC2_uc002qla.2_Missense_Mutation_p.T134M|ISOC2_uc002qlc.2_Missense_Mutation_p.T48M	NM_001136201	NP_001129673	Q96AB3	ISOC2_HUMAN	isochorismatase domain containing 2 isoform 1	118					protein destabilization	mitochondrion|nucleus	catalytic activity|protein binding			ovary(1)	1	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0535)		GTCCAGGGTCGTGTTCTGTGG	0.632													12	28					0	0	1	0	0		A	55966693	A	A	55966693	3	1	187	1	0	0	0	0	1	0	0	0	7879	1145	40	1	276	1	ISOC2	19	55966693	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1653705	55966693	3162290	817	93600											
ZNF628	89887	broad.mit.edu	37	chr19	55995151	55995151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccagcacaggaggtgaccaCggtccagctccagcccgtgg	8	4	14	15	2	0	1	0	1	0	0	2	2	2	2	5	4	3	2	5	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:55995151C>T	uc002qld.2	+	3	3144	c.2579C>T	c.(2578-2580)ACG>ATG	p.T860M	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	860	4.|4 X approximate tandem repeats.					nucleus	DNA binding|zinc ion binding				0	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)		GAGGTGACCACGGTCCAGCTC	0.652													11	35					0	0	1	0	0		T	55995151	T	T	55995151	3	4	187	1	0	0	0	0	1	0	0	0	18077	536	19	1	2581	1	ZNF628	19	55995151	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	28458	55995151	3133832	818	93601											
ZNF460	10794	broad.mit.edu	37	chr19	57802724	57802724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaccttacacggcaccagcGggttcacagtggagagaagc	11	5	13	12	2	1	1	1	0	0	1	1	3	1	2	2	3	3	3	2	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:57802724G>A	uc002qog.2	+	3	1137	c.815G>A	c.(814-816)CGG>CAG	p.R272Q	ZNF460_uc010ygv.1_Missense_Mutation_p.R231Q	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	272	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		CGGCACCAGCGGGTTCACAGT	0.512													33	83					0	0	1	0	0		A	57802724	A	A	57802724	3	1	187	1	0	0	0	0	1	0	0	0	17949	1116	39	1	825	1	ZNF460	19	57802724	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1807573	57802724	1326259	819	93602											
ZSCAN1	284312	broad.mit.edu	37	chr19	58565161	58565161	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagggccctttccgtgcccCgagtgtggcaaggtcttcct	5	10	13	13	2	1	0	0	0	1	0	3	2	3	0	5	3	1	1	5	3	2	2	rs148203449	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:58565161C>T	uc002qrc.1	+	6	1216	c.969C>T	c.(967-969)CCC>CCT	p.P323P		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	323	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		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;0.0152)		TTCCGTGCCCCGAGTGTGGCA	0.627													24	80					0	0	1	0	0		T	58565161	T	T	58565161	2	4	187	1	0	0	0	0	0	0	0	1	18251	639	23	1		1	ZSCAN1	19	58565161	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	762437	58565161	563822	820	93603											
ZNF8	7554	broad.mit.edu	37	chr19	58806666	58806666	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagaggagcagccccatgggCgaagccggcggcgtgaacaa	11	2	17	11	4	0	2	0	1	0	1	0	5	0	3	3	4	4	1	3	4	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:58806666C>T	uc002qry.1	+	4	1622	c.1492C>T	c.(1492-1494)CGA>TGA	p.R498*	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	498					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		GCCCCATGGGCGAAGCCGGCG	0.557													62	199					0	0	1	0	0		T	58806666	T	T	58806666	4	4	187	1	0	0	0	0	0	1	0	0	18192	760	27	1	1506	1	ZNF8	19	58806666	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	241505	58806666	322317	821	93604											
RPS5	6193	broad.mit.edu	37	chr19	58904472	58904472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaactccatgatgatgcacGgccgcaacaacggcaagaag	14	5	10	12	3	0	3	0	2	0	1	1	3	1	3	2	2	4	3	2	2	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:58904472G>A	uc002qsn.2	+	3	310	c.238G>A	c.(238-240)GGC>AGC	p.G80S	RPS5_uc002qso.2_Missense_Mutation_p.G80S	NM_001009	NP_001000	P46782	RS5_HUMAN	ribosomal protein S5	80					endocrine pancreas development|regulation of translational fidelity|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	mRNA binding|structural constituent of ribosome				0		all_cancers(17;1.71e-22)|all_epithelial(17;1.69e-16)|Lung NSC(17;2.25e-06)|all_lung(17;9.97e-06)|Colorectal(82;3.46e-05)|Renal(17;0.00179)|all_neural(62;0.00607)|Breast(46;0.0194)|Ovarian(87;0.0443)|Medulloblastoma(540;0.184)		UCEC - Uterine corpus endometrioid carcinoma (67;0.171)|GBM - Glioblastoma multiforme(193;0.0323)|Lung(386;0.0543)|LUSC - Lung squamous cell carcinoma(496;0.176)		GATGATGCACGGCCGCAACAA	0.577													12	60					0	0	1	0	0		A	58904472	A	A	58904472	3	1	187	1	0	0	0	0	1	0	0	0	13673	1116	39	1	244	1	RPS5	19	58904472	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	97806	58904472	224511	822	93605											
ZNF132	7691	broad.mit.edu	37	chr19	58945448	58945448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcaaaaggccgttctcCggtgtgaactttctggtgct	7	12	11	11	2	3	1	1	1	2	0	4	1	3	1	2	3	2	3	2	3	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:58945448C>T	uc002qst.3	-	3	1764	c.1363G>A	c.(1363-1365)GGA>AGA	p.G455R		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	455						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		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)		GGCCGTTCTCCGGTGTGAACT	0.473													27	83					0	0	1	0	0		T	58945448	T	T	58945448	3	4	187	1	0	0	0	0	1	0	0	0	17747	661	23	1	761	1	ZNF132	19	58945448	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	40976	58945448	183535	823	93606											
MZF1	7593	broad.mit.edu	37	chr19	59082434	59082434	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcggggctgcctggcCgctgcccctgcacacgggcc	2	6	13	20	3	0	0	0	0	0	0	2	0	1	0	7	4	3	3	7	4	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr19:59082434C>A	uc002qto.2	-	2	884	c.323G>T	c.(322-324)CGG>CTG	p.R108L	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_Missense_Mutation_p.R108L|MZF1_uc010euu.1_Missense_Mutation_p.R149L	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	108	SCAN box.				viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		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)		GCTGCCTGGCCGCTGCCCCTG	0.687													14	22					1.05317e-09	1.11926e-09	1	1	0		A	59082434	A	A	59082434	3	1	187	1	0	0	0	0	1	0	0	0	10126	652	23	5	1901	5	MZF1	19	59082434	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	136986	59082434	46549	824	93607											
RBCK1	10616	broad.mit.edu	37	chr20	408048	408048	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctaccattgcaagacccCagattgcaagggatggtgct	11	8	11	11	0	0	2	0	0	0	2	0	3	0	3	3	2	5	4	3	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:408048C>A	uc002wdp.3	+	9	1814	c.1121C>A	c.(1120-1122)CCA>CAA	p.P374Q	RBCK1_uc010zpm.1_RNA|RBCK1_uc002wdq.3_Missense_Mutation_p.P332Q|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_Missense_Mutation_p.P204Q	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	RanBP-type and C3HC4-type zinc finger containing	374	IBR-type 1.				interspecies interaction between organisms|negative regulation of NF-kappaB transcription factor activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|proteasomal ubiquitin-dependent protein catabolic process|protein linear polyubiquitination|T cell receptor signaling pathway	LUBAC complex	protein binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(17;0.172)|Lung NSC(37;0.191)|Breast(17;0.231)				TGCAAGACCCCAGATTGCAAG	0.537													14	70					0.000151284	0.000156113	1	1	0		A	408048	A	A	408048	3	1	187	1	0	0	0	0	1	0	0	0	13132	594	21	5	1174	5	RBCK1	20	408048	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08		408048	62617472	825	93608											
CD93	22918	broad.mit.edu	37	chr20	23066072	23066072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgacacagagggggcccGagctgccccagtcgaacaca	10	3	14	14	2	0	2	0	1	0	1	1	4	0	2	3	3	3	2	3	3	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:23066072G>A	uc002wsv.2	-	1	906	c.758C>T	c.(757-759)TCG>TTG	p.S253L		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	253	Extracellular (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GAGGGGGCCCGAGCTGCCCCA	0.602													56	114					0	0	1	0	0		A	23066072	A	A	23066072	3	1	187	1	0	0	0	0	1	0	0	0	3050	1059	37	1	1208	1	CD93	20	23066072	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	22658024	23066072	39959448	826	93609											
GZF1	64412	broad.mit.edu	37	chr20	23350249	23350249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctactgctgtgaccagtgCggcaagcagttcacccagct	8	8	10	15	1	1	1	1	1	0	0	1	1	1	1	3	1	5	5	3	1	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:23350249C>T	uc010gdb.2	+	6	1830	c.1656C>T	c.(1654-1656)TGC>TGT	p.C552C	GZF1_uc002wsy.2_Silent_p.C552C|GZF1_uc010zsq.1_Silent_p.C76C|GZF1_uc010zsr.1_Silent_p.C61C|GZF1_uc002wsz.2_Silent_p.C552C	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	552	C2H2-type 9.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					GTGACCAGTGCGGCAAGCAGT	0.602													71	150					0	0	1	0	0		T	23350249	T	T	23350249	2	4	187	1	0	0	0	0	0	0	0	1	6930	776	27	1		1	GZF1	20	23350249	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	284177	23350249	39675271	827	93610											
CST5	1473	broad.mit.edu	37	chr20	23858244	23858244	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acattgaagtagtagttcacCccacccacgatctacacgcg	12	8	7	14	3	2	1	1	1	1	0	2	2	2	1	3	0	1	3	3	0	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:23858244C>A	uc002wtr.1	-	2	310	c.243G>T	c.(241-243)GGG>GGT	p.G81G		NM_001900	NP_001891	P28325	CYTD_HUMAN	cystatin D precursor	81						extracellular region	cysteine-type endopeptidase inhibitor activity|protein binding				0						AGTAGTTCACCCCACCCACGA	0.532													15	70					2.61681e-11	2.81182e-11	1	1	0		A	23858244	A	A	23858244	2	1	187	1	0	0	0	0	0	0	0	1	3978	610	22	5		5	CST5	20	23858244	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	507995	23858244	39167276	828	93611											
TMEM90B	79953	broad.mit.edu	37	chr20	24524045	24524045	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgctgcgctcctggggggaCggtgtggccgccgactgctg	2	8	19	12	4	0	0	0	0	0	0	1	2	1	1	3	5	3	3	3	5	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:24524045C>T	uc002wtw.1	+	2	945	c.312C>T	c.(310-312)GAC>GAT	p.D104D		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	104	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						CCTGGGGGGACGGTGTGGCCG	0.632													47	76					0	0	1	0	0		T	24524045	T	T	24524045	2	4	187	1	0	0	0	0	0	0	0	1	16244	535	19	1		1	TMEM90B	20	24524045	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	665801	24524045	38501475	829	93612											
ACSS1	84532	broad.mit.edu	37	chr20	25011536	25011536	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatggcaacacggtccccacGgtggactccatgcctcttca	8	8	10	15	2	2	0	1	0	1	0	4	2	4	1	4	4	2	1	4	4	1	1	rs112767555		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:25011536G>A	uc002wub.2	-	3	1368	c.490C>T	c.(490-492)CGT>TGT	p.R164C	ACSS1_uc002wuc.2_Missense_Mutation_p.R164C|ACSS1_uc010gdc.2_Missense_Mutation_p.R164C|ACSS1_uc002wua.2_Missense_Mutation_p.R81C	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	164					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CGGTCCCCACGGTGGACTCCA	0.602													10	51					0	0	1	0	0		A	25011536	A	A	25011536	3	1	187	1	0	0	0	0	1	0	0	0	188	1116	39	1	1627	1	ACSS1	20	25011536	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	487491	25011536	38013984	830	93613											
ZNF341	84905	broad.mit.edu	37	chr20	32354681	32354681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggccagcccctgccgggtgCgccacagccccaggccttgt	4	5	14	18	2	0	0	0	0	0	0	0	0	0	0	8	3	4	0	8	3	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:32354681C>T	uc002wzy.2	+	9	1267	c.1247C>T	c.(1246-1248)GCG>GTG	p.A416V	ZNF341_uc002wzx.2_Missense_Mutation_p.A409V|ZNF341_uc010geq.2_Missense_Mutation_p.A326V|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	416					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTGCCGGGTGCGCCACAGCCC	0.632													52	238					0	0	1	0	0		T	32354681	T	T	32354681	3	4	187	1	0	0	0	0	1	0	0	0	17882	768	27	1	1260	1	ZNF341	20	32354681	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7343145	32354681	30670839	831	93614											
KIAA0406	9675	broad.mit.edu	37	chr20	36641193	36641193	+	Silent	SNP	A	G	G	1	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	gcttggatttcaggactctcAtcatttactagtcccactaa	10	14	6	11	0	3	0	3	0	1	0	5	2	4	2	1	2	1	1	1	2	3	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:36641193A>G	uc002xhl.2	-	3	1235	c.1026T>C	c.(1024-1026)GAT>GAC	p.D342D	KIAA0406_uc002xhm.2_Silent_p.D342D	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	342							binding				0		Myeloproliferative disorder(115;0.00874)				CAGGACTCTCATCATTTACTA	0.458													25	143					0	0	1	0	0		G	36641193	G	G	36641193	2	3	187	1	0	0	0	0	0	0	0	1	8189	214	8	3		3	KIAA0406	20	36641193	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	4286512	36641193	26384327	832	93615											
DHX35	60625	broad.mit.edu	37	chr20	37634810	37634810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatagtggccaccaatgtgGcagaaacctctatcacaatc	13	9	8	11	0	2	2	1	1	1	1	3	2	2	2	3	2	1	1	3	2	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:37634810G>A	uc002xjh.2	+	12	1044	c.1033G>A	c.(1033-1035)GCA>ACA	p.A345T	DHX35_uc010zwa.1_Missense_Mutation_p.A190T|DHX35_uc010zwb.1_Missense_Mutation_p.A190T|DHX35_uc010zwc.1_Missense_Mutation_p.A314T	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	345	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				CACCAATGTGGCAGAAACCTC	0.408													107	515					0	0	1	0	0		A	37634810	A	A	37634810	3	1	187	1	0	0	0	0	1	0	0	0	4514	1203	42	2	1079	2	DHX35	20	37634810	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	993617	37634810	25390710	833	93616											
TOP1	7150	broad.mit.edu	37	chr20	39725955	39725955	+	Frame_Shift_Del	DEL	A	-	-																															ctaccaaggaaatatttaggAaaaatttctttaaagactgg																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:39725955delA	uc002xjl.2	+	10	1072	c.826delA	c.(826-828)AAAfs	p.K276fs	TOP1_uc010gge.1_RNA	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	276					DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	AATATTTAGGAAAAATTTCTT	0.353			T	NUP98	AML*								59	83	---	---	---	---						.	-	39725955	-	-	39725955	7	5	187	1	0	1	0	1	0	0	0	0	16389	247	9	0	864	0	TOP1	20	39725955	Frame_Shift_Del	DEL	A	TCGA-D7-A4YV-01A-11D-A25D-08	2091145	39725955	23299565	834	93617											
ZHX3	23051	broad.mit.edu	37	chr20	39831389	39831389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tcaggttgattttaatggggCtgactttgcgctctgccaag	7	14	12	8	1	2	2	1	2	1	0	2	2	2	2	1	3	2	3	1	3	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:39831389C>T	uc002xjs.1	-	3	2546	c.2168G>A	c.(2167-2169)AGC>AAC	p.S723N	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.S723N|ZHX3_uc002xjt.1_Missense_Mutation_p.S723N|ZHX3_uc002xju.1_Missense_Mutation_p.S723N|ZHX3_uc002xjv.1_Missense_Mutation_p.S723N|ZHX3_uc002xjw.1_Missense_Mutation_p.S723N|ZHX3_uc010ggg.1_Missense_Mutation_p.S723N	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	723					negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				TTTAATGGGGCTGACTTTGCG	0.532													20	95					0	0	1	0	0		T	39831389	T	T	39831389	3	4	187	1	0	0	0	0	1	0	0	0	17702	797	28	2	710	2	ZHX3	20	39831389	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	105434	39831389	23194131	835	93618											
LPIN3	64900	broad.mit.edu	37	chr20	39980542	39980542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggactctgagaatgcagCgctttacttcccccaaaggt	9	10	9	13	1	1	1	0	1	1	1	2	3	2	2	3	2	3	2	3	2	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:39980542C>T	uc002xjx.2	+	8	1275	c.1184C>T	c.(1183-1185)GCG>GTG	p.A395V	LPIN3_uc010ggh.2_Missense_Mutation_p.A396V|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	395					fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				GAGAATGCAGCGCTTTACTTC	0.597													21	80					0	0	1	0	0		T	39980542	T	T	39980542	3	4	187	1	0	0	0	0	1	0	0	0	8938	768	27	1	1210	1	LPIN3	20	39980542	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	149153	39980542	23044978	836	93619											
EMILIN3	90187	broad.mit.edu	37	chr20	39989982	39989982	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	taggtcatcccggaggcgggCaatgtcctgcgtgtgctggg	5	9	17	10	3	1	0	1	0	0	0	3	1	3	1	2	5	2	2	2	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:39989982C>G	uc002xjy.1	-	4	2451	c.2227G>C	c.(2227-2229)GCC>CCC	p.A743P		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	743	Potential.					proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				CGGAGGCGGGCAATGTCCTGC	0.657													6	45					0	0	1	0	0		G	39989982	G	G	39989982	3	3	187	1	0	0	0	0	1	0	0	0	5103	710	25	5	77	5	EMILIN3	20	39989982	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9440	39989982	23035538	837	93620											
JPH2	57158	broad.mit.edu	37	chr20	42789012	42789012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgtactccgtagccatGgcgcatgccgttggtgaact	6	10	13	12	4	0	1	0	1	0	0	1	1	1	1	3	3	4	4	3	3	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:42789012G>T	uc002xli.1	-	2	1288	c.415C>A	c.(415-417)CAT>AAT	p.H139N		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	139	Gly-rich.|Cytoplasmic (Potential).|MORN 6.				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CCGTAGCCATGGCGCATGCCG	0.701													4	18					0.0215528	0.0217361	1	1	0		T	42789012	T	T	42789012	3	4	187	1	0	0	0	0	1	0	0	0	7977	1348	47	5	1691	5	JPH2	20	42789012	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2799030	42789012	20236508	838	93621											
GDAP1L1	78997	broad.mit.edu	37	chr20	42907672	42907672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggagccaccctgcaccGcctcaagttcctgggactgt	6	8	11	16	1	1	0	1	0	0	0	2	2	2	2	6	2	2	2	6	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:42907672G>A	uc002xlq.2	+	6	903	c.836G>A	c.(835-837)CGC>CAC	p.R279H	GDAP1L1_uc010zwl.1_Missense_Mutation_p.R298H|GDAP1L1_uc010zwm.1_Missense_Mutation_p.R221H|GDAP1L1_uc010zwn.1_Missense_Mutation_p.R87H	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	279	GST C-terminal.									large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			ACCCTGCACCGCCTCAAGTTC	0.587													30	121					0	0	1	0	0		A	42907672	A	A	42907672	3	1	187	1	0	0	0	0	1	0	0	0	6323	1087	38	1	858	1	GDAP1L1	20	42907672	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	118660	42907672	20117848	839	93622											
RIMS4	140730	broad.mit.edu	37	chr20	43386791	43386791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggaagtcactgaactgggCgtccgacgccaggcaaactc	11	5	12	13	3	1	1	1	1	0	0	3	3	2	2	2	3	2	1	2	3	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:43386791C>T	uc002xms.2	-	3	271	c.271G>A	c.(271-273)GCC>ACC	p.A91T	RIMS4_uc010ggu.2_Missense_Mutation_p.A92T	NM_182970	NP_892015	Q9H426	RIMS4_HUMAN	regulating synaptic membrane exocytosis 4	91					exocytosis|neurotransmitter transport	cell junction|synapse				ovary(4)|central_nervous_system(1)	5		Myeloproliferative disorder(115;0.0122)				CTGAACTGGGCGTCCGACGCC	0.572													12	58					0	0	1	0	0		T	43386791	T	T	43386791	3	4	187	1	0	0	0	0	1	0	0	0	13395	768	27	1	554	1	RIMS4	20	43386791	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	479119	43386791	19638729	840	93623											
SEMG2	6407	broad.mit.edu	37	chr20	43850595	43850595	+	Missense_Mutation	SNP	A	C	C																															gtggaagtcaacaactgctcAattataaacaagaaggcaga																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:43850595A>C	uc010ggz.2	+	2	379	c.322A>C	c.(322-324)AAT>CAT	p.N108H	SEMG2_uc002xnk.2_Missense_Mutation_p.N108H|SEMG2_uc002xnl.2_Missense_Mutation_p.N108H	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	108	Repeat-rich region.|3-1.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				ACAACTGCTCAATTATAAACA	0.383													40	85					0	0	1	0	0		C	43850595	C	C	43850595	3	2	187	1	0	0	0	0	1	0	0	0	14070	130	5	5	328	5	SEMG2	20	43850595	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	463804	43850595	19174925	841	93624	174	2									
SEMG2	6407	broad.mit.edu	37	chr20	43850598	43850598	+	Missense_Mutation	SNP	T	A	A																															gaagtcaacaactgctcaatTataaacaagaaggcagagac																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:43850598T>A	uc010ggz.2	+	2	382	c.325T>A	c.(325-327)TAT>AAT	p.Y109N	SEMG2_uc002xnk.2_Missense_Mutation_p.Y109N|SEMG2_uc002xnl.2_Missense_Mutation_p.Y109N	NM_003008	NP_002999	Q02383	SEMG2_HUMAN	semenogelin II precursor	109	Repeat-rich region.|3-1.				sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(1)	1		Myeloproliferative disorder(115;0.0122)				ACTGCTCAATTATAAACAAGA	0.388													40	82					0	0	1	0	0		A	43850598	A	A	43850598	3	1	187	1	0	0	0	0	1	0	0	0	14070	1754	61	5	331	5	SEMG2	20	43850598	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	3	43850598	19174922	842	93625	174	2									
SDC4	6385	broad.mit.edu	37	chr20	43964515	43964515	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagggctccggagaagtatcGgccttctaggaggtcctggg	7	9	16	9	2	1	1	0	0	1	1	4	3	3	2	3	6	0	2	3	6	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:43964515G>A	uc002xnu.2	-	2	146	c.106C>T	c.(106-108)CGA>TGA	p.R36*	SDC4_uc010zws.1_Intron	NM_002999	NP_002990	P31431	SDC4_HUMAN	syndecan 4 precursor	36	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytoskeletal protein binding|thrombospondin receptor activity				0		Myeloproliferative disorder(115;0.0122)				GAGAAGTATCGGCCTTCTAGG	0.552													12	52					0	0	1	0	0		A	43964515	A	A	43964515	4	1	187	1	0	0	0	0	0	1	0	0	13979	1124	39	1	506	1	SDC4	20	43964515	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	113917	43964515	19061005	843	93626											
PCIF1	63935	broad.mit.edu	37	chr20	44569201	44569201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagaacaagcccagaaagCggcagctctcggaagagcag	14	3	13	11	2	1	3	0	1	1	3	2	5	1	4	1	2	5	3	1	2	4	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:44569201C>T	uc002xqs.2	+	5	651	c.337C>T	c.(337-339)CGG>TGG	p.R113W		NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	113	Nuclear localization signal (Potential).					nucleus				skin(1)	1						GCCCAGAAAGCGGCAGCTCTC	0.642													9	15					0	0	1	0	0		T	44569201	T	T	44569201	3	4	187	1	0	0	0	0	1	0	0	0	11599	759	27	1	347	1	PCIF1	20	44569201	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	604686	44569201	18456319	844	93627											
SPATA2	9825	broad.mit.edu	37	chr20	48522841	48522841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcagcagcgaaggggatgggCggatgatctcatccttgagg	9	8	16	8	2	2	2	2	2	1	0	4	5	3	4	1	5	2	1	1	5	1	1	rs143910300	byFrequency	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:48522841C>T	uc010gie.2	-	3	1228	c.878G>A	c.(877-879)CGC>CAC	p.R293H	SPATA2_uc002xuw.2_Missense_Mutation_p.R293H|SPATA2_uc010zyn.1_Missense_Mutation_p.R156H	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	293					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			AGGGGATGGGCGGATGATCTC	0.667													22	124					0	0	1	0	0		T	48522841	T	T	48522841	3	4	187	1	0	0	0	0	1	0	0	0	15030	768	27	1	688	1	SPATA2	20	48522841	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3953640	48522841	14502679	845	93628											
PCK1	5105	broad.mit.edu	37	chr20	56137185	56137185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaaagcaagacggttatcGtcacccaagagcaaagagac	16	5	10	10	3	1	3	1	0	0	3	3	5	1	3	1	1	2	3	1	1	5	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:56137185G>A	uc002xyn.3	+	3	446	c.283G>A	c.(283-285)GTC>ATC	p.V95I	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	95					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			GACGGTTATCGTCACCCAAGA	0.552													11	47					0	0	1	0	0		A	56137185	A	A	56137185	3	1	187	1	0	0	0	0	1	0	0	0	11600	1145	40	1	289	1	PCK1	20	56137185	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7614344	56137185	6888335	846	93629											
SLMO2	51012	broad.mit.edu	37	chr20	57610086	57610086	+	Silent	SNP	T	C	C	0	1	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	ttctctgcaaacgctgctgcTgccattggagtccttatggt	6	14	10	11	1	1	0	0	0	1	0	3	1	2	1	2	2	5	4	2	2	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:57610086T>C	uc002yam.2	-	6	677	c.561A>G	c.(559-561)GCA>GCG	p.A187A	ATP5E_uc002yal.2_5'Flank|SLMO2_uc010zzv.1_Silent_p.A157A	NM_016045	NP_057129	Q9Y3B1	SLMO2_HUMAN	slowmo homolog 2	187										skin(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			ACGCTGCTGCTGCCATTGGAG	0.408													4	48					0	0	1	0	0		C	57610086	C	C	57610086	2	2	187	1	0	0	0	0	0	0	0	1	14776	1567	55	3		3	SLMO2	20	57610086	Silent	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1472901	57610086	5415434	847	93630											
EDN3	1908	broad.mit.edu	37	chr20	57876698	57876698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgagcaccaccgatccaggCgctgcacgtgcttcacctac	8	7	9	17	3	1	1	1	1	0	0	2	2	2	1	4	1	4	4	4	1	1	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:57876698C>T	uc002yap.2	+	2	655	c.286C>T	c.(286-288)CGC>TGC	p.R96C	EDN3_uc002yao.1_Missense_Mutation_p.R96C|EDN3_uc002yaq.2_Missense_Mutation_p.R96C|EDN3_uc002yar.2_Missense_Mutation_p.R96C|EDN3_uc002yas.2_Missense_Mutation_p.R96C	NM_000114	NP_000105	P14138	EDN3_HUMAN	endothelin 3 isoform 1 preproprotein	96					cell surface receptor linked signaling pathway|inositol phosphate-mediated signaling|neutrophil chemotaxis|peptide hormone secretion|positive regulation of heart rate|positive regulation of hormone secretion|positive regulation of leukocyte chemotaxis|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of systemic arterial blood pressure by endothelin|regulation of vasoconstriction|vein smooth muscle contraction	extracellular space|soluble fraction	endothelin B receptor binding|hormone activity			skin(1)	1	all_lung(29;0.0115)					CCGATCCAGGCGCTGCACGTG	0.617													70	106					0	0	1	0	0		T	57876698	T	T	57876698	3	4	187	1	0	0	0	0	1	0	0	0	4924	768	27	1	292	1	EDN3	20	57876698	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	266612	57876698	5148822	848	93631											
LAMA5	3911	broad.mit.edu	37	chr20	60887584	60887584	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccggtggggaagagccgtcGcaggctgtggggaagcgggg	6	5	22	8	4	0	1	0	0	0	1	2	3	1	3	2	8	2	2	2	8	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:60887584G>A	uc002ycq.2	-	68	9299	c.9232C>T	c.(9232-9234)CGA>TGA	p.R3078*		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3078	Laminin G-like 2.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAGAGCCGTCGCAGGCTGTGG	0.677													20	22					0	0	1	0	0		A	60887584	A	A	60887584	4	1	187	1	0	0	0	0	0	1	0	0	8625	1095	38	1	1907	1	LAMA5	20	60887584	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3010886	60887584	2137936	849	93632											
YTHDF1	54915	broad.mit.edu	37	chr20	61833646	61833646	+	Missense_Mutation	SNP	A	G	G	1	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	cacccagcctcaccttgcgcAccacctcctcctcctcctgg	5	8	5	23	1	1	0	1	0	0	0	5	0	5	0	9	1	2	1	9	1	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:61833646A>G	uc002yeh.2	-	4	1940	c.1646T>C	c.(1645-1647)GTG>GCG	p.V549A	YTHDF1_uc011aaq.1_Missense_Mutation_p.V499A	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	549										ovary(2)	2						CACCTTGCGCACCACCTCCTC	0.567													27	136					0	0	1	0	0		G	61833646	G	G	61833646	3	3	187	1	0	0	0	0	1	0	0	0	17524	159	6	3	41	3	YTHDF1	20	61833646	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	946062	61833646	1191874	850	93633											
PRIC285	85441	broad.mit.edu	37	chr20	62197486	62197486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtcaggacggtgttgagcaCgcgggcgtcggtgaagaact	8	7	18	8	5	1	3	1	2	0	1	2	4	1	4	0	5	2	2	0	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:62197486C>T	uc002yfm.2	-	9	3581	c.2689G>A	c.(2689-2691)GTG>ATG	p.V897M	PRIC285_uc002yfl.1_Missense_Mutation_p.V328M	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	897					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			GTGTTGAGCACGCGGGCGTCG	0.697													4	12					0	0	1	0	0		T	62197486	T	T	62197486	3	4	187	1	0	0	0	0	1	0	0	0	12507	536	19	1	5308	1	PRIC285	20	62197486	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	363840	62197486	828034	851	93634											
OPRL1	4987	broad.mit.edu	37	chr20	62730147	62730147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgagacggtaccgcggcccGcatgactaggcgtggacctg	7	6	15	13	5	0	2	0	2	0	1	0	4	0	3	3	4	1	2	3	4	2	2	rs113199372		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr20:62730147G>A	uc002yic.2	+	5	1510	c.1108G>A	c.(1108-1110)GCA>ACA	p.A370T	OPRL1_uc002yid.2_Missense_Mutation_p.A370T|OPRL1_uc002yif.3_Missense_Mutation_p.A365T	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	370	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					ACCGCGGCCCGCATGACTAGG	0.657													13	36					0	0	1	0	0		A	62730147	A	A	62730147	3	1	187	1	0	0	0	0	1	0	0	0	10905	1087	38	1	1118	1	OPRL1	20	62730147	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	532661	62730147	295373	852	93635											
BACH1	571	broad.mit.edu	37	chr21	30715090	30715090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctgcggaacagtgtcGtcagagtggtgggatctcag	7	9	17	8	2	2	1	2	0	1	1	4	3	2	3	1	4	2	0	1	4	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:30715090G>A	uc002ynj.2	+	5	2262	c.2147G>A	c.(2146-2148)CGT>CAT	p.R716H	BACH1_uc002ynk.2_Missense_Mutation_p.R716H|BACH1_uc002ynl.2_Intron	NM_001186	NP_001177	O14867	BACH1_HUMAN	BTB and CNC homology 1 transcription factor	716						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|liver(1)	2						GAACAGTGTCGTCAGAGTGGT	0.507													13	38					0	0	1	0	0		A	30715090	A	A	30715090	3	1	187	1	0	0	0	0	1	0	0	0	1284	1145	40	1	2161	1	BACH1	21	30715090	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		30715090	17414805	853	93636											
TIAM1	7074	broad.mit.edu	37	chr21	32559328	32559328	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacttacctttcttggaaGctaaaccggtttccttcaca	9	14	6	12	1	2	1	1	1	1	0	3	2	3	2	3	2	3	2	3	2	4	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:32559328G>T	uc002yow.1	-	15	3123	c.2651C>A	c.(2650-2652)GCT>GAT	p.A884D	TIAM1_uc011adk.1_Missense_Mutation_p.A884D|TIAM1_uc011adl.1_Missense_Mutation_p.A824D	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	884	PDZ.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TTTCTTGGAAGCTAAACCGGT	0.433													49	180					2.47907e-22	2.73543e-22	1	1	0		T	32559328	T	T	32559328	3	4	187	1	0	0	0	0	1	0	0	0	15915	971	34	5	2184	5	TIAM1	21	32559328	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1844238	32559328	15570567	854	93637											
SFRS15	57466	broad.mit.edu	37	chr21	33103990	33103990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccttacctcctggttgaaggCgttgacggcgtccatgttcg	5	12	12	12	4	0	2	0	2	0	0	3	2	2	2	4	3	1	3	4	3	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:33103990C>T	uc002ypd.2	-	1	442	c.16G>A	c.(16-18)GCC>ACC	p.A6T	SFRS15_uc002ype.2_Missense_Mutation_p.A6T|SFRS15_uc010glu.2_Missense_Mutation_p.A6T|SFRS15_uc002ypg.2_Missense_Mutation_p.A6T	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	6	CID.					nucleus	nucleotide binding|RNA binding				0						TGGTTGAAGGCGTTGACGGCG	0.716													11	70					0	0	1	0	0		T	33103990	T	T	33103990	3	4	187	1	0	0	0	0	1	0	0	0	14196	768	27	1	3507	1	SFRS15	21	33103990	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	544662	33103990	15025905	855	93638											
DOPEY2	9980	broad.mit.edu	37	chr21	37617999	37617999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacgactctcggcgggtcCtctatgccttctcggtgctg	3	12	11	15	4	3	0	0	0	3	0	6	1	4	0	3	3	3	1	3	3	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:37617999C>T	uc002yvg.2	+	19	3800	c.3721C>T	c.(3721-3723)CTC>TTC	p.L1241F	DOPEY2_uc011aeb.1_Missense_Mutation_p.L1190F|DOPEY2_uc002yvh.2_Missense_Mutation_p.L92F	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	1241					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						TCGGCGGGTCCTCTATGCCTT	0.587													17	32					0	0	1	0	0		T	37617999	T	T	37617999	3	4	187	1	0	0	0	0	1	0	0	0	4714	681	24	4	3791	4	DOPEY2	21	37617999	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4514009	37617999	10511896	856	93639											
MORC3	23515	broad.mit.edu	37	chr21	37747468	37747468	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccgatctcttcgagttaaCgtaggacaactgctggctat	9	12	9	11	3	1	0	0	0	1	0	4	3	2	1	1	2	3	4	1	2	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:37747468C>T	uc002yvi.2	+	17	2770	c.2694C>T	c.(2692-2694)AAC>AAT	p.N898N		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	898					cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						TTCGAGTTAACGTAGGACAAC	0.358													17	89					0	0	1	0	0		T	37747468	T	T	37747468	2	4	187	1	0	0	0	0	0	0	0	1	9721	535	19	1		1	MORC3	21	37747468	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	129469	37747468	10382427	857	93640											
DSCAM	1826	broad.mit.edu	37	chr21	42080531	42080531	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtggacgtggcggatcccGgggacatcgtagatctcctc	6	8	16	11	4	1	1	0	0	1	1	5	4	2	4	2	6	0	1	2	6	1	1	rs147347671	by1000genomes	TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:42080531G>A	uc002yyq.1	-	2	662	c.210C>T	c.(208-210)CCC>CCT	p.P70P	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	70	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				GGCGGATCCCGGGGACATCGT	0.567													21	90					0	0	1	0	0		A	42080531	A	A	42080531	2	1	187	1	0	0	0	0	0	0	0	1	4774	1103	39	1		1	DSCAM	21	42080531	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	4333063	42080531	6049364	858	93641											
PRDM15	63977	broad.mit.edu	37	chr21	43242266	43242266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacccgccatacctggcacCgcttgcagctgtacttgtga	9	9	9	14	2	0	1	0	1	0	0	0	1	0	1	4	1	5	5	4	1	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:43242266C>T	uc002yzq.1	-	22	3098	c.2987G>A	c.(2986-2988)CGG>CAG	p.R996Q	PRDM15_uc002yzo.2_Missense_Mutation_p.R667Q|PRDM15_uc002yzp.2_Missense_Mutation_p.R687Q|PRDM15_uc002yzr.1_Missense_Mutation_p.R687Q	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	996	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TACCTGGCACCGCTTGCAGCT	0.587													10	65					0	0	1	0	0		T	43242266	T	T	43242266	3	4	187	1	0	0	0	0	1	0	0	0	12478	652	23	1	1576	1	PRDM15	21	43242266	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1161735	43242266	4887629	859	93642											
ITGB2	3689	broad.mit.edu	37	chr21	46321619	46321619	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcgtgttcacgaacggcaGcacggtcttgtccacgaagg	8	8	14	11	5	2	0	1	0	1	0	3	2	3	0	1	3	3	3	1	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:46321619G>A	uc002zgd.2	-	5	573	c.529C>T	c.(529-531)CTG>TTG	p.L177L	ITGB2_uc002zge.2_Silent_p.L177L|ITGB2_uc002zgf.3_Silent_p.L177L|ITGB2_uc011afl.1_Silent_p.L99L|ITGB2_uc010gpw.2_Silent_p.L120L|ITGB2_uc002zgg.2_Silent_p.L177L	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	177	Extracellular (Potential).|VWFA.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	ACGAACGGCAGCACGGTCTTG	0.637													15	47					0	0	1	0	0		A	46321619	A	A	46321619	2	1	187	1	0	0	0	0	0	0	0	1	7910	962	34	2		2	ITGB2	21	46321619	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3079353	46321619	1808276	860	93643											
PCNT	5116	broad.mit.edu	37	chr21	47851682	47851682	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcacgagcggctcctgacCgagcagctgagccagaggac	9	3	15	14	4	0	3	0	2	0	1	1	6	1	4	3	3	4	4	3	3	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr21:47851682C>T	uc002zji.3	+	38	8411	c.8304C>T	c.(8302-8304)ACC>ACT	p.T2768T	PCNT_uc002zjj.2_Silent_p.T2650T	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2768	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GGCTCCTGACCGAGCAGCTGA	0.647													6	24					0	0	1	0	0		T	47851682	T	T	47851682	2	4	187	1	0	0	0	0	0	0	0	1	11609	639	23	1		1	PCNT	21	47851682	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1530063	47851682	278213	861	93644											
CECR6	27439	broad.mit.edu	37	chr22	17601118	17601119	+	Frame_Shift_Ins	INS	-	C	C																															ccgcggccgcccccaggccgINSccccccgcgccgccggcgcc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:17601118_17601119insC	uc002zmb.2	-	1	1095_1096	c.899_900insG	c.(898-900)GGCfs	p.G300fs	CECR6_uc002zma.2_Intron|uc002zmc.2_5'Flank	NM_031890	NP_114096	Q9BXQ6	CECR6_HUMAN	cat eye syndrome chromosome region, candidate 6	300	Ala-rich.										0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.221)		cccccaggccgccccccgcgcc	0.485													7	16	---	---	---	---						.	C	17601119	C	C	17601118	7	5	187	1	0	1	1	0	0	0	0	0	3211	1074	38	0	840	0	CECR6	22	17601118	Frame_Shift_Ins	INS	-	TCGA-D7-A4YV-01A-11D-A25D-08		17601118	33703448	862	93645											
CYTSA	23384	broad.mit.edu	37	chr22	24717327	24717327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctactagagaaagattaCgtgaacgtacccgattaaac	15	10	8	8	3	1	3	0	1	1	2	1	5	1	3	1	0	5	2	1	0	8	6			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:24717327C>T	uc002zzw.2	+	5	686	c.379C>T	c.(379-381)CGT>TGT	p.R127C	CYTSA_uc002zzv.3_Missense_Mutation_p.R127C|CYTSA_uc011ajq.1_Missense_Mutation_p.R127C	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	127					cell cycle|cell division						0						AGAAAGATTACGTGAACGTAC	0.438													44	108					0	0	1	0	0		T	24717327	T	T	24717327	3	4	187	1	0	0	0	0	1	0	0	0	4212	536	19	1	389	1	CYTSA	22	24717327	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	7116209	24717327	26587239	863	93646											
LRP5L	91355	broad.mit.edu	37	chr22	25747816	25747816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaccgggttgtgtggggcGtgaagaagcacaggtggctg	9	7	18	7	2	0	2	0	1	0	1	0	2	0	2	1	5	2	3	1	5	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:25747816G>A	uc003abs.2	-	4	3174	c.709C>T	c.(709-711)CGC>TGC	p.R237C	LRP5L_uc011ajz.1_Missense_Mutation_p.R237C|LRP5L_uc010guw.1_Intron	NM_182492	NP_872298	A4QPB2	LRP5L_HUMAN	low density lipoprotein receptor-related protein	237											0						TGTGTGGGGCGTGAAGAAGCA	0.572													13	82					0	0	1	0	0		A	25747816	A	A	25747816	3	1	187	1	0	0	0	0	1	0	0	0	8979	1145	40	1	53	1	LRP5L	22	25747816	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1030489	25747816	25556750	864	93647											
SFI1	9814	broad.mit.edu	37	chr22	32011260	32011260	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cctgcggggcggctgcaccaGccagggtacgtcctccacca	6	5	13	17	3	0	0	0	0	0	0	2	0	2	0	6	4	4	3	6	4	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:32011260G>T	uc003ale.2	+	29	3688	c.3295G>T	c.(3295-3297)GCC>TCC	p.A1099S	SFI1_uc003alf.2_Missense_Mutation_p.A1068S|SFI1_uc003alg.2_Missense_Mutation_p.A1017S|SFI1_uc011alp.1_Missense_Mutation_p.A1005S|SFI1_uc011alq.1_Missense_Mutation_p.A1044S|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA|SFI1_uc003ali.2_Missense_Mutation_p.A191S|SFI1_uc003alj.2_Missense_Mutation_p.A233S	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	1099					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						GGCTGCACCAGCCAGGGTACG	0.642													6	22					3.59834e-05	3.72398e-05	1	1	0		T	32011260	T	T	32011260	3	4	187	1	0	0	0	0	1	0	0	0	14181	971	34	5	3405	5	SFI1	22	32011260	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6263444	32011260	19293306	865	93648											
RASD2	23551	broad.mit.edu	37	chr22	35947942	35947942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccttctgcatgcgccgcGtcaaggagatggacgcctat	7	8	13	13	4	2	1	1	0	1	1	2	3	2	2	3	3	2	1	3	3	2	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:35947942G>A	uc003anx.2	+	3	869	c.664G>A	c.(664-666)GTC>ATC	p.V222I	RASD2_uc003any.2_Missense_Mutation_p.V222I	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	222	Interaction with GNB1, GNB2 and GNB3.				locomotory behavior|positive regulation of protein kinase B signaling cascade|positive regulation of protein sumoylation|regulation of cAMP-mediated signaling	intracellular|plasma membrane	G-protein beta-subunit binding|GTP binding|GTPase activity			lung(2)|skin(1)	3						CATGCGCCGCGTCAAGGAGAT	0.637													20	52					0	0	1	0	0		A	35947942	A	A	35947942	3	1	187	1	0	0	0	0	1	0	0	0	13092	1145	40	1	670	1	RASD2	22	35947942	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3936682	35947942	15356624	866	93649											
GGA1	26088	broad.mit.edu	37	chr22	38027048	38027048	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggcctccgcagcagccCgtaccaaccgagctctcact	8	5	8	20	3	1	0	1	0	1	0	3	1	2	0	6	1	5	4	6	1	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:38027048C>T	uc003atc.2	+	14	1835	c.1470C>T	c.(1468-1470)CCC>CCT	p.P490P	GGA1_uc003atd.2_Silent_p.P403P|GGA1_uc003ate.2_Silent_p.P486P|GGA1_uc003atf.2_Silent_p.P417P	NM_013365	NP_037497	Q9UJY5	GGA1_HUMAN	golgi associated, gamma adaptin ear containing,	490	Unstructured hinge.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|Golgi apparatus part	protein binding			breast(2)|ovary(1)	3	Melanoma(58;0.0574)					CGCAGCAGCCCGTACCAACCG	0.622													32	104					0	0	1	0	0		T	38027048	T	T	38027048	2	4	187	1	0	0	0	0	0	0	0	1	6367	639	23	1		1	GGA1	22	38027048	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2079106	38027048	13277518	867	93650											
TMEM184B	25829	broad.mit.edu	37	chr22	38621523	38621523	+	Missense_Mutation	SNP	A	G	G	1	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	gctcccgggtggcgaagtagAagaggaagagggcgtagagg	11	4	20	6	3	0	4	0	0	0	4	1	6	1	5	1	5	0	3	1	5	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:38621523A>G	uc003avf.1	-	7	919	c.695T>C	c.(694-696)TTC>TCC	p.F232S	TMEM184B_uc003avg.1_Missense_Mutation_p.F232S|TMEM184B_uc003avh.1_Missense_Mutation_p.F166S|TMEM184B_uc010gxl.1_RNA	NM_012264	NP_036396	Q9Y519	T184B_HUMAN	transmembrane protein 184B	232	Helical; (Potential).					integral to membrane					0	Melanoma(58;0.045)					GGCGAAGTAGAAGAGGAAGAG	0.577													20	40					0	0	1	0	0		G	38621523	G	G	38621523	3	3	187	1	0	0	0	0	1	0	0	0	16130	246	9	3	540	3	TMEM184B	22	38621523	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	594475	38621523	12683043	868	93651											
KCNJ4	3761	broad.mit.edu	37	chr22	38823526	38823526	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgcgcaggttgcccacgcgCcacatgaggcagagcttgcc	7	7	13	14	3	0	2	0	1	0	1	0	2	0	2	3	2	4	4	3	2	0	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:38823526C>T	uc003avs.1	-	2	709	c.612G>A	c.(610-612)TGG>TGA	p.W204*	KCNJ4_uc003avt.1_Nonsense_Mutation_p.W204*	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	204	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TGCCCACGCGCCACATGAGGC	0.657													15	59					0	0	1	0	0		T	38823526	T	T	38823526	4	4	187	1	0	0	0	0	0	1	0	0	8069	740	26	2	729	2	KCNJ4	22	38823526	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	202003	38823526	12481040	869	93652											
APOBEC3G	60489	broad.mit.edu	37	chr22	39477208	39477208	+	Missense_Mutation	SNP	A	G	G	1	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	aaagagacggtccgcgtgccAccatgaagatcatgaattat	14	8	10	9	3	1	4	1	2	0	2	2	5	2	4	3	1	1	0	3	1	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:39477208A>G	uc003awx.2	+	3	784	c.442A>G	c.(442-444)ACC>GCC	p.T148A	APOBEC3G_uc003awy.2_Missense_Mutation_p.T81A	NM_021822	NP_068594	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	148					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2	Melanoma(58;0.04)					TCCGCGTGCCACCATGAAGAT	0.537													23	70					0	0	1	0	0		G	39477208	G	G	39477208	3	3	187	1	0	0	0	0	1	0	0	0	794	159	6	3	452	3	APOBEC3G	22	39477208	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	653682	39477208	11827358	870	93653											
ADSL	158	broad.mit.edu	37	chr22	40762510	40762510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcgtgatgaaggtgaaagCagaattatgtctgtagagtt	14	11	13	3	1	1	5	0	3	1	2	1	5	1	5	0	1	2	3	0	1	6	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:40762510C>T	uc003ayp.3	+	13	1498	c.1439C>T	c.(1438-1440)GCA>GTA	p.A480V	ADSL_uc003ays.3_Missense_Mutation_p.A421V|ADSL_uc003ayq.3_Missense_Mutation_p.A494V|ADSL_uc003ayr.3_Missense_Mutation_p.A256V|ADSL_uc003ayt.3_Missense_Mutation_p.A465V	NM_000026	NP_000017	P30566	PUR8_HUMAN	adenylosuccinate lyase isoform a	480					AMP biosynthetic process|protein tetramerization|purine base metabolic process	cytosol	(S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamido)succinate AMP-lyase (fumarate-forming) activity|N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity			ovary(1)	1						AAGGTGAAAGCAGAATTATGT	0.373													11	47					0	0	1	0	0		T	40762510	T	T	40762510	3	4	187	1	0	0	0	0	1	0	0	0	346	710	25	2	1489	2	ADSL	22	40762510	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1285302	40762510	10542056	871	93654											
ACO2	50	broad.mit.edu	37	chr22	41904043	41904043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggcgagaaagacctgcGccgggccaaggtgagcagaa	11	3	18	9	3	0	4	0	1	0	3	0	5	0	4	3	4	2	1	3	4	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:41904043G>A	uc003bac.2	+	3	444	c.422G>A	c.(421-423)CGC>CAC	p.R141H	ACO2_uc003bad.2_Missense_Mutation_p.R141H	NM_001098	NP_001089	Q99798	ACON_HUMAN	aconitase 2, mitochondrial precursor	141					citrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	4 iron, 4 sulfur cluster binding|aconitate hydratase activity|citrate hydro-lyase (cis-aconitate-forming) activity|iron ion binding|isocitrate hydro-lyase (cis-aconitate-forming) activity			breast(2)|ovary(1)|lung(1)	4						AAAGACCTGCGCCGGGCCAAG	0.617													16	71					0	0	1	0	0		A	41904043	A	A	41904043	3	1	187	1	0	0	0	0	1	0	0	0	147	1087	38	1	432	1	ACO2	22	41904043	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1141533	41904043	9400523	872	93655											
TTLL1	25809	broad.mit.edu	37	chr22	43460205	43460205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggacgcttacatgtaacagCgcagtggacggtacgtggac	10	7	15	9	4	0	0	0	0	0	0	0	3	0	3	0	4	4	4	0	4	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:43460205C>T	uc003bdi.2	-	6	870	c.629G>A	c.(628-630)CGC>CAC	p.R210H	TTLL1_uc010gzh.2_Missense_Mutation_p.R210H|TTLL1_uc003bdj.2_Missense_Mutation_p.R96H|TTLL1_uc003bdh.2_Missense_Mutation_p.R172H	NM_012263	NP_036395	O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	210	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			skin(1)	1		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		CATGTAACAGCGCAGTGGACG	0.463													9	87					0	0	1	0	0		T	43460205	T	T	43460205	3	4	187	1	0	0	0	0	1	0	0	0	16748	768	27	1	666	1	TTLL1	22	43460205	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1556162	43460205	7844361	873	93656											
SMC1B	27127	broad.mit.edu	37	chr22	45802421	45802421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttaaactgtgcatcctcttCggctttttgtaactttcttt	6	20	6	9	1	2	0	0	0	2	0	4	0	3	0	1	1	3	4	1	1	3	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:45802421C>T	uc003bgc.2	-	4	587	c.535G>A	c.(535-537)GAA>AAA	p.E179K	SMC1B_uc003bgd.2_Missense_Mutation_p.E179K|SMC1B_uc003bge.1_5'UTR	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	179	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GCATCCTCTTCGGCTTTTTGT	0.368													13	41					0	0	1	0	0		T	45802421	T	T	45802421	3	4	187	1	0	0	0	0	1	0	0	0	14807	893	31	1	3260	1	SMC1B	22	45802421	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2342216	45802421	5502145	874	93657											
ATXN10	25814	broad.mit.edu	37	chr22	46134638	46134638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctacaattaggcttctcGacgtcctgtgcgaaatgact	9	12	10	10	3	1	1	0	1	1	0	3	3	2	1	1	2	2	2	1	2	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:46134638G>A	uc003bgm.1	+	8	1179	c.922G>A	c.(922-924)GAC>AAC	p.D308N	ATXN10_uc011aqt.1_Missense_Mutation_p.D244N|ATXN10_uc003bgn.1_Missense_Mutation_p.D119N	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	308					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		TAGGCTTCTCGACGTCCTGTG	0.383													18	73					0	0	1	0	0		A	46134638	A	A	46134638	3	1	187	1	0	0	0	0	1	0	0	0	1211	1058	37	1	952	1	ATXN10	22	46134638	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	332217	46134638	5169928	875	93658											
PKDREJ	10343	broad.mit.edu	37	chr22	46652994	46652994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggccctctgagccaggcGcacatcgtagaagaatctgg	10	7	13	11	2	2	3	0	1	2	2	3	4	2	3	2	3	1	2	2	3	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:46652994G>A	uc003bhh.2	-	1	6226	c.6226C>T	c.(6226-6228)CGC>TGC	p.R2076C		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	2076	Cytoplasmic (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TGAGCCAGGCGCACATCGTAG	0.458													15	63					0	0	1	0	0		A	46652994	A	A	46652994	3	1	187	1	0	0	0	0	1	0	0	0	11989	1087	38	1	539	1	PKDREJ	22	46652994	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	518356	46652994	4651572	876	93659											
PKDREJ	10343	broad.mit.edu	37	chr22	46658610	46658610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acaggacacggacgactcgaCggctctgtggctggacgagt	9	6	15	11	5	1	0	0	0	1	0	2	6	1	3	0	5	0	2	0	5	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:46658610C>T	uc003bhh.2	-	1	610	c.610G>A	c.(610-612)GTC>ATC	p.V204I		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	204	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		GACGACTCGACGGCTCTGTGG	0.637													3	27					0	0	1	0	0		T	46658610	T	T	46658610	3	4	187	1	0	0	0	0	1	0	0	0	11989	536	19	1	6155	1	PKDREJ	22	46658610	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5616	46658610	4645956	877	93660											
ZBED4	9889	broad.mit.edu	37	chr22	50277799	50277799	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctcatgaggcacgtgaggcgCgcacacccgaccgtgctcat	8	6	12	15	5	2	2	2	2	0	0	2	3	2	2	2	2	1	3	2	2	0	0	rs148606148		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:50277799C>T	uc003bix.2	+	2	959	c.489C>T	c.(487-489)CGC>CGT	p.R163R		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	163	BED-type 1.					cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		ACGTGAGGCGCGCACACCCGA	0.552													16	47					0	0	1	0	0		T	50277799	T	T	50277799	2	4	187	1	0	0	0	0	0	0	0	1	17545	755	27	1		1	ZBED4	22	50277799	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3619189	50277799	1026767	878	93661											
TTLL8	164714	broad.mit.edu	37	chr22	50470379	50470379	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcgatggccttcttcatggaCgggtagatgacgctgcccca	7	9	13	12	3	2	2	1	1	1	1	2	4	2	3	3	3	1	2	3	3	1	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:50470379C>T	uc011ark.1	-	11	1443	c.1443G>A	c.(1441-1443)CCG>CCA	p.P481P		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		TCTTCATGGACGGGTAGATGA	0.647													13	29					0	0	1	0	0		T	50470379	T	T	50470379	2	4	187	1	0	0	0	0	0	0	0	1	16759	523	19	1		1	TTLL8	22	50470379	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	192580	50470379	834187	879	93662											
PANX2	56666	broad.mit.edu	37	chr22	50616018	50616018	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcgcatcatcgcgggcGtggacatcgtgctgctgtgc	5	9	15	12	5	1	0	1	0	0	0	3	1	1	1	0	2	5	4	0	2	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:50616018G>A	uc003bjn.3	+	2	877	c.877G>A	c.(877-879)GTG>ATG	p.V293M	PANX2_uc003bjp.3_Missense_Mutation_p.V159M|PANX2_uc003bjo.3_Missense_Mutation_p.V293M	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	293	Helical; (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		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)		CATCGCGGGCGTGGACATCGT	0.647													21	63					0	0	1	0	0		A	50616018	A	A	50616018	3	1	187	1	0	0	0	0	1	0	0	0	11440	1145	40	1	883	1	PANX2	22	50616018	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	145639	50616018	688548	880	93663											
PLXNB2	23654	broad.mit.edu	37	chr22	50728320	50728320	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcttgtcctgctggttgaAgacaaagaagacgtaggggc	10	9	15	7	1	0	4	0	1	0	3	1	4	1	4	1	3	2	4	1	3	4	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chr22:50728320A>C	uc003bkv.3	-	3	800	c.694T>G	c.(694-696)TTC>GTC	p.F232V		NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	232	Extracellular (Potential).|Sema.				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TGCTGGTTGAAGACAAAGAAG	0.612													14	32					0	0	1	0	0		C	50728320	C	C	50728320	3	2	187	1	0	0	0	0	1	0	0	0	12143	72	3	5	4962	5	PLXNB2	22	50728320	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	112302	50728320	576246	881	93664											
SFRS17A	8227	broad.mit.edu	37	chrX	1712983	1712983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttccacaccttcagtttcGgggggcacttgaacttcgag	8	11	10	12	2	1	1	1	1	0	0	4	2	2	1	2	3	1	2	2	3	1	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:1712983G>A	uc004cqa.2	+	2	824	c.628G>A	c.(628-630)GGG>AGG	p.G210R	SFRS17A_uc010ncx.1_Missense_Mutation_p.G210R|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	210	RRM.				B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTTCAGTTTCGGGGGGCACTT	0.587													44	108					0	0	1	0	0		A	1712983	A	A	1712983	3	1	187	1	0	0	0	0	1	0	0	0	14198	1116	39	1	630	1	SFRS17A	23	1712983	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08		1712983	153557577	882	93665											
ZBED1	9189	broad.mit.edu	37	chrX	2407150	2407150	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgacgctggcgggcggcggCgtggatgtccgcatgagctt	5	8	18	10	6	0	2	0	2	0	0	1	3	1	3	1	5	1	3	1	5	0	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:2407150C>T	uc004cqg.2	-	2	1812	c.1611G>A	c.(1609-1611)ACG>ACA	p.T537T	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.T537T	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	537						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CGGGCGGCGGCGTGGATGTCC	0.647													8	28					0	0	1	0	0		T	2407150	T	T	2407150	2	4	187	1	0	0	0	0	0	0	0	1	17543	755	27	1		1	ZBED1	23	2407150	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	694167	2407150	152863410	883	93666											
ZBED1	9189	broad.mit.edu	37	chrX	2407741	2407741	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accagcatgcagtgggccacGttctgctgcttctgcttctc	5	12	10	14	1	3	0	0	0	3	0	4	0	3	0	2	1	5	6	2	1	0	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:2407741G>A	uc004cqg.2	-	2	1221	c.1020C>T	c.(1018-1020)AAC>AAT	p.N340N	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.N340N	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	340						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGTGGGCCACGTTCTGCTGCT	0.637													8	24					0	0	1	0	0		A	2407741	A	A	2407741	2	1	187	1	0	0	0	0	0	0	0	1	17543	1136	40	1		1	ZBED1	23	2407741	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	591	2407741	152862819	884	93667											
MXRA5	25878	broad.mit.edu	37	chrX	3235934	3235934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggccgtgcaggttgctggCggtgcacatatactggcctc	6	9	14	12	2	0	0	0	0	0	0	1	0	0	0	2	5	4	4	2	5	2	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:3235934C>T	uc004crg.3	-	6	5945	c.5788G>A	c.(5788-5790)GCC>ACC	p.A1930T		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1930	Ig-like C2-type 3.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				AGGTTGCTGGCGGTGCACATA	0.527													20	57					0	0	1	0	0		T	3235934	T	T	3235934	3	4	187	1	0	0	0	0	1	0	0	0	10021	768	27	1	2706	1	MXRA5	23	3235934	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	828193	3235934	152034626	885	93668											
KAL1	3730	broad.mit.edu	37	chrX	8503632	8503632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacaagaggtgggacctacGgaaggcaggatctgggactg	11	6	17	7	1	1	1	0	0	1	1	1	5	1	5	1	6	2	2	1	6	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:8503632G>A	uc004csf.2	-	12	1992	c.1842C>T	c.(1840-1842)TCC>TCT	p.S614S		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	614	Fibronectin type-III 4.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						TGGGACCTACGGAAGGCAGGA	0.498													9	32					0	0	1	0	0		A	8503632	A	A	8503632	2	1	187	1	0	0	0	0	0	0	0	1	7990	1130	39	1		1	KAL1	23	8503632	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5267698	8503632	146766928	886	93669											
FAM9C	171484	broad.mit.edu	37	chrX	13058875	13058875	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaaaaagccaacaatcatAcctttttagttgtgttgttc	13	15	5	8	0	2	0	2	0	0	0	3	0	2	0	2	0	3	3	2	0	7	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:13058875A>G	uc004cvh.1	-	5	539	c.329_splice	c.e5+1	p.R110_splice	FAM9C_uc004cvg.2_Splice_Site_p.R110_splice	NM_174901	NP_777561	Q8IZT9	FAM9C_HUMAN	family with sequence similarity 9, member C							nucleus					0						CAACAATCATACCTTTTTAGT	0.299													10	14					0	0	1	0	0		G	13058875	G	G	13058875	5	3	187	1	0	0	0	0	0	0	1	0	5675	405	14	3	181	3	FAM9C	23	13058875	Splice_Site	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	4555243	13058875	142211685	887	93670											
TXLNG	55787	broad.mit.edu	37	chrX	16836812	16836812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaaggctcaaattgtggtgGcacaagtaacaagcattcat	14	10	9	8	0	3	0	3	0	0	0	3	0	3	0	0	3	2	4	0	3	5	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:16836812G>A	uc004cxq.1	+	2	269	c.218G>A	c.(217-219)GGC>GAC	p.G73D	TXLNG_uc010ney.1_Intron	NM_018360	NP_060830	Q9NUQ3	TXLNG_HUMAN	gamma-taxilin	73					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nuclear membrane				lung(1)	1						AATTGTGGTGGCACAAGTAAC	0.418													10	155					0	0	1	0	0		A	16836812	A	A	16836812	3	1	187	1	0	0	0	0	1	0	0	0	16815	1203	42	2	224	2	TXLNG	23	16836812	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	3777937	16836812	138433748	888	93671											
EIF1AX	1964	broad.mit.edu	37	chrX	20153954	20153954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacattttgattacctgagCatactctagcggggagaaag	13	10	10	8	1	1	3	0	2	1	1	1	4	1	3	1	2	5	1	1	2	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:20153954C>T	uc004czt.2	-	3	314	c.106G>A	c.(106-108)GCT>ACT	p.A36T		NM_001412	NP_001403	P47813	IF1AX_HUMAN	X-linked eukaryotic translation initiation	36	S1-like.					cytosol	translation initiation factor activity			ovary(1)	1						ATTACCTGAGCATACTCTAGC	0.378													37	128					0	0	1	0	0		T	20153954	T	T	20153954	3	4	187	1	0	0	0	0	1	0	0	0	4998	710	25	2	348	2	EIF1AX	23	20153954	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3317142	20153954	135116606	889	93672											
RPS6KA3	6197	broad.mit.edu	37	chrX	20205970	20205970	+	Silent	SNP	G	A	A	0	0	1	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	aacacaccaaaagaccaccaGtcagcactctgagtatgacc	16	5	6	14	0	2	3	1	2	1	1	2	3	2	3	4	0	2	2	4	0	4	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:20205970G>A	uc004czu.2	-	9	750	c.750C>T	c.(748-750)GAC>GAT	p.D250D	RPS6KA3_uc011mjk.1_Silent_p.D221D|RPS6KA3_uc004czv.2_Silent_p.D238D|RPS6KA3_uc011mjl.1_Silent_p.D222D|RPS6KA3_uc011mjm.1_Silent_p.D222D	NM_004586	NP_004577	P51812	KS6A3_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	250	Protein kinase 1.				axon guidance|central nervous system development|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|skeletal system development|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|caspase inhibitor activity|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(4)|stomach(1)|ovary(1)|lung(1)|breast(1)	8						AAGACCACCAGTCAGCACTCT	0.398													50	160					0	0	1	0	0		A	20205970	A	A	20205970	2	1	187	1	0	0	0	0	0	0	0	1	13677	1020	36	4		4	RPS6KA3	23	20205970	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	52016	20205970	135064590	890	93673											
MAGEB1	4112	broad.mit.edu	37	chrX	30268938	30268938	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagtcaaagatcctgtagccTgggaggcaggaatgctgatg	11	8	14	8	0	1	2	1	1	0	1	2	4	2	4	2	3	2	3	2	3	3	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:30268938T>C	uc004dcc.2	+	4	648	c.328T>C	c.(328-330)TGG>CGG	p.W110R	MAGEB1_uc004dcd.2_Missense_Mutation_p.W110R|MAGEB1_uc004dce.2_Missense_Mutation_p.W110R	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	110	MAGE.										0						TCCTGTAGCCTGGGAGGCAGG	0.453													14	31					0	0	1	0	0		C	30268938	C	C	30268938	3	2	187	1	0	0	0	0	1	0	0	0	9190	1580	55	3	330	3	MAGEB1	23	30268938	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	10062968	30268938	125001622	891	93674											
DMD	1756	broad.mit.edu	37	chrX	32235152	32235152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatcataatgaaaacgccGccatttctcaacagatctgt	14	12	5	10	2	3	2	2	1	2	1	4	2	3	2	2	0	2	0	2	0	6	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:32235152G>A	uc004dda.1	-	44	6563	c.6319C>T	c.(6319-6321)CGG>TGG	p.R2107W	DMD_uc004dcw.2_Missense_Mutation_p.R763W|DMD_uc004dcx.2_Missense_Mutation_p.R766W|DMD_uc004dcz.2_Missense_Mutation_p.R1984W|DMD_uc004dcy.1_Missense_Mutation_p.R2103W|DMD_uc004ddb.1_Missense_Mutation_p.R2099W|DMD_uc010ngo.1_Missense_Mutation_p.R16W|DMD_uc010ngn.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2107	Spectrin 15.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TGAAAACGCCGCCATTTCTCA	0.348													9	36					0	0	1	0	0		A	32235152	A	A	32235152	3	1	187	1	0	0	0	0	1	0	0	0	4586	1086	38	1	5030	1	DMD	23	32235152	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1966214	32235152	123035408	892	93675											
FAM47B	170062	broad.mit.edu	37	chrX	34960964	34960964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccatgggggaccggaggCcacaggaccggccaaggtcc	9	2	15	15	2	0	0	0	0	0	0	1	3	1	3	7	7	0	0	7	7	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:34960964C>T	uc004ddi.1	+	1	34	c.16C>T	c.(16-18)CCA>TCA	p.P6S		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	6										ovary(3)|breast(1)	4						GGACCGGAGGCCACAGGACCG	0.627													3	14					0	0	1	0	0		T	34960964	T	T	34960964	3	4	187	1	0	0	0	0	1	0	0	0	5584	739	26	2	18	2	FAM47B	23	34960964	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	2725812	34960964	120309596	893	93676											
CHST7	56548	broad.mit.edu	37	chrX	46433662	46433662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggggaggcagtgtctcGcgagaagcagcacatctacg	9	7	15	10	4	2	1	0	0	2	1	4	3	2	2	0	3	3	3	0	3	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:46433662G>A	uc004dgt.2	+	1	471	c.296G>A	c.(295-297)CGC>CAC	p.R99H		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	99	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						GCAGTGTCTCGCGAGAAGCAG	0.647													6	26					0	0	1	0	0		A	46433662	A	A	46433662	3	1	187	1	0	0	0	0	1	0	0	0	3412	1087	38	1	298	1	CHST7	23	46433662	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	11472698	46433662	108836898	894	93677											
CHST7	56548	broad.mit.edu	37	chrX	46433912	46433912	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccccgctgcgcgcgccccGgacacggccaatcttaccac	7	4	10	20	6	1	0	0	0	1	0	1	2	1	1	6	2	2	1	6	2	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:46433912G>A	uc004dgt.2	+	1	721	c.546G>A	c.(544-546)CCG>CCA	p.P182P		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	182	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						cgcgcgccccggACACGGCCA	0.562													4	16					0	0	1	0	0		A	46433912	A	A	46433912	2	1	187	1	0	0	0	0	0	0	0	1	3412	1103	39	1		1	CHST7	23	46433912	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	250	46433912	108836648	895	93678											
CHST7	56548	broad.mit.edu	37	chrX	46434160	46434160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgctggtgcccctgttgcGtgatccaggcctcaacctga	5	10	12	14	2	1	2	1	2	0	0	2	2	2	2	5	2	4	2	5	2	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:46434160G>A	uc004dgt.2	+	1	969	c.794G>A	c.(793-795)CGT>CAT	p.R265H		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	265	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						CCCCTGTTGCGTGATCCAGGC	0.657													8	19					0	0	1	0	0		A	46434160	A	A	46434160	3	1	187	1	0	0	0	0	1	0	0	0	3412	1145	40	1	796	1	CHST7	23	46434160	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	248	46434160	108836400	896	93679											
ARAF	369	broad.mit.edu	37	chrX	47424204	47424204	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccccctgcagacgaaagaCggtcactgcctgggacacag	10	5	12	14	2	1	2	1	0	0	2	1	4	1	3	3	2	3	1	3	2	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:47424204C>T	uc011mlq.1	+	4	342	c.209C>T	c.(208-210)ACG>ATG	p.T70M	ARAF_uc011mln.1_RNA|ARAF_uc011mlo.1_Translation_Start_Site|ARAF_uc011mlp.1_Missense_Mutation_p.T70M|ARAF_uc004dic.1_5'Flank	NM_001654	NP_001645	P10398	ARAF_HUMAN	v-raf murine sarcoma 3611 viral oncogene	70	RBD.				intracellular signal transduction|negative regulation of apoptosis|positive regulation of peptidyl-serine phosphorylation		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity			large_intestine(3)|lung(2)|ovary(1)|skin(1)	7					Adenosine triphosphate(DB00171)	AGACGAAAGACGGTCACTGCC	0.592													4	8					0	0	1	0	0		T	47424204	T	T	47424204	3	4	187	1	0	0	0	0	1	0	0	0	837	536	19	1	219	1	ARAF	23	47424204	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	990044	47424204	107846356	897	93680											
HDAC6	10013	broad.mit.edu	37	chrX	48666716	48666716	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaaggaacacagttcacCttcgaccaggaccccaggta	12	6	10	13	1	2	0	2	0	0	0	3	3	2	2	4	4	1	2	4	4	3	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:48666716C>T	uc011mmi.1	+	10	884	c.789C>T	c.(787-789)ACC>ACT	p.T263T	HDAC6_uc004dks.1_Silent_p.T263T|HDAC6_uc010nig.1_Silent_p.T111T|HDAC6_uc004dkt.1_Silent_p.T263T|HDAC6_uc011mmj.1_Silent_p.T208T|HDAC6_uc011mmk.1_Silent_p.T244T	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	263	Histone deacetylase 1.				aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	CACAGTTCACCTTCGACCAGG	0.577													10	13					0	0	1	0	0		T	48666716	T	T	48666716	2	4	187	1	0	0	0	0	0	0	0	1	7027	668	24	4		4	HDAC6	23	48666716	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	1242512	48666716	106603844	898	93681											
ERAS	3266	broad.mit.edu	37	chrX	48687744	48687744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgcttcgtggaggaccacGaccccaccatccaggattcc	9	7	10	15	2	0	0	0	0	0	0	3	4	2	3	6	3	1	1	6	3	0	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:48687744G>A	uc004dky.1	+	1	462	c.211G>A	c.(211-213)GAC>AAC	p.D71N		NM_181532	NP_853510	Q7Z444	RASE_HUMAN	ES cell expressed Ras precursor	71	Effector region (By similarity).				small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			lung(4)|urinary_tract(1)	5						GGAGGACCACGACCCCACCAT	0.612													20	53					0	0	1	0	0		A	48687744	A	A	48687744	3	1	187	1	0	0	0	0	1	0	0	0	5213	1058	37	1	213	1	ERAS	23	48687744	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	21028	48687744	106582816	899	93682											
CACNA1F	778	broad.mit.edu	37	chrX	49067892	49067892	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggatcacaccgatttcCgggaaggctggcaagcatta	11	8	11	11	2	2	0	2	0	0	0	3	3	3	2	2	4	1	3	2	4	3	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:49067892C>T	uc004dnb.2	-	36	4245	c.4183G>A	c.(4183-4185)GGA>AGA	p.G1395R	CACNA1F_uc010nip.2_Missense_Mutation_p.G1384R	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1395	Extracellular (Potential).|IV.				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	CACCGATTTCCGGGAAGGCTG	0.532													17	53					0	0	1	0	0		T	49067892	T	T	49067892	3	4	187	1	0	0	0	0	1	0	0	0	2546	661	23	1	1802	1	CACNA1F	23	49067892	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	380148	49067892	106202668	900	93683											
DGKK	139189	broad.mit.edu	37	chrX	50146496	50146496	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggctagtacttactacttcaTctgcaggcagaaggaggtca	11	10	11	9	0	3	1	2	0	1	1	3	2	3	2	0	4	4	4	0	4	5	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:50146496T>A	uc010njr.1	-	6	1238	c.1178A>T	c.(1177-1179)GAT>GTT	p.D393V		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	393					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TACTACTTCATCTGCAGGCAG	0.483													19	64					0	0	1	0	0		A	50146496	A	A	50146496	3	1	187	1	0	0	0	0	1	0	0	0	4478	1435	50	5	2728	5	DGKK	23	50146496	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1078604	50146496	105124064	901	93684											
IQSEC2	23096	broad.mit.edu	37	chrX	53285133	53285133	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccactccagcaggggggCcccccatgtggctgctggag	5	5	16	15	0	0	0	0	0	0	0	1	1	1	1	5	6	2	3	5	6	0	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:53285133C>G	uc004dsd.2	-	3	1049	c.848G>C	c.(847-849)GGC>GCC	p.G283A	IQSEC2_uc004dsc.2_Missense_Mutation_p.G78A	NM_001111125	NP_001104595	Q5JU85	IQEC2_HUMAN	IQ motif and Sec7 domain 2 isoform1	273					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3						AGCAGGGGGGCCCCCCATGTG	0.687													3	7					0	0	1	0	0		G	53285133	G	G	53285133	3	3	187	1	0	0	0	0	1	0	0	0	7834	739	26	5	3670	5	IQSEC2	23	53285133	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3138637	53285133	101985427	902	93685											
RIBC1	158787	broad.mit.edu	37	chrX	53454959	53454959	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctttgggatcaggtggatgtCcaggccctgaacaaccaggt	9	9	13	10	0	1	1	1	1	0	0	2	3	2	3	3	5	2	0	3	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:53454959C>T	uc004dsk.2	+	4	279	c.126C>T	c.(124-126)GTC>GTT	p.V42V	RIBC1_uc004dsj.1_Silent_p.V42V|RIBC1_uc011mog.1_Silent_p.V42V	NM_001031745	NP_001026915	Q8N443	RIBC1_HUMAN	RIB43A domain with coiled-coils 1 isoform 1	42											0						AGGTGGATGTCCAGGCCCTGA	0.517													13	37					0	0	1	0	0		T	53454959	T	T	53454959	2	4	187	1	0	0	0	0	0	0	0	1	13377	842	30	4		4	RIBC1	23	53454959	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	169826	53454959	101815601	903	93686											
HUWE1	10075	broad.mit.edu	37	chrX	53631667	53631667	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagcaacattgcctgcgcaAgccagttctcgcaacaacac	12	7	7	15	2	2	0	1	0	1	0	3	0	2	0	2	0	7	4	2	0	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:53631667A>C	uc004dsp.2	-	26	3027	c.2625T>G	c.(2623-2625)GCT>GCG	p.A875A		NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	875					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TGCCTGCGCAAGCCAGTTCTC	0.562													13	31					0	0	1	0	0		C	53631667	C	C	53631667	2	2	187	1	0	0	0	0	0	0	0	1	7477	59	3	5		5	HUWE1	23	53631667	Silent	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	176708	53631667	101638893	904	93687											
MTMR8	55613	broad.mit.edu	37	chrX	63555963	63555963	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgagtatatttttacctttGggaaaacttgtggcccatgg	10	15	10	6	0	0	1	0	1	0	0	0	2	0	2	2	3	2	1	2	3	5	7			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:63555963G>T	uc004dvs.2	-	10	1215	c.1147C>A	c.(1147-1149)CAA>AAA	p.Q383K	MTMR8_uc011mou.1_Intron|MTMR8_uc004dvt.1_Missense_Mutation_p.Q383K	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	383	Myotubularin phosphatase.					nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						TTTTACCTTTGGGAAAACTTG	0.338													15	61					4.75885e-15	5.16551e-15	1	1	0		T	63555963	T	T	63555963	3	4	187	1	0	0	0	0	1	0	0	0	9967	1357	47	5	987	5	MTMR8	23	63555963	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	9924296	63555963	91714597	905	93688											
EDA	1896	broad.mit.edu	37	chrX	69243069	69243069	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tattttatttttcttataggCccagttaaaaacaagaaaaa	17	15	4	5	0	1	1	0	0	1	1	1	1	1	1	1	1	1	1	1	1	10	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:69243069C>T	uc004dxs.2	+	3	746	c.504C>T	c.(502-504)GGC>GGT	p.G168G	EDA_uc004dxr.2_Silent_p.G168G|EDA_uc011mpj.1_Silent_p.G168G	NM_001399	NP_001390	Q92838	EDA_HUMAN	ectodysplasin A isoform EDA-A1	168	Extracellular (Potential).				cell differentiation|ectoderm development|immune response|positive regulation of NF-kappaB transcription factor activity|signal transduction	collagen|cytoskeleton|membrane fraction	tumor necrosis factor receptor binding			ovary(2)|large_intestine(1)	3						TTCTTATAGGCCCAGTTAAAA	0.303													9	34					0	0	1	0	0		T	69243069	T	T	69243069	2	4	187	1	0	0	0	0	0	0	0	1	4909	753	26	2		2	EDA	23	69243069	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	5687106	69243069	86027491	906	93689											
CXorf65	158830	broad.mit.edu	37	chrX	70325942	70325942	+	Frame_Shift_Del	DEL	A	-	-																															catgattgggcttcatcaggAaaagcatcttcattttcccc																										TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:70325942delA	uc011mpo.1	-	3	172	c.158delT	c.(157-159)TTCfs	p.F53fs	CXorf65_uc011mpp.1_Frame_Shift_Del_p.F5fs	NM_001025265	NP_001020436	A6NEN9	CX065_HUMAN	hypothetical protein LOC158830	53										central_nervous_system(1)	1						CTTCATCAGGAAAAGCATCTT	0.493													36	69	---	---	---	---						.	-	70325942	-	-	70325942	7	5	187	1	0	1	0	1	0	0	0	0	4120	246	9	0	409	0	CXorf65	23	70325942	Frame_Shift_Del	DEL	A	TCGA-D7-A4YV-01A-11D-A25D-08	1082873	70325942	84944618	907	93690											
OGT	8473	broad.mit.edu	37	chrX	70757854	70757854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatattaacctggcagccGccttggtagcagcgggtgac	8	10	13	10	2	0	1	0	1	0	0	0	1	0	1	3	3	4	4	3	3	4	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:70757854G>A	uc004eaa.1	+	3	611	c.394G>A	c.(394-396)GCC>ACC	p.A132T	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Missense_Mutation_p.A122T|OGT_uc011mpw.1_Missense_Mutation_p.A132T	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	132	TPR 3.				cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					CCTGGCAGCCGCCTTGGTAGC	0.463													16	53					0	0	1	0	0		A	70757854	A	A	70757854	3	1	187	1	0	0	0	0	1	0	0	0	10866	1087	38	1	404	1	OGT	23	70757854	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	431912	70757854	84512706	908	93691											
ABCB7	22	broad.mit.edu	37	chrX	74376093	74376093	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccagcgccaagaatgcatCgcgagcagcgccatcttgag	10	5	12	14	4	1	2	0	1	1	1	2	3	1	2	3	0	4	2	3	0	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:74376093C>T	uc004eca.2	-	1	40	c.15G>A	c.(13-15)GCG>GCA	p.A5A	ABCB7_uc004ebz.2_Silent_p.A5A|ABCB7_uc011mqn.1_Silent_p.A5A|ABCB7_uc010nls.2_Silent_p.A5A|ABCB7_uc010nlt.2_Silent_p.A5A	NM_004299	NP_004290	O75027	ABCB7_HUMAN	ATP-binding cassette, sub-family B, member 7	5					cellular iron ion homeostasis	integral to membrane|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|heme transporter activity			ovary(1)	1						AAGAATGCATCGCGAGCAGCG	0.582											OREG0019879	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	11					0	0	1	0	0		T	74376093	T	T	74376093	2	4	187	1	0	0	0	0	0	0	0	1	46	871	31	1		1	ABCB7	23	74376093	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3618239	74376093	80894467	909	93692											
ATRX	546	broad.mit.edu	37	chrX	76939918	76939918	+	Missense_Mutation	SNP	A	G	G	1	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	atacgctgttacatgcagtgAccaagtccaacaaaggctct	13	9	8	11	1	1	1	0	1	1	0	2	1	2	1	2	1	4	4	2	1	5	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:76939918A>G	uc004ecp.3	-	9	1062	c.830T>C	c.(829-831)GTC>GCC	p.V277A	ATRX_uc004ecq.3_Missense_Mutation_p.V239A|ATRX_uc004eco.3_Missense_Mutation_p.V62A|ATRX_uc004ecr.2_Missense_Mutation_p.V238A|ATRX_uc010nlx.1_Missense_Mutation_p.V277A|ATRX_uc010nly.1_Missense_Mutation_p.V222A	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	277	ADD.				DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	ACATGCAGTGACCAAGTCCAA	0.368			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						49	185					0	0	1	0	0		G	76939918	G	G	76939918	3	3	187	1	0	0	0	0	1	0	0	0	1209	275	10	3	6756	3	ATRX	23	76939918	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	2563825	76939918	78330642	910	93693											
MAGT1	84061	broad.mit.edu	37	chrX	77150883	77150883	+	Missense_Mutation	SNP	A	G	G	1	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	caccatggtcacagagacacAccaaaaccgccaacgcgctg	14	3	8	16	3	1	1	1	0	0	1	1	2	1	1	4	1	2	1	4	1	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:77150883A>G	uc004fof.2	-	1	183	c.121T>C	c.(121-123)TGT>CGT	p.C41R	MAGT1_uc004fog.3_RNA|MAGT1_uc004ect.3_Missense_Mutation_p.C41R	NM_032121	NP_115497	Q9H0U3	MAGT1_HUMAN	magnesium transporter 1	9					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				upper_aerodigestive_tract(1)	1						ACAGAGACACACCAAAACCGC	0.567													14	47					0	0	1	0	0		G	77150883	G	G	77150883	3	3	187	1	0	0	0	0	1	0	0	0	9214	159	6	3	1022	3	MAGT1	23	77150883	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	210965	77150883	78119677	911	93694											
POU3F4	5456	broad.mit.edu	37	chrX	82763852	82763852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagcccccggatcacggcGaactgggctcgcaccattgc	8	5	13	15	4	1	1	1	0	0	1	2	4	1	2	3	3	3	2	3	3	1	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:82763852G>A	uc004eeg.2	+	1	584	c.520G>A	c.(520-522)GAA>AAA	p.E174K		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	174					sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGATCACGGCGAACTGGGCTC	0.602													6	14					0	0	1	0	0		A	82763852	A	A	82763852	3	1	187	1	0	0	0	0	1	0	0	0	12296	1059	37	1	522	1	POU3F4	23	82763852	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	5612969	82763852	72506708	912	93695											
PCDH11X	27328	broad.mit.edu	37	chrX	91873765	91873765	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaggtgctgatgggctatgCtctgttgatcagggagtgca	8	11	15	7	0	2	2	1	2	1	0	2	3	2	3	0	3	3	5	0	3	2	2	rs146706969		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:91873765C>T	uc004efk.1	+	7	4715	c.3870C>T	c.(3868-3870)TGC>TGT	p.C1290C	PCDH11X_uc004efl.1_Silent_p.C1280C|PCDH11X_uc004efo.1_Silent_p.C1253C|PCDH11X_uc010nmv.1_3'UTR|PCDH11X_uc004efm.1_Silent_p.C1282C|PCDH11X_uc004efn.1_Silent_p.C1272C	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1290	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						ATGGGCTATGCTCTGTTGATC	0.473													16	311					0	0	1	0	0		T	91873765	T	T	91873765	2	4	187	1	0	0	0	0	0	0	0	1	11527	805	28	2		2	PCDH11X	23	91873765	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	9109913	91873765	63396795	913	93696											
DIAPH2	1730	broad.mit.edu	37	chrX	96013170	96013170	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggaggacatgaaccttaaCgaagagaaaaaagctccttt	17	7	9	8	1	0	2	0	1	0	1	1	6	1	4	2	2	3	1	2	2	6	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:96013170C>T	uc004efu.3	+	4	756	c.360C>T	c.(358-360)AAC>AAT	p.N120N	DIAPH2_uc004eft.3_Silent_p.N120N|DIAPH2_uc004efs.2_Silent_p.N120N	NM_006729	NP_006720	O60879	DIAP2_HUMAN	diaphanous 2 isoform 156	120	GBD/FH3.				cell differentiation|cytokinesis|multicellular organismal development|oogenesis	cytosol|early endosome|Golgi apparatus|mitochondrion|nucleolus	receptor binding|Rho GTPase binding			ovary(3)|lung(1)	4						TGAACCTTAACGAAGAGAAAA	0.363													13	44					0	0	1	0	0		T	96013170	T	T	96013170	2	4	187	1	0	0	0	0	0	0	0	1	4525	535	19	1		1	DIAPH2	23	96013170	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	4139405	96013170	59257390	914	93697											
SYTL4	94121	broad.mit.edu	37	chrX	99956505	99956505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccattgctttcctgtatgCggcagtcccgacacaccagg	8	10	9	14	2	0	0	0	0	0	0	2	1	2	0	4	2	3	3	4	2	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:99956505C>T	uc004egd.3	-	5	631	c.275G>A	c.(274-276)CGC>CAC	p.R92H	SYTL4_uc010nnc.2_Missense_Mutation_p.R92H|SYTL4_uc004ege.3_Missense_Mutation_p.R92H|SYTL4_uc004egf.3_Missense_Mutation_p.R92H|SYTL4_uc004egg.3_Missense_Mutation_p.R92H	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	92	RabBD.|FYVE-type.				exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			ovary(2)	2					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTCCTGTATGCGGCAGTCCCG	0.582													39	104					0	0	1	0	0		T	99956505	T	T	99956505	3	4	187	1	0	0	0	0	1	0	0	0	15510	768	27	1	1800	1	SYTL4	23	99956505	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	3943335	99956505	55314055	915	93698											
TCEAL5	340543	broad.mit.edu	37	chrX	102529121	102529121	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccttgggggaatcgtccGtccccctgtcggtttttctt	3	15	11	12	3	1	0	0	0	1	0	6	1	4	1	4	3	0	1	4	3	1	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:102529121G>A	uc004ejz.1	-	3	666	c.371C>T	c.(370-372)ACG>ATG	p.T124M		NM_001012979	NP_001012997	Q5H9L2	TCAL5_HUMAN	transcription elongation factor A (SII)-like 5	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(1)|breast(1)	2						GGAATCGTCCGTCCCCCTGTC	0.577													48	140					0	0	1	0	0		A	102529121	A	A	102529121	3	1	187	1	0	0	0	0	1	0	0	0	15699	1145	40	1	253	1	TCEAL5	23	102529121	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	2572616	102529121	52741439	916	93699											
WBP5	51186	broad.mit.edu	37	chrX	102612760	102612760	+	Missense_Mutation	SNP	A	G	G	1	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	gaacttttagagaaaggctgAttcaatctctccaggagttt	12	13	9	7	0	2	2	1	1	1	1	4	5	3	3	1	2	1	2	1	2	4	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:102612760A>G	uc004ekd.2	+	3	449	c.148A>G	c.(148-150)ATT>GTT	p.I50V	WBP5_uc004eke.2_Missense_Mutation_p.I50V|WBP5_uc004ekf.2_Missense_Mutation_p.I50V|WBP5_uc004ekg.2_Missense_Mutation_p.I50V	NM_001006612	NP_001006613	Q9UHQ7	WPB5_HUMAN	WW domain binding protein 5	50	Glu-rich.										0						AGAAAGGCTGATTCAATCTCT	0.413													27	82					0	0	1	0	0		G	102612760	G	G	102612760	3	3	187	1	0	0	0	0	1	0	0	0	17288	333	12	3	150	3	WBP5	23	102612760	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	83639	102612760	52657800	917	93700											
FAM199X	139231	broad.mit.edu	37	chrX	103432819	103432819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagcaccagtggagtgagCggtgccagtgccagcgccag	9	4	16	12	2	0	1	0	1	0	0	0	2	0	2	4	2	5	2	4	2	1	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:103432819C>T	uc004elw.2	+	5	994	c.828C>T	c.(826-828)AGC>AGT	p.S276S	FAM199X_uc004elx.2_Silent_p.S93S	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	276	Ser-rich.									ovary(1)	1						GTGGAGTGAGCGGTGCCAGTG	0.552													32	91					0	0	1	0	0		T	103432819	T	T	103432819	2	4	187	1	0	0	0	0	0	0	0	1	5541	767	27	1		1	FAM199X	23	103432819	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	820059	103432819	51837741	918	93701											
IL1RAPL2	26280	broad.mit.edu	37	chrX	105011292	105011292	+	Missense_Mutation	SNP	T	G	G	0	1	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	aaaaagaaatgctacctcggTgccatgttctggactccgca	12	9	9	11	2	1	1	0	0	1	1	3	2	2	2	3	2	3	3	3	2	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:105011292T>G	uc004elz.1	+	11	2455	c.1699T>G	c.(1699-1701)TGC>GGC	p.C567G		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	567	Cytoplasmic (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						GCTACCTCGGTGCCATGTTCT	0.433													35	122					0	0	1	0	0		G	105011292	G	G	105011292	3	3	187	1	0	0	0	0	1	0	0	0	7678	1696	59	5	1737	5	IL1RAPL2	23	105011292	Missense_Mutation	SNP	T	TCGA-D7-A4YV-01A-11D-A25D-08	1578473	105011292	50259268	919	93702											
NRK	203447	broad.mit.edu	37	chrX	105137885	105137885	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagtgagaatgaccagtaatCagagtttaaaagaagattgg	17	10	11	3	0	1	5	1	2	0	4	1	6	1	5	1	1	0	2	1	1	6	5			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:105137885C>T	uc004emd.2	+	6	742	c.439C>T	c.(439-441)CAG>TAG	p.Q147*	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	147	Protein kinase.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GACCAGTAATCAGAGTTTAAA	0.403										HNSCC(51;0.14)			12	28					0	0	1	0	0		T	105137885	T	T	105137885	4	4	187	1	0	0	0	0	0	1	0	0	10674	827	29	4	461	4	NRK	23	105137885	Nonsense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	126593	105137885	50132675	920	93703											
LRCH2	57631	broad.mit.edu	37	chrX	114384409	114384409	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttgaaatattcttttctaAtctgtttgctccgcctcctt	6	19	4	12	1	3	1	0	1	3	0	5	1	5	1	4	0	1	2	4	0	3	8			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:114384409A>C	uc010nqe.2	-	14	1707	c.1676T>G	c.(1675-1677)ATT>AGT	p.I559S	LRCH2_uc004epz.2_Missense_Mutation_p.I559S	NM_020871	NP_065922	Q5VUJ6	LRCH2_HUMAN	leucine-rich repeats and calponin homology (CH)	559										ovary(1)	1						TTCTTTTCTAATCTGTTTGCT	0.323													9	28					0	0	1	0	0		C	114384409	C	C	114384409	3	2	187	1	0	0	0	0	1	0	0	0	8951	101	4	5	653	5	LRCH2	23	114384409	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	9246524	114384409	40886151	921	93704											
XPNPEP2	7512	broad.mit.edu	37	chrX	128880625	128880625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagattcctgctggagggcGtgtgggttttgaccccttcc	4	12	14	11	2	0	2	0	1	0	1	2	4	2	3	4	3	1	2	4	3	0	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:128880625G>A	uc004eut.1	+	6	702	c.458G>A	c.(457-459)CGT>CAT	p.R153H	XPNPEP2_uc011mum.1_Missense_Mutation_p.R153H	NM_003399	NP_003390	O43895	XPP2_HUMAN	X-prolyl aminopeptidase 2, membrane-bound	153					cellular process|proteolysis	anchored to membrane|plasma membrane	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0						GCTGGAGGGCGTGTGGGTTTT	0.517													65	152					0	0	1	0	0		A	128880625	A	A	128880625	3	1	187	1	0	0	0	0	1	0	0	0	17469	1145	40	1	480	1	XPNPEP2	23	128880625	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	14496216	128880625	26389935	922	93705											
RAB33A	9363	broad.mit.edu	37	chrX	129318301	129318301	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaggaacgtttccgcaaaAgcatggtcgagcattactac	12	9	10	10	3	1	0	1	0	0	0	3	2	2	1	1	2	5	4	1	2	5	3			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:129318301A>G	uc004evl.2	+	2	565	c.301A>G	c.(301-303)AGC>GGC	p.S101G	RAB33A_uc010nre.2_RNA	NM_004794	NP_004785	Q14088	RB33A_HUMAN	Ras-related protein Rab-33A	101					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding				0						TTTCCGCAAAAGCATGGTCGA	0.483													7	86					0	0	1	0	0		G	129318301	G	G	129318301	3	3	187	1	0	0	0	0	1	0	0	0	12947	72	3	3	307	3	RAB33A	23	129318301	Missense_Mutation	SNP	A	TCGA-D7-A4YV-01A-11D-A25D-08	437676	129318301	25952259	923	93706											
GPR112	139378	broad.mit.edu	37	chrX	135426784	135426784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaaaatcttaaagacactgGtagatgagacagctacattt	18	10	7	6	0	1	3	0	1	1	3	1	4	1	3	0	1	2	2	0	1	7	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:135426784G>A	uc004ezu.1	+	6	1210	c.919G>A	c.(919-921)GTA>ATA	p.V307I	GPR112_uc010nsb.1_Missense_Mutation_p.V102I|GPR112_uc010nsc.1_Missense_Mutation_p.V74I	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	307	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					AAAGACACTGGTAGATGAGAC	0.378													25	99					0	0	1	0	0		A	135426784	A	A	135426784	3	1	187	1	0	0	0	0	1	0	0	0	6644	1261	44	4	929	4	GPR112	23	135426784	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	6108483	135426784	19843776	924	93707											
GPR101	83550	broad.mit.edu	37	chrX	136112821	136112821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcactggttgacctctgtgCgacccttgtctgccttcatg	4	14	10	13	1	3	1	1	1	2	0	3	2	3	1	3	1	3	2	3	1	0	3	rs148515087		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:136112821C>T	uc011mwh.1	-	1	1013	c.1013G>A	c.(1012-1014)CGC>CAC	p.R338H		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	338	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					GACCTCTGTGCGACCCTTGTC	0.542													85	270					0	0	1	0	0		T	136112821	T	T	136112821	3	4	187	1	0	0	0	0	1	0	0	0	6637	768	27	1	516	1	GPR101	23	136112821	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	686037	136112821	19157739	925	93708											
GPR101	83550	broad.mit.edu	37	chrX	136113350	136113350	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagagtggaggagtgctctGcaggatggccacaatccagg	10	7	16	8	0	1	1	0	0	1	1	2	4	2	4	2	5	2	3	2	5	2	1			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:136113350G>A	uc011mwh.1	-	1	484	c.484C>T	c.(484-486)CAG>TAG	p.Q162*		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	162	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					GGAGTGCTCTGCAGGATGGCC	0.597													4	30					0	0	1	0	0		A	136113350	A	A	136113350	4	1	187	1	0	0	0	0	0	1	0	0	6637	1328	46	2	1045	2	GPR101	23	136113350	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	529	136113350	19157210	926	93709											
SPANXN3	139067	broad.mit.edu	37	chrX	142596775	142596775	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acatgggcctaggtcttcatCctcatttgaagatccttcag	9	13	8	11	0	4	2	3	1	1	1	6	2	6	2	3	2	0	0	3	2	2	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:142596775C>T	uc004fbw.2	-	2	383	c.295G>A	c.(295-297)GAT>AAT	p.D99N		NM_001009609	NP_001009609	Q5MJ09	SPXN3_HUMAN	SPANX-N3 protein	99										ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					AGGTCTTCATCCTCATTTGAA	0.453													40	117					0	0	1	0	0		T	142596775	T	T	142596775	3	4	187	1	0	0	0	0	1	0	0	0	15017	855	30	4	134	4	SPANXN3	23	142596775	Missense_Mutation	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	6483425	142596775	12673785	927	93710											
GPR50	9248	broad.mit.edu	37	chrX	150349107	150349107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagctcgtgaacaagaccGtgcccatgcctgtcctgctg	8	8	10	15	2	0	2	0	1	0	1	2	2	1	2	5	0	5	2	5	0	3	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:150349107G>A	uc010ntg.1	+	2	1187	c.1052G>A	c.(1051-1053)CGT>CAT	p.R351H	uc004fes.1_5'Flank|GPR50_uc011myc.1_3'UTR	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	351	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GAACAAGACCGTGCCCATGCC	0.612													47	129					0	0	1	0	0		A	150349107	A	A	150349107	3	1	187	1	0	0	0	0	1	0	0	0	6712	1145	40	1	1058	1	GPR50	23	150349107	Missense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	7752332	150349107	4921453	928	93711											
MAGEA6	4105	broad.mit.edu	37	chrX	151869697	151869697	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtatcgagccagggagccGgtcacaaaggcagaaatgct	14	5	13	9	2	1	1	1	0	0	1	2	3	1	2	2	3	3	3	2	3	4	1	rs144510184		TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:151869697G>T	uc004ffq.1	+	3	581	c.387G>T	c.(385-387)CCG>CCT	p.P129P	MAGEA6_uc004ffr.1_Silent_p.P129P|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	129	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					CCAGGGAGCCGGTCACAAAGG	0.522													13	170					0.00244969	0.00249411	1	1	0		T	151869697	T	T	151869697	2	4	187	1	0	0	0	0	0	0	0	1	9188	1103	39	5		5	MAGEA6	23	151869697	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	1520590	151869697	3400863	929	93712											
MAGEA6	4105	broad.mit.edu	37	chrX	151870148	151870148	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtccaagggccctcattGaaaccagctatgtgaaagtc	11	8	12	10	0	1	2	1	2	0	0	3	2	2	2	3	3	2	1	3	3	4	2			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:151870148G>T	uc004ffq.1	+	3	1032	c.838G>T	c.(838-840)GAA>TAA	p.E280*	MAGEA6_uc004ffr.1_Nonsense_Mutation_p.E280*|MAGEA2_uc010nto.2_Intron	NM_005363	NP_005354	P43360	MAGA6_HUMAN	melanoma antigen family A, 6	280	MAGE.						protein binding				0	Acute lymphoblastic leukemia(192;6.56e-05)					GGCCCTCATTGAAACCAGCTA	0.537													61	188					8.77104e-35	9.73851e-35	1	1	0		T	151870148	T	T	151870148	4	4	187	1	0	0	0	0	0	1	0	0	9188	1291	45	5	840	5	MAGEA6	23	151870148	Nonsense_Mutation	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	451	151870148	3400412	930	93713											
MAGEA3	4102	broad.mit.edu	37	chrX	151935399	151935399	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggggacctgccggtactcCaggtagttttcctgcacgaa	7	9	12	13	3	0	0	0	0	0	0	2	2	2	1	5	4	3	4	5	4	3	4			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:151935399C>G	uc004fgp.2	-	3	977	c.768G>C	c.(766-768)CTG>CTC	p.L256L		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	256	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GCCGGTACTCCAGGTAGTTTT	0.532													52	142					0	0	1	0	0		G	151935399	G	G	151935399	2	3	187	1	0	0	0	0	0	0	0	1	9185	581	21	5		5	MAGEA3	23	151935399	Silent	SNP	C	TCGA-D7-A4YV-01A-11D-A25D-08	65251	151935399	3335161	931	93714											
ATP2B3	492	broad.mit.edu	37	chrX	152813354	152813354	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgaagagcgcggagggtggGgagatggaggagcgggagaa	11	3	23	4	3	0	4	0	1	0	3	0	9	0	7	0	7	2	0	0	7	2	0			TCGA-D7-A4YV-01A-11D-A25D-08	TCGA-D7-A4YV-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	5adc47c4-651b-456b-9c37-0a2980dddc44	a1f1d449-d527-42ca-96e4-96095e5c3c25	g.chrX:152813354G>A	uc004fht.1	+	7	1146	c.1020G>A	c.(1018-1020)GGG>GGA	p.G340G	ATP2B3_uc004fhs.1_Silent_p.G340G	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	340	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CGGAGGGTGGGGAGATGGAGG	0.582													16	93					0	0	1	0	0		A	152813354	A	A	152813354	2	1	187	1	0	0	0	0	0	0	0	1	1142	1219	43	4		4	ATP2B3	23	152813354	Silent	SNP	G	TCGA-D7-A4YV-01A-11D-A25D-08	877955	152813354	2457206	932	93715											
TAS1R3	83756	broad.mit.edu	37	chr1	1268161	1268161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacgcctcaggctgccccgCgcaggaccccgtgaagccct	7	4	11	19	4	1	1	1	1	0	0	1	2	1	2	6	2	3	2	6	2	2	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:1268161C>T	uc010nyk.1	+	3	1250	c.1250C>T	c.(1249-1251)GCG>GTG	p.A417V		NM_152228	NP_689414	Q7RTX0	TS1R3_HUMAN	taste receptor, type 1, member 3 precursor	417	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste|sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;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)	Aspartame(DB00168)	GGCTGCCCCGCGCAGGACCCC	0.652													4	35					0	0	1	0	0		T	1268161	T	T	1268161	3	4	188	1	0	0	0	0	1	0	0	0	15589	768	27	1	1260	1	TAS1R3	1	1268161	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08		1268161	247982460	1	93716											
CASZ1	54897	broad.mit.edu	37	chr1	10700034	10700034	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgggaggacgccgtcttccgCcgcttgccgaagggcgacat	6	6	15	14	7	1	0	0	0	1	0	2	4	2	2	4	3	1	1	4	3	1	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:10700034C>T	uc001aro.2	-	21	4565	c.4245G>A	c.(4243-4245)CGG>CGA	p.R1415R		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1415					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CCGTCTTCCGCCGCTTGCCGA	0.632													10	56					0	0	1	0	0		T	10700034	T	T	10700034	2	4	188	1	0	0	0	0	0	0	0	1	2688	726	26	2		2	CASZ1	1	10700034	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	9431873	10700034	238550587	2	93717											
MTOR	2475	broad.mit.edu	37	chr1	11188135	11188135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgttggctgcattgtgccGggctgtcgtggtagacttag	4	14	15	8	2	0	1	0	0	0	1	1	1	0	1	1	3	2	5	1	3	2	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:11188135G>A	uc001asd.2	-	43	6080	c.5959C>T	c.(5959-5961)CGG>TGG	p.R1987W	MTOR_uc001asc.2_Missense_Mutation_p.R192W	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1987					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GCATTGTGCCGGGCTGTCGTG	0.527													6	150					0	0	1	0	0		A	11188135	A	A	11188135	3	1	188	1	0	0	0	0	1	0	0	0	9972	1115	39	1	1754	1	MTOR	1	11188135	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	488101	11188135	238062486	3	93718											
PRAMEF11	440560	broad.mit.edu	37	chr1	12887678	12887678	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgtaaatccagcacttgaAgtttccatctcctgtgggaa	10	12	8	11	0	1	1	0	1	1	0	4	2	3	2	4	1	1	3	4	1	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:12887678A>C	uc001auk.2	-	3	375	c.179T>G	c.(178-180)CTT>CGT	p.L60R		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	60											0						CAGCACTTGAAGTTTCCATCT	0.458													36	221					0	0	1	0	0		C	12887678	C	C	12887678	3	2	188	1	0	0	0	0	1	0	0	0	12449	72	3	5	1139	5	PRAMEF11	1	12887678	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1699543	12887678	236362943	4	93719											
PUM1	9698	broad.mit.edu	37	chr1	31414062	31414062	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctgctacaattttgctttTatcctcaggacgaccgtgct	7	16	7	11	2	2	0	1	0	1	0	3	2	3	1	2	1	4	3	2	1	3	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:31414062T>A	uc001bsi.1	-	20	3285	c.3172A>T	c.(3172-3174)AAA>TAA	p.K1058*	PUM1_uc001bsf.1_Nonsense_Mutation_p.K726*|PUM1_uc001bsg.1_Nonsense_Mutation_p.K792*|PUM1_uc001bsh.1_Nonsense_Mutation_p.K1060*|PUM1_uc001bsj.1_Nonsense_Mutation_p.K1034*|PUM1_uc010oga.1_Nonsense_Mutation_p.K916*|PUM1_uc001bsk.1_Nonsense_Mutation_p.K1096*|PUM1_uc010ogb.1_Nonsense_Mutation_p.K999*|SNORD103A_uc009vts.1_Intron	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	1058	PUM-HD.|Pumilio 6.				cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		ATTTTGCTTTTATCCTCAGGA	0.383													18	114					0	0	1	0	0		A	31414062	A	A	31414062	4	1	188	1	0	0	0	0	0	1	0	0	12850	1763	61	5	400	5	PUM1	1	31414062	Nonsense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	18526384	31414062	217836559	5	93720											
CACHD1	57685	broad.mit.edu	37	chr1	65157095	65157095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtcgatgtgggaaaccatGatgaggacttagacctggat	11	9	15	6	1	0	3	0	2	0	1	1	7	0	6	2	4	1	0	2	4	2	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:65157095G>A	uc001dbo.1	+	27	3628	c.3523G>A	c.(3523-3525)GAT>AAT	p.D1175N	CACHD1_uc001dbp.1_Missense_Mutation_p.D930N|CACHD1_uc001dbq.1_Missense_Mutation_p.D930N|CACHD1_uc010opa.1_Missense_Mutation_p.D419N	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	1226	Cytoplasmic (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						GGGAAACCATGATGAGGACTT	0.522													14	108					0	0	1	0	0		A	65157095	A	A	65157095	3	1	188	1	0	0	0	0	1	0	0	0	2540	1290	45	4	3629	4	CACHD1	1	65157095	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	33743033	65157095	184093526	6	93721											
PDE4B	5142	broad.mit.edu	37	chr1	66827326	66827326	+	Silent	SNP	T	C	C	0	1	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	aatgatgtggagatcccatcTcctacccagaaagacaggga	14	7	10	10	0	1	4	0	1	1	3	3	6	2	5	3	2	1	0	3	2	3	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:66827326T>C	uc001dcn.2	+	10	1061	c.870T>C	c.(868-870)TCT>TCC	p.S290S	PDE4B_uc009war.2_Silent_p.S198S|PDE4B_uc001dco.2_Silent_p.S290S|PDE4B_uc001dcp.2_Silent_p.S275S|PDE4B_uc001dcq.2_Silent_p.S118S|PDE4B_uc009was.2_Silent_p.S57S	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	290					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	AGATCCCATCTCCTACCCAGA	0.393													12	50					0	0	1	0	0		C	66827326	C	C	66827326	2	2	188	1	0	0	0	0	0	0	0	1	11659	1538	54	3		3	PDE4B	1	66827326	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1670231	66827326	182423295	7	93722											
LRRIQ3	127255	broad.mit.edu	37	chr1	74621436	74621436	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaaattttttctaactaAgaaaccacgtatccatcttt	13	15	2	11	1	3	1	1	0	2	1	4	1	4	1	3	0	2	1	3	0	5	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:74621436A>C	uc001dfy.3	-	4	880	c.688T>G	c.(688-690)TTA>GTA	p.L230V	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	230	IQ.									ovary(2)	2						TTTCTAACTAAGAAACCACGT	0.259													5	52					0	0	1	0	0		C	74621436	C	C	74621436	3	2	188	1	0	0	0	0	1	0	0	0	9048	69	3	5	1206	5	LRRIQ3	1	74621436	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	7794110	74621436	174629185	8	93723											
LRRIQ3	127255	broad.mit.edu	37	chr1	74621467	74621467	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccatctttgaacaatcaaAactggtgaattatgagccag	15	11	7	8	0	2	3	1	3	1	0	3	3	3	3	2	1	3	0	2	1	6	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:74621467A>C	uc001dfy.3	-	4	849	c.657T>G	c.(655-657)GTT>GTG	p.V219V	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	219	IQ.									ovary(2)	2						GAACAATCAAAACTGGTGAAT	0.269													4	47					0	0	1	0	0		C	74621467	C	C	74621467	2	2	188	1	0	0	0	0	0	0	0	1	9048	1	1	5		5	LRRIQ3	1	74621467	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	31	74621467	174629154	9	93724											
ELTD1	64123	broad.mit.edu	37	chr1	79387375	79387376	+	Nonsense_Mutation	DNP	AG	GT	GT																															tgaggtgtgggtctcatttgAgtatgtcagctcacagccct																										TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:79387375_79387376AG>GT	uc001diq.3	-	9	1335_1336	c.1179_1180CT>AC	c.(1177-1182)TACTCA>TAACCA	p.393_394YS>*P		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	393_394	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		GTCTCATTTGAGTATGTCAGCT	0.436													19	82					0	0	1	0	0		GT	79387376	GT	GT	79387375	4	3	188	1	0	0	0	0	0	1	0	0	5092	304	11	3	920	3	ELTD1	1	79387375	Nonsense_Mutation	DNP	AG	TCGA-D7-A4Z0-01A-22D-A25D-08	4765908	79387375	169863246	10	93725											
COL11A1	1301	broad.mit.edu	37	chr1	103449740	103449740	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtaatcctggaactccaAgttttccctacagttaaaat	12	13	6	10	0	0	0	0	0	0	0	3	1	3	1	3	2	2	3	3	2	6	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:103449740A>T	uc001dul.2	-	31	2828	c.2510T>A	c.(2509-2511)CTT>CAT	p.L837H	COL11A1_uc001duk.2_Missense_Mutation_p.L28M|COL11A1_uc001dum.2_Missense_Mutation_p.L849H|COL11A1_uc001dun.2_Missense_Mutation_p.L798H|COL11A1_uc009weh.2_Missense_Mutation_p.L721H	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	837	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		TGGAACTCCAAGTTTTCCCTA	0.209													6	30					0	0	1	0	0		T	103449740	T	T	103449740	3	4	188	1	0	0	0	0	1	0	0	0	3670	72	3	5	3058	5	COL11A1	1	103449740	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	24062365	103449740	145800881	11	93726											
NTNG1	22854	broad.mit.edu	37	chr1	108023350	108023350	+	Missense_Mutation	SNP	A	G	G	1	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	ctgcgagaagctgcggtgcgAggaggctggcagctgcggct	6	6	19	10	4	0	1	0	0	0	1	0	4	0	2	0	5	6	5	0	5	1	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:108023350A>G	uc001dvh.3	+	8	2226	c.1508A>G	c.(1507-1509)GAG>GGG	p.E503G	NTNG1_uc001dvf.3_Missense_Mutation_p.E444G|NTNG1_uc010out.1_Missense_Mutation_p.E469G|NTNG1_uc001dvc.3_Missense_Mutation_p.E402G|NTNG1_uc001dvi.2_Missense_Mutation_p.R71G|NTNG1_uc001dve.2_RNA|NTNG1_uc009wek.2_RNA|NTNG1_uc001dvg.2_RNA|NTNG1_uc009wem.2_Silent_p.R65R	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	503					axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CTGCGGTGCGAGGAGGCTGGC	0.716													6	24					0	0	1	0	0		G	108023350	G	G	108023350	3	3	188	1	0	0	0	0	1	0	0	0	10723	304	11	3	1668	3	NTNG1	1	108023350	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	4573610	108023350	141227271	12	93727											
HSD3B2	3284	broad.mit.edu	37	chr1	119958041	119958041	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	ctgctactttggattggccaCgatgggctggagctgccttg	5	12	14	10	1	0	0	0	0	0	0	0	3	0	2	2	4	4	3	2	4	1	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:119958041C>T	uc001ehs.2	+	1	772	c.-1C>T	c.(-3-1)CACGA>CATGA		HSD3B2_uc001eht.2_Translation_Start_Site|HSD3B2_uc001ehu.2_Translation_Start_Site	NM_000198	NP_000189	P26439	3BHS2_HUMAN	3 beta-hydroxysteroid dehydrogenase 2						androgen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.015)|LUSC - Lung squamous cell carcinoma(189;0.0836)	NADH(DB00157)|Trilostane(DB01108)	GGATTGGCCACGATGGGCTGG	0.542													11	61					0	0	1	0	0		T	119958041	T	T	119958041	1	4	188	1	0	0	0	0	0	0	0	0	7407	551	19	1		1	HSD3B2	1	119958041	Translation_Start_Site	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	11934691	119958041	129292580	13	93728											
S100A7A	338324	broad.mit.edu	37	chr1	153390570	153390570	+	Silent	SNP	T	A	A	0	1	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	aaagcaaagatgagcaacacTcaagctgagaggtccataat	18	6	9	8	0	1	3	1	2	0	2	2	4	2	3	1	1	4	3	1	1	5	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:153390570T>A	uc001fbt.1	+	2	69	c.12T>A	c.(10-12)ACT>ACA	p.T4T		NM_176823	NP_789793	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7-like 1	4						cytoplasm	calcium ion binding			skin(1)	1	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			TGAGCAACACTCAAGCTGAGA	0.423													15	127					0	0	1	0	0		A	153390570	A	A	153390570	2	1	188	1	0	0	0	0	0	0	0	1	13809	1538	54	5		5	S100A7A	1	153390570	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	33432529	153390570	95860051	14	93729											
KIRREL	55243	broad.mit.edu	37	chr1	158064484	158064484	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccatgaagaccgcccgtcTtccagggcagtgctctatgc	7	8	11	15	2	2	2	0	1	2	1	3	2	3	2	4	1	2	2	4	1	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:158064484T>C	uc001frn.3	+	15	2252	c.1848T>C	c.(1846-1848)TCT>TCC	p.S616S	KIRREL_uc010pib.1_Silent_p.S516S|KIRREL_uc009wsq.2_Silent_p.S452S|KIRREL_uc001fro.3_Silent_p.S430S|uc001frp.2_5'Flank	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	616	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					ACCGCCCGTCTTCCAGGGCAG	0.647													13	63					0	0	1	0	0		C	158064484	C	C	158064484	2	2	188	1	0	0	0	0	0	0	0	1	8340	1596	56	3		3	KIRREL	1	158064484	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4673914	158064484	91186137	15	93730											
CD1D	912	broad.mit.edu	37	chr1	158151310	158151310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcgccaatagcagctggacgCgcaccgacggcttggcgtgg	7	6	15	13	6	0	0	0	0	0	0	1	2	0	1	2	4	2	4	2	4	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:158151310C>T	uc001frr.2	+	3	626	c.127C>T	c.(127-129)CGC>TGC	p.R43C	CD1D_uc009wsr.1_Missense_Mutation_p.R43C|CD1D_uc009wss.2_Missense_Mutation_p.R43C|CD1D_uc009wst.1_5'UTR	NM_001766	NP_001757	P15813	CD1D_HUMAN	CD1D antigen precursor	43	Extracellular (Potential).				antigen processing and presentation, endogenous lipid antigen via MHC class Ib|detection of bacterium|innate immune response|interspecies interaction between organisms|positive regulation of innate immune response|T cell selection	endosome membrane|integral to plasma membrane|lysosomal membrane	beta-2-microglobulin binding|exogenous lipid antigen binding|histone binding			ovary(1)	1	all_hematologic(112;0.0378)					CAGCTGGACGCGCACCGACGG	0.627													39	249					0	0	1	0	0		T	158151310	T	T	158151310	3	4	188	1	0	0	0	0	1	0	0	0	2980	768	27	1	133	1	CD1D	1	158151310	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	86826	158151310	91099311	16	93731											
OR10T2	128360	broad.mit.edu	37	chr1	158368853	158368853	+	Missense_Mutation	SNP	A	G	G	1	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	ccagccttttgtttatgatgAgtgtgtacctcagagggtga	8	14	12	7	0	1	4	1	3	0	1	1	4	1	4	3	1	2	2	3	1	2	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:158368853A>G	uc010pih.1	-	1	404	c.404T>C	c.(403-405)CTC>CCC	p.L135P		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					GTTTATGATGAGTGTGTACCT	0.463													10	130					0	0	1	0	0		G	158368853	G	G	158368853	3	3	188	1	0	0	0	0	1	0	0	0	10938	304	11	3	542	3	OR10T2	1	158368853	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	217543	158368853	90881768	17	93732											
SPTA1	6708	broad.mit.edu	37	chr1	158585082	158585082	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggtcccactgctgagccaAtccaatggtgctgtatttga	8	12	10	11	0	0	2	0	2	0	0	2	2	2	2	3	2	3	3	3	2	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:158585082A>C	uc001fst.1	-	48	6911	c.6712T>G	c.(6712-6714)TTG>GTG	p.L2238V		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2238	Spectrin 21.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TGCTGAGCCAATCCAATGGTG	0.537													38	176					0	0	1	0	0		C	158585082	C	C	158585082	3	2	188	1	0	0	0	0	1	0	0	0	15141	98	4	5	567	5	SPTA1	1	158585082	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	216229	158585082	90665539	18	93733											
SPTA1	6708	broad.mit.edu	37	chr1	158612297	158612297	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctcagatcggccatcgacTtcatgtgcaaaggtctggtg	8	11	12	10	2	3	1	2	0	1	1	5	2	3	1	1	3	2	2	1	3	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:158612297T>G	uc001fst.1	-	33	4840	c.4641A>C	c.(4639-4641)GAA>GAC	p.E1547D		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1547	Spectrin 15.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GGCCATCGACTTCATGTGCAA	0.423													19	70					0	0	1	0	0		G	158612297	G	G	158612297	3	3	188	1	0	0	0	0	1	0	0	0	15141	1606	56	5	2698	5	SPTA1	1	158612297	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	27215	158612297	90638324	19	93734											
LY9	4063	broad.mit.edu	37	chr1	160793532	160793532	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcactccatatgtcacggaAgttgagtctgtggttggaga	9	12	13	7	1	3	2	2	1	1	1	4	4	4	3	1	3	0	2	1	3	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:160793532A>C	uc001fwu.2	+	8	1826	c.1776A>C	c.(1774-1776)GAA>GAC	p.E592D	LY9_uc001fwv.2_Missense_Mutation_p.E578D|LY9_uc001fww.2_Missense_Mutation_p.E502D|LY9_uc001fwx.2_Missense_Mutation_p.E502D|LY9_uc001fwy.1_Missense_Mutation_p.E390D|LY9_uc001fwz.2_Missense_Mutation_p.E230D	NM_002348	NP_002339	Q9HBG7	LY9_HUMAN	lymphocyte antigen 9 isoform a	592	Cytoplasmic (Potential).				cell adhesion|immunoglobulin mediated immune response	integral to membrane				ovary(1)	1	all_cancers(52;2.72e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			ATGTCACGGAAGTTGAGTCTG	0.517													28	152					0	0	1	0	0		C	160793532	C	C	160793532	3	2	188	1	0	0	0	0	1	0	0	0	9119	69	3	5	1938	5	LY9	1	160793532	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	2181235	160793532	88457089	20	93735											
HMCN1	83872	broad.mit.edu	37	chr1	186026528	186026528	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcaattctgtgaggattcTttcaggtattagaaattctg	11	16	9	5	0	4	2	1	1	3	1	4	3	4	3	0	2	1	2	0	2	5	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:186026528T>G	uc001grq.1	+	46	7536	c.7307T>G	c.(7306-7308)CTT>CGT	p.L2436R		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2436	Ig-like C2-type 22.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GTGAGGATTCTTTCAGGTATT	0.383													16	81					0	0	1	0	0		G	186026528	G	G	186026528	3	3	188	1	0	0	0	0	1	0	0	0	7236	1609	56	5	7489	5	HMCN1	1	186026528	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	25232996	186026528	63224093	21	93736											
HMCN1	83872	broad.mit.edu	37	chr1	186122892	186122892	+	Missense_Mutation	SNP	A	C	C	1	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	ttctccttaggattacacagAggactacattcaaacaggtc	13	11	7	10	0	2	1	1	0	1	1	4	3	2	3	1	3	3	0	1	3	4	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:186122892A>C	uc001grq.1	+	97	15258	c.15029A>C	c.(15028-15030)GAG>GCG	p.E5010A	HMCN1_uc001grs.1_Missense_Mutation_p.E579A	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5010	Nidogen G2 beta-barrel.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GATTACACAGAGGACTACATT	0.458													20	67					0	0	1	0	0		C	186122892	C	C	186122892	3	2	188	1	0	0	0	0	1	0	0	0	7236	304	11	5	15415	5	HMCN1	1	186122892	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	96364	186122892	63127729	22	93737											
CRB1	23418	broad.mit.edu	37	chr1	197390846	197390846	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggtgttgctctgcttaacTtctataatatgccatccaca	10	15	6	10	0	2	0	0	0	2	0	3	0	3	0	2	1	4	3	2	1	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:197390846T>G	uc001gtz.2	+	6	2023	c.1888T>G	c.(1888-1890)TTC>GTC	p.F630V	CRB1_uc010poz.1_Missense_Mutation_p.F561V|CRB1_uc010ppa.1_Intron|CRB1_uc009wza.2_Missense_Mutation_p.F518V|CRB1_uc010ppb.1_Missense_Mutation_p.F630V|CRB1_uc010ppc.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.F111V|CRB1_uc001gub.1_Missense_Mutation_p.F279V	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	630	Extracellular (Potential).|Laminin G-like 1.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						TCTGCTTAACTTCTATAATAT	0.418													19	139					0	0	1	0	0		G	197390846	G	G	197390846	3	3	188	1	0	0	0	0	1	0	0	0	3851	1609	56	5	1910	5	CRB1	1	197390846	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	11267954	197390846	51859775	23	93738											
CACNA1S	779	broad.mit.edu	37	chr1	201039501	201039501	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacgtggtcgggggctcagCgggatctcaggctcatcttc	5	9	16	11	3	4	0	3	0	2	0	7	2	4	2	0	6	1	2	0	6	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:201039501C>T	uc001gvv.2	-	17	2486	c.2259G>A	c.(2257-2259)CCG>CCA	p.P753P		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	753	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	GGGGGCTCAGCGGGATCTCAG	0.577													15	83					0	0	1	0	0		T	201039501	T	T	201039501	2	4	188	1	0	0	0	0	0	0	0	1	2550	755	27	1		1	CACNA1S	1	201039501	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	3648655	201039501	48211120	24	93739											
KCNH1	3756	broad.mit.edu	37	chr1	211093380	211093380	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caagacggagcagccggacaActtttagagagctgaacagg	14	5	13	9	2	0	3	0	1	0	2	0	6	0	5	1	3	5	2	1	3	4	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:211093380A>C	uc001hib.2	-	7	1234	c.1064T>G	c.(1063-1065)GTT>GGT	p.V355G	KCNH1_uc001hic.2_Missense_Mutation_p.V328G	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	355	Helical; Voltage-sensor; Name=Segment S4; (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CAGCCGGACAACTTTTAGAGA	0.572													13	74					0	0	1	0	0		C	211093380	C	C	211093380	3	2	188	1	0	0	0	0	1	0	0	0	8047	43	2	5	1925	5	KCNH1	1	211093380	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	10053879	211093380	38157241	25	93740											
FMN2	56776	broad.mit.edu	37	chr1	240370433	240370433	+	Missense_Mutation	SNP	A	G	G	1	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	tccatgcccccctggggctgAaagtggacctcagacaaagt	10	7	11	13	0	1	2	1	1	0	1	2	3	2	3	5	3	1	1	5	3	2	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:240370433A>G	uc010pyd.1	+	5	2546	c.2321A>G	c.(2320-2322)GAA>GGA	p.E774G	FMN2_uc010pye.1_Missense_Mutation_p.E778G	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	774	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCTGGGGCTGAAAGTGGACCT	0.572													6	59					0	0	1	0	0		G	240370433	G	G	240370433	3	3	188	1	0	0	0	0	1	0	0	0	5964	246	9	3	2339	3	FMN2	1	240370433	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	29277053	240370433	8880188	26	93741											
FMN2	56776	broad.mit.edu	37	chr1	240555835	240555835	+	Missense_Mutation	SNP	A	G	G	1	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	aattgaccaagaggcagaggAaaattcactgacagagactc	17	6	10	8	0	1	5	1	2	0	3	2	7	1	6	1	2	0	1	1	2	4	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr1:240555835A>G	uc010pyd.1	+	15	5108	c.4883A>G	c.(4882-4884)GAA>GGA	p.E1628G	FMN2_uc010pye.1_Missense_Mutation_p.E1632G|FMN2_uc010pyf.1_Missense_Mutation_p.E243G|FMN2_uc010pyg.1_Missense_Mutation_p.E224G	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1628	FH2.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GAGGCAGAGGAAAATTCACTG	0.348													16	66					0	0	1	0	0		G	240555835	G	G	240555835	3	3	188	1	0	0	0	0	1	0	0	0	5964	246	9	3	4941	3	FMN2	1	240555835	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	185402	240555835	8694786	27	93742											
SNTG2	54221	broad.mit.edu	37	chr2	1271173	1271173	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgctggttgcaagcaaacTtgtatctgggtcttcaagat	10	13	10	8	0	3	1	1	0	2	1	3	1	3	1	0	2	4	5	0	2	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:1271173T>G	uc002qwq.2	+	14	1242	c.1114T>G	c.(1114-1116)TTG>GTG	p.L372V	SNTG2_uc010ewi.2_Missense_Mutation_p.L245V	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	372	PH.				central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		GCAAGCAAACTTGTATCTGGG	0.522													3	10					0	0	1	0	0		G	1271173	G	G	1271173	3	3	188	1	0	0	0	0	1	0	0	0	14900	1606	56	5	1168	5	SNTG2	2	1271173	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		1271173	241928200	28	93743											
POMC	5443	broad.mit.edu	37	chr2	25384357	25384357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaggagcgcttgccctcgcGcgggcccggcttggcaccat	4	7	15	15	5	0	0	0	0	0	0	1	1	0	1	3	4	2	4	3	4	1	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:25384357G>A	uc002rfy.1	-	4	660	c.397C>T	c.(397-399)CGC>TGC	p.R133C	POMC_uc002rfz.1_Missense_Mutation_p.R133C|POMC_uc002rga.1_Missense_Mutation_p.R133C	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	133					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	TTGCCCTCGCGCGGGCCCGGC	0.716													4	19					0	0	1	0	0		A	25384357	A	A	25384357	3	1	188	1	0	0	0	0	1	0	0	0	12261	1087	38	1	410	1	POMC	2	25384357	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	24113184	25384357	217815016	29	93744											
C2orf39	92749	broad.mit.edu	37	chr2	26671585	26671585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcagaagaggccgccGcggaaccagagtcctacctg	11	3	15	12	3	0	3	0	0	0	3	1	5	1	5	5	4	2	1	5	4	3	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:26671585G>A	uc002rhg.2	+	11	1497	c.1423G>A	c.(1423-1425)GCG>ACG	p.A475T		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	475											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGAGGCCGCCGCGGAACCAGA	0.512													20	102					0	0	1	0	0		A	26671585	A	A	26671585	3	1	188	1	0	0	0	0	1	0	0	0	2167	1087	38	1	1465	1	C2orf39	2	26671585	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	1287228	26671585	216527788	30	93745											
GALNT14	79623	broad.mit.edu	37	chr2	31215824	31215824	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttttggcattcagatacCgccgctcatcaaactggtcc	9	12	7	13	2	3	1	3	0	0	1	4	1	4	1	3	2	2	2	3	2	2	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:31215824C>G	uc002rnr.2	-	2	798	c.179G>C	c.(178-180)CGG>CCG	p.R60P	GALNT14_uc002rnq.2_Missense_Mutation_p.R40P|GALNT14_uc002rns.2_Intron|GALNT14_uc010ymr.1_Missense_Mutation_p.R25P|GALNT14_uc010ezo.1_Missense_Mutation_p.R60P|GALNT14_uc010ezp.1_Missense_Mutation_p.R31P	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	60	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					ATTCAGATACCGCCGCTCATC	0.572													7	63					0	0	1	0	0		G	31215824	G	G	31215824	3	3	188	1	0	0	0	0	1	0	0	0	6227	652	23	5	1535	5	GALNT14	2	31215824	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	4544239	31215824	211983549	31	93746											
MAP4K3	8491	broad.mit.edu	37	chr2	39664044	39664044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctttaccttgtagacgtCgccgtaggtgccgctgccga	5	11	12	13	5	0	1	0	0	0	1	1	2	0	1	5	1	4	3	5	1	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:39664044C>T	uc002rro.2	-	1	176	c.85G>A	c.(85-87)GAC>AAC	p.D29N	MAP4K3_uc002rrp.2_Missense_Mutation_p.D29N|uc002rrq.2_Intron|uc002rrr.1_5'Flank	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	29	Protein kinase.|ATP (By similarity).				JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				TTGTAGACGTCGCCGTAGGTG	0.706													3	20					0	0	1	0	0		T	39664044	T	T	39664044	3	4	188	1	0	0	0	0	1	0	0	0	9279	884	31	1	2735	1	MAP4K3	2	39664044	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	8448220	39664044	203535329	32	93747											
SLC8A1	6546	broad.mit.edu	37	chr2	40656259	40656259	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgcatgctgacagccttccTtgcttggtcagctgcatgcc	5	12	11	13	0	1	1	1	1	0	0	2	1	2	1	3	1	7	5	3	1	0	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:40656259T>G	uc002rrx.2	-	1	1186	c.1162A>C	c.(1162-1164)AGG>CGG	p.R388R	SLC8A1_uc002rry.2_Silent_p.R388R|SLC8A1_uc002rrz.2_Silent_p.R388R|SLC8A1_uc002rsa.2_Silent_p.R388R|SLC8A1_uc002rsd.3_Silent_p.R388R|SLC8A1_uc002rsb.1_Silent_p.R388R|SLC8A1_uc010fan.1_Silent_p.R388R|SLC8A1_uc002rsc.1_Silent_p.R388R	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	388	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	ACAGCCTTCCTTGCTTGGTCA	0.448													11	81					0	0	1	0	0		G	40656259	G	G	40656259	2	3	188	1	0	0	0	0	0	0	0	1	14731	1608	56	5		5	SLC8A1	2	40656259	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	992215	40656259	202543114	33	93748											
SLC3A1	6519	broad.mit.edu	37	chr2	44531329	44531329	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagtattgacaggaccgtgaTgtactatggattgccattta	11	13	11	6	1	0	2	0	2	0	0	0	5	0	4	2	2	2	2	2	2	4	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:44531329T>C	uc002ruc.3	+	7	1262	c.1184T>C	c.(1183-1185)ATG>ACG	p.M395T	SLC3A1_uc002rtz.2_Missense_Mutation_p.M395T|SLC3A1_uc002rua.2_Missense_Mutation_p.M395T|SLC3A1_uc002rub.2_Missense_Mutation_p.M395T|SLC3A1_uc002rud.3_Missense_Mutation_p.M117T|SLC3A1_uc002rue.3_Missense_Mutation_p.M15T	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	395	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	AGGACCGTGATGTACTATGGA	0.458													9	113					0	0	1	0	0		C	44531329	C	C	44531329	3	2	188	1	0	0	0	0	1	0	0	0	14651	1464	51	3	1210	3	SLC3A1	2	44531329	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	3875070	44531329	198668044	34	93749											
FSHR	2492	broad.mit.edu	37	chr2	49191058	49191058	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagcctgagtcatataatcaActtcttgccttaaaatagat	14	14	5	8	0	3	2	2	1	1	1	3	2	3	2	2	0	3	0	2	0	7	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:49191058A>C	uc002rww.2	-	10	976	c.902T>G	c.(901-903)GTT>GGT	p.V301G	FSHR_uc002rwx.2_Missense_Mutation_p.V239G|FSHR_uc010fbn.2_Missense_Mutation_p.V275G	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	301	Extracellular (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CATATAATCAACTTCTTGCCT	0.393									Gonadal_Dysgenesis_46_XX				23	133					0	0	1	0	0		C	49191058	C	C	49191058	3	2	188	1	0	0	0	0	1	0	0	0	6087	43	2	5	1189	5	FSHR	2	49191058	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	4659729	49191058	194008315	35	93750											
VPS54	51542	broad.mit.edu	37	chr2	64144075	64144075	+	Silent	SNP	A	G	G	1	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	ccctcgacaataagaacttcAgctggtttcctttcttctgt	8	15	6	12	1	3	1	1	0	2	1	5	2	4	1	2	1	2	2	2	1	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:64144075A>G	uc002scq.2	-	16	2350	c.2187T>C	c.(2185-2187)GCT>GCC	p.A729A	VPS54_uc002scp.2_Silent_p.A717A|VPS54_uc002scn.2_5'UTR|VPS54_uc002sco.2_Silent_p.A214A|VPS54_uc010fct.2_Silent_p.A576A	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	729					protein transport|retrograde transport, endosome to Golgi						0						TAAGAACTTCAGCTGGTTTCC	0.373													8	54					0	0	1	0	0		G	64144075	G	G	64144075	2	3	188	1	0	0	0	0	0	0	0	1	17242	175	7	3		3	VPS54	2	64144075	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	14953017	64144075	179055298	36	93751											
CD207	50489	broad.mit.edu	37	chr2	71058947	71058947	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgctgttttatacagaaActcctgtaggaaagacagga	13	9	9	10	1	0	2	0	0	0	2	1	4	1	4	3	2	2	3	3	2	5	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:71058947A>C	uc002shg.2	-	5	768	c.721T>G	c.(721-723)TTT>GTT	p.F241V		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	241	C-type lectin.|Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						TTATACAGAAACTCCTGTAGG	0.532													9	73					0	0	1	0	0		C	71058947	C	C	71058947	3	2	188	1	0	0	0	0	1	0	0	0	2986	43	2	5	273	5	CD207	2	71058947	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	6914872	71058947	172140426	37	93752											
CD207	50489	broad.mit.edu	37	chr2	71060118	71060118	+	Silent	SNP	A	G	G	1	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	taccaggtctttggaatgagAgaaaagtaatagaagttccc	15	10	10	6	0	1	3	0	1	1	2	2	5	2	4	2	2	1	2	2	2	7	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:71060118A>G	uc002shg.2	-	4	677	c.630T>C	c.(628-630)TCT>TCC	p.S210S		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	210	C-type lectin.|Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						TTGGAATGAGAGAAAAGTAAT	0.468													12	43					0	0	1	0	0		G	71060118	G	G	71060118	2	3	188	1	0	0	0	0	0	0	0	1	2986	291	11	3		3	CD207	2	71060118	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1171	71060118	172139255	38	93753											
EXOC6B	23233	broad.mit.edu	37	chr2	72606879	72606879	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcacattctctgacgtccaAgttgaactgctgtaatgctc	9	14	7	11	1	2	2	1	2	1	0	5	2	3	2	1	0	3	4	1	0	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:72606879A>C	uc010fep.2	-	19	2239	c.2101T>G	c.(2101-2103)TTG>GTG	p.L701V		NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	701					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						CTGACGTCCAAGTTGAACTGC	0.448													5	38					0	0	1	0	0		C	72606879	C	C	72606879	3	2	188	1	0	0	0	0	1	0	0	0	5317	69	3	5	350	5	EXOC6B	2	72606879	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1546761	72606879	170592494	39	93754											
ALMS1	7840	broad.mit.edu	37	chr2	73747132	73747132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaggttactttttctcGcggcacagatggtaagagaa	12	10	10	9	2	1	2	0	0	1	2	2	3	1	2	1	3	2	3	1	3	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:73747132G>A	uc002sje.1	+	13	9884	c.9773G>A	c.(9772-9774)CGC>CAC	p.R3258H	ALMS1_uc002sjf.1_Missense_Mutation_p.R3214H|ALMS1_uc002sjg.2_Missense_Mutation_p.R2644H|ALMS1_uc002sjh.1_Missense_Mutation_p.R2644H|ALMS1_uc010fev.1_Missense_Mutation_p.R73H	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3256					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ACTTTTTCTCGCGGCACAGAT	0.408													7	167					0	0	1	0	0		A	73747132	A	A	73747132	3	1	188	1	0	0	0	0	1	0	0	0	535	1087	38	1	9809	1	ALMS1	2	73747132	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	1140253	73747132	169452241	40	93755											
CNTNAP5	129684	broad.mit.edu	37	chr2	125530496	125530496	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgggctgagaggaacctcaAggagacctccctgcaggtgg	9	5	15	12	1	1	2	1	1	0	2	2	5	2	3	4	5	2	2	4	5	2	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:125530496A>T	uc002tno.2	+	17	3015	c.2651A>T	c.(2650-2652)AAG>ATG	p.K884M	CNTNAP5_uc010flu.2_Missense_Mutation_p.K885M	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	884	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		AGGAACCTCAAGGAGACCTCC	0.547													23	126					0	0	1	0	0		T	125530496	T	T	125530496	3	4	188	1	0	0	0	0	1	0	0	0	3653	72	3	5	2717	5	CNTNAP5	2	125530496	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	51783364	125530496	117668877	41	93756											
THSD7B	80731	broad.mit.edu	37	chr2	137852673	137852673	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcattgttgaaggagaacTtctgcagcaatgtcccaggt	10	11	11	9	0	1	2	0	1	1	1	2	3	2	2	1	2	4	4	1	2	3	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:137852673T>G	uc002tva.1	+	3	1088	c.1088T>G	c.(1087-1089)CTT>CGT	p.L363R	THSD7B_uc010zbj.1_RNA|THSD7B_uc002tvb.2_Missense_Mutation_p.L253R	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		GAAGGAGAACTTCTGCAGCAA	0.443													8	36					0	0	1	0	0		G	137852673	G	G	137852673	3	3	188	1	0	0	0	0	1	0	0	0	15905	1609	56	5	1098	5	THSD7B	2	137852673	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	12322177	137852673	105346700	42	93757											
THSD7B	80731	broad.mit.edu	37	chr2	138169270	138169270	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgatgaatttatatcccaAccttatggaaactggtcaga	13	13	8	7	0	1	3	1	2	0	1	2	4	2	4	2	2	2	0	2	2	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:138169270A>C	uc002tva.1	+	13	2694	c.2694A>C	c.(2692-2694)CAA>CAC	p.Q898H	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.Q788H	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TTATATCCCAACCTTATGGAA	0.473													21	89					0	0	1	0	0		C	138169270	C	C	138169270	3	2	188	1	0	0	0	0	1	0	0	0	15905	40	2	5	2744	5	THSD7B	2	138169270	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	316597	138169270	105030103	43	93758											
LRP1B	53353	broad.mit.edu	37	chr2	141641403	141641403	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacccatatcttgggtccaaAgcaatggccctggggtgttc	8	11	11	11	0	1	0	0	0	1	0	3	0	2	0	3	4	2	2	3	4	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:141641403A>T	uc002tvj.1	-	25	5124	c.4152T>A	c.(4150-4152)GCT>GCA	p.A1384A	LRP1B_uc010fnl.1_Silent_p.A566A	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1384	Extracellular (Potential).|LDL-receptor class B 10.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TTGGGTCCAAAGCAATGGCCC	0.388										TSP Lung(27;0.18)			8	95					0	0	1	0	0		T	141641403	T	T	141641403	2	4	188	1	0	0	0	0	0	0	0	1	8973	59	3	5		5	LRP1B	2	141641403	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3472133	141641403	101557970	44	93759											
XIRP2	129446	broad.mit.edu	37	chr2	168103841	168103841	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatagtcttcttcagccaaAgccaggtccatttgagccag	12	10	8	11	0	3	1	1	1	2	0	4	1	4	1	4	1	3	0	4	1	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:168103841A>T	uc002udx.2	+	8	5957	c.5939A>T	c.(5938-5940)AAG>ATG	p.K1980M	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.K1805M|XIRP2_uc010fpq.2_Missense_Mutation_p.K1758M|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1805					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CTTCAGCCAAAGCCAGGTCCA	0.468													5	54					0	0	1	0	0		T	168103841	T	T	168103841	3	4	188	1	0	0	0	0	1	0	0	0	17456	72	3	5	5969	5	XIRP2	2	168103841	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	26462438	168103841	75095532	45	93760											
MYO3B	140469	broad.mit.edu	37	chr2	171242770	171242770	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgattgttcagcatttgacTttcttgggaaaggtattgac	9	16	10	6	0	2	3	1	3	1	0	2	4	2	4	0	2	1	3	0	2	2	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:171242770T>G	uc002ufy.2	+	13	1505	c.1362T>G	c.(1360-1362)ACT>ACG	p.T454T	MYO3B_uc002ufv.2_Silent_p.T441T|MYO3B_uc010fqb.1_Silent_p.T441T|MYO3B_uc002ufz.2_Silent_p.T454T|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	454	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						AGCATTTGACTTTCTTGGGAA	0.443													10	40					0	0	1	0	0		G	171242770	G	G	171242770	2	3	188	1	0	0	0	0	0	0	0	1	10095	1596	56	5		5	MYO3B	2	171242770	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	3138929	171242770	71956603	46	93761											
HOXD3	3232	broad.mit.edu	37	chr2	177036916	177036916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaccaccatggaccttgcGaccctcatcccacctacaca	11	6	4	20	1	1	0	1	0	0	0	2	2	2	1	7	1	2	0	7	1	1	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:177036916G>A	uc002ukt.1	+	3	1389	c.1213G>A	c.(1213-1215)GAC>AAC	p.D405N		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	405					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		TGGACCTTGCGACCCTCATCC	0.652													8	51					0	0	1	0	0		A	177036916	A	A	177036916	3	1	188	1	0	0	0	0	1	0	0	0	7339	1058	37	1	1219	1	HOXD3	2	177036916	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	5794146	177036916	66162457	47	93762											
TTN	7273	broad.mit.edu	37	chr2	179415900	179415900	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatgctatagcccacaatcTtactgcctccatcacgcaat	12	10	4	15	1	2	0	1	0	1	0	3	0	3	0	3	0	4	2	3	0	6	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:179415900T>G	uc010zfg.1	-	285	83878	c.83654A>C	c.(83653-83655)AAG>ACG	p.K27885T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K21580T|TTN_uc010zfi.1_Missense_Mutation_p.K21513T|TTN_uc010zfj.1_Missense_Mutation_p.K21388T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28812							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCCCACAATCTTACTGCCTCC	0.458													14	61					0	0	1	0	0		G	179415900	G	G	179415900	3	3	188	1	0	0	0	0	1	0	0	0	16761	1609	56	5	16729	5	TTN	2	179415900	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2378984	179415900	63783473	48	93763											
TTN	7273	broad.mit.edu	37	chr2	179578774	179578774	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtatttgttgtcacttgTtagctcttttccatccttaa	6	22	5	8	0	2	0	1	0	1	0	4	0	4	0	2	0	1	4	2	0	3	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:179578774T>G	uc010zfg.1	-	89	23103	c.22879A>C	c.(22879-22881)ACA>CCA	p.T7627P	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T4288P	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8554							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGTCACTTGTTAGCTCTTTT	0.428													6	31					0	0	1	0	0		G	179578774	G	G	179578774	3	3	188	1	0	0	0	0	1	0	0	0	16761	1725	60	5	78002	5	TTN	2	179578774	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	162874	179578774	63620599	49	93764											
TTN	7273	broad.mit.edu	37	chr2	179613894	179613894	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagtcactttgggcacattcTtgtacattttccttttctga	7	19	6	9	0	3	1	1	1	2	0	4	1	4	1	1	1	1	2	1	1	2	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:179613894T>C	uc002unb.2	-	46	13457	c.13233A>G	c.(13231-13233)CAA>CAG	p.Q4411Q	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGGCACATTCTTGTACATTTT	0.313													7	49					0	0	1	0	0		C	179613894	C	C	179613894	2	2	188	1	0	0	0	0	0	0	0	1	16761	1606	56	3		3	TTN	2	179613894	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	35120	179613894	63585479	50	93765											
TTN	7273	broad.mit.edu	37	chr2	179616053	179616053	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtctccttgtccaggaaacTttcacctacattaagccaac	11	11	6	13	0	2	0	1	0	1	0	4	1	3	1	4	2	4	0	4	2	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:179616053T>G	uc002unb.2	-	46	11298	c.11074A>C	c.(11074-11076)AGT>CGT	p.S3692R	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCCAGGAAACTTTCACCTACA	0.338													14	61					0	0	1	0	0		G	179616053	G	G	179616053	3	3	188	1	0	0	0	0	1	0	0	0	16761	1609	56	5	99223	5	TTN	2	179616053	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2159	179616053	63583320	51	93766											
DNAH7	56171	broad.mit.edu	37	chr2	196771459	196771459	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacagcacatgtggggtcaAgttttagttcagttccttca	10	13	10	8	0	3	1	3	0	0	1	4	1	4	1	1	2	1	4	1	2	2	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:196771459A>C	uc002utj.3	-	27	4360	c.4259T>G	c.(4258-4260)CTT>CGT	p.L1420R		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	1420	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGTGGGGTCAAGTTTTAGTTC	0.378													9	65					0	0	1	0	0		C	196771459	C	C	196771459	3	2	188	1	0	0	0	0	1	0	0	0	4612	72	3	5	7971	5	DNAH7	2	196771459	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	17155406	196771459	46427914	52	93767											
MAP2	4133	broad.mit.edu	37	chr2	210561388	210561388	+	Missense_Mutation	SNP	A	G	G	1	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	aaaagccttttaaaaccgggAgaggcagaatttccactcct	14	9	8	10	1	0	2	0	0	0	2	2	3	2	2	4	2	2	1	4	2	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:210561388A>G	uc002vde.1	+	8	4551	c.4303A>G	c.(4303-4305)AGA>GGA	p.R1435G	MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.R1431G	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1435					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TAAAACCGGGAGAGGCAGAAT	0.383													11	58					0	0	1	0	0		G	210561388	G	G	210561388	3	3	188	1	0	0	0	0	1	0	0	0	9253	296	11	3	4321	3	MAP2	2	210561388	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	13789929	210561388	32637985	53	93768											
ERBB4	2066	broad.mit.edu	37	chr2	212248599	212248599	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcattgacagtatgttgttcTtcaggtactcagcttttccc	7	16	8	10	0	3	1	2	1	1	0	4	1	4	1	1	1	2	6	1	1	2	8			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:212248599T>A	uc002veg.1	-	28	3766	c.3668A>T	c.(3667-3669)AAG>ATG	p.K1223M	ERBB4_uc002veh.1_Missense_Mutation_p.K1207M|ERBB4_uc010zji.1_Missense_Mutation_p.K1213M|ERBB4_uc010zjj.1_Missense_Mutation_p.K1197M	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1223	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TATGTTGTTCTTCAGGTACTC	0.517										TSP Lung(8;0.080)			24	178					0	0	1	0	0		A	212248599	A	A	212248599	3	1	188	1	0	0	0	0	1	0	0	0	5217	1609	56	5	262	5	ERBB4	2	212248599	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1687211	212248599	30950774	54	93769											
ERBB4	2066	broad.mit.edu	37	chr2	212426795	212426795	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggtgtggatgatccatacTtgccatgatcagagcttcct	9	13	10	9	0	1	3	1	2	0	1	3	4	3	4	3	2	3	1	3	2	2	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:212426795T>C	uc002veg.1	-	20	2418	c.2320A>G	c.(2320-2322)AGT>GGT	p.S774G	ERBB4_uc002veh.1_Missense_Mutation_p.S774G|ERBB4_uc010zji.1_Missense_Mutation_p.S764G|ERBB4_uc010zjj.1_Missense_Mutation_p.S764G|ERBB4_uc010fut.1_Missense_Mutation_p.S774G	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	774	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TGATCCATACTTGCCATGATC	0.438										TSP Lung(8;0.080)			11	77					0	0	1	0	0		C	212426795	C	C	212426795	3	2	188	1	0	0	0	0	1	0	0	0	5217	1609	56	3	1642	3	ERBB4	2	212426795	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	178196	212426795	30772578	55	93770											
ERBB4	2066	broad.mit.edu	37	chr2	212483974	212483974	+	Silent	SNP	A	G	G	1	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	atagccacaggaatcttcacAgtttctccttcaggtaccca	11	11	6	13	0	4	0	2	0	2	0	5	1	4	1	3	2	2	2	3	2	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:212483974A>G	uc002veg.1	-	19	2327	c.2229T>C	c.(2227-2229)ACT>ACC	p.T743T	ERBB4_uc002veh.1_Silent_p.T743T|ERBB4_uc010zji.1_Silent_p.T733T|ERBB4_uc010zjj.1_Silent_p.T733T|ERBB4_uc010fut.1_Silent_p.T743T	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	743	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		GAATCTTCACAGTTTCTCCTT	0.373										TSP Lung(8;0.080)			9	44					0	0	1	0	0		G	212483974	G	G	212483974	2	3	188	1	0	0	0	0	0	0	0	1	5217	175	7	3		3	ERBB4	2	212483974	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	57179	212483974	30715399	56	93771											
TMEM198	130612	broad.mit.edu	37	chr2	220409502	220409502	+	Missense_Mutation	SNP	A	G	G	1	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	gctgctgccccctgagccagAtgatgccttctggggtgcac	5	9	13	14	0	1	3	0	2	1	1	1	3	1	3	4	2	5	3	4	2	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:220409502A>G	uc002vme.2	+	3	638	c.53A>G	c.(52-54)GAT>GGT	p.D18G	CHPF_uc010zlh.1_5'Flank|CHPF_uc002vmc.3_5'Flank|CHPF_uc002vmd.3_5'Flank|TMEM198_uc002vmf.2_Missense_Mutation_p.D18G	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	18						integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CCTGAGCCAGATGATGCCTTC	0.597													14	85					0	0	1	0	0		G	220409502	G	G	220409502	3	3	188	1	0	0	0	0	1	0	0	0	16144	333	12	3	55	3	TMEM198	2	220409502	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	7925528	220409502	22789871	57	93772											
DOCK10	55619	broad.mit.edu	37	chr2	225702525	225702525	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagctgctcctcatggcacTtggccacaatgtcggtcaga	8	9	10	14	1	2	1	2	0	0	1	4	1	3	1	3	3	2	3	3	3	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:225702525T>A	uc010fwz.1	-	25	3043	c.2804A>T	c.(2803-2805)AAG>ATG	p.K935M	DOCK10_uc002vob.2_Missense_Mutation_p.K929M	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	935							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CTCATGGCACTTGGCCACAAT	0.468													13	43					0	0	1	0	0		A	225702525	A	A	225702525	3	1	188	1	0	0	0	0	1	0	0	0	4691	1609	56	5	3884	5	DOCK10	2	225702525	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	5293023	225702525	17496848	58	93773											
KIAA1486	57624	broad.mit.edu	37	chr2	226447427	226447427	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccccatggctaccctaaaAgtcactccacctctccctcc	8	9	3	21	0	2	0	1	0	1	0	6	0	5	0	7	1	1	1	7	1	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:226447427A>G	uc002voe.2	+	4	1469	c.1294A>G	c.(1294-1296)AGT>GGT	p.S432G	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.S202G	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	432	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CTACCCTAAAAGTCACTCCAC	0.667													4	22					0	0	1	0	0		G	226447427	G	G	226447427	3	3	188	1	0	0	0	0	1	0	0	0	8253	72	3	3	1304	3	KIAA1486	2	226447427	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	744902	226447427	16751946	59	93774											
COL4A4	1286	broad.mit.edu	37	chr2	227953493	227953493	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcctggagggccaggggggCccatgggtccaggctcacag	6	5	18	12	0	1	0	1	0	0	0	3	1	3	1	4	7	0	1	4	7	0	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:227953493C>A	uc010zlt.1	-	22	2153	c.1499G>T	c.(1498-1500)GGC>GTC	p.G500V		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	500	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GCCAGGGGGGCCCATGGGTCC	0.557													13	95					1.61879e-10	1.65217e-10	1	1	0		A	227953493	A	A	227953493	3	1	188	1	0	0	0	0	1	0	0	0	3696	739	26	5	3681	5	COL4A4	2	227953493	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	1506066	227953493	15245880	60	93775											
SPHKAP	80309	broad.mit.edu	37	chr2	228886451	228886451	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctagattcatccacctcgcTttcctcctccaagtgctcag	7	12	5	17	1	2	1	2	0	0	1	7	1	6	1	6	0	1	2	6	0	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr2:228886451T>C	uc002vpq.2	-	6	720	c.673A>G	c.(673-675)AGC>GGC	p.S225G	SPHKAP_uc002vpp.2_Missense_Mutation_p.S225G|SPHKAP_uc010zlx.1_Missense_Mutation_p.S225G	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	225						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TCCACCTCGCTTTCCTCCTCC	0.438													13	60					0	0	1	0	0		C	228886451	C	C	228886451	3	2	188	1	0	0	0	0	1	0	0	0	15073	1609	56	3	4457	3	SPHKAP	2	228886451	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	932958	228886451	14312922	61	93776											
GRM7	2917	broad.mit.edu	37	chr3	7456743	7456743	+	Missense_Mutation	SNP	A	C	C	1	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	ctttacgtcccgtacacttgAaaacaacagaagaaatgtat	16	10	6	9	2	0	3	0	1	0	2	1	3	1	3	1	0	4	2	1	0	8	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:7456743A>C	uc003bqm.2	+	5	1341	c.1067A>C	c.(1066-1068)GAA>GCA	p.E356A	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.E356A|GRM7_uc003bql.2_Missense_Mutation_p.E356A|GRM7_uc003bqn.1_5'UTR	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	356	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	CGTACACTTGAAAACAACAGA	0.403													7	35					0	0	1	0	0		C	7456743	C	C	7456743	3	2	188	1	0	0	0	0	1	0	0	0	6818	246	9	5	1085	5	GRM7	3	7456743	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		7456743	190565687	62	93777											
GRM7	2917	broad.mit.edu	37	chr3	7721845	7721845	+	Missense_Mutation	SNP	T	C	C	0	1	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	catcattttccaccctgaacTcaatgtccagaaacggaagc	13	9	6	13	1	2	2	2	1	0	1	4	3	4	3	3	1	3	0	3	1	4	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:7721845T>C	uc003bqm.2	+	9	2835	c.2561T>C	c.(2560-2562)CTC>CCC	p.L854P	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.L854P|GRM7_uc003bql.2_Missense_Mutation_p.L854P|GRM7_uc003bqn.1_Missense_Mutation_p.L437P	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	854	Cytoplasmic (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	CACCCTGAACTCAATGTCCAG	0.507													11	67					0	0	1	0	0		C	7721845	C	C	7721845	3	2	188	1	0	0	0	0	1	0	0	0	6818	1551	54	3	2595	3	GRM7	3	7721845	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	265102	7721845	190300585	63	93778											
OXSM	54995	broad.mit.edu	37	chr3	25833414	25833414	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagcccggatctatgcagaAgttttgggctatggactctc	9	11	12	9	1	2	2	0	0	2	2	3	4	2	4	1	3	2	3	1	3	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:25833414A>C	uc003cdn.2	+	2	1010	c.903A>C	c.(901-903)GAA>GAC	p.E301D	NGLY1_uc011awo.1_5'Flank|OXSM_uc011awp.1_Missense_Mutation_p.E26D|OXSM_uc010hfh.2_Intron	NM_017897	NP_060367	Q9NWU1	OXSM_HUMAN	3-oxoacyl-ACP synthase, mitochondrial isoform 1	301					acyl-CoA metabolic process|medium-chain fatty acid biosynthetic process|short-chain fatty acid biosynthetic process	mitochondrion	3-oxoacyl-[acyl-carrier-protein] synthase activity			ovary(1)|breast(1)	2						TCTATGCAGAAGTTTTGGGCT	0.463													10	58					0	0	1	0	0		C	25833414	C	C	25833414	3	2	188	1	0	0	0	0	1	0	0	0	11354	69	3	5	905	5	OXSM	3	25833414	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	18111569	25833414	172189016	64	93779											
ARPP21	10777	broad.mit.edu	37	chr3	35778853	35778853	+	Missense_Mutation	SNP	A	G	G	1	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	ggcaggccctctggtcactcAggtagggggctggttggaag	6	8	18	9	0	3	0	2	0	1	0	3	1	3	1	1	8	0	4	1	8	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:35778853A>G	uc003cgb.2	+	16	1907	c.1643A>G	c.(1642-1644)CAG>CGG	p.Q548R	ARPP21_uc003cga.2_Missense_Mutation_p.Q494R|ARPP21_uc011axy.1_Missense_Mutation_p.Q514R|ARPP21_uc003cgf.2_Missense_Mutation_p.Q349R|ARPP21_uc003cgg.2_Missense_Mutation_p.Q36R	NM_016300	NP_057384	Q9UBL0	ARP21_HUMAN	cyclic AMP-regulated phosphoprotein, 21 kD	548	Gln-rich.					cytoplasm	nucleic acid binding			ovary(2)|skin(1)	3						CTGGTCACTCAGGTAGGGGGC	0.602													6	32					0	0	1	0	0		G	35778853	G	G	35778853	3	3	188	1	0	0	0	0	1	0	0	0	979	202	7	3	1710	3	ARPP21	3	35778853	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	9945439	35778853	162243577	65	93780											
SCN10A	6336	broad.mit.edu	37	chr3	38739228	38739228	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaagattagttgccataaacTtctcctccatatttgccttc	11	15	4	11	0	1	1	0	0	1	1	4	1	2	1	4	0	3	1	4	0	5	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:38739228T>G	uc003ciq.2	-	27	5483	c.5483A>C	c.(5482-5484)AAG>ACG	p.K1828T		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1828					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TGCCATAAACTTCTCCTCCAT	0.433													8	97					0	0	1	0	0		G	38739228	G	G	38739228	3	3	188	1	0	0	0	0	1	0	0	0	13937	1609	56	5	391	5	SCN10A	3	38739228	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2960375	38739228	159283202	66	93781											
CNTN3	5067	broad.mit.edu	37	chr3	74350894	74350894	+	Missense_Mutation	SNP	A	G	G	1	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	gtctttaccttctttccaagAgagttgggctgttgtgtctg	5	17	11	8	0	3	1	0	0	3	1	4	2	4	1	2	1	1	3	2	1	2	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:74350894A>G	uc003dpm.1	-	14	1929	c.1849T>C	c.(1849-1851)TCT>CCT	p.S617P		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	617	Fibronectin type-III 1.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TCTTTCCAAGAGAGTTGGGCT	0.453													10	73					0	0	1	0	0		G	74350894	G	G	74350894	3	3	188	1	0	0	0	0	1	0	0	0	3645	304	11	3	1273	3	CNTN3	3	74350894	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	35611666	74350894	123671536	67	93782											
ROBO2	6092	broad.mit.edu	37	chr3	77530266	77530266	+	Missense_Mutation	SNP	T	C	C	0	1	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	acagatccgtggtggaaaacTgatgatctccaataccagga	14	8	10	9	1	1	3	0	2	1	1	3	5	2	5	3	3	2	0	3	3	4	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:77530266T>C	uc003dpy.3	+	4	1206	c.563T>C	c.(562-564)CTG>CCG	p.L188P	ROBO2_uc003dpz.2_Missense_Mutation_p.L188P|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.L188P	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	188	Ig-like C2-type 2.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		GGTGGAAAACTGATGATCTCC	0.313													22	82					0	0	1	0	0		C	77530266	C	C	77530266	3	2	188	1	0	0	0	0	1	0	0	0	13539	1580	55	3	579	3	ROBO2	3	77530266	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	3179372	77530266	120492164	68	93783											
EPHA6	285220	broad.mit.edu	37	chr3	97356863	97356863	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatagcaacttagtatgcaaAgtttctgattttggtctctc	11	16	7	7	0	2	1	0	1	2	0	4	1	2	1	0	1	3	4	0	1	6	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:97356863A>C	uc010how.1	+	14	2764	c.2721A>C	c.(2719-2721)AAA>AAC	p.K907N	EPHA6_uc011bgp.1_3'UTR|EPHA6_uc003drs.3_Missense_Mutation_p.K299N|EPHA6_uc003drr.3_Missense_Mutation_p.K299N|EPHA6_uc003drt.2_Missense_Mutation_p.K299N|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	812	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity	p.K813N(1)		stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						TAGTATGCAAAGTTTCTGATT	0.403													15	65					0	0	1	0	0		C	97356863	C	C	97356863	3	2	188	1	0	0	0	0	1	0	0	0	5179	69	3	5	2843	5	EPHA6	3	97356863	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	19826597	97356863	100665567	69	93784											
EPHA6	285220	broad.mit.edu	37	chr3	97454923	97454923	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttgacaaactgatccgaaAtcccagtgcccttcacaccc	11	8	5	17	1	1	2	1	2	0	0	3	3	3	2	5	0	2	0	5	0	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:97454923A>C	uc010how.1	+	16	3132	c.3089A>C	c.(3088-3090)AAT>ACT	p.N1030T	EPHA6_uc003drt.2_Missense_Mutation_p.N422T|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	935	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CTGATCCGAAATCCCAGTGCC	0.443													5	43					0	0	1	0	0		C	97454923	C	C	97454923	3	2	188	1	0	0	0	0	1	0	0	0	5179	101	4	5	3268	5	EPHA6	3	97454923	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	98060	97454923	100567507	70	93785											
SI	6476	broad.mit.edu	37	chr3	164735642	164735642	+	Silent	SNP	A	C	C	1	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	gtacggtaagttagagcaggAgttggctggaatgtaacatc	12	10	14	5	1	0	1	0	0	0	1	1	3	0	3	0	4	3	7	0	4	5	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:164735642A>C	uc003fei.2	-	30	3602	c.3540T>G	c.(3538-3540)ACT>ACG	p.T1180T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1180	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTAGAGCAGGAGTTGGCTGGA	0.358										HNSCC(35;0.089)			8	110					0	0	1	0	0		C	164735642	C	C	164735642	2	2	188	1	0	0	0	0	0	0	0	1	14322	291	11	5		5	SI	3	164735642	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	67280719	164735642	33286788	71	93786											
SI	6476	broad.mit.edu	37	chr3	164735779	164735779	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgcattgctgttgagtaAgaaaacaccatgagcattgc	13	11	9	8	0	0	3	0	2	0	1	0	3	0	3	1	0	5	5	1	0	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:164735779A>C	uc003fei.2	-	29	3561	c.3499T>G	c.(3499-3501)TTA>GTA	p.L1167V		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1167	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity	p.L1167*(1)		ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	CTGTTGAGTAAGAAAACACCA	0.338										HNSCC(35;0.089)			8	152					0	0	1	0	0		C	164735779	C	C	164735779	3	2	188	1	0	0	0	0	1	0	0	0	14322	69	3	5	2064	5	SI	3	164735779	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	137	164735779	33286651	72	93787											
ZBBX	79740	broad.mit.edu	37	chr3	167034828	167034828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatctttagagatggttcagGtctctctatgtttaatgttt	8	20	8	5	0	4	1	1	0	3	1	5	2	4	1	0	2	0	3	0	2	4	8			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:167034828G>A	uc003fep.2	-	14	1482	c.1159C>T	c.(1159-1161)CCT>TCT	p.P387S	ZBBX_uc011bpc.1_Missense_Mutation_p.P387S|ZBBX_uc003feq.2_Missense_Mutation_p.P358S	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	387						intracellular	zinc ion binding			ovary(2)	2						GATGGTTCAGGTCTCTCTATG	0.343													10	101					0	0	1	0	0		A	167034828	A	A	167034828	3	1	188	1	0	0	0	0	1	0	0	0	17542	1261	44	4	1275	4	ZBBX	3	167034828	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	2299049	167034828	30987602	73	93788											
KCNMB2	10242	broad.mit.edu	37	chr3	178560470	178560470	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacctaaatgtggaaaaaaTtttgaagaatccatgtccct	16	12	6	7	0	0	2	0	1	0	1	2	3	2	3	3	1	1	0	3	1	8	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr3:178560470T>G	uc003fjd.2	+	5	796	c.453T>G	c.(451-453)AAT>AAG	p.N151K	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Missense_Mutation_p.N151K|KCNMB2_uc003fjf.2_Missense_Mutation_p.N151K|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_RNA	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	151	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			GTGGAAAAAATTTTGAAGAAT	0.403													13	76					0	0	1	0	0		G	178560470	G	G	178560470	3	3	188	1	0	0	0	0	1	0	0	0	8091	1490	52	5	467	5	KCNMB2	3	178560470	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	11525642	178560470	19461960	74	93789											
ZNF718	255403	broad.mit.edu	37	chr4	154768	154768	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagattcattccacaaacTtataccaaaaggacatgaga	19	8	6	8	0	1	3	1	1	0	3	2	5	2	4	2	1	2	0	2	1	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:154768T>G	uc003fzt.3	+	8	426	c.293T>G	c.(292-294)CTT>CGT	p.L98R	ZNF595_uc003fzu.1_Intron|ZNF718_uc010iaz.2_RNA|ZNF718_uc003fzw.3_5'UTR	NM_001039127	NP_001034216	Q3SXZ3	ZN718_HUMAN	zinc finger protein 718	98					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;0.0738)|all_epithelial(65;0.139)		Lung(54;0.0681)|Epithelial(2;0.0838)|all cancers(2;0.135)|LUSC - Lung squamous cell carcinoma(95;0.18)		TTCCACAAACTTATACCAAAA	0.338													7	39					0	0	1	0	0		G	154768	G	G	154768	3	3	188	1	0	0	0	0	1	0	0	0	18145	1609	56	5	307	5	ZNF718	4	154768	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		154768	190999508	75	93790											
POLR2B	5431	broad.mit.edu	37	chr4	57860970	57860970	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcttgacagatcgtgatcttTgtgagttaaatgaatgccct	10	14	10	7	1	1	5	0	4	1	1	2	5	1	5	1	0	1	2	1	0	3	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:57860970T>A	uc003hcl.1	+	5	557	c.514T>A	c.(514-516)TGT>AGT	p.C172S	POLR2B_uc011cae.1_Missense_Mutation_p.C165S|POLR2B_uc011caf.1_Missense_Mutation_p.C97S	NM_000938	NP_000929	P30876	RPB2_HUMAN	DNA directed RNA polymerase II polypeptide B	172					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|protein binding|ribonucleoside binding			ovary(2)	2	Glioma(25;0.08)|all_neural(26;0.181)					TCGTGATCTTTGTGAGTTAAA	0.333													15	70					0	0	1	0	0		A	57860970	A	A	57860970	3	1	188	1	0	0	0	0	1	0	0	0	12234	1812	63	5	532	5	POLR2B	4	57860970	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	57706202	57860970	133293306	76	93791											
LPHN3	23284	broad.mit.edu	37	chr4	62812667	62812667	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttgtcctgtataacaacTtgggtccttatttatccacg	8	16	6	11	1	0	0	0	0	0	0	3	0	3	0	4	1	2	1	4	1	5	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:62812667T>C	uc010ihh.2	+	13	2424	c.2251T>C	c.(2251-2253)TTG>CTG	p.L751L	LPHN3_uc003hcq.3_Silent_p.L751L|LPHN3_uc003hct.2_Silent_p.L144L	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	738	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GTATAACAACTTGGGTCCTTA	0.388													32	164					0	0	1	0	0		C	62812667	C	C	62812667	2	2	188	1	0	0	0	0	0	0	0	1	8935	1606	56	3		3	LPHN3	4	62812667	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4951697	62812667	128341609	77	93792											
PPEF2	5470	broad.mit.edu	37	chr4	76787343	76787343	+	Missense_Mutation	SNP	T	G	G	0	1	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	accattaccacaccgttaccTcgcgactcagttgttccttg	8	12	6	15	3	1	0	1	0	0	0	3	1	2	0	5	0	2	3	5	0	2	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:76787343T>G	uc003hix.2	-	15	2276	c.1919A>C	c.(1918-1920)GAG>GCG	p.E640A	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_3'UTR	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	640					detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CACCGTTACCTCGCGACTCAG	0.473													24	127					0	0	1	0	0		G	76787343	G	G	76787343	3	3	188	1	0	0	0	0	1	0	0	0	12327	1565	54	5	354	5	PPEF2	4	76787343	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	13974676	76787343	114366933	78	93793											
BMP3	651	broad.mit.edu	37	chr4	81967513	81967513	+	Missense_Mutation	SNP	A	C	C	1	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	ataccagtataaaaaggatgAggtgtgggaggagagaaagc	17	6	15	3	0	0	2	0	1	0	1	0	6	0	5	1	4	2	1	1	4	6	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:81967513A>C	uc003hmg.3	+	2	1258	c.938A>C	c.(937-939)GAG>GCG	p.E313A		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	313					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						AAAAAGGATGAGGTGTGGGAG	0.512													7	37					0	0	1	0	0		C	81967513	C	C	81967513	3	2	188	1	0	0	0	0	1	0	0	0	1462	304	11	5	944	5	BMP3	4	81967513	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	5180170	81967513	109186763	79	93794											
DSPP	1834	broad.mit.edu	37	chr4	88534300	88534300	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatgaagttgatggagacaAgacctccaagagtgaggaga	16	7	13	5	0	0	7	0	3	0	4	1	9	1	7	2	2	0	1	2	2	4	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:88534300A>C	uc003hqu.2	+	4	1082	c.962A>C	c.(961-963)AAG>ACG	p.K321T		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	321					biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		GATGGAGACAAGACCTCCAAG	0.418													11	29					0	0	1	0	0		C	88534300	C	C	88534300	3	2	188	1	0	0	0	0	1	0	0	0	4788	72	3	5	972	5	DSPP	4	88534300	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	6566787	88534300	102619976	80	93795											
FAT4	79633	broad.mit.edu	37	chr4	126370822	126370822	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatttagattgccctgaacTtactgagattggctccaaag	11	14	8	8	0	0	3	0	2	0	2	1	4	1	3	2	1	3	1	2	1	5	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:126370822T>G	uc003ifj.3	+	9	8651	c.8651T>G	c.(8650-8652)CTT>CGT	p.L2884R	FAT4_uc011cgp.1_Missense_Mutation_p.L1182R|FAT4_uc003ifi.1_Missense_Mutation_p.L362R	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2884	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGCCCTGAACTTACTGAGATT	0.373													17	97					0	0	1	0	0		G	126370822	G	G	126370822	3	3	188	1	0	0	0	0	1	0	0	0	5706	1609	56	5	8685	5	FAT4	4	126370822	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	37836522	126370822	64783454	81	93796											
DCHS2	54798	broad.mit.edu	37	chr4	155191053	155191053	+	Silent	SNP	T	A	A	0	1	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	tagggtagagaaggattaccTgacttagagcacagggaaag	15	7	14	5	0	0	3	0	1	0	2	0	6	0	5	1	3	2	2	1	3	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:155191053T>A	uc003inw.2	-	19	5211	c.5211A>T	c.(5209-5211)TCA>TCT	p.S1737S		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1737	Cadherin 15.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AAGGATTACCTGACTTAGAGC	0.338													13	68					0	0	1	0	0		A	155191053	A	A	155191053	2	1	188	1	0	0	0	0	0	0	0	1	4291	1594	55	5		5	DCHS2	4	155191053	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	28820231	155191053	35963223	82	93797											
RBM46	166863	broad.mit.edu	37	chr4	155720087	155720087	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattaaagcagaattcaataAatttaagcctggtgcagttg	16	12	8	5	0	1	1	1	0	0	1	1	1	1	1	1	1	3	3	1	1	8	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:155720087A>C	uc003ioo.2	+	4	946	c.773A>C	c.(772-774)AAA>ACA	p.K258T	RBM46_uc011cim.1_Missense_Mutation_p.K258T|RBM46_uc003iop.1_Missense_Mutation_p.K258T	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	258	RRM 3.						nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				GAATTCAATAAATTTAAGCCT	0.363													5	32					0	0	1	0	0		C	155720087	C	C	155720087	3	2	188	1	0	0	0	0	1	0	0	0	13165	14	1	5	783	5	RBM46	4	155720087	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	529034	155720087	35434189	83	93798											
GUCY1A3	2982	broad.mit.edu	37	chr4	156629419	156629419	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagagaagactttgaaaaaAcaattgcagagcaagcagtt	20	7	9	5	0	0	4	0	1	0	3	0	5	0	4	0	0	4	4	0	0	7	3	rs142097871		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:156629419A>C	uc003iov.2	+	6	885	c.349A>C	c.(349-351)ACA>CCA	p.T117P	GUCY1A3_uc003iou.2_Missense_Mutation_p.T117P|GUCY1A3_uc010iqc.2_Missense_Mutation_p.T117P|GUCY1A3_uc003iow.2_Missense_Mutation_p.T117P|GUCY1A3_uc010iqd.2_Missense_Mutation_p.T117P|GUCY1A3_uc003iox.2_Missense_Mutation_p.T117P|GUCY1A3_uc003ioz.2_5'UTR|GUCY1A3_uc003ioy.2_Missense_Mutation_p.T117P|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.T117P	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	117					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		CTTTGAAAAAACAATTGCAGA	0.279													8	39					0	0	1	0	0		C	156629419	C	C	156629419	3	2	188	1	0	0	0	0	1	0	0	0	6910	43	2	5	359	5	GUCY1A3	4	156629419	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	909332	156629419	34524857	84	93799											
ODZ3	55714	broad.mit.edu	37	chr4	183664404	183664404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagcatcatgggcaatgggcGaaggcgcagcatttcctgcc	9	8	13	11	2	1	0	1	0	0	0	2	1	2	0	2	3	3	4	2	3	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:183664404G>A	uc003ivd.1	+	18	3498	c.3461G>A	c.(3460-3462)CGA>CAA	p.R1154Q	ODZ3_uc003ive.1_Missense_Mutation_p.R560Q	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1154	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGCAATGGGCGAAGGCGCAGC	0.522													5	42					0	0	1	0	0		A	183664404	A	A	183664404	3	1	188	1	0	0	0	0	1	0	0	0	10855	1058	37	1	3531	1	ODZ3	4	183664404	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	27034985	183664404	7489872	85	93800											
TRIML2	205860	broad.mit.edu	37	chr4	189020226	189020226	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgccttccccacactttttcTcaagctccacgatgagcttt	7	14	5	15	1	1	1	1	1	1	0	4	2	3	1	4	0	3	2	4	0	1	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr4:189020226T>C	uc003izl.2	-	4	470	c.434A>G	c.(433-435)GAG>GGG	p.E145G	TRIML2_uc003izj.1_5'UTR|TRIML2_uc003izk.1_5'UTR|TRIML2_uc011cle.1_Missense_Mutation_p.E195G|TRIML2_uc011clf.1_Missense_Mutation_p.E195G	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	145	Potential.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		ACACTTTTTCTCAAGCTCCAC	0.483													19	74					0	0	1	0	0		C	189020226	C	C	189020226	3	2	188	1	0	0	0	0	1	0	0	0	16577	1551	54	3	745	3	TRIML2	4	189020226	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	5355822	189020226	2134050	86	93801											
SLC12A7	10723	broad.mit.edu	37	chr5	1083981	1083981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaagaggccccagagcgcGgaggtggctgagttgttgtg	8	7	18	8	2	0	4	0	1	0	3	0	5	0	5	2	4	1	3	2	4	1	2	rs34815306	byFrequency	TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:1083981G>A	uc003jbu.2	-	8	1074	c.1008C>T	c.(1006-1008)TCC>TCT	p.S336S		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	336					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	CCCAGAGCGCGGAGGTGGCTG	0.657													12	70					0	0	1	0	0		A	1083981	A	A	1083981	2	1	188	1	0	0	0	0	0	0	0	1	14413	1103	39	1		1	SLC12A7	5	1083981	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08		1083981	179831279	87	93802											
SEMA5A	9037	broad.mit.edu	37	chr5	9197384	9197384	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcgatggcgctcaggttgaAgacgcacacagctgaggccg	9	5	15	12	5	1	3	1	2	0	1	1	4	1	3	1	3	1	4	1	3	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:9197384A>G	uc003jek.2	-	10	1676	c.964T>C	c.(964-966)TTC>CTC	p.F322L		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	322	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CTCAGGTTGAAGACGCACACA	0.612													20	93					0	0	1	0	0		G	9197384	G	G	9197384	3	3	188	1	0	0	0	0	1	0	0	0	14062	72	3	3	2316	3	SEMA5A	5	9197384	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	8113403	9197384	171717876	88	93803											
DNAH5	1767	broad.mit.edu	37	chr5	13729585	13729585	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaactgtctgagtttgctaAgttccaccaaattcagccat	13	12	6	10	0	2	1	1	1	1	0	3	1	3	1	3	0	3	3	3	0	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:13729585A>C	uc003jfd.2	-	69	11888	c.11846T>G	c.(11845-11847)CTT>CGT	p.L3949R	DNAH5_uc003jfc.2_Missense_Mutation_p.L117R	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3949					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GAGTTTGCTAAGTTCCACCAA	0.383									Kartagener_syndrome				16	83					0	0	1	0	0		C	13729585	C	C	13729585	3	2	188	1	0	0	0	0	1	0	0	0	4610	72	3	5	2072	5	DNAH5	5	13729585	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	4532201	13729585	167185675	89	93804											
DNAH5	1767	broad.mit.edu	37	chr5	13769199	13769199	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttctgtacctcagccTtgaccttttcagcagcctgt	6	14	6	15	0	4	1	3	1	1	0	4	1	4	1	5	0	4	2	5	0	1	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:13769199T>G	uc003jfd.2	-	58	9809	c.9767A>C	c.(9766-9768)AAG>ACG	p.K3256T	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3256	Stalk (By similarity).|Potential.				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TACCTCAGCCTTGACCTTTTC	0.428									Kartagener_syndrome				43	226					0	0	1	0	0		G	13769199	G	G	13769199	3	3	188	1	0	0	0	0	1	0	0	0	4610	1609	56	5	4195	5	DNAH5	5	13769199	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	39614	13769199	167146061	90	93805											
C5orf23	79614	broad.mit.edu	37	chr5	32789795	32789795	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgccccaaatgcatcacTttccttttagttatggctga	8	16	6	11	0	1	1	1	1	0	0	2	1	2	1	3	1	2	3	3	1	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:32789795T>G	uc003jhw.1	+	1	851	c.288T>G	c.(286-288)ACT>ACG	p.T96T		NM_024563	NP_078839			hypothetical protein LOC79614												0						AATGCATCACTTTCCTTTTAG	0.418													11	78					0	0	1	0	0		G	32789795	G	G	32789795	2	3	188	1	0	0	0	0	0	0	0	1	2289	1596	56	5		5	C5orf23	5	32789795	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	19020596	32789795	148125465	91	93806											
SPEF2	79925	broad.mit.edu	37	chr5	35641550	35641550	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggtttcaagtgccaaacTtaataatttttctcgcttgg	10	15	8	8	1	2	0	1	0	1	0	3	0	2	0	1	2	2	2	1	2	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:35641550T>C	uc003jjo.2	+	3	290	c.179T>C	c.(178-180)CTT>CCT	p.L60P	SPEF2_uc003jjn.1_Missense_Mutation_p.L60P|SPEF2_uc003jjq.3_Missense_Mutation_p.L60P	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	60	CH.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGTGCCAAACTTAATAATTTT	0.368													12	73					0	0	1	0	0		C	35641550	C	C	35641550	3	2	188	1	0	0	0	0	1	0	0	0	15060	1609	56	3	189	3	SPEF2	5	35641550	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2851755	35641550	145273710	92	93807											
C5orf42	65250	broad.mit.edu	37	chr5	37187931	37187931	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccaacacagagcacaaagTtctctgaagcaacctaaagc	17	6	6	12	0	1	2	0	1	1	1	3	2	2	2	2	0	5	3	2	0	6	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:37187931T>G	uc011cpa.1	-	22	4056	c.3825A>C	c.(3823-3825)GAA>GAC	p.E1275D	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.E350D|C5orf42_uc011cpb.1_Missense_Mutation_p.E156D	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1275										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GAGCACAAAGTTCTCTGAAGC	0.348													5	20					0	0	1	0	0		G	37187931	G	G	37187931	3	3	188	1	0	0	0	0	1	0	0	0	2304	1722	60	5	5892	5	C5orf42	5	37187931	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1546381	37187931	143727329	93	93808											
HTR1A	3350	broad.mit.edu	37	chr5	63257405	63257405	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgcccagcaccgcgcagaAgatgagcgtgcccagcagca	11	4	12	14	3	0	3	0	1	0	2	0	3	0	3	3	0	6	4	3	0	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:63257405A>C	uc011cqt.1	-	1	142	c.142T>G	c.(142-144)TTC>GTC	p.F48V		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	48	Helical; Name=1; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	ACCGCGCAGAAGATGAGCGTG	0.602													11	66					0	0	1	0	0		C	63257405	C	C	63257405	3	2	188	1	0	0	0	0	1	0	0	0	7452	72	3	5	1129	5	HTR1A	5	63257405	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	26069474	63257405	117657855	94	93809											
AGGF1	55109	broad.mit.edu	37	chr5	76358896	76358896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatccagcttcagcttcggcGaacacatgcaggcttgggga	9	8	13	11	2	1	0	1	0	0	0	3	3	2	1	1	4	4	4	1	4	1	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:76358896G>A	uc003ket.2	+	14	2324	c.1964G>A	c.(1963-1965)CGA>CAA	p.R655Q		NM_018046	NP_060516	Q8N302	AGGF1_HUMAN	angiogenic factor VG5Q	655	G-patch.				angiogenesis|cell adhesion|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|RNA processing|vasculogenesis	extracellular region|perinuclear region of cytoplasm	eukaryotic cell surface binding|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;4.51e-51)|Epithelial(54;2.2e-45)|all cancers(79;6.68e-41)		CAGCTTCGGCGAACACATGCA	0.443													44	307					0	0	1	0	0		A	76358896	A	A	76358896	3	1	188	1	0	0	0	0	1	0	0	0	382	1058	37	1	2018	1	AGGF1	5	76358896	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	13101491	76358896	104556364	95	93810											
VCAN	1462	broad.mit.edu	37	chr5	82815417	82815417	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacacctactggcagtaccaAgaagccctgggatatggatg	12	7	11	11	0	0	1	0	0	0	1	0	3	0	3	3	3	3	2	3	3	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:82815417A>C	uc003kii.3	+	7	1648	c.1292A>C	c.(1291-1293)AAG>ACG	p.K431T	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.K431T|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	431	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GGCAGTACCAAGAAGCCCTGG	0.448													16	68					0	0	1	0	0		C	82815417	C	C	82815417	3	2	188	1	0	0	0	0	1	0	0	0	17164	72	3	5	1314	5	VCAN	5	82815417	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	6456521	82815417	98099843	96	93811											
VCAN	1462	broad.mit.edu	37	chr5	82815448	82815448	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatatggatgactactcaccTtctgcttcaggacctcttgg	8	13	9	11	0	4	1	2	1	2	0	4	4	4	3	2	3	2	1	2	3	2	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:82815448T>G	uc003kii.3	+	7	1679	c.1323T>G	c.(1321-1323)CCT>CCG	p.P441P	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.P441P|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	441	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACTACTCACCTTCTGCTTCAG	0.473													16	69					0	0	1	0	0		G	82815448	G	G	82815448	2	3	188	1	0	0	0	0	0	0	0	1	17164	1596	56	5		5	VCAN	5	82815448	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	31	82815448	98099812	97	93812											
VCAN	1462	broad.mit.edu	37	chr5	82836092	82836092	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcaccaaaaccatctgacTtgtattatgaaccttctgga	13	11	6	11	0	2	2	0	2	2	0	2	3	2	3	3	1	3	2	3	1	5	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:82836092T>C	uc003kii.3	+	8	7626	c.7270T>C	c.(7270-7272)TTG>CTG	p.L2424L	VCAN_uc003kij.3_Silent_p.L1437L|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.L1088L	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2424	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ACCATCTGACTTGTATTATGA	0.393													18	100					0	0	1	0	0		C	82836092	C	C	82836092	2	2	188	1	0	0	0	0	0	0	0	1	17164	1606	56	3		3	VCAN	5	82836092	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	20644	82836092	98079168	98	93813											
VCAN	1462	broad.mit.edu	37	chr5	82836790	82836790	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacatgatgaatcaatgacTtatgaagatagaagccaact	18	9	7	7	0	1	6	1	4	0	2	1	6	1	6	1	0	2	0	1	0	7	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:82836790T>G	uc003kii.3	+	8	8324	c.7968T>G	c.(7966-7968)ACT>ACG	p.T2656T	VCAN_uc003kij.3_Silent_p.T1669T|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.T1320T	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2656	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		AATCAATGACTTATGAAGATA	0.448													12	88					0	0	1	0	0		G	82836790	G	G	82836790	2	3	188	1	0	0	0	0	0	0	0	1	17164	1596	56	5		5	VCAN	5	82836790	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	698	82836790	98078470	99	93814											
SNCAIP	9627	broad.mit.edu	37	chr5	121787094	121787094	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagcggacctccacaagtaAcgaatcgggggatcaactga	13	5	11	12	3	1	1	1	1	0	0	3	4	2	3	3	3	3	1	3	3	4	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:121787094A>C	uc003ksw.1	+	10	2758	c.2552A>C	c.(2551-2553)AAC>ACC	p.N851T	SNCAIP_uc011cwl.1_Missense_Mutation_p.N409T|SNCAIP_uc003ksx.1_Missense_Mutation_p.N898T|SNCAIP_uc003ksy.1_Missense_Mutation_p.N485T|SNCAIP_uc003ksz.1_Missense_Mutation_p.N485T|SNCAIP_uc010jcu.2_Missense_Mutation_p.N447T|SNCAIP_uc011cwm.1_Missense_Mutation_p.N485T|SNCAIP_uc003kta.1_Missense_Mutation_p.N483T|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.N545T|SNCAIP_uc010jcx.1_Missense_Mutation_p.N791T|uc003ktb.1_Intron|SNCAIP_uc003ktc.1_Missense_Mutation_p.N367T	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	851					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		TCCACAAGTAACGAATCGGGG	0.478													15	103					0	0	1	0	0		C	121787094	C	C	121787094	3	2	188	1	0	0	0	0	1	0	0	0	14866	43	2	5	2586	5	SNCAIP	5	121787094	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	38950304	121787094	59128166	100	93815											
SLC27A6	28965	broad.mit.edu	37	chr5	128302234	128302234	+	Missense_Mutation	SNP	T	A	A	0	1	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	gggctgcgtggtggcctttcTcaacaccaacattcgctcca	7	10	10	14	2	1	0	1	0	1	0	4	0	2	0	3	3	3	2	3	3	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:128302234T>A	uc003kuy.2	+	2	800	c.404T>A	c.(403-405)CTC>CAC	p.L135H	SLC27A6_uc003kuz.2_Missense_Mutation_p.L135H	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	135	Helical; (Potential).				long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		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)		GTGGCCTTTCTCAACACCAAC	0.607													4	30					0	0	1	0	0		A	128302234	A	A	128302234	3	1	188	1	0	0	0	0	1	0	0	0	14555	1551	54	5	406	5	SLC27A6	5	128302234	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	6515140	128302234	52613026	101	93816											
PCDHA5	56143	broad.mit.edu	37	chr5	140203177	140203177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcgggctacaacgcttggcTttcgtatgagctgcagccag	7	11	12	11	3	0	1	0	1	0	0	2	1	0	1	1	2	5	6	1	2	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:140203177T>C	uc003lhl.2	+	1	1817	c.1817T>C	c.(1816-1818)CTT>CCT	p.L606P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.L606P|PCDHA5_uc003lhj.1_Missense_Mutation_p.L606P	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	606	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGCTTGGCTTTCGTATGAG	0.662													10	92					0	0	1	0	0		C	140203177	C	C	140203177	3	2	188	1	0	0	0	0	1	0	0	0	11546	1609	56	3	1819	3	PCDHA5	5	140203177	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	11900943	140203177	40712083	102	93817											
PCDHB3	56132	broad.mit.edu	37	chr5	140482134	140482134	+	Missense_Mutation	SNP	A	G	G	1	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	caggctgctgagcgagcgcgAcgcggccaagcacaggctgg	8	3	17	13	5	0	1	0	1	0	0	0	3	0	1	1	4	4	4	1	4	1	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:140482134A>G	uc003lio.2	+	1	1901	c.1901A>G	c.(1900-1902)GAC>GGC	p.D634G	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	634	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCGAGCGCGACGCGGCCAAG	0.692													22	109					0	0	1	0	0		G	140482134	G	G	140482134	3	3	188	1	0	0	0	0	1	0	0	0	11562	275	10	3	1903	3	PCDHB3	5	140482134	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	278957	140482134	40433126	103	93818											
PCDHGA3	56112	broad.mit.edu	37	chr5	140723787	140723787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgggagctggcggagcgcGgagtccgcatcgtctccaga	6	5	16	14	6	1	1	0	0	1	1	4	4	2	4	3	4	2	2	3	4	0	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:140723787G>A	uc003ljm.1	+	1	187	c.187G>A	c.(187-189)GGA>AGA	p.G63R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.G63R	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	63	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGGAGCGCGGAGTCCGCAT	0.607											OREG0016855	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	140					0	0	1	0	0		A	140723787	A	A	140723787	3	1	188	1	0	0	0	0	1	0	0	0	11574	1117	39	1	189	1	PCDHGA3	5	140723787	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	241653	140723787	40191473	104	93819											
SPINK5	11005	broad.mit.edu	37	chr5	147470754	147470754	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agaagctgaaaatgccaagcGagagggtgaaactagaattc	17	6	12	6	1	0	5	0	2	0	3	1	6	0	5	1	1	4	1	1	1	7	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:147470754G>C	uc003lox.2	+	8	702	c.629G>C	c.(628-630)CGA>CCA	p.R210P	SPINK5_uc010jgq.1_RNA|SPINK5_uc010jgs.1_Missense_Mutation_p.R182P|SPINK5_uc010jgr.2_Missense_Mutation_p.R191P|SPINK5_uc003low.2_Missense_Mutation_p.R210P|SPINK5_uc003loy.2_Missense_Mutation_p.R210P	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	210	Kazal-like 3.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGCCAAGCGAGAGGGTGAA	0.358													4	18					0	0	1	0	0		C	147470754	C	C	147470754	3	2	188	1	0	0	0	0	1	0	0	0	15087	1058	37	5	659	5	SPINK5	5	147470754	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	6746967	147470754	33444506	105	93820											
FAT2	2196	broad.mit.edu	37	chr5	150925275	150925275	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcaaggcctccggctccaAaattttatagaccaacaagg	13	9	7	12	1	1	1	1	0	0	1	3	1	3	1	4	3	1	1	4	3	7	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:150925275A>G	uc003lue.3	-	9	5426	c.5413T>C	c.(5413-5415)TTG>CTG	p.L1805L	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1805	Extracellular (Potential).|Cadherin 16.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCCGGCTCCAAAATTTTATAG	0.408													17	98					0	0	1	0	0		G	150925275	G	G	150925275	2	3	188	1	0	0	0	0	0	0	0	1	5704	11	1	3		3	FAT2	5	150925275	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3454521	150925275	29989985	106	93821											
FAM114A2	10827	broad.mit.edu	37	chr5	153390808	153390808	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaataacttaccctggcaAgtttctctggtttggaggaa	11	12	10	8	0	1	0	0	0	1	0	2	2	1	2	1	4	3	4	1	4	5	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:153390808A>C	uc003lvb.2	-	9	1574	c.986T>G	c.(985-987)CTT>CGT	p.L329R	FAM114A2_uc003lvc.2_Missense_Mutation_p.L329R|FAM114A2_uc003lvd.2_Missense_Mutation_p.L329R|FAM114A2_uc003lve.2_Missense_Mutation_p.L145R|FAM114A2_uc011dda.1_Missense_Mutation_p.L259R	NM_018691	NP_061161	Q9NRY5	F1142_HUMAN	hypothetical protein LOC10827	329							purine nucleotide binding				0						TACCCTGGCAAGTTTCTCTGG	0.378													9	76					0	0	1	0	0		C	153390808	C	C	153390808	3	2	188	1	0	0	0	0	1	0	0	0	5415	72	3	5	555	5	FAM114A2	5	153390808	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	2465533	153390808	27524452	107	93822											
FAM71B	153745	broad.mit.edu	37	chr5	156590352	156590352	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgccagcgctgtggtcacTtgacctgggcctgcagattt	5	10	12	14	2	1	2	1	1	0	1	1	2	1	2	4	2	2	2	4	2	0	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr5:156590352T>G	uc003lwn.2	-	2	1024	c.924A>C	c.(922-924)CAA>CAC	p.Q308H		NM_130899	NP_570969	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	308	Ala-rich.					nucleus				ovary(4)|pancreas(1)|skin(1)	6	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)			CTGTGGTCACTTGACCTGGGC	0.512													22	123					0	0	1	0	0		G	156590352	G	G	156590352	3	3	188	1	0	0	0	0	1	0	0	0	5622	1606	56	5	897	5	FAM71B	5	156590352	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	3199544	156590352	24324908	108	93823											
F13A1	2162	broad.mit.edu	37	chr6	6145969	6145969	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagacccagggccggcacacTtcttcccactgcacggtgga	8	6	12	15	2	1	1	0	0	1	1	2	3	2	2	3	4	1	2	3	4	0	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:6145969T>G	uc003mwv.2	-	15	2205	c.2082A>C	c.(2080-2082)GAA>GAC	p.E694D	F13A1_uc011dib.1_Missense_Mutation_p.K588T	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	694					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	GCCGGCACACTTCTTCCCACT	0.537													12	89					0	0	1	0	0		G	6145969	G	G	6145969	3	3	188	1	0	0	0	0	1	0	0	0	5348	1606	56	5	120	5	F13A1	6	6145969	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		6145969	164969098	109	93824											
SYCP2L	221711	broad.mit.edu	37	chr6	10903119	10903119	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccaaaaagggcttgaagacTtttaactgcattttgcacgc	12	12	8	9	1	0	2	0	1	0	1	1	2	1	2	1	1	3	3	1	1	4	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:10903119T>C	uc003mzo.2	+	8	860	c.564T>C	c.(562-564)ACT>ACC	p.T188T	SYCP2L_uc011din.1_Silent_p.T29T|SYCP2L_uc010jow.2_5'UTR	NM_001040274	NP_001035364	Q5T4T6	SYC2L_HUMAN	synaptonemal complex protein 2-like	188						nucleus				ovary(1)|skin(1)	2	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)	Epithelial(50;0.239)			GCTTGAAGACTTTTAACTGCA	0.378													14	47					0	0	1	0	0		C	10903119	C	C	10903119	2	2	188	1	0	0	0	0	0	0	0	1	15458	1596	56	3		3	SYCP2L	6	10903119	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4757150	10903119	160211948	110	93825											
DCDC2	51473	broad.mit.edu	37	chr6	24291223	24291223	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaaggcagtttcttaaacTtatctctgccaacagccaca	12	12	6	11	0	2	0	0	0	2	0	3	0	2	0	2	1	4	3	2	1	5	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:24291223T>G	uc003ndx.2	-	5	943	c.641A>C	c.(640-642)AAG>ACG	p.K214T	DCDC2_uc003ndy.2_Missense_Mutation_p.K214T	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	214	Doublecortin 2.				cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				TTTCTTAAACTTATCTCTGCC	0.403													6	41					0	0	1	0	0		G	24291223	G	G	24291223	3	3	188	1	0	0	0	0	1	0	0	0	4288	1609	56	5	813	5	DCDC2	6	24291223	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	13388104	24291223	146823844	111	93826											
BTN2A2	10385	broad.mit.edu	37	chr6	26388372	26388372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacggtgaggttgtgcccGccctgaaggaggtttccatc	6	10	13	12	2	0	2	0	2	0	0	2	3	1	3	4	4	2	2	4	4	2	3	rs144410497	byFrequency	TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:26388372G>A	uc003nhq.2	+	4	660	c.574G>A	c.(574-576)GCC>ACC	p.A192T	BTN2A2_uc011dkf.1_Missense_Mutation_p.A76T|BTN2A2_uc011dkg.1_Intron|BTN2A2_uc003nhr.2_Missense_Mutation_p.A76T|BTN2A2_uc011dkh.1_Intron|BTN2A2_uc003nhs.2_Missense_Mutation_p.A192T|BTN2A2_uc003nht.2_Missense_Mutation_p.A192T|BTN2A2_uc011dki.1_5'Flank	NM_006995	NP_008926	Q8WVV5	BT2A2_HUMAN	butyrophilin, subfamily 2, member A2 isoform a	192	Extracellular (Potential).|Ig-like C2-type.				negative regulation of activated T cell proliferation|negative regulation of cellular metabolic process|negative regulation of cytokine secretion	integral to membrane					0						GGTTGTGCCCGCCCTGAAGGA	0.577													10	88					0	0	1	0	0		A	26388372	A	A	26388372	3	1	188	1	0	0	0	0	1	0	0	0	1564	1087	38	1	584	1	BTN2A2	6	26388372	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	2097149	26388372	144726695	112	93827											
OR2J3	442186	broad.mit.edu	37	chr6	29080491	29080491	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaattctcaagatcaaggcaAgttcattgccctcttttata	13	14	5	9	0	4	1	3	0	2	1	5	1	4	1	1	1	1	2	1	1	6	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:29080491A>C	uc011dll.1	+	1	824	c.824A>C	c.(823-825)AAG>ACG	p.K275T		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GATCAAGGCAAGTTCATTGCC	0.438													13	65					0	0	1	0	0		C	29080491	C	C	29080491	3	2	188	1	0	0	0	0	1	0	0	0	11023	72	3	5	826	5	OR2J3	6	29080491	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	2692119	29080491	142034576	113	93828											
C6orf47	57827	broad.mit.edu	37	chr6	31627482	31627482	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcttttgctccctagctgCtcaacttggggctcctcctt	4	16	7	14	0	2	0	1	0	1	0	5	0	5	0	3	2	4	4	3	2	2	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:31627482C>T	uc003nvm.1	-	1	1068	c.243G>A	c.(241-243)GAG>GAA	p.E81E		NM_021184	NP_067007	O95873	CF047_HUMAN	G4 protein	81										ovary(1)	1						TCCCTAGCTGCTCAACTTGGG	0.562													12	57					0	0	1	0	0		T	31627482	T	T	31627482	2	4	188	1	0	0	0	0	0	0	0	1	2367	796	28	2		2	C6orf47	6	31627482	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	2546991	31627482	139487585	114	93829											
COL19A1	1310	broad.mit.edu	37	chr6	70745826	70745826	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacccccaggaccaccagccTtacctgtaagtattcttgaa	11	9	7	14	0	1	1	0	1	1	0	1	3	1	2	6	1	2	2	6	1	4	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:70745826T>G	uc003pfc.1	+	14	1282	c.1165T>G	c.(1165-1167)TTA>GTA	p.L389V	COL19A1_uc010kam.1_Missense_Mutation_p.L285V	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	389	Triple-helical region 2 (COL2).				cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						ACCACCAGCCTTACCTGTAAG	0.303													14	41					0	0	1	0	0		G	70745826	G	G	70745826	3	3	188	1	0	0	0	0	1	0	0	0	3679	1606	56	5	1215	5	COL19A1	6	70745826	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	39118344	70745826	100369241	115	93830											
COQ3	51805	broad.mit.edu	37	chr6	99819343	99819343	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagtgtttcaggtgaaacaaActtctcccatgtatgagtac	12	13	8	8	0	2	2	1	2	1	0	3	2	2	2	1	1	3	3	1	1	5	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:99819343A>C	uc003ppk.2	-	6	877	c.850T>G	c.(850-852)TTT>GTT	p.F284V		NM_017421	NP_059117	Q9NZJ6	COQ3_HUMAN	hexaprenyldihydroxybenzoate methyltransferase	284					glycerol metabolic process|ubiquinone biosynthetic process	mitochondrial matrix	2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity|3-demethylubiquinone-9 3-O-methyltransferase activity|hexaprenyldihydroxybenzoate methyltransferase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0625)		GGTGAAACAAACTTCTCCCAT	0.353													9	42					0	0	1	0	0		C	99819343	C	C	99819343	3	2	188	1	0	0	0	0	1	0	0	0	3749	43	2	5	267	5	COQ3	6	99819343	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	29073517	99819343	71295724	116	93831											
RGS17	26575	broad.mit.edu	37	chr6	153347643	153347643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtgtgtgtgggtcttcccGcattttcccctctttcttca	3	18	8	12	1	4	0	1	0	3	0	6	0	6	0	3	1	0	1	3	1	1	6	rs34438717		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr6:153347643G>A	uc003qpm.2	-	3	311	c.155C>T	c.(154-156)GCG>GTG	p.A52V		NM_012419	NP_036551	Q9UGC6	RGS17_HUMAN	regulator of G-protein signalling 17	52					negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			pancreas(1)	1		Ovarian(120;0.126)		OV - Ovarian serous cystadenocarcinoma(155;1.09e-09)|BRCA - Breast invasive adenocarcinoma(81;0.0429)		GGGTCTTCCCGCATTTTCCCC	0.388									Lung_Cancer_Familial_Clustering_of				17	98					0	0	1	0	0		A	153347643	A	A	153347643	3	1	188	1	0	0	0	0	1	0	0	0	13324	1087	38	1	489	1	RGS17	6	153347643	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	53528300	153347643	17767424	117	93832											
GPNMB	10457	broad.mit.edu	37	chr7	23292999	23292999	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcaattaaatggctggtcTtctgatgaaaatgactggaa	15	12	9	5	0	3	3	1	3	2	0	3	4	3	4	0	3	0	1	0	3	7	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:23292999T>G	uc003swc.2	+	2	305	c.144T>G	c.(142-144)TCT>TCG	p.S48S	GPNMB_uc003swa.2_Silent_p.S48S|GPNMB_uc003swb.2_Silent_p.S48S|GPNMB_uc011jyy.1_Silent_p.S48S|GPNMB_uc011jyz.1_Intron	NM_001005340	NP_001005340	Q14956	GPNMB_HUMAN	glycoprotein (transmembrane) nmb isoform a	48	Extracellular (Potential).				negative regulation of cell proliferation	melanosome				ovary(3)|breast(2)	5			GBM - Glioblastoma multiforme(13;0.154)			ATGGCTGGTCTTCTGATGAAA	0.418													12	70					0	0	1	0	0		G	23292999	G	G	23292999	2	3	188	1	0	0	0	0	0	0	0	1	6635	1596	56	5		5	GPNMB	7	23292999	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		23292999	135845664	118	93833											
BBS9	27241	broad.mit.edu	37	chr7	33397593	33397593	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatctccagtcagtcttcTtagtctcttcccaggtaaga	10	13	6	12	0	5	1	1	0	4	1	8	1	6	1	2	1	0	1	2	1	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:33397593T>G	uc003tdn.1	+	16	2192	c.1679T>G	c.(1678-1680)CTT>CGT	p.L560R	BBS9_uc003tdo.1_Missense_Mutation_p.L525R|BBS9_uc003tdp.1_Missense_Mutation_p.L555R|BBS9_uc003tdq.1_Missense_Mutation_p.L520R|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.L84R|BBS9_uc003tds.1_5'UTR|BBS9_uc011kao.1_Missense_Mutation_p.L438R	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	560					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			GTCAGTCTTCTTAGTCTCTTC	0.388									Bardet-Biedl_syndrome				11	76					0	0	1	0	0		G	33397593	G	G	33397593	3	3	188	1	0	0	0	0	1	0	0	0	1343	1609	56	5	1737	5	BBS9	7	33397593	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	10104594	33397593	125741070	119	93834											
GLI3	2737	broad.mit.edu	37	chr7	42006192	42006192	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcgcttctgcccgggaGaagcgtcatgggcccaccca	7	6	14	14	3	2	1	1	0	1	1	3	3	2	1	3	3	2	1	3	3	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:42006192G>T	uc011kbh.1	-	15	2570	c.2479C>A	c.(2479-2481)CTC>ATC	p.L827I	GLI3_uc011kbg.1_Missense_Mutation_p.L768I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	827					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CTGCCCGGGAGAAGCGTCATG	0.587									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				15	99					4.7546e-09	4.82775e-09	1	1	0		T	42006192	T	T	42006192	3	4	188	1	0	0	0	0	1	0	0	0	6454	942	33	5	2267	5	GLI3	7	42006192	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	8608599	42006192	117132471	120	93835											
ZNF117	51351	broad.mit.edu	37	chr7	64439906	64439906	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggtgttgggcaaaataatAaaacataactgaaagaaata	22	8	8	3	0	0	2	0	1	0	1	0	2	0	2	0	2	2	2	0	2	10	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:64439906A>G	uc003ttr.2	-	4	1328	c.43T>C	c.(43-45)TAT>CAT	p.Y15H		NM_015852	NP_056936	Q03924	ZN117_HUMAN	zinc finger protein 117	15						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Lung NSC(55;0.0295)|all_lung(88;0.0691)				GCAAAATAATAAAACATAACT	0.323													5	14					0	0	1	0	0		G	64439906	G	G	64439906	3	3	188	1	0	0	0	0	1	0	0	0	17742	362	13	3	1412	3	ZNF117	7	64439906	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	22433714	64439906	94698757	121	93836											
WBSCR17	64409	broad.mit.edu	37	chr7	70597831	70597831	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtgctgttggtgttgaacTtgatcgcggtagccggcttc	6	13	14	8	3	0	2	0	2	0	0	2	2	0	2	1	3	3	5	1	3	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:70597831T>G	uc003tvy.2	+	1	43	c.43T>G	c.(43-45)TTG>GTG	p.L15V		NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	15	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GGTGTTGAACTTGATCGCGGT	0.687													5	22					0	0	1	0	0		G	70597831	G	G	70597831	3	3	188	1	0	0	0	0	1	0	0	0	17290	1606	56	5	45	5	WBSCR17	7	70597831	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	6157925	70597831	88540832	122	93837											
PCLO	27445	broad.mit.edu	37	chr7	82544559	82544559	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttgttggtctgtaataTtttttctgaggccaaaagtg	9	19	9	4	0	2	1	0	1	2	0	2	1	2	1	1	2	0	2	1	2	4	8			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:82544559T>G	uc003uhx.2	-	7	13032	c.12743A>C	c.(12742-12744)AAT>ACT	p.N4248T	PCLO_uc003uhv.2_Missense_Mutation_p.N4248T|PCLO_uc010lec.2_Missense_Mutation_p.N1213T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4179					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTCTGTAATATTTTTTCTGAG	0.428													4	29					0	0	1	0	0		G	82544559	G	G	82544559	3	3	188	1	0	0	0	0	1	0	0	0	11602	1493	52	5	2778	5	PCLO	7	82544559	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	11946728	82544559	76594104	123	93838											
PCLO	27445	broad.mit.edu	37	chr7	82545733	82545733	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagtttggggagcagttcTtggtcgctcaatgccatgct	6	14	12	9	1	3	0	2	0	1	0	4	1	3	1	1	3	3	5	1	3	1	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:82545733T>G	uc003uhx.2	-	7	11858	c.11569A>C	c.(11569-11571)AGA>CGA	p.R3857R	PCLO_uc003uhv.2_Silent_p.R3857R|PCLO_uc010lec.2_Silent_p.R822R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3788					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGAGCAGTTCTTGGTCGCTCA	0.468													53	238					0	0	1	0	0		G	82545733	G	G	82545733	2	3	188	1	0	0	0	0	0	0	0	1	11602	1617	56	5		5	PCLO	7	82545733	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1174	82545733	76592930	124	93839											
PLOD3	8985	broad.mit.edu	37	chr7	100853686	100853686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggaagtggccaggagccGgccaaattcatgctgattgc	9	9	13	10	1	2	1	1	1	1	0	2	3	2	3	3	4	3	1	3	4	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:100853686G>A	uc003uyd.2	-	14	1996	c.1540C>T	c.(1540-1542)CGG>TGG	p.R514W	PLOD3_uc010lhs.2_Missense_Mutation_p.R79W	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	514					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	GCCAGGAGCCGGCCAAATTCA	0.637													4	37					0	0	1	0	0		A	100853686	A	A	100853686	3	1	188	1	0	0	0	0	1	0	0	0	12122	1115	39	1	700	1	PLOD3	7	100853686	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	18307953	100853686	58284977	125	93840											
IMMP2L	83943	broad.mit.edu	37	chr7	110526690	110526690	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaaactgtgtccatgatgatCaccttcaacccagatgtgac	13	10	7	11	0	2	4	2	3	0	1	3	4	3	4	3	0	2	0	3	0	3	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:110526690C>G	uc003vfq.1	-	5	810	c.367G>C	c.(367-369)GAT>CAT	p.D123H	IMMP2L_uc010ljr.1_Missense_Mutation_p.D123H	NM_032549	NP_115938	Q96T52	IMP2L_HUMAN	IMP2 inner mitochondrial membrane protease-like	123					protein processing involved in protein targeting to mitochondrion|proteolysis	integral to membrane|mitochondrial inner membrane peptidase complex|nucleus	serine-type peptidase activity				0				UCEC - Uterine corpus endometrioid carcinoma (4;0.053)|Epithelial(3;2.27e-07)|all cancers(3;1.36e-05)|STAD - Stomach adenocarcinoma(3;0.00148)|KIRC - Kidney renal clear cell carcinoma(11;0.0339)|Lung(3;0.0375)|Kidney(11;0.0415)|LUSC - Lung squamous cell carcinoma(290;0.173)		CCATGATGATCACCTTCAACC	0.398													10	48					0	0	1	0	0		G	110526690	G	G	110526690	3	3	188	1	0	0	0	0	1	0	0	0	7733	826	29	5	168	5	IMMP2L	7	110526690	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	9673004	110526690	48611973	126	93841											
RBM33	155435	broad.mit.edu	37	chr7	155537721	155537721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagaacagaaacgcctaagaGaagaaatcctgaaacagaag	22	3	9	7	1	0	6	0	1	0	5	1	7	1	6	2	0	3	0	2	0	8	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:155537721G>A	uc010lqk.1	+	14	2772	c.2404G>A	c.(2404-2406)GAA>AAA	p.E802K	RBM33_uc011kvv.1_Missense_Mutation_p.E611K|RBM33_uc003wmg.2_5'Flank	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	802	Potential.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		ACGCCTAAGAGAAGAAATCCT	0.463													4	8					0	0	1	0	0		A	155537721	A	A	155537721	3	1	188	1	0	0	0	0	1	0	0	0	13155	943	33	4	2458	4	RBM33	7	155537721	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	45011031	155537721	3600942	127	93842											
WDR60	55112	broad.mit.edu	37	chr7	158695154	158695154	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagaaaaactggaagaacttCctctagctcaaaaaaaggaa	20	6	8	7	0	2	2	1	0	1	2	3	5	3	4	1	2	3	1	1	2	9	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr7:158695154C>A	uc003woe.3	+	10	1383	c.1225C>A	c.(1225-1227)CCT>ACT	p.P409T	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_5'UTR	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	409										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		GGAAGAACTTCCTCTAGCTCA	0.363													8	45					0.00307968	0.00308748	1	1	0		A	158695154	A	A	158695154	3	1	188	1	0	0	0	0	1	0	0	0	17337	855	30	5	1263	5	WDR60	7	158695154	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	3157433	158695154	443509	128	93843											
CSMD1	64478	broad.mit.edu	37	chr8	3265708	3265708	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggataatttggtgacagaAtaatcccagatgatgccgta	13	11	10	7	1	0	4	0	2	0	2	1	5	1	5	2	2	1	1	2	2	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:3265708A>C	uc011kwk.1	-	14	2177	c.1787T>G	c.(1786-1788)ATT>AGT	p.I596S	CSMD1_uc011kwj.1_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	596	Extracellular (Potential).|CUB 4.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGGTGACAGAATAATCCCAGA	0.368													3	15					0	0	1	0	0		C	3265708	C	C	3265708	3	2	188	1	0	0	0	0	1	0	0	0	3947	101	4	5	9138	5	CSMD1	8	3265708	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		3265708	143098314	129	93844											
SGCZ	137868	broad.mit.edu	37	chr8	13959935	13959935	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcctgcaggtggccttgaAgtctcctgcagcagcactca	7	10	10	14	0	2	1	1	1	1	0	4	1	3	1	3	2	4	4	3	2	1	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:13959935A>C	uc003wwq.2	-	7	1354	c.694T>G	c.(694-696)TTC>GTC	p.F232V	SGCZ_uc010lss.2_Missense_Mutation_p.F185V	NM_139167	NP_631906	Q96LD1	SGCZ_HUMAN	sarcoglycan zeta	219	Extracellular (Potential).				cytoskeleton organization	cytoplasm|cytoskeleton|integral to membrane|sarcolemma				ovary(2)|central_nervous_system(1)	3				all cancers(2;0.000643)|Colorectal(111;0.00674)|COAD - Colon adenocarcinoma(73;0.0193)|GBM - Glioblastoma multiforme(2;0.026)		GTGGCCTTGAAGTCTCCTGCA	0.512													6	61					0	0	1	0	0		C	13959935	C	C	13959935	3	2	188	1	0	0	0	0	1	0	0	0	14229	72	3	5	252	5	SGCZ	8	13959935	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	10694227	13959935	132404087	130	93845											
TUSC3	7991	broad.mit.edu	37	chr8	15480646	15480646	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggagttccagacgctcaatcTtccgaatgaatggtgataaa	13	10	10	8	2	2	3	1	2	1	1	4	5	4	4	2	2	0	2	2	2	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:15480646T>A	uc003wwt.2	+	2	406	c.196T>A	c.(196-198)TTC>ATC	p.F66I	TUSC3_uc003wwr.2_Missense_Mutation_p.F66I|TUSC3_uc003wws.2_Missense_Mutation_p.F66I|TUSC3_uc003wwu.2_Missense_Mutation_p.F66I|TUSC3_uc003wwv.2_Missense_Mutation_p.F66I|TUSC3_uc003www.2_Missense_Mutation_p.F66I|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.F66I	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	66					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		ACGCTCAATCTTCCGAATGAA	0.388													8	71					0	0	1	0	0		A	15480646	A	A	15480646	3	1	188	1	0	0	0	0	1	0	0	0	16804	1609	56	5	202	5	TUSC3	8	15480646	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1520711	15480646	130883376	131	93846											
TUSC3	7991	broad.mit.edu	37	chr8	15605922	15605922	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggcctggtggtcttcttcTtcagttttctactttcaata	5	19	8	9	0	6	0	2	0	4	0	6	0	6	0	1	3	1	1	1	3	3	8			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:15605922T>C	uc003wwt.2	+	9	1186	c.976T>C	c.(976-978)TTC>CTC	p.F326L	TUSC3_uc003wwu.2_Missense_Mutation_p.F326L|TUSC3_uc003wwv.2_Missense_Mutation_p.F326L|TUSC3_uc003www.2_Intron|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Intron	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	326	Helical; (Potential).				cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GGTCTTCTTCTTCAGTTTTCT	0.323													14	102					0	0	1	0	0		C	15605922	C	C	15605922	3	2	188	1	0	0	0	0	1	0	0	0	16804	1609	56	3	1010	3	TUSC3	8	15605922	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	125276	15605922	130758100	132	93847											
RP1	6101	broad.mit.edu	37	chr8	55537320	55537320	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgattgctacttagactattCttttgttcctgaaaagtact	10	18	6	7	0	1	3	0	2	1	1	2	3	2	3	1	0	3	3	1	0	6	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:55537320C>G	uc003xsd.1	+	4	1026	c.878C>G	c.(877-879)TCT>TGT	p.S293C	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	293					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TTAGACTATTCTTTTGTTCCT	0.299													7	56					0	0	1	0	0		G	55537320	G	G	55537320	3	3	188	1	0	0	0	0	1	0	0	0	13557	913	32	5	888	5	RP1	8	55537320	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	39931398	55537320	90826702	133	93848											
RP1	6101	broad.mit.edu	37	chr8	55542278	55542278	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaatctgatattgaaaatTtcttgggtttttatttatgg	12	19	8	2	0	2	3	0	2	2	1	2	3	2	3	0	2	0	1	0	2	7	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:55542278T>A	uc003xsd.1	+	4	5984	c.5836T>A	c.(5836-5838)TTC>ATC	p.F1946I	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1946					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TATTGAAAATTTCTTGGGTTT	0.343													14	86					0	0	1	0	0		A	55542278	A	A	55542278	3	1	188	1	0	0	0	0	1	0	0	0	13557	1841	64	5	5846	5	RP1	8	55542278	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4958	55542278	90821744	134	93849											
TRPA1	8989	broad.mit.edu	37	chr8	72951153	72951153	+	Missense_Mutation	SNP	A	G	G	1	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	ttcattgatgatgccagttgAgttgaaagccattcctggtt	9	15	10	7	0	1	4	1	4	0	0	2	4	2	4	3	1	2	3	3	1	1	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:72951153A>G	uc003xza.2	-	19	2417	c.2242T>C	c.(2242-2244)TCA>CCA	p.S748P	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	748	Extracellular (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	ATGCCAGTTGAGTTGAAAGCC	0.318													8	74					0	0	1	0	0		G	72951153	G	G	72951153	3	3	188	1	0	0	0	0	1	0	0	0	16603	304	11	3	1153	3	TRPA1	8	72951153	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	17408875	72951153	73412869	135	93850											
CRISPLD1	83690	broad.mit.edu	37	chr8	75924709	75924709	+	Silent	SNP	T	A	A	0	1	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	agatctgcagaatcctgggcTgaaagttgcttgtgggaaca	11	10	13	7	0	1	3	0	1	1	2	2	4	2	4	1	2	3	4	1	2	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:75924709T>A	uc003yan.2	+	3	675	c.300T>A	c.(298-300)GCT>GCA	p.A100A	CRISPLD1_uc011lfk.1_5'UTR|CRISPLD1_uc011lfl.1_5'UTR	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	100						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			AATCCTGGGCTGAAAGTTGCT	0.438													7	98					0	0	1	0	0		A	75924709	A	A	75924709	2	1	188	1	0	0	0	0	0	0	0	1	3885	1567	55	5		5	CRISPLD1	8	75924709	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2973556	75924709	70439313	136	93851											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885921	88885921	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgtacttggagcctccagcTtcgacttggttcactgtgaa	7	12	10	12	2	1	1	1	1	0	0	3	3	2	2	3	2	3	3	3	2	2	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:88885921T>G	uc003ydz.2	-	1	376	c.279A>C	c.(277-279)GAA>GAC	p.E93D		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	93										ovary(1)	1						AGCCTCCAGCTTCGACTTGGT	0.547													18	148					0	0	1	0	0		G	88885921	G	G	88885921	3	3	188	1	0	0	0	0	1	0	0	0	4275	1606	56	5	912	5	DCAF4L2	8	88885921	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	12961212	88885921	57478101	137	93852											
MMP16	4325	broad.mit.edu	37	chr8	89131066	89131066	+	Missense_Mutation	SNP	A	C	C	1	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	gagcatgtcccagttcatggActgctacaagaaataagtca	14	9	9	9	0	2	1	2	0	0	1	3	3	3	2	1	1	3	3	1	1	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:89131066A>C	uc003yeb.3	-	5	1016	c.734T>G	c.(733-735)GTC>GGC	p.V245G	MMP16_uc003yec.2_Missense_Mutation_p.V245G	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	245	Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						CAGTTCATGGACTGCTACAAG	0.373													12	46					0	0	1	0	0		C	89131066	C	C	89131066	3	2	188	1	0	0	0	0	1	0	0	0	9673	275	10	5	1269	5	MMP16	8	89131066	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	245145	89131066	57232956	138	93853											
MMP16	4325	broad.mit.edu	37	chr8	89339369	89339369	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatccaaagcaaggtttgcaAgaaaaacacccccgaatgat	18	6	7	10	1	0	2	0	1	0	1	1	3	1	2	3	1	3	3	3	1	7	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:89339369A>C	uc003yeb.3	-	1	349	c.67T>G	c.(67-69)TTG>GTG	p.L23V	MMP16_uc003yec.2_Missense_Mutation_p.L23V	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	23					collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						AAGGTTTGCAAGAAAAACACC	0.493													14	84					0	0	1	0	0		C	89339369	C	C	89339369	3	2	188	1	0	0	0	0	1	0	0	0	9673	69	3	5	1952	5	MMP16	8	89339369	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	208303	89339369	57024653	139	93854											
PGCP	10404	broad.mit.edu	37	chr8	97797501	97797501	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctgtgatgctggagccaAgaattcataagatagccatc	13	9	10	9	0	1	3	1	1	0	2	2	4	1	4	2	1	4	2	2	1	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:97797501A>C	uc003yhw.2	+	2	542	c.376A>C	c.(376-378)AGA>CGA	p.R126R	PGCP_uc010mbe.2_Silent_p.R126R	NM_016134	NP_057218	Q9Y646	PGCP_HUMAN	plasma glutamate carboxypeptidase precursor	126					peptide metabolic process|proteolysis	cytoplasm|extracellular space	metal ion binding|metallocarboxypeptidase activity			upper_aerodigestive_tract(1)	1	Breast(36;1.86e-05)					GCTGGAGCCAAGAATTCATAA	0.463													6	45					0	0	1	0	0		C	97797501	C	C	97797501	2	2	188	1	0	0	0	0	0	0	0	1	11805	64	3	5		5	PGCP	8	97797501	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	8458132	97797501	48566521	140	93855											
UBR5	51366	broad.mit.edu	37	chr8	103357767	103357767	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcatcaaggagagacataAgatcctctataaacagaaac	18	6	8	9	1	2	3	1	0	1	3	3	5	3	4	1	2	2	1	1	2	6	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:103357767A>C	uc003ykr.1	-	8	776	c.743T>G	c.(742-744)CTT>CGT	p.L248R	UBR5_uc003yks.1_Missense_Mutation_p.L248R	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	248					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GAGAGACATAAGATCCTCTAT	0.383													5	35					0	0	1	0	0		C	103357767	C	C	103357767	3	2	188	1	0	0	0	0	1	0	0	0	16931	72	3	5	7864	5	UBR5	8	103357767	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	5560266	103357767	43006255	141	93856											
DPYS	1807	broad.mit.edu	37	chr8	105436539	105436539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagctattcttccttttcTtggatagagattaaaaattt	12	18	5	6	0	2	1	0	0	2	1	3	3	3	2	1	1	2	1	1	1	6	10			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:105436539T>C	uc003yly.3	-	7	1300	c.1171A>G	c.(1171-1173)AGA>GGA	p.R391G		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	391					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTTCCTTTTCTTGGATAGAGA	0.373													10	86					0	0	1	0	0		C	105436539	C	C	105436539	3	2	188	1	0	0	0	0	1	0	0	0	4752	1617	56	3	400	3	DPYS	8	105436539	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2078772	105436539	40927483	142	93857											
TRHR	7201	broad.mit.edu	37	chr8	110100172	110100172	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacattttccagagccaaaaAgattatcatctttgtctggg	12	13	7	9	0	3	2	1	0	2	2	4	2	4	2	2	1	1	0	2	1	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:110100172A>T	uc003ymz.3	+	1	447	c.431A>T	c.(430-432)AAG>ATG	p.K144M		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	144	Cytoplasmic (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			AGAGCCAAAAAGATTATCATC	0.408													8	86					0	0	1	0	0		T	110100172	T	T	110100172	3	4	188	1	0	0	0	0	1	0	0	0	16506	72	3	5	433	5	TRHR	8	110100172	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	4663633	110100172	36263850	143	93858											
PKHD1L1	93035	broad.mit.edu	37	chr8	110445390	110445390	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttctggattttctcctagTtcagctgtaacagtctcagt	7	16	9	9	0	4	0	2	0	3	0	6	1	4	1	1	2	2	4	1	2	2	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:110445390T>G	uc003yne.2	+	28	3389	c.3285T>G	c.(3283-3285)AGT>AGG	p.S1095R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1095	Extracellular (Potential).|IPT/TIG 4.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTTCTCCTAGTTCAGCTGTAA	0.338										HNSCC(38;0.096)			27	206					0	0	1	0	0		G	110445390	G	G	110445390	3	3	188	1	0	0	0	0	1	0	0	0	11991	1722	60	5	3395	5	PKHD1L1	8	110445390	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	345218	110445390	35918632	144	93859											
CSMD3	114788	broad.mit.edu	37	chr8	113304877	113304877	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgttaccacatcattaaAgttgaacccatttccacttg	13	13	5	10	0	1	1	1	1	0	0	2	2	2	1	3	0	2	2	3	0	5	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:113304877A>G	uc003ynu.2	-	55	8836	c.8677T>C	c.(8677-8679)TTT>CTT	p.F2893L	CSMD3_uc003yns.2_Missense_Mutation_p.F2095L|CSMD3_uc003ynt.2_Missense_Mutation_p.F2853L|CSMD3_uc011lhx.1_Missense_Mutation_p.F2724L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2893	Extracellular (Potential).|Sushi 19.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACATCATTAAAGTTGAACCCA	0.468										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			9	104					0	0	1	0	0		G	113304877	G	G	113304877	3	3	188	1	0	0	0	0	1	0	0	0	3949	72	3	3	2514	3	CSMD3	8	113304877	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	2859487	113304877	33059145	145	93860											
CSMD3	114788	broad.mit.edu	37	chr8	113348960	113348960	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccattcccagggggtactcTtacaagccaaaaacaatctt	13	9	7	12	0	2	0	0	0	2	0	3	0	3	0	3	2	4	1	3	2	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:113348960T>C	uc003ynu.2	-	44	7099	c.6940A>G	c.(6940-6942)AGA>GGA	p.R2314G	CSMD3_uc003yns.2_Missense_Mutation_p.R1516G|CSMD3_uc003ynt.2_Missense_Mutation_p.R2274G|CSMD3_uc011lhx.1_Missense_Mutation_p.R2210G|CSMD3_uc003ynw.1_Missense_Mutation_p.R25G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2314	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						GGGGGTACTCTTACAAGCCAA	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	146					0	0	1	0	0		C	113348960	C	C	113348960	3	2	188	1	0	0	0	0	1	0	0	0	3949	1617	56	3	4295	3	CSMD3	8	113348960	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	44083	113348960	33015062	146	93861											
CSMD3	114788	broad.mit.edu	37	chr8	113933896	113933896	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactccaagcagcaaaaacTtcagctatccgttgacaggt	13	9	7	12	1	2	1	2	1	0	0	4	1	4	1	2	1	4	4	2	1	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:113933896T>A	uc003ynu.2	-	10	1752	c.1593A>T	c.(1591-1593)GAA>GAT	p.E531D	CSMD3_uc003ynt.2_Missense_Mutation_p.E491D|CSMD3_uc011lhx.1_Missense_Mutation_p.E427D	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	531	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CAGCAAAAACTTCAGCTATCC	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			8	79					0	0	1	0	0		A	113933896	A	A	113933896	3	1	188	1	0	0	0	0	1	0	0	0	3949	1606	56	5	9778	5	CSMD3	8	113933896	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	584936	113933896	32430126	147	93862											
TRPS1	7227	broad.mit.edu	37	chr8	116631822	116631822	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtagcctttggtgacatcTtctgatcttcctttgtctcc	4	18	7	12	0	4	2	0	2	4	0	6	2	5	2	3	1	1	1	3	1	1	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:116631822T>G	uc003ynz.2	-	2	923	c.464A>C	c.(463-465)AAG>ACG	p.K155T	TRPS1_uc011lhy.1_Missense_Mutation_p.K159T|TRPS1_uc003yny.2_Missense_Mutation_p.K168T|TRPS1_uc010mcy.2_Missense_Mutation_p.K155T	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	155					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGGTGACATCTTCTGATCTTC	0.517									Langer-Giedion_syndrome				15	100					0	0	1	0	0		G	116631822	G	G	116631822	3	3	188	1	0	0	0	0	1	0	0	0	16619	1609	56	5	3401	5	TRPS1	8	116631822	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2697926	116631822	29732200	148	93863											
HAS2	3037	broad.mit.edu	37	chr8	122626941	122626941	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccattctcggaagtaggacTtgctccaacgggtctgctgg	7	10	13	11	2	2	0	0	0	2	0	4	2	3	2	2	4	3	3	2	4	3	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:122626941T>G	uc003yph.2	-	4	1605	c.1067A>C	c.(1066-1068)AAG>ACG	p.K356T		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	356	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			GAAGTAGGACTTGCTCCAACG	0.438													14	124					0	0	1	0	0		G	122626941	G	G	122626941	3	3	188	1	0	0	0	0	1	0	0	0	6978	1609	56	5	595	5	HAS2	8	122626941	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	5995119	122626941	23737081	149	93864											
TG	7038	broad.mit.edu	37	chr8	133912519	133912519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgcaggcatcgggggctgGcacctggtgtgtggaccctg	4	8	18	11	1	0	0	0	0	0	0	1	1	0	1	2	6	1	5	2	6	0	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:133912519G>A	uc003ytw.2	+	15	3409	c.3368G>A	c.(3367-3369)GGC>GAC	p.G1123D	TG_uc010mdw.2_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1123	Thyroglobulin type-1 9.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCGGGGGCTGGCACCTGGTGT	0.617													8	30					0	0	1	0	0		A	133912519	A	A	133912519	3	1	188	1	0	0	0	0	1	0	0	0	15838	1203	42	2	3426	2	TG	8	133912519	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	11285578	133912519	12451503	150	93865											
ST3GAL1	6482	broad.mit.edu	37	chr8	134477158	134477158	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agatggtgggtggtcttggtCccaacatcagcttcaaaccc	9	10	11	11	0	3	1	2	0	1	1	4	1	4	1	2	4	3	1	2	4	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:134477158C>T	uc003yuk.2	-	7	1375	c.546G>A	c.(544-546)GGG>GGA	p.G182G	ST3GAL1_uc003yum.2_Silent_p.G182G	NM_173344	NP_775479	Q11201	SIA4A_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	182	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_epithelial(106;1.53e-23)|Lung NSC(106;3.15e-07)|all_lung(105;1.26e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.00721)			TGGTCTTGGTCCCAACATCAG	0.567													34	195					0	0	1	0	0		T	134477158	T	T	134477158	2	4	188	1	0	0	0	0	0	0	0	1	15239	842	30	4		4	ST3GAL1	8	134477158	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	564639	134477158	11886864	151	93866											
CYP11B1	1584	broad.mit.edu	37	chr8	143956698	143956698	+	Silent	SNP	T	A	A	0	1	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	accaagtctgagctcgccacTcgctccagaaacagacccac	12	5	7	17	2	1	3	0	1	1	2	4	3	2	3	4	0	2	2	4	0	2	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr8:143956698T>A	uc003yxi.2	-	7	1159	c.1152A>T	c.(1150-1152)CGA>CGT	p.R384R	CYP11B1_uc010mex.2_Silent_p.R83R|CYP11B1_uc003yxh.2_Silent_p.R100R|CYP11B1_uc003yxj.2_Silent_p.R384R|CYP11B1_uc010mey.2_Silent_p.R455R	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	384					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	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)				Mitotane(DB00648)	AGCTCGCCACTCGCTCCAGAA	0.607									Familial_Hyperaldosteronism_type_I				5	37					0	0	1	0	0		A	143956698	A	A	143956698	2	1	188	1	0	0	0	0	0	0	0	1	4148	1538	54	5		5	CYP11B1	8	143956698	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	9479540	143956698	2407324	152	93867											
PTPRD	5789	broad.mit.edu	37	chr9	8436611	8436611	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcatattcctgggaaaacTtcaagttgtcatttgctttc	9	16	6	10	0	3	0	3	0	0	0	5	1	4	1	2	1	2	2	2	1	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:8436611T>G	uc003zkk.2	-	34	4778	c.4067A>C	c.(4066-4068)AAG>ACG	p.K1356T	PTPRD_uc003zkp.2_Missense_Mutation_p.K950T|PTPRD_uc003zkq.2_Missense_Mutation_p.K949T|PTPRD_uc003zkr.2_Missense_Mutation_p.K940T|PTPRD_uc003zks.2_Missense_Mutation_p.K949T|PTPRD_uc003zkl.2_Missense_Mutation_p.K1347T|PTPRD_uc003zkm.2_Missense_Mutation_p.K1343T|PTPRD_uc003zkn.2_Missense_Mutation_p.K945T|PTPRD_uc003zko.2_Missense_Mutation_p.K946T	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1356	Cytoplasmic (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CTGGGAAAACTTCAAGTTGTC	0.338										TSP Lung(15;0.13)			26	45					0	0	1	0	0		G	8436611	G	G	8436611	3	3	188	1	0	0	0	0	1	0	0	0	12824	1609	56	5	1719	5	PTPRD	9	8436611	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		8436611	132776820	153	93868											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18776993	18776993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcacctcatcagctcgacGcacgtcacggtggccccctt	7	7	9	18	4	3	0	3	0	0	0	4	1	3	0	3	2	2	3	3	2	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:18776993G>A	uc003zne.3	+	19	2893	c.2766G>A	c.(2764-2766)ACG>ACA	p.T922T		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	922	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TCAGCTCGACGCACGTCACGG	0.692													27	54					0	0	1	0	0		A	18776993	A	A	18776993	2	1	188	1	0	0	0	0	0	0	0	1	274	1074	38	1		1	ADAMTSL1	9	18776993	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	10340382	18776993	122436438	154	93869											
MAMDC2	256691	broad.mit.edu	37	chr9	72783642	72783642	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcatgagcctatgcaaaAgtttctgggactgtgggctt	8	15	11	7	0	2	1	1	1	1	0	2	2	2	2	1	2	2	3	1	2	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:72783642A>T	uc004ahm.2	+	10	2046	c.1429A>T	c.(1429-1431)AGT>TGT	p.S477C	MAMDC2_uc004ahn.2_RNA|uc004aho.1_Intron	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	477	MAM 3.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						CCTATGCAAAAGTTTCTGGGA	0.398													26	65					0	0	1	0	0		T	72783642	T	T	72783642	3	4	188	1	0	0	0	0	1	0	0	0	9221	72	3	5	1467	5	MAMDC2	9	72783642	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	54006649	72783642	68429789	155	93870											
FAM75C1	441452	broad.mit.edu	37	chr9	90537213	90537213	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagcttaggagcccaatcTtcaagggctggagagaccag	12	6	14	9	0	2	1	1	0	1	1	2	5	2	4	2	4	2	2	2	4	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:90537213T>G	uc010mqi.2	+	4	2420	c.2391T>G	c.(2389-2391)TCT>TCG	p.S797S	FAM75C1_uc004apq.3_Silent_p.S780S	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						GAGCCCAATCTTCAAGGGCTG	0.587													25	63					0	0	1	0	0		G	90537213	G	G	90537213	2	3	188	1	0	0	0	0	0	0	0	1	5637	1596	56	5		5	FAM75C1	9	90537213	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	17753571	90537213	50676218	156	93871											
GRIN3A	116443	broad.mit.edu	37	chr9	104433163	104433163	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactctcaagtgtagcttacTtggatgttggaagtgggttt	8	15	12	6	0	1	0	1	0	1	0	2	2	1	2	0	3	2	4	0	3	4	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:104433163T>G	uc004bbp.1	-	3	2132	c.1531A>C	c.(1531-1533)AGT>CGT	p.S511R	GRIN3A_uc004bbq.1_Missense_Mutation_p.S511R	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	511	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TGTAGCTTACTTGGATGTTGG	0.522													41	96					0	0	1	0	0		G	104433163	G	G	104433163	3	3	188	1	0	0	0	0	1	0	0	0	6799	1609	56	5	1844	5	GRIN3A	9	104433163	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	13895950	104433163	36780268	157	93872											
SVEP1	79987	broad.mit.edu	37	chr9	113276307	113276307	+	Silent	SNP	G	A	A	0	0	1	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	gtgcttccaggtggagaggtGtgattttcatcaggacatgg	8	12	15	6	0	2	2	2	1	0	1	3	4	3	3	1	5	1	1	1	5	0	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:113276307G>A	uc010mtz.2	-	4	1381	c.1044C>T	c.(1042-1044)CAC>CAT	p.H348H	SVEP1_uc010mua.1_Silent_p.H348H|SVEP1_uc004beu.2_Silent_p.H348H|SVEP1_uc004bev.2_Silent_p.H92H	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	348					cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						GTGGAGAGGTGTGATTTTCAT	0.512													9	14					0	0	1	0	0		A	113276307	A	A	113276307	2	1	188	1	0	0	0	0	0	0	0	1	15445	1368	48	4		4	SVEP1	9	113276307	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	8843144	113276307	27937124	158	93873											
C9orf43	257169	broad.mit.edu	37	chr9	116191605	116191605	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaactctgagctcaaactacTtaggattcttcaggacactg	12	11	8	10	0	4	1	2	1	2	0	4	4	4	3	0	2	4	1	0	2	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:116191605T>G	uc004bho.3	+	14	1721	c.1325T>G	c.(1324-1326)CTT>CGT	p.L442R	C9orf43_uc004bhp.2_Missense_Mutation_p.L442R	NM_152786	NP_689999	Q8TAL5	CI043_HUMAN	hypothetical protein LOC257169	442											0						CTCAAACTACTTAGGATTCTT	0.517													7	79					0	0	1	0	0		G	116191605	G	G	116191605	3	3	188	1	0	0	0	0	1	0	0	0	2486	1609	56	5	1375	5	C9orf43	9	116191605	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2915298	116191605	25021826	159	93874											
DBC1	1620	broad.mit.edu	37	chr9	121929578	121929578	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aacaagaggagcatcactgaCgaagaggaatagaactggcc	17	4	12	8	1	1	4	1	1	0	3	1	7	1	6	1	3	3	1	1	3	6	1	rs141113114		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:121929578C>T	uc004bkc.2	-	8	2526	c.2070G>A	c.(2068-2070)TCG>TCA	p.S690S		NM_014618	NP_055433	O60477	DBC1_HUMAN	deleted in bladder cancer 1 precursor	690					cell cycle arrest|cell death	cytoplasm	protein binding			skin(3)|ovary(2)|central_nervous_system(2)|large_intestine(1)	8						GCATCACTGACGAAGAGGAAT	0.572													10	179					0	0	1	0	0		T	121929578	T	T	121929578	2	4	188	1	0	0	0	0	0	0	0	1	4250	523	19	1		1	DBC1	9	121929578	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	5737973	121929578	19283853	160	93875											
TTLL11	158135	broad.mit.edu	37	chr9	124751548	124751548	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttgagctctggagtcagcgCgatgaccgtcttaatcacca	9	11	10	11	3	4	2	2	2	2	0	4	4	4	3	2	1	2	1	2	1	1	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:124751548C>T	uc004blt.1	-	4	1653	c.1465G>A	c.(1465-1467)GCG>ACG	p.A489T	TTLL11_uc011lyl.1_Missense_Mutation_p.A489T|TTLL11_uc004blr.2_RNA|TTLL11_uc011lym.1_Missense_Mutation_p.A166T|TTLL11_uc004blu.1_3'UTR	NM_194252	NP_919228	Q8NHH1	TTL11_HUMAN	tubulin tyrosine ligase-like family, member 11	489	TTL.				protein modification process	cilium|microtubule basal body	tubulin-tyrosine ligase activity				0						GGAGTCAGCGCGATGACCGTC	0.542													7	121					0	0	1	0	0		T	124751548	T	T	124751548	3	4	188	1	0	0	0	0	1	0	0	0	16750	768	27	1	1039	1	TTLL11	9	124751548	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	2821970	124751548	16461883	161	93876											
TTLL11	158135	broad.mit.edu	37	chr9	124751858	124751858	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatacagacgaatatcaaaCttgagcttgtcgataaggag	16	9	9	7	2	1	2	1	1	0	1	2	5	1	3	0	1	3	1	0	1	5	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:124751858C>G	uc004blt.1	-	4	1343	c.1155G>C	c.(1153-1155)AAG>AAC	p.K385N	TTLL11_uc011lyl.1_Missense_Mutation_p.K385N|TTLL11_uc004blr.2_RNA|TTLL11_uc011lym.1_Missense_Mutation_p.K62N|TTLL11_uc004blu.1_3'UTR	NM_194252	NP_919228	Q8NHH1	TTL11_HUMAN	tubulin tyrosine ligase-like family, member 11	385	TTL.				protein modification process	cilium|microtubule basal body	tubulin-tyrosine ligase activity				0						GAATATCAAACTTGAGCTTGT	0.493													7	103					0	0	1	0	0		G	124751858	G	G	124751858	3	3	188	1	0	0	0	0	1	0	0	0	16750	564	20	5	1349	5	TTLL11	9	124751858	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	310	124751858	16461573	162	93877											
SLC27A4	10999	broad.mit.edu	37	chr9	131117714	131117714	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgagctgggctacctgtaCttccgagaccgcactgggga	8	7	14	12	3	0	1	0	0	0	1	1	5	1	2	3	3	3	4	3	3	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr9:131117714C>A	uc004but.2	+	11	1784	c.1500C>A	c.(1498-1500)TAC>TAA	p.Y500*	SLC27A4_uc004buu.2_Nonsense_Mutation_p.Y94*	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	500					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GCTACCTGTACTTCCGAGACC	0.642													10	35					2.74318e-10	2.79254e-10	1	1	0		A	131117714	A	A	131117714	4	1	188	1	0	0	0	0	0	1	0	0	14553	576	20	5	1538	5	SLC27A4	9	131117714	Nonsense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	6365856	131117714	10095717	163	93878											
ARMC4	55130	broad.mit.edu	37	chr10	28270420	28270420	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagacatattttctgaaaatTttggtgatttttctcttaaa	12	20	5	4	0	2	3	0	2	2	1	3	3	2	3	0	1	0	0	0	1	6	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr10:28270420T>G	uc009xky.2	-	7	1009	c.911A>C	c.(910-912)AAA>ACA	p.K304T	ARMC4_uc010qds.1_5'UTR|ARMC4_uc010qdt.1_5'UTR|ARMC4_uc001itz.2_Missense_Mutation_p.K304T|ARMC4_uc010qdu.1_5'UTR	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	304							binding			ovary(4)|skin(2)	6						TTCTGAAAATTTTGGTGATTT	0.294													9	75					0	0	1	0	0		G	28270420	G	G	28270420	3	3	188	1	0	0	0	0	1	0	0	0	954	1841	64	5	2279	5	ARMC4	10	28270420	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		28270420	107264327	164	93879											
ERCC6	2074	broad.mit.edu	37	chr10	50681583	50681583	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtagtggtaccatccatcttGagataggtatacttttgggc	9	14	11	7	0	1	1	0	1	1	1	2	2	2	1	2	3	2	3	2	3	5	8			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr10:50681583G>C	uc001jhs.3	-	14	2803	c.2649C>G	c.(2647-2649)CTC>CTG	p.L883L	ERCC6_uc009xod.2_Silent_p.L43L|ERCC6_uc010qgr.1_Silent_p.L253L|ERCC6_uc001jhr.3_Silent_p.L251L	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	883	Helicase C-terminal.				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						CATCCATCTTGAGATAGGTAT	0.433								Direct_reversal_of_damage|NER					16	130					0	0	1	0	0		C	50681583	C	C	50681583	2	2	188	1	0	0	0	0	0	0	0	1	5225	1277	45	5		5	ERCC6	10	50681583	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	22411163	50681583	84853164	165	93880											
PCDH15	65217	broad.mit.edu	37	chr10	55581742	55581742	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaagggcacatagtttgaAgttctgaaacatttgtgcgt	11	13	11	6	1	1	3	0	3	1	0	1	3	1	3	0	1	2	3	0	1	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr10:55581742A>C	uc001jju.1	-	33	6139	c.5744T>G	c.(5743-5745)CTT>CGT	p.L1915R	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Missense_Mutation_p.L769R|PCDH15_uc010qhv.1_Missense_Mutation_p.L1912R|PCDH15_uc010qhw.1_Missense_Mutation_p.L1875R|PCDH15_uc010qhx.1_Missense_Mutation_p.L1846R|PCDH15_uc010qhy.1_Missense_Mutation_p.L1922R|PCDH15_uc010qhz.1_Missense_Mutation_p.L1917R|PCDH15_uc010qia.1_Missense_Mutation_p.L1895R|PCDH15_uc010qib.1_Missense_Mutation_p.L1892R	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1915	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CATAGTTTGAAGTTCTGAAAC	0.343										HNSCC(58;0.16)			20	97					0	0	1	0	0		C	55581742	C	C	55581742	3	2	188	1	0	0	0	0	1	0	0	0	11530	72	3	5	1733	5	PCDH15	10	55581742	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	4900159	55581742	79953005	166	93881											
NRBF2	29982	broad.mit.edu	37	chr10	64913946	64913946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcctcttatggagctctctGaggatattctgaaaggattt	9	16	9	7	0	3	2	0	2	3	0	5	5	4	5	1	3	1	1	1	3	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr10:64913946G>A	uc001jmj.3	+	4	1056	c.832G>A	c.(832-834)GAG>AAG	p.E278K	NRBF2_uc010qip.1_Missense_Mutation_p.E268K	NM_030759	NP_110386	Q96F24	NRBF2_HUMAN	nuclear receptor binding factor 2	278					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	cytoplasm|nucleoplasm	protein binding				0	Prostate(12;0.0119)|all_hematologic(501;0.191)					GGAGCTCTCTGAGGATATTCT	0.393													10	49					0	0	1	0	0		A	64913946	A	A	64913946	3	1	188	1	0	0	0	0	1	0	0	0	10660	1291	45	4	846	4	NRBF2	10	64913946	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	9332204	64913946	70620801	167	93882											
C10orf12	26148	broad.mit.edu	37	chr10	98742710	98742710	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctctgctgacagatgcctAagaaatcagagttcagattc	12	11	8	10	0	3	5	2	1	1	4	5	5	4	5	2	0	2	2	2	0	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr10:98742710A>G	uc001kmv.2	+	1	1670	c.1563A>G	c.(1561-1563)CTA>CTG	p.L521L		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	521										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		ACAGATGCCTAAGAAATCAGA	0.408													21	97					0	0	1	0	0		G	98742710	G	G	98742710	2	3	188	1	0	0	0	0	0	0	0	1	1592	349	13	3		3	C10orf12	10	98742710	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	33828764	98742710	36792037	168	93883											
CPXM2	119587	broad.mit.edu	37	chr10	125506356	125506356	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacgggctgcttcccaaacTtctccatgatctctcggatc	7	12	8	14	2	2	2	0	2	2	0	7	3	3	3	2	2	2	2	2	2	1	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr10:125506356T>G	uc001lhk.1	-	14	2520	c.2195A>C	c.(2194-2196)AAG>ACG	p.K732T	CPXM2_uc001lhj.2_Intron	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	732					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		CTTCCCAAACTTCTCCATGAT	0.582													13	93					0	0	1	0	0		G	125506356	G	G	125506356	3	3	188	1	0	0	0	0	1	0	0	0	3841	1609	56	5	79	5	CPXM2	10	125506356	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	26763646	125506356	10028391	169	93884											
MUC5B	727897	broad.mit.edu	37	chr11	1284366	1284366	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgggtgcagagcggggccttCcccacaccggggcctgcctc	4	6	15	16	2	0	1	0	0	0	1	2	1	1	1	6	5	3	1	6	5	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:1284366C>G	uc009ycr.1	+	73	18549	c.18423C>G	c.(18421-18423)TTC>TTG	p.F6141L		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	Error:Variant_position_missing_in_Q9HC84_after_alignment					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCGGGGCCTTCCCCACACCGG	0.652													4	33					0	0	1	0	0		G	1284366	G	G	1284366	3	3	188	1	0	0	0	0	1	0	0	0	9997	870	30	5		5	MUC5B	11	1284366	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08		1284366	133722150	170	93885											
IGF2	3481	broad.mit.edu	37	chr11	2154862	2154862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcactcctcaacgatgccaCggctgcgacggctcacacgg	9	5	11	16	5	2	0	2	0	0	0	3	2	3	0	2	3	4	3	2	3	1	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:2154862C>T	uc009yde.2	-	3	294	c.191G>A	c.(190-192)CGT>CAT	p.R64H	IGF2_uc001lvf.2_RNA|IGF2_uc001lvg.2_Missense_Mutation_p.R64H|IGF2_uc009ydf.2_Missense_Mutation_p.R120H|IGF2_uc001lvh.2_Missense_Mutation_p.R64H|INS-IGF2_uc001lvi.2_RNA	NM_001007139	NP_001007140	P01344	IGF2_HUMAN	insulin-like growth factor 2 isoform 1	64	C.				glucose metabolic process|ossification|phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling|positive regulation of activated T cell proliferation|positive regulation of cell division|positive regulation of glycogen (starch) synthase activity|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|skeletal system development	extracellular space	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|protein serine/threonine kinase activator activity|receptor activator activity			central_nervous_system(1)	1		all_epithelial(84;5.04e-06)|Breast(177;0.000777)|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;0.0179)|COAD - Colon adenocarcinoma(6;0.029)	BRCA - Breast invasive adenocarcinoma(625;1.09e-05)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		AACGATGCCACGGCTGCGACG	0.657													8	35					0	0	1	0	0		T	2154862	T	T	2154862	3	4	188	1	0	0	0	0	1	0	0	0	7588	536	19	1	359	1	IGF2	11	2154862	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	870496	2154862	132851654	171	93886											
OR52A1	23538	broad.mit.edu	37	chr11	5172765	5172765	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcaagtaaatgctagaaaAgagaatatggatataagggg	19	7	12	3	0	0	2	0	0	0	2	0	4	0	3	0	3	2	3	0	3	10	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:5172765A>G	uc010qyy.1	-	1	835	c.835T>C	c.(835-837)TTT>CTT	p.F279L		NM_012375	NP_036507	Q9UKL2	O52A1_HUMAN	olfactory receptor, family 52, subfamily A,	279	Helical; Name=7; (Potential).				sensory perception of smell	integral to plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.00106)|Breast(177;0.0155)|all_neural(188;0.0189)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ATGCTAGAAAAGAGAATATGG	0.433													14	91					0	0	1	0	0		G	5172765	G	G	5172765	3	3	188	1	0	0	0	0	1	0	0	0	11127	72	3	3	105	3	OR52A1	11	5172765	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3017903	5172765	129833751	172	93887											
HBD	3045	broad.mit.edu	37	chr11	5255610	5255610	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaactgcatccacgttcacTttgccccacagggcattgac	9	9	7	16	1	1	1	1	1	0	0	2	1	2	1	4	1	3	3	4	1	1	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:5255610T>G	uc001maf.1	-	1	249	c.54A>C	c.(52-54)AAA>AAC	p.K18N		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	18					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CCACGTTCACTTTGCCCCACA	0.502													12	55					0	0	1	0	0		G	5255610	G	G	5255610	3	3	188	1	0	0	0	0	1	0	0	0	6995	1606	56	5	401	5	HBD	11	5255610	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	82845	5255610	129750906	173	93888											
OR52N5	390075	broad.mit.edu	37	chr11	5799454	5799454	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggtagcataacgcaaaggGtagcaaatggctacatagcg	14	7	13	7	2	0	0	0	0	0	0	0	0	0	0	0	3	5	6	0	3	7	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:5799454G>C	uc010qzn.1	-	1	411	c.411C>G	c.(409-411)TAC>TAG	p.Y137*	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	137	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		AACGCAAAGGGTAGCAAATGG	0.507													17	101					0	0	1	0	0		C	5799454	C	C	5799454	4	2	188	1	0	0	0	0	0	1	0	0	11149	1256	44	5	567	5	OR52N5	11	5799454	Nonsense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	543844	5799454	129207062	174	93889											
NAV2	89797	broad.mit.edu	37	chr11	20066813	20066813	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtcggtctgctggtcggaagTcaagtatggatggggctcag	7	10	17	7	2	3	0	2	0	1	0	5	2	3	2	0	6	1	3	0	6	3	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:20066813T>G	uc010rdm.1	+	15	3929	c.3568T>G	c.(3568-3570)TCA>GCA	p.S1190A	NAV2_uc001mpp.2_Missense_Mutation_p.S1103A|NAV2_uc001mpr.3_Missense_Mutation_p.S1167A|NAV2_uc001mpt.2_Missense_Mutation_p.S253A|NAV2_uc009yhx.2_Missense_Mutation_p.S253A|NAV2_uc009yhy.1_Missense_Mutation_p.S166A	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	1190						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TGGTCGGAAGTCAAGTATGGA	0.557													9	63					0	0	1	0	0		G	20066813	G	G	20066813	3	3	188	1	0	0	0	0	1	0	0	0	10202	1667	58	5	3662	5	NAV2	11	20066813	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	14267359	20066813	114939703	175	93890											
OR4A47	403253	broad.mit.edu	37	chr11	48510658	48510658	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctctttatcgagcacatttTcggtgggtcagaggtctttc	6	15	11	9	2	3	1	1	0	2	1	6	2	3	1	0	3	1	2	0	3	1	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:48510658T>C	uc010rhx.1	+	1	314	c.314T>C	c.(313-315)TTC>TCC	p.F105S		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAGCACATTTTCGGTGGGTCA	0.453													12	104					0	0	1	0	0		C	48510658	C	C	48510658	3	2	188	1	0	0	0	0	1	0	0	0	11061	1783	62	3	316	3	OR4A47	11	48510658	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	28443845	48510658	86495858	176	93891											
OR5L2	26338	broad.mit.edu	37	chr11	55595086	55595086	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggccatctgtaaccccctgcTgtacatggtgaccatgtctc	7	11	9	14	0	2	1	0	1	2	0	3	1	2	1	4	2	3	3	4	2	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:55595086T>C	uc001nhy.1	+	1	392	c.392T>C	c.(391-393)CTG>CCG	p.L131P		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				AACCCCCTGCTGTACATGGTG	0.522										HNSCC(27;0.073)			28	121					0	0	1	0	0		C	55595086	C	C	55595086	3	2	188	1	0	0	0	0	1	0	0	0	11190	1580	55	3	394	3	OR5L2	11	55595086	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	7084428	55595086	79411430	177	93892											
OR5L2	26338	broad.mit.edu	37	chr11	55595254	55595254	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctaccccctctcctaagtcTtgcttgctctgatgtcactg	5	15	6	15	0	5	1	1	1	4	0	6	1	5	1	3	0	3	2	3	0	2	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:55595254T>G	uc001nhy.1	+	1	560	c.560T>G	c.(559-561)CTT>CGT	p.L187R		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CTCCTAAGTCTTGCTTGCTCT	0.453										HNSCC(27;0.073)			35	193					0	0	1	0	0		G	55595254	G	G	55595254	3	3	188	1	0	0	0	0	1	0	0	0	11190	1609	56	5	562	5	OR5L2	11	55595254	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	168	55595254	79411262	178	93893											
CTNND1	1500	broad.mit.edu	37	chr11	57577603	57577603	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgctcagaaaaagaagttCgagcagcagcacttgtatta	15	8	9	9	2	1	2	1	0	0	2	2	3	1	2	1	0	3	6	1	0	5	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:57577603C>T	uc001nmc.3	+	16	3029	c.2458C>T	c.(2458-2460)CGA>TGA	p.R820*	CTNND1_uc001nlh.1_Nonsense_Mutation_p.R820*|CTNND1_uc001nlu.3_Nonsense_Mutation_p.R713*|CTNND1_uc001nlt.3_Nonsense_Mutation_p.R713*|CTNND1_uc001nls.3_Nonsense_Mutation_p.R713*|CTNND1_uc001nlw.3_Nonsense_Mutation_p.R713*|CTNND1_uc001nmf.3_Nonsense_Mutation_p.R820*|CTNND1_uc001nmd.3_Nonsense_Mutation_p.R766*|CTNND1_uc001nlk.3_Nonsense_Mutation_p.R766*|CTNND1_uc001nme.3_Nonsense_Mutation_p.R814*|CTNND1_uc001nll.3_Nonsense_Mutation_p.R760*|CTNND1_uc001nmg.3_Nonsense_Mutation_p.R760*|CTNND1_uc001nlj.3_Nonsense_Mutation_p.R760*|CTNND1_uc001nlr.3_Nonsense_Mutation_p.R760*|CTNND1_uc001nlp.3_Nonsense_Mutation_p.R760*|CTNND1_uc001nlx.3_Nonsense_Mutation_p.R497*|CTNND1_uc001nlz.3_Nonsense_Mutation_p.R497*|CTNND1_uc009ymn.2_Nonsense_Mutation_p.R491*|CTNND1_uc001nlm.3_Nonsense_Mutation_p.R814*|CTNND1_uc001nly.3_Nonsense_Mutation_p.R491*|CTNND1_uc001nmb.3_Nonsense_Mutation_p.R491*|CTNND1_uc001nma.3_Nonsense_Mutation_p.R491*|CTNND1_uc001nmi.3_Nonsense_Mutation_p.R719*|CTNND1_uc001nmh.3_Nonsense_Mutation_p.R814*|CTNND1_uc001nlq.3_Nonsense_Mutation_p.R719*|CTNND1_uc001nln.3_Nonsense_Mutation_p.R814*|CTNND1_uc001nli.3_Nonsense_Mutation_p.R814*|CTNND1_uc001nlo.3_Nonsense_Mutation_p.R713*|CTNND1_uc001nlv.3_Nonsense_Mutation_p.R713*	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	820	ARM 10.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)				AAAAGAAGTTCGAGCAGCAGC	0.398													5	33					0	0	1	0	0		T	57577603	T	T	57577603	4	4	188	1	0	0	0	0	0	1	0	0	4022	876	31	1	2512	1	CTNND1	11	57577603	Nonsense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	1982349	57577603	77428913	179	93894											
MPEG1	219972	broad.mit.edu	37	chr11	58979956	58979956	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggaactcagtggaaaacTtgccattgactttggaaaaa	14	11	9	7	0	2	1	1	1	1	0	2	4	2	4	1	3	3	0	1	3	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:58979956T>C	uc001nnu.3	-	1	539	c.383A>G	c.(382-384)AAG>AGG	p.K128R		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	128	MACPF.|Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				AGTGGAAAACTTGCCATTGAC	0.448													23	98					0	0	1	0	0		C	58979956	C	C	58979956	3	2	188	1	0	0	0	0	1	0	0	0	9741	1609	56	3	1771	3	MPEG1	11	58979956	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1402353	58979956	76026560	180	93895											
MTA2	9219	broad.mit.edu	37	chr11	62365105	62365105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaccacaagaaactggtcGatctgccggtctgtgagagg	10	7	13	11	2	2	2	0	1	2	2	3	4	2	2	3	3	2	0	3	3	2	0	rs141754862		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:62365105G>A	uc001ntq.1	-	7	951	c.570C>T	c.(568-570)ATC>ATT	p.I190I	MTA2_uc010rlx.1_Silent_p.I17I	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	190	ELM2.				chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GAAACTGGTCGATCTGCCGGT	0.542													10	119					0	0	1	0	0		A	62365105	A	A	62365105	2	1	188	1	0	0	0	0	0	0	0	1	9927	1048	37	1		1	MTA2	11	62365105	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	3385149	62365105	72641411	181	93896											
DDI1	414301	broad.mit.edu	37	chr11	103908695	103908695	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaagatgagtcttcggacaAggaaattacacattcagtca	15	9	9	8	1	3	2	2	1	1	1	4	4	3	4	0	2	1	1	0	2	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:103908695A>C	uc001phr.2	+	1	1388	c.1145A>C	c.(1144-1146)AAG>ACG	p.K382T	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	382					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		TCTTCGGACAAGGAAATTACA	0.473													5	45					0	0	1	0	0		C	103908695	C	C	103908695	3	2	188	1	0	0	0	0	1	0	0	0	4331	72	3	5	1147	5	DDI1	11	103908695	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	41543590	103908695	31097821	182	93897											
ZNF259	8882	broad.mit.edu	37	chr11	116653713	116653713	+	Silent	SNP	T	C	C																															gccattcccagttcaaattcTagctctgggatttccacact																										TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:116653713T>C	uc001ppp.2	-	11	1047	c.1014A>G	c.(1012-1014)CTA>CTG	p.L338L	ZNF259_uc009yzd.2_Silent_p.L338L|ZNF259_uc001ppq.2_Silent_p.L268L	NM_003904	NP_003895	O75312	ZPR1_HUMAN	zinc finger protein 259	338					cell proliferation|signal transduction	cytoplasm|nucleolus					0	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.61e-06)|all cancers(92;0.000139)|OV - Ovarian serous cystadenocarcinoma(223;0.153)		GTTCAAATTCTAGCTCTGGGA	0.502													4	53					0	0	1	0	0		C	116653713	C	C	116653713	2	2	188	1	0	0	0	0	0	0	0	1	17826	1509	53	3		3	ZNF259	11	116653713	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	12745018	116653713	18352803	183	93898	175	2									
ZNF259	8882	broad.mit.edu	37	chr11	116653717	116653717	+	Missense_Mutation	SNP	T	C	C																															ttcccagttcaaattctagcTctgggatttccacactgcaa																										TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:116653717T>C	uc001ppp.2	-	11	1043	c.1010A>G	c.(1009-1011)GAG>GGG	p.E337G	ZNF259_uc009yzd.2_Missense_Mutation_p.E337G|ZNF259_uc001ppq.2_Missense_Mutation_p.E267G	NM_003904	NP_003895	O75312	ZPR1_HUMAN	zinc finger protein 259	337					cell proliferation|signal transduction	cytoplasm|nucleolus					0	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.61e-06)|all cancers(92;0.000139)|OV - Ovarian serous cystadenocarcinoma(223;0.153)		AAATTCTAGCTCTGGGATTTC	0.498													4	53					0	0	1	0	0		C	116653717	C	C	116653717	3	2	188	1	0	0	0	0	1	0	0	0	17826	1551	54	3	385	3	ZNF259	11	116653717	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4	116653717	18352799	184	93899	175	2									
DSCAML1	57453	broad.mit.edu	37	chr11	117332257	117332257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgaccaggagatgacGgccacgtcagaagtgatgga	11	6	15	9	2	2	5	1	3	1	2	2	7	2	6	2	4	0	1	2	4	1	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:117332257G>A	uc001prh.1	-	18	3503	c.3501C>T	c.(3499-3501)GCC>GCT	p.A1167A		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1107	Fibronectin type-III 3.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		AGGAGATGACGGCCACGTCAG	0.617													8	97					0	0	1	0	0		A	117332257	A	A	117332257	2	1	188	1	0	0	0	0	0	0	0	1	4775	1103	39	1		1	DSCAML1	11	117332257	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	678540	117332257	17674259	185	93900											
OR4D5	219875	broad.mit.edu	37	chr11	123810958	123810958	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtgaccctgatgtgttttcTggtgcttctgggatcgtaca	5	15	13	8	1	2	2	0	2	2	0	3	3	2	3	1	3	2	3	1	3	1	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:123810958T>C	uc001pzk.1	+	1	635	c.635T>C	c.(634-636)CTG>CCG	p.L212P		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	212	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		ATGTGTTTTCTGGTGCTTCTG	0.522													49	197					0	0	1	0	0		C	123810958	C	C	123810958	3	2	188	1	0	0	0	0	1	0	0	0	11076	1580	55	3	637	3	OR4D5	11	123810958	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	6478701	123810958	11195558	186	93901											
OR10G9	219870	broad.mit.edu	37	chr11	123894603	123894603	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctgagaaacaaggaggtgaAgaaagctgtgttgaaactga	16	7	13	5	0	0	5	0	4	0	2	0	7	0	6	1	2	3	2	1	2	5	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:123894603A>C	uc010sad.1	+	1	884	c.884A>C	c.(883-885)AAG>ACG	p.K295T		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		AAGGAGGTGAAGAAAGCTGTG	0.423													18	103					0	0	1	0	0		C	123894603	C	C	123894603	3	2	188	1	0	0	0	0	1	0	0	0	10923	72	3	5	886	5	OR10G9	11	123894603	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	83645	123894603	11111913	187	93902											
ROBO4	54538	broad.mit.edu	37	chr11	124756666	124756666	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgttgggacgctgatgtAcccataggtggtggggggtg	5	10	20	6	1	0	1	0	1	0	0	0	2	0	2	1	7	1	4	1	7	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:124756666A>T	uc001qbg.2	-	16	2628	c.2488T>A	c.(2488-2490)TAC>AAC	p.Y830N	ROBO4_uc010sas.1_Missense_Mutation_p.Y685N|ROBO4_uc001qbh.2_3'UTR|ROBO4_uc001qbi.2_Missense_Mutation_p.Y388N	NM_019055	NP_061928	Q8WZ75	ROBO4_HUMAN	roundabout homolog 4, magic roundabout	830					angiogenesis|cell differentiation	integral to membrane	receptor activity			ovary(1)|skin(1)	2	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		ACGCTGATGTACCCATAGGTG	0.622													16	101					0	0	1	0	0		T	124756666	T	T	124756666	3	4	188	1	0	0	0	0	1	0	0	0	13541	391	14	5	547	5	ROBO4	11	124756666	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	862063	124756666	10249850	188	93903											
JAM3	83700	broad.mit.edu	37	chr11	134010576	134010576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaactgtcttgcatcattaCggattcgcagacaagtgacc	11	10	10	10	2	2	2	1	1	1	1	3	4	2	4	1	2	3	2	1	2	3	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr11:134010576C>T	uc001qhb.1	+	3	326	c.302C>T	c.(301-303)ACG>ATG	p.T101M	JAM3_uc009zcz.1_Missense_Mutation_p.T101M	NM_032801	NP_116190	Q9BX67	JAM3_HUMAN	junctional adhesion molecule 3 precursor	56	Extracellular (Potential).|Ig-like V-type.				angiogenesis|blood coagulation|regulation of neutrophil chemotaxis	cell-cell contact zone|desmosome|extracellular space|integral to membrane	integrin binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.06e-21)|all_epithelial(12;3.37e-16)|all_lung(97;7.03e-06)|Lung NSC(97;1.67e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0506)|Esophageal squamous(93;0.0566)		Epithelial(10;1.55e-09)|BRCA - Breast invasive adenocarcinoma(10;1.35e-08)|all cancers(11;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00402)|Lung(977;0.245)		TGCATCATTACGGATTCGCAG	0.448													8	48					0	0	1	0	0		T	134010576	T	T	134010576	3	4	188	1	0	0	0	0	1	0	0	0	7960	536	19	1	312	1	JAM3	11	134010576	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	9253910	134010576	995940	189	93904											
CLEC12A	160364	broad.mit.edu	37	chr12	10124213	10124213	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatgtctgaagaagttacTtatgcagatcttcaattcca	13	14	6	8	0	4	3	2	1	2	2	5	3	5	3	1	0	2	2	1	0	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:10124213T>G	uc001qwr.3	+	1	206	c.18T>G	c.(16-18)ACT>ACG	p.T6T	CLEC12A_uc001qwq.2_Silent_p.T16T|CLEC12A_uc001qws.3_Silent_p.T6T|CLEC12A_uc001qwt.2_5'UTR	NM_138337	NP_612210	Q5QGZ9	CL12A_HUMAN	myeloid inhibitory C-type lectin-like receptor	6	Cytoplasmic (Potential).|ITIM motif.					integral to membrane|plasma membrane	receptor activity|sugar binding			skin(1)	1						AAGAAGTTACTTATGCAGATC	0.343													6	59					0	0	1	0	0		G	10124213	G	G	10124213	2	3	188	1	0	0	0	0	0	0	0	1	3500	1596	56	5		5	CLEC12A	12	10124213	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		10124213	123727682	190	93905											
GSG1	83445	broad.mit.edu	37	chr12	13240138	13240138	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctccagtcttctggacccaAgttgacagtcgcttggaaga	9	11	10	11	1	3	2	0	1	3	1	5	4	3	4	2	2	0	2	2	2	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:13240138A>C	uc001rbn.2	-	6	867	c.694T>G	c.(694-696)TTG>GTG	p.L232V	GSG1_uc001rbj.2_Missense_Mutation_p.L196V|GSG1_uc001rbk.2_Missense_Mutation_p.L237R|GSG1_uc001rbl.2_Missense_Mutation_p.L168V|GSG1_uc001rbm.2_Missense_Mutation_p.L145V|GSG1_uc001rbo.2_Missense_Mutation_p.L273R|GSG1_uc001rbp.2_Missense_Mutation_p.L209V|GSG1_uc001rbq.1_Missense_Mutation_p.L273R	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	219						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		TCTGGACCCAAGTTGACAGTC	0.512													18	64					0	0	1	0	0		C	13240138	C	C	13240138	3	2	188	1	0	0	0	0	1	0	0	0	6836	72	3	5	402	5	GSG1	12	13240138	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3115925	13240138	120611757	191	93906											
RERG	85004	broad.mit.edu	37	chr12	15262280	15262280	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacctgcctggagtggtccaAgtcagctttgtttccaacca	9	11	9	12	0	1	0	1	0	0	0	3	1	3	1	5	2	4	2	5	2	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:15262280A>G	uc001rcs.2	-	4	504	c.364T>C	c.(364-366)TTG>CTG	p.L122L	RERG_uc001rct.2_Silent_p.L122L|RERG_uc010shu.1_Silent_p.L103L	NM_032918	NP_116307	Q96A58	RERG_HUMAN	RAS-like, estrogen-regulated, growth inhibitor	122					negative regulation of cell growth|negative regulation of cell proliferation|response to hormone stimulus|small GTPase mediated signal transduction	cytosol|membrane|nucleus	estrogen receptor binding|GDP binding|GTP binding|GTPase activity			lung(1)	1						GAGTGGTCCAAGTCAGCTTTG	0.483													27	140					0	0	1	0	0		G	15262280	G	G	15262280	2	3	188	1	0	0	0	0	0	0	0	1	13257	69	3	3		3	RERG	12	15262280	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	2022142	15262280	118589615	192	93907											
OVCH1	341350	broad.mit.edu	37	chr12	29644030	29644030	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcattttggtgtctcttacTtttggaaatcttgccccatc	6	18	7	10	0	3	0	1	0	2	0	5	1	3	1	2	2	2	0	2	2	2	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:29644030T>G	uc001rix.1	-	5	550	c.550A>C	c.(550-552)ACA>CCA	p.T184P		NM_183378	NP_899234	Q7RTY7	OVCH1_HUMAN	ovochymase 1 precursor	184	Peptidase S1 1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			ovary(3)|central_nervous_system(3)|pancreas(3)|large_intestine(1)	10	Lung NSC(12;1.84e-09)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)					TGTCTCTTACTTTTGGAAATC	0.398													8	54					0	0	1	0	0		G	29644030	G	G	29644030	3	3	188	1	0	0	0	0	1	0	0	0	11342	1623	56	5	2950	5	OVCH1	12	29644030	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	14381750	29644030	104207865	193	93908											
NEUROD4	58158	broad.mit.edu	37	chr12	55420426	55420426	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagatggggagaaacctaAgagaaggggtcccaagaaaa	19	3	14	5	0	0	5	0	0	0	5	1	7	1	5	2	4	1	0	2	4	7	1	rs76064726	by1000genomes	TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:55420426A>G	uc001sgp.3	+	2	581	c.203A>G	c.(202-204)AAG>AGG	p.K68R		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	68			K -> T.		amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						GAGAAACCTAAGAGAAGGGGT	0.433													9	42					0	0	1	0	0		G	55420426	G	G	55420426	3	3	188	1	0	0	0	0	1	0	0	0	10369	72	3	3	205	3	NEUROD4	12	55420426	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	25776396	55420426	78431469	194	93909											
C12orf63	374467	broad.mit.edu	37	chr12	97085072	97085072	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatacgtgaactgcactttgTtaggcaaaacctaatagtaa	15	12	7	7	1	0	1	0	1	0	0	0	1	0	1	1	1	4	4	1	1	9	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:97085072T>G	uc001tet.1	+	11	1601	c.1523T>G	c.(1522-1524)GTT>GGT	p.V508G		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	508										skin(6)|ovary(1)	7						CTGCACTTTGTTAGGCAAAAC	0.333													7	28					0	0	1	0	0		G	97085072	G	G	97085072	3	3	188	1	0	0	0	0	1	0	0	0	1709	1725	60	5	1561	5	C12orf63	12	97085072	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	41664646	97085072	36766823	195	93910											
C12orf63	374467	broad.mit.edu	37	chr12	97158013	97158013	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattagcctggattgcaataAgagctgctgcacaggttggt	10	11	12	8	0	0	1	0	0	0	1	0	2	0	2	1	3	5	5	1	3	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:97158013A>C	uc001tet.1	+	26	3478	c.3400A>C	c.(3400-3402)AGA>CGA	p.R1134R		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	1134										skin(6)|ovary(1)	7						GATTGCAATAAGAGCTGCTGC	0.343													4	32					0	0	1	0	0		C	97158013	C	C	97158013	2	2	188	1	0	0	0	0	0	0	0	1	1709	64	3	5		5	C12orf63	12	97158013	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	72941	97158013	36693882	196	93911											
FAM71C	196472	broad.mit.edu	37	chr12	100043118	100043118	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaattcagaatcagtagacTtcacatgaatgctgaaatgt	15	11	8	7	0	3	4	3	2	0	2	3	4	3	4	0	0	1	3	0	0	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:100043118T>G	uc001tgn.2	+	2	1090	c.668T>G	c.(667-669)CTT>CGT	p.L223R	ANKS1B_uc001tge.1_Intron|ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_153364	NP_699195	Q8NEG0	FA71C_HUMAN	hypothetical protein LOC196472	223											0				OV - Ovarian serous cystadenocarcinoma(2;0.00733)|Epithelial(2;0.0385)|all cancers(2;0.19)		ATCAGTAGACTTCACATGAAT	0.398													34	103					0	0	1	0	0		G	100043118	G	G	100043118	3	3	188	1	0	0	0	0	1	0	0	0	5623	1609	56	5	674	5	FAM71C	12	100043118	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2885105	100043118	33808777	197	93912											
BTBD11	121551	broad.mit.edu	37	chr12	108045467	108045467	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttagcttctgtctgctgctaAgtttttccagctggaggctt	5	17	10	9	0	2	0	0	0	2	0	3	1	3	1	1	2	4	6	1	2	2	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:108045467A>C	uc001tmk.1	+	16	3529	c.3008A>C	c.(3007-3009)AAG>ACG	p.K1003T	BTBD11_uc001tml.1_Missense_Mutation_p.K540T|BTBD11_uc001tmm.1_Missense_Mutation_p.K82T	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	1003						integral to membrane	DNA binding			skin(2)|ovary(1)	3						TCTGCTGCTAAGTTTTTCCAG	0.438													9	39					0	0	1	0	0		C	108045467	C	C	108045467	3	2	188	1	0	0	0	0	1	0	0	0	1542	72	3	5	3175	5	BTBD11	12	108045467	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	8002349	108045467	25806428	198	93913											
CCDC63	160762	broad.mit.edu	37	chr12	111342574	111342574	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgctgggggctgaccccTtcagcgacaggttggatgat	7	9	15	10	1	1	2	1	2	0	0	1	4	1	3	2	4	2	3	2	4	0	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:111342574T>G	uc001trv.1	+	11	1720	c.1525T>G	c.(1525-1527)TTC>GTC	p.F509V	CCDC63_uc010sye.1_Missense_Mutation_p.F469V|CCDC63_uc001trw.1_Missense_Mutation_p.F424V	NM_152591	NP_689804	Q8NA47	CCD63_HUMAN	coiled-coil domain containing 63	509										skin(6)|ovary(1)|pancreas(1)	8						GGCTGACCCCTTCAGCGACAG	0.597													16	89					0	0	1	0	0		G	111342574	G	G	111342574	3	3	188	1	0	0	0	0	1	0	0	0	2837	1609	56	5	1563	5	CCDC63	12	111342574	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	3297107	111342574	22509321	199	93914											
RBM19	9904	broad.mit.edu	37	chr12	114395629	114395629	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctctttttcccagctggcatCccttgctcttggcctgcacc	3	14	7	17	0	2	0	0	0	2	0	4	0	4	0	4	2	3	4	4	2	0	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:114395629C>T	uc009zwi.2	-	6	942	c.798G>A	c.(796-798)GGG>GGA	p.G266G	RBM19_uc001tvn.3_Silent_p.G266G|RBM19_uc001tvm.2_Silent_p.G266G	NM_001146699	NP_001140171	Q9Y4C8	RBM19_HUMAN	RNA binding motif protein 19	266					multicellular organismal development|positive regulation of embryonic development	chromosome|cytoplasm|nucleolus|nucleoplasm	nucleotide binding|RNA binding			skin(3)|ovary(1)|liver(1)|central_nervous_system(1)	6	Medulloblastoma(191;0.163)|all_neural(191;0.178)					CAGCTGGCATCCCTTGCTCTT	0.627													23	130					0	0	1	0	0		T	114395629	T	T	114395629	2	4	188	1	0	0	0	0	0	0	0	1	13146	842	30	4		4	RBM19	12	114395629	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	3053055	114395629	19456266	200	93915											
MED13L	23389	broad.mit.edu	37	chr12	116457702	116457702	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgccattcctcaatcaacTtacgagtggctgggtctgac	9	11	9	12	1	3	1	2	1	1	0	4	2	4	1	2	2	3	1	2	2	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:116457702T>G	uc001tvw.2	-	6	756	c.701A>C	c.(700-702)AAG>ACG	p.K234T		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	234					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CTCAATCAACTTACGAGTGGC	0.443													4	58					0	0	1	0	0		G	116457702	G	G	116457702	3	3	188	1	0	0	0	0	1	0	0	0	9449	1609	56	5	6035	5	MED13L	12	116457702	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2062073	116457702	17394193	201	93916											
TMEM132D	121256	broad.mit.edu	37	chr12	129558890	129558890	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctgtttgtgtctgtattTtaatgcaaaggtcacacagt	11	15	8	7	0	2	0	1	0	1	0	2	0	2	0	1	1	2	3	1	1	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr12:129558890T>G	uc009zyl.1	-	9	3158	c.2830A>C	c.(2830-2832)AAA>CAA	p.K944Q	TMEM132D_uc001uia.2_Missense_Mutation_p.K482Q	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	944	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGTCTGTATTTTAATGCAAAG	0.458													15	85					0	0	1	0	0		G	129558890	G	G	129558890	3	3	188	1	0	0	0	0	1	0	0	0	16072	1850	64	5	473	5	TMEM132D	12	129558890	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	13101188	129558890	4293005	202	93917											
TPTE2	93492	broad.mit.edu	37	chr13	20041386	20041386	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggaatattcctaagcaacTtaatgtcaaaaaaaatgtaa	19	11	6	5	0	1	0	1	0	0	0	2	1	2	1	1	1	2	2	1	1	10	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:20041386T>G	uc001umd.2	-	8	702	c.491A>C	c.(490-492)AAG>ACG	p.K164T	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Intron|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	164	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		CCTAAGCAACTTAATGTCAAA	0.303													12	52					0	0	1	0	0		G	20041386	G	G	20041386	3	3	188	1	0	0	0	0	1	0	0	0	16457	1609	56	5	1133	5	TPTE2	13	20041386	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		20041386	95128492	203	93918											
SACS	26278	broad.mit.edu	37	chr13	23908498	23908498	+	Missense_Mutation	SNP	A	C	C																															ttcatgatatgttgttagaaActtgggtcgttttgcatcaa																										TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:23908498A>C	uc001uon.2	-	10	10106	c.9517T>G	c.(9517-9519)TTT>GTT	p.F3173V	SACS_uc001uoo.2_Missense_Mutation_p.F3026V|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3173					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GTTGTTAGAAACTTGGGTCGT	0.328													5	61					0	0	1	0	0		C	23908498	C	C	23908498	3	2	188	1	0	0	0	0	1	0	0	0	13829	43	2	5	4226	5	SACS	13	23908498	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3867112	23908498	91261380	204	93919	176	2									
SACS	26278	broad.mit.edu	37	chr13	23908500	23908500	+	Missense_Mutation	SNP	T	G	G																															catgatatgttgttagaaacTtgggtcgttttgcatcaaaa																										TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:23908500T>G	uc001uon.2	-	10	10104	c.9515A>C	c.(9514-9516)AAG>ACG	p.K3172T	SACS_uc001uoo.2_Missense_Mutation_p.K3025T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3172					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		TGTTAGAAACTTGGGTCGTTT	0.323													5	62					0	0	1	0	0		G	23908500	G	G	23908500	3	3	188	1	0	0	0	0	1	0	0	0	13829	1609	56	5	4228	5	SACS	13	23908500	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2	23908500	91261378	205	93920	176	2									
RNF17	56163	broad.mit.edu	37	chr13	25367370	25367370	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatttagaagcaaaaaacTtccagccacagaaagacgtt	18	8	6	9	1	0	3	0	0	0	3	1	3	1	3	2	0	4	2	2	0	7	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:25367370T>G	uc001upr.2	+	10	1167	c.1126T>G	c.(1126-1128)TTC>GTC	p.F376V	RNF17_uc010tdd.1_Missense_Mutation_p.F235V|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.F376V|RNF17_uc001ups.2_Missense_Mutation_p.F315V|RNF17_uc001upq.1_Missense_Mutation_p.F376V	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	376					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		AGCAAAAAACTTCCAGCCACA	0.418													54	160					0	0	1	0	0		G	25367370	G	G	25367370	3	3	188	1	0	0	0	0	1	0	0	0	13486	1609	56	5	1164	5	RNF17	13	25367370	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1458870	25367370	89802508	206	93921											
ATP8A2	51761	broad.mit.edu	37	chr13	26436488	26436488	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgacctggctggtgttttTtggcatctactcgaccatct	5	15	10	11	1	2	1	0	1	2	0	3	2	2	1	2	3	1	4	2	3	1	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:26436488T>C	uc001uqk.2	+	33	3267	c.3125T>C	c.(3124-3126)TTT>TCT	p.F1042S	ATP8A2_uc010tdi.1_Missense_Mutation_p.F977S|ATP8A2_uc010tdj.1_RNA|ATP8A2_uc010aaj.1_Missense_Mutation_p.F592S	NM_016529	NP_057613	Q9NTI2	AT8A2_HUMAN	ATPase, aminophospholipid transporter-like,	1002	Helical; (Potential).				ATP biosynthetic process|negative regulation of cell proliferation	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|large_intestine(1)|skin(1)	4		Breast(139;0.0201)|Lung SC(185;0.0225)		all cancers(112;0.043)|OV - Ovarian serous cystadenocarcinoma(117;0.0748)|Epithelial(112;0.079)		CTGGTGTTTTTTGGCATCTAC	0.517													9	66					0	0	1	0	0		C	26436488	C	C	26436488	3	2	188	1	0	0	0	0	1	0	0	0	1194	1841	64	3	3255	3	ATP8A2	13	26436488	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1069118	26436488	88733390	207	93922											
FLT1	2321	broad.mit.edu	37	chr13	28959121	28959121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtggtggaactgctgatggCcactgtgtgatcactgaggt	8	11	15	7	0	1	3	1	3	0	0	1	4	1	4	1	4	2	1	1	4	1	0	rs137937570		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:28959121C>T	uc001usb.3	-	14	2302	c.2017G>A	c.(2017-2019)GCC>ACC	p.A673T	FLT1_uc010aar.1_Missense_Mutation_p.A673T	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	673	Ig-like C2-type 7.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CTGCTGATGGCCACTGTGTGA	0.448													16	157					0	0	1	0	0		T	28959121	T	T	28959121	3	4	188	1	0	0	0	0	1	0	0	0	5955	739	26	2	2157	2	FLT1	13	28959121	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	2522633	28959121	86210757	208	93923											
NBEA	26960	broad.mit.edu	37	chr13	35758142	35758142	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccatctatccctcatccaAgtttgaaccatggattcctt	10	14	4	13	0	2	1	1	1	1	0	5	2	5	2	5	1	2	1	5	1	4	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:35758142A>G	uc001uvb.2	+	30	5067	c.4861A>G	c.(4861-4863)AGT>GGT	p.S1621G	NBEA_uc010abi.2_Intron	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	1621						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CCCTCATCCAAGTTTGAACCA	0.443													11	42					0	0	1	0	0		G	35758142	G	G	35758142	3	3	188	1	0	0	0	0	1	0	0	0	10205	72	3	3	4979	3	NBEA	13	35758142	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	6799021	35758142	79411736	209	93924											
POSTN	10631	broad.mit.edu	37	chr13	38160293	38160293	+	Missense_Mutation	SNP	T	C	C	0	1	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	taccttcggaagccactttgTctcccatgatcctttctagg	7	14	7	13	1	2	1	0	1	2	0	5	2	3	2	4	2	2	0	4	2	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:38160293T>C	uc001uwo.3	-	7	996	c.878A>G	c.(877-879)GAC>GGC	p.D293G	POSTN_uc001uwp.3_Missense_Mutation_p.D293G|POSTN_uc001uwr.2_Missense_Mutation_p.D293G|POSTN_uc001uwq.2_Missense_Mutation_p.D293G|POSTN_uc010teu.1_Missense_Mutation_p.D293G|POSTN_uc010tev.1_Missense_Mutation_p.D293G|POSTN_uc010tew.1_Missense_Mutation_p.D293G|POSTN_uc010tex.1_Missense_Mutation_p.D208G	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	293	FAS1 2.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		AGCCACTTTGTCTCCCATGAT	0.453													27	91					0	0	1	0	0		C	38160293	C	C	38160293	3	2	188	1	0	0	0	0	1	0	0	0	12278	1667	58	3	1700	3	POSTN	13	38160293	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2402151	38160293	77009585	210	93925											
POSTN	10631	broad.mit.edu	37	chr13	38162024	38162024	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaggaataatcatgccatTttttaagtccttggtcaaca	13	14	7	7	0	2	1	2	1	0	0	3	2	3	2	2	2	2	0	2	2	5	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:38162024T>G	uc001uwo.3	-	5	659	c.541A>C	c.(541-543)AAT>CAT	p.N181H	POSTN_uc001uwp.3_Missense_Mutation_p.N181H|POSTN_uc001uwr.2_Missense_Mutation_p.N181H|POSTN_uc001uwq.2_Missense_Mutation_p.N181H|POSTN_uc010teu.1_Missense_Mutation_p.N181H|POSTN_uc010tev.1_Missense_Mutation_p.N181H|POSTN_uc010tew.1_Missense_Mutation_p.N181H|POSTN_uc010tex.1_Missense_Mutation_p.N96H	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	181	FAS1 1.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		ATCATGCCATTTTTTAAGTCC	0.328													10	98					0	0	1	0	0		G	38162024	G	G	38162024	3	3	188	1	0	0	0	0	1	0	0	0	12278	1841	64	5	2045	5	POSTN	13	38162024	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1731	38162024	77007854	211	93926											
LCP1	3936	broad.mit.edu	37	chr13	46732680	46732680	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataggagtgttgggtgccaAcgctagactgctctgaagta	11	10	13	7	1	1	2	0	1	1	1	1	3	1	3	1	2	3	4	1	2	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:46732680A>C	uc001vaz.3	-	4	461	c.335T>G	c.(334-336)GTT>GGT	p.V112G	LCP1_uc001vba.3_Missense_Mutation_p.V112G	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	112	Actin-binding 1.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TTGGGTGCCAACGCTAGACTG	0.443			T	BCL6	NHL 								22	68					0	0	1	0	0		C	46732680	C	C	46732680	3	2	188	1	0	0	0	0	1	0	0	0	8707	43	2	5	1600	5	LCP1	13	46732680	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	8570656	46732680	68437198	212	93927											
C13orf18	80183	broad.mit.edu	37	chr13	46917551	46917551	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaggccacactttccagaAgttttctcctcgctgtgatc	8	12	8	13	1	1	3	0	1	1	2	5	3	2	3	3	1	0	2	3	1	1	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:46917551A>C	uc010acl.2	-	15	2563	c.1958T>G	c.(1957-1959)CTT>CGT	p.L653R	C13orf18_uc010tfy.1_Missense_Mutation_p.L176R|C13orf18_uc001vbf.3_Missense_Mutation_p.L586R|C13orf18_uc001vbg.3_Missense_Mutation_p.L381R|C13orf18_uc010tfz.1_Missense_Mutation_p.L496R|C13orf18_uc010acm.2_Missense_Mutation_p.L518R|C13orf18_uc010acn.2_Missense_Mutation_p.L438R|C13orf18_uc001vbe.3_Missense_Mutation_p.F602V|C13orf18_uc001vbh.3_Missense_Mutation_p.L653R|C13orf18_uc001vbi.3_Missense_Mutation_p.L496R	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	653											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		ACTTTCCAGAAGTTTTCTCCT	0.502													14	51					0	0	1	0	0		C	46917551	C	C	46917551	3	2	188	1	0	0	0	0	1	0	0	0	1723	72	3	5	34	5	C13orf18	13	46917551	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	184871	46917551	68252327	213	93928											
HTR2A	3356	broad.mit.edu	37	chr13	47409690	47409690	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagccgatcaggacaaagTtatcatcggcgagtaagcaa	16	6	11	8	3	2	1	2	0	0	1	3	4	2	2	1	2	2	3	1	2	5	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:47409690T>G	uc001vbq.2	-	3	832	c.698A>C	c.(697-699)AAC>ACC	p.N233T	HTR2A_uc001vbr.2_Missense_Mutation_p.N133T|HTR2A_uc010acr.2_Missense_Mutation_p.N233T	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	233	Extracellular (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	CAGGACAAAGTTATCATCGGC	0.433													9	59					0	0	1	0	0		G	47409690	G	G	47409690	3	3	188	1	0	0	0	0	1	0	0	0	7457	1725	60	5	721	5	HTR2A	13	47409690	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	492139	47409690	67760188	214	93929											
UTP14C	9724	broad.mit.edu	37	chr13	52604528	52604528	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ataaggagcttcccagacctGtgttagaaggacagcagtca	13	8	11	9	0	1	2	1	0	0	2	2	4	2	4	2	2	2	3	2	2	3	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:52604528G>A	uc001vgb.2	+	2	2123	c.1588G>A	c.(1588-1590)GTG>ATG	p.V530M	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	530					cell differentiation|meiosis|multicellular organismal development|rRNA processing|spermatogenesis	nucleolus|small-subunit processome				ovary(3)|large_intestine(1)|breast(1)	5		Breast(56;0.00173)|Lung NSC(96;0.0108)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;2.3e-08)		TCCCAGACCTGTGTTAGAAGG	0.463													42	199					0	0	1	0	0		A	52604528	A	A	52604528	3	1	188	1	0	0	0	0	1	0	0	0	17122	1377	48	4	1590	4	UTP14C	13	52604528	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	5194838	52604528	62565350	215	93930											
EDNRB	1910	broad.mit.edu	37	chr13	78477428	78477428	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccacccaaatcaaaacaaTttctactgctgtccattttg	13	12	4	12	0	2	0	1	0	1	0	3	1	3	0	3	0	3	1	3	0	5	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:78477428T>G	uc001vko.2	-	3	922	c.664A>C	c.(664-666)ATT>CTT	p.I222L	EDNRB_uc001vkq.1_Missense_Mutation_p.I222L|uc001vkn.1_Intron|EDNRB_uc010aez.1_Missense_Mutation_p.I222L|EDNRB_uc001vkp.1_Missense_Mutation_p.I305L	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	222	Helical; Name=4; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ATCAAAACAATTTCTACTGCT	0.383													53	190					0	0	1	0	0		G	78477428	G	G	78477428	3	3	188	1	0	0	0	0	1	0	0	0	4926	1493	52	5	805	5	EDNRB	13	78477428	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	25872900	78477428	36692450	216	93931											
EDNRB	1910	broad.mit.edu	37	chr13	78492671	78492671	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcaggcaagaaccagcgcaAccagggcgcgtccgcacaga	12	1	13	15	5	0	2	0	0	0	2	1	2	1	2	3	2	3	4	3	2	3	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:78492671A>C	uc001vko.2	-	1	296	c.38T>G	c.(37-39)GTT>GGT	p.V13G	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.V13G|EDNRB_uc010aez.1_Missense_Mutation_p.V13G|EDNRB_uc001vkp.1_Missense_Mutation_p.V96G|EDNRB_uc010afa.1_Missense_Mutation_p.V13G	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	13					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	AACCAGCGCAACCAGGGCGCG	0.637											OREG0022452	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	53					0	0	1	0	0		C	78492671	C	C	78492671	3	2	188	1	0	0	0	0	1	0	0	0	4926	43	2	5	1439	5	EDNRB	13	78492671	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	15243	78492671	36677207	217	93932											
SLITRK5	26050	broad.mit.edu	37	chr13	88328833	88328833	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtaaactgccaggagcgaaAgatcgagagcatcgctgaac	14	5	12	10	4	0	3	0	1	0	2	2	6	0	4	1	1	5	3	1	1	4	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:88328833A>C	uc001vln.2	+	2	1409	c.1190A>C	c.(1189-1191)AAG>ACG	p.K397T	SLITRK5_uc010tic.1_Missense_Mutation_p.K156T	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	397	Extracellular (Potential).|LRRNT.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CAGGAGCGAAAGATCGAGAGC	0.537													8	77					0	0	1	0	0		C	88328833	C	C	88328833	3	2	188	1	0	0	0	0	1	0	0	0	14771	72	3	5	1192	5	SLITRK5	13	88328833	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	9836162	88328833	26841045	218	93933											
GPC6	10082	broad.mit.edu	37	chr13	94197663	94197663	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttttgtgtccaggcataAgaaatttgacggtaggtgaa	12	12	11	6	1	0	3	0	2	0	1	1	3	1	3	1	3	0	2	1	3	4	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:94197663A>T	uc001vlt.2	+	2	940	c.308A>T	c.(307-309)AAG>ATG	p.K103M	GPC6_uc010tig.1_Missense_Mutation_p.K103M|GPC6_uc001vlu.1_Missense_Mutation_p.K33M	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	103						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				TCCAGGCATAAGAAATTTGAC	0.353													40	156					0	0	1	0	0		T	94197663	T	T	94197663	3	4	188	1	0	0	0	0	1	0	0	0	6617	72	3	5	314	5	GPC6	13	94197663	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	5868830	94197663	20972215	219	93934											
GPC6	10082	broad.mit.edu	37	chr13	94680041	94680041	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	gatgctgtactgcccatactGtcgggggcttcccactgtga	6	11	12	12	1	0	1	0	1	0	0	2	2	1	1	2	2	4	3	2	2	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr13:94680041G>C	uc001vlt.2	+	4	1402	c.770G>C	c.(769-771)TGT>TCT	p.C257S	GPC6_uc010tig.1_Missense_Mutation_p.C257S	NM_005708	NP_005699	Q9Y625	GPC6_HUMAN	glypican 6 precursor	257						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding				0	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;5.48e-07)|all_epithelial(2;5.69e-08)|all_lung(2;2.19e-05)|Lung NSC(4;6.09e-05)|Breast(118;0.0395)|Renal(2;0.0568)|Hepatocellular(115;0.217)				TGCCCATACTGTCGGGGGCTT	0.498													31	202					0	0	1	0	0		C	94680041	C	C	94680041	3	2	188	1	0	0	0	0	1	0	0	0	6617	1377	48	5	784	5	GPC6	13	94680041	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	482378	94680041	20489837	220	93935											
OR4K17	390436	broad.mit.edu	37	chr14	20586335	20586335	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgatcctcataaccattaAgaaccactctcctactgggc	11	11	5	14	0	3	2	1	1	2	1	5	2	4	2	4	1	3	0	4	1	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr14:20586335A>G	uc001vwo.1	+	1	770	c.770A>G	c.(769-771)AAG>AGG	p.K257R		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		ATAACCATTAAGAACCACTCT	0.418													19	110					0	0	1	0	0		G	20586335	G	G	20586335	3	3	188	1	0	0	0	0	1	0	0	0	11090	72	3	3	772	3	OR4K17	14	20586335	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		20586335	86763205	221	93936											
NOVA1	4857	broad.mit.edu	37	chr14	26917982	26917982	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtatcttctggatgataAgttcaacagcttttcggttt	8	18	8	7	1	3	1	1	1	2	0	4	2	3	2	0	2	2	4	0	2	3	8	rs144207941		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr14:26917982A>C	uc001wpy.2	-	5	1025	c.707T>G	c.(706-708)CTT>CGT	p.L236R	NOVA1_uc001wpz.2_Missense_Mutation_p.L212R|NOVA1_uc001wqa.2_Missense_Mutation_p.L114R	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	239	KH 2.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		CTGGATGATAAGTTCAACAGC	0.468													29	111					0	0	1	0	0		C	26917982	C	C	26917982	3	2	188	1	0	0	0	0	1	0	0	0	10573	72	3	5	820	5	NOVA1	14	26917982	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	6331647	26917982	80431558	222	93937											
AKAP6	9472	broad.mit.edu	37	chr14	33293936	33293936	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttaacctgtgaagaaaatcTtctaaaccttcatgaaaaac	17	12	4	8	0	3	3	1	2	2	1	3	3	3	3	2	0	3	0	2	0	8	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr14:33293936T>G	uc001wrq.2	+	13	7087	c.6917T>G	c.(6916-6918)CTT>CGT	p.L2306R		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	2306					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		GAAGAAAATCTTCTAAACCTT	0.428													23	88					0	0	1	0	0		G	33293936	G	G	33293936	3	3	188	1	0	0	0	0	1	0	0	0	455	1609	56	5	6963	5	AKAP6	14	33293936	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	6375954	33293936	74055604	223	93938											
TRIM9	114088	broad.mit.edu	37	chr14	51467557	51467557	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttgctgggactggagaggaAgctaaacagaaattagtgta	14	9	14	4	0	0	2	0	0	0	2	0	5	0	4	0	3	3	4	0	3	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr14:51467557A>C	uc001wyx.3	-	6	2073	c.1308T>G	c.(1306-1308)GCT>GCG	p.A436A	TRIM9_uc001wyy.2_Intron|TRIM9_uc001wyz.3_Silent_p.A436A	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	436					proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CTGGAGAGGAAGCTAAACAGA	0.478													11	50					0	0	1	0	0		C	51467557	C	C	51467557	2	2	188	1	0	0	0	0	0	0	0	1	16575	86	3	5		5	TRIM9	14	51467557	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	18173621	51467557	55881983	224	93939											
PELI2	57161	broad.mit.edu	37	chr14	56755305	56755305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaatgaaccttacacagcaCggatattcgccgccggattt	11	9	10	11	4	0	1	0	1	0	0	1	4	0	4	3	3	3	1	3	3	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr14:56755305C>T	uc001xch.2	+	4	746	c.460C>T	c.(460-462)CGG>TGG	p.R154W		NM_021255	NP_067078	Q9HAT8	PELI2_HUMAN	pellino 2	154					innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of protein phosphorylation|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	protein binding			ovary(1)	1						TTACACAGCACGGATATTCGC	0.463													4	25					0	0	1	0	0		T	56755305	T	T	56755305	3	4	188	1	0	0	0	0	1	0	0	0	11741	527	19	1	474	1	PELI2	14	56755305	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	5287748	56755305	50594235	225	93940											
ZFYVE26	23503	broad.mit.edu	37	chr14	68241785	68241785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgatctagggagggtctcGggatctgcagcctggtggac	6	9	18	8	1	3	1	0	1	3	0	4	4	3	4	1	6	2	1	1	6	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr14:68241785G>A	uc001xka.2	-	27	5407	c.5268C>T	c.(5266-5268)CCC>CCT	p.P1756P	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkc.3_Silent_p.P1756P	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	1756					cell cycle|cell death|cytokinesis|double-strand break repair via homologous recombination	centrosome|midbody	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			ovary(9)|breast(2)	11				all cancers(60;0.000763)|OV - Ovarian serous cystadenocarcinoma(108;0.0011)|BRCA - Breast invasive adenocarcinoma(234;0.0115)		GGAGGGTCTCGGGATCTGCAG	0.438													5	17					0	0	1	0	0		A	68241785	A	A	68241785	2	1	188	1	0	0	0	0	0	0	0	1	17693	1103	39	1		1	ZFYVE26	14	68241785	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	11486480	68241785	39107755	226	93941											
RGS6	9628	broad.mit.edu	37	chr14	72944985	72944985	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattttcccagataacatttTtgaacgcacagatcgacaga	14	12	6	9	2	0	4	0	1	0	3	2	5	1	4	1	0	2	1	1	0	3	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr14:72944985T>G	uc001xna.3	+	12	1325	c.802T>G	c.(802-804)TTG>GTG	p.L268V	RGS6_uc010ttn.1_Missense_Mutation_p.L268V|RGS6_uc001xmx.3_Missense_Mutation_p.L268V|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Missense_Mutation_p.L268V|RGS6_uc010ttp.1_Missense_Mutation_p.L199V|RGS6_uc001xmz.1_Missense_Mutation_p.L129V	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	268	G protein gamma.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		GATAACATTTTTGAACGCACA	0.353													5	19					0	0	1	0	0		G	72944985	G	G	72944985	3	3	188	1	0	0	0	0	1	0	0	0	13334	1838	64	5	844	5	RGS6	14	72944985	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4703200	72944985	34404555	227	93942											
ATP10A	57194	broad.mit.edu	37	chr15	25958965	25958965	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgtgtgcaggagctcgaAggtgagcctgcccaggtggg	7	7	18	9	1	0	1	0	1	0	0	1	3	0	2	2	4	4	2	2	4	1	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr15:25958965A>C	uc010ayu.2	-	10	2306	c.2200T>G	c.(2200-2202)TTC>GTC	p.F734V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	734	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		AGGAGCTCGAAGGTGAGCCTG	0.612													23	83					0	0	1	0	0		C	25958965	C	C	25958965	3	2	188	1	0	0	0	0	1	0	0	0	1117	72	3	5	2347	5	ATP10A	15	25958965	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		25958965	76572427	228	93943											
MAPKBP1	23005	broad.mit.edu	37	chr15	42116181	42116181	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttccaaggccctgaaaacTtgcagcccccaccccctgag	9	7	7	18	0	1	2	0	2	1	0	2	2	2	2	6	1	3	1	6	1	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr15:42116181T>C	uc001zok.3	+	30	4439	c.4153T>C	c.(4153-4155)TTG>CTG	p.L1385L	MAPKBP1_uc001zoj.3_Silent_p.L1379L|MAPKBP1_uc010bcj.2_Silent_p.L886L|MAPKBP1_uc010bci.2_Intron|MAPKBP1_uc010udb.1_Silent_p.L1218L|MAPKBP1_uc010bck.2_Silent_p.L596L|MAPKBP1_uc010bcl.2_Silent_p.L886L	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	1385										central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		CCCTGAAAACTTGCAGCCCCC	0.637													21	112					0	0	1	0	0		C	42116181	C	C	42116181	2	2	188	1	0	0	0	0	0	0	0	1	9310	1606	56	3		3	MAPKBP1	15	42116181	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	16157216	42116181	60415211	229	93944											
NEDD4	4734	broad.mit.edu	37	chr15	56152694	56152694	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatgagttggaacatccaAgttacttgacggtggaggtg	12	10	14	5	1	0	3	0	2	0	1	1	5	1	5	1	4	2	2	1	4	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr15:56152694A>C	uc002adj.2	-	7	2428	c.2128T>G	c.(2128-2130)TTG>GTG	p.L710V	NEDD4_uc002adl.2_Missense_Mutation_p.L291V|NEDD4_uc002adi.2_Missense_Mutation_p.L638V|NEDD4_uc010ugj.1_Missense_Mutation_p.L694V|NEDD4_uc010bfm.2_Missense_Mutation_p.L693V|NEDD4_uc002adk.2_RNA	NM_198400	NP_006145	P46934	NEDD4_HUMAN	neural precursor cell expressed, developmentally	710	Mediates interaction with TNIK (By similarity).				development involved in symbiotic interaction|glucocorticoid receptor signaling pathway|negative regulation of sodium ion transport|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|negative regulation of vascular endothelial growth factor receptor signaling pathway|neuron projection development|positive regulation of nucleocytoplasmic transport|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein catabolic process|progesterone receptor signaling pathway|protein K63-linked ubiquitination|protein targeting to lysosome|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|receptor internalization|regulation of dendrite morphogenesis|response to calcium ion|transmission of virus	apicolateral plasma membrane|cell cortex|chromatin|cytosol|perinuclear region of cytoplasm|ubiquitin ligase complex	beta-2 adrenergic receptor binding|phosphoserine binding|phosphothreonine binding|proline-rich region binding|protein domain specific binding|RNA polymerase binding|sodium channel inhibitor activity|ubiquitin binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|breast(1)	4				all cancers(107;0.0299)|GBM - Glioblastoma multiforme(80;0.113)		GGAACATCCAAGTTACTTGAC	0.443													8	62					0	0	1	0	0		C	56152694	C	C	56152694	3	2	188	1	0	0	0	0	1	0	0	0	10329	69	3	5	1907	5	NEDD4	15	56152694	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	14036513	56152694	46378698	230	93945											
TM6SF1	53346	broad.mit.edu	37	chr15	83790679	83790679	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttgttgttacagggaaacTtatagaaccattggcctata	12	14	9	6	0	0	1	0	0	0	1	0	2	0	2	2	2	3	3	2	2	7	8			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr15:83790679T>G	uc002bjp.2	+	5	514	c.405T>G	c.(403-405)ACT>ACG	p.T135T	TM6SF1_uc010bmq.2_Silent_p.T135T|TM6SF1_uc002bjq.2_Silent_p.T135T|TM6SF1_uc010bmr.2_Intron|TM6SF1_uc002bjr.2_5'UTR	NM_023003	NP_075379	Q9BZW5	TM6S1_HUMAN	transmembrane 6 superfamily member 1 isoform 1	135						integral to membrane				ovary(1)	1						ACAGGGAAACTTATAGAACCA	0.299													7	70					0	0	1	0	0		G	83790679	G	G	83790679	2	3	188	1	0	0	0	0	0	0	0	1	15997	1596	56	5		5	TM6SF1	15	83790679	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	27637985	83790679	18740713	231	93946											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84582078	84582078	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgaggacagtgagacgacTtacgactgggagtacgctgg	10	7	15	9	3	0	2	0	2	0	1	0	7	0	4	1	3	2	2	1	3	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr15:84582078T>G	uc002bjz.3	+	16	2159	c.1935T>G	c.(1933-1935)ACT>ACG	p.T645T	ADAMTSL3_uc010bmt.1_Silent_p.T645T|ADAMTSL3_uc010bmu.1_Silent_p.T645T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	645						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			GTGAGACGACTTACGACTGGG	0.567													9	28					0	0	1	0	0		G	84582078	G	G	84582078	2	3	188	1	0	0	0	0	0	0	0	1	276	1596	56	5		5	ADAMTSL3	15	84582078	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	791399	84582078	17949314	232	93947											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84651194	84651194	+	Silent	SNP	A	C	C	1	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	attaagtgccccgtgcgacgAttccagaaatctctgatcca	11	10	8	12	3	1	2	0	1	1	1	4	4	3	2	4	0	2	0	4	0	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr15:84651194A>C	uc002bjz.3	+	21	3038	c.2814A>C	c.(2812-2814)CGA>CGC	p.R938R	ADAMTSL3_uc010bmt.1_Silent_p.R938R|ADAMTSL3_uc010bmu.1_Silent_p.R938R	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	938	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			CCGTGCGACGATTCCAGAAAT	0.498													23	92					0	0	1	0	0		C	84651194	C	C	84651194	2	2	188	1	0	0	0	0	0	0	0	1	276	320	12	5		5	ADAMTSL3	15	84651194	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	69116	84651194	17880198	233	93948											
AGBL1	123624	broad.mit.edu	37	chr15	87089239	87089239	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttgggctattgtaggttttcTgtgacttccatggccactcc	5	16	10	10	0	1	1	0	1	1	0	3	1	3	1	3	3	0	3	3	3	2	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr15:87089239T>C	uc002blz.1	+	19	2634	c.2554T>C	c.(2554-2556)TGT>CGT	p.C852R		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	852					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GTAGGTTTTCTGTGACTTCCA	0.433													7	30					0	0	1	0	0		C	87089239	C	C	87089239	3	2	188	1	0	0	0	0	1	0	0	0	375	1580	55	3	2624	3	AGBL1	15	87089239	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2438045	87089239	15442153	234	93949											
CLDN9	9080	broad.mit.edu	37	chr16	3063438	3063438	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggggaccctggtgtcctgCgccctgcccctgtggaaggt	3	9	15	14	1	0	0	0	0	0	0	1	2	1	2	5	5	2	0	5	5	1	0	rs137924866		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr16:3063438C>T	uc010uwo.1	+	1	982	c.75C>T	c.(73-75)TGC>TGT	p.C25C		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	25	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						TGGTGTCCTGCGCCCTGCCCC	0.652													8	61					0	0	1	0	0		T	3063438	T	T	3063438	2	4	188	1	0	0	0	0	0	0	0	1	3495	776	27	1		1	CLDN9	16	3063438	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08		3063438	87291315	235	93950											
CREBBP	1387	broad.mit.edu	37	chr16	3779644	3779644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagcccttggtgtgctgcaCcacccgcttcatcttctggc	4	11	10	16	1	3	0	1	0	2	0	3	0	3	0	3	2	3	4	3	2	0	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr16:3779644C>T	uc002cvv.2	-	31	5608	c.5404G>A	c.(5404-5406)GTG>ATG	p.V1802M	CREBBP_uc002cvw.2_Missense_Mutation_p.V1764M	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1802	TAZ-type 2.|Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		GTGTGCTGCACCACCCGCTTC	0.647			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				8	87					0	0	1	0	0		T	3779644	T	T	3779644	3	4	188	1	0	0	0	0	1	0	0	0	3864	507	18	4	1928	4	CREBBP	16	3779644	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	716206	3779644	86575109	236	93951											
DNAH3	55567	broad.mit.edu	37	chr16	20998712	20998712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtcctccttgtcaatcagaCgatcatagaagacccgataa	13	10	7	11	2	3	3	3	0	0	3	5	5	5	3	3	0	0	0	3	0	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr16:20998712C>T	uc010vbe.1	-	47	6941	c.6941G>A	c.(6940-6942)CGT>CAT	p.R2314H	DNAH3_uc010vbd.1_5'Flank	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2314					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		GTCAATCAGACGATCATAGAA	0.413													15	122					0	0	1	0	0		T	20998712	T	T	20998712	3	4	188	1	0	0	0	0	1	0	0	0	4609	536	19	1	5472	1	DNAH3	16	20998712	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	17219068	20998712	69356041	237	93952											
NUP93	9688	broad.mit.edu	37	chr16	56832411	56832411	+	Silent	SNP	C	T	T	0	0	0	1	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	ttcctgaagaatgagaaggaCaatgccctgctgtctgccat	11	10	10	10	0	1	3	0	2	1	2	2	5	2	4	3	1	3	1	3	1	4	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr16:56832411C>T	uc002eka.2	+	4	442	c.321C>T	c.(319-321)GAC>GAT	p.D107D	NUP93_uc002ekb.2_5'UTR|NUP93_uc010vhi.1_5'UTR	NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	107					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						ATGAGAAGGACAATGCCCTGC	0.358													6	48					0	0	1	0	0		T	56832411	T	T	56832411	2	4	188	1	0	0	0	0	0	0	0	1	10791	477	17	4		4	NUP93	16	56832411	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	35833699	56832411	33522342	238	93953											
CCDC135	84229	broad.mit.edu	37	chr16	57760055	57760055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcgcgtgtttctggtcGcggaggagcgcatccagctg	6	8	16	11	5	1	1	0	0	1	1	3	3	2	3	1	3	3	3	1	3	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr16:57760055G>A	uc002emi.2	+	13	1923	c.1834G>A	c.(1834-1836)GCG>ACG	p.A612T	CCDC135_uc002emj.2_Missense_Mutation_p.A612T|CCDC135_uc002emk.2_Missense_Mutation_p.A547T	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	612						cytoplasm				central_nervous_system(1)	1						GTTTCTGGTCGCGGAGGAGCG	0.632													12	51					0	0	1	0	0		A	57760055	A	A	57760055	3	1	188	1	0	0	0	0	1	0	0	0	2772	1087	38	1	1880	1	CCDC135	16	57760055	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	927644	57760055	32594698	239	93954											
HYDIN	54768	broad.mit.edu	37	chr16	71015346	71015346	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggaaagattccctctccGctcagagtgatattttctgg	8	13	11	9	1	3	3	1	1	2	2	5	4	4	4	2	3	0	1	2	3	2	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr16:71015346G>A	uc002ezr.2	-	29	4583	c.4455C>T	c.(4453-4455)AGC>AGT	p.S1485S		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	1486										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TTCCCTCTCCGCTCAGAGTGA	0.478													11	59					0	0	1	0	0		A	71015346	A	A	71015346	2	1	188	1	0	0	0	0	0	0	0	1	7483	1078	38	1		1	HYDIN	16	71015346	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	13255291	71015346	19339407	240	93955											
OR3A1	4994	broad.mit.edu	37	chr17	3195720	3195720	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggagtttgggctccaccaAgacagctgccaggatgctga	9	8	14	10	0	0	2	0	1	0	1	1	4	1	4	3	3	3	4	3	3	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:3195720A>C	uc002fvh.1	-	1	157	c.157T>G	c.(157-159)TTG>GTG	p.L53V		NM_002550	NP_002541	P47881	OR3A1_HUMAN	olfactory receptor, family 3, subfamily A,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(2)|central_nervous_system(1)	3						GGCTCCACCAAGACAGCTGCC	0.567													15	71					0	0	1	0	0		C	3195720	C	C	3195720	3	2	188	1	0	0	0	0	1	0	0	0	11056	69	3	5	794	5	OR3A1	17	3195720	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		3195720	77999490	241	93956											
NLRP1	22861	broad.mit.edu	37	chr17	5463142	5463142	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcttgaccaggggatcttGgcttctggggtgaggtcttt	4	15	14	8	0	4	2	0	2	4	0	5	3	4	3	1	6	0	1	1	6	0	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:5463142G>T	uc002gci.2	-	4	1429	c.874C>A	c.(874-876)CAA>AAA	p.Q292K	NLRP1_uc002gcg.1_Missense_Mutation_p.Q292K|NLRP1_uc002gck.2_Missense_Mutation_p.Q292K|NLRP1_uc002gcj.2_Missense_Mutation_p.Q292K|NLRP1_uc002gcl.2_Missense_Mutation_p.Q292K|NLRP1_uc002gch.3_Missense_Mutation_p.Q292K|NLRP1_uc010clh.2_Missense_Mutation_p.Q292K	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	292					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				AGGGGATCTTGGCTTCTGGGG	0.473													34	238					6.00712e-18	6.14682e-18	1	1	0		T	5463142	T	T	5463142	3	4	188	1	0	0	0	0	1	0	0	0	10490	1357	47	5	3678	5	NLRP1	17	5463142	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	2267422	5463142	75732068	242	93957											
C17orf59	54785	broad.mit.edu	37	chr17	8093038	8093038	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctcgtcgttgtcttcctcctCctgctgctcaacatccatcc	4	14	5	18	2	2	0	1	0	1	0	9	0	7	0	5	0	3	3	5	0	1	2	rs144247363	byFrequency	TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:8093038C>G	uc010vut.1	-	1	527	c.421G>C	c.(421-423)GAG>CAG	p.E141Q		NM_017622	NP_060092	Q96GS4	CQ059_HUMAN	hypothetical protein LOC54785	141											0						TCTTCCTCCTCCTGCTGCTCA	0.716													3	36					0	0	1	0	0		G	8093038	G	G	8093038	3	3	188	1	0	0	0	0	1	0	0	0	1870	864	30	5	656	5	C17orf59	17	8093038	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	2629896	8093038	73102172	243	93958											
GLP2R	9340	broad.mit.edu	37	chr17	9757876	9757876	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgggatactccttctctcTtatctccctcttcctggctc	3	16	6	16	1	4	0	0	0	4	0	9	1	6	1	3	2	1	1	3	2	2	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:9757876T>G	uc002gmd.1	+	5	569	c.569T>G	c.(568-570)CTT>CGT	p.L190R		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	190	Helical; Name=1; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	TCCTTCTCTCTTATCTCCCTC	0.463													42	247					0	0	1	0	0		G	9757876	G	G	9757876	3	3	188	1	0	0	0	0	1	0	0	0	6468	1609	56	5	587	5	GLP2R	17	9757876	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1664838	9757876	71437334	244	93959											
DNAH9	1770	broad.mit.edu	37	chr17	11520913	11520913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggctgactgtgctgctccagGagatttgcaaccttctcatc	7	12	10	12	0	1	2	1	1	1	1	4	3	2	2	2	2	4	4	2	2	1	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:11520913G>A	uc002gne.2	+	5	1158	c.1090G>A	c.(1090-1092)GAG>AAG	p.E364K		NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	364	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GCTGCTCCAGGAGATTTGCAA	0.617													11	68					0	0	1	0	0		A	11520913	A	A	11520913	3	1	188	1	0	0	0	0	1	0	0	0	4614	1175	41	4	1108	4	DNAH9	17	11520913	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	1763037	11520913	69674297	245	93960											
DNAH9	1770	broad.mit.edu	37	chr17	11671828	11671828	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgagttcaaaacagtcaAgtttccttcccaaggaacca	14	9	7	11	0	2	1	2	1	0	0	4	3	4	2	3	1	2	2	3	1	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:11671828A>C	uc002gne.2	+	37	7297	c.7229A>C	c.(7228-7230)AAG>ACG	p.K2410T	DNAH9_uc010coo.2_Missense_Mutation_p.K1704T	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2410					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		AAAACAGTCAAGTTTCCTTCC	0.498													16	76					0	0	1	0	0		C	11671828	C	C	11671828	3	2	188	1	0	0	0	0	1	0	0	0	4614	72	3	5	7375	5	DNAH9	17	11671828	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	150915	11671828	69523382	246	93961											
MYOCD	93649	broad.mit.edu	37	chr17	12655799	12655799	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaccaaaacggctctcatGgaccggcttcgacccttcca	9	7	9	16	3	1	0	1	0	1	0	4	2	2	1	4	4	1	3	4	4	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:12655799G>T	uc002gnn.2	+	10	1493	c.1194G>T	c.(1192-1194)ATG>ATT	p.M398I	MYOCD_uc002gno.2_Missense_Mutation_p.M398I|MYOCD_uc002gnp.1_Missense_Mutation_p.M302I|MYOCD_uc002gnq.2_Missense_Mutation_p.M117I	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	398	SAP.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		CGGCTCTCATGGACCGGCTTC	0.517													6	74					3.59834e-05	3.6258e-05	1	1	0		T	12655799	T	T	12655799	3	4	188	1	0	0	0	0	1	0	0	0	10105	1348	47	5	1232	5	MYOCD	17	12655799	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	983971	12655799	68539411	247	93962											
C17orf42	79736	broad.mit.edu	37	chr17	29231427	29231427	+	Missense_Mutation	SNP	T	G	G	0	1	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	cgggctcctttgcattttcaTcacaaaaagtaacattggga	12	12	8	9	1	2	0	2	0	0	0	3	1	3	1	1	2	2	3	1	2	3	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:29231427T>G	uc002hfu.2	-	2	222	c.152A>C	c.(151-153)GAT>GCT	p.D51A	C17orf42_uc002hfv.2_RNA|C17orf42_uc002hfw.2_Missense_Mutation_p.D51A|C17orf42_uc010wbs.1_Missense_Mutation_p.D51A	NM_024683	NP_078959	Q96QE5	TEFM_HUMAN	hypothetical protein LOC79736	51					oxidative phosphorylation|regulation of transcription, DNA-dependent|transcription from mitochondrial promoter	mitochondrial nucleoid|ribonucleoprotein complex	DNA polymerase processivity factor activity|nucleic acid binding|protein binding			ovary(1)	1		all_cancers(10;4.64e-07)|all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				TGCATTTTCATCACAAAAAGT	0.423													7	55					0	0	1	0	0		G	29231427	G	G	29231427	3	3	188	1	0	0	0	0	1	0	0	0	1859	1435	50	5	942	5	C17orf42	17	29231427	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	16575628	29231427	51963783	248	93963											
KIF2B	84643	broad.mit.edu	37	chr17	51902173	51902173	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacagagtgaggagcagaaAgagattgaagaggttgaaac	17	6	15	3	0	0	7	0	3	0	4	0	9	0	8	0	2	3	3	0	2	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:51902173A>T	uc002iua.2	+	1	1935	c.1779A>T	c.(1777-1779)AAA>AAT	p.K593N	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	593					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						AGGAGCAGAAAGAGATTGAAG	0.418													13	81					0	0	1	0	0		T	51902173	T	T	51902173	3	4	188	1	0	0	0	0	1	0	0	0	8314	69	3	5	1781	5	KIF2B	17	51902173	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	22670746	51902173	29293037	249	93964											
GH2	2689	broad.mit.edu	37	chr17	61957795	61957795	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtagttcttgagcagtgcGtcatcgttgtgcgattttgt	5	16	12	8	4	2	1	1	1	1	0	3	2	2	1	1	0	3	4	1	0	1	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr17:61957795G>A	uc002jco.1	-	5	602	c.540C>T	c.(538-540)GAC>GAT	p.D180D	GH2_uc002jcj.2_Intron|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_3'UTR|GH2_uc002jcm.1_Missense_Mutation_p.T179M|GH2_uc002jcn.1_Silent_p.D165D	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	180						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						TGAGCAGTGCGTCATCGTTGT	0.547													23	87					0	0	1	0	0		A	61957795	A	A	61957795	2	1	188	1	0	0	0	0	0	0	0	1	6383	1145	40	1		1	GH2	17	61957795	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	10055622	61957795	19237415	250	93965											
CDH2	1000	broad.mit.edu	37	chr18	25565074	25565074	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgttggagtcacactggcaaAccttcacacgcaggatggaa	12	7	11	11	2	2	0	2	0	0	0	2	3	2	3	1	4	1	3	1	4	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr18:25565074A>C	uc002kwg.2	-	13	2558	c.2099T>G	c.(2098-2100)GTT>GGT	p.V700G	CDH2_uc010xbn.1_Missense_Mutation_p.V669G	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	700	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						ACACTGGCAAACCTTCACACG	0.483													10	49					0	0	1	0	0		C	25565074	C	C	25565074	3	2	188	1	0	0	0	0	1	0	0	0	3108	43	2	5	637	5	CDH2	18	25565074	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		25565074	52512174	251	93966											
SETBP1	26040	broad.mit.edu	37	chr18	42532135	42532135	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcacaagaggaaacggaaaAgcctgcaaaaccgcgatgac	18	2	11	10	3	0	2	0	1	0	1	0	5	0	4	2	2	5	2	2	2	6	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr18:42532135A>C	uc010dni.2	+	4	3126	c.2830A>C	c.(2830-2832)AGC>CGC	p.S944R		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	944						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		GAAACGGAAAAGCCTGCAAAA	0.512									Schinzel-Giedion_syndrome				13	63					0	0	1	0	0		C	42532135	C	C	42532135	3	2	188	1	0	0	0	0	1	0	0	0	14154	72	3	5	3033	5	SETBP1	18	42532135	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	16967061	42532135	35545113	252	93967											
MYO5B	4645	broad.mit.edu	37	chr18	47488655	47488655	+	Missense_Mutation	SNP	A	C	C	1	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	ccttacattcttcatccaacAggtccaagatacccagcttg	11	11	5	14	0	2	1	1	0	1	1	4	1	4	1	4	1	4	1	4	1	4	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr18:47488655A>C	uc002leb.2	-	12	1814	c.1526T>G	c.(1525-1527)CTG>CGG	p.L509R	MYO5B_uc002lec.1_Missense_Mutation_p.L508R	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	509	Myosin head-like.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		TTCATCCAACAGGTCCAAGAT	0.393													7	107					0	0	1	0	0		C	47488655	C	C	47488655	3	2	188	1	0	0	0	0	1	0	0	0	10097	188	7	5	4136	5	MYO5B	18	47488655	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	4956520	47488655	30588593	253	93968											
DCC	1630	broad.mit.edu	37	chr18	50961524	50961524	+	Silent	SNP	A	G	G	1	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	caatgaacaggtcgtcatggAgatggaggttattggccagt	11	10	14	6	1	1	2	1	1	0	1	2	4	1	3	1	5	1	1	1	5	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr18:50961524A>G	uc002lfe.1	+	22	3761	c.3174A>G	c.(3172-3174)GGA>GGG	p.G1058G	DCC_uc010dpf.1_Silent_p.G693G	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1058	Extracellular (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		GTCGTCATGGAGATGGAGGTT	0.303													26	163					0	0	1	0	0		G	50961524	G	G	50961524	2	3	188	1	0	0	0	0	0	0	0	1	4285	291	11	3		3	DCC	18	50961524	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3472869	50961524	27115724	254	93969											
SERPINB10	5273	broad.mit.edu	37	chr18	61597380	61597380	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatctgggaacatcaattcTtagtgcaaaacaccacagaa	17	8	7	9	0	3	1	1	0	2	1	3	3	3	2	1	1	3	1	1	1	7	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr18:61597380T>G	uc010xev.1	+	6	682	c.592T>G	c.(592-594)TTA>GTA	p.L198V	SERPINB10_uc010xew.1_Missense_Mutation_p.L198V	NM_005024	NP_005015	P48595	SPB10_HUMAN	serine (or cysteine) proteinase inhibitor, clade	198						cytoplasm|nucleus	serine-type endopeptidase inhibitor activity			lung(1)|kidney(1)|skin(1)	3		Esophageal squamous(42;0.131)				ACATCAATTCTTAGTGCAAAA	0.383													14	78					0	0	1	0	0		G	61597380	G	G	61597380	3	3	188	1	0	0	0	0	1	0	0	0	14122	1606	56	5	610	5	SERPINB10	18	61597380	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	10635856	61597380	16479868	255	93970											
MUC16	94025	broad.mit.edu	37	chr19	9060081	9060081	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaggagttctactcataAgagcggtcatctgtgagtgt	9	12	11	9	1	4	2	2	1	2	1	5	3	5	3	1	2	2	1	1	2	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:9060081A>C	uc002mkp.2	-	3	27569	c.27365T>G	c.(27364-27366)CTT>CGT	p.L9122R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9124	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTACTCATAAGAGCGGTCAT	0.488													10	44					0	0	1	0	0		C	9060081	C	C	9060081	3	2	188	1	0	0	0	0	1	0	0	0	9991	72	3	5	16486	5	MUC16	19	9060081	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		9060081	50068902	256	93971											
MUC16	94025	broad.mit.edu	37	chr19	9061830	9061830	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccaggagttctactcataAgagtggtcatctctgagtgt	9	13	10	9	0	4	2	2	1	2	1	6	3	5	3	1	2	1	1	1	2	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:9061830A>C	uc002mkp.2	-	3	25820	c.25616T>G	c.(25615-25617)CTT>CGT	p.L8539R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8541	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCTACTCATAAGAGTGGTCAT	0.522													10	63					0	0	1	0	0		C	9061830	C	C	9061830	3	2	188	1	0	0	0	0	1	0	0	0	9991	72	3	5	18235	5	MUC16	19	9061830	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1749	9061830	50067153	257	93972											
MUC16	94025	broad.mit.edu	37	chr19	9076366	9076366	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtactactgggagtccaacTtgtacttaaaatgtcaggaa	13	12	9	7	0	1	0	1	0	0	0	2	2	2	2	1	2	4	2	1	2	7	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:9076366T>G	uc002mkp.2	-	3	11284	c.11080A>C	c.(11080-11082)AGT>CGT	p.S3694R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3695	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAGTCCAACTTGTACTTAAA	0.443													14	79					0	0	1	0	0		G	9076366	G	G	9076366	3	3	188	1	0	0	0	0	1	0	0	0	9991	1609	56	5	32771	5	MUC16	19	9076366	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	14536	9076366	50052617	258	93973											
MUC16	94025	broad.mit.edu	37	chr19	9086887	9086887	+	Missense_Mutation	SNP	A	G	G	1	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	ggtgggctatgcccagggtgActccactactactgctccct	6	10	11	14	0	0	1	0	1	0	0	2	1	2	1	3	3	4	2	3	3	3	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:9086887A>G	uc002mkp.2	-	1	5132	c.4928T>C	c.(4927-4929)GTC>GCC	p.V1643A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1643	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCCCAGGGTGACTCCACTACT	0.507													20	124					0	0	1	0	0		G	9086887	G	G	9086887	3	3	188	1	0	0	0	0	1	0	0	0	9991	275	10	3	38931	3	MUC16	19	9086887	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	10521	9086887	50042096	259	93974											
ZNF426	79088	broad.mit.edu	37	chr19	9639571	9639571	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctctccagtgtgagttcTtatatgttgaataaggcgtg	8	16	10	7	1	2	2	0	2	2	0	4	2	3	2	1	1	0	2	1	1	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:9639571T>G	uc002mlq.2	-	8	1414	c.1150A>C	c.(1150-1152)AGA>CGA	p.R384R	ZNF426_uc010dws.2_Silent_p.R346R	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	384	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTGTGAGTTCTTATATGTTGA	0.418													11	75					0	0	1	0	0		G	9639571	G	G	9639571	2	3	188	1	0	0	0	0	0	0	0	1	17925	1617	56	5		5	ZNF426	19	9639571	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	552684	9639571	49489412	260	93975											
CYP4F12	66002	broad.mit.edu	37	chr19	15795950	15795950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcacccagaataccaggagcGctgccgacaggaggtgcaag	12	3	14	12	2	0	1	0	0	0	1	0	4	0	3	3	3	4	3	3	3	3	1	rs150856722	by1000genomes	TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:15795950G>A	uc002nbl.2	+	9	1119	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H		NM_023944	NP_076433			cytochrome P450, family 4, subfamily F,											skin(3)|ovary(2)|central_nervous_system(2)	7	Acute lymphoblastic leukemia(2;0.0367)					TACCAGGAGCGCTGCCGACAG	0.572													13	64					0	0	1	0	0		A	15795950	A	A	15795950	3	1	188	1	0	0	0	0	1	0	0	0	4190	1087	38	1	1088	1	CYP4F12	19	15795950	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	6156379	15795950	43333033	261	93976											
SIN3B	23309	broad.mit.edu	37	chr19	16942380	16942380	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctcattgttggattcaaCgcttttcttcccctcggata	7	15	7	12	2	3	0	2	0	1	0	5	3	4	2	3	2	1	2	3	2	2	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:16942380C>T	uc002ney.1	+	3	317	c.303C>T	c.(301-303)AAC>AAT	p.N101N	SIN3B_uc002new.2_Silent_p.N101N|SIN3B_uc002nex.2_Silent_p.N33N|SIN3B_uc002nez.1_Silent_p.N101N	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	101	Interaction with REST (By similarity).|PAH 1.				cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						TTGGATTCAACGCTTTTCTTC	0.493													25	119					0	0	1	0	0		T	16942380	T	T	16942380	2	4	188	1	0	0	0	0	0	0	0	1	14351	535	19	1		1	SIN3B	19	16942380	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	1146430	16942380	42186603	262	93977											
NCAN	1463	broad.mit.edu	37	chr19	19339180	19339180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaggagcttcagtgcctccGcatcagagcagtcccctagg	8	8	11	14	1	3	1	3	0	0	1	5	2	5	2	4	2	3	3	4	2	1	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:19339180G>A	uc002nlz.2	+	8	2850	c.2751G>A	c.(2749-2751)CCG>CCA	p.P917P	NCAN_uc010ecc.1_Silent_p.P481P	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	917					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CAGTGCCTCCGCATCAGAGCA	0.617													11	147					0	0	1	0	0		A	19339180	A	A	19339180	2	1	188	1	0	0	0	0	0	0	0	1	10223	1074	38	1		1	NCAN	19	19339180	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	2396800	19339180	39789803	263	93978											
ZNF626	199777	broad.mit.edu	37	chr19	20808392	20808392	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatatcttctcagtaccacTttttggaaagaatctttcat	11	17	4	9	0	5	1	3	0	3	1	6	2	5	2	1	1	1	1	1	1	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:20808392T>G	uc002npb.1	-	4	441	c.291A>C	c.(289-291)AAA>AAC	p.K97N	ZNF626_uc002npc.1_Missense_Mutation_p.K21N	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	97					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCAGTACCACTTTTTGGAAAG	0.343													12	74					0	0	1	0	0		G	20808392	G	G	20808392	3	3	188	1	0	0	0	0	1	0	0	0	18075	1606	56	5	1299	5	ZNF626	19	20808392	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1469212	20808392	38320591	264	93979											
ZNF43	7594	broad.mit.edu	37	chr19	21992583	21992583	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatatgctgctctggccaaaAgtcttgggtaaaatgagaac	13	11	10	7	0	2	1	0	1	2	1	2	2	2	1	1	2	3	3	1	2	7	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:21992583A>C	uc002nqj.2	-	4	386	c.256T>G	c.(256-258)TTT>GTT	p.F86V	ZNF43_uc010ecv.2_Missense_Mutation_p.F80V|ZNF43_uc002nql.2_Missense_Mutation_p.F80V|ZNF43_uc002nqm.2_Missense_Mutation_p.F80V|ZNF43_uc002nqk.2_Missense_Mutation_p.F16V	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	86					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TCTGGCCAAAAGTCTTGGGTA	0.279													7	70					0	0	1	0	0		C	21992583	C	C	21992583	3	2	188	1	0	0	0	0	1	0	0	0	17928	72	3	5	2177	5	ZNF43	19	21992583	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1184191	21992583	37136400	265	93980											
ZNF492	57615	broad.mit.edu	37	chr19	22836737	22836737	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaggtattgctgcctctaAgccagacctgatcacctgtc	10	10	8	13	0	2	2	1	1	1	1	3	2	2	2	4	1	4	2	4	1	3	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:22836737A>G	uc002nqw.3	+	3	294	c.50A>G	c.(49-51)AAG>AGG	p.K17R		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	17	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				GCTGCCTCTAAGCCAGACCTG	0.403													11	105					0	0	1	0	0		G	22836737	G	G	22836737	3	3	188	1	0	0	0	0	1	0	0	0	17968	72	3	3	56	3	ZNF492	19	22836737	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	844154	22836737	36292246	266	93981											
ZNF492	57615	broad.mit.edu	37	chr19	22846703	22846703	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataaaaaatgtggatgtgaaAatttacagttaagaaaatac	21	11	7	2	0	0	2	0	1	0	1	0	3	0	3	0	1	2	1	0	1	10	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:22846703A>C	uc002nqw.3	+	4	476	c.232A>C	c.(232-234)AAT>CAT	p.N78H		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	78					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				TGGATGTGAAAATTTACAGTT	0.348													5	11					0	0	1	0	0		C	22846703	C	C	22846703	3	2	188	1	0	0	0	0	1	0	0	0	17968	14	1	5	242	5	ZNF492	19	22846703	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	9966	22846703	36282280	267	93982											
ZNF260	339324	broad.mit.edu	37	chr19	37005915	37005915	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccttctttcctgtgtgacTtctaaggtgtagagtaagag	8	15	11	7	0	2	3	0	1	2	2	3	3	3	3	2	1	1	2	2	1	3	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:37005915T>G	uc002oee.1	-	4	1070	c.226A>C	c.(226-228)AGT>CGT	p.S76R	ZNF260_uc002oed.1_Missense_Mutation_p.S73R|ZNF260_uc010eey.1_Missense_Mutation_p.S73R|ZNF260_uc002oef.1_Missense_Mutation_p.S73R	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	76	C2H2-type 2.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					CCTGTGTGACTTCTAAGGTGT	0.393													24	126					0	0	1	0	0		G	37005915	G	G	37005915	3	3	188	1	0	0	0	0	1	0	0	0	17827	1609	56	5	1016	5	ZNF260	19	37005915	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	14159212	37005915	22123068	268	93983											
ZNF568	374900	broad.mit.edu	37	chr19	37440630	37440630	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaacataatttagacttacTtagatatgagaaaggctgtg	15	12	10	4	0	0	3	0	1	0	3	0	5	0	4	0	2	2	1	0	2	7	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:37440630T>G	uc002ofc.2	+	7	1090	c.575T>G	c.(574-576)CTT>CGT	p.L192R	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.L116R|ZNF568_uc010efe.2_Missense_Mutation_p.L116R|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	192					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTAGACTTACTTAGATATGAG	0.363													16	106					0	0	1	0	0		G	37440630	G	G	37440630	3	3	188	1	0	0	0	0	1	0	0	0	18024	1609	56	5	593	5	ZNF568	19	37440630	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	434715	37440630	21688353	269	93984											
ZNF568	374900	broad.mit.edu	37	chr19	37441098	37441098	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccttcagccagaagcaaaAtcttattgagcacgagaaaa	17	8	7	9	1	2	3	1	1	1	2	3	4	3	3	2	0	3	2	2	0	6	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:37441098A>C	uc002ofc.2	+	7	1558	c.1043A>C	c.(1042-1044)AAT>ACT	p.N348T	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Missense_Mutation_p.N272T|ZNF568_uc010efe.2_Missense_Mutation_p.N272T|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	348	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CAGAAGCAAAATCTTATTGAG	0.388													9	70					0	0	1	0	0		C	37441098	C	C	37441098	3	2	188	1	0	0	0	0	1	0	0	0	18024	101	4	5	1061	5	ZNF568	19	37441098	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	468	37441098	21687885	270	93985											
ZNF607	84775	broad.mit.edu	37	chr19	38190535	38190535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacattcataaggtttctcaCgagcattaattttctgatgc	11	15	6	9	1	3	1	2	1	2	0	4	2	3	1	0	1	2	2	0	1	2	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:38190535C>T	uc002ohc.1	-	5	1093	c.497G>A	c.(496-498)CGT>CAT	p.R166H	ZNF607_uc002ohb.1_Missense_Mutation_p.R165H	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607	166					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			AGGTTTCTCACGAGCATTAAT	0.383													17	106					0	0	1	0	0		T	38190535	T	T	38190535	3	4	188	1	0	0	0	0	1	0	0	0	18058	536	19	1	1597	1	ZNF607	19	38190535	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	749437	38190535	20938448	271	93986											
CEACAM8	1088	broad.mit.edu	37	chr19	43097731	43097731	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagttacttcttcactcataAgatttagctttatgacttgt	10	18	5	8	0	3	2	2	1	1	1	3	2	3	2	0	0	2	2	0	0	4	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:43097731A>T	uc002oud.2	-	2	488	c.386T>A	c.(385-387)CTT>CAT	p.L129H	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	129	Ig-like V-type.				immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				TTCACTCATAAGATTTAGCTT	0.478													27	150					0	0	1	0	0		T	43097731	T	T	43097731	3	4	188	1	0	0	0	0	1	0	0	0	3201	72	3	5	679	5	CEACAM8	19	43097731	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	4907196	43097731	16031252	272	93987											
ZNF226	7769	broad.mit.edu	37	chr19	44679669	44679669	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagagaaaaatcaaagtaAgttaattactgttcaagaca	20	9	8	4	0	2	2	2	0	0	2	2	4	2	3	0	1	1	3	0	1	7	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:44679669A>T	uc002oyp.2	+	6	398	c.254A>T	c.(253-255)AAG>ATG	p.K85M	ZNF226_uc002oyq.2_Translation_Start_Site|ZNF226_uc002oyr.2_Translation_Start_Site|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Missense_Mutation_p.K85M|ZNF226_uc002oyt.2_Missense_Mutation_p.K85M	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	85					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AATCAAAGTAAGTTAATTACT	0.353													6	24					0	0	1	0	0		T	44679669	T	T	44679669	3	4	188	1	0	0	0	0	1	0	0	0	17805	72	3	5	322	5	ZNF226	19	44679669	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1581938	44679669	14449314	273	93988											
SLC6A16	28968	broad.mit.edu	37	chr19	49814455	49814455	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaacccgggctgctgaaacTtgggcctctgaggtccaaga	9	7	13	12	1	1	3	0	2	1	1	2	3	2	3	3	3	3	3	3	3	3	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:49814455T>C	uc002pmz.2	-	2	384	c.150A>G	c.(148-150)CAA>CAG	p.Q50Q	SLC6A16_uc002pna.2_Silent_p.Q50Q|hsa-mir-4324|MI0015854_5'Flank	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	50	Cytoplasmic (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		CTGCTGAAACTTGGGCCTCTG	0.547													6	48					0	0	1	0	0		C	49814455	C	C	49814455	2	2	188	1	0	0	0	0	0	0	0	1	14704	1606	56	3		3	SLC6A16	19	49814455	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	5134786	49814455	9314528	274	93989											
SYT3	84258	broad.mit.edu	37	chr19	51135733	51135733	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatacgagtccatgtccaAgtaggagggctcaggggtgt	9	9	16	7	1	1	0	1	0	0	0	3	3	3	2	2	5	1	2	2	5	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:51135733A>C	uc002pst.2	-	2	1118	c.484T>G	c.(484-486)TTG>GTG	p.L162V	SYT3_uc002psv.2_Missense_Mutation_p.L162V|SYT3_uc010ycd.1_Missense_Mutation_p.L162V	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	162	Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		TCCATGTCCAAGTAGGAGGGC	0.657													7	27					0	0	1	0	0		C	51135733	C	C	51135733	3	2	188	1	0	0	0	0	1	0	0	0	15500	69	3	5	1316	5	SYT3	19	51135733	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1321278	51135733	7993250	275	93990											
TSEN34	79042	broad.mit.edu	37	chr19	54696123	54696123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccccacgccggccgccCtgcccacgagctgcgctaca	5	4	11	21	5	0	0	0	0	0	0	0	1	0	0	6	2	4	2	6	2	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:54696123C>T	uc002qdu.2	+	4	753	c.644C>T	c.(643-645)CCT>CTT	p.P215L	MBOAT7_uc002qdq.2_5'Flank|MBOAT7_uc002qdr.2_5'Flank|MBOAT7_uc002qds.2_5'Flank|MBOAT7_uc010yen.1_5'Flank|MBOAT7_uc002qdt.3_5'Flank|TSEN34_uc010yeo.1_Missense_Mutation_p.P215L|TSEN34_uc002qdv.2_Missense_Mutation_p.P215L|TSEN34_uc002qdw.2_Missense_Mutation_p.P215L	NM_024075	NP_076980	Q9BSV6	SEN34_HUMAN	tRNA-intron endonuclease 34	215					mRNA processing|tRNA-type intron splice site recognition and cleavage	nucleolus|tRNA-intron endonuclease complex	nucleic acid binding|tRNA-intron endonuclease activity				0	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GCCGGCCGCCCTGCCCACGAG	0.642													18	86					0	0	1	0	0		T	54696123	T	T	54696123	3	4	188	1	0	0	0	0	1	0	0	0	16639	681	24	4	654	4	TSEN34	19	54696123	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	3560390	54696123	4432860	276	93991											
ZNF667	63934	broad.mit.edu	37	chr19	56952809	56952809	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctctccagtgtgaattcTttcatgttgggcgaggtgtg	5	16	12	8	1	3	1	1	1	2	0	5	2	4	1	1	2	0	1	1	2	1	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:56952809T>C	uc002qnd.2	-	5	1717	c.1555A>G	c.(1555-1557)AGA>GGA	p.R519G	ZNF667_uc010etl.2_Missense_Mutation_p.R301G|ZNF667_uc002qne.2_Missense_Mutation_p.R519G|ZNF667_uc010etm.2_Missense_Mutation_p.R462G	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	519	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		GTGTGAATTCTTTCATGTTGG	0.438													6	52					0	0	1	0	0		C	56952809	C	C	56952809	3	2	188	1	0	0	0	0	1	0	0	0	18099	1617	56	3	281	3	ZNF667	19	56952809	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2256686	56952809	2176174	277	93992											
PEG3	5178	broad.mit.edu	37	chr19	57327880	57327880	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatggattttctgatgttCtttcagggatgagctatgaa	10	16	11	4	0	3	3	1	3	2	0	3	5	3	5	0	2	1	3	0	2	3	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:57327880C>A	uc002qnu.2	-	7	2281	c.1930G>T	c.(1930-1932)GAA>TAA	p.E644*	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Nonsense_Mutation_p.E615*|PEG3_uc002qnv.2_Nonsense_Mutation_p.E644*|PEG3_uc002qnw.2_Nonsense_Mutation_p.E520*|PEG3_uc002qnx.2_Nonsense_Mutation_p.E518*|PEG3_uc010etr.2_Nonsense_Mutation_p.E644*	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	644	C2H2-type 4.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		TTCTGATGTTCTTTCAGGGAT	0.418													11	94					1.08611e-07	1.1e-07	1	1	0		A	57327880	A	A	57327880	4	1	188	1	0	0	0	0	0	1	0	0	11739	922	32	5	2840	5	PEG3	19	57327880	Nonsense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	375071	57327880	1801103	278	93993											
PEG3	5178	broad.mit.edu	37	chr19	57328104	57328104	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactatgaaggaaggtttccTtacacaccctgcactcgtag	12	10	8	11	1	0	1	0	1	0	0	2	2	1	2	2	2	3	3	2	2	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:57328104T>G	uc002qnu.2	-	7	2057	c.1706A>C	c.(1705-1707)AAG>ACG	p.K569T	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.K540T|PEG3_uc002qnv.2_Missense_Mutation_p.K569T|PEG3_uc002qnw.2_Missense_Mutation_p.K445T|PEG3_uc002qnx.2_Missense_Mutation_p.K443T|PEG3_uc010etr.2_Missense_Mutation_p.K569T	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	569	C2H2-type 3.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GAAGGTTTCCTTACACACCCT	0.368													13	102					0	0	1	0	0		G	57328104	G	G	57328104	3	3	188	1	0	0	0	0	1	0	0	0	11739	1609	56	5	3064	5	PEG3	19	57328104	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	224	57328104	1800879	279	93994											
ZNF549	256051	broad.mit.edu	37	chr19	58048993	58048993	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaccacccacagcagacaAgagtatgcacatagaagcag	17	3	9	12	0	0	4	0	0	0	4	0	4	0	4	2	0	3	4	2	0	4	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr19:58048993A>G	uc002qpb.1	+	4	870	c.621A>G	c.(619-621)CAA>CAG	p.Q207Q	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Silent_p.Q194Q	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	207					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACAGCAGACAAGAGTATGCAC	0.438													9	57					0	0	1	0	0		G	58048993	G	G	58048993	2	3	188	1	0	0	0	0	0	0	0	1	18006	69	3	3		3	ZNF549	19	58048993	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	720889	58048993	1079990	280	93995											
SLA2	84174	broad.mit.edu	37	chr20	35261962	35261962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacccatgggagactttggCcacgtggacgctggggatgt	7	9	15	10	2	1	1	1	0	0	1	1	4	1	3	2	5	0	1	2	5	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr20:35261962C>T	uc002xfv.2	-	4	624	c.262G>A	c.(262-264)GCC>ACC	p.A88T	SLA2_uc002xfu.2_Missense_Mutation_p.A88T	NM_032214	NP_115590	Q9H6Q3	SLAP2_HUMAN	Src-like-adaptor 2 isoform a	88	SH3.				antigen receptor-mediated signaling pathway|B cell mediated immunity|intracellular receptor mediated signaling pathway|negative regulation of B cell activation|negative regulation of calcium-mediated signaling|negative regulation of transcription from RNA polymerase II promoter|T cell activation	cytoplasmic membrane-bounded vesicle|endosome membrane|plasma membrane	protein N-terminus binding|SH3/SH2 adaptor activity				0	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				GAGACTTTGGCCACGTGGACG	0.597													20	99					0	0	1	0	0		T	35261962	T	T	35261962	3	4	188	1	0	0	0	0	1	0	0	0	14389	739	26	2	543	2	SLA2	20	35261962	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08		35261962	27763558	281	93996											
WISP2	8839	broad.mit.edu	37	chr20	43355923	43355923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcccaccctccaggggtcGcagtccacaaaacagtgcct	9	6	9	17	1	0	0	0	0	0	0	3	0	2	0	5	2	3	1	5	2	2	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr20:43355923G>A	uc002xmn.2	+	5	1081	c.728G>A	c.(727-729)CGC>CAC	p.R243H	uc002xml.1_Intron|uc002xmm.1_Intron|WISP2_uc002xmp.2_Missense_Mutation_p.R243H|WISP2_uc002xmq.2_Missense_Mutation_p.A161T	NM_003881	NP_003872	O76076	WISP2_HUMAN	WNT1 inducible signaling pathway protein 2	243					cell adhesion|cell-cell signaling|signal transduction	extracellular region|soluble fraction	insulin-like growth factor binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				TCCAGGGGTCGCAGTCCACAA	0.682													4	44					0	0	1	0	0		A	43355923	A	A	43355923	3	1	188	1	0	0	0	0	1	0	0	0	17399	1087	38	1	742	1	WISP2	20	43355923	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	8093961	43355923	19669597	282	93997											
TMPRSS15	5651	broad.mit.edu	37	chr21	19687479	19687479	+	Silent	SNP	T	G	G	0	1	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	ataccacaatctgcttcatcTgagccatcctcacagtgcag	11	10	6	14	0	4	1	2	1	2	0	5	1	5	1	3	0	4	2	3	0	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr21:19687479T>G	uc002ykw.2	-	17	2047	c.2016A>C	c.(2014-2016)TCA>TCC	p.S672S		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	672	Extracellular (Potential).|LDL-receptor class A 2.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						CTGCTTCATCTGAGCCATCCT	0.403													8	61					0	0	1	0	0		G	19687479	G	G	19687479	2	3	188	1	0	0	0	0	0	0	0	1	16271	1567	55	5		5	TMPRSS15	21	19687479	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		19687479	28442416	283	93998											
ADAMTS1	9510	broad.mit.edu	37	chr21	28210864	28210864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctatgatgcgatcacaacCagcttttacacactgtcctt	10	13	6	12	1	2	1	1	1	1	0	3	2	3	1	2	0	4	1	2	0	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr21:28210864C>T	uc002ymf.2	-	8	2553	c.2098G>A	c.(2098-2100)GGT>AGT	p.G700S		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	700	Cys-rich.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		CGATCACAACCAGCTTTTACA	0.408													7	43					0	0	1	0	0		T	28210864	T	T	28210864	3	4	188	1	0	0	0	0	1	0	0	0	255	594	21	4	813	4	ADAMTS1	21	28210864	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	8523385	28210864	19919031	284	93999											
ADAMTS1	9510	broad.mit.edu	37	chr21	28211926	28211926	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgggctgcaaaacgaagaAgtagccaatgcctttggctt	11	10	11	9	1	0	1	0	0	0	1	0	2	0	1	2	2	4	4	2	2	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr21:28211926A>C	uc002ymf.2	-	7	2463	c.2008T>G	c.(2008-2010)TTC>GTC	p.F670V		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	670	Cys-rich.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		AAAACGAAGAAGTAGCCAATG	0.458													27	131					0	0	1	0	0		C	28211926	C	C	28211926	3	2	188	1	0	0	0	0	1	0	0	0	255	72	3	5	907	5	ADAMTS1	21	28211926	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1062	28211926	19917969	285	94000											
POTEH	23784	broad.mit.edu	37	chr22	16287378	16287378	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcttctcgacggacgtggtAcctcggctccatgaaagcgc	8	9	11	13	5	2	1	0	1	2	0	5	3	3	2	2	3	2	2	2	3	2	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr22:16287378A>G	uc010gqp.2	-	1	560	c.508T>C	c.(508-510)TAC>CAC	p.Y170H	POTEH_uc002zlg.1_RNA|POTEH_uc002zlh.1_5'UTR|POTEH_uc002zlj.1_Missense_Mutation_p.Y5H	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	170										skin(1)	1						CGGACGTGGTACCTCGGCTCC	0.582													13	265					0	0	1	0	0		G	16287378	G	G	16287378	3	3	188	1	0	0	0	0	1	0	0	0	12286	391	14	3	1169	3	POTEH	22	16287378	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08		16287378	35017188	286	94001											
CYP2D6	1565	broad.mit.edu	37	chr22	42522680	42522680	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtgggcaccgagaagctgaAgtgctgcagcagggaggtga	11	5	18	7	1	0	3	0	2	0	1	0	5	0	4	1	3	4	5	1	3	2	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr22:42522680A>C	uc003bce.2	-	9	1480	c.1390T>G	c.(1390-1392)TTC>GTC	p.F464V	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Missense_Mutation_p.F158V|CYP2D6_uc003bcf.2_Missense_Mutation_p.F413V	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	464							electron carrier activity|heme binding|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			breast(1)|skin(1)	2						GAGAAGCTGAAGTGCTGCAGC	0.662													7	27					0	0	1	0	0		C	42522680	C	C	42522680	3	2	188	1	0	0	0	0	1	0	0	0	4172	72	3	5	107	5	CYP2D6	22	42522680	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	26235302	42522680	8781886	287	94002											
CELSR1	9620	broad.mit.edu	37	chr22	46859806	46859806	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggagctgaggaagggcgcGgagctgtcgaatcgcagaac	10	5	18	8	4	0	2	0	1	0	1	2	6	0	5	0	4	3	3	0	4	3	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr22:46859806G>A	uc003bhw.1	-	2	3981	c.3981C>T	c.(3979-3981)TCC>TCT	p.S1327S		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1327	Extracellular (Potential).|EGF-like 1; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GGAAGGGCGCGGAGCTGTCGA	0.667													3	41					0	0	1	0	0		A	46859806	A	A	46859806	2	1	188	1	0	0	0	0	0	0	0	1	3224	1103	39	1		1	CELSR1	22	46859806	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	4337126	46859806	4444760	288	94003											
BRD1	23774	broad.mit.edu	37	chr22	50217634	50217634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagggcactggccgaggccGgcgtgccgtgggcgctgggg	3	4	23	11	5	0	0	0	0	0	0	0	2	0	1	3	8	1	2	3	8	0	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chr22:50217634G>A	uc003biv.2	-	1	819	c.332C>T	c.(331-333)CCG>CTG	p.P111L	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Missense_Mutation_p.P111L|BRD1_uc011arh.1_Missense_Mutation_p.P111L|BRD1_uc003biu.3_Missense_Mutation_p.P111L	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	111					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		GGCCGAGGCCGGCGTGCCGTG	0.607													14	119					0	0	1	0	0		A	50217634	A	A	50217634	3	1	188	1	0	0	0	0	1	0	0	0	1504	1116	39	1	2892	1	BRD1	22	50217634	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	3357828	50217634	1086932	289	94004											
MXRA5	25878	broad.mit.edu	37	chrX	3240515	3240515	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtctccctctagcatatTtcctccctgtagtgtctgag	5	14	10	12	0	3	1	0	1	3	0	6	1	5	1	3	2	1	2	3	2	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:3240515T>G	uc004crg.3	-	5	3368	c.3211A>C	c.(3211-3213)AAT>CAT	p.N1071H		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	1071						extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				TCTAGCATATTTCCTCCCTGT	0.458													15	82					0	0	1	0	0		G	3240515	G	G	3240515	3	3	188	1	0	0	0	0	1	0	0	0	10021	1841	64	5	5287	5	MXRA5	23	3240515	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08		3240515	152030045	290	94005											
NLGN4X	57502	broad.mit.edu	37	chrX	5821156	5821156	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccagtaggtcatgaccacGgcgctgagcatgacgtcgtt	8	9	13	11	4	1	3	1	3	0	0	3	3	2	3	2	2	1	4	2	2	1	2	rs144614029		TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:5821156G>A	uc010ndh.2	-	5	2064	c.1563C>T	c.(1561-1563)GCC>GCT	p.A521A	NLGN4X_uc004crp.2_Silent_p.A541A|NLGN4X_uc004crq.2_Silent_p.A521A|NLGN4X_uc010ndi.2_Silent_p.A558A|NLGN4X_uc004crr.2_Silent_p.A521A|NLGN4X_uc010ndj.2_Silent_p.A521A	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	521	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCATGACCACGGCGCTGAGCA	0.512													15	94					0	0	1	0	0		A	5821156	A	A	5821156	2	1	188	1	0	0	0	0	0	0	0	1	10483	1103	39	1		1	NLGN4X	23	5821156	Silent	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	2580641	5821156	149449404	291	94006											
NLGN4X	57502	broad.mit.edu	37	chrX	6069148	6069148	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagatgggcagcatgtcatgCagtaaggatctctcatccag	11	9	11	10	0	3	1	2	0	1	1	5	2	4	2	1	2	2	4	1	2	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:6069148C>T	uc010ndh.2	-	2	861	c.360G>A	c.(358-360)CTG>CTA	p.L120L	NLGN4X_uc004crp.2_Silent_p.L120L|NLGN4X_uc004crq.2_Silent_p.L120L|NLGN4X_uc010ndi.2_Silent_p.L120L|NLGN4X_uc004crr.2_Silent_p.L120L|NLGN4X_uc010ndj.2_Silent_p.L120L	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	120	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GCATGTCATGCAGTAAGGATC	0.493													15	109					0	0	1	0	0		T	6069148	T	T	6069148	2	4	188	1	0	0	0	0	0	0	0	1	10483	697	25	2		2	NLGN4X	23	6069148	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	247992	6069148	149201412	292	94007											
NLGN4X	57502	broad.mit.edu	37	chrX	6069402	6069402	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggctgtcaatgagggtgaActtgatggcaagagcagtta	11	11	14	5	0	1	4	1	3	0	1	1	4	1	4	0	3	2	4	0	3	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:6069402A>C	uc010ndh.2	-	2	607	c.106T>G	c.(106-108)TTC>GTC	p.F36V	NLGN4X_uc004crp.2_Missense_Mutation_p.F36V|NLGN4X_uc004crq.2_Missense_Mutation_p.F36V|NLGN4X_uc010ndi.2_Missense_Mutation_p.F36V|NLGN4X_uc004crr.2_Missense_Mutation_p.F36V|NLGN4X_uc010ndj.2_Missense_Mutation_p.F36V	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	36					brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						ATGAGGGTGAACTTGATGGCA	0.502													16	96					0	0	1	0	0		C	6069402	C	C	6069402	3	2	188	1	0	0	0	0	1	0	0	0	10483	43	2	5	2364	5	NLGN4X	23	6069402	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	254	6069402	149201158	293	94008											
FAM9A	171482	broad.mit.edu	37	chrX	8763146	8763146	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcctcttcctcttcttcTtcttcctcttcctcttcttc	0	23	0	18	0	9	0	0	0	9	0	14	0	13	0	4	0	0	0	4	0	0	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:8763146T>G	uc004csg.2	-	7	915	c.804A>C	c.(802-804)GAA>GAC	p.E268D		NM_174951	NP_777611	Q8IZU1	FAM9A_HUMAN	family with sequence similarity 9, member A	268	Glu-rich.					nucleolus					0		Hepatocellular(5;0.219)				cctcttcttcttcttcctctt	0.129													4	18					0	0	1	0	0		G	8763146	G	G	8763146	3	3	188	1	0	0	0	0	1	0	0	0	5673	1606	56	5	206	5	FAM9A	23	8763146	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2693744	8763146	146507414	294	94009											
MOSPD2	158747	broad.mit.edu	37	chrX	14913459	14913459	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcctccattcccagatggTtattggaaattggtgttatt	10	16	8	7	0	0	1	0	0	0	1	3	2	3	2	3	3	0	2	3	3	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:14913459T>G	uc004cwi.2	+	4	353	c.265T>G	c.(265-267)TTA>GTA	p.L89V	MOSPD2_uc004cwj.2_Missense_Mutation_p.L26V	NM_152581	NP_689794	Q8NHP6	MSPD2_HUMAN	motile sperm domain containing 2	89	CRAL-TRIO.					integral to membrane	structural molecule activity			lung(1)	1	Hepatocellular(33;0.183)					TCCCAGATGGTTATTGGAAAT	0.299													23	150					0	0	1	0	0		G	14913459	G	G	14913459	3	3	188	1	0	0	0	0	1	0	0	0	9734	1722	60	5	279	5	MOSPD2	23	14913459	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	6150313	14913459	140357101	295	94010											
CXorf36	79742	broad.mit.edu	37	chrX	45060041	45060041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagccagccagggcggagggCggcagcctcaggccccagct	7	2	16	16	2	1	0	1	0	0	0	1	1	1	1	5	5	4	2	5	5	0	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:45060041C>T	uc004dgg.2	-	1	106	c.31G>A	c.(31-33)GCC>ACC	p.A11T	CXorf36_uc004dgi.3_Missense_Mutation_p.A11T	NM_176819	NP_789789	Q9H7Y0	CX036_HUMAN	hypothetical protein LOC79742 isoform 1	11						extracellular region				lung(1)	1						GGGCGGAGGGCGGCAGCCTCA	0.652													4	14					0	0	1	0	0		T	45060041	T	T	45060041	3	4	188	1	0	0	0	0	1	0	0	0	4109	768	27	1	1345	1	CXorf36	23	45060041	Missense_Mutation	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	30146582	45060041	110210519	296	94011											
ZNF182	7569	broad.mit.edu	37	chrX	47836329	47836329	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtataatgagagttgacTtatcactgaaagttttctta	12	16	9	4	0	2	3	1	3	1	1	2	4	2	3	0	1	0	3	0	1	5	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:47836329T>G	uc004dir.2	-	7	1503	c.1157A>C	c.(1156-1158)AAG>ACG	p.K386T	ZNF182_uc004dis.2_Missense_Mutation_p.K367T|ZNF182_uc004dit.2_Missense_Mutation_p.K386T|ZNF182_uc011mlu.1_Missense_Mutation_p.K366T	NM_006962	NP_008893	P17025	ZN182_HUMAN	zinc finger protein 21 isoform 1	386	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3						GAGAGTTGACTTATCACTGAA	0.368													15	104					0	0	1	0	0		G	47836329	G	G	47836329	3	3	188	1	0	0	0	0	1	0	0	0	17775	1609	56	5	766	5	ZNF182	23	47836329	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2776288	47836329	107434231	297	94012											
SUV39H1	6839	broad.mit.edu	37	chrX	48559088	48559088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatgggcgtggctggggcGtccgcaccctggagaagatt	7	8	17	9	3	0	3	0	1	0	2	1	4	1	3	2	5	0	2	2	5	1	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:48559088G>A	uc004dkn.2	+	3	817	c.772G>A	c.(772-774)GTC>ATC	p.V258I	SUV39H1_uc011mmf.1_Missense_Mutation_p.V269I|SUV39H1_uc011mmg.1_RNA	NM_003173	NP_003164	O43463	SUV91_HUMAN	suppressor of variegation 3-9 homolog 1	258	Mediates interaction with MECOM (By similarity).|SET.				cell cycle|cell differentiation|chromatin silencing at rDNA|interspecies interaction between organisms|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|chromosome, centromeric region|condensed nuclear chromosome|rDNA heterochromatin	chromatin binding|histone methyltransferase activity (H3-K9 specific)|protein N-terminus binding|zinc ion binding				0						TGGCTGGGGCGTCCGCACCCT	0.602													7	61					0	0	1	0	0		A	48559088	A	A	48559088	3	1	188	1	0	0	0	0	1	0	0	0	15437	1145	40	1	782	1	SUV39H1	23	48559088	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	722759	48559088	106711472	298	94013											
CCNB3	85417	broad.mit.edu	37	chrX	50090646	50090646	+	Missense_Mutation	SNP	A	G	G	1	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	gtatccacaccaacatgaagAcactgaccttgtcccgctac	12	8	6	15	1	0	3	0	2	0	1	2	3	2	3	4	0	2	2	4	0	4	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:50090646A>G	uc004dox.3	+	11	4130	c.3832A>G	c.(3832-3834)ACA>GCA	p.T1278A	CCNB3_uc004doy.2_Missense_Mutation_p.T1278A|CCNB3_uc004doz.2_Missense_Mutation_p.T174A|CCNB3_uc010njq.2_Missense_Mutation_p.T170A|CCNB3_uc004dpa.2_Missense_Mutation_p.T117A	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1278					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					CAACATGAAGACACTGACCTT	0.498													5	71					0	0	1	0	0		G	50090646	G	G	50090646	3	3	188	1	0	0	0	0	1	0	0	0	2917	275	10	3	3866	3	CCNB3	23	50090646	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	1531558	50090646	105179914	299	94014											
PHF8	23133	broad.mit.edu	37	chrX	54037563	54037563	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagggaagacctgtgggaAtgaaaagtgtctgtccttgc	11	9	13	8	0	1	2	0	1	1	1	2	4	2	4	3	2	1	0	3	2	5	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:54037563A>G	uc004dsu.2	-	8	1119	c.1046T>C	c.(1045-1047)ATT>ACT	p.I349T	PHF8_uc004dst.2_Missense_Mutation_p.I313T|PHF8_uc004dsv.2_Missense_Mutation_p.I179T|PHF8_uc004dsw.2_Missense_Mutation_p.I313T|PHF8_uc004dsx.2_Missense_Mutation_p.I77T|PHF8_uc004dsy.2_Missense_Mutation_p.I313T	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	349	JmjC.				brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						ACCTGTGGGAATGAAAAGTGT	0.507													11	51					0	0	1	0	0		G	54037563	G	G	54037563	3	3	188	1	0	0	0	0	1	0	0	0	11859	101	4	3	2366	3	PHF8	23	54037563	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3946917	54037563	101232997	300	94015											
GNL3L	54552	broad.mit.edu	37	chrX	54578117	54578117	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taactgcgtccacgtgcagaAgctggcagaccctgtgaccc	9	7	11	14	2	0	3	0	1	0	2	1	3	1	3	3	1	4	3	3	1	2	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:54578117A>C	uc004dth.1	+	11	1119	c.980A>C	c.(979-981)AAG>ACG	p.K327T	GNL3L_uc004dti.2_RNA	NM_019067	NP_061940	Q9NVN8	GNL3L_HUMAN	guanine nucleotide binding protein-like 3	327					ribosome biogenesis	nucleolus	GTP binding			ovary(1)	1						CACGTGCAGAAGCTGGCAGAC	0.617													10	53					0	0	1	0	0		C	54578117	C	C	54578117	3	2	188	1	0	0	0	0	1	0	0	0	6553	72	3	5	1018	5	GNL3L	23	54578117	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	540554	54578117	100692443	301	94016											
ITIH5L	347365	broad.mit.edu	37	chrX	54783779	54783779	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgctgggacctgtggaacTtgagattgtatttgggaatg	9	13	14	5	0	0	1	0	1	0	1	0	5	0	4	1	3	2	2	1	3	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:54783779T>C	uc004dtj.2	-	8	2758	c.2728A>G	c.(2728-2730)AGT>GGT	p.S910G		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	910	Pro-rich.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CCTGTGGAACTTGAGATTGTA	0.557													8	94					0	0	1	0	0		C	54783779	C	C	54783779	3	2	188	1	0	0	0	0	1	0	0	0	7924	1609	56	3	1237	3	ITIH5L	23	54783779	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	205662	54783779	100486781	302	94017											
ITIH5L	347365	broad.mit.edu	37	chrX	54783936	54783936	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgtggtggggcactcggTttaagagataataagatttt	10	14	14	3	1	0	2	0	0	0	2	1	3	0	2	0	5	0	2	0	5	3	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:54783936T>G	uc004dtj.2	-	8	2601	c.2571A>C	c.(2569-2571)AAA>AAC	p.K857N		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	857	Pro-rich.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						GGGCACTCGGTTTAAGAGATA	0.517													9	77					0	0	1	0	0		G	54783936	G	G	54783936	3	3	188	1	0	0	0	0	1	0	0	0	7924	1722	60	5	1394	5	ITIH5L	23	54783936	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	157	54783936	100486624	303	94018											
TRO	7216	broad.mit.edu	37	chrX	54951444	54951444	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctgagggatgtcatccaAgaatatgatgaatatttccc	13	12	9	7	0	1	4	1	3	0	1	3	5	3	5	2	1	1	1	2	1	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:54951444A>G	uc004dtq.2	+	6	1535	c.1428A>G	c.(1426-1428)CAA>CAG	p.Q476Q	TRO_uc004dts.2_Silent_p.Q476Q|TRO_uc004dtr.2_Silent_p.Q476Q|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Silent_p.Q79Q|TRO_uc011mok.1_Silent_p.Q7Q|TRO_uc004dtw.2_Silent_p.Q79Q|TRO_uc004dtx.2_5'UTR	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	476	MAGE.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						ATGTCATCCAAGAATATGATG	0.517													8	27					0	0	1	0	0		G	54951444	G	G	54951444	2	3	188	1	0	0	0	0	0	0	0	1	16600	69	3	3		3	TRO	23	54951444	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	167508	54951444	100319116	304	94019											
APEX2	27301	broad.mit.edu	37	chrX	55033430	55033430	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgccaaaacaaagcccaAgtgcgctcaaccaggcctca	15	4	7	15	1	2	0	2	0	0	0	2	0	2	0	4	1	5	1	4	1	5	0			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:55033430A>G	uc004dtz.2	+	6	1195	c.1119A>G	c.(1117-1119)CAA>CAG	p.Q373Q	APEX2_uc011mom.1_Silent_p.Q202Q	NM_014481	NP_055296	Q9UBZ4	APEX2_HUMAN	apurinic/apyrimidinic endonuclease 2	373					cell cycle|DNA recombination|DNA repair	nucleus	DNA binding|DNA-(apurinic or apyrimidinic site) lyase activity|endonuclease activity|exonuclease activity|zinc ion binding			breast(1)	1						ACAAAGCCCAAGTGCGCTCAA	0.547								Other_BER_factors					9	56					0	0	1	0	0		G	55033430	G	G	55033430	2	3	188	1	0	0	0	0	0	0	0	1	770	69	3	3		3	APEX2	23	55033430	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	81986	55033430	100237130	305	94020											
FAM123B	139285	broad.mit.edu	37	chrX	63411809	63411809	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcactctgaggagtcaaaAgttccccaggggctaggcca	10	7	13	11	0	3	1	2	1	1	0	4	2	4	2	3	5	0	2	3	5	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:63411809A>G	uc004dvo.2	-	2	1631	c.1358T>C	c.(1357-1359)CTT>CCT	p.L453P		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	453					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						AGGAGTCAAAAGTTCCCCAGG	0.532													10	76					0	0	1	0	0		G	63411809	G	G	63411809	3	3	188	1	0	0	0	0	1	0	0	0	5434	72	3	3	2053	3	FAM123B	23	63411809	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	8378379	63411809	91858751	306	94021											
PJA1	64219	broad.mit.edu	37	chrX	68381908	68381908	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccccggcagagtctcccagcTttcgccactggaggacaggg	7	6	13	15	2	1	1	0	0	1	1	3	3	1	3	4	4	1	2	4	4	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:68381908T>C	uc004dxh.2	-	2	1460	c.1174A>G	c.(1174-1176)AGC>GGC	p.S392G	PJA1_uc011mpi.1_Missense_Mutation_p.S110G|PJA1_uc004dxg.2_Missense_Mutation_p.S204G|PJA1_uc004dxi.2_Missense_Mutation_p.S337G	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	392							zinc ion binding				0						GTCTCCCAGCTTTCGCCACTG	0.587													10	56					0	0	1	0	0		C	68381908	C	C	68381908	3	2	188	1	0	0	0	0	1	0	0	0	11980	1609	56	3	761	3	PJA1	23	68381908	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4970099	68381908	86888652	307	94022											
TAF1	6872	broad.mit.edu	37	chrX	70598122	70598122	+	Missense_Mutation	SNP	A	T	T	1	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	tgtggagtccaaattttcccAatcaactggagatatagata	14	12	8	7	0	1	2	1	0	0	2	3	4	3	3	2	2	1	0	2	2	6	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:70598122A>T	uc004dzu.3	+	7	1019	c.968A>T	c.(967-969)CAA>CTA	p.Q323L	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.Q344L	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	323	Protein kinase 1.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				AAATTTTCCCAATCAACTGGA	0.468													10	60					0	0	1	0	0		T	70598122	T	T	70598122	3	4	188	1	0	0	0	0	1	0	0	0	15538	130	5	5	1057	5	TAF1	23	70598122	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	2216214	70598122	84672438	308	94023											
PGK1	5230	broad.mit.edu	37	chrX	77380399	77380399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtggtcctgaaagcagcaAgaagtatgctgaggctgtca	11	9	13	8	0	1	3	1	2	0	1	2	3	2	3	1	2	3	5	1	2	4	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:77380399A>G	uc004ecz.3	+	9	1137	c.965A>G	c.(964-966)AAG>AGG	p.K322R	PGK1_uc010nlz.2_RNA|PGK1_uc011mqq.1_Missense_Mutation_p.K294R	NM_000291	NP_000282	P00558	PGK1_HUMAN	phosphoglycerate kinase 1	322					gluconeogenesis|glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			upper_aerodigestive_tract(1)|ovary(1)	2						GAAAGCAGCAAGAAGTATGCT	0.507													16	89					0	0	1	0	0		G	77380399	G	G	77380399	3	3	188	1	0	0	0	0	1	0	0	0	11809	72	3	3	999	3	PGK1	23	77380399	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	6782277	77380399	77890161	309	94024											
P2RY10	27334	broad.mit.edu	37	chrX	78216571	78216571	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagtcctgctttgctgatcTtggatacaagcaaatgaatg	12	12	9	8	0	1	2	0	2	1	0	2	3	2	3	1	1	4	3	1	1	5	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:78216571T>C	uc004ede.2	+	4	923	c.554T>C	c.(553-555)CTT>CCT	p.L185P	P2RY10_uc004edf.2_Missense_Mutation_p.L185P	NM_014499	NP_055314	O00398	P2Y10_HUMAN	G-protein coupled purinergic receptor P2Y10	185	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(2)|lung(2)|breast(1)	5						TTTGCTGATCTTGGATACAAG	0.478													16	58					0	0	1	0	0		C	78216571	C	C	78216571	3	2	188	1	0	0	0	0	1	0	0	0	11366	1609	56	3	556	3	P2RY10	23	78216571	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	836172	78216571	77053989	310	94025											
CHM	1121	broad.mit.edu	37	chrX	85211343	85211343	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaggttgggggttaatttTtgagtctttaaatattcata	10	18	11	2	0	2	1	1	1	1	0	2	2	2	2	0	4	0	2	0	4	5	9			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:85211343T>G	uc004eet.2	-	8	1011	c.981A>C	c.(979-981)CAA>CAC	p.Q327H	CHM_uc011mqz.1_Missense_Mutation_p.Q179H	NM_000390	NP_000381	P24386	RAE1_HUMAN	choroideremia isoform a	327					intracellular protein transport|protein geranylgeranylation|response to stimulus|visual perception	Rab-protein geranylgeranyltransferase complex	GTPase activator activity|Rab geranylgeranyltransferase activity			ovary(1)	1		all_lung(315;5.41e-06)				GGGTTAATTTTTGAGTCTTTA	0.328													7	46					0	0	1	0	0		G	85211343	G	G	85211343	3	3	188	1	0	0	0	0	1	0	0	0	3353	1838	64	5	1012	5	CHM	23	85211343	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	6994772	85211343	70059217	311	94026											
PABPC5	140886	broad.mit.edu	37	chrX	90691203	90691203	+	Silent	SNP	C	T	T	0	0	0	1	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	gttaaaaacattggagacgaCatagatgacgaaaaactgaa	20	7	9	5	2	0	4	0	2	0	2	0	7	0	4	0	1	2	1	0	1	7	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:90691203C>T	uc004efg.2	+	2	1067	c.627C>T	c.(625-627)GAC>GAT	p.D209D	PABPC5_uc004eff.1_Silent_p.D45D	NM_080832	NP_543022	Q96DU9	PABP5_HUMAN	poly(A) binding protein, cytoplasmic 5	209	RRM 3.					cytoplasm	nucleotide binding|RNA binding			ovary(1)|lung(1)|pancreas(1)	3						TTGGAGACGACATAGATGACG	0.423													14	60					0	0	1	0	0		T	90691203	T	T	90691203	2	4	188	1	0	0	0	0	0	0	0	1	11386	477	17	4		4	PABPC5	23	90691203	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	5479860	90691203	64579357	312	94027											
PCDH19	57526	broad.mit.edu	37	chrX	99663303	99663303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcgagcgagatgatgcacTtggggctctggcggcacagc	7	7	15	12	3	1	2	0	1	1	1	2	4	1	2	1	4	3	3	1	4	0	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:99663303T>C	uc010nmz.2	-	1	1969	c.293A>G	c.(292-294)AAG>AGG	p.K98R	PCDH19_uc004efw.3_Missense_Mutation_p.K98R|PCDH19_uc004efx.3_Missense_Mutation_p.K98R	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	98	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GATGATGCACTTGGGGCTCTG	0.557													22	112					0	0	1	0	0		C	99663303	C	C	99663303	3	2	188	1	0	0	0	0	1	0	0	0	11533	1609	56	3	3177	3	PCDH19	23	99663303	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	8972100	99663303	55607257	313	94028											
ZMAT1	84460	broad.mit.edu	37	chrX	101139416	101139416	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacagagttctctctcatcTttctgaaacaagtctttgga	10	14	6	11	0	5	2	1	1	5	1	7	3	5	3	1	1	1	1	1	1	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:101139416T>C	uc004eim.2	-	2	3968	c.470A>G	c.(469-471)AAG>AGG	p.K157R	ZMAT1_uc011mrl.1_Missense_Mutation_p.K328R|ZMAT1_uc004ein.2_Missense_Mutation_p.K157R|ZMAT1_uc011mrm.1_Missense_Mutation_p.K157R	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	157						nucleus	zinc ion binding			ovary(1)	1						CTCTCTCATCTTTCTGAAACA	0.403													32	135					0	0	1	0	0		C	101139416	C	C	101139416	3	2	188	1	0	0	0	0	1	0	0	0	17716	1609	56	3	937	3	ZMAT1	23	101139416	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1476113	101139416	54131144	314	94029											
PSMD10	5716	broad.mit.edu	37	chrX	107331217	107331217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcgaagctgcataatgtaagGgagtacagccattttgattg	12	12	11	6	1	0	1	0	1	0	0	1	3	0	2	1	1	4	4	1	1	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:107331217G>A	uc004enp.1	-	3	424	c.326C>T	c.(325-327)CCC>CTC	p.P109L	PSMD10_uc004enq.1_Missense_Mutation_p.P109L|PSMD10_uc010nph.1_Intron	NM_002814	NP_002805	O75832	PSD10_HUMAN	proteasome 26S non-ATPase subunit 10 isoform 1	109	ANK 4.|Interaction with RELA.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cytoplasmic sequestering of NF-kappaB|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of MAPKKK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of release of cytochrome c from mitochondria|negative regulation of transcription from RNA polymerase II promoter|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus|proteasome regulatory particle	transcription factor binding			ovary(1)	1						ATAATGTAAGGGAGTACAGCC	0.438													31	171					0	0	1	0	0		A	107331217	A	A	107331217	3	1	188	1	0	0	0	0	1	0	0	0	12715	1232	43	4	366	4	PSMD10	23	107331217	Missense_Mutation	SNP	G	TCGA-D7-A4Z0-01A-22D-A25D-08	6191801	107331217	47939343	315	94030											
ALG13	79868	broad.mit.edu	37	chrX	110951264	110951264	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttttcacagggtcctgacTtgtcctgggcaagccaagtc	7	12	10	12	0	2	1	1	1	1	0	5	1	4	1	3	2	1	1	3	2	2	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:110951264T>G	uc011msy.1	+	4	427	c.393T>G	c.(391-393)ACT>ACG	p.T131T	ALG13_uc011msw.1_Silent_p.T53T|ALG13_uc011msx.1_Silent_p.T27T|ALG13_uc011msz.1_Silent_p.T53T|ALG13_uc011mta.1_Silent_p.T27T|ALG13_uc011mtb.1_Silent_p.T27T			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	131					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						GGGTCCTGACTTGTCCTGGGC	0.522													6	28					0	0	1	0	0		G	110951264	G	G	110951264	2	3	188	1	0	0	0	0	0	0	0	1	515	1596	56	5		5	ALG13	23	110951264	Silent	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	3620047	110951264	44319296	316	94031											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698541	111698541	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgatcccaaccaggatgaAgagagtgtcactgatatgat	13	9	11	8	0	1	5	1	4	0	1	2	7	2	6	2	1	1	1	2	1	3	1			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:111698541A>C	uc004epo.1	+	3	1026	c.585A>C	c.(583-585)GAA>GAC	p.E195D		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	195							nucleic acid binding|zinc ion binding			ovary(1)	1						ACCAGGATGAAGAGAGTGTCA	0.468													24	125					0	0	1	0	0		C	111698541	C	C	111698541	3	2	188	1	0	0	0	0	1	0	0	0	17609	69	3	5	587	5	ZCCHC16	23	111698541	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	747277	111698541	43572019	317	94032											
IL13RA2	3598	broad.mit.edu	37	chrX	114238661	114238661	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcatgtatcacagaaaaaTtctggaatctagaaagaact	17	11	6	7	0	4	3	2	0	2	3	4	4	4	4	0	1	1	1	0	1	7	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:114238661T>G	uc004epx.2	-	10	1250	c.1125A>C	c.(1123-1125)GAA>GAC	p.E375D		NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	375	Cytoplasmic (Potential).					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity	p.E375K(1)		upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						CACAGAAAAATTCTGGAATCT	0.333													4	30					0	0	1	0	0		G	114238661	G	G	114238661	3	3	188	1	0	0	0	0	1	0	0	0	7646	1490	52	5	21	5	IL13RA2	23	114238661	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2540120	114238661	41031899	318	94033											
NKAP	79576	broad.mit.edu	37	chrX	119068469	119068469	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaactgacgatctgtgtttcTtcttcttttcctttttcttg	5	22	5	9	1	5	1	0	1	5	0	6	2	6	1	1	0	1	1	1	0	1	8			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:119068469T>G	uc004esh.2	-	5	892	c.725A>C	c.(724-726)AAG>ACG	p.K242T	NKAP_uc004esg.2_Missense_Mutation_p.K129T	NM_024528	NP_078804	Q8N5F7	NKAP_HUMAN	NFKB activating protein	242	Necessary for interaction with CIR1.|Lys-rich.				negative regulation of transcription, DNA-dependent|Notch signaling pathway|positive regulation of alpha-beta T cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|protein binding			ovary(2)	2						TCTGTGTTTCTTCTTCTTTTC	0.194													6	55					0	0	1	0	0		G	119068469	G	G	119068469	3	3	188	1	0	0	0	0	1	0	0	0	10458	1609	56	5	542	5	NKAP	23	119068469	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	4829808	119068469	36202091	319	94034											
THOC2	57187	broad.mit.edu	37	chrX	122769999	122769999	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcaattggatatttacgaAaaactgcaccacagaaacta	18	9	6	8	1	1	1	1	0	0	1	1	4	1	2	1	1	4	1	1	1	7	5			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:122769999A>T	uc004etu.2	-	19	1981	c.1949T>A	c.(1948-1950)TTT>TAT	p.F650Y	THOC2_uc011muh.1_Missense_Mutation_p.F575Y	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	650					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						ATATTTACGAAAAACTGCACC	0.323													16	54					0	0	1	0	0		T	122769999	T	T	122769999	3	4	188	1	0	0	0	0	1	0	0	0	15890	14	1	5	2912	5	THOC2	23	122769999	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3701530	122769999	32500561	320	94035											
ODZ1	10178	broad.mit.edu	37	chrX	123556129	123556129	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaggtcatacctgaaaaAcagtcacagtttggatcaat	18	9	7	7	0	3	1	3	1	0	0	3	2	3	2	1	2	2	1	1	2	6	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:123556129A>C	uc004euj.2	-	23	4507	c.4443T>G	c.(4441-4443)TGT>TGG	p.C1481W	ODZ1_uc011muj.1_Missense_Mutation_p.C1487W|ODZ1_uc010nqy.2_Missense_Mutation_p.C1488W	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	1481	Extracellular (Potential).|NHL 5.				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TACCTGAAAAACAGTCACAGT	0.433													24	92					0	0	1	0	0		C	123556129	C	C	123556129	3	2	188	1	0	0	0	0	1	0	0	0	10853	41	2	5	3770	5	ODZ1	23	123556129	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	786130	123556129	31714431	321	94036											
GPR112	139378	broad.mit.edu	37	chrX	135427928	135427928	+	Missense_Mutation	SNP	A	G	G	1	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	ttttacatcagcatttcatgAgaatactacttatacagaat	15	15	4	7	0	2	2	2	1	0	2	2	3	2	2	0	0	5	1	0	0	7	7			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:135427928A>G	uc004ezu.1	+	6	2354	c.2063A>G	c.(2062-2064)GAG>GGG	p.E688G	GPR112_uc010nsb.1_Missense_Mutation_p.E483G|GPR112_uc010nsc.1_Missense_Mutation_p.E455G	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	688	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					GCATTTCATGAGAATACTACT	0.423													17	89					0	0	1	0	0		G	135427928	G	G	135427928	3	3	188	1	0	0	0	0	1	0	0	0	6644	304	11	3	2073	3	GPR112	23	135427928	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	11871799	135427928	19842632	322	94037											
FGF13	2258	broad.mit.edu	37	chrX	137717662	137717662	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagctgcaggcttgttcttcTtcacatggttgcctttcatg	5	16	10	10	0	4	0	2	0	2	0	4	1	4	0	1	2	3	5	1	2	0	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:137717662T>G	uc004fam.2	-	4	1219	c.557A>C	c.(556-558)AAG>ACG	p.K186T	FGF13_uc004fan.2_Missense_Mutation_p.K133T|FGF13_uc011mwi.1_Missense_Mutation_p.K167T|FGF13_uc004faq.2_Missense_Mutation_p.K196T|FGF13_uc004far.2_Missense_Mutation_p.K167T|FGF13_uc011mwj.1_Missense_Mutation_p.K196T|FGF13_uc011mwk.1_Missense_Mutation_p.K140T	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1	186					cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					CTTGTTCTTCTTCACATGGTT	0.403													38	129					0	0	1	0	0		G	137717662	G	G	137717662	3	3	188	1	0	0	0	0	1	0	0	0	5856	1609	56	5	188	5	FGF13	23	137717662	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2289734	137717662	17552898	323	94038											
ATP11C	286410	broad.mit.edu	37	chrX	138828012	138828012	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcatggcattgccagaaaTtttcctattgagaaatgggg	12	12	11	6	0	0	2	0	1	0	2	1	3	1	2	2	3	2	2	2	3	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:138828012T>C	uc004faz.2	-	25	2941	c.2842A>G	c.(2842-2844)ATT>GTT	p.I948V	ATP11C_uc004fax.2_Missense_Mutation_p.I156V|ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Missense_Mutation_p.I948V	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	948	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					TTGCCAGAAATTTTCCTATTG	0.398													15	66					0	0	1	0	0		C	138828012	C	C	138828012	3	2	188	1	0	0	0	0	1	0	0	0	1122	1493	52	3	643	3	ATP11C	23	138828012	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	1110350	138828012	16442548	324	94039											
SLITRK2	84631	broad.mit.edu	37	chrX	144906229	144906229	+	Silent	SNP	A	G	G	1	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	tatcaaaatattgctgagcgAgtcaaggaacttcccagcgc	13	9	9	10	2	2	1	2	1	0	0	3	3	3	2	1	1	4	1	1	1	6	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:144906229A>G	uc004fcd.2	+	5	3276	c.2286A>G	c.(2284-2286)CGA>CGG	p.R762R	SLITRK2_uc010nsp.2_Silent_p.R762R|SLITRK2_uc010nso.2_Silent_p.R762R|SLITRK2_uc011mwq.1_Silent_p.R762R|SLITRK2_uc011mwr.1_Silent_p.R762R|SLITRK2_uc011mws.1_Silent_p.R762R|SLITRK2_uc004fcg.2_Silent_p.R762R|SLITRK2_uc011mwt.1_Silent_p.R762R|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	762	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					TTGCTGAGCGAGTCAAGGAAC	0.493													36	210					0	0	1	0	0		G	144906229	G	G	144906229	2	3	188	1	0	0	0	0	0	0	0	1	14768	291	11	3		3	SLITRK2	23	144906229	Silent	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	6078217	144906229	10364331	325	94040											
FMR1	2332	broad.mit.edu	37	chrX	147011719	147011719	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcggagtctgcgcactaagTtgtctctgataatgagaaat	11	13	10	7	2	2	2	0	2	2	1	4	4	2	3	0	1	1	2	0	1	3	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:147011719T>G	uc010nst.2	+	7	775	c.586T>G	c.(586-588)TTG>GTG	p.L196V	FMR1_uc011mwz.1_Missense_Mutation_p.L196V|FMR1_uc004fcj.2_Missense_Mutation_p.L196V|FMR1_uc004fck.3_Missense_Mutation_p.L196V|FMR1_uc004fcl.3_Missense_Mutation_p.L57V|FMR1_uc011mxa.1_5'UTR	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	196					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GCGCACTAAGTTGTCTCTGAT	0.398									Fragile_X_syndrome				15	99					0	0	1	0	0		G	147011719	G	G	147011719	3	3	188	1	0	0	0	0	1	0	0	0	5974	1722	60	5	612	5	FMR1	23	147011719	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	2105490	147011719	8258841	326	94041											
AFF2	2334	broad.mit.edu	37	chrX	147744022	147744022	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccctagtggcttcctctttAttagctcctagcagtggcct	5	14	8	14	0	1	0	0	0	1	0	3	0	3	0	5	2	2	3	5	2	4	6			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:147744022A>T	uc004fcp.2	+	3	1253	c.774A>T	c.(772-774)TTA>TTT	p.L258F	AFF2_uc004fco.2_Missense_Mutation_p.L254F|AFF2_uc004fcq.2_Missense_Mutation_p.L254F|AFF2_uc004fcr.2_Missense_Mutation_p.L254F|AFF2_uc011mxb.1_Missense_Mutation_p.L258F|AFF2_uc004fcs.2_Missense_Mutation_p.L254F	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	258					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CTTCCTCTTTATTAGCTCCTA	0.488													31	165					0	0	1	0	0		T	147744022	T	T	147744022	3	4	188	1	0	0	0	0	1	0	0	0	357	446	16	5	784	5	AFF2	23	147744022	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	732303	147744022	7526538	327	94042											
PASD1	139135	broad.mit.edu	37	chrX	150844474	150844474	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actttttcctggcaggtgcaAgtttctgaggtaggagtcga	8	13	13	7	1	1	1	0	1	1	0	3	3	2	2	1	4	1	4	1	4	2	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:150844474A>C	uc004fev.3	+	16	2513	c.2181A>C	c.(2179-2181)CAA>CAC	p.Q727H		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	727						nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGCAGGTGCAAGTTTCTGAGG	0.502													32	163					0	0	1	0	0		C	150844474	C	C	150844474	3	2	188	1	0	0	0	0	1	0	0	0	11490	69	3	5	2239	5	PASD1	23	150844474	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	3100452	150844474	4426086	328	94043											
FATE1	89885	broad.mit.edu	37	chrX	150885864	150885864	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgactgccacccgacccaAgaaaatggtactgtatgggg	12	8	11	10	1	0	2	0	1	0	1	0	3	0	2	3	3	2	2	3	3	6	3			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:150885864A>T	uc004fex.2	+	2	311	c.227A>T	c.(226-228)AAG>ATG	p.K76M		NM_033085	NP_149076	Q969F0	FATE1_HUMAN	fetal and adult testis expressed transcript	76						endoplasmic reticulum|integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					ACCCGACCCAAGAAAATGGTA	0.567													16	132					0	0	1	0	0		T	150885864	T	T	150885864	3	4	188	1	0	0	0	0	1	0	0	0	5707	72	3	5	233	5	FATE1	23	150885864	Missense_Mutation	SNP	A	TCGA-D7-A4Z0-01A-22D-A25D-08	41390	150885864	4384696	329	94044											
MAGEA10	4109	broad.mit.edu	37	chrX	151304051	151304051	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcactttgggattgaagatcTtcttcaggcatgcagcgctg	8	13	11	9	1	4	2	2	1	2	1	4	3	4	3	0	2	2	3	0	2	1	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:151304051T>G	uc004ffk.2	-	5	450	c.42A>C	c.(40-42)GAA>GAC	p.E14D	MAGEA10_uc004ffl.2_Missense_Mutation_p.E14D	NM_001011543	NP_001011543	P43363	MAGAA_HUMAN	melanoma antigen family A, 10	14											0	Acute lymphoblastic leukemia(192;6.56e-05)					ATTGAAGATCTTCTTCAGGCA	0.567													24	124					0	0	1	0	0		G	151304051	G	G	151304051	3	3	188	1	0	0	0	0	1	0	0	0	9182	1606	56	5	1071	5	MAGEA10	23	151304051	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	418187	151304051	3966509	330	94045											
GABRA3	2556	broad.mit.edu	37	chrX	151393246	151393246	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatacatacagcttccaaacTtcagtgggcaggcatgcaca	14	8	8	11	0	1	0	1	0	0	0	2	0	2	0	1	2	5	4	1	2	4	4			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:151393246T>C	uc010ntk.1	-	6	863	c.623A>G	c.(622-624)AAG>AGG	p.K208R		NM_000808	NP_000799	P34903	GBRA3_HUMAN	gamma-aminobutyric acid A receptor, alpha 3	208	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	GCTTCCAAACTTCAGTGGGCA	0.373													13	77					0	0	1	0	0		C	151393246	C	C	151393246	3	2	188	1	0	0	0	0	1	0	0	0	6176	1609	56	3	875	3	GABRA3	23	151393246	Missense_Mutation	SNP	T	TCGA-D7-A4Z0-01A-22D-A25D-08	89195	151393246	3877314	331	94046											
GDI1	2664	broad.mit.edu	37	chrX	153666940	153666940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaccggaacccctactaCgggggcgagagctcctccat	9	6	12	14	3	0	1	0	0	0	1	2	4	2	3	5	4	4	1	5	4	3	2			TCGA-D7-A4Z0-01A-22D-A25D-08	TCGA-D7-A4Z0-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	75d90dfc-06ac-4725-887b-6dcca9eadd6b	ec32faed-705c-4247-9ebb-518ce17cdafb	g.chrX:153666940C>T	uc004fli.3	+	2	459	c.117C>T	c.(115-117)TAC>TAT	p.Y39Y	GDI1_uc011mzo.1_Silent_p.Y39Y	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	39					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ACCCCTACTACGGGGGCGAGA	0.617													12	94					0	0	1	0	0		T	153666940	T	T	153666940	2	4	188	1	0	0	0	0	0	0	0	1	6335	547	19	1		1	GDI1	23	153666940	Silent	SNP	C	TCGA-D7-A4Z0-01A-22D-A25D-08	2273694	153666940	1603620	332	94047											
RUNX3	864	broad.mit.edu	37	chr1	25229007	25229007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggctgctgatgctcgtgcccGagggcgtggcgctgtagggg	3	8	20	10	4	0	1	0	1	0	0	1	2	0	1	1	5	3	5	1	5	1	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:25229007G>A	uc001bjq.2	-	5	1265	c.854C>T	c.(853-855)TCG>TTG	p.S285L	RUNX3_uc010oen.1_Missense_Mutation_p.S232L|RUNX3_uc009vrj.2_Missense_Mutation_p.S299L|RUNX3_uc001bjr.2_Missense_Mutation_p.S299L|RUNX3_uc001bjs.2_RNA	NM_004350	NP_004341	Q13761	RUNX3_HUMAN	runt-related transcription factor 3 isoform 2	285	Pro/Ser/Thr-rich.				cell proliferation|induction of apoptosis|negative regulation of cell cycle|negative regulation of epithelial cell proliferation|protein phosphorylation|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00131)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;2.85e-26)|Colorectal(126;4.35e-08)|COAD - Colon adenocarcinoma(152;1.92e-06)|GBM - Glioblastoma multiforme(114;0.000102)|STAD - Stomach adenocarcinoma(196;0.000766)|KIRC - Kidney renal clear cell carcinoma(1967;0.00148)|BRCA - Breast invasive adenocarcinoma(304;0.00173)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.136)		GCTCGTGCCCGAGGGCGTGGC	0.692													20	19					0	0	0.016522	0	0		A	25229007	A	A	25229007	3	1	189	1	0	0	0	0	1	0	0	0	13774	1059	37	1	397	1	RUNX3	1	25229007	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		25229007	224021614	1	94048											
EIF2C4	192670	broad.mit.edu	37	chr1	36306902	36306902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagccggtactgtgccaccGttcgggtgcagacttcccgg	5	8	13	15	4	0	1	0	0	0	1	2	1	1	1	5	3	4	3	5	3	1	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:36306902G>A	uc001bzj.1	+	14	2051	c.1861G>A	c.(1861-1863)GTT>ATT	p.V621I		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	621	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTGTGCCACCGTTCGGGTGCA	0.577													4	46					0	0	0.014758	0	0		A	36306902	A	A	36306902	3	1	189	1	0	0	0	0	1	0	0	0	5014	1145	40	1	1915	1	EIF2C4	1	36306902	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	11077895	36306902	212943719	2	94049											
DHCR24	1718	broad.mit.edu	37	chr1	55349369	55349369	+	Silent	SNP	A	T	T	1	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	gtcttcttgtacttcccgacAcgtagtgagacagtgagcca	9	11	10	11	2	2	2	0	2	2	1	3	4	3	2	2	0	2	2	2	0	2	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:55349369A>T	uc001cyc.1	-	2	438	c.309T>A	c.(307-309)CGT>CGA	p.R103R	DHCR24_uc010ook.1_Silent_p.R62R	NM_014762	NP_055577	Q15392	DHC24_HUMAN	24-dehydrocholesterol reductase precursor	103	FAD-binding PCMH-type.				anti-apoptosis|apoptosis|cell cycle arrest|cholesterol biosynthetic process|negative regulation of caspase activity|neuroprotection|response to oxidative stress|skin development	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	delta24-sterol reductase activity|enzyme binding|flavin adenine dinucleotide binding|peptide antigen binding			pancreas(1)	1						ACTTCCCGACACGTAGTGAGA	0.537													59	127					0	0	0.01441	0	0		T	55349369	T	T	55349369	2	4	189	1	0	0	0	0	0	0	0	1	4482	146	6	5		5	DHCR24	1	55349369	Silent	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	19042467	55349369	193901252	3	94050											
LCE2A	353139	broad.mit.edu	37	chr1	152671655	152671655	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttgtgagtgtgaaccttCtgggggctctggctgctgcc	3	14	15	9	0	2	2	0	2	2	0	2	2	2	2	2	3	3	4	2	3	1	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:152671655C>A	uc001faj.2	+	2	329	c.278C>A	c.(277-279)TCT>TAT	p.S93Y		NM_178428	NP_848515	Q5TA79	LCE2A_HUMAN	late cornified envelope 2A	93	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGTGAACCTTCTGGGGGCTCT	0.622													16	63					3.32936e-07	3.6623e-07	0.006122	1	0		A	152671655	A	A	152671655	3	1	189	1	0	0	0	0	1	0	0	0	8681	913	32	5	280	5	LCE2A	1	152671655	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	97322286	152671655	96578966	4	94051											
ADAM15	8751	broad.mit.edu	37	chr1	155026661	155026661	+	Silent	SNP	T	C	C	0	1	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	cagggaagagtgcggggataTgcaggctcctgggtgtccat	8	8	17	8	1	0	1	0	0	0	1	2	3	2	3	2	5	2	2	2	5	2	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:155026661T>C	uc001fgr.1	+	5	479	c.378T>C	c.(376-378)TAT>TAC	p.Y126Y	ADAM15_uc001fgq.1_5'UTR|ADAM15_uc009wpc.1_RNA|ADAM15_uc010pet.1_Silent_p.Y110Y|ADAM15_uc010peu.1_Silent_p.Y143Y|ADAM15_uc001fgt.1_Silent_p.Y126Y|ADAM15_uc010pev.1_Silent_p.Y136Y|ADAM15_uc001fgs.1_Silent_p.Y126Y|ADAM15_uc001fgu.1_Silent_p.Y126Y|ADAM15_uc001fgw.1_Silent_p.Y126Y|ADAM15_uc001fgv.1_Silent_p.Y126Y|ADAM15_uc001fgx.1_Silent_p.Y126Y|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	126					angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			TGCGGGGATATGCAGGCTCCT	0.547													69	196					0	0	0.01441	0	0		C	155026661	C	C	155026661	2	2	189	1	0	0	0	0	0	0	0	1	237	1471	51	3		3	ADAM15	1	155026661	Silent	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	2355006	155026661	94223960	5	94052											
ARHGAP30	257106	broad.mit.edu	37	chr1	161018090	161018090	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacaggggcatagacagccGtctggactgggctgcccctc	8	6	14	13	1	1	1	0	0	1	1	2	3	1	2	3	4	3	2	3	4	2	1	rs137873621		TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:161018090G>T	uc001fxl.2	-	12	3067	c.2721C>A	c.(2719-2721)GAC>GAA	p.D907E	USF1_uc001fxi.2_5'Flank|USF1_uc001fxj.2_5'Flank|ARHGAP30_uc001fxk.2_Missense_Mutation_p.D696E|ARHGAP30_uc001fxm.2_Missense_Mutation_p.D753E|ARHGAP30_uc009wtx.2_Missense_Mutation_p.D580E	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	907					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			ATAGACAGCCGTCTGGACTGG	0.612													57	62					3.40343e-31	4.08983e-31	0.01441	1	0		T	161018090	T	T	161018090	3	4	189	1	0	0	0	0	1	0	0	0	879	1136	40	5	588	5	ARHGAP30	1	161018090	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	5991429	161018090	88232531	6	94053											
C1orf49	84066	broad.mit.edu	37	chr1	178489948	178489948	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgctcttcacaagaagacgaTggcaccacaaaaaacaaaac	19	5	6	11	1	2	2	1	0	1	2	2	3	2	2	1	1	3	2	1	1	7	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:178489948T>G	uc001glt.1	+	7	594	c.482T>G	c.(481-483)ATG>AGG	p.M161R	C1orf49_uc001glu.1_Missense_Mutation_p.M161R|C1orf49_uc001glv.1_RNA|C1orf49_uc001glw.1_Missense_Mutation_p.M169R	NM_032126	NP_115502	Q5T0J7	CA049_HUMAN	hypothetical protein LOC84066	161						microtubule cytoskeleton					0						AAGAAGACGATGGCACCACAA	0.542													5	62					0	0	0.014758	0	0		G	178489948	G	G	178489948	3	3	189	1	0	0	0	0	1	0	0	0	2044	1464	51	5	532	5	C1orf49	1	178489948	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	17471858	178489948	70760673	7	94054											
LAMC2	3918	broad.mit.edu	37	chr1	183208626	183208626	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaaagagccctggggagCgctgctgctgatgcacagag	10	5	16	10	1	0	4	0	1	0	3	0	5	0	5	1	2	5	5	1	2	1	0			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:183208626C>T	uc001gqa.2	+	20	3311	c.2997C>T	c.(2995-2997)AGC>AGT	p.S999S	LAMC2_uc001gpz.3_Silent_p.S999S|LAMC2_uc010poa.1_Silent_p.S699S	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	999	Potential.|Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						CCCTGGGGAGCGCTGCTGCTG	0.527													37	128					0	0	0.025465	0	0		T	183208626	T	T	183208626	2	4	189	1	0	0	0	0	0	0	0	1	8631	767	27	1		1	LAMC2	1	183208626	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	4718678	183208626	66041995	8	94055											
USH2A	7399	broad.mit.edu	37	chr1	216262463	216262463	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccatgatcattagttgtagTtacttccactggtgacccct	8	14	8	11	0	1	2	1	2	0	0	2	2	2	2	4	1	1	3	4	1	3	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:216262463T>C	uc001hku.1	-	23	5164	c.4777A>G	c.(4777-4779)ACT>GCT	p.T1593A		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	1593	Laminin G-like 1.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		TTAGTTGTAGTTACTTCCACT	0.333										HNSCC(13;0.011)			32	288					0	0	0.010818	0	0		C	216262463	C	C	216262463	3	2	189	1	0	0	0	0	1	0	0	0	17062	1725	60	3	11031	3	USH2A	1	216262463	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	33053837	216262463	32988158	9	94056											
ZP4	57829	broad.mit.edu	37	chr1	238053244	238053244	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcgcctgctccttcaactCcaactggcatgatgtagtgg	7	10	10	14	2	1	1	1	1	0	0	3	1	3	1	4	2	3	3	4	2	3	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:238053244C>A	uc001hym.2	-	3	323	c.323G>T	c.(322-324)GGA>GTA	p.G108V	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	108	Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			TCCTTCAACTCCAACTGGCAT	0.567													262	181					4.54818e-129	5.6068e-129	0.01441	1	0		A	238053244	A	A	238053244	3	1	189	1	0	0	0	0	1	0	0	0	18243	855	30	5	1339	5	ZP4	1	238053244	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	21790781	238053244	11197377	10	94057											
AKT3	10000	broad.mit.edu	37	chr1	243716133	243716133	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccattaatattaattcaaaaAgtttctcatggtcctggttg	12	16	6	7	0	2	0	2	0	1	0	4	0	3	0	2	2	0	2	2	2	5	6			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr1:243716133A>C	uc001iab.1	-	10	1142	c.1061T>G	c.(1060-1062)CTT>CGT	p.L354R	AKT3_uc001hzz.1_Missense_Mutation_p.L354R	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	354	Protein kinase.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			TAATTCAAAAAGTTTCTCATG	0.398													6	275					0	0	0.021553	0	0		C	243716133	C	C	243716133	3	2	189	1	0	0	0	0	1	0	0	0	481	72	3	5	442	5	AKT3	1	243716133	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	5662889	243716133	5534488	11	94058											
C2orf78	388960	broad.mit.edu	37	chr2	74042660	74042660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atttgaaaatgggattgagtCtagcagtgatttggcagaca	13	12	12	4	0	1	4	0	3	1	1	1	5	1	5	0	2	1	2	0	2	3	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr2:74042660C>T	uc002sjr.1	+	3	1431	c.1310C>T	c.(1309-1311)TCT>TTT	p.S437F		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	437										ovary(2)	2						GGGATTGAGTCTAGCAGTGAT	0.468													23	78					0	0	0.01892	0	0		T	74042660	T	T	74042660	3	4	189	1	0	0	0	0	1	0	0	0	2198	913	32	4	1320	4	C2orf78	2	74042660	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		74042660	169156713	12	94059											
XIRP2	129446	broad.mit.edu	37	chr2	168100923	168100923	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaagacagtccagcaagaAgaaatcgtaagaggtgatgt	17	7	12	5	1	0	5	0	1	0	4	2	5	1	5	1	1	1	3	1	1	6	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr2:168100923A>C	uc002udx.2	+	8	3039	c.3021A>C	c.(3019-3021)GAA>GAC	p.E1007D	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E832D|XIRP2_uc010fpq.2_Missense_Mutation_p.E785D|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	832					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCCAGCAAGAAGAAATCGTAA	0.378													26	71					0	0	0.024334	0	0		C	168100923	C	C	168100923	3	2	189	1	0	0	0	0	1	0	0	0	17456	69	3	5	3051	5	XIRP2	2	168100923	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	94058263	168100923	75098450	13	94060											
LRP2	4036	broad.mit.edu	37	chr2	170042284	170042284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgatgttactgttttgccGgcaggtctttccatctggtt	4	18	10	9	2	2	0	0	0	2	0	4	1	3	0	2	3	2	4	2	3	1	6			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr2:170042284G>A	uc002ues.2	-	50	9787	c.9574C>T	c.(9574-9576)CGG>TGG	p.R3192W		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3192	EGF-like 12; calcium-binding (Potential).|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CTGTTTTGCCGGCAGGTCTTT	0.433													15	326					0	0	0.006122	0	0		A	170042284	A	A	170042284	3	1	189	1	0	0	0	0	1	0	0	0	8974	1115	39	1	4513	1	LRP2	2	170042284	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	1941361	170042284	73157089	14	94061											
TTLL4	9654	broad.mit.edu	37	chr2	219610881	219610881	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgatgtacctcccataggaaAcgatgactggctgggctgct	9	10	12	10	1	0	2	0	2	0	0	1	4	1	3	2	3	3	4	2	3	3	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr2:219610881A>G	uc002viy.2	+	8	2271	c.1901A>G	c.(1900-1902)AAC>AGC	p.N634S	TTLL4_uc010zkl.1_Missense_Mutation_p.N469S|TTLL4_uc010fvx.2_Missense_Mutation_p.N634S|TTLL4_uc010zkm.1_5'UTR	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	634	TTL.				protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		CCCATAGGAAACGATGACTGG	0.552													63	119					0	0	0.01441	0	0		G	219610881	G	G	219610881	3	3	189	1	0	0	0	0	1	0	0	0	16755	43	2	3	1923	3	TTLL4	2	219610881	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	49568597	219610881	23588492	15	94062											
LHFPL4	375323	broad.mit.edu	37	chr3	9547696	9547696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcaggtctgtttgccGgttgcccagcacgaaggcga	7	8	14	12	3	1	0	0	0	1	0	1	2	1	0	2	3	5	5	2	3	1	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr3:9547696G>A	uc003bry.2	-	3	884	c.598C>T	c.(598-600)CGG>TGG	p.R200W		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	200						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					TCTGTTTGCCGGTTGCCCAGC	0.652													42	55					0	0	0.027894	0	0		A	9547696	A	A	9547696	3	1	189	1	0	0	0	0	1	0	0	0	8783	1115	39	1	153	1	LHFPL4	3	9547696	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		9547696	188474734	16	94063											
CCR1	1230	broad.mit.edu	37	chr3	46245463	46245463	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcgctgtacaagcctgtGtaataaaacccagagaggat	14	9	9	9	1	1	1	0	0	1	1	2	3	1	2	2	1	3	3	2	1	5	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr3:46245463G>T	uc003cph.1	-	2	413	c.342C>A	c.(340-342)TAC>TAA	p.Y114*	CCR3_uc003cpg.1_Intron	NM_001295	NP_001286	P32246	CCR1_HUMAN	chemokine (C-C motif) receptor 1	114	Helical; Name=3; (Potential).				cell adhesion|cell-cell signaling|cytokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	integral to plasma membrane	C-C chemokine receptor activity			skin(2)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		ACAAGCCTGTGTAATAAAACC	0.507													24	76					3.73988e-18	4.31293e-18	0.00632	1	0		T	46245463	T	T	46245463	4	4	189	1	0	0	0	0	0	1	0	0	2942	1372	48	5	729	5	CCR1	3	46245463	Nonsense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	36697767	46245463	151776967	17	94064											
CADM2	253559	broad.mit.edu	37	chr3	85932529	85932529	+	Silent	SNP	A	G	G	1	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	gtgtctctctctgatgaaggAcagtacacctgttctttatt	8	16	8	9	0	3	2	0	2	3	0	5	3	3	3	1	1	1	2	1	1	3	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr3:85932529A>G	uc003dqj.2	+	3	926	c.300A>G	c.(298-300)GGA>GGG	p.G100G	CADM2_uc003dqk.2_Silent_p.G109G|CADM2_uc003dql.2_Silent_p.G102G	NM_153184	NP_694854	Q8N3J6	CADM2_HUMAN	immunoglobulin superfamily, member 4D	100	Ig-like V-type.|Extracellular (Potential).				adherens junction organization|cell junction assembly	integral to membrane|plasma membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4		Lung NSC(201;0.0148)		LUSC - Lung squamous cell carcinoma(29;0.000815)|Lung(72;0.00304)|BRCA - Breast invasive adenocarcinoma(55;0.156)|Epithelial(33;0.157)		CTGATGAAGGACAGTACACCT	0.433													3	60					0	0	0.004672	0	0		G	85932529	G	G	85932529	2	3	189	1	0	0	0	0	0	0	0	1	2570	262	10	3		3	CADM2	3	85932529	Silent	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	39687066	85932529	112089901	18	94065											
COL6A6	131873	broad.mit.edu	37	chr3	130282057	130282057	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccgtgtggccctggcccaGtacagtgataaacttcacag	10	9	10	12	1	1	1	1	1	0	0	1	1	1	1	3	2	3	1	3	2	4	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr3:130282057G>T	uc010htl.2	+	2	241	c.210G>T	c.(208-210)CAG>CAT	p.Q70H		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	70	Nonhelical region.|VWFA 1.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCCTGGCCCAGTACAGTGATA	0.502													33	83					2.80507e-11	3.209e-11	0.012213	1	0		T	130282057	T	T	130282057	3	4	189	1	0	0	0	0	1	0	0	0	3706	1020	36	5	216	5	COL6A6	3	130282057	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	44349528	130282057	67740373	19	94066											
MED12L	116931	broad.mit.edu	37	chr3	150877763	150877763	+	Missense_Mutation	SNP	A	T	T	1	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	tgataggaccaaacaactcgAgtatcggggcccccagccct	11	6	10	14	2	0	1	0	1	0	0	2	3	0	2	4	3	3	1	4	3	4	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr3:150877763A>T	uc003eyp.2	+	7	1020	c.982A>T	c.(982-984)AGT>TGT	p.S328C	MED12L_uc011bnz.1_Intron|MED12L_uc003eyn.2_Missense_Mutation_p.S328C|MED12L_uc003eyo.2_Missense_Mutation_p.S328C	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	328					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAACAACTCGAGTATCGGGGC	0.612													29	117					0	0	0.027356	0	0		T	150877763	T	T	150877763	3	4	189	1	0	0	0	0	1	0	0	0	9447	304	11	5	1008	5	MED12L	3	150877763	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	20595706	150877763	47144667	20	94067											
PTPN13	5783	broad.mit.edu	37	chr4	87610306	87610306	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctcattttcctacgtgaAacacttggtaaaactggttc	11	13	6	11	1	1	1	1	1	0	0	3	1	2	1	2	2	3	2	2	2	4	6			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr4:87610306A>G	uc003hpz.2	+	5	989	c.509A>G	c.(508-510)AAA>AGA	p.K170R	PTPN13_uc003hpy.2_Missense_Mutation_p.K170R|PTPN13_uc003hqa.2_Missense_Mutation_p.K170R|PTPN13_uc003hqb.2_Missense_Mutation_p.K170R	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	170	KIND.					cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TCCTACGTGAAACACTTGGTA	0.378													35	111					0	0	0.021022	0	0		G	87610306	G	G	87610306	3	3	189	1	0	0	0	0	1	0	0	0	12805	14	1	3	523	3	PTPN13	4	87610306	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08		87610306	103543970	21	94068											
ZFP42	132625	broad.mit.edu	37	chr4	188923983	188923983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagccagcaactgaagaaaCgggcaaagacaagacaccag	18	2	11	10	1	0	5	0	2	0	3	0	5	0	5	2	1	4	2	2	1	5	0			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr4:188923983C>T	uc003izg.1	+	3	267	c.22C>T	c.(22-24)CGG>TGG	p.R8W	ZFP42_uc003izh.1_Missense_Mutation_p.R8W|ZFP42_uc003izi.1_Missense_Mutation_p.R8W	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	8					female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		ACTGAAGAAACGGGCAAAGAC	0.532													25	61					0	0	0.016522	0	0		T	188923983	T	T	188923983	3	4	189	1	0	0	0	0	1	0	0	0	17675	527	19	1	24	1	ZFP42	4	188923983	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	101313677	188923983	2230293	22	94069											
FAM81B	153643	broad.mit.edu	37	chr5	94749724	94749724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagactgaacaaccaggcgCgtaccatagctttccttctt	11	10	7	13	2	1	2	0	1	1	1	2	2	2	2	3	1	4	2	3	1	4	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr5:94749724C>T	uc003kla.1	+	4	413	c.367C>T	c.(367-369)CGT>TGT	p.R123C	FAM81B_uc010jbe.1_5'UTR	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	123										ovary(1)|skin(1)	2		all_cancers(142;1.1e-06)|all_epithelial(76;1.48e-09)|all_lung(232;0.000696)|Lung NSC(167;0.000947)|Ovarian(225;0.00473)		all cancers(79;1.04e-16)		CAACCAGGCGCGTACCATAGC	0.502													46	104					0	0	0.013114	0	0		T	94749724	T	T	94749724	3	4	189	1	0	0	0	0	1	0	0	0	5643	768	27	1	381	1	FAM81B	5	94749724	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		94749724	86165536	23	94070											
TSLP	85480	broad.mit.edu	37	chr5	110407621	110407621	+	Silent	SNP	A	T	T	1	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	gccttactatatgttctgtcAgtttctttcaggaaaatctt	9	18	6	8	0	5	0	2	0	3	0	5	1	5	1	1	1	1	2	1	1	5	7			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr5:110407621A>T	uc003kpb.2	+	1	232	c.33A>T	c.(31-33)TCA>TCT	p.S11S	TSLP_uc003kpa.2_Splice_Site|TSLP_uc010jbt.1_5'Flank	NM_033035	NP_149024	Q969D9	TSLP_HUMAN	thymic stromal lymphopoietin isoform 1	11				MFPFALLYVLS -> MKCLGQSKKEE (in Ref. 3; AAH40592).		extracellular space	cytokine activity				0		all_cancers(142;2.72e-05)|all_epithelial(76;4.39e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0417)|Ovarian(225;0.0443)|Colorectal(57;0.0464)|all_lung(232;0.0507)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.24e-08)|Epithelial(69;1.54e-07)|all cancers(49;1.73e-05)|COAD - Colon adenocarcinoma(37;0.109)		ATGTTCTGTCAGTTTCTTTCA	0.413													81	116					0	0	0.01441	0	0		T	110407621	T	T	110407621	2	4	189	1	0	0	0	0	0	0	0	1	16654	175	7	5		5	TSLP	5	110407621	Silent	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	15657897	110407621	70507639	24	94071											
RNF145	153830	broad.mit.edu	37	chr5	158585955	158585955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagatggcagtggcacagaGggcaggtctcctggacatac	10	7	14	10	0	2	2	1	0	1	2	3	3	2	3	1	5	1	3	1	5	1	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr5:158585955G>A	uc003lxp.2	-	11	2028	c.1715C>T	c.(1714-1716)CCT>CTT	p.P572L	RNF145_uc011ddy.1_Missense_Mutation_p.P586L|RNF145_uc003lxo.1_Missense_Mutation_p.P600L|RNF145_uc011ddz.1_Missense_Mutation_p.P589L|RNF145_uc010jiq.1_Missense_Mutation_p.P602L	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145	572	RING-type; atypical.					integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GTGGCACAGAGGGCAGGTCTC	0.493													30	80					0	0	0.008361	0	0		A	158585955	A	A	158585955	3	1	189	1	0	0	0	0	1	0	0	0	13472	1000	35	4	280	4	RNF145	5	158585955	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	48178334	158585955	22329305	25	94072											
ZNF354C	30832	broad.mit.edu	37	chr5	178506747	178506747	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaattcatactggggaaaaActttatacatgtgaggaatg	17	11	9	4	0	1	1	1	1	0	0	1	3	1	3	0	3	3	0	0	3	8	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr5:178506747A>C	uc003mju.2	+	5	1429	c.1314A>C	c.(1312-1314)AAA>AAC	p.K438N		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	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)		CTGGGGAAAAACTTTATACAT	0.383													36	137					0	0	0.017118	0	0		C	178506747	C	C	178506747	3	2	189	1	0	0	0	0	1	0	0	0	17891	40	2	5	1328	5	ZNF354C	5	178506747	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	19920792	178506747	2408513	26	94073											
HIST1H2AG	8969	broad.mit.edu	37	chr6	27101031	27101031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgctggagtacctgaccGccgagatcctggaactggcg	7	7	15	12	4	0	2	0	1	0	1	1	5	1	4	4	4	3	2	4	4	2	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:27101031G>A	uc003niw.2	+	1	215	c.181G>A	c.(181-183)GCC>ACC	p.A61T	HIST1H2BJ_uc003niu.1_5'Flank|HIST1H2BJ_uc003niv.2_5'Flank	NM_021064	NP_066408	P0C0S8	H2A1_HUMAN	histone cluster 1, H2ag	61					nucleosome assembly	nucleosome|nucleus	DNA binding|enzyme binding				0						GTACCTGACCGCCGAGATCCT	0.677													12	43					0	0	0.016723	0	0		A	27101031	A	A	27101031	3	1	189	1	0	0	0	0	1	0	0	0	7149	1087	38	1	183	1	HIST1H2AG	6	27101031	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		27101031	144014036	27	94074											
OR12D2	26529	broad.mit.edu	37	chr6	29364533	29364533	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggagtgacagacattcaAgaactgcagccttttctctt	10	13	9	9	0	2	3	1	1	1	2	3	4	2	4	1	1	3	1	1	1	2	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:29364533A>G	uc003nmf.3	+	1	118	c.57A>G	c.(55-57)CAA>CAG	p.Q19Q		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	19	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CAGACATTCAAGAACTGCAGC	0.438													7	371					0	0	0.001984	0	0		G	29364533	G	G	29364533	2	3	189	1	0	0	0	0	0	0	0	1	10950	69	3	3		3	OR12D2	6	29364533	Silent	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	2263502	29364533	141750534	28	94075											
TNF	7124	broad.mit.edu	37	chr6	31545010	31545010	+	Missense_Mutation	SNP	T	G	G	0	1	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	gccatcagagggcctgtaccTcatctactcccaggtcctct	7	10	8	16	0	4	1	2	0	2	1	6	1	6	1	5	2	2	1	5	2	2	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:31545010T>G	uc003nui.2	+	4	567	c.398T>G	c.(397-399)CTC>CGC	p.L133R	TNF_uc003nuj.2_5'UTR	NM_000594	NP_000585	P01375	TNFA_HUMAN	tumor necrosis factor alpha	133	Extracellular (Potential).				activation of caspase activity|activation of MAPK activity|activation of MAPKKK activity|anti-apoptosis|cellular response to nicotine|chronic inflammatory response to antigenic stimulus|embryonic digestive tract development|induction of apoptosis via death domain receptors|induction of necroptosis by extracellular signals|leukocyte tethering or rolling|necrotic cell death|negative regulation of branching involved in lung morphogenesis|negative regulation of cytokine secretion involved in immune response|negative regulation of fat cell differentiation|negative regulation of interleukin-6 production|negative regulation of lipid catabolic process|negative regulation of lipid storage|negative regulation of viral genome replication|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of chemokine biosynthetic process|positive regulation of chemokine production|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of fever generation|positive regulation of heterotypic cell-cell adhesion|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of membrane protein ectodomain proteolysis|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of NFAT protein import into nucleus|positive regulation of nitric oxide biosynthetic process|positive regulation of osteoclast differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of podosome assembly|positive regulation of protein complex disassembly|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D biosynthetic process|protein import into nucleus, translocation|receptor biosynthetic process|regulation of insulin secretion|response to glucocorticoid stimulus|response to salt stress|response to virus|sequestering of triglyceride|transformed cell apoptosis|tumor necrosis factor-mediated signaling pathway	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane raft|phagocytic cup|recycling endosome	cytokine activity|identical protein binding|protease binding|transcription regulatory region DNA binding|tumor necrosis factor receptor binding			ovary(1)|pancreas(1)|skin(1)	3		Ovarian(999;0.00556)			Adalimumab(DB00051)|Adenosine(DB00640)|Amrinone(DB01427)|Atorvastatin(DB01076)|Chloroquine(DB00608)|Clenbuterol(DB01407)|Etanercept(DB00005)|Glucosamine(DB01296)|Infliximab(DB00065)|Naltrexone(DB00704)|Pranlukast(DB01411)|Procaterol(DB01366)|Saquinavir(DB01232)|Simvastatin(DB00641)|Thalidomide(DB01041)	GGCCTGTACCTCATCTACTCC	0.632									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				26	108					0	0	0.027356	0	0		G	31545010	G	G	31545010	3	3	189	1	0	0	0	0	1	0	0	0	16296	1551	54	5	412	5	TNF	6	31545010	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	2180477	31545010	139570057	29	94076											
SLC26A8	116369	broad.mit.edu	37	chr6	35919039	35919039	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgacaaggcaaacagcacGgcgtcgtgaacgctgaggaa	13	5	13	10	4	0	3	0	3	0	0	1	4	0	4	0	3	3	3	0	3	4	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:35919039G>A	uc003olm.2	-	19	2484	c.2373C>T	c.(2371-2373)GCC>GCT	p.A791A	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Silent_p.A373A|SLC26A8_uc003oln.2_Silent_p.A791A|SLC26A8_uc003oll.2_Silent_p.A686A	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	791	Interaction with RACGAP1.|STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						CAAACAGCACGGCGTCGTGAA	0.493													63	64					0	0	0.01441	0	0		A	35919039	A	A	35919039	2	1	189	1	0	0	0	0	0	0	0	1	14548	1103	39	1		1	SLC26A8	6	35919039	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	4374029	35919039	135196028	30	94077											
SLC26A8	116369	broad.mit.edu	37	chr6	35987480	35987480	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tggcgctcctctctagttgtGccattcctggatgagtggaa	6	13	12	10	1	1	1	0	1	1	0	4	3	3	3	3	3	1	2	3	3	2	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:35987480G>A	uc003olm.2	-	2	116	c.5C>T	c.(4-6)GCA>GTA	p.A2V	SLC26A8_uc003oln.2_Missense_Mutation_p.A2V|SLC26A8_uc003oll.2_Missense_Mutation_p.A2V	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	2	Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						CTCTAGTTGTGCCATTCCTGG	0.393													15	34					0	0	0.024245	0	0		A	35987480	A	A	35987480	3	1	189	1	0	0	0	0	1	0	0	0	14548	1319	46	2	2983	2	SLC26A8	6	35987480	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	68441	35987480	135127587	31	94078											
POLR1C	9533	broad.mit.edu	37	chr6	43488442	43488442	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaccctgcttgagcccgtGgaaggggaggcagctgagga	9	6	16	10	1	1	2	1	2	0	0	1	5	1	5	2	5	3	3	2	5	1	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:43488442G>A	uc003ovn.2	+	7	792	c.735G>A	c.(733-735)GTG>GTA	p.V245V	POLR1C_uc003ovo.1_Silent_p.V245V	NM_203290	NP_976035	O15160	RPAC1_HUMAN	RNA polymerase I subunit isoform 1	245					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|all cancers(41;0.00511)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			TTGAGCCCGTGGAAGGGGAGG	0.532													3	103					0	0	0.004672	0	0		A	43488442	A	A	43488442	2	1	189	1	0	0	0	0	0	0	0	1	12230	1335	47	4		4	POLR1C	6	43488442	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	7500962	43488442	127626625	32	94079											
DEFB112	245915	broad.mit.edu	37	chr6	50016324	50016324	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatttgtctttgagtacattTtttcaagtttcagtctacat	9	21	5	6	0	4	1	2	1	2	0	4	1	4	1	0	0	2	2	0	0	4	9			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:50016324T>C	uc011dws.1	-	1	41	c.41A>G	c.(40-42)AAA>AGA	p.K14R		NM_001037498	NP_001032587	Q30KQ8	DB112_HUMAN	beta-defensin 112 precursor	14					defense response to bacterium	extracellular region				central_nervous_system(1)	1	Lung NSC(77;0.042)					TGAGTACATTTTTTCAAGTTT	0.323													25	84					0	0	0.021523	0	0		C	50016324	C	C	50016324	3	2	189	1	0	0	0	0	1	0	0	0	4406	1841	64	3	307	3	DEFB112	6	50016324	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	6527882	50016324	121098743	33	94080											
USP45	85015	broad.mit.edu	37	chr6	99894207	99894207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagggctttcattcagacGtgactcagaattcatgaggc	11	11	11	8	1	4	4	4	2	0	2	4	4	4	4	0	2	0	2	0	2	2	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr6:99894207G>A	uc003ppx.2	-	14	1974	c.1441C>T	c.(1441-1443)CGT>TGT	p.R481C	USP45_uc003ppv.2_Intron|USP45_uc003ppw.2_Missense_Mutation_p.R161C	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	481					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		TCATTCAGACGTGACTCAGAA	0.403													22	102					0	0	0.010504	0	0		A	99894207	A	A	99894207	3	1	189	1	0	0	0	0	1	0	0	0	17102	1145	40	1	1023	1	USP45	6	99894207	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	49877883	99894207	71220860	34	94081											
AIMP2	7965	broad.mit.edu	37	chr7	6063309	6063309	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttttaacacggccctcaAgctccttaagtgaattgccg	9	12	7	13	2	1	1	1	1	0	0	3	1	3	1	4	1	3	1	4	1	4	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr7:6063309A>C	uc003spo.2	+	4	1063	c.950A>C	c.(949-951)AAG>ACG	p.K317T	EIF2AK1_uc003spp.2_3'UTR|EIF2AK1_uc003spq.2_3'UTR|EIF2AK1_uc011jwm.1_3'UTR	NM_006303	NP_006294	Q13155	AIMP2_HUMAN	aminoacyl tRNA synthetase complex-interacting	317	GST C-terminal.				apoptosis|cell differentiation|multicellular organismal development|tRNA aminoacylation for protein translation	cytosol|nucleus	protein binding			ovary(1)	1						ACGGCCCTCAAGCTCCTTAAG	0.458													10	72					0	0	0.013537	0	0		C	6063309	C	C	6063309	3	2	189	1	0	0	0	0	1	0	0	0	434	72	3	5	964	5	AIMP2	7	6063309	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08		6063309	153075354	35	94082											
PTPN12	5782	broad.mit.edu	37	chr7	77256920	77256920	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctagtactgaaagcatttctActaggaaagtattgccaatg	14	12	8	7	0	1	1	0	1	1	0	1	2	1	2	1	1	4	3	1	1	8	7			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr7:77256920A>G	uc003ugh.2	+	13	2015	c.1924A>G	c.(1924-1926)ACT>GCT	p.T642A	PTPN12_uc011kgp.1_Missense_Mutation_p.T523A|PTPN12_uc011kgq.1_Missense_Mutation_p.T512A|PTPN12_uc010lds.2_Missense_Mutation_p.T374A	NM_002835	NP_002826	Q05209	PTN12_HUMAN	protein tyrosine phosphatase, non-receptor type	642						soluble fraction	non-membrane spanning protein tyrosine phosphatase activity|SH3 domain binding			ovary(1)|breast(1)|pancreas(1)	3						AAGCATTTCTACTAGGAAAGT	0.343													14	70					0	0	0.012319	0	0		G	77256920	G	G	77256920	3	3	189	1	0	0	0	0	1	0	0	0	12804	391	14	3	1974	3	PTPN12	7	77256920	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	71193611	77256920	81881743	36	94083											
RGS20	8601	broad.mit.edu	37	chr8	54791954	54791954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccgaggctccccggaggcGcctggacttctcccccctgc	3	7	11	20	3	1	0	0	0	1	0	4	3	3	2	7	4	1	1	7	4	0	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr8:54791954G>A	uc003xrp.2	+	2	394	c.302G>A	c.(301-303)CGC>CAC	p.R101H	RGS20_uc003xrq.2_Intron|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrr.2_5'Flank|RGS20_uc003xrs.2_5'Flank|RGS20_uc003xrt.2_5'Flank	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	101					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			CCCCGGAGGCGCCTGGACTTC	0.731													24	44					0	0	0.016522	0	0		A	54791954	A	A	54791954	3	1	189	1	0	0	0	0	1	0	0	0	13328	1087	38	1	308	1	RGS20	8	54791954	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		54791954	91572068	37	94084											
XKR4	114786	broad.mit.edu	37	chr8	56015093	56015093	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaaaatgaagaaaagcagCgacgtggcgttcaccccgct	13	6	11	11	4	1	3	1	2	0	1	1	4	1	3	2	1	2	3	2	1	5	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr8:56015093C>T	uc003xsf.2	+	1	77	c.45C>T	c.(43-45)AGC>AGT	p.S15S		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	15						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			AGAAAAGCAGCGACGTGGCGT	0.602													10	17					0	0	0.013537	0	0		T	56015093	T	T	56015093	2	4	189	1	0	0	0	0	0	0	0	1	17459	767	27	1		1	XKR4	8	56015093	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	1223139	56015093	90348929	38	94085											
VCPIP1	80124	broad.mit.edu	37	chr8	67577533	67577533	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctccatccaaatacacaataGacccatctcctctgaccttt	12	11	2	16	0	2	2	0	1	2	1	5	2	4	2	5	0	1	0	5	0	4	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr8:67577533G>C	uc003xwn.2	-	1	1920	c.1661C>G	c.(1660-1662)TCT>TGT	p.S554C	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	554					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			ATACACAATAGACCCATCTCC	0.433													83	519					0	0	0.01441	0	0		C	67577533	C	C	67577533	3	2	189	1	0	0	0	0	1	0	0	0	17167	942	33	5	2019	5	VCPIP1	8	67577533	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	11562440	67577533	78786489	39	94086											
ERMP1	79956	broad.mit.edu	37	chr9	5805111	5805111	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcagaaccacttctcccGaggataggggtaaacatctc	12	10	8	11	1	3	1	1	0	2	1	5	3	3	2	2	3	2	1	2	3	4	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr9:5805111G>A	uc003zjm.1	-	10	1884	c.1830C>T	c.(1828-1830)CTC>CTT	p.L610L	ERMP1_uc011lme.1_RNA|ERMP1_uc010mhs.1_Silent_p.L224L	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna	610	Extracellular (Potential).				proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		CACTTCTCCCGAGGATAGGGG	0.393													11	65					0	0	0.010729	0	0		A	5805111	A	A	5805111	2	1	189	1	0	0	0	0	0	0	0	1	5244	1045	37	1		1	ERMP1	9	5805111	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		5805111	135408320	40	94087											
ROR2	4920	broad.mit.edu	37	chr9	94519612	94519612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatcccgttggtggccacGcactggtagtagccagtgtc	6	11	12	12	2	1	0	1	0	0	0	3	0	2	0	3	3	1	4	3	3	2	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr9:94519612G>A	uc004arj.1	-	3	604	c.405C>T	c.(403-405)TGC>TGT	p.C135C	ROR2_uc004ari.1_5'UTR|ROR2_uc004ark.2_Silent_p.C135C	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	135	Extracellular (Potential).|Ig-like C2-type.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						TGGTGGCCACGCACTGGTAGT	0.557													9	26					0	0	0.014323	0	0		A	94519612	A	A	94519612	2	1	189	1	0	0	0	0	0	0	0	1	13552	1079	38	1		1	ROR2	9	94519612	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	88714501	94519612	46693819	41	94088											
TEX10	54881	broad.mit.edu	37	chr9	103092274	103092274	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaatctgttcagttgcttActatttagcctagagccatc	10	14	7	10	0	2	1	1	0	1	1	3	1	2	1	2	0	5	4	2	0	5	7			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr9:103092274A>G	uc004bas.2	-	6	1643	c.1428T>C	c.(1426-1428)AGT>AGC	p.S476S	TEX10_uc011lvf.1_Silent_p.S315S|TEX10_uc011lvg.1_Silent_p.S479S|TEX10_uc011lvh.1_Silent_p.S411S	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	476						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		TCAGTTGCTTACTATTTAGCC	0.428													7	323					0	0	0.001984	0	0		G	103092274	G	G	103092274	2	3	189	1	0	0	0	0	0	0	0	1	15797	388	14	3		3	TEX10	9	103092274	Silent	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	8572662	103092274	38121157	42	94089											
OR1J2	26740	broad.mit.edu	37	chr9	125273389	125273389	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcatttctcagatgtatttTtttatattttttactgacct	8	23	4	6	0	1	2	1	1	1	1	2	2	1	2	1	0	2	2	1	0	4	10			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr9:125273389T>G	uc004bmj.1	+	4	1164	c.309T>G	c.(307-309)TTT>TTG	p.F103L	OR1J2_uc011lyv.1_Missense_Mutation_p.F103L	NM_054107	NP_473448	Q8NGS2	OR1J2_HUMAN	olfactory receptor, family 1, subfamily J,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|pancreas(1)|breast(1)	5						AGATGTATTTTTTTATATTTT	0.398													7	179					0	0	0.00308	0	0		G	125273389	G	G	125273389	3	3	189	1	0	0	0	0	1	0	0	0	10979	1838	64	5	311	5	OR1J2	9	125273389	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	22181115	125273389	15940042	43	94090											
GATA3	2625	broad.mit.edu	37	chr10	8100408	8100408	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatccaccacggctccccgGggcccctctccgtctacccc	4	6	7	24	3	2	0	0	0	2	0	5	0	4	0	10	3	1	1	10	3	1	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr10:8100408G>A	uc001ika.2	+	3	939	c.382G>A	c.(382-384)GGG>AGG	p.G128R	GATA3_uc001ijz.2_Missense_Mutation_p.G128R	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	128					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CGGCTCCCCGGGGCCCCTCTC	0.716			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						9	72					0	0	0.016723	0	0		A	8100408	A	A	8100408	3	1	189	1	0	0	0	0	1	0	0	0	6270	1232	43	4	388	4	GATA3	10	8100408	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		8100408	127434339	44	94091											
GATA3	2625	broad.mit.edu	37	chr10	8100563	8100563	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccggctcggcccggcaggaCgagaaagagtgcctcaagta	10	4	15	12	4	1	2	1	0	0	2	2	4	1	3	3	4	1	3	3	4	3	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr10:8100563C>T	uc001ika.2	+	3	1094	c.537C>T	c.(535-537)GAC>GAT	p.D179D	GATA3_uc001ijz.2_Silent_p.D179D	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	179					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						CCCGGCAGGACGAGAAAGAGT	0.697			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						10	45					0	0	0.006214	0	0		T	8100563	T	T	8100563	2	4	189	1	0	0	0	0	0	0	0	1	6270	535	19	1		1	GATA3	10	8100563	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	155	8100563	127434184	45	94092											
NEBL	10529	broad.mit.edu	37	chr10	21101831	21101831	+	Missense_Mutation	SNP	T	A	A	0	1	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	tccacgacgggagtaaagccTctcccctttgttttttcaaa	9	13	7	12	2	2	0	1	0	1	0	4	2	3	1	4	1	1	2	4	1	3	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr10:21101831T>A	uc001iqi.2	-	24	2782	c.2385A>T	c.(2383-2385)AGA>AGT	p.R795S	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Missense_Mutation_p.R132S	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	795	Nebulin 23.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						GAGTAAAGCCTCTCCCCTTTG	0.438													38	86					0	0	0.027894	0	0		A	21101831	A	A	21101831	3	1	189	1	0	0	0	0	1	0	0	0	10322	1548	54	5	679	5	NEBL	10	21101831	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	13001268	21101831	114432916	46	94093											
PCDH15	65217	broad.mit.edu	37	chr10	55569247	55569247	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgatagttacaactacttcTtcctcctcactaggctctct	8	15	4	14	1	3	0	1	0	2	0	7	1	5	0	2	1	3	2	2	1	5	6			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr10:55569247T>C	uc010qhu.1	-	36	5008	c.4613A>G	c.(4612-4614)AAG>AGG	p.K1538R	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Silent_p.E1526E|PCDH15_uc010qht.1_Silent_p.E1519E	NM_001142770	NP_001136242	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-2 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CAACTACTTCTTCCTCCTCAC	0.383										HNSCC(58;0.16)			10	336					0	0	0.006214	0	0		C	55569247	C	C	55569247	3	2	189	1	0	0	0	0	1	0	0	0	11530	1609	56	3	1353	3	PCDH15	10	55569247	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	34467416	55569247	79965500	47	94094											
ADAMTS14	140766	broad.mit.edu	37	chr10	72500888	72500888	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtgcaccagaatgccaagCacagctgggtgccctacgag	11	6	12	12	1	0	1	0	0	0	1	0	2	0	1	3	1	6	3	3	1	3	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr10:72500888C>A	uc001jrh.2	+	12	1894	c.1894C>A	c.(1894-1896)CAC>AAC	p.H632N	ADAMTS14_uc001jrg.2_Missense_Mutation_p.H635N|ADAMTS14_uc001jri.1_Missense_Mutation_p.H155N	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	632	Cys-rich.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						GAATGCCAAGCACAGCTGGGT	0.642													7	32					1.12685e-05	1.21158e-05	0.004482	1	0		A	72500888	A	A	72500888	3	1	189	1	0	0	0	0	1	0	0	0	259	710	25	5	1949	5	ADAMTS14	10	72500888	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	16931641	72500888	63033859	48	94095											
SEC24C	9632	broad.mit.edu	37	chr10	75526139	75526139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaagagtcagcaatccgcGttggctttgtcacctacaat	11	10	9	11	2	2	2	2	0	0	2	3	2	3	2	2	1	2	3	2	1	4	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr10:75526139G>A	uc001juw.2	+	13	1818	c.1639G>A	c.(1639-1641)GTT>ATT	p.V547I	SEC24C_uc010qkn.1_RNA|SEC24C_uc009xrj.1_Missense_Mutation_p.V405I|SEC24C_uc001jux.2_Missense_Mutation_p.V547I|SEC24C_uc010qko.1_Missense_Mutation_p.V428I|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	547					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					AGCAATCCGCGTTGGCTTTGT	0.498													35	51					0	0	0.019004	0	0		A	75526139	A	A	75526139	3	1	189	1	0	0	0	0	1	0	0	0	14021	1145	40	1	1681	1	SEC24C	10	75526139	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	3025251	75526139	60008608	49	94096											
ZNF518A	9849	broad.mit.edu	37	chr10	97918089	97918089	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaagagaatcttcatccagCaaaacagttgtccaacaacc	17	7	5	12	0	2	1	1	0	1	1	4	2	4	1	3	0	4	2	3	0	6	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr10:97918089C>A	uc001klp.2	+	6	2867	c.2010C>A	c.(2008-2010)AGC>AGA	p.S670R	ZNF518A_uc001klo.1_Missense_Mutation_p.S140R|ZNF518A_uc001klq.2_Missense_Mutation_p.S670R|ZNF518A_uc001klr.2_Missense_Mutation_p.S670R	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	670					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		CTTCATCCAGCAAAACAGTTG	0.353													37	194					5.43694e-19	6.32099e-19	0.023175	1	0		A	97918089	A	A	97918089	3	1	189	1	0	0	0	0	1	0	0	0	17987	709	25	5	2012	5	ZNF518A	10	97918089	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	22391950	97918089	37616658	50	94097											
SPON1	10418	broad.mit.edu	37	chr11	14264896	14264896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtgatgaggtcctcaccGtcatcaaagccaaagcccaa	14	6	9	12	1	3	3	3	2	0	1	4	3	4	3	4	1	2	0	4	1	3	0			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:14264896G>A	uc001mle.2	+	8	1382	c.844G>A	c.(844-846)GTC>ATC	p.V282I		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	282	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		GGTCCTCACCGTCATCAAAGC	0.502													3	3					0	0	0.004672	0	0		A	14264896	A	A	14264896	3	1	189	1	0	0	0	0	1	0	0	0	15107	1145	40	1	869	1	SPON1	11	14264896	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		14264896	120741620	51	94098											
MRGPRX4	117196	broad.mit.edu	37	chr11	18194989	18194989	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcgcaggaacgctgtctcCatctacatcctcaacctggc	9	9	8	15	2	3	0	1	0	2	0	5	1	4	1	3	2	4	2	3	2	3	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:18194989C>T	uc001mnv.1	+	1	606	c.186C>T	c.(184-186)TCC>TCT	p.S62S		NM_054032	NP_473373	Q96LA9	MRGX4_HUMAN	MAS-related GPR, member X4	62	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						ACGCTGTCTCCATCTACATCC	0.547													38	82					0	0	0.019004	0	0		T	18194989	T	T	18194989	2	4	189	1	0	0	0	0	0	0	0	1	9787	581	21	4		4	MRGPRX4	11	18194989	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	3930093	18194989	116811527	52	94099											
TSG101	7251	broad.mit.edu	37	chr11	18505470	18505470	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagtttctggtgacccttttTcaggtcttcttctgttcgtt	3	20	8	10	1	5	1	1	1	4	0	6	1	5	1	1	2	0	3	1	2	0	7			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:18505470T>C	uc001mor.2	-	8	916	c.790A>G	c.(790-792)AAA>GAA	p.K264E		NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101	264	Potential.				cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						TGACCCTTTTTCAGGTCTTCT	0.438													148	338					0	0	0.01441	0	0		C	18505470	C	C	18505470	3	2	189	1	0	0	0	0	1	0	0	0	16642	1792	62	3	394	3	TSG101	11	18505470	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	310481	18505470	116501046	53	94100											
OR5AP2	338675	broad.mit.edu	37	chr11	56409733	56409733	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagaaatacatgggggtgtgGagacagagatcaatcttaat	16	9	12	4	0	2	3	1	0	1	3	2	5	2	3	0	3	1	0	0	3	5	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:56409733G>T	uc001njb.1	-	1	183	c.183C>A	c.(181-183)CTC>CTA	p.L61L		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	61	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TGGGGGTGTGGAGACAGAGAT	0.433													37	36					6.19805e-25	7.32497e-25	0.023175	1	0		T	56409733	T	T	56409733	2	4	189	1	0	0	0	0	0	0	0	1	11163	1161	41	5		5	OR5AP2	11	56409733	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	37904263	56409733	78596783	54	94101											
KLC2	64837	broad.mit.edu	37	chr11	66026277	66026277	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cctggaagccattgagcttgGgctgggggaggcccaggtag	7	7	18	9	0	0	1	0	1	0	0	0	3	0	3	3	6	2	3	3	6	2	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:66026277G>A	uc010rov.1	+	2	455	c.212G>A	c.(211-213)GGG>GAG	p.G71E	KLC2_uc010row.1_Missense_Mutation_p.G71E|KLC2_uc009yra.2_Missense_Mutation_p.G71E|KLC2_uc001ohb.2_Missense_Mutation_p.G71E|KLC2_uc010rox.1_Missense_Mutation_p.G71E|KLC2_uc001ohc.2_Missense_Mutation_p.G71E|KLC2_uc001ohd.2_Missense_Mutation_p.G71E|KLC2_uc001ohe.1_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	71					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						ATTGAGCTTGGGCTGGGGGAG	0.632											OREG0021097	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	29					0	0	0.013537	0	0		A	66026277	A	A	66026277	3	1	189	1	0	0	0	0	1	0	0	0	8350	1232	43	4	214	4	KLC2	11	66026277	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	9616544	66026277	68980239	55	94102											
TAF1D	79101	broad.mit.edu	37	chr11	93469428	93469428	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcttcttctaagtatacacTcagtcttacagggaattcag	11	14	6	10	0	6	0	2	0	4	0	6	1	6	1	0	1	2	1	0	1	5	7			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:93469428T>C	uc001ped.2	-	6	938	c.736A>G	c.(736-738)AGT>GGT	p.S246G	SNORA8_uc001pec.2_5'Flank|TAF1D_uc001pdz.2_RNA|TAF1D_uc001pea.1_Intron|SNORD5_uc009ywf.1_5'Flank|SNORA18_uc009ywg.1_5'Flank|MIR1304_hsa-mir-1304|MI0006371_5'Flank|SNORA40_uc009ywh.2_5'Flank	NM_024116	NP_077021	Q9H5J8	TAF1D_HUMAN	TATA box binding protein (TBP)-associated	246					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						AAGTATACACTCAGTCTTACA	0.343													40	80					0	0	0.021022	0	0		C	93469428	C	C	93469428	3	2	189	1	0	0	0	0	1	0	0	0	15547	1551	54	3	104	3	TAF1D	11	93469428	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	27443151	93469428	41537088	56	94103											
FAM55D	54827	broad.mit.edu	37	chr11	114441717	114441717	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgactacatgttgaggtggGtgtacattatttgtgccata	9	14	11	7	1	0	1	0	1	0	0	0	2	0	1	2	2	3	2	2	2	4	6			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:114441717G>T	uc001ppc.2	-	6	1759	c.1578C>A	c.(1576-1578)CAC>CAA	p.H526Q	FAM55D_uc001ppd.2_Missense_Mutation_p.H242Q	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	526						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		GTTGAGGTGGGTGTACATTAT	0.279													49	53					2.43468e-25	2.90133e-25	0.01441	1	0		T	114441717	T	T	114441717	3	4	189	1	0	0	0	0	1	0	0	0	5601	1252	44	5	60	5	FAM55D	11	114441717	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	20972289	114441717	20564799	57	94104											
KCNJ5	3762	broad.mit.edu	37	chr11	128786552	128786552	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctgaggcagggctggatGcagaggctgagcagaatgaa	11	6	18	6	0	0	5	0	3	0	2	0	6	0	6	0	4	3	6	0	4	2	0			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr11:128786552G>T	uc001qet.2	+	3	1500	c.1186G>T	c.(1186-1188)GCA>TCA	p.A396S	KCNJ5_uc009zck.2_Missense_Mutation_p.A396S|KCNJ5_uc001qew.2_Missense_Mutation_p.A396S	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	396	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	AGGGCTGGATGCAGAGGCTGA	0.652													15	38					3.27435e-08	3.65807e-08	0.020292	1	0		T	128786552	T	T	128786552	3	4	189	1	0	0	0	0	1	0	0	0	8070	1319	46	5	1192	5	KCNJ5	11	128786552	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	14344835	128786552	6219964	58	94105											
STYK1	55359	broad.mit.edu	37	chr12	10772822	10772822	+	Missense_Mutation	SNP	T	C	C	0	1	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	acagttcaggtaccaccaacTctggtacttgtaacacagcc	12	9	7	13	0	2	0	1	0	1	0	2	0	2	0	3	2	5	4	3	2	4	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr12:10772822T>C	uc001qys.2	-	11	1711	c.1190A>G	c.(1189-1191)GAG>GGG	p.E397G		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	397						integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						TACCACCAACTCTGGTACTTG	0.537										HNSCC(73;0.22)			6	204					0	0	0.00308	0	0		C	10772822	C	C	10772822	3	2	189	1	0	0	0	0	1	0	0	0	15384	1551	54	3	82	3	STYK1	12	10772822	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08		10772822	123079073	59	94106											
GPRC5A	9052	broad.mit.edu	37	chr12	13061792	13061792	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaccttctgtggttccttCacgggctggaagagacatgg	7	12	12	10	1	3	1	2	0	1	1	4	3	4	2	2	4	0	2	2	4	1	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr12:13061792C>T	uc001rba.2	+	2	1259	c.609C>T	c.(607-609)TTC>TTT	p.F203F	GPRC5A_uc001raz.2_Silent_p.F203F	NM_003979	NP_003970	Q8NFJ5	RAI3_HUMAN	G protein-coupled receptor, family C, group 5,	203	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|Golgi apparatus|integral to plasma membrane	G-protein coupled receptor activity				0		Prostate(47;0.141)		BRCA - Breast invasive adenocarcinoma(232;0.0708)	Tretinoin(DB00755)	GTGGTTCCTTCACGGGCTGGA	0.557													8	173					0	0	0.004482	0	0		T	13061792	T	T	13061792	2	4	189	1	0	0	0	0	0	0	0	1	6740	825	29	4		4	GPRC5A	12	13061792	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	2288970	13061792	120790103	60	94107											
RECQL	5965	broad.mit.edu	37	chr12	21623209	21623209	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgtttgcagccttcttctgGaagttgcctgaatttttttc	6	19	8	8	0	2	1	0	1	2	0	3	2	2	2	2	1	3	3	2	1	2	7			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr12:21623209G>A	uc001rex.2	-	16	2217	c.1869C>T	c.(1867-1869)TTC>TTT	p.F623F	RECQL_uc001rey.2_Silent_p.F623F|PYROXD1_uc001rew.2_3'UTR|PYROXD1_uc009ziq.2_3'UTR|PYROXD1_uc009zir.2_3'UTR	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	623					DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						CCTTCTTCTGGAAGTTGCCTG	0.343								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					11	519					0	0	0.013537	0	0		A	21623209	A	A	21623209	2	1	189	1	0	0	0	0	0	0	0	1	13226	1165	41	4		4	RECQL	12	21623209	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	8561417	21623209	112228686	61	94108											
ABCC9	10060	broad.mit.edu	37	chr12	22012551	22012551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttggtgttttgatacagcGctcgtgccacacagattctc	7	14	10	10	2	1	2	0	1	1	1	3	2	1	2	1	1	3	3	1	1	1	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr12:22012551G>A	uc001rfi.1	-	20	2494	c.2474C>T	c.(2473-2475)GCG>GTG	p.A825V	ABCC9_uc001rfh.2_Missense_Mutation_p.A825V|ABCC9_uc001rfj.1_Missense_Mutation_p.A789V	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	825	Cytoplasmic (Potential).|ABC transporter 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity	p.A825A(1)		ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTGATACAGCGCTCGTGCCAC	0.403													669	231					0	0	0.01441	0	0		A	22012551	A	A	22012551	3	1	189	1	0	0	0	0	1	0	0	0	59	1087	38	1	2393	1	ABCC9	12	22012551	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	389342	22012551	111839344	62	94109											
PTPRB	5787	broad.mit.edu	37	chr12	70956771	70956771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctctcctggagattcccatCtgggttgtacaaaaagatgt	10	13	9	9	0	2	2	0	0	2	2	5	3	4	2	2	2	1	2	2	2	3	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr12:70956771C>T	uc001swb.3	-	14	3397	c.3367G>A	c.(3367-3369)GAT>AAT	p.D1123N	PTPRB_uc010sto.1_Missense_Mutation_p.D1033N|PTPRB_uc010stp.1_Missense_Mutation_p.D1033N|PTPRB_uc001swc.3_Missense_Mutation_p.D1341N|PTPRB_uc001swa.3_Missense_Mutation_p.D1253N|PTPRB_uc001swd.3_Missense_Mutation_p.D1340N|PTPRB_uc009zrr.1_Missense_Mutation_p.D1220N	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1123	Fibronectin type-III 13.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			AGATTCCCATCTGGGTTGTAC	0.517													21	728					0	0	0.014323	0	0		T	70956771	T	T	70956771	3	4	189	1	0	0	0	0	1	0	0	0	12821	913	32	4	2702	4	PTPRB	12	70956771	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	48944220	70956771	62895124	63	94110											
PTPRR	5801	broad.mit.edu	37	chr12	71054759	71054759	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccctcggccctgggaagcaAgtctgtcttcttctacatcc	6	11	9	15	1	4	0	0	0	4	0	6	1	5	1	3	2	2	1	3	2	3	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr12:71054759A>C	uc001swi.1	-	12	2143	c.1727T>G	c.(1726-1728)CTT>CGT	p.L576R	PTPRR_uc001swf.1_RNA|PTPRR_uc001swg.1_RNA|PTPRR_uc001swh.1_Missense_Mutation_p.L331R|PTPRR_uc009zrs.2_Missense_Mutation_p.L425R|PTPRR_uc010stq.1_Missense_Mutation_p.L464R|PTPRR_uc010str.1_3'UTR	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	576	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		CTGGGAAGCAAGTCTGTCTTC	0.522													17	448					0	0	0.028581	0	0		C	71054759	C	C	71054759	3	2	189	1	0	0	0	0	1	0	0	0	12835	72	3	5	258	5	PTPRR	12	71054759	Missense_Mutation	SNP	A	TCGA-EQ-5647-01A-01D-1600-08	97988	71054759	62797136	64	94111											
HIP1R	9026	broad.mit.edu	37	chr12	123342783	123342783	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccccctgcacctgcgctgTaccagctccccaggtagaca	8	6	9	18	1	0	1	0	0	0	1	1	2	1	1	6	1	4	5	6	1	2	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr12:123342783T>C	uc001udj.1	+	19	2009	c.1950T>C	c.(1948-1950)TGT>TGC	p.C650C	HIP1R_uc001udk.1_5'UTR	NM_003959	NP_003950	O75146	HIP1R_HUMAN	huntingtin interacting protein-1-related	650					receptor-mediated endocytosis	clathrin coated vesicle membrane|coated pit|perinuclear region of cytoplasm	actin binding|phosphatidylinositol binding			ovary(1)	1	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)		ACCTGCGCTGTACCAGCTCCC	0.692													11	16					0	0	0.010729	0	0		C	123342783	C	C	123342783	2	2	189	1	0	0	0	0	0	0	0	1	7131	1644	57	3		3	HIP1R	12	123342783	Silent	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	52288024	123342783	10509112	65	94112											
PAN3	255967	broad.mit.edu	37	chr13	28830630	28830630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaaggaaactgttggtgggaCgacttacttctatacagaca	14	10	10	7	1	1	1	0	0	1	1	1	4	1	3	0	3	3	1	0	3	5	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr13:28830630C>T	uc001urz.2	+	6	772	c.764C>T	c.(763-765)ACG>ATG	p.T255M	PAN3_uc010tdo.1_Missense_Mutation_p.T401M|PAN3_uc001ury.2_Missense_Mutation_p.T89M|PAN3_uc001urx.2_Missense_Mutation_p.T201M	NM_175854	NP_787050	Q58A45	PAN3_HUMAN	PABP1-dependent poly A-specific ribonuclease	401	Interaction with polyadenylate-binding protein.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening	centrosome|cytosol	ATP binding|protein kinase activity			ovary(1)	1	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)	Colorectal(13;0.000334)	all cancers(112;0.0102)|Epithelial(112;0.0803)|GBM - Glioblastoma multiforme(144;0.121)|OV - Ovarian serous cystadenocarcinoma(117;0.13)|Lung(94;0.174)		GTTGGTGGGACGACTTACTTC	0.418													77	119					0	0	0.01441	0	0		T	28830630	T	T	28830630	3	4	189	1	0	0	0	0	1	0	0	0	11434	536	19	1	1228	1	PAN3	13	28830630	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		28830630	86339248	66	94113											
LIG4	3981	broad.mit.edu	37	chr13	108861879	108861879	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcttatcttttcaattcGtggaaaacgcaaggtgcagc	11	13	8	9	2	3	0	1	0	2	0	5	1	3	1	0	2	3	2	0	2	5	4	rs104894418		TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr13:108861879G>C	uc001vqn.2	-	2	2011	c.1738C>G	c.(1738-1740)CGA>GGA	p.R580G	LIG4_uc001vqo.2_Missense_Mutation_p.R580G|LIG4_uc010agg.1_Missense_Mutation_p.R513G|LIG4_uc010agf.2_Missense_Mutation_p.R580G|LIG4_uc001vqp.2_Missense_Mutation_p.R580G	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	580					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					TTTTCAATTCGTGGAAAACGC	0.433								NHEJ					27	128					0	0	0.024334	0	0		C	108861879	C	C	108861879	3	2	189	1	0	0	0	0	1	0	0	0	8799	1153	40	5	1001	5	LIG4	13	108861879	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	80031249	108861879	6307999	67	94114											
ADCY4	196883	broad.mit.edu	37	chr14	24798345	24798345	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctgcgccccaggactcCaggtaacgggtcatcagcag	8	7	13	13	2	2	0	2	0	0	0	3	1	3	1	3	4	3	3	3	4	1	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr14:24798345C>A	uc001wov.2	-	10	1452	c.1446G>T	c.(1444-1446)CTG>CTT	p.L482L	ADCY4_uc001wow.2_Silent_p.L482L|ADCY4_uc010toh.1_Silent_p.L168L|ADCY4_uc001wox.2_Silent_p.L482L|ADCY4_uc001woy.2_Silent_p.L482L	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	482	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		CCCAGGACTCCAGGTAACGGG	0.622													15	49					3.52763e-06	3.8216e-06	0.00499	1	0		A	24798345	A	A	24798345	2	1	189	1	0	0	0	0	0	0	0	1	296	581	21	5		5	ADCY4	14	24798345	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		24798345	82551195	68	94115											
LGMN	5641	broad.mit.edu	37	chr14	93178266	93178266	+	Silent	SNP	C	A	A	0	0	0	1	1	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	tcatagtaacaggcgtaggaCgactctctggggttggcagc	9	9	14	9	2	2	0	1	0	1	0	3	2	2	1	0	5	2	4	0	5	3	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr14:93178266C>A	uc001yav.2	-	10	971	c.645G>T	c.(643-645)TCG>TCT	p.S215S	LGMN_uc001yat.2_Silent_p.S215S|LGMN_uc001yau.2_Silent_p.S215S|LGMN_uc001yaw.2_Silent_p.S215S|LGMN_uc010aul.2_Silent_p.S96S|LGMN_uc001yax.2_Silent_p.S215S|LGMN_uc001yay.2_Silent_p.S215S	NM_001008530	NP_001008530	Q99538	LGMN_HUMAN	legumain preproprotein	215					hormone biosynthetic process|negative regulation of neuron apoptosis|vitamin D metabolic process	lysosome	cysteine-type endopeptidase activity|protein serine/threonine kinase activity			skin(1)	1		all_cancers(154;0.0706)		COAD - Colon adenocarcinoma(157;0.224)		AGGCGTAGGACGACTCTCTGG	0.488													21	126					1.87028e-06	2.04161e-06	0.012319	1	0		A	93178266	A	A	93178266	2	1	189	1	0	0	0	0	0	0	0	1	8771	523	19	5		5	LGMN	14	93178266	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	68379921	93178266	14171274	69	94116											
ITPK1	3705	broad.mit.edu	37	chr14	93483134	93483134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctgctcctcgatcggccGgctaaggttcagctgtgagg	5	9	14	13	3	1	1	1	1	0	0	4	2	2	1	3	4	2	4	3	4	1	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr14:93483134G>A	uc001ybg.2	-	4	422	c.133C>T	c.(133-135)CGG>TGG	p.R45W	ITPK1_uc001ybe.2_Missense_Mutation_p.R45W|ITPK1_uc001ybf.2_5'UTR|ITPK1_uc001ybh.2_Missense_Mutation_p.R45W	NM_014216	NP_055031	Q13572	ITPK1_HUMAN	inositol 1,3,4-triphosphate 5/6 kinase isoform	45					blood coagulation|inositol trisphosphate metabolic process|signal transduction	cytosol	ATP binding|hydrolase activity|inositol tetrakisphosphate 1-kinase activity|inositol-1,3,4-trisphosphate 5/6-kinase activity|isomerase activity|ligase activity|magnesium ion binding				0		all_cancers(154;0.077)|all_epithelial(191;0.247)		Epithelial(152;0.124)|all cancers(159;0.169)		TCGATCGGCCGGCTAAGGTTC	0.577													8	63					0	0	0.024245	0	0		A	93483134	A	A	93483134	3	1	189	1	0	0	0	0	1	0	0	0	7932	1115	39	1	1191	1	ITPK1	14	93483134	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	304868	93483134	13866406	70	94117											
IL16	3603	broad.mit.edu	37	chr15	81565490	81565490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatggccccattgggatttaCgtcaaaaccatttttgcagg	10	13	9	9	1	1	0	1	0	0	0	1	1	1	1	3	3	3	1	3	3	4	6			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr15:81565490C>T	uc002bgh.3	+	6	1111	c.735C>T	c.(733-735)TAC>TAT	p.Y245Y	IL16_uc002bgc.2_RNA|IL16_uc010blq.1_Silent_p.Y245Y|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Silent_p.Y287Y|IL16_uc002bgg.2_Silent_p.Y245Y	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	245	Interaction with GRIN2A.|PDZ 1.				immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						TTGGGATTTACGTCAAAACCA	0.507													6	69					0	0	0.021553	0	0		T	81565490	T	T	81565490	2	4	189	1	0	0	0	0	0	0	0	1	7649	547	19	1		1	IL16	15	81565490	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		81565490	20965902	71	94118											
GRIN2A	2903	broad.mit.edu	37	chr16	9857896	9857896	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcattatgcaaggggttccGgttcattggcagcgtggagt	7	13	14	7	2	2	0	2	0	0	0	3	1	3	1	1	5	2	4	1	5	2	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr16:9857896G>T	uc002czo.3	-	13	4053	c.3505C>A	c.(3505-3507)CGG>AGG	p.R1169R	GRIN2A_uc010uym.1_Silent_p.R1169R|GRIN2A_uc010uyn.1_Silent_p.R1012R|GRIN2A_uc002czr.3_Silent_p.R1169R	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1169	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AAGGGGTTCCGGTTCATTGGC	0.532													166	155					6.51197e-75	7.89163e-75	0.01441	1	0		T	9857896	T	T	9857896	2	4	189	1	0	0	0	0	0	0	0	1	6795	1115	39	5		5	GRIN2A	16	9857896	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		9857896	80496857	72	94119											
SLC12A4	6560	broad.mit.edu	37	chr16	67984928	67984928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatagacttctgggcgtcacGaaggtccccagagcggtttg	8	9	14	10	3	2	2	1	0	1	2	3	4	3	2	2	3	1	1	2	3	2	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr16:67984928G>A	uc002euz.2	-	10	1474	c.1333C>T	c.(1333-1335)CGT>TGT	p.R445C	SLC12A4_uc010ceu.2_Missense_Mutation_p.R439C|SLC12A4_uc010vkh.1_Missense_Mutation_p.R414C|SLC12A4_uc010vki.1_Missense_Mutation_p.R445C|SLC12A4_uc010vkj.1_Missense_Mutation_p.R447C|SLC12A4_uc002eva.2_Missense_Mutation_p.R445C|SLC12A4_uc002evb.2_Intron	NM_005072	NP_005063	Q9UP95	S12A4_HUMAN	solute carrier family 12, member 4 isoform a	445					cell volume homeostasis|potassium ion transport|sodium ion transport	integral to plasma membrane|membrane fraction	potassium:chloride symporter activity			ovary(1)	1		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)	TGGGCGTCACGAAGGTCCCCA	0.607													11	59					0	0	0.010729	0	0		A	67984928	A	A	67984928	3	1	189	1	0	0	0	0	1	0	0	0	14410	1058	37	1	1984	1	SLC12A4	16	67984928	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	58127032	67984928	22369825	73	94120											
ADAT1	23536	broad.mit.edu	37	chr16	75642762	75642762	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccccacaaggaacaagtcGacctgggctatcagcccttt	10	8	9	14	1	1	0	1	0	0	0	2	2	1	1	4	2	3	1	4	2	4	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr16:75642762G>A	uc002feo.1	-	8	1270	c.1168C>T	c.(1168-1170)CGA>TGA	p.R390*	ADAT1_uc002fep.1_Nonsense_Mutation_p.R241*	NM_012091	NP_036223	Q9BUB4	ADAT1_HUMAN	adenosine deaminase, tRNA-specific 1	390	A to I editase.				tRNA processing		metal ion binding|RNA binding|tRNA-specific adenosine deaminase activity			ovary(1)|skin(1)	2						GGAACAAGTCGACCTGGGCTA	0.527													12	60					0	0	0.020292	0	0		A	75642762	A	A	75642762	4	1	189	1	0	0	0	0	0	1	0	0	284	1066	37	1	356	1	ADAT1	16	75642762	Nonsense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	7657834	75642762	14711991	74	94121											
MYH1	4619	broad.mit.edu	37	chr17	10415837	10415837	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggacactctttcatctgaAgtaaagcccagaatttcaat	14	12	6	9	0	4	2	2	1	2	1	4	3	4	3	1	1	1	1	1	1	5	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr17:10415837A>G	uc002gmo.2	-	12	1129	c.1035T>C	c.(1033-1035)ACT>ACC	p.T345T	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	345	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TTTCATCTGAAGTAAAGCCCA	0.413													4	225					0	0	0.009096	0	0		G	10415837	G	G	10415837	2	3	189	1	0	0	0	0	0	0	0	1	10047	59	3	3		3	MYH1	17	10415837	Silent	SNP	A	TCGA-EQ-5647-01A-01D-1600-08		10415837	70779373	75	94122											
MYH3	4621	broad.mit.edu	37	chr17	10538727	10538727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgctggatggcgtccgtctCgtatttggttctccactggg	3	13	14	11	4	2	0	0	0	2	0	5	1	3	1	2	4	0	3	2	4	1	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr17:10538727C>T	uc002gmq.1	-	29	4206	c.4129G>A	c.(4129-4131)GAG>AAG	p.E1377K		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1377	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GCGTCCGTCTCGTATTTGGTT	0.527													98	156					0	0	0.01441	0	0		T	10538727	T	T	10538727	3	4	189	1	0	0	0	0	1	0	0	0	10054	893	31	1	1741	1	MYH3	17	10538727	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	122890	10538727	70656483	76	94123											
C17orf70	80233	broad.mit.edu	37	chr17	79517825	79517825	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtgactgcaggagggtggcaTcagctccaaagaggagcccg	10	5	16	10	1	1	2	1	1	0	1	2	4	2	4	2	4	3	3	2	4	1	0			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr17:79517825T>G	uc002kaq.2	-	3	750	c.695A>C	c.(694-696)GAT>GCT	p.D232A	C17orf70_uc002kao.1_5'Flank|C17orf70_uc010wuq.1_RNA|C17orf70_uc002kap.2_Missense_Mutation_p.D81A	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit	232					DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			GAGGGTGGCATCAGCTCCAAA	0.652													5	26					0	0	0.021553	0	0		G	79517825	G	G	79517825	3	3	189	1	0	0	0	0	1	0	0	0	1880	1435	50	5	1978	5	C17orf70	17	79517825	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	68979098	79517825	1677385	77	94124											
CETN1	1068	broad.mit.edu	37	chr18	580882	580882	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggggacggcgaagtgaaCgaggaggagttccttcggat	10	7	18	6	4	0	1	0	1	0	0	2	8	1	5	1	6	1	1	1	6	2	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr18:580882C>T	uc002kko.1	+	1	516	c.474C>T	c.(472-474)AAC>AAT	p.N158N		NM_004066	NP_004057	Q12798	CETN1_HUMAN	centrin 1	158	2 (Probable).|EF-hand 4.				cell division|mitosis	spindle pole	ATP binding|ATP-dependent helicase activity|calcium ion binding|nucleic acid binding			upper_aerodigestive_tract(1)|ovary(1)	2						GCGAAGTGAACGAGGAGGAGT	0.537													11	32					0	0	0.016723	0	0		T	580882	T	T	580882	2	4	189	1	0	0	0	0	0	0	0	1	3277	535	19	1		1	CETN1	18	580882	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		580882	77496366	78	94125											
DCC	1630	broad.mit.edu	37	chr18	50589747	50589747	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatattgagtttgaatgtaCagtctctggaaagcctgtgc	10	13	12	6	0	1	2	0	2	1	0	2	4	1	4	1	2	3	2	1	2	4	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr18:50589747C>A	uc002lfe.1	+	6	1645	c.1058C>A	c.(1057-1059)ACA>AAA	p.T353K	DCC_uc010xdr.1_Missense_Mutation_p.T201K|DCC_uc010dpf.1_Missense_Mutation_p.T8K	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	353	Extracellular (Potential).|Ig-like C2-type 4.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TTTGAATGTACAGTCTCTGGA	0.373													195	151					1.41567e-91	1.73027e-91	0.01441	1	0		A	50589747	A	A	50589747	3	1	189	1	0	0	0	0	1	0	0	0	4285	478	17	5	1080	5	DCC	18	50589747	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	50008865	50589747	27487501	79	94126											
ICAM4	3386	broad.mit.edu	37	chr19	10398284	10398284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cactttgcgctgccacgtgaCgcaggtgttcccggtgggct	4	10	14	13	4	0	1	0	1	0	0	1	1	1	1	2	3	2	4	2	3	0	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr19:10398284C>T	uc002mns.1	+	2	506	c.467C>T	c.(466-468)ACG>ATG	p.T156M	ICAM4_uc002mnr.1_Intron|ICAM4_uc002mnt.1_Missense_Mutation_p.T156M|ICAM5_uc002mnu.3_5'Flank	NM_001544	NP_001535	Q14773	ICAM4_HUMAN	intercellular adhesion molecule 4 isoform 1	156	Ig-like C2-type 2.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	extracellular region|integral to membrane|plasma membrane	integrin binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			TGCCACGTGACGCAGGTGTTC	0.602													11	43					0	0	0.010729	0	0		T	10398284	T	T	10398284	3	4	189	1	0	0	0	0	1	0	0	0	7498	536	19	1	473	1	ICAM4	19	10398284	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		10398284	48730699	80	94127											
NCAN	1463	broad.mit.edu	37	chr19	19338359	19338359	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtcccaaagagtggatgCtaccacaccccacccccatc	10	6	8	17	0	0	1	0	0	0	1	2	2	1	2	6	2	2	1	6	2	2	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr19:19338359C>G	uc002nlz.2	+	8	2029	c.1930C>G	c.(1930-1932)CTA>GTA	p.L644V	NCAN_uc010ecc.1_Missense_Mutation_p.L208V	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	644					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			AGAGTGGATGCTACCACACCC	0.637													9	63					0	0	0.006122	0	0		G	19338359	G	G	19338359	3	3	189	1	0	0	0	0	1	0	0	0	10223	796	28	5	1956	5	NCAN	19	19338359	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	8940075	19338359	39790624	81	94128											
ZNF676	163223	broad.mit.edu	37	chr19	22364289	22364289	+	Missense_Mutation	SNP	T	A	A	0	1	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	taatttttaagtgtaaattcTcatgtccacatttgtcatat	12	19	4	6	0	2	0	2	0	1	0	4	0	3	0	1	0	0	1	1	0	5	8			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr19:22364289T>A	uc002nqs.1	-	3	548	c.230A>T	c.(229-231)GAG>GTG	p.E77V		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	77					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GTGTAAATTCTCATGTCCACA	0.338													35	117					0	0	0.013726	0	0		A	22364289	A	A	22364289	3	1	189	1	0	0	0	0	1	0	0	0	18108	1551	54	5	1540	5	ZNF676	19	22364289	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	3025930	22364289	36764694	82	94129											
L3MBTL	26013	broad.mit.edu	37	chr20	42168807	42168807	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagccctcacgcccgatgtCgtgcaccagtccctcttcat	6	9	7	19	3	3	0	2	0	1	0	5	1	4	0	5	0	2	1	5	0	0	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:42168807C>T	uc010zwh.1	+	20	2170	c.2124C>T	c.(2122-2124)GTC>GTT	p.V708V	L3MBTL_uc002xkl.2_Silent_p.V640V|L3MBTL_uc002xkm.2_Silent_p.V640V|L3MBTL_uc010ggl.2_Silent_p.V645V|L3MBTL_uc002xkn.1_Silent_p.V399V|L3MBTL_uc002xko.2_Silent_p.V292V|L3MBTL_uc002xkp.2_Silent_p.V28V|SGK2_uc002xkq.1_5'UTR	NM_015478	NP_056293	Q9Y468	LMBL1_HUMAN	l(3)mbt-like isoform I	640					chromatin modification|hemopoiesis|negative regulation of transcription, DNA-dependent|regulation of megakaryocyte differentiation|regulation of mitosis	chromatin|condensed chromosome|nucleoplasm	identical protein binding|methylated histone residue binding|nucleosomal histone binding|SAM domain binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			CGCCCGATGTCGTGCACCAGT	0.617													10	50					0	0	0.006214	0	0		T	42168807	T	T	42168807	2	4	189	1	0	0	0	0	0	0	0	1	8607	871	31	1		1	L3MBTL	20	42168807	Silent	SNP	C	TCGA-EQ-5647-01A-01D-1600-08		42168807	20856713	83	94130											
TSHZ2	128553	broad.mit.edu	37	chr20	51871800	51871800	+	Silent	SNP	G	A	A																															gccccttacactcaagtcaaGaaagagtcagaagacaaaga																										TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51871800G>A	uc002xwo.2	+	2	2759	c.1803G>A	c.(1801-1803)AAG>AAA	p.K601K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	601					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CTCAAGTCAAGAAAGAGTCAG	0.512													36	795					0	0	0.01441	0	0		A	51871800	A	A	51871800	2	1	189	1	0	0	0	0	0	0	0	1	16650	933	33	4		4	TSHZ2	20	51871800	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	9702993	51871800	11153720	84	94131	177	3	1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51871810	51871810	+	Missense_Mutation	SNP	G	A	A																															ctcaagtcaagaaagagtcaGaagacaaagatgaagcggtg																										TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51871810G>A	uc002xwo.2	+	2	2769	c.1813G>A	c.(1813-1815)GAA>AAA	p.E605K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	605					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GAAAGAGTCAGAAGACAAAGA	0.507													82	777					0	0	0.01441	0	0		A	51871810	A	A	51871810	3	1	189	1	0	0	0	0	1	0	0	0	16650	943	33	4	1819	4	TSHZ2	20	51871810	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	10	51871810	11153710	85	94132	177	3	1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51871813	51871813	+	Missense_Mutation	SNP	G	A	A																															aagtcaagaaagagtcagaaGacaaagatgaagcggtgaag																										TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51871813G>A	uc002xwo.2	+	2	2772	c.1816G>A	c.(1816-1818)GAC>AAC	p.D606N		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	606					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGAGTCAGAAGACAAAGATGA	0.502													90	789					0	0	0.01441	0	0		A	51871813	A	A	51871813	3	1	189	1	0	0	0	0	1	0	0	0	16650	942	33	4	1822	4	TSHZ2	20	51871813	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	3	51871813	11153707	86	94133	177	3	1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51871968	51871968	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgaaggaggaggagaagctGatgaaagagggcagcgagaa	16	3	18	4	1	0	6	0	3	0	3	0	10	0	8	0	4	2	2	0	4	4	0			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51871968G>A	uc002xwo.2	+	2	2927	c.1971G>A	c.(1969-1971)CTG>CTA	p.L657L		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	657					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGGAGAAGCTGATGAAAGAGG	0.592													171	700					0	0	0.01441	0	0		A	51871968	A	A	51871968	2	1	189	1	0	0	0	0	0	0	0	1	16650	1277	45	4		4	TSHZ2	20	51871968	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	155	51871968	11153552	87	94134			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872223	51872223	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcatggacaagccggtcttGagtcctgcctccacaaggtc	8	9	11	13	1	2	1	1	1	1	0	5	2	4	2	4	3	2	0	4	3	2	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872223G>A	uc002xwo.2	+	2	3182	c.2226G>A	c.(2224-2226)TTG>TTA	p.L742L		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	742					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGCCGGTCTTGAGTCCTGCCT	0.547													138	600					0	0	0.01441	0	0		A	51872223	A	A	51872223	2	1	189	1	0	0	0	0	0	0	0	1	16650	1281	45	4		4	TSHZ2	20	51872223	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	255	51872223	11153297	88	94135			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872482	51872482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaatggatgtcaggcgctttGaggatgtctccagtgaagtc	10	11	13	7	1	2	2	1	2	1	0	4	4	2	4	1	3	0	1	1	3	2	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872482G>A	uc002xwo.2	+	2	3441	c.2485G>A	c.(2485-2487)GAG>AAG	p.E829K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	829					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CAGGCGCTTTGAGGATGTCTC	0.542													83	793					0	0	0.01441	0	0		A	51872482	A	A	51872482	3	1	189	1	0	0	0	0	1	0	0	0	16650	1291	45	4	2491	4	TSHZ2	20	51872482	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	259	51872482	11153038	89	94136			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872676	51872676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagtttacgggactctcaatGaccactatcagtcactggct	11	11	8	11	1	3	1	3	1	1	0	4	2	3	2	1	2	1	2	1	2	4	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872676G>A	uc002xwo.2	+	2	3635	c.2679G>A	c.(2677-2679)ATG>ATA	p.M893I		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	893	Homeobox; atypical.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GACTCTCAATGACCACTATCA	0.493													140	645					0	0	0.01441	0	0		A	51872676	A	A	51872676	3	1	189	1	0	0	0	0	1	0	0	0	16650	1290	45	4	2685	4	TSHZ2	20	51872676	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	194	51872676	11152844	90	94137			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872755	51872755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaaatttctgaaaaacatgGacaaaggccaccccatcttt	16	9	5	11	0	2	1	0	1	2	0	2	2	2	2	3	2	1	0	3	2	5	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872755G>A	uc002xwo.2	+	2	3714	c.2758G>A	c.(2758-2760)GAC>AAC	p.D920N		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	920					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GAAAAACATGGACAAAGGCCA	0.468													143	799					0	0	0.01441	0	0		A	51872755	A	A	51872755	3	1	189	1	0	0	0	0	1	0	0	0	16650	1174	41	4	2764	4	TSHZ2	20	51872755	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	79	51872755	11152765	91	94138			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872804	51872804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgactgtgcctcccagttcaGaaccccttctacctacatca	9	11	5	16	0	3	2	2	1	1	1	4	2	4	2	5	0	4	1	5	0	3	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872804G>A	uc002xwo.2	+	2	3763	c.2807G>A	c.(2806-2808)AGA>AAA	p.R936K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	936	C2H2-type 4.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			TCCCAGTTCAGAACCCCTTCT	0.483													83	818					0	0	0.01441	0	0		A	51872804	A	A	51872804	3	1	189	1	0	0	0	0	1	0	0	0	16650	942	33	4	2813	4	TSHZ2	20	51872804	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	49	51872804	11152716	92	94139			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872833	51872833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacctacatcagtcacttaGaatctcacctgggtttccaa	11	12	5	13	0	3	1	3	0	1	1	5	1	4	1	3	1	2	1	3	1	5	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872833G>A	uc002xwo.2	+	2	3792	c.2836G>A	c.(2836-2838)GAA>AAA	p.E946K		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	946	C2H2-type 4.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CAGTCACTTAGAATCTCACCT	0.493													45	822					0	0	0.01441	0	0		A	51872833	A	A	51872833	3	1	189	1	0	0	0	0	1	0	0	0	16650	943	33	4	2842	4	TSHZ2	20	51872833	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	29	51872833	11152687	93	94140			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872856	51872856	+	Missense_Mutation	SNP	G	A	A																															tctcacctgggtttccaaatGaaggacatgacccgcttgtc																										TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872856G>A	uc002xwo.2	+	2	3815	c.2859G>A	c.(2857-2859)ATG>ATA	p.M953I		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	953					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GTTTCCAAATGAAGGACATGA	0.517													15	820					0	0	0.01441	0	0		A	51872856	A	A	51872856	3	1	189	1	0	0	0	0	1	0	0	0	16650	1290	45	4	2865	4	TSHZ2	20	51872856	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	23	51872856	11152664	94	94141	178	2	1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872865	51872865	+	Missense_Mutation	SNP	G	A	A																															ggtttccaaatgaaggacatGacccgcttgtcagtggacca																										TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872865G>A	uc002xwo.2	+	2	3824	c.2868G>A	c.(2866-2868)ATG>ATA	p.M956I		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	956					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			TGAAGGACATGACCCGCTTGT	0.512													14	824					0	0	0.01441	0	0		A	51872865	A	A	51872865	3	1	189	1	0	0	0	0	1	0	0	0	16650	1290	45	4	2874	4	TSHZ2	20	51872865	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	9	51872865	11152655	95	94142	178	2	1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872931	51872931	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcccgggtatcgtcggctcaGaggtctccagaaacaatagc	10	8	11	12	3	2	2	1	0	1	2	6	2	3	2	2	3	2	2	2	3	4	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872931G>A	uc002xwo.2	+	2	3890	c.2934G>A	c.(2932-2934)CAG>CAA	p.Q978Q		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	978					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CGTCGGCTCAGAGGTCTCCAG	0.493													41	807					0	0	0.01441	0	0		A	51872931	A	A	51872931	2	1	189	1	0	0	0	0	0	0	0	1	16650	933	33	4		4	TSHZ2	20	51872931	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	66	51872931	11152589	96	94143			1	42		14	11	1169	N	G	2.075782e-31
TSHZ2	128553	broad.mit.edu	37	chr20	51872968	51872968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagctgccgaagaggacacaGactctaaattcaagtgtaag	15	8	10	8	1	2	2	1	0	1	2	2	4	2	3	1	1	2	2	1	1	6	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chr20:51872968G>A	uc002xwo.2	+	2	3927	c.2971G>A	c.(2971-2973)GAC>AAC	p.D991N		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	991					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			AGAGGACACAGACTCTAAATT	0.507													23	839					0	0	0.01441	0	0		A	51872968	A	A	51872968	3	1	189	1	0	0	0	0	1	0	0	0	16650	942	33	4	2977	4	TSHZ2	20	51872968	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	37	51872968	11152552	97	94144			1	42		14	11	1169	N	G	2.075782e-31
MAP7D2	256714	broad.mit.edu	37	chrX	20081624	20081624	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttccagttttcgccatcGctcctccatttgcttttcgt	3	18	5	15	3	1	0	0	0	1	0	7	0	4	0	4	0	1	3	4	0	0	6			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:20081624G>A	uc004czr.1	-	3	299	c.280C>T	c.(280-282)CGA>TGA	p.R94*	MAP7D2_uc011mji.1_Nonsense_Mutation_p.R50*|MAP7D2_uc010nfo.1_Nonsense_Mutation_p.R94*|MAP7D2_uc011mjj.1_Nonsense_Mutation_p.R94*|MAP7D2_uc004czs.1_Nonsense_Mutation_p.R50*	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2	94	Potential.									ovary(2)|breast(1)	3						TTTCGCCATCGCTCCTCCATT	0.547													94	69					0	0	0.01441	0	0		A	20081624	A	A	20081624	4	1	189	1	0	0	0	0	0	1	0	0	9286	1095	38	1	2097	1	MAP7D2	23	20081624	Nonsense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08		20081624	135188936	98	94145											
CHST7	56548	broad.mit.edu	37	chrX	46433894	46433894	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtacgcgccgccgggggaCcccgctgcgcgcgccccgga	3	3	16	19	9	0	0	0	0	0	0	0	2	0	2	6	3	2	2	6	3	1	1			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:46433894C>G	uc004dgt.2	+	1	703	c.528C>G	c.(526-528)GAC>GAG	p.D176E		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	176	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						cgccgggggaccccgctgcgc	0.552													4	10					0	0	0.009096	0	0		G	46433894	G	G	46433894	3	3	189	1	0	0	0	0	1	0	0	0	3412	506	18	5	530	5	CHST7	23	46433894	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	26352270	46433894	108836666	99	94146											
TEX11	56159	broad.mit.edu	37	chrX	69772062	69772062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacattcgacgccccatctgGcactgagaggttaaccaagt	11	9	9	12	2	1	1	0	1	1	1	2	3	1	1	3	2	2	2	3	2	3	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:69772062G>A	uc004dyl.2	-	29	2641	c.2479C>T	c.(2479-2481)CCA>TCA	p.P827S	TEX11_uc004dyk.2_Missense_Mutation_p.P502S|TEX11_uc004dym.2_Missense_Mutation_p.P812S	NM_001003811	NP_001003811	Q8IYF3	TEX11_HUMAN	testis expressed sequence 11 isoform 1	827							protein binding			ovary(3)|breast(1)|skin(1)	5	Renal(35;0.156)					GCCCCATCTGGCACTGAGAGG	0.428													27	66					0	0	0.007291	0	0		A	69772062	A	A	69772062	3	1	189	1	0	0	0	0	1	0	0	0	15799	1203	42	2	355	2	TEX11	23	69772062	Missense_Mutation	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	23338168	69772062	85498498	100	94147											
KIAA2022	340533	broad.mit.edu	37	chrX	73960857	73960857	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccactcttgctgggtgaacTtttctttcttgattttgaca	6	18	7	10	0	3	3	0	3	3	0	3	3	3	3	1	1	2	1	1	1	1	7			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:73960857T>G	uc004eby.2	-	3	4152	c.3535A>C	c.(3535-3537)AGT>CGT	p.S1179R		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1179					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						CTGGGTGAACTTTTCTTTCTT	0.408													4	266					0	0	0.009096	0	0		G	73960857	G	G	73960857	3	3	189	1	0	0	0	0	1	0	0	0	8285	1609	56	5	1023	5	KIAA2022	23	73960857	Missense_Mutation	SNP	T	TCGA-EQ-5647-01A-01D-1600-08	4188795	73960857	81309703	101	94148											
HNRNPH2	3188	broad.mit.edu	37	chrX	100667850	100667850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccacagggcactgtgtaCacatgagggggttaccttac	10	8	12	11	0	0	1	0	1	0	0	0	1	0	1	2	3	3	4	2	3	3	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:100667850C>A	uc004ehm.2	+	2	1044	c.874C>A	c.(874-876)CAC>AAC	p.H292N	HNRNPH2_uc004ehn.2_Missense_Mutation_p.H292N	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	292	RRM 3.|2 X 16 AA Gly-rich approximate repeats.				nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GCACTGTGTACACATGAGGGG	0.428													26	150					3.01185e-09	3.39129e-09	0.021523	1	0		A	100667850	A	A	100667850	3	1	189	1	0	0	0	0	1	0	0	0	7283	478	17	5	876	5	HNRNPH2	23	100667850	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	26706993	100667850	54602710	102	94149											
IL13RA2	3598	broad.mit.edu	37	chrX	114239785	114239785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggtaggtgtttggcttaCgcaaaagcagaccggttaca	10	11	13	7	2	0	1	0	0	0	1	0	1	0	1	1	4	3	6	1	4	5	5			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:114239785C>T	uc004epx.2	-	9	1216	c.1091G>A	c.(1090-1092)CGT>CAT	p.R364H	IL13RA2_uc010nqd.1_Missense_Mutation_p.R364H	NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	364	Cytoplasmic (Potential).					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						GTTTGGCTTACGCAAAAGCAG	0.363													21	120					0	0	0.010504	0	0		T	114239785	T	T	114239785	3	4	189	1	0	0	0	0	1	0	0	0	7646	536	19	1	59	1	IL13RA2	23	114239785	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	13571935	114239785	41030775	103	94150											
DCAF12L1	139170	broad.mit.edu	37	chrX	125685810	125685810	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcccgcaccttgcggttaCtggggttgatgatggccctg	4	10	16	11	2	0	2	0	2	0	0	0	2	0	2	3	5	2	3	3	5	1	3			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:125685810C>A	uc004eul.2	-	1	1033	c.782G>T	c.(781-783)AGT>ATT	p.S261I		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	261	WD 3.									skin(3)|ovary(1)	4						CTTGCGGTTACTGGGGTTGAT	0.637													33	31					6.2361e-21	7.30953e-21	0.007835	1	0		A	125685810	A	A	125685810	3	1	189	1	0	0	0	0	1	0	0	0	4267	565	20	5	613	5	DCAF12L1	23	125685810	Missense_Mutation	SNP	C	TCGA-EQ-5647-01A-01D-1600-08	11446025	125685810	29584750	104	94151											
CD40LG	959	broad.mit.edu	37	chrX	135736558	135736558	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttaaacaaagaggagacGaagaaagaaaacagctttga	21	6	10	4	1	0	5	0	1	0	4	0	7	0	5	0	1	3	2	0	1	7	2			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:135736558G>A	uc004faa.2	+	3	387	c.315G>A	c.(313-315)ACG>ACA	p.T105T	CD40LG_uc010nsd.2_Silent_p.T105T|CD40LG_uc010nse.1_Intron	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	105	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	AAGAGGAGACGAAGAAAGAAA	0.338									Immune_Deficiency_with_Hyper-IgM				23	129					0	0	0.027356	0	0		A	135736558	A	A	135736558	2	1	189	1	0	0	0	0	0	0	0	1	3019	1045	37	1		1	CD40LG	23	135736558	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	10050748	135736558	19534002	105	94152											
SLITRK2	84631	broad.mit.edu	37	chrX	144905755	144905755	+	Silent	SNP	G	T	T	0	0	1	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	acacctcggtcgcttagtgtGtctcctagttcctatcctga	6	14	8	13	2	1	1	0	1	1	0	6	1	3	1	4	1	0	2	4	1	3	4			TCGA-EQ-5647-01A-01D-1600-08	TCGA-EQ-5647-11A-01D-1600-08									Somatic	Phase_I	Capture				Illumina GAIIx	feccee20-a62d-4152-b832-b9fdaca87a61	38aa3d3d-d452-4b45-86b5-3c5f6be61fb7	g.chrX:144905755G>T	uc004fcd.2	+	5	2802	c.1812G>T	c.(1810-1812)GTG>GTT	p.V604V	SLITRK2_uc010nsp.2_Silent_p.V604V|SLITRK2_uc010nso.2_Silent_p.V604V|SLITRK2_uc011mwq.1_Silent_p.V604V|SLITRK2_uc011mwr.1_Silent_p.V604V|SLITRK2_uc011mws.1_Silent_p.V604V|SLITRK2_uc004fcg.2_Silent_p.V604V|SLITRK2_uc011mwt.1_Silent_p.V604V	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	604	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CGCTTAGTGTGTCTCCTAGTT	0.463													6	159					0.00116845	0.00124692	0.021553	1	0		T	144905755	T	T	144905755	2	4	189	1	0	0	0	0	0	0	0	1	14768	1364	48	5		5	SLITRK2	23	144905755	Silent	SNP	G	TCGA-EQ-5647-01A-01D-1600-08	9169197	144905755	10364805	106	94153											
ATAD3A	55210	broad.mit.edu	37	chr1	1451391	1451391	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgtgtccttgcgtctgcaGgttatgccaaggacgccctg	5	11	12	13	3	1	0	0	0	1	0	3	1	3	1	4	2	3	2	4	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:1451391G>T	uc001afz.1	+	2	300	c.206_splice	c.e2-1	p.R69_splice	ATAD3A_uc001aga.1_Splice_Site_p.R69_splice|ATAD3A_uc001agb.1_Splice_Site	NM_018188	NP_060658	Q9NVI7	ATD3A_HUMAN	ATPase family, AAA domain containing 3A								ATP binding|nucleoside-triphosphatase activity|protein binding			skin(1)	1	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;1.12e-36)|OV - Ovarian serous cystadenocarcinoma(86;2.18e-22)|Colorectal(212;0.000164)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00233)|BRCA - Breast invasive adenocarcinoma(365;0.00469)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0347)|Lung(427;0.147)		TGCGTCTGCAGGTTATGCCAA	0.617													9	19					0.00621372	0.0062683	1	1	0		T	1451391	T	T	1451391	5	4	190	1	0	0	0	0	0	0	1	0	1074	1014	35	5	211	5	ATAD3A	1	1451391	Splice_Site	SNP	G	TCGA-F1-6177-01A-11D-1800-08		1451391	247799230	1	94154											
MIB2	142678	broad.mit.edu	37	chr1	1560527	1560527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagtgtgtgggcgaggcagCgggcggcttctactacaagg	8	7	17	9	3	1	0	0	0	1	0	1	1	1	0	0	5	3	2	0	5	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:1560527C>T	uc001agg.2	+	6	984	c.857C>T	c.(856-858)GCG>GTG	p.A286V	MIB2_uc001agh.2_Missense_Mutation_p.A272V|MIB2_uc001agi.2_Missense_Mutation_p.A286V|MIB2_uc001agj.2_Missense_Mutation_p.A127V|MIB2_uc001agk.2_Intron|MIB2_uc001agl.1_Missense_Mutation_p.A242V|MIB2_uc001agm.2_Intron|MIB2_uc010nyq.1_Missense_Mutation_p.A242V|MIB2_uc009vkh.2_Missense_Mutation_p.A127V|MIB2_uc001agn.2_5'UTR	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	286					Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-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;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGCGAGGCAGCGGGCGGCTTC	0.627													10	67					0	0	1	0	0		T	1560527	T	T	1560527	3	4	190	1	0	0	0	0	1	0	0	0	9585	768	27	1	1050	1	MIB2	1	1560527	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	109136	1560527	247690094	2	94155											
NADK	65220	broad.mit.edu	37	chr1	1685595	1685595	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggggtggatcatggaggcCccggccgcggccgcatacgc	5	6	17	13	5	1	0	1	0	0	0	1	2	1	2	4	7	1	1	4	7	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:1685595C>A	uc009vkw.2	-	10	1117	c.996G>T	c.(994-996)GGG>GGT	p.G332G	NADK_uc001aic.2_Silent_p.G332G|NADK_uc001aid.3_Silent_p.G332G|NADK_uc001aie.2_Silent_p.G477G|NADK_uc010nyv.1_Silent_p.G300G|NADK_uc009vkx.1_3'UTR	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	332	Poly-Ala.				ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		TCATGGAGGCCCCGGCCGCGG	0.711													30	52					1.13719e-10	1.19565e-10	1	1	0		A	1685595	A	A	1685595	2	1	190	1	0	0	0	0	0	0	0	1	10155	610	22	5		5	NADK	1	1685595	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	125068	1685595	247565026	3	94156											
PRDM16	63976	broad.mit.edu	37	chr1	3328984	3328984	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactccctttaccccttcacGgaccgagccctcgcccacaa	8	7	5	21	3	1	0	1	0	0	0	3	2	2	1	6	1	2	0	6	1	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:3328984G>A	uc001akf.2	+	9	2303	c.2223G>A	c.(2221-2223)ACG>ACA	p.T741T	PRDM16_uc001akc.2_Silent_p.T741T|PRDM16_uc001akd.2_Silent_p.T741T|PRDM16_uc001ake.2_Silent_p.T741T|PRDM16_uc009vlh.2_Silent_p.T442T	NM_022114	NP_071397	Q9HAZ2	PRD16_HUMAN	PR domain containing 16 isoform 1	741	Mediates interaction with SKI and regulation of TGF-beta signaling.|Interaction with CTBP1 and CTBP2 (By similarity).				brown fat cell differentiation|negative regulation of granulocyte differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of cellular respiration|transcription, DNA-dependent	transcriptional repressor complex	protein binding|sequence-specific DNA binding|transcription coactivator activity|zinc ion binding			lung(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7	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)		ACCCCTTCACGGACCGAGCCC	0.647			T	EVI1	MDS|AML								29	33					0	0	1	0	0		A	3328984	A	A	3328984	2	1	190	1	0	0	0	0	0	0	0	1	12479	1103	39	1		1	PRDM16	1	3328984	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1643389	3328984	245921637	4	94157											
CCDC27	148870	broad.mit.edu	37	chr1	3680038	3680038	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagatactcccttgcaacaGgtagggcctcggcggggggc	7	6	15	13	2	0	1	0	0	0	1	2	1	1	1	3	6	3	2	3	6	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:3680038G>T	uc001akv.2	+	7	1402	c.1321G>T	c.(1321-1323)GGA>TGA	p.G441*		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	441										skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		CCTTGCAACAGGTAGGGCCTC	0.647													43	57					1.22674e-20	1.31954e-20	1	1	0		T	3680038	T	T	3680038	4	4	190	1	0	0	0	0	0	1	0	0	2804	1014	35	5	1347	5	CCDC27	1	3680038	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	351054	3680038	245570583	5	94158											
DFFB	1677	broad.mit.edu	37	chr1	3800152	3800152	+	Frame_Shift_Del	DEL	T	-	-																															agagaagtggactgggagtaTttttatggcctgctttttac																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:3800152delT	uc001alc.2	+	7	1187	c.864delT	c.(862-864)TATfs	p.Y288fs	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Frame_Shift_Del_p.Y312fs|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Frame_Shift_Del_p.Y239fs|DFFB_uc001ald.2_Frame_Shift_Del_p.Y224fs	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	288					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		ACTGGGAGTATTTTTATGGCC	0.423													56	88	---	---	---	---						.	-	3800152	-	-	3800152	7	5	190	1	0	1	0	1	0	0	0	0	4459	1500	52	0	890	0	DFFB	1	3800152	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	120114	3800152	245450469	6	94159											
AJAP1	55966	broad.mit.edu	37	chr1	4832433	4832433	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctcacggacttcccctcGgcccgggtgcccagcagcct	6	6	10	19	3	1	0	1	0	0	0	3	1	2	1	6	3	4	1	6	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:4832433G>A	uc001alm.1	+	4	1392	c.1011G>A	c.(1009-1011)TCG>TCA	p.S337S	AJAP1_uc001aln.2_Silent_p.S337S	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	337	Targeting signals.|Cytoplasmic (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	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)		ACTTCCCCTCGGCCCGGGTGC	0.617													14	31					0	0	1	0	0		A	4832433	A	A	4832433	2	1	190	1	0	0	0	0	0	0	0	1	438	1103	39	1		1	AJAP1	1	4832433	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1032281	4832433	244418188	7	94160											
CHD5	26038	broad.mit.edu	37	chr1	6191747	6191747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgatgccaccatcaatcCgctcatacttgtagccttcg	8	11	8	14	3	2	1	2	1	0	0	4	1	3	1	4	1	3	2	4	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:6191747C>T	uc001amb.1	-	21	3306	c.3206G>A	c.(3205-3207)CGG>CAG	p.R1069Q	CHD5_uc001alz.1_5'UTR|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1069	Helicase C-terminal.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		ACCATCAATCCGCTCATACTT	0.572													25	30					0	0	1	0	0		T	6191747	T	T	6191747	3	4	190	1	0	0	0	0	1	0	0	0	3331	652	23	1	2742	1	CHD5	1	6191747	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1359314	6191747	243058874	8	94161											
KLHL21	9903	broad.mit.edu	37	chr1	6659390	6659390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaccacgtacagcagtcCgtccagcacagaggagctgt	10	5	12	14	2	0	1	0	0	0	1	2	2	2	2	4	2	4	4	4	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:6659390C>T	uc001aoa.2	-	2	1196	c.1144G>A	c.(1144-1146)GGA>AGA	p.G382R	KLHL21_uc001anz.1_Missense_Mutation_p.G382R|KLHL21_uc009vme.2_Missense_Mutation_p.G15R	NM_014851	NP_055666	Q9UJP4	KLH21_HUMAN	kelch-like 21	382	Kelch 2.				anaphase|cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|polar microtubule				central_nervous_system(1)	1	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;1.36e-07)|COAD - Colon adenocarcinoma(227;1.4e-05)|Kidney(185;4.95e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000528)|KIRC - Kidney renal clear cell carcinoma(229;0.000927)|STAD - Stomach adenocarcinoma(132;0.0172)|READ - Rectum adenocarcinoma(331;0.0644)		TACAGCAGTCCGTCCAGCACA	0.627													17	30					0	0	1	0	0		T	6659390	T	T	6659390	3	4	190	1	0	0	0	0	1	0	0	0	8392	661	23	1	661	1	KLHL21	1	6659390	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	467643	6659390	242591231	9	94162											
CAMTA1	23261	broad.mit.edu	37	chr1	7798362	7798362	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attggtgtgtctacagtacaGgtgactggaaatccgaaggg	11	10	14	6	1	1	1	0	1	1	0	2	3	2	2	1	4	2	1	1	4	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:7798362G>T	uc001aoi.2	+	16	4209	c.4002G>T	c.(4000-4002)CAG>CAT	p.Q1334H	CAMTA1_uc010nzv.1_Missense_Mutation_p.Q421H|CAMTA1_uc001aok.3_Missense_Mutation_p.Q377H|CAMTA1_uc001aoj.2_Missense_Mutation_p.Q290H	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1334					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		CTACAGTACAGGTGACTGGAA	0.517													10	80					0.00829132	0.0083585	1	1	0		T	7798362	T	T	7798362	3	4	190	1	0	0	0	0	1	0	0	0	2616	991	35	5	4064	5	CAMTA1	1	7798362	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1138972	7798362	241452259	10	94163											
RERE	473	broad.mit.edu	37	chr1	8557484	8557484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgctgccctcaagtacaTaaggaggtcacagtcgttaa	11	10	9	11	1	2	0	2	0	0	0	3	1	2	1	2	2	3	3	2	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:8557484T>C	uc001ape.2	-	10	1795	c.985A>G	c.(985-987)ATG>GTG	p.M329V	RERE_uc001apf.2_Missense_Mutation_p.M329V|RERE_uc010nzx.1_Missense_Mutation_p.M61V|RERE_uc001aph.1_Missense_Mutation_p.M329V	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	329	ELM2.				multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		CTCAAGTACATAAGGAGGTCA	0.458													30	46					0	0	1	0	0		C	8557484	C	C	8557484	3	2	190	1	0	0	0	0	1	0	0	0	13256	1406	49	3	3775	3	RERE	1	8557484	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	759122	8557484	240693137	11	94164											
PIK3CD	5293	broad.mit.edu	37	chr1	9780197	9780197	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcgagctgctgaaccccaCgggcactgtgcgcagtaacc	8	5	14	14	3	0	1	0	1	0	0	0	2	0	1	3	2	5	5	3	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:9780197C>T	uc001aqb.3	+	11	1575	c.1367C>T	c.(1366-1368)ACG>ATG	p.T456M	PIK3CD_uc010oaf.1_Missense_Mutation_p.T456M|PIK3CD_uc001aqe.3_Missense_Mutation_p.T421M	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	456					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding	p.T456T(1)		lung(4)|skin(2)|central_nervous_system(1)	7	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)		CTGAACCCCACGGGCACTGTG	0.642													32	35					0	0	1	0	0		T	9780197	T	T	9780197	3	4	190	1	0	0	0	0	1	0	0	0	11934	536	19	1	1401	1	PIK3CD	1	9780197	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1222713	9780197	239470424	12	94165											
CASZ1	54897	broad.mit.edu	37	chr1	10714031	10714031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgaggagcggatgtgccGgcgctcatgcttgcgcttgt	4	9	16	12	5	1	0	1	0	0	0	1	3	1	2	2	3	4	3	2	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:10714031G>A	uc001aro.2	-	11	2403	c.2083C>T	c.(2083-2085)CGG>TGG	p.R695W	CASZ1_uc001arp.1_Missense_Mutation_p.R695W|CASZ1_uc009vmx.2_Missense_Mutation_p.R719W	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	695					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CGGATGTGCCGGCGCTCATGC	0.657													22	26					0	0	1	0	0		A	10714031	A	A	10714031	3	1	190	1	0	0	0	0	1	0	0	0	2688	1115	39	1	3244	1	CASZ1	1	10714031	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	933834	10714031	238536590	13	94166											
MTOR	2475	broad.mit.edu	37	chr1	11301720	11301720	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagactgtggcatccacCtgcattgccttctgcctcct	6	12	9	14	0	1	2	0	1	1	1	3	2	3	2	5	1	3	2	5	1	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:11301720C>A	uc001asd.2	-	10	1552	c.1431G>T	c.(1429-1431)CAG>CAT	p.Q477H		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	477					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TGGCATCCACCTGCATTGCCT	0.527											OREG0013097	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	58					3.62531e-18	3.88277e-18	1	1	0		A	11301720	A	A	11301720	3	1	190	1	0	0	0	0	1	0	0	0	9972	680	24	5	6414	5	MTOR	1	11301720	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	587689	11301720	237948901	14	94167											
NPPA	4878	broad.mit.edu	37	chr1	11907422	11907422	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagcccccgcttcttcattCggctcactgagcacttgtgg	5	11	10	15	2	3	1	2	1	1	0	4	1	3	1	2	2	2	4	2	2	0	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:11907422C>T	uc001ati.2	-	2	297	c.198G>A	c.(196-198)CCG>CCA	p.P66P	CLCN6_uc010oav.1_Intron|CLCN6_uc010oaw.1_Intron|CLCN6_uc010oax.1_Intron|CLCN6_uc010oay.1_Intron|CLCN6_uc010oaz.1_Intron|CLCN6_uc010oba.1_Intron	NM_006172	NP_006163	P01160	ANF_HUMAN	natriuretic peptide precursor A preproprotein	66					cGMP biosynthetic process|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size	extracellular region	hormone activity			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00149)|all_lung(284;0.00189)|Breast(348;0.00586)|Colorectal(325;0.0062)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0556)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.04e-06)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|Kidney(185;0.000733)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTTCTTCATTCGGCTCACTGA	0.567													29	39					0	0	1	0	0		T	11907422	T	T	11907422	2	4	190	1	0	0	0	0	0	0	0	1	10610	871	31	1		1	NPPA	1	11907422	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	605702	11907422	237343199	15	94168											
PRAMEF14	729528	broad.mit.edu	37	chr1	13669140	13669140	+	Missense_Mutation	SNP	A	G	G	1	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	gcccactggtgtggcacaacAggtccttcagggcacccata	9	7	11	14	0	1	0	1	0	0	0	2	0	2	0	3	4	1	2	3	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:13669140A>G	uc009vnw.1	-	4	1229	c.1046T>C	c.(1045-1047)CTG>CCG	p.L349P		NM_001099854	NP_001093324	Q5SWL7	PRA14_HUMAN	PRAME family member 14	349											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GTGGCACAACAGGTCCTTCAG	0.542													87	95					0	0	1	0	0		G	13669140	G	G	13669140	3	3	190	1	0	0	0	0	1	0	0	0	12452	188	7	3	1531	3	PRAMEF14	1	13669140	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1761718	13669140	235581481	16	94169											
PRAMEF18	391003	broad.mit.edu	37	chr1	13695905	13695905	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccacagtccactaagaagaGggtctgaagagtggcagcaa	14	5	12	10	0	1	4	0	1	1	3	2	4	2	4	2	2	1	2	2	2	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:13695905G>T	uc009vny.1	-	3	1107	c.1060C>A	c.(1060-1062)CTC>ATC	p.L354I		NM_001099850	NP_001093320	Q5VWM3	PRA18_HUMAN	PRAME family member 18	354											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		ACTAAGAAGAGGGTCTGAAGA	0.542													27	254					5.60225e-13	5.91943e-13	1	1	0		T	13695905	T	T	13695905	3	4	190	1	0	0	0	0	1	0	0	0	12455	1000	35	5	1835	5	PRAMEF18	1	13695905	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	26765	13695905	235554716	17	94170											
PRDM2	7799	broad.mit.edu	37	chr1	14108436	14108436	+	Silent	SNP	C	T	T	0	0	0	1	1	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	actgtgcaacccaaaaatggCgtggtggttttagataactc	12	11	10	8	1	0	1	0	0	0	1	1	1	0	1	1	3	3	2	1	3	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:14108436C>T	uc001avi.2	+	8	5002	c.4146C>T	c.(4144-4146)GGC>GGT	p.G1382G	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Silent_p.G1382G|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Silent_p.G1181G|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1382	Arg/Lys-rich (basic).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		CCAAAAATGGCGTGGTGGTTT	0.433													40	49					0	0	1	0	0		T	14108436	T	T	14108436	2	4	190	1	0	0	0	0	0	0	0	1	12480	755	27	1		1	PRDM2	1	14108436	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	412531	14108436	235142185	18	94171											
AGMAT	79814	broad.mit.edu	37	chr1	15905524	15905524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtgtccgtgtgcgcatccaCgtgcagcagccccactgggc	5	7	13	16	4	0	0	0	0	0	0	2	0	2	0	4	1	4	3	4	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:15905524C>T	uc001awv.1	-	4	693	c.550G>A	c.(550-552)GTG>ATG	p.V184M	DNAJC16_uc001awu.2_Intron	NM_024758	NP_079034	Q9BSE5	SPEB_HUMAN	agmatine ureohydrolase (agmatinase) precursor	184					putrescine biosynthetic process|spermidine biosynthetic process	mitochondrion	agmatinase activity|metal ion binding			skin(1)	1		Breast(348;0.000207)|Colorectal(325;0.000258)|Lung NSC(340;0.000359)|all_lung(284;0.000486)|Renal(390;0.000518)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.93e-07)|COAD - Colon adenocarcinoma(227;3.91e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000121)|KIRC - Kidney renal clear cell carcinoma(229;0.00257)|STAD - Stomach adenocarcinoma(313;0.00734)|READ - Rectum adenocarcinoma(331;0.0649)		TGCGCATCCACGTGCAGCAGC	0.647													16	25					0	0	1	0	0		T	15905524	T	T	15905524	3	4	190	1	0	0	0	0	1	0	0	0	385	536	19	1	524	1	AGMAT	1	15905524	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1797088	15905524	233345097	19	94172											
SPATA21	374955	broad.mit.edu	37	chr1	16725948	16725950	+	In_Frame_Del	DEL	TCT	-	-																															gctcggctgcctacggaccaTcttcttgtccagctgtgggc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:16725948_16725950delTCT	uc001ayn.2	-	12	1724_1726	c.1241_1243delAGA	c.(1240-1245)AAGATG>ATG	p.K414del	SPATA21_uc001ayl.1_RNA|SPATA21_uc010occ.1_In_Frame_Del_p.K391del	NM_198546	NP_940948	Q7Z572	SPT21_HUMAN	spermatogenesis associated 21	414							calcium ion binding			ovary(2)|breast(1)	3		Colorectal(325;0.000147)|Renal(390;0.00145)|Lung NSC(340;0.00215)|Breast(348;0.00224)|all_lung(284;0.00351)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(227;1.15e-05)|BRCA - Breast invasive adenocarcinoma(304;4.2e-05)|Kidney(64;0.000183)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(313;0.0122)|READ - Rectum adenocarcinoma(331;0.0651)		CTACGGACCATCTTCTTGTCCAG	0.596													19	28	---	---	---	---						.	-	16725950	-	-	16725948	7	5	190	1	0	1	0	1	0	0	0	0	15032	1435	50	0	174	0	SPATA21	1	16725948	In_Frame_Del	DEL	TCT	TCGA-F1-6177-01A-11D-1800-08	820424	16725948	232524673	20	94173											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17983195	17983195	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacccttgctgcttaccctcGgaccagcggtgaggactggg	6	8	14	13	2	0	1	0	1	0	0	1	4	0	3	3	4	4	2	3	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:17983195G>A	uc001ban.2	+	25	3011	c.2852G>A	c.(2851-2853)CGG>CAG	p.R951Q	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.R912Q|ARHGEF10L_uc001bao.2_Missense_Mutation_p.R912Q|ARHGEF10L_uc001bap.2_Missense_Mutation_p.R907Q|ARHGEF10L_uc001baq.2_Missense_Mutation_p.R712Q|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.R724Q|ARHGEF10L_uc001bar.2_Missense_Mutation_p.R654Q|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	951					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		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)		GCTTACCCTCGGACCAGCGGT	0.652													13	25					0	0	1	0	0		A	17983195	A	A	17983195	3	1	190	1	0	0	0	0	1	0	0	0	895	1116	39	1	2946	1	ARHGEF10L	1	17983195	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1257247	17983195	231267426	21	94174											
AKR7A3	22977	broad.mit.edu	37	chr1	19609292	19609292	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gattaaaggcgtccacgacaGccggctccaggggcccttcc	8	6	12	15	3	0	0	0	0	0	0	3	2	3	0	5	4	1	1	5	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:19609292G>A	uc001bbv.1	-	7	1006	c.929C>T	c.(928-930)GCT>GTT	p.A310V		NM_012067	NP_036199	O95154	ARK73_HUMAN	aldo-keto reductase family 7, member A3	310					cellular aldehyde metabolic process	cytosol	aldo-keto reductase (NADP) activity|electron carrier activity				0		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)		GTCCACGACAGCCGGCTCCAG	0.612													15	32					0	0	1	0	0		A	19609292	A	A	19609292	3	1	190	1	0	0	0	0	1	0	0	0	476	971	34	2	70	2	AKR7A3	1	19609292	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1626097	19609292	229641329	22	94175											
TMCO4	255104	broad.mit.edu	37	chr1	20009857	20009857	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcaagagccccttctcGtcccagcctggcttggtgcg	5	8	12	16	2	1	1	0	0	1	1	3	1	2	1	5	2	4	2	5	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:20009857G>A	uc001bcn.2	-	16	1823	c.1581C>T	c.(1579-1581)GAC>GAT	p.D527D	TMCO4_uc001bcm.2_Silent_p.D358D|TMCO4_uc001bco.1_Silent_p.D527D|TMCO4_uc001bcp.1_Silent_p.D487D	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	527						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		GCCCCTTCTCGTCCCAGCCTG	0.672													11	19					0	0	1	0	0		A	20009857	A	A	20009857	2	1	190	1	0	0	0	0	0	0	0	1	16023	1136	40	1		1	TMCO4	1	20009857	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	400565	20009857	229240764	23	94176											
ALPL	249	broad.mit.edu	37	chr1	21902358	21902358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactctgaccgtggtcactgCggaccattcccacgtcttca	7	10	8	16	3	4	1	2	1	2	0	5	2	5	2	3	2	1	0	3	2	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:21902358C>T	uc001bet.2	+	10	1387	c.1130C>T	c.(1129-1131)GCG>GTG	p.A377V	ALPL_uc010odn.1_Missense_Mutation_p.A325V|ALPL_uc010odo.1_Missense_Mutation_p.A322V|ALPL_uc010odp.1_Missense_Mutation_p.A300V|ALPL_uc001beu.3_Missense_Mutation_p.A377V	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	377					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	GTGGTCACTGCGGACCATTCC	0.607													44	87					0	0	1	0	0		T	21902358	T	T	21902358	3	4	190	1	0	0	0	0	1	0	0	0	547	768	27	1	1164	1	ALPL	1	21902358	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1892501	21902358	227348263	24	94177											
RAP1GAP	5909	broad.mit.edu	37	chr1	21932596	21932596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcggggttgttgggcGcgaagctcccgctgtggctg	3	9	18	11	4	0	0	0	0	0	0	2	1	1	0	2	5	1	5	2	5	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:21932596G>A	uc001bex.2	-	18	1649	c.1391C>T	c.(1390-1392)GCG>GTG	p.A464V	RAP1GAP_uc001bev.2_Missense_Mutation_p.A464V|RAP1GAP_uc001bew.2_Missense_Mutation_p.A528V|RAP1GAP_uc001bey.2_Missense_Mutation_p.A464V	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	464					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		GTTGTTGGGCGCGAAGCTCCC	0.687													3	3					0	0	1	0	0		A	21932596	A	A	21932596	3	1	190	1	0	0	0	0	1	0	0	0	13062	1087	38	1	710	1	RAP1GAP	1	21932596	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	30238	21932596	227318025	25	94178											
HNRNPR	10236	broad.mit.edu	37	chr1	23650160	23650160	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtagatcccaaatgggtccGgccttctcaaaaaggggcac	11	7	11	12	2	1	1	1	0	1	1	4	1	3	1	3	4	0	2	3	4	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:23650160G>A	uc001bgr.3	-	6	723	c.564C>T	c.(562-564)GCC>GCT	p.A188A	HNRNPR_uc001bgp.3_Silent_p.A188A|HNRNPR_uc009vqk.2_Silent_p.A87A|HNRNPR_uc001bgs.3_Silent_p.A87A|HNRNPR_uc010odw.1_Silent_p.A150A|HNRNPR_uc010odx.1_Intron|HNRNPR_uc009vql.2_Silent_p.A49A	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	188	RRM 1.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		AAATGGGTCCGGCCTTCTCAA	0.433													45	57					0	0	1	0	0		A	23650160	A	A	23650160	2	1	190	1	0	0	0	0	0	0	0	1	7288	1103	39	1		1	HNRNPR	1	23650160	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1717564	23650160	225600461	26	94179											
PAQR7	164091	broad.mit.edu	37	chr1	26189653	26189653	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtggggtcggaggacacGaagatacgatgcaccacagg	11	5	17	8	3	0	1	0	0	0	1	1	5	0	3	1	6	2	1	1	6	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:26189653G>A	uc001bkx.2	-	2	1345	c.678C>T	c.(676-678)TTC>TTT	p.F226F		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	226	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		CGGAGGACACGAAGATACGAT	0.577													21	36					0	0	1	0	0		A	26189653	A	A	26189653	2	1	190	1	0	0	0	0	0	0	0	1	11459	1049	37	1		1	PAQR7	1	26189653	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2539493	26189653	223060968	27	94180											
CNKSR1	10256	broad.mit.edu	37	chr1	26515144	26515144	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacacatcacctgcagccaCccccacacagcgcagcccac	12	2	6	21	1	1	1	1	0	0	1	1	1	1	1	5	0	4	2	5	0	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:26515144C>T	uc001bln.3	+	19	1725	c.1667C>T	c.(1666-1668)ACC>ATC	p.T556I	CNKSR1_uc001blm.3_Missense_Mutation_p.T549I|CNKSR1_uc009vsd.2_Missense_Mutation_p.T291I|CNKSR1_uc009vse.2_Missense_Mutation_p.T291I|CNKSR1_uc001blo.2_Missense_Mutation_p.T291I|CATSPER4_uc010oey.1_5'Flank|CATSPER4_uc010oez.1_5'Flank|CATSPER4_uc009vsf.2_5'Flank	NM_006314	NP_006305	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras	556					Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			lung(1)|kidney(1)	2		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)		CCTGCAGCCACCCCCACACAG	0.647													13	26					0	0	1	0	0		T	26515144	T	T	26515144	3	4	190	1	0	0	0	0	1	0	0	0	3609	507	18	4	1720	4	CNKSR1	1	26515144	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	325491	26515144	222735477	28	94181											
CATSPER4	378807	broad.mit.edu	37	chr1	26526468	26526468	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcattggcatcaacctgttCgtcatcgtggtgaccaccaa	9	12	8	12	2	3	1	3	1	0	0	5	1	3	1	3	2	1	2	3	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:26526468C>T	uc010oez.1	+	7	906	c.906C>T	c.(904-906)TTC>TTT	p.F302F	CATSPER4_uc010oey.1_Silent_p.F124F|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	302	Helical; Name=Segment S6; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		TCAACCTGTTCGTCATCGTGG	0.517													13	19					0	0	1	0	0		T	26526468	T	T	26526468	2	4	190	1	0	0	0	0	0	0	0	1	2693	883	31	1		1	CATSPER4	1	26526468	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11324	26526468	222724153	29	94182											
AIM1L	55057	broad.mit.edu	37	chr1	26664036	26664036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgagttctcaccagcctcCgagaactctcagggacccca	9	7	8	17	1	2	2	2	1	2	1	5	4	3	3	6	1	2	1	6	1	1	1	rs141056748	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:26664036C>T	uc001bmd.3	-	8	932	c.502G>A	c.(502-504)GGA>AGA	p.G168R	AIM1L_uc001bmf.3_Missense_Mutation_p.G59R	NM_001039775	NP_001034864	Q8N1P7	AIM1L_HUMAN	absent in melanoma 1-like	168	Beta/gamma crystallin 'Greek key' 3.						sugar binding			pancreas(1)	1		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)		CACCAGCCTCCGAGAACTCTC	0.617													30	30					0	0	1	0	0		T	26664036	T	T	26664036	3	4	190	1	0	0	0	0	1	0	0	0	431	661	23	1	1396	1	AIM1L	1	26664036	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	137568	26664036	222586585	30	94183											
ARID1A	8289	broad.mit.edu	37	chr1	27059207	27059207	+	Frame_Shift_Del	DEL	C	-	-																															tgggtctcaggcatcctcagCcccctcaatgacctccagta																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:27059207delC	uc001bmv.1	+	4	2217	c.1844delC	c.(1843-1845)GCCfs	p.A615fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.A615fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.A615fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.A232fs	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	615					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		GCATCCTCAGCCCCCTCAATG	0.478			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								32	64	---	---	---	---						.	-	27059207	-	-	27059207	7	5	190	1	0	1	0	1	0	0	0	0	913	739	26	0	1858	0	ARID1A	1	27059207	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	395171	27059207	222191414	31	94184											
ARID1A	8289	broad.mit.edu	37	chr1	27097622	27097622	+	Frame_Shift_Del	DEL	A	-	-																															ttatacaggtcaacaagaacAaaaaatggcgggaacttgca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:27097622delA	uc001bmv.1	+	12	3584	c.3211delA	c.(3211-3213)AAAfs	p.K1071fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.K1071fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.K1071fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.K688fs|ARID1A_uc001bmx.1_5'UTR|ARID1A_uc009vsm.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1071	ARID.				androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.K1072fs*21(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CAACAAGAACAAAAAATGGCG	0.483			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								32	31	---	---	---	---						.	-	27097622	-	-	27097622	7	5	190	1	0	1	0	1	0	0	0	0	913	131	5	0	3257	0	ARID1A	1	27097622	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	38415	27097622	222152999	32	94185											
PIGV	55650	broad.mit.edu	37	chr1	27121381	27121381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagctgtagacaagggctacCggattgcagagggaaatgaa	14	7	14	6	1	0	3	0	1	0	2	0	5	0	5	1	3	3	4	1	3	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:27121381C>T	uc001bmz.2	+	3	1187	c.856C>T	c.(856-858)CGG>TGG	p.R286W	PIGV_uc001bmy.2_Missense_Mutation_p.R51W|PIGV_uc009vso.2_Missense_Mutation_p.R286W|PIGV_uc010ofg.1_Missense_Mutation_p.R51W|PIGV_uc001bna.2_Missense_Mutation_p.R286W	NM_017837	NP_060307	Q9NUD9	PIGV_HUMAN	phosphatidylinositol glycan class V	286	Lumenal (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	glycolipid mannosyltransferase activity			ovary(1)	1		all_cancers(24;3.93e-26)|all_epithelial(13;3.96e-23)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Breast(348;9.7e-05)|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;2.26e-54)|Epithelial(14;2.85e-53)|OV - Ovarian serous cystadenocarcinoma(117;1.91e-30)|Colorectal(126;1.31e-09)|COAD - Colon adenocarcinoma(152;3.45e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000504)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.0222)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.153)|LUSC - Lung squamous cell carcinoma(448;0.227)		CAAGGGCTACCGGATTGCAGA	0.483													111	159					0	0	1	0	0		T	27121381	T	T	27121381	3	4	190	1	0	0	0	0	1	0	0	0	11920	643	23	1	862	1	PIGV	1	27121381	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	23759	27121381	222129240	33	94186											
FAM46B	115572	broad.mit.edu	37	chr1	27332907	27332907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggatctcctcgggactgCgcgtggcgatgacacggtgc	5	8	15	13	6	1	1	0	1	1	0	4	4	1	3	1	4	2	0	1	4	0	0	rs142452050	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:27332907C>T	uc010ofj.1	-	2	978	c.806G>A	c.(805-807)CGC>CAC	p.R269H		NM_052943	NP_443175	Q96A09	FA46B_HUMAN	hypothetical protein LOC115572	269										central_nervous_system(1)	1		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)		CTCGGGACTGCGCGTGGCGAT	0.687													11	27					0	0	1	0	0		T	27332907	T	T	27332907	3	4	190	1	0	0	0	0	1	0	0	0	5580	768	27	1	475	1	FAM46B	1	27332907	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	211526	27332907	221917714	34	94187											
SMPDL3B	27293	broad.mit.edu	37	chr1	28280888	28280888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttctactgtgagaagctgCcgggtcccagcggggctggg	5	8	16	12	2	1	1	0	1	1	1	2	2	2	1	3	4	4	2	3	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:28280888C>T	uc001bpg.2	+	5	732	c.541C>T	c.(541-543)CCG>TCG	p.P181S	SMPDL3B_uc001bpf.2_Missense_Mutation_p.P181S|SMPDL3B_uc010ofq.1_5'UTR|SMPDL3B_uc010ofr.1_Missense_Mutation_p.P133S	NM_014474	NP_055289	Q92485	ASM3B_HUMAN	acid sphingomyelinase-like phosphodiesterase 3B	181					sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity			ovary(3)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000431)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;5.68e-24)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00587)|READ - Rectum adenocarcinoma(331;0.055)		TGAGAAGCTGCCGGGTCCCAG	0.597													61	96					0	0	1	0	0		T	28280888	T	T	28280888	3	4	190	1	0	0	0	0	1	0	0	0	14834	739	26	2	559	2	SMPDL3B	1	28280888	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	947981	28280888	220969733	35	94188											
MED18	54797	broad.mit.edu	37	chr1	28661359	28661359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgtcactctcctatctcGtggaattaagtgtggtagca	8	14	9	10	1	3	0	1	0	2	0	5	1	3	1	2	2	1	2	2	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:28661359G>A	uc001bpt.3	+	3	750	c.505G>A	c.(505-507)GTG>ATG	p.V169M	MED18_uc009vtg.2_Missense_Mutation_p.V169M	NM_017638	NP_060108	Q9BUE0	MED18_HUMAN	mediator complex subunit 18	169					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	identical protein binding				0		Colorectal(325;0.000147)|Lung NSC(340;0.000818)|all_lung(284;0.000996)|Renal(390;0.00357)|Breast(348;0.0174)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0557)|Ovarian(437;0.113)		OV - Ovarian serous cystadenocarcinoma(117;2.36e-22)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0141)|READ - Rectum adenocarcinoma(331;0.0649)		CTCCTATCTCGTGGAATTAAG	0.488													28	61					0	0	1	0	0		A	28661359	A	A	28661359	3	1	190	1	0	0	0	0	1	0	0	0	9454	1145	40	1	511	1	MED18	1	28661359	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	380471	28661359	220589262	36	94189											
RCC1	1104	broad.mit.edu	37	chr1	28858344	28858344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccacagcacagaacccGgcttggtgctgacactaggc	9	6	12	14	1	0	2	0	1	0	1	1	2	1	2	2	4	3	3	2	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:28858344G>A	uc001bqg.1	+	3	188	c.103G>A	c.(103-105)GGC>AGC	p.G35S	SNHG3-RCC1_uc001bqa.1_Missense_Mutation_p.G35S|SNHG3-RCC1_uc001bqb.1_Missense_Mutation_p.G35S|SNHG3-RCC1_uc001bqc.1_Missense_Mutation_p.G35S|RCC1_uc001bqe.1_Missense_Mutation_p.G52S|RCC1_uc001bqf.1_Missense_Mutation_p.G66S	NM_001269	NP_001260	P18754	RCC1_HUMAN	regulator of chromosome condensation 1 isoform	35	RCC1 1.				cell division|chromosome segregation|G1/S transition of mitotic cell cycle|mitosis|mitotic spindle organization|regulation of mitosis|regulation of S phase of mitotic cell cycle|spindle assembly|viral reproduction	condensed nuclear chromosome|cytoplasm|nuclear chromatin|nuclear membrane|nucleoplasm	histone binding|nucleosomal DNA binding|Ran guanyl-nucleotide exchange factor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000318)|all_lung(284;0.000434)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.00989)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)|Medulloblastoma(700;0.123)		Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|KIRC - Kidney renal clear cell carcinoma(1967;0.0101)|BRCA - Breast invasive adenocarcinoma(304;0.022)|READ - Rectum adenocarcinoma(331;0.0649)		CACAGAACCCGGCTTGGTGCT	0.527													21	34					0	0	1	0	0		A	28858344	A	A	28858344	3	1	190	1	0	0	0	0	1	0	0	0	13198	1116	39	1	206	1	RCC1	1	28858344	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	196985	28858344	220392277	37	94190											
YTHDF2	51441	broad.mit.edu	37	chr1	29069012	29069012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgaagctgcttggtctaCggggggtgacacagccatgc	7	8	17	9	1	1	2	0	2	1	0	1	2	1	2	1	5	5	2	1	5	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:29069012C>T	uc001brc.2	+	4	727	c.230C>T	c.(229-231)ACG>ATG	p.T77M	YTHDF2_uc001brd.2_Missense_Mutation_p.T74M|YTHDF2_uc010ofx.1_Missense_Mutation_p.T27M|YTHDF2_uc001bre.2_Missense_Mutation_p.T27M	NM_016258	NP_057342	Q9Y5A9	YTHD2_HUMAN	high glucose-regulated protein 8	77					humoral immune response					ovary(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;0.000601)|all_lung(284;0.000771)|Breast(348;0.00502)|Renal(390;0.00758)|all_neural(195;0.0227)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;5.46e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0221)|KIRC - Kidney renal clear cell carcinoma(1967;0.0296)|READ - Rectum adenocarcinoma(331;0.0649)		GCTTGGTCTACGGGGGGTGAC	0.502													83	92					0	0	1	0	0		T	29069012	T	T	29069012	3	4	190	1	0	0	0	0	1	0	0	0	17525	536	19	1	244	1	YTHDF2	1	29069012	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	210668	29069012	220181609	38	94191											
KPNA6	23633	broad.mit.edu	37	chr1	32635587	32635587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggactggagaacatcctgcGgcttggagagcaagagggca	11	6	16	8	1	0	3	0	0	0	3	1	6	1	4	1	5	3	3	1	5	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:32635587G>A	uc001bug.2	+	13	1437	c.1349G>A	c.(1348-1350)CGG>CAG	p.R450Q	KPNA6_uc001buh.2_Missense_Mutation_p.R225Q|KPNA6_uc010ogx.1_Missense_Mutation_p.R447Q|KPNA6_uc010ogy.1_Missense_Mutation_p.R455Q|KPNA6_uc009vtz.2_Missense_Mutation_p.R345Q	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	450	ARM 9.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				AACATCCTGCGGCTTGGAGAG	0.527													40	67					0	0	1	0	0		A	32635587	A	A	32635587	3	1	190	1	0	0	0	0	1	0	0	0	8450	1116	39	1	1399	1	KPNA6	1	32635587	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3566575	32635587	216615034	39	94192											
HDAC1	3065	broad.mit.edu	37	chr1	32793260	32793260	+	Silent	SNP	A	G	G	1	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	aagtatggagagtacttcccAggaactggggacctacgggt	11	8	14	8	1	0	1	0	0	0	1	1	4	1	3	2	5	3	2	2	5	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:32793260A>G	uc001bvb.1	+	6	681	c.618A>G	c.(616-618)CCA>CCG	p.P206P	HDAC1_uc010ohd.1_Silent_p.P206P|HDAC1_uc010ohe.1_Silent_p.P143P|HDAC1_uc010ohf.1_Silent_p.P177P|HDAC1_uc001bvc.1_5'Flank	NM_004964	NP_004955	Q13547	HDAC1_HUMAN	histone deacetylase 1	206	Histone deacetylase.				anti-apoptosis|blood coagulation|embryonic digit morphogenesis|epidermal cell differentiation|eyelid development in camera-type eye|fungiform papilla formation|hair follicle placode formation|histone H3 deacetylation|histone H4 deacetylation|negative regulation by host of viral transcription|negative regulation of androgen receptor signaling pathway|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|odontogenesis of dentine-containing tooth|positive regulation of cell proliferation|positive regulation of receptor biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	cytosol|NuRD complex|Sin3 complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|identical protein binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|RNA polymerase II transcription corepressor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)	3		Breast(348;0.000523)|Lung NSC(340;0.000992)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Lung SC(1967;0.113)		KIRC - Kidney renal clear cell carcinoma(1967;0.138)	Vorinostat(DB02546)	AGTACTTCCCAGGAACTGGGG	0.517													18	31					0	0	1	0	0		G	32793260	G	G	32793260	2	3	190	1	0	0	0	0	0	0	0	1	7020	175	7	3		3	HDAC1	1	32793260	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	157673	32793260	216457361	40	94193											
TSSK3	81629	broad.mit.edu	37	chr1	32829430	32829430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggccatccgctactgccatgGctgtggtgtggcccaccggg	4	8	15	14	2	0	0	0	0	0	0	1	0	1	0	5	5	2	2	5	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:32829430G>A	uc001bvf.2	+	2	821	c.380G>A	c.(379-381)GGC>GAC	p.G127D	uc001bve.1_5'Flank	NM_052841	NP_443073	Q96PN8	TSSK3_HUMAN	testis-specific serine kinase 3	127	Protein kinase.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.17)|Breast(348;0.212)				TACTGCCATGGCTGTGGTGTG	0.592													33	37					0	0	1	0	0		A	32829430	A	A	32829430	3	1	190	1	0	0	0	0	1	0	0	0	16696	1203	42	2	386	2	TSSK3	1	32829430	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	36170	32829430	216421191	41	94194											
TRIM62	55223	broad.mit.edu	37	chr1	33612828	33612828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgaacgttcttgccattggCgtggctctggccagggctga	5	11	14	11	2	2	2	0	2	2	0	2	2	2	2	2	4	2	3	2	4	1	3	rs61758110		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:33612828C>T	uc001bxb.2	-	5	2016	c.1378G>A	c.(1378-1380)GCC>ACC	p.A460T		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	460	B30.2/SPRY.					intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				TTGCCATTGGCGTGGCTCTGG	0.567													29	63					0	0	1	0	0		T	33612828	T	T	33612828	3	4	190	1	0	0	0	0	1	0	0	0	16563	768	27	1	53	1	TRIM62	1	33612828	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	783398	33612828	215637793	42	94195											
ZSCAN20	7579	broad.mit.edu	37	chr1	33945006	33945006	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatccaaactctgggagaaGgaccgtggctctgtctctgg	9	9	13	10	1	3	1	0	0	3	1	5	4	4	2	2	4	1	1	2	4	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:33945006G>T	uc001bxj.3	+	2	284	c.117G>T	c.(115-117)AAG>AAT	p.K39N	ZSCAN20_uc001bxk.2_Missense_Mutation_p.K39N|ZSCAN20_uc009vui.2_Missense_Mutation_p.K39N	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	39					viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				TCTGGGAGAAGGACCGTGGCT	0.577													27	39					6.32553e-13	6.67894e-13	1	1	0		T	33945006	T	T	33945006	3	4	190	1	0	0	0	0	1	0	0	0	18257	991	35	5	119	5	ZSCAN20	1	33945006	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	332178	33945006	215305615	43	94196											
CSMD2	114784	broad.mit.edu	37	chr1	33999485	33999485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggtagcctttttgacaaCggaagaggactgtgcttcca	10	10	12	9	1	0	2	0	1	0	1	1	4	1	4	2	3	3	3	2	3	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:33999485C>T	uc001bxn.1	-	62	9499	c.9470G>A	c.(9469-9471)CGT>CAT	p.R3157H	CSMD2_uc001bxm.1_Missense_Mutation_p.R3301H	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3157	Sushi 25.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TTTTTGACAACGGAAGAGGAC	0.562													19	26					0	0	1	0	0		T	33999485	T	T	33999485	3	4	190	1	0	0	0	0	1	0	0	0	3948	536	19	1	1025	1	CSMD2	1	33999485	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	54479	33999485	215251136	44	94197											
MRPS15	64960	broad.mit.edu	37	chr1	36929762	36929762	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcacttcgaggctgcaggcCccactggttgaaaggaaact	10	8	11	12	1	1	1	1	1	0	0	2	3	1	2	2	4	2	3	2	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:36929762C>A	uc001cas.2	-	1	279	c.115G>T	c.(115-117)GGC>TGC	p.G39C		NM_031280	NP_112570	P82914	RT15_HUMAN	mitochondrial ribosomal protein S15 precursor	39				GGGSAKFPFNQWGLQPRSLLLQAARGYVVRKPAQSRLDDDP PPSTLLKDYQNV -> AVGAPSFLSTSGACSLEVSSSRPRA DMSSGNQPSLGWMMTHLLLRCSKTTRMS (in Ref. 2; AAG44697).	translation	mitochondrial small ribosomal subunit|nuclear membrane	structural constituent of ribosome			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGCTGCAGGCCCCACTGGTTG	0.612													59	132					2.2129e-31	2.41157e-31	1	1	0		A	36929762	A	A	36929762	3	1	190	1	0	0	0	0	1	0	0	0	9843	623	22	5	690	5	MRPS15	1	36929762	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2930277	36929762	212320859	45	94198											
GRIK3	2899	broad.mit.edu	37	chr1	37307454	37307454	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaggatgtgggccagctcCtttagcaggtcgatgcagta	9	9	13	10	1	0	0	0	0	0	0	2	2	1	1	3	3	3	4	3	3	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:37307454C>A	uc001caz.2	-	10	1548	c.1413G>T	c.(1411-1413)AAG>AAT	p.K471N	GRIK3_uc001cba.1_Missense_Mutation_p.K471N	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	471	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GGGCCAGCTCCTTTAGCAGGT	0.567													51	102					4.25531e-23	4.60376e-23	1	1	0		A	37307454	A	A	37307454	3	1	190	1	0	0	0	0	1	0	0	0	6791	680	24	5	1374	5	GRIK3	1	37307454	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	377692	37307454	211943167	46	94199											
GRIK3	2899	broad.mit.edu	37	chr1	37337814	37337814	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	tgaggatctgggccgccataGtgtggctgcagtcgaagata	9	9	15	8	2	1	2	0	1	1	1	2	4	1	3	2	3	1	2	2	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:37337814G>C	uc001caz.2	-	4	842	c.707C>G	c.(706-708)ACT>AGT	p.T236S	GRIK3_uc001cba.1_Missense_Mutation_p.T236S	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	236	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GGCCGCCATAGTGTGGCTGCA	0.602													13	15					0	0	1	0	0		C	37337814	C	C	37337814	3	2	190	1	0	0	0	0	1	0	0	0	6791	1029	36	5	2104	5	GRIK3	1	37337814	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	30360	37337814	211912807	47	94200											
C1orf109	54955	broad.mit.edu	37	chr1	38152051	38152051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcaatgccaactgtgtctgCgtgttgctcatagatctgaa	10	13	9	9	1	4	2	2	1	2	1	4	2	4	2	1	0	4	2	1	0	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:38152051C>T	uc001cbp.2	-	3	539	c.349G>A	c.(349-351)GCA>ACA	p.A117T	C1orf109_uc001cbn.2_5'Flank|C1orf109_uc010oig.1_Missense_Mutation_p.A180T|C1orf109_uc001cbo.2_Missense_Mutation_p.A179T|C1orf109_uc001cbq.1_Silent_p.T99T	NM_017850	NP_060320	Q9NX04	CA109_HUMAN	hypothetical protein LOC54955	117											0		Myeloproliferative disorder(586;0.0393)				ACTGTGTCTGCGTGTTGCTCA	0.512													10	22					0	0	1	0	0		T	38152051	T	T	38152051	3	4	190	1	0	0	0	0	1	0	0	0	1985	768	27	1	274	1	C1orf109	1	38152051	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	814237	38152051	211098570	48	94201											
MACF1	23499	broad.mit.edu	37	chr1	39812823	39812823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acattttggaacagactgccGctcaggtggatgccttgcag	9	10	12	10	1	1	1	1	0	0	1	1	3	1	3	2	3	4	2	2	3	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:39812823G>A	uc010oiu.1	+	5	6207	c.6076G>A	c.(6076-6078)GCT>ACT	p.A2026T	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	3591					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			ACAGACTGCCGCTCAGGTGGA	0.542													15	38					0	0	1	0	0		A	39812823	A	A	39812823	3	1	190	1	0	0	0	0	1	0	0	0	9162	1087	38	1	10863	1	MACF1	1	39812823	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1660772	39812823	209437798	49	94202											
MFSD2A	84879	broad.mit.edu	37	chr1	40434360	40434361	+	Frame_Shift_Del	DEL	TG	-	-																															gggcctgctgctcttcaaaaTgtaccccattgatgaggaga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:40434360_40434361delTG	uc001cev.2	+	13	1692_1693	c.1511_1512delTG	c.(1510-1512)ATGfs	p.M504fs	MFSD2A_uc010ojb.1_Frame_Shift_Del_p.M452fs|MFSD2A_uc001ceu.2_Frame_Shift_Del_p.M491fs|MFSD2A_uc010ojc.1_Frame_Shift_Del_p.M335fs|MFSD2A_uc009vvy.2_RNA|MFSD2A_uc001cex.2_Frame_Shift_Del_p.M155fs	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	504					transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						CTCTTCAAAATGTACCCCATTG	0.584													51	81	---	---	---	---						.	-	40434361	-	-	40434360	7	5	190	1	0	1	0	1	0	0	0	0	9548	1464	51	0	1561	0	MFSD2A	1	40434360	Frame_Shift_Del	DEL	TG	TCGA-F1-6177-01A-11D-1800-08	621537	40434360	208816261	50	94203											
LEPRE1	64175	broad.mit.edu	37	chr1	43215907	43215907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtaggaaaagtagaggggcGtatccaggcggaagtaggac	14	5	17	5	2	0	1	0	0	0	1	1	4	1	4	1	6	0	4	1	6	7	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:43215907G>A	uc001chv.2	-	11	1783	c.1670C>T	c.(1669-1671)ACG>ATG	p.T557M	LEPRE1_uc001chw.2_Missense_Mutation_p.T557M|LEPRE1_uc001chx.3_Missense_Mutation_p.T557M	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	557					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	GTAGAGGGGCGTATCCAGGCG	0.557													11	14					0	0	1	0	0		A	43215907	A	A	43215907	3	1	190	1	0	0	0	0	1	0	0	0	8745	1145	40	1	579	1	LEPRE1	1	43215907	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2781547	43215907	206034714	51	94204											
CDC20	991	broad.mit.edu	37	chr1	43828634	43828634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctccaggtcacacatcccGggtcctgagtctgaccatga	8	9	10	14	1	2	3	1	3	1	0	5	3	5	3	4	2	1	1	4	2	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:43828634G>A	uc001cix.2	+	11	1435	c.1334G>A	c.(1333-1335)CGG>CAG	p.R445Q	CDC20_uc001ciy.2_Missense_Mutation_p.R445Q	NM_001255	NP_001246	Q12834	CDC20_HUMAN	cell division cycle 20	445	WD 7.				activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	cytosol|nucleoplasm|spindle	enzyme binding|protein C-terminus binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CACACATCCCGGGTCCTGAGT	0.547													37	57					0	0	1	0	0		A	43828634	A	A	43828634	3	1	190	1	0	0	0	0	1	0	0	0	3062	1116	39	1	1372	1	CDC20	1	43828634	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	612727	43828634	205421987	52	94205											
KIAA0467	23334	broad.mit.edu	37	chr1	43895417	43895417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgagtttcagagcaccCgtgtccctggcattccagac	8	9	10	14	1	1	3	1	1	0	2	3	3	3	3	4	1	2	3	4	1	0	2	rs150269825	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:43895417C>T	uc001cjk.1	+	14	1975	c.1513C>T	c.(1513-1515)CGT>TGT	p.R505C		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1404						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCAGAGCACCCGTGTCCCTGG	0.542													35	36					0	0	1	0	0		T	43895417	T	T	43895417	3	4	190	1	0	0	0	0	1	0	0	0	8194	652	23	1	1559	1	KIAA0467	1	43895417	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	66783	43895417	205355204	53	94206											
PTPRF	5792	broad.mit.edu	37	chr1	44071951	44071951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcggagaggagcagcggcGgcggcggcggcaggcagaac	9	0	22	10	6	0	2	0	0	0	2	0	4	0	3	0	9	3	3	0	9	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:44071951G>A	uc001cjr.2	+	20	3864	c.3524G>A	c.(3523-3525)CGG>CAG	p.R1175Q	PTPRF_uc001cjs.2_Missense_Mutation_p.R1166Q|PTPRF_uc001cju.2_Missense_Mutation_p.R553Q|PTPRF_uc009vwt.2_Missense_Mutation_p.R735Q|PTPRF_uc001cjv.2_Missense_Mutation_p.R635Q|PTPRF_uc001cjw.2_Missense_Mutation_p.R401Q	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1175	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GAGCAGCGGCGGCGGCGGCGG	0.637													55	60					0	0	1	0	0		A	44071951	A	A	44071951	3	1	190	1	0	0	0	0	1	0	0	0	12826	1116	39	1	3594	1	PTPRF	1	44071951	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	176534	44071951	205178670	54	94207											
ST3GAL3	6487	broad.mit.edu	37	chr1	44303915	44303915	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgaattagccaccaagtaCgcaaacttttcagagggagc	13	8	10	10	1	1	2	1	1	0	1	1	3	1	3	2	1	4	3	2	1	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:44303915C>T	uc001ckc.2	+	5	411	c.234C>T	c.(232-234)TAC>TAT	p.Y78Y	ST3GAL3_uc009vwu.1_RNA|ST3GAL3_uc010okj.1_RNA|ST3GAL3_uc001cjz.2_Silent_p.Y93Y|ST3GAL3_uc001cka.2_Silent_p.Y62Y|ST3GAL3_uc001ckb.2_Silent_p.Y147Y|ST3GAL3_uc001ckd.2_Silent_p.Y132Y|ST3GAL3_uc001cke.2_Silent_p.Y62Y|ST3GAL3_uc001ckf.2_Silent_p.Y116Y|ST3GAL3_uc001ckg.2_Silent_p.Y78Y|ST3GAL3_uc001ckh.2_Silent_p.Y93Y|ST3GAL3_uc001cki.2_Silent_p.Y78Y|ST3GAL3_uc009vwv.2_Silent_p.Y78Y|ST3GAL3_uc001ckj.2_RNA|ST3GAL3_uc009vww.2_RNA|ST3GAL3_uc001ckk.2_Intron|ST3GAL3_uc009vwy.2_Translation_Start_Site|ST3GAL3_uc009vwx.2_RNA|ST3GAL3_uc001ckm.2_Silent_p.Y77Y|ST3GAL3_uc001ckl.2_Silent_p.Y78Y|ST3GAL3_uc009vwz.2_Translation_Start_Site|ST3GAL3_uc001ckn.2_RNA|ST3GAL3_uc001ckp.2_Silent_p.Y77Y|ST3GAL3_uc001cko.2_Silent_p.Y62Y|ST3GAL3_uc009vxa.2_Intron|ST3GAL3_uc001ckq.2_Silent_p.Y62Y|ST3GAL3_uc001ckr.2_Intron|ST3GAL3_uc009vxb.2_Silent_p.Y62Y	NM_006279	NP_006270	Q11203	SIAT6_HUMAN	sialyltransferase 6 isoform j	78	Lumenal (Potential).				protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)				CCACCAAGTACGCAAACTTTT	0.507													96	153					0	0	1	0	0		T	44303915	T	T	44303915	2	4	190	1	0	0	0	0	0	0	0	1	15241	547	19	1		1	ST3GAL3	1	44303915	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	231964	44303915	204946706	55	94208											
IPO13	9670	broad.mit.edu	37	chr1	44415209	44415209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggcagctactgcagcccGacaaggtaccagagatccag	11	5	12	13	1	0	1	0	0	0	1	1	3	1	1	3	2	5	5	3	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:44415209G>A	uc001ckx.2	+	2	1000	c.205G>A	c.(205-207)GAC>AAC	p.D69N		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	69	Importin N-terminal.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				ACTGCAGCCCGACAAGGTACC	0.537													21	27					0	0	1	0	0		A	44415209	A	A	44415209	3	1	190	1	0	0	0	0	1	0	0	0	7810	1058	37	1	211	1	IPO13	1	44415209	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	111294	44415209	204835412	56	94209											
DMAP1	55929	broad.mit.edu	37	chr1	44685868	44685868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagggggccctgccacaccaGcatcaggcccaggcccggcc	7	3	13	18	1	1	0	1	0	0	0	1	0	1	0	6	5	2	1	6	5	1	1	rs140268980		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:44685868G>A	uc001clq.1	+	10	1311	c.1231G>A	c.(1231-1233)GCA>ACA	p.A411T	DMAP1_uc001clr.1_Missense_Mutation_p.A411T|DMAP1_uc001cls.1_Missense_Mutation_p.A411T|DMAP1_uc010oku.1_Missense_Mutation_p.A401T	NM_001034024	NP_001029196	Q9NPF5	DMAP1_HUMAN	DNA methyltransferase 1 associated protein 1	411					DNA methylation|histone H2A acetylation|histone H4 acetylation|negative regulation of transcription, DNA-dependent|regulation of growth|transcription, DNA-dependent	NuA4 histone acetyltransferase complex	DNA binding|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					TGCCACACCAGCATCAGGCCC	0.657											OREG0013438	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	7					0	0	1	0	0		A	44685868	A	A	44685868	3	1	190	1	0	0	0	0	1	0	0	0	4582	971	34	2	1265	2	DMAP1	1	44685868	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	270659	44685868	204564753	57	94210											
TESK2	10420	broad.mit.edu	37	chr1	45812673	45812673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcggggaagatagtccGgatcggcctggatgcgggcg	6	7	19	9	5	0	1	0	0	0	1	2	4	1	4	2	6	2	0	2	6	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:45812673G>A	uc001cns.1	-	8	1173	c.770C>T	c.(769-771)CCG>CTG	p.P257L	TESK2_uc009vxr.1_Missense_Mutation_p.P257L|TESK2_uc010olo.1_Missense_Mutation_p.P174L|TESK2_uc009vxs.1_Missense_Mutation_p.P49L	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	257	Protein kinase.				actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					AAGATAGTCCGGATCGGCCTG	0.537													25	45					0	0	1	0	0		A	45812673	A	A	45812673	3	1	190	1	0	0	0	0	1	0	0	0	15793	1116	39	1	961	1	TESK2	1	45812673	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1126805	45812673	203437948	58	94211											
NRD1	4898	broad.mit.edu	37	chr1	52272560	52272560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tattctgtttccgggcaatcGaaagccttcaacgtaaagtc	11	12	8	10	3	2	0	1	0	1	0	5	1	3	0	2	1	2	3	2	1	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:52272560G>A	uc001ctc.3	-	20	2542	c.2220C>T	c.(2218-2220)TTC>TTT	p.F740F	NRD1_uc009vzb.2_Silent_p.F435F|NRD1_uc001ctd.3_Silent_p.F672F|NRD1_uc001cte.2_Silent_p.F608F|NRD1_uc001ctf.2_Silent_p.F672F|NRD1_uc010ong.1_RNA	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	671					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						CCGGGCAATCGAAAGCCTTCA	0.378													22	96					0	0	1	0	0		A	52272560	A	A	52272560	2	1	190	1	0	0	0	0	0	0	0	1	10664	1049	37	1		1	NRD1	1	52272560	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6459887	52272560	196978061	59	94212											
NRD1	4898	broad.mit.edu	37	chr1	52285521	52285521	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaaatggatccgttaaatgGccaaagtttggtctgggtaa	12	12	11	6	1	2	0	1	0	1	0	3	1	3	1	2	4	0	3	2	4	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:52285521G>A	uc001ctc.3	-	11	1768	c.1446C>T	c.(1444-1446)GGC>GGT	p.G482G	NRD1_uc009vzb.2_Silent_p.G177G|NRD1_uc001ctd.3_Silent_p.G414G|NRD1_uc001cte.2_Silent_p.G350G|NRD1_uc001ctf.2_Silent_p.G414G|NRD1_uc010ong.1_RNA|NRD1_uc009vzc.1_Silent_p.G282G	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	413					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						CCGTTAAATGGCCAAAGTTTG	0.328													13	20					0	0	1	0	0		A	52285521	A	A	52285521	2	1	190	1	0	0	0	0	0	0	0	1	10664	1190	42	2		2	NRD1	1	52285521	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	12961	52285521	196965100	60	94213											
RAB3B	5865	broad.mit.edu	37	chr1	52403065	52403065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttgtgatggtccggtacCgctcctgcccagctgtgtcc	3	12	12	14	2	0	1	0	1	0	0	3	1	3	1	5	2	3	4	5	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:52403065C>T	uc001cth.2	-	3	373	c.248G>A	c.(247-249)CGG>CAG	p.R83Q		NM_002867	NP_002858	P20337	RAB3B_HUMAN	RAB3B, member RAS oncogene family	83					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(1)	1						GGTCCGGTACCGCTCCTGCCC	0.468													55	83					0	0	1	0	0		T	52403065	T	T	52403065	3	4	190	1	0	0	0	0	1	0	0	0	12957	652	23	1	423	1	RAB3B	1	52403065	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	117544	52403065	196847556	61	94214											
TACSTD2	4070	broad.mit.edu	37	chr1	59042093	59042093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgcaggggttctccgcgcaCgcgcaagtccaggccgccgc	5	5	14	17	6	1	0	0	0	1	0	3	0	2	0	4	3	1	4	4	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:59042093C>T	uc001cyz.3	-	1	1074	c.736G>A	c.(736-738)GTG>ATG	p.V246M		NM_002353	NP_002344	P09758	TACD2_HUMAN	tumor-associated calcium signal transducer 2	246	Extracellular (Potential).				cell proliferation|cell surface receptor linked signaling pathway|visual perception	cytosol|integral to plasma membrane	receptor activity				0	all_cancers(7;6.54e-05)					TCTCCGCGCACGCGCAAGTCC	0.577													7	14					0	0	1	0	0		T	59042093	T	T	59042093	3	4	190	1	0	0	0	0	1	0	0	0	15533	536	19	1	239	1	TACSTD2	1	59042093	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6639028	59042093	190208528	62	94215											
CACHD1	57685	broad.mit.edu	37	chr1	65145313	65145313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattaaacatgattaaaagcGcccctgtgggtcctgtggct	10	11	10	10	1	0	1	0	1	0	0	1	1	1	1	3	2	2	1	3	2	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:65145313G>A	uc001dbo.1	+	24	3232	c.3127G>A	c.(3127-3129)GCC>ACC	p.A1043T	CACHD1_uc001dbp.1_Missense_Mutation_p.A798T|CACHD1_uc001dbq.1_Missense_Mutation_p.A798T|CACHD1_uc010opa.1_Missense_Mutation_p.A287T	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	1094	Extracellular (Potential).				calcium ion transport	integral to membrane				ovary(2)	2						GATTAAAAGCGCCCCTGTGGG	0.493													34	45					0	0	1	0	0		A	65145313	A	A	65145313	3	1	190	1	0	0	0	0	1	0	0	0	2540	1087	38	1	3221	1	CACHD1	1	65145313	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6103220	65145313	184105308	63	94216											
WLS	79971	broad.mit.edu	37	chr1	68564384	68564384	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaacaattcttgataaagTtccgaaacaaacaaagcaca	19	8	5	9	1	1	2	0	2	1	0	2	3	2	2	1	0	4	2	1	0	7	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:68564384T>G	uc001dee.2	-	12	1834	c.1563A>C	c.(1561-1563)GAA>GAC	p.E521D	uc001deb.1_RNA|uc001dec.1_RNA	NM_001002292	NP_001002292	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 2	Error:Variant_position_missing_in_Q5T9L3_after_alignment					multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						cttgataaagttccgaaacaa	0													10	66					0	0	1	0	0		G	68564384	G	G	68564384	3	3	190	1	0	0	0	0	1	0	0	0	17402	1722	60	5	72	5	WLS	1	68564384	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3419071	68564384	180686237	64	94217											
PTGER3	5733	broad.mit.edu	37	chr1	71513233	71513233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gcgggtgcagaagggggcatCccctccgtagccccgggtct	5	6	16	14	3	1	1	0	0	1	1	3	1	3	1	5	4	2	3	5	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:71513233C>T	uc001dfg.1	-	1	259	c.28G>A	c.(28-30)GAT>AAT	p.D10N	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Missense_Mutation_p.D10N|PTGER3_uc001dfl.1_Missense_Mutation_p.D10N|PTGER3_uc009wbm.1_Missense_Mutation_p.D10N|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Missense_Mutation_p.D10N|PTGER3_uc009wbn.1_Missense_Mutation_p.D10N|PTGER3_uc009wbo.2_Missense_Mutation_p.D10N|PTGER3_uc001dfo.2_Missense_Mutation_p.D10N|PTGER3_uc001dfp.1_Missense_Mutation_p.D10N|PTGER3_uc001dfq.2_Missense_Mutation_p.D10N|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	10	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	AAGGGGGCATCCCCTCCGTAG	0.721													3	3					0	0	1	0	0		T	71513233	T	T	71513233	3	4	190	1	0	0	0	0	1	0	0	0	12767	855	30	4	1463	4	PTGER3	1	71513233	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2948849	71513233	177737388	65	94218											
TNNI3K	51086	broad.mit.edu	37	chr1	74954873	74954873	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttcttttttctatttacagGgaagacccgaattttctgaa	10	17	7	7	1	3	2	0	1	3	1	3	4	3	3	1	1	1	1	1	1	5	9			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:74954873G>C	uc001dgf.1	+	22	2173	c.2122G>C	c.(2122-2124)GGA>CGA	p.G708R	TNNI3K_uc001dge.1_Missense_Mutation_p.G809R	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	708	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						CTATTTACAGGGAAGACCCGA	0.338													13	38					0	0	1	0	0		C	74954873	C	C	74954873	3	2	190	1	0	0	0	0	1	0	0	0	16354	1246	43	5	2563	5	TNNI3K	1	74954873	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3441640	74954873	174295748	66	94219											
HFM1	164045	broad.mit.edu	37	chr1	91843980	91843980	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatcaatgagaaacagtcGaaccagctgaaccaaagagt	17	6	8	10	1	2	3	2	2	0	2	3	5	2	3	2	0	4	1	2	0	5	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:91843980G>A	uc001doa.3	-	10	1316	c.1216C>T	c.(1216-1218)CGA>TGA	p.R406*	HFM1_uc010osu.1_Nonsense_Mutation_p.R85*|HFM1_uc010osv.1_Nonsense_Mutation_p.R90*|HFM1_uc001doc.1_Nonsense_Mutation_p.R406*	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	406	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		AGAAACAGTCGAACCAGCTGA	0.348													48	59					0	0	1	0	0		A	91843980	A	A	91843980	4	1	190	1	0	0	0	0	0	1	0	0	7099	1066	37	1	3211	1	HFM1	1	91843980	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	16889107	91843980	157406641	67	94220											
CDC7	8317	broad.mit.edu	37	chr1	91989926	91989926	+	Silent	SNP	T	C	C	0	1	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	gataaacttctagatctaaaTccagcttcaagaataacagc	17	10	5	9	0	3	2	1	0	2	2	4	3	4	2	1	0	4	1	1	0	8	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:91989926T>C	uc001doe.2	+	12	1824	c.1659T>C	c.(1657-1659)AAT>AAC	p.N553N	CDC7_uc001dof.2_Silent_p.N553N|CDC7_uc010osw.1_Silent_p.N525N|CDC7_uc009wdc.2_Silent_p.N553N|CDC7_uc009wdd.2_Silent_p.N196N	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	553	Protein kinase.				cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		TAGATCTAAATCCAGCTTCAA	0.299													12	144					0	0	1	0	0		C	91989926	C	C	91989926	2	2	190	1	0	0	0	0	0	0	0	1	3087	1432	50	3		3	CDC7	1	91989926	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	145946	91989926	157260695	68	94221											
TMEM56	148534	broad.mit.edu	37	chr1	95657235	95657235	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattatggcttcatgtattcCgtgtatggaacagaacccta	11	13	8	9	1	1	1	1	0	0	1	2	2	2	2	2	2	2	3	2	2	6	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:95657235C>T	uc001drb.2	+	7	894	c.603C>T	c.(601-603)TCC>TCT	p.S201S	RWDD3_uc001drd.3_Intron|uc001dre.1_Intron|TMEM56_uc001drc.2_Silent_p.S201S	NM_152487	NP_689700	Q96MV1	TMM56_HUMAN	transmembrane protein 56	201	TLC.					integral to membrane					0		all_lung(203;0.0232)|Lung NSC(277;0.0739)		all cancers(265;0.133)		TCATGTATTCCGTGTATGGAA	0.393													77	102					0	0	1	0	0		T	95657235	T	T	95657235	2	4	190	1	0	0	0	0	0	0	0	1	16208	639	23	1		1	TMEM56	1	95657235	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3667309	95657235	153593386	69	94222											
LPPR5	163404	broad.mit.edu	37	chr1	99470207	99470207	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagagcatgctgctggtgagCgccgcgggcagcaggggcat	7	6	18	10	3	0	2	0	1	0	1	0	2	0	2	1	4	5	6	1	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:99470207C>T	uc001dsb.2	-	1	243	c.21G>A	c.(19-21)GCG>GCA	p.A7A	uc001dsd.1_Intron|LPPR5_uc001dsc.2_Silent_p.A7A	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1	7						integral to membrane	hydrolase activity				0						TGCTGGTGAGCGCCGCGGGCA	0.577													19	31					0	0	1	0	0		T	99470207	T	T	99470207	2	4	190	1	0	0	0	0	0	0	0	1	8946	755	27	1		1	LPPR5	1	99470207	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3812972	99470207	149780414	70	94223											
HIAT1	64645	broad.mit.edu	37	chr1	100547609	100547609	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttggagcctgttcagtactGctggctctgcttgttgcctt	3	17	11	10	0	2	0	1	0	1	0	2	1	2	1	2	2	5	6	2	2	1	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:100547609G>A	uc001dst.2	+	12	1317	c.1317G>A	c.(1315-1317)CTG>CTA	p.L439L		NM_033055	NP_149044	Q96MC6	HIAT1_HUMAN	hippocampus abundant transcript 1	439	Helical; Name=12; (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity				0		all_epithelial(167;2.96e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0832)|all cancers(265;0.136)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		GTTCAGTACTGCTGGCTCTGC	0.428													7	75					0	0	1	0	0		A	100547609	A	A	100547609	2	1	190	1	0	0	0	0	0	0	0	1	7113	1306	46	2		2	HIAT1	1	100547609	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1077402	100547609	148703012	71	94224											
WDR47	22911	broad.mit.edu	37	chr1	109553687	109553687	+	Silent	SNP	A	G	G	1	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	aggtctgaaattctcttatcAtgactggttagtccacaggt	10	14	9	8	0	3	2	1	2	2	0	5	2	4	2	1	3	0	1	1	3	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:109553687A>G	uc001dwj.2	-	5	1357	c.981T>C	c.(979-981)CAT>CAC	p.H327H	WDR47_uc001dwl.2_Silent_p.H334H|WDR47_uc001dwi.2_Silent_p.H327H|WDR47_uc001dwk.2_Silent_p.H299H|WDR47_uc010ovf.1_Silent_p.H254H	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	327										ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		TTCTCTTATCATGACTGGTTA	0.443													136	170					0	0	1	0	0		G	109553687	G	G	109553687	2	3	190	1	0	0	0	0	0	0	0	1	17326	214	8	3		3	WDR47	1	109553687	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	9006078	109553687	139696934	72	94225											
GPR61	83873	broad.mit.edu	37	chr1	110086476	110086476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccccagaccaccccacacCggacgtttgggggagggaaa	10	3	12	16	2	0	1	0	0	0	1	0	4	0	4	7	4	0	1	7	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:110086476C>T	uc001dxy.2	+	2	1515	c.832C>T	c.(832-834)CGG>TGG	p.R278W		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	278	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		CACCCCACACCGGACGTTTGG	0.632													39	49					0	0	1	0	0		T	110086476	T	T	110086476	3	4	190	1	0	0	0	0	1	0	0	0	6717	643	23	1	834	1	GPR61	1	110086476	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	532789	110086476	139164145	73	94226											
KCNC4	3749	broad.mit.edu	37	chr1	110768707	110768707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggagcgccgggccctgcgaCgctccaccactcgagacaga	9	3	13	16	5	0	2	0	0	0	2	2	5	1	3	4	2	2	1	4	2	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:110768707C>T	uc001dzh.2	+	3	1783	c.1726C>T	c.(1726-1728)CGC>TGC	p.R576C	KCNC4_uc009wfr.2_Missense_Mutation_p.R576C|KCNC4_uc001dzg.2_Missense_Mutation_p.R576C|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	576	Cytoplasmic (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		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)		GGCCCTGCGACGCTCCACCAC	0.647													20	31					0	0	1	0	0		T	110768707	T	T	110768707	3	4	190	1	0	0	0	0	1	0	0	0	8033	536	19	1	1870	1	KCNC4	1	110768707	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	682231	110768707	138481914	74	94227											
SLC16A4	9122	broad.mit.edu	37	chr1	110924293	110924293	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgggtagaagtcccatagtCacacaaagaaaaggaatact	17	6	9	9	1	1	2	1	0	0	2	2	3	2	3	2	2	1	1	2	2	8	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:110924293C>T	uc001dzo.1	-	4	527	c.345G>A	c.(343-345)GTG>GTA	p.V115V	SLC16A4_uc009wfs.1_Intron|SLC16A4_uc001dzp.1_Silent_p.V115V|SLC16A4_uc010ovy.1_Silent_p.V53V|SLC16A4_uc001dzq.1_Silent_p.V53V|SLC16A4_uc010ovz.1_Intron	NM_004696	NP_004687	O15374	MOT5_HUMAN	solute carrier family 16, member 4	115	Helical; (Potential).					integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			ovary(3)	3		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	GTCCCATAGTCACACAAAGAA	0.328													11	27					0	0	1	0	0		T	110924293	T	T	110924293	2	4	190	1	0	0	0	0	0	0	0	1	14435	813	29	4		4	SLC16A4	1	110924293	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	155586	110924293	138326328	75	94228											
PHTF1	10745	broad.mit.edu	37	chr1	114253067	114253067	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgacatgttgaggcttcGagagccaccactcacacccg	9	9	9	14	2	2	3	1	2	1	1	3	4	2	3	3	1	1	2	3	1	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:114253067G>A	uc009wgp.1	-	10	1530	c.1078C>T	c.(1078-1080)CGA>TGA	p.R360*	PHTF1_uc001edn.2_Nonsense_Mutation_p.R360*|PHTF1_uc001edm.2_Nonsense_Mutation_p.R117*|PHTF1_uc001edo.1_Nonsense_Mutation_p.R117*	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	360						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTGAGGCTTCGAGAGCCACCA	0.428													15	31					0	0	1	0	0		A	114253067	A	A	114253067	4	1	190	1	0	0	0	0	0	1	0	0	11881	1066	37	1	1246	1	PHTF1	1	114253067	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3328774	114253067	134997554	76	94229											
PHTF1	10745	broad.mit.edu	37	chr1	114254720	114254720	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagacaccccattacccaAacgcctaaaagcctcctaca	15	6	3	17	1	1	1	1	0	0	1	2	1	2	1	6	0	4	0	6	0	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:114254720A>G	uc009wgp.1	-	8	1251	c.799T>C	c.(799-801)TTG>CTG	p.L267L	PHTF1_uc001edn.2_Silent_p.L267L|PHTF1_uc001edm.2_Silent_p.L24L|PHTF1_uc001edo.1_Silent_p.L24L	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	267						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		CCATTACCCAAACGCCTAAAA	0.428													19	34					0	0	1	0	0		G	114254720	G	G	114254720	2	3	190	1	0	0	0	0	0	0	0	1	11881	11	1	3		3	PHTF1	1	114254720	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1653	114254720	134995901	77	94230											
TRIM33	51592	broad.mit.edu	37	chr1	115006998	115006998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggcggcatactgggcacCgtattacaccaactacaaca	12	8	8	13	2	0	0	0	0	0	0	0	0	0	0	2	3	5	3	2	3	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:115006998C>T	uc001eew.2	-	2	623	c.539G>A	c.(538-540)CGG>CAG	p.R180Q	TRIM33_uc010ows.1_5'Flank|TRIM33_uc001eex.2_Missense_Mutation_p.R180Q	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	180					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TACTGGGCACCGTATTACACC	0.343			T	RET	papillary thyroid								22	45					0	0	1	0	0		T	115006998	T	T	115006998	3	4	190	1	0	0	0	0	1	0	0	0	16533	652	23	1	2920	1	TRIM33	1	115006998	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	752278	115006998	134243623	78	94231											
DENND2C	163259	broad.mit.edu	37	chr1	115079208	115079208	+	RNA	SNP	A	G	G	1	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	cttcctggtgacggaggtggAaactggtggttcctcgggca	6	10	16	9	2	0	1	0	1	0	0	3	3	2	3	2	7	1	2	2	7	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:115079208A>G	uc001eez.2	-	29		c.4435T>C				NM_198459		Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C											skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACGGAGGTGGAAACTGGTGGT	0.542													37	54					0	0	1	0	0		G	115079208	G	G	115079208	1	3	190	0	1	0	0	0	0	0	0	0	4436	261	9	3		3	DENND2C	1	115079208	RNA	SNP	A	TCGA-F1-6177-01A-11D-1800-08	72210	115079208	134171413	79	94232											
CASQ2	845	broad.mit.edu	37	chr1	116311065	116311065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcggaaagacttaccactCggtccttcccatcatatgtg	9	12	7	13	2	2	1	1	0	1	1	6	2	4	2	3	2	1	0	3	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:116311065C>T	uc001efx.3	-	1	362	c.98G>A	c.(97-99)CGA>CAA	p.R33Q	CASQ2_uc010owu.1_Missense_Mutation_p.R33Q	NM_001232	NP_001223	O14958	CASQ2_HUMAN	cardiac calsequestrin 2 precursor	33			R -> Q (in CPVT2; reduces calcium- dependent dimerization).		heart development|striated muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;1.25e-06)|all_epithelial(167;1.02e-06)|all_lung(203;8.03e-06)|Lung NSC(69;5.01e-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)		ACTTACCACTCGGTCCTTCCC	0.438													38	47					0	0	1	0	0		T	116311065	T	T	116311065	3	4	190	1	0	0	0	0	1	0	0	0	2684	884	31	1	1145	1	CASQ2	1	116311065	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1231857	116311065	132939556	80	94233											
TRIM45	80263	broad.mit.edu	37	chr1	117659307	117659307	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccctgcccatgatttctcctGcggcatccttacaaagcagg	8	10	8	15	1	1	1	0	1	1	0	3	1	2	1	4	2	4	2	4	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:117659307G>A	uc001egz.2	-	3	1871	c.1283C>T	c.(1282-1284)GCA>GTA	p.A428V	TRIM45_uc009whe.2_Missense_Mutation_p.A410V|TRIM45_uc001eha.2_Missense_Mutation_p.A324V	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	428	Filamin.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		GATTTCTCCTGCGGCATCCTT	0.478													5	78					0	0	1	0	0		A	117659307	A	A	117659307	3	1	190	1	0	0	0	0	1	0	0	0	16546	1319	46	2	475	2	TRIM45	1	117659307	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1348242	117659307	131591314	81	94234											
SPAG17	200162	broad.mit.edu	37	chr1	118567980	118567980	+	Frame_Shift_Del	DEL	G	-	-																															ctcatagtgcttcaccctctGggggtagctctgacggacca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:118567980delG	uc001ehk.2	-	27	3858	c.3790delC	c.(3790-3792)CAGfs	p.Q1264fs		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1264						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		TTCACCCTCTGGGGGTAGCTC	0.458													37	51	---	---	---	---						.	-	118567980	-	-	118567980	7	5	190	1	0	1	0	1	0	0	0	0	15004	1357	47	0	2969	0	SPAG17	1	118567980	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	908673	118567980	130682641	82	94235											
PDE4DIP	9659	broad.mit.edu	37	chr1	144904728	144904728	+	Missense_Mutation	SNP	T	C	C	0	1	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	atctactagtccttctagcaTcagcagcaactgagtaaaga	14	10	7	10	0	3	2	1	1	2	1	4	2	4	2	1	0	5	4	1	0	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:144904728T>C	uc001elw.3	-	20	2875	c.2584A>G	c.(2584-2586)ATG>GTG	p.M862V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.M928V|PDE4DIP_uc001emc.1_Missense_Mutation_p.M862V|PDE4DIP_uc001emd.1_Missense_Mutation_p.M862V|PDE4DIP_uc001emb.1_Missense_Mutation_p.M1025V|PDE4DIP_uc001eme.1_Intron|PDE4DIP_uc001emf.1_Missense_Mutation_p.M647V	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	862	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CCTTCTAGCATCAGCAGCAAC	0.443			T	PDGFRB	MPD								83	99					0	0	1	0	0		C	144904728	C	C	144904728	3	2	190	1	0	0	0	0	1	0	0	0	11662	1435	50	3	4566	3	PDE4DIP	1	144904728	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	26336748	144904728	104345893	83	94236											
PDE4DIP	9659	broad.mit.edu	37	chr1	144915570	144915570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttcctttcgctgtagacGctggcacagctcctctgcta	5	13	8	15	2	1	1	0	0	1	1	4	1	3	1	3	1	2	6	3	1	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:144915570G>A	uc001elw.3	-	14	2146	c.1855C>T	c.(1855-1857)CGT>TGT	p.R619C	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R685C|PDE4DIP_uc001emc.1_Missense_Mutation_p.R619C|PDE4DIP_uc001emd.1_Missense_Mutation_p.R619C|PDE4DIP_uc001emb.1_Missense_Mutation_p.R782C|PDE4DIP_uc001eme.1_Missense_Mutation_p.R148C|PDE4DIP_uc001emf.1_Missense_Mutation_p.R404C	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	619	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CGCTGTAGACGCTGGCACAGC	0.483			T	PDGFRB	MPD								51	119					0	0	1	0	0		A	144915570	A	A	144915570	3	1	190	1	0	0	0	0	1	0	0	0	11662	1087	38	1	5319	1	PDE4DIP	1	144915570	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10842	144915570	104335051	84	94237											
NOTCH2NL	388677	broad.mit.edu	37	chr1	145273222	145273222	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggggaatattgtcaacatCgagacccctgtgagaagaac	13	8	12	8	1	1	3	1	1	0	3	2	6	1	4	2	2	2	0	2	2	5	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:145273222C>T	uc001emn.3	+	3	446	c.76C>T	c.(76-78)CGA>TGA	p.R26*	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Nonsense_Mutation_p.R26*|NOTCH2NL_uc001emo.2_Nonsense_Mutation_p.R26*|NOTCH2NL_uc010oyh.1_RNA	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	26	EGF-like 2.				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1						TTGTCAACATCGAGACCCCTG	0.502													14	134					0	0	1	0	0		T	145273222	T	T	145273222	4	4	190	1	0	0	0	0	0	1	0	0	10568	876	31	1	82	1	NOTCH2NL	1	145273222	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	357652	145273222	103977399	85	94238											
BCL9	607	broad.mit.edu	37	chr1	147095697	147095697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtccaaaccccgtggttcCgatgccaaccctcagcccaa	10	6	8	17	2	1	0	1	0	0	0	3	1	3	0	7	2	4	1	7	2	3	1	rs139858510	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:147095697C>T	uc001epq.2	+	10	3958	c.3218C>T	c.(3217-3219)CCG>CTG	p.P1073L	BCL9_uc010ozr.1_Missense_Mutation_p.P987L	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1073	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					CCCGTGGTTCCGATGCCAACC	0.463			T	IGH@|IGL@	B-ALL								70	136					0	0	1	0	0		T	147095697	T	T	147095697	3	4	190	1	0	0	0	0	1	0	0	0	1382	652	23	1	3244	1	BCL9	1	147095697	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1822475	147095697	102154924	86	94239											
PPIAL4E	730262	broad.mit.edu	37	chr1	148644456	148644456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caagactgagtggttggatgGcaagcatgtggcgtttggca	9	10	16	6	1	0	2	0	1	0	1	0	3	0	3	0	5	1	5	0	5	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:148644456G>A	uc010paz.1	+	1	446	c.371G>A	c.(370-372)GGC>GAC	p.G124D		NM_001144032	NP_001137504	F5H284	F5H284_HUMAN	peptidylprolyl isomerase A (cyclophilin A)-like	124					protein folding		peptidyl-prolyl cis-trans isomerase activity				0						TGGTTGGATGGCAAGCATGTG	0.488													55	57					0	0	1	0	0		A	148644456	A	A	148644456	3	1	190	1	0	0	0	0	1	0	0	0	12339	1203	42	2	373	2	PPIAL4E	1	148644456	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1548759	148644456	100606165	87	94240											
TARS2	80222	broad.mit.edu	37	chr1	150469093	150469093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagaattgcgggaccaccggCgcattgggaaggtacaggaa	12	5	15	9	3	0	1	0	0	0	1	0	4	0	4	2	5	2	2	2	5	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:150469093C>T	uc001euq.2	+	8	917	c.910C>T	c.(910-912)CGC>TGC	p.R304C	TARS2_uc010pcd.1_RNA|TARS2_uc001eur.2_Intron|TARS2_uc009wlt.2_Intron|TARS2_uc009wls.2_Intron	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	304					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	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;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	GGACCACCGGCGCATTGGGAA	0.512													41	74					0	0	1	0	0		T	150469093	T	T	150469093	3	4	190	1	0	0	0	0	1	0	0	0	15585	768	27	1	940	1	TARS2	1	150469093	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1824637	150469093	98781528	88	94241											
ECM1	1893	broad.mit.edu	37	chr1	150482172	150482172	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctccccacccctatccCgaagcctccccatggatcac	7	6	4	24	1	1	0	1	0	0	0	4	2	4	1	10	1	1	0	10	1	2	1	rs121909115		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:150482172C>T	uc001eus.2	+	3	356	c.157C>T	c.(157-159)CGA>TGA	p.R53*	ECM1_uc010pce.1_5'UTR|ECM1_uc010pcf.1_5'UTR|ECM1_uc001eut.2_Nonsense_Mutation_p.R53*|ECM1_uc001euu.2_Nonsense_Mutation_p.R53*|ECM1_uc001euv.2_Nonsense_Mutation_p.R53*|ECM1_uc009wlu.2_5'UTR	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	53					angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	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;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			ACCCCTATCCCGAAGCCTCCC	0.607													33	84					0	0	1	0	0		T	150482172	T	T	150482172	4	4	190	1	0	0	0	0	0	1	0	0	4903	644	23	1	167	1	ECM1	1	150482172	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	13079	150482172	98768449	89	94242											
PSMB4	5692	broad.mit.edu	37	chr1	151374105	151374105	+	Missense_Mutation	SNP	A	G	G	1	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	gggatattgcccacatgatcAggtgagtaatagggaaaaaa	16	8	12	5	0	1	2	1	2	0	0	1	4	1	4	1	3	1	1	1	3	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:151374105A>G	uc001eyc.1	+	6	804	c.781A>G	c.(781-783)AGT>GGT	p.S261G	PSMB4_uc001eyb.1_3'UTR	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	261					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	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)			CCACATGATCAGGTGAGTAAT	0.458													59	90					0	0	1	0	0		G	151374105	G	G	151374105	3	3	190	1	0	0	0	0	1	0	0	0	12701	202	7	3	803	3	PSMB4	1	151374105	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	891933	151374105	97876516	90	94243											
INTS3	65123	broad.mit.edu	37	chr1	153723713	153723713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatctcactgcttcgggaaCgggtgagggaacaggacaaa	12	6	14	9	2	1	1	1	1	1	0	3	4	1	4	0	4	3	2	0	4	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:153723713C>T	uc009wom.2	+	8	948	c.727C>T	c.(727-729)CGG>TGG	p.R243W	INTS3_uc001fct.2_Missense_Mutation_p.R243W|INTS3_uc001fcu.2_Translation_Start_Site|INTS3_uc001fcv.2_Missense_Mutation_p.R37W|INTS3_uc010peb.1_Missense_Mutation_p.R37W|INTS3_uc001fcw.2_Translation_Start_Site	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	244					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			GCTTCGGGAACGGGTGAGGGA	0.517													6	29					0	0	1	0	0		T	153723713	T	T	153723713	3	4	190	1	0	0	0	0	1	0	0	0	7795	527	19	1	753	1	INTS3	1	153723713	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2349608	153723713	95526908	91	94244											
PKLR	5313	broad.mit.edu	37	chr1	155265486	155265486	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccgtgggagaagttgagtcgCgcaatgttcatcccggcctt	7	10	13	11	4	1	2	1	1	0	1	3	3	2	2	3	2	0	3	3	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:155265486C>T	uc001fkb.3	-	3	384	c.345G>A	c.(343-345)GCG>GCA	p.A115A	RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Silent_p.A84A|PKLR_uc010pga.1_Silent_p.A51A	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1	115			A -> P (in PKRD; Val de Marne).		endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	AGTTGAGTCGCGCAATGTTCA	0.642													20	42					0	0	1	0	0		T	155265486	T	T	155265486	2	4	190	1	0	0	0	0	0	0	0	1	11995	755	27	1		1	PKLR	1	155265486	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1541773	155265486	93985135	92	94245											
GON4L	54856	broad.mit.edu	37	chr1	155735156	155735156	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgtctgtttcgttacttCtccagcactgctcaactcct	6	15	6	14	1	3	0	1	0	2	0	6	1	4	0	2	0	4	4	2	0	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:155735156C>A	uc001flz.2	-	21	4205	c.4108G>T	c.(4108-4110)GAA>TAA	p.E1370*	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Nonsense_Mutation_p.E1370*|GON4L_uc009wrh.1_Nonsense_Mutation_p.E1370*|GON4L_uc001fma.1_Nonsense_Mutation_p.E1370*|GON4L_uc001fmb.3_Nonsense_Mutation_p.E566*|GON4L_uc001fmc.2_Nonsense_Mutation_p.E1370*|GON4L_uc001fmd.3_Nonsense_Mutation_p.E1370*|GON4L_uc009wri.2_Nonsense_Mutation_p.E956*	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1370					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TTCGTTACTTCTCCAGCACTG	0.502													69	99					1.79293e-35	1.96394e-35	1	1	0		A	155735156	A	A	155735156	4	1	190	1	0	0	0	0	0	1	0	0	6587	922	32	5	2779	5	GON4L	1	155735156	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	469670	155735156	93515465	93	94246											
CRABP2	1382	broad.mit.edu	37	chr1	156675181	156675181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccttacccagcactttgaGcaattcctcgaagttttccg	8	14	6	13	2	0	1	0	1	0	0	4	2	3	1	4	0	3	3	4	0	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:156675181G>A	uc001fpr.2	-	1	195	c.58C>T	c.(58-60)CTC>TTC	p.L20F		NM_001878	NP_001869	P29373	RABP2_HUMAN	cellular retinoic acid binding protein 2	20					epidermis development|regulation of transcription, DNA-dependent|signal transduction	cytoplasm|nucleus	retinal binding|retinol binding|transporter activity			upper_aerodigestive_tract(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)				Alitretinoin(DB00523)	AGCACTTTGAGCAATTCCTCG	0.582													38	80					0	0	1	0	0		A	156675181	A	A	156675181	3	1	190	1	0	0	0	0	1	0	0	0	3847	971	34	2	374	2	CRABP2	1	156675181	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	940025	156675181	92575440	94	94247											
ETV3	2117	broad.mit.edu	37	chr1	157105396	157105396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccaggcgatgacatggcGgaactcttccttctgcagca	8	9	11	13	2	2	1	0	1	2	0	3	3	3	2	2	3	4	2	2	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:157105396G>A	uc001fqr.2	-	3	440	c.151C>T	c.(151-153)CGC>TGC	p.R51C	ETV3_uc001fqt.2_Missense_Mutation_p.R51C	NM_001145312	NP_001138784	P41162	ETV3_HUMAN	ets variant gene 3 isoform 1	51	ETS.						sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(266;0.158)	Prostate(1639;0.174)				ATGACATGGCGGAACTCTTCC	0.577													25	38					0	0	1	0	0		A	157105396	A	A	157105396	3	1	190	1	0	0	0	0	1	0	0	0	5287	1116	39	1	1431	1	ETV3	1	157105396	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	430215	157105396	92145225	95	94248											
OR10R2	343406	broad.mit.edu	37	chr1	158450438	158450438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgagggcagacggaaagcGttttccacctgcgcctctca	8	8	12	13	3	1	2	1	1	1	1	3	3	2	3	3	2	2	3	3	2	1	2	rs145805567		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:158450438G>A	uc010pik.1	+	1	771	c.771G>A	c.(769-771)GCG>GCA	p.A257A	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	257	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					GACGGAAAGCGTTTTCCACCT	0.458													36	46					0	0	1	0	0		A	158450438	A	A	158450438	2	1	190	1	0	0	0	0	0	0	0	1	10936	1132	40	1		1	OR10R2	1	158450438	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1345042	158450438	90800183	96	94249											
OR6K2	81448	broad.mit.edu	37	chr1	158669736	158669736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacacgtggaaaatgctgtgCggcggcctccagctgaatga	10	7	13	11	3	0	2	0	2	0	0	1	3	1	3	2	3	3	2	2	3	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:158669736C>T	uc001fsu.1	-	1	707	c.707G>A	c.(706-708)CGC>CAC	p.R236H		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					AAATGCTGTGCGGCGGCCTCC	0.463													33	46					0	0	1	0	0		T	158669736	T	T	158669736	3	4	190	1	0	0	0	0	1	0	0	0	11221	768	27	1	271	1	OR6K2	1	158669736	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	219298	158669736	90580885	97	94250											
MNDA	4332	broad.mit.edu	37	chr1	158817665	158817665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaactgagaacagttgacCgcaagctgaaactggtgtgt	12	10	11	8	1	1	3	1	3	0	1	1	4	1	3	1	1	4	3	1	1	4	2	rs139902913		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:158817665C>T	uc001fsz.1	+	6	1335	c.1135C>T	c.(1135-1137)CGC>TGC	p.R379C		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	379	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AACAGTTGACCGCAAGCTGAA	0.443													43	62					0	0	1	0	0		T	158817665	T	T	158817665	3	4	190	1	0	0	0	0	1	0	0	0	9694	652	23	1	1153	1	MNDA	1	158817665	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	147929	158817665	90432956	98	94251											
ATP1A2	477	broad.mit.edu	37	chr1	160100380	160100380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggcaagtgccgaagcgcagGcatcaaggtactggcctccc	9	5	14	13	2	1	0	1	0	0	0	2	1	2	0	3	4	3	4	3	4	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:160100380G>A	uc001fvc.2	+	13	1952	c.1820G>A	c.(1819-1821)GGC>GAC	p.G607D	ATP1A2_uc001fvb.2_Missense_Mutation_p.G607D|ATP1A2_uc001fvd.2_Missense_Mutation_p.G343D|ATP1A2_uc009wtg.1_Missense_Mutation_p.G295D	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	607	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	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)			CGAAGCGCAGGCATCAAGGTA	0.602													18	37					0	0	1	0	0		A	160100380	A	A	160100380	3	1	190	1	0	0	0	0	1	0	0	0	1130	1203	42	2	1870	2	ATP1A2	1	160100380	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1282715	160100380	89150241	99	94252											
CD84	8832	broad.mit.edu	37	chr1	160523188	160523188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgtcttctcttgaacaaaCggaacaaaaacactgaagac	16	9	6	10	1	2	3	0	2	2	1	3	4	2	4	0	1	4	0	0	1	6	3	rs144013322		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:160523188C>T	uc001fwh.3	-	4	764	c.740G>A	c.(739-741)CGT>CAT	p.R247H	CD84_uc001fwf.3_Missense_Mutation_p.R247H|CD84_uc001fwg.3_Missense_Mutation_p.R247H|CD84_uc009wtn.2_Missense_Mutation_p.R247H|CD84_uc001fwi.3_Missense_Mutation_p.R133H|CD84_uc001fwj.2_Missense_Mutation_p.R247H	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	247	Cytoplasmic (Potential).				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			CTTGAACAAACGGAACAAAAA	0.468													13	28					0	0	1	0	0		T	160523188	T	T	160523188	3	4	190	1	0	0	0	0	1	0	0	0	3045	536	19	1	317	1	CD84	1	160523188	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	422808	160523188	88727433	100	94253											
FCRLA	84824	broad.mit.edu	37	chr1	161681180	161681180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtacaaaaggcagacagcGggcactaccactgcagtggc	12	5	13	11	1	0	1	0	0	0	1	0	1	0	1	1	4	4	4	1	4	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:161681180G>A	uc001gbe.2	+	4	726	c.484G>A	c.(484-486)GGG>AGG	p.G162R	FCRLA_uc001gbd.2_Missense_Mutation_p.G156R|FCRLA_uc001gbf.2_Intron|FCRLA_uc001gbg.2_Intron|FCRLA_uc009wuo.2_Intron|FCRLA_uc009wup.2_Intron|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	139	Ig-like C2-type 1.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GGCAGACAGCGGGCACTACCA	0.572													27	32					0	0	1	0	0		A	161681180	A	A	161681180	3	1	190	1	0	0	0	0	1	0	0	0	5814	1116	39	1	498	1	FCRLA	1	161681180	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1157992	161681180	87569441	101	94254											
NOS1AP	9722	broad.mit.edu	37	chr1	162335235	162335235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctgctgaggctgcggcGcggctggaggcccaggctcg	3	7	19	12	4	0	1	0	1	0	0	1	2	0	2	1	7	2	5	1	7	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:162335235G>A	uc001gbv.2	+	9	1368	c.981G>A	c.(979-981)GCG>GCA	p.A327A	NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Silent_p.A322A|NOS1AP_uc009wut.1_Silent_p.A32A	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	327	Potential.				regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			AGGCTGCGGCGCGGCTGGAGG	0.587													30	43					0	0	1	0	0		A	162335235	A	A	162335235	2	1	190	1	0	0	0	0	0	0	0	1	10561	1074	38	1		1	NOS1AP	1	162335235	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	654055	162335235	86915386	102	94255											
UHMK1	127933	broad.mit.edu	37	chr1	162470791	162470791	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctggcctgcagagtgataCagaatgtacctcagctgttg	9	10	13	9	0	1	3	1	1	0	2	1	3	1	3	2	2	4	5	2	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:162470791C>A	uc001gcc.1	+	3	786	c.650C>A	c.(649-651)ACA>AAA	p.T217K	UHMK1_uc001gcb.1_Missense_Mutation_p.T143K|UHMK1_uc009wuu.1_Missense_Mutation_p.T217K	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	217	Protein kinase.				cell cycle arrest|neuron projection development|peptidyl-serine phosphorylation|positive regulation of translational initiation|protein autophosphorylation|regulation of protein export from nucleus	axon|dendrite cytoplasm|neuronal RNA granule|nucleus	protein binding|protein serine/threonine kinase activity|ribonucleoprotein binding|RNA binding				0	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			CAGAGTGATACAGAATGTACC	0.438													19	22					6.94344e-10	7.285e-10	1	1	0		A	162470791	A	A	162470791	3	1	190	1	0	0	0	0	1	0	0	0	16992	478	17	5	710	5	UHMK1	1	162470791	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	135556	162470791	86779830	103	94256											
SELL	6402	broad.mit.edu	37	chr1	169677835	169677835	+	Silent	SNP	A	G	G	1	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	tccgccttgttttgtatggcAactaaatctgtgtaattgtc	8	17	8	8	1	1	0	0	0	1	0	3	0	2	0	2	1	1	4	2	1	5	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:169677835A>G	uc001ggk.2	-	3	393	c.195T>C	c.(193-195)GTT>GTC	p.V65V	C1orf112_uc001ggj.2_Intron|SELL_uc010pls.1_Silent_p.V18V|SELL_uc001ggl.1_Silent_p.V78V	NM_000655	NP_000646	P14151	LYAM1_HUMAN	selectin L precursor	65	C-type lectin.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|regulation of immune response	integral to plasma membrane	glycosphingolipid binding|heparin binding|protease binding|sugar binding				0	all_hematologic(923;0.208)					TTTGTATGGCAACTAAATCTG	0.433													11	10					0	0	1	0	0		G	169677835	G	G	169677835	2	3	190	1	0	0	0	0	0	0	0	1	14041	117	5	3		3	SELL	1	169677835	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	7207044	169677835	79572786	104	94257											
C1orf129	80133	broad.mit.edu	37	chr1	170955773	170955773	+	Silent	SNP	A	G	G	1	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	ctcctgatgaaactctcttcAcctgatgataaaatcgcatc	12	12	5	12	1	2	4	1	4	1	0	6	4	3	4	2	0	1	1	2	0	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:170955773A>G	uc001ghg.2	+	10	931	c.801A>G	c.(799-801)TCA>TCG	p.S267S	C1orf129_uc009wvy.2_Silent_p.S74S|C1orf129_uc010plz.1_Silent_p.S267S	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	267							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AACTCTCTTCACCTGATGATA	0.438													52	58					0	0	1	0	0		G	170955773	G	G	170955773	2	3	190	1	0	0	0	0	0	0	0	1	1999	146	6	3		3	C1orf129	1	170955773	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1277938	170955773	78294848	105	94258											
QSOX1	5768	broad.mit.edu	37	chr1	180165944	180165944	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggaggtcaggcgcgtgggCcgcagctccaagcagctggt	6	7	17	11	3	1	0	1	0	0	0	2	1	2	1	2	5	3	4	2	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:180165944C>T	uc001gnz.2	+	12	2091	c.2016C>T	c.(2014-2016)GGC>GGT	p.G672G	QSOX1_uc001gny.2_Intron|QSOX1_uc001goa.2_Intron|QSOX1_uc001goc.2_Silent_p.G214G|FLJ23867_uc001god.3_5'Flank	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	672					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						GGCGCGTGGGCCGCAGCTCCA	0.677													14	24					0	0	1	0	0		T	180165944	T	T	180165944	2	4	190	1	0	0	0	0	0	0	0	1	12908	726	26	2		2	QSOX1	1	180165944	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	9210171	180165944	69084677	106	94259											
CACNA1E	777	broad.mit.edu	37	chr1	181708297	181708298	+	Frame_Shift_Ins	INS	-	T	T																															tgcagatgatagaccaaggcINSttgatcctgcaggatgggtc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:181708297_181708298insT	uc001gow.2	+	25	3792_3793	c.3627_3628insT	c.(3625-3630)GGCTTGfs	p.G1209fs	CACNA1E_uc009wxs.2_Frame_Shift_Ins_p.G1097fs|CACNA1E_uc001gox.1_Frame_Shift_Ins_p.G435fs|CACNA1E_uc009wxt.2_Frame_Shift_Ins_p.G435fs	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1209_1210	III.|Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TAGACCAAGGCTTGATCCTGCA	0.535													35	65	---	---	---	---						.	T	181708298	T	T	181708297	7	5	190	1	0	1	1	0	0	0	0	0	2545	784	28	0	3725	0	CACNA1E	1	181708297	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	1542353	181708297	67542324	107	94260											
PRG4	10216	broad.mit.edu	37	chr1	186280259	186280259	+	Frame_Shift_Del	DEL	T	-	-																															tccttcccccattgatactgTttttactaggtgcaactgtg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:186280259delT	uc001gru.3	+	9	3644	c.3593delT	c.(3592-3594)GTTfs	p.V1198fs	PRG4_uc001grt.3_Frame_Shift_Del_p.V1157fs|PRG4_uc009wyl.2_Frame_Shift_Del_p.V1105fs|PRG4_uc009wym.2_Frame_Shift_Del_p.V1064fs|PRG4_uc010poo.1_RNA	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	1198	Hemopexin-like 2.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						ATTGATACTGTTTTTACTAGG	0.343													32	35	---	---	---	---						.	-	186280259	-	-	186280259	7	5	190	1	0	1	0	1	0	0	0	0	12503	1725	60	0	3623	0	PRG4	1	186280259	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	4571962	186280259	62970362	108	94261											
FAM5C	339479	broad.mit.edu	37	chr1	190068210	190068210	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaagctgcctaggaggccGttctcattgcagtagagaaa	13	8	12	8	1	1	1	1	0	1	1	2	4	1	2	2	2	3	4	2	2	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:190068210G>A	uc001gse.1	-	8	1471	c.1239C>T	c.(1237-1239)AAC>AAT	p.N413N	FAM5C_uc010pot.1_Silent_p.N311N	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	413						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					CTAGGAGGCCGTTCTCATTGC	0.493													23	25					0	0	1	0	0		A	190068210	A	A	190068210	2	1	190	1	0	0	0	0	0	0	0	1	5608	1136	40	1		1	FAM5C	1	190068210	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3787951	190068210	59182411	109	94262											
NEK7	140609	broad.mit.edu	37	chr1	198222297	198222298	+	Frame_Shift_Ins	INS	-	A	A																															gatggagtaccagtagctttINSaaaaaaagtgcaggtaagat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:198222297_198222298insA	uc001gun.3	+	3	512_513	c.185_186insA	c.(184-186)TTAfs	p.L62fs		NM_133494	NP_598001	Q8TDX7	NEK7_HUMAN	NIMA-related kinase 7	62	Protein kinase.					cytoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|lung(1)|ovary(1)	4						CCAGTAGCTTTAAAAAAAGTGC	0.317													42	78	---	---	---	---						.	A	198222298	A	A	198222297	7	5	190	1	0	1	1	0	0	0	0	0	10348	1764	61	0	191	0	NEK7	1	198222297	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	8154087	198222297	51028324	110	94263											
CACNA1S	779	broad.mit.edu	37	chr1	201012450	201012450	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatggttgctgttgccataGgcgacattggcgttggcatt	6	14	13	8	2	0	0	0	0	0	0	0	1	0	0	1	4	2	5	1	4	2	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:201012450G>T	uc001gvv.2	-	40	5234	c.5007C>A	c.(5005-5007)GCC>GCA	p.A1669A		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1669	Cytoplasmic (Potential).				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	TGTTGCCATAGGCGACATTGG	0.552											OREG0014067	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	55	71					2.17126e-26	2.35759e-26	1	1	0		T	201012450	T	T	201012450	2	4	190	1	0	0	0	0	0	0	0	1	2550	987	35	5		5	CACNA1S	1	201012450	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2790153	201012450	48238171	111	94264											
IGFN1	91156	broad.mit.edu	37	chr1	201196181	201196181	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctggttcaagaatgaccgcaGcctggaaggaaaccccgcgg	11	5	13	12	3	1	2	1	1	0	1	1	4	1	4	4	4	2	2	4	4	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:201196181G>T	uc001gwc.2	+	12	3210	c.2438G>T	c.(2437-2439)AGC>ATC	p.S813I	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						AATGACCGCAGCCTGGAAGGA	0.667													36	38					1.4065e-29	1.52942e-29	1	1	0		T	201196181	T	T	201196181	3	4	190	1	0	0	0	0	1	0	0	0	7606	971	34	5	11044	5	IGFN1	1	201196181	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	183731	201196181	48054440	112	94265											
LGR6	59352	broad.mit.edu	37	chr1	202287739	202287739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggccgtgtgggactgcGccatggtgaggcacgtggcc	5	8	18	10	3	0	2	0	2	0	0	0	3	0	3	3	5	1	1	3	5	0	1	rs145532673	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:202287739G>A	uc001gxu.2	+	18	2308	c.2308G>A	c.(2308-2310)GCC>ACC	p.A770T	LGR6_uc001gxv.2_Missense_Mutation_p.A718T|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.A631T	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	770	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						GTGGGACTGCGCCATGGTGAG	0.612													25	37					0	0	1	0	0		A	202287739	A	A	202287739	3	1	190	1	0	0	0	0	1	0	0	0	8774	1087	38	1	2525	1	LGR6	1	202287739	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1091558	202287739	46962882	113	94266											
MYOG	4656	broad.mit.edu	37	chr1	203054835	203054835	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttctccctcagtgtggcCgcccgccgccggtccacgga	3	7	12	19	6	2	0	1	0	1	0	4	1	3	1	6	3	0	1	6	3	0	1	rs148417428		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:203054835C>T	uc001gzd.2	-	1	543	c.255G>A	c.(253-255)GCG>GCA	p.A85A		NM_002479	NP_002470	P15173	MYOG_HUMAN	myogenin	85	Basic motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter	transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			skin(2)	2						TCAGTGTGGCCGCCCGCCGCC	0.657													21	41					0	0	1	0	0		T	203054835	T	T	203054835	2	4	190	1	0	0	0	0	0	0	0	1	10108	639	23	1		1	MYOG	1	203054835	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	767096	203054835	46195786	114	94267											
SOX13	9580	broad.mit.edu	37	chr1	204094988	204094988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttctctgccccacagccCgcaggctggccaggtgcaga	6	6	11	18	1	1	1	0	0	1	1	2	1	1	1	5	3	3	3	5	3	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:204094988C>T	uc001ham.2	+	14	2190	c.1595C>T	c.(1594-1596)CCG>CTG	p.P532L	SOX13_uc010pqp.1_Missense_Mutation_p.P531L|SOX13_uc010pqq.1_Missense_Mutation_p.P399L	NM_005686	NP_005677	Q9UN79	SOX13_HUMAN	SRY-box 13	532					anatomical structure morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|central_nervous_system(1)	2	all_cancers(21;0.0754)|Breast(84;0.116)|all_epithelial(62;0.189)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)			CCCCACAGCCCGCAGGCTGGC	0.622													9	10					0	0	1	0	0		T	204094988	T	T	204094988	3	4	190	1	0	0	0	0	1	0	0	0	14969	652	23	1	1645	1	SOX13	1	204094988	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1040153	204094988	45155633	115	94268											
DSTYK	25778	broad.mit.edu	37	chr1	205119923	205119923	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacggttctgcttatccagCtgccaacaaagcagggcaag	11	7	11	12	1	1	0	0	0	1	0	2	0	2	0	2	2	5	6	2	2	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:205119923C>T	uc001hbw.2	-	11	2417	c.2353_splice	c.e11-1	p.L785_splice	DSTYK_uc001hbx.2_Splice_Site_p.L785_splice	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1							cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						GCTTATCCAGCTGCCAACAAA	0.517													23	25					0	0	1	0	0		T	205119923	T	T	205119923	5	4	190	1	0	0	0	0	0	0	1	0	4791	811	28	2	449	2	DSTYK	1	205119923	Splice_Site	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1024935	205119923	44130698	116	94269											
TMCC2	9911	broad.mit.edu	37	chr1	205238117	205238117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggccctgagcctccccgccGgccatggtgacaccgacggc	5	5	13	18	4	0	2	0	2	0	0	1	3	1	2	7	4	1	0	7	4	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:205238117G>A	uc001hbz.1	+	4	1231	c.787G>A	c.(787-789)GGC>AGC	p.G263S	TMCC2_uc010prf.1_Missense_Mutation_p.G185S|TMCC2_uc001hca.2_Missense_Mutation_p.G38S|TMCC2_uc001hcb.1_Missense_Mutation_p.G23S|TMCC2_uc001hcc.1_5'UTR|TMCC2_uc001hcd.2_Missense_Mutation_p.G30S	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	263						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CCTCCCCGCCGGCCATGGTGA	0.662													35	58					0	0	1	0	0		A	205238117	A	A	205238117	3	1	190	1	0	0	0	0	1	0	0	0	16018	1116	39	1	797	1	TMCC2	1	205238117	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	118194	205238117	44012504	117	94270											
MFSD4	148808	broad.mit.edu	37	chr1	205548987	205548987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctggcctcagtcatggcGctggcgggcttggccatggg	3	9	18	11	2	2	0	2	0	0	0	2	0	2	0	2	6	1	3	2	6	0	1	rs150786831		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:205548987G>A	uc001hcv.3	+	2	425	c.339G>A	c.(337-339)GCG>GCA	p.A113A	MFSD4_uc010prk.1_Silent_p.A113A|MFSD4_uc010prl.1_RNA|MFSD4_uc010prm.1_Silent_p.A58A	NM_181644	NP_857595	Q8N468	MFSD4_HUMAN	major facilitator superfamily domain containing	113	Helical; (Potential).				transmembrane transport	integral to membrane				skin(2)|central_nervous_system(1)	3	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0908)			CAGTCATGGCGCTGGCGGGCT	0.622													29	40					0	0	1	0	0		A	205548987	A	A	205548987	2	1	190	1	0	0	0	0	0	0	0	1	9551	1074	38	1		1	MFSD4	1	205548987	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	310870	205548987	43701634	118	94271											
CR1L	1379	broad.mit.edu	37	chr1	207818618	207818618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagcgtccctttccttccCggcgctttcctgggttgctt	1	15	10	15	4	0	0	0	0	0	0	5	1	4	0	4	2	2	3	4	2	0	5	rs61739989	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:207818618C>T	uc001hga.3	+	1	161	c.40C>T	c.(40-42)CGG>TGG	p.R14W	CR1L_uc001hfz.2_RNA	NM_175710	NP_783641	Q2VPA4	CR1L_HUMAN	complement component (3b/4b) receptor 1-like	14						cytoplasm|extracellular region|membrane					0						CTTTCCTTCCCGGCGCTTTCC	0.667													40	36					0	0	1	0	0		T	207818618	T	T	207818618	3	4	190	1	0	0	0	0	1	0	0	0	3844	643	23	1	42	1	CR1L	1	207818618	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2269631	207818618	41432003	119	94272											
IRF6	3664	broad.mit.edu	37	chr1	209968664	209968664	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcaggaaggggaaggtgtccTggatgggaacatggtgctgc	9	8	18	6	0	1	0	1	0	0	0	2	4	2	4	1	7	3	1	1	7	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:209968664T>C	uc001hhq.1	-	5	742	c.479A>G	c.(478-480)CAG>CGG	p.Q160R	IRF6_uc010psm.1_Missense_Mutation_p.Q65R|IRF6_uc009xct.1_Missense_Mutation_p.Q160R	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	160					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		GAAGGTGTCCTGGATGGGAAC	0.502										HNSCC(57;0.16)			7	103					0	0	1	0	0		C	209968664	C	C	209968664	3	2	190	1	0	0	0	0	1	0	0	0	7850	1580	55	3	944	3	IRF6	1	209968664	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2150046	209968664	39281957	120	94273											
C1orf107	27042	broad.mit.edu	37	chr1	210017023	210017023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttctacttttcacagagcGcttccatttctacaaaaggt	10	15	6	10	1	3	1	1	0	2	1	4	1	4	1	1	1	3	2	1	1	4	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:210017023G>A	uc001hhr.1	+	11	2085	c.2009G>A	c.(2008-2010)CGC>CAC	p.R670H	C1orf107_uc009xcu.1_Missense_Mutation_p.R385H	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	670					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		TTCACAGAGCGCTTCCATTTC	0.493													22	40					0	0	1	0	0		A	210017023	A	A	210017023	3	1	190	1	0	0	0	0	1	0	0	0	1984	1087	38	1	2051	1	C1orf107	1	210017023	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	48359	210017023	39233598	121	94274											
TMEM206	55248	broad.mit.edu	37	chr1	212583792	212583792	+	Missense_Mutation	SNP	T	G	G	0	1	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	aagatacccggaccttggacTctgaccgtctccttgtcctg	7	11	9	14	2	2	2	0	1	2	1	4	4	3	4	5	2	1	0	5	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:212583792T>G	uc001hjc.3	-	2	276	c.108A>C	c.(106-108)AGA>AGC	p.R36S	TMEM206_uc010pte.1_Missense_Mutation_p.R97S	NM_018252	NP_060722	Q9H813	TM206_HUMAN	transmembrane protein 206	36	Cytoplasmic (Potential).					integral to membrane				breast(1)	1				all cancers(67;0.012)|OV - Ovarian serous cystadenocarcinoma(81;0.0121)|GBM - Glioblastoma multiforme(131;0.0377)|Epithelial(68;0.148)		GACCTTGGACTCTGACCGTCT	0.562													103	169					0	0	1	0	0		G	212583792	G	G	212583792	3	3	190	1	0	0	0	0	1	0	0	0	16156	1548	54	5	972	5	TMEM206	1	212583792	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2566769	212583792	36666829	122	94275											
CENPF	1063	broad.mit.edu	37	chr1	214816309	214816309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaccaggaaagaaaccccttCggccccagcgaagggtgttg	11	5	13	12	2	0	1	0	0	0	1	1	4	0	2	5	3	2	1	5	3	3	2	rs141012292	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:214816309C>T	uc001hkm.2	+	12	4802	c.4628C>T	c.(4627-4629)TCG>TTG	p.S1543L		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	1639					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GAAACCCCTTCGGCCCCAGCG	0.493													34	48					0	0	1	0	0		T	214816309	T	T	214816309	3	4	190	1	0	0	0	0	1	0	0	0	3234	893	31	1	4670	1	CENPF	1	214816309	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2232517	214816309	34434312	123	94276											
ESRRG	2104	broad.mit.edu	37	chr1	216850658	216850658	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggtggcgagtcaagtcCgttctgatggccattcatgg	8	10	15	8	2	3	2	2	1	1	1	4	4	4	2	2	4	0	1	2	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:216850658C>A	uc001hkw.1	-	2	398	c.232G>T	c.(232-234)GGA>TGA	p.G78*	ESRRG_uc001hky.1_Nonsense_Mutation_p.G55*|ESRRG_uc009xdp.1_Nonsense_Mutation_p.G55*|ESRRG_uc001hkz.1_Nonsense_Mutation_p.G55*|ESRRG_uc010puc.1_Nonsense_Mutation_p.G55*|ESRRG_uc001hla.1_Nonsense_Mutation_p.G55*|ESRRG_uc001hlb.1_Nonsense_Mutation_p.G55*|ESRRG_uc010pud.1_Intron|ESRRG_uc001hlc.1_Nonsense_Mutation_p.G55*|ESRRG_uc001hld.1_Nonsense_Mutation_p.G55*|ESRRG_uc001hkx.1_Nonsense_Mutation_p.G83*|ESRRG_uc009xdo.1_Nonsense_Mutation_p.G55*|ESRRG_uc001hle.1_Nonsense_Mutation_p.G55*	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	78					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	GAGTCAAGTCCGTTCTGATGG	0.567													44	31					6.5261e-18	6.97457e-18	1	1	0		A	216850658	A	A	216850658	4	1	190	1	0	0	0	0	0	1	0	0	5270	661	23	5	1168	5	ESRRG	1	216850658	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2034349	216850658	32399963	124	94277											
GPATCH2	55105	broad.mit.edu	37	chr1	217793655	217793655	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagcagtgaccagtctcccaCgggtgatgcacattatacga	12	8	10	11	2	1	2	0	2	1	0	2	3	1	2	2	1	3	2	2	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:217793655C>T	uc001hlf.1	-	2	339	c.243G>A	c.(241-243)CCG>CCA	p.P81P	GPATCH2_uc001hlg.3_Silent_p.P81P	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	81						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		CAGTCTCCCACGGGTGATGCA	0.433													41	59					0	0	1	0	0		T	217793655	T	T	217793655	2	4	190	1	0	0	0	0	0	0	0	1	6606	523	19	1		1	GPATCH2	1	217793655	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	942997	217793655	31456966	125	94278											
GPATCH2	55105	broad.mit.edu	37	chr1	217793681	217793681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcacattatacgacctccGttttctccctctccttttcc	6	16	3	16	2	2	0	0	0	2	0	6	1	4	0	5	0	2	2	5	0	2	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:217793681G>A	uc001hlf.1	-	2	313	c.217C>T	c.(217-219)CGG>TGG	p.R73W	GPATCH2_uc001hlg.3_Missense_Mutation_p.R73W	NM_018040	NP_060510	Q9NW75	GPTC2_HUMAN	G patch domain containing 2	73						intracellular	nucleic acid binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0397)|all cancers(67;0.0744)|GBM - Glioblastoma multiforme(131;0.0872)		TACGACCTCCGTTTTCTCCCT	0.478													49	65					0	0	1	0	0		A	217793681	A	A	217793681	3	1	190	1	0	0	0	0	1	0	0	0	6606	1144	40	1	1405	1	GPATCH2	1	217793681	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	26	217793681	31456940	126	94279											
EPRS	2058	broad.mit.edu	37	chr1	220208265	220208265	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattgcttacctcagtatgTtccatcagattagagccata	11	14	6	10	0	3	2	3	0	0	2	4	2	4	2	3	0	3	3	3	0	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:220208265T>C	uc001hly.1	-	3	492	c.222A>G	c.(220-222)GAA>GAG	p.E74E	EPRS_uc010puf.1_5'UTR|EPRS_uc001hlz.1_Silent_p.E74E|EPRS_uc009xdt.1_5'UTR	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase	74					glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	CCTCAGTATGTTCCATCAGAT	0.348													29	54					0	0	1	0	0		C	220208265	C	C	220208265	2	2	190	1	0	0	0	0	0	0	0	1	5199	1722	60	3		3	EPRS	1	220208265	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2414584	220208265	29042356	127	94280											
MOSC1	64757	broad.mit.edu	37	chr1	220970104	220970104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgagcctcacatgcgaccgaGacgtcctcatcaaatagcag	12	6	9	14	4	3	1	3	0	0	1	4	4	4	1	3	0	3	1	3	0	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:220970104G>A	uc001hms.2	+	3	817	c.569G>A	c.(568-570)AGA>AAA	p.R190K	MOSC1_uc001hmt.2_Missense_Mutation_p.R190K	NM_022746	NP_073583	Q5VT66	MOSC1_HUMAN	MOCO sulphurase C-terminal domain containing 1	190	MOSC.						molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.0358)		ATGCGACCGAGACGTCCTCAT	0.602													10	11					0	0	1	0	0		A	220970104	A	A	220970104	3	1	190	1	0	0	0	0	1	0	0	0	9731	942	33	4	579	4	MOSC1	1	220970104	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	761839	220970104	28280517	128	94281											
HLX	3142	broad.mit.edu	37	chr1	221053223	221053223	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgcagccgggctggctccCttctacgcctccaacttcag	5	10	9	17	3	2	0	1	0	1	0	5	0	4	0	4	2	3	3	4	2	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:221053223C>A	uc001hmv.3	+	1	481	c.24C>A	c.(22-24)CCC>CCA	p.P8P		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	8					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		GGCTGGCTCCCTTCTACGCCT	0.731													8	5					0.000157383	0.000160173	1	1	0		A	221053223	A	A	221053223	2	1	190	1	0	0	0	0	0	0	0	1	7232	668	24	5		5	HLX	1	221053223	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	83119	221053223	28197398	129	94282											
OBSCN	84033	broad.mit.edu	37	chr1	228464338	228464338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgcacaccctcacactctcGgggctgcggccagaggatag	9	6	12	14	2	2	1	1	0	1	1	3	2	2	2	2	4	2	2	2	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:228464338G>A	uc009xez.1	+	22	6452	c.6408G>A	c.(6406-6408)TCG>TCA	p.S2136S	OBSCN_uc001hsn.2_Silent_p.S2136S|OBSCN_uc001hsp.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2136	Ig-like 21.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCACACTCTCGGGGCTGCGGC	0.692													5	11					0	0	1	0	0		A	228464338	A	A	228464338	2	1	190	1	0	0	0	0	0	0	0	1	10831	1103	39	1		1	OBSCN	1	228464338	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7411115	228464338	20786283	130	94283											
OBSCN	84033	broad.mit.edu	37	chr1	228525710	228525710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgagcaggatgccatcacGctgcgggaaggccagtatgt	9	7	15	10	2	1	1	1	1	0	0	1	3	1	3	2	3	3	4	2	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:228525710G>A	uc009xez.1	+	67	16910	c.16866G>A	c.(16864-16866)ACG>ACA	p.T5622T	OBSCN_uc001hsn.2_Silent_p.T5622T|OBSCN_uc001hsr.1_Silent_p.T250T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5622	SH3.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				ATGCCATCACGCTGCGGGAAG	0.627													6	14					0	0	1	0	0		A	228525710	A	A	228525710	2	1	190	1	0	0	0	0	0	0	0	1	10831	1074	38	1		1	OBSCN	1	228525710	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	61372	228525710	20724911	131	94284											
ACTA1	58	broad.mit.edu	37	chr1	229568322	229568322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggtggtcctgccggaggcGtagagggacagcacggcctg	6	5	18	12	4	0	1	0	0	0	1	1	3	1	3	4	6	2	2	4	6	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:229568322G>A	uc001htm.2	-	3	540	c.435C>T	c.(433-435)TAC>TAT	p.Y145Y		NM_001100	NP_001091	P68133	ACTS_HUMAN	actin, alpha 1, skeletal muscle	145					muscle filament sliding|skeletal muscle fiber development|skeletal muscle thin filament assembly	actin filament|cytosol|stress fiber|striated muscle thin filament	ADP binding|ATP binding|myosin binding|structural constituent of cytoskeleton				0	Breast(184;0.0858)|Ovarian(103;0.103)	Prostate(94;0.167)			Dornase Alfa(DB00003)	TGCCGGAGGCGTAGAGGGACA	0.478													32	31					0	0	1	0	0		A	229568322	A	A	229568322	2	1	190	1	0	0	0	0	0	0	0	1	191	1140	40	1		1	ACTA1	1	229568322	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1042612	229568322	19682299	132	94285											
CAPN9	10753	broad.mit.edu	37	chr1	230903329	230903329	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaagggaggcagcgccatCgaggccatggaagacttcac	11	5	14	11	2	1	2	1	1	0	1	2	5	1	4	2	4	1	1	2	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:230903329C>T	uc001htz.1	+	5	692	c.579C>T	c.(577-579)ATC>ATT	p.I193I	CAPN9_uc009xfg.1_Silent_p.I130I|CAPN9_uc001hua.1_Silent_p.I193I	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	193	Calpain catalytic.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				GCAGCGCCATCGAGGCCATGG	0.557													42	45					0	0	1	0	0		T	230903329	T	T	230903329	2	4	190	1	0	0	0	0	0	0	0	1	2635	874	31	1		1	CAPN9	1	230903329	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1335007	230903329	18347292	133	94286											
C1orf124	83932	broad.mit.edu	37	chr1	231488893	231488894	+	Frame_Shift_Ins	INS	-	T	T																															gataagactgtttttgacaaINStttttttatcaagaaagagc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:231488893_231488894insT	uc001hur.2	+	5	1704_1705	c.1256_1257insT	c.(1255-1257)AATfs	p.N419fs	C1orf124_uc001hus.2_3'UTR|C1orf124_uc001hut.2_3'UTR	NM_032018	NP_114407	Q9H040	CA124_HUMAN	hypothetical protein LOC83932 isoform a	419					DNA repair	nuclear speck	DNA binding|metal ion binding				0	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				GTTTTTGACAATTTTTTTATCA	0.396													43	50	---	---	---	---						.	T	231488894	T	T	231488893	7	5	190	1	0	1	1	0	0	0	0	0	1995	101	4	0	1309	0	C1orf124	1	231488893	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	585564	231488893	17761728	134	94287											
PCNXL2	80003	broad.mit.edu	37	chr1	233372604	233372604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacgtacccgtggggtttccGactgggtcctgcgagccacc	5	9	13	14	4	0	0	0	0	0	0	2	2	2	0	5	3	4	2	5	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:233372604G>A	uc001hvl.2	-	9	2580	c.2345C>T	c.(2344-2346)TCG>TTG	p.S782L	PCNXL2_uc009xfu.2_RNA|PCNXL2_uc009xfv.1_RNA|PCNXL2_uc001hvq.1_Missense_Mutation_p.S81L	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	782						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				TGGGGTTTCCGACTGGGTCCT	0.507													45	76					0	0	1	0	0		A	233372604	A	A	233372604	3	1	190	1	0	0	0	0	1	0	0	0	11611	1059	37	1	4172	1	PCNXL2	1	233372604	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1883711	233372604	15878017	135	94288											
MTR	4548	broad.mit.edu	37	chr1	237057711	237057711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgcctctcagacttcatcGctcccttgcattctggcatc	6	13	6	16	1	3	1	2	0	2	1	7	1	4	1	2	1	2	3	2	1	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:237057711G>A	uc001hyi.3	+	30	3682	c.3259G>A	c.(3259-3261)GCT>ACT	p.A1087T	MTR_uc010pxw.1_Missense_Mutation_p.A680T|MTR_uc010pxx.1_Missense_Mutation_p.A1036T|MTR_uc010pxy.1_Missense_Mutation_p.A941T	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine	1087	AdoMet activation.				nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	AGACTTCATCGCTCCCTTGCA	0.562													29	43					0	0	1	0	0		A	237057711	A	A	237057711	3	1	190	1	0	0	0	0	1	0	0	0	9976	1087	38	1	3377	1	MTR	1	237057711	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3685107	237057711	12192910	136	94289											
RYR2	6262	broad.mit.edu	37	chr1	237806639	237806639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatagttgattcatgccGggaagggagaagccatcaga	12	9	13	7	1	2	3	2	1	0	2	2	5	2	4	2	2	2	2	2	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:237806639G>A	uc001hyl.1	+	48	7354	c.7234G>A	c.(7234-7236)GGG>AGG	p.G2412R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2412	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GATTCATGCCGGGAAGGGAGA	0.413													61	71					0	0	1	0	0		A	237806639	A	A	237806639	3	1	190	1	0	0	0	0	1	0	0	0	13794	1116	39	1	7424	1	RYR2	1	237806639	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	748928	237806639	11443982	137	94290											
RYR2	6262	broad.mit.edu	37	chr1	237947294	237947294	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgaacctgcgaaggacatCggcttcaacgtcgccgtcct	9	7	10	15	6	1	0	1	0	0	0	4	3	2	1	3	2	3	1	3	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:237947294C>T	uc001hyl.1	+	90	12402	c.12282C>T	c.(12280-12282)ATC>ATT	p.I4094I	RYR2_uc010pya.1_Silent_p.I509I	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4094					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding	p.I4092I(1)		ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CGAAGGACATCGGCTTCAACG	0.498													12	18					0	0	1	0	0		T	237947294	T	T	237947294	2	4	190	1	0	0	0	0	0	0	0	1	13794	874	31	1		1	RYR2	1	237947294	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	140655	237947294	11303327	138	94291											
ZP4	57829	broad.mit.edu	37	chr1	238051712	238051712	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	agagctataacaacagcctaGcccttcacagtctcctcgag	12	8	7	14	1	2	1	1	0	1	1	4	2	2	1	3	0	5	1	3	0	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:238051712G>T	uc001hym.2	-	4	499	c.499C>A	c.(499-501)CTA>ATA	p.L167I	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	167	P-type.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			CAACAGCCTAGCCCTTCACAG	0.527													32	64					2.61193e-14	2.77158e-14	1	1	0		T	238051712	T	T	238051712	3	4	190	1	0	0	0	0	1	0	0	0	18243	962	34	5	1159	5	ZP4	1	238051712	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	104418	238051712	11198909	139	94292											
FMN2	56776	broad.mit.edu	37	chr1	240256986	240256986	+	Frame_Shift_Del	DEL	C	-	-																															ggccgccaaggcgtctggggCccccgcggctgcggatggct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:240256986delC	uc010pyd.1	+	1	1802	c.1577delC	c.(1576-1578)GCCfs	p.A526fs	FMN2_uc010pye.1_Frame_Shift_Del_p.A526fs	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	526					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GCGTCTGGGGCCCCCGCGGCT	0.726													7	2	---	---	---	---						.	-	240256986	-	-	240256986	7	5	190	1	0	1	0	1	0	0	0	0	5964	739	26	0	1579	0	FMN2	1	240256986	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	2205274	240256986	8993635	140	94293											
EXO1	9156	broad.mit.edu	37	chr1	242035407	242035407	+	Silent	SNP	T	C	C	0	1	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	aagaccaagaaaaatagctcTgaaggcaataaatcattgag	20	7	8	6	0	2	4	1	2	1	2	2	4	2	4	1	1	1	2	1	1	9	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:242035407T>C	uc001hzh.2	+	12	1881	c.1341T>C	c.(1339-1341)TCT>TCC	p.S447S	EXO1_uc001hzi.2_Silent_p.S447S|EXO1_uc001hzj.2_Silent_p.S447S|EXO1_uc009xgq.2_Silent_p.S446S	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	447	Interaction with MLH1.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			AAAATAGCTCTGAAGGCAATA	0.373								Direct_reversal_of_damage|Editing_and_processing_nucleases					27	40					0	0	1	0	0		C	242035407	C	C	242035407	2	2	190	1	0	0	0	0	0	0	0	1	5308	1567	55	3		3	EXO1	1	242035407	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1778421	242035407	7215214	141	94294											
AKT3	10000	broad.mit.edu	37	chr1	243675724	243675724	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgaggtttaaaaggaggtAcaagctgtaaaaagaaagaa	19	8	11	3	0	0	3	0	1	0	2	0	4	0	4	0	3	2	4	0	3	9	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:243675724A>G	uc001iab.1	-	12	1337	c.1256T>C	c.(1255-1257)GTA>GCA	p.V419A	AKT3_uc001hzz.1_Missense_Mutation_p.V419A	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	419	AGC-kinase C-terminal.				signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			AAAAGGAGGTACAAGCTGTAA	0.318													14	23					0	0	1	0	0		G	243675724	G	G	243675724	3	3	190	1	0	0	0	0	1	0	0	0	481	391	14	3	239	3	AKT3	1	243675724	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1640317	243675724	5574897	142	94295											
KIF26B	55083	broad.mit.edu	37	chr1	245850605	245850605	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatgaaatttgaggacccGtggctgaaacgagaagagga	15	6	15	5	2	0	6	0	3	0	3	0	10	0	8	1	3	1	1	1	3	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:245850605G>A	uc001ibf.1	+	12	4760	c.4320G>A	c.(4318-4320)CCG>CCA	p.P1440P	KIF26B_uc001ibg.1_Silent_p.P1058P|KIF26B_uc001ibh.1_Silent_p.P682P	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1440					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			TTGAGGACCCGTGGCTGAAAC	0.552													7	7					0	0	1	0	0		A	245850605	A	A	245850605	2	1	190	1	0	0	0	0	0	0	0	1	8311	1132	40	1		1	KIF26B	1	245850605	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2174881	245850605	3400016	143	94296											
CNST	163882	broad.mit.edu	37	chr1	246810568	246810568	+	Silent	SNP	A	G	G	1	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	ccaagcctttcggtaactgcAggaaaggaccacatggagga	13	6	12	10	1	0	0	0	0	0	0	1	4	0	4	3	5	3	2	3	5	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:246810568A>G	uc001ibp.2	+	9	1443	c.1065A>G	c.(1063-1065)GCA>GCG	p.A355A	CNST_uc001ibo.3_Silent_p.A355A	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	355					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						CGGTAACTGCAGGAAAGGACC	0.582											OREG0014367	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	46					0	0	1	0	0		G	246810568	G	G	246810568	2	3	190	1	0	0	0	0	0	0	0	1	3637	175	7	3		3	CNST	1	246810568	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	959963	246810568	2440053	144	94297											
ZNF496	84838	broad.mit.edu	37	chr1	247464071	247464071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctttgggacccttgtccGcgtcctcggatgccgcctgc	2	11	12	16	4	1	0	0	0	1	0	4	2	3	2	5	2	2	1	5	2	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr1:247464071G>A	uc001ico.2	-	9	1979	c.1514C>T	c.(1513-1515)GCG>GTG	p.A505V	ZNF496_uc009xgv.2_Missense_Mutation_p.A541V|ZNF496_uc001icp.2_Missense_Mutation_p.A505V	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	505					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			ACCCTTGTCCGCGTCCTCGGA	0.637													38	56					0	0	1	0	0		A	247464071	A	A	247464071	3	1	190	1	0	0	0	0	1	0	0	0	17970	1087	38	1	253	1	ZNF496	1	247464071	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	653503	247464071	1786550	145	94298											
PXDN	7837	broad.mit.edu	37	chr2	1652681	1652681	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgtcccgcatgcactcCgtgggcggcccggtggcgaa	4	8	14	15	6	1	0	0	0	1	0	4	1	3	0	3	4	1	2	3	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:1652681C>T	uc002qxa.2	-	17	2935	c.2871G>A	c.(2869-2871)ACG>ACA	p.T957T		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	957					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCATGCACTCCGTGGGCGGCC	0.726													7	7					0	0	1	0	0		T	1652681	T	T	1652681	2	4	190	1	0	0	0	0	0	0	0	1	12872	639	23	1		1	PXDN	2	1652681	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08		1652681	241546692	146	94299											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10863007	10863007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttggttaatttctgcccctgGcgataaggaaaatttgcaag	11	13	10	7	1	1	0	0	0	1	0	1	2	1	1	2	3	2	2	2	3	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:10863007G>T	uc002ras.2	+	2	141	c.32G>T	c.(31-33)GGC>GTC	p.G11V	ATP6V1C2_uc002rat.2_Missense_Mutation_p.G11V	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	11					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		TCTGCCCCTGGCGATAAGGAA	0.438													22	40					2.89027e-11	3.04744e-11	1	1	0		T	10863007	T	T	10863007	3	4	190	1	0	0	0	0	1	0	0	0	1182	1203	42	5	34	5	ATP6V1C2	2	10863007	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	9210326	10863007	232336366	147	94300											
ROCK2	9475	broad.mit.edu	37	chr2	11356319	11356319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctttgctgttttttctaggcGagtattaacagatctaaaga	11	16	8	6	1	2	2	0	0	2	2	2	3	2	2	0	1	2	3	0	1	5	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:11356319G>A	uc002rbd.1	-	13	1875	c.1426C>T	c.(1426-1428)CGC>TGC	p.R476C		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	476	REM.|Potential.|Interaction with PPP1R12A.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		TTTTCTAGGCGAGTATTAACA	0.274													32	56					0	0	1	0	0		A	11356319	A	A	11356319	3	1	190	1	0	0	0	0	1	0	0	0	13543	1058	37	1	2824	1	ROCK2	2	11356319	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	493312	11356319	231843054	148	94301											
GREB1	9687	broad.mit.edu	37	chr2	11777862	11777862	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtctgataactctgccgcGgtcgtgccggcccagtacat	6	10	12	13	4	2	1	0	1	2	0	3	1	2	1	3	2	4	1	3	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:11777862G>A	uc002rbk.1	+	31	5667	c.5367G>A	c.(5365-5367)GCG>GCA	p.A1789A	GREB1_uc002rbp.1_Silent_p.A787A	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1789						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		ACTCTGCCGCGGTCGTGCCGG	0.667													19	28					0	0	1	0	0		A	11777862	A	A	11777862	2	1	190	1	0	0	0	0	0	0	0	1	6776	1103	39	1		1	GREB1	2	11777862	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	421543	11777862	231421511	149	94302											
NBAS	51594	broad.mit.edu	37	chr2	15534361	15534361	+	Missense_Mutation	SNP	T	C	C	0	1	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	tattactcacttccggccagTgtgcctcgtcaatctaacca	9	12	6	14	2	3	0	2	0	1	0	5	0	4	0	4	1	3	0	4	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:15534361T>C	uc002rcc.1	-	28	3273	c.3247A>G	c.(3247-3249)ACT>GCT	p.T1083A	NBAS_uc010exl.1_Missense_Mutation_p.T155A|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1083										ovary(2)|liver(1)|skin(1)	4						TTCCGGCCAGTGTGCCTCGTC	0.299													8	12					0	0	1	0	0		C	15534361	C	C	15534361	3	2	190	1	0	0	0	0	1	0	0	0	10204	1696	59	3	3968	3	NBAS	2	15534361	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3756499	15534361	227665012	150	94303											
NBAS	51594	broad.mit.edu	37	chr2	15676570	15676570	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaacttctaagttctcctcGgtaattgatgaccaggagtt	10	14	9	8	1	2	2	0	2	2	0	4	3	2	3	2	2	1	4	2	2	3	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:15676570G>A	uc002rcc.1	-	8	645	c.619C>T	c.(619-621)CGA>TGA	p.R207*	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	207										ovary(2)|liver(1)|skin(1)	4						AGTTCTCCTCGGTAATTGATG	0.343													52	99					0	0	1	0	0		A	15676570	A	A	15676570	4	1	190	1	0	0	0	0	0	1	0	0	10204	1124	39	1	6676	1	NBAS	2	15676570	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	142209	15676570	227522803	151	94304											
OSR1	130497	broad.mit.edu	37	chr2	19553155	19553155	+	Frame_Shift_Del	DEL	C	-	-																															tgcaggggagcctgggccctCcccgcgaccgagcttggccg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:19553155delC	uc002rdc.2	-	2	715	c.412delG	c.(412-414)GAGfs	p.E138fs		NM_145260	NP_660303	Q8TAX0	OSR1_HUMAN	odd-skipped related 1	138					chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|heart development|mesangial cell development|mesonephric duct morphogenesis|metanephric cap mesenchymal cell proliferation involved in metanephros development|metanephric glomerulus vasculature development|metanephric interstitial cell development|metanephric mesenchymal cell differentiation|metanephric nephron tubule development|metanephric smooth muscle tissue development|middle ear morphogenesis|negative regulation of apoptosis|negative regulation of nephron tubule epithelial cell differentiation|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|pattern specification involved in metanephros development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of gastrulation|positive regulation of transcription from RNA polymerase II promoter|pronephros development|renal vesicle progenitor cell differentiation|specification of anterior mesonephric tubule identity|specification of posterior mesonephric tubule identity|stem cell differentiation|transcription, DNA-dependent|ureter urothelium development|ureteric bud development	nucleolus	nucleic acid binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	Acute lymphoblastic leukemia(84;0.221)				CCTGGGCCCTCCCCGCGACCG	0.632													26	51	---	---	---	---						.	-	19553155	-	-	19553155	7	5	190	1	0	1	0	1	0	0	0	0	11312	864	30	0	396	0	OSR1	2	19553155	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	3876585	19553155	223646218	152	94305											
ITSN2	50618	broad.mit.edu	37	chr2	24509095	24509096	+	Frame_Shift_Ins	INS	-	A	A																															aatacctttagttgattgttINSaaaagaatccatttctgaca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:24509095_24509096insA	uc002rfe.2	-	16	2106_2107	c.1848_1849insT	c.(1846-1851)TTTAACfs	p.F616fs	ITSN2_uc002rff.2_Frame_Shift_Ins_p.F616fs|ITSN2_uc002rfg.2_Frame_Shift_Ins_p.F616fs|ITSN2_uc010eyd.2_Frame_Shift_Ins_p.F641fs	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	616_617	Potential.				endocytosis|regulation of Rho protein signal transduction	cytoplasm	calcium ion binding|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			kidney(2)|ovary(1)|central_nervous_system(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGTTGATTGTTAAAAGAATCCA	0.267													19	23	---	---	---	---						.	A	24509096	A	A	24509095	7	5	190	1	0	1	1	0	0	0	0	0	7943	1754	61	0	3395	0	ITSN2	2	24509095	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	4955940	24509095	218690278	153	94306											
ADCY3	109	broad.mit.edu	37	chr2	25047345	25047345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtcgcatctcatagacacGttccttctggtcgtggacct	6	12	10	13	4	2	1	1	0	2	1	6	2	3	2	2	2	0	2	2	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:25047345G>A	uc002rfs.3	-	16	2837	c.2638C>T	c.(2638-2640)CGT>TGT	p.R880C	ADCY3_uc002rfr.3_Missense_Mutation_p.R467C|ADCY3_uc010ykm.1_Missense_Mutation_p.R881C	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	880	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					TCATAGACACGTTCCTTCTGG	0.532													26	40					0	0	1	0	0		A	25047345	A	A	25047345	3	1	190	1	0	0	0	0	1	0	0	0	295	1145	40	1	820	1	ADCY3	2	25047345	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	538250	25047345	218152028	154	94307											
DNMT3A	1788	broad.mit.edu	37	chr2	25523110	25523110	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctcctgctcctctccGtcctgcaggcacagacacag	6	8	9	18	1	1	1	0	0	1	1	6	1	5	1	5	2	2	4	5	2	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:25523110G>A	uc002rgc.2	-	3	332	c.75C>T	c.(73-75)GAC>GAT	p.D25D	DNMT3A_uc002rgd.2_Silent_p.D25D|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rge.2_Silent_p.D22D|DNMT3A_uc002rgf.2_Silent_p.D25D	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	25					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCTCCTCTCCGTCCTGCAGGC	0.687			Mis|F|N|S		AML								10	17					0	0	1	0	0		A	25523110	A	A	25523110	2	1	190	1	0	0	0	0	0	0	0	1	4682	1136	40	1		1	DNMT3A	2	25523110	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	475765	25523110	217676263	155	94308											
EMILIN1	11117	broad.mit.edu	37	chr2	27306221	27306221	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtccaagaggaactaggccgCcttcgggatggtgtggagcg	8	7	17	9	3	0	1	0	0	0	1	2	4	1	4	3	5	2	0	3	5	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:27306221C>T	uc002rii.3	+	4	2210	c.1782C>T	c.(1780-1782)CGC>CGT	p.R594R	EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	594	Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACTAGGCCGCCTTCGGGATG	0.701													17	22					0	0	1	0	0		T	27306221	T	T	27306221	2	4	190	1	0	0	0	0	0	0	0	1	5101	726	26	2		2	EMILIN1	2	27306221	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1783111	27306221	215893152	156	94309											
IFT172	26160	broad.mit.edu	37	chr2	27700448	27700448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctcattttcaaagaaatacTtctcattgccaccagatcct	12	14	3	12	0	3	2	3	0	2	2	6	2	4	2	3	0	2	0	3	0	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:27700448T>C	uc002rku.2	-	12	1250	c.1199A>G	c.(1198-1200)AAG>AGG	p.K400R	IFT172_uc002rkw.2_Missense_Mutation_p.K400R|IFT172_uc010yls.1_Missense_Mutation_p.K379R|IFT172_uc010ezc.2_Missense_Mutation_p.K400R|IFT172_uc002rkv.2_Missense_Mutation_p.K374R	NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	400					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					AAAGAAATACTTCTCATTGCC	0.403													32	31					0	0	1	0	0		C	27700448	C	C	27700448	3	2	190	1	0	0	0	0	1	0	0	0	7573	1609	56	3	4198	3	IFT172	2	27700448	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	394227	27700448	215498925	157	94310											
CCDC121	79635	broad.mit.edu	37	chr2	27850362	27850362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcattgcctgcaacttcCgcttcaaactggattggata	9	12	7	13	1	2	0	2	0	0	0	3	2	3	2	3	2	4	2	3	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:27850362C>T	uc002rle.2	-	2	486	c.305G>A	c.(304-306)CGG>CAG	p.R102Q	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_Missense_Mutation_p.R266Q|CCDC121_uc002rld.2_Missense_Mutation_p.R264Q|GPN1_uc010ezf.2_5'Flank|GPN1_uc010yma.1_5'Flank|GPN1_uc010ymb.1_5'Flank|GPN1_uc010ymc.1_5'Flank|GPN1_uc010ymd.1_5'Flank|GPN1_uc010yme.1_5'Flank|GPN1_uc010ezg.1_5'Flank	NM_024584	NP_078860	Q6ZUS5	CC121_HUMAN	coiled-coil domain containing 121 isoform 3	102											0	Acute lymphoblastic leukemia(172;0.155)					CTGCAACTTCCGCTTCAAACT	0.408													94	158					0	0	1	0	0		T	27850362	T	T	27850362	3	4	190	1	0	0	0	0	1	0	0	0	2760	652	23	1	535	1	CCDC121	2	27850362	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	149914	27850362	215349011	158	94311											
GPN1	11321	broad.mit.edu	37	chr2	27852006	27852006	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtctgttggtgttgggaatGgcgggatccgggaaaaccac	8	10	16	7	2	1	0	0	0	1	0	2	3	2	3	2	5	1	2	2	5	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:27852006G>T	uc010ymc.1	+	1	144	c.123G>T	c.(121-123)ATG>ATT	p.M41I	ZNF512_uc010yly.1_Intron|CCDC121_uc010eze.2_5'Flank|CCDC121_uc002rld.2_5'Flank|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Intron|GPN1_uc010yma.1_Intron|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_5'UTR|GPN1_uc010yme.1_Missense_Mutation_p.M41I|GPN1_uc010ezg.1_5'Flank	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	27	GTP (Pootential).					cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TGTTGGGAATGGCGGGATCCG	0.632													12	45					9.31168e-06	9.54176e-06	1	1	0		T	27852006	T	T	27852006	3	4	190	1	0	0	0	0	1	0	0	0	6632	1348	47	5	136	5	GPN1	2	27852006	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1644	27852006	215347367	159	94312											
PLB1	151056	broad.mit.edu	37	chr2	28739709	28739709	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catacctctcctagaaagagTacattggaagggcagctatg	13	9	10	9	0	1	2	0	0	1	2	2	3	1	3	2	2	3	3	2	2	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:28739709T>C	uc002rmb.1	+	2	90	c.90T>C	c.(88-90)AGT>AGC	p.S30S	PLB1_uc010ezj.1_Silent_p.S30S	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	30	Extracellular (Potential).				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					CTAGAAAGAGTACATTGGAAG	0.478													41	62					0	0	1	0	0		C	28739709	C	C	28739709	2	2	190	1	0	0	0	0	0	0	0	1	12043	1635	57	3		3	PLB1	2	28739709	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	887703	28739709	214459664	160	94313											
XDH	7498	broad.mit.edu	37	chr2	31588866	31588866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcagccagggccactgccGtggacaccacagtgctccgg	8	5	13	15	2	0	0	0	0	0	0	1	1	1	1	5	3	4	2	5	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:31588866G>A	uc002rnv.1	-	22	2511	c.2432C>T	c.(2431-2433)ACG>ATG	p.T811M		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	811					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GGCCACTGCCGTGGACACCAC	0.537													28	43					0	0	1	0	0		A	31588866	A	A	31588866	3	1	190	1	0	0	0	0	1	0	0	0	17452	1145	40	1	1629	1	XDH	2	31588866	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2849157	31588866	211610507	161	94314											
BIRC6	57448	broad.mit.edu	37	chr2	32740783	32740783	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgagaatgcaactgttgcGttctttctacagtgcatttc	9	16	8	8	1	2	1	0	1	2	1	3	2	2	1	0	0	5	4	0	0	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:32740783G>A	uc010ezu.2	+	55	11429	c.11295G>A	c.(11293-11295)GCG>GCA	p.A3765A		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	3765					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CAACTGTTGCGTTCTTTCTAC	0.393													33	28					0	0	1	0	0		A	32740783	A	A	32740783	2	1	190	1	0	0	0	0	0	0	0	1	1439	1132	40	1		1	BIRC6	2	32740783	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1151917	32740783	210458590	162	94315											
HNRPLL	92906	broad.mit.edu	37	chr2	38800365	38800365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacttaccttctcaatatttCcatataagcagaacaggttg	14	13	5	9	0	1	1	1	0	1	1	3	1	2	1	2	1	4	2	2	1	7	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:38800365C>T	uc002rqw.2	-	8	1489	c.1079G>A	c.(1078-1080)GGA>GAA	p.G360E	HNRPLL_uc002rqv.2_Missense_Mutation_p.G55E|HNRPLL_uc002rqx.2_Missense_Mutation_p.G355E	NM_138394	NP_612403	Q8WVV9	HNRLL_HUMAN	heterogeneous nuclear ribonucleoprotein L-like	360	RRM 3.				mRNA processing|positive regulation of RNA splicing	nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding			skin(1)	1		all_hematologic(82;0.248)				CTCAATATTTCCATATAAGCA	0.353													13	29					0	0	1	0	0		T	38800365	T	T	38800365	3	4	190	1	0	0	0	0	1	0	0	0	7293	855	30	4	573	4	HNRPLL	2	38800365	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6059582	38800365	204399008	163	94316											
SLC8A1	6546	broad.mit.edu	37	chr2	40366803	40366803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccccacattcatcgtcGtcatcatcttcccctagaga	8	13	4	16	2	5	1	3	0	2	1	9	2	7	1	4	0	0	0	4	0	1	4	rs139842575		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:40366803G>A	uc002rrx.2	-	9	2307	c.2283C>T	c.(2281-2283)GAC>GAT	p.D761D	uc002rrw.2_Intron|SLC8A1_uc002rry.2_Silent_p.D756D|SLC8A1_uc002rrz.2_Silent_p.D748D|SLC8A1_uc002rsa.2_Silent_p.D725D|SLC8A1_uc002rsd.3_Silent_p.D725D	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	761	Cytoplasmic (Potential).|Poly-Asp.				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	ATTCATCGTCGTCATCATCTT	0.502													54	74					0	0	1	0	0		A	40366803	A	A	40366803	2	1	190	1	0	0	0	0	0	0	0	1	14731	1136	40	1		1	SLC8A1	2	40366803	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1566438	40366803	202832570	164	94317											
TTC7A	57217	broad.mit.edu	37	chr2	47220638	47220638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gggaggtgctgcggactgtgGagaccaaagcaactcagaac	12	5	15	9	1	1	2	1	0	0	2	1	5	1	4	1	4	5	2	1	4	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:47220638G>A	uc002rvo.2	+	6	1182	c.814G>A	c.(814-816)GAG>AAG	p.E272K	TTC7A_uc002rvm.2_Missense_Mutation_p.E238K|TTC7A_uc002rvn.1_Missense_Mutation_p.E153K|TTC7A_uc010fbb.2_Missense_Mutation_p.E272K|TTC7A_uc010fbc.2_5'UTR|TTC7A_uc002rvp.2_Missense_Mutation_p.E153K|TTC7A_uc002rvq.2_Missense_Mutation_p.E12K|TTC7A_uc002rvr.2_5'Flank	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	272							binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			GCGGACTGTGGAGACCAAAGC	0.532													34	50					0	0	1	0	0		A	47220638	A	A	47220638	3	1	190	1	0	0	0	0	1	0	0	0	16738	1175	41	4	836	4	TTC7A	2	47220638	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6853835	47220638	195978735	165	94318											
SPTBN1	6711	broad.mit.edu	37	chr2	54853348	54853348	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaggaaatgctctacattAtggactggatggatgaaatg	13	11	11	6	0	1	1	0	1	1	0	2	5	2	5	1	4	2	1	1	4	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:54853348A>G	uc002rxu.2	+	12	1870	c.1621A>G	c.(1621-1623)ATG>GTG	p.M541V	SPTBN1_uc002rxv.1_Missense_Mutation_p.M541V|SPTBN1_uc002rxx.2_Missense_Mutation_p.M528V	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	541	Spectrin 3.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GCTCTACATTATGGACTGGAT	0.512													16	13					0	0	1	0	0		G	54853348	G	G	54853348	3	3	190	1	0	0	0	0	1	0	0	0	15144	449	16	3	1776	3	SPTBN1	2	54853348	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	7632710	54853348	188346025	166	94319											
ALMS1	7840	broad.mit.edu	37	chr2	73650099	73650099	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaactaagttttgcacctcTgaggtaggatgatttatttg	10	16	10	5	0	1	3	0	3	1	0	1	4	1	4	1	2	2	3	1	2	4	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:73650099T>C	uc002sje.1	+	5	875	c.764T>C	c.(763-765)CTG>CCG	p.L255P	ALMS1_uc002sjf.1_Missense_Mutation_p.L212P	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	254					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						TTTGCACCTCTGAGGTAGGAT	0.393													66	102					0	0	1	0	0		C	73650099	C	C	73650099	3	2	190	1	0	0	0	0	1	0	0	0	535	1580	55	3	775	3	ALMS1	2	73650099	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	18796751	73650099	169549274	167	94320											
TET3	200424	broad.mit.edu	37	chr2	74329152	74329152	+	Frame_Shift_Del	DEL	G	-	-																															ctacgggaagaagcgcaagtGggggggcactgtggttgctg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:74329152delG	uc002skb.3	+	9	4832	c.4832delG	c.(4831-4833)TGGfs	p.W1611fs		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	1611							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						AAGCGCAAGTGGGGGGGCACT	0.687													8	15	---	---	---	---						.	-	74329152	-	-	74329152	7	5	190	1	0	1	0	1	0	0	0	0	15796	1357	47	0	4866	0	TET3	2	74329152	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	679053	74329152	168870221	168	94321											
SLC4A5	57835	broad.mit.edu	37	chr2	74460640	74460640	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cttgctgggtatacccaccaCgggttcttcccaaagggggc	7	9	12	13	1	1	0	0	0	1	0	2	0	2	0	3	4	2	3	3	4	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:74460640C>T	uc002sko.1	-	18	2486	c.2484G>A	c.(2482-2484)CCG>CCA	p.P828P	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.P828P|SLC4A5_uc010ffc.1_Silent_p.P828P|SLC4A5_uc002skp.1_Silent_p.P726P|SLC4A5_uc002sks.1_Silent_p.P790P	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	828	Helical; (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						ATACCCACCACGGGTTCTTCC	0.607													17	21					0	0	1	0	0		T	74460640	T	T	74460640	2	4	190	1	0	0	0	0	0	0	0	1	14682	523	19	1		1	SLC4A5	2	74460640	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	131488	74460640	168738733	169	94322											
AUP1	550	broad.mit.edu	37	chr2	74755023	74755023	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctttcctccctctcctcCtaagcagggaccccgcctcc	6	9	6	20	1	1	0	0	0	1	0	6	1	5	1	8	1	2	2	8	1	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:74755023C>A	uc002sme.2	-	1	277	c.-120G>T	c.(-122--118)TAGGA>TATGA		DQX1_uc010yrw.1_5'Flank|AUP1_uc002smf.2_Intron|AUP1_uc002smg.2_Intron|AUP1_uc002smh.2_Intron|AUP1_uc010yrx.1_Intron|HTRA2_uc002smi.1_5'Flank|HTRA2_uc002smj.1_5'Flank|HTRA2_uc002smk.1_5'Flank|HTRA2_uc002sml.1_5'Flank|HTRA2_uc002smm.1_5'Flank|HTRA2_uc002smn.1_5'Flank|HTRA2_uc010ffl.2_5'Flank			Q9Y679	AUP1_HUMAN	Homo sapiens AUP1 homolog mRNA, complete cds.							endoplasmic reticulum membrane|integral to membrane|nucleus	protein binding				0						CCCTCTCCTCCTAAGCAGGGA	0.572													83	101					1.26005e-42	1.38328e-42	1	1	0		A	74755023	A	A	74755023	1	1	190	1	0	0	0	0	0	0	0	0	1221	696	24	5		5	AUP1	2	74755023	Translation_Start_Site	SNP	C	TCGA-F1-6177-01A-11D-1800-08	294383	74755023	168444350	170	94323											
TCF7L1	83439	broad.mit.edu	37	chr2	85536360	85536360	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaccagaaacccgggcccaGctggctctccactctgccgc	9	5	9	18	2	2	1	0	0	2	1	3	1	2	1	5	2	4	2	5	2	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:85536360G>T	uc002soy.2	+	12	1616	c.1542G>T	c.(1540-1542)CAG>CAT	p.Q514H		NM_031283	NP_112573	Q9HCS4	TF7L1_HUMAN	HMG-box transcription factor TCF-3	514					chromatin organization|regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)|central_nervous_system(1)	3						CCCGGGCCCAGCTGGCTCTCC	0.687													25	42					5.45024e-15	5.78749e-15	1	1	0		T	85536360	T	T	85536360	3	4	190	1	0	0	0	0	1	0	0	0	15722	962	34	5	1588	5	TCF7L1	2	85536360	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10781337	85536360	157663013	171	94324											
EIF2AK3	9451	broad.mit.edu	37	chr2	88876178	88876178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcccgggtgttcaagcttggCtaaggctttaacttctcgca	7	12	11	11	2	2	0	1	0	1	0	3	0	2	0	1	3	2	5	1	3	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:88876178C>T	uc002stc.3	-	12	2132	c.1930G>A	c.(1930-1932)GCC>ACC	p.A644T		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	644	Cytoplasmic (Potential).|Protein kinase.				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						TCAAGCTTGGCTAAGGCTTTA	0.338													33	44					0	0	1	0	0		T	88876178	T	T	88876178	3	4	190	1	0	0	0	0	1	0	0	0	5004	797	28	2	1444	2	EIF2AK3	2	88876178	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3339818	88876178	154323195	172	94325											
DUSP2	1844	broad.mit.edu	37	chr2	96809731	96809731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagagcgcgagatacccGcctggcagtgcaccagcacc	9	4	13	15	3	0	2	0	0	0	2	0	3	0	2	4	2	4	4	4	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:96809731G>A	uc002svk.3	-	4	862	c.776C>T	c.(775-777)GCG>GTG	p.A259V		NM_004418	NP_004409	Q05923	DUS2_HUMAN	dual specificity phosphatase 2	259	Tyrosine-protein phosphatase.				endoderm formation|inactivation of MAPK activity|regulation of apoptosis	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			breast(1)	1		Ovarian(717;0.0228)				CGAGATACCCGCCTGGCAGTG	0.632													18	22					0	0	1	0	0		A	96809731	A	A	96809731	3	1	190	1	0	0	0	0	1	0	0	0	4825	1087	38	1	172	1	DUSP2	2	96809731	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7933553	96809731	146389642	173	94326											
SNRNP200	23020	broad.mit.edu	37	chr2	96945252	96945252	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcaaagggcggttggcGtggcccaccatctgaagcac	8	7	13	13	2	1	1	0	1	1	0	2	1	2	1	3	4	2	3	3	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:96945252G>A	uc002svu.2	-	36	5156	c.5070C>T	c.(5068-5070)CAC>CAT	p.H1690H	SNRNP200_uc002svt.2_Silent_p.H300H|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1690	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						GGCGGTTGGCGTGGCCCACCA	0.552													18	22					0	0	1	0	0		A	96945252	A	A	96945252	2	1	190	1	0	0	0	0	0	0	0	1	14877	1136	40	1		1	SNRNP200	2	96945252	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	135521	96945252	146254121	174	94327											
VWA3B	200403	broad.mit.edu	37	chr2	98928382	98928382	+	Missense_Mutation	SNP	A	G	G	1	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	gacgagagaagcccaggaggAaaaagaggcccgccaagcag	16	0	15	10	2	0	2	0	0	0	2	0	7	0	4	3	3	2	1	3	3	4	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:98928382A>G	uc002syo.2	+	27	3886	c.3622A>G	c.(3622-3624)AAA>GAA	p.K1208E	VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.K865E|VWA3B_uc002syp.1_Missense_Mutation_p.K600E|VWA3B_uc002syq.1_Missense_Mutation_p.K484E|VWA3B_uc002syr.1_Missense_Mutation_p.K525E|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1208										ovary(3)|large_intestine(2)|skin(1)	6						GCCCAGGAGGAAAAAGAGGCC	0.627													7	11					0	0	1	0	0		G	98928382	G	G	98928382	3	3	190	1	0	0	0	0	1	0	0	0	17267	247	9	3	3724	3	VWA3B	2	98928382	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1983130	98928382	144270991	175	94328											
CNGA3	1261	broad.mit.edu	37	chr2	98994192	98994192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatcgtcagtgctgcagccGgggatcgccatggagaccag	9	6	14	12	3	1	1	1	0	0	1	3	3	1	2	3	3	3	2	3	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:98994192G>A	uc002syt.2	+	3	561	c.144G>A	c.(142-144)CCG>CCA	p.P48P	CNGA3_uc002syu.2_Silent_p.P48P|CNGA3_uc010fij.2_5'UTR	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	48			P -> L.		signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						TGCTGCAGCCGGGGATCGCCA	0.582													10	19					0	0	1	0	0		A	98994192	A	A	98994192	2	1	190	1	0	0	0	0	0	0	0	1	3601	1103	39	1		1	CNGA3	2	98994192	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	65810	98994192	144205181	176	94329											
AFF3	3899	broad.mit.edu	37	chr2	100623849	100623849	+	Frame_Shift_Del	DEL	A	-	-																															tctgattggatctatcagttAaaaagtctttcatttcatca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:100623849delA	uc002tag.2	-	5	484	c.248delT	c.(247-249)TTAfs	p.L83fs	AFF3_uc002taf.2_Frame_Shift_Del_p.L108fs|AFF3_uc010fiq.1_Frame_Shift_Del_p.L83fs|AFF3_uc010yvr.1_Frame_Shift_Del_p.L237fs|AFF3_uc002tah.1_Frame_Shift_Del_p.L108fs|AFF3_uc010fir.1_Frame_Shift_Del_p.L160fs|AFF3_uc002tai.2_Frame_Shift_Del_p.L5fs	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	83					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TCTATCAGTTAAAAAGTCTTT	0.423													44	38	---	---	---	---						.	-	100623849	-	-	100623849	7	5	190	1	0	1	0	1	0	0	0	0	358	372	13	0	3512	0	AFF3	2	100623849	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	1629657	100623849	142575524	177	94330											
GPR45	11250	broad.mit.edu	37	chr2	105858894	105858894	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acggagctccccgctgaccgCgcctacgtggtcaccttggt	5	8	12	16	5	1	1	1	1	0	0	2	2	2	2	5	3	2	2	5	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:105858894C>T	uc002tco.1	+	1	695	c.579C>T	c.(577-579)CGC>CGT	p.R193R		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	193	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						CCGCTGACCGCGCCTACGTGG	0.687													13	15					0	0	1	0	0		T	105858894	T	T	105858894	2	4	190	1	0	0	0	0	0	0	0	1	6711	755	27	1		1	GPR45	2	105858894	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5235045	105858894	137340479	178	94331											
RGPD4	285190	broad.mit.edu	37	chr2	108489258	108489258	+	Frame_Shift_Del	DEL	A	-	-																															ctgaaagcaaagtggaacctAaaaaatgtgaactgtcaaag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:108489258delA	uc010ywk.1	+	20	4880	c.4798delA	c.(4798-4800)AAAfs	p.K1600fs	RGPD4_uc002tdu.2_Frame_Shift_Del_p.K787fs|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1600					intracellular transport		binding			skin(2)	2						AGTGGAACCTAAAAAATGTGA	0.363													80	158	---	---	---	---						.	-	108489258	-	-	108489258	7	5	190	1	0	1	0	1	0	0	0	0	13313	363	13	0	4876	0	RGPD4	2	108489258	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	2630364	108489258	134710115	179	94332											
RANBP2	5903	broad.mit.edu	37	chr2	109382397	109382397	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgagagttcttccttaaaatGtgtggcttgtgatgcctcta	8	16	10	7	0	2	2	0	2	2	1	3	3	3	2	2	1	1	2	2	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:109382397G>A	uc002tem.3	+	20	5528	c.5402G>A	c.(5401-5403)TGT>TAT	p.C1801Y		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	1801	RanBP2-type 8.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TCCTTAAAATGTGTGGCTTGT	0.428													6	115					0	0	1	0	0		A	109382397	A	A	109382397	3	1	190	1	0	0	0	0	1	0	0	0	13053	1377	48	4	5480	4	RANBP2	2	109382397	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	893139	109382397	133816976	180	94333											
PSD4	23550	broad.mit.edu	37	chr2	113943688	113943688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagtcttcactcttggagaCggatggggaacagccaagtt	11	9	12	9	1	3	1	1	0	2	1	3	4	3	3	1	4	2	1	1	4	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:113943688C>T	uc002tjc.2	+	5	1667	c.1484C>T	c.(1483-1485)ACG>ATG	p.T495M	PSD4_uc002tjd.2_Missense_Mutation_p.T116M|PSD4_uc002tje.2_Missense_Mutation_p.T466M|PSD4_uc002tjf.2_Missense_Mutation_p.T116M	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	pleckstrin and Sec7 domain containing 4	495					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						CTCTTGGAGACGGATGGGGAA	0.562													32	33					0	0	1	0	0		T	113943688	T	T	113943688	3	4	190	1	0	0	0	0	1	0	0	0	12671	536	19	1	1498	1	PSD4	2	113943688	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4561291	113943688	129255685	181	94334											
PAX8	7849	broad.mit.edu	37	chr2	114002038	114002038	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacactgggcacagtgtcatTgtcacagacgccctcagcca	10	7	10	14	1	3	1	3	0	0	1	3	2	3	1	2	1	1	1	2	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:114002038T>C	uc010yxt.1	-	4	521	c.355A>G	c.(355-357)AAT>GAT	p.N119D	PAX8_uc010yxu.1_Missense_Mutation_p.N119D|PAX8_uc010yxv.1_Missense_Mutation_p.N119D|PAX8_uc002tjm.2_Missense_Mutation_p.N119D|PAX8_uc002tjn.2_Missense_Mutation_p.N119D|PAX8_uc010fku.1_Missense_Mutation_p.N119D|LOC654433_uc002tjq.3_Intron|LOC654433_uc010fks.2_Intron|LOC654433_uc010fkt.2_Intron|LOC654433_uc002tjr.3_Intron	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	119	Paired.				branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						ACAGTGTCATTGTCACAGACG	0.567			T	PPARG	follicular thyroid		Thyroid dysgenesis 						82	133					0	0	1	0	0		C	114002038	C	C	114002038	3	2	190	1	0	0	0	0	1	0	0	0	11504	1812	63	3	908	3	PAX8	2	114002038	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	58350	114002038	129197335	182	94335											
DPP10	57628	broad.mit.edu	37	chr2	116534869	116534869	+	Frame_Shift_Del	DEL	A	-	-																															ggcatacgatgaaactactcAaaaaatgtgagtgttttcag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:116534869delA	uc002tla.1	+	14	1764	c.1307delA	c.(1306-1308)CAAfs	p.Q436fs	DPP10_uc002tlb.1_Frame_Shift_Del_p.Q386fs|DPP10_uc002tlc.1_Frame_Shift_Del_p.Q432fs|DPP10_uc002tle.2_Frame_Shift_Del_p.Q440fs|DPP10_uc002tlf.1_Frame_Shift_Del_p.Q429fs	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	436	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						GAAACTACTCAAAAAATGTGA	0.383													21	24	---	---	---	---						.	-	116534869	-	-	116534869	7	5	190	1	0	1	0	1	0	0	0	0	4733	130	5	0	1532	0	DPP10	2	116534869	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	2532831	116534869	126664504	183	94336											
STEAP3	55240	broad.mit.edu	37	chr2	120020712	120020712	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gacccgcgccttcgaggagaGccgctacaagttctacctgc	8	7	11	15	4	1	1	0	0	1	1	2	4	1	1	4	1	4	2	4	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:120020712G>A	uc002tlp.2	+	6	1422	c.1265G>A	c.(1264-1266)AGC>AAC	p.S422N	STEAP3_uc002tlq.2_Missense_Mutation_p.S432N|STEAP3_uc002tlr.2_Missense_Mutation_p.S422N|STEAP3_uc010fle.2_3'UTR	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	422	Vesicular (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						TTCGAGGAGAGCCGCTACAAG	0.617													42	51					0	0	1	0	0		A	120020712	A	A	120020712	3	1	190	1	0	0	0	0	1	0	0	0	15304	971	34	2	1313	2	STEAP3	2	120020712	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3485843	120020712	123178661	184	94337											
INHBB	3625	broad.mit.edu	37	chr2	121104166	121104166	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccacgccagcccgggcgcCgacggccaggagcgcgtttc	5	3	16	17	7	0	0	0	0	0	0	1	2	0	1	5	4	2	1	5	4	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:121104166C>T	uc002tmn.2	+	1	448	c.402C>T	c.(400-402)GCC>GCT	p.A134A		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	134					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				GCCCGGGCGCCGACGGCCAGG	0.741													10	7					0	0	1	0	0		T	121104166	T	T	121104166	2	4	190	1	0	0	0	0	0	0	0	1	7758	639	23	1		1	INHBB	2	121104166	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1083454	121104166	122095207	185	94338											
INHBB	3625	broad.mit.edu	37	chr2	121107004	121107004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagctgccaggagctggccGtggtgccggtgttcgtggac	5	8	17	11	3	0	0	0	0	0	0	1	2	0	2	3	5	4	3	3	5	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:121107004G>A	uc002tmn.2	+	2	824	c.778G>A	c.(778-780)GTG>ATG	p.V260M		NM_002193	NP_002184	P09529	INHBB_HUMAN	inhibin beta B subunit preproprotein	260					activin receptor signaling pathway|cellular response to insulin stimulus|cellular response to starvation|defense response|fat cell differentiation|growth|negative regulation of follicle-stimulating hormone secretion|negative regulation of hepatocyte growth factor biosynthetic process|negative regulation of insulin secretion|ovarian follicle development|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation	extracellular region|perinuclear region of cytoplasm	cytokine activity|growth factor activity|hormone activity|host cell surface receptor binding|protein homodimerization activity			pancreas(2)|skin(1)	3		Prostate(154;0.122)				GGAGCTGGCCGTGGTGCCGGT	0.662													52	46					0	0	1	0	0		A	121107004	A	A	121107004	3	1	190	1	0	0	0	0	1	0	0	0	7758	1145	40	1	784	1	INHBB	2	121107004	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2838	121107004	122092369	186	94339											
GLI2	2736	broad.mit.edu	37	chr2	121742146	121742146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccacggcccagatgcccacGtcaccaagaagcagcgcaat	12	4	9	16	3	1	2	1	0	0	2	2	2	2	2	4	1	3	2	4	1	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:121742146G>A	uc010flp.2	+	11	1813	c.1783G>A	c.(1783-1785)GTC>ATC	p.V595I	GLI2_uc002tmq.1_Missense_Mutation_p.V267I|GLI2_uc002tmr.1_Missense_Mutation_p.V250I|GLI2_uc002tmt.3_Missense_Mutation_p.V267I|GLI2_uc002tmu.3_Missense_Mutation_p.V250I|GLI2_uc002tmw.1_Missense_Mutation_p.V578I	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	595					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				AGATGCCCACGTCACCAAGAA	0.607													50	83					0	0	1	0	0		A	121742146	A	A	121742146	3	1	190	1	0	0	0	0	1	0	0	0	6453	1145	40	1	1825	1	GLI2	2	121742146	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	635142	121742146	121457227	187	94340											
WDR33	55339	broad.mit.edu	37	chr2	128477624	128477624	+	Frame_Shift_Del	DEL	G	-	-																															caacccctggggcgggccctGgggcccctgtggtcccatga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:128477624delG	uc002tpg.1	-	16	2158	c.1975delC	c.(1975-1977)CAGfs	p.Q659fs		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	659	Collagen-like.				postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		GGCGGGCCCTGGGGCCCCTGT	0.652													23	40	---	---	---	---						.	-	128477624	-	-	128477624	7	5	190	1	0	1	0	1	0	0	0	0	17313	1357	47	0	2063	0	WDR33	2	128477624	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	6735478	128477624	114721749	188	94341											
RAB6C	84084	broad.mit.edu	37	chr2	130738154	130738154	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttacgtttattgaaactAgggcaaaagctggatacaat	15	12	9	5	1	0	1	0	1	0	0	0	2	0	2	0	2	4	4	0	2	8	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:130738154A>G	uc002tpx.1	+	1	920	c.466A>G	c.(466-468)AGG>GGG	p.R156G	uc002tpw.1_5'Flank	NM_032144	NP_115520	Q9H0N0	RAB6C_HUMAN	RAB6C, member RAS oncogene family	156					protein transport|response to drug|small GTPase mediated signal transduction		GTP binding|GTPase activity			lung(1)	1	Colorectal(110;0.1)					TATTGAAACTAGGGCAAAAGC	0.473													7	106					0	0	1	0	0		G	130738154	G	G	130738154	3	3	190	1	0	0	0	0	1	0	0	0	12978	411	15	3	468	3	RAB6C	2	130738154	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2260530	130738154	112461219	189	94342											
CCDC74B	91409	broad.mit.edu	37	chr2	130899770	130899770	+	Silent	SNP	C	T	T	0	0	0	1	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	aggctgtctgcaggagagcgCacagtgtcggcgctaccgcc	7	6	15	13	4	1	1	0	0	1	1	2	2	1	1	2	3	3	4	2	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:130899770C>T	uc002tqm.1	-	3	542	c.480G>A	c.(478-480)GTG>GTA	p.V160V	CCDC74B_uc010yzw.1_Silent_p.V262V|CCDC74B_uc002tqn.1_Intron|CCDC74B_uc010yzx.1_3'UTR	NM_207310	NP_997193	Q96LY2	CC74B_HUMAN	coiled-coil domain containing 74B	160											0	Colorectal(110;0.1)					CAGGAGAGCGCACAGTGTCGG	0.632													6	37					0	0	1	0	0		T	130899770	T	T	130899770	2	4	190	1	0	0	0	0	0	0	0	1	2851	697	25	2		2	CCDC74B	2	130899770	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	161616	130899770	112299603	190	94343											
CCDC74B	91409	broad.mit.edu	37	chr2	130899886	130899886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccggctctacccacactcCgttgatgcagacccagcgag	8	7	9	17	3	1	2	0	1	1	1	3	3	3	2	4	1	3	3	4	1	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:130899886C>T	uc002tqm.1	-	3	426	c.364G>A	c.(364-366)GGA>AGA	p.G122R	CCDC74B_uc010yzw.1_Missense_Mutation_p.G224R|CCDC74B_uc002tqn.1_Intron|CCDC74B_uc010yzx.1_3'UTR	NM_207310	NP_997193	Q96LY2	CC74B_HUMAN	coiled-coil domain containing 74B	122											0	Colorectal(110;0.1)					ACCCACACTCCGTTGATGCAG	0.652													9	25					0	0	1	0	0		T	130899886	T	T	130899886	3	4	190	1	0	0	0	0	1	0	0	0	2851	661	23	1	802	1	CCDC74B	2	130899886	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	116	130899886	112299487	191	94344											
FAM123C	205147	broad.mit.edu	37	chr2	131520215	131520215	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccctccccaggggacccGtcagaccctggggggcggcg	4	4	16	17	3	1	1	1	0	0	1	2	2	2	2	5	6	1	0	5	6	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:131520215G>A	uc002trw.2	+	2	760	c.570G>A	c.(568-570)CCG>CCA	p.P190P	FAM123C_uc010fmv.2_Silent_p.P190P|FAM123C_uc010fms.1_Silent_p.P190P|FAM123C_uc010fmt.1_Silent_p.P190P|FAM123C_uc010fmu.1_Silent_p.P190P	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	190										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CAGGGGACCCGTCAGACCCTG	0.662													29	35					0	0	1	0	0		A	131520215	A	A	131520215	2	1	190	1	0	0	0	0	0	0	0	1	5435	1132	40	1		1	FAM123C	2	131520215	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	620329	131520215	111679158	192	94345											
ARHGEF4	50649	broad.mit.edu	37	chr2	131803619	131803619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccctgttcagctgttggcCggccctgctacctgacgcgc	3	10	11	17	3	1	1	1	1	0	0	2	1	2	1	4	2	3	4	4	2	1	3	rs146423704	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:131803619C>T	uc002tsa.1	+	14	2450	c.1930C>T	c.(1930-1932)CGG>TGG	p.R644W	ARHGEF4_uc010fmw.1_Missense_Mutation_p.R792W|ARHGEF4_uc002tsb.1_3'UTR|ARHGEF4_uc010fmx.1_Missense_Mutation_p.R584W|ARHGEF4_uc002tsc.1_Missense_Mutation_p.R187W	NM_015320	NP_056135	Q9NR80	ARHG4_HUMAN	Rho guanine nucleotide exchange factor 4 isoform	644					apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|lamellipodium assembly|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|ruffle membrane	protein domain specific binding|Rac guanyl-nucleotide exchange factor activity			breast(3)|ovary(2)|skin(1)	6		Prostate(154;0.055)		BRCA - Breast invasive adenocarcinoma(221;0.097)		AGCTGTTGGCCGGCCCTGCTA	0.687													42	49					0	0	1	0	0		T	131803619	T	T	131803619	3	4	190	1	0	0	0	0	1	0	0	0	908	643	23	1	2068	1	ARHGEF4	2	131803619	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	283404	131803619	111395754	193	94346											
CCDC74A	90557	broad.mit.edu	37	chr2	132288220	132288220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctgggtctgcatcaacGgagtgtgggtagagccggga	7	8	17	9	3	2	1	1	0	1	1	3	3	2	3	1	4	3	3	1	4	2	1	rs148324548		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:132288220G>A	uc002tta.2	+	3	416	c.364G>A	c.(364-366)GGA>AGA	p.G122R	CCDC74A_uc002ttb.2_Intron	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	122										skin(1)	1						CTGCATCAACGGAGTGTGGGT	0.657													5	20					0	0	1	0	0		A	132288220	A	A	132288220	3	1	190	1	0	0	0	0	1	0	0	0	2850	1117	39	1	374	1	CCDC74A	2	132288220	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	484601	132288220	110911153	194	94347											
CCDC74A	90557	broad.mit.edu	37	chr2	132288336	132288336	+	Silent	SNP	G	A	A	0	0	1	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	ggcggtagcgccgacactgtGcgctctcctgcagacagcct	6	7	13	15	4	1	1	0	0	1	1	2	2	1	1	3	2	4	3	3	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:132288336G>A	uc002tta.2	+	3	532	c.480G>A	c.(478-480)GTG>GTA	p.V160V	CCDC74A_uc002ttb.2_Intron	NM_138770	NP_620125	Q96AQ1	CC74A_HUMAN	coiled-coil domain containing 74A	160										skin(1)	1						CCGACACTGTGCGCTCTCCTG	0.632													8	29					0	0	1	0	0		A	132288336	A	A	132288336	2	1	190	1	0	0	0	0	0	0	0	1	2850	1306	46	2		2	CCDC74A	2	132288336	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	116	132288336	110911037	195	94348											
LCT	3938	broad.mit.edu	37	chr2	136561666	136561666	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcctcctacatcttggagCgtctgtggtaggtcccagtg	6	11	12	12	1	2	0	0	0	2	0	4	1	4	1	3	3	3	1	3	3	2	3	rs150796821		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:136561666C>A	uc002tuu.1	-	11	4508	c.4497G>T	c.(4495-4497)ACG>ACT	p.T1499T		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1499	Extracellular (Potential).|4.|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CATCTTGGAGCGTCTGTGGTA	0.517													20	33					6.44725e-10	6.76916e-10	1	1	0		A	136561666	A	A	136561666	2	1	190	1	0	0	0	0	0	0	0	1	8709	755	27	5		5	LCT	2	136561666	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4273330	136561666	106637707	196	94349											
LRP1B	53353	broad.mit.edu	37	chr2	141208157	141208157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacagtcatcaggttcatcaGatccatcaccacagtcatcc	12	9	6	14	0	6	1	6	0	0	1	8	2	8	1	3	1	0	1	3	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:141208157G>A	uc002tvj.1	-	63	11009	c.10037C>T	c.(10036-10038)TCT>TTT	p.S3346F		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3346	Extracellular (Potential).|LDL-receptor class A 21.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGGTTCATCAGATCCATCACC	0.348										TSP Lung(27;0.18)			10	73					0	0	1	0	0		A	141208157	A	A	141208157	3	1	190	1	0	0	0	0	1	0	0	0	8973	942	33	4	3878	4	LRP1B	2	141208157	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4646491	141208157	101991216	197	94350											
STAM2	10254	broad.mit.edu	37	chr2	152980308	152980308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagtttgagcaggctgtgCtgtcactgaggaattcacat	10	12	12	7	0	2	3	2	3	0	0	2	4	2	4	0	2	2	4	0	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:152980308C>T	uc002tyc.3	-	13	1671	c.1321G>A	c.(1321-1323)GCA>ACA	p.A441T		NM_005843	NP_005834	O75886	STAM2_HUMAN	signal transducing adaptor molecule 2	441					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.22)		GCAGGCTGTGCTGTCACTGAG	0.393													19	26					0	0	1	0	0		T	152980308	T	T	152980308	3	4	190	1	0	0	0	0	1	0	0	0	15274	797	28	2	264	2	STAM2	2	152980308	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11772151	152980308	90219065	198	94351											
PRPF40A	55660	broad.mit.edu	37	chr2	153526848	153526849	+	Frame_Shift_Ins	INS	-	T	T																															tagccatgttgtcaagtatgINSttttttaaggcttcccaatt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:153526848_153526849insT	uc002tyh.3	-	15	1548_1549	c.1526_1527insA	c.(1525-1527)AACfs	p.N509fs	PRPF40A_uc002tyg.3_5'Flank|PRPF40A_uc010zcd.1_Frame_Shift_Ins_p.N456fs	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	536	FF 3.				mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TGTCAAGTATGTTTTTTAAGGC	0.361													21	34	---	---	---	---						.	T	153526849	T	T	153526848	7	5	190	1	0	1	1	0	0	0	0	0	12593	1368	48	0	1313	0	PRPF40A	2	153526848	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	546540	153526848	89672525	199	94352											
RPRM	56475	broad.mit.edu	37	chr2	154334995	154334995	+	Missense_Mutation	SNP	A	G	G	1	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	cacggacgcctgggtgcagcAgcgcacggctcgctccagcg	6	4	15	16	6	0	0	0	0	0	0	2	1	1	1	2	3	4	5	2	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:154334995A>G	uc002tyq.1	-	1	328	c.85T>C	c.(85-87)TGC>CGC	p.C29R		NM_019845	NP_062819	Q9NS64	RPRM_HUMAN	reprimo, TP53 dependant G2 arrest mediator	29					cell cycle arrest	cytoplasm|integral to membrane	protein binding				0						TGGGTGCAGCAGCGCACGGCT	0.687													7	11					0	0	1	0	0		G	154334995	G	G	154334995	3	3	190	1	0	0	0	0	1	0	0	0	13643	188	7	3	248	3	RPRM	2	154334995	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	808147	154334995	88864378	200	94353											
TANC1	85461	broad.mit.edu	37	chr2	160053294	160053294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccgcggcggccagcatggGccacagctcggtgagtgggg	6	4	19	12	4	0	1	0	1	0	0	1	2	0	1	3	6	2	2	3	6	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:160053294G>A	uc002uag.2	+	18	3429	c.3155G>A	c.(3154-3156)GGC>GAC	p.G1052D	TANC1_uc010zcm.1_Missense_Mutation_p.G1044D|TANC1_uc010fom.1_Missense_Mutation_p.G858D|TANC1_uc010fon.2_5'Flank	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1052	ANK 5.					cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GCCAGCATGGGCCACAGCTCG	0.632													12	24					0	0	1	0	0		A	160053294	A	A	160053294	3	1	190	1	0	0	0	0	1	0	0	0	15569	1203	42	2	3217	2	TANC1	2	160053294	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5718299	160053294	83146079	201	94354											
LRP2	4036	broad.mit.edu	37	chr2	170062048	170062048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tccagagtcagcccactgggCatgaccagactgctgttcac	9	8	10	14	0	2	3	2	1	0	2	3	3	3	3	3	1	2	3	3	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:170062048C>T	uc002ues.2	-	41	7869	c.7656G>A	c.(7654-7656)ATG>ATA	p.M2552I		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2552	LDL-receptor class B 27.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GCCCACTGGGCATGACCAGAC	0.517													34	42					0	0	1	0	0		T	170062048	T	T	170062048	3	4	190	1	0	0	0	0	1	0	0	0	8974	710	25	2	6467	2	LRP2	2	170062048	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	10008754	170062048	73137325	202	94355											
PPIG	9360	broad.mit.edu	37	chr2	170493803	170493803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atagctcaaataacagcaggGaaaaaaaggctgatagagat	20	6	10	5	0	1	2	1	1	0	1	1	4	1	3	0	2	3	3	0	2	7	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:170493803G>A	uc002uez.2	+	14	2255	c.2035G>A	c.(2035-2037)GAA>AAA	p.E679K	PPIG_uc010fpx.2_Missense_Mutation_p.E664K|PPIG_uc010fpy.2_Missense_Mutation_p.E672K|PPIG_uc002ufb.2_Missense_Mutation_p.E679K|PPIG_uc002ufd.2_Missense_Mutation_p.E676K	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	679					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	TAACAGCAGGGAAAAAAAGGC	0.353													31	57					0	0	1	0	0		A	170493803	A	A	170493803	3	1	190	1	0	0	0	0	1	0	0	0	12346	1175	41	4	2081	4	PPIG	2	170493803	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	431755	170493803	72705570	203	94356											
RAPGEF4	11069	broad.mit.edu	37	chr2	173782536	173782536	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcttgtctttcagaaatatCgacagtatatggcaggactt	12	14	8	7	1	3	1	1	0	2	1	4	3	3	2	0	2	0	2	0	2	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:173782536C>T	uc002uhv.3	+	5	638	c.451C>T	c.(451-453)CGA>TGA	p.R151*	RAPGEF4_uc002uhu.2_Nonsense_Mutation_p.R151*|RAPGEF4_uc002uhw.3_Nonsense_Mutation_p.R7*|RAPGEF4_uc010zec.1_5'UTR|RAPGEF4_uc010zed.1_5'UTR|RAPGEF4_uc010zee.1_5'UTR|RAPGEF4_uc010fqo.2_5'UTR	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	151	cAMP 1.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TCAGAAATATCGACAGTATAT	0.358													53	80					0	0	1	0	0		T	173782536	T	T	173782536	4	4	190	1	0	0	0	0	0	1	0	0	13071	876	31	1	485	1	RAPGEF4	2	173782536	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3288733	173782536	69416837	204	94357											
EVX2	344191	broad.mit.edu	37	chr2	176948108	176948108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttttccttaagctgagcggCgccgaggcccccgggggagc	5	7	16	13	4	0	1	0	1	0	0	1	3	1	2	4	4	3	2	4	4	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:176948108C>T	uc010zeu.1	-	1	583	c.397G>A	c.(397-399)GCC>ACC	p.A133T		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	133						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		AGCTGAGCGGCGCCGAGGCCC	0.682													4	11					0	0	1	0	0		T	176948108	T	T	176948108	3	4	190	1	0	0	0	0	1	0	0	0	5303	768	27	1	1043	1	EVX2	2	176948108	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3165572	176948108	66251265	205	94358											
HOXD9	3235	broad.mit.edu	37	chr2	176987697	176987697	+	Frame_Shift_Del	DEL	T	-	-																															gccgagttcgcctcgtgtagTtttgcccccagatcggccgt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:176987697delT	uc010zex.1	+	1	285	c.201delT	c.(199-201)AGTfs	p.S67fs		NM_014213	NP_055028	P28356	HXD9_HUMAN	homeobox D9	67						nucleus	sequence-specific DNA binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		CCTCGTGTAGTTTTGCCCCCA	0.751													4	3	---	---	---	---						.	-	176987697	-	-	176987697	7	5	190	1	0	1	0	1	0	0	0	0	7342	1722	60	0	203	0	HOXD9	2	176987697	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	39589	176987697	66211676	206	94359											
TTN	7273	broad.mit.edu	37	chr2	179393909	179393909	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtaatttcagaagtcttTtgtgtagagactttctgtgc	8	17	11	5	0	3	2	1	0	2	2	3	3	3	2	0	1	1	2	0	1	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:179393909T>C	uc010zfg.1	-	309	99089	c.98865A>G	c.(98863-98865)CAA>CAG	p.Q32955Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.Q26650Q|TTN_uc010zfi.1_Silent_p.Q26583Q|TTN_uc010zfj.1_Silent_p.Q26458Q|TTN_uc002umq.2_5'UTR	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33882							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGAAGTCTTTTGTGTAGAGA	0.373													5	14					0	0	1	0	0		C	179393909	C	C	179393909	2	2	190	1	0	0	0	0	0	0	0	1	16761	1838	64	3		3	TTN	2	179393909	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2406212	179393909	63805464	207	94360											
TTN	7273	broad.mit.edu	37	chr2	179437710	179437710	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaggccagtgatagtataCgaagttgccttgagtcctgc	9	11	13	8	1	0	3	0	3	0	0	1	4	1	3	3	1	3	2	3	1	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:179437710C>T	uc010zfg.1	-	275	65669	c.65445G>A	c.(65443-65445)TCG>TCA	p.S21815S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.S15510S|TTN_uc010zfi.1_Silent_p.S15443S|TTN_uc010zfj.1_Silent_p.S15318S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22742							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGATAGTATACGAAGTTGCCT	0.483													21	20					0	0	1	0	0		T	179437710	T	T	179437710	2	4	190	1	0	0	0	0	0	0	0	1	16761	523	19	1		1	TTN	2	179437710	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	43801	179437710	63761663	208	94361											
TTN	7273	broad.mit.edu	37	chr2	179585746	179585746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcactagcttcattgatcGtaagcaatgccacagaatta	14	10	7	10	1	1	2	1	1	0	1	2	2	1	2	1	0	4	4	1	0	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:179585746G>A	uc010zfg.1	-	76	19492	c.19268C>T	c.(19267-19269)ACG>ATG	p.T6423M	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.T3084M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7350							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCATTGATCGTAAGCAATGC	0.453													40	52					0	0	1	0	0		A	179585746	A	A	179585746	3	1	190	1	0	0	0	0	1	0	0	0	16761	1145	40	1	81665	1	TTN	2	179585746	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	148036	179585746	63613627	209	94362											
TTN	7273	broad.mit.edu	37	chr2	179647124	179647124	+	Silent	SNP	A	G	G	1	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	tcctctgtgaggctagtatcAgtcataaccacatctcttga	10	13	7	11	0	4	2	2	2	2	0	6	2	5	2	2	1	1	2	2	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:179647124A>G	uc010zfg.1	-	20	3419	c.3195T>C	c.(3193-3195)ACT>ACC	p.T1065T	TTN_uc010zfh.1_Silent_p.T1019T|TTN_uc010zfi.1_Silent_p.T1019T|TTN_uc010zfj.1_Silent_p.T1019T|TTN_uc002unb.2_Silent_p.T1065T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1065							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGCTAGTATCAGTCATAACCA	0.493													18	25					0	0	1	0	0		G	179647124	G	G	179647124	2	3	190	1	0	0	0	0	0	0	0	1	16761	175	7	3		3	TTN	2	179647124	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	61378	179647124	63552249	210	94363											
CCDC141	285025	broad.mit.edu	37	chr2	179736188	179736188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatgtcattccatttttgtCgtagatctaaaatgaactgg	11	16	7	7	1	3	2	2	1	1	1	5	2	4	2	1	1	1	1	1	1	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:179736188C>T	uc002unf.1	-	4	503	c.446G>A	c.(445-447)CGA>CAA	p.R149Q		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	149							protein binding			ovary(7)|pancreas(2)|skin(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.0531)|all cancers(119;0.147)			CCATTTTTGTCGTAGATCTAA	0.393													96	99					0	0	1	0	0		T	179736188	T	T	179736188	3	4	190	1	0	0	0	0	1	0	0	0	2778	884	31	1	2221	1	CCDC141	2	179736188	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	89064	179736188	63463185	211	94364											
NCKAP1	10787	broad.mit.edu	37	chr2	183790471	183790471	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtttgtagacagcatggtAtgcatttctcagcaagacat	11	14	9	7	0	1	2	1	0	1	2	2	2	1	2	0	1	3	6	0	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:183790471A>G	uc002upc.2	-	31	3748	c.3346T>C	c.(3346-3348)TAC>CAC	p.Y1116H	NCKAP1_uc002upb.2_Missense_Mutation_p.Y1122H	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	1116					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			ACAGCATGGTATGCATTTCTC	0.338													41	64					0	0	1	0	0		G	183790471	G	G	183790471	3	3	190	1	0	0	0	0	1	0	0	0	10240	449	16	3	44	3	NCKAP1	2	183790471	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	4054283	183790471	59408902	212	94365											
KCTD18	130535	broad.mit.edu	37	chr2	201363678	201363678	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcaatagcgtctgttccatCagtttttgtggcatatacac	9	16	7	9	1	3	0	2	0	1	0	4	0	4	0	1	1	2	3	1	1	4	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:201363678C>T	uc002uvs.2	-	4	1019	c.502G>A	c.(502-504)GAT>AAT	p.D168N	KCTD18_uc002uvt.2_Missense_Mutation_p.D168N|KCTD18_uc002uvu.1_Missense_Mutation_p.D168N	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	168						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						TCTGTTCCATCAGTTTTTGTG	0.368													8	116					0	0	1	0	0		T	201363678	T	T	201363678	3	4	190	1	0	0	0	0	1	0	0	0	8121	826	29	4	794	4	KCTD18	2	201363678	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	17573207	201363678	41835695	213	94366											
TRAK2	66008	broad.mit.edu	37	chr2	202254126	202254126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcatgatgacacttgaacGgttggagcctggaatgggta	10	11	14	6	1	1	3	1	3	0	0	1	5	1	5	1	4	2	2	1	4	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:202254126G>A	uc002uyb.3	-	12	1740	c.1294C>T	c.(1294-1296)CGT>TGT	p.R432C		NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	432	Interaction with HGS (By similarity).			Missing (in Ref. 2).		early endosome|plasma membrane	GABA receptor binding				0						ACACTTGAACGGTTGGAGCCT	0.517													32	56					0	0	1	0	0		A	202254126	A	A	202254126	3	1	190	1	0	0	0	0	1	0	0	0	16476	1116	39	1	1470	1	TRAK2	2	202254126	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	890448	202254126	40945247	214	94367											
NOP58	51602	broad.mit.edu	37	chr2	203165008	203165009	+	Frame_Shift_Ins	INS	-	A	A																															ccacacttccaacctgttctINSaaaaaacgcaaaatagaaca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:203165008_203165009insA	uc002uzb.2	+	13	1470_1471	c.1320_1321insA	c.(1318-1323)TCTAAAfs	p.S440fs		NM_015934	NP_057018	Q9Y2X3	NOP58_HUMAN	NOP58 ribonucleoprotein homolog	440_441	Lys-rich.				cell growth|rRNA processing|snRNP protein import into nucleus	box C/D snoRNP complex|Cajal body|cytoplasm|pre-snoRNP complex	protein binding|snoRNA binding				0						CAACCTGTTCTAAAAAACGCAA	0.327													50	52	---	---	---	---						.	A	203165009	A	A	203165008	7	5	190	1	0	1	1	0	0	0	0	0	10559	1509	53	0	1370	0	NOP58	2	203165008	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	910882	203165008	40034365	215	94368											
MAP2	4133	broad.mit.edu	37	chr2	210559607	210559607	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggcactgatgataaagttCgaagagatttggccacagac	15	8	11	7	1	0	4	0	2	0	2	1	6	0	4	1	2	0	2	1	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:210559607C>T	uc002vde.1	+	7	2961	c.2713C>T	c.(2713-2715)CGA>TGA	p.R905*	MAP2_uc002vdc.1_Nonsense_Mutation_p.R905*|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Nonsense_Mutation_p.R901*	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	905					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	TGATAAAGTTCGAAGAGATTT	0.453													20	39					0	0	1	0	0		T	210559607	T	T	210559607	4	4	190	1	0	0	0	0	0	1	0	0	9253	876	31	1	2727	1	MAP2	2	210559607	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	7394599	210559607	32639766	216	94369											
ATIC	471	broad.mit.edu	37	chr2	216214278	216214278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtggtgtggcgtacattgCggctccctccggttctgctg	3	12	15	11	3	1	0	0	0	1	0	3	1	3	0	2	4	3	4	2	4	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:216214278C>T	uc002vex.3	+	16	1853	c.1679C>T	c.(1678-1680)GCG>GTG	p.A560V	ATIC_uc010zjo.1_Missense_Mutation_p.A501V|ATIC_uc002vey.3_Missense_Mutation_p.A559V	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	560					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	GCGTACATTGCGGCTCCCTCC	0.473			T	ALK	ALCL								22	52					0	0	1	0	0		T	216214278	T	T	216214278	3	4	190	1	0	0	0	0	1	0	0	0	1106	768	27	1	1741	1	ATIC	2	216214278	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5654671	216214278	26985095	217	94370											
CXCR1	3577	broad.mit.edu	37	chr2	219028909	219028909	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttggaagagacattgacagaCgaagaagtgtaggaggtaac	16	7	14	4	1	0	4	0	1	0	3	0	8	0	6	0	3	1	2	0	3	5	4	rs144791200	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:219028909C>T	uc002vhc.2	-	2	1145	c.1026G>A	c.(1024-1026)TCG>TCA	p.S342S		NM_000634	NP_000625	P25024	CXCR1_HUMAN	interleukin 8 receptor alpha	342	Cytoplasmic (Potential).				dendritic cell chemotaxis|inflammatory response	integral to membrane|plasma membrane	interleukin-8 receptor activity			lung(2)	2						CATTGACAGACGAAGAAGTGT	0.468													22	56					0	0	1	0	0		T	219028909	T	T	219028909	2	4	190	1	0	0	0	0	0	0	0	1	4093	523	19	1		1	CXCR1	2	219028909	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2814631	219028909	24170464	218	94371											
ZNF142	7701	broad.mit.edu	37	chr2	219508172	219508172	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgcagtgaaacttgccctGctcaaagcggtgcttcttca	8	12	10	11	1	3	1	2	1	1	0	3	1	3	1	1	1	6	4	1	1	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:219508172G>A	uc002vin.2	-	8	3503	c.3067C>T	c.(3067-3069)CAG>TAG	p.Q1023*	ZNF142_uc002vil.2_Nonsense_Mutation_p.Q984*|ZNF142_uc010fvt.2_Nonsense_Mutation_p.Q860*|ZNF142_uc002vim.2_Nonsense_Mutation_p.Q860*	NM_001105537	NP_001099007	P52746	ZN142_HUMAN	zinc finger protein 142	1023					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;5.21e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)		AACTTGCCCTGCTCAAAGCGG	0.612													29	46					0	0	1	0	0		A	219508172	A	A	219508172	4	1	190	1	0	0	0	0	0	1	0	0	17756	1328	46	2	2008	2	ZNF142	2	219508172	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	479263	219508172	23691201	219	94372											
GMPPA	29926	broad.mit.edu	37	chr2	220367131	220367131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacgcaatccctcaactacGgctgcatcgttgagaatcca	11	8	9	13	3	1	1	1	1	0	1	4	3	3	2	2	2	3	4	2	2	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:220367131G>A	uc002vlr.2	+	6	525	c.457G>A	c.(457-459)GGC>AGC	p.G153S	GMPPA_uc002vls.2_Missense_Mutation_p.G153S|GMPPA_uc002vlt.2_Missense_Mutation_p.G153S|GMPPA_uc002vlu.2_Missense_Mutation_p.G153S|GMPPA_uc002vlv.2_Missense_Mutation_p.G153S|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Missense_Mutation_p.G153S	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	153					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		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)		CCTCAACTACGGCTGCATCGT	0.562													11	20					0	0	1	0	0		A	220367131	A	A	220367131	3	1	190	1	0	0	0	0	1	0	0	0	6509	1116	39	1	475	1	GMPPA	2	220367131	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	858959	220367131	22832242	220	94373											
SLC4A3	6508	broad.mit.edu	37	chr2	220502391	220502391	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tggtctggagccaaatggcaGtgccctgccccccaccgagg	7	6	13	15	1	1	0	0	0	1	0	1	2	1	1	6	4	3	1	6	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:220502391G>A	uc002vmp.3	+	17	2893	c.2624G>A	c.(2623-2625)AGT>AAT	p.S875N	SLC4A3_uc002vmo.3_Missense_Mutation_p.S902N|SLC4A3_uc010fwm.2_Missense_Mutation_p.S425N|SLC4A3_uc010fwn.1_Missense_Mutation_p.S384N	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	875	Membrane (anion exchange).			S -> C (in Ref. 2; AAB05850).	bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCAAATGGCAGTGCCCTGCCC	0.642													20	29					0	0	1	0	0		A	220502391	A	A	220502391	3	1	190	1	0	0	0	0	1	0	0	0	14680	1029	36	4	2767	4	SLC4A3	2	220502391	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	135260	220502391	22696982	221	94374											
GPR55	9290	broad.mit.edu	37	chr2	231775182	231775182	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catgttgtggaagcacatgtAtttttccactttcccatgga	9	15	8	9	0	0	0	0	0	0	0	2	2	2	2	2	2	1	3	2	2	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:231775182A>G	uc002vrg.2	-	2	689	c.496T>C	c.(496-498)TAC>CAC	p.Y166H	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Missense_Mutation_p.Y166H	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	166	Extracellular (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		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)		AAGCACATGTATTTTTCCACT	0.537													48	73					0	0	1	0	0		G	231775182	G	G	231775182	3	3	190	1	0	0	0	0	1	0	0	0	6714	449	16	3	467	3	GPR55	2	231775182	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	11272791	231775182	11424191	222	94375											
NEU2	4759	broad.mit.edu	37	chr2	233898912	233898912	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtatgacgcgcagacgggGaccctcttcctcttcttcat	6	13	9	13	3	4	2	1	1	3	1	5	3	5	3	2	2	0	2	2	2	1	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:233898912G>T	uc010zmn.1	+	2	288	c.288G>T	c.(286-288)GGG>GGT	p.G96G		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	96							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		CGCAGACGGGGACCCTCTTCC	0.627													45	55					2.64894e-19	2.84523e-19	1	1	0		T	233898912	T	T	233898912	2	4	190	1	0	0	0	0	0	0	0	1	10361	1161	41	5		5	NEU2	2	233898912	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2123730	233898912	9300461	223	94376											
ANKMY1	51281	broad.mit.edu	37	chr2	241492466	241492466	+	Silent	SNP	A	G	G	1	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	tggtcccggtaaaactgcccAtggtatgactgtgagatgga	10	10	13	8	1	0	2	0	2	0	1	1	4	1	3	2	4	2	2	2	4	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr2:241492466A>G	uc002vyz.1	-	3	307	c.78T>C	c.(76-78)CAT>CAC	p.H26H	ANKMY1_uc002vza.1_Silent_p.H115H|ANKMY1_uc010fzd.1_Silent_p.H115H|ANKMY1_uc002vzb.1_Silent_p.H115H|ANKMY1_uc002vzc.1_Silent_p.H115H|ANKMY1_uc002vzd.1_Silent_p.H115H|ANKMY1_uc010fze.1_Intron|ANKMY1_uc002vze.2_Silent_p.H17H|ANKMY1_uc002vzf.2_Silent_p.H17H	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	26	MORN 2.						zinc ion binding			central_nervous_system(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.03e-30)|all cancers(36;4.78e-28)|OV - Ovarian serous cystadenocarcinoma(60;1.45e-14)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;7.8e-06)|Lung(119;0.00271)|LUSC - Lung squamous cell carcinoma(224;0.01)|Colorectal(34;0.0101)|COAD - Colon adenocarcinoma(134;0.0476)		AAAACTGCCCATGGTATGACT	0.552													18	12					0	0	1	0	0		G	241492466	G	G	241492466	2	3	190	1	0	0	0	0	0	0	0	1	634	214	8	3		3	ANKMY1	2	241492466	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	7593554	241492466	1706907	224	94377											
ITPR1	3708	broad.mit.edu	37	chr3	4829715	4829715	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaccaaggagtcaaaactaCgaatttactatactacagag	18	9	6	8	1	1	1	1	0	0	1	1	3	1	2	1	1	6	0	1	1	10	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:4829715C>T	uc003bqa.2	+	49	6904	c.6556C>T	c.(6556-6558)CGA>TGA	p.R2186*	ITPR1_uc010hca.1_Nonsense_Mutation_p.R2171*|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Nonsense_Mutation_p.R1156*	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2234	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GTCAAAACTACGAATTTACTA	0.398													5	13					0	0	1	0	0		T	4829715	T	T	4829715	4	4	190	1	0	0	0	0	0	1	0	0	7936	528	19	1	6898	1	ITPR1	3	4829715	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		4829715	193192715	225	94378											
SRGAP3	9901	broad.mit.edu	37	chr3	9027584	9027584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgagttcccgcaactcGtgcagagccgtgctcatggt	6	10	11	14	4	2	1	1	0	1	1	5	2	3	1	2	1	4	4	2	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:9027584G>A	uc003brf.1	-	22	3595	c.2919C>T	c.(2917-2919)CAC>CAT	p.H973H	SRGAP3_uc003brg.1_Silent_p.H949H	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	973	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CCCGCAACTCGTGCAGAGCCG	0.622			T	RAF1	pilocytic astrocytoma								16	27					0	0	1	0	0		A	9027584	A	A	9027584	2	1	190	1	0	0	0	0	0	0	0	1	15172	1136	40	1		1	SRGAP3	3	9027584	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4197869	9027584	188994846	226	94379											
SRGAP3	9901	broad.mit.edu	37	chr3	9074429	9074430	+	Frame_Shift_Ins	INS	-	G	G																															tgtggtttagggggaagacaINSggggggcctaggggaaaacg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:9074429_9074430insG	uc003brf.1	-	12	2119_2120	c.1443_1444insC	c.(1441-1446)CCCTGTfs	p.P481fs	SRGAP3_uc003brg.1_Intron|SRGAP3_uc003bri.1_RNA	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	481_482	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		GGGGGAAGACAGGGGGGCCTAG	0.441			T	RAF1	pilocytic astrocytoma								23	51	---	---	---	---						.	G	9074430	G	G	9074429	7	5	190	1	0	1	1	0	0	0	0	0	15172	188	7	0	1934	0	SRGAP3	3	9074429	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	46845	9074429	188948001	227	94380											
SRGAP3	9901	broad.mit.edu	37	chr3	9094775	9094775	+	Missense_Mutation	SNP	A	G	G	1	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	tggcaatgttgatcttgctcAtgtaggtctcagaggcagcc	8	12	12	9	0	3	2	2	1	2	1	4	2	3	2	1	3	2	5	1	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:9094775A>G	uc003brf.1	-	9	1935	c.1259T>C	c.(1258-1260)ATG>ACG	p.M420T	SRGAP3_uc003brg.1_Missense_Mutation_p.M420T|SRGAP3_uc003bri.1_RNA|SRGAP3_uc003brj.1_Missense_Mutation_p.M280T	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	420					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		GATCTTGCTCATGTAGGTCTC	0.502			T	RAF1	pilocytic astrocytoma								23	46					0	0	1	0	0		G	9094775	G	G	9094775	3	3	190	1	0	0	0	0	1	0	0	0	15172	217	8	3	2131	3	SRGAP3	3	9094775	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	20346	9094775	188927655	228	94381											
IL17RC	84818	broad.mit.edu	37	chr3	9972608	9972608	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgacttgggagcgctatgGgcctgccccatggacaaatg	9	8	14	10	1	0	1	0	1	0	0	0	4	0	3	3	3	2	1	3	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:9972608G>T	uc003bua.2	+	16	1817	c.1581G>T	c.(1579-1581)TGG>TGT	p.W527C	CIDEC_uc003bto.2_Intron|IL17RC_uc003btz.2_Missense_Mutation_p.W456C|IL17RC_uc011atp.1_Missense_Mutation_p.W295C|IL17RC_uc003bud.2_5'UTR|IL17RC_uc003bub.2_Missense_Mutation_p.W441C|IL17RC_uc010hct.2_Missense_Mutation_p.W456C|IL17RC_uc010hcu.2_Missense_Mutation_p.W439C|IL17RC_uc010hcv.2_Missense_Mutation_p.W424C|IL17RC_uc011atq.1_Missense_Mutation_p.W441C|IL17RC_uc003buc.2_5'UTR|IL17RC_uc003bue.2_Missense_Mutation_p.W92C|CRELD1_uc003buf.2_5'Flank|CRELD1_uc003bug.2_5'Flank|CRELD1_uc003buh.2_5'Flank|CRELD1_uc003bui.2_5'Flank	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	527	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						GAGCGCTATGGGCCTGCCCCA	0.517													55	88					3.21867e-24	3.48982e-24	1	1	0		T	9972608	T	T	9972608	3	4	190	1	0	0	0	0	1	0	0	0	7657	1241	43	5	1643	5	IL17RC	3	9972608	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	877833	9972608	188049822	229	94382											
SEC13	6396	broad.mit.edu	37	chr3	10357042	10357042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggatctgccctccattgcGcacatcaaagattttgacgg	11	10	9	11	2	2	2	1	1	1	1	3	3	3	3	2	2	2	1	2	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:10357042G>A	uc003bvn.2	-	3	246	c.127C>T	c.(127-129)CGC>TGC	p.R43C	SEC13_uc003bvl.2_5'Flank|SEC13_uc003bvm.2_Missense_Mutation_p.R29C|SEC13_uc003bvp.2_Missense_Mutation_p.R46C|SEC13_uc003bvo.2_Missense_Mutation_p.R89C|SEC13_uc003bvq.1_Missense_Mutation_p.R29C|SEC13_uc003bvr.1_Missense_Mutation_p.R29C|SEC13_uc011aul.1_Missense_Mutation_p.R43C	NM_183352	NP_899195	P55735	SEC13_HUMAN	SEC13 protein isoform 1	43	WD 1.				COPII vesicle coating|intracellular protein transport|mitotic prometaphase|mRNA transport|post-translational protein modification|protein N-linked glycosylation via asparagine|transmembrane transport	cytosol|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Nup107-160 complex	protein binding	p.R43H(1)		ovary(1)	1						CCTCCATTGCGCACATCAAAG	0.597													25	24					0	0	1	0	0		A	10357042	A	A	10357042	3	1	190	1	0	0	0	0	1	0	0	0	14005	1087	38	1	869	1	SEC13	3	10357042	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	384434	10357042	187665388	230	94383											
SLC6A11	6538	broad.mit.edu	37	chr3	10861469	10861469	+	Frame_Shift_Del	DEL	T	-	-																															catcatcctggcatgggccaTtttttacctgagcaactgct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:10861469delT	uc003bvz.2	+	3	498	c.464delT	c.(463-465)ATTfs	p.I155fs	SLC6A11_uc003bvy.1_Frame_Shift_Del_p.I155fs	NM_014229	NP_055044	P48066	S6A11_HUMAN	solute carrier family 6 (neurotransmitter	155	Extracellular (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(96;0.229)		GCATGGGCCATTTTTTACCTG	0.507													60	86	---	---	---	---						.	-	10861469	-	-	10861469	7	5	190	1	0	1	0	1	0	0	0	0	14699	1493	52	0	474	0	SLC6A11	3	10861469	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	504427	10861469	187160961	231	94384											
IQSEC1	9922	broad.mit.edu	37	chr3	12949857	12949857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagctcttaccggcttccGagaggtcccgcagggagctg	7	7	13	14	3	1	1	0	0	1	1	3	3	3	2	4	3	3	4	4	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:12949857G>A	uc003bxt.2	-	12	2798	c.2789C>T	c.(2788-2790)TCG>TTG	p.S930L	IQSEC1_uc003bxu.3_Missense_Mutation_p.S808L|IQSEC1_uc011auw.1_Missense_Mutation_p.S916L	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	930					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						ACCGGCTTCCGAGAGGTCCCG	0.662													10	26					0	0	1	0	0		A	12949857	A	A	12949857	3	1	190	1	0	0	0	0	1	0	0	0	7833	1059	37	1	659	1	IQSEC1	3	12949857	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2088388	12949857	185072573	232	94385											
FBLN2	2199	broad.mit.edu	37	chr3	13672308	13672308	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggctgaggatgggcacacCtgcacaggtacctctcccct	7	8	11	15	0	1	1	0	1	1	0	2	2	1	2	4	4	2	4	4	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:13672308C>A	uc011avb.1	+	14	3062	c.2937C>A	c.(2935-2937)ACC>ACA	p.T979T	FBLN2_uc011auz.1_Silent_p.T1005T|FBLN2_uc011ava.1_Silent_p.T1026T|FBLN2_uc011avc.1_Silent_p.T1026T	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	979	EGF-like 8; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			ATGGGCACACCTGCACAGGTA	0.597													3	3					0.115264	0.115729	1	1	0		A	13672308	A	A	13672308	2	1	190	1	0	0	0	0	0	0	0	1	5713	668	24	5		5	FBLN2	3	13672308	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	722451	13672308	184350122	233	94386											
FGD5	152273	broad.mit.edu	37	chr3	14861889	14861889	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatgggagtgggcctgccCggtcaggcggcccctggaga	5	6	19	11	2	1	2	1	1	0	1	1	4	1	3	4	6	1	0	4	6	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:14861889C>T	uc003bzc.2	+	1	1421	c.1311C>T	c.(1309-1311)CCC>CCT	p.P437P	FGD5_uc011avk.1_Silent_p.P437P	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	437					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						TGGGCCTGCCCGGTCAGGCGG	0.652													18	21					0	0	1	0	0		T	14861889	T	T	14861889	2	4	190	1	0	0	0	0	0	0	0	1	5850	639	23	1		1	FGD5	3	14861889	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1189581	14861889	183160541	234	94387											
FGD5	152273	broad.mit.edu	37	chr3	14905734	14905734	+	Silent	SNP	C	T	T	0	0	0	1	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	agaagctcggaggaggaggaCagtgcttcaagagaccccag	13	4	15	9	1	1	2	1	0	0	2	2	7	1	6	2	4	2	2	2	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:14905734C>T	uc003bzc.2	+	2	2735	c.2625C>T	c.(2623-2625)GAC>GAT	p.D875D	FGD5_uc011avk.1_Silent_p.D875D	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	875					actin cytoskeleton organization|filopodium assembly|regulation of Cdc42 GTPase activity|regulation of cell shape	cytoskeleton|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|kidney(1)|pancreas(1)	5						AGGAGGAGGACAGTGCTTCAA	0.592													19	33					0	0	1	0	0		T	14905734	T	T	14905734	2	4	190	1	0	0	0	0	0	0	0	1	5850	477	17	4		4	FGD5	3	14905734	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	43845	14905734	183116696	235	94388											
METTL6	131965	broad.mit.edu	37	chr3	15455535	15455535	+	Frame_Shift_Del	DEL	A	-	-																															ccattcatcttaccatcagtAaaaaaatatgatctggtccc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:15455535delA	uc003bzs.1	-	5	924	c.666delT	c.(664-666)TTTfs	p.F222fs	METTL6_uc011avp.1_Frame_Shift_Del_p.F177fs|METTL6_uc010hen.1_Frame_Shift_Del_p.F26fs	NM_152396	NP_689609	Q8TCB7	METL6_HUMAN	methyltransferase like 6	222							methyltransferase activity				0						TACCATCAGTAAAAAAATATG	0.363													33	48	---	---	---	---						.	-	15455535	-	-	15455535	7	5	190	1	0	1	0	1	0	0	0	0	9522	359	13	0	196	0	METTL6	3	15455535	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	549801	15455535	182566895	236	94389											
STT3B	201595	broad.mit.edu	37	chr3	31674521	31674521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatttggaagaagcctttaCatcagaacactggcttgtta	13	12	8	8	0	1	2	1	0	0	2	1	3	1	3	1	2	3	2	1	2	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:31674521C>T	uc011axe.1	+	15	2282	c.2282C>T	c.(2281-2283)ACA>ATA	p.T761I		NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	761					protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0						GAAGCCTTTACATCAGAACAC	0.398													50	68					0	0	1	0	0		T	31674521	T	T	31674521	3	4	190	1	0	0	0	0	1	0	0	0	15359	478	17	4	2340	4	STT3B	3	31674521	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	16218986	31674521	166347909	237	94390											
TRIM71	131405	broad.mit.edu	37	chr3	32859730	32859730	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	cgggggccctggggcggcggCgcgccgcctacacgtcctgc	2	4	18	17	7	0	0	0	0	0	0	1	0	1	0	4	6	2	0	4	6	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:32859730C>G	uc003cff.2	+	1	221	c.158C>G	c.(157-159)GCG>GGG	p.A53G		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	53	RING-type.				multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						ggggcggcggcgcgccgccTA	0.473													6	3					0	0	1	0	0		G	32859730	G	G	32859730	3	3	190	1	0	0	0	0	1	0	0	0	16570	768	27	5	160	5	TRIM71	3	32859730	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1185209	32859730	165162700	238	94391											
TRIM71	131405	broad.mit.edu	37	chr3	32932608	32932608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgttcaagccctgcggcGccttccaccacaaattcggc	8	8	10	15	3	1	0	1	0	0	0	3	0	2	0	4	3	2	1	4	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:32932608G>A	uc003cff.2	+	4	1975	c.1912G>A	c.(1912-1914)GCC>ACC	p.A638T		NM_001039111	NP_001034200	Q2Q1W2	LIN41_HUMAN	tripartite motif-containing 71	638					multicellular organismal development	cytoplasm	zinc ion binding			ovary(2)|large_intestine(1)	3						GCCCTGCGGCGCCTTCCACCA	0.647													14	22					0	0	1	0	0		A	32932608	A	A	32932608	3	1	190	1	0	0	0	0	1	0	0	0	16570	1087	38	1	1926	1	TRIM71	3	32932608	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	72878	32932608	165089822	239	94392											
DLEC1	9940	broad.mit.edu	37	chr3	38101313	38101313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccagaagattactacaccGatacagtgccgtttcactct	11	10	6	14	2	2	2	1	0	1	2	2	3	2	2	4	0	4	1	4	0	4	4	rs149190717	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:38101313G>A	uc003cho.1	+	3	664	c.643G>A	c.(643-645)GAT>AAT	p.D215N	DLEC1_uc003chp.1_Missense_Mutation_p.D215N|DLEC1_uc010hgv.1_Missense_Mutation_p.D215N|DLEC1_uc010hgw.1_5'Flank|DLEC1_uc003chq.1_5'Flank	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	215					negative regulation of cell proliferation	cytoplasm		p.D215N(1)		ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		TTACTACACCGATACAGTGCC	0.493													86	89					0	0	1	0	0		A	38101313	A	A	38101313	3	1	190	1	0	0	0	0	1	0	0	0	4558	1058	37	1	653	1	DLEC1	3	38101313	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5168705	38101313	159921117	240	94393											
RPSA	3921	broad.mit.edu	37	chr3	39453212	39453212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgcgtggcaccatttccCgtgaacacccatgggaggtc	8	8	12	13	2	0	1	0	1	0	0	2	2	1	2	3	3	2	2	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:39453212C>T	uc003cjp.2	+	5	656	c.571C>T	c.(571-573)CGT>TGT	p.R191C	RPSA_uc003cjq.2_Missense_Mutation_p.R196C|RPSA_uc003cjr.2_Missense_Mutation_p.R191C|RPSA_uc003cjt.2_RNA	NM_002295	NP_002286	P08865	RSSA_HUMAN	ribosomal protein SA	191					cell adhesion|endocrine pancreas development|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit assembly|rRNA export from nucleus|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleus|plasma membrane	protein binding|receptor activity|ribosome binding|structural constituent of ribosome			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0509)|Kidney(284;0.064)		CACCATTTCCCGTGAACACCC	0.502													14	23					0	0	1	0	0		T	39453212	T	T	39453212	3	4	190	1	0	0	0	0	1	0	0	0	13688	652	23	1	585	1	RPSA	3	39453212	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1351899	39453212	158569218	241	94394											
MYRIP	25924	broad.mit.edu	37	chr3	40251426	40251426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagacaccacagaggagaaaCggagaaacaggctgtacgag	17	2	13	9	2	0	4	0	0	0	4	0	7	0	4	1	3	3	2	1	3	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:40251426C>T	uc003cka.2	+	11	1882	c.1747C>T	c.(1747-1749)CGG>TGG	p.R583W	MYRIP_uc010hhu.2_RNA|MYRIP_uc010hhv.2_Missense_Mutation_p.R583W|MYRIP_uc010hhw.2_Missense_Mutation_p.R494W|MYRIP_uc011ayz.1_Missense_Mutation_p.R396W|uc003ckb.2_Intron	NM_015460	NP_056275	Q8NFW9	MYRIP_HUMAN	myosin VIIA and Rab interacting protein	583	Actin-binding.				intracellular protein transport		actin binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.174)|Kidney(284;0.206)		AGAGGAGAAACGGAGAAACAG	0.478													36	70					0	0	1	0	0		T	40251426	T	T	40251426	3	4	190	1	0	0	0	0	1	0	0	0	10118	527	19	1	1785	1	MYRIP	3	40251426	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	798214	40251426	157771004	242	94395											
CDCP1	64866	broad.mit.edu	37	chr3	45132849	45132849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggatgatcatgaatgcGcgccctgtctggcagaccac	8	9	11	13	2	2	3	1	2	1	1	3	4	3	4	3	2	1	1	3	2	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:45132849G>A	uc003com.2	-	7	1944	c.1809C>T	c.(1807-1809)CGC>CGT	p.R603R		NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	603	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		TCATGAATGCGCGCCCTGTCT	0.607													18	39					0	0	1	0	0		A	45132849	A	A	45132849	2	1	190	1	0	0	0	0	0	0	0	1	3096	1074	38	1		1	CDCP1	3	45132849	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4881423	45132849	152889581	243	94396											
XCR1	2829	broad.mit.edu	37	chr3	46063062	46063062	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcactaccgacaggtagcgGtggatggtcatgatggtcag	9	9	14	9	2	3	1	3	1	0	0	3	3	3	2	1	5	2	1	1	5	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:46063062G>A	uc003cpe.2	-	3	602	c.378C>T	c.(376-378)CAC>CAT	p.H126H	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Silent_p.H126H	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	126	Cytoplasmic (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		ACAGGTAGCGGTGGATGGTCA	0.602													11	10					0	0	1	0	0		A	46063062	A	A	46063062	2	1	190	1	0	0	0	0	0	0	0	1	17451	1252	44	4		4	XCR1	3	46063062	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	930213	46063062	151959368	244	94397											
PRSS45	377047	broad.mit.edu	37	chr3	46786212	46786212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgtgctcattttccatccGgaggctcacctcccagggcc	6	9	9	17	2	2	0	2	0	0	0	5	1	5	1	5	3	1	2	5	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:46786212G>A	uc010hjl.2	-	1	34	c.34C>T	c.(34-36)CGG>TGG	p.R12W	PRSS45_uc011bam.1_RNA	NM_199183	NP_954652	Q7RTY3	PRS45_HUMAN	testis serine protease 5	12	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0						TTTTCCATCCGGAGGCTCACC	0.602													8	13					0	0	1	0	0		A	46786212	A	A	46786212	3	1	190	1	0	0	0	0	1	0	0	0	12651	1115	39	1	668	1	PRSS45	3	46786212	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	723150	46786212	151236218	245	94398											
SETD2	29072	broad.mit.edu	37	chr3	47103754	47103755	+	Frame_Shift_Ins	INS	-	TC	TC																															tttgagtttgcttgtctgggINStctctctctcttgacctatt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:47103754_47103755insTC	uc003cqs.2	-	14	6244_6245	c.6191_6192insGA	c.(6190-6192)GACfs	p.D2064fs	SETD2_uc003cqv.2_Frame_Shift_Ins_p.D2131fs|SETD2_uc003cqt.1_RNA	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2064					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		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)		GCTTGTCTGGGTCTCTCTCTCT	0.485			N|F|S|Mis		clear cell renal carcinoma								100	176	---	---	---	---						.	TC	47103755	TC	TC	47103754	7	5	190	1	0	1	1	0	0	0	0	0	14156	1252	44	0	1534	0	SETD2	3	47103754	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	317542	47103754	150918676	246	94399											
SMARCC1	6599	broad.mit.edu	37	chr3	47677558	47677559	+	Frame_Shift_Ins	INS	-	T	T																															tatcctgttccttttcactaINStttttttcattttctccatc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:47677558_47677559insT	uc003crq.2	-	23	2562_2563	c.2444_2445insA	c.(2443-2445)AATfs	p.N815fs	SMARCC1_uc011bbc.1_RNA|SMARCC1_uc011bbd.1_Frame_Shift_Ins_p.N706fs	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	815	Glu-rich.				chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		CCTTTTCACTATTTTTTTCATT	0.356													39	72	---	---	---	---						.	T	47677559	T	T	47677558	7	5	190	1	0	1	1	0	0	0	0	0	14800	446	16	0	896	0	SMARCC1	3	47677558	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	573804	47677558	150344872	247	94400											
SMARCC1	6599	broad.mit.edu	37	chr3	47779562	47779562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcataaacatttccacattaCgatccattcgagatgggttc	12	13	6	10	2	1	1	1	0	0	1	5	3	3	1	2	1	2	1	2	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:47779562C>T	uc003crq.2	-	4	558	c.440G>A	c.(439-441)CGT>CAT	p.R147H	SMARCC1_uc011bbd.1_Missense_Mutation_p.R38H	NM_003074	NP_003065	Q92922	SMRC1_HUMAN	SWI/SNF-related matrix-associated	147					chromatin remodeling|nervous system development|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex|WINAC complex	DNA binding|protein N-terminus binding|transcription coactivator activity			skin(2)|lung(1)	3				BRCA - Breast invasive adenocarcinoma(193;7.47e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00862)|Kidney(197;0.01)		TTCCACATTACGATCCATTCG	0.323													6	17					0	0	1	0	0		T	47779562	T	T	47779562	3	4	190	1	0	0	0	0	1	0	0	0	14800	536	19	1	2977	1	SMARCC1	3	47779562	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	102004	47779562	150242868	248	94401											
PLXNB1	5364	broad.mit.edu	37	chr3	48459679	48459679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccgggtcacacaacgtggaCgctccccctcacaccacaca	10	4	7	20	3	2	0	2	0	0	0	3	1	3	1	4	2	1	1	4	2	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:48459679C>T	uc003csw.2	-	15	3413	c.3143G>A	c.(3142-3144)CGT>CAT	p.R1048H	PLXNB1_uc003csu.2_Missense_Mutation_p.R865H|PLXNB1_uc003csx.2_Missense_Mutation_p.R1048H|PLXNB1_uc010hjx.1_RNA|PLXNB1_uc003csy.1_5'Flank	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1048	Extracellular (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ACAACGTGGACGCTCCCCCTC	0.627													14	18					0	0	1	0	0		T	48459679	T	T	48459679	3	4	190	1	0	0	0	0	1	0	0	0	12142	536	19	1	3360	1	PLXNB1	3	48459679	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	680117	48459679	149562751	249	94402											
CELSR3	1951	broad.mit.edu	37	chr3	48686617	48686617	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcgggctccagccaaccCtgggcctcatcacacagccg	8	5	11	17	2	2	0	2	0	0	0	4	0	3	0	5	3	3	1	5	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:48686617C>A	uc003cul.2	-	17	6785	c.6504G>T	c.(6502-6504)CAG>CAT	p.Q2168H	CELSR3_uc003cuf.1_Missense_Mutation_p.Q2238H|CELSR3_uc010hkg.2_Missense_Mutation_p.Q151H	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	2168	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCAGCCAACCCTGGGCCTCAT	0.612													6	6					0.0215528	0.0216689	1	1	0		A	48686617	A	A	48686617	3	1	190	1	0	0	0	0	1	0	0	0	3226	680	24	5	3510	5	CELSR3	3	48686617	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	226938	48686617	149335813	250	94403											
CELSR3	1951	broad.mit.edu	37	chr3	48699637	48699637	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttgcaaaggtcctgtcCgcccgcaagaggagacctct	8	9	10	14	2	2	2	0	0	2	2	4	3	4	2	4	2	1	2	4	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:48699637C>T	uc003cul.2	-	1	712	c.431G>A	c.(430-432)CGG>CAG	p.R144Q	CELSR3_uc003cuf.1_Missense_Mutation_p.R214Q	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	144	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGGTCCTGTCCGCCCGCAAGA	0.607													53	66					0	0	1	0	0		T	48699637	T	T	48699637	3	4	190	1	0	0	0	0	1	0	0	0	3226	652	23	1	9647	1	CELSR3	3	48699637	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	13020	48699637	149322793	251	94404											
SLC25A20	788	broad.mit.edu	37	chr3	48897000	48897000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctcacctctttccctccGgagtgaagatatttttcagc	7	15	6	13	1	3	2	2	1	1	1	6	3	6	3	4	1	1	0	4	1	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:48897000G>A	uc003cva.3	-	6	771	c.596C>T	c.(595-597)CCG>CTG	p.P199L	SLC25A20_uc011bbw.1_Missense_Mutation_p.P149L|SLC25A20_uc010hkj.2_Missense_Mutation_p.P126L	NM_000387	NP_000378	O43772	MCAT_HUMAN	carnitine/acylcarnitine translocase	199	Cytoplasmic (Potential).				carnitine shuttle|cellular lipid metabolic process|regulation of fatty acid oxidation	integral to membrane|mitochondrial inner membrane	acyl carnitine transporter activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000168)|Kidney(197;0.00231)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	L-Carnitine(DB00583)	CTTTCCCTCCGGAGTGAAGAT	0.418													7	150					0	0	1	0	0		A	48897000	A	A	48897000	3	1	190	1	0	0	0	0	1	0	0	0	14508	1116	39	1	325	1	SLC25A20	3	48897000	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	197363	48897000	149125430	252	94405											
BSN	8927	broad.mit.edu	37	chr3	49698234	49698234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagttgggtatcacacaaCgcaaagagtctttggccaaa	13	9	11	8	1	2	1	1	0	1	1	2	2	2	2	1	3	1	3	1	3	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:49698234C>T	uc003cxe.3	+	6	9070	c.8956C>T	c.(8956-8958)CGC>TGC	p.R2986C		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2986					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		TATCACACAACGCAAAGAGTC	0.557													17	27					0	0	1	0	0		T	49698234	T	T	49698234	3	4	190	1	0	0	0	0	1	0	0	0	1533	536	19	1	8978	1	BSN	3	49698234	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	801234	49698234	148324196	253	94406											
IP6K1	9807	broad.mit.edu	37	chr3	49785304	49785304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagggagggactcgtaaaagCgctgttcccgggagatgagg	10	6	18	7	3	0	2	0	1	0	1	2	6	1	4	1	4	1	3	1	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:49785304C>T	uc003cxm.1	-	2	485	c.170G>A	c.(169-171)CGC>CAC	p.R57H	IP6K1_uc003cxn.1_Intron|IP6K1_uc011bcv.1_Intron|IP6K1_uc003cxo.2_Missense_Mutation_p.R57H	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	57					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						CTCGTAAAAGCGCTGTTCCCG	0.542													29	33					0	0	1	0	0		T	49785304	T	T	49785304	3	4	190	1	0	0	0	0	1	0	0	0	7804	768	27	1	1175	1	IP6K1	3	49785304	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	87070	49785304	148237126	254	94407											
RBM6	10180	broad.mit.edu	37	chr3	50095229	50095230	+	Frame_Shift_Ins	INS	-	A	A																															atccataccagcaccattggINSaaaaacagcccaaccagccc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:50095229_50095230insA	uc003cyc.2	+	9	1895_1896	c.1762_1763insA	c.(1762-1764)GAAfs	p.E588fs	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Frame_Shift_Ins_p.E107fs|RBM6_uc003cyd.2_Frame_Shift_Ins_p.E66fs|RBM6_uc003cye.2_Frame_Shift_Ins_p.E66fs|RBM6_uc011bdi.1_5'UTR|RBM6_uc010hld.1_RNA|RBM6_uc010hle.1_RNA|RBM6_uc010hlf.1_RNA	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	588					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		AGCACCATTGGAAAAACAGCCC	0.465													44	52	---	---	---	---						.	A	50095230	A	A	50095229	7	5	190	1	0	1	1	0	0	0	0	0	13169	1175	41	0	1792	0	RBM6	3	50095229	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	309925	50095229	147927201	255	94408											
DOCK3	1795	broad.mit.edu	37	chr3	51308421	51308421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaggacagtggatagccGcctgttttctttctcaggta	7	13	11	10	1	2	0	1	0	2	0	3	2	2	2	3	3	2	2	3	3	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:51308421G>A	uc011bds.1	+	24	2554	c.2531G>A	c.(2530-2532)CGC>CAC	p.R844H		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	844						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		GTGGATAGCCGCCTGTTTTCT	0.522													37	61					0	0	1	0	0		A	51308421	A	A	51308421	3	1	190	1	0	0	0	0	1	0	0	0	4694	1087	38	1	2625	1	DOCK3	3	51308421	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1213192	51308421	146714009	256	94409											
IQCF1	132141	broad.mit.edu	37	chr3	51929286	51929286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacgcaccagggtgccccGccaccaggcctggatcttgg	6	5	13	17	3	1	0	0	0	1	0	1	2	1	1	7	4	1	1	7	4	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:51929286G>A	uc003dbv.2	-	4	336	c.238C>T	c.(238-240)CGG>TGG	p.R80W	IQCF1_uc003dbq.3_Intron	NM_152397	NP_689610	Q8N6M8	IQCF1_HUMAN	IQ motif containing F1	80	IQ 1.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		AGGGTGCCCCGCCACCAGGCC	0.542													24	38					0	0	1	0	0		A	51929286	A	A	51929286	3	1	190	1	0	0	0	0	1	0	0	0	7823	1086	38	1	383	1	IQCF1	3	51929286	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	620865	51929286	146093144	257	94410											
ALAS1	211	broad.mit.edu	37	chr3	52233439	52233439	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctaccaacagatcaaagaaaCccctccggccagtgagagta	15	5	8	13	1	1	3	1	1	0	3	2	4	2	3	5	1	3	1	5	1	5	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:52233439C>A	uc003dcy.1	+	3	519	c.182C>A	c.(181-183)ACC>AAC	p.T61N	ALAS1_uc003dcx.1_Missense_Mutation_p.T61N|ALAS1_uc003dcz.1_Missense_Mutation_p.T61N|ALAS1_uc011bec.1_Missense_Mutation_p.T78N	NM_000688	NP_000679	P13196	HEM1_HUMAN	5-aminolevulinate synthase 1 precursor	61					heme biosynthetic process	mitochondrial matrix	5-aminolevulinate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(2)|upper_aerodigestive_tract(1)	3				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	ATCAAAGAAACCCCTCCGGCC	0.522													25	42					2.39556e-15	2.54924e-15	1	1	0		A	52233439	A	A	52233439	3	1	190	1	0	0	0	0	1	0	0	0	484	507	18	5	184	5	ALAS1	3	52233439	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	304153	52233439	145788991	258	94411											
RFT1	91869	broad.mit.edu	37	chr3	53126488	53126488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggggctccttcggtagtagCggtggatgaagcaaaggctc	8	8	17	8	2	0	1	0	1	0	0	3	2	1	2	1	6	2	5	1	6	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:53126488C>T	uc003dgj.2	-	12	1409	c.1355G>A	c.(1354-1356)CGC>CAC	p.R452H	RFT1_uc003dgk.2_Missense_Mutation_p.R413H	NM_052859	NP_443091	Q96AA3	RFT1_HUMAN	RFT1 homolog	452					carbohydrate transport|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane	lipid transporter activity			skin(1)	1				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)		TCGGTAGTAGCGGTGGATGAA	0.587													5	7					0	0	1	0	0		T	53126488	T	T	53126488	3	4	190	1	0	0	0	0	1	0	0	0	13282	768	27	1	278	1	RFT1	3	53126488	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	893049	53126488	144895942	259	94412											
CHDH	55349	broad.mit.edu	37	chr3	53856562	53856562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atactccacgcccactgcacGggtgccctcaaatagcaccc	10	6	7	18	2	1	0	1	0	0	0	2	0	2	0	4	1	4	2	4	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:53856562G>A	uc003dgz.2	-	4	1251	c.811C>T	c.(811-813)CGT>TGT	p.R271C		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	271					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		BRCA - Breast invasive adenocarcinoma(193;0.000158)|KIRC - Kidney renal clear cell carcinoma(284;0.00588)|Kidney(284;0.00673)|OV - Ovarian serous cystadenocarcinoma(275;0.118)	Choline(DB00122)	CCCACTGCACGGGTGCCCTCA	0.647													12	24					0	0	1	0	0		A	53856562	A	A	53856562	3	1	190	1	0	0	0	0	1	0	0	0	3336	1116	39	1	997	1	CHDH	3	53856562	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	730074	53856562	144165868	260	94413											
CACNA2D3	55799	broad.mit.edu	37	chr3	54914835	54914835	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcacagtttaggtgtggcGctttccagaggtcatgggaa	8	11	14	8	1	1	1	1	0	0	1	2	2	2	2	1	4	1	3	1	4	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:54914835G>A	uc003dhf.2	+	21	1905	c.1857G>A	c.(1855-1857)GCG>GCA	p.A619A	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Silent_p.A525A|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_Silent_p.A353A|uc003dhk.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	619	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TAGGTGTGGCGCTTTCCAGAG	0.433													81	110					0	0	1	0	0		A	54914835	A	A	54914835	2	1	190	1	0	0	0	0	0	0	0	1	2553	1074	38	1		1	CACNA2D3	3	54914835	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1058273	54914835	143107595	261	94414											
CCDC66	285331	broad.mit.edu	37	chr3	56651196	56651197	+	Frame_Shift_Del	DEL	GA	-	-																															cacattgtggatcattaatgGagagggacatcacaaattgt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:56651196_56651197delGA	uc003dhz.2	+	14	1987_1988	c.1900_1901delGA	c.(1900-1902)GAGfs	p.E634fs	CCDC66_uc003dhy.2_Frame_Shift_Del_p.E270fs|CCDC66_uc003dhu.2_Frame_Shift_Del_p.E600fs|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dia.2_Frame_Shift_Del_p.E2fs	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	634										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		ATCATTAATGGAGAGGGACATC	0.312													25	36	---	---	---	---						.	-	56651197	-	-	56651196	7	5	190	1	0	1	0	1	0	0	0	0	2841	1175	41	0	1954	0	CCDC66	3	56651196	Frame_Shift_Del	DEL	GA	TCGA-F1-6177-01A-11D-1800-08	1736361	56651196	141371234	262	94415											
ARHGEF3	50650	broad.mit.edu	37	chr3	56771219	56771219	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtaactacttaccacgccCcgattgttcttcagttcacc	9	12	6	14	2	3	0	2	0	1	0	3	2	3	0	4	0	3	3	4	0	3	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:56771219C>T	uc003dig.2	-	8	1204	c.1035G>A	c.(1033-1035)CGG>CGA	p.R345R	ARHGEF3_uc011bew.1_Silent_p.R345R|ARHGEF3_uc003dih.2_Silent_p.R377R|ARHGEF3_uc011bev.1_Silent_p.R316R|ARHGEF3_uc003dif.2_Silent_p.R351R|ARHGEF3_uc010hmy.1_Silent_p.R143R|ARHGEF3_uc003dii.2_Silent_p.R345R	NM_019555	NP_062455	Q9NR81	ARHG3_HUMAN	Rho guanine nucleotide exchange factor 3 isoform	345	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|Rho protein signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0161)|Kidney(284;0.019)|OV - Ovarian serous cystadenocarcinoma(275;0.193)		TTACCACGCCCCGATTGTTCT	0.458													29	54					0	0	1	0	0		T	56771219	T	T	56771219	2	4	190	1	0	0	0	0	0	0	0	1	904	610	22	4		4	ARHGEF3	3	56771219	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	120023	56771219	141251211	263	94416											
ATXN7	6314	broad.mit.edu	37	chr3	63938114	63938114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctacttggtggtgtgtaacGactgtaatcaggttgtcaaa	10	14	11	6	1	3	0	2	0	1	0	3	1	3	0	0	3	2	3	0	3	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:63938114G>A	uc003dlw.3	+	5	1007	c.454G>A	c.(454-456)GAC>AAC	p.D152N	ATXN7_uc003dlv.2_Missense_Mutation_p.D152N|ATXN7_uc010hnv.2_Missense_Mutation_p.D152N	NM_000333	NP_000324	O15265	ATX7_HUMAN	ataxin 7 isoform a	152					cell death|histone deubiquitination|nucleus organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nuclear matrix|nucleolus	protein binding|zinc ion binding				0		Prostate(884;0.0181)		BRCA - Breast invasive adenocarcinoma(55;0.000614)|KIRC - Kidney renal clear cell carcinoma(15;0.00294)|Kidney(15;0.00305)		GGTGTGTAACGACTGTAATCA	0.388													35	44					0	0	1	0	0		A	63938114	A	A	63938114	3	1	190	1	0	0	0	0	1	0	0	0	1216	1058	37	1	464	1	ATXN7	3	63938114	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7166895	63938114	134084316	264	94417											
MAGI1	9223	broad.mit.edu	37	chr3	65342797	65342797	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggcggggccgtggcggtcGctgctggggtctgccaggaa	3	7	21	10	4	1	0	0	0	1	0	2	1	1	1	2	8	2	2	2	8	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:65342797G>A	uc003dmn.2	-	23	4171	c.3645C>T	c.(3643-3645)AGC>AGT	p.S1215S	MAGI1_uc003dmm.2_Missense_Mutation_p.A1273V	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1244					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		CGTGGCGGTCGCTGCTGGGGT	0.642													4	35					0	0	1	0	0		A	65342797	A	A	65342797	2	1	190	1	0	0	0	0	0	0	0	1	9208	1087	38	1		1	MAGI1	3	65342797	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1404683	65342797	132679633	265	94418											
SUCLG2	8801	broad.mit.edu	37	chr3	67570954	67570955	+	Frame_Shift_Ins	INS	-	C	C																															ccacctcttcaatgtcgacgINScccccctgggggctgcccac																								rs61756471	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:67570954_67570955insC	uc003dna.3	-	5	549_550	c.521_522insG	c.(520-522)GGCfs	p.G174fs	SUCLG2_uc010hob.2_Frame_Shift_Ins_p.G55fs	NM_003848	NP_003839	Q96I99	SUCB2_HUMAN	succinate-CoA ligase, GDP-forming beta subunit	174	ATP-grasp.			GV -> RS (in Ref. 2; AAC64397).	succinyl-CoA metabolic process|tricarboxylic acid cycle	mitochondrial matrix	ATP binding|GTP binding|succinate-CoA ligase (GDP-forming) activity			central_nervous_system(1)|skin(1)	2		Renal(2;0.00294)|Lung NSC(201;0.012)|Hepatocellular(537;0.121)		BRCA - Breast invasive adenocarcinoma(55;3.53e-05)|Epithelial(33;0.000153)	Succinic acid(DB00139)	CAATGTCGACGCCCCCCTGGGG	0.505													35	73	---	---	---	---						.	C	67570955	C	C	67570954	7	5	190	1	0	1	1	0	0	0	0	0	15390	1074	38	0	948	0	SUCLG2	3	67570954	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	2228157	67570954	130451476	266	94419											
GPR27	2850	broad.mit.edu	37	chr3	71803976	71803976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccgcgcttgtgggcatccGgcccgcagggccgggccgcg	2	4	18	17	7	0	0	0	0	0	0	1	0	1	0	5	4	0	3	5	4	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:71803976G>A	uc011bge.1	+	1	776	c.776G>A	c.(775-777)CGG>CAG	p.R259Q	EIF4E3_uc003dox.2_5'Flank|EIF4E3_uc011bgd.1_5'Flank|EIF4E3_uc010hoc.2_5'Flank	NM_018971	NP_061844	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	259	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		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)		GTGGGCATccggcccgcaggg	0.572													4	3					0	0	1	0	0		A	71803976	A	A	71803976	3	1	190	1	0	0	0	0	1	0	0	0	6700	1116	39	1	778	1	GPR27	3	71803976	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4233022	71803976	126218454	267	94420											
ROBO2	6092	broad.mit.edu	37	chr3	77614178	77614178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctatactgtaagaggactgCggcccaatacaatctactta	13	11	7	10	1	2	1	0	0	2	1	2	2	2	2	1	2	4	1	1	2	8	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:77614178C>T	uc003dpy.3	+	12	2399	c.1756C>T	c.(1756-1758)CGG>TGG	p.R586W	ROBO2_uc003dpz.2_Missense_Mutation_p.R590W|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.R590W	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	586	Extracellular (Potential).|Fibronectin type-III 1.				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		AAGAGGACTGCGGCCCAATAC	0.483													29	48					0	0	1	0	0		T	77614178	T	T	77614178	3	4	190	1	0	0	0	0	1	0	0	0	13539	759	27	1	1804	1	ROBO2	3	77614178	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5810202	77614178	120408252	268	94421											
ROBO1	6091	broad.mit.edu	37	chr3	78717036	78717036	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	agtaaatcaatatttaccttGtgttttcactggatctgata	12	17	6	6	0	3	1	2	1	1	0	3	2	3	2	1	1	1	2	1	1	6	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:78717036G>A	uc003dqe.2	-	14	2171	c.1963C>T	c.(1963-1965)CAA>TAA	p.Q655*	ROBO1_uc003dqb.2_Nonsense_Mutation_p.Q616*|ROBO1_uc003dqc.2_Nonsense_Mutation_p.Q619*|ROBO1_uc003dqd.2_Nonsense_Mutation_p.Q619*|ROBO1_uc010hoh.2_5'UTR|ROBO1_uc011bgl.1_Nonsense_Mutation_p.Q227*|ROBO1_uc003dqf.1_Nonsense_Mutation_p.Q334*	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	655	Extracellular (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		TATTTACCTTGTGTTTTCACT	0.353													15	21					0	0	1	0	0		A	78717036	A	A	78717036	4	1	190	1	0	0	0	0	0	1	0	0	13538	1386	48	4	3064	4	ROBO1	3	78717036	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1102858	78717036	119305394	269	94422											
GABRR3	200959	broad.mit.edu	37	chr3	97731224	97731224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtttccatcagggtgtacgCgcagcatgatattctccata	9	12	9	11	3	2	1	1	1	1	0	4	1	3	1	2	1	2	4	2	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:97731224C>T	uc011bgr.1	-	4	494	c.494G>A	c.(493-495)CGC>CAC	p.R165H		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	165	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0						AGGGTGTACGCGCAGCATGAT	0.463													20	23					0	0	1	0	0		T	97731224	T	T	97731224	3	4	190	1	0	0	0	0	1	0	0	0	6192	768	27	1	932	1	GABRR3	3	97731224	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	19014188	97731224	100291206	270	94423											
IMPG2	50939	broad.mit.edu	37	chr3	101023021	101023021	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcttctatgttccacagatTcactaaaatttgtgcccatt	11	15	5	10	0	2	1	1	0	1	1	3	1	3	1	2	0	2	2	2	0	3	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:101023021T>C	uc003duq.1	-	3	673	c.470A>G	c.(469-471)GAA>GGA	p.E157G	IMPG2_uc011bhe.1_Missense_Mutation_p.E20G	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	157	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TTCCACAGATTCACTAAAATT	0.403													50	86					0	0	1	0	0		C	101023021	C	C	101023021	3	2	190	1	0	0	0	0	1	0	0	0	7745	1783	62	3	3323	3	IMPG2	3	101023021	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3291797	101023021	96999409	271	94424											
CCDC80	151887	broad.mit.edu	37	chr3	112357095	112357095	+	Frame_Shift_Del	DEL	T	-	-																															ctgcgttctcattcttcatcTtttttttcttctccttctct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:112357095delT	uc003dzf.2	-	2	1876	c.1658delA	c.(1657-1659)AAGfs	p.K553fs	CCDC80_uc011bhv.1_Frame_Shift_Del_p.K553fs|CCDC80_uc003dzg.2_Frame_Shift_Del_p.K553fs|CCDC80_uc003dzh.1_Frame_Shift_Del_p.K553fs	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	553	Lys-rich.									ovary(2)	2						attcttcatcttttttttctt	0.189													17	21	---	---	---	---						.	-	112357095	-	-	112357095	7	5	190	1	0	1	0	1	0	0	0	0	2857	1609	56	0	1222	0	CCDC80	3	112357095	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	11334074	112357095	85665335	272	94425											
CD200R1L	344807	broad.mit.edu	37	chr3	112546413	112546413	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttcttgtaggcttttgtGcaggaaggctggcctctcag	5	15	12	9	0	3	0	1	0	3	0	4	1	3	1	1	4	1	4	1	4	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:112546413G>A	uc003dzi.1	-	3	457	c.231C>T	c.(229-231)TGC>TGT	p.C77C	CD200R1L_uc011bhw.1_Silent_p.C56C|CD200R1L_uc010hqf.1_Silent_p.C56C	NM_001008784	NP_001008784	Q6Q8B3	MO2R2_HUMAN	CD200 cell surface glycoprotein receptor 2	77	Ig-like V-type.|Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)	1						AGGCTTTTGTGCAGGAAGGCT	0.413													54	76					0	0	1	0	0		A	112546413	A	A	112546413	2	1	190	1	0	0	0	0	0	0	0	1	2985	1311	46	2		2	CD200R1L	3	112546413	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	189318	112546413	85476017	273	94426											
CCDC52	152185	broad.mit.edu	37	chr3	113184616	113184616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgtctctacttctttacGtagctggatctcactctaca	7	16	5	13	1	4	0	1	0	4	0	6	1	4	1	1	1	4	2	1	1	4	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:113184616G>A	uc003eag.3	-	11	1462	c.1171C>T	c.(1171-1173)CGT>TGT	p.R391C	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.R287C	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	391	Potential.				cell division|mitosis	centriole|spindle	protein binding				0						ACTTCTTTACGTAGCTGGATC	0.378													23	28					0	0	1	0	0		A	113184616	A	A	113184616	3	1	190	1	0	0	0	0	1	0	0	0	2825	1145	40	1	1428	1	CCDC52	3	113184616	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	638203	113184616	84837814	274	94427											
KIAA2018	205717	broad.mit.edu	37	chr3	113374252	113374252	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatgagggctggagttcgagTggcactaggctgagtaacct	9	9	16	7	1	0	2	0	2	0	0	1	5	0	3	1	4	1	5	1	4	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:113374252T>C	uc003eam.2	-	7	6688	c.6277A>G	c.(6277-6279)ACT>GCT	p.T2093A	KIAA2018_uc003eal.2_Missense_Mutation_p.T2037A	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	2093					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GGAGTTCGAGTGGCACTAGGC	0.443													49	60					0	0	1	0	0		C	113374252	C	C	113374252	3	2	190	1	0	0	0	0	1	0	0	0	8284	1696	59	3	464	3	KIAA2018	3	113374252	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	189636	113374252	84648178	275	94428											
ZBTB20	26137	broad.mit.edu	37	chr3	114058003	114058003	+	Frame_Shift_Del	DEL	G	-	-																															cacctgggggtgtgcctgcaGggggggtcccattgctggca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:114058003delG	uc003ebi.2	-	5	2255	c.2075delC	c.(2074-2076)CCTfs	p.P692fs	ZBTB20_uc003ebj.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc010hqp.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebk.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebl.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebm.2_Frame_Shift_Del_p.P619fs|ZBTB20_uc003ebn.2_Frame_Shift_Del_p.P619fs	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	692					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TGTGCCTGCAGGGGGGGTCCC	0.632													22	49	---	---	---	---						.	-	114058003	-	-	114058003	7	5	190	1	0	1	0	1	0	0	0	0	17554	1000	35	0	154	0	ZBTB20	3	114058003	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	683751	114058003	83964427	276	94429											
ZBTB20	26137	broad.mit.edu	37	chr3	114069778	114069778	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgagtcaggctcggtgcctaTggaggagctgacgcccgagt	7	7	16	11	4	1	1	1	1	0	0	2	5	1	3	2	4	2	2	2	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:114069778T>C	uc003ebi.2	-	4	1327	c.1147A>G	c.(1147-1149)ATA>GTA	p.I383V	ZBTB20_uc003ebj.2_Missense_Mutation_p.I310V|ZBTB20_uc010hqp.2_Missense_Mutation_p.I310V|ZBTB20_uc003ebk.2_Missense_Mutation_p.I310V|ZBTB20_uc003ebl.2_Missense_Mutation_p.I310V|ZBTB20_uc003ebm.2_Missense_Mutation_p.I310V|ZBTB20_uc003ebn.2_Missense_Mutation_p.I310V|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	383					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		TCGGTGCCTATGGAGGAGCTG	0.657													21	38					0	0	1	0	0		C	114069778	C	C	114069778	3	2	190	1	0	0	0	0	1	0	0	0	17554	1464	51	3	1086	3	ZBTB20	3	114069778	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	11775	114069778	83952652	277	94430											
C3orf30	152405	broad.mit.edu	37	chr3	118866168	118866168	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagaatatttccccagttaGgcaacagcaaagaggacaaa	18	6	8	9	0	0	2	0	0	0	2	1	3	1	3	2	2	2	3	2	2	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:118866168G>T	uc003ecb.1	+	1	1172	c.1132G>T	c.(1132-1134)GGC>TGC	p.G378C	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Missense_Mutation_p.G378C	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	378										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		TCCCCAGTTAGGCAACAGCAA	0.448													24	32					5.35356e-11	5.63672e-11	1	1	0		T	118866168	T	T	118866168	3	4	190	1	0	0	0	0	1	0	0	0	2223	1000	35	5	1134	5	C3orf30	3	118866168	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4796390	118866168	79156262	278	94431											
ARHGAP31	57514	broad.mit.edu	37	chr3	119120866	119120866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgcagccatctccagggcGctcaggcccggcccccaccg	6	4	11	20	4	2	0	1	0	1	0	4	0	2	0	6	3	1	2	6	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:119120866G>A	uc003ecj.3	+	10	1799	c.1267G>A	c.(1267-1269)GCT>ACT	p.A423T		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	423					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						TCTCCAGGGCGCTCAGGCCCG	0.622													22	33					0	0	1	0	0		A	119120866	A	A	119120866	3	1	190	1	0	0	0	0	1	0	0	0	880	1087	38	1	1305	1	ARHGAP31	3	119120866	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	254698	119120866	78901564	279	94432											
C3orf15	89876	broad.mit.edu	37	chr3	119434407	119434407	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaactgatttttctcttttAgggcagaaccatacactttt	11	17	5	8	0	1	2	0	1	1	1	2	2	1	2	1	1	3	1	1	1	5	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:119434407A>G	uc003ede.3	+	6	578	c.501_splice	c.e6-2	p.K167_splice	C3orf15_uc003edc.2_Splice_Site_p.K167_splice|C3orf15_uc010hqy.1_Splice_Site_p.K167_splice|C3orf15_uc010hqz.2_Splice_Site_p.K105_splice|C3orf15_uc011bjd.1_Splice_Site_p.K41_splice|C3orf15_uc011bje.1_Splice_Site_p.K147_splice|C3orf15_uc010hra.1_Splice_Site	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha							mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		TTTCTCTTTTAGGGCAGAACC	0.368													61	119					0	0	1	0	0		G	119434407	G	G	119434407	5	3	190	1	0	0	0	0	0	0	1	0	2212	434	15	3	521	3	C3orf15	3	119434407	Splice_Site	SNP	A	TCGA-F1-6177-01A-11D-1800-08	313541	119434407	78588023	280	94433											
MYLK	4638	broad.mit.edu	37	chr3	123457859	123457860	+	Frame_Shift_Ins	INS	-	C	C																															agcaaactttggtgggcactINSccccccagatgctaggacgg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:123457859_123457860insC	uc003ego.2	-	7	754_755	c.472_473insG	c.(472-474)GAGfs	p.E158fs	MYLK_uc011bjw.1_Frame_Shift_Ins_p.E158fs|MYLK_uc003egp.2_Frame_Shift_Ins_p.E158fs|MYLK_uc003egq.2_Frame_Shift_Ins_p.E158fs|MYLK_uc003egr.2_Frame_Shift_Ins_p.E158fs|MYLK_uc003egs.2_5'UTR|MYLK_uc010hrs.1_Frame_Shift_Ins_p.E158fs	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	158					aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		TGGTGGGCACTCCCCCCAGATG	0.55													19	11	---	---	---	---						.	C	123457860	C	C	123457859	7	5	190	1	0	1	1	0	0	0	0	0	10074	1551	54	0	5383	0	MYLK	3	123457859	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	4023452	123457859	74564571	281	94434											
KALRN	8997	broad.mit.edu	37	chr3	124174076	124174076	+	Frame_Shift_Del	DEL	A	-	-																															gctggccgatagctttgtggAaaaaggccacattcatgcca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:124174076delA	uc003ehg.2	+	22	3726	c.3599delA	c.(3598-3600)GAAfs	p.E1200fs	KALRN_uc010hrv.1_Frame_Shift_Del_p.E1191fs|KALRN_uc003ehf.1_Frame_Shift_Del_p.E1200fs|KALRN_uc011bjy.1_Frame_Shift_Del_p.E1191fs|KALRN_uc003ehh.1_Frame_Shift_Del_p.E546fs	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1200	Spectrin 5.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						AGCTTTGTGGAAAAAGGCCAC	0.468													39	72	---	---	---	---						.	-	124174076	-	-	124174076	7	5	190	1	0	1	0	1	0	0	0	0	7991	246	9	0	3685	0	KALRN	3	124174076	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	716217	124174076	73848354	282	94435											
UMPS	7372	broad.mit.edu	37	chr3	124457070	124457071	+	Frame_Shift_Ins	INS	-	A	A																															cagatataggaaacacagtgINSaaaaagcagtatgaaggtaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:124457070_124457071insA	uc003ehl.3	+	3	1072_1073	c.966_967insA	c.(964-969)GTGAAAfs	p.V322fs	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Frame_Shift_Ins_p.V144fs|UMPS_uc011bkb.1_Frame_Shift_Ins_p.V230fs|UMPS_uc011bkc.1_Frame_Shift_Ins_p.V144fs|UMPS_uc003ehn.3_Frame_Shift_Ins_p.V144fs|UMPS_uc011bkd.1_Frame_Shift_Ins_p.V144fs	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	322_323	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		GAAACACAGTGAAAAAGCAGTA	0.252													29	43	---	---	---	---						.	A	124457071	A	A	124457070	7	5	190	1	0	1	1	0	0	0	0	0	17007	1277	45	0	976	0	UMPS	3	124457070	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	282994	124457070	73565360	283	94436											
UROC1	131669	broad.mit.edu	37	chr3	126236457	126236457	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtttctccacagggctgaGgctgggggtcctgacagggg	5	9	17	10	0	1	2	0	2	1	0	3	2	2	2	2	6	0	3	2	6	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:126236457G>T	uc003eiz.1	-	1	138	c.106C>A	c.(106-108)CTC>ATC	p.L36I	UROC1_uc010hsi.1_Missense_Mutation_p.L36I	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	36					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		ACAGGGCTGAGGCTGGGGGTC	0.682													6	16					8.12818e-05	8.28919e-05	1	1	0		T	126236457	T	T	126236457	3	4	190	1	0	0	0	0	1	0	0	0	17054	1000	35	5	2188	5	UROC1	3	126236457	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1779387	126236457	71785973	284	94437											
PLXNA1	5361	broad.mit.edu	37	chr3	126733584	126733584	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagatcggggacgccagctcCgtgcgtgcccatgacgccct	6	6	14	15	5	0	2	0	1	0	1	2	4	1	3	4	2	3	1	4	2	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:126733584C>A	uc003ejg.2	+	13	2722	c.2718C>A	c.(2716-2718)TCC>TCA	p.S906S		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	929	IPT/TIG 1.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		ACGCCAGCTCCGTGCGTGCCC	0.577													5	15					0.217242	0.217534	1	1	0		A	126733584	A	A	126733584	2	1	190	1	0	0	0	0	0	0	0	1	12138	639	23	5		5	PLXNA1	3	126733584	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	497127	126733584	71288846	285	94438											
EEFSEC	60678	broad.mit.edu	37	chr3	128060188	128060188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaccctaagctgctggagcGcgggttggtgtgtgcccccg	4	9	16	12	3	0	1	0	1	0	0	0	2	0	2	3	3	4	3	3	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:128060188G>A	uc003eki.2	+	5	937	c.899G>A	c.(898-900)CGC>CAC	p.R300H	EEFSEC_uc003ekj.2_Missense_Mutation_p.R245H	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	300						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						CTGCTGGAGCGCGGGTTGGTG	0.597													34	26					0	0	1	0	0		A	128060188	A	A	128060188	3	1	190	1	0	0	0	0	1	0	0	0	4937	1087	38	1	917	1	EEFSEC	3	128060188	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1326604	128060188	69962242	286	94439											
RAB7A	7879	broad.mit.edu	37	chr3	128516847	128516848	+	Frame_Shift_Ins	INS	-	CC	CC																															attcagcaatcagtacaaagINSccacaataggagctgacttt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:128516847_128516848insCC	uc003eks.1	+	3	347_348	c.115_116insCC	c.(115-117)GCCfs	p.A39fs	RAB7A_uc010hsv.1_Frame_Shift_Ins_p.A39fs|RAB7A_uc003ekt.2_Frame_Shift_Ins_p.A15fs	NM_004637	NP_004628	P51149	RAB7A_HUMAN	RAB7, member RAS oncogene family	39	Effector region (By similarity).				endocytosis|endosome to lysosome transport|epidermal growth factor catabolic process|protein transport|small GTPase mediated signal transduction	Golgi apparatus|late endosome|lysosome|melanosome|phagocytic vesicle	GDP binding|GTP binding|GTPase activity|protein binding				0				GBM - Glioblastoma multiforme(114;0.231)		TCAGTACAAAGCCACAATAGGA	0.441													35	55	---	---	---	---						.	CC	128516848	CC	CC	128516847	7	5	190	1	0	1	1	0	0	0	0	0	12979	971	34	0	121	0	RAB7A	3	128516847	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	456659	128516847	69505583	287	94440											
ASTE1	28990	broad.mit.edu	37	chr3	130743433	130743433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtagctccaagaggaagacGcgctttacttaagaatgtct	12	10	11	8	2	1	3	0	0	1	3	2	4	2	4	1	2	2	3	1	2	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:130743433G>A	uc003env.1	-	3	1160	c.718C>T	c.(718-720)CGT>TGT	p.R240C	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Missense_Mutation_p.R240C|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	240					DNA repair		nuclease activity				0						AGAGGAAGACGCGCTTTACTT	0.453													32	49					0	0	1	0	0		A	130743433	A	A	130743433	3	1	190	1	0	0	0	0	1	0	0	0	1063	1087	38	1	1337	1	ASTE1	3	130743433	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2226586	130743433	67278997	288	94441											
NEK11	79858	broad.mit.edu	37	chr3	130881343	130881343	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcggctgaggaagctccagGcggctgatgagaaagccagg	10	5	17	9	2	0	3	0	3	0	1	1	5	1	4	2	5	3	3	2	5	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:130881343G>T	uc003eny.2	+	11	1380	c.1054G>T	c.(1054-1056)GCG>TCG	p.A352S	NEK11_uc003enx.2_Missense_Mutation_p.A352S|NEK11_uc003eoa.2_Missense_Mutation_p.A352S|NEK11_uc003enz.2_Missense_Mutation_p.A170S|NEK11_uc010htn.2_RNA|NEK11_uc011blk.1_Missense_Mutation_p.A204S|NEK11_uc011bll.1_Missense_Mutation_p.A247S|NEK11_uc011blm.1_Missense_Mutation_p.A352S	NM_024800	NP_079076	Q8NG66	NEK11_HUMAN	NIMA-related kinase 11 isoform 1	352	Potential.				cell cycle|intra-S DNA damage checkpoint|intracellular protein kinase cascade	nucleolus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(4)|stomach(1)|central_nervous_system(1)	6						GAAGCTCCAGGCGGCTGATGA	0.488													54	69					2.81731e-22	3.04359e-22	1	1	0		T	130881343	T	T	130881343	3	4	190	1	0	0	0	0	1	0	0	0	10342	1203	42	5	1088	5	NEK11	3	130881343	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	137910	130881343	67141087	289	94442											
NPHP3	27031	broad.mit.edu	37	chr3	132424628	132424630	+	In_Frame_Del	DEL	CTT	-	-																															aatataagttttatatactcCttctgcaggatctcctgagt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:132424628_132424630delCTT	uc003epe.1	-	8	1381_1383	c.1304_1306delAAG	c.(1303-1308)GAAGGA>GGA	p.E435del	NPHP3_uc003epf.1_In_Frame_Del_p.E190del	NM_153240	NP_694972	Q7Z494	NPHP3_HUMAN	nephrocystin 3	435					maintenance of organ identity|negative regulation of canonical Wnt receptor signaling pathway|photoreceptor cell maintenance|regulation of Wnt receptor signaling pathway, planar cell polarity pathway|Wnt receptor signaling pathway	cilium	protein binding			ovary(1)	1						TTATATACTCCTTCTGCAGGATC	0.271													27	41	---	---	---	---						.	-	132424630	-	-	132424628	7	5	190	1	0	1	0	1	0	0	0	0	10599	690	24	0	2766	0	NPHP3	3	132424628	In_Frame_Del	DEL	CTT	TCGA-F1-6177-01A-11D-1800-08	1543285	132424628	65597802	290	94443											
NCK1	4690	broad.mit.edu	37	chr3	136664467	136664467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctagtgtgccagattctgCatctcctgctgatgatagtt	8	14	9	10	0	2	3	0	2	2	1	3	3	2	3	3	0	3	3	3	0	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:136664467C>T	uc003erh.2	+	3	376	c.269C>T	c.(268-270)GCA>GTA	p.A90V	NCK1_uc011bme.1_Missense_Mutation_p.A26V	NM_006153	NP_006144	P16333	NCK1_HUMAN	NCK adaptor protein 1	90					axon guidance|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of translation|signal complex assembly|T cell activation|T cell receptor signaling pathway	cytosol|endoplasmic reticulum|nucleus	cytoskeletal adaptor activity|receptor binding|receptor signaling complex scaffold activity			pancreas(1)	1						CCAGATTCTGCATCTCCTGCT	0.398													6	77					0	0	1	0	0		T	136664467	T	T	136664467	3	4	190	1	0	0	0	0	1	0	0	0	10238	710	25	2	275	2	NCK1	3	136664467	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4239839	136664467	61357963	291	94444											
SPSB4	92369	broad.mit.edu	37	chr3	140785469	140785469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgaggcctttgcgctgcccGactcgctgctcgtggtgctg	3	10	14	14	5	0	0	0	0	0	0	2	2	0	0	2	2	4	4	2	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:140785469G>A	uc003ett.2	+	2	777	c.523G>A	c.(523-525)GAC>AAC	p.D175N	SPSB4_uc010hum.2_Missense_Mutation_p.D175N	NM_080862	NP_543138	Q96A44	SPSB4_HUMAN	splA/ryanodine receptor domain and SOCS box	175	B30.2/SPRY.				intracellular signal transduction	cytoplasm	protein binding				0						TGCGCTGCCCGACTCGCTGCT	0.667													5	13					0	0	1	0	0		A	140785469	A	A	140785469	3	1	190	1	0	0	0	0	1	0	0	0	15140	1058	37	1	525	1	SPSB4	3	140785469	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4121002	140785469	57236961	292	94445											
XRN1	54464	broad.mit.edu	37	chr3	142151518	142151518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttacctaaaacgcctcccaCgctgctggttcatttttgct	7	15	6	13	2	1	0	1	0	0	0	2	0	2	0	3	1	4	4	3	1	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:142151518C>T	uc003eus.2	-	2	360	c.293G>A	c.(292-294)CGT>CAT	p.R98H	XRN1_uc003eut.2_Missense_Mutation_p.R98H|XRN1_uc003euu.2_Missense_Mutation_p.R98H|XRN1_uc003euw.2_Missense_Mutation_p.R98H|XRN1_uc011bnh.1_Translation_Start_Site	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	98					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						ACGCCTCCCACGCTGCTGGTT	0.338													10	17					0	0	1	0	0		T	142151518	T	T	142151518	3	4	190	1	0	0	0	0	1	0	0	0	17485	536	19	1	4991	1	XRN1	3	142151518	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1366049	142151518	55870912	293	94446											
PLSCR1	5359	broad.mit.edu	37	chr3	146233845	146233845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatccactaccacactcctGatttttgttcctggctgcca	8	14	5	14	0	0	1	0	1	0	0	3	1	3	1	5	1	2	2	5	1	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:146233845G>A	uc003evx.3	-	9	1332	c.944C>T	c.(943-945)TCA>TTA	p.S315L	PLSCR1_uc003evy.3_Missense_Mutation_p.S308L|PLSCR1_uc011bnn.1_Missense_Mutation_p.S234L|PLSCR1_uc003evz.3_RNA	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1	315	Extracellular.				phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						CCACACTCCTGATTTTTGTTC	0.338													29	30					0	0	1	0	0		A	146233845	A	A	146233845	3	1	190	1	0	0	0	0	1	0	0	0	12128	1294	45	4	16	4	PLSCR1	3	146233845	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4082327	146233845	51788585	294	94447											
ZIC1	7545	broad.mit.edu	37	chr3	147128311	147128311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacggccacacggacgccGcgggccacctcctcttcccc	6	4	9	22	5	1	0	0	0	1	0	3	1	3	1	7	3	0	0	7	3	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:147128311G>A	uc003ewe.2	+	1	1131	c.412G>A	c.(412-414)GCG>ACG	p.A138T		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	138					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CACGGACGCCGCGGGCCACCT	0.721													4	5					0	0	1	0	0		A	147128311	A	A	147128311	3	1	190	1	0	0	0	0	1	0	0	0	17703	1087	38	1	414	1	ZIC1	3	147128311	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	894466	147128311	50894119	295	94448											
AADAC	13	broad.mit.edu	37	chr3	151545391	151545391	+	Missense_Mutation	SNP	A	G	G	1	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	atgacccagatgtcaagatcAaactcaagatccagtcttta	15	10	6	10	0	4	4	3	1	1	3	5	4	5	4	2	0	1	0	2	0	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:151545391A>G	uc003eze.2	+	5	721	c.631A>G	c.(631-633)AAA>GAA	p.K211E		NM_001086	NP_001077	P22760	AAAD_HUMAN	arylacetamide deacetylase	211	Lumenal (Potential).				positive regulation of triglyceride catabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	carboxylesterase activity|deacetylase activity|serine hydrolase activity|triglyceride lipase activity			skin(2)	2		Myeloproliferative disorder(1037;0.0255)|all_neural(597;0.112)	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TGTCAAGATCAAACTCAAGAT	0.313													27	43					0	0	1	0	0		G	151545391	G	G	151545391	3	3	190	1	0	0	0	0	1	0	0	0	10	131	5	3	649	3	AADAC	3	151545391	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	4417080	151545391	46477039	296	94449											
C3orf33	285315	broad.mit.edu	37	chr3	155481462	155481463	+	Frame_Shift_Ins	INS	-	A	A																															aatctgatcctgttgtttttINSaaaaaactgtcctttttcca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:155481462_155481463insA	uc003fal.1	-	6	869_870	c.599_600insT	c.(598-600)TTAfs	p.L200fs	C3orf33_uc003fam.1_Frame_Shift_Ins_p.L243fs	NM_173657	NP_775928	Q96NB5	Q96NB5_HUMAN	hypothetical protein LOC285315	200							hydrolase activity, acting on ester bonds|nucleic acid binding				0			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			CTGTTGTTTTTAAAAAACTGTC	0.302													16	28	---	---	---	---						.	A	155481463	A	A	155481462	7	5	190	1	0	1	1	0	0	0	0	0	2226	1751	61	0	159	0	C3orf33	3	155481462	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	3936071	155481462	42540968	297	94450											
GFM1	85476	broad.mit.edu	37	chr3	158383230	158383230	+	Silent	SNP	A	G	G	1	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	aaagagacagttatatctggAatgggagaattacacctgga	16	9	11	5	0	1	2	0	0	1	2	1	6	1	4	1	3	1	1	1	3	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:158383230A>G	uc003fce.2	+	12	1592	c.1485A>G	c.(1483-1485)GGA>GGG	p.G495G	GFM1_uc003fcd.2_Silent_p.G495G|GFM1_uc003fcf.2_RNA|GFM1_uc003fcg.2_Silent_p.G426G	NM_024996	NP_079272	Q96RP9	EFGM_HUMAN	G elongation factor, mitochondrial 1 precursor	495					mitochondrial translational elongation	mitochondrion	GTP binding|GTPase activity|translation elongation factor activity			ovary(3)|central_nervous_system(1)	4			Lung(72;0.00309)|LUSC - Lung squamous cell carcinoma(72;0.0043)			TTATATCTGGAATGGGAGAAT	0.313													4	62					0	0	1	0	0		G	158383230	G	G	158383230	2	3	190	1	0	0	0	0	0	0	0	1	6356	233	9	3		3	GFM1	3	158383230	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2901768	158383230	39639200	298	94451											
MFSD1	64747	broad.mit.edu	37	chr3	158541915	158541915	+	Missense_Mutation	SNP	T	C	C	0	1	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	atatttcttccattgtagcaTgcagtccattcagaatcttg	10	16	6	9	0	3	1	1	0	2	1	5	1	5	1	2	0	2	3	2	0	3	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:158541915T>C	uc003fcl.1	+	13	1208	c.1178T>C	c.(1177-1179)ATG>ACG	p.M393T	MFSD1_uc003fcm.1_RNA|MFSD1_uc003fcn.1_Missense_Mutation_p.M296T|MFSD1_uc011bow.1_Missense_Mutation_p.M354T|MFSD1_uc011box.1_Missense_Mutation_p.M320T	NM_022736	NP_073573	Q9H3U5	MFSD1_HUMAN	major facilitator superfamily domain containing	393	Helical; (Potential).				transmembrane transport	integral to membrane					0			Lung(72;0.00372)|LUSC - Lung squamous cell carcinoma(72;0.00523)			CATTGTAGCATGCAGTCCATT	0.368													25	308					0	0	1	0	0		C	158541915	C	C	158541915	3	2	190	1	0	0	0	0	1	0	0	0	9545	1464	51	3	1375	3	MFSD1	3	158541915	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	158685	158541915	39480515	299	94452											
WDR49	151790	broad.mit.edu	37	chr3	167248986	167248986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgtcaatctcaaagttgCggactcccgtggtagaatgg	10	10	12	9	2	2	1	2	0	1	1	4	2	3	2	1	3	1	2	1	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:167248986C>T	uc003fev.1	-	9	1385	c.1079G>A	c.(1078-1080)CGC>CAC	p.R360H	WDR49_uc003feu.1_Missense_Mutation_p.R185H|WDR49_uc011bpd.1_Missense_Mutation_p.R424H|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	360										large_intestine(1)|ovary(1)|skin(1)	3						CTCAAAGTTGCGGACTCCCGT	0.443													32	42					0	0	1	0	0		T	167248986	T	T	167248986	3	4	190	1	0	0	0	0	1	0	0	0	17328	768	27	1	1042	1	WDR49	3	167248986	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	8707071	167248986	30773444	300	94453											
WDR49	151790	broad.mit.edu	37	chr3	167277927	167277927	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatagtgctgatttctgcGttgccgtggcaaccagtaaa	9	11	11	10	2	1	1	0	1	1	0	1	1	1	1	3	1	4	4	3	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:167277927G>A	uc003fev.1	-	5	882	c.576C>T	c.(574-576)AAC>AAT	p.N192N	WDR49_uc003feu.1_Silent_p.N17N|WDR49_uc011bpd.1_Silent_p.N245N|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	192	WD 4.									large_intestine(1)|ovary(1)|skin(1)	3						TGATTTCTGCGTTGCCGTGGC	0.453													43	70					0	0	1	0	0		A	167277927	A	A	167277927	2	1	190	1	0	0	0	0	0	0	0	1	17328	1136	40	1		1	WDR49	3	167277927	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	28941	167277927	30744503	301	94454											
MECOM	2122	broad.mit.edu	37	chr3	168833604	168833605	+	Frame_Shift_Ins	INS	-	T	T																															gggtaaggtaaagctccaacINSttttttgtcttgcagcccca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:168833604_168833605insT	uc003ffi.3	-	7	1760_1761	c.1491_1492insA	c.(1489-1494)AAAGTTfs	p.K497fs	MECOM_uc010hwk.1_Frame_Shift_Ins_p.K520fs|MECOM_uc003ffj.3_Frame_Shift_Ins_p.K562fs|MECOM_uc011bpi.1_Frame_Shift_Ins_p.K498fs|MECOM_uc003ffn.3_Frame_Shift_Ins_p.K497fs|MECOM_uc003ffk.2_Frame_Shift_Ins_p.K497fs|MECOM_uc003ffl.2_Frame_Shift_Ins_p.K657fs|MECOM_uc011bpj.1_Frame_Shift_Ins_p.K685fs|MECOM_uc011bpk.1_Frame_Shift_Ins_p.K487fs|MECOM_uc010hwn.2_Frame_Shift_Ins_p.K685fs	NM_005241	NP_005232	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform b	497_498					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						AAAGCTCCAACTTTTTTGTCTT	0.431													51	24	---	---	---	---						.	T	168833605	T	T	168833604	7	5	190	1	0	1	1	0	0	0	0	0	9440	565	20	0	1703	0	MECOM	3	168833604	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	1555677	168833604	29188826	302	94455											
EIF5A2	56648	broad.mit.edu	37	chr3	170624844	170624844	+	Frame_Shift_Del	DEL	T	-	-																															gaaggacaaatatcttcataTtttttgcccgtgaaaatatc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:170624844delT	uc003fhd.2	-	3	334	c.204delA	c.(202-204)AAAfs	p.K68fs		NM_020390	NP_065123	Q9GZV4	IF5A2_HUMAN	eIF-5A2 protein	68					mRNA transport|peptidyl-lysine modification to hypusine|polyamine homeostasis|positive regulation of cell proliferation|positive regulation of translational elongation|positive regulation of translational termination|post-translational protein modification|protein transport|spermatogenesis|translational frameshifting|transmembrane transport	cytosol|endoplasmic reticulum membrane|nuclear pore	protein binding|ribosome binding|translation elongation factor activity				0	all_cancers(22;1.61e-19)|all_lung(20;1.59e-15)|Lung NSC(18;7.08e-15)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;9.8e-16)|Lung(28;4.28e-15)			TATCTTCATATTTTTTGCCCG	0.343													27	55	---	---	---	---						.	-	170624844	-	-	170624844	7	5	190	1	0	1	0	1	0	0	0	0	5050	1490	52	0	269	0	EIF5A2	3	170624844	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	1791240	170624844	27397586	303	94456											
PLD1	5337	broad.mit.edu	37	chr3	171427481	171427481	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagcatgtctatagctgttGcattttaaaataagtgtcct	11	15	8	7	1	1	0	0	0	1	0	2	1	2	0	1	0	3	4	1	0	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:171427481G>A	uc003fhs.2	-	10	1046	c.930C>T	c.(928-930)TGC>TGT	p.C310C	PLD1_uc003fht.2_Silent_p.C310C	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	310	PH.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	TATAGCTGTTGCATTTTAAAA	0.373													37	57					0	0	1	0	0		A	171427481	A	A	171427481	2	1	190	1	0	0	0	0	0	0	0	1	12064	1311	46	2		2	PLD1	3	171427481	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	802637	171427481	26594949	304	94457											
SPATA16	83893	broad.mit.edu	37	chr3	172835263	172835263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agttggcttttcttcaccttCtgccttccgtttaaaggctg	5	17	8	11	1	3	0	1	0	2	0	4	0	4	0	3	2	1	4	3	2	2	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:172835263C>T	uc003fin.3	-	2	417	c.259G>A	c.(259-261)GAA>AAA	p.E87K		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	87					cell differentiation|multicellular organismal development|spermatogenesis	Golgi apparatus	binding			ovary(2)|skin(1)	3	Ovarian(172;0.00319)|Breast(254;0.197)		LUSC - Lung squamous cell carcinoma(14;1.48e-14)|Lung(28;6.63e-14)			TCTTCACCTTCTGCCTTCCGT	0.378													84	121					0	0	1	0	0		T	172835263	T	T	172835263	3	4	190	1	0	0	0	0	1	0	0	0	15026	922	32	4	1490	4	SPATA16	3	172835263	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1407782	172835263	25187167	305	94458											
PIK3CA	5290	broad.mit.edu	37	chr3	178916891	178916891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagacgactttgtgaccttcGgctttttcaaccctttttaa	9	16	6	10	2	1	2	1	1	0	1	2	3	1	2	2	1	1	1	2	1	3	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:178916891G>A	uc003fjk.2	+	2	435	c.278G>A	c.(277-279)CGG>CAG	p.R93Q		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	93	PI3K-ABD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R93W(5)|p.R93Q(3)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGTGACCTTCGGCTTTTTCAA	0.343		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			50	63					0	0	1	0	0		A	178916891	A	A	178916891	3	1	190	1	0	0	0	0	1	0	0	0	11932	1116	39	1	280	1	PIK3CA	3	178916891	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6081628	178916891	19105539	306	94459											
PIK3CA	5290	broad.mit.edu	37	chr3	178936096	178936096	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctctgaaatcactgagcaGgagaaagattttctatggag	13	11	10	7	0	3	4	1	2	2	2	4	6	3	5	0	2	1	1	0	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:178936096G>T	uc003fjk.2	+	10	1795	c.1638G>T	c.(1636-1638)CAG>CAT	p.Q546H		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	546	PI3K helical.		Q -> K (in cancer).|Q -> P (in cancer).|Q -> E (in cancer).|Q -> R (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.Q546K(54)|p.Q546R(17)|p.Q546P(10)|p.Q546E(9)|p.Q546L(6)|p.Q546H(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCACTGAGCAGGAGAAAGATT	0.358		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			28	31					4.87955e-14	5.17046e-14	1	1	0		T	178936096	T	T	178936096	3	4	190	1	0	0	0	0	1	0	0	0	11932	991	35	5	1672	5	PIK3CA	3	178936096	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	19205	178936096	19086334	307	94460											
PSMD2	5708	broad.mit.edu	37	chr3	184020259	184020259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccctgaagctctgagattggCattgatgctcaatgacatgg	10	11	11	9	0	2	4	1	4	1	1	2	5	2	4	1	2	2	3	1	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:184020259C>T	uc003fnn.1	+	6	839	c.806C>T	c.(805-807)GCA>GTA	p.A269V	PSMD2_uc011brj.1_Missense_Mutation_p.A110V|PSMD2_uc011brk.1_Missense_Mutation_p.A139V	NM_002808	NP_002799	Q13200	PSMD2_HUMAN	proteasome 26S non-ATPase subunit 2	269					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	enzyme regulator activity|protein binding				0	all_cancers(143;1.54e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Bortezomib(DB00188)	CTGAGATTGGCATTGATGCTC	0.488													23	27					0	0	1	0	0		T	184020259	T	T	184020259	3	4	190	1	0	0	0	0	1	0	0	0	12720	710	25	2	828	2	PSMD2	3	184020259	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5084163	184020259	14002171	308	94461											
EPHB3	2049	broad.mit.edu	37	chr3	184298851	184298851	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgctggactgctgggtgcGggaccggaacctcaggccca	7	6	15	13	2	1	0	1	0	0	0	1	3	1	3	3	5	4	2	3	5	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:184298851G>A	uc003foz.2	+	14	3067	c.2630G>A	c.(2629-2631)CGG>CAG	p.R877Q		NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor	877	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(5)|breast(2)|upper_aerodigestive_tract(1)|stomach(1)|skin(1)|ovary(1)	11	all_cancers(143;1.89e-10)|Ovarian(172;0.0339)		Epithelial(37;1.27e-34)|OV - Ovarian serous cystadenocarcinoma(80;3.8e-22)			TGCTGGGTGCGGGACCGGAAC	0.597													43	38					0	0	1	0	0		A	184298851	A	A	184298851	3	1	190	1	0	0	0	0	1	0	0	0	5184	1116	39	1	2684	1	EPHB3	3	184298851	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	278592	184298851	13723579	309	94462											
DNAJB11	51726	broad.mit.edu	37	chr3	186302256	186302256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagatcaccaggccaggagCgaagctatggaagaaagggg	15	4	15	7	1	1	2	1	0	0	2	1	5	1	4	2	5	2	1	2	5	5	2	rs139219315		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:186302256C>T	uc003fqi.2	+	9	1110	c.890C>T	c.(889-891)GCG>GTG	p.A297V		NM_016306	NP_057390	Q9UBS4	DJB11_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 11	297					protein folding	endoplasmic reticulum lumen	heat shock protein binding			ovary(1)|lung(1)	2	all_cancers(143;2.84e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.44e-20)	GBM - Glioblastoma multiforme(93;0.0476)		AGGCCAGGAGCGAAGCTATGG	0.448													18	29					0	0	1	0	0		T	186302256	T	T	186302256	3	4	190	1	0	0	0	0	1	0	0	0	4622	768	27	1	924	1	DNAJB11	3	186302256	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2003405	186302256	11720174	310	94463											
PAK2	5062	broad.mit.edu	37	chr3	196554152	196554152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcgggatttcttaaatcGatgtttggaaatggatgtgg	10	16	12	3	2	1	0	0	0	1	0	3	4	1	3	0	4	0	1	0	4	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:196554152G>A	uc003fwy.3	+	14	1758	c.1436G>A	c.(1435-1437)CGA>CAA	p.R479Q		NM_002577	NP_002568	Q13177	PAK2_HUMAN	p21-activated kinase 2	479	Protein kinase.				axon guidance|cellular component disassembly involved in apoptosis|interspecies interaction between organisms|negative regulation of protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of apoptosis|regulation of defense response to virus by virus|regulation of growth|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytosol|nucleus|perinuclear region of cytoplasm|plasma membrane	ATP binding|identical protein binding|protein kinase binding|protein serine/threonine kinase activity|protein tyrosine kinase activator activity			ovary(1)|lung(1)	2	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)		TTCTTAAATCGATGTTTGGAA	0.348													55	55					0	0	1	0	0		A	196554152	A	A	196554152	3	1	190	1	0	0	0	0	1	0	0	0	11420	1058	37	1	1486	1	PAK2	3	196554152	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10251896	196554152	1468278	311	94464											
DLG1	1739	broad.mit.edu	37	chr3	196846372	196846372	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccaagaaggaagatgggcTaacatggttatcaacaggct	14	7	12	8	0	1	2	1	0	0	2	1	3	1	3	1	4	2	3	1	4	6	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:196846372T>C	uc003fxo.3	-	13	1484	c.1294A>G	c.(1294-1296)AGC>GGC	p.S432G	DLG1_uc011bub.1_Missense_Mutation_p.S316G|DLG1_uc011buc.1_Missense_Mutation_p.S316G|DLG1_uc011bud.1_Missense_Mutation_p.S115G|DLG1_uc003fxn.3_Missense_Mutation_p.S432G|DLG1_uc011bue.1_Missense_Mutation_p.S399G|DLG1_uc010ial.2_Missense_Mutation_p.S432G|DLG1_uc011buf.1_Intron|DLG1_uc003fxp.2_RNA|DLG1_uc010iam.1_Missense_Mutation_p.S399G|DLG1_uc010ian.2_Missense_Mutation_p.S299G	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	432					actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		GAAGATGGGCTAACATGGTTA	0.403													32	48					0	0	1	0	0		C	196846372	C	C	196846372	3	2	190	1	0	0	0	0	1	0	0	0	4560	1522	53	3	1580	3	DLG1	3	196846372	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	292220	196846372	1176058	312	94465											
KIAA0226	9711	broad.mit.edu	37	chr3	197427748	197427748	+	Frame_Shift_Del	DEL	G	-	-																															acagctggcagtccggcctcGggggtccaagttgccaatgg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr3:197427748delG	uc003fyc.2	-	7	1180	c.997delC	c.(997-999)CGAfs	p.R333fs	KIAA0226_uc003fyd.3_Frame_Shift_Del_p.R273fs|KIAA0226_uc003fye.1_Frame_Shift_Del_p.R40fs|KIAA0226_uc003fyf.2_Frame_Shift_Del_p.R166fs|KIAA0226_uc003fyg.2_Frame_Shift_Del_p.R326fs	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	333	Ser-rich.				autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GTCCGGCCTCGGGGGTCCAAG	0.597													24	45	---	---	---	---						.	-	197427748	-	-	197427748	7	5	190	1	0	1	0	1	0	0	0	0	8178	1124	39	0	2026	0	KIAA0226	3	197427748	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	581376	197427748	594682	313	94466											
PDE6B	5158	broad.mit.edu	37	chr4	660390	660390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cttcatcgacttcgtgtgcaCattcgtgtacaaggcgagtg	8	12	11	10	4	1	0	1	0	0	0	4	2	1	0	0	1	2	2	0	1	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:660390C>T	uc003gap.2	+	20	2392	c.2339C>T	c.(2338-2340)ACA>ATA	p.T780I	PDE6B_uc003gao.3_Missense_Mutation_p.T780I|PDE6B_uc011buy.1_Missense_Mutation_p.T501I|PDE6B_uc011buz.1_Missense_Mutation_p.T212I	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	780					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						TTCGTGTGCACATTCGTGTAC	0.637													21	38					0	0	1	0	0		T	660390	T	T	660390	3	4	190	1	0	0	0	0	1	0	0	0	11665	478	17	4	2417	4	PDE6B	4	660390	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		660390	190493886	314	94467											
MFSD7	84179	broad.mit.edu	37	chr4	679630	679630	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgacccctcaccattaaCggaatgtcctcacccttctt	9	12	4	16	1	4	1	3	1	1	0	5	2	5	2	5	1	1	0	5	1	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:679630C>T	uc003gay.2	-	4	636	c.579G>A	c.(577-579)CCG>CCA	p.P193P	MFSD7_uc003gaw.2_5'Flank|MFSD7_uc003gax.2_Silent_p.P193P|MFSD7_uc003gaz.2_Intron|MFSD7_uc003gba.2_Intron|MFSD7_uc003gbb.1_Silent_p.P129P	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	193	Helical; (Potential).				transmembrane transport	integral to membrane					0						TCACCATTAACGGAATGTCCT	0.587													21	37					0	0	1	0	0		T	679630	T	T	679630	2	4	190	1	0	0	0	0	0	0	0	1	9555	523	19	1		1	MFSD7	4	679630	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	19240	679630	190474646	315	94468											
TMEM175	84286	broad.mit.edu	37	chr4	951745	951745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgggactgctgtggttcGcccaccactcactcttcctg	5	11	10	15	1	2	0	1	0	1	0	4	1	3	1	3	2	1	2	3	2	0	2	rs143946130		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:951745G>A	uc003gbq.2	+	11	1074	c.976G>A	c.(976-978)GCC>ACC	p.A326T	TMEM175_uc003gbr.2_Missense_Mutation_p.A244T|TMEM175_uc003gbu.2_Missense_Mutation_p.A244T|TMEM175_uc003gbs.2_Missense_Mutation_p.A209T|TMEM175_uc003gbt.2_Missense_Mutation_p.A209T|TMEM175_uc003gbv.2_Missense_Mutation_p.A209T|TMEM175_uc010ibm.2_Missense_Mutation_p.A142T	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	326	Helical; (Potential).					integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCTGTGGTTCGCCCACCACTC	0.677													22	39					0	0	1	0	0		A	951745	A	A	951745	3	1	190	1	0	0	0	0	1	0	0	0	16116	1087	38	1	1014	1	TMEM175	4	951745	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	272115	951745	190202531	316	94469											
HAUS3	79441	broad.mit.edu	37	chr4	2242634	2242634	+	Frame_Shift_Del	DEL	T	-	-																															atcagctttgggataaccaaTtttttttaatgtttccacaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:2242634delT	uc003ges.1	-	2	270	c.40delA	c.(40-42)ATTfs	p.I14fs	POLN_uc011bvi.1_Intron|HAUS3_uc011bvj.1_Frame_Shift_Del_p.I14fs|HAUS3_uc003get.1_Frame_Shift_Del_p.I14fs	NM_024511	NP_078787	Q68CZ6	HAUS3_HUMAN	HAUS augmin-like complex, subunit 3	14					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				large_intestine(2)|breast(2)	4						GGATAACCAATTTTTTTTAAT	0.353													31	63	---	---	---	---						.	-	2242634	-	-	2242634	7	5	190	1	0	1	0	1	0	0	0	0	6983	1493	52	0	1787	0	HAUS3	4	2242634	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	1290889	2242634	188911642	317	94470											
RNF4	6047	broad.mit.edu	37	chr4	2515435	2515435	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatcgtttccacagaatgCggccatgtcttctgtagcca	8	12	8	13	2	3	1	1	0	2	1	5	1	4	1	3	1	2	2	3	1	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:2515435C>T	uc003gfb.2	+	8	798	c.462C>T	c.(460-462)TGC>TGT	p.C154C	RNF4_uc010icj.2_Missense_Mutation_p.A101V|RNF4_uc003gfc.2_Silent_p.C154C	NM_002938	NP_002929	P78317	RNF4_HUMAN	ring finger protein 4	154	RING-type.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|protein K63-linked ubiquitination|regulation of kinetochore assembly|regulation of spindle assembly|response to arsenic-containing substance	cytoplasm|PML body	androgen receptor binding|DNA binding|nucleosome binding|sequence-specific DNA binding transcription factor activity|SUMO polymer binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding				0		all_epithelial(65;0.241)				CCACAGAATGCGGCCATGTCT	0.507													38	53					0	0	1	0	0		T	2515435	T	T	2515435	2	4	190	1	0	0	0	0	0	0	0	1	13517	777	27	1		1	RNF4	4	2515435	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	272801	2515435	188638841	318	94471											
FAM193A	8603	broad.mit.edu	37	chr4	2661728	2661728	+	Silent	SNP	A	G	G	1	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	ggctccagctctcccatcacAattcagcagcaccccaggct	9	7	7	18	0	3	0	2	0	1	0	5	0	4	0	4	2	3	5	4	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:2661728A>G	uc010icl.2	+	8	1170	c.819A>G	c.(817-819)ACA>ACG	p.T273T	FAM193A_uc010ick.2_Silent_p.T473T|FAM193A_uc003gfd.2_Silent_p.T273T|FAM193A_uc011bvm.1_Silent_p.T297T|FAM193A_uc011bvn.1_Silent_p.T273T|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Silent_p.T127T	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	273										ovary(3)	3						CTCCCATCACAATTCAGCAGC	0.532													27	38					0	0	1	0	0		G	2661728	G	G	2661728	2	3	190	1	0	0	0	0	0	0	0	1	5535	117	5	3		3	FAM193A	4	2661728	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	146293	2661728	188492548	319	94472											
EVC	2121	broad.mit.edu	37	chr4	5800369	5800369	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggaagcacagcagacacgGctgcagctccagcagcggct	11	3	14	13	2	0	1	0	0	0	1	1	3	1	2	1	3	6	7	1	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:5800369G>T	uc003gil.1	+	15	2338	c.2154G>T	c.(2152-2154)CGG>CGT	p.R718R	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	718					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				AGCAGACACGGCTGCAGCTCC	0.677													3	3					0.150653	0.15116	1	1	0		T	5800369	T	T	5800369	2	4	190	1	0	0	0	0	0	0	0	1	5293	1190	42	5		5	EVC	4	5800369	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3138641	5800369	185353907	320	94473											
TBC1D14	57533	broad.mit.edu	37	chr4	6925428	6925428	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcgggccttccagagcgcCtgcgcgctgccatcctgtgc	4	7	14	16	4	0	1	0	0	0	1	2	2	2	1	5	1	5	1	5	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:6925428C>A	uc011bwg.1	+	2	391	c.312C>A	c.(310-312)GCC>GCA	p.A104A	TBC1D14_uc003gjs.3_Silent_p.A104A	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	104						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						TCCAGAGCGCCTGCGCGCTGC	0.662													51	65					8.94452e-30	9.73336e-30	1	1	0		A	6925428	A	A	6925428	2	1	190	1	0	0	0	0	0	0	0	1	15628	668	24	5		5	TBC1D14	4	6925428	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1125059	6925428	184228848	321	94474											
TADA2B	93624	broad.mit.edu	37	chr4	7056590	7056590	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcagatcgcgagaaggtgCtctgcagctctttaaacttg	9	12	11	9	2	3	2	1	0	2	2	4	3	3	2	0	1	4	3	0	1	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:7056590C>A	uc003gjw.3	+	2	1223	c.1072C>A	c.(1072-1074)CTC>ATC	p.L358I	TADA2B_uc010idi.2_Missense_Mutation_p.L283I	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	358					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						CGAGAAGGTGCTCTGCAGCTC	0.537													33	55					3.90053e-15	4.14483e-15	1	1	0		A	7056590	A	A	7056590	3	1	190	1	0	0	0	0	1	0	0	0	15536	797	28	5	1078	5	TADA2B	4	7056590	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	131162	7056590	184097686	322	94475											
AFAP1	60312	broad.mit.edu	37	chr4	7802200	7802200	+	Missense_Mutation	SNP	A	G	G	1	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	caacctcctggccgttgcgcAgcagccggaacgtcagagga	9	5	13	14	4	1	1	1	0	0	1	2	3	2	3	4	3	5	3	4	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:7802200A>G	uc003gkg.1	-	10	1508	c.1235T>C	c.(1234-1236)CTG>CCG	p.L412P	AFAP1_uc011bwk.1_Missense_Mutation_p.L412P	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	412	PH 2.					actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						GCCGTTGCGCAGCAGCCGGAA	0.552													15	20					0	0	1	0	0		G	7802200	G	G	7802200	3	3	190	1	0	0	0	0	1	0	0	0	353	188	7	3	1245	3	AFAP1	4	7802200	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	745610	7802200	183352076	323	94476											
ZNF518B	85460	broad.mit.edu	37	chr4	10446552	10446553	+	Frame_Shift_Ins	INS	-	T	T																															ttctatgtggatacaaattaINSttttttttctgaaaatcctc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:10446552_10446553insT	uc003gmn.2	-	3	1887_1888	c.1400_1401insA	c.(1399-1401)AATfs	p.N467fs		NM_053042	NP_444270	Q9C0D4	Z518B_HUMAN	zinc finger protein 518B	467					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4						GATACAAATTATTTTTTTTCTG	0.337													28	60	---	---	---	---						.	T	10446553	T	T	10446552	7	5	190	1	0	1	1	0	0	0	0	0	17988	446	16	0	1827	0	ZNF518B	4	10446552	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	2644352	10446552	180707724	324	94477											
FBXL5	26234	broad.mit.edu	37	chr4	15607351	15607351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcagaagtcaagggtcattCgccagagcggcagcaggctc	11	6	13	11	2	3	2	3	0	0	2	5	2	3	2	1	3	2	3	1	3	2	1	rs143196332		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:15607351C>T	uc003goc.1	-	11	2174	c.2071G>A	c.(2071-2073)GAA>AAA	p.E691K	FBXL5_uc010idw.1_Missense_Mutation_p.E604K|FBXL5_uc003gob.1_Missense_Mutation_p.E565K|FBXL5_uc010idx.1_Missense_Mutation_p.E690K|FBXL5_uc003god.1_Missense_Mutation_p.E674K	NM_012161	NP_036293	Q9UKA1	FBXL5_HUMAN	F-box and leucine-rich repeat protein 5 isoform	691					iron ion homeostasis|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|SCF ubiquitin ligase complex	iron ion binding|protein binding|ubiquitin-protein ligase activity				0						AAGGGTCATTCGCCAGAGCGG	0.448													15	15					0	0	1	0	0		T	15607351	T	T	15607351	3	4	190	1	0	0	0	0	1	0	0	0	5736	893	31	1	8	1	FBXL5	4	15607351	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5160799	15607351	175546925	325	94478											
ARAP2	116984	broad.mit.edu	37	chr4	36109211	36109211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgtttaattgtgtcagCggttaagaatctcttcacca	10	14	9	8	1	3	1	2	0	1	1	4	1	3	1	1	1	1	3	1	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:36109211C>T	uc003gsq.1	-	27	4599	c.4261G>A	c.(4261-4263)GCT>ACT	p.A1421T		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1421					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ATTGTGTCAGCGGTTAAGAAT	0.423													41	69					0	0	1	0	0		T	36109211	T	T	36109211	3	4	190	1	0	0	0	0	1	0	0	0	839	768	27	1	881	1	ARAP2	4	36109211	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	20501860	36109211	155045065	326	94479											
WDR19	57728	broad.mit.edu	37	chr4	39274601	39274601	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatatgtcatttgtttcagaTtcatgttaaaaatggagatc	14	16	7	4	0	3	2	3	0	0	2	4	3	3	2	0	1	0	2	0	1	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:39274601T>A	uc003gtv.2	+	32	3639	c.3485T>A	c.(3484-3486)ATT>AAT	p.I1162N	WDR19_uc011byi.1_Missense_Mutation_p.I1002N|WDR19_uc003gtw.1_Missense_Mutation_p.I759N	NM_025132	NP_079408	Q8NEZ3	WDR19_HUMAN	WD repeat domain 19	1162					cell projection organization	microtubule basal body|motile cilium|photoreceptor connecting cilium	binding			large_intestine(1)	1						TTGTTTCAGATTCATGTTAAA	0.418													3	10					0	0	1	0	0		A	39274601	A	A	39274601	3	1	190	1	0	0	0	0	1	0	0	0	17305	1507	52	5	3611	5	WDR19	4	39274601	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3165390	39274601	151879675	327	94480											
N4BP2	55728	broad.mit.edu	37	chr4	40121855	40121855	+	Frame_Shift_Del	DEL	A	-	-																															caaatagaaatggtggctgtAaaagggtatagtaaaactga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:40121855delA	uc003guy.3	+	9	2462	c.2124delA	c.(2122-2124)GTAfs	p.V708fs	N4BP2_uc010ifq.2_Frame_Shift_Del_p.V628fs|N4BP2_uc010ifr.2_Frame_Shift_Del_p.V628fs	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	708						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						TGGTGGCTGTAAAAGGGTATA	0.363													55	82	---	---	---	---						.	-	40121855	-	-	40121855	7	5	190	1	0	1	0	1	0	0	0	0	10128	349	13	0	2150	0	N4BP2	4	40121855	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	847254	40121855	151032421	328	94481											
PHOX2B	8929	broad.mit.edu	37	chr4	41748145	41748145	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgccgcctccattcgccccGcagctgggggtggggttggg	2	7	17	15	4	0	0	0	0	0	0	2	0	1	0	6	5	1	3	6	5	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:41748145G>T	uc003gwf.3	-	3	984	c.624C>A	c.(622-624)TGC>TGA	p.C208*		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	208					positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						CATTCGCCCCGCAGCTGGGGG	0.418			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				15	32					1.49906e-05	1.53504e-05	1	1	0		T	41748145	T	T	41748145	4	4	190	1	0	0	0	0	0	1	0	0	11878	1079	38	5	324	5	PHOX2B	4	41748145	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1626290	41748145	149406131	329	94482											
TMEM33	55161	broad.mit.edu	37	chr4	41956148	41956148	+	Silent	SNP	C	T	T	0	0	0	1	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	taatgaaacctgcttgcccaCtgtttgtgagaagactttgt	10	14	9	8	0	0	3	0	2	0	2	0	4	0	3	2	0	3	2	2	0	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:41956148C>T	uc003gwi.2	+	7	1041	c.676C>T	c.(676-678)CTG>TTG	p.L226L	TMEM33_uc010ifw.2_RNA	NM_018126	NP_060596	P57088	TMM33_HUMAN	transmembrane protein 33	226						integral to membrane|melanosome	protein binding			ovary(1)	1						TGCTTGCCCACTGTTTGTGAG	0.358													57	77					0	0	1	0	0		T	41956148	T	T	41956148	2	4	190	1	0	0	0	0	0	0	0	1	16181	564	20	4		4	TMEM33	4	41956148	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	208003	41956148	149198128	330	94483											
CORIN	10699	broad.mit.edu	37	chr4	47605501	47605501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgggcaagcagacaggccGgacgtagccagtctcactga	10	6	14	11	2	1	2	1	1	1	1	2	3	1	3	2	3	2	4	2	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:47605501G>A	uc003gxm.2	-	20	2818	c.2725C>T	c.(2725-2727)CGG>TGG	p.R909W	CORIN_uc011bzf.1_Missense_Mutation_p.R770W|CORIN_uc011bzg.1_Missense_Mutation_p.R842W	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	909	Extracellular (Potential).|Peptidase S1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CAGACAGGCCGGACGTAGCCA	0.542													20	38					0	0	1	0	0		A	47605501	A	A	47605501	3	1	190	1	0	0	0	0	1	0	0	0	3755	1115	39	1	415	1	CORIN	4	47605501	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5649353	47605501	143548775	331	94484											
OCIAD2	132299	broad.mit.edu	37	chr4	48894819	48894819	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggaccaaaaccagccccaCggagctgatcttcaaaaaaa	16	5	8	12	1	2	1	1	1	1	0	2	3	2	3	4	2	3	1	4	2	5	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:48894819C>T	uc003gyt.2	-	6	556	c.353G>A	c.(352-354)CGT>CAT	p.R118H	OCIAD2_uc003gyu.2_Intron	NM_001014446	NP_001014446	Q56VL3	OCAD2_HUMAN	OCIA domain containing 2 isoform 1	118	OCIA.					endosome					0						ACCAGCCCCACGGAGCTGATC	0.383													97	138					0	0	1	0	0		T	48894819	T	T	48894819	3	4	190	1	0	0	0	0	1	0	0	0	10837	536	19	1	119	1	OCIAD2	4	48894819	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1289318	48894819	142259457	332	94485											
LRRC66	339977	broad.mit.edu	37	chr4	52861027	52861027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttcagtcttgctccttgCactctctgaacttatggagc	6	15	7	13	0	4	1	1	1	3	0	6	2	5	2	1	1	4	2	1	1	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:52861027C>T	uc003gzi.2	-	4	2174	c.2161G>A	c.(2161-2163)GCA>ACA	p.A721T		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	721						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TTGCTCCTTGCACTCTCTGAA	0.527													40	64					0	0	1	0	0		T	52861027	T	T	52861027	3	4	190	1	0	0	0	0	1	0	0	0	9036	710	25	2	485	2	LRRC66	4	52861027	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3966208	52861027	138293249	333	94486											
LRRC66	339977	broad.mit.edu	37	chr4	52862277	52862277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagatgaatgggaggaaggCgggtttccctggaaatcctg	10	8	16	7	1	0	2	0	1	0	1	2	5	2	5	2	5	0	2	2	5	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:52862277C>T	uc003gzi.2	-	4	924	c.911G>A	c.(910-912)CGC>CAC	p.R304H		NM_001024611	NP_001019782	Q68CR7	LRC66_HUMAN	leucine rich repeat containing 66	304						integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						GGGAGGAAGGCGGGTTTCCCT	0.527													20	40					0	0	1	0	0		T	52862277	T	T	52862277	3	4	190	1	0	0	0	0	1	0	0	0	9036	768	27	1	1735	1	LRRC66	4	52862277	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1250	52862277	138291999	334	94487											
FIP1L1	81608	broad.mit.edu	37	chr4	54319243	54319243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggacagagaaagagaacGcaccagagagagagagaggg	17	1	17	6	2	0	5	0	0	0	5	1	11	0	6	1	2	1	1	1	2	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:54319243G>A	uc003gzy.2	+	16	1628	c.1442G>A	c.(1441-1443)CGC>CAC	p.R481H	PDGFRA_uc003haa.2_Intron|FIP1L1_uc011bzu.1_Missense_Mutation_p.R475H|FIP1L1_uc003gzz.2_Missense_Mutation_p.R407H|FIP1L1_uc003hab.2_Missense_Mutation_p.R446H|FIP1L1_uc003hac.2_Missense_Mutation_p.R235H|FIP1L1_uc010ign.2_RNA|FIP1L1_uc003had.2_Missense_Mutation_p.A66T|FIP1L1_uc003hae.2_Missense_Mutation_p.A66T	NM_030917	NP_112179	Q6UN15	FIP1_HUMAN	FIP1 like 1 isoform 1	481	Arg-rich.|Sufficient for interaction with CPSF1 and CSTF3.|Glu-rich.				mRNA processing	nucleus	RNA binding			ovary(1)|skin(1)	2			GBM - Glioblastoma multiforme(3;3.31e-36)|LUSC - Lung squamous cell carcinoma(32;0.0134)			gaaagagaACGCACCAGAGAG	0.294			T	PDGFRA	idiopathic hypereosinophilic syndrome								18	34					0	0	1	0	0		A	54319243	A	A	54319243	3	1	190	1	0	0	0	0	1	0	0	0	5910	1087	38	1	1535	1	FIP1L1	4	54319243	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1456966	54319243	136835033	335	94488											
CENPC1	1060	broad.mit.edu	37	chr4	68372572	68372572	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctgttggtatattacatGtatatccactggtctgaggc	9	15	9	8	0	2	1	0	1	2	0	3	1	3	1	1	3	1	3	1	3	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:68372572G>T	uc003hdd.1	-	11	2168	c.1985C>A	c.(1984-1986)ACA>AAA	p.T662K	CENPC1_uc010ihj.1_RNA|CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.T662K	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	662					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						TATATTACATGTATATCCACT	0.343													11	19					0.000978159	0.00099144	1	1	0		T	68372572	T	T	68372572	3	4	190	1	0	0	0	0	1	0	0	0	3232	1377	48	5	882	5	CENPC1	4	68372572	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	14053329	68372572	122781704	336	94489											
CENPC1	1060	broad.mit.edu	37	chr4	68406764	68406764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctctgtgttaatgtcacGtgccctaataaaggaaaaat	13	13	8	7	1	2	0	1	0	1	0	2	1	2	1	1	1	2	2	1	1	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:68406764G>A	uc003hdd.1	-	3	253	c.70C>T	c.(70-72)CGT>TGT	p.R24C	CENPC1_uc010ihk.1_RNA|CENPC1_uc010ihm.1_Missense_Mutation_p.R24C	NM_001812	NP_001803	Q03188	CENPC_HUMAN	centromere protein C 1	24					mitotic prometaphase	condensed chromosome kinetochore|condensed nuclear chromosome, centromeric region|cytosol	DNA binding			urinary_tract(1)|lung(1)	2						TTAATGTCACGTGCCCTAATA	0.313													7	8					0	0	1	0	0		A	68406764	A	A	68406764	3	1	190	1	0	0	0	0	1	0	0	0	3232	1145	40	1	2829	1	CENPC1	4	68406764	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	34192	68406764	122747512	337	94490											
TMPRSS11A	339967	broad.mit.edu	37	chr4	68788633	68788633	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgtttaatggaacaactcGtttaccacaacctgaaaaaa	17	9	6	9	2	0	1	0	1	0	0	1	3	0	2	2	1	4	2	2	1	8	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:68788633G>A	uc003hdr.1	-	7	662	c.541C>T	c.(541-543)CGA>TGA	p.R181*	LOC550112_uc003hdl.3_Intron|TMPRSS11A_uc003hds.1_Nonsense_Mutation_p.R178*	NM_182606	NP_872412	Q6ZMR5	TM11A_HUMAN	transmembrane protease, serine 11A isoform 1	181	Extracellular (Potential).				cell cycle|proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			skin(1)	1						GGAACAACTCGTTTACCACAA	0.294													23	34					0	0	1	0	0		A	68788633	A	A	68788633	4	1	190	1	0	0	0	0	0	1	0	0	16264	1153	40	1	740	1	TMPRSS11A	4	68788633	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	381869	68788633	122365643	338	94491											
UGT2B4	7363	broad.mit.edu	37	chr4	70360942	70360942	+	Frame_Shift_Del	DEL	T	-	-																															aataaagcacatagatcataTtttttaccctctctatgaaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:70360942delT	uc003hek.3	-	1	685	c.638delA	c.(637-639)AATfs	p.N213fs	UGT2B4_uc011cap.1_Frame_Shift_Del_p.N77fs|UGT2B4_uc003hel.3_Frame_Shift_Del_p.N213fs	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	213					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						ATAGATCATATTTTTTACCCT	0.353													22	36	---	---	---	---						.	-	70360942	-	-	70360942	7	5	190	1	0	1	0	1	0	0	0	0	16987	1493	52	0	972	0	UGT2B4	4	70360942	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	1572309	70360942	120793334	339	94492											
CSN1S1	1446	broad.mit.edu	37	chr4	70810695	70810695	+	Frame_Shift_Del	DEL	A	-	-																															cactgctcatgaaaattatgAaaaaaataacgtcatgctac																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:70810695delA	uc003hep.1	+	15	579	c.530delA	c.(529-531)GAAfs	p.E177fs	CSN1S1_uc003heq.1_Frame_Shift_Del_p.E168fs|CSN1S1_uc003her.1_Frame_Shift_Del_p.E169fs	NM_001890	NP_001881	P47710	CASA1_HUMAN	casein alpha s1 isoform 1	177						extracellular region	protein binding|transporter activity				0						GAAAATTATGAAAAAAATAAC	0.393													58	64	---	---	---	---						.	-	70810695	-	-	70810695	7	5	190	1	0	1	0	1	0	0	0	0	3950	246	9	0	584	0	CSN1S1	4	70810695	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	449753	70810695	120343581	340	94493											
C4orf26	152816	broad.mit.edu	37	chr4	76489373	76489373	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gattcacaaaataatgcggaCgctaccgactgccagatctt	13	9	8	11	3	2	1	1	0	1	1	2	4	2	2	2	1	3	1	2	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:76489373C>T	uc003hip.1	+	2	152	c.117C>T	c.(115-117)GAC>GAT	p.D39D	C4orf26_uc011cbn.1_RNA|C4orf26_uc011cbo.1_Missense_Mutation_p.T54M	NM_178497	NP_848592	Q17RF5	CD026_HUMAN	hypothetical protein LOC152816 precursor	39						extracellular region					0			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			ATAATGCGGACGCTACCGACT	0.542													34	50					0	0	1	0	0		T	76489373	T	T	76489373	2	4	190	1	0	0	0	0	0	0	0	1	2260	535	19	1		1	C4orf26	4	76489373	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5678678	76489373	114664903	341	94494											
FRAS1	80144	broad.mit.edu	37	chr4	79420976	79420976	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtgatccgcagaggggatCagaacaggacctccaaggtt	12	6	14	9	1	1	3	1	1	0	2	3	5	3	5	3	5	1	2	3	5	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:79420976C>T	uc003hlb.2	+	61	9657	c.9217C>T	c.(9217-9219)CAG>TAG	p.Q3073*	FRAS1_uc003hlc.1_Nonsense_Mutation_p.Q75*	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3068	Calx-beta 5.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						CAGAGGGGATCAGAACAGGAC	0.562													55	70					0	0	1	0	0		T	79420976	T	T	79420976	4	4	190	1	0	0	0	0	0	1	0	0	6056	827	29	4	9534	4	FRAS1	4	79420976	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2931603	79420976	111733300	342	94495											
BMP3	651	broad.mit.edu	37	chr4	81967532	81967532	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gaggtgtgggaggagagaaaGccttacaagacccttcaggc	12	6	15	8	0	1	2	1	0	0	2	1	6	1	4	2	4	2	0	2	4	3	2	rs61729827	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:81967532G>T	uc003hmg.3	+	2	1277	c.957G>T	c.(955-957)AAG>AAT	p.K319N		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	319					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						AGGAGAGAAAGCCTTACAAGA	0.502													23	32					1.90627e-21	2.05491e-21	1	1	0		T	81967532	T	T	81967532	3	4	190	1	0	0	0	0	1	0	0	0	1462	962	34	5	963	5	BMP3	4	81967532	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2546556	81967532	109186744	343	94496											
PRKG2	5593	broad.mit.edu	37	chr4	82031710	82031710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctacatattctggagtcccaCagaatgtccatgttttctgt	9	15	7	10	0	2	1	0	0	2	1	4	2	4	2	2	1	1	1	2	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:82031710C>T	uc003hmh.2	-	14	1846	c.1832G>A	c.(1831-1833)TGT>TAT	p.C611Y	PRKG2_uc011ccf.1_Missense_Mutation_p.C191Y|PRKG2_uc011ccg.1_Missense_Mutation_p.C191Y|PRKG2_uc011cch.1_Missense_Mutation_p.C582Y	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	611	Protein kinase.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TGGAGTCCCACAGAATGTCCA	0.413													17	44					0	0	1	0	0		T	82031710	T	T	82031710	3	4	190	1	0	0	0	0	1	0	0	0	12545	478	17	4	476	4	PRKG2	4	82031710	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	64178	82031710	109122566	344	94497											
LIN54	132660	broad.mit.edu	37	chr4	83891596	83891596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggtctttgatggagttcCgggagtagactgtgaaagaa	11	12	14	4	1	1	4	0	2	1	2	2	6	2	6	1	3	0	2	1	3	4	4	rs149250571		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:83891596C>T	uc003hnx.3	-	4	1213	c.835G>A	c.(835-837)GGA>AGA	p.G279R	LIN54_uc003hnz.3_Missense_Mutation_p.G58R|LIN54_uc003hny.3_5'UTR|LIN54_uc010ijt.2_Intron|LIN54_uc010iju.2_5'UTR|LIN54_uc010ijv.2_Missense_Mutation_p.G58R	NM_194282	NP_919258	Q6MZP7	LIN54_HUMAN	lin-54 homolog isoform a	279					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)				GATGGAGTTCCGGGAGTAGAC	0.358													62	71					0	0	1	0	0		T	83891596	T	T	83891596	3	4	190	1	0	0	0	0	1	0	0	0	8826	661	23	1	1454	1	LIN54	4	83891596	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1859886	83891596	107262680	345	94498											
LIN54	132660	broad.mit.edu	37	chr4	83905318	83905318	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttttttcttttacctgtActgtttttaactgttgggtc	4	22	6	9	0	1	0	0	0	1	0	2	0	1	0	2	1	3	3	2	1	3	10			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:83905318A>G	uc003hnx.3	-	2	1058	c.680T>C	c.(679-681)GTA>GCA	p.V227A	LIN54_uc003hnz.3_Intron|LIN54_uc003hny.3_Intron|LIN54_uc010ijt.2_Missense_Mutation_p.V227A|LIN54_uc010iju.2_5'UTR|LIN54_uc010ijv.2_Intron	NM_194282	NP_919258	Q6MZP7	LIN54_HUMAN	lin-54 homolog isoform a	227					cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Hepatocellular(203;0.114)				TTTTACCTGTACTGTTTTTAA	0.353													31	50					0	0	1	0	0		G	83905318	G	G	83905318	3	3	190	1	0	0	0	0	1	0	0	0	8826	391	14	3	1617	3	LIN54	4	83905318	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	13722	83905318	107248958	346	94499											
HPSE	10855	broad.mit.edu	37	chr4	84222192	84222192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaaaaggatagggtaaccGcaagtacttggtgacattat	16	9	11	5	1	0	2	0	1	0	1	0	3	0	3	1	3	2	3	1	3	7	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:84222192G>A	uc003hoj.3	-	11	1492	c.1393C>T	c.(1393-1395)CGG>TGG	p.R465W	HPSE_uc010ika.2_Missense_Mutation_p.R407W|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Missense_Mutation_p.R208W|HPSE_uc011cct.1_Missense_Mutation_p.R391W|HPSE_uc003hok.3_Missense_Mutation_p.R465W	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	465					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	TAGGGTAACCGCAAGTACTTG	0.353													34	58					0	0	1	0	0		A	84222192	A	A	84222192	3	1	190	1	0	0	0	0	1	0	0	0	7360	1086	38	1	246	1	HPSE	4	84222192	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	316874	84222192	106932084	347	94500											
HSD17B11	51170	broad.mit.edu	37	chr4	88258505	88258505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttaaaactgccaggaaacGctcaggaaggatcctaaaag	16	8	9	8	1	1	0	1	0	0	0	2	3	2	3	2	3	3	1	2	3	6	3	rs148948833	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:88258505G>A	uc003hqp.2	-	7	1059	c.826C>T	c.(826-828)CGT>TGT	p.R276C		NM_016245	NP_057329	Q8NBQ5	DHB11_HUMAN	estradiol 17-beta-dehydrogenase 11	276					androgen catabolic process|steroid biosynthetic process	cytoplasm|extracellular region	binding|estradiol 17-beta-dehydrogenase activity			ovary(2)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000339)		GCCAGGAAACGCTCAGGAAGG	0.294													47	63					0	0	1	0	0		A	88258505	A	A	88258505	3	1	190	1	0	0	0	0	1	0	0	0	7396	1087	38	1	80	1	HSD17B11	4	88258505	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4036313	88258505	102895771	348	94501											
HERC6	55008	broad.mit.edu	37	chr4	89326069	89326069	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccgggaaaaccctgccagaAataagccgaattagccagtc	14	5	9	13	2	0	1	0	0	0	1	1	3	0	2	5	1	4	0	5	1	6	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:89326069A>C	uc011cdi.1	+	9	1317	c.1134A>C	c.(1132-1134)GAA>GAC	p.E378D	HERC6_uc011cdj.1_Missense_Mutation_p.E378D|HERC6_uc011cdk.1_Intron|HERC6_uc011cdl.1_Intron	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	378					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		CCCTGCCAGAAATAAGCCGAA	0.423													26	37					0	0	1	0	0		C	89326069	C	C	89326069	3	2	190	1	0	0	0	0	1	0	0	0	7078	11	1	5	965	5	HERC6	4	89326069	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1067564	89326069	101828207	349	94502											
BMPR1B	658	broad.mit.edu	37	chr4	96069948	96069948	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactcgagttggcaccaaaCgctatatgcctccagaagtg	12	8	9	12	2	0	1	0	0	0	1	2	2	1	1	3	1	2	3	3	1	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:96069948C>T	uc003htm.3	+	11	1400	c.1126C>T	c.(1126-1128)CGC>TGC	p.R376C	BMPR1B_uc010ilb.2_Missense_Mutation_p.R376C|BMPR1B_uc003htn.3_Missense_Mutation_p.R376C	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	376	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		TGGCACCAAACGCTATATGCC	0.418													42	70					0	0	1	0	0		T	96069948	T	T	96069948	3	4	190	1	0	0	0	0	1	0	0	0	1471	536	19	1	1156	1	BMPR1B	4	96069948	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6743879	96069948	95084328	350	94503											
UNC5C	8633	broad.mit.edu	37	chr4	96469892	96469892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggacccccttaccttgggcGgcggagccagtgccgctggc	4	6	15	16	4	0	0	0	0	0	0	0	2	0	2	5	5	3	1	5	5	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:96469892G>A	uc003htp.1	-	1	271	c.117C>T	c.(115-117)GCC>GCT	p.A39A	UNC5C_uc010ilc.1_Silent_p.A39A|UNC5C_uc003htq.2_Silent_p.A39A	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	39					apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TACCTTGGGCGGCGGAGCCAG	0.527													19	13					0	0	1	0	0		A	96469892	A	A	96469892	2	1	190	1	0	0	0	0	0	0	0	1	17019	1103	39	1		1	UNC5C	4	96469892	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	399944	96469892	94684384	351	94504											
SLC39A8	64116	broad.mit.edu	37	chr4	103189153	103189153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtggagggcatcgcagagCgttatcatccaggcaatcgt	9	10	13	9	3	1	1	1	0	0	1	4	2	2	2	1	3	1	4	1	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:103189153C>T	uc003hwb.1	-	6	1453	c.924G>A	c.(922-924)ACG>ACA	p.T308T	SLC39A8_uc011ceo.1_Silent_p.T308T|SLC39A8_uc003hwa.1_Silent_p.T241T|SLC39A8_uc003hwc.2_Silent_p.T308T	NM_022154	NP_071437	Q9C0K1	S39A8_HUMAN	solute carrier family 39 (zinc transporter),	308	Helical; (Potential).					integral to membrane|organelle membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(203;0.217)		all cancers(1;9.78e-10)|OV - Ovarian serous cystadenocarcinoma(123;1.52e-09)|GBM - Glioblastoma multiforme(1;0.000142)		CATCGCAGAGCGTTATCATCC	0.478													41	58					0	0	1	0	0		T	103189153	T	T	103189153	2	4	190	1	0	0	0	0	0	0	0	1	14649	755	27	1		1	SLC39A8	4	103189153	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6719261	103189153	87965123	352	94505											
CFI	3426	broad.mit.edu	37	chr4	110667424	110667424	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atgcatgtatcattaggttgGaataggtaaggagaccaggg	13	10	14	4	0	1	1	1	0	0	1	1	3	1	2	1	5	1	4	1	5	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:110667424G>A	uc003hzr.3	-	11	1591	c.1383C>T	c.(1381-1383)TTC>TTT	p.F461F	CFI_uc003hzq.2_Silent_p.F258F|CFI_uc011cft.1_Silent_p.F469F|CFI_uc003hzs.3_Silent_p.F454F	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	461	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		CATTAGGTTGGAATAGGTAAG	0.413													32	43					0	0	1	0	0		A	110667424	A	A	110667424	2	1	190	1	0	0	0	0	0	0	0	1	3292	1165	41	4		4	CFI	4	110667424	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7478271	110667424	80486852	353	94506											
EGF	1950	broad.mit.edu	37	chr4	110882030	110882030	+	Silent	SNP	T	C	C	0	1	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	tgtcattgtgcagatgttaaTgaatgtgctttttggaatca	10	17	10	4	0	2	2	2	1	0	1	2	3	2	3	0	1	2	3	0	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:110882030T>C	uc003hzy.3	+	7	1526	c.1074T>C	c.(1072-1074)AAT>AAC	p.N358N	EGF_uc011cfu.1_Silent_p.N316N|EGF_uc011cfv.1_Silent_p.N358N	NM_001963	NP_001954	P01133	EGF_HUMAN	epidermal growth factor precursor	358	EGF-like 2; calcium-binding (Potential).|Extracellular (Potential).				angiogenesis|DNA replication|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of secretion|platelet activation|platelet degranulation|positive regulation of catenin import into nucleus|positive regulation of epidermal growth factor receptor activity|positive regulation of MAP kinase activity|positive regulation of mitosis|regulation of calcium ion import|regulation of protein localization at cell surface	integral to membrane|plasma membrane|platelet alpha granule lumen	calcium ion binding|epidermal growth factor receptor binding|growth factor activity|transmembrane receptor protein tyrosine kinase activator activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Hepatocellular(203;0.0893)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-06)	Sulindac(DB00605)	CAGATGTTAATGAATGTGCTT	0.398													28	35					0	0	1	0	0		C	110882030	C	C	110882030	2	2	190	1	0	0	0	0	0	0	0	1	4968	1461	51	3		3	EGF	4	110882030	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	214606	110882030	80272246	354	94507											
ALPK1	80216	broad.mit.edu	37	chr4	113351824	113351824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctccatggggagacagggaCggtccatgcagcaagtcagc	10	5	15	11	1	1	1	1	0	0	1	3	3	3	2	2	4	3	3	2	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:113351824C>T	uc003iap.3	+	11	1400	c.1121C>T	c.(1120-1122)ACG>ATG	p.T374M	ALPK1_uc003ian.3_Missense_Mutation_p.T374M|ALPK1_uc011cfx.1_Missense_Mutation_p.T296M|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Missense_Mutation_p.T202M	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	374							ATP binding|protein serine/threonine kinase activity			ovary(5)	5		Ovarian(17;0.0446)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00325)		GAGACAGGGACGGTCCATGCA	0.507													34	42					0	0	1	0	0		T	113351824	T	T	113351824	3	4	190	1	0	0	0	0	1	0	0	0	544	536	19	1	1155	1	ALPK1	4	113351824	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2469794	113351824	77802452	355	94508											
LARP7	51574	broad.mit.edu	37	chr4	113567544	113567545	+	Frame_Shift_Ins	INS	-	A	A																															ttgtgtcttttaacaaaatgINSaaaaaattgactactgatgg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:113567544_113567545insA	uc003iay.2	+	3	518_519	c.240_241insA	c.(238-243)ATGAAAfs	p.M80fs	LARP7_uc003iaz.2_Frame_Shift_Ins_p.M87fs|LARP7_uc003iba.2_Frame_Shift_Ins_p.M1fs|LARP7_uc003ibb.2_Frame_Shift_Ins_p.M80fs	NM_016648	NP_057732	Q4G0J3	LARP7_HUMAN	La ribonucleoprotein domain family, member 7	80_81	HTH La-type RNA-binding.				RNA processing	nucleoplasm|ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(3)	3		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		TTAACAAAATGAAAAAATTGAC	0.287													26	47	---	---	---	---						.	A	113567545	A	A	113567544	7	5	190	1	0	1	1	0	0	0	0	0	8649	1290	45	0	246	0	LARP7	4	113567544	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	215720	113567544	77586732	356	94509											
ANK2	287	broad.mit.edu	37	chr4	114199668	114199668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttatgacaaccagaaggtggCgctgctgttactggagaagg	11	9	14	7	1	0	3	0	1	0	2	0	4	0	3	1	4	3	3	1	4	5	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:114199668C>T	uc003ibe.3	+	17	1935	c.1835C>T	c.(1834-1836)GCG>GTG	p.A612V	ANK2_uc003ibd.3_Missense_Mutation_p.A591V|ANK2_uc003ibf.3_Missense_Mutation_p.A612V|ANK2_uc003ibc.2_Missense_Mutation_p.A588V|ANK2_uc011cgb.1_Missense_Mutation_p.A627V	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	612	ANK 18.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CAGAAGGTGGCGCTGCTGTTA	0.478											OREG0016024	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	41					0	0	1	0	0		T	114199668	T	T	114199668	3	4	190	1	0	0	0	0	1	0	0	0	621	768	27	1	1926	1	ANK2	4	114199668	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	632124	114199668	76954608	357	94510											
ADAD1	132612	broad.mit.edu	37	chr4	123342458	123342458	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatggcaagtcggctttgTaaggctgcaatgttaagtcg	10	12	12	7	2	1	0	1	0	0	0	3	0	1	0	0	3	1	6	0	3	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:123342458T>C	uc003ieo.2	+	12	1762	c.1530T>C	c.(1528-1530)TGT>TGC	p.C510C	ADAD1_uc003iep.2_Silent_p.C499C|ADAD1_uc003ieq.2_Silent_p.C492C	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	510	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						GTCGGCTTTGTAAGGCTGCAA	0.343													21	36					0	0	1	0	0		C	123342458	C	C	123342458	2	2	190	1	0	0	0	0	0	0	0	1	231	1644	57	3		3	ADAD1	4	123342458	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	9142790	123342458	67811818	358	94511											
BBS12	166379	broad.mit.edu	37	chr4	123663986	123663986	+	Silent	SNP	A	G	G	1	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	ccatttatgtttgacatttcAagaattttcacttgctgtct	9	19	5	8	0	3	2	2	1	1	1	3	2	3	2	1	0	1	2	1	0	3	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:123663986A>G	uc003ieu.2	+	2	1132	c.939A>G	c.(937-939)TCA>TCG	p.S313S		NM_152618	NP_689831	Q6ZW61	BBS12_HUMAN	Bardet-Biedl syndrome 12	313					cellular protein metabolic process	cilium	ATP binding			ovary(2)	2						TTGACATTTCAAGAATTTTCA	0.383									Bardet-Biedl_syndrome				19	29					0	0	1	0	0		G	123663986	G	G	123663986	2	3	190	1	0	0	0	0	0	0	0	1	1338	117	5	3		3	BBS12	4	123663986	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	321528	123663986	67490290	359	94512											
PCDH10	57575	broad.mit.edu	37	chr4	134071394	134071394	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcaggaacatggcactttCgtggggaatatcgctgaaga	12	8	14	7	2	0	2	0	1	0	1	2	5	0	4	0	4	2	3	0	4	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:134071394C>T	uc003iha.2	+	1	925	c.99C>T	c.(97-99)TTC>TTT	p.F33F	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.F33F	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	33	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		ATGGCACTTTCGTGGGGAATA	0.498													49	59					0	0	1	0	0		T	134071394	T	T	134071394	2	4	190	1	0	0	0	0	0	0	0	1	11526	883	31	1		1	PCDH10	4	134071394	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	10407408	134071394	57082882	360	94513											
PCDH10	57575	broad.mit.edu	37	chr4	134073108	134073108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctcacccgcgtggccGccgtggacgcggacgacggc	5	4	15	17	8	1	0	1	0	0	0	1	3	1	2	4	4	1	1	4	4	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:134073108G>A	uc003iha.2	+	1	2639	c.1813G>A	c.(1813-1815)GCC>ACC	p.A605T	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.A605T	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	605	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CCGCGTGGCCGCCGTGGACGC	0.692													17	26					0	0	1	0	0		A	134073108	A	A	134073108	3	1	190	1	0	0	0	0	1	0	0	0	11526	1087	38	1	1815	1	PCDH10	4	134073108	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1714	134073108	57081168	361	94514											
USP38	84640	broad.mit.edu	37	chr4	144107096	144107096	+	Missense_Mutation	SNP	A	G	G	1	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	tccccaaggggaaattgtccAtcacgttctgtcaacagctg	10	10	9	12	1	3	0	2	0	1	0	5	1	5	1	3	2	2	2	3	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:144107096A>G	uc003ijb.2	+	1	1027	c.493A>G	c.(493-495)ATC>GTC	p.I165V	USP38_uc003ija.3_Missense_Mutation_p.I165V|USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	165					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					GAAATTGTCCATCACGTTCTG	0.552													49	67					0	0	1	0	0		G	144107096	G	G	144107096	3	3	190	1	0	0	0	0	1	0	0	0	17095	217	8	3	495	3	USP38	4	144107096	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	10033988	144107096	47047180	362	94515											
USP38	84640	broad.mit.edu	37	chr4	144141531	144141531	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaatggatttgatgacaaCgacccaccaggaagctgtgg	12	7	11	11	1	0	2	0	2	0	0	0	5	0	4	3	3	2	1	3	3	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:144141531C>T	uc003ijb.2	+	10	3585	c.3051C>T	c.(3049-3051)AAC>AAT	p.N1017N	USP38_uc003ijc.2_RNA	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	ubiquitin specific peptidase 38	1017					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|pancreas(1)	5	all_hematologic(180;0.158)					TTGATGACAACGACCCACCAG	0.478													22	43					0	0	1	0	0		T	144141531	T	T	144141531	2	4	190	1	0	0	0	0	0	0	0	1	17095	535	19	1		1	USP38	4	144141531	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	34435	144141531	47012745	363	94516											
SMARCA5	8467	broad.mit.edu	37	chr4	144467126	144467126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcacaggcacaaaaagaaGaacagcttaaaattgatgaa	21	5	8	7	0	0	4	0	2	0	2	0	4	0	4	0	1	3	3	0	1	7	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:144467126G>A	uc003ijg.2	+	19	2908	c.2446G>A	c.(2446-2448)GAA>AAA	p.E816K		NM_003601	NP_003592	O60264	SMCA5_HUMAN	SWI/SNF-related matrix-associated	816					CenH3-containing nucleosome assembly at centromere|nucleosome positioning|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	condensed chromosome|nucleolus|nucleoplasm|NURF complex|RSF complex	ATP binding|ATPase activity|DNA binding|helicase activity|nucleosome binding|protein binding			skin(1)	1	all_hematologic(180;0.158)					ACAAAAAGAAGAACAGCTTAA	0.358													17	138					0	0	1	0	0		A	144467126	A	A	144467126	3	1	190	1	0	0	0	0	1	0	0	0	14796	943	33	4	2520	4	SMARCA5	4	144467126	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	325595	144467126	46687150	364	94517											
HHIP	64399	broad.mit.edu	37	chr4	145567864	145567864	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctttaagctgctgctgctgGccgtggctctgggcttcttt	2	15	12	12	1	2	0	0	0	2	0	2	0	2	0	2	3	4	6	2	3	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:145567864G>C	uc003ijs.1	+	1	692	c.37G>C	c.(37-39)GCC>CCC	p.A13P	uc003ijq.1_5'Flank|HHIP_uc003ijr.1_Missense_Mutation_p.A13P	NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	13						cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		GCTGCTGCTGGCCGTGGCTCT	0.612											OREG0016346	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	58					0	0	1	0	0		C	145567864	C	C	145567864	3	2	190	1	0	0	0	0	1	0	0	0	7108	1203	42	5	39	5	HHIP	4	145567864	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1100738	145567864	45586412	365	94518											
DCLK2	166614	broad.mit.edu	37	chr4	151119187	151119187	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaagtcatcttattctcgatCctcagctgttaagtattctg	9	16	7	9	1	5	0	2	0	3	0	7	2	6	0	1	0	1	3	1	0	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:151119187C>A	uc003ilm.3	+	4	993	c.893C>A	c.(892-894)TCC>TAC	p.S298Y	DCLK2_uc003iln.3_Missense_Mutation_p.S298Y|DCLK2_uc003ilo.3_Missense_Mutation_p.S298Y|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	298	Ser-rich.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					TATTCTCGATCCTCAGCTGTT	0.408													17	37					2.4624e-09	2.57628e-09	1	1	0		A	151119187	A	A	151119187	3	1	190	1	0	0	0	0	1	0	0	0	4295	855	30	5	907	5	DCLK2	4	151119187	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5551323	151119187	40035089	366	94519											
LRBA	987	broad.mit.edu	37	chr4	151770151	151770151	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaatattttccagttcatgCtgtaaagaataaagtttgac	14	15	6	6	0	2	2	2	1	0	1	3	2	3	2	1	0	1	4	1	0	7	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:151770151C>T	uc010ipj.2	-	26	4633	c.4159_splice	c.e26-1	p.H1387_splice	LRBA_uc003ilt.3_Splice_Site_p.H46_splice|LRBA_uc003ilu.3_Splice_Site_p.H1387_splice	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and							endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CCAGTTCATGCTGTAAAGAAT	0.299													45	61					0	0	1	0	0		T	151770151	T	T	151770151	5	4	190	1	0	0	0	0	0	0	1	0	8949	811	28	2	4565	2	LRBA	4	151770151	Splice_Site	SNP	C	TCGA-F1-6177-01A-11D-1800-08	650964	151770151	39384125	367	94520											
KIAA0922	23240	broad.mit.edu	37	chr4	154502038	154502038	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aatgcagtttacataataaaGtgtgtcagcaattaaaggta	17	12	8	4	0	1	0	1	0	0	0	1	0	1	0	0	1	3	4	0	1	9	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:154502038G>A	uc003inm.3	+	8	773	c.721G>A	c.(721-723)GTG>ATG	p.V241M	KIAA0922_uc010ipp.2_Missense_Mutation_p.V241M|KIAA0922_uc010ipq.2_Missense_Mutation_p.V93M	NM_015196	NP_056011	A2VDJ0	T131L_HUMAN	hypothetical protein LOC23240 isoform 2	241	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				ACATAATAAAGTGTGTCAGCA	0.313													19	28					0	0	1	0	0		A	154502038	A	A	154502038	3	1	190	1	0	0	0	0	1	0	0	0	8217	1029	36	4	751	4	KIAA0922	4	154502038	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2731887	154502038	36652238	368	94521											
FGB	2244	broad.mit.edu	37	chr4	155490691	155490691	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattggcttggaaatgataaAattagccagcttaccaggat	14	12	9	6	0	0	1	0	1	0	0	0	3	0	3	2	3	3	2	2	3	6	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:155490691A>C	uc003ioa.3	+	7	1023	c.984A>C	c.(982-984)AAA>AAC	p.K328N	FGB_uc003iob.3_Intron|FGB_uc010ipv.2_Missense_Mutation_p.K266N|FGB_uc010ipw.2_Intron|FGB_uc003ioc.3_Missense_Mutation_p.K109N	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	328	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	GAAATGATAAAATTAGCCAGC	0.363													37	56					0	0	1	0	0		C	155490691	C	C	155490691	3	2	190	1	0	0	0	0	1	0	0	0	5845	11	1	5	1010	5	FGB	4	155490691	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	988653	155490691	35663585	369	94522											
MAP9	79884	broad.mit.edu	37	chr4	156273869	156273869	+	Frame_Shift_Del	DEL	T	-	-																															tttgcttgaaaaaagcttccTttttttcattcctatagagc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:156273869delT	uc003ios.2	-	13	1964	c.1700delA	c.(1699-1701)AAGfs	p.K567fs	MAP9_uc011cin.1_Frame_Shift_Del_p.K542fs|MAP9_uc010iqa.1_RNA	NM_001039580	NP_001034669	Q49MG5	MAP9_HUMAN	aster-associated protein	567	Potential.				cell division|mitosis	cytoplasm|microtubule|spindle				ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.143)		AAAAGCTTCCTTTTTTTCATT	0.189													16	36	---	---	---	---						.	-	156273869	-	-	156273869	7	5	190	1	0	1	0	1	0	0	0	0	9288	1609	56	0	251	0	MAP9	4	156273869	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	783178	156273869	34880407	370	94523											
FSTL5	56884	broad.mit.edu	37	chr4	162402250	162402250	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaacataaatgaacttgtcTttgacattaacagctgatgc	14	12	7	8	0	1	3	0	3	1	0	1	3	1	3	0	0	5	2	0	0	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:162402250T>G	uc003iqh.2	-	13	1966	c.1530A>C	c.(1528-1530)AAA>AAC	p.K510N	FSTL5_uc003iqi.2_Missense_Mutation_p.K509N|FSTL5_uc010iqv.2_Missense_Mutation_p.K500N	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	510						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGAACTTGTCTTTGACATTAA	0.383													55	69					0	0	1	0	0		G	162402250	G	G	162402250	3	3	190	1	0	0	0	0	1	0	0	0	6094	1606	56	5	1029	5	FSTL5	4	162402250	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	6128381	162402250	28752026	371	94524											
DDX60L	91351	broad.mit.edu	37	chr4	169337880	169337880	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagctgaaagaaccaaaaaGggacatcgaataatgacaag	20	5	10	6	1	0	3	0	2	0	1	1	5	0	4	1	1	2	2	1	1	8	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:169337880G>T	uc003irq.3	-	20	2900	c.2679C>A	c.(2677-2679)CCC>CCA	p.P893P	DDX60L_uc003irr.1_Silent_p.P893P|DDX60L_uc003irs.1_Silent_p.P588P	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	893	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		GAACCAAAAAGGGACATCGAA	0.343													20	55					7.41877e-09	7.75103e-09	1	1	0		T	169337880	T	T	169337880	2	4	190	1	0	0	0	0	0	0	0	1	4382	987	35	5		5	DDX60L	4	169337880	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6935630	169337880	21816396	372	94525											
NEIL3	55247	broad.mit.edu	37	chr4	178283483	178283483	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctgcaaccatggcaagcGttccaccatgaaaacagtat	14	9	7	11	1	1	1	0	1	1	0	2	1	2	1	3	1	4	4	3	1	5	3	rs149552701	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:178283483G>A	uc003iut.2	+	10	1793	c.1676G>A	c.(1675-1677)CGT>CAT	p.R559H		NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	559					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		CATGGCAAGCGTTCCACCATG	0.378								BER_DNA_glycosylases					19	53					0	0	1	0	0		A	178283483	A	A	178283483	3	1	190	1	0	0	0	0	1	0	0	0	10339	1145	40	1	1714	1	NEIL3	4	178283483	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	8945603	178283483	12870793	373	94526											
HELT	391723	broad.mit.edu	37	chr4	185941544	185941544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccaaggacacgaagtacgCgcgcatcctcgccttcttgc	9	7	10	15	5	1	0	0	0	1	0	3	3	2	1	3	1	2	2	3	1	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:185941544C>T	uc011ckq.1	+	4	602	c.602C>T	c.(601-603)GCG>GTG	p.A201V	HELT_uc011cko.1_Missense_Mutation_p.A116V|HELT_uc003ixa.3_Missense_Mutation_p.A115V|HELT_uc011ckp.1_Missense_Mutation_p.A59V	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	201	Orange.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		ACGAAGTACGCGCGCATCCTC	0.612													37	63					0	0	1	0	0		T	185941544	T	T	185941544	3	4	190	1	0	0	0	0	1	0	0	0	7064	768	27	1	616	1	HELT	4	185941544	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	7658061	185941544	5212732	374	94527											
TRIML2	205860	broad.mit.edu	37	chr4	189012847	189012847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tttctctccggaagctctggCcgtgctgcccttcgcgtctg	2	13	11	15	4	3	0	0	0	3	0	6	1	4	1	3	2	3	2	3	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr4:189012847C>T	uc003izl.2	-	7	880	c.844G>A	c.(844-846)GCC>ACC	p.A282T	TRIML2_uc003izj.1_Missense_Mutation_p.A110T|TRIML2_uc003izk.1_Missense_Mutation_p.A90T|TRIML2_uc011cle.1_Missense_Mutation_p.A357T	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	282	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		GAAGCTCTGGCCGTGCTGCCC	0.597													81	127					0	0	1	0	0		T	189012847	T	T	189012847	3	4	190	1	0	0	0	0	1	0	0	0	16577	739	26	2	323	2	TRIML2	4	189012847	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3071303	189012847	2141429	375	94528											
BRD9	65980	broad.mit.edu	37	chr5	884073	884073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgccgcctgggaggaaccGgttgatcctgtcccgagctt	5	10	13	13	3	0	1	0	1	0	0	2	4	2	3	5	3	3	2	5	3	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:884073G>A	uc003jbq.2	-	8	1113	c.946C>T	c.(946-948)CGG>TGG	p.R316W	BRD9_uc003jbl.2_Missense_Mutation_p.R200W|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Missense_Mutation_p.R263W|BRD9_uc003jbo.2_Missense_Mutation_p.R220W|BRD9_uc003jbp.2_5'Flank|BRD9_uc011cmc.1_RNA	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	316							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			GGGAGGAACCGGTTGATCCTG	0.637													24	28					0	0	1	0	0		A	884073	A	A	884073	3	1	190	1	0	0	0	0	1	0	0	0	1510	1115	39	1	883	1	BRD9	5	884073	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08		884073	180031187	376	94529											
SLC12A7	10723	broad.mit.edu	37	chr5	1076892	1076892	+	Silent	SNP	C	T	T	0	0	0	1	1	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	actgtcagcagcagcgcccaCgtgggctccccgttggcctt	5	8	12	16	3	1	0	1	0	0	0	2	0	2	0	4	2	3	4	4	2	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:1076892C>T	uc003jbu.2	-	13	1731	c.1665G>A	c.(1663-1665)ACG>ACA	p.T555T		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	555	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GCAGCGCCCACGTGGGCTCCC	0.632													17	32					0	0	1	0	0		T	1076892	T	T	1076892	2	4	190	1	0	0	0	0	0	0	0	1	14413	523	19	1		1	SLC12A7	5	1076892	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	192819	1076892	179838368	377	94530											
SLC12A7	10723	broad.mit.edu	37	chr5	1081834	1081834	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccacaaacgcccccgcGtgcgcgtacgtactccacag	8	7	8	18	6	1	0	0	0	1	0	3	0	2	0	4	0	4	2	4	0	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:1081834G>A	uc003jbu.2	-	9	1221	c.1155C>T	c.(1153-1155)CAC>CAT	p.H385H		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	385					potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	ACGCCCCCGCGTGCGCGTACG	0.667													26	49					0	0	1	0	0		A	1081834	A	A	1081834	2	1	190	1	0	0	0	0	0	0	0	1	14413	1136	40	1		1	SLC12A7	5	1081834	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4942	1081834	179833426	378	94531											
IRX1	79192	broad.mit.edu	37	chr5	3599423	3599423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgccggcttattacccctacGgccagttccaatacggggac	8	8	10	15	4	0	0	0	0	0	0	1	1	1	1	5	4	3	2	5	4	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:3599423G>A	uc003jde.2	+	2	413	c.361G>A	c.(361-363)GGC>AGC	p.G121S		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	121						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						TTACCCCTACGGCCAGTTCCA	0.652													13	26					0	0	1	0	0		A	3599423	A	A	3599423	3	1	190	1	0	0	0	0	1	0	0	0	7859	1116	39	1	367	1	IRX1	5	3599423	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2517589	3599423	177315837	379	94532											
KIAA0947	23379	broad.mit.edu	37	chr5	5462807	5462807	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttagctgcagtgaggggagCgaacagcaagatgctcctga	11	8	14	8	1	0	3	0	2	0	1	1	5	1	4	1	2	6	4	1	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:5462807C>T	uc003jdm.3	+	13	3582	c.3360C>T	c.(3358-3360)AGC>AGT	p.S1120S		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1120										ovary(1)|central_nervous_system(1)	2						GTGAGGGGAGCGAACAGCAAG	0.498													19	15					0	0	1	0	0		T	5462807	T	T	5462807	2	4	190	1	0	0	0	0	0	0	0	1	8218	767	27	1		1	KIAA0947	5	5462807	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1863384	5462807	175452453	380	94533											
MED10	84246	broad.mit.edu	37	chr5	6372636	6372636	+	Frame_Shift_Del	DEL	C	-	-																															ttaagaaggcgggtgatcctCcccccggatgcttcgatact																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:6372636delC	uc003jdo.2	-	4	431	c.388delG	c.(388-390)GAGfs	p.E130fs		NM_032286	NP_115662	Q9BTT4	MED10_HUMAN	mediator complex subunit 10	130					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(1)	1						GGGTGATCCTCCCCCCGGATG	0.498													27	44	---	---	---	---						.	-	6372636	-	-	6372636	7	5	190	1	0	1	0	1	0	0	0	0	9444	864	30	0	23	0	MED10	5	6372636	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	909829	6372636	174542624	381	94534											
CDH9	1007	broad.mit.edu	37	chr5	26885740	26885740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tactaagcagtatgaggacaCagagtagaatcgcaacgaga	17	6	11	7	2	0	4	0	1	0	3	1	6	0	5	0	1	3	4	0	1	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:26885740C>T	uc003jgs.1	-	11	2034	c.1865G>A	c.(1864-1866)TGT>TAT	p.C622Y	CDH9_uc011cnv.1_Missense_Mutation_p.C215Y	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	622	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						TATGAGGACACAGAGTAGAAT	0.493													17	24					0	0	1	0	0		T	26885740	T	T	26885740	3	4	190	1	0	0	0	0	1	0	0	0	3120	478	17	4	512	4	CDH9	5	26885740	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	20513104	26885740	154029520	382	94535											
NIPBL	25836	broad.mit.edu	37	chr5	37045566	37045566	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgccatttcaaaattaaaaaGtcaacaccaagaggacccaa	19	7	5	10	0	2	1	2	0	0	1	2	2	2	2	3	1	2	0	3	1	8	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:37045566G>A	uc003jkl.3	+	37	6864	c.6365G>A	c.(6364-6366)AGT>AAT	p.S2122N	NIPBL_uc003jkk.3_Missense_Mutation_p.S2122N	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	2122					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			AAATTAAAAAGTCAACACCAA	0.308													61	87					0	0	1	0	0		A	37045566	A	A	37045566	3	1	190	1	0	0	0	0	1	0	0	0	10447	1029	36	4	6507	4	NIPBL	5	37045566	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10159826	37045566	143869694	383	94536											
C5orf42	65250	broad.mit.edu	37	chr5	37167150	37167150	+	Frame_Shift_Del	DEL	T	-	-																															aatttcacttaagccttgccTttttttactgtcctttcctt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:37167150delT	uc011cpa.1	-	35	7630	c.7399delA	c.(7399-7401)AGGfs	p.R2467fs	C5orf42_uc011coy.1_Frame_Shift_Del_p.R967fs|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Frame_Shift_Del_p.R1542fs	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2467										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			AAGCCTTGCCTTTTTTTACTG	0.323													35	36	---	---	---	---						.	-	37167150	-	-	37167150	7	5	190	1	0	1	0	1	0	0	0	0	2304	1623	56	0	2266	0	C5orf42	5	37167150	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	121584	37167150	143748110	384	94537											
EGFLAM	133584	broad.mit.edu	37	chr5	38350644	38350644	+	Silent	SNP	T	C	C	0	1	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	aaaccaggcactgaatatcgTgtgagcatagcagcttacag	14	8	10	9	1	0	2	0	2	0	0	1	2	0	2	1	1	5	4	1	1	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:38350644T>C	uc003jlc.1	+	4	657	c.333T>C	c.(331-333)CGT>CGC	p.R111R	EGFLAM_uc003jlb.1_Silent_p.R111R	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	111	Fibronectin type-III 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					CTGAATATCGTGTGAGCATAG	0.453													41	61					0	0	1	0	0		C	38350644	C	C	38350644	2	2	190	1	0	0	0	0	0	0	0	1	4972	1683	59	3		3	EGFLAM	5	38350644	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1183494	38350644	142564616	385	94538											
EGFLAM	133584	broad.mit.edu	37	chr5	38407192	38407192	+	Frame_Shift_Del	DEL	G	-	-																															ctgtgtcaatgactacacctGggggggctcgcgatgccagt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:38407192delG	uc003jlc.1	+	8	1415	c.1091delG	c.(1090-1092)TGGfs	p.W364fs	EGFLAM_uc003jlb.1_Frame_Shift_Del_p.W364fs|EGFLAM_uc003jle.1_Frame_Shift_Del_p.W130fs|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	364	EGF-like 1.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GACTACACCTGGGGGGGCTCG	0.547													22	46	---	---	---	---						.	-	38407192	-	-	38407192	7	5	190	1	0	1	0	1	0	0	0	0	4972	1357	47	0	1135	0	EGFLAM	5	38407192	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	56548	38407192	142508068	386	94539											
PLCXD3	345557	broad.mit.edu	37	chr5	41382192	41382192	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatagtccttctcccacaggTactttaaactaacttcctgg	10	13	6	12	0	1	0	0	0	1	0	4	1	3	0	3	2	3	1	3	2	5	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:41382192T>C	uc003jmm.1	-	2	650	c.548A>G	c.(547-549)TAC>TGC	p.Y183C		NM_001005473	NP_001005473	Q63HM9	PLCX3_HUMAN	phosphatidylinositol-specific phospholipase C, X	183	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(2)|urinary_tract(1)|ovary(1)|lung(1)|central_nervous_system(1)	6						CTCCCACAGGTACTTTAAACT	0.468													46	102					0	0	1	0	0		C	41382192	C	C	41382192	3	2	190	1	0	0	0	0	1	0	0	0	12062	1638	57	3	425	3	PLCXD3	5	41382192	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2975000	41382192	139533068	387	94540											
MGC42105	167359	broad.mit.edu	37	chr5	43280659	43280659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaccaagggagagatgctcGcagctcaatcacaggggtct	12	7	12	10	1	3	1	2	0	1	1	4	3	3	2	1	3	3	3	1	3	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:43280659G>A	uc003jno.2	+	4	2020	c.1139G>A	c.(1138-1140)CGC>CAC	p.R380H		NM_153361	NP_699192	Q8IY84	NIM1_HUMAN	serine/threonine-protein kinase NIM1	380							ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|stomach(1)|large_intestine(1)|breast(1)	9						AGAGATGCTCGCAGCTCAATC	0.418													35	64					0	0	1	0	0		A	43280659	A	A	43280659	3	1	190	1	0	0	0	0	1	0	0	0	9570	1087	38	1	1149	1	MGC42105	5	43280659	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1898467	43280659	137634601	388	94541											
FGF10	2255	broad.mit.edu	37	chr5	44388639	44388639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggaggaagaagagttggtgGcctctggtgacaccatgtcc	10	8	15	8	0	1	3	0	1	1	2	2	5	2	5	3	5	0	1	3	5	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:44388639G>A	uc003jog.1	-	1	146	c.146C>T	c.(145-147)GCC>GTC	p.A49V		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	49					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					AGAGTTGGTGGCCTCTGGTGA	0.572													20	30					0	0	1	0	0		A	44388639	A	A	44388639	3	1	190	1	0	0	0	0	1	0	0	0	5853	1203	42	2	492	2	FGF10	5	44388639	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1107980	44388639	136526621	389	94542											
HCN1	348980	broad.mit.edu	37	chr5	45645327	45645327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctaattaaccttgaaagtCgtaataaacgcaagagactg	17	10	7	7	2	1	2	0	1	1	1	2	3	1	2	1	0	2	2	1	0	7	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:45645327C>T	uc003jok.2	-	2	834	c.809G>A	c.(808-810)CGA>CAA	p.R270Q		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	270	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CCTTGAAAGTCGTAATAAACG	0.328													18	34					0	0	1	0	0		T	45645327	T	T	45645327	3	4	190	1	0	0	0	0	1	0	0	0	7012	884	31	1	1891	1	HCN1	5	45645327	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1256688	45645327	135269933	390	94543											
PARP8	79668	broad.mit.edu	37	chr5	50059056	50059056	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagttagagagatatatggGccacatgcagtttctctcag	11	11	11	8	0	2	2	1	0	1	2	3	3	2	2	1	1	1	4	1	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:50059056G>A	uc003jon.3	+	8	680	c.498G>A	c.(496-498)GGG>GGA	p.G166G	PARP8_uc011cpz.1_Silent_p.G58G|PARP8_uc003joo.2_Silent_p.G166G|PARP8_uc003jop.2_Silent_p.G166G	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	166						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				AGATATATGGGCCACATGCAG	0.353													22	28					0	0	1	0	0		A	50059056	A	A	50059056	2	1	190	1	0	0	0	0	0	0	0	1	11484	1190	42	2		2	PARP8	5	50059056	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4413729	50059056	130856204	391	94544											
IL6ST	3572	broad.mit.edu	37	chr5	55247315	55247315	+	Missense_Mutation	SNP	A	G	G	1	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	actttggggtagtaaaagtgAattctggaccatccttccca	11	12	9	9	0	1	1	0	1	1	0	3	2	3	2	3	3	0	2	3	3	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:55247315A>G	uc003jqq.2	-	14	2072	c.1817T>C	c.(1816-1818)TTC>TCC	p.F606S	IL6ST_uc010iwb.2_Missense_Mutation_p.F545S|IL6ST_uc010iwc.2_Intron|IL6ST_uc010iwd.2_Intron|IL6ST_uc011cqk.1_Missense_Mutation_p.F317S|IL6ST_uc003jqr.2_3'UTR|IL6ST_uc010iwe.1_RNA	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	606	Extracellular (Potential).|Fibronectin type-III 5.				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				AGTAAAAGTGAATTCTGGACC	0.358			O		hepatocellular ca								47	70					0	0	1	0	0		G	55247315	G	G	55247315	3	3	190	1	0	0	0	0	1	0	0	0	7719	246	9	3	955	3	IL6ST	5	55247315	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	5188259	55247315	125667945	392	94545											
DEPDC1B	55789	broad.mit.edu	37	chr5	59982801	59982801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccattacctgtataagtgaCgattgtcttcaaaatcttcc	11	14	6	10	1	3	1	1	1	2	0	4	2	4	1	3	0	1	1	3	0	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:59982801C>T	uc003jsh.2	-	2	375	c.302G>A	c.(301-303)CGT>CAT	p.R101H	DEPDC1B_uc011cqm.1_Missense_Mutation_p.R101H|DEPDC1B_uc011cqn.1_Missense_Mutation_p.R74H	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	101	DEP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				GTATAAGTGACGATTGTCTTC	0.428													106	196					0	0	1	0	0		T	59982801	T	T	59982801	3	4	190	1	0	0	0	0	1	0	0	0	4446	536	19	1	1327	1	DEPDC1B	5	59982801	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4735486	59982801	120932459	393	94546											
MAST4	375449	broad.mit.edu	37	chr5	66430427	66430427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagccggtggactggtgggCcatggggattatcctctatg	8	10	15	8	1	1	0	0	0	1	0	2	2	2	2	3	6	1	0	3	6	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:66430427C>T	uc003jut.1	+	17	1804	c.1736C>T	c.(1735-1737)GCC>GTC	p.A579V	MAST4_uc003juu.1_Missense_Mutation_p.A589V|MAST4_uc011cra.1_Missense_Mutation_p.A562V|MAST4_uc003juv.2_Missense_Mutation_p.A574V|MAST4_uc003juw.2_Missense_Mutation_p.A574V	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	771	Protein kinase.					cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		GACTGGTGGGCCATGGGGATT	0.448													44	51					0	0	1	0	0		T	66430427	T	T	66430427	3	4	190	1	0	0	0	0	1	0	0	0	9345	739	26	2	2503	2	MAST4	5	66430427	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6447626	66430427	114484833	394	94547											
PIK3R1	5295	broad.mit.edu	37	chr5	67522741	67522741	+	Frame_Shift_Del	DEL	A	-	-																															acgtagaatatattggaaggAaaaaaatctcgcctcccaca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:67522741delA	uc003jva.2	+	2	798	c.238delA	c.(238-240)AAAfs	p.K80fs	PIK3R1_uc003jvb.2_Frame_Shift_Del_p.K80fs	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	80					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding			endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		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)	Isoproterenol(DB01064)	TATTGGAAGGAAAAAAATCTC	0.493			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			28	40	---	---	---	---						.	-	67522741	-	-	67522741	7	5	190	1	0	1	0	1	0	0	0	0	11937	247	9	0	240	0	PIK3R1	5	67522741	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	1092314	67522741	113392519	395	94548											
MAP1B	4131	broad.mit.edu	37	chr5	71491610	71491610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccacagcagctgtcatgGcggcagctggaatagcagcc	10	5	12	14	1	1	0	1	0	0	0	1	1	1	1	3	3	5	5	3	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:71491610G>A	uc003kbw.3	+	5	2669	c.2428G>A	c.(2428-2430)GCG>ACG	p.A810T	MAP1B_uc010iyw.1_Missense_Mutation_p.A827T|MAP1B_uc010iyx.1_Missense_Mutation_p.A684T|MAP1B_uc010iyy.1_Missense_Mutation_p.A684T	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	810						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		AGCTGTCATGGCGGCAGCTGG	0.527													50	53					0	0	1	0	0		A	71491610	A	A	71491610	3	1	190	1	0	0	0	0	1	0	0	0	9246	1203	42	2	2446	2	MAP1B	5	71491610	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3968869	71491610	109423650	396	94549											
ZNF366	167465	broad.mit.edu	37	chr5	71756601	71756601	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcccacgtccacgtagtaGctgtcatcgatctgcacgtt	7	10	9	15	5	2	0	1	0	1	0	4	1	3	0	3	0	2	5	3	0	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:71756601G>A	uc003kce.1	-	2	909	c.723C>T	c.(721-723)AGC>AGT	p.S241S		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	241					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		CCACGTAGTAGCTGTCATCGA	0.637													59	90					0	0	1	0	0		A	71756601	A	A	71756601	2	1	190	1	0	0	0	0	0	0	0	1	17895	962	34	2		2	ZNF366	5	71756601	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	264991	71756601	109158659	397	94550											
POLK	51426	broad.mit.edu	37	chr5	74892070	74892070	+	Missense_Mutation	SNP	A	G	G	1	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	ttcggatatctagttttcccAatgaagaggacaggaaacac	14	10	9	8	1	1	2	0	1	1	1	3	5	2	5	1	3	1	1	1	3	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:74892070A>G	uc003kdw.2	+	13	1648	c.1552A>G	c.(1552-1554)AAT>GAT	p.N518D	POLK_uc003kdx.2_RNA|POLK_uc003kdy.2_RNA|POLK_uc010izq.2_Missense_Mutation_p.N320D|POLK_uc003kec.2_Missense_Mutation_p.N428D|POLK_uc010izr.2_RNA|POLK_uc010izs.2_RNA|POLK_uc003ked.2_Intron|POLK_uc003kee.2_Intron|POLK_uc003kef.2_Missense_Mutation_p.N428D	NM_016218	NP_057302	Q9UBT6	POLK_HUMAN	DNA-directed DNA polymerase kappa	518					DNA replication|nucleotide-excision repair, DNA gap filling	nucleus	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|kidney(2)	4		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)		TAGTTTTCCCAATGAAGAGGA	0.373								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					21	24					0	0	1	0	0		G	74892070	G	G	74892070	3	3	190	1	0	0	0	0	1	0	0	0	12223	130	5	3	1598	3	POLK	5	74892070	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	3135469	74892070	106023190	398	94551											
ZFYVE16	9765	broad.mit.edu	37	chr5	79734068	79734068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttaatattgatgaaggcGcaaaaagtggcccactaatt	15	11	8	7	1	0	2	0	2	0	0	0	2	0	2	1	2	0	1	1	2	6	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:79734068G>A	uc003kgr.3	+	4	1866	c.1564G>A	c.(1564-1566)GCA>ACA	p.A522T	ZFYVE16_uc010jak.1_Missense_Mutation_p.A522T|ZFYVE16_uc003kgp.2_Missense_Mutation_p.A522T|ZFYVE16_uc003kgq.3_Missense_Mutation_p.A522T|ZFYVE16_uc003kgs.3_Missense_Mutation_p.A522T	NM_001105251	NP_001098721	Q7Z3T8	ZFY16_HUMAN	zinc finger, FYVE domain containing 16	522					BMP signaling pathway|endosome transport|protein targeting to lysosome|regulation of endocytosis|vesicle organization	early endosome membrane	1-phosphatidylinositol binding|metal ion binding|phosphatidylinositol-3,4,5-trisphosphate binding|protein binding|protein transporter activity				0		Lung NSC(167;0.00428)|all_lung(232;0.00455)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;1.6e-46)|Epithelial(54;2.02e-41)|all cancers(79;5.05e-36)		TGATGAAGGCGCAAAAAGTGG	0.353													47	41					0	0	1	0	0		A	79734068	A	A	79734068	3	1	190	1	0	0	0	0	1	0	0	0	17689	1087	38	1	1570	1	ZFYVE16	5	79734068	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4841998	79734068	101181192	399	94552											
XRCC4	7518	broad.mit.edu	37	chr5	82491728	82491728	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaagaaaatgaaaggcttcTgagagattggaatgatgttc	16	10	12	3	0	1	5	0	3	1	2	2	8	1	6	0	2	0	2	0	2	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:82491728T>C	uc003kib.2	+	4	583	c.455T>C	c.(454-456)CTG>CCG	p.L152P	XRCC4_uc003kia.1_Missense_Mutation_p.L152P|XRCC4_uc003kid.2_Missense_Mutation_p.L152P|XRCC4_uc003kic.2_Missense_Mutation_p.L152P|XRCC4_uc003kie.2_Missense_Mutation_p.L152P|XRCC4_uc003kif.1_Missense_Mutation_p.L152P	NM_022406	NP_071801	Q13426	XRCC4_HUMAN	X-ray repair cross complementing protein 4	152	Potential.				DNA ligation involved in DNA repair|double-strand break repair via nonhomologous end joining|initiation of viral infection|positive regulation of ligase activity|provirus integration|response to X-ray	cytosol|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|nucleoplasm	DNA binding|protein C-terminus binding			skin(3)	3		Lung NSC(167;0.00132)|all_lung(232;0.00154)|Ovarian(174;0.034)		OV - Ovarian serous cystadenocarcinoma(54;1.44e-38)|Epithelial(54;3.72e-33)|all cancers(79;9.22e-28)		GAAAGGCTTCTGAGAGATTGG	0.378								NHEJ					26	47					0	0	1	0	0		C	82491728	C	C	82491728	3	2	190	1	0	0	0	0	1	0	0	0	17481	1580	55	3	465	3	XRCC4	5	82491728	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2757660	82491728	98423532	400	94553											
HAPLN1	1404	broad.mit.edu	37	chr5	82937478	82937478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccgcatcacagcggtcaTatccgagaattttccaggca	11	8	9	13	3	2	1	2	0	0	1	4	2	4	1	3	2	2	2	3	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:82937478T>C	uc003kim.2	-	4	973	c.902A>G	c.(901-903)TAT>TGT	p.Y301C	HAPLN1_uc003kin.2_Missense_Mutation_p.Y301C	NM_001884	NP_001875	P10915	HPLN1_HUMAN	hyaluronan and proteoglycan link protein 1	301	Link 2.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding			large_intestine(3)|ovary(1)|skin(1)	5		Lung NSC(167;0.0484)|all_lung(232;0.0522)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;7.82e-42)|Epithelial(54;5.88e-35)|all cancers(79;1.14e-29)		ACAGCGGTCATATCCGAGAAT	0.547													58	119					0	0	1	0	0		C	82937478	C	C	82937478	3	2	190	1	0	0	0	0	1	0	0	0	6970	1406	49	3	166	3	HAPLN1	5	82937478	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	445750	82937478	97977782	401	94554											
GPR98	84059	broad.mit.edu	37	chr5	89990228	89990228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcacctcatgaacatttcagCcagtttgaaaaatcagccaa	15	10	5	11	0	4	2	4	2	0	0	4	2	4	2	3	0	3	1	3	0	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:89990228C>T	uc003kju.2	+	33	7751	c.7655C>T	c.(7654-7656)GCC>GTC	p.A2552V	GPR98_uc003kjt.2_Missense_Mutation_p.A258V|GPR98_uc003kjv.2_Missense_Mutation_p.A152V	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	2552	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AACATTTCAGCCAGTTTGAAA	0.383													42	83					0	0	1	0	0		T	89990228	T	T	89990228	3	4	190	1	0	0	0	0	1	0	0	0	6737	739	26	2	7785	2	GPR98	5	89990228	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	7052750	89990228	90925032	402	94555											
ARRDC3	57561	broad.mit.edu	37	chr5	90672541	90672541	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaattcggctttcacccaaTagcgcacactgccatgtcgg	9	9	9	14	3	1	0	1	0	0	0	3	0	1	0	2	2	2	3	2	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:90672541T>C	uc003kjz.2	-	3	647	c.407A>G	c.(406-408)TAT>TGT	p.Y136C		NM_020801	NP_065852	Q96B67	ARRD3_HUMAN	arrestin domain containing 3	136					signal transduction	cytoplasm	protein binding			ovary(1)|breast(1)	2		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)		TTTCACCCAATAGCGCACACT	0.388													24	27					0	0	1	0	0		C	90672541	C	C	90672541	3	2	190	1	0	0	0	0	1	0	0	0	985	1406	49	3	861	3	ARRDC3	5	90672541	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	682313	90672541	90242719	403	94556											
RHOBTB3	22836	broad.mit.edu	37	chr5	95119538	95119538	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtctcctgatctgtgcCgagatgtaccaagtgtccag	8	12	11	10	1	2	2	0	1	2	1	4	3	3	2	4	0	2	1	4	0	2	1	rs150008155		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:95119538C>T	uc003klm.2	+	10	2031	c.1494C>T	c.(1492-1494)GCC>GCT	p.A498A		NM_014899	NP_055714	O94955	RHBT3_HUMAN	rho-related BTB domain containing 3	498	Interaction with Rab9.			A->T: Abolishes interaction with RAB9A.	retrograde transport, endosome to Golgi	Golgi apparatus	ATP binding|ATPase activity|Rab GTPase binding			lung(1)|skin(1)	2		all_cancers(142;2.58e-06)|all_epithelial(76;4.19e-09)|all_lung(232;0.00307)|Lung NSC(167;0.00452)|Ovarian(225;0.0164)|Colorectal(57;0.0846)|Breast(839;0.198)		all cancers(79;8.79e-16)		TGATCTGTGCCGAGATGTACC	0.473													65	99					0	0	1	0	0		T	95119538	T	T	95119538	2	4	190	1	0	0	0	0	0	0	0	1	13360	639	23	1		1	RHOBTB3	5	95119538	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4446997	95119538	85795722	404	94557											
SLCO6A1	133482	broad.mit.edu	37	chr5	101834536	101834536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcccagagtgccgggcgaCgcctacgaacatggctcacc	8	5	12	16	4	1	1	1	0	0	1	2	3	2	1	4	2	3	2	4	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:101834536C>T	uc003knn.2	-	1	185	c.13G>A	c.(13-15)GTC>ATC	p.V5I	SLCO6A1_uc003kno.2_Missense_Mutation_p.V5I|SLCO6A1_uc003knp.2_Missense_Mutation_p.V5I|SLCO6A1_uc003knq.2_Missense_Mutation_p.V5I	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	5	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TGCCGGGCGACGCCTACGAAC	0.701													54	89					0	0	1	0	0		T	101834536	T	T	101834536	3	4	190	1	0	0	0	0	1	0	0	0	14757	536	19	1	2198	1	SLCO6A1	5	101834536	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6714998	101834536	79080724	405	94558											
SLC25A46	91137	broad.mit.edu	37	chr5	110096961	110096961	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgttaaagaaggaattggaAgagtgataggcatgggagtg	14	9	17	1	0	0	3	0	1	0	2	0	6	0	6	0	4	0	2	0	4	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:110096961A>G	uc003koz.2	+	8	803	c.736A>G	c.(736-738)AGA>GGA	p.R246G	SLC25A46_uc011cvi.1_Missense_Mutation_p.R155G	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	246					transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		AGGAATTGGAAGAGTGATAGG	0.378													7	131					0	0	1	0	0		G	110096961	G	G	110096961	3	3	190	1	0	0	0	0	1	0	0	0	14536	64	3	3	766	3	SLC25A46	5	110096961	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	8262425	110096961	70818299	406	94559											
COMMD10	51397	broad.mit.edu	37	chr5	115426820	115426820	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagaaaaacttcaagcGgcattttctctagagaaaca	17	8	9	7	1	2	2	1	0	1	2	3	5	2	3	0	2	3	1	0	2	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:115426820G>A	uc003krt.1	+	3	200	c.177G>A	c.(175-177)GCG>GCA	p.A59A		NM_016144	NP_057228	Q9Y6G5	COMDA_HUMAN	COMM domain containing 10	59							protein binding			ovary(1)	1		all_cancers(142;0.0834)|all_epithelial(76;0.00314)|Prostate(80;0.0102)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;4.3e-07)|Epithelial(69;8.06e-07)|all cancers(49;4.06e-05)		AACTTCAAGCGGCATTTTCTC	0.313													17	38					0	0	1	0	0		A	115426820	A	A	115426820	2	1	190	1	0	0	0	0	0	0	0	1	3718	1103	39	1		1	COMMD10	5	115426820	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5329859	115426820	65488440	407	94560											
DMXL1	1657	broad.mit.edu	37	chr5	118500337	118500337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtgtggggtggtgggtccGgaatacccgcatcttacgca	6	9	17	9	3	1	0	0	0	1	0	2	1	2	1	2	6	2	2	2	6	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:118500337G>A	uc003ksd.2	+	20	5019	c.4838G>A	c.(4837-4839)CGG>CAG	p.R1613Q	DMXL1_uc010jcl.1_Missense_Mutation_p.R1613Q	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1613										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TGGTGGGTCCGGAATACCCGC	0.408													43	61					0	0	1	0	0		A	118500337	A	A	118500337	3	1	190	1	0	0	0	0	1	0	0	0	4600	1116	39	1	4916	1	DMXL1	5	118500337	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3073517	118500337	62414923	408	94561											
CSNK1G3	1456	broad.mit.edu	37	chr5	122926143	122926144	+	Frame_Shift_Ins	INS	-	T	T																															cgttatgtaagaaggctagaINStttttttgaaaaaccagact																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:122926143_122926144insT	uc003ktm.2	+	9	1600_1601	c.881_882insT	c.(880-882)GATfs	p.D294fs	CSNK1G3_uc003ktl.2_Frame_Shift_Ins_p.D294fs|CSNK1G3_uc003ktn.2_Frame_Shift_Ins_p.D294fs|CSNK1G3_uc003kto.2_Frame_Shift_Ins_p.D294fs|CSNK1G3_uc011cwr.1_Frame_Shift_Ins_p.D219fs|CSNK1G3_uc011cws.1_Frame_Shift_Ins_p.D182fs|CSNK1G3_uc010jda.2_Frame_Shift_Ins_p.D295fs	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	294	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)		AGAAGGCTAGATTTTTTTGAAA	0.262													41	50	---	---	---	---						.	T	122926144	T	T	122926143	7	5	190	1	0	1	1	0	0	0	0	0	3959	333	12	0	911	0	CSNK1G3	5	122926143	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	4425806	122926143	57989117	409	94562											
FBN2	2201	broad.mit.edu	37	chr5	127681104	127681104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggttagcaaagccagccccGcgggggcacagcgtctcgta	8	5	14	14	5	1	0	0	0	1	0	2	0	1	0	3	3	4	4	3	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:127681104G>A	uc003kuu.2	-	24	3601	c.3162C>T	c.(3160-3162)CGC>CGT	p.R1054R	FBN2_uc003kuv.2_Silent_p.R1021R	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1054					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGCCAGCCCCGCGGGGGCACA	0.617													58	87					0	0	1	0	0		A	127681104	A	A	127681104	2	1	190	1	0	0	0	0	0	0	0	1	5717	1074	38	1		1	FBN2	5	127681104	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4754961	127681104	53234156	410	94563											
C5orf20	140947	broad.mit.edu	37	chr5	134782379	134782379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagactgtgtgaactgtgaaCgggtagagtctgaaactaca	13	9	13	6	1	1	5	0	3	1	2	1	6	1	5	0	1	4	1	0	1	5	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:134782379C>T	uc003lav.2	-	1	660	c.420G>A	c.(418-420)CCG>CCA	p.P140P		NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1	140						nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GAACTGTGAACGGGTAGAGTC	0.517													55	75					0	0	1	0	0		T	134782379	T	T	134782379	2	4	190	1	0	0	0	0	0	0	0	1	2287	523	19	1		1	C5orf20	5	134782379	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	7101275	134782379	46132881	411	94564											
TRPC7	57113	broad.mit.edu	37	chr5	135610472	135610473	+	Frame_Shift_Ins	INS	-	T	T																															gttgacgtaagcctgagagaINSttttcataccacatggtaag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:135610472_135610473insT	uc003lbn.1	-	3	1016_1017	c.1013_1014insA	c.(1012-1014)AATfs	p.N338fs	TRPC7_uc010jef.1_Intron|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Frame_Shift_Ins_p.N269fs|TRPC7_uc010jei.1_Intron|TRPC7_uc010jej.1_Intron	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	339	Cytoplasmic (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AGCCTGAGAGATTTTCATACCA	0.406													5	10	---	---	---	---						.	T	135610473	T	T	135610472	7	5	190	1	0	1	1	0	0	0	0	0	16610	330	12	0	1607	0	TRPC7	5	135610472	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	828093	135610472	45304788	412	94565											
MYOT	9499	broad.mit.edu	37	chr5	137206445	137206448	+	Frame_Shift_Del	DEL	CAAA	-	-																															tccagcttctctagccagacCaaacagtcttccattatcat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:137206445_137206448delCAAA	uc011cye.1	+	2	122_125	c.105_108delCAAA	c.(103-108)ACCAAAfs	p.T35fs	MYOT_uc003lbv.2_Frame_Shift_Del_p.T35fs|MYOT_uc011cyg.1_Intron|MYOT_uc011cyh.1_Intron	NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	myotilin isoform b	35_36					muscle contraction	actin cytoskeleton|sarcolemma|sarcomere	actin binding|structural constituent of muscle			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CTAGCCAGACCAAACAGTCTTCCA	0.505													67	77	---	---	---	---						.	-	137206448	-	-	137206445	7	5	190	1	0	1	0	1	0	0	0	0	10112	581	21	0	107	0	MYOT	5	137206445	Frame_Shift_Del	DEL	CAAA	TCGA-F1-6177-01A-11D-1800-08	1595973	137206445	43708815	413	94566											
KIF20A	10112	broad.mit.edu	37	chr5	137520324	137520324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagacacaggccttgatgatGatattgaaaatgaagctgac	15	9	10	7	0	0	7	0	6	0	1	0	7	0	7	1	1	1	1	1	1	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:137520324G>A	uc003lcj.2	+	13	2138	c.1642G>A	c.(1642-1644)GAT>AAT	p.D548N	KIF20A_uc011cyo.1_Missense_Mutation_p.D530N	NM_005733	NP_005724	O95235	KI20A_HUMAN	kinesin family member 20A	548					cytokinesis|M phase of mitotic cell cycle|microtubule-based movement|protein transport|vesicle-mediated transport	Golgi apparatus|microtubule|nucleoplasm	ATP binding|microtubule motor activity|protein binding|transporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CCTTGATGATGATATTGAAAA	0.448													58	84					0	0	1	0	0		A	137520324	A	A	137520324	3	1	190	1	0	0	0	0	1	0	0	0	8302	1290	45	4	1688	4	KIF20A	5	137520324	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	313879	137520324	43394936	414	94567											
CTNNA1	1495	broad.mit.edu	37	chr5	138260288	138260288	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accgcacagctggtgcaattCgaggccgggcagcccgggtc	7	5	15	14	4	0	0	0	0	0	0	2	1	0	0	3	4	3	4	3	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:138260288C>T	uc003ldh.2	+	12	1731	c.1636C>T	c.(1636-1638)CGA>TGA	p.R546*	CTNNA1_uc011cyx.1_Nonsense_Mutation_p.R443*|CTNNA1_uc011cyy.1_Nonsense_Mutation_p.R423*|CTNNA1_uc003ldi.2_Nonsense_Mutation_p.R244*|CTNNA1_uc003ldj.2_Nonsense_Mutation_p.R546*|CTNNA1_uc003ldl.2_Nonsense_Mutation_p.R176*	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	546					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TGGTGCAATTCGAGGCCGGGC	0.512													15	17					0	0	1	0	0		T	138260288	T	T	138260288	4	4	190	1	0	0	0	0	0	1	0	0	4015	876	31	1	1678	1	CTNNA1	5	138260288	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	739964	138260288	42654972	415	94568											
PCDHA9	9752	broad.mit.edu	37	chr5	140229215	140229215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagtgtgatcgacctagacGcagatgccaacgggcaggtt	10	9	13	9	3	0	3	0	1	0	2	1	4	0	3	2	2	2	3	2	2	3	3	rs151053430	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140229215G>A	uc003lhu.2	+	1	1859	c.1135G>A	c.(1135-1137)GCA>ACA	p.A379T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.A379T	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	379	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGACCTAGACGCAGATGCCAA	0.532													46	79					0	0	1	0	0		A	140229215	A	A	140229215	3	1	190	1	0	0	0	0	1	0	0	0	11550	1087	38	1	1137	1	PCDHA9	5	140229215	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1968927	140229215	40686045	416	94569											
PCDHA10	56139	broad.mit.edu	37	chr5	140237471	140237471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgtatgaattgcagtcggCggcggttggtgcacgcatcc	6	10	15	10	5	0	1	0	1	0	0	3	1	1	1	1	4	2	5	1	4	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140237471C>T	uc003lhx.2	+	1	1838	c.1838C>T	c.(1837-1839)GCG>GTG	p.A613V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Missense_Mutation_p.A613V	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	613	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTGCAGTCGGCGGCGGTTGGT	0.642													15	29					0	0	1	0	0		T	140237471	T	T	140237471	3	4	190	1	0	0	0	0	1	0	0	0	11539	768	27	1	1840	1	PCDHA10	5	140237471	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	8256	140237471	40677789	417	94570											
PCDHAC2	56134	broad.mit.edu	37	chr5	140346986	140346986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgcttgagctggtgctgcGtaagggcctagaccgggagc	7	8	17	9	2	0	2	0	1	0	1	0	3	0	3	2	3	5	4	2	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140346986G>A	uc003lii.2	+	1	875	c.635G>A	c.(634-636)CGT>CAT	p.R212H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.R212H	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	212	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGTGCTGCGTAAGGGCCTA	0.617													15	35					0	0	1	0	0		A	140346986	A	A	140346986	3	1	190	1	0	0	0	0	1	0	0	0	11552	1145	40	1	637	1	PCDHAC2	5	140346986	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	109515	140346986	40568274	418	94571											
PCDHB4	56131	broad.mit.edu	37	chr5	140502701	140502701	+	Frame_Shift_Del	DEL	C	-	-																															ccgaattcgagatagagattCcggagaaaatggaaagatga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140502701delC	uc003lip.1	+	1	1121	c.1121delC	c.(1120-1122)TCCfs	p.S374fs		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	374	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GATAGAGATTCCGGAGAAAAT	0.408													62	100	---	---	---	---						.	-	140502701	-	-	140502701	7	5	190	1	0	1	0	1	0	0	0	0	11563	855	30	0	1123	0	PCDHB4	5	140502701	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	155715	140502701	40412559	419	94572											
PCDHB8	56128	broad.mit.edu	37	chr5	140559234	140559234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcttcagaccgcggctcccCggctttgagcagcgaggcgc	5	6	14	16	6	1	2	1	1	0	1	2	3	2	2	3	3	2	4	3	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140559234C>T	uc011dai.1	+	1	1805	c.1619C>T	c.(1618-1620)CCG>CTG	p.P540L	PCDHB16_uc003liv.2_5'Flank|PCDHB16_uc010jfw.1_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	540	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCGGCTCCCCGGCTTTGAGC	0.672													35	140					0	0	1	0	0		T	140559234	T	T	140559234	3	4	190	1	0	0	0	0	1	0	0	0	11567	652	23	1	1621	1	PCDHB8	5	140559234	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	56533	140559234	40356026	420	94573											
PCDHB9	56127	broad.mit.edu	37	chr5	140567405	140567405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacagtatccaaaactacacGatcagctccaactctttttt	14	12	3	12	1	2	0	1	0	1	0	4	1	4	0	2	0	5	2	2	0	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140567405G>A	uc003liw.1	+	1	513	c.513G>A	c.(511-513)ACG>ACA	p.T171T		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	171	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAAACTACACGATCAGCTCCA	0.408													72	127					0	0	1	0	0		A	140567405	A	A	140567405	2	1	190	1	0	0	0	0	0	0	0	1	11568	1045	37	1		1	PCDHB9	5	140567405	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	8171	140567405	40347855	421	94574											
PCDHB12	56124	broad.mit.edu	37	chr5	140589805	140589805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacataaccgtgctggtctcCgacgtcaatgacaacgcccc	11	7	8	15	4	2	1	1	1	1	0	3	2	2	1	4	1	4	1	4	1	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140589805C>T	uc003liz.2	+	1	1515	c.1326C>T	c.(1324-1326)TCC>TCT	p.S442S	PCDHB12_uc011dak.1_Silent_p.S105S	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	442	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGCTGGTCTCCGACGTCAATG	0.597													52	68					0	0	1	0	0		T	140589805	T	T	140589805	2	4	190	1	0	0	0	0	0	0	0	1	11556	639	23	1		1	PCDHB12	5	140589805	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	22400	140589805	40325455	422	94575											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712070	140712070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacgcctggctgtcctacCgcctgctcaaggccagcgag	8	6	12	15	3	1	1	1	0	0	1	2	2	2	1	5	2	4	2	5	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140712070C>T	uc003lji.1	+	1	1819	c.1819C>T	c.(1819-1821)CGC>TGC	p.R607C	PCDHGA1_uc011dan.1_Missense_Mutation_p.R607C	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	607	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGTCCTACCGCCTGCTCAA	0.701													32	34					0	0	1	0	0		T	140712070	T	T	140712070	3	4	190	1	0	0	0	0	1	0	0	0	11569	652	23	1	1821	1	PCDHGA1	5	140712070	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	122265	140712070	40203190	423	94576											
PCDHGA5	56110	broad.mit.edu	37	chr5	140743963	140743963	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccttcatgctcctggggacGctgtgcgagccaggatccgg	5	8	14	14	3	1	0	1	0	0	0	3	3	3	2	4	4	3	2	4	4	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140743963G>A	uc003lju.1	+	1	66	c.66G>A	c.(64-66)ACG>ACA	p.T22T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Silent_p.T22T	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	22					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCTGGGGACGCTGTGCGAGC	0.617													15	19					0	0	1	0	0		A	140743963	A	A	140743963	2	1	190	1	0	0	0	0	0	0	0	1	11576	1074	38	1		1	PCDHGA5	5	140743963	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	31893	140743963	40171297	424	94577											
PCDHGA5	56110	broad.mit.edu	37	chr5	140745966	140745966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccctgaggatctggacctcaCactctatcttgtggtggcag	7	11	11	12	0	4	1	1	1	3	0	4	3	4	3	2	4	0	1	2	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140745966C>T	uc003lju.1	+	1	2069	c.2069C>T	c.(2068-2070)ACA>ATA	p.T690I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.T690I	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	690	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGACCTCACACTCTATCTT	0.597													148	251					0	0	1	0	0		T	140745966	T	T	140745966	3	4	190	1	0	0	0	0	1	0	0	0	11576	478	17	4	2071	4	PCDHGA5	5	140745966	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2003	140745966	40169294	425	94578											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763024	140763024	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggctgtgcaaagtggagaCgatgaaactaagtacccgga	13	7	13	8	2	0	2	0	1	0	1	0	5	0	3	1	3	3	3	1	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140763024C>T	uc003lka.1	+	1	558	c.558C>T	c.(556-558)GAC>GAT	p.D186D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Silent_p.D186D	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	186	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGTGGAGACGATGAAACTA	0.612													14	16					0	0	1	0	0		T	140763024	T	T	140763024	2	4	190	1	0	0	0	0	0	0	0	1	11578	535	19	1		1	PCDHGA7	5	140763024	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	17058	140763024	40152236	426	94579											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763850	140763850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctactcagtctacatcGctgagaacaaccccagaggg	12	7	8	14	1	2	2	1	1	1	2	4	3	3	2	3	1	4	1	3	1	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140763850G>A	uc003lka.1	+	1	1384	c.1384G>A	c.(1384-1386)GCT>ACT	p.A462T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.A462T	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	462	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCTACATCGCTGAGAACAA	0.522													29	33					0	0	1	0	0		A	140763850	A	A	140763850	3	1	190	1	0	0	0	0	1	0	0	0	11578	1087	38	1	1386	1	PCDHGA7	5	140763850	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	826	140763850	40151410	427	94580											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779486	140779486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcagactcaggacacaacGcctggctgtcctaccacgtg	10	6	10	15	3	1	1	1	0	0	1	2	2	2	2	3	2	2	2	3	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140779486G>A	uc003lkf.1	+	1	1792	c.1792G>A	c.(1792-1794)GCC>ACC	p.A598T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.A598T	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	598	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGACACAACGCCTGGCTGTC	0.677													17	28					0	0	1	0	0		A	140779486	A	A	140779486	3	1	190	1	0	0	0	0	1	0	0	0	11585	1087	38	1	1794	1	PCDHGB5	5	140779486	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	15636	140779486	40135774	428	94581											
PCDHGB7	56099	broad.mit.edu	37	chr5	140797738	140797738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagagaagaagatgtgagttGcaattggaagctgtggtgga	13	9	17	2	0	0	4	0	1	0	3	0	8	0	6	0	3	2	3	0	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:140797738G>T	uc003lkn.1	+	1	457	c.312G>T	c.(310-312)TTG>TTT	p.L104F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Missense_Mutation_p.L104F|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	104	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GATGTGAGTTGCAATTGGAAG	0.443													7	127					0.00307968	0.00311093	1	1	0		T	140797738	T	T	140797738	3	4	190	1	0	0	0	0	1	0	0	0	11587	1310	46	5	314	5	PCDHGB7	5	140797738	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	18252	140797738	40117522	429	94582											
FBXO38	81545	broad.mit.edu	37	chr5	147782052	147782052	+	Frame_Shift_Del	DEL	A	-	-																															tgaaaattcctataggagccAaaattcaaactttacattta																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:147782052delA	uc003lpf.1	+	5	688	c.568delA	c.(568-570)AAAfs	p.K190fs	FBXO38_uc003lpg.1_Frame_Shift_Del_p.K190fs|FBXO38_uc003lph.2_Frame_Shift_Del_p.K190fs	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	190						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATAGGAGCCAAAATTCAAAC	0.333													36	48	---	---	---	---						.	-	147782052	-	-	147782052	7	5	190	1	0	1	0	1	0	0	0	0	5760	131	5	0	582	0	FBXO38	5	147782052	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	6984314	147782052	33133208	430	94583											
SH3TC2	79628	broad.mit.edu	37	chr5	148407373	148407373	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctaggctcaggagcaagCggatggccagaaagcaggcc	11	3	16	11	1	1	1	1	0	0	1	1	3	1	3	3	6	3	3	3	6	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:148407373C>T	uc003lpu.2	-	11	2074	c.1922G>A	c.(1921-1923)CGC>CAC	p.R641H	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_Missense_Mutation_p.R285H|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_Missense_Mutation_p.R188H|SH3TC2_uc010jgx.2_Missense_Mutation_p.R634H|SH3TC2_uc003lpv.1_Missense_Mutation_p.R188H|SH3TC2_uc011dbz.1_Missense_Mutation_p.R526H	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	641							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGGAGCAAGCGGATGGCCAG	0.667													24	19					0	0	1	0	0		T	148407373	T	T	148407373	3	4	190	1	0	0	0	0	1	0	0	0	14287	768	27	1	1972	1	SH3TC2	5	148407373	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	625321	148407373	32507887	431	94584											
FAT2	2196	broad.mit.edu	37	chr5	150905459	150905459	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcgaaacgagtagggggggCcattctctggagaatctggg	9	9	16	7	2	2	1	0	0	2	1	4	4	2	1	1	5	1	1	1	5	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:150905459C>G	uc003lue.3	-	17	10389	c.10376G>C	c.(10375-10377)GGC>GCC	p.G3459A	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.G152A	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3459	Extracellular (Potential).|Cadherin 31.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTAGGGGGGGCCATTCTCTGG	0.577													15	26					0	0	1	0	0		G	150905459	G	G	150905459	3	3	190	1	0	0	0	0	1	0	0	0	5704	739	26	5	2701	5	FAT2	5	150905459	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2498086	150905459	30009801	432	94585											
NIPAL4	348938	broad.mit.edu	37	chr5	156899809	156899809	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagacctggacatcagctgCgccagcttgccccacatgca	11	6	9	15	1	1	1	1	0	0	1	1	2	1	2	4	1	5	3	4	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:156899809C>T	uc003lwx.3	+	6	1358	c.1242C>T	c.(1240-1242)TGC>TGT	p.C414C	ADAM19_uc003lww.1_Intron|NIPAL4_uc011ddq.1_Silent_p.C395C	NM_001099287	NP_001092757	Q0D2K0	NIPA4_HUMAN	ichthyin protein	414	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						ACATCAGCTGCGCCAGCTTGC	0.542													19	28					0	0	1	0	0		T	156899809	T	T	156899809	2	4	190	1	0	0	0	0	0	0	0	1	10446	776	27	1		1	NIPAL4	5	156899809	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5994350	156899809	24015451	433	94586											
TLX3	30012	broad.mit.edu	37	chr5	170736618	170736618	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgaacctgagcctagcGcccgcaggcgtgatccgggt	7	7	15	12	4	0	3	0	3	0	0	1	3	1	3	4	2	3	1	4	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:170736618G>A	uc003mbf.2	+	1	331	c.249G>A	c.(247-249)GCG>GCA	p.A83A	uc003mbe.1_5'Flank	NM_021025	NP_066305	O43711	TLX3_HUMAN	T-cell leukemia homeobox 3	83						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			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)			TGAGCCTAGCGCCCGCAGGCG	0.741			T	BCL11B	T-ALL								6	7					0	0	1	0	0		A	170736618	A	A	170736618	2	1	190	1	0	0	0	0	0	0	0	1	15987	1074	38	1		1	TLX3	5	170736618	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	13836809	170736618	10178642	434	94587											
RNF44	22838	broad.mit.edu	37	chr5	175957911	175957911	+	Frame_Shift_Del	DEL	G	-	-																															gggcgccatgtgggtgggctGggggggtggggccggtggtg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:175957911delG	uc003mek.1	-	5	1102	c.577delC	c.(577-579)CAGfs	p.Q193fs	RNF44_uc011dfo.1_Frame_Shift_Del_p.Q101fs|RNF44_uc003mel.1_5'Flank	NM_014901	NP_055716	Q7L0R7	RNF44_HUMAN	ring finger protein 44	193	Pro-rich.						zinc ion binding				0	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)			TGGGTGGGCTGGGGGGGTGGG	0.667													3	6	---	---	---	---						.	-	175957911	-	-	175957911	7	5	190	1	0	1	0	1	0	0	0	0	13521	1357	47	0	749	0	RNF44	5	175957911	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	5221293	175957911	4957349	435	94588											
LMAN2	10960	broad.mit.edu	37	chr5	176759221	176759221	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgtcaggggcccgctgcggaAgttccccgtggggtcgtcca	4	7	16	14	5	1	0	1	0	0	0	4	1	3	1	4	5	1	2	4	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:176759221A>C	uc003mge.2	-	8	1174	c.937T>G	c.(937-939)TTC>GTC	p.F313V	LMAN2_uc003mgd.2_Silent_p.T320T	NM_006816	NP_006807	Q12907	LMAN2_HUMAN	lectin, mannose-binding 2 precursor	313	Lumenal (Potential).				protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	metal ion binding|sugar binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCGCTGCGGAAGTTCCCCGTG	0.697													6	17					0	0	1	0	0		C	176759221	C	C	176759221	3	2	190	1	0	0	0	0	1	0	0	0	8855	72	3	5	137	5	LMAN2	5	176759221	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	801310	176759221	4156039	436	94589											
DBN1	1627	broad.mit.edu	37	chr5	176886118	176886118	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccttgggctggtgggggtggCggtggcagtggtggaggctg	2	9	24	6	1	0	0	0	0	0	0	0	1	0	1	1	10	0	3	1	10	0	1	rs139033012		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:176886118C>T	uc003mgy.2	-	11	1279	c.1107G>A	c.(1105-1107)CCG>CCA	p.P369P	DBN1_uc011dga.1_Silent_p.P101P|DBN1_uc003mgx.2_Silent_p.P371P|DBN1_uc010jkn.1_Silent_p.P319P|DBN1_uc003mgz.1_Silent_p.P352P	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	369					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	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)			GTGGGGGTGGCGGTGGCAGTG	0.662													25	23					0	0	1	0	0		T	176886118	T	T	176886118	2	4	190	1	0	0	0	0	0	0	0	1	4255	755	27	1		1	DBN1	5	176886118	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	126897	176886118	4029142	437	94590											
TBC1D9B	23061	broad.mit.edu	37	chr5	179315143	179315143	+	Missense_Mutation	SNP	A	G	G	1	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	cactggctttcctgctcccgAtactgcctggctgcttggat	4	13	10	14	1	0	0	0	0	0	0	2	2	2	1	3	3	4	4	3	3	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:179315143A>G	uc003mlh.2	-	7	1251	c.1214T>C	c.(1213-1215)ATC>ACC	p.I405T	TBC1D9B_uc003mli.2_Missense_Mutation_p.I405T|TBC1D9B_uc003mlj.2_Missense_Mutation_p.I405T	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	405						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCTGCTCCCGATACTGCCTGG	0.547													56	99					0	0	1	0	0		G	179315143	G	G	179315143	3	3	190	1	0	0	0	0	1	0	0	0	15653	333	12	3	2602	3	TBC1D9B	5	179315143	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2429025	179315143	1600117	438	94591											
MGAT1	4245	broad.mit.edu	37	chr5	180219454	180219454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaacttgcggtggtccggcGgcaccgcaatgctgctcagg	6	7	16	12	4	1	0	1	0	0	0	2	1	2	1	2	6	4	4	2	6	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr5:180219454G>A	uc003mmg.3	-	2	1013	c.518C>T	c.(517-519)CCG>CTG	p.P173L	MGAT1_uc010jlf.2_Missense_Mutation_p.P173L|MGAT1_uc010jlg.2_Missense_Mutation_p.P173L|MGAT1_uc003mmh.3_Missense_Mutation_p.P173L|MGAT1_uc010jlh.2_Missense_Mutation_p.P173L|MGAT1_uc003mmi.3_Missense_Mutation_p.P173L	NM_002406	NP_002397	P26572	MGAT1_HUMAN	mannosyl (alpha-1,3-)-glycoprotein	173	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(1)	1	all_cancers(89;1.11e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.0027)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00356)|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)			GTGGTCCGGCGGCACCGCAAT	0.701													47	49					0	0	1	0	0		A	180219454	A	A	180219454	3	1	190	1	0	0	0	0	1	0	0	0	9560	1116	39	1	823	1	MGAT1	5	180219454	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	904311	180219454	695806	439	94592											
NQO2	4835	broad.mit.edu	37	chr6	3017128	3017128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccttgcagggtaaactagCgctcctttccgtaaccacgg	8	10	9	14	3	0	0	0	0	0	0	3	0	3	0	4	2	4	4	4	2	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:3017128C>T	uc003mus.2	+	6	766	c.428C>T	c.(427-429)GCG>GTG	p.A143V	NQO2_uc003mut.2_Missense_Mutation_p.A143V	NM_000904	NP_000895	P16083	NQO2_HUMAN	NAD(P)H dehydrogenase, quinone 2	143						cytoplasm|nucleus	coenzyme binding|dihydronicotinamide riboside quinone reductase activity|electron carrier activity|metal ion binding|NADPH dehydrogenase (quinone) activity			ovary(1)	1	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Menadione(DB00170)|NADH(DB00157)	GGTAAACTAGCGCTCCTTTCC	0.547													18	22					0	0	1	0	0		T	3017128	T	T	3017128	3	4	190	1	0	0	0	0	1	0	0	0	10631	768	27	1	446	1	NQO2	6	3017128	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		3017128	168097939	440	94593											
BPHL	670	broad.mit.edu	37	chr6	3137678	3137678	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgactactttgccagaacCtgtgaaaagtgggtggatgg	11	11	13	6	0	0	3	0	2	0	1	0	4	0	4	2	3	3	0	2	3	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:3137678C>A	uc003mva.2	+	5	664	c.615C>A	c.(613-615)ACC>ACA	p.T205T	BPHL_uc003muz.2_Intron|BPHL_uc011dht.1_Intron|BPHL_uc003muy.2_Silent_p.T188T	NM_004332	NP_004323	Q86WA6	BPHL_HUMAN	biphenyl hydrolase-like precursor	205					cellular amino acid metabolic process|response to toxin	mitochondrion	hydrolase activity				0	Ovarian(93;0.0386)	all_hematologic(90;0.108)				TTGCCAGAACCTGTGAAAAGT	0.468													61	78					6.60958e-23	7.14562e-23	1	1	0		A	3137678	A	A	3137678	2	1	190	1	0	0	0	0	0	0	0	1	1492	668	24	5		5	BPHL	6	3137678	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	120550	3137678	167977389	441	94594											
NRN1	51299	broad.mit.edu	37	chr6	5999288	5999288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggagcagggaccccgccGccccgttgccgctgccgcag	4	3	15	19	6	0	0	0	0	0	0	0	2	0	2	8	2	3	4	8	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:5999288G>A	uc003mwu.2	-	3	1001	c.350C>T	c.(349-351)GCG>GTG	p.A117V	NRN1_uc003mwt.2_Missense_Mutation_p.A143V	NM_016588	NP_057672	Q9NPD7	NRN1_HUMAN	neuritin precursor	117						anchored to membrane|plasma membrane					0	Ovarian(93;0.0816)	all_hematologic(90;0.151)		OV - Ovarian serous cystadenocarcinoma(45;0.00415)		GGACCCCGCCGCCCCGTTGCC	0.602													20	7					0	0	1	0	0		A	5999288	A	A	5999288	3	1	190	1	0	0	0	0	1	0	0	0	10677	1087	38	1	82	1	NRN1	6	5999288	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2861610	5999288	165115779	442	94595											
NEDD9	4739	broad.mit.edu	37	chr6	11191156	11191156	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctcgggggacatcatatgCgtcgttctgagagcccactg	7	9	13	12	3	2	1	1	1	1	1	4	3	2	2	2	2	2	1	2	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:11191156C>T	uc003mzv.2	-	5	1113	c.946G>A	c.(946-948)GCA>ACA	p.A316T	NEDD9_uc010joz.2_Missense_Mutation_p.A316T|NEDD9_uc003mzw.3_Missense_Mutation_p.A170T	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	316					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			ACATCATATGCGTCGTTCTGA	0.572													37	63					0	0	1	0	0		T	11191156	T	T	11191156	3	4	190	1	0	0	0	0	1	0	0	0	10332	768	27	1	1570	1	NEDD9	6	11191156	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5191868	11191156	159923911	443	94596											
PHACTR1	221692	broad.mit.edu	37	chr6	13160486	13160486	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagagaagagctgataaagCgaggagtcctgaaggaaatc	16	5	14	6	1	0	4	0	2	0	2	2	8	1	6	1	2	2	2	1	2	5	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:13160486C>T	uc010jpc.2	+	6	798	c.466C>T	c.(466-468)CGA>TGA	p.R156*	PHACTR1_uc011dir.1_Nonsense_Mutation_p.R156*|PHACTR1_uc003nag.1_Nonsense_Mutation_p.R156*|PHACTR1_uc003nah.1_Nonsense_Mutation_p.R156*	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	156	RPEL 1.					cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			GCTGATAAAGCGAGGAGTCCT	0.443													45	64					0	0	1	0	0		T	13160486	T	T	13160486	4	4	190	1	0	0	0	0	0	1	0	0	11828	760	27	1	480	1	PHACTR1	6	13160486	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1969330	13160486	157954581	444	94597											
RANBP9	10048	broad.mit.edu	37	chr6	13644899	13644899	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaaacacgaaaggatgttgCccaaaattggcatcgaccac	15	7	8	11	2	1	0	1	0	0	0	2	3	1	1	2	2	2	2	2	2	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:13644899C>T	uc003nbb.2	-	6	1049	c.990G>A	c.(988-990)GGG>GGA	p.G330G	RANBP9_uc003nba.2_5'UTR	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	330	B30.2/SPRY.				axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			AAGGATGTTGCCCAAAATTGG	0.418													46	72					0	0	1	0	0		T	13644899	T	T	13644899	2	4	190	1	0	0	0	0	0	0	0	1	13057	726	26	2		2	RANBP9	6	13644899	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	484413	13644899	157470168	445	94598											
ATXN1	6310	broad.mit.edu	37	chr6	16327924	16327924	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgatgctgatgctgctgCtgctgctgctgctgctgctg	2	14	14	11	0	0	2	0	2	0	0	0	2	0	2	0	0	11	11	0	0	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:16327924C>A	uc003nbt.2	-	8	1589	c.618G>T	c.(616-618)CAG>CAT	p.Q206H	ATXN1_uc010jpi.2_Missense_Mutation_p.Q206H|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	206	Poly-Gln.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				gatgctgctgctgctgctgct	0.373													4	13					5.9392e-07	6.12377e-07	1	1	0		A	16327924	A	A	16327924	3	1	190	1	0	0	0	0	1	0	0	0	1210	796	28	5	1837	5	ATXN1	6	16327924	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2683025	16327924	154787143	446	94599											
FAM65B	9750	broad.mit.edu	37	chr6	24843662	24843662	+	Missense_Mutation	SNP	A	G	G	1	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	atttgttgagttggaaggggAgcctgttgagtgggaggtga	8	12	19	2	0	0	3	0	3	0	0	0	6	0	6	1	5	1	3	1	5	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:24843662A>G	uc003neo.1	-	14	1524	c.1348T>C	c.(1348-1350)TCC>CCC	p.S450P	FAM65B_uc011djs.1_Missense_Mutation_p.S429P|FAM65B_uc011dju.1_Missense_Mutation_p.S434P|FAM65B_uc003nep.2_Missense_Mutation_p.S400P|FAM65B_uc011djt.1_Missense_Mutation_p.S400P	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	450					cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						TTGGAAGGGGAGCCTGTTGAG	0.547													12	46					0	0	1	0	0		G	24843662	G	G	24843662	3	3	190	1	0	0	0	0	1	0	0	0	5614	304	11	3	1908	3	FAM65B	6	24843662	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	8515738	24843662	146271405	447	94600											
LRRC16A	55604	broad.mit.edu	37	chr6	25581667	25581667	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaacccacccaagcagcGgtaggtggactgcaggagag	12	3	14	12	1	0	1	0	0	0	1	0	3	0	2	2	4	5	4	2	4	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:25581667G>A	uc011djw.1	+	31	3382	c.3006G>A	c.(3004-3006)GCG>GCA	p.A1002A	LRRC16A_uc010jpx.2_Silent_p.A1002A|LRRC16A_uc010jpy.2_Silent_p.A1002A	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A	1002	Inhibits capping activity of CAPZA2 (By similarity).				actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						CCCAAGCAGCGGTAGGTGGAC	0.498													7	6					0	0	1	0	0		A	25581667	A	A	25581667	2	1	190	1	0	0	0	0	0	0	0	1	8989	1130	39	1		1	LRRC16A	6	25581667	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	738005	25581667	145533400	448	94601											
HIST1H3F	8968	broad.mit.edu	37	chr6	26250607	26250607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcggtcttgaagtcctgcGcgatctcacgtaccagacgc	7	9	12	13	5	2	2	1	1	2	1	5	3	3	2	2	2	2	1	2	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:26250607G>A	uc003nhg.1	-	1	229	c.227C>T	c.(226-228)GCG>GTG	p.A76V	HIST1H2BH_uc003nhh.2_5'Flank	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	76					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0						GAAGTCCTGCGCGATCTCACG	0.592											OREG0017241	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	58	80					0	0	1	0	0		A	26250607	A	A	26250607	3	1	190	1	0	0	0	0	1	0	0	0	7176	1087	38	1	187	1	HIST1H3F	6	26250607	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	668940	26250607	144864460	449	94602											
ZNF322A	79692	broad.mit.edu	37	chr6	26637632	26637632	+	Missense_Mutation	SNP	T	C	C	0	1	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	aagctcaagacctttttcacTcacattacagacaaacggtt	14	11	5	11	1	3	2	3	0	0	2	3	2	3	2	1	1	3	2	1	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:26637632T>C	uc003nil.3	-	4	1779	c.1150A>G	c.(1150-1152)AGT>GGT	p.S384G	ZNF322A_uc003nij.2_5'Flank	NM_024639	NP_078915	Q6U7Q0	Z322A_HUMAN	zinc finger protein 322A	384					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0						CCTTTTTCACTCACATTACAG	0.403													78	174					0	0	1	0	0		C	26637632	C	C	26637632	3	2	190	1	0	0	0	0	1	0	0	0	17866	1551	54	3	62	3	ZNF322A	6	26637632	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	387025	26637632	144477435	450	94603											
HIST1H1B	3009	broad.mit.edu	37	chr6	27834647	27834647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctacttctttttggcagccgCcttcttggcctttgcagctt	3	17	8	13	1	2	0	0	0	2	0	2	0	2	0	3	2	4	3	3	2	1	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:27834647C>T	uc003njx.2	-	1	713	c.661G>A	c.(661-663)GCG>ACG	p.A221T		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	221					nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						TTGGCAGCCGCCTTCTTGGCC	0.532													4	13					0	0	1	0	0		T	27834647	T	T	27834647	3	4	190	1	0	0	0	0	1	0	0	0	7139	739	26	2	23	2	HIST1H1B	6	27834647	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1197015	27834647	143280420	451	94604											
TRIM27	5987	broad.mit.edu	37	chr6	28872085	28872085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccaagaaaatccccaccCgctggagcggggtccgcagg	10	4	13	14	3	0	1	0	0	0	1	3	2	3	2	5	4	1	2	5	4	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:28872085C>T	uc003nlr.2	-	8	1663	c.1304G>A	c.(1303-1305)CGG>CAG	p.R435Q	TRIM27_uc003nls.2_Intron|TRIM27_uc003nlt.1_3'UTR	NM_006510	NP_006501	P14373	TRI27_HUMAN	ret finger protein	435	B30.2/SPRY.				cell proliferation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|protein trimerization|spermatogenesis|transcription, DNA-dependent	cytoplasm|integral to plasma membrane|membrane fraction|nuclear membrane|PML body	DNA binding|protein binding|transmembrane receptor protein tyrosine kinase activity|zinc ion binding			ovary(1)	1						AATCCCCACCCGCTGGAGCGG	0.532			T	RET	papillary thyroid								60	64					0	0	1	0	0		T	28872085	T	T	28872085	3	4	190	1	0	0	0	0	1	0	0	0	16527	652	23	1	241	1	TRIM27	6	28872085	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1037438	28872085	142242982	452	94605											
OR2J3	442186	broad.mit.edu	37	chr6	29080104	29080104	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcaccctcgtttctgccaccTgctggctgtggcttcttggg	2	13	12	14	1	2	0	0	0	2	0	3	0	2	0	3	3	2	5	3	3	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:29080104T>C	uc011dll.1	+	1	437	c.437T>C	c.(436-438)CTG>CCG	p.L146P		NM_001005216	NP_001005216	O76001	OR2J3_HUMAN	olfactory receptor, family 2, subfamily J,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTCTGCCACCTGCTGGCTGTG	0.512													117	191					0	0	1	0	0		C	29080104	C	C	29080104	3	2	190	1	0	0	0	0	1	0	0	0	11023	1580	55	3	439	3	OR2J3	6	29080104	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	208019	29080104	142034963	453	94606											
OR12D2	26529	broad.mit.edu	37	chr6	29365367	29365367	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggaacaaggaagtgaaGggggccttgggtagagtgat	12	8	18	3	0	0	4	0	3	0	1	0	6	0	6	1	5	1	1	1	5	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:29365367G>T	uc003nmf.3	+	1	952	c.891G>T	c.(889-891)AAG>AAT	p.K297N		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGGAAGTGAAGGGGGCCTTGG	0.433													10	105					7.48243e-07	7.70432e-07	1	1	0		T	29365367	T	T	29365367	3	4	190	1	0	0	0	0	1	0	0	0	10950	991	35	5	893	5	OR12D2	6	29365367	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	285263	29365367	141749700	454	94607											
PPP1R11	6992	broad.mit.edu	37	chr6	30036995	30036995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgtggccaccgcaaaggacGgcgtcgtgcaaccctaggac	10	4	13	14	5	0	0	0	0	0	0	1	2	0	2	3	4	2	2	3	4	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:30036995G>A	uc003npb.2	+	3	549	c.293G>A	c.(292-294)CGG>CAG	p.R98Q	PPP1R11_uc010jrw.2_RNA|PPP1R11_uc003npc.2_RNA	NM_021959	NP_068778	O60927	PP1RB_HUMAN	protein phosphatase 1, regulatory (inhibitor)	98						soluble fraction	protein binding|protein phosphatase inhibitor activity			ovary(1)|lung(1)|skin(1)	3						CGCAAAGGACGGCGTCGTGCA	0.622													31	43					0	0	1	0	0		A	30036995	A	A	30036995	3	1	190	1	0	0	0	0	1	0	0	0	12375	1116	39	1	303	1	PPP1R11	6	30036995	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	671628	30036995	141078072	455	94608											
C6orf134	79969	broad.mit.edu	37	chr6	30608312	30608312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgccgcttccttcctcacagGgccccctgctccctctctga	3	10	7	21	2	2	1	1	1	1	0	6	1	5	1	6	1	1	2	6	1	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:30608312G>A	uc003nqu.2	+	8	634	c.584G>A	c.(583-585)CGG>CAG	p.R195Q	C6orf134_uc003nqr.3_Missense_Mutation_p.R195Q|C6orf134_uc003rdc.2_Missense_Mutation_p.R195Q|C6orf134_uc003nqs.3_Intron|C6orf134_uc003rdd.2_Intron|C6orf134_uc003nqt.2_RNA|C6orf134_uc011dmm.1_Intron|C6orf134_uc003nqv.2_Missense_Mutation_p.R183Q	NM_024909	NP_079185	Q5SQI0	ATAT_HUMAN	hypothetical protein LOC79969 isoform 2	195							tubulin N-acetyltransferase activity				0						TTCCTCACAGGGCCCCCTGCT	0.607													16	35					0	0	1	0	0		A	30608312	A	A	30608312	3	1	190	1	0	0	0	0	1	0	0	0	2333	1246	43	4	614	4	C6orf134	6	30608312	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	571317	30608312	140506755	456	94609											
BAT2	7916	broad.mit.edu	37	chr6	31595599	31595599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagatgaggatgaggcatggCggcagcgacgaaagcagtcg	13	4	17	7	4	0	3	0	2	0	1	1	6	0	4	0	4	2	3	0	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:31595599C>T	uc003nvb.3	+	12	1597	c.1348C>T	c.(1348-1350)CGG>TGG	p.R450W	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.R450W	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	450	4 X 57 AA type A repeats.|2 X type B repeats.					cytoplasm|nucleus	protein binding				0						TGAGGCATGGCGGCAGCGACG	0.627													26	37					0	0	1	0	0		T	31595599	T	T	31595599	3	4	190	1	0	0	0	0	1	0	0	0	1320	759	27	1	1390	1	BAT2	6	31595599	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	987287	31595599	139519468	457	94610											
RDBP	7936	broad.mit.edu	37	chr6	31924611	31924611	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatgacaggctgctctgaTagtgctggagagacaagggg	10	8	15	8	0	1	3	0	2	1	1	2	5	2	4	1	4	2	3	1	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:31924611T>C	uc003nyk.2	-	4	354	c.150A>G	c.(148-150)CTA>CTG	p.L50L	RDBP_uc011dot.1_Silent_p.L50L|RDBP_uc003nyl.1_5'UTR|RDBP_uc003nym.1_Silent_p.L50L|SKIV2L_uc003nyn.1_5'Flank|SKIV2L_uc011dou.1_5'Flank|SKIV2L_uc011dov.1_5'Flank	NM_002904	NP_002895	P18615	NELFE_HUMAN	RD RNA-binding protein	50					positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	mitochondrion|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GCTGCTCTGATAGTGCTGGAG	0.547													56	76					0	0	1	0	0		C	31924611	C	C	31924611	2	2	190	1	0	0	0	0	0	0	0	1	13213	1393	49	3		3	RDBP	6	31924611	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	329012	31924611	139190456	458	94611											
TNXB	7148	broad.mit.edu	37	chr6	31977521	31977521	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagccgcccccatcagtctCcatgtcccaaaacacgttca	10	7	5	19	2	3	0	2	0	1	0	5	0	4	0	6	0	2	1	6	0	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:31977521C>A	uc011dpc.1	-	12	2383	c.1474G>T	c.(1474-1476)GAG>TAG	p.E492*		NM_032470	NP_115859	P22105	TENX_HUMAN	tenascin XB isoform 2	4108	Fibrinogen C-terminal.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCATCAGTCTCCATGTCCCAA	0.667													4	43					0.014758	0.0148675	1	1	0		A	31977521	A	A	31977521	4	1	190	1	0	0	0	0	0	1	0	0	16371	864	30	5	567	5	TNXB	6	31977521	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	52910	31977521	139137546	459	94612											
TNXB	7148	broad.mit.edu	37	chr6	32024489	32024489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctcgtgccccggcacccGcaccgccttgggctgcccat	3	7	11	20	4	0	0	0	0	0	0	2	0	1	0	7	2	2	3	7	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:32024489G>A	uc003nzl.2	-	23	8219	c.8017C>T	c.(8017-8019)CGG>TGG	p.R2673W		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2733	Fibronectin type-III 19.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CCCGGCACCCGCACCGCCTTG	0.642													21	30					0	0	1	0	0		A	32024489	A	A	32024489	3	1	190	1	0	0	0	0	1	0	0	0	16371	1086	38	1	6784	1	TNXB	6	32024489	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	46968	32024489	139090578	460	94613											
B3GALT4	8705	broad.mit.edu	37	chr6	33245893	33245893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acttgggccgggtgcactggCgcgtgaacccctctcggaca	6	7	14	14	4	1	1	0	1	1	0	2	2	1	2	3	4	2	1	3	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:33245893C>T	uc003odr.2	+	1	977	c.697C>T	c.(697-699)CGC>TGC	p.R233C		NM_003782	NP_003773	O96024	B3GT4_HUMAN	UDP-Gal:betaGlcNAc beta	233	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	ganglioside galactosyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)|breast(1)	2						GGTGCACTGGCGCGTGAACCC	0.652													37	57					0	0	1	0	0		T	33245893	T	T	33245893	3	4	190	1	0	0	0	0	1	0	0	0	1250	768	27	1	699	1	B3GALT4	6	33245893	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1221404	33245893	137869174	461	94614											
C6orf1	221491	broad.mit.edu	37	chr6	34214308	34214308	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gggctagagaaagcaaaggtGtctaccagccgcccccatcc	11	5	11	14	1	1	1	0	0	1	1	2	2	2	1	5	2	3	2	5	2	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:34214308G>A	uc003ojf.2	-	5	1055	c.463C>T	c.(463-465)CAC>TAC	p.H155Y	uc003oje.1_5'Flank|C6orf1_uc003ojg.2_Missense_Mutation_p.H155Y|C6orf1_uc003ojh.2_Missense_Mutation_p.H155Y|C6orf1_uc003oji.2_RNA	NM_178508	NP_848603	Q86T20	CF001_HUMAN	hypothetical protein LOC221491 precursor	155						extracellular region					0		Ovarian(999;0.0228)		BRCA - Breast invasive adenocarcinoma(397;1.11e-10)		AAGCAAAGGTGTCTACCAGCC	0.587													18	35					0	0	1	0	0		A	34214308	A	A	34214308	3	1	190	1	0	0	0	0	1	0	0	0	2319	1377	48	4	20	4	C6orf1	6	34214308	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	968415	34214308	136900759	462	94615											
PPARD	5467	broad.mit.edu	37	chr6	35392251	35392251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccacagtggagaccgtgcGggagctcactgagttcgcca	9	6	13	13	3	1	2	1	1	0	1	2	4	1	3	3	2	2	2	3	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:35392251G>A	uc003okm.2	+	7	1082	c.773G>A	c.(772-774)CGG>CAG	p.R258Q	PPARD_uc003okl.2_Missense_Mutation_p.R258Q|PPARD_uc003okn.2_Missense_Mutation_p.R258Q|PPARD_uc011dtb.1_Missense_Mutation_p.R219Q|PPARD_uc011dtc.1_Missense_Mutation_p.R160Q	NM_006238	NP_006229	Q03181	PPARD_HUMAN	peroxisome proliferative activated receptor,	258	Ligand-binding.				apoptosis|axon ensheathment|cholesterol metabolic process|decidualization|embryo implantation|fatty acid beta-oxidation|fatty acid transport|generation of precursor metabolites and energy|glucose metabolic process|glucose transport|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fat cell differentiation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|linoleic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)	1					Icosapent(DB00159)|Sulindac(DB00605)|Treprostinil(DB00374)	GAGACCGTGCGGGAGCTCACT	0.592													13	26					0	0	1	0	0		A	35392251	A	A	35392251	3	1	190	1	0	0	0	0	1	0	0	0	12317	1116	39	1	808	1	PPARD	6	35392251	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1177943	35392251	135722816	463	94616											
CPNE5	57699	broad.mit.edu	37	chr6	36733117	36733117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgcctgcttacctgccGtcccgatcccagtcgtacac	5	10	7	19	3	0	0	0	0	0	0	4	1	3	0	6	0	5	2	6	0	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:36733117G>A	uc003omr.1	-	11	841	c.774C>T	c.(772-774)GAC>GAT	p.D258D	CPNE5_uc003oms.1_Silent_p.D237D	NM_020939	NP_065990	Q9HCH3	CPNE5_HUMAN	copine V	258	C2 2.									skin(1)	1						CTTACCTGCCGTCCCGATCCC	0.657													11	29					0	0	1	0	0		A	36733117	A	A	36733117	2	1	190	1	0	0	0	0	0	0	0	1	3818	1136	40	1		1	CPNE5	6	36733117	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1340866	36733117	134381950	464	94617											
BTBD9	114781	broad.mit.edu	37	chr6	38562036	38562036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagcattgtgaatgcttctgCagtggtgtcttggagaggaa	9	13	14	5	0	2	2	0	1	2	1	2	4	2	3	0	3	3	3	0	3	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:38562036C>T	uc003ooa.3	-	4	829	c.253G>A	c.(253-255)GCA>ACA	p.A85T	BTBD9_uc003ony.3_Missense_Mutation_p.A17T|BTBD9_uc010jwv.2_Missense_Mutation_p.A17T|BTBD9_uc010jww.2_RNA|BTBD9_uc010jwx.2_Missense_Mutation_p.A85T	NM_052893	NP_443125	Q96Q07	BTBD9_HUMAN	BTB (POZ) domain containing 9 isoform a	85	BTB.				cell adhesion						0						AATGCTTCTGCAGTGGTGTCT	0.478													77	81					0	0	1	0	0		T	38562036	T	T	38562036	3	4	190	1	0	0	0	0	1	0	0	0	1551	710	25	2	1712	2	BTBD9	6	38562036	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1828919	38562036	132553031	465	94618											
DNAH8	1769	broad.mit.edu	37	chr6	38754702	38754702	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctaaaattggaaagtaaaTtgaaagcagacaaactgtat	19	10	8	4	0	0	2	0	1	0	1	0	3	0	3	0	1	3	4	0	1	8	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:38754702T>A	uc003ooe.1	+	16	2506	c.1906T>A	c.(1906-1908)TTG>ATG	p.L636M		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGAAAGTAAATTGAAAGCAGA	0.274													34	32					0	0	1	0	0		A	38754702	A	A	38754702	3	1	190	1	0	0	0	0	1	0	0	0	4613	1490	52	5	1960	5	DNAH8	6	38754702	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	192666	38754702	132360365	466	94619											
KIF6	221458	broad.mit.edu	37	chr6	39507819	39507819	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggatcttttccccaaaatGctgaagtcctgggcctgtga	8	12	10	11	0	1	2	0	2	1	0	3	3	3	3	4	2	1	1	4	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:39507819G>A	uc003oot.2	-	13	1700	c.1605C>T	c.(1603-1605)AGC>AGT	p.S535S	KIF6_uc010jwz.1_5'UTR|KIF6_uc010jxa.1_Silent_p.S326S|KIF6_uc011dua.1_Silent_p.S535S|KIF6_uc010jxb.1_Intron	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	535					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						TCCCCAAAATGCTGAAGTCCT	0.468													91	109					0	0	1	0	0		A	39507819	A	A	39507819	2	1	190	1	0	0	0	0	0	0	0	1	8324	1310	46	2		2	KIF6	6	39507819	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	753117	39507819	131607248	467	94620											
TDRD6	221400	broad.mit.edu	37	chr6	46661723	46661723	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaatcttttgatgaccagcGcaggatgtcattgcatctac	11	12	9	9	1	3	3	1	2	2	1	3	4	3	4	1	1	3	2	1	1	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:46661723G>A	uc003oyj.2	+	1	5858	c.5858G>A	c.(5857-5859)CGC>CAC	p.R1953H	TDRD6_uc010jze.2_Missense_Mutation_p.R1947H	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1953					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			GATGACCAGCGCAGGATGTCA	0.378													56	79					0	0	1	0	0		A	46661723	A	A	46661723	3	1	190	1	0	0	0	0	1	0	0	0	15759	1087	38	1	5860	1	TDRD6	6	46661723	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7153904	46661723	124453344	468	94621											
GPR115	221393	broad.mit.edu	37	chr6	47682279	47682279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggtcccgggtggttgtgaCggagatatcatacatgcgtc	7	11	15	8	3	1	2	1	1	0	1	3	3	2	2	1	4	2	1	1	4	2	3	rs146828294	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:47682279C>T	uc003oza.1	+	6	1556	c.1298C>T	c.(1297-1299)ACG>ATG	p.T433M	GPR115_uc003oyz.1_Missense_Mutation_p.T490M|GPR115_uc003ozb.1_Missense_Mutation_p.T431M	NM_153838	NP_722580	Q8IZF3	GP115_HUMAN	G-protein coupled receptor 115 precursor	433	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8						GTGGTTGTGACGGAGATATCA	0.478													67	85					0	0	1	0	0		T	47682279	T	T	47682279	3	4	190	1	0	0	0	0	1	0	0	0	6647	536	19	1	1316	1	GPR115	6	47682279	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1020556	47682279	123432788	469	94622											
C6orf138	442213	broad.mit.edu	37	chr6	47846834	47846835	+	Frame_Shift_Ins	INS	-	T	T																															gaaaatgctggaattctggcINSttttttaaaaatgagctttg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:47846834_47846835insT	uc011dwm.1	-	3	1779_1780	c.1694_1695insA	c.(1693-1695)AAGfs	p.K565fs	C6orf138_uc011dwn.1_Frame_Shift_Ins_p.K329fs	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	582						integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						GGAATTCTGGCTTTTTTAAAAA	0.441													21	27	---	---	---	---						.	T	47846835	T	T	47846834	7	5	190	1	0	1	1	0	0	0	0	0	2335	796	28	0	798	0	C6orf138	6	47846834	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	164555	47846834	123268233	470	94623											
TFAP2D	83741	broad.mit.edu	37	chr6	50682856	50682856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacggatcaaacagctacCgtttgatgcagcttggctgt	10	10	11	10	3	1	1	1	1	0	0	1	3	1	2	1	2	5	5	1	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:50682856C>T	uc003paf.2	+	2	579	c.67C>T	c.(67-69)CGT>TGT	p.R23C	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	23							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					AAACAGCTACCGTTTGATGCA	0.517													22	46					0	0	1	0	0		T	50682856	T	T	50682856	3	4	190	1	0	0	0	0	1	0	0	0	15815	652	23	1	73	1	TFAP2D	6	50682856	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2836022	50682856	120432211	471	94624											
PKHD1	5314	broad.mit.edu	37	chr6	51524188	51524188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagttagtctttcgagtattActatttcccagcctttttct	7	20	5	9	1	2	0	0	0	2	0	4	1	3	0	2	0	2	2	2	0	5	9			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:51524188A>G	uc003pah.1	-	61	11012	c.10736T>C	c.(10735-10737)GTA>GCA	p.V3579A		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3579	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTCGAGTATTACTATTTCCCA	0.438													5	66					0	0	1	0	0		G	51524188	G	G	51524188	3	3	190	1	0	0	0	0	1	0	0	0	11990	391	14	3	1516	3	PKHD1	6	51524188	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	841332	51524188	119590879	472	94625											
GCLC	2729	broad.mit.edu	37	chr6	53387264	53387264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtttcaagaactttctccCcagacaggaccaaccggact	12	8	8	13	1	2	2	1	0	1	2	3	5	2	4	4	2	2	1	4	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:53387264C>A	uc003pbw.1	-	2	600	c.212G>T	c.(211-213)GGG>GTG	p.G71V	GCLC_uc003pbx.2_Missense_Mutation_p.G71V	NM_001498	NP_001489	P48506	GSH1_HUMAN	glutamate-cysteine ligase, catalytic subunit	71					anti-apoptosis|cell redox homeostasis|cysteine metabolic process|glutamate metabolic process|glutathione biosynthetic process|negative regulation of transcription, DNA-dependent|regulation of blood vessel size|response to heat|response to hormone stimulus|response to oxidative stress|xenobiotic metabolic process	cytosol	ADP binding|ATP binding|coenzyme binding|glutamate binding|glutamate-cysteine ligase activity|magnesium ion binding			ovary(1)|central_nervous_system(1)	2	Lung NSC(77;0.0137)				L-Cysteine(DB00151)|L-Glutamic Acid(DB00142)	AACTTTCTCCCCAGACAGGAC	0.373													5	92					0.184627	0.184999	1	1	0		A	53387264	A	A	53387264	3	1	190	1	0	0	0	0	1	0	0	0	6310	623	22	5	1761	5	GCLC	6	53387264	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1863076	53387264	117727803	473	94626											
ZNF451	26036	broad.mit.edu	37	chr6	57012447	57012447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacacatgagccggattcacGgaggggcacatttaaataac	14	8	10	9	2	1	1	1	1	0	0	1	3	1	3	1	4	3	1	1	4	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:57012447G>A	uc003pdm.1	+	10	1788	c.1564G>A	c.(1564-1566)GGA>AGA	p.G522R	ZNF451_uc003pdl.2_Missense_Mutation_p.G522R|ZNF451_uc003pdn.1_Missense_Mutation_p.G522R|uc003pdq.1_Intron|ZNF451_uc003pdk.1_Missense_Mutation_p.G522R	NM_001031623	NP_001026794	Q9Y4E5	ZN451_HUMAN	zinc finger protein 451 isoform 1	522					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|pancreas(1)	2	Lung NSC(77;0.145)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			CCGGATTCACGGAGGGGCACA	0.403													124	139					0	0	1	0	0		A	57012447	A	A	57012447	3	1	190	1	0	0	0	0	1	0	0	0	17947	1117	39	1	1602	1	ZNF451	6	57012447	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3625183	57012447	114102620	474	94627											
COL9A1	1297	broad.mit.edu	37	chr6	70990735	70990735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggggggcccttaggacctCggtcaccctggaggggtagg	5	6	18	12	2	1	0	1	0	0	0	2	2	1	2	4	9	0	1	4	9	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:70990735C>T	uc003pfg.3	-	9	1043	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	COL9A1_uc003pfe.3_5'Flank|COL9A1_uc003pff.3_Missense_Mutation_p.R52Q	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	295	Triple-helical region (COL3).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						CTTAGGACCTCGGTCACCCTG	0.572													11	30					0	0	1	0	0		T	70990735	T	T	70990735	3	4	190	1	0	0	0	0	1	0	0	0	3710	884	31	1	2001	1	COL9A1	6	70990735	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	13978288	70990735	100124332	475	94628											
FAM135A	57579	broad.mit.edu	37	chr6	71248027	71248027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagaaatggaaaaaatcagGttcgcttttgcagctgacat	14	10	10	7	1	1	2	1	1	0	1	2	3	1	3	0	2	2	5	0	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:71248027G>A	uc003pfj.2	+	18	4284	c.4151G>A	c.(4150-4152)GGT>GAT	p.G1384D	FAM135A_uc003pfi.2_Missense_Mutation_p.G1188D|FAM135A_uc003pfh.2_Missense_Mutation_p.G1171D|FAM135A_uc003pfl.2_Missense_Mutation_p.G1051D|FAM135A_uc003pfn.2_Missense_Mutation_p.G590D|FAM135A_uc003pfo.1_Missense_Mutation_p.G755D|FAM135A_uc010kan.1_Intron	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	1384										central_nervous_system(1)	1						AAAAAATCAGGTTCGCTTTTG	0.328													14	34					0	0	1	0	0		A	71248027	A	A	71248027	3	1	190	1	0	0	0	0	1	0	0	0	5459	1261	44	4	4299	4	FAM135A	6	71248027	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	257292	71248027	99867040	476	94629											
KHDC1	80759	broad.mit.edu	37	chr6	73952206	73952206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgaggcagggtccaccacGgcttcttgctgagagcactc	7	10	12	12	1	1	2	0	2	1	1	3	3	2	2	2	3	2	4	2	3	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:73952206G>A	uc003pgo.2	-	3	755	c.254C>T	c.(253-255)CCG>CTG	p.P85L	KHDC1_uc011dyl.1_RNA|KHDC1_uc003pgn.3_Missense_Mutation_p.P12L	NM_030568	NP_085045	Q4VXA5	KHDC1_HUMAN	KH homology domain containing 1	85						integral to membrane	RNA binding			skin(1)	1						GGTCCACCACGGCTTCTTGCT	0.532													33	50					0	0	1	0	0		A	73952206	A	A	73952206	3	1	190	1	0	0	0	0	1	0	0	0	8160	1116	39	1	471	1	KHDC1	6	73952206	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2704179	73952206	97162861	477	94630											
COL12A1	1303	broad.mit.edu	37	chr6	75853032	75853032	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgcacttttccaggcacaGgttcccaaaagacattcata	13	10	6	12	1	1	1	1	0	0	1	3	1	3	1	2	2	1	3	2	2	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:75853032G>T	uc003phs.2	-	26	4929	c.4763C>A	c.(4762-4764)CCT>CAT	p.P1588H	COL12A1_uc003pht.2_Missense_Mutation_p.P424H	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1588	Fibronectin type-III 11.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TCCAGGCACAGGTTCCCAAAA	0.398													21	66					1.87028e-06	1.92177e-06	1	1	0		T	75853032	T	T	75853032	3	4	190	1	0	0	0	0	1	0	0	0	3672	1000	35	5	4592	5	COL12A1	6	75853032	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1900826	75853032	95262035	478	94631											
COL12A1	1303	broad.mit.edu	37	chr6	75861886	75861886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tttgtacggcaagtttgccaCagcttgcaacaagctcttct	9	13	8	11	1	2	0	0	0	2	0	2	0	2	0	1	1	6	6	1	1	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:75861886C>T	uc003phs.2	-	19	3962	c.3796G>A	c.(3796-3798)GTG>ATG	p.V1266M	COL12A1_uc003pht.2_Missense_Mutation_p.V102M	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1266	VWFA 3.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						AAGTTTGCCACAGCTTGCAAC	0.473													30	54					0	0	1	0	0		T	75861886	T	T	75861886	3	4	190	1	0	0	0	0	1	0	0	0	3672	478	17	4	5587	4	COL12A1	6	75861886	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	8854	75861886	95253181	479	94632											
HTR1B	3351	broad.mit.edu	37	chr6	78172719	78172719	+	Silent	SNP	A	G	G	1	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	cagaggtgcaggatggaggcAgtgcaacaagtgatgtccga	12	6	16	7	1	0	2	0	1	0	1	1	5	1	4	1	4	3	3	1	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:78172719A>G	uc003pil.1	-	1	402	c.402T>C	c.(400-402)ACT>ACC	p.T134T		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	134	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	GGATGGAGGCAGTGCAACAAG	0.612													25	34					0	0	1	0	0		G	78172719	G	G	78172719	2	3	190	1	0	0	0	0	0	0	0	1	7453	175	7	3		3	HTR1B	6	78172719	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2310833	78172719	92942348	480	94633											
TTK	7272	broad.mit.edu	37	chr6	80720598	80720598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcagtaccactagaaatGctggaaattgccctgcggaa	13	7	12	9	1	0	1	0	0	0	1	0	4	0	4	2	3	5	3	2	3	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:80720598G>A	uc003pjc.2	+	5	611	c.537G>A	c.(535-537)ATG>ATA	p.M179I	TTK_uc003pjb.3_Missense_Mutation_p.M179I	NM_003318	NP_003309	P33981	TTK_HUMAN	TTK protein kinase	179					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(4)|stomach(2)|lung(2)|large_intestine(2)|pancreas(1)	11		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		CACTAGAAATGCTGGAAATTG	0.348													9	80					0	0	1	0	0		A	80720598	A	A	80720598	3	1	190	1	0	0	0	0	1	0	0	0	16746	1319	46	2	551	2	TTK	6	80720598	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2547879	80720598	90394469	481	94634											
PRSS35	167681	broad.mit.edu	37	chr6	84233649	84233649	+	Silent	SNP	T	C	C	0	1	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	attctcatttcccctcagcaTgttctaactgctgcccactg	7	14	5	15	0	3	0	2	0	2	0	5	0	4	0	3	0	4	3	3	0	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:84233649T>C	uc003pjz.2	+	2	652	c.489T>C	c.(487-489)CAT>CAC	p.H163H	PRSS35_uc010kbm.2_Silent_p.H163H	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	163	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		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)		CCCCTCAGCATGTTCTAACTG	0.453													49	70					0	0	1	0	0		C	84233649	C	C	84233649	2	2	190	1	0	0	0	0	0	0	0	1	12646	1461	51	3		3	PRSS35	6	84233649	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3513051	84233649	86881418	482	94635											
CNR1	1268	broad.mit.edu	37	chr6	88853588	88853588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcaggctcacagagcctcgGcagacgtgtctgtggacaca	10	7	12	12	2	3	2	2	0	1	2	4	3	3	3	1	3	1	2	1	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:88853588G>A	uc011dzq.1	-	2	4969	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	CNR1_uc010kbz.2_Missense_Mutation_p.A469V|CNR1_uc011dzr.1_Missense_Mutation_p.A469V|CNR1_uc011dzs.1_Missense_Mutation_p.A469V|CNR1_uc003pmq.3_Missense_Mutation_p.A469V|CNR1_uc011dzt.1_Missense_Mutation_p.A469V|CNR1_uc010kca.2_Missense_Mutation_p.A436V	NM_001160260	NP_001153732	P21554	CNR1_HUMAN	cannabinoid receptor 1 isoform a	469	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger	integral to plasma membrane	cannabinoid receptor activity|protein binding			skin(2)	2		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.15)	Marinol(DB00470)|Nabilone(DB00486)|Rimonabant(DB06155)	CAGAGCCTCGGCAGACGTGTC	0.473													89	144					0	0	1	0	0		A	88853588	A	A	88853588	3	1	190	1	0	0	0	0	1	0	0	0	3634	1203	42	2	16	2	CNR1	6	88853588	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4619939	88853588	82261479	483	94636											
COQ3	51805	broad.mit.edu	37	chr6	99831610	99831610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcaaacaggaaaagatcGtcctgtaggatttgaaccat	14	11	9	7	1	1	2	1	1	0	1	3	4	2	4	2	2	2	2	2	2	5	3	rs149717575	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:99831610G>A	uc003ppk.2	-	2	224	c.197C>T	c.(196-198)ACG>ATG	p.T66M		NM_017421	NP_059117	Q9NZJ6	COQ3_HUMAN	hexaprenyldihydroxybenzoate methyltransferase	66					glycerol metabolic process|ubiquinone biosynthetic process	mitochondrial matrix	2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity|3-demethylubiquinone-9 3-O-methyltransferase activity|hexaprenyldihydroxybenzoate methyltransferase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;1.24e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.00716)|Colorectal(196;0.0691)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0625)		GGAAAAGATCGTCCTGTAGGA	0.338													62	70					0	0	1	0	0		A	99831610	A	A	99831610	3	1	190	1	0	0	0	0	1	0	0	0	3749	1145	40	1	936	1	COQ3	6	99831610	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10978022	99831610	71283457	484	94637											
LIN28B	389421	broad.mit.edu	37	chr6	105474236	105474236	+	Frame_Shift_Del	DEL	A	-	-																															aaccagtggaattcacatttAaaaaatcttccaaaggcctt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:105474236delA	uc003pqv.1	+	3	465	c.262delA	c.(262-264)AAAfs	p.K88fs	LIN28B_uc010kda.1_Frame_Shift_Del_p.K48fs	NM_001004317	NP_001004317	Q6ZN17	LN28B_HUMAN	lin-28 homolog B	88	CSD.				miRNA catabolic process|pre-miRNA processing|regulation of transcription, DNA-dependent|RNA 3'-end processing	cytoplasm|nucleus	DNA binding|protein binding|RNA binding|zinc ion binding				0		all_cancers(87;0.00346)|Acute lymphoblastic leukemia(125;2.26e-08)|all_hematologic(75;2.79e-06)|all_epithelial(87;0.204)				ATTCACATTTAAAAAATCTTC	0.438													63	99	---	---	---	---						.	-	105474236	-	-	105474236	7	5	190	1	0	1	0	1	0	0	0	0	8823	363	13	0	272	0	LIN28B	6	105474236	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	5642626	105474236	65640831	485	94638											
WASF1	8936	broad.mit.edu	37	chr6	110428390	110428390	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacttcagaccttctttacCatcatctctgaaatataaaa	16	13	2	10	0	4	2	2	1	2	1	5	2	4	2	2	0	2	0	2	0	6	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:110428390C>A	uc003ptv.1	-	7	1267	c.430G>T	c.(430-432)GGT>TGT	p.G144C	WASF1_uc003ptw.1_Missense_Mutation_p.G144C|WASF1_uc003ptx.1_Missense_Mutation_p.G144C|WASF1_uc003pty.1_Missense_Mutation_p.G144C|WASF1_uc003ptz.1_Missense_Mutation_p.G144C	NM_003931	NP_003922	Q92558	WASF1_HUMAN	Wiskott-Aldrich syndrome protein family member	144					actin filament polymerization|cellular component movement	actin cytoskeleton	actin binding				0		all_cancers(87;1.18e-05)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		OV - Ovarian serous cystadenocarcinoma(136;0.0364)|Epithelial(106;0.051)|all cancers(137;0.0687)		CCTTCTTTACCATCATCTCTG	0.294													14	37					1.5842e-08	1.65284e-08	1	1	0		A	110428390	A	A	110428390	3	1	190	1	0	0	0	0	1	0	0	0	17278	594	21	5	1269	5	WASF1	6	110428390	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4954154	110428390	60686677	486	94639											
REV3L	5980	broad.mit.edu	37	chr6	111696108	111696108	+	Frame_Shift_Del	DEL	A	-	-																															ttatatacattaggacccttAaaaagcattgcctctttttc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:111696108delA	uc003puy.3	-	13	3773	c.3450delT	c.(3448-3450)TTTfs	p.F1150fs	REV3L_uc003pux.3_Frame_Shift_Del_p.F1072fs|REV3L_uc003puz.3_Frame_Shift_Del_p.F1072fs	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1150					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TAGGACCCTTAAAAAGCATTG	0.418								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					83	131	---	---	---	---						.	-	111696108	-	-	111696108	7	5	190	1	0	1	0	1	0	0	0	0	13265	359	13	0	6022	0	REV3L	6	111696108	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	1267718	111696108	59418959	487	94640											
WISP3	8838	broad.mit.edu	37	chr6	112382213	112382213	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttctgctgcagggtacaggGcactggaccattagatacaa	11	9	12	9	0	1	1	0	0	1	1	1	2	1	2	1	3	4	5	1	3	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:112382213G>A	uc003pvm.2	+	3	178	c.68G>A	c.(67-69)GGC>GAC	p.G23D	WISP3_uc003pvn.2_RNA|WISP3_uc003pvo.2_Missense_Mutation_p.G41D	NM_003880	NP_003871	O95389	WISP3_HUMAN	WNT1 inducible signaling pathway protein 3	23					cell-cell signaling|regulation of cell growth|signal transduction	extracellular region|soluble fraction	growth factor activity|insulin-like growth factor binding				0		all_cancers(87;0.000196)|Acute lymphoblastic leukemia(125;1.18e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0283)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0827)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		AGGGTACAGGGCACTGGACCA	0.438													32	37					0	0	1	0	0		A	112382213	A	A	112382213	3	1	190	1	0	0	0	0	1	0	0	0	17400	1203	42	2	128	2	WISP3	6	112382213	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	686105	112382213	58732854	488	94641											
FRK	2444	broad.mit.edu	37	chr6	116325059	116325059	+	Frame_Shift_Del	DEL	T	-	-																															cctgaaagagagaattctccTttttggctttcactttctct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:116325059delT	uc003pwi.1	-	2	894	c.447delA	c.(445-447)AAAfs	p.K149fs		NM_002031	NP_002022	P42685	FRK_HUMAN	fyn-related kinase	149	SH2.				negative regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			ovary(3)|lung(3)	6		all_cancers(87;0.00559)|all_epithelial(87;0.00738)|Colorectal(196;0.0465)		all cancers(137;0.0128)|OV - Ovarian serous cystadenocarcinoma(136;0.0209)|GBM - Glioblastoma multiforme(226;0.0459)|Epithelial(106;0.0625)		AGAATTCTCCTTTTTGGCTTT	0.398													22	44	---	---	---	---						.	-	116325059	-	-	116325059	7	5	190	1	0	1	0	1	0	0	0	0	6062	1606	56	0	1098	0	FRK	6	116325059	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	3942846	116325059	54790008	489	94642											
DSE	29940	broad.mit.edu	37	chr6	116757924	116757924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagatactgtcccgagtcCggaacacagctagctttagg	11	8	11	11	2	0	1	0	0	0	1	2	3	2	2	2	2	5	3	2	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:116757924C>T	uc003pws.2	+	6	2487	c.2293C>T	c.(2293-2295)CGG>TGG	p.R765W	DSE_uc011ebg.1_Missense_Mutation_p.R784W|DSE_uc003pwt.2_Missense_Mutation_p.R765W|DSE_uc003pwu.2_Missense_Mutation_p.R432W	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	765					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		GTCCCGAGTCCGGAACACAGC	0.473													33	41					0	0	1	0	0		T	116757924	T	T	116757924	3	4	190	1	0	0	0	0	1	0	0	0	4780	643	23	1	2311	1	DSE	6	116757924	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	432865	116757924	54357143	490	94643											
THEMIS	387357	broad.mit.edu	37	chr6	128134599	128134599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcacagaggacttcagtcGtctctgactgatgcaccaga	10	9	9	13	1	3	4	2	2	1	2	5	5	3	5	2	1	1	1	2	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:128134599G>A	uc003qbi.2	-	5	1506	c.1187C>T	c.(1186-1188)ACG>ATG	p.T396M	THEMIS_uc010kfa.2_Missense_Mutation_p.T299M|THEMIS_uc011ebt.1_Missense_Mutation_p.T396M|THEMIS_uc010kfb.2_Missense_Mutation_p.T361M	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	396	CABIT 2.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GACTTCAGTCGTCTCTGACTG	0.493													33	39					0	0	1	0	0		A	128134599	A	A	128134599	3	1	190	1	0	0	0	0	1	0	0	0	15885	1145	40	1	871	1	THEMIS	6	128134599	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	11376675	128134599	42980468	491	94644											
THEMIS	387357	broad.mit.edu	37	chr6	128150884	128150884	+	Missense_Mutation	SNP	A	G	G	1	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	ttgctactgcacagctcaccAttatttctccatcaatctct	9	15	3	14	0	4	0	2	0	2	0	6	0	4	0	2	0	4	3	2	0	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:128150884A>G	uc003qbi.2	-	4	765	c.446T>C	c.(445-447)ATG>ACG	p.M149T	THEMIS_uc010kfa.2_Missense_Mutation_p.M52T|THEMIS_uc011ebt.1_Missense_Mutation_p.M149T|THEMIS_uc010kfb.2_Missense_Mutation_p.M114T	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	149	CABIT 1.				negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						ACAGCTCACCATTATTTCTCC	0.383													57	77					0	0	1	0	0		G	128150884	G	G	128150884	3	3	190	1	0	0	0	0	1	0	0	0	15885	217	8	3	1616	3	THEMIS	6	128150884	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	16285	128150884	42964183	492	94645											
SAMD3	154075	broad.mit.edu	37	chr6	130476087	130476087	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attctcttgtcaatttctctCcagtccttttctgttttcac	5	21	3	12	0	5	0	2	0	3	0	9	0	7	0	2	0	0	1	2	0	1	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:130476087C>A	uc003qbv.2	-	10	1232	c.906G>T	c.(904-906)TGG>TGT	p.W302C	SAMD3_uc003qbx.2_Missense_Mutation_p.W302C|SAMD3_uc003qbw.2_Missense_Mutation_p.W302C	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	302										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		CAATTTCTCTCCAGTCCTTTT	0.373													6	80					5.9392e-07	6.12377e-07	1	1	0		A	130476087	A	A	130476087	3	1	190	1	0	0	0	0	1	0	0	0	13845	856	30	5	672	5	SAMD3	6	130476087	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2325203	130476087	40638980	493	94646											
EPB41L2	2037	broad.mit.edu	37	chr6	131206333	131206333	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcaatgctgacaagtccaGgtccataggctgaaatctcc	11	8	10	12	1	1	2	0	2	1	0	4	2	3	2	3	3	1	3	3	3	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:131206333G>T	uc003qch.2	-	12	1918	c.1736C>A	c.(1735-1737)CCT>CAT	p.P579H	EPB41L2_uc003qce.1_5'Flank|EPB41L2_uc003qcf.1_5'Flank|EPB41L2_uc003qcg.1_Missense_Mutation_p.P579H|EPB41L2_uc011eby.1_Missense_Mutation_p.P579H|EPB41L2_uc003qci.2_Missense_Mutation_p.P579H|EPB41L2_uc010kfk.2_Missense_Mutation_p.P579H|EPB41L2_uc010kfl.1_Missense_Mutation_p.P579H	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	579	Hydrophilic.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		GACAAGTCCAGGTCCATAGGC	0.493											OREG0017660	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	54	85					5.57489e-27	6.05773e-27	1	1	0		T	131206333	T	T	131206333	3	4	190	1	0	0	0	0	1	0	0	0	5161	1000	35	5	1313	5	EPB41L2	6	131206333	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	730246	131206333	39908734	494	94647											
RPS12	6206	broad.mit.edu	37	chr6	133138636	133138636	+	Silent	SNP	T	C	C	0	1	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	aaggactatggcaaggagtcTcaggccaaggatgtcattga	13	8	13	7	0	2	1	2	1	1	0	3	4	2	4	1	5	0	1	1	5	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:133138636T>C	uc003qdx.2	+	6	436	c.354T>C	c.(352-354)TCT>TCC	p.S118S		NM_001016	NP_001007	P25398	RS12_HUMAN	ribosomal protein S12	118					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	structural constituent of ribosome				0	Breast(56;0.214)			OV - Ovarian serous cystadenocarcinoma(155;0.00284)|GBM - Glioblastoma multiforme(226;0.0256)		GCAAGGAGTCTCAGGCCAAGG	0.353													32	41					0	0	1	0	0		C	133138636	C	C	133138636	2	2	190	1	0	0	0	0	0	0	0	1	13647	1538	54	3		3	RPS12	6	133138636	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1932303	133138636	37976431	495	94648											
SLC2A12	154091	broad.mit.edu	37	chr6	134349584	134349584	+	Frame_Shift_Del	DEL	A	-	-																															tggctaaggacagccatttcAaaaaagctgggacgtcccca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:134349584delA	uc003qem.1	-	2	1550	c.1379delT	c.(1378-1380)TTGfs	p.L460fs		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	460	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		CAGCCATTTCAAAAAAGCTGG	0.433													35	62	---	---	---	---						.	-	134349584	-	-	134349584	7	5	190	1	0	1	0	1	0	0	0	0	14566	131	5	0	490	0	SLC2A12	6	134349584	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	1210948	134349584	36765483	496	94649											
SLC2A12	154091	broad.mit.edu	37	chr6	134350554	134350554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagacccctatggcaatgcGtcccactataagaaccgtgt	11	8	10	12	2	0	2	0	0	0	2	1	3	1	2	4	2	2	1	4	2	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:134350554G>A	uc003qem.1	-	2	580	c.409C>T	c.(409-411)CGC>TGC	p.R137C		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	137	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		ATGGCAATGCGTCCCACTATA	0.478													45	57					0	0	1	0	0		A	134350554	A	A	134350554	3	1	190	1	0	0	0	0	1	0	0	0	14566	1145	40	1	1460	1	SLC2A12	6	134350554	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	970	134350554	36764513	497	94650											
AIG1	51390	broad.mit.edu	37	chr6	143382143	143382143	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtaactacaaggccatCgaaatgccctcacaccagac	13	7	7	14	1	1	1	1	0	0	1	2	2	1	1	3	1	3	1	3	1	4	2	rs11556578		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:143382143C>A	uc003qjh.2	+	1	121	c.81C>A	c.(79-81)ATC>ATA	p.I27I	AIG1_uc003qjf.2_Silent_p.I17I|AIG1_uc003qji.2_Silent_p.I17I|AIG1_uc011edw.1_Silent_p.I27I|AIG1_uc003qjg.2_Silent_p.I27I	NM_016108	NP_057192	Q9NVV5	AIG1_HUMAN	androgen-induced 1	27						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)		ACAAGGCCATCGAAATGCCCT	0.592													34	56					9.17885e-22	9.90175e-22	1	1	0		A	143382143	A	A	143382143	2	1	190	1	0	0	0	0	0	0	0	1	429	874	31	5		5	AIG1	6	143382143	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	9031589	143382143	27732924	498	94651											
UTRN	7402	broad.mit.edu	37	chr6	144724272	144724272	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccacagatgaacacaatgaCgtacagaagaaaacctttac	18	7	6	10	1	0	5	0	2	0	3	1	5	1	5	2	0	4	1	2	0	7	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:144724272C>T	uc003qkt.2	+	2	185	c.93C>T	c.(91-93)GAC>GAT	p.D31D	UTRN_uc010khq.1_Silent_p.D31D	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	31	CH 1.|Actin-binding.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AACACAATGACGTACAGAAGA	0.368													7	20					0	0	1	0	0		T	144724272	T	T	144724272	2	4	190	1	0	0	0	0	0	0	0	1	17129	535	19	1		1	UTRN	6	144724272	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1342129	144724272	26390795	499	94652											
UTRN	7402	broad.mit.edu	37	chr6	144801065	144801065	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggaagaatatttggagcggGattttgagtacaagtcacca	14	10	12	5	1	1	2	1	1	0	1	1	5	1	5	1	3	2	1	1	3	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:144801065G>T	uc003qkt.2	+	25	3546	c.3454G>T	c.(3454-3456)GAT>TAT	p.D1152Y	UTRN_uc010khq.1_Missense_Mutation_p.D1152Y	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1152	Spectrin 8.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TTTGGAGCGGGATTTTGAGTA	0.512													34	54					3.03874e-20	3.26626e-20	1	1	0		T	144801065	T	T	144801065	3	4	190	1	0	0	0	0	1	0	0	0	17129	1174	41	5	3552	5	UTRN	6	144801065	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	76793	144801065	26314002	500	94653											
UTRN	7402	broad.mit.edu	37	chr6	144811233	144811233	+	Silent	SNP	T	C	C	0	1	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	caagcagagatctcagcccaTgagctaaccctagaggagtt	13	7	10	11	0	1	3	1	1	1	2	2	5	1	4	2	1	4	3	2	1	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:144811233T>C	uc003qkt.2	+	30	4253	c.4161T>C	c.(4159-4161)CAT>CAC	p.H1387H		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1387	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCTCAGCCCATGAGCTAACCC	0.433													51	68					0	0	1	0	0		C	144811233	C	C	144811233	2	2	190	1	0	0	0	0	0	0	0	1	17129	1461	51	3		3	UTRN	6	144811233	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	10168	144811233	26303834	501	94654											
GRM1	2911	broad.mit.edu	37	chr6	146673400	146673400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttacaggcaatgaaagcttaGaagaaaactatgtccaggac	17	8	9	7	0	0	3	0	1	0	2	1	4	1	4	1	2	3	2	1	2	8	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:146673400G>A	uc010khw.1	+	5	1671	c.1201G>A	c.(1201-1203)GAA>AAA	p.E401K	GRM1_uc010khv.1_Missense_Mutation_p.E401K|GRM1_uc003qll.2_Missense_Mutation_p.E401K|GRM1_uc011edz.1_Missense_Mutation_p.E401K|GRM1_uc011eea.1_Missense_Mutation_p.E401K	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	401	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TGAAAGCTTAGAAGAAAACTA	0.443													42	48					0	0	1	0	0		A	146673400	A	A	146673400	3	1	190	1	0	0	0	0	1	0	0	0	6812	943	33	4	1215	4	GRM1	6	146673400	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1862167	146673400	24441667	502	94655											
GRM1	2911	broad.mit.edu	37	chr6	146720020	146720020	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtcaccctaatctttgtActgtaccgggacacaccagt	9	13	7	12	1	2	0	1	0	1	0	2	1	2	1	3	1	2	2	3	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:146720020A>G	uc010khw.1	+	8	2315	c.1845A>G	c.(1843-1845)GTA>GTG	p.V615V	GRM1_uc010khv.1_Silent_p.V615V|GRM1_uc003qll.2_Silent_p.V615V|GRM1_uc011edz.1_Silent_p.V615V|GRM1_uc011eea.1_Silent_p.V615V	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	615	Helical; Name=1; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	TAATCTTTGTACTGTACCGGG	0.488													89	116					0	0	1	0	0		G	146720020	G	G	146720020	2	3	190	1	0	0	0	0	0	0	0	1	6812	378	14	3		3	GRM1	6	146720020	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	46620	146720020	24395047	503	94656											
TAB2	23118	broad.mit.edu	37	chr6	149719193	149719193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaaattgatctttttcaagCccgaggtaaagttcagtgta	13	13	9	6	1	3	2	2	1	1	1	3	3	3	2	1	1	1	3	1	1	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:149719193C>T	uc003qmj.2	+	5	2031	c.1853C>T	c.(1852-1854)GCC>GTC	p.A618V	TAB2_uc011eec.1_Missense_Mutation_p.A586V|TAB2_uc003qmk.3_RNA|SUMO4_uc003qml.2_5'Flank	NM_015093	NP_055908	Q9NYJ8	TAB2_HUMAN	mitogen-activated protein kinase kinase kinase 7	618	Potential.				activation of MAPK activity|heart development|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	K63-linked polyubiquitin binding|zinc ion binding				0						CTTTTTCAAGCCCGAGGTAAA	0.343													9	20					0	0	1	0	0		T	149719193	T	T	149719193	3	4	190	1	0	0	0	0	1	0	0	0	15521	739	26	2	1867	2	TAB2	6	149719193	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2999173	149719193	21395874	504	94657											
LATS1	9113	broad.mit.edu	37	chr6	150023018	150023018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaatggaagcagagagtttCgaatttcctgcaaggcttta	13	11	10	7	1	0	1	0	0	0	1	2	4	1	2	1	2	2	4	1	2	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:150023018C>T	uc003qmu.1	-	2	793	c.245G>A	c.(244-246)CGA>CAA	p.R82Q	LATS1_uc010kif.1_5'UTR|LATS1_uc003qmv.1_Missense_Mutation_p.R82Q|LATS1_uc003qmw.2_Missense_Mutation_p.R82Q|LATS1_uc010kig.1_5'UTR	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	82					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CAGAGAGTTTCGAATTTCCTG	0.408													85	90					0	0	1	0	0		T	150023018	T	T	150023018	3	4	190	1	0	0	0	0	1	0	0	0	8662	884	31	1	3175	1	LATS1	6	150023018	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	303825	150023018	21092049	505	94658											
SYNE1	23345	broad.mit.edu	37	chr6	152772296	152772296	+	Silent	SNP	A	G	G	1	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	aacctattcttctccacatcAatcttcagatgaagcaaatg	14	12	4	11	0	5	2	2	1	3	1	6	2	5	2	2	0	2	1	2	0	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:152772296A>G	uc010kiw.2	-	26	3674	c.3072T>C	c.(3070-3072)ATT>ATC	p.I1024I	SYNE1_uc003qot.3_Silent_p.I1031I|SYNE1_uc003qou.3_Silent_p.I1024I|SYNE1_uc010kjb.1_Silent_p.I1007I|SYNE1_uc003qow.2_Silent_p.I319I|SYNE1_uc003qox.1_Silent_p.I540I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1024	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TCTCCACATCAATCTTCAGAT	0.413										HNSCC(10;0.0054)			46	42					0	0	1	0	0		G	152772296	G	G	152772296	2	3	190	1	0	0	0	0	0	0	0	1	15470	126	5	3		3	SYNE1	6	152772296	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2749278	152772296	18342771	506	94659											
TIAM2	26230	broad.mit.edu	37	chr6	155451055	155451055	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccctctcccacggactCtcgcctgcggtccagcaaag	6	7	9	19	4	2	0	0	0	2	0	6	1	3	1	5	2	2	1	5	2	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:155451055C>A	uc003qqb.2	+	6	1971	c.698C>A	c.(697-699)TCT>TAT	p.S233Y	TIAM2_uc003qqe.2_Missense_Mutation_p.S233Y	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	233					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CCCACGGACTCTCGCCTGCGG	0.637													6	58					0.00116845	0.0011827	1	1	0		A	155451055	A	A	155451055	3	1	190	1	0	0	0	0	1	0	0	0	15916	913	32	5	700	5	TIAM2	6	155451055	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2678759	155451055	15664012	507	94660											
TIAM2	26230	broad.mit.edu	37	chr6	155458397	155458397	+	Silent	SNP	T	C	C	0	1	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	cagggatcctcccaggcatcTgcttttctgtggtcaggggg	5	11	14	11	0	3	0	1	0	2	0	5	1	5	1	2	5	1	2	2	5	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:155458397T>C	uc003qqb.2	+	7	2554	c.1281T>C	c.(1279-1281)TCT>TCC	p.S427S	TIAM2_uc003qqe.2_Silent_p.S427S|TIAM2_uc010kjj.2_5'UTR	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	427					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CCCAGGCATCTGCTTTTCTGT	0.527													32	54					0	0	1	0	0		C	155458397	C	C	155458397	2	2	190	1	0	0	0	0	0	0	0	1	15916	1567	55	3		3	TIAM2	6	155458397	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	7342	155458397	15656670	508	94661											
NOX3	50508	broad.mit.edu	37	chr6	155757642	155757643	+	Frame_Shift_Ins	INS	-	AG	AG																															tacagaaggtgatgttgtgcINSagagagagactgtcttgggt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:155757642_155757643insAG	uc003qqm.2	-	7	810_811	c.707_708insCT	c.(706-708)CTGfs	p.L236fs		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	236	Extracellular (Potential).|Ferric oxidoreductase.						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		TGATGTTGTGCAGAGAGAGACT	0.446													39	69	---	---	---	---						.	AG	155757643	AG	AG	155757642	7	5	190	1	0	1	1	0	0	0	0	0	10576	697	25	0	1026	0	NOX3	6	155757642	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	299245	155757642	15357425	509	94662											
SYNJ2	8871	broad.mit.edu	37	chr6	158449919	158449919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaggccaaggaggaggaaCgcctcatagctttgaagaaa	16	5	13	7	1	1	3	1	1	0	2	1	6	1	6	2	4	2	1	2	4	6	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:158449919C>T	uc003qqx.1	+	3	421	c.346C>T	c.(346-348)CGC>TGC	p.R116C	SYNJ2_uc011efm.1_RNA|SYNJ2_uc003qqw.1_Missense_Mutation_p.R116C|SYNJ2_uc003qqy.1_Translation_Start_Site|SYNJ2_uc011efn.1_Missense_Mutation_p.R65C|SYNJ2_uc010kjo.1_Missense_Mutation_p.R65C	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	116							nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		GGAGGAGGAACGCCTCATAGC	0.507													33	43					0	0	1	0	0		T	158449919	T	T	158449919	3	4	190	1	0	0	0	0	1	0	0	0	15478	536	19	1	356	1	SYNJ2	6	158449919	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2692277	158449919	12665148	510	94663											
TULP4	56995	broad.mit.edu	37	chr6	158924493	158924493	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcatccatggagttcctaCagcgcctgcccgcccatgca	7	9	9	16	2	0	0	0	0	0	0	2	1	2	1	5	1	5	3	5	1	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:158924493C>T	uc003qrf.2	+	13	5155	c.3798C>T	c.(3796-3798)TAC>TAT	p.Y1266Y	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1266					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GGAGTTCCTACAGCGCCTGCC	0.632													45	68					0	0	1	0	0		T	158924493	T	T	158924493	2	4	190	1	0	0	0	0	0	0	0	1	16802	489	17	4		4	TULP4	6	158924493	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	474574	158924493	12190574	511	94664											
IGF2R	3482	broad.mit.edu	37	chr6	160468904	160468904	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctggaatgcgtagtgacCgacccctccacgctggagca	8	6	11	16	3	0	1	0	1	0	0	1	4	1	3	6	2	2	3	6	2	2	1	rs145047577		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:160468904C>T	uc003qta.2	+	17	2458	c.2310C>T	c.(2308-2310)ACC>ACT	p.T770T		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	770	5.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GCGTAGTGACCGACCCCTCCA	0.582													12	45					0	0	1	0	0		T	160468904	T	T	160468904	2	4	190	1	0	0	0	0	0	0	0	1	7592	639	23	1		1	IGF2R	6	160468904	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1544411	160468904	10646163	512	94665											
SLC22A1	6580	broad.mit.edu	37	chr6	160557309	160557309	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagaaacactgaagcaatAaagataatggaccacatcgc	21	5	7	8	1	0	3	0	1	0	2	1	4	0	4	1	1	2	1	1	1	8	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:160557309A>G	uc003qtc.2	+	5	1002	c.897A>G	c.(895-897)ATA>ATG	p.I299M	SLC22A1_uc003qtd.2_Missense_Mutation_p.I299M	NM_003057	NP_003048	O15245	S22A1_HUMAN	solute carrier family 22 member 1 isoform a	299	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane|membrane fraction	organic cation transmembrane transporter activity|protein binding				0		Breast(66;0.000776)|Ovarian(120;0.00556)		OV - Ovarian serous cystadenocarcinoma(65;2.73e-17)|BRCA - Breast invasive adenocarcinoma(81;1.1e-06)		CTGAAGCAATAAAGATAATGG	0.473													29	42					0	0	1	0	0		G	160557309	G	G	160557309	3	3	190	1	0	0	0	0	1	0	0	0	14465	352	13	3	915	3	SLC22A1	6	160557309	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	88405	160557309	10557758	513	94666											
LPA	4018	broad.mit.edu	37	chr6	161032593	161032593	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtaaagaacaaagacataCgcatttgggtagtattctgg	14	11	11	5	1	1	2	0	0	1	2	1	2	1	2	0	3	2	4	0	3	7	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:161032593C>T	uc003qtl.2	-	17	2723	c.2603_splice	c.e17+1	p.A868_splice		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor						blood circulation|lipid metabolic process|lipid transport|lipoprotein metabolic process|proteolysis|receptor-mediated endocytosis	plasma lipoprotein particle	apolipoprotein binding|endopeptidase inhibitor activity|fibronectin binding|heparin binding|serine-type endopeptidase activity			ovary(3)|skin(2)|pancreas(1)	6		Breast(66;0.000496)|Ovarian(120;0.0303)|Prostate(117;0.0965)		OV - Ovarian serous cystadenocarcinoma(65;2.5e-17)|BRCA - Breast invasive adenocarcinoma(81;6.48e-06)	Aminocaproic Acid(DB00513)	CAAAGACATACGCATTTGGGT	0.463													149	239					0	0	1	0	0		T	161032593	T	T	161032593	5	4	190	1	0	0	0	0	0	0	1	0	8921	550	19	1	3614	1	LPA	6	161032593	Splice_Site	SNP	C	TCGA-F1-6177-01A-11D-1800-08	475284	161032593	10082474	514	94667											
PLG	5340	broad.mit.edu	37	chr6	161139414	161139414	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtggctgttaccgtgtcCgggcacacctgtcagcactg	7	10	12	12	2	1	0	1	0	0	0	2	0	2	0	3	2	2	4	3	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:161139414C>T	uc003qtm.3	+	8	939	c.876C>T	c.(874-876)TCC>TCT	p.S292S		NM_000301	NP_000292	P00747	PLMN_HUMAN	plasminogen	292	Kringle 3.				extracellular matrix disassembly|fibrinolysis|negative regulation of cell proliferation|negative regulation of cell-substrate adhesion|negative regulation of fibrinolysis|platelet activation|platelet degranulation|positive regulation of fibrinolysis|proteolysis|tissue remodeling	extracellular space|extrinsic to external side of plasma membrane|platelet alpha granule lumen	apolipoprotein binding|cell surface binding|serine-type endopeptidase activity			skin(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(65;5.24e-17)|BRCA - Breast invasive adenocarcinoma(81;7.08e-06)	Aminocaproic Acid(DB00513)|Streptokinase(DB00086)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	TTACCGTGTCCGGGCACACCT	0.547													47	83					0	0	1	0	0		T	161139414	T	T	161139414	2	4	190	1	0	0	0	0	0	0	0	1	12105	639	23	1		1	PLG	6	161139414	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	106821	161139414	9975653	515	94668											
PARK2	5071	broad.mit.edu	37	chr6	162394359	162394359	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtctgtgcacgtaatgcaagTgatgttccgactatttgttg	8	15	11	7	2	1	1	0	1	1	0	2	2	2	1	1	0	2	5	1	0	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:162394359T>C	uc003qtx.3	-	6	843	c.709A>G	c.(709-711)ACT>GCT	p.T237A	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Missense_Mutation_p.T46A|PARK2_uc003qtw.3_Missense_Mutation_p.T46A|PARK2_uc003qty.3_Missense_Mutation_p.T209A|PARK2_uc003qtz.3_Missense_Mutation_p.T88A|PARK2_uc010kke.1_Missense_Mutation_p.T237A	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	237	SYT11 binding 1.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GTAATGCAAGTGATGTTCCGA	0.443													22	33					0	0	1	0	0		C	162394359	C	C	162394359	3	2	190	1	0	0	0	0	1	0	0	0	11468	1696	59	3	716	3	PARK2	6	162394359	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1254945	162394359	8720708	516	94669											
T	6862	broad.mit.edu	37	chr6	166580950	166580950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcgctctcctccaggcccaCgcgcagttcgcgctctgtgg	3	9	11	18	5	2	0	0	0	2	0	6	0	3	0	3	2	0	4	3	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:166580950C>T	uc003quu.1	-	2	623	c.130G>A	c.(130-132)GTG>ATG	p.V44M	T_uc003qut.1_Missense_Mutation_p.V44M|T_uc003quv.1_Missense_Mutation_p.V44M	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	44					anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		TCCAGGCCCACGCGCAGTTCG	0.657									Chordoma_Familial_Clustering_of				15	20					0	0	1	0	0		T	166580950	T	T	166580950	3	4	190	1	0	0	0	0	1	0	0	0	15513	536	19	1	1209	1	T	6	166580950	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4186591	166580950	4534117	517	94670											
PRR18	285800	broad.mit.edu	37	chr6	166721232	166721232	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgagattcaggcagaagcgCgcagcggagtctggacaagg	11	5	17	8	3	2	2	1	1	1	2	2	5	2	4	0	4	2	2	0	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr6:166721232C>T	uc003quw.1	-	1	640	c.399G>A	c.(397-399)GCG>GCA	p.A133A		NM_175922	NP_787118	Q8N4B5	PRR18_HUMAN	proline rich region 18	133						endoplasmic reticulum					0		Breast(66;2.35e-05)|Ovarian(120;0.0606)|Prostate(117;0.0959)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-19)|BRCA - Breast invasive adenocarcinoma(81;4.45e-06)|GBM - Glioblastoma multiforme(31;7.96e-05)		GGCAGAAGCGCGCAGCGGAGT	0.716													3	7					0	0	1	0	0		T	166721232	T	T	166721232	2	4	190	1	0	0	0	0	0	0	0	1	12612	755	27	1		1	PRR18	6	166721232	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	140282	166721232	4393835	518	94671											
HEATR2	54919	broad.mit.edu	37	chr7	796442	796442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagatccgcagagctcgtCgggacgtttgtcagccctga	8	8	12	13	4	1	3	1	1	0	2	4	4	2	4	3	1	2	3	3	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:796442C>T	uc010krz.1	+	6	1301	c.1281C>T	c.(1279-1281)GTC>GTT	p.V427V	HEATR2_uc003siz.2_Silent_p.V295V	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	427							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CAGAGCTCGTCGGGACGTTTG	0.607													83	65					0	0	1	0	0		T	796442	T	T	796442	2	4	190	1	0	0	0	0	0	0	0	1	7044	871	31	1		1	HEATR2	7	796442	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08		796442	158342221	519	94672											
EIF3B	8662	broad.mit.edu	37	chr7	2404086	2404086	+	Frame_Shift_Del	DEL	G	-	-																															tcaaagaggcattgctctatGggggggagagaaattcaagc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:2404086delG	uc003slx.2	+	6	1162	c.1079delG	c.(1078-1080)TGGfs	p.W360fs	EIF3B_uc003sly.2_Frame_Shift_Del_p.W360fs|EIF3B_uc003slz.1_Frame_Shift_Del_p.W321fs|EIF3B_uc003sma.2_Frame_Shift_Del_p.W88fs	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	360	Sufficient for interaction with EIF3E.|WD 1.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		ATTGCTCTATGGGGGGGAGAG	0.478													64	123	---	---	---	---						.	-	2404086	-	-	2404086	7	5	190	1	0	1	0	1	0	0	0	0	5019	1357	47	0	1101	0	EIF3B	7	2404086	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	1607644	2404086	156734577	520	94673											
SDK1	221935	broad.mit.edu	37	chr7	4304818	4304818	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgtgaaccactacatgagCgaccccacctactacaactc	12	8	5	16	2	0	2	0	2	0	0	2	3	0	2	4	0	6	0	4	0	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:4304818C>T	uc003smx.2	+	45	6583	c.6444C>T	c.(6442-6444)AGC>AGT	p.S2148S	SDK1_uc010kso.2_Silent_p.S1404S|SDK1_uc003smy.2_Silent_p.S635S|SDK1_uc003smz.2_Silent_p.S208S	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	2148	Extracellular (Potential).|Cytoplasmic (Potential).				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		ACTACATGAGCGACCCCACCT	0.687													6	19					0	0	1	0	0		T	4304818	T	T	4304818	2	4	190	1	0	0	0	0	0	0	0	1	13993	767	27	1		1	SDK1	7	4304818	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1900732	4304818	154833845	521	94674											
RADIL	55698	broad.mit.edu	37	chr7	4917266	4917266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtgtccacctccttggctgCcagctcctccacgtccgacc	4	9	9	19	2	0	0	0	0	0	0	5	1	5	0	8	2	2	2	8	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:4917266C>T	uc003snj.1	-	2	678	c.505G>A	c.(505-507)GCA>ACA	p.A169T	RADIL_uc003sng.1_RNA|RADIL_uc011jwd.1_RNA	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor	169					cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		TCCTTGGCTGCCAGCTCCTCC	0.607													63	32					0	0	1	0	0		T	4917266	T	T	4917266	3	4	190	1	0	0	0	0	1	0	0	0	13022	739	26	2	2778	2	RADIL	7	4917266	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	612448	4917266	154221397	522	94675											
SLC29A4	222962	broad.mit.edu	37	chr7	5331406	5331406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctctcgggaccaggcctaCgccatcaacctggccgctgt	6	9	10	16	3	2	0	1	0	1	0	4	1	2	1	5	3	2	1	5	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:5331406C>T	uc003sod.2	+	5	659	c.498C>T	c.(496-498)TAC>TAT	p.Y166Y	SLC29A4_uc011jwg.1_RNA|SLC29A4_uc003soc.2_Silent_p.Y166Y|SLC29A4_uc003soe.2_Missense_Mutation_p.T154M	NM_153247	NP_694979	Q7RTT9	S29A4_HUMAN	solute carrier family 29 (nucleoside	166	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	apical plasma membrane|integral to membrane	nucleoside transmembrane transporter activity			liver(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0903)|OV - Ovarian serous cystadenocarcinoma(56;2.65e-15)		ACCAGGCCTACGCCATCAACC	0.637													58	47					0	0	1	0	0		T	5331406	T	T	5331406	2	4	190	1	0	0	0	0	0	0	0	1	14562	547	19	1		1	SLC29A4	7	5331406	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	414140	5331406	153807257	523	94676											
FSCN1	6624	broad.mit.edu	37	chr7	5632920	5632920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcggcggcaccgaggaccGcctgtcctgcttcgcgcaga	5	7	13	16	6	0	1	0	0	0	1	3	3	1	2	4	3	1	3	4	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:5632920G>A	uc003sou.2	+	1	467	c.353G>A	c.(352-354)CGC>CAC	p.R118H		NM_003088	NP_003079	Q16658	FSCN1_HUMAN	fascin 1	118					actin filament bundle assembly|cell migration|cell proliferation	cell junction|cytoplasm|filopodium|invadopodium|stress fiber	actin filament binding|drug binding|protein binding, bridging			ovary(1)	1		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;1.21e-13)		ACCGAGGACCGCCTGTCCTGC	0.682													7	20					0	0	1	0	0		A	5632920	A	A	5632920	3	1	190	1	0	0	0	0	1	0	0	0	6081	1087	38	1	355	1	FSCN1	7	5632920	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	301514	5632920	153505743	524	94677											
USP42	84132	broad.mit.edu	37	chr7	6196576	6196577	+	Frame_Shift_Del	DEL	CT	-	-																															gagagcccagggtggctttcCtctctctggtggcccgcctc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:6196576_6196577delCT	uc011jwo.1	+	16	3956_3957	c.3833_3834delCT	c.(3832-3834)CCTfs	p.P1278fs	USP42_uc011jwp.1_Frame_Shift_Del_p.P1278fs|USP42_uc011jwq.1_Frame_Shift_Del_p.P1085fs	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	1278					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		GGTGGCTTTCCTCTCTCTGGTG	0.535													29	19	---	---	---	---						.	-	6196577	-	-	6196576	7	5	190	1	0	1	0	1	0	0	0	0	17099	681	24	0	2447	0	USP42	7	6196576	Frame_Shift_Del	DEL	CT	TCGA-F1-6177-01A-11D-1800-08	563656	6196576	152942087	525	94678											
DAGLB	221955	broad.mit.edu	37	chr7	6449537	6449537	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgctctgtcggagaccacGctgtccaaggcccgcatcag	7	6	12	16	4	2	1	1	0	1	1	4	2	3	1	4	2	0	3	4	2	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:6449537G>A	uc003sqa.2	-	15	2120	c.1950C>T	c.(1948-1950)AGC>AGT	p.S650S	DAGLB_uc003spy.2_Silent_p.S196S|DAGLB_uc003spz.2_Silent_p.S347S|DAGLB_uc011jwt.1_Silent_p.S464S|DAGLB_uc011jwu.1_Silent_p.S521S|DAGLB_uc003sqb.2_Silent_p.S369S|DAGLB_uc003sqc.2_Silent_p.S369S|DAGLB_uc011jwv.1_RNA|DAGLB_uc003sqd.3_Silent_p.S609S	NM_139179	NP_631918	Q8NCG7	DGLB_HUMAN	diacylglycerol lipase, beta isoform 1	650	Cytoplasmic (Potential).				lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.102)		CGGAGACCACGCTGTCCAAGG	0.597													36	81					0	0	1	0	0		A	6449537	A	A	6449537	2	1	190	1	0	0	0	0	0	0	0	1	4230	1078	38	1		1	DAGLB	7	6449537	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	252961	6449537	152689126	526	94679											
TMEM106B	54664	broad.mit.edu	37	chr7	12263988	12263988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcagttatgatgttcagaagCgtacaatttatttaaatatc	14	16	6	5	1	2	2	2	1	0	1	3	2	2	2	0	0	2	3	0	0	8	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:12263988C>T	uc011jxk.1	+	5	818	c.418C>T	c.(418-420)CGT>TGT	p.R140C	TMEM106B_uc003ssh.2_Missense_Mutation_p.R140C	NM_018374	NP_060844	Q9NUM4	T106B_HUMAN	transmembrane protein 106B	140						integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (126;0.185)		TGTTCAGAAGCGTACAATTTA	0.343													84	79					0	0	1	0	0		T	12263988	T	T	12263988	3	4	190	1	0	0	0	0	1	0	0	0	16046	768	27	1	428	1	TMEM106B	7	12263988	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5814451	12263988	146874675	527	94680											
OSBPL3	26031	broad.mit.edu	37	chr7	24874171	24874171	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgctgtactccagctcctcGcagagcctctgcagcgtgtt	5	11	10	15	3	1	1	0	0	1	1	5	1	3	1	3	0	5	6	3	0	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:24874171G>A	uc003sxf.2	-	15	2085	c.1680C>T	c.(1678-1680)TGC>TGT	p.C560C	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Silent_p.C524C|OSBPL3_uc003sxh.2_Silent_p.C529C|OSBPL3_uc003sxi.2_Silent_p.C493C|OSBPL3_uc003sxj.1_Silent_p.C289C|OSBPL3_uc003sxk.1_Silent_p.C258C	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	560					lipid transport		lipid binding|protein binding			skin(1)	1						CCAGCTCCTCGCAGAGCCTCT	0.622													7	112					0	0	1	0	0		A	24874171	A	A	24874171	2	1	190	1	0	0	0	0	0	0	0	1	11298	1079	38	1		1	OSBPL3	7	24874171	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	12610183	24874171	134264492	528	94681											
CCDC129	223075	broad.mit.edu	37	chr7	31617908	31617908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccttgctcatctatgccgGccaagcaggctcctccttcc	5	10	9	17	1	2	0	1	0	1	0	5	0	5	0	6	3	3	3	6	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:31617908G>A	uc003tcj.1	+	8	2023	c.1030G>A	c.(1030-1032)GCC>ACC	p.A344T	CCDC129_uc011kad.1_Missense_Mutation_p.A354T|CCDC129_uc003tci.1_Intron|CCDC129_uc011kae.1_Missense_Mutation_p.A370T|CCDC129_uc003tck.1_Missense_Mutation_p.A252T	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	344											0						ATCTATGCCGGCCAAGCAGGC	0.498													43	35					0	0	1	0	0		A	31617908	A	A	31617908	3	1	190	1	0	0	0	0	1	0	0	0	2767	1203	42	2	1056	2	CCDC129	7	31617908	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6743737	31617908	127520755	529	94682											
KBTBD2	25948	broad.mit.edu	37	chr7	32914609	32914609	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatatatatgcttacctgtaGgaagcaagctgtttcataaa	14	14	7	6	0	1	0	1	0	0	0	1	1	1	1	1	1	4	5	1	1	10	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:32914609G>T	uc003tdb.2	-	3	990	c.331C>A	c.(331-333)CTA>ATA	p.L111I	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	111											0			GBM - Glioblastoma multiforme(11;0.0499)			CTTACCTGTAGGAAGCAAGCT	0.234													7	125					1.06961e-07	1.10898e-07	1	1	0		T	32914609	T	T	32914609	3	4	190	1	0	0	0	0	1	0	0	0	8009	991	35	5	1548	5	KBTBD2	7	32914609	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1296701	32914609	126224054	530	94683											
GCK	2645	broad.mit.edu	37	chr7	44189576	44189576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgccccctcacccctctccGtttgatagcgtctcgcagaa	6	10	8	17	3	3	2	1	1	2	1	5	2	3	2	5	0	2	2	5	0	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:44189576G>A	uc003tkl.2	-	5	1041	c.571C>T	c.(571-573)CGG>TGG	p.R191W	GCK_uc003tkj.1_Missense_Mutation_p.R190W|GCK_uc003tkk.1_Missense_Mutation_p.R192W	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	191					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						ACCCCTCTCCGTTTGATAGCG	0.632													30	65					0	0	1	0	0		A	44189576	A	A	44189576	3	1	190	1	0	0	0	0	1	0	0	0	6308	1144	40	1	850	1	GCK	7	44189576	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	11274967	44189576	114949087	531	94684											
NPC1L1	29881	broad.mit.edu	37	chr7	44574135	44574135	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggatgaccagggaggagcGgatacccaagtaggagaaga	15	3	16	7	1	0	3	0	1	0	2	0	8	0	7	2	5	2	1	2	5	4	2	rs114737991	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:44574135G>A	uc003tlb.2	-	6	2133	c.2077C>T	c.(2077-2079)CGC>TGC	p.R693C	NPC1L1_uc003tlc.2_Missense_Mutation_p.R693C|NPC1L1_uc011kbw.1_Missense_Mutation_p.R693C|NPC1L1_uc003tld.2_Missense_Mutation_p.R693C	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	693	SSD.|Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	AGGGAGGAGCGGATACCCAAG	0.587											OREG0018038	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	92					0	0	1	0	0		A	44574135	A	A	44574135	3	1	190	1	0	0	0	0	1	0	0	0	10590	1116	39	1	2062	1	NPC1L1	7	44574135	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	384559	44574135	114564528	532	94685											
ZMIZ2	83637	broad.mit.edu	37	chr7	44800124	44800124	+	Missense_Mutation	SNP	A	G	G	1	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	cccttacatgtcaccaaaccAagaggtcaagtctcccttct	11	10	5	15	0	4	1	2	0	2	1	5	1	4	1	4	1	2	0	4	1	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:44800124A>G	uc003tlr.2	+	9	1295	c.1172A>G	c.(1171-1173)CAA>CGA	p.Q391R	ZMIZ2_uc003tlq.2_Missense_Mutation_p.Q333R|ZMIZ2_uc003tls.2_Missense_Mutation_p.Q365R|ZMIZ2_uc003tlt.2_Missense_Mutation_p.Q14R|ZMIZ2_uc010kyj.2_5'UTR	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	391	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						TCACCAAACCAAGAGGTCAAG	0.592													15	160					0	0	1	0	0		G	44800124	G	G	44800124	3	3	190	1	0	0	0	0	1	0	0	0	17722	130	5	3	1202	3	ZMIZ2	7	44800124	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	225989	44800124	114338539	533	94686											
IKZF1	10320	broad.mit.edu	37	chr7	50450374	50450374	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tacgcctgccgccggagggaCgccctcactggccacctgag	6	5	13	17	4	1	1	1	1	0	0	1	3	1	3	6	3	2	0	6	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:50450374C>T	uc003tow.3	+	6	726	c.558C>T	c.(556-558)GAC>GAT	p.D186D	IKZF1_uc003tox.3_Silent_p.D186D|IKZF1_uc003toy.3_Silent_p.D186D|IKZF1_uc011kck.1_Silent_p.D99D|IKZF1_uc003toz.3_Silent_p.D156D|IKZF1_uc010kyx.2_Intron	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	186	C2H2-type 3.|Required for both high-affinity DNA binding and pericentromeric heterochromatin localization (By similarity).				cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding	p.?(74)		haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				GCCGGAGGGACGCCCTCACTG	0.652			D		ALL								10	11					0	0	1	0	0		T	50450374	T	T	50450374	2	4	190	1	0	0	0	0	0	0	0	1	7630	535	19	1		1	IKZF1	7	50450374	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5650250	50450374	108688289	534	94687											
IKZF1	10320	broad.mit.edu	37	chr7	50468106	50468106	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcctccgagaactcgcaggaCgcgctccgcgtggtcagcac	7	5	13	16	6	1	1	1	0	0	1	4	3	3	2	3	2	2	3	3	2	1	0	rs143013761	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:50468106C>T	uc003tow.3	+	9	1509	c.1341C>T	c.(1339-1341)GAC>GAT	p.D447D	IKZF1_uc003tox.3_Silent_p.D405D|IKZF1_uc003toy.3_Silent_p.D405D|IKZF1_uc011kck.1_Silent_p.D360D|IKZF1_uc003toz.3_Silent_p.D417D|IKZF1_uc010kyx.2_Silent_p.D187D|IKZF1_uc003tpa.3_Silent_p.D189D	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	447					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding			haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				ACTCGCAGGACGCGCTCCGCG	0.652			D		ALL								10	26					0	0	1	0	0		T	50468106	T	T	50468106	2	4	190	1	0	0	0	0	0	0	0	1	7630	535	19	1		1	IKZF1	7	50468106	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	17732	50468106	108670557	535	94688											
GRB10	2887	broad.mit.edu	37	chr7	50799979	50799979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgcccatacctggtagtacGgatggtgcaaaaaggaatct	12	9	11	9	2	1	0	0	0	1	0	2	2	1	2	2	4	3	3	2	4	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:50799979G>A	uc003tpi.2	-	1	72	c.41C>T	c.(40-42)CCG>CTG	p.P14L	GRB10_uc003tpj.2_Missense_Mutation_p.P14L|GRB10_uc003tpk.2_Missense_Mutation_p.P14L|GRB10_uc010kzb.2_Intron|GRB10_uc003tpl.2_Intron|GRB10_uc003tpm.2_Intron|GRB10_uc003tpn.2_Intron	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	14					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					CTGGTAGTACGGATGGTGCAA	0.532									Russell-Silver_syndrome				58	34					0	0	1	0	0		A	50799979	A	A	50799979	3	1	190	1	0	0	0	0	1	0	0	0	6772	1116	39	1	1807	1	GRB10	7	50799979	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	331873	50799979	108338684	536	94689											
EGFR	1956	broad.mit.edu	37	chr7	55269026	55269026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcccctccacgtcacGgactcccctcctgagctctc	6	7	7	21	2	2	1	1	1	1	0	6	2	5	2	6	1	3	2	6	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:55269026G>A	uc003tqk.2	+	25	3338	c.3092G>A	c.(3091-3093)CGG>CAG	p.R1031Q	EGFR_uc010kzg.1_Missense_Mutation_p.R986Q|EGFR_uc011kco.1_Missense_Mutation_p.R978Q	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	1031	Cytoplasmic (Potential).|Ser-rich.				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	TCCACGTCACGGACTCCCCTC	0.507		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			41	97					0	0	1	0	0		A	55269026	A	A	55269026	3	1	190	1	0	0	0	0	1	0	0	0	4973	1116	39	1	3454	1	EGFR	7	55269026	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4469047	55269026	103869637	537	94690											
POM121C	100101267	broad.mit.edu	37	chr7	75048170	75048170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggaaaatgaaggggccGccgatcctggaaagattcaa	15	6	12	8	2	1	2	1	1	0	1	2	5	2	4	3	4	0	0	3	4	6	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:75048170G>A	uc003udk.3	-	15	3758	c.2873C>T	c.(2872-2874)GCG>GTG	p.A958V		NM_001099415	NP_001092885	A8CG34	P121C_HUMAN	POM121 membrane glycoprotein (rat)-like	1200	Pore side (Potential).				mRNA transport|protein transport|transmembrane transport	endoplasmic reticulum membrane|nuclear membrane|nuclear pore	protein binding				0						TGAAGGGGCCGCCGATCCTGG	0.572													18	47					0	0	1	0	0		A	75048170	A	A	75048170	3	1	190	1	0	0	0	0	1	0	0	0	12259	1087	38	1	94	1	POM121C	7	75048170	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	19779144	75048170	84090493	538	94691											
SPDYE5	442590	broad.mit.edu	37	chr7	75131237	75131237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagcactgggtgtgggcGcgagatcgcgctcgcctttc	5	8	15	13	5	0	2	0	0	0	2	3	3	0	2	2	2	1	2	2	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:75131237G>A	uc011kfy.1	+	7	1126	c.990G>A	c.(988-990)GCG>GCA	p.A330A		NM_001099435	NP_001092905	A6NIY4	SPDE5_HUMAN	speedy homolog E5	330											0						GGGTGTGGGCGCGAGATCGCG	0.597													7	42					0	0	1	0	0		A	75131237	A	A	75131237	2	1	190	1	0	0	0	0	0	0	0	1	15057	1074	38	1		1	SPDYE5	7	75131237	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	83067	75131237	84007426	539	94692											
SEMA3E	9723	broad.mit.edu	37	chr7	83037703	83037703	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcaacagacgctcatcGtcatgctcagtgcggatatg	9	11	9	12	3	4	1	4	0	0	1	5	2	4	2	1	1	3	2	1	1	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:83037703G>A	uc003uhy.1	-	6	1117	c.651C>T	c.(649-651)GAC>GAT	p.D217D		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	217	Sema.				axon guidance	extracellular space|membrane	receptor activity	p.D217D(1)		ovary(3)	3		Medulloblastoma(109;0.109)				GACGCTCATCGTCATGCTCAG	0.448													56	16					0	0	1	0	0		A	83037703	A	A	83037703	2	1	190	1	0	0	0	0	0	0	0	1	14053	1136	40	1		1	SEMA3E	7	83037703	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7906466	83037703	76100960	540	94693											
RUNDC3B	154661	broad.mit.edu	37	chr7	87436695	87436695	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaatattcacaggactgtgCtaaagaataatgatttaaga	17	13	7	4	0	1	3	1	1	0	2	1	4	1	4	0	1	1	1	0	1	7	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:87436695C>T	uc003ujb.2	+	10	1426	c.1015C>T	c.(1015-1017)CTA>TTA	p.L339L	RUNDC3B_uc011khd.1_Silent_p.L322L|RUNDC3B_uc011khe.1_Silent_p.L322L|RUNDC3B_uc003ujc.2_Intron|RUNDC3B_uc003ujd.2_Intron	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	339	Potential.									skin(1)	1	Esophageal squamous(14;0.00164)					CAGGACTGTGCTAAAGAATAA	0.428													30	94					0	0	1	0	0		T	87436695	T	T	87436695	2	4	190	1	0	0	0	0	0	0	0	1	13770	796	28	2		2	RUNDC3B	7	87436695	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4398992	87436695	71701968	541	94694											
AKAP9	10142	broad.mit.edu	37	chr7	91715653	91715653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgttttactagcagcatttCggacggagctgacagctcta	9	12	11	9	2	1	1	0	1	1	0	2	3	1	3	0	2	5	5	0	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:91715653C>T	uc003ulg.2	+	37	9361	c.9136C>T	c.(9136-9138)CGG>TGG	p.R3046W	AKAP9_uc003ulf.2_Missense_Mutation_p.R3038W|AKAP9_uc003uli.2_Missense_Mutation_p.R2669W|AKAP9_uc003ulj.2_Missense_Mutation_p.R816W|AKAP9_uc003ulk.2_Missense_Mutation_p.R321W	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3050					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			AGCAGCATTTCGGACGGAGCT	0.408			T	BRAF	papillary thyroid								197	129					0	0	1	0	0		T	91715653	T	T	91715653	3	4	190	1	0	0	0	0	1	0	0	0	459	875	31	1	9282	1	AKAP9	7	91715653	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4278958	91715653	67423010	542	94695											
CASD1	64921	broad.mit.edu	37	chr7	94185017	94185017	+	Frame_Shift_Del	DEL	T	-	-																															ggttggcatgtatagctgcaTttttttgtggactcctcatc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:94185017delT	uc003uni.3	+	18	2568	c.2341delT	c.(2341-2343)TTTfs	p.F781fs	CASD1_uc003unj.3_Frame_Shift_Del_p.F781fs	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	781	Helical; (Potential).					integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			TATAGCTGCATTTTTTTGTGG	0.338													75	76	---	---	---	---						.	-	94185017	-	-	94185017	7	5	190	1	0	1	0	1	0	0	0	0	2667	1493	52	0	2411	0	CASD1	7	94185017	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	2469364	94185017	64953646	543	94696											
LMTK2	22853	broad.mit.edu	37	chr7	97821334	97821334	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctttcagatcctgggccCggaaagcaagatgacagcgg	10	7	13	11	3	1	3	1	1	0	2	3	4	2	4	2	3	2	2	2	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:97821334C>T	uc003upd.1	+	11	1850	c.1557C>T	c.(1555-1557)CCC>CCT	p.P519P		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	519					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					ATCCTGGGCCCGGAAAGCAAG	0.542													37	87					0	0	1	0	0		T	97821334	T	T	97821334	2	4	190	1	0	0	0	0	0	0	0	1	8876	639	23	1		1	LMTK2	7	97821334	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3636317	97821334	61317329	544	94697											
TRRAP	8295	broad.mit.edu	37	chr7	98557049	98557049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttctgaagactgcgttgcGgccagacatgtggcccaagt	8	9	12	12	2	1	3	0	1	1	2	1	3	1	3	3	2	2	1	3	2	2	2	rs149626121	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:98557049G>A	uc003upp.2	+	44	6613	c.6404G>A	c.(6403-6405)CGG>CAG	p.R2135Q	TRRAP_uc011kis.1_Missense_Mutation_p.R2117Q|TRRAP_uc003upr.2_Missense_Mutation_p.R1834Q	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2135	Interaction with TP53.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ACTGCGTTGCGGCCAGACATG	0.582													64	37					0	0	1	0	0		A	98557049	A	A	98557049	3	1	190	1	0	0	0	0	1	0	0	0	16627	1116	39	1	6516	1	TRRAP	7	98557049	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	735715	98557049	60581614	545	94698											
ARPC1B	10095	broad.mit.edu	37	chr7	98988840	98988840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaacactaccactgctggcGctgaccttcatcacagacaa	13	7	7	14	1	2	2	2	1	0	1	2	3	2	2	2	1	3	2	2	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:98988840G>A	uc003upz.2	+	7	836	c.747G>A	c.(745-747)GCG>GCA	p.A249A	ARPC1B_uc003uqa.2_Silent_p.A249A|ARPC1B_uc003uqb.2_Silent_p.A249A|ARPC1B_uc003uqc.2_Silent_p.A249A|ARPC1B_uc003uqd.2_Silent_p.A61A	NM_005720	NP_005711	O15143	ARC1B_HUMAN	actin related protein 2/3 complex subunit 1B	249	WD 5.				cellular component movement|regulation of actin filament polymerization	Arp2/3 protein complex|cytoplasm	actin binding|structural constituent of cytoskeleton				0	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)			CACTGCTGGCGCTGACCTTCA	0.627													12	25					0	0	1	0	0		A	98988840	A	A	98988840	2	1	190	1	0	0	0	0	0	0	0	1	971	1074	38	1		1	ARPC1B	7	98988840	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	431791	98988840	60149823	546	94699											
C7orf51	222950	broad.mit.edu	37	chr7	100086958	100086958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctccccccacagccttccGgacccaactgtaggccccct	6	6	7	22	1	0	0	0	0	0	0	2	1	2	1	9	2	2	1	9	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:100086958G>A	uc003uvd.1	+	4	1773	c.1614G>A	c.(1612-1614)CCG>CCA	p.P538P	C7orf51_uc003uve.1_Silent_p.P320P	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	538										skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					ACAGCCTTCCGGACCCAACTG	0.711													16	11					0	0	1	0	0		A	100086958	A	A	100086958	2	1	190	1	0	0	0	0	0	0	0	1	2403	1103	39	1		1	C7orf51	7	100086958	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1098118	100086958	59051705	547	94700											
GIGYF1	64599	broad.mit.edu	37	chr7	100284988	100284988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggccccatcgccttcttCgatgcttctttggtaaaagc	9	12	8	12	2	2	0	0	0	2	0	4	1	2	0	3	2	2	2	3	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:100284988C>T	uc003uwg.1	-	5	1424	c.415G>A	c.(415-417)GAA>AAA	p.E139K		NM_022574	NP_072096	O75420	PERQ1_HUMAN	PERQ amino acid rich, with GYF domain 1	139										large_intestine(1)|central_nervous_system(1)	2	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)					TCGCCTTCTTCGATGCTTCTT	0.637													138	90					0	0	1	0	0		T	100284988	T	T	100284988	3	4	190	1	0	0	0	0	1	0	0	0	6392	893	31	1	2772	1	GIGYF1	7	100284988	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	198030	100284988	58853675	548	94701											
EPHB4	2050	broad.mit.edu	37	chr7	100417393	100417393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctccgggtcggcactcccgGcagcggagggcgtaggtgag	5	5	18	13	5	0	1	0	1	0	0	3	2	2	2	3	6	1	3	3	6	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:100417393G>A	uc003uwn.1	-	6	1574	c.1083C>T	c.(1081-1083)TGC>TGT	p.C361C	EPHB4_uc003uwm.1_Silent_p.C268C|EPHB4_uc010lhj.1_Silent_p.C361C|EPHB4_uc011kkf.1_Silent_p.C361C|EPHB4_uc011kkg.1_Intron|EPHB4_uc011kkh.1_Silent_p.C361C	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	361	Extracellular (Potential).|Fibronectin type-III 1.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGCACTCCCGGCAGCGGAGGG	0.706													15	6					0	0	1	0	0		A	100417393	A	A	100417393	2	1	190	1	0	0	0	0	0	0	0	1	5185	1195	42	2		2	EPHB4	7	100417393	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	132405	100417393	58721270	549	94702											
SLC12A9	56996	broad.mit.edu	37	chr7	100463810	100463810	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcctggggcctcgggaGgcgcctggggcggccgaggg	2	5	22	12	4	0	0	0	0	0	0	1	2	0	1	4	8	1	0	4	8	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:100463810G>T	uc003uwp.2	+	14	2470	c.2328G>T	c.(2326-2328)GAG>GAT	p.E776D	SLC12A9_uc011kki.1_Missense_Mutation_p.E307D|SLC12A9_uc003uwr.2_Missense_Mutation_p.E512D|SLC12A9_uc003uws.2_Missense_Mutation_p.E307D|SLC12A9_uc003uwt.2_Missense_Mutation_p.E512D|SLC12A9_uc003uwv.2_Missense_Mutation_p.E307D|TRIP6_uc010lhk.1_5'Flank|TRIP6_uc003uww.2_5'Flank	NM_020246	NP_064631	Q9BXP2	S12A9_HUMAN	solute carrier family 12 (potassium/chloride	776	Cytoplasmic (Potential).					integral to membrane|plasma membrane	cation:chloride symporter activity				0	Lung NSC(181;0.041)|all_lung(186;0.0581)					GGCCTCGGGAGGCGCCTGGGG	0.716													51	30					8.86878e-18	9.47146e-18	1	1	0		T	100463810	T	T	100463810	3	4	190	1	0	0	0	0	1	0	0	0	14415	991	35	5	2378	5	SLC12A9	7	100463810	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	46417	100463810	58674853	550	94703											
ACHE	43	broad.mit.edu	37	chr7	100491548	100491548	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtatagggtgtccacataTtggtagcagacactctggaa	11	10	13	7	0	1	1	0	0	1	1	2	2	2	2	1	4	1	3	1	4	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:100491548T>C	uc003uxd.2	-	1	462	c.306A>G	c.(304-306)CAA>CAG	p.Q102Q	ACHE_uc003uxe.2_Silent_p.Q102Q|ACHE_uc003uxf.2_Silent_p.Q102Q|ACHE_uc003uxg.2_Silent_p.Q102Q|ACHE_uc003uxh.2_Silent_p.Q102Q|ACHE_uc003uxi.2_Silent_p.Q102Q|ACHE_uc003uxj.1_Silent_p.Q221Q	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	102					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	TGTCCACATATTGGTAGCAGA	0.592													85	49					0	0	1	0	0		C	100491548	C	C	100491548	2	2	190	1	0	0	0	0	0	0	0	1	141	1490	52	3		3	ACHE	7	100491548	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	27738	100491548	58647115	551	94704											
C7orf52	375607	broad.mit.edu	37	chr7	100817842	100817842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggagccagctgtggtagcGgctaggaaggtagtccaggc	8	6	17	10	2	0	0	0	0	0	0	1	2	1	2	3	6	3	4	3	6	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:100817842G>A	uc003uxy.1	-	2	486	c.247C>T	c.(247-249)CGC>TGC	p.R83C	C7orf52_uc003uxz.1_Missense_Mutation_p.R83C|C7orf52_uc003uya.1_Missense_Mutation_p.R83C|C7orf52_uc003uyb.1_Missense_Mutation_p.R83C	NM_198571	NP_940973	Q8N8M0	CG052_HUMAN	hypothetical protein LOC375607	83	N-acetyltransferase.						N-acetyltransferase activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					CTGTGGTAGCGGCTAGGAAGG	0.687													8	51					0	0	1	0	0		A	100817842	A	A	100817842	3	1	190	1	0	0	0	0	1	0	0	0	2404	1116	39	1	874	1	C7orf52	7	100817842	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	326294	100817842	58320821	552	94705											
SH2B2	10603	broad.mit.edu	37	chr7	101952177	101952177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagctgacatccagggctgCgtggaccccgggtgagtgtc	6	8	16	11	2	0	2	0	2	0	0	2	3	1	3	3	3	2	3	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:101952177C>T	uc011kko.1	+	4	1086	c.1041C>T	c.(1039-1041)TGC>TGT	p.C347C		NM_020979	NP_066189	O14492	SH2B2_HUMAN	SH2B adaptor protein 2	304	PH.				blood coagulation|insulin receptor signaling pathway|intracellular signal transduction	cytosol|plasma membrane	JAK pathway signal transduction adaptor activity|SH3/SH2 adaptor activity|signal transducer activity				0						TCCAGGGCTGCGTGGACCCCG	0.607													49	124					0	0	1	0	0		T	101952177	T	T	101952177	2	4	190	1	0	0	0	0	0	0	0	1	14253	776	27	1		1	SH2B2	7	101952177	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1134335	101952177	57186486	553	94706											
RELN	5649	broad.mit.edu	37	chr7	103113350	103113350	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcatgtaattttgtttgCgagtgctgttaaaatcaaac	12	16	7	6	1	3	0	3	0	0	0	3	1	3	0	0	0	3	4	0	0	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:103113350C>T	uc003vca.2	-	66	10452	c.10292G>A	c.(10291-10293)CGC>CAC	p.R3431H	RELN_uc010liz.2_Missense_Mutation_p.R3429H	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3431	Arg-rich (basic).				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATTTTGTTTGCGAGTGCTGTT	0.398													34	35					0	0	1	0	0		T	103113350	T	T	103113350	3	4	190	1	0	0	0	0	1	0	0	0	13245	768	27	1	94	1	RELN	7	103113350	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1161173	103113350	56025313	554	94707											
RINT1	60561	broad.mit.edu	37	chr7	105182902	105182902	+	Frame_Shift_Del	DEL	A	-	-																															aaaagaattcgaagtgccttAaaaaatgcagaagaatcaaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:105182902delA	uc003vda.1	+	4	552	c.321delA	c.(319-321)TTAfs	p.L107fs	RINT1_uc010ljj.1_Intron	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	107	Potential.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						GAAGTGCCTTAAAAAATGCAG	0.353													76	65	---	---	---	---						.	-	105182902	-	-	105182902	7	5	190	1	0	1	0	1	0	0	0	0	13401	359	13	0	335	0	RINT1	7	105182902	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	2069552	105182902	53955761	555	94708											
RINT1	60561	broad.mit.edu	37	chr7	105195574	105195574	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatacgattaacacaagtgaTgaaagaagagactagagctt	18	8	10	5	1	0	5	0	2	0	3	0	8	0	5	0	0	3	1	0	0	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:105195574T>C	uc003vda.1	+	11	1802	c.1571T>C	c.(1570-1572)ATG>ACG	p.M524T	RINT1_uc010ljj.1_Missense_Mutation_p.M99T	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	524	RINT1/TIP20.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						ACACAAGTGATGAAAGAAGAG	0.408													138	71					0	0	1	0	0		C	105195574	C	C	105195574	3	2	190	1	0	0	0	0	1	0	0	0	13401	1464	51	3	1613	3	RINT1	7	105195574	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	12672	105195574	53943089	556	94709											
LAMB4	22798	broad.mit.edu	37	chr7	107708575	107708575	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtcggctgcagctggatcCgactgagccctgggggtgac	7	7	16	11	2	0	2	0	2	0	0	2	4	1	3	2	4	3	3	2	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:107708575C>A	uc010ljo.1	-	19	2416	c.2332G>T	c.(2332-2334)GGA>TGA	p.G778*	LAMB4_uc003vey.2_Nonsense_Mutation_p.G778*	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	778	Laminin EGF-like 6.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						CAGCTGGATCCGACTGAGCCC	0.552													78	60					2.6465e-34	2.89255e-34	1	1	0		A	107708575	A	A	107708575	4	1	190	1	0	0	0	0	0	1	0	0	8629	661	23	5	3017	5	LAMB4	7	107708575	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2513001	107708575	51430088	557	94710											
IFRD1	3475	broad.mit.edu	37	chr7	112098933	112098933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggtaagagtgatgagcaaCgtgcagctgcagcgttagca	12	8	14	7	2	0	3	0	2	0	1	0	3	0	3	0	1	7	7	0	1	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:112098933C>T	uc003vgh.2	+	6	870	c.427C>T	c.(427-429)CGT>TGT	p.R143C	IFRD1_uc011kmn.1_Missense_Mutation_p.R93C|IFRD1_uc003vgj.2_Missense_Mutation_p.R143C|IFRD1_uc011kmo.1_Intron|IFRD1_uc011kmp.1_Missense_Mutation_p.R93C	NM_001007245	NP_001007246	O00458	IFRD1_HUMAN	interferon-related developmental regulator 1	143					multicellular organismal development|myoblast cell fate determination		binding			kidney(1)|central_nervous_system(1)	2						TGATGAGCAACGTGCAGCTGC	0.388													21	52					0	0	1	0	0		T	112098933	T	T	112098933	3	4	190	1	0	0	0	0	1	0	0	0	7569	536	19	1	445	1	IFRD1	7	112098933	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4390358	112098933	47039730	558	94711											
PPP1R3A	5506	broad.mit.edu	37	chr7	113518220	113518220	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctattcctgaacttctggaaActtcttcaggtttagactca	10	15	6	10	0	4	2	2	1	2	1	5	3	5	3	1	2	2	1	1	2	4	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:113518220A>G	uc010ljy.1	-	4	2958	c.2927T>C	c.(2926-2928)GTT>GCT	p.V976A		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	976					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						ACTTCTGGAAACTTCTTCAGG	0.378													39	117					0	0	1	0	0		G	113518220	G	G	113518220	3	3	190	1	0	0	0	0	1	0	0	0	12393	43	2	3	445	3	PPP1R3A	7	113518220	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1419287	113518220	45620443	559	94712											
MET	4233	broad.mit.edu	37	chr7	116339279	116339279	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcagcttcccaacttcacCgcggaaacacccatccagaa	13	7	5	16	2	2	1	2	0	0	1	4	2	4	2	4	1	3	1	4	1	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:116339279C>T	uc003vij.2	+	2	328	c.141C>T	c.(139-141)ACC>ACT	p.T47T	MET_uc010lkh.2_Silent_p.T47T|MET_uc011knc.1_Silent_p.T47T|MET_uc011knd.1_Silent_p.T47T|MET_uc011kne.1_Silent_p.T47T|MET_uc011knf.1_Silent_p.T47T|MET_uc011kng.1_Silent_p.T47T|MET_uc011knh.1_Silent_p.T47T|MET_uc011kni.1_Silent_p.T47T|MET_uc003vii.1_Silent_p.T66T|MET_uc010lkg.2_Silent_p.T47T|MET_uc011kmz.1_Silent_p.T47T|MET_uc011kna.1_Silent_p.T47T|MET_uc011knb.1_Silent_p.T47T	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	47	Extracellular (Potential).|Sema.				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding	p.982_1028del47(8)		upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CCAACTTCACCGCGGAAACAC	0.438			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				38	92					0	0	1	0	0		T	116339279	T	T	116339279	2	4	190	1	0	0	0	0	0	0	0	1	9503	639	23	1		1	MET	7	116339279	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2821059	116339279	42799384	560	94713											
CFTR	1080	broad.mit.edu	37	chr7	117251692	117251692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaggactatggacacttcGtgccttcggacggcagcctt	10	9	11	11	3	0	0	0	0	0	0	2	3	0	3	2	4	2	1	2	4	3	4	rs121909019		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:117251692G>A	uc003vjd.2	+	20	3329	c.3197G>A	c.(3196-3198)CGT>CAT	p.R1066H	CFTR_uc011knq.1_Missense_Mutation_p.R472H	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	1066	Cytoplasmic (Potential).|ABC transmembrane type-1 2.		R -> H (in CF).|R -> L (in CF).|R -> C (in CF).		respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	TGGACACTTCGTGCCTTCGGA	0.413									Cystic_Fibrosis				30	36					0	0	1	0	0		A	117251692	A	A	117251692	3	1	190	1	0	0	0	0	1	0	0	0	3297	1145	40	1	3275	1	CFTR	7	117251692	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	912413	117251692	41886971	561	94714											
CTTNBP2	83992	broad.mit.edu	37	chr7	117431318	117431318	+	Frame_Shift_Del	DEL	G	-	-																															catgcaggttggttcagtccGggggttgcagcaggccaggc																								rs148428403		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:117431318delG	uc003vjf.2	-	4	2024	c.1932delC	c.(1930-1932)CCCfs	p.P644fs		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	644										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GGTTCAGTCCGGGGGTTGCAG	0.547													59	37	---	---	---	---						.	-	117431318	-	-	117431318	7	5	190	1	0	1	0	1	0	0	0	0	4048	1103	39	0	3139	0	CTTNBP2	7	117431318	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	179626	117431318	41707345	562	94715											
FSCN3	29999	broad.mit.edu	37	chr7	127235581	127235581	+	Missense_Mutation	SNP	A	G	G	1	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	tttggagtccaatggcaaggAcgtgttttgcacttcccacg	8	12	11	10	2	0	0	0	0	0	0	2	2	2	2	2	3	1	3	2	3	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:127235581A>G	uc003vmd.1	+	2	584	c.365A>G	c.(364-366)GAC>GGC	p.D122G	FSCN3_uc003vmc.1_Missense_Mutation_p.D77G|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_5'UTR|FSCN3_uc010llc.1_Missense_Mutation_p.D122G	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	122						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						AATGGCAAGGACGTGTTTTGC	0.572													24	47					0	0	1	0	0		G	127235581	G	G	127235581	3	3	190	1	0	0	0	0	1	0	0	0	6083	275	10	3	371	3	FSCN3	7	127235581	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	9804263	127235581	31903082	563	94716											
FAM71F1	84691	broad.mit.edu	37	chr7	128355644	128355644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagagccgaaccctggagCgggcctaggtgtggaggagg	8	5	20	8	2	0	1	0	0	0	1	0	6	0	4	3	7	3	0	3	7	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:128355644C>T	uc003vno.1	+	1	202	c.149C>T	c.(148-150)GCG>GTG	p.A50V	FAM71F1_uc010llo.1_Intron|FAM71F1_uc011koq.1_Intron|FAM71F1_uc003vnm.1_Intron|FAM71F1_uc003vnn.1_Intron|FAM71F1_uc010llp.1_RNA|FAM71F1_uc003vnp.1_Missense_Mutation_p.A50V	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	50										skin(1)	1						AACCCTGGAGCGGGCCTAGGT	0.532													56	46					0	0	1	0	0		T	128355644	T	T	128355644	3	4	190	1	0	0	0	0	1	0	0	0	5626	768	27	1	151	1	FAM71F1	7	128355644	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1120063	128355644	30783019	564	94717											
CPA5	93979	broad.mit.edu	37	chr7	130007829	130007829	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggcagcatcagcaccacccTctgtgagtgagcctcccctg	7	8	10	16	0	2	2	1	2	1	0	3	2	3	2	5	1	3	3	5	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:130007829T>G	uc010lmd.1	+	13	1741	c.1121T>G	c.(1120-1122)CTC>CGC	p.L374R	CPA5_uc003vps.2_Missense_Mutation_p.L374R|CPA5_uc003vpt.2_Intron|CPA5_uc010lme.1_Missense_Mutation_p.L374R|CPA5_uc003vpu.1_Missense_Mutation_p.L374R|uc003vpv.1_RNA	NM_001127441	NP_001120913	Q8WXQ8	CBPA5_HUMAN	carboxypeptidase A5 isoform 1	374					proteolysis	extracellular region	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2	Melanoma(18;0.0435)					AGCACCACCCTCTGTGAGTGA	0.572													33	31					0	0	1	0	0		G	130007829	G	G	130007829	3	3	190	1	0	0	0	0	1	0	0	0	3796	1551	54	5	1159	5	CPA5	7	130007829	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1652185	130007829	29130834	565	94718											
SVOPL	136306	broad.mit.edu	37	chr7	138333785	138333785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacgatgaggatgatgcccGggatggaggcgacgcgaatg	10	5	17	9	5	0	2	0	2	0	0	0	8	0	5	2	4	1	0	2	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:138333785G>A	uc011kqh.1	-	7	632	c.632C>T	c.(631-633)CCG>CTG	p.P211L	SVOPL_uc003vue.2_Missense_Mutation_p.P59L	NM_001139456	NP_001132928	Q8N434	SVOPL_HUMAN	SVOP-like isoform 1	211	Helical; (Potential).					integral to membrane	transmembrane transporter activity				0						GATGATGCCCGGGATGGAGGC	0.607													24	42					0	0	1	0	0		A	138333785	A	A	138333785	3	1	190	1	0	0	0	0	1	0	0	0	15449	1116	39	1	882	1	SVOPL	7	138333785	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	8325956	138333785	20804878	566	94719											
TAS2R38	5726	broad.mit.edu	37	chr7	141673015	141673015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctaaaaaagcaccaaaCacagaggacagtgcagatgc	17	5	9	10	0	1	2	0	0	1	2	1	3	1	3	1	1	5	3	1	1	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:141673015C>T	uc003vwx.1	-	1	559	c.475G>A	c.(475-477)GTT>ATT	p.V159I		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	159	Helical; Name=4; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					AAGCACCAAACACAGAGGACA	0.443													23	55					0	0	1	0	0		T	141673015	T	T	141673015	3	4	190	1	0	0	0	0	1	0	0	0	15600	478	17	4	530	4	TAS2R38	7	141673015	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3339230	141673015	17465648	567	94720											
MGAM	8972	broad.mit.edu	37	chr7	141736720	141736720	+	Frame_Shift_Del	DEL	C	-	-																															tctattgccctacctatacaCcctcttcttccgtgctcaca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:141736720delC	uc003vwy.2	+	18	2228	c.2174delC	c.(2173-2175)ACCfs	p.T725fs		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	725	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	TACCTATACACCCTCTTCTTC	0.507													175	136	---	---	---	---						.	-	141736720	-	-	141736720	7	5	190	1	0	1	0	1	0	0	0	0	9559	507	18	0	2240	0	MGAM	7	141736720	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	63705	141736720	17401943	568	94721											
TAS2R60	338398	broad.mit.edu	37	chr7	143141232	143141232	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacaggaagaaggctctcctTacaacctcaggattccgaga	13	7	9	12	1	2	2	1	0	1	2	4	5	3	4	3	3	2	1	3	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:143141232T>C	uc011ktg.1	+	1	687	c.687T>C	c.(685-687)CTT>CTC	p.L229L	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	229	Cytoplasmic (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					AGGCTCTCCTTACAACCTCAG	0.463													56	139					0	0	1	0	0		C	143141232	C	C	143141232	2	2	190	1	0	0	0	0	0	0	0	1	15610	1741	61	3		3	TAS2R60	7	143141232	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1404512	143141232	15997431	569	94722											
OR2A25	392138	broad.mit.edu	37	chr7	143771428	143771428	+	Missense_Mutation	SNP	T	C	C	0	1	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	gttctacatcttcattctgtTggggaacgggacaatcctgg	8	13	11	9	1	4	0	1	0	3	0	5	2	5	2	1	4	2	2	1	4	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:143771428T>C	uc011ktx.1	+	1	116	c.116T>C	c.(115-117)TTG>TCG	p.L39S		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	39	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TTCATTCTGTTGGGGAACGGG	0.537													73	60					0	0	1	0	0		C	143771428	C	C	143771428	3	2	190	1	0	0	0	0	1	0	0	0	10997	1821	63	3	118	3	OR2A25	7	143771428	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	630196	143771428	15367235	570	94723											
OR2A2	442361	broad.mit.edu	37	chr7	143807297	143807297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtgtttgtcttagtcGggcctctttccttgattctg	2	19	10	10	1	3	1	0	1	3	0	5	1	4	1	3	1	0	1	3	1	1	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:143807297G>A	uc011ktz.1	+	1	622	c.622G>A	c.(622-624)GGG>AGG	p.G208R		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	208	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					TGTCTTAGTCGGGCCTCTTTC	0.522													64	160					0	0	1	0	0		A	143807297	A	A	143807297	3	1	190	1	0	0	0	0	1	0	0	0	10996	1116	39	1	624	1	OR2A2	7	143807297	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	35869	143807297	15331366	571	94724											
CNTNAP2	26047	broad.mit.edu	37	chr7	146536847	146536847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acagcgaccattatcaatggCttcaggttgactttggcaat	11	12	9	9	1	2	1	2	1	0	0	2	2	2	1	1	3	1	3	1	3	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:146536847C>T	uc003weu.1	+	3	769	c.253C>T	c.(253-255)CTT>TTT	p.L85F		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	85	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			TTATCAATGGCTTCAGGTTGA	0.468										HNSCC(39;0.1)			56	40					0	0	1	0	0		T	146536847	T	T	146536847	3	4	190	1	0	0	0	0	1	0	0	0	3650	797	28	2	263	2	CNTNAP2	7	146536847	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2729550	146536847	12601816	572	94725											
ZNF786	136051	broad.mit.edu	37	chr7	148768876	148768876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacactgctggaggccccgcGgccttctctccaagaggccg	6	6	12	17	3	1	1	0	0	1	1	3	2	2	2	5	4	1	1	5	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:148768876G>A	uc003wfh.2	-	4	1125	c.988C>T	c.(988-990)CGC>TGC	p.R330C	ZNF786_uc011kuk.1_Missense_Mutation_p.R293C|ZNF786_uc003wfi.2_Missense_Mutation_p.R244C	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	330					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			GAGGCCCCGCGGCCTTCTCTC	0.711													4	15					0	0	1	0	0		A	148768876	A	A	148768876	3	1	190	1	0	0	0	0	1	0	0	0	18183	1116	39	1	1364	1	ZNF786	7	148768876	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2232029	148768876	10369787	573	94726											
SSPO	23145	broad.mit.edu	37	chr7	149500639	149500639	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagtgcccctgcctggtgggCgaagagctgaagtggccagg	7	6	18	10	1	0	2	0	1	0	1	0	4	0	2	4	4	3	1	4	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:149500639C>T	uc010lpk.2	+	55	8040	c.8040C>T	c.(8038-8040)GGC>GGT	p.G2680G		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2680					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCCTGGTGGGCGAAGAGCTGA	0.667													12	19					0	0	1	0	0		T	149500639	T	T	149500639	2	4	190	1	0	0	0	0	0	0	0	1	15214	755	27	1		1	SSPO	7	149500639	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	731763	149500639	9638024	574	94727											
ZNF862	643641	broad.mit.edu	37	chr7	149543278	149543278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgagctgttccgcaagttcGgacgagggccagagccatgg	8	7	15	11	3	0	2	0	1	0	1	2	4	1	3	3	3	2	4	3	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:149543278G>A	uc010lpn.2	+	3	367	c.175G>A	c.(175-177)GGA>AGA	p.G59R	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	59	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						CCGCAAGTTCGGACGAGGGCC	0.552													15	11					0	0	1	0	0		A	149543278	A	A	149543278	3	1	190	1	0	0	0	0	1	0	0	0	18220	1117	39	1	185	1	ZNF862	7	149543278	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	42639	149543278	9595385	575	94728											
ABCB8	11194	broad.mit.edu	37	chr7	150739068	150739068	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcccgtcctgtttgggacGaccatcatggaaaacatccg	10	8	11	12	3	1	0	1	0	0	0	3	4	3	2	4	2	2	1	4	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:150739068G>A	uc003wil.3	+	15	1782	c.1689G>A	c.(1687-1689)ACG>ACA	p.T563T	ABCB8_uc010lpw.1_3'UTR|ABCB8_uc010lpx.2_Silent_p.T546T|ABCB8_uc011kvd.1_Silent_p.T458T|ABCB8_uc003wim.3_Silent_p.T341T|ABCB8_uc003wik.3_Silent_p.T546T	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	563	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGTTTGGGACGACCATCATGG	0.542													44	38					0	0	1	0	0		A	150739068	A	A	150739068	2	1	190	1	0	0	0	0	0	0	0	1	47	1045	37	1		1	ABCB8	7	150739068	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1195790	150739068	8399595	576	94729											
MLL3	58508	broad.mit.edu	37	chr7	151841898	151841898	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	caaactgtttactataaggtGcgttcagttctccagtgact	10	14	8	9	1	2	1	1	1	1	0	3	1	2	1	1	1	3	3	1	1	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:151841898G>A	uc003wla.2	-	55	14462	c.14243C>T	c.(14242-14244)GCA>GTA	p.A4748V	MLL3_uc003wkz.2_Missense_Mutation_p.A3862V|MLL3_uc003wkx.2_Missense_Mutation_p.A906V|MLL3_uc003wky.2_Missense_Mutation_p.A2308V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4748					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACTATAAGGTGCGTTCAGTTC	0.448			N		medulloblastoma								65	36					0	0	1	0	0		A	151841898	A	A	151841898	3	1	190	1	0	0	0	0	1	0	0	0	9640	1319	46	2	512	2	MLL3	7	151841898	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1102830	151841898	7296765	577	94730											
MLL3	58508	broad.mit.edu	37	chr7	151877105	151877105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggttgccagtgttgaagaGgccctggatgaggcactgcg	7	9	16	9	1	0	3	0	2	0	1	0	4	0	4	2	4	2	3	2	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:151877105G>T	uc003wla.2	-	37	7475	c.7256C>A	c.(7255-7257)CCT>CAT	p.P2419H	MLL3_uc003wkz.2_Missense_Mutation_p.P1480H|MLL3_uc003wky.2_5'Flank	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2419	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GTGTTGAAGAGGCCCTGGATG	0.532			N		medulloblastoma								145	109					6.18772e-66	6.80786e-66	1	1	0		T	151877105	T	T	151877105	3	4	190	1	0	0	0	0	1	0	0	0	9640	1000	35	5	7571	5	MLL3	7	151877105	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	35207	151877105	7261558	578	94731											
MLL3	58508	broad.mit.edu	37	chr7	151891162	151891162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggagttggctgagtgttcGcaggactaagtacagctgta	10	11	14	6	1	0	1	0	1	0	0	1	3	0	3	0	3	2	7	0	3	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:151891162G>A	uc003wla.2	-	31	4811	c.4592C>T	c.(4591-4593)GCG>GTG	p.A1531V	MLL3_uc003wkz.2_Missense_Mutation_p.A592V	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1531					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CTGAGTGTTCGCAGGACTAAG	0.398			N		medulloblastoma								30	96					0	0	1	0	0		A	151891162	A	A	151891162	3	1	190	1	0	0	0	0	1	0	0	0	9640	1087	38	1	10259	1	MLL3	7	151891162	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	14057	151891162	7247501	579	94732											
MLL3	58508	broad.mit.edu	37	chr7	151935847	151935847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgggtttaaaaatttccCgaccttctgaaatgtctggg	9	13	10	9	1	2	1	0	1	2	0	3	2	3	1	3	2	0	1	3	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:151935847C>T	uc003wla.2	-	15	2816	c.2597G>A	c.(2596-2598)CGG>CAG	p.R866Q	MLL3_uc003wkz.2_5'UTR	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	866					intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		AAAAATTTCCCGACCTTCTGA	0.418			N		medulloblastoma								30	91					0	0	1	0	0		T	151935847	T	T	151935847	3	4	190	1	0	0	0	0	1	0	0	0	9640	652	23	1	12318	1	MLL3	7	151935847	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	44685	151935847	7202816	580	94733											
NOM1	64434	broad.mit.edu	37	chr7	156752777	156752777	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacgtgggtttttcattgaGgaaagatgatgctttatcac	12	14	10	5	1	2	3	2	2	0	1	2	4	2	4	0	2	2	2	0	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr7:156752777G>T	uc003wmy.2	+	4	1556	c.1541G>T	c.(1540-1542)AGG>ATG	p.R514M	NOM1_uc010lqp.1_5'Flank	NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	514	MIF4G.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		TTTTCATTGAGGAAAGATGAT	0.438													70	52					3.13743e-37	3.43919e-37	1	1	0		T	156752777	T	T	156752777	3	4	190	1	0	0	0	0	1	0	0	0	10549	1000	35	5	1555	5	NOM1	7	156752777	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4816930	156752777	2385886	581	94734											
ANGPT2	285	broad.mit.edu	37	chr8	6389908	6389908	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgctgtttggttcaacaggTttgtccctatttctatcatc	6	17	7	11	1	3	0	2	0	1	0	5	0	4	0	2	2	1	4	2	2	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:6389908T>A	uc003wqj.3	-	2	718	c.389A>T	c.(388-390)AAC>ATC	p.N130I	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.N130I|ANGPT2_uc010lri.2_Intron|ANGPT2_uc003wql.3_Missense_Mutation_p.N130I	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	130					angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		GTTCAACAGGTTTGTCCCTAT	0.448													27	13					0	0	1	0	0		A	6389908	A	A	6389908	3	1	190	1	0	0	0	0	1	0	0	0	611	1725	60	5	1133	5	ANGPT2	8	6389908	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08		6389908	139974114	582	94735											
XKR6	286046	broad.mit.edu	37	chr8	10755924	10755924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagtataagagcatcattgcGatcccagccacaaagctaat	15	9	7	10	1	1	1	1	0	0	1	2	2	2	1	2	0	4	3	2	0	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:10755924G>A	uc003wtk.1	-	3	1491	c.1464C>T	c.(1462-1464)ATC>ATT	p.I488I		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	488	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		GCATCATTGCGATCCCAGCCA	0.527													16	7					0	0	1	0	0		A	10755924	A	A	10755924	2	1	190	1	0	0	0	0	0	0	0	1	17461	1048	37	1		1	XKR6	8	10755924	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4366016	10755924	135608098	583	94736											
HR	55806	broad.mit.edu	37	chr8	21978590	21978590	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactcacactgggcagggcCggagtgacgggggcgaaggc	8	4	18	11	3	2	1	2	1	0	0	2	3	2	2	1	6	0	1	1	6	1	0	rs151306827	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:21978590C>T	uc003xas.2	-	10	3020	c.2355G>A	c.(2353-2355)CCG>CCA	p.P785P	HR_uc003xat.2_Silent_p.P785P	NM_005144	NP_005135	O43593	HAIR_HUMAN	hairless protein isoform a	785							DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|ovary(1)	2		Breast(100;0.000162)|Acute lymphoblastic leukemia(644;0.0775)|Prostate(55;0.116)		KIRC - Kidney renal clear cell carcinoma(542;1.19e-05)|BRCA - Breast invasive adenocarcinoma(99;3.56e-05)|Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		TGGGCAGGGCCGGAGTGACGG	0.662													5	28					0	0	1	0	0		T	21978590	T	T	21978590	2	4	190	1	0	0	0	0	0	0	0	1	7363	639	23	1		1	HR	8	21978590	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11222666	21978590	124385432	584	94737											
BMP1	649	broad.mit.edu	37	chr8	22064891	22064891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgttcgacgggcgagacGccaaggcccccgtcctcggc	6	5	15	15	6	0	1	0	0	0	1	3	3	1	1	4	4	0	1	4	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:22064891G>A	uc003xbg.2	+	18	2681	c.2437G>A	c.(2437-2439)GCC>ACC	p.A813T	BMP1_uc011kzc.1_Missense_Mutation_p.A562T|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	813	CUB 4.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CGGGCGAGACGCCAAGGCCCC	0.622													45	12					0	0	1	0	0		A	22064891	A	A	22064891	3	1	190	1	0	0	0	0	1	0	0	0	1457	1087	38	1	2597	1	BMP1	8	22064891	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	86301	22064891	124299131	585	94738											
TNFRSF10C	8794	broad.mit.edu	37	chr8	22972207	22972207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactggagcctgtaacccGtgcacagagggtgtggatta	10	9	13	9	1	0	1	0	0	0	1	0	3	0	3	2	3	4	2	2	3	3	3	rs74480765	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:22972207G>A	uc003xcy.2	+	3	405	c.204G>A	c.(202-204)CCG>CCA	p.P68P	TNFRSF10C_uc011kzr.1_RNA	NM_003841	NP_003832	O14798	TR10C_HUMAN	tumor necrosis factor receptor superfamily,	68					apoptosis	anchored to membrane|integral to plasma membrane	TRAIL binding|transmembrane receptor activity				0		Prostate(55;0.0421)|Breast(100;0.067)		Colorectal(74;0.0147)|COAD - Colon adenocarcinoma(73;0.0612)		CCTGTAACCCGTGCACAGAGG	0.468													4	43					0	0	1	0	0		A	22972207	A	A	22972207	2	1	190	1	0	0	0	0	0	0	0	1	16307	1132	40	1		1	TNFRSF10C	8	22972207	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	907316	22972207	123391815	586	94739											
LOXL2	4017	broad.mit.edu	37	chr8	23159604	23159604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actggcagtcgatgtcatggCggtacatgtcccagcagccc	8	8	12	13	2	1	0	1	0	0	0	3	1	2	0	2	3	3	3	2	3	1	1	rs141432206	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:23159604C>T	uc003xdh.1	-	12	2408	c.2069G>A	c.(2068-2070)CGC>CAC	p.R690H	LOXL2_uc010lty.1_Missense_Mutation_p.R229H	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	690	Lysyl-oxidase like.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		GATGTCATGGCGGTACATGTC	0.597													20	5					0	0	1	0	0		T	23159604	T	T	23159604	3	4	190	1	0	0	0	0	1	0	0	0	8918	768	27	1	267	1	LOXL2	8	23159604	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	187397	23159604	123204418	587	94740											
DOCK5	80005	broad.mit.edu	37	chr8	25224467	25224467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaccttctcacaagccaagCgcaacaaaattgttaaaaag	19	7	5	10	1	1	0	1	0	1	0	2	0	1	0	2	0	4	2	2	0	9	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:25224467C>T	uc003xeg.2	+	31	3342	c.3205C>T	c.(3205-3207)CGC>TGC	p.R1069C	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.R783C|DOCK5_uc003xei.2_Missense_Mutation_p.R639C|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1069						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		ACAAGCCAAGCGCAACAAAAT	0.383													16	5					0	0	1	0	0		T	25224467	T	T	25224467	3	4	190	1	0	0	0	0	1	0	0	0	4696	768	27	1	3327	1	DOCK5	8	25224467	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2064863	25224467	121139555	588	94741											
DOCK5	80005	broad.mit.edu	37	chr8	25226177	25226177	+	Missense_Mutation	SNP	T	C	C	0	1	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	agagctccggaaagccacaaTccccattttctttgatatga	12	11	7	11	1	1	3	0	2	1	1	3	4	3	4	4	1	2	1	4	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:25226177T>C	uc003xeg.2	+	33	3511	c.3374T>C	c.(3373-3375)ATC>ACC	p.I1125T	DOCK5_uc010luf.1_RNA|DOCK5_uc003xeh.1_Missense_Mutation_p.I839T|DOCK5_uc003xei.2_Missense_Mutation_p.I695T|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1125						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		AAAGCCACAATCCCCATTTTC	0.443													21	6					0	0	1	0	0		C	25226177	C	C	25226177	3	2	190	1	0	0	0	0	1	0	0	0	4696	1435	50	3	3504	3	DOCK5	8	25226177	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1710	25226177	121137845	589	94742											
TRIM35	23087	broad.mit.edu	37	chr8	27145238	27145238	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcatagaaagacagctcGccctcctcacactccagctc	10	7	7	17	2	2	2	2	0	0	2	6	2	4	2	3	0	2	2	3	0	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:27145238G>A	uc003xfl.1	-	6	1393	c.1311C>T	c.(1309-1311)GGC>GGT	p.G437G	TRIM35_uc010lup.1_3'UTR	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	437	B30.2/SPRY.				apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		AAGACAGCTCGCCCTCCTCAC	0.682													10	1					0	0	1	0	0		A	27145238	A	A	27145238	2	1	190	1	0	0	0	0	0	0	0	1	16535	1074	38	1		1	TRIM35	8	27145238	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1919061	27145238	119218784	590	94743											
C8orf80	389643	broad.mit.edu	37	chr8	27880849	27880849	+	Frame_Shift_Del	DEL	G	-	-																															aggagttacagtgatgtcccGggggggccagccttgctggg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:27880849delG	uc003xgm.3	-	19	2519	c.2376delC	c.(2374-2376)CCCfs	p.P792fs		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	792						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		GTGATGTCCCGGGGGGGCCAG	0.493													11	5	---	---	---	---						.	-	27880849	-	-	27880849	7	5	190	1	0	1	0	1	0	0	0	0	2442	1103	39	0	18	0	C8orf80	8	27880849	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	735611	27880849	118483173	591	94744											
WRN	7486	broad.mit.edu	37	chr8	30924662	30924662	+	Silent	SNP	T	C	C	0	1	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	tggagtaaatttcctctcacTgaggaccagaaactgtatgc	12	11	9	9	0	1	2	1	1	1	1	3	4	2	4	2	2	2	2	2	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:30924662T>C	uc003xio.3	+	6	1406	c.618T>C	c.(616-618)ACT>ACC	p.T206T		NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	206	Interaction with WRNIP1 (By similarity).|3'-5' exonuclease.				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		TTCCTCTCACTGAGGACCAGA	0.378			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				23	14					0	0	1	0	0		C	30924662	C	C	30924662	2	2	190	1	0	0	0	0	0	0	0	1	17428	1567	55	3		3	WRN	8	30924662	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3043813	30924662	115439360	592	94745											
FGFR1	2260	broad.mit.edu	37	chr8	38282215	38282215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgggccggtgaggggaccGctctgtggaagatgggagag	8	6	21	6	2	1	3	0	1	1	2	1	7	1	5	2	6	0	1	2	6	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:38282215G>A	uc003xlp.2	-	7	1690	c.748C>T	c.(748-750)CGG>TGG	p.R250W	FGFR1_uc011lbo.1_Missense_Mutation_p.R248W|FGFR1_uc011lbp.1_Missense_Mutation_p.R161W|FGFR1_uc011lbq.1_Missense_Mutation_p.R159W|FGFR1_uc010lwk.2_Missense_Mutation_p.R242W|FGFR1_uc011lbr.1_RNA|FGFR1_uc011lbs.1_Missense_Mutation_p.R90W|FGFR1_uc011lbt.1_Missense_Mutation_p.R159W|FGFR1_uc011lbu.1_Missense_Mutation_p.R281W|FGFR1_uc011lbv.1_Missense_Mutation_p.R248W|FGFR1_uc011lbw.1_Missense_Mutation_p.R161W|FGFR1_uc011lbx.1_Missense_Mutation_p.R161W|FGFR1_uc003xlv.2_Missense_Mutation_p.R161W|FGFR1_uc003xlu.2_Missense_Mutation_p.R159W	NM_023110	NP_075598	P11362	FGFR1_HUMAN	fibroblast growth factor receptor 1 isoform 1	250	Extracellular (Potential).		R -> W (in KAL2).		axon guidance|cell growth|insulin receptor signaling pathway|MAPKKK cascade|positive regulation of cell proliferation|skeletal system development	extracellular region|integral to plasma membrane|membrane fraction	ATP binding|fibroblast growth factor receptor activity|heparin binding|protein homodimerization activity			lung(5)|central_nervous_system(5)|stomach(2)|breast(2)|ovary(1)	15	all_cancers(2;9.05e-47)|all_epithelial(2;2.64e-50)|all_lung(3;1.71e-23)|Lung NSC(2;3.61e-23)|Colorectal(12;0.000442)	Breast(189;1.48e-05)|all_lung(54;0.00354)|Lung NSC(58;0.0138)|Hepatocellular(245;0.065)	Epithelial(3;3.96e-34)|all cancers(3;3.06e-30)|BRCA - Breast invasive adenocarcinoma(5;2.28e-21)|COAD - Colon adenocarcinoma(9;0.24)		Palifermin(DB00039)	TGAGGGGACCGCTCTGTGGAA	0.602		1	T	BCR|FOP|ZNF198|CEP1	MPD|NHL		Pfeiffer syndrome|Kallman syndrome						32	14					0	0	1	0	0		A	38282215	A	A	38282215	3	1	190	1	0	0	0	0	1	0	0	0	5877	1086	38	1	2008	1	FGFR1	8	38282215	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7357553	38282215	108081807	593	94746											
FNTA	2339	broad.mit.edu	37	chr8	42939925	42939925	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttgatttacaaccaagtcaTagttccccctacctaattgc	11	13	4	13	0	1	1	1	1	0	0	2	1	2	1	4	0	4	1	4	0	6	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:42939925T>C	uc003xps.2	+	8	966	c.918T>C	c.(916-918)CAT>CAC	p.H306H	FNTA_uc003xpt.2_Silent_p.H215H|FNTA_uc003xpu.2_Silent_p.H239H|FNTA_uc003xpv.2_RNA	NM_002027	NP_002018	P49354	FNTA_HUMAN	farnesyltransferase, CAAX box, alpha isoform a	306					cellular component disassembly involved in apoptosis|positive regulation of deacetylase activity|positive regulation of tubulin deacetylation|protein farnesylation|protein geranylgeranylation|transforming growth factor beta receptor signaling pathway	cytosol|microtubule associated complex	alpha-tubulin binding|CAAX-protein geranylgeranyltransferase activity|microtubule binding|protein farnesyltransferase activity			ovary(1)	1	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)			AACCAAGTCATAGTTCCCCCT	0.343													43	6					0	0	1	0	0		C	42939925	C	C	42939925	2	2	190	1	0	0	0	0	0	0	0	1	5991	1403	49	3		3	FNTA	8	42939925	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	4657710	42939925	103424097	594	94747											
PRKDC	5591	broad.mit.edu	37	chr8	48744483	48744483	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaggtccgtccggccggcCgcacctggagagggaaagca	9	4	16	12	4	0	1	0	0	0	1	2	3	2	2	5	5	1	3	5	5	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:48744483C>T	uc003xqi.2	-	61	8214	c.8157G>A	c.(8155-8157)GCG>GCA	p.A2719A	PRKDC_uc003xqj.2_Silent_p.A2719A|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2719	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				TCCGGCCGGCCGCACCTGGAG	0.557								NHEJ					50	136					0	0	1	0	0		T	48744483	T	T	48744483	2	4	190	1	0	0	0	0	0	0	0	1	12543	639	23	1		1	PRKDC	8	48744483	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5804558	48744483	97619539	595	94748											
ST18	9705	broad.mit.edu	37	chr8	53049172	53049172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagctcctgagagttggcagCcatgagggattttagagtct	10	11	13	7	0	1	3	0	2	1	2	2	5	2	4	2	2	2	3	2	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:53049172C>T	uc003xqz.2	-	14	2434	c.2278G>A	c.(2278-2280)GCT>ACT	p.A760T	ST18_uc011ldq.1_Missense_Mutation_p.A407T|ST18_uc011ldr.1_Missense_Mutation_p.A725T|ST18_uc011lds.1_Missense_Mutation_p.A665T|ST18_uc003xra.2_Missense_Mutation_p.A760T	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	760						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				GAGTTGGCAGCCATGAGGGAT	0.483													4	12					0	0	1	0	0		T	53049172	T	T	53049172	3	4	190	1	0	0	0	0	1	0	0	0	15237	739	26	2	897	2	ST18	8	53049172	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4304689	53049172	93314850	596	94749											
NPBWR1	2831	broad.mit.edu	37	chr8	53852868	53852868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccgtcatgagcgccgaccGctacctggtggtgttggcca	6	8	13	14	4	1	1	1	1	0	0	1	2	1	1	5	3	2	2	5	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:53852868G>A	uc011ldu.1	+	1	401	c.401G>A	c.(400-402)CGC>CAC	p.R134H		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	134	Cytoplasmic (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				AGCGCCGACCGCTACCTGGTG	0.667													13	27					0	0	1	0	0		A	53852868	A	A	53852868	3	1	190	1	0	0	0	0	1	0	0	0	10587	1087	38	1	403	1	NPBWR1	8	53852868	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	803696	53852868	92511154	597	94750											
RGS20	8601	broad.mit.edu	37	chr8	54791841	54791841	+	Silent	SNP	A	G	G	1	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	ttcccgcctgcacagctcccAgactcgcccgccgccccgaa	6	5	8	22	5	0	1	0	0	0	1	3	2	2	1	7	0	2	2	7	0	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:54791841A>G	uc003xrp.2	+	2	281	c.189A>G	c.(187-189)CCA>CCG	p.P63P	RGS20_uc003xrq.2_Intron|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrr.2_5'Flank|RGS20_uc003xrs.2_5'Flank|RGS20_uc003xrt.2_5'Flank	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	63					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			CACAGCTCCCAGACTCGCCCG	0.622													56	182					0	0	1	0	0		G	54791841	G	G	54791841	2	3	190	1	0	0	0	0	0	0	0	1	13328	175	7	3		3	RGS20	8	54791841	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	938973	54791841	91572181	598	94751											
SOX17	64321	broad.mit.edu	37	chr8	55371702	55371702	+	Missense_Mutation	SNP	A	G	G	1	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	gcgcgtgcagcacatgcaggAccaccccaactacaagtacc	12	4	9	16	2	0	0	0	0	0	0	0	1	0	1	4	1	6	4	4	1	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:55371702A>G	uc003xsb.3	+	2	596	c.392A>G	c.(391-393)GAC>GGC	p.D131G		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	131	HMG box.				angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			CACATGCAGGACCACCCCAAC	0.692													6	26					0	0	1	0	0		G	55371702	G	G	55371702	3	3	190	1	0	0	0	0	1	0	0	0	14972	275	10	3	398	3	SOX17	8	55371702	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	579861	55371702	90992320	599	94752											
YTHDF3	253943	broad.mit.edu	37	chr8	64100299	64100299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagaggaggaagccatgcGtagggtaagaatatagtaat	17	7	14	3	1	0	3	0	0	0	3	0	5	0	5	1	3	2	3	1	3	8	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:64100299G>A	uc003xuy.2	+	5	2046	c.1730G>A	c.(1729-1731)CGT>CAT	p.R577H	YTHDF3_uc010lys.2_Missense_Mutation_p.R521H|YTHDF3_uc003xuz.2_Missense_Mutation_p.R521H|YTHDF3_uc003xva.2_Missense_Mutation_p.R521H|YTHDF3_uc011len.1_Missense_Mutation_p.R521H	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	577											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			GAAGCCATGCGTAGGGTAAGA	0.383													7	17					0	0	1	0	0		A	64100299	A	A	64100299	3	1	190	1	0	0	0	0	1	0	0	0	17526	1145	40	1	1743	1	YTHDF3	8	64100299	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	8728597	64100299	82263723	600	94753											
CSPP1	79848	broad.mit.edu	37	chr8	68102923	68102923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctgccattgaagatgacGtcctccctccaccatcacag	10	9	6	16	1	1	3	1	2	0	1	5	3	5	3	6	0	1	0	6	0	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:68102923G>A	uc003xxi.2	+	29	3380	c.3349G>A	c.(3349-3351)GTC>ATC	p.V1117I	ARFGEF1_uc003xxl.1_Intron|CSPP1_uc003xxj.2_Missense_Mutation_p.V1082I|CSPP1_uc003xxk.2_Missense_Mutation_p.V737I|CSPP1_uc010lyw.2_Missense_Mutation_p.V177I	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	1117						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			TGAAGATGACGTCCTCCCTCC	0.488													27	69					0	0	1	0	0		A	68102923	A	A	68102923	3	1	190	1	0	0	0	0	1	0	0	0	3965	1145	40	1	3463	1	CSPP1	8	68102923	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4002624	68102923	78261099	601	94754											
ARFGEF1	10565	broad.mit.edu	37	chr8	68138270	68138270	+	Silent	SNP	A	G	G	1	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	cgctatacctgaggtctatcAgacacatattttgcacaatg	12	12	7	10	1	2	2	1	1	1	1	2	2	2	2	1	1	2	2	1	1	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:68138270A>G	uc003xxo.1	-	28	4455	c.4065T>C	c.(4063-4065)TCT>TCC	p.S1355S	ARFGEF1_uc003xxl.1_Silent_p.S809S|ARFGEF1_uc003xxn.1_Silent_p.S338S	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1355					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			GAGGTCTATCAGACACATATT	0.368													16	47					0	0	1	0	0		G	68138270	G	G	68138270	2	3	190	1	0	0	0	0	0	0	0	1	852	175	7	3		3	ARFGEF1	8	68138270	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	35347	68138270	78225752	602	94755											
PI15	51050	broad.mit.edu	37	chr8	75737491	75737491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccacccctcaaaatgataGcaatctctgccgtcagcagt	11	9	6	15	1	3	1	2	1	1	0	5	1	4	1	4	0	3	2	4	0	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:75737491G>A	uc003yal.2	+	2	186	c.7G>A	c.(7-9)GCA>ACA	p.A3T	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.A3T	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	3						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			CAAAATGATAGCAATCTCTGC	0.478													143	355					0	0	1	0	0		A	75737491	A	A	75737491	3	1	190	1	0	0	0	0	1	0	0	0	11887	971	34	2	9	2	PI15	8	75737491	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7599221	75737491	70626531	603	94756											
CRISPLD1	83690	broad.mit.edu	37	chr8	75937828	75937828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaatccacattatgctcGtgtaattggaactcgagttt	12	13	8	8	2	0	0	0	0	0	0	3	2	1	1	1	1	3	4	1	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:75937828G>A	uc003yan.2	+	13	1667	c.1292G>A	c.(1291-1293)CGT>CAT	p.R431H	CRISPLD1_uc011lfk.1_Missense_Mutation_p.R243H|CRISPLD1_uc011lfl.1_Missense_Mutation_p.R243H	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	431	LCCL 2.					extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			CATTATGCTCGTGTAATTGGA	0.249													23	59					0	0	1	0	0		A	75937828	A	A	75937828	3	1	190	1	0	0	0	0	1	0	0	0	3885	1145	40	1	1338	1	CRISPLD1	8	75937828	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	200337	75937828	70426194	604	94757											
ZFHX4	79776	broad.mit.edu	37	chr8	77616881	77616881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcttctgcacctatgtcGttctacccacagatcatcaa	9	13	5	14	1	5	1	2	0	3	1	6	1	5	1	2	0	3	3	2	0	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:77616881G>A	uc003yav.2	+	2	945	c.558G>A	c.(556-558)TCG>TCA	p.S186S	ZFHX4_uc003yat.1_Silent_p.S186S|ZFHX4_uc003yau.1_Silent_p.S186S|ZFHX4_uc003yaw.1_Silent_p.S186S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	186						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CACCTATGTCGTTCTACCCAC	0.483										HNSCC(33;0.089)			13	42					0	0	1	0	0		A	77616881	A	A	77616881	2	1	190	1	0	0	0	0	0	0	0	1	17660	1132	40	1		1	ZFHX4	8	77616881	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1679053	77616881	68747141	605	94758											
ZFHX4	79776	broad.mit.edu	37	chr8	77618388	77618388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcaccccaggcttgcccggGgtgagagttacacgtgtggc	6	8	14	13	2	1	1	1	1	0	1	1	2	1	1	3	4	2	2	3	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:77618388G>A	uc003yav.2	+	2	2452	c.2065G>A	c.(2065-2067)GGT>AGT	p.G689S	ZFHX4_uc003yat.1_Missense_Mutation_p.G689S|ZFHX4_uc003yau.1_Missense_Mutation_p.G689S|ZFHX4_uc003yaw.1_Missense_Mutation_p.G689S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	689						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCTTGCCCGGGGTGAGAGTTA	0.517										HNSCC(33;0.089)			20	40					0	0	1	0	0		A	77618388	A	A	77618388	3	1	190	1	0	0	0	0	1	0	0	0	17660	1232	43	4	2067	4	ZFHX4	8	77618388	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1507	77618388	68745634	606	94759											
ZFHX4	79776	broad.mit.edu	37	chr8	77763452	77763452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtgtaacctctgccagcGcagtttccgtacattccagg	9	11	9	12	2	1	0	0	0	1	0	3	0	3	0	4	1	4	4	4	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:77763452G>A	uc003yav.2	+	10	4547	c.4160G>A	c.(4159-4161)CGC>CAC	p.R1387H	ZFHX4_uc003yau.1_Missense_Mutation_p.R1432H|ZFHX4_uc003yaw.1_Missense_Mutation_p.R1387H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	1387	C2H2-type 11.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTCTGCCAGCGCAGTTTCCGT	0.468										HNSCC(33;0.089)			11	30					0	0	1	0	0		A	77763452	A	A	77763452	3	1	190	1	0	0	0	0	1	0	0	0	17660	1087	38	1	4329	1	ZFHX4	8	77763452	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	145064	77763452	68600570	607	94760											
ZFHX4	79776	broad.mit.edu	37	chr8	77775464	77775464	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccacctcctcctcctcctCctccttcatcctctctgtca	4	13	1	23	0	3	0	2	0	1	0	11	0	10	0	9	0	0	0	9	0	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:77775464C>A	uc003yav.2	+	11	9766	c.9379C>A	c.(9379-9381)CCT>ACT	p.P3127T		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3123	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			tcctcctcctcctccttcatc	0.363										HNSCC(33;0.089)			10	16					1.76689e-08	1.83831e-08	1	1	0		A	77775464	A	A	77775464	3	1	190	1	0	0	0	0	1	0	0	0	17660	855	30	5	9552	5	ZFHX4	8	77775464	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	12012	77775464	68588558	608	94761											
ZNF704	619279	broad.mit.edu	37	chr8	81577212	81577212	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggactgggaaggtgagacCggggccaggctgctcagccc	8	4	18	11	1	1	1	1	1	0	1	1	4	1	3	3	6	2	2	3	6	1	0	rs141074182		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:81577212C>T	uc003yby.1	-	6	997	c.765G>A	c.(763-765)CCG>CCA	p.P255P		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	255						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			AAGGTGAGACCGGGGCCAGGC	0.522													45	91					0	0	1	0	0		T	81577212	T	T	81577212	2	4	190	1	0	0	0	0	0	0	0	1	18132	639	23	1		1	ZNF704	8	81577212	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3801748	81577212	64786810	609	94762											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885905	88885905	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgcatggtgatgatgccgtActtggagcctccagcttcga	7	11	12	11	3	0	2	0	2	0	0	3	4	1	3	3	2	4	3	3	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:88885905A>G	uc003ydz.2	-	1	392	c.295T>C	c.(295-297)TAC>CAC	p.Y99H		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	99										ovary(1)	1						ATGATGCCGTACTTGGAGCCT	0.542													38	129					0	0	1	0	0		G	88885905	G	G	88885905	3	3	190	1	0	0	0	0	1	0	0	0	4275	391	14	3	896	3	DCAF4L2	8	88885905	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	7308693	88885905	57478117	610	94763											
CDH17	1015	broad.mit.edu	37	chr8	95188798	95188798	+	Missense_Mutation	SNP	T	C	C	0	1	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	agttctgccttactgagcctTcgtactttgactggagaaac	9	13	9	10	1	1	3	0	2	1	1	2	4	1	3	2	1	5	2	2	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:95188798T>C	uc003ygh.2	-	5	520	c.395A>G	c.(394-396)GAA>GGA	p.E132G	CDH17_uc011lgo.1_Missense_Mutation_p.E132G|CDH17_uc011lgp.1_Missense_Mutation_p.E132G	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	132	Extracellular (Potential).|Cadherin 2.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TACTGAGCCTTCGTACTTTGA	0.502													48	113					0	0	1	0	0		C	95188798	C	C	95188798	3	2	190	1	0	0	0	0	1	0	0	0	3105	1783	62	3	2159	3	CDH17	8	95188798	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	6302893	95188798	51175224	611	94764											
GEM	2669	broad.mit.edu	37	chr8	95272569	95272569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagaggaccagcttcggcGgcagtggtcctcaggggtag	7	7	17	10	2	2	1	2	0	0	1	4	2	3	2	2	6	1	3	2	6	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:95272569G>A	uc003ygj.2	-	2	412	c.163C>T	c.(163-165)CGC>TGC	p.R55C	GEM_uc003ygi.2_Missense_Mutation_p.R55C	NM_005261	NP_005252	P55040	GEM_HUMAN	GTP-binding mitogen-induced T-cell protein	55					cell surface receptor linked signaling pathway|immune response|small GTPase mediated signal transduction	internal side of plasma membrane	calmodulin binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding			lung(1)	1	Breast(36;4.65e-06)	Myeloproliferative disorder(644;0.204)	BRCA - Breast invasive adenocarcinoma(8;0.00691)			CAGCTTCGGCGGCAGTGGTCC	0.602													18	70					0	0	1	0	0		A	95272569	A	A	95272569	3	1	190	1	0	0	0	0	1	0	0	0	6344	1116	39	1	743	1	GEM	8	95272569	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	83771	95272569	51091453	612	94765											
KIAA1429	25962	broad.mit.edu	37	chr8	95556069	95556069	+	Silent	SNP	G	A	A	0	0	1	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	acttacccatatgctctattGtctggcagactgctatgggc	8	13	9	11	0	2	1	0	0	2	1	2	1	2	1	1	2	3	3	1	2	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:95556069G>A	uc003ygo.1	-	2	178	c.165C>T	c.(163-165)GAC>GAT	p.D55D	KIAA1429_uc003ygp.2_Silent_p.D55D	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	55					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			ATGCTCTATTGTCTGGCAGAC	0.353													87	163					0	0	1	0	0		A	95556069	A	A	95556069	2	1	190	1	0	0	0	0	0	0	0	1	8247	1368	48	4		4	KIAA1429	8	95556069	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	283500	95556069	50807953	613	94766											
PLEKHF2	79666	broad.mit.edu	37	chr8	96166569	96166569	+	Silent	SNP	A	G	G	1	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	gagggagacttaaggaatggAtggctaatcaagacaccaac	16	6	12	7	0	1	2	1	0	0	2	1	6	1	4	1	4	1	1	1	4	5	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:96166569A>G	uc003yhn.1	+	2	544	c.297A>G	c.(295-297)GGA>GGG	p.G99G		NM_024613	NP_078889	Q9H8W4	PKHF2_HUMAN	phafin 2	99	PH.					transport vesicle	metal ion binding|protein binding			ovary(2)	2	Breast(36;3.18e-05)					TAAGGAATGGATGGCTAATCA	0.338													75	144					0	0	1	0	0		G	96166569	G	G	96166569	2	3	190	1	0	0	0	0	0	0	0	1	12086	320	12	3		3	PLEKHF2	8	96166569	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	610500	96166569	50197453	614	94767											
STK3	6788	broad.mit.edu	37	chr8	99468194	99468194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtccagtgcttttaacCgcatctgtagttcttctaaa	8	15	9	9	1	3	0	0	0	3	0	4	0	4	0	2	2	2	4	2	2	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:99468194C>T	uc003yip.2	-	11	1493	c.1352G>A	c.(1351-1353)CGG>CAG	p.R451Q	STK3_uc003yio.2_Missense_Mutation_p.R479Q	NM_006281	NP_006272	Q13188	STK3_HUMAN	serine/threonine kinase 3	451	SARAH.|Potential.				apoptosis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of apoptosis	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein dimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	Breast(36;2.4e-06)	Breast(495;0.106)	OV - Ovarian serous cystadenocarcinoma(57;0.0382)	KIRC - Kidney renal clear cell carcinoma(542;9.44e-06)		TGCTTTTAACCGCATCTGTAG	0.388													7	26					0	0	1	0	0		T	99468194	T	T	99468194	3	4	190	1	0	0	0	0	1	0	0	0	15320	652	23	1	127	1	STK3	8	99468194	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3301625	99468194	46895828	615	94768											
CTHRC1	115908	broad.mit.edu	37	chr8	104388039	104388039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggggccaatggcattcCgggtacacctgggatcccag	7	7	13	14	1	0	0	0	0	0	0	2	1	2	1	5	5	1	2	5	5	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:104388039C>T	uc003ylk.2	+	2	323	c.224C>T	c.(223-225)CCG>CTG	p.P75L	CTHRC1_uc011lhq.1_Missense_Mutation_p.P75L	NM_138455	NP_612464	Q96CG8	CTHR1_HUMAN	collagen triple helix repeat containing 1	75	Collagen-like.					collagen				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)			AATGGCATTCCGGGTACACCT	0.522													47	135					0	0	1	0	0		T	104388039	T	T	104388039	3	4	190	1	0	0	0	0	1	0	0	0	4013	652	23	1	230	1	CTHRC1	8	104388039	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4919845	104388039	41975983	616	94769											
LRP12	29967	broad.mit.edu	37	chr8	105509439	105509440	+	Frame_Shift_Ins	INS	-	T	T																															ctggttggcaaaaaaagcagINStttttttcatctgagccatt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:105509439_105509440insT	uc003yma.2	-	5	1435_1436	c.1340_1341insA	c.(1339-1341)AACfs	p.N447fs	LRP12_uc003ymb.2_Frame_Shift_Ins_p.N428fs|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	447	Extracellular (Potential).|LDL-receptor class A 4.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AAAAAAAGCAGTTTTTTTCATC	0.421													124	87	---	---	---	---						.	T	105509440	T	T	105509439	7	5	190	1	0	1	1	0	0	0	0	0	8972	1020	36	0	1250	0	LRP12	8	105509439	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	1121400	105509439	40854583	617	94770											
TTC35	9694	broad.mit.edu	37	chr8	109489111	109489111	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaatatgagagctttgtttgGactttatatggtgagttgag	11	16	12	2	0	0	3	0	3	0	1	0	5	0	4	0	2	1	3	0	2	4	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:109489111G>C	uc003ymw.1	+	9	727	c.692G>C	c.(691-693)GGA>GCA	p.G231A		NM_014673	NP_055488	Q15006	TTC35_HUMAN	tetratricopeptide repeat domain 35	231						endoplasmic reticulum|nucleus	binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.34e-10)			GCTTTGTTTGGACTTTATATG	0.348													18	49					0	0	1	0	0		C	109489111	C	C	109489111	3	2	190	1	0	0	0	0	1	0	0	0	16729	1174	41	5	726	5	TTC35	8	109489111	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3979672	109489111	36874911	618	94771											
TMEM74	157753	broad.mit.edu	37	chr8	109796626	109796626	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgtgaggaggcagagcccCgcaatcacacagcggtccag	11	3	14	13	3	1	2	1	1	0	1	2	3	2	3	3	3	3	2	3	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:109796626C>T	uc003ymy.1	-	2	807	c.702G>A	c.(700-702)GCG>GCA	p.A234A	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	234	Helical; (Potential).				autophagy	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane|lysosomal membrane				ovary(1)|lung(1)|kidney(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(57;3.08e-10)			GGCAGAGCCCCGCAATCACAC	0.602													34	52					0	0	1	0	0		T	109796626	T	T	109796626	2	4	190	1	0	0	0	0	0	0	0	1	16227	639	23	1		1	TMEM74	8	109796626	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	307515	109796626	36567396	619	94772											
TRHR	7201	broad.mit.edu	37	chr8	110099973	110099973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctcatggtcttggtggccGcaggcctccccaacataaca	9	9	9	14	1	2	0	1	0	2	0	4	0	3	0	4	4	2	1	4	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:110099973G>A	uc003ymz.3	+	1	248	c.232G>A	c.(232-234)GCA>ACA	p.A78T		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	78	Helical; Name=2; (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			CTTGGTGGCCGCAGGCCTCCC	0.512													41	101					0	0	1	0	0		A	110099973	A	A	110099973	3	1	190	1	0	0	0	0	1	0	0	0	16506	1087	38	1	234	1	TRHR	8	110099973	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	303347	110099973	36264049	620	94773											
PKHD1L1	93035	broad.mit.edu	37	chr8	110441683	110441683	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacttcgtacacccagtcaaCagccacaggtatttttgaaa	13	11	6	11	1	1	1	1	1	0	0	2	1	1	1	2	1	4	2	2	1	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:110441683C>T	uc003yne.2	+	26	3219	c.3115C>T	c.(3115-3117)CAG>TAG	p.Q1039*		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1039	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ACCCAGTCAACAGCCACAGGT	0.353										HNSCC(38;0.096)			5	20					0	0	1	0	0		T	110441683	T	T	110441683	4	4	190	1	0	0	0	0	0	1	0	0	11991	479	17	4	3217	4	PKHD1L1	8	110441683	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	341710	110441683	35922339	621	94774											
PKHD1L1	93035	broad.mit.edu	37	chr8	110478930	110478930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcttcagtcagctttcaccGtttagcgttcaaccagcctt	7	14	7	13	2	4	0	4	0	0	0	4	0	4	0	3	0	5	4	3	0	2	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:110478930G>A	uc003yne.2	+	50	8641	c.8537G>A	c.(8536-8538)CGT>CAT	p.R2846H		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2846	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGCTTTCACCGTTTAGCGTTC	0.438										HNSCC(38;0.096)			8	25					0	0	1	0	0		A	110478930	A	A	110478930	3	1	190	1	0	0	0	0	1	0	0	0	11991	1145	40	1	8735	1	PKHD1L1	8	110478930	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	37247	110478930	35885092	622	94775											
TRPS1	7227	broad.mit.edu	37	chr8	116599370	116599370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccaagccataaataggtCgcgccagatgggcggcctcc	10	5	12	14	3	0	1	0	0	0	1	2	1	1	1	5	3	2	0	5	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:116599370C>T	uc003ynz.2	-	4	2978	c.2519G>A	c.(2518-2520)CGA>CAA	p.R840Q	TRPS1_uc011lhy.1_Missense_Mutation_p.R844Q|TRPS1_uc003yny.2_Missense_Mutation_p.R853Q|TRPS1_uc010mcy.2_Missense_Mutation_p.R840Q	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	840					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			ATAAATAGGTCGCGCCAGATG	0.612									Langer-Giedion_syndrome				35	76					0	0	1	0	0		T	116599370	T	T	116599370	3	4	190	1	0	0	0	0	1	0	0	0	16619	884	31	1	1338	1	TRPS1	8	116599370	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6120440	116599370	29764652	623	94776											
TRPS1	7227	broad.mit.edu	37	chr8	116599476	116599476	+	Missense_Mutation	SNP	A	G	G	1	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	caggcttgcttgggtgtatgAcggactcccccgcaggatgt	6	10	14	11	2	0	1	0	1	0	0	1	3	1	3	2	4	1	4	2	4	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:116599476A>G	uc003ynz.2	-	4	2872	c.2413T>C	c.(2413-2415)TCA>CCA	p.S805P	TRPS1_uc011lhy.1_Missense_Mutation_p.S809P|TRPS1_uc003yny.2_Missense_Mutation_p.S818P|TRPS1_uc010mcy.2_Missense_Mutation_p.S805P	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	805	Mediates interaction with GLI3.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGGGTGTATGACGGACTCCCC	0.567									Langer-Giedion_syndrome				93	190					0	0	1	0	0		G	116599476	G	G	116599476	3	3	190	1	0	0	0	0	1	0	0	0	16619	275	10	3	1444	3	TRPS1	8	116599476	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	106	116599476	29764546	624	94777											
SLC30A8	169026	broad.mit.edu	37	chr8	118165289	118165289	+	Silent	SNP	G	A	A	0	0	1	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	tccctgtggttgtcatcgaaGcctccctctaagcggctgac	6	11	10	14	2	2	1	1	1	1	0	5	2	4	1	3	2	2	2	3	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:118165289G>A	uc003yoh.2	+	3	608	c.378G>A	c.(376-378)AAG>AAA	p.K126K	SLC30A8_uc010mcz.2_Silent_p.K77K|SLC30A8_uc011lia.1_Silent_p.K77K|SLC30A8_uc003yog.2_Silent_p.K77K	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	126	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			TGTCATCGAAGCCTCCCTCTA	0.517													19	39					0	0	1	0	0		A	118165289	A	A	118165289	2	1	190	1	0	0	0	0	0	0	0	1	14586	962	34	2		2	SLC30A8	8	118165289	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1565813	118165289	28198733	625	94778											
COL14A1	7373	broad.mit.edu	37	chr8	121298186	121298186	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggacctgaaattaggaaaAttttttatggaagctttcac	15	13	8	5	0	1	1	1	1	0	0	1	4	1	4	1	3	1	1	1	3	7	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:121298186A>T	uc003yox.2	+	33	4319	c.4054A>T	c.(4054-4056)ATT>TTT	p.I1352F	COL14A1_uc003yoz.2_Missense_Mutation_p.I317F	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1352	Nonhelical region (NC4).|TSP N-terminal.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			AATTAGGAAAATTTTTTATGG	0.313													6	72					0	0	1	0	0		T	121298186	T	T	121298186	3	4	190	1	0	0	0	0	1	0	0	0	3674	101	4	5	4180	5	COL14A1	8	121298186	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	3132897	121298186	25065836	626	94779											
WISP1	8840	broad.mit.edu	37	chr8	134232918	134232918	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tacaactgcacgtgcatcgaCggcgcggtgggctgcacacc	8	6	13	14	5	0	0	0	0	0	0	1	1	0	0	1	3	5	4	1	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:134232918C>T	uc003yub.2	+	3	520	c.444C>T	c.(442-444)GAC>GAT	p.D148D	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	148	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			CGTGCATCGACGGCGCGGTGG	0.667													40	83					0	0	1	0	0		T	134232918	T	T	134232918	2	4	190	1	0	0	0	0	0	0	0	1	17398	535	19	1		1	WISP1	8	134232918	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	12934732	134232918	12131104	627	94780											
ZFAT	57623	broad.mit.edu	37	chr8	135622763	135622763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttatgatgggtttcttcGccccagaaagctgtctggcc	7	12	10	12	1	2	2	0	1	2	1	3	2	2	2	3	2	1	2	3	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:135622763G>A	uc003yup.2	-	4	759	c.584C>T	c.(583-585)GCG>GTG	p.A195V	ZFAT_uc003yun.2_Missense_Mutation_p.A183V|ZFAT_uc003yuo.2_Missense_Mutation_p.A183V|ZFAT_uc010meh.2_Missense_Mutation_p.A183V|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.A183V|ZFAT_uc010mej.2_Intron|ZFAT_uc003yur.2_Missense_Mutation_p.A183V	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GGGTTTCTTCGCCCCAGAAAG	0.488													23	67					0	0	1	0	0		A	135622763	A	A	135622763	3	1	190	1	0	0	0	0	1	0	0	0	17657	1087	38	1	3199	1	ZFAT	8	135622763	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1389845	135622763	10741259	628	94781											
SLC45A4	57210	broad.mit.edu	37	chr8	142228560	142228560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgtagccgccgagggcGtcttttgtgggggagccact	4	10	17	10	3	1	0	0	0	1	0	1	2	1	1	3	4	2	1	3	4	1	3	rs12679511		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:142228560G>A	uc003ywd.1	-	4	1334	c.1026C>T	c.(1024-1026)GAC>GAT	p.D342D	SLC45A4_uc003ywc.1_Silent_p.D342D|SLC45A4_uc010meq.1_Silent_p.D340D	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	393					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CGCCGAGGGCGTCTTTTGTGG	0.632													26	61					0	0	1	0	0		A	142228560	A	A	142228560	2	1	190	1	0	0	0	0	0	0	0	1	14668	1136	40	1		1	SLC45A4	8	142228560	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6605797	142228560	4135462	629	94782											
FLJ43860	389690	broad.mit.edu	37	chr8	142446864	142446864	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgcgcccaggcggtgcagCgtgtctgacacggtgcccat	5	7	15	14	5	1	1	0	1	1	0	1	1	1	1	2	3	4	1	2	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:142446864C>T	uc003ywi.2	-	27	3402	c.3321G>A	c.(3319-3321)ACG>ACA	p.T1107T	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_Intron	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	1107							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGCGGTGCAGCGTGTCTGACA	0.652													12	26					0	0	1	0	0		T	142446864	T	T	142446864	2	4	190	1	0	0	0	0	0	0	0	1	5944	755	27	1		1	FLJ43860	8	142446864	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	218304	142446864	3917158	630	94783											
JRK	8629	broad.mit.edu	37	chr8	143746320	143746320	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggcaaacgcaaccgacggCcacagcttcctccaggcccg	9	4	10	18	5	0	0	0	0	0	0	3	1	2	0	5	3	3	3	5	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:143746320C>T	uc003ywo.2	-	2	1672	c.1158G>A	c.(1156-1158)TGG>TGA	p.W386*	JRK_uc003ywp.2_Nonsense_Mutation_p.W386*|JRK_uc010mew.1_Nonsense_Mutation_p.W386*	NM_001077527	NP_001070995			jerky isoform b												0	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)				caaccgacggccacagcttcc	0													6	11					0	0	1	0	0		T	143746320	T	T	143746320	4	4	190	1	0	0	0	0	0	1	0	0	7980	740	26	2	648	2	JRK	8	143746320	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1299456	143746320	2617702	631	94784											
JRK	8629	broad.mit.edu	37	chr8	143747244	143747244	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgggcgtgtgcagcgtgcgCcgctgctccagcgccttgtt	2	11	15	13	5	0	0	0	0	0	0	1	0	1	0	3	1	5	4	3	1	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:143747244C>T	uc003ywo.2	-	2	748	c.234G>A	c.(232-234)CGG>CGA	p.R78R	JRK_uc003ywp.2_Silent_p.R78R|JRK_uc010mew.1_Silent_p.R78R	NM_001077527	NP_001070995			jerky isoform b												0	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)				gcagcgtgcgccgctgctcca	0													6	9					0	0	1	0	0		T	143747244	T	T	143747244	2	4	190	1	0	0	0	0	0	0	0	1	7980	726	26	2		2	JRK	8	143747244	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	924	143747244	2616778	632	94785											
C8orf31	286122	broad.mit.edu	37	chr8	144124626	144124626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctggctgccaggaccaccGcattgcagaggtctcccttg	6	9	12	14	1	1	1	0	0	1	1	2	2	1	2	4	3	3	4	4	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:144124626G>A	uc003yxp.1	+	3	485	c.133G>A	c.(133-135)GCA>ACA	p.A45T	C8orf31_uc003yxq.1_RNA|C8orf31_uc003yxr.1_RNA	NM_173687	NP_775958	Q8N9H6	CH031_HUMAN	hypothetical protein LOC286122	45										ovary(1)	1	all_cancers(97;1.89e-10)|all_epithelial(106;8.73e-09)|Lung NSC(106;0.000161)|all_lung(105;0.000447)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CAGGACCACCGCATTGCAGAG	0.627													12	32					0	0	1	0	0		A	144124626	A	A	144124626	3	1	190	1	0	0	0	0	1	0	0	0	2423	1087	38	1	139	1	C8orf31	8	144124626	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	377382	144124626	2239396	633	94786											
C8orf73	642475	broad.mit.edu	37	chr8	144652731	144652731	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcgggccagcttgtgcaGctgtgtgaccagcgcaagca	7	7	15	12	2	0	1	0	1	0	0	0	1	0	1	2	1	6	6	2	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:144652731G>C	uc010mff.2	-	5	861	c.817C>G	c.(817-819)CTG>GTG	p.L273V	C8orf73_uc010mfg.1_Missense_Mutation_p.L273V	NM_001100878	NP_001094348	A6NGR9	CH073_HUMAN	hypothetical protein LOC642475	273							binding			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			AGCTTGTGCAGCTGTGTGACC	0.637													22	46					0	0	1	0	0		C	144652731	C	C	144652731	3	2	190	1	0	0	0	0	1	0	0	0	2438	962	34	5	1382	5	C8orf73	8	144652731	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	528105	144652731	1711291	634	94787											
SCRIB	23513	broad.mit.edu	37	chr8	144893468	144893468	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgaggtggttccggtccacGttgaggttggtcagcttagt	5	13	15	8	3	1	1	1	1	0	0	4	2	3	1	2	5	1	4	2	5	1	4	rs145794409		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:144893468G>A	uc003yzp.1	-	10	961	c.954C>T	c.(952-954)AAC>AAT	p.N318N	SCRIB_uc003yzo.1_Silent_p.N318N	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	318	LRR 13.|Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			TCCGGTCCACGTTGAGGTTGG	0.667													10	19					0	0	1	0	0		A	144893468	A	A	144893468	2	1	190	1	0	0	0	0	0	0	0	1	13962	1136	40	1		1	SCRIB	8	144893468	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	240737	144893468	1470554	635	94788											
PLEC	5339	broad.mit.edu	37	chr8	144998018	144998018	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccgactcctgctccgctcGctcccgcaggcgccgcgcct	2	6	11	22	8	0	0	0	0	0	0	4	1	3	0	6	1	1	4	6	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:144998018G>A	uc003zaf.1	-	31	6660	c.6490C>T	c.(6490-6492)CGA>TGA	p.R2164*	PLEC_uc003zab.1_Nonsense_Mutation_p.R2027*|PLEC_uc003zac.1_Nonsense_Mutation_p.R2031*|PLEC_uc003zad.2_Nonsense_Mutation_p.R2027*|PLEC_uc003zae.1_Nonsense_Mutation_p.R1995*|PLEC_uc003zag.1_Nonsense_Mutation_p.R2005*|PLEC_uc003zah.2_Nonsense_Mutation_p.R2013*|PLEC_uc003zaj.2_Nonsense_Mutation_p.R2054*	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	2164	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGCTCCGCTCGCTCCCGCAGG	0.716													8	3					0	0	1	0	0		A	144998018	A	A	144998018	4	1	190	1	0	0	0	0	0	1	0	0	12071	1095	38	1	7572	1	PLEC	8	144998018	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	104550	144998018	1366004	636	94789											
GRINA	2907	broad.mit.edu	37	chr8	145066726	145066726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcatcttcatccggaacCgcatcctggagatcgtgtac	8	11	9	13	3	3	1	1	0	2	1	6	3	5	2	3	2	3	3	3	2	2	2	rs145548367		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:145066726C>T	uc003zan.1	+	6	1082	c.916C>T	c.(916-918)CGC>TGC	p.R306C	GRINA_uc003zao.1_Missense_Mutation_p.R306C|GRINA_uc003zap.1_Missense_Mutation_p.R306C	NM_001009184	NP_001009184	Q7Z429	GRINA_HUMAN	glutamate receptor, ionotropic, N-methyl	306						integral to membrane				central_nervous_system(1)	1	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)			CATCCGGAACCGCATCCTGGA	0.622													18	32					0	0	1	0	0		T	145066726	T	T	145066726	3	4	190	1	0	0	0	0	1	0	0	0	6801	652	23	1	934	1	GRINA	8	145066726	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	68708	145066726	1297296	637	94790											
HEATR7A	727957	broad.mit.edu	37	chr8	145234370	145234370	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgcagctggcacacccaTaccgagcagcggtcctgagg	8	5	12	16	3	0	1	0	1	0	0	2	2	2	1	4	3	4	4	4	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:145234370T>C	uc003zbk.3	+	5	418	c.181T>C	c.(181-183)TAC>CAC	p.Y61H	HEATR7A_uc003zbg.2_Missense_Mutation_p.Y61H|HEATR7A_uc003zbh.3_Missense_Mutation_p.Y61H|HEATR7A_uc003zbi.3_Missense_Mutation_p.Y61H|HEATR7A_uc011lla.1_Missense_Mutation_p.Y61H|HEATR7A_uc010mft.2_Missense_Mutation_p.Y61H	NM_032450	NP_115826	Q8NDA8	HTR7A_HUMAN	HEAT repeat containing 7A isoform 1	61							binding				0						GGCACACCCATACCGAGCAGC	0.622													15	33					0	0	1	0	0		C	145234370	C	C	145234370	3	2	190	1	0	0	0	0	1	0	0	0	7050	1406	49	3	191	3	HEATR7A	8	145234370	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	167644	145234370	1129652	638	94791											
KIFC2	90990	broad.mit.edu	37	chr8	145698298	145698298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggcccagaccataaaccGctcgctgctggcgctaggag	9	5	14	13	3	0	1	0	0	0	1	1	3	0	3	3	4	2	4	3	4	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:145698298G>A	uc003zcz.2	+	17	2047	c.1982G>A	c.(1981-1983)CGC>CAC	p.R661H	KIFC2_uc003zda.2_Missense_Mutation_p.R49H	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	661	Kinesin-motor.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			ACCATAAACCGCTCGCTGCTG	0.652													4	3					0	0	1	0	0		A	145698298	A	A	145698298	3	1	190	1	0	0	0	0	1	0	0	0	8329	1087	38	1	2048	1	KIFC2	8	145698298	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	463928	145698298	665724	639	94792											
COMMD5	28991	broad.mit.edu	37	chr8	146076123	146076123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccagggccacgctgtaccGcagctcctggaacttggctg	7	7	13	14	2	0	0	0	0	0	0	1	2	1	1	4	3	3	5	4	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr8:146076123G>A	uc003zem.2	-	2	732	c.601C>T	c.(601-603)CGG>TGG	p.R201W	COMMD5_uc003zel.1_RNA|COMMD5_uc003zen.2_Missense_Mutation_p.R201W|COMMD5_uc003zeo.3_Missense_Mutation_p.R201W|COMMD5_uc010mgf.2_Missense_Mutation_p.R201W	NM_001081004	NP_001074473	Q9GZQ3	COMD5_HUMAN	COMM domain containing 5	201	COMM.					nucleus	protein binding			ovary(1)	1	all_cancers(97;1.14e-11)|all_epithelial(106;7.74e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		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)			ACGCTGTACCGCAGCTCCTGG	0.597													9	36					0	0	1	0	0		A	146076123	A	A	146076123	3	1	190	1	0	0	0	0	1	0	0	0	3722	1086	38	1	77	1	COMMD5	8	146076123	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	377825	146076123	287899	640	94793											
VLDLR	7436	broad.mit.edu	37	chr9	2635519	2635519	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgctgtattacgctgttgtGgaaatgtgatggggatgaag	9	13	15	4	2	0	2	0	2	0	0	1	4	0	4	0	3	1	4	0	3	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:2635519G>T	uc003zhk.1	+	2	546	c.149G>T	c.(148-150)TGG>TTG	p.W50L	VLDLR_uc003zhl.1_Missense_Mutation_p.W50L|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Missense_Mutation_p.W50L	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	50	Extracellular (Potential).|LDL-receptor class A 1.				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		ACGCTGTTGTGGAAATGTGAT	0.408													9	195					9.70103e-10	1.01711e-09	1	1	0		T	2635519	T	T	2635519	3	4	190	1	0	0	0	0	1	0	0	0	17200	1357	47	5	155	5	VLDLR	9	2635519	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08		2635519	138577912	641	94794											
VLDLR	7436	broad.mit.edu	37	chr9	2646515	2646515	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctgtttaactctgacttgCgagagcctgcctccatagct	7	13	8	13	1	1	2	0	1	1	1	3	3	3	2	4	0	5	2	4	0	2	4	rs141396971		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:2646515C>T	uc003zhk.1	+	11	2063	c.1666C>T	c.(1666-1668)CGA>TGA	p.R556*	VLDLR_uc003zhl.1_Nonsense_Mutation_p.R556*|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Nonsense_Mutation_p.R515*	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	556	LDL-receptor class B 3.|Extracellular (Potential).				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		CTCTGACTTGCGAGAGCCTGC	0.478													31	31					0	0	1	0	0		T	2646515	T	T	2646515	4	4	190	1	0	0	0	0	0	1	0	0	17200	760	27	1	1708	1	VLDLR	9	2646515	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	10996	2646515	138566916	642	94795											
TYRP1	7306	broad.mit.edu	37	chr9	12708067	12708068	+	Frame_Shift_Ins	INS	-	C	C																															acaacatggtgccattctggINScccccagtcaccaacacaga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:12708067_12708068insC	uc003zkv.3	+	7	1510_1511	c.1332_1333insC	c.(1330-1335)TGGCCCfs	p.W444fs		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	444_445	Lumenal, melanosome (Potential).				melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		TGCCATTCTGGCCCCCAGTCAC	0.376									Oculocutaneous_Albinism				19	32	---	---	---	---						.	C	12708068	C	C	12708067	7	5	190	1	0	1	1	0	0	0	0	0	16842	1212	42	0	1354	0	TYRP1	9	12708067	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	10061552	12708067	128505364	643	94796											
MPDZ	8777	broad.mit.edu	37	chr9	13112118	13112118	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctgcctactcctccagcaaTgctgattcccagtgagtcag	8	10	9	14	0	1	2	1	2	0	0	4	2	4	2	4	0	4	3	4	0	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:13112118T>C	uc010mhy.2	-	41	5593	c.5542A>G	c.(5542-5544)ATC>GTC	p.I1848V	MPDZ_uc003zkx.3_Intron|MPDZ_uc003zky.3_Missense_Mutation_p.I411V|MPDZ_uc010mib.2_Missense_Mutation_p.I582V|MPDZ_uc010mhx.2_Missense_Mutation_p.I699V|MPDZ_uc011lmm.1_Missense_Mutation_p.I736V|MPDZ_uc003zkz.3_Missense_Mutation_p.I570V|MPDZ_uc010mhz.2_Missense_Mutation_p.I1844V|MPDZ_uc011lmn.1_Missense_Mutation_p.I1815V|MPDZ_uc003zlb.3_Missense_Mutation_p.I1848V	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1877	PDZ 12.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		CCTCCAGCAATGCTGATTCCC	0.438													5	31					0	0	1	0	0		C	13112118	C	C	13112118	3	2	190	1	0	0	0	0	1	0	0	0	9740	1464	51	3	603	3	MPDZ	9	13112118	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	404051	13112118	128101313	644	94797											
MPDZ	8777	broad.mit.edu	37	chr9	13125277	13125277	+	Frame_Shift_Del	DEL	T	-	-																															tcagagactgggagctgttcTttttttctccactggctgca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:13125277delT	uc010mia.1	-	34	4802	c.4745delA	c.(4744-4746)AAGfs	p.K1582fs	MPDZ_uc003zky.3_Frame_Shift_Del_p.K144fs|MPDZ_uc010mib.2_Frame_Shift_Del_p.K287fs|MPDZ_uc010mhx.2_Frame_Shift_Del_p.K404fs|MPDZ_uc011lmm.1_Frame_Shift_Del_p.K441fs|MPDZ_uc003zkz.3_Frame_Shift_Del_p.K275fs|MPDZ_uc010mhy.2_Frame_Shift_Del_p.K1582fs|MPDZ_uc010mhz.2_Frame_Shift_Del_p.K1549fs|MPDZ_uc011lmn.1_Frame_Shift_Del_p.K1549fs|MPDZ_uc003zlb.3_Frame_Shift_Del_p.K1582fs	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1582					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		GGAGCTGTTCTTTTTTTCTCC	0.517													38	47	---	---	---	---						.	-	13125277	-	-	13125277	7	5	190	1	0	1	0	1	0	0	0	0	9740	1609	56	0	1428	0	MPDZ	9	13125277	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	13159	13125277	128088154	645	94798											
NFIB	4781	broad.mit.edu	37	chr9	14125655	14125655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcaactccaggtattcCgggatggtggtgctggggga	6	10	18	7	1	0	0	0	0	0	0	2	2	2	2	2	6	3	3	2	6	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:14125655C>T	uc003zle.2	-	7	1471	c.1036G>A	c.(1036-1038)GGA>AGA	p.G346R	NFIB_uc003zld.2_Missense_Mutation_p.G94R|NFIB_uc003zlf.2_Missense_Mutation_p.G346R|NFIB_uc011lmo.1_Missense_Mutation_p.G346R	NM_005596	NP_005587	O00712	NFIB_HUMAN	nuclear factor I/B	346					anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity				0				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		CCAGGTATTCCGGGATGGTGG	0.522			T	MYB|HGMA2	adenoid cystic carcinoma|lipoma								54	65					0	0	1	0	0		T	14125655	T	T	14125655	3	4	190	1	0	0	0	0	1	0	0	0	10390	661	23	1	238	1	NFIB	9	14125655	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1000378	14125655	127087776	646	94799											
ZDHHC21	340481	broad.mit.edu	37	chr9	14662273	14662273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggctacagtgatgggaaCgctttggtctcatcaaatta	11	11	11	8	2	2	1	2	1	1	0	3	2	2	2	0	3	3	2	0	3	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:14662273C>T	uc003zli.2	-	6	775	c.305G>A	c.(304-306)CGT>CAT	p.R102H	ZDHHC21_uc003zlg.1_Intron	NM_178566	NP_848661	Q8IVQ6	ZDH21_HUMAN	zinc finger, DHHC-type containing 21	102	DHHC-type.				nitric oxide metabolic process|regulation of nitric-oxide synthase activity	Golgi membrane|integral to membrane	palmitoyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(50;4.31e-06)		GTGATGGGAACGCTTTGGTCT	0.418													20	20					0	0	1	0	0		T	14662273	T	T	14662273	3	4	190	1	0	0	0	0	1	0	0	0	17637	536	19	1	504	1	ZDHHC21	9	14662273	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	536618	14662273	126551158	647	94800											
FREM1	158326	broad.mit.edu	37	chr9	14776179	14776179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacaccccgtgctcggtccGcagtccattgctgatgatga	9	9	10	13	3	0	3	0	3	0	0	3	3	2	3	4	1	3	3	4	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:14776179G>A	uc003zlm.2	-	25	5055	c.4465C>T	c.(4465-4467)CGG>TGG	p.R1489W	FREM1_uc010mic.2_Intron|FREM1_uc003zlk.2_5'Flank|FREM1_uc003zll.2_Missense_Mutation_p.R25W	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	1489	CSPG 11.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TGCTCGGTCCGCAGTCCATTG	0.522													17	19					0	0	1	0	0		A	14776179	A	A	14776179	3	1	190	1	0	0	0	0	1	0	0	0	6058	1086	38	1	2126	1	FREM1	9	14776179	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	113906	14776179	126437252	648	94801											
FREM1	158326	broad.mit.edu	37	chr9	14842482	14842482	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcacaacattggttatgaGgaacgggggactatcatctt	13	11	10	7	1	3	1	2	1	1	0	3	3	3	3	0	4	2	1	0	4	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:14842482G>T	uc003zlm.2	-	9	2160	c.1570C>A	c.(1570-1572)CTC>ATC	p.L524I	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	524	CSPG 3.				cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		TTGGTTATGAGGAACGGGGGA	0.507													48	71					2.65591e-33	2.89859e-33	1	1	0		T	14842482	T	T	14842482	3	4	190	1	0	0	0	0	1	0	0	0	6058	1000	35	5	5135	5	FREM1	9	14842482	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	66303	14842482	126370949	649	94802											
CNTLN	54875	broad.mit.edu	37	chr9	17235698	17235698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaataaatgaccttgtaaaaCggaaaattgcagtagatgaa	20	9	8	4	1	0	3	0	2	0	1	0	4	0	4	1	1	2	3	1	1	9	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:17235698C>T	uc003zmz.2	+	4	603	c.577C>T	c.(577-579)CGG>TGG	p.R193W	CNTLN_uc003zmx.3_Missense_Mutation_p.R193W|CNTLN_uc003zmy.2_Missense_Mutation_p.R193W|CNTLN_uc010mio.2_5'Flank	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	193						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		CCTTGTAAAACGGAAAATTGC	0.299													29	62					0	0	1	0	0		T	17235698	T	T	17235698	3	4	190	1	0	0	0	0	1	0	0	0	3642	527	19	1	591	1	CNTLN	9	17235698	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2393216	17235698	123977733	650	94803											
LINGO2	158038	broad.mit.edu	37	chr9	27949660	27949660	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggaggagaagacattctctTccaaagtttccagcaggttc	11	10	11	9	0	1	2	0	0	1	2	5	4	3	3	2	3	1	3	2	3	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:27949660T>C	uc003zqu.1	-	2	1204	c.1010A>G	c.(1009-1011)GAA>GGA	p.E337G	LINGO2_uc010mjf.1_Missense_Mutation_p.E337G|LINGO2_uc003zqv.1_Missense_Mutation_p.E337G	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	337	Extracellular (Potential).|LRR 12.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		GACATTCTCTTCCAAAGTTTC	0.557													33	43					0	0	1	0	0		C	27949660	C	C	27949660	3	2	190	1	0	0	0	0	1	0	0	0	8832	1783	62	3	814	3	LINGO2	9	27949660	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	10713962	27949660	113263771	651	94804											
DNAJA1	3301	broad.mit.edu	37	chr9	33029981	33029981	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaatgtgatttgtgacaaaTgtgaaggtacggtgtttttt	11	16	12	2	1	0	4	0	3	0	1	0	4	0	4	0	2	1	2	0	2	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:33029981T>C	uc003zsd.1	+	4	592	c.409T>C	c.(409-411)TGT>CGT	p.C137R	DNAJA1_uc011lnt.1_5'UTR|DNAJA1_uc003zse.1_Missense_Mutation_p.C137R	NM_001539	NP_001530	P31689	DNJA1_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 1	137	CR-type.|CXXCXGXG motif.	Zinc 1 (By similarity).			protein folding|response to heat|response to unfolded protein	membrane	ATP binding|heat shock protein binding|low-density lipoprotein particle receptor binding|metal ion binding|unfolded protein binding				0			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.102)		TTGTGACAAATGTGAAGGTAC	0.313													10	92					0	0	1	0	0		C	33029981	C	C	33029981	3	2	190	1	0	0	0	0	1	0	0	0	4617	1464	51	3	419	3	DNAJA1	9	33029981	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	5080321	33029981	108183450	652	94805											
UNC13B	10497	broad.mit.edu	37	chr9	35386181	35386181	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacaagaactgcaaagccCtccaagagccagccaggtgg	13	4	12	12	0	0	2	0	0	0	2	1	2	1	2	4	3	6	2	4	3	5	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:35386181C>A	uc003zwq.2	+	23	3030	c.2738C>A	c.(2737-2739)CCT>CAT	p.P913H	UNC13B_uc003zwr.2_Missense_Mutation_p.P913H	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	913					excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CTGCAAAGCCCTCCAAGAGCC	0.483													32	65					8.16721e-17	8.70353e-17	1	1	0		A	35386181	A	A	35386181	3	1	190	1	0	0	0	0	1	0	0	0	17011	681	24	5	2828	5	UNC13B	9	35386181	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2356200	35386181	105827250	653	94806											
RUSC2	9853	broad.mit.edu	37	chr9	35547647	35547647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgagccgtgcccagcagtgGctgacctcacagcctgcttc	6	8	12	15	1	1	2	1	2	0	0	2	2	1	2	4	1	5	3	4	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:35547647G>A	uc003zww.2	+	2	1384	c.1129G>A	c.(1129-1131)GCT>ACT	p.A377T	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.A377T	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	377						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			CCCAGCAGTGGCTGACCTCAC	0.552													34	68					0	0	1	0	0		A	35547647	A	A	35547647	3	1	190	1	0	0	0	0	1	0	0	0	13776	1203	42	2	1131	2	RUSC2	9	35547647	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	161466	35547647	105665784	654	94807											
TESK1	7016	broad.mit.edu	37	chr9	35607366	35607366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgaggcttcaccgctgtcGtgggtgacttcgggctggcc	4	10	15	12	4	1	1	1	1	0	0	4	2	1	1	2	4	0	3	2	4	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:35607366G>A	uc003zxa.2	+	5	916	c.580G>A	c.(580-582)GTG>ATG	p.V194M	TESK1_uc003zwz.1_Intron|TESK1_uc010mks.2_Intron	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	194	Protein kinase.				cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CACCGCTGTCGTGGGTGACTT	0.552													40	56					0	0	1	0	0		A	35607366	A	A	35607366	3	1	190	1	0	0	0	0	1	0	0	0	15792	1145	40	1	598	1	TESK1	9	35607366	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	59719	35607366	105606065	655	94808											
NPR2	4882	broad.mit.edu	37	chr9	35792488	35792488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgcggaacctgacgctggCggtggtgctgccagaacaca	8	5	16	12	4	0	2	0	1	0	1	0	3	0	3	2	5	4	2	2	5	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:35792488C>T	uc003zyd.2	+	1	83	c.83C>T	c.(82-84)GCG>GTG	p.A28V	NPR2_uc010mlb.2_Missense_Mutation_p.A28V	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	28	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	CTGACGCTGGCGGTGGTGCTG	0.687													14	24					0	0	1	0	0		T	35792488	T	T	35792488	3	4	190	1	0	0	0	0	1	0	0	0	10614	768	27	1	85	1	NPR2	9	35792488	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	185122	35792488	105420943	656	94809											
TMEM8B	51754	broad.mit.edu	37	chr9	35846378	35846378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgcggggtggggcctcGgtgagcggtgcggggcgggg	1	6	25	9	5	0	1	0	1	0	0	1	1	0	1	2	10	3	0	2	10	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:35846378G>A	uc003zym.2	+	9	1512	c.497G>A	c.(496-498)CGG>CAG	p.R166Q	TMEM8B_uc003zyk.2_Missense_Mutation_p.R166Q|TMEM8B_uc003zyl.2_Missense_Mutation_p.R333Q|TMEM8B_uc003zyn.2_Silent_p.S61S|TMEM8B_uc003zyo.2_Missense_Mutation_p.R166Q	NM_001042589	NP_001036054	A6NDV4	TMM8B_HUMAN	transmembrane protein 8B isoform a	166	Extracellular (Potential).				cell-matrix adhesion|regulation of growth|regulation of mitotic cell cycle	cell surface|endoplasmic reticulum|integral to membrane|mitochondrion|nucleus|plasma membrane	protein binding			ovary(1)	1						GTGGGGCCTCGGTGAGCGGTG	0.726													16	11					0	0	1	0	0		A	35846378	A	A	35846378	3	1	190	1	0	0	0	0	1	0	0	0	16240	1130	39	1	507	1	TMEM8B	9	35846378	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	53890	35846378	105367053	657	94810											
ZCCHC7	84186	broad.mit.edu	37	chr9	37354736	37354736	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagagaagtgtatgacccGtctccagtatctccattcat	12	11	8	10	1	3	2	1	1	2	1	5	4	3	2	3	0	0	2	3	0	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:37354736G>A	uc003zzq.2	+	8	1286	c.1113G>A	c.(1111-1113)CCG>CCA	p.P371P	ZCCHC7_uc011lqh.1_Silent_p.P81P|ZCCHC7_uc011lqi.1_Silent_p.P370P|ZCCHC7_uc010mlt.2_Silent_p.P370P	NM_032226	NP_115602	Q8N3Z6	ZCHC7_HUMAN	zinc finger, CCHC domain containing 7	371							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.0137)		TGTATGACCCGTCTCCAGTAT	0.343													21	27					0	0	1	0	0		A	37354736	A	A	37354736	2	1	190	1	0	0	0	0	0	0	0	1	17618	1132	40	1		1	ZCCHC7	9	37354736	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1508358	37354736	103858695	658	94811											
ZBTB5	9925	broad.mit.edu	37	chr9	37442433	37442433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcatgctgccagcacggagCggtgggctttaaagtgtcta	8	10	14	9	2	1	0	0	0	1	0	1	1	1	1	1	3	5	4	1	3	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:37442433C>T	uc003zzx.2	-	2	316	c.116G>A	c.(115-117)CGC>CAC	p.R39H		NM_014872	NP_055687	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	39	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		CAGCACGGAGCGGTGGGCTTT	0.517													30	42					0	0	1	0	0		T	37442433	T	T	37442433	3	4	190	1	0	0	0	0	1	0	0	0	17576	768	27	1	1921	1	ZBTB5	9	37442433	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	87697	37442433	103770998	659	94812											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	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	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													8	110					0	0	1	0	0		G	70993145	G	G	70993145	3	3	190	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	33550712	70993145	70220286	660	94813											
TMEM2	23670	broad.mit.edu	37	chr9	74319518	74319518	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagaaacatacttgttgaAgttgacgaggtatagaaatg	17	10	10	4	1	0	4	0	2	0	2	0	5	0	4	0	1	3	3	0	1	7	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:74319518A>G	uc011lsa.1	-	18	3727	c.3187T>C	c.(3187-3189)TTC>CTC	p.F1063L	TMEM2_uc011lrz.1_Missense_Mutation_p.F56L|TMEM2_uc010mos.2_Missense_Mutation_p.F1000L|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	1063						integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)		TACTTGTTGAAGTTGACGAGG	0.423													12	74					0	0	1	0	0		G	74319518	G	G	74319518	3	3	190	1	0	0	0	0	1	0	0	0	16146	72	3	3	992	3	TMEM2	9	74319518	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	3326373	74319518	66893913	661	94814											
AGTPBP1	23287	broad.mit.edu	37	chr9	88248183	88248183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttacaacttttcttaaattgCcagaattcccagatgtttcc	11	16	4	10	0	1	2	0	0	1	2	3	2	3	2	3	0	3	1	3	0	5	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:88248183C>T	uc011ltd.1	-	13	1442	c.1409G>A	c.(1408-1410)GGC>GAC	p.G470D	AGTPBP1_uc004aod.3_Missense_Mutation_p.G96D|AGTPBP1_uc011ltc.1_Missense_Mutation_p.G368D|AGTPBP1_uc010mqc.2_Missense_Mutation_p.G430D|AGTPBP1_uc011lte.1_Missense_Mutation_p.G482D	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	470					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						TCTTAAATTGCCAGAATTCCC	0.368													22	35					0	0	1	0	0		T	88248183	T	T	88248183	3	4	190	1	0	0	0	0	1	0	0	0	400	739	26	2	2323	2	AGTPBP1	9	88248183	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	13928665	88248183	52965248	662	94815											
NOL8	55035	broad.mit.edu	37	chr9	95076713	95076713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaatcagttttgatttcccGagtgtccttggatgagacct	9	14	10	8	1	1	2	1	2	0	1	3	6	3	3	3	1	0	1	3	1	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:95076713G>A	uc004arv.2	-	7	2531	c.2194C>T	c.(2194-2196)CGG>TGG	p.R732W	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.R664W	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	732					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						TTGATTTCCCGAGTGTCCTTG	0.438													14	22					0	0	1	0	0		A	95076713	A	A	95076713	3	1	190	1	0	0	0	0	1	0	0	0	10546	1057	37	1	1353	1	NOL8	9	95076713	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6828530	95076713	46136718	663	94816											
NINJ1	4814	broad.mit.edu	37	chr9	95887239	95887239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttctggaccccgaaggccGtgatgaagatgttgactacc	9	9	12	11	2	1	4	0	3	1	1	1	6	1	5	4	2	1	2	4	2	3	3	rs138077782		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:95887239G>A	uc004atg.3	-	3	481	c.410C>T	c.(409-411)ACG>ATG	p.T137M	NINJ1_uc004ath.3_Missense_Mutation_p.T87M	NM_004148	NP_004139	Q92982	NINJ1_HUMAN	ninjurin 1	137	Helical; (Potential).				cell adhesion|nervous system development|tissue regeneration	integral to membrane				kidney(1)	1						CCCGAAGGCCGTGATGAAGAT	0.602													24	37					0	0	1	0	0		A	95887239	A	A	95887239	3	1	190	1	0	0	0	0	1	0	0	0	10437	1145	40	1	52	1	NINJ1	9	95887239	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	810526	95887239	45326192	664	94817											
WNK2	65268	broad.mit.edu	37	chr9	96009888	96009888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagtccatccgtgaccgcGtggccttgatccagtggcgg	6	8	13	14	4	0	2	0	2	0	0	3	2	3	2	6	3	0	0	6	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:96009888G>A	uc004ati.1	+	7	1606	c.1606G>A	c.(1606-1608)GTG>ATG	p.V536M	WNK2_uc011lud.1_Missense_Mutation_p.V536M|WNK2_uc004atj.2_Missense_Mutation_p.V536M|WNK2_uc004atk.2_Missense_Mutation_p.V173M|WNK2_uc010mrc.1_Missense_Mutation_p.V536M|WNK2_uc010mrd.1_Missense_Mutation_p.V173M	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	536					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						CCGTGACCGCGTGGCCTTGAT	0.622													3	11					0	0	1	0	0		A	96009888	A	A	96009888	3	1	190	1	0	0	0	0	1	0	0	0	17404	1145	40	1	1632	1	WNK2	9	96009888	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	122649	96009888	45203543	665	94818											
WNK2	65268	broad.mit.edu	37	chr9	96024184	96024184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accggctgcggtcctctcgcCgcctctgccggaagtgctgc	3	8	13	17	5	2	0	0	0	2	0	4	1	3	1	5	3	4	2	5	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:96024184C>T	uc004ati.1	+	12	3155	c.3155C>T	c.(3154-3156)CCG>CTG	p.P1052L	WNK2_uc011lud.1_Missense_Mutation_p.P1052L|WNK2_uc004atj.2_Missense_Mutation_p.P1052L|WNK2_uc004atk.2_Missense_Mutation_p.P689L	NM_006648	NP_006639	Q9Y3S1	WNK2_HUMAN	WNK lysine deficient protein kinase 2	1052					intracellular protein kinase cascade		ATP binding|protein binding|protein serine/threonine kinase activity			lung(4)|stomach(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)|breast(1)	12						GTCCTCTCGCCGCCTCTGCCG	0.692													18	21					0	0	1	0	0		T	96024184	T	T	96024184	3	4	190	1	0	0	0	0	1	0	0	0	17404	652	23	1	3201	1	WNK2	9	96024184	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	14296	96024184	45189247	666	94819											
PHF2	5253	broad.mit.edu	37	chr9	96437282	96437282	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagaaaaggaaaggctcagaCgacgctccctacagcccaac	16	3	9	13	2	1	2	1	0	0	2	2	4	2	3	2	2	3	2	2	2	6	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:96437282C>T	uc004aub.2	+	19	2847	c.2700C>T	c.(2698-2700)GAC>GAT	p.D900D	PHF2_uc011lug.1_Silent_p.D783D|PHF2_uc004auc.2_Silent_p.D320D	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	900					liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		AAGGCTCAGACGACGCTCCCT	0.577													23	27					0	0	1	0	0		T	96437282	T	T	96437282	2	4	190	1	0	0	0	0	0	0	0	1	11849	535	19	1		1	PHF2	9	96437282	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	413098	96437282	44776149	667	94820											
PTPDC1	138639	broad.mit.edu	37	chr9	96864016	96864017	+	Frame_Shift_Ins	INS	-	T	T																															agcagatgccgcagaagcacINStttttttattagagaaggta																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:96864016_96864017insT	uc004auf.1	+	8	2360_2361	c.2020_2021insT	c.(2020-2022)CTTfs	p.L674fs	PTPDC1_uc004aug.1_Frame_Shift_Ins_p.L669fs|PTPDC1_uc004auh.1_Frame_Shift_Ins_p.L726fs|PTPDC1_uc010mrj.1_Frame_Shift_Ins_p.L728fs	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1	674							protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						CGCAGAAGCACTTTTTTTATTA	0.426													35	49	---	---	---	---						.	T	96864017	T	T	96864016	7	5	190	1	0	1	1	0	0	0	0	0	12796	565	20	0	2288	0	PTPDC1	9	96864016	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	426734	96864016	44349415	668	94821											
HIATL1	84641	broad.mit.edu	37	chr9	97203361	97203361	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtcactcaggagcacgagCgaagtacagcttatggatgg	12	8	13	8	2	2	0	2	0	0	0	2	4	2	2	0	3	4	3	0	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:97203361C>T	uc004aur.2	+	5	759	c.490C>T	c.(490-492)CGA>TGA	p.R164*	HIATL1_uc011luh.1_Nonsense_Mutation_p.R99*	NM_032558	NP_115947	Q5SR56	HIAL1_HUMAN	hippocampus abundant transcript-like 1	164	Extracellular (Potential).				transmembrane transport	integral to membrane|plasma membrane	protein binding|transporter activity			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				GGAGCACGAGCGAAGTACAGC	0.348													45	38					0	0	1	0	0		T	97203361	T	T	97203361	4	4	190	1	0	0	0	0	0	1	0	0	7114	760	27	1	508	1	HIATL1	9	97203361	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	339345	97203361	44010070	669	94822											
PTCH1	5727	broad.mit.edu	37	chr9	98241348	98241348	+	Silent	SNP	T	C	C	0	1	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	tcctcgttccagttgatgtgTgagacatactcgtacccctt	7	14	8	12	2	0	2	0	2	0	1	4	3	2	2	4	0	2	3	4	0	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:98241348T>C	uc004avk.3	-	8	1337	c.1149A>G	c.(1147-1149)TCA>TCG	p.S383S	PTCH1_uc010mro.2_Silent_p.S232S|PTCH1_uc010mrp.2_Silent_p.S232S|PTCH1_uc010mrq.2_Silent_p.S232S|PTCH1_uc004avl.3_Silent_p.S232S|PTCH1_uc010mrr.2_Silent_p.S317S|PTCH1_uc004avm.3_Silent_p.S382S|PTCH1_uc010mrs.1_Silent_p.S103S	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	383	Extracellular (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				AGTTGATGTGTGAGACATACT	0.557									Basal_Cell_Nevus_syndrome				26	37					0	0	1	0	0		C	98241348	C	C	98241348	2	2	190	1	0	0	0	0	0	0	0	1	12752	1683	59	3		3	PTCH1	9	98241348	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1037987	98241348	42972083	670	94823											
HSD17B3	3293	broad.mit.edu	37	chr9	99064279	99064279	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaagactttggcaaaactttCcagtagttcagtaaaacaca	17	10	6	8	0	1	1	1	0	0	1	2	1	2	1	1	1	2	4	1	1	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:99064279C>T	uc004awa.1	-	1	156	c.108G>A	c.(106-108)TGG>TGA	p.W36*	HSD17B3_uc010msc.1_Nonsense_Mutation_p.W36*	NM_000197	NP_000188	P37058	DHB3_HUMAN	estradiol 17 beta-dehydrogenase 3	36					androgen biosynthetic process|male genitalia development	endoplasmic reticulum membrane|microsome	binding|testosterone 17-beta-dehydrogenase (NAD+) activity|testosterone 17-beta-dehydrogenase (NADP+) activity				0		Acute lymphoblastic leukemia(62;0.0171)|all_hematologic(171;0.214)			NADH(DB00157)	GCAAAACTTTCCAGTAGTTCA	0.498													39	47					0	0	1	0	0		T	99064279	T	T	99064279	4	4	190	1	0	0	0	0	0	1	0	0	7401	856	30	4	868	4	HSD17B3	9	99064279	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	822931	99064279	42149152	671	94824											
ZNF510	22869	broad.mit.edu	37	chr9	99521474	99521474	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggatttttcacattcattAcactggtaagttttctcccc	10	16	5	10	0	3	0	2	0	1	0	4	1	3	1	2	2	1	2	2	2	3	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:99521474A>G	uc004awn.1	-	6	1827	c.1638T>C	c.(1636-1638)TGT>TGC	p.C546C	ZNF510_uc004awo.1_Silent_p.C546C	NM_014930	NP_055745	Q9Y2H8	ZN510_HUMAN	zinc finger protein 510	546	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Acute lymphoblastic leukemia(62;0.0527)				CACATTCATTACACTGGTAAG	0.383													67	98					0	0	1	0	0		G	99521474	G	G	99521474	2	3	190	1	0	0	0	0	0	0	0	1	17979	389	14	3		3	ZNF510	9	99521474	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	457195	99521474	41691957	672	94825											
ANKS6	203286	broad.mit.edu	37	chr9	101552652	101552652	+	Missense_Mutation	SNP	A	G	G	1	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	cggcctcgtgcccgtgctggAtggcagccatcagggctgtg	4	8	16	13	3	1	0	1	0	0	0	2	1	1	1	3	4	3	3	3	4	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:101552652A>G	uc004ayu.2	-	2	617	c.596T>C	c.(595-597)ATC>ACC	p.I199T	ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	199	ANK 5.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				CCCGTGCTGGATGGCAGCCAT	0.682													22	18					0	0	1	0	0		G	101552652	G	G	101552652	3	3	190	1	0	0	0	0	1	0	0	0	692	333	12	3	2075	3	ANKS6	9	101552652	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2031178	101552652	39660779	673	94826											
POLE3	54107	broad.mit.edu	37	chr9	116171195	116171195	+	Frame_Shift_Del	DEL	T	-	-																															gtcttgctcttccgagtctgTttttttgtctttgtccttct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:116171195delT	uc011lxg.1	-	4	722	c.340delA	c.(340-342)ACAfs	p.T114fs	POLE3_uc004bhn.2_Frame_Shift_Del_p.T114fs|C9orf43_uc004bho.3_5'Flank|C9orf43_uc004bhp.2_5'Flank	NM_017443	NP_059139	Q9NRF9	DPOE3_HUMAN	DNA-directed DNA polymerase epsilon 3	114	Potential.				DNA replication|histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex	DNA-directed DNA polymerase activity|protein binding|sequence-specific DNA binding				0						tccgagtctgtttttttgtct	0.199													13	15	---	---	---	---						.	-	116171195	-	-	116171195	7	5	190	1	0	1	0	1	0	0	0	0	12217	1725	60	0	107	0	POLE3	9	116171195	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	14618543	116171195	25042236	674	94827											
TNC	3371	broad.mit.edu	37	chr9	117849113	117849113	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgaaaccctcatcacacacGcactcattctccacgcatcg	11	8	5	17	3	4	1	3	1	1	0	6	1	4	1	2	0	1	2	2	0	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:117849113G>A	uc004bjj.3	-	3	1259	c.897C>T	c.(895-897)TGC>TGT	p.C299C	TNC_uc010mvf.2_Silent_p.C299C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	299	EGF-like 5.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CATCACACACGCACTCATTCT	0.567													51	61					0	0	1	0	0		A	117849113	A	A	117849113	2	1	190	1	0	0	0	0	0	0	0	1	16295	1079	38	1		1	TNC	9	117849113	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1677918	117849113	23364318	675	94828											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123298694	123298694	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcgccaagtccccctcGtgcatcttcttcatctctga	6	12	6	17	2	4	1	1	1	3	0	8	1	5	1	4	0	1	1	4	0	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:123298694G>A	uc004bkf.2	-	7	799	c.618C>T	c.(616-618)CAC>CAT	p.H206H	CDK5RAP2_uc004bkg.2_Silent_p.H206H|CDK5RAP2_uc011lxw.1_Translation_Start_Site|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Translation_Start_Site|CDK5RAP2_uc011lya.1_Translation_Start_Site|CDK5RAP2_uc004bkh.1_Silent_p.H206H|CDK5RAP2_uc004bki.2_Silent_p.H5H	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	206					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						AGTCCCCCTCGTGCATCTTCT	0.547													27	37					0	0	1	0	0		A	123298694	A	A	123298694	2	1	190	1	0	0	0	0	0	0	0	1	3149	1136	40	1		1	CDK5RAP2	9	123298694	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5449581	123298694	17914737	676	94829											
PSMD5	5711	broad.mit.edu	37	chr9	123593733	123593733	+	Missense_Mutation	SNP	A	G	G	1	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	atattcttgacagggatttgAtagccttataacgaaagaaa	16	12	8	5	1	1	3	0	2	1	1	1	5	1	4	1	1	2	0	1	1	6	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:123593733A>G	uc004bko.2	-	4	456	c.437T>C	c.(436-438)ATC>ACC	p.I146T	PSMD5_uc011lye.1_Intron	NM_005047	NP_005038	Q16401	PSMD5_HUMAN	proteasome 26S non-ATPase subunit 5	146					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	protein binding				0						CAGGGATTTGATAGCCTTATA	0.353													41	58					0	0	1	0	0		G	123593733	G	G	123593733	3	3	190	1	0	0	0	0	1	0	0	0	12723	333	12	3	1105	3	PSMD5	9	123593733	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	295039	123593733	17619698	677	94830											
OR1B1	347169	broad.mit.edu	37	chr9	125391779	125391779	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccaaggagcaaaaaaacCggagagtgtgaagcattagg	18	4	12	7	1	0	2	0	1	0	1	0	4	0	3	2	3	4	2	2	3	7	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:125391779C>T	uc011lyz.1	-	1	36	c.36G>A	c.(34-36)CCG>CCA	p.P12P		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	12	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCAAAAAAACCGGAGAGTGTG	0.463													21	29					0	0	1	0	0		T	125391779	T	T	125391779	2	4	190	1	0	0	0	0	0	0	0	1	10970	639	23	1		1	OR1B1	9	125391779	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1798046	125391779	15821652	678	94831											
OR5C1	392391	broad.mit.edu	37	chr9	125551337	125551337	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcctgtctacctggtgagCctgctgggaaacatgggcat	7	10	13	11	0	1	1	0	1	1	0	1	2	1	2	3	3	5	2	3	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:125551337C>T	uc011lzd.1	+	1	126	c.126C>T	c.(124-126)AGC>AGT	p.S42S		NM_001001923	NP_001001923	Q8NGR4	OR5C1_HUMAN	olfactory receptor, family 5, subfamily C,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1						ACCTGGTGAGCCTGCTGGGAA	0.617													36	59					0	0	1	0	0		T	125551337	T	T	125551337	2	4	190	1	0	0	0	0	0	0	0	1	11172	738	26	2		2	OR5C1	9	125551337	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	159558	125551337	15662094	679	94832											
RC3H2	54542	broad.mit.edu	37	chr9	125617540	125617540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtggtatggtaacctgtaCgggaagatctggaaatcgca	11	10	13	7	2	1	1	0	0	1	1	2	3	1	3	1	4	2	4	1	4	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:125617540C>T	uc010mwc.1	-	15	2979	c.2738G>A	c.(2737-2739)CGT>CAT	p.R913H	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.R913H|RC3H2_uc004bne.3_Missense_Mutation_p.R913H	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	913						cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						GTAACCTGTACGGGAAGATCT	0.438													20	35					0	0	1	0	0		T	125617540	T	T	125617540	3	4	190	1	0	0	0	0	1	0	0	0	13192	536	19	1	943	1	RC3H2	9	125617540	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	66203	125617540	15595891	680	94833											
STRBP	55342	broad.mit.edu	37	chr9	125946468	125946468	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctttcccctctttcttgtcGtcttcactagacactgtttt	4	19	4	14	1	4	1	1	0	3	1	6	1	5	1	3	0	0	1	3	0	1	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:125946468G>A	uc004bns.2	-	3	376	c.-54C>T	c.(-56--52)GACGA>GATGA		STRBP_uc004bnt.2_Translation_Start_Site|STRBP_uc004bnu.2_Translation_Start_Site|STRBP_uc004bnv.2_Translation_Start_Site	NM_018387	NP_060857	Q96SI9	STRBP_HUMAN	spermatid perinuclear RNA binding protein						multicellular organismal development	cytoplasm|nucleus	DNA binding			breast(1)|skin(1)	2						CTTTCTTGTCGTCTTCACTAG	0.383													14	19					0	0	1	0	0		A	125946468	A	A	125946468	1	1	190	1	0	0	0	0	0	0	0	0	15352	1160	40	1		1	STRBP	9	125946468	Translation_Start_Site	SNP	G	TCGA-F1-6177-01A-11D-1800-08	328928	125946468	15266963	681	94834											
OLFML2A	169611	broad.mit.edu	37	chr9	127549469	127549469	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctcaacccctgtgagaaCgagtggaagatggagaaact	13	8	11	9	1	2	3	1	1	1	3	3	7	2	4	2	2	3	0	2	2	4	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:127549469C>T	uc004bov.2	+	2	419	c.306C>T	c.(304-306)AAC>AAT	p.N102N	OLFML2A_uc010mwr.1_Silent_p.N102N	NM_182487	NP_872293	Q68BL7	OLM2A_HUMAN	olfactomedin-like 2A precursor	102											0						CCTGTGAGAACGAGTGGAAGA	0.592													22	26					0	0	1	0	0		T	127549469	T	T	127549469	2	4	190	1	0	0	0	0	0	0	0	1	10876	535	19	1		1	OLFML2A	9	127549469	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1603001	127549469	13663962	682	94835											
MAPKAP1	79109	broad.mit.edu	37	chr9	128419995	128419995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagagggcactgttctaggcGtacagataatatcgactgct	11	10	11	9	2	1	2	0	0	1	2	2	3	1	2	0	2	2	4	0	2	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:128419995G>A	uc004bpv.2	-	4	766	c.433C>T	c.(433-435)CGC>TGC	p.R145C	MAPKAP1_uc011lzv.1_Translation_Start_Site|MAPKAP1_uc004bpw.2_Translation_Start_Site|MAPKAP1_uc004bpx.2_Translation_Start_Site|MAPKAP1_uc004bpy.2_Missense_Mutation_p.R145C|MAPKAP1_uc004bpz.2_Missense_Mutation_p.R145C|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc004bqa.2_Missense_Mutation_p.R145C|MAPKAP1_uc010mxc.1_Translation_Start_Site	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	145	Interaction with MAP3K2.				nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						TGTTCTAGGCGTACAGATAAT	0.393													15	89					0	0	1	0	0		A	128419995	A	A	128419995	3	1	190	1	0	0	0	0	1	0	0	0	9306	1145	40	1	1189	1	MAPKAP1	9	128419995	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	870526	128419995	12793436	683	94836											
LRSAM1	90678	broad.mit.edu	37	chr9	130236099	130236099	+	Frame_Shift_Del	DEL	C	-	-																															gagtcagggctggaatactaCcccccttctcagtacttgct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:130236099delC	uc004brb.1	+	11	984	c.639delC	c.(637-639)TACfs	p.Y213fs	LRSAM1_uc010mxk.1_Frame_Shift_Del_p.Y213fs|LRSAM1_uc004brc.1_Frame_Shift_Del_p.Y213fs|LRSAM1_uc004brd.1_Frame_Shift_Del_p.Y213fs	NM_001005373	NP_001005373	Q6UWE0	LRSM1_HUMAN	leucine rich repeat and sterile alpha motif	213					negative regulation of endocytosis|non-lytic virus budding|protein autoubiquitination|protein catabolic process|protein polyubiquitination|protein transport|ubiquitin-dependent endocytosis	cytoplasm|extracellular region|membrane part	hormone activity|ubiquitin-protein ligase activity|zinc ion binding				0						TGGAATACTACCCCCCTTCTC	0.582													36	54	---	---	---	---						.	-	130236099	-	-	130236099	7	5	190	1	0	1	0	1	0	0	0	0	9061	518	18	0	673	0	LRSAM1	9	130236099	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1816104	130236099	10977332	684	94837											
ST6GALNAC6	30815	broad.mit.edu	37	chr9	130653011	130653011	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgttggggaacaccaggccCgctcgctggatcacacgcac	9	6	12	14	3	1	0	1	0	0	0	2	2	1	2	2	4	1	4	2	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:130653011C>T	uc004bso.1	-	5	728	c.609G>A	c.(607-609)GCG>GCA	p.A203A	ST6GALNAC6_uc004bsn.1_Silent_p.A169A|ST6GALNAC6_uc011man.1_Intron|ST6GALNAC6_uc004bsp.1_Silent_p.A203A|ST6GALNAC6_uc004bsq.1_Silent_p.A169A|ST6GALNAC6_uc004bsr.2_Silent_p.A169A|ST6GALNAC6_uc010mxp.1_RNA	NM_013443	NP_038471	Q969X2	SIA7F_HUMAN	sialytransferase 7F	203	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane|plasma membrane					0						ACACCAGGCCCGCTCGCTGGA	0.622													23	27					0	0	1	0	0		T	130653011	T	T	130653011	2	4	190	1	0	0	0	0	0	0	0	1	15253	639	23	1		1	ST6GALNAC6	9	130653011	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	416912	130653011	10560420	685	94838											
PTGES2	80142	broad.mit.edu	37	chr9	130889772	130889772	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgcaggtgccaccgcgcCgtgtggtacagccccagggc	5	4	16	16	5	0	0	0	0	0	0	0	0	0	0	5	3	3	2	5	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:130889772C>T	uc004bti.2	-	1	703	c.225G>A	c.(223-225)ACG>ACA	p.T75T	PTGES2_uc004btj.2_RNA|PTGES2_uc004btk.2_Intron|PTGES2_uc004btl.2_Intron|PTGES2_uc004btm.2_Intron|LOC389791_uc004btn.2_5'Flank	NM_025072	NP_079348	Q9H7Z7	PGES2_HUMAN	prostaglandin E synthase 2	75	Cytoplasmic (Potential).				cell redox homeostasis|prostaglandin biosynthetic process	Golgi membrane|integral to membrane|mitochondrion|perinuclear region of cytoplasm	electron carrier activity|prostaglandin-E synthase activity|protein binding|protein disulfide oxidoreductase activity				0						GCCACCGCGCCGTGTGGTACA	0.677													2	2					0	0	1	0	0		T	130889772	T	T	130889772	2	4	190	1	0	0	0	0	0	0	0	1	12770	639	23	1		1	PTGES2	9	130889772	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	236761	130889772	10323659	686	94839											
CCBL1	883	broad.mit.edu	37	chr9	131599998	131599998	+	Missense_Mutation	SNP	A	C	C	1	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	tgttgggggtgttgaggaccAgggctttggtgcgtgatgtg	4	13	20	4	1	0	2	0	2	0	0	0	3	0	3	1	5	1	3	1	5	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:131599998A>C	uc004bwh.2	-	6	718	c.533T>G	c.(532-534)CTG>CGG	p.L178R	CCBL1_uc004bwf.2_Missense_Mutation_p.L212R|CCBL1_uc004bwg.2_RNA|CCBL1_uc010myn.2_Missense_Mutation_p.L178R|CCBL1_uc004bwj.2_Missense_Mutation_p.L128R|CCBL1_uc011mbl.1_Missense_Mutation_p.L272R|CCBL1_uc004bwi.2_RNA|CCBL1_uc010myo.2_Intron	NM_004059	NP_004050	Q16773	KAT1_HUMAN	kynurenine aminotransferase I isoform a	178					kynurenine metabolic process|L-phenylalanine catabolic process|tryptophan catabolic process	cytosol|nucleus	1-aminocyclopropane-1-carboxylate synthase activity|cysteine-S-conjugate beta-lyase activity|glutamine-phenylpyruvate transaminase activity|kynurenine-oxoglutarate transaminase activity|L-glutamine:pyruvate aminotransferase activity|L-phenylalanine:pyruvate aminotransferase activity|protein homodimerization activity|pyridoxal phosphate binding			ovary(1)	1					L-Glutamine(DB00130)|Pyridoxal Phosphate(DB00114)	GTTGAGGACCAGGGCTTTGGT	0.607													35	38					0	0	1	0	0		C	131599998	C	C	131599998	3	2	190	1	0	0	0	0	1	0	0	0	2735	188	7	5	767	5	CCBL1	9	131599998	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	710226	131599998	9613433	687	94840											
NUP188	23511	broad.mit.edu	37	chr9	131745254	131745254	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcatcagtacagacctgtcGatagcagactgtctcctgcc	9	10	9	13	1	3	2	2	0	1	2	5	3	3	2	3	0	3	2	3	0	2	2	rs148151804	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:131745254G>A	uc004bws.1	+	17	1765	c.1743G>A	c.(1741-1743)TCG>TCA	p.S581S	NUP188_uc004bwu.2_5'Flank	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	581					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CAGACCTGTCGATAGCAGACT	0.527													66	82					0	0	1	0	0		A	131745254	A	A	131745254	2	1	190	1	0	0	0	0	0	0	0	1	10777	1045	37	1		1	NUP188	9	131745254	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	145256	131745254	9468177	688	94841											
NCS1	23413	broad.mit.edu	37	chr9	132980177	132980177	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggcttccagaagatctaCaagcaattcttcccgttcgg	10	10	9	12	2	2	2	0	0	2	2	5	2	4	2	2	2	2	4	2	2	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:132980177C>T	uc004bzi.2	+	3	242	c.156C>T	c.(154-156)TAC>TAT	p.Y52Y	NCS1_uc010myz.1_Silent_p.Y34Y	NM_014286	NP_055101	P62166	NCS1_HUMAN	frequenin homolog isoform 1	52	EF-hand 1.				negative regulation of calcium ion transport via voltage-gated calcium channel activity|regulation of neuron projection development	cell junction|Golgi cisterna membrane|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|protein binding				0						AGAAGATCTACAAGCAATTCT	0.547													38	63					0	0	1	0	0		T	132980177	T	T	132980177	2	4	190	1	0	0	0	0	0	0	0	1	10259	489	17	4		4	NCS1	9	132980177	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1234923	132980177	8233254	689	94842											
NUP214	8021	broad.mit.edu	37	chr9	134010375	134010375	+	Missense_Mutation	SNP	A	G	G	1	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	gacagcatcattactacctcAgttacattgaggaatggtga	13	11	9	8	0	2	2	2	2	0	0	2	4	2	3	1	2	4	2	1	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:134010375A>G	uc004cag.2	+	8	1033	c.922A>G	c.(922-924)AGT>GGT	p.S308G	NUP214_uc004cah.2_Missense_Mutation_p.S308G|NUP214_uc004caf.1_Missense_Mutation_p.S308G	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	308					carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		TTACTACCTCAGTTACATTGA	0.448			T	DEK|SET|ABL1	AML|T-ALL								22	25					0	0	1	0	0		G	134010375	G	G	134010375	3	3	190	1	0	0	0	0	1	0	0	0	10781	188	7	3	952	3	NUP214	9	134010375	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1030198	134010375	7203056	690	94843											
NTNG2	84628	broad.mit.edu	37	chr9	135073571	135073571	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgatgaccttcgagtacggCcggcccacggtcatggtcct	6	9	13	13	4	1	2	1	2	0	0	3	3	2	2	4	4	1	1	4	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:135073571C>T	uc004cbh.2	+	3	1208	c.432C>T	c.(430-432)GGC>GGT	p.G144G		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	144	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		TCGAGTACGGCCGGCCCACGG	0.632													15	28					0	0	1	0	0		T	135073571	T	T	135073571	2	4	190	1	0	0	0	0	0	0	0	1	10724	726	26	2		2	NTNG2	9	135073571	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1063196	135073571	6139860	691	94844											
SETX	23064	broad.mit.edu	37	chr9	135224793	135224793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggaagcaccacctggcGtacaccaacaacatgtgctc	11	7	10	13	1	0	0	0	0	0	0	1	1	0	1	3	3	5	3	3	3	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:135224793G>A	uc004cbk.2	-	3	206	c.23C>T	c.(22-24)ACG>ATG	p.T8M		NM_015046	NP_055861	Q7Z333	SETX_HUMAN	senataxin	8					cell death|double-strand break repair|RNA processing	cytoplasm|nucleolus|nucleoplasm	ATP binding|DNA helicase activity			ovary(2)|skin(1)	3		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;6.82e-06)|Epithelial(140;0.000171)		ACCACCTGGCGTACACCAACA	0.473													14	26					0	0	1	0	0		A	135224793	A	A	135224793	3	1	190	1	0	0	0	0	1	0	0	0	14166	1145	40	1	8106	1	SETX	9	135224793	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	151222	135224793	5988638	692	94845											
SARDH	1757	broad.mit.edu	37	chr9	136568075	136568075	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggaaggcgaaggtgtactcgTctgccagcagcctgcggtag	8	7	16	10	3	1	0	0	0	1	0	2	2	1	1	2	4	5	3	2	4	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:136568075T>G	uc004cep.3	-	13	1765	c.1631A>C	c.(1630-1632)GAC>GCC	p.D544A	SARDH_uc004ceo.2_Missense_Mutation_p.D544A|SARDH_uc011mdn.1_Missense_Mutation_p.D544A|SARDH_uc011mdo.1_Missense_Mutation_p.D376A|SARDH_uc004cen.2_5'UTR	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	544					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GGTGTACTCGTCTGCCAGCAG	0.642													13	15					0	0	1	0	0		G	136568075	G	G	136568075	3	3	190	1	0	0	0	0	1	0	0	0	13866	1667	58	5	1161	5	SARDH	9	136568075	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1343282	136568075	4645356	693	94846											
SARDH	1757	broad.mit.edu	37	chr9	136594899	136594899	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacctacctgaatcccctcGatgcgctcggtgacgacata	9	8	8	16	4	0	2	0	2	0	0	3	4	1	2	5	1	2	1	5	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:136594899G>A	uc004cep.3	-	6	1037	c.903C>T	c.(901-903)ATC>ATT	p.I301I	SARDH_uc004ceo.2_Silent_p.I301I|SARDH_uc011mdn.1_Silent_p.I301I|SARDH_uc011mdo.1_Silent_p.I133I	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	301					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GAATCCCCTCGATGCGCTCGG	0.473													33	31					0	0	1	0	0		A	136594899	A	A	136594899	2	1	190	1	0	0	0	0	0	0	0	1	13866	1048	37	1		1	SARDH	9	136594899	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	26824	136594899	4618532	694	94847											
KIAA0649	9858	broad.mit.edu	37	chr9	138379043	138379043	+	Frame_Shift_Del	DEL	G	-	-																															cacacgcagccagagggccaGgggggtcccacatctggccg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:138379043delG	uc004cfr.1	+	4	3236	c.2687delG	c.(2686-2688)AGGfs	p.R896fs		NM_014811	NP_055626	Q5T8A7	K0649_HUMAN	1A6/DRIM (down-regulated in metastasis)	896						nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(145;6.91e-08)|Epithelial(140;4.69e-07)|all cancers(34;9.33e-06)		CAGAGGGCCAGGGGGGTCCCA	0.701													32	55	---	---	---	---						.	-	138379043	-	-	138379043	7	5	190	1	0	1	0	1	0	0	0	0	8203	1000	35	0	2689	0	KIAA0649	9	138379043	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	1784144	138379043	2834388	695	94848											
MRPS2	51116	broad.mit.edu	37	chr9	138395799	138395799	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcatcacctaccctgtaccCggcaatgacgactctccgct	8	9	6	18	3	3	1	2	1	1	0	4	2	3	1	4	1	2	3	4	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:138395799C>T	uc004cfv.3	+	4	785	c.711C>T	c.(709-711)CCC>CCT	p.P237P	MRPS2_uc004cfw.3_Silent_p.P147P|MRPS2_uc004cfx.3_Silent_p.P152P|MRPS2_uc010nat.2_Silent_p.P218P|uc004cfy.2_Intron	NM_016034	NP_057118	Q9Y399	RT02_HUMAN	mitochondrial ribosomal protein S2	237					translation	mitochondrion|small ribosomal subunit	structural constituent of ribosome				0				OV - Ovarian serous cystadenocarcinoma(145;1.46e-53)|Epithelial(140;2.04e-47)|all cancers(34;1.23e-42)		ACCCTGTACCCGGCAATGACG	0.617													35	61					0	0	1	0	0		T	138395799	T	T	138395799	2	4	190	1	0	0	0	0	0	0	0	1	9849	639	23	1		1	MRPS2	9	138395799	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	16756	138395799	2817632	696	94849											
CAMSAP1	157922	broad.mit.edu	37	chr9	138712718	138712718	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacccccggcttctggtcGccttcgctgacaaggtccgc	4	8	11	18	5	1	1	0	1	1	0	4	2	2	1	5	3	0	2	5	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:138712718G>A	uc004cgr.3	-	11	3789	c.3789C>T	c.(3787-3789)GGC>GGT	p.G1263G	CAMSAP1_uc004cgq.3_Silent_p.G1153G|CAMSAP1_uc010nbg.2_Silent_p.G985G	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1263						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GCTTCTGGTCGCCTTCGCTGA	0.592													29	34					0	0	1	0	0		A	138712718	A	A	138712718	2	1	190	1	0	0	0	0	0	0	0	1	2614	1074	38	1		1	CAMSAP1	9	138712718	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	316919	138712718	2500713	697	94850											
SNAPC4	6621	broad.mit.edu	37	chr9	139272220	139272220	+	Frame_Shift_Del	DEL	C	-	-																															gccgggttgtcctggagctgCccccgcaccagccccagtga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:139272220delC	uc004chh.2	-	21	4068	c.4059delG	c.(4057-4059)GGGfs	p.G1353fs		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1353	SNAPC2-binding.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CCTGGAGCTGCCCCCGCACCA	0.721													8	17	---	---	---	---						.	-	139272220	-	-	139272220	7	5	190	1	0	1	0	1	0	0	0	0	14862	726	26	0	358	0	SNAPC4	9	139272220	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	559502	139272220	1941211	698	94851											
SNAPC4	6621	broad.mit.edu	37	chr9	139272275	139272275	+	Frame_Shift_Del	DEL	C	-	-																															cggccggccgctcagcctcgCcccccaccaccagggaggtg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:139272275delC	uc004chh.2	-	21	4013	c.4004delG	c.(4003-4005)GGCfs	p.G1335fs		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1335	SNAPC2-binding.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		CTCAGCCTCGCCCCCCACCAC	0.701													11	17	---	---	---	---						.	-	139272275	-	-	139272275	7	5	190	1	0	1	0	1	0	0	0	0	14862	739	26	0	413	0	SNAPC4	9	139272275	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	55	139272275	1941156	699	94852											
SEC16A	9919	broad.mit.edu	37	chr9	139358971	139358971	+	Silent	SNP	A	G	G	1	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	gggccaaacctggcacagacAtgaggcactgaaaatttttc	13	8	10	10	0	0	3	0	2	0	1	1	3	0	3	2	3	1	2	2	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:139358971A>G	uc004chx.2	-	9	4656	c.4347T>C	c.(4345-4347)CAT>CAC	p.H1449H	SEC16A_uc004chv.3_Silent_p.H839H|SEC16A_uc004chw.2_Silent_p.H1449H|SEC16A_uc010nbn.2_Silent_p.H1449H	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1271					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		TGGCACAGACATGAGGCACTG	0.463													36	50					0	0	1	0	0		G	139358971	G	G	139358971	2	3	190	1	0	0	0	0	0	0	0	1	14011	214	8	3		3	SEC16A	9	139358971	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	86696	139358971	1854460	700	94853											
C9orf172	389813	broad.mit.edu	37	chr9	139740978	139740978	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgccgccgcgaggactgggaCgcccacaaggcgcgctgcgt	6	4	16	15	7	0	0	0	0	0	0	0	3	0	2	3	3	2	1	3	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:139740978C>T	uc011meh.1	+	1	2112	c.2112C>T	c.(2110-2112)GAC>GAT	p.D704D	PHPT1_uc004cjp.2_5'Flank|PHPT1_uc011mei.1_5'Flank|PHPT1_uc004cjq.3_5'Flank	NM_001080482	NP_001073951	C9J069	CI172_HUMAN	chromosome 9 open reading frame 172	704											0						AGGACTGGGACGCCCACAAGG	0.677													13	14					0	0	1	0	0		T	139740978	T	T	139740978	2	4	190	1	0	0	0	0	0	0	0	1	2474	535	19	1		1	C9orf172	9	139740978	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	382007	139740978	1472453	701	94854											
TUBB2C	10383	broad.mit.edu	37	chr9	140137090	140137091	+	Frame_Shift_Ins	INS	-	G	G																															agctgacccactccctgggtINSggggggactgggtctgggat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr9:140137090_140137091insG	uc004cmh.1	+	4	522_523	c.420_421insG	c.(418-423)GGTGGGfs	p.G140fs	TUBB2C_uc004cmg.1_5'UTR	NM_006088	NP_006079	P68371	TBB2C_HUMAN	tubulin, beta, 2	140_141	GTP (Potential).				'de novo' posttranslational protein folding|cellular component movement|G2/M transition of mitotic cell cycle|microtubule-based movement|natural killer cell mediated cytotoxicity|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|MHC class I protein binding|structural molecule activity|unfolded protein binding			ovary(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)		ACTCCCTGGGTGGGGGGACTGG	0.599													29	47	---	---	---	---						.	G	140137091	G	G	140137090	7	5	190	1	0	1	1	0	0	0	0	0	16782	1683	59	0	434	0	TUBB2C	9	140137090	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	396112	140137090	1076341	702	94855											
SFMBT2	57713	broad.mit.edu	37	chr10	7269848	7269848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagggaggggcttcctgcGccccatgctgcttgtgataa	8	9	14	10	1	0	2	0	1	0	1	1	3	1	3	3	3	3	3	3	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:7269848G>A	uc009xio.1	-	10	1263	c.1172C>T	c.(1171-1173)GCG>GTG	p.A391V	SFMBT2_uc001ijn.1_Missense_Mutation_p.A391V|SFMBT2_uc010qay.1_Missense_Mutation_p.A391V	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	391	MBT 4.				regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GGCTTCCTGCGCCCCATGCTG	0.428													20	34					0	0	1	0	0		A	7269848	A	A	7269848	3	1	190	1	0	0	0	0	1	0	0	0	14183	1087	38	1	1560	1	SFMBT2	10	7269848	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08		7269848	128264899	703	94856											
OPTN	10133	broad.mit.edu	37	chr10	13154615	13154615	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggctcctcagaagattccTttgttgaaattaggatggct	9	13	11	8	1	1	3	1	1	0	2	3	4	3	4	2	3	0	3	2	3	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:13154615T>G	uc001ilu.1	+	6	970	c.532T>G	c.(532-534)TTT>GTT	p.F178V	OPTN_uc001ilv.1_Missense_Mutation_p.F178V|OPTN_uc001ilw.1_Missense_Mutation_p.F178V|OPTN_uc001ilx.1_Missense_Mutation_p.F178V|OPTN_uc001ily.1_Missense_Mutation_p.F178V|OPTN_uc010qbr.1_Missense_Mutation_p.F121V|OPTN_uc001ilz.1_Missense_Mutation_p.F178V	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	178	Interaction with Rab8.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2						AGAAGATTCCTTTGTTGAAAT	0.448													46	56					0	0	1	0	0		G	13154615	G	G	13154615	3	3	190	1	0	0	0	0	1	0	0	0	10908	1609	56	5	542	5	OPTN	10	13154615	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	5884767	13154615	122380132	704	94857											
SLC39A12	221074	broad.mit.edu	37	chr10	18276431	18276431	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acggctacagcacggtggctGtcacccttctcacactgggc	7	8	11	15	2	2	0	2	0	1	0	3	0	2	0	1	4	2	3	1	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:18276431G>A	uc001ipo.2	+	7	1393	c.1120G>A	c.(1120-1122)GTC>ATC	p.V374I	SLC39A12_uc001ipn.2_Missense_Mutation_p.V374I|SLC39A12_uc001ipp.2_Missense_Mutation_p.V374I|SLC39A12_uc010qck.1_Missense_Mutation_p.V240I	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	374	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						CACGGTGGCTGTCACCCTTCT	0.537													6	54					0	0	1	0	0		A	18276431	A	A	18276431	3	1	190	1	0	0	0	0	1	0	0	0	14640	1377	48	4	1142	4	SLC39A12	10	18276431	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5121816	18276431	117258316	705	94858											
MYO3A	53904	broad.mit.edu	37	chr10	26463094	26463094	+	Missense_Mutation	SNP	A	G	G	1	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	tttatcaaaatgcaaacagcAtggaaaaagaaaagaagaca	23	6	7	5	0	1	3	1	0	0	3	1	4	1	4	0	1	3	2	0	1	9	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:26463094A>G	uc001isn.2	+	30	4261	c.3901A>G	c.(3901-3903)ATG>GTG	p.M1301V	MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1301					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						TGCAAACAGCATGGAAAAAGA	0.443													51	70					0	0	1	0	0		G	26463094	G	G	26463094	3	3	190	1	0	0	0	0	1	0	0	0	10094	217	8	3	4011	3	MYO3A	10	26463094	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	8186663	26463094	109071653	706	94859											
PDSS1	23590	broad.mit.edu	37	chr10	26998620	26998620	+	Silent	SNP	T	C	C	0	1	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	atgtctgagtactactttgaTgggaaagggaaagcctttcg	11	12	12	6	1	1	2	0	2	1	0	2	4	1	4	1	2	3	1	1	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:26998620T>C	uc001isv.2	+	5	436	c.390T>C	c.(388-390)GAT>GAC	p.D130D	PDSS1_uc001isw.2_Silent_p.D130D	NM_014317	NP_055132	Q5T2R2	DPS1_HUMAN	prenyl diphosphate synthase, subunit 1	130					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	metal ion binding|protein heterodimerization activity				0						ACTACTTTGATGGGAAAGGGA	0.398													50	83					0	0	1	0	0		C	26998620	C	C	26998620	2	2	190	1	0	0	0	0	0	0	0	1	11712	1461	51	3		3	PDSS1	10	26998620	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	535526	26998620	108536127	707	94860											
MPP7	143098	broad.mit.edu	37	chr10	28378660	28378660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgatacggtgtcacttcttCgtatgtgggtacgtcagctg	6	13	12	10	4	3	0	2	0	1	0	4	1	3	0	1	2	3	3	1	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:28378660C>T	uc001iua.1	-	14	1467	c.1063G>A	c.(1063-1065)GAA>AAA	p.E355K	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.E355K|MPP7_uc009xla.2_Missense_Mutation_p.E355K|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	355					establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						GTCACTTCTTCGTATGTGGGT	0.378													74	78					0	0	1	0	0		T	28378660	T	T	28378660	3	4	190	1	0	0	0	0	1	0	0	0	9757	893	31	1	691	1	MPP7	10	28378660	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1380040	28378660	107156087	708	94861											
SVIL	6840	broad.mit.edu	37	chr10	29782225	29782225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catattataatccacgctgcGgtaaaatttggcaaaggttt	13	13	8	7	2	0	0	0	0	0	0	1	0	1	0	1	3	1	4	1	3	6	6	rs141855067		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:29782225G>A	uc001iut.1	-	21	4690	c.3937C>T	c.(3937-3939)CGC>TGC	p.R1313C	SVIL_uc010qdw.1_Missense_Mutation_p.R227C|SVIL_uc001iuu.1_Missense_Mutation_p.R887C|SVIL_uc009xlc.2_Missense_Mutation_p.R105C	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1313					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TCCACGCTGCGGTAAAATTTG	0.468													16	19					0	0	1	0	0		A	29782225	A	A	29782225	3	1	190	1	0	0	0	0	1	0	0	0	15446	1116	39	1	2779	1	SVIL	10	29782225	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1403565	29782225	105752522	709	94862											
ANKRD30A	91074	broad.mit.edu	37	chr10	37430911	37430911	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaacacctagggaaattacGagtcctgcaaaagaaacatc	18	6	8	9	1	0	1	0	0	0	1	2	4	1	2	2	1	4	1	2	1	7	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:37430911G>A	uc001iza.1	+	7	1017	c.918G>A	c.(916-918)ACG>ACA	p.T306T		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	362						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GGGAAATTACGAGTCCTGCAA	0.428													48	59					0	0	1	0	0		A	37430911	A	A	37430911	2	1	190	1	0	0	0	0	0	0	0	1	658	1045	37	1		1	ANKRD30A	10	37430911	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7648686	37430911	98103836	710	94863											
ZNF488	118738	broad.mit.edu	37	chr10	48371037	48371037	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctttagcaaaccaaccaagCgaccagcagagaggcctgag	14	4	10	13	1	0	2	0	1	0	1	0	4	0	2	5	1	5	2	5	1	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:48371037C>T	uc001jex.2	+	2	667	c.505C>T	c.(505-507)CGA>TGA	p.R169*	ZNF488_uc001jey.2_Nonsense_Mutation_p.R62*	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	169					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ACCAACCAAGCGACCAGCAGA	0.587													28	25					0	0	1	0	0		T	48371037	T	T	48371037	4	4	190	1	0	0	0	0	0	1	0	0	17965	760	27	1	507	1	ZNF488	10	48371037	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	10940126	48371037	87163710	711	94864											
ARHGAP22	58504	broad.mit.edu	37	chr10	49687682	49687682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatctacgggcagtacctcCgcccagcggggcccagatga	8	5	13	15	4	1	2	0	1	1	1	2	3	2	2	4	3	3	2	4	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:49687682C>T	uc001jgt.2	-	4	745	c.448G>A	c.(448-450)GGA>AGA	p.G150R	ARHGAP22_uc001jgs.2_Missense_Mutation_p.G60R|ARHGAP22_uc001jgu.2_Missense_Mutation_p.G150R|ARHGAP22_uc010qgl.1_Intron|ARHGAP22_uc010qgm.1_Missense_Mutation_p.G156R|ARHGAP22_uc001jgv.2_5'UTR|uc001jgw.2_5'Flank	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	150					angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						GCAGTACCTCCGCCCAGCGGG	0.662													15	18					0	0	1	0	0		T	49687682	T	T	49687682	3	4	190	1	0	0	0	0	1	0	0	0	872	661	23	1	1676	1	ARHGAP22	10	49687682	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1316645	49687682	85847065	712	94865											
C10orf71	118461	broad.mit.edu	37	chr10	50532282	50532282	+	Frame_Shift_Del	DEL	C	-	-																															aaggagagacccgctgatgaCcccactgcatcacacatcaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:50532282delC	uc010qgp.1	+	3	2031	c.1692delC	c.(1690-1692)GACfs	p.D564fs		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	564											0						CCGCTGATGACCCCACTGCAT	0.532													18	27	---	---	---	---						.	-	50532282	-	-	50532282	7	5	190	1	0	1	0	1	0	0	0	0	1617	506	18	0	1694	0	C10orf71	10	50532282	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	844600	50532282	85002465	713	94866											
SLC18A3	6572	broad.mit.edu	37	chr10	50819159	50819159	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcgaagacgtgaagatcGgggtgctgtttgcttccaag	10	9	15	7	3	0	4	0	1	0	3	2	5	1	4	1	2	3	3	1	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:50819159G>T	uc001jhw.2	+	1	813	c.373G>T	c.(373-375)GGG>TGG	p.G125W	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	125	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CGTGAAGATCGGGGTGCTGTT	0.652													42	53					1.15505e-17	1.23266e-17	1	1	0		T	50819159	T	T	50819159	3	4	190	1	0	0	0	0	1	0	0	0	14452	1116	39	5	375	5	SLC18A3	10	50819159	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	286877	50819159	84715588	714	94867											
NCOA4	8031	broad.mit.edu	37	chr10	51582227	51582227	+	Silent	SNP	T	C	C	0	1	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	catgctagttcagcaaatatTgggcccttcctggagaagag	11	10	11	9	0	1	2	1	0	0	2	2	3	2	2	2	2	2	3	2	2	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:51582227T>C	uc001jis.3	+	6	728	c.525T>C	c.(523-525)ATT>ATC	p.I175I	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Silent_p.I191I|NCOA4_uc010qhd.1_Silent_p.I191I|NCOA4_uc010qhe.1_Silent_p.I75I|NCOA4_uc010qhf.1_Silent_p.I9I|NCOA4_uc001jit.2_Silent_p.I175I|NCOA4_uc009xoo.2_Silent_p.I175I	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	175					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						CAGCAAATATTGGGCCCTTCC	0.373			T	RET	papillary thyroid 								5	59					0	0	1	0	0		C	51582227	C	C	51582227	2	2	190	1	0	0	0	0	0	0	0	1	10250	1800	63	3		3	NCOA4	10	51582227	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	763068	51582227	83952520	715	94868											
A1CF	29974	broad.mit.edu	37	chr10	52570854	52570854	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttattttgtacaagaatagcTgtctttggtcttgtccaata	10	18	7	6	0	2	1	0	0	2	1	3	1	3	1	1	1	2	2	1	1	7	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:52570854T>C	uc001jjj.2	-	11	1618	c.1430A>G	c.(1429-1431)CAG>CGG	p.Q477R	A1CF_uc010qhn.1_Missense_Mutation_p.Q477R|A1CF_uc001jji.2_Missense_Mutation_p.Q469R|A1CF_uc001jjh.2_Missense_Mutation_p.Q477R|A1CF_uc010qho.1_Missense_Mutation_p.Q485R|A1CF_uc009xov.2_Missense_Mutation_p.Q469R	NM_138932	NP_620310	Q9NQ94	A1CF_HUMAN	apobec-1 complementation factor isoform 2	477					cytidine to uridine editing|mRNA modification|mRNA processing|protein stabilization	apolipoprotein B mRNA editing enzyme complex|endoplasmic reticulum|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding			central_nervous_system(1)	1						CAAGAATAGCTGTCTTTGGTC	0.398													17	29					0	0	1	0	0		C	52570854	C	C	52570854	3	2	190	1	0	0	0	0	1	0	0	0	2	1580	55	3	366	3	A1CF	10	52570854	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	988627	52570854	82963893	716	94869											
ANK3	288	broad.mit.edu	37	chr10	61831671	61831671	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggacaatttttgtgataGttcatgttttggaaatgccg	9	16	11	5	1	1	1	1	1	0	0	1	3	1	3	1	2	1	2	1	2	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:61831671G>A	uc001jky.2	-	37	9160	c.8968C>T	c.(8968-8970)CTA>TTA	p.L2990L	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2990					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTTTGTGATAGTTCATGTTTT	0.388													40	48					0	0	1	0	0		A	61831671	A	A	61831671	2	1	190	1	0	0	0	0	0	0	0	1	622	1020	36	4		4	ANK3	10	61831671	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	9260817	61831671	73703076	717	94870											
RHOBTB1	9886	broad.mit.edu	37	chr10	62652608	62652608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgattaacagcttccaggtCggcatagcggagatcaagct	11	9	11	10	3	1	1	1	0	0	1	4	3	2	1	1	3	4	3	1	3	3	3	rs141139124	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:62652608C>T	uc001jli.2	-	6	880	c.442G>A	c.(442-444)GAC>AAC	p.D148N	RHOBTB1_uc001jlh.2_Missense_Mutation_p.D148N|RHOBTB1_uc001jlj.2_Missense_Mutation_p.D148N|RHOBTB1_uc001jlk.2_Missense_Mutation_p.D148N|RHOBTB1_uc009xpe.1_Intron	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	148	Rho-like.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					GCTTCCAGGTCGGCATAGCGG	0.502													30	47					0	0	1	0	0		T	62652608	T	T	62652608	3	4	190	1	0	0	0	0	1	0	0	0	13358	884	31	1	1676	1	RHOBTB1	10	62652608	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	820937	62652608	72882139	718	94871											
ARID5B	84159	broad.mit.edu	37	chr10	63852248	63852248	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	cccgcagaacattggggcggCgcggccgatcaagcgcagcc	8	3	15	15	6	1	1	1	0	0	1	1	2	1	1	3	4	3	2	3	4	2	1	rs145564601		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:63852248C>G	uc001jlt.1	+	10	3052	c.3026C>G	c.(3025-3027)GCG>GGG	p.A1009G		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	1009					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					ATTGGGGCGGCGCGGCCGATC	0.572													34	76					0	0	1	0	0		G	63852248	G	G	63852248	3	3	190	1	0	0	0	0	1	0	0	0	922	768	27	5	3064	5	ARID5B	10	63852248	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1199640	63852248	71682499	719	94872											
HERC4	26091	broad.mit.edu	37	chr10	69714858	69714858	+	Missense_Mutation	SNP	A	T	T	1	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	gggagaaaaagagaggagacAttctgcctgtgggcctgatc	12	7	15	7	0	1	4	0	1	1	3	2	7	1	4	2	3	1	0	2	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:69714858A>T	uc001jng.3	-	19	2390	c.2079T>A	c.(2077-2079)AAT>AAA	p.N693K	HERC4_uc009xpq.2_Missense_Mutation_p.N226K|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.N685K|HERC4_uc009xpr.2_Missense_Mutation_p.N693K|HERC4_uc001jni.3_Missense_Mutation_p.N429K	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	693					cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						GAGAGGAGACATTCTGCCTGT	0.398													34	53					0	0	1	0	0		T	69714858	T	T	69714858	3	4	190	1	0	0	0	0	1	0	0	0	7076	214	8	5	1126	5	HERC4	10	69714858	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	5862610	69714858	65819889	720	94873											
PPP3CB	5532	broad.mit.edu	37	chr10	75239200	75239200	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaccaagtggttcttcagaAcatcaaccctgggtatccca	11	10	7	13	0	4	1	3	0	1	1	5	1	5	1	3	2	2	2	3	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:75239200A>G	uc001jue.2	-	2	296	c.161T>C	c.(160-162)GTT>GCT	p.V54A	PPP3CB_uc001juf.2_Missense_Mutation_p.V54A|PPP3CB_uc001jug.2_Missense_Mutation_p.V54A|PPP3CB_uc001jui.2_Missense_Mutation_p.V54A|PPP3CB_uc001juh.2_5'UTR	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	54	Catalytic.									skin(1)	1	Prostate(51;0.0119)					GTTCTTCAGAACATCAACCCT	0.418													67	88					0	0	1	0	0		G	75239200	G	G	75239200	3	3	190	1	0	0	0	0	1	0	0	0	12420	43	2	3	1468	3	PPP3CB	10	75239200	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	5524342	75239200	60295547	721	94874											
MYST4	23522	broad.mit.edu	37	chr10	76744931	76744931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgttgtattatgatgtcgagCcattccttttttatgtcctt	6	20	7	8	2	0	1	0	1	0	0	3	2	2	1	3	0	1	2	3	0	3	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:76744931C>T	uc001jwn.1	+	12	2960	c.2467C>T	c.(2467-2469)CCA>TCA	p.P823S	MYST4_uc001jwm.1_Missense_Mutation_p.P531S|MYST4_uc001jwo.1_Missense_Mutation_p.P531S|MYST4_uc001jwp.1_Missense_Mutation_p.P640S	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	823	Catalytic.|Interaction with BRPF1.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					TGATGTCGAGCCATTCCTTTT	0.388			T	CREBBP	AML								30	37					0	0	1	0	0		T	76744931	T	T	76744931	3	4	190	1	0	0	0	0	1	0	0	0	10123	739	26	2	2505	2	MYST4	10	76744931	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1505731	76744931	58789816	722	94875											
KCNMA1	3778	broad.mit.edu	37	chr10	78651358	78651358	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccctattggccagtgtctgCggggtgctgtagccacctct	4	12	12	13	1	2	0	0	0	2	0	3	0	3	0	4	3	3	2	4	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:78651358C>T	uc001jxn.2	-	26	3444	c.3267G>A	c.(3265-3267)CCG>CCA	p.P1089P	KCNMA1_uc001jxj.2_Silent_p.P1035P|KCNMA1_uc001jxk.1_Silent_p.P707P|KCNMA1_uc009xrt.1_Silent_p.P880P|KCNMA1_uc001jxl.1_Silent_p.P714P|KCNMA1_uc001jxo.2_Silent_p.P1072P|KCNMA1_uc001jxm.2_Silent_p.P1031P|KCNMA1_uc001jxq.2_Silent_p.P1061P|uc001jxp.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1089	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CCAGTGTCTGCGGGGTGCTGT	0.632													21	23					0	0	1	0	0		T	78651358	T	T	78651358	2	4	190	1	0	0	0	0	0	0	0	1	8089	755	27	1		1	KCNMA1	10	78651358	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1906427	78651358	56883389	723	94876											
CDHR1	92211	broad.mit.edu	37	chr10	85973046	85973046	+	Frame_Shift_Del	DEL	G	-	-																															agaggtgcaggccaaggaccGgggctccccatccttcagca																								rs150840551		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:85973046delG	uc001kcv.2	+	16	1982	c.1982delG	c.(1981-1983)CGGfs	p.R661fs	CDHR1_uc001kcw.2_Frame_Shift_Del_p.R661fs|CDHR1_uc009xst.2_Frame_Shift_Del_p.R365fs|CDHR1_uc001kcx.2_5'UTR	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	661	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						GCCAAGGACCGGGGCTCCCCA	0.562													57	117	---	---	---	---						.	-	85973046	-	-	85973046	7	5	190	1	0	1	0	1	0	0	0	0	3121	1116	39	0	2044	0	CDHR1	10	85973046	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	7321688	85973046	49561701	724	94877											
CDHR1	92211	broad.mit.edu	37	chr10	85974009	85974009	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acaaggtcctgccaatgcggCgggtgctccgcaagcggccc	7	5	14	15	4	0	0	0	0	0	0	2	0	2	0	4	4	4	2	4	4	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:85974009C>T	uc001kcv.2	+	17	2212	c.2212C>T	c.(2212-2214)CGG>TGG	p.R738W	CDHR1_uc001kcw.2_Intron|CDHR1_uc009xst.2_Missense_Mutation_p.R442W|CDHR1_uc001kcx.2_Missense_Mutation_p.R52W	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	738	Cytoplasmic (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						GCCAATGCGGCGGGTGCTCCG	0.622													48	38					0	0	1	0	0		T	85974009	T	T	85974009	3	4	190	1	0	0	0	0	1	0	0	0	3121	759	27	1	2278	1	CDHR1	10	85974009	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	963	85974009	49560738	725	94878											
LRIT1	26103	broad.mit.edu	37	chr10	85997322	85997322	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agctgctccaggcggcccagGggcctgaaggcctcgccagg	6	4	16	15	2	0	1	0	1	0	0	2	1	1	1	5	6	2	2	5	6	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:85997322G>T	uc001kcz.1	-	2	265	c.243C>A	c.(241-243)CCC>CCA	p.P81P		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	81	LRR 1.|Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						GGCGGCCCAGGGGCCTGAAGG	0.721													8	18					0.000157383	0.000160173	1	1	0		T	85997322	T	T	85997322	2	4	190	1	0	0	0	0	0	0	0	1	8965	1219	43	5		5	LRIT1	10	85997322	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	23313	85997322	49537425	726	94879											
GRID1	2894	broad.mit.edu	37	chr10	87966268	87966268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcaggtggcatgcggtgcGtggcgaccctcccgggttgc	3	9	17	12	4	1	0	1	0	0	0	2	1	2	0	2	5	3	3	2	5	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:87966268G>A	uc001kdl.1	-	3	474	c.373C>T	c.(373-375)CGC>TGC	p.R125C	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	125	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CATGCGGTGCGTGGCGACCCT	0.632										Multiple Myeloma(13;0.14)			29	31					0	0	1	0	0		A	87966268	A	A	87966268	3	1	190	1	0	0	0	0	1	0	0	0	6787	1145	40	1	2712	1	GRID1	10	87966268	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1968946	87966268	47568479	727	94880											
KIF20B	9585	broad.mit.edu	37	chr10	91478521	91478521	+	Frame_Shift_Del	DEL	T	-	-																															ctgactcactattttcaaagTttttttaatggtaaagggaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:91478521delT	uc001kgs.1	+	12	1398	c.1326delT	c.(1324-1326)AGTfs	p.S442fs	KIF20B_uc001kgr.1_Frame_Shift_Del_p.S442fs	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	442					cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						ATTTTCAAAGTTTTTTTAATG	0.323													29	51	---	---	---	---						.	-	91478521	-	-	91478521	7	5	190	1	0	1	0	1	0	0	0	0	8303	1722	60	0	1368	0	KIF20B	10	91478521	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	3512253	91478521	44056226	728	94881											
CYP26C1	340665	broad.mit.edu	37	chr10	94825964	94825964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtctgcgctacgtcgactgCgtggtcaaggaggtgctgcg	5	9	16	11	6	2	0	1	0	1	0	3	2	2	1	0	3	5	2	0	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:94825964C>T	uc010qns.1	+	5	1113	c.1113C>T	c.(1111-1113)TGC>TGT	p.C371C	CYP26C1_uc009xud.2_RNA	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	371					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				ACGTCGACTGCGTGGTCAAGG	0.582													4	4					0	0	1	0	0		T	94825964	T	T	94825964	2	4	190	1	0	0	0	0	0	0	0	1	4160	776	27	1		1	CYP26C1	10	94825964	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3347443	94825964	40708783	729	94882											
CYP26A1	1592	broad.mit.edu	37	chr10	94833853	94833854	+	Frame_Shift_Ins	INS	-	G	G																															ctatgggcttccccttctttINSggggaaaccttgcagatggt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:94833853_94833854insG	uc001kil.2	+	1	207_208	c.162_163insG	c.(160-165)TTTGGGfs	p.F54fs	CYP26A1_uc001kik.1_Intron|CYP26A1_uc001kim.1_5'Flank	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	54_55					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				TCCCCTTCTTTGGGGAAACCTT	0.663													4	4	---	---	---	---						.	G	94833854	G	G	94833853	7	5	190	1	0	1	1	0	0	0	0	0	4158	1809	63	0	164	0	CYP26A1	10	94833853	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	7889	94833853	40700894	730	94883											
CYP26A1	1592	broad.mit.edu	37	chr10	94834065	94834065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccgccttcctcccacagCggaggaagttcctgcagatg	7	8	10	16	2	0	1	0	0	0	1	4	3	4	3	6	2	2	2	6	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:94834065C>T	uc001kil.2	+	2	235	c.190C>T	c.(190-192)CGG>TGG	p.R64W	CYP26A1_uc001kik.1_5'UTR|CYP26A1_uc001kim.1_5'UTR	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	64					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				CCTCCCACAGCGGAGGAAGTT	0.652													21	26					0	0	1	0	0		T	94834065	T	T	94834065	3	4	190	1	0	0	0	0	1	0	0	0	4158	782	27	1	196	1	CYP26A1	10	94834065	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	212	94834065	40700682	731	94884											
ALDH18A1	5832	broad.mit.edu	37	chr10	97397084	97397084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccgagtggagggcctgcCgcacgctctgagacagaagg	8	4	16	13	3	1	2	0	1	1	2	1	5	1	3	4	3	1	2	4	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:97397084C>T	uc001kkz.2	-	4	655	c.413G>A	c.(412-414)CGG>CAG	p.R138Q	ALDH18A1_uc001kky.2_Missense_Mutation_p.R138Q|ALDH18A1_uc010qog.1_Missense_Mutation_p.R27Q|ALDH18A1_uc010qoh.1_Intron	NM_002860	NP_002851	P54886	P5CS_HUMAN	pyrroline-5-carboxylate synthetase isoform 1	138	Glutamate 5-kinase.				proline biosynthetic process	mitochondrial inner membrane	ATP binding|glutamate 5-kinase activity|glutamate-5-semialdehyde dehydrogenase activity			pancreas(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0402)		Epithelial(162;9.1e-07)|all cancers(201;2.55e-05)	L-Glutamic Acid(DB00142)	GAGGGCCTGCCGCACGCTCTG	0.547													28	60					0	0	1	0	0		T	97397084	T	T	97397084	3	4	190	1	0	0	0	0	1	0	0	0	489	652	23	1	2034	1	ALDH18A1	10	97397084	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2563019	97397084	38137663	732	94885											
PIK3AP1	118788	broad.mit.edu	37	chr10	98376420	98376421	+	Frame_Shift_Del	DEL	TC	-	-																															ctgctttcctgatttttgctTctctctctgtcttcgggtga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:98376420_98376421delTC	uc001kmq.2	-	13	2117_2118	c.1989_1990delGA	c.(1987-1992)GAGAAGfs	p.E663fs	PIK3AP1_uc001kmo.2_Frame_Shift_Del_p.E262fs|PIK3AP1_uc001kmp.2_Frame_Shift_Del_p.E485fs	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	663_664	Potential.					cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		GATTTTTGCTTCTCTCTCTGTC	0.431													56	91	---	---	---	---						.	-	98376421	-	-	98376420	7	5	190	1	0	1	0	1	0	0	0	0	11927	1792	62	0	447	0	PIK3AP1	10	98376420	Frame_Shift_Del	DEL	TC	TCGA-F1-6177-01A-11D-1800-08	979336	98376420	37158327	733	94886											
UBTD1	80019	broad.mit.edu	37	chr10	99330045	99330045	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgtgcgccgtgagttccCgctgaaggtgcgcctgtcca	5	8	14	14	5	0	2	0	2	0	0	2	2	2	2	4	1	3	2	4	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:99330045C>A	uc001knv.1	+	3	642	c.449C>A	c.(448-450)CCG>CAG	p.P150Q	ANKRD2_uc001knw.2_5'Flank|ANKRD2_uc009xvu.2_5'Flank	NM_024954	NP_079230	Q9HAC8	UBTD1_HUMAN	ubiquitin domain containing 1	150	Ubiquitin-like.										0		Colorectal(252;0.162)		Epithelial(162;3.04e-10)|all cancers(201;2.86e-08)		CGTGAGTTCCCGCTGAAGGTG	0.692													23	33					5.35356e-11	5.63672e-11	1	1	0		A	99330045	A	A	99330045	3	1	190	1	0	0	0	0	1	0	0	0	16933	652	23	5	459	5	UBTD1	10	99330045	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	953625	99330045	36204702	734	94887											
C10orf2	56652	broad.mit.edu	37	chr10	102749454	102749454	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtgagtatgccctggatttgTgttcccagggggtgaacaca	8	11	14	8	0	0	2	0	2	0	0	1	3	1	3	2	3	2	2	2	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:102749454T>C	uc001ksf.2	+	2	1972	c.1297T>C	c.(1297-1299)TGT>CGT	p.C433R	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Missense_Mutation_p.C433R|C10orf2_uc001ksi.2_5'UTR|C10orf2_uc010qpv.1_5'UTR|C10orf2_uc001ksh.2_Intron	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	433	SF4 helicase.				cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CCTGGATTTGTGTTCCCAGGG	0.567													46	51					0	0	1	0	0		C	102749454	C	C	102749454	3	2	190	1	0	0	0	0	1	0	0	0	1600	1696	59	3	1303	3	C10orf2	10	102749454	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3419409	102749454	32785293	735	94888											
TLX1	3195	broad.mit.edu	37	chr10	102896546	102896546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaagagcctggcacagcCgctgcccgctgaccctctgt	7	6	11	17	2	1	3	0	1	1	2	1	3	1	3	5	1	3	3	5	1	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:102896546C>T	uc001ksw.2	+	3	1107	c.869C>T	c.(868-870)CCG>CTG	p.P290L		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	290						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		CTGGCACAGCCGCTGCCCGCT	0.632			T	TRB@|TRD@	T-ALL								36	38					0	0	1	0	0		T	102896546	T	T	102896546	3	4	190	1	0	0	0	0	1	0	0	0	15984	652	23	1	879	1	TLX1	10	102896546	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	147092	102896546	32638201	736	94889											
POLL	27343	broad.mit.edu	37	chr10	103339389	103339389	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggttttggccagggctcGcatggagcggttgaagtgtg	5	12	17	7	2	0	1	0	1	0	0	1	2	0	2	1	5	1	4	1	5	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:103339389G>A	uc001ktg.1	-	8	2315	c.1549C>T	c.(1549-1551)CGA>TGA	p.R517*	DPCD_uc010qpz.1_Intron|POLL_uc001ktd.1_Nonsense_Mutation_p.R190*|POLL_uc001kte.1_Nonsense_Mutation_p.R209*|POLL_uc001kth.1_Nonsense_Mutation_p.R242*|POLL_uc001kti.1_Nonsense_Mutation_p.R517*|POLL_uc001ktj.1_Nonsense_Mutation_p.R517*|POLL_uc001ktf.2_Nonsense_Mutation_p.R425*|POLL_uc001ktk.1_Nonsense_Mutation_p.R256*|POLL_uc010qqa.1_Nonsense_Mutation_p.R256*|POLL_uc010qqb.1_RNA|POLL_uc001ktm.2_Nonsense_Mutation_p.R517*|POLL_uc001ktl.2_Nonsense_Mutation_p.R429*|POLL_uc010qqc.1_Nonsense_Mutation_p.R209*	NM_013274	NP_037406	Q9UGP5	DPOLL_HUMAN	DNA-directed DNA polymerase lambda	517					DNA replication|nucleotide-excision repair|somatic hypermutation of immunoglobulin genes	nucleus	DNA binding|DNA-directed DNA polymerase activity|lyase activity|metal ion binding				0		Colorectal(252;0.234)		Epithelial(162;1.55e-08)|all cancers(201;6.64e-07)		GCCAGGGCTCGCATGGAGCGG	0.627								DNA_polymerases_(catalytic_subunits)					41	63					0	0	1	0	0		A	103339389	A	A	103339389	4	1	190	1	0	0	0	0	0	1	0	0	12224	1095	38	1	182	1	POLL	10	103339389	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	442843	103339389	32195358	737	94890											
PSD	5662	broad.mit.edu	37	chr10	104174959	104174959	+	Frame_Shift_Del	DEL	G	-	-																															agcccaccccaggtggagatGggggggcctgctctgggggc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:104174959delG	uc001kvg.1	-	4	1312	c.785delC	c.(784-786)CCAfs	p.P262fs	PSD_uc001kvh.1_5'UTR|PSD_uc009xxd.1_Frame_Shift_Del_p.P262fs	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	262					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		AGGTGGAGATGGGGGGGCCTG	0.627													23	28	---	---	---	---						.	-	104174959	-	-	104174959	7	5	190	1	0	1	0	1	0	0	0	0	12668	1348	47	0	2345	0	PSD	10	104174959	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	835570	104174959	31359788	738	94891											
NT5C2	22978	broad.mit.edu	37	chr10	104854154	104854154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaaaaagagtggtttcCgtgcatccaccaagatcaag	14	8	8	11	1	1	2	1	0	0	2	4	2	4	2	4	1	1	2	4	1	5	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:104854154C>T	uc001kwo.2	-	13	1058	c.872G>A	c.(871-873)CGG>CAG	p.R291Q	NT5C2_uc010qqp.1_Missense_Mutation_p.R262Q|NT5C2_uc001kwq.2_Missense_Mutation_p.R291Q|NT5C2_uc001kwp.2_Missense_Mutation_p.R138Q	NM_012229	NP_036361	P49902	5NTC_HUMAN	5'-nucleotidase, cytosolic II	291					purine base metabolic process|purine nucleotide catabolic process	cytosol	5'-nucleotidase activity|metal ion binding|nucleotide binding|protein binding				0		all_hematologic(284;0.176)|Colorectal(252;0.178)		Epithelial(162;1.33e-08)|all cancers(201;1.04e-07)|BRCA - Breast invasive adenocarcinoma(275;0.159)	Adenosine triphosphate(DB00171)|Ribavirin(DB00811)	GAGTGGTTTCCGTGCATCCAC	0.458													14	22					0	0	1	0	0		T	104854154	T	T	104854154	3	4	190	1	0	0	0	0	1	0	0	0	10706	652	23	1	841	1	NT5C2	10	104854154	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	679195	104854154	30680593	739	94892											
ADD3	120	broad.mit.edu	37	chr10	111882009	111882009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaaaaatggaaggttggcGaaattgagtttgaagggctt	14	11	13	3	1	1	2	1	2	0	0	1	4	1	3	0	4	0	3	0	4	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:111882009G>A	uc001kyt.3	+	10	1416	c.1102G>A	c.(1102-1104)GAA>AAA	p.E368K	ADD3_uc001kys.3_Missense_Mutation_p.E368K|ADD3_uc001kyu.2_Missense_Mutation_p.E368K|ADD3_uc001kyv.2_Missense_Mutation_p.E368K|ADD3_uc001kyw.2_Missense_Mutation_p.E368K|ADD3_uc001kyx.2_5'Flank	NM_016824	NP_058432	Q9UEY8	ADDG_HUMAN	adducin 3 (gamma) isoform a	368						cytoskeleton	actin binding|calmodulin binding|metal ion binding|structural constituent of cytoskeleton			ovary(2)|skin(2)|large_intestine(1)	5		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;4.15e-05)|all cancers(201;0.000587)|BRCA - Breast invasive adenocarcinoma(275;0.0742)		GAAGGTTGGCGAAATTGAGTT	0.413													32	58					0	0	1	0	0		A	111882009	A	A	111882009	3	1	190	1	0	0	0	0	1	0	0	0	306	1059	37	1	1132	1	ADD3	10	111882009	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7027855	111882009	23652738	740	94893											
ADRA2A	150	broad.mit.edu	37	chr10	112838876	112838876	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcgtcggggctgccaaggcGtcgcgctggcgcgggcggca	3	4	20	14	9	0	0	0	0	0	0	2	0	0	0	1	6	1	3	1	6	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:112838876G>A	uc001kzo.2	+	1	2087	c.1122G>A	c.(1120-1122)GCG>GCA	p.A374A		NM_000681	NP_000672	P08913	ADA2A_HUMAN	alpha-2A-adrenergic receptor	359	Cytoplasmic (By similarity).			PRRGPGATGIGTPAAGPGEERVGAAKASRWRGR -> RGAG RGRRGSGRRLQGRGRSASGLPRRRAGAGG (in Ref. 1; AAA51664 and 2; AAA51665).	actin cytoskeleton organization|activation of MAPK activity by adrenergic receptor signaling pathway|activation of phospholipase C activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cellular component movement|cellular response to hormone stimulus|energy reserve metabolic process|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|glucose homeostasis|inhibition of adenylate cyclase activity by adrenergic receptor signaling pathway|intestinal absorption|negative regulation of adrenergic receptor signaling pathway|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cAMP biosynthetic process|negative regulation of epinephrine secretion|negative regulation of insulin secretion involved in cellular response to glucose stimulus|negative regulation of lipid catabolic process|negative regulation of norepinephrine secretion|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cytokine production|positive regulation of membrane protein ectodomain proteolysis|positive regulation of potassium ion transport|positive regulation of wound healing|Rho protein signal transduction	basolateral plasma membrane|cytoplasm|integral to plasma membrane|receptor complex	alpha-1B adrenergic receptor binding|alpha-2C adrenergic receptor binding|alpha2-adrenergic receptor activity|epinephrine binding|heterotrimeric G-protein binding|norepinephrine binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|thioesterase binding				0		Breast(234;0.0735)|Lung NSC(174;0.238)		Epithelial(162;0.000316)|all cancers(201;0.00501)|BRCA - Breast invasive adenocarcinoma(275;0.118)	Amitriptyline(DB00321)|Amphetamine(DB00182)|Apraclonidine(DB00964)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Brimonidine(DB00484)|Clonidine(DB00575)|Debrisoquin(DB04840)|Dexmedetomidine(DB00633)|Dipivefrin(DB00449)|Epinastine(DB00751)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanabenz(DB00629)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Lofexidine(DB04948)|Methyldopa(DB00968)|Mianserin(DB06148)|Mirtazapine(DB00370)|Norepinephrine(DB00368)|Oxymetazoline(DB00935)|Phentolamine(DB00692)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Tizanidine(DB00697)|Trazodone(DB00656)|Yohimbine(DB01392)	CTGCCAAGGCGTCGCGCTGGC	0.622													16	13					0	0	1	0	0		A	112838876	A	A	112838876	2	1	190	1	0	0	0	0	0	0	0	1	337	1132	40	1		1	ADRA2A	10	112838876	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	956867	112838876	22695871	741	94894											
DCLRE1A	9937	broad.mit.edu	37	chr10	115608932	115608932	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgacacgctccttcctgCagtgaatttgactttctaca	8	15	6	12	1	2	3	0	3	2	0	4	3	4	3	2	0	2	2	2	0	2	5	rs144798018		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:115608932C>T	uc001law.2	-	2	2850	c.1932G>A	c.(1930-1932)CTG>CTA	p.L644L		NM_014881	NP_055696	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	644					cell division|mitosis	nucleus	hydrolase activity			skin(2)	2				Epithelial(162;0.0157)|all cancers(201;0.0171)		CTCCTTCCTGCAGTGAATTTG	0.378								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					99	130					0	0	1	0	0		T	115608932	T	T	115608932	2	4	190	1	0	0	0	0	0	0	0	1	4297	697	25	2		2	DCLRE1A	10	115608932	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2770056	115608932	19925815	742	94895											
ADRB1	153	broad.mit.edu	37	chr10	115804493	115804493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcatgcactggtggcgggCggagagcgacgaggcgcgcc	6	4	18	13	6	1	1	1	0	0	1	1	4	1	1	2	5	2	1	2	5	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:115804493C>T	uc001lba.2	+	1	688	c.602C>T	c.(601-603)GCG>GTG	p.A201V		NM_000684	NP_000675	P08588	ADRB1_HUMAN	beta-1-adrenergic receptor	201	Extracellular (By similarity).				positive regulation of cAMP biosynthetic process	integral to plasma membrane	alpha-2A adrenergic receptor binding|beta1-adrenergic receptor activity|protein heterodimerization activity				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0124)|all cancers(201;0.0298)	Acebutolol(DB01193)|Alprenolol(DB00866)|Amiodarone(DB01118)|Arbutamine(DB01102)|Atenolol(DB00335)|Betaxolol(DB00195)|Bevantolol(DB01295)|Bisoprolol(DB00612)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Desipramine(DB01151)|Dobutamine(DB00841)|Dopamine(DB00988)|Epinephrine(DB00668)|Esmolol(DB00187)|Isoetharine(DB00221)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Metoprolol(DB00264)|Nadolol(DB01203)|Norepinephrine(DB00368)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Practolol(DB01297)|Propranolol(DB00571)|Risperidone(DB00734)|Timolol(DB00373)|Ziprasidone(DB00246)	TGGTGGCGGGCGGAGAGCGAC	0.587													14	18					0	0	1	0	0		T	115804493	T	T	115804493	3	4	190	1	0	0	0	0	1	0	0	0	340	768	27	1	604	1	ADRB1	10	115804493	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	195561	115804493	19730254	743	94896											
PPAPDC1A	196051	broad.mit.edu	37	chr10	122348837	122348837	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctttgtgggtggagtcatCggcctcatttttgcatacat	6	16	10	9	1	2	0	2	0	0	0	4	1	3	1	2	3	2	1	2	3	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:122348837C>T	uc001lev.1	+	7	991	c.639C>T	c.(637-639)ATC>ATT	p.I213I	PPAPDC1A_uc009xzl.1_Silent_p.I150I|PPAPDC1A_uc001lew.1_3'UTR|PPAPDC1A_uc001lex.1_Missense_Mutation_p.S63L|PPAPDC1A_uc001ley.1_Silent_p.I92I	NM_001030059	NP_001025230	Q5VZY2	PPC1A_HUMAN	phosphatidic acid phosphatase type 2 domain	213	Helical; (Potential).				phospholipid dephosphorylation	integral to membrane	phosphatidate phosphatase activity			breast(1)	1		Lung NSC(174;0.1)|all_lung(145;0.132)		all cancers(201;0.0117)		GTGGAGTCATCGGCCTCATTT	0.468													57	74					0	0	1	0	0		T	122348837	T	T	122348837	2	4	190	1	0	0	0	0	0	0	0	1	12312	874	31	1		1	PPAPDC1A	10	122348837	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6544344	122348837	13185910	744	94897											
DMBT1	1755	broad.mit.edu	37	chr10	124390712	124390712	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtagagtgctcagggacGgaatccactctctggcagtg	9	9	14	9	1	2	1	1	0	1	1	4	4	3	3	1	3	1	3	1	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:124390712G>A	uc001lgk.1	+	46	5980	c.5874G>A	c.(5872-5874)ACG>ACA	p.T1958T	DMBT1_uc001lgl.1_Silent_p.T1948T|DMBT1_uc001lgm.1_Silent_p.T1330T|DMBT1_uc009xzz.1_Silent_p.T1958T|DMBT1_uc010qtx.1_Silent_p.T678T|DMBT1_uc009yab.1_Silent_p.T661T|DMBT1_uc009yac.1_Silent_p.T252T	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1958	SRCR 14.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GCTCAGGGACGGAATCCACTC	0.557													44	52					0	0	1	0	0		A	124390712	A	A	124390712	2	1	190	1	0	0	0	0	0	0	0	1	4583	1103	39	1		1	DMBT1	10	124390712	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2041875	124390712	11144035	745	94898											
C10orf88	80007	broad.mit.edu	37	chr10	124711509	124711510	+	Frame_Shift_Ins	INS	-	T	T																															tggaggactccaattttagaINSttttttttatacaaaatgat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:124711509_124711510insT	uc001lgw.2	-	3	626_627	c.401_402insA	c.(400-402)AATfs	p.N134fs	C10orf88_uc001lgx.2_Frame_Shift_Ins_p.N36fs	NM_024942	NP_079218	Q9H8K7	CJ088_HUMAN	hypothetical protein LOC80007	134											0		all_neural(114;0.0765)|Lung NSC(174;0.163)|all_lung(145;0.205)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0735)		CCAATTTTAGATTTTTTTTATA	0.238													6	13	---	---	---	---						.	T	124711510	T	T	124711509	7	5	190	1	0	1	1	0	0	0	0	0	1625	330	12	0	951	0	C10orf88	10	124711509	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	320797	124711509	10823238	746	94899											
IKZF5	64376	broad.mit.edu	37	chr10	124754119	124754119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttacttcgatcactgcagCggaaggaacataattcacat	14	10	8	9	2	2	0	2	0	0	0	3	3	2	2	0	2	4	2	0	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:124754119C>T	uc001lha.2	-	5	736	c.437G>A	c.(436-438)CGC>CAC	p.R146H	IKZF5_uc001lgz.2_5'UTR	NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	146	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		ATCACTGCAGCGGAAGGAACA	0.423													56	63					0	0	1	0	0		T	124754119	T	T	124754119	3	4	190	1	0	0	0	0	1	0	0	0	7634	768	27	1	826	1	IKZF5	10	124754119	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	42610	124754119	10780628	747	94900											
C10orf90	118611	broad.mit.edu	37	chr10	128193320	128193320	+	Frame_Shift_Del	DEL	G	-	-																															cccacaccagggcgcgggctGgggggcccacgcgtctggcc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:128193320delG	uc001ljq.2	-	3	570	c.449delC	c.(448-450)CCAfs	p.P150fs	C10orf90_uc001ljp.2_Frame_Shift_Del_p.P103fs|C10orf90_uc010qum.1_Frame_Shift_Del_p.P247fs|C10orf90_uc009yao.2_Frame_Shift_Del_p.P247fs|C10orf90_uc001ljs.1_Frame_Shift_Del_p.P103fs	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	150										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GGCGCGGGCTGGGGGGCCCAC	0.697											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	33	---	---	---	---						.	-	128193320	-	-	128193320	7	5	190	1	0	1	0	1	0	0	0	0	1626	1348	47	0	1678	0	C10orf90	10	128193320	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	3439201	128193320	7341427	748	94901											
DOCK1	1793	broad.mit.edu	37	chr10	129245705	129245705	+	Frame_Shift_Del	DEL	C	-	-																															cggacgtggccgatgtcccaCcccctctgcctctcaaaggc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:129245705delC	uc001ljt.2	+	51	5462	c.5398delC	c.(5398-5400)CCCfs	p.P1800fs	DOCK1_uc010qun.1_Frame_Shift_Del_p.P1821fs|DOCK1_uc009yaq.2_Frame_Shift_Del_p.T799fs|DOCK1_uc001ljw.1_5'Flank	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1800	SH3-binding; interaction with CRK (Potential).|Interaction with NCK2 second and third SH3 domain (minor).				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		CGATGTCCCACCCCCTCTGCC	0.592													9	16	---	---	---	---						.	-	129245705	-	-	129245705	7	5	190	1	0	1	0	1	0	0	0	0	4690	507	18	0	5600	0	DOCK1	10	129245705	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1052385	129245705	6289042	749	94902											
MKI67	4288	broad.mit.edu	37	chr10	129902696	129902696	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgaggttttgaatgactCtggctgtggagatttacagg	8	15	13	5	0	2	4	0	3	2	1	2	5	2	4	0	4	1	2	0	4	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:129902696C>A	uc001lke.2	-	13	7603	c.7408G>T	c.(7408-7410)GAG>TAG	p.E2470*	MKI67_uc001lkf.2_Nonsense_Mutation_p.E2110*|MKI67_uc009yav.1_Nonsense_Mutation_p.E2045*|MKI67_uc009yaw.1_Nonsense_Mutation_p.E1620*	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	2470	16 X 122 AA approximate repeats.|13.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTGAATGACTCTGGCTGTGGA	0.473													74	112					5.98616e-33	6.52837e-33	1	1	0		A	129902696	A	A	129902696	4	1	190	1	0	0	0	0	0	1	0	0	9616	922	32	5	2374	5	MKI67	10	129902696	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	656991	129902696	5632051	750	94903											
GPR123	84435	broad.mit.edu	37	chr10	134942441	134942441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgaccaacctgcaggccgCgcagggccacgccagttgcc	8	4	13	16	3	0	1	0	1	0	0	0	2	0	1	6	2	3	3	6	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:134942441C>T	uc001llx.3	+	7	1545	c.1109C>T	c.(1108-1110)GCG>GTG	p.A370V	GPR123_uc001llw.2_Missense_Mutation_p.A1089V	NM_001083909	NP_001077378	Q86SQ6	GP123_HUMAN	G protein-coupled receptor 123	370	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0		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)		CTGCAGGCCGCGCAGGGCCAC	0.741													4	1					0	0	1	0	0		T	134942441	T	T	134942441	3	4	190	1	0	0	0	0	1	0	0	0	6652	768	27	1	1131	1	GPR123	10	134942441	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5039745	134942441	592306	751	94904											
TUBGCP2	10844	broad.mit.edu	37	chr10	135101642	135101642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccacccaccttgaggtcGtccttgaaggggtcagtgtt	6	10	11	14	1	1	2	1	2	0	0	3	2	2	2	5	3	0	1	5	3	1	3	rs145076825		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr10:135101642G>A	uc001lmg.1	-	11	2070	c.1713C>T	c.(1711-1713)GAC>GAT	p.D571D	TUBGCP2_uc001lmf.1_Silent_p.D164D|TUBGCP2_uc010qvc.1_Silent_p.D599D|TUBGCP2_uc009ybk.1_Silent_p.D571D|TUBGCP2_uc010qvd.1_Silent_p.D441D|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	571					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		CCTTGAGGTCGTCCTTGAAGG	0.697													17	27					0	0	1	0	0		A	135101642	A	A	135101642	2	1	190	1	0	0	0	0	0	0	0	1	16792	1136	40	1		1	TUBGCP2	10	135101642	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	159201	135101642	433105	752	94905											
B4GALNT4	338707	broad.mit.edu	37	chr11	373457	373457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaccccccagactggctcCgagtggacagcgcctggaga	9	5	12	15	2	1	2	1	0	0	2	2	5	2	3	5	3	1	1	5	3	0	0	rs143213010		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:373457C>T	uc001lpb.2	+	7	654	c.645C>T	c.(643-645)TCC>TCT	p.S215S		NM_178537	NP_848632	Q76KP1	B4GN4_HUMAN	beta	215	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			pancreas(1)	1		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)		AGACTGGCTCCGAGTGGACAG	0.617													12	36					0	0	1	0	0		T	373457	T	T	373457	2	4	190	1	0	0	0	0	0	0	0	1	1270	639	23	1		1	B4GALNT4	11	373457	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08		373457	134633059	753	94906											
PKP3	11187	broad.mit.edu	37	chr11	403637	403637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcgggggtgctgagccGcctggccctggagcaggagc	4	5	21	11	2	0	1	0	1	0	0	0	3	0	3	3	6	4	2	3	6	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:403637G>A	uc001lpc.2	+	10	2019	c.1943G>A	c.(1942-1944)CGC>CAC	p.R648H		NM_007183	NP_009114	Q9Y446	PKP3_HUMAN	plakophilin 3	648	ARM 7.				cell adhesion	desmosome|nucleus	binding			skin(1)	1		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)		GTGCTGAGCCGCCTGGCCCTG	0.677													26	25					0	0	1	0	0		A	403637	A	A	403637	3	1	190	1	0	0	0	0	1	0	0	0	12005	1087	38	1	1981	1	PKP3	11	403637	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	30180	403637	134602879	754	94907											
RNH1	6050	broad.mit.edu	37	chr11	494953	494953	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggatgccggcgtcccccaGgcagttgttgctgaggtcca	6	8	14	13	2	0	1	0	1	0	0	2	2	2	2	4	4	2	4	4	4	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:494953G>A	uc001lpk.1	-	8	2636	c.1228C>T	c.(1228-1230)CTG>TTG	p.L410L	RNH1_uc001lpl.1_Silent_p.L410L|RNH1_uc001lpm.1_Silent_p.L410L|RNH1_uc001lpn.1_Silent_p.L410L|RNH1_uc001lpo.1_Silent_p.L410L|RNH1_uc009ybw.1_RNA|RNH1_uc001lpp.1_Silent_p.L410L|RNH1_uc001lpt.1_Silent_p.L167L|RNH1_uc001lpq.1_Silent_p.L410L|RNH1_uc001lpr.1_Silent_p.L410L|RNH1_uc001lps.1_Silent_p.L410L	NM_203389	NP_976323	P13489	RINI_HUMAN	ribonuclease/angiogenin inhibitor	410	LRR 14.				mRNA catabolic process|regulation of angiogenesis	angiogenin-PRI complex|cytoplasm	protein binding|ribonuclease inhibitor activity				0		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;1.26e-26)|Epithelial(43;1.34e-25)|OV - Ovarian serous cystadenocarcinoma(40;5.31e-20)|BRCA - Breast invasive adenocarcinoma(625;8.01e-05)|Lung(200;0.0378)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GCGTCCCCCAGGCAGTTGTTG	0.682													7	5					0	0	1	0	0		A	494953	A	A	494953	2	1	190	1	0	0	0	0	0	0	0	1	13529	991	35	4		4	RNH1	11	494953	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	91316	494953	134511563	755	94908											
CDHR5	53841	broad.mit.edu	37	chr11	621813	621813	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcggcttcgctggcctcaccTcctccacccttatctccttg	3	12	7	19	2	2	0	1	0	1	0	6	0	4	0	6	2	0	2	6	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:621813T>A	uc001lqj.2	-	4	509	c.404A>T	c.(403-405)GAG>GTG	p.E135V	CDHR5_uc001lqk.2_Missense_Mutation_p.E135V|CDHR5_uc009ycc.2_5'UTR|CDHR5_uc009ycd.2_Missense_Mutation_p.E135V|CDHR5_uc001lql.2_Missense_Mutation_p.E135V|CDHR5_uc001lqm.2_5'UTR|CDHR5_uc009yce.1_Intron	NM_021924	NP_068743	Q9HBB8	CDHR5_HUMAN	mucin and cadherin-like isoform 1	135	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						TGGCCTCACCTCCTCCACCCT	0.637													20	34					0	0	1	0	0		A	621813	A	A	621813	3	1	190	1	0	0	0	0	1	0	0	0	3125	1565	54	5	2181	5	CDHR5	11	621813	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	126860	621813	134384703	756	94909											
EPS8L2	64787	broad.mit.edu	37	chr11	723257	723257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaggtgagtccagtgagccGacagtccataagaaactccc	13	6	10	12	1	0	3	0	2	0	1	3	4	3	3	4	1	2	0	4	1	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:723257G>A	uc001lqt.2	+	15	1605	c.1358G>A	c.(1357-1359)CGA>CAA	p.R453Q	EPS8L2_uc001lqu.2_Missense_Mutation_p.R453Q|EPS8L2_uc010qwk.1_Missense_Mutation_p.R469Q|EPS8L2_uc001lqv.2_Missense_Mutation_p.R408Q|EPS8L2_uc001lqw.2_Missense_Mutation_p.R65Q|EPS8L2_uc001lqx.2_Missense_Mutation_p.R65Q|EPS8L2_uc001lqy.2_5'Flank	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	453						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCAGTGAGCCGACAGTCCATA	0.627											OREG0020659	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	32					0	0	1	0	0		A	723257	A	A	723257	3	1	190	1	0	0	0	0	1	0	0	0	5204	1058	37	1	1412	1	EPS8L2	11	723257	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	101444	723257	134283259	757	94910											
PDDC1	347862	broad.mit.edu	37	chr11	771068	771068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctggcctgtgaccaggtggCggtccagcacgacgtggaca	7	7	15	12	3	1	1	0	1	1	0	2	3	2	2	3	5	1	1	3	5	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:771068C>T	uc001lrc.2	-	7	606	c.581G>A	c.(580-582)CGC>CAC	p.R194H	PDDC1_uc010qwm.1_Missense_Mutation_p.R144H|PDDC1_uc001lrd.2_Intron|PDDC1_uc001lrf.1_3'UTR|PDDC1_uc001lrg.1_RNA|PDDC1_uc009ycg.2_3'UTR|PDDC1_uc010qwn.1_RNA|PDDC1_uc010qwo.1_RNA|PDDC1_uc010qwp.1_Missense_Mutation_p.R158H|PDDC1_uc010qwq.1_Missense_Mutation_p.R108H|PDDC1_uc010qwr.1_Missense_Mutation_p.R194H|PDDC1_uc010qws.1_Missense_Mutation_p.R144H	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1	194						extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GACCAGGTGGCGGTCCAGCAC	0.647													9	16					0	0	1	0	0		T	771068	T	T	771068	3	4	190	1	0	0	0	0	1	0	0	0	11648	768	27	1	89	1	PDDC1	11	771068	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	47811	771068	134235448	758	94911											
MUC2	4583	broad.mit.edu	37	chr11	1092334	1092334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgttacgactacaagataCgtgtcaattgttgctggccc	9	13	10	9	2	1	1	1	0	0	1	1	2	1	1	1	1	4	3	1	1	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:1092334C>T	uc001lsx.1	+	30	4180	c.4153C>T	c.(4153-4155)CGT>TGT	p.R1385C		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	1385						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	CTACAAGATACGTGTCAATTG	0.418													5	5					0	0	1	0	0		T	1092334	T	T	1092334	3	4	190	1	0	0	0	0	1	0	0	0	9993	536	19	1	4271	1	MUC2	11	1092334	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	321266	1092334	133914182	759	94912											
MUC5B	727897	broad.mit.edu	37	chr11	1270971	1270971	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgaccagcccggccacCacacccacagccaccagttc	9	4	8	20	1	0	1	0	1	0	0	1	1	0	1	7	1	3	2	7	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:1270971C>G	uc009ycr.1	+	51	14406	c.14280C>G	c.(14278-14280)ACC>ACG	p.T4760T	MUC5B_uc001ltb.2_Silent_p.T4290T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4287	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCCCGGCCACCACACCCACAG	0.617													21	77					0	0	1	0	0		G	1270971	G	G	1270971	2	3	190	1	0	0	0	0	0	0	0	1	9997	581	21	5		5	MUC5B	11	1270971	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	178637	1270971	133735545	760	94913			1	43		3	3	113	C		1.387292e-05
MUC5B	727897	broad.mit.edu	37	chr11	1270982	1270982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccggccaccacacccacagCcaccagttccaaagccactt	11	4	5	21	1	0	0	0	0	0	0	1	0	1	0	8	1	2	1	8	1	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:1270982C>T	uc009ycr.1	+	51	14417	c.14291C>T	c.(14290-14292)GCC>GTC	p.A4764V	MUC5B_uc001ltb.2_Missense_Mutation_p.A4294V	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4291	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACACCCACAGCCACCAGTTCC	0.612													11	74					0	0	1	0	0		T	1270982	T	T	1270982	3	4	190	1	0	0	0	0	1	0	0	0	9997	739	26	2	13003	2	MUC5B	11	1270982	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11	1270982	133735534	761	94914			1	43		3	3	113	C		1.387292e-05
MUC5B	727897	broad.mit.edu	37	chr11	1271083	1271083	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccacagctaccagcgttacaCccatcccctcctccaccctt	8	8	3	22	1	0	0	0	0	0	0	3	0	3	0	8	0	4	2	8	0	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:1271083C>G	uc009ycr.1	+	51	14518	c.14392C>G	c.(14392-14394)CCC>GCC	p.P4798A	MUC5B_uc001ltb.2_Missense_Mutation_p.P4328A	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4325	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CAGCGTTACACCCATCCCCTC	0.607													20	67					0	0	1	0	0		G	1271083	G	G	1271083	3	3	190	1	0	0	0	0	1	0	0	0	9997	507	18	5	13104	5	MUC5B	11	1271083	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	101	1271083	133735433	762	94915			1	43		3	3	113	C		1.387292e-05
MRGPRE	116534	broad.mit.edu	37	chr11	3249838	3249838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgagatccgcgcaggccacGtccaggaggtagatggcgaa	11	5	15	10	4	0	2	0	1	0	2	2	5	2	3	3	4	0	2	3	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:3249838G>A	uc001lxq.3	-	2	499	c.189C>T	c.(187-189)GAC>GAT	p.D63D		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	63	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		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)		CGCAGGCCACGTCCAGGAGGT	0.647													44	56					0	0	1	0	0		A	3249838	A	A	3249838	2	1	190	1	0	0	0	0	0	0	0	1	9782	1136	40	1		1	MRGPRE	11	3249838	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1978755	3249838	131756678	763	94916											
OR52K1	390036	broad.mit.edu	37	chr11	4510486	4510486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagtcagcagtgctgctggCcatggcctttgaccgctatg	6	10	14	11	1	1	1	1	1	0	0	1	2	1	2	3	3	3	4	3	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:4510486C>A	uc001lza.1	+	1	356	c.356C>A	c.(355-357)GCC>GAC	p.A119D		NM_001005171	NP_001005171	Q8NGK4	O52K1_HUMAN	olfactory receptor, family 52, subfamily K,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.76e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0836)|LUSC - Lung squamous cell carcinoma(625;0.192)		GTGCTGCTGGCCATGGCCTTT	0.537													18	35					1.99824e-07	2.06747e-07	1	1	0		A	4510486	A	A	4510486	3	1	190	1	0	0	0	0	1	0	0	0	11142	739	26	5	358	5	OR52K1	11	4510486	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1260648	4510486	130496030	764	94917											
OR52A5	390054	broad.mit.edu	37	chr11	5153517	5153517	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	catagcgatccagggccattGccagaaggatacccgattca	12	7	10	12	2	1	1	1	0	0	1	2	4	2	2	4	2	3	0	4	2	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:5153517G>A	uc010qyx.1	-	1	356	c.356C>T	c.(355-357)GCA>GTA	p.A119V		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	119	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		CAGGGCCATTGCCAGAAGGAT	0.453													22	34					0	0	1	0	0		A	5153517	A	A	5153517	3	1	190	1	0	0	0	0	1	0	0	0	11129	1319	46	2	597	2	OR52A5	11	5153517	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	643031	5153517	129852999	765	94918											
OR51B2	79345	broad.mit.edu	37	chr11	5345106	5345106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaacactcccactcctaacGctatgactctagtattggtg	11	11	7	12	1	1	1	0	1	1	0	3	2	3	1	2	1	2	2	2	1	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:5345106G>A	uc001mao.1	-	1	477	c.422C>T	c.(421-423)GCG>GTG	p.A141V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACTCCTAACGCTATGACTCT	0.413													62	78					0	0	1	0	0		A	5345106	A	A	5345106	3	1	190	1	0	0	0	0	1	0	0	0	11108	1087	38	1	520	1	OR51B2	11	5345106	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	191589	5345106	129661410	766	94919											
TRIM5	85363	broad.mit.edu	37	chr11	5686300	5686300	+	Silent	SNP	T	G	G	0	1	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	tggaaagcactacatttaacTccttcctctaaccctataac	13	12	3	13	0	1	0	0	0	1	0	3	1	3	1	3	1	5	1	3	1	6	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:5686300T>G	uc001mbm.1	-	8	1478	c.1221A>C	c.(1219-1221)GGA>GGC	p.G407G	TRIM78P_uc009yer.2_Intron|TRIM5_uc001mbl.1_RNA|TRIM5_uc001mbn.2_Intron|TRIM5_uc001mbo.2_Intron	NM_033034	NP_149023	Q9C035	TRIM5_HUMAN	tripartite motif protein TRIM5 isoform alpha	407	B30.2/SPRY.				interspecies interaction between organisms|protein trimerization|response to virus	cytoplasm|cytoplasmic mRNA processing body	ligase activity|protein binding|protein homodimerization activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)|Lung NSC(207;0.138)|all_lung(207;0.221)		Epithelial(150;7.21e-09)|BRCA - Breast invasive adenocarcinoma(625;0.139)		TACATTTAACTCCTTCCTCTA	0.403													61	85					0	0	1	0	0		G	5686300	G	G	5686300	2	3	190	1	0	0	0	0	0	0	0	1	16551	1538	54	5		5	TRIM5	11	5686300	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	341194	5686300	129320216	767	94920											
OR52W1	120787	broad.mit.edu	37	chr11	6220577	6220577	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttgggcccatttatctgCtggccctgctgggcaatgga	5	13	12	11	0	2	0	0	0	2	0	2	1	2	1	2	4	2	3	2	4	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:6220577C>T	uc010qzz.1	+	1	124	c.124C>T	c.(124-126)CTG>TTG	p.L42L		NM_001005178	NP_001005178	Q6IF63	O52W1_HUMAN	olfactory receptor, family 52, subfamily W,	42	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;2.13e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CATTTATCTGCTGGCCCTGCT	0.557													30	25					0	0	1	0	0		T	6220577	T	T	6220577	2	4	190	1	0	0	0	0	0	0	0	1	11151	796	28	2		2	OR52W1	11	6220577	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	534277	6220577	128785939	768	94921											
CCKBR	887	broad.mit.edu	37	chr11	6292284	6292284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccggcctgagactggcgcGgttggcgaagacagcgatgg	7	6	18	10	5	0	2	0	1	0	2	0	5	0	2	2	5	2	1	2	5	1	1	rs149197660		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:6292284G>A	uc001mcp.2	+	5	1048	c.855G>A	c.(853-855)GCG>GCA	p.A285A	CCKBR_uc001mcq.2_Silent_p.A213A|CCKBR_uc001mcr.2_Silent_p.A285A|CCKBR_uc001mcs.2_Silent_p.A354A|CCKBR_uc001mct.1_RNA	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	285	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	AGACTGGCGCGGTTGGCGAAG	0.677													33	46					0	0	1	0	0		A	6292284	A	A	6292284	2	1	190	1	0	0	0	0	0	0	0	1	2884	1103	39	1		1	CCKBR	11	6292284	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	71707	6292284	128714232	769	94922											
RRP8	23378	broad.mit.edu	37	chr11	6622581	6622581	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctgtgccatgcgggctcGcaaagcccctgcccgagcct	5	6	12	18	4	0	0	0	0	0	0	1	1	0	0	6	1	5	3	6	1	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:6622581G>A	uc001med.2	-	3	794	c.715C>T	c.(715-717)CGA>TGA	p.R239*	ILK_uc001mee.2_5'Flank|ILK_uc001mef.2_5'Flank|ILK_uc010rap.1_5'Flank|ILK_uc010raq.1_5'Flank|ILK_uc001meg.2_5'Flank|ILK_uc001meh.2_5'Flank	NM_015324	NP_056139	O43159	RRP8_HUMAN	ribosomal RNA processing 8, methyltransferase,	239					chromatin modification|chromatin silencing at rDNA|rRNA processing|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	methylated histone residue binding|S-adenosylmethionine-dependent methyltransferase activity				0						ATGCGGGCTCGCAAAGCCCCT	0.627													15	15					0	0	1	0	0		A	6622581	A	A	6622581	4	1	190	1	0	0	0	0	0	1	0	0	13715	1095	38	1	675	1	RRP8	11	6622581	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	330297	6622581	128383935	770	94923											
TPP1	1200	broad.mit.edu	37	chr11	6636199	6636199	+	Frame_Shift_Del	DEL	C	-	-																															tcattgatcaaggataggatCcccccaaacactggagtaga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:6636199delC	uc001mel.1	-	12	1510	c.1449delG	c.(1447-1449)GGGfs	p.G483fs	TAF10_uc001mej.1_5'Flank|TPP1_uc001mek.1_Frame_Shift_Del_p.G240fs	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	483					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		AGGATAGGATCCCCCCAAACA	0.517													81	107	---	---	---	---						.	-	6636199	-	-	6636199	7	5	190	1	0	1	0	1	0	0	0	0	16437	842	30	0	250	0	TPP1	11	6636199	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	13618	6636199	128370317	771	94924											
TPP1	1200	broad.mit.edu	37	chr11	6637718	6637718	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccactgcaggaagggctcCtgtccctcatgccggcctgg	6	7	13	15	1	1	0	1	0	0	0	3	1	3	1	5	4	3	2	5	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:6637718C>A	uc001mel.1	-	8	964	c.903G>T	c.(901-903)CAG>CAT	p.Q301H	TPP1_uc001mek.1_Missense_Mutation_p.Q58H	NM_000391	NP_000382	O14773	TPP1_HUMAN	tripeptidyl-peptidase I preproprotein	301					bone resorption|cell death|lipid metabolic process|lysosome organization|nervous system development|neuromuscular process controlling balance|peptide catabolic process|protein catabolic process|proteolysis	lysosome|melanosome|soluble fraction	metal ion binding|peptide binding|protein binding|serine-type endopeptidase activity|tripeptidyl-peptidase activity				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;3.45e-09)|BRCA - Breast invasive adenocarcinoma(625;0.131)		GGAAGGGCTCCTGTCCCTCAT	0.507													15	15					7.93312e-07	8.15713e-07	1	1	0		A	6637718	A	A	6637718	3	1	190	1	0	0	0	0	1	0	0	0	16437	680	24	5	812	5	TPP1	11	6637718	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1519	6637718	128368798	772	94925											
DCHS1	8642	broad.mit.edu	37	chr11	6654124	6654125	+	Frame_Shift_Ins	INS	-	G	G																															cccgagctacagcgaaagctINSgggggcactccactgcctgc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:6654124_6654125insG	uc001mem.1	-	6	3028_3029	c.2618_2619insC	c.(2617-2619)CCAfs	p.P873fs		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	873	Cadherin 8.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGCGAAAGCTGGGGGCACTCC	0.579													22	35	---	---	---	---						.	G	6654125	G	G	6654124	7	5	190	1	0	1	1	0	0	0	0	0	4290	1567	55	0	7341	0	DCHS1	11	6654124	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	16406	6654124	128352392	773	94926											
NLRP10	338322	broad.mit.edu	37	chr11	7982663	7982663	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgtagcacaactaaggatgGggccagtgagggcttttccc	9	9	13	10	0	0	1	0	1	0	0	1	2	1	2	2	4	2	3	2	4	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:7982663G>C	uc001mfv.1	-	2	513	c.496C>G	c.(496-498)CCA>GCA	p.P166A		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	166							ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ACTAAGGATGGGGCCAGTGAG	0.582													26	32					0	0	1	0	0		C	7982663	C	C	7982663	3	2	190	1	0	0	0	0	1	0	0	0	10491	1232	43	5	1475	5	NLRP10	11	7982663	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1328539	7982663	127023853	774	94927											
ABCC8	6833	broad.mit.edu	37	chr11	17482133	17482133	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggtcggccaagatgcggaAagtgctgctgaggaccaggc	10	5	16	10	2	0	2	0	1	0	1	1	4	0	4	2	5	3	2	2	5	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:17482133A>G	uc001mnc.2	-	6	1039	c.913T>C	c.(913-915)TTC>CTC	p.F305L	ABCC8_uc010rcy.1_Missense_Mutation_p.F304L	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	305	Cytoplasmic (By similarity).|ABC transmembrane type-1 1.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	AAGATGCGGAAAGTGCTGCTG	0.637													42	58					0	0	1	0	0		G	17482133	G	G	17482133	3	3	190	1	0	0	0	0	1	0	0	0	58	14	1	3	3968	3	ABCC8	11	17482133	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	9499470	17482133	117524383	775	94928											
HPS5	11234	broad.mit.edu	37	chr11	18303557	18303557	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggtaaacttctctgacaacTcaagggccagaccacattcc	12	9	7	13	0	2	2	1	1	1	1	4	2	3	2	3	2	2	1	3	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:18303557T>G	uc001mod.1	-	22	3547	c.3269A>C	c.(3268-3270)GAG>GCG	p.E1090A	HPS5_uc001moe.1_Missense_Mutation_p.E976A|HPS5_uc001mof.1_Missense_Mutation_p.E976A	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	1090						cytosol				ovary(1)|pancreas(1)|skin(1)	3						CTCTGACAACTCAAGGGCCAG	0.507									Hermansky-Pudlak_syndrome				8	127					0	0	1	0	0		G	18303557	G	G	18303557	3	3	190	1	0	0	0	0	1	0	0	0	7358	1551	54	5	128	5	HPS5	11	18303557	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	821424	18303557	116702959	776	94929											
TSG101	7251	broad.mit.edu	37	chr11	18531130	18531130	+	Missense_Mutation	SNP	G	A	A																															ggtatggcggataggatgccGaaataggacgagagaagact																								rs140156278		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:18531130G>A	uc001mor.2	-	5	566	c.440C>T	c.(439-441)TCG>TTG	p.S147L	TSG101_uc001mos.1_Missense_Mutation_p.S95L|TSG101_uc009yhs.1_RNA	NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101	147					cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						ATAGGATGCCGAAATAGGACG	0.398													55	52					0	0	1	0	0		A	18531130	A	A	18531130	3	1	190	1	0	0	0	0	1	0	0	0	16642	1059	37	1	756	1	TSG101	11	18531130	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	227573	18531130	116475386	777	94930	179	2									
TSG101	7251	broad.mit.edu	37	chr11	18531132	18531132	+	Silent	SNP	A	T	T																															tatggcggataggatgccgaAataggacgagagaagactgg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:18531132A>T	uc001mor.2	-	5	564	c.438T>A	c.(436-438)ATT>ATA	p.I146I	TSG101_uc001mos.1_Silent_p.I94I|TSG101_uc009yhs.1_RNA	NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101	146					cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						AGGATGCCGAAATAGGACGAG	0.398													54	53					0	0	1	0	0		T	18531132	T	T	18531132	2	4	190	1	0	0	0	0	0	0	0	1	16642	10	1	5		5	TSG101	11	18531132	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2	18531132	116475384	778	94931	179	2									
IGSF22	283284	broad.mit.edu	37	chr11	18731162	18731162	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccctctgcaggctcccGccaggccagggaaatgctgg	6	7	13	15	1	2	0	0	0	2	0	4	1	3	1	4	4	2	3	4	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:18731162G>A	uc009yht.2	-	18	2960	c.2770C>T	c.(2770-2772)CGG>TGG	p.R924W	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	823	Fibronectin type-III 2.									ovary(4)|large_intestine(2)|kidney(1)	7						GCAGGCTCCCGCCAGGCCAGG	0.577													17	25					0	0	1	0	0		A	18731162	A	A	18731162	3	1	190	1	0	0	0	0	1	0	0	0	7616	1086	38	1	1234	1	IGSF22	11	18731162	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	200030	18731162	116275354	779	94932											
IGSF22	283284	broad.mit.edu	37	chr11	18736102	18736102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tctcgtcattcagcactacaCacaactcagctgggctccca	10	9	6	16	1	4	0	3	0	1	0	6	0	5	0	1	1	4	3	1	1	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:18736102C>T	uc009yht.2	-	12	1791	c.1601G>A	c.(1600-1602)TGT>TAT	p.C534Y	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	534										ovary(4)|large_intestine(2)|kidney(1)	7						CAGCACTACACACAACTCAGC	0.617													32	47					0	0	1	0	0		T	18736102	T	T	18736102	3	4	190	1	0	0	0	0	1	0	0	0	7616	478	17	4	2427	4	IGSF22	11	18736102	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4940	18736102	116270414	780	94933											
PTPN5	84867	broad.mit.edu	37	chr11	18763909	18763909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggagtctcgggcaccgggtCgaggtccaggaagtcatcct	8	7	15	11	3	2	0	1	0	1	0	6	3	4	2	3	5	0	1	3	5	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:18763909C>T	uc001mpd.2	-	7	1056	c.625G>A	c.(625-627)GAC>AAC	p.D209N	PTPN5_uc001mpb.2_Missense_Mutation_p.D177N|PTPN5_uc001mpc.2_Missense_Mutation_p.D209N|PTPN5_uc001mpe.2_Missense_Mutation_p.D177N|PTPN5_uc010rdj.1_Missense_Mutation_p.D153N|PTPN5_uc001mpf.2_Missense_Mutation_p.D185N|PTPN5_uc010rdk.1_Missense_Mutation_p.D154N	NM_006906	NP_008837	P54829	PTN5_HUMAN	protein-tyrosine-phosphatase non-receptor 5	209						integral to membrane	phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(2)	2						GGCACCGGGTCGAGGTCCAGG	0.597													15	37					0	0	1	0	0		T	18763909	T	T	18763909	3	4	190	1	0	0	0	0	1	0	0	0	12816	884	31	1	1108	1	PTPN5	11	18763909	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	27807	18763909	116242607	781	94934											
DBX1	120237	broad.mit.edu	37	chr11	20177913	20177913	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aggtgctgggggtcggaggaCgcgtggtaggccaggcggtg	5	6	23	7	4	0	0	0	0	0	0	1	2	0	2	1	9	1	2	1	9	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:20177913C>T	uc001mpw.1	-	4	996	c.996G>A	c.(994-996)GCG>GCA	p.A332A		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	293					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGTCGGAGGACGCGTGGTAGG	0.736													24	21					0	0	1	0	0		T	20177913	T	T	20177913	2	4	190	1	0	0	0	0	0	0	0	1	4262	523	19	1		1	DBX1	11	20177913	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1414004	20177913	114828603	782	94935											
ANO3	63982	broad.mit.edu	37	chr11	26558959	26558959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcttctctttgcaggtatccGtaaacttataaacaatggct	11	15	6	9	1	2	0	0	0	2	0	4	0	3	0	1	2	3	4	1	2	7	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:26558959G>A	uc001mqt.3	+	10	1128	c.983G>A	c.(982-984)CGT>CAT	p.R328H	ANO3_uc010rdr.1_Missense_Mutation_p.R312H|ANO3_uc010rds.1_Missense_Mutation_p.R167H|ANO3_uc010rdt.1_Missense_Mutation_p.R182H	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	328	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity	p.R328H(1)		ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCAGGTATCCGTAAACTTATA	0.353													51	60					0	0	1	0	0		A	26558959	A	A	26558959	3	1	190	1	0	0	0	0	1	0	0	0	698	1145	40	1	1021	1	ANO3	11	26558959	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6381046	26558959	108447557	783	94936											
C11orf41	25758	broad.mit.edu	37	chr11	33628317	33628318	+	Frame_Shift_Ins	INS	-	C	C																															ccacagccctccccatggtgINSccccccacctcggacaggag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:33628317_33628318insC	uc001mup.3	+	13	4261_4262	c.4137_4138insC	c.(4135-4140)GTGCCCfs	p.V1379fs		NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1373_1374						integral to membrane				ovary(2)	2						TCCCCATGGTGCCCCCCACCTC	0.589													13	8	---	---	---	---						.	C	33628318	C	C	33628317	7	5	190	1	0	1	1	0	0	0	0	0	1643	1306	46	0	4187	0	C11orf41	11	33628317	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	7069358	33628317	101378199	784	94937											
SYT13	57586	broad.mit.edu	37	chr11	45277422	45277422	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacggggctgaacaggttcCgtggactttttaacattgaa	10	11	12	8	2	0	2	0	2	0	0	1	3	1	3	1	4	2	3	1	4	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:45277422C>T	uc001myq.2	-	2	330	c.204G>A	c.(202-204)ACG>ACA	p.T68T	SYT13_uc009yku.1_5'UTR	NM_020826	NP_065877	Q7L8C5	SYT13_HUMAN	synaptotagmin XIII	68	Cytoplasmic (Potential).					transport vesicle				ovary(1)	1						GAACAGGTTCCGTGGACTTTT	0.502													23	54					0	0	1	0	0		T	45277422	T	T	45277422	2	4	190	1	0	0	0	0	0	0	0	1	15494	639	23	1		1	SYT13	11	45277422	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11649105	45277422	89729094	785	94938											
HARBI1	283254	broad.mit.edu	37	chr11	46625304	46625304	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagtgcccccttggatcCatccaggcagcggaatcggg	7	7	13	14	2	0	0	0	0	0	0	3	2	2	2	4	4	3	2	4	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:46625304C>A	uc001ncy.2	-	3	1074	c.826G>T	c.(826-828)GGA>TGA	p.G276*		NM_173811	NP_776172	Q96MB7	HARB1_HUMAN	harbinger transposase derived 1	276						cytoplasm|nucleus	metal ion binding|nuclease activity				0						CCCTTGGATCCATCCAGGCAG	0.517													12	23					0.000978159	0.00099144	1	1	0		A	46625304	A	A	46625304	4	1	190	1	0	0	0	0	0	1	0	0	6974	603	21	5	227	5	HARBI1	11	46625304	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1347882	46625304	88381212	786	94939											
CKAP5	9793	broad.mit.edu	37	chr11	46799029	46799029	+	Frame_Shift_Del	DEL	T	-	-																															tgatgatagggatgcctaaaTtttttacatgttgcttaata																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:46799029delT	uc001ndi.1	-	23	2932	c.2822delA	c.(2821-2823)AATfs	p.N941fs	CKAP5_uc009ylg.1_Frame_Shift_Del_p.N827fs|CKAP5_uc001ndj.1_Frame_Shift_Del_p.N941fs	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	941	HEAT 6.				cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						GATGCCTAAATTTTTTACATG	0.433													20	35	---	---	---	---						.	-	46799029	-	-	46799029	7	5	190	1	0	1	0	1	0	0	0	0	3448	1493	52	0	3364	0	CKAP5	11	46799029	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	173725	46799029	88207487	787	94940											
PTPRJ	5795	broad.mit.edu	37	chr11	48171665	48171665	+	Missense_Mutation	SNP	T	C	C	0	1	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	tagatctaagttaatcagagTggagaattttgaggcctact	13	13	10	5	0	2	4	1	1	1	3	2	5	2	4	1	2	1	1	1	2	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:48171665T>C	uc001ngp.3	+	18	3423	c.3068T>C	c.(3067-3069)GTG>GCG	p.V1023A		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	1023	Cytoplasmic (Potential).				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TTAATCAGAGTGGAGAATTTT	0.328													5	87					0	0	1	0	0		C	48171665	C	C	48171665	3	2	190	1	0	0	0	0	1	0	0	0	12829	1696	59	3	3147	3	PTPRJ	11	48171665	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1372636	48171665	86834851	788	94941											
SPRYD5	84767	broad.mit.edu	37	chr11	55653152	55653152	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccagaaaagccagcctccGgcaattccttagctctgagg	10	8	10	13	1	1	2	0	1	1	1	3	2	3	2	5	2	4	2	5	2	4	2	rs139676401	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:55653152G>T	uc010rip.1	+	2	340	c.248G>T	c.(247-249)CGG>CTG	p.R83L	SPRYD5_uc010riq.1_5'Flank	NM_032681	NP_116070	Q9BSJ1	SPRY5_HUMAN	SPRY domain containing 5	83						intracellular	zinc ion binding				0		all_epithelial(135;0.226)				GCCAGCCTCCGGCAATTCCTT	0.488													15	19					3.27435e-08	3.40195e-08	1	1	0		T	55653152	T	T	55653152	3	4	190	1	0	0	0	0	1	0	0	0	15136	1116	39	5	250	5	SPRYD5	11	55653152	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7481487	55653152	79353364	789	94942											
OR5T3	390154	broad.mit.edu	37	chr11	56019846	56019847	+	Frame_Shift_Ins	INS	-	T	T																															ttgagctgcaagtcttcctaINStttttactattttttgcaat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:56019846_56019847insT	uc010rjd.1	+	1	171_172	c.171_172insT	c.(169-174)CTATTTfs	p.L57fs		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	57_58	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					AAGTCTTCCTATTTTTACTATT	0.391													38	53	---	---	---	---						.	T	56019847	T	T	56019846	7	5	190	1	0	1	1	0	0	0	0	0	11202	436	16	0	173	0	OR5T3	11	56019846	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	366694	56019846	78986670	790	94943											
SMTNL1	219537	broad.mit.edu	37	chr11	57313808	57313808	+	Frame_Shift_Del	DEL	A	-	-																															gagtggtgccgagccatgacAaaaaaatacgaggtgggcat																								rs80069448		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:57313808delA	uc009ymh.1	+	6	1230	c.1230delA	c.(1228-1230)ACAfs	p.T410fs		NM_001105565	NP_001099035	E9PPJ3	E9PPJ3_HUMAN	smoothelin-like 1	392										ovary(1)	1						GAGCCATGACAAAAAAATACG	0.622													3	6	---	---	---	---						.	-	57313808	-	-	57313808	7	5	190	1	0	1	0	1	0	0	0	0	14840	117	5	0	1252	0	SMTNL1	11	57313808	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	1293962	57313808	77692708	791	94944											
OR10Q1	219960	broad.mit.edu	37	chr11	57995911	57995911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccccacccagcatctgcGtgcacagctcgcgggtcatg	6	6	13	16	3	2	0	1	0	1	0	3	0	2	0	3	2	4	3	3	2	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:57995911G>A	uc010rkd.1	-	1	437	c.437C>T	c.(436-438)ACG>ATG	p.T146M		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				CAGCATCTGCGTGCACAGCTC	0.617													26	29					0	0	1	0	0		A	57995911	A	A	57995911	3	1	190	1	0	0	0	0	1	0	0	0	10935	1145	40	1	526	1	OR10Q1	11	57995911	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	682103	57995911	77010605	792	94945											
CCDC86	79080	broad.mit.edu	37	chr11	60610001	60610001	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaggaccagggagtactggCctcggagttggcccagaata	10	7	14	10	1	1	1	1	0	0	1	2	4	1	4	3	5	1	2	3	5	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:60610001C>A	uc001nqa.2	+	1	573	c.404C>A	c.(403-405)GCC>GAC	p.A135D	CCDC86_uc001nqb.2_Intron	NM_024098	NP_077003	Q9H6F5	CCD86_HUMAN	coiled-coil domain containing 86	135	Pro-rich.				interspecies interaction between organisms	nucleus					0						GGAGTACTGGCCTCGGAGTTG	0.612													28	44					3.73988e-18	3.99975e-18	1	1	0		A	60610001	A	A	60610001	3	1	190	1	0	0	0	0	1	0	0	0	2864	739	26	5	406	5	CCDC86	11	60610001	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2614090	60610001	74396515	793	94946											
CD6	923	broad.mit.edu	37	chr11	60785823	60785823	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtggtaccagaacttccagCcaccaccccagcccccttcg	9	6	7	19	1	0	1	0	0	0	1	2	1	1	1	8	1	4	1	8	1	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:60785823C>T	uc001nqq.2	+	12	2123	c.1900C>T	c.(1900-1902)CCA>TCA	p.P634S	CD6_uc001nqr.2_Intron|CD6_uc001nqs.2_Intron|CD6_uc001nqt.2_Intron	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule precursor	634	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						GAACTTCCAGCCACCACCCCA	0.622													4	8					0	0	1	0	0		T	60785823	T	T	60785823	3	4	190	1	0	0	0	0	1	0	0	0	3031	739	26	2	1946	2	CD6	11	60785823	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	175822	60785823	74220693	794	94947											
B3GAT3	26229	broad.mit.edu	37	chr11	62388038	62388038	+	Frame_Shift_Del	DEL	G	-	-																															cagggggctgggcaggggcaGggggtggccgtcggagttcc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:62388038delG	uc001ntw.2	-	2	217	c.188delC	c.(187-189)CCTfs	p.P63fs	B3GAT3_uc009ynz.2_Frame_Shift_Del_p.P56fs|B3GAT3_uc001ntx.2_RNA|B3GAT3_uc010rlz.1_Frame_Shift_Del_p.P63fs	NM_012200	NP_036332	O94766	B3GA3_HUMAN	beta-1,3-glucuronyltransferase 3	63	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|manganese ion binding				0						GGCAGGGGCAGGGGGTGGCCG	0.632													9	13	---	---	---	---						.	-	62388038	-	-	62388038	7	5	190	1	0	1	0	1	0	0	0	0	1256	1000	35	0	835	0	B3GAT3	11	62388038	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	1602215	62388038	72618478	795	94948											
LRRN4CL	221091	broad.mit.edu	37	chr11	62455516	62455516	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgccccggcctcgttagcGgccactacgcaaacgacata	9	7	9	16	5	0	0	0	0	0	0	1	1	0	0	4	2	4	2	4	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:62455516G>A	uc001nun.2	-	2	772	c.465C>T	c.(463-465)GCC>GCT	p.A155A		NM_203422	NP_981967	Q8ND94	LRN4L_HUMAN	LRRN4 C-terminal like precursor	155	Fibronectin type-III.|Extracellular (Potential).					integral to membrane					0						CCTCGTTAGCGGCCACTACGC	0.697													12	18					0	0	1	0	0		A	62455516	A	A	62455516	2	1	190	1	0	0	0	0	0	0	0	1	9056	1103	39	1		1	LRRN4CL	11	62455516	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	67478	62455516	72551000	796	94949											
BSCL2	26580	broad.mit.edu	37	chr11	62458808	62458808	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacacccactgcatgtagcTgaagagcacgatgacgctga	12	6	10	13	2	0	4	0	3	0	1	0	5	0	4	2	0	3	5	2	0	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:62458808T>C	uc001nuo.1	-	7	1181	c.757A>G	c.(757-759)AGC>GGC	p.S253G	LRRN4CL_uc001nun.2_5'Flank|BSCL2_uc009yoc.1_Intron|BSCL2_uc001nup.2_Missense_Mutation_p.S253G|BSCL2_uc001nuq.1_Missense_Mutation_p.S253G|BSCL2_uc001nur.3_Missense_Mutation_p.S317G|BSCL2_uc009yod.2_Missense_Mutation_p.S317G|BSCL2_uc001nut.3_Missense_Mutation_p.S317G|HNRNPUL2_uc001nuu.1_RNA	NM_032667	NP_116056	Q96G97	BSCL2_HUMAN	seipin isoform 2	253	Helical; (Potential).				cell death	integral to endoplasmic reticulum membrane					0						TGCATGTAGCTGAAGAGCACG	0.552													30	44					0	0	1	0	0		C	62458808	C	C	62458808	3	2	190	1	0	0	0	0	1	0	0	0	1530	1580	55	3	459	3	BSCL2	11	62458808	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3292	62458808	72547708	797	94950											
SLC22A12	116085	broad.mit.edu	37	chr11	64359056	64359056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgaactcctggacctcGtgggtggcctgggcaggttc	4	12	14	11	1	1	1	0	1	1	0	4	2	2	2	3	5	1	2	3	5	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:64359056G>A	uc001oam.1	+	1	775	c.28G>A	c.(28-30)GTG>ATG	p.V10M	SLC22A12_uc009ypr.1_Missense_Mutation_p.V10M|SLC22A12_uc001oal.1_Intron|SLC22A12_uc009yps.1_Missense_Mutation_p.V10M|SLC22A12_uc001oan.1_Missense_Mutation_p.V10M|SLC22A12_uc009ypt.2_5'Flank	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	10	Helical; (Potential).				cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						CCTGGACCTCGTGGGTGGCCT	0.597													40	66					0	0	1	0	0		A	64359056	A	A	64359056	3	1	190	1	0	0	0	0	1	0	0	0	14468	1145	40	1	30	1	SLC22A12	11	64359056	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1900248	64359056	70647460	798	94951											
NRXN2	9379	broad.mit.edu	37	chr11	64397948	64397948	+	Missense_Mutation	SNP	A	G	G	1	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	cgccgcttcgagtgaagcgcAccacgtggtatttgccgtcg	6	9	13	13	7	0	1	0	1	0	0	2	2	0	1	3	1	2	3	3	1	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:64397948A>G	uc001oap.2	-	4	1056	c.545T>C	c.(544-546)GTG>GCG	p.V182A	NRXN2_uc001oar.2_Missense_Mutation_p.V1228A|NRXN2_uc001oas.2_Missense_Mutation_p.V1188A|NRXN2_uc001oaq.2_Missense_Mutation_p.V895A	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	182	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						AGTGAAGCGCACCACGTGGTA	0.557													28	39					0	0	1	0	0		G	64397948	G	G	64397948	3	3	190	1	0	0	0	0	1	0	0	0	10685	159	6	3	1475	3	NRXN2	11	64397948	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	38892	64397948	70608568	799	94952											
NRXN2	9379	broad.mit.edu	37	chr11	64410059	64410059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcggttgatggcgatgggcaCggtgccgtgcttgctgtgga	4	10	19	8	4	0	1	0	1	0	0	0	3	0	2	1	5	3	4	1	5	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:64410059C>T	uc001oap.2	-	2	728	c.217G>A	c.(217-219)GTG>ATG	p.V73M	NRXN2_uc001oar.2_Intron|NRXN2_uc001oas.2_Intron|NRXN2_uc001oaq.2_Intron	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	73	Extracellular (Potential).				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						GCGATGGGCACGGTGCCGTGC	0.662													6	10					0	0	1	0	0		T	64410059	T	T	64410059	3	4	190	1	0	0	0	0	1	0	0	0	10685	536	19	1	1811	1	NRXN2	11	64410059	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	12111	64410059	70596457	800	94953											
RASGRP2	10235	broad.mit.edu	37	chr11	64509498	64509498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atatatgtggagcagcttggCcgccagctgagaggagggga	10	7	17	7	1	0	1	0	1	0	1	0	5	0	4	2	5	3	3	2	5	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:64509498C>T	uc009ypu.2	-	3	387	c.160G>A	c.(160-162)GCC>ACC	p.A54T	RASGRP2_uc001oat.2_5'Flank|RASGRP2_uc001oau.2_5'Flank|RASGRP2_uc009ypv.2_Missense_Mutation_p.A54T|RASGRP2_uc009ypw.2_Missense_Mutation_p.A54T|RASGRP2_uc001oaw.1_3'UTR	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	54	N-terminal Ras-GEF.				platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						AGCAGCTTGGCCGCCAGCTGA	0.657													5	5					0	0	1	0	0		T	64509498	T	T	64509498	3	4	190	1	0	0	0	0	1	0	0	0	13100	739	26	2	1725	2	RASGRP2	11	64509498	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	99439	64509498	70497018	801	94954											
CAPN1	823	broad.mit.edu	37	chr11	64972271	64972271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccttatgcagaagcaccGtcgccgcgagcgccgcttcg	6	6	12	17	8	0	1	0	0	0	1	2	2	0	1	4	0	3	3	4	0	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:64972271G>A	uc009yqd.1	+	11	1394	c.1283G>A	c.(1282-1284)CGT>CAT	p.R428H	CAPN1_uc001odf.1_Missense_Mutation_p.R428H|CAPN1_uc001odg.1_Missense_Mutation_p.R428H|CAPN1_uc010roa.1_Missense_Mutation_p.R169H	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit	428	Domain III.				positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		CAGAAGCACCGTCGCCGCGAG	0.637											OREG0021073	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	34					0	0	1	0	0		A	64972271	A	A	64972271	3	1	190	1	0	0	0	0	1	0	0	0	2625	1145	40	1	1321	1	CAPN1	11	64972271	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	462773	64972271	70034245	802	94955											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65546371	65546371	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaagagcttcatccctgccCggcctggacaccaccacctg	9	6	8	18	1	1	1	1	0	0	1	2	2	2	2	6	2	2	1	6	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:65546371C>T	uc001ofo.3	-	1	1452	c.1422G>A	c.(1420-1422)CCG>CCA	p.P474P		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	474							protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		CATCCCTGCCCGGCCTGGACA	0.607													9	15					0	0	1	0	0		T	65546371	T	T	65546371	2	4	190	1	0	0	0	0	0	0	0	1	4549	639	23	1		1	DKFZp761E198	11	65546371	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	574100	65546371	69460145	803	94956											
RIN1	9610	broad.mit.edu	37	chr11	66103453	66103453	+	Frame_Shift_Del	DEL	G	-	-																															gtggggcaagactcacccccGggggctcggtcctcagcatg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:66103453delG	uc001ohn.1	-	2	390	c.263delC	c.(262-264)CCGfs	p.P88fs	RIN1_uc010roy.1_5'Flank|RIN1_uc009yrd.1_5'UTR|RIN1_uc010roz.1_Intron|RIN1_uc010rpa.1_Intron	NM_004292	NP_004283	Q13671	RIN1_HUMAN	ras inhibitor RIN1	88	SH2.				endocytosis|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase activator activity|protein binding			lung(2)|breast(1)	3						ACTCACCCCCGGGGGCTCGGT	0.692													5	6	---	---	---	---						.	-	66103453	-	-	66103453	7	5	190	1	0	1	0	1	0	0	0	0	13396	1116	39	0	2124	0	RIN1	11	66103453	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	557082	66103453	68903063	804	94957											
RBM14	10432	broad.mit.edu	37	chr11	66391987	66391987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccttctttggtcgcgacCgcagccctctgcgccgttca	4	10	9	18	5	3	0	1	0	2	0	4	1	3	0	4	1	2	2	4	1	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:66391987C>T	uc001oit.2	+	2	779	c.640C>T	c.(640-642)CGC>TGC	p.R214C	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	214					DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						TGGTCGCGACCGCAGCCCTCT	0.642													6	54					0	0	1	0	0		T	66391987	T	T	66391987	3	4	190	1	0	0	0	0	1	0	0	0	13140	652	23	1	646	1	RBM14	11	66391987	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	288534	66391987	68614529	805	94958											
CARNS1	57571	broad.mit.edu	37	chr11	67192057	67192057	+	Silent	SNP	G	A	A	0	0	1	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	taccctgttgcccacttcctGtctcacttcaaatagcactg	8	13	5	15	0	2	0	2	0	1	0	4	0	3	0	3	0	3	2	3	0	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:67192057G>A	uc009yrp.2	+	9	2921	c.2469G>A	c.(2467-2469)CTG>CTA	p.L823L	CARNS1_uc001olc.3_Silent_p.L962L	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	823					carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						CCCACTTCCTGTCTCACTTCA	0.667													5	12					0	0	1	0	0		A	67192057	A	A	67192057	2	1	190	1	0	0	0	0	0	0	0	1	2659	1364	48	4		4	CARNS1	11	67192057	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	800070	67192057	67814459	806	94959											
PITPNM1	9600	broad.mit.edu	37	chr11	67260427	67260427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactgcgcctgtagcttcCgcacggcacggcccacgatg	6	6	13	16	5	0	0	0	0	0	0	1	1	1	0	3	3	2	5	3	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:67260427C>T	uc001olx.2	-	22	3638	c.3449G>A	c.(3448-3450)CGG>CAG	p.R1150Q	PITPNM1_uc001olw.2_Missense_Mutation_p.R432Q|PITPNM1_uc001oly.2_Missense_Mutation_p.R1150Q|PITPNM1_uc001olz.2_Missense_Mutation_p.R1149Q	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	1150					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						CTGTAGCTTCCGCACGGCACG	0.657													40	42					0	0	1	0	0		T	67260427	T	T	67260427	3	4	190	1	0	0	0	0	1	0	0	0	11969	652	23	1	293	1	PITPNM1	11	67260427	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	68370	67260427	67746089	807	94960											
SUV420H1	51111	broad.mit.edu	37	chr11	67925165	67925165	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaccaagagcttaggcattaAgccttaaagactgatcttct	13	11	8	9	0	2	3	0	1	2	2	2	4	2	3	2	1	2	2	2	1	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:67925165A>C	uc001onm.1	-	11	2904	c.2648T>G	c.(2647-2649)CTT>CGT	p.L883R	SUV420H1_uc009yse.1_Missense_Mutation_p.L469R|SUV420H1_uc001onn.1_Missense_Mutation_p.L711R|SUV420H1_uc009ysf.2_Missense_Mutation_p.L643R	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	883					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						TTAGGCATTAAGCCTTAAAGA	0.368													21	32					0	0	1	0	0		C	67925165	C	C	67925165	3	2	190	1	0	0	0	0	1	0	0	0	15439	72	3	5	13	5	SUV420H1	11	67925165	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	664738	67925165	67081351	808	94961											
MRGPRD	116512	broad.mit.edu	37	chr11	68748126	68748126	+	Silent	SNP	T	C	C	0	1	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	gtcagcaggctcaggcccacTgtgtaggcaaagtacatcag	11	7	12	11	0	3	0	3	0	0	0	3	0	3	0	1	3	2	5	1	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:68748126T>C	uc010rqf.1	-	1	330	c.330A>G	c.(328-330)ACA>ACG	p.T110T		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	110	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TCAGGCCCACTGTGTAGGCAA	0.582													4	46					0	0	1	0	0		C	68748126	C	C	68748126	2	2	190	1	0	0	0	0	0	0	0	1	9781	1567	55	3		3	MRGPRD	11	68748126	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	822961	68748126	66258390	809	94962											
MYEOV	26579	broad.mit.edu	37	chr11	69063147	69063147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaagccggcagatcccGgggccgcctctgtctctccc	5	7	10	19	3	2	1	0	0	2	1	6	1	5	1	6	3	1	1	6	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:69063147G>A	uc001oov.2	+	3	680	c.230G>A	c.(229-231)CGG>CAG	p.R77Q	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.R77Q|MYEOV_uc001oow.2_Missense_Mutation_p.R19Q	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	77											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		GGCAGATCCCGGGGCCGCCTC	0.612													22	60					0	0	1	0	0		A	69063147	A	A	69063147	3	1	190	1	0	0	0	0	1	0	0	0	10043	1116	39	1	236	1	MYEOV	11	69063147	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	315021	69063147	65943369	810	94963											
CCND1	595	broad.mit.edu	37	chr11	69456219	69456219	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctcggtgtcctacttcaaAtgtgtgcagaaggaggtcct	8	11	11	11	1	1	1	1	0	0	1	4	2	3	2	3	3	2	1	3	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:69456219A>G	uc001opa.2	+	1	347	c.138A>G	c.(136-138)AAA>AAG	p.K46K		NM_053056	NP_444284	P24385	CCND1_HUMAN	cyclin D1	46	Cyclin N-terminal.				cell division|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|mitotic cell cycle G1/S transition DNA damage checkpoint|positive regulation of cyclin-dependent protein kinase activity|positive regulation of protein phosphorylation|response to drug|response to UV-A|S phase of mitotic cell cycle	cyclin-dependent protein kinase holoenzyme complex|cytosol|membrane|nucleoplasm	protein kinase binding			ovary(1)|lung(1)	2	all_cancers(3;2.01e-114)|all_epithelial(3;3.59e-122)|Breast(3;5.4e-34)|all_lung(4;1.99e-21)|Lung NSC(4;4.65e-21)|Hepatocellular(3;8.22e-16)|Melanoma(5;1.89e-05)|Ovarian(3;0.0348)		Epithelial(3;7.2e-57)|all cancers(3;7.75e-51)|BRCA - Breast invasive adenocarcinoma(2;4.9e-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)		Arsenic trioxide(DB01169)	CCTACTTCAAATGTGTGCAGA	0.647			T	IGH@|FSTL3	CLL|B-ALL|breast					Multiple Myeloma(6;0.086)			30	59					0	0	1	0	0		G	69456219	G	G	69456219	2	3	190	1	0	0	0	0	0	0	0	1	2919	98	4	3		3	CCND1	11	69456219	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	393072	69456219	65550297	811	94964											
NADSYN1	55191	broad.mit.edu	37	chr11	71193957	71193957	+	Frame_Shift_Del	DEL	C	-	-																															tcagctacaccccccaggatCcccgagacctctgtggacgc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:71193957delC	uc001oqn.2	+	14	1339	c.1213delC	c.(1213-1215)CCCfs	p.P405fs	NADSYN1_uc001oqo.2_Frame_Shift_Del_p.P145fs|NADSYN1_uc001oqp.2_Frame_Shift_Del_p.P34fs	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	405	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CCCCCAGGATCCCCGAGACCT	0.587													27	34	---	---	---	---						.	-	71193957	-	-	71193957	7	5	190	1	0	1	0	1	0	0	0	0	10156	855	30	0	1267	0	NADSYN1	11	71193957	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1737738	71193957	63812559	812	94965											
NUMA1	4926	broad.mit.edu	37	chr11	71726294	71726294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccagctcctttcgttccCgcttatgctgctccaccagg	4	13	7	17	2	0	0	0	0	0	0	5	0	4	0	5	1	3	5	5	1	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:71726294C>T	uc001orl.1	-	15	2427	c.2255G>A	c.(2254-2256)CGG>CAG	p.R752Q	NUMA1_uc009ysw.1_Missense_Mutation_p.R315Q|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.R752Q|NUMA1_uc001orn.2_Missense_Mutation_p.R315Q|NUMA1_uc009ysx.1_Missense_Mutation_p.R752Q|NUMA1_uc001oro.1_Missense_Mutation_p.R752Q	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	752	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CTTTCGTTCCCGCTTATGCTG	0.602			T	RARA	APL								40	39					0	0	1	0	0		T	71726294	T	T	71726294	3	4	190	1	0	0	0	0	1	0	0	0	10769	652	23	1	4144	1	NUMA1	11	71726294	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	532337	71726294	63280222	813	94966											
INPPL1	3636	broad.mit.edu	37	chr11	71948327	71948327	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgtcccatctgccacCaagaacaaagtggccattac	11	7	7	16	0	1	1	0	0	1	1	2	1	2	1	6	1	3	0	6	1	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:71948327C>T	uc001osf.2	+	26	3186	c.3039C>T	c.(3037-3039)ACC>ACT	p.T1013T	INPPL1_uc001osg.2_Silent_p.T771T	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	1013	Pro-rich.				actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						CATCTGCCACCAAGAACAAAG	0.627													37	78					0	0	1	0	0		T	71948327	T	T	71948327	2	4	190	1	0	0	0	0	0	0	0	1	7777	581	21	4		4	INPPL1	11	71948327	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	222033	71948327	63058189	814	94967											
PLEKHB1	58473	broad.mit.edu	37	chr11	73364059	73364059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggcaaactccaccccGgtgagtctcccgttctctcc	6	9	9	17	2	2	1	0	1	2	0	6	2	4	2	5	3	1	2	5	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:73364059G>A	uc001oua.2	+	5	821	c.390G>A	c.(388-390)CCG>CCA	p.P130P	PLEKHB1_uc001oub.2_Silent_p.P130P|PLEKHB1_uc010rrh.1_Silent_p.P111P|PLEKHB1_uc001ouc.2_Silent_p.P111P|PLEKHB1_uc001oud.2_Silent_p.P111P|PLEKHB1_uc009ytq.2_Silent_p.P111P	NM_021200	NP_067023	Q9UF11	PKHB1_HUMAN	pleckstrin homology domain containing, family B	130					multicellular organismal development|phototransduction	cytoplasm|integral to membrane	signal transducer activity			ovary(1)|lung(1)	2						ACTCCACCCCGGTGAGTCTCC	0.577													6	8					0	0	1	0	0		A	73364059	A	A	73364059	2	1	190	1	0	0	0	0	0	0	0	1	12083	1130	39	1		1	PLEKHB1	11	73364059	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1415732	73364059	61642457	815	94968											
MOGAT2	80168	broad.mit.edu	37	chr11	75438572	75438572	+	Silent	SNP	G	A	A	0	0	1	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	gtcggagcctttgccaacctGtgcactgagagcacaggctt	8	9	12	12	1	0	1	0	1	0	1	1	3	0	2	3	2	5	3	3	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:75438572G>A	uc010rru.1	+	3	363	c.363G>A	c.(361-363)CTG>CTA	p.L121L	MOGAT2_uc001oww.1_Silent_p.L121L|MOGAT2_uc010rrv.1_Silent_p.L39L	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	121	Helical; (Potential).				glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					TTGCCAACCTGTGCACTGAGA	0.592													9	101					0	0	1	0	0		A	75438572	A	A	75438572	2	1	190	1	0	0	0	0	0	0	0	1	9713	1364	48	4		4	MOGAT2	11	75438572	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2074513	75438572	59567944	816	94969											
WNT11	7481	broad.mit.edu	37	chr11	75902892	75902892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcatttccagagaggcGcgcagagcctgcggacaggg	9	6	14	12	3	1	2	1	0	0	2	2	4	2	3	2	3	2	1	2	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:75902892G>A	uc001oxe.2	-	4	729	c.606C>T	c.(604-606)CGC>CGT	p.R202R	WNT11_uc001oxf.1_Silent_p.R202R	NM_004626	NP_004617	O96014	WNT11_HUMAN	wingless-type MMTV integration site family,	202					adrenal gland development|anterior/posterior pattern formation|artery morphogenesis|axis specification|bone mineralization|cellular response to retinoic acid|cloacal septation|embryonic skeletal system development|endoderm development|lung-associated mesenchyme development|mesonephric duct development|negative regulation of apoptosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell migration|negative regulation of transcription, DNA-dependent|neuroendocrine cell differentiation|neuron differentiation|osteoblast differentiation|outflow tract morphogenesis|palate development|positive regulation of cell migration|positive regulation of protein kinase C signaling cascade|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor-beta2 production|protein localization at cell surface|protein phosphorylation|tight junction assembly|ureteric bud morphogenesis|ventricular septum morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|protein kinase activator activity|Ras GTPase activator activity|transcription regulatory region DNA binding			lung(1)|skin(1)	2						CCAGAGAGGCGCGCAGAGCCT	0.672													17	21					0	0	1	0	0		A	75902892	A	A	75902892	2	1	190	1	0	0	0	0	0	0	0	1	17410	1074	38	1		1	WNT11	11	75902892	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	464320	75902892	59103624	817	94970											
OMP	4975	broad.mit.edu	37	chr11	76814001	76814001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagcgcggggagaagcGccaggatggggagaagctgc	11	2	20	8	3	0	2	0	0	0	2	0	6	0	3	1	5	5	2	1	5	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:76814001G>A	uc010rsk.1	+	1	116	c.116G>A	c.(115-117)CGC>CAC	p.R39H	CAPN5_uc001oxx.2_Intron|CAPN5_uc009yup.2_Intron|CAPN5_uc009yuq.2_Intron|CAPN5_uc001oxy.2_Intron	NM_006189	NP_006180	P47874	OMP_HUMAN	olfactory marker protein	39					sensory perception of smell|synaptic transmission						0						GGGGAGAAGCGCCAGGATGGG	0.662													14	28					0	0	1	0	0		A	76814001	A	A	76814001	3	1	190	1	0	0	0	0	1	0	0	0	10886	1087	38	1	118	1	OMP	11	76814001	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	911109	76814001	58192515	818	94971											
ODZ4	26011	broad.mit.edu	37	chr11	78412977	78412977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgttcttccggataaaccGaattcggatgttcccaaggt	9	13	9	10	3	1	0	0	0	1	0	4	3	3	2	3	3	1	2	3	3	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:78412977G>A	uc001ozl.3	-	28	5144	c.4681C>T	c.(4681-4683)CGG>TGG	p.R1561W	ODZ4_uc009yvb.1_Missense_Mutation_p.R145W	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1561	NHL 5.|Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CGGATAAACCGAATTCGGATG	0.493													39	57					0	0	1	0	0		A	78412977	A	A	78412977	3	1	190	1	0	0	0	0	1	0	0	0	10856	1057	37	1	3656	1	ODZ4	11	78412977	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1598976	78412977	56593539	819	94972											
RAB30	27314	broad.mit.edu	37	chr11	82693314	82693314	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggcttcactgatgagtcGgcatgctaagtcaaggaaga	11	10	12	8	1	3	3	2	2	1	1	4	4	3	4	0	3	1	3	0	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:82693314G>A	uc001ozu.2	-	6	766	c.505C>T	c.(505-507)CGA>TGA	p.R169*	RAB30_uc009yve.2_Nonsense_Mutation_p.R167*|RAB30_uc010rst.1_Nonsense_Mutation_p.R167*|RAB30_uc001ozv.2_3'UTR	NM_014488	NP_055303	Q15771	RAB30_HUMAN	RAB30, member RAS oncogene family	169					protein transport|small GTPase mediated signal transduction	Golgi stack|plasma membrane	GTP binding|GTPase activity				0						CTGATGAGTCGGCATGCTAAG	0.438													42	75					0	0	1	0	0		A	82693314	A	A	82693314	4	1	190	1	0	0	0	0	0	1	0	0	12944	1124	39	1	110	1	RAB30	11	82693314	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4280337	82693314	52313202	820	94973											
DLG2	1740	broad.mit.edu	37	chr11	83544674	83544674	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccgataggatctggtctcCtctctggagctccccactta	7	11	8	15	1	3	0	0	0	3	0	6	3	4	2	4	3	1	1	4	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:83544674C>A	uc001paj.2	-	12	1693	c.1390G>T	c.(1390-1392)GGA>TGA	p.G464*	DLG2_uc001pai.2_Nonsense_Mutation_p.G361*|DLG2_uc010rsy.1_Nonsense_Mutation_p.G431*|DLG2_uc010rsz.1_Nonsense_Mutation_p.G464*|DLG2_uc010rta.1_Nonsense_Mutation_p.G464*|DLG2_uc001pak.2_Nonsense_Mutation_p.G569*|DLG2_uc010rtb.1_Nonsense_Mutation_p.G431*|DLG2_uc001pal.1_Nonsense_Mutation_p.G464*|DLG2_uc001pam.1_Nonsense_Mutation_p.G503*	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	464	PDZ 3.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				ATCTGGTCTCCTCTCTGGAGC	0.443													33	56					1.57351e-24	1.70731e-24	1	1	0		A	83544674	A	A	83544674	4	1	190	1	0	0	0	0	0	1	0	0	4561	690	24	5	1320	5	DLG2	11	83544674	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	851360	83544674	51461842	821	94974											
EED	8726	broad.mit.edu	37	chr11	85979585	85979585	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gattgtgtgcgatggttaggCgatttgatactttctaaggt	8	16	13	4	2	1	1	0	1	1	0	1	4	1	1	0	3	2	1	0	3	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:85979585C>T	uc001pbp.2	+	9	1405	c.948C>T	c.(946-948)GGC>GGT	p.G316G	EED_uc010rtm.1_Silent_p.G316G|EED_uc001pbq.2_Silent_p.G316G|EED_uc001pbr.2_Silent_p.G316G|EED_uc001pbs.2_Intron|EED_uc010rtn.1_Intron	NM_003797	NP_003788	O75530	EED_HUMAN	embryonic ectoderm development isoform a	316	Interaction with EZH2 (By similarity).|Required for interaction with the matrix protein MA of HIV-1.|WD 5.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|identical protein binding			skin(1)|pancreas(1)	2		Acute lymphoblastic leukemia(157;7.24e-07)|all_hematologic(158;0.00092)				GATGGTTAGGCGATTTGATAC	0.299													42	84					0	0	1	0	0		T	85979585	T	T	85979585	2	4	190	1	0	0	0	0	0	0	0	1	4928	755	27	1		1	EED	11	85979585	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2434911	85979585	49026931	822	94975											
FAT3	120114	broad.mit.edu	37	chr11	92532189	92532189	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acataaccaaagttgctattGtcaatgcagttggaaatcgc	14	11	8	8	1	1	0	1	0	0	0	2	1	1	1	1	1	3	4	1	1	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:92532189G>A	uc001pdj.3	+	9	6027	c.6010G>A	c.(6010-6012)GTC>ATC	p.V2004I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2004	Extracellular (Potential).|Cadherin 18.				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGTTGCTATTGTCAATGCAGT	0.408										TCGA Ovarian(4;0.039)			54	98					0	0	1	0	0		A	92532189	A	A	92532189	3	1	190	1	0	0	0	0	1	0	0	0	5705	1377	48	4	6044	4	FAT3	11	92532189	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6552604	92532189	42474327	823	94976											
FAT3	120114	broad.mit.edu	37	chr11	92599971	92599971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctggaatcttgggcatctCgggccgtgctgtcaacgacg	6	9	13	13	4	3	0	1	0	2	0	4	2	3	1	2	3	2	2	2	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:92599971C>T	uc001pdj.3	+	21	11740	c.11723C>T	c.(11722-11724)TCG>TTG	p.S3908L	FAT3_uc001pdi.3_Missense_Mutation_p.S348L	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3908	Laminin G-like.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTGGGCATCTCGGGCCGTGCT	0.607										TCGA Ovarian(4;0.039)			10	6					0	0	1	0	0		T	92599971	T	T	92599971	3	4	190	1	0	0	0	0	1	0	0	0	5705	893	31	1	11805	1	FAT3	11	92599971	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	67782	92599971	42406545	824	94977											
FAT3	120114	broad.mit.edu	37	chr11	92600059	92600059	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtccctggatgacagctaCgtggagcggcgccgggcgcc	5	6	16	14	5	0	1	0	1	0	0	1	3	1	3	3	4	3	1	3	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:92600059C>T	uc001pdj.3	+	21	11828	c.11811C>T	c.(11809-11811)TAC>TAT	p.Y3937Y	FAT3_uc001pdi.3_Silent_p.Y377Y	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3937	Laminin G-like.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATGACAGCTACGTGGAGCGGC	0.622										TCGA Ovarian(4;0.039)			11	21					0	0	1	0	0		T	92600059	T	T	92600059	2	4	190	1	0	0	0	0	0	0	0	1	5705	547	19	1		1	FAT3	11	92600059	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	88	92600059	42406457	825	94978											
FAT3	120114	broad.mit.edu	37	chr11	92600371	92600371	+	Frame_Shift_Del	DEL	G	-	-																															agctgcactggcctgccatcGgggggtgagtgtggctacgc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:92600371delG	uc001pdj.3	+	21	12140	c.12123delG	c.(12121-12123)TCGfs	p.S4041fs	FAT3_uc001pdi.3_Frame_Shift_Del_p.S481fs	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4041	EGF-like 2.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				GCCTGCCATCGGGGGGTGAGT	0.667										TCGA Ovarian(4;0.039)			3	3	---	---	---	---						.	-	92600371	-	-	92600371	7	5	190	1	0	1	0	1	0	0	0	0	5705	1103	39	0	12205	0	FAT3	11	92600371	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	312	92600371	42406145	826	94979											
MTNR1B	4544	broad.mit.edu	37	chr11	92714707	92714707	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccatcttctatgacggctgGgccctgggggaggagcactg	6	8	16	11	1	2	1	0	1	2	0	2	3	2	3	2	5	1	2	2	5	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:92714707G>A	uc001pdk.1	+	2	421	c.318G>A	c.(316-318)TGG>TGA	p.W106*		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	106	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	ATGACGGCTGGGCCCTGGGGG	0.567													72	108					0	0	1	0	0		A	92714707	A	A	92714707	4	1	190	1	0	0	0	0	0	1	0	0	9970	1241	43	4	324	4	MTNR1B	11	92714707	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	114336	92714707	42291809	827	94980											
AMOTL1	154810	broad.mit.edu	37	chr11	94554713	94554713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgcccatgccaacttcCgttcccatcaaccatgcagc	9	7	6	19	2	1	0	1	0	0	0	3	0	3	0	6	0	6	2	6	0	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:94554713C>T	uc001pfb.2	+	4	1309	c.1139C>T	c.(1138-1140)CCG>CTG	p.P380L	AMOTL1_uc001pfc.2_Missense_Mutation_p.P330L	NM_130847	NP_570899	Q8IY63	AMOL1_HUMAN	angiomotin like 1	380						cytoplasm|tight junction	identical protein binding			ovary(1)|breast(1)	2		Acute lymphoblastic leukemia(157;2.38e-05)|all_hematologic(158;0.00824)				TGCCAACTTCCGTTCCCATCA	0.607													5	17					0	0	1	0	0		T	94554713	T	T	94554713	3	4	190	1	0	0	0	0	1	0	0	0	583	652	23	1	1153	1	AMOTL1	11	94554713	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1840006	94554713	40451803	828	94981											
MTMR2	8898	broad.mit.edu	37	chr11	95580917	95580917	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgagtagattccaagttagaCaaccagtgggtttcctcaat	12	12	9	8	0	1	3	1	1	0	2	3	3	3	3	3	1	1	3	3	1	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:95580917C>A	uc001pfu.2	-	10	1393	c.1140G>T	c.(1138-1140)TTG>TTT	p.L380F	MTMR2_uc001pfv.2_Missense_Mutation_p.L308F|MTMR2_uc001pfs.2_Missense_Mutation_p.L308F|MTMR2_uc001pft.2_Missense_Mutation_p.L308F|MTMR2_uc010ruj.1_Missense_Mutation_p.L363F	NM_016156	NP_057240	Q13614	MTMR2_HUMAN	myotubularin-related protein 2 isoform 1	380	Myotubularin phosphatase.					nucleus	inositol or phosphatidylinositol phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCAAGTTAGACAACCAGTGGG	0.373													37	57					3.33393e-15	3.54527e-15	1	1	0		A	95580917	A	A	95580917	3	1	190	1	0	0	0	0	1	0	0	0	9962	477	17	5	815	5	MTMR2	11	95580917	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1026204	95580917	39425599	829	94982											
CWF19L2	143884	broad.mit.edu	37	chr11	107224389	107224389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctcttcctcttcaccaagaCgttctctctcagctgctttg	5	16	5	15	1	5	1	2	0	4	1	9	1	6	1	2	0	2	3	2	0	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:107224389C>T	uc010rvp.1	-	13	1976	c.1946G>A	c.(1945-1947)CGT>CAT	p.R649H	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	649	Potential.						catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		TTCACCAAGACGTTCTCTCTC	0.398													26	50					0	0	1	0	0		T	107224389	T	T	107224389	3	4	190	1	0	0	0	0	1	0	0	0	4075	536	19	1	762	1	CWF19L2	11	107224389	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11643472	107224389	27782127	830	94983											
ZC3H12C	85463	broad.mit.edu	37	chr11	110036179	110036179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcgacgcctatgggtaccGgcagacttattccttgcccg	7	10	11	13	4	0	1	0	0	0	1	2	3	1	1	4	2	2	2	4	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:110036179G>A	uc009yxw.2	+	6	2420	c.2369G>A	c.(2368-2370)CGG>CAG	p.R790Q	ZC3H12C_uc010rwc.1_Missense_Mutation_p.R791Q|ZC3H12C_uc010rwd.1_Missense_Mutation_p.R791Q|ZC3H12C_uc001pkr.3_Missense_Mutation_p.R759Q	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	790							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		TATGGGTACCGGCAGACTTAT	0.567													37	50					0	0	1	0	0		A	110036179	A	A	110036179	3	1	190	1	0	0	0	0	1	0	0	0	17588	1116	39	1	2391	1	ZC3H12C	11	110036179	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2811790	110036179	24970337	831	94984											
SIK2	23235	broad.mit.edu	37	chr11	111594685	111594685	+	Silent	SNP	A	G	G	1	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	tgtcagtatcctgtggatggAgcccagcagagcgacctaac	10	8	12	11	1	1	1	1	0	0	1	2	4	2	3	3	2	4	2	3	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:111594685A>G	uc001plt.2	+	15	2731	c.2613A>G	c.(2611-2613)GGA>GGG	p.G871G		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	871					intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						CTGTGGATGGAGCCCAGCAGA	0.617													15	17					0	0	1	0	0		G	111594685	G	G	111594685	2	3	190	1	0	0	0	0	0	0	0	1	14343	291	11	3		3	SIK2	11	111594685	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1558506	111594685	23411831	832	94985											
DIXDC1	85458	broad.mit.edu	37	chr11	111855970	111855970	+	Silent	SNP	T	C	C	0	1	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	attcaggccttactgctcaaTggatccttacctgaagatga	11	12	8	10	0	2	3	2	2	0	1	3	4	3	4	3	2	3	1	3	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:111855970T>C	uc001pml.2	+	9	1230	c.933T>C	c.(931-933)AAT>AAC	p.N311N	DIXDC1_uc001pmm.2_Silent_p.N100N|DIXDC1_uc001pmn.2_Silent_p.N17N	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	311	Potential.				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-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;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		TACTGCTCAATGGATCCTTAC	0.473													7	17					0	0	1	0	0		C	111855970	C	C	111855970	2	2	190	1	0	0	0	0	0	0	0	1	4547	1461	51	3		3	DIXDC1	11	111855970	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	261285	111855970	23150546	833	94986											
DLAT	1737	broad.mit.edu	37	chr11	111904183	111904183	+	Missense_Mutation	SNP	A	G	G	1	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	gggcacagttcagagatgggAaaaaaaagtgggtgagaagc	16	5	16	4	0	1	2	1	1	0	2	1	5	1	3	0	3	1	2	0	3	5	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:111904183A>G	uc001pmo.2	+	5	1375	c.716A>G	c.(715-717)GAA>GGA	p.E239G	DLAT_uc009yyk.1_Intron|DLAT_uc010rwr.1_Intron	NM_001931	NP_001922	P10515	ODP2_HUMAN	dihydrolipoamide S-acetyltransferase precursor	239	Lipoyl-binding 2.				glycolysis|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial pyruvate dehydrogenase complex	dihydrolipoyllysine-residue acetyltransferase activity|protein binding				0		all_cancers(61;4.53e-11)|all_epithelial(67;2.76e-06)|Melanoma(852;9.42e-06)|all_hematologic(158;0.000885)|Acute lymphoblastic leukemia(157;0.000966)|Breast(348;0.0512)|Medulloblastoma(222;0.0523)|all_neural(223;0.0663)		Epithelial(105;4.87e-07)|BRCA - Breast invasive adenocarcinoma(274;6.83e-07)|all cancers(92;9.63e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0557)	NADH(DB00157)	CAGAGATGGGAAAAAAAAGTG	0.433													11	28					0	0	1	0	0		G	111904183	G	G	111904183	3	3	190	1	0	0	0	0	1	0	0	0	4555	246	9	3	734	3	DLAT	11	111904183	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	48213	111904183	23102333	834	94987											
USP28	57646	broad.mit.edu	37	chr11	113673924	113673924	+	Frame_Shift_Del	DEL	C	-	-																															agcaatcacggattctttgaCcccccggcggggccccttca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:113673924delC	uc001poh.2	-	23	2851	c.2818delG	c.(2818-2820)GTCfs	p.V940fs	USP28_uc001pog.2_Frame_Shift_Del_p.V616fs|USP28_uc010rwy.1_Frame_Shift_Del_p.V783fs|USP28_uc001poi.2_Frame_Shift_Del_p.V263fs	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	940					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		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)		GATTCTTTGACCCCCCGGCGG	0.458													38	85	---	---	---	---						.	-	113673924	-	-	113673924	7	5	190	1	0	1	0	1	0	0	0	0	17084	507	18	0	427	0	USP28	11	113673924	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1769741	113673924	21332592	835	94988											
SIDT2	51092	broad.mit.edu	37	chr11	117059506	117059506	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgactacgacacattgacCgacatcgattccgacaagaa	15	7	8	11	4	0	3	0	2	0	1	2	8	1	3	2	0	1	0	2	0	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:117059506C>T	uc001pqh.1	+	13	1283	c.1242C>T	c.(1240-1242)ACC>ACT	p.T414T	SIDT2_uc010rxe.1_Silent_p.T414T|SIDT2_uc001pqg.2_Silent_p.T435T|SIDT2_uc001pqi.1_Silent_p.T411T	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	414	Cytoplasmic (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		ACACATTGACCGACATCGATT	0.587													34	62					0	0	1	0	0		T	117059506	T	T	117059506	2	4	190	1	0	0	0	0	0	0	0	1	14328	639	23	1		1	SIDT2	11	117059506	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3385582	117059506	17947010	836	94989											
MLL	4297	broad.mit.edu	37	chr11	118344530	118344530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagagaaaaggagaataagCgggagtcaaggaaagagaaa	22	2	15	2	1	1	4	1	0	0	4	1	9	1	6	0	3	1	0	0	3	7	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:118344530C>T	uc001pta.2	+	3	2679	c.2656C>T	c.(2656-2658)CGG>TGG	p.R886W	MLL_uc001ptb.2_Missense_Mutation_p.R886W|MLL_uc001psz.1_Missense_Mutation_p.R919W|MLL_uc001ptd.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	886					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		ggagaataagcgggagtcaag	0.284			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								22	31					0	0	1	0	0		T	118344530	T	T	118344530	3	4	190	1	0	0	0	0	1	0	0	0	9638	759	27	1	2666	1	MLL	11	118344530	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1285024	118344530	16661986	837	94990											
PHLDB1	23187	broad.mit.edu	37	chr11	118527419	118527419	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccagccctcaccttctgCgtaaagacccatgaccggct	10	7	7	17	2	2	2	1	1	1	1	2	2	2	2	5	1	3	2	5	1	3	2	rs148039830		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:118527419C>T	uc001ptr.1	+	24	4373	c.4020C>T	c.(4018-4020)TGC>TGT	p.C1340C	PHLDB1_uc001pts.2_Silent_p.C1340C|PHLDB1_uc001ptt.2_Silent_p.C1282C|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Silent_p.C1144C|PHLDB1_uc001ptw.1_Silent_p.C684C|PHLDB1_uc009zai.1_Silent_p.C365C|PHLDB1_uc001ptx.1_Silent_p.C365C	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	1340	PH.										0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		TCACCTTCTGCGTAAAGACCC	0.567													24	38					0	0	1	0	0		T	118527419	T	T	118527419	2	4	190	1	0	0	0	0	0	0	0	1	11870	776	27	1		1	PHLDB1	11	118527419	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	182889	118527419	16479097	838	94991											
ABCG4	64137	broad.mit.edu	37	chr11	119031362	119031362	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggagctcctatctctcctatGtcaggtcagtacccctgccc	6	11	8	16	0	3	0	2	0	1	0	6	1	5	1	5	2	3	2	5	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:119031362G>A	uc001pvs.2	+	14	2047	c.1711G>A	c.(1711-1713)GTC>ATC	p.V571I	ABCG4_uc009zar.2_Missense_Mutation_p.V571I	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	571	Extracellular (Potential).|ABC transmembrane type-2.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TCTCTCCTATGTCAGGTCAGT	0.592													74	83					0	0	1	0	0		A	119031362	A	A	119031362	3	1	190	1	0	0	0	0	1	0	0	0	70	1377	48	4	1761	4	ABCG4	11	119031362	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	503943	119031362	15975154	839	94992											
RNF26	79102	broad.mit.edu	37	chr11	119207088	119207088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtctaccaccgcaattgccCgctctgccgccggggcatcc	5	7	10	19	5	2	0	0	0	2	0	3	0	3	0	6	2	3	3	6	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:119207088C>T	uc001pwh.2	+	1	1852	c.1256C>T	c.(1255-1257)CCG>CTG	p.P419L		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	419	RING-type.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		CGCAATTGCCCGCTCTGCCGC	0.637													19	37					0	0	1	0	0		T	119207088	T	T	119207088	3	4	190	1	0	0	0	0	1	0	0	0	13511	652	23	1	1258	1	RNF26	11	119207088	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	175726	119207088	15799428	840	94993											
TRIM29	23650	broad.mit.edu	37	chr11	120008518	120008518	+	Silent	SNP	C	T	T	0	0	0	1	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	tggatgatgggtcgccgccaCtcattgcccgcgaacagggc	7	7	14	13	4	1	1	1	1	0	0	2	3	1	2	3	3	2	0	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:120008518C>T	uc001pwz.2	-	1	346	c.222G>A	c.(220-222)GAG>GAA	p.E74E	TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	74					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		GTCGCCGCCACTCATTGCCCG	0.632													19	165					0	0	1	0	0		T	120008518	T	T	120008518	2	4	190	1	0	0	0	0	0	0	0	1	16529	564	20	4		4	TRIM29	11	120008518	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	801430	120008518	14997998	841	94994											
TECTA	7007	broad.mit.edu	37	chr11	120998774	120998774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggcagcggggaggtgtgCgccgtggaggacggctacca	6	5	20	10	5	0	0	0	0	0	0	0	3	0	3	2	7	4	2	2	7	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:120998774C>T	uc010rzo.1	+	8	2088	c.2088C>T	c.(2086-2088)TGC>TGT	p.C696C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	696					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		GGGAGGTGTGCGCCGTGGAGG	0.652													23	44					0	0	1	0	0		T	120998774	T	T	120998774	2	4	190	1	0	0	0	0	0	0	0	1	15772	776	27	1		1	TECTA	11	120998774	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	990256	120998774	14007742	842	94995											
SORL1	6653	broad.mit.edu	37	chr11	121393406	121393406	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctccaggcctcatcatcGccactggtaagtgtgcttgc	6	10	11	14	2	2	0	2	0	0	0	4	0	3	0	3	3	2	3	3	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:121393406G>A	uc001pxx.2	+	10	1596	c.1516G>A	c.(1516-1518)GCC>ACC	p.A506T		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	506	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CCTCATCATCGCCACTGGTAA	0.572													58	77					0	0	1	0	0		A	121393406	A	A	121393406	3	1	190	1	0	0	0	0	1	0	0	0	14959	1087	38	1	1554	1	SORL1	11	121393406	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	394632	121393406	13613110	843	94996											
OR10G7	390265	broad.mit.edu	37	chr11	123909320	123909320	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcatcatgttggtgtacCtgagcgggtaactgatggcc	8	11	13	9	1	2	2	2	2	0	0	2	2	2	2	2	3	3	3	2	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:123909320C>A	uc001pzq.1	-	1	389	c.389G>T	c.(388-390)AGG>ATG	p.R130M		NM_001004463	NP_001004463	Q8NGN6	O10G7_HUMAN	olfactory receptor, family 10, subfamily G,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		GTTGGTGTACCTGAGCGGGTA	0.552													108	21					3.88716e-44	4.27044e-44	1	1	0		A	123909320	A	A	123909320	3	1	190	1	0	0	0	0	1	0	0	0	10921	681	24	5	550	5	OR10G7	11	123909320	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2515914	123909320	11097196	844	94997											
KIRREL3	84623	broad.mit.edu	37	chr11	126333072	126333072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggatgtcaatggtgaccGacgtctcctttcctccgggg	5	11	13	12	3	2	1	1	1	1	0	5	3	4	2	4	4	0	1	4	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:126333072G>A	uc001qea.2	-	6	1083	c.722C>T	c.(721-723)TCG>TTG	p.S241L	KIRREL3_uc001qeb.2_Missense_Mutation_p.S241L|KIRREL3_uc001qec.1_Missense_Mutation_p.S241L	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	241	Ig-like C2-type 2.|Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		AATGGTGACCGACGTCTCCTT	0.617													13	28					0	0	1	0	0		A	126333072	A	A	126333072	3	1	190	1	0	0	0	0	1	0	0	0	8342	1059	37	1	1769	1	KIRREL3	11	126333072	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2423752	126333072	8673444	845	94998											
APLP2	334	broad.mit.edu	37	chr11	129980502	129980502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttagtattgacaactggtgcCggagggacaaaaagcaatgc	14	8	12	7	1	0	1	0	1	0	0	0	3	0	3	1	3	4	2	1	3	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:129980502C>T	uc010sby.1	+	3	506	c.349C>T	c.(349-351)CGG>TGG	p.R117W	APLP2_uc001qfp.2_Missense_Mutation_p.R117W|APLP2_uc001qfq.2_Missense_Mutation_p.R117W|APLP2_uc010sbz.1_Intron|APLP2_uc001qfr.2_Intron|APLP2_uc001qfs.2_Missense_Mutation_p.R117W|APLP2_uc001qfv.2_Missense_Mutation_p.R64W	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	117	Extracellular (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)		CAACTGGTGCCGGAGGGACAA	0.453													36	40					0	0	1	0	0		T	129980502	T	T	129980502	3	4	190	1	0	0	0	0	1	0	0	0	779	643	23	1	359	1	APLP2	11	129980502	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3647430	129980502	5026014	846	94999											
GLB1L2	89944	broad.mit.edu	37	chr11	134234257	134234257	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttgcagtcaacacacgagCtgcagctactgaccaccttt	11	9	7	14	1	1	1	1	1	0	0	1	2	1	1	2	0	6	4	2	0	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:134234257C>T	uc001qhp.2	+	8	957	c.769C>T	c.(769-771)CTG>TTG	p.L257L	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	257					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		AACACACGAGCTGCAGCTACT	0.552													93	118					0	0	1	0	0		T	134234257	T	T	134234257	2	4	190	1	0	0	0	0	0	0	0	1	6444	796	28	2		2	GLB1L2	11	134234257	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4253755	134234257	772259	847	95000											
B3GAT1	27087	broad.mit.edu	37	chr11	134257541	134257541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacgatcgctaggatgtcccGtctcttcggcatctccaagg	7	10	11	13	4	2	0	0	0	2	0	7	3	3	1	2	3	0	2	2	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr11:134257541G>A	uc001qhq.2	-	3	274	c.13C>T	c.(13-15)CGG>TGG	p.R5W	B3GAT1_uc001qhr.2_Missense_Mutation_p.R5W|B3GAT1_uc010scv.1_Missense_Mutation_p.R18W	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	5	Cytoplasmic (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		AGGATGTCCCGTCTCTTCGGC	0.642													15	18					0	0	1	0	0		A	134257541	A	A	134257541	3	1	190	1	0	0	0	0	1	0	0	0	1254	1144	40	1	1007	1	B3GAT1	11	134257541	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	23284	134257541	748975	848	95001											
WNT5B	81029	broad.mit.edu	37	chr12	1748958	1748958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacctgcggctgcagccggaCggcgcggcccaaggacctgc	6	3	15	17	5	0	0	0	0	0	0	0	2	0	2	4	5	4	2	4	5	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:1748958C>T	uc009zdq.2	+	4	679	c.437C>T	c.(436-438)ACG>ATG	p.T146M	WNT5B_uc001qjj.2_Missense_Mutation_p.T146M|WNT5B_uc001qjk.2_Missense_Mutation_p.T146M|WNT5B_uc001qjl.2_Missense_Mutation_p.T146M	NM_032642	NP_116031	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family,	146					angiogenesis|anterior/posterior pattern formation|cell migration involved in gastrulation|cellular response to retinoic acid|chondrocyte differentiation|convergent extension involved in axis elongation|convergent extension involved in gastrulation|dorsal/ventral axis specification|endocrine pancreas development|fat cell differentiation|lens fiber cell development|negative regulation of canonical Wnt receptor signaling pathway|neuron differentiation|positive regulation of cell migration|positive regulation of fat cell differentiation|respiratory system development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			TGCAGCCGGACGGCGCGGCCC	0.726													10	9					0	0	1	0	0		T	1748958	T	T	1748958	3	4	190	1	0	0	0	0	1	0	0	0	17418	536	19	1	447	1	WNT5B	12	1748958	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		1748958	132102937	849	95002											
ADIPOR2	79602	broad.mit.edu	37	chr12	1893046	1893046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctcttcttgtgactcctagGagtgtttttgggcctaggcc	4	16	11	10	0	2	1	0	1	2	0	4	2	3	2	3	3	0	1	3	3	2	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:1893046G>A	uc001qjm.2	+	7	1036	c.839G>A	c.(838-840)GGA>GAA	p.G280E	ADIPOR2_uc001qjn.2_Missense_Mutation_p.G280E	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	280	Helical; Name=5; (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			TGACTCCTAGGAGTGTTTTTG	0.463													22	25					0	0	1	0	0		A	1893046	A	A	1893046	3	1	190	1	0	0	0	0	1	0	0	0	319	1188	41	4	861	4	ADIPOR2	12	1893046	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	144088	1893046	131958849	850	95003											
FGF23	8074	broad.mit.edu	37	chr12	4479543	4479543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaaggggcggcagccttccGggcccgttcccccagcgtgc	4	5	15	17	5	0	0	0	0	0	0	2	1	2	0	5	4	3	2	5	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:4479543G>A	uc001qmq.1	-	3	868	c.722C>T	c.(721-723)CCG>CTG	p.P241L		NM_020638	NP_065689	Q9GZV9	FGF23_HUMAN	fibroblast growth factor 23 precursor	241					cell differentiation|insulin receptor signaling pathway|negative regulation of bone mineralization|negative regulation of hormone secretion|negative regulation of osteoblast differentiation|positive regulation of vitamin D 24-hydroxylase activity|regulation of phosphate transport|vitamin D catabolic process	extracellular space	growth factor activity			ovary(2)|breast(1)|skin(1)	4			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)|STAD - Stomach adenocarcinoma(119;0.206)			GCAGCCTTCCGGGCCCGTTCC	0.647													39	48					0	0	1	0	0		A	4479543	A	A	4479543	3	1	190	1	0	0	0	0	1	0	0	0	5866	1116	39	1	37	1	FGF23	12	4479543	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2586497	4479543	129372352	851	95004											
RAD51AP1	10635	broad.mit.edu	37	chr12	4662161	4662161	+	Missense_Mutation	SNP	A	G	G	1	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	tgttttaggtgaagattctgAggatgattctgatttttgtg	8	19	12	2	0	2	5	0	4	2	1	2	6	2	6	0	2	0	1	0	2	2	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:4662161A>G	uc001qmw.2	+	8	776	c.620A>G	c.(619-621)GAG>GGG	p.E207G	RAD51AP1_uc001qmu.2_Missense_Mutation_p.E190G|RAD51AP1_uc001qmv.2_Missense_Mutation_p.E153G|RAD51AP1_uc010sep.1_Missense_Mutation_p.E72G|RAD51AP1_uc010seq.1_Missense_Mutation_p.E72G|RAD51AP1_uc009zeg.2_RNA	NM_001130862	NP_001124334	Q96B01	R51A1_HUMAN	RAD51 associated protein 1 isoform a	207					double-strand break repair via homologous recombination		double-stranded DNA binding|protein binding|protein binding|RNA binding|single-stranded DNA binding				0			Colorectal(7;0.00306)|COAD - Colon adenocarcinoma(12;0.0389)			GAAGATTCTGAGGATGATTCT	0.313													18	28					0	0	1	0	0		G	4662161	G	G	4662161	3	3	190	1	0	0	0	0	1	0	0	0	13011	304	11	3	650	3	RAD51AP1	12	4662161	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	182618	4662161	129189734	852	95005											
ZNF384	171017	broad.mit.edu	37	chr12	6777207	6777207	+	Silent	SNP	T	C	C	0	1	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	gcctgggccactgctgccgcTgctgctgctgcctgcacctg	2	9	13	17	1	0	0	0	0	0	0	0	0	0	0	5	1	7	6	5	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:6777207T>C	uc010sfh.1	-	11	1615	c.1407A>G	c.(1405-1407)GCA>GCG	p.A469A	ZNF384_uc001qpz.2_Silent_p.A408A|ZNF384_uc001qqa.2_Silent_p.A408A|ZNF384_uc001qqb.2_Silent_p.A392A|ZNF384_uc001qqc.2_Silent_p.A408A|ZNF384_uc001qqd.2_Silent_p.A353A|ZNF384_uc001qqe.2_Silent_p.A392A	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	469	Ala-rich.|Gln-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						ctgctgccgctgctgctgctg	0.189			T	EWSR1|TAF15 	ALL								28	28					0	0	1	0	0		C	6777207	C	C	6777207	2	2	190	1	0	0	0	0	0	0	0	1	17900	1567	55	3		3	ZNF384	12	6777207	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2115046	6777207	127074688	853	95006											
EMG1	10436	broad.mit.edu	37	chr12	7084957	7084958	+	Frame_Shift_Ins	INS	-	G	G																															cacagcctttgaggaagtatINSggggggtcatttgacagtag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:7084957_7084958insG	uc001qsh.3	+	8	864_865	c.721_722insG	c.(721-723)TGGfs	p.W241fs	EMG1_uc009zfo.2_RNA|EMG1_uc010sfv.1_Intron	NM_006331	NP_006322	Q92979	NEP1_HUMAN	ribosome biogenesis protein NEP1	241					ribosomal small subunit biogenesis	cytoplasm|nucleolus	rRNA (pseudouridine) methyltransferase activity|rRNA binding				0						TGAGGAAGTATGGGGGGTCATT	0.475													34	54	---	---	---	---						.	G	7084958	G	G	7084957	7	5	190	1	0	1	1	0	0	0	0	0	5098	1464	51	0	742	0	EMG1	12	7084957	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	307750	7084957	126766938	854	95007											
LPCAT3	10162	broad.mit.edu	37	chr12	7086569	7086569	+	Missense_Mutation	SNP	A	G	G	1	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	tgaagaggcagaaggcagtcAtggagtaacccatgaagagc	15	5	14	7	0	1	5	1	2	0	3	1	6	1	6	1	3	2	3	1	3	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:7086569A>G	uc001qsi.2	-	11	1421	c.1307T>C	c.(1306-1308)ATG>ACG	p.M436T	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Missense_Mutation_p.M330T|LPCAT3_uc009zfp.2_RNA	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	436	Helical; (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1						GAAGGCAGTCATGGAGTAACC	0.542													30	36					0	0	1	0	0		G	7086569	G	G	7086569	3	3	190	1	0	0	0	0	1	0	0	0	8930	217	8	3	164	3	LPCAT3	12	7086569	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1612	7086569	126765326	855	95008											
C1R	715	broad.mit.edu	37	chr12	7242710	7242710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgatggtcccattctcctcGttggagaagtctgtgtggaa	8	13	12	8	1	2	2	0	1	2	1	5	4	3	3	2	3	0	1	2	3	2	2	rs150953301	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:7242710G>A	uc010sfy.1	-	3	425	c.366C>T	c.(364-366)AAC>AAT	p.N122N	C1R_uc010sfz.1_Silent_p.N136N|C1R_uc010sga.1_Silent_p.N88N	NM_001733	NP_001724	P00736	C1R_HUMAN	complement component 1, r subcomponent	122	CUB 1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity				0					Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	CATTCTCCTCGTTGGAGAAGT	0.552													10	12					0	0	1	0	0		A	7242710	A	A	7242710	2	1	190	1	0	0	0	0	0	0	0	1	1975	1136	40	1		1	C1R	12	7242710	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	156141	7242710	126609185	856	95009											
FOXJ2	55810	broad.mit.edu	37	chr12	8200544	8200544	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgtatcagcagcagcagcCaccgccacctcaacagcagc	12	4	8	17	1	2	0	2	0	0	0	2	0	2	0	4	0	7	5	4	0	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:8200544C>A	uc001qtu.2	+	7	1969	c.884C>A	c.(883-885)CCA>CAA	p.P295Q	FOXJ2_uc001qtt.1_Missense_Mutation_p.P295Q	NM_018416	NP_060886	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	295	Poly-Pro.				embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	nucleolus|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				Kidney(36;0.0944)		cagcagcagccaccgccacct	0.458													6	54					0.0215528	0.0216689	1	1	0		A	8200544	A	A	8200544	3	1	190	1	0	0	0	0	1	0	0	0	6026	594	21	5	906	5	FOXJ2	12	8200544	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	957834	8200544	125651351	857	95010											
A2ML1	144568	broad.mit.edu	37	chr12	9004599	9004599	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttcaattacctaaaggaTtgcatcagggtgagagctgg	12	11	11	7	0	3	1	2	1	1	1	3	3	3	2	1	3	3	2	1	3	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:9004599T>C	uc001quz.3	+	19	2552	c.2454T>C	c.(2452-2454)GAT>GAC	p.D818D	A2ML1_uc001qva.1_Silent_p.D398D|A2ML1_uc010sgm.1_Silent_p.D318D	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	662						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						ACCTAAAGGATTGCATCAGGG	0.478													64	82					0	0	1	0	0		C	9004599	C	C	9004599	2	2	190	1	0	0	0	0	0	0	0	1	5	1490	52	3		3	A2ML1	12	9004599	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	804055	9004599	124847296	858	95011											
CSDA	8531	broad.mit.edu	37	chr12	10854623	10854623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggtaattgtagggacgcCggtatccacggcgaacagac	10	6	14	11	5	0	1	0	0	0	1	1	3	1	2	3	4	1	3	3	4	4	4	rs144824557		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:10854623C>T	uc001qyt.2	-	8	1232	c.989G>A	c.(988-990)CGG>CAG	p.R330Q	CSDA_uc001qyu.2_Missense_Mutation_p.R261Q	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	330					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					GTAGGGACGCCGGTATCCACG	0.572													11	142					0	0	1	0	0		T	10854623	T	T	10854623	3	4	190	1	0	0	0	0	1	0	0	0	3930	652	23	1	137	1	CSDA	12	10854623	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1850024	10854623	122997272	859	95012											
PLEKHA5	54477	broad.mit.edu	37	chr12	19427533	19427533	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtgctaattaaaccagagaTccaaaacaatcaaaaaaaca	23	6	4	8	0	1	1	1	0	0	1	2	2	2	1	2	0	4	1	2	0	9	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:19427533T>C	uc001reb.2	+	10	997	c.911T>C	c.(910-912)ATC>ACC	p.I304T	PLEKHA5_uc010sie.1_Missense_Mutation_p.I310T|PLEKHA5_uc001rea.2_Missense_Mutation_p.I304T|PLEKHA5_uc009zin.2_Missense_Mutation_p.I62T|PLEKHA5_uc010sif.1_Missense_Mutation_p.I196T|PLEKHA5_uc010sig.1_Missense_Mutation_p.I196T|PLEKHA5_uc010sih.1_Missense_Mutation_p.I196T|PLEKHA5_uc001rec.1_5'UTR	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	304							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					AAACCAGAGATCCAAAACAAT	0.343													22	36					0	0	1	0	0		C	19427533	C	C	19427533	3	2	190	1	0	0	0	0	1	0	0	0	12078	1435	50	3	949	3	PLEKHA5	12	19427533	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	8572910	19427533	114424362	860	95013											
RECQL	5965	broad.mit.edu	37	chr12	21644542	21644542	+	Missense_Mutation	SNP	A	G	G	1	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	actgctttattttctttgtcAggactttttttttctgaata	7	23	5	6	0	3	1	1	1	2	0	3	2	3	2	0	1	1	1	0	1	3	10			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:21644542A>G	uc001rex.2	-	4	473	c.125T>C	c.(124-126)CTG>CCG	p.L42P	RECQL_uc001rey.2_Missense_Mutation_p.L42P	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	42					DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						TTTCTTTGTCAGGACTTTTTT	0.378								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					20	27					0	0	1	0	0		G	21644542	G	G	21644542	3	3	190	1	0	0	0	0	1	0	0	0	13226	188	7	3	1876	3	RECQL	12	21644542	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2217009	21644542	112207353	861	95014											
KCNJ8	3764	broad.mit.edu	37	chr12	21926431	21926431	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgccaggttgcaggccccGctcttggcgatgaagcgggc	5	7	16	13	4	1	1	0	1	1	0	1	2	1	1	3	4	3	3	3	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:21926431G>A	uc001rff.2	-	2	458	c.120C>T	c.(118-120)AGC>AGT	p.S40S		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	40	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	TGCAGGCCCCGCTCTTGGCGA	0.622											OREG0021704	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	58					0	0	1	0	0		A	21926431	A	A	21926431	2	1	190	1	0	0	0	0	0	0	0	1	8072	1078	38	1		1	KCNJ8	12	21926431	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	281889	21926431	111925464	862	95015											
ITPR2	3709	broad.mit.edu	37	chr12	26749969	26749969	+	Silent	SNP	A	G	G	1	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	taggctaaggggccactctcAtcccctcggtctctctctga	6	11	9	15	1	3	1	1	1	3	0	8	1	4	1	3	4	0	1	3	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:26749969A>G	uc001rhg.2	-	31	4518	c.4101T>C	c.(4099-4101)GAT>GAC	p.D1367D		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1367	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					GGCCACTCTCATCCCCTCGGT	0.463													54	67					0	0	1	0	0		G	26749969	G	G	26749969	2	3	190	1	0	0	0	0	0	0	0	1	7937	214	8	3		3	ITPR2	12	26749969	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	4823538	26749969	107101926	863	95016											
FGFR1OP2	26127	broad.mit.edu	37	chr12	27113510	27113510	+	Silent	SNP	T	C	C	0	1	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	gatgcatctcgacacatcctTgaagcacctcaacatggact	12	9	7	13	1	2	1	1	1	1	0	4	4	3	2	2	1	3	2	2	1	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:27113510T>C	uc001rhm.2	+	5	801	c.459T>C	c.(457-459)CTT>CTC	p.L153L	FGFR1OP2_uc001rhl.2_Silent_p.L153L|FGFR1OP2_uc001rhn.2_Intron	NM_015633	NP_056448	Q9NVK5	FGOP2_HUMAN	FGFR1 oncogene partner 2	153						cytoplasm					0	Colorectal(261;0.0847)					GACACATCCTTGAAGCACCTC	0.423													30	30					0	0	1	0	0		C	27113510	C	C	27113510	2	2	190	1	0	0	0	0	0	0	0	1	5879	1799	63	3		3	FGFR1OP2	12	27113510	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	363541	27113510	106738385	864	95017											
PPFIBP1	8496	broad.mit.edu	37	chr12	27824371	27824371	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattacattacagttccataCtaccatcttgcaagtttcca	13	14	3	11	0	1	0	0	0	1	0	3	0	3	0	3	0	5	3	3	0	6	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:27824371C>G	uc001ric.1	+	14	1582	c.1205C>G	c.(1204-1206)ACT>AGT	p.T402S	PPFIBP1_uc010sjr.1_Missense_Mutation_p.T233S|PPFIBP1_uc001rib.1_Missense_Mutation_p.T385S|PPFIBP1_uc001ria.2_Missense_Mutation_p.T371S|PPFIBP1_uc001rid.1_Missense_Mutation_p.T249S	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	402	Potential.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					CAGTTCCATACTACCATCTTG	0.323													23	34					0	0	1	0	0		G	27824371	G	G	27824371	3	3	190	1	0	0	0	0	1	0	0	0	12332	565	20	5	1242	5	PPFIBP1	12	27824371	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	710861	27824371	106027524	865	95018											
C12orf40	283461	broad.mit.edu	37	chr12	40020151	40020151	+	Frame_Shift_Del	DEL	G	-	-																															ttgggaagatgaattgggtcGgggggtcccggtaagttgtg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:40020151delG	uc001rmc.2	+	1	180	c.13delG	c.(13-15)GGGfs	p.G5fs	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	5										ovary(6)	6						GAATTGGGTCGGGGGGTCCCG	0.542													9	16	---	---	---	---						.	-	40020151	-	-	40020151	7	5	190	1	0	1	0	1	0	0	0	0	1689	1116	39	0	15	0	C12orf40	12	40020151	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	12195780	40020151	93831744	866	95019											
LRRK2	120892	broad.mit.edu	37	chr12	40728880	40728880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccaagggttccttggatCgcctgcttcagcaggacaaa	9	9	10	13	1	1	0	1	0	0	0	4	2	3	2	4	3	2	3	4	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:40728880C>T	uc001rmg.3	+	40	5990	c.5869C>T	c.(5869-5871)CGC>TGC	p.R1957C	LRRK2_uc009zjw.2_Missense_Mutation_p.R795C|LRRK2_uc001rmi.2_Missense_Mutation_p.R790C	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1957	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding	p.R1957C(1)|p.R1964C(1)		ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				TTCCTTGGATCGCCTGCTTCA	0.527													4	52					0	0	1	0	0		T	40728880	T	T	40728880	3	4	190	1	0	0	0	0	1	0	0	0	9051	884	31	1	6027	1	LRRK2	12	40728880	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	708729	40728880	93123015	867	95020											
TWF1	5756	broad.mit.edu	37	chr12	44193205	44193205	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtagttgtaacttacctcaTtgattttaatctgtcgtagt	9	19	7	6	1	2	1	1	1	1	0	3	1	2	1	1	0	2	4	1	0	5	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:44193205T>A	uc001rob.2	-	5	609	c.581A>T	c.(580-582)AAT>ATT	p.N194I	TWF1_uc001rnz.2_Missense_Mutation_p.N62I|TWF1_uc001roa.2_Missense_Mutation_p.N194I|TWF1_uc001roc.2_Missense_Mutation_p.N62I	NM_002822	NP_002813	Q12792	TWF1_HUMAN	twinfilin 1	160						actin cytoskeleton|cytoplasm	actin binding|protein tyrosine kinase activity			stomach(1)	1	all_cancers(12;0.00125)	Lung NSC(34;0.0804)|all_lung(34;0.181)		GBM - Glioblastoma multiforme(48;0.0474)		ACTTACCTCATTGATTTTAAT	0.338													12	9					0	0	1	0	0		A	44193205	A	A	44193205	3	1	190	1	0	0	0	0	1	0	0	0	16807	1493	52	5	593	5	TWF1	12	44193205	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3464325	44193205	89658690	868	95021											
ARID2	196528	broad.mit.edu	37	chr12	46215264	46215264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagaagactgatagagacttCgttaaggtaaatcattttaa	16	12	9	4	1	1	4	1	1	0	3	2	6	1	4	0	1	0	2	0	1	6	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:46215264C>T	uc001ros.1	+	6	699	c.699C>T	c.(697-699)TTC>TTT	p.F233F	ARID2_uc001ror.2_Silent_p.F233F	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	233					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		ATAGAGACTTCGTTAAGGTAA	0.284													81	20					0	0	1	0	0		T	46215264	T	T	46215264	2	4	190	1	0	0	0	0	0	0	0	1	915	883	31	1		1	ARID2	12	46215264	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2022059	46215264	87636631	869	95022											
VDR	7421	broad.mit.edu	37	chr12	48272749	48272749	+	Splice_Site	SNP	A	G	G	1	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	agagcctgggaggagggctcAcctgaagaagcctttgcagc	10	6	15	10	0	1	3	1	1	0	2	1	5	1	5	3	3	4	2	3	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:48272749A>G	uc001rqm.2	-	4	428	c.146_splice	c.e4+1	p.R49_splice	VDR_uc001rql.2_Splice_Site_p.R99_splice|VDR_uc001rqn.2_Splice_Site_p.R49_splice|VDR_uc010slq.1_5'UTR	NM_001017535	NP_001017535	P11473	VDR_HUMAN	vitamin D (1,25-dihydroxyvitamin D3) receptor						decidualization|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of vitamin D 24-hydroxylase activity|regulation of calcidiol 1-monooxygenase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	retinoid X receptor binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|vitamin D3 receptor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Acute lymphoblastic leukemia(13;0.109)|all_hematologic(14;0.214)		GBM - Glioblastoma multiforme(48;0.17)	Calcidiol(DB00146)|Calcipotriol(DB02300)|Calcitriol(DB00136)|Dihydrotachysterol(DB01070)|Ergocalciferol(DB00153)|Paricalcitol(DB00910)	AGGAGGGCTCACCTGAAGAAG	0.552													16	19					0	0	1	0	0		G	48272749	G	G	48272749	5	3	190	1	0	0	0	0	0	0	1	0	17175	173	6	3	1167	3	VDR	12	48272749	Splice_Site	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2057485	48272749	85579146	870	95023											
COL2A1	1280	broad.mit.edu	37	chr12	48380862	48380862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcactttgggctcttaccGtctgacctttcgggcccaga	5	12	11	13	2	3	2	1	1	2	1	4	2	3	2	3	3	1	1	3	3	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:48380862G>A	uc001rqu.2	-	21	1545	c.1364C>T	c.(1363-1365)ACG>ATG	p.T455M	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.T386M	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	455	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGCTCTTACCGTCTGACCTTT	0.632													32	48					0	0	1	0	0		A	48380862	A	A	48380862	3	1	190	1	0	0	0	0	1	0	0	0	3690	1159	40	1	3235	1	COL2A1	12	48380862	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	108113	48380862	85471033	871	95024											
COL2A1	1280	broad.mit.edu	37	chr12	48391482	48391483	+	Frame_Shift_Ins	INS	-	G	G																															catctctgccacgaggtccaINSggggcacccttggcataaag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:48391482_48391483insG	uc001rqu.2	-	7	618_619	c.437_438insC	c.(436-438)CCTfs	p.P146fs	COL2A1_uc001rqv.2_Frame_Shift_Ins_p.P77fs	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	146					axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	CACGAGGTCCAGGGGCACCCTT	0.416													102	27	---	---	---	---						.	G	48391483	G	G	48391482	7	5	190	1	0	1	1	0	0	0	0	0	3690	175	7	0	4217	0	COL2A1	12	48391482	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	10620	48391482	85460413	872	95025											
WNT1	7471	broad.mit.edu	37	chr12	49374348	49374348	+	Frame_Shift_Del	DEL	G	-	-																															cgggggccccgactggcactGggggggctgcagcgacaaca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:49374348delG	uc001rsu.2	+	3	698	c.500delG	c.(499-501)TGGfs	p.W167fs		NM_005430	NP_005421	P04628	WNT1_HUMAN	wingless-type MMTV integration site family,	167					brain segmentation|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|central nervous system morphogenesis|cerebellum formation|dermatome development|diencephalon development|embryonic axis specification|forebrain anterior/posterior pattern formation|fourth ventricle development|hemopoietic stem cell proliferation|hepatocyte differentiation|inner ear morphogenesis|mesoderm morphogenesis|midbrain development|midbrain-hindbrain boundary maturation during brain development|negative regulation of cell-cell adhesion|negative regulation of cell-substrate adhesion|negative regulation of DNA damage checkpoint|negative regulation of fat cell differentiation|neuron fate determination|positive regulation of fibroblast proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of lamellipodium assembly|positive regulation of Notch signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to wounding|signal transduction in response to DNA damage|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled-2 binding|transcription regulatory region DNA binding			kidney(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.244)		gACTGGCACTGGGGGGGCTGC	0.552													9	5	---	---	---	---						.	-	49374348	-	-	49374348	7	5	190	1	0	1	0	1	0	0	0	0	17407	1357	47	0	510	0	WNT1	12	49374348	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	982866	49374348	84477547	873	95026											
MLL2	8085	broad.mit.edu	37	chr12	49445674	49445674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaaatggtgggaacagacGagatgcctccggtggtggag	10	8	16	7	2	1	2	1	0	0	2	2	5	2	4	2	5	2	0	2	5	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:49445674G>A	uc001rta.3	-	10	1792	c.1792C>T	c.(1792-1794)CGT>TGT	p.R598C		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	598	15 X 5 AA repeats of S/P-P-P-E/P-E/A.|Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGGAACAGACGAGATGCCTCC	0.612			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			84	12					0	0	1	0	0		A	49445674	A	A	49445674	3	1	190	1	0	0	0	0	1	0	0	0	9639	1058	37	1	15001	1	MLL2	12	49445674	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	71326	49445674	84406221	874	95027											
ACVR1B	91	broad.mit.edu	37	chr12	52380676	52380676	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaaatgtgctgatatttAtgccctcgggcttgtatatt	8	18	8	7	1	0	1	0	1	0	0	1	1	0	1	1	1	2	3	1	1	6	9			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:52380676A>G	uc001rzn.2	+	7	1253	c.1211A>G	c.(1210-1212)TAT>TGT	p.Y404C	ACVR1B_uc001rzl.2_Missense_Mutation_p.Y404C|ACVR1B_uc001rzm.2_Missense_Mutation_p.Y404C|ACVR1B_uc010snn.1_Missense_Mutation_p.Y445C	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	404	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	GCTGATATTTATGCCCTCGGG	0.418													88	17					0	0	1	0	0		G	52380676	G	G	52380676	3	3	190	1	0	0	0	0	1	0	0	0	221	449	16	3	1364	3	ACVR1B	12	52380676	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2935002	52380676	81471219	875	95028											
NR4A1	3164	broad.mit.edu	37	chr12	52452493	52452493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcatgggctgcaggagcCgcggcgggtggaggagctgc	5	4	21	11	4	0	0	0	0	0	0	0	3	0	3	2	7	4	4	2	7	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:52452493C>T	uc001rzs.2	+	8	1876	c.1562C>T	c.(1561-1563)CCG>CTG	p.P521L	NR4A1_uc010sno.1_Missense_Mutation_p.P534L|NR4A1_uc001rzt.2_Missense_Mutation_p.P521L|NR4A1_uc009zmc.2_Missense_Mutation_p.R135C	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	521					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		CTGCAGGAGCCGCGGCGGGTG	0.672													3	12					0	0	1	0	0		T	52452493	T	T	52452493	3	4	190	1	0	0	0	0	1	0	0	0	10651	652	23	1	1584	1	NR4A1	12	52452493	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	71817	52452493	81399402	876	95029											
AMHR2	269	broad.mit.edu	37	chr12	53819659	53819659	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccgggggggtcctggcCgcctgctctctgggcccctg	1	7	16	17	2	1	0	0	0	1	0	3	0	2	0	7	5	2	1	7	5	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:53819659C>T	uc001scx.1	+	6	886	c.808C>T	c.(808-810)CGC>TGC	p.R270C	AMHR2_uc009zmy.1_Missense_Mutation_p.R270C	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	270	Cytoplasmic (Potential).|Protein kinase.				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	GGGTCCTGGCCGCCTGCTCTC	0.483									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				48	8					0	0	1	0	0		T	53819659	T	T	53819659	3	4	190	1	0	0	0	0	1	0	0	0	573	652	23	1	830	1	AMHR2	12	53819659	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1367166	53819659	80032236	877	95030											
MAP3K12	7786	broad.mit.edu	37	chr12	53876800	53876800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggggtggcacagctgtaCgaagcccaggcaggtcccca	9	5	14	13	1	0	0	0	0	0	0	1	1	1	0	3	5	3	4	3	5	2	1	rs143743852		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:53876800C>T	uc001sdm.1	-	12	1786	c.1688G>A	c.(1687-1689)CGT>CAT	p.R563H	MAP3K12_uc001sdn.1_Missense_Mutation_p.R596H	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	563					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						CACAGCTGTACGAAGCCCAGG	0.706													30	9					0	0	1	0	0		T	53876800	T	T	53876800	3	4	190	1	0	0	0	0	1	0	0	0	9264	536	19	1	907	1	MAP3K12	12	53876800	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	57141	53876800	79975095	878	95031											
OR6C70	390327	broad.mit.edu	37	chr12	55863642	55863642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaacaactgagatatgcaaCcattacaggaaatggtcttt	17	10	7	7	0	1	1	0	1	1	1	1	3	1	2	1	2	5	1	1	2	7	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:55863642C>T	uc010spn.1	-	1	281	c.281G>A	c.(280-282)GGT>GAT	p.G94D		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						AGATATGCAACCATTACAGGA	0.393													70	10					0	0	1	0	0		T	55863642	T	T	55863642	3	4	190	1	0	0	0	0	1	0	0	0	11216	507	18	4	659	4	OR6C70	12	55863642	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1986842	55863642	77988253	879	95032											
RNF41	10193	broad.mit.edu	37	chr12	56604256	56604256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggtactgggcgcagatgggCgaccgtcacaacactacggt	10	6	14	11	4	1	1	1	0	0	1	1	2	1	1	1	4	3	2	1	4	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:56604256C>T	uc001skf.1	-	4	556	c.187G>A	c.(187-189)GCC>ACC	p.A63T	RNF41_uc001ske.1_5'UTR|RNF41_uc001skg.1_Missense_Mutation_p.A63T|RNF41_uc010sqg.1_Intron|RNF41_uc010sqh.1_5'UTR|RNF41_uc001skh.2_Missense_Mutation_p.A76T	NM_005785	NP_005776	Q9H4P4	RNF41_HUMAN	ring finger protein 41 isoform 1	63					apoptosis|induction of apoptosis|protein polyubiquitination|regulation of reactive oxygen species metabolic process		protein binding|protein tag|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1						CGCAGATGGGCGACCGTCACA	0.552													33	12					0	0	1	0	0		T	56604256	T	T	56604256	3	4	190	1	0	0	0	0	1	0	0	0	13519	768	27	1	782	1	RNF41	12	56604256	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	740614	56604256	77247639	880	95033											
STAC3	246329	broad.mit.edu	37	chr12	57637988	57637988	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtttggagggaaaaatccGaccttctccccgattttccc	10	11	8	12	2	1	0	0	0	1	0	4	4	3	2	5	2	0	1	5	2	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:57637988G>A	uc001snp.2	-	11	1074	c.879C>T	c.(877-879)GTC>GTT	p.V293V	STAC3_uc009zpl.2_Missense_Mutation_p.R11W|STAC3_uc001snq.2_Silent_p.V254V|STAC3_uc010srm.1_Silent_p.V107V	NM_145064	NP_659501	Q96MF2	STAC3_HUMAN	SH3 and cysteine rich domain 3	293	SH3 1.				intracellular signal transduction		identical protein binding|metal ion binding			ovary(2)|skin(1)	3						GGAAAAATCCGACCTTCTCCC	0.557											OREG0021942	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	49	8					0	0	1	0	0		A	57637988	A	A	57637988	2	1	190	1	0	0	0	0	0	0	0	1	15266	1045	37	1		1	STAC3	12	57637988	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1033732	57637988	76213907	881	95034											
GLI1	2735	broad.mit.edu	37	chr12	57865760	57865760	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cataccccacctccctctggGccccccaacatggctgtggg	6	7	9	19	0	1	0	0	0	1	0	2	0	2	0	7	3	2	1	7	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:57865760G>C	uc001snx.2	+	12	3315	c.3237G>C	c.(3235-3237)GGG>GGC	p.G1079G	GLI1_uc009zpq.2_Silent_p.G951G	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	1079					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			CTCCCTCTGGGCCCCCCAACA	0.557													85	13					0	0	1	0	0		C	57865760	C	C	57865760	2	2	190	1	0	0	0	0	0	0	0	1	6452	1190	42	5		5	GLI1	12	57865760	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	227772	57865760	75986135	882	95035											
FAM119B	25895	broad.mit.edu	37	chr12	58174093	58174093	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagaacagatccagggcaaCgtccaggccaatgtgccagc	12	5	11	13	1	0	2	0	0	0	2	2	2	2	2	4	2	4	1	4	2	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:58174093C>T	uc001sqg.2	+	3	470	c.345C>T	c.(343-345)AAC>AAT	p.N115N	FAM119B_uc001sqf.2_3'UTR|FAM119B_uc009zqd.2_RNA|TSFM_uc001sqi.2_5'Flank|TSFM_uc010sse.1_5'Flank|TSFM_uc001sqh.2_5'Flank|TSFM_uc010ssf.1_5'Flank	NM_015433	NP_056248	Q96AZ1	MT21B_HUMAN	hypothetical protein LOC25895 isoform a	115						integral to membrane|intracellular	methyltransferase activity				0	all_cancers(7;9.07e-82)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TCCAGGGCAACGTCCAGGCCA	0.582													46	9					0	0	1	0	0		T	58174093	T	T	58174093	2	4	190	1	0	0	0	0	0	0	0	1	5425	535	19	1		1	FAM119B	12	58174093	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	308333	58174093	75677802	883	95036											
AVPR1A	552	broad.mit.edu	37	chr12	63541343	63541343	+	Frame_Shift_Del	DEL	A	-	-																															tcttgaaggagatggccactAaaaaacatgtatatccaggg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:63541343delA	uc001sro.1	-	2	3027	c.1053delT	c.(1051-1053)TTTfs	p.F351fs		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	351	Helical; Name=7; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	GATGGCCACTAAAAAACATGT	0.398													108	23	---	---	---	---						.	-	63541343	-	-	63541343	7	5	190	1	0	1	0	1	0	0	0	0	1232	359	13	0	207	0	AVPR1A	12	63541343	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	5367250	63541343	70310552	884	95037											
KCNMB4	27345	broad.mit.edu	37	chr12	70760700	70760700	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgctgtcggtgcagcagatCggcgaggtgttcgagtgcac	6	9	17	9	4	0	1	0	0	0	1	3	3	0	1	0	3	4	5	0	3	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:70760700C>T	uc001svx.2	+	1	639	c.186C>T	c.(184-186)ATC>ATT	p.I62I		NM_014505	NP_055320	Q86W47	KCMB4_HUMAN	calcium-activated potassium channel beta 4	62	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of neurotransmitter secretion|regulation of vasoconstriction|synaptic transmission	voltage-gated potassium channel complex	calcium-activated potassium channel activity|protein binding				0	Renal(347;0.236)		Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			TGCAGCAGATCGGCGAGGTGT	0.617													33	30					0	0	1	0	0		T	70760700	T	T	70760700	2	4	190	1	0	0	0	0	0	0	0	1	8093	874	31	1		1	KCNMB4	12	70760700	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	7219357	70760700	63091195	885	95038											
PTPRB	5787	broad.mit.edu	37	chr12	70960486	70960486	+	Splice_Site	SNP	T	C	C	0	1	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	ccttggacagatgctggaacTgcagagagacaagtggagca	13	6	14	8	0	0	3	0	0	0	3	0	7	0	6	1	3	4	3	1	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:70960486T>C	uc001swb.3	-	13	3011	c.2981_splice	c.e13-1	p.V994_splice	PTPRB_uc010sto.1_Intron|PTPRB_uc010stp.1_Splice_Site_p.V904_splice|PTPRB_uc001swc.3_Splice_Site_p.V1212_splice|PTPRB_uc001swa.3_Splice_Site_p.V1124_splice|PTPRB_uc001swd.3_Splice_Site_p.V1211_splice|PTPRB_uc009zrr.1_Splice_Site_p.V1091_splice	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B						angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			ATGCTGGAACTGCAGAGAGAC	0.398													5	72					0	0	1	0	0		C	70960486	C	C	70960486	5	2	190	1	0	0	0	0	0	0	1	0	12821	1594	55	3	3094	3	PTPRB	12	70960486	Splice_Site	SNP	T	TCGA-F1-6177-01A-11D-1800-08	199786	70960486	62891409	886	95039											
CEP290	80184	broad.mit.edu	37	chr12	88480176	88480176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatcattcataccttttgtgCcgcatttagtatttcatttt	9	20	4	8	1	3	0	3	0	0	0	3	0	3	0	2	0	2	2	2	0	4	10			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:88480176C>T	uc001tar.2	-	33	4638	c.4294G>A	c.(4294-4296)GCA>ACA	p.A1432T	CEP290_uc001taq.2_Missense_Mutation_p.A492T	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	1432	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						ACCTTTTGTGCCGCATTTAGT	0.358													8	0					0	0	1	0	0		T	88480176	T	T	88480176	3	4	190	1	0	0	0	0	1	0	0	0	3256	739	26	2	3233	2	CEP290	12	88480176	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	17519690	88480176	45371719	887	95040											
EEA1	8411	broad.mit.edu	37	chr12	93170683	93170683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtacttcattgtcttcGgcccactttctattcaacgc	6	18	5	12	2	4	0	2	0	2	0	5	0	4	0	1	1	2	1	1	1	3	9	rs142495165		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:93170683G>A	uc001tck.2	-	28	4315	c.4050C>T	c.(4048-4050)GCC>GCT	p.A1350A		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	1350					early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						CATTGTCTTCGGCCCACTTTC	0.328													102	23					0	0	1	0	0		A	93170683	A	A	93170683	2	1	190	1	0	0	0	0	0	0	0	1	4927	1103	39	1		1	EEA1	12	93170683	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4690507	93170683	40681212	888	95041											
PLXNC1	10154	broad.mit.edu	37	chr12	94653399	94653401	+	In_Frame_Del	DEL	ACG	-	-																															ttatcagaacagagacgccaAcgacaagaatgaaagtctca																								rs114497004	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:94653399_94653401delACG	uc001tdc.2	+	19	3389_3391	c.3140_3142delACG	c.(3139-3144)AACGAC>AAC	p.D1048del	PLXNC1_uc010sut.1_In_Frame_Del_p.D95del|PLXNC1_uc009zsv.2_5'Flank	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1048	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AGAGACGCCAACGACAAGAATGA	0.335													17	24	---	---	---	---						.	-	94653401	-	-	94653399	7	5	190	1	0	1	0	1	0	0	0	0	12145	43	2	0	3214	0	PLXNC1	12	94653399	In_Frame_Del	DEL	ACG	TCGA-F1-6177-01A-11D-1800-08	1482716	94653399	39198496	889	95042											
STAB2	55576	broad.mit.edu	37	chr12	104048390	104048390	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaggtaaaaattatacaaGgggacatcattgcttccaat	17	10	8	6	0	1	1	1	0	0	1	2	2	2	2	1	3	2	2	1	3	8	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:104048390G>T	uc001tjw.2	+	13	1651	c.1465G>T	c.(1465-1467)GGG>TGG	p.G489W		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	489	Extracellular (Potential).|FAS1 1.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						AATTATACAAGGGGACATCAT	0.358													29	40					1.12875e-08	1.17848e-08	1	1	0		T	104048390	T	T	104048390	3	4	190	1	0	0	0	0	1	0	0	0	15263	1000	35	5	1515	5	STAB2	12	104048390	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	9394991	104048390	29803505	890	95043											
EID3	493861	broad.mit.edu	37	chr12	104698248	104698248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttcattcaagctagaacGttctgcaccaaagccccgac	11	9	8	13	2	3	1	2	0	1	1	3	2	3	1	3	1	4	4	3	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:104698248G>A	uc001tkw.2	+	1	700	c.536G>A	c.(535-537)CGT>CAT	p.R179H	TXNRD1_uc010swk.1_Intron|TXNRD1_uc010swl.1_Intron|TXNRD1_uc010swm.1_Intron|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_Intron|TXNRD1_uc010swq.1_Intron|TXNRD1_uc001tku.2_Intron|TXNRD1_uc001tko.1_Intron|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_Intron	NM_001008394	NP_001008395	Q8N140	EID3_HUMAN	EP300 interacting inhibitor of differentiation	179					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0						AAGCTAGAACGTTCTGCACCA	0.423													73	90					0	0	1	0	0		A	104698248	A	A	104698248	3	1	190	1	0	0	0	0	1	0	0	0	4995	1145	40	1	538	1	EID3	12	104698248	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	649858	104698248	29153647	891	95044											
SSH1	54434	broad.mit.edu	37	chr12	109201572	109201572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgtgcctccgggccacttCgcaggccttgtgaagcacct	5	10	12	14	2	0	1	0	1	0	0	2	1	1	1	5	2	2	3	5	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:109201572C>T	uc001tnm.2	-	8	655	c.568G>A	c.(568-570)GAA>AAA	p.E190K	SSH1_uc001tnl.2_5'Flank|SSH1_uc010sxg.1_Missense_Mutation_p.E201K|SSH1_uc001tnn.3_Missense_Mutation_p.E190K|SSH1_uc001tno.1_Missense_Mutation_p.E94K	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	190					actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						CGGGCCACTTCGCAGGCCTTG	0.592													40	6					0	0	1	0	0		T	109201572	T	T	109201572	3	4	190	1	0	0	0	0	1	0	0	0	15209	893	31	1	2799	1	SSH1	12	109201572	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4503324	109201572	24650323	892	95045											
DAO	1610	broad.mit.edu	37	chr12	109293174	109293174	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcaagaattattggtgaaCgaactggcttccggccagta	12	10	11	8	2	0	2	0	1	0	1	1	3	1	2	2	3	3	3	2	3	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:109293174C>T	uc001tnr.3	+	10	988	c.835C>T	c.(835-837)CGA>TGA	p.R279*	DAO_uc001tnq.3_Nonsense_Mutation_p.R213*|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	279				R -> A (in Ref. 1; CAA31614).	glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						TATTGGTGAACGAACTGGCTT	0.458													27	6					0	0	1	0	0		T	109293174	T	T	109293174	4	4	190	1	0	0	0	0	0	1	0	0	4234	528	19	1	869	1	DAO	12	109293174	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	91602	109293174	24558721	893	95046											
TRPV4	59341	broad.mit.edu	37	chr12	110221457	110221458	+	Frame_Shift_Ins	INS	-	G	G																															gtcatcagtcctccacttgcINSgggggtaaccctgctggtgg																								rs149267166		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:110221457_110221458insG	uc001tpj.1	-	15	2679_2680	c.2584_2585insC	c.(2584-2586)CGCfs	p.R862fs	TRPV4_uc001tpg.1_Frame_Shift_Ins_p.R828fs|TRPV4_uc001tph.1_Frame_Shift_Ins_p.R815fs|TRPV4_uc001tpi.1_Frame_Shift_Ins_p.R755fs|TRPV4_uc001tpk.1_Frame_Shift_Ins_p.R862fs|TRPV4_uc001tpl.1_Frame_Shift_Ins_p.R802fs	NM_021625	NP_067638	Q9HBA0	TRPV4_HUMAN	transient receptor potential cation channel,	862	Cytoplasmic (Potential).				actin cytoskeleton reorganization|actin filament organization|calcium ion import|cell death|cell volume homeostasis|cell-cell junction assembly|cellular hypotonic response|cortical microtubule organization|elevation of cytosolic calcium ion concentration|microtubule polymerization|negative regulation of neuron projection development|osmosensory signaling pathway|positive regulation of microtubule depolymerization|response to mechanical stimulus	cortical actin cytoskeleton|filopodium|focal adhesion|growth cone|integral to membrane|lamellipodium|ruffle membrane	actin filament binding|alpha-tubulin binding|beta-tubulin binding|calcium channel activity|calmodulin binding|microtubule binding|protein binding|protein kinase C binding|SH2 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						CCTCCACTTGCGGGGGTAACCC	0.624													12	23	---	---	---	---						.	G	110221458	G	G	110221457	7	5	190	1	0	1	1	0	0	0	0	0	16624	768	27	0	34	0	TRPV4	12	110221457	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	928283	110221457	23630438	894	95047											
NAA25	80018	broad.mit.edu	37	chr12	112485489	112485490	+	Frame_Shift_Ins	INS	-	A	A																															tgtcttttggatcccagctgINSaaaaaaacatttaagtctct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:112485489_112485490insA	uc001ttm.2	-	17	2005_2006	c.1985_1986insT	c.(1984-1986)TTCfs	p.F662fs	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Frame_Shift_Ins_p.F634fs|NAA25_uc009zwa.1_Frame_Shift_Ins_p.F662fs	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	662						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						GATCCCAGCTGAAAAAAACATT	0.327													92	164	---	---	---	---						.	A	112485490	A	A	112485489	7	5	190	1	0	1	1	0	0	0	0	0	10139	1281	45	0	964	0	NAA25	12	112485489	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	2264032	112485489	21366406	895	95048											
C12orf51	283450	broad.mit.edu	37	chr12	112673511	112673511	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaggactagctttggagacGggcgttggtcaagcagcagg	10	8	16	7	2	1	1	1	0	0	1	1	3	1	2	0	5	3	4	0	5	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:112673511G>T	uc009zwc.2	-	29	4274	c.4256C>A	c.(4255-4257)CCG>CAG	p.P1419Q		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CTTTGGAGACGGGCGTTGGTC	0.562													17	18					1.99824e-07	2.06747e-07	1	1	0		T	112673511	T	T	112673511	3	4	190	1	0	0	0	0	1	0	0	0	1699	1116	39	5	7898	5	C12orf51	12	112673511	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	188022	112673511	21178384	896	95049											
RPH3A	22895	broad.mit.edu	37	chr12	113321126	113321126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttcgtacaaaaactctgcGgaatacccggaaccccatct	12	8	7	14	3	2	0	0	0	2	0	3	2	2	2	3	2	5	2	3	2	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:113321126G>A	uc010syl.1	+	16	1717	c.1355G>A	c.(1354-1356)CGG>CAG	p.R452Q	RPH3A_uc001ttz.2_Missense_Mutation_p.R452Q|RPH3A_uc001tty.2_Missense_Mutation_p.R448Q|RPH3A_uc009zwe.1_Missense_Mutation_p.R448Q|RPH3A_uc010sym.1_Missense_Mutation_p.R403Q|RPH3A_uc001tua.2_Missense_Mutation_p.R212Q	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	452	C2 1.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding	p.R448Q(1)		ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		AAAACTCTGCGGAATACCCGG	0.562													25	3					0	0	1	0	0		A	113321126	A	A	113321126	3	1	190	1	0	0	0	0	1	0	0	0	13576	1116	39	1	1409	1	RPH3A	12	113321126	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	647615	113321126	20530769	897	95050											
OAS3	4940	broad.mit.edu	37	chr12	113405771	113405771	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccaaggggagaggctccCtacccccacagcacgggctg	8	5	12	16	1	1	1	0	0	1	1	3	2	2	1	4	4	2	3	4	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:113405771C>A	uc001tug.2	+	14	2983	c.2896C>A	c.(2896-2898)CTA>ATA	p.L966I		NM_006187	NP_006178	Q9Y6K5	OAS3_HUMAN	2'-5'oligoadenylate synthetase 3	966	OAS domain 3.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	microsome	ATP binding|nucleotidyltransferase activity|RNA binding			central_nervous_system(1)	1						GAGAGGCTCCCTACCCCCACA	0.547													24	32					3.85864e-22	4.16555e-22	1	1	0		A	113405771	A	A	113405771	3	1	190	1	0	0	0	0	1	0	0	0	10820	680	24	5	2950	5	OAS3	12	113405771	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	84645	113405771	20446124	898	95051											
WSB2	55884	broad.mit.edu	37	chr12	118480690	118480690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagtcttatcccgtgacGcggagaccaaaatcaaactg	14	7	10	10	3	2	3	1	1	1	2	3	5	3	3	2	1	1	0	2	1	5	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:118480690G>A	uc001twr.2	-	4	613	c.515C>T	c.(514-516)GCG>GTG	p.A172V	WSB2_uc010sza.1_5'UTR|WSB2_uc010szb.1_Intron|WSB2_uc009zws.1_Missense_Mutation_p.A172V	NM_018639	NP_061109	Q9NYS7	WSB2_HUMAN	WD SOCS-box protein 2	172	WD 2.				intracellular signal transduction					ovary(1)	1	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ATCCCGTGACGCGGAGACCAA	0.498													54	81					0	0	1	0	0		A	118480690	A	A	118480690	3	1	190	1	0	0	0	0	1	0	0	0	17431	1087	38	1	723	1	WSB2	12	118480690	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5074919	118480690	15371205	899	95052											
CIT	11113	broad.mit.edu	37	chr12	120150099	120150099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcaagtagagggttctccCgggccagcaggtggtgtgcg	7	8	17	9	2	1	1	0	0	1	1	2	1	1	1	2	4	3	4	2	4	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:120150099C>T	uc001txi.1	-	36	4665	c.4612G>A	c.(4612-4614)GGG>AGG	p.G1538R	CIT_uc001txh.1_Missense_Mutation_p.G1057R|CIT_uc001txj.1_Missense_Mutation_p.G1580R	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1538	PH.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		AGGGTTCTCCCGGGCCAGCAG	0.537													126	136					0	0	1	0	0		T	120150099	T	T	120150099	3	4	190	1	0	0	0	0	1	0	0	0	3441	652	23	1	1519	1	CIT	12	120150099	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1669409	120150099	13701796	900	95053											
RNF10	9921	broad.mit.edu	37	chr12	121013442	121013442	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccactttggcagatgctgagGgttggaaaagcaaaagcaga	14	7	13	7	0	0	3	0	1	0	2	0	4	0	4	1	3	3	5	1	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:121013442G>T	uc001typ.3	+	15	2634	c.2151G>T	c.(2149-2151)AGG>AGT	p.R717S	RNF10_uc010szk.1_RNA|RNF10_uc001tyq.3_Missense_Mutation_p.R628S	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	717					negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					AGATGCTGAGGGTTGGAAAAG	0.478													81	11					7.63117e-38	8.3713e-38	1	1	0		T	121013442	T	T	121013442	3	4	190	1	0	0	0	0	1	0	0	0	13447	1223	43	5	2209	5	RNF10	12	121013442	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	863343	121013442	12838453	901	95054											
RNF34	80196	broad.mit.edu	37	chr12	121868063	121868063	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctcccctcccagagcccGccccgtatttacatacttat	7	12	4	18	2	1	1	0	0	1	1	4	1	3	1	6	0	3	1	6	0	4	5	rs111862260	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:121868063G>A	uc001uam.1	+	7	1404	c.1290G>A	c.(1288-1290)CCG>CCA	p.P430P	KDM2B_uc001uaq.2_Intron|KDM2B_uc010szy.1_3'UTR|KDM2B_uc001uar.2_Intron|KDM2B_uc001uas.2_Intron|KDM2B_uc001uat.2_3'UTR|KDM2B_uc001uau.2_3'UTR|KDM2B_uc001uao.2_Intron|KDM2B_uc010szx.1_3'UTR|KDM2B_uc001uap.2_Intron	NM_025126	NP_079402	Q969K3	RNF34_HUMAN	ring finger protein 34 isoform 2	Error:Variant_position_missing_in_Q969K3_after_alignment					apoptosis	endomembrane system|membrane|nuclear speck	ligase activity|zinc ion binding				0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000432)|Epithelial(86;0.00233)		CCCAGAGCCCGCCCCGTATTT	0.443													39	45					0	0	1	0	0		A	121868063	A	A	121868063	2	1	190	1	0	0	0	0	0	0	0	1	13514	1102	38	1		1	RNF34	12	121868063	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	854621	121868063	11983832	902	95055											
CLIP1	6249	broad.mit.edu	37	chr12	122757436	122757436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttcatcagaaggtttcgtCgtcattgcagttggtggccc	6	13	12	10	2	3	1	3	0	0	1	5	1	3	1	1	3	1	4	1	3	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:122757436C>T	uc001ucg.1	-	25	4409	c.4303G>A	c.(4303-4305)GAC>AAC	p.D1435N	CLIP1_uc001uch.1_Missense_Mutation_p.D1424N|CLIP1_uc001uci.1_Missense_Mutation_p.D1389N|CLIP1_uc001ucf.1_Missense_Mutation_p.D94N	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1435					mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		AAGGTTTCGTCGTCATTGCAG	0.542													76	14					0	0	1	0	0		T	122757436	T	T	122757436	3	4	190	1	0	0	0	0	1	0	0	0	3535	884	31	1	17	1	CLIP1	12	122757436	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	889373	122757436	11094459	903	95056											
DNAH10	196385	broad.mit.edu	37	chr12	124403311	124403311	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagcagccaggaggggggCcatcctgttcttcgtcctgt	5	9	14	13	1	1	0	0	0	1	0	4	1	3	1	5	4	2	2	5	4	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:124403311C>G	uc001uft.3	+	64	10992	c.10967C>G	c.(10966-10968)GCC>GGC	p.A3656G		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3656					microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		AGGAGGGGGGCCATCCTGTTC	0.562													24	3					0	0	1	0	0		G	124403311	G	G	124403311	3	3	190	1	0	0	0	0	1	0	0	0	4604	739	26	5	11221	5	DNAH10	12	124403311	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1645875	124403311	9448584	904	95057											
AACS	65985	broad.mit.edu	37	chr12	125618593	125618593	+	Frame_Shift_Del	DEL	G	-	-																															gcagaatcaaccccaagaccGggggcatcgtcatgcttggc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:125618593delG	uc001uhc.2	+	15	1800	c.1594delG	c.(1594-1596)GGGfs	p.G532fs	AACS_uc001uhd.2_Frame_Shift_Del_p.G532fs|AACS_uc009zyh.2_RNA|AACS_uc009zyi.2_Frame_Shift_Del_p.G130fs	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase	532					fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		CCCCAAGACCGGGGGCATCGT	0.617													16	15	---	---	---	---						.	-	125618593	-	-	125618593	7	5	190	1	0	1	0	1	0	0	0	0	9	1116	39	0	1652	0	AACS	12	125618593	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	1215282	125618593	8233302	905	95058											
EP400	57634	broad.mit.edu	37	chr12	132547132	132547132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcagcaGcagcaacagcagcagcagca	15	0	12	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	12	0	0	1	0	rs149369604	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:132547132G>A	uc001ujn.2	+	46	8255	c.8220G>A	c.(8218-8220)CAG>CAA	p.Q2740Q	EP400_uc001ujl.2_Silent_p.Q2739Q|EP400_uc001ujm.2_Silent_p.Q2659Q|EP400_uc001ujp.2_5'UTR	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2776	Poly-Gln.|Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		agcagcagcagcagcaacagc	0.313													5	45					0	0	1	0	0		A	132547132	A	A	132547132	2	1	190	1	0	0	0	0	0	0	0	1	5157	962	34	2		2	EP400	12	132547132	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6928539	132547132	1304763	906	95059											
GOLGA3	2802	broad.mit.edu	37	chr12	133384552	133384552	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggtcttggtgctcagcggctGcggcctggaggacgtcctta	4	10	16	11	3	2	0	1	0	1	0	3	2	3	2	2	6	3	2	2	6	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr12:133384552G>A	uc001ukz.1	-	5	1662	c.1103C>T	c.(1102-1104)GCA>GTA	p.A368V	GOLGA3_uc001ula.1_Missense_Mutation_p.A368V|GOLGA3_uc001ulb.2_Missense_Mutation_p.A368V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	368					intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CTCAGCGGCTGCGGCCTGGAG	0.622													61	15					0	0	1	0	0		A	133384552	A	A	133384552	3	1	190	1	0	0	0	0	1	0	0	0	6569	1319	46	2	3611	2	GOLGA3	12	133384552	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	837420	133384552	467343	907	95060											
SACS	26278	broad.mit.edu	37	chr13	23910913	23910913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caactgataaaggtatggtgCcgcctcaaaatttaaatgaa	16	10	8	7	1	1	2	1	2	0	0	1	2	1	2	2	2	2	1	2	2	9	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:23910913C>T	uc001uon.2	-	10	7691	c.7102G>A	c.(7102-7104)GCA>ACA	p.A2368T	SACS_uc001uoo.2_Missense_Mutation_p.A2221T|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2368					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AGGTATGGTGCCGCCTCAAAA	0.353													29	35					0	0	1	0	0		T	23910913	T	T	23910913	3	4	190	1	0	0	0	0	1	0	0	0	13829	739	26	2	6641	2	SACS	13	23910913	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		23910913	91258965	908	95061											
SACS	26278	broad.mit.edu	37	chr13	23911667	23911667	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactttgcaactcgtccttcGgggtggatcaatcttgatgg	8	13	11	9	2	2	1	1	1	1	0	5	2	3	2	1	4	3	1	1	4	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:23911667G>A	uc001uon.2	-	10	6937	c.6348C>T	c.(6346-6348)CCC>CCT	p.P2116P	SACS_uc001uoo.2_Silent_p.P1969P|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2116					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CTCGTCCTTCGGGGTGGATCA	0.393													29	39					0	0	1	0	0		A	23911667	A	A	23911667	2	1	190	1	0	0	0	0	0	0	0	1	13829	1103	39	1		1	SACS	13	23911667	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	754	23911667	91258211	909	95062											
RNF17	56163	broad.mit.edu	37	chr13	25374553	25374553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actctgctaagcaacatattGcactaaatgatttatgtctg	13	14	6	8	0	2	1	0	1	2	0	2	1	2	1	0	0	4	3	0	0	6	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:25374553G>A	uc001upr.2	+	13	1680	c.1639G>A	c.(1639-1641)GCA>ACA	p.A547T	RNF17_uc010tdd.1_Missense_Mutation_p.A406T|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Missense_Mutation_p.A547T|RNF17_uc001ups.2_Missense_Mutation_p.A486T	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	547					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		GCAACATATTGCACTAAATGA	0.353													30	61					0	0	1	0	0		A	25374553	A	A	25374553	3	1	190	1	0	0	0	0	1	0	0	0	13486	1319	46	2	1689	2	RNF17	13	25374553	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1462886	25374553	89795325	910	95063											
FAM48A	55578	broad.mit.edu	37	chr13	37598274	37598274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	acttgatggcttagaagaagGaggaggagttggagatttga	13	10	16	2	0	0	5	0	2	0	3	0	9	0	8	0	5	0	2	0	5	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:37598274G>A	uc001uwg.2	-	19	1737	c.1489C>T	c.(1489-1491)CCT>TCT	p.P497S	FAM48A_uc010abt.2_Missense_Mutation_p.P498S|FAM48A_uc001uwh.2_Missense_Mutation_p.P498S|FAM48A_uc001uwi.2_Missense_Mutation_p.P497S|FAM48A_uc001uwj.2_Missense_Mutation_p.P498S|FAM48A_uc001uwk.2_Missense_Mutation_p.P497S|FAM48A_uc010tes.1_Missense_Mutation_p.P461S|FAM48A_uc001uwl.1_Missense_Mutation_p.P497S|FAM48A_uc001uwd.2_5'Flank|FAM48A_uc001uwe.2_5'UTR|FAM48A_uc001uwf.2_Missense_Mutation_p.P75S	NM_001014286	NP_001014308	Q8NEM7	FA48A_HUMAN	family with sequence similarity 48, member A	497					autophagy|gastrulation	SAGA-type complex	protein binding				0		Lung NSC(96;2.09e-06)|Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.0959)		all cancers(112;6.06e-07)|Epithelial(112;1.87e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00794)|BRCA - Breast invasive adenocarcinoma(63;0.0128)|GBM - Glioblastoma multiforme(144;0.0477)		TTAGAAGAAGGAGGAGGAGTT	0.393													22	36					0	0	1	0	0		A	37598274	A	A	37598274	3	1	190	1	0	0	0	0	1	0	0	0	5586	1174	41	4	882	4	FAM48A	13	37598274	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	12223721	37598274	77571604	911	95064											
COG6	57511	broad.mit.edu	37	chr13	40229920	40229920	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgaccggggctgccaacggCctcaacaatggggcaggcgg	8	3	17	13	4	1	0	1	0	0	0	1	1	1	0	3	7	3	2	3	7	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:40229920C>T	uc001uxh.2	+	1	157	c.57C>T	c.(55-57)GGC>GGT	p.G19G	COG6_uc001uxi.2_5'UTR|COG6_uc010acb.2_Silent_p.G19G	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	19					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		CTGCCAACGGCCTCAACAATG	0.677													3	8					0	0	1	0	0		T	40229920	T	T	40229920	2	4	190	1	0	0	0	0	0	0	0	1	3665	726	26	2		2	COG6	13	40229920	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2631646	40229920	74939958	912	95065											
TSC22D1	8848	broad.mit.edu	37	chr13	45150004	45150005	+	Frame_Shift_Ins	INS	-	G	G																															ccgacgtagaagatgctgcaINSgggggcggcggctgaagcag																								rs145475008		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:45150004_45150005insG	uc001uzn.3	-	1	697_698	c.206_207insC	c.(205-207)CCTfs	p.P69fs	TSC22D1_uc001uzo.1_Frame_Shift_Ins_p.P69fs	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	69	Pro-rich.				transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		AAGATGCTGCAGGGGGCGGCGG	0.634													22	37	---	---	---	---						.	G	45150005	G	G	45150004	7	5	190	1	0	1	1	0	0	0	0	0	16633	175	7	0	3155	0	TSC22D1	13	45150004	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	4920084	45150004	70019874	913	95066											
C13orf18	80183	broad.mit.edu	37	chr13	46933764	46933764	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggacacactcttcatttacGacctgcataagacataaaat	15	10	5	11	2	2	1	1	0	1	1	2	3	2	2	1	1	2	1	1	1	4	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:46933764G>A	uc010acl.2	-	9	1727	c.1122C>T	c.(1120-1122)GTC>GTT	p.V374V	C13orf18_uc001vbf.3_Silent_p.V307V|C13orf18_uc001vbg.3_Silent_p.V102V|C13orf18_uc010tfz.1_Silent_p.V217V|C13orf18_uc010acm.2_Silent_p.V239V|C13orf18_uc010acn.2_Silent_p.V159V|C13orf18_uc001vbe.3_Silent_p.V374V|C13orf18_uc001vbh.3_Silent_p.V374V|C13orf18_uc001vbi.3_Silent_p.V217V|C13orf18_uc010aco.1_Silent_p.V374V	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	374											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		CTTCATTTACGACCTGCATAA	0.313													4	8					0	0	1	0	0		A	46933764	A	A	46933764	2	1	190	1	0	0	0	0	0	0	0	1	1723	1045	37	1		1	C13orf18	13	46933764	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1783760	46933764	68236114	914	95067											
PCDH17	27253	broad.mit.edu	37	chr13	58207580	58207580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccatcgaccccaagacCggcctaatccgtgtgaaggg	9	8	10	14	3	1	2	0	1	1	1	4	3	2	2	6	2	0	0	6	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:58207580C>T	uc001vhq.1	+	1	1792	c.900C>T	c.(898-900)ACC>ACT	p.T300T	PCDH17_uc010aec.1_Silent_p.T300T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	300	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		ACCCCAAGACCGGCCTAATCC	0.597													25	25					0	0	1	0	0		T	58207580	T	T	58207580	2	4	190	1	0	0	0	0	0	0	0	1	11531	639	23	1		1	PCDH17	13	58207580	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11273816	58207580	56962298	915	95068											
PCDH17	27253	broad.mit.edu	37	chr13	58208476	58208476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcggagctgcaggtgccgcGcaacgctggcctgggctatc	5	6	16	14	5	0	0	0	0	0	0	1	1	0	1	2	4	4	5	2	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:58208476G>A	uc001vhq.1	+	1	2688	c.1796G>A	c.(1795-1797)CGC>CAC	p.R599H	PCDH17_uc010aec.1_Missense_Mutation_p.R599H	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	599	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CAGGTGCCGCGCAACGCTGGC	0.647													26	30					0	0	1	0	0		A	58208476	A	A	58208476	3	1	190	1	0	0	0	0	1	0	0	0	11531	1087	38	1	1798	1	PCDH17	13	58208476	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	896	58208476	56961402	916	95069											
KLHL1	57626	broad.mit.edu	37	chr13	70293600	70293600	+	Frame_Shift_Del	DEL	C	-	-																															cacatgtggccactccgacaCcccctctcctcttacacatg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:70293600delC	uc001vip.2	-	9	2710	c.1916delG	c.(1915-1917)GGTfs	p.G639fs	KLHL1_uc010thm.1_Frame_Shift_Del_p.G578fs	NM_020866	NP_065917	Q9NR64	KLHL1_HUMAN	kelch-like 1 protein	639	Kelch 4.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding				0		Breast(118;0.000162)		COAD - Colon adenocarcinoma(199;0.000193)|GBM - Glioblastoma multiforme(99;0.000211)		CACTCCGACACCCCCTCTCCT	0.463													36	54	---	---	---	---						.	-	70293600	-	-	70293600	7	5	190	1	0	1	0	1	0	0	0	0	8381	507	18	0	342	0	KLHL1	13	70293600	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	12085124	70293600	44876278	917	95070											
POU4F1	5457	broad.mit.edu	37	chr13	79175961	79175961	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacgtcggcctgcgtcacGcccagcttgatgcgccgctg	4	7	12	18	6	1	1	1	1	0	0	2	1	1	1	4	1	3	2	4	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:79175961G>A	uc001vkv.2	-	2	1083	c.849C>T	c.(847-849)GGC>GGT	p.G283G	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	283	POU-specific.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		CCTGCGTCACGCCCAGCTTGA	0.701													4	10					0	0	1	0	0		A	79175961	A	A	79175961	2	1	190	1	0	0	0	0	0	0	0	1	12297	1074	38	1		1	POU4F1	13	79175961	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	8882361	79175961	35993917	918	95071											
DCT	1638	broad.mit.edu	37	chr13	95121040	95121040	+	Frame_Shift_Del	DEL	A	-	-																															gaataataatggagccacacAaaaaaatcataaacactgca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:95121040delA	uc001vlv.3	-	2	982	c.555delT	c.(553-555)TTTfs	p.F185fs	DCT_uc010afh.2_Frame_Shift_Del_p.F185fs	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	185	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GGAGCCACACAAAAAAATCAT	0.448													68	67	---	---	---	---						.	-	95121040	-	-	95121040	7	5	190	1	0	1	0	1	0	0	0	0	4307	127	5	0	1139	0	DCT	13	95121040	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	15945079	95121040	20048838	919	95072											
DCT	1638	broad.mit.edu	37	chr13	95131418	95131418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcactaggctgtccaccGtcatgcagactcgggggaac	8	9	12	12	2	2	1	2	0	0	1	4	2	3	2	2	3	2	3	2	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:95131418G>A	uc001vlv.3	-	1	519	c.92C>T	c.(91-93)ACG>ATG	p.T31M	DCT_uc010afh.2_Missense_Mutation_p.T31M	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	31	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GCTGTCCACCGTCATGCAGAC	0.607													23	31					0	0	1	0	0		A	95131418	A	A	95131418	3	1	190	1	0	0	0	0	1	0	0	0	4307	1145	40	1	1606	1	DCT	13	95131418	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10378	95131418	20038460	920	95073											
DOCK9	23348	broad.mit.edu	37	chr13	99505676	99505676	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctaccatcagacatgctcTttaagatgtagaggaaacac	15	9	7	10	0	2	3	1	0	1	3	2	4	2	4	2	1	3	2	2	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:99505676T>G	uc001vnt.2	-	35	3990	c.3935A>C	c.(3934-3936)AAG>ACG	p.K1312T	DOCK9_uc001vnw.2_Missense_Mutation_p.K1311T|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.K1312T|DOCK9_uc010tip.1_5'UTR|DOCK9_uc010tiq.1_Missense_Mutation_p.K290T	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1312					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AGACATGCTCTTTAAGATGTA	0.378													89	107					0	0	1	0	0		G	99505676	G	G	99505676	3	3	190	1	0	0	0	0	1	0	0	0	4700	1609	56	5	2358	5	DOCK9	13	99505676	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	4374258	99505676	15664202	921	95074											
ERCC5	2073	broad.mit.edu	37	chr13	103459927	103459927	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtacctctttatctgctggaAataattcatcaagatacatt	13	15	5	8	0	4	1	2	0	2	1	4	2	4	2	1	1	3	2	1	1	6	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:103459927A>T	uc001vpu.1	+	1	432	c.310A>T	c.(310-312)AAT>TAT	p.N104Y	BIVM_uc001vps.2_Missense_Mutation_p.N104Y|BIVM_uc010agc.2_Intron|BIVM_uc001vpt.2_Missense_Mutation_p.N104Y	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	141					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ATCTGCTGGAAATAATTCATC	0.423			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				39	52					0	0	1	0	0		T	103459927	T	T	103459927	3	4	190	1	0	0	0	0	1	0	0	0	5224	14	1	5		5	ERCC5	13	103459927	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	3954251	103459927	11709951	922	95075											
ERCC5	2073	broad.mit.edu	37	chr13	103514378	103514378	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtgttttaattcttcttaAggtattcaagctaagacagt	13	16	7	5	0	3	1	1	0	2	1	3	1	3	1	0	1	1	3	0	1	6	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:103514378A>C	uc001vpw.2	+	8	1324	c.881_splice	c.e8-2	p.G294_splice	ERCC5_uc001vpu.1_Splice_Site_p.G748_splice|ERCC5_uc010tjb.1_Splice_Site_p.G294_splice|ERCC5_uc010tjc.1_Splice_Site|ERCC5_uc010tjd.1_Splice_Site_p.G126_splice	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein						negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					ATTCTTCTTAAGGTATTCAAG	0.383			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				70	85					0	0	1	0	0		C	103514378	C	C	103514378	5	2	190	1	0	0	0	0	0	0	1	0	5224	86	3	5	909	5	ERCC5	13	103514378	Splice_Site	SNP	A	TCGA-F1-6177-01A-11D-1800-08	54451	103514378	11655500	923	95076											
FAM155A	728215	broad.mit.edu	37	chr13	108518130	108518130	+	Missense_Mutation	SNP	T	G	G	0	1	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	atttctcctgagcatggtggTcatagtcctggtaagcctcg	7	13	11	10	1	2	1	1	1	1	0	5	1	3	1	3	3	2	2	3	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:108518130T>G	uc001vql.2	-	1	1331	c.815A>C	c.(814-816)GAC>GCC	p.D272A		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	272						integral to membrane	binding			skin(1)	1						AGCATGGTGGTCATAGTCCTG	0.507													52	61					0	0	1	0	0		G	108518130	G	G	108518130	3	3	190	1	0	0	0	0	1	0	0	0	5476	1667	58	5	573	5	FAM155A	13	108518130	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	5003752	108518130	6651748	924	95077											
MYO16	23026	broad.mit.edu	37	chr13	109792754	109792754	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccggggacgcgaggccCgcgggcgccccgggggcagc	3	0	21	17	8	0	0	0	0	0	0	0	2	0	1	4	7	1	1	4	7	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:109792754C>T	uc001vqt.1	+	32	4254	c.4128C>T	c.(4126-4128)CCC>CCT	p.P1376P	MYO16_uc010agk.1_Silent_p.P1398P	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1376					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			acgcgaggcccgcgggcgccc	0.542													9	7					0	0	1	0	0		T	109792754	T	T	109792754	2	4	190	1	0	0	0	0	0	0	0	1	10082	639	23	1		1	MYO16	13	109792754	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1274624	109792754	5377124	925	95078											
IRS2	8660	broad.mit.edu	37	chr13	110434725	110434725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacaaccgaccaagccccCgggctgacccggggtccacg	9	2	13	17	4	0	1	0	1	0	0	1	3	1	2	6	4	2	1	6	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:110434725C>T	uc001vqv.2	-	1	4190	c.3676G>A	c.(3676-3678)GGG>AGG	p.G1226R		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	1226					fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	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)			ACCAAGCCCCCGGGCTGACCC	0.706													8	10					0	0	1	0	0		T	110434725	T	T	110434725	3	4	190	1	0	0	0	0	1	0	0	0	7857	652	23	1	348	1	IRS2	13	110434725	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	641971	110434725	4735153	926	95079											
ATP11A	23250	broad.mit.edu	37	chr13	113505388	113505388	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtgtgttgcttataaaaggcTgatccaagaagaatatgaag	15	11	11	4	0	0	4	0	2	0	2	1	4	1	4	1	1	1	3	1	1	8	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:113505388T>C	uc001vsi.3	+	18	1935	c.1847T>C	c.(1846-1848)CTG>CCG	p.L616P	ATP11A_uc001vsj.3_Missense_Mutation_p.L616P|ATP11A_uc001vsm.1_Missense_Mutation_p.L492P|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	616	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TATAAAAGGCTGATCCAAGAA	0.448													43	53					0	0	1	0	0		C	113505388	C	C	113505388	3	2	190	1	0	0	0	0	1	0	0	0	1120	1580	55	3	1917	3	ATP11A	13	113505388	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3070663	113505388	1664490	927	95080											
F10	2159	broad.mit.edu	37	chr13	113801712	113801712	+	Frame_Shift_Del	DEL	A	-	-																															ggccctgctcatcaatgaggAaaacgagggtttctgtggtg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:113801712delA	uc001vsx.2	+	7	824	c.767delA	c.(766-768)GAAfs	p.E256fs	F10_uc010agq.1_RNA|F10_uc001vsy.2_Frame_Shift_Del_p.E256fs|F10_uc001vsz.2_Frame_Shift_Del_p.E256fs	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	256	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATCAATGAGGAAAACGAGGGT	0.552													20	34	---	---	---	---						.	-	113801712	-	-	113801712	7	5	190	1	0	1	0	1	0	0	0	0	5344	246	9	0	793	0	F10	13	113801712	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	296324	113801712	1368166	928	95081											
TFDP1	7027	broad.mit.edu	37	chr13	114286057	114286057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactcctcaccttggtctgcCgggtgagcacttccctctgg	4	11	11	15	1	3	1	1	1	2	0	5	2	5	1	4	3	2	1	4	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr13:114286057C>T	uc001vtw.2	+	5	518	c.306C>T	c.(304-306)GCC>GCT	p.A102A	TFDP1_uc010tkd.1_Intron|TFDP1_uc010tke.1_Intron|TFDP1_uc001vty.3_Silent_p.A102A|TFDP1_uc001vtx.2_5'Flank|TFDP1_uc010agx.2_Silent_p.A102A	NM_007111	NP_009042	Q14186	TFDP1_HUMAN	transcription factor Dp-1	102					cell proliferation|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|regulation of transcription from RNA polymerase II promoter	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			lung(4)|ovary(2)|skin(1)	7	Lung NSC(43;0.0113)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.132)|all_epithelial(44;0.0731)|all_lung(25;0.149)|Breast(118;0.153)	all cancers(43;0.0576)			CTTGGTCTGCCGGGTGAGCAC	0.607										TSP Lung(29;0.18)			21	36					0	0	1	0	0		T	114286057	T	T	114286057	2	4	190	1	0	0	0	0	0	0	0	1	15822	639	23	1		1	TFDP1	13	114286057	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	484345	114286057	883821	929	95082											
OR4Q3	441669	broad.mit.edu	37	chr14	20216140	20216140	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctactgtgatgtcccacaagTcatcaagctggcctgcatgg	9	10	10	12	0	2	1	2	1	0	0	3	1	3	1	2	2	3	2	2	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:20216140T>C	uc010tkt.1	+	1	554	c.554T>C	c.(553-555)GTC>GCC	p.V185A		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		GTCCCACAAGTCATCAAGCTG	0.493													6	61					0	0	1	0	0		C	20216140	C	C	20216140	3	2	190	1	0	0	0	0	1	0	0	0	11100	1667	58	3	556	3	OR4Q3	14	20216140	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08		20216140	87133400	930	95083											
FLJ10357	55701	broad.mit.edu	37	chr14	21549846	21549846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccctgcgagaatggggccGctgccaggcccgctgccaag	7	4	15	15	3	0	1	0	0	0	1	0	2	0	1	5	3	4	2	5	3	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:21549846G>A	uc001vzp.2	+	14	2848	c.2819G>A	c.(2818-2820)CGC>CAC	p.R940H	FLJ10357_uc001vzo.1_Missense_Mutation_p.R19H|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Missense_Mutation_p.R226H	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	940	Potential.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		GAATGGGGCCGCTGCCAGGCC	0.731													7	6					0	0	1	0	0		A	21549846	A	A	21549846	3	1	190	1	0	0	0	0	1	0	0	0	5940	1087	38	1	2873	1	FLJ10357	14	21549846	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1333706	21549846	85799694	931	95084											
ACIN1	22985	broad.mit.edu	37	chr14	23530627	23530627	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcccattcacgctctgatcGagtccgctcccgccgctcca	6	9	7	19	5	2	1	1	1	1	0	7	2	6	1	5	0	0	3	5	0	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:23530627G>A	uc001wit.3	-	17	3806	c.3478C>T	c.(3478-3480)CGA>TGA	p.R1160*	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Nonsense_Mutation_p.R402*|ACIN1_uc001wiq.3_Nonsense_Mutation_p.R402*|ACIN1_uc001wir.3_Nonsense_Mutation_p.R433*|ACIN1_uc001wis.3_Nonsense_Mutation_p.R841*|ACIN1_uc010akg.2_Nonsense_Mutation_p.R1147*	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1160	Arg/Asp/Glu/Lys-rich.		R -> Q (in a colorectal cancer sample; somatic mutation).		apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding	p.R1160Q(1)		ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		CGCTCTGATCGAGTCCGCTCC	0.647													32	30					0	0	1	0	0		A	23530627	A	A	23530627	4	1	190	1	0	0	0	0	0	1	0	0	142	1066	37	1	559	1	ACIN1	14	23530627	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1980781	23530627	83818913	932	95085											
ACIN1	22985	broad.mit.edu	37	chr14	23530687	23530687	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccactgttcccgcactgcccGttcctgctcccgctgctctg	2	11	8	20	3	1	0	0	0	1	0	4	0	4	0	5	0	3	6	5	0	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:23530687G>A	uc001wit.3	-	17	3746	c.3418C>T	c.(3418-3420)CGG>TGG	p.R1140W	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Missense_Mutation_p.R382W|ACIN1_uc001wiq.3_Missense_Mutation_p.R382W|ACIN1_uc001wir.3_Missense_Mutation_p.R413W|ACIN1_uc001wis.3_Missense_Mutation_p.R821W|ACIN1_uc010akg.2_Missense_Mutation_p.R1127W	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1140	Arg/Asp/Glu/Lys-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		CGCACTGCCCGTTCCTGCTCC	0.662													36	38					0	0	1	0	0		A	23530687	A	A	23530687	3	1	190	1	0	0	0	0	1	0	0	0	142	1144	40	1	619	1	ACIN1	14	23530687	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	60	23530687	83818853	933	95086											
SLC22A17	51310	broad.mit.edu	37	chr14	23817841	23817841	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccaactcccctgccaggGccacccgaagcctctgggtt	7	6	9	19	1	1	0	0	0	1	0	2	1	2	0	8	2	3	1	8	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:23817841G>A	uc001wjl.2	-	4	622	c.566C>T	c.(565-567)GCC>GTC	p.A189V	SLC22A17_uc010akk.2_Intron|SLC22A17_uc001wjn.2_Intron|SLC22A17_uc001wjm.2_Missense_Mutation_p.A189V|SLC22A17_uc010akl.1_3'UTR	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	189	Helical; (Potential).				siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		CCCTGCCAGGGCCACCCGAAG	0.502													35	48					0	0	1	0	0		A	23817841	A	A	23817841	3	1	190	1	0	0	0	0	1	0	0	0	14473	1203	42	2	1074	2	SLC22A17	14	23817841	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	287154	23817841	83531699	934	95087											
SLC22A17	51310	broad.mit.edu	37	chr14	23821359	23821359	+	Frame_Shift_Del	DEL	G	-	-																															gctcccagccagaggcattaGgggggaaggccccgtagtgg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:23821359delG	uc001wjl.2	-	1	121	c.65delC	c.(64-66)CCTfs	p.P22fs	SLC22A17_uc010akk.2_5'UTR|SLC22A17_uc001wjn.2_RNA|SLC22A17_uc001wjm.2_Frame_Shift_Del_p.P22fs|SLC22A17_uc010akl.1_Frame_Shift_Del_p.P22fs	NM_020372	NP_065105	Q8WUG5	S22AH_HUMAN	solute carrier family 22, member 17 isoform a	22					siderophore transport	integral to organelle membrane|integral to plasma membrane|vacuolar membrane	transmembrane receptor activity|transmembrane transporter activity				0	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00643)		AGAGGCATTAGGGGGGAAGGC	0.701													5	5	---	---	---	---						.	-	23821359	-	-	23821359	7	5	190	1	0	1	0	1	0	0	0	0	14473	1000	35	0	1587	0	SLC22A17	14	23821359	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	3518	23821359	83528181	935	95088											
EFS	10278	broad.mit.edu	37	chr14	23826481	23826481	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagtgaattgcagggcctgcCctgccagttctgttacacac	8	11	10	12	0	1	1	0	1	1	0	1	1	1	1	3	1	4	3	3	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:23826481C>A	uc001wjo.2	-	6	2248	c.1640G>T	c.(1639-1641)GGG>GTG	p.G547V	EFS_uc001wjp.2_Missense_Mutation_p.G454V|EFS_uc010tnm.1_Missense_Mutation_p.G378V	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	547					cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		CAGGGCCTGCCCTGCCAGTTC	0.612													30	43					1.08312e-15	1.15342e-15	1	1	0		A	23826481	A	A	23826481	3	1	190	1	0	0	0	0	1	0	0	0	4965	623	22	5	49	5	EFS	14	23826481	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5122	23826481	83523059	936	95089											
CMTM5	116173	broad.mit.edu	37	chr14	23847614	23847614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatctctgcctacatggcCgcggcgctactggagttctt	5	12	10	14	3	2	0	0	0	2	0	4	1	3	1	3	3	3	2	3	3	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:23847614C>T	uc010akm.2	+	2	627	c.183C>T	c.(181-183)GCC>GCT	p.A61A	CMTM5_uc001wjs.2_Silent_p.A61A|CMTM5_uc001wjt.2_Silent_p.A61A|CMTM5_uc010akn.2_Intron|CMTM5_uc001wju.2_Intron|CMTM5_uc010ako.2_Intron	NM_138460	NP_612469	Q96DZ9	CKLF5_HUMAN	chemokine-like factor superfamily 5 isoform a	61	Helical; (Potential).|MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.0064)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0382)		CCTACATGGCCGCGGCGCTAC	0.567													43	47					0	0	1	0	0		T	23847614	T	T	23847614	2	4	190	1	0	0	0	0	0	0	0	1	3589	639	23	1		1	CMTM5	14	23847614	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	21133	23847614	83501926	937	95090											
THTPA	79178	broad.mit.edu	37	chr14	24026212	24026213	+	Frame_Shift_Del	DEL	CA	-	-																															cacacggagtataaggaactCacagcggaacctacaattgt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:24026212_24026213delCA	uc001wkh.3	+	2	616_617	c.246_247delCA	c.(244-249)CTCACAfs	p.L82fs	THTPA_uc001wkb.3_Intron|THTPA_uc001wkg.3_Frame_Shift_Del_p.L82fs|THTPA_uc010akr.2_Intron|THTPA_uc001wki.3_Frame_Shift_Del_p.L82fs	NM_001126339	NP_001119811	Q9BU02	THTPA_HUMAN	thiamine triphosphatase	82_83					dephosphorylation|generation of precursor metabolites and energy|thiamine metabolic process	cytosol|nucleolus|soluble fraction	thiamin-triphosphatase activity				0	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00643)	Thiamine(DB00152)	ATAAGGAACTCACAGCGGAACC	0.604													30	52	---	---	---	---						.	-	24026213	-	-	24026212	7	5	190	1	0	1	0	1	0	0	0	0	15906	813	29	0	248	0	THTPA	14	24026212	Frame_Shift_Del	DEL	CA	TCGA-F1-6177-01A-11D-1800-08	178598	24026212	83323328	938	95091											
AP1G2	8906	broad.mit.edu	37	chr14	24032709	24032709	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcccgcacatgggtgccCgcctggaaggtgtgggcatg	6	8	15	12	2	1	0	1	0	0	0	2	1	2	1	3	4	1	2	3	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:24032709C>T	uc001wkl.2	-	14	1627	c.1290G>A	c.(1288-1290)GCG>GCA	p.A430A	AP1G2_uc001wkj.2_Silent_p.A49A|AP1G2_uc001wkk.3_Silent_p.A358A|AP1G2_uc001wkn.2_Silent_p.A49A|uc001wko.1_Intron|AP1G2_uc001wkp.1_RNA|AP1G2_uc010tnp.1_Silent_p.A430A	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	430					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		CATGGGTGCCCGCCTGGAAGG	0.617											OREG0022605	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	20					0	0	1	0	0		T	24032709	T	T	24032709	2	4	190	1	0	0	0	0	0	0	0	1	733	639	23	1		1	AP1G2	14	24032709	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6497	24032709	83316831	939	95092											
DHRS4L1	728635	broad.mit.edu	37	chr14	24518539	24518539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagcatgaaagaaaccctgCggataagaaggtaaactgtc	18	6	10	7	1	0	3	0	1	0	2	1	4	0	4	1	2	4	2	1	2	7	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:24518539C>T	uc010alc.2	+	9	721	c.721C>T	c.(721-723)CGG>TGG	p.R241W	DHRS4L1_uc010tnu.1_RNA|LRRC16B_uc001wlj.2_5'Flank	NM_001082488	NP_001075957	P0CG22	DR4L1_HUMAN	dehydrogenase/reductase (SDR family) member 4	241							binding|oxidoreductase activity				0						AGAAACCCTGCGGATAAGAAG	0.423													14	12					0	0	1	0	0		T	24518539	T	T	24518539	3	4	190	1	0	0	0	0	1	0	0	0	4499	759	27	1	755	1	DHRS4L1	14	24518539	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	485830	24518539	82831001	940	95093											
IPO4	79711	broad.mit.edu	37	chr14	24652846	24652846	+	Silent	SNP	A	G	G	1	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	gcacaggtgtcttccttctcAtcgaagaaggcattctccac	9	11	8	13	1	3	1	1	0	3	1	7	2	4	1	2	2	0	2	2	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:24652846A>G	uc001wmv.1	-	20	2144	c.2013T>C	c.(2011-2013)GAT>GAC	p.D671D	IPO4_uc001wmt.1_Silent_p.D149D|IPO4_uc001wmu.2_Silent_p.D333D|IPO4_uc001wmx.1_Silent_p.D535D|IPO4_uc001wmy.1_Silent_p.D535D|IPO4_uc010tnz.1_RNA|IPO4_uc001wmw.1_RNA|IPO4_uc001wmz.1_Silent_p.D671D	NM_024658	NP_078934	Q8TEX9	IPO4_HUMAN	importin 4	671					intracellular protein transport	cytoplasm|nucleus	protein binding|protein transporter activity			kidney(1)	1				GBM - Glioblastoma multiforme(265;0.0087)		CTTCCTTCTCATCGAAGAAGG	0.567													18	27					0	0	1	0	0		G	24652846	G	G	24652846	2	3	190	1	0	0	0	0	0	0	0	1	7811	214	8	3		3	IPO4	14	24652846	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	134307	24652846	82696694	941	95094											
INSM2	84684	broad.mit.edu	37	chr14	36004942	36004942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggctgtggcatgctgtccGcgaggagctgctcctgcccg	3	8	15	15	4	0	0	0	0	0	0	2	2	2	1	4	3	4	5	4	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:36004942G>A	uc001wth.1	+	1	1695	c.1484G>A	c.(1483-1485)CGC>CAC	p.R495H		NM_032594	NP_115983	Q96T92	INSM2_HUMAN	insulinoma-associated protein IA-6	495					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)|skin(1)	2	Breast(36;0.122)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(9;2.16e-07)|Lung(238;2.63e-07)|Epithelial(34;0.00145)|all cancers(34;0.00452)	GBM - Glioblastoma multiforme(112;0.0223)		CATGCTGTCCGCGAGGAGCTG	0.647													20	29					0	0	1	0	0		A	36004942	A	A	36004942	3	1	190	1	0	0	0	0	1	0	0	0	7788	1087	38	1	1486	1	INSM2	14	36004942	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	11352096	36004942	71344598	942	95095											
SSTR1	6751	broad.mit.edu	37	chr14	38678848	38678848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcatctacgtgatcctgcGctatgccaagatgaagacgg	10	9	12	10	3	2	4	1	2	1	2	3	4	3	4	2	2	3	1	2	2	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:38678848G>A	uc001wul.1	+	3	871	c.254G>A	c.(253-255)CGC>CAC	p.R85H	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	85	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	GTGATCCTGCGCTATGCCAAG	0.562													32	69					0	0	1	0	0		A	38678848	A	A	38678848	3	1	190	1	0	0	0	0	1	0	0	0	15222	1087	38	1	256	1	SSTR1	14	38678848	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2673906	38678848	68670692	943	95096											
SSTR1	6751	broad.mit.edu	37	chr14	38679088	38679088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtggtgcatcccatcaaggCggcccgctaccgccggccca	6	5	12	18	5	1	0	1	0	0	0	2	0	2	0	5	4	2	2	5	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:38679088C>T	uc001wul.1	+	3	1111	c.494C>T	c.(493-495)GCG>GTG	p.A165V	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	165	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00444)	Octreotide(DB00104)	CCCATCAAGGCGGCCCGCTAC	0.632													37	49					0	0	1	0	0		T	38679088	T	T	38679088	3	4	190	1	0	0	0	0	1	0	0	0	15222	768	27	1	496	1	SSTR1	14	38679088	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	240	38679088	68670452	944	95097											
SEC23A	10484	broad.mit.edu	37	chr14	39565189	39565189	+	Missense_Mutation	SNP	A	G	G	1	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	gtaagtcaggtctctctttcAgtggtgtaaacagggctgcc	8	12	12	9	0	4	0	2	0	2	0	5	0	4	0	1	3	2	3	1	3	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:39565189A>G	uc001wup.1	-	2	357	c.134T>C	c.(133-135)CTG>CCG	p.L45P	SEC23A_uc010tqa.1_Intron|SEC23A_uc010tqb.1_Missense_Mutation_p.L45P	NM_006364	NP_006355	Q15436	SC23A_HUMAN	SEC23-related protein A	45					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|Golgi membrane|smooth endoplasmic reticulum membrane	protein binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0151)		TCTCTCTTTCAGTGGTGTAAA	0.433													50	54					0	0	1	0	0		G	39565189	G	G	39565189	3	3	190	1	0	0	0	0	1	0	0	0	14016	188	7	3	2239	3	SEC23A	14	39565189	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	886101	39565189	67784351	945	95098											
PYGL	5836	broad.mit.edu	37	chr14	51381427	51381427	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttcccagttacctctgctaTgagctctgcaagtcctgggt	6	13	9	13	0	2	1	0	1	2	0	4	1	4	1	3	1	4	4	3	1	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:51381427T>C	uc001wyu.2	-	12	1637	c.1510A>G	c.(1510-1512)ATA>GTA	p.I504V	PYGL_uc010tqq.1_Missense_Mutation_p.I470V|PYGL_uc001wyv.2_Missense_Mutation_p.I178V	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	504					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	ACCTCTGCTATGAGCTCTGCA	0.473													25	25					0	0	1	0	0		C	51381427	C	C	51381427	3	2	190	1	0	0	0	0	1	0	0	0	12886	1464	51	3	1069	3	PYGL	14	51381427	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	11816238	51381427	55968113	946	95099											
PTGDR	5729	broad.mit.edu	37	chr14	52734813	52734813	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctcagaaccggagtctgcGggtgcttgcgcccgcattgg	5	8	15	13	5	2	1	1	0	1	1	2	2	2	2	2	3	4	3	2	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:52734813G>T	uc001wzq.2	+	1	383	c.281G>T	c.(280-282)CGG>CTG	p.R94L		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	94	Extracellular (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	CGGAGTCTGCGGGTGCTTGCG	0.602													35	81					1.56738e-10	1.64679e-10	1	1	0		T	52734813	T	T	52734813	3	4	190	1	0	0	0	0	1	0	0	0	12763	1116	39	5	283	5	PTGDR	14	52734813	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1353386	52734813	54614727	947	95100											
PTGER2	5732	broad.mit.edu	37	chr14	52781670	52781670	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgccatggccctggagcgctAcctctcgatcgggcacccct	5	7	11	18	4	1	0	0	0	1	0	3	2	1	1	5	3	2	2	5	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:52781670A>G	uc001wzr.2	+	1	655	c.404A>G	c.(403-405)TAC>TGC	p.Y135C		NM_000956	NP_000947	P43116	PE2R2_HUMAN	prostaglandin E receptor 2 (subtype EP2), 53kDa	135	Cytoplasmic (Potential).					integral to plasma membrane	prostaglandin E receptor activity			lung(1)|breast(1)	2	Breast(41;0.0639)|all_epithelial(31;0.0729)				Alprostadil(DB00770)|Iloprost(DB01088)	CTGGAGCGCTACCTCTCGATC	0.657													26	44					0	0	1	0	0		G	52781670	G	G	52781670	3	3	190	1	0	0	0	0	1	0	0	0	12766	391	14	3	406	3	PTGER2	14	52781670	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	46857	52781670	54567870	948	95101											
BMP4	652	broad.mit.edu	37	chr14	54418739	54418739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctaggctgcgggcggcggcGcagcccaaacatctgcagaa	9	4	15	13	4	1	1	0	0	1	1	1	1	1	1	1	4	4	4	1	4	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:54418739G>A	uc001xal.3	-	2	389	c.202C>T	c.(202-204)CGC>TGC	p.R68C	BMP4_uc010aoh.2_Missense_Mutation_p.R68C|BMP4_uc001xao.3_Missense_Mutation_p.R68C|BMP4_uc001xan.3_Missense_Mutation_p.R68C	NM_130851	NP_570912	P12644	BMP4_HUMAN	bone morphogenetic protein 4 preproprotein	68					activation of MAPKK activity|blood vessel endothelial cell proliferation involved in sprouting angiogenesis|BMP signaling pathway involved in heart induction|BMP signaling pathway involved in nephric duct formation|branching involved in ureteric bud morphogenesis|bronchus development|bud dilation involved in lung branching|cardiac septum development|cartilage development|endocardial cushion development|epithelial cell proliferation involved in lung morphogenesis|intermediate mesodermal cell differentiation|lung alveolus development|lymphoid progenitor cell differentiation|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|negative regulation of branch elongation involved in ureteric bud branching by BMP signaling pathway|negative regulation of branching involved in ureteric bud morphogenesis|negative regulation of cell proliferation involved in heart morphogenesis|negative regulation of glomerular mesangial cell proliferation|negative regulation of glomerulus development|negative regulation of immature T cell proliferation in thymus|negative regulation of MAP kinase activity|negative regulation of metanephric comma-shaped body morphogenesis|negative regulation of metanephric S-shaped body morphogenesis|negative regulation of mitosis|negative regulation of myoblast differentiation|negative regulation of phosphorylation|negative regulation of striated muscle tissue development|negative regulation of thymocyte apoptosis|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of apoptosis|positive regulation of bone mineralization|positive regulation of cardiac muscle fiber development|positive regulation of cartilage development|positive regulation of collagen biosynthetic process|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of kidney development|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|post-embryonic development|protein localization to nucleus|pulmonary artery endothelial tube morphogenesis|secondary heart field specification|SMAD protein signal transduction|specification of ureteric bud anterior/posterior symmetry by BMP signaling pathway|steroid hormone mediated signaling pathway	extracellular space|proteinaceous extracellular matrix	BMP receptor binding|chemoattractant activity|cytokine activity|growth factor activity				0						GGGCGGCGGCGCAGCCCAAAC	0.637													30	46					0	0	1	0	0		A	54418739	A	A	54418739	3	1	190	1	0	0	0	0	1	0	0	0	1463	1087	38	1	1032	1	BMP4	14	54418739	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1637069	54418739	52930801	949	95102											
LGALS3	3958	broad.mit.edu	37	chr14	55605002	55605003	+	Frame_Shift_Ins	INS	-	G	G																															cagggccacccagcggccctINSggggcctacccatcttctgg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:55605002_55605003insG	uc001xbr.2	+	3	409_410	c.258_259insG	c.(256-261)CCTGGGfs	p.P86fs		NM_002306	NP_002297	P17931	LEG3_HUMAN	galectin 3	86_87	8 X 9 AA tandem repeats of Y-P-G-X(3)-P- G-A.|6; approximate.				cell differentiation|innate immune response|mRNA processing|RNA splicing	mitochondrial inner membrane|plasma membrane|spliceosomal complex	IgE binding|sugar binding				0						CCAGCGGCCCTGGGGCCTACCC	0.658													16	13	---	---	---	---						.	G	55605003	G	G	55605002	7	5	190	1	0	1	1	0	0	0	0	0	8759	1567	55	0	264	0	LGALS3	14	55605002	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	1186263	55605002	51744538	950	95103											
ACTR10	55860	broad.mit.edu	37	chr14	58690342	58690342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccttttcttccttaaagcgCgtacttgctttgtaagtgat	7	18	7	9	2	1	1	0	1	1	0	3	1	3	1	2	0	3	3	2	0	4	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:58690342C>T	uc001xdf.2	+	9	740	c.637C>T	c.(637-639)CGT>TGT	p.R213C	C14orf37_uc010tro.1_Intron|ACTR10_uc001xdg.2_Missense_Mutation_p.R15C|ACTR10_uc001xdh.2_Missense_Mutation_p.R15C|ACTR10_uc010trp.1_RNA|ACTR10_uc010apc.2_Missense_Mutation_p.R3C	NM_018477	NP_060947	Q9NZ32	ARP10_HUMAN	uncharacterized hypothalamus protein HARP11	213						cytoplasm				central_nervous_system(1)	1						CCTTAAAGCGCGTACTTGCTT	0.338													16	14					0	0	1	0	0		T	58690342	T	T	58690342	3	4	190	1	0	0	0	0	1	0	0	0	208	768	27	1	671	1	ACTR10	14	58690342	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3085340	58690342	48659198	951	95104											
RTN1	6252	broad.mit.edu	37	chr14	60070603	60070603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcaggccattgaagagagCgccaacgtaggtcaggagcc	11	5	15	10	2	2	2	2	1	0	1	2	4	2	3	3	4	3	1	3	4	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:60070603C>T	uc001xen.1	-	6	2358	c.2149G>A	c.(2149-2151)GCT>ACT	p.A717T	RTN1_uc001xem.1_Missense_Mutation_p.A297T|RTN1_uc001xek.1_Missense_Mutation_p.A149T|RTN1_uc001xel.1_RNA|RTN1_uc010apl.1_Missense_Mutation_p.A134T	NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	717	Helical; (Potential).|Reticulon.				neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TTGAAGAGAGCGCCAACGTAG	0.488													33	62					0	0	1	0	0		T	60070603	T	T	60070603	3	4	190	1	0	0	0	0	1	0	0	0	13750	768	27	1	197	1	RTN1	14	60070603	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1380261	60070603	47278937	952	95105											
RTN1	6252	broad.mit.edu	37	chr14	60213015	60213015	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggggccgggtgtacccagCtcctcagggctctctgaaat	7	8	14	12	1	2	1	1	1	1	0	4	2	3	1	3	4	2	3	3	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:60213015C>T	uc001xen.1	-	2	635	c.426G>A	c.(424-426)GAG>GAA	p.E142E		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	142					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GTGTACCCAGCTCCTCAGGGC	0.483													36	42					0	0	1	0	0		T	60213015	T	T	60213015	2	4	190	1	0	0	0	0	0	0	0	1	13750	796	28	2		2	RTN1	14	60213015	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	142412	60213015	47136525	953	95106											
HIF1A	3091	broad.mit.edu	37	chr14	62187241	62187241	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcttgataaggcctctgtGatgaggcttaccatcagcta	10	12	9	10	0	3	3	1	3	2	0	3	3	3	3	2	2	2	2	2	2	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:62187241G>A	uc001xfq.2	+	2	581	c.177G>A	c.(175-177)GTG>GTA	p.V59V	HIF1A_uc010tsc.1_Intron|HIF1A_uc001xfr.2_Silent_p.V59V|HIF1A_uc001xfs.2_Silent_p.V60V	NM_001530	NP_001521	Q16665	HIF1A_HUMAN	hypoxia-inducible factor 1, alpha subunit	59	Interaction with TSGA10 (By similarity).|Helix-loop-helix motif.				cellular response to hypoxia|collagen metabolic process|connective tissue replacement involved in inflammatory response wound healing|elastin metabolic process|epithelial to mesenchymal transition|oxygen homeostasis|positive regulation of chemokine production|positive regulation of epithelial cell migration|positive regulation of hormone biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of transforming growth factor-beta2 production	cytoplasm|nucleolus|transcription factor complex	histone acetyltransferase binding|Hsp90 protein binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			kidney(3)|lung(1)	4				OV - Ovarian serous cystadenocarcinoma(108;1.62e-09)|BRCA - Breast invasive adenocarcinoma(234;0.189)		AGGCCTCTGTGATGAGGCTTA	0.413													41	43					0	0	1	0	0		A	62187241	A	A	62187241	2	1	190	1	0	0	0	0	0	0	0	1	7119	1277	45	4		4	HIF1A	14	62187241	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1974226	62187241	45162299	954	95107											
SYNE2	23224	broad.mit.edu	37	chr14	64450478	64450478	+	Frame_Shift_Del	DEL	A	-	-																															atgaacctgccactgatgatAaaaaaacaggatcagcccac																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:64450478delA	uc001xgm.2	+	18	2255	c.2025delA	c.(2023-2025)ATAfs	p.I675fs	SYNE2_uc001xgl.2_Frame_Shift_Del_p.I675fs	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	675	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CACTGATGATAAAAAAACAGG	0.299													28	44	---	---	---	---						.	-	64450478	-	-	64450478	7	5	190	1	0	1	0	1	0	0	0	0	15471	352	13	0	2091	0	SYNE2	14	64450478	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	2263237	64450478	42899062	955	95108											
SYNE2	23224	broad.mit.edu	37	chr14	64520260	64520260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtgtagtattaaagctgtgaCtgctattgagaaacaaagag	15	11	11	4	0	0	3	0	2	0	2	0	4	0	3	0	0	3	4	0	0	7	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:64520260C>T	uc001xgm.2	+	48	9859	c.9629C>T	c.(9628-9630)ACT>ATT	p.T3210I	SYNE2_uc001xgl.2_Missense_Mutation_p.T3210I|SYNE2_uc010apw.1_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3210	Potential.|Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AAAGCTGTGACTGCTATTGAG	0.358													15	70					0	0	1	0	0		T	64520260	T	T	64520260	3	4	190	1	0	0	0	0	1	0	0	0	15471	565	20	4	9815	4	SYNE2	14	64520260	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	69782	64520260	42829280	956	95109											
RBM25	58517	broad.mit.edu	37	chr14	73544119	73544119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggttggaaagcatttgggcGcaagaaaggatcatccaggc	12	8	14	7	1	1	1	1	0	0	1	2	3	2	3	1	5	1	3	1	5	3	2	rs143840737	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:73544119G>A	uc001xno.2	+	4	407	c.199G>A	c.(199-201)GCA>ACA	p.A67T	RBM25_uc001xnn.3_Missense_Mutation_p.A67T|RBM25_uc010ttu.1_Missense_Mutation_p.A67T|RBM25_uc001xnp.2_5'UTR	NM_021239	NP_067062	P49756	RBM25_HUMAN	RNA binding motif protein 25	67					apoptosis|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|RNA splicing	cytoplasm|nuclear speck	mRNA binding|nucleotide binding|protein binding			central_nervous_system(2)|ovary(1)|breast(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00362)|OV - Ovarian serous cystadenocarcinoma(108;0.0688)		GCATTTGGGCGCAAGAAAGGA	0.378													18	35					0	0	1	0	0		A	73544119	A	A	73544119	3	1	190	1	0	0	0	0	1	0	0	0	13150	1087	38	1	209	1	RBM25	14	73544119	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	9023859	73544119	33805421	957	95110											
LTBP2	4053	broad.mit.edu	37	chr14	74970717	74970717	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgttgaggcaccggccgttCgggcagagaccaggcccgaa	8	5	16	12	4	0	2	0	1	0	1	1	4	0	2	4	4	0	4	4	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:74970717C>T	uc001xqa.2	-	31	4881	c.4494G>A	c.(4492-4494)CCG>CCA	p.P1498P		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	1498	EGF-like 17; calcium-binding (Potential).				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		ACCGGCCGTTCGGGCAGAGAC	0.498													7	13					0	0	1	0	0		T	74970717	T	T	74970717	2	4	190	1	0	0	0	0	0	0	0	1	9092	871	31	1		1	LTBP2	14	74970717	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1426598	74970717	32378823	958	95111											
KIAA0317	9870	broad.mit.edu	37	chr14	75151323	75151323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaagctgactacacgtgcgGcaagctcaaagaggaactta	14	6	12	9	2	1	2	1	1	0	1	1	4	1	4	0	3	5	3	0	3	6	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:75151323G>A	uc001xqb.2	-	4	582	c.77C>T	c.(76-78)GCC>GTC	p.A26V	KIAA0317_uc010tut.1_Intron|KIAA0317_uc001xqc.2_Missense_Mutation_p.A26V|KIAA0317_uc001xqd.1_Intron	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	26					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		TACACGTGCGGCAAGCTCAAA	0.517													18	26					0	0	1	0	0		A	75151323	A	A	75151323	3	1	190	1	0	0	0	0	1	0	0	0	8183	1203	42	2	2462	2	KIAA0317	14	75151323	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	180606	75151323	32198217	959	95112											
YLPM1	56252	broad.mit.edu	37	chr14	75277083	75277083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgttattgactatgacCgggatcgatttgacagagaa	11	12	13	5	2	0	4	0	3	0	1	1	7	0	5	1	2	0	1	1	2	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:75277083C>T	uc001xqj.3	+	9	5312	c.5188C>T	c.(5188-5190)CGG>TGG	p.R1730W	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.R213W	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1535	Arg-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)		TGACTATGACCGGGATCGATT	0.408													39	57					0	0	1	0	0		T	75277083	T	T	75277083	3	4	190	1	0	0	0	0	1	0	0	0	17512	643	23	1	5222	1	YLPM1	14	75277083	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	125760	75277083	32072457	960	95113											
TMED10	10972	broad.mit.edu	37	chr14	75602475	75602475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctcaccgttggtatcacGcatctcctcttctctcttct	4	15	4	18	2	7	0	2	0	5	0	9	0	7	0	4	1	0	3	4	1	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:75602475G>A	uc001xrm.1	-	4	593	c.526C>T	c.(526-528)CGT>TGT	p.R176C	TMED10_uc010ash.1_RNA|TMED10_uc010asg.1_RNA|TMED10_uc010tuz.1_Missense_Mutation_p.R51C	NM_006827	NP_006818	P49755	TMEDA_HUMAN	transmembrane emp24 domain-containing protein 10	176	Lumenal (Potential).|GOLD.				protein transport|regulated secretory pathway|vesicle targeting, to, from or within Golgi	cis-Golgi network|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|melanosome|microsome|zymogen granule membrane	protein binding				0				BRCA - Breast invasive adenocarcinoma(234;0.0126)		TTGGTATCACGCATCTCCTCT	0.438													40	56					0	0	1	0	0		A	75602475	A	A	75602475	3	1	190	1	0	0	0	0	1	0	0	0	16028	1087	38	1	141	1	TMED10	14	75602475	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	325392	75602475	31747065	961	95114											
ZDHHC22	283576	broad.mit.edu	37	chr14	77600151	77600151	+	Frame_Shift_Del	DEL	C	-	-																															gggccgggccctcactgccaCccccttccgcacctggtggc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:77600151delC	uc010asp.2	-	3	870	c.667delG	c.(667-669)GTGfs	p.V223fs		NM_174976	NP_777636	Q8N966	ZDH22_HUMAN	zinc finger, DHHC domain containing 22	223						integral to membrane	acyltransferase activity|zinc ion binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0277)		CTCACTGCCACCCCCTTCCGC	0.652													12	24	---	---	---	---						.	-	77600151	-	-	77600151	7	5	190	1	0	1	0	1	0	0	0	0	17638	507	18	0	128	0	ZDHHC22	14	77600151	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1997676	77600151	29749389	962	95115											
GALC	2581	broad.mit.edu	37	chr14	88450866	88450866	+	Missense_Mutation	SNP	A	G	G	1	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	tcccagccatccagggaatgAccatggcaaccctgcagaga	12	5	10	14	0	0	2	0	1	0	1	2	4	2	3	5	2	3	2	5	2	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:88450866A>G	uc001xvt.2	-	5	853	c.454T>C	c.(454-456)TCA>CCA	p.S152P	GALC_uc010tvx.1_Missense_Mutation_p.S126P|GALC_uc010tvy.1_Missense_Mutation_p.S129P|GALC_uc010tvz.1_Missense_Mutation_p.S96P|GALC_uc001xvu.1_Missense_Mutation_p.S152P	NM_000153	NP_000144	P54803	GALC_HUMAN	galactosylceramidase isoform a precursor	152					carbohydrate metabolic process|galactosylceramide catabolic process	lysosome	cation binding|galactosylceramidase activity				0						CCAGGGAATGACCATGGCAAC	0.468													17	23					0	0	1	0	0		G	88450866	G	G	88450866	3	3	190	1	0	0	0	0	1	0	0	0	6216	275	10	3	1718	3	GALC	14	88450866	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	10850715	88450866	18898674	963	95116											
CATSPERB	79820	broad.mit.edu	37	chr14	92047403	92047403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cactaccgctgttgccacggCaataagcgtgtgtcctggga	8	9	12	12	3	0	0	0	0	0	0	1	1	1	1	3	2	3	3	3	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:92047403C>T	uc001xzs.1	-	27	3321	c.3181G>A	c.(3181-3183)GCC>ACC	p.A1061T	CATSPERB_uc010aub.1_Missense_Mutation_p.A583T	NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta	1061	Helical; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				GTTGCCACGGCAATAAGCGTG	0.418													18	14					0	0	1	0	0		T	92047403	T	T	92047403	3	4	190	1	0	0	0	0	1	0	0	0	2694	710	25	2	173	2	CATSPERB	14	92047403	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3596537	92047403	15302137	964	95117											
SERPINA3	12	broad.mit.edu	37	chr14	95058423	95058423	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	aaagctgtggtggaggtggaCgagtcgggaaccagagcagc	11	5	18	7	2	0	1	0	0	0	1	1	5	0	4	1	5	4	2	1	5	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:95058423C>T	uc001ydo.3	+	1	29	c.-859C>T	c.(-861--857)GACGA>GATGA		SERPINA5_uc001ydm.2_Silent_p.D356D	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3						acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		TGGAGGTGGACGAGTCGGGAA	0.572													93	134					0	0	1	0	0		T	95058423	T	T	95058423	1	4	190	1	0	0	0	0	0	0	0	0	14115	535	19	1		1	SERPINA3	14	95058423	Translation_Start_Site	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3011020	95058423	12291117	965	95118											
SERPINA3	12	broad.mit.edu	37	chr14	95080920	95080920	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggacacacgtggacctcGgattagcctccgccaacgtg	9	6	13	13	4	0	0	0	0	0	0	2	4	1	3	4	3	2	0	4	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:95080920G>A	uc001ydp.2	+	2	221	c.142G>A	c.(142-144)GGA>AGA	p.G48R	SERPINA3_uc001ydo.3_Missense_Mutation_p.G73R|SERPINA3_uc010avf.1_RNA|SERPINA3_uc001ydr.2_RNA|SERPINA3_uc001ydq.2_Missense_Mutation_p.G48R|SERPINA3_uc001yds.2_Missense_Mutation_p.G48R|SERPINA3_uc010avg.2_Missense_Mutation_p.G48R	NM_001085	NP_001076	P01011	AACT_HUMAN	serpin peptidase inhibitor, clade A, member 3	48					acute-phase response|maintenance of gastrointestinal epithelium|regulation of lipid metabolic process|regulation of proteolysis	extracellular region|nucleus	DNA binding|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|skin(1)	6		all_cancers(154;0.0525)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.212)|Epithelial(152;0.228)		CGTGGACCTCGGATTAGCCTC	0.567													35	60					0	0	1	0	0		A	95080920	A	A	95080920	3	1	190	1	0	0	0	0	1	0	0	0	14115	1117	39	1	144	1	SERPINA3	14	95080920	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	22497	95080920	12268620	966	95119											
AK7	122481	broad.mit.edu	37	chr14	96875210	96875211	+	Frame_Shift_Ins	INS	-	A	A																															tgaagaagtcagccactttgINSaaaagcgaaagctatttatt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:96875210_96875211insA	uc001yfn.2	+	4	474_475	c.430_431insA	c.(430-432)GAAfs	p.E144fs		NM_152327	NP_689540	Q96M32	KAD7_HUMAN	adenylate kinase 7	144	Potential.				cell projection organization	cytosol	adenylate kinase activity|ATP binding|cytidylate kinase activity			ovary(1)	1		all_cancers(154;0.0482)|all_epithelial(191;0.128)|Melanoma(154;0.155)		Epithelial(152;0.134)|COAD - Colon adenocarcinoma(157;0.228)		CAGCCACTTTGAAAAGCGAAAG	0.46													20	40	---	---	---	---						.	A	96875211	A	A	96875210	7	5	190	1	0	1	1	0	0	0	0	0	444	1291	45	0	444	0	AK7	14	96875210	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	1794290	96875210	10474330	967	95120											
C14orf68	283600	broad.mit.edu	37	chr14	100795725	100795725	+	Frame_Shift_Del	DEL	G	-	-																															tcccgggcgtgctggtggccGggggctgtgcaggagtcctg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:100795725delG	uc001yhc.2	+	6	743	c.670delG	c.(670-672)GGGfs	p.G224fs	C14orf68_uc001yhd.2_Frame_Shift_Del_p.G78fs	NM_207117	NP_997000	Q6Q0C1	S2547_HUMAN	chromosome 14 open reading frame 68	224	Helical; Name=5; (Potential).|Solcar 3.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0		Melanoma(154;0.152)				GCTGGTGGCCGGGGGCTGTGC	0.697													31	53	---	---	---	---						.	-	100795725	-	-	100795725	7	5	190	1	0	1	0	1	0	0	0	0	1781	1116	39	0	692	0	C14orf68	14	100795725	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	3920515	100795725	6553815	968	95121											
DYNC1H1	1778	broad.mit.edu	37	chr14	102476416	102476416	+	Frame_Shift_Del	DEL	T	-	-																															ttgccaacaaaatcgtcccgTtttttaagtaagtagcctag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:102476416delT	uc001yks.2	+	30	6378	c.6214delT	c.(6214-6216)TTTfs	p.F2072fs		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2072	AAA 1 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AATCGTCCCGTTTTTTAAGTA	0.413													45	50	---	---	---	---						.	-	102476416	-	-	102476416	7	5	190	1	0	1	0	1	0	0	0	0	4847	1725	60	0	6332	0	DYNC1H1	14	102476416	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	1680691	102476416	4873124	969	95122											
HSP90AA1	3320	broad.mit.edu	37	chr14	102550309	102550309	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcctccgagtctaccacccCtctaatgaagtctgaaaaaa	14	9	5	13	1	3	2	0	2	3	0	5	3	5	2	5	0	1	0	5	0	6	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:102550309C>A	uc001yku.3	-	7	1349	c.1159G>T	c.(1159-1161)GGG>TGG	p.G387W	HSP90AA1_uc001ykv.3_Missense_Mutation_p.G509W|HSP90AA1_uc001ykw.1_Missense_Mutation_p.G208W|HSP90AA1_uc001ykx.1_Missense_Mutation_p.G376W	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	387					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	TCTACCACCCCTCTAATGAAG	0.368													18	35					2.35188e-11	2.48153e-11	1	1	0		A	102550309	A	A	102550309	3	1	190	1	0	0	0	0	1	0	0	0	7417	681	24	5	1059	5	HSP90AA1	14	102550309	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	73893	102550309	4799231	970	95123											
KIF26A	26153	broad.mit.edu	37	chr14	104642584	104642584	+	Frame_Shift_Del	DEL	G	-	-																															cctgccctggatggttccctGggggatggaagctctgggtt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:104642584delG	uc001yos.3	+	12	3459	c.3459delG	c.(3457-3459)CTGfs	p.L1153fs		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	1153					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		ATGGTTCCCTGGGGGATGGAA	0.711													6	6	---	---	---	---						.	-	104642584	-	-	104642584	7	5	190	1	0	1	0	1	0	0	0	0	8310	1335	47	0	3505	0	KIF26A	14	104642584	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	2092275	104642584	2706956	971	95124											
AHNAK2	113146	broad.mit.edu	37	chr14	105410862	105410862	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgaatgacggcatcttgaaTttgggcattttgaacttgct	9	15	10	7	1	1	4	0	4	1	0	1	4	1	4	0	2	2	3	0	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:105410862T>C	uc010axc.1	-	7	11046	c.10926A>G	c.(10924-10926)AAA>AAG	p.K3642K	AHNAK2_uc001ypx.2_Silent_p.K3542K	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3642						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			GCATCTTGAATTTGGGCATTT	0.592													33	162					0	0	1	0	0		C	105410862	C	C	105410862	2	2	190	1	0	0	0	0	0	0	0	1	415	1490	52	3		3	AHNAK2	14	105410862	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	768278	105410862	1938678	972	95125											
AHNAK2	113146	broad.mit.edu	37	chr14	105418827	105418827	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcagtcacgtccttgtcGgccagggacaggtccccctc	5	9	12	15	2	1	0	1	0	0	0	5	1	3	1	4	4	0	1	4	4	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:105418827G>A	uc010axc.1	-	7	3081	c.2961C>T	c.(2959-2961)GCC>GCT	p.A987A	AHNAK2_uc001ypx.2_Silent_p.A887A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	987						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CGTCCTTGTCGGCCAGGGACA	0.617													17	382					0	0	1	0	0		A	105418827	A	A	105418827	2	1	190	1	0	0	0	0	0	0	0	1	415	1103	39	1		1	AHNAK2	14	105418827	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	7965	105418827	1930713	973	95126											
TMEM121	80757	broad.mit.edu	37	chr14	105995483	105995483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggcggcgcggcgcggcgcGgcggaccccgtggcgcgcaa	5	1	20	15	11	0	0	0	0	0	0	0	1	0	1	2	7	0	1	2	7	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr14:105995483G>A	uc001yrp.1	+	2	463	c.312G>A	c.(310-312)GCG>GCA	p.A104A	ADAM6_uc010tyt.1_Intron|uc001yrr.2_5'Flank	NM_025268	NP_079544	Q9BTD3	TM121_HUMAN	hole protein	104						integral to membrane					0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.0959)|all cancers(159;0.235)		ggcgcggcgcggcgGACCCCG	0.537													4	13					0	0	1	0	0		A	105995483	A	A	105995483	2	1	190	1	0	0	0	0	0	0	0	1	16060	1103	39	1		1	TMEM121	14	105995483	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	576656	105995483	1354057	974	95127											
C15orf2	23742	broad.mit.edu	37	chr15	24923884	24923884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	accatatactgcattgggcaCacctgttaatgctgagccag	11	10	9	11	0	0	1	0	1	0	0	0	1	0	1	3	1	4	4	3	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:24923884C>T	uc001ywo.2	+	1	3344	c.2870C>T	c.(2869-2871)ACA>ATA	p.T957I		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	957					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCATTGGGCACACCTGTTAAT	0.488													8	62					0	0	1	0	0		T	24923884	T	T	24923884	3	4	190	1	0	0	0	0	1	0	0	0	1787	478	17	4	2872	4	C15orf2	15	24923884	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		24923884	77607508	975	95128											
ATP10A	57194	broad.mit.edu	37	chr15	25947181	25947181	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacccaaatctgcaggcccGcttgacgcaatttagaaata	14	8	8	11	2	1	2	0	1	1	1	1	3	1	2	2	1	2	3	2	1	6	4	rs142704035		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:25947181G>A	uc010ayu.2	-	13	2748	c.2642C>T	c.(2641-2643)GCG>GTG	p.A881V		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	881	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CTGCAGGCCCGCTTGACGCAA	0.532													50	51					0	0	1	0	0		A	25947181	A	A	25947181	3	1	190	1	0	0	0	0	1	0	0	0	1117	1087	38	1	1893	1	ATP10A	15	25947181	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1023297	25947181	76584211	976	95129											
OCA2	4948	broad.mit.edu	37	chr15	28090178	28090178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acacacgacgtttgccgacgCgccaatcagtgtcccgttac	9	8	9	15	6	1	0	1	0	0	0	2	2	2	0	3	0	2	2	3	0	2	2	rs142988897	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:28090178C>T	uc001zbh.3	-	23	2469	c.2359G>A	c.(2359-2361)GCG>ACG	p.A787T	OCA2_uc010ayv.2_Missense_Mutation_p.A763T	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	787	Extracellular (Potential).		A -> V (in OCA2).		eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		TTTGCCGACGCGCCAATCAGT	0.388									Oculocutaneous_Albinism				13	23					0	0	1	0	0		T	28090178	T	T	28090178	3	4	190	1	0	0	0	0	1	0	0	0	10834	768	27	1	165	1	OCA2	15	28090178	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2142997	28090178	74441214	977	95130											
HERC2	8924	broad.mit.edu	37	chr15	28437288	28437288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaacggccacaaaataccGcagactgacctatttcgtga	14	7	8	12	3	0	4	0	2	0	2	1	4	0	4	3	1	2	1	3	1	5	3	rs61755662	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:28437288G>A	uc001zbj.2	-	53	8376	c.8270C>T	c.(8269-8271)GCG>GTG	p.A2757V	HERC2_uc001zbk.1_Missense_Mutation_p.A292V	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2757					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACAAAATACCGCAGACTGACC	0.473											OREG0022997	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	54	79					0	0	1	0	0		A	28437288	A	A	28437288	3	1	190	1	0	0	0	0	1	0	0	0	7074	1087	38	1	6398	1	HERC2	15	28437288	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	347110	28437288	74094104	978	95131											
HERC2	8924	broad.mit.edu	37	chr15	28493767	28493767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aataagcaaacgttgaaaacGcagtaacaaatccaatgaag	21	6	7	7	2	0	2	0	2	0	0	1	2	1	2	1	0	4	4	1	0	9	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:28493767G>A	uc001zbj.2	-	21	3272	c.3166C>T	c.(3166-3168)CGT>TGT	p.R1056C		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	1056					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CGTTGAAAACGCAGTAACAAA	0.388													19	27					0	0	1	0	0		A	28493767	A	A	28493767	3	1	190	1	0	0	0	0	1	0	0	0	7074	1087	38	1	11630	1	HERC2	15	28493767	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	56479	28493767	74037625	979	95132											
APBA2	321	broad.mit.edu	37	chr15	29397613	29397613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcccagtctatcggccaggCcttcagcgtggcctaccagg	6	7	12	16	3	2	0	1	0	1	0	3	0	2	0	5	4	2	0	5	4	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:29397613C>T	uc001zck.2	+	10	1763	c.1556C>T	c.(1555-1557)GCC>GTC	p.A519V	APBA2_uc010azj.2_Missense_Mutation_p.A507V|APBA2_uc010uat.1_Missense_Mutation_p.A507V|APBA2_uc001zcl.2_Missense_Mutation_p.A507V	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	519	PID.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		ATCGGCCAGGCCTTCAGCGTG	0.627													11	17					0	0	1	0	0		T	29397613	T	T	29397613	3	4	190	1	0	0	0	0	1	0	0	0	757	739	26	2	1586	2	APBA2	15	29397613	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	903846	29397613	73133779	980	95133											
TJP1	7082	broad.mit.edu	37	chr15	30001145	30001145	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcctgagcagtatcttctcGgtttggtggtctgaaagttg	6	15	13	7	1	3	2	0	2	3	0	4	2	3	2	1	3	2	4	1	3	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:30001145G>A	uc001zcr.2	-	25	4943	c.4468C>T	c.(4468-4470)CGA>TGA	p.R1490*	TJP1_uc010azl.2_Nonsense_Mutation_p.R1478*|TJP1_uc001zcq.2_Nonsense_Mutation_p.R1414*|TJP1_uc001zcs.2_Nonsense_Mutation_p.R1410*	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1490					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		GTATCTTCTCGGTTTGGTGGT	0.443													41	101					0	0	1	0	0		A	30001145	A	A	30001145	4	1	190	1	0	0	0	0	0	1	0	0	15954	1124	39	1	794	1	TJP1	15	30001145	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	603532	30001145	72530247	981	95134											
TJP1	7082	broad.mit.edu	37	chr15	30010706	30010706	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcaccatggagaggctcaaAatgacctgctctagaggtaa	14	7	11	9	0	2	3	1	1	1	2	2	4	2	3	2	3	2	4	2	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:30010706A>C	uc001zcr.2	-	21	4115	c.3640T>G	c.(3640-3642)TTT>GTT	p.F1214V	TJP1_uc010azl.2_Missense_Mutation_p.F1202V|TJP1_uc001zcq.2_Missense_Mutation_p.F1138V|TJP1_uc001zcs.2_Missense_Mutation_p.F1134V	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1214					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		AGAGGCTCAAAATGACCTGCT	0.522													43	53					0	0	1	0	0		C	30010706	C	C	30010706	3	2	190	1	0	0	0	0	1	0	0	0	15954	14	1	5	1638	5	TJP1	15	30010706	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	9561	30010706	72520686	982	95135											
CHRFAM7A	89832	broad.mit.edu	37	chr15	30659642	30659642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgggcatcttgcccccGtcggggtcgtggtggtggta	3	11	16	11	3	1	0	0	0	1	0	3	0	1	0	2	6	1	2	2	6	1	3	rs149651405		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:30659642G>A	uc001zdt.1	-	9	1265	c.699C>T	c.(697-699)GAC>GAT	p.D233D	DKFZP434L187_uc001zds.2_Intron|CHRFAM7A_uc001zdu.1_Silent_p.D142D|CHRFAM7A_uc010azn.2_Silent_p.D142D	NM_139320	NP_647536	Q494W8	CRFM7_HUMAN	CHRNA7-FAM7A fusion isoform 1	233						integral to membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity			skin(1)	1		all_lung(180;3.42e-11)|Breast(32;0.000153)		all cancers(64;1.9e-15)|Epithelial(43;3.59e-12)|GBM - Glioblastoma multiforme(186;9e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)|Lung(196;0.153)		TCTTGCCCCCGTCGGGGTCGT	0.587													12	36					0	0	1	0	0		A	30659642	A	A	30659642	2	1	190	1	0	0	0	0	0	0	0	1	3378	1136	40	1		1	CHRFAM7A	15	30659642	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	648936	30659642	71871750	983	95136											
MTMR10	54893	broad.mit.edu	37	chr15	31233850	31233850	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtggtgagggccgctggcGttgaagtacatcctgctctg	5	11	16	9	2	1	2	0	2	1	0	2	2	2	2	2	3	2	4	2	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:31233850G>A	uc001zfh.1	-	16	2255	c.2157C>T	c.(2155-2157)AAC>AAT	p.N719N	MTMR15_uc001zff.2_3'UTR|MTMR15_uc001zfe.2_3'UTR|MTMR10_uc010ubk.1_Silent_p.N133N|MTMR10_uc001zfg.1_Silent_p.N300N|MTMR10_uc010azx.1_Silent_p.N471N|MTMR10_uc001zfi.1_3'UTR	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	719							phosphatase activity			ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		GGCCGCTGGCGTTGAAGTACA	0.587													8	13					0	0	1	0	0		A	31233850	A	A	31233850	2	1	190	1	0	0	0	0	0	0	0	1	9957	1136	40	1		1	MTMR10	15	31233850	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	574208	31233850	71297542	984	95137											
TRPM1	4308	broad.mit.edu	37	chr15	31294935	31294936	+	Frame_Shift_Ins	INS	-	T	T																															ctttatacggaaggaacaggINStttttttcctgactcctgtc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:31294935_31294936insT	uc001zfm.2	-	27	4029_4030	c.3901_3902insA	c.(3901-3903)ACCfs	p.T1301fs	TRPM1_uc010azy.2_Frame_Shift_Ins_p.T1208fs|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1301	Cytoplasmic (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GAAGGAACAGGTTTTTTTCCTG	0.446													35	65	---	---	---	---						.	T	31294936	T	T	31294935	7	5	190	1	0	1	1	0	0	0	0	0	16611	1261	44	0	913	0	TRPM1	15	31294935	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	61085	31294935	71236457	985	95138											
THBS1	7057	broad.mit.edu	37	chr15	39875816	39875817	+	Splice_Site	INS	-	G	G																															atgtgtgtcctctgcccacaINSgggggtgctgcagaatgtga																								rs112381547		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:39875816_39875817insG	uc001zkh.2	+	4	807	c.628_splice	c.e4-1	p.G210_splice		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor						activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CTCTGCCCACAGGGGGTGCTGC	0.51											OREG0023051	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	48	---	---	---	---						.	G	39875817	G	G	39875816	8	5	190	1	0	1	1	0	0	0	1	0	15878	202	7	0	636	0	THBS1	15	39875816	Splice_Site	INS	-	TCGA-F1-6177-01A-11D-1800-08	8580881	39875816	62655576	986	95139											
THBS1	7057	broad.mit.edu	37	chr15	39885703	39885703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctaccagtccagcagccGcttttatgttgtgatgtgga	7	13	12	9	1	0	1	0	1	0	0	1	2	1	2	3	2	3	4	3	2	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:39885703G>A	uc001zkh.2	+	19	3280	c.3101G>A	c.(3100-3102)CGC>CAC	p.R1034H	THBS1_uc010bbi.2_Missense_Mutation_p.R506H	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	1034	TSP C-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	TCCAGCAGCCGCTTTTATGTT	0.502													73	139					0	0	1	0	0		A	39885703	A	A	39885703	3	1	190	1	0	0	0	0	1	0	0	0	15878	1087	38	1	3171	1	THBS1	15	39885703	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	9887	39885703	62645689	987	95140											
FSIP1	161835	broad.mit.edu	37	chr15	39910098	39910098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgtgtcactaataataaCgtccttggaaaattgaaggc	13	14	8	6	1	1	1	1	1	0	0	2	2	2	2	1	2	1	0	1	2	6	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:39910098C>T	uc001zki.2	-	11	1755	c.1537G>A	c.(1537-1539)GTT>ATT	p.V513I		NM_152597	NP_689810	Q8NA03	FSIP1_HUMAN	fibrous sheath interacting protein 1	513										ovary(2)|skin(1)	3		all_cancers(109;2.66e-19)|all_epithelial(112;2.66e-16)|Lung NSC(122;1.5e-11)|all_lung(180;4.03e-10)|Melanoma(134;0.0575)|Ovarian(310;0.0827)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;8.22e-06)|BRCA - Breast invasive adenocarcinoma(123;0.142)		CTAATAATAACGTCCTTGGAA	0.398													50	65					0	0	1	0	0		T	39910098	T	T	39910098	3	4	190	1	0	0	0	0	1	0	0	0	6088	536	19	1	216	1	FSIP1	15	39910098	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	24395	39910098	62621294	988	95141											
INO80	54617	broad.mit.edu	37	chr15	41377755	41377755	+	Frame_Shift_Del	DEL	T	-	-																															aagttcttcatctcttcgtcTttttttcttcacttttttca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:41377755delT	uc001zni.2	-	7	898	c.685delA	c.(685-687)AGAfs	p.R229fs	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	229	Assembles INO80 complex module with putative regulatory components INO80E, INO80F, UCHL5, NFRKB, MCRS1 and IN80D.|Assembles INO80 complex module consisting of conserved components ACTR8, ACTL6A and YY1.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						TCTCTTCGTCTTTTTTTCTTC	0.443													28	43	---	---	---	---						.	-	41377755	-	-	41377755	7	5	190	1	0	1	0	1	0	0	0	0	7762	1617	56	0	4105	0	INO80	15	41377755	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	1467657	41377755	61153637	989	95142											
EHD4	30844	broad.mit.edu	37	chr15	42193061	42193061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtcaccatctccttcttggCgttgacacctgatatcttgc	6	14	8	13	1	4	2	1	2	3	0	5	2	4	2	3	2	1	1	3	2	1	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:42193061C>T	uc001zot.2	-	6	1471	c.1408G>A	c.(1408-1410)GCC>ACC	p.A470T		NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	470	EH.				endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		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)		TCCTTCTTGGCGTTGACACCT	0.587													22	35					0	0	1	0	0		T	42193061	T	T	42193061	3	4	190	1	0	0	0	0	1	0	0	0	4986	768	27	1	221	1	EHD4	15	42193061	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	815306	42193061	60338331	990	95143											
TTBK2	146057	broad.mit.edu	37	chr15	43067849	43067849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacgggacacagcaggaacGcaaggcttatgcagcagagc	13	4	14	10	2	0	1	0	0	0	1	0	3	0	3	0	3	6	6	0	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:43067849G>A	uc001zqo.2	-	13	1921	c.1482C>T	c.(1480-1482)TGC>TGT	p.C494C	TTBK2_uc010bcy.2_Silent_p.C425C	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	494					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		CAGCAGGAACGCAAGGCTTAT	0.483													43	61					0	0	1	0	0		A	43067849	A	A	43067849	2	1	190	1	0	0	0	0	0	0	0	1	16703	1079	38	1		1	TTBK2	15	43067849	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	874788	43067849	59463543	991	95144											
LCMT2	9836	broad.mit.edu	37	chr15	43622547	43622547	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggtgaatgagcggtgcgcgGcgcgccgcgcccggaaccag	6	3	18	14	9	0	2	0	2	0	0	0	3	0	3	3	4	3	0	3	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:43622547G>C	uc001zrg.2	-	1	345	c.141C>G	c.(139-141)CGC>CGG	p.R47R	LCMT2_uc010udn.1_Intron|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	47					tRNA processing		methyltransferase activity|protein binding				0		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)	GCGGTGCGCGGCGCGCCGCGC	0.706													14	26					0	0	1	0	0		C	43622547	C	C	43622547	2	2	190	1	0	0	0	0	0	0	0	1	8695	1190	42	5		5	LCMT2	15	43622547	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	554698	43622547	58908845	992	95145											
MAP1A	4130	broad.mit.edu	37	chr15	43815948	43815948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagatccatgatgagccGgaggagcgcccagctccacc	10	4	14	13	2	0	3	0	2	0	1	2	7	2	5	5	3	3	1	5	3	0	0	rs142195148	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:43815948G>A	uc001zrt.2	+	4	2744	c.2277G>A	c.(2275-2277)CCG>CCA	p.P759P		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	759						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	ATGATGAGCCGGAGGAGCGCC	0.557													13	23					0	0	1	0	0		A	43815948	A	A	43815948	2	1	190	1	0	0	0	0	0	0	0	1	9245	1103	39	1		1	MAP1A	15	43815948	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	193401	43815948	58715444	993	95146											
WDR76	79968	broad.mit.edu	37	chr15	44127282	44127282	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttcgggattgtcaccctaCgaaaggaagagactgaagaa	14	9	11	7	2	1	3	1	1	0	2	2	7	1	5	1	2	1	0	1	2	5	4	rs146443201	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:44127282C>T	uc001zti.1	+	3	509	c.486C>T	c.(484-486)TAC>TAT	p.Y162Y		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	162											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		TGTCACCCTACGAAAGGAAGA	0.353													27	33					0	0	1	0	0		T	44127282	T	T	44127282	2	4	190	1	0	0	0	0	0	0	0	1	17352	547	19	1		1	WDR76	15	44127282	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	311334	44127282	58404110	994	95147											
B2M	567	broad.mit.edu	37	chr15	45003781	45003782	+	Frame_Shift_Del	DEL	CT	-	-																															ccttagctgtgctcgcgctaCtctctctttctggcctggag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:45003781_45003782delCT	uc001zuc.2	+	1	97_98	c.37_38delCT	c.(37-39)CTCfs	p.L13fs	B2M_uc010uek.1_Frame_Shift_Del_p.L13fs|B2M_uc010bdx.1_Frame_Shift_Del_p.L13fs	NM_004048	NP_004039	P61769	B2MG_HUMAN	beta-2-microglobulin precursor	13					antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of defense response to virus by virus|viral reproduction	early endosome membrane|Golgi membrane|MHC class I protein complex	protein binding			ovary(2)|skin(1)	3		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													37	13	---	---	---	---						.	-	45003782	-	-	45003781	7	5	190	1	0	1	0	1	0	0	0	0	1245	565	20	0	39	0	B2M	15	45003781	Frame_Shift_Del	DEL	CT	TCGA-F1-6177-01A-11D-1800-08	876499	45003781	57527611	995	95148											
COPS2	9318	broad.mit.edu	37	chr15	49431799	49431799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atttcttgtgactgcactccGaatataggtcaatagctgct	10	14	8	9	1	2	1	1	1	1	0	3	2	3	1	1	1	3	3	1	1	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:49431799G>A	uc001zxf.2	-	4	377	c.298C>T	c.(298-300)CGG>TGG	p.R100W	COPS2_uc001zxh.2_Missense_Mutation_p.R100W|COPS2_uc010ufa.1_Missense_Mutation_p.R36W	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	100					cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		ACTGCACTCCGAATATAGGTC	0.313													56	86					0	0	1	0	0		A	49431799	A	A	49431799	3	1	190	1	0	0	0	0	1	0	0	0	3736	1057	37	1	1094	1	COPS2	15	49431799	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4428018	49431799	53099593	996	95149											
AP4E1	23431	broad.mit.edu	37	chr15	51221320	51221321	+	Frame_Shift_Ins	INS	-	G	G																															cactttgtgacagagatgttINSggggtcatggctgcctcctt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:51221320_51221321insG	uc001zyx.1	+	6	687_688	c.657_658insG	c.(655-660)GTTGGGfs	p.V219fs	AP4E1_uc010ufi.1_Frame_Shift_Ins_p.V219fs|AP4E1_uc010ufj.1_RNA|AP4E1_uc010ufk.1_RNA	NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	219_220					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		ACAGAGATGTTGGGGTCATGGC	0.342													37	69	---	---	---	---						.	G	51221321	G	G	51221320	7	5	190	1	0	1	1	0	0	0	0	0	752	1799	63	0	679	0	AP4E1	15	51221320	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	1789521	51221320	51310072	997	95150											
TNFAIP8L3	388121	broad.mit.edu	37	chr15	51350305	51350305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attggagagcacgttcctatCgaaggtgtattccacctcat	10	12	9	10	2	1	1	1	0	0	1	4	3	3	1	3	2	1	3	3	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:51350305C>T	uc001zyy.2	-	3	752	c.652G>A	c.(652-654)GAT>AAT	p.D218N		NM_207381	NP_997264	Q5GJ75	TP8L3_HUMAN	tumor necrosis factor, alpha-induced protein	218											0				all cancers(107;0.000389)|GBM - Glioblastoma multiforme(94;0.00338)		ACGTTCCTATCGAAGGTGTAT	0.547													7	81					0	0	1	0	0		T	51350305	T	T	51350305	3	4	190	1	0	0	0	0	1	0	0	0	16304	884	31	1	230	1	TNFAIP8L3	15	51350305	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	128985	51350305	51181087	998	95151											
GLDN	342035	broad.mit.edu	37	chr15	51696776	51696776	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagatatgagggtcacatTtgcctttgatttgttaggag	11	14	11	5	0	1	3	1	2	0	1	1	4	1	4	1	2	1	1	1	2	3	5	rs145926803		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:51696776T>C	uc002aba.2	+	10	1650	c.1481T>C	c.(1480-1482)TTT>TCT	p.F494S	GLDN_uc002abb.2_Missense_Mutation_p.F370S	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	494	Extracellular (Potential).|Olfactomedin-like.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		AGGGTCACATTTGCCTTTGAT	0.438													9	144					0	0	1	0	0		C	51696776	C	C	51696776	3	2	190	1	0	0	0	0	1	0	0	0	6449	1841	64	3	1519	3	GLDN	15	51696776	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	346471	51696776	50834616	999	95152											
ONECUT1	3175	broad.mit.edu	37	chr15	53081088	53081088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctccagggtttggggttgcGcagcaggtccgagagggtcc	5	8	18	10	2	0	1	0	0	0	1	3	2	3	1	3	5	2	5	3	5	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:53081088G>A	uc002aci.1	-	1	1122	c.994C>T	c.(994-996)CGC>TGC	p.R332C		NM_004498	NP_004489	Q9UBC0	HNF6_HUMAN	one cut homeobox 1	332	CUT.				endocrine pancreas development	nucleus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding				0				all cancers(107;0.0708)		TTGGGGTTGCGCAGCAGGTCC	0.647													31	33					0	0	1	0	0		A	53081088	A	A	53081088	3	1	190	1	0	0	0	0	1	0	0	0	10887	1087	38	1	411	1	ONECUT1	15	53081088	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1384312	53081088	49450304	1000	95153											
LIPC	3990	broad.mit.edu	37	chr15	58724239	58724239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtgaaacggagaaatggacaCaagtcccctgtgtttctcca	12	9	10	10	1	1	2	0	1	1	1	3	4	2	3	3	2	1	1	3	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:58724239C>T	uc010bga.1	+	3	616	c.8C>T	c.(7-9)ACA>ATA	p.T3I	LIPC_uc010bfz.1_Missense_Mutation_p.T3I|LIPC_uc002afa.1_Missense_Mutation_p.T3I|LIPC_uc010bgb.1_5'UTR|LIPC_uc010ugy.1_Missense_Mutation_p.T3I	NM_000236	NP_000227	P11150	LIPC_HUMAN	lipase C precursor	3					cholesterol homeostasis|chylomicron remnant clearance|fatty acid biosynthetic process|high-density lipoprotein particle remodeling|intermediate-density lipoprotein particle remodeling|low-density lipoprotein particle remodeling|phosphatidylcholine catabolic process|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein binding|heparin binding|low-density lipoprotein particle binding|phospholipase activity|triglyceride lipase activity			ovary(1)	1		Colorectal(260;0.215)		GBM - Glioblastoma multiforme(80;0.00213)|all cancers(107;0.00548)		GAAATGGACACAAGTCCCCTG	0.453													17	48					0	0	1	0	0		T	58724239	T	T	58724239	3	4	190	1	0	0	0	0	1	0	0	0	8837	478	17	4	10	4	LIPC	15	58724239	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5643151	58724239	43807153	1001	95154											
VPS13C	54832	broad.mit.edu	37	chr15	62256915	62256915	+	Frame_Shift_Del	DEL	T	-	-																															taccttttggcagagttgaaTttttttgttgtttttcagtt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:62256915delT	uc002agz.2	-	31	3271	c.3197delA	c.(3196-3198)AATfs	p.N1066fs	VPS13C_uc002aha.2_Frame_Shift_Del_p.N1023fs|VPS13C_uc002ahb.1_Frame_Shift_Del_p.N1066fs|VPS13C_uc002ahc.1_Frame_Shift_Del_p.N1023fs	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1066					protein localization					ovary(2)	2						CAGAGTTGAATTTTTTTGTTG	0.323													38	44	---	---	---	---						.	-	62256915	-	-	62256915	7	5	190	1	0	1	0	1	0	0	0	0	17217	1493	52	0	8312	0	VPS13C	15	62256915	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	3532676	62256915	40274477	1002	95155											
DENND4A	10260	broad.mit.edu	37	chr15	65954190	65954190	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacacatacaaatacatctTaaagataaggttctccaaag	18	11	4	8	0	2	1	0	0	2	1	3	1	2	1	1	1	3	1	1	1	8	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:65954190T>C	uc002aph.2	-	32	5969	c.5591A>G	c.(5590-5592)TAA>TGA	p.*1864*	DENND4A_uc002api.2_Silent_p.*1907*	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	1864					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						AAATACATCTTAAAGATAAGG	0.323													9	8					0	0	1	0	0		C	65954190	C	C	65954190	2	2	190	1	0	0	0	0	0	0	0	1	4439	1761	61	3		3	DENND4A	15	65954190	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	3697275	65954190	36577202	1003	95156											
RPL4	6124	broad.mit.edu	37	chr15	66793741	66793741	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctgaaggccttgatgatAccattatcctcattatagat	11	16	6	8	0	2	4	1	3	1	1	3	4	3	4	3	1	1	0	3	1	5	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:66793741A>G	uc002apv.2	-	6	704	c.648T>C	c.(646-648)GGT>GGC	p.G216G	RPL4_uc010bhr.2_Silent_p.G122G|RPL4_uc002apw.2_Silent_p.G122G|RPL4_uc002apx.2_Silent_p.G122G|RPL4_uc010ujq.1_Silent_p.G216G|SNORD18C_uc010bhs.1_5'Flank	NM_000968	NP_000959	P36578	RL4_HUMAN	ribosomal protein L4	216					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|nucleolus	protein binding|RNA binding|structural constituent of ribosome				0						CCTTGATGATACCATTATCCT	0.438													66	108					0	0	1	0	0		G	66793741	G	G	66793741	2	3	190	1	0	0	0	0	0	0	0	1	13620	378	14	3		3	RPL4	15	66793741	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	839551	66793741	35737651	1004	95157											
IQCH	64799	broad.mit.edu	37	chr15	67664607	67664607	+	Silent	SNP	C	T	T	0	0	0	1	1	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	attttttctctcttggaacaCgtcgagaagtttctcaggaa	10	15	8	8	2	3	1	1	0	3	1	6	4	3	3	0	2	1	1	0	2	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:67664607C>T	uc002aqo.1	+	9	959	c.912C>T	c.(910-912)CAC>CAT	p.H304H	IQCH_uc010ujv.1_Silent_p.H123H|IQCH_uc002aqn.1_Silent_p.H131H|IQCH_uc002aqq.1_Silent_p.H52H|IQCH_uc002aqp.1_Silent_p.H56H	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	304										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		TCTTGGAACACGTCGAGAAGT	0.393													34	80					0	0	1	0	0		T	67664607	T	T	67664607	2	4	190	1	0	0	0	0	0	0	0	1	7827	535	19	1		1	IQCH	15	67664607	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	870866	67664607	34866785	1005	95158											
PIAS1	8554	broad.mit.edu	37	chr15	68468059	68468059	+	Frame_Shift_Del	DEL	A	-	-																															acttgggcaccgatgagatcAaaaaaggaagtacaggaagt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:68468059delA	uc002aqz.2	+	10	1350	c.1254delA	c.(1252-1254)TCAfs	p.S418fs	PIAS1_uc002ara.2_Frame_Shift_Del_p.S26fs	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	418					androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						CGATGAGATCAAAAAAGGAAG	0.408													9	13	---	---	---	---						.	-	68468059	-	-	68468059	7	5	190	1	0	1	0	1	0	0	0	0	11894	117	5	0	1292	0	PIAS1	15	68468059	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	803452	68468059	34063333	1006	95159											
ITGA11	22801	broad.mit.edu	37	chr15	68612614	68612614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcccctgttctccagtgtgGcctccaccgccactcgctgg	3	9	10	19	3	1	0	0	0	1	0	4	0	2	0	7	2	0	2	7	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:68612614G>A	uc002ari.2	-	20	2612	c.2525C>T	c.(2524-2526)GCC>GTC	p.A842V	ITGA11_uc010bib.2_Missense_Mutation_p.A842V	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	842	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CTCCAGTGTGGCCTCCACCGC	0.572													20	20					0	0	1	0	0		A	68612614	A	A	68612614	3	1	190	1	0	0	0	0	1	0	0	0	7890	1203	42	2	1085	2	ITGA11	15	68612614	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	144555	68612614	33918778	1007	95160											
KIF23	9493	broad.mit.edu	37	chr15	69709798	69709798	+	Missense_Mutation	SNP	A	G	G	1	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	gatcaataatacaactgttcAgcttcatactcctgagggct	12	12	7	10	0	3	1	3	1	0	0	4	2	4	1	1	1	4	3	1	1	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:69709798A>G	uc002asb.2	+	3	275	c.158A>G	c.(157-159)CAG>CGG	p.Q53R	KIF23_uc002asc.2_Missense_Mutation_p.Q53R|KIF23_uc010bii.2_5'UTR|KIF23_uc010bih.1_RNA	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	53	Kinesin-motor.				blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						ACAACTGTTCAGCTTCATACT	0.413													58	64					0	0	1	0	0		G	69709798	G	G	69709798	3	3	190	1	0	0	0	0	1	0	0	0	8307	188	7	3	168	3	KIF23	15	69709798	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1097184	69709798	32821594	1008	95161											
NEO1	4756	broad.mit.edu	37	chr15	73585744	73585744	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcacagctgtgattagtgcCcatcccatccattccctcga	8	12	6	15	1	1	1	1	1	0	0	5	2	4	1	4	0	2	1	4	0	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:73585744C>A	uc002avm.3	+	26	3898	c.3756C>A	c.(3754-3756)GCC>GCA	p.A1252A	NEO1_uc010ukx.1_Silent_p.A1241A|NEO1_uc010uky.1_Intron|NEO1_uc010ukz.1_Silent_p.A665A|NEO1_uc002avn.3_Silent_p.A890A	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	1252	Cytoplasmic (Potential).				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						TGATTAGTGCCCATCCCATCC	0.507													67	118					3.58576e-35	3.92201e-35	1	1	0		A	73585744	A	A	73585744	2	1	190	1	0	0	0	0	0	0	0	1	10355	610	22	5		5	NEO1	15	73585744	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3875946	73585744	28945648	1009	95162											
HCN4	10021	broad.mit.edu	37	chr15	73615907	73615907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacctgggacgggctgctggCgggcgaggcggagcccagcg	5	3	20	13	5	0	0	0	0	0	0	0	3	0	2	2	6	3	2	2	6	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:73615907C>T	uc002avp.2	-	8	3521	c.2527G>A	c.(2527-2529)GCC>ACC	p.A843T		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	843	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		GGGCTGCTGGCGGGCGAGGCG	0.672													24	47					0	0	1	0	0		T	73615907	T	T	73615907	3	4	190	1	0	0	0	0	1	0	0	0	7015	768	27	1	1088	1	HCN4	15	73615907	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	30163	73615907	28915485	1010	95163											
STRA6	64220	broad.mit.edu	37	chr15	74488486	74488486	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccagccaagaaatccacaGggctagcacagaggcaagga	15	2	11	13	0	0	2	0	0	0	2	1	3	1	3	4	3	2	3	4	3	4	1	rs118203961		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:74488486G>T	uc002axk.2	-	5	451	c.269C>A	c.(268-270)CCT>CAT	p.P90H	STRA6_uc002axi.2_Translation_Start_Site|STRA6_uc010ulh.1_Missense_Mutation_p.P128H|STRA6_uc002axj.2_Missense_Mutation_p.P129H|STRA6_uc010bji.2_Missense_Mutation_p.P90H|STRA6_uc002axl.2_Missense_Mutation_p.P22H|STRA6_uc002axm.2_Missense_Mutation_p.P90H|STRA6_uc002axn.2_Intron|STRA6_uc010uli.1_Missense_Mutation_p.P127H|STRA6_uc010bjj.1_RNA|STRA6_uc010bjk.2_Missense_Mutation_p.P90H	NM_022369	NP_071764	Q9BX79	STRA6_HUMAN	stimulated by retinoic acid gene 6 homolog	90	Cytoplasmic (Potential).		P -> L (in MCOPS9).		adrenal gland development|alveolar primary septum development|developmental growth|diaphragm development|digestive tract morphogenesis|ear development|embryonic camera-type eye formation|embryonic digestive tract development|eyelid development in camera-type eye|face morphogenesis|feeding behavior|female genitalia development|kidney development|lung vasculature development|neuromuscular process|nose morphogenesis|paramesonephric duct development|positive regulation of behavior|pulmonary artery morphogenesis|pulmonary valve morphogenesis|smooth muscle tissue development|transport|uterus morphogenesis|ventricular septum development|vocal learning	integral to membrane|plasma membrane|protein complex	receptor activity			central_nervous_system(1)	1						GAAATCCACAGGGCTAGCACA	0.602													8	10					0.000274275	0.000278946	1	1	0		T	74488486	T	T	74488486	3	4	190	1	0	0	0	0	1	0	0	0	15347	1000	35	5	1844	5	STRA6	15	74488486	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	872579	74488486	28042906	1011	95164											
CLK3	1198	broad.mit.edu	37	chr15	74911653	74911653	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagactgcgatacccgtcccGaagggagcctcccccacgaa	10	4	11	16	4	0	1	0	0	0	1	2	6	2	2	5	1	3	0	5	1	3	1	rs150279637		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:74911653G>A	uc010uln.1	+	2	1021	c.560G>A	c.(559-561)CGA>CAA	p.R187Q	CLK3_uc002ayg.3_Missense_Mutation_p.R39Q|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Missense_Mutation_p.R187Q|CLK3_uc002ayj.3_Missense_Mutation_p.R39Q|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	187	Arg-rich.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						TACCCGTCCCGAAGGGAGCCT	0.592													39	58					0	0	1	0	0		A	74911653	A	A	74911653	3	1	190	1	0	0	0	0	1	0	0	0	3541	1058	37	1	566	1	CLK3	15	74911653	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	423167	74911653	27619739	1012	95165											
SGK269	79834	broad.mit.edu	37	chr15	77473380	77473380	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctgcagagacttgtttcGcagggggatggtattccatt	7	14	12	8	1	1	1	0	0	1	1	4	3	2	2	1	3	1	4	1	3	1	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:77473380G>A	uc002bcm.2	-	3	1197	c.889C>T	c.(889-891)CGA>TGA	p.R297*	SGK269_uc002bcn.2_Nonsense_Mutation_p.R297*	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	297					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		GACTTGTTTCGCAGGGGGATG	0.443													50	66					0	0	1	0	0		A	77473380	A	A	77473380	4	1	190	1	0	0	0	0	0	1	0	0	14236	1095	38	1	4367	1	SGK269	15	77473380	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2561727	77473380	25058012	1013	95166											
CHRNB4	1143	broad.mit.edu	37	chr15	78921959	78921959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtagaacagaggcttgcGcttgatgatgaagtcgtaag	11	10	15	5	2	0	5	0	3	0	2	1	5	0	5	0	2	2	4	0	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:78921959G>A	uc002bed.1	-	5	800	c.688C>T	c.(688-690)CGC>TGC	p.R230C	CHRNB4_uc002bee.1_Intron|CHRNB4_uc010blh.1_Missense_Mutation_p.R48C	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	230	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						AGAGGCTTGCGCTTGATGATG	0.572													51	58					0	0	1	0	0		A	78921959	A	A	78921959	3	1	190	1	0	0	0	0	1	0	0	0	3396	1087	38	1	816	1	CHRNB4	15	78921959	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1448579	78921959	23609433	1014	95167											
AP3B2	8120	broad.mit.edu	37	chr15	83350299	83350299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggatgctagagaggacacGgagggcactggcacgaatca	13	4	15	9	3	1	1	1	0	0	1	1	6	1	4	0	5	1	3	0	5	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:83350299G>A	uc010uoh.1	-	5	571	c.394C>T	c.(394-396)CGT>TGT	p.R132C	AP3B2_uc010uoi.1_Missense_Mutation_p.R132C|AP3B2_uc010uoj.1_Missense_Mutation_p.R100C|AP3B2_uc010uog.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	132					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			GAGAGGACACGGAGGGCACTG	0.582													20	31					0	0	1	0	0		A	83350299	A	A	83350299	3	1	190	1	0	0	0	0	1	0	0	0	745	1116	39	1	2866	1	AP3B2	15	83350299	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4428340	83350299	19181093	1015	95168											
AKAP13	11214	broad.mit.edu	37	chr15	86028977	86028977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acttaatccacagcaagctcCcttatatgtgagtaaatcat	14	12	5	10	0	1	1	1	1	0	0	3	1	3	1	2	0	2	3	2	0	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:86028977C>T	uc002blv.1	+	2	196	c.26C>T	c.(25-27)CCC>CTC	p.P9L	AKAP13_uc002bls.2_Missense_Mutation_p.P9L|AKAP13_uc002blt.1_Missense_Mutation_p.P9L|AKAP13_uc002blu.1_Missense_Mutation_p.P9L	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	9					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CAGCAAGCTCCCTTATATGTG	0.333													13	24					0	0	1	0	0		T	86028977	T	T	86028977	3	4	190	1	0	0	0	0	1	0	0	0	449	623	22	4	28	4	AKAP13	15	86028977	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2678678	86028977	16502415	1016	95169											
ACAN	176	broad.mit.edu	37	chr15	89382169	89382169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccggccatccccagtgacGccaccttggaagtccagagc	9	5	10	17	2	0	2	0	1	0	1	2	3	2	3	7	2	1	0	7	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:89382169G>A	uc010upo.1	+	3	720	c.346G>A	c.(346-348)GCC>ACC	p.A116T	ACAN_uc002bmx.2_Missense_Mutation_p.A116T|ACAN_uc010upp.1_Missense_Mutation_p.A116T|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	116					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CCCCAGTGACGCCACCTTGGA	0.627													58	70					0	0	1	0	0		A	89382169	A	A	89382169	3	1	190	1	0	0	0	0	1	0	0	0	117	1087	38	1	352	1	ACAN	15	89382169	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3353192	89382169	13149223	1017	95170											
SEMA4B	10509	broad.mit.edu	37	chr15	90771643	90771643	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagcgtgcaccccaagacctGccctgtggtgctgccccctg	5	7	11	18	1	0	1	0	0	0	1	0	1	0	1	6	1	5	2	6	1	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:90771643G>A	uc002boy.2	+	15	2565	c.2282G>A	c.(2281-2283)TGC>TAC	p.C761Y	SEMA4B_uc002boz.2_Missense_Mutation_p.C761Y|SEMA4B_uc010uqd.1_Missense_Mutation_p.C599Y|SEMA4B_uc002bpa.2_Missense_Mutation_p.C599Y|SEMA4B_uc010bnv.1_Intron	NM_020210	NP_064595			semaphorin 4B precursor											ovary(1)|breast(1)|kidney(1)	3	Melanoma(11;0.00551)|Lung NSC(78;0.0125)|all_lung(78;0.0272)		BRCA - Breast invasive adenocarcinoma(143;0.0107)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.217)			CCCAAGACCTGCCCTGTGGTG	0.637													7	8					0	0	1	0	0		A	90771643	A	A	90771643	3	1	190	1	0	0	0	0	1	0	0	0	14057	1319	46	2	2336	2	SEMA4B	15	90771643	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1389474	90771643	11759749	1018	95171											
TTLL13	440307	broad.mit.edu	37	chr15	90796498	90796498	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtgcgtcgggcagcccaaAtgtgtggcctgaaggaggtg	8	7	17	9	2	0	1	0	1	0	0	1	2	0	2	2	4	2	1	2	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:90796498A>T	uc002bpd.1	+	4	604	c.316A>T	c.(316-318)ATG>TTG	p.M106L	TTLL13_uc002bpe.1_RNA	NM_001029964	NP_001025135	A6NNM8	TTL13_HUMAN	tubulin tyrosine ligase-like family, member 13	106	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity				0	Melanoma(11;0.00551)|Lung NSC(78;0.0178)|all_lung(78;0.0378)		KIRC - Kidney renal clear cell carcinoma(17;0.0286)|BRCA - Breast invasive adenocarcinoma(143;0.0323)|Kidney(142;0.0514)			GGCAGCCCAAATGTGTGGCCT	0.552													7	16					0	0	1	0	0		T	90796498	T	T	90796498	3	4	190	1	0	0	0	0	1	0	0	0	16752	101	4	5	326	5	TTLL13	15	90796498	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	24855	90796498	11734894	1019	95172											
BLM	641	broad.mit.edu	37	chr15	91354578	91354578	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaaggaagaggaaaaagatgCcagcctcccaaaggtctaag	18	4	11	8	0	1	2	0	0	1	2	2	4	2	4	3	3	2	0	3	3	6	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:91354578C>A	uc002bpr.2	+	21	4115	c.4018C>A	c.(4018-4020)CCA>ACA	p.P1340T	BLM_uc010uqh.1_Missense_Mutation_p.P1340T|BLM_uc010uqi.1_Missense_Mutation_p.P965T|BLM_uc010bnx.2_Missense_Mutation_p.P1209T|BLM_uc002bpt.2_Missense_Mutation_p.P315T	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	1340	Nuclear localization signal (Potential).				double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			GAAAAAGATGCCAGCCTCCCA	0.463			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				24	44					7.07758e-08	7.34317e-08	1	1	0		A	91354578	A	A	91354578	3	1	190	1	0	0	0	0	1	0	0	0	1446	739	26	5	4096	5	BLM	15	91354578	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	558080	91354578	11176814	1020	95173											
ALDH1A3	220	broad.mit.edu	37	chr15	101440957	101440957	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgatgtcaaaacagaacaggGgcctcaggtaatccccctgg	12	6	11	12	1	2	1	2	0	0	1	3	2	3	1	3	4	2	1	3	4	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:101440957G>T	uc002bwn.3	+	9	1165	c.1061G>T	c.(1060-1062)GGG>GTG	p.G354V	ALDH1A3_uc010bpb.2_Missense_Mutation_p.G247V|uc002bwo.1_Intron	NM_000693	NP_000684	P47895	AL1A3_HUMAN	aldehyde dehydrogenase 1A3	354					retinal metabolic process	cytoplasm	aldehyde dehydrogenase|protein homodimerization activity			central_nervous_system(2)|lung(1)|pancreas(1)	4	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)		NADH(DB00157)|Vitamin A(DB00162)	ACAGAACAGGGGCCTCAGGTA	0.582													6	16					2.0095e-06	2.0634e-06	1	1	0		T	101440957	T	T	101440957	3	4	190	1	0	0	0	0	1	0	0	0	492	1232	43	5	1095	5	ALDH1A3	15	101440957	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10086379	101440957	1090435	1021	95174											
LRRK1	79705	broad.mit.edu	37	chr15	101529526	101529526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctacatcttgctggatagtCctgaccccagcaaacatctg	10	10	7	14	0	2	1	0	1	2	0	3	2	3	2	4	1	4	2	4	1	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr15:101529526C>T	uc002bwr.2	+	6	1004	c.685C>T	c.(685-687)CCT>TCT	p.P229S	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Missense_Mutation_p.P229S	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	229					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GCTGGATAGTCCTGACCCCAG	0.473													37	67					0	0	1	0	0		T	101529526	T	T	101529526	3	4	190	1	0	0	0	0	1	0	0	0	9050	855	30	4	703	4	LRRK1	15	101529526	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	88569	101529526	1001866	1022	95175											
AXIN1	8312	broad.mit.edu	37	chr16	347983	347983	+	Frame_Shift_Del	DEL	C	-	-																															tcccgtgccccgaggcggcaCcccccagtgccactggcatc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:347983delC	uc002cgp.1	-	6	1700	c.1523delG	c.(1522-1524)GGTfs	p.G508fs	AXIN1_uc002cgq.1_Frame_Shift_Del_p.G508fs	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	508	Interaction with RNF111.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CGAGGCGGCACCCCCCAGTGC	0.706													7	7	---	---	---	---						.	-	347983	-	-	347983	7	5	190	1	0	1	0	1	0	0	0	0	1237	507	18	0	1089	0	AXIN1	16	347983	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08		347983	90006770	1023	95176											
AXIN1	8312	broad.mit.edu	37	chr16	396234	396234	+	Frame_Shift_Del	DEL	G	-	-																															agcttctgagggagtcttccGgggggagcagcgtctctgcc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:396234delG	uc002cgp.1	-	2	969	c.792delC	c.(790-792)CCCfs	p.P264fs	AXIN1_uc002cgq.1_Frame_Shift_Del_p.P264fs	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	264	Interaction with TP53 (By similarity).				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				GGAGTCTTCCGGGGGGAGCAG	0.582													39	78	---	---	---	---						.	-	396234	-	-	396234	7	5	190	1	0	1	0	1	0	0	0	0	1237	1103	39	0	1836	0	AXIN1	16	396234	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	48251	396234	89958519	1024	95177											
AXIN1	8312	broad.mit.edu	37	chr16	396464	396464	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccatagtggcctggatttCggtctgggcctggtcaaaca	7	11	12	11	1	2	0	1	0	1	0	4	1	3	1	3	5	1	0	3	5	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:396464C>T	uc002cgp.1	-	2	739	c.562G>A	c.(562-564)GAA>AAA	p.E188K	AXIN1_uc002cgq.1_Missense_Mutation_p.E188K	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	188	RGS.				activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				GCCTGGATTTCGGTCTGGGCC	0.517											OREG0003698	type=REGULATORY REGION|Gene=AXIN1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	42	43					0	0	1	0	0		T	396464	T	T	396464	3	4	190	1	0	0	0	0	1	0	0	0	1237	893	31	1	2066	1	AXIN1	16	396464	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	230	396464	89958289	1025	95178											
TMEM8A	58986	broad.mit.edu	37	chr16	426792	426792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagcagaagctcccgcGtgtaatcggggacaaagacc	11	5	12	13	3	0	2	0	0	0	2	3	3	2	3	3	2	2	4	3	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:426792G>A	uc002cgu.3	-	5	785	c.656C>T	c.(655-657)ACG>ATG	p.T219M	TMEM8A_uc002cgv.3_Missense_Mutation_p.T26M	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	219	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						AAGCTCCCGCGTGTAATCGGG	0.667													11	20					0	0	1	0	0		A	426792	A	A	426792	3	1	190	1	0	0	0	0	1	0	0	0	16239	1145	40	1	1695	1	TMEM8A	16	426792	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	30328	426792	89927961	1026	95179											
STUB1	10273	broad.mit.edu	37	chr16	731217	731217	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctacctgaagatgcagcaGcacgagcaggccctggccga	10	5	13	13	2	0	2	0	1	0	1	0	4	0	2	3	2	6	5	3	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:731217G>A	uc002cit.2	+	2	636	c.225G>A	c.(223-225)CAG>CAA	p.Q75Q	STUB1_uc002ciu.2_Silent_p.Q3Q|STUB1_uc010bqz.2_RNA|STUB1_uc002civ.2_RNA	NM_005861	NP_005852	Q9UNE7	CHIP_HUMAN	STIP1 homology and U-box containing protein 1	75	TPR 2.				cellular response to misfolded protein|DNA repair|misfolded or incompletely synthesized protein catabolic process|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein K63-linked ubiquitination|protein maturation|regulation of glucocorticoid metabolic process|ubiquitin-dependent SMAD protein catabolic process	cytoplasm|nuclear inclusion body|ubiquitin conjugating enzyme complex|ubiquitin ligase complex	Hsp70 protein binding|Hsp90 protein binding|kinase binding|misfolded protein binding|protein binding, bridging|protein homodimerization activity|SMAD binding|TPR domain binding|ubiquitin-ubiquitin ligase activity				0		Hepatocellular(780;0.00335)				AGATGCAGCAGCACGAGCAGG	0.672													6	9					0	0	1	0	0		A	731217	A	A	731217	2	1	190	1	0	0	0	0	0	0	0	1	15360	962	34	2		2	STUB1	16	731217	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	304425	731217	89623536	1027	95180											
EME2	197342	broad.mit.edu	37	chr16	1823424	1823424	+	Silent	SNP	C	T	T	0	0	0	1	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	cggctgccgaggcgttgcggCtgctgcggccggagcaggtc	3	6	19	13	6	0	0	0	0	0	0	1	2	0	1	2	6	5	5	2	6	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:1823424C>T	uc002cmq.1	+	1	196	c.196C>T	c.(196-198)CTG>TTG	p.L66L	NME3_uc002cmm.2_5'Flank|NME3_uc010brv.2_5'Flank|MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Silent_p.L66L	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2	66					DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						GGCGTTGCGGCTGCTGCGGCC	0.726								Direct_reversal_of_damage|Homologous_recombination					5	4					0	0	1	0	0		T	1823424	T	T	1823424	2	4	190	1	0	0	0	0	0	0	0	1	5097	796	28	2		2	EME2	16	1823424	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1092207	1823424	88531329	1028	95181											
NUBP2	10101	broad.mit.edu	37	chr16	1836845	1836845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcaccagtgcgaccgcGgctgggcacccgtcttcctg	4	8	13	16	4	1	0	0	0	1	0	2	1	2	0	4	2	2	3	4	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:1836845G>A	uc002cmw.3	+	3	312	c.223G>A	c.(223-225)GGC>AGC	p.G75S	NUBP2_uc002cmx.3_Intron|NUBP2_uc010brx.2_Missense_Mutation_p.G15S	NM_012225	NP_036357	Q9Y5Y2	NUBP2_HUMAN	nucleotide binding protein 2 (MinD homolog, E.	75						microtubule organizing center|nucleus	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|protein binding				0						GTGCGACCGCGGCTGGGCACC	0.682													10	19					0	0	1	0	0		A	1836845	A	A	1836845	3	1	190	1	0	0	0	0	1	0	0	0	10735	1116	39	1	233	1	NUBP2	16	1836845	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	13421	1836845	88517908	1029	95182											
ZNF598	90850	broad.mit.edu	37	chr16	2051158	2051158	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcggccacggaggcccGgacagcagctgctacttctc	6	7	13	15	3	1	0	0	0	1	0	2	2	1	2	2	4	5	3	2	4	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:2051158G>A	uc002cof.1	-	9	1063	c.1048C>T	c.(1048-1050)CGG>TGG	p.R350W	ZNF598_uc002coe.1_5'UTR	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	350						intracellular	zinc ion binding			lung(1)|breast(1)	2						ACGGAGGCCCGGACAGCAGCT	0.672													8	14					0	0	1	0	0		A	2051158	A	A	2051158	3	1	190	1	0	0	0	0	1	0	0	0	18053	1115	39	1	1690	1	ZNF598	16	2051158	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	214313	2051158	88303595	1030	95183											
ZNF598	90850	broad.mit.edu	37	chr16	2052542	2052542	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtagtagtcctgggccccGtccgagtcgcagaagtggca	7	8	14	12	3	0	1	0	0	0	1	3	2	2	1	4	2	0	4	4	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:2052542G>A	uc002cof.1	-	6	672	c.657C>T	c.(655-657)GAC>GAT	p.D219D	ZNF598_uc002coe.1_5'Flank	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	219						intracellular	zinc ion binding			lung(1)|breast(1)	2						CCTGGGCCCCGTCCGAGTCGC	0.642													26	38					0	0	1	0	0		A	2052542	A	A	2052542	2	1	190	1	0	0	0	0	0	0	0	1	18053	1136	40	1		1	ZNF598	16	2052542	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1384	2052542	88302211	1031	95184											
DNASE1L2	1775	broad.mit.edu	37	chr16	2287831	2287831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgggcgcaggactgggccGccatccgtctgaggagcagt	6	6	17	12	4	1	1	0	1	1	0	2	3	2	3	3	4	2	2	3	4	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:2287831G>A	uc002cpo.2	+	5	1049	c.655G>A	c.(655-657)GCC>ACC	p.A219T	DNASE1L2_uc002cpn.2_Missense_Mutation_p.A198T|DNASE1L2_uc002cpp.2_Missense_Mutation_p.A219T|DNASE1L2_uc002cpq.2_Missense_Mutation_p.A219T	NM_001374	NP_001365	Q92874	DNSL2_HUMAN	deoxyribonuclease I-like 2 precursor	219					DNA catabolic process	extracellular region	calcium ion binding|DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters|protein binding				0						GGACTGGGCCGCCATCCGTCT	0.667													11	11					0	0	1	0	0		A	2287831	A	A	2287831	3	1	190	1	0	0	0	0	1	0	0	0	4668	1087	38	1	673	1	DNASE1L2	16	2287831	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	235289	2287831	88066922	1032	95185											
SRRM2	23524	broad.mit.edu	37	chr16	2809397	2809397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaatctaaggacaaaaagcGaaagcggtgagtgaatttgt	17	9	11	4	2	1	2	0	2	1	0	1	4	1	3	0	2	2	0	0	2	7	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:2809397G>A	uc002crk.2	+	8	1283	c.734G>A	c.(733-735)CGA>CAA	p.R245Q	SRRM2_uc002crj.1_Missense_Mutation_p.R149Q|SRRM2_uc002crl.1_Missense_Mutation_p.R245Q|SRRM2_uc010bsu.1_Missense_Mutation_p.R149Q	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	245	Sufficient for RNA-binding.|Lys-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GACAAAAAGCGAAAGCGGTGA	0.413													23	50					0	0	1	0	0		A	2809397	A	A	2809397	3	1	190	1	0	0	0	0	1	0	0	0	15194	1058	37	1	760	1	SRRM2	16	2809397	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	521566	2809397	87545356	1033	95186											
PKMYT1	9088	broad.mit.edu	37	chr16	3024408	3024408	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaggacagaacgcagctcGgaagacagacctgcccatga	15	3	11	12	2	0	4	0	1	0	3	1	6	0	6	2	2	3	2	2	2	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:3024408G>A	uc002csn.2	-	6	1433	c.990C>T	c.(988-990)TCC>TCT	p.S330S	PKMYT1_uc010uwn.1_RNA|PKMYT1_uc002csm.2_Silent_p.S330S|PKMYT1_uc002cso.2_Silent_p.S261S|PKMYT1_uc002csp.2_Silent_p.S321S|PKMYT1_uc002csq.2_Silent_p.S321S|PKMYT1_uc010bsy.1_Silent_p.S321S	NM_004203	NP_004194	Q99640	PMYT1_HUMAN	protein kinase Myt1 isoform 1	330	Protein kinase.				G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis	endoplasmic reticulum membrane|Golgi membrane|membrane fraction|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1						AACGCAGCTCGGAAGACAGAC	0.662													4	10					0	0	1	0	0		A	3024408	A	A	3024408	2	1	190	1	0	0	0	0	0	0	0	1	11997	1103	39	1		1	PKMYT1	16	3024408	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	215011	3024408	87330345	1034	95187											
CLDN9	9080	broad.mit.edu	37	chr16	3063742	3063742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgggggtcatcctcctcCtcgccggcatcctggtgctc	2	9	12	18	4	1	0	1	0	0	0	7	0	5	0	6	4	1	2	6	4	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:3063742C>T	uc010uwo.1	+	1	1286	c.379C>T	c.(379-381)CTC>TTC	p.L127F		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	127	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CATCCTCCTCCTCGCCGGCAT	0.652													36	70					0	0	1	0	0		T	3063742	T	T	3063742	3	4	190	1	0	0	0	0	1	0	0	0	3495	681	24	4	381	4	CLDN9	16	3063742	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	39334	3063742	87291011	1035	95188											
PPL	5493	broad.mit.edu	37	chr16	4934126	4934126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatctcttgctcggtgtcGcccttctccacctggacact	4	13	9	15	2	2	0	0	0	2	0	6	2	2	2	3	3	1	1	3	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:4934126G>A	uc002cyd.1	-	22	4620	c.4530C>T	c.(4528-4530)GGC>GGT	p.G1510G		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	1510	Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						GCTCGGTGTCGCCCTTCTCCA	0.647													34	45					0	0	1	0	0		A	4934126	A	A	4934126	2	1	190	1	0	0	0	0	0	0	0	1	12356	1074	38	1		1	PPL	16	4934126	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1870384	4934126	85420627	1036	95189											
NAGPA	51172	broad.mit.edu	37	chr16	5083324	5083324	+	Frame_Shift_Del	DEL	C	-	-																															ccgaactgcgcgttctgcagCcccccggagctgctcacccg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:5083324delC	uc002cyg.2	-	2	513	c.492delG	c.(490-492)GGGfs	p.G164fs	ALG1_uc002cyj.2_5'Flank|NAGPA_uc002cyf.2_Frame_Shift_Del_p.G22fs|NAGPA_uc002cyh.2_RNA|NAGPA_uc002cyi.2_Frame_Shift_Del_p.G22fs|NAGPA_uc010uxx.1_Intron	NM_016256	NP_057340	Q9UK23	NAGPA_HUMAN	N-acetylglucosamine-1-phosphodiester	164	Lumenal (Potential).				carbohydrate metabolic process|lysosome organization|protein modification process|protein targeting to lysosome	Golgi cisterna membrane|integral to membrane	N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase activity				0					N-Acetyl-D-glucosamine(DB00141)	CGTTCTGCAGCCCCCCGGAGC	0.697													12	7	---	---	---	---						.	-	5083324	-	-	5083324	7	5	190	1	0	1	0	1	0	0	0	0	10162	726	26	0	1091	0	NAGPA	16	5083324	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	149198	5083324	85271429	1037	95190											
ALG1	56052	broad.mit.edu	37	chr16	5125391	5125391	+	Frame_Shift_Del	DEL	C	-	-																															agtctctatctttcctagaaCcccccaggtctgcctagcat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:5125391delC	uc002cym.2	+	4	434	c.393delC	c.(391-393)AACfs	p.N131fs	ALG1_uc002cyj.2_Frame_Shift_Del_p.N20fs|ALG1_uc002cyn.2_Frame_Shift_Del_p.N131fs|ALG1_uc010bue.2_Frame_Shift_Del_p.N20fs|ALG1_uc010uxy.1_Frame_Shift_Del_p.N20fs	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	beta-1,4-mannosyltransferase	131	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(90;0.0164)				TTTCCTAGAACCCCCCAGGTC	0.493													57	80	---	---	---	---						.	-	5125391	-	-	5125391	7	5	190	1	0	1	0	1	0	0	0	0	510	506	18	0	407	0	ALG1	16	5125391	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	42067	5125391	85229362	1038	95191											
USP7	7874	broad.mit.edu	37	chr16	9010901	9010901	+	Frame_Shift_Del	DEL	T	-	-																															acccaaatgactttgttaacTtttttgttcctacaggttta																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:9010901delT	uc002czl.2	-	7	1032	c.833delA	c.(832-834)AAGfs	p.K278fs	USP7_uc010uyk.1_Frame_Shift_Del_p.K179fs|USP7_uc010uyj.1_Frame_Shift_Del_p.K179fs|USP7_uc002czk.2_Frame_Shift_Del_p.K262fs|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	278					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						CTTTGTTAACTTTTTTGTTCC	0.358													64	75	---	---	---	---						.	-	9010901	-	-	9010901	7	5	190	1	0	1	0	1	0	0	0	0	17114	1609	56	0	2575	0	USP7	16	9010901	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	3885510	9010901	81343852	1039	95192											
MYH11	4629	broad.mit.edu	37	chr16	15820795	15820800	+	In_Frame_Del	DEL	CTTCTT	-	-																															tcctgcacctgcgcctccagCttcttcttcttatgttccac																								rs149241435	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:15820795_15820800delCTTCTT	uc002ddy.2	-	28	3870_3875	c.3763_3768delAAGAAG	c.(3763-3768)AAGAAGdel	p.KK1255del	MYH11_uc002ddv.2_In_Frame_Del_p.KK1262del|MYH11_uc002ddw.2_In_Frame_Del_p.KK1255del|MYH11_uc002ddx.2_In_Frame_Del_p.KK1262del|MYH11_uc010bvg.2_In_Frame_Del_p.KK1087del|MYH11_uc010bvh.2_5'Flank	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1255_1256	Potential.		Missing (in AAT4).		axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						GCGCCTCCAGCTTCTTCTTCTTATGT	0.612			T	CBFB	AML								84	144	---	---	---	---						.	-	15820800	-	-	15820795	7	5	190	1	0	1	0	1	0	0	0	0	10049	796	28	0	2241	0	MYH11	16	15820795	In_Frame_Del	DEL	CTTCTT	TCGA-F1-6177-01A-11D-1800-08	6809894	15820795	74533958	1040	95193											
SMG1	23049	broad.mit.edu	37	chr16	18844443	18844443	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcccctttcattaaacatcGaagtgcttctggaaatatga	12	14	6	9	1	2	1	1	1	1	0	4	3	3	2	2	1	2	1	2	1	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:18844443G>A	uc002dfm.2	-	51	8974	c.8611C>T	c.(8611-8613)CGA>TGA	p.R2871*	SMG1_uc010bwb.2_Nonsense_Mutation_p.R2731*|SMG1_uc010bwa.2_Nonsense_Mutation_p.R1602*	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2871					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						ATTAAACATCGAAGTGCTTCT	0.373													40	58					0	0	1	0	0		A	18844443	A	A	18844443	4	1	190	1	0	0	0	0	0	1	0	0	14820	1066	37	1	2426	1	SMG1	16	18844443	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3023648	18844443	71510310	1041	95194											
UMOD	7369	broad.mit.edu	37	chr16	20359844	20359844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggccttcacctggacggacGcatcccacaggcagcagtgg	9	5	13	14	2	1	0	1	0	0	0	2	2	2	2	3	5	1	3	3	5	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:20359844G>A	uc002dgz.2	-	3	908	c.779C>T	c.(778-780)GCG>GTG	p.A260V	UMOD_uc002dha.2_Missense_Mutation_p.A260V|UMOD_uc002dhb.2_Missense_Mutation_p.A293V	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	260					cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						CTGGACGGACGCATCCCACAG	0.672													3	13					0	0	1	0	0		A	20359844	A	A	20359844	3	1	190	1	0	0	0	0	1	0	0	0	17005	1087	38	1	1179	1	UMOD	16	20359844	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1515401	20359844	69994909	1042	95195											
DNAH3	55567	broad.mit.edu	37	chr16	21147803	21147803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggggcaatcatgtctttgCgaattccattggtcagatag	10	12	11	8	1	3	1	2	0	1	1	4	2	4	1	1	3	1	1	1	3	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:21147803C>T	uc010vbe.1	-	6	728	c.728G>A	c.(727-729)CGC>CAC	p.R243H	DNAH3_uc002die.2_Missense_Mutation_p.R214H	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	243	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CATGTCTTTGCGAATTCCATT	0.473													18	113					0	0	1	0	0		T	21147803	T	T	21147803	3	4	190	1	0	0	0	0	1	0	0	0	4609	768	27	1	11849	1	DNAH3	16	21147803	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	787959	21147803	69206950	1043	95196											
EEF2K	29904	broad.mit.edu	37	chr16	22237143	22237143	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgattctgatggggacagCgacgatgaggaaggttactt	10	10	16	5	2	1	3	0	3	1	0	1	7	1	5	0	5	2	1	0	5	2	3	rs148266060		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:22237143C>T	uc002dki.2	+	2	578	c.93C>T	c.(91-93)AGC>AGT	p.S31S	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	31					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		ATGGGGACAGCGACGATGAGG	0.527													17	32					0	0	1	0	0		T	22237143	T	T	22237143	2	4	190	1	0	0	0	0	0	0	0	1	4936	767	27	1		1	EEF2K	16	22237143	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1089340	22237143	68117610	1044	95197											
TNRC6A	27327	broad.mit.edu	37	chr16	24788506	24788506	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgtgaagtacctccacGatttcgccaccaggaacaca	11	8	7	15	3	0	1	0	1	0	0	4	3	2	2	5	1	2	1	5	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:24788506G>T	uc002dmm.2	+	5	530	c.416G>T	c.(415-417)CGA>CTA	p.R139L	TNRC6A_uc010bxs.2_5'UTR	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	139					negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GTACCTCCACGATTTCGCCAC	0.328													70	88					3.28615e-30	3.57858e-30	1	1	0		T	24788506	T	T	24788506	3	4	190	1	0	0	0	0	1	0	0	0	16365	1058	37	5	434	5	TNRC6A	16	24788506	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2551363	24788506	65566247	1045	95198											
TUFM	7284	broad.mit.edu	37	chr16	28855078	28855078	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttctctgggggcaggataatCcgacaggccatgtcccaagt	9	9	12	11	1	1	0	0	0	1	0	4	2	3	1	3	4	0	1	3	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:28855078C>A	uc002drh.2	-	9	1312	c.1173G>T	c.(1171-1173)CGG>CGT	p.R391R	uc010vct.1_Intron|SH2B1_uc002dri.2_5'Flank	NM_003321	NP_003312	P49411	EFTU_HUMAN	Tu translation elongation factor, mitochondrial	388						mitochondrial nucleoid	GTP binding|GTPase activity|protein binding|translation elongation factor activity			ovary(1)	1						GCAGGATAATCCGACAGGCCA	0.522													11	36					4.68919e-08	4.86854e-08	1	1	0		A	28855078	A	A	28855078	2	1	190	1	0	0	0	0	0	0	0	1	16797	842	30	5		5	TUFM	16	28855078	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4066572	28855078	61499675	1046	95199											
SH2B1	25970	broad.mit.edu	37	chr16	28883542	28883542	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttccagggggagccagagggCggtgagggggaccagcccct	7	4	19	11	1	0	2	0	1	0	1	1	4	1	4	5	6	2	0	5	6	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:28883542C>T	uc002dri.2	+	9	1984	c.1545C>T	c.(1543-1545)GGC>GGT	p.G515G	uc010vct.1_Intron|SH2B1_uc010vdc.1_Silent_p.G205G|SH2B1_uc002drj.2_Silent_p.G515G|SH2B1_uc002drk.2_Silent_p.G515G|SH2B1_uc002drl.2_Silent_p.G515G|SH2B1_uc010vdd.1_Silent_p.G179G|SH2B1_uc010vde.1_Silent_p.G515G|SH2B1_uc002drm.2_Silent_p.G515G	NM_001145795	NP_001139267	Q9NRF2	SH2B1_HUMAN	SH2B adaptor protein 1 isoform 1	515	Interaction with JAK2 (low-affinity binding; independent of JAK2 phosphorylation) (By similarity).				blood coagulation|intracellular signal transduction	cytosol|membrane|nucleus	signal transducer activity			ovary(2)	2						AGCCAGAGGGCGGTGAGGGGG	0.642													14	25					0	0	1	0	0		T	28883542	T	T	28883542	2	4	190	1	0	0	0	0	0	0	0	1	14252	755	27	1		1	SH2B1	16	28883542	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	28464	28883542	61471211	1047	95200											
RABEP2	79874	broad.mit.edu	37	chr16	28919999	28919999	+	Silent	SNP	C	T	T	0	0	0	1	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	ccctggggggctgaggatggCagctgctcggcccggagccc	4	5	18	14	2	0	1	0	1	0	0	1	3	0	3	3	7	3	4	3	7	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:28919999C>T	uc002drq.2	-	8	1224	c.1176G>A	c.(1174-1176)CTG>CTA	p.L392L	uc010vct.1_Intron|RABEP2_uc010vdf.1_Silent_p.L321L|RABEP2_uc010byn.2_Silent_p.L360L	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	392	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						CTGAGGATGGCAGCTGCTCGG	0.622													48	76					0	0	1	0	0		T	28919999	T	T	28919999	2	4	190	1	0	0	0	0	0	0	0	1	12987	697	25	2		2	RABEP2	16	28919999	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	36457	28919999	61434754	1048	95201											
PRRT2	112476	broad.mit.edu	37	chr16	29825146	29825146	+	Frame_Shift_Del	DEL	G	-	-																															ttggcaggtcctggggtggaGgggggtgaaggcacccagaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:29825146delG	uc002due.3	+	2	1072	c.771delG	c.(769-771)GAGfs	p.E257fs	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|uc002duc.1_5'Flank|PRRT2_uc002dud.2_Frame_Shift_Del_p.E257fs|PRRT2_uc002duf.1_Frame_Shift_Del_p.E257fs|C16orf53_uc002dug.3_5'Flank	NM_145239	NP_660282	Q7Z6L0	PRRT2_HUMAN	proline-rich transmembrane protein 2	257	Extracellular (Potential).				response to biotic stimulus	integral to membrane					0						CTGGGGTGGAGGGGGGTGAAG	0.612													17	20	---	---	---	---						.	-	29825146	-	-	29825146	7	5	190	1	0	1	0	1	0	0	0	0	12632	991	35	0	773	0	PRRT2	16	29825146	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	905147	29825146	60529607	1049	95202											
ITGAL	3683	broad.mit.edu	37	chr16	30518138	30518138	+	Frame_Shift_Del	DEL	C	-	-																															gtccagctggacctgcacttCcccccgggactctccttccg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:30518138delC	uc002dyi.3	+	21	2645	c.2469delC	c.(2467-2469)TTCfs	p.F823fs	ITGAL_uc002dyj.3_Frame_Shift_Del_p.F739fs|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	823	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	ACCTGCACTTCCCCCCGGGAC	0.597													84	142	---	---	---	---						.	-	30518138	-	-	30518138	7	5	190	1	0	1	0	1	0	0	0	0	7902	854	30	0	2551	0	ITGAL	16	30518138	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	692992	30518138	59836615	1050	95203											
SRCAP	10847	broad.mit.edu	37	chr16	30740479	30740479	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccaccccaccttttggactTataccgaggctgcccaccgg	7	8	9	17	2	0	0	0	0	0	0	0	2	0	1	7	3	2	1	7	3	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:30740479T>C	uc002dze.1	+	26	6236	c.5851T>C	c.(5851-5853)TAT>CAT	p.Y1951H	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.Y1746H	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	1951					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			CTTTTGGACTTATACCGAGGC	0.582													36	32					0	0	1	0	0		C	30740479	C	C	30740479	3	2	190	1	0	0	0	0	1	0	0	0	15160	1754	61	3	5945	3	SRCAP	16	30740479	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	222341	30740479	59614274	1051	95204											
BCL7C	9274	broad.mit.edu	37	chr16	30904559	30904559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggggatccaccactggcaCccacttgaagatacgaaggg	11	6	12	12	1	0	2	0	1	0	1	1	4	1	3	3	4	1	1	3	4	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:30904559C>T	uc002dzv.2	-	2	279	c.145G>A	c.(145-147)GTG>ATG	p.V49M	BCL7C_uc002dzt.1_Missense_Mutation_p.V49M|uc002dzu.2_Intron|MIR762_hsa-mir-762|MI0003892_5'Flank	NM_004765	NP_004756	Q8WUZ0	BCL7C_HUMAN	B-cell CLL/lymphoma 7C	49					apoptosis						0			Colorectal(24;0.198)			ACCACTGGCACCCACTTGAAG	0.622													15	19					0	0	1	0	0		T	30904559	T	T	30904559	3	4	190	1	0	0	0	0	1	0	0	0	1381	507	18	4	528	4	BCL7C	16	30904559	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	164080	30904559	59450194	1052	95205											
MYST1	84148	broad.mit.edu	37	chr16	31138547	31138547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtggacaagatccacatcgGgaactacgaaattgatgcct	13	9	10	9	2	0	2	0	1	0	1	2	5	1	4	2	2	3	0	2	2	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:31138547G>A	uc002eay.2	+	5	572	c.554G>A	c.(553-555)GGG>GAG	p.G185E	MYST1_uc002eax.2_Missense_Mutation_p.G185E|MYST1_uc002eaz.2_Missense_Mutation_p.G27E|MYST1_uc002eba.2_5'UTR|MYST1_uc002ebb.2_5'Flank	NM_032188	NP_115564	Q9H7Z6	MYST1_HUMAN	MYST histone acetyltransferase 1 isoform 1	185					histone H4-K16 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex|MSL complex	histone acetyltransferase activity|metal ion binding|methylated histone residue binding|transcription factor binding			ovary(1)	1						ATCCACATCGGGAACTACGAA	0.547													42	74					0	0	1	0	0		A	31138547	A	A	31138547	3	1	190	1	0	0	0	0	1	0	0	0	10120	1232	43	4	572	4	MYST1	16	31138547	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	233988	31138547	59216206	1053	95206											
LONP2	83752	broad.mit.edu	37	chr16	48385596	48385596	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgagggaatcccaggcaaCgtacgacaggatttaagttt	12	10	11	8	2	0	1	0	1	0	0	1	4	1	3	1	3	2	3	1	3	4	5	rs150743514		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:48385596C>T	uc002efi.1	+	15	2531	c.2442C>T	c.(2440-2442)AAC>AAT	p.N814N	LONP2_uc002efj.1_Silent_p.N770N	NM_031490	NP_113678	Q86WA8	LONP2_HUMAN	peroxisomal LON protease-like	814					misfolded or incompletely synthesized protein catabolic process|protein targeting to peroxisome|signal peptide processing	nucleoid|peroxisomal matrix	ATP binding|ATP-dependent peptidase activity|enzyme binding|sequence-specific DNA binding|serine-type endopeptidase activity				0						TCCCAGGCAACGTACGACAGG	0.473													25	54					0	0	1	0	0		T	48385596	T	T	48385596	2	4	190	1	0	0	0	0	0	0	0	1	8911	535	19	1		1	LONP2	16	48385596	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	17247049	48385596	41969157	1054	95207											
ZNF423	23090	broad.mit.edu	37	chr16	49671411	49671411	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcgtgggctgcaccaccGgagactctagtttggcactg	7	9	13	12	2	1	1	0	0	1	1	1	2	1	1	2	3	2	4	2	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:49671411G>T	uc002efs.2	-	5	1950	c.1652C>A	c.(1651-1653)CCG>CAG	p.P551Q	ZNF423_uc010vgn.1_Missense_Mutation_p.P434Q	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	551					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CTGCACCACCGGAGACTCTAG	0.572													30	27					3.73988e-18	3.99975e-18	1	1	0		T	49671411	T	T	49671411	3	4	190	1	0	0	0	0	1	0	0	0	17923	1116	39	5	2222	5	ZNF423	16	49671411	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1285815	49671411	40683342	1055	95208											
ZNF423	23090	broad.mit.edu	37	chr16	49671517	49671517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcactggttgcagaagaaagCattattaccgtcagaggggt	12	9	13	7	1	1	3	1	0	0	3	1	3	1	3	1	3	3	4	1	3	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:49671517C>T	uc002efs.2	-	5	1844	c.1546G>A	c.(1546-1548)GCT>ACT	p.A516T	ZNF423_uc010vgn.1_Missense_Mutation_p.A399T	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	516					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CAGAAGAAAGCATTATTACCG	0.577													16	36					0	0	1	0	0		T	49671517	T	T	49671517	3	4	190	1	0	0	0	0	1	0	0	0	17923	710	25	2	2328	2	ZNF423	16	49671517	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	106	49671517	40683236	1056	95209											
HEATR3	55027	broad.mit.edu	37	chr16	50109581	50109581	+	Missense_Mutation	SNP	T	C	C	0	1	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	atcagcactgctttctcctgTcagttccatggaatctcttc	7	15	6	13	0	4	0	2	0	2	0	8	1	5	1	2	1	2	3	2	1	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:50109581T>C	uc002efw.2	+	6	884	c.722T>C	c.(721-723)GTC>GCC	p.V241A	HEATR3_uc002efx.2_Missense_Mutation_p.V155A	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	241							binding			ovary(1)|skin(1)	2						CTTTCTCCTGTCAGTTCCATG	0.423													7	137					0	0	1	0	0		C	50109581	C	C	50109581	3	2	190	1	0	0	0	0	1	0	0	0	7045	1667	58	3	744	3	HEATR3	16	50109581	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	438064	50109581	40245172	1057	95210											
PAPD5	64282	broad.mit.edu	37	chr16	50259111	50259111	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaatgtagaagtaaaacctCggaatctcttagtaaacact	18	10	6	7	1	1	1	0	0	1	1	3	2	1	2	1	1	2	3	1	1	10	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:50259111C>T	uc010vgo.1	+	11	1705	c.1670C>T	c.(1669-1671)TCG>TTG	p.S557L	PAPD5_uc010cbi.2_RNA|PAPD5_uc002efz.2_Intron|PAPD5_uc002ega.2_Missense_Mutation_p.S348L	NM_001040284	NP_001035374	Q8NDF8	PAPD5_HUMAN	PAP associated domain containing 5 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell division|DNA replication|histone mRNA catabolic process|mitosis	cytoplasm|nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding				0		all_cancers(37;0.0452)		BRCA - Breast invasive adenocarcinoma(181;0.0843)|GBM - Glioblastoma multiforme(240;0.231)		AGTAAAACCTCGGAATCTCTT	0.383													15	35					0	0	1	0	0		T	50259111	T	T	50259111	3	4	190	1	0	0	0	0	1	0	0	0	11444	893	31	1	1712	1	PAPD5	16	50259111	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	149530	50259111	40095642	1058	95211											
NOD2	64127	broad.mit.edu	37	chr16	50746063	50746063	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctcatccggagcctgtaCgagatgcaggaggagcggct	8	7	16	10	3	1	1	1	0	0	1	2	5	2	4	2	5	4	4	2	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:50746063C>T	uc002egm.1	+	4	2346	c.2241C>T	c.(2239-2241)TAC>TAT	p.Y747Y	NOD2_uc010cbk.1_Silent_p.Y720Y|NOD2_uc002egl.1_Silent_p.Y525Y|NOD2_uc010cbl.1_Silent_p.Y525Y|NOD2_uc010cbm.1_Silent_p.Y525Y|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	747					activation of MAPK activity involved in innate immune response|cytokine production involved in immune response|detection of bacterium|detection of muramyl dipeptide|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of macrophage apoptosis|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of B cell activation|positive regulation of dendritic cell antigen processing and presentation|positive regulation of epithelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of gamma-delta T cell activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-10 production|positive regulation of interleukin-17 production|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of Notch signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of prostaglandin-E synthase activity|positive regulation of prostaglandin-endoperoxide synthase activity|positive regulation of stress-activated MAPK cascade|positive regulation of tumor necrosis factor production|positive regulation of type 2 immune response|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|plasma membrane|vesicle	ATP binding|CARD domain binding|muramyl dipeptide binding|protein kinase binding			ovary(3)|skin(1)	4		all_cancers(37;0.0156)				GGAGCCTGTACGAGATGCAGG	0.627													24	27					0	0	1	0	0		T	50746063	T	T	50746063	2	4	190	1	0	0	0	0	0	0	0	1	10536	547	19	1		1	NOD2	16	50746063	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	486952	50746063	39608690	1059	95212											
IRX3	79191	broad.mit.edu	37	chr16	54319068	54319068	+	Frame_Shift_Del	DEL	C	-	-																															cgtcgtcagccaggccctcgCcccccgtgtcctcctcctcc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:54319068delC	uc002eht.1	-	2	1141	c.725delG	c.(724-726)GGCfs	p.G242fs		NM_024336	NP_077312	P78415	IRX3_HUMAN	iroquois homeobox 3	242	Asp/Glu-rich (acidic).				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						caggccctcgccccccgtgtc	0.313													7	9	---	---	---	---						.	-	54319068	-	-	54319068	7	5	190	1	0	1	0	1	0	0	0	0	7861	739	26	0	792	0	IRX3	16	54319068	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	3573005	54319068	36035685	1060	95213											
CDH5	1003	broad.mit.edu	37	chr16	66413312	66413312	+	Silent	SNP	A	G	G	1	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	ctggcagtggcagcagtggcAgcagcaggtgctaaccctgc	8	6	15	12	0	0	0	0	0	0	0	0	0	0	0	1	4	6	7	1	4	1	1	rs147924693	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:66413312A>G	uc002eom.3	+	2	228	c.72A>G	c.(70-72)GCA>GCG	p.A24A	CDH5_uc002eon.1_Silent_p.A24A	NM_001795	NP_001786	P33151	CADH5_HUMAN	cadherin 5, type 2 preproprotein	24					adherens junction organization|cell junction assembly|homophilic cell adhesion|regulation of establishment of cell polarity	integral to membrane|membrane fraction	beta-catenin binding|calcium ion binding|ion channel binding|receptor binding			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6		Ovarian(137;0.0955)		OV - Ovarian serous cystadenocarcinoma(108;0.107)		CAGCAGTGGCAGCAGCAGGTG	0.612													46	65					0	0	1	0	0		G	66413312	G	G	66413312	2	3	190	1	0	0	0	0	0	0	0	1	3116	175	7	3		3	CDH5	16	66413312	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	12094244	66413312	23941441	1061	95214											
PLEKHG4	25894	broad.mit.edu	37	chr16	67318242	67318242	+	Frame_Shift_Del	DEL	A	-	-																															ctgggaggcggctgaactggAcccccctggggcacgctttc																								rs8044843	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:67318242delA	uc002eso.3	+	11	4109	c.1574delA	c.(1573-1575)GACfs	p.D525fs	PLEKHG4_uc002esp.3_Frame_Shift_Del_p.D332fs|PLEKHG4_uc002esq.3_Frame_Shift_Del_p.D525fs|PLEKHG4_uc010cef.2_Frame_Shift_Del_p.D525fs|PLEKHG4_uc002ess.3_Frame_Shift_Del_p.D525fs|PLEKHG4_uc010ceg.2_Frame_Shift_Del_p.D444fs	NM_015432	NP_056247	Q58EX7	PKHG4_HUMAN	pleckstrin homology domain containing, family G	525					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)|Kidney(780;0.119)		GCTGAACTGGACCCCCCTGGG	0.657													14	25	---	---	---	---						.	-	67318242	-	-	67318242	7	5	190	1	0	1	0	1	0	0	0	0	12090	275	10	0	1616	0	PLEKHG4	16	67318242	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	904930	67318242	23036511	1062	95215											
KCTD19	146212	broad.mit.edu	37	chr16	67323574	67323574	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggccatatttcctggcgaaGggcagtgtaagctggaagga	10	8	15	8	2	0	0	0	0	0	0	1	3	1	2	2	5	1	3	2	5	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:67323574G>T	uc002esu.2	-	16	2730	c.2679C>A	c.(2677-2679)CCC>CCA	p.P893P	KCTD19_uc002est.2_Silent_p.P665P|KCTD19_uc010vjj.1_Silent_p.P636P	NM_001100915	NP_001094385	Q17RG1	KCD19_HUMAN	potassium channel tetramerisation domain	893						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0311)|Epithelial(162;0.0906)		TCCTGGCGAAGGGCAGTGTAA	0.547													18	21					1.99824e-07	2.06747e-07	1	1	0		T	67323574	T	T	67323574	2	4	190	1	0	0	0	0	0	0	0	1	8122	987	35	5		5	KCTD19	16	67323574	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5332	67323574	23031179	1063	95216											
RLTPR	146206	broad.mit.edu	37	chr16	67691166	67691166	+	Frame_Shift_Del	DEL	C	-	-																															gcccctgaggctgcagcgctCccccgtcctcaaacgcaggc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:67691166delC	uc002etn.2	+	37	4262	c.4142delC	c.(4141-4143)TCCfs	p.S1381fs	RLTPR_uc010vjr.1_Frame_Shift_Del_p.S1318fs	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	1381	Pro-rich.									breast(1)	1		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)		CTGCAGCGCTCCCCCGTCCTC	0.632													6	13	---	---	---	---						.	-	67691166	-	-	67691166	7	5	190	1	0	1	0	1	0	0	0	0	13419	855	30	0	4288	0	RLTPR	16	67691166	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	367592	67691166	22663587	1064	95217											
GFOD2	81577	broad.mit.edu	37	chr16	67709578	67709578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgctagtgacgtgccggatgCcacggatggcagcgttctgc	6	8	15	12	5	1	1	0	1	1	0	1	3	1	3	2	3	4	3	2	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:67709578C>T	uc002eub.2	-	3	933	c.638G>A	c.(637-639)GGC>GAC	p.G213D	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Missense_Mutation_p.G108D	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	213						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		GTGCCGGATGCCACGGATGGC	0.587													24	41					0	0	1	0	0		T	67709578	T	T	67709578	3	4	190	1	0	0	0	0	1	0	0	0	6359	739	26	2	523	2	GFOD2	16	67709578	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	18412	67709578	22645175	1065	95218											
CENPT	80152	broad.mit.edu	37	chr16	67862729	67862729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgaccaacagaggctctGcaggctctgaagataagctg	11	7	12	11	0	2	4	0	2	2	2	2	4	2	4	2	2	3	4	2	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:67862729G>A	uc002eun.3	-	14	1847	c.1298C>T	c.(1297-1299)GCA>GTA	p.A433V	CENPT_uc002eum.3_Missense_Mutation_p.A378V|CENPT_uc010vkc.1_Missense_Mutation_p.A191V|CENPT_uc010vkd.1_Missense_Mutation_p.A186V	NM_025082	NP_079358	Q96BT3	CENPT_HUMAN	centromere protein T	433					mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleus	DNA binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00429)|Epithelial(162;0.019)|all cancers(182;0.124)		CAGAGGCTCTGCAGGCTCTGA	0.592													27	56					0	0	1	0	0		A	67862729	A	A	67862729	3	1	190	1	0	0	0	0	1	0	0	0	3245	1319	46	2	399	2	CENPT	16	67862729	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	153151	67862729	22492024	1066	95219											
CDH1	999	broad.mit.edu	37	chr16	68862192	68862192	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tactatgatgaagaaggaggCggagaagaggaccaggtggg	14	5	18	4	1	0	5	0	2	0	3	0	8	0	7	1	6	1	0	1	6	5	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:68862192C>T	uc002ewg.1	+	14	2404	c.2280C>T	c.(2278-2280)GGC>GGT	p.G760G	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Silent_p.G699G	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	760	Cytoplasmic (Potential).|Required for binding CTNND1 and PSEN1.			GGG->AAA: Binds to CTNNB1 but abolishes interaction of CTNNB1 with PSEN1. Abolishes gamma-secretase cleavage.	adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		AAGAAGGAGGCGGAGAAGAGG	0.478			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				28	43					0	0	1	0	0		T	68862192	T	T	68862192	2	4	190	1	0	0	0	0	0	0	0	1	3098	755	27	1		1	CDH1	16	68862192	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	999463	68862192	21492561	1067	95220											
VAC14	55697	broad.mit.edu	37	chr16	70726786	70726786	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgagagcagctggaaggcGctgctctgcggcaggagcat	8	6	17	10	3	1	1	0	0	1	1	1	4	1	3	0	4	6	6	0	4	1	0	rs140883176		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:70726786G>A	uc002ezm.2	-	18	2382	c.2124C>T	c.(2122-2124)AGC>AGT	p.S708S	VAC14_uc010cfw.2_Silent_p.S474S|VAC14_uc002ezn.2_Silent_p.S273S|VAC14_uc002ezo.1_5'Flank|VAC14_uc002ezl.2_Silent_p.S140S	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog	708					interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				GCTGGAAGGCGCTGCTCTGCG	0.667													7	5					0	0	1	0	0		A	70726786	A	A	70726786	2	1	190	1	0	0	0	0	0	0	0	1	17137	1078	38	1		1	VAC14	16	70726786	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1864594	70726786	19627967	1068	95221											
VAC14	55697	broad.mit.edu	37	chr16	70815824	70815824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagacagcagtcaggatcccGgaggagtaaggcagcatgac	14	4	14	9	1	1	2	1	1	0	1	2	5	2	5	1	4	2	4	1	4	2	1	rs142446813		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:70815824G>A	uc002ezm.2	-	8	1152	c.894C>T	c.(892-894)TCC>TCT	p.S298S	VAC14_uc010cfw.2_Silent_p.S64S|VAC14_uc002ezn.2_Intron	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog	298					interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				TCAGGATCCCGGAGGAGTAAG	0.557													13	38					0	0	1	0	0		A	70815824	A	A	70815824	2	1	190	1	0	0	0	0	0	0	0	1	17137	1103	39	1		1	VAC14	16	70815824	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	89038	70815824	19538929	1069	95222											
MARVELD3	91862	broad.mit.edu	37	chr16	71674425	71674425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaacaactactactcacCgttcgagggcactgagctag	11	8	11	11	2	1	1	1	1	0	0	2	3	1	2	1	2	5	3	1	2	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:71674425C>T	uc002fau.2	+	3	791	c.728C>T	c.(727-729)CCG>CTG	p.P243L	PHLPP2_uc002fav.2_RNA|MARVELD3_uc010cge.2_3'UTR	NM_001017967	NP_001017967	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane				skin(1)	1		Ovarian(137;0.125)				TACTACTCACCGTTCGAGGGC	0.577													35	42					0	0	1	0	0		T	71674425	T	T	71674425	3	4	190	1	0	0	0	0	1	0	0	0	9337	652	23	1	1353	1	MARVELD3	16	71674425	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	858601	71674425	18680328	1070	95223											
PHLPP2	23035	broad.mit.edu	37	chr16	71736615	71736615	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaacgatctgaagaggtcGttcagtaggttccagtctcc	11	11	10	9	2	3	2	1	1	2	1	6	3	4	2	2	2	1	3	2	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:71736615G>A	uc002fax.2	-	2	310	c.304C>T	c.(304-306)CGA>TGA	p.R102*	PHLPP2_uc010cgf.2_Nonsense_Mutation_p.R102*|PHLPP2_uc002fay.1_Nonsense_Mutation_p.R102*	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	102						cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						TGAAGAGGTCGTTCAGTAGGT	0.343													29	43					0	0	1	0	0		A	71736615	A	A	71736615	4	1	190	1	0	0	0	0	0	1	0	0	11874	1153	40	1	3735	1	PHLPP2	16	71736615	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	62190	71736615	18618138	1071	95224											
DHODH	1723	broad.mit.edu	37	chr16	72046132	72046132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctccctggggctccttccaCgggccagatttcaagactct	6	10	9	16	1	2	2	1	0	1	2	5	2	5	2	5	3	0	1	5	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:72046132C>T	uc002fbp.2	+	2	226	c.205C>T	c.(205-207)CGG>TGG	p.R69W	DHODH_uc010cgk.2_RNA	NM_001361	NP_001352	Q02127	PYRD_HUMAN	dihydroorotate dehydrogenase precursor	69	Mitochondrial intermembrane (By similarity).				'de novo' pyrimidine base biosynthetic process|pyrimidine nucleoside biosynthetic process|UMP biosynthetic process	integral to membrane|mitochondrial inner membrane	dihydroorotate oxidase activity				0		Ovarian(137;0.125)			Atovaquone(DB01117)|Leflunomide(DB01097)	GCTCCTTCCACGGGCCAGATT	0.557													26	44					0	0	1	0	0		T	72046132	T	T	72046132	3	4	190	1	0	0	0	0	1	0	0	0	4490	527	19	1	211	1	DHODH	16	72046132	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	309517	72046132	18308621	1072	95225											
DHX38	9785	broad.mit.edu	37	chr16	72130091	72130091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaggatgcctcgatccatcGattggaaggcactgatctgg	9	10	13	9	2	1	2	0	2	1	0	4	6	2	4	2	4	1	1	2	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:72130091G>A	uc002fcb.2	+	2	390	c.35G>A	c.(34-36)CGA>CAA	p.R12Q	TXNL4B_uc010cgl.2_5'Flank|TXNL4B_uc002fca.2_5'Flank|TXNL4B_uc010vmn.1_5'Flank|TXNL4B_uc010vmo.1_5'Flank|DHX38_uc010vmp.1_Missense_Mutation_p.R12Q|DHX38_uc010cgn.1_5'Flank	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	12					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				TCGATCCATCGATTGGAAGGC	0.537													23	31					0	0	1	0	0		A	72130091	A	A	72130091	3	1	190	1	0	0	0	0	1	0	0	0	4517	1058	37	1	37	1	DHX38	16	72130091	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	83959	72130091	18224662	1073	95226											
DHX38	9785	broad.mit.edu	37	chr16	72134477	72134477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctccctttctggatgggcGcattgtcttcaccaagcagg	6	11	11	13	1	3	0	1	0	2	0	4	1	4	1	3	3	1	2	3	3	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:72134477G>A	uc002fcb.2	+	9	1614	c.1259G>A	c.(1258-1260)CGC>CAC	p.R420H	DHX38_uc010vmp.1_Intron|DHX38_uc010cgn.1_RNA	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38	420					mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				CTGGATGGGCGCATTGTCTTC	0.488													23	29					0	0	1	0	0		A	72134477	A	A	72134477	3	1	190	1	0	0	0	0	1	0	0	0	4517	1087	38	1	1289	1	DHX38	16	72134477	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4386	72134477	18220276	1074	95227											
PMFBP1	83449	broad.mit.edu	37	chr16	72153907	72153907	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcatagccttgtgttctcGgctttcatcttcttctcttc	3	19	7	12	1	5	0	1	0	4	0	8	0	5	0	1	1	2	3	1	1	1	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:72153907G>A	uc002fcc.3	-	20	3037	c.2865C>T	c.(2863-2865)GCC>GCT	p.A955A	PMFBP1_uc002fcd.2_Silent_p.A950A|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_Silent_p.A825A	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	955	Potential.									ovary(2)	2		Ovarian(137;0.179)				TTGTGTTCTCGGCTTTCATCT	0.547													28	48					0	0	1	0	0		A	72153907	A	A	72153907	2	1	190	1	0	0	0	0	0	0	0	1	12153	1103	39	1		1	PMFBP1	16	72153907	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	19430	72153907	18200846	1075	95228											
GLG1	2734	broad.mit.edu	37	chr16	74526881	74526881	+	Missense_Mutation	SNP	A	G	G	1	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	gtacagctgactccaggcacAttaacaagtaggagagcctg	13	7	11	10	0	0	2	0	1	0	1	1	3	1	2	2	2	4	4	2	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:74526881A>G	uc002fcy.3	-	7	1258	c.1208T>C	c.(1207-1209)ATG>ACG	p.M403T	GLG1_uc002fcx.2_Missense_Mutation_p.M403T|GLG1_uc002fcw.3_Missense_Mutation_p.M392T|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	403	Cys-rich GLG1 5.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						CTCCAGGCACATTAACAAGTA	0.383													33	31					0	0	1	0	0		G	74526881	G	G	74526881	3	3	190	1	0	0	0	0	1	0	0	0	6451	217	8	3	2491	3	GLG1	16	74526881	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2372974	74526881	15827872	1076	95229											
WDR59	79726	broad.mit.edu	37	chr16	74937943	74937943	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcccaggggcctctgtgcGgatcttcatgggcgcgatca	5	10	14	12	3	4	0	2	0	2	0	5	2	5	1	2	4	1	1	2	4	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:74937943G>A	uc002fdh.1	-	18	1870	c.1768C>T	c.(1768-1770)CGC>TGC	p.R590C	WDR59_uc002fdf.1_Missense_Mutation_p.R35C|WDR59_uc002fdg.1_Missense_Mutation_p.R182C	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	590										ovary(1)|breast(1)	2						GCCTCTGTGCGGATCTTCATG	0.527													13	14					0	0	1	0	0		A	74937943	A	A	74937943	3	1	190	1	0	0	0	0	1	0	0	0	17334	1116	39	1	1192	1	WDR59	16	74937943	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	411062	74937943	15416810	1077	95230											
LDHD	197257	broad.mit.edu	37	chr16	75148724	75148724	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaaaggttcgcgagtcctaCccacgggaaaccagaggccg	11	4	14	12	4	0	1	0	0	0	1	2	4	1	3	4	4	2	1	4	4	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:75148724C>T	uc002fdm.2	-	4	516	c.469_splice	c.e4+1	p.D157_splice	LDHD_uc002fdn.2_Splice_Site_p.D157_splice	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor								D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						GCGAGTCCTACCCACGGGAAA	0.657													10	24					0	0	1	0	0		T	75148724	T	T	75148724	5	4	190	1	0	0	0	0	0	0	1	0	8719	521	18	4	1085	4	LDHD	16	75148724	Splice_Site	SNP	C	TCGA-F1-6177-01A-11D-1800-08	210781	75148724	15206029	1078	95231											
CHST6	4166	broad.mit.edu	37	chr16	75512783	75512783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagtcttgaaggcttcgcggCgcgcaccaggtccagatccg	8	7	13	13	5	1	2	0	1	1	1	4	2	3	2	3	3	0	2	3	3	2	2	rs140618049	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:75512783C>T	uc002fef.2	-	3	1124	c.944G>A	c.(943-945)CGC>CAC	p.R315H	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Missense_Mutation_p.R315H	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	315	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GGCTTCGCGGCGCGCACCAGG	0.627													28	52					0	0	1	0	0		T	75512783	T	T	75512783	3	4	190	1	0	0	0	0	1	0	0	0	3411	768	27	1	247	1	CHST6	16	75512783	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	364059	75512783	14841970	1079	95232											
CHST5	23563	broad.mit.edu	37	chr16	75564134	75564134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggggatgagggccctggcCgggagatgatgaagagcagg	9	5	20	7	1	0	5	0	3	0	2	0	7	0	6	2	6	1	1	2	6	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:75564134C>T	uc002fei.2	-	3	1544	c.149G>A	c.(148-150)CGG>CAG	p.R50Q	CHST5_uc002fej.1_Missense_Mutation_p.R56Q	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	50	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GGGCCCTGGCCGGGAGATGAT	0.667													9	14					0	0	1	0	0		T	75564134	T	T	75564134	3	4	190	1	0	0	0	0	1	0	0	0	3410	652	23	1	1090	1	CHST5	16	75564134	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	51351	75564134	14790619	1080	95233											
CDYL2	124359	broad.mit.edu	37	chr16	80654764	80654764	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaacacgctccccactgcGctgaggagcagcagtttgct	9	7	11	14	2	0	2	0	1	0	1	1	3	1	3	2	1	5	6	2	1	1	1	rs141862110	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:80654764G>A	uc002ffs.2	-	4	1008	c.903C>T	c.(901-903)AGC>AGT	p.S301S		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	301						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						TCCCCACTGCGCTGAGGAGCA	0.572													14	16					0	0	1	0	0		A	80654764	A	A	80654764	2	1	190	1	0	0	0	0	0	0	0	1	3189	1078	38	1		1	CDYL2	16	80654764	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5090630	80654764	9699989	1081	95234											
GCSH	2653	broad.mit.edu	37	chr16	81124283	81124283	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtttctctgtgaatttacGcactaaaacagaagaccaac	14	11	7	9	1	1	3	0	1	1	2	2	3	1	3	1	0	3	2	1	0	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:81124283G>A	uc002fgd.2	-	2	248	c.151C>T	c.(151-153)CGT>TGT	p.R51C	GCSH_uc002fge.2_RNA	NM_004483	NP_004474	P23434	GCSH_HUMAN	glycine cleavage system protein H (aminomethyl	51						glycine cleavage complex|mitochondrion	aminomethyltransferase activity				0					Glycine(DB00145)	GTGAATTTACGCACTAAAACA	0.348													32	48					0	0	1	0	0		A	81124283	A	A	81124283	3	1	190	1	0	0	0	0	1	0	0	0	6320	1087	38	1	386	1	GCSH	16	81124283	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	469519	81124283	9230470	1082	95235											
PKD1L2	114780	broad.mit.edu	37	chr16	81145839	81145839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtcgccccaggcacggcGtagggctgccgtgatcatgt	7	8	14	12	4	1	1	1	1	0	0	2	1	1	1	3	3	1	3	3	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:81145839G>A	uc002fgh.1	-	42	6913	c.6913C>T	c.(6913-6915)CGC>TGC	p.R2305C	PKD1L2_uc002fgf.1_Missense_Mutation_p.R105C|PKD1L2_uc002fgg.1_RNA	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	2305	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CAGGCACGGCGTAGGGCTGCC	0.512													57	94					0	0	1	0	0		A	81145839	A	A	81145839	3	1	190	1	0	0	0	0	1	0	0	0	11984	1145	40	1	482	1	PKD1L2	16	81145839	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	21556	81145839	9208914	1083	95236											
CMIP	80790	broad.mit.edu	37	chr16	81694495	81694495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgtgtttcaggcaatcGctcctttgctggaaaacaac	9	14	9	9	1	1	0	1	0	0	0	3	1	2	1	1	2	3	5	1	2	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:81694495G>A	uc002fgp.2	+	6	760	c.688G>A	c.(688-690)GCT>ACT	p.A230T	CMIP_uc002fgq.1_Missense_Mutation_p.A136T|CMIP_uc010vnq.1_Missense_Mutation_p.A43T|CMIP_uc002fgr.1_Missense_Mutation_p.A77T	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	196						cytoplasm|nucleus					0						TCAGGCAATCGCTCCTTTGCT	0.348													123	153					0	0	1	0	0		A	81694495	A	A	81694495	3	1	190	1	0	0	0	0	1	0	0	0	3581	1087	38	1	732	1	CMIP	16	81694495	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	548656	81694495	8660258	1084	95237											
KCNG4	93107	broad.mit.edu	37	chr16	84256361	84256361	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacgtagaggatgcgcagcGctcgcagcacacgcaggacc	10	4	13	14	5	1	1	1	0	0	1	2	3	1	3	1	2	3	6	1	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:84256361G>A	uc010voc.1	-	3	1143	c.1022C>T	c.(1021-1023)GCG>GTG	p.A341V		NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	341	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						GATGCGCAGCGCTCGCAGCAC	0.701													14	16					0	0	1	0	0		A	84256361	A	A	84256361	3	1	190	1	0	0	0	0	1	0	0	0	8046	1087	38	1	539	1	KCNG4	16	84256361	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2561866	84256361	6098392	1085	95238											
USP10	9100	broad.mit.edu	37	chr16	84806174	84806175	+	Frame_Shift_Ins	INS	-	A	A																															aagtcgaagagtgactctggINSaaaaactccctcctgtcctc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:84806174_84806175insA	uc002fii.2	+	12	2168_2169	c.2026_2027insA	c.(2026-2028)GAAfs	p.E676fs	USP10_uc010voe.1_Frame_Shift_Ins_p.E680fs|USP10_uc010vof.1_Frame_Shift_Ins_p.E238fs|USP10_uc002fij.2_Frame_Shift_Ins_p.E202fs	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	676					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						AGTGACTCTGGAAAAACTCCCT	0.475													80	131	---	---	---	---						.	A	84806175	A	A	84806174	7	5	190	1	0	1	1	0	0	0	0	0	17067	1175	41	0	2072	0	USP10	16	84806174	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	549813	84806174	5548579	1086	95239											
USP10	9100	broad.mit.edu	37	chr16	84812581	84812581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggtctgaatggctggctgCgcatcgatgaccagacagtc	8	9	13	11	3	1	3	0	2	1	1	4	4	1	3	1	3	1	3	1	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:84812581C>T	uc002fii.2	+	14	2432	c.2290C>T	c.(2290-2292)CGC>TGC	p.R764C	USP10_uc010voe.1_Missense_Mutation_p.R768C|USP10_uc010vof.1_Missense_Mutation_p.R326C|USP10_uc002fij.2_Missense_Mutation_p.R290C	NM_005153	NP_005144	Q14694	UBP10_HUMAN	ubiquitin specific protease 10	764					DNA damage response, signal transduction by p53 class mediator|DNA repair|protein deubiquitination|ubiquitin-dependent protein catabolic process	early endosome|intermediate filament cytoskeleton|nucleus	cystic fibrosis transmembrane conductance regulator binding|p53 binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						TGGCTGGCTGCGCATCGATGA	0.567													12	27					0	0	1	0	0		T	84812581	T	T	84812581	3	4	190	1	0	0	0	0	1	0	0	0	17067	768	27	1	2344	1	USP10	16	84812581	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6407	84812581	5542172	1087	95240											
ZDHHC7	55625	broad.mit.edu	37	chr16	85024123	85024123	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccagacccggtcagccacGtcagcctcggaggaggagga	11	3	14	13	3	2	1	2	0	0	1	3	5	2	5	4	5	3	0	4	5	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:85024123G>A	uc002fiq.2	-	3	455	c.102C>T	c.(100-102)GAC>GAT	p.D34D	ZDHHC7_uc010voi.1_Silent_p.D34D|ZDHHC7_uc002fir.1_RNA	NM_017740	NP_060210	Q9NXF8	ZDHC7_HUMAN	zinc finger, DHHC-type containing 7 isoform 2	34						integral to membrane	acyltransferase activity|protein binding|zinc ion binding			large_intestine(1)	1						GGTCAGCCACGTCAGCCTCGG	0.577													19	29					0	0	1	0	0		A	85024123	A	A	85024123	2	1	190	1	0	0	0	0	0	0	0	1	17645	1136	40	1		1	ZDHHC7	16	85024123	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	211542	85024123	5330630	1088	95241											
FAM92B	339145	broad.mit.edu	37	chr16	85143874	85143874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actttggccaggtcctcagcGaagcccctcatggtggcccg	6	8	12	15	2	2	0	2	0	0	0	3	1	3	0	5	4	2	0	5	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:85143874G>A	uc010vok.1	-	2	369	c.213C>T	c.(211-213)TTC>TTT	p.F71F		NM_198491	NP_940893	Q6ZTR7	FA92B_HUMAN	hypothetical protein LOC339145	71										central_nervous_system(1)	1						GGTCCTCAGCGAAGCCCCTCA	0.662													28	36					0	0	1	0	0		A	85143874	A	A	85143874	2	1	190	1	0	0	0	0	0	0	0	1	5667	1049	37	1		1	FAM92B	16	85143874	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	119751	85143874	5210879	1089	95242											
COX4I1	1327	broad.mit.edu	37	chr16	85839437	85839437	+	Missense_Mutation	SNP	A	G	G	1	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	ccatgttcttcatcggtttcAccgcgctcgttatcatgtgg	5	15	9	12	4	4	0	3	0	1	0	6	0	4	0	2	2	0	4	2	2	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:85839437A>G	uc002fje.2	+	4	504	c.340A>G	c.(340-342)ACC>GCC	p.T114A	COX4I1_uc002fjf.2_3'UTR|COX4I1_uc002fjg.1_Missense_Mutation_p.T114A|COX4I1_uc010vom.1_Missense_Mutation_p.T81A	NM_001861	NP_001852	P13073	COX41_HUMAN	cytochrome c oxidase subunit IV isoform 1	114					respiratory electron transport chain	mitochondrial inner membrane|nucleus	cytochrome-c oxidase activity|protein binding			lung(1)	1		Renal(780;0.228)				CATCGGTTTCACCGCGCTCGT	0.562													35	62					0	0	1	0	0		G	85839437	G	G	85839437	3	3	190	1	0	0	0	0	1	0	0	0	3772	159	6	3	350	3	COX4I1	16	85839437	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	695563	85839437	4515316	1090	95243											
MTHFSD	64779	broad.mit.edu	37	chr16	86575426	86575426	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcttcagggatgtccacGacctgggggaagagaggagg	10	6	17	8	1	2	1	1	0	1	1	3	6	3	4	2	5	1	1	2	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:86575426G>A	uc002fjn.2	-	7	609	c.558C>T	c.(556-558)GTC>GTT	p.V186V	MTHFSD_uc010voo.1_Silent_p.V166V|MTHFSD_uc002fjo.2_Silent_p.V23V|MTHFSD_uc002fjm.2_Silent_p.V185V|MTHFSD_uc010vop.1_Silent_p.V23V|MTHFSD_uc010voq.1_Silent_p.V185V|MTHFSD_uc010vor.1_Silent_p.V186V|MTHFSD_uc002fjp.2_Silent_p.V166V	NM_001159377	NP_001152849	Q2M296	MTHSD_HUMAN	methenyltetrahydrofolate synthetase domain	186					folic acid-containing compound biosynthetic process		5-formyltetrahydrofolate cyclo-ligase activity|ATP binding|RNA binding				0						GGATGTCCACGACCTGGGGGA	0.597													3	26					0	0	1	0	0		A	86575426	A	A	86575426	2	1	190	1	0	0	0	0	0	0	0	1	9951	1045	37	1		1	MTHFSD	16	86575426	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	735989	86575426	3779327	1091	95244											
SPG7	6687	broad.mit.edu	37	chr16	89614500	89614500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactctcaacttcgagtacGccgtggagcgcgtcctcgca	8	8	10	15	6	1	0	1	0	1	0	5	2	2	1	2	1	3	2	2	1	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr16:89614500G>A	uc002fnj.2	+	12	1663	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T	SPG7_uc002fnk.1_RNA|SPG7_uc002fnl.2_5'Flank	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	548	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		CTTCGAGTACGCCGTGGAGCG	0.627													37	57					0	0	1	0	0		A	89614500	A	A	89614500	3	1	190	1	0	0	0	0	1	0	0	0	15069	1087	38	1	1838	1	SPG7	16	89614500	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3039074	89614500	740253	1092	95245											
NXN	64359	broad.mit.edu	37	chr17	707017	707017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctgaatcagctgcttggCcgcctcggactctccgtcat	5	10	11	15	4	3	1	2	1	1	0	5	2	3	2	3	3	2	3	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:707017C>T	uc002fsa.2	-	7	1122	c.1030G>A	c.(1030-1032)GCC>ACC	p.A344T	NXN_uc010vqd.1_Missense_Mutation_p.A35T|NXN_uc002frz.2_Missense_Mutation_p.A95T|NXN_uc010vqe.1_Missense_Mutation_p.A236T	NM_022463	NP_071908	Q6DKJ4	NXN_HUMAN	nucleoredoxin	344					cell differentiation|cell redox homeostasis|multicellular organismal development|Wnt receptor signaling pathway	cytosol|nucleus	protein-disulfide reductase activity			ovary(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (25;0.0237)		AGCTGCTTGGCCGCCTCGGAC	0.552													43	45					0	0	1	0	0		T	707017	T	T	707017	3	4	190	1	0	0	0	0	1	0	0	0	10806	739	26	2	285	2	NXN	17	707017	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		707017	80488193	1093	95246											
WDR81	124997	broad.mit.edu	37	chr17	1637358	1637358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtaccgtgcgcctctggcCgctgtacaactacggcgacg	6	8	12	15	7	1	0	0	0	1	0	2	1	1	0	3	2	5	3	3	2	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:1637358C>T	uc002fti.2	+	7	1607	c.1346C>T	c.(1345-1347)CCG>CTG	p.P449L	WDR81_uc002fth.2_Missense_Mutation_p.P625L|WDR81_uc010vqp.1_Missense_Mutation_p.P473L|WDR81_uc002ftj.2_Missense_Mutation_p.P1676L|WDR81_uc010vqq.1_Missense_Mutation_p.P307L	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	449										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CGCCTCTGGCCGCTGTACAAC	0.672													23	38					0	0	1	0	0		T	1637358	T	T	1637358	3	4	190	1	0	0	0	0	1	0	0	0	17356	652	23	1	5115	1	WDR81	17	1637358	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	930341	1637358	79557852	1094	95247											
WDR81	124997	broad.mit.edu	37	chr17	1638935	1638935	+	Frame_Shift_Del	DEL	C	-	-																															tgcggtggctgtcatgcccgCcccccacaccagcatcacca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:1638935delC	uc002fti.2	+	8	1829	c.1568delC	c.(1567-1569)GCCfs	p.A523fs	WDR81_uc002fth.2_Frame_Shift_Del_p.A699fs|WDR81_uc010vqp.1_Frame_Shift_Del_p.A547fs|WDR81_uc002ftj.2_Frame_Shift_Del_p.A1750fs|WDR81_uc010vqq.1_Frame_Shift_Del_p.A381fs	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	523										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GTCATGCCCGCCCCCCACACC	0.642													16	31	---	---	---	---						.	-	1638935	-	-	1638935	7	5	190	1	0	1	0	1	0	0	0	0	17356	739	26	0	5341	0	WDR81	17	1638935	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1577	1638935	79556275	1095	95248											
SERPINF2	5345	broad.mit.edu	37	chr17	1650347	1650347	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgttgcagaggctgcaacaGgtgctgcacgcaggctcagg	9	6	15	11	2	1	1	1	0	0	1	1	1	1	1	0	4	5	8	0	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:1650347G>T	uc002ftk.1	+	6	479	c.402G>T	c.(400-402)CAG>CAT	p.Q134H	SERPINF2_uc010vqr.1_Missense_Mutation_p.Q70H	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	134					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	GGCTGCAACAGGTGCTGCACG	0.692													10	15					1.76689e-08	1.83831e-08	1	1	0		T	1650347	T	T	1650347	3	4	190	1	0	0	0	0	1	0	0	0	14140	991	35	5	430	5	SERPINF2	17	1650347	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	11412	1650347	79544863	1096	95249											
TSR1	55720	broad.mit.edu	37	chr17	2238058	2238058	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaactgcctaagcagcatcCctgcctcctgttgagtgtct	7	11	8	15	0	1	1	0	1	1	0	3	1	3	1	5	0	5	3	5	0	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:2238058C>A	uc002fuj.2	-	5	1646	c.689G>T	c.(688-690)GGG>GTG	p.G230V	SGSM2_uc002fum.3_5'Flank|SGSM2_uc010vqw.1_5'Flank|SGSM2_uc002fun.3_5'Flank	NM_018128	NP_060598	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation	230					ribosome assembly	nucleolus	protein binding			ovary(1)	1						AAGCAGCATCCCTGCCTCCTG	0.473													78	79					5.02462e-34	5.48776e-34	1	1	0		A	2238058	A	A	2238058	3	1	190	1	0	0	0	0	1	0	0	0	16690	623	22	5	1769	5	TSR1	17	2238058	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	587711	2238058	78957152	1097	95250											
PAFAH1B1	5048	broad.mit.edu	37	chr17	2570463	2570463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atcctgtgttcagtgttatgGtctctgcttcagaggatgct	6	16	11	8	0	3	1	2	0	1	1	5	2	4	2	1	2	2	4	1	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:2570463G>A	uc002fuw.3	+	5	938	c.370G>A	c.(370-372)GTC>ATC	p.V124I	PAFAH1B1_uc010ckb.1_RNA|PAFAH1B1_uc010vqz.1_5'Flank	NM_000430	NP_000421	P43034	LIS1_HUMAN	platelet-activating factor acetylhydrolase,	124	WD 1.|Interaction with dynein and dynactin.				acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1						CAGTGTTATGGTCTCTGCTTC	0.328													24	38					0	0	1	0	0		A	2570463	A	A	2570463	3	1	190	1	0	0	0	0	1	0	0	0	11403	1261	44	4	384	4	PAFAH1B1	17	2570463	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	332405	2570463	78624747	1098	95251											
RAP1GAP2	23108	broad.mit.edu	37	chr17	2808601	2808601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaggagctggccaacagctCggatgcgaccctcccagacc	9	4	12	16	2	0	1	0	0	0	1	2	4	1	3	4	3	4	3	4	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:2808601C>T	uc010ckd.2	+	3	194	c.104C>T	c.(103-105)TCG>TTG	p.S35L	RAP1GAP2_uc010cke.2_Missense_Mutation_p.S35L	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	35					regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						GCCAACAGCTCGGATGCGACC	0.617													12	16					0	0	1	0	0		T	2808601	T	T	2808601	3	4	190	1	0	0	0	0	1	0	0	0	13063	893	31	1	114	1	RAP1GAP2	17	2808601	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	238138	2808601	78386609	1099	95252											
TMEM93	83460	broad.mit.edu	37	chr17	3572580	3572580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccggcatcctcggcctcaCcggcctctacggcttcatct	4	9	10	18	4	4	0	2	0	2	0	6	0	5	0	5	5	1	2	5	5	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:3572580C>T	uc002fwf.1	+	2	293	c.140C>T	c.(139-141)ACC>ATC	p.T47I	TAX1BP3_uc002fwc.2_5'Flank|P2RX5_uc002fwd.2_RNA|TAX1BP3_uc002fwe.1_5'Flank|TMEM93_uc002fwg.1_Missense_Mutation_p.T47I|P2RX5_uc002fwh.1_3'UTR	NM_031298	NP_112588	Q9BV81	TMM93_HUMAN	transmembrane protein 93	47						integral to membrane					0						CTCGGCCTCACCGGCCTCTAC	0.632													12	20					0	0	1	0	0		T	3572580	T	T	3572580	3	4	190	1	0	0	0	0	1	0	0	0	16247	507	18	4	142	4	TMEM93	17	3572580	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	763979	3572580	77622630	1100	95253											
ZZEF1	23140	broad.mit.edu	37	chr17	3966183	3966183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caggatgctctgggcctgggCtttcctcagggaaagaacct	8	9	13	11	0	2	1	1	0	1	1	3	3	3	3	3	4	2	2	3	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:3966183C>T	uc002fxe.2	-	30	4811	c.4747G>A	c.(4747-4749)GCC>ACC	p.A1583T	ZZEF1_uc002fxh.2_5'UTR|ZZEF1_uc002fxi.2_5'UTR|ZZEF1_uc002fxj.1_Missense_Mutation_p.A196T	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1583							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGGGCCTGGGCTTTCCTCAGG	0.522													11	25					0	0	1	0	0		T	3966183	T	T	3966183	3	4	190	1	0	0	0	0	1	0	0	0	18280	797	28	2	4242	2	ZZEF1	17	3966183	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	393603	3966183	77229027	1101	95254											
SMTNL2	342527	broad.mit.edu	37	chr17	4496330	4496330	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccaccagccagtcacGgccatcacccgagtctctga	8	6	8	19	2	3	1	2	1	1	0	4	2	3	1	6	1	2	0	6	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:4496330G>A	uc002fyf.1	+	3	661	c.594G>A	c.(592-594)ACG>ACA	p.T198T	SMTNL2_uc002fye.2_Silent_p.T54T	NM_001114974	NP_001108446	Q2TAL5	SMTL2_HUMAN	smoothelin-like 2 isoform 1	198											0				READ - Rectum adenocarcinoma(115;0.0325)		AGCCAGTCACGGCCATCACCC	0.642													24	39					0	0	1	0	0		A	4496330	A	A	4496330	2	1	190	1	0	0	0	0	0	0	0	1	14841	1103	39	1		1	SMTNL2	17	4496330	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	530147	4496330	76698880	1102	95255											
CHRNE	1145	broad.mit.edu	37	chr17	4804101	4804101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttcacctgcccaggagcgGcacgctcagagaagtctctg	8	7	12	14	2	3	1	2	0	1	1	4	3	3	2	2	2	2	3	2	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:4804101G>A	uc002fzk.1	-	8	915	c.904C>T	c.(904-906)CCG>TCG	p.P302S	C17orf107_uc002fzl.3_3'UTR	NM_000080	NP_000071	Q04844	ACHE_HUMAN	nicotinic acetylcholine receptor epsilon	302	Extracellular (Potential).				muscle contraction|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						CCCAGGAGCGGCACGCTCAGA	0.637													3	20					0	0	1	0	0		A	4804101	A	A	4804101	3	1	190	1	0	0	0	0	1	0	0	0	3398	1203	42	2	597	2	CHRNE	17	4804101	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	307771	4804101	76391109	1103	95256											
CAMTA2	23125	broad.mit.edu	37	chr17	4883674	4883674	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcttgaagaaccccctcGagaagtgggagggctaggtc	9	8	13	11	1	1	3	0	1	1	2	4	5	2	4	3	3	1	1	3	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:4883674G>A	uc002gah.1	-	9	1051	c.943C>T	c.(943-945)CGA>TGA	p.R315*	CAMTA2_uc010cku.1_Nonsense_Mutation_p.R338*|CAMTA2_uc002gag.1_Nonsense_Mutation_p.R314*|CAMTA2_uc002gai.1_Nonsense_Mutation_p.R317*|CAMTA2_uc010ckv.1_5'UTR|CAMTA2_uc010vsu.1_Nonsense_Mutation_p.R128*	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	315					cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						GAACCCCCTCGAGAAGTGGGA	0.592											OREG0024111	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	25					0	0	1	0	0		A	4883674	A	A	4883674	4	1	190	1	0	0	0	0	0	1	0	0	2617	1066	37	1	2775	1	CAMTA2	17	4883674	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	79573	4883674	76311536	1104	95257											
USP6	9098	broad.mit.edu	37	chr17	5073913	5073913	+	Silent	SNP	A	G	G	1	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	ggcagcaaaaataagccgtcAagtagtaagaagaacttgga	18	6	11	6	1	1	2	1	0	0	2	1	3	1	3	1	2	3	4	1	2	8	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:5073913A>G	uc002gau.1	+	36	5887	c.3657A>G	c.(3655-3657)TCA>TCG	p.S1219S	USP6_uc002gav.1_Silent_p.S1219S|USP6_uc010ckz.1_Silent_p.S902S	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	1219					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						ATAAGCCGTCAAGTAGTAAGA	0.582			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								24	26					0	0	1	0	0		G	5073913	G	G	5073913	2	3	190	1	0	0	0	0	0	0	0	1	17112	117	5	3		3	USP6	17	5073913	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	190239	5073913	76121297	1105	95258											
NLRP1	22861	broad.mit.edu	37	chr17	5425092	5425092	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggccatttggaacagggatgTgtccacatggccccctgtaa	9	9	12	11	0	0	0	0	0	0	0	1	2	1	2	4	4	1	1	4	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:5425092T>C	uc002gci.2	-	13	4090	c.3535A>G	c.(3535-3537)ACA>GCA	p.T1179A	NLRP1_uc002gcg.1_Missense_Mutation_p.T1183A|NLRP1_uc002gck.2_Missense_Mutation_p.T1179A|NLRP1_uc002gcj.2_Missense_Mutation_p.T1149A|NLRP1_uc002gcl.2_Missense_Mutation_p.T1149A|NLRP1_uc002gch.3_Missense_Mutation_p.T1179A	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1179					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				AACAGGGATGTGTCCACATGG	0.383													23	33					0	0	1	0	0		C	5425092	C	C	5425092	3	2	190	1	0	0	0	0	1	0	0	0	10490	1696	59	3	969	3	NLRP1	17	5425092	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	351179	5425092	75770118	1106	95259											
PHF23	79142	broad.mit.edu	37	chr17	7139763	7139764	+	Frame_Shift_Ins	INS	-	G	G																															gcacgggggtaagagcagcaINSgggggccgggaggtatgtgt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7139763_7139764insG	uc002gfa.2	-	4	709_710	c.482_483insC	c.(481-483)CCTfs	p.P161fs	DVL2_uc002gez.1_5'Flank|DVL2_uc010vtr.1_5'Flank|DVL2_uc010clz.1_5'Flank|PHF23_uc010vtt.1_Frame_Shift_Ins_p.P94fs|PHF23_uc010cma.2_Frame_Shift_Ins_p.P31fs	NM_024297	NP_077273	Q9BUL5	PHF23_HUMAN	PHD finger protein 23	161							zinc ion binding				0						TAAGAGCAGCAGGGGGCCGGGA	0.589													43	62	---	---	---	---						.	G	7139764	G	G	7139763	7	5	190	1	0	1	1	0	0	0	0	0	11854	175	7	0	736	0	PHF23	17	7139763	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	1714671	7139763	74055447	1107	95260											
NEURL4	84461	broad.mit.edu	37	chr17	7219602	7219602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgcacacacacctggaacGccacctgagcctggtgcgtc	8	5	12	16	3	0	1	0	1	0	0	1	2	0	2	4	3	3	1	4	3	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7219602G>A	uc002gga.1	-	29	4536	c.4529C>T	c.(4528-4530)GCG>GTG	p.A1510V	GPS2_uc002gfv.1_5'Flank|GPS2_uc002gfw.1_5'Flank|GPS2_uc002gfx.1_5'Flank|NEURL4_uc002gfy.1_RNA|GPS2_uc002gfz.1_5'UTR|NEURL4_uc002ggb.1_Missense_Mutation_p.A1508V	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	1510							protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CACCTGGAACGCCACCTGAGC	0.527													16	22					0	0	1	0	0		A	7219602	A	A	7219602	3	1	190	1	0	0	0	0	1	0	0	0	10366	1087	38	1	163	1	NEURL4	17	7219602	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	79839	7219602	73975608	1108	95261											
NEURL4	84461	broad.mit.edu	37	chr17	7226379	7226379	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcgtgcacctgtgcccagCgcatccaggtcacacccata	9	7	9	16	2	1	0	1	0	0	0	2	0	2	0	4	1	4	2	4	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7226379C>T	uc002gga.1	-	15	2488	c.2481G>A	c.(2479-2481)GCG>GCA	p.A827A	NEURL4_uc002ggb.1_Silent_p.A827A|NEURL4_uc002ggc.1_Silent_p.A173A	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	827	NHR 4.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTGTGCCCAGCGCATCCAGGT	0.602													4	39					0	0	1	0	0		T	7226379	T	T	7226379	2	4	190	1	0	0	0	0	0	0	0	1	10366	755	27	1		1	NEURL4	17	7226379	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6777	7226379	73968831	1109	95262											
C17orf74	201243	broad.mit.edu	37	chr17	7330257	7330257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgggatcagcggcgtcGtggcacggagggctttgagc	5	8	17	11	4	1	1	1	1	0	0	3	3	2	3	1	5	2	2	1	5	0	1	rs117934604	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7330257G>A	uc002ggw.2	+	3	1020	c.947G>A	c.(946-948)CGT>CAT	p.R316H	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	316						integral to membrane					0		Prostate(122;0.157)				CAGCGGCGTCGTGGCACGGAG	0.711													17	20					0	0	1	0	0		A	7330257	A	A	7330257	3	1	190	1	0	0	0	0	1	0	0	0	1882	1145	40	1	957	1	C17orf74	17	7330257	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	103878	7330257	73864953	1110	95263											
POLR2A	5430	broad.mit.edu	37	chr17	7405890	7405890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcagtgatggtgaagtacGacgcgactgtgcggaactcc	10	8	14	9	4	1	2	1	2	0	0	2	5	2	3	1	2	3	1	1	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7405890G>A	uc002ghf.3	+	16	2860	c.2626G>A	c.(2626-2628)GAC>AAC	p.D876N		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	876					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				GGTGAAGTACGACGCGACTGT	0.592													27	48					0	0	1	0	0		A	7405890	A	A	7405890	3	1	190	1	0	0	0	0	1	0	0	0	12233	1058	37	1	2688	1	POLR2A	17	7405890	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	75633	7405890	73789320	1111	95264											
CHD3	1107	broad.mit.edu	37	chr17	7796827	7796827	+	Frame_Shift_Del	DEL	C	-	-																															gaccccccgcccttccaccaCcccctgctgctgatatccag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7796827delC	uc002gje.2	+	5	883	c.733delC	c.(733-735)CCCfs	p.P245fs	CHD3_uc002gjd.2_Frame_Shift_Del_p.P304fs|CHD3_uc002gjf.2_Frame_Shift_Del_p.P245fs|CHD3_uc002gjg.1_Frame_Shift_Del_p.P77fs	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	245	Poly-Pro.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				CCTTCCACCACCCCCTGCTGC	0.527													40	33	---	---	---	---						.	-	7796827	-	-	7796827	7	5	190	1	0	1	0	1	0	0	0	0	3329	507	18	0	1032	0	CHD3	17	7796827	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	390937	7796827	73398383	1112	95265											
CHD3	1107	broad.mit.edu	37	chr17	7809229	7809229	+	Frame_Shift_Del	DEL	G	-	-																															cctcaatgctgtgatgcgctGggggatgccaccacaggatg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7809229delG	uc002gje.2	+	28	4430	c.4280delG	c.(4279-4281)TGGfs	p.W1427fs	CHD3_uc002gjd.2_Frame_Shift_Del_p.W1486fs|CHD3_uc002gjf.2_Frame_Shift_Del_p.W1427fs|CHD3_uc002gjh.2_Frame_Shift_Del_p.W3fs|SCARNA21_uc002gji.1_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1427					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GTGATGCGCTGGGGGATGCCA	0.582													50	61	---	---	---	---						.	-	7809229	-	-	7809229	7	5	190	1	0	1	0	1	0	0	0	0	3329	1357	47	0	4671	0	CHD3	17	7809229	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	12402	7809229	73385981	1113	95266											
GUCY2D	3000	broad.mit.edu	37	chr17	7917940	7917940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagaacatcaacaagggcCggaagacgaacatcattgac	17	5	9	10	2	3	3	3	1	0	2	3	5	3	4	1	2	3	0	1	2	6	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7917940C>T	uc002gjt.2	+	13	2508	c.2434C>T	c.(2434-2436)CGG>TGG	p.R812W		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	812	Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				CAACAAGGGCCGGAAGACGAA	0.552													33	53					0	0	1	0	0		T	7917940	T	T	7917940	3	4	190	1	0	0	0	0	1	0	0	0	6913	643	23	1	2480	1	GUCY2D	17	7917940	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	108711	7917940	73277270	1114	95267											
GUCY2D	3000	broad.mit.edu	37	chr17	7919132	7919132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggacacggtcaacaccGcctcgcgcatggagtccacc	8	6	12	15	4	1	0	1	0	0	0	3	2	2	2	4	4	1	1	4	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:7919132G>A	uc002gjt.2	+	16	3090	c.3016G>A	c.(3016-3018)GCC>ACC	p.A1006T		NM_000180	NP_000171	Q02846	GUC2D_HUMAN	guanylate cyclase 2D, membrane (retina-specific)	1006	Guanylate cyclase.|Cytoplasmic (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			skin(1)	1		Prostate(122;0.157)				GGTCAACACCGCCTCGCGCAT	0.697													7	13					0	0	1	0	0		A	7919132	A	A	7919132	3	1	190	1	0	0	0	0	1	0	0	0	6913	1087	38	1	3074	1	GUCY2D	17	7919132	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1192	7919132	73276078	1115	95268											
USP43	124739	broad.mit.edu	37	chr17	9596520	9596520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgtctccgaaggacagtcGgcccctctgtcactgggcag	6	10	12	13	2	3	0	1	0	2	0	5	2	3	1	3	3	0	1	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:9596520G>A	uc010cod.2	+	9	1430	c.1430G>A	c.(1429-1431)CGG>CAG	p.R477Q	USP43_uc002gma.3_Missense_Mutation_p.R166Q|USP43_uc010vva.1_Missense_Mutation_p.R477Q|USP43_uc010coe.2_Missense_Mutation_p.R274Q	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	477					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						AAGGACAGTCGGCCCCTCTGT	0.512													4	7					0	0	1	0	0		A	9596520	A	A	9596520	3	1	190	1	0	0	0	0	1	0	0	0	17100	1116	39	1	1464	1	USP43	17	9596520	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1677388	9596520	71598690	1116	95269											
GAS7	8522	broad.mit.edu	37	chr17	9846445	9846445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggcttcacctttcccGgatgaattctgacatttcct	7	13	7	14	1	2	2	1	2	1	0	4	3	4	3	4	2	0	1	4	2	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:9846445G>A	uc002gmg.1	-	7	885	c.724C>T	c.(724-726)CGG>TGG	p.R242W	GAS7_uc010vvc.1_Missense_Mutation_p.R56W|GAS7_uc002gmh.1_Missense_Mutation_p.R102W|GAS7_uc010vvd.1_Missense_Mutation_p.R194W|GAS7_uc002gmi.2_Missense_Mutation_p.R178W|GAS7_uc002gmj.1_Missense_Mutation_p.R182W|GAS7_uc010coh.1_Missense_Mutation_p.R182W	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	242	FCH.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						CACCTTTCCCGGATGAATTCT	0.488			T	MLL	AML*								37	55					0	0	1	0	0		A	9846445	A	A	9846445	3	1	190	1	0	0	0	0	1	0	0	0	6265	1115	39	1	738	1	GAS7	17	9846445	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	249925	9846445	71348765	1117	95270											
MAP2K4	6416	broad.mit.edu	37	chr17	12011155	12011155	+	Frame_Shift_Del	DEL	T	-	-																															tgtctacctcgtttgataagTtttacaaatatgtatatagt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:12011155delT	uc002gnj.2	+	5	631	c.562delT	c.(562-564)TTTfs	p.F188fs	MAP2K4_uc002gnk.2_Frame_Shift_Del_p.F199fs|MAP2K4_uc010vvi.1_Frame_Shift_Del_p.F70fs|MAP2K4_uc010vvj.1_Frame_Shift_Del_p.F60fs	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4	188	Protein kinase.				cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.?(1)		large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		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)		GTTTGATAAGTTTTACAAATA	0.294			D|Mis|N		pancreatic|breast|colorectal								66	110	---	---	---	---						.	-	12011155	-	-	12011155	7	5	190	1	0	1	0	1	0	0	0	0	9257	1725	60	0	580	0	MAP2K4	17	12011155	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	2164710	12011155	69184055	1118	95271											
MYOCD	93649	broad.mit.edu	37	chr17	12642606	12642606	+	Frame_Shift_Del	DEL	C	-	-																															gcggggaagcaggggcttggCccccccagcacccccatagc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:12642606delC	uc002gnn.2	+	7	977	c.678delC	c.(676-678)GGCfs	p.G226fs	MYOCD_uc002gno.2_Frame_Shift_Del_p.G226fs|MYOCD_uc002gnp.1_Frame_Shift_Del_p.G130fs	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	226					cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		AGGGGCTTGGCCCCCCCAGCA	0.587													25	32	---	---	---	---						.	-	12642606	-	-	12642606	7	5	190	1	0	1	0	1	0	0	0	0	10105	726	26	0	704	0	MYOCD	17	12642606	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	631451	12642606	68552604	1119	95272											
PMP22	5376	broad.mit.edu	37	chr17	15162426	15162426	+	Missense_Mutation	SNP	A	G	G	1	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	ctcaccgtttggtgatgatgAgaaacagtggtggacatttc	10	12	12	7	1	1	3	1	3	0	1	2	5	1	4	1	3	1	1	1	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:15162426A>G	uc002goj.2	-	2	212	c.163T>C	c.(163-165)TCA>CCA	p.S55P	PMP22_uc002gok.2_Missense_Mutation_p.S55P|PMP22_uc002gol.2_Missense_Mutation_p.S55P	NM_153322	NP_696997	Q01453	PMP22_HUMAN	peripheral myelin protein 22	55					peripheral nervous system development|synaptic transmission	integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0884)|BRCA - Breast invasive adenocarcinoma(8;4.92e-06)		GGTGATGATGAGAAACAGTGG	0.498													19	25					0	0	1	0	0		G	15162426	G	G	15162426	3	3	190	1	0	0	0	0	1	0	0	0	12158	304	11	3	331	3	PMP22	17	15162426	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2519820	15162426	66032784	1120	95273											
RAI1	10743	broad.mit.edu	37	chr17	17697948	17697948	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgttctgtgacctctcctgaCgacatgtccaccaaatctga	9	12	7	13	1	3	3	0	3	3	0	5	4	4	3	4	0	0	1	4	0	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:17697948C>T	uc002grm.2	+	3	2155	c.1686C>T	c.(1684-1686)GAC>GAT	p.D562D	RAI1_uc002grn.1_Silent_p.D562D	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	562						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CCTCTCCTGACGACATGTCCA	0.617													42	54					0	0	1	0	0		T	17697948	T	T	17697948	2	4	190	1	0	0	0	0	0	0	0	1	13032	535	19	1		1	RAI1	17	17697948	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2535522	17697948	63497262	1121	95274											
MYO15A	51168	broad.mit.edu	37	chr17	18022933	18022933	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcccggcctggccaccCtacggcgaccactactacgg	8	5	10	18	4	0	0	0	0	0	0	0	1	0	0	5	4	5	0	5	4	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:18022933C>A	uc010vxh.1	+	2	1157	c.819C>A	c.(817-819)CCC>CCA	p.P273P		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	273	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCTGGCCACCCTACGGCGACC	0.662													25	41					0.00278032	0.00281044	1	1	0		A	18022933	A	A	18022933	2	1	190	1	0	0	0	0	0	0	0	1	10081	668	24	5		5	MYO15A	17	18022933	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	324985	18022933	63172277	1122	95275											
FLII	2314	broad.mit.edu	37	chr17	18154602	18154602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagcacaatgtagcagtcagCctcgtagaacttgccgtgga	11	8	12	10	2	1	1	1	0	0	1	2	3	1	2	2	1	5	4	2	1	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:18154602C>T	uc002gsr.1	-	13	1624	c.1573G>A	c.(1573-1575)GCT>ACT	p.A525T	FLII_uc002gsq.1_Missense_Mutation_p.A396T|FLII_uc010cpy.1_Missense_Mutation_p.A514T|FLII_uc010vxn.1_Missense_Mutation_p.A494T|FLII_uc010vxo.1_Missense_Mutation_p.A470T|FLII_uc002gss.1_Missense_Mutation_p.A524T	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	525	Interaction with ACTL6A.|Gelsolin-like 1.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)|skin(1)	2	all_neural(463;0.228)					TAGCAGTCAGCCTCGTAGAAC	0.592													24	21					0	0	1	0	0		T	18154602	T	T	18154602	3	4	190	1	0	0	0	0	1	0	0	0	5939	739	26	2	2308	2	FLII	17	18154602	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	131669	18154602	63040608	1123	95276											
TRIM16L	147166	broad.mit.edu	37	chr17	18631016	18631016	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtgccgagatggagaagaGtaagcaggagctggagacga	14	4	18	5	2	0	4	0	0	0	4	0	10	0	5	1	3	3	3	1	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:18631016G>T	uc002gug.1	+	7	833	c.146G>T	c.(145-147)AGT>ATT	p.S49I	TRIM16L_uc010vyf.1_Missense_Mutation_p.S103I|TRIM16L_uc002guh.1_Missense_Mutation_p.S49I|TRIM16L_uc010cqg.1_Missense_Mutation_p.S151I|TRIM16L_uc002gui.1_Missense_Mutation_p.S49I|TRIM16L_uc010vyg.1_Missense_Mutation_p.S49I|TRIM16L_uc010vyh.1_Missense_Mutation_p.S49I	NM_001037330	NP_001032407	Q309B1	TR16L_HUMAN	tripartite motif-containing 16-like	49						cytoplasm					0						ATGGAGAAGAGTAAGCAGGAG	0.572													33	54					8.4185e-14	8.91406e-14	1	1	0		T	18631016	T	T	18631016	3	4	190	1	0	0	0	0	1	0	0	0	16518	1029	36	5	148	5	TRIM16L	17	18631016	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	476414	18631016	62564194	1124	95277											
FAM18B	51030	broad.mit.edu	37	chr17	18707468	18707468	+	Silent	SNP	T	C	C	0	1	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	caggcggtggttatcatgggTgtggtgctacaaggtgccaa	8	10	16	7	1	1	0	1	0	0	0	1	0	1	0	1	6	3	2	1	6	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:18707468T>C	uc002gum.2	+	6	505	c.480T>C	c.(478-480)GGT>GGC	p.G160G	FAM18B_uc002gun.2_Silent_p.G96G	NM_016078	NP_057162	Q9NYZ1	F18B1_HUMAN	hypothetical protein LOC51030	160	Helical; (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (53;0.0872)|READ - Rectum adenocarcinoma(1115;0.0967)		TTATCATGGGTGTGGTGCTAC	0.453													40	52					0	0	1	0	0		C	18707468	C	C	18707468	2	2	190	1	0	0	0	0	0	0	0	1	5530	1683	59	3		3	FAM18B	17	18707468	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	76452	18707468	62487742	1125	95278											
SLC5A10	125206	broad.mit.edu	37	chr17	18923170	18923170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actacctgcacttcgctgtcGccctctttgcactcagtggt	5	13	8	15	2	2	0	1	0	1	0	4	0	2	0	2	1	3	3	2	1	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:18923170G>A	uc002guu.1	+	13	1596	c.1555G>A	c.(1555-1557)GCC>ACC	p.A519T	SLC5A10_uc002gur.1_Missense_Mutation_p.A489T|SLC5A10_uc002gut.1_Missense_Mutation_p.A535T|SLC5A10_uc002guv.1_Missense_Mutation_p.A492T|SLC5A10_uc010vyl.1_Missense_Mutation_p.A483T	NM_001042450	NP_001035915	A0PJK1	SC5AA_HUMAN	solute carrier family 5 (sodium/glucose	519	Helical; (Potential).				sodium ion transport|transmembrane transport	integral to membrane	transporter activity			ovary(1)	1						CTTCGCTGTCGCCCTCTTTGC	0.652													10	7					0	0	1	0	0		A	18923170	A	A	18923170	3	1	190	1	0	0	0	0	1	0	0	0	14687	1087	38	1	1653	1	SLC5A10	17	18923170	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	215702	18923170	62272040	1126	95279											
CYTSB	92521	broad.mit.edu	37	chr17	20108291	20108291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catacatggaaatgcattacGgacatcaggctcctcaagta	14	9	8	10	1	2	0	2	0	0	0	3	2	3	2	1	3	3	3	1	3	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:20108291G>A	uc002gwq.2	+	4	1074	c.929G>A	c.(928-930)CGG>CAG	p.R310Q	CYTSB_uc010cqx.2_Missense_Mutation_p.R310Q|CYTSB_uc002gwr.2_Missense_Mutation_p.R310Q|CYTSB_uc002gws.2_Missense_Mutation_p.R310Q|CYTSB_uc002gwv.2_Missense_Mutation_p.R229Q|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Missense_Mutation_p.R86Q|CYTSB_uc002gwt.2_Missense_Mutation_p.R229Q|CYTSB_uc002gwu.2_Missense_Mutation_p.R229Q	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	310	Ser-rich.					nucleus					0						AATGCATTACGGACATCAGGC	0.453													65	89					0	0	1	0	0		A	20108291	A	A	20108291	3	1	190	1	0	0	0	0	1	0	0	0	4213	1116	39	1	983	1	CYTSB	17	20108291	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1185121	20108291	61086919	1127	95280											
TMEM11	8834	broad.mit.edu	37	chr17	21101945	21101945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacggggtgaagaggcaggCggtgcccgccagcacggccg	8	2	18	13	5	0	2	0	1	0	1	0	2	0	2	3	6	3	2	3	6	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:21101945C>T	uc002gyp.2	-	2	714	c.271G>A	c.(271-273)GCC>ACC	p.A91T	TMEM11_uc002gyq.2_3'UTR	NM_003876	NP_003867	P17152	TMM11_HUMAN	transmembrane protein 11	91	Helical; (Potential).				mitochondrion organization	integral to mitochondrial inner membrane|integral to plasma membrane	protein binding				0						AAGAGGCAGGCGGTGCCCGCC	0.617													21	29					0	0	1	0	0		T	21101945	T	T	21101945	3	4	190	1	0	0	0	0	1	0	0	0	16051	768	27	1	311	1	TMEM11	17	21101945	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	993654	21101945	60093265	1128	95281											
VTN	7448	broad.mit.edu	37	chr17	26694831	26694831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgttggctcccaagttgCtctcctcactggagaacaag	9	11	10	11	0	2	1	1	0	1	1	4	2	3	1	2	2	2	5	2	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:26694831C>T	uc002hbc.2	-	7	1378	c.1229G>A	c.(1228-1230)AGC>AAC	p.S410N	SARM1_uc010wah.1_Intron|SEBOX_uc010wai.1_5'Flank|SEBOX_uc010crk.1_5'UTR|SARM1_uc010waj.1_Intron	NM_000638	NP_000629	P04004	VTNC_HUMAN	vitronectin precursor	410					cell adhesion mediated by integrin|immune response|negative regulation of endopeptidase activity|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein binding|positive regulation of receptor-mediated endocytosis|positive regulation of smooth muscle cell migration|positive regulation of vascular endothelial growth factor receptor signaling pathway|smooth muscle cell-matrix adhesion	alphav-beta3 integrin-vitronectin complex|extracellular space	heparin binding|integrin binding|scavenger receptor activity			ovary(1)|kidney(1)	2	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Urokinase(DB00013)	TCCCAAGTTGCTCTCCTCACT	0.582													29	51					0	0	1	0	0		T	26694831	T	T	26694831	3	4	190	1	0	0	0	0	1	0	0	0	17263	797	28	2	215	2	VTN	17	26694831	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5592886	26694831	54500379	1129	95282											
PIGS	94005	broad.mit.edu	37	chr17	26883896	26883896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattggtggccactggagcGccatccttgtcctgaatgta	7	11	12	11	1	0	1	0	1	0	0	2	2	2	2	4	3	1	2	4	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:26883896G>A	uc002hbo.2	-	9	1402	c.1029C>T	c.(1027-1029)GGC>GGT	p.G343G	PIGS_uc002hbn.2_Silent_p.G335G|PIGS_uc010wap.1_Silent_p.G282G	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	343	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					CCACTGGAGCGCCATCCTTGT	0.567													19	15					0	0	1	0	0		A	26883896	A	A	26883896	2	1	190	1	0	0	0	0	0	0	0	1	11917	1074	38	1		1	PIGS	17	26883896	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	189065	26883896	54311314	1130	95283											
ALDOC	230	broad.mit.edu	37	chr17	26901099	26901099	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagtacctgggacagctgggGgcacagtgcgacgcagggca	9	5	17	10	2	0	0	0	0	0	0	0	2	0	1	1	4	3	5	1	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:26901099G>T	uc002hbp.2	-	7	930	c.785C>A	c.(784-786)CCC>CAC	p.P262H	PIGS_uc002hbn.2_5'Flank|PIGS_uc002hbo.2_5'Flank|PIGS_uc010wap.1_5'Flank|ALDOC_uc010cro.2_Missense_Mutation_p.P234H	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	262					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					GACAGCTGGGGGCACAGTGCG	0.592													80	96					1.51875e-23	1.64431e-23	1	1	0		T	26901099	T	T	26901099	3	4	190	1	0	0	0	0	1	0	0	0	509	1232	43	5	321	5	ALDOC	17	26901099	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	17203	26901099	54294111	1131	95284											
MYO18A	399687	broad.mit.edu	37	chr17	27446378	27446378	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgccatccccacaggccaGcaggtagtagaagacgttga	11	6	13	11	1	0	3	0	1	0	2	1	3	1	3	4	3	2	4	4	3	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:27446378G>A	uc002hdt.1	-	8	1962	c.1804C>T	c.(1804-1806)CTG>TTG	p.L602L	MYO18A_uc010wbc.1_Silent_p.L144L|MYO18A_uc002hds.2_Silent_p.L144L|MYO18A_uc010csa.1_Silent_p.L602L|MYO18A_uc002hdu.1_Silent_p.L602L|MYO18A_uc010wbd.1_Silent_p.L271L	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	602	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			CCACAGGCCAGCAGGTAGTAG	0.582													5	16					0	0	1	0	0		A	27446378	A	A	27446378	2	1	190	1	0	0	0	0	0	0	0	1	10083	962	34	2		2	MYO18A	17	27446378	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	545279	27446378	53748832	1132	95285											
CCDC55	84081	broad.mit.edu	37	chr17	28511866	28511866	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatgacttcaagcaccacaGgagtcaaaaccactctcggt	14	7	8	12	1	3	1	2	1	1	0	4	3	3	2	2	2	2	1	2	2	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:28511866G>T	uc002heu.2	+	7	879	c.851G>T	c.(850-852)AGG>ATG	p.R284M	CCDC55_uc002hev.2_Missense_Mutation_p.R230M|CCDC55_uc010wbl.1_Missense_Mutation_p.R230M|CCDC55_uc010wbm.1_Missense_Mutation_p.R230M|CCDC55_uc002hex.2_Missense_Mutation_p.R230M	NM_032141	NP_115517	Q9H0G5	NSRP1_HUMAN	coiled-coil domain containing 55 isoform 1	284	His-rich.				developmental process|nucleocytoplasmic transport|regulation of alternative nuclear mRNA splicing, via spliceosome	nuclear speck|ribonucleoprotein complex	mRNA binding|protein binding				0						AAGCACCACAGGAGTCAAAAC	0.483													16	30					2.31682e-05	2.36919e-05	1	1	0		T	28511866	T	T	28511866	3	4	190	1	0	0	0	0	1	0	0	0	2828	1000	35	5	877	5	CCDC55	17	28511866	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1065488	28511866	52683344	1133	95286											
MYO1D	4642	broad.mit.edu	37	chr17	31107788	31107788	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccaatgaacgtatagatgCgccctttttcaaatctgtac	11	13	6	11	2	2	2	1	1	1	1	3	2	3	2	2	0	3	2	2	0	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:31107788C>T	uc002hho.1	-	2	122	c.110G>A	c.(109-111)CGC>CAC	p.R37H	MYO1D_uc002hhp.1_Missense_Mutation_p.R37H|MYO1D_uc010wcb.1_Missense_Mutation_p.R37H	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	37	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CGTATAGATGCGCCCTTTTTC	0.413													13	27					0	0	1	0	0		T	31107788	T	T	31107788	3	4	190	1	0	0	0	0	1	0	0	0	10089	768	27	1	2994	1	MYO1D	17	31107788	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2595922	31107788	50087422	1134	95287											
CCL2	6347	broad.mit.edu	37	chr17	32583268	32583268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatgccccagtcacctgctGttataacttcaccaatagga	12	10	6	13	0	2	0	2	0	0	0	2	1	2	1	4	1	3	2	4	1	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:32583268G>A	uc002hhy.2	+	2	177	c.104G>A	c.(103-105)TGT>TAT	p.C35Y		NM_002982	NP_002973	P13500	CCL2_HUMAN	small inducible cytokine A2 precursor	35				Missing: 90% reduction in activity.|Missing: 83% reduction in activity.	angiogenesis|anti-apoptosis|apoptotic cell clearance|astrocyte cell migration|cell adhesion|cellular response to interferon-gamma|cellular response to interleukin-1|cellular response to lipopolysaccharide|cellular response to tumor necrosis factor|G-protein signaling, coupled to cyclic nucleotide second messenger|helper T cell extravasation|humoral immune response|inflammatory response|JAK-STAT cascade|macrophage chemotaxis|monocyte chemotaxis|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of T cell activation|viral genome replication	extracellular space	CCR2 chemokine receptor binding|chemokine activity|protein kinase activity|signal transducer activity			pancreas(1)	1	Breast(3;0.00224)	Ovarian(249;0.0694)|Breast(31;0.151)|Lung NSC(157;0.153)		UCEC - Uterine corpus endometrioid carcinoma (308;0.000241)|BRCA - Breast invasive adenocarcinoma(366;0.0103)	Atorvastatin(DB01076)|Danazol(DB01406)|Mimosine(DB01055)|Simvastatin(DB00641)	GTCACCTGCTGTTATAACTTC	0.423													35	47					0	0	1	0	0		A	32583268	A	A	32583268	3	1	190	1	0	0	0	0	1	0	0	0	2894	1377	48	4	110	4	CCL2	17	32583268	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1475480	32583268	48611942	1135	95288											
AMAC1	146861	broad.mit.edu	37	chr17	33520747	33520747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcctcccaggaaagcctccaCatagcccagggcggtgtaga	10	5	12	14	1	0	1	0	0	0	1	2	2	2	2	5	3	2	1	5	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:33520747C>T	uc002hjd.2	-	1	666	c.580G>A	c.(580-582)GTG>ATG	p.V194M		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	194	Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		AAAGCCTCCACATAGCCCAGG	0.592													58	93					0	0	1	0	0		T	33520747	T	T	33520747	3	4	190	1	0	0	0	0	1	0	0	0	559	478	17	4	440	4	AMAC1	17	33520747	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	937479	33520747	47674463	1136	95289											
AP2B1	163	broad.mit.edu	37	chr17	33984642	33984642	+	Silent	SNP	T	C	C	0	1	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	gatgcaggtgacagccctgtTggcactaccactgcaacgaa	11	7	11	12	1	0	1	0	1	0	0	0	3	0	1	2	2	5	4	2	2	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:33984642T>C	uc002hjr.2	+	14	2010	c.1821T>C	c.(1819-1821)GTT>GTC	p.V607V	AP2B1_uc002hjq.2_Silent_p.V607V|AP2B1_uc010wci.1_Silent_p.V569V|AP2B1_uc002hjs.2_Silent_p.V550V|AP2B1_uc002hjt.2_Silent_p.V607V|AP2B1_uc010ctv.2_Silent_p.V607V|AP2B1_uc010wcj.1_Silent_p.V344V	NM_001282	NP_001273	P63010	AP2B1_HUMAN	adaptor-related protein complex 2, beta 1	607	Pro-rich (stalk region).				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|coated pit|cytosol|endocytic vesicle membrane|plasma membrane	clathrin binding|protein transporter activity			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0227)		ACAGCCCTGTTGGCACTACCA	0.473													20	48					0	0	1	0	0		C	33984642	C	C	33984642	2	2	190	1	0	0	0	0	0	0	0	1	741	1799	63	3		3	AP2B1	17	33984642	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	463895	33984642	47210568	1137	95290											
MMP28	79148	broad.mit.edu	37	chr17	34100368	34100368	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggagatgctcaggccagttCaccaggcggtaggagaggtg	9	6	17	9	2	2	2	2	0	0	2	2	4	2	2	2	6	1	3	2	6	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:34100368C>T	uc002hjy.1	-	4	679	c.420G>A	c.(418-420)GTG>GTA	p.V140V	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	140					proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		CAGGCCAGTTCACCAGGCGGT	0.647													12	11					0	0	1	0	0		T	34100368	T	T	34100368	2	4	190	1	0	0	0	0	0	0	0	1	9683	813	29	4		4	MMP28	17	34100368	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	115726	34100368	47094842	1138	95291											
RDM1	201299	broad.mit.edu	37	chr17	34249635	34249635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacaaagccttctgaatagCaagcttctgggctgtcttcc	9	12	9	11	0	3	2	0	2	3	0	4	2	4	2	2	1	3	3	2	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:34249635C>T	uc002hkh.2	-	5	662	c.613G>A	c.(613-615)GCT>ACT	p.A205T	RDM1_uc010cty.2_Intron|RDM1_uc010ctz.2_Intron|RDM1_uc010cua.2_Missense_Mutation_p.A182T|RDM1_uc002hkg.3_Intron|RDM1_uc010cub.2_RNA|RDM1_uc010cud.2_Intron|RDM1_uc010cuf.2_RNA|RDM1_uc010cue.2_RNA|RDM1_uc010cug.2_Intron|RDM1_uc010cuc.2_Intron|RDM1_uc010wco.1_3'UTR|RDM1_uc010wcp.1_Missense_Mutation_p.A182T|RDM1_uc002hki.2_Missense_Mutation_p.A205T	NM_145654	NP_663629	Q8NG50	RDM1_HUMAN	RAD52 motif 1 isoform 1	205					DNA recombination|DNA repair	Cajal body|cytoplasm|nucleolus|PML body	DNA binding|nucleotide binding|RNA binding			ovary(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		TTCTGAATAGCAAGCTTCTGG	0.373								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					53	84					0	0	1	0	0		T	34249635	T	T	34249635	3	4	190	1	0	0	0	0	1	0	0	0	13222	710	25	2	297	2	RDM1	17	34249635	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	149267	34249635	46945575	1139	95292											
MED1	5469	broad.mit.edu	37	chr17	37565661	37565661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcaggagctaaagctttgCcggctactgaaataatactg	12	10	10	9	1	0	1	0	1	0	0	0	2	0	2	1	2	6	4	1	2	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:37565661C>T	uc002hrv.3	-	17	3025	c.2813G>A	c.(2812-2814)GGC>GAC	p.G938D	MED1_uc010wee.1_Missense_Mutation_p.G766D|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	938	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		TAAAGCTTTGCCGGCTACTGA	0.468										HNSCC(31;0.082)			26	64					0	0	1	0	0		T	37565661	T	T	37565661	3	4	190	1	0	0	0	0	1	0	0	0	9443	739	26	2	1936	2	MED1	17	37565661	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3316026	37565661	43629549	1140	95293											
STARD3	10948	broad.mit.edu	37	chr17	37815758	37815758	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggaggccacggcagtggtGgaccagatcttggcccagga	10	5	16	10	1	1	1	0	0	1	1	1	4	1	4	3	7	0	1	3	7	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:37815758G>T	uc002hsd.2	+	9	871	c.747G>T	c.(745-747)GTG>GTT	p.V249V	STARD3_uc010weh.1_RNA|STARD3_uc002hse.2_Silent_p.V231V|STARD3_uc010wei.1_Silent_p.V249V|STARD3_uc002hsf.2_Silent_p.V115V|STARD3_uc002hsg.2_Silent_p.V82V	NM_006804	NP_006795	Q14849	STAR3_HUMAN	StAR-related lipid transfer (START) domain	249	START.|Cytoplasmic (Potential).				cholesterol metabolic process|mitochondrial transport|steroid biosynthetic process	integral to membrane|late endosome membrane	cholesterol binding|cholesterol transporter activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;1.04e-44)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CGGCAGTGGTGGACCAGATCT	0.582													21	28					3.5997e-14	3.81701e-14	1	1	0		T	37815758	T	T	37815758	2	4	190	1	0	0	0	0	0	0	0	1	15282	1335	47	5		5	STARD3	17	37815758	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	250097	37815758	43379452	1141	95294											
KRT40	125115	broad.mit.edu	37	chr17	39140460	39140460	+	Silent	SNP	T	C	C	0	1	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	acggagcagcttgaggcaggTgcacaaccggaagccgtgcc	10	4	15	12	3	0	1	0	1	0	0	0	3	0	3	3	4	6	4	3	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:39140460T>C	uc010cxh.1	-	3	227	c.66A>G	c.(64-66)GCA>GCG	p.A22A	KRT40_uc002hvq.1_RNA	NM_182497	NP_872303	Q6A162	K1C40_HUMAN	type I hair keratin KA36	22	Head.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)				TTGAGGCAGGTGCACAACCGG	0.567													23	27					0	0	1	0	0		C	39140460	C	C	39140460	2	2	190	1	0	0	0	0	0	0	0	1	8494	1683	59	3		3	KRT40	17	39140460	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1324702	39140460	42054750	1142	95295											
KLHL11	55175	broad.mit.edu	37	chr17	40010508	40010508	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaataagcggcaaagattcCacatcttgccactgtcgagt	12	10	8	11	2	2	1	1	0	1	1	4	2	3	1	2	1	2	1	2	1	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:40010508C>T	uc002hyf.1	-	2	1617	c.1611G>A	c.(1609-1611)GTG>GTA	p.V537V		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	537	Kelch 4.					extracellular region					0		Breast(137;0.00156)				GCAAAGATTCCACATCTTGCC	0.418													56	64					0	0	1	0	0		T	40010508	T	T	40010508	2	4	190	1	0	0	0	0	0	0	0	1	8383	581	21	4		4	KLHL11	17	40010508	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	870048	40010508	41184702	1143	95296											
DHX58	79132	broad.mit.edu	37	chr17	40255748	40255748	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctccactgggaactgctgCcgctggttctcccgctgggc	3	10	13	15	2	1	0	0	0	1	0	3	1	2	1	3	3	4	5	3	3	1	1	rs141850808	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:40255748C>T	uc002hyw.3	-	12	1855	c.1632G>A	c.(1630-1632)CGG>CGA	p.R544R	DHX58_uc002hyv.3_Intron|DHX58_uc010wgf.1_Silent_p.R537R	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	544	Potential.				innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GGAACTGCTGCCGCTGGTTCT	0.667													20	35					0	0	1	0	0		T	40255748	T	T	40255748	2	4	190	1	0	0	0	0	0	0	0	1	4520	726	26	2		2	DHX58	17	40255748	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	245240	40255748	40939462	1144	95297											
PLEKHH3	79990	broad.mit.edu	37	chr17	40825750	40825750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccgcgcccctttcccgctgCtgctgaactgatccagggag	5	8	12	16	3	0	2	0	2	0	0	2	3	2	3	5	1	3	3	5	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:40825750C>T	uc002iau.2	-	4	868	c.401G>A	c.(400-402)AGC>AAC	p.S134N	PLEKHH3_uc010cyl.1_5'Flank|PLEKHH3_uc002iat.1_RNA|PLEKHH3_uc002iav.2_RNA|PLEKHH3_uc010cym.1_Intron|PLEKHH3_uc002iaw.2_Missense_Mutation_p.S134N	NM_024927	NP_079203	Q7Z736	PKHH3_HUMAN	pleckstrin homology domain containing, family H	134	PH.				signal transduction	cytoskeleton				large_intestine(1)|ovary(1)	2		Breast(137;0.00116)		BRCA - Breast invasive adenocarcinoma(366;0.14)		TTTCCCGCTGCTGCTGAACTG	0.716													10	14					0	0	1	0	0		T	40825750	T	T	40825750	3	4	190	1	0	0	0	0	1	0	0	0	12097	797	28	2	2020	2	PLEKHH3	17	40825750	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	570002	40825750	40369460	1145	95298											
DHX8	1659	broad.mit.edu	37	chr17	41599488	41599488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctgcagtgggttcttcCgtaatgctgccaagaaagac	10	10	10	11	1	2	2	0	0	2	2	3	2	3	2	3	1	3	4	3	1	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:41599488C>T	uc002idu.1	+	22	3410	c.3337C>T	c.(3337-3339)CGT>TGT	p.R1113C	DHX8_uc010wig.1_Missense_Mutation_p.R1113C	NM_004941	NP_004932	Q14562	DHX8_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 8	1113						catalytic step 2 spliceosome	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|pancreas(1)	4		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.08)		TGGGTTCTTCCGTAATGCTGC	0.517													11	110					0	0	1	0	0		T	41599488	T	T	41599488	3	4	190	1	0	0	0	0	1	0	0	0	4521	652	23	1	3423	1	DHX8	17	41599488	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	773738	41599488	39595722	1146	95299											
MPP2	4355	broad.mit.edu	37	chr17	41958079	41958079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcaccgtggtgccatagCgatctggatcccacatgatg	9	8	13	11	2	1	1	0	1	1	0	2	3	2	2	3	3	2	1	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:41958079C>T	uc010wip.1	-	10	1322	c.1265G>A	c.(1264-1266)CGC>CAC	p.R422H	MPP2_uc002ien.1_Missense_Mutation_p.R394H|MPP2_uc010wim.1_Missense_Mutation_p.R366H|MPP2_uc002ieo.1_Missense_Mutation_p.R377H|MPP2_uc010win.1_Missense_Mutation_p.R238H|MPP2_uc010wio.1_Missense_Mutation_p.R366H	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	401	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		GGTGCCATAGCGATCTGGATC	0.662											OREG0024443	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	37					0	0	1	0	0		T	41958079	T	T	41958079	3	4	190	1	0	0	0	0	1	0	0	0	9752	768	27	1	544	1	MPP2	17	41958079	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	358591	41958079	39237131	1147	95300											
C17orf53	78995	broad.mit.edu	37	chr17	42225763	42225763	+	Frame_Shift_Del	DEL	A	-	-																															gggagggttcagtattggctAaaaaagcccgggtagttgat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:42225763delA	uc002ifi.1	+	3	777	c.592delA	c.(592-594)AAAfs	p.K198fs	C17orf53_uc010czq.1_Frame_Shift_Del_p.K198fs|C17orf53_uc002ifj.1_Frame_Shift_Del_p.K198fs|C17orf53_uc002ifk.1_RNA	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995	198											0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		AGTATTGGCTAAAAAAGCCCG	0.567													62	82	---	---	---	---						.	-	42225763	-	-	42225763	7	5	190	1	0	1	0	1	0	0	0	0	1865	363	13	0	602	0	C17orf53	17	42225763	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	267684	42225763	38969447	1148	95301											
SLC4A1	6521	broad.mit.edu	37	chr17	42338116	42338116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccagttgcacccagcgcGccgcctccatccatctcagc	6	7	7	21	3	1	0	1	0	1	0	5	0	4	0	7	0	3	2	7	0	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:42338116G>A	uc002igf.3	-	5	385	c.236C>T	c.(235-237)GCG>GTG	p.A79V	SLC4A1_uc002igg.3_Missense_Mutation_p.A79V	NM_000342	NP_000333	P02730	B3AT_HUMAN	solute carrier family 4, anion exchanger, member	79	Cytoplasmic.				bicarbonate transport|cellular ion homeostasis	basolateral plasma membrane|cortical cytoskeleton|integral to plasma membrane|Z disc	ankyrin binding|chloride transmembrane transporter activity|inorganic anion exchanger activity|protein anchor|protein homodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(137;0.014)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.115)		CACCCAGCGCGCCGCCTCCAT	0.617													28	35					0	0	1	0	0		A	42338116	A	A	42338116	3	1	190	1	0	0	0	0	1	0	0	0	14675	1087	38	1	2563	1	SLC4A1	17	42338116	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	112353	42338116	38857094	1149	95302											
ITGA2B	3674	broad.mit.edu	37	chr17	42452962	42452962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagagagcctgctcactacGagaactggatcctgaagcct	11	7	10	13	1	1	3	1	1	0	2	2	6	2	4	4	1	5	1	4	1	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:42452962G>A	uc002igt.1	-	26	2756	c.2724C>T	c.(2722-2724)CTC>CTT	p.L908L	ITGA2B_uc002igu.1_Silent_p.L389L	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	908	Extracellular (Potential).				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	TGCTCACTACGAGAACTGGAT	0.682													12	12					0	0	1	0	0		A	42452962	A	A	42452962	2	1	190	1	0	0	0	0	0	0	0	1	7892	1045	37	1		1	ITGA2B	17	42452962	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	114846	42452962	38742248	1150	95303											
ITGA2B	3674	broad.mit.edu	37	chr17	42457392	42457392	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaggaaggccatggtggtgTggcagatggggctgtgcttt	7	10	19	5	0	0	1	0	0	0	1	0	3	0	2	1	7	1	3	1	7	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:42457392T>C	uc002igt.1	-	17	1762	c.1730A>G	c.(1729-1731)CAC>CGC	p.H577R	ITGA2B_uc002igu.1_Missense_Mutation_p.H58R	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	577	Extracellular (Potential).				axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	CATGGTGGTGTGGCAGATGGG	0.642													24	34					0	0	1	0	0		C	42457392	C	C	42457392	3	2	190	1	0	0	0	0	1	0	0	0	7892	1696	59	3	1445	3	ITGA2B	17	42457392	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	4430	42457392	38737818	1151	95304											
GPATCH8	23131	broad.mit.edu	37	chr17	42483339	42483339	+	Frame_Shift_Del	DEL	T	-	-																															tcatggagccgccgaagggcTttttcctgttttttctcatc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:42483339delT	uc002igw.1	-	7	637	c.573delA	c.(571-573)AAAfs	p.K191fs	GPATCH8_uc002igv.1_Frame_Shift_Del_p.K113fs|GPATCH8_uc010wiz.1_Frame_Shift_Del_p.K113fs	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	191						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GCCGAAGGGCTTTTTCCTGTT	0.393													46	82	---	---	---	---						.	-	42483339	-	-	42483339	7	5	190	1	0	1	0	1	0	0	0	0	6609	1606	56	0	3943	0	GPATCH8	17	42483339	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	25947	42483339	38711871	1152	95305											
KIF18B	146909	broad.mit.edu	37	chr17	43005605	43005605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgactgtggctgggcaaaCgcgaggggaatggcaggggg	9	5	21	6	2	0	1	0	1	0	0	0	4	0	2	0	7	1	3	0	7	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:43005605C>T	uc010wji.1	-	13	2175	c.2074G>A	c.(2074-2076)GTT>ATT	p.V692I	KIF18B_uc002iht.2_Missense_Mutation_p.V701I|KIF18B_uc010wjh.1_Missense_Mutation_p.V689I	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				GCTGGGCAAACGCGAGGGGAA	0.652													8	20					0	0	1	0	0		T	43005605	T	T	43005605	3	4	190	1	0	0	0	0	1	0	0	0	8297	536	19	1	508	1	KIF18B	17	43005605	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	522266	43005605	38189605	1153	95306											
C1QL1	10882	broad.mit.edu	37	chr17	43044936	43044936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtaaacttgccgctggccgCgtcgtagttgttgcctaggt	5	12	13	11	5	0	0	0	0	0	0	1	0	0	0	3	2	3	5	3	2	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:43044936C>T	uc002ihv.2	-	1	709	c.481G>A	c.(481-483)GCG>ACG	p.A161T		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	161	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				CCGCTGGCCGCGTCGTAGTTG	0.602													5	80					0	0	1	0	0		T	43044936	T	T	43044936	3	4	190	1	0	0	0	0	1	0	0	0	1961	768	27	1	303	1	C1QL1	17	43044936	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	39331	43044936	38150274	1154	95307											
KIAA1267	284058	broad.mit.edu	37	chr17	44109601	44109601	+	Frame_Shift_Del	DEL	G	-	-																															gacatcaggggaggcaggctGgggggtggaggggttggcac																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:44109601delG	uc002ikb.2	-	13	2987	c.2902delC	c.(2902-2904)CAGfs	p.Q968fs	KIAA1267_uc002ikc.2_Frame_Shift_Del_p.Q968fs|KIAA1267_uc002ikd.2_Frame_Shift_Del_p.Q968fs|KIAA1267_uc010dav.2_Frame_Shift_Del_p.Q967fs|KIAA1267_uc010wkb.1_Frame_Shift_Del_p.Q299fs|KIAA1267_uc010wkc.1_Frame_Shift_Del_p.Q236fs	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	968						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				GAGGCAGGCTGGGGGGTGGAG	0.607													28	35	---	---	---	---						.	-	44109601	-	-	44109601	7	5	190	1	0	1	0	1	0	0	0	0	8235	1357	47	0	423	0	KIAA1267	17	44109601	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	1064665	44109601	37085609	1155	95308											
SP2	6668	broad.mit.edu	37	chr17	46002810	46002810	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgtgcccatgtgcgcctGcacactggcgagcggccctt	4	8	13	16	4	0	0	0	0	0	0	0	1	0	0	3	2	5	1	3	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:46002810G>A	uc002imk.2	+	6	1781	c.1644G>A	c.(1642-1644)CTG>CTA	p.L548L	SP2_uc002iml.2_Silent_p.L541L	NM_003110	NP_003101	Q02086	SP2_HUMAN	Sp2 transcription factor	548	C2H2-type 1.				immune response|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|histone deacetylase binding|zinc ion binding				0						ATGTGCGCCTGCACACTGGCG	0.602													62	89					0	0	1	0	0		A	46002810	A	A	46002810	2	1	190	1	0	0	0	0	0	0	0	1	14989	1306	46	2		2	SP2	17	46002810	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1893209	46002810	35192400	1156	95309											
B4GALNT2	124872	broad.mit.edu	37	chr17	47237944	47237944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagtccaggtcctcagtggCcaagtttccagtgaccatcc	8	9	11	13	0	1	1	1	1	0	0	5	2	5	2	6	3	0	1	6	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:47237944C>T	uc002ion.2	+	7	946	c.887C>T	c.(886-888)GCC>GTC	p.A296V	B4GALNT2_uc010wlt.1_Missense_Mutation_p.A210V|B4GALNT2_uc010wlu.1_Missense_Mutation_p.A236V	NM_153446	NP_703147	Q8NHY0	B4GN2_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 2	296	Lumenal (Potential).				lipid glycosylation|negative regulation of cell-cell adhesion|UDP-N-acetylgalactosamine metabolic process	integral to Golgi membrane	acetylgalactosaminyltransferase activity			large_intestine(1)|ovary(1)	2			all cancers(6;0.000316)			TCCTCAGTGGCCAAGTTTCCA	0.557													27	169					0	0	1	0	0		T	47237944	T	T	47237944	3	4	190	1	0	0	0	0	1	0	0	0	1268	739	26	2	931	2	B4GALNT2	17	47237944	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1235134	47237944	33957266	1157	95310											
GNGT2	2793	broad.mit.edu	37	chr17	47284191	47284191	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcctttgagaaaaggatcGtttcctgcttgggcctccac	8	12	10	11	1	0	1	0	1	0	1	3	3	2	2	4	2	2	2	4	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:47284191G>A	uc002ioo.1	-	4	445	c.138C>T	c.(136-138)AAC>AAT	p.N46N		NM_031498	NP_113686	O14610	GBGT2_HUMAN	guanine nucleotide binding protein-gamma	46					G-protein coupled receptor protein signaling pathway|phototransduction|synaptic transmission	extracellular region|heterotrimeric G-protein complex	GTPase activity|signal transducer activity				0			Epithelial(5;6.37e-06)|all cancers(6;6.36e-05)			GAAAAGGATCGTTTCCTGCTT	0.493													41	55					0	0	1	0	0		A	47284191	A	A	47284191	2	1	190	1	0	0	0	0	0	0	0	1	6549	1136	40	1		1	GNGT2	17	47284191	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	46247	47284191	33911019	1158	95311											
COL1A1	1277	broad.mit.edu	37	chr17	48263139	48263139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggattctgggcactcacCgtgcagccatcgacagtgac	8	8	13	12	2	2	1	1	1	1	0	3	3	2	2	2	3	2	2	2	3	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:48263139C>T	uc002iqm.2	-	50	4374	c.4248G>A	c.(4246-4248)ACG>ACA	p.T1416T		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1416	Fibrillar collagen NC1.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GGGCACTCACCGTGCAGCCAT	0.632			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						20	23					0	0	1	0	0		T	48263139	T	T	48263139	2	4	190	1	0	0	0	0	0	0	0	1	3680	666	23	1		1	COL1A1	17	48263139	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	978948	48263139	32932071	1159	95312											
CACNA1G	8913	broad.mit.edu	37	chr17	48684339	48684339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggctggatgctgtgggcGtggaccagcaggtagggctg	6	8	20	7	1	0	0	0	0	0	0	0	2	0	2	1	6	2	5	1	6	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:48684339G>A	uc002irk.1	+	24	4873	c.4501G>A	c.(4501-4503)GTG>ATG	p.V1501M	CACNA1G_uc002irj.1_Missense_Mutation_p.V1478M|CACNA1G_uc002irl.1_Missense_Mutation_p.V1478M|CACNA1G_uc002irm.1_Missense_Mutation_p.V1478M|CACNA1G_uc002irn.1_Missense_Mutation_p.V1478M|CACNA1G_uc002iro.1_Missense_Mutation_p.V1478M|CACNA1G_uc002irp.1_Missense_Mutation_p.V1501M|CACNA1G_uc002irq.1_Missense_Mutation_p.V1478M|CACNA1G_uc002irr.1_Missense_Mutation_p.V1501M|CACNA1G_uc002irs.1_Missense_Mutation_p.V1501M|CACNA1G_uc002irt.1_Missense_Mutation_p.V1501M|CACNA1G_uc002irv.1_Missense_Mutation_p.V1501M|CACNA1G_uc002irw.1_Missense_Mutation_p.V1478M|CACNA1G_uc002iru.1_Missense_Mutation_p.V1478M|CACNA1G_uc002irx.1_Missense_Mutation_p.V1414M|CACNA1G_uc002iry.1_Missense_Mutation_p.V1414M|CACNA1G_uc002irz.1_Missense_Mutation_p.V1414M|CACNA1G_uc002isa.1_Missense_Mutation_p.V1414M|CACNA1G_uc002isb.1_Missense_Mutation_p.V1414M|CACNA1G_uc002isc.1_Missense_Mutation_p.V1414M|CACNA1G_uc002isd.1_Missense_Mutation_p.V1414M|CACNA1G_uc002ise.1_Missense_Mutation_p.V1414M|CACNA1G_uc002isf.1_Missense_Mutation_p.V1414M|CACNA1G_uc002isg.1_Missense_Mutation_p.V1414M|CACNA1G_uc002ish.1_Missense_Mutation_p.V1414M|CACNA1G_uc002isi.1_Missense_Mutation_p.V1391M|CACNA1G_uc002isj.2_Missense_Mutation_p.V225M	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1501	Extracellular (Potential).|III.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	TGCTGTGGGCGTGGACCAGCA	0.592													6	20					0	0	1	0	0		A	48684339	A	A	48684339	3	1	190	1	0	0	0	0	1	0	0	0	2547	1145	40	1	4841	1	CACNA1G	17	48684339	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	421200	48684339	32510871	1160	95313											
SPAG9	9043	broad.mit.edu	37	chr17	49057239	49057239	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccacccacgcaagctgtcGcacttggctctccttcctgg	5	9	8	19	2	1	0	0	0	1	0	4	0	2	0	5	2	1	4	5	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:49057239G>A	uc002itc.2	-	26	3486	c.3277C>T	c.(3277-3279)CGA>TGA	p.R1093*	SPAG9_uc002itb.2_Nonsense_Mutation_p.R1079*|SPAG9_uc002itd.2_Nonsense_Mutation_p.R1083*|SPAG9_uc002ita.2_Nonsense_Mutation_p.R936*	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	1093					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			GCAAGCTGTCGCACTTGGCTC	0.448													15	59					0	0	1	0	0		A	49057239	A	A	49057239	4	1	190	1	0	0	0	0	0	1	0	0	15010	1095	38	1	708	1	SPAG9	17	49057239	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	372900	49057239	32137971	1161	95314											
SPAG9	9043	broad.mit.edu	37	chr17	49067893	49067893	+	Silent	SNP	A	G	G	1	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	acaccttctgcagaacaaccAaccactgtgatgcctcctaa	13	8	5	15	0	1	2	0	1	1	1	2	2	2	2	5	0	5	1	5	0	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:49067893A>G	uc002itc.2	-	20	2744	c.2535T>C	c.(2533-2535)GTT>GTC	p.V845V	SPAG9_uc002itb.2_Silent_p.V831V|SPAG9_uc002itd.2_Silent_p.V835V|SPAG9_uc002itf.2_Silent_p.V666V|SPAG9_uc002ita.2_Silent_p.V688V|SPAG9_uc002ite.2_Silent_p.V675V	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	845					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			CAGAACAACCAACCACTGTGA	0.468													32	41					0	0	1	0	0		G	49067893	G	G	49067893	2	3	190	1	0	0	0	0	0	0	0	1	15010	117	5	3		3	SPAG9	17	49067893	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	10654	49067893	32127317	1162	95315											
EPX	8288	broad.mit.edu	37	chr17	56272511	56272511	+	Frame_Shift_Del	DEL	C	-	-																															agaggacctgcgcccagctgCccccctgctttcccatcaag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:56272511delC	uc002ivq.2	+	6	867	c.781delC	c.(781-783)CCCfs	p.P261fs		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	261					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						CGCCCAGCTGCCCCCCTGCTT	0.627													38	59	---	---	---	---						.	-	56272511	-	-	56272511	7	5	190	1	0	1	0	1	0	0	0	0	5208	739	26	0	803	0	EPX	17	56272511	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	7204618	56272511	24922699	1163	95316											
BZRAP1	9256	broad.mit.edu	37	chr17	56389688	56389688	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaggccccagggcctgtcGcagctccccattcacacaga	8	5	9	19	1	1	1	1	0	0	1	3	1	2	1	6	2	1	2	6	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:56389688G>A	uc002ivx.3	-	17	3365	c.2494C>T	c.(2494-2496)CGA>TGA	p.R832*	BZRAP1_uc010dcs.2_Nonsense_Mutation_p.R772*|BZRAP1_uc010wnt.1_Nonsense_Mutation_p.R832*	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	832	Fibronectin type-III 1.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AGGGCCTGTCGCAGCTCCCCA	0.667													16	19					0	0	1	0	0		A	56389688	A	A	56389688	4	1	190	1	0	0	0	0	0	1	0	0	1580	1095	38	1	3139	1	BZRAP1	17	56389688	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	117177	56389688	24805522	1164	95317											
C17orf47	284083	broad.mit.edu	37	chr17	56620549	56620549	+	Silent	SNP	G	A	A	0	0	1	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	cctggggagatggtgaccctGcggccaacctcgctgtttcc	5	9	13	14	2	0	2	0	1	0	1	2	3	1	2	5	4	2	2	5	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:56620549G>A	uc002iwq.1	-	1	1135	c.999C>T	c.(997-999)CGC>CGT	p.R333R	SEPT4_uc010wnx.1_5'Flank|SEPT4_uc010wny.1_5'Flank	NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	333										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGGTGACCCTGCGGCCAACCT	0.542													24	37					0	0	1	0	0		A	56620549	A	A	56620549	2	1	190	1	0	0	0	0	0	0	0	1	1861	1306	46	2		2	C17orf47	17	56620549	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	230861	56620549	24574661	1165	95318											
DHX40	79665	broad.mit.edu	37	chr17	57682875	57682875	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggttaccaccaaagtctaCgcaagaattgtatgcccaat	13	11	7	10	1	1	1	0	0	1	1	1	1	1	1	3	1	3	3	3	1	7	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:57682875C>T	uc002ixn.1	+	17	2187	c.2040C>T	c.(2038-2040)TAC>TAT	p.Y680Y	DHX40_uc010woe.1_Silent_p.Y603Y|DHX40_uc010wof.1_Silent_p.Y195Y	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	680							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					CCAAAGTCTACGCAAGAATTG	0.388													28	39					0	0	1	0	0		T	57682875	T	T	57682875	2	4	190	1	0	0	0	0	0	0	0	1	4518	547	19	1		1	DHX40	17	57682875	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1062326	57682875	23512335	1166	95319											
USP32	84669	broad.mit.edu	37	chr17	58262986	58262986	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttgcgctcgccgactctgCtccacactctcatgctcatc	5	11	7	18	3	3	0	2	0	2	0	7	1	4	0	2	0	3	4	2	0	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:58262986C>A	uc002iyo.1	-	30	3955	c.3669G>T	c.(3667-3669)GAG>GAT	p.E1223D	USP32_uc002iyn.1_Missense_Mutation_p.E893D	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1223					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			GCCGACTCTGCTCCACACTCT	0.527													30	45					1.68575e-08	1.75756e-08	1	1	0		A	58262986	A	A	58262986	3	1	190	1	0	0	0	0	1	0	0	0	17089	796	28	5	1165	5	USP32	17	58262986	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	580111	58262986	22932224	1167	95320											
METTL2A	339175	broad.mit.edu	37	chr17	60503764	60503764	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttaccgaattccctgagCtggcacctagccaaaatcaa	12	11	6	12	1	1	1	1	1	0	0	2	2	2	1	4	1	3	2	4	1	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:60503764C>T	uc002izv.2	+	3	325	c.307C>T	c.(307-309)CTG>TTG	p.L103L	METTL2A_uc002izw.2_5'UTR	NM_181725	NP_859076	Q96IZ6	MTL2A_HUMAN	methyltransferase like 2A	103							methyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(2;1.08e-10)			ATTCCCTGAGCTGGCACCTAG	0.393													30	33					0	0	1	0	0		T	60503764	T	T	60503764	2	4	190	1	0	0	0	0	0	0	0	1	9517	796	28	2		2	METTL2A	17	60503764	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2240778	60503764	20691446	1168	95321											
MRC2	9902	broad.mit.edu	37	chr17	60768444	60768444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgggctatggcgccccggcGcttgcaccaacatcaccatg	7	6	12	16	4	1	0	1	0	0	0	1	0	1	0	4	3	2	3	4	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:60768444G>A	uc002jad.2	+	28	4549	c.4147G>A	c.(4147-4149)GCT>ACT	p.A1383T	MRC2_uc002jae.2_Missense_Mutation_p.A454T|MRC2_uc002jaf.2_Missense_Mutation_p.A249T	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	1383	Extracellular (Potential).|C-type lectin 8.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GCGCCCCGGCGCTTGCACCAA	0.662													6	13					0	0	1	0	0		A	60768444	A	A	60768444	3	1	190	1	0	0	0	0	1	0	0	0	9776	1087	38	1	4257	1	MRC2	17	60768444	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	264680	60768444	20426766	1169	95322											
MARCH10	162333	broad.mit.edu	37	chr17	60879085	60879085	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttctgcctgtcccttgcGtcatgcaacatgattcctaa	9	13	6	13	1	2	1	1	1	1	0	4	1	4	1	3	0	5	1	3	0	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:60879085G>A	uc010ddr.2	-	2	250	c.12C>T	c.(10-12)GAC>GAT	p.D4D	MARCH10_uc002jag.3_Silent_p.D4D|MARCH10_uc010dds.2_Silent_p.D4D|MARCH10_uc002jah.2_Silent_p.D4D	NM_001100875	NP_001094345	Q8NA82	MARHA_HUMAN	ring finger protein 190	4							ligase activity|zinc ion binding				0						TGTCCCTTGCGTCATGCAACA	0.438													51	74					0	0	1	0	0		A	60879085	A	A	60879085	2	1	190	1	0	0	0	0	0	0	0	1	9317	1136	40	1		1	MARCH10	17	60879085	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	110641	60879085	20316125	1170	95323											
ACE	1636	broad.mit.edu	37	chr17	61574216	61574216	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagccatgcagctgatcacGggccagcccaacatgagcgc	11	4	12	14	2	1	2	1	2	0	0	1	3	1	2	3	1	6	2	3	1	2	0	rs141429845		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:61574216G>A	uc002jau.1	+	24	3583	c.3561G>A	c.(3559-3561)ACG>ACA	p.T1187T	ACE_uc002jav.1_Silent_p.T613T|ACE_uc010ddv.1_Silent_p.T414T|ACE_uc010wpj.1_Silent_p.T572T|ACE_uc002jaw.1_RNA|ACE_uc010wpk.1_Silent_p.T392T	NM_000789	NP_000780	P12821	ACE_HUMAN	angiotensin I converting enzyme 1 isoform 1	1187	Extracellular (Potential).|Peptidase M2 2.				arachidonic acid secretion|hormone catabolic process|kidney development|peptide catabolic process|regulation of smooth muscle cell migration	endosome|external side of plasma membrane|extracellular space|integral to membrane|membrane fraction|plasma membrane	actin binding|bradykinin receptor binding|carboxypeptidase activity|chloride ion binding|drug binding|metallopeptidase activity|peptidyl-dipeptidase activity|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4					Benazepril(DB00542)|Captopril(DB01197)|Deserpidine(DB01089)|Enalapril(DB00584)|Fosinopril(DB00492)|Lisinopril(DB00722)|Moexipril(DB00691)|Perindopril(DB00790)|Quinapril(DB00881)|Ramipril(DB00178)|Rescinnamine(DB01180)|Spirapril(DB01348)|Trandolapril(DB00519)	AGCTGATCACGGGCCAGCCCA	0.632													19	23					0	0	1	0	0		A	61574216	A	A	61574216	2	1	190	1	0	0	0	0	0	0	0	1	136	1103	39	1		1	ACE	17	61574216	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	695131	61574216	19620994	1171	95324											
SCN4A	6329	broad.mit.edu	37	chr17	62041916	62041916	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatcctcggccagggtggccTcattctgctcggcatatgcc	5	11	11	14	2	2	0	1	0	1	0	5	0	3	0	4	4	2	2	4	4	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:62041916T>C	uc002jds.1	-	9	1441	c.1364A>G	c.(1363-1365)GAG>GGG	p.E455G		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	455					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CAGGGTGGCCTCATTCTGCTC	0.522													13	28					0	0	1	0	0		C	62041916	C	C	62041916	3	2	190	1	0	0	0	0	1	0	0	0	13945	1551	54	3	4210	3	SCN4A	17	62041916	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	467700	62041916	19153294	1172	95325											
ERN1	2081	broad.mit.edu	37	chr17	62149396	62149396	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagactatctgcaaaggcCgatgacaaagtctgctgctt	12	9	10	10	1	2	2	0	1	2	1	2	4	2	2	1	1	3	3	1	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:62149396C>T	uc002jdz.2	-	6	536	c.423G>A	c.(421-423)TCG>TCA	p.S141S		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	141	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						CTGCAAAGGCCGATGACAAAG	0.453													7	4					0	0	1	0	0		T	62149396	T	T	62149396	2	4	190	1	0	0	0	0	0	0	0	1	5245	639	23	1		1	ERN1	17	62149396	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	107480	62149396	19045814	1173	95326											
CACNG5	27091	broad.mit.edu	37	chr17	64881248	64881248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccagacgcctgggtcagggGccgcagcccctccgacatct	6	5	12	18	3	2	1	1	0	1	1	3	2	3	1	6	3	1	1	6	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:64881248G>A	uc010wqi.1	+	6	956	c.719G>A	c.(718-720)GGC>GAC	p.G240D	CACNG5_uc010wqj.1_Missense_Mutation_p.G240D	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	240				SAGVMSVYLFMKRYTAEDMYRPHPGFYRPRLSNCSDYSGQF LHPDAWVRGRSPSDISSEASLQMNSNYPALLKCPDYDQMSS SPC -> VKPVTLSMDRLGLGTAPLSRGEWGWGRRDIPQPF WTPDHPLYFPSSSQNVSLSYLSGSPPARMSPGPCSCPHVHF PPHSSCVLCRPQPREMRQAPAASPSSAVFSL (in Ref. 1; AAF03089).	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			TGGGTCAGGGGCCGCAGCCCC	0.617													5	34					0	0	1	0	0		A	64881248	A	A	64881248	3	1	190	1	0	0	0	0	1	0	0	0	2563	1203	42	2	1054	2	CACNG5	17	64881248	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2731852	64881248	16313962	1174	95327											
SLC39A11	201266	broad.mit.edu	37	chr17	71084850	71084850	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgctgtcatcccccaGgtgaagaaggtccccagcaa	10	6	10	15	0	1	2	1	1	0	1	3	2	3	2	5	2	3	3	5	2	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:71084850G>A	uc002jjb.2	-	2	169	c.54C>T	c.(52-54)ACC>ACT	p.T18T	SLC39A11_uc002jja.2_Silent_p.T18T|SLC39A11_uc002jjc.1_Silent_p.T18T	NM_001159770	NP_001153242	Q8N1S5	S39AB_HUMAN	solute carrier family 39, member 11 isoform 1	18	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1						TCATCCCCCAGGTGAAGAAGG	0.592													4	9					0	0	1	0	0		A	71084850	A	A	71084850	2	1	190	1	0	0	0	0	0	0	0	1	14639	987	35	4		4	SLC39A11	17	71084850	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6203602	71084850	10110360	1175	95328											
SDK2	54549	broad.mit.edu	37	chr17	71389713	71389713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaccatcatccagcgtcCgctccaggatgggagggtgg	8	7	13	13	2	2	0	2	0	0	0	5	2	5	2	4	4	1	1	4	4	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:71389713C>T	uc010dfm.2	-	27	3884	c.3884G>A	c.(3883-3885)CGG>CAG	p.R1295Q	SDK2_uc002jjt.3_Missense_Mutation_p.R454Q|SDK2_uc010dfn.2_Missense_Mutation_p.R974Q	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1295	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						ATCCAGCGTCCGCTCCAGGAT	0.642													17	25					0	0	1	0	0		T	71389713	T	T	71389713	3	4	190	1	0	0	0	0	1	0	0	0	13994	652	23	1	2710	1	SDK2	17	71389713	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	304863	71389713	9805497	1176	95329											
SDK2	54549	broad.mit.edu	37	chr17	71427647	71427647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgcacactcaccccaaaCgactaggtctgctgaggcct	9	8	8	16	1	3	1	1	1	2	0	3	2	3	1	3	2	3	2	3	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:71427647C>T	uc010dfm.2	-	11	1474	c.1474G>A	c.(1474-1476)GTT>ATT	p.V492I	SDK2_uc010dfn.2_Missense_Mutation_p.V171I	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	492	Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						TCACCCCAAACGACTAGGTCT	0.597													61	110					0	0	1	0	0		T	71427647	T	T	71427647	3	4	190	1	0	0	0	0	1	0	0	0	13994	536	19	1	5184	1	SDK2	17	71427647	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	37934	71427647	9767563	1177	95330											
KIF19	124602	broad.mit.edu	37	chr17	72344014	72344014	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacaccctgacctacgccggCcgggccaagaacattaagac	13	4	9	15	3	0	3	0	1	0	2	0	3	0	3	5	2	3	0	5	2	5	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:72344014C>T	uc002jkm.3	+	9	1161	c.1023C>T	c.(1021-1023)GGC>GGT	p.G341G	KIF19_uc002jkj.2_Silent_p.G341G|KIF19_uc002jkk.2_Silent_p.G299G|KIF19_uc002jkl.2_Silent_p.G299G	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	341					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						CCTACGCCGGCCGGGCCAAGA	0.622													4	4					0	0	1	0	0		T	72344014	T	T	72344014	2	4	190	1	0	0	0	0	0	0	0	1	8298	726	26	2		2	KIF19	17	72344014	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	916367	72344014	8851196	1178	95331											
BTBD17	388419	broad.mit.edu	37	chr17	72356374	72356374	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctccccgccaacatcGgctctctgtgctgcagcagg	5	8	11	17	2	1	0	0	0	1	0	4	0	2	0	4	2	5	5	4	2	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:72356374G>A	uc002jkn.2	-	2	96	c.96C>T	c.(94-96)GCC>GCT	p.A32A		NM_001080466	NP_001073935	A6NE02	BTBDH_HUMAN	BTB (POZ) domain containing 17 precursor	32						extracellular region					0						CGCCAACATCGGCTCTCTGTG	0.642													8	5					0	0	1	0	0		A	72356374	A	A	72356374	2	1	190	1	0	0	0	0	0	0	0	1	1545	1103	39	1		1	BTBD17	17	72356374	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	12360	72356374	8838836	1179	95332											
KIAA0195	9772	broad.mit.edu	37	chr17	73487495	73487495	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacagcagccatgaggacCtcaccgatggcctatccacc	10	6	8	17	1	2	1	2	1	0	0	3	3	3	2	6	2	2	1	6	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:73487495C>A	uc002jnz.3	+	13	1620	c.1345C>A	c.(1345-1347)CTC>ATC	p.L449I	KIAA0195_uc010wsa.1_Missense_Mutation_p.L459I|KIAA0195_uc010wsb.1_Missense_Mutation_p.L101I	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	449					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	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)			CCATGAGGACCTCACCGATGG	0.622													31	64					9.04072e-19	9.68973e-19	1	1	0		A	73487495	A	A	73487495	3	1	190	1	0	0	0	0	1	0	0	0	8176	681	24	5	1391	5	KIAA0195	17	73487495	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1131121	73487495	7707715	1180	95333											
KIAA0195	9772	broad.mit.edu	37	chr17	73488711	73488711	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcacctccctcaaacccCtgggcctcaatgtgctgctg	7	9	7	18	0	3	0	3	0	0	0	4	0	4	0	6	1	3	2	6	1	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:73488711C>A	uc002jnz.3	+	15	2028	c.1753C>A	c.(1753-1755)CTG>ATG	p.L585M	KIAA0195_uc010wsa.1_Missense_Mutation_p.L595M|KIAA0195_uc010wsb.1_Missense_Mutation_p.L225M|KIAA0195_uc002job.3_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	585					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	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)			CCTCAAACCCCTGGGCCTCAA	0.607													35	53					3.93418e-24	4.26251e-24	1	1	0		A	73488711	A	A	73488711	3	1	190	1	0	0	0	0	1	0	0	0	8176	680	24	5	1807	5	KIAA0195	17	73488711	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1216	73488711	7706499	1181	95334											
RECQL5	9400	broad.mit.edu	37	chr17	73627305	73627305	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatctctgccttcatccccGctgcctccagaaccttcgtc	5	12	5	19	2	3	1	2	0	1	1	8	1	5	1	6	0	3	1	6	0	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:73627305G>A	uc010dgl.2	-	10	1629	c.1473C>T	c.(1471-1473)AGC>AGT	p.S491S	RECQL5_uc010dgk.2_Silent_p.S464S|RECQL5_uc002jot.3_5'Flank|LOC643008_uc002jow.2_5'Flank	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	491					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	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)			CTTCATCCCCGCTGCCTCCAG	0.617								Other_identified_genes_with_known_or_suspected_DNA_repair_function					30	46					0	0	1	0	0		A	73627305	A	A	73627305	2	1	190	1	0	0	0	0	0	0	0	1	13228	1078	38	1		1	RECQL5	17	73627305	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	138594	73627305	7567905	1182	95335											
ITGB4	3691	broad.mit.edu	37	chr17	73729750	73729750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacaacttccagtgtccccGcacttccgggttcctctgca	6	11	8	16	2	1	1	0	1	1	0	5	1	5	1	5	1	2	3	5	1	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:73729750G>A	uc002jpg.2	+	13	1821	c.1634G>A	c.(1633-1635)CGC>CAC	p.R545H	ITGB4_uc002jph.2_Missense_Mutation_p.R545H|ITGB4_uc010dgo.2_Missense_Mutation_p.R545H|ITGB4_uc002jpi.3_Missense_Mutation_p.R545H|ITGB4_uc010dgp.1_Missense_Mutation_p.R545H|ITGB4_uc002jpj.2_Missense_Mutation_p.R545H|ITGB4_uc010wsh.1_Missense_Mutation_p.R100H	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	545	III.|Extracellular (Potential).|Cysteine-rich tandem repeats.				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	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)			CAGTGTCCCCGCACTTCCGGG	0.617													27	25					0	0	1	0	0		A	73729750	A	A	73729750	3	1	190	1	0	0	0	0	1	0	0	0	7913	1087	38	1	1680	1	ITGB4	17	73729750	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	102445	73729750	7465460	1183	95336											
UNK	85451	broad.mit.edu	37	chr17	73805973	73805973	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cggtccatccgccgtcgggaCggcaccttcaattacagccc	7	7	10	17	5	1	0	1	0	0	0	4	1	3	1	5	3	2	1	5	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:73805973C>T	uc002jpm.2	+	3	465	c.465C>T	c.(463-465)GAC>GAT	p.D155D		NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	79							nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCCGTCGGGACGGCACCTTCA	0.622													10	39					0	0	1	0	0		T	73805973	T	T	73805973	2	4	190	1	0	0	0	0	0	0	0	1	17026	535	19	1		1	UNK	17	73805973	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	76223	73805973	7389237	1184	95337											
MRPL38	64978	broad.mit.edu	37	chr17	73895038	73895038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggtggtaagggggcggccGcacgaactcaaacaccggct	9	4	17	11	4	1	0	1	0	0	0	1	1	1	0	2	7	2	3	2	7	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:73895038G>A	uc010wso.1	-	9	1261	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W	FBF1_uc002jqa.1_RNA|TRIM65_uc002jpx.2_5'Flank|MRPL38_uc002jpz.1_RNA	NM_032478	NP_115867	Q96DV4	RM38_HUMAN	mitochondrial ribosomal protein L38 precursor	346						actin cytoskeleton|mitochondrion|ribosome				pancreas(1)	1			all cancers(21;0.000154)|Epithelial(20;0.000156)|BRCA - Breast invasive adenocarcinoma(9;0.00936)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGGGGCGGCCGCACGAACTCA	0.667													6	14					0	0	1	0	0		A	73895038	A	A	73895038	3	1	190	1	0	0	0	0	1	0	0	0	9819	1086	38	1	110	1	MRPL38	17	73895038	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	89065	73895038	7300172	1185	95338											
EVPL	2125	broad.mit.edu	37	chr17	74003199	74003199	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccgtgtcagcgaagggagcgCgggacggtgggggaggcgga	7	3	23	8	6	1	0	1	0	0	0	1	5	1	4	1	7	2	0	1	7	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:74003199C>T	uc002jqi.2	-	22	6315	c.6087G>A	c.(6085-6087)CCG>CCA	p.P2029P	EVPL_uc010wss.1_Silent_p.P2051P|EVPL_uc010wst.1_Silent_p.P1499P	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	2029	Globular 2.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GAAGGGAGCGCGGGACGGTGG	0.682													21	42					0	0	1	0	0		T	74003199	T	T	74003199	2	4	190	1	0	0	0	0	0	0	0	1	5300	755	27	1		1	EVPL	17	74003199	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	108161	74003199	7192011	1186	95339											
EXOC7	23265	broad.mit.edu	37	chr17	74079821	74079821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgggttcttggtgaagggcaCgctgccaaacctgaggaggc	8	7	16	10	2	1	2	0	2	1	0	1	3	1	3	2	5	2	3	2	5	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:74079821C>T	uc002jqs.2	-	20	2211	c.2116G>A	c.(2116-2118)GTG>ATG	p.V706M	EXOC7_uc002jqp.1_Silent_p.A167A|EXOC7_uc010dgv.1_Missense_Mutation_p.V580M|EXOC7_uc002jqq.2_Missense_Mutation_p.V655M|EXOC7_uc010wsw.1_Missense_Mutation_p.V678M|EXOC7_uc010wsx.1_Missense_Mutation_p.V647M|EXOC7_uc002jqr.2_Missense_Mutation_p.V624M|EXOC7_uc010wsv.1_Missense_Mutation_p.V627M	NM_001145297	NP_001138769	Q9UPT5	EXOC7_HUMAN	exocyst complex component 7 isoform 4	706					exocytosis|protein transport	centriolar satellite|cytosol|exocyst|plasma membrane	protein binding				0			LUSC - Lung squamous cell carcinoma(166;0.187)			GTGAAGGGCACGCTGCCAAAC	0.612													18	31					0	0	1	0	0		T	74079821	T	T	74079821	3	4	190	1	0	0	0	0	1	0	0	0	5318	536	19	1	95	1	EXOC7	17	74079821	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	76622	74079821	7115389	1187	95340											
FOXJ1	2302	broad.mit.edu	37	chr17	74133820	74133820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accctgctcctccggggtggGcagcagggtgctggggggcc	3	6	19	13	1	0	0	0	0	0	0	2	0	2	0	4	7	3	4	4	7	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:74133820G>A	uc002jqw.2	-	2	970	c.880C>T	c.(880-882)CCC>TCC	p.P294S	FOXJ1_uc002jqx.2_Missense_Mutation_p.P294S|uc002jqy.1_5'Flank	NM_001454	NP_001445	Q92949	FOXJ1_HUMAN	forkhead box J1	294					actin cytoskeleton organization|activation of Rho GTPase activity|central tolerance induction|cilium assembly|epithelial cell differentiation|establishment of apical/basal cell polarity|heart looping|humoral immune response|left/right pattern formation|leukocyte migration|lung development|negative regulation of B cell activation|negative regulation of germinal center formation|negative regulation of humoral immune response mediated by circulating immunoglobulin|negative regulation of interleukin-6 biosynthetic process|negative regulation of NF-kappaB transcription factor activity|negative regulation of T cell differentiation in thymus|negative regulation of T cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of central B cell tolerance induction|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			pancreas(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			TCCGGGGTGGGCAGCAGGGTG	0.706													11	10					0	0	1	0	0		A	74133820	A	A	74133820	3	1	190	1	0	0	0	0	1	0	0	0	6025	1203	42	2	389	2	FOXJ1	17	74133820	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	53999	74133820	7061390	1188	95341											
GAA	2548	broad.mit.edu	37	chr17	78081640	78081640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcaccctttctacctggcGctggaggacggcgggtcggc	4	9	14	14	4	2	0	1	0	2	0	4	2	2	2	2	6	1	1	2	6	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:78081640G>A	uc002jxo.2	+	6	1082	c.900G>A	c.(898-900)GCG>GCA	p.A300A	GAA_uc002jxp.2_Silent_p.A300A|GAA_uc002jxq.2_Silent_p.A300A	NM_001079803	NP_001073271	P10253	LYAG_HUMAN	acid alpha-glucosidase preproprotein	300					cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			ovary(1)	1	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	TCTACCTGGCGCTGGAGGACG	0.652													5	14					0	0	1	0	0		A	78081640	A	A	78081640	2	1	190	1	0	0	0	0	0	0	0	1	6161	1074	38	1		1	GAA	17	78081640	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3947820	78081640	3113570	1189	95342											
AZI1	22994	broad.mit.edu	37	chr17	79180662	79180662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcaaggtgaagccccgggGctggtcatcctgtcagacag	8	7	15	11	1	2	2	2	1	0	1	3	2	3	2	3	5	1	2	3	5	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:79180662G>A	uc002jzp.1	-	5	597	c.397C>T	c.(397-399)CCC>TCC	p.P133S	AZI1_uc002jzn.1_Missense_Mutation_p.P133S|AZI1_uc002jzo.1_Missense_Mutation_p.P133S|AZI1_uc010wum.1_Missense_Mutation_p.P133S	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	133					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			AAGCCCCGGGGCTGGTCATCC	0.652													24	31					0	0	1	0	0		A	79180662	A	A	79180662	3	1	190	1	0	0	0	0	1	0	0	0	1241	1203	42	2	2933	2	AZI1	17	79180662	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1099022	79180662	2014548	1190	95343											
WDR45L	56270	broad.mit.edu	37	chr17	80585121	80585121	+	Frame_Shift_Del	DEL	T	-	-																															gccttgacttctgtagaaaaTtctatttcaataacagtctt																								rs143489463		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:80585121delT	uc002kfq.2	-	4	486	c.291delA	c.(289-291)GAAfs	p.E97fs	WDR45L_uc002kfr.2_RNA	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	97					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)			CTGTAGAAAATTCTATTTCAA	0.408													82	79	---	---	---	---						.	-	80585121	-	-	80585121	7	5	190	1	0	1	0	1	0	0	0	0	17324	1490	52	0	771	0	WDR45L	17	80585121	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	1404459	80585121	610089	1191	95344											
ZNF750	79755	broad.mit.edu	37	chr17	80788099	80788099	+	Frame_Shift_Del	DEL	T	-	-																															ttcttagctccttgctgggaTtttccagcatcccttagact																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr17:80788099delT	uc002kga.2	-	3	2402	c.2091delA	c.(2089-2091)AAAfs	p.K697fs	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	697						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CTTGCTGGGATTTTCCAGCAT	0.572													34	63	---	---	---	---						.	-	80788099	-	-	80788099	7	5	190	1	0	1	0	1	0	0	0	0	18157	1490	52	0	84	0	ZNF750	17	80788099	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	202978	80788099	407111	1192	95345											
USP14	9097	broad.mit.edu	37	chr18	211172	211172	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgacaaagtcagcatcgTaacaccagaagatatcttac	16	9	7	9	1	2	4	1	2	1	2	3	4	2	4	1	0	3	2	1	0	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:211172T>C	uc002kkf.1	+	16	1589	c.1373T>C	c.(1372-1374)GTA>GCA	p.V458A	USP14_uc002kkg.1_Missense_Mutation_p.V423A|USP14_uc010wyr.1_Missense_Mutation_p.V447A	NM_005151	NP_005142	P54578	UBP14_HUMAN	ubiquitin specific protease 14 isoform a	458					regulation of chemotaxis|regulation of proteasomal protein catabolic process|ubiquitin-dependent protein catabolic process	cell surface|cytoplasmic membrane-bounded vesicle|plasma membrane|proteasome complex	cysteine-type endopeptidase activity|endopeptidase inhibitor activity|proteasome binding|tRNA guanylyltransferase activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)	2		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				GTCAGCATCGTAACACCAGAA	0.413													24	26					0	0	1	0	0		C	211172	C	C	211172	3	2	190	1	0	0	0	0	1	0	0	0	17071	1638	57	3	1435	3	USP14	18	211172	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08		211172	77866076	1193	95346											
DLGAP1	9229	broad.mit.edu	37	chr18	3879562	3879562	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccgcctgcgcctcgtcaggGctggccttgcccccgttgac	2	8	13	18	4	1	1	1	1	0	0	2	1	1	1	6	2	2	2	6	2	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:3879562G>A	uc002kmf.2	-	1	574	c.507C>T	c.(505-507)AGC>AGT	p.S169S	DLGAP1_uc010wyz.1_Silent_p.S169S|DLGAP1_uc002kmk.2_Silent_p.S169S|uc002kml.1_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	169					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				CCTCGTCAGGGCTGGCCTTGC	0.711													47	84					0	0	1	0	0		A	3879562	A	A	3879562	2	1	190	1	0	0	0	0	0	0	0	1	4565	1194	42	2		2	DLGAP1	18	3879562	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3668390	3879562	74197686	1194	95347											
LAMA1	284217	broad.mit.edu	37	chr18	6955369	6955369	+	Silent	SNP	C	T	T	0	0	0	1	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	tacttctttctgacagccgaCtgattaaaaggcaagatgaa	14	11	8	8	1	2	4	0	3	2	1	2	5	2	4	1	1	2	1	1	1	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:6955369C>T	uc002knm.2	-	57	8284	c.8190G>A	c.(8188-8190)CAG>CAA	p.Q2730Q	LAMA1_uc002knk.2_Silent_p.Q60Q|LAMA1_uc002knl.2_Silent_p.Q183Q|LAMA1_uc010wzj.1_Silent_p.Q2206Q	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2730	Laminin G-like 4.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TGACAGCCGACTGATTAAAAG	0.478													3	22					0	0	1	0	0		T	6955369	T	T	6955369	2	4	190	1	0	0	0	0	0	0	0	1	8621	564	20	4		4	LAMA1	18	6955369	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3075807	6955369	71121879	1195	95348											
LAMA1	284217	broad.mit.edu	37	chr18	7036056	7036056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggaatatcgtaggacaccGtgtatttcaggaatccgcca	11	9	10	11	4	1	0	1	0	0	0	3	3	2	3	4	3	0	2	4	3	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:7036056G>A	uc002knm.2	-	13	1863	c.1769C>T	c.(1768-1770)ACG>ATG	p.T590M	LAMA1_uc010wzj.1_Missense_Mutation_p.T66M	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	590	Laminin IV type A 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTAGGACACCGTGTATTTCAG	0.438													23	24					0	0	1	0	0		A	7036056	A	A	7036056	3	1	190	1	0	0	0	0	1	0	0	0	8621	1145	40	1	7662	1	LAMA1	18	7036056	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	80687	7036056	71041192	1196	95349											
TXNDC2	84203	broad.mit.edu	37	chr18	9887814	9887814	+	Frame_Shift_Del	DEL	G	-	-																															gaaacaatggagttcccggaGggggacaaggtgaaagtgat																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:9887814delG	uc002koi.3	+	2	1787	c.1338delG	c.(1336-1338)GAGfs	p.E446fs	TXNDC2_uc010wzq.1_RNA|TXNDC2_uc002koh.3_Frame_Shift_Del_p.E379fs	NM_001098529	NP_001091999	Q86VQ3	TXND2_HUMAN	thioredoxin domain-containing 2 isoform 2	446	Thioredoxin.				cell differentiation|cell redox homeostasis|glycerol ether metabolic process|multicellular organismal development|spermatogenesis	cytoplasm	electron carrier activity|nutrient reservoir activity|protein disulfide oxidoreductase activity|thioredoxin-disulfide reductase activity			ovary(1)|pancreas(1)	2						AGTTCCCGGAGGGGGACAAGG	0.572													20	37	---	---	---	---						.	-	9887814	-	-	9887814	7	5	190	1	0	1	0	1	0	0	0	0	16823	991	35	0	1344	0	TXNDC2	18	9887814	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	2851758	9887814	68189434	1197	95350											
AFG3L2	10939	broad.mit.edu	37	chr18	12356744	12356744	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaactcagatccactaacGgtgatgaaggggacattggc	15	7	11	8	1	1	3	1	2	0	1	2	4	2	4	1	4	2	0	1	4	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:12356744G>A	uc002kqz.1	-	9	1226	c.1113C>T	c.(1111-1113)ACC>ACT	p.T371T		NM_006796	NP_006787	Q9Y4W6	AFG32_HUMAN	AFG3 ATPase family gene 3-like 2	371					cell death|protein catabolic process|proteolysis	integral to membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0					Adenosine triphosphate(DB00171)	ATCCACTAACGGTGATGAAGG	0.527													30	57					0	0	1	0	0		A	12356744	A	A	12356744	2	1	190	1	0	0	0	0	0	0	0	1	360	1103	39	1		1	AFG3L2	18	12356744	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2468930	12356744	65720504	1198	95351											
C18orf8	29919	broad.mit.edu	37	chr18	21087004	21087004	+	Missense_Mutation	SNP	A	G	G	1	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	agatattggctgttcagaggAcctcaaagactgtggtaaga	13	10	12	6	0	2	4	2	0	0	4	2	5	2	5	1	3	0	3	1	3	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:21087004A>G	uc010xax.1	+	3	371	c.250A>G	c.(250-252)ACC>GCC	p.T84A	C18orf8_uc010xau.1_Intron|C18orf8_uc010xav.1_Missense_Mutation_p.T84A|C18orf8_uc010xaw.1_Intron|C18orf8_uc002kul.2_RNA	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	84										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TGTTCAGAGGACCTCAAAGAC	0.333													84	105					0	0	1	0	0		G	21087004	G	G	21087004	3	3	190	1	0	0	0	0	1	0	0	0	1910	275	10	3	260	3	C18orf8	18	21087004	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	8730260	21087004	56990244	1199	95352											
KCTD1	284252	broad.mit.edu	37	chr18	24039686	24039686	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagttacacatcacgtcgccGatctctggaaatacttcttc	10	12	7	12	3	3	0	1	0	2	0	6	3	3	1	1	1	2	1	1	1	3	4	rs146911358		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:24039686G>A	uc002kvw.2	-	4	1073	c.513C>T	c.(511-513)ATC>ATT	p.I171I	KCTD1_uc010xbj.1_Silent_p.I779I|KCTD1_uc010xbk.1_Silent_p.I171I|KCTD1_uc002kvy.2_Silent_p.I89I	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	171					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			TCACGTCGCCGATCTCTGGAA	0.532													32	45					0	0	1	0	0		A	24039686	A	A	24039686	2	1	190	1	0	0	0	0	0	0	0	1	8112	1048	37	1		1	KCTD1	18	24039686	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2952682	24039686	54037562	1200	95353											
B4GALT6	9331	broad.mit.edu	37	chr18	29264323	29264325	+	In_Frame_Del	DEL	AGA	-	-																															cagacaggacgaagagagggAgaagaagaagatgaaggcga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:29264323_29264325delAGA	uc002kwz.3	-	1	362_364	c.65_67delTCT	c.(64-69)TTCTCC>TCC	p.F22del	B4GALT6_uc010dma.2_In_Frame_Del_p.F22del|B4GALT6_uc010dmb.2_In_Frame_Del_p.F22del	NM_004775	NP_004766	Q9UBX8	B4GT6_HUMAN	beta-1,4-galactosyltransferase 6	22	Helical; Signal-anchor for type II membrane protein; (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding				0			OV - Ovarian serous cystadenocarcinoma(10;0.00791)			GAAGAGAGGGAGAAGAAGAAGAT	0.586													18	34	---	---	---	---						.	-	29264325	-	-	29264323	7	5	190	1	0	1	0	1	0	0	0	0	1276	304	11	0	1117	0	B4GALT6	18	29264323	In_Frame_Del	DEL	AGA	TCGA-F1-6177-01A-11D-1800-08	5224637	29264323	48812925	1201	95354											
FAM59A	64762	broad.mit.edu	37	chr18	29972946	29972946	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgatggtggtccactggcgGcaggaatgaatcagcagata	11	8	15	7	1	1	3	1	2	0	1	2	4	2	4	1	5	1	2	1	5	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:29972946G>A	uc002kxl.2	-	2	230	c.174C>T	c.(172-174)TGC>TGT	p.C58C	FAM59A_uc002kxk.1_Silent_p.C58C	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	58	CABIT.									ovary(1)|skin(1)	2						TCCACTGGCGGCAGGAATGAA	0.458													28	30					0	0	1	0	0		A	29972946	A	A	29972946	2	1	190	1	0	0	0	0	0	0	0	1	5606	1195	42	2		2	FAM59A	18	29972946	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	708623	29972946	48104302	1202	95355											
KLHL14	57565	broad.mit.edu	37	chr18	30349887	30349887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggcagcgagtccagcaggGcgcgcatctcctcgaagttg	7	6	15	13	5	1	0	0	0	1	0	4	2	2	0	2	2	2	4	2	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:30349887G>A	uc002kxm.1	-	2	1056	c.668C>T	c.(667-669)GCC>GTC	p.A223V		NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	223	BACK.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						GTCCAGCAGGGCGCGCATCTC	0.647													20	27					0	0	1	0	0		A	30349887	A	A	30349887	3	1	190	1	0	0	0	0	1	0	0	0	8386	1203	42	2	1250	2	KLHL14	18	30349887	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	376941	30349887	47727361	1203	95356											
RPRD1A	55197	broad.mit.edu	37	chr18	33573116	33573116	+	Nonstop_Mutation	SNP	A	G	G	1	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	tggaaagaggctggtccatcAatcttcactgtagatgtctc	10	12	10	9	0	4	2	2	0	2	2	6	3	5	3	1	3	0	2	1	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:33573116A>G	uc002kzf.1	-	7	943	c.937T>C	c.(937-939)TGA>CGA	p.*313R	RPRD1A_uc002kze.1_Nonstop_Mutation_p.*277R|RPRD1A_uc002kzg.2_Nonstop_Mutation_p.*313R|RPRD1A_uc010dmw.2_Nonstop_Mutation_p.*277R	NM_018170	NP_060640	Q96P16	RPR1A_HUMAN	regulation of nuclear pre-mRNA domain containing	313										ovary(1)|breast(1)	2						CTGGTCCATCAATCTTCACTG	0.498													26	34					0	0	1	0	0		G	33573116	G	G	33573116	4	3	190	1	0	0	0	0	0	0	0	0	13640	143	5	3	5	3	RPRD1A	18	33573116	Nonstop_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	3223229	33573116	44504132	1204	95357											
MOCOS	55034	broad.mit.edu	37	chr18	33780188	33780188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgctggtccataatcgtgCggctcctctactgaggaaga	8	11	11	11	2	2	2	0	1	2	1	5	3	4	3	2	3	3	2	2	3	3	2	rs150272391	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:33780188C>T	uc002kzq.3	+	4	865	c.842C>T	c.(841-843)GCG>GTG	p.A281V		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	281					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	CATAATCGTGCGGCTCCTCTA	0.562													8	38					0	0	1	0	0		T	33780188	T	T	33780188	3	4	190	1	0	0	0	0	1	0	0	0	9707	768	27	1	856	1	MOCOS	18	33780188	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	207072	33780188	44297060	1205	95358											
SETBP1	26040	broad.mit.edu	37	chr18	42281746	42281746	+	Frame_Shift_Del	DEL	A	-	-																															cagaaggtgtcccgtgctggAaaaaatagcaaagccacgaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:42281746delA	uc010dni.2	+	2	731	c.435delA	c.(433-435)GGAfs	p.G145fs	SETBP1_uc002lay.2_Frame_Shift_Del_p.G145fs	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	145						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CCCGTGCTGGAAAAAATAGCA	0.448									Schinzel-Giedion_syndrome				32	42	---	---	---	---						.	-	42281746	-	-	42281746	7	5	190	1	0	1	0	1	0	0	0	0	14154	233	9	0	437	0	SETBP1	18	42281746	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	8501558	42281746	35795502	1206	95359											
TCEB3B	51224	broad.mit.edu	37	chr18	44560119	44560119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatcttagcattcactctgCgtccagggaaagcagcttcc	9	10	9	13	1	3	0	1	0	2	0	5	1	5	1	2	1	4	4	2	1	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:44560119C>T	uc002lcr.1	-	1	1870	c.1517G>A	c.(1516-1518)CGC>CAC	p.R506H	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	506	Activation domain (By similarity).				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						ATTCACTCTGCGTCCAGGGAA	0.587													41	68					0	0	1	0	0		T	44560119	T	T	44560119	3	4	190	1	0	0	0	0	1	0	0	0	15707	768	27	1	748	1	TCEB3B	18	44560119	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2278373	44560119	33517129	1207	95360											
ZBTB7C	201501	broad.mit.edu	37	chr18	45567076	45567076	+	Frame_Shift_Del	DEL	C	-	-																															gtcctccttgtcatcctcctCccccccgtcccccccaggct																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:45567076delC	uc002lda.2	-	1	419	c.403delG	c.(403-405)GAGfs	p.E135fs	ZBTB7C_uc002ldb.2_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dnu.2_Frame_Shift_Del_p.E144fs|ZBTB7C_uc010dnv.2_Frame_Shift_Del_p.E157fs|ZBTB7C_uc010dnw.2_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dnx.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dny.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dnz.1_Frame_Shift_Del_p.E157fs|ZBTB7C_uc010dob.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010doc.1_Frame_Shift_Del_p.E144fs|ZBTB7C_uc010dod.1_Frame_Shift_Del_p.E157fs|ZBTB7C_uc010doe.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dof.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dog.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010doh.1_Frame_Shift_Del_p.E144fs|ZBTB7C_uc010doi.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010doj.1_Frame_Shift_Del_p.E144fs|ZBTB7C_uc010dok.1_Frame_Shift_Del_p.E184fs|ZBTB7C_uc010dol.1_Frame_Shift_Del_p.E144fs|ZBTB7C_uc010doa.1_Frame_Shift_Del_p.E157fs|ZBTB7C_uc010don.1_Frame_Shift_Del_p.E143fs|ZBTB7C_uc010doo.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dop.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010doq.1_Frame_Shift_Del_p.E144fs|ZBTB7C_uc010dor.1_Frame_Shift_Del_p.E157fs|ZBTB7C_uc010dos.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dot.1_Frame_Shift_Del_p.E135fs|ZBTB7C_uc010dou.1_Frame_Shift_Del_p.E144fs|ZBTB7C_uc010dom.1_Frame_Shift_Del_p.E144fs	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C	135	Glu-rich.|Asp-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						tcatcctcctcccccccgtcc	0.279													20	32	---	---	---	---						.	-	45567076	-	-	45567076	7	5	190	1	0	1	0	1	0	0	0	0	17580	864	30	0	1464	0	ZBTB7C	18	45567076	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1006957	45567076	32510172	1208	95361											
KIAA0427	9811	broad.mit.edu	37	chr18	46284514	46284514	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggcaggcgcacaccgcaAtgccaaagagaccatgacca	14	2	12	13	2	0	2	0	1	0	1	0	4	0	3	4	3	1	3	4	3	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:46284514A>G	uc002ldc.2	+	8	1094	c.809A>G	c.(808-810)AAT>AGT	p.N270S	KIAA0427_uc002ldd.2_Missense_Mutation_p.N270S|KIAA0427_uc002lde.3_5'Flank	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	270	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						GCACACCGCAATGCCAAAGAG	0.647													23	39					0	0	1	0	0		G	46284514	G	G	46284514	3	3	190	1	0	0	0	0	1	0	0	0	8192	101	4	3	835	3	KIAA0427	18	46284514	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	717438	46284514	31792734	1209	95362											
DCC	1630	broad.mit.edu	37	chr18	50278528	50278528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgactgctccgcggagtccGaccgaggagttccagtgatc	7	8	13	13	5	0	1	0	1	0	0	5	6	3	3	4	2	1	2	4	2	0	1	rs144331156	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:50278528G>A	uc002lfe.1	+	2	783	c.196G>A	c.(196-198)GAC>AAC	p.D66N	DCC_uc010xdr.1_5'UTR	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	66	Extracellular (Potential).|Ig-like C2-type 1.				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		CGCGGAGTCCGACCGAGGAGT	0.507													28	33					0	0	1	0	0		A	50278528	A	A	50278528	3	1	190	1	0	0	0	0	1	0	0	0	4285	1058	37	1	202	1	DCC	18	50278528	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3994014	50278528	27798720	1210	95363											
C18orf54	162681	broad.mit.edu	37	chr18	51904599	51904599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgatgatacgaatggagaaCggtcaccgaaaatgtgaaga	16	8	12	5	3	1	5	1	3	0	2	1	8	1	5	1	2	2	0	1	2	6	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:51904599C>T	uc002lfn.3	+	8	1218	c.1102C>T	c.(1102-1104)CGG>TGG	p.R368W	C18orf54_uc002lfo.3_Missense_Mutation_p.R529W	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	368						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		GAATGGAGAACGGTCACCGAA	0.353													19	40					0	0	1	0	0		T	51904599	T	T	51904599	3	4	190	1	0	0	0	0	1	0	0	0	1907	527	19	1	1128	1	C18orf54	18	51904599	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1626071	51904599	26172649	1211	95364											
TCF4	6925	broad.mit.edu	37	chr18	52899754	52899754	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttacctagatcttgacctAgtaattgatttgatatcctt	10	18	6	7	0	1	4	0	3	1	1	2	4	2	4	3	0	1	2	3	0	5	9			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:52899754A>C	uc002lfz.2	-	17	2247	c.1635T>G	c.(1633-1635)ACT>ACG	p.T545T	TCF4_uc002lfw.3_Silent_p.T385T|TCF4_uc010xdu.1_Silent_p.T415T|TCF4_uc010xdv.1_Silent_p.T415T|TCF4_uc002lfx.2_Silent_p.T474T|TCF4_uc010xdw.1_Silent_p.T415T|TCF4_uc002lfy.2_Silent_p.T503T|TCF4_uc010xdx.1_Silent_p.T521T|TCF4_uc010dph.1_Silent_p.T545T|TCF4_uc010xdy.1_Silent_p.T521T|TCF4_uc002lga.2_Silent_p.T647T|TCF4_uc002lgb.1_Silent_p.T385T|TCF4_uc010dpi.2_Silent_p.T551T|TCF4_uc002lfv.2_Silent_p.T328T	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	545					positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		ATCTTGACCTAGTAATTGATT	0.373													26	30					0	0	1	0	0		C	52899754	C	C	52899754	2	2	190	1	0	0	0	0	0	0	0	1	15720	407	15	5		5	TCF4	18	52899754	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	995155	52899754	25177494	1212	95365											
WDR7	23335	broad.mit.edu	37	chr18	54349956	54349956	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcgagaaggaaggcttttatGccacggacattaccctgaaa	13	8	11	9	2	0	2	0	1	0	1	0	5	0	4	2	3	2	1	2	3	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:54349956G>A	uc002lgk.1	+	5	603	c.392G>A	c.(391-393)TGC>TAC	p.C131Y	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.C131Y	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	131										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		AGGCTTTTATGCCACGGACAT	0.403													70	80					0	0	1	0	0		A	54349956	A	A	54349956	3	1	190	1	0	0	0	0	1	0	0	0	17346	1319	46	2	406	2	WDR7	18	54349956	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1450202	54349956	23727292	1213	95366											
WDR7	23335	broad.mit.edu	37	chr18	54591291	54591291	+	Missense_Mutation	SNP	T	C	C	0	1	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	catggatgtgtccgctgttcTgatggggcttctcgaacttt	5	15	12	9	2	2	1	0	1	2	0	4	3	3	2	1	3	1	3	1	3	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:54591291T>C	uc002lgk.1	+	22	3876	c.3665T>C	c.(3664-3666)CTG>CCG	p.L1222P	WDR7_uc002lgl.1_Missense_Mutation_p.L1189P	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	1222										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TCCGCTGTTCTGATGGGGCTT	0.468													67	80					0	0	1	0	0		C	54591291	C	C	54591291	3	2	190	1	0	0	0	0	1	0	0	0	17346	1580	55	3	3747	3	WDR7	18	54591291	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	241335	54591291	23485957	1214	95367											
ATP8B1	5205	broad.mit.edu	37	chr18	55329760	55329760	+	Frame_Shift_Del	DEL	A	-	-																															gcacggtttccaccgggtggAaaaaaagattcctgcacagg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:55329760delA	uc002lgw.2	-	20	2373	c.2373delT	c.(2371-2373)TTTfs	p.F791fs	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	791	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CACCGGGTGGAAAAAAAGATT	0.443									Byler_disease				39	47	---	---	---	---						.	-	55329760	-	-	55329760	7	5	190	1	0	1	0	1	0	0	0	0	1195	243	9	0	1414	0	ATP8B1	18	55329760	Frame_Shift_Del	DEL	A	TCGA-F1-6177-01A-11D-1800-08	738469	55329760	22747488	1215	95368											
ZNF532	55205	broad.mit.edu	37	chr18	56648737	56648737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagacgtacctttaccaaacGtttgatgctggagaagcacg	12	9	10	10	3	0	3	0	1	0	2	0	4	0	3	2	1	5	4	2	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:56648737G>A	uc002lho.2	+	10	3846	c.3299G>A	c.(3298-3300)CGT>CAT	p.R1100H	ZNF532_uc002lhp.2_Missense_Mutation_p.R1098H|ZNF532_uc010xeg.1_Missense_Mutation_p.R1098H|ZNF532_uc002lhr.2_Missense_Mutation_p.R1098H|ZNF532_uc002lhs.2_Missense_Mutation_p.R1098H|ZNF532_uc010xeh.1_Missense_Mutation_p.R188H	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1100	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TTTACCAAACGTTTGATGCTG	0.483													64	84					0	0	1	0	0		A	56648737	A	A	56648737	3	1	190	1	0	0	0	0	1	0	0	0	17997	1145	40	1	3325	1	ZNF532	18	56648737	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1318977	56648737	21428511	1216	95369											
CDH7	1005	broad.mit.edu	37	chr18	63547737	63547737	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aatattgtgagatacgatgaCgagggcgggggagaggagga	13	6	19	3	3	0	3	0	2	0	2	0	9	0	5	0	5	1	0	0	5	3	3	rs116347805	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:63547737C>T	uc002ljz.2	+	12	2290	c.1965C>T	c.(1963-1965)GAC>GAT	p.D655D	CDH7_uc002lkb.2_Silent_p.D655D	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	655	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				GATACGATGACGAGGGCGGGG	0.493													32	42					0	0	1	0	0		T	63547737	T	T	63547737	2	4	190	1	0	0	0	0	0	0	0	1	3118	535	19	1		1	CDH7	18	63547737	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6899000	63547737	14529511	1217	95370											
CBLN2	147381	broad.mit.edu	37	chr18	70209141	70209141	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgctgccggagcgcacGgagatgcctagggaggaggt	7	6	19	9	4	0	1	0	0	0	1	0	5	0	4	2	6	3	2	2	6	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:70209141G>A	uc002lku.2	-	2	490	c.255C>T	c.(253-255)TCC>TCT	p.S85S	CBLN2_uc002lkv.2_Silent_p.S85S	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	85						integral to membrane					0		Esophageal squamous(42;0.131)				CGGAGCGCACGGAGATGCCTA	0.667													5	22					0	0	1	0	0		A	70209141	A	A	70209141	2	1	190	1	0	0	0	0	0	0	0	1	2708	1103	39	1		1	CBLN2	18	70209141	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6661404	70209141	7868107	1218	95371											
NETO1	81832	broad.mit.edu	37	chr18	70451000	70451000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcaccccaagacccgtgcGtagcatgacatcattagcca	12	7	8	14	2	2	2	2	1	0	1	2	3	2	2	4	0	3	2	4	0	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:70451000G>A	uc002lkw.2	-	7	1065	c.781C>T	c.(781-783)CGC>TGC	p.R261C	NETO1_uc002lkx.1_Missense_Mutation_p.R260C|NETO1_uc002lky.1_Missense_Mutation_p.R261C	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	261	CUB 2.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		AGACCCGTGCGTAGCATGACA	0.483													68	89					0	0	1	0	0		A	70451000	A	A	70451000	3	1	190	1	0	0	0	0	1	0	0	0	10358	1145	40	1	836	1	NETO1	18	70451000	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	241859	70451000	7626248	1219	95372											
CNDP1	84735	broad.mit.edu	37	chr18	72223581	72223581	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaacccttccaggctgcgtcCctgctggctgtgctgctgct	4	11	11	15	1	0	0	0	0	0	0	2	0	2	0	3	2	6	6	3	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:72223581C>A	uc002llq.2	+	2	244	c.33C>A	c.(31-33)TCC>TCA	p.S11S		NM_032649	NP_116038	Q96KN2	CNDP1_HUMAN	carnosinase 1 precursor	11					proteolysis	extracellular region	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity|tripeptidase activity				0		Esophageal squamous(42;0.129)|Prostate(75;0.157)|Melanoma(33;0.211)		BRCA - Breast invasive adenocarcinoma(31;0.109)		AGGCTGCGTCCCTGCTGGCTG	0.562													25	53					2.98393e-07	3.08519e-07	1	1	0		A	72223581	A	A	72223581	2	1	190	1	0	0	0	0	0	0	0	1	3596	610	22	5		5	CNDP1	18	72223581	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1772581	72223581	5853667	1220	95373											
ZNF516	9658	broad.mit.edu	37	chr18	74091962	74091962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttttctgcagggtgacccGtctggccctccgctcccgta	3	11	11	16	3	2	1	0	1	2	0	4	1	4	1	4	2	1	4	4	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:74091962G>A	uc010dqx.1	-	3	2343	c.2108C>T	c.(2107-2109)ACG>ATG	p.T703M	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	703					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		AGGGTGACCCGTCTGGCCCTC	0.582													17	25					0	0	1	0	0		A	74091962	A	A	74091962	3	1	190	1	0	0	0	0	1	0	0	0	17985	1145	40	1	1400	1	ZNF516	18	74091962	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1868381	74091962	3985286	1221	95374											
SALL3	27164	broad.mit.edu	37	chr18	76755298	76755299	+	Frame_Shift_Ins	INS	-	C	C																															gggcctggcgcccatgctggINScccccccaccgcgccggacg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:76755298_76755299insC	uc002lmt.2	+	2	3307_3308	c.3307_3308insC	c.(3307-3309)GCCfs	p.A1103fs	SALL3_uc010dra.2_Frame_Shift_Ins_p.A638fs	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GCCCATGCTGGCCCCCCCACCG	0.743													4	7	---	---	---	---						.	C	76755299	C	C	76755298	7	5	190	1	0	1	1	0	0	0	0	0	13837	1203	42	0	3313	0	SALL3	18	76755298	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	2663336	76755298	1321950	1222	95375											
ATP9B	374868	broad.mit.edu	37	chr18	77137342	77137342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgtcctcaagtacctgaggCgcaagctctctcctcccagc	8	9	8	16	1	2	1	1	1	1	0	6	1	5	1	4	1	3	3	4	1	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:77137342C>T	uc002lmx.2	+	30	3417	c.3403C>T	c.(3403-3405)CGC>TGC	p.R1135C	ATP9B_uc002lmw.1_Missense_Mutation_p.R1124C|ATP9B_uc002lna.2_Missense_Mutation_p.R150C|ATP9B_uc010drb.2_RNA	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	1135	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		GTACCTGAGGCGCAAGCTCTC	0.607													31	35					0	0	1	0	0		T	77137342	T	T	77137342	3	4	190	1	0	0	0	0	1	0	0	0	1200	768	27	1	3521	1	ATP9B	18	77137342	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	382044	77137342	939906	1223	95376											
CTDP1	9150	broad.mit.edu	37	chr18	77489024	77489024	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtatgtctgagacaatgccGctgtacactctttgtaagga	11	12	10	8	1	2	1	0	1	2	1	2	3	2	2	1	1	2	4	1	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:77489024G>T	uc002lnh.1	+	11	2682	c.2535G>T	c.(2533-2535)CCG>CCT	p.P845P	CTDP1_uc002lni.1_Intron|CTDP1_uc010drd.1_Silent_p.P845P	NM_004715	NP_004706	Q9Y5B0	CTDP1_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	845					positive regulation of viral transcription|protein dephosphorylation|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	CTD phosphatase activity|DNA-directed RNA polymerase activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;5.2e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0277)		AGACAATGCCGCTGTACACTC	0.592													95	113					8.34767e-46	9.17752e-46	1	1	0		T	77489024	T	T	77489024	2	4	190	1	0	0	0	0	0	0	0	1	4005	1074	38	5		5	CTDP1	18	77489024	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	351682	77489024	588224	1224	95377											
PARD6G	84552	broad.mit.edu	37	chr18	77918087	77918087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttggcgatcatcatgtccGtgacctggtccagcgtcttc	5	13	11	12	3	3	1	2	1	1	0	6	2	5	1	3	2	1	1	3	2	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr18:77918087G>A	uc002lny.2	-	3	864	c.698C>T	c.(697-699)ACG>ATG	p.T233M	LOC100130522_uc002lnx.2_Intron|LOC100130522_uc010xfn.1_Intron|LOC100130522_uc010xfo.1_Intron	NM_032510	NP_115899	Q9BYG4	PAR6G_HUMAN	PAR-6 gamma protein	233	PDZ.|Interaction with PARD3 and CDC42 (By similarity).				cell cycle|cell division|tight junction assembly	cytosol|tight junction	protein binding				0		all_cancers(4;5.63e-22)|all_epithelial(4;5.86e-15)|all_lung(4;1.32e-05)|Ovarian(4;1.33e-05)|Lung NSC(4;2.77e-05)|Esophageal squamous(42;0.0157)|all_hematologic(56;0.13)|Melanoma(33;0.144)		Epithelial(2;1.48e-13)|all cancers(1;5.77e-13)|OV - Ovarian serous cystadenocarcinoma(15;2.74e-10)|BRCA - Breast invasive adenocarcinoma(31;0.00166)|STAD - Stomach adenocarcinoma(84;0.18)|Lung(128;0.23)		CATCATGTCCGTGACCTGGTC	0.672													23	18					0	0	1	0	0		A	77918087	A	A	77918087	3	1	190	1	0	0	0	0	1	0	0	0	11466	1145	40	1	436	1	PARD6G	18	77918087	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	429063	77918087	159161	1225	95378											
HCN2	610	broad.mit.edu	37	chr19	605125	605125	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgcaatctcatcagcatgaTgctgctgctctgccactggg	7	11	10	13	0	3	1	2	1	2	0	4	1	3	1	1	1	6	5	1	1	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:605125T>C	uc002lpe.2	+	3	1174	c.1121T>C	c.(1120-1122)ATG>ACG	p.M374T		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	374	Helical; Name=Segment S5; (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATCAGCATGATGCTGCTGCTC	0.607													18	28					0	0	1	0	0		C	605125	C	C	605125	3	2	190	1	0	0	0	0	1	0	0	0	7013	1464	51	3	1131	3	HCN2	19	605125	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08		605125	58523858	1226	95379											
POLRMT	5442	broad.mit.edu	37	chr19	621231	621231	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggcgaactccagcagggCccgcgccacgtcgctgccca	6	4	13	18	5	0	0	0	0	0	0	2	1	1	0	4	2	3	2	4	2	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:621231C>G	uc002lpf.1	-	10	2523	c.2467G>C	c.(2467-2469)GCC>CCC	p.A823P		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	823	Mediates interaction with TEFM.				transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCAGCAGGGCCCGCGCCACG	0.701													15	12					0	0	1	0	0		G	621231	G	G	621231	3	3	190	1	0	0	0	0	1	0	0	0	12257	739	26	5	1273	5	POLRMT	19	621231	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	16106	621231	58507752	1227	95380											
PALM	5064	broad.mit.edu	37	chr19	746652	746652	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtcatcgaagacgcGgctgagcccaaggagcctgc	8	6	15	12	3	1	2	1	1	0	1	2	4	1	3	2	4	3	1	2	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:746652G>A	uc002lpm.1	+	9	1196	c.1002G>A	c.(1000-1002)GCG>GCA	p.A334A	PALM_uc002lpn.1_Silent_p.A290A|PALM_uc010xfu.1_Silent_p.A199A	NM_002579	NP_002570	O75781	PALM_HUMAN	paralemmin isoform 1	334					cellular component movement|negative regulation of adenylate cyclase activity|negative regulation of dopamine receptor signaling pathway|positive regulation of filopodium assembly|regulation of cell shape	cytoplasmic membrane-bounded vesicle|filopodium membrane|integral to plasma membrane					0		all_epithelial(18;2.19e-21)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)|Lung(535;0.201)		TCGAAGACGCGGCTGAGCCCA	0.642													9	10					0	0	1	0	0		A	746652	A	A	746652	2	1	190	1	0	0	0	0	0	0	0	1	11427	1103	39	1		1	PALM	19	746652	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	125421	746652	58382331	1228	95381											
WDR18	57418	broad.mit.edu	37	chr19	984397	984397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgtgtacggactcggcggCcccgatgtggagctgcatcg	5	8	16	12	6	0	0	0	0	0	0	2	3	0	2	2	4	3	3	2	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:984397C>T	uc002lqm.1	+	1	70	c.44C>T	c.(43-45)GCC>GTC	p.A15V	WDR18_uc002lqn.1_RNA|WDR18_uc010drx.1_Missense_Mutation_p.A15V|WDR18_uc010dry.1_Missense_Mutation_p.A15V	NM_024100	NP_077005	Q9BV38	WDR18_HUMAN	WD repeat domain 18	15										skin(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GACTCGGCGGCCCCGATGTGG	0.701													9	6					0	0	1	0	0		T	984397	T	T	984397	3	4	190	1	0	0	0	0	1	0	0	0	17304	739	26	2	46	2	WDR18	19	984397	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	237745	984397	58144586	1229	95382											
C19orf26	255057	broad.mit.edu	37	chr19	1231206	1231206	+	Frame_Shift_Del	DEL	C	-	-																															gaagtcctcctggggggcatCcccctcctcctgctccgtgc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:1231206delC	uc002lrm.2	-	9	1305	c.1030delG	c.(1030-1032)GATfs	p.D344fs		NM_152769	NP_689982	Q8N350	DOS_HUMAN	downstream of Stk11	370						integral to membrane					0		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)		TGGGGGGCATCCCCCTCCTCC	0.711										HNSCC(14;0.022)			22	34	---	---	---	---						.	-	1231206	-	-	1231206	7	5	190	1	0	1	0	1	0	0	0	0	1919	855	30	0	317	0	C19orf26	19	1231206	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	246809	1231206	57897777	1230	95383											
NDUFS7	374291	broad.mit.edu	37	chr19	1387831	1387831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctggcctgcgcggcttccGgatccttggtctgcggtgag	2	11	15	13	4	1	1	0	1	1	0	4	2	4	2	4	5	2	1	4	5	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:1387831G>A	uc002lse.3	+	2	81	c.38G>A	c.(37-39)CGG>CAG	p.R13Q	NDUFS7_uc002lsf.2_Missense_Mutation_p.R77Q|NDUFS7_uc002lsh.2_Missense_Mutation_p.R77Q|NDUFS7_uc002lsg.2_5'UTR	NM_024407	NP_077718	O75251	NDUS7_HUMAN	NADH-ubiquinone oxidoreductase Fe-S protein 7	13					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)|Breast(49;0.00186)|Lung NSC(49;0.00292)|all_lung(49;0.00419)		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)	NADH(DB00157)	CGCGGCTTCCGGATCCTTGGT	0.716													4	12					0	0	1	0	0		A	1387831	A	A	1387831	3	1	190	1	0	0	0	0	1	0	0	0	10316	1116	39	1	44	1	NDUFS7	19	1387831	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	156625	1387831	57741152	1231	95384											
PCSK4	54760	broad.mit.edu	37	chr19	1487292	1487292	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgatgacatcggtgatggTaccgtccagcatccgtacgc	8	9	11	13	5	0	2	0	2	0	0	4	3	2	2	3	2	3	3	3	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:1487292T>C	uc002ltb.1	-	7	765	c.703A>G	c.(703-705)ACC>GCC	p.T235A	PCSK4_uc002lta.2_Missense_Mutation_p.T47A	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	235	Catalytic (By similarity).				proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCGGTGATGGTACCGTCCAGC	0.532													5	10					0	0	1	0	0		C	1487292	C	C	1487292	3	2	190	1	0	0	0	0	1	0	0	0	11621	1638	57	3	1600	3	PCSK4	19	1487292	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	99461	1487292	57641691	1232	95385											
ATP8B3	148229	broad.mit.edu	37	chr19	1795906	1795906	+	Frame_Shift_Del	DEL	C	-	-																															ctctgtggcaaattccattgCccccctcctgtgcaagcgtt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:1795906delC	uc002ltw.2	-	18	2257	c.2023delG	c.(2023-2025)GCAfs	p.A675fs	ATP8B3_uc002ltv.2_Frame_Shift_Del_p.A628fs|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	675	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AATTCCATTGCCCCCCTCCTG	0.483											OREG0025127	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	57	---	---	---	---						.	-	1795906	-	-	1795906	7	5	190	1	0	1	0	1	0	0	0	0	1197	739	26	0	1957	0	ATP8B3	19	1795906	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	308614	1795906	57333077	1233	95386											
DOT1L	84444	broad.mit.edu	37	chr19	2216574	2216574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaacacgccccagtacctgGcctcacccctggaccaggag	10	4	10	17	1	1	1	1	0	0	1	1	3	1	3	7	3	2	1	7	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:2216574G>A	uc002lvb.3	+	20	2254	c.2218G>A	c.(2218-2220)GCC>ACC	p.A740T	DOT1L_uc002lvc.1_Missense_Mutation_p.A34T|uc002lvd.1_5'Flank|DOT1L_uc002lve.1_Missense_Mutation_p.A34T	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	740						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGTACCTGGCCTCACCCCT	0.667													35	42					0	0	1	0	0		A	2216574	A	A	2216574	3	1	190	1	0	0	0	0	1	0	0	0	4715	1203	42	2	2296	2	DOT1L	19	2216574	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	420668	2216574	56912409	1234	95387											
DOT1L	84444	broad.mit.edu	37	chr19	2226423	2226423	+	Frame_Shift_Del	DEL	G	-	-																															ggctttcccggctccctgtcGggggctgacggactcagccc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:2226423delG	uc002lvb.3	+	27	3939	c.3903delG	c.(3901-3903)TCGfs	p.S1301fs	DOT1L_uc002lvc.1_Frame_Shift_Del_p.S595fs	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	1301						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCCCTGTCGGGGGCTGACG	0.682													8	10	---	---	---	---						.	-	2226423	-	-	2226423	7	5	190	1	0	1	0	1	0	0	0	0	4715	1103	39	0	4009	0	DOT1L	19	2226423	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	9849	2226423	56902560	1235	95388											
LINGO3	645191	broad.mit.edu	37	chr19	2290788	2290788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctctcctccaacgtggagaGcaggttgttggagaggttga	8	10	15	8	1	1	3	0	1	1	2	3	5	2	3	2	4	2	5	2	4	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:2290788G>A	uc010dsx.1	-	2	1116	c.988C>T	c.(988-990)CTC>TTC	p.L330F	SPPL2B_uc010dsw.1_Intron|uc002lvo.1_5'UTR	NM_001101391	NP_001094861	P0C6S8	LIGO3_HUMAN	leucine rich repeat and Ig domain containing 3	330	Extracellular (Potential).|LRR 11.					integral to membrane					0						AACGTGGAGAGCAGGTTGTTG	0.677													11	5					0	0	1	0	0		A	2290788	A	A	2290788	3	1	190	1	0	0	0	0	1	0	0	0	8833	971	34	2	794	2	LINGO3	19	2290788	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	64365	2290788	56838195	1236	95389											
SPPL2B	56928	broad.mit.edu	37	chr19	2352963	2352963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtcctacctccatctcCgtgggccccagcaccagccg	8	6	9	18	2	1	0	0	0	1	0	4	1	3	0	8	1	3	1	8	1	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:2352963C>T	uc002lvs.2	+	16	1615	c.1535C>T	c.(1534-1536)CCG>CTG	p.P512L	SPPL2B_uc002lvr.2_3'UTR	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	512	Pro-rich.					Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCTCCATCTCCGTGGGCCCCA	0.682													13	12					0	0	1	0	0		T	2352963	T	T	2352963	3	4	190	1	0	0	0	0	1	0	0	0	15114	652	23	1	1613	1	SPPL2B	19	2352963	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	62175	2352963	56776020	1237	95390											
TBXA2R	6915	broad.mit.edu	37	chr19	3600160	3600160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccagcgccagcgcggccGcccacaccagccccacggtg	6	1	13	21	5	0	0	0	0	0	0	0	0	0	0	7	3	3	0	7	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:3600160G>A	uc002lyg.1	-	2	687	c.473C>T	c.(472-474)GCG>GTG	p.A158V	TBXA2R_uc002lye.1_Intron	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	158	Helical; Name=4; (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CAGCGCGGCCGCCCACACCAG	0.751													7	10					0	0	1	0	0		A	3600160	A	A	3600160	3	1	190	1	0	0	0	0	1	0	0	0	15688	1087	38	1	811	1	TBXA2R	19	3600160	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1247197	3600160	55528823	1238	95391											
C19orf29	58509	broad.mit.edu	37	chr19	3614486	3614486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accagcgcggattttgccctCgatgccctggaagatgacct	8	9	11	13	3	0	2	0	1	0	1	1	5	0	4	4	2	3	0	4	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:3614486C>T	uc002lyh.2	-	7	1317	c.1264G>A	c.(1264-1266)GAG>AAG	p.E422K	C19orf29_uc010xho.1_5'UTR|C19orf29_uc010dtn.2_Missense_Mutation_p.E270K|C19orf29_uc002lyi.3_Missense_Mutation_p.E422K|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	422						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		ATTTTGCCCTCGATGCCCTGG	0.632													7	7					0	0	1	0	0		T	3614486	T	T	3614486	3	4	190	1	0	0	0	0	1	0	0	0	1921	893	31	1	1028	1	C19orf29	19	3614486	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	14326	3614486	55514497	1239	95392											
APBA3	9546	broad.mit.edu	37	chr19	3759909	3759909	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggaaggcgggcattcctcGcagtgcaagaggcccagcag	9	5	16	11	2	0	1	0	0	0	1	2	2	1	2	2	4	2	4	2	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:3759909G>A	uc002lyp.1	-	2	531	c.354C>T	c.(352-354)TGC>TGT	p.C118C	MRPL54_uc002lyq.3_5'Flank	NM_004886	NP_004877	O96018	APBA3_HUMAN	amyloid beta (A4) precursor protein-binding,	118					intracellular signal transduction|protein transport	intracellular|membrane	protein binding				0		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)		GGCATTCCTCGCAGTGCAAGA	0.647													20	37					0	0	1	0	0		A	3759909	A	A	3759909	2	1	190	1	0	0	0	0	0	0	0	1	758	1079	38	1		1	APBA3	19	3759909	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	145423	3759909	55369074	1240	95393											
MATK	4145	broad.mit.edu	37	chr19	3779034	3779034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtccacttgacgggcagccGgcttgagtctagccccttcc	5	9	11	16	3	1	2	0	2	1	0	3	2	3	2	5	2	2	2	5	2	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:3779034G>A	uc002lyt.2	-	12	1553	c.1153C>T	c.(1153-1155)CGG>TGG	p.R385W	MATK_uc002lyv.2_Missense_Mutation_p.R386W|MATK_uc002lyu.2_Missense_Mutation_p.R344W|MATK_uc010dtq.2_Missense_Mutation_p.R385W	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	385	Protein kinase.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGGGCAGCCGGCTTGAGTCT	0.607													11	13					0	0	1	0	0		A	3779034	A	A	3779034	3	1	190	1	0	0	0	0	1	0	0	0	9350	1115	39	1	382	1	MATK	19	3779034	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	19125	3779034	55349949	1241	95394											
STAP2	55620	broad.mit.edu	37	chr19	4329976	4329976	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acgagggtgtctccagtgcaCggcgcgcctcctctttggcc	4	9	13	15	4	2	0	0	0	2	0	4	1	3	0	4	3	1	1	4	3	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:4329976C>T	uc002mab.2	-	5	534	c.437G>A	c.(436-438)CGT>CAT	p.R146H	STAP2_uc002mac.2_Missense_Mutation_p.R146H|STAP2_uc002mad.2_Missense_Mutation_p.R39H	NM_001013841	NP_001013863	Q9UGK3	STAP2_HUMAN	signal transducing adaptor family member 2	146	SH2.					cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCAGTGCACGGCGCGCCTC	0.647													11	24					0	0	1	0	0		T	4329976	T	T	4329976	3	4	190	1	0	0	0	0	1	0	0	0	15278	536	19	1	948	1	STAP2	19	4329976	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	550942	4329976	54799007	1242	95395											
CHAF1A	10036	broad.mit.edu	37	chr19	4409287	4409287	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggggttgttgaaggccaTtcagaacgacaagttggcat	11	9	14	7	1	1	2	1	1	0	1	1	3	1	2	1	4	1	5	1	4	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:4409287T>C	uc002mal.2	+	3	591	c.491T>C	c.(490-492)ATT>ACT	p.I164T		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	164	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		TTGAAGGCCATTCAGAACGAC	0.527								Chromatin_Structure					40	65					0	0	1	0	0		C	4409287	C	C	4409287	3	2	190	1	0	0	0	0	1	0	0	0	3314	1493	52	3	501	3	CHAF1A	19	4409287	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	79311	4409287	54719696	1243	95396											
SEMA6B	10501	broad.mit.edu	37	chr19	4552637	4552637	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgcacactcgggccacGcgggacaccaccacctgggc	7	6	11	17	3	1	0	0	0	1	0	2	1	1	1	4	3	1	1	4	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:4552637G>A	uc010duc.1	-	9	824	c.786C>T	c.(784-786)CGC>CGT	p.R262R	SEMA6B_uc010dud.2_Silent_p.R262R|SEMA6B_uc010xih.1_Silent_p.R262R	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	262	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		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)		CTCGGGCCACGCGGGACACCA	0.657													12	12					0	0	1	0	0		A	4552637	A	A	4552637	2	1	190	1	0	0	0	0	0	0	0	1	14065	1074	38	1		1	SEMA6B	19	4552637	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	143350	4552637	54576346	1244	95397											
PTPRS	5802	broad.mit.edu	37	chr19	5208389	5208389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actggaactgccggacagtcCgggactggccatcctagagt	9	7	13	12	2	0	1	0	0	0	1	2	4	2	4	4	4	2	0	4	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:5208389C>T	uc002mbv.2	-	36	5735	c.5501G>A	c.(5500-5502)CGG>CAG	p.R1834Q	PTPRS_uc002mbu.1_Missense_Mutation_p.R1403Q|PTPRS_uc010xin.1_Missense_Mutation_p.R1376Q|PTPRS_uc002mbw.2_Missense_Mutation_p.R1796Q|PTPRS_uc002mbx.2_Missense_Mutation_p.R1391Q|PTPRS_uc002mby.2_Missense_Mutation_p.R1387Q	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1834	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CCGGACAGTCCGGGACTGGCC	0.552													10	18					0	0	1	0	0		T	5208389	T	T	5208389	3	4	190	1	0	0	0	0	1	0	0	0	12836	652	23	1	357	1	PTPRS	19	5208389	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	655752	5208389	53920594	1245	95398											
LONP1	9361	broad.mit.edu	37	chr19	5713220	5713220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatctgggcaaacgtccccGtgtggtagatttcatccagg	8	10	13	10	2	2	1	1	0	1	1	4	2	4	2	3	4	1	2	3	4	2	2	rs147052599		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:5713220G>A	uc002mcx.2	-	3	596	c.563C>T	c.(562-564)ACG>ATG	p.T188M	LONP1_uc002mcy.2_Missense_Mutation_p.T124M|LONP1_uc010duh.2_Translation_Start_Site|LONP1_uc010dui.2_Missense_Mutation_p.T188M|LONP1_uc002mcz.2_Translation_Start_Site	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	188	Lon.				cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						AAACGTCCCCGTGTGGTAGAT	0.562													23	44					0	0	1	0	0		A	5713220	A	A	5713220	3	1	190	1	0	0	0	0	1	0	0	0	8910	1145	40	1	2380	1	LONP1	19	5713220	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	504831	5713220	53415763	1246	95399											
SLC25A41	284427	broad.mit.edu	37	chr19	6429808	6429808	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagacgctcctggaagggcGgggacccttgtattccacag	8	7	15	11	2	0	1	0	0	0	1	2	4	2	3	3	5	0	2	3	5	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:6429808G>T	uc010dus.2	-	4	637	c.551C>A	c.(550-552)CCG>CAG	p.P184Q	SLC25A41_uc010dut.2_Missense_Mutation_p.P46Q	NM_173637	NP_775908	Q8N5S1	S2541_HUMAN	solute carrier family 25, member 41	184	Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0						CTGGAAGGGCGGGGACCCTTG	0.597													9	12					7.48243e-07	7.70432e-07	1	1	0		T	6429808	T	T	6429808	3	4	190	1	0	0	0	0	1	0	0	0	14531	1116	39	5	577	5	SLC25A41	19	6429808	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	716588	6429808	52699175	1247	95400											
TUBB4	10382	broad.mit.edu	37	chr19	6495747	6495747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggaaagggaaccatgttgaCggccagcttgcgcaggtcgg	10	6	16	9	3	0	1	0	1	0	0	1	3	0	3	2	5	3	3	2	5	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:6495747C>T	uc002mfg.1	-	4	870	c.763G>A	c.(763-765)GTC>ATC	p.V255I	TUBB4_uc002mff.1_Missense_Mutation_p.V183I|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	255					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		ACCATGTTGACGGCCAGCTTG	0.682													54	59					0	0	1	0	0		T	6495747	T	T	6495747	3	4	190	1	0	0	0	0	1	0	0	0	16784	536	19	1	575	1	TUBB4	19	6495747	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	65939	6495747	52633236	1248	95401											
INSR	3643	broad.mit.edu	37	chr19	7184342	7184342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacttgctggaattcatcGtgtacccggagggacactca	9	10	10	12	2	3	0	3	0	0	0	4	3	3	3	1	3	2	2	1	3	2	3	rs138528064	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:7184342G>A	uc002mgd.1	-	3	1068	c.959C>T	c.(958-960)ACG>ATG	p.T320M	INSR_uc002mge.1_Missense_Mutation_p.T320M|INSR_uc002mgf.2_Missense_Mutation_p.T320M	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	320	Cys-rich.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGAATTCATCGTGTACCCGGA	0.557													6	29					0	0	1	0	0		A	7184342	A	A	7184342	3	1	190	1	0	0	0	0	1	0	0	0	7789	1145	40	1	3269	1	INSR	19	7184342	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	688595	7184342	51944641	1249	95402											
PNPLA6	10908	broad.mit.edu	37	chr19	7620635	7620635	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcacgaagcagcgggccCgggagtgggccaaggtgtgt	7	4	19	11	4	0	0	0	0	0	0	0	2	0	1	3	4	2	2	3	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:7620635C>T	uc010xjq.1	+	26	3304	c.3109C>T	c.(3109-3111)CGG>TGG	p.R1037W	PNPLA6_uc002mgq.1_Missense_Mutation_p.R989W|PNPLA6_uc010xjp.1_Missense_Mutation_p.R962W|PNPLA6_uc002mgr.1_Missense_Mutation_p.R989W|PNPLA6_uc002mgs.2_Missense_Mutation_p.R1027W|PNPLA6_uc002mgt.1_RNA	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b	1028	Patatin.|Cytoplasmic (Potential).				cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						GCAGCGGGCCCGGGAGTGGGC	0.657													26	26					0	0	1	0	0		T	7620635	T	T	7620635	3	4	190	1	0	0	0	0	1	0	0	0	12188	643	23	1	3207	1	PNPLA6	19	7620635	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	436293	7620635	51508348	1250	95403											
XAB2	56949	broad.mit.edu	37	chr19	7687526	7687526	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcaaagtactcggcccggcGggcaggcagcgccgtggcct	7	5	15	14	5	1	0	1	0	0	0	2	0	1	0	3	5	2	3	3	5	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:7687526G>A	uc002mgx.2	-	11	1419	c.1393C>T	c.(1393-1395)CGC>TGC	p.R465C		NM_020196	NP_064581	Q9HCS7	SYF1_HUMAN	XPA binding protein 2	465					transcription, DNA-dependent|transcription-coupled nucleotide-excision repair	catalytic step 2 spliceosome|nucleoplasm	protein binding			central_nervous_system(2)|breast(1)|skin(1)	4						TCGGCCCGGCGGGCAGGCAGC	0.682								Direct_reversal_of_damage|NER					17	34					0	0	1	0	0		A	7687526	A	A	7687526	3	1	190	1	0	0	0	0	1	0	0	0	17444	1116	39	1	1210	1	XAB2	19	7687526	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	66891	7687526	51441457	1251	95404											
HNRNPM	4670	broad.mit.edu	37	chr19	8533700	8533700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatttcttccctcctgagCgtccacaacaacttccccgt	8	11	6	16	2	1	2	0	1	1	1	5	3	5	2	5	0	3	0	5	0	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:8533700C>T	uc010dwe.2	+	9	957	c.877C>T	c.(877-879)CGT>TGT	p.R293C	HNRNPM_uc010dwc.1_Missense_Mutation_p.R293C|HNRNPM_uc010xke.1_Missense_Mutation_p.R254C|HNRNPM_uc010dwd.2_Missense_Mutation_p.R254C|HNRNPM_uc002mka.2_Missense_Mutation_p.R173C	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	293					alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						CCCTCCTGAGCGTCCACAACA	0.348													15	27					0	0	1	0	0		T	8533700	T	T	8533700	3	4	190	1	0	0	0	0	1	0	0	0	7287	768	27	1	911	1	HNRNPM	19	8533700	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	846174	8533700	50595283	1252	95405											
MYO1F	4542	broad.mit.edu	37	chr19	8609213	8609213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtggtggatgacgaagccggCgctccagctgttgaaatgct	8	9	15	9	3	0	2	0	2	0	0	1	4	1	3	2	3	3	4	2	3	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:8609213C>T	uc002mkg.2	-	14	1606	c.1492G>A	c.(1492-1494)GCC>ACC	p.A498T		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	498	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						ACGAAGCCGGCGCTCCAGCTG	0.687													24	42					0	0	1	0	0		T	8609213	T	T	8609213	3	4	190	1	0	0	0	0	1	0	0	0	10091	768	27	1	1864	1	MYO1F	19	8609213	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	75513	8609213	50519770	1253	95406											
MUC16	94025	broad.mit.edu	37	chr19	8982158	8982158	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggctgatagctgctcaccGttaaggtagaggctgtcttt	7	12	14	8	1	2	2	1	1	1	1	2	2	2	2	1	4	2	6	1	4	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:8982158G>A	uc002mkp.2	-	70	42321	c.42117C>T	c.(42115-42117)AAC>AAT	p.N14039N	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.N856N|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	14064	Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GCTGCTCACCGTTAAGGTAGA	0.572													7	24					0	0	1	0	0		A	8982158	A	A	8982158	2	1	190	1	0	0	0	0	0	0	0	1	9991	1159	40	1		1	MUC16	19	8982158	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	372945	8982158	50146825	1254	95407											
MUC16	94025	broad.mit.edu	37	chr19	9057156	9057156	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgccatgcttgaagaaggaTgaattttctctgtatctgtg	9	15	10	7	0	2	3	0	2	2	1	3	4	2	4	1	1	2	2	1	1	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:9057156T>C	uc002mkp.2	-	3	30494	c.30290A>G	c.(30289-30291)CAT>CGT	p.H10097R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10099	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGAAGAAGGATGAATTTTCTC	0.463													24	56					0	0	1	0	0		C	9057156	C	C	9057156	3	2	190	1	0	0	0	0	1	0	0	0	9991	1464	51	3	13561	3	MUC16	19	9057156	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	74998	9057156	50071827	1255	95408											
MUC16	94025	broad.mit.edu	37	chr19	9067923	9067923	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagggaagaggaagagctgGttttttccacagagggtggg	11	8	18	4	0	0	3	0	0	0	3	1	6	1	5	1	5	1	2	1	5	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:9067923G>T	uc002mkp.2	-	3	19727	c.19523C>A	c.(19522-19524)ACC>AAC	p.T6508N		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6510	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAAGAGCTGGTTTTTTCCAC	0.458													23	32					5.26018e-13	5.56193e-13	1	1	0		T	9067923	T	T	9067923	3	4	190	1	0	0	0	0	1	0	0	0	9991	1261	44	5	24328	5	MUC16	19	9067923	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	10767	9067923	50061060	1256	95409											
ZNF317	57693	broad.mit.edu	37	chr19	9270837	9270837	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgaatacgctcacttgttCgaagtctttggcatggaccc	9	12	9	11	2	2	1	1	1	1	0	3	3	2	2	1	2	1	3	1	2	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:9270837C>T	uc002mku.2	+	7	791	c.516C>T	c.(514-516)TTC>TTT	p.F172F	ZNF317_uc002mkv.2_Silent_p.F31F|ZNF317_uc002mkw.2_Silent_p.F140F|ZNF317_uc002mkx.2_Silent_p.F87F|ZNF317_uc002mky.2_Silent_p.F55F	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTCACTTGTTCGAAGTCTTTG	0.517													14	28					0	0	1	0	0		T	9270837	T	T	9270837	2	4	190	1	0	0	0	0	0	0	0	1	17860	883	31	1		1	ZNF317	19	9270837	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	202914	9270837	49858146	1257	95410											
OLFM2	93145	broad.mit.edu	37	chr19	9964945	9964945	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttgttccaggtatagagggCgcgctcccgggggttgtaat	6	11	16	8	3	0	1	0	0	0	1	2	1	2	1	2	4	0	6	2	4	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:9964945C>T	uc002mmp.2	-	6	1310	c.1282G>A	c.(1282-1284)GCC>ACC	p.A428T	OLFM2_uc002mmo.2_Missense_Mutation_p.A350T	NM_058164	NP_477512	O95897	NOE2_HUMAN	olfactomedin 2 precursor	428	Olfactomedin-like.					extracellular region				large_intestine(1)|skin(1)	2						GTATAGAGGGCGCGCTCCCGG	0.567													35	52					0	0	1	0	0		T	9964945	T	T	9964945	3	4	190	1	0	0	0	0	1	0	0	0	10872	768	27	1	86	1	OLFM2	19	9964945	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	694108	9964945	49164038	1258	95411											
DNM2	1785	broad.mit.edu	37	chr19	10908058	10908058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccctccgcatgacccaggaCggggctcttcacccccgaca	7	5	10	19	3	2	1	1	1	1	0	3	3	3	2	5	3	0	2	5	3	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:10908058C>T	uc002mps.1	+	10	1363	c.1199C>T	c.(1198-1200)ACG>ATG	p.T400M	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Intron|DNM2_uc002mpv.1_Missense_Mutation_p.T400M|DNM2_uc002mpu.1_Intron|DNM2_uc010dxl.1_Intron|DNM2_uc002mpw.2_Missense_Mutation_p.T133M	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	400					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			TGACCCAGGACGGGGCTCTTC	0.527													13	20					0	0	1	0	0		T	10908058	T	T	10908058	3	4	190	1	0	0	0	0	1	0	0	0	4678	536	19	1	1380	1	DNM2	19	10908058	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	943113	10908058	48220925	1259	95412											
CARM1	10498	broad.mit.edu	37	chr19	11022862	11022862	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcccactcctccctcagatCgttcttgatgttggctgtgg	4	14	9	14	1	2	2	1	1	1	1	6	2	5	2	3	2	0	3	3	2	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:11022862C>T	uc002mpz.2	+	5	687	c.561C>T	c.(559-561)ATC>ATT	p.I187I	CARM1_uc010dxn.2_RNA|CARM1_uc002mqa.2_5'UTR	NM_199141	NP_954592	Q86X55	CARM1_HUMAN	coactivator-associated arginine	187					cellular lipid metabolic process|histone H3-R2 methylation|interspecies interaction between organisms|pathogenesis|positive regulation of fat cell differentiation|regulation of estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleoplasm	beta-catenin binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-R17 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein-arginine omega-N asymmetric methyltransferase activity|transcription regulatory region DNA binding				0						TCCCTCAGATCGTTCTTGATG	0.577													93	147					0	0	1	0	0		T	11022862	T	T	11022862	2	4	190	1	0	0	0	0	0	0	0	1	2658	874	31	1		1	CARM1	19	11022862	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	114804	11022862	48106121	1260	95413											
ZNF44	51710	broad.mit.edu	37	chr19	12386785	12386785	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatacctatacagttcaggTtcctaatggtttctcgcatc	9	14	6	12	1	2	0	1	0	1	0	5	0	3	0	3	2	2	4	3	2	4	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:12386785T>G	uc010xmj.1	-	3	465	c.260A>C	c.(259-261)AAC>ACC	p.N87T	ZNF44_uc002mtl.2_RNA|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_RNA|ZNF44_uc002mtn.3_RNA|ZNF44_uc010dys.2_Missense_Mutation_p.N39T	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1	87	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		ACAGTTCAGGTTCCTAATGGT	0.418													70	122					0	0	1	0	0		G	12386785	G	G	12386785	3	3	190	1	0	0	0	0	1	0	0	0	17937	1725	60	5	1743	5	ZNF44	19	12386785	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1363923	12386785	46742198	1261	95414											
ZNF799	90576	broad.mit.edu	37	chr19	12491639	12491639	+	Missense_Mutation	SNP	A	G	G	1	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	aacactgcttacattcatacAgtttctccccagtacgtgtt	10	14	5	12	1	2	0	1	0	1	0	3	0	2	0	2	0	5	4	2	0	4	6	rs59301182	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:12491639A>G	uc002mts.3	-	4	903	c.437T>C	c.(436-438)CTG>CCG	p.L146P				Q96GE5	ZN799_HUMAN	Homo sapiens cDNA clone IMAGE:30340957, **** WARNING: chimeric clone ****.	252				L -> P (in Ref. 1; AL832890).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						ACATTCATACAGTTTCTCCCC	0.368													6	125					0	0	1	0	0		G	12491639	G	G	12491639	3	3	190	1	0	0	0	0	1	0	0	0	18191	203	7	3		3	ZNF799	19	12491639	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	104854	12491639	46637344	1262	95415											
ZNF799	90576	broad.mit.edu	37	chr19	12501627	12501627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttacattcatacggcttctCtccagagtgaattctttcat	9	16	5	11	1	4	2	2	1	2	1	6	2	5	2	1	1	2	1	1	1	3	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:12501627C>T	uc010dyt.2	-	4	1735	c.1585G>A	c.(1585-1587)GAG>AAG	p.E529K	ZNF799_uc002mts.3_Intron	NM_001080821	NP_001074290	Q96GE5	ZN799_HUMAN	zinc finger protein 799	529					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|ovary(2)|skin(1)	6						TACGGCTTCTCTCCAGAGTGA	0.398													38	58					0	0	1	0	0		T	12501627	T	T	12501627	3	4	190	1	0	0	0	0	1	0	0	0	18191	922	32	4	350	4	ZNF799	19	12501627	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	9988	12501627	46627356	1263	95416											
RTBDN	83546	broad.mit.edu	37	chr19	12939701	12939701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	actcagggctcggcactccaCagcgttctggatggtttcca	7	10	11	13	2	2	0	1	0	1	0	5	1	4	1	2	4	1	4	2	4	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:12939701C>T	uc002mvi.2	-	3	366	c.236G>A	c.(235-237)TGT>TAT	p.C79Y	RTBDN_uc002mvh.1_Missense_Mutation_p.C111Y|RTBDN_uc002mvj.2_Missense_Mutation_p.C111Y	NM_001080997	NP_001074466	Q9BSG5	RTBDN_HUMAN	retbindin isoform 1	79						extracellular region					0						CGGCACTCCACAGCGTTCTGG	0.592													46	51					0	0	1	0	0		T	12939701	T	T	12939701	3	4	190	1	0	0	0	0	1	0	0	0	13742	478	17	4	469	4	RTBDN	19	12939701	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	438074	12939701	46189282	1264	95417											
NANOS3	342977	broad.mit.edu	37	chr19	13988417	13988417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtccccagtgcggcgccacaCgtgagcgcgcccacacccga	7	3	12	19	6	0	1	0	1	0	0	1	2	1	1	5	1	2	0	5	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:13988417C>T	uc002mxj.3	+	1	468	c.355C>T	c.(355-357)CGT>TGT	p.R119C		NM_001098622	NP_001092092	P60323	NANO3_HUMAN	nanos homolog 3	100	C2HC 2.|Nanos-type.				anti-apoptosis|germ cell development|multicellular organismal development|oogenesis|regulation of cell cycle|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|nucleus|stress granule	RNA binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			CGGCGCCACACGTGAGCGCGC	0.657													12	26					0	0	1	0	0		T	13988417	T	T	13988417	3	4	190	1	0	0	0	0	1	0	0	0	10171	536	19	1	357	1	NANOS3	19	13988417	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1048716	13988417	45140566	1265	95418											
IL27RA	9466	broad.mit.edu	37	chr19	14163010	14163010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagcccgcccaggccaccGccccgcttgactctgggtat	5	6	10	20	3	1	1	0	1	1	0	1	1	1	1	7	2	1	2	7	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:14163010G>A	uc002mxx.2	+	14	2242	c.1819G>A	c.(1819-1821)GCC>ACC	p.A607T		NM_004843	NP_004834	Q6UWB1	I27RA_HUMAN	class I cytokine receptor precursor	607	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|immune response	integral to plasma membrane	transmembrane receptor activity				0						CCAGGCCACCGCCCCGCTTGA	0.667													3	12					0	0	1	0	0		A	14163010	A	A	14163010	3	1	190	1	0	0	0	0	1	0	0	0	7697	1087	38	1	1873	1	IL27RA	19	14163010	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	174593	14163010	44965973	1266	95419											
AKAP8L	26993	broad.mit.edu	37	chr19	15512127	15512127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagaagagggagggcagcCgagaggcaccagacatgcac	13	1	18	9	1	0	4	0	0	0	4	0	7	0	5	2	4	2	3	2	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:15512127C>T	uc002naw.1	-	5	749	c.650G>A	c.(649-651)CGG>CAG	p.R217Q	AKAP8L_uc002nax.1_RNA|AKAP8L_uc010xoh.1_Missense_Mutation_p.R156Q|AKAP8L_uc002nay.1_Missense_Mutation_p.R217Q|AKAP8L_uc002naz.2_Missense_Mutation_p.R65Q	NM_014371	NP_055186	Q9ULX6	AKP8L_HUMAN	A kinase (PRKA) anchor protein 8-like	217						cytoplasm|nuclear matrix	DEAD/H-box RNA helicase binding|DNA binding|zinc ion binding			ovary(1)	1						GGAGGGCAGCCGAGAGGCACC	0.692													6	72					0	0	1	0	0		T	15512127	T	T	15512127	3	4	190	1	0	0	0	0	1	0	0	0	458	652	23	1	1330	1	AKAP8L	19	15512127	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1349117	15512127	43616856	1267	95420											
TPM4	7171	broad.mit.edu	37	chr19	16199871	16199873	+	In_Frame_Del	DEL	GAA	-	-																															gcagaaaatgtggtgacctgGaagaagaactcaagaatgtt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:16199871_16199873delGAA	uc002ndj.2	+	5	713_715	c.472_474delGAA	c.(472-474)GAAdel	p.E160del	TPM4_uc002ndi.2_In_Frame_Del_p.E196del|TPM4_uc002ndk.1_In_Frame_Del_p.E70del	NM_003290	NP_003281	P67936	TPM4_HUMAN	tropomyosin 4 isoform 2	160	By similarity.				cellular component movement|muscle filament sliding|response to oxidative stress	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding|calcium ion binding|structural constituent of muscle		TPM4/ALK(12)	soft_tissue(10)|haematopoietic_and_lymphoid_tissue(2)|breast(1)	13						TGGTGACCTGGAAGAAGAACTCA	0.433			T	ALK	ALCL						OREG0025329	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	57	---	---	---	---						.	-	16199873	-	-	16199871	7	5	190	1	0	1	0	1	0	0	0	0	16434	1175	41	0	738	0	TPM4	19	16199871	In_Frame_Del	DEL	GAA	TCGA-F1-6177-01A-11D-1800-08	687744	16199871	42929112	1268	95421											
NWD1	284434	broad.mit.edu	37	chr19	16910892	16910892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaccgcaccggcctcaccGcagtgtcccacaatggaagc	9	5	11	16	3	1	0	1	0	0	0	2	2	2	2	5	3	1	2	5	3	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:16910892G>A	uc002neu.3	+	17	4077	c.3655G>A	c.(3655-3657)GCA>ACA	p.A1219T	NWD1_uc002net.3_Missense_Mutation_p.A1084T|NWD1_uc002nev.3_Missense_Mutation_p.A1013T			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1219	WD 10.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CGGCCTCACCGCAGTGTCCCA	0.512													42	48					0	0	1	0	0		A	16910892	A	A	16910892	3	1	190	1	0	0	0	0	1	0	0	0	10800	1087	38	1	3300	1	NWD1	19	16910892	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	711021	16910892	42218091	1269	95422											
SIN3B	23309	broad.mit.edu	37	chr19	16989157	16989157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtgttcatcgtgaactccGaggactacatgtaccgtcgc	8	11	11	11	4	1	1	1	1	0	0	4	3	2	2	2	2	3	2	2	2	3	3	rs138372644	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:16989157G>A	uc002ney.1	+	19	3228	c.3214G>A	c.(3214-3216)GAG>AAG	p.E1072K	SIN3B_uc002nez.1_Missense_Mutation_p.E1040K|SIN3B_uc010xpi.1_Missense_Mutation_p.E630K|SIN3B_uc010eaj.1_Missense_Mutation_p.E8K	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	1072					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						CGTGAACTCCGAGGACTACAT	0.662													11	17					0	0	1	0	0		A	16989157	A	A	16989157	3	1	190	1	0	0	0	0	1	0	0	0	14351	1059	37	1	3288	1	SIN3B	19	16989157	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	78265	16989157	42139826	1270	95423											
HAUS8	93323	broad.mit.edu	37	chr19	17186232	17186232	+	Frame_Shift_Del	DEL	T	-	-																															tcgccccgaggaatccgccaTtttcccgccttccacctcaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:17186232delT	uc002nfe.2	-	1	112	c.1delA	c.(1-3)ATGfs	p.M1fs	HAUS8_uc002nff.2_Frame_Shift_Del_p.M1fs|HAUS8_uc002nfg.1_Translation_Start_Site|HAUS8_uc002nfh.1_Frame_Shift_Del_p.M1fs|MYO9B_uc002nfi.2_5'Flank|MYO9B_uc010eak.2_5'Flank	NM_033417	NP_219485	Q9BT25	HAUS8_HUMAN	sarcoma antigen NY-SAR-48 isoform a	1					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle pole					0						GAATCCGCCATTTTCCCGCCT	0.657													15	28	---	---	---	---						.	-	17186232	-	-	17186232	7	5	190	1	0	1	0	1	0	0	0	0	6988	1493	52	0	1275	0	HAUS8	19	17186232	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	197075	17186232	41942751	1271	95424											
OCEL1	79629	broad.mit.edu	37	chr19	17338803	17338803	+	Frame_Shift_Del	DEL	C	-	-																															tgctgagctccctgcccccaCcccaaagccaggtcagcact																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:17338803delC	uc002nfp.2	+	4	609	c.607delC	c.(607-609)CCCfs	p.P203fs		NM_024578	NP_078854	Q9H607	OCEL1_HUMAN	occludin/ELL domain containing 1	203										central_nervous_system(1)	1						CCTGCCCCCACCCCAAAGCCA	0.647													30	32	---	---	---	---						.	-	17338803	-	-	17338803	7	5	190	1	0	1	0	1	0	0	0	0	10835	507	18	0	621	0	OCEL1	19	17338803	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	152571	17338803	41790180	1272	95425											
SLC27A1	376497	broad.mit.edu	37	chr19	17608192	17608192	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatctgggaggagttcacGgagcgcttcggcgtacgcca	7	7	15	12	5	2	0	1	0	1	0	3	3	2	3	2	4	2	3	2	4	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:17608192G>A	uc002ngu.1	+	7	1175	c.1125G>A	c.(1123-1125)ACG>ACA	p.T375T	SLC27A1_uc002ngt.1_Silent_p.T107T|SLC27A1_uc010xpp.1_Silent_p.T196T|SLC27A1_uc002ngv.1_5'UTR	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	375	Sufficient for oligomerization (By similarity).|Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						AGGAGTTCACGGAGCGCTTCG	0.682													16	18					0	0	1	0	0		A	17608192	A	A	17608192	2	1	190	1	0	0	0	0	0	0	0	1	14550	1103	39	1		1	SLC27A1	19	17608192	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	269389	17608192	41520791	1273	95426											
GLT25D1	79709	broad.mit.edu	37	chr19	17679462	17679462	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggccttctacccacctcacCctgactacacctggtccttt	6	12	5	18	0	2	1	1	1	1	0	3	1	3	1	6	2	2	0	6	2	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:17679462C>A	uc002nhc.1	+	5	781	c.769C>A	c.(769-771)CCT>ACT	p.P257T	GLT25D1_uc010eax.1_Missense_Mutation_p.P25T	NM_024656	NP_078932	Q8NBJ5	GT251_HUMAN	glycosyltransferase 25 domain containing 1	257					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity				0						CCCACCTCACCCTGACTACAC	0.607													28	40					6.12954e-19	6.57428e-19	1	1	0		A	17679462	A	A	17679462	3	1	190	1	0	0	0	0	1	0	0	0	6481	623	22	5	787	5	GLT25D1	19	17679462	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	71270	17679462	41449521	1274	95427											
UNC13A	23025	broad.mit.edu	37	chr19	17768952	17768952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggagcccaggggtggtgggCgaacagaatattggtggact	9	7	19	6	1	0	1	0	0	0	1	0	4	0	3	1	7	2	0	1	7	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:17768952C>T	uc002nhd.2	-	10	950	c.950G>A	c.(949-951)CGC>CAC	p.R317H		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	229					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GGGTGGTGGGCGAACAGAATA	0.572													7	16					0	0	1	0	0		T	17768952	T	T	17768952	3	4	190	1	0	0	0	0	1	0	0	0	17010	768	27	1	4561	1	UNC13A	19	17768952	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	89490	17768952	41360031	1275	95428											
GDF15	9518	broad.mit.edu	37	chr19	18499542	18499542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaagtgaccatgtgcatcGgcgcgtgcccgagccagttc	7	8	13	13	4	0	1	0	1	0	0	2	2	0	1	3	1	4	3	3	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:18499542G>A	uc002niv.2	+	2	756	c.724G>A	c.(724-726)GGC>AGC	p.G242S		NM_004864	NP_004855	Q99988	GDF15_HUMAN	growth differentiation factor 15	242					cell-cell signaling|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			central_nervous_system(1)	1						CATGTGCATCGGCGCGTGCCC	0.687											OREG0025363	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	6					0	0	1	0	0		A	18499542	A	A	18499542	3	1	190	1	0	0	0	0	1	0	0	0	6328	1116	39	1	730	1	GDF15	19	18499542	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	730590	18499542	40629441	1276	95429											
SFRS14	10147	broad.mit.edu	37	chr19	19115218	19115218	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccatcctcatcgtcctcGtcctcctcctcaggcatcac	5	10	4	22	2	3	0	3	0	0	0	10	0	8	0	7	1	0	1	7	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:19115218G>C	uc002nkx.2	-	7	2834	c.2688C>G	c.(2686-2688)GAC>GAG	p.D896E	SFRS14_uc002nkz.1_Missense_Mutation_p.D910E|SFRS14_uc002nla.1_Missense_Mutation_p.D896E|SFRS14_uc002nlb.2_Missense_Mutation_p.D896E|SFRS14_uc010xqk.1_Missense_Mutation_p.D665E	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	896	Asp/Glu-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			catcgtcctcgtcctcctcct	0.567													22	23					0	0	1	0	0		C	19115218	C	C	19115218	3	2	190	1	0	0	0	0	1	0	0	0	14195	1136	40	5	576	5	SFRS14	19	19115218	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	615676	19115218	40013765	1277	95430											
SLC25A42	284439	broad.mit.edu	37	chr19	19206971	19206971	+	Missense_Mutation	SNP	A	G	G	1	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	ggaaggcccggtgcgattgcAtgaggatgctgaggctgtcc	7	8	17	9	2	0	2	0	2	0	0	1	5	1	4	2	5	3	3	2	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:19206971A>G	uc002nlf.1	+	2	189	c.38A>G	c.(37-39)CAT>CGT	p.H13R	SLC25A42_uc010xqn.1_Missense_Mutation_p.H65R	NM_178526	NP_848621	Q86VD7	S2542_HUMAN	solute carrier family 25, member 42	13					transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.4e-06)|Epithelial(12;0.000497)			GTGCGATTGCATGAGGATGCT	0.622													12	18					0	0	1	0	0		G	19206971	G	G	19206971	3	3	190	1	0	0	0	0	1	0	0	0	14532	217	8	3	40	3	SLC25A42	19	19206971	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	91753	19206971	39922012	1278	95431											
TMEM161A	54929	broad.mit.edu	37	chr19	19231610	19231610	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtgtgcagttgagggtgaGgatgagcggcgtcaggtact	9	9	18	5	2	1	3	1	3	0	0	1	4	1	4	0	4	3	3	0	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:19231610G>T	uc002nlg.2	-	11	1180	c.1150C>A	c.(1150-1152)CTC>ATC	p.L384I	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.L359I|TMEM161A_uc002nli.2_Missense_Mutation_p.L281I|TMEM161A_uc002nlj.2_Missense_Mutation_p.L259I	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	384	Helical; (Potential).				cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			TTGAGGGTGAGGATGAGCGGC	0.607													28	58					1.13719e-10	1.19565e-10	1	1	0		T	19231610	T	T	19231610	3	4	190	1	0	0	0	0	1	0	0	0	16101	1000	35	5	297	5	TMEM161A	19	19231610	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	24639	19231610	39897373	1279	95432											
MEF2B	100271849	broad.mit.edu	37	chr19	19260102	19260102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgtgtacttcagcagcacaCggtccatgtccgtgctggca	7	10	11	13	2	1	0	1	0	0	0	3	0	3	0	2	2	4	5	2	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:19260102C>T	uc002nlm.2	-	3	305	c.191G>A	c.(190-192)CGT>CAT	p.R64H	MEF2B_uc002nln.2_Missense_Mutation_p.R111H|MEF2B_uc002nll.2_Missense_Mutation_p.R64H|LOC729991-MEF2B_uc010xqo.1_Missense_Mutation_p.R64H|LOC729991-MEF2B_uc010xqp.1_Missense_Mutation_p.R64H|LOC729991-MEF2B_uc002nlo.2_Missense_Mutation_p.R64H|LOC729991-MEF2B_uc002nlp.2_Missense_Mutation_p.R64H|MEF2B_uc002nlk.2_Missense_Mutation_p.R64H	NM_001145785	NP_001139257			myocyte enhancer factor 2B isoform a											skin(1)	1			OV - Ovarian serous cystadenocarcinoma(5;0.00011)|Epithelial(12;0.00412)			CAGCAGCACACGGTCCATGTC	0.592													19	32					0	0	1	0	0		T	19260102	T	T	19260102	3	4	190	1	0	0	0	0	1	0	0	0	9474	536	19	1	943	1	MEF2B	19	19260102	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	28492	19260102	39868881	1280	95433											
NR2C2AP	126382	broad.mit.edu	37	chr19	19313841	19313841	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagactcttacctgctcactGtctctggacaaaccaaagag	12	9	7	13	0	3	2	1	0	2	2	4	3	3	3	2	1	3	1	2	1	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:19313841G>A	uc002nlx.2	-	1	398	c.29C>T	c.(28-30)ACA>ATA	p.T10I	NR2C2AP_uc010xqq.1_5'Flank|NR2C2AP_uc002nly.2_Missense_Mutation_p.T10I	NM_176880	NP_795361	Q86WQ0	NR2CA_HUMAN	TR4 orphan receptor associated protein TRA16	10					cell adhesion|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm				ovary(1)	1			Epithelial(12;0.00235)			CCTGCTCACTGTCTCTGGACA	0.463													22	27					0	0	1	0	0		A	19313841	A	A	19313841	3	1	190	1	0	0	0	0	1	0	0	0	10643	1377	48	4	410	4	NR2C2AP	19	19313841	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	53739	19313841	39815142	1281	95434											
NCAN	1463	broad.mit.edu	37	chr19	19329894	19329894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggataaagtggaccaaggtgCggactgcgtcgggccagcga	10	5	17	9	4	0	0	0	0	0	0	1	4	0	3	2	5	3	0	2	5	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:19329894C>T	uc002nlz.2	+	3	343	c.244C>T	c.(244-246)CGG>TGG	p.R82W		NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	82	Ig-like V-type.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GACCAAGGTGCGGACTGCGTC	0.652													11	17					0	0	1	0	0		T	19329894	T	T	19329894	3	4	190	1	0	0	0	0	1	0	0	0	10223	759	27	1	250	1	NCAN	19	19329894	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	16053	19329894	39799089	1282	95435											
CILP2	148113	broad.mit.edu	37	chr19	19655681	19655681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcttctccgccaacccccGtgcctggggccgctttgaca	4	8	11	18	4	1	1	0	1	1	0	2	1	1	1	6	3	2	2	6	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:19655681G>A	uc002nmv.3	+	8	2412	c.2327G>A	c.(2326-2328)CGT>CAT	p.R776H	CILP2_uc002nmw.3_Missense_Mutation_p.R782H	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	776						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GCCAACCCCCGTGCCTGGGGC	0.711													8	9					0	0	1	0	0		A	19655681	A	A	19655681	3	1	190	1	0	0	0	0	1	0	0	0	3433	1145	40	1	2357	1	CILP2	19	19655681	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	325787	19655681	39473302	1283	95436											
ZNF90	7643	broad.mit.edu	37	chr19	20235921	20235921	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagacagccacagctgtggcGcactgcagacgcggcaatgg	11	4	14	12	3	0	2	0	0	0	2	0	2	0	2	1	3	3	4	1	3	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:20235921G>A	uc002nos.1	+	5		c.597G>A			ZNF90_uc002not.1_RNA			Q03938	ZNF90_HUMAN	Synthetic construct DNA, clone: pF1KB9685, Homo sapiens ZNF90 gene for zinc finger protein 90, without stop codon, in Flexi system.							Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CAGCTGTGGCGCACTGCAGAC	0.617													4	16					0	0	1	0	0		A	20235921	A	A	20235921	1	1	190	0	1	0	0	0	0	0	0	0	18224	1102	38	1		1	ZNF90	19	20235921	RNA	SNP	G	TCGA-F1-6177-01A-11D-1800-08	580240	20235921	38893062	1284	95437											
ZNF85	7639	broad.mit.edu	37	chr19	21132705	21132705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtgaaaaatgtggcaaagCttttaaccagtcctcaaatc	15	11	7	8	0	1	1	1	1	0	0	3	1	2	1	2	1	2	2	2	1	5	2	rs140408195		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:21132705C>T	uc002npg.3	+	4	1512	c.1385C>T	c.(1384-1386)GCT>GTT	p.A462V	ZNF85_uc010ecn.2_Missense_Mutation_p.A397V|ZNF85_uc010eco.2_Missense_Mutation_p.A410V|ZNF85_uc002npi.2_Missense_Mutation_p.A403V	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	462	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TGTGGCAAAGCTTTTAACCAG	0.338													4	20					0	0	1	0	0		T	21132705	T	T	21132705	3	4	190	1	0	0	0	0	1	0	0	0	18218	797	28	2	1399	2	ZNF85	19	21132705	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	896784	21132705	37996278	1285	95438											
ZNF43	7594	broad.mit.edu	37	chr19	21991748	21991748	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatagaatttctctgcagtaTggattctcttatgtgtagta	10	18	8	5	0	2	1	0	0	2	1	4	2	2	2	0	1	1	4	0	1	7	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:21991748T>C	uc002nqj.2	-	4	1221	c.1091A>G	c.(1090-1092)CAT>CGT	p.H364R	ZNF43_uc010ecv.2_Missense_Mutation_p.H358R|ZNF43_uc002nql.2_Missense_Mutation_p.H358R|ZNF43_uc002nqm.2_Missense_Mutation_p.H358R|ZNF43_uc002nqk.2_Missense_Mutation_p.H294R	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	364	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		CTCTGCAGTATGGATTCTCTT	0.363													37	50					0	0	1	0	0		C	21991748	C	C	21991748	3	2	190	1	0	0	0	0	1	0	0	0	17928	1464	51	3	1342	3	ZNF43	19	21991748	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	859043	21991748	37137235	1286	95439											
TSHZ3	57616	broad.mit.edu	37	chr19	31767688	31767688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacagtttggataagtccCgtagccggaagcctaagtgt	10	10	13	8	2	0	0	0	0	0	0	1	3	1	3	3	3	2	2	3	3	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:31767688C>T	uc002nsy.3	-	2	3076	c.3011G>A	c.(3010-3012)CGG>CAG	p.R1004Q		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	1004					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GGATAAGTCCCGTAGCCGGAA	0.507													28	31					0	0	1	0	0		T	31767688	T	T	31767688	3	4	190	1	0	0	0	0	1	0	0	0	16651	652	23	1	238	1	TSHZ3	19	31767688	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	9775940	31767688	27361295	1287	95440											
PEPD	5184	broad.mit.edu	37	chr19	33984235	33984235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcttctgtgacgtcaggacGctggcaatctagaaggtcgg	8	9	15	9	3	3	2	1	1	2	1	4	3	3	3	0	5	0	3	0	5	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:33984235G>A	uc002nur.3	-	5	537	c.402C>T	c.(400-402)AGC>AGT	p.S134S	PEPD_uc010xrr.1_Silent_p.S134S|PEPD_uc010xrs.1_Silent_p.S70S	NM_000285	NP_000276	P12955	PEPD_HUMAN	prolidase isoform 1	134					cellular amino acid metabolic process|collagen catabolic process|proteolysis		aminopeptidase activity|dipeptidase activity|manganese ion binding|metallocarboxypeptidase activity			ovary(2)	2	Esophageal squamous(110;0.137)					ACGTCAGGACGCTGGCAATCT	0.522													9	20					0	0	1	0	0		A	33984235	A	A	33984235	2	1	190	1	0	0	0	0	0	0	0	1	11747	1078	38	1		1	PEPD	19	33984235	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2216547	33984235	25144748	1288	95441											
KIAA0355	9710	broad.mit.edu	37	chr19	34833300	34833300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaataacacctggcccaacCgtgaccaaagtgatggagtc	14	6	10	11	1	0	2	0	2	0	0	1	4	0	3	4	2	2	0	4	2	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:34833300C>T	uc002nvd.3	+	10	3320	c.2461C>T	c.(2461-2463)CGT>TGT	p.R821C		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	821										ovary(1)	1	Esophageal squamous(110;0.162)					CTGGCCCAACCGTGACCAAAG	0.522													16	145					0	0	1	0	0		T	34833300	T	T	34833300	3	4	190	1	0	0	0	0	1	0	0	0	8186	652	23	1	2495	1	KIAA0355	19	34833300	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	849065	34833300	24295683	1289	95442											
UBA2	10054	broad.mit.edu	37	chr19	34942896	34942896	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttctttaggagaagaaacGaatgcatcagatcaacagaa	17	10	8	6	1	3	4	2	0	1	4	3	6	3	4	0	1	3	1	0	1	6	4	rs146405147	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:34942896G>A	uc002nvk.2	+	10	952	c.882G>A	c.(880-882)ACG>ACA	p.T294T	UBA2_uc010xrx.1_Silent_p.T167T|UBA2_uc002nvl.2_Silent_p.T198T	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	294					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GAGAAGAAACGAATGCATCAG	0.368													18	26					0	0	1	0	0		A	34942896	A	A	34942896	2	1	190	1	0	0	0	0	0	0	0	1	16854	1045	37	1		1	UBA2	19	34942896	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	109596	34942896	24186087	1290	95443											
FFAR2	2867	broad.mit.edu	37	chr19	35940790	35940790	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgctggccgacctcctcctGctgctgctgctgcccttcaa	4	10	9	18	2	1	0	1	0	0	0	3	1	3	0	5	1	5	5	5	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:35940790G>C	uc002nzg.2	+	2	254	c.174G>C	c.(172-174)CTG>CTC	p.L58L	FFAR2_uc010eea.2_Silent_p.L58L	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	58	Helical; Name=2; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			ACCTCCTCCTGCTGCTGCTGC	0.647													14	18					0	0	1	0	0		C	35940790	C	C	35940790	2	2	190	1	0	0	0	0	0	0	0	1	5842	1306	46	5		5	FFAR2	19	35940790	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	997894	35940790	23188193	1291	95444											
MLL4	9757	broad.mit.edu	37	chr19	36210763	36210764	+	Frame_Shift_Ins	INS	-	C	C																															cctagcagatgtggctcctaINScccccccaaagacccctgcc																								rs60207923	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:36210763_36210764insC	uc010eei.2	+	3	514_515	c.514_515insC	c.(514-516)ACCfs	p.T172fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	172					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGTGGCTCCTACCCCCCCAAAG	0.634													30	47	---	---	---	---						.	C	36210764	C	C	36210763	7	5	190	1	0	1	1	0	0	0	0	0	9641	391	14	0	524	0	MLL4	19	36210763	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	269973	36210763	22918220	1292	95445											
ARHGAP33	115703	broad.mit.edu	37	chr19	36271872	36271872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctgctccgcaccttcatgCgctcccgcccttctcggcag	3	9	9	20	4	2	0	1	0	1	0	5	0	4	0	5	1	2	4	5	1	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:36271872C>T	uc002obr.1	+	11	965	c.880C>T	c.(880-882)CGC>TGC	p.R294C	ARHGAP33_uc002obs.1_Missense_Mutation_p.R294C|ARHGAP33_uc002obt.1_Missense_Mutation_p.R158C|ARHGAP33_uc010eel.2_5'Flank|ARHGAP33_uc002obv.1_5'Flank	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	294					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CACCTTCATGCGCTCCCGCCC	0.667													25	33					0	0	1	0	0		T	36271872	T	T	36271872	3	4	190	1	0	0	0	0	1	0	0	0	882	768	27	1	922	1	ARHGAP33	19	36271872	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	61109	36271872	22857111	1293	95446											
NPHS1	4868	broad.mit.edu	37	chr19	36340038	36340038	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccccacgctgtggacacCggctggccattctggagaca	7	7	13	14	2	1	1	0	0	1	1	1	3	1	2	4	4	1	2	4	4	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:36340038C>T	uc002oby.2	-	8	852	c.852G>A	c.(850-852)CCG>CCA	p.P284P		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	284	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	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)			CTGTGGACACCGGCTGGCCAT	0.677													24	32					0	0	1	0	0		T	36340038	T	T	36340038	2	4	190	1	0	0	0	0	0	0	0	1	10601	639	23	1		1	NPHS1	19	36340038	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	68166	36340038	22788945	1294	95447											
ZFP30	22835	broad.mit.edu	37	chr19	38126847	38126847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctgatgtcgactgaggtgggCacactgtctaaaggcttttc	8	12	12	9	1	1	2	0	2	1	0	3	3	1	2	0	3	0	2	0	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:38126847C>T	uc002ogv.1	-	6	1111	c.595G>A	c.(595-597)GCC>ACC	p.A199T	ZFP30_uc002ogw.1_Missense_Mutation_p.A199T|ZFP30_uc002ogx.1_Missense_Mutation_p.A199T|ZFP30_uc010xtt.1_Missense_Mutation_p.A198T	NM_014898	NP_055713	Q9Y2G7	ZFP30_HUMAN	zinc finger protein 30 homolog	199	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTGAGGTGGGCACACTGTCTA	0.393													48	93					0	0	1	0	0		T	38126847	T	T	38126847	3	4	190	1	0	0	0	0	1	0	0	0	17669	710	25	2	968	2	ZFP30	19	38126847	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1786809	38126847	21002136	1295	95448											
SIPA1L3	23094	broad.mit.edu	37	chr19	38610116	38610116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccatggccaccaggacccGccaggagtatctcaaggacc	11	4	10	16	1	1	0	1	0	1	0	2	3	1	3	6	4	0	1	6	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:38610116G>A	uc002ohk.2	+	9	2971	c.2462G>A	c.(2461-2463)CGC>CAC	p.R821H		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	821	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			ACCAGGACCCGCCAGGAGTAT	0.552													33	41					0	0	1	0	0		A	38610116	A	A	38610116	3	1	190	1	0	0	0	0	1	0	0	0	14356	1087	38	1	2488	1	SIPA1L3	19	38610116	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	483269	38610116	20518867	1296	95449											
GGN	199720	broad.mit.edu	37	chr19	38877383	38877383	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcagaaggtaatggtggtggCggcttccaagtctccagggg	8	9	16	8	1	2	1	1	0	1	1	4	1	3	1	2	7	0	2	2	7	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:38877383C>T	uc002oij.1	-	3	654	c.519G>A	c.(517-519)CCG>CCA	p.P173P	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Silent_p.P90P	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	173	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ATGGTGGTGGCGGCTTCCAAG	0.687													8	21					0	0	1	0	0		T	38877383	T	T	38877383	2	4	190	1	0	0	0	0	0	0	0	1	6373	755	27	1		1	GGN	19	38877383	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	267267	38877383	20251600	1297	95450											
MAP4K1	11184	broad.mit.edu	37	chr19	39104547	39104547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgtcccaatgaaagagaggCgtctggccagtgtagcccca	10	7	13	11	1	1	2	0	1	1	1	2	3	2	2	4	2	1	1	4	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:39104547C>T	uc002oix.1	-	8	614	c.506G>A	c.(505-507)CGC>CAC	p.R169H	MAP4K1_uc002oiy.1_Missense_Mutation_p.R169H|MAP4K1_uc010xug.1_5'UTR	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	169	Protein kinase.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAAAGAGAGGCGTCTGGCCAG	0.622													14	13					0	0	1	0	0		T	39104547	T	T	39104547	3	4	190	1	0	0	0	0	1	0	0	0	9277	768	27	1	2157	1	MAP4K1	19	39104547	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	227164	39104547	20024436	1298	95451											
NFKBIB	4793	broad.mit.edu	37	chr19	39398124	39398124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcttctcctgagggcaggcgCgaaccctgctgcccgcatgt	5	8	13	15	3	1	1	0	1	1	0	2	2	1	1	3	2	3	4	3	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:39398124C>T	uc002ojw.2	+	5	852	c.794C>T	c.(793-795)GCG>GTG	p.A265V	NFKBIB_uc002ojx.2_Missense_Mutation_p.A233V|NFKBIB_uc002ojy.2_Missense_Mutation_p.A265V	NM_002503	NP_002494	Q15653	IKBB_HUMAN	nuclear factor of kappa light polypeptide gene	265	ANK 5.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleus	protein binding|signal transducer activity|transcription coactivator activity			lung(1)|kidney(1)	2	all_cancers(60;4.39e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AGGGCAGGCGCGAACCCTGCT	0.706													23	49					0	0	1	0	0		T	39398124	T	T	39398124	3	4	190	1	0	0	0	0	1	0	0	0	10397	768	27	1	812	1	NFKBIB	19	39398124	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	293577	39398124	19730859	1299	95452											
PAK4	10298	broad.mit.edu	37	chr19	39664319	39664319	+	Frame_Shift_Del	DEL	C	-	-																															tcccacccgagcccgaggtgCccccagccctggagtgctgg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:39664319delC	uc002okj.1	+	6	1228	c.767delC	c.(766-768)GCCfs	p.A256fs	PAK4_uc002okl.1_Frame_Shift_Del_p.A256fs|PAK4_uc002okn.1_Frame_Shift_Del_p.A256fs|PAK4_uc002okm.1_Frame_Shift_Del_p.A103fs|PAK4_uc002oko.1_Frame_Shift_Del_p.A103fs|PAK4_uc002okp.1_Frame_Shift_Del_p.A166fs	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	256	Linker.				cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			GCCCGAGGTGCCCCCAGCCCT	0.756													6	9	---	---	---	---						.	-	39664319	-	-	39664319	7	5	190	1	0	1	0	1	0	0	0	0	11422	739	26	0	777	0	PAK4	19	39664319	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	266195	39664319	19464664	1300	95453											
PAK4	10298	broad.mit.edu	37	chr19	39667343	39667343	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctcatctcccgccttccCtacgggccagaggtgagccc	6	7	11	17	2	2	2	1	1	1	1	4	3	3	2	5	2	3	1	5	2	1	2	rs138564503		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:39667343C>A	uc002okj.1	+	9	1934	c.1473C>A	c.(1471-1473)CCC>CCA	p.P491P	PAK4_uc002okl.1_Silent_p.P491P|PAK4_uc002okn.1_Silent_p.P491P|PAK4_uc002okm.1_Silent_p.P338P|PAK4_uc002oko.1_Silent_p.P338P|PAK4_uc002okp.1_Silent_p.P401P	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	491	Protein kinase.				cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			CCCGCCTTCCCTACGGGCCAG	0.667													42	74					1.22674e-20	1.31954e-20	1	1	0		A	39667343	A	A	39667343	2	1	190	1	0	0	0	0	0	0	0	1	11422	668	24	5		5	PAK4	19	39667343	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3024	39667343	19461640	1301	95454											
FBL	2091	broad.mit.edu	37	chr19	40328360	40328360	+	Missense_Mutation	SNP	T	C	C	0	1	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	agacccctcaccgatgagcaTgcggtatttgtgtgggtgtc	7	11	13	10	2	1	2	1	1	0	1	2	3	1	2	3	2	2	2	3	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:40328360T>C	uc002omn.2	-	6	787	c.673A>G	c.(673-675)ATG>GTG	p.M225V	FBL_uc002omm.1_Missense_Mutation_p.M139V|FBL_uc002omo.2_Missense_Mutation_p.M224V	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	225					rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	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)		CCGATGAGCATGCGGTATTTG	0.582													37	40					0	0	1	0	0		C	40328360	C	C	40328360	3	2	190	1	0	0	0	0	1	0	0	0	5710	1464	51	3	308	3	FBL	19	40328360	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	661017	40328360	18800623	1302	95455											
PLD3	23646	broad.mit.edu	37	chr19	40882619	40882619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacactcggagccatccatgCgggccttcctgctctctctg	5	10	10	16	2	2	0	0	0	2	0	6	2	4	1	4	2	3	1	4	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:40882619C>T	uc002onm.3	+	11	1521	c.1123C>T	c.(1123-1125)CGG>TGG	p.R375W	PLD3_uc002onj.3_Missense_Mutation_p.R375W|PLD3_uc002onk.3_Missense_Mutation_p.R375W|PLD3_uc002onl.3_Missense_Mutation_p.R375W|PLD3_uc002onn.2_Missense_Mutation_p.R375W	NM_001031696	NP_001026866	Q8IV08	PLD3_HUMAN	phospholipase D3	375	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum membrane|integral to membrane	NAPE-specific phospholipase D activity|phospholipase D activity|protein binding			skin(2)|ovary(1)	3			Lung(22;0.000636)|LUSC - Lung squamous cell carcinoma(20;0.00248)			GCCATCCATGCGGGCCTTCCT	0.647													19	45					0	0	1	0	0		T	40882619	T	T	40882619	3	4	190	1	0	0	0	0	1	0	0	0	12066	759	27	1	1157	1	PLD3	19	40882619	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	554259	40882619	18246364	1303	95456											
SERTAD3	29946	broad.mit.edu	37	chr19	40947898	40947898	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatgcggagcagggcttgCtggtagctctgaaggcctgc	7	8	17	9	1	1	2	0	1	1	1	1	4	1	3	1	4	5	5	1	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:40947898C>A	uc002onu.3	-	2	368	c.90G>T	c.(88-90)CAG>CAT	p.Q30H	SERTAD3_uc002onv.3_Missense_Mutation_p.Q30H	NM_013368	NP_037500	Q9UJW9	SRTD3_HUMAN	RPA-binding trans-activator	30	SERTA.				negative regulation of cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCAGGGCTTGCTGGTAGCTCT	0.597													6	10					0.00116845	0.0011827	1	1	0		A	40947898	A	A	40947898	3	1	190	1	0	0	0	0	1	0	0	0	14147	796	28	5	504	5	SERTAD3	19	40947898	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	65279	40947898	18181085	1304	95457											
SPTBN4	57731	broad.mit.edu	37	chr19	41008724	41008724	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgagcatgagcgggaggctGccctacgggctgagctgatt	7	8	16	10	2	0	4	0	4	0	0	0	5	0	5	1	3	5	4	1	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:41008724G>A	uc002ony.2	+	11	1332	c.1246G>A	c.(1246-1248)GCC>ACC	p.A416T	SPTBN4_uc002onx.2_Missense_Mutation_p.A416T|SPTBN4_uc002onz.2_Missense_Mutation_p.A416T	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	416	Spectrin 2.				actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCGGGAGGCTGCCCTACGGGC	0.577													10	105					0	0	1	0	0		A	41008724	A	A	41008724	3	1	190	1	0	0	0	0	1	0	0	0	15146	1319	46	2	1284	2	SPTBN4	19	41008724	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	60826	41008724	18120259	1305	95458											
CYP2B6	1555	broad.mit.edu	37	chr19	41510273	41510273	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaccactatgagggacttcGggatgggaaagcggagtgtg	10	8	17	6	2	0	2	0	2	0	0	1	6	0	6	1	4	1	0	1	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:41510273G>A	uc002opr.1	+	3	413	c.406G>A	c.(406-408)GGG>AGG	p.G136R	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Missense_Mutation_p.G96R	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	136					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	GAGGGACTTCGGGATGGGAAA	0.562													7	26					0	0	1	0	0		A	41510273	A	A	41510273	3	1	190	1	0	0	0	0	1	0	0	0	4167	1116	39	1	416	1	CYP2B6	19	41510273	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	501549	41510273	17618710	1306	95459											
CYP2B6	1555	broad.mit.edu	37	chr19	41522636	41522636	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagaacttctccatggcCagccccgtggccccagaaga	9	6	9	17	1	1	3	0	0	1	3	3	3	2	3	7	2	2	0	7	2	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:41522636C>T	uc002opr.1	+	9	1387	c.1380C>T	c.(1378-1380)GCC>GCT	p.A460A	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Silent_p.A260A	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	460					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	TCTCCATGGCCAGCCCCGTGG	0.577													21	21					0	0	1	0	0		T	41522636	T	T	41522636	2	4	190	1	0	0	0	0	0	0	0	1	4167	581	21	4		4	CYP2B6	19	41522636	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	12363	41522636	17606347	1307	95460											
CEACAM6	4680	broad.mit.edu	37	chr19	42260867	42260867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggacagttccatgtatacCgtgagtatttccacatgacc	10	11	8	12	2	0	2	0	2	0	0	2	3	2	3	5	1	1	3	5	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:42260867C>T	uc002orm.2	+	2	573	c.424C>T	c.(424-426)CCG>TCG	p.P142S		NM_002483	NP_002474	P40199	CEAM6_HUMAN	carcinoembryonic antigen-related cell adhesion	142	Ig-like V-type.				cell-cell signaling|signal transduction	anchored to membrane|integral to plasma membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(3;0.00575)|all cancers(3;0.0352)|Epithelial(262;0.0797)		CCATGTATACCGTGAGTATTT	0.488													79	184					0	0	1	0	0		T	42260867	T	T	42260867	3	4	190	1	0	0	0	0	1	0	0	0	3199	666	23	1	430	1	CEACAM6	19	42260867	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	738231	42260867	16868116	1308	95461											
CEACAM3	1084	broad.mit.edu	37	chr19	42301880	42301880	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacagttccatgtatacCgtgagtatttccacatgacc	10	12	8	11	1	0	2	0	2	0	0	2	3	2	3	4	1	1	3	4	1	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:42301880C>T	uc002orn.1	+	2	500	c.424C>T	c.(424-426)CAA>TAA	p.Q142*	CEACAM3_uc010eia.1_Nonsense_Mutation_p.Q142*|CEACAM3_uc002oro.1_RNA	NM_001815	NP_001806	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion	142	Ig-like V-type.|Extracellular (Potential).					integral to membrane				skin(1)	1						CCATGTATACCGTGAGTATTT	0.478													34	313					0	0	1	0	0		T	42301880	T	T	42301880	4	4	190	1	0	0	0	0	0	1	0	0	3196	666	23	1	430	1	CEACAM3	19	42301880	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	41013	42301880	16827103	1309	95462											
CIC	23152	broad.mit.edu	37	chr19	42794441	42794441	+	Frame_Shift_Del	DEL	C	-	-																															tcctcctttacccactgccgCcccccactggaccctgagcc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:42794441delC	uc002otf.1	+	10	1561	c.1521delC	c.(1519-1521)CGCfs	p.R507fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	507					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CCCACTGCCGCCCCCCACTGG	0.622			T	DUX4	soft tissue sarcoma								40	52	---	---	---	---						.	-	42794441	-	-	42794441	7	5	190	1	0	1	0	1	0	0	0	0	3427	726	26	0	1559	0	CIC	19	42794441	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	492561	42794441	16334542	1310	95463											
PRR19	284338	broad.mit.edu	37	chr19	42813800	42813800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaacctggtcgtgtccgtCgtcggaagactaggcgggaa	10	7	15	9	5	0	2	0	0	0	2	4	4	1	4	2	4	1	0	2	4	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:42813800C>T	uc002oti.2	+	2	442	c.64C>T	c.(64-66)CGT>TGT	p.R22C	PRR19_uc002oth.1_Missense_Mutation_p.R22C|PRR19_uc002otj.2_Missense_Mutation_p.R22C	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	22											0		Prostate(69;0.00682)				TCGTGTCCGTCGTCGGAAGAC	0.592													39	43					0	0	1	0	0		T	42813800	T	T	42813800	3	4	190	1	0	0	0	0	1	0	0	0	12613	884	31	1	66	1	PRR19	19	42813800	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	19359	42813800	16315183	1311	95464											
PSG7	5676	broad.mit.edu	37	chr19	43430100	43430100	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgccggtgggttagagtcCgcaaagcaggacaagtagag	11	7	16	7	2	0	2	0	0	0	2	1	3	1	3	2	3	2	4	2	3	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:43430100C>T	uc002ovl.3	-	6	1170	c.1068G>A	c.(1066-1068)GCG>GCA	p.A356A	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Silent_p.A269A|PSG7_uc002ous.1_RNA|PSG7_uc002out.1_Silent_p.A82A|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Silent_p.A269A|PSG7_uc010xwl.1_Silent_p.A234A	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	356	Ig-like C2-type 3.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				GGTTAGAGTCCGCAAAGCAGG	0.448													115	155					0	0	1	0	0		T	43430100	T	T	43430100	2	4	190	1	0	0	0	0	0	0	0	1	12682	639	23	1		1	PSG7	19	43430100	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	616300	43430100	15698883	1312	95465											
PSG7	5676	broad.mit.edu	37	chr19	43441204	43441204	+	Missense_Mutation	SNP	A	G	G	1	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	ccaggttatatgctgtgtgcAgggaggggctgagaggggcc	7	8	19	7	0	0	1	0	1	0	1	0	3	0	2	2	6	2	4	2	6	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:43441204A>G	uc002ovl.3	-	1	127	c.25T>C	c.(25-27)TGC>CGC	p.C9R	PSG3_uc002ouf.2_5'Flank|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Missense_Mutation_p.C9R	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	9					female pregnancy	extracellular region					0		Prostate(69;0.00682)				TGCTGTGTGCAGGGAGGGGCT	0.577													33	52					0	0	1	0	0		G	43441204	G	G	43441204	3	3	190	1	0	0	0	0	1	0	0	0	12682	188	7	3	1258	3	PSG7	19	43441204	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	11104	43441204	15687779	1313	95466											
XRCC1	7515	broad.mit.edu	37	chr19	44056299	44056300	+	Frame_Shift_Ins	INS	-	C	C																															accacaccctgaaggatcttINSccccagctcctctgggccag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:44056299_44056300insC	uc002owt.2	-	9	1071_1072	c.951_952insG	c.(949-954)GGGAAGfs	p.G317fs	XRCC1_uc010xwp.1_Frame_Shift_Ins_p.G286fs	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	317_318	BRCT 1.				base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				TGAAGGATCTTCCCCAGCTCCT	0.569								Other_BER_factors					25	52	---	---	---	---						.	C	44056300	C	C	44056299	7	5	190	1	0	1	1	0	0	0	0	0	17478	1792	62	0	985	0	XRCC1	19	44056299	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	615095	44056299	15072684	1314	95467											
PVRL2	5819	broad.mit.edu	37	chr19	45385573	45385573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgggcatccttatctgccGgcagcagcggaaggagcaga	10	5	14	12	3	1	1	0	0	1	1	2	3	2	3	2	4	4	4	2	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:45385573G>A	uc002ozw.1	+	6	1538	c.1148G>A	c.(1147-1149)CGG>CAG	p.R383Q		NM_001042724	NP_001036189	Q92692	PVRL2_HUMAN	poliovirus receptor related 2 isoform delta	383	Cytoplasmic (Potential).				adherens junction organization|adhesion to symbiont|cell junction assembly|homophilic cell adhesion|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity|viral envelope fusion with host membrane|virion attachment, binding of host cell surface coreceptor	cell surface|integral to membrane|zonula adherens	cell adhesion molecule binding|coreceptor activity|protein homodimerization activity				0	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)		CTTATCTGCCGGCAGCAGCGG	0.642													7	8					0	0	1	0	0		A	45385573	A	A	45385573	3	1	190	1	0	0	0	0	1	0	0	0	12865	1116	39	1	1572	1	PVRL2	19	45385573	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1329274	45385573	13743410	1315	95468											
VASP	7408	broad.mit.edu	37	chr19	46027364	46027364	+	Missense_Mutation	SNP	G	A	A																															cctatccccagaatctgtgcGgagaccctgggagaagaaca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:46027364G>A	uc002pcg.2	+	10	1262	c.920G>A	c.(919-921)CGG>CAG	p.R307Q	VASP_uc010eki.2_Missense_Mutation_p.R141Q|VASP_uc002pci.2_Missense_Mutation_p.R293Q	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	307	EVH2.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		GAATCTGTGCGGAGACCCTGG	0.413											OREG0025556	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	35					0	0	1	0	0		A	46027364	A	A	46027364	3	1	190	1	0	0	0	0	1	0	0	0	17154	1116	39	1	958	1	VASP	19	46027364	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	641791	46027364	13101619	1316	95469	180	2									
VASP	7408	broad.mit.edu	37	chr19	46027366	46027366	+	Silent	SNP	A	C	C																															tatccccagaatctgtgcggAgaccctgggagaagaacagc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:46027366A>C	uc002pcg.2	+	10	1264	c.922A>C	c.(922-924)AGA>CGA	p.R308R	VASP_uc010eki.2_Silent_p.R142R|VASP_uc002pci.2_Silent_p.R294R	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	308	EVH2.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		ATCTGTGCGGAGACCCTGGGA	0.413											OREG0025556	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	34					0	0	1	0	0		C	46027366	C	C	46027366	2	2	190	1	0	0	0	0	0	0	0	1	17154	296	11	5		5	VASP	19	46027366	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2	46027366	13101617	1317	95470	180	2									
FBXO46	23403	broad.mit.edu	37	chr19	46216376	46216376	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcttggccttggagctatcGctgccccagtgccccttgac	4	10	11	16	2	0	1	0	1	0	0	1	2	0	2	5	2	3	3	5	2	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:46216376G>A	uc002pcy.2	-	2	503	c.378C>T	c.(376-378)AGC>AGT	p.S126S	FBXO46_uc002pcz.2_Silent_p.S126S	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	126							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		TGGAGCTATCGCTGCCCCAGT	0.682													23	33					0	0	1	0	0		A	46216376	A	A	46216376	2	1	190	1	0	0	0	0	0	0	0	1	5769	1078	38	1		1	FBXO46	19	46216376	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	189010	46216376	12912607	1318	95471											
DMWD	1762	broad.mit.edu	37	chr19	46289337	46289337	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccacccctcgagctgctggCggccggtggcgtggtgccag	3	6	17	15	4	0	0	0	0	0	0	1	1	0	0	5	5	3	2	5	5	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:46289337C>T	uc002pdj.1	-	3	1463	c.1417G>A	c.(1417-1419)GCC>ACC	p.A473T	DMWD_uc002pdk.1_Missense_Mutation_p.A473T|DMWD_uc010eko.1_Missense_Mutation_p.A158T	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	473					meiosis						0		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)		GAGCTGCTGGCGGCCGGTGGC	0.741													3	5					0	0	1	0	0		T	46289337	T	T	46289337	3	4	190	1	0	0	0	0	1	0	0	0	4599	768	27	1	619	1	DMWD	19	46289337	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	72961	46289337	12839646	1319	95472											
PPP5C	5536	broad.mit.edu	37	chr19	46857176	46857176	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggacaagaagtacatcaaggGttattaccgccgggctgcca	12	7	12	10	2	1	1	1	0	0	1	1	2	1	2	3	3	3	3	3	3	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:46857176G>A	uc002pem.2	+	2	353	c.293G>A	c.(292-294)GGT>GAT	p.G98D	PPP5C_uc010xya.1_Intron|PPP5C_uc002pen.2_Missense_Mutation_p.G98D	NM_006247	NP_006238	P53041	PPP5_HUMAN	protein phosphatase 5, catalytic subunit	98	TPR 3.				mitosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein dephosphorylation|transcription, DNA-dependent	Golgi apparatus|nucleus	metal ion binding|protein binding|protein serine/threonine phosphatase activity|signal transducer activity			lung(1)|pancreas(1)	2		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)		TACATCAAGGGTTATTACCGC	0.642													8	5					0	0	1	0	0		A	46857176	A	A	46857176	3	1	190	1	0	0	0	0	1	0	0	0	12428	1261	44	4	299	4	PPP5C	19	46857176	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	567839	46857176	12271807	1320	95473											
SLC1A5	6510	broad.mit.edu	37	chr19	47282088	47282088	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagaatgtacttgccaaggCgggcaaagagtaaacccaca	16	5	10	10	1	0	2	0	0	0	2	0	2	0	2	2	2	3	3	2	2	6	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:47282088C>T	uc002pfs.2	-	5	1522	c.902G>A	c.(901-903)CGC>CAC	p.R301H	SLC1A5_uc010xyh.1_Missense_Mutation_p.R99H|SLC1A5_uc002pfq.2_Missense_Mutation_p.R125H|SLC1A5_uc002pfr.2_Missense_Mutation_p.R73H	NM_005628	NP_005619	Q15758	AAAT_HUMAN	solute carrier family 1 member 5 isoform 1	301					cellular nitrogen compound metabolic process	integral to plasma membrane|melanosome|membrane fraction	neutral amino acid transmembrane transporter activity|protein binding|receptor activity|sodium:dicarboxylate symporter activity				0		all_epithelial(76;0.00314)|Ovarian(192;0.0798)|all_neural(266;0.107)		OV - Ovarian serous cystadenocarcinoma(262;0.000338)|all cancers(93;0.000882)|Epithelial(262;0.0211)|GBM - Glioblastoma multiforme(486;0.0341)	L-Asparagine(DB00174)|L-Glutamine(DB00130)	CTTGCCAAGGCGGGCAAAGAG	0.562													12	46					0	0	1	0	0		T	47282088	T	T	47282088	3	4	190	1	0	0	0	0	1	0	0	0	14460	768	27	1	739	1	SLC1A5	19	47282088	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	424912	47282088	11846895	1321	95474											
SLC8A2	6543	broad.mit.edu	37	chr19	47935695	47935695	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccgtcctcctcctcctcCtcgtcccctgtgggcacacg	3	9	8	21	3	0	0	0	0	0	0	7	1	6	0	8	1	0	1	8	1	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:47935695C>G	uc002pgx.2	-	9	2396	c.2118G>C	c.(2116-2118)GAG>GAC	p.E706D	SLC8A2_uc010xyq.1_Missense_Mutation_p.E462D|SLC8A2_uc010xyr.1_Missense_Mutation_p.E169D|SLC8A2_uc010ele.2_Missense_Mutation_p.E706D	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	706	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		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)		CCTCCTCCTCCTCGTCCCCTG	0.602													5	85					0	0	1	0	0		G	47935695	G	G	47935695	3	3	190	1	0	0	0	0	1	0	0	0	14732	680	24	5	655	5	SLC8A2	19	47935695	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	653607	47935695	11193288	1322	95475											
DBP	1628	broad.mit.edu	37	chr19	49136701	49136703	+	In_Frame_Del	DEL	CTT	-	-																															ccacatccagctctgctcacCttctgctcctccggcacctg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:49136701_49136703delCTT	uc002pjx.3	-	3	1148_1150	c.760_762delAAG	c.(760-762)AAGdel	p.K254del	DBP_uc002pjy.2_3'UTR|DBP_uc010elz.1_In_Frame_Del_p.K254del	NM_001352	NP_001343	Q10586	DBP_HUMAN	D site of albumin promoter (albumin D-box)	254					regulation of transcription from RNA polymerase II promoter|rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		CTCTGCTCACCTTCTGCTCCTCC	0.552													86	173	---	---	---	---						.	-	49136703	-	-	49136701	7	5	190	1	0	1	0	1	0	0	0	0	4259	695	24	0	223	0	DBP	19	49136701	In_Frame_Del	DEL	CTT	TCGA-F1-6177-01A-11D-1800-08	1201006	49136701	9992282	1323	95476											
CGB2	114336	broad.mit.edu	37	chr19	49535283	49535283	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	ctccctgtctcactcccccaCggagactcaatttactttcc	7	12	4	18	1	2	1	2	0	1	1	6	2	5	1	4	1	1	0	4	1	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:49535283C>T	uc002plw.2	+	1	154	c.-69C>T	c.(-71--67)CACGG>CATGG		CGB_uc010yad.1_Intron|SNAR-G2_uc010yae.1_5'Flank|CGB2_uc010yaf.1_Translation_Start_Site|CGB2_uc010yag.1_5'Flank	NM_033378	NP_203696			chorionic gonadotropin, beta polypeptide 2												0		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)		CACTCCCCCACGGAGACTCAA	0.557													20	26					0	0	1	0	0		T	49535283	T	T	49535283	1	4	190	1	0	0	0	0	0	0	0	0	3301	551	19	1		1	CGB2	19	49535283	Translation_Start_Site	SNP	C	TCGA-F1-6177-01A-11D-1800-08	398582	49535283	9593700	1324	95477											
SLC17A7	57030	broad.mit.edu	37	chr19	49934362	49934362	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgcccatgaggatgctggcGtagcgcggggctatgtccag	7	8	16	10	3	0	1	0	1	0	0	1	2	1	2	2	4	3	3	2	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:49934362G>A	uc002pnp.2	-	11	1471	c.1299C>T	c.(1297-1299)TAC>TAT	p.Y433Y	SLC17A7_uc002pno.2_Silent_p.Y95Y	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	433	Cytoplasmic (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		GGATGCTGGCGTAGCGCGGGG	0.617													13	17					0	0	1	0	0		A	49934362	A	A	49934362	2	1	190	1	0	0	0	0	0	0	0	1	14447	1140	40	1		1	SLC17A7	19	49934362	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	399079	49934362	9194621	1325	95478											
PRR12	57479	broad.mit.edu	37	chr19	50098867	50098867	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctgggtgggccagcagcCgcctatgccactgggaaggc	7	5	16	13	1	0	0	0	0	0	0	0	1	0	1	5	4	4	1	5	4	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:50098867C>T	uc002poo.3	+	4	1275	c.1275C>T	c.(1273-1275)GCC>GCT	p.A425A		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GGCCAGCAGCCGCCTATGCCA	0.701													7	1					0	0	1	0	0		T	50098867	T	T	50098867	2	4	190	1	0	0	0	0	0	0	0	1	12606	639	23	1		1	PRR12	19	50098867	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	164505	50098867	9030116	1326	95479											
PRR12	57479	broad.mit.edu	37	chr19	50099458	50099458	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggcaagggggatggctcGgagctgctggcgggcccagg	7	4	21	9	2	0	0	0	0	0	0	1	2	0	2	1	8	2	4	1	8	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:50099458G>A	uc002poo.3	+	4	1866	c.1866G>A	c.(1864-1866)TCG>TCA	p.S622S		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GGGATGGCTCGGAGCTGCTGG	0.667													9	22					0	0	1	0	0		A	50099458	A	A	50099458	2	1	190	1	0	0	0	0	0	0	0	1	12606	1103	39	1		1	PRR12	19	50099458	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	591	50099458	9029525	1327	95480											
MYH14	79784	broad.mit.edu	37	chr19	50796825	50796825	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cttcctgtctccctagggcaGccattctggaggagaagcgt	7	10	12	12	1	2	1	0	0	2	1	4	3	3	2	3	3	2	1	3	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:50796825G>T	uc002prr.1	+	37	5274	c.5227G>T	c.(5227-5229)GCC>TCC	p.A1743S	MYH14_uc010enu.1_Missense_Mutation_p.A1784S|MYH14_uc002prq.1_Missense_Mutation_p.A1751S|MYH14_uc010ycb.1_Missense_Mutation_p.A94S|MYH14_uc002prs.1_Missense_Mutation_p.A94S	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	1743	Potential.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		CCCTAGGGCAGCCATTCTGGA	0.612													5	21					5.9392e-07	6.12377e-07	1	1	0		T	50796825	T	T	50796825	3	4	190	1	0	0	0	0	1	0	0	0	10051	971	34	5	5500	5	MYH14	19	50796825	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	697367	50796825	8332158	1328	95481											
MYBPC2	4606	broad.mit.edu	37	chr19	50961966	50961966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcaacatcgcggggcgcagcGagccggccaccctggcccag	7	3	14	17	5	1	0	1	0	0	0	2	1	1	0	4	4	3	1	4	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:50961966G>A	uc002psf.2	+	21	2512	c.2461G>A	c.(2461-2463)GAG>AAG	p.E821K		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	821	Fibronectin type-III 2.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		GGGGCGCAGCGAGCCGGCCAC	0.677													9	10					0	0	1	0	0		A	50961966	A	A	50961966	3	1	190	1	0	0	0	0	1	0	0	0	10030	1059	37	1	2543	1	MYBPC2	19	50961966	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	165141	50961966	8167017	1329	95482											
SHANK1	50944	broad.mit.edu	37	chr19	51220126	51220126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcccccctcgggacactcGctggcactgtggcgttcctc	4	8	12	17	3	0	0	0	0	0	0	4	2	1	1	4	3	1	3	4	3	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:51220126G>A	uc002psx.1	-	1	70	c.51C>T	c.(49-51)AGC>AGT	p.S17S		NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	17					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CGGGACACTCGCTGGCACTGT	0.736													5	6					0	0	1	0	0		A	51220126	A	A	51220126	2	1	190	1	0	0	0	0	0	0	0	1	14289	1078	38	1		1	SHANK1	19	51220126	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	258160	51220126	7908857	1330	95483											
KLK15	55554	broad.mit.edu	37	chr19	51330304	51330304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcaacatgatgtcgttgCggtggctgcgcgcttcgtag	6	10	15	10	5	0	1	0	1	0	0	2	1	0	1	0	2	4	6	0	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:51330304C>T	uc002ptl.2	-	3	342	c.311G>A	c.(310-312)CGC>CAC	p.R104H	KLK15_uc002ptm.2_Missense_Mutation_p.R104H|KLK15_uc002ptn.2_Missense_Mutation_p.R104H|KLK15_uc002pto.2_Missense_Mutation_p.R103H|KLK15_uc010ych.1_RNA|KLK15_uc010yci.1_Missense_Mutation_p.R103H|KLK15_uc010eod.2_RNA	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4	104	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		GATGTCGTTGCGGTGGCTGCG	0.697													29	46					0	0	1	0	0		T	51330304	T	T	51330304	3	4	190	1	0	0	0	0	1	0	0	0	8419	768	27	1	471	1	KLK15	19	51330304	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	110178	51330304	7798679	1331	95484											
LENG1	79165	broad.mit.edu	37	chr19	54662136	54662136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctggggctcccgcctctgCtgcttcaagctcaggcagtg	5	9	12	15	1	3	0	2	0	1	0	4	0	4	0	3	3	3	5	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:54662136C>T	uc002qdm.2	-	2	209	c.196G>A	c.(196-198)GCA>ACA	p.A66T		NM_024316	NP_077292	Q96BZ8	LENG1_HUMAN	leukocyte receptor cluster (LRC) member 1	66										ovary(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					CCCGCCTCTGCTGCTTCAAGC	0.537													54	71					0	0	1	0	0		T	54662136	T	T	54662136	3	4	190	1	0	0	0	0	1	0	0	0	8739	797	28	2	610	2	LENG1	19	54662136	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3331832	54662136	4466847	1332	95485											
LILRA6	79168	broad.mit.edu	37	chr19	54742915	54742915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaacaccaggaccaagcctgCcatgcccatgcggatgagat	12	5	11	13	1	0	1	0	1	0	1	0	5	0	3	5	2	5	0	5	2	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:54742915C>T	uc002qeu.1	-	8	1484	c.1360G>A	c.(1360-1362)GCA>ACA	p.A454T	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Intron|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Intron|LILRA6_uc002qem.1_Intron|LILRB3_uc002qen.1_Intron|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Intron|LILRA6_uc010yeq.1_Intron|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Missense_Mutation_p.A298T	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	454	Helical; (Potential).					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ACCAAGCCTGCCATGCCCATG	0.572													15	42					0	0	1	0	0		T	54742915	T	T	54742915	3	4	190	1	0	0	0	0	1	0	0	0	8805	739	26	2	89	2	LILRA6	19	54742915	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	80779	54742915	4386068	1333	95486											
NLRP7	199713	broad.mit.edu	37	chr19	55450647	55450647	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtcctacttgaatcaggtCggggttcttgagtctttctt	5	17	11	8	1	4	2	1	2	3	0	6	2	5	2	1	3	1	1	1	3	2	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:55450647C>T	uc002qih.3	-	4	1616	c.1540G>A	c.(1540-1542)GAC>AAC	p.D514N	NLRP7_uc002qig.3_Missense_Mutation_p.D514N|NLRP7_uc002qii.3_Missense_Mutation_p.D514N|NLRP7_uc010esk.2_Missense_Mutation_p.D514N|NLRP7_uc010esl.2_Missense_Mutation_p.D542N	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	514							ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		TGAATCAGGTCGGGGTTCTTG	0.577													35	52					0	0	1	0	0		T	55450647	T	T	55450647	3	4	190	1	0	0	0	0	1	0	0	0	10501	884	31	1	1605	1	NLRP7	19	55450647	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	707732	55450647	3678336	1334	95487											
NLRP2	55655	broad.mit.edu	37	chr19	55494233	55494233	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctaatgaggagcaacgcGgccctgttccagctgggctc	8	7	14	12	2	0	1	0	1	0	0	2	3	1	2	2	3	4	5	2	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:55494233G>A	uc002qij.2	+	6	1253	c.1167G>A	c.(1165-1167)GCG>GCA	p.A389A	NLRP2_uc010yfp.1_Silent_p.A366A|NLRP2_uc010esn.2_Silent_p.A365A|NLRP2_uc010eso.2_Silent_p.A386A|NLRP2_uc010esp.2_Silent_p.A367A	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	389	NACHT.				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		GGAGCAACGCGGCCCTGTTCC	0.632													9	31					0	0	1	0	0		A	55494233	A	A	55494233	2	1	190	1	0	0	0	0	0	0	0	1	10496	1103	39	1		1	NLRP2	19	55494233	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	43586	55494233	3634750	1335	95488											
ZNF628	89887	broad.mit.edu	37	chr19	55994334	55994334	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgcgtgcacacgggcgagCggcccttccgctgcccgctc	4	5	14	18	7	0	0	0	0	0	0	2	1	1	0	3	2	4	3	3	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:55994334C>T	uc002qld.2	+	3	2327	c.1762C>T	c.(1762-1764)CGG>TGG	p.R588W	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	588						nucleus	DNA binding|zinc ion binding				0	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)		CACGGGCGAGCGGCCCTTCCG	0.711													9	12					0	0	1	0	0		T	55994334	T	T	55994334	3	4	190	1	0	0	0	0	1	0	0	0	18077	759	27	1	1764	1	ZNF628	19	55994334	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	500101	55994334	3134649	1336	95489											
NLRP9	338321	broad.mit.edu	37	chr19	56226424	56226424	+	Missense_Mutation	SNP	A	C	C	1	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	atcatggccggtcctaccacAgctcccgtatgctgcagcct	7	9	9	16	2	1	0	1	0	0	0	3	0	3	0	5	2	5	4	5	2	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:56226424A>C	uc002qly.2	-	6	2526	c.2498T>G	c.(2497-2499)CTG>CGG	p.L833R		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	833	LRR 4.					cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		GTCCTACCACAGCTCCCGTAT	0.483													16	96					0	0	1	0	0		C	56226424	C	C	56226424	3	2	190	1	0	0	0	0	1	0	0	0	10503	188	7	5	493	5	NLRP9	19	56226424	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	232090	56226424	2902559	1337	95490											
NLRP11	204801	broad.mit.edu	37	chr19	56307593	56307593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgatttcttcacattcgctgGctcgcaaatcacatttcatc	9	14	5	13	3	4	0	3	0	1	0	7	1	4	0	0	1	0	3	0	1	1	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:56307593G>A	uc010ygf.1	-	8	2906	c.2195C>T	c.(2194-2196)GCC>GTC	p.A732V	NLRP11_uc002qlz.2_Missense_Mutation_p.A579V|NLRP11_uc002qmb.2_Missense_Mutation_p.A633V|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	732							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		ACATTCGCTGGCTCGCAAATC	0.433													21	76					0	0	1	0	0		A	56307593	A	A	56307593	3	1	190	1	0	0	0	0	1	0	0	0	10492	1203	42	2	926	2	NLRP11	19	56307593	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	81169	56307593	2821390	1338	95491											
ZNF71	58491	broad.mit.edu	37	chr19	57133494	57133494	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cgagtgcgggcgagccttcaGccagaacatgcacctgaccg	9	5	13	14	4	1	2	1	1	0	1	1	4	1	2	4	1	5	1	4	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:57133494G>A	uc002qnm.3	+	3	1077	c.839G>A	c.(838-840)AGC>AAC	p.S280N		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	280	C2H2-type 6.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CGAGCCTTCAGCCAGAACATG	0.652													25	50					0	0	1	0	0		A	57133494	A	A	57133494	3	1	190	1	0	0	0	0	1	0	0	0	18139	971	34	2	841	2	ZNF71	19	57133494	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	825901	57133494	1995489	1339	95492											
ZSCAN22	342945	broad.mit.edu	37	chr19	58850459	58850459	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagtgtgacgcgtgtggcCgagccttcagcgactgctca	8	8	13	12	4	2	1	2	1	0	0	2	3	2	1	2	1	3	1	2	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:58850459C>T	uc002qsc.2	+	3	1390	c.1243C>T	c.(1243-1245)CGA>TGA	p.R415*	ZSCAN22_uc010yhz.1_3'UTR	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22	415	C2H2-type 6.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		CGCGTGTGGCCGAGCCTTCAG	0.577													38	32					0	0	1	0	0		T	58850459	T	T	58850459	4	4	190	1	0	0	0	0	0	1	0	0	18259	644	23	1	1249	1	ZSCAN22	19	58850459	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1716965	58850459	278524	1340	95493											
ZNF324B	388569	broad.mit.edu	37	chr19	58967425	58967425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgggcgtccttatgcttgcGcacagtgtggccgccgcttc	3	11	14	13	4	0	0	0	0	0	0	2	0	1	0	3	2	2	3	3	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:58967425G>A	uc002qsv.1	+	4	1221	c.1114G>A	c.(1114-1116)GCA>ACA	p.A372T	ZNF324B_uc002qsu.1_Missense_Mutation_p.A362T|ZNF324B_uc010euq.1_Missense_Mutation_p.A372T	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	372	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		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)		TTATGCTTGCGCACAGTGTGG	0.657													15	20					0	0	1	0	0		A	58967425	A	A	58967425	3	1	190	1	0	0	0	0	1	0	0	0	17870	1087	38	1	1124	1	ZNF324B	19	58967425	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	116966	58967425	161558	1341	95494											
ZNF324	25799	broad.mit.edu	37	chr19	58982534	58982534	+	Silent	SNP	T	C	C																															cggggacatcaccgaatgggTgcagtttggcaggagcctca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:58982534T>C	uc002qsw.1	+	4	769	c.675T>C	c.(673-675)GGT>GGC	p.G225G	ZNF324_uc002qsx.1_Silent_p.G2G	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	225					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		ACCGAATGGGTGCAGTTTGGC	0.642													12	16					0	0	1	0	0		C	58982534	C	C	58982534	2	2	190	1	0	0	0	0	0	0	0	1	17869	1683	59	3		3	ZNF324	19	58982534	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	15109	58982534	146449	1342	95495	181	2									
ZNF324	25799	broad.mit.edu	37	chr19	58982539	58982539	+	Missense_Mutation	SNP	T	C	C																															acatcaccgaatgggtgcagTttggcaggagcctcatagac																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:58982539T>C	uc002qsw.1	+	4	774	c.680T>C	c.(679-681)GTT>GCT	p.V227A	ZNF324_uc002qsx.1_Missense_Mutation_p.V4A	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	227					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		ATGGGTGCAGTTTGGCAGGAG	0.647													11	18					0	0	1	0	0		C	58982539	C	C	58982539	3	2	190	1	0	0	0	0	1	0	0	0	17869	1725	60	3	690	3	ZNF324	19	58982539	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	5	58982539	146444	1343	95496	181	2									
ZNF446	55663	broad.mit.edu	37	chr19	58988598	58988598	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gagcaagaatgccatcccctCtgggtcccccatgcctgccc	7	7	9	18	0	1	1	0	0	1	1	3	2	3	1	7	1	4	1	7	1	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:58988598C>T	uc002qsz.2	+	2	130	c.13C>T	c.(13-15)CTG>TTG	p.L5L	ZNF446_uc002qta.2_Silent_p.L5L|ZNF446_uc010eur.2_Silent_p.L5L	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	5					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		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)		GCCATCCCCTCTGGGTCCCCC	0.607													67	105					0	0	1	0	0		T	58988598	T	T	58988598	2	4	190	1	0	0	0	0	0	0	0	1	17944	912	32	4		4	ZNF446	19	58988598	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6059	58988598	140385	1344	95497											
MZF1	7593	broad.mit.edu	37	chr19	59073494	59073494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttggtgctctggtggaagCggcggccacagtcctggcag	5	8	17	11	2	1	0	0	0	1	0	2	1	2	1	2	6	2	3	2	6	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr19:59073494C>T	uc002qto.2	-	6	2711	c.2150G>A	c.(2149-2151)CGC>CAC	p.R717H	LOC100131691_uc002qtm.2_Intron|MZF1_uc002qtn.2_Missense_Mutation_p.R717H	NM_198055	NP_932172	P28698	MZF1_HUMAN	zinc finger protein 42 isoform 2	717	C2H2-type 13.				viral reproduction	nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1		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)		CTGGTGGAAGCGGCGGCCACA	0.622													3	2					0	0	1	0	0		T	59073494	T	T	59073494	3	4	190	1	0	0	0	0	1	0	0	0	10126	768	27	1	58	1	MZF1	19	59073494	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	84896	59073494	55489	1345	95498											
ZCCHC3	85364	broad.mit.edu	37	chr20	279025	279025	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttccggaacgagacggtggaCgtggaggacattgtgacttg	9	9	16	7	4	0	2	0	1	0	1	1	7	1	6	1	5	1	0	1	5	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:279025C>T	uc002wdf.2	+	2	819	c.795C>T	c.(793-795)GAC>GAT	p.D265D	ZCCHC3_uc002wdg.2_RNA	NM_033089	NP_149080	Q9NUD5	ZCHC3_HUMAN	zinc finger, CCHC domain containing 3	266							nucleic acid binding|zinc ion binding				0		all_cancers(10;0.000209)|Lung NSC(37;0.0417)|all_lung(30;0.0713)|all_epithelial(17;0.0748)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.149)			AGACGGTGGACGTGGAGGACA	0.597													35	55					0	0	1	0	0		T	279025	T	T	279025	2	4	190	1	0	0	0	0	0	0	0	1	17614	535	19	1		1	ZCCHC3	20	279025	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08		279025	62746495	1346	95499											
PSMF1	9491	broad.mit.edu	37	chr20	1145691	1145691	+	Frame_Shift_Del	DEL	C	-	-																															agacctaacccagaccatctCcccccgccgggctacgatga																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:1145691delC	uc002wel.3	+	8	951	c.783delC	c.(781-783)CTCfs	p.L261fs	PSMF1_uc010zpo.1_Intron|PSMF1_uc002wem.3_Intron|PSMF1_uc010zpp.1_Intron|PSMF1_uc002wen.3_Frame_Shift_Del_p.L261fs|PSMF1_uc002wep.3_Frame_Shift_Del_p.L212fs	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	261	Pro-rich.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome core complex	endopeptidase inhibitor activity|protein binding				0						CAGACCATCTCCCCCCGCCGG	0.577													39	50	---	---	---	---						.	-	1145691	-	-	1145691	7	5	190	1	0	1	0	1	0	0	0	0	12732	842	30	0	809	0	PSMF1	20	1145691	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	866666	1145691	61879829	1347	95500											
SNPH	9751	broad.mit.edu	37	chr20	1281343	1281343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaaggacacacaggaccGgctccaggaccggtgagcgg	10	3	16	12	3	0	2	0	2	0	0	1	5	1	5	3	6	1	2	3	6	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:1281343G>A	uc002wes.2	+	5	532	c.296G>A	c.(295-297)CGG>CAG	p.R99Q	SNPH_uc002wet.2_Missense_Mutation_p.R143Q	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	99	Potential.				synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						ACACAGGACCGGCTCCAGGAC	0.677													14	14					0	0	1	0	0		A	1281343	A	A	1281343	3	1	190	1	0	0	0	0	1	0	0	0	14875	1116	39	1	306	1	SNPH	20	1281343	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	135652	1281343	61744177	1348	95501											
SIRPB1	10326	broad.mit.edu	37	chr20	1559072	1559072	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacacagtagtaggtgccGgcgtctgctggggtgatgtt	6	12	15	8	2	2	1	1	1	1	0	2	1	2	1	1	4	2	4	1	4	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:1559072G>A	uc010gai.2	-	2	444	c.345C>T	c.(343-345)GCC>GCT	p.A115A	SIRPB1_uc002wfk.3_Silent_p.A115A	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	115	Extracellular (Potential).|Ig-like V-type.				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						AGTAGGTGCCGGCGTCTGCTG	0.532													78	112					0	0	1	0	0		A	1559072	A	A	1559072	2	1	190	1	0	0	0	0	0	0	0	1	14358	1103	39	1		1	SIRPB1	20	1559072	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	277729	1559072	61466448	1349	95502											
IDH3B	3420	broad.mit.edu	37	chr20	2640407	2640407	+	Silent	SNP	G	A	A	0	0	1	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	gtgggattggctatattcctGcccactgcctgggcaaatgg	7	11	13	10	0	0	0	0	0	0	0	1	1	1	1	3	4	2	2	3	4	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:2640407G>A	uc002wgp.2	-	10	957	c.948C>T	c.(946-948)GGC>GGT	p.G316G	IDH3B_uc002wgq.2_Silent_p.G316G|IDH3B_uc002wgr.2_Silent_p.G164G	NM_006899	NP_008830	O43837	IDH3B_HUMAN	isocitrate dehydrogenase 3, beta subunit isoform	316					isocitrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	electron carrier activity|isocitrate dehydrogenase (NAD+) activity|magnesium ion binding|NAD binding				0					NADH(DB00157)	CTATATTCCTGCCCACTGCCT	0.607													57	78					0	0	1	0	0		A	2640407	A	A	2640407	2	1	190	1	0	0	0	0	0	0	0	1	7513	1306	46	2		2	IDH3B	20	2640407	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1081335	2640407	60385113	1350	95503											
VPS16	64601	broad.mit.edu	37	chr20	2841159	2841159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagtttggttccggagtggCcatcctcacaggggcccacc	6	9	13	13	1	1	1	1	1	0	0	3	2	3	2	5	5	0	2	5	5	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:2841159C>T	uc002whe.2	+	5	482	c.434C>T	c.(433-435)GCC>GTC	p.A145V	VPS16_uc002whh.2_5'Flank|VPS16_uc002whf.2_Missense_Mutation_p.A145V|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	145					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						TCCGGAGTGGCCATCCTCACA	0.607													26	40					0	0	1	0	0		T	2841159	T	T	2841159	3	4	190	1	0	0	0	0	1	0	0	0	17219	739	26	2	452	2	VPS16	20	2841159	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	200752	2841159	60184361	1351	95504											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3146682	3146682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaccccccaccgctgctgcCgccactaccactaccatagc	8	5	6	22	3	0	0	0	0	0	0	0	1	0	0	8	0	5	2	8	0	3	3	rs113680437		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:3146682C>T	uc002wia.1	-	2	2182	c.784G>A	c.(784-786)GGC>AGC	p.G262S	ProSAPiP1_uc002wib.1_Missense_Mutation_p.G262S	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	262						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						CCGCTGCTGCCGCCACTACCA	0.647													16	30					0	0	1	0	0		T	3146682	T	T	3146682	3	4	190	1	0	0	0	0	1	0	0	0	12895	652	23	1	1245	1	ProSAPiP1	20	3146682	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	305523	3146682	59878838	1352	95505											
SIGLEC1	6614	broad.mit.edu	37	chr20	3669866	3669866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccatgctctgcttacaaacaCgcctccttctgcaaggcccg	8	9	7	17	2	2	0	0	0	2	0	3	0	3	0	4	1	5	3	4	1	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:3669866C>T	uc002wja.2	-	20	5006	c.5006G>A	c.(5005-5007)CGT>CAT	p.R1669H	SIGLEC1_uc002wjb.1_3'UTR|SIGLEC1_uc002wiz.3_Intron	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1669	Cytoplasmic (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding	p.1670_1673del(1)		pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						CTTACAAACACGCCTCCTTCT	0.582													46	69					0	0	1	0	0		T	3669866	T	T	3669866	3	4	190	1	0	0	0	0	1	0	0	0	14330	536	19	1	131	1	SIGLEC1	20	3669866	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	523184	3669866	59355654	1353	95506											
CENPB	1059	broad.mit.edu	37	chr20	3766686	3766686	+	Frame_Shift_Del	DEL	G	-	-																															ggcaggcgccgccggggtgcGgggggcagcgtttcgcgcgc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:3766686delG	uc002wjk.2	-	1	652	c.445delC	c.(445-447)CGCfs	p.R149fs	CDC25B_uc010zqk.1_5'Flank|CDC25B_uc010zql.1_5'Flank|CDC25B_uc010zqm.1_5'Flank	NM_001810	NP_001801	P07199	CENPB_HUMAN	centromere protein B	149					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|satellite DNA binding				0						GCCGGGGTGCGGGGGGCAGCG	0.781													4	5	---	---	---	---						.	-	3766686	-	-	3766686	7	5	190	1	0	1	0	1	0	0	0	0	3230	1116	39	0	1358	0	CENPB	20	3766686	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	96820	3766686	59258834	1354	95507											
PRND	23627	broad.mit.edu	37	chr20	4705664	4705664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagaggggcgcaggacttcGggtcaccatgcaccagccag	9	4	16	12	2	1	1	1	0	0	1	2	3	1	2	3	5	2	2	3	5	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:4705664G>A	uc002wkz.2	+	2	538	c.467G>A	c.(466-468)CGG>CAG	p.R156Q		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	156					protein homooligomerization	anchored to membrane|plasma membrane					0						GCAGGACTTCGGGTCACCATG	0.597													11	21					0	0	1	0	0		A	4705664	A	A	4705664	3	1	190	1	0	0	0	0	1	0	0	0	12565	1116	39	1	469	1	PRND	20	4705664	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	938978	4705664	58319856	1355	95508											
MCM8	84515	broad.mit.edu	37	chr20	5952655	5952655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtgttctgtttttcagctCgctttgccctgtcatttttg	2	22	8	9	1	3	0	2	0	1	0	4	0	3	0	1	0	2	4	1	0	0	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:5952655C>T	uc002wmi.2	+	11	1603	c.1226C>T	c.(1225-1227)TCG>TTG	p.S409L	MCM8_uc002wmj.2_Missense_Mutation_p.S393L|MCM8_uc002wmk.2_Intron|MCM8_uc002wml.2_Missense_Mutation_p.S409L|MCM8_uc010gbp.2_Missense_Mutation_p.S409L|MCM8_uc002wmm.2_5'UTR	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	409	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TTTTTCAGCTCGCTTTGCCCT	0.289													33	43					0	0	1	0	0		T	5952655	T	T	5952655	3	4	190	1	0	0	0	0	1	0	0	0	9411	893	31	1	1264	1	MCM8	20	5952655	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1246991	5952655	57072865	1356	95509											
LRRN4	164312	broad.mit.edu	37	chr20	6021949	6021949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgccagcacgcacacgcGgtaggtggtgcccggcgaca	7	3	16	15	6	0	0	0	0	0	0	0	1	0	0	3	5	2	3	3	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:6021949G>A	uc002wmo.2	-	5	2166	c.1942C>T	c.(1942-1944)CGC>TGC	p.R648C		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	648	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(3)	3						ACGCACACGCGGTAGGTGGTG	0.721													15	14					0	0	1	0	0		A	6021949	A	A	6021949	3	1	190	1	0	0	0	0	1	0	0	0	9055	1116	39	1	284	1	LRRN4	20	6021949	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	69294	6021949	57003571	1357	95510											
C20orf94	128710	broad.mit.edu	37	chr20	10582435	10582435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagtcagcttgcattcagtCgtgatcttttagcaagtcag	9	14	9	9	1	5	1	4	1	1	0	6	1	5	1	0	0	3	3	0	0	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:10582435C>T	uc010zre.1	+	6	553	c.373C>T	c.(373-375)CGT>TGT	p.R125C		NM_001009608	NP_001009608	Q5VYV7	CT094_HUMAN	hypothetical protein LOC128710	125							protein binding				0						TGCATTCAGTCGTGATCTTTT	0.318													15	33					0	0	1	0	0		T	10582435	T	T	10582435	3	4	190	1	0	0	0	0	1	0	0	0	2124	884	31	1	391	1	C20orf94	20	10582435	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4560486	10582435	52443085	1358	95511											
RRBP1	6238	broad.mit.edu	37	chr20	17601385	17601385	+	Missense_Mutation	SNP	C	T	T																															ggagctcctcctctgcggcgCccaccttggccctccacacc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:17601385C>T	uc002wpv.1	-	18	2537	c.2183G>A	c.(2182-2184)GGC>GAC	p.G728D	RRBP1_uc010zrp.1_5'Flank|RRBP1_uc002wpt.1_Missense_Mutation_p.G98D|RRBP1_uc002wpu.2_Missense_Mutation_p.G502D|RRBP1_uc002wpw.1_Missense_Mutation_p.G728D|RRBP1_uc010gcl.1_Missense_Mutation_p.G502D|RRBP1_uc010gcm.1_Missense_Mutation_p.G181D	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	1161	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						CTCTGCGGCGCCCACCTTGGC	0.647													12	10					0	0	1	0	0		T	17601385	T	T	17601385	3	4	190	1	0	0	0	0	1	0	0	0	13703	739	26	2	786	2	RRBP1	20	17601385	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	7018950	17601385	45424135	1359	95512	182	2									
RRBP1	6238	broad.mit.edu	37	chr20	17601390	17601390	+	Missense_Mutation	SNP	C	A	A																															tcctcctctgcggcgcccacCttggccctccacacctgctc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:17601390C>A	uc002wpv.1	-	18	2532	c.2178G>T	c.(2176-2178)AAG>AAT	p.K726N	RRBP1_uc010zrp.1_5'Flank|RRBP1_uc002wpt.1_Missense_Mutation_p.K96N|RRBP1_uc002wpu.2_Missense_Mutation_p.K500N|RRBP1_uc002wpw.1_Missense_Mutation_p.K726N|RRBP1_uc010gcl.1_Missense_Mutation_p.K500N|RRBP1_uc010gcm.1_Missense_Mutation_p.K179N	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	1159	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						CGGCGCCCACCTTGGCCCTCC	0.657													13	10					0.0202918	0.0204286	1	1	0		A	17601390	A	A	17601390	3	1	190	1	0	0	0	0	1	0	0	0	13703	680	24	5	791	5	RRBP1	20	17601390	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5	17601390	45424130	1360	95513	182	2									
RRBP1	6238	broad.mit.edu	37	chr20	17617252	17617252	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctgcacctccttcacGtgctcccggtagctggcctg	4	10	11	16	2	1	0	1	0	0	0	3	0	3	0	4	2	5	6	4	2	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:17617252G>A	uc010gcm.1	-	1	123	c.-235C>T	c.(-237--233)CACGT>CATGT		RRBP1_uc002wpu.2_Silent_p.H110H|RRBP1_uc002wpv.1_Silent_p.H336H|RRBP1_uc002wpw.1_Silent_p.H336H|RRBP1_uc010gcl.1_Silent_p.H110H			Q9P2E9	RRBP1_HUMAN	Homo sapiens mRNA for KIAA1398 protein, partial cds.						protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						CCTCCTTCACGTGCTCCCGGT	0.662													27	60					0	0	1	0	0		A	17617252	A	A	17617252	1	1	190	1	0	0	0	0	0	0	0	0	13703	1136	40	1		1	RRBP1	20	17617252	Translation_Start_Site	SNP	G	TCGA-F1-6177-01A-11D-1800-08	15862	17617252	45408268	1361	95514											
RALGAPA2	57186	broad.mit.edu	37	chr20	20527373	20527373	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgtctgtgctaaggaccCtggcagcggccgtgatgaag	10	8	14	9	2	1	2	0	2	1	0	1	3	1	3	2	3	2	2	2	3	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:20527373C>A	uc002wrz.2	-	24	3403	c.3260G>T	c.(3259-3261)AGG>ATG	p.R1087M	RALGAPA2_uc010gcx.2_Missense_Mutation_p.R791M|RALGAPA2_uc010zsg.1_Missense_Mutation_p.R535M	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1087					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GCTAAGGACCCTGGCAGCGGC	0.507													10	25					5.50884e-06	5.64883e-06	1	1	0		A	20527373	A	A	20527373	3	1	190	1	0	0	0	0	1	0	0	0	13039	681	24	5	2425	5	RALGAPA2	20	20527373	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2910121	20527373	42498147	1362	95515											
XRN2	22803	broad.mit.edu	37	chr20	21312221	21312221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattttatctgatgctagtgCtcctggtgaaggagaacata	11	14	10	6	0	1	3	0	2	1	1	2	4	2	3	1	2	3	2	1	2	6	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:21312221C>T	uc002wsf.1	+	7	694	c.599C>T	c.(598-600)GCT>GTT	p.A200V	XRN2_uc002wsg.1_Missense_Mutation_p.A124V|XRN2_uc010zsk.1_Missense_Mutation_p.A146V	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	200					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GATGCTAGTGCTCCTGGTGAA	0.294													27	34					0	0	1	0	0		T	21312221	T	T	21312221	3	4	190	1	0	0	0	0	1	0	0	0	17486	797	28	2	625	2	XRN2	20	21312221	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	784848	21312221	41713299	1363	95516											
XRN2	22803	broad.mit.edu	37	chr20	21369921	21369921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttattttcagggatatcccaGagaaggaaggaaataccctt	14	11	9	7	0	1	1	1	0	0	1	2	5	2	4	2	3	1	0	2	3	6	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:21369921G>A	uc002wsf.1	+	30	2893	c.2798G>A	c.(2797-2799)AGA>AAA	p.R933K	XRN2_uc002wsg.1_Missense_Mutation_p.R857K|XRN2_uc010zsk.1_Missense_Mutation_p.R879K|XRN2_uc002wsh.1_Missense_Mutation_p.R71K	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	933					cell growth|DNA catabolic process, exonucleolytic|mRNA processing|regulation of transcription, DNA-dependent|RNA catabolic process|spermatogenesis|transcription termination, DNA-dependent	nucleolus	5'-3' exoribonuclease activity|nucleic acid binding|protein binding|zinc ion binding			skin(1)	1						GGATATCCCAGAGAAGGAAGG	0.363													13	26					0	0	1	0	0		A	21369921	A	A	21369921	3	1	190	1	0	0	0	0	1	0	0	0	17486	942	33	4	2916	4	XRN2	20	21369921	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	57700	21369921	41655599	1364	95517											
TMEM90B	79953	broad.mit.edu	37	chr20	24523741	24523741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggagagagtaccatggatgGcatcattgaacagaagagca	15	6	14	6	0	1	4	1	1	0	3	1	7	1	6	1	3	3	3	1	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:24523741G>A	uc002wtw.1	+	2	641	c.8G>A	c.(7-9)GGC>GAC	p.G3D		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	3	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						ACCATGGATGGCATCATTGAA	0.507													41	40					0	0	1	0	0		A	24523741	A	A	24523741	3	1	190	1	0	0	0	0	1	0	0	0	16244	1203	42	2	10	2	TMEM90B	20	24523741	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3153820	24523741	38501779	1365	95518											
ASXL1	171023	broad.mit.edu	37	chr20	31021635	31021635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagccccggcttgaagatcGtcagtcctttcgtaacacaa	11	9	9	12	3	1	2	1	1	0	1	4	3	2	2	3	1	2	2	3	1	4	3	rs149449801		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:31021635G>A	uc002wxs.2	+	11	2060	c.1634G>A	c.(1633-1635)CGT>CAT	p.R545H	ASXL1_uc010geb.2_Missense_Mutation_p.R436H	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	545					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						CTTGAAGATCGTCAGTCCTTT	0.522			F|N|Mis		MDS|CMML								57	79					0	0	1	0	0		A	31021635	A	A	31021635	3	1	190	1	0	0	0	0	1	0	0	0	1067	1145	40	1	1686	1	ASXL1	20	31021635	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6497894	31021635	32003885	1366	95519											
C20orf112	140688	broad.mit.edu	37	chr20	31044122	31044122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcggggaaggcagggtcGccctgcgtgctgctcgacgt	5	8	16	12	5	1	0	0	0	1	0	4	2	1	1	1	4	3	3	1	4	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:31044122G>A	uc002wxu.3	-	3	343	c.186C>T	c.(184-186)GGC>GGT	p.G62G	C20orf112_uc010gec.2_5'UTR	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	62											0						AGGCAGGGTCGCCCTGCGTGC	0.637													14	23					0	0	1	0	0		A	31044122	A	A	31044122	2	1	190	1	0	0	0	0	0	0	0	1	2084	1074	38	1		1	C20orf112	20	31044122	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	22487	31044122	31981398	1367	95520											
CBFA2T2	9139	broad.mit.edu	37	chr20	32232182	32232182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgtggccgcaaagccagCgagacatgcagtggctgcaa	12	5	13	11	2	0	1	0	0	0	1	0	2	0	1	2	2	5	4	2	2	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:32232182C>T	uc002wzg.1	+	12	2082	c.1545C>T	c.(1543-1545)AGC>AGT	p.S515S	CBFA2T2_uc010zug.1_Silent_p.S289S|CBFA2T2_uc002wze.1_Silent_p.S506S|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.S486S|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_Silent_p.S63S	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	515						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						GCAAAGCCAGCGAGACATGCA	0.567													29	51					0	0	1	0	0		T	32232182	T	T	32232182	2	4	190	1	0	0	0	0	0	0	0	1	2700	767	27	1		1	CBFA2T2	20	32232182	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1188060	32232182	30793338	1368	95521											
PXMP4	11264	broad.mit.edu	37	chr20	32298427	32298427	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggccgccaggaatgcGtgtgctgggtaggtcttgcc	7	8	17	9	2	1	0	0	0	1	0	1	2	1	2	3	5	3	2	3	5	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:32298427G>A	uc002wzv.2	-	3	432	c.309C>T	c.(307-309)CAC>CAT	p.H103H	PXMP4_uc002wzw.2_Intron|PXMP4_uc010zuh.1_Missense_Mutation_p.T110M	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a	103	Helical; (Potential).					integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						CCAGGAATGCGTGTGCTGGGT	0.542													40	35					0	0	1	0	0		A	32298427	A	A	32298427	2	1	190	1	0	0	0	0	0	0	0	1	12876	1136	40	1		1	PXMP4	20	32298427	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	66245	32298427	30727093	1369	95522											
GDF5	8200	broad.mit.edu	37	chr20	34022216	34022216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttctcgtggacctgccgggCggcgcggtcgaagcccaggc	4	6	16	15	6	1	0	0	0	1	0	3	2	1	1	3	5	2	0	3	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:34022216C>T	uc002xck.1	-	2	1316	c.997G>A	c.(997-999)GCC>ACC	p.A333T	GDF5_uc010gfc.1_Missense_Mutation_p.A333T|uc002xcj.2_Silent_p.G209G|GDF5_uc010zvc.1_Missense_Mutation_p.A333T	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	333					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			ACCTGCCGGGCGGCGCGGTCG	0.637													32	33					0	0	1	0	0		T	34022216	T	T	34022216	3	4	190	1	0	0	0	0	1	0	0	0	6331	768	27	1	512	1	GDF5	20	34022216	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1723789	34022216	29003304	1370	95523											
PHF20	51230	broad.mit.edu	37	chr20	34526962	34526962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgatgattccctttccccgCgcctgggctggcctctagac	4	10	11	16	3	1	2	0	1	1	1	3	3	3	2	5	2	0	1	5	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:34526962C>T	uc002xek.1	+	16	2755	c.2644C>T	c.(2644-2646)CGC>TGC	p.R882C		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	882					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					CCTTTCCCCGCGCCTGGGCTG	0.617													16	28					0	0	1	0	0		T	34526962	T	T	34526962	3	4	190	1	0	0	0	0	1	0	0	0	11850	768	27	1	2702	1	PHF20	20	34526962	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	504746	34526962	28498558	1371	95524											
NDRG3	57446	broad.mit.edu	37	chr20	35310930	35310930	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacatacttactgcaaatctGctgaggatgtaagctccagc	12	11	8	10	0	1	1	0	1	1	0	2	2	2	2	1	1	7	4	1	1	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:35310930G>A	uc002xfw.2	-	7	517	c.435C>T	c.(433-435)AGC>AGT	p.S145S	NDRG3_uc002xfx.2_Silent_p.S133S|NDRG3_uc010zvq.1_Silent_p.S50S|NDRG3_uc010zvr.1_Silent_p.S33S	NM_032013	NP_114402	Q9UGV2	NDRG3_HUMAN	N-myc downstream regulated gene 3 isoform a	145					cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)				CTGCAAATCTGCTGAGGATGT	0.458													8	85					0	0	1	0	0		A	35310930	A	A	35310930	2	1	190	1	0	0	0	0	0	0	0	1	10272	1310	46	2		2	NDRG3	20	35310930	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	783968	35310930	27714590	1372	95525											
TOP1	7150	broad.mit.edu	37	chr20	39728804	39728804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagagcctcctggacttttcCgtggccgcggcaaccacccc	6	8	10	17	3	0	1	0	0	0	1	2	2	2	2	7	3	2	1	7	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:39728804C>T	uc002xjl.2	+	12	1330	c.1084C>T	c.(1084-1086)CGT>TGT	p.R362C	uc002xjn.1_Intron	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I	362					DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	TGGACTTTTCCGTGGCCGCGG	0.448			T	NUP98	AML*								25	52					0	0	1	0	0		T	39728804	T	T	39728804	3	4	190	1	0	0	0	0	1	0	0	0	16389	652	23	1	1130	1	TOP1	20	39728804	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4417874	39728804	23296716	1373	95526											
CHD6	84181	broad.mit.edu	37	chr20	40034022	40034022	+	Silent	SNP	A	G	G	1	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	gagtctgccacaatggaaggAgccttcaggagttcgctccg	9	8	13	11	2	2	0	1	0	1	0	4	4	3	3	3	3	2	2	3	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:40034022A>G	uc002xka.1	-	37	7537	c.7359T>C	c.(7357-7359)GCT>GCC	p.A2453A	CHD6_uc002xjz.1_5'UTR	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	2453					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CAATGGAAGGAGCCTTCAGGA	0.542													24	35					0	0	1	0	0		G	40034022	G	G	40034022	2	3	190	1	0	0	0	0	0	0	0	1	3332	291	11	3		3	CHD6	20	40034022	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	305218	40034022	22991498	1374	95527											
CTSA	5476	broad.mit.edu	37	chr20	44527011	44527011	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacattgctcctcagggcgcCggccacatggttcccaccga	8	7	10	16	3	1	0	1	0	0	0	3	1	3	0	5	3	2	2	5	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:44527011C>T	uc002xqj.3	+	15	1839	c.1365C>T	c.(1363-1365)GCC>GCT	p.A455A	CTSA_uc002xqh.2_Silent_p.A473A|CTSA_uc002xqi.2_RNA|CTSA_uc010zxi.1_Silent_p.A456A|CTSA_uc002xqk.3_Silent_p.A455A	NM_001127695	NP_001121167	P10619	PPGB_HUMAN	cathepsin A isoform b precursor	455					intracellular protein transport|proteolysis	endoplasmic reticulum|lysosome|nucleus	enzyme activator activity|protein binding|serine-type carboxypeptidase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CTCAGGGCGCCGGCCACATGG	0.577													7	14					0	0	1	0	0		T	44527011	T	T	44527011	2	4	190	1	0	0	0	0	0	0	0	1	4032	639	23	1		1	CTSA	20	44527011	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4492989	44527011	18498509	1375	95528											
ARFGEF2	10564	broad.mit.edu	37	chr20	47630185	47630185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctggttccccatcttattcGaactctcctgcatcattaat	8	15	5	13	1	3	0	1	0	2	0	6	1	4	0	3	1	2	3	3	1	3	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:47630185G>A	uc002xtx.3	+	29	4155	c.4003G>A	c.(4003-4005)GAA>AAA	p.E1335K	ARFGEF2_uc010zyf.1_Missense_Mutation_p.E628K	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1335					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			CATCTTATTCGAACTCTCCTG	0.458													31	52					0	0	1	0	0		A	47630185	A	A	47630185	3	1	190	1	0	0	0	0	1	0	0	0	853	1059	37	1	4117	1	ARFGEF2	20	47630185	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3103174	47630185	15395335	1376	95529											
PTGIS	5740	broad.mit.edu	37	chr20	48156225	48156225	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttcatgggtgcgtggcagCgcctcaattccgtaaagagt	8	11	12	10	3	2	1	2	0	0	1	3	1	3	1	2	2	2	2	2	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:48156225C>T	uc002xut.2	-	5	609	c.555G>A	c.(553-555)GCG>GCA	p.A185A	PTGIS_uc010zyi.1_Silent_p.A46A	NM_000961	NP_000952	Q16647	PTGIS_HUMAN	prostaglandin I2 synthase	185					hormone biosynthetic process|prostaglandin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|prostaglandin-I synthase activity			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(12;2.37e-05)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Phenylbutazone(DB00812)	TGCGTGGCAGCGCCTCAATTC	0.632													14	9					0	0	1	0	0		T	48156225	T	T	48156225	2	4	190	1	0	0	0	0	0	0	0	1	12775	755	27	1		1	PTGIS	20	48156225	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	526040	48156225	14869295	1377	95530											
ATP9A	10079	broad.mit.edu	37	chr20	50312634	50312634	+	Frame_Shift_Del	DEL	T	-	-																															ttgatctcagatgtttaccgTttttttctgatgtcctcagg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:50312634delT	uc002xwg.1	-	6	545	c.545delA	c.(544-546)AACfs	p.N182fs	ATP9A_uc010gih.1_Intron|ATP9A_uc002xwf.1_5'UTR	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	182	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						ATGTTTACCGTTTTTTTCTGA	0.368													22	37	---	---	---	---						.	-	50312634	-	-	50312634	7	5	190	1	0	1	0	1	0	0	0	0	1199	1725	60	0	2690	0	ATP9A	20	50312634	Frame_Shift_Del	DEL	T	TCGA-F1-6177-01A-11D-1800-08	2156409	50312634	12712886	1378	95531											
MC3R	4159	broad.mit.edu	37	chr20	54824818	54824818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttccggagcctggaattgCgcaacacctttagggagatt	9	11	11	10	2	0	1	0	0	0	1	1	4	1	3	3	3	3	1	3	3	3	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:54824818C>T	uc002xxb.2	+	1	1031	c.919C>T	c.(919-921)CGC>TGC	p.R307C		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	344	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding	p.R344C(1)		ovary(2)|breast(2)	4			Colorectal(105;0.202)			CCTGGAATTGCGCAACACCTT	0.517													57	71					0	0	1	0	0		T	54824818	T	T	54824818	3	4	190	1	0	0	0	0	1	0	0	0	9383	768	27	1	921	1	MC3R	20	54824818	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	4512184	54824818	8200702	1379	95532											
ZBP1	81030	broad.mit.edu	37	chr20	56190020	56190020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcatcctgtacaagtctCggttcacatcttttgctgtc	6	17	6	12	1	5	0	2	0	3	0	8	0	6	0	1	1	2	3	1	1	2	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:56190020C>T	uc002xyo.2	-	4	706	c.425G>A	c.(424-426)CGA>CAA	p.R142Q	ZBP1_uc010gjm.2_Missense_Mutation_p.R142Q|ZBP1_uc002xyp.2_Missense_Mutation_p.R67Q|ZBP1_uc010zzn.1_Missense_Mutation_p.R142Q	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	142	DRADA 2.					cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	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)			GTACAAGTCTCGGTTCACATC	0.552													56	101					0	0	1	0	0		T	56190020	T	T	56190020	3	4	190	1	0	0	0	0	1	0	0	0	17546	884	31	1	961	1	ZBP1	20	56190020	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1365202	56190020	6835500	1380	95533											
GNAS	2778	broad.mit.edu	37	chr20	57415732	57415732	+	Frame_Shift_Del	DEL	G	-	-																															agccccagagccccagggaaGgggaggagctcaagcccgag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:57415732delG	uc002xzt.2	+	1	938	c.571delG	c.(571-573)GGGfs	p.G191fs	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CCCCAGGGAAGGGGAGGAGCT	0.662			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			7	15	---	---	---	---						.	-	57415732	-	-	57415732	7	5	190	1	0	1	0	1	0	0	0	0	6525	1000	35	0	573	0	GNAS	20	57415732	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	1225712	57415732	5609788	1381	95534											
ZNF831	128611	broad.mit.edu	37	chr20	57767064	57767064	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagaagccctgggatgccaaGgcccccgagggccggctgcg	7	3	17	14	3	0	1	0	0	0	1	0	4	0	2	5	4	3	1	5	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:57767064G>T	uc002yan.2	+	1	990	c.990G>T	c.(988-990)AAG>AAT	p.K330N		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	330						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGGATGCCAAGGCCCCCGAGG	0.726													19	14					1.33834e-09	1.40122e-09	1	1	0		T	57767064	T	T	57767064	3	4	190	1	0	0	0	0	1	0	0	0	18210	991	35	5	992	5	ZNF831	20	57767064	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	351332	57767064	5258456	1382	95535											
LAMA5	3911	broad.mit.edu	37	chr20	60887969	60887969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctggccgaggtcaggggcGgtgggggctgcagtgggacg	4	6	23	8	3	1	0	1	0	0	0	1	2	1	1	1	8	2	3	1	8	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:60887969G>A	uc002ycq.2	-	66	9120	c.9053C>T	c.(9052-9054)CCG>CTG	p.P3018L		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3018	Laminin G-like 2.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTCAGGGGCGGTGGGGGCTG	0.672													10	20					0	0	1	0	0		A	60887969	A	A	60887969	3	1	190	1	0	0	0	0	1	0	0	0	8625	1116	39	1	2094	1	LAMA5	20	60887969	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3120905	60887969	2137551	1383	95536											
CABLES2	81928	broad.mit.edu	37	chr20	60966455	60966455	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacacgtaggccatggccacCgtcacgggctccaggctgca	8	6	12	15	3	1	0	1	0	0	0	2	0	2	0	4	4	2	4	4	4	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:60966455C>T	uc002ycv.2	-	9	1153	c.1146G>A	c.(1144-1146)ACG>ACA	p.T382T		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	382					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			CCATGGCCACCGTCACGGGCT	0.632													51	78					0	0	1	0	0		T	60966455	T	T	60966455	2	4	190	1	0	0	0	0	0	0	0	1	2533	639	23	1		1	CABLES2	20	60966455	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	78486	60966455	2059065	1384	95537											
DIDO1	11083	broad.mit.edu	37	chr20	61511207	61511207	+	Frame_Shift_Del	DEL	G	-	-																															agcggtccttccggtgctgcGgggggtggctgggaagctcc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:61511207delG	uc002ydr.1	-	16	6365	c.6101delC	c.(6100-6102)CCGfs	p.P2034fs	DIDO1_uc002yds.1_Frame_Shift_Del_p.P2034fs	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	2034	Pro-rich.				apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CCGGTGCTGCGGGGGGTGGCT	0.716													29	38	---	---	---	---						.	-	61511207	-	-	61511207	7	5	190	1	0	1	0	1	0	0	0	0	4528	1116	39	0	625	0	DIDO1	20	61511207	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	544752	61511207	1514313	1385	95538											
DIDO1	11083	broad.mit.edu	37	chr20	61513747	61513747	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actaacccaagaattatattCggacgtggtgactcaagacc	14	9	8	10	2	1	3	1	1	0	2	2	4	1	4	2	2	1	0	2	2	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:61513747C>T	uc002ydr.1	-	16	3825	c.3561G>A	c.(3559-3561)CCG>CCA	p.P1187P	DIDO1_uc002yds.1_Silent_p.P1187P	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1187					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					GAATTATATTCGGACGTGGTG	0.398													34	58					0	0	1	0	0		T	61513747	T	T	61513747	2	4	190	1	0	0	0	0	0	0	0	1	4528	871	31	1		1	DIDO1	20	61513747	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2540	61513747	1511773	1386	95539											
SLC17A9	63910	broad.mit.edu	37	chr20	61595621	61595621	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttggttggtggcgattccGgccagtctattcagcgggtt	4	13	14	10	3	2	0	1	0	1	0	3	1	3	0	3	5	1	2	3	5	1	6	rs147672643	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:61595621G>A	uc002yea.3	+	8	1048	c.864G>A	c.(862-864)CCG>CCA	p.P288P	SLC17A9_uc002ydz.3_Silent_p.P282P|SLC17A9_uc011aap.1_Silent_p.P308P	NM_022082	NP_071365	Q9BYT1	S17A9_HUMAN	vesicular nucleotide transporter SLC17A9	288	Helical; (Potential).				exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2						TGGCGATTCCGGCCAGTCTAT	0.612													88	159					0	0	1	0	0		A	61595621	A	A	61595621	2	1	190	1	0	0	0	0	0	0	0	1	14449	1103	39	1		1	SLC17A9	20	61595621	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	81874	61595621	1429899	1387	95540											
PRIC285	85441	broad.mit.edu	37	chr20	62203698	62203698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgtgagcaggtcccccCgctggaggccacccagctgc	5	5	16	15	1	0	1	0	1	0	0	1	2	1	2	5	5	3	3	5	5	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr20:62203698C>T	uc002yfm.2	-	2	933	c.41G>A	c.(40-42)CGG>CAG	p.R14Q	PRIC285_uc002yfn.2_Missense_Mutation_p.R14Q	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	14					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CAGGTCCCCCCGCTGGAGGCC	0.736													3	3					0	0	1	0	0		T	62203698	T	T	62203698	3	4	190	1	0	0	0	0	1	0	0	0	12507	652	23	1	8007	1	PRIC285	20	62203698	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	608077	62203698	821822	1388	95541											
NCAM2	4685	broad.mit.edu	37	chr21	22656690	22656690	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	cagatgccaaaggacaaacaCaagaagctacagtagttttg	17	7	9	8	0	0	2	0	0	0	2	0	3	0	3	1	1	4	3	1	1	6	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:22656690C>G	uc002yld.1	+	3	556	c.307C>G	c.(307-309)CAA>GAA	p.Q103E	NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Missense_Mutation_p.Q128E	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	103	Ig-like C2-type 1.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AGGACAAACACAAGAAGCTAC	0.323													19	36					0	0	1	0	0		G	22656690	G	G	22656690	3	3	190	1	0	0	0	0	1	0	0	0	10222	479	17	5	317	5	NCAM2	21	22656690	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		22656690	25473205	1389	95542											
ADAMTS1	9510	broad.mit.edu	37	chr21	28216622	28216622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctcgccctcagtcccttCgtcctcgtcttcggtctccg	1	13	8	19	5	3	0	1	0	2	0	11	0	6	0	5	1	0	0	5	1	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:28216622C>T	uc002ymf.2	-	1	1107	c.652G>A	c.(652-654)GAA>AAA	p.E218K		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	218					integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		TCAGTCCCTTCGTCCTCGTCT	0.677											OREG0026151	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	11					0	0	1	0	0		T	28216622	T	T	28216622	3	4	190	1	0	0	0	0	1	0	0	0	255	893	31	1	2287	1	ADAMTS1	21	28216622	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	5559932	28216622	19913273	1390	95543											
DNAJC28	54943	broad.mit.edu	37	chr21	34861110	34861110	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actaaacgttctatagcttgCgttatcttttgctgtttgct	7	19	7	8	2	2	0	0	0	2	0	2	0	2	0	0	0	5	6	0	0	5	9			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:34861110C>T	uc002yrv.2	-	2	1040	c.591G>A	c.(589-591)ACG>ACA	p.T197T	DNAJC28_uc002yrw.2_Silent_p.T197T	NM_017833	NP_060303	Q9NX36	DJC28_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 28	197							heat shock protein binding				0						CTATAGCTTGCGTTATCTTTT	0.358													72	108					0	0	1	0	0		T	34861110	T	T	34861110	2	4	190	1	0	0	0	0	0	0	0	1	4652	755	27	1		1	DNAJC28	21	34861110	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	6644488	34861110	13268785	1391	95544											
MORC3	23515	broad.mit.edu	37	chr21	37741742	37741742	+	Silent	SNP	A	G	G	1	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	gataaatctgcagatgatgcAggctgccaattacaagaact	15	9	9	8	0	1	3	0	1	1	2	1	4	1	3	1	1	5	3	1	1	6	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:37741742A>G	uc002yvi.2	+	15	2152	c.2076A>G	c.(2074-2076)GCA>GCG	p.A692A		NM_015358	NP_056173	Q14149	MORC3_HUMAN	MORC family CW-type zinc finger 3	692	Potential.				cell aging|maintenance of protein location in nucleus|negative regulation of fibroblast proliferation|peptidyl-serine phosphorylation|protein stabilization	aggresome|intermediate filament cytoskeleton|PML body	ATP binding|zinc ion binding			ovary(2)	2						CAGATGATGCAGGCTGCCAAT	0.403													31	51					0	0	1	0	0		G	37741742	G	G	37741742	2	3	190	1	0	0	0	0	0	0	0	1	9721	175	7	3		3	MORC3	21	37741742	Silent	SNP	A	TCGA-F1-6177-01A-11D-1800-08	2880632	37741742	10388153	1392	95545											
CLDN14	23562	broad.mit.edu	37	chr21	37833534	37833534	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatctcaaacttcatgccgcTgggcagcagcgggttgtaga	10	9	12	10	2	2	1	2	0	1	1	3	1	2	1	1	2	4	5	1	2	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:37833534T>C	uc002yvk.1	-	2	602	c.460A>G	c.(460-462)AGC>GGC	p.S154G	CLDN14_uc002yvn.1_Missense_Mutation_p.S154G|CLDN14_uc002yvo.1_Missense_Mutation_p.S154G|CLDN14_uc002yvl.1_Missense_Mutation_p.S154G|CLDN14_uc002yvm.1_Missense_Mutation_p.S154G	NM_012130	NP_036262	O95500	CLD14_HUMAN	claudin 14	154	Extracellular (Potential).				calcium-independent cell-cell adhesion|protein complex assembly|tight junction assembly	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						TTCATGCCGCTGGGCAGCAGC	0.627													6	79					0	0	1	0	0		C	37833534	C	C	37833534	3	2	190	1	0	0	0	0	1	0	0	0	3478	1580	55	3	263	3	CLDN14	21	37833534	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	91792	37833534	10296361	1393	95546											
CLDN14	23562	broad.mit.edu	37	chr21	37833611	37833611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaccatgcacaggaggccgGccaggatgaagagggtgccg	10	3	16	12	2	0	2	0	1	0	1	0	4	0	4	5	5	2	1	5	5	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:37833611G>A	uc002yvk.1	-	2	525	c.383C>T	c.(382-384)GCC>GTC	p.A128V	CLDN14_uc002yvn.1_Missense_Mutation_p.A128V|CLDN14_uc002yvo.1_Missense_Mutation_p.A128V|CLDN14_uc002yvl.1_Missense_Mutation_p.A128V|CLDN14_uc002yvm.1_Missense_Mutation_p.A128V	NM_012130	NP_036262	O95500	CLD14_HUMAN	claudin 14	128	Helical; (Potential).				calcium-independent cell-cell adhesion|protein complex assembly|tight junction assembly	endoplasmic reticulum|integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CAGGAGGCCGGCCAGGATGAA	0.642													10	87					0	0	1	0	0		A	37833611	A	A	37833611	3	1	190	1	0	0	0	0	1	0	0	0	3478	1203	42	2	340	2	CLDN14	21	37833611	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	77	37833611	10296284	1394	95547											
ERG	2078	broad.mit.edu	37	chr21	39772564	39772564	+	Frame_Shift_Del	DEL	C	-	-																															ttgggaaaataaaagctgcaCcccctgcagacaaaaggaaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:39772564delC	uc010gnw.2	-	8	993	c.698delG	c.(697-699)GGTfs	p.G233fs	ERG_uc002yxa.2_Frame_Shift_Del_p.G226fs|ERG_uc011aek.1_Frame_Shift_Del_p.G134fs|ERG_uc010gnv.2_Intron|ERG_uc010gnx.2_Intron|ERG_uc011ael.1_Frame_Shift_Del_p.G233fs|ERG_uc002yxb.2_Intron|ERG_uc011aem.1_Intron|ERG_uc002yxc.3_Frame_Shift_Del_p.G233fs|ERG_uc010gny.1_Intron	NM_001136155	NP_001129627	P11308	ERG_HUMAN	ets-related isoform 4	233					cell proliferation|multicellular organismal development|protein phosphorylation	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity		TMPRSS2/ERG(2499)|FUS/ERG(163)|EWSR1/ERG(162)	prostate(2499)|bone(167)|haematopoietic_and_lymphoid_tissue(153)|soft_tissue(5)|lung(2)|skin(1)|ovary(1)	2828		Prostate(19;3.6e-06)				AAAAGCTGCACCCCCTGCAGA	0.418													31	48	---	---	---	---						.	-	39772564	-	-	39772564	7	5	190	1	0	1	0	1	0	0	0	0	5230	507	18	0	782	0	ERG	21	39772564	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1938953	39772564	8357331	1395	95548											
ETS2	2114	broad.mit.edu	37	chr21	40186201	40186201	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtttccttccagactcCgccaactgtgaattgccttt	6	13	10	12	1	0	2	0	1	0	1	3	2	3	2	5	2	2	1	5	2	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:40186201C>T	uc002yxg.2	+	4	385	c.189C>T	c.(187-189)TCC>TCT	p.S63S	ETS2_uc002yxf.2_Silent_p.S203S	NM_005239	NP_005230	P15036	ETS2_HUMAN	v-ets erythroblastosis virus E26 oncogene	63					positive regulation of transcription, DNA-dependent|skeletal system development	nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|breast(1)|pancreas(1)	4		Prostate(19;6.33e-08)|all_epithelial(19;0.123)				TTCCAGACTCCGCCAACTGTG	0.473													57	71					0	0	1	0	0		T	40186201	T	T	40186201	2	4	190	1	0	0	0	0	0	0	0	1	5284	639	23	1		1	ETS2	21	40186201	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	413637	40186201	7943694	1396	95549											
BRWD1	54014	broad.mit.edu	37	chr21	40570895	40570896	+	Frame_Shift_Ins	INS	-	T	T																															tgagtcactcagaatcttggINStttttttaaagaaactcgca																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:40570895_40570896insT	uc002yxk.1	-	40	5585_5586	c.5446_5447insA	c.(5446-5448)ACCfs	p.T1816fs	BRWD1_uc010goc.1_Frame_Shift_Ins_p.T459fs|BRWD1_uc002yxl.2_Frame_Shift_Ins_p.T1816fs	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1816					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				CAGAATCTTGGTTTTTTTAAAG	0.386													66	100	---	---	---	---						.	T	40570896	T	T	40570895	7	5	190	1	0	1	1	0	0	0	0	0	1528	1261	44	0	1766	0	BRWD1	21	40570895	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	384694	40570895	7559000	1397	95550											
PRDM15	63977	broad.mit.edu	37	chr21	43231123	43231123	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcacctgtgtggatgagcTtgtgggtctccatggtgttc	4	14	14	9	0	2	1	1	1	1	0	4	2	2	2	2	3	1	3	2	3	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:43231123T>C	uc002yzq.1	-	27	3671	c.3560A>G	c.(3559-3561)AAG>AGG	p.K1187R	PRDM15_uc002yzo.2_Missense_Mutation_p.K858R|PRDM15_uc002yzp.2_Missense_Mutation_p.K878R|PRDM15_uc002yzr.1_Missense_Mutation_p.K878R	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	1187	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTGGATGAGCTTGTGGGTCTC	0.577													25	34					0	0	1	0	0		C	43231123	C	C	43231123	3	2	190	1	0	0	0	0	1	0	0	0	12478	1609	56	3	983	3	PRDM15	21	43231123	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	2660228	43231123	4898772	1398	95551											
ZNF295	49854	broad.mit.edu	37	chr21	43411609	43411609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttggaaagactaaggtcttCgggaagacaagaggaatctt	14	9	12	6	1	2	3	0	0	2	3	3	6	2	6	0	4	0	0	0	4	5	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:43411609C>T	uc002zab.3	-	3	2810	c.2596G>A	c.(2596-2598)GAA>AAA	p.E866K	ZNF295_uc002yzz.3_Missense_Mutation_p.E665K|ZNF295_uc002yzy.3_Missense_Mutation_p.E866K|ZNF295_uc002zaa.3_Missense_Mutation_p.E866K	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	866					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CTAAGGTCTTCGGGAAGACAA	0.483													49	72					0	0	1	0	0		T	43411609	T	T	43411609	3	4	190	1	0	0	0	0	1	0	0	0	17852	893	31	1	608	1	ZNF295	21	43411609	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	180486	43411609	4718286	1399	95552											
LRRC3	81543	broad.mit.edu	37	chr21	45877042	45877042	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctctgtggacgagatcgcctGccacacctcagtgcaggagg	8	7	13	13	2	2	1	1	0	1	1	3	4	2	3	3	3	2	1	3	3	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:45877042G>A	uc002zfa.2	+	2	808	c.515G>A	c.(514-516)TGC>TAC	p.C172Y		NM_030891	NP_112153	Q9BY71	LRRC3_HUMAN	leucine-rich repeat-containing 3 precursor	172						integral to membrane	protein binding				0		Breast(209;0.00908)		COAD - Colon adenocarcinoma(84;0.148)|Lung(125;0.195)		GAGATCGCCTGCCACACCTCA	0.647													18	32					0	0	1	0	0		A	45877042	A	A	45877042	3	1	190	1	0	0	0	0	1	0	0	0	9002	1319	46	2	517	2	LRRC3	21	45877042	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2465433	45877042	2252853	1400	95553											
KRTAP10-9	386676	broad.mit.edu	37	chr21	46047173	46047173	+	Frame_Shift_Del	DEL	C	-	-																															gcccagagagctgctgtgagCccccctgctgcgccaccagc																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:46047173delC	uc002zfp.3	+	1	134	c.85delC	c.(85-87)CCCfs	p.P29fs	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198690	NP_941963	P60411	KR109_HUMAN	keratin associated protein 10-9	29	1.|25 X 5 AA repeats of C-C-X(3).					keratin filament					0						CTGCTGTGAGCCCCCCTGCTG	0.697													32	48	---	---	---	---						.	-	46047173	-	-	46047173	7	5	190	1	0	1	0	1	0	0	0	0	8532	739	26	0	87	0	KRTAP10-9	21	46047173	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	170131	46047173	2082722	1401	95554											
KRTAP10-12	386685	broad.mit.edu	37	chr21	46117692	46117692	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcctgctgcagaccctcCtcctccgtgtccctcctctg	3	11	6	21	1	1	1	0	0	1	1	7	1	7	1	8	0	2	2	8	0	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:46117692C>T	uc002zfw.1	+	1	606	c.576C>T	c.(574-576)TCC>TCT	p.S192S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198699	NP_941972	P60413	KR10C_HUMAN	keratin associated protein 10-12	192	18.|19 X 5 AA repeats of C-C-X(3).					keratin filament					0						GCAGACCCTCCTCCTCCGTGT	0.687													85	110					0	0	1	0	0		T	46117692	T	T	46117692	2	4	190	1	0	0	0	0	0	0	0	1	8524	668	24	4		4	KRTAP10-12	21	46117692	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	70519	46117692	2012203	1402	95555											
SUMO3	6612	broad.mit.edu	37	chr21	46233931	46233931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcagcttgctcagcggcGtgtgcctcttgatcttgaac	6	13	10	12	2	5	2	3	2	2	0	5	2	5	2	1	1	5	2	1	1	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:46233931G>A	uc002zfz.1	-	2	271	c.110C>T	c.(109-111)ACG>ATG	p.T37M	SUMO3_uc011afi.1_Missense_Mutation_p.T37M|SUMO3_uc002zga.1_Missense_Mutation_p.T37M	NM_006936	NP_008867	P55854	SUMO3_HUMAN	small ubiquitin-like modifier protein 3	37	Ubiquitin-like.				protein sumoylation	cytoplasm|kinetochore	protein binding				0				Colorectal(79;0.058)		GCTCAGCGGCGTGTGCCTCTT	0.617													41	73					0	0	1	0	0		A	46233931	A	A	46233931	3	1	190	1	0	0	0	0	1	0	0	0	15414	1145	40	1	213	1	SUMO3	21	46233931	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	116239	46233931	1895964	1403	95556											
COL6A2	1292	broad.mit.edu	37	chr21	47552299	47552299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgagtcggcgcactccatgCgcaagcagaacgtggtaccc	10	5	12	14	5	0	1	0	0	0	1	2	2	1	1	2	2	4	4	2	2	3	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:47552299C>T	uc002zia.1	+	28	2975	c.2893C>T	c.(2893-2895)CGC>TGC	p.R965C	COL6A2_uc002zib.1_Missense_Mutation_p.R371C|COL6A2_uc002zic.1_Silent_p.C39C|COL6A2_uc010gqe.1_RNA	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	965	Nonhelical region.|VWFA 3.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GCACTCCATGCGCAAGCAGAA	0.687													16	23					0	0	1	0	0		T	47552299	T	T	47552299	3	4	190	1	0	0	0	0	1	0	0	0	3703	768	27	1	3329	1	COL6A2	21	47552299	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1318368	47552299	577596	1404	95557											
MCM3AP	8888	broad.mit.edu	37	chr21	47663638	47663638	+	Splice_Site	SNP	T	C	C	0	1	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	cacacggggagccagggggcTggggagaaagtgcctcatta	10	5	17	9	1	1	1	1	0	0	1	1	3	1	2	2	6	2	1	2	6	2	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:47663638T>C	uc002zir.1	-	24	5075	c.5039_splice	c.e24-1	p.A1680_splice	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_Splice_Site_p.A175_splice|MCM3AP_uc002zip.1_Splice_Site_p.A421_splice|MCM3AP_uc002ziq.1_Splice_Site_p.A607_splice|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3						DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					GCCAGGGGGCTGGGGAGAAAG	0.532													20	12					0	0	1	0	0		C	47663638	C	C	47663638	5	2	190	1	0	0	0	0	0	0	1	0	9406	1594	55	3	925	3	MCM3AP	21	47663638	Splice_Site	SNP	T	TCGA-F1-6177-01A-11D-1800-08	111339	47663638	466257	1405	95558											
MCM3AP	8888	broad.mit.edu	37	chr21	47686064	47686064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggttccaggaatgcagaccGgttcagctccacacagctac	10	8	10	13	1	1	1	1	0	0	1	3	2	3	2	3	3	4	5	3	3	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:47686064G>A	uc002zir.1	-	11	2842	c.2806C>T	c.(2806-2808)CGG>TGG	p.R936W	MCM3AP_uc002ziq.1_5'UTR	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	936					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					AATGCAGACCGGTTCAGCTCC	0.562													65	112					0	0	1	0	0		A	47686064	A	A	47686064	3	1	190	1	0	0	0	0	1	0	0	0	9406	1115	39	1	3208	1	MCM3AP	21	47686064	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	22426	47686064	443831	1406	95559											
PCNT	5116	broad.mit.edu	37	chr21	47841990	47841990	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atctctggaaggtttcagccGctgccggaagccatgaagga	10	8	13	10	2	2	1	1	1	1	0	3	4	2	4	3	4	3	2	3	4	3	1	rs142266651		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:47841990G>A	uc002zji.3	+	32	7238	c.7131G>A	c.(7129-7131)CCG>CCA	p.P2377P	PCNT_uc002zjj.2_Silent_p.P2259P	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2377					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GGTTTCAGCCGCTGCCGGAAG	0.622													11	34					0	0	1	0	0		A	47841990	A	A	47841990	2	1	190	1	0	0	0	0	0	0	0	1	11609	1074	38	1		1	PCNT	21	47841990	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	155926	47841990	287905	1407	95560											
DIP2A	23181	broad.mit.edu	37	chr21	47924285	47924286	+	Frame_Shift_Ins	INS	-	C	C																															aaaagcagatctgcattctgINScccctcctgatgtcaccacg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:47924285_47924286insC	uc002zjo.2	+	6	850_851	c.667_668insC	c.(667-669)GCCfs	p.A223fs	DIP2A_uc011afy.1_Frame_Shift_Ins_p.A159fs|DIP2A_uc011afz.1_Frame_Shift_Ins_p.A223fs|DIP2A_uc002zjl.2_Frame_Shift_Ins_p.A223fs|DIP2A_uc002zjm.2_Frame_Shift_Ins_p.A223fs|DIP2A_uc010gql.2_Intron|DIP2A_uc002zjn.2_Frame_Shift_Ins_p.A223fs|DIP2A_uc002zjp.1_5'UTR	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	223					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TCTGCATTCTGCCCCTCCTGAT	0.505													11	11	---	---	---	---						.	C	47924286	C	C	47924285	7	5	190	1	0	1	1	0	0	0	0	0	4533	1319	46	0	689	0	DIP2A	21	47924285	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	82295	47924285	205610	1408	95561											
PRMT2	3275	broad.mit.edu	37	chr21	48083456	48083456	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	cacttccagacaagaccccaCatctcaaaaagtaagatacg	17	6	5	13	1	1	3	1	0	1	3	3	3	2	3	3	0	1	1	3	0	5	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr21:48083456C>G	uc002zjx.2	+	11	1573	c.1259C>G	c.(1258-1260)ACA>AGA	p.T420R	PRMT2_uc002zjy.2_Missense_Mutation_p.T420R|PRMT2_uc010gqm.2_Missense_Mutation_p.T318R|PRMT2_uc011aga.1_Missense_Mutation_p.H272Q|PRMT2_uc011agb.1_Intron|PRMT2_uc011agc.1_Intron	NM_206962	NP_996845	P55345	ANM2_HUMAN	HMT1 hnRNP methyltransferase-like 1	420					developmental cell growth|induction of apoptosis|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of androgen receptor signaling pathway	cytosol|nucleus	androgen receptor binding|estrogen receptor binding|histone-arginine N-methyltransferase activity|peroxisome proliferator activated receptor binding|progesterone receptor binding|protein homodimerization activity|retinoic acid receptor binding|signal transducer activity|thyroid hormone receptor binding|transcription coactivator activity			ovary(1)	1	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)		CAAGACCCCACATCTCAAAAA	0.547													20	29					0	0	1	0	0		G	48083456	G	G	48083456	3	3	190	1	0	0	0	0	1	0	0	0	12559	478	17	5	1293	5	PRMT2	21	48083456	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	159171	48083456	46439	1409	95562											
POTEH	23784	broad.mit.edu	37	chr22	16267071	16267071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcccatatgagtacttcCgtgcttcttcatttcttctt	7	18	5	11	1	4	1	1	1	3	0	6	2	6	1	2	0	2	2	2	0	3	8			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:16267071C>T	uc010gqp.2	-	9	1430	c.1378G>A	c.(1378-1380)GGA>AGA	p.G460R	POTEH_uc002zlg.1_RNA|POTEH_uc002zlh.1_Missense_Mutation_p.G179R|POTEH_uc002zlj.1_Missense_Mutation_p.G295R	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	460										skin(1)	1						TGAGTACTTCCGTGCTTCTTC	0.363													39	342					0	0	1	0	0		T	16267071	T	T	16267071	3	4	190	1	0	0	0	0	1	0	0	0	12286	661	23	1	267	1	POTEH	22	16267071	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08		16267071	35037495	1410	95563											
MICAL3	57553	broad.mit.edu	37	chr22	18379717	18379717	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggtccacgttttctcGggaaagcaggagctctgtgt	6	12	12	11	2	2	0	0	0	2	0	5	2	4	2	2	3	2	3	2	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:18379717G>A	uc002zng.3	-	8	1332	c.979C>T	c.(979-981)CGA>TGA	p.R327*	MICAL3_uc011agl.1_Nonsense_Mutation_p.R327*|MICAL3_uc002znh.2_Nonsense_Mutation_p.R327*|MICAL3_uc002znj.1_Nonsense_Mutation_p.R27*|MICAL3_uc002znk.1_Nonsense_Mutation_p.R327*|MICAL3_uc002znl.1_5'UTR|MICAL3_uc010grf.2_Nonsense_Mutation_p.R327*	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	327						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		ACGTTTTCTCGGGAAAGCAGG	0.562											OREG0026285	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	32					0	0	1	0	0		A	18379717	A	A	18379717	4	1	190	1	0	0	0	0	0	1	0	0	9589	1124	39	1	5866	1	MICAL3	22	18379717	Nonsense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2112646	18379717	32924849	1411	95564											
MRPL40	64976	broad.mit.edu	37	chr22	19420868	19420868	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttctgggaactcattcccaTgaggtaaaactcaatcgagg	12	11	9	9	1	3	1	2	1	1	0	5	3	4	2	1	3	2	1	1	3	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:19420868T>C	uc002zpg.2	+	2	176	c.134T>C	c.(133-135)ATG>ACG	p.M45T	HIRA_uc002zpf.1_5'Flank|HIRA_uc011agx.1_5'Flank|HIRA_uc010grn.1_5'Flank|HIRA_uc010gro.1_Intron|HIRA_uc010grp.2_Intron|MRPL40_uc002zph.2_Missense_Mutation_p.M1T	NM_003776	NP_003767	Q9NQ50	RM40_HUMAN	mitochondrial ribosomal protein L40 precursor	45					anatomical structure morphogenesis	mitochondrial ribosome|nucleus					0	Colorectal(54;0.0993)					CTCATTCCCATGAGGTAAAAC	0.468													11	13					0	0	1	0	0		C	19420868	C	C	19420868	3	2	190	1	0	0	0	0	1	0	0	0	9822	1464	51	3	140	3	MRPL40	22	19420868	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	1041151	19420868	31883698	1412	95565											
ZDHHC8	29801	broad.mit.edu	37	chr22	20130311	20130311	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gattccctgaccctgggggaCgacagcatccgtagcctgga	8	7	13	13	2	0	1	0	1	0	0	2	5	2	3	4	3	2	2	4	3	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:20130311C>T	uc002zrq.2	+	10	1264	c.1158C>T	c.(1156-1158)GAC>GAT	p.D386D	ZDHHC8_uc002zrr.1_Silent_p.D386D|ZDHHC8_uc010gsa.2_Silent_p.D192D	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	386	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					CCCTGGGGGACGACAGCATCC	0.667													11	24					0	0	1	0	0		T	20130311	T	T	20130311	2	4	190	1	0	0	0	0	0	0	0	1	17646	535	19	1		1	ZDHHC8	22	20130311	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	709443	20130311	31174255	1413	95566											
MED15	51586	broad.mit.edu	37	chr22	20936976	20936976	+	Frame_Shift_Del	DEL	C	-	-																															ccccgcagtcgatgccccctCccccccagccgtccccgcag																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:20936976delC	uc002zsp.2	+	10	1431	c.1351delC	c.(1351-1353)CCCfs	p.P451fs	MED15_uc002zsq.2_Frame_Shift_Del_p.P411fs|MED15_uc010gso.2_Frame_Shift_Del_p.P394fs|MED15_uc002zsr.2_Frame_Shift_Del_p.P385fs|MED15_uc011ahs.1_Frame_Shift_Del_p.P385fs|MED15_uc002zss.2_Frame_Shift_Del_p.P330fs|MED15_uc011ahu.1_Frame_Shift_Del_p.P161fs|MED15_uc002zst.2_Frame_Shift_Del_p.P67fs|MED15_uc002zsu.2_Frame_Shift_Del_p.P56fs	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	451	Pro-rich.|Poly-Pro.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			GATGCCCCCTCCCCCCCAGCC	0.726													9	15	---	---	---	---						.	-	20936976	-	-	20936976	7	5	190	1	0	1	0	1	0	0	0	0	9451	855	30	0	1389	0	MED15	22	20936976	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	806665	20936976	30367590	1414	95567											
MED15	51586	broad.mit.edu	37	chr22	20940112	20940112	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagaccggcagtggcagtaCggtaggtagacccagaggag	12	5	16	8	2	0	3	0	0	0	3	0	4	0	4	2	5	1	5	2	5	4	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:20940112C>T	uc002zsp.2	+	17	2309	c.2229C>T	c.(2227-2229)TAC>TAT	p.Y743Y	MED15_uc002zsq.2_Silent_p.Y703Y|MED15_uc010gso.2_Silent_p.Y686Y|MED15_uc002zsr.2_Silent_p.Y677Y|MED15_uc011ahs.1_Silent_p.Y677Y|MED15_uc002zss.2_Silent_p.Y622Y|MED15_uc011ahu.1_Silent_p.Y453Y|MED15_uc002zst.2_Silent_p.Y359Y|MED15_uc002zsu.2_Silent_p.Y348Y	NM_001003891	NP_001003891	Q96RN5	MED15_HUMAN	mediator complex subunit 15 isoform a	743					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|mediator complex	protein binding			skin(1)	1	all_cancers(11;2.07e-24)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)|Epithelial(17;0.209)			AGTGGCAGTACGGTAGGTAGA	0.607													9	17					0	0	1	0	0		T	20940112	T	T	20940112	2	4	190	1	0	0	0	0	0	0	0	1	9451	550	19	1		1	MED15	22	20940112	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3136	20940112	30364454	1415	95568											
PI4KA	5297	broad.mit.edu	37	chr22	21065106	21065106	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgatgtcgggttcccagccGagattgccgcccggcgagct	5	9	14	13	5	0	2	0	1	0	1	2	4	1	2	4	2	3	2	4	2	0	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:21065106G>A	uc002zsz.3	-	52	6021	c.5790C>T	c.(5788-5790)CTC>CTT	p.L1930L	PI4KA_uc010gsp.2_Silent_p.L321L|PI4KA_uc002zsy.3_Silent_p.L740L	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	1930	PI3K/PI4K.				phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			GTTCCCAGCCGAGATTGCCGC	0.567													16	33					0	0	1	0	0		A	21065106	A	A	21065106	2	1	190	1	0	0	0	0	0	0	0	1	11892	1045	37	1		1	PI4KA	22	21065106	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	124994	21065106	30239460	1416	95569											
SNAP29	9342	broad.mit.edu	37	chr22	21224675	21224675	+	Silent	SNP	C	T	T	0	0	0	1	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	cgcacagagaagatggtggaCaagatggaccaagatttgaa	16	6	13	6	1	0	5	0	1	0	4	0	8	0	7	1	3	0	1	1	3	4	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:21224675C>T	uc011ahw.1	+	2	395	c.288C>T	c.(286-288)GAC>GAT	p.D96D		NM_004782	NP_004773	O95721	SNP29_HUMAN	synaptosomal-associated protein 29	96	Potential.				cellular membrane fusion|exocytosis|protein transport|vesicle targeting	cell junction|cytoplasm|nucleus|synapse|synaptosome	SNAP receptor activity				0	all_cancers(11;2.77e-25)|all_epithelial(7;8.92e-24)|Lung NSC(8;1.49e-15)|all_lung(8;2.54e-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;0.000592)|Lung(15;0.0117)			AGATGGTGGACAAGATGGACC	0.512													6	125					0	0	1	0	0		T	21224675	T	T	21224675	2	4	190	1	0	0	0	0	0	0	0	1	14856	477	17	4		4	SNAP29	22	21224675	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	159569	21224675	30079891	1417	95570											
SLC7A4	6545	broad.mit.edu	37	chr22	21385285	21385285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcaatggcaagcgagatggCgatggccagaggcacagacc	12	4	15	10	2	0	3	0	0	0	3	0	5	0	3	2	4	2	3	2	4	2	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:21385285C>T	uc002zud.2	-	2	885	c.817G>A	c.(817-819)GCC>ACC	p.A273T	SLC7A4_uc002zue.2_Missense_Mutation_p.A273T	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	273	Helical; (Potential).				cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AGCGAGATGGCGATGGCCAGA	0.632													10	22					0	0	1	0	0		T	21385285	T	T	21385285	3	4	190	1	0	0	0	0	1	0	0	0	14724	768	27	1	1106	1	SLC7A4	22	21385285	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	160610	21385285	29919281	1418	95571											
MAPK1	5594	broad.mit.edu	37	chr22	22160224	22160224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaatggatatattttaacCctctgaggatctggtagaga	12	13	10	6	0	2	3	0	2	2	1	2	6	2	5	1	3	1	1	1	3	5	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:22160224C>T	uc002zvn.2	-	3	647	c.407G>A	c.(406-408)GGG>GAG	p.G136E	MAPK1_uc002zvo.2_Missense_Mutation_p.G136E|MAPK1_uc010gtk.1_Missense_Mutation_p.G136E	NM_002745	NP_002736	P28482	MK01_HUMAN	mitogen-activated protein kinase 1	136	Protein kinase.				activation of MAPK activity|activation of MAPKK activity|axon guidance|cell cycle|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|induction of apoptosis|innate immune response|insulin receptor signaling pathway|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|Ras protein signal transduction|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription, DNA-dependent	cytosol|nucleoplasm	ATP binding|DNA binding|MAP kinase activity|phosphatase binding|RNA polymerase II carboxy-terminal domain kinase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	Colorectal(54;0.105)	all_lung(157;3.89e-05)		READ - Rectum adenocarcinoma(21;0.0689)	Arsenic trioxide(DB01169)	ATATTTTAACCCTCTGAGGAT	0.448													59	89					0	0	1	0	0		T	22160224	T	T	22160224	3	4	190	1	0	0	0	0	1	0	0	0	9289	623	22	4	699	4	MAPK1	22	22160224	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	774939	22160224	29144342	1419	95572											
SMARCB1	6598	broad.mit.edu	37	chr22	24145518	24145518	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctgtgatccatgagaaCgcatctcagcccgaggtgct	9	8	11	13	2	1	2	1	2	1	1	3	4	2	2	3	1	4	3	3	1	1	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:24145518C>T	uc002zyb.2	+	5	744	c.537C>T	c.(535-537)AAC>AAT	p.N179N	SMARCB1_uc002zya.2_Silent_p.N179N|SMARCB1_uc002zyc.2_Silent_p.N170N|SMARCB1_uc002zyd.2_Silent_p.N188N|SMARCB1_uc002zye.1_Silent_p.N105N|SMARCB1_uc002zyf.1_RNA|SMARCB1_uc010gue.1_RNA	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	179	DNA-binding (Potential).				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(5)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				TCCATGAGAACGCATCTCAGC	0.552			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				57	76					0	0	1	0	0		T	24145518	T	T	24145518	2	4	190	1	0	0	0	0	0	0	0	1	14799	535	19	1		1	SMARCB1	22	24145518	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1985294	24145518	27159048	1420	95573											
TFIP11	24144	broad.mit.edu	37	chr22	26892177	26892177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctggacagcttactacGgatgggggaatagagtggct	9	8	17	7	2	0	1	0	0	0	1	0	4	0	4	0	6	3	3	0	6	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:26892177G>A	uc003acr.2	-	11	2085	c.1711C>T	c.(1711-1713)CGT>TGT	p.R571C	TFIP11_uc003acq.2_5'Flank|TFIP11_uc003acs.2_Missense_Mutation_p.R571C|TFIP11_uc003act.2_Missense_Mutation_p.R571C	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	571					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCTTACTACGGATGGGGGAA	0.597													36	55					0	0	1	0	0		A	26892177	A	A	26892177	3	1	190	1	0	0	0	0	1	0	0	0	15832	1116	39	1	818	1	TFIP11	22	26892177	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2746659	26892177	24412389	1421	95574											
MN1	4330	broad.mit.edu	37	chr22	28193255	28193255	+	Frame_Shift_Del	DEL	C	-	-																															gggcgccttcggtccgtgttCcccggcgcctaccccacggg																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:28193255delC	uc003adj.2	-	1	4232	c.3277delG	c.(3277-3279)GAAfs	p.E1093fs		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	1093							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GGTCCGTGTTCCCCGGCGCCT	0.697			T	ETV6	AML|meningioma								6	11	---	---	---	---						.	-	28193255	-	-	28193255	7	5	190	1	0	1	0	1	0	0	0	0	9691	864	30	0	693	0	MN1	22	28193255	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	1301078	28193255	23111311	1422	95575											
EWSR1	2130	broad.mit.edu	37	chr22	29668385	29668385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctacagtgcttacaccGcccagcccactcaaggatat	11	7	8	15	1	1	0	1	0	0	0	1	1	1	1	3	1	5	3	3	1	4	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:29668385G>A	uc003aet.2	+	3	395	c.67G>A	c.(67-69)GCC>ACC	p.A23T	EWSR1_uc003aes.3_Missense_Mutation_p.A23T|EWSR1_uc003aev.2_Missense_Mutation_p.A23T|EWSR1_uc003aew.2_Missense_Mutation_p.A23T|EWSR1_uc003aex.2_Missense_Mutation_p.A23T	NM_005243	NP_005234	Q01844	EWS_HUMAN	Ewing sarcoma breakpoint region 1 isoform 2	23	EAD (Gln/Pro/Thr-rich).|2.|31 X approximate tandem repeats.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	calmodulin binding|nucleotide binding|RNA binding|zinc ion binding		EWSR1/FLI1(2266)|EWSR1/ATF1(323)|EWSR1/WT1(231)|EWSR1/ERG(162)|EWSR1/NR4A3(140)|EWSR1/DDIT3(43)|EWSR1/CREB1(42)|EWSR1/FEV(10)|EWSR1/POU5F1(10)|EWSR1/ETV1(7)|EWSR1/ETV4(6)|EWSR1/ZNF384(4)|EWSR1/PBX1(3)|EWSR1/SP3(3)|EWSR1/PATZ1(2)	bone(2526)|soft_tissue(702)|skin(8)|autonomic_ganglia(4)|haematopoietic_and_lymphoid_tissue(4)|salivary_gland(2)|central_nervous_system(2)|NS(2)|pancreas(2)|lung(1)|ovary(1)	3254						TGCTTACACCGCCCAGCCCAC	0.368			T	FLI1|ERG|ZNF278|NR4A3|FEV|ATF1|ETV1|ETV4|WT1|ZNF384|CREB1|POU5F1| PBX1	Ewing sarcoma| desmoplastic small round cell tumor |ALL|clear cell sarcoma|sarcoma|myoepithelioma								53	46					0	0	1	0	0		A	29668385	A	A	29668385	3	1	190	1	0	0	0	0	1	0	0	0	5304	1087	38	1	77	1	EWSR1	22	29668385	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1475130	29668385	21636181	1423	95576											
PISD	23761	broad.mit.edu	37	chr22	32015765	32015765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctctctattggtgtgcgtcaCgaagctgaagtcattgtagg	8	13	12	8	2	3	1	2	1	1	0	4	2	3	1	0	2	2	2	0	2	4	4	rs61747365		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:32015765C>T	uc003alm.3	-	8	1070	c.1063G>A	c.(1063-1065)GTG>ATG	p.V355M	PISD_uc003alk.2_Missense_Mutation_p.V321M|PISD_uc003all.2_3'UTR|PISD_uc011alr.1_Missense_Mutation_p.V320M|PISD_uc003aln.3_Missense_Mutation_p.V317M	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	355					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	GTGTGCGTCACGAAGCTGAAG	0.612													15	22					0	0	1	0	0		T	32015765	T	T	32015765	3	4	190	1	0	0	0	0	1	0	0	0	11965	536	19	1	170	1	PISD	22	32015765	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2347380	32015765	19288801	1424	95577											
SLC5A1	6523	broad.mit.edu	37	chr22	32462978	32462978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccactttgtggggctggcCgggactggggcagcttcagg	4	8	19	10	1	1	0	1	0	0	0	1	1	1	1	2	8	1	3	2	8	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:32462978C>T	uc003amc.2	+	3	496	c.264C>T	c.(262-264)GCC>GCT	p.A88A	SLC5A1_uc011alz.1_5'UTR	NM_000343	NP_000334	P13866	SC5A1_HUMAN	solute carrier family 5 (sodium/glucose	88	Extracellular (Potential).				carbohydrate metabolic process	integral to plasma membrane	glucose:sodium symporter activity|protein binding			skin(1)	1						TGGGGCTGGCCGGGACTGGGG	0.557													33	42					0	0	1	0	0		T	32462978	T	T	32462978	2	4	190	1	0	0	0	0	0	0	0	1	14686	639	23	1		1	SLC5A1	22	32462978	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	447213	32462978	18841588	1425	95578											
RBM9	23543	broad.mit.edu	37	chr22	36205885	36205885	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgctccccgtgggcttgcGtacttccgtagagtgtcagg	4	12	13	12	3	2	1	1	0	1	1	4	1	4	1	3	2	3	4	3	2	2	4			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:36205885G>A	uc003aon.3	-	3	516	c.404C>T	c.(403-405)ACG>ATG	p.T135M	RBM9_uc003aog.3_Missense_Mutation_p.T45M|RBM9_uc003aol.3_Missense_Mutation_p.T65M|RBM9_uc003aoj.3_Missense_Mutation_p.T65M|RBM9_uc003aok.3_Missense_Mutation_p.T65M|RBM9_uc003aoh.3_Missense_Mutation_p.T65M|RBM9_uc003aom.3_Missense_Mutation_p.T65M|RBM9_uc010gwu.2_Missense_Mutation_p.T45M|RBM9_uc003aoo.3_Missense_Mutation_p.T135M|RBM9_uc003aop.3_Missense_Mutation_p.T65M	NM_001082578	NP_001076047	O43251	RFOX2_HUMAN	RNA binding motif protein 9 isoform 5	75					estrogen receptor signaling pathway|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of cell proliferation|RNA splicing	cytoplasm|nucleus	nucleotide binding|RNA binding|transcription corepressor activity|transcription factor binding				0						GTGGGCTTGCGTACTTCCGTA	0.542													85	124					0	0	1	0	0		A	36205885	A	A	36205885	3	1	190	1	0	0	0	0	1	0	0	0	13172	1145	40	1	1009	1	RBM9	22	36205885	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	3742907	36205885	15098681	1426	95579											
IL2RB	3560	broad.mit.edu	37	chr22	37533717	37533717	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggagatttcccagcttatGttgcatctgtgggtctccac	6	14	11	10	0	2	1	0	0	2	1	4	2	3	1	2	2	2	3	2	2	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:37533717G>A	uc003aqv.1	-	6	578	c.447C>T	c.(445-447)AAC>AAT	p.N149N		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	149	Extracellular (Potential).|Fibronectin type-III.				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	CCCAGCTTATGTTGCATCTGT	0.532													6	68					0	0	1	0	0		A	37533717	A	A	37533717	2	1	190	1	0	0	0	0	0	0	0	1	7703	1368	48	4		4	IL2RB	22	37533717	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1327832	37533717	13770849	1427	95580											
CARD10	29775	broad.mit.edu	37	chr22	37912253	37912253	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcttgcgagcttcccgcagCcgtcgcacctctgtcatcaa	6	10	8	17	4	4	0	2	0	2	0	6	1	5	0	3	0	3	3	3	0	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:37912253C>T	uc003asx.1	-	3	429	c.426G>A	c.(424-426)CGG>CGA	p.R142R	CARD10_uc003ast.1_RNA|CARD10_uc003asy.1_Silent_p.R142R	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	142	Potential.				activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					CTTCCCGCAGCCGTCGCACCT	0.652													5	7					0	0	1	0	0		T	37912253	T	T	37912253	2	4	190	1	0	0	0	0	0	0	0	1	2647	726	26	2		2	CARD10	22	37912253	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	378536	37912253	13392313	1428	95581											
SH3BP1	23616	broad.mit.edu	37	chr22	38042889	38042890	+	Frame_Shift_Ins	INS	-	C	C																															aagcagacaatggcctcggaINScccccacagcctggaggagt																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:38042889_38042890insC	uc003ati.2	+	11	1100_1101	c.989_990insC	c.(988-990)GACfs	p.D330fs	SH3BP1_uc003atg.1_RNA|SH3BP1_uc011anl.1_Frame_Shift_Ins_p.D330fs|SH3BP1_uc003ath.1_Frame_Shift_Ins_p.D330fs|SH3BP1_uc003atj.1_Frame_Shift_Ins_p.D266fs|SH3BP1_uc003atk.1_Frame_Shift_Ins_p.D244fs|uc003atl.1_Intron	NM_018957	NP_061830	Q9Y3L3	3BP1_HUMAN	SH3-domain binding protein 1	330	Rho-GAP.				signal transduction	cytoplasm	GTPase activator activity|SH3 domain binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ATGGCCTCGGACCCCCACAGCC	0.678													5	4	---	---	---	---						.	C	38042890	C	C	38042889	7	5	190	1	0	1	1	0	0	0	0	0	14269	275	10	0	1031	0	SH3BP1	22	38042889	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	130636	38042889	13261677	1429	95582											
BAIAP2L2	80115	broad.mit.edu	37	chr22	38484757	38484757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaaggctcccactcacgcGgacgagccctccagcttgcc	7	6	9	19	3	1	0	1	0	0	0	4	2	4	1	5	2	3	2	5	2	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:38484757G>A	uc003auw.2	-	10	1260	c.1116C>T	c.(1114-1116)TCC>TCT	p.S372S	BAIAP2L2_uc003auv.2_5'Flank	NM_025045	NP_079321	Q6UXY1	BI2L2_HUMAN	BAI1-associated protein 2-like 2	372	SH3.				filopodium assembly|signal transduction		cytoskeletal adaptor activity|SH3 domain binding			pancreas(1)	1	Melanoma(58;0.045)					CCACTCACGCGGACGAGCCCT	0.701													7	13					0	0	1	0	0		A	38484757	A	A	38484757	2	1	190	1	0	0	0	0	0	0	0	1	1304	1103	39	1		1	BAIAP2L2	22	38484757	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	441868	38484757	12819809	1430	95583											
SUN2	25777	broad.mit.edu	37	chr22	39135931	39135931	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaactgactgatccaggcCgggaactgagattccaccta	12	7	11	11	1	0	3	0	3	0	1	2	6	2	5	4	3	2	0	4	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:39135931C>T	uc003awh.1	-	14	1658	c.1374G>A	c.(1372-1374)CCG>CCA	p.P458P	SUN2_uc011anz.1_Silent_p.P493P|SUN2_uc011aoa.1_Silent_p.P447P|SUN2_uc003awi.1_Silent_p.P458P|SUN2_uc010gxq.1_Silent_p.P479P|SUN2_uc010gxr.1_Silent_p.P458P|SUN2_uc010gxs.1_Silent_p.P458P	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	458	Perinuclear space.				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						TGATCCAGGCCGGGAACTGAG	0.607													46	53					0	0	1	0	0		T	39135931	T	T	39135931	2	4	190	1	0	0	0	0	0	0	0	1	15417	639	23	1		1	SUN2	22	39135931	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	651174	39135931	12168635	1431	95584											
TAB1	10454	broad.mit.edu	37	chr22	39817833	39817833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccactctctccccatagcGctgccaagtccaaaccaatc	10	9	4	18	1	1	0	0	0	1	0	6	0	4	0	6	0	3	1	6	0	4	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:39817833G>A	uc003axt.2	+	8	827	c.778G>A	c.(778-780)GCT>ACT	p.A260T	TAB1_uc003axr.2_Missense_Mutation_p.A336T|TAB1_uc011aok.1_Missense_Mutation_p.A94T|TAB1_uc003axu.1_Missense_Mutation_p.A260T	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	260	PP2C-like.				activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						TCCCCATAGCGCTGCCAAGTC	0.547													32	32					0	0	1	0	0		A	39817833	A	A	39817833	3	1	190	1	0	0	0	0	1	0	0	0	15520	1101	38	1	808	1	TAB1	22	39817833	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	681902	39817833	11486733	1432	95585											
MCHR1	2847	broad.mit.edu	37	chr22	41077720	41077720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacccagttgtccatcagcCgcccgaccctcacctttgtc	6	10	7	18	2	2	1	2	1	0	0	4	2	3	1	6	0	1	1	6	0	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:41077720C>T	uc003ayz.2	+	2	1325	c.1057C>T	c.(1057-1059)CGC>TGC	p.R353C	MCHR1_uc003aza.2_Missense_Mutation_p.R242C|uc003azb.1_RNA	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	353	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						GTCCATCAGCCGCCCGACCCT	0.552													39	61					0	0	1	0	0		T	41077720	T	T	41077720	3	4	190	1	0	0	0	0	1	0	0	0	9400	652	23	1	1063	1	MCHR1	22	41077720	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1259887	41077720	10226846	1433	95586											
CYP2D6	1565	broad.mit.edu	37	chr22	42523877	42523877	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtaggatcatgagcaggaGgccccaggccagcgtggtcg	9	6	16	10	2	1	1	1	1	0	0	2	3	1	3	3	5	2	2	3	5	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:42523877G>T	uc003bce.2	-	6	1042	c.952C>A	c.(952-954)CTC>ATC	p.L318I	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Missense_Mutation_p.L12I|CYP2D6_uc003bcf.2_Missense_Mutation_p.L267I	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	318							electron carrier activity|heme binding|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			breast(1)|skin(1)	2						ATGAGCAGGAGGCCCCAGGCC	0.607													39	48					4.32679e-17	4.61421e-17	1	1	0		T	42523877	T	T	42523877	3	4	190	1	0	0	0	0	1	0	0	0	4172	1000	35	5	557	5	CYP2D6	22	42523877	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1446157	42523877	8780689	1434	95587											
FAM118A	55007	broad.mit.edu	37	chr22	45719294	45719294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcgcccatgatctgatcCggaagatgtcacctgtaagt	9	12	10	10	2	2	3	1	2	1	1	4	4	3	4	3	1	0	1	3	1	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:45719294C>T	uc003bfz.3	+	4	902	c.286C>T	c.(286-288)CGG>TGG	p.R96W	FAM118A_uc003bga.3_Missense_Mutation_p.R96W	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	96						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		TGATCTGATCCGGAAGATGTC	0.547													27	42					0	0	1	0	0		T	45719294	T	T	45719294	3	4	190	1	0	0	0	0	1	0	0	0	5422	643	23	1	292	1	FAM118A	22	45719294	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3195417	45719294	5585272	1435	95588											
FBLN1	2192	broad.mit.edu	37	chr22	45996196	45996196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccgcaggtgtcgtgcGccaggtgcggcccatcgtgg	3	9	15	14	5	1	0	0	0	1	0	5	0	2	0	3	4	2	1	3	4	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:45996196G>A	uc003bgj.1	+	17	2129	c.1982G>A	c.(1981-1983)CGC>CAC	p.R661H	FBLN1_uc003bgk.1_RNA	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	661					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		GGTGTCGTGCGCCAGGTGCGG	0.542													107	132					0	0	1	0	0		A	45996196	A	A	45996196	3	1	190	1	0	0	0	0	1	0	0	0	5712	1087	38	1	2528	1	FBLN1	22	45996196	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	276902	45996196	5308370	1436	95589											
CELSR1	9620	broad.mit.edu	37	chr22	46930415	46930415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctggggtgcattgtcattggCatcgaggatgaggatctcta	8	12	14	7	1	2	1	1	1	1	0	4	4	2	3	0	5	1	2	0	5	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:46930415C>T	uc003bhw.1	-	1	2653	c.2653G>A	c.(2653-2655)GCC>ACC	p.A885T		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	885	Extracellular (Potential).|Cadherin 6.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TTGTCATTGGCATCGAGGATG	0.562													24	25					0	0	1	0	0		T	46930415	T	T	46930415	3	4	190	1	0	0	0	0	1	0	0	0	3224	710	25	2	6531	2	CELSR1	22	46930415	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	934219	46930415	4374151	1437	95590											
CELSR1	9620	broad.mit.edu	37	chr22	46931760	46931760	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggcactgagcgggccCggattgcgcccctggtcgtt	3	8	16	14	5	0	1	0	1	0	0	1	2	0	2	4	4	2	2	4	4	0	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:46931760C>T	uc003bhw.1	-	1	1308	c.1308G>A	c.(1306-1308)CCG>CCA	p.P436P		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	436	Extracellular (Potential).|Cadherin 2.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TGAGCGGGCCCGGATTGCGCC	0.672													12	18					0	0	1	0	0		T	46931760	T	T	46931760	2	4	190	1	0	0	0	0	0	0	0	1	3224	639	23	1		1	CELSR1	22	46931760	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	1345	46931760	4372806	1438	95591											
BRD1	23774	broad.mit.edu	37	chr22	50169305	50169306	+	Frame_Shift_Ins	INS	-	C	C																															agacttggtctgcatgtgctINSccccaatcttcagcacgtcc																								rs145188239		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:50169305_50169306insC	uc003biv.2	-	11	3413_3414	c.2926_2927insG	c.(2926-2928)GAGfs	p.E976fs	BRD1_uc011arf.1_Frame_Shift_Ins_p.E702fs|BRD1_uc011arg.1_Frame_Shift_Ins_p.E1025fs|BRD1_uc011arh.1_Frame_Shift_Ins_p.E976fs|BRD1_uc003biu.3_Frame_Shift_Ins_p.E1107fs	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	976	PWWP.				histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CTGCATGTGCTCCCCAATCTTC	0.569													74	92	---	---	---	---						.	C	50169306	C	C	50169305	7	5	190	1	0	1	1	0	0	0	0	0	1504	1551	54	0	257	0	BRD1	22	50169305	Frame_Shift_Ins	INS	-	TCGA-F1-6177-01A-11D-1800-08	3237545	50169305	1135261	1439	95592											
TTLL8	164714	broad.mit.edu	37	chr22	50470410	50470410	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgctgccccacacggcgccaCggccctggcgctgcaggtac	5	4	13	19	5	0	0	0	0	0	0	0	0	0	0	4	4	3	4	4	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chr22:50470410C>T	uc011ark.1	-	11	1412	c.1412G>A	c.(1411-1413)CGT>CAT	p.R471H		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		CACGGCGCCACGGCCCTGGCG	0.642													16	28					0	0	1	0	0		T	50470410	T	T	50470410	3	4	190	1	0	0	0	0	1	0	0	0	16759	536	19	1	1107	1	TTLL8	22	50470410	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	301105	50470410	834156	1440	95593											
PPP2R3B	28227	broad.mit.edu	37	chrX	306382	306382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcagctggttgatgtccGcctcctcctccagcagcgcc	4	9	11	17	3	1	1	1	1	0	0	5	1	5	1	6	2	3	3	6	2	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:306382G>A	uc004cpg.2	-	7	1106	c.905C>T	c.(904-906)GCG>GTG	p.A302V	PPP2R3B_uc011mha.1_Missense_Mutation_p.A141V	NM_013239	NP_037371	Q9Y5P8	P2R3B_HUMAN	protein phosphatase 2, regulatory subunit B'',	302					cell cycle arrest|protein dephosphorylation	nucleus|protein phosphatase type 2A complex	calcium ion binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTTGATGTCCGCCTCCTCCTC	0.637													37	53					0	0	1	0	0		A	306382	A	A	306382	3	1	190	1	0	0	0	0	1	0	0	0	12411	1087	38	1	850	1	PPP2R3B	23	306382	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08		306382	154964178	1441	95594											
SFRS17A	8227	broad.mit.edu	37	chrX	1714399	1714399	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcgcagagagaaggaagcGgaggagaggcagcgagcgga	15	0	20	6	4	0	3	0	0	0	3	0	9	0	6	0	5	4	2	0	5	3	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:1714399G>A	uc004cqa.2	+	3	1081	c.885G>A	c.(883-885)GCG>GCA	p.A295A	SFRS17A_uc010ncx.1_Silent_p.A295A|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'UTR	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	295					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				AGAAGGAAGCGGAGGAGAGGC	0.572													60	83					0	0	1	0	0		A	1714399	A	A	1714399	2	1	190	1	0	0	0	0	0	0	0	1	14198	1103	39	1		1	SFRS17A	23	1714399	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1408017	1714399	153556161	1442	95595											
PIGA	5277	broad.mit.edu	37	chrX	15349630	15349630	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagccccattgtcttggcGtggaagagagcatcatgggc	9	9	14	9	1	2	2	1	1	1	1	2	4	2	3	2	3	2	1	2	3	2	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:15349630G>A	uc004cwr.2	-	2	523	c.423C>T	c.(421-423)CAC>CAT	p.H141H	PIGA_uc004cwq.2_Intron|PIGA_uc010nev.2_Intron|PIGA_uc004cws.2_Intron|PIGA_uc011miq.1_Intron|PIGA_uc010new.1_Intron	NM_002641	NP_002632	P37287	PIGA_HUMAN	phosphatidylinositol	141	Cytoplasmic (Potential).				C-terminal protein lipidation|positive regulation of metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity|protein binding				0	Hepatocellular(33;0.183)					TTGTCTTGGCGTGGAAGAGAG	0.468													36	5					0	0	1	0	0		A	15349630	A	A	15349630	2	1	190	1	0	0	0	0	0	0	0	1	11903	1136	40	1		1	PIGA	23	15349630	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	13635231	15349630	139920930	1443	95596											
PHKA2	5256	broad.mit.edu	37	chrX	18912415	18912415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctccgtgtccgagagcagCgtcagcaccatgatggcttc	8	9	11	13	3	2	2	1	1	1	1	5	3	3	2	3	1	3	3	3	1	0	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:18912415C>T	uc004cyv.3	-	32	3874	c.3444G>A	c.(3442-3444)ACG>ACA	p.T1148T	uc004cyt.2_RNA|PHKA2_uc004cyu.3_Silent_p.T454T|PHKA2_uc010nfe.1_Silent_p.T180T|PHKA2_uc010nff.1_RNA	NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	1148					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					CCGAGAGCAGCGTCAGCACCA	0.612													19	8					0	0	1	0	0		T	18912415	T	T	18912415	2	4	190	1	0	0	0	0	0	0	0	1	11863	755	27	1		1	PHKA2	23	18912415	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	3562785	18912415	136358145	1444	95597											
MAGEB4	4115	broad.mit.edu	37	chrX	30260314	30260314	+	Missense_Mutation	SNP	A	G	G	1	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	acgccagcggacccgtggtcAgacccaggatctcaaggttg	9	6	13	13	3	2	1	2	0	1	1	3	3	2	3	3	4	1	1	3	4	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:30260314A>G	uc004dcb.2	+	1	146	c.62A>G	c.(61-63)CAG>CGG	p.Q21R	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	21										ovary(1)	1						ACCCGTGGTCAGACCCAGGAT	0.567													4	20					0	0	1	0	0		G	30260314	G	G	30260314	3	3	190	1	0	0	0	0	1	0	0	0	9196	188	7	3	64	3	MAGEB4	23	30260314	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	11347899	30260314	125010246	1445	95598											
FTHL17	53940	broad.mit.edu	37	chrX	31090062	31090062	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcacctgcgacggctgggcGgtggccatggcgggcagcgc	4	4	19	14	6	0	0	0	0	0	0	0	1	0	0	2	6	2	3	2	6	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:31090062G>A	uc004dcl.1	-	1	112	c.9C>T	c.(7-9)ACC>ACT	p.T3T		NM_031894	NP_114100	Q9BXU8	FHL17_HUMAN	ferritin, heavy polypeptide-like 17	3					cellular iron ion homeostasis|iron ion transport		ferric iron binding|oxidoreductase activity				0						ACGGCTGGGCGGTGGCCATGG	0.632													18	4					0	0	1	0	0		A	31090062	A	A	31090062	2	1	190	1	0	0	0	0	0	0	0	1	6097	1103	39	1		1	FTHL17	23	31090062	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	829748	31090062	124180498	1446	95599											
PHF16	9767	broad.mit.edu	37	chrX	46884163	46884163	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaggacgttctgtttatcCgaccccggaagtatattcac	11	12	8	10	3	2	0	1	0	1	0	3	3	3	2	3	2	0	3	3	2	6	7			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:46884163C>T	uc004dgx.2	+	5	373	c.322C>T	c.(322-324)CGA>TGA	p.R108*	PHF16_uc004dgy.2_Nonsense_Mutation_p.R108*	NM_001077445	NP_001070913	Q92613	JADE3_HUMAN	PHD finger protein 16	108					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0						TCTGTTTATCCGACCCCGGAA	0.448													27	2					0	0	1	0	0		T	46884163	T	T	46884163	4	4	190	1	0	0	0	0	0	1	0	0	11846	644	23	1	336	1	PHF16	23	46884163	Nonsense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	15794101	46884163	108386397	1447	95600											
CFP	5199	broad.mit.edu	37	chrX	47486543	47486543	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctcatcctggtgtacctgGgcagggtggcaggccggtgc	4	8	17	12	1	1	0	1	0	0	0	2	0	2	0	4	6	2	3	4	6	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:47486543G>T	uc004dig.3	-	5	889	c.763C>A	c.(763-765)CCA>ACA	p.P255T	CFP_uc004dih.2_Missense_Mutation_p.P255T|CFP_uc004dii.1_Missense_Mutation_p.P191T|CFP_uc010nhu.2_Missense_Mutation_p.P255T	NM_001145252	NP_001138724	P27918	PROP_HUMAN	complement factor properdin precursor	255	TSP type-1 3.				complement activation, alternative pathway|defense response to bacterium	extracellular space				breast(2)|lung(1)	3						GGTGTACCTGGGCAGGGTGGC	0.617													9	3					1.76689e-08	1.83831e-08	1	1	0		T	47486543	T	T	47486543	3	4	190	1	0	0	0	0	1	0	0	0	3296	1232	43	5	666	5	CFP	23	47486543	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	602380	47486543	107784017	1448	95601											
KCND1	3750	broad.mit.edu	37	chrX	48820066	48820066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttggcattgaggctggagcGgctgtggacaagggtggaga	8	8	19	6	1	0	2	0	1	0	1	0	5	0	4	0	7	1	3	0	7	1	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:48820066G>A	uc004dlx.1	-	6	3293	c.1720C>T	c.(1720-1722)CGC>TGC	p.R574C	KCND1_uc004dlw.1_Missense_Mutation_p.R197C	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	574	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						AGGCTGGAGCGGCTGTGGACA	0.408													9	0					0	0	1	0	0		A	48820066	A	A	48820066	3	1	190	1	0	0	0	0	1	0	0	0	8034	1130	39	1	227	1	KCND1	23	48820066	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	1333523	48820066	106450494	1449	95602											
PPP1R3F	89801	broad.mit.edu	37	chrX	49142650	49142650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctcacctgagccgcctaCgggctgctgtggctgcgggt	3	10	15	13	3	1	1	1	1	1	0	2	1	1	1	3	3	4	3	3	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:49142650C>T	uc004dnh.1	+	4	1514	c.1498C>T	c.(1498-1500)CGG>TGG	p.R500W	PPP1R3F_uc011mnd.1_Missense_Mutation_p.R171W|PPP1R3F_uc004dni.2_Missense_Mutation_p.R154W|PPP1R3F_uc004dnj.1_Missense_Mutation_p.R154W	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	500	Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					GAGCCGCCTACGGGCTGCTGT	0.677													6	0					0	0	1	0	0		T	49142650	T	T	49142650	3	4	190	1	0	0	0	0	1	0	0	0	12397	527	19	1	1512	1	PPP1R3F	23	49142650	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	322584	49142650	106127910	1450	95603											
FOXO4	4303	broad.mit.edu	37	chrX	70321551	70321551	+	Missense_Mutation	SNP	A	G	G	1	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	ataacatcatcagtgacctcAtggatgagggcgagggactg	12	8	13	8	1	3	2	3	2	0	0	3	5	3	4	1	3	1	0	1	3	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:70321551A>G	uc004dys.1	+	2	1824	c.1471A>G	c.(1471-1473)ATG>GTG	p.M491V	FOXO4_uc010nkz.2_Intron|FOXO4_uc004dyt.1_Missense_Mutation_p.M436V	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	491					cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					CAGTGACCTCATGGATGAGGG	0.493													33	6					0	0	1	0	0		G	70321551	G	G	70321551	3	3	190	1	0	0	0	0	1	0	0	0	6039	217	8	3	1477	3	FOXO4	23	70321551	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	21178901	70321551	84949009	1451	95604											
MED12	9968	broad.mit.edu	37	chrX	70341606	70341606	+	Silent	SNP	T	C	C	0	1	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	acaccctcgactccctttagTgacctgcttatgtgccctca	7	12	6	16	1	1	1	1	1	0	0	3	2	2	1	4	0	2	1	4	0	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:70341606T>C	uc004dyy.2	+	7	1240	c.1041T>C	c.(1039-1041)AGT>AGC	p.S347S	MED12_uc011mpq.1_Silent_p.S347S|MED12_uc004dyz.2_Silent_p.S347S|MED12_uc004dza.2_Silent_p.S194S	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	347					androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					CTCCCTTTAGTGACCTGCTTA	0.557													35	9					0	0	1	0	0		C	70341606	C	C	70341606	2	2	190	1	0	0	0	0	0	0	0	1	9446	1693	59	3		3	MED12	23	70341606	Silent	SNP	T	TCGA-F1-6177-01A-11D-1800-08	20055	70341606	84928954	1452	95605											
NAP1L2	4674	broad.mit.edu	37	chrX	72434173	72434173	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttccccaagcccagcGgcagcttcttcaccgcactt	6	10	6	19	2	3	0	1	0	2	0	4	0	4	0	5	1	3	3	5	1	1	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:72434173G>A	uc004ebi.2	-	1	512	c.156C>T	c.(154-156)GCC>GCT	p.A52A	NAP1L2_uc011mqj.1_Intron	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	52					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					CAAGCCCAGCGGCAGCTTCTT	0.572													35	8					0	0	1	0	0		A	72434173	A	A	72434173	2	1	190	1	0	0	0	0	0	0	0	1	10175	1103	39	1		1	NAP1L2	23	72434173	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	2092567	72434173	82836387	1453	95606											
ATP7A	538	broad.mit.edu	37	chrX	77253979	77253979	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttccctttctaccagacacGaatgagccgttggtagtaat	10	13	8	10	2	1	2	0	1	1	1	2	3	2	2	3	1	2	3	3	1	4	6			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:77253979G>A	uc004ecx.3	+	5	1501	c.1341G>A	c.(1339-1341)ACG>ACA	p.T447T	ATP7A_uc004ecw.2_Silent_p.T447T	NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	447	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						TACCAGACACGAATGAGCCGT	0.408													66	13					0	0	1	0	0		A	77253979	A	A	77253979	2	1	190	1	0	0	0	0	0	0	0	1	1191	1045	37	1		1	ATP7A	23	77253979	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	4819806	77253979	78016581	1454	95607											
POU3F4	5456	broad.mit.edu	37	chrX	82764008	82764008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcacactgtatggtaacGtgttctcgcagaccaccatc	9	10	10	12	2	1	1	0	0	1	1	3	1	1	1	2	2	1	5	2	2	2	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:82764008G>A	uc004eeg.2	+	1	740	c.676G>A	c.(676-678)GTG>ATG	p.V226M		NM_000307	NP_000298	P49335	PO3F4_HUMAN	POU domain, class 3, transcription factor 4	226	POU-specific.				sensory perception of sound	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTATGGTAACGTGTTCTCGCA	0.527													22	6					0	0	1	0	0		A	82764008	A	A	82764008	3	1	190	1	0	0	0	0	1	0	0	0	12296	1145	40	1	678	1	POU3F4	23	82764008	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5510029	82764008	72506552	1455	95608											
TGIF2LX	90316	broad.mit.edu	37	chrX	89177144	89177144	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggtggaaaaagacagcccGgcgaagacccaaagcccagc	14	1	12	14	3	0	2	0	0	0	2	0	4	0	3	4	3	3	0	4	3	4	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:89177144G>A	uc004efe.2	+	2	109	c.60G>A	c.(58-60)CCG>CCA	p.P20P		NM_138960	NP_620410	Q8IUE1	TF2LX_HUMAN	TGFB-induced factor homeobox 2-like, X-linked	20						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AAGACAGCCCGGCGAAGACCC	0.532													22	11					0	0	1	0	0		A	89177144	A	A	89177144	2	1	190	1	0	0	0	0	0	0	0	1	15852	1103	39	1		1	TGIF2LX	23	89177144	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	6413136	89177144	66093416	1456	95609											
DRP2	1821	broad.mit.edu	37	chrX	100496692	100496692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggatccagaatctcagcCgctttgtatggaagcaggcg	10	8	13	10	3	1	1	1	0	1	1	3	3	2	3	2	3	3	3	2	3	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:100496692C>T	uc004egz.2	+	7	964	c.595C>T	c.(595-597)CGC>TGC	p.R199C	DRP2_uc011mrh.1_Missense_Mutation_p.R121C	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2	199					central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						GAATCTCAGCCGCTTTGTATG	0.577													33	2					0	0	1	0	0		T	100496692	T	T	100496692	3	4	190	1	0	0	0	0	1	0	0	0	4770	652	23	1	613	1	DRP2	23	100496692	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	11319548	100496692	54773868	1457	95610											
TEX13A	56157	broad.mit.edu	37	chrX	104463832	104463832	+	Frame_Shift_Del	DEL	C	-	-																															tgatggtctattctgtggggCcccccatcagaccacaggct																								rs1060551	by1000genomes	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:104463832delC	uc004ema.2	-	5	1156	c.1044delG	c.(1042-1044)GGGfs	p.G348fs	IL1RAPL2_uc004elz.1_Intron|TEX13A_uc004emb.2_Frame_Shift_Del_p.G349fs	NM_031274	NP_112564	Q9BXU3	TX13A_HUMAN	testis expressed sequence 13A	348						intracellular	zinc ion binding			ovary(2)	2						TTCTGTGGGGCCCCCCATCAG	0.567													35	14	---	---	---	---						.	-	104463832	-	-	104463832	7	5	190	1	0	1	0	1	0	0	0	0	15801	739	26	0	189	0	TEX13A	23	104463832	Frame_Shift_Del	DEL	C	TCGA-F1-6177-01A-11D-1800-08	3967140	104463832	50806728	1458	95611											
CHRDL1	91851	broad.mit.edu	37	chrX	109937472	109937472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaatccataagagctccccGgtgacttctggccccaggaa	10	7	11	13	1	1	2	0	1	1	1	3	4	3	4	5	4	1	1	5	4	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:109937472G>A	uc004eou.3	-	8	1046	c.697C>T	c.(697-699)CGG>TGG	p.R233W	CHRDL1_uc004eov.2_Missense_Mutation_p.R227W|CHRDL1_uc004eow.2_Missense_Mutation_p.R232W|CHRDL1_uc010nps.2_Missense_Mutation_p.R232W|CHRDL1_uc004eot.2_Missense_Mutation_p.R153W|CHRDL1_uc011mss.1_Missense_Mutation_p.R147W	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	226					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						AGAGCTCCCCGGTGACTTCTG	0.493													59	9					0	0	1	0	0		A	109937472	A	A	109937472	3	1	190	1	0	0	0	0	1	0	0	0	3376	1115	39	1	699	1	CHRDL1	23	109937472	Missense_Mutation	SNP	G	TCGA-F1-6177-01A-11D-1800-08	5473640	109937472	45333088	1459	95612											
CD40LG	959	broad.mit.edu	37	chrX	135741286	135741286	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctgaccgttaaaagacaAggactctattatatctatgc	14	11	7	9	1	2	2	0	1	2	1	2	3	2	3	1	1	2	2	1	1	7	5			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:135741286A>C	uc004faa.2	+	5	570	c.498A>C	c.(496-498)CAA>CAC	p.Q166H	CD40LG_uc010nsd.2_Missense_Mutation_p.Q145H	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	166	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	TTAAAAGACAAGGACTCTATT	0.453									Immune_Deficiency_with_Hyper-IgM				180	27					0	0	1	0	0		C	135741286	C	C	135741286	3	2	190	1	0	0	0	0	1	0	0	0	3019	69	3	5	516	5	CD40LG	23	135741286	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	25803814	135741286	19529274	1460	95613											
GPR101	83550	broad.mit.edu	37	chrX	136113077	136113077	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcatcctggaactcctcctTcttctctgctccctcttcat	4	16	3	18	0	5	0	2	0	3	0	10	1	9	1	4	1	2	1	4	1	1	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:136113077T>C	uc011mwh.1	-	1	757	c.757A>G	c.(757-759)AAG>GAG	p.K253E		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	253	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	Acute lymphoblastic leukemia(192;0.000127)					AACTCCTCCTTCTTCTCTGCT	0.557													90	9					0	0	1	0	0		C	136113077	C	C	136113077	3	2	190	1	0	0	0	0	1	0	0	0	6637	1792	62	3	772	3	GPR101	23	136113077	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	371791	136113077	19157483	1461	95614											
MAGEC3	139081	broad.mit.edu	37	chrX	140983317	140983317	+	Frame_Shift_Del	DEL	G	-	-																															ggccgccgagggctgaccgaGgcgtccccacaacagaagaa																										TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:140983317delG	uc011mwp.1	+	6	1095	c.1095delG	c.(1093-1095)GAGfs	p.E365fs	MAGEC3_uc004fbs.2_Intron|MAGEC3_uc010nsj.2_5'Flank	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	365	MAGE 1.			GLTEASPQQKKGG -> SSPLPSTLILGVP (in Ref. 3).						skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGCTGACCGAGGCGTCCCCAC	0.612													23	3	---	---	---	---						.	-	140983317	-	-	140983317	7	5	190	1	0	1	0	1	0	0	0	0	9200	991	35	0	1117	0	MAGEC3	23	140983317	Frame_Shift_Del	DEL	G	TCGA-F1-6177-01A-11D-1800-08	4870240	140983317	14287243	1462	95615											
AFF2	2334	broad.mit.edu	37	chrX	148037756	148037756	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aacacagatcaggaagagacCctgcaaatcaaagtcctgcc	16	5	8	12	0	2	2	2	0	0	2	3	4	3	3	3	1	3	1	3	1	4	0	rs143927826	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:148037756C>A	uc004fcp.2	+	11	2660	c.2181C>A	c.(2179-2181)ACC>ACA	p.T727T	AFF2_uc004fcq.2_Silent_p.T717T|AFF2_uc004fcr.2_Silent_p.T688T|AFF2_uc011mxb.1_Silent_p.T692T|AFF2_uc004fcs.2_Silent_p.T694T|AFF2_uc011mxc.1_Silent_p.T368T	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	727					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					AGGAAGAGACCCTGCAAATCA	0.468													57	10					3.56336e-21	3.83845e-21	1	1	0		A	148037756	A	A	148037756	2	1	190	1	0	0	0	0	0	0	0	1	357	610	22	5		5	AFF2	23	148037756	Silent	SNP	C	TCGA-F1-6177-01A-11D-1800-08	7054439	148037756	7232804	1463	95616											
PASD1	139135	broad.mit.edu	37	chrX	150817164	150817164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgctgctgctgctgctgCtatctcagacgtatgtacat	6	14	10	11	1	1	1	1	0	1	1	2	1	1	1	0	0	8	9	0	0	3	3			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:150817164C>T	uc004fev.3	+	9	1039	c.707C>T	c.(706-708)GCT>GTT	p.A236V		NM_173493	NP_775764	Q8IV76	PASD1_HUMAN	PAS domain containing 1	236	Poly-Ala.					nucleus	signal transducer activity			ovary(3)	3	Acute lymphoblastic leukemia(192;6.56e-05)					gctgctgctgctATCTCAGAC	0.343													47	8					0	0	1	0	0		T	150817164	T	T	150817164	3	4	190	1	0	0	0	0	1	0	0	0	11490	797	28	2	737	2	PASD1	23	150817164	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	2779408	150817164	4453396	1464	95617											
MAGEA12	4111	broad.mit.edu	37	chrX	151900304	151900304	+	Missense_Mutation	SNP	A	G	G	1	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	cgatgcggaccacttccaccAcctcgatgccaaagaccagc	11	5	8	17	3	0	1	0	0	0	1	2	4	1	2	6	1	3	0	6	1	1	1			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:151900304A>G	uc010ntp.2	-	3	851	c.497T>C	c.(496-498)GTG>GCG	p.V166A	MAGEA12_uc004fgb.2_Intron|MAGEA12_uc004fgc.2_Missense_Mutation_p.V166A|CSAG1_uc004fge.2_5'Flank|CSAG1_uc004fgf.2_5'Flank|CSAG1_uc004fgd.2_5'Flank	NM_005367	NP_005358	P43365	MAGAC_HUMAN	melanoma antigen family A, 12	166	MAGE.									skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CACTTCCACCACCTCGATGCC	0.547													88	22					0	0	1	0	0		G	151900304	G	G	151900304	3	3	190	1	0	0	0	0	1	0	0	0	9184	159	6	3	451	3	MAGEA12	23	151900304	Missense_Mutation	SNP	A	TCGA-F1-6177-01A-11D-1800-08	1083140	151900304	3370256	1465	95618											
ATP2B3	492	broad.mit.edu	37	chrX	152801812	152801812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacgctggcggagctgcgcaCcctcatggagctgcgagggg	6	5	17	13	4	1	0	1	0	0	0	1	3	1	2	1	5	4	4	1	5	0	0			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:152801812C>T	uc004fht.1	+	1	233	c.107C>T	c.(106-108)ACC>ATC	p.T36I	ATP2B3_uc004fhs.1_Missense_Mutation_p.T36I	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	36	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GAGCTGCGCACCCTCATGGAG	0.662													4	1					0	0	1	0	0		T	152801812	T	T	152801812	3	4	190	1	0	0	0	0	1	0	0	0	1142	507	18	4	109	4	ATP2B3	23	152801812	Missense_Mutation	SNP	C	TCGA-F1-6177-01A-11D-1800-08	901508	152801812	2468748	1466	95619											
OPN1LW	5956	broad.mit.edu	37	chrX	153421852	153421852	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggtggtgatgatctttgcGtactgcgtctgctggggacc	4	13	16	8	2	2	2	0	2	2	0	2	3	2	3	1	4	4	2	1	4	1	2	rs2315125		TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:153421852G>A	uc004fjz.3	+	5	861	c.828G>A	c.(826-828)GCG>GCA	p.A276A		NM_020061	NP_064445	P04000	OPSR_HUMAN	opsin 1 (cone pigments), long-wave-sensitive	276	Helical; Name=6; (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0	all_cancers(53;1.83e-16)|all_epithelial(53;2.73e-10)|all_lung(58;6.39e-07)|Lung NSC(58;8.37e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					TGATCTTTGCGTACTGCGTCT	0.567													90	22					0	0	1	0	0		A	153421852	A	A	153421852	2	1	190	1	0	0	0	0	0	0	0	1	10896	1132	40	1		1	OPN1LW	23	153421852	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	620040	153421852	1848708	1467	95620											
PLXNA3	55558	broad.mit.edu	37	chrX	153694127	153694127	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggacccactgcccggccccGaagaccaactggatgcacct	9	4	10	18	3	0	1	0	0	0	1	0	4	0	3	6	3	3	1	6	3	2	0	rs145475407	byFrequency	TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:153694127G>A	uc004flm.2	+	13	2642	c.2469G>A	c.(2467-2469)CCG>CCA	p.P823P		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	823	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GCCCGGCCCCGAAGACCAACT	0.677													3	18					0	0	1	0	0		A	153694127	A	A	153694127	2	1	190	1	0	0	0	0	0	0	0	1	12140	1045	37	1		1	PLXNA3	23	153694127	Silent	SNP	G	TCGA-F1-6177-01A-11D-1800-08	272275	153694127	1576433	1468	95621											
G6PD	2539	broad.mit.edu	37	chrX	153762274	153762274	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatcccaaattcatcgaaaTagcccccgcgaccctcagtg	11	8	7	15	3	2	1	2	1	0	0	4	3	3	1	4	0	1	0	4	0	3	2			TCGA-F1-6177-01A-11D-1800-08	TCGA-F1-6177-10A-01D-1800-08									Somatic	Phase_I	Capture				Illumina GAIIx	1d0617e8-2725-4411-b50f-e46ea1d43242	d45b2ed4-f736-470e-92c0-b06718a57582	g.chrX:153762274T>C	uc004fly.1	-	7	859	c.746A>G	c.(745-747)TAT>TGT	p.Y249C	G6PD_uc004flx.1_Missense_Mutation_p.Y279C	NM_001042351	NP_001035810	P11413	G6PD_HUMAN	glucose-6-phosphate dehydrogenase isoform b	249					cellular response to oxidative stress|cholesterol biosynthetic process|cytokine production|erythrocyte maturation|glucose 6-phosphate metabolic process|glutathione metabolic process|negative regulation of protein glutathionylation|pentose-phosphate shunt, oxidative branch|ribose phosphate biosynthetic process	centrosome|cytosol|internal side of plasma membrane|intracellular membrane-bounded organelle	glucose binding|glucose-6-phosphate dehydrogenase activity|NADP binding|protein homodimerization activity			ovary(4)	4	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)					TTCATCGAAATAGCCCCCGCG	0.587													4	38					0	0	1	0	0		C	153762274	C	C	153762274	3	2	190	1	0	0	0	0	1	0	0	0	6160	1406	49	3	829	3	G6PD	23	153762274	Missense_Mutation	SNP	T	TCGA-F1-6177-01A-11D-1800-08	68147	153762274	1508286	1469	95622											
UBE4B	10277	broad.mit.edu	37	chr1	10166514	10166514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaagtccccctgccctcGccagtagcccccaagcagtg	7	5	8	21	1	0	0	0	0	0	0	2	0	1	0	8	0	3	2	8	0	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:10166514G>A	uc001aqs.3	+	7	1782	c.1069G>A	c.(1069-1071)GCC>ACC	p.A357T	UBE4B_uc001aqr.3_Intron|UBE4B_uc010oai.1_Intron|UBE4B_uc010oaj.1_Intron	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	357					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		CCCTGCCCTCGCCAGTAGCCC	0.672													12	116					0	0	0.013537	0	0		A	10166514	A	A	10166514	3	1	191	1	0	0	0	0	1	0	0	0	16909	1087	38	1	1095	1	UBE4B	1	10166514	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08		10166514	239084107	1	95623											
KIF1B	23095	broad.mit.edu	37	chr1	10399850	10399850	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgcatcgccatgatgaagCattctccacggagcccctca	9	10	8	14	2	2	2	1	2	1	0	4	3	2	3	4	1	3	2	4	1	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:10399850C>A	uc001aqx.3	+	32	3648	c.3446C>A	c.(3445-3447)GCA>GAA	p.A1149E	KIF1B_uc001aqw.3_Missense_Mutation_p.A1103E|KIF1B_uc001aqy.2_Missense_Mutation_p.A1123E|KIF1B_uc001aqz.2_Missense_Mutation_p.A1149E|KIF1B_uc001ara.2_Missense_Mutation_p.A1109E|KIF1B_uc001arb.2_Missense_Mutation_p.A1135E	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1149					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		CATGATGAAGCATTCTCCACG	0.403													11	28					2.68362e-12	3.04162e-12	0.013537	1	0		A	10399850	A	A	10399850	3	1	191	1	0	0	0	0	1	0	0	0	8300	710	25	5	4911	5	KIF1B	1	10399850	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	233336	10399850	238850771	2	95624											
CASZ1	54897	broad.mit.edu	37	chr1	10715779	10715779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacgctgcagtcgtccagcGggctgaaacgcatgaagccg	10	5	14	12	5	0	3	0	2	0	1	2	3	1	3	2	1	4	4	2	1	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:10715779G>A	uc001aro.2	-	9	1912	c.1592C>T	c.(1591-1593)CCG>CTG	p.P531L	CASZ1_uc001arp.1_Missense_Mutation_p.P531L|CASZ1_uc009vmx.2_Missense_Mutation_p.P555L	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	531					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GTCGTCCAGCGGGCTGAAACG	0.612													10	27					0	0	0.010729	0	0		A	10715779	A	A	10715779	3	1	191	1	0	0	0	0	1	0	0	0	2688	1116	39	1	3743	1	CASZ1	1	10715779	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	315929	10715779	238534842	3	95625											
MASP2	10747	broad.mit.edu	37	chr1	11105485	11105485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgagcaggtgcgcttgttaCggtgcaggacgtagcctgcg	6	9	16	10	4	0	1	0	1	0	0	0	2	0	2	1	3	6	5	1	3	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:11105485C>T	uc001aru.2	-	4	545	c.524G>A	c.(523-525)CGT>CAT	p.R175H	MASP2_uc001arv.2_Missense_Mutation_p.R175H|MASP2_uc001arw.2_3'UTR|MASP2_uc001arx.1_Missense_Mutation_p.R175H	NM_006610	NP_006601	O00187	MASP2_HUMAN	mannan-binding lectin serine protease 2 isoform	175	EGF-like; calcium-binding.				complement activation, classical pathway|complement activation, lectin pathway|proteolysis	extracellular region	calcium ion binding|calcium-dependent protein binding|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.071)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)		GCGCTTGTTACGGTGCAGGAC	0.687													10	75					0	0	0.008291	0	0		T	11105485	T	T	11105485	3	4	191	1	0	0	0	0	1	0	0	0	9341	536	19	1	1586	1	MASP2	1	11105485	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	389706	11105485	238145136	4	95626											
FBXO6	26270	broad.mit.edu	37	chr1	11728803	11728803	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgttcacgcacgtgcccGcccgccagctgctgctgaac	6	7	11	17	4	1	1	1	1	0	0	1	1	1	1	3	0	6	6	3	0	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:11728803G>T	uc001aso.2	+	2	254	c.88G>T	c.(88-90)GCC>TCC	p.A30S		NM_018438	NP_060908	Q9NRD1	FBX6_HUMAN	F-box only protein 6	30	F-box.				DNA damage checkpoint|DNA repair|ER-associated protein catabolic process|response to unfolded protein|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	glycoprotein binding			lung(1)	1	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)		GCACGTGCCCGCCCGCCAGCT	0.642													25	58					4.47668e-21	5.23075e-21	0.003954	1	0		T	11728803	T	T	11728803	3	4	191	1	0	0	0	0	1	0	0	0	5773	1087	38	5	90	5	FBXO6	1	11728803	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	623318	11728803	237521818	5	95627											
PLOD1	5351	broad.mit.edu	37	chr1	12010421	12010421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctggccacagctatgacGtgctgtttgcatcggggccc	5	10	13	13	2	1	1	0	1	1	0	2	1	1	1	2	3	3	5	2	3	1	2	rs141809154		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:12010421G>A	uc001atm.2	+	4	401	c.310G>A	c.(310-312)GTG>ATG	p.V104M	PLOD1_uc010obb.1_Missense_Mutation_p.V151M	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	104					epidermis development|hydroxylysine biosynthetic process|protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein homodimerization activity			ovary(2)|breast(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.06e-06)|COAD - Colon adenocarcinoma(227;0.000273)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000809)|KIRC - Kidney renal clear cell carcinoma(229;0.00267)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)	Minoxidil(DB00350)|Succinic acid(DB00139)|Vitamin C(DB00126)	CAGCTATGACGTGCTGTTTGC	0.637													25	61					0	0	0.00632	0	0		A	12010421	A	A	12010421	3	1	191	1	0	0	0	0	1	0	0	0	12120	1145	40	1	324	1	PLOD1	1	12010421	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	281618	12010421	237240200	6	95628											
TMEM51	55092	broad.mit.edu	37	chr1	15541698	15541698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggtacccggcttcagcGcggccgagaagccaacagct	9	5	12	15	4	1	1	1	0	0	1	1	2	1	1	4	3	5	3	4	3	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:15541698G>A	uc001avw.3	+	3	634	c.115G>A	c.(115-117)GCG>ACG	p.A39T	TMEM51_uc010obk.1_Missense_Mutation_p.A39T|TMEM51_uc001avz.2_Missense_Mutation_p.A39T|TMEM51_uc001avy.2_Missense_Mutation_p.A39T|TMEM51_uc001avx.2_Missense_Mutation_p.A39T	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	39						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		CGGCTTCAGCGCGGCCGAGAA	0.637													64	188					0	0	0.01441	0	0		A	15541698	A	A	15541698	3	1	191	1	0	0	0	0	1	0	0	0	16202	1087	38	1	117	1	TMEM51	1	15541698	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3531277	15541698	233708923	7	95629											
DNAJC16	23341	broad.mit.edu	37	chr1	15894398	15894398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgataagcatttcatggagcGtgactacactggttatgtac	11	13	10	7	1	1	2	1	2	0	0	1	3	1	3	0	2	4	3	0	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:15894398G>A	uc001aws.2	+	15	2195	c.2075G>A	c.(2074-2076)CGT>CAT	p.R692H	DNAJC16_uc001awt.2_Missense_Mutation_p.R380H|DNAJC16_uc001awu.2_RNA	NM_015291	NP_056106	Q9Y2G8	DJC16_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 16	692	Extracellular (Potential).				cell redox homeostasis|protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			urinary_tract(1)|lung(1)|kidney(1)	3		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00173)|all_lung(284;0.00459)|Lung NSC(340;0.00499)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		TTCATGGAGCGTGACTACACT	0.443													43	133					0	0	0.01441	0	0		A	15894398	A	A	15894398	3	1	191	1	0	0	0	0	1	0	0	0	4641	1145	40	1	2129	1	DNAJC16	1	15894398	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	352700	15894398	233356223	8	95630											
CROCC	9696	broad.mit.edu	37	chr1	17295652	17295652	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggaccctgcagctgacCgtggagcggctgaatggggc	7	5	18	11	2	0	2	0	2	0	0	0	4	0	4	2	5	3	4	2	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:17295652C>T	uc001azt.2	+	32	5187	c.5118C>T	c.(5116-5118)ACC>ACT	p.T1706T	CROCC_uc001azu.2_Silent_p.T1009T|CROCC_uc001azv.2_Silent_p.T42T	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	1706					cell cycle|cell projection organization|centrosome organization|protein localization	actin cytoskeleton|centriole|ciliary rootlet|plasma membrane	kinesin binding|structural molecule activity			ovary(2)|breast(2)|central_nervous_system(1)	5		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000174)|all_lung(284;0.000234)|Renal(390;0.000518)|Ovarian(437;0.00669)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00459)|BRCA - Breast invasive adenocarcinoma(304;7.63e-06)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(64;0.000163)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.181)		TGCAGCTGACCGTGGAGCGGC	0.667													6	22					0	0	0.001984	0	0		T	17295652	T	T	17295652	2	4	191	1	0	0	0	0	0	0	0	1	3896	639	23	1		1	CROCC	1	17295652	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1401254	17295652	231954969	9	95631											
UBR4	23352	broad.mit.edu	37	chr1	19513722	19513722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggacagagtcaatcagcCgttgaatcctctgtatggag	10	10	13	8	1	3	2	2	1	1	1	4	4	4	4	2	2	1	2	2	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:19513722C>T	uc001bbi.2	-	13	1572	c.1568G>A	c.(1567-1569)CGG>CAG	p.R523Q		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	523					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GTCAATCAGCCGTTGAATCCT	0.483													13	40					0	0	0.00245	0	0		T	19513722	T	T	19513722	3	4	191	1	0	0	0	0	1	0	0	0	16930	652	23	1	14359	1	UBR4	1	19513722	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2218070	19513722	229736899	10	95632											
ECE1	1889	broad.mit.edu	37	chr1	21551799	21551799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctcccccagggtgtgccGcccgttcaccggctccccgt	2	9	11	19	4	2	0	1	0	1	0	4	0	3	0	7	2	1	3	7	2	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:21551799G>A	uc001bek.2	-	17	2059	c.1984C>T	c.(1984-1986)CGG>TGG	p.R662W	ECE1_uc001bem.2_Missense_Mutation_p.R646W|ECE1_uc001bej.2_Missense_Mutation_p.R650W|ECE1_uc001bei.2_Missense_Mutation_p.R659W|ECE1_uc010odl.1_Missense_Mutation_p.R662W	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	662	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		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)		AGGGTGTGCCGCCCGTTCACC	0.642													27	45					0	0	0.00632	0	0		A	21551799	A	A	21551799	3	1	191	1	0	0	0	0	1	0	0	0	4895	1086	38	1	340	1	ECE1	1	21551799	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2038077	21551799	227698822	11	95633											
KDM1A	23028	broad.mit.edu	37	chr1	23405511	23405511	+	Silent	SNP	C	T	T	0	0	0	1	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	gtgatagctgtgaatacccgCtccacgagtcaaacctttat	11	11	8	11	2	1	2	1	2	0	0	2	3	2	2	3	0	3	2	3	0	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:23405511C>T	uc001bgi.2	+	15	1973	c.1824C>T	c.(1822-1824)CGC>CGT	p.R608R	KDM1A_uc001bgj.2_Silent_p.R632R	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	608	Demethylase activity.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						TGAATACCCGCTCCACGAGTC	0.488													66	175					0	0	0.01441	0	0		T	23405511	T	T	23405511	2	4	191	1	0	0	0	0	0	0	0	1	8138	784	28	2		2	KDM1A	1	23405511	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1853712	23405511	225845110	12	95634											
WDTC1	23038	broad.mit.edu	37	chr1	27618840	27618840	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgcctggcagttggggccaGcgggcccttcgtgaggctct	3	9	16	13	2	1	1	0	1	1	0	2	1	1	1	3	5	2	3	3	5	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:27618840G>A	uc009vst.2	+	7	1149	c.614G>A	c.(613-615)AGC>AAC	p.S205N	WDTC1_uc001bno.2_Missense_Mutation_p.S205N|WDTC1_uc001bnp.1_RNA	NM_015023	NP_055838	Q8N5D0	WDTC1_HUMAN	WD and tetratricopeptide repeats 1	205	WD 4.						protein binding			ovary(1)|central_nervous_system(1)	2		all_cancers(24;3.12e-19)|all_epithelial(13;4.18e-18)|Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.00257)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0443)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;1.02e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00201)|STAD - Stomach adenocarcinoma(196;0.00321)|READ - Rectum adenocarcinoma(331;0.0476)		GTTGGGGCCAGCGGGCCCTTC	0.562													24	75					0	0	0.003954	0	0		A	27618840	A	A	27618840	3	1	191	1	0	0	0	0	1	0	0	0	17368	971	34	2	636	2	WDTC1	1	27618840	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4213329	27618840	221631781	13	95635											
AHDC1	27245	broad.mit.edu	37	chr1	27875931	27875931	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagccccgctgctacccactGccactgggctggccttggct	4	8	11	18	1	0	0	0	0	0	0	0	0	0	0	5	3	4	4	5	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:27875931G>A	uc009vsy.2	-	6	3665	c.2696C>T	c.(2695-2697)GCA>GTA	p.A899V	AHDC1_uc009vsz.1_Missense_Mutation_p.A899V	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	899							DNA binding			central_nervous_system(1)	1		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)		GCTACCCACTGCCACTGGGCT	0.692													17	36					0	0	0.00499	0	0		A	27875931	A	A	27875931	3	1	191	1	0	0	0	0	1	0	0	0	412	1319	46	2	2119	2	AHDC1	1	27875931	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	257091	27875931	221374690	14	95636											
TRIM62	55223	broad.mit.edu	37	chr1	33623903	33623903	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagatggtgtactgcaggggGcctgtgtacttggaggtcgg	6	10	18	7	1	0	1	0	0	0	1	1	2	0	2	1	6	3	3	1	6	2	3	rs115222802	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:33623903G>A	uc001bxb.2	-	4	1466	c.828C>T	c.(826-828)GGC>GGT	p.G276G		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	276						intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)				ACTGCAGGGGGCCTGTGTACT	0.562													30	125					0	0	0.012213	0	0		A	33623903	A	A	33623903	2	1	191	1	0	0	0	0	0	0	0	1	16563	1190	42	2		2	TRIM62	1	33623903	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5747972	33623903	215626718	15	95637											
C1orf94	84970	broad.mit.edu	37	chr1	34677853	34677853	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgggacagcagatcttcCgctcttcctacacccctctg	8	10	8	15	1	3	2	0	0	3	2	5	3	5	3	4	1	2	2	4	1	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:34677853C>T	uc001bxs.3	+	6	1396	c.997C>T	c.(997-999)CGC>TGC	p.R333C	C1orf94_uc001bxt.2_Missense_Mutation_p.R523C	NM_032884	NP_116273	Q6P1W5	CA094_HUMAN	hypothetical protein LOC84970 isoform b	333							protein binding				0		Myeloproliferative disorder(586;0.0393)				GCAGATCTTCCGCTCTTCCTA	0.488													11	84					0	0	0.008291	0	0		T	34677853	T	T	34677853	3	4	191	1	0	0	0	0	1	0	0	0	2074	652	23	1	1589	1	C1orf94	1	34677853	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1053950	34677853	214572768	16	95638											
THRAP3	9967	broad.mit.edu	37	chr1	36752298	36752298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttctgaccggtcaaggcGctcctcatcctcccgttctt	4	13	8	16	3	5	1	2	1	3	0	8	1	8	1	4	2	0	2	4	2	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:36752298G>A	uc001cae.3	+	4	691	c.467G>A	c.(466-468)CGC>CAC	p.R156H	THRAP3_uc001caf.3_Missense_Mutation_p.R156H|THRAP3_uc001cag.1_Missense_Mutation_p.R156H	NM_005119	NP_005110	Q9Y2W1	TR150_HUMAN	thyroid hormone receptor associated protein 3	156	Arg-rich.|Ser-rich.				androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ATP binding|ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(5)|lung(3)|breast(1)	9		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CGGTCAAGGCGCTCCTCATCC	0.527			T	USP6	aneurysmal bone cysts								130	222					0	0	0.01441	0	0		A	36752298	A	A	36752298	3	1	191	1	0	0	0	0	1	0	0	0	15899	1087	38	1	473	1	THRAP3	1	36752298	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2074445	36752298	212498323	17	95639											
GRIK3	2899	broad.mit.edu	37	chr1	37316021	37316021	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtcggcaggactccacaccCcaacctggatggacacagac	11	4	10	16	2	0	1	0	0	0	1	2	4	1	4	4	4	1	1	4	4	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:37316021C>A	uc001caz.2	-	9	1352	c.1217G>T	c.(1216-1218)GGG>GTG	p.G406V	GRIK3_uc001cba.1_Missense_Mutation_p.G406V	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	406	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	ACTCCACACCCCAACCTGGAT	0.512													32	55					7.65355e-07	8.30524e-07	0.012213	1	0		A	37316021	A	A	37316021	3	1	191	1	0	0	0	0	1	0	0	0	6791	623	22	5	1574	5	GRIK3	1	37316021	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	563723	37316021	211934600	18	95640											
EPHA10	284656	broad.mit.edu	37	chr1	38185238	38185238	+	Frame_Shift_Del	DEL	G	-	-																															agaaggttaggacagttcctGgggggtggcagccggaagcc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:38185238delG	uc009vvi.2	-	15	2690	c.2604delC	c.(2602-2604)CCCfs	p.P868fs	EPHA10_uc001cbt.2_RNA|EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	868	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GACAGTTCCTGGGGGGTGGCA	0.617													28	65	---	---	---	---						.	-	38185238	-	-	38185238	7	5	191	1	0	1	0	1	0	0	0	0	5174	1335	47	0	434	0	EPHA10	1	38185238	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	869217	38185238	211065383	19	95641											
GUCA2A	2980	broad.mit.edu	37	chr1	42629124	42629124	+	Missense_Mutation	SNP	A	T	T	1	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	gctccttgcagagaggcttgAgttcttctggaaagttcggg	7	12	14	8	1	2	2	0	1	2	1	4	4	3	3	1	3	1	5	1	3	1	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:42629124A>T	uc001chd.1	-	2	245	c.233T>A	c.(232-234)CTC>CAC	p.L78H		NM_033553	NP_291031	Q02747	GUC2A_HUMAN	guanylate cyclase activator 2A precursor	78					signal transduction	extracellular region	guanylate cyclase activator activity|hormone activity			pancreas(1)	1	Ovarian(52;0.01)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GAGAGGCTTGAGTTCTTCTGG	0.562													14	26					0	0	0.004007	0	0		T	42629124	T	T	42629124	3	4	191	1	0	0	0	0	1	0	0	0	6907	304	11	5	122	5	GUCA2A	1	42629124	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	4443886	42629124	206621497	20	95642											
LEPRE1	64175	broad.mit.edu	37	chr1	43215937	43215937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagtaggactccatgatgCgccgcaccttctccgtcacg	8	8	11	14	4	2	1	1	1	1	0	4	3	3	3	4	2	1	2	4	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:43215937C>T	uc001chv.2	-	11	1753	c.1640G>A	c.(1639-1641)CGC>CAC	p.R547H	LEPRE1_uc001chw.2_Missense_Mutation_p.R547H|LEPRE1_uc001chx.3_Missense_Mutation_p.R547H	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1	547					negative regulation of cell proliferation	endoplasmic reticulum|proteinaceous extracellular matrix	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 3-dioxygenase activity			ovary(3)|lung(1)	4	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)			L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CTCCATGATGCGCCGCACCTT	0.582													8	25					0	0	0.00308	0	0		T	43215937	T	T	43215937	3	4	191	1	0	0	0	0	1	0	0	0	8745	768	27	1	609	1	LEPRE1	1	43215937	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	586813	43215937	206034684	21	95643											
ERMAP	114625	broad.mit.edu	37	chr1	43305712	43305712	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattctttagagaaactcCggagtgaactgagtaagttt	12	14	9	6	1	2	3	1	2	1	1	3	5	3	4	1	1	2	2	1	1	4	6	rs141803620		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:43305712C>T	uc001cic.1	+	9	916	c.646C>T	c.(646-648)CGG>TGG	p.R216W	ERMAP_uc001cid.1_RNA|ERMAP_uc001cie.1_Missense_Mutation_p.R216W|ERMAP_uc001cif.1_Missense_Mutation_p.R126W	NM_001017922	NP_001017922	Q96PL5	ERMAP_HUMAN	erythroblast membrane-associated protein	216	Cytoplasmic (Potential).		Missing (in Sc-3 allele).			integral to membrane|plasma membrane				ovary(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGAGAAACTCCGGAGTGAACT	0.443													6	159					0	0	0.001984	0	0		T	43305712	T	T	43305712	3	4	191	1	0	0	0	0	1	0	0	0	5242	643	23	1	672	1	ERMAP	1	43305712	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	89775	43305712	205944909	22	95644											
SLC2A1	6513	broad.mit.edu	37	chr1	43394615	43394615	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactcaccagcagtgctagCgcgatggtcatgagtatggc	10	8	12	11	2	2	1	2	1	0	0	2	2	2	1	1	2	4	3	1	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:43394615C>T	uc001cik.2	-	8	1587	c.1062G>A	c.(1060-1062)GCG>GCA	p.A354A		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	354	Helical; Name=9; (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	GCAGTGCTAGCGCGATGGTCA	0.607													35	129					0	0	0.005524	0	0		T	43394615	T	T	43394615	2	4	191	1	0	0	0	0	0	0	0	1	14563	755	27	1		1	SLC2A1	1	43394615	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	88903	43394615	205856006	23	95645											
IPO13	9670	broad.mit.edu	37	chr1	44415613	44415613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatgtggggctgtcttcccGctgctggagcagctgctaca	6	10	14	11	1	1	0	0	0	1	0	2	2	2	1	1	3	5	6	1	3	2	2	rs150416503	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:44415613G>A	uc001ckx.2	+	2	1404	c.609G>A	c.(607-609)CCG>CCA	p.P203P		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	203	HEAT 2.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				CTGTCTTCCCGCTGCTGGAGC	0.637													3	15					0	0	0.004672	0	0		A	44415613	A	A	44415613	2	1	191	1	0	0	0	0	0	0	0	1	7810	1074	38	1		1	IPO13	1	44415613	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1020998	44415613	204835008	24	95646											
RNF220	55182	broad.mit.edu	37	chr1	45116433	45116433	+	Missense_Mutation	SNP	A	G	G	1	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	cagcgcccggagacctgcggAggatctacttgtgagctatc	8	8	13	12	3	1	2	0	1	1	1	2	5	1	4	2	3	4	1	2	3	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:45116433A>G	uc001clv.1	+	15	2047	c.1687A>G	c.(1687-1689)AGG>GGG	p.R563G	RNF220_uc001clw.1_Missense_Mutation_p.R563G|RNF220_uc010oky.1_Missense_Mutation_p.R350G|RNF220_uc010okz.1_3'UTR|RNF220_uc001clx.1_Missense_Mutation_p.R279G|RNF220_uc001cly.1_Missense_Mutation_p.R243G|RNF220_uc001clz.1_Missense_Mutation_p.R242G|RNF220_uc001cma.1_3'UTR|TMEM53_uc001cmb.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	563					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						AGACCTGCGGAGGATCTACTT	0.602													26	73					0	0	0.007291	0	0		G	45116433	G	G	45116433	3	3	191	1	0	0	0	0	1	0	0	0	13508	295	11	3	1741	3	RNF220	1	45116433	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	700820	45116433	204134188	25	95647											
PTCH2	8643	broad.mit.edu	37	chr1	45292921	45292921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccatcctcagagccattgCggtacgagtggcgggtgatg	7	8	14	12	3	1	2	1	1	0	1	2	3	2	2	4	3	3	1	4	3	1	2	rs112613379	by1000genomes	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:45292921C>T	uc010olf.1	-	16	2444	c.2432G>A	c.(2431-2433)CGC>CAC	p.R811H	PTCH2_uc010olg.1_Missense_Mutation_p.R509H	NM_003738	NP_003729	Q9Y6C5	PTC2_HUMAN	patched 2	811	Extracellular (Potential).				protein complex assembly|spermatogenesis	integral to plasma membrane	hedgehog receptor activity			lung(6)|breast(6)|central_nervous_system(3)|skin(2)|ovary(1)	18	Acute lymphoblastic leukemia(166;0.155)					AGAGCCATTGCGGTACGAGTG	0.622									Basal_Cell_Nevus_syndrome				23	82					0	0	0.005443	0	0		T	45292921	T	T	45292921	3	4	191	1	0	0	0	0	1	0	0	0	12753	768	27	1	1227	1	PTCH2	1	45292921	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	176488	45292921	203957700	26	95648											
CYP4A11	1579	broad.mit.edu	37	chr1	47402372	47402372	+	Silent	SNP	A	G	G																															gagtctgccatgagccccacAtagggcttcaggatgtcata																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:47402372A>G	uc001cqp.3	-	4	525	c.474T>C	c.(472-474)TAT>TAC	p.Y158Y	CYP4A11_uc001cqq.2_Silent_p.Y158Y|CYP4A11_uc010omm.1_RNA	NM_000778	NP_000769	Q02928	CP4AB_HUMAN	cytochrome P450, family 4, subfamily A,	158					long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|oxygen binding			ovary(2)|skin(2)	4					NADH(DB00157)	TGAGCCCCACATAGGGCTTCA	0.557													4	45					0	0	0.000602	0	0		G	47402372	G	G	47402372	2	3	191	1	0	0	0	0	0	0	0	1	4186	224	8	3		3	CYP4A11	1	47402372	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2109451	47402372	201848249	27	95649	183	2									
CYP4A11	1579	broad.mit.edu	37	chr1	47402375	47402375	+	Silent	SNP	G	T	T																															tctgccatgagccccacataGggcttcaggatgtcatagtg																								rs150891285	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:47402375G>T	uc001cqp.3	-	4	522	c.471C>A	c.(469-471)CCC>CCA	p.P157P	CYP4A11_uc001cqq.2_Silent_p.P157P|CYP4A11_uc010omm.1_RNA	NM_000778	NP_000769	Q02928	CP4AB_HUMAN	cytochrome P450, family 4, subfamily A,	157					long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|oxygen binding			ovary(2)|skin(2)	4					NADH(DB00157)	GCCCCACATAGGGCTTCAGGA	0.557													5	47					3.59834e-05	3.82149e-05	0.001168	1	0		T	47402375	T	T	47402375	2	4	191	1	0	0	0	0	0	0	0	1	4186	987	35	5		5	CYP4A11	1	47402375	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3	47402375	201848246	28	95650	183	2									
CYP4A11	1579	broad.mit.edu	37	chr1	47402392	47402392	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagggcttcaggatgtcatAgtggaaggctggggtcagca	10	9	16	6	0	3	0	3	0	0	0	3	2	3	2	0	6	1	3	0	6	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:47402392A>T	uc001cqp.3	-	4	505	c.454T>A	c.(454-456)TAT>AAT	p.Y152N	CYP4A11_uc001cqq.2_Missense_Mutation_p.Y152N|CYP4A11_uc010omm.1_RNA	NM_000778	NP_000769	Q02928	CP4AB_HUMAN	cytochrome P450, family 4, subfamily A,	152					long-chain fatty acid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	alkane 1-monooxygenase activity|electron carrier activity|heme binding|oxygen binding			ovary(2)|skin(2)	4					NADH(DB00157)	AGGATGTCATAGTGGAAGGCT	0.517													4	60					0	0	0.001168	0	0		T	47402392	T	T	47402392	3	4	191	1	0	0	0	0	1	0	0	0	4186	420	15	5	1141	5	CYP4A11	1	47402392	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	17	47402392	201848229	29	95651											
STIL	6491	broad.mit.edu	37	chr1	47717280	47717280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcttcactattgtcactgCtttgtaggagtccatatctc	8	16	6	11	0	4	0	2	0	2	0	6	1	5	1	1	1	1	2	1	1	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:47717280C>T	uc001crc.1	-	17	3547	c.3392G>A	c.(3391-3393)AGC>AAC	p.S1131N	TAL1_uc001crb.1_Intron|STIL_uc010omn.1_Missense_Mutation_p.S1085N|STIL_uc010omo.1_Missense_Mutation_p.S1114N|STIL_uc001crd.1_Missense_Mutation_p.S1132N|STIL_uc001cre.1_Missense_Mutation_p.S1131N	NM_003035	NP_003026	Q15468	STIL_HUMAN	SCL/TAL1 interrupting locus isoform 2	1131					cell proliferation|multicellular organismal development	centrosome|cytosol				lung(2)|skin(1)	3		Acute lymphoblastic leukemia(5;0.00116)|all_hematologic(5;0.00444)				ATTGTCACTGCTTTGTAGGAG	0.378													46	136					0	0	0.013114	0	0		T	47717280	T	T	47717280	3	4	191	1	0	0	0	0	1	0	0	0	15307	797	28	2	475	2	STIL	1	47717280	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	314888	47717280	201533341	30	95652											
LRP8	7804	broad.mit.edu	37	chr1	53720817	53720817	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgatgatcccgataacagcGgcagtgactgttgagcccat	11	8	11	11	3	0	3	0	3	0	0	1	5	1	3	2	1	3	2	2	1	1	2	rs146836225		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:53720817G>A	uc001cvi.1	-	16	2617	c.2475C>T	c.(2473-2475)GCC>GCT	p.A825A	LRP8_uc001cvh.1_Silent_p.A378A|LRP8_uc001cvk.1_Silent_p.A655A|LRP8_uc001cvj.1_Silent_p.A825A|LRP8_uc001cvl.1_Silent_p.A621A|LRP8_uc001cvm.1_Silent_p.A410A	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	825	Extracellular (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						CGATAACAGCGGCAGTGACTG	0.512													33	57					0	0	0.004878	0	0		A	53720817	A	A	53720817	2	1	191	1	0	0	0	0	0	0	0	1	8981	1103	39	1		1	LRP8	1	53720817	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6003537	53720817	195529804	31	95653											
C1orf175	374977	broad.mit.edu	37	chr1	55119766	55119766	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attaaggtgggccagttcccGctgggattccccatctccaa	8	10	10	13	1	1	0	0	0	1	0	4	1	3	1	5	3	0	2	5	3	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:55119766G>A	uc010ooe.1	+	3	1491	c.1167G>A	c.(1165-1167)CCG>CCA	p.P389P	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxo.2_Silent_p.P389P|C1orf175_uc010ooc.1_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Intron|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Silent_p.P389P|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	389						integral to membrane	binding				0						GCCAGTTCCCGCTGGGATTCC	0.602													5	18					0	0	0.001168	0	0		A	55119766	A	A	55119766	2	1	191	1	0	0	0	0	0	0	0	1	2019	1074	38	1		1	C1orf175	1	55119766	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1398949	55119766	194130855	32	95654											
C1orf175	374977	broad.mit.edu	37	chr1	55139382	55139382	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgatcccacaggccctgggGccttggatgaactctgggaa	8	9	13	11	0	1	2	0	2	1	0	2	4	2	4	3	5	1	0	3	5	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:55139382G>A	uc010ooe.1	+	9	2028	c.1704G>A	c.(1702-1704)GGG>GGA	p.G568G	C1orf175_uc001cxq.2_RNA|C1orf175_uc010ooc.1_Silent_p.G136G|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Silent_p.G86G|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Silent_p.G568G|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	568						integral to membrane	binding				0						AGGCCCTGGGGCCTTGGATGA	0.547													47	109					0	0	0.01441	0	0		A	55139382	A	A	55139382	2	1	191	1	0	0	0	0	0	0	0	1	2019	1190	42	2		2	C1orf175	1	55139382	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	19616	55139382	194111239	33	95655											
DOCK7	85440	broad.mit.edu	37	chr1	63008278	63008278	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acatgctcagtttttgctcaCcattaattcaaaaaagaacc	15	12	4	10	0	3	1	3	0	0	1	3	1	3	1	2	0	3	3	2	0	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:63008278C>G	uc001daq.2	-	25	3079	c.3045_splice	c.e25+1	p.M1015_splice	DOCK7_uc001dan.2_Splice_Site_p.M876_splice|DOCK7_uc001dao.2_Splice_Site_p.M876_splice|DOCK7_uc001dap.2_Splice_Site_p.M984_splice|DOCK7_uc001dam.2_Splice_Site_p.M195_splice	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7						activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						TTTTTGCTCACCATTAATTCA	0.383													19	68					0	0	0.012319	0	0		G	63008278	G	G	63008278	5	3	191	1	0	0	0	0	0	0	1	0	4698	521	18	5	3480	5	DOCK7	1	63008278	Splice_Site	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7868896	63008278	186242343	34	95656											
ROR1	4919	broad.mit.edu	37	chr1	64515507	64515507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtggtccaggagccccGgaggctctcctttcggtcca	4	10	12	15	2	1	0	0	0	1	0	6	2	4	2	6	5	1	1	6	5	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:64515507G>A	uc001dbj.2	+	3	707	c.308G>A	c.(307-309)CGG>CAG	p.R103Q	ROR1_uc001dbi.3_Missense_Mutation_p.R103Q	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	103	Ig-like C2-type.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						CAGGAGCCCCGGAGGCTCTCC	0.572													48	140					0	0	0.01441	0	0		A	64515507	A	A	64515507	3	1	191	1	0	0	0	0	1	0	0	0	13551	1116	39	1	318	1	ROR1	1	64515507	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1507229	64515507	184735114	35	95657											
DEPDC1	55635	broad.mit.edu	37	chr1	68944833	68944833	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacaatacttacatgtccCttttttaagtagtcaagatg	12	15	5	9	0	2	1	2	0	0	1	3	1	3	1	1	0	2	1	1	0	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:68944833C>T	uc001dem.3	-	10	2223	c.2106G>A	c.(2104-2106)AAG>AAA	p.K702K	DEPDC1_uc001dej.3_Silent_p.K70K|DEPDC1_uc001dek.3_RNA|DEPDC1_uc001del.3_Silent_p.K418K	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	702					intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		TTACATGTCCCTTTTTTAAGT	0.239													25	46					0	0	0.003954	0	0		T	68944833	T	T	68944833	2	4	191	1	0	0	0	0	0	0	0	1	4445	680	24	4		4	DEPDC1	1	68944833	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4429326	68944833	180305788	36	95658											
LRRC7	57554	broad.mit.edu	37	chr1	70504369	70504369	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcaaatccactgccgcccGgaatcttctaaaggtgttat	10	12	7	12	2	3	0	1	0	3	0	5	1	4	1	3	2	1	1	3	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:70504369G>A	uc001dep.2	+	19	2778	c.2748G>A	c.(2746-2748)CCG>CCA	p.P916P	LRRC7_uc009wbg.2_Silent_p.P200P|LRRC7_uc001deq.2_Silent_p.P157P	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	916						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						ACTGCCGCCCGGAATCTTCTA	0.398													17	64					0	0	0.00499	0	0		A	70504369	A	A	70504369	2	1	191	1	0	0	0	0	0	0	0	1	9038	1103	39	1		1	LRRC7	1	70504369	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1559536	70504369	178746252	37	95659											
HHLA3	11147	broad.mit.edu	37	chr1	70820864	70820864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtagaagaggaatgaaggCcaaacaattaaaagcggagg	18	5	13	5	1	0	3	0	1	0	2	0	5	0	5	1	4	2	1	1	4	8	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:70820864C>T	uc001dfa.2	+	1	372	c.230C>T	c.(229-231)GCC>GTC	p.A77V	ANKRD13C_uc001dex.3_5'Flank|ANKRD13C_uc009wbk.2_5'Flank|ANKRD13C_uc001dey.3_5'Flank|HHLA3_uc010oqp.1_Intron|HHLA3_uc001dfb.2_Intron|HHLA3_uc001dfc.2_Intron	NM_001036645	NP_001031722	Q9XRX5	HHLA3_HUMAN	HERV-H LTR-associating 3 isoform 2	77							protein binding				0						ggaatgaaggccaaacaatta	0.214													7	29					0	0	0.00308	0	0		T	70820864	T	T	70820864	3	4	191	1	0	0	0	0	1	0	0	0	7112	739	26	2	232	2	HHLA3	1	70820864	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	316495	70820864	178429757	38	95660											
PTGER3	5733	broad.mit.edu	37	chr1	71513128	71513128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggacaccgatccgcaatcctCgccagaccctggagggcgcg	8	4	13	16	5	0	1	0	0	0	1	3	4	2	3	5	3	0	1	5	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:71513128C>T	uc001dfg.1	-	1	364	c.133G>A	c.(133-135)GAG>AAG	p.E45K	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Missense_Mutation_p.E45K|PTGER3_uc001dfl.1_Missense_Mutation_p.E45K|PTGER3_uc009wbm.1_Missense_Mutation_p.E45K|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Missense_Mutation_p.E45K|PTGER3_uc009wbn.1_Missense_Mutation_p.E45K|PTGER3_uc009wbo.2_Missense_Mutation_p.E45K|PTGER3_uc001dfo.2_Missense_Mutation_p.E45K|PTGER3_uc001dfp.1_Missense_Mutation_p.E45K|PTGER3_uc001dfq.2_Missense_Mutation_p.E45K|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	45	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	CCGCAATCCTCGCCAGACCCT	0.677													4	38					0	0	0.000602	0	0		T	71513128	T	T	71513128	3	4	191	1	0	0	0	0	1	0	0	0	12767	893	31	1	1358	1	PTGER3	1	71513128	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	692264	71513128	177737493	39	95661											
C1orf173	127254	broad.mit.edu	37	chr1	75038995	75038995	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctcatgaacagctcctgctTctccccacagtgctgcctcc	6	10	6	19	0	2	1	1	1	1	0	5	1	4	1	6	0	5	3	6	0	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:75038995T>C	uc001dgg.2	-	14	2618	c.2399A>G	c.(2398-2400)GAA>GGA	p.E800G		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	800	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AGCTCCTGCTTCTCCCCACAG	0.522													53	122					0	0	0.01441	0	0		C	75038995	C	C	75038995	3	2	191	1	0	0	0	0	1	0	0	0	2017	1783	62	3	2197	3	C1orf173	1	75038995	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	3525867	75038995	174211626	40	95662											
COL24A1	255631	broad.mit.edu	37	chr1	86554903	86554903	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccattaatccagaaaggcctTgatcaccctataaacaaaat	17	9	4	11	0	1	2	1	1	0	1	2	2	2	2	4	1	1	0	4	1	7	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:86554903T>C	uc001dlj.2	-	7	1703	c.1661A>G	c.(1660-1662)CAA>CGA	p.Q554R	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.Q554R	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	554	Collagen-like 2.				cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		AGAAAGGCCTTGATCACCCTA	0.289													26	59					0	0	0.00632	0	0		C	86554903	C	C	86554903	3	2	191	1	0	0	0	0	1	0	0	0	3686	1812	63	3	3699	3	COL24A1	1	86554903	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	11515908	86554903	162695718	41	95663											
GBP4	115361	broad.mit.edu	37	chr1	89659082	89659082	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcaaagatccacgagtcaTtcttagggttactctagaaa	13	10	10	8	1	3	2	1	0	2	2	4	3	4	2	1	2	1	2	1	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:89659082T>C	uc001dnb.2	-	4	493	c.377A>G	c.(376-378)AAT>AGT	p.N126S		NM_052941	NP_443173	Q96PP9	GBP4_HUMAN	guanylate binding protein 4	126						cytoplasm	GTP binding|GTPase activity				0				all cancers(265;0.00723)|Epithelial(280;0.0291)		CCACGAGTCATTCTTAGGGTT	0.408													3	89					0	0	0.009096	0	0		C	89659082	C	C	89659082	3	2	191	1	0	0	0	0	1	0	0	0	6291	1493	52	3	1577	3	GBP4	1	89659082	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	3104179	89659082	159591539	42	95664											
VCAM1	7412	broad.mit.edu	37	chr1	101203814	101203814	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggggtcatatagtcttgTagaagcacagaagtcaaaag	16	8	12	5	0	3	2	2	0	1	2	3	3	3	2	0	2	1	2	0	2	8	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:101203814T>C	uc001dti.2	+	9	2315	c.2195T>C	c.(2194-2196)GTA>GCA	p.V732A	VCAM1_uc001dtj.2_Missense_Mutation_p.V640A|VCAM1_uc010ouj.1_Missense_Mutation_p.V670A	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	732	Cytoplasmic (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	TATAGTCTTGTAGAAGCACAG	0.378													36	56					0	0	0.003755	0	0		C	101203814	C	C	101203814	3	2	191	1	0	0	0	0	1	0	0	0	17163	1638	57	3	2229	3	VCAM1	1	101203814	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	11544732	101203814	148046807	43	95665											
CELSR2	1952	broad.mit.edu	37	chr1	109810548	109810548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccctgctcctgcgcaacGccacgcagcacacagctggc	8	5	10	18	3	0	0	0	0	0	0	1	0	1	0	3	1	6	5	3	1	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:109810548G>A	uc001dxa.3	+	17	6245	c.6184G>A	c.(6184-6186)GCC>ACC	p.A2062T		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2062	Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CCTGCGCAACGCCACGCAGCA	0.672													4	24					0	0	0.000602	0	0		A	109810548	A	A	109810548	3	1	191	1	0	0	0	0	1	0	0	0	3225	1087	38	1	6250	1	CELSR2	1	109810548	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	8606734	109810548	139440073	44	95666											
AMPD2	271	broad.mit.edu	37	chr1	110171328	110171328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgcggctctccatttacGggcgctcgagggatgagtgg	6	9	16	10	4	1	1	0	1	1	0	3	3	1	2	1	4	3	3	1	4	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:110171328G>A	uc009wfh.1	+	13	2175	c.1633G>A	c.(1633-1635)GGG>AGG	p.G545R	AMPD2_uc009wfg.1_RNA|AMPD2_uc001dyb.1_Missense_Mutation_p.G464R|AMPD2_uc001dyc.1_Missense_Mutation_p.G545R|AMPD2_uc010ovr.1_Missense_Mutation_p.G470R|AMPD2_uc001dyd.1_Missense_Mutation_p.G426R|AMPD2_uc001dye.1_5'Flank	NM_004037	NP_004028	Q01433	AMPD2_HUMAN	adenosine monophosphate deaminase 2 (isoform L)	545					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|breast(1)	3		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0425)|all cancers(265;0.0884)|Colorectal(144;0.109)|Epithelial(280;0.111)|LUSC - Lung squamous cell carcinoma(189;0.228)		CTCCATTTACGGGCGCTCGAG	0.617													5	16					0	0	0.000602	0	0		A	110171328	A	A	110171328	3	1	191	1	0	0	0	0	1	0	0	0	586	1116	39	1	1720	1	AMPD2	1	110171328	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	360780	110171328	139079293	45	95667											
SLC6A17	388662	broad.mit.edu	37	chr1	110734624	110734624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgctggacccccaggtgtggCgggaggcagctacccaggtc	6	6	16	13	1	0	0	0	0	0	0	1	2	0	2	3	6	3	3	3	6	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:110734624C>T	uc009wfq.2	+	7	1356	c.895C>T	c.(895-897)CGG>TGG	p.R299W	SLC6A17_uc001dze.1_5'Flank	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	299	Extracellular (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		CCAGGTGTGGCGGGAGGCAGC	0.542													21	95					0	0	0.010504	0	0		T	110734624	T	T	110734624	3	4	191	1	0	0	0	0	1	0	0	0	14705	759	27	1	917	1	SLC6A17	1	110734624	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	563296	110734624	138515997	46	95668											
ATP1A1	476	broad.mit.edu	37	chr1	116932304	116932304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcatcgtagccaatgtgcCggaaggtttgctggccactg	8	11	12	10	2	1	0	1	0	0	0	2	1	1	1	3	3	3	3	3	3	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:116932304C>T	uc001ege.2	+	8	1337	c.998C>T	c.(997-999)CCG>CTG	p.P333L	ATP1A1_uc010owv.1_Missense_Mutation_p.P302L|ATP1A1_uc010oww.1_Missense_Mutation_p.P333L|ATP1A1_uc010owx.1_Missense_Mutation_p.P302L	NM_000701	NP_000692	P05023	AT1A1_HUMAN	Na+/K+ -ATPase alpha 1 subunit isoform a	333	Helical; (Potential).				ATP biosynthetic process	melanosome|sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;1.28e-06)|all_epithelial(167;3.48e-07)|all_lung(203;2.64e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0164)|LUSC - Lung squamous cell carcinoma(189;0.0548)|Colorectal(144;0.0825)|COAD - Colon adenocarcinoma(174;0.127)|all cancers(265;0.24)	Acetyldigitoxin(DB00511)|Almitrine(DB01430)|Aluminium(DB01370)|Bepridil(DB01244)|Bretylium(DB01158)|Captopril(DB01197)|Deslanoside(DB01078)|Diazoxide(DB01119)|Digitoxin(DB01396)|Digoxin(DB00390)|Esomeprazole(DB00736)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Ouabain(DB01092)|Pantoprazole(DB00213)|Trichlormethiazide(DB01021)	GCCAATGTGCCGGAAGGTTTG	0.502													20	44					0	0	0.008871	0	0		T	116932304	T	T	116932304	3	4	191	1	0	0	0	0	1	0	0	0	1129	652	23	1	1044	1	ATP1A1	1	116932304	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6197680	116932304	132318317	47	95669											
CD101	9398	broad.mit.edu	37	chr1	117560078	117560078	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggactcagaagatttcagTtactgtaaagtctctgggta	11	13	10	7	0	3	2	2	0	1	2	4	3	3	3	0	2	1	3	0	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:117560078T>A	uc010oxb.1	+	5	1653	c.1595T>A	c.(1594-1596)GTT>GAT	p.V532D	CD101_uc009whd.2_Missense_Mutation_p.V532D|CD101_uc010oxc.1_Missense_Mutation_p.V532D|CD101_uc010oxd.1_Missense_Mutation_p.V470D	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	532	Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AAGATTTCAGTTACTGTAAAG	0.458													10	94					0	0	0.006214	0	0		A	117560078	A	A	117560078	3	1	191	1	0	0	0	0	1	0	0	0	2965	1725	60	5	1613	5	CD101	1	117560078	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	627774	117560078	131690543	48	95670											
TRIM45	80263	broad.mit.edu	37	chr1	117656107	117656107	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	catcacagtgaatggcgagcCctgcagtgttcagaccaaaa	13	7	10	11	1	2	2	2	1	0	1	2	3	2	2	2	1	2	2	2	1	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:117656107C>A	uc001egz.2	-	5	2056	c.1468G>T	c.(1468-1470)GGC>TGC	p.G490C	TRIM45_uc009whe.2_Missense_Mutation_p.G472C|TRIM45_uc001eha.2_Missense_Mutation_p.G386C	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	490	Filamin.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		AATGGCGAGCCCTGCAGTGTT	0.552													5	19					0.000602214	0.000630398	0.000602	1	0		A	117656107	A	A	117656107	3	1	191	1	0	0	0	0	1	0	0	0	16546	637	22	5	282	5	TRIM45	1	117656107	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	96029	117656107	131594514	49	95671											
NOTCH2	4853	broad.mit.edu	37	chr1	120484286	120484286	+	Silent	SNP	T	G	G	0	1	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	ctcagacactcattcatgtcTgtctggcacttatccccagt	8	13	6	14	0	5	1	3	0	2	1	6	1	6	1	2	1	0	1	2	1	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:120484286T>G	uc001eik.2	-	18	3100	c.2844A>C	c.(2842-2844)ACA>ACC	p.T948T	NOTCH2_uc001eil.2_Silent_p.T948T	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	948	Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CATTCATGTCTGTCTGGCACT	0.498			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				22	45					0	0	0.014323	0	0		G	120484286	G	G	120484286	2	3	191	1	0	0	0	0	0	0	0	1	10567	1567	55	5		5	NOTCH2	1	120484286	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2828179	120484286	128766335	50	95672											
ITGA10	8515	broad.mit.edu	37	chr1	145532147	145532147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtcagtcccatgggggccGacccgaggctgccaggctac	7	5	14	15	2	1	0	1	0	0	0	2	2	2	0	4	4	2	2	4	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:145532147G>A	uc001eoa.2	+	8	867	c.791G>A	c.(790-792)CGA>CAA	p.R264Q	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.R133Q|ITGA10_uc009wiw.2_Missense_Mutation_p.R121Q|ITGA10_uc010oyw.1_Missense_Mutation_p.R209Q	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	264	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CATGGGGGCCGACCCGAGGCT	0.488													5	166					0	0	0.001984	0	0		A	145532147	A	A	145532147	3	1	191	1	0	0	0	0	1	0	0	0	7889	1058	37	1	821	1	ITGA10	1	145532147	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	25047861	145532147	103718474	51	95673											
MTMR11	10903	broad.mit.edu	37	chr1	149903217	149903217	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagctgccacccactctcGctgtactagtgattggaagc	8	10	9	14	1	1	1	0	1	1	0	3	2	2	2	3	1	4	3	3	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:149903217G>A	uc001etl.3	-	13	1476	c.1225C>T	c.(1225-1227)CGA>TGA	p.R409*	SF3B4_uc001etk.1_5'Flank|MTMR11_uc001etm.1_Nonsense_Mutation_p.R337*|MTMR11_uc010pbm.1_Intron|MTMR11_uc010pbn.1_Missense_Mutation_p.A235V	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	409	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)			ACCCACTCTCGCTGTACTAGT	0.577													8	73					0	0	0.006214	0	0		A	149903217	A	A	149903217	4	1	191	1	0	0	0	0	0	1	0	0	9958	1095	38	1	963	1	MTMR11	1	149903217	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4371070	149903217	99347404	52	95674											
ZNF687	57592	broad.mit.edu	37	chr1	151261079	151261079	+	Frame_Shift_Del	DEL	C	-	-																															agcgcatgcataagaatcgaCccccccatgtctgtcctgag																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:151261079delC	uc001exq.2	+	3	2289	c.2191delC	c.(2191-2193)CCCfs	p.P731fs	ZNF687_uc009wmo.2_Frame_Shift_Del_p.P731fs|ZNF687_uc009wmp.2_Frame_Shift_Del_p.P731fs	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	731					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			TAAGAATCGACCCCCCCATGT	0.577													44	90	---	---	---	---						.	-	151261079	-	-	151261079	7	5	191	1	0	1	0	1	0	0	0	0	18117	507	18	0	2197	0	ZNF687	1	151261079	Frame_Shift_Del	DEL	C	TCGA-F1-6874-01A-11D-1882-08	1357862	151261079	97989542	53	95675											
POGZ	23126	broad.mit.edu	37	chr1	151378237	151378237	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgctacatccttaggtagggTgtgggccacagctcgccggg	6	9	15	11	2	0	0	0	0	0	0	2	0	1	0	3	4	3	3	3	4	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:151378237T>C	uc001eyd.1	-	19	3580	c.3274A>G	c.(3274-3276)ACC>GCC	p.T1092A	POGZ_uc001eye.1_Missense_Mutation_p.T1039A|POGZ_uc010pdb.1_Missense_Mutation_p.T1083A|POGZ_uc001eyf.1_Missense_Mutation_p.T1048A|POGZ_uc010pdc.1_Missense_Mutation_p.T1030A|POGZ_uc009wmv.1_Missense_Mutation_p.T997A|POGZ_uc010pdd.1_Missense_Mutation_p.T583A	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1092				TLPKDVAENAGLFIDF -> PTLLFCLFVFSSPSTL (in Ref. 4; BAB87117/BAE45744).	cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	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)			TTAGGTAGGGTGTGGGCCACA	0.517													22	76					0	0	0.014323	0	0		C	151378237	C	C	151378237	3	2	191	1	0	0	0	0	1	0	0	0	12205	1696	59	3	962	3	POGZ	1	151378237	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	117158	151378237	97872384	54	95676											
LCE1C	353133	broad.mit.edu	37	chr1	152777634	152777634	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgctggccactccccccGccacagcagctggagccccc	6	4	11	20	1	0	0	0	0	0	0	1	2	1	1	7	2	4	3	7	2	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:152777634G>A	uc001fap.1	-	2	372	c.321C>T	c.(319-321)GGC>GGT	p.G107G		NM_178351	NP_848128	Q5T751	LCE1C_HUMAN	late cornified envelope 1C	107	Gly-rich.				keratinization						0	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)			CACTCCCCCCGCCACAGCAGC	0.662													43	52					0	0	0.011902	0	0		A	152777634	A	A	152777634	2	1	191	1	0	0	0	0	0	0	0	1	8677	1074	38	1		1	LCE1C	1	152777634	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1399397	152777634	96472987	55	95677											
RUSC1	23623	broad.mit.edu	37	chr1	155291851	155291851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaggaagagggggctgcctCtccctcagacccaggctgct	7	6	15	13	0	2	2	1	0	1	2	3	4	2	4	3	5	2	3	3	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:155291851C>T	uc001fkj.2	+	2	516	c.287C>T	c.(286-288)TCT>TTT	p.S96F	RAG1AP1_uc010pey.1_Intron|C1orf104_uc001fkh.1_5'Flank|C1orf104_uc001fki.2_Intron|RUSC1_uc001fkk.2_Missense_Mutation_p.S96F|RUSC1_uc009wqn.1_RNA|RUSC1_uc009wqo.1_5'Flank|RUSC1_uc001fkl.2_5'Flank|RUSC1_uc001fkp.2_5'Flank|RUSC1_uc001fkq.2_5'Flank|RUSC1_uc010pgb.1_5'Flank|RUSC1_uc009wqp.1_5'Flank|RUSC1_uc001fkn.2_5'Flank|RUSC1_uc001fko.2_5'Flank|RUSC1_uc001fkr.2_5'Flank	NM_001105203	NP_001098673	Q9BVN2	RUSC1_HUMAN	RUN and SH3 domain containing 1 isoform a	96						cytoplasm|nucleolus	SH3/SH2 adaptor activity			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;1.55e-10)|all cancers(21;4.15e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)			GGGGCTGCCTCTCCCTCAGAC	0.632													10	28					0	0	0.006214	0	0		T	155291851	T	T	155291851	3	4	191	1	0	0	0	0	1	0	0	0	13775	913	32	4	289	4	RUSC1	1	155291851	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2514217	155291851	93958770	56	95678											
YY1AP1	55249	broad.mit.edu	37	chr1	155646486	155646486	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcagctgttcaaatagttcCttcgctatctgatgttgttc	7	18	7	9	1	3	1	2	1	1	0	6	1	4	1	1	0	1	6	1	0	3	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:155646486C>A	uc001fln.2	-	5	399	c.375G>T	c.(373-375)AAG>AAT	p.K125N	YY1AP1_uc010pgg.1_Translation_Start_Site|YY1AP1_uc010pgh.1_Missense_Mutation_p.K48N|YY1AP1_uc010pgi.1_Missense_Mutation_p.K197N|YY1AP1_uc001flh.2_Missense_Mutation_p.K197N|YY1AP1_uc009wqt.2_Missense_Mutation_p.K48N|YY1AP1_uc001flk.2_Missense_Mutation_p.K48N|YY1AP1_uc001fll.2_Missense_Mutation_p.K59N|YY1AP1_uc009wqv.2_Translation_Start_Site|YY1AP1_uc001flm.2_Missense_Mutation_p.K48N|YY1AP1_uc001fli.2_Missense_Mutation_p.K59N|YY1AP1_uc009wqu.2_Translation_Start_Site|YY1AP1_uc001flj.2_Missense_Mutation_p.K59N|YY1AP1_uc009wqw.2_Missense_Mutation_p.K48N|YY1AP1_uc001flo.2_Translation_Start_Site|YY1AP1_uc001flp.2_Missense_Mutation_p.K59N|YY1AP1_uc010pgj.1_Missense_Mutation_p.K125N|YY1AP1_uc009wqx.2_Missense_Mutation_p.K197N|YY1AP1_uc010pgk.1_Missense_Mutation_p.K197N	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	125					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					CAAATAGTTCCTTCGCTATCT	0.438													32	105					3.99451e-17	4.58908e-17	0.009535	1	0		A	155646486	A	A	155646486	3	1	191	1	0	0	0	0	1	0	0	0	17534	680	24	5	2103	5	YY1AP1	1	155646486	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	354635	155646486	93604135	57	95679											
RXFP4	339403	broad.mit.edu	37	chr1	155911816	155911816	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgagtcggcactggactttCactggcccttcggaggtgcc	5	9	13	14	3	1	0	1	0	0	0	3	3	1	2	3	5	1	1	3	5	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:155911816C>A	uc010pgs.1	+	1	337	c.316C>A	c.(316-318)CAC>AAC	p.H106N		NM_181885	NP_871001	Q8TDU9	RL3R2_HUMAN	relaxin 3 receptor 2	106	Extracellular (Potential).					integral to membrane|plasma membrane	angiotensin type II receptor activity				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					ACTGGACTTTCACTGGCCCTT	0.602													18	58					9.16793e-09	1.01087e-08	0.00499	1	0		A	155911816	A	A	155911816	3	1	191	1	0	0	0	0	1	0	0	0	13787	826	29	5	318	5	RXFP4	1	155911816	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	265330	155911816	93338805	58	95680											
FCRL5	83416	broad.mit.edu	37	chr1	157494244	157494244	+	Silent	SNP	T	C	C	0	1	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	tgataaaaccagtacaggatTggggaggagcctctcagggc	12	7	14	8	0	1	1	1	1	1	0	2	4	1	4	2	5	3	1	2	5	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:157494244T>C	uc001fqu.2	-	10	2222	c.2064A>G	c.(2062-2064)CCA>CCG	p.P688P	FCRL5_uc009wsm.2_Silent_p.P688P|FCRL5_uc010phv.1_Silent_p.P688P|FCRL5_uc010phw.1_Silent_p.P603P	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	688	Extracellular (Potential).|Ig-like C2-type 7.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				AGTACAGGATTGGGGAGGAGC	0.577													22	94					0	0	0.012319	0	0		C	157494244	C	C	157494244	2	2	191	1	0	0	0	0	0	0	0	1	5812	1799	63	3		3	FCRL5	1	157494244	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1582428	157494244	91756377	59	95681											
OR6Y1	391112	broad.mit.edu	37	chr1	158517497	158517497	+	Missense_Mutation	SNP	A	T	T	1	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	atgactgggtagcgtagtggAttacaaatggctacatagcg	12	10	13	6	2	0	1	0	1	0	0	0	2	0	2	0	3	4	3	0	3	6	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:158517497A>T	uc010pil.1	-	1	399	c.399T>A	c.(397-399)AAT>AAA	p.N133K		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGCGTAGTGGATTACAAATGG	0.468													11	40					0	0	0.008291	0	0		T	158517497	T	T	158517497	3	4	191	1	0	0	0	0	1	0	0	0	11232	330	12	5	580	5	OR6Y1	1	158517497	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1023253	158517497	90733124	60	95682											
ATP1A4	480	broad.mit.edu	37	chr1	160146025	160146025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcctctgcattgatctcGgcactgacatggtaagggcc	8	10	10	13	1	2	2	0	2	2	0	4	2	3	2	3	3	1	3	3	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:160146025G>A	uc001fve.3	+	16	2934	c.2455G>A	c.(2455-2457)GGC>AGC	p.G819S	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.G322S|ATP1A4_uc001fvh.2_5'Flank	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	819	Helical; (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CATTGATCTCGGCACTGACAT	0.522													45	94					0	0	0.01441	0	0		A	160146025	A	A	160146025	3	1	191	1	0	0	0	0	1	0	0	0	1132	1116	39	1	2517	1	ATP1A4	1	160146025	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1628528	160146025	89104596	61	95683											
ARHGAP30	257106	broad.mit.edu	37	chr1	161017809	161017809	+	Missense_Mutation	SNP	A	G	G	1	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	ggcggtcccgggctagggccAcagcagcatcaaaggaaaga	12	3	15	11	2	1	1	1	0	0	1	2	2	2	2	2	5	2	3	2	5	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:161017809A>G	uc001fxl.2	-	12	3348	c.3002T>C	c.(3001-3003)GTG>GCG	p.V1001A	USF1_uc001fxi.2_5'Flank|USF1_uc001fxj.2_5'Flank|ARHGAP30_uc001fxk.2_Missense_Mutation_p.V790A|ARHGAP30_uc001fxm.2_Missense_Mutation_p.V847A|ARHGAP30_uc009wtx.2_Missense_Mutation_p.V674A	NM_001025598	NP_001020769	Q7Z6I6	RHG30_HUMAN	Rho GTPase activating protein 30 isoform 1	1001					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(2)|upper_aerodigestive_tract(1)	3	all_cancers(52;8.05e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GGCTAGGGCCACAGCAGCATC	0.607													29	76					0	0	0.00632	0	0		G	161017809	G	G	161017809	3	3	191	1	0	0	0	0	1	0	0	0	879	159	6	3	307	3	ARHGAP30	1	161017809	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	871784	161017809	88232812	62	95684											
C1orf192	257177	broad.mit.edu	37	chr1	161334773	161334773	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttaggatttggctggtctTtggggacctggagtatgacc	6	14	14	7	0	2	1	0	1	2	0	2	4	2	4	2	6	0	2	2	6	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:161334773T>C	uc001gal.2	-	5	522	c.516A>G	c.(514-516)CAA>CAG	p.Q172Q		NM_001013625	NP_001013647	Q5VTH2	CA192_HUMAN	hypothetical protein LOC257177	172											0	all_cancers(52;4.64e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			TGGCTGGTCTTTGGGGACCTG	0.522													48	117					0	0	0.01441	0	0		C	161334773	C	C	161334773	2	2	191	1	0	0	0	0	0	0	0	1	2027	1838	64	3		3	C1orf192	1	161334773	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	316964	161334773	87915848	63	95685											
FCRLA	84824	broad.mit.edu	37	chr1	161681834	161681834	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcagaggtcagctgccCgcctcctcttctccttctac	4	11	7	19	1	4	1	1	0	3	1	6	1	5	1	5	1	4	2	5	1	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:161681834C>T	uc001gbe.2	+	5	921	c.679C>T	c.(679-681)CGC>TGC	p.R227C	FCRLA_uc001gbd.2_Missense_Mutation_p.R221C|FCRLA_uc001gbf.2_Missense_Mutation_p.R132C|FCRLA_uc001gbg.2_Missense_Mutation_p.R81C|FCRLA_uc009wuo.2_Missense_Mutation_p.R87C|FCRLA_uc009wup.2_Intron|FCRLA_uc009wuq.2_Intron	NM_032738	NP_116127	Q7L513	FCRLA_HUMAN	Fc receptor-like and mucin-like 1	204	Ig-like C2-type 2.				cell differentiation	cytoplasm|extracellular region					0	all_cancers(52;2.55e-15)|all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00301)			GTCAGCTGCCCGCCTCCTCTT	0.562													44	119					0	0	0.00874	0	0		T	161681834	T	T	161681834	3	4	191	1	0	0	0	0	1	0	0	0	5814	652	23	1	697	1	FCRLA	1	161681834	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	347061	161681834	87568787	64	95686											
SELP	6403	broad.mit.edu	37	chr1	169581513	169581513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgcattgcaccacttcCggtccaactaatgcaaatcc	10	10	7	14	1	0	0	0	0	0	0	3	0	3	0	4	1	4	4	4	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:169581513C>T	uc001ggi.3	-	6	968	c.903G>A	c.(901-903)CCG>CCA	p.P301P	SELP_uc001ggh.2_Silent_p.P136P|SELP_uc009wvr.2_Silent_p.P301P	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	301	Extracellular (Potential).|Sushi 2.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	GCACCACTTCCGGTCCAACTA	0.507													36	76					0	0	0.003755	0	0		T	169581513	T	T	169581513	2	4	191	1	0	0	0	0	0	0	0	1	14044	639	23	1		1	SELP	1	169581513	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7899679	169581513	79669108	65	95687											
PRRX1	5396	broad.mit.edu	37	chr1	170688909	170688909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaaaagaagagaaagcagcGaaggaataggacaaccttca	22	3	10	6	1	1	2	1	0	0	2	1	6	1	4	1	2	3	1	1	2	9	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:170688909G>A	uc001ghf.2	+	2	331	c.284G>A	c.(283-285)CGA>CAA	p.R95Q	PRRX1_uc001ghe.2_Missense_Mutation_p.R95Q	NM_022716	NP_073207	P54821	PRRX1_HUMAN	paired mesoderm homeobox 1 isoform pmx-1b	95	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGAAAGCAGCGAAGGAATAGG	0.458													15	38					0	0	0.00245	0	0		A	170688909	A	A	170688909	3	1	191	1	0	0	0	0	1	0	0	0	12634	1058	37	1	290	1	PRRX1	1	170688909	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1107396	170688909	78561712	66	95688											
C1orf9	51430	broad.mit.edu	37	chr1	172569271	172569271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caacatgacacagcttgtttCaaatttatcagcaacagtag	15	11	6	9	0	2	1	2	1	0	0	2	1	2	1	0	0	4	4	0	0	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:172569271C>T	uc001giq.3	+	20	3297	c.2981C>T	c.(2980-2982)TCA>TTA	p.S994L	C1orf9_uc010pmm.1_Missense_Mutation_p.S994L|C1orf9_uc009wwd.2_Missense_Mutation_p.S950L|C1orf9_uc010pmn.1_Missense_Mutation_p.S623L|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	994	Potential.				multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		CAGCTTGTTTCAAATTTATCA	0.403													14	22					0	0	0.004007	0	0		T	172569271	T	T	172569271	3	4	191	1	0	0	0	0	1	0	0	0	2070	838	29	4	3059	4	C1orf9	1	172569271	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1880362	172569271	76681350	67	95689											
CACNA1E	777	broad.mit.edu	37	chr1	181732633	181732633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgtcagggctataccatacGcattttgctgtggacctttg	7	13	11	10	2	1	0	1	0	0	0	1	1	1	1	2	2	3	3	2	2	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:181732633G>A	uc001gow.2	+	34	4946	c.4781G>A	c.(4780-4782)CGC>CAC	p.R1594H	CACNA1E_uc009wxs.2_Missense_Mutation_p.R1482H|CACNA1E_uc001gox.1_Missense_Mutation_p.R820H|CACNA1E_uc009wxt.2_Missense_Mutation_p.R820H	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1594	Cytoplasmic (Potential).|IV.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TATACCATACGCATTTTGCTG	0.512													21	50					0	0	0.010504	0	0		A	181732633	A	A	181732633	3	1	191	1	0	0	0	0	1	0	0	0	2545	1087	38	1	4915	1	CACNA1E	1	181732633	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	9163362	181732633	67517988	68	95690											
NCF2	4688	broad.mit.edu	37	chr1	183534904	183534904	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggatgtcggactgcggaGagctttcctcctgaaggcaa	8	9	14	10	2	0	2	0	1	0	1	3	5	2	4	2	4	2	2	2	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:183534904G>T	uc001gqj.3	-	10	1210	c.935C>A	c.(934-936)TCT>TAT	p.S312Y	NCF2_uc010pod.1_Missense_Mutation_p.S267Y|NCF2_uc010poe.1_Missense_Mutation_p.S231Y|NCF2_uc001gqk.3_Missense_Mutation_p.S312Y	NM_000433	NP_000424	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	312					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3						GGACTGCGGAGAGCTTTCCTC	0.592													27	52					6.12954e-19	7.09395e-19	0.004656	1	0		T	183534904	T	T	183534904	3	4	191	1	0	0	0	0	1	0	0	0	10236	942	33	5	669	5	NCF2	1	183534904	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1802271	183534904	65715717	69	95691											
HMCN1	83872	broad.mit.edu	37	chr1	186092099	186092099	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttagttcctccagtcattagCcctcatctaaaggaatatgt	11	14	6	10	0	3	0	2	0	1	0	5	1	5	1	3	1	1	1	3	1	6	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:186092099C>T	uc001grq.1	+	81	12475	c.12246C>T	c.(12244-12246)AGC>AGT	p.S4082S		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4082	Ig-like C2-type 40.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						CAGTCATTAGCCCTCATCTAA	0.398													8	70					0	0	0.006214	0	0		T	186092099	T	T	186092099	2	4	191	1	0	0	0	0	0	0	0	1	7236	738	26	2		2	HMCN1	1	186092099	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2557195	186092099	63158522	70	95692											
HMCN1	83872	broad.mit.edu	37	chr1	186097347	186097347	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcattaaataaaggagaacaGctacgattaagctgtaaagc	18	9	8	6	1	1	1	1	0	0	1	1	3	1	1	0	1	5	3	0	1	9	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:186097347G>T	uc001grq.1	+	83	13057	c.12828G>T	c.(12826-12828)CAG>CAT	p.Q4276H	HMCN1_uc001grs.1_5'UTR	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4276	Ig-like C2-type 42.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AAGGAGAACAGCTACGATTAA	0.403													16	48					3.52763e-06	3.79047e-06	0.00499	1	0		T	186097347	T	T	186097347	3	4	191	1	0	0	0	0	1	0	0	0	7236	962	34	5	13158	5	HMCN1	1	186097347	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5248	186097347	63153274	71	95693											
C1orf27	54953	broad.mit.edu	37	chr1	186368120	186368120	+	Missense_Mutation	SNP	A	G	G	1	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	tatattgaacacagttgctgAtcgttgtgaaatgctatttg	11	16	9	5	1	0	3	0	3	0	0	1	3	0	3	0	0	3	4	0	0	5	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:186368120A>G	uc001grw.2	+	11	1180	c.944A>G	c.(943-945)GAT>GGT	p.D315G	C1orf27_uc010poq.1_Missense_Mutation_p.D292G|C1orf27_uc010por.1_Missense_Mutation_p.D283G|OCLM_uc001gry.2_5'Flank	NM_017847	NP_060317	Q5SWX8	ODR4_HUMAN	odorant response abnormal 4 isoform 1	315						integral to membrane	oxidoreductase activity|zinc ion binding			ovary(1)	1						ACAGTTGCTGATCGTTGTGAA	0.294													4	30					0	0	0.009096	0	0		G	186368120	G	G	186368120	3	3	191	1	0	0	0	0	1	0	0	0	2039	333	12	3	982	3	C1orf27	1	186368120	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	270773	186368120	62882501	72	95694											
NEK7	140609	broad.mit.edu	37	chr1	198231732	198231732	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atttaatggatgccaaagcaCgtgctgattgcatcaaagaa	15	10	9	7	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:198231732C>T	uc001gun.3	+	4	553	c.226C>T	c.(226-228)CGT>TGT	p.R76C		NM_133494	NP_598001	Q8TDX7	NEK7_HUMAN	NIMA-related kinase 7	76	Protein kinase.					cytoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|lung(1)|ovary(1)	4						TGCCAAAGCACGTGCTGATTG	0.279													39	111					0	0	0.009718	0	0		T	198231732	T	T	198231732	3	4	191	1	0	0	0	0	1	0	0	0	10348	536	19	1	236	1	NEK7	1	198231732	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	11863612	198231732	51018889	73	95695											
ELF3	1999	broad.mit.edu	37	chr1	201981273	201981273	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtctggtctttgggcctctgGgggaccaactccatgcccag	5	10	13	13	0	3	0	0	0	3	0	4	1	4	1	4	4	2	0	4	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:201981273G>T	uc001gxg.3	+	2	3544	c.352G>T	c.(352-354)GGG>TGG	p.G118W	ELF3_uc001gxi.3_Missense_Mutation_p.G118W|ELF3_uc001gxh.3_Missense_Mutation_p.G118W	NM_004433	NP_004424	P78545	ELF3_HUMAN	E74-like factor 3 (ets domain transcription	118	PNT.				epidermis development|epithelial cell differentiation|inflammatory response|mammary gland involution|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi apparatus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0						TGGGCCTCTGGGGGACCAACT	0.607													11	59					3.07112e-06	3.30643e-06	0.010729	1	0		T	201981273	T	T	201981273	3	4	191	1	0	0	0	0	1	0	0	0	5063	1232	43	5	358	5	ELF3	1	201981273	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3749541	201981273	47269348	74	95696											
ATP2B4	493	broad.mit.edu	37	chr1	203682345	203682345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagcttcgggtcctggcgcGatcttctcccactgacaagc	7	10	10	14	3	2	1	0	1	2	0	5	2	3	1	2	2	2	1	2	2	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:203682345G>A	uc001gzw.2	+	14	3148	c.2264G>A	c.(2263-2265)CGA>CAA	p.R755Q	ATP2B4_uc001gzv.2_Missense_Mutation_p.R755Q|ATP2B4_uc009xaq.2_Missense_Mutation_p.R755Q	NM_001684	NP_001675	P23634	AT2B4_HUMAN	plasma membrane calcium ATPase 4 isoform 4b	755	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|skin(1)	3	all_cancers(21;0.071)|all_epithelial(62;0.228)		BRCA - Breast invasive adenocarcinoma(75;0.109)			GTCCTGGCGCGATCTTCTCCC	0.537													45	121					0	0	0.01441	0	0		A	203682345	A	A	203682345	3	1	191	1	0	0	0	0	1	0	0	0	1143	1058	37	1	2314	1	ATP2B4	1	203682345	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1701072	203682345	45568276	75	95697											
SRGAP2	23380	broad.mit.edu	37	chr1	206628370	206628370	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatcttgcaaacatcaacaAgtaagctctgcttttcattt	12	16	4	9	0	4	0	2	0	2	0	4	0	4	0	0	0	5	4	0	0	5	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:206628370A>G	uc001hdy.2	+	18	2579	c.2246A>G	c.(2245-2247)AAG>AGG	p.K749R	SRGAP2_uc001hdx.2_Missense_Mutation_p.K749R|SRGAP2_uc010pru.1_Missense_Mutation_p.K672R	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	836					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding				0	Breast(84;0.137)					AACATCAACAAGTAAGCTCTG	0.527													42	100					0	0	0.013114	0	0		G	206628370	G	G	206628370	3	3	191	1	0	0	0	0	1	0	0	0	15171	86	3	3	2317	3	SRGAP2	1	206628370	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2946025	206628370	42622251	76	95698											
PFKFB2	5208	broad.mit.edu	37	chr1	207238492	207238492	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cctaccgacctcttgacccaGacaactatgacaagtaaggt	13	8	7	13	1	1	3	0	2	1	1	1	4	1	3	4	1	2	1	4	1	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:207238492G>A	uc001hfg.2	+	8	728	c.619G>A	c.(619-621)GAC>AAC	p.D207N	PFKFB2_uc010psc.1_Missense_Mutation_p.D109N|PFKFB2_uc001hfh.2_Missense_Mutation_p.D207N|PFKFB2_uc009xcc.2_Missense_Mutation_p.D165N|PFKFB2_uc010psd.1_Missense_Mutation_p.D21N	NM_006212	NP_006203	O60825	F262_HUMAN	6-phosphofructo-2-kinase/fructose-2,	207	6-phosphofructo-2-kinase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			ovary(1)	1	Prostate(682;0.19)					TCTTGACCCAGACAACTATGA	0.453													29	90					0	0	0.010818	0	0		A	207238492	A	A	207238492	3	1	191	1	0	0	0	0	1	0	0	0	11780	942	33	4	645	4	PFKFB2	1	207238492	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	610122	207238492	42012129	77	95699											
C1orf115	79762	broad.mit.edu	37	chr1	220869960	220869960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attcctaacactagaatgtcGggaaggtcatcatcaaagga	15	9	9	8	1	3	1	3	0	0	1	5	3	4	3	1	3	1	0	1	3	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:220869960G>A	uc001hmp.1	+	2	433	c.316G>A	c.(316-318)GGG>AGG	p.G106R		NM_024709	NP_078985	Q9H7X2	CA115_HUMAN	hypothetical protein LOC79762	106						integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0273)		CTAGAATGTCGGGAAGGTCAT	0.488													35	127					0	0	0.003755	0	0		A	220869960	A	A	220869960	3	1	191	1	0	0	0	0	1	0	0	0	1991	1116	39	1	322	1	C1orf115	1	220869960	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	13631468	220869960	28380661	78	95700											
NVL	4931	broad.mit.edu	37	chr1	224455820	224455820	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagtagctgattcaccactcGgacacttgcccctgtctaaa	11	10	7	13	1	2	1	1	1	1	0	3	2	2	2	3	1	2	2	3	1	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:224455820G>A	uc001hok.2	-	18	2141	c.2098C>T	c.(2098-2100)CGA>TGA	p.R700*	NVL_uc001hol.2_Nonsense_Mutation_p.R594*|NVL_uc010pvd.1_Nonsense_Mutation_p.R609*|NVL_uc010pve.1_Nonsense_Mutation_p.R511*|NVL_uc010pvf.1_Intron	NM_002533	NP_002524	O15381	NVL_HUMAN	nuclear VCP-like isoform 1	700						aggresome|cytoplasm|nucleolus	ATP binding|nucleoside-triphosphatase activity			skin(2)	2				GBM - Glioblastoma multiforme(131;0.00501)		TTCACCACTCGGACACTTGCC	0.398													18	48					0	0	0.007413	0	0		A	224455820	A	A	224455820	4	1	191	1	0	0	0	0	0	1	0	0	10799	1124	39	1	496	1	NVL	1	224455820	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3585860	224455820	24794801	79	95701											
CDC42BPA	8476	broad.mit.edu	37	chr1	227348291	227348291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaccaaaatctgctaaccGaatatgtccattcatatcca	16	10	4	11	1	2	1	1	0	1	1	4	2	4	1	4	0	3	1	4	0	7	4	rs35643738		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:227348291G>A	uc001hqr.2	-	6	1589	c.646C>T	c.(646-648)CGG>TGG	p.R216W	CDC42BPA_uc001hqs.2_Missense_Mutation_p.R216W|CDC42BPA_uc009xes.2_Missense_Mutation_p.R216W|CDC42BPA_uc010pvs.1_Missense_Mutation_p.R216W	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	216	Protein kinase.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TCTGCTAACCGAATATGTCCA	0.294													4	148					0	0	0.000602	0	0		A	227348291	A	A	227348291	3	1	191	1	0	0	0	0	1	0	0	0	3075	1057	37	1	4637	1	CDC42BPA	1	227348291	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2892471	227348291	21902330	80	95702											
JMJD4	65094	broad.mit.edu	37	chr1	227922492	227922492	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtattcctggaccccacaGtttgcaactggtacaaccac	10	11	7	13	0	0	0	0	0	0	0	1	1	1	1	4	2	4	4	4	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:227922492G>A	uc001hrb.2	-	2	426	c.426C>T	c.(424-426)AAC>AAT	p.N142N	SNAP47_uc001hqz.2_Intron|SNAP47_uc001hra.2_Intron|SNAP47_uc001hrd.2_5'Flank|SNAP47_uc001hre.2_5'Flank|SNAP47_uc001hrf.2_5'Flank|JMJD4_uc001hrc.2_Silent_p.N142N	NM_023007	NP_075383	Q9H9V9	JMJD4_HUMAN	jumonji domain containing 4 isoform 1	142											0		Prostate(94;0.0885)				GGACCCCACAGTTTGCAACTG	0.537													6	51					0	0	0.001168	0	0		A	227922492	A	A	227922492	2	1	191	1	0	0	0	0	0	0	0	1	7967	1020	36	4		4	JMJD4	1	227922492	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	574201	227922492	21328129	81	95703											
GUK1	2987	broad.mit.edu	37	chr1	228335202	228335202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcaaggccaccgatctgcGgcccatctacatctctgtgc	8	9	8	16	2	4	0	1	0	3	0	5	1	4	0	3	2	3	0	3	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:228335202G>A	uc001hsh.2	+	6	650	c.347G>A	c.(346-348)CGG>CAG	p.R116Q	GUK1_uc001hsi.2_Missense_Mutation_p.R137Q|GUK1_uc001hsj.2_Missense_Mutation_p.R56Q|GUK1_uc010pvv.1_Missense_Mutation_p.R116Q|GJC2_uc001hsk.2_5'Flank	NM_000858	NP_000849	Q16774	KGUA_HUMAN	guanylate kinase 1 isoform b	116	Guanylate kinase-like.				nucleobase, nucleoside and nucleotide interconversion|purine nucleotide metabolic process	cytosol	ATP binding|guanylate kinase activity				0		Prostate(94;0.0405)				ACCGATCTGCGGCCCATCTAC	0.657													17	144					0	0	0.012319	0	0		A	228335202	A	A	228335202	3	1	191	1	0	0	0	0	1	0	0	0	6916	1116	39	1	428	1	GUK1	1	228335202	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	412710	228335202	20915419	82	95704											
OBSCN	84033	broad.mit.edu	37	chr1	228468013	228468013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacgggatgcccctgtacaaCgacagcttccatgagatctc	11	8	9	13	2	1	1	0	1	1	1	3	4	2	2	3	1	5	2	3	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:228468013C>T	uc009xez.1	+	29	7841	c.7797C>T	c.(7795-7797)AAC>AAT	p.N2599N	OBSCN_uc001hsn.2_Silent_p.N2599N|OBSCN_uc001hsp.1_Silent_p.N298N|OBSCN_uc001hsq.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2599	Ig-like 25.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCCTGTACAACGACAGCTTCC	0.627													7	15					0	0	0.00308	0	0		T	228468013	T	T	228468013	2	4	191	1	0	0	0	0	0	0	0	1	10831	535	19	1		1	OBSCN	1	228468013	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	132811	228468013	20782608	83	95705											
OBSCN	84033	broad.mit.edu	37	chr1	228564810	228564810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcgggcgggcgctggcCgccaagatcatcccctacca	7	4	13	17	4	1	1	1	0	0	1	2	1	2	1	6	3	2	1	6	3	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:228564810C>T	uc009xez.1	+	101	23141	c.23097C>T	c.(23095-23097)GCC>GCT	p.A7699A	OBSCN_uc001hsr.1_Silent_p.A2328A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7699	Protein kinase 2.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGCGCTGGCCGCCAAGATCA	0.697													6	17					0	0	0.001984	0	0		T	228564810	T	T	228564810	2	4	191	1	0	0	0	0	0	0	0	1	10831	639	23	1		1	OBSCN	1	228564810	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	96797	228564810	20685811	84	95706											
SIPA1L2	57568	broad.mit.edu	37	chr1	232581405	232581405	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagctctagagaggggctGcagggcaggagtgggcaccc	9	4	19	9	0	1	1	0	0	1	1	1	4	1	3	1	6	2	5	1	6	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:232581405G>A	uc001hvg.2	-	9	3381	c.3223C>T	c.(3223-3225)CAG>TAG	p.Q1075*	SIPA1L2_uc001hvf.2_Nonsense_Mutation_p.Q149*	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1075					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				GAGAGGGGCTGCAGGGCAGGA	0.642													26	72					0	0	0.00333	0	0		A	232581405	A	A	232581405	4	1	191	1	0	0	0	0	0	1	0	0	14355	1328	46	2	1997	2	SIPA1L2	1	232581405	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4016595	232581405	16669216	85	95707											
SLC35F3	148641	broad.mit.edu	37	chr1	234367256	234367256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgagtcgccgctgctggaCgtgctcccgggcgcaactca	6	6	14	15	6	1	0	1	0	0	0	3	2	2	1	2	2	4	4	2	2	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:234367256C>T	uc001hwa.1	+	2	398	c.170C>T	c.(169-171)ACG>ATG	p.T57M	SLC35F3_uc001hvy.1_Missense_Mutation_p.T126M	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	57					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			CGCTGCTGGACGTGCTCCCGG	0.751													17	50					0	0	0.00499	0	0		T	234367256	T	T	234367256	3	4	191	1	0	0	0	0	1	0	0	0	14615	536	19	1	387	1	SLC35F3	1	234367256	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1785851	234367256	14883365	86	95708											
RYR2	6262	broad.mit.edu	37	chr1	237923126	237923126	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatgtgggcttctttcagagCctggccggcctgatgcagtc	5	11	14	11	1	2	2	1	1	1	1	3	3	2	2	3	3	2	2	3	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:237923126C>T	uc001hyl.1	+	83	11496	c.11376C>T	c.(11374-11376)AGC>AGT	p.S3792S	RYR2_uc010pya.1_Silent_p.S207S	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3792					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TCTTTCAGAGCCTGGCCGGCC	0.428													52	103					0	0	0.01441	0	0		T	237923126	T	T	237923126	2	4	191	1	0	0	0	0	0	0	0	1	13794	738	26	2		2	RYR2	1	237923126	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3555870	237923126	11327495	87	95709											
FH	2271	broad.mit.edu	37	chr1	241680522	241680522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccaatcttaaagttcatcGtagatctcacggtctgggcg	9	12	9	11	3	4	1	2	0	3	1	7	1	5	1	1	2	0	2	1	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:241680522G>A	uc001hyx.2	-	2	259	c.227C>T	c.(226-228)ACG>ATG	p.T76M		NM_000143	NP_000134	P07954	FUMH_HUMAN	fumarate hydratase precursor	76					fumarate metabolic process|tricarboxylic acid cycle	cell junction|mitochondrial matrix|tricarboxylic acid cycle enzyme complex	fumarate hydratase activity			lung(3)|ovary(1)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;2.37e-314)|all_epithelial(177;5.17e-286)|Breast(1374;1.06e-10)|Acute lymphoblastic leukemia(190;4.93e-10)|all_neural(198;0.00118)	OV - Ovarian serous cystadenocarcinoma(106;0.0214)	Colorectal(1306;2.33e-53)|COAD - Colon adenocarcinoma(196;1.05e-44)|KIRC - Kidney renal clear cell carcinoma(1967;0.000109)		AAAGTTCATCGTAGATCTCAC	0.423			Mis|N|F			lieomyomatosis|renal			Hereditary_Leiomyomatosis_and_Renal_Cell_Cancer				18	88					0	0	0.010504	0	0		A	241680522	A	A	241680522	3	1	191	1	0	0	0	0	1	0	0	0	5889	1145	40	1	1341	1	FH	1	241680522	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3757396	241680522	7570099	88	95710											
OR2G6	391211	broad.mit.edu	37	chr1	248685355	248685355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgctacatagccattatGcaccccaggttctgtgcgtc	7	11	9	14	2	1	0	0	0	1	0	2	0	1	0	3	1	5	3	3	1	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:248685355G>A	uc001ien.1	+	1	408	c.408G>A	c.(406-408)ATG>ATA	p.M136I		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TAGCCATTATGCACCCCAGGT	0.597													12	41					0	0	0.010729	0	0		A	248685355	A	A	248685355	3	1	191	1	0	0	0	0	1	0	0	0	11019	1319	46	2	410	2	OR2G6	1	248685355	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7004833	248685355	565266	89	95711											
SH3BP5L	80851	broad.mit.edu	37	chr1	249108743	249108743	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccacaaacaccatttctcGagcagcgttgtgcatgctta	11	10	8	12	2	1	0	0	0	1	0	2	1	1	0	2	0	6	4	2	0	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr1:249108743G>A	uc001iew.1	-	5	994	c.442C>T	c.(442-444)CGA>TGA	p.R148*	SH3BP5L_uc010pzp.1_Nonsense_Mutation_p.R41*|SH3BP5L_uc010pzq.1_Nonsense_Mutation_p.R116*|SH3BP5L_uc001iev.1_Nonsense_Mutation_p.R29*	NM_030645	NP_085148	Q7L8J4	3BP5L_HUMAN	SH3-binding domain protein 5-like	148											0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			ACCATTTCTCGAGCAGCGTTG	0.602													10	34					0	0	0.010729	0	0		A	249108743	A	A	249108743	4	1	191	1	0	0	0	0	0	1	0	0	14273	1066	37	1	751	1	SH3BP5L	1	249108743	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	423388	249108743	141878	90	95712											
TTC15	51112	broad.mit.edu	37	chr2	3392162	3392162	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctcgctgtgcccgggacCgaggggcgccccgaacccgt	4	4	14	19	6	0	0	0	0	0	0	1	3	0	1	7	3	2	1	7	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:3392162C>T	uc002qxm.1	+	2	974	c.768C>T	c.(766-768)ACC>ACT	p.T256T	TTC15_uc002qxn.1_Silent_p.T256T|TTC15_uc010ewm.1_Silent_p.T256T|TTC15_uc002qxl.1_Silent_p.T256T	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	256							binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		TGCCCGGGACCGAGGGGCGCC	0.552													4	15					0	0	0.000602	0	0		T	3392162	T	T	3392162	2	4	191	1	0	0	0	0	0	0	0	1	16708	639	23	1		1	TTC15	2	3392162	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08		3392162	239807211	91	95713											
ASAP2	8853	broad.mit.edu	37	chr2	9531279	9531279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgatcttcgtcagatccGccagctgtccatccaccgct	7	9	8	17	4	2	1	1	0	1	1	6	2	5	1	5	0	2	2	5	0	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:9531279G>A	uc002qzh.2	+	23	2812	c.2472G>A	c.(2470-2472)CCG>CCA	p.P824P	ASAP2_uc002qzi.2_Intron	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	824	Pro-rich.				regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						CGTCAGATCCGCCAGCTGTCC	0.517													57	133					0	0	0.01441	0	0		A	9531279	A	A	9531279	2	1	191	1	0	0	0	0	0	0	0	1	1012	1074	38	1		1	ASAP2	2	9531279	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6139117	9531279	233668094	92	95714											
ODC1	4953	broad.mit.edu	37	chr2	10582054	10582054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcactcgactcatcttcGtctagaaaggcagatcaaca	12	10	7	12	2	5	2	3	0	2	2	7	3	5	2	0	1	2	2	0	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:10582054G>A	uc010exg.1	-	10	1349	c.915C>T	c.(913-915)GAC>GAT	p.D305D	ODC1_uc002ran.1_Translation_Start_Site|ODC1_uc002rao.1_Silent_p.D305D|ODC1_uc010yjd.1_Silent_p.D175D	NM_002539	NP_002530	P11926	DCOR_HUMAN	ornithine decarboxylase 1	305					polyamine biosynthetic process|regulation of cellular amino acid metabolic process|response to virus	cytosol	ornithine decarboxylase activity|protein binding			ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.11)|OV - Ovarian serous cystadenocarcinoma(76;0.161)	Pyridoxal Phosphate(DB00114)|Spermine(DB00127)	ACTCATCTTCGTCTAGAAAGG	0.403													38	86					0	0	0.00623	0	0		A	10582054	A	A	10582054	2	1	191	1	0	0	0	0	0	0	0	1	10844	1159	40	1		1	ODC1	2	10582054	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1050775	10582054	232617319	93	95715											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10917839	10917839	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agagagagagagagtgagggCgagggtgaggtaagcaacgc	14	3	20	4	2	0	5	0	2	0	3	0	9	0	5	0	3	2	2	0	3	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:10917839C>T	uc002ras.2	+	11	1063	c.954C>T	c.(952-954)GGC>GGT	p.G318G	ATP6V1C2_uc002rat.2_Intron	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	318					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		AGAGTGAGGGCGAGGGTGAGG	0.597													35	70					0	0	0.004878	0	0		T	10917839	T	T	10917839	2	4	191	1	0	0	0	0	0	0	0	1	1182	755	27	1		1	ATP6V1C2	2	10917839	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	335785	10917839	232281534	94	95716											
KCNF1	3754	broad.mit.edu	37	chr2	11053303	11053303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaacaagctgcacttcGcgctgtccttcatgaacatt	10	10	6	15	2	1	1	1	1	0	0	3	1	2	1	2	0	4	3	2	0	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:11053303G>A	uc002rax.2	+	1	1241	c.751G>A	c.(751-753)GCG>ACG	p.A251T		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	251	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity	p.A251A(1)		ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		GCTGCACTTCGCGCTGTCCTT	0.612													4	59					0	0	0.009096	0	0		A	11053303	A	A	11053303	3	1	191	1	0	0	0	0	1	0	0	0	8042	1087	38	1	753	1	KCNF1	2	11053303	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	135464	11053303	232146070	95	95717											
MYCN	4613	broad.mit.edu	37	chr2	16082320	16082320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccccgactcgaccccccCgggggaggacatctggaaga	8	3	14	16	4	1	1	0	0	1	1	2	6	1	4	5	5	0	0	5	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:16082320C>T	uc002rci.2	+	2	434	c.134C>T	c.(133-135)CCG>CTG	p.P45L	MYCNOS_uc002rch.1_5'Flank|MYCN_uc010yjr.1_Missense_Mutation_p.P37L	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	45					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			TCGACCCCCCCGGGGGAGGAC	0.647			A		neuroblastoma								19	26					0	0	0.010504	0	0		T	16082320	T	T	16082320	3	4	191	1	0	0	0	0	1	0	0	0	10039	652	23	1	136	1	MYCN	2	16082320	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5029017	16082320	227117053	96	95718											
HS1BP3	64342	broad.mit.edu	37	chr2	20845146	20845146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgcttggccgacttgaacGcagccagacgggtcaccacc	8	7	12	14	3	1	2	1	1	0	1	1	3	1	2	4	2	3	2	4	2	1	2	rs149646332	by1000genomes	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:20845146G>A	uc002rdw.1	-	2	193	c.152C>T	c.(151-153)GCG>GTG	p.A51V	HS1BP3_uc002rdx.2_Missense_Mutation_p.A51V|HS1BP3_uc002rdy.2_Missense_Mutation_p.A51V	NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	51	PX.				cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGACTTGAACGCAGCCAGACG	0.647													30	61					0	0	0.010818	0	0		A	20845146	A	A	20845146	3	1	191	1	0	0	0	0	1	0	0	0	7377	1087	38	1	1050	1	HS1BP3	2	20845146	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4762826	20845146	222354227	97	95719											
APOB	338	broad.mit.edu	37	chr2	21241915	21241915	+	Missense_Mutation	SNP	T	C	C	0	1	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	caccaaggctctgtcctctcTctggagctcataggttgcgc	6	11	10	14	1	4	0	1	0	3	0	6	1	5	1	2	3	2	3	2	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:21241915T>C	uc002red.2	-	20	3198	c.3070A>G	c.(3070-3072)AGA>GGA	p.R1024G		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1024					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTGTCCTCTCTCTGGAGCTCA	0.468													35	56					0	0	0.005524	0	0		C	21241915	C	C	21241915	3	2	191	1	0	0	0	0	1	0	0	0	785	1559	54	3	10661	3	APOB	2	21241915	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	396769	21241915	221957458	98	95720											
C2orf18	54978	broad.mit.edu	37	chr2	26999343	26999343	+	Silent	SNP	C	T	T	0	0	0	1	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	cacccactgcgggcagttggCactgagggtgtgtgtgggca	6	8	17	10	1	0	1	0	1	0	0	0	1	0	1	1	4	1	4	1	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:26999343C>T	uc002rhp.1	+	5	715	c.639C>T	c.(637-639)GGC>GGT	p.G213G	C2orf18_uc002rhq.1_Silent_p.G130G|C2orf18_uc010eyo.1_Silent_p.G160G|C2orf18_uc010ylc.1_Intron	NM_017877	NP_060347	Q8N357	CB018_HUMAN	ANT2-binding protein precursor	213						integral to membrane|lysosomal membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGCAGTTGGCACTGAGGGTG	0.582													17	33					0	0	0.006122	0	0		T	26999343	T	T	26999343	2	4	191	1	0	0	0	0	0	0	0	1	2161	697	25	2		2	C2orf18	2	26999343	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5757428	26999343	216200030	99	95721											
SLC5A6	8884	broad.mit.edu	37	chr2	27424654	27424654	+	Missense_Mutation	SNP	A	G	G	1	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	tggagcccatgctggtcacgAtgctcccgatgccaatccag	8	8	11	14	2	1	0	1	0	0	0	3	3	3	1	4	2	4	2	4	2	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:27424654A>G	uc002rjd.2	-	14	1815	c.1424T>C	c.(1423-1425)ATC>ACC	p.I475T	SLC5A6_uc010eyv.1_Missense_Mutation_p.I475T	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	475	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	GCTGGTCACGATGCTCCCGAT	0.607													14	45					0	0	0.00245	0	0		G	27424654	G	G	27424654	3	3	191	1	0	0	0	0	1	0	0	0	14694	333	12	3	499	3	SLC5A6	2	27424654	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	425311	27424654	215774719	100	95722											
CLIP4	79745	broad.mit.edu	37	chr2	29404513	29404513	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaagggagcgtgaagctgcaCgaggggtctcaggtcctgct	8	7	17	9	2	1	1	1	1	1	0	3	4	2	2	1	4	4	3	1	4	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:29404513C>T	uc002rmv.2	+	16	2111	c.1872C>T	c.(1870-1872)CAC>CAT	p.H624H	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	624										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TGAAGCTGCACGAGGGGTCTC	0.567													6	86					0	0	0.001168	0	0		T	29404513	T	T	29404513	2	4	191	1	0	0	0	0	0	0	0	1	3538	535	19	1		1	CLIP4	2	29404513	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1979859	29404513	213794860	101	95723											
GALNT14	79623	broad.mit.edu	37	chr2	31215869	31215869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtcgtcccagtcagcgtccGaaggctgcgtgacacgaatg	8	7	14	12	5	1	1	1	1	0	0	4	3	3	1	2	2	2	1	2	2	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:31215869G>A	uc002rnr.2	-	2	753	c.134C>T	c.(133-135)TCG>TTG	p.S45L	GALNT14_uc002rnq.2_Missense_Mutation_p.S25L|GALNT14_uc002rns.2_Intron|GALNT14_uc010ymr.1_Missense_Mutation_p.S10L|GALNT14_uc010ezo.1_Missense_Mutation_p.S45L|GALNT14_uc010ezp.1_Missense_Mutation_p.S16L	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14	45	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					GTCAGCGTCCGAAGGCTGCGT	0.572													7	33					0	0	0.001984	0	0		A	31215869	A	A	31215869	3	1	191	1	0	0	0	0	1	0	0	0	6227	1059	37	1	1580	1	GALNT14	2	31215869	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1811356	31215869	211983504	102	95724											
SLC30A6	55676	broad.mit.edu	37	chr2	32422847	32422847	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccatttgttttgattgatcTtgctggagcatttgctcttt	5	21	8	7	0	2	2	0	2	2	0	3	3	3	3	1	1	3	4	1	1	0	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:32422847T>A	uc002roe.1	+	10	654	c.617T>A	c.(616-618)CTT>CAT	p.L206H	SLC30A6_uc002rof.1_Missense_Mutation_p.L246H|SLC30A6_uc010ymw.1_Missense_Mutation_p.L177H|SLC30A6_uc010ezr.1_Missense_Mutation_p.L206H|SLC30A6_uc002rog.1_Missense_Mutation_p.L9H|SLC30A6_uc010ezs.1_Missense_Mutation_p.L132H|SLC30A6_uc002roh.1_Missense_Mutation_p.L9H	NM_017964	NP_060434	Q6NXT4	ZNT6_HUMAN	solute carrier family 30 (zinc transporter),	206	Helical; (Potential).					Golgi membrane|integral to membrane	zinc ion transmembrane transporter activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TTGATTGATCTTGCTGGAGCA	0.343													11	108					0	0	0.008291	0	0		A	32422847	A	A	32422847	3	1	191	1	0	0	0	0	1	0	0	0	14584	1609	56	5	655	5	SLC30A6	2	32422847	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1206978	32422847	210776526	103	95725											
EIF2AK2	5610	broad.mit.edu	37	chr2	37349801	37349801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcttttacttcacgctcCgccttcctagttaaaaggaa	11	13	6	11	2	1	0	1	0	0	0	3	1	3	1	3	1	2	3	3	1	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:37349801C>T	uc010ynh.1	-	12	1472	c.915G>A	c.(913-915)GCG>GCA	p.A305A	EIF2AK2_uc010fab.1_Silent_p.A264A|EIF2AK2_uc010yng.1_Silent_p.A305A|EIF2AK2_uc010fac.2_Silent_p.A305A|EIF2AK2_uc010fad.2_Intron	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	305	Protein kinase.				evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				CTTCACGCTCCGCCTTCCTAG	0.413													22	73					0	0	0.014323	0	0		T	37349801	T	T	37349801	2	4	191	1	0	0	0	0	0	0	0	1	5003	639	23	1		1	EIF2AK2	2	37349801	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4926954	37349801	205849572	104	95726											
TMEM178	130733	broad.mit.edu	37	chr2	39944243	39944243	+	Missense_Mutation	SNP	A	G	G	1	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	aatttatagcctgcctgctgAtgtggaacatggttacagct	10	13	10	8	0	0	1	0	1	0	0	0	2	0	2	2	2	6	3	2	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:39944243A>G	uc002rrt.2	+	4	771	c.746A>G	c.(745-747)GAT>GGT	p.D249G	TMEM178_uc010fam.1_Missense_Mutation_p.D203G	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	249	Extracellular (Potential).					integral to membrane					0		all_hematologic(82;0.248)				CTGCCTGCTGATGTGGAACAT	0.463													60	156					0	0	0.01441	0	0		G	39944243	G	G	39944243	3	3	191	1	0	0	0	0	1	0	0	0	16120	333	12	3	760	3	TMEM178	2	39944243	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2594442	39944243	203255130	105	95727											
OXER1	165140	broad.mit.edu	37	chr2	42990086	42990086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccttttccagagagacctCgccctgcactttcagcttcc	6	13	6	16	1	1	2	1	0	0	2	5	3	4	2	5	0	2	2	5	0	0	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:42990086C>T	uc002rss.2	-	1	1316	c.1234G>A	c.(1234-1236)GAG>AAG	p.E412K		NM_148962	NP_683765	Q8TDS5	OXER1_HUMAN	G-protein coupled receptor TG1019	412	Cytoplasmic (Potential).				regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	5(S)-hydroxyperoxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-hydroxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-oxo-6E,8Z,11Z,14Z-icosatetraenoic acid binding|G-protein coupled receptor activity			breast(1)	1						AGAGAGACCTCGCCCTGCACT	0.667													27	66					0	0	0.005443	0	0		T	42990086	T	T	42990086	3	4	191	1	0	0	0	0	1	0	0	0	11350	893	31	1	41	1	OXER1	2	42990086	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3045843	42990086	200209287	106	95728											
PLEKHH2	130271	broad.mit.edu	37	chr2	43956822	43956822	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagctggaagcaacaatgTaaacgttggatctgaatttg	13	11	11	6	1	1	1	0	1	1	0	1	3	1	3	0	2	5	5	0	2	6	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:43956822T>C	uc010yny.1	+	18	2851	c.2768T>C	c.(2767-2769)GTA>GCA	p.V923A	PLEKHH2_uc002rtf.3_Missense_Mutation_p.V922A	NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	923						cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				AGCAACAATGTAAACGTTGGA	0.323													16	26					0	0	0.006122	0	0		C	43956822	C	C	43956822	3	2	191	1	0	0	0	0	1	0	0	0	12096	1638	57	3	2834	3	PLEKHH2	2	43956822	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	966736	43956822	199242551	107	95729											
NRXN1	9378	broad.mit.edu	37	chr2	50280726	50280726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaagattgtgagctgacGccctgtaaaaataatattac	15	12	8	6	1	0	4	0	3	0	1	0	4	0	4	1	0	2	2	1	0	7	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:50280726G>A	uc010fbp.2	-	4	1423	c.616C>T	c.(616-618)CGT>TGT	p.R206C	NRXN1_uc002rxb.3_Missense_Mutation_p.R943C|NRXN1_uc010fbq.2_Missense_Mutation_p.R1311C|NRXN1_uc002rxe.3_Missense_Mutation_p.R1241C	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	206	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GTGAGCTGACGCCCTGTAAAA	0.413													20	42					0	0	0.014323	0	0		A	50280726	A	A	50280726	3	1	191	1	0	0	0	0	1	0	0	0	10684	1087	38	1	724	1	NRXN1	2	50280726	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6323904	50280726	192918647	108	95730											
SPTBN1	6711	broad.mit.edu	37	chr2	54839322	54839322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccaccaagggacgaatgCgcatccactgcttagagaat	14	6	9	12	2	0	1	0	0	0	1	1	4	1	2	3	1	3	2	3	1	5	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:54839322C>T	uc002rxu.2	+	4	574	c.325C>T	c.(325-327)CGC>TGC	p.R109C	SPTBN1_uc002rxv.1_Missense_Mutation_p.R109C|SPTBN1_uc002rxx.2_Missense_Mutation_p.R96C	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	109	CH 1.|Actin-binding.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GGGACGAATGCGCATCCACTG	0.512													9	92					0	0	0.006214	0	0		T	54839322	T	T	54839322	3	4	191	1	0	0	0	0	1	0	0	0	15144	768	27	1	448	1	SPTBN1	2	54839322	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4558596	54839322	188360051	109	95731											
CCDC88A	55704	broad.mit.edu	37	chr2	55562112	55562112	+	Frame_Shift_Del	DEL	T	-	-																															tctttataatgttccaattcTtttttaatttgtcttttttc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:55562112delT	uc002ryv.2	-	15	2687	c.1845delA	c.(1843-1845)AAAfs	p.K615fs	CCDC88A_uc010yoz.1_Frame_Shift_Del_p.K615fs|CCDC88A_uc010ypa.1_Frame_Shift_Del_p.K615fs|CCDC88A_uc010ypb.1_Frame_Shift_Del_p.K517fs|CCDC88A_uc002ryu.2_5'UTR|CCDC88A_uc002ryw.2_5'UTR	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	615	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GTTCCAATTCTTTTTTAATTT	0.254													11	25	---	---	---	---						.	-	55562112	-	-	55562112	7	5	191	1	0	1	0	1	0	0	0	0	2866	1606	56	0	3842	0	CCDC88A	2	55562112	Frame_Shift_Del	DEL	T	TCGA-F1-6874-01A-11D-1882-08	722790	55562112	187637261	110	95732											
BCL11A	53335	broad.mit.edu	37	chr2	60688221	60688221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccccgaggccgactcgcccGgggagcagccgcggccatta	6	3	14	18	6	0	0	0	0	0	0	1	3	0	1	6	4	2	1	6	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:60688221G>A	uc002sae.1	-	4	2054	c.1826C>T	c.(1825-1827)CCG>CTG	p.P609L	BCL11A_uc002sab.2_Missense_Mutation_p.P609L|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.P278L|BCL11A_uc010ypj.1_Missense_Mutation_p.P575L|BCL11A_uc002sad.1_Missense_Mutation_p.P457L|BCL11A_uc002saf.1_Missense_Mutation_p.P575L	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	609					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CGACTCGCCCGGGGAGCAGCC	0.667			T	IGH@	B-CLL								23	41					0	0	0.004656	0	0		A	60688221	A	A	60688221	3	1	191	1	0	0	0	0	1	0	0	0	1364	1116	39	1	791	1	BCL11A	2	60688221	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5126109	60688221	182511152	111	95733											
TMEM17	200728	broad.mit.edu	37	chr2	62729851	62729851	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgaagcatcataatgctgCtcacccaccacagtgggaaa	13	8	9	11	0	2	1	2	1	0	0	2	2	2	2	2	1	3	3	2	1	3	1	rs143642405		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:62729851C>A	uc002sbt.2	-	2	519	c.179G>T	c.(178-180)AGC>ATC	p.S60I	TMEM17_uc002sbu.2_Missense_Mutation_p.S60I|TMEM17_uc002sbv.1_Missense_Mutation_p.S35I	NM_198276	NP_938017	Q86X19	TMM17_HUMAN	transmembrane protein 17	60	Helical; (Potential).					integral to membrane					0	Lung NSC(7;0.0274)|all_lung(7;0.0568)		LUSC - Lung squamous cell carcinoma(7;1.31e-05)|Epithelial(17;0.169)			CATAATGCTGCTCACCCACCA	0.363													25	89					2.48779e-11	2.81095e-11	0.005443	1	0		A	62729851	A	A	62729851	3	1	191	1	0	0	0	0	1	0	0	0	16110	797	28	5	429	5	TMEM17	2	62729851	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2041630	62729851	180469522	112	95734											
FBXO41	150726	broad.mit.edu	37	chr2	73490893	73490893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtttggacagtgggagatgCgcaggatcagcaggttcccc	8	9	15	9	1	1	1	1	0	0	1	2	4	2	3	2	4	2	4	2	4	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:73490893C>T	uc002sjb.1	-	8	2171	c.2171G>A	c.(2170-2172)CGC>CAC	p.R724H		NM_001080410	NP_001073879	Q8TF61	FBX41_HUMAN	F-box protein 41	663						intracellular	protein binding|zinc ion binding			breast(2)|pancreas(1)	3						GTGGGAGATGCGCAGGATCAG	0.642													10	76					0	0	0.006214	0	0		T	73490893	T	T	73490893	3	4	191	1	0	0	0	0	1	0	0	0	5764	768	27	1	663	1	FBXO41	2	73490893	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	10761042	73490893	169708480	113	95735											
ALMS1	7840	broad.mit.edu	37	chr2	73799651	73799651	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagaataaagagcctcagCatcaatgtgaatttgggaaa	17	8	9	7	0	2	3	2	1	0	2	2	4	2	4	2	1	2	1	2	1	6	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:73799651C>T	uc002sje.1	+	18	10761	c.10650C>T	c.(10648-10650)AGC>AGT	p.S3550S	ALMS1_uc002sjf.1_Silent_p.S3506S|ALMS1_uc002sjg.2_Silent_p.S2936S|ALMS1_uc002sjh.1_Silent_p.S2936S	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3548					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						AGAGCCTCAGCATCAATGTGA	0.363													9	18					0	0	0.006214	0	0		T	73799651	T	T	73799651	2	4	191	1	0	0	0	0	0	0	0	1	535	709	25	2		2	ALMS1	2	73799651	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	308758	73799651	169399722	114	95736											
PROM2	150696	broad.mit.edu	37	chr2	95952596	95952596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctggagtcctctgccccGaatctccaggtggctgctgt	4	10	12	15	1	2	0	0	0	2	0	4	2	3	1	5	3	2	2	5	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:95952596G>A	uc002suh.1	+	18	2218	c.2085G>A	c.(2083-2085)CCG>CCA	p.P695P	PROM2_uc002sui.2_Silent_p.P695P|PROM2_uc002suj.2_Silent_p.P349P|PROM2_uc002suk.2_Silent_p.P695P|PROM2_uc002sul.2_Silent_p.P221P|PROM2_uc002sum.2_RNA	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	695	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						CCTCTGCCCCGAATCTCCAGG	0.527													4	44					0	0	0.000602	0	0		A	95952596	A	A	95952596	2	1	191	1	0	0	0	0	0	0	0	1	12578	1045	37	1		1	PROM2	2	95952596	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	22152945	95952596	147246777	115	95737											
AFF3	3899	broad.mit.edu	37	chr2	100623462	100623462	+	Missense_Mutation	SNP	T	C	C	0	1	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	accatctccaagcaaggtccTgagagagccctgttgtgctg	9	9	11	12	0	1	2	0	1	1	1	3	3	2	2	4	1	3	3	4	1	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:100623462T>C	uc002tag.2	-	6	741	c.505A>G	c.(505-507)AGG>GGG	p.R169G	AFF3_uc002taf.2_Missense_Mutation_p.R194G|AFF3_uc010fiq.1_Missense_Mutation_p.R169G|AFF3_uc010yvr.1_Missense_Mutation_p.R323G|AFF3_uc002tah.1_Missense_Mutation_p.R194G|AFF3_uc010fir.1_Missense_Mutation_p.R246G|AFF3_uc002tai.2_Missense_Mutation_p.R91G	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	169					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						AGCAAGGTCCTGAGAGAGCCC	0.517													21	46					0	0	0.014323	0	0		C	100623462	C	C	100623462	3	2	191	1	0	0	0	0	1	0	0	0	358	1579	55	3	3251	3	AFF3	2	100623462	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	4670866	100623462	142575911	116	95738											
TBC1D8	11138	broad.mit.edu	37	chr2	101706808	101706808	+	Missense_Mutation	SNP	A	C	C	1	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	tggaatccaacactgcatccAgagcgccgaccaggcgacct	11	5	10	15	3	0	1	0	0	0	1	2	4	2	2	5	2	3	1	5	2	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:101706808A>C	uc010fiv.2	-	2	277	c.146T>G	c.(145-147)CTG>CGG	p.L49R	TBC1D8_uc010yvw.1_Missense_Mutation_p.L49R	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	49					blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						CACTGCATCCAGAGCGCCGAC	0.537													11	45					0	0	0.013537	0	0		C	101706808	C	C	101706808	3	2	191	1	0	0	0	0	1	0	0	0	15650	188	7	5	3352	5	TBC1D8	2	101706808	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1083346	101706808	141492565	117	95739											
SULT1C3	442038	broad.mit.edu	37	chr2	108872147	108872147	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttatgagaaattcatgtcCggaaaaggtgagttcaaact	14	13	9	5	1	2	2	2	2	0	1	3	4	3	3	1	2	1	1	1	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:108872147C>T	uc010ywo.1	+	4	519	c.519C>T	c.(517-519)TCC>TCT	p.S173S		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	173						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						AATTCATGTCCGGAAAAGGTG	0.423													20	38					0	0	0.008871	0	0		T	108872147	T	T	108872147	2	4	191	1	0	0	0	0	0	0	0	1	15403	639	23	1		1	SULT1C3	2	108872147	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7165339	108872147	134327226	118	95740											
EDAR	10913	broad.mit.edu	37	chr2	109513512	109513512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagcctgccgtgctgatgcGgtcaaagagttgcatgccgt	7	10	14	10	3	1	2	1	1	0	1	1	2	1	2	3	1	6	4	3	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:109513512G>A	uc002teq.3	-	12	1629	c.1198C>T	c.(1198-1200)CGC>TGC	p.R400C	EDAR_uc010fjn.2_Missense_Mutation_p.R432C|EDAR_uc010yws.1_Missense_Mutation_p.R432C	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	400	Death.|Cytoplasmic (Potential).				apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						GTGCTGATGCGGTCAAAGAGT	0.562													12	23					0	0	0.013537	0	0		A	109513512	A	A	109513512	3	1	191	1	0	0	0	0	1	0	0	0	4911	1116	39	1	152	1	EDAR	2	109513512	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	641365	109513512	133685861	119	95741											
PROC	5624	broad.mit.edu	37	chr2	128186242	128186242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcaagattcccgtggtccCgcacaatgagtgcagcgagg	10	7	12	12	3	1	2	1	1	0	1	3	3	3	2	2	2	2	2	2	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:128186242C>T	uc002tok.2	+	9	1179	c.1106C>T	c.(1105-1107)CCG>CTG	p.P369L	PROC_uc002tol.2_Missense_Mutation_p.P390L|PROC_uc010yzi.1_Missense_Mutation_p.P425L|PROC_uc010yzj.1_Missense_Mutation_p.P264L|PROC_uc010yzk.1_Missense_Mutation_p.P424L|PROC_uc002tom.2_Missense_Mutation_p.P403L	NM_000312	NP_000303	P04070	PROC_HUMAN	protein C	369	Peptidase S1.		P -> L (in ADPROCD; Osaka-6).		blood coagulation|leukocyte migration|negative regulation of apoptosis|negative regulation of blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|protein binding|serine-type endopeptidase activity				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0673)	Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)|Sodium Tetradecyl Sulfate(DB00464)	CCCGTGGTCCCGCACAATGAG	0.607													12	173					0	0	0.010729	0	0		T	128186242	T	T	128186242	3	4	191	1	0	0	0	0	1	0	0	0	12567	652	23	1	1136	1	PROC	2	128186242	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	18672730	128186242	115013131	120	95742											
UGGT1	56886	broad.mit.edu	37	chr2	128861559	128861559	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttggaattttgtagaagccaGtcaaaatattggatcatcag	14	13	9	5	0	3	1	3	0	0	1	3	3	3	3	1	2	1	1	1	2	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:128861559G>A	uc002tps.2	+	3	426	c.248G>A	c.(247-249)AGT>AAT	p.S83N	UGGT1_uc010fme.1_Intron|UGGT1_uc002tpr.2_Missense_Mutation_p.S59N	NM_020120	NP_064505	Q9NYU2	UGGG1_HUMAN	UDP-glucose ceramide glucosyltransferase-like 1	83					'de novo' posttranslational protein folding|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity|unfolded protein binding			ovary(1)	1						GTAGAAGCCAGTCAAAATATT	0.303													9	135					0	0	0.010729	0	0		A	128861559	A	A	128861559	3	1	191	1	0	0	0	0	1	0	0	0	16967	1029	36	4	258	4	UGGT1	2	128861559	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	675317	128861559	114337814	121	95743											
FAM123C	205147	broad.mit.edu	37	chr2	131521308	131521308	+	Frame_Shift_Del	DEL	G	-	-																															agggcctggcctcagatgcaGggggggcgacagtttgctca																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:131521308delG	uc002trw.2	+	2	1853	c.1663delG	c.(1663-1665)GGGfs	p.G555fs	FAM123C_uc010fmv.2_Frame_Shift_Del_p.G555fs|FAM123C_uc010fms.1_Frame_Shift_Del_p.G555fs|FAM123C_uc010fmt.1_Frame_Shift_Del_p.G555fs|FAM123C_uc010fmu.1_Frame_Shift_Del_p.G555fs	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	555										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		CTCAGATGCAGGGGGGGCGAC	0.711													11	16	---	---	---	---						.	-	131521308	-	-	131521308	7	5	191	1	0	1	0	1	0	0	0	0	5435	1000	35	0	1665	0	FAM123C	2	131521308	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	2659749	131521308	111678065	122	95744											
NCKAP5	344148	broad.mit.edu	37	chr2	133971293	133971293	+	Frame_Shift_Del	DEL	C	-	-																															gcagtcaggacttaccatggCcccctcacttgttctttggg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:133971293delC	uc002ttp.2	-	5	576	c.202delG	c.(202-204)GCCfs	p.A68fs	NCKAP5_uc002ttq.2_Frame_Shift_Del_p.A68fs|NCKAP5_uc002ttt.1_Frame_Shift_Del_p.A68fs|NCKAP5_uc002tts.1_Frame_Shift_Del_p.A43fs	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	68							protein binding				0						CTTACCATGGCCCCCTCACTT	0.473													21	37	---	---	---	---						.	-	133971293	-	-	133971293	7	5	191	1	0	1	0	1	0	0	0	0	10242	739	26	0	5591	0	NCKAP5	2	133971293	Frame_Shift_Del	DEL	C	TCGA-F1-6874-01A-11D-1882-08	2449985	133971293	109228080	123	95745											
NEB	4703	broad.mit.edu	37	chr2	152521935	152521935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcagcttctcggggtgctggCgatacttcttctcactaaga	7	13	10	11	2	4	1	2	0	3	1	6	2	4	1	0	3	3	2	0	3	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:152521935C>T	uc010fnx.2	-	42	5341	c.5150G>A	c.(5149-5151)CGC>CAC	p.R1717H		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1717	Nebulin 44.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GGGGTGCTGGCGATACTTCTT	0.488													14	42					0	0	0.001855	0	0		T	152521935	T	T	152521935	3	4	191	1	0	0	0	0	1	0	0	0	10321	768	27	1	21100	1	NEB	2	152521935	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	18550642	152521935	90677438	124	95746											
ACVR1	90	broad.mit.edu	37	chr2	158655948	158655948	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtcacttaccttccatacTaggggaggggagagcaatca	12	8	12	9	0	2	1	2	0	0	1	3	4	3	2	2	4	3	1	2	4	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:158655948T>C	uc002tzm.3	-	4	397	c.58A>G	c.(58-60)AGT>GGT	p.S20G	ACVR1_uc002tzn.3_Missense_Mutation_p.S20G|ACVR1_uc010fog.2_Missense_Mutation_p.S20G	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	20					BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	CCTTCCATACTAGGGGAGGGG	0.328													13	45					0	0	0.00499	0	0		C	158655948	C	C	158655948	3	2	191	1	0	0	0	0	1	0	0	0	220	1522	53	3	1507	3	ACVR1	2	158655948	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	6134013	158655948	84543425	125	95747											
PLA2R1	22925	broad.mit.edu	37	chr2	160813055	160813055	+	Frame_Shift_Del	DEL	C	-	-																															ctttcaatggcgaccagggtCcccccttcttcagcacagaa																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:160813055delC	uc002ube.1	-	21	3195	c.2988delG	c.(2986-2988)GGGfs	p.G996fs	PLA2R1_uc010zcp.1_Frame_Shift_Del_p.G996fs|PLA2R1_uc002ubf.2_Frame_Shift_Del_p.G996fs	NM_007366	NP_031392	Q13018	PLA2R_HUMAN	phospholipase A2 receptor 1 isoform 1 precursor	996	Extracellular (Potential).|C-type lectin 6.				endocytosis	extracellular space|integral to plasma membrane	receptor activity|sugar binding			skin(2)|ovary(1)	3						CGACCAGGGTCCCCCCTTCTT	0.433													37	82	---	---	---	---						.	-	160813055	-	-	160813055	7	5	191	1	0	1	0	1	0	0	0	0	12029	842	30	0	1451	0	PLA2R1	2	160813055	Frame_Shift_Del	DEL	C	TCGA-F1-6874-01A-11D-1882-08	2157107	160813055	82386318	126	95748											
COBLL1	22837	broad.mit.edu	37	chr2	165551084	165551084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcagcaggagcctgacCgatgacatcatcatcagttt	10	10	10	11	1	4	2	4	2	0	0	4	4	4	3	2	2	2	3	2	2	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:165551084C>T	uc010zcw.1	-	15	3257	c.3133G>A	c.(3133-3135)GGT>AGT	p.G1045S	COBLL1_uc002ucp.2_Missense_Mutation_p.G978S|COBLL1_uc002ucq.2_Missense_Mutation_p.G940S|COBLL1_uc010zcx.1_Missense_Mutation_p.G986S|COBLL1_uc002ucn.2_Missense_Mutation_p.G406S|COBLL1_uc002uco.2_Missense_Mutation_p.G709S	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	1016										ovary(2)|pancreas(1)	3						GGAGCCTGACCGATGACATCA	0.473													27	82					0	0	0.007291	0	0		T	165551084	T	T	165551084	3	4	191	1	0	0	0	0	1	0	0	0	3657	652	23	1	580	1	COBLL1	2	165551084	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4738029	165551084	77648289	127	95749											
XIRP2	129446	broad.mit.edu	37	chr2	167760304	167760304	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggattccctgagcagtcgGcgcaggattgaacgcttttc	8	10	13	10	3	0	2	0	2	0	0	3	5	1	4	1	3	2	3	1	3	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:167760304G>A	uc002udx.2	+	1	330	c.312G>A	c.(310-312)CGG>CGA	p.R104R	XIRP2_uc010fpn.2_Silent_p.R104R|XIRP2_uc010fpo.2_Silent_p.R104R|XIRP2_uc010fpp.2_Silent_p.R104R	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	Error:Variant_position_missing_in_A4UGR9_after_alignment					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TGAGCAGTCGGCGCAGGATTG	0.512													5	80					0	0	0.000602	0	0		A	167760304	A	A	167760304	2	1	191	1	0	0	0	0	0	0	0	1	17456	1190	42	2		2	XIRP2	2	167760304	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2209220	167760304	75439069	128	95750											
SLC25A12	8604	broad.mit.edu	37	chr2	172650198	172650198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgctgactctgggtcccGtggtgatctctccagctact	4	11	13	13	2	2	2	0	2	2	0	5	2	4	2	2	3	2	2	2	3	1	1	rs138477378	by1000genomes	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:172650198G>A	uc002uhh.2	-	14	1474	c.1385C>T	c.(1384-1386)ACG>ATG	p.T462M	SLC25A12_uc010fqh.2_Missense_Mutation_p.T355M	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	462	Solcar 2.				gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	TCTGGGTCCCGTGGTGATCTC	0.473													25	68					0	0	0.00333	0	0		A	172650198	A	A	172650198	3	1	191	1	0	0	0	0	1	0	0	0	14499	1145	40	1	671	1	SLC25A12	2	172650198	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4889894	172650198	70549175	129	95751											
EVX2	344191	broad.mit.edu	37	chr2	176948324	176948324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggggagttctcccagagCgctgtgcaggggggcagacg	6	5	20	10	3	1	2	0	0	1	2	2	3	1	3	1	6	2	4	1	6	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:176948324C>T	uc010zeu.1	-	1	367	c.181G>A	c.(181-183)GCT>ACT	p.A61T		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	61						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		TCTCCCAGAGCGCTGTGCAGG	0.607													19	37					0	0	0.010504	0	0		T	176948324	T	T	176948324	3	4	191	1	0	0	0	0	1	0	0	0	5303	768	27	1	1259	1	EVX2	2	176948324	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4298126	176948324	66251049	130	95752											
PDE11A	50940	broad.mit.edu	37	chr2	178879182	178879182	+	Silent	SNP	T	G	G	0	1	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	tcgatttcatcattgaatcgTcgatcctaaaaataagacaa	16	12	5	8	3	2	2	2	1	0	1	6	4	3	2	1	0	0	0	1	0	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:178879182T>G	uc002ulq.2	-	2	1236	c.918A>C	c.(916-918)CGA>CGC	p.R306R	PDE11A_uc002ulr.2_Silent_p.R56R|PDE11A_uc002ult.1_Silent_p.R56R	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	306	GAF 1.				platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			CATTGAATCGTCGATCCTAAA	0.398									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				11	16					0	0	0.008291	0	0		G	178879182	G	G	178879182	2	3	191	1	0	0	0	0	0	0	0	1	11650	1654	58	5		5	PDE11A	2	178879182	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1930858	178879182	64320191	131	95753											
TTN	7273	broad.mit.edu	37	chr2	179395856	179395856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcacttgtcctttacgcagCcaggtcacagttggtaccgg	8	10	11	12	2	1	0	1	0	0	0	2	0	2	0	3	3	4	4	3	3	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:179395856C>A	uc010zfg.1	-	307	98006	c.97782G>T	c.(97780-97782)TGG>TGT	p.W32594C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.W26289C|TTN_uc010zfi.1_Missense_Mutation_p.W26222C|TTN_uc010zfj.1_Missense_Mutation_p.W26097C|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33521							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTTTACGCAGCCAGGTCACAG	0.512													29	276					1.30897e-18	1.51333e-18	0.009535	1	0		A	179395856	A	A	179395856	3	1	191	1	0	0	0	0	1	0	0	0	16761	740	26	5	2513	5	TTN	2	179395856	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	516674	179395856	63803517	132	95754											
TTN	7273	broad.mit.edu	37	chr2	179446658	179446658	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcccgagcataagcggcCttggatgcgtcactgggttt	6	10	15	10	3	1	0	1	0	0	0	2	2	2	1	2	4	3	2	2	4	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:179446658C>A	uc010zfg.1	-	264	58958	c.58734G>T	c.(58732-58734)AAG>AAT	p.K19578N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K13273N|TTN_uc010zfi.1_Missense_Mutation_p.K13206N|TTN_uc010zfj.1_Missense_Mutation_p.K13081N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20505							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATAAGCGGCCTTGGATGCGT	0.443													29	61					0.000227799	0.000239834	0.008361	1	0		A	179446658	A	A	179446658	3	1	191	1	0	0	0	0	1	0	0	0	16761	680	24	5	41733	5	TTN	2	179446658	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	50802	179446658	63752715	133	95755											
TTN	7273	broad.mit.edu	37	chr2	179485026	179485026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagctggcaggagaagacagCgtcatcgaactcagtgactg	12	6	14	9	2	2	3	2	1	0	2	3	6	2	3	0	2	3	2	0	2	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:179485026C>T	uc010zfg.1	-	197	38742	c.38518G>A	c.(38518-38520)GCT>ACT	p.A12840T	TTN_uc010zfh.1_Missense_Mutation_p.A6535T|TTN_uc010zfi.1_Missense_Mutation_p.A6468T|TTN_uc010zfj.1_Missense_Mutation_p.A6343T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13767							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GAGAAGACAGCGTCATCGAAC	0.428													33	119					0	0	0.013726	0	0		T	179485026	T	T	179485026	3	4	191	1	0	0	0	0	1	0	0	0	16761	768	27	1	61931	1	TTN	2	179485026	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	38368	179485026	63714347	134	95756											
TTN	7273	broad.mit.edu	37	chr2	179596909	179596909	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcttagaactgcagtagacTccacaaaagacattctgtgt	13	11	8	9	0	2	3	0	0	2	3	3	3	3	3	1	0	2	2	1	0	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:179596909T>C	uc010zfg.1	-	54	13279	c.13055A>G	c.(13054-13056)GAG>GGG	p.E4352G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E1013G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5279							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGCAGTAGACTCCACAAAAGA	0.438													88	168					0	0	0.01441	0	0		C	179596909	C	C	179596909	3	2	191	1	0	0	0	0	1	0	0	0	16761	1551	54	3	87966	3	TTN	2	179596909	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	111883	179596909	63602464	135	95757											
TTN	7273	broad.mit.edu	37	chr2	179611344	179611344	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaaagctctttgcttccccTatgatgtttacagcatgaca	10	13	7	11	0	1	2	0	2	1	0	2	2	2	2	2	0	4	5	2	0	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:179611344T>C	uc002unb.2	-	46	16007	c.15783A>G	c.(15781-15783)ATA>ATG	p.I5261M	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGCTTCCCCTATGATGTTTA	0.428													22	49					0	0	0.014323	0	0		C	179611344	C	C	179611344	3	2	191	1	0	0	0	0	1	0	0	0	16761	1512	53	3	94514	3	TTN	2	179611344	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	14435	179611344	63588029	136	95758											
SSFA2	6744	broad.mit.edu	37	chr2	182763754	182763754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcgtagcaataatatcttgGccaaagagagaagattacag	16	10	9	6	1	1	3	0	0	1	3	2	4	1	3	1	1	2	2	1	1	7	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:182763754G>A	uc002uoi.2	+	6	740	c.418G>A	c.(418-420)GCC>ACC	p.A140T	SSFA2_uc002uoh.2_Missense_Mutation_p.A140T|SSFA2_uc002uoj.2_Missense_Mutation_p.A140T|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_5'UTR|SSFA2_uc002uol.2_5'UTR	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	140						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			TAATATCTTGGCCAAAGAGAG	0.308													11	35					0	0	0.008291	0	0		A	182763754	A	A	182763754	3	1	191	1	0	0	0	0	1	0	0	0	15208	1203	42	2	440	2	SSFA2	2	182763754	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3152410	182763754	60435619	137	95759											
GTF3C3	9330	broad.mit.edu	37	chr2	197645348	197645348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttcactgtgatatctattgGcacgccatcaggtatagtgc	9	13	9	10	1	3	1	2	1	1	0	3	1	3	1	1	2	1	2	1	2	4	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:197645348G>A	uc002uts.2	-	9	1243	c.1153C>T	c.(1153-1155)CCA>TCA	p.P385S	GTF3C3_uc010zgu.1_Missense_Mutation_p.P385S|GTF3C3_uc002utu.2_Missense_Mutation_p.P385S|GTF3C3_uc002utt.3_Missense_Mutation_p.P60S	NM_012086	NP_036218	Q9Y5Q9	TF3C3_HUMAN	general transcription factor IIIC, polypeptide	385						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(3)|breast(3)|pancreas(1)	7						ATATCTATTGGCACGCCATCA	0.403													14	46					0	0	0.00499	0	0		A	197645348	A	A	197645348	3	1	191	1	0	0	0	0	1	0	0	0	6890	1203	42	2	1547	2	GTF3C3	2	197645348	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	14881594	197645348	45554025	138	95760											
MARS2	92935	broad.mit.edu	37	chr2	198571290	198571290	+	Silent	SNP	T	C	C	0	1	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	aactgggactgtgactactaTgatgaaaaggtggttaagtt	13	12	12	4	0	0	3	0	3	0	0	0	4	0	4	0	3	2	2	0	3	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:198571290T>C	uc002uuq.2	+	1	1204	c.1161T>C	c.(1159-1161)TAT>TAC	p.Y387Y	uc002uup.2_Intron	NM_138395	NP_612404	Q96GW9	SYMM_HUMAN	methionine-tRNA synthetase 2 precursor	387					methionyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|methionine-tRNA ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3					L-Methionine(DB00134)	GTGACTACTATGATGAAAAGG	0.517													108	227					0	0	0.01441	0	0		C	198571290	C	C	198571290	2	2	191	1	0	0	0	0	0	0	0	1	9335	1471	51	3		3	MARS2	2	198571290	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	925942	198571290	44628083	139	95761											
BMPR2	659	broad.mit.edu	37	chr2	203332384	203332384	+	Frame_Shift_Del	DEL	T	-	-																															aatgtcaactttactgagaaTtttccacctcctgacacaac																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:203332384delT	uc002uzf.3	+	3	1538	c.390delT	c.(388-390)AATfs	p.N130fs	BMPR2_uc010ftr.2_Frame_Shift_Del_p.N130fs|BMPR2_uc002uze.2_Frame_Shift_Del_p.N130fs	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	130	Extracellular (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						TTACTGAGAATTTTCCACCTC	0.343													29	63	---	---	---	---						.	-	203332384	-	-	203332384	7	5	191	1	0	1	0	1	0	0	0	0	1472	1490	52	0	400	0	BMPR2	2	203332384	Frame_Shift_Del	DEL	T	TCGA-F1-6874-01A-11D-1882-08	4761094	203332384	39866989	140	95762											
BMPR2	659	broad.mit.edu	37	chr2	203384918	203384918	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcttcacacagaattaccaCgaggaggtaagatagtcaat	16	9	8	8	1	3	2	2	0	1	2	3	4	3	3	1	2	1	1	1	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:203384918C>T	uc002uzf.3	+	7	2109	c.961C>T	c.(961-963)CGA>TGA	p.R321*	BMPR2_uc010ftr.2_Nonsense_Mutation_p.R321*	NM_001204	NP_001195	Q13873	BMPR2_HUMAN	bone morphogenetic protein receptor type II	321	Protein kinase.|Cytoplasmic (Potential).				anterior/posterior pattern formation|BMP signaling pathway|cellular response to starvation|lung alveolus development|mesoderm formation|negative regulation of cell growth|negative regulation of systemic arterial blood pressure|negative regulation of vasoconstriction|positive regulation of BMP signaling pathway|positive regulation of bone mineralization|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of epithelial cell migration|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|regulation of lung blood pressure|transcription from RNA polymerase II promoter|vascular endothelial growth factor receptor signaling pathway	integral to plasma membrane	ATP binding|metal ion binding|transforming growth factor beta receptor activity			ovary(4)|breast(2)|large_intestine(1)|stomach(1)|pancreas(1)	9						AGAATTACCACGAGGAGGTAA	0.358													5	52					0	0	0.001168	0	0		T	203384918	T	T	203384918	4	4	191	1	0	0	0	0	0	1	0	0	1472	528	19	1	987	1	BMPR2	2	203384918	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	52534	203384918	39814455	141	95763											
FAM117B	150864	broad.mit.edu	37	chr2	203622055	203622055	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggggaagcaacaacagcagCcgttcccagtccgtgtcccc	10	5	11	15	2	0	0	0	0	0	0	3	1	3	1	5	2	5	3	5	2	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:203622055C>T	uc010zhx.1	+	6	1234	c.1224C>T	c.(1222-1224)AGC>AGT	p.S408S		NM_173511	NP_775782	Q6P1L5	F117B_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	408										ovary(1)	1						ACAACAGCAGCCGTTCCCAGT	0.582													23	66					0	0	0.012319	0	0		T	203622055	T	T	203622055	2	4	191	1	0	0	0	0	0	0	0	1	5421	738	26	2		2	FAM117B	2	203622055	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	237137	203622055	39577318	142	95764											
ZDBF2	57683	broad.mit.edu	37	chr2	207171079	207171079	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaaacctgaaaggtagacaAgtccacctaaaacataagaa	21	5	7	8	0	0	4	0	1	0	3	1	4	1	4	3	1	2	1	3	1	8	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:207171079A>C	uc002vbp.2	+	5	2077	c.1827A>C	c.(1825-1827)CAA>CAC	p.Q609H		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	609							nucleic acid binding|zinc ion binding			ovary(3)	3						AAGGTAGACAAGTCCACCTAA	0.428													27	56					0	0	0.005443	0	0		C	207171079	C	C	207171079	3	2	191	1	0	0	0	0	1	0	0	0	17624	69	3	5	1837	5	ZDBF2	2	207171079	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	3549024	207171079	36028294	143	95765											
MDH1B	130752	broad.mit.edu	37	chr2	207619812	207619812	+	Silent	SNP	G	A	A	0	0	1	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	agcgccacagcaataatgttGtgtgcaatgcgtggggcata	11	9	13	8	2	0	0	0	0	0	0	0	0	0	0	1	2	4	4	1	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:207619812G>A	uc002vbs.2	-	5	886	c.831C>T	c.(829-831)CAC>CAT	p.H277H	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Silent_p.H277H|MDH1B_uc010fuj.2_Silent_p.H179H|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	277					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		CAATAATGTTGTGTGCAATGC	0.468													22	68					0	0	0.014323	0	0		A	207619812	A	A	207619812	2	1	191	1	0	0	0	0	0	0	0	1	9427	1368	48	4		4	MDH1B	2	207619812	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	448733	207619812	35579561	144	95766											
C2orf67	151050	broad.mit.edu	37	chr2	210887679	210887680	+	Frame_Shift_Ins	INS	-	T	T																															aacctgttccctgtcacctaINSttttttttaacattagtaag																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:210887679_210887680insT	uc002vds.2	-	15	3165_3166	c.2957_2958insA	c.(2956-2958)AATfs	p.N986fs	C2orf67_uc002vdt.2_Frame_Shift_Ins_p.N944fs	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	986										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		CCTGTCACCTATTTTTTTTAAC	0.416													20	46	---	---	---	---						.	T	210887680	T	T	210887679	7	5	191	1	0	1	1	0	0	0	0	0	2189	446	16	0	9	0	C2orf67	2	210887679	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	3267867	210887679	32311694	145	95767											
CPS1	1373	broad.mit.edu	37	chr2	211471488	211471488	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtggctcctgcccagacacTctccaatgccgagtttcaga	8	10	9	14	1	2	2	1	0	1	2	4	3	3	2	4	1	2	2	4	1	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:211471488T>C	uc002vee.3	+	18	2147	c.2015T>C	c.(2014-2016)CTC>CCC	p.L672P	CPS1_uc010fur.2_Missense_Mutation_p.L678P|CPS1_uc010fus.2_Missense_Mutation_p.L221P	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	672	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GCCCAGACACTCTCCAATGCC	0.448													21	59					0	0	0.00333	0	0		C	211471488	C	C	211471488	3	2	191	1	0	0	0	0	1	0	0	0	3826	1551	54	3	2107	3	CPS1	2	211471488	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	583809	211471488	31727885	146	95768											
ERBB4	2066	broad.mit.edu	37	chr2	212286760	212286760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctaggtatctttgagggtctCgagccatccttgaaaactca	10	12	9	10	1	3	2	1	2	2	0	5	3	4	2	2	2	2	1	2	2	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:212286760C>T	uc002veg.1	-	24	3034	c.2936G>A	c.(2935-2937)CGA>CAA	p.R979Q	ERBB4_uc002veh.1_Missense_Mutation_p.R979Q|ERBB4_uc010zji.1_Missense_Mutation_p.R969Q|ERBB4_uc010zjj.1_Missense_Mutation_p.R969Q	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	979	Protein kinase.|Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		TTGAGGGTCTCGAGCCATCCT	0.403										TSP Lung(8;0.080)			16	48					0	0	0.006122	0	0		T	212286760	T	T	212286760	3	4	191	1	0	0	0	0	1	0	0	0	5217	884	31	1	1010	1	ERBB4	2	212286760	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	815272	212286760	30912613	147	95769											
SPAG16	79582	broad.mit.edu	37	chr2	215274982	215274982	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cacacggttgtgttttctcaCgacggggagattctcttttc	6	15	10	10	3	2	1	1	0	2	1	5	3	2	1	0	3	0	2	0	3	0	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:215274982C>T	uc002veq.2	+	16	1931	c.1839C>T	c.(1837-1839)CAC>CAT	p.H613H	SPAG16_uc002ver.2_Silent_p.H559H|SPAG16_uc010zjk.1_Silent_p.H519H|VWC2L_uc002vet.2_5'Flank|VWC2L_uc010zjl.1_5'Flank	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	613	WD 7.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		TGTTTTCTCACGACGGGGAGA	0.502													36	122					0	0	0.007835	0	0		T	215274982	T	T	215274982	2	4	191	1	0	0	0	0	0	0	0	1	15003	535	19	1		1	SPAG16	2	215274982	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2988222	215274982	27924391	148	95770											
TNS1	7145	broad.mit.edu	37	chr2	218713077	218713077	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgtggccaggctgggtgGggcccctccctctggtagcc	2	8	17	14	0	1	0	0	0	1	0	2	0	2	0	5	7	1	3	5	7	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:218713077G>T	uc002vgt.2	-	17	2186	c.1788C>A	c.(1786-1788)CCC>CCA	p.P596P	TNS1_uc002vgr.2_Silent_p.P596P|TNS1_uc002vgs.2_Silent_p.P596P|TNS1_uc010zjv.1_Silent_p.P596P|TNS1_uc010fvj.1_Silent_p.P664P|TNS1_uc010fvk.1_Silent_p.P721P|TNS1_uc010fvi.1_Silent_p.P283P	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	596						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		AGGCTGGGTGGGGCCCCTCCC	0.667													23	97					7.87624e-14	9.00142e-14	0.00278	1	0		T	218713077	T	T	218713077	2	4	191	1	0	0	0	0	0	0	0	1	16368	1219	43	5		5	TNS1	2	218713077	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3438095	218713077	24486296	149	95771											
CXCR2	3579	broad.mit.edu	37	chr2	218999632	218999632	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccttttctactagatgcCgccccatgtgaaccagaatc	9	10	6	16	1	1	3	0	1	1	2	2	3	1	3	6	0	3	0	6	0	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:218999632C>T	uc002vgz.1	+	4	333	c.108C>T	c.(106-108)GCC>GCT	p.A36A	CXCR2_uc002vha.1_Silent_p.A36A|CXCR2_uc002vhb.1_Silent_p.A36A	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	36	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						TACTAGATGCCGCCCCATGTG	0.448													58	164					0	0	0.01441	0	0		T	218999632	T	T	218999632	2	4	191	1	0	0	0	0	0	0	0	1	4094	639	23	1		1	CXCR2	2	218999632	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	286555	218999632	24199741	150	95772											
C2orf62	375307	broad.mit.edu	37	chr2	219227555	219227555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcagggtgatggcctggcGgcggatggtgcccagcaatg	6	7	18	10	2	1	1	1	1	0	0	1	2	1	2	2	6	2	2	2	6	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:219227555G>A	uc002vhr.2	+	6	589	c.560G>A	c.(559-561)CGG>CAG	p.R187Q	C2orf62_uc002vhs.2_Intron	NM_198559	NP_940961	Q7Z7H3	CB062_HUMAN	hypothetical protein LOC375307	187											0		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)		ATGGCCTGGCGGCGGATGGTG	0.587													7	62					0	0	0.00308	0	0		A	219227555	A	A	219227555	3	1	191	1	0	0	0	0	1	0	0	0	2184	1116	39	1	582	1	C2orf62	2	219227555	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	227923	219227555	23971818	151	95773											
RNF25	64320	broad.mit.edu	37	chr2	219529955	219529955	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctctgcacactggacactGcacaccgactgccttctaaa	10	9	6	16	1	2	0	0	0	2	0	3	2	2	1	2	1	3	2	2	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:219529955G>A	uc002vit.2	-	8	677	c.589C>T	c.(589-591)CAG>TAG	p.Q197*	RNF25_uc010fvw.2_Nonsense_Mutation_p.Q85*	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	197	RING-type.				positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACTGGACACTGCACACCGACT	0.522													5	62					0	0	0.001984	0	0		A	219529955	A	A	219529955	4	1	191	1	0	0	0	0	0	1	0	0	13510	1328	46	2	802	2	RNF25	2	219529955	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	302400	219529955	23669418	152	95774											
CRYBA2	1412	broad.mit.edu	37	chr2	219857874	219857874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgtgaggctggcgggcgccgGgcccggcgcgggggcgctgc	1	3	23	14	8	0	1	0	1	0	0	0	1	0	1	2	7	1	2	2	7	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:219857874G>A	uc002vjj.1	-	2	60	c.25C>T	c.(25-27)CCG>TCG	p.P9S	CRYBA2_uc002vjk.1_Missense_Mutation_p.P9S	NM_057094	NP_476435	P53672	CRBA2_HUMAN	crystallin, beta A2	9	N-terminal arm.						structural constituent of eye lens				0		Renal(207;0.0474)		Epithelial(149;9.77e-07)|all cancers(144;0.000167)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		gcgggcgccgggcccggcgcg	0.572													8	15					0	0	0.00308	0	0		A	219857874	A	A	219857874	3	1	191	1	0	0	0	0	1	0	0	0	3911	1232	43	4	584	4	CRYBA2	2	219857874	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	327919	219857874	23341499	153	95775											
FAM134A	79137	broad.mit.edu	37	chr2	220046873	220046873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcaaggcaagccctggactCggaggaagaggaagaggatg	13	4	17	7	1	1	2	1	0	0	2	2	7	1	7	1	6	1	1	1	6	4	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:220046873C>T	uc002vjw.3	+	9	1290	c.1154C>T	c.(1153-1155)TCG>TTG	p.S385L	FAM134A_uc010fwc.2_Missense_Mutation_p.S178L|FAM134A_uc002vjx.2_Missense_Mutation_p.S178L	NM_024293	NP_077269	Q8NC44	F134A_HUMAN	hypothetical protein LOC79137	385						endoplasmic reticulum|integral to membrane				ovary(1)|central_nervous_system(1)	2		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)		GCCCTGGACTCGGAGGAAGAG	0.612													6	222					0	0	0.001984	0	0		T	220046873	T	T	220046873	3	4	191	1	0	0	0	0	1	0	0	0	5456	893	31	1	1188	1	FAM134A	2	220046873	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	188999	220046873	23152500	154	95776											
ANKZF1	55139	broad.mit.edu	37	chr2	220100486	220100486	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggctacacggaaaagggaGcagaaggcagcccggcggca	13	1	16	11	3	0	1	0	0	0	1	0	3	0	3	1	6	3	4	1	6	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:220100486G>A	uc002vkg.2	+	12	2034	c.1860G>A	c.(1858-1860)GAG>GAA	p.E620E	ANKZF1_uc002vkh.2_Silent_p.E410E|ANKZF1_uc002vki.2_Silent_p.E620E	NM_018089	NP_060559	Q9H8Y5	ANKZ1_HUMAN	ankyrin repeat and zinc finger domain containing	620	Potential.					intracellular	zinc ion binding			ovary(2)	2		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)		GGAAAAGGGAGCAGAAGGCAG	0.562													13	117					0	0	0.003163	0	0		A	220100486	A	A	220100486	2	1	191	1	0	0	0	0	0	0	0	1	693	962	34	2		2	ANKZF1	2	220100486	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	53613	220100486	23098887	155	95777											
DNAJB2	3300	broad.mit.edu	37	chr2	220149476	220149476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcatgccccttggacagcGacctctctgaggatgaggac	8	8	11	14	1	2	2	1	2	1	0	3	6	2	5	4	3	2	0	4	3	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:220149476G>A	uc002vkx.1	+	9	979	c.742G>A	c.(742-744)GAC>AAC	p.D248N	DNAJB2_uc002vkw.1_Missense_Mutation_p.D248N|DNAJB2_uc002vky.2_Missense_Mutation_p.D64N|DNAJB2_uc010zlb.1_Missense_Mutation_p.D64N	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	248					ER-associated protein catabolic process|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of inclusion body assembly|negative regulation of protein deubiquitination|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding|response to unfolded protein	inclusion body	heat shock protein binding|Hsp70 protein binding|polyubiquitin binding|proteasome binding|protein binding|unfolded protein binding				0		Renal(207;0.0474)		Epithelial(149;1.97e-06)|all cancers(144;0.00028)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTTGGACAGCGACCTCTCTGA	0.652													11	27					0	0	0.010729	0	0		A	220149476	A	A	220149476	3	1	191	1	0	0	0	0	1	0	0	0	4626	1058	37	1	772	1	DNAJB2	2	220149476	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	48990	220149476	23049897	156	95778											
GMPPA	29926	broad.mit.edu	37	chr2	220364856	220364856	+	Silent	SNP	A	G	G	1	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	ctcccaggaactcgcttcagAcctttgtcttttgaggtgcc	6	13	9	13	1	2	2	1	1	1	1	4	3	3	3	3	2	2	1	3	2	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:220364856A>G	uc002vlr.2	+	3	122	c.54A>G	c.(52-54)AGA>AGG	p.R18R	GMPPA_uc002vls.2_Silent_p.R18R|GMPPA_uc002vlt.2_Silent_p.R18R|GMPPA_uc002vlu.2_Silent_p.R18R|GMPPA_uc002vlv.2_Silent_p.R18R|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Silent_p.R18R	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	18					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		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)		CTCGCTTCAGACCTTTGTCTT	0.582													5	16					0	0	0.000602	0	0		G	220364856	G	G	220364856	2	3	191	1	0	0	0	0	0	0	0	1	6509	272	10	3		3	GMPPA	2	220364856	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	215380	220364856	22834517	157	95779											
GMPPA	29926	broad.mit.edu	37	chr2	220370238	220370238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaggacactcacccagaaCggctggccaagcacacccca	13	2	8	18	1	1	1	1	0	0	1	1	2	1	2	5	3	2	2	5	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:220370238C>T	uc002vlr.2	+	9	882	c.814C>T	c.(814-816)CGG>TGG	p.R272W	GMPPA_uc002vls.2_Missense_Mutation_p.R272W|GMPPA_uc002vlt.2_Missense_Mutation_p.R272W|GMPPA_uc002vlu.2_Missense_Mutation_p.R272W|GMPPA_uc002vlv.2_Missense_Mutation_p.R272W|GMPPA_uc002vlw.2_RNA|GMPPA_uc002vlx.2_Missense_Mutation_p.R272W	NM_013335	NP_037467	Q96IJ6	GMPPA_HUMAN	GDP-mannose pyrophosphorylase A	272					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine		GTP binding|mannose-1-phosphate guanylyltransferase activity				0		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)		TCACCCAGAACGGCTGGCCAA	0.647													5	7					0	0	0.001984	0	0		T	220370238	T	T	220370238	3	4	191	1	0	0	0	0	1	0	0	0	6509	527	19	1	844	1	GMPPA	2	220370238	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5382	220370238	22829135	158	95780											
TMEM198	130612	broad.mit.edu	37	chr2	220413997	220413997	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaggtccccgggctcctcCcaggcctgggccaccagacc	6	4	12	19	1	0	2	0	0	0	2	3	2	3	2	8	4	0	1	8	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:220413997C>A	uc002vme.2	+	5	1451	c.866C>A	c.(865-867)CCC>CAC	p.P289H	TMEM198_uc002vmf.2_Missense_Mutation_p.P289H|hsa-mir-3132|MI0014152_5'Flank	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	289	Arg-rich.					integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CGGGCTCCTCCCAGGCCTGGG	0.637													16	69					3.32936e-07	3.62002e-07	0.006122	1	0		A	220413997	A	A	220413997	3	1	191	1	0	0	0	0	1	0	0	0	16144	623	22	5	876	5	TMEM198	2	220413997	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	43759	220413997	22785376	159	95781											
CUL3	8452	broad.mit.edu	37	chr2	225400346	225400346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttattcaatgaatttagtaCatcttctcgcacctagtaac	12	15	5	9	1	3	1	1	1	2	0	4	1	3	1	1	0	2	4	1	0	7	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:225400346C>T	uc002vny.2	-	3	661	c.277G>A	c.(277-279)GTA>ATA	p.V93I	CUL3_uc010zls.1_Missense_Mutation_p.V27I|CUL3_uc010fwy.1_Missense_Mutation_p.V99I	NM_003590	NP_003581	Q13618	CUL3_HUMAN	cullin 3	93					cell cycle arrest|cell migration|cyclin catabolic process|cytokinesis|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|mitotic anaphase|negative regulation of Rho protein signal transduction|positive regulation of cell proliferation|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|Golgi apparatus|nucleus|polar microtubule	ubiquitin protein ligase binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|kidney(1)	4		all_lung(227;0.00877)|Lung NSC(271;0.011)|Renal(207;0.0112)|all_hematologic(139;0.138)		Epithelial(121;1.58e-11)|all cancers(144;1.43e-08)|Lung(261;0.00863)|LUSC - Lung squamous cell carcinoma(224;0.00902)		GAATTTAGTACATCTTCTCGC	0.343													13	42					0	0	0.001855	0	0		T	225400346	T	T	225400346	3	4	191	1	0	0	0	0	1	0	0	0	4059	478	17	4	2085	4	CUL3	2	225400346	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4986349	225400346	17799027	160	95782											
ALPI	248	broad.mit.edu	37	chr2	233321901	233321901	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccacacgggtgcagcacGcctcgccagccggcacctac	8	3	10	20	4	0	0	0	0	0	0	1	0	0	0	6	2	4	3	6	2	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:233321901G>A	uc002vst.3	+	5	594	c.517G>A	c.(517-519)GCC>ACC	p.A173T	ALPI_uc002vsu.3_Missense_Mutation_p.A84T	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	173					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		GGTGCAGCACGCCTCGCCAGC	0.632													9	81					0	0	0.004482	0	0		A	233321901	A	A	233321901	3	1	191	1	0	0	0	0	1	0	0	0	543	1087	38	1	535	1	ALPI	2	233321901	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7921555	233321901	9877472	161	95783											
SH3BP4	23677	broad.mit.edu	37	chr2	235943690	235943690	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaactccaatggcctccCtcgctgcaagtcagagggga	9	6	12	14	1	1	1	1	0	0	1	4	2	3	2	4	4	2	2	4	4	3	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:235943690C>A	uc002vvp.2	+	3	437	c.44C>A	c.(43-45)CCT>CAT	p.P15H	SH3BP4_uc010fym.2_Missense_Mutation_p.P15H|SH3BP4_uc002vvq.2_Missense_Mutation_p.P15H	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	15					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		AATGGCCTCCCTCGCTGCAAG	0.547													19	43					6.94344e-10	7.71025e-10	0.006122	1	0		A	235943690	A	A	235943690	3	1	191	1	0	0	0	0	1	0	0	0	14271	681	24	5	46	5	SH3BP4	2	235943690	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2621789	235943690	7255683	162	95784											
GPC1	2817	broad.mit.edu	37	chr2	241398563	241398563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccgggacagcagccgcGtcctgcaggccatgcttgcc	5	6	13	17	4	0	0	0	0	0	0	2	1	2	1	5	2	5	4	5	2	0	1	rs146749086		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:241398563G>A	uc002vyw.3	+	2	504	c.283G>A	c.(283-285)GTC>ATC	p.V95I	PP14571_uc002vyy.1_5'Flank	NM_002081	NP_002072	P35052	GPC1_HUMAN	glypican 1 precursor	95					axon guidance	anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)	1		all_epithelial(40;2.79e-15)|Breast(86;2.41e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0335)|Lung NSC(271;0.106)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;4.51e-33)|all cancers(36;1.74e-30)|OV - Ovarian serous cystadenocarcinoma(60;4.73e-15)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;9.1e-06)|Colorectal(34;0.000487)|Lung(119;0.0013)|LUSC - Lung squamous cell carcinoma(224;0.0154)|COAD - Colon adenocarcinoma(134;0.0194)|READ - Rectum adenocarcinoma(96;0.0949)		CAGCAGCCGCGTCCTGCAGGC	0.711													18	22					0	0	0.012319	0	0		A	241398563	A	A	241398563	3	1	191	1	0	0	0	0	1	0	0	0	6612	1145	40	1	289	1	GPC1	2	241398563	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5454873	241398563	1800810	163	95785											
PASK	23178	broad.mit.edu	37	chr2	242080060	242080060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagcaggacacactgcccCgcggttcggacgggtccgtg	7	5	15	14	5	0	0	0	0	0	0	2	2	1	2	3	4	3	3	3	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr2:242080060C>T	uc002wao.1	-	3	397	c.305G>A	c.(304-306)CGG>CAG	p.R102Q	PASK_uc010zol.1_Intron|PASK_uc010zom.1_Missense_Mutation_p.R102Q|PASK_uc010fzl.1_Missense_Mutation_p.R102Q|PASK_uc010zon.1_Intron|PASK_uc002waq.2_Missense_Mutation_p.R102Q	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	102					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CACACTGCCCCGCGGTTCGGA	0.597													12	36					0	0	0.013537	0	0		T	242080060	T	T	242080060	3	4	191	1	0	0	0	0	1	0	0	0	11491	652	23	1	3730	1	PASK	2	242080060	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	681497	242080060	1119313	164	95786											
CNTN4	152330	broad.mit.edu	37	chr3	2908528	2908528	+	Missense_Mutation	SNP	A	G	G	1	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	ctgggaatctgtatattgccAaagtagaaaaatcagatgtt	15	12	9	5	0	2	2	1	0	1	2	2	3	2	3	1	1	1	3	1	1	7	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:2908528A>G	uc003bpc.2	+	7	768	c.547A>G	c.(547-549)AAA>GAA	p.K183E	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Missense_Mutation_p.K183E	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	183	Ig-like C2-type 2.				axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		GTATATTGCCAAAGTAGAAAA	0.428													24	68					0	0	0.00333	0	0		G	2908528	G	G	2908528	3	3	191	1	0	0	0	0	1	0	0	0	3646	131	5	3	565	3	CNTN4	3	2908528	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08		2908528	195113902	165	95787											
GPD1L	23171	broad.mit.edu	37	chr3	32200523	32200523	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaccttcctagagagctgCggggtggccgacctgatcac	7	7	13	14	2	1	2	1	1	0	1	2	4	2	2	5	3	2	1	5	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:32200523C>T	uc003cew.2	+	6	834	c.774C>T	c.(772-774)TGC>TGT	p.C258C		NM_015141	NP_055956	Q8N335	GPD1L_HUMAN	glycerol-3-phosphate dehydrogenase 1-like	258					glycerol-3-phosphate catabolic process	glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|NAD binding|protein homodimerization activity				0						TAGAGAGCTGCGGGGTGGCCG	0.612													33	62					0	0	0.013726	0	0		T	32200523	T	T	32200523	2	4	191	1	0	0	0	0	0	0	0	1	6620	776	27	1		1	GPD1L	3	32200523	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	29291995	32200523	165821907	166	95788											
NBEAL2	23218	broad.mit.edu	37	chr3	47036838	47036838	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgcgtcacctgctgcGcccccggccaggattggact	5	7	14	15	3	1	0	1	0	0	0	1	3	1	3	4	4	4	2	4	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:47036838G>A	uc003cqp.2	+	13	1792	c.1613G>A	c.(1612-1614)CGC>CAC	p.R538H	NBEAL2_uc003cqq.1_Missense_Mutation_p.R504H|NBEAL2_uc010hjm.1_Missense_Mutation_p.R99H	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	538							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CACCTGCTGCGCCCCCGGCCA	0.647													6	12					0	0	0.001168	0	0		A	47036838	A	A	47036838	3	1	191	1	0	0	0	0	1	0	0	0	10207	1087	38	1	1663	1	NBEAL2	3	47036838	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	14836315	47036838	150985592	167	95789											
CELSR3	1951	broad.mit.edu	37	chr3	48670411	48670411	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcctccacttacccacGgagatgtgccgggaagtgcc	7	7	12	15	2	0	1	0	0	0	1	1	3	1	2	6	2	4	0	6	2	2	1	rs13084591		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:48670411G>A	uc003cuf.1	-	39	10611	c.10611C>T	c.(10609-10611)TCC>TCT	p.S3537S	SLC26A6_uc003cug.2_Silent_p.S122S|SLC26A6_uc003cuh.2_Silent_p.S143S|SLC26A6_uc010hke.2_5'UTR|SLC26A6_uc003cuk.2_Silent_p.S143S|SLC26A6_uc003cui.2_Silent_p.S143S|SLC26A6_uc003cuj.2_Silent_p.S143S|SLC26A6_uc011bbp.1_Silent_p.S143S	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ACTTACCCACGGAGATGTGCC	0.617													9	42					0	0	0.006214	0	0		A	48670411	A	A	48670411	2	1	191	1	0	0	0	0	0	0	0	1	3226	1103	39	1		1	CELSR3	3	48670411	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1633573	48670411	149352019	168	95790											
QRICH1	54870	broad.mit.edu	37	chr3	49084635	49084635	+	Silent	SNP	T	C	C	0	1	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	agaagttctggggaaggctgTggctgtgactgtggttcaac	8	11	16	6	0	2	2	1	1	1	1	2	3	2	3	0	5	1	4	0	5	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:49084635T>C	uc010hkq.2	-	5	1679	c.1383A>G	c.(1381-1383)CCA>CCG	p.P461P	QRICH1_uc003cvu.2_Silent_p.P461P|QRICH1_uc003cvv.2_Silent_p.P461P	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	461	Gln-rich.									ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GGGAAGGCTGTGGCTGTGACT	0.433													46	102					0	0	0.01441	0	0		C	49084635	C	C	49084635	2	2	191	1	0	0	0	0	0	0	0	1	12904	1683	59	3		3	QRICH1	3	49084635	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	414224	49084635	148937795	169	95791											
LAMB2	3913	broad.mit.edu	37	chr3	49168259	49168259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actgctcgcagttgaggccaCgtgtgttgtgtttgcagatg	6	13	14	8	2	0	2	0	1	0	1	1	2	0	2	1	1	2	6	1	1	0	3	rs144771072		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:49168259C>T	uc003cwe.2	-	8	1249	c.950G>A	c.(949-951)CGT>CAT	p.R317H	LAMB2_uc003cwf.1_Missense_Mutation_p.R317H	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	317	Laminin EGF-like 1.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GTTGAGGCCACGTGTGTTGTG	0.572													63	150					0	0	0.01441	0	0		T	49168259	T	T	49168259	3	4	191	1	0	0	0	0	1	0	0	0	8627	536	19	1	4546	1	LAMB2	3	49168259	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	83624	49168259	148854171	170	95792											
NICN1	84276	broad.mit.edu	37	chr3	49463813	49463813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaggtgtactgacggacacGgatgctcaaaaaagctgtgt	12	9	13	7	2	1	2	1	2	0	0	1	4	1	4	0	3	3	3	0	3	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:49463813G>A	uc003cwz.1	-	2	266	c.181C>T	c.(181-183)CGT>TGT	p.R61C	NICN1_uc003cxa.2_RNA|NICN1_uc011bcr.1_Missense_Mutation_p.R61C	NM_032316	NP_115692	Q9BSH3	NICN1_HUMAN	nicolin 1	61						microtubule|nucleus					0				BRCA - Breast invasive adenocarcinoma(193;4.52e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		TGACGGACACGGATGCTCAAA	0.532													18	45					0	0	0.008871	0	0		A	49463813	A	A	49463813	3	1	191	1	0	0	0	0	1	0	0	0	10432	1116	39	1	480	1	NICN1	3	49463813	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	295554	49463813	148558617	171	95793											
RBM6	10180	broad.mit.edu	37	chr3	50005613	50005613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactttagggacagggataCgccacattcagatttcagag	13	9	11	8	1	2	3	2	0	0	3	2	5	2	5	1	2	1	0	1	2	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:50005613C>T	uc003cyc.2	+	3	888	c.755C>T	c.(754-756)ACG>ATG	p.T252M	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	252					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		GACAGGGATACGCCACATTCA	0.438													4	90					0	0	0.000602	0	0		T	50005613	T	T	50005613	3	4	191	1	0	0	0	0	1	0	0	0	13169	536	19	1	761	1	RBM6	3	50005613	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	541800	50005613	148016817	172	95794											
DOCK3	1795	broad.mit.edu	37	chr3	51418838	51418838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccaagccctaccaccccCgcctgccggccctggagcac	6	3	9	23	3	0	0	0	0	0	0	0	1	0	1	8	2	4	1	8	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:51418838C>T	uc011bds.1	+	53	5964	c.5941C>T	c.(5941-5943)CGC>TGC	p.R1981C		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1981						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		CTACCACCCCCGCCTGCCGGC	0.697													13	27					0	0	0.001855	0	0		T	51418838	T	T	51418838	3	4	191	1	0	0	0	0	1	0	0	0	4694	652	23	1	6151	1	DOCK3	3	51418838	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1413225	51418838	146603592	173	95795											
RBM15B	29890	broad.mit.edu	37	chr3	51430611	51430611	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagccctgggaagagaggcGgaaacggagaagcctttcca	13	4	14	10	2	0	2	0	0	0	2	1	6	1	4	3	4	3	0	3	4	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:51430611G>T	uc003dbd.2	+	1	1881	c.1781G>T	c.(1780-1782)CGG>CTG	p.R594L		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	594	Nuclear localization signal (Potential).				interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		GAAGAGAGGCGGAAACGGAGA	0.617													21	47					1.96292e-10	2.18857e-10	0.010504	1	0		T	51430611	T	T	51430611	3	4	191	1	0	0	0	0	1	0	0	0	13142	1116	39	5	1783	5	RBM15B	3	51430611	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	11773	51430611	146591819	174	95796											
STAB1	23166	broad.mit.edu	37	chr3	52551616	52551616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggatggcatccggacctgCgagctcctggacccctgctc	5	7	14	15	2	0	0	0	0	0	0	3	4	2	3	5	5	3	3	5	5	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:52551616C>T	uc003dej.2	+	44	4688	c.4614C>T	c.(4612-4614)TGC>TGT	p.C1538C	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1538	EGF-like 12.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		TCCGGACCTGCGAGCTCCTGG	0.627													16	34					0	0	0.00499	0	0		T	52551616	T	T	52551616	2	4	191	1	0	0	0	0	0	0	0	1	15262	776	27	1		1	STAB1	3	52551616	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1121005	52551616	145470814	175	95797											
ITIH4	3700	broad.mit.edu	37	chr3	52857988	52857988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccacttacagcttcccgcaCgttattctggatgctcctgg	6	12	9	14	2	1	0	0	0	1	0	3	1	3	1	3	2	3	4	3	2	2	4	rs74971919	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:52857988C>T	uc003dfz.2	-	10	1240	c.1204G>A	c.(1204-1206)GTG>ATG	p.V402M	ITIH4_uc011bel.1_Missense_Mutation_p.V132M|ITIH4_uc003dfy.2_Missense_Mutation_p.V266M|ITIH4_uc011bem.1_Missense_Mutation_p.V402M|ITIH4_uc011ben.1_Missense_Mutation_p.V402M	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	402	VWFA.				acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		GCTTCCCGCACGTTATTCTGG	0.542													6	59					0	0	0.001168	0	0		T	52857988	T	T	52857988	3	4	191	1	0	0	0	0	1	0	0	0	7922	536	19	1	1648	1	ITIH4	3	52857988	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	306372	52857988	145164442	176	95798											
DCP1A	55802	broad.mit.edu	37	chr3	53326747	53326747	+	Silent	SNP	C	T	T	0	0	0	1	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	ttctgggaggcatctcctggCaacctctccatttcttctga	6	14	8	13	0	5	1	0	1	5	0	7	2	5	2	3	3	1	2	3	3	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:53326747C>T	uc003dgs.3	-	7	828	c.735G>A	c.(733-735)TTG>TTA	p.L245L	DCP1A_uc003dgt.3_RNA	NM_018403	NP_060873	Q9NPI6	DCP1A_HUMAN	DCP1 decapping enzyme homolog A	245					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus	hydrolase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000164)|KIRC - Kidney renal clear cell carcinoma(197;0.00525)|Kidney(197;0.00579)|OV - Ovarian serous cystadenocarcinoma(275;0.0647)		CATCTCCTGGCAACCTCTCCA	0.498													24	37					0	0	0.00278	0	0		T	53326747	T	T	53326747	2	4	191	1	0	0	0	0	0	0	0	1	4301	709	25	2		2	DCP1A	3	53326747	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	468759	53326747	144695683	177	95799											
WNT5A	7474	broad.mit.edu	37	chr3	55513421	55513421	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgatgtcggaattgatactgGcattctttgatgcctgtctt	7	16	10	8	2	2	2	0	2	2	0	3	4	2	3	1	2	2	1	1	2	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:55513421G>A	uc003dhn.2	-	3	630	c.312C>T	c.(310-312)TGC>TGT	p.C104C	WNT5A_uc003dhm.2_Silent_p.C89C|WNT5A_uc010hmw.2_Silent_p.C89C|WNT5A_uc010hmx.2_Silent_p.C15C	NM_003392	NP_003383	P41221	WNT5A_HUMAN	wingless-type MMTV integration site family,	104					activation of JUN kinase activity|activation of protein kinase B activity|axon guidance|cartilage development|cellular protein localization|cellular response to calcium ion|cellular response to interferon-gamma|cellular response to lipopolysaccharide|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|cervix development|cochlea morphogenesis|convergent extension involved in organogenesis|dopaminergic neuron differentiation|dorsal/ventral axis specification|embryonic digit morphogenesis|embryonic skeletal system development|epithelial cell proliferation involved in mammary gland duct elongation|epithelial to mesenchymal transition|face development|genitalia development|heart looping|hemopoietic stem cell proliferation|keratinocyte differentiation|lateral sprouting involved in mammary gland duct morphogenesis|lens development in camera-type eye|male gonad development|mammary gland branching involved in thelarche|negative regulation of apoptosis|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of mesenchymal cell proliferation|negative regulation of transcription, DNA-dependent|neural tube closure|olfactory bulb interneuron development|optic cup formation involved in camera-type eye development|palate development|positive regulation of angiogenesis|positive regulation of cartilage development|positive regulation of cGMP metabolic process|positive regulation of chemokine biosynthetic process|positive regulation of cytokine secretion involved in immune response|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|positive regulation of interleukin-6 production|positive regulation of JNK cascade|positive regulation of macrophage activation|positive regulation of macrophage cytokine production|positive regulation of mesenchymal cell proliferation|positive regulation of neuron projection development|positive regulation of NF-kappaB transcription factor activity|positive regulation of ossification|positive regulation of protein catabolic process|positive regulation of protein kinase C signaling cascade|positive regulation of T cell chemotaxis|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|primitive streak formation|regulation of branching involved in mammary gland duct morphogenesis|somitogenesis|tail morphogenesis|type B pancreatic cell development|urinary bladder development|uterus development|vagina development|Wnt receptor signaling pathway, calcium modulating pathway|wound healing	extracellular space|membrane fraction|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|receptor tyrosine kinase-like orphan receptor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				KIRC - Kidney renal clear cell carcinoma(284;0.00377)|Kidney(284;0.00408)|OV - Ovarian serous cystadenocarcinoma(275;0.204)		ATTGATACTGGCATTCTTTGA	0.458													36	56					0	0	0.005524	0	0		A	55513421	A	A	55513421	2	1	191	1	0	0	0	0	0	0	0	1	17417	1195	42	2		2	WNT5A	3	55513421	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2186674	55513421	142509009	178	95800											
ERC2	26059	broad.mit.edu	37	chr3	56468490	56468490	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaggactccagaaagtcttAatactgttcatggaagatcc	13	11	8	9	0	3	2	2	0	1	2	5	4	5	4	2	2	1	1	2	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:56468490A>G	uc003dhr.1	-	2	802	c.546T>C	c.(544-546)ATT>ATC	p.I182I		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	182	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		AGAAAGTCTTAATACTGTTCA	0.488													77	227					0	0	0.01441	0	0		G	56468490	G	G	56468490	2	3	191	1	0	0	0	0	0	0	0	1	5219	358	13	3		3	ERC2	3	56468490	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	955069	56468490	141553940	179	95801											
CADPS	8618	broad.mit.edu	37	chr3	62636706	62636706	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgacttcagctcctcaAtgtacatgttttccatttct	9	16	5	11	0	3	2	2	1	1	1	5	2	5	2	2	0	2	3	2	0	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:62636706A>G	uc003dll.2	-	5	1379	c.1019T>C	c.(1018-1020)ATT>ACT	p.I340T	CADPS_uc003dlm.2_Missense_Mutation_p.I340T|CADPS_uc003dln.2_Missense_Mutation_p.I340T	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	340					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		CAGCTCCTCAATGTACATGTT	0.443													46	108					0	0	0.01441	0	0		G	62636706	G	G	62636706	3	3	191	1	0	0	0	0	1	0	0	0	2573	101	4	3	3219	3	CADPS	3	62636706	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	6168216	62636706	135385724	180	95802											
MAGI1	9223	broad.mit.edu	37	chr3	65342612	65342612	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattccaggtgtggtgttcaTtgggttgtctgctatactct	5	17	11	8	0	3	0	1	0	2	0	4	0	4	0	1	3	2	3	1	3	2	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:65342612T>C	uc003dmn.2	-	23	4356	c.3830A>G	c.(3829-3831)AAT>AGT	p.N1277S	MAGI1_uc003dmm.2_3'UTR	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	1306					cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		GTGGTGTTCATTGGGTTGTCT	0.607													55	86					0	0	0.01441	0	0		C	65342612	C	C	65342612	3	2	191	1	0	0	0	0	1	0	0	0	9208	1493	52	3	562	3	MAGI1	3	65342612	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2705906	65342612	132679818	181	95803											
MAGI1	9223	broad.mit.edu	37	chr3	65425596	65425596	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgctgctgctgctgttgctGctgctgttgctgctgctgct	0	16	13	12	0	0	0	0	0	0	0	0	0	0	0	0	0	11	13	0	0	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:65425596G>A	uc003dmn.2	-	9	1754	c.1228C>T	c.(1228-1230)CAG>TAG	p.Q410*	MAGI1_uc003dmm.2_Nonsense_Mutation_p.Q410*|MAGI1_uc003dmo.2_Nonsense_Mutation_p.Q410*|MAGI1_uc003dmp.2_Nonsense_Mutation_p.Q410*|MAGI1_uc010hny.2_Nonsense_Mutation_p.Q295*	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	410	Poly-Gln.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		tgctgttgctgctgctgttgc	0.343											OREG0015658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	85					0	0	0.004656	0	0		A	65425596	A	A	65425596	4	1	191	1	0	0	0	0	0	1	0	0	9208	1328	46	2	3454	2	MAGI1	3	65425596	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	82984	65425596	132596834	182	95804											
TMPRSS7	344805	broad.mit.edu	37	chr3	111766641	111766641	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctctccactacccgctGgagatttctgcagcctcagg	6	11	9	15	1	3	1	1	0	2	1	5	2	4	1	3	2	3	2	3	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:111766641G>A	uc010hqb.2	+	5	578	c.408G>A	c.(406-408)CTG>CTA	p.L136L	TMPRSS7_uc011bhr.1_5'UTR	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	262	Extracellular (Potential).|CUB 1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						ACTACCCGCTGGAGATTTCTG	0.473													20	45					0	0	0.012319	0	0		A	111766641	A	A	111766641	2	1	191	1	0	0	0	0	0	0	0	1	16277	1335	47	4		4	TMPRSS7	3	111766641	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	46341045	111766641	86255789	183	95805											
CCDC52	152185	broad.mit.edu	37	chr3	113172563	113172563	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actgttgagtgttggaatggGaattgcagaggggctgtgag	9	11	18	3	0	0	3	0	2	0	1	0	5	0	5	0	4	1	4	0	4	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:113172563G>T	uc003eag.3	-	14	2183	c.1892C>A	c.(1891-1893)TCC>TAC	p.S631Y	CCDC52_uc003eaf.3_RNA|CCDC52_uc003eah.1_Missense_Mutation_p.S527Y	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52	631					cell division|mitosis	centriole|spindle	protein binding				0						GTTGGAATGGGAATTGCAGAG	0.473													30	113					1.61788e-16	1.85675e-16	0.012213	1	0		T	113172563	T	T	113172563	3	4	191	1	0	0	0	0	1	0	0	0	2825	1174	41	5	695	5	CCDC52	3	113172563	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1405922	113172563	84849867	184	95806											
QTRTD1	79691	broad.mit.edu	37	chr3	113784223	113784223	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccttctgtataccaagactgGctccgccccacacctcaccc	8	8	5	20	1	2	1	1	0	1	1	3	1	3	1	7	1	1	2	7	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:113784223G>A	uc003eay.2	+	3	349	c.119G>A	c.(118-120)GGC>GAC	p.G40D	QTRTD1_uc003eaz.2_Missense_Mutation_p.G52D|QTRTD1_uc011biq.1_Intron|QTRTD1_uc011bir.1_Intron|QTRTD1_uc003eba.2_5'Flank	NM_024638	NP_078914	Q9H974	QTRD1_HUMAN	queuine tRNA-ribosyltransferase domain	40					queuosine biosynthetic process	mitochondrion	metal ion binding|queuine tRNA-ribosyltransferase activity			central_nervous_system(1)|skin(1)	2						ACCAAGACTGGCTCCGCCCCA	0.507													14	43					0	0	0.001855	0	0		A	113784223	A	A	113784223	3	1	191	1	0	0	0	0	1	0	0	0	12911	1203	42	2	121	2	QTRTD1	3	113784223	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	611660	113784223	84238207	185	95807											
POLQ	10721	broad.mit.edu	37	chr3	121207550	121207550	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcgggctttctggagtcaGgatatcaaccccatgtgaat	11	11	10	9	1	3	1	2	1	1	0	4	3	3	3	2	3	1	1	2	3	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:121207550G>T	uc003eee.3	-	16	4357	c.4228C>A	c.(4228-4230)CTG>ATG	p.L1410M	POLQ_uc003eed.2_Missense_Mutation_p.L582M	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	1410					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TCTGGAGTCAGGATATCAACC	0.378								DNA_polymerases_(catalytic_subunits)					24	53					2.39556e-15	2.74351e-15	0.00278	1	0		T	121207550	T	T	121207550	3	4	191	1	0	0	0	0	1	0	0	0	12227	991	35	5	3604	5	POLQ	3	121207550	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7423327	121207550	76814880	186	95808											
PARP9	83666	broad.mit.edu	37	chr3	122247346	122247346	+	Silent	SNP	G	A	A	0	0	1	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	tactgaggtatagcctgcatGccactaaaaataacaaaggt	16	9	8	8	0	0	1	0	1	0	0	0	1	0	1	2	2	5	2	2	2	8	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:122247346G>A	uc010hri.2	-	11	2575	c.2430C>T	c.(2428-2430)GGC>GGT	p.G810G	PARP9_uc003eff.3_Silent_p.G775G|PARP9_uc011bjs.1_Silent_p.G775G|PARP9_uc003efg.2_Silent_p.G355G|PARP9_uc003efi.2_Silent_p.G775G|PARP9_uc003efh.2_Silent_p.G810G	NM_001146102	NP_001139574	Q8IXQ6	PARP9_HUMAN	poly (ADP-ribose) polymerase family, member 9	810	PARP catalytic.				cell migration	cytosol|nucleus	NAD+ ADP-ribosyltransferase activity|protein binding			ovary(1)|pancreas(1)|prostate(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0519)		TAGCCTGCATGCCACTAAAAA	0.448													26	65					0	0	0.003954	0	0		A	122247346	A	A	122247346	2	1	191	1	0	0	0	0	0	0	0	1	11485	1306	46	2		2	PARP9	3	122247346	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1039796	122247346	75775084	187	95809											
ALDH1L1	10840	broad.mit.edu	37	chr3	125873468	125873468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccagttgtgaatggcctctgCcggctggtcccagttgatct	5	12	12	12	1	2	2	0	2	2	0	3	2	3	2	4	3	1	3	4	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:125873468C>T	uc003eim.1	-	6	839	c.649G>A	c.(649-651)GCA>ACA	p.A217T	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Intron|ALDH1L1_uc003eio.2_5'UTR|ALDH1L1_uc010hsf.1_Missense_Mutation_p.A243T|ALDH1L1_uc003eip.1_Missense_Mutation_p.A124T|ALDH1L1_uc011bkj.1_Missense_Mutation_p.A42T	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	217					10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	ATGGCCTCTGCCGGCTGGTCC	0.557													17	56					0	0	0.006122	0	0		T	125873468	T	T	125873468	3	4	191	1	0	0	0	0	1	0	0	0	494	739	26	2	2131	2	ALDH1L1	3	125873468	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3626122	125873468	72148962	188	95810											
IFT122	55764	broad.mit.edu	37	chr3	129198669	129198669	+	Silent	SNP	G	A	A	0	0	1	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	tccttcagcggagtgaaggaGcgggagtggcagatggagtc	9	7	18	7	2	1	2	1	1	0	1	3	6	2	6	1	5	2	1	1	5	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:129198669G>A	uc003emm.2	+	13	1598	c.1392G>A	c.(1390-1392)GAG>GAA	p.E464E	IFT122_uc003eml.2_Silent_p.E515E|IFT122_uc003emn.2_Silent_p.E405E|IFT122_uc003emo.2_Silent_p.E353E|IFT122_uc003emp.2_Silent_p.E314E|IFT122_uc010htc.2_Silent_p.E456E|IFT122_uc011bky.1_Silent_p.E255E|IFT122_uc003emq.2_Silent_p.E304E|IFT122_uc003emr.2_Silent_p.E255E|IFT122_uc011bla.1_Silent_p.E255E|IFT122_uc011bkx.1_Silent_p.E304E|IFT122_uc011bkz.1_RNA|IFT122_uc010htd.1_5'Flank	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	464					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						GAGTGAAGGAGCGGGAGTGGC	0.547													7	123					0	0	0.001984	0	0		A	129198669	A	A	129198669	2	1	191	1	0	0	0	0	0	0	0	1	7571	962	34	2		2	IFT122	3	129198669	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3325201	129198669	68823761	189	95811											
PLXND1	23129	broad.mit.edu	37	chr3	129304808	129304808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gactcactgggtactcctggCgcacatcgatctcggaaggc	8	8	12	13	3	2	0	1	0	1	0	5	3	3	1	1	4	1	2	1	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:129304808C>T	uc003emx.2	-	5	1938	c.1838G>A	c.(1837-1839)CGC>CAC	p.R613H		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	613	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GTACTCCTGGCGCACATCGAT	0.657													65	177					0	0	0.01441	0	0		T	129304808	T	T	129304808	3	4	191	1	0	0	0	0	1	0	0	0	12146	768	27	1	4067	1	PLXND1	3	129304808	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	106139	129304808	68717622	190	95812											
COL6A6	131873	broad.mit.edu	37	chr3	130300576	130300576	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	agagactcaggtcagtgtggCttttcaagtgaccaatgcca	11	10	11	9	0	3	2	3	1	0	1	3	3	3	2	2	2	1	1	2	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:130300576C>A	uc010htl.2	+	8	3750	c.3719C>A	c.(3718-3720)GCT>GAT	p.A1240D	COL6A6_uc003eni.3_5'Flank	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1240	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GTCAGTGTGGCTTTTCAAGTG	0.443													28	60					9.80776e-20	1.1387e-19	0.00632	1	0		A	130300576	A	A	130300576	3	1	191	1	0	0	0	0	1	0	0	0	3706	797	28	5	3749	5	COL6A6	3	130300576	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	995768	130300576	67721854	191	95813											
DNAJC13	23317	broad.mit.edu	37	chr3	132175582	132175582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcccaagaaggggatgtcGttgcttcaaatgcggaactt	10	11	12	8	2	1	1	1	0	0	1	3	3	2	3	1	3	3	2	1	3	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:132175582G>A	uc003eor.2	+	12	1320	c.1255G>A	c.(1255-1257)GTT>ATT	p.V419I	DNAJC13_uc010htq.1_Missense_Mutation_p.V419I|DNAJC13_uc003eos.1_Missense_Mutation_p.V86I	NM_015268	NP_056083	O75165	DJC13_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 13	419							heat shock protein binding			ovary(1)|breast(1)	2						AGGGGATGTCGTTGCTTCAAA	0.438													11	68					0	0	0.013537	0	0		A	132175582	A	A	132175582	3	1	191	1	0	0	0	0	1	0	0	0	4638	1145	40	1	1297	1	DNAJC13	3	132175582	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1875006	132175582	65846848	192	95814											
SRPRB	58477	broad.mit.edu	37	chr3	133534433	133534433	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgttttctccctccaGggctattgtgtttgttgtgg	2	21	10	8	0	2	0	0	0	2	0	4	0	3	0	2	2	0	4	2	2	1	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:133534433G>T	uc003epx.1	+	5	427	c.411_splice	c.e5-1	p.G137_splice		NM_021203	NP_067026	Q9Y5M8	SRPRB_HUMAN	signal recognition particle receptor, beta							endoplasmic reticulum membrane|integral to membrane	GTP binding|protein binding|receptor activity			ovary(1)	1						TCTCCCTCCAGGGCTATTGTG	0.418													93	294					4.60726e-43	5.45309e-43	0.01441	1	0		T	133534433	T	T	133534433	5	4	191	1	0	0	0	0	0	0	1	0	15188	1014	35	5	428	5	SRPRB	3	133534433	Splice_Site	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1358851	133534433	64487997	193	95815											
ZBTB38	253461	broad.mit.edu	37	chr3	141163525	141163525	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgagccagataaagtgggTaggtttgcaagcagacccaa	13	6	12	10	1	0	2	0	0	0	2	0	3	0	2	3	2	3	4	3	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:141163525T>C	uc003etw.2	+	8	3277	c.2295T>C	c.(2293-2295)GGT>GGC	p.G765G	ZBTB38_uc010hun.2_Silent_p.G762G|ZBTB38_uc010huo.2_Silent_p.G765G|ZBTB38_uc003ety.2_Silent_p.G765G|ZBTB38_uc010hup.2_Silent_p.G766G	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	765					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						ATAAAGTGGGTAGGTTTGCAA	0.483													19	67					0	0	0.007413	0	0		C	141163525	C	C	141163525	2	2	191	1	0	0	0	0	0	0	0	1	17564	1625	57	3		3	ZBTB38	3	141163525	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	7629092	141163525	56858905	194	95816											
TFDP2	7029	broad.mit.edu	37	chr3	141724321	141724321	+	Frame_Shift_Del	DEL	T	-	-																															cacatttattggtcctaaggTttttggtaaaatctttgtag																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:141724321delT	uc003eun.3	-	4	527	c.148delA	c.(148-150)ACCfs	p.T50fs	TFDP2_uc010hur.2_5'UTR|TFDP2_uc003eul.3_5'UTR|TFDP2_uc011bnf.1_5'UTR|TFDP2_uc011bng.1_Intron|TFDP2_uc003eum.3_5'UTR|TFDP2_uc003euo.2_RNA	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	50					cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						GGTCCTAAGGTTTTTGGTAAA	0.303													14	23	---	---	---	---						.	-	141724321	-	-	141724321	7	5	191	1	0	1	0	1	0	0	0	0	15823	1725	60	0	1341	0	TFDP2	3	141724321	Frame_Shift_Del	DEL	T	TCGA-F1-6874-01A-11D-1882-08	560796	141724321	56298109	195	95817											
MLF1	4291	broad.mit.edu	37	chr3	158320655	158320655	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttttgaagtacaaaccaggaCgacacaatctaggaaacact	17	8	7	9	1	1	1	0	1	1	0	1	4	1	3	1	2	3	1	1	2	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:158320655C>T	uc003fcb.2	+	6	765	c.628C>T	c.(628-630)CGA>TGA	p.R210*	MLF1_uc003fbz.2_Nonsense_Mutation_p.R185*|MLF1_uc003fca.2_Nonsense_Mutation_p.R185*|MLF1_uc003fbx.2_Nonsense_Mutation_p.R200*|MLF1_uc003fcc.2_Nonsense_Mutation_p.R241*|MLF1_uc003fby.2_Nonsense_Mutation_p.R136*|MLF1_uc010hvx.2_Nonsense_Mutation_p.R142*	NM_022443	NP_071888	P58340	MLF1_HUMAN	myeloid leukemia factor 1 isoform 1	210					cell cycle arrest|myeloid progenitor cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein domain specific binding				0		Melanoma(1037;0.000458)|Prostate(884;0.0235)|all_neural(597;0.0299)	Lung(72;0.00199)|LUSC - Lung squamous cell carcinoma(72;0.00256)			CAAACCAGGACGACACAATCT	0.383			T	NPM1	AML								20	34					0	0	0.014323	0	0		T	158320655	T	T	158320655	4	4	191	1	0	0	0	0	0	1	0	0	9632	528	19	1	650	1	MLF1	3	158320655	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	16596334	158320655	39701775	196	95818											
SCHIP1	29970	broad.mit.edu	37	chr3	158980401	158980401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tggggaagaggagcccgtccCcaccctctgtctcctcagag	7	7	12	15	1	3	2	1	0	2	2	5	4	4	4	5	3	1	0	5	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:158980401C>A	uc003fcq.1	+	4	325	c.220C>A	c.(220-222)CCA>ACA	p.P74T	SCHIP1_uc003fcr.1_5'UTR|IQCJ_uc003fco.2_Missense_Mutation_p.P74T|IQCJ_uc010hvy.1_Missense_Mutation_p.P47T|IQCJ_uc003fcp.1_Missense_Mutation_p.P74T	NM_014575	NP_055390	Q9P0W5	SCHI1_HUMAN	schwannomin interacting protein 1	Error:Variant_position_missing_in_Q9P0W5_after_alignment						cytoplasm	identical protein binding|protein binding			ovary(1)|central_nervous_system(1)	2			LUSC - Lung squamous cell carcinoma(72;0.00523)|Lung(72;0.00534)			GAGCCCGTCCCCACCCTCTGT	0.532													48	114					7.34454e-26	8.63693e-26	0.01441	1	0		A	158980401	A	A	158980401	3	1	191	1	0	0	0	0	1	0	0	0	13929	623	22	5		5	SCHIP1	3	158980401	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	659746	158980401	39042029	197	95819											
BCHE	590	broad.mit.edu	37	chr3	165491234	165491234	+	Missense_Mutation	SNP	A	G	G	1	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	attgatttttccagtccatcAtgtaattgttccagcgatgg	9	16	8	8	1	1	1	1	1	0	0	4	2	4	1	3	1	1	2	3	1	1	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:165491234A>G	uc003fem.3	-	4	1905	c.1745T>C	c.(1744-1746)ATG>ACG	p.M582T	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	582					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	CCAGTCCATCATGTAATTGTT	0.313													8	37					0	0	0.00308	0	0		G	165491234	G	G	165491234	3	3	191	1	0	0	0	0	1	0	0	0	1359	217	8	3	67	3	BCHE	3	165491234	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	6510833	165491234	32531196	198	95820											
ZBBX	79740	broad.mit.edu	37	chr3	167023611	167023611	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatcatcagacttttgattActttctaaacctatattttt	12	19	3	7	0	3	2	2	1	1	1	3	3	3	2	1	0	2	0	1	0	6	9			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:167023611A>G	uc003fep.2	-	17	1868	c.1545T>C	c.(1543-1545)AGT>AGC	p.S515S	ZBBX_uc011bpc.1_Silent_p.S515S|ZBBX_uc003feq.2_Silent_p.S486S	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	515						intracellular	zinc ion binding			ovary(2)	2						ACTTTTGATTACTTTCTAAAC	0.348													9	33					0	0	0.006214	0	0		G	167023611	G	G	167023611	2	3	191	1	0	0	0	0	0	0	0	1	17542	388	14	3		3	ZBBX	3	167023611	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1532377	167023611	30998819	199	95821											
NAALADL2	254827	broad.mit.edu	37	chr3	174814794	174814794	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagacctcaatcttgattcCattcaaccagcaacttcacc	13	11	3	14	0	4	2	3	1	1	1	5	2	5	2	4	0	3	1	4	0	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:174814794C>T	uc003fit.2	+	2	345	c.258C>T	c.(256-258)TCC>TCT	p.S86S	NAALADL2_uc003fiu.1_Silent_p.S79S	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	86	Cytoplasmic (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		ATCTTGATTCCATTCAACCAG	0.443													20	59					0	0	0.008871	0	0		T	174814794	T	T	174814794	2	4	191	1	0	0	0	0	0	0	0	1	10148	581	21	4		4	NAALADL2	3	174814794	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7791183	174814794	23207636	200	95822											
HTR3E	285242	broad.mit.edu	37	chr3	183823624	183823624	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggctttctggttgccatCgatgccctcagcttctacct	5	14	9	13	1	3	0	1	0	2	0	4	1	3	0	3	2	4	3	3	2	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:183823624C>T	uc010hxq.2	+	7	1258	c.792C>T	c.(790-792)ATC>ATT	p.I264I	HTR3E_uc003fml.3_Silent_p.I249I|HTR3E_uc003fmm.2_Silent_p.I279I|HTR3E_uc010hxr.2_Silent_p.I290I|HTR3E_uc003fmn.2_Silent_p.I264I	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	264	Helical; Name=1; (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TGGTTGCCATCGATGCCCTCA	0.547													33	103					0	0	0.009535	0	0		T	183823624	T	T	183823624	2	4	191	1	0	0	0	0	0	0	0	1	7464	874	31	1		1	HTR3E	3	183823624	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	9008830	183823624	14198806	201	95823											
CHRD	8646	broad.mit.edu	37	chr3	184104513	184104513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcgctgggcgcccaactaCgacccgctctgctcactctg	5	8	10	18	4	3	0	1	0	2	0	4	1	3	0	2	1	3	4	2	1	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:184104513C>T	uc003fov.2	+	16	2412	c.2166C>T	c.(2164-2166)TAC>TAT	p.Y722Y	CHRD_uc003fow.2_Silent_p.Y352Y|CHRD_uc003fox.2_Silent_p.Y722Y|CHRD_uc003foy.2_Silent_p.Y352Y|CHRD_uc010hyc.2_Silent_p.Y312Y|CHRD_uc011brr.1_Intron	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	722	VWFC 2.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CGCCCAACTACGACCCGCTCT	0.682													5	17					0	0	0.001168	0	0		T	184104513	T	T	184104513	2	4	191	1	0	0	0	0	0	0	0	1	3375	547	19	1		1	CHRD	3	184104513	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	280889	184104513	13917917	202	95824											
MAP3K13	9175	broad.mit.edu	37	chr3	185191163	185191163	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcagcagccctgcggagcCcactcagcaaccatgctcag	10	4	10	17	1	2	0	2	0	0	0	2	1	2	1	3	1	8	4	3	1	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:185191163C>A	uc010hyf.2	+	12	2310	c.2044C>A	c.(2044-2046)CCA>ACA	p.P682T	MAP3K13_uc011brt.1_Missense_Mutation_p.P475T|MAP3K13_uc011bru.1_Missense_Mutation_p.P538T|MAP3K13_uc003fpi.2_Missense_Mutation_p.P682T|MAP3K13_uc010hyg.2_Missense_Mutation_p.P372T	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	682					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			CCTGCGGAGCCCACTCAGCAA	0.592													51	116					2.01872e-29	2.38417e-29	0.01441	1	0		A	185191163	A	A	185191163	3	1	191	1	0	0	0	0	1	0	0	0	9265	623	22	5	2082	5	MAP3K13	3	185191163	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1086650	185191163	12831267	203	95825											
LIPH	200879	broad.mit.edu	37	chr3	185237017	185237017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtaggagtcacagggatacgCagtgatggtgcagctctctc	9	9	14	9	1	2	1	1	1	1	0	4	3	2	3	0	3	3	4	0	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:185237017C>T	uc003fpm.2	-	6	909	c.799G>A	c.(799-801)GCG>ACG	p.A267T	LIPH_uc010hyh.2_Missense_Mutation_p.A233T	NM_139248	NP_640341	Q8WWY8	LIPH_HUMAN	lipase, member H precursor	267					lipid catabolic process	extracellular space|plasma membrane	heparin binding|phospholipase activity			ovary(1)|pancreas(1)	2	all_cancers(143;8.87e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;1.31e-21)			CAGGGATACGCAGTGATGGTG	0.473													77	162					0	0	0.01441	0	0		T	185237017	T	T	185237017	3	4	191	1	0	0	0	0	1	0	0	0	8841	710	25	2	576	2	LIPH	3	185237017	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	45854	185237017	12785413	204	95826											
ADIPOQ	9370	broad.mit.edu	37	chr3	186570969	186570969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcctgcacaggttggatggCgggcatcccagggcatccgg	6	6	17	12	2	0	0	0	0	0	0	2	1	2	1	3	7	1	4	3	7	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:186570969C>T	uc003fra.2	+	2	206	c.122C>T	c.(121-123)GCG>GTG	p.A41V	ADIPOQ_uc010hyy.2_Missense_Mutation_p.A41V	NM_004797	NP_004788	Q15848	ADIPO_HUMAN	adiponectin precursor	41					brown fat cell differentiation|cellular response to drug|cellular response to insulin stimulus|detection of oxidative stress|fatty acid beta-oxidation|generation of precursor metabolites and energy|glucose homeostasis|glucose metabolic process|low-density lipoprotein particle clearance|negative regulation of blood pressure|negative regulation of DNA biosynthetic process|negative regulation of ERK1 and ERK2 cascade|negative regulation of eukaryotic cell surface binding|negative regulation of fat cell differentiation|negative regulation of gluconeogenesis|negative regulation of granulocyte differentiation|negative regulation of heterotypic cell-cell adhesion|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of intracellular protein transport|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|negative regulation of macrophage differentiation|negative regulation of MAP kinase activity|negative regulation of phagocytosis|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein autophosphorylation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of synaptic transmission|negative regulation of transcription, DNA-dependent|negative regulation of tumor necrosis factor production|negative regulation of tumor necrosis factor-mediated signaling pathway|positive regulation of cAMP-dependent protein kinase activity|positive regulation of cholesterol efflux|positive regulation of fatty acid metabolic process|positive regulation of glucose import|positive regulation of glycogen (starch) synthase activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of metanephric glomerular visceral epithelial cell development|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myeloid cell apoptosis|positive regulation of protein kinase A signaling cascade|positive regulation of renal albumin absorption|protein homooligomerization|protein localization in plasma membrane|response to glucose stimulus|response to tumor necrosis factor	collagen|endoplasmic reticulum|extracellular space	cytokine activity|eukaryotic cell surface binding|hormone activity|protein homodimerization activity			ovary(1)	1	all_cancers(143;1.2e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.47e-19)	GBM - Glioblastoma multiforme(93;0.0776)		GGTTGGATGGCGGGCATCCCA	0.617													16	47					0	0	0.00499	0	0		T	186570969	T	T	186570969	3	4	191	1	0	0	0	0	1	0	0	0	317	768	27	1	124	1	ADIPOQ	3	186570969	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1333952	186570969	11451461	205	95827											
MFI2	4241	broad.mit.edu	37	chr3	196744090	196744090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccactcggtgacatcggcccGgctaccatcccggcacagca	8	5	10	18	4	0	1	0	1	0	0	3	1	1	1	4	4	2	3	4	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr3:196744090G>A	uc003fxk.3	-	7	897	c.784C>T	c.(784-786)CGG>TGG	p.R262W		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	262	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		ACATCGGCCCGGCTACCATCC	0.682													4	19					0	0	0.000602	0	0		A	196744090	A	A	196744090	3	1	191	1	0	0	0	0	1	0	0	0	9540	1115	39	1	1472	1	MFI2	3	196744090	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	10173121	196744090	1278340	206	95828											
PIGG	54872	broad.mit.edu	37	chr4	515707	515707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttctgaccaacgtgctcGtgggtggaaacaccccaagg	9	8	12	12	2	1	1	0	1	1	0	2	2	1	2	3	3	3	2	3	3	3	1	rs143362968		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:515707G>A	uc003gak.3	+	8	1727	c.1591G>A	c.(1591-1593)GTG>ATG	p.V531M	PIGG_uc003gaj.3_Missense_Mutation_p.V523M|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.V398M|PIGG_uc003gal.3_Missense_Mutation_p.V442M|PIGG_uc003gai.2_Intron|PIGG_uc011buw.1_3'UTR|PIGG_uc003gam.2_3'UTR|PIGG_uc003gan.2_Missense_Mutation_p.V442M	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	531					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CAACGTGCTCGTGGGTGGAAA	0.577													6	41					0	0	0.001168	0	0		A	515707	A	A	515707	3	1	191	1	0	0	0	0	1	0	0	0	11907	1145	40	1	1621	1	PIGG	4	515707	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08		515707	190638569	207	95829											
FGFRL1	53834	broad.mit.edu	37	chr4	1018752	1018752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cggccactagcctgccgtggCccgtggtcatcggcatccca	5	7	12	17	4	1	0	1	0	0	0	3	0	2	0	5	4	2	1	5	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:1018752C>T	uc003gce.2	+	7	1293	c.1132C>T	c.(1132-1134)CCC>TCC	p.P378S	FGFRL1_uc003gcf.2_Missense_Mutation_p.P378S|FGFRL1_uc003gcg.2_Missense_Mutation_p.P378S|FGFRL1_uc010ibo.2_Missense_Mutation_p.P378S	NM_021923	NP_068742	Q8N441	FGRL1_HUMAN	fibroblast growth factor receptor-like 1	378	Extracellular (Potential).			Missing (in Ref. 3; AAK15273).	regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			CCTGCCGTGGCCCGTGGTCAT	0.682													19	35					0	0	0.014323	0	0		T	1018752	T	T	1018752	3	4	191	1	0	0	0	0	1	0	0	0	5883	739	26	2	1154	2	FGFRL1	4	1018752	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	503045	1018752	190135524	208	95830											
CRIPAK	285464	broad.mit.edu	37	chr4	1389203	1389203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccatgtggagtgcccgcctGctcacacgtgccgacgtgga	6	7	13	15	4	1	0	1	0	0	0	1	3	1	2	4	2	3	1	4	2	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:1389203G>A	uc003gdf.2	+	1	3864	c.904G>A	c.(904-906)GCT>ACT	p.A302T		NM_175918	NP_787114	Q8N1N5	CRPAK_HUMAN	cysteine-rich PAK1 inhibitor	302					ER-nucleus signaling pathway|negative regulation of protein kinase activity|regulation of cytoskeleton organization|response to estrogen stimulus	endoplasmic reticulum|nucleus|plasma membrane	protein binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0106)			GTGCCCGCCTGCTCACACGTG	0.677													124	303					0	0	0.01441	0	0		A	1389203	A	A	1389203	3	1	191	1	0	0	0	0	1	0	0	0	3880	1319	46	2	906	2	CRIPAK	4	1389203	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	370451	1389203	189765073	209	95831											
HTT	3064	broad.mit.edu	37	chr4	3227435	3227436	+	Frame_Shift_Ins	INS	-	G	G																															gctacagatcaaccccgagcINSgggagctggggagcatgagc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:3227435_3227436insG	uc011bvq.1	+	58	7964_7965	c.7819_7820insG	c.(7819-7821)CGGfs	p.R2607fs		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2605					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		CAACCCCGAGCGGGAGCTGGGG	0.634													23	34	---	---	---	---						.	G	3227436	G	G	3227435	7	5	191	1	0	1	1	0	0	0	0	0	7473	759	27	0	8039	0	HTT	4	3227435	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	1838232	3227435	187926841	210	95832											
HGFAC	3083	broad.mit.edu	37	chr4	3449908	3449908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctggtccccctggtcgccGaccacaagtgcagcagccct	6	6	10	19	2	0	0	0	0	0	0	2	1	1	0	6	2	3	2	6	2	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:3449908G>A	uc003ghc.2	+	13	1693	c.1690G>A	c.(1690-1692)GAC>AAC	p.D564N	HGFAC_uc010icw.2_Missense_Mutation_p.D571N	NM_001528	NP_001519	Q04756	HGFA_HUMAN	HGF activator preproprotein	564	Peptidase S1.				proteolysis	extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(2)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		CCTGGTCGCCGACCACAAGTG	0.662													8	11					0	0	0.004482	0	0		A	3449908	A	A	3449908	3	1	191	1	0	0	0	0	1	0	0	0	7102	1058	37	1	1740	1	HGFAC	4	3449908	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	222473	3449908	187704368	211	95833											
TADA2B	93624	broad.mit.edu	37	chr4	7056395	7056395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaagatccgagaactgcagCggtaccggcgaaacgggatc	12	4	13	12	5	0	2	0	0	0	2	2	5	1	3	3	3	5	2	3	3	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:7056395C>T	uc003gjw.3	+	2	1028	c.877C>T	c.(877-879)CGG>TGG	p.R293W	TADA2B_uc010idi.2_Missense_Mutation_p.R218W	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	293					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						AGAACTGCAGCGGTACCGGCG	0.522													12	42					0	0	0.010729	0	0		T	7056395	T	T	7056395	3	4	191	1	0	0	0	0	1	0	0	0	15536	759	27	1	883	1	TADA2B	4	7056395	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3606487	7056395	184097881	212	95834											
GPR78	27201	broad.mit.edu	37	chr4	8584304	8584304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagcggcgccgccaccgcGccaccaggaagattggcatt	10	4	13	14	5	0	2	0	0	0	2	0	3	0	3	5	3	1	1	5	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:8584304G>A	uc003glk.2	+	2	1134	c.715G>A	c.(715-717)GCC>ACC	p.A239T	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	239	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						CCGCCACCGCGCCACCAGGAA	0.622													33	88					0	0	0.00623	0	0		A	8584304	A	A	8584304	3	1	191	1	0	0	0	0	1	0	0	0	6725	1087	38	1	721	1	GPR78	4	8584304	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1527909	8584304	182569972	213	95835											
CC2D2A	57545	broad.mit.edu	37	chr4	15601172	15601172	+	Frame_Shift_Del	DEL	A	-	-																															gattgaaaaaatactaaaagAaaaaatcatggactggaggc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:15601172delA	uc010idv.2	+	37	4762	c.4517delA	c.(4516-4518)GAAfs	p.E1506fs	CC2D2A_uc003gnx.2_Frame_Shift_Del_p.E1398fs|CC2D2A_uc003gnz.1_RNA|CC2D2A_uc003goa.1_RNA	NM_001080522	NP_001073991	Q9P2K1	C2D2A_HUMAN	coiled-coil and C2 domain containing 2A isoform	1506					cell projection organization	cilium|microtubule basal body				pancreas(2)|ovary(1)	3						ATACTAAAAGAAAAAATCATG	0.378													10	14	---	---	---	---						.	-	15601172	-	-	15601172	7	5	191	1	0	1	0	1	0	0	0	0	2731	246	9	0	4858	0	CC2D2A	4	15601172	Frame_Shift_Del	DEL	A	TCGA-F1-6874-01A-11D-1882-08	7016868	15601172	175553104	214	95836											
PPARGC1A	10891	broad.mit.edu	37	chr4	23815550	23815550	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccaagggtagctcagtttaTcactttcatcttcgctgtca	8	14	7	12	1	5	0	4	0	1	0	6	0	5	0	1	1	1	4	1	1	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:23815550T>C	uc003gqs.2	-	8	1676	c.1556A>G	c.(1555-1557)GAT>GGT	p.D519G	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	519					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				GCTCAGTTTATCACTTTCATC	0.398													34	85					0	0	0.013726	0	0		C	23815550	C	C	23815550	3	2	191	1	0	0	0	0	1	0	0	0	12319	1435	50	3	864	3	PPARGC1A	4	23815550	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	8214378	23815550	167338726	215	95837											
LGI2	55203	broad.mit.edu	37	chr4	25005583	25005583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcgatatcaacaaactcCgcatccgtgtccctgaacca	12	8	5	16	3	1	1	1	1	0	0	5	2	4	1	5	0	3	1	5	0	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:25005583C>T	uc003grf.2	-	8	1227	c.1128G>A	c.(1126-1128)GCG>GCA	p.A376A		NM_018176	NP_060646	Q8N0V4	LGI2_HUMAN	leucine-rich repeat LGI family, member 2	376	EAR 4.					extracellular region					0		Breast(46;0.173)				CAACAAACTCCGCATCCGTGT	0.483													32	107					0	0	0.012213	0	0		T	25005583	T	T	25005583	2	4	191	1	0	0	0	0	0	0	0	1	8768	639	23	1		1	LGI2	4	25005583	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1190033	25005583	166148693	216	95838											
GUF1	60558	broad.mit.edu	37	chr4	44680700	44680700	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgcgccacgagccactGgggccgcgcttctggtggcc	3	7	14	17	5	2	0	0	0	2	0	3	1	2	0	4	4	1	1	4	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:44680700G>T	uc003gww.3	+	1	268	c.61G>T	c.(61-63)GGG>TGG	p.G21W	GUF1_uc010ifz.1_RNA	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	21					translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						ACGAGCCACTGGGGCCGCGCT	0.731													4	10					3.59834e-05	3.82149e-05	0.001168	1	0		T	44680700	T	T	44680700	3	4	191	1	0	0	0	0	1	0	0	0	6915	1348	47	5	63	5	GUF1	4	44680700	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	19675117	44680700	146473576	217	95839											
NFXL1	152518	broad.mit.edu	37	chr4	47901438	47901438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaggaggtttaaattcacGctcacatacttggccacatg	13	10	8	10	1	2	0	2	0	0	0	2	1	2	1	1	3	1	2	1	3	4	5	rs139473913	by1000genomes	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:47901438G>A	uc010igh.2	-	6	952	c.775C>T	c.(775-777)CGT>TGT	p.R259C	NFXL1_uc003gxp.2_Missense_Mutation_p.R259C|NFXL1_uc003gxq.3_RNA|NFXL1_uc010igi.2_Missense_Mutation_p.R259C	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	nuclear transcription factor, X-box binding-like	259						integral to membrane|nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						TTAAATTCACGCTCACATACT	0.388													8	31					0	0	0.004482	0	0		A	47901438	A	A	47901438	3	1	191	1	0	0	0	0	1	0	0	0	10407	1087	38	1	2032	1	NFXL1	4	47901438	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3220738	47901438	143252838	218	95840											
SPATA18	132671	broad.mit.edu	37	chr4	52944991	52944991	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatgtggggtcgaatgacTttgagaatgctgtcttggat	8	15	13	5	1	1	2	0	2	1	1	2	5	1	3	0	3	1	1	0	3	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:52944991T>G	uc003gzl.2	+	8	1389	c.1111T>G	c.(1111-1113)TTT>GTT	p.F371V	SPATA18_uc010igl.1_RNA|SPATA18_uc011bzq.1_Missense_Mutation_p.F339V|SPATA18_uc003gzk.1_Missense_Mutation_p.F371V	NM_145263	NP_660306	Q8TC71	MIEAP_HUMAN	spermatogenesis associated 18 homolog	371					mitochondrial protein catabolic process|mitochondrion degradation by induced vacuole formation|response to DNA damage stimulus	mitochondrial outer membrane	protein binding			ovary(2)|skin(2)	4			GBM - Glioblastoma multiforme(4;1.77e-13)|LUSC - Lung squamous cell carcinoma(32;0.00204)			GTCGAATGACTTTGAGAATGC	0.383													50	95					0	0	0.01441	0	0		G	52944991	G	G	52944991	3	3	191	1	0	0	0	0	1	0	0	0	15028	1609	56	5	1141	5	SPATA18	4	52944991	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	5043553	52944991	138209285	219	95841											
FIP1L1	81608	broad.mit.edu	37	chr4	54324899	54324899	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagtcgagaaaaagaagaaCgacatagagaaagacgacac	22	2	10	7	3	0	5	0	0	0	5	1	9	0	5	0	0	1	0	0	0	7	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:54324899C>T	uc003gzy.2	+	17	1765	c.1579C>T	c.(1579-1581)CGA>TGA	p.R527*	PDGFRA_uc003haa.2_Intron|FIP1L1_uc011bzu.1_Nonsense_Mutation_p.R521*|FIP1L1_uc003gzz.2_Nonsense_Mutation_p.R453*|FIP1L1_uc003hab.2_Nonsense_Mutation_p.R492*|FIP1L1_uc003hac.2_Nonsense_Mutation_p.R281*|FIP1L1_uc010ign.2_RNA|FIP1L1_uc003had.2_Silent_p.N111N|FIP1L1_uc003hae.2_Silent_p.N114N	NM_030917	NP_112179	Q6UN15	FIP1_HUMAN	FIP1 like 1 isoform 1	527	Arg-rich.|Sufficient for interaction with CPSF1 and CSTF3.|Glu-rich.				mRNA processing	nucleus	RNA binding			ovary(1)|skin(1)	2			GBM - Glioblastoma multiforme(3;3.31e-36)|LUSC - Lung squamous cell carcinoma(32;0.0134)			AAAAGAAGAACGACATAGAGA	0.388			T	PDGFRA	idiopathic hypereosinophilic syndrome								4	31					0	0	0.009096	0	0		T	54324899	T	T	54324899	4	4	191	1	0	0	0	0	0	1	0	0	5910	528	19	1	1676	1	FIP1L1	4	54324899	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1379908	54324899	136829377	220	95842											
AASDH	132949	broad.mit.edu	37	chr4	57211364	57211364	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgtggttggatccatggTtgccgagcttttgacagcat	6	14	12	9	1	0	1	0	1	0	0	2	3	2	2	3	3	3	4	3	3	0	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:57211364T>C	uc003hbn.2	-	12	2734	c.2581A>G	c.(2581-2583)ACC>GCC	p.T861A	AASDH_uc010ihb.2_Missense_Mutation_p.T376A|AASDH_uc011caa.1_Intron|AASDH_uc003hbo.2_Missense_Mutation_p.T761A|AASDH_uc011cab.1_Missense_Mutation_p.T376A|AASDH_uc010ihc.2_Intron	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	861					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				GGATCCATGGTTGCCGAGCTT	0.358													10	43					0	0	0.008291	0	0		C	57211364	C	C	57211364	3	2	191	1	0	0	0	0	1	0	0	0	22	1725	60	3	731	3	AASDH	4	57211364	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2886465	57211364	133942912	221	95843											
GC	2638	broad.mit.edu	37	chr4	72618268	72618268	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaagaggaggtgagtttatGgaacagcagttggaggcaaa	15	8	15	3	0	0	2	0	1	0	1	0	5	0	5	0	5	2	4	0	5	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:72618268G>A	uc003hge.2	-	11	1515	c.1362C>T	c.(1360-1362)TCC>TCT	p.S454S	GC_uc003hgd.2_Silent_p.S332S|GC_uc010iie.2_Silent_p.S454S|GC_uc010iif.2_Silent_p.S473S	NM_000583	NP_000574	P02774	VTDB_HUMAN	vitamin D-binding protein precursor	454	Albumin 3.				hormone biosynthetic process|vitamin D metabolic process	cytosol|lysosomal lumen	actin binding|vitamin D binding|vitamin transporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		all_hematologic(202;0.107)	Lung(101;0.148)		Cholecalciferol(DB00169)	GTGAGTTTATGGAACAGCAGT	0.453													9	60					0	0	0.008291	0	0		A	72618268	A	A	72618268	2	1	191	1	0	0	0	0	0	0	0	1	6297	1335	47	4		4	GC	4	72618268	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	15406904	72618268	118536008	222	95844											
CXCL9	4283	broad.mit.edu	37	chr4	76927393	76927393	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcccttggttggtgctgatGcaggaacagcgaccctttct	6	12	12	11	1	1	1	0	1	1	0	2	3	2	2	2	3	4	3	2	3	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:76927393G>A	uc003hjh.1	-	2	138	c.99C>T	c.(97-99)TGC>TGT	p.C33C		NM_002416	NP_002407	Q07325	CXCL9_HUMAN	small inducible cytokine B9 precursor	33					cell-cell signaling|cellular defense response|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response	extracellular space	chemokine activity			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TGGTGCTGATGCAGGAACAGC	0.428													38	120					0	0	0.00623	0	0		A	76927393	A	A	76927393	2	1	191	1	0	0	0	0	0	0	0	1	4092	1311	46	2		2	CXCL9	4	76927393	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4309125	76927393	114226883	223	95845											
COQ2	27235	broad.mit.edu	37	chr4	84185441	84185441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggacaatccctaaaaaaaCtattagtcccagtgttcggt	15	10	7	9	1	0	0	0	0	0	0	3	1	2	1	2	2	1	1	2	2	8	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:84185441C>T	uc003hog.2	-	7	1074	c.1066G>A	c.(1066-1068)GTT>ATT	p.V356I	COQ2_uc011ccp.1_Intron|COQ2_uc003hof.2_RNA	NM_015697	NP_056512	Q96H96	COQ2_HUMAN	para-hydroxybenzoate-polyprenyltransferase,	343	Helical; (Potential).				glycerol metabolic process|isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrial membrane	4-hydroxybenzoate decaprenyltransferase activity|4-hydroxybenzoate nonaprenyltransferase activity	p.A356A(1)		ovary(1)|central_nervous_system(1)	2		Hepatocellular(203;0.114)				CCTAAAAAAACTATTAGTCCC	0.338													17	59					0	0	0.004007	0	0		T	84185441	T	T	84185441	3	4	191	1	0	0	0	0	1	0	0	0	3748	565	20	4	92	4	COQ2	4	84185441	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7258048	84185441	106968835	224	95846											
FAM13A	10144	broad.mit.edu	37	chr4	89670128	89670128	+	Silent	SNP	A	G	G	1	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	agttgtctccggaatttggcAaggtcatttgtccatttcag	8	15	10	8	1	3	0	2	0	1	0	5	1	4	1	2	3	0	2	2	3	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:89670128A>G	uc003hse.1	-	17	2344	c.2136T>C	c.(2134-2136)CTT>CTC	p.L712L	FAM13A_uc003hsa.1_Silent_p.L183L|FAM13A_uc003hsb.1_Silent_p.L386L|FAM13A_uc003hsd.1_Silent_p.L386L|FAM13A_uc003hsc.1_Silent_p.L372L|FAM13A_uc011cdq.1_Silent_p.L358L|FAM13A_uc003hsf.1_Silent_p.L298L|FAM13A_uc003hsg.1_Silent_p.L183L|FAM13A_uc010ikr.1_Silent_p.L208L	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	712	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						GGAATTTGGCAAGGTCATTTG	0.483													5	416					0	0	0.001168	0	0		G	89670128	G	G	89670128	2	3	191	1	0	0	0	0	0	0	0	1	5463	117	5	3		3	FAM13A	4	89670128	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	5484687	89670128	101484148	225	95847											
MTTP	4547	broad.mit.edu	37	chr4	100510863	100510863	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaaatatcaagagaggtctgGctagcctatttcagacacag	15	9	9	8	0	3	2	2	0	1	2	3	3	3	2	1	2	1	1	1	2	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:100510863G>T	uc003hvc.3	+	5	713	c.457G>T	c.(457-459)GCT>TCT	p.A153S	MTTP_uc011cej.1_Missense_Mutation_p.A180S	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	153	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	GAGAGGTCTGGCTAGCCTATT	0.398													12	33					1.49906e-05	1.59977e-05	0.00245	1	0		T	100510863	T	T	100510863	3	4	191	1	0	0	0	0	1	0	0	0	9982	1203	42	5	471	5	MTTP	4	100510863	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	10840735	100510863	90643413	226	95848											
USP53	54532	broad.mit.edu	37	chr4	120192809	120192809	+	Silent	SNP	T	C	C	0	1	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	aatgttgatagtatttttagTgaaagtgaaaaaagacagca	18	12	9	2	0	0	4	0	3	0	1	0	4	0	4	0	0	1	3	0	0	8	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:120192809T>C	uc003ics.3	+	15	2860	c.1794T>C	c.(1792-1794)AGT>AGC	p.S598S	USP53_uc003icr.3_Silent_p.S598S|USP53_uc003icu.3_Silent_p.S221S|USP53_uc003ict.2_Silent_p.S221S	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	598					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						GTATTTTTAGTGAAAGTGAAA	0.368													18	42					0	0	0.006122	0	0		C	120192809	C	C	120192809	2	2	191	1	0	0	0	0	0	0	0	1	17110	1693	59	3		3	USP53	4	120192809	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	19681946	120192809	70961467	227	95849											
BBS7	55212	broad.mit.edu	37	chr4	122774171	122774171	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatacacttccaccattccGtcatctctcccaacaagtaa	12	11	2	16	1	2	0	1	0	1	0	6	0	5	0	4	0	2	1	4	0	5	5	rs140478463		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:122774171G>A	uc003ied.2	-	8	963	c.789C>T	c.(787-789)GAC>GAT	p.D263D	BBS7_uc003iee.1_Silent_p.D263D	NM_176824	NP_789794	Q8IWZ6	BBS7_HUMAN	Bardet-Biedl syndrome 7 protein isoform a	263					cilium morphogenesis|digestive tract morphogenesis|fat cell differentiation|heart looping|melanosome transport|pigment granule aggregation in cell center|response to stimulus|visual perception	BBSome|centrosome|cilium membrane	protein binding			ovary(1)	1						CCACCATTCCGTCATCTCTCC	0.323									Bardet-Biedl_syndrome				12	35					0	0	0.00245	0	0		A	122774171	A	A	122774171	2	1	191	1	0	0	0	0	0	0	0	1	1342	1136	40	1		1	BBS7	4	122774171	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2581362	122774171	68380105	228	95850											
PCDH10	57575	broad.mit.edu	37	chr4	134072659	134072659	+	Missense_Mutation	SNP	A	G	G	1	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	gatccaggtacaagtgtcggAtgtgaacgacaacgcgccgc	11	6	13	11	5	0	1	0	1	0	0	2	4	1	2	2	2	3	1	2	2	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:134072659A>G	uc003iha.2	+	1	2190	c.1364A>G	c.(1363-1365)GAT>GGT	p.D455G	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.D455G	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	455	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CAAGTGTCGGATGTGAACGAC	0.622													49	115					0	0	0.01441	0	0		G	134072659	G	G	134072659	3	3	191	1	0	0	0	0	1	0	0	0	11526	333	12	3	1366	3	PCDH10	4	134072659	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	11298488	134072659	57081617	229	95851											
PCDH18	54510	broad.mit.edu	37	chr4	138451760	138451760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcacttgcccattttctcCaagatcaggatctgtggctg	7	14	9	11	0	4	1	2	0	2	1	5	2	4	2	2	2	1	1	2	2	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:138451760C>T	uc003ihe.3	-	1	1870	c.1483G>A	c.(1483-1485)GGA>AGA	p.G495R	PCDH18_uc003ihf.3_Missense_Mutation_p.G488R|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.G275R|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	495	Extracellular (Potential).|Cadherin 5.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					CCATTTTCTCCAAGATCAGGA	0.413													51	120					0	0	0.01441	0	0		T	138451760	T	T	138451760	3	4	191	1	0	0	0	0	1	0	0	0	11532	603	21	4	1940	4	PCDH18	4	138451760	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4379101	138451760	52702516	230	95852											
DCLK2	166614	broad.mit.edu	37	chr4	151000401	151000401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagaaggccaagaaggcGcgcttctaccggaacgggga	13	3	16	9	4	1	3	0	0	1	3	1	6	1	5	2	5	2	1	2	5	6	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:151000401G>A	uc003ilm.3	+	1	322	c.222G>A	c.(220-222)GCG>GCA	p.A74A	DCLK2_uc003iln.3_Silent_p.A74A|DCLK2_uc003ilo.3_Silent_p.A74A|DCLK2_uc003ilp.3_RNA	NM_001040260	NP_001035350	Q8N568	DCLK2_HUMAN	doublecortin-like kinase 2 isoform a	74	Doublecortin 1.				intracellular signal transduction	cytoplasm|cytoskeleton	ATP binding|protein serine/threonine kinase activity			ovary(3)	3	all_hematologic(180;0.151)					CCAAGAAGGCGCGCTTCTACC	0.647													6	11					0	0	0.001168	0	0		A	151000401	A	A	151000401	2	1	191	1	0	0	0	0	0	0	0	1	4295	1074	38	1		1	DCLK2	4	151000401	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	12548641	151000401	40153875	231	95853											
SFRP2	6423	broad.mit.edu	37	chr4	154709663	154709663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcatggctggatggtctCgtctaggtcatcgaggcaga	7	10	16	8	2	3	1	1	0	2	1	5	3	3	2	0	6	0	3	0	6	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:154709663C>T	uc003inv.1	-	1	566	c.325G>A	c.(325-327)GAG>AAG	p.E109K		NM_003013	NP_003004	Q96HF1	SFRP2_HUMAN	secreted frizzled-related protein 2 precursor	109	FZ.				brain development|cardiac left ventricle morphogenesis|cell-cell signaling|dermatome development|hemopoietic stem cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|negative regulation of cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell adhesion mediated by integrin|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of fat cell differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of stem cell division|sclerotome development	cytoplasm|extracellular matrix|extracellular space|plasma membrane	fibronectin binding|integrin binding|PDZ domain binding|receptor agonist activity|Wnt receptor activity|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.093)	Renal(120;0.117)				TGGATGGTCTCGTCTAGGTCA	0.652													40	106					0	0	0.009718	0	0		T	154709663	T	T	154709663	3	4	191	1	0	0	0	0	1	0	0	0	14187	893	31	1	574	1	SFRP2	4	154709663	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3709262	154709663	36444613	232	95854											
GRIA2	2891	broad.mit.edu	37	chr4	158224724	158224724	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctcccagttttcgagaGgagtctatgctatttttgga	7	16	10	8	1	2	1	0	0	2	1	4	4	3	3	1	2	2	3	1	2	2	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:158224724G>A	uc003ipm.3	+	3	709	c.250G>A	c.(250-252)GGA>AGA	p.G84R	GRIA2_uc011cit.1_Missense_Mutation_p.G37R|GRIA2_uc003ipl.3_Missense_Mutation_p.G84R|GRIA2_uc003ipk.3_Missense_Mutation_p.G37R|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	84	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	GTTTTCGAGAGGAGTCTATGC	0.378													47	92					0	0	0.011902	0	0		A	158224724	A	A	158224724	3	1	191	1	0	0	0	0	1	0	0	0	6784	1001	35	4	260	4	GRIA2	4	158224724	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3515061	158224724	32929552	233	95855											
GRIA2	2891	broad.mit.edu	37	chr4	158233935	158233935	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgacaagaaagatgagatgTaccgatcactttttcaagat	16	11	8	6	1	2	5	2	2	0	4	2	7	2	5	1	0	1	1	1	0	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:158233935T>C	uc003ipm.3	+	4	1033	c.574T>C	c.(574-576)TAC>CAC	p.Y192H	GRIA2_uc011cit.1_Missense_Mutation_p.Y145H|GRIA2_uc003ipl.3_Missense_Mutation_p.Y192H|GRIA2_uc003ipk.3_Missense_Mutation_p.Y145H|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	192	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	AGATGAGATGTACCGATCACT	0.403													20	74					0	0	0.010504	0	0		C	158233935	C	C	158233935	3	2	191	1	0	0	0	0	1	0	0	0	6784	1638	57	3	588	3	GRIA2	4	158233935	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	9211	158233935	32920341	234	95856											
TLL1	7092	broad.mit.edu	37	chr4	166913974	166913974	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggacttggagaccatgCtatgtcaaagaagcgagggg	12	7	16	6	1	1	2	1	0	0	2	1	5	1	3	1	5	2	1	1	5	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:166913974C>A	uc003irh.1	+	3	946	c.299C>A	c.(298-300)GCT>GAT	p.A100D	TLL1_uc011cjn.1_Missense_Mutation_p.A100D|TLL1_uc011cjo.1_5'UTR	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	100					cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		GGAGACCATGCTATGTCAAAG	0.358													16	55					1.01871e-10	1.14046e-10	0.008871	1	0		A	166913974	A	A	166913974	3	1	191	1	0	0	0	0	1	0	0	0	15970	797	28	5	309	5	TLL1	4	166913974	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	8680039	166913974	24240302	235	95857											
TLL1	7092	broad.mit.edu	37	chr4	166986981	166986981	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcaaatctgacaatactgtAtccaagaagggcttcaaagc	15	10	7	9	0	3	2	2	1	1	1	4	2	4	2	1	1	2	2	1	1	7	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:166986981A>G	uc003irh.1	+	16	2801	c.2154A>G	c.(2152-2154)GTA>GTG	p.V718V	TLL1_uc011cjn.1_Silent_p.V741V|TLL1_uc011cjo.1_Silent_p.V542V	NM_012464	NP_036596	O43897	TLL1_HUMAN	tolloid-like 1 precursor	718	CUB 3.				cell differentiation|proteolysis|skeletal system development	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7	all_hematologic(180;0.221)	Melanoma(52;0.0315)|Prostate(90;0.0405)		GBM - Glioblastoma multiforme(119;0.103)		ACAATACTGTATCCAAGAAGG	0.363													38	76					0	0	0.009718	0	0		G	166986981	G	G	166986981	2	3	191	1	0	0	0	0	0	0	0	1	15970	436	16	3		3	TLL1	4	166986981	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	73007	166986981	24167295	236	95858											
SORBS2	8470	broad.mit.edu	37	chr4	186578702	186578702	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagggggatagagctgctgGtggtgccatccagagactgc	9	7	16	9	0	0	2	0	0	0	2	1	4	1	3	2	4	4	2	2	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr4:186578702G>C	uc003iyl.2	-	6	1001	c.143C>G	c.(142-144)ACC>AGC	p.T48S	SORBS2_uc003iyh.2_Missense_Mutation_p.T227S|SORBS2_uc011ckw.1_Missense_Mutation_p.T117S|SORBS2_uc003iyi.2_Missense_Mutation_p.T134S|SORBS2_uc011ckx.1_Missense_Mutation_p.T94S|SORBS2_uc003iyk.2_Missense_Mutation_p.T134S|SORBS2_uc003iym.2_Missense_Mutation_p.T148S|SORBS2_uc003iyn.1_Missense_Mutation_p.T94S|SORBS2_uc011cky.1_Missense_Mutation_p.T111S|SORBS2_uc003iyp.2_Missense_Mutation_p.T148S|SORBS2_uc011cku.1_5'Flank|SORBS2_uc011ckv.1_5'Flank|SORBS2_uc003iyd.2_Missense_Mutation_p.T227S|SORBS2_uc003iye.2_Missense_Mutation_p.T48S|SORBS2_uc003iya.2_Missense_Mutation_p.T48S|SORBS2_uc003iyb.2_Missense_Mutation_p.T48S|SORBS2_uc003iyc.2_Missense_Mutation_p.T48S|SORBS2_uc003iyg.2_Missense_Mutation_p.T134S|SORBS2_uc003iyf.2_Missense_Mutation_p.T111S|SORBS2_uc003iyo.1_5'Flank	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	48						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		AGAGCTGCTGGTGGTGCCATC	0.522													15	48					0	0	0.00499	0	0		C	186578702	C	C	186578702	3	2	191	1	0	0	0	0	1	0	0	0	14953	1261	44	5	3563	5	SORBS2	4	186578702	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	19591721	186578702	4575574	237	95859											
TERT	7015	broad.mit.edu	37	chr5	1294898	1294898	+	Frame_Shift_Del	DEL	G	-	-																															aggcccacctggcggaaggaGggggcggcggggggcggccg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:1294898delG	uc003jcb.1	-	1	265	c.207delC	c.(205-207)CCCfs	p.P69fs	TERT_uc003jca.1_Frame_Shift_Del_p.P69fs|TERT_uc003jcc.1_Frame_Shift_Del_p.P69fs|TERT_uc003jcd.1_RNA|TERT_uc003jce.1_RNA	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	69	RNA-interacting domain 1.|GQ motif.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			GGCGGAAGGAgggggcggcgg	0.682									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				6	11	---	---	---	---						.	-	1294898	-	-	1294898	7	5	191	1	0	1	0	1	0	0	0	0	15789	987	35	0	3255	0	TERT	5	1294898	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08		1294898	179620362	238	95860											
DNAH5	1767	broad.mit.edu	37	chr5	13809168	13809168	+	Silent	SNP	A	G	G	1	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	cataccttgccctgtttagcAatggtttgaattagaaagtc	11	14	8	8	0	0	2	0	1	0	1	1	2	0	2	2	1	3	3	2	1	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:13809168A>G	uc003jfd.2	-	46	7779	c.7737T>C	c.(7735-7737)ATT>ATC	p.I2579I		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2579	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CCTGTTTAGCAATGGTTTGAA	0.368									Kartagener_syndrome				14	72					0	0	0.004007	0	0		G	13809168	G	G	13809168	2	3	191	1	0	0	0	0	0	0	0	1	4610	126	5	3		3	DNAH5	5	13809168	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	12514270	13809168	167106092	239	95861											
DNAH5	1767	broad.mit.edu	37	chr5	13811783	13811783	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatcaggccttgaagcatGttaatgctctgtgtgatgac	10	12	12	7	0	2	3	1	3	1	0	2	4	2	4	1	2	2	3	1	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:13811783G>A	uc003jfd.2	-	44	7422	c.7380C>T	c.(7378-7380)AAC>AAT	p.N2460N		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2460					microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CTTGAAGCATGTTAATGCTCT	0.418									Kartagener_syndrome				7	41					0	0	0.004482	0	0		A	13811783	A	A	13811783	2	1	191	1	0	0	0	0	0	0	0	1	4610	1368	48	4		4	DNAH5	5	13811783	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2615	13811783	167103477	240	95862											
ZNF622	90441	broad.mit.edu	37	chr5	16453248	16453248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagtatctcatcaaggagcGatgacccactctggcacctg	10	9	10	12	1	3	1	2	1	2	0	4	3	3	2	2	2	1	3	2	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:16453248G>A	uc003jfq.2	-	5	1300	c.1180C>T	c.(1180-1182)CGC>TGC	p.R394C		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	394						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						ATCAAGGAGCGATGACCCACT	0.463													7	111					0	0	0.00308	0	0		A	16453248	A	A	16453248	3	1	191	1	0	0	0	0	1	0	0	0	18071	1058	37	1	261	1	ZNF622	5	16453248	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2641465	16453248	164462012	241	95863											
CDH18	1016	broad.mit.edu	37	chr5	19571934	19571934	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgacttctttttctcatagTtcagtggctgtggggaaaaa	10	15	10	6	0	3	1	2	1	2	0	4	2	3	2	0	3	0	2	0	3	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:19571934T>C	uc003jgc.2	-	7	1384	c.1007A>G	c.(1006-1008)AAC>AGC	p.N336S	CDH18_uc003jgd.2_Missense_Mutation_p.N336S|CDH18_uc011cnm.1_Missense_Mutation_p.N336S	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	336	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TTTCTCATAGTTCAGTGGCTG	0.299													11	38					0	0	0.008291	0	0		C	19571934	C	C	19571934	3	2	191	1	0	0	0	0	1	0	0	0	3106	1725	60	3	1389	3	CDH18	5	19571934	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	3118686	19571934	161343326	242	95864											
CDH12	1010	broad.mit.edu	37	chr5	21975261	21975261	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccaaaaactttggctcattAtcattaatatcctgcacttt	12	16	3	10	0	2	0	2	0	0	0	4	0	4	0	2	1	2	2	2	1	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:21975261A>G	uc010iuc.2	-	3	923	c.465T>C	c.(463-465)GAT>GAC	p.D155D	CDH12_uc011cno.1_Silent_p.D155D|CDH12_uc003jgk.2_Silent_p.D155D	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	155	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TTGGCTCATTATCATTAATAT	0.418										HNSCC(59;0.17)			18	85					0	0	0.007413	0	0		G	21975261	G	G	21975261	2	3	191	1	0	0	0	0	0	0	0	1	3101	446	16	3		3	CDH12	5	21975261	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2403327	21975261	158939999	243	95865											
PDZD2	23037	broad.mit.edu	37	chr5	32074276	32074276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccaagaggaacgacccCggaaaacactggtgagcaag	17	2	11	11	2	0	2	0	1	0	1	0	5	0	4	3	3	4	1	3	3	6	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:32074276C>T	uc003jhl.2	+	18	3452	c.3064C>T	c.(3064-3066)CGG>TGG	p.R1022W	PDZD2_uc003jhm.2_Missense_Mutation_p.R1022W|PDZD2_uc011cnx.1_Missense_Mutation_p.R848W	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1022					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGAACGACCCCGGAAAACACT	0.577													9	70					0	0	0.004482	0	0		T	32074276	T	T	32074276	3	4	191	1	0	0	0	0	1	0	0	0	11720	643	23	1	3130	1	PDZD2	5	32074276	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	10099015	32074276	148840984	244	95866											
RXFP3	51289	broad.mit.edu	37	chr5	33937425	33937425	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgaagagccaccggaccCgaggacacggccggggcgac	9	2	15	15	5	1	2	0	1	1	1	1	6	1	4	4	5	1	0	4	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:33937425C>T	uc003jic.1	+	1	937	c.580C>T	c.(580-582)CGA>TGA	p.R194*		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	194	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CCACCGGACCCGAGGACACGG	0.657													14	45					0	0	0.00499	0	0		T	33937425	T	T	33937425	4	4	191	1	0	0	0	0	0	1	0	0	13786	644	23	1	582	1	RXFP3	5	33937425	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1863149	33937425	146977835	245	95867											
RXFP3	51289	broad.mit.edu	37	chr5	33938066	33938066	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagcctgctgtggcgcatCgcgtctccttcgatcaccag	7	9	11	14	4	2	1	1	0	1	1	5	2	2	1	3	1	2	2	3	1	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:33938066C>T	uc003jic.1	+	1	1578	c.1221C>T	c.(1219-1221)ATC>ATT	p.I407I		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	407	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						TGTGGCGCATCGCGTCTCCTT	0.572													20	39					0	0	0.010504	0	0		T	33938066	T	T	33938066	2	4	191	1	0	0	0	0	0	0	0	1	13786	874	31	1		1	RXFP3	5	33938066	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	641	33938066	146977194	246	95868											
NIPBL	25836	broad.mit.edu	37	chr5	36976448	36976448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attggctgaaattgagcgaaTagagagagaatcagctattg	15	10	12	4	1	1	4	1	2	0	2	1	7	1	4	0	1	2	2	0	1	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:36976448T>C	uc003jkl.3	+	9	1938	c.1439T>C	c.(1438-1440)ATA>ACA	p.I480T	NIPBL_uc003jkk.3_Missense_Mutation_p.I480T|NIPBL_uc003jkm.1_Missense_Mutation_p.I359T	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	480					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			ATTGAGCGAATAGAGAGAGAA	0.383													19	43					0	0	0.010504	0	0		C	36976448	C	C	36976448	3	2	191	1	0	0	0	0	1	0	0	0	10447	1406	49	3	1469	3	NIPBL	5	36976448	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	3038382	36976448	143938812	247	95869											
DAB2	1601	broad.mit.edu	37	chr5	39388902	39388902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcacatattaatacataccGatttcagtttgttagtttgg	11	17	7	6	1	2	0	2	0	0	0	2	1	2	0	1	1	2	3	1	1	5	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:39388902G>A	uc003jlx.2	-	8	1154	c.623C>T	c.(622-624)TCG>TTG	p.S208L	DAB2_uc003jlw.2_Missense_Mutation_p.S208L	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	208					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			AATACATACCGATTTCAGTTT	0.338													13	43					0	0	0.001855	0	0		A	39388902	A	A	39388902	3	1	191	1	0	0	0	0	1	0	0	0	4221	1072	37	1	1717	1	DAB2	5	39388902	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2412454	39388902	141526358	248	95870											
IL31RA	133396	broad.mit.edu	37	chr5	55168250	55168251	+	Frame_Shift_Del	DEL	AT	-	-																															agatggtgtaattaaatctcAtatgacatactggagattag																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:55168250_55168251delAT	uc003jql.2	+	4	490_491	c.425_426delAT	c.(424-426)CATfs	p.H142fs	IL31RA_uc003jqk.2_Frame_Shift_Del_p.H142fs|IL31RA_uc011cqj.1_5'UTR|IL31RA_uc003jqm.2_Frame_Shift_Del_p.H110fs|IL31RA_uc003jqn.2_Frame_Shift_Del_p.H142fs|IL31RA_uc010iwa.1_Frame_Shift_Del_p.H110fs|IL31RA_uc003jqo.2_5'UTR	NM_139017	NP_620586	Q8NI17	IL31R_HUMAN	gp130-like monocyte receptor	110	Extracellular (Potential).|Fibronectin type-III 1.				anti-apoptosis|defense response|homeostatic process|JAK-STAT cascade|macrophage differentiation|MAPKKK cascade|monocyte differentiation|negative regulation of macrophage activation|positive regulation of cell proliferation|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|transmembrane receptor protein tyrosine kinase signaling pathway	integral to membrane|plasma membrane	cytokine receptor activity|protein kinase binding|transcription coactivator activity			ovary(1)	1		Lung NSC(810;6.93e-05)|Prostate(74;0.00741)|Breast(144;0.0544)|Ovarian(174;0.223)				ATTAAATCTCATATGACATACT	0.347													29	65	---	---	---	---						.	-	55168251	-	-	55168250	7	5	191	1	0	1	0	1	0	0	0	0	7707	217	8	0	439	0	IL31RA	5	55168250	Frame_Shift_Del	DEL	AT	TCGA-F1-6874-01A-11D-1882-08	15779348	55168250	125747010	249	95871											
IPO11	51194	broad.mit.edu	37	chr5	61763069	61763069	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caattttgagttcactagaaCgaacactgctatcattgaaa	15	12	6	8	1	2	3	2	2	0	1	2	4	2	3	0	0	3	2	0	0	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:61763069C>T	uc003jtc.2	+	6	818	c.628C>T	c.(628-630)CGA>TGA	p.R210*	IPO11_uc011cqr.1_Nonsense_Mutation_p.R250*|IPO11_uc003jtb.1_Nonsense_Mutation_p.R210*	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	210	HEAT 2.					cytoplasm|nucleus	protein binding			lung(2)|skin(2)	4		Lung NSC(810;8.99e-06)|Prostate(74;0.0235)|Ovarian(174;0.0511)|Breast(144;0.077)		Lung(70;0.0613)		TTCACTAGAACGAACACTGCT	0.373													26	58					0	0	0.00632	0	0		T	61763069	T	T	61763069	4	4	191	1	0	0	0	0	0	1	0	0	7809	528	19	1	770	1	IPO11	5	61763069	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6594819	61763069	119152191	250	95872											
RGNEF	64283	broad.mit.edu	37	chr5	73205327	73205327	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcggccactctatcctcCgaggcggccccttgcaggac	5	8	10	18	3	2	0	0	0	2	0	5	2	4	1	5	4	1	1	5	4	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:73205327C>T	uc011csq.1	+	33	4263	c.4252C>T	c.(4252-4254)CGA>TGA	p.R1418*	RGNEF_uc003kcx.2_Nonsense_Mutation_p.R1418*|RGNEF_uc010izf.2_Nonsense_Mutation_p.R1418*|RGNEF_uc011csr.1_Nonsense_Mutation_p.R1105*|RGNEF_uc003kcz.3_Nonsense_Mutation_p.R382*|RGNEF_uc003kda.3_Nonsense_Mutation_p.R338*	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	1418					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		CTCTATCCTCCGAGGCGGCCC	0.627													7	21					0	0	0.001984	0	0		T	73205327	T	T	73205327	4	4	191	1	0	0	0	0	0	1	0	0	13308	644	23	1	4382	1	RGNEF	5	73205327	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	11442258	73205327	107709933	251	95873											
SEMA6A	57556	broad.mit.edu	37	chr5	115783169	115783169	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccaggtggtgctggtctgCtttaatgagcatcttggccg	5	13	14	9	1	2	1	0	1	2	0	3	1	3	1	2	4	3	3	2	4	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:115783169C>A	uc010jck.2	-	19	2942	c.2233G>T	c.(2233-2235)GCA>TCA	p.A745S	SEMA6A_uc003krx.3_Missense_Mutation_p.A762S|SEMA6A_uc011cwe.1_Missense_Mutation_p.A124S|SEMA6A_uc003krv.3_Missense_Mutation_p.A172S|SEMA6A_uc003krw.3_Missense_Mutation_p.A222S|SEMA6A_uc010jcj.2_Missense_Mutation_p.A289S	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	745	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		TGCTGGTCTGCTTTAATGAGC	0.637													92	234					9.79205e-48	1.16274e-47	0.01441	1	0		A	115783169	A	A	115783169	3	1	191	1	0	0	0	0	1	0	0	0	14064	797	28	5	863	5	SEMA6A	5	115783169	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	42577842	115783169	65132091	252	95874											
CDC23	8697	broad.mit.edu	37	chr5	137533959	137533959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagccagataactcaactccGatttcatgctctgggataaa	13	10	8	10	1	3	1	2	0	1	1	4	4	4	2	2	1	4	1	2	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:137533959G>A	uc003lcl.2	-	9	972	c.941C>T	c.(940-942)TCG>TTG	p.S314L		NM_004661	NP_004652	Q9UJX2	CDC23_HUMAN	cell division cycle protein 23	314					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1 phase of mitotic cell cycle|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase plate congression|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination|regulation of exit from mitosis	anaphase-promoting complex|cytosol|nucleoplasm	binding|ubiquitin-protein ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			ACTCAACTCCGATTTCATGCT	0.328													39	90					0	0	0.01441	0	0		A	137533959	A	A	137533959	3	1	191	1	0	0	0	0	1	0	0	0	3064	1059	37	1	884	1	CDC23	5	137533959	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	21750790	137533959	43381301	253	95875											
EGR1	1958	broad.mit.edu	37	chr5	137803660	137803660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgttccccctgctttcccgGcccaggtcagcagcttccct	3	11	8	19	1	1	0	1	0	0	0	4	0	4	0	5	2	3	4	5	2	0	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:137803660G>A	uc003ldb.1	+	2	1792	c.1522G>A	c.(1522-1524)GCC>ACC	p.A508T	EGR1_uc011cyu.1_Silent_p.R164R	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	508					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TGCTTTCCCGGCCCAGGTCAG	0.502													21	210					0	0	0.010504	0	0		A	137803660	A	A	137803660	3	1	191	1	0	0	0	0	1	0	0	0	4977	1203	42	2	1528	2	EGR1	5	137803660	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	269701	137803660	43111600	254	95876											
PCDHA3	56145	broad.mit.edu	37	chr5	140183010	140183010	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcccacgctggtgtgctccaGcgcggtggggagctggtcat	4	8	17	12	3	1	0	1	0	0	0	2	1	2	1	2	5	3	3	2	5	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:140183010G>A	uc003lhf.2	+	1	2228	c.2228G>A	c.(2227-2229)AGC>AAC	p.S743N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.S743N	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	743	Cytoplasmic (Potential).|6 X 4 AA repeats of P-X-X-P.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGTGCTCCAGCGCGGTGGGG	0.637													33	163					0	0	0.013726	0	0		A	140183010	A	A	140183010	3	1	191	1	0	0	0	0	1	0	0	0	11544	971	34	2	2230	2	PCDHA3	5	140183010	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2379350	140183010	40732250	255	95877											
PCDHA9	9752	broad.mit.edu	37	chr5	140229418	140229418	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgtctgtggaggtggcCgacgtgaacgacaacgcacc	9	6	16	10	4	1	1	0	1	1	0	1	4	1	2	2	4	2	1	2	4	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:140229418C>T	uc003lhu.2	+	1	2062	c.1338C>T	c.(1336-1338)GCC>GCT	p.A446A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.A446A	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	446	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGAGGTGGCCGACGTGAACG	0.662													21	146					0	0	0.008871	0	0		T	140229418	T	T	140229418	2	4	191	1	0	0	0	0	0	0	0	1	11550	639	23	1		1	PCDHA9	5	140229418	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	46408	140229418	40685842	256	95878											
PCDHA10	56139	broad.mit.edu	37	chr5	140237615	140237615	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagccgtcgctgacggccaCggccactgtgcttgtgtcgc	4	8	14	15	6	0	1	0	1	0	0	2	2	0	1	3	2	2	2	3	2	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:140237615C>T	uc003lhx.2	+	1	1982	c.1982C>T	c.(1981-1983)ACG>ATG	p.T661M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Missense_Mutation_p.T661M	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	661	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGACGGCCACGGCCACTGTG	0.682													18	40					0	0	0.00499	0	0		T	140237615	T	T	140237615	3	4	191	1	0	0	0	0	1	0	0	0	11539	536	19	1	1984	1	PCDHA10	5	140237615	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	8197	140237615	40677645	257	95879											
PCDHB9	56127	broad.mit.edu	37	chr5	140568926	140568926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctcccggaggcggccccgGcccaggcccaggccgacttg	4	4	14	19	4	1	0	0	0	1	0	2	2	1	1	6	6	0	0	6	6	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:140568926G>A	uc003liw.1	+	3	2035	c.2035G>A	c.(2035-2037)GCC>ACC	p.A679T		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	679	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGGCCCCGGCCCAGGCCCA	0.701													31	181					0	0	0.01441	0	0		A	140568926	A	A	140568926	3	1	191	1	0	0	0	0	1	0	0	0	11568	1190	42	2	2036	2	PCDHB9	5	140568926	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	331311	140568926	40346334	258	95880											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755201	140755201	+	Silent	SNP	G	A	A	0	0	1	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	actgggattctgtacgccctGcgctccttcgactatgagca	7	11	10	13	3	1	1	0	1	1	0	3	3	2	2	2	1	3	3	2	1	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:140755201G>A	uc003ljy.1	+	1	1551	c.1551G>A	c.(1549-1551)CTG>CTA	p.L517L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.L517L	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	517	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTACGCCCTGCGCTCCTTCG	0.607													56	214					0	0	0.01441	0	0		A	140755201	A	A	140755201	2	1	191	1	0	0	0	0	0	0	0	1	11577	1306	46	2		2	PCDHGA6	5	140755201	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	186275	140755201	40160059	259	95881											
PCDHGA12	26025	broad.mit.edu	37	chr5	140810726	140810726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgacaatgcgccttactttCgtgaaagtgaattagaaata	15	11	8	7	3	0	3	0	2	0	1	1	4	0	3	1	0	2	0	1	0	7	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:140810726C>T	uc003lkt.1	+	1	569	c.400C>T	c.(400-402)CGT>TGT	p.R134C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.R134C	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	134	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCTTACTTTCGTGAAAGTGA	0.408													57	139					0	0	0.01441	0	0		T	140810726	T	T	140810726	3	4	191	1	0	0	0	0	1	0	0	0	11572	884	31	1	402	1	PCDHGA12	5	140810726	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	55525	140810726	40104534	260	95882											
PCDH1	5097	broad.mit.edu	37	chr5	141242828	141242828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtatttgggggggttggtgCggtagctgtagtcggagtac	5	12	20	4	2	0	0	0	0	0	0	1	1	0	1	0	7	3	6	0	7	4	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:141242828C>T	uc003llq.2	-	3	3185	c.3068G>A	c.(3067-3069)CGC>CAC	p.R1023H	PCDH1_uc003llp.2_Missense_Mutation_p.R1023H|PCDH1_uc011dbf.1_Missense_Mutation_p.R1001H	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	1023	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		GGGGTTGGTGCGGTAGCTGTA	0.632													18	59					0	0	0.010504	0	0		T	141242828	T	T	141242828	3	4	191	1	0	0	0	0	1	0	0	0	11525	768	27	1	741	1	PCDH1	5	141242828	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	432102	141242828	39672432	261	95883											
SPRY4	81848	broad.mit.edu	37	chr5	141693947	141693947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcaggcagggcagcaccaCggagagagcacccatgaagg	13	1	16	11	1	0	2	0	1	0	1	0	5	0	3	2	4	3	5	2	4	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:141693947C>T	uc003lml.2	-	2	986	c.727G>A	c.(727-729)GTG>ATG	p.V243M	SPRY4_uc010jgi.1_Missense_Mutation_p.V266M	NM_001127496	NP_001120968	Q9C004	SPY4_HUMAN	sprouty homolog 4 isoform 2	243	Cys-rich.|SPR.				multicellular organismal development	cytoplasm|ruffle membrane	protein binding			ovary(1)|lung(1)	2		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCAGCACCACGGAGAGAGCA	0.682									Testicular_Cancer_Familial_Clustering_of				9	26					0	0	0.004482	0	0		T	141693947	T	T	141693947	3	4	191	1	0	0	0	0	1	0	0	0	15133	536	19	1	176	1	SPRY4	5	141693947	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	451119	141693947	39221313	262	95884											
POU4F3	5459	broad.mit.edu	37	chr5	145719802	145719802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caagccagagctcttcaacgGcagcgaacggaagcgcaaac	14	3	11	13	4	2	1	1	0	1	1	2	3	2	2	1	2	7	3	1	2	5	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:145719802G>A	uc003loa.2	+	2	901	c.812G>A	c.(811-813)GGC>GAC	p.G271D		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	271					sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTCTTCAACGGCAGCGAACGG	0.597													32	53					0	0	0.003755	0	0		A	145719802	A	A	145719802	3	1	191	1	0	0	0	0	1	0	0	0	12299	1203	42	2	818	2	POU4F3	5	145719802	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4025855	145719802	35195458	263	95885											
GPR151	134391	broad.mit.edu	37	chr5	145895164	145895164	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgctaaagaaccattcCggcaggggtaacaggctagc	12	7	13	9	1	0	1	0	0	0	1	1	1	1	1	2	5	4	4	2	5	5	4	rs111754680		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:145895164C>T	uc003lod.1	-	1	513	c.513G>A	c.(511-513)CCG>CCA	p.P171P		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	171	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGAACCATTCCGGCAGGGGTA	0.512													16	51					0	0	0.003163	0	0		T	145895164	T	T	145895164	2	4	191	1	0	0	0	0	0	0	0	1	6672	639	23	1		1	GPR151	5	145895164	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	175362	145895164	35020096	264	95886											
PPP2R2B	5521	broad.mit.edu	37	chr5	145969561	145969561	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatttgtagccgccactgcTataatattttctgaaggatg	10	16	8	7	1	1	1	0	1	1	0	1	2	1	2	2	1	2	2	2	1	6	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:145969561T>C	uc003loe.2	-	9	1806	c.1281A>G	c.(1279-1281)ATA>ATG	p.I427M	PPP2R2B_uc010jgm.2_Missense_Mutation_p.I416M|PPP2R2B_uc003log.3_Missense_Mutation_p.I427M|PPP2R2B_uc003lof.3_Missense_Mutation_p.I427M|PPP2R2B_uc003loi.3_Missense_Mutation_p.I430M|PPP2R2B_uc003loh.3_Missense_Mutation_p.I427M|PPP2R2B_uc003loj.3_Missense_Mutation_p.I407M|PPP2R2B_uc003lok.3_Missense_Mutation_p.I416M|PPP2R2B_uc011dbu.1_Missense_Mutation_p.I433M|PPP2R2B_uc011dbv.1_Missense_Mutation_p.I485M	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein	427	WD 7.				apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CCGCCACTGCTATAATATTTT	0.403													61	144					0	0	0.01441	0	0		C	145969561	C	C	145969561	3	2	191	1	0	0	0	0	1	0	0	0	12407	1512	53	3	54	3	PPP2R2B	5	145969561	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	74397	145969561	34945699	265	95887											
PPP2R2B	5521	broad.mit.edu	37	chr5	145969731	145969731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcctcaagggtcacatcacGcttggtgtttctgtcgaaca	9	11	10	11	2	4	0	3	0	1	0	5	1	4	0	1	2	2	2	1	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:145969731G>A	uc003loe.2	-	9	1636	c.1111C>T	c.(1111-1113)CGT>TGT	p.R371C	PPP2R2B_uc010jgm.2_Missense_Mutation_p.R360C|PPP2R2B_uc003log.3_Missense_Mutation_p.R371C|PPP2R2B_uc003lof.3_Missense_Mutation_p.R371C|PPP2R2B_uc003loi.3_Missense_Mutation_p.R374C|PPP2R2B_uc003loh.3_Missense_Mutation_p.R371C|PPP2R2B_uc003loj.3_Missense_Mutation_p.R351C|PPP2R2B_uc003lok.3_Missense_Mutation_p.R360C|PPP2R2B_uc011dbu.1_Missense_Mutation_p.R377C|PPP2R2B_uc011dbv.1_Missense_Mutation_p.R429C	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein	371	WD 6.				apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GTCACATCACGCTTGGTGTTT	0.512													10	100					0	0	0.006214	0	0		A	145969731	A	A	145969731	3	1	191	1	0	0	0	0	1	0	0	0	12407	1087	38	1	224	1	PPP2R2B	5	145969731	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	170	145969731	34945529	266	95888											
SPINK5	11005	broad.mit.edu	37	chr5	147488329	147488329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	attacagcaaacttgaagaaGaagagaagaaaaatgataaa	24	6	8	3	0	0	6	0	2	0	4	0	7	0	6	0	0	3	1	0	0	10	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:147488329G>A	uc003lox.2	+	18	1694	c.1621G>A	c.(1621-1623)GAA>AAA	p.E541K	SPINK5_uc010jgs.1_Missense_Mutation_p.E513K|SPINK5_uc010jgr.2_Missense_Mutation_p.E522K|SPINK5_uc003low.2_Missense_Mutation_p.E541K|SPINK5_uc003loy.2_Missense_Mutation_p.E541K	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	541	Kazal-like 8.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTTgaagaagaagagaagaa	0.214													10	89					0	0	0.008291	0	0		A	147488329	A	A	147488329	3	1	191	1	0	0	0	0	1	0	0	0	15087	943	33	4	1691	4	SPINK5	5	147488329	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1518598	147488329	33426931	267	95889											
AFAP1L1	134265	broad.mit.edu	37	chr5	148680716	148680716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtgacctgagtgaccttCgggacatgccagaggatgat	10	9	13	9	1	0	5	0	4	0	1	1	7	0	7	3	2	1	0	3	2	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:148680716C>T	uc003lqh.2	+	4	381	c.250C>T	c.(250-252)CGG>TGG	p.R84W	AFAP1L1_uc003lqg.3_Missense_Mutation_p.R84W|AFAP1L1_uc010jgy.2_Missense_Mutation_p.R84W	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	84				R -> Q (in Ref. 2; BAC04664).			protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGTGACCTTCGGGACATGCC	0.473													51	65					0	0	0.01441	0	0		T	148680716	T	T	148680716	3	4	191	1	0	0	0	0	1	0	0	0	354	875	31	1	264	1	AFAP1L1	5	148680716	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1192387	148680716	32234544	268	95890											
CSF1R	1436	broad.mit.edu	37	chr5	149457719	149457719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatcaaagttaacatcaaCgctgctggctgagcacacga	14	7	9	11	2	2	1	2	1	0	0	2	3	2	1	0	1	4	5	0	1	3	1	rs149911279		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:149457719C>T	uc003lrl.2	-	4	880	c.685G>A	c.(685-687)GTT>ATT	p.V229I	CSF1R_uc011dcd.1_Missense_Mutation_p.V81I|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Missense_Mutation_p.V229I|CSF1R_uc011dce.1_Missense_Mutation_p.V229I|CSF1R_uc011dcf.1_Missense_Mutation_p.V229I	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	229	Extracellular (Potential).|Ig-like C2-type 3.				cell proliferation|multicellular organismal development|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane|receptor complex	ATP binding|cytokine binding|macrophage colony-stimulating factor receptor activity|protein homodimerization activity			haematopoietic_and_lymphoid_tissue(38)|lung(6)|central_nervous_system(3)|liver(3)|breast(2)|endometrium(1)|ovary(1)	54			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)		Imatinib(DB00619)|Sunitinib(DB01268)	TTAACATCAACGCTGCTGGCT	0.577													46	82					0	0	0.01441	0	0		T	149457719	T	T	149457719	3	4	191	1	0	0	0	0	1	0	0	0	3935	536	19	1	2305	1	CSF1R	5	149457719	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	777003	149457719	31457541	269	95891											
PDGFRB	5159	broad.mit.edu	37	chr5	149515386	149515386	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccgggggtgtgacgaccagGccctgagagatctgtggttc	6	8	16	11	2	1	3	0	2	1	1	2	5	1	3	3	4	0	1	3	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:149515386G>T	uc003lro.2	-	3	565	c.96C>A	c.(94-96)GGC>GGA	p.G32G	PDGFRB_uc010jhd.2_5'UTR|PDGFRB_uc011dcg.1_Silent_p.G32G	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	32					aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGACGACCAGGCCCTGAGAGA	0.582			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								9	34					0.000442599	0.000464645	0.006214	1	0		T	149515386	T	T	149515386	2	4	191	1	0	0	0	0	0	0	0	1	11681	1190	42	5		5	PDGFRB	5	149515386	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	57667	149515386	31399874	270	95892											
SYNPO	11346	broad.mit.edu	37	chr5	150028591	150028591	+	Missense_Mutation	SNP	A	C	C	1	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	tccaggcgccagggggcaccAgccagatggagaggagcccc	9	2	16	14	1	0	2	0	0	0	2	1	4	1	3	6	5	2	1	6	5	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:150028591A>C	uc003lsn.2	+	3	1860	c.1486A>C	c.(1486-1488)AGC>CGC	p.S496R	SYNPO_uc003lso.3_Missense_Mutation_p.S252R|SYNPO_uc003lsp.2_Missense_Mutation_p.S252R	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	496					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGGGGGCACCAGCCAGATGGA	0.642													22	71					0	0	0.012319	0	0		C	150028591	C	C	150028591	3	2	191	1	0	0	0	0	1	0	0	0	15481	188	7	5	1492	5	SYNPO	5	150028591	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	513205	150028591	30886669	271	95893											
GRIA1	2890	broad.mit.edu	37	chr5	153078575	153078575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtcagtgatggaaaatacgGagcccgagaccctgacacga	13	6	12	10	3	1	3	1	2	0	1	1	7	1	5	2	2	2	0	2	2	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:153078575G>A	uc003lva.3	+	10	1759	c.1394G>A	c.(1393-1395)GGA>GAA	p.G465E	GRIA1_uc003luy.3_Missense_Mutation_p.G465E|GRIA1_uc003luz.3_Missense_Mutation_p.G370E|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.G385E|GRIA1_uc011dcx.1_Missense_Mutation_p.G396E|GRIA1_uc011dcy.1_Missense_Mutation_p.G475E|GRIA1_uc011dcz.1_Missense_Mutation_p.G475E|GRIA1_uc010jia.1_Missense_Mutation_p.G445E	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	465	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGAAAATACGGAGCCCGAGAC	0.557													11	42					0	0	0.010729	0	0		A	153078575	A	A	153078575	3	1	191	1	0	0	0	0	1	0	0	0	6783	1174	41	4	1432	4	GRIA1	5	153078575	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3049984	153078575	27836685	272	95894											
KIF4B	285643	broad.mit.edu	37	chr5	154394333	154394333	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agattctctaggaggtaacaGccacactcttatgatagcct	12	11	8	10	0	2	2	0	1	2	1	3	3	2	3	2	2	3	1	2	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:154394333G>A	uc010jih.1	+	1	1074	c.914G>A	c.(913-915)AGC>AAC	p.S305N		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	305	Kinesin-motor.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GGAGGTAACAGCCACACTCTT	0.438													27	242					0	0	0.005443	0	0		A	154394333	A	A	154394333	3	1	191	1	0	0	0	0	1	0	0	0	8320	971	34	2	916	2	KIF4B	5	154394333	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1315758	154394333	26520927	273	95895											
ADRA1B	147	broad.mit.edu	37	chr5	159344355	159344355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgatcgctacatcggggtgcGctactctctgcagtatccca	7	10	10	14	4	1	0	0	0	1	0	5	1	2	0	1	2	4	4	1	2	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:159344355G>A	uc003lxt.1	+	1	616	c.443G>A	c.(442-444)CGC>CAC	p.R148H		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	148	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	ATCGGGGTGCGCTACTCTCTG	0.607													15	66					0	0	0.007413	0	0		A	159344355	A	A	159344355	3	1	191	1	0	0	0	0	1	0	0	0	335	1087	38	1	445	1	ADRA1B	5	159344355	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4950022	159344355	21570905	274	95896											
C1QTNF2	114898	broad.mit.edu	37	chr5	159781820	159781820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtcgtgtccatcttggcCgtctttgccaggaaagccca	6	10	11	14	3	2	0	0	0	2	0	4	1	3	1	5	2	2	0	5	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:159781820C>T	uc003lyd.2	-	2	338	c.334G>A	c.(334-336)GGC>AGC	p.G112S		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	67	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCATCTTGGCCGTCTTTGCCA	0.662													11	29					0	0	0.013537	0	0		T	159781820	T	T	159781820	3	4	191	1	0	0	0	0	1	0	0	0	1966	652	23	1	666	1	C1QTNF2	5	159781820	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	437465	159781820	21133440	275	95897											
NKX2-5	1482	broad.mit.edu	37	chr5	172660142	172660142	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcggcttcctccgccgtcgCgcccggggccgctccgcgtt	0	7	14	20	10	0	0	0	0	0	0	4	0	3	0	6	3	0	3	6	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:172660142C>T	uc003mcm.1	-	2	581	c.405G>A	c.(403-405)GCG>GCA	p.A135A	NKX2-5_uc011dfe.1_3'UTR|NKX2-5_uc010jjt.1_3'UTR	NM_004387	NP_004378	P52952	NKX25_HUMAN	NK2 transcription factor related, locus 5	135			A -> T (in ASD-AVCD; somatic mutation).		adult heart development|atrial cardiac muscle cell development|atrial septum morphogenesis|heart looping|hemopoiesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell apoptosis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|outflow tract septum morphogenesis|pharyngeal system development|positive regulation of calcium ion transport via voltage-gated calcium channel activity|positive regulation of cardioblast differentiation|positive regulation of cell proliferation|positive regulation of heart contraction|positive regulation of neuron differentiation|positive regulation of sodium ion transport|positive regulation of survival gene product expression|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription via serum response element binding|regulation of cardiac muscle contraction|right ventricular cardiac muscle tissue morphogenesis|septum secundum development|spleen development|thyroid gland development|vasculogenesis|ventricular septum morphogenesis		chromatin binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|serum response element binding|transcription factor binding			central_nervous_system(1)	1	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)			TCCGCCGTCGCGCCCGGGGCC	0.697													4	23					0	0	0.001168	0	0		T	172660142	T	T	172660142	2	4	191	1	0	0	0	0	0	0	0	1	10472	755	27	1		1	NKX2-5	5	172660142	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	12878322	172660142	8255118	276	95898											
TBC1D9B	23061	broad.mit.edu	37	chr5	179291087	179291087	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctccatggggtcttcactGaacatgttgtaaagcgtctt	8	14	10	9	1	3	1	1	1	2	0	4	1	4	1	1	2	3	3	1	2	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr5:179291087G>A	uc003mlh.2	-	22	3151	c.3114C>T	c.(3112-3114)TTC>TTT	p.F1038F	TBC1D9B_uc003mli.2_Silent_p.F1021F|TBC1D9B_uc003mlj.2_Silent_p.F1020F|TBC1D9B_uc003mlf.2_Silent_p.F112F|TBC1D9B_uc003mlg.2_Silent_p.F197F|TBC1D9B_uc011dgv.1_Silent_p.F197F	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1038						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGTCTTCACTGAACATGTTGT	0.552													5	43					0	0	0.001168	0	0		A	179291087	A	A	179291087	2	1	191	1	0	0	0	0	0	0	0	1	15653	1281	45	4		4	TBC1D9B	5	179291087	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6630945	179291087	1624173	277	95899											
IRF4	3662	broad.mit.edu	37	chr6	401689	401689	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagagcaggatctactgggaCgggcccctggcgctgtgcaa	8	6	15	12	2	1	1	0	0	1	1	1	3	1	3	2	4	3	3	2	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:401689C>T	uc003msz.3	+	7	1124	c.1011C>T	c.(1009-1011)GAC>GAT	p.D337D	IRF4_uc010jne.1_Silent_p.D337D|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Silent_p.D336D|IRF4_uc003mtc.1_Silent_p.D167D	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	337					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		TCTACTGGGACGGGCCCCTGG	0.602			T	IGH@	MM 								5	63					0	0	0.001984	0	0		T	401689	T	T	401689	2	4	191	1	0	0	0	0	0	0	0	1	7848	535	19	1		1	IRF4	6	401689	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08		401689	170713378	278	95900											
HUS1B	135458	broad.mit.edu	37	chr6	656756	656756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccttccatgcgaaactgctgGaaggccccctgccgcacctc	7	7	9	18	2	0	0	0	0	0	0	2	2	1	1	6	2	4	2	6	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:656756G>A	uc003mtg.2	-	1	209	c.189C>T	c.(187-189)TTC>TTT	p.F63F	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	63											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		GAAACTGCTGGAAGGCCCCCT	0.706													5	7					0	0	0.000602	0	0		A	656756	A	A	656756	2	1	191	1	0	0	0	0	0	0	0	1	7476	1165	41	4		4	HUS1B	6	656756	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	255067	656756	170458311	279	95901											
TDP2	51567	broad.mit.edu	37	chr6	24667067	24667067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccgcctccctcccgccCtccaggcaactccccaactc	5	6	5	25	3	0	0	0	0	0	0	6	0	5	0	9	1	2	1	9	1	2	0	rs140404711	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:24667067C>A	uc003nej.2	-	1	49	c.24G>T	c.(22-24)GAG>GAT	p.E8D	TDP2_uc003nei.2_5'Flank|TDP2_uc010jpu.1_Missense_Mutation_p.E8D|ACOT13_uc010jpv.2_5'Flank|ACOT13_uc003nek.2_5'Flank	NM_016614	NP_057698	O95551	TYDP2_HUMAN	TRAF and TNF receptor-associated protein	8					cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2						CCCTCCCGCCCTCCAGGCAAC	0.657								Direct_reversal_of_damage|Editing_and_processing_nucleases					48	122					5.82388e-19	6.74733e-19	0.01441	1	0		A	24667067	A	A	24667067	3	1	191	1	0	0	0	0	1	0	0	0	15754	680	24	5	1092	5	TDP2	6	24667067	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	24010311	24667067	146448000	280	95902											
HIST1H3E	8353	broad.mit.edu	37	chr6	26225781	26225781	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttgcccgccgcattcgtggGgagagggcgtgaattgtttt	5	12	15	9	4	0	2	0	1	0	1	1	3	0	2	2	3	1	2	2	3	1	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:26225781G>A	uc003nhb.2	+	2	759	c.399G>A	c.(397-399)GGG>GGA	p.G133G	HIST1H3E_uc003nhc.3_Silent_p.G133G	NM_021018	NP_066298	P68431	H31_HUMAN	histone cluster 1, H3f	133					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0		all_hematologic(11;0.0223)|Acute lymphoblastic leukemia(11;0.0351)				GCATTCGTGGGGAGAGGGCGT	0.512											OREG0017240	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	48					0	0	0.00632	0	0		A	26225781	A	A	26225781	2	1	191	1	0	0	0	0	0	0	0	1	7175	1219	43	4		4	HIST1H3E	6	26225781	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1558714	26225781	144889286	281	95903											
HIST1H1B	3009	broad.mit.edu	37	chr6	27835086	27835086	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttattcttctccacgtcGtagccaccggccgctaaggc	6	11	9	15	4	2	0	0	0	2	0	4	0	2	0	4	2	1	3	4	2	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:27835086G>A	uc003njx.2	-	1	274	c.222C>T	c.(220-222)TAC>TAT	p.Y74Y		NM_005322	NP_005313	P16401	H15_HUMAN	histone cluster 1, H1b	74	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding			large_intestine(2)|lung(1)	3						TCTCCACGTCGTAGCCACCGG	0.582													16	142					0	0	0.003163	0	0		A	27835086	A	A	27835086	2	1	191	1	0	0	0	0	0	0	0	1	7139	1140	40	1		1	HIST1H1B	6	27835086	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1609305	27835086	143279981	282	95904											
TRIM27	5987	broad.mit.edu	37	chr6	28872041	28872043	+	In_Frame_Del	DEL	AGA	-	-																															acacctctctgtcacgttgtAgaaggagacctcaccagcat																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:28872041_28872043delAGA	uc003nlr.2	-	8	1705_1707	c.1346_1348delTCT	c.(1345-1350)TTCTAC>TAC	p.F449del	TRIM27_uc003nls.2_In_Frame_Del_p.S356del|TRIM27_uc003nlt.1_3'UTR	NM_006510	NP_006501	P14373	TRI27_HUMAN	ret finger protein	449	B30.2/SPRY.				cell proliferation|negative regulation of gene expression, epigenetic|negative regulation of transcription from RNA polymerase II promoter|protein trimerization|spermatogenesis|transcription, DNA-dependent	cytoplasm|integral to plasma membrane|membrane fraction|nuclear membrane|PML body	DNA binding|protein binding|transmembrane receptor protein tyrosine kinase activity|zinc ion binding			ovary(1)	1						GTCACGTTGTAGAAGGAGACCTC	0.547			T	RET	papillary thyroid								52	84	---	---	---	---						.	-	28872043	-	-	28872041	7	5	191	1	0	1	0	1	0	0	0	0	16527	420	15	0	197	0	TRIM27	6	28872041	In_Frame_Del	DEL	AGA	TCGA-F1-6874-01A-11D-1882-08	1036955	28872041	142243026	283	95905											
GABBR1	2550	broad.mit.edu	37	chr6	29581117	29581117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccaggcgcacaccagaaCggccgcctcctccagatgtc	8	5	9	19	3	0	2	0	0	0	2	4	2	3	2	7	2	1	1	7	2	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:29581117C>T	uc003nmt.3	-	12	1805	c.1469G>A	c.(1468-1470)CGT>CAT	p.R490H	GABBR1_uc003nmp.3_Missense_Mutation_p.R373H|GABBR1_uc003nms.3_Missense_Mutation_p.R373H|GABBR1_uc003nmu.3_Missense_Mutation_p.R428H|GABBR1_uc011dlr.1_Missense_Mutation_p.R313H|GABBR1_uc011dls.1_Missense_Mutation_p.R490H	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	490	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	CACACCAGAACGGCCGCCTCC	0.577													38	52					0	0	0.005524	0	0		T	29581117	T	T	29581117	3	4	191	1	0	0	0	0	1	0	0	0	6169	536	19	1	1464	1	GABBR1	6	29581117	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	709076	29581117	141533950	284	95906											
ZFP57	346171	broad.mit.edu	37	chr6	29641302	29641302	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtcagcttgggattgtgaaCaaactggtggctatagaggt	11	11	14	5	0	1	2	1	1	0	1	1	3	1	3	0	4	3	2	0	4	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:29641302C>A	uc011dlw.1	-	4	737	c.586G>T	c.(586-588)GTT>TTT	p.V196F	ZFP57_uc003nnl.3_Missense_Mutation_p.V176F	NM_001109809	NP_001103279	Q9NU63	ZFP57_HUMAN	zinc finger protein 57 homolog	112	C2H2-type 1.				DNA methylation involved in embryo development|regulation of gene expression by genetic imprinting|transcription, DNA-dependent		DNA binding|zinc ion binding			ovary(3)|skin(2)	5						GGATTGTGAACAAACTGGTGG	0.542													26	54					6.07407e-21	7.08211e-21	0.007291	1	0		A	29641302	A	A	29641302	3	1	191	1	0	0	0	0	1	0	0	0	17676	478	17	5	1028	5	ZFP57	6	29641302	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	60185	29641302	141473765	285	95907											
HLA-A	3105	broad.mit.edu	37	chr6	29911091	29911092	+	Frame_Shift_Ins	INS	-	G	G																															gctgcgacgtggggtcggacINSgggcgcttcctccgcgggta																								rs1136702		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:29911091_29911092insG	uc003nol.2	+	3	390_391	c.390_391insG	c.(388-393)GACGGGfs	p.D130fs	HLA-G_uc011dmb.1_Intron|HCG4P6_uc003nog.1_RNA|HLA-A_uc010jrq.2_Frame_Shift_Ins_p.D9fs|HLA-A_uc003nok.2_Frame_Shift_Ins_p.D9fs|HLA-A_uc003non.2_Frame_Shift_Ins_p.D130fs|HLA-A_uc003noo.2_Frame_Shift_Ins_p.D130fs|HLA-A_uc010jrr.2_Frame_Shift_Ins_p.D130fs|HLA-A_uc003nom.2_Frame_Shift_Ins_p.D9fs|HLA-A_uc010klp.2_Frame_Shift_Ins_p.D102fs|HLA-A_uc011dmc.1_Frame_Shift_Ins_p.D9fs|HLA-A_uc011dmd.1_Frame_Shift_Ins_p.D9fs	NM_002116	NP_002107	P30443	1A01_HUMAN	major histocompatibility complex, class I, A	130_131	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2						TGGGGTCGGACGGGCGCTTCCT	0.698									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of|Osteosarcoma_Familial_Clustering_of|Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of	Multiple Myeloma(9;0.094)			18	28	---	---	---	---						.	G	29911092	G	G	29911091	7	5	191	1	0	1	1	0	0	0	0	0	7211	535	19	0	400	0	HLA-A	6	29911091	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	269789	29911091	141203976	286	95908											
MDC1	9656	broad.mit.edu	37	chr6	30675439	30675439	+	Frame_Shift_Del	DEL	C	-	-																															aggtcccggaaggtcccccgCccccaccccaggctctggtg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:30675439delC	uc003nrg.3	-	8	3357	c.2917delG	c.(2917-2919)GCGfs	p.A973fs	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Intron	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	973				Missing (in Ref. 2; CAH18685).	cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						AGGTCCCCCGCCCCCACCCCA	0.642								Other_conserved_DNA_damage_response_genes					29	46	---	---	---	---						.	-	30675439	-	-	30675439	7	5	191	1	0	1	0	1	0	0	0	0	9421	739	26	0	3384	0	MDC1	6	30675439	Frame_Shift_Del	DEL	C	TCGA-F1-6874-01A-11D-1882-08	764348	30675439	140439628	287	95909											
HLA-B	3106	broad.mit.edu	37	chr6	31322883	31322883	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacccctcaccccttccctaCctgaactcttcctcctacac	7	10	1	23	0	2	1	1	1	1	0	5	1	5	1	8	0	3	0	8	0	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:31322883C>T	uc003nth.2	-	5	1066	c.1012_splice	c.e5+1	p.G338_splice	HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Splice_Site|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Splice_Site_p.G217_splice|HLA-B_uc003nti.1_Intron	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B						antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						CCCTTCCCTACCTGAACTCTT	0.577									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				40	55					0	0	0.00874	0	0		T	31322883	T	T	31322883	5	4	191	1	0	0	0	0	0	0	1	0	7212	521	18	4	87	4	HLA-B	6	31322883	Splice_Site	SNP	C	TCGA-F1-6874-01A-11D-1882-08	647444	31322883	139792184	288	95910											
TAP1	6890	broad.mit.edu	37	chr6	32815289	32815289	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagatgagtggagagagtaCctgtgtcatagccctgaggg	10	9	16	6	0	1	4	1	3	0	2	1	7	1	5	2	2	2	1	2	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:32815289C>T	uc003ocg.2	-	9	2238	c.2083_splice	c.e9+1	p.E695_splice	PSMB8_uc003ocf.2_5'Flank|TAP1_uc011dqi.1_Splice_Site_p.E434_splice	NM_000593	NP_000584	Q03518	TAP1_HUMAN	transporter 1, ATP-binding cassette, sub-family						antigen processing and presentation of endogenous peptide antigen via MHC class I|cytosol to ER transport|intracellular transport of viral proteins in host cell|positive regulation of T cell mediated cytotoxicity	cytosol|plasma membrane|TAP complex	ADP binding|ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|protein homodimerization activity|TAP1 binding|TAP2 binding|tapasin binding			skin(1)	1						GGAGAGAGTACCTGTGTCATA	0.507													9	71					0	0	0.013537	0	0		T	32815289	T	T	32815289	5	4	191	1	0	0	0	0	0	0	1	0	15575	521	18	4	354	4	TAP1	6	32815289	Splice_Site	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1492406	32815289	138299778	289	95911											
TAPBP	6892	broad.mit.edu	37	chr6	33272171	33272171	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccccatgctgctcagtggtGactgggggcggctgcaagtg	5	8	17	11	1	1	1	1	1	0	0	1	1	1	1	2	4	3	4	2	4	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:33272171G>C	uc003odx.1	-	5	1284	c.1113C>G	c.(1111-1113)GTC>GTG	p.V371V	TAPBP_uc010jus.1_Silent_p.V389V|TAPBP_uc003ody.2_3'UTR|TAPBP_uc003odz.2_Silent_p.V371V|TAPBP_uc010jut.1_Silent_p.V284V|TAPBP_uc011drc.1_Silent_p.V371V	NM_003190	NP_003181	O15533	TPSN_HUMAN	tapasin isoform 1 precursor	371	Ig-like C1-type.|Lumenal (Potential).				antigen processing and presentation of endogenous peptide antigen via MHC class I|immune response|peptide antigen stabilization|protein complex assembly|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|MHC class I peptide loading complex|microsome	MHC class I protein binding|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|unfolded protein binding			ovary(1)	1						GCTCAGTGGTGACTGGGGGCG	0.667													3	51					0	0	0.004672	0	0		C	33272171	C	C	33272171	2	2	191	1	0	0	0	0	0	0	0	1	15577	1277	45	5		5	TAPBP	6	33272171	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	456882	33272171	137842896	290	95912											
ITPR3	3710	broad.mit.edu	37	chr6	33636318	33636318	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggactacctctctgacctgtGtgtgtccaaccacatcgcca	8	10	8	15	1	1	1	0	1	1	0	4	2	2	2	5	1	2	0	5	1	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:33636318G>A	uc011drk.1	+	17	2132	c.1913G>A	c.(1912-1914)TGT>TAT	p.C638Y		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	638	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TCTGACCTGTGTGTGTCCAAC	0.597													26	26					0	0	0.00632	0	0		A	33636318	A	A	33636318	3	1	191	1	0	0	0	0	1	0	0	0	7938	1377	48	4	1979	4	ITPR3	6	33636318	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	364147	33636318	137478749	291	95913											
PEX6	5190	broad.mit.edu	37	chr6	42936167	42936167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggccggcaacggcgggcccGggagaagatggcctgcagtt	8	4	18	11	4	0	2	0	0	0	2	0	3	0	2	3	6	2	3	3	6	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:42936167G>A	uc003otf.2	-	7	1642	c.1549C>T	c.(1549-1551)CGG>TGG	p.R517W	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	517					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			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)			CGGCGGGCCCGGGAGAAGATG	0.642													8	11					0	0	0.004482	0	0		A	42936167	A	A	42936167	3	1	191	1	0	0	0	0	1	0	0	0	11769	1115	39	1	1437	1	PEX6	6	42936167	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	9299849	42936167	128178900	292	95914											
CUL9	23113	broad.mit.edu	37	chr6	43188260	43188260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgttttgaattgcacctgcCccattgccgactgccccgcc	5	12	8	16	2	0	1	0	1	0	0	0	2	0	1	7	0	4	2	7	0	1	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:43188260C>T	uc003ouk.2	+	32	6421	c.6346C>T	c.(6346-6348)CCC>TCC	p.P2116S	CUL9_uc003oul.2_Missense_Mutation_p.P2088S|CUL9_uc010jyk.2_Missense_Mutation_p.P1268S|CUL9_uc003oun.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2116	RING-type 1.				ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TTGCACCTGCCCCATTGCCGA	0.577													51	150					0	0	0.01441	0	0		T	43188260	T	T	43188260	3	4	191	1	0	0	0	0	1	0	0	0	4064	623	22	4	6468	4	CUL9	6	43188260	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	252093	43188260	127926807	293	95915											
POLR1C	9533	broad.mit.edu	37	chr6	43488475	43488475	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgaggagttgagcaggtgCttctcacctggtgttattga	7	13	14	7	0	1	3	1	3	1	0	2	4	1	4	1	3	2	5	1	3	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:43488475C>A	uc003ovn.2	+	7	825	c.768C>A	c.(766-768)TGC>TGA	p.C256*	POLR1C_uc003ovo.1_Nonsense_Mutation_p.C256*	NM_203290	NP_976035	O15160	RPAC1_HUMAN	RNA polymerase I subunit isoform 1	256					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|all cancers(41;0.00511)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			TGAGCAGGTGCTTCTCACCTG	0.498													31	82					1.45844e-13	1.66331e-13	0.013726	1	0		A	43488475	A	A	43488475	4	1	191	1	0	0	0	0	0	1	0	0	12230	805	28	5	794	5	POLR1C	6	43488475	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	300215	43488475	127626592	294	95916											
SLC25A27	9481	broad.mit.edu	37	chr6	46620981	46620981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccgctgacccagagatggCcccgagcgagcaaattccta	10	6	11	14	3	0	2	0	1	0	1	1	5	1	2	5	1	3	2	5	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:46620981C>T	uc003oyh.2	+	1	303	c.52C>T	c.(52-54)CCC>TCC	p.P18S	CYP39A1_uc003oyf.1_5'Flank|CYP39A1_uc011dwa.1_5'Flank|CYP39A1_uc010jzd.1_5'Flank|SLC25A27_uc011dwb.1_Missense_Mutation_p.P18S|SLC25A27_uc003oyg.2_Missense_Mutation_p.P18S|SLC25A27_uc011dwc.1_5'UTR	NM_004277	NP_004268	O95847	UCP4_HUMAN	solute carrier family 25, member 27	18					generation of precursor metabolites and energy|transport	integral to membrane|mitochondrial inner membrane					0			Lung(136;0.192)			CCAGAGATGGCCCCGAGCGAG	0.677													11	40					0	0	0.001855	0	0		T	46620981	T	T	46620981	3	4	191	1	0	0	0	0	1	0	0	0	14515	739	26	2	54	2	SLC25A27	6	46620981	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3132506	46620981	124494086	295	95917											
TINAG	27283	broad.mit.edu	37	chr6	54254616	54254617	+	Frame_Shift_Ins	INS	-	G	G																															caattcctggggaaagtcatINSggggagagaatggctatttc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:54254616_54254617insG	uc003pcj.2	+	11	1470_1471	c.1324_1325insG	c.(1324-1326)TGGfs	p.W442fs	TINAG_uc010jzt.2_RNA	NM_014464	NP_055279	Q9UJW2	TINAG_HUMAN	tubulointerstitial nephritis antigen	442					cell adhesion|immune response|Malpighian tubule morphogenesis|proteolysis	basement membrane	cysteine-type endopeptidase activity|nucleotide binding|polysaccharide binding|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4	Lung NSC(77;0.0518)		LUSC - Lung squamous cell carcinoma(124;0.246)			GGGAAAGTCATGGGGAGAGAAT	0.396													50	114	---	---	---	---						.	G	54254617	G	G	54254616	7	5	191	1	0	1	1	0	0	0	0	0	15946	1464	51	0	1366	0	TINAG	6	54254616	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	7633635	54254616	116860451	296	95918											
DST	667	broad.mit.edu	37	chr6	56376133	56376133	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagggctcaattccagtaaCtgtggcccagttttgttcat	8	13	9	11	0	2	0	2	0	0	0	3	0	3	0	3	2	1	4	3	2	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:56376133C>A	uc003pdf.2	-	67	12313	c.12285G>T	c.(12283-12285)CAG>CAT	p.Q4095H	DST_uc003pcz.3_Missense_Mutation_p.Q3917H|DST_uc011dxj.1_Missense_Mutation_p.Q3946H|DST_uc011dxk.1_Missense_Mutation_p.Q3957H|DST_uc003pcy.3_Missense_Mutation_p.Q3591H	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6003	Spectrin 11.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			ATTCCAGTAACTGTGGCCCAG	0.428													3	16					0.000602214	0.000630398	0.000602	1	0		A	56376133	A	A	56376133	3	1	191	1	0	0	0	0	1	0	0	0	4789	564	20	5	4866	5	DST	6	56376133	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2121517	56376133	114738934	297	95919											
OGFRL1	79627	broad.mit.edu	37	chr6	72006266	72006266	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aactacatatgaaattgaggTaatgcaagctcatttcattt	15	14	6	6	0	2	2	2	2	0	0	2	2	2	2	0	1	4	3	0	1	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:72006266T>C	uc003pfx.1	+	5	709	c.546_splice	c.e5+2	p.E182_splice		NM_024576	NP_078852	Q5TC84	OGRL1_HUMAN	opioid growth factor receptor-like 1							membrane	receptor activity				0						GAAATTGAGGTAATGCAAGCT	0.313													10	17					0	0	0.010729	0	0		C	72006266	C	C	72006266	5	2	191	1	0	0	0	0	0	0	1	0	10863	1652	57	3	566	3	OGFRL1	6	72006266	Splice_Site	SNP	T	TCGA-F1-6874-01A-11D-1882-08	15630133	72006266	99108801	298	95920											
COL12A1	1303	broad.mit.edu	37	chr6	75847173	75847173	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttgctcattgccttcccCtgtggaaggctgataagtga	7	13	11	10	1	1	2	1	2	0	0	2	3	2	3	3	2	2	3	3	2	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:75847173C>A	uc003phs.2	-	31	5540	c.5374G>T	c.(5374-5376)GGG>TGG	p.G1792W	COL12A1_uc003pht.2_Missense_Mutation_p.G628W	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1792	Fibronectin type-III 13.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TTGCCTTCCCCTGTGGAAGGC	0.393													6	9					3.59834e-05	3.82149e-05	0.001168	1	0		A	75847173	A	A	75847173	3	1	191	1	0	0	0	0	1	0	0	0	3672	681	24	5	3961	5	COL12A1	6	75847173	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3840907	75847173	95267894	299	95921											
PHIP	55023	broad.mit.edu	37	chr6	79707231	79707231	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttggtgcgttgctgtgcaTttgccgtacaccttcaattt	5	17	9	10	2	2	0	1	0	1	0	2	0	2	0	2	1	5	4	2	1	2	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:79707231T>A	uc003pir.2	-	19	2327	c.2101A>T	c.(2101-2103)ATG>TTG	p.M701L	PHIP_uc011dyp.1_Missense_Mutation_p.M701L	NM_017934	NP_060404	Q8WWQ0	PHIP_HUMAN	pleckstrin homology domain interacting protein	701					insulin receptor signaling pathway|negative regulation of apoptosis|positive regulation of cell proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis	nucleus	insulin receptor binding			large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	6		all_cancers(76;0.00125)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.219)		BRCA - Breast invasive adenocarcinoma(397;0.231)		TTGCTGTGCATTTGCCGTACA	0.488													47	95					0	0	0.01441	0	0		A	79707231	A	A	79707231	3	1	191	1	0	0	0	0	1	0	0	0	11861	1493	52	5	3452	5	PHIP	6	79707231	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	3860058	79707231	91407836	300	95922											
DOPEY1	23033	broad.mit.edu	37	chr6	83829481	83829481	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggaggttttgataacaacGgtgctatcataggacccaga	13	10	11	7	1	1	2	1	1	0	1	1	4	1	4	1	4	3	2	1	4	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:83829481G>T	uc003pjs.1	+	9	1155	c.895G>T	c.(895-897)GGT>TGT	p.G299C	DOPEY1_uc011dyy.1_Intron|DOPEY1_uc010kbl.1_Intron	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	299					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TGATAACAACGGTGCTATCAT	0.343													26	75					3.1745e-13	3.60918e-13	0.008361	1	0		T	83829481	T	T	83829481	3	4	191	1	0	0	0	0	1	0	0	0	4713	1116	39	5	921	5	DOPEY1	6	83829481	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4122250	83829481	87285586	301	95923											
RARS2	57038	broad.mit.edu	37	chr6	88228428	88228428	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacgatcccagctgaacttGtagtcagataagagtaaacc	15	8	8	10	1	1	3	1	1	0	2	2	4	2	3	2	0	3	3	2	0	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:88228428G>A	uc003pme.2	-	16	1395	c.1335C>T	c.(1333-1335)TAC>TAT	p.Y445Y	RARS2_uc003pmb.2_Silent_p.Y270Y|RARS2_uc003pmc.2_Silent_p.Y270Y|RARS2_uc003pmd.2_Silent_p.Y82Y|RARS2_uc003pmf.2_RNA	NM_020320	NP_064716	Q5T160	SYRM_HUMAN	arginyl-tRNA synthetase 2, mitochondrial	445					arginyl-tRNA aminoacylation	mitochondrial matrix	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0456)		AGCTGAACTTGTAGTCAGATA	0.507													17	46					0	0	0.007413	0	0		A	88228428	A	A	88228428	2	1	191	1	0	0	0	0	0	0	0	1	13084	1372	48	4		4	RARS2	6	88228428	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4398947	88228428	82886639	302	95924											
BACH2	60468	broad.mit.edu	37	chr6	90661567	90661568	+	Frame_Shift_Ins	INS	-	C	C																															actgtaacagcggcccaaagINScccctggctgtgacctgcaa																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:90661567_90661568insC	uc011eab.1	-	7	1066_1067	c.257_258insG	c.(256-258)GGCfs	p.G86fs	BACH2_uc003pnw.2_Frame_Shift_Ins_p.G86fs|BACH2_uc010kch.2_Frame_Shift_Ins_p.G86fs	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	86	BTB.					nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		GCGGCCCAAAGCCCCTGGCTGT	0.52													25	52	---	---	---	---						.	C	90661568	C	C	90661567	7	5	191	1	0	1	1	0	0	0	0	0	1285	958	34	0	2279	0	BACH2	6	90661567	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	2433139	90661567	80453500	303	95925											
SLC22A16	85413	broad.mit.edu	37	chr6	110763701	110763701	+	Missense_Mutation	SNP	A	G	G	1	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	ccctgttccacttggccatgAtgtcaactattttttgtgct	6	17	7	11	0	1	1	1	1	0	0	2	1	2	1	3	1	2	2	3	1	2	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:110763701A>G	uc003puf.2	-	4	996	c.929T>C	c.(928-930)ATC>ACC	p.I310T	SLC22A16_uc003pue.2_Missense_Mutation_p.I291T	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	310					acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		CTTGGCCATGATGTCAACTAT	0.468													33	55					0	0	0.013726	0	0		G	110763701	G	G	110763701	3	3	191	1	0	0	0	0	1	0	0	0	14472	333	12	3	824	3	SLC22A16	6	110763701	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	20102134	110763701	60351366	304	95926											
RFPL4B	442247	broad.mit.edu	37	chr6	112670995	112670995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctctctcttgtacacacGtgttctgctttgattgcatc	5	19	6	11	1	3	1	0	1	3	0	6	1	3	1	0	0	3	4	0	0	1	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:112670995G>A	uc003pvx.1	+	3	397	c.85G>A	c.(85-87)GTG>ATG	p.V29M		NM_001013734	NP_001013756	Q6ZWI9	RFPLB_HUMAN	ret finger protein-like 4B	29	RING-type.						zinc ion binding				0		all_cancers(87;9.44e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00265)|Colorectal(196;0.0209)		all cancers(137;0.0202)|OV - Ovarian serous cystadenocarcinoma(136;0.0477)|Epithelial(106;0.0646)|GBM - Glioblastoma multiforme(226;0.0866)|BRCA - Breast invasive adenocarcinoma(108;0.244)		TTGTACACACGTGTTCTGCTT	0.463													16	75					0	0	0.004007	0	0		A	112670995	A	A	112670995	3	1	191	1	0	0	0	0	1	0	0	0	13281	1145	40	1	87	1	RFPL4B	6	112670995	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1907294	112670995	58444072	305	95927											
HS3ST5	222537	broad.mit.edu	37	chr6	114378682	114378682	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagttctggcagaggttcCgtgatgaggcgatctccatc	8	11	13	9	2	2	4	0	3	2	1	5	5	3	4	2	3	0	3	2	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:114378682C>T	uc003pwg.3	-	2	812	c.780G>A	c.(778-780)ACG>ACA	p.T260T	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Silent_p.T260T	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	260	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification|negative regulation of coagulation|protein sulfation|regulation of virion penetration into host cell	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity|protein binding			ovary(1)|pancreas(1)	2		all_cancers(87;0.0587)|Colorectal(196;0.0676)|all_epithelial(87;0.154)		OV - Ovarian serous cystadenocarcinoma(136;0.00937)|all cancers(137;0.0117)|Epithelial(106;0.0274)|GBM - Glioblastoma multiforme(226;0.143)		GCAGAGGTTCCGTGATGAGGC	0.428													19	76					0	0	0.008871	0	0		T	114378682	T	T	114378682	2	4	191	1	0	0	0	0	0	0	0	1	7384	639	23	1		1	HS3ST5	6	114378682	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1707687	114378682	56736385	306	95928											
C6orf174	387104	broad.mit.edu	37	chr6	127796510	127796510	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctcgaggcggtcgatgaaGgtctgcagctccttgcggaa	8	8	14	11	4	1	1	0	1	1	0	4	4	2	2	2	4	3	2	2	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:127796510G>T	uc003qbd.2	-	6	3526	c.2661C>A	c.(2659-2661)ACC>ACA	p.T887T	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	887						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GGTCGATGAAGGTCTGCAGCT	0.637													44	76					6.5261e-18	7.50536e-18	0.00874	1	0		T	127796510	T	T	127796510	2	4	191	1	0	0	0	0	0	0	0	1	2348	987	35	5		5	C6orf174	6	127796510	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	13417828	127796510	43318557	307	95929											
PTPRK	5796	broad.mit.edu	37	chr6	128298173	128298173	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagagggtattgtgtgacGatgaaagcagctggttgcct	9	10	16	6	1	0	3	0	2	0	1	0	4	0	3	1	3	3	5	1	3	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:128298173G>A	uc003qbk.2	-	26	4102	c.3735C>T	c.(3733-3735)ATC>ATT	p.I1245I	PTPRK_uc003qbj.2_Silent_p.I1246I|PTPRK_uc010kfc.2_Silent_p.I1252I|PTPRK_uc011ebu.1_Silent_p.I1268I	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	1245	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		ATTGTGTGACGATGAAAGCAG	0.383													13	59					0	0	0.00245	0	0		A	128298173	A	A	128298173	2	1	191	1	0	0	0	0	0	0	0	1	12830	1048	37	1		1	PTPRK	6	128298173	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	501663	128298173	42816894	308	95930											
SAMD3	154075	broad.mit.edu	37	chr6	130535624	130535624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttctttaccagttgctgaaCcatccgatcattaagtgcaa	11	14	6	10	1	2	1	1	1	1	0	3	2	3	1	3	0	4	3	3	0	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:130535624C>T	uc003qbv.2	-	5	453	c.127G>A	c.(127-129)GTT>ATT	p.V43I	SAMD3_uc003qbx.2_Missense_Mutation_p.V43I|SAMD3_uc003qbw.2_Missense_Mutation_p.V43I|SAMD3_uc010kfg.1_Missense_Mutation_p.V43I|SAMD3_uc003qby.2_Missense_Mutation_p.V43I|SAMD3_uc003qbz.1_Missense_Mutation_p.V2I	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	43	SAM.									ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		AGTTGCTGAACCATCCGATCA	0.418													18	51					0	0	0.010504	0	0		T	130535624	T	T	130535624	3	4	191	1	0	0	0	0	1	0	0	0	13845	507	18	4	1487	4	SAMD3	6	130535624	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2237451	130535624	40579443	309	95931											
MED23	9439	broad.mit.edu	37	chr6	131943072	131943072	+	Missense_Mutation	SNP	A	C	C	1	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	gcagagctcactgtattaggAattgtcaaaatcttctccaa	13	12	7	9	0	4	1	2	0	2	1	5	2	4	2	1	1	1	3	1	1	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:131943072A>C	uc003qcs.1	-	6	618	c.444T>G	c.(442-444)ATT>ATG	p.I148M	MED23_uc003qcq.2_Missense_Mutation_p.I148M|MED23_uc003qct.1_Missense_Mutation_p.I148M|MED23_uc011ecb.1_RNA	NM_004830	NP_004821	Q9ULK4	MED23_HUMAN	mediator complex subunit 23 isoform a	148					regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor complex	protein binding|transcription coactivator activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0115)|OV - Ovarian serous cystadenocarcinoma(155;0.0608)		CTGTATTAGGAATTGTCAAAA	0.363													29	84					0	0	0.010818	0	0		C	131943072	C	C	131943072	3	2	191	1	0	0	0	0	1	0	0	0	9459	242	9	5	3787	5	MED23	6	131943072	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1407448	131943072	39171995	310	95932											
EYA4	2070	broad.mit.edu	37	chr6	133802626	133802626	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgataccatgcagagtccCtccacacccatcaaagatct	12	9	5	15	1	2	2	1	0	1	2	5	3	4	2	4	0	2	1	4	0	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:133802626C>A	uc003qec.3	+	12	1454	c.996C>A	c.(994-996)CCC>CCA	p.P332P	EYA4_uc011ecq.1_Silent_p.P278P|EYA4_uc011ecr.1_Silent_p.P284P|EYA4_uc003qed.3_Silent_p.P332P|EYA4_uc003qee.3_Silent_p.P309P|EYA4_uc011ecs.1_Silent_p.P338P|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	332					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TGCAGAGTCCCTCCACACCCA	0.423													18	126					4.96729e-08	5.43871e-08	0.008871	1	0		A	133802626	A	A	133802626	2	1	191	1	0	0	0	0	0	0	0	1	5339	668	24	5		5	EYA4	6	133802626	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1859554	133802626	37312441	311	95933											
BCLAF1	9774	broad.mit.edu	37	chr6	136582536	136582536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgattttttgaagttaaagCgccctctgccacgttgaaaa	11	13	8	9	2	1	3	0	3	1	0	1	3	1	3	2	0	2	2	2	0	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:136582536C>T	uc003qgx.1	-	12	2877	c.2624G>A	c.(2623-2625)CGC>CAC	p.R875H	BCLAF1_uc011edb.1_Missense_Mutation_p.R154H|BCLAF1_uc003qgw.1_Missense_Mutation_p.R702H|BCLAF1_uc003qgy.1_Missense_Mutation_p.R824H|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R873H	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	875					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		GAAGTTAAAGCGCCCTCTGCC	0.418													35	293					0	0	0.004289	0	0		T	136582536	T	T	136582536	3	4	191	1	0	0	0	0	1	0	0	0	1384	768	27	1	146	1	BCLAF1	6	136582536	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2779910	136582536	34532531	312	95934											
TNFAIP3	7128	broad.mit.edu	37	chr6	138196151	138196151	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcaggaatttgttgaaacGgggctttgctatgatactcg	9	14	11	7	2	1	2	1	2	1	0	3	3	1	3	0	3	3	3	0	3	4	5	rs140424499	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:138196151G>A	uc003qhr.2	+	3	531	c.465G>A	c.(463-465)ACG>ACA	p.T155T	TNFAIP3_uc003qhs.2_Silent_p.T155T	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	155	TRAF-binding.|OTU.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.T155T(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		TTGTTGAAACGGGGCTTTGCT	0.507			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								20	63					0	0	0.003954	0	0		A	138196151	A	A	138196151	2	1	191	1	0	0	0	0	0	0	0	1	16299	1103	39	1		1	TNFAIP3	6	138196151	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1613615	138196151	32918916	313	95935											
STXBP5	134957	broad.mit.edu	37	chr6	147684527	147684527	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcatttctggataccacaGgctgcttaataccacctgcg	9	11	9	12	1	1	0	0	0	1	0	1	1	1	1	3	3	4	3	3	3	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:147684527G>T	uc003qlz.2	+	24	2763	c.2602G>T	c.(2602-2604)GGC>TGC	p.G868C	STXBP5_uc010khz.1_Missense_Mutation_p.G832C|STXBP5_uc003qlx.2_RNA|STXBP5_uc003qly.2_Missense_Mutation_p.G523C	NM_001127715	NP_001121187	Q5T5C0	STXB5_HUMAN	syntaxin binding protein 5 (tomosyn) isoform b	868	WD 12.				exocytosis|positive regulation of exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|nicotinic acetylcholine-gated receptor-channel complex|synaptic vesicle	syntaxin-1 binding				0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;1.77e-09)|GBM - Glioblastoma multiforme(68;0.0694)		GGATACCACAGGCTGCTTAAT	0.378													20	31					1.64293e-13	1.86984e-13	0.00333	1	0		T	147684527	T	T	147684527	3	4	191	1	0	0	0	0	1	0	0	0	15381	1000	35	5	2696	5	STXBP5	6	147684527	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	9488376	147684527	23430540	314	95936											
SASH1	23328	broad.mit.edu	37	chr6	148852697	148852697	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgcctggctcccctccGccttcacagcccgaccccga	6	6	9	20	3	1	0	1	0	0	0	3	3	3	1	8	2	2	1	8	2	1	1	rs150728102		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:148852697G>A	uc003qme.1	+	13	1939	c.1464G>A	c.(1462-1464)CCG>CCA	p.P488P	SASH1_uc011eeb.1_Silent_p.P249P|SASH1_uc003qmf.1_Intron	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	488							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		GCTCCCCTCCGCCTTCACAGC	0.537													22	32					0	0	0.00333	0	0		A	148852697	A	A	148852697	2	1	191	1	0	0	0	0	0	0	0	1	13873	1074	38	1		1	SASH1	6	148852697	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1168170	148852697	22262370	315	95937											
ZBTB2	57621	broad.mit.edu	37	chr6	151686764	151686764	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaatggatcgcccttcGtctagggcaaaaacatccga	13	7	11	10	3	1	1	0	0	1	1	4	4	2	2	2	3	1	1	2	3	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:151686764G>A	uc003qoh.2	-	3	1572	c.1437C>T	c.(1435-1437)GAC>GAT	p.D479D		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	479					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		ATCGCCCTTCGTCTAGGGCAA	0.473													34	70					0	0	0.010818	0	0		A	151686764	A	A	151686764	2	1	191	1	0	0	0	0	0	0	0	1	17553	1136	40	1		1	ZBTB2	6	151686764	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2834067	151686764	19428303	316	95938											
SYNE1	23345	broad.mit.edu	37	chr6	152683404	152683404	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatccatccaaccggagaaCtgtcgaacgccatcctgata	12	8	7	14	3	0	2	0	1	0	1	4	4	3	2	5	1	3	0	5	1	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:152683404C>T	uc010kiw.2	-	64	10802	c.10200G>A	c.(10198-10200)CAG>CAA	p.Q3400Q	SYNE1_uc003qot.3_Silent_p.Q3407Q|SYNE1_uc003qou.3_Silent_p.Q3400Q|SYNE1_uc010kja.1_Silent_p.Q105Q	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3400	HAT 6.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AACCGGAGAACTGTCGAACGC	0.473										HNSCC(10;0.0054)			30	89					0	0	0.008361	0	0		T	152683404	T	T	152683404	2	4	191	1	0	0	0	0	0	0	0	1	15470	564	20	4		4	SYNE1	6	152683404	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	996640	152683404	18431663	317	95939											
TULP4	56995	broad.mit.edu	37	chr6	158914604	158914604	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcctggccttgcctccccaGgatcagcattgaggcccgca	6	8	10	17	1	1	1	1	1	0	0	3	2	3	2	6	3	2	2	6	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:158914604G>T	uc003qrf.2	+	10	2989	c.1632_splice	c.e10-1	p.R544_splice	TULP4_uc003qrg.2_Splice_Site_p.R544_splice	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1						intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		TGCCTCCCCAGGATCAGCATT	0.662													29	71					3.80469e-20	4.42669e-20	0.009535	1	0		T	158914604	T	T	158914604	5	4	191	1	0	0	0	0	0	0	1	0	16802	1014	35	5	1669	5	TULP4	6	158914604	Splice_Site	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6231200	158914604	12200463	318	95940											
TULP4	56995	broad.mit.edu	37	chr6	158923693	158923693	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctacgctcaagatggccCagctggccgacagcccgcgg	8	4	14	15	4	1	1	1	0	0	1	1	2	1	1	3	4	3	3	3	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:158923693C>T	uc003qrf.2	+	13	4355	c.2998C>T	c.(2998-3000)CAG>TAG	p.Q1000*	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1000					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		CAAGATGGCCCAGCTGGCCGA	0.731													9	23					0	0	0.006214	0	0		T	158923693	T	T	158923693	4	4	191	1	0	0	0	0	0	1	0	0	16802	595	21	4	3048	4	TULP4	6	158923693	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	9089	158923693	12191374	319	95941											
SLC22A2	6582	broad.mit.edu	37	chr6	160679619	160679619	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgcagcgcagactcagctcGgccactccggggctccggca	6	4	13	18	5	1	1	1	0	0	1	4	1	3	1	4	4	2	5	4	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr6:160679619G>A	uc003qtf.2	-	1	341	c.171C>T	c.(169-171)GCC>GCT	p.A57A	SLC22A2_uc003qte.1_Silent_p.A57A|SLC22A2_uc003qth.1_Silent_p.A57A	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	57	Extracellular (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		GACTCAGCTCGGCCACTCCGG	0.667													28	73					0	0	0.009535	0	0		A	160679619	A	A	160679619	2	1	191	1	0	0	0	0	0	0	0	1	14475	1103	39	1		1	SLC22A2	6	160679619	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1755926	160679619	10435448	320	95942											
GPR146	115330	broad.mit.edu	37	chr7	1097822	1097822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacgcccctggaccgggacaCgggccggctggagccctcgg	5	3	16	17	5	0	0	0	0	0	0	1	3	0	3	5	6	1	1	5	6	0	0	rs146511290		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:1097822C>T	uc003sjw.2	+	2	747	c.671C>T	c.(670-672)ACG>ATG	p.T224M	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPR146_uc003sjx.3_Missense_Mutation_p.T224M|GPR146_uc003sjy.1_Missense_Mutation_p.T224M	NM_138445	NP_612454	Q96CH1	GP146_HUMAN	G protein-coupled receptor 146	224	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		GACCGGGACACGGGCCGGCTG	0.682													9	20					0	0	0.004482	0	0		T	1097822	T	T	1097822	3	4	191	1	0	0	0	0	1	0	0	0	6667	536	19	1	673	1	GPR146	7	1097822	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08		1097822	158040841	321	95943											
INTS1	26173	broad.mit.edu	37	chr7	1510498	1510498	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaccttggcacaggagagcGtactcaggcaggttccggag	9	7	14	11	2	2	1	2	0	0	1	3	3	3	2	2	5	2	4	2	5	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:1510498G>A	uc003skn.2	-	47	6542	c.6441C>T	c.(6439-6441)TAC>TAT	p.Y2147Y	INTS1_uc003skm.1_Silent_p.Y284Y	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	2147					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		ACAGGAGAGCGTACTCAGGCA	0.677													5	9					0	0	0.000602	0	0		A	1510498	A	A	1510498	2	1	191	1	0	0	0	0	0	0	0	1	7791	1140	40	1		1	INTS1	7	1510498	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	412676	1510498	157628165	322	95944											
SDK1	221935	broad.mit.edu	37	chr7	4026921	4026921	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctttgatggaaacagtcctAttctttattacatcgtggag	10	15	8	8	1	1	1	0	1	1	0	3	3	2	3	2	2	2	0	2	2	4	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:4026921A>G	uc003smx.2	+	14	2237	c.2098A>G	c.(2098-2100)ATT>GTT	p.I700V		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	700	Fibronectin type-III 1.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		AAACAGTCCTATTCTTTATTA	0.468													34	158					0	0	0.003755	0	0		G	4026921	G	G	4026921	3	3	191	1	0	0	0	0	1	0	0	0	13993	449	16	3	2152	3	SDK1	7	4026921	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2516423	4026921	155111742	323	95945											
GLCCI1	113263	broad.mit.edu	37	chr7	8043595	8043595	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacaataaggcgaacctcctCtttggatacaataacaggac	15	9	7	10	1	1	0	0	0	1	0	2	3	2	2	2	3	4	0	2	3	7	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:8043595C>A	uc003srk.2	+	2	1074	c.515C>A	c.(514-516)TCT>TAT	p.S172Y		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	172											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		CGAACCTCCTCTTTGGATACA	0.418													42	112					4.64027e-19	5.38173e-19	0.01441	1	0		A	8043595	A	A	8043595	3	1	191	1	0	0	0	0	1	0	0	0	6446	913	32	5	521	5	GLCCI1	7	8043595	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4016674	8043595	151095068	324	95946											
ITGB8	3696	broad.mit.edu	37	chr7	20445782	20445782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaacaacagcattatgtcGaccaaacttcaggtaggcca	14	8	9	10	1	1	0	1	0	0	0	2	2	1	1	2	3	4	2	2	3	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:20445782G>A	uc003suu.2	+	12	2716	c.2011G>A	c.(2011-2013)GAC>AAC	p.D671N	ITGB8_uc011jyh.1_Missense_Mutation_p.D536N	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	671	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						GCATTATGTCGACCAAACTTC	0.423													7	41					0	0	0.00308	0	0		A	20445782	A	A	20445782	3	1	191	1	0	0	0	0	1	0	0	0	7917	1058	37	1	2057	1	ITGB8	7	20445782	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	12402187	20445782	138692881	325	95947											
TRA2A	29896	broad.mit.edu	37	chr7	23556005	23556005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgccagtatgtcttctccGgttagacattggagaatggc	8	12	12	9	1	2	2	0	0	2	2	3	3	2	2	2	3	1	3	2	3	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:23556005G>A	uc003swi.2	-	3	527	c.313C>T	c.(313-315)CGG>TGG	p.R105W	TRA2A_uc011jzb.1_RNA|TRA2A_uc011jzc.1_Missense_Mutation_p.R4W|TRA2A_uc011jzd.1_Missense_Mutation_p.R4W|TRA2A_uc010kuo.1_RNA	NM_013293	NP_037425	Q13595	TRA2A_HUMAN	transformer-2 alpha	105	Arg/Ser-rich (RS1 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TGTCTTCTCCGGTTAGACATT	0.438													18	81					0	0	0.007413	0	0		A	23556005	A	A	23556005	3	1	191	1	0	0	0	0	1	0	0	0	16459	1115	39	1	559	1	TRA2A	7	23556005	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3110223	23556005	135582658	326	95948											
HOXA1	3198	broad.mit.edu	37	chr7	27135410	27135410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaactgttggcgctgaccGcgcacgactggaaagttgta	9	8	13	11	5	0	1	0	1	0	0	0	3	0	2	1	2	1	6	1	2	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:27135410G>A	uc003sye.2	-	1	216	c.122C>T	c.(121-123)GCG>GTG	p.A41V	HOXA1_uc003syd.2_Missense_Mutation_p.A41V|uc003syg.2_5'Flank	NM_005522	NP_005513	P49639	HXA1_HUMAN	homeobox A1 isoform a	41						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3						GGCGCTGACCGCGCACGACTG	0.532											OREG0003750	type=REGULATORY REGION|Gene=BC031342|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	44	155					0	0	0.010771	0	0		A	27135410	A	A	27135410	3	1	191	1	0	0	0	0	1	0	0	0	7304	1087	38	1	893	1	HOXA1	7	27135410	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3579405	27135410	132003253	327	95949											
CREB5	9586	broad.mit.edu	37	chr7	28858738	28858738	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttctccctaggtccaGagagtagccctcctgctagt	6	15	8	12	0	1	1	0	0	1	1	4	2	3	1	4	1	2	2	4	1	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:28858738G>T	uc003szq.2	+	11	1759	c.1369G>T	c.(1369-1371)GAG>TAG	p.E457*	CREB5_uc003szo.2_Nonsense_Mutation_p.E424*|CREB5_uc003szr.2_Nonsense_Mutation_p.E450*|CREB5_uc003szs.2_Nonsense_Mutation_p.E318*	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5	457					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						CCTAGGTCCAGAGAGTAGCCC	0.473													45	197					1.86633e-21	2.18537e-21	0.01441	1	0		T	28858738	T	T	28858738	4	4	191	1	0	0	0	0	0	1	0	0	3863	943	33	5	1462	5	CREB5	7	28858738	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1723328	28858738	130279925	328	95950											
NPSR1	387129	broad.mit.edu	37	chr7	34851405	34851405	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctgctctacgcctctacCtacgtcctggtgtccctcag	4	12	9	16	2	3	0	1	0	2	0	5	0	5	0	4	1	5	2	4	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:34851405C>A	uc003teg.1	+	4	536	c.408C>A	c.(406-408)ACC>ACA	p.T136T	AAA1_uc010kwq.1_Intron|AAA1_uc011kaq.1_Intron|NPSR1_uc003teh.1_Silent_p.T136T|NPSR1_uc010kwt.1_5'UTR|NPSR1_uc010kwu.1_Intron|NPSR1_uc010kwv.1_Intron|NPSR1_uc003tei.1_Silent_p.T136T|NPSR1_uc010kww.1_Silent_p.T125T|NPSR1_uc011kar.1_Intron|AAA1_uc010kwy.2_Intron|AAA1_uc003tek.3_Intron	NM_207172	NP_997055	Q6W5P4	NPSR1_HUMAN	G protein-coupled receptor for asthma	136	Helical; Name=3; (Potential).					cytoplasm|integral to membrane|plasma membrane	vasopressin receptor activity			skin(3)|pancreas(1)	4					Halothane(DB01159)	ACGCCTCTACCTACGTCCTGG	0.488													50	141					2.47907e-22	2.90594e-22	0.01441	1	0		A	34851405	A	A	34851405	2	1	191	1	0	0	0	0	0	0	0	1	10619	668	24	5		5	NPSR1	7	34851405	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5992667	34851405	124287258	329	95951											
AMPH	273	broad.mit.edu	37	chr7	38469442	38469442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctggatatttacctacCggctgtaccaaatcagtgct	10	13	8	10	1	2	1	1	1	1	0	2	2	2	2	3	2	4	3	3	2	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:38469442C>T	uc003tgu.2	-	14	1251	c.1182G>A	c.(1180-1182)CCG>CCA	p.P394P	AMPH_uc003tgv.2_Silent_p.P394P|AMPH_uc003tgt.2_Silent_p.P147P|AMPH_uc003tgw.1_5'Flank|AMPH_uc010kxl.1_5'Flank	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	394					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						ATTTACCTACCGGCTGTACCA	0.348													15	69					0	0	0.00499	0	0		T	38469442	T	T	38469442	2	4	191	1	0	0	0	0	0	0	0	1	588	666	23	1		1	AMPH	7	38469442	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3618037	38469442	120669221	330	95952											
VPS41	27072	broad.mit.edu	37	chr7	38798010	38798010	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctatctttcttcaaatgatcCcgaactgcttgaactatgac	11	14	5	11	1	3	3	1	3	2	0	4	4	4	3	1	0	3	1	1	0	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:38798010C>T	uc003tgy.2	-	18	1520	c.1494G>A	c.(1492-1494)CGG>CGA	p.R498R	VPS41_uc003tgz.2_Silent_p.R473R|VPS41_uc010kxn.2_Silent_p.R409R	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	498					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						TCAAATGATCCCGAACTGCTT	0.368													15	56					0	0	0.003163	0	0		T	38798010	T	T	38798010	2	4	191	1	0	0	0	0	0	0	0	1	17236	610	22	4		4	VPS41	7	38798010	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	328568	38798010	120340653	331	95953											
GLI3	2737	broad.mit.edu	37	chr7	42003945	42003945	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctattgcataactgcaaGgaatttgctttcttccgcta	10	14	7	10	1	1	0	0	0	1	0	2	1	2	1	2	1	5	4	2	1	5	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:42003945G>T	uc011kbh.1	-	15	4817	c.4726C>A	c.(4726-4728)CTT>ATT	p.L1576I	GLI3_uc011kbg.1_Missense_Mutation_p.L1517I	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1576					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						ATAACTGCAAGGAATTTGCTT	0.453									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				10	53					6.40141e-05	6.7591e-05	0.010729	1	0		T	42003945	T	T	42003945	3	4	191	1	0	0	0	0	1	0	0	0	6454	1000	35	5	20	5	GLI3	7	42003945	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3205935	42003945	117134718	332	95954											
GLI3	2737	broad.mit.edu	37	chr7	42006185	42006185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccagagaggtcgcttctgCccgggagaagcgtcatgggc	7	6	15	13	3	2	2	1	0	1	2	3	4	2	2	3	3	2	1	3	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:42006185C>T	uc011kbh.1	-	15	2577	c.2486G>A	c.(2485-2487)GGC>GAC	p.G829D	GLI3_uc011kbg.1_Missense_Mutation_p.G770D	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	829					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GTCGCTTCTGCCCGGGAGAAG	0.597									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				27	128					0	0	0.012213	0	0		T	42006185	T	T	42006185	3	4	191	1	0	0	0	0	1	0	0	0	6454	739	26	2	2260	2	GLI3	7	42006185	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2240	42006185	117132478	333	95955											
GLI3	2737	broad.mit.edu	37	chr7	42012081	42012081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggctgccggaatctctcGggggtggcggccgaggatgg	6	7	19	9	4	1	0	0	0	1	0	3	3	1	2	2	8	1	1	2	8	2	0	rs141220299		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:42012081G>A	uc011kbh.1	-	13	2049	c.1958C>T	c.(1957-1959)CCG>CTG	p.P653L	GLI3_uc011kbg.1_Missense_Mutation_p.P594L	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	653					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGAATCTCTCGGGGGTGGCGG	0.622									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				49	125					0	0	0.01441	0	0		A	42012081	A	A	42012081	3	1	191	1	0	0	0	0	1	0	0	0	6454	1116	39	1	2796	1	GLI3	7	42012081	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5896	42012081	117126582	334	95956											
HECW1	23072	broad.mit.edu	37	chr7	43485109	43485109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccgcccctagcgggcacGtggaaagaagcccggaaggt	9	4	16	12	4	0	1	0	0	0	1	0	3	0	3	4	5	2	1	4	5	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:43485109G>A	uc003tid.1	+	11	2943	c.2338G>A	c.(2338-2340)GTG>ATG	p.V780M	HECW1_uc011kbi.1_Missense_Mutation_p.V780M	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	780					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						TAGCGGGCACGTGGAAAGAAG	0.622													5	33					0	0	0.000602	0	0		A	43485109	A	A	43485109	3	1	191	1	0	0	0	0	1	0	0	0	7058	1145	40	1	2372	1	HECW1	7	43485109	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1473028	43485109	115653554	335	95957											
PGAM2	5224	broad.mit.edu	37	chr7	44104780	44104780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgggatgtcgaaggagcGcctccagatcttcacctgct	7	8	13	13	4	2	1	1	0	1	1	4	4	3	3	3	3	2	1	3	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:44104780G>A	uc003tjs.2	-	1	384	c.349C>T	c.(349-351)CGC>TGC	p.R117C		NM_000290	NP_000281	P15259	PGAM2_HUMAN	phosphoglycerate mutase 2	117					gluconeogenesis|glycolysis|striated muscle contraction	cytosol	2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity				0						TCGAAGGAGCGCCTCCAGATC	0.627													13	59					0	0	0.004007	0	0		A	44104780	A	A	44104780	3	1	191	1	0	0	0	0	1	0	0	0	11793	1087	38	1	424	1	PGAM2	7	44104780	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	619671	44104780	115033883	336	95958											
OGDH	4967	broad.mit.edu	37	chr7	44715660	44715660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccttgtccttggtggccaAcccttcccaccttgaggccg	5	11	9	16	1	0	1	0	1	0	0	2	1	2	1	7	3	2	0	7	3	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:44715660A>G	uc003tln.2	+	9	1227	c.1118A>G	c.(1117-1119)AAC>AGC	p.N373S	OGDH_uc003tlm.2_Missense_Mutation_p.N373S|OGDH_uc011kbx.1_Missense_Mutation_p.N369S|OGDH_uc011kby.1_Missense_Mutation_p.N223S|OGDH_uc003tlp.2_Missense_Mutation_p.N384S|OGDH_uc011kbz.1_Missense_Mutation_p.N168S|OGDH_uc003tlo.1_Missense_Mutation_p.N206S	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	373					glycolysis|lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|mitochondrial membrane	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			upper_aerodigestive_tract(1)|ovary(1)	2					NADH(DB00157)	TTGGTGGCCAACCCTTCCCAC	0.562													11	160					0	0	0.010729	0	0		G	44715660	G	G	44715660	3	3	191	1	0	0	0	0	1	0	0	0	10858	43	2	3	1243	3	OGDH	7	44715660	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	610880	44715660	114423003	337	95959											
CCM2	83605	broad.mit.edu	37	chr7	45109526	45109526	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgatatttgatggggcCtctaccccgacccaccacct	9	8	9	15	2	1	2	0	1	1	1	1	4	1	2	6	2	2	0	6	2	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:45109526C>A	uc003tmo.2	+	6	857	c.711C>A	c.(709-711)GCC>GCA	p.A237A	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Silent_p.A179A|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Intron|CCM2_uc011kcb.1_Silent_p.A200A|CCM2_uc011kcc.1_3'UTR|CCM2_uc003tms.2_Silent_p.A258A	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	237	PID.				endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						TTGATGGGGCCTCTACCCCGA	0.607									Familial_Cerebral_Cavernous_Angioma				32	119					4.31634e-10	4.80275e-10	0.012213	1	0		A	45109526	A	A	45109526	2	1	191	1	0	0	0	0	0	0	0	1	2911	668	24	5		5	CCM2	7	45109526	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	393866	45109526	114029137	338	95960											
CCM2	83605	broad.mit.edu	37	chr7	45115560	45115560	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagctctgatgaccggtcGgcaccctcagagggggatga	8	6	16	11	2	2	4	1	3	1	1	3	5	2	5	2	5	1	3	2	5	0	0	rs147293659		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:45115560G>A	uc003tmo.2	+	10	1385	c.1239G>A	c.(1237-1239)TCG>TCA	p.S413S	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Silent_p.S355S|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Silent_p.S322S|CCM2_uc003tms.2_Silent_p.S434S	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	413					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						ATGACCGGTCGGCACCCTCAG	0.622									Familial_Cerebral_Cavernous_Angioma				20	54					0	0	0.008871	0	0		A	45115560	A	A	45115560	2	1	191	1	0	0	0	0	0	0	0	1	2911	1103	39	1		1	CCM2	7	45115560	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6034	45115560	114023103	339	95961											
PKD1L1	168507	broad.mit.edu	37	chr7	47851502	47851502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaggggacgagactcccCgtagggaggatctccactct	9	7	14	11	2	2	2	0	1	2	1	4	7	3	5	3	4	0	1	3	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:47851502C>T	uc003tny.1	-	50	7494	c.7494G>A	c.(7492-7494)ACG>ACA	p.T2498T	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_Silent_p.T225T	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2498	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CGAGACTCCCCGTAGGGAGGA	0.587													4	24					0	0	0.009096	0	0		T	47851502	T	T	47851502	2	4	191	1	0	0	0	0	0	0	0	1	11983	639	23	1		1	PKD1L1	7	47851502	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2735942	47851502	111287161	340	95962											
PKD1L1	168507	broad.mit.edu	37	chr7	47968829	47968829	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggtggtaggcagtcacCgccattgcctcagacatgtt	8	11	11	11	1	2	1	2	0	0	1	2	1	2	1	3	3	2	3	3	3	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:47968829C>T	uc003tny.1	-	7	1032	c.1032G>A	c.(1030-1032)GCG>GCA	p.A344A		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	344	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGGCAGTCACCGCCATTGCCT	0.527													53	201					0	0	0.01441	0	0		T	47968829	T	T	47968829	2	4	191	1	0	0	0	0	0	0	0	1	11983	639	23	1		1	PKD1L1	7	47968829	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	117327	47968829	111169834	341	95963											
EGFR	1956	broad.mit.edu	37	chr7	55087030	55087030	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggctgcgctctgcccGgcgagtcgggctctggagga	3	8	17	13	4	2	0	0	0	2	0	3	3	2	2	1	5	3	4	1	5	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:55087030G>A	uc003tqk.2	+	1	306	c.60G>A	c.(58-60)CCG>CCA	p.P20P	EGFR_uc003tqh.2_Silent_p.P20P|EGFR_uc003tqi.2_Silent_p.P20P|EGFR_uc003tqj.2_Silent_p.P20P|EGFR_uc010kzg.1_Silent_p.P20P	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	20					activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CGCTCTGCCCGGCGAGTCGGG	0.488		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			4	25					0	0	0.001168	0	0		A	55087030	A	A	55087030	2	1	191	1	0	0	0	0	0	0	0	1	4973	1103	39	1		1	EGFR	7	55087030	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7118201	55087030	104051633	342	95964											
GBAS	2631	broad.mit.edu	37	chr7	56065092	56065092	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagaccagggaagacatacGgaatgcagcatggcacaaac	16	4	11	10	1	1	2	1	0	0	2	1	4	1	4	1	3	4	3	1	3	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:56065092G>A	uc003tre.1	+	9	754	c.746G>A	c.(745-747)CGG>CAG	p.R249Q	GBAS_uc003trf.1_Missense_Mutation_p.R210Q	NM_001483	NP_001474	O75323	NIPS2_HUMAN	nipsnap homolog 2	249						integral to plasma membrane|membrane fraction|mitochondrion	protein binding			central_nervous_system(1)	1	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			GAAGACATACGGAATGCAGCA	0.403													25	73					0	0	0.004656	0	0		A	56065092	A	A	56065092	3	1	191	1	0	0	0	0	1	0	0	0	6284	1116	39	1	780	1	GBAS	7	56065092	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	978062	56065092	103073571	343	95965											
PSPH	5723	broad.mit.edu	37	chr7	56087422	56087422	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccccgcccatggctcgcCgtgtcctaggagggagaccc	5	6	13	17	3	0	1	0	0	0	1	2	3	1	2	6	3	1	1	6	3	1	1	rs144281276	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:56087422C>A	uc003trg.2	-	4	509	c.146G>T	c.(145-147)CGG>CTG	p.R49L	PSPH_uc003trh.2_Missense_Mutation_p.R49L|PSPH_uc003tri.2_Missense_Mutation_p.R49L|PSPH_uc003trj.2_Missense_Mutation_p.R78L	NM_004577	NP_004568	P78330	SERB_HUMAN	phosphoserine phosphatase	49					L-serine biosynthetic process	cytoplasm	calcium ion binding|magnesium ion binding|phosphoserine phosphatase activity|protein homodimerization activity			ovary(1)|skin(1)	2	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CATGGCTCGCCGTGTCCTAGG	0.602													10	43					6.40141e-05	6.7591e-05	0.010729	1	0		A	56087422	A	A	56087422	3	1	191	1	0	0	0	0	1	0	0	0	12739	652	23	5	547	5	PSPH	7	56087422	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	22330	56087422	103051241	344	95966											
SBDS	51119	broad.mit.edu	37	chr7	66453459	66453459	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattagctcatcaatttctcGgaagcagcccgggtcaatca	11	11	8	11	2	5	0	4	0	1	0	6	1	5	1	1	2	3	2	1	2	5	3	rs113993998		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:66453459G>A	uc003tvm.1	-	5	836	c.652C>T	c.(652-654)CGA>TGA	p.R218*		NM_016038	NP_057122	Q9Y3A5	SBDS_HUMAN	Shwachman-Bodian-Diamond syndrome protein	218					bone marrow development|bone mineralization|leukocyte chemotaxis|mature ribosome assembly|mitotic spindle stabilization|positive regulation of translation|ribosomal large subunit biogenesis|rRNA processing	cytoplasm|nucleolus|nucleoplasm|spindle pole	microtubule binding|ribosome binding|rRNA binding			ovary(1)	1						TCAATTTCTCGGAAGCAGCCC	0.383			Gene Conversion			AML|MDS			Shwachman-Diamond_syndrome				18	57					0	0	0.00499	0	0		A	66453459	A	A	66453459	4	1	191	1	0	0	0	0	0	1	0	0	13882	1124	39	1	104	1	SBDS	7	66453459	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	10366037	66453459	92685204	345	95967											
WBSCR17	64409	broad.mit.edu	37	chr7	70885960	70885960	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctcccctccattgacaaCatcaaacaggacaactttga	14	9	4	14	0	1	2	1	2	0	0	4	3	4	3	4	1	3	0	4	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:70885960C>T	uc003tvy.2	+	5	831	c.831C>T	c.(829-831)AAC>AAT	p.N277N	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	277	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CCATTGACAACATCAAACAGG	0.532													45	279					0	0	0.01441	0	0		T	70885960	T	T	70885960	2	4	191	1	0	0	0	0	0	0	0	1	17290	477	17	4		4	WBSCR17	7	70885960	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4432501	70885960	88252703	346	95968											
POM121	9883	broad.mit.edu	37	chr7	72413459	72413459	+	Missense_Mutation	SNP	A	G	G	1	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	gcccgcatttggggccgctgAggggcagccaccgggggccg	4	4	19	14	4	0	1	0	1	0	0	0	1	0	1	5	6	1	3	5	6	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:72413459A>G	uc003twk.2	+	11	2927	c.2927A>G	c.(2926-2928)GAG>GGG	p.E976G	POM121_uc003twj.2_Missense_Mutation_p.E711G|POM121_uc010lam.1_Missense_Mutation_p.E711G	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	976	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GGGGCCGCTGAGGGGCAGCCA	0.657													13	124					0	0	0.00499	0	0		G	72413459	G	G	72413459	3	3	191	1	0	0	0	0	1	0	0	0	12258	304	11	3	2170	3	POM121	7	72413459	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1527499	72413459	86725204	347	95969											
NSUN5	55695	broad.mit.edu	37	chr7	72717909	72717909	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagcacgtggagtagacgagCcgctgcagggaagggaaagt	12	4	18	7	3	0	1	0	0	0	1	0	6	0	4	1	3	3	4	1	3	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:72717909C>T	uc003txw.2	-	8	1095	c.1059G>A	c.(1057-1059)CGG>CGA	p.R353R	FKBP6_uc003twz.2_Intron|NSUN5_uc003txv.2_Silent_p.R353R|NSUN5_uc003txx.2_Silent_p.R315R|NSUN5_uc011kev.1_Silent_p.R353R	NM_018044	NP_060514	Q96P11	NSUN5_HUMAN	NOL1/NOP2/Sun domain family, member 5 isoform 2	353							methyltransferase activity				0		Lung NSC(55;0.163)				AGTAGACGAGCCGCTGCAGGG	0.677													13	32					0	0	0.013537	0	0		T	72717909	T	T	72717909	2	4	191	1	0	0	0	0	0	0	0	1	10700	726	26	2		2	NSUN5	7	72717909	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	304450	72717909	86420754	348	95970											
LIMK1	3984	broad.mit.edu	37	chr7	73510958	73510958	+	Silent	SNP	T	C	C	0	1	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	cccctctcctgcaggtgttgTgactgcagtgcctccctgtc	3	12	10	16	0	1	1	0	1	1	0	4	1	2	1	5	1	3	3	5	1	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:73510958T>C	uc003uaa.1	+	3	324	c.159T>C	c.(157-159)TGT>TGC	p.C53C	RFC2_uc011kfa.1_Intron|LIMK1_uc010lbl.1_RNA|LIMK1_uc003uab.2_Silent_p.C19C|LIMK1_uc003uac.1_5'Flank	NM_002314	NP_002305	P53667	LIMK1_HUMAN	LIM domain kinase 1	53	LIM zinc-binding 1.				actin cytoskeleton organization|axon guidance|negative regulation of ubiquitin-protein ligase activity|positive regulation of actin filament bundle assembly|positive regulation of axon extension|Rho protein signal transduction	cytosol|growth cone|nucleus	ATP binding|heat shock protein binding|protein serine/threonine kinase activity|zinc ion binding			stomach(2)|ovary(1)	3		Lung NSC(55;0.137)				GCAGGTGTTGTGACTGCAGTG	0.612													16	42					0	0	0.004007	0	0		C	73510958	C	C	73510958	2	2	191	1	0	0	0	0	0	0	0	1	8817	1702	59	3		3	LIMK1	7	73510958	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	793049	73510958	85627705	349	95971											
CLIP2	7461	broad.mit.edu	37	chr7	73768325	73768325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagaatgatggggcggtggCgggcaccaggtatggtgggc	8	6	21	6	2	0	2	0	1	0	1	0	3	0	2	1	8	0	2	1	8	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:73768325C>T	uc003uam.2	+	4	1121	c.794C>T	c.(793-795)GCG>GTG	p.A265V	CLIP2_uc003uan.2_Missense_Mutation_p.A265V	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	265	CAP-Gly 2.					microtubule associated complex				skin(3)	3						GGGGCGGTGGCGGGCACCAGG	0.652													46	184					0	0	0.01441	0	0		T	73768325	T	T	73768325	3	4	191	1	0	0	0	0	1	0	0	0	3536	768	27	1	804	1	CLIP2	7	73768325	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	257367	73768325	85370338	350	95972											
NCF1	653361	broad.mit.edu	37	chr7	74191648	74191648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaatggcaggacctgtcGgagaaggtggtctaccggcg	9	7	17	8	3	1	2	0	1	1	1	2	4	1	3	2	6	1	1	2	6	3	1	rs146173318	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:74191648G>A	uc003ubb.2	+	2	178	c.108G>A	c.(106-108)TCG>TCA	p.S36S	NCF1_uc010lbs.1_Silent_p.S36S|NCF1_uc011kfh.1_Silent_p.S36S	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	36	PX.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						AGGACCTGTCGGAGAAGGTGG	0.597													19	82					0	0	0.00333	0	0		A	74191648	A	A	74191648	2	1	191	1	0	0	0	0	0	0	0	1	10235	1103	39	1		1	NCF1	7	74191648	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	423323	74191648	84947015	351	95973											
PION	54103	broad.mit.edu	37	chr7	77010626	77010626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatttcaaatctttaccactCtatttccatcttcttgggcg	9	17	4	11	1	5	0	1	0	4	0	6	0	6	0	2	1	1	0	2	1	4	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:77010626C>T	uc003ugf.2	-	8	651	c.572G>A	c.(571-573)AGA>AAA	p.R191K	PION_uc003ugg.1_5'UTR	NM_017439	NP_059135	A4D1B5	GSAP_HUMAN	pigeon homolog	191					beta-amyloid formation|regulation of proteolysis	trans-Golgi network	beta-amyloid binding			central_nervous_system(1)	1						CTTTACCACTCTATTTCCATC	0.284													18	45					0	0	0.012319	0	0		T	77010626	T	T	77010626	3	4	191	1	0	0	0	0	1	0	0	0	11953	913	32	4	2088	4	PION	7	77010626	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2818978	77010626	82128037	352	95974											
PHTF2	57157	broad.mit.edu	37	chr7	77549656	77549656	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actgacaatggctatgtatcCcttgatgggaagaagactgt	12	11	11	7	0	0	4	0	2	0	2	1	5	1	5	1	2	0	2	1	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:77549656C>T	uc003ugs.3	+	9	963	c.837C>T	c.(835-837)TCC>TCT	p.S279S	PHTF2_uc003ugo.3_Silent_p.S241S|PHTF2_uc003ugp.2_Silent_p.S241S|PHTF2_uc003ugq.3_Silent_p.S241S|PHTF2_uc010ldv.2_Silent_p.S241S|PHTF2_uc003ugr.3_Silent_p.S245S|PHTF2_uc003ugt.3_Silent_p.S245S|PHTF2_uc003ugu.3_Silent_p.S241S|PHTF2_uc003ugv.2_Silent_p.S104S|PHTF2_uc010ldw.1_Silent_p.S104S	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	279					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						GCTATGTATCCCTTGATGGGA	0.368													11	37					0	0	0.010729	0	0		T	77549656	T	T	77549656	2	4	191	1	0	0	0	0	0	0	0	1	11882	610	22	4		4	PHTF2	7	77549656	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	539030	77549656	81589007	353	95975											
ABCB4	5244	broad.mit.edu	37	chr7	87049339	87049339	+	Missense_Mutation	SNP	A	G	G	1	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	ttagcattgctttaaaagccAttgaccgcagtcttctggtg	9	14	9	9	1	2	1	0	1	2	0	2	1	2	1	2	1	3	3	2	1	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:87049339A>G	uc003uiv.1	-	19	2445	c.2369T>C	c.(2368-2370)ATG>ACG	p.M790T	ABCB4_uc003uiw.1_Missense_Mutation_p.M790T|ABCB4_uc003uix.1_Missense_Mutation_p.M790T	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	790	ABC transmembrane type-1 2.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					TTTAAAAGCCATTGACCGCAG	0.413													53	209					0	0	0.01441	0	0		G	87049339	G	G	87049339	3	3	191	1	0	0	0	0	1	0	0	0	43	217	8	3	1531	3	ABCB4	7	87049339	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	9499683	87049339	72089324	354	95976											
ADAM22	53616	broad.mit.edu	37	chr7	87778316	87778316	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctatgggcactgtgtgcCgagaagcagtaaatgattgt	11	10	13	7	1	0	2	0	1	0	1	0	3	0	2	2	1	3	3	2	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:87778316C>T	uc003ujn.2	+	18	1589	c.1510C>T	c.(1510-1512)CGA>TGA	p.R504*	ADAM22_uc003ujk.1_Nonsense_Mutation_p.R504*|ADAM22_uc003ujl.1_Nonsense_Mutation_p.R504*|ADAM22_uc003ujm.2_Nonsense_Mutation_p.R504*|ADAM22_uc003ujo.2_Nonsense_Mutation_p.R504*|ADAM22_uc003ujp.1_Nonsense_Mutation_p.R556*	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	504	Disintegrin.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			CACTGTGTGCCGAGAAGCAGT	0.343													13	37					0	0	0.001855	0	0		T	87778316	T	T	87778316	4	4	191	1	0	0	0	0	0	1	0	0	244	644	23	1	1580	1	ADAM22	7	87778316	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	728977	87778316	71360347	355	95977											
AKAP9	10142	broad.mit.edu	37	chr7	91726403	91726403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actggattctttgcaaacacGacagcaaatggaaaaagata	18	8	8	7	1	1	1	0	0	1	1	1	4	1	3	0	2	3	2	0	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:91726403G>A	uc003ulg.2	+	41	10355	c.10130G>A	c.(10129-10131)CGA>CAA	p.R3377Q	AKAP9_uc003ulf.2_Missense_Mutation_p.R3369Q|AKAP9_uc003uli.2_Missense_Mutation_p.R3000Q|AKAP9_uc003ulj.2_Missense_Mutation_p.R1147Q|AKAP9_uc003ull.2_Missense_Mutation_p.R273Q	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3381	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTGCAAACACGACAGCAAATG	0.418			T	BRAF	papillary thyroid								7	39					0	0	0.001984	0	0		A	91726403	A	A	91726403	3	1	191	1	0	0	0	0	1	0	0	0	459	1058	37	1	10292	1	AKAP9	7	91726403	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3948087	91726403	67412260	356	95978											
ANKIB1	54467	broad.mit.edu	37	chr7	92027653	92027653	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taatgaagcatccttaggtgCgataggcacttctttacctt	10	14	8	9	1	1	1	0	1	1	0	2	2	2	1	2	2	3	2	2	2	5	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:92027653C>T	uc003ulw.2	+	20	3036	c.2660C>T	c.(2659-2661)GCG>GTG	p.A887V	ANKIB1_uc010lew.1_Missense_Mutation_p.A156V	NM_019004	NP_061877	Q9P2G1	AKIB1_HUMAN	ankyrin repeat and IBR domain containing 1	887							protein binding|zinc ion binding			lung(1)	1	all_cancers(62;2.06e-09)|all_epithelial(64;9.24e-09)|Breast(17;0.0034)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|all cancers(6;0.00183)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TCCTTAGGTGCGATAGGCACT	0.488													10	29					0	0	0.013537	0	0		T	92027653	T	T	92027653	3	4	191	1	0	0	0	0	1	0	0	0	630	768	27	1	2734	1	ANKIB1	7	92027653	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	301250	92027653	67111010	357	95979											
PPP1R9A	55607	broad.mit.edu	37	chr7	94740584	94740584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actacaggttttcaacacatActccaatgaagactatgaca	16	10	5	10	0	1	3	1	2	0	1	2	3	2	3	1	1	3	1	1	1	6	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:94740584A>G	uc003unp.2	+	3	1691	c.1409A>G	c.(1408-1410)TAC>TGC	p.Y470C	PPP1R9A_uc010lfj.2_Missense_Mutation_p.Y470C|PPP1R9A_uc011kif.1_Missense_Mutation_p.Y470C|PPP1R9A_uc003unq.2_Missense_Mutation_p.Y470C|PPP1R9A_uc011kig.1_Missense_Mutation_p.Y470C	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	470	Interacts with protein phosphatase 1 (By similarity).					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			TTCAACACATACTCCAATGAA	0.373										HNSCC(28;0.073)			20	53					0	0	0.010504	0	0		G	94740584	G	G	94740584	3	3	191	1	0	0	0	0	1	0	0	0	12400	391	14	3	1415	3	PPP1R9A	7	94740584	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2712931	94740584	64398079	358	95980											
DYNC1I1	1780	broad.mit.edu	37	chr7	95665061	95665061	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctacacggcttgtcgtcatgGaaggtgatttttctgtttct	6	17	10	8	2	3	1	1	1	2	0	4	2	3	2	0	3	1	2	0	3	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:95665061G>T	uc003uoc.3	+	13	1689	c.1412G>T	c.(1411-1413)GGA>GTA	p.G471V	DYNC1I1_uc003uod.3_Missense_Mutation_p.G454V|DYNC1I1_uc003uob.2_Missense_Mutation_p.G434V|DYNC1I1_uc003uoe.3_Missense_Mutation_p.G451V|DYNC1I1_uc010lfl.2_Missense_Mutation_p.G460V	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	471	WD 4.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TGTCGTCATGGAAGGTGATTT	0.438													29	175					6.07407e-21	7.08211e-21	0.007291	1	0		T	95665061	T	T	95665061	3	4	191	1	0	0	0	0	1	0	0	0	4848	1174	41	5	1458	5	DYNC1I1	7	95665061	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	924477	95665061	63473602	359	95981											
DLX5	1749	broad.mit.edu	37	chr7	96650072	96650072	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagagtgtcccggaggccagCgccagcgggtgctgtaagga	8	6	17	10	3	0	1	0	0	0	1	1	3	1	3	3	4	3	2	3	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:96650072C>T	uc003uon.2	-	3	1054	c.846G>A	c.(844-846)GCG>GCA	p.A282A		NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	282					cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	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)					CGGAGGCCAGCGCCAGCGGGT	0.522													10	104					0	0	0.010729	0	0		T	96650072	T	T	96650072	2	4	191	1	0	0	0	0	0	0	0	1	4580	755	27	1		1	DLX5	7	96650072	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	985011	96650072	62488591	360	95982											
ASNS	440	broad.mit.edu	37	chr7	97483924	97483924	+	Silent	SNP	A	G	G	1	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	gtagttcgatctgcgcggagAacatcaaacaaatagagttc	14	9	10	8	3	2	2	1	0	1	2	4	4	2	2	0	1	3	3	0	1	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:97483924A>G	uc003uot.3	-	10	1712	c.1206T>C	c.(1204-1206)GTT>GTC	p.V402V	ASNS_uc011kin.1_Silent_p.V319V|ASNS_uc003uou.3_Silent_p.V402V|ASNS_uc003uov.3_Silent_p.V402V|ASNS_uc011kio.1_Silent_p.V381V|ASNS_uc003uow.3_Silent_p.V381V|ASNS_uc003uox.3_Silent_p.V319V	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	402	Asparagine synthetase.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CTGCGCGGAGAACATCAAACA	0.353													26	107					0	0	0.00632	0	0		G	97483924	G	G	97483924	2	3	191	1	0	0	0	0	0	0	0	1	1049	233	9	3		3	ASNS	7	97483924	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	833852	97483924	61654739	361	95983											
LMTK2	22853	broad.mit.edu	37	chr7	97822375	97822375	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagacgctgtgactgtcccGgttgaaattctctcaactga	9	11	9	12	2	2	4	1	3	1	1	4	4	3	4	2	1	1	2	2	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:97822375G>A	uc003upd.1	+	11	2891	c.2598G>A	c.(2596-2598)CCG>CCA	p.P866P		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	866					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					TGACTGTCCCGGTTGAAATTC	0.557													10	68					0	0	0.006214	0	0		A	97822375	A	A	97822375	2	1	191	1	0	0	0	0	0	0	0	1	8876	1103	39	1		1	LMTK2	7	97822375	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	338451	97822375	61316288	362	95984											
CYP3A7	1551	broad.mit.edu	37	chr7	99315208	99315208	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatcgtattctcttccattCttcatcctcagctatagaga	9	16	5	11	1	4	2	2	1	2	1	8	3	6	2	2	0	1	2	2	0	3	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:99315208C>A	uc003uru.2	-	5	478	c.373G>T	c.(373-375)GAA>TAA	p.E125*	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	125					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					CTCTTCCATTCTTCATCCTCA	0.393													14	78					2.31682e-05	2.47008e-05	0.003163	1	0		A	99315208	A	A	99315208	4	1	191	1	0	0	0	0	0	1	0	0	4184	922	32	5	1174	5	CYP3A7	7	99315208	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1492833	99315208	59823455	363	95985											
C7orf61	402573	broad.mit.edu	37	chr7	100054446	100054446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggggcagcatggcatcggaCgtggtgccgtctgtgcctct	4	9	17	11	3	2	0	0	0	2	0	3	1	2	1	2	5	3	3	2	5	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:100054446C>T	uc003uuz.1	-	3	796	c.550G>A	c.(550-552)GTC>ATC	p.V184I		NM_001004323	NP_001004323	Q8IZ16	CG061_HUMAN	hypothetical protein LOC402573	184											0						TGGCATCGGACGTGGTGCCGT	0.647													4	33					0	0	0.000602	0	0		T	100054446	T	T	100054446	3	4	191	1	0	0	0	0	1	0	0	0	2411	536	19	1	74	1	C7orf61	7	100054446	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	739238	100054446	59084217	364	95986											
EPHB4	2050	broad.mit.edu	37	chr7	100404108	100404108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctcccacatcacaatcccGtaactccaggcatcactggc	11	7	5	18	1	2	0	2	0	0	0	5	0	5	0	4	2	1	2	4	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:100404108G>A	uc003uwn.1	-	14	2909	c.2418C>T	c.(2416-2418)TAC>TAT	p.Y806Y	EPHB4_uc003uwm.1_Silent_p.Y713Y|EPHB4_uc010lhj.1_Silent_p.Y806Y	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	806	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					TCACAATCCCGTAACTCCAGG	0.552													31	128					0	0	0.003271	0	0		A	100404108	A	A	100404108	2	1	191	1	0	0	0	0	0	0	0	1	5185	1140	40	1		1	EPHB4	7	100404108	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	349662	100404108	58734555	365	95987											
MUC17	140453	broad.mit.edu	37	chr7	100680308	100680308	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggaagcactgcattaacaAgtatacctgtcagcaccaca	16	7	7	11	0	1	0	1	0	0	0	1	1	1	1	2	1	5	4	2	1	6	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:100680308A>C	uc003uxp.1	+	3	5664	c.5611A>C	c.(5611-5613)AGT>CGT	p.S1871R	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1871	Extracellular (Potential).|Ser-rich.|29.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TGCATTAACAAGTATACCTGT	0.498													34	484					0	0	0.01441	0	0		C	100680308	C	C	100680308	3	2	191	1	0	0	0	0	1	0	0	0	9992	72	3	5	5621	5	MUC17	7	100680308	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	276200	100680308	58458355	366	95988											
MUC17	140453	broad.mit.edu	37	chr7	100680331	100680331	+	Silent	SNP	A	G	G	1	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	atacctgtcagcaccacaacAgtggccagttctgaaaccaa	14	7	7	13	0	2	1	1	1	1	0	2	1	2	1	4	1	4	2	4	1	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:100680331A>G	uc003uxp.1	+	3	5687	c.5634A>G	c.(5632-5634)ACA>ACG	p.T1878T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1878	Extracellular (Potential).|Ser-rich.|29.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GCACCACAACAGTGGCCAGTT	0.493													30	498					0	0	0.01441	0	0		G	100680331	G	G	100680331	2	3	191	1	0	0	0	0	0	0	0	1	9992	175	7	3		3	MUC17	7	100680331	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	23	100680331	58458332	367	95989											
MUC17	140453	broad.mit.edu	37	chr7	100683647	100683647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccaatctcaactcctggcGaaagaagaactccattaaca	15	8	6	12	1	1	2	1	0	1	2	4	3	3	2	3	1	4	0	3	1	6	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:100683647G>A	uc003uxp.1	+	3	9003	c.8950G>A	c.(8950-8952)GAA>AAA	p.E2984K	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2984	Extracellular (Potential).|Ser-rich.|48.|59 X approximate tandem repeats.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					AACTCCTGGCGAAAGAAGAAC	0.512													14	659					0	0	0.001855	0	0		A	100683647	A	A	100683647	3	1	191	1	0	0	0	0	1	0	0	0	9992	1059	37	1	8960	1	MUC17	7	100683647	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3316	100683647	58455016	368	95990											
MUC17	140453	broad.mit.edu	37	chr7	100686859	100686859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatcagaatccagcaggccGtcaacaattacttctcacac	13	9	5	14	1	4	1	4	0	1	1	6	1	5	1	2	1	3	1	2	1	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:100686859G>A	uc003uxp.1	+	3	12215	c.12162G>A	c.(12160-12162)CCG>CCA	p.P4054P	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4054	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CCAGCAGGCCGTCAACAATTA	0.532													25	243					0	0	0.004656	0	0		A	100686859	A	A	100686859	2	1	191	1	0	0	0	0	0	0	0	1	9992	1132	40	1		1	MUC17	7	100686859	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3212	100686859	58451804	369	95991											
VGF	7425	broad.mit.edu	37	chr7	100806796	100806796	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcggatccatctcctcgtcGtcctcctcctccccgccctc	2	11	6	22	4	1	0	0	0	1	0	10	1	6	1	8	1	1	0	8	1	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:100806796G>C	uc003uxx.3	-	2	1547	c.1329C>G	c.(1327-1329)GAC>GAG	p.D443E		NM_003378	NP_003369	O15240	VGF_HUMAN	VGF nerve growth factor inducible precursor	443	Asp/Glu-rich (acidic).				response to cAMP	extracellular space|transport vesicle	growth factor activity				0	Lung NSC(181;0.168)|all_lung(186;0.215)					tctcctcgtcgtcctcctcct	0.483													5	17					0	0	0.001168	0	0		C	100806796	C	C	100806796	3	2	191	1	0	0	0	0	1	0	0	0	17183	1136	40	5	522	5	VGF	7	100806796	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	119937	100806796	58331867	370	95992											
PIK3CG	5294	broad.mit.edu	37	chr7	106520077	106520077	+	Silent	SNP	T	C	C	0	1	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	ggaattatctttaaacatggTgatgatctgcgccaagacat	13	12	9	7	1	2	3	0	2	2	1	2	4	2	4	1	2	2	0	1	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:106520077T>C	uc003vdv.3	+	6	2590	c.2505T>C	c.(2503-2505)GGT>GGC	p.G835G	PIK3CG_uc003vdu.2_Silent_p.G835G|PIK3CG_uc003vdw.2_Silent_p.G835G	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	835	PI3K/PI4K.				G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						TTAAACATGGTGATGATCTGC	0.328													16	53					0	0	0.004007	0	0		C	106520077	C	C	106520077	2	2	191	1	0	0	0	0	0	0	0	1	11935	1683	59	3		3	PIK3CG	7	106520077	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	5713281	106520077	52618586	371	95993											
LRRN3	54674	broad.mit.edu	37	chr7	110763232	110763232	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tactgaactgcctgaaaaatGtctgtccgaactgagcaact	13	10	8	10	1	1	3	0	3	1	0	2	4	2	3	2	0	6	1	2	0	6	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:110763232G>T	uc003vft.3	+	4	1450	c.404G>T	c.(403-405)TGT>TTT	p.C135F	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.C135F|LRRN3_uc003vfs.3_Missense_Mutation_p.C135F	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	135	LRR 3.|Extracellular (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		CCTGAAAAATGTCTGTCCGAA	0.363													7	97					5.18039e-06	5.55549e-06	0.00308	1	0		T	110763232	T	T	110763232	3	4	191	1	0	0	0	0	1	0	0	0	9054	1377	48	5	406	5	LRRN3	7	110763232	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4243155	110763232	48375431	372	95994											
LRRN3	54674	broad.mit.edu	37	chr7	110764173	110764173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcactgtagagctactgcaGaaccacagcctgaaatctac	13	9	7	12	0	2	3	1	1	1	2	2	3	2	3	2	0	6	3	2	0	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:110764173G>A	uc003vft.3	+	4	2391	c.1345G>A	c.(1345-1347)GAA>AAA	p.E449K	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.E449K|LRRN3_uc003vfs.3_Missense_Mutation_p.E449K	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	449	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AGCTACTGCAGAACCACAGCC	0.428													57	190					0	0	0.01441	0	0		A	110764173	A	A	110764173	3	1	191	1	0	0	0	0	1	0	0	0	9054	943	33	4	1347	4	LRRN3	7	110764173	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	941	110764173	48374490	373	95995											
IFRD1	3475	broad.mit.edu	37	chr7	112095822	112095822	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcttttacctaataggtggCcagcatcgaaatgttcagcc	10	12	8	11	1	2	0	1	0	1	0	3	1	2	0	3	2	3	2	3	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:112095822C>T	uc003vgh.2	+	3	542	c.99C>T	c.(97-99)GGC>GGT	p.G33G	IFRD1_uc011kmn.1_5'UTR|IFRD1_uc003vgi.2_Silent_p.G33G|IFRD1_uc003vgj.2_Silent_p.G33G|IFRD1_uc011kmo.1_RNA|IFRD1_uc011kmp.1_5'UTR	NM_001007245	NP_001007246	O00458	IFRD1_HUMAN	interferon-related developmental regulator 1	33					multicellular organismal development|myoblast cell fate determination		binding			kidney(1)|central_nervous_system(1)	2						TAATAGGTGGCCAGCATCGAA	0.343													20	59					0	0	0.012319	0	0		T	112095822	T	T	112095822	2	4	191	1	0	0	0	0	0	0	0	1	7569	726	26	2		2	IFRD1	7	112095822	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1331649	112095822	47042841	374	95996											
CTTNBP2	83992	broad.mit.edu	37	chr7	117513419	117513419	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggcccccgccgcgtcCtccggggcccgggacaagtc	3	3	15	20	7	0	0	0	0	0	0	3	1	2	1	7	4	0	0	7	4	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:117513419C>A	uc003vjf.2	-	1	143	c.51G>T	c.(49-51)GAG>GAT	p.E17D		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	17										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		ccgccgcgtcctccggggccc	0.453													4	5					0.00909568	0.00943128	0.009096	1	0		A	117513419	A	A	117513419	3	1	191	1	0	0	0	0	1	0	0	0	4048	680	24	5	5032	5	CTTNBP2	7	117513419	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5417597	117513419	41625244	375	95997											
CADPS2	93664	broad.mit.edu	37	chr7	122261693	122261693	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttccaaattggccattaGcaaattcactgaagaccgca	14	10	6	11	1	1	2	1	1	0	1	2	2	2	2	3	1	1	2	3	1	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:122261693G>T	uc010lkp.2	-	5	1109	c.946C>A	c.(946-948)CTA>ATA	p.L316I	CADPS2_uc003vkg.3_Missense_Mutation_p.L16I|CADPS2_uc010lkq.2_Missense_Mutation_p.L316I	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	316					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						TTGGCCATTAGCAAATTCACT	0.318													25	101					4.43304e-23	5.20751e-23	0.00632	1	0		T	122261693	T	T	122261693	3	4	191	1	0	0	0	0	1	0	0	0	2574	962	34	5	3092	5	CADPS2	7	122261693	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4748274	122261693	36876970	376	95998											
FSCN3	29999	broad.mit.edu	37	chr7	127235677	127235677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctacagccccatccaccGctgctatgcccgggctgacc	6	7	8	20	2	1	1	0	1	1	0	2	1	2	1	7	1	4	3	7	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:127235677G>A	uc003vmd.1	+	2	680	c.461G>A	c.(460-462)CGC>CAC	p.R154H	FSCN3_uc003vmc.1_Missense_Mutation_p.R109H|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Missense_Mutation_p.R20H|FSCN3_uc010llc.1_Missense_Mutation_p.R154H	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	154						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						CCCATCCACCGCTGCTATGCC	0.607													24	92					0	0	0.005443	0	0		A	127235677	A	A	127235677	3	1	191	1	0	0	0	0	1	0	0	0	6083	1087	38	1	467	1	FSCN3	7	127235677	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4973984	127235677	31902986	377	95999											
CCDC136	64753	broad.mit.edu	37	chr7	128451976	128451976	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagcggaagaggctgcaGgcagacttgcagctctgcct	9	6	16	10	1	1	2	0	0	1	2	1	5	1	4	1	4	5	5	1	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:128451976G>A	uc003vnv.1	+	13	2518	c.2151G>A	c.(2149-2151)CAG>CAA	p.Q717Q	CCDC136_uc003vnu.1_Intron|CCDC136_uc003vnw.1_Intron|CCDC136_uc003vnx.1_Silent_p.Q533Q|CCDC136_uc010llq.1_Silent_p.Q86Q|CCDC136_uc003vny.1_Silent_p.Q327Q	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	717	Potential.					integral to membrane	protein binding			ovary(2)	2						AGAGGCTGCAGGCAGACTTGC	0.557													5	165					0	0	0.000602	0	0		A	128451976	A	A	128451976	2	1	191	1	0	0	0	0	0	0	0	1	2773	991	35	4		4	CCDC136	7	128451976	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1216299	128451976	30686687	378	96000											
NRF1	4899	broad.mit.edu	37	chr7	129394886	129394886	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagatccctgtgagcatgtaCcagactgtggtgaccagcct	9	9	11	12	0	0	4	0	2	0	2	1	4	1	4	4	1	3	2	4	1	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:129394886C>T	uc003voz.2	+	11	1494	c.1377C>T	c.(1375-1377)TAC>TAT	p.Y459Y	NRF1_uc003vpa.2_Silent_p.Y478Y|NRF1_uc011kpa.1_Silent_p.Y298Y|NRF1_uc003vpb.2_Silent_p.Y459Y	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1	459	Required for transcriptional activation.				generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						TGAGCATGTACCAGACTGTGG	0.622													25	81					0	0	0.005443	0	0		T	129394886	T	T	129394886	2	4	191	1	0	0	0	0	0	0	0	1	10665	518	18	4		4	NRF1	7	129394886	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	942910	129394886	29743777	379	96001											
PLXNA4	91584	broad.mit.edu	37	chr7	131872350	131872350	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcccccggctgggcttcagaTctgagagagtcagtgtctgt	6	10	14	11	1	4	3	2	1	2	2	4	4	4	3	2	2	0	2	2	2	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:131872350T>A	uc003vra.3	-	15	3102	c.2873A>T	c.(2872-2874)GAT>GTT	p.D958V		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	958	IPT/TIG 2.|Extracellular (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GGGCTTCAGATCTGAGAGAGT	0.597													81	260					0	0	0.01441	0	0		A	131872350	A	A	131872350	3	1	191	1	0	0	0	0	1	0	0	0	12141	1435	50	5	2883	5	PLXNA4	7	131872350	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2477464	131872350	27266313	380	96002											
BPGM	669	broad.mit.edu	37	chr7	134346262	134346262	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggaagttcagccatcagtatGtccaagtacaaacttattat	14	12	7	8	0	2	0	2	0	0	0	3	1	3	1	2	1	3	3	2	1	7	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:134346262G>A	uc003vrv.2	+	3	544	c.3G>A	c.(1-3)ATG>ATA	p.M1I	BPGM_uc003vrw.2_Missense_Mutation_p.M1I|BPGM_uc003vrx.2_Missense_Mutation_p.M1I	NM_199186	NP_954655	P07738	PMGE_HUMAN	bisphosphoglycerate mutase	1					glycolysis|respiratory gaseous exchange		2,3-bisphospho-D-glycerate 2-phosphohydrolase activity|bisphosphoglycerate mutase activity|phosphoglycerate mutase activity				0						CCATCAGTATGTCCAAGTACA	0.398													4	102					0	0	0.001168	0	0		A	134346262	A	A	134346262	3	1	191	1	0	0	0	0	1	0	0	0	1491	1377	48	4	5	4	BPGM	7	134346262	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2473912	134346262	24792401	381	96003											
KIAA1549	57670	broad.mit.edu	37	chr7	138603975	138603975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaaagatgctgggatctgCtgtacttttggtctgttttc	7	16	10	8	0	2	1	0	0	2	1	3	2	2	2	0	2	3	4	0	2	2	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:138603975C>T	uc011kql.1	-	2	446	c.397G>A	c.(397-399)GCA>ACA	p.A133T	KIAA1549_uc003vuk.3_Missense_Mutation_p.A83T|KIAA1549_uc011kqj.1_Missense_Mutation_p.A133T	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	133						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CTGGGATCTGCTGTACTTTTG	0.498			O	BRAF	pilocytic astrocytoma								18	332					0	0	0.014323	0	0		T	138603975	T	T	138603975	3	4	191	1	0	0	0	0	1	0	0	0	8260	797	28	2	5531	2	KIAA1549	7	138603975	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4257713	138603975	20534688	382	96004											
JHDM1D	80853	broad.mit.edu	37	chr7	139791777	139791777	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatatactttccattctgaAggcttgagccgctgctgtcc	7	13	9	12	1	1	2	0	2	1	0	3	2	3	2	3	1	3	4	3	1	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:139791777A>C	uc003vvm.2	-	19	2562	c.2558T>G	c.(2557-2559)CTT>CGT	p.L853R	JHDM1D_uc010lng.2_RNA	NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	853					midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					TCCATTCTGAAGGCTTGAGCC	0.453													25	67					0	0	0.00333	0	0		C	139791777	C	C	139791777	3	2	191	1	0	0	0	0	1	0	0	0	7964	72	3	5	275	5	JHDM1D	7	139791777	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1187802	139791777	19346886	383	96005											
SLC37A3	84255	broad.mit.edu	37	chr7	140051148	140051148	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaacagaactatcatcttgGattgaataattcggctcata	14	12	7	8	1	3	2	2	1	1	1	4	3	3	3	0	2	2	2	0	2	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:140051148G>A	uc003vvo.2	-	9	973	c.807C>T	c.(805-807)ATC>ATT	p.I269I	SLC37A3_uc003vvp.2_Silent_p.I269I|SLC37A3_uc010lnh.2_Silent_p.I269I|SLC37A3_uc011kqz.1_RNA|SLC37A3_uc011kra.1_3'UTR|SLC37A3_uc011krb.1_3'UTR	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	269					carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					TATCATCTTGGATTGAATAAT	0.438													6	149					0	0	0.001168	0	0		A	140051148	A	A	140051148	2	1	191	1	0	0	0	0	0	0	0	1	14624	1164	41	4		4	SLC37A3	7	140051148	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	259371	140051148	19087515	384	96006											
DENND2A	27147	broad.mit.edu	37	chr7	140269471	140269471	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctgagttgctctccattgacTgggacagcctcttcacccgt	6	12	9	14	1	3	2	1	2	2	0	4	3	3	3	3	1	2	2	3	1	0	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:140269471T>G	uc010lnj.2	-	5	1659	c.1514A>C	c.(1513-1515)CAG>CCG	p.Q505P	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.Q505P|DENND2A_uc003vvw.2_Missense_Mutation_p.Q505P|DENND2A_uc003vvx.2_Missense_Mutation_p.Q505P	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	505										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					CTCCATTGACTGGGACAGCCT	0.522													51	253					0	0	0.01441	0	0		G	140269471	G	G	140269471	3	3	191	1	0	0	0	0	1	0	0	0	4435	1580	55	5	1571	5	DENND2A	7	140269471	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	218323	140269471	18869192	385	96007											
EPHB6	2051	broad.mit.edu	37	chr7	142566348	142566348	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgggggcgccgaaagcctgCagatgaccttcctgggccgg	6	5	16	14	4	0	2	0	1	0	1	1	3	1	2	6	4	2	1	6	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:142566348C>T	uc011kst.1	+	15	2924	c.2137C>T	c.(2137-2139)CAG>TAG	p.Q713*	EPHB6_uc011ksu.1_Nonsense_Mutation_p.Q713*|EPHB6_uc003wbs.2_Nonsense_Mutation_p.Q421*|EPHB6_uc003wbt.2_Nonsense_Mutation_p.Q187*|EPHB6_uc003wbu.2_Nonsense_Mutation_p.Q421*|EPHB6_uc003wbv.2_Nonsense_Mutation_p.Q97*	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	713	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					CGAAAGCCTGCAGATGACCTT	0.687													6	46					0	0	0.001168	0	0		T	142566348	T	T	142566348	4	4	191	1	0	0	0	0	0	1	0	0	5186	711	25	2	2179	2	EPHB6	7	142566348	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2296877	142566348	16572315	386	96008											
EPHA1	2041	broad.mit.edu	37	chr7	143097071	143097071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcggcccagagagcagcGctccacattcagcttcacgg	9	5	12	15	3	2	1	2	0	0	1	3	2	3	1	2	3	3	3	2	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:143097071G>A	uc003wcz.2	-	4	595	c.508C>T	c.(508-510)CGC>TGC	p.R170C		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	170	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				AGAGAGCAGCGCTCCACATTC	0.622													16	27					0	0	0.006122	0	0		A	143097071	A	A	143097071	3	1	191	1	0	0	0	0	1	0	0	0	5173	1087	38	1	2482	1	EPHA1	7	143097071	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	530723	143097071	16041592	387	96009											
CNTNAP2	26047	broad.mit.edu	37	chr7	147600793	147600793	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaagtactactgtaactgCgacgcggactacaagcaatg	13	7	9	12	3	0	0	0	0	0	0	0	2	0	1	1	1	6	3	1	1	7	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:147600793C>T	uc003weu.1	+	14	2751	c.2235C>T	c.(2233-2235)TGC>TGT	p.C745C		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	745	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACTGTAACTGCGACGCGGACT	0.542										HNSCC(39;0.1)			6	27					0	0	0.001984	0	0		T	147600793	T	T	147600793	2	4	191	1	0	0	0	0	0	0	0	1	3650	776	27	1		1	CNTNAP2	7	147600793	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4503722	147600793	11537870	388	96010											
C7orf33	202865	broad.mit.edu	37	chr7	148311192	148311192	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttattgctcctgtatcagCtcccaccaaatctggtgccc	8	13	6	14	0	2	0	1	0	1	0	4	0	4	0	4	1	3	3	4	1	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:148311192C>A	uc003wew.2	+	2	624	c.263C>A	c.(262-264)GCT>GAT	p.A88D		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	88										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			CCTGTATCAGCTCCCACCAAA	0.502													28	89					7.38237e-10	8.18107e-10	0.00632	1	0		A	148311192	A	A	148311192	3	1	191	1	0	0	0	0	1	0	0	0	2391	797	28	5	269	5	C7orf33	7	148311192	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	710399	148311192	10827471	389	96011											
CUL1	8454	broad.mit.edu	37	chr7	148456394	148456394	+	Splice_Site	SNP	A	G	G	1	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	ttttgtacttttttttctccAgcttgcattggtgacttgga	5	21	8	7	0	1	1	0	1	1	0	2	2	1	2	1	2	3	3	1	2	1	10			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:148456394A>G	uc010lpg.2	+	5	1010	c.484_splice	c.e5-2	p.L162_splice	CUL1_uc003wey.2_Splice_Site_p.L162_splice|CUL1_uc003wez.2_Splice_Site_p.L52_splice	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			TTTTTTCTCCAGCTTGCATTG	0.368													27	88					0	0	0.009535	0	0		G	148456394	G	G	148456394	5	3	191	1	0	0	0	0	0	0	1	0	4057	202	7	3	496	3	CUL1	7	148456394	Splice_Site	SNP	A	TCGA-F1-6874-01A-11D-1882-08	145202	148456394	10682269	390	96012											
SSPO	23145	broad.mit.edu	37	chr7	149475959	149475959	+	Missense_Mutation	SNP	A	G	G	1	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	acaggactggctccatctccAtctctgtggaccacgagctc	8	9	9	15	1	2	0	0	0	2	0	6	3	3	2	3	3	1	2	3	3	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:149475959A>G	uc010lpk.2	+	7	925	c.925A>G	c.(925-927)ATC>GTC	p.I309V	SSPO_uc010lpl.1_5'UTR	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	309	VWFD 1.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTCCATCTCCATCTCTGTGGA	0.627													8	154					0	0	0.004482	0	0		G	149475959	G	G	149475959	3	3	191	1	0	0	0	0	1	0	0	0	15214	217	8	3	951	3	SSPO	7	149475959	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1019565	149475959	9662704	391	96013											
SSPO	23145	broad.mit.edu	37	chr7	149495203	149495203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggcaggaatcccccacGtccccgacaggtgtgtgcac	7	6	12	16	2	0	0	0	0	0	0	2	2	2	1	5	3	1	2	5	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:149495203G>A	uc010lpk.2	+	48	6951	c.6951G>A	c.(6949-6951)ACG>ACA	p.T2317T		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2317					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			AATCCCCCACGTCCCCGACAG	0.652													23	80					0	0	0.004656	0	0		A	149495203	A	A	149495203	2	1	191	1	0	0	0	0	0	0	0	1	15214	1132	40	1		1	SSPO	7	149495203	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	19244	149495203	9643460	392	96014											
SSPO	23145	broad.mit.edu	37	chr7	149508800	149508800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcagctcctggccttgtgCggagggtaaggaagcgtccc	6	8	15	12	2	0	0	0	0	0	0	2	2	2	2	3	4	4	3	3	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:149508800C>T	uc010lpk.2	+	68	9539	c.9539C>T	c.(9538-9540)GCG>GTG	p.A3180V		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3180					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGGCCTTGTGCGGAGGGTAAG	0.567													38	116					0	0	0.006999	0	0		T	149508800	T	T	149508800	3	4	191	1	0	0	0	0	1	0	0	0	15214	768	27	1	9799	1	SSPO	7	149508800	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	13597	149508800	9629863	393	96015											
NOS3	4846	broad.mit.edu	37	chr7	150711160	150711160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccaggaggtgacaagccGcatacgcacccagagctttt	11	6	10	14	2	0	2	0	1	0	1	0	3	0	3	3	2	3	3	3	2	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:150711160G>A	uc003wif.2	+	27	3811	c.3515G>A	c.(3514-3516)CGC>CAC	p.R1172H	NOS3_uc011kuy.1_Missense_Mutation_p.R966H|ATG9B_uc003wig.3_Intron|ATG9B_uc011kvc.1_Intron	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	1172					anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	GTGACAAGCCGCATACGCACC	0.612													8	42					0	0	0.010729	0	0		A	150711160	A	A	150711160	3	1	191	1	0	0	0	0	1	0	0	0	10563	1087	38	1	3899	1	NOS3	7	150711160	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1202360	150711160	8427503	394	96016											
ATG9B	285973	broad.mit.edu	37	chr7	150714284	150714284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggatgcgccagggagaaccGcatcaaagaaagctcagtct	13	6	12	10	2	3	2	2	0	1	2	3	4	3	3	2	2	3	2	2	2	3	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:150714284G>A	uc011kvc.1	-	9	2204	c.2128C>T	c.(2128-2130)CGG>TGG	p.R710W	ATG9B_uc003wig.3_RNA	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	710	Cytoplasmic (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AGGGAGAACCGCATCAAAGAA	0.617													7	34					0	0	0.00308	0	0		A	150714284	A	A	150714284	3	1	191	1	0	0	0	0	1	0	0	0	1104	1086	38	1	665	1	ATG9B	7	150714284	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3124	150714284	8424379	395	96017											
WDR86	349136	broad.mit.edu	37	chr7	151093060	151093060	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctggccacctgccacacCttggctgtgccatctgtgct	4	10	10	17	1	1	0	0	0	1	0	1	0	1	0	6	2	3	3	6	2	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:151093060C>A	uc003wkb.2	-	3	977	c.528G>T	c.(526-528)AAG>AAT	p.K176N	WDR86_uc003wka.2_Missense_Mutation_p.K134N|WDR86_uc011kvk.1_Missense_Mutation_p.K176N|WDR86_uc003wkc.2_Missense_Mutation_p.K48N	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	176	WD 4.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCTGCCACACCTTGGCTGTGC	0.706													3	12					0.004672	0.00485817	0.004672	1	0		A	151093060	A	A	151093060	3	1	191	1	0	0	0	0	1	0	0	0	17360	680	24	5	618	5	WDR86	7	151093060	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	378776	151093060	8045603	396	96018											
MLL3	58508	broad.mit.edu	37	chr7	151874750	151874750	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctagggcccggaaagtctggCcggggaatgaagtttccatg	9	8	15	9	2	1	1	0	1	1	0	2	3	2	3	3	5	0	1	3	5	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:151874750C>T	uc003wla.2	-	38	8007	c.7788G>A	c.(7786-7788)CGG>CGA	p.R2596R	MLL3_uc003wkz.2_Silent_p.R1657R|MLL3_uc003wky.2_Silent_p.R105R	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2596	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GAAAGTCTGGCCGGGGAATGA	0.562			N		medulloblastoma								36	163					0	0	0.004878	0	0		T	151874750	T	T	151874750	2	4	191	1	0	0	0	0	0	0	0	1	9640	726	26	2		2	MLL3	7	151874750	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	781690	151874750	7263913	397	96019											
NCAPG2	54892	broad.mit.edu	37	chr7	158483354	158483354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctttctcccaccaggtaacaCacaaatcctgaatagaactc	14	9	4	14	0	1	2	0	1	1	1	4	2	2	2	3	1	2	1	3	1	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr7:158483354C>T	uc003wnv.1	-	5	588	c.443G>A	c.(442-444)TGT>TAT	p.C148Y	NCAPG2_uc010lqu.1_5'Flank|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.C148Y|NCAPG2_uc011kwe.1_Missense_Mutation_p.C148Y	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	148					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	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)		CCAGGTAACACACAAATCCTG	0.413													28	107					0	0	0.005443	0	0		T	158483354	T	T	158483354	3	4	191	1	0	0	0	0	1	0	0	0	10227	478	17	4	3084	4	NCAPG2	7	158483354	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6608604	158483354	655309	398	96020											
ARHGEF10	9639	broad.mit.edu	37	chr8	1851547	1851548	+	Frame_Shift_Del	DEL	AG	-	-																															agagaagttaaatgaaagaaAgagagatgctgatcaacgct																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:1851547_1851548delAG	uc003wpr.2	+	16	1929_1930	c.1751_1752delAG	c.(1750-1752)AAGfs	p.K584fs	ARHGEF10_uc003wpq.1_Frame_Shift_Del_p.K608fs|ARHGEF10_uc003wps.2_Frame_Shift_Del_p.K546fs|ARHGEF10_uc003wpt.2_Frame_Shift_Del_p.K460fs|ARHGEF10_uc003wpv.2_Frame_Shift_Del_p.K317fs|ARHGEF10_uc010lre.2_Frame_Shift_Del_p.K264fs	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	609					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		AATGAAAGAAAGAGAGATGCTG	0.46													37	67	---	---	---	---						.	-	1851548	-	-	1851547	7	5	191	1	0	1	0	1	0	0	0	0	894	72	3	0	1809	0	ARHGEF10	8	1851547	Frame_Shift_Del	DEL	AG	TCGA-F1-6874-01A-11D-1882-08		1851547	144512475	399	96021											
SGK223	157285	broad.mit.edu	37	chr8	8176151	8176151	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaactcatcgaacttgcggTactgggaagcagacacgatc	12	7	12	10	3	1	1	1	0	0	1	3	5	1	3	0	3	5	2	0	3	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:8176151T>C	uc003wsh.3	-	5	3734	c.3734A>G	c.(3733-3735)TAC>TGC	p.Y1245C		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	1245	Protein kinase.						ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GAACTTGCGGTACTGGGAAGC	0.612													4	51					0	0	0.001168	0	0		C	8176151	C	C	8176151	3	2	191	1	0	0	0	0	1	0	0	0	14235	1638	57	3	478	3	SGK223	8	8176151	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	6324604	8176151	138187871	400	96022											
SOX7	83595	broad.mit.edu	37	chr8	10583758	10583758	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggcagggggaggagaaGaaggtctgctccggctccag	8	6	17	10	1	1	2	0	0	1	2	4	4	4	3	3	6	1	3	3	6	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:10583758G>T	uc003wtf.2	-	2	736	c.657C>A	c.(655-657)TTC>TTA	p.F219L	SOX7_uc011kwz.1_Missense_Mutation_p.F271L	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	219					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		GGGAGGAGAAGAAGGTCTGCT	0.687													22	45					5.26018e-13	5.97425e-13	0.012319	1	0		T	10583758	T	T	10583758	3	4	191	1	0	0	0	0	1	0	0	0	14981	933	33	5	513	5	SOX7	8	10583758	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2407607	10583758	135780264	401	96023											
DLC1	10395	broad.mit.edu	37	chr8	12957554	12957554	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcttgttgcacgcactgagGctccgggtcctcgtaacagg	6	9	13	13	4	0	1	0	1	0	0	3	1	2	1	2	3	2	6	2	3	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:12957554G>T	uc003wwm.2	-	9	2736	c.2292C>A	c.(2290-2292)AGC>AGA	p.S764R	DLC1_uc003wwk.1_Missense_Mutation_p.S327R|DLC1_uc003wwl.1_Missense_Mutation_p.S361R|DLC1_uc011kxx.1_Missense_Mutation_p.S253R	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	764					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						ACGCACTGAGGCTCCGGGTCC	0.572													27	48					9.39395e-14	1.07248e-13	0.00632	1	0		T	12957554	T	T	12957554	3	4	191	1	0	0	0	0	1	0	0	0	4556	1194	42	5	2334	5	DLC1	8	12957554	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2373796	12957554	133406468	402	96024											
RHOBTB2	23221	broad.mit.edu	37	chr8	22864862	22864862	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctccgtgcttccaccagcgaCgggatcttacggggcaacgg	7	7	13	14	5	1	0	0	0	1	0	3	2	3	1	3	4	4	2	3	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:22864862C>T	uc003xcq.2	+	5	1641	c.1104C>T	c.(1102-1104)GAC>GAT	p.D368D	RHOBTB2_uc003xcp.2_Silent_p.D390D|RHOBTB2_uc011kzp.1_Silent_p.D375D|uc003xcr.2_RNA	NM_015178	NP_055993	Q9BYZ6	RHBT2_HUMAN	Rho-related BTB domain containing 2 isoform 3	368	BTB 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			ovary(1)|lung(1)	2		Prostate(55;0.0513)|Breast(100;0.214)		Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		CCACCAGCGACGGGATCTTAC	0.637													44	112					0	0	0.01441	0	0		T	22864862	T	T	22864862	2	4	191	1	0	0	0	0	0	0	0	1	13359	535	19	1		1	RHOBTB2	8	22864862	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	9907308	22864862	123499160	403	96025											
NEFM	4741	broad.mit.edu	37	chr8	24771698	24771698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagaataaggagattgaggCggagatccaggcgctgcggc	11	5	17	8	3	0	4	0	1	0	3	1	6	1	4	1	5	1	2	1	5	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:24771698C>T	uc003xed.3	+	1	425	c.392C>T	c.(391-393)GCG>GTG	p.A131V	NEFM_uc011lac.1_Missense_Mutation_p.A131V|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	131	Rod.|Coil 1A.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GAGATTGAGGCGGAGATCCAG	0.642													4	17					0	0	0.009096	0	0		T	24771698	T	T	24771698	3	4	191	1	0	0	0	0	1	0	0	0	10335	768	27	1	394	1	NEFM	8	24771698	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1906836	24771698	121592324	404	96026											
ELP3	55140	broad.mit.edu	37	chr8	27954825	27954825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgagcaggggaaagacatcGatctaaataagtaagtggat	17	7	12	5	2	1	1	0	0	1	1	2	5	1	3	0	3	1	2	0	3	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:27954825G>A	uc003xgo.3	+	2	257	c.109G>A	c.(109-111)GAT>AAT	p.D37N	ELP3_uc003xgn.3_Missense_Mutation_p.D22N|ELP3_uc011laq.1_Intron|ELP3_uc011lar.1_5'UTR|ELP3_uc011las.1_Intron|ELP3_uc011lat.1_5'UTR	NM_018091	NP_060561	Q9H9T3	ELP3_HUMAN	elongation protein 3 homolog	37					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	histone acetyltransferase activity|iron-sulfur cluster binding|metal ion binding|phosphorylase kinase regulator activity|protein binding				0		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.151)|Colorectal(74;0.183)		GAAAGACATCGATCTAAATAA	0.398													30	75					0	0	0.009535	0	0		A	27954825	A	A	27954825	3	1	191	1	0	0	0	0	1	0	0	0	5089	1058	37	1	115	1	ELP3	8	27954825	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3183127	27954825	118409197	405	96027											
GSR	2936	broad.mit.edu	37	chr8	30550568	30550568	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcattgaatcaaaacttctaAgtacctgcatatcaacatag	16	12	4	9	0	4	1	3	1	1	0	4	1	4	1	1	0	4	2	1	0	8	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:30550568A>T	uc003xih.1	-	8	891	c.800T>A	c.(799-801)CTT>CAT	p.L267H		NM_000637	NP_000628	P00390	GSHR_HUMAN	glutathione reductase precursor	267					cell redox homeostasis|nucleobase, nucleoside and nucleotide interconversion	cytosol|mitochondrion	electron carrier activity|glutathione-disulfide reductase activity			ovary(2)|pancreas(2)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(542;0.105)|Kidney(114;0.125)	Carmustine(DB00262)|Glutathione(DB00143)|NADH(DB00157)	AAAACTTCTAAGTACCTGCAT	0.493													5	58					0	0	0.000602	0	0		T	30550568	T	T	30550568	3	4	191	1	0	0	0	0	1	0	0	0	6844	72	3	5	792	5	GSR	8	30550568	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2595743	30550568	115813454	406	96028											
TEX15	56154	broad.mit.edu	37	chr8	30694424	30694424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtgaaaaaattggctgccGaaaattagaagcaggtattt	15	12	10	4	1	0	2	0	1	0	1	0	3	0	2	1	2	2	3	1	2	8	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:30694424G>A	uc003xil.2	-	3	8227	c.8227C>T	c.(8227-8229)CGG>TGG	p.R2743W		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2743										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		ATTGGCTGCCGAAAATTAGAA	0.413													23	44					0	0	0.00278	0	0		A	30694424	A	A	30694424	3	1	191	1	0	0	0	0	1	0	0	0	15804	1057	37	1	150	1	TEX15	8	30694424	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	143856	30694424	115669598	407	96029											
IDO2	169355	broad.mit.edu	37	chr8	39872905	39872905	+	Silent	SNP	T	C	C	0	1	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	ctgacagcttataaccagtgTgtgcaggccctggcagagct	9	9	12	11	0	0	2	0	1	0	1	0	2	0	2	2	2	4	4	2	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:39872905T>C	uc010lwy.1	+	11	1289	c.1047T>C	c.(1045-1047)TGT>TGC	p.C349C	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Silent_p.C90C|IDO2_uc003xnp.1_Silent_p.C90C	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	336					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						ATAACCAGTGTGTGCAGGCCC	0.532													20	40					0	0	0.007413	0	0		C	39872905	C	C	39872905	2	2	191	1	0	0	0	0	0	0	0	1	7518	1702	59	3		3	IDO2	8	39872905	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	9178481	39872905	106491117	408	96030											
MYST3	7994	broad.mit.edu	37	chr8	41800346	41800346	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tctttcctggcactgtggctCttcgttttctccttcctcag	2	18	7	14	1	4	0	1	0	3	0	8	0	6	0	3	2	0	3	3	2	0	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:41800346C>G	uc010lxb.2	-	15	2945	c.2401G>C	c.(2401-2403)GAG>CAG	p.E801Q	MYST3_uc010lxc.2_Missense_Mutation_p.E801Q|MYST3_uc003xon.3_Missense_Mutation_p.E801Q|MYST3_uc010lxd.2_Missense_Mutation_p.E801Q	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	801	Poly-Glu.|Mediates interaction with BRPF1, required for histone H3 acetyltransferase activity.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CACTGTGGCTCTTCGTTTTCT	0.418													34	100					0	0	0.005524	0	0		G	41800346	G	G	41800346	3	3	191	1	0	0	0	0	1	0	0	0	10122	922	32	5	3629	5	MYST3	8	41800346	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1927441	41800346	104563676	409	96031											
SLC20A2	6575	broad.mit.edu	37	chr8	42287757	42287757	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaaggctaccaggggacCgatggcattactgggaaaaa	14	5	12	10	1	0	0	0	0	0	0	0	3	0	2	3	5	2	2	3	5	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:42287757C>A	uc010lxl.2	-	9	2228	c.1534G>T	c.(1534-1536)GGT>TGT	p.G512C	SLC20A2_uc010lxm.2_Missense_Mutation_p.G512C|SLC20A2_uc003xpe.2_Missense_Mutation_p.G512C|SLC20A2_uc011lcu.1_Missense_Mutation_p.G314C	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	512	Extracellular (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			ACCAGGGGACCGATGGCATTA	0.398													5	43					0.000602214	0.000630398	0.000602	1	0		A	42287757	A	A	42287757	3	1	191	1	0	0	0	0	1	0	0	0	14464	652	23	5	436	5	SLC20A2	8	42287757	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	487411	42287757	104076265	410	96032											
PRKDC	5591	broad.mit.edu	37	chr8	48766746	48766746	+	Missense_Mutation	SNP	T	A	A	0	1	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	agttgtctttagaattaggaTctttaccggaaaacttttca	12	16	7	6	1	3	1	1	0	2	1	3	3	3	3	1	2	2	1	1	2	6	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:48766746T>A	uc003xqi.2	-	52	6848	c.6791A>T	c.(6790-6792)GAT>GTT	p.D2264V	PRKDC_uc003xqj.2_Missense_Mutation_p.D2264V|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2264					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AGAATTAGGATCTTTACCGGA	0.408								NHEJ					13	38					0	0	0.001855	0	0		A	48766746	A	A	48766746	3	1	191	1	0	0	0	0	1	0	0	0	12543	1435	50	5	5739	5	PRKDC	8	48766746	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	6478989	48766746	97597276	411	96033											
PRKDC	5591	broad.mit.edu	37	chr8	48801690	48801690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aagatgagccataacctggaCgtctccgatgttgaaaccta	13	9	9	10	2	1	3	0	2	1	1	2	5	1	4	4	1	3	1	4	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:48801690C>T	uc003xqi.2	-	34	4222	c.4165G>A	c.(4165-4167)GTC>ATC	p.V1389I	PRKDC_uc003xqj.2_Missense_Mutation_p.V1389I|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1389					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ATAACCTGGACGTCTCCGATG	0.468								NHEJ					27	42					0	0	0.003954	0	0		T	48801690	T	T	48801690	3	4	191	1	0	0	0	0	1	0	0	0	12543	536	19	1	8437	1	PRKDC	8	48801690	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	34944	48801690	97562332	412	96034											
PRKDC	5591	broad.mit.edu	37	chr8	48849059	48849059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgaagtcaacatcttttgCgtttataaccttgcacggct	10	14	7	10	2	2	1	1	1	1	0	2	1	2	1	1	1	4	3	1	1	4	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:48849059C>T	uc003xqi.2	-	12	1189	c.1132G>A	c.(1132-1134)GCA>ACA	p.A378T	PRKDC_uc003xqj.2_Missense_Mutation_p.A378T|PRKDC_uc011ldh.1_Missense_Mutation_p.A378T	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	378					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				ACATCTTTTGCGTTTATAACC	0.408								NHEJ					23	48					0	0	0.00333	0	0		T	48849059	T	T	48849059	3	4	191	1	0	0	0	0	1	0	0	0	12543	768	27	1	11553	1	PRKDC	8	48849059	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	47369	48849059	97514963	413	96035											
PXDNL	137902	broad.mit.edu	37	chr8	52321691	52321691	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttggtgcagacggagctgcaCggccgcccatccgagaagcg	8	5	15	13	5	0	2	0	0	0	2	1	4	1	3	3	3	4	3	3	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:52321691C>T	uc003xqu.3	-	17	2594	c.2493G>A	c.(2491-2493)CCG>CCA	p.P831P	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	831					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CGGAGCTGCACGGCCGCCCAT	0.667													3	12					0	0	0.000602	0	0		T	52321691	T	T	52321691	2	4	191	1	0	0	0	0	0	0	0	1	12873	523	19	1		1	PXDNL	8	52321691	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3472632	52321691	94042331	414	96036											
MRPL15	29088	broad.mit.edu	37	chr8	55049965	55049965	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccatccagccacttaaaaGggattatggtgtccagctgg	11	9	11	10	0	0	0	0	0	0	0	2	2	2	1	4	3	2	1	4	3	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:55049965G>T	uc003xsa.2	+	3	464	c.401G>T	c.(400-402)AGG>ATG	p.R134M		NM_014175	NP_054894	Q9P015	RM15_HUMAN	mitochondrial ribosomal protein L15 precursor	134					translation	large ribosomal subunit|mitochondrion	structural constituent of ribosome				0		Lung NSC(129;0.109)|all_epithelial(80;0.134)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;4.3e-07)|Epithelial(17;5.79e-05)|all cancers(17;0.000458)			CCACTTAAAAGGGATTATGGT	0.363													22	62					1.96895e-08	2.16229e-08	0.00278	1	0		T	55049965	T	T	55049965	3	4	191	1	0	0	0	0	1	0	0	0	9798	1000	35	5	411	5	MRPL15	8	55049965	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2728274	55049965	91314057	415	96037											
BHLHE22	27319	broad.mit.edu	37	chr8	65493461	65493461	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcggctttccgctccacGcccccgggcatggacctgtc	5	7	12	17	4	0	0	0	0	0	0	3	2	2	1	5	3	1	3	5	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:65493461G>A	uc003xvi.2	+	1	648	c.114G>A	c.(112-114)ACG>ACA	p.T38T	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	38					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						TCCGCTCCACGCCCCCGGGCA	0.731													5	12					0	0	0.000602	0	0		A	65493461	A	A	65493461	2	1	191	1	0	0	0	0	0	0	0	1	1422	1074	38	1		1	BHLHE22	8	65493461	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	10443496	65493461	80870561	416	96038											
ARFGEF1	10565	broad.mit.edu	37	chr8	68137212	68137212	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	attgggaaccatcctctcacCcacaccctgtcttcaggtgc	8	10	7	16	0	3	0	2	0	2	0	5	1	4	1	4	2	2	0	4	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:68137212C>A	uc003xxo.1	-	29	4524	c.4134G>T	c.(4132-4134)TGG>TGT	p.W1378C	ARFGEF1_uc003xxl.1_Missense_Mutation_p.W832C|ARFGEF1_uc003xxn.1_Missense_Mutation_p.W361C	NM_006421	NP_006412	Q9Y6D6	BIG1_HUMAN	brefeldin A-inhibited guanine	1378					exocytosis|regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity|myosin binding			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|kidney(1)	8	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.0043)|OV - Ovarian serous cystadenocarcinoma(28;0.00578)|all cancers(69;0.0173)|BRCA - Breast invasive adenocarcinoma(89;0.206)			ATCCTCTCACCCACACCCTGT	0.368													11	33					5.50884e-06	5.89042e-06	0.013537	1	0		A	68137212	A	A	68137212	3	1	191	1	0	0	0	0	1	0	0	0	852	624	22	5	1459	5	ARFGEF1	8	68137212	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2643751	68137212	78226810	417	96039											
SULF1	23213	broad.mit.edu	37	chr8	70488249	70488249	+	Frame_Shift_Del	DEL	G	-	-																															cgagaaagattatggaacatGggggggccaccttcatcaat																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:70488249delG	uc010lza.1	+	6	934	c.217delG	c.(217-219)GGGfs	p.G73fs	SULF1_uc003xyd.2_Frame_Shift_Del_p.G73fs|SULF1_uc003xye.2_Frame_Shift_Del_p.G73fs|SULF1_uc003xyf.2_Frame_Shift_Del_p.G73fs|SULF1_uc003xyg.2_Frame_Shift_Del_p.G73fs	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	73					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TATGGAACATGGGGGGGCCAC	0.493													15	26	---	---	---	---						.	-	70488249	-	-	70488249	7	5	191	1	0	1	0	1	0	0	0	0	15395	1348	47	0	223	0	SULF1	8	70488249	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	2351037	70488249	75875773	418	96040											
SLCO5A1	81796	broad.mit.edu	37	chr8	70585289	70585289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatctagtccgggcattgtCggggtgtcccactctctcac	6	11	11	13	2	3	1	1	0	2	1	7	1	5	1	2	3	0	1	2	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:70585289C>T	uc003xyl.2	-	10	3069	c.2362G>A	c.(2362-2364)GAC>AAC	p.D788N	SLCO5A1_uc010lzb.2_Missense_Mutation_p.D733N|SLCO5A1_uc011lfa.1_RNA|SLCO5A1_uc003xyk.2_3'UTR	NM_030958	NP_112220	Q9H2Y9	SO5A1_HUMAN	solute carrier organic anion transporter family,	788	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|upper_aerodigestive_tract(1)	4	Breast(64;0.0654)		Epithelial(68;0.0141)|OV - Ovarian serous cystadenocarcinoma(28;0.0315)|all cancers(69;0.0594)			CGGGCATTGTCGGGGTGTCCC	0.557													42	103					0	0	0.00874	0	0		T	70585289	T	T	70585289	3	4	191	1	0	0	0	0	1	0	0	0	14756	884	31	1	188	1	SLCO5A1	8	70585289	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	97040	70585289	75778733	419	96041											
NCOA2	10499	broad.mit.edu	37	chr8	71041044	71041044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggctgcatacggagtgtggCataactaggccgctgtccca	8	8	14	11	2	0	0	0	0	0	0	1	1	1	1	2	4	3	4	2	4	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:71041044C>T	uc003xyn.1	-	17	3658	c.3496G>A	c.(3496-3498)GCC>ACC	p.A1166T	NCOA2_uc011lfb.1_Missense_Mutation_p.A254T	NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	1166					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			CGGAGTGTGGCATAACTAGGC	0.547			T	RUNXBP2	AML								23	59					0	0	0.00278	0	0		T	71041044	T	T	71041044	3	4	191	1	0	0	0	0	1	0	0	0	10248	710	25	2	926	2	NCOA2	8	71041044	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	455755	71041044	75322978	420	96042											
CRISPLD1	83690	broad.mit.edu	37	chr8	75928931	75928931	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	gaaatgaagtcataagcgcaCagcaaatgtgtaagacctcc	16	7	9	9	1	1	2	1	1	0	1	2	3	2	2	2	0	2	3	2	0	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:75928931C>T	uc003yan.2	+	7	1234	c.859C>T	c.(859-861)CAG>TAG	p.Q287*	CRISPLD1_uc011lfk.1_Nonsense_Mutation_p.Q99*|CRISPLD1_uc011lfl.1_Nonsense_Mutation_p.Q99*	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	287						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			CATAAGCGCACAGCAAATGTG	0.338													51	128					0	0	0.01441	0	0		T	75928931	T	T	75928931	4	4	191	1	0	0	0	0	0	1	0	0	3885	479	17	4	881	4	CRISPLD1	8	75928931	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4887887	75928931	70435091	421	96043											
SLC10A5	347051	broad.mit.edu	37	chr8	82605999	82605999	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacatccagaacacatggcTactgtaaaaggagccacaga	16	6	8	11	0	1	2	1	0	0	2	2	3	2	3	2	2	3	2	2	2	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:82605999T>C	uc011lfs.1	-	1	1209	c.1209A>G	c.(1207-1209)GTA>GTG	p.V403V		NM_001010893	NP_001010893	Q5PT55	NTCP5_HUMAN	solute carrier family 10 (sodium/bile acid	403	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity				0						AACACATGGCTACTGTAAAAG	0.363													10	33					0	0	0.010729	0	0		C	82605999	C	C	82605999	2	2	191	1	0	0	0	0	0	0	0	1	14402	1509	53	3		3	SLC10A5	8	82605999	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	6677068	82605999	63758023	422	96044											
INTS8	55656	broad.mit.edu	37	chr8	95848830	95848830	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgaaaatgccagggaaaaaTtttttagaaccaaagaacta	20	9	7	5	0	0	3	0	1	0	2	0	4	0	4	2	1	3	0	2	1	9	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:95848830T>A	uc003yhb.2	+	7	958	c.832T>A	c.(832-834)TTT>ATT	p.F278I	INTS8_uc003yha.1_Missense_Mutation_p.F278I|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_Missense_Mutation_p.F105I	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	278	TPR 1.				snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					CAGGGAAAAATTTTTTAGAAC	0.348													21	60					0	0	0.014323	0	0		A	95848830	A	A	95848830	3	1	191	1	0	0	0	0	1	0	0	0	7800	1493	52	5	858	5	INTS8	8	95848830	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	13242831	95848830	50515192	423	96045											
C8orf38	137682	broad.mit.edu	37	chr8	96047736	96047736	+	Missense_Mutation	SNP	A	G	G	1	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	tgatgcgaatgcagttttggAaaaaaactgtggaagatata	16	11	11	3	1	0	2	0	1	0	1	0	5	0	4	0	2	3	2	0	2	7	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:96047736A>G	uc003yhj.2	+	3	368	c.352A>G	c.(352-354)AAA>GAA	p.K118E	C8orf38_uc003yhe.1_RNA|C8orf38_uc003yhf.2_Missense_Mutation_p.K26E|C8orf38_uc011lgs.1_RNA|C8orf38_uc003yhi.2_Missense_Mutation_p.K66E|C8orf38_uc003yhk.2_RNA|C8orf38_uc003yhl.2_Missense_Mutation_p.K26E	NM_152416	NP_689629	Q330K2	CH038_HUMAN	hypothetical protein LOC137682 precursor	118					biosynthetic process	mitochondrion	transferase activity				0	Breast(36;3.32e-06)					GCAGTTTTGGAAAAAAACTGT	0.348													21	40					0	0	0.003954	0	0		G	96047736	G	G	96047736	3	3	191	1	0	0	0	0	1	0	0	0	2427	247	9	3	362	3	C8orf38	8	96047736	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	198906	96047736	50316286	424	96046											
MTDH	92140	broad.mit.edu	37	chr8	98699693	98699693	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattagtcacagagagaaacGacagcagcgtaaacgtgata	18	6	10	7	3	1	3	1	1	0	2	1	5	1	3	0	0	4	2	0	0	6	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:98699693G>A	uc003yhz.2	+	4	933	c.605G>A	c.(604-606)CGA>CAA	p.R202Q		NM_178812	NP_848927	Q86UE4	LYRIC_HUMAN	metadherin	202	Cytoplasmic (Potential).|Interaction with RELA.				lipopolysaccharide-mediated signaling pathway|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of angiogenesis|positive regulation of autophagy|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein kinase B signaling cascade	apical plasma membrane|endoplasmic reticulum membrane|integral to membrane|intercellular canaliculus|nuclear body|nuclear membrane|nucleolus|perinuclear region of cytoplasm|tight junction	NF-kappaB binding|RNA polymerase II transcription factor binding|transcription coactivator activity			liver(1)|central_nervous_system(1)	2	Breast(36;2.56e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.178)			AGAGAGAAACGACAGCAGCGT	0.408													6	62					0	0	0.001984	0	0		A	98699693	A	A	98699693	3	1	191	1	0	0	0	0	1	0	0	0	9935	1058	37	1	619	1	MTDH	8	98699693	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2651957	98699693	47664329	425	96047											
POP1	10940	broad.mit.edu	37	chr8	99168419	99168419	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagcttcatctccaaatggTaaggagagtgacctaagaag	14	9	11	7	0	2	3	1	1	1	2	3	4	2	3	2	2	1	3	2	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:99168419T>C	uc003yij.3	+	15	2299	c.2199T>C	c.(2197-2199)GGT>GGC	p.G733G	POP1_uc011lgv.1_Silent_p.G733G|POP1_uc003yik.2_Silent_p.G733G	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	733					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			CTCCAAATGGTAAGGAGAGTG	0.498													39	95					0	0	0.004878	0	0		C	99168419	C	C	99168419	2	2	191	1	0	0	0	0	0	0	0	1	12270	1625	57	3		3	POP1	8	99168419	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	468726	99168419	47195603	426	96048											
UBR5	51366	broad.mit.edu	37	chr8	103311747	103311747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtaagagatcccacagcGggggccaggataaaatcaat	14	6	13	8	1	1	1	1	0	0	1	2	3	2	2	2	4	1	1	2	4	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:103311747G>A	uc003ykr.1	-	24	3168	c.3135C>T	c.(3133-3135)CCC>CCT	p.P1045P	UBR5_uc003yks.1_Silent_p.P1045P	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1045					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			ATCCCACAGCGGGGGCCAGGA	0.443													36	83					0	0	0.006999	0	0		A	103311747	A	A	103311747	2	1	191	1	0	0	0	0	0	0	0	1	16931	1103	39	1		1	UBR5	8	103311747	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4143328	103311747	43052275	427	96049											
UBR5	51366	broad.mit.edu	37	chr8	103359305	103359305	+	Silent	SNP	A	G	G	1	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	ccaccacttccacccactccAgaactccagcggcttctaaa	11	7	4	19	1	1	1	0	0	1	1	4	1	4	1	6	1	2	1	6	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:103359305A>G	uc003ykr.1	-	6	435	c.402T>C	c.(400-402)TCT>TCC	p.S134S	UBR5_uc003yks.1_Silent_p.S134S	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	134				S -> P (in Ref. 2; AAF88143).	cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			CACCCACTCCAGAACTCCAGC	0.438													43	115					0	0	0.013114	0	0		G	103359305	G	G	103359305	2	3	191	1	0	0	0	0	0	0	0	1	16931	175	7	3		3	UBR5	8	103359305	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	47558	103359305	43004717	428	96050											
RIMS2	9699	broad.mit.edu	37	chr8	105261792	105261792	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcccgtggccttgttgtaAaaccaggttccaagacactg	9	9	12	11	1	0	1	0	0	0	1	1	1	1	1	4	3	1	3	4	3	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:105261792A>C	uc003yls.2	+	26	3962	c.3721A>C	c.(3721-3723)AAA>CAA	p.K1241Q	RIMS2_uc003ylp.2_Missense_Mutation_p.K1223Q|RIMS2_uc003ylw.2_Missense_Mutation_p.K1230Q|RIMS2_uc003ylq.2_Missense_Mutation_p.K1037Q|RIMS2_uc003ylr.2_Missense_Mutation_p.K1062Q	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1285	C2 2.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			CCTTGTTGTAAAACCAGGTTC	0.398										HNSCC(12;0.0054)			5	54					0	0	0.000602	0	0		C	105261792	C	C	105261792	3	2	191	1	0	0	0	0	1	0	0	0	13393	15	1	5	3949	5	RIMS2	8	105261792	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1902487	105261792	41102230	429	96051											
TM7SF4	81501	broad.mit.edu	37	chr8	105361753	105361753	+	Missense_Mutation	SNP	A	G	G	1	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	atcggctcattttctcagtgAgcaagcagtttcaaagcttg	10	13	9	9	1	3	1	3	1	1	0	5	1	3	1	0	1	3	5	0	1	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:105361753A>G	uc003ylx.1	+	2	1022	c.973A>G	c.(973-975)AGC>GGC	p.S325G		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	325					osteoclast differentiation	cell surface|integral to membrane|plasma membrane				pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			TTTCTCAGTGAGCAAGCAGTT	0.438													91	154					0	0	0.01441	0	0		G	105361753	G	G	105361753	3	3	191	1	0	0	0	0	1	0	0	0	16001	304	11	3	975	3	TM7SF4	8	105361753	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	99961	105361753	41002269	430	96052											
LRP12	29967	broad.mit.edu	37	chr8	105503494	105503494	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagatgctcctgccatatCtcttctctcattttctgtgt	6	17	5	13	0	4	1	1	0	3	1	7	1	5	1	3	0	2	1	3	0	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:105503494C>A	uc003yma.2	-	7	2082	c.1987G>T	c.(1987-1989)GAT>TAT	p.D663Y	LRP12_uc003ymb.2_Missense_Mutation_p.D644Y|LRP12_uc003ylz.2_Missense_Mutation_p.D69Y	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	663	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCTGCCATATCTCTTCTCTCA	0.483													10	64					0.000442599	0.000464645	0.006214	1	0		A	105503494	A	A	105503494	3	1	191	1	0	0	0	0	1	0	0	0	8972	913	32	5	596	5	LRP12	8	105503494	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	141741	105503494	40860528	431	96053											
ANGPT1	284	broad.mit.edu	37	chr8	108348381	108348381	+	Frame_Shift_Del	DEL	T	-	-																															aataaagcaatcctcacctgTttttttcatggatcttcaag																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:108348381delT	uc003ymn.2	-	3	1040	c.572delA	c.(571-573)AACfs	p.N191fs	ANGPT1_uc011lhv.1_5'UTR|ANGPT1_uc003ymo.2_Frame_Shift_Del_p.N191fs	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	191	Potential.				activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			TCCTCACCTGTTTTTTTCATG	0.368													16	28	---	---	---	---						.	-	108348381	-	-	108348381	7	5	191	1	0	1	0	1	0	0	0	0	610	1725	60	0	952	0	ANGPT1	8	108348381	Frame_Shift_Del	DEL	T	TCGA-F1-6874-01A-11D-1882-08	2844887	108348381	38015641	432	96054											
SYBU	55638	broad.mit.edu	37	chr8	110590244	110590244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacatgtaccttccagaaCgcctgaaacaatccaagtaa	17	7	6	11	1	0	3	0	1	0	2	2	3	2	3	4	0	3	2	4	0	7	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:110590244C>T	uc003ynj.3	-	6	900	c.737G>A	c.(736-738)CGT>CAT	p.R246H	SYBU_uc003yni.3_Missense_Mutation_p.R243H|SYBU_uc003ynk.3_Missense_Mutation_p.R127H|SYBU_uc010mco.2_Missense_Mutation_p.R245H|SYBU_uc003ynl.3_Missense_Mutation_p.R245H|SYBU_uc010mcp.2_Missense_Mutation_p.R246H|SYBU_uc010mcq.2_Missense_Mutation_p.R246H|SYBU_uc003yno.3_Missense_Mutation_p.R127H|SYBU_uc010mcr.2_Missense_Mutation_p.R246H|SYBU_uc003ynm.3_Missense_Mutation_p.R245H|SYBU_uc003ynn.3_Missense_Mutation_p.R245H|SYBU_uc010mcs.2_Missense_Mutation_p.R127H|SYBU_uc010mct.2_Missense_Mutation_p.R246H|SYBU_uc010mcu.2_Missense_Mutation_p.R245H|SYBU_uc003ynp.3_Missense_Mutation_p.R178H|SYBU_uc010mcv.2_Missense_Mutation_p.R246H|SYBU_uc003ynh.3_Missense_Mutation_p.R40H|SYBU_uc011lhw.1_Missense_Mutation_p.R116H	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	246	Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						CCTTCCAGAACGCCTGAAACA	0.373													34	155					0	0	0.00623	0	0		T	110590244	T	T	110590244	3	4	191	1	0	0	0	0	1	0	0	0	15452	536	19	1	1262	1	SYBU	8	110590244	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2241863	110590244	35773778	433	96055											
WDR67	93594	broad.mit.edu	37	chr8	124121715	124121715	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaatatatttttatttcagaAtgttcatttggcgctctctg	10	19	6	6	1	3	1	2	0	1	1	4	1	3	1	0	1	0	2	0	1	5	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:124121715A>C	uc003ypp.1	+	10	1381	c.1291A>C	c.(1291-1293)ATG>CTG	p.M431L	WDR67_uc011lig.1_Missense_Mutation_p.M431L|WDR67_uc011lih.1_Missense_Mutation_p.M321L|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Missense_Mutation_p.M144L	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	431	Rab-GAP TBC.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			TTATTTCAGAATGTTCATTTG	0.343													4	150					0	0	0.009096	0	0		C	124121715	C	C	124121715	3	2	191	1	0	0	0	0	1	0	0	0	17344	115	4	5	1329	5	WDR67	8	124121715	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	13531471	124121715	22242307	434	96056											
COL22A1	169044	broad.mit.edu	37	chr8	139606333	139606333	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggctcccccatggggccGgcccggcctggaagcccatc	4	5	13	19	2	0	0	0	0	0	0	2	1	1	1	7	6	1	1	7	6	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:139606333G>A	uc003yvd.2	-	63	4989	c.4542C>T	c.(4540-4542)GCC>GCT	p.A1514A	COL22A1_uc011ljo.1_Silent_p.A794A	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1514	Pro-rich.|Gly-rich.|Collagen-like 15.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CCATGGGGCCGGCCCGGCCTG	0.657										HNSCC(7;0.00092)			19	53					0	0	0.008871	0	0		A	139606333	A	A	139606333	2	1	191	1	0	0	0	0	0	0	0	1	3684	1103	39	1		1	COL22A1	8	139606333	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	15484618	139606333	6757689	435	96057											
TRAPPC9	83696	broad.mit.edu	37	chr8	141262910	141262910	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaggagattctcctggcaGgagaaatccagcttcacttt	10	11	10	10	0	2	2	1	0	1	2	4	4	3	2	2	3	2	3	2	3	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:141262910G>T	uc003yvj.2	-	16	2531	c.2397C>A	c.(2395-2397)TCC>TCA	p.S799S	TRAPPC9_uc003yvh.2_Silent_p.S897S|TRAPPC9_uc010mel.1_Silent_p.S220S|TRAPPC9_uc003yvi.1_Silent_p.S790S	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	799					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						TCTCCTGGCAGGAGAAATCCA	0.502													25	60					7.38237e-10	8.18107e-10	0.00632	1	0		T	141262910	T	T	141262910	2	4	191	1	0	0	0	0	0	0	0	1	16491	987	35	5		5	TRAPPC9	8	141262910	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1656577	141262910	5101112	436	96058											
DENND3	22898	broad.mit.edu	37	chr8	142178528	142178528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcaagctgcccaagaagCacatgcagctgggcgacttc	11	7	11	12	1	1	1	1	0	0	1	2	2	1	1	1	1	5	5	1	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:142178528C>T	uc003yvy.2	+	13	2217	c.1939C>T	c.(1939-1941)CAC>TAC	p.H647Y	DENND3_uc010mep.2_Missense_Mutation_p.H608Y|DENND3_uc003yvz.1_Missense_Mutation_p.H331Y	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	647										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			GCCCAAGAAGCACATGCAGCT	0.592													22	65					0	0	0.014323	0	0		T	142178528	T	T	142178528	3	4	191	1	0	0	0	0	1	0	0	0	4438	710	25	2	1985	2	DENND3	8	142178528	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	915618	142178528	4185494	437	96059											
GPIHBP1	338328	broad.mit.edu	37	chr8	144297001	144297001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattgcccacgggaacaccGgtaagtgggcgtggggccgc	7	6	16	12	4	1	0	1	0	0	0	1	1	1	1	3	5	2	1	3	5	2	2	rs147455726		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:144297001G>A	uc003yxu.1	+	3	370	c.295G>A	c.(295-297)GAG>AAG	p.E99K		NM_178172	NP_835466	Q8IV16	HDBP1_HUMAN	glycosylphosphatidylinositol anchored high	99	UPAR/Ly6.				cholesterol homeostasis|intracellular protein transport|positive regulation of chylomicron remnant clearance|positive regulation of lipoprotein lipase activity|protein import|protein localization at cell surface|protein stabilization|response to heparin|triglyceride homeostasis	anchored to external side of plasma membrane|apical plasma membrane|basolateral plasma membrane|high-density lipoprotein particle|integral to membrane|intracellular	apolipoprotein binding|chylomicron binding|lipase binding|lipid binding|protein transmembrane transporter activity				0	all_cancers(97;6.49e-11)|all_epithelial(106;2.77e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CGGGAACACCGGTAAGTGGGC	0.672													16	36					0	0	0.00499	0	0		A	144297001	A	A	144297001	3	1	191	1	0	0	0	0	1	0	0	0	6627	1130	39	1	305	1	GPIHBP1	8	144297001	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2118473	144297001	2067021	438	96060											
ZFP41	286128	broad.mit.edu	37	chr8	144331928	144331928	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacgctgggagtgtggagagGtgcgtgggaagcaagccatt	9	7	18	7	2	0	1	0	0	0	1	0	4	0	3	1	4	3	2	1	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:144331928G>A	uc003yxw.2	+	2	273	c.-85G>A	c.(-87--83)AGGTG>AGATG		ZFP41_uc003yxv.2_RNA	NM_173832	NP_776193	Q8N8Y5	ZFP41_HUMAN	zinc finger protein 41 homolog						cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.6e-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)			GTGTGGAGAGGTGCGTGGGAA	0.577													6	15					0	0	0.001168	0	0		A	144331928	A	A	144331928	1	1	191	1	0	0	0	0	0	0	0	0	17674	1276	44	4		4	ZFP41	8	144331928	Translation_Start_Site	SNP	G	TCGA-F1-6874-01A-11D-1882-08	34927	144331928	2032094	439	96061											
TSTA3	7264	broad.mit.edu	37	chr8	144696548	144696548	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggccatcctcgatgttGaagttgtcgtggggcccgaa	7	10	14	10	4	0	1	0	1	0	0	3	3	1	1	3	3	0	2	3	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:144696548G>T	uc003yza.2	-	6	576	c.540C>A	c.(538-540)TTC>TTA	p.F180L	TSTA3_uc003yzb.2_Missense_Mutation_p.F180L	NM_003313	NP_003304	Q13630	FCL_HUMAN	tissue specific transplantation antigen P35B	180					'de novo' GDP-L-fucose biosynthetic process|leukocyte cell-cell adhesion		coenzyme binding|electron carrier activity|GDP-4-dehydro-D-rhamnose reductase activity|GDP-L-fucose synthase activity|isomerase activity			pancreas(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)		NADH(DB00157)	CCTCGATGTTGAAGTTGTCGT	0.652													4	57					0.00909568	0.00943128	0.009096	1	0		T	144696548	T	T	144696548	3	4	191	1	0	0	0	0	1	0	0	0	16700	1281	45	5	449	5	TSTA3	8	144696548	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	364620	144696548	1667474	440	96062											
GPR172A	79581	broad.mit.edu	37	chr8	145584371	145584371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggcgggggtggtcctcGtggtgagcacagggggacat	5	7	19	10	3	0	1	0	1	0	0	3	2	1	2	2	7	1	1	2	7	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:145584371G>A	uc003zcc.1	+	4	1280	c.1123G>A	c.(1123-1125)GTG>ATG	p.V375M	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Missense_Mutation_p.V375M|GPR172A_uc003zce.1_Missense_Mutation_p.V375M|GPR172A_uc010mfy.1_Missense_Mutation_p.V375M|GPR172A_uc003zcf.1_Missense_Mutation_p.V375M|GPR172A_uc011llc.1_Missense_Mutation_p.V287M	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	375	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;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)			GGTGGTCCTCGTGGTGAGCAC	0.692													6	114					0	0	0.001168	0	0		A	145584371	A	A	145584371	3	1	191	1	0	0	0	0	1	0	0	0	6684	1145	40	1	1133	1	GPR172A	8	145584371	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	887823	145584371	779651	441	96063											
RECQL4	9401	broad.mit.edu	37	chr8	145737698	145737698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacaagcacccctgtcccaCgccgcacacctgccggaaag	10	3	8	20	3	0	0	0	0	0	0	1	1	1	1	7	1	2	2	7	1	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr8:145737698C>T	uc003zdj.2	-	19	3097	c.3065G>A	c.(3064-3066)CGT>CAT	p.R1022H		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	1022					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CCCTGTCCCACGCCGCACACC	0.647			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				14	44					0	0	0.003163	0	0		T	145737698	T	T	145737698	3	4	191	1	0	0	0	0	1	0	0	0	13227	536	19	1	577	1	RECQL4	8	145737698	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	153327	145737698	626324	442	96064											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													6	214					0	0	0.001168	0	0		G	164038	G	G	164038	5	3	191	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-F1-6874-01A-11D-1882-08		164038	141049393	443	96065											
PTPRD	5789	broad.mit.edu	37	chr9	8499822	8499822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcctctacctcgactttgCgaggaggaccactaggaact	10	8	10	13	2	1	0	0	0	1	0	2	5	1	3	3	3	4	0	3	3	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:8499822C>T	uc003zkk.2	-	24	2858	c.2147G>A	c.(2146-2148)CGC>CAC	p.R716H	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.R716H|PTPRD_uc003zkm.2_Missense_Mutation_p.R703H|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	716	Fibronectin type-III 5.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CTCGACTTTGCGAGGAGGACC	0.448										TSP Lung(15;0.13)			28	68					0	0	0.008361	0	0		T	8499822	T	T	8499822	3	4	191	1	0	0	0	0	1	0	0	0	12824	768	27	1	3747	1	PTPRD	9	8499822	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	8335784	8499822	132713609	444	96066											
NOL6	65083	broad.mit.edu	37	chr9	33463912	33463912	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaggaccacaagctgctGcaggatctgcggggtacaga	10	6	14	11	1	1	1	0	0	1	1	1	3	1	3	2	4	6	4	2	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:33463912G>A	uc003zsz.2	-	23	3012	c.2911C>T	c.(2911-2913)CAG>TAG	p.Q971*	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_Nonsense_Mutation_p.Q25*|NOL6_uc003zta.2_Intron|NOL6_uc010mjv.2_Nonsense_Mutation_p.Q968*|NOL6_uc011lob.1_Nonsense_Mutation_p.Q919*|NOL6_uc003ztb.1_Nonsense_Mutation_p.Q971*	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	971					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		ACAAGCTGCTGCAGGATCTGC	0.567													32	61					0	0	0.013726	0	0		A	33463912	A	A	33463912	4	1	191	1	0	0	0	0	0	1	0	0	10544	1328	46	2	545	2	NOL6	9	33463912	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	24964090	33463912	107749519	445	96067											
NOL6	65083	broad.mit.edu	37	chr9	33464952	33464952	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgataccaagaaaaggaatcGaaggaagccaacctgggggg	16	4	14	7	1	0	2	0	1	0	1	1	5	0	4	3	5	3	0	3	5	8	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:33464952G>A	uc003zsz.2	-	21	2805	c.2704C>T	c.(2704-2706)CGA>TGA	p.R902*	SUGT1P1_uc010mjq.1_Intron|NOL6_uc003zsy.2_5'UTR|NOL6_uc003zta.2_Intron|NOL6_uc010mjv.2_Nonsense_Mutation_p.R899*|NOL6_uc011lob.1_Nonsense_Mutation_p.R850*|NOL6_uc003ztb.1_Nonsense_Mutation_p.R902*	NM_022917	NP_075068	Q9H6R4	NOL6_HUMAN	nucleolar protein family 6 alpha isoform	902					rRNA processing	condensed nuclear chromosome|nucleolus	RNA binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.152)		AAAAGGAATCGAAGGAAGCCA	0.502													38	76					0	0	0.007835	0	0		A	33464952	A	A	33464952	4	1	191	1	0	0	0	0	0	1	0	0	10544	1066	37	1	760	1	NOL6	9	33464952	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1040	33464952	107748479	446	96068											
KIAA1161	57462	broad.mit.edu	37	chr9	34371859	34371859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcatcgaagtcgaagtcGccataagcaggtgtgtacat	12	9	10	10	3	1	0	1	0	0	0	4	2	1	0	2	1	2	2	2	1	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:34371859G>A	uc003zue.3	-	3	1250	c.1083C>T	c.(1081-1083)GGC>GGT	p.G361G		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	361	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		AGTCGAAGTCGCCATAAGCAG	0.592													10	71					0	0	0.008291	0	0		A	34371859	A	A	34371859	2	1	191	1	0	0	0	0	0	0	0	1	8227	1074	38	1		1	KIAA1161	9	34371859	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	906907	34371859	106841572	447	96069											
TLN1	7094	broad.mit.edu	37	chr9	35713239	35713239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctctcccagtagctgggcGatggctgagctcacggcttt	6	10	12	13	2	2	1	1	1	1	0	3	2	2	1	2	3	2	5	2	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:35713239G>A	uc003zxt.2	-	26	3660	c.3306C>T	c.(3304-3306)ATC>ATT	p.I1102I		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1102					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GTAGCTGGGCGATGGCTGAGC	0.542													12	31					0	0	0.001855	0	0		A	35713239	A	A	35713239	2	1	191	1	0	0	0	0	0	0	0	1	15972	1048	37	1		1	TLN1	9	35713239	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1341380	35713239	105500192	448	96070											
NPR2	4882	broad.mit.edu	37	chr9	35806228	35806228	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcttcattcggcgctttaaCaagtgagagggcattatggg	9	11	14	7	2	1	1	1	1	0	1	2	2	1	1	0	4	1	3	0	4	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:35806228C>T	uc003zyd.2	+	15	2370	c.2370C>T	c.(2368-2370)AAC>AAT	p.N790N	NPR2_uc010mlb.2_Silent_p.N766N	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	790	Cytoplasmic (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	GGCGCTTTAACAAGTGAGAGG	0.537													42	74					0	0	0.00874	0	0		T	35806228	T	T	35806228	2	4	191	1	0	0	0	0	0	0	0	1	10614	477	17	4		4	NPR2	9	35806228	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	92989	35806228	105407203	449	96071											
FRMPD1	22844	broad.mit.edu	37	chr9	37746497	37746497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaagagatgcagggggccGtgcgtgacaccttccagcac	9	5	14	13	3	0	2	0	1	0	1	1	4	1	2	4	2	3	2	4	2	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:37746497G>A	uc004aag.1	+	16	4512	c.4468G>A	c.(4468-4470)GTG>ATG	p.V1490M	FRMPD1_uc004aah.1_Missense_Mutation_p.V1490M	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1490						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		GCAGGGGGCCGTGCGTGACAC	0.652													11	34					0	0	0.008291	0	0		A	37746497	A	A	37746497	3	1	191	1	0	0	0	0	1	0	0	0	6071	1145	40	1	4526	1	FRMPD1	9	37746497	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1940269	37746497	103466934	450	96072											
ZNF658	26149	broad.mit.edu	37	chr9	40775010	40775010	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtttttcccggatccCtttgatgtgatcaactttaa	7	19	6	9	1	2	2	1	2	1	0	4	3	4	3	2	1	1	1	2	1	2	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:40775010C>A	uc004abs.2	-	5	417	c.265G>T	c.(265-267)GGG>TGG	p.G89W	ZNF658_uc010mmm.1_Missense_Mutation_p.G89W|ZNF658_uc010mmn.1_Missense_Mutation_p.G89W	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	89					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TCCCGGATCCCTTTGATGTGA	0.308													11	34					1.58986e-06	1.71674e-06	0.008291	1	0		A	40775010	A	A	40775010	3	1	191	1	0	0	0	0	1	0	0	0	18094	681	24	5	2918	5	ZNF658	9	40775010	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3028513	40775010	100438421	451	96073											
VPS13A	23230	broad.mit.edu	37	chr9	79897181	79897181	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacaaaggagatgtcattAaaaaattaggtatgtttttt	17	14	8	2	0	1	2	1	0	0	2	1	3	1	2	0	2	0	2	0	2	7	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:79897181A>G	uc004akr.2	+	29	3369	c.3109A>G	c.(3109-3111)AAA>GAA	p.K1037E	VPS13A_uc004akp.3_Missense_Mutation_p.K1037E|VPS13A_uc004akq.3_Missense_Mutation_p.K1037E|VPS13A_uc004aks.2_Missense_Mutation_p.K1037E	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	1037					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						AGATGTCATTAAAAAATTAGG	0.299													20	44					0	0	0.007413	0	0		G	79897181	G	G	79897181	3	3	191	1	0	0	0	0	1	0	0	0	17215	363	13	3	3223	3	VPS13A	9	79897181	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	39122171	79897181	61316250	452	96074											
AUH	549	broad.mit.edu	37	chr9	93983209	93983209	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttgccatcgaggactcGcgcagagaatatgagctcct	9	11	10	11	3	1	2	0	1	1	1	4	5	2	3	2	1	2	2	2	1	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:93983209G>A	uc004arf.3	-	7	756	c.721C>T	c.(721-723)CGA>TGA	p.R241*	AUH_uc004arg.3_Nonsense_Mutation_p.R212*	NM_001698	NP_001689	Q13825	AUHM_HUMAN	AU RNA binding protein/enoyl-Coenzyme A	241					branched chain family amino acid catabolic process|mRNA catabolic process	mitochondrial matrix	enoyl-CoA hydratase activity|methylglutaconyl-CoA hydratase activity|mRNA 3'-UTR binding				0						TCGAGGACTCGCGCAGAGAAT	0.557													42	93					0	0	0.01441	0	0		A	93983209	A	A	93983209	4	1	191	1	0	0	0	0	0	1	0	0	1220	1095	38	1	314	1	AUH	9	93983209	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	14086028	93983209	47230222	453	96075											
COL15A1	1306	broad.mit.edu	37	chr9	101829222	101829222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattcgagctgattttcagtGcttcaagcaggccagagctg	9	11	11	10	1	2	2	2	1	0	1	3	3	2	2	1	1	4	4	1	1	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:101829222G>A	uc004azb.1	+	40	3916	c.3710G>A	c.(3709-3711)TGC>TAC	p.C1237Y		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1237	Nonhelical region 10 (NC10).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GATTTTCAGTGCTTCAAGCAG	0.473													9	93					0	0	0.004482	0	0		A	101829222	A	A	101829222	3	1	191	1	0	0	0	0	1	0	0	0	3675	1319	46	2	3868	2	COL15A1	9	101829222	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7846013	101829222	39384209	454	96076											
FKTN	2218	broad.mit.edu	37	chr9	108397407	108397407	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgtaccctgtgaaaccctCgaatacattgaagccaacta	14	9	6	12	1	0	2	0	2	0	0	1	3	0	2	3	0	5	1	3	0	7	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:108397407C>T	uc004bcr.2	+	11	1464	c.1248C>T	c.(1246-1248)CTC>CTT	p.L416L	FKTN_uc011lvx.1_Silent_p.L416L|FKTN_uc004bcs.2_Silent_p.L416L|FKTN_uc011lvy.1_3'UTR|FKTN_uc010mtm.2_Silent_p.L284L	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	416	Lumenal (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						GTGAAACCCTCGAATACATTG	0.483													40	111					0	0	0.007835	0	0		T	108397407	T	T	108397407	2	4	191	1	0	0	0	0	0	0	0	1	5933	871	31	1		1	FKTN	9	108397407	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6568185	108397407	32816024	455	96077											
ZNF483	158399	broad.mit.edu	37	chr9	114303976	114303976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aataatagaaaggtgcctcaGggatgatgatcatggcttga	14	10	12	5	0	2	4	2	3	0	1	2	5	2	5	1	3	1	1	1	3	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:114303976G>T	uc004bff.2	+	6	985	c.761G>T	c.(760-762)AGG>ATG	p.R254M	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	254					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						AGGTGCCTCAGGGATGATGAT	0.383													15	44					9.16793e-09	1.01087e-08	0.00499	1	0		T	114303976	T	T	114303976	3	4	191	1	0	0	0	0	1	0	0	0	17961	1000	35	5	779	5	ZNF483	9	114303976	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5906569	114303976	26909455	456	96078											
KIAA1958	158405	broad.mit.edu	37	chr9	115421888	115421888	+	Missense_Mutation	SNP	A	C	C	1	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	ccactgtggtcaagtacaacAgccagtacctgaacatgcgg	12	7	10	12	1	1	1	1	1	0	0	1	1	1	1	3	2	6	2	3	2	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:115421888A>C	uc004bgf.1	+	4	1865	c.1690A>C	c.(1690-1692)AGC>CGC	p.S564R	KIAA1958_uc011lwx.1_Missense_Mutation_p.S592R	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	564										skin(1)	1						CAAGTACAACAGCCAGTACCT	0.562													5	18					0	0	0.000602	0	0		C	115421888	C	C	115421888	3	2	191	1	0	0	0	0	1	0	0	0	8280	188	7	5	1700	5	KIAA1958	9	115421888	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1117912	115421888	25791543	457	96079											
ZNF618	114991	broad.mit.edu	37	chr9	116811701	116811701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgttgctggtgcatgagCgctatgagcagatctgcgag	8	10	14	9	2	1	3	0	2	1	1	1	4	1	3	0	1	5	5	0	1	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:116811701C>T	uc004bid.2	+	15	2218	c.2119C>T	c.(2119-2121)CGC>TGC	p.R707C	ZNF618_uc004bic.2_Missense_Mutation_p.R614C|ZNF618_uc011lxi.1_Missense_Mutation_p.R674C|ZNF618_uc011lxj.1_Missense_Mutation_p.R675C|ZNF618_uc010mvb.2_Missense_Mutation_p.R297C	NM_133374	NP_588615	Q5T7W0	ZN618_HUMAN	zinc finger protein 618	707					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTGCATGAGCGCTATGAGCA	0.607													5	10					0	0	0.000602	0	0		T	116811701	T	T	116811701	3	4	191	1	0	0	0	0	1	0	0	0	18067	768	27	1	1894	1	ZNF618	9	116811701	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1389813	116811701	24401730	458	96080											
C5	727	broad.mit.edu	37	chr9	123753470	123753470	+	Frame_Shift_Del	DEL	T	-	-																															atggcatttgttaatttaccTtttacactcaaaatcctttt																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:123753470delT	uc004bkv.2	-	23	2970	c.2940delA	c.(2938-2940)AAAfs	p.K980fs		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	980					activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TTAATTTACCTTTTACACTCA	0.348													31	64	---	---	---	---						.	-	123753470	-	-	123753470	7	5	191	1	0	1	0	1	0	0	0	0	2283	1623	56	0	2166	0	C5	9	123753470	Frame_Shift_Del	DEL	T	TCGA-F1-6874-01A-11D-1882-08	6941769	123753470	17459961	459	96081											
CRB2	286204	broad.mit.edu	37	chr9	126136078	126136078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccggggtgggaaggcccgCgctgcgaagcccacgtcgac	6	3	17	15	6	0	0	0	0	0	0	1	3	0	1	3	4	2	1	3	4	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:126136078C>T	uc004bnx.1	+	10	3360	c.3268C>T	c.(3268-3270)CGC>TGC	p.R1090C	CRB2_uc004bnw.1_Missense_Mutation_p.R1090C	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	1090	Extracellular (Potential).|EGF-like 12.					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GGAAGGCCCGCGCTGCGAAGC	0.756													5	15					0	0	0.000602	0	0		T	126136078	T	T	126136078	3	4	191	1	0	0	0	0	1	0	0	0	3852	768	27	1	3306	1	CRB2	9	126136078	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2382608	126136078	15077353	460	96082											
RABEPK	10244	broad.mit.edu	37	chr9	127995981	127995981	+	Missense_Mutation	SNP	A	G	G	1	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	acatagaagagcagcattggAccttgcttaaatttgatact	14	12	8	7	0	0	3	0	1	0	2	0	4	0	4	1	1	4	3	1	1	5	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:127995981A>G	uc004bpi.2	+	9	1014	c.841A>G	c.(841-843)ACC>GCC	p.T281A	RABEPK_uc004bpj.2_Missense_Mutation_p.T230A|RABEPK_uc004bpk.2_Missense_Mutation_p.T281A|RABEPK_uc004bpl.1_3'UTR|RABEPK_uc004bpm.2_Missense_Mutation_p.T281A	NM_005833	NP_005824	Q7Z6M1	RABEK_HUMAN	Rab9 effector protein with kelch motifs	281	Kelch 5.				receptor-mediated endocytosis|vesicle docking involved in exocytosis	endosome membrane|plasma membrane				ovary(1)	1						GCAGCATTGGACCTTGCTTAA	0.348													48	184					0	0	0.01441	0	0		G	127995981	G	G	127995981	3	3	191	1	0	0	0	0	1	0	0	0	12988	275	10	3	867	3	RABEPK	9	127995981	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1859903	127995981	13217450	461	96083											
MAPKAP1	79109	broad.mit.edu	37	chr9	128322031	128322031	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatccagcggggggaaatcGgtgtccacctccccatcatc	9	7	11	14	2	1	0	1	0	0	0	6	2	4	1	5	4	1	0	5	4	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:128322031G>T	uc004bpv.2	-	6	1062	c.729C>A	c.(727-729)ACC>ACA	p.T243T	MAPKAP1_uc011lzt.1_Silent_p.T46T|MAPKAP1_uc010mwz.2_RNA|MAPKAP1_uc011lzu.1_Silent_p.T46T|MAPKAP1_uc011lzv.1_Intron|MAPKAP1_uc004bpw.2_Silent_p.T51T|MAPKAP1_uc004bpx.2_Silent_p.T51T|MAPKAP1_uc004bpy.2_Silent_p.T243T|MAPKAP1_uc004bpz.2_Silent_p.T243T|MAPKAP1_uc010mxa.2_RNA|MAPKAP1_uc010mxb.1_Silent_p.T46T|MAPKAP1_uc004bqa.2_Silent_p.T243T|MAPKAP1_uc010mxc.1_Silent_p.T115T	NM_001006617	NP_001006618	Q9BPZ7	SIN1_HUMAN	mitogen-activated protein kinase associated	243					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|response to stress|T cell costimulation	cytoplasmic membrane-bounded vesicle|cytosol|nucleus|plasma membrane	Ras GTPase binding			ovary(2)|lung(2)	4						GGGGGAAATCGGTGTCCACCT	0.488													13	26					0.00185496	0.00193622	0.001855	1	0		T	128322031	T	T	128322031	2	4	191	1	0	0	0	0	0	0	0	1	9306	1103	39	5		5	MAPKAP1	9	128322031	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	326050	128322031	12891400	462	96084											
GOLGA2	2801	broad.mit.edu	37	chr9	131036199	131036199	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttttattttcttcttcTttttcgctcctgtaggaaca	6	22	4	9	1	3	0	0	0	3	0	5	1	4	1	1	1	1	2	1	1	3	10	rs142168936		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:131036199T>C	uc011maw.1	-	2	150	c.137A>G	c.(136-138)AAG>AGG	p.K46R	GOLGA2_uc010mxw.2_Missense_Mutation_p.K34R|GOLGA2_uc004bul.1_5'UTR|C9orf119_uc010mxx.1_5'Flank|C9orf119_uc004bup.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	46	Poly-Lys.|Potential.					Golgi cisterna membrane	protein binding			ovary(1)	1						TTTCTTCTTCTTTTTCGCTCC	0.428													80	189					0	0	0.01441	0	0		C	131036199	C	C	131036199	3	2	191	1	0	0	0	0	1	0	0	0	6567	1609	56	3	2971	3	GOLGA2	9	131036199	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2714168	131036199	10177232	463	96085											
CERCAM	51148	broad.mit.edu	37	chr9	131185155	131185155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcccgtccccaggtgtgccaCggaccacaatgtggacaaca	10	6	10	15	2	0	0	0	0	0	0	2	2	2	2	5	3	2	0	5	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:131185155C>T	uc004buz.3	+	2	604	c.206C>T	c.(205-207)ACG>ATG	p.T69M	CERCAM_uc004buy.1_Translation_Start_Site|CERCAM_uc010mxz.2_Translation_Start_Site|CERCAM_uc010mya.1_5'Flank	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	69					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						AGGTGTGCCACGGACCACAAT	0.602													11	21					0	0	0.008291	0	0		T	131185155	T	T	131185155	3	4	191	1	0	0	0	0	1	0	0	0	3269	536	19	1	212	1	CERCAM	9	131185155	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	148956	131185155	10028276	464	96086											
TBC1D13	54662	broad.mit.edu	37	chr9	131568256	131568256	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccctcttcgccgatgacaAccgctttgacttcctcctcc	5	12	5	19	3	1	2	0	2	1	0	6	3	5	2	6	0	1	1	6	0	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:131568256A>G	uc010myj.2	+	10	1160	c.1037A>G	c.(1036-1038)AAC>AGC	p.N346S	TBC1D13_uc010myk.2_Missense_Mutation_p.N221S|TBC1D13_uc010myl.2_Missense_Mutation_p.N165S	NM_018201	NP_060671	Q9NVG8	TBC13_HUMAN	TBC1 domain family, member 13	346						intracellular	Rab GTPase activator activity				0						GCCGATGACAACCGCTTTGAC	0.592													13	45					0	0	0.00245	0	0		G	131568256	G	G	131568256	3	3	191	1	0	0	0	0	1	0	0	0	15627	43	2	3	1075	3	TBC1D13	9	131568256	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	383101	131568256	9645175	465	96087											
BAT2L1	84726	broad.mit.edu	37	chr9	134360135	134360135	+	Silent	SNP	T	C	C	0	1	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	cacatccagagggccatcggTctctccccaatgtccttccc	7	9	7	18	1	1	1	0	0	1	1	7	1	5	1	6	2	0	0	6	2	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:134360135T>C	uc004can.3	+	23	5578	c.5523T>C	c.(5521-5523)GGT>GGC	p.G1841G	BAT2L1_uc004cao.3_Silent_p.G1198G|BAT2L1_uc004cap.3_5'Flank|SNORD62A_uc004caq.2_5'Flank	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1841							protein binding				0						GGGCCATCGGTCTCTCCCCAA	0.572													4	161					0	0	0.000602	0	0		C	134360135	C	C	134360135	2	2	191	1	0	0	0	0	0	0	0	1	1321	1654	58	3		3	BAT2L1	9	134360135	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2791879	134360135	6853296	466	96088											
GTF3C4	9329	broad.mit.edu	37	chr9	135553481	135553481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	accctgaggggaaggctttaCcaccaatgagaggattcaag	13	7	12	9	0	1	2	1	2	0	1	1	5	1	4	3	4	1	1	3	4	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:135553481C>T	uc010mzv.2	+	2	733	c.475C>T	c.(475-477)CCA>TCA	p.P159S	GTF3C4_uc010mzw.2_RNA	NM_012204	NP_036336	Q9UKN8	TF3C4_HUMAN	general transcription factor IIIC 4	159					transcription initiation from RNA polymerase III promoter	transcription factor TFIIIC complex	DNA binding|enzyme activator activity|histone acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(145;8.15e-07)|Epithelial(140;2.6e-05)		GAAGGCTTTACCACCAATGAG	0.542													44	108					0	0	0.01441	0	0		T	135553481	T	T	135553481	3	4	191	1	0	0	0	0	1	0	0	0	6891	507	18	4	481	4	GTF3C4	9	135553481	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1193346	135553481	5659950	467	96089											
RPL7A	6130	broad.mit.edu	37	chr9	136217870	136217870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttagggaagacaaaggcGctttggctaagctggtggaa	11	10	14	6	1	0	1	0	0	0	1	0	3	0	3	0	5	1	3	0	5	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:136217870G>A	uc004cde.1	+	7	670	c.640G>A	c.(640-642)GCT>ACT	p.A214T	MED22_uc004cdc.2_5'Flank|MED22_uc004cdd.2_5'Flank|RPL7A_uc004cdf.1_Missense_Mutation_p.A38T	NM_000972	NP_000963	P62424	RL7A_HUMAN	ribosomal protein L7a	214					endocrine pancreas development|ribosome biogenesis|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|membrane fraction|polysomal ribosome	RNA binding|structural constituent of ribosome				0				OV - Ovarian serous cystadenocarcinoma(145;4.93e-07)|Epithelial(140;4.09e-06)|all cancers(34;3.78e-05)		AGACAAAGGCGCTTTGGCTAA	0.413													7	35					0	0	0.001984	0	0		A	136217870	A	A	136217870	3	1	191	1	0	0	0	0	1	0	0	0	13625	1087	38	1	666	1	RPL7A	9	136217870	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	664389	136217870	4995561	468	96090											
ADAMTS13	11093	broad.mit.edu	37	chr9	136324225	136324225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggctcaggccagcctgcggGgccagtactggaccctccaa	8	5	13	15	1	1	0	1	0	0	0	2	1	2	1	5	5	3	2	5	5	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:136324225G>A	uc004cdv.3	+	29	4651	c.4207G>A	c.(4207-4209)GGC>AGC	p.G1403S	ADAMTS13_uc004cdp.3_3'UTR|ADAMTS13_uc004cdt.1_Missense_Mutation_p.G1347S|ADAMTS13_uc004cdu.1_Missense_Mutation_p.G1316S|ADAMTS13_uc004cdw.3_Missense_Mutation_p.G1347S|ADAMTS13_uc004cdx.3_Missense_Mutation_p.G1316S|ADAMTS13_uc004cdz.3_Missense_Mutation_p.G1073S|ADAMTS13_uc004ceb.3_Missense_Mutation_p.G199S|C9orf7_uc011mdg.1_5'Flank|C9orf7_uc004cec.2_5'Flank|C9orf7_uc011mdh.1_5'Flank|C9orf7_uc011mdi.1_5'Flank|C9orf7_uc010nan.2_5'Flank	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1403	CUB 2.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		CAGCCTGCGGGGCCAGTACTG	0.587													3	21					0	0	0.004672	0	0		A	136324225	A	A	136324225	3	1	191	1	0	0	0	0	1	0	0	0	258	1232	43	4	4321	4	ADAMTS13	9	136324225	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	106355	136324225	4889206	469	96091											
VAV2	7410	broad.mit.edu	37	chr9	136677299	136677299	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcgtcccctccatcctcacaCgggacgcagtcgtagatgtc	7	9	9	16	4	1	1	1	0	0	1	7	2	4	2	4	1	0	2	4	1	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:136677299C>T	uc004ces.2	-	5	535	c.489G>A	c.(487-489)CCG>CCA	p.P163P	VAV2_uc004cer.2_Silent_p.P163P	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	163					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CATCCTCACACGGGACGCAGT	0.672													21	64					0	0	0.014323	0	0		T	136677299	T	T	136677299	2	4	191	1	0	0	0	0	0	0	0	1	17158	523	19	1		1	VAV2	9	136677299	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	353074	136677299	4536132	470	96092											
C9orf86	55684	broad.mit.edu	37	chr9	139726193	139726193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccttcaattacattctccGggagcttccaaaagtgccca	11	10	7	13	1	2	0	1	0	1	0	4	2	3	1	4	1	3	1	4	1	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr9:139726193G>A	uc004cji.1	+	6	747	c.479G>A	c.(478-480)CGG>CAG	p.R160Q	C9orf86_uc004cjm.2_Missense_Mutation_p.R160Q|C9orf86_uc004cjh.2_Missense_Mutation_p.R160Q|C9orf86_uc004cjj.1_Missense_Mutation_p.R160Q|C9orf86_uc004cjk.1_RNA|C9orf86_uc010nbr.1_Missense_Mutation_p.R160Q|C9orf86_uc004cjl.1_RNA|C9orf86_uc010nbs.1_Missense_Mutation_p.R45Q	NM_024718	NP_078994	Q3YEC7	PARF_HUMAN	Rab-like GTP-binding protein 1 isoform 1	160	Small GTPase-like.				small GTPase mediated signal transduction	cytoplasm|nucleus	GTP binding|protein binding				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.61e-05)|Epithelial(140;0.000183)		TACATTCTCCGGGAGCTTCCA	0.617													13	48					0	0	0.001855	0	0		A	139726193	A	A	139726193	3	1	191	1	0	0	0	0	1	0	0	0	2505	1116	39	1	501	1	C9orf86	9	139726193	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3048894	139726193	1487238	471	96093											
LARP4B	23185	broad.mit.edu	37	chr10	890939	890939	+	Frame_Shift_Del	DEL	T	-	-																															agataagcagaattccaatgTttttttaagtacttctcggg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:890939delT	uc001ifs.1	-	5	528	c.487delA	c.(487-489)ACAfs	p.T163fs		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	163	HTH La-type RNA-binding.						nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3						AATTCCAATGTTTTTTTAAGT	0.353													35	79	---	---	---	---						.	-	890939	-	-	890939	7	5	191	1	0	1	0	1	0	0	0	0	8647	1725	60	0	1781	0	LARP4B	10	890939	Frame_Shift_Del	DEL	T	TCGA-F1-6874-01A-11D-1882-08		890939	134643808	472	96094											
GTPBP4	23560	broad.mit.edu	37	chr10	1058424	1058426	+	In_Frame_Del	DEL	AAG	-	-																															gaaattggaagaattagaaaAagaagaagagctgagaacag																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:1058424_1058426delAAG	uc001ift.2	+	14	1435_1437	c.1364_1366delAAG	c.(1363-1368)AAAGAA>AAA	p.E458del	GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_In_Frame_Del_p.E342del|GTPBP4_uc010qae.1_In_Frame_Del_p.E411del	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	458					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GAATTAGAAAAAGAAGAAGAGCT	0.414													14	22	---	---	---	---						.	-	1058426	-	-	1058424	7	5	191	1	0	1	0	1	0	0	0	0	6898	14	1	0	1418	0	GTPBP4	10	1058424	In_Frame_Del	DEL	AAG	TCGA-F1-6874-01A-11D-1882-08	167485	1058424	134476323	473	96095											
ADARB2	105	broad.mit.edu	37	chr10	1279636	1279636	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaaaagcatggtctcttacGgtctgtggtgatctcgtagg	8	13	13	7	2	3	1	0	1	3	0	5	1	3	1	0	4	2	3	0	4	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:1279636G>A	uc009xhq.2	-	6	1887	c.1513C>T	c.(1513-1515)CTG>TTG	p.L505L		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	505	A to I editase.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		GGTCTCTTACGGTCTGTGGTG	0.592													37	132					0	0	0.006999	0	0		A	1279636	A	A	1279636	2	1	191	1	0	0	0	0	0	0	0	1	283	1130	39	1		1	ADARB2	10	1279636	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	221212	1279636	134255111	474	96096											
KLF6	1316	broad.mit.edu	37	chr10	3823983	3823983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccccgaagtcccgctgcGcaccttccctggcgagggca	5	7	11	18	4	0	0	0	0	0	0	3	2	3	0	5	2	1	3	5	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:3823983G>A	uc001iha.2	-	2	793	c.526C>T	c.(526-528)CGC>TGC	p.R176C	KLF6_uc010qaj.1_Missense_Mutation_p.R176C|KLF6_uc010qak.1_Intron|KLF6_uc010qal.1_Missense_Mutation_p.R176C|KLF6_uc001ihb.2_Missense_Mutation_p.R176C	NM_001300	NP_001291	Q99612	KLF6_HUMAN	Kruppel-like factor 6 isoform A	176					B cell differentiation	nucleus	zinc ion binding			central_nervous_system(3)|lung(1)	4				Colorectal(1;0.238)		GTCCCGCTGCGCACCTTCCCT	0.647											OREG0019980	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	90					0	0	0.003271	0	0		A	3823983	A	A	3823983	3	1	191	1	0	0	0	0	1	0	0	0	8366	1087	38	1	337	1	KLF6	10	3823983	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2544347	3823983	131710764	475	96097											
NET1	10276	broad.mit.edu	37	chr10	5496975	5496975	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggtgaatccgagtgccagtAttacatcgacaagctggagt	12	9	12	8	2	0	1	0	1	0	0	2	4	1	2	2	2	3	2	2	2	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:5496975A>G	uc001iia.2	+	10	1229	c.1091A>G	c.(1090-1092)TAT>TGT	p.Y364C	NET1_uc010qar.1_Missense_Mutation_p.Y183C|NET1_uc001iib.2_Missense_Mutation_p.Y310C|NET1_uc010qas.1_Missense_Mutation_p.Y183C	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	364					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						GAGTGCCAGTATTACATCGAC	0.458													34	87					0	0	0.012213	0	0		G	5496975	G	G	5496975	3	3	191	1	0	0	0	0	1	0	0	0	10357	449	16	3	1226	3	NET1	10	5496975	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1672992	5496975	130037772	476	96098											
ITIH5	80760	broad.mit.edu	37	chr10	7708805	7708805	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctctgcgcctcttcctgCgaccccacacacagggacag	8	6	9	18	2	2	0	0	0	2	0	3	2	3	1	4	1	3	1	4	1	0	1	rs149614899		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:7708805C>T	uc001ijq.2	-	1	130	c.51G>A	c.(49-51)TCG>TCA	p.S17S	ITIH5_uc001ijr.1_Silent_p.S17S	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	17					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CCTCTTCCTGCGACCCCACAC	0.597													4	53					0	0	0.001984	0	0		T	7708805	T	T	7708805	2	4	191	1	0	0	0	0	0	0	0	1	7923	755	27	1		1	ITIH5	10	7708805	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2211830	7708805	127825942	477	96099											
USP6NL	9712	broad.mit.edu	37	chr10	11504926	11504926	+	Frame_Shift_Del	DEL	G	-	-																															gtagaaccatgaggtctcctGgaaggattcagttgagtccc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:11504926delG	uc001ikt.3	-	15	2322	c.2001delC	c.(1999-2001)TCCfs	p.S667fs	USP6NL_uc001iks.1_Frame_Shift_Del_p.S684fs	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	667						intracellular	Rab GTPase activator activity				0						GAGGTCTCCTGGAAGGATTCA	0.527													13	23	---	---	---	---						.	-	11504926	-	-	11504926	7	5	191	1	0	1	0	1	0	0	0	0	17113	1335	47	0	489	0	USP6NL	10	11504926	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	3796121	11504926	124029821	478	96100											
DCLRE1C	64421	broad.mit.edu	37	chr10	14961737	14961737	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaggaccatttttcttacCtgagtctcggtgaactgttc	7	14	8	12	1	2	2	0	2	2	0	4	3	2	3	3	2	2	1	3	2	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:14961737C>A	uc001inn.2	-	13	1241	c.1156G>T	c.(1156-1158)GAG>TAG	p.E386*	DCLRE1C_uc010qbx.1_Missense_Mutation_p.G386W|DCLRE1C_uc001ink.2_Nonsense_Mutation_p.E39*|DCLRE1C_uc001inl.2_Nonsense_Mutation_p.E266*|DCLRE1C_uc009xji.2_Nonsense_Mutation_p.E271*|DCLRE1C_uc001inm.2_Nonsense_Mutation_p.E266*|DCLRE1C_uc001ino.2_Nonsense_Mutation_p.E271*|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Nonsense_Mutation_p.E266*|DCLRE1C_uc001inq.2_Nonsense_Mutation_p.E266*|DCLRE1C_uc001inr.2_Nonsense_Mutation_p.E271*	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	386					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						TTTTTCTTACCTGAGTCTCGG	0.517								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					27	79					7.01153e-11	7.87361e-11	0.007291	1	0		A	14961737	A	A	14961737	4	1	191	1	0	0	0	0	0	1	0	0	4299	695	24	5	930	5	DCLRE1C	10	14961737	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3456811	14961737	120573010	479	96101											
CUBN	8029	broad.mit.edu	37	chr10	16967768	16967768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcatgcaaatatccacCgcagccttcccacaaagaaa	14	7	6	14	1	1	1	0	0	1	1	3	1	3	1	4	0	3	3	4	0	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:16967768C>T	uc001ioo.2	-	42	6329	c.6277G>A	c.(6277-6279)GGT>AGT	p.G2093S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2093	CUB 15.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	AAATATCCACCGCAGCCTTCC	0.458													8	33					0	0	0.00308	0	0		T	16967768	T	T	16967768	3	4	191	1	0	0	0	0	1	0	0	0	4054	652	23	1	4698	1	CUBN	10	16967768	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2006031	16967768	118566979	480	96102											
ARMC3	219681	broad.mit.edu	37	chr10	23287247	23287247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccatcatcagcccactgcGttctgcaaacacagtcgtgc	9	9	8	15	2	3	0	2	0	1	0	4	0	3	0	2	0	6	2	2	0	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:23287247G>A	uc001irm.3	+	11	1429	c.1346G>A	c.(1345-1347)CGT>CAT	p.R449H	ARMC3_uc010qcv.1_Missense_Mutation_p.R449H|ARMC3_uc010qcw.1_Missense_Mutation_p.R186H	NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	449	ARM 11.						binding				0						AGCCCACTGCGTTCTGCAAAC	0.517													9	17					0	0	0.004482	0	0		A	23287247	A	A	23287247	3	1	191	1	0	0	0	0	1	0	0	0	953	1145	40	1	1384	1	ARMC3	10	23287247	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6319479	23287247	112247500	481	96103											
YME1L1	10730	broad.mit.edu	37	chr10	27403517	27403517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gacttagtttccctgtatcaCtgtaggtcataactccaagc	10	13	7	11	0	2	0	2	0	0	0	4	1	4	0	2	1	2	3	2	1	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:27403517C>T	uc001iti.2	-	19	2293	c.2111G>A	c.(2110-2112)AGT>AAT	p.S704N	YME1L1_uc001itj.2_Missense_Mutation_p.S647N|YME1L1_uc010qdl.1_Missense_Mutation_p.S614N|YME1L1_uc009xkv.2_RNA	NM_139312	NP_647473	Q96TA2	YMEL1_HUMAN	YME1-like 1 isoform 1	704					protein catabolic process|proteolysis	membrane|mitochondrion	ATP binding|metal ion binding|metalloendopeptidase activity|nucleoside-triphosphatase activity			ovary(1)	1						CCCTGTATCACTGTAGGTCAT	0.333													16	65					0	0	0.012319	0	0		T	27403517	T	T	27403517	3	4	191	1	0	0	0	0	1	0	0	0	17513	565	20	4	218	4	YME1L1	10	27403517	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4116270	27403517	108131230	482	96104											
ITGB1	3688	broad.mit.edu	37	chr10	33200585	33200585	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactcacacacacgacacttGcaaacaccatttcctgcaat	14	8	3	16	1	1	0	1	0	0	0	2	1	2	0	2	0	3	2	2	0	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:33200585G>A	uc001iws.3	-	13	1858	c.1722C>T	c.(1720-1722)TGC>TGT	p.C574C	ITGB1_uc001iwp.3_Silent_p.C574C|ITGB1_uc001iwq.3_Silent_p.C574C|ITGB1_uc001iwr.3_Silent_p.C574C|ITGB1_uc001iwt.3_Silent_p.C574C|ITGB1_uc001iwu.1_Silent_p.C574C	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	574	Extracellular (Potential).|III.|Cysteine-rich tandem repeats.				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				CACGACACTTGCAAACACCAT	0.398													61	138					0	0	0.01441	0	0		A	33200585	A	A	33200585	2	1	191	1	0	0	0	0	0	0	0	1	7906	1311	46	2		2	ITGB1	10	33200585	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5797068	33200585	102334162	483	96105											
CSGALNACT2	55454	broad.mit.edu	37	chr10	43651044	43651044	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggggtcattccctttgaAagttttaccttaatgaaagt	11	16	8	6	0	1	2	1	2	0	0	2	2	2	2	2	2	1	1	2	2	5	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:43651044A>G	uc001jan.2	+	2	782	c.447A>G	c.(445-447)GAA>GAG	p.E149E	CSGALNACT2_uc001jam.1_Silent_p.E149E	NM_018590	NP_061060	Q8N6G5	CGAT2_HUMAN	chondroitin sulfate	149	Lumenal (Potential).				chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process	Golgi cisterna membrane|integral to Golgi membrane	glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding			ovary(1)	1						TTCCCTTTGAAAGTTTTACCT	0.403													7	48					0	0	0.004482	0	0		G	43651044	G	G	43651044	2	3	191	1	0	0	0	0	0	0	0	1	3942	11	1	3		3	CSGALNACT2	10	43651044	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	10450459	43651044	91883703	484	96106											
ANUBL1	93550	broad.mit.edu	37	chr10	46121925	46121925	+	Missense_Mutation	SNP	A	G	G	1	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	tctctactgattccccattcAgcactcctgcaacatgcttg	8	13	5	15	0	2	1	1	1	1	0	5	1	4	1	3	0	5	3	3	0	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:46121925A>G	uc001jcp.3	-	7	1588	c.1346T>C	c.(1345-1347)CTG>CCG	p.L449P	ANUBL1_uc001jcl.3_5'UTR|ANUBL1_uc001jcm.3_Missense_Mutation_p.L449P|ANUBL1_uc009xmu.2_Missense_Mutation_p.L375P|ANUBL1_uc001jcn.3_Missense_Mutation_p.L375P|ANUBL1_uc001jco.3_Intron	NM_001128324	NP_001121796	Q86XD8	ANUB1_HUMAN	AN1, ubiquitin-like, homolog	449							zinc ion binding				0						TTCCCCATTCAGCACTCCTGC	0.463													76	178					0	0	0.01441	0	0		G	46121925	G	G	46121925	3	3	191	1	0	0	0	0	1	0	0	0	713	188	7	3	853	3	ANUBL1	10	46121925	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2470881	46121925	89412822	485	96107											
ERCC6	2074	broad.mit.edu	37	chr10	50740632	50740632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atactccttctccacgtcaaCgagctgggaggcacggctgg	8	8	12	13	3	2	0	1	0	1	0	4	2	3	1	2	4	3	3	2	4	2	2	rs116275562	by1000genomes	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:50740632C>T	uc001jhs.3	-	2	533	c.379G>A	c.(379-381)GTT>ATT	p.V127I	PGBD3_uc009xoe.2_Missense_Mutation_p.V127I|PGBD3_uc001jhu.2_Missense_Mutation_p.V127I	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	127					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						TCCACGTCAACGAGCTGGGAG	0.552								Direct_reversal_of_damage|NER					22	61					0	0	0.003954	0	0		T	50740632	T	T	50740632	3	4	191	1	0	0	0	0	1	0	0	0	5225	536	19	1	4182	1	ERCC6	10	50740632	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4618707	50740632	84794115	486	96108											
PCDH15	65217	broad.mit.edu	37	chr10	55587205	55587205	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgcacctggcggaggcggcgGcggcggcgggggcgctgcca	3	2	22	14	8	0	0	0	0	0	0	0	1	0	1	2	9	1	2	2	9	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:55587205G>A	uc001jju.1	-	32	4710	c.4315C>T	c.(4315-4317)CCG>TCG	p.P1439S	PCDH15_uc010qhq.1_Missense_Mutation_p.P1444S|PCDH15_uc010qhr.1_Missense_Mutation_p.P1439S|PCDH15_uc010qhs.1_Missense_Mutation_p.P1451S|PCDH15_uc010qht.1_Missense_Mutation_p.P1446S|PCDH15_uc010qhu.1_Missense_Mutation_p.P1439S|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.P1436S|PCDH15_uc010qhw.1_Missense_Mutation_p.P1399S|PCDH15_uc010qhx.1_Missense_Mutation_p.P1368S|PCDH15_uc010qhy.1_Missense_Mutation_p.P1444S|PCDH15_uc010qhz.1_Missense_Mutation_p.P1439S|PCDH15_uc010qia.1_Missense_Mutation_p.P1417S|PCDH15_uc010qib.1_Missense_Mutation_p.P1414S	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1439	Poly-Pro.|Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ggaggcggcggcggcggcggg	0.438										HNSCC(58;0.16)			20	59					0	0	0.008871	0	0		A	55587205	A	A	55587205	3	1	191	1	0	0	0	0	1	0	0	0	11530	1203	42	2	3179	2	PCDH15	10	55587205	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4846573	55587205	79947542	487	96109											
ARID5B	84159	broad.mit.edu	37	chr10	63851103	63851103	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattacattgccaactgcacCgtgaaggtggaccagctggg	10	8	13	10	1	0	1	0	1	0	0	0	3	0	2	3	3	5	2	3	3	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:63851103C>T	uc001jlt.1	+	10	1907	c.1881C>T	c.(1879-1881)ACC>ACT	p.T627T		NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	627					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					CCAACTGCACCGTGAAGGTGG	0.557													13	36					0	0	0.003163	0	0		T	63851103	T	T	63851103	2	4	191	1	0	0	0	0	0	0	0	1	922	639	23	1		1	ARID5B	10	63851103	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	8263898	63851103	71683644	488	96110											
LRRTM3	347731	broad.mit.edu	37	chr10	68687773	68687773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtggcaaaagtactacaGagaggtttgatctggccagg	11	10	13	7	0	2	2	0	1	2	1	2	3	2	2	1	4	2	3	1	4	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:68687773G>A	uc001jmz.1	+	2	1649	c.1099G>A	c.(1099-1101)GAG>AAG	p.E367K	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.E367K	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	367	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						AAGTACTACAGAGAGGTTTGA	0.527													23	76					0	0	0.00632	0	0		A	68687773	A	A	68687773	3	1	191	1	0	0	0	0	1	0	0	0	9059	943	33	4	1105	4	LRRTM3	10	68687773	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4836670	68687773	66846974	489	96111											
GRID1	2894	broad.mit.edu	37	chr10	87487639	87487639	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgagctccccgatcatcccGttccaggaggtgttatggag	8	10	12	11	2	1	1	1	1	0	0	4	4	4	3	4	3	1	3	4	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:87487639G>A	uc001kdl.1	-	10	1607	c.1506C>T	c.(1504-1506)AAC>AAT	p.N502N	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Silent_p.N73N	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	502	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CGATCATCCCGTTCCAGGAGG	0.537										Multiple Myeloma(13;0.14)			42	71					0	0	0.00874	0	0		A	87487639	A	A	87487639	2	1	191	1	0	0	0	0	0	0	0	1	6787	1136	40	1		1	GRID1	10	87487639	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	18799866	87487639	48047108	490	96112											
AGAP11	119385	broad.mit.edu	37	chr10	88768309	88768309	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acatctgagaaagggagtgaCccagacaaagggaggaaagc	17	3	14	7	0	1	3	0	2	1	2	1	7	1	6	1	3	1	0	1	3	3	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:88768309C>T	uc001kee.2	+	12	1504	c.300C>T	c.(298-300)GAC>GAT	p.D100D	AGAP11_uc001kef.2_Intron	NM_133447	NP_597704	Q8TF27	AGA11_HUMAN	ankyrin repeat and GTPase domain Arf GTPase	100					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						AAGGGAGTGACCCAGACAAAG	0.542													11	424					0	0	0.008291	0	0		T	88768309	T	T	88768309	2	4	191	1	0	0	0	0	0	0	0	1	367	506	18	4		4	AGAP11	10	88768309	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1280670	88768309	46766438	491	96113											
CYP26C1	340665	broad.mit.edu	37	chr10	94828412	94828412	+	Frame_Shift_Del	DEL	C	-	-																															gggctgcggctctttttccaCcccctcacgccttcggttgc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:94828412delC	uc010qns.1	+	6	1527	c.1527delC	c.(1525-1527)CACfs	p.H509fs	CYP26C1_uc009xud.2_RNA	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	509					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				TCTTTTTCCACCCCCTCACGC	0.677													17	38	---	---	---	---						.	-	94828412	-	-	94828412	7	5	191	1	0	1	0	1	0	0	0	0	4160	506	18	0	1549	0	CYP26C1	10	94828412	Frame_Shift_Del	DEL	C	TCGA-F1-6874-01A-11D-1882-08	6060103	94828412	40706335	492	96114											
GPR120	338557	broad.mit.edu	37	chr10	95347049	95347049	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaccagatccgcgtgtccCagcaggacttccggctcttc	6	8	10	17	3	1	1	0	0	1	1	5	2	4	2	5	2	1	2	5	2	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:95347049C>T	uc010qnt.1	+	4	873	c.817C>T	c.(817-819)CAG>TAG	p.Q273*	GPR120_uc010qnu.1_Nonsense_Mutation_p.Q257*	NM_181745	NP_859529	Q5NUL3	O3FA1_HUMAN	G protein-coupled receptor 120	273	Cytoplasmic (Potential).				negative regulation of cytokine secretion|negative regulation of inflammatory response|regulation of glucose transport	integral to membrane|plasma membrane	fatty acid binding				0		Colorectal(252;0.122)				CCGCGTGTCCCAGCAGGACTT	0.557													41	100					0	0	0.00623	0	0		T	95347049	T	T	95347049	4	4	191	1	0	0	0	0	0	1	0	0	6651	595	21	4	831	4	GPR120	10	95347049	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	518637	95347049	40187698	493	96115											
PDE6C	5146	broad.mit.edu	37	chr10	95422382	95422382	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggatttattgattttgtTtgtacttttgtatataaggt	8	23	9	1	0	0	1	0	1	0	0	0	2	0	2	0	2	1	4	0	2	5	13			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:95422382T>C	uc001kiu.3	+	20	2487	c.2349T>C	c.(2347-2349)GTT>GTC	p.V783V		NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C	783					visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				TTGATTTTGTTTGTACTTTTG	0.274													20	50					0	0	0.012319	0	0		C	95422382	C	C	95422382	2	2	191	1	0	0	0	0	0	0	0	1	11666	1828	64	3		3	PDE6C	10	95422382	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	75333	95422382	40112365	494	96116											
PLCE1	51196	broad.mit.edu	37	chr10	95987095	95987095	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgacatggctgatcctcacGgcaggctccatggaggagaa	10	7	14	10	1	1	3	1	2	0	1	3	5	3	4	2	5	0	3	2	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:95987095G>A	uc001kjk.2	+	5	2476	c.1842G>A	c.(1840-1842)ACG>ACA	p.T614T	PLCE1_uc010qnx.1_Silent_p.T614T|PLCE1_uc001kjm.2_Silent_p.T306T	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	614	Ras-GEF.				activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				TGATCCTCACGGCAGGCTCCA	0.478													25	80					0	0	0.00333	0	0		A	95987095	A	A	95987095	2	1	191	1	0	0	0	0	0	0	0	1	12053	1103	39	1		1	PLCE1	10	95987095	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	564713	95987095	39547652	495	96117											
CYP2C19	1557	broad.mit.edu	37	chr10	96535263	96535263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtgttcaagaggaagccCgctgccttgtggaggagttg	8	9	15	9	2	1	1	1	0	0	1	1	4	1	4	3	3	2	3	3	3	2	3	rs142974781		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:96535263C>T	uc010qnz.1	+	3	448	c.448C>T	c.(448-450)CGC>TGC	p.R150C	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Missense_Mutation_p.R128C	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	150					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	AGAGGAAGCCCGCTGCCTTGT	0.512													11	173					0	0	0.010729	0	0		T	96535263	T	T	96535263	3	4	191	1	0	0	0	0	1	0	0	0	4169	652	23	1	458	1	CYP2C19	10	96535263	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	548168	96535263	38999484	496	96118											
ENTPD7	57089	broad.mit.edu	37	chr10	101439208	101439208	+	Frame_Shift_Del	DEL	A	-	-																															gcaacagccaaccagtggttAaaaaaatcaagccaggtact																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:101439208delA	uc001kqa.3	+	4	560	c.382delA	c.(382-384)AAAfs	p.K128fs	ENTPD7_uc009xwl.2_Frame_Shift_Del_p.K130fs	NM_020354	NP_065087	Q9NQZ7	ENTP7_HUMAN	ectonucleoside triphosphate diphosphohydrolase	128	Vesicular (Potential).					cytoplasmic vesicle membrane|integral to membrane	hydrolase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.75e-08)		ACCAGTGGTTAAAAAAATCAA	0.413													13	25	---	---	---	---						.	-	101439208	-	-	101439208	7	5	191	1	0	1	0	1	0	0	0	0	5152	363	13	0	392	0	ENTPD7	10	101439208	Frame_Shift_Del	DEL	A	TCGA-F1-6874-01A-11D-1882-08	4903945	101439208	34095539	497	96119											
C10orf2	56652	broad.mit.edu	37	chr10	102748185	102748185	+	Missense_Mutation	SNP	A	G	G	1	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	gcatgggatccccttccaggAtggtcacagttgcctgcggg	6	9	14	12	1	1	0	1	0	0	0	3	2	3	2	4	4	2	2	4	4	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:102748185A>G	uc001ksf.2	+	1	893	c.218A>G	c.(217-219)GAT>GGT	p.D73G	MRPL43_uc001kry.1_5'Flank|MRPL43_uc010qpu.1_5'Flank|MRPL43_uc001krz.1_5'Flank|MRPL43_uc001ksa.1_5'Flank|MRPL43_uc001ksb.1_5'Flank|MRPL43_uc001ksd.1_5'Flank|MRPL43_uc001ksc.2_5'Flank|MRPL43_uc001kse.2_5'Flank|C10orf2_uc001ksg.2_Missense_Mutation_p.D73G|C10orf2_uc001ksi.2_Intron|C10orf2_uc010qpv.1_Intron|C10orf2_uc001ksh.2_Intron	NM_021830	NP_068602	Q96RR1	PEO1_HUMAN	twinkle isoform A	73					cell death|mitochondrial DNA replication|protein hexamerization|protein homooligomerization|transcription from mitochondrial promoter	mitochondrial nucleoid	5'-3' DNA helicase activity|ATP binding|protease binding|single-stranded DNA binding			ovary(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CCCTTCCAGGATGGTCACAGT	0.537													4	172					0	0	0.009096	0	0		G	102748185	G	G	102748185	3	3	191	1	0	0	0	0	1	0	0	0	1600	333	12	3	220	3	C10orf2	10	102748185	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1308977	102748185	32786562	498	96120											
PDZD7	79955	broad.mit.edu	37	chr10	102777873	102777873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tacctttctctatgtccaggCgagggtaagttttggccagg	7	13	12	9	1	1	0	0	0	1	0	3	1	2	0	3	4	1	2	3	4	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:102777873C>T	uc001kso.1	-	9	1720	c.1505G>A	c.(1504-1506)CGC>CAC	p.R502H	PDZD7_uc001ksn.2_Missense_Mutation_p.R502H	NM_024895	NP_079171	Q9H5P4	PDZD7_HUMAN	PDZ domain containing 7	502						cilium|nucleus	protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3				Epithelial(162;6.98e-09)|all cancers(201;3.55e-07)		TATGTCCAGGCGAGGGTAAGT	0.438													41	88					0	0	0.009718	0	0		T	102777873	T	T	102777873	3	4	191	1	0	0	0	0	1	0	0	0	11723	768	27	1	56	1	PDZD7	10	102777873	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	29688	102777873	32756874	499	96121											
TMEM180	79847	broad.mit.edu	37	chr10	104235578	104235578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacaggccccgacgctccGccagggctgcttctacctgc	5	7	11	18	3	1	0	0	0	1	0	2	1	2	0	5	2	4	4	5	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:104235578G>A	uc001kvt.2	+	10	1610	c.1391G>A	c.(1390-1392)CGC>CAC	p.R464H	TMEM180_uc010qql.1_Missense_Mutation_p.R193H|TMEM180_uc010qqm.1_Intron	NM_024789	NP_079065	Q14CX5	TM180_HUMAN	transmembrane protein 180	464						integral to membrane				ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		CCGACGCTCCGCCAGGGCTGC	0.657													7	50					0	0	0.001984	0	0		A	104235578	A	A	104235578	3	1	191	1	0	0	0	0	1	0	0	0	16124	1087	38	1	1421	1	TMEM180	10	104235578	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1457705	104235578	31299169	500	96122											
ACTR1A	10121	broad.mit.edu	37	chr10	104248876	104248876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcctgccatgacacgaaCgtgcttgggtcggcccacac	7	7	12	15	3	0	1	0	1	0	0	2	2	1	1	3	3	3	2	3	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:104248876C>T	uc001kvv.2	-	3	241	c.133G>A	c.(133-135)GTT>ATT	p.V45I	ACTR1A_uc010qqn.1_Intron|ACTR1A_uc010qqo.1_5'UTR	NM_005736	NP_005727	P61163	ACTZ_HUMAN	ARP1 actin-related protein 1 homolog A,	45					G2/M transition of mitotic cell cycle|vesicle-mediated transport	centrosome|cytosol|dynactin complex	ATP binding			central_nervous_system(1)	1		Colorectal(252;0.122)		Epithelial(162;5.34e-09)|all cancers(201;1.43e-07)|BRCA - Breast invasive adenocarcinoma(275;0.222)		ATGACACGAACGTGCTTGGGT	0.443													52	112					0	0	0.01441	0	0		T	104248876	T	T	104248876	3	4	191	1	0	0	0	0	1	0	0	0	209	536	19	1	1033	1	ACTR1A	10	104248876	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	13298	104248876	31285871	501	96123											
C10orf118	55088	broad.mit.edu	37	chr10	115917403	115917403	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttctgaacaaatgtctacGaagagctcctgatgcttctt	10	15	7	9	1	3	3	0	2	3	1	4	4	4	3	1	0	4	2	1	0	4	5	rs146089301		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:115917403G>A	uc001lbb.1	-	3	1321	c.669C>T	c.(667-669)TTC>TTT	p.F223F	C10orf118_uc001lbc.1_Silent_p.F223F|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	223	Potential.									ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		AAATGTCTACGAAGAGCTCCT	0.284													20	49					0	0	0.012319	0	0		A	115917403	A	A	115917403	2	1	191	1	0	0	0	0	0	0	0	1	1590	1049	37	1		1	C10orf118	10	115917403	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	11668527	115917403	19617344	502	96124											
TRUB1	142940	broad.mit.edu	37	chr10	116698094	116698094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccttgaaactgcaggaacgGtcgcagcaatggctgcgacc	10	7	12	12	3	0	1	0	1	0	0	2	3	1	2	2	3	5	4	2	3	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:116698094G>A	uc001lcd.2	+	1	143	c.82G>A	c.(82-84)GTC>ATC	p.V28I	TRUB1_uc010qsl.1_Intron	NM_139169	NP_631908	Q8WWH5	TRUB1_HUMAN	TruB pseudouridine (psi) synthase homolog 1	28					pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding				0		Colorectal(252;0.09)|Breast(234;0.174)|Lung NSC(174;0.245)		Epithelial(162;0.00879)|all cancers(201;0.0243)		TGCAGGAACGGTCGCAGCAAT	0.627													8	23					0	0	0.006214	0	0		A	116698094	A	A	116698094	3	1	191	1	0	0	0	0	1	0	0	0	16628	1261	44	4	84	4	TRUB1	10	116698094	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	780691	116698094	18836653	503	96125											
MKI67	4288	broad.mit.edu	37	chr10	129900871	129900871	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggaccgagtcttgtaatTtgtgttcctctttgttggtt	5	18	11	7	1	2	0	0	0	2	0	3	2	3	1	2	2	0	4	2	2	1	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:129900871T>C	uc001lke.2	-	13	9428	c.9233A>G	c.(9232-9234)AAA>AGA	p.K3078R	MKI67_uc001lkf.2_Missense_Mutation_p.K2718R|MKI67_uc009yav.1_Missense_Mutation_p.K2653R|MKI67_uc009yaw.1_Missense_Mutation_p.K2228R	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	3078					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GTCTTGTAATTTGTGTTCCTC	0.398													10	238					0	0	0.008291	0	0		C	129900871	C	C	129900871	3	2	191	1	0	0	0	0	1	0	0	0	9616	1841	64	3	549	3	MKI67	10	129900871	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	13202777	129900871	5633876	504	96126											
MKI67	4288	broad.mit.edu	37	chr10	129904162	129904162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctggttgtggagatttgCaggatacttctgtgattttg	6	17	14	4	0	2	2	0	1	2	1	2	4	2	3	0	4	2	2	0	4	1	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:129904162C>T	uc001lke.2	-	13	6137	c.5942G>A	c.(5941-5943)TGC>TAC	p.C1981Y	MKI67_uc001lkf.2_Missense_Mutation_p.C1621Y|MKI67_uc009yav.1_Missense_Mutation_p.C1556Y|MKI67_uc009yaw.1_Missense_Mutation_p.C1131Y	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	1981	16 X 122 AA approximate repeats.|9.				cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TGGAGATTTGCAGGATACTTC	0.483													100	254					0	0	0.01441	0	0		T	129904162	T	T	129904162	3	4	191	1	0	0	0	0	1	0	0	0	9616	710	25	2	3840	2	MKI67	10	129904162	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3291	129904162	5630585	505	96127											
MKI67	4288	broad.mit.edu	37	chr10	129907312	129907312	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	attcaatattttccttatatGtctcaaaaggtctttctatt	11	20	3	7	0	4	0	2	0	3	0	6	0	5	0	1	1	0	0	1	1	7	9			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:129907312G>A	uc001lke.2	-	13	2987	c.2792C>T	c.(2791-2793)ACA>ATA	p.T931I	MKI67_uc001lkf.2_Missense_Mutation_p.T571I|MKI67_uc009yav.1_Missense_Mutation_p.T506I|MKI67_uc009yaw.1_Missense_Mutation_p.T81I	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	931					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTCCTTATATGTCTCAAAAGG	0.373													34	97					0	0	0.012213	0	0		A	129907312	A	A	129907312	3	1	191	1	0	0	0	0	1	0	0	0	9616	1377	48	4	6990	4	MKI67	10	129907312	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3150	129907312	5627435	506	96128											
CYP2E1	1571	broad.mit.edu	37	chr10	135352460	135352460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaactctgtgtcattcccCgctcatgagtgtgtggagga	9	11	11	10	1	3	1	2	1	1	0	4	3	4	3	2	2	1	1	2	2	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr10:135352460C>T	uc001lnj.1	+	9	1507	c.1474C>T	c.(1474-1476)CGC>TGC	p.R492C	CYP2E1_uc001lnk.1_Missense_Mutation_p.R355C|CYP2E1_uc009ybl.1_Missense_Mutation_p.R293C|CYP2E1_uc009ybm.1_Missense_Mutation_p.R146C|CYP2E1_uc001lnl.1_Intron	NM_000773	NP_000764	P05181	CP2E1_HUMAN	cytochrome P450, family 2, subfamily E,	492					drug metabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|enzyme binding|heme binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen|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|oxygen binding			central_nervous_system(3)	3		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)|Chlorzoxazone(DB00356)|Cinnarizine(DB00568)|Clofibrate(DB00636)|Dacarbazine(DB00851)|Dapsone(DB00250)|Enflurane(DB00228)|Eszopiclone(DB00402)|Ethanol(DB00898)|Ethosuximide(DB00593)|Fomepizole(DB01213)|Glutathione(DB00143)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Isoniazid(DB00951)|Menadione(DB00170)|Mephenytoin(DB00532)|Methoxyflurane(DB01028)|Midazolam(DB00683)|Mitoxantrone(DB01204)|Nicotine(DB00184)|Nifedipine(DB01115)|Nitrofurantoin(DB00698)|Orphenadrine(DB01173)|Phenelzine(DB00780)|Quinidine(DB00908)|S-Adenosylmethionine(DB00118)|Sevoflurane(DB01236)|Theophylline(DB00277)|Tolbutamide(DB01124)	TGTCATTCCCCGCTCATGAGT	0.453									Naso-/Oropharyngeal/Laryngeal_Cancer_Familial_Clustering_of				5	69					0	0	0.001984	0	0		T	135352460	T	T	135352460	3	4	191	1	0	0	0	0	1	0	0	0	4173	652	23	1	1508	1	CYP2E1	10	135352460	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5445148	135352460	182287	507	96129											
IFITM5	387733	broad.mit.edu	37	chr11	299343	299343	+	Missense_Mutation	SNP	A	G	G	1	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	cgccaggaagccgaggcaacAcagattcaggtagagggtgc	12	4	15	10	2	1	2	1	0	0	2	1	4	1	3	2	4	3	2	2	4	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:299343A>G	uc001low.1	-	1	184	c.148T>C	c.(148-150)TGT>CGT	p.C50R		NM_001025295	NP_001020466	A6NNB3	IFM5_HUMAN	interferon induced transmembrane protein 5	50	Helical; (Potential).				multicellular organismal development|regulation of bone mineralization|response to biotic stimulus	integral to membrane|plasma membrane					0		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.73e-28)|Epithelial(43;3.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.14e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0328)|LUSC - Lung squamous cell carcinoma(625;0.122)		CCGAGGCAACACAGATTCAGG	0.657													6	12					0	0	0.001168	0	0		G	299343	G	G	299343	3	3	191	1	0	0	0	0	1	0	0	0	7545	159	6	3	258	3	IFITM5	11	299343	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08		299343	134707173	508	96130											
CTSD	1509	broad.mit.edu	37	chr11	1780837	1780837	+	Silent	SNP	C	T	T	0	0	0	1	1	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	actgtgaagcactgggggggCgtcccgatgccaatctcccc	7	7	13	14	2	1	1	0	1	1	0	3	2	2	1	4	3	2	1	4	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:1780837C>T	uc001luc.1	-	3	394	c.261G>A	c.(259-261)ACG>ACA	p.T87T	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	87					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ACTGGGGGGGCGTCCCGATGC	0.647													22	49					0	0	0.00278	0	0		T	1780837	T	T	1780837	2	4	191	1	0	0	0	0	0	0	0	1	4035	755	27	1		1	CTSD	11	1780837	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1481494	1780837	133225679	509	96131											
OSBPL5	114879	broad.mit.edu	37	chr11	3122896	3122896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgtccttccggttgctgaCgtggaaggcagacacgggcg	6	7	16	12	5	0	2	0	1	0	1	2	3	2	3	3	4	1	3	3	4	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:3122896C>T	uc001lxk.2	-	13	1617	c.1459G>A	c.(1459-1461)GTC>ATC	p.V487I	OSBPL5_uc010qxq.1_Missense_Mutation_p.V398I|OSBPL5_uc009ydw.2_Missense_Mutation_p.V419I|OSBPL5_uc001lxl.2_Missense_Mutation_p.V419I|OSBPL5_uc009ydx.2_Missense_Mutation_p.V511I	NM_020896	NP_065947	Q9H0X9	OSBL5_HUMAN	oxysterol-binding protein-like protein 5 isoform	487					cholesterol metabolic process|cholesterol transport|Golgi to plasma membrane transport	cytosol	oxysterol binding|protein binding			large_intestine(2)|central_nervous_system(1)	3		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)		CGGTTGCTGACGTGGAAGGCA	0.637													11	57					0	0	0.010729	0	0		T	3122896	T	T	3122896	3	4	191	1	0	0	0	0	1	0	0	0	11299	536	19	1	1220	1	OSBPL5	11	3122896	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1342059	3122896	131883620	510	96132											
MRGPRE	116534	broad.mit.edu	37	chr11	3249856	3249856	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgtccaggaggtagatggcGaaggggtttctgtagacatt	10	10	15	6	2	1	2	0	0	1	2	2	4	2	3	1	5	0	3	1	5	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:3249856G>A	uc001lxq.3	-	2	481	c.171C>T	c.(169-171)TTC>TTT	p.F57F		NM_001039165	NP_001034254	Q86SM8	MRGRE_HUMAN	MAS-related GPR, member E	57	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(1)|ovary(1)	2		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)		GGTAGATGGCGAAGGGGTTTC	0.632													43	80					0	0	0.010771	0	0		A	3249856	A	A	3249856	2	1	191	1	0	0	0	0	0	0	0	1	9782	1049	37	1		1	MRGPRE	11	3249856	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	126960	3249856	131756660	511	96133											
ART1	417	broad.mit.edu	37	chr11	3681308	3681308	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcacggcctgcgcttcCggccagcagggccccgggcc	3	5	16	17	4	0	0	0	0	0	0	1	0	1	0	6	4	3	3	6	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:3681308C>T	uc001lye.1	+	3	660	c.559C>T	c.(559-561)CGG>TGG	p.R187W	ART1_uc009yeb.1_Missense_Mutation_p.R187W	NM_004314	NP_004305	P52961	NAR1_HUMAN	ADP-ribosyltransferase 1 precursor	187					protein ADP-ribosylation	anchored to membrane|integral to plasma membrane|sarcoplasmic reticulum membrane	NAD(P)+-protein-arginine ADP-ribosyltransferase activity|NAD+ ADP-ribosyltransferase activity				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0351)|LUSC - Lung squamous cell carcinoma(625;0.195)	Becaplermin(DB00102)	CCTGCGCTTCCGGCCAGCAGG	0.672													10	18					0	0	0.008291	0	0		T	3681308	T	T	3681308	3	4	191	1	0	0	0	0	1	0	0	0	998	643	23	1	565	1	ART1	11	3681308	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	431452	3681308	131325208	512	96134											
NUP98	4928	broad.mit.edu	37	chr11	3697574	3697574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgatgcagactcagcaccaCgcgcagcaggttggctacac	11	6	11	13	2	1	2	1	1	0	1	1	2	1	2	1	2	4	6	1	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:3697574C>T	uc001lyh.2	-	33	5509	c.5218G>A	c.(5218-5220)GTG>ATG	p.V1740M	NUP98_uc001lyi.2_Missense_Mutation_p.V1666M|NUP98_uc001lyg.2_Missense_Mutation_p.V705M	NM_016320	NP_057404	P52948	NUP98_HUMAN	nucleoporin 98kD isoform 1	1757					carbohydrate metabolic process|DNA replication|glucose transport|interspecies interaction between organisms|mitotic prometaphase|mRNA transport|nuclear pore organization|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nucleoplasm|Nup107-160 complex	protein binding|structural constituent of nuclear pore|transporter activity			breast(4)|skin(3)|ovary(2)|central_nervous_system(1)|lung(1)|kidney(1)	12		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0403)|LUSC - Lung squamous cell carcinoma(625;0.116)|Lung(200;0.199)		CTCAGCACCACGCGCAGCAGG	0.572			T	HOXA9|NSD1|WHSC1L1|DDX10|TOP1|HOXD13|PMX1|HOXA13|HOXD11|HOXA11|RAP1GDS1|HOXC11	AML								22	51					0	0	0.010504	0	0		T	3697574	T	T	3697574	3	4	191	1	0	0	0	0	1	0	0	0	10792	536	19	1	188	1	NUP98	11	3697574	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	16266	3697574	131308942	513	96135											
OR51F2	119694	broad.mit.edu	37	chr11	4842865	4842865	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctatgctttcagccacaGacctgagcttgtccctgtgt	6	14	8	13	0	2	2	1	1	1	1	4	2	3	2	3	0	3	2	3	0	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:4842865G>T	uc010qyn.1	+	1	250	c.250G>T	c.(250-252)GAC>TAC	p.D84Y		NM_001004753	NP_001004753	Q8NH61	O51F2_HUMAN	olfactory receptor, family 51, subfamily F,	84	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.0778)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		TTCAGCCACAGACCTGAGCTT	0.473													65	205					1.65906e-26	1.95519e-26	0.01441	1	0		T	4842865	T	T	4842865	3	4	191	1	0	0	0	0	1	0	0	0	11116	942	33	5	252	5	OR51F2	11	4842865	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1145291	4842865	130163651	514	96136											
APBB1	322	broad.mit.edu	37	chr11	6432180	6432180	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgatcaggccaggtcctCgtaggcctcggttggctgcg	5	10	15	11	3	1	2	1	2	0	0	4	2	2	2	3	5	1	3	3	5	1	2	rs139345068		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:6432180C>T	uc001mdb.1	-	2	498	c.398G>A	c.(397-399)CGA>CAA	p.R133Q	APBB1_uc001mdc.1_Missense_Mutation_p.R133Q|APBB1_uc010rah.1_Intron	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	133					apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		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)		GCCAGGTCCTCGTAGGCCTCG	0.433													64	151					0	0	0.01441	0	0		T	6432180	T	T	6432180	3	4	191	1	0	0	0	0	1	0	0	0	759	884	31	1	1786	1	APBB1	11	6432180	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1589315	6432180	128574336	515	96137											
NLRP14	338323	broad.mit.edu	37	chr11	7064936	7064936	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgaagataaaatcaaagtTacttcagtgtatggaagtat	17	12	8	4	0	2	2	2	1	0	1	2	3	2	3	0	1	1	3	0	1	8	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:7064936T>C	uc001mfb.1	+	4	2002	c.1679T>C	c.(1678-1680)TTA>TCA	p.L560S		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	560					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		AAATCAAAGTTACTTCAGTGT	0.373													22	51					0	0	0.012319	0	0		C	7064936	C	C	7064936	3	2	191	1	0	0	0	0	1	0	0	0	10495	1764	61	3	1689	3	NLRP14	11	7064936	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	632756	7064936	127941580	516	96138											
RIC3	79608	broad.mit.edu	37	chr11	8161631	8161631	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccacctgatcctttggcCtttgcaaatgcctcggcaag	7	11	8	15	1	0	1	0	1	0	0	3	1	2	1	6	2	2	2	6	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:8161631C>A	uc001mgd.2	-	2	288	c.234G>T	c.(232-234)AAG>AAT	p.K78N	RIC3_uc001mgb.2_5'Flank|RIC3_uc001mgc.2_Missense_Mutation_p.K78N|RIC3_uc001mge.2_Intron|RIC3_uc010rbl.1_Missense_Mutation_p.K28N|RIC3_uc010rbm.1_Missense_Mutation_p.K78N|RIC3_uc009yfm.2_Missense_Mutation_p.K78N|RIC3_uc009yfn.2_Intron|RIC3_uc001mgf.3_Missense_Mutation_p.K78N	NM_024557	NP_078833	Q7Z5B4	RIC3_HUMAN	resistance to inhibitors of cholinesterase 3	78	Lumenal (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				large_intestine(1)|ovary(1)|pancreas(1)	3				Epithelial(150;2.89e-07)|BRCA - Breast invasive adenocarcinoma(625;0.204)		ATCCTTTGGCCTTTGCAAATG	0.512													22	73					1.96895e-08	2.16229e-08	0.00278	1	0		A	8161631	A	A	8161631	3	1	191	1	0	0	0	0	1	0	0	0	13379	680	24	5	892	5	RIC3	11	8161631	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1096695	8161631	126844885	517	96139											
IGSF22	283284	broad.mit.edu	37	chr11	18741263	18741263	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctgcagggtacttacCtccacctctactttcttctt	5	15	5	16	0	3	0	0	0	3	0	5	0	5	0	4	1	4	3	4	1	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:18741263C>A	uc009yht.2	-	7	886	c.696G>T	c.(694-696)GAG>GAT	p.E232D	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	232	Ig-like 2.									ovary(4)|large_intestine(2)|kidney(1)	7						GGGTACTTACCTCCACCTCTA	0.532													45	129					8.20599e-20	9.53739e-20	0.011902	1	0		A	18741263	A	A	18741263	3	1	191	1	0	0	0	0	1	0	0	0	7616	695	24	5	3352	5	IGSF22	11	18741263	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	10579632	18741263	116265253	518	96140											
QSER1	79832	broad.mit.edu	37	chr11	32955500	32955500	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtacatcccttccttcagaTggaaggtcatgttattcaaa	12	13	7	9	0	3	1	3	0	0	1	5	2	5	2	2	2	1	2	2	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:32955500T>C	uc001mty.2	+	4	2576	c.2309T>C	c.(2308-2310)ATG>ACG	p.M770T	QSER1_uc001mtz.1_Missense_Mutation_p.M531T|QSER1_uc001mua.2_Missense_Mutation_p.M275T	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	770	Gln-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					TTCCTTCAGATGGAAGGTCAT	0.418													14	123					0	0	0.001855	0	0		C	32955500	C	C	32955500	3	2	191	1	0	0	0	0	1	0	0	0	12907	1464	51	3	2315	3	QSER1	11	32955500	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	14214237	32955500	102051016	519	96141											
ACCSL	390110	broad.mit.edu	37	chr11	44073203	44073203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctcatgtgttgtcttcagGtggtggttctaaatggctgc	5	16	12	8	0	4	0	2	0	3	0	5	0	4	0	0	4	1	3	0	4	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:44073203G>A	uc001mxw.1	+	5	762	c.706G>A	c.(706-708)GTG>ATG	p.V236M	ACCSL_uc009ykr.2_Missense_Mutation_p.V55M	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	236							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						TTGTCTTCAGGTGGTGGTTCT	0.532													61	196					0	0	0.01441	0	0		A	44073203	A	A	44073203	3	1	191	1	0	0	0	0	1	0	0	0	134	1275	44	4	724	4	ACCSL	11	44073203	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	11117703	44073203	90933313	520	96142											
ACCS	84680	broad.mit.edu	37	chr11	44098861	44098861	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccaccccttactatggcGctatcacacagcacgtgtgt	8	10	7	16	2	1	0	1	0	0	0	2	0	2	0	4	1	2	2	4	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:44098861G>A	uc009yks.1	+	7	733	c.589G>A	c.(589-591)GCT>ACT	p.A197T	EXT2_uc010rfo.1_Intron|ACCS_uc010rfm.1_Intron|ACCS_uc010rfn.1_3'UTR|ACCS_uc001mxx.2_Missense_Mutation_p.A197T	NM_001127219	NP_001120691	Q96QU6	1A1L1_HUMAN	1-aminocyclopropane-1-carboxylate synthase	197							1-aminocyclopropane-1-carboxylate synthase activity|protein homodimerization activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			breast(2)|ovary(1)|lung(1)	4						TTACTATGGCGCTATCACACA	0.582													59	165					0	0	0.01441	0	0		A	44098861	A	A	44098861	3	1	191	1	0	0	0	0	1	0	0	0	133	1087	38	1	611	1	ACCS	11	44098861	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	25658	44098861	90907655	521	96143											
CHST1	8534	broad.mit.edu	37	chr11	45671407	45671407	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagcgccacttctcggccGtggccgccgagtttcgcacg	5	7	14	15	7	1	0	0	0	1	0	3	2	1	1	4	3	1	2	4	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:45671407G>A	uc001mys.1	-	4	1738	c.1067C>T	c.(1066-1068)ACG>ATG	p.T356M		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	356	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CTTCTCGGCCGTGGCCGCCGA	0.677													19	81					0	0	0.014323	0	0		A	45671407	A	A	45671407	3	1	191	1	0	0	0	0	1	0	0	0	3400	1145	40	1	172	1	CHST1	11	45671407	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1572546	45671407	89335109	522	96144											
AMBRA1	55626	broad.mit.edu	37	chr11	46439470	46439470	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttaagccacttactctggtcGgcagatcaccaggtctcctt	8	12	8	13	1	3	1	1	0	2	1	5	1	3	1	3	3	2	1	3	3	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:46439470G>A	uc010rgu.1	-	15	3469	c.3109C>T	c.(3109-3111)CGA>TGA	p.R1037*	AMBRA1_uc010rgt.1_Nonsense_Mutation_p.R603*|AMBRA1_uc009ylc.1_Nonsense_Mutation_p.R1008*|AMBRA1_uc001ncu.1_Nonsense_Mutation_p.R947*|AMBRA1_uc001ncv.2_Nonsense_Mutation_p.R1040*|AMBRA1_uc001ncw.2_Nonsense_Mutation_p.R918*|AMBRA1_uc001ncx.2_Nonsense_Mutation_p.R977*	NM_017749	NP_060219	Q9C0C7	AMRA1_HUMAN	activating molecule in beclin-1-regulated	1037					autophagy|cell differentiation|nervous system development	autophagic vacuole|cytoplasmic vesicle				large_intestine(1)|ovary(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.0435)|Lung(87;0.182)		TACTCTGGTCGGCAGATCACC	0.542													57	121					0	0	0.01441	0	0		A	46439470	A	A	46439470	4	1	191	1	0	0	0	0	0	1	0	0	565	1124	39	1	803	1	AMBRA1	11	46439470	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	768063	46439470	88567046	523	96145											
ZNF408	79797	broad.mit.edu	37	chr11	46726189	46726189	+	Missense_Mutation	SNP	T	A	A	0	1	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	aagaagttacacagccccagTgatcagtgcccacccagagc	13	5	9	14	0	1	3	1	1	0	2	1	3	1	3	4	0	4	1	4	0	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:46726189T>A	uc001nde.1	+	5	1169	c.939T>A	c.(937-939)AGT>AGA	p.S313R	ZNF408_uc010rgw.1_Missense_Mutation_p.S305R	NM_024741	NP_079017	Q9H9D4	ZN408_HUMAN	zinc finger protein 408	313					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|identical protein binding|zinc ion binding				0						ACAGCCCCAGTGATCAGTGCC	0.632													31	74					0	0	0.013726	0	0		A	46726189	A	A	46726189	3	1	191	1	0	0	0	0	1	0	0	0	17913	1693	59	5	989	5	ZNF408	11	46726189	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	286719	46726189	88280327	524	96146											
OR8J3	81168	broad.mit.edu	37	chr11	55904812	55904812	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaccatgtagagcagagggTtacaaatggccacatagcgg	13	6	12	10	1	0	2	0	0	0	2	0	2	0	2	3	3	3	3	3	3	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:55904812T>A	uc010riz.1	-	1	383	c.383A>T	c.(382-384)AAC>ATC	p.N128I		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					GAGCAGAGGGTTACAAATGGC	0.507													13	117					0	0	0.001855	0	0		A	55904812	A	A	55904812	3	1	191	1	0	0	0	0	1	0	0	0	11261	1725	60	5	566	5	OR8J3	11	55904812	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	9178623	55904812	79101704	525	96147											
OR9I1	219954	broad.mit.edu	37	chr11	57885993	57885993	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tacatgctcagggacacctgGagtctcctagcgacctttct	8	11	9	13	1	3	0	1	0	2	0	4	3	3	2	3	2	3	1	3	2	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:57885993G>T	uc001nml.1	-	1	924	c.924C>A	c.(922-924)CTC>CTA	p.L308L	OR9Q1_uc001nmj.2_Intron	NM_001005211	NP_001005211	Q8NGQ6	OR9I1_HUMAN	olfactory receptor, family 9, subfamily I,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Breast(21;0.0589)				GGGACACCTGGAGTCTCCTAG	0.418													11	199					2.27111e-07	2.47183e-07	0.013537	1	0		T	57885993	T	T	57885993	2	4	191	1	0	0	0	0	0	0	0	1	11272	1161	41	5		5	OR9I1	11	57885993	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1981181	57885993	77120523	526	96148											
PGA5	5222	broad.mit.edu	37	chr11	61017238	61017238	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccggcccaaccagccccattGccaacatccagagcgacatc	11	4	7	19	2	0	1	0	0	0	1	2	2	1	1	7	1	5	0	7	1	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:61017238G>A	uc001nqz.2	+	7	901	c.871G>A	c.(871-873)GCC>ACC	p.A291T		NM_014224	NP_055039	P00790	PEPA_HUMAN	pepsinogen 5, group I precursor	291				A -> T (in Ref. 3; BAF84553).	digestion|proteolysis	extracellular region	aspartic-type endopeptidase activity			skin(1)	1						CAGCCCCATTGCCAACATCCA	0.612													43	287					0	0	0.01441	0	0		A	61017238	A	A	61017238	3	1	191	1	0	0	0	0	1	0	0	0	11791	1319	46	2	897	2	PGA5	11	61017238	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3131245	61017238	73989278	527	96149											
MTA2	9219	broad.mit.edu	37	chr11	62361349	62361349	+	Nonstop_Mutation	SNP	A	T	T	1	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	tcccttccccacaggtgctcAgtcctccaggacaataggct	8	9	8	16	0	1	0	1	0	0	0	5	1	5	1	5	3	1	2	5	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:62361349A>T	uc001ntq.1	-	18	2386	c.2005T>A	c.(2005-2007)TGA>AGA	p.*669R	TUT1_uc001nto.2_5'Flank|MTA2_uc010rlx.1_Nonstop_Mutation_p.*496R	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	669					chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						ACAGGTGCTCAGTCCTCCAGG	0.607											OREG0021027	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	43					0	0	0.00308	0	0		T	62361349	T	T	62361349	4	4	191	1	0	0	0	0	0	0	0	0	9927	201	7	5	5	5	MTA2	11	62361349	Nonstop_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1344111	62361349	72645167	528	96150											
NXF1	10482	broad.mit.edu	37	chr11	62569485	62569485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagtactggcgtcttcaaCgaagaactgggcccgtgtat	9	9	13	10	3	2	1	1	0	1	1	2	2	2	1	1	3	3	3	1	3	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:62569485C>T	uc001nvf.1	-	5	623	c.487G>A	c.(487-489)GTT>ATT	p.V163I	NXF1_uc001nvg.1_Missense_Mutation_p.V163I|NXF1_uc009yog.1_Missense_Mutation_p.V206I|NXF1_uc010rmh.1_Missense_Mutation_p.V26I	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	163	Interaction with THOC4.|RRM.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						GCGTCTTCAACGAAGAACTGG	0.517													39	128					0	0	0.00874	0	0		T	62569485	T	T	62569485	3	4	191	1	0	0	0	0	1	0	0	0	10801	536	19	1	1495	1	NXF1	11	62569485	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	208136	62569485	72437031	529	96151											
SF1	7536	broad.mit.edu	37	chr11	64534407	64534407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggggtactggaagccataCtgctgctgggcggagggggt	7	7	20	7	1	0	0	0	0	0	0	0	2	0	2	1	7	5	3	1	7	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:64534407C>T	uc001obb.1	-	12	1924	c.1547G>A	c.(1546-1548)AGT>AAT	p.S516N	SF1_uc010rnm.1_Missense_Mutation_p.S208N|SF1_uc010rnn.1_Missense_Mutation_p.S490N|SF1_uc001oaz.1_Missense_Mutation_p.S641N|SF1_uc001oba.1_Missense_Mutation_p.S516N|SF1_uc001obc.1_Missense_Mutation_p.S516N|SF1_uc001obd.1_Silent_p.Q517Q|SF1_uc001obe.1_Silent_p.Q402Q|SF1_uc010rno.1_Missense_Mutation_p.S401N	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	516	Pro-rich.				nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						GGAAGCCATACTGCTGCTGGG	0.642													45	113					0	0	0.01441	0	0		T	64534407	T	T	64534407	3	4	191	1	0	0	0	0	1	0	0	0	14170	565	20	4	514	4	SF1	11	64534407	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1964922	64534407	70472109	530	96152											
CDC42BPG	55561	broad.mit.edu	37	chr11	64595039	64595039	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taggtcaggcggaccttctcGgtgccgtagaggaacaggga	9	7	16	9	3	2	1	1	0	1	1	3	4	2	4	2	6	2	1	2	6	3	3	rs71539697		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:64595039G>A	uc001obs.3	-	32	4110	c.4110C>T	c.(4108-4110)ACC>ACT	p.T1370T		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1370					actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						GGACCTTCTCGGTGCCGTAGA	0.677													6	18					0	0	0.001984	0	0		A	64595039	A	A	64595039	2	1	191	1	0	0	0	0	0	0	0	1	3077	1103	39	1		1	CDC42BPG	11	64595039	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	60632	64595039	70411477	531	96153											
CDC42BPG	55561	broad.mit.edu	37	chr11	64597712	64597712	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccctcctcggtgccaagCgcaagtcgatcctggtctgg	6	8	12	15	3	1	0	0	0	1	0	5	1	3	0	5	3	3	1	5	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:64597712C>T	uc001obs.3	-	29	3321	c.3321G>A	c.(3319-3321)GCG>GCA	p.A1107A		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1107	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						CGGTGCCAAGCGCAAGTCGAT	0.363													5	12					0	0	0.001984	0	0		T	64597712	T	T	64597712	2	4	191	1	0	0	0	0	0	0	0	1	3077	755	27	1		1	CDC42BPG	11	64597712	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2673	64597712	70408804	532	96154											
C11orf2	738	broad.mit.edu	37	chr11	64878804	64878804	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtccctgcctgcaggtgtcGgtgctgaccggcatcatcaa	6	10	12	13	2	2	1	2	1	0	0	4	1	3	1	3	3	3	3	3	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:64878804G>A	uc001ocr.1	+	10	2134	c.2094G>A	c.(2092-2094)TCG>TCA	p.S698S	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|TM7SF2_uc001ocv.2_5'Flank|C11orf2_uc001ocs.1_Silent_p.S574S	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	698					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						TGCAGGTGTCGGTGCTGACCG	0.627													21	28					0	0	0.00278	0	0		A	64878804	A	A	64878804	2	1	191	1	0	0	0	0	0	0	0	1	1636	1103	39	1		1	C11orf2	11	64878804	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	281092	64878804	70127712	533	96155											
POLA2	23649	broad.mit.edu	37	chr11	65046287	65046287	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agcacagggagtatcttggtCtgggagaggaggagctggaa	11	7	18	5	0	2	1	0	0	2	1	2	6	2	5	0	6	2	3	0	6	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:65046287C>T	uc001odj.2	+	6	890	c.548C>T	c.(547-549)TCT>TTT	p.S183F	POLA2_uc009yqf.1_Missense_Mutation_p.S183F|POLA2_uc010rod.1_5'UTR|POLA2_uc001odk.2_5'Flank	NM_002689	NP_002680	Q14181	DPOA2_HUMAN	DNA-directed DNA polymerase alpha 2	183					DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	nucleoplasm	DNA binding				0					Dacarbazine(DB00851)	GTATCTTGGTCTGGGAGAGGA	0.498													51	130					0	0	0.01441	0	0		T	65046287	T	T	65046287	3	4	191	1	0	0	0	0	1	0	0	0	12207	913	32	4	570	4	POLA2	11	65046287	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	167483	65046287	69960229	534	96156											
CATSPER1	117144	broad.mit.edu	37	chr11	65792903	65792903	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgctctggacgtagtcGccatggaggtaactggaatg	10	9	15	7	2	1	0	0	0	1	0	2	4	1	3	1	4	2	3	1	4	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:65792903G>A	uc001ogt.2	-	1	1086	c.948C>T	c.(946-948)GGC>GGT	p.G316G		NM_053054	NP_444282	Q8NEC5	CTSR1_HUMAN	sperm-associated cation channel 1	316	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	protein binding			ovary(2)	2						GGACGTAGTCGCCATGGAGGT	0.378													8	45					0	0	0.008291	0	0		A	65792903	A	A	65792903	2	1	191	1	0	0	0	0	0	0	0	1	2690	1074	38	1		1	CATSPER1	11	65792903	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	746616	65792903	69213613	535	96157											
CCS	9973	broad.mit.edu	37	chr11	66367082	66367082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactccacgtccatcagtacGgggaccttacaaacaactgc	12	7	8	14	2	1	0	1	0	0	0	3	2	3	1	3	2	5	1	3	2	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:66367082G>A	uc001oir.2	+	4	446	c.403G>A	c.(403-405)GGG>AGG	p.G135R	CCS_uc001ois.2_5'Flank	NM_005125	NP_005116	O14618	CCS_HUMAN	copper chaperone for superoxide dismutase	135	Superoxide dismutase-like.				intracellular copper ion transport|oxidation-reduction process|removal of superoxide radicals	cytosol|mitochondrial inner membrane|nucleus|soluble fraction	copper ion transmembrane transporter activity|protein binding|superoxide dismutase copper chaperone activity|zinc ion binding				0						CCATCAGTACGGGGACCTTAC	0.468													15	27					0	0	0.004007	0	0		A	66367082	A	A	66367082	3	1	191	1	0	0	0	0	1	0	0	0	2955	1116	39	1	417	1	CCS	11	66367082	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	574179	66367082	68639434	536	96158											
RBM4	5936	broad.mit.edu	37	chr11	66411375	66411375	+	Silent	SNP	A	T	T	1	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	gctgccacagctgctgctgcAgcagcagccgctgctgctgt	5	8	13	15	1	0	0	0	0	0	0	0	0	0	0	2	0	10	10	2	0	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:66411375A>T	uc009yrj.2	+	3	1355	c.867A>T	c.(865-867)GCA>GCT	p.A289A	RBM4_uc009yrk.2_Silent_p.A264A|RBM4_uc001oiw.1_Silent_p.A289A|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Silent_p.A289A|RBM4_uc001oiz.1_Silent_p.A289A	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	289	Interaction with TNPO3.|Poly-Ala.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		ctgctgctgcagcagcagccg	0.438													17	43					0	0	0.004007	0	0		T	66411375	T	T	66411375	2	4	191	1	0	0	0	0	0	0	0	1	13159	175	7	5		5	RBM4	11	66411375	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	44293	66411375	68595141	537	96159											
LRFN4	78999	broad.mit.edu	37	chr11	66627389	66627389	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctggttcggggccggggggCcggaaatggccgcctccccc	3	5	18	15	4	0	0	0	0	0	0	2	1	1	1	6	8	0	2	6	8	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:66627389C>G	uc001ojr.2	+	2	1971	c.1631C>G	c.(1630-1632)GCC>GGC	p.A544G	PC_uc001ojo.1_Intron|PC_uc001ojp.1_Intron|PC_uc001ojn.1_Intron|LRFN4_uc001ojs.2_Intron	NM_024036	NP_076941	Q6PJG9	LRFN4_HUMAN	leucine rich repeat and fibronectin type III	544	Cytoplasmic (Potential).					integral to membrane					0						GGCCGGGGGGCCGGAAATGGC	0.637													12	35					0	0	0.013537	0	0		G	66627389	G	G	66627389	3	3	191	1	0	0	0	0	1	0	0	0	8958	739	26	5	1637	5	LRFN4	11	66627389	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	216014	66627389	68379127	538	96160											
TBX10	347853	broad.mit.edu	37	chr11	67402372	67402373	+	Frame_Shift_Ins	INS	-	G	G																															cccaggatcttcacctggaaINSgggggggaacatcctcctgc																								rs144542807		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:67402372_67402373insG	uc001omp.2	-	3	379_380	c.291_292insC	c.(289-294)CCCTTCfs	p.P97fs		NM_005995	NP_005986	O75333	TBX10_HUMAN	T-box 10	97_98	T-box.				anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TTCACCTGGAAGGGGGGGAACA	0.678													20	43	---	---	---	---						.	G	67402373	G	G	67402372	7	5	191	1	0	1	1	0	0	0	0	0	15676	72	3	0	889	0	TBX10	11	67402372	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	774983	67402372	67604144	539	96161											
SHANK2	22941	broad.mit.edu	37	chr11	70338504	70338504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttgatggtcgccaccctcGgttccacagccatgttctca	6	11	9	15	2	1	1	1	1	1	0	5	1	2	1	4	2	1	3	4	2	0	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:70338504G>A	uc001oqc.2	-	18	2453	c.2375C>T	c.(2374-2376)CCG>CTG	p.P792L	SHANK2_uc010rqn.1_Missense_Mutation_p.P204L|SHANK2_uc001opz.2_Missense_Mutation_p.P197L|uc009ysn.1_Intron|SHANK2_uc010rqp.1_Missense_Mutation_p.P194L|SHANK2_uc001opy.2_5'UTR|SHANK2_uc010rqo.1_Missense_Mutation_p.P5L	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	413					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			CGCCACCCTCGGTTCCACAGC	0.637													18	50					0	0	0.010504	0	0		A	70338504	A	A	70338504	3	1	191	1	0	0	0	0	1	0	0	0	14290	1116	39	1	3194	1	SHANK2	11	70338504	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2936132	70338504	64668012	540	96162											
NADSYN1	55191	broad.mit.edu	37	chr11	71208564	71208564	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acatatgcggagctctcggtCtatgggaaactcaggaaggt	11	9	13	8	2	3	0	1	0	2	0	4	3	3	3	0	5	3	1	0	5	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:71208564C>G	uc001oqn.2	+	19	1926	c.1800C>G	c.(1798-1800)GTC>GTG	p.V600V	NADSYN1_uc001oqo.2_Silent_p.V340V|NADSYN1_uc001oqp.2_Silent_p.V229V	NM_018161	NP_060631	Q6IA69	NADE_HUMAN	NAD synthetase 1	600	Ligase (By similarity).				NAD biosynthetic process|water-soluble vitamin metabolic process	cytosol	ATP binding|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds|NAD+ synthase (glutamine-hydrolyzing) activity|protein binding			ovary(2)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGCTCTCGGTCTATGGGAAAC	0.527													4	71					0	0	0.009096	0	0		G	71208564	G	G	71208564	2	3	191	1	0	0	0	0	0	0	0	1	10156	900	32	5		5	NADSYN1	11	71208564	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	870060	71208564	63797952	541	96163											
B3GNT6	192134	broad.mit.edu	37	chr11	76750655	76750655	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggcctgcctcctggtgggCgtgagtttcttagcactgca	4	12	13	12	1	1	1	0	1	1	0	2	1	2	1	3	3	3	3	3	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:76750655C>T	uc001oxw.2	+	2	148	c.60C>T	c.(58-60)GGC>GGT	p.G20G		NM_138706	NP_619651	Q6ZMB0	B3GN6_HUMAN	UDP-GlcNAc:betaGal	20	Helical; Signal-anchor for type II membrane protein; (Potential).				O-glycan processing, core 3	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity|galactosyltransferase activity				0						TCCTGGTGGGCGTGAGTTTCT	0.652											OREG0021252	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	98					0	0	0.010771	0	0		T	76750655	T	T	76750655	2	4	191	1	0	0	0	0	0	0	0	1	1262	755	27	1		1	B3GNT6	11	76750655	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5542091	76750655	58255861	542	96164											
RSF1	51773	broad.mit.edu	37	chr11	77388037	77388037	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtggagatatcttttcctcgGccaactcctgaatttggggg	7	13	12	9	1	1	2	0	1	1	1	4	3	3	2	3	4	1	0	3	4	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:77388037G>A	uc001oyn.2	-	13	3261	c.3141C>T	c.(3139-3141)GGC>GGT	p.G1047G	RSF1_uc001oym.2_Silent_p.G795G	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1047					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	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)			CTTTTCCTCGGCCAACTCCTG	0.413													26	73					0	0	0.004656	0	0		A	77388037	A	A	77388037	2	1	191	1	0	0	0	0	0	0	0	1	13724	1190	42	2		2	RSF1	11	77388037	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	637382	77388037	57618479	543	96165											
PRCP	5547	broad.mit.edu	37	chr11	82549488	82549488	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatacatagtagtgatccaGgagggccttggtctcacacc	10	9	10	12	0	1	1	1	1	1	0	3	2	2	2	4	3	1	1	4	3	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:82549488G>T	uc001ozs.2	-	8	1328	c.1215C>A	c.(1213-1215)TCC>TCA	p.S405S	PRCP_uc001ozr.2_Silent_p.S426S	NM_005040	NP_005031	P42785	PCP_HUMAN	prolylcarboxypeptidase isoform 1 preproprotein	405					blood coagulation, intrinsic pathway|proteolysis	lysosome|plasma membrane	protein binding|serine-type carboxypeptidase activity			skin(1)	1						TAGTGATCCAGGAGGGCCTTG	0.413													11	60					3.86212e-05	4.08974e-05	0.008291	1	0		T	82549488	T	T	82549488	2	4	191	1	0	0	0	0	0	0	0	1	12471	987	35	5		5	PRCP	11	82549488	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5161451	82549488	52457028	544	96166											
C11orf82	220042	broad.mit.edu	37	chr11	82643360	82643360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagctgagtgcagttcacaGcagtcatcatgaaattggag	12	9	13	7	0	3	2	3	2	0	0	3	4	3	4	0	2	3	4	0	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:82643360G>A	uc001ozt.2	+	6	1224	c.980G>A	c.(979-981)AGC>AAC	p.S327N	C11orf82_uc010rsr.1_Missense_Mutation_p.S26N|C11orf82_uc010rss.1_Missense_Mutation_p.S26N|C11orf82_uc009yvd.2_Intron	NM_145018	NP_659455	Q8IXT1	NOXIN_HUMAN	nitric oxide-inducible gene protein	327					apoptosis|cell cycle arrest	cytoplasm|nucleus				ovary(2)	2						GCAGTTCACAGCAGTCATCAT	0.398													35	63					0	0	0.013726	0	0		A	82643360	A	A	82643360	3	1	191	1	0	0	0	0	1	0	0	0	1668	971	34	2	994	2	C11orf82	11	82643360	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	93872	82643360	52363156	545	96167											
CHORDC1	26973	broad.mit.edu	37	chr11	89939416	89939416	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatatacacagacttcttCtagactctctagaccctggt	11	13	6	11	0	3	4	0	1	3	3	4	4	3	4	1	1	1	0	1	1	4	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:89939416C>A	uc001pdg.2	-	7	927	c.517G>T	c.(517-519)GAA>TAA	p.E173*	CHORDC1_uc009yvz.2_Nonsense_Mutation_p.E154*	NM_012124	NP_036256	Q9UHD1	CHRD1_HUMAN	cysteine and histidine-rich domain-containing	173	Interaction with HSP90AA1 and HSP90AB1 (By similarity).|CHORD 2.				chaperone-mediated protein folding|regulation of response to stress|response to stress		Hsp90 protein binding|identical protein binding				0		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.00915)				CAGACTTCTTCTAGACTCTCT	0.323													27	57					5.60225e-13	6.35617e-13	0.009535	1	0		A	89939416	A	A	89939416	4	1	191	1	0	0	0	0	0	1	0	0	3368	922	32	5	501	5	CHORDC1	11	89939416	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7296056	89939416	45067100	546	96168											
CEP57	9702	broad.mit.edu	37	chr11	95552045	95552045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagaacaggaaaggaaaCgcatgcaagctaaggcagct	19	3	12	7	1	0	2	0	0	0	2	0	4	0	4	0	3	5	5	0	3	7	1	rs144903440		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:95552045C>T	uc001pfp.1	+	6	897	c.676C>T	c.(676-678)CGC>TGC	p.R226C	CEP57_uc001pfo.1_Missense_Mutation_p.R226C|CEP57_uc010ruh.1_Missense_Mutation_p.R217C|CEP57_uc010rui.1_Missense_Mutation_p.R226C|CEP57_uc009ywn.1_Missense_Mutation_p.R74C|CEP57_uc001pfq.1_Missense_Mutation_p.R226C|CEP57_uc001pfr.1_Missense_Mutation_p.R74C	NM_014679	NP_055494	Q86XR8	CEP57_HUMAN	translokin	226	Potential.|centrosome localization domain (CLD) (By similarity).				fibroblast growth factor receptor signaling pathway|G2/M transition of mitotic cell cycle|protein import into nucleus, translocation|spermatid development	centrosome|cytosol|Golgi apparatus|microtubule|nucleus	fibroblast growth factor binding|protein homodimerization activity			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GGAAAGGAAACGCATGCAAGC	0.353									Mosaic_Variegated_Aneuploidy_Syndrome				5	48					0	0	0.001168	0	0		T	95552045	T	T	95552045	3	4	191	1	0	0	0	0	1	0	0	0	3259	536	19	1	698	1	CEP57	11	95552045	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5612629	95552045	39454471	547	96169											
NPAT	4863	broad.mit.edu	37	chr11	108031933	108031933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actactgtcttcactgaaacGcctactagagggggccttga	10	10	10	11	1	2	3	1	2	1	1	2	3	2	3	2	2	3	0	2	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:108031933G>A	uc001pjz.3	-	17	3982	c.3880C>T	c.(3880-3882)CGT>TGT	p.R1294C	NPAT_uc010rvv.1_Missense_Mutation_p.R350C	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	1294					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TCACTGAAACGCCTACTAGAG	0.493													10	119					0	0	0.006214	0	0		A	108031933	A	A	108031933	3	1	191	1	0	0	0	0	1	0	0	0	10585	1087	38	1	411	1	NPAT	11	108031933	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	12479888	108031933	26974583	548	96170											
ATM	472	broad.mit.edu	37	chr11	108170454	108170454	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgtagaggctgttggaagCtgcttgggagaagtgggtcc	8	11	17	5	0	0	2	0	0	0	2	1	4	1	3	1	4	2	5	1	4	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:108170454C>T	uc001pkb.1	+	34	5404	c.5019C>T	c.(5017-5019)AGC>AGT	p.S1673S	ATM_uc009yxr.1_Silent_p.S1673S|ATM_uc001pke.1_Silent_p.S325S|ATM_uc001pkg.1_Silent_p.S30S	NM_000051	NP_000042	Q13315	ATM_HUMAN	ataxia telangiectasia mutated isoform 1	1673					cell cycle arrest|cellular response to gamma radiation|DNA damage induced protein phosphorylation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|double-strand break repair via homologous recombination|G2/M transition DNA damage checkpoint|histone mRNA catabolic process|mitotic cell cycle spindle assembly checkpoint|negative regulation of B cell proliferation|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|pre-B cell allelic exclusion|protein autophosphorylation|reciprocal meiotic recombination|replicative senescence	cytoplasmic membrane-bounded vesicle|nucleoplasm	1-phosphatidylinositol-3-kinase activity|ATP binding|DNA binding|DNA-dependent protein kinase activity|identical protein binding|protein complex binding|protein dimerization activity|protein N-terminus binding			haematopoietic_and_lymphoid_tissue(174)|lung(25)|breast(15)|large_intestine(9)|ovary(5)|kidney(5)|central_nervous_system(4)|upper_aerodigestive_tract(1)|stomach(1)|NS(1)	240		all_cancers(61;9.64e-12)|all_epithelial(67;9.97e-08)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;9.05e-06)|BRCA - Breast invasive adenocarcinoma(274;1.06e-05)|all cancers(92;0.000208)|Colorectal(284;0.116)|OV - Ovarian serous cystadenocarcinoma(223;0.147)		CTGTTGGAAGCTGCTTGGGAG	0.333			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)			41	131					0	0	0.01441	0	0		T	108170454	T	T	108170454	2	4	191	1	0	0	0	0	0	0	0	1	1110	796	28	2		2	ATM	11	108170454	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	138521	108170454	26836062	549	96171											
DRD2	1813	broad.mit.edu	37	chr11	113281585	113281585	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	caggcgggatgttgcagtcaCagtgtatgttcaggatgtgt	8	12	15	6	1	2	0	2	0	0	0	2	2	2	2	0	3	1	4	0	3	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:113281585C>G	uc001pnz.2	-	7	1517	c.1196G>C	c.(1195-1197)TGT>TCT	p.C399S	DRD2_uc010rwv.1_Missense_Mutation_p.C398S|DRD2_uc001poa.3_Missense_Mutation_p.C399S|DRD2_uc001pob.3_Missense_Mutation_p.C370S	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	399	Extracellular (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		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)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	GTTGCAGTCACAGTGTATGTT	0.577													37	64					0	0	0.003755	0	0		G	113281585	G	G	113281585	3	3	191	1	0	0	0	0	1	0	0	0	4763	478	17	5	139	5	DRD2	11	113281585	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5111131	113281585	21724931	550	96172											
FAM55A	120400	broad.mit.edu	37	chr11	114401164	114401164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccctccagagagccgacGccccttcactggggtggatg	6	8	13	14	2	1	1	1	0	0	1	2	4	2	2	5	3	2	0	5	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:114401164G>A	uc001ppa.2	-	3	557	c.140C>T	c.(139-141)GCG>GTG	p.A47V	FAM55A_uc010rxd.1_5'UTR|FAM55A_uc001ppb.1_Missense_Mutation_p.A189V	NM_152315	NP_689528	Q8N323	FA55A_HUMAN	hypothetical protein LOC120400	189						extracellular region					0		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;3.02e-06)|Epithelial(105;0.000144)|all cancers(92;0.00106)		GAGAGCCGACGCCCCTTCACT	0.512													33	55					0	0	0.012213	0	0		A	114401164	A	A	114401164	3	1	191	1	0	0	0	0	1	0	0	0	5598	1087	38	1	1093	1	FAM55A	11	114401164	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1119579	114401164	20605352	551	96173											
UBE4A	9354	broad.mit.edu	37	chr11	118253491	118253491	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggacatcgaatttacaGgtaaagcagtcatgaagctg	13	11	11	6	1	1	1	1	1	0	0	2	3	1	2	0	2	3	3	0	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:118253491G>C	uc001psw.2	+	13	2326	c.2197G>C	c.(2197-2199)GGA>CGA	p.G733R	UBE4A_uc001psv.2_Missense_Mutation_p.G740R	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	733					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		CGAATTTACAGGTAAAGCAGT	0.423													41	83					0	0	0.00874	0	0		C	118253491	C	C	118253491	3	2	191	1	0	0	0	0	1	0	0	0	16908	1014	35	5	2264	5	UBE4A	11	118253491	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3852327	118253491	16753025	552	96174											
MLL	4297	broad.mit.edu	37	chr11	118374689	118374689	+	Silent	SNP	A	G	G	1	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	actagaacagtgatttcttcAggtggagaggaacgactggc	12	9	13	7	1	2	3	1	1	1	2	2	6	2	4	0	4	2	0	0	4	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:118374689A>G	uc001pta.2	+	27	8096	c.8073A>G	c.(8071-8073)TCA>TCG	p.S2691S	MLL_uc001ptb.2_Silent_p.S2694S	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2691					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TGATTTCTTCAGGTGGAGAGG	0.448			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								14	36					0	0	0.004007	0	0		G	118374689	G	G	118374689	2	3	191	1	0	0	0	0	0	0	0	1	9638	175	7	3		3	MLL	11	118374689	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	121198	118374689	16631827	553	96175											
BCL9L	283149	broad.mit.edu	37	chr11	118773197	118773197	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccgctgcggagcagcagtcGctcaatgtctcgcagcgtct	6	9	12	14	5	3	0	1	0	2	0	6	1	4	1	1	1	4	5	1	1	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:118773197G>A	uc001pug.2	-	6	2220	c.1255C>T	c.(1255-1257)CGA>TGA	p.R419*	BCL9L_uc009zal.2_Nonsense_Mutation_p.R414*	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	419	Pro-rich.|Necessary for interaction with CTNNB1 (By similarity).				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		AGCAGCAGTCGCTCAATGTCT	0.682													17	28					0	0	0.00499	0	0		A	118773197	A	A	118773197	4	1	191	1	0	0	0	0	0	1	0	0	1383	1095	38	1	3256	1	BCL9L	11	118773197	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	398508	118773197	16233319	554	96176											
CCDC153	283152	broad.mit.edu	37	chr11	119063872	119063872	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaacctacctagctgccccCgaaggcctttgacttcttcc	8	10	7	16	1	1	1	0	1	1	0	2	3	2	1	6	1	4	1	6	1	4	5	rs148526857	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:119063872C>T	uc010rze.1	-	5	426	c.338G>A	c.(337-339)CGG>CAG	p.R113Q		NM_001145018	NP_001138490	Q494R4	CC153_HUMAN	coiled-coil domain containing 153	113	Potential.										0						TAGCTGCCCCCGAAGGCCTTT	0.597													28	68					0	0	0.010818	0	0		T	119063872	T	T	119063872	3	4	191	1	0	0	0	0	1	0	0	0	2790	652	23	1	306	1	CCDC153	11	119063872	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	290675	119063872	15942644	555	96177											
TBCEL	219899	broad.mit.edu	37	chr11	120924331	120924331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaaccctctgaatttgtcGgttttagaaagaacatgtgc	11	13	8	9	1	1	3	0	1	1	2	3	3	2	3	2	1	3	1	2	1	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:120924331G>A	uc009zay.2	+	4	423	c.345G>A	c.(343-345)TCG>TCA	p.S115S	TBCEL_uc001pxo.2_Silent_p.S115S|TBCEL_uc001pxp.2_Intron|TBCEL_uc001pxq.2_Intron	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	115	LRR 2.					cytoplasm|cytoskeleton				skin(1)	1		Breast(109;0.00526)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;5.89e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.121)		TGAATTTGTCGGTTTTAGAAA	0.423													20	105					0	0	0.00333	0	0		A	120924331	A	A	120924331	2	1	191	1	0	0	0	0	0	0	0	1	15660	1103	39	1		1	TBCEL	11	120924331	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1860459	120924331	14082185	556	96178											
TECTA	7007	broad.mit.edu	37	chr11	120976630	120976630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcatctgagattaagttggCcatcccagttttcttctttg	7	17	7	10	0	4	1	1	1	3	1	5	2	5	1	2	1	0	2	2	1	1	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:120976630C>T	uc010rzo.1	+	2	155	c.155C>T	c.(154-156)GCC>GTC	p.A52V		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	52					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ATTAAGTTGGCCATCCCAGTT	0.468													59	173					0	0	0.01441	0	0		T	120976630	T	T	120976630	3	4	191	1	0	0	0	0	1	0	0	0	15772	739	26	2	161	2	TECTA	11	120976630	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	52299	120976630	14029886	557	96179											
OR8B2	26595	broad.mit.edu	37	chr11	124253126	124253126	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagccaaggttgcctaccatGgtgacaatgtagatcactag	13	9	10	9	0	1	2	1	1	0	1	1	2	1	2	3	2	3	2	3	2	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:124253126G>A	uc010sai.1	-	1	114	c.114C>T	c.(112-114)ACC>ACT	p.T38T	OR8B2_uc001qab.3_RNA	NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		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)		TGCCTACCATGGTGACAATGT	0.418													36	86					0	0	0.003755	0	0		A	124253126	A	A	124253126	2	1	191	1	0	0	0	0	0	0	0	1	11246	1335	47	4		4	OR8B2	11	124253126	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3276496	124253126	10753390	558	96180											
CCDC15	80071	broad.mit.edu	37	chr11	124845056	124845056	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaccgtgattaaaaaaaAgggatcagtgtttccagatg	17	10	9	5	1	1	2	1	1	0	1	2	3	2	3	2	1	1	1	2	1	6	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:124845056A>G	uc001qbm.3	+	5	840	c.581A>G	c.(580-582)AAG>AGG	p.K194R		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	194						centrosome				ovary(1)|central_nervous_system(1)	2	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)		ATTAAAAAAAAGGGATCAGTG	0.358													6	21					0	0	0.001168	0	0		G	124845056	G	G	124845056	3	3	191	1	0	0	0	0	1	0	0	0	2787	72	3	3	595	3	CCDC15	11	124845056	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	591930	124845056	10161460	559	96181											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840436	128840436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggagtggtgtccagatgCgtttcttcctggggccacat	5	13	13	10	1	1	1	0	0	1	1	3	2	3	2	3	4	1	1	3	4	0	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:128840436C>T	uc009zcp.2	-	22	4630	c.4630G>A	c.(4630-4632)GCA>ACA	p.A1544T	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.A503T|ARHGAP32_uc001qez.2_Missense_Mutation_p.A1195T	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1544	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TGTCCAGATGCGTTTCTTCCT	0.517													13	42					0	0	0.00245	0	0		T	128840436	T	T	128840436	3	4	191	1	0	0	0	0	1	0	0	0	881	768	27	1	1637	1	ARHGAP32	11	128840436	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3995380	128840436	6166080	560	96182											
ARHGAP32	9743	broad.mit.edu	37	chr11	128856447	128856447	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcatacagctggtaggtaAgcagagggtttgggagttcc	9	11	14	7	0	1	1	1	0	1	1	3	2	2	2	1	4	3	6	1	4	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:128856447A>T	uc009zcp.2	-	13	1373	c.1373T>A	c.(1372-1374)CTT>CAT	p.L458H	ARHGAP32_uc009zcq.1_Missense_Mutation_p.L418H|ARHGAP32_uc009zco.2_5'UTR|ARHGAP32_uc001qez.2_Missense_Mutation_p.L109H|ARHGAP32_uc001qfb.2_Missense_Mutation_p.L243H	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	458	Rho-GAP.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						CTGGTAGGTAAGCAGAGGGTT	0.448													20	49					0	0	0.007413	0	0		T	128856447	T	T	128856447	3	4	191	1	0	0	0	0	1	0	0	0	881	72	3	5	4930	5	ARHGAP32	11	128856447	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	16011	128856447	6150069	561	96183											
PRDM10	56980	broad.mit.edu	37	chr11	129800918	129800918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttccccacttactcggatgCgcttggctctgcgcatgtcg	4	13	10	14	4	1	0	0	0	1	0	4	1	2	1	2	2	3	3	2	2	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:129800918C>T	uc001qfm.2	-	11	1755	c.1523G>A	c.(1522-1524)CGC>CAC	p.R508H	PRDM10_uc001qfj.2_Missense_Mutation_p.R422H|PRDM10_uc001qfk.2_Missense_Mutation_p.R422H|PRDM10_uc001qfl.2_Missense_Mutation_p.R422H|PRDM10_uc010sbx.1_Missense_Mutation_p.R422H|PRDM10_uc001qfn.2_Missense_Mutation_p.R508H|PRDM10_uc009zct.1_Missense_Mutation_p.R540H	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	508					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		TACTCGGATGCGCTTGGCTCT	0.607													37	60					0	0	0.005524	0	0		T	129800918	T	T	129800918	3	4	191	1	0	0	0	0	1	0	0	0	12473	768	27	1	2007	1	PRDM10	11	129800918	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	944471	129800918	5205598	562	96184											
B3GAT1	27087	broad.mit.edu	37	chr11	134257522	134257522	+	Missense_Mutation	SNP	A	G	G	1	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	tccagggcagcacgatgaggAcgatcgctaggatgtcccgt	9	7	14	11	4	0	1	0	1	0	0	3	5	2	3	2	3	1	3	2	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr11:134257522A>G	uc001qhq.2	-	3	293	c.32T>C	c.(31-33)GTC>GCC	p.V11A	B3GAT1_uc001qhr.2_Missense_Mutation_p.V11A|B3GAT1_uc010scv.1_Missense_Mutation_p.V24A	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	beta-1,3-glucuronyltransferase 1	11	Helical; Signal-anchor for type II membrane protein; (Potential).				carbohydrate metabolic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding	p.V11I(1)		ovary(1)	1	all_hematologic(175;0.127)	all_cancers(12;1.39e-23)|all_epithelial(12;7.17e-17)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|Medulloblastoma(222;0.0125)|all_neural(223;0.0137)|Esophageal squamous(93;0.0559)		Epithelial(10;2.58e-11)|all cancers(11;5.75e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|OV - Ovarian serous cystadenocarcinoma(99;0.000879)|Lung(977;0.0864)		CACGATGAGGACGATCGCTAG	0.627													11	43					0	0	0.001855	0	0		G	134257522	G	G	134257522	3	3	191	1	0	0	0	0	1	0	0	0	1254	275	10	3	988	3	B3GAT1	11	134257522	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	4456604	134257522	748994	563	96185											
CACNA2D4	93589	broad.mit.edu	37	chr12	2024025	2024025	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggggtgactgaccttctGcagcaagagagagcctgagt	11	7	15	8	0	1	5	0	3	1	2	1	6	1	5	2	2	3	2	2	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:2024025G>A	uc001qjp.2	-	2	535	c.304C>T	c.(304-306)CAG>TAG	p.Q102*	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Nonsense_Mutation_p.Q102*	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	102	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			ovary(1)	1	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)	Kidney(2;0.0205)|KIRC - Kidney renal clear cell carcinoma(2;0.0451)		CTGACCTTCTGCAGCAAGAGA	0.478													14	69					0	0	0.004007	0	0		A	2024025	A	A	2024025	4	1	191	1	0	0	0	0	0	1	0	0	2554	1328	46	2	3257	2	CACNA2D4	12	2024025	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08		2024025	131827870	564	96186											
NRIP2	83714	broad.mit.edu	37	chr12	2943970	2943970	+	Silent	SNP	A	G	G	1	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	ctcgtcctggcttctccctcAtctctcctggcctcctgctt	1	15	6	19	1	3	0	1	0	2	0	9	0	6	0	5	2	1	2	5	2	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:2943970A>G	uc001qlc.2	-	1	252	c.180T>C	c.(178-180)GAT>GAC	p.D60D	NRIP2_uc010sed.1_Silent_p.D60D|uc009zdz.1_5'Flank	NM_031474	NP_113662	Q9BQI9	NRIP2_HUMAN	nuclear receptor interacting protein 2	60					proteolysis|transcription, DNA-dependent	cytoplasm|nucleus	aspartic-type endopeptidase activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			CTTCTCCCTCATCTCTCCTGG	0.667													60	159					0	0	0.01441	0	0		G	2943970	G	G	2943970	2	3	191	1	0	0	0	0	0	0	0	1	10672	214	8	3		3	NRIP2	12	2943970	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	919945	2943970	130907925	565	96187											
DYRK4	8798	broad.mit.edu	37	chr12	4722772	4722772	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagcaggactgtctccagcaCggagctgacactgttcagct	9	8	11	13	1	2	1	1	1	1	0	3	3	2	3	1	2	4	5	1	2	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:4722772C>T	uc001qmx.2	+	13	1576	c.1416C>T	c.(1414-1416)CAC>CAT	p.H472H	DYRK4_uc001qmy.1_Silent_p.H471H|DYRK4_uc001qmz.1_Silent_p.H185H|DYRK4_uc001qna.1_Silent_p.H108H|DYRK4_uc010ser.1_Silent_p.H109H	NM_003845	NP_003836	Q9NR20	DYRK4_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	472						Golgi apparatus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|skin(1)	3			Colorectal(7;0.103)			GTCTCCAGCACGGAGCTGACA	0.537													25	38					0	0	0.004656	0	0		T	4722772	T	T	4722772	2	4	191	1	0	0	0	0	0	0	0	1	4864	535	19	1		1	DYRK4	12	4722772	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1778802	4722772	129129123	566	96188											
CHD4	1108	broad.mit.edu	37	chr12	6686958	6686958	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaccgctcaccttaaacCttcgagctagaaatttattc	12	11	4	14	2	1	1	1	0	0	1	3	2	1	1	4	0	3	2	4	0	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:6686958C>A	uc001qpo.2	-	37	5518	c.5354G>T	c.(5353-5355)AGG>ATG	p.R1785M	CHD4_uc001qpn.2_Missense_Mutation_p.R1778M|CHD4_uc001qpp.2_Missense_Mutation_p.R1810M|uc001qpq.1_5'Flank	NM_001273	NP_001264	Q14839	CHD4_HUMAN	chromodomain helicase DNA binding protein 4	1785	Required for interaction with PCNT.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|zinc ion binding			central_nervous_system(2)	2						CACCTTAAACCTTCGAGCTAG	0.463													35	61					6.05902e-23	7.10994e-23	0.003755	1	0		A	6686958	A	A	6686958	3	1	191	1	0	0	0	0	1	0	0	0	3330	681	24	5	400	5	CHD4	12	6686958	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1964186	6686958	127164937	567	96189											
USP5	8078	broad.mit.edu	37	chr12	6968673	6968673	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatcttccagaatgccccGacggaccctacccaggattt	11	8	8	14	2	1	2	0	0	1	2	2	5	2	4	5	2	2	0	5	2	3	3	rs143750403	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:6968673G>A	uc001qri.3	+	9	1157	c.1098G>A	c.(1096-1098)CCG>CCA	p.P366P	USP5_uc001qrh.3_Silent_p.P366P	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	366					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						AGAATGCCCCGACGGACCCTA	0.537													22	62					0	0	0.003954	0	0		A	6968673	A	A	6968673	2	1	191	1	0	0	0	0	0	0	0	1	17107	1045	37	1		1	USP5	12	6968673	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	281715	6968673	126883222	568	96190											
LPCAT3	10162	broad.mit.edu	37	chr12	7092599	7092600	+	Frame_Shift_Ins	INS	-	A	A																															ttagtttactcaccaaagttINSaaaataagcaattgagaggc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:7092599_7092600insA	uc001qsi.2	-	2	366_367	c.252_253insT	c.(250-255)TTTAACfs	p.F84fs	EMG1_uc010sfv.1_Intron|LPCAT3_uc010sfw.1_Intron|LPCAT3_uc009zfp.2_RNA|LPCAT3_uc010sfx.1_RNA|LPCAT3_uc009zfq.1_Intron	NM_005768	NP_005759	Q6P1A2	MBOA5_HUMAN	lysophosphatidylcholine acyltransferase 3	84_85	Helical; (Potential).				phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity			ovary(1)	1						TCACCAAAGTTAAAATAAGCAA	0.401													86	198	---	---	---	---						.	A	7092600	A	A	7092599	7	5	191	1	0	1	1	0	0	0	0	0	8930	1754	61	0	1254	0	LPCAT3	12	7092599	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	123926	7092599	126759296	569	96191											
A2M	2	broad.mit.edu	37	chr12	9251353	9251353	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgaagctcaaatccacCtgtgaaattggaacaaaagg	15	7	11	8	0	1	2	1	2	0	0	2	3	2	3	2	3	2	2	2	3	6	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:9251353C>A	uc001qvk.1	-	15	1815	c.1702_splice	c.e15-1	p.V568_splice	A2M_uc009zgk.1_Splice_Site_p.V418_splice	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor						blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TCAAATCCACCTGTGAAATTG	0.512													14	20					0.00244969	0.00254973	0.00245	1	0		A	9251353	A	A	9251353	5	1	191	1	0	0	0	0	0	0	1	0	4	695	24	5	2811	5	A2M	12	9251353	Splice_Site	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2158754	9251353	124600542	570	96192											
TAS2R13	50838	broad.mit.edu	37	chr12	11061808	11061808	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgacccagtcaatgcagttGatcagtactataaatccatt	13	12	6	10	0	2	2	2	2	0	0	3	2	3	2	2	0	2	3	2	0	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:11061808G>A	uc001qzg.1	-	1	354	c.90C>T	c.(88-90)ATC>ATT	p.I30I	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron	NM_023920	NP_076409	Q9NYV9	T2R13_HUMAN	taste receptor, type 2, member 13	30	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			breast(1)|skin(1)	2						CAATGCAGTTGATCAGTACTA	0.403													6	31					0	0	0.001984	0	0		A	11061808	A	A	11061808	2	1	191	1	0	0	0	0	0	0	0	1	15592	1280	45	4		4	TAS2R13	12	11061808	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1810455	11061808	122790087	571	96193											
BCL2L14	79370	broad.mit.edu	37	chr12	12247740	12247740	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagggctttaaggctgcccTtgtaatagacgtcacggcca	9	10	11	11	2	2	1	2	0	0	1	2	1	2	1	2	3	1	3	2	3	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:12247740T>C	uc001rac.2	+	5	1022	c.821T>C	c.(820-822)CTT>CCT	p.L274P	ETV6_uc001raa.1_Intron|BCL2L14_uc001raf.1_Intron|BCL2L14_uc001rad.2_Missense_Mutation_p.L274P|BCL2L14_uc001rae.2_3'UTR	NM_138723	NP_620049	Q9BZR8	B2L14_HUMAN	BCL2-like 14 isoform 1	274					apoptosis|regulation of apoptosis	cytosol|endomembrane system|intracellular organelle|membrane	protein binding			skin(1)	1		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)		AAGGCTGCCCTTGTAATAGAC	0.527													43	86					0	0	0.011902	0	0		C	12247740	C	C	12247740	3	2	191	1	0	0	0	0	1	0	0	0	1373	1609	56	3	920	3	BCL2L14	12	12247740	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1185932	12247740	121604155	572	96194											
GRIN2B	2904	broad.mit.edu	37	chr12	13717350	13717350	+	Missense_Mutation	SNP	A	G	G	1	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	atttgcagtcagaatgcgtgAagctgcggcggtgctctgag	8	10	15	8	3	2	3	1	2	1	1	2	3	2	3	0	2	5	3	0	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:13717350A>G	uc001rbt.2	-	13	3001	c.2822T>C	c.(2821-2823)TTC>TCC	p.F941S		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	941	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AGAATGCGTGAAGCTGCGGCG	0.552													5	211					0	0	0.001168	0	0		G	13717350	G	G	13717350	3	3	191	1	0	0	0	0	1	0	0	0	6796	246	9	3	1636	3	GRIN2B	12	13717350	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1469610	13717350	120134545	573	96195											
PLEKHA5	54477	broad.mit.edu	37	chr12	19522684	19522684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagttccatccactcagcCgcagctcacagaaggatcac	11	6	8	16	1	3	1	3	0	0	1	5	2	5	2	4	1	2	3	4	1	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:19522684C>T	uc001reb.2	+	25	3400	c.3314C>T	c.(3313-3315)CCG>CTG	p.P1105L	PLEKHA5_uc001rea.2_Missense_Mutation_p.P1163L|PLEKHA5_uc009zin.2_Missense_Mutation_p.P863L|PLEKHA5_uc010sif.1_Missense_Mutation_p.P1094L|PLEKHA5_uc010sig.1_Missense_Mutation_p.P1087L|PLEKHA5_uc009zio.2_Missense_Mutation_p.P371L	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	1105							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					TCCACTCAGCCGCAGCTCACA	0.403													13	30					0	0	0.003163	0	0		T	19522684	T	T	19522684	3	4	191	1	0	0	0	0	1	0	0	0	12078	652	23	1	3730	1	PLEKHA5	12	19522684	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5805334	19522684	114329211	574	96196											
CMAS	55907	broad.mit.edu	37	chr12	22213859	22213859	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcagagcaaagagtattaAggtaaaaacaaataaacctt	20	9	7	5	0	0	2	0	0	0	2	0	2	0	2	1	1	4	4	1	1	9	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:22213859A>G	uc001rfm.2	+	5	866	c.787A>G	c.(787-789)AGA>GGA	p.R263G	CMAS_uc001rfn.2_RNA	NM_018686	NP_061156	Q8NFW8	NEUA_HUMAN	cytidine monophospho-N-acetylneuraminic acid	263					lipopolysaccharide biosynthetic process	nucleus	N-acylneuraminate cytidylyltransferase activity			ovary(1)|pancreas(1)|skin(1)	3						AAGAGTATTAAGGTAAAAACA	0.323													38	76					0	0	0.006999	0	0		G	22213859	G	G	22213859	3	3	191	1	0	0	0	0	1	0	0	0	3578	86	3	3	805	3	CMAS	12	22213859	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2691175	22213859	111638036	575	96197											
ITPR2	3709	broad.mit.edu	37	chr12	26568291	26568292	+	Frame_Shift_Ins	INS	-	A	A																															ccatagtgaagtcatccttcINSaaaaaaaggaacccaataat																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:26568291_26568292insA	uc001rhg.2	-	51	7667_7668	c.7250_7251insT	c.(7249-7251)TTGfs	p.L2417fs	ITPR2_uc009zjg.1_Frame_Shift_Ins_p.L568fs	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	2417	Extracellular (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					AGTCATCCTTCAAAAAAAGGAA	0.411													44	79	---	---	---	---						.	A	26568292	A	A	26568291	7	5	191	1	0	1	1	0	0	0	0	0	7937	825	29	0	882	0	ITPR2	12	26568291	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	4354432	26568291	107283604	576	96198											
REP15	387849	broad.mit.edu	37	chr12	27850003	27850003	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatcatctttggtatgccaGgaaagcctaaagacatcagg	13	11	9	8	0	3	1	2	0	1	1	3	2	3	2	2	3	2	1	2	3	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:27850003G>T	uc001rig.1	+	1	576	c.508G>T	c.(508-510)GGA>TGA	p.G170*		NM_001029874	NP_001025045	Q6BDI9	REP15_HUMAN	RAB15 effector protein	170						early endosome membrane				ovary(1)	1	Lung SC(9;0.0873)					TGGTATGCCAGGAAAGCCTAA	0.468													9	69					1.12685e-05	1.20373e-05	0.004482	1	0		T	27850003	T	T	27850003	4	4	191	1	0	0	0	0	0	1	0	0	13251	1001	35	5	510	5	REP15	12	27850003	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1281712	27850003	106001892	577	96199											
FAR2	55711	broad.mit.edu	37	chr12	29462162	29462162	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctaatggaatcattattgCggtatgtataatgatgaaga	15	13	9	4	1	1	3	1	2	0	1	1	4	1	4	1	2	1	2	1	2	7	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:29462162C>T	uc001ris.3	+	6	914	c.767C>T	c.(766-768)GCG>GTG	p.A256V	FAR2_uc001rit.2_Missense_Mutation_p.A256V|FAR2_uc009zjm.2_Missense_Mutation_p.A159V|uc001riu.1_Intron	NM_018099	NP_060569	Q96K12	FACR2_HUMAN	fatty acyl CoA reductase 2	256					ether lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal matrix|peroxisomal membrane	binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor				0						ATCATTATTGCGGTATGTATA	0.303													73	224					0	0	0.01441	0	0		T	29462162	T	T	29462162	3	4	191	1	0	0	0	0	1	0	0	0	5689	782	27	1	785	1	FAR2	12	29462162	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1612159	29462162	104389733	578	96200											
IPO8	10526	broad.mit.edu	37	chr12	30783861	30783861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctttgttttcaaaggtgaagCctccctgttgttcaatcttc	7	17	7	10	0	3	1	2	1	1	0	5	1	4	1	2	1	1	3	2	1	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:30783861C>T	uc001rjd.2	-	25	3217	c.3047G>A	c.(3046-3048)GGC>GAC	p.G1016D	IPO8_uc001rje.1_3'UTR|IPO8_uc010sjt.1_Missense_Mutation_p.G811D	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	1016					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					AAAGGTGAAGCCTCCCTGTTG	0.413													4	71					0	0	0.000602	0	0		T	30783861	T	T	30783861	3	4	191	1	0	0	0	0	1	0	0	0	7814	739	26	2	70	2	IPO8	12	30783861	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1321699	30783861	103068034	579	96201											
PKP2	5318	broad.mit.edu	37	chr12	33031261	33031261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcactaggagggcggcccGcctgctttcttggtggtgca	4	10	16	11	2	1	0	0	0	1	0	1	1	1	1	2	6	2	3	2	6	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:33031261G>A	uc001rlj.3	-	3	668	c.553C>T	c.(553-555)CGG>TGG	p.R185W	PKP2_uc001rlk.3_Missense_Mutation_p.R185W|PKP2_uc010skj.1_Missense_Mutation_p.R185W	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	185					cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					AGGGCGGCCCGCCTGCTTTCT	0.622													6	93					0	0	0.001168	0	0		A	33031261	A	A	33031261	3	1	191	1	0	0	0	0	1	0	0	0	12004	1086	38	1	2140	1	PKP2	12	33031261	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2247400	33031261	100820634	580	96202											
FAM113B	91523	broad.mit.edu	37	chr12	47629304	47629304	+	Missense_Mutation	SNP	T	C	C	0	1	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	gttccagtgcctgggccaggTgctgcccgagtcttgcctcc	3	10	13	15	1	1	0	0	0	1	0	3	1	3	0	6	2	4	2	6	2	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:47629304T>C	uc001rpn.2	+	4	1189	c.458T>C	c.(457-459)GTG>GCG	p.V153A	FAM113B_uc010slj.1_Missense_Mutation_p.V33A|FAM113B_uc001rpq.2_Missense_Mutation_p.V153A	NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523	153							hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					CTGGGCCAGGTGCTGCCCGAG	0.612													18	74					0	0	0.007413	0	0		C	47629304	C	C	47629304	3	2	191	1	0	0	0	0	1	0	0	0	5413	1696	59	3	460	3	FAM113B	12	47629304	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	14598043	47629304	86222591	581	96203											
COL2A1	1280	broad.mit.edu	37	chr12	48380149	48380149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggaccgatgggcccaacGccaccaggctctccacgggc	7	3	15	16	3	1	0	0	0	1	0	2	2	1	1	5	5	1	1	5	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:48380149G>A	uc001rqu.2	-	23	1678	c.1497C>T	c.(1495-1497)GGC>GGT	p.G499G	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.G430G	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	499	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	TGGGCCCAACGCCACCAGGCT	0.622													4	8					0	0	0.009096	0	0		A	48380149	A	A	48380149	2	1	191	1	0	0	0	0	0	0	0	1	3690	1074	38	1		1	COL2A1	12	48380149	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	750845	48380149	85471746	582	96204											
H1FNT	341567	broad.mit.edu	37	chr12	48723477	48723477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagaaagccgggacgcGcgaggcaagaggagggcacg	12	0	19	10	5	0	2	0	0	0	2	0	6	0	4	2	5	1	2	2	5	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:48723477G>A	uc001rrm.2	+	1	715	c.403G>A	c.(403-405)GCG>ACG	p.A135T		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	135	Arg-rich.				chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						GCCGGGACGCGCGAGGCAAGA	0.746													21	35					0	0	0.012319	0	0		A	48723477	A	A	48723477	3	1	191	1	0	0	0	0	1	0	0	0	6937	1087	38	1	405	1	H1FNT	12	48723477	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	343328	48723477	85128418	583	96205											
TROAP	10024	broad.mit.edu	37	chr12	49723227	49723227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcctgctctgaagatcctgCcctgccctgggtaagtatca	7	11	10	13	0	2	2	1	1	1	1	4	2	4	2	4	1	3	3	4	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:49723227C>T	uc001rtx.3	+	11	1321	c.1154C>T	c.(1153-1155)GCC>GTC	p.A385V	TROAP_uc009zlh.2_Missense_Mutation_p.A385V|TROAP_uc001rty.2_Missense_Mutation_p.A93V	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	385					cell adhesion	cytoplasm				ovary(1)	1						GAAGATCCTGCCCTGCCCTGG	0.597													9	38					0	0	0.006214	0	0		T	49723227	T	T	49723227	3	4	191	1	0	0	0	0	1	0	0	0	16601	739	26	2	1294	2	TROAP	12	49723227	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	999750	49723227	84128668	584	96206											
KCNH3	23416	broad.mit.edu	37	chr12	49938006	49938006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcgcctgctgcgcctgctgCgcctgcttccgcggctggac	1	9	14	17	5	0	0	0	0	0	0	1	1	1	1	4	2	6	4	4	2	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:49938006C>T	uc001ruh.1	+	7	1290	c.1030C>T	c.(1030-1032)CGC>TGC	p.R344C	KCNH3_uc010smj.1_Missense_Mutation_p.R284C	NM_012284	NP_036416	Q9ULD8	KCNH3_HUMAN	potassium voltage-gated channel, subfamily H	344	Helical; Voltage-sensor; Name=Segment S4; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity|voltage-gated potassium channel activity				0						gcgcctgctgcgcctgctTCC	0.498													7	5					0	0	0.001984	0	0		T	49938006	T	T	49938006	3	4	191	1	0	0	0	0	1	0	0	0	8049	768	27	1	1056	1	KCNH3	12	49938006	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	214779	49938006	83913889	585	96207											
KRT84	3890	broad.mit.edu	37	chr12	52774246	52774246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtactcgcacagctgccgcGccatgtcctgcttggcctgc	4	9	12	16	3	0	0	0	0	0	0	2	0	1	0	4	2	5	4	4	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:52774246G>A	uc001sah.1	-	7	1373	c.1325C>T	c.(1324-1326)GCG>GTG	p.A442V		NM_033045	NP_149034	Q9NSB2	KRT84_HUMAN	keratin, hair, basic, 4	442	Rod.|Coil 2.					keratin filament	structural constituent of epidermis			skin(1)	1	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CAGCTGCCGCGCCATGTCCTG	0.657											OREG0021848	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	78					0	0	0.008871	0	0		A	52774246	A	A	52774246	3	1	191	1	0	0	0	0	1	0	0	0	8514	1087	38	1	489	1	KRT84	12	52774246	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2836240	52774246	81077649	586	96208											
ITGB7	3695	broad.mit.edu	37	chr12	53585371	53585371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgtctgcctcttgaaagCgaggattgatggtggtcgtg	7	12	15	7	2	2	2	0	2	2	0	3	5	2	3	1	3	2	0	1	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:53585371C>T	uc009zmv.2	-	15	2437	c.2366G>A	c.(2365-2367)CGC>CAC	p.R789H	ITGB7_uc001scc.2_Missense_Mutation_p.R789H|ITGB7_uc010snz.1_RNA	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	789	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						CTCTTGAAAGCGAGGATTGAT	0.507													23	97					0	0	0.004656	0	0		T	53585371	T	T	53585371	3	4	191	1	0	0	0	0	1	0	0	0	7916	768	27	1	34	1	ITGB7	12	53585371	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	811125	53585371	80266524	587	96209											
ITGB7	3695	broad.mit.edu	37	chr12	53589929	53589929	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtccccagctgtatggaatgTgtcgtctgaagtgaacacca	10	10	11	10	1	1	2	0	2	1	0	3	3	2	3	3	1	2	2	3	1	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:53589929T>C	uc009zmv.2	-	6	942	c.871A>G	c.(871-873)ACA>GCA	p.T291A	ITGB7_uc001scc.2_Missense_Mutation_p.T291A|ITGB7_uc010snz.1_RNA	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7 precursor	291	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|breast(1)	8						GTATGGAATGTGTCGTCTGAA	0.572													4	115					0	0	0.009096	0	0		C	53589929	C	C	53589929	3	2	191	1	0	0	0	0	1	0	0	0	7916	1696	59	3	1565	3	ITGB7	12	53589929	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	4558	53589929	80261966	588	96210											
OR10P1	121130	broad.mit.edu	37	chr12	56031570	56031570	+	Missense_Mutation	SNP	A	G	G	1	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	cccttcggaacaaggacgtgAggagggccctgcgacacttg	9	6	14	12	3	0	1	0	1	0	0	1	5	0	4	2	4	2	0	2	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:56031570A>G	uc010spq.1	+	1	895	c.895A>G	c.(895-897)AGG>GGG	p.R299G		NM_206899	NP_996782	Q8NGE3	O10P1_HUMAN	olfactory receptor, family 10, subfamily P,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						CAAGGACGTGAGGAGGGCCCT	0.577													15	30					0	0	0.004007	0	0		G	56031570	G	G	56031570	3	3	191	1	0	0	0	0	1	0	0	0	10934	295	11	3	897	3	OR10P1	12	56031570	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	2441641	56031570	77820325	589	96211											
ITGA7	3679	broad.mit.edu	37	chr12	56088256	56088256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagctctacctccagttcCgtggtctcaatgctgatccc	7	11	8	15	1	2	1	1	1	2	0	6	1	5	1	4	1	4	4	4	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:56088256C>T	uc001shh.2	-	17	2560	c.2340G>A	c.(2338-2340)ACG>ACA	p.T780T	ITGA7_uc001shg.2_Silent_p.T776T|ITGA7_uc010sps.1_Silent_p.T683T|ITGA7_uc009znw.2_Silent_p.T23T|ITGA7_uc009znx.2_Silent_p.T657T	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	820	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						CCTCCAGTTCCGTGGTCTCAA	0.577													19	31					0	0	0.010504	0	0		T	56088256	T	T	56088256	2	4	191	1	0	0	0	0	0	0	0	1	7897	639	23	1		1	ITGA7	12	56088256	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	56686	56088256	77763639	590	96212											
ANKRD52	283373	broad.mit.edu	37	chr12	56639211	56639211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atccgctgtaatccaccccgGcatccaggggatctgtggaa	9	8	11	13	2	1	0	0	0	1	0	4	2	4	2	5	4	0	3	5	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:56639211G>A	uc001skm.3	-	21	2444	c.2354C>T	c.(2353-2355)GCC>GTC	p.A785V		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	785							protein binding			ovary(2)	2						ATCCACCCCGGCATCCAGGGG	0.617													11	22					0	0	0.008291	0	0		A	56639211	A	A	56639211	3	1	191	1	0	0	0	0	1	0	0	0	678	1203	42	2	908	2	ANKRD52	12	56639211	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	550955	56639211	77212684	591	96213											
PAN2	9924	broad.mit.edu	37	chr12	56720627	56720627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccctcagaatccccaaaggCcagagcctgcttgctggctg	8	7	11	15	0	1	2	1	0	0	2	2	2	2	2	5	2	3	3	5	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:56720627C>T	uc001skx.2	-	7	1409	c.1036G>A	c.(1036-1038)GCC>ACC	p.A346T	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.A346T|PAN2_uc001sky.2_Missense_Mutation_p.A346T	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	346					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|ubiquitin-dependent protein catabolic process	cytosol|nucleus	nucleic acid binding|poly(A)-specific ribonuclease activity|ubiquitin thiolesterase activity			ovary(2)|skin(2)|large_intestine(1)|breast(1)	6						TCCCCAAAGGCCAGAGCCTGC	0.557													26	112					0	0	0.004656	0	0		T	56720627	T	T	56720627	3	4	191	1	0	0	0	0	1	0	0	0	11433	739	26	2	2652	2	PAN2	12	56720627	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	81416	56720627	77131268	592	96214											
CTDSP2	10106	broad.mit.edu	37	chr12	58240195	58240195	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgtcttccctccgcgcctgGgtgatgatggagccgtgttc	3	11	14	13	4	1	2	0	2	1	0	4	3	3	3	4	2	1	1	4	2	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:58240195G>A	uc001sqm.2	-	1	553	c.24C>T	c.(22-24)ACC>ACT	p.T8T	CTDSP2_uc009zqf.2_5'Flank|CTDSP2_uc009zqg.2_Silent_p.T8T	NM_005730	NP_005721	O14595	CTDS2_HUMAN	nuclear LIM interactor-interacting factor 2	8					protein dephosphorylation	nucleus|soluble fraction	CTD phosphatase activity|metal ion binding			central_nervous_system(1)	1	all_neural(12;0.00559)|Glioma(12;0.0143)|Melanoma(17;0.122)					TCCGCGCCTGGGTGATGATGG	0.458													5	16					0	0	0.001984	0	0		A	58240195	A	A	58240195	2	1	191	1	0	0	0	0	0	0	0	1	4007	1219	43	4		4	CTDSP2	12	58240195	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1519568	58240195	75611700	593	96215											
AVPR1A	552	broad.mit.edu	37	chr12	63543831	63543831	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttttggaaggccacaccCgcttgctctgcacccttgct	5	11	8	17	1	1	0	0	0	1	0	1	1	1	1	4	2	3	4	4	2	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:63543831C>T	uc001sro.1	-	1	2760	c.786G>A	c.(784-786)GCG>GCA	p.A262A		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	262	Cytoplasmic (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	AGGCCACACCCGCTTGCTCTG	0.587													33	113					0	0	0.010818	0	0		T	63543831	T	T	63543831	2	4	191	1	0	0	0	0	0	0	0	1	1232	639	23	1		1	AVPR1A	12	63543831	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5303636	63543831	70308064	594	96216											
GNS	2799	broad.mit.edu	37	chr12	65130789	65130789	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcaggcacctaccttgcTtgtctgatttggtttgatcc	5	17	9	10	0	2	2	1	2	1	0	3	2	3	2	3	2	2	3	3	2	1	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:65130789T>G	uc001ssg.3	-	9	1263	c.1093A>C	c.(1093-1095)AGC>CGC	p.S365R	GNS_uc001ssf.2_Missense_Mutation_p.S309R|GNS_uc010ssq.1_Missense_Mutation_p.S397R|GNS_uc010ssr.1_Missense_Mutation_p.S345R	NM_002076	NP_002067	P15586	GNS_HUMAN	glucosamine (N-acetyl)-6-sulfatase precursor	365						lysosome	metal ion binding|N-acetylglucosamine-6-sulfatase activity|protein binding			central_nervous_system(1)	1	Lung NSC(1;7.25e-14)|all_lung(1;1.25e-12)		LUAD - Lung adenocarcinoma(6;0.115)	GBM - Glioblastoma multiforme(28;0.0435)		CCTACCTTGCTTGTCTGATTT	0.458													28	52					0	0	0.00632	0	0		G	65130789	G	G	65130789	3	3	191	1	0	0	0	0	1	0	0	0	6565	1609	56	5	589	5	GNS	12	65130789	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1586958	65130789	68721106	595	96217											
CCDC41	51134	broad.mit.edu	37	chr12	94725476	94725477	+	Frame_Shift_Ins	INS	-	T	T																															tttaataagaaccacttgccINStttttctgggcaattgcagc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:94725476_94725477insT	uc001tdd.2	-	14	2292_2293	c.1706_1707insA	c.(1705-1707)AAGfs	p.K569fs	CCDC41_uc001tde.2_Frame_Shift_Ins_p.K569fs|CCDC41_uc009zsw.1_RNA	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	561	Potential.										0						AACCACTTGCCTTTTTCTGGGC	0.262													73	161	---	---	---	---						.	T	94725477	T	T	94725476	7	5	191	1	0	1	1	0	0	0	0	0	2816	695	24	0	414	0	CCDC41	12	94725476	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	29594687	94725476	39126419	596	96218											
SPIC	121599	broad.mit.edu	37	chr12	101876581	101876581	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttatatagaacagtgctgcGgacttctattttgaaggaaa	13	14	9	5	1	1	2	0	1	1	1	1	4	1	4	0	2	3	1	0	2	7	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:101876581G>A	uc001tid.2	+	5	381	c.222G>A	c.(220-222)GCG>GCA	p.A74A	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Silent_p.A73A	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	74						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						ACAGTGCTGCGGACTTCTATT	0.244													73	197					0	0	0.01441	0	0		A	101876581	A	A	101876581	2	1	191	1	0	0	0	0	0	0	0	1	15076	1103	39	1		1	SPIC	12	101876581	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7151105	101876581	31975314	597	96219											
PAH	5053	broad.mit.edu	37	chr12	103271264	103271264	+	Silent	SNP	T	G	G	0	1	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	tggtcagcatccagttccgcTccatagctgagaatctgatt	9	12	9	11	1	2	2	1	2	1	1	5	3	5	2	3	1	2	4	3	1	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:103271264T>G	uc001tjq.1	-	5	889	c.417A>C	c.(415-417)GGA>GGC	p.G139G	PAH_uc010swc.1_Silent_p.G139G	NM_000277	NP_000268	P00439	PH4H_HUMAN	phenylalanine hydroxylase	139					catecholamine biosynthetic process|L-phenylalanine catabolic process|neurotransmitter biosynthetic process	cytosol	phenylalanine 4-monooxygenase activity			ovary(4)	4					Epinephrine(DB00668)|L-Phenylalanine(DB00120)|Levodopa(DB01235)|Norepinephrine(DB00368)|Tetrahydrobiopterin(DB00360)	CCAGTTCCGCTCCATAGCTGA	0.403													28	77					0	0	0.012213	0	0		G	103271264	G	G	103271264	2	3	191	1	0	0	0	0	0	0	0	1	11413	1538	54	5		5	PAH	12	103271264	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1394683	103271264	30580631	598	96220											
FOXN4	121643	broad.mit.edu	37	chr12	109717585	109717585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacgctgtgtagagacccGtcacctgcaagtctgggaag	10	8	13	10	2	2	1	1	0	1	1	2	3	2	2	2	1	2	4	2	1	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:109717585G>A	uc001toe.3	-	10	1550	c.1445C>T	c.(1444-1446)ACG>ATG	p.T482M	FOXN4_uc009zvg.2_Missense_Mutation_p.T279M|FOXN4_uc001tof.3_Missense_Mutation_p.T302M	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	482					axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|lung(1)	2						GTAGAGACCCGTCACCTGCAA	0.647													5	15					0	0	0.001168	0	0		A	109717585	A	A	109717585	3	1	191	1	0	0	0	0	1	0	0	0	6036	1145	40	1	112	1	FOXN4	12	109717585	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6446321	109717585	24134310	599	96221											
MED13L	23389	broad.mit.edu	37	chr12	116404042	116404042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctagaaagaagacgctcacCctggctctgaaaaacaaaaa	18	6	7	10	1	3	4	1	1	2	3	3	4	3	4	1	1	1	2	1	1	7	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:116404042C>T	uc001tvw.2	-	29	6287	c.6232G>A	c.(6232-6234)GGT>AGT	p.G2078S		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	2078					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		AGACGCTCACCCTGGCTCTGA	0.443													25	61					0	0	0.00278	0	0		T	116404042	T	T	116404042	3	4	191	1	0	0	0	0	1	0	0	0	9449	623	22	4	412	4	MED13L	12	116404042	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6686457	116404042	17447853	600	96222											
VSIG10	54621	broad.mit.edu	37	chr12	118517177	118517177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaccatgcagctggcgcccGactctggcccaactatgtgg	7	7	12	15	2	1	0	0	0	1	0	1	1	1	0	3	3	3	3	3	3	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:118517177G>A	uc001tws.2	-	4	1233	c.899C>T	c.(898-900)TCG>TTG	p.S300L		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	300	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane					0						GCTGGCGCCCGACTCTGGCCC	0.532													20	45					0	0	0.010504	0	0		A	118517177	A	A	118517177	3	1	191	1	0	0	0	0	1	0	0	0	17249	1059	37	1	747	1	VSIG10	12	118517177	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2113135	118517177	15334718	601	96223											
SRRM4	84530	broad.mit.edu	37	chr12	119563203	119563203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatctcgaagccggccccGaaagtctcaccgccaccgcc	10	4	9	18	5	2	1	1	0	2	1	4	3	2	1	7	1	1	0	7	1	3	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:119563203G>A	uc001txa.1	+	7	825	c.533G>A	c.(532-534)CGA>CAA	p.R178Q		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	178	Ser-rich.				cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						AGCCGGCCCCGAAAGTCTCAC	0.463													11	52					0	0	0.008291	0	0		A	119563203	A	A	119563203	3	1	191	1	0	0	0	0	1	0	0	0	15196	1058	37	1	559	1	SRRM4	12	119563203	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1046026	119563203	14288692	602	96224											
CCDC60	160777	broad.mit.edu	37	chr12	119968783	119968783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaaacctggacttgcGgattcgaccccatgtcctcc	9	9	10	13	2	0	1	0	0	0	1	3	5	2	3	5	3	2	0	5	3	2	2	rs148262586	by1000genomes	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:119968783G>A	uc001txe.2	+	13	1931	c.1466G>A	c.(1465-1467)CGG>CAG	p.R489Q	uc001txf.2_Intron	NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	489										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		CTGGACTTGCGGATTCGACCC	0.512													32	73					0	0	0.012213	0	0		A	119968783	A	A	119968783	3	1	191	1	0	0	0	0	1	0	0	0	2834	1116	39	1	1516	1	CCDC60	12	119968783	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	405580	119968783	13883112	603	96225											
CIT	11113	broad.mit.edu	37	chr12	120135487	120135487	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggaggtggacgggccccgGtggtgttcagtgccggactc	4	7	19	11	4	1	0	1	0	0	0	2	3	1	3	3	7	1	1	3	7	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:120135487G>A	uc001txi.1	-	45	5786	c.5733C>T	c.(5731-5733)CAC>CAT	p.H1911H	CIT_uc001txh.1_Silent_p.H1430H|CIT_uc001txj.1_Silent_p.H1953H	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1911					intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		ACGGGCCCCGGTGGTGTTCAG	0.532													50	123					0	0	0.01441	0	0		A	120135487	A	A	120135487	2	1	191	1	0	0	0	0	0	0	0	1	3441	1252	44	4		4	CIT	12	120135487	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	166704	120135487	13716408	604	96226											
CIT	11113	broad.mit.edu	37	chr12	120172001	120172001	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggtgtccagcattctctgCagctctcgaacccgacactc	7	10	8	16	3	2	0	0	0	2	0	7	2	3	0	2	1	4	3	2	1	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:120172001C>T	uc001txi.1	-	25	3245	c.3192G>A	c.(3190-3192)CTG>CTA	p.L1064L	CIT_uc001txh.1_Silent_p.L598L|CIT_uc001txj.1_Silent_p.L1106L	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1064	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		GCATTCTCTGCAGCTCTCGAA	0.557													31	83					0	0	0.004289	0	0		T	120172001	T	T	120172001	2	4	191	1	0	0	0	0	0	0	0	1	3441	697	25	2		2	CIT	12	120172001	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	36514	120172001	13679894	605	96227											
CCDC64	92558	broad.mit.edu	37	chr12	120518704	120518704	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgttaggtgacactgctgaGtgtggagatgactgccctaa	9	11	13	8	0	0	4	0	3	0	1	0	5	0	4	1	2	2	2	1	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:120518704G>A	uc001txl.1	+	7	1347	c.1322G>A	c.(1321-1323)AGT>AAT	p.S441N	CCDC64_uc009zwv.1_RNA|CCDC64_uc010sze.1_Missense_Mutation_p.S112N|CCDC64_uc010szf.1_Missense_Mutation_p.S138N	NM_207311	NP_997194	Q6ZP65	BICR1_HUMAN	coiled-coil domain containing 64	441	Potential.				Golgi to secretory granule transport|neuron projection development	centrosome	dynactin binding|Rab GTPase binding			ovary(2)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					ACACTGCTGAGTGTGGAGATG	0.527													26	37					0	0	0.005443	0	0		A	120518704	A	A	120518704	3	1	191	1	0	0	0	0	1	0	0	0	2838	1029	36	4	1348	4	CCDC64	12	120518704	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	346703	120518704	13333191	606	96228											
OASL	8638	broad.mit.edu	37	chr12	121476748	121476748	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagcctggaggctggtgtGctatacagttcctgcatcag	7	11	12	11	0	1	0	1	0	0	0	3	1	3	1	3	3	4	4	3	3	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:121476748G>A	uc001tzj.1	-	1	33	c.27C>T	c.(25-27)AGC>AGT	p.S9S	OASL_uc001tzk.1_Silent_p.S9S	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	9					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGGCTGGTGTGCTATACAGTT	0.612													7	25					0	0	0.006214	0	0		A	121476748	A	A	121476748	2	1	191	1	0	0	0	0	0	0	0	1	10821	1310	46	2		2	OASL	12	121476748	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	958044	121476748	12375147	607	96229											
KDM2B	84678	broad.mit.edu	37	chr12	121891034	121891034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggtccgcaggcaggcctcGcacttgcggcatcgcgtccg	4	7	14	16	7	0	0	0	0	0	0	5	0	2	0	3	4	1	4	3	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:121891034G>A	uc001uat.2	-	13	1952	c.1848C>T	c.(1846-1848)TGC>TGT	p.C616C	KDM2B_uc001uaq.2_Silent_p.C56C|KDM2B_uc010szy.1_Silent_p.C56C|KDM2B_uc001uar.2_Silent_p.C207C|KDM2B_uc001uas.2_Silent_p.C585C|KDM2B_uc001uau.2_Silent_p.C499C	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	616	CXXC-type.				embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						GGCAGGCCTCGCACTTGCGGC	0.697													8	20					0	0	0.00308	0	0		A	121891034	A	A	121891034	2	1	191	1	0	0	0	0	0	0	0	1	8141	1079	38	1		1	KDM2B	12	121891034	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	414286	121891034	11960861	608	96230											
MORN3	283385	broad.mit.edu	37	chr12	122091114	122091114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagatggaagaaacgccccGccccgttcttcatgcctctc	8	8	8	17	3	3	2	1	0	2	2	4	3	3	3	6	1	2	1	6	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:122091114G>A	uc001uax.2	-	4	686	c.515C>T	c.(514-516)GCG>GTG	p.A172V	MORN3_uc001uay.2_Intron	NM_173855	NP_776254	Q6PF18	MORN3_HUMAN	MORN repeat containing 3	172	MORN 6.										0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000409)|Epithelial(86;0.00145)		GAAACGCCCCGCCCCGTTCTT	0.587													19	43					0	0	0.008871	0	0		A	122091114	A	A	122091114	3	1	191	1	0	0	0	0	1	0	0	0	9727	1087	38	1	215	1	MORN3	12	122091114	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	200080	122091114	11760781	609	96231											
DDX55	57696	broad.mit.edu	37	chr12	124103353	124103353	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgtccaagcttatgcaaaGcatgaatgcaacctgatttt	13	13	7	8	0	0	2	0	2	0	0	1	2	1	2	2	0	5	4	2	0	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:124103353G>A	uc001ufi.2	+	12	1326	c.1302G>A	c.(1300-1302)AAG>AAA	p.K434K	DDX55_uc001ufh.2_Silent_p.K287K|DDX55_uc001ufk.2_Silent_p.K287K|DDX55_uc001ufl.2_Silent_p.K41K	NM_020936	NP_065987	Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	434							ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000142)|Epithelial(86;0.000637)|all cancers(50;0.00772)		CTTATGCAAAGCATGAATGCA	0.418											OREG0022230	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	115					0	0	0.004482	0	0		A	124103353	A	A	124103353	2	1	191	1	0	0	0	0	0	0	0	1	4376	962	34	2		2	DDX55	12	124103353	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2012239	124103353	9748542	610	96232											
DNAH10	196385	broad.mit.edu	37	chr12	124298123	124298123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccaagtcctgggtgatttCgcttggaaaacttctcaatg	9	13	10	9	1	1	1	1	1	1	0	4	2	2	2	2	2	2	1	2	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:124298123C>T	uc001uft.3	+	19	3228	c.3203C>T	c.(3202-3204)TCG>TTG	p.S1068L	DNAH10_uc010tav.1_Missense_Mutation_p.S610L|DNAH10_uc010taw.1_Missense_Mutation_p.S553L	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1068	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TGGGTGATTTCGCTTGGAAAA	0.443													16	43					0	0	0.003163	0	0		T	124298123	T	T	124298123	3	4	191	1	0	0	0	0	1	0	0	0	4604	893	31	1	3277	1	DNAH10	12	124298123	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	194770	124298123	9553772	611	96233											
TMEM132D	121256	broad.mit.edu	37	chr12	130184678	130184678	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcccctccggctggtccacGgacttcctcctcccggcaac	4	8	9	20	3	0	0	0	0	0	0	6	1	6	1	7	4	1	2	7	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:130184678G>A	uc009zyl.1	-	2	973	c.645C>T	c.(643-645)TCC>TCT	p.S215S		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	215	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GCTGGTCCACGGACTTCCTCC	0.692													11	37					0	0	0.010729	0	0		A	130184678	A	A	130184678	2	1	191	1	0	0	0	0	0	0	0	1	16072	1103	39	1		1	TMEM132D	12	130184678	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	5886555	130184678	3667217	612	96234											
RIMBP2	23504	broad.mit.edu	37	chr12	130884240	130884240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaccctttttgcctttgagCgcattggcgtatcttgagag	6	16	10	9	2	1	2	0	2	1	1	1	3	1	2	2	1	3	2	2	1	2	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr12:130884240C>T	uc001uil.2	-	18	3280	c.3116G>A	c.(3115-3117)CGC>CAC	p.R1039H		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	1039						cell junction|synapse		p.R1039H(1)		upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		TGCCTTTGAGCGCATTGGCGT	0.418													30	87					0	0	0.012213	0	0		T	130884240	T	T	130884240	3	4	191	1	0	0	0	0	1	0	0	0	13388	768	27	1	50	1	RIMBP2	12	130884240	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	699562	130884240	2967655	613	96235											
PSPC1	55269	broad.mit.edu	37	chr13	20346577	20346577	+	Missense_Mutation	SNP	A	G	G	1	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	caactggagaaaggttcttgAcagtcaaggctgctccatgt	11	10	11	9	0	2	2	1	1	1	1	3	3	3	2	1	3	2	3	1	3	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:20346577A>G	uc001uml.2	-	2	665	c.479T>C	c.(478-480)GTC>GCC	p.V160A	PSPC1_uc001umj.1_RNA|PSPC1_uc001umk.1_RNA	NM_001042414	NP_001035879	Q8WXF1	PSPC1_HUMAN	paraspeckle protein 1	160	RRM 2.|Sufficient for paraspeckles localization.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nuclear matrix|nucleolus	nucleotide binding|protein binding|RNA binding			breast(1)	1		all_cancers(29;1.25e-22)|all_lung(29;1.97e-20)|all_epithelial(30;2.29e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;4.63e-06)|Epithelial(112;2.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00256)|Lung(94;0.00975)|LUSC - Lung squamous cell carcinoma(192;0.0483)		AAGGTTCTTGACAGTCAAGGC	0.493													3	87					0	0	0.009096	0	0		G	20346577	G	G	20346577	3	3	191	1	0	0	0	0	1	0	0	0	12738	275	10	3	1124	3	PSPC1	13	20346577	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08		20346577	94823301	614	96236											
ATP12A	479	broad.mit.edu	37	chr13	25264573	25264573	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaaggaggagaccagatccCtgcagacatcagggtgctgt	12	6	13	10	0	1	3	1	0	0	3	2	5	2	4	2	3	2	2	2	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:25264573C>A	uc001upp.2	+	6	831	c.644C>A	c.(643-645)CCT>CAT	p.P215H	ATP12A_uc010aaa.2_Missense_Mutation_p.P215H	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	215	Cytoplasmic (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GACCAGATCCCTGCAGACATC	0.572													33	94					2.52637e-11	2.8516e-11	0.005524	1	0		A	25264573	A	A	25264573	3	1	191	1	0	0	0	0	1	0	0	0	1123	681	24	5	666	5	ATP12A	13	25264573	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4917996	25264573	89905305	615	96237											
KATNAL1	84056	broad.mit.edu	37	chr13	30782714	30782714	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaccatccatttttcatacTtctccaagtctgcagcagag	11	12	5	13	0	3	1	1	0	2	1	5	1	4	1	3	0	4	2	3	0	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:30782714T>G	uc001uss.2	-	11	1537	c.1436A>C	c.(1435-1437)AAG>ACG	p.K479T	KATNAL1_uc001ust.2_Missense_Mutation_p.K479T	NM_001014380	NP_001014402	Q9BW62	KATL1_HUMAN	katanin p60 subunit A-like 1	479						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity				0		Lung SC(185;0.0257)		all cancers(112;0.114)|OV - Ovarian serous cystadenocarcinoma(117;0.213)		TTTTTCATACTTCTCCAAGTC	0.368													7	121					0	0	0.00308	0	0		G	30782714	G	G	30782714	3	3	191	1	0	0	0	0	1	0	0	0	8001	1609	56	5	40	5	KATNAL1	13	30782714	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	5518141	30782714	84387164	616	96238											
NUFIP1	26747	broad.mit.edu	37	chr13	45533698	45533698	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgtgaatgtctggacatcCccttcatcttgctggagtaa	8	15	9	9	0	3	1	1	1	2	0	4	3	4	3	2	2	1	2	2	2	2	4	rs142430693		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:45533698C>A	uc001uzp.2	-	7	881	c.839G>T	c.(838-840)GGG>GTG	p.G280V		NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	280					box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		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)		TCTGGACATCCCCTTCATCTT	0.378													47	140					1.35964e-18	1.57025e-18	0.01441	1	0		A	45533698	A	A	45533698	3	1	191	1	0	0	0	0	1	0	0	0	10767	623	22	5	664	5	NUFIP1	13	45533698	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	14750984	45533698	69636180	617	96239											
SPERT	220082	broad.mit.edu	37	chr13	46288456	46288456	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctcatcgaggagctctaCgccttcatgccggccaggag	8	8	12	13	3	3	0	2	0	1	0	4	3	3	2	3	3	4	2	3	3	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:46288456C>T	uc001van.1	+	3	1376	c.1296C>T	c.(1294-1296)TAC>TAT	p.Y432Y	SPERT_uc001vao.2_Silent_p.Y396Y	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	432						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		AGGAGCTCTACGCCTTCATGC	0.622													10	30					0	0	0.013537	0	0		T	46288456	T	T	46288456	2	4	191	1	0	0	0	0	0	0	0	1	15064	547	19	1		1	SPERT	13	46288456	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	754758	46288456	68881422	618	96240											
ATP7B	540	broad.mit.edu	37	chr13	52515271	52515271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catctcgtggtctgtcatagCgtcactgacatcgctagaaa	10	11	9	11	3	4	2	2	1	2	1	6	2	4	2	0	1	1	1	0	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:52515271C>T	uc001vfw.2	-	16	3659	c.3502G>A	c.(3502-3504)GCT>ACT	p.A1168T	ATP7B_uc010adv.2_Missense_Mutation_p.A738T|ATP7B_uc001vfx.2_Missense_Mutation_p.A961T|ATP7B_uc001vfy.2_Missense_Mutation_p.A1057T|ATP7B_uc010tgt.1_Missense_Mutation_p.A1103T|ATP7B_uc010tgu.1_Missense_Mutation_p.A1120T|ATP7B_uc010tgv.1_Missense_Mutation_p.A1090T|ATP7B_uc001vfv.2_Missense_Mutation_p.A440T|ATP7B_uc010tgs.1_Missense_Mutation_p.A379T	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	1168	Cytoplasmic (Potential).		A -> S (in WD).		ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		TCTGTCATAGCGTCACTGACA	0.498									Wilson_disease				27	93					0	0	0.004656	0	0		T	52515271	T	T	52515271	3	4	191	1	0	0	0	0	1	0	0	0	1192	768	27	1	919	1	ATP7B	13	52515271	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6226815	52515271	62654607	619	96241											
PCDH8	5100	broad.mit.edu	37	chr13	53418722	53418722	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttcattggctcccttcttCggggacaggtacctgccagg	5	13	11	12	1	2	0	1	0	1	0	4	1	3	1	3	5	2	2	3	5	1	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:53418722C>T	uc001vhi.2	-	3	3389	c.3186G>A	c.(3184-3186)CCG>CCA	p.P1062P	PCDH8_uc001vhj.2_Silent_p.P965P	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	1062	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CTCCCTTCTTCGGGGACAGGT	0.552													23	60					0	0	0.014323	0	0		T	53418722	T	T	53418722	2	4	191	1	0	0	0	0	0	0	0	1	11536	871	31	1		1	PCDH8	13	53418722	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	903451	53418722	61751156	620	96242											
PCDH8	5100	broad.mit.edu	37	chr13	53419757	53419757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctttccaaaacccggggagGcaccgtagggctgcagcagg	9	5	14	13	2	0	0	0	0	0	0	1	1	1	1	4	5	3	5	4	5	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:53419757G>A	uc001vhi.2	-	2	2845	c.2642C>T	c.(2641-2643)GCC>GTC	p.A881V	PCDH8_uc001vhj.2_Missense_Mutation_p.A784V	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	881	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		ACCCGGGGAGGCACCGTAGGG	0.562													15	44					0	0	0.003163	0	0		A	53419757	A	A	53419757	3	1	191	1	0	0	0	0	1	0	0	0	11536	1203	42	2	578	2	PCDH8	13	53419757	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1035	53419757	61750121	621	96243											
DIS3	22894	broad.mit.edu	37	chr13	73335641	73335641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttcttcacttactattcCtttgcttttgaagaataact	9	18	5	9	0	2	2	1	1	1	1	3	2	3	2	1	1	3	2	1	1	5	9			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:73335641C>T	uc001vix.3	-	19	2904	c.2530G>A	c.(2530-2532)GGA>AGA	p.G844R	DIS3_uc001viy.3_Missense_Mutation_p.G814R|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	844					CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		CTTACTATTCCTTTGCTTTTG	0.224										Multiple Myeloma(4;0.011)			26	55					0	0	0.004656	0	0		T	73335641	T	T	73335641	3	4	191	1	0	0	0	0	1	0	0	0	4541	690	24	4	358	4	DIS3	13	73335641	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	19915884	73335641	41834237	622	96244											
CLN5	1203	broad.mit.edu	37	chr13	77570161	77570161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tctccgacctgaaatggatgCccctttctggtgtaatcaag	9	12	9	11	1	3	1	1	1	2	0	4	3	3	2	4	2	1	1	4	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:77570161C>T	uc001vkc.2	+	3	639	c.611C>T	c.(610-612)GCC>GTC	p.A204V		NM_006493	NP_006484	O75503	CLN5_HUMAN	ceroid-lipofuscinosis, neuronal 5	155					brain development|cell death|lysosomal lumen acidification|neuron maturation|protein catabolic process	endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	protein binding			ovary(1)	1		Acute lymphoblastic leukemia(28;0.205)		GBM - Glioblastoma multiforme(99;0.0503)		GAAATGGATGCCCCTTTCTGG	0.418													13	116					0	0	0.013537	0	0		T	77570161	T	T	77570161	3	4	191	1	0	0	0	0	1	0	0	0	3547	739	26	2	621	2	CLN5	13	77570161	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4234520	77570161	37599717	623	96245											
IPO5	3843	broad.mit.edu	37	chr13	98641394	98641394	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaaaatgtgggactgcGggaagctgcccttcacattt	9	11	10	11	1	2	0	2	0	1	0	3	2	2	2	1	2	3	1	1	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:98641394G>T	uc001vnf.1	+	4	508	c.443G>T	c.(442-444)CGG>CTG	p.R148L	IPO5_uc001vne.2_Missense_Mutation_p.R166L|IPO5_uc010tik.1_Intron|IPO5_uc010til.1_Missense_Mutation_p.R88L	NM_002271	NP_002262	O00410	IPO5_HUMAN	importin 5	148					interspecies interaction between organisms|NLS-bearing substrate import into nucleus|ribosomal protein import into nucleus	cytoplasm|nuclear pore|nucleolus	GTPase inhibitor activity|protein transporter activity|Ran GTPase binding			ovary(1)|lung(1)|skin(1)	3						GTGGGACTGCGGGAAGCTGCC	0.378													6	53					2.0095e-06	2.16773e-06	0.001984	1	0		T	98641394	T	T	98641394	3	4	191	1	0	0	0	0	1	0	0	0	7812	1116	39	5	515	5	IPO5	13	98641394	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	21071233	98641394	16528484	624	96246											
ARGLU1	55082	broad.mit.edu	37	chr13	107211856	107211856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaactgcttttccatgatgCgtttggcttcctccaccctt	5	15	7	14	1	0	1	0	1	0	0	3	1	3	1	4	1	3	4	4	1	1	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:107211856C>T	uc001vqk.3	-	2	744	c.497G>A	c.(496-498)CGC>CAC	p.R166H	ARGLU1_uc010age.1_5'UTR	NM_018011	NP_060481	Q9NWB6	ARGL1_HUMAN	arginine and glutamate rich 1	166	Glu-rich.										0	Lung NSC(43;0.015)|all_neural(89;0.0741)|Lung SC(71;0.14)|Medulloblastoma(90;0.169)					TTCCATGATGCGTTTGGCTTC	0.478													46	107					0	0	0.011902	0	0		T	107211856	T	T	107211856	3	4	191	1	0	0	0	0	1	0	0	0	860	768	27	1	336	1	ARGLU1	13	107211856	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	8570462	107211856	7958022	625	96247											
F7	2155	broad.mit.edu	37	chr13	113771897	113771897	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcaagaactggaggaacctGatcgcggtgctgggtgggta	10	8	16	7	2	1	2	1	1	0	1	2	4	1	4	1	5	3	2	1	5	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:113771897G>A	uc001vsv.2	+	8	843	c.792G>A	c.(790-792)CTG>CTA	p.L264L	F7_uc001vsw.2_Silent_p.L242L|F7_uc010tjt.1_Silent_p.L195L	NM_000131	NP_000122	P08709	FA7_HUMAN	coagulation factor VII isoform a precursor	264	Peptidase S1.		L -> P (in FA7D).		anti-apoptosis|blood coagulation, extrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of leukocyte chemotaxis|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of positive chemotaxis|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|glycoprotein binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0364)|all_epithelial(44;0.0393)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0737)|Epithelial(84;0.213)|BRCA - Breast invasive adenocarcinoma(86;0.218)		Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Menadione(DB00170)	GGAGGAACCTGATCGCGGTGC	0.627													28	113					0	0	0.007291	0	0		A	113771897	A	A	113771897	2	1	191	1	0	0	0	0	0	0	0	1	5357	1277	45	4		4	F7	13	113771897	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6560041	113771897	1397981	626	96248											
ADPRHL1	113622	broad.mit.edu	37	chr13	114107633	114107633	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgaggtggtccaggcccccGgaacgttgcagctcctcctg	6	7	13	15	3	0	0	0	0	0	0	3	2	3	1	5	4	3	3	5	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr13:114107633G>T	uc001vtq.1	-	1	207	c.120C>A	c.(118-120)TCC>TCA	p.S40S		NM_138430	NP_612439	Q8NDY3	ARHL1_HUMAN	ADP-ribosylhydrolase like 1 isoform 1	40					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.0195)|GBM - Glioblastoma multiforme(44;0.116)			CCAGGCCCCCGGAACGTTGCA	0.597													5	109					1.6384e-10	1.83047e-10	0.001984	1	0		T	114107633	T	T	114107633	2	4	191	1	0	0	0	0	0	0	0	1	332	1103	39	5		5	ADPRHL1	13	114107633	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	335736	114107633	1062245	627	96249											
OR4K5	79317	broad.mit.edu	37	chr14	20388906	20388906	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaaatcttctcattatcctCacagtgacttctgataccag	11	13	6	11	0	4	2	2	2	3	0	6	3	5	3	2	1	1	0	2	1	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:20388906C>T	uc010tkw.1	+	1	141	c.141C>T	c.(139-141)CTC>CTT	p.L47L		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	47	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TCATTATCCTCACAGTGACTT	0.408													34	220					0	0	0.013726	0	0		T	20388906	T	T	20388906	2	4	191	1	0	0	0	0	0	0	0	1	11092	813	29	4		4	OR4K5	14	20388906	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08		20388906	86960634	628	96250											
FLJ10357	55701	broad.mit.edu	37	chr14	21549815	21549815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggccctggccctggacctgGgcagcccagcagccctgcga	5	4	15	17	1	0	0	0	0	0	0	0	2	0	1	5	4	4	2	5	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:21549815G>A	uc001vzp.2	+	14	2817	c.2788G>A	c.(2788-2790)GGC>AGC	p.G930S	FLJ10357_uc001vzo.1_Missense_Mutation_p.G9S|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Missense_Mutation_p.G216S	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	930					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		CCTGGACCTGGGCAGCCCAGC	0.726													8	17					0	0	0.00308	0	0		A	21549815	A	A	21549815	3	1	191	1	0	0	0	0	1	0	0	0	5940	1232	43	4	2842	4	FLJ10357	14	21549815	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1160909	21549815	85799725	629	96251											
SUPT16H	11198	broad.mit.edu	37	chr14	21826587	21826587	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcatttctcgttccatCtgtagaagaaaaaaatatca	14	13	5	9	1	4	2	2	0	2	2	6	2	5	2	2	0	1	2	2	0	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:21826587C>A	uc001wao.2	-	20	2641	c.2302_splice	c.e20-1	p.M768_splice	SUPT16H_uc001wan.2_5'Flank	NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation						DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		CTCGTTCCATCTGTAGAAGAA	0.348													14	26					1.5842e-08	1.74326e-08	0.001855	1	0		A	21826587	A	A	21826587	5	1	191	1	0	0	0	0	0	0	1	0	15421	927	32	5	870	5	SUPT16H	14	21826587	Splice_Site	SNP	C	TCGA-F1-6874-01A-11D-1882-08	276772	21826587	85522953	630	96252											
SUPT16H	11198	broad.mit.edu	37	chr14	21827659	21827659	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaacctgctcagcatagaggTcatctcggtcatgcatatgc	11	10	9	11	1	4	1	3	0	1	1	5	1	4	1	1	2	5	3	1	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:21827659T>C	uc001wao.2	-	19	2624	c.2285A>G	c.(2284-2286)GAC>GGC	p.D762G	SUPT16H_uc001wan.2_5'Flank	NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	762					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		AGCATAGAGGTCATCTCGGTC	0.448													19	86					0	0	0.010504	0	0		C	21827659	C	C	21827659	3	2	191	1	0	0	0	0	1	0	0	0	15421	1667	58	3	890	3	SUPT16H	14	21827659	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1072	21827659	85521881	631	96253											
OXA1L	5018	broad.mit.edu	37	chr14	23236581	23236581	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tgcggcttccggcccccgcaGcctcagtacctctgctatct	4	10	9	18	3	3	0	1	0	2	0	4	0	4	0	5	2	4	4	5	2	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:23236581G>T	uc001wgn.2	+	2	368	c.368G>T	c.(367-369)AGC>ATC	p.S123I	OXA1L_uc010tnc.1_Missense_Mutation_p.S123I|OXA1L_uc001wgo.2_RNA|OXA1L_uc010akc.2_Missense_Mutation_p.S123I|OXA1L_uc001wgp.2_Missense_Mutation_p.S47I|OXA1L_uc001wgq.2_5'UTR	NM_005015	NP_005006	Q15070	OXA1L_HUMAN	oxidase (cytochrome c) assembly 1-like	63	Mitochondrial intermembrane (Potential).				aerobic respiration|mitochondrial proton-transporting ATP synthase complex assembly|mitochondrial respiratory chain complex I assembly|negative regulation of ATPase activity|negative regulation of oxidoreductase activity|protein insertion into membrane|protein tetramerization	integral to mitochondrial membrane|mitochondrial respiratory chain|protein complex	protein homodimerization activity|ribosome binding			central_nervous_system(1)	1	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.0096)		GGCCCCCGCAGCCTCAGTACC	0.547													24	53					1.66031e-10	1.85305e-10	0.003954	1	0		T	23236581	T	T	23236581	3	4	191	1	0	0	0	0	1	0	0	0	11347	971	34	5	374	5	OXA1L	14	23236581	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1408922	23236581	84112959	632	96254											
CDH24	64403	broad.mit.edu	37	chr14	23518350	23518350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagccgtcaggctggcagcGgcacacactaacagtcactg	11	5	12	13	2	2	1	2	0	0	1	2	1	2	1	1	3	3	3	1	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:23518350G>A	uc001wil.2	-	12	2106	c.1846C>T	c.(1846-1848)CGC>TGC	p.R616C	CDH24_uc001wik.3_RNA|CDH24_uc010akf.2_Missense_Mutation_p.R578C	NM_022478	NP_071923	Q86UP0	CAD24_HUMAN	cadherin-like 24 isoform 1	616	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|cell-cell adhesion|homophilic cell adhesion	cell-cell junction|cell-cell junction|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|delta-catenin binding			central_nervous_system(1)	1	all_cancers(95;3.3e-05)			GBM - Glioblastoma multiforme(265;0.00654)		GGCTGGCAGCGGCACACACTA	0.647													5	7					0	0	0.001168	0	0		A	23518350	A	A	23518350	3	1	191	1	0	0	0	0	1	0	0	0	3112	1116	39	1	621	1	CDH24	14	23518350	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	281769	23518350	83831190	633	96255											
MYH7	4625	broad.mit.edu	37	chr14	23902765	23902765	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatactcggtctcggcagtGactttgccaccctctcgaga	7	10	9	15	3	2	2	0	1	2	1	5	3	2	2	3	2	2	1	3	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:23902765G>A	uc001wjx.2	-	3	283	c.177C>T	c.(175-177)GTC>GTT	p.V59V		NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta	59	Myosin head-like.		V -> I (in CMH1).		adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		TCTCGGCAGTGACTTTGCCAC	0.567													44	89					0	0	0.01441	0	0		A	23902765	A	A	23902765	2	1	191	1	0	0	0	0	0	0	0	1	10057	1277	45	4		4	MYH7	14	23902765	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	384415	23902765	83446775	634	96256											
DCAF11	80344	broad.mit.edu	37	chr14	24588791	24588791	+	Missense_Mutation	SNP	T	G	G	0	1	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	caatgatggctgcctgtatgTctttgaccgagaacagaacc	11	10	10	10	1	1	4	0	2	1	2	1	5	1	4	3	1	3	2	3	1	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:24588791T>G	uc001wlv.2	+	10	1152	c.872T>G	c.(871-873)GTC>GGC	p.V291G	DCAF11_uc001wlw.2_Missense_Mutation_p.V291G|DCAF11_uc001wlz.2_Missense_Mutation_p.V191G|DCAF11_uc001wly.2_Missense_Mutation_p.V247G|DCAF11_uc001wme.2_Missense_Mutation_p.V251G|DCAF11_uc010tny.1_Missense_Mutation_p.V158G|DCAF11_uc001wmd.2_Missense_Mutation_p.V291G|DCAF11_uc001wmc.2_Missense_Mutation_p.V191G|DCAF11_uc001wmb.3_Missense_Mutation_p.V265G|DCAF11_uc001wma.3_Missense_Mutation_p.V291G	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	291	WD 3.					CUL4 RING ubiquitin ligase complex	protein binding				0						TGCCTGTATGTCTTTGACCGA	0.512													61	154					0	0	0.01441	0	0		G	24588791	G	G	24588791	3	3	191	1	0	0	0	0	1	0	0	0	4265	1667	58	5	906	5	DCAF11	14	24588791	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	686026	24588791	82760749	635	96257											
HECTD1	25831	broad.mit.edu	37	chr14	31598602	31598602	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtcaaattttccttctgcGcccatacggtaagagtttga	10	13	9	9	2	2	2	1	1	1	1	3	2	3	2	2	2	2	2	2	2	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:31598602G>A	uc001wrc.1	-	25	4464	c.3975C>T	c.(3973-3975)GGC>GGT	p.G1325G	HECTD1_uc001wrb.1_5'Flank|HECTD1_uc001wrd.1_Intron	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1325	MIB/HERC2.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	metal ion binding|protein binding|ubiquitin-protein ligase activity			ovary(3)|large_intestine(1)|lung(1)	5	Hepatocellular(127;0.0877)|Breast(36;0.176)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.111)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00617)		TTCCTTCTGCGCCCATACGGT	0.512													16	118					0	0	0.004007	0	0		A	31598602	A	A	31598602	2	1	191	1	0	0	0	0	0	0	0	1	7055	1074	38	1		1	HECTD1	14	31598602	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7009811	31598602	75750938	636	96258											
RALGAPA1	253959	broad.mit.edu	37	chr14	36074915	36074915	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaatcttgtgtgtctctcgGctataaaacaaaagattaca	14	12	7	8	1	2	1	0	0	2	1	4	1	2	1	0	1	2	2	0	1	7	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:36074915G>A	uc001wti.2	-	35	5803	c.5412C>T	c.(5410-5412)TGC>TGT	p.C1804C	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Silent_p.C1804C|RALGAPA1_uc010tpv.1_Silent_p.C1817C|RALGAPA1_uc010tpw.1_Silent_p.C1851C	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1804	Minimal domain that binds to TCF3/E12 (By similarity).|Rap-GAP.				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						GTGTCTCTCGGCTATAAAACA	0.323													21	52					0	0	0.010504	0	0		A	36074915	A	A	36074915	2	1	191	1	0	0	0	0	0	0	0	1	13038	1217	42	2		2	RALGAPA1	14	36074915	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4476313	36074915	71274625	637	96259											
PRPF39	55015	broad.mit.edu	37	chr14	45578921	45578921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatgggactcatgaacgaGttgtggttctctttgaaaga	13	12	11	5	1	2	3	1	2	1	1	3	5	2	4	0	2	1	2	0	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:45578921G>A	uc001wvz.3	+	8	1284	c.1114G>A	c.(1114-1116)GTT>ATT	p.V372I	PRPF39_uc001wvy.3_Missense_Mutation_p.V251I|PRPF39_uc010and.2_Missense_Mutation_p.V162I|PRPF39_uc001wwa.1_5'Flank|SNORD127_uc010ane.2_5'Flank	NM_017922	NP_060392	Q86UA1	PRP39_HUMAN	PRP39 pre-mRNA processing factor 39 homolog	372	HAT 6.				mRNA processing|RNA splicing	nucleus	binding			ovary(1)|breast(1)	2						TCATGAACGAGTTGTGGTTCT	0.328													10	18					0	0	0.010729	0	0		A	45578921	A	A	45578921	3	1	191	1	0	0	0	0	1	0	0	0	12591	1029	36	4	1140	4	PRPF39	14	45578921	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	9504006	45578921	61770619	638	96260											
SOS2	6655	broad.mit.edu	37	chr14	50586993	50586993	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaaagtcctgttgattacCttggaatttgaagcatcatg	12	14	9	6	0	1	2	1	2	0	0	2	3	2	3	2	1	2	3	2	1	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:50586993C>A	uc001wxs.3	-	22	3587	c.3489G>T	c.(3487-3489)AAG>AAT	p.K1163N	SOS2_uc010ans.2_Translation_Start_Site|SOS2_uc010tql.1_Missense_Mutation_p.K1130N	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	1163					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TGTTGATTACCTTGGAATTTG	0.358													7	37					0.00198382	0.00206679	0.001984	1	0		A	50586993	A	A	50586993	3	1	191	1	0	0	0	0	1	0	0	0	14962	695	24	5	517	5	SOS2	14	50586993	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5008072	50586993	56762547	639	96261											
DDHD1	80821	broad.mit.edu	37	chr14	53558636	53558636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ataacctctatgaagtctggTaccactacttgatgctgtag	11	13	8	9	0	2	2	0	2	2	0	2	2	2	2	2	1	4	3	2	1	6	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:53558636T>C	uc001xai.2	-	4	1386	c.1156A>G	c.(1156-1158)ACC>GCC	p.T386A	DDHD1_uc001xaj.2_Missense_Mutation_p.T393A|DDHD1_uc001xah.2_Missense_Mutation_p.T386A|DDHD1_uc001xag.2_5'UTR	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	386					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					TGAAGTCTGGTACCACTACTT	0.323													27	52					0	0	0.010818	0	0		C	53558636	C	C	53558636	3	2	191	1	0	0	0	0	1	0	0	0	4329	1638	57	3	1586	3	DDHD1	14	53558636	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2971643	53558636	53790904	640	96262											
FUT8	2530	broad.mit.edu	37	chr14	66200014	66200014	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctggactgcacaatcgatAcacagaaaattcacttcgtg	14	9	8	10	2	1	1	1	0	0	1	3	3	1	2	0	1	3	2	0	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:66200014A>G	uc001xin.2	+	10	2522	c.1325A>G	c.(1324-1326)TAC>TGC	p.Y442C	FUT8_uc001xio.2_Missense_Mutation_p.Y442C|FUT8_uc010tsp.1_Missense_Mutation_p.Y279C|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Missense_Mutation_p.Y442C|FUT8_uc001xiq.2_Missense_Mutation_p.Y313C|FUT8_uc001xis.2_Missense_Mutation_p.Y36C	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	442	Lumenal (Potential).				in utero embryonic development|L-fucose catabolic process|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein glycosylation in Golgi|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	glycoprotein 6-alpha-L-fucosyltransferase activity|SH3 domain binding			ovary(1)	1				all cancers(60;0.00109)|OV - Ovarian serous cystadenocarcinoma(108;0.00242)|BRCA - Breast invasive adenocarcinoma(234;0.0114)		CACAATCGATACACAGAAAAT	0.373													33	57					0	0	0.013726	0	0		G	66200014	G	G	66200014	3	3	191	1	0	0	0	0	1	0	0	0	6124	391	14	3	1454	3	FUT8	14	66200014	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	12641378	66200014	41149526	641	96263											
HEATR4	399671	broad.mit.edu	37	chr14	73973210	73973210	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccgggagaaagcctggcaGgccacaatccggttcttcca	10	7	11	13	2	1	1	0	0	1	1	4	2	4	1	5	4	1	2	5	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:73973210G>T	uc010tub.1	-	10	2269	c.1947C>A	c.(1945-1947)GCC>GCA	p.A649A	HEATR4_uc010tua.1_Silent_p.A602A	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		AAGCCTGGCAGGCCACAATCC	0.498													36	90					4.42602e-33	5.23293e-33	0.00874	1	0		T	73973210	T	T	73973210	2	4	191	1	0	0	0	0	0	0	0	1	7046	987	35	5		5	HEATR4	14	73973210	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7773196	73973210	33376330	642	96264											
KIAA1409	57578	broad.mit.edu	37	chr14	94079256	94079256	+	Frame_Shift_Del	DEL	A	-	-																															tgctcatgaagttcatggccAaggatgaaagcagcgctgag																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:94079256delA	uc001ybv.1	+	25	3486	c.3403delA	c.(3403-3405)AAGfs	p.K1135fs	KIAA1409_uc001ybs.1_Frame_Shift_Del_p.K1113fs	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1290						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		GTTCATGGCCAAGGATGAAAG	0.527													32	55	---	---	---	---						.	-	94079256	-	-	94079256	7	5	191	1	0	1	0	1	0	0	0	0	8246	131	5	0	3431	0	KIAA1409	14	94079256	Frame_Shift_Del	DEL	A	TCGA-F1-6874-01A-11D-1882-08	20106046	94079256	13270284	643	96265											
ATG2B	55102	broad.mit.edu	37	chr14	96752149	96752149	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccggacatctggcctaatTtggtttctcatgccacccag	7	12	9	13	1	2	0	1	0	2	0	3	1	2	1	4	3	2	1	4	3	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:96752149T>A	uc001yfi.2	-	42	6545	c.6180A>T	c.(6178-6180)CAA>CAT	p.Q2060H		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	2060										ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		CTGGCCTAATTTGGTTTCTCA	0.547													4	73					0	0	0.009096	0	0		A	96752149	A	A	96752149	3	1	191	1	0	0	0	0	1	0	0	0	1095	1838	64	5	60	5	ATG2B	14	96752149	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	2672893	96752149	10597391	644	96266											
DEGS2	123099	broad.mit.edu	37	chr14	100615695	100615695	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaccagccctccagacgcgtGggcacgtccacgtccagccc	8	4	10	19	4	0	1	0	0	0	1	3	1	3	1	6	1	3	1	6	1	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:100615695G>T	uc001ygx.2	-	2	523	c.435C>A	c.(433-435)CCC>CCA	p.P145P		NM_206918	NP_996801	Q6QHC5	DEGS2_HUMAN	degenerative spermatocyte homolog 2, lipid	145					fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	sphingosine hydroxylase activity				0		Melanoma(154;0.212)				CCAGACGCGTGGGCACGTCCA	0.672													12	26					5.50884e-06	5.89042e-06	0.013537	1	0		T	100615695	T	T	100615695	2	4	191	1	0	0	0	0	0	0	0	1	4429	1335	47	5		5	DEGS2	14	100615695	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3863546	100615695	6733845	645	96267											
HSP90AA1	3320	broad.mit.edu	37	chr14	102551160	102551160	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatcgatgtacttttccttaAtcttcttcttcttcttcttg	5	22	4	10	1	6	0	0	0	6	0	8	2	7	0	1	0	1	1	1	0	2	10			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:102551160A>G	uc001yku.3	-	5	1029	c.839T>C	c.(838-840)ATT>ACT	p.I280T	HSP90AA1_uc001ykv.3_Missense_Mutation_p.I402T|HSP90AA1_uc001ykw.1_Missense_Mutation_p.I101T|HSP90AA1_uc001ykx.1_Missense_Mutation_p.I269T	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	280					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	cttttccttaatcttcttctt	0.259													3	50					0	0	0.004672	0	0		G	102551160	G	G	102551160	3	3	191	1	0	0	0	0	1	0	0	0	7417	101	4	3	1387	3	HSP90AA1	14	102551160	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1935465	102551160	4798380	646	96268											
TNFAIP2	7127	broad.mit.edu	37	chr14	103598087	103598087	+	Silent	SNP	T	C	C	0	1	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	accctgctccagaacctgcaTgaggacctgaaggtagcggg	10	6	13	12	1	0	3	0	2	0	1	1	4	1	4	4	3	4	3	4	3	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:103598087T>C	uc001ymm.1	+	7	1541	c.1410T>C	c.(1408-1410)CAT>CAC	p.H470H	TNFAIP2_uc010awo.1_Silent_p.H182H|TNFAIP2_uc010txz.1_Silent_p.H139H|TNFAIP2_uc010tya.1_5'Flank	NM_006291	NP_006282	Q03169	TNAP2_HUMAN	tumor necrosis factor, alpha-induced protein 2	470					angiogenesis|cell differentiation	extracellular space				central_nervous_system(1)	1		Melanoma(154;0.155)	Epithelial(46;0.191)			AGAACCTGCATGAGGACCTGA	0.647													8	22					0	0	0.006214	0	0		C	103598087	C	C	103598087	2	2	191	1	0	0	0	0	0	0	0	1	16298	1461	51	3		3	TNFAIP2	14	103598087	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1046927	103598087	3751453	647	96269											
AHNAK2	113146	broad.mit.edu	37	chr14	105418426	105418426	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgggcagagacacctccacaTcaggggctgtgacttccgcc	8	7	12	14	1	1	2	1	1	0	1	3	3	3	2	4	3	0	2	4	3	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr14:105418426T>C	uc010axc.1	-	7	3482	c.3362A>G	c.(3361-3363)GAT>GGT	p.D1121G	AHNAK2_uc001ypx.2_Missense_Mutation_p.D1021G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1121						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CACCTCCACATCAGGGGCTGT	0.652													101	255					0	0	0.01441	0	0		C	105418426	C	C	105418426	3	2	191	1	0	0	0	0	1	0	0	0	415	1435	50	3	14029	3	AHNAK2	14	105418426	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1820339	105418426	1931114	648	96270											
OCA2	4948	broad.mit.edu	37	chr15	28273032	28273032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctacctcagcttggaaagaCggagtcggatgtgcgggctg	8	8	15	10	3	1	1	1	0	0	1	2	4	1	4	2	4	3	2	2	4	2	2	rs151118268		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:28273032C>T	uc001zbh.3	-	4	610	c.500G>A	c.(499-501)CGT>CAT	p.R167H	OCA2_uc010ayv.2_Missense_Mutation_p.R167H	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	167	Cytoplasmic (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CTTGGAAAGACGGAGTCGGAT	0.612									Oculocutaneous_Albinism				15	42					0	0	0.00245	0	0		T	28273032	T	T	28273032	3	4	191	1	0	0	0	0	1	0	0	0	10834	536	19	1	2100	1	OCA2	15	28273032	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08		28273032	74258360	649	96271											
HERC2	8924	broad.mit.edu	37	chr15	28447385	28447385	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagcagccacccgaccaaGgcttccacacctaagagagg	12	4	9	16	1	0	1	0	0	0	1	2	3	2	1	6	2	2	2	6	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:28447385G>T	uc001zbj.2	-	47	7597	c.7491C>A	c.(7489-7491)GCC>GCA	p.A2497A	HERC2_uc001zbk.1_Silent_p.A32A	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2497					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		ACCCGACCAAGGCTTCCACAC	0.582													14	79					1.5739e-10	1.76019e-10	0.004007	1	0		T	28447385	T	T	28447385	2	4	191	1	0	0	0	0	0	0	0	1	7074	987	35	5		5	HERC2	15	28447385	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	174353	28447385	74084007	650	96272											
HERC2	8924	broad.mit.edu	37	chr15	28538093	28538093	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggccctatatataggtgcaGgagtttcttcttcatctttt	7	18	8	8	0	4	0	1	0	3	0	4	1	4	1	1	3	1	2	1	3	4	9			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:28538093G>T	uc001zbj.2	-	4	369	c.263C>A	c.(262-264)CCT>CAT	p.P88H	HERC2_uc001zbl.1_Translation_Start_Site	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	88					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		TATAGGTGCAGGAGTTTCTTC	0.383													19	37					2.94398e-08	3.22983e-08	0.007413	1	0		T	28538093	T	T	28538093	3	4	191	1	0	0	0	0	1	0	0	0	7074	1000	35	5	14601	5	HERC2	15	28538093	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	90708	28538093	73993299	651	96273											
TJP1	7082	broad.mit.edu	37	chr15	29993817	29993817	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agttaaaagtggtcaataagGacagaaacacagtttgctcc	16	9	9	7	0	1	1	1	0	0	1	2	2	2	2	1	2	2	3	1	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:29993817G>A	uc001zcr.2	-	28	5704	c.5229C>T	c.(5227-5229)GTC>GTT	p.V1743V	TJP1_uc010azl.2_Silent_p.V1751V|TJP1_uc001zcq.2_Silent_p.V1687V|TJP1_uc001zcs.2_Silent_p.V1663V	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	1743					cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		GGTCAATAAGGACAGAAACAC	0.348													5	42					0	0	0.000602	0	0		A	29993817	A	A	29993817	2	1	191	1	0	0	0	0	0	0	0	1	15954	1161	41	4		4	TJP1	15	29993817	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1455724	29993817	72537575	652	96274											
SLC12A6	9990	broad.mit.edu	37	chr15	34628841	34628841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcggtgtcaccatgaacCgaactgaagccatcttggtg	9	11	11	10	2	2	2	1	2	1	0	3	3	2	2	3	2	3	0	3	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:34628841C>T	uc001zhw.2	-	1	205	c.41G>A	c.(40-42)CGG>CAG	p.R14Q	SLC12A6_uc001zhx.2_Missense_Mutation_p.R14Q|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Intron|SLC12A6_uc001zib.2_Missense_Mutation_p.R5Q|SLC12A6_uc001zic.2_Missense_Mutation_p.R14Q|SLC12A6_uc010bau.2_Missense_Mutation_p.R14Q|SLC12A6_uc001zid.2_Intron	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	14	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	CACCATGAACCGAACTGAAGC	0.468													32	68					0	0	0.003755	0	0		T	34628841	T	T	34628841	3	4	191	1	0	0	0	0	1	0	0	0	14412	652	23	1	3633	1	SLC12A6	15	34628841	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4635024	34628841	67902551	653	96275											
AQR	9716	broad.mit.edu	37	chr15	35198753	35198753	+	Silent	SNP	A	G	G	1	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	taggtcaccataccatcttcAatgacacgtcctttatcatc	11	13	4	13	1	4	1	3	1	1	0	6	1	5	1	3	1	1	0	3	1	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:35198753A>G	uc001ziv.2	-	18	2005	c.1824T>C	c.(1822-1824)ATT>ATC	p.I608I		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	608						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TACCATCTTCAATGACACGTC	0.378													26	76					0	0	0.010818	0	0		G	35198753	G	G	35198753	2	3	191	1	0	0	0	0	0	0	0	1	835	126	5	3		3	AQR	15	35198753	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	569912	35198753	67332639	654	96276											
FAM82A2	55177	broad.mit.edu	37	chr15	41044241	41044241	+	Missense_Mutation	SNP	A	C	C	1	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	ggctgcttctcagctcctccAcctcccgccgcagcgccaca	5	7	8	21	3	1	0	1	0	1	0	5	0	4	0	6	1	3	4	6	1	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:41044241A>C	uc001zmo.1	-	3	467	c.323T>G	c.(322-324)GTG>GGG	p.V108G	FAM82A2_uc001zmp.1_Missense_Mutation_p.V108G|FAM82A2_uc001zmq.1_Missense_Mutation_p.V108G	NM_018145	NP_060615	Q96TC7	RMD3_HUMAN	family with sequence similarity 82, member A2	108	Potential.				apoptosis|cell differentiation	integral to membrane|microtubule|mitochondrial membrane|nucleus|spindle pole	protein binding				0						CAGCTCCTCCACCTCCCGCCG	0.632													7	51					0	0	0.00245	0	0		C	41044241	C	C	41044241	3	2	191	1	0	0	0	0	1	0	0	0	5645	159	6	5	1133	5	FAM82A2	15	41044241	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	5845488	41044241	61487151	655	96277											
TYRO3	7301	broad.mit.edu	37	chr15	41863254	41863254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggagagtttggttcagtgcGggaggcccagctgaagcaag	10	7	17	7	1	1	2	1	1	0	1	1	4	1	3	1	4	3	4	1	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:41863254G>A	uc001zof.1	+	13	1822	c.1598G>A	c.(1597-1599)CGG>CAG	p.R533Q		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	533	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GGTTCAGTGCGGGAGGCCCAG	0.552													22	252					0	0	0.00333	0	0		A	41863254	A	A	41863254	3	1	191	1	0	0	0	0	1	0	0	0	16840	1116	39	1	1648	1	TYRO3	15	41863254	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	819013	41863254	60668138	656	96278											
MGA	23269	broad.mit.edu	37	chr15	42057187	42057187	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctattctcaggaccagtGgtagctgtttctcctgatct	6	14	8	13	0	3	1	1	1	3	0	5	2	3	2	4	2	1	3	4	2	2	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:42057187G>T	uc010ucy.1	+	23	8029	c.7848G>T	c.(7846-7848)GTG>GTT	p.V2616V	MGA_uc010ucz.1_Silent_p.V2407V	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2577						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CAGGACCAGTGGTAGCTGTTT	0.493													23	223					1.64293e-13	1.86984e-13	0.00333	1	0		T	42057187	T	T	42057187	2	4	191	1	0	0	0	0	0	0	0	1	9558	1335	47	5		5	MGA	15	42057187	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	193933	42057187	60474205	657	96279											
MGA	23269	broad.mit.edu	37	chr15	42059314	42059314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtcagagtctcaaggtgatgCcttgtttggcacctatagct	8	13	11	9	0	2	2	2	1	1	1	3	2	2	2	2	2	2	3	2	2	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:42059314C>T	uc010ucy.1	+	24	9215	c.9034C>T	c.(9034-9036)CCT>TCT	p.P3012S	MGA_uc010ucz.1_Missense_Mutation_p.P2803S	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2973						MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		CAAGGTGATGCCTTGTTTGGC	0.488													36	89					0	0	0.00623	0	0		T	42059314	T	T	42059314	3	4	191	1	0	0	0	0	1	0	0	0	9558	739	26	2	9124	2	MGA	15	42059314	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2127	42059314	60472078	658	96280											
VPS39	23339	broad.mit.edu	37	chr15	42455911	42455911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcgccccaacaggagagctCgttcttctaagaggcctagg	9	8	12	12	2	2	2	0	0	2	2	3	3	2	2	3	3	3	2	3	3	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:42455911C>T	uc001zpd.2	-	21	2226	c.2075G>A	c.(2074-2076)CGA>CAA	p.R692Q	VPS39_uc001zpc.2_Missense_Mutation_p.R681Q|VPS39_uc001zpb.2_Missense_Mutation_p.R27Q	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	692					protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity			ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-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;3.05e-06)		CAGGAGAGCTCGTTCTTCTAA	0.512													10	15					0	0	0.013537	0	0		T	42455911	T	T	42455911	3	4	191	1	0	0	0	0	1	0	0	0	17235	884	31	1	609	1	VPS39	15	42455911	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	396597	42455911	60075481	659	96281											
LCMT2	9836	broad.mit.edu	37	chr15	43621731	43621731	+	Silent	SNP	G	A	A	0	0	1	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	gaggatggaaacactagggtGtgggagagggtgtctcccct	9	8	17	7	0	1	1	0	0	1	1	2	5	1	3	2	5	1	0	2	5	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:43621731G>A	uc001zrg.2	-	1	1161	c.957C>T	c.(955-957)CAC>CAT	p.H319H	LCMT2_uc010udn.1_5'UTR|ADAL_uc001zrh.2_5'Flank|ADAL_uc010udo.1_5'Flank	NM_014793	NP_055608	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	319					tRNA processing		methyltransferase activity|protein binding				0		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)	ACACTAGGGTGTGGGAGAGGG	0.532													26	79					0	0	0.007291	0	0		A	43621731	A	A	43621731	2	1	191	1	0	0	0	0	0	0	0	1	8695	1368	48	4		4	LCMT2	15	43621731	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1165820	43621731	58909661	660	96282											
ADAL	161823	broad.mit.edu	37	chr15	43628015	43628015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacaagggaaagaaaagaaCtttggaagagtaagtgtggg	17	7	15	2	0	0	4	0	1	0	3	0	6	0	6	0	3	1	1	0	3	7	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:43628015C>T	uc010udo.1	+	5	759	c.185C>T	c.(184-186)ACT>ATT	p.T62I	ADAL_uc001zrh.2_Missense_Mutation_p.T62I	NM_001159280	NP_001152752	Q6DHV7	ADAL_HUMAN	adenosine deaminase-like isoform 1	62					adenosine catabolic process|inosine biosynthetic process|purine ribonucleoside monophosphate biosynthetic process		adenosine deaminase activity|metal ion binding				0		all_cancers(109;7.96e-11)|all_epithelial(112;2.96e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;9.31e-07)		AAGAAAAGAACTTTGGAAGAG	0.363													25	67					0	0	0.003954	0	0		T	43628015	T	T	43628015	3	4	191	1	0	0	0	0	1	0	0	0	233	565	20	4	191	4	ADAL	15	43628015	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6284	43628015	58903377	661	96283											
CTDSPL2	51496	broad.mit.edu	37	chr15	44806839	44806839	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcagggaattcctggaacGaatgtctcagatgtatgagg	11	12	12	6	1	2	2	2	1	1	1	4	5	3	4	1	3	1	1	1	3	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:44806839G>A	uc001ztr.2	+	9	1429	c.1013G>A	c.(1012-1014)CGA>CAA	p.R338Q	CTDSPL2_uc001zts.2_Missense_Mutation_p.R338Q|CTDSPL2_uc001ztt.2_Missense_Mutation_p.R338Q|CTDSPL2_uc010bdv.2_Missense_Mutation_p.R266Q	NM_016396	NP_057480	Q05D32	CTSL2_HUMAN	CTD (carboxy-terminal domain, RNA polymerase II,	338	FCP1 homology.						phosphoprotein phosphatase activity				0		all_cancers(109;4.36e-14)|all_epithelial(112;9.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;1.02e-20)|GBM - Glioblastoma multiforme(94;1.49e-06)|COAD - Colon adenocarcinoma(120;0.0857)|Colorectal(105;0.0905)		TTCCTGGAACGAATGTCTCAG	0.299													17	46					0	0	0.006122	0	0		A	44806839	A	A	44806839	3	1	191	1	0	0	0	0	1	0	0	0	4009	1058	37	1	1043	1	CTDSPL2	15	44806839	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1178824	44806839	57724553	662	96284											
SLC12A1	6557	broad.mit.edu	37	chr15	48512844	48512844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aatgcagaatgtggcagtcaCcccaagttcagctgacagag	13	7	11	10	0	2	3	2	1	0	2	2	3	2	3	2	1	2	4	2	1	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:48512844C>T	uc001zwn.3	+	3	650	c.434C>T	c.(433-435)ACC>ATC	p.T145I	SLC12A1_uc010uew.1_5'UTR|SLC12A1_uc010bem.2_Missense_Mutation_p.T145I|SLC12A1_uc010uex.1_Missense_Mutation_p.T145I|SLC12A1_uc001zwq.3_5'Flank	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	145	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	GTGGCAGTCACCCCAAGTTCA	0.398													5	27					0	0	0.000602	0	0		T	48512844	T	T	48512844	3	4	191	1	0	0	0	0	1	0	0	0	14407	507	18	4	440	4	SLC12A1	15	48512844	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3706005	48512844	54018548	663	96285											
FBN1	2200	broad.mit.edu	37	chr15	48704804	48704804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtttcgtttgtgcttctccGtttcctgccccgtttggggt	1	18	11	11	3	1	0	0	0	1	0	4	0	2	0	4	2	2	5	4	2	0	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:48704804G>A	uc001zwx.1	-	65	8516	c.8188C>T	c.(8188-8190)CGG>TGG	p.R2730W	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2730					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		GTGCTTCTCCGTTTCCTGCCC	0.507													41	132					0	0	0.00623	0	0		A	48704804	A	A	48704804	3	1	191	1	0	0	0	0	1	0	0	0	5716	1144	40	1	435	1	FBN1	15	48704804	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	191960	48704804	53826588	664	96286											
DMXL2	23312	broad.mit.edu	37	chr15	51857352	51857352	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcccagttttaagccactgGcacttgagttgctgaaatac	10	12	9	10	0	0	2	0	2	0	0	0	2	0	2	2	1	4	4	2	1	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:51857352G>A	uc002abf.2	-	4	522	c.297C>T	c.(295-297)TGC>TGT	p.C99C	DMXL2_uc010ufy.1_Silent_p.C99C|DMXL2_uc010bfa.2_Silent_p.C99C	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	99						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TAAGCCACTGGCACTTGAGTT	0.294													4	21					0	0	0.000602	0	0		A	51857352	A	A	51857352	2	1	191	1	0	0	0	0	0	0	0	1	4601	1195	42	2		2	DMXL2	15	51857352	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3152548	51857352	50674040	665	96287											
UNC13C	440279	broad.mit.edu	37	chr15	54914546	54914546	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcgttcctccaaagatgccgTgggtcagatatctgttcatg	8	13	10	10	2	3	2	2	0	1	2	6	2	5	2	3	1	1	2	3	1	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:54914546T>C	uc002ack.2	+	29	6128	c.6128T>C	c.(6127-6129)GTG>GCG	p.V2043A	UNC13C_uc002acm.2_5'UTR	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2043					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AAAGATGCCGTGGGTCAGATA	0.413													33	93					0	0	0.004289	0	0		C	54914546	C	C	54914546	3	2	191	1	0	0	0	0	1	0	0	0	17012	1696	59	3	6242	3	UNC13C	15	54914546	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	3057194	54914546	47616846	666	96288											
TLN2	83660	broad.mit.edu	37	chr15	62966048	62966048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaaggaattcctgcccaaaGaatatatcaagcagagagga	17	7	10	7	0	1	3	1	1	0	2	2	6	2	5	2	2	2	1	2	2	7	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:62966048G>A	uc002alb.3	+	7	811	c.811G>A	c.(811-813)GAA>AAA	p.E271K		NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	271	FERM.				cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						CCTGCCCAAAGAATATATCAA	0.358													34	78					0	0	0.004878	0	0		A	62966048	A	A	62966048	3	1	191	1	0	0	0	0	1	0	0	0	15973	943	33	4	837	4	TLN2	15	62966048	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	8051502	62966048	39565344	667	96289											
KBTBD13	390594	broad.mit.edu	37	chr15	65369263	65369263	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcttccgaggcctcttccGctccggcatgcgggagaccc	4	9	11	17	4	2	1	0	0	2	1	5	3	5	1	5	3	1	2	5	3	0	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:65369263G>A	uc010uis.1	+	1	110	c.110G>A	c.(109-111)CGC>CAC	p.R37H	RASL12_uc010uir.1_5'Flank	NM_001101362	NP_001094832	C9JR72	KBTBD_HUMAN	hypothetical protein LOC390594	37	BTB.					cytoplasm					0						GGCCTCTTCCGCTCCGGCATG	0.721													7	9					0	0	0.001984	0	0		A	65369263	A	A	65369263	3	1	191	1	0	0	0	0	1	0	0	0	8008	1087	38	1	112	1	KBTBD13	15	65369263	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2403215	65369263	37162129	668	96290											
NOX5	79400	broad.mit.edu	37	chr15	69335087	69335087	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcagacccactgggccGtggttctaagaggctgtcga	8	8	14	11	2	2	2	1	0	1	2	3	3	2	2	2	4	0	3	2	4	1	2	rs140448769	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:69335087G>A	uc002ars.1	+	10	1609	c.1589G>A	c.(1588-1590)CGT>CAT	p.R530H	NOX5_uc002arp.1_Missense_Mutation_p.R512H|NOX5_uc002arq.1_Missense_Mutation_p.R484H|NOX5_uc010bid.1_Missense_Mutation_p.R495H|NOX5_uc002arr.1_Missense_Mutation_p.R502H|NOX5_uc010bie.1_Missense_Mutation_p.R330H|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	530	FAD-binding FR-type.|Cytoplasmic (Potential).|C-terminal catalytic region.				angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						CCACTGGGCCGTGGTTCTAAG	0.542													14	51					0	0	0.001855	0	0		A	69335087	A	A	69335087	3	1	191	1	0	0	0	0	1	0	0	0	10578	1145	40	1	1660	1	NOX5	15	69335087	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3965824	69335087	33196305	669	96291											
PARP6	56965	broad.mit.edu	37	chr15	72549754	72549754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgtgtagaaggagaaaaCgcatagttcacgagtacaga	16	7	12	6	2	1	3	1	0	0	3	1	5	1	3	0	1	2	4	0	1	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:72549754C>T	uc002auc.2	-	12	1393	c.934G>A	c.(934-936)GTT>ATT	p.V312I	PARP6_uc002aua.2_Missense_Mutation_p.V157I|PARP6_uc002aub.2_RNA|PARP6_uc002aud.3_RNA|PARP6_uc002auf.1_Missense_Mutation_p.V312I	NM_020214	NP_064599	Q2NL67	PARP6_HUMAN	poly (ADP-ribose) polymerase family, member 6	312							NAD+ ADP-ribosyltransferase activity				0						AAGGAGAAAACGCATAGTTCA	0.537													47	144					0	0	0.01441	0	0		T	72549754	T	T	72549754	3	4	191	1	0	0	0	0	1	0	0	0	11483	536	19	1	1006	1	PARP6	15	72549754	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3214667	72549754	29981638	670	96292											
TMEM202	338949	broad.mit.edu	37	chr15	72691037	72691037	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tccaagtgcctcgatgtcatGccaaaggcagcagcagctta	11	8	10	12	1	1	0	1	0	0	0	3	1	2	0	3	1	5	4	3	1	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:72691037G>A	uc002auq.2	+	2	125	c.125G>A	c.(124-126)TGC>TAC	p.C42Y	TMEM202_uc002aur.2_Intron	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	42						integral to membrane				central_nervous_system(1)|skin(1)	2						TCGATGTCATGCCAAAGGCAG	0.522													27	52					0	0	0.00632	0	0		A	72691037	A	A	72691037	3	1	191	1	0	0	0	0	1	0	0	0	16152	1319	46	2	131	2	TMEM202	15	72691037	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	141283	72691037	29840355	671	96293											
GOLGA6B	55889	broad.mit.edu	37	chr15	72956844	72956844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaagcctcgtggctctccCgggagaaggtacaggagacc	9	6	14	12	2	1	2	0	0	1	2	3	4	1	2	3	4	2	3	3	4	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:72956844C>T	uc010uks.1	+	13	1534	c.1493C>T	c.(1492-1494)CCG>CTG	p.P498L	uc002aux.1_5'Flank	NM_018652	NP_061122	A6NDN3	GOG6B_HUMAN	golgi autoantigen, golgin subfamily a, 6B	498	Potential.										0						GTGGCTCTCCCGGGAGAAGGT	0.577													8	12					0	0	0.008291	0	0		T	72956844	T	T	72956844	3	4	191	1	0	0	0	0	1	0	0	0	6573	652	23	1	1543	1	GOLGA6B	15	72956844	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	265807	72956844	29574548	672	96294											
ETFA	2108	broad.mit.edu	37	chr15	76585005	76585005	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgctgagccaccagaacttTtgctatgcctgctactttac	9	13	7	12	0	0	2	0	1	0	1	0	2	0	2	3	0	8	3	3	0	4	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:76585005T>C	uc002bbt.2	-	3	304	c.223A>G	c.(223-225)AAA>GAA	p.K75E	ETFA_uc010bkq.1_Missense_Mutation_p.K26E|ETFA_uc002bbu.1_Missense_Mutation_p.K75E	NM_000126	NP_000117	P13804	ETFA_HUMAN	electron transfer flavoprotein, alpha	75					respiratory electron transport chain|transport	mitochondrial matrix	electron carrier activity|flavin adenine dinucleotide binding|oxidoreductase activity				0						ACCAGAACTTTTGCTATGCCT	0.368													19	53					0	0	0.00278	0	0		C	76585005	C	C	76585005	3	2	191	1	0	0	0	0	1	0	0	0	5277	1850	64	3	818	3	ETFA	15	76585005	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	3628161	76585005	25946387	673	96295											
MEX3B	84206	broad.mit.edu	37	chr15	82335957	82335957	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccaggttggcgttggagggCgcactggcgccacccccggg	4	5	17	15	4	0	0	0	0	0	0	0	1	0	1	4	6	0	3	4	6	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:82335957C>T	uc002bgq.1	-	2	1569	c.1254G>A	c.(1252-1254)GCG>GCA	p.A418A		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	418					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						CGTTGGAGGGCGCACTGGCGC	0.562													4	13					0	0	0.009096	0	0		T	82335957	T	T	82335957	2	4	191	1	0	0	0	0	0	0	0	1	9528	755	27	1		1	MEX3B	15	82335957	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5750952	82335957	20195435	674	96296											
KLHL25	64410	broad.mit.edu	37	chr15	86311599	86311599	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagcggctgtgtaccgccaAggctgggggcactcggcctt	5	7	16	13	3	0	0	0	0	0	0	1	0	0	0	3	5	2	5	3	5	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:86311599A>G	uc002bly.2	-	2	1646	c.1443T>C	c.(1441-1443)CCT>CCC	p.P481P		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	481	Kelch 4.					cytoplasm				ovary(2)	2						TGTACCGCCAAGGCTGGGGGC	0.607													44	103					0	0	0.01441	0	0		G	86311599	G	G	86311599	2	3	191	1	0	0	0	0	0	0	0	1	8396	59	3	3		3	KLHL25	15	86311599	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	3975642	86311599	16219793	675	96297											
POLG	5428	broad.mit.edu	37	chr15	89872190	89872190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaccgctgggcctcttctgGctttcctctgggacttctgg	2	14	11	14	1	5	0	1	0	4	0	6	1	6	1	3	4	0	2	3	4	0	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:89872190G>A	uc002bns.3	-	4	1289	c.1007C>T	c.(1006-1008)GCC>GTC	p.A336V	POLG_uc002bnr.3_Missense_Mutation_p.A336V	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	336					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			GCCTCTTCTGGCTTTCCTCTG	0.632								DNA_polymerases_(catalytic_subunits)					22	48					0	0	0.00278	0	0		A	89872190	A	A	89872190	3	1	191	1	0	0	0	0	1	0	0	0	12219	1203	42	2	2792	2	POLG	15	89872190	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3560591	89872190	12659202	676	96298											
C15orf42	90381	broad.mit.edu	37	chr15	90164625	90164625	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctgtttttgacttgcagaCcaaagagaaaattctccagt	12	13	8	8	0	1	3	0	1	1	2	2	4	1	3	2	0	2	3	2	0	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:90164625C>G	uc002boe.2	+	19	3156	c.3156C>G	c.(3154-3156)GAC>GAG	p.D1052E	C15orf42_uc010upv.1_5'Flank	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1052					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GACTTGCAGACCAAAGAGAAA	0.348													13	36					0	0	0.001855	0	0		G	90164625	G	G	90164625	3	3	191	1	0	0	0	0	1	0	0	0	1799	521	18	5	3230	5	C15orf42	15	90164625	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	292435	90164625	12366767	677	96299											
PRC1	9055	broad.mit.edu	37	chr15	91527282	91527282	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	catgtaactcgctgcacagaGtgttcagctctttctgacag	9	12	9	11	1	3	2	1	1	2	1	4	2	3	2	0	0	3	5	0	0	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:91527282G>A	uc002bqm.2	-	3	390	c.233C>T	c.(232-234)ACT>ATT	p.T78I	PRC1_uc002bqn.2_Missense_Mutation_p.T78I|PRC1_uc002bqo.2_Missense_Mutation_p.T78I|PRC1_uc010uqs.1_Intron|PRC1_uc010uqt.1_Missense_Mutation_p.T26I	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	78	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					GCTGCACAGAGTGTTCAGCTC	0.493													104	280					0	0	0.01441	0	0		A	91527282	A	A	91527282	3	1	191	1	0	0	0	0	1	0	0	0	12468	1029	36	4	1681	4	PRC1	15	91527282	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1362657	91527282	11004110	678	96300											
CHD2	1106	broad.mit.edu	37	chr15	93552395	93552395	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaaggagaggatgaggccCgtgaaaaaggcactgaaaca	16	5	14	6	1	0	4	0	3	0	1	0	6	0	5	1	4	1	2	1	4	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:93552395C>T	uc002bsp.2	+	35	5009	c.4434C>T	c.(4432-4434)CCC>CCT	p.P1478P	CHD2_uc002bso.1_Silent_p.P1478P	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1478					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			GGATGAGGCCCGTGAAAAAGG	0.488													3	24					0	0	0.004672	0	0		T	93552395	T	T	93552395	2	4	191	1	0	0	0	0	0	0	0	1	3328	639	23	1		1	CHD2	15	93552395	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2025113	93552395	8978997	679	96301											
RGMA	56963	broad.mit.edu	37	chr15	93588402	93588402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctccaacgcgtagtaggcGgccagtgtgaagttcacgtc	8	9	12	12	4	1	1	1	1	0	0	4	1	3	1	3	2	1	3	3	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:93588402G>A	uc002bss.1	-	4	1451	c.1179C>T	c.(1177-1179)GCC>GCT	p.A393A	RGMA_uc002bsq.1_Silent_p.A377A|RGMA_uc010boi.1_Silent_p.A284A|RGMA_uc002bsr.1_Silent_p.A284A|RGMA_uc010urc.1_Silent_p.A401A	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor	393					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			CGTAGTAGGCGGCCAGTGTGA	0.607													5	22					0	0	0.001984	0	0		A	93588402	A	A	93588402	2	1	191	1	0	0	0	0	0	0	0	1	13305	1103	39	1		1	RGMA	15	93588402	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	36007	93588402	8942990	680	96302											
RGMA	56963	broad.mit.edu	37	chr15	93588679	93588679	+	Missense_Mutation	SNP	A	G	G	1	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	cccagtcctccacagcattgAccacttcctctggcatgcgg	7	9	8	17	1	1	1	0	1	1	0	4	1	4	1	5	2	2	2	5	2	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:93588679A>G	uc002bss.1	-	4	1174	c.902T>C	c.(901-903)GTC>GCC	p.V301A	RGMA_uc002bsq.1_Missense_Mutation_p.V285A|RGMA_uc010boi.1_Missense_Mutation_p.V192A|RGMA_uc002bsr.1_Missense_Mutation_p.V192A|RGMA_uc010urc.1_Missense_Mutation_p.V309A	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor	301					axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			CACAGCATTGACCACTTCCTC	0.627													8	34					0	0	0.004482	0	0		G	93588679	G	G	93588679	3	3	191	1	0	0	0	0	1	0	0	0	13305	275	10	3	454	3	RGMA	15	93588679	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	277	93588679	8942713	681	96303											
MCTP2	55784	broad.mit.edu	37	chr15	94841688	94841688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaggccttggccccagaggGccggccttactccgggccac	5	6	14	16	2	0	2	0	1	0	1	1	2	1	2	7	5	1	0	7	5	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:94841688G>A	uc002btj.2	+	1	259	c.194G>A	c.(193-195)GGC>GAC	p.G65D	MCTP2_uc010urg.1_Missense_Mutation_p.G65D|MCTP2_uc002bti.2_Missense_Mutation_p.G65D|MCTP2_uc010boj.2_5'UTR|MCTP2_uc010bok.2_Missense_Mutation_p.G65D|MCTP2_uc002btg.3_Missense_Mutation_p.G65D|MCTP2_uc002bth.3_Missense_Mutation_p.G65D	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	65					calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			GCCCCAGAGGGCCGGCCTTAC	0.612													26	71					0	0	0.003954	0	0		A	94841688	A	A	94841688	3	1	191	1	0	0	0	0	1	0	0	0	9419	1203	42	2	196	2	MCTP2	15	94841688	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1253009	94841688	7689704	682	96304											
ARRDC4	91947	broad.mit.edu	37	chr15	98514379	98514379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttgacccacatcctagcGacgtagaagagagccagcct	12	6	11	12	2	0	3	0	1	0	2	1	5	1	3	4	1	3	2	4	1	3	3	rs140102944		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr15:98514379G>A	uc010bom.2	+	8	1378	c.1219G>A	c.(1219-1221)GAC>AAC	p.D407N	ARRDC4_uc002bui.3_Missense_Mutation_p.D320N	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	407					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			ACATCCTAGCGACGTAGAAGA	0.383													53	129					0	0	0.01441	0	0		A	98514379	A	A	98514379	3	1	191	1	0	0	0	0	1	0	0	0	986	1058	37	1	1249	1	ARRDC4	15	98514379	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3672691	98514379	4017013	683	96305											
SOLH	6650	broad.mit.edu	37	chr16	601555	601555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggccgtttctcctggaacGgcagctggtccgacgagtgg	5	8	17	11	4	1	0	0	0	1	0	3	3	2	1	3	6	2	3	3	6	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:601555G>A	uc002chi.2	+	9	2599	c.2236G>A	c.(2236-2238)GGC>AGC	p.G746S	SOLH_uc002chj.2_5'Flank	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	746	Calpain catalytic.				proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				CTCCTGGAACGGCAGCTGGTC	0.667													29	75					0	0	0.00632	0	0		A	601555	A	A	601555	3	1	191	1	0	0	0	0	1	0	0	0	14950	1116	39	1	2258	1	SOLH	16	601555	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08		601555	89753198	684	96306											
CACNA1H	8912	broad.mit.edu	37	chr16	1270167	1270167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataccttcggacagcgctgcGtctccagccggccggcggcc	5	6	13	17	6	1	0	0	0	1	0	3	1	1	1	5	4	4	1	5	4	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:1270167G>A	uc002cks.2	+	35	6483	c.6235G>A	c.(6235-6237)GTC>ATC	p.V2079I	CACNA1H_uc002ckt.2_Missense_Mutation_p.V2073I|CACNA1H_uc002cku.2_Missense_Mutation_p.V774I|CACNA1H_uc010brj.2_Missense_Mutation_p.V790I|CACNA1H_uc002ckv.2_Missense_Mutation_p.V768I	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	2079	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	ACAGCGCTGCGTCTCCAGCCG	0.736													7	19					0	0	0.00308	0	0		A	1270167	A	A	1270167	3	1	191	1	0	0	0	0	1	0	0	0	2548	1145	40	1	6369	1	CACNA1H	16	1270167	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	668612	1270167	89084586	685	96307											
ZNF598	90850	broad.mit.edu	37	chr16	2050159	2050159	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggcagcgccaaccccacaGggcccggggttgctgcagtg	7	4	15	15	3	0	0	0	0	0	0	0	0	0	0	4	4	4	4	4	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:2050159G>T	uc002cof.1	-	11	1406	c.1391C>A	c.(1390-1392)CCT>CAT	p.P464H	ZNF598_uc002coe.1_Translation_Start_Site	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	464						intracellular	zinc ion binding			lung(1)|breast(1)	2						CAACCCCACAGGGCCCGGGGT	0.682													25	58					5.35356e-11	6.01795e-11	0.00278	1	0		T	2050159	T	T	2050159	3	4	191	1	0	0	0	0	1	0	0	0	18053	1000	35	5	1339	5	ZNF598	16	2050159	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	779992	2050159	88304594	686	96308											
TSC2	7249	broad.mit.edu	37	chr16	2106227	2106227	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgtgcgtccggaccgcGtcctctgtggacatagaggt	5	10	14	12	4	1	1	0	0	1	1	3	3	3	3	3	3	2	1	3	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:2106227G>A	uc002con.2	+	7	736	c.630G>A	c.(628-630)GCG>GCA	p.A210A	TSC2_uc010bsd.2_Silent_p.A210A|TSC2_uc002coo.2_Silent_p.A210A|TSC2_uc010uvv.1_Silent_p.A173A|TSC2_uc010uvw.1_Silent_p.A161A|TSC2_uc002cop.2_Silent_p.A10A	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	210	Required for interaction with TSC1.			A -> V (in Ref. 9; AAI50301).	cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				TCCGGACCGCGTCCTCTGTGG	0.532			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				19	53					0	0	0.00278	0	0		A	2106227	A	A	2106227	2	1	191	1	0	0	0	0	0	0	0	1	16632	1132	40	1		1	TSC2	16	2106227	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	56068	2106227	88248526	687	96309											
RAB26	25837	broad.mit.edu	37	chr16	2203418	2203418	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggcctcctgctgccgccCttgaacctggctgagctcag	5	8	13	15	1	1	2	1	2	0	0	2	2	2	2	5	3	4	3	5	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:2203418C>A	uc002cou.2	+	9	901	c.767C>A	c.(766-768)CCT>CAT	p.P256H	RAB26_uc010bsf.2_Missense_Mutation_p.P190H|TRAF7_uc002cow.2_5'Flank	NM_014353	NP_055168	Q9ULW5	RAB26_HUMAN	RAB26, member RAS oncogene family	256					exocrine system development|protein transport|regulation of exocytosis|small GTPase mediated signal transduction	intrinsic to plasma membrane	GTP binding|protein binding				0						TGCTGCCGCCCTTGAACCTGG	0.627													15	29					1.15088e-07	1.25509e-07	0.004007	1	0		A	2203418	A	A	2203418	3	1	191	1	0	0	0	0	1	0	0	0	12938	681	24	5	801	5	RAB26	16	2203418	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	97191	2203418	88151335	688	96310											
PKMYT1	9088	broad.mit.edu	37	chr16	3023060	3023060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatgtcacttaggtccaggGcatccctgggaggagagagt	9	9	15	8	0	1	2	1	1	0	1	3	5	3	4	2	4	0	1	2	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:3023060G>A	uc002csn.2	-	9	1837	c.1394C>T	c.(1393-1395)GCC>GTC	p.A465V	PAQR4_uc002csj.3_3'UTR|PAQR4_uc002csk.3_3'UTR|PAQR4_uc002csl.3_3'UTR|PAQR4_uc010uwm.1_3'UTR|PKMYT1_uc010uwn.1_RNA|PKMYT1_uc002csm.2_Missense_Mutation_p.P478S|PKMYT1_uc002cso.2_Missense_Mutation_p.A396V|PKMYT1_uc002csp.2_Missense_Mutation_p.A456V|PKMYT1_uc002csq.2_Missense_Mutation_p.A456V	NM_004203	NP_004194	Q99640	PMYT1_HUMAN	protein kinase Myt1 isoform 1	465	Interaction with CDC2-CCNB1.|Interaction with PIN1.				G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis	endoplasmic reticulum membrane|Golgi membrane|membrane fraction|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1						TAGGTCCAGGGCATCCCTGGG	0.612													14	35					0	0	0.00245	0	0		A	3023060	A	A	3023060	3	1	191	1	0	0	0	0	1	0	0	0	11997	1203	42	2	109	2	PKMYT1	16	3023060	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	819642	3023060	87331693	689	96311											
CLDN9	9080	broad.mit.edu	37	chr16	3063922	3063922	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctctgctgcacgtgccccCcgccccaggtcgagcggccc	3	6	11	21	4	1	0	0	0	1	0	3	1	2	0	7	2	4	2	7	2	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:3063922C>A	uc010uwo.1	+	1	1466	c.559C>A	c.(559-561)CCG>ACG	p.P187T		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	187	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CACGTGCCCCCCGCCCCAGGT	0.721													26	63					4.87955e-14	5.58245e-14	0.005443	1	0		A	3063922	A	A	3063922	3	1	191	1	0	0	0	0	1	0	0	0	3495	623	22	5	561	5	CLDN9	16	3063922	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	40862	3063922	87290831	690	96312											
CREBBP	1387	broad.mit.edu	37	chr16	3820836	3820836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcatcccaggtggtgtcGtgtgctggagagatggcatg	7	10	17	7	1	1	1	1	0	0	1	3	4	2	2	1	4	1	2	1	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:3820836G>A	uc002cvv.2	-	14	2819	c.2615C>T	c.(2614-2616)ACG>ATG	p.T872M	CREBBP_uc002cvw.2_Missense_Mutation_p.T834M	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	872					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AGGTGGTGTCGTGTGCTGGAG	0.637			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				27	65					0	0	0.005443	0	0		A	3820836	A	A	3820836	3	1	191	1	0	0	0	0	1	0	0	0	3864	1145	40	1	4785	1	CREBBP	16	3820836	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	756914	3820836	86533917	691	96313											
ROGDI	79641	broad.mit.edu	37	chr16	4847715	4847715	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgctcggcccgggcccacCttgtccttgagctgctggca	3	8	14	16	3	0	1	0	1	0	0	2	1	1	1	4	4	2	4	4	4	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:4847715C>A	uc002cxv.2	-	10	924	c.822G>T	c.(820-822)AAG>AAT	p.K274N	ROGDI_uc002cxu.2_Missense_Mutation_p.K184N|ROGDI_uc010bua.2_RNA|ROGDI_uc002cxw.2_Missense_Mutation_p.K184N	NM_024589	NP_078865	Q9GZN7	ROGDI_HUMAN	leucine zipper domain protein	274						intracellular				ovary(1)|skin(1)	2						CCGGGCCCACCTTGTCCTTGA	0.627													42	108					4.75955e-12	5.38891e-12	0.01441	1	0		A	4847715	A	A	4847715	3	1	191	1	0	0	0	0	1	0	0	0	13545	695	24	5	49	5	ROGDI	16	4847715	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1026879	4847715	85507038	692	96314											
UBN1	29855	broad.mit.edu	37	chr16	4925334	4925334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctccaggcggtccaaacGgagattccagtggtgggacc	8	6	13	14	2	0	1	0	0	0	1	3	3	3	2	6	5	1	0	6	5	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:4925334G>A	uc002cyb.2	+	15	3262	c.2923G>A	c.(2923-2925)GGA>AGA	p.G975R	UBN1_uc010uxw.1_Missense_Mutation_p.G975R|UBN1_uc002cyc.2_Missense_Mutation_p.G975R	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	975	Ser-rich.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						CGGTCCAAACGGAGATTCCAG	0.577													42	73					0	0	0.013114	0	0		A	4925334	A	A	4925334	3	1	191	1	0	0	0	0	1	0	0	0	16918	1117	39	1	2977	1	UBN1	16	4925334	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	77619	4925334	85429419	693	96315											
USP7	7874	broad.mit.edu	37	chr16	8999108	8999108	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtcgaacagacaggtcGtcatcgtgacccccataatt	11	9	9	12	3	1	2	1	1	0	1	4	3	1	2	2	1	1	0	2	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:8999108G>A	uc002czl.2	-	14	1708	c.1509C>T	c.(1507-1509)GAC>GAT	p.D503D	USP7_uc010uyk.1_Silent_p.D404D|USP7_uc002czj.2_RNA|USP7_uc010uyj.1_Silent_p.D404D|USP7_uc002czk.2_Silent_p.D487D|USP7_uc010uyl.1_RNA	NM_003470	NP_003461	Q93009	UBP7_HUMAN	ubiquitin specific peptidase 7	503					interspecies interaction between organisms|multicellular organismal development|protein deubiquitination|regulation of sequence-specific DNA binding transcription factor activity|ubiquitin-dependent protein catabolic process	cytoplasm|PML body	cysteine-type endopeptidase activity|p53 binding|protein C-terminus binding|transcription factor binding|ubiquitin protein ligase binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)	3						CAGACAGGTCGTCATCGTGAC	0.423											OREG0023595	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	76					0	0	0.011902	0	0		A	8999108	A	A	8999108	2	1	191	1	0	0	0	0	0	0	0	1	17114	1136	40	1		1	USP7	16	8999108	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4073774	8999108	81355645	694	96316											
CIITA	4261	broad.mit.edu	37	chr16	11000900	11000900	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcacagcacgtgcggaccGgcaccggcggagccctgctc	6	4	14	17	5	0	0	0	0	0	0	1	2	0	2	3	4	5	4	3	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:11000900G>A	uc002dai.3	+	11	1684	c.1551G>A	c.(1549-1551)CCG>CCA	p.P517P	CIITA_uc002daj.3_Silent_p.P518P|CIITA_uc002dak.3_Intron|CIITA_uc002dag.2_Silent_p.P517P|CIITA_uc002dah.2_Silent_p.P469P|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	517	NACHT.				interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CGTGCGGACCGGCACCGGCGG	0.662			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								21	66					0	0	0.012319	0	0		A	11000900	A	A	11000900	2	1	191	1	0	0	0	0	0	0	0	1	3431	1103	39	1		1	CIITA	16	11000900	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2001792	11000900	79353853	695	96317											
KIAA0430	9665	broad.mit.edu	37	chr16	15718923	15718923	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acccccgagtttttcggcgtCgacactgcagcacttgagtt	7	11	10	13	4	0	1	0	1	0	0	2	3	0	1	2	1	2	4	2	1	0	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:15718923C>T	uc002ddr.2	-	9	2254	c.2061G>A	c.(2059-2061)TCG>TCA	p.S687S	KIAA0430_uc002ddq.2_Silent_p.S543S|KIAA0430_uc010uzv.1_Silent_p.S683S|KIAA0430_uc010uzw.1_Silent_p.S685S	NM_014647	NP_055462	Q9Y4F3	LKAP_HUMAN	limkain b1	686						peroxisome	nucleotide binding|RNA binding				0						TTTTCGGCGTCGACACTGCAG	0.498													42	97					0	0	0.011902	0	0		T	15718923	T	T	15718923	2	4	191	1	0	0	0	0	0	0	0	1	8193	871	31	1		1	KIAA0430	16	15718923	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4718023	15718923	74635830	696	96318											
C16orf63	123811	broad.mit.edu	37	chr16	15967449	15967449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggatgccatccttagttccaCgcaagaaatgggctaaaatc	13	9	9	10	1	0	1	0	0	0	1	3	2	2	2	3	2	1	3	3	2	5	3	rs149912065	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:15967449C>T	uc002dec.1	-	4	352	c.347G>A	c.(346-348)CGT>CAT	p.R116H	C16orf63_uc002ded.1_Intron	NM_144600	NP_653201	Q96NB1	FOPNL_HUMAN	hypothetical protein LOC123811	116					cilium assembly|microtubule anchoring	centriolar satellite|microtubule basal body|motile cilium	identical protein binding				0						CTTAGTTCCACGCAAGAAATG	0.408													14	56					0	0	0.004007	0	0		T	15967449	T	T	15967449	3	4	191	1	0	0	0	0	1	0	0	0	1829	536	19	1	185	1	C16orf63	16	15967449	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	248526	15967449	74387304	697	96319											
TMC7	79905	broad.mit.edu	37	chr16	19020719	19020719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaattatgcactgaacatctCtgagaagcggagactaaggt	15	9	10	7	1	1	3	0	2	1	2	2	5	1	3	0	2	3	1	0	2	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:19020719C>A	uc002dfq.2	+	2	423	c.293C>A	c.(292-294)TCT>TAT	p.S98Y	TMC7_uc010vao.1_Missense_Mutation_p.S98Y|TMC7_uc002dfp.2_Missense_Mutation_p.S98Y|TMC7_uc010vap.1_Translation_Start_Site	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	98	Extracellular (Potential).					integral to membrane				skin(2)|ovary(1)	3						CTGAACATCTCTGAGAAGCGG	0.468													59	114					2.40885e-21	2.81761e-21	0.01441	1	0		A	19020719	A	A	19020719	3	1	191	1	0	0	0	0	1	0	0	0	16015	913	32	5	299	5	TMC7	16	19020719	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3053270	19020719	71334034	698	96320											
ITPRIPL2	162073	broad.mit.edu	37	chr16	19126435	19126435	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcaaggcaccaccctcaccaTcgggggcctcggggggccac	7	4	13	17	2	2	0	2	0	0	0	4	0	2	0	5	6	0	1	5	6	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:19126435T>C	uc002dfu.3	+	1	1182	c.652T>C	c.(652-654)TCG>CCG	p.S218P	ITPRIPL2_uc002dft.2_5'UTR	NM_001034841	NP_001030013	Q3MIP1	IPIL2_HUMAN	inositol 1,4,5-triphosphate receptor interacting	218	Cytoplasmic (Potential).					integral to membrane				skin(2)	2						ACCCTCACCATCGGGGGCCTC	0.692											OREG0023657	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	52					0	0	0.004656	0	0		C	19126435	C	C	19126435	3	2	191	1	0	0	0	0	1	0	0	0	7941	1435	50	3	654	3	ITPRIPL2	16	19126435	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	105716	19126435	71228318	699	96321											
DNAH3	55567	broad.mit.edu	37	chr16	20990740	20990740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcttgctattcaggagcGtcttgaaggttagaatcaat	10	13	10	8	1	4	2	2	1	2	1	4	3	4	3	1	2	2	2	1	2	5	5	rs145375625	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:20990740G>A	uc010vbe.1	-	50	7988	c.7988C>T	c.(7987-7989)ACG>ATG	p.T2663M	DNAH3_uc010vbd.1_Missense_Mutation_p.T98M	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2663	Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		ATTCAGGAGCGTCTTGAAGGT	0.483													32	79					0	0	0.012213	0	0		A	20990740	A	A	20990740	3	1	191	1	0	0	0	0	1	0	0	0	4609	1145	40	1	4413	1	DNAH3	16	20990740	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1864305	20990740	69364013	700	96322											
DNAH3	55567	broad.mit.edu	37	chr16	21136501	21136501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtccctgacttactttgtGtatcatgaaaagggaaacga	13	11	10	7	1	1	2	1	2	0	0	2	4	2	3	1	2	2	1	1	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:21136501G>A	uc010vbe.1	-	9	1399	c.1399C>T	c.(1399-1401)CAC>TAC	p.H467Y	DNAH3_uc002die.2_Missense_Mutation_p.H438Y	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	467	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CTTACTTTGTGTATCATGAAA	0.468													33	71					0	0	0.013726	0	0		A	21136501	A	A	21136501	3	1	191	1	0	0	0	0	1	0	0	0	4609	1377	48	4	11166	4	DNAH3	16	21136501	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	145761	21136501	69218252	701	96323											
VWA3A	146177	broad.mit.edu	37	chr16	22166968	22166968	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaggccagaagcttcctctgGcaggcccaatccttcaggta	10	8	10	13	0	2	1	1	0	1	1	4	1	4	1	4	4	1	3	4	4	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:22166968G>A	uc010vbq.1	+	32	3582	c.3486G>A	c.(3484-3486)TGG>TGA	p.W1162*	VWA3A_uc010bxd.2_RNA|VWA3A_uc002dkg.3_Nonsense_Mutation_p.W240*|VWA3A_uc010bxe.1_Nonsense_Mutation_p.W264*	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	1162						extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		GCTTCCTCTGGCAGGCCCAAT	0.572													42	109					0	0	0.00874	0	0		A	22166968	A	A	22166968	4	1	191	1	0	0	0	0	0	1	0	0	17266	1212	42	2	3612	2	VWA3A	16	22166968	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1030467	22166968	68187785	702	96324											
TNRC6A	27327	broad.mit.edu	37	chr16	24802194	24802194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacatcacctagaggggaacGaaagactgacaatgggacag	17	4	12	8	1	1	3	1	1	0	2	1	6	1	5	1	3	2	0	1	3	5	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:24802194G>A	uc002dmm.2	+	6	2345	c.2231G>A	c.(2230-2232)CGA>CAA	p.R744Q	TNRC6A_uc010bxs.2_Missense_Mutation_p.R491Q|TNRC6A_uc010vcc.1_Missense_Mutation_p.R491Q|TNRC6A_uc002dmn.2_Missense_Mutation_p.R491Q|TNRC6A_uc002dmo.2_Missense_Mutation_p.R491Q	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	744	Sufficient for interaction with EIF2C2.|Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		AGAGGGGAACGAAAGACTGAC	0.478													23	49					0	0	0.014323	0	0		A	24802194	A	A	24802194	3	1	191	1	0	0	0	0	1	0	0	0	16365	1058	37	1	2253	1	TNRC6A	16	24802194	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2635226	24802194	65552559	703	96325											
GTF3C1	2975	broad.mit.edu	37	chr16	27540000	27540000	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttggctagcccggcgttcaGcatatactggtacagacgct	8	10	11	12	3	1	1	1	0	0	1	1	1	1	1	1	3	4	5	1	3	4	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:27540000G>C	uc002dov.1	-	6	932	c.892C>G	c.(892-894)CTG>GTG	p.L298V	GTF3C1_uc002dou.2_Missense_Mutation_p.L298V	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	298						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						CCGGCGTTCAGCATATACTGG	0.468													48	121					0	0	0.01441	0	0		C	27540000	C	C	27540000	3	2	191	1	0	0	0	0	1	0	0	0	6888	962	34	5	5565	5	GTF3C1	16	27540000	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2737806	27540000	62814753	704	96326											
CD19	930	broad.mit.edu	37	chr16	28948647	28948647	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgacagtgaggaggactcCgagttctatgagaacgactc	11	8	12	10	2	1	3	0	3	1	1	3	8	2	5	2	2	1	1	2	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:28948647C>T	uc002drs.2	+	9	1316	c.1254C>T	c.(1252-1254)TCC>TCT	p.S418S	uc010vct.1_Intron|CD19_uc010byo.1_Silent_p.S418S	NM_001770	NP_001761	P15391	CD19_HUMAN	CD19 antigen precursor	418	Cytoplasmic (Potential).				cellular defense response	external side of plasma membrane|integral to plasma membrane	protein binding|receptor signaling protein activity			ovary(2)|central_nervous_system(1)	3						AGGAGGACTCCGAGTTCTATG	0.637													16	30					0	0	0.00499	0	0		T	28948647	T	T	28948647	2	4	191	1	0	0	0	0	0	0	0	1	2976	639	23	1		1	CD19	16	28948647	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1408647	28948647	61406106	705	96327											
TAOK2	9344	broad.mit.edu	37	chr16	29990825	29990825	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggggataacctgcatcgaGctgggtaagaacatcctccc	10	9	11	11	1	0	1	0	0	0	1	3	3	2	2	3	3	4	3	3	3	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:29990825G>C	uc002dva.1	+	8	1434	c.651G>C	c.(649-651)GAG>GAC	p.E217D	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.E217D|TAOK2_uc002dvc.1_Missense_Mutation_p.E217D|TAOK2_uc010bzm.1_Missense_Mutation_p.E217D|TAOK2_uc002dvd.1_5'Flank	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	217	Protein kinase.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CCTGCATCGAGCTGGGTAAGA	0.547													7	14					0	0	0.001984	0	0		C	29990825	C	C	29990825	3	2	191	1	0	0	0	0	1	0	0	0	15573	962	34	5	677	5	TAOK2	16	29990825	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1042178	29990825	60363928	706	96328											
HIRIP3	8479	broad.mit.edu	37	chr16	30005879	30005879	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gttctgcctcgctctcctcaCtttcttccctggcctgcttc	1	16	6	18	1	4	0	1	0	3	0	8	0	5	0	4	1	2	3	4	1	0	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:30005879C>T	uc002dve.2	-	4	1048	c.587G>A	c.(586-588)AGT>AAT	p.S196N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|INO80E_uc002dvg.1_5'Flank|INO80E_uc002dvh.1_5'Flank|INO80E_uc002dvi.1_5'Flank|INO80E_uc002dvj.1_5'Flank|INO80E_uc002dvk.1_5'Flank|HIRIP3_uc002dvf.2_Intron	NM_003609	NP_003600	Q9BW71	HIRP3_HUMAN	HIRA interacting protein 3	196	Glu-rich.				chromatin assembly or disassembly	nucleus	protein binding			central_nervous_system(1)	1						GCTCTCCTCACTTTCTTCCCT	0.512													110	262					0	0	0.01441	0	0		T	30005879	T	T	30005879	3	4	191	1	0	0	0	0	1	0	0	0	7137	565	20	4	1099	4	HIRIP3	16	30005879	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	15054	30005879	60348874	707	96329											
SRCAP	10847	broad.mit.edu	37	chr16	30748452	30748452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagaggaggaggaggggcCgggggctggggatgagagtt	9	4	23	5	1	0	2	0	1	0	2	0	7	0	6	2	9	0	2	2	9	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:30748452C>T	uc002dze.1	+	34	7476	c.7091C>T	c.(7090-7092)CCG>CTG	p.P2364L	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.P2159L	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2364					interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)			GAGGAGGGGCCGGGGGCTGGG	0.632													19	45					0	0	0.008871	0	0		T	30748452	T	T	30748452	3	4	191	1	0	0	0	0	1	0	0	0	15160	652	23	1	7217	1	SRCAP	16	30748452	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	742573	30748452	59606301	708	96330											
PHKG2	5261	broad.mit.edu	37	chr16	30762482	30762482	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gagctactggccacgagtttGcggtgaagattatggaagtg	10	10	15	6	2	0	2	0	1	0	1	0	5	0	3	1	3	3	2	1	3	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:30762482G>A	uc002dzk.1	+	3	244	c.151G>A	c.(151-153)GCG>ACG	p.A51T	PHKG2_uc002dzi.1_Missense_Mutation_p.A51T|PHKG2_uc002dzj.1_5'UTR|PHKG2_uc002dzl.1_Missense_Mutation_p.A51T	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	51	Protein kinase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			CCACGAGTTTGCGGTGAAGAT	0.582													18	60					0	0	0.008871	0	0		A	30762482	A	A	30762482	3	1	191	1	0	0	0	0	1	0	0	0	11866	1319	46	2	157	2	PHKG2	16	30762482	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	14030	30762482	59592271	709	96331											
SETD1A	9739	broad.mit.edu	37	chr16	30976142	30976142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctcgtcctctcagtttcGtagttctgatgcaaactacc	7	14	6	14	2	2	1	1	1	2	0	7	1	4	1	3	0	3	4	3	0	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:30976142G>A	uc002ead.1	+	7	1765	c.1079G>A	c.(1078-1080)CGT>CAT	p.R360H		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	360	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						tcTCAGTTTCGTAGTTCTGAT	0.383													77	183					0	0	0.01441	0	0		A	30976142	A	A	30976142	3	1	191	1	0	0	0	0	1	0	0	0	14155	1145	40	1	1101	1	SETD1A	16	30976142	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	213660	30976142	59378611	710	96332											
HSD3B7	80270	broad.mit.edu	37	chr16	30998233	30998233	+	Missense_Mutation	SNP	A	G	G	1	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	acggtgaaggccaccagatcAtgagggacttctaccgccag	11	6	12	12	2	2	3	1	2	1	1	2	4	2	4	4	3	1	0	4	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:30998233A>G	uc002eaf.2	+	6	710	c.604A>G	c.(604-606)ATG>GTG	p.M202V	HSD3B7_uc010cac.2_Intron|HSD3B7_uc002eag.2_Intron|HSD3B7_uc002eah.2_Missense_Mutation_p.M202V	NM_025193	NP_079469	Q9H2F3	3BHS7_HUMAN	hydroxy-delta-5-steroid dehydrogenase, 3 beta-	202					bile acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|cholest-5-ene-3-beta,7-alpha-diol 3-beta-dehydrogenase activity				0						CCACCAGATCATGAGGGACTT	0.657													4	61					0	0	0.009096	0	0		G	30998233	G	G	30998233	3	3	191	1	0	0	0	0	1	0	0	0	7408	217	8	3	622	3	HSD3B7	16	30998233	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	22091	30998233	59356520	711	96333											
ABCC12	94160	broad.mit.edu	37	chr16	48180287	48180287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgcaaaggatctccgccGgcctcgctggtccagatctg	6	10	11	14	3	3	1	0	0	3	1	6	2	4	2	4	3	1	2	4	3	1	1	rs41280929		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:48180287G>A	uc002efc.1	-	1	395	c.49C>T	c.(49-51)CGG>TGG	p.R17W	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.R17W|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	17						integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				GATCTCCGCCGGCCTCGCTGG	0.572													28	66					0	0	0.005443	0	0		A	48180287	A	A	48180287	3	1	191	1	0	0	0	0	1	0	0	0	52	1115	39	1	4146	1	ABCC12	16	48180287	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	17182054	48180287	42174466	712	96334											
ZNF423	23090	broad.mit.edu	37	chr16	49669949	49669949	+	Silent	SNP	A	G	G	1	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	ttctgcatgtggaaggtgccAtggatcttgagctcaagcgt	8	12	13	8	1	3	1	1	1	2	0	3	3	3	3	1	3	4	2	1	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:49669949A>G	uc002efs.2	-	5	3412	c.3114T>C	c.(3112-3114)CAT>CAC	p.H1038H	ZNF423_uc010vgn.1_Silent_p.H921H	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1038	C2H2-type 24.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GGAAGGTGCCATGGATCTTGA	0.617													7	17					0	0	0.001984	0	0		G	49669949	G	G	49669949	2	3	191	1	0	0	0	0	0	0	0	1	17923	214	8	3		3	ZNF423	16	49669949	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1489662	49669949	40684804	713	96335											
CHD9	80205	broad.mit.edu	37	chr16	53358288	53358288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggattaccaaatctgttGggcatgggaggactcctgac	9	10	13	9	0	1	1	0	1	1	0	2	4	2	4	2	4	1	3	2	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:53358288G>T	uc002ehb.2	+	38	8339	c.8175G>T	c.(8173-8175)TTG>TTT	p.L2725F	CHD9_uc002egy.2_Missense_Mutation_p.L2709F|CHD9_uc002ehc.2_Missense_Mutation_p.L2710F|CHD9_uc002ehf.2_Missense_Mutation_p.L1823F|CHD9_uc010cbw.2_Missense_Mutation_p.L791F	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2725	LXXLL motif 4.				cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				CAAATCTGTTGGGCATGGGAG	0.493													23	59					9.57634e-11	1.07318e-10	0.00333	1	0		T	53358288	T	T	53358288	3	4	191	1	0	0	0	0	1	0	0	0	3335	1339	47	5	8277	5	CHD9	16	53358288	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3688339	53358288	36996465	714	96336											
SLC12A3	6559	broad.mit.edu	37	chr16	56924230	56924230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtgtgtcatgaggatgcGggagggactcaacgtgtcca	8	9	16	8	3	2	1	2	1	0	0	3	4	3	4	1	3	2	0	1	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:56924230G>A	uc010ccm.2	+	19	2359	c.2330G>A	c.(2329-2331)CGG>CAG	p.R777Q	SLC12A3_uc002ekd.3_Missense_Mutation_p.R777Q|SLC12A3_uc010ccn.2_Missense_Mutation_p.R776Q	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	777	Cytoplasmic (Potential).				sodium ion transmembrane transport	apical plasma membrane|integral to plasma membrane|membrane fraction	sodium:chloride symporter activity			ovary(2)|breast(1)	3					Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Metolazone(DB00524)|Polythiazide(DB01324)|Quinethazone(DB01325)	ATGAGGATGCGGGAGGGACTC	0.517													22	47					0	0	0.003954	0	0		A	56924230	A	A	56924230	3	1	191	1	0	0	0	0	1	0	0	0	14409	1116	39	1	2404	1	SLC12A3	16	56924230	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3565942	56924230	33430523	715	96337											
GPR114	221188	broad.mit.edu	37	chr16	57604383	57604383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcaagagctcggtatacGgaccctgcacaatccccgtc	9	8	9	15	3	1	1	1	0	0	1	4	2	2	2	3	2	3	3	3	2	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:57604383G>A	uc002elx.3	+	10	1229	c.1144G>A	c.(1144-1146)GGA>AGA	p.G382R	GPR114_uc010vhr.1_Intron|GPR114_uc002ely.2_Missense_Mutation_p.G382R	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	382	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						CTCGGTATACGGACCCTGCAC	0.622													15	46					0	0	0.003163	0	0		A	57604383	A	A	57604383	3	1	191	1	0	0	0	0	1	0	0	0	6646	1117	39	1	1178	1	GPR114	16	57604383	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	680153	57604383	32750370	716	96338											
GPR97	222487	broad.mit.edu	37	chr16	57718088	57718088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcttcaacacctacttcGggcactacttcctgaagctg	8	11	9	13	1	2	1	1	1	1	0	4	1	3	1	2	2	4	2	2	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:57718088G>A	uc002emh.2	+	9	1229	c.1126G>A	c.(1126-1128)GGG>AGG	p.G376R	GPR97_uc010vhv.1_Missense_Mutation_p.G256R|GPR97_uc010cdd.2_Intron|GPR97_uc010cde.2_Intron	NM_170776	NP_740746	Q86Y34	GPR97_HUMAN	G protein-coupled receptor 97 precursor	376	Helical; Name=4; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1						CACCTACTTCGGGCACTACTT	0.582													29	105					0	0	0.012213	0	0		A	57718088	A	A	57718088	3	1	191	1	0	0	0	0	1	0	0	0	6736	1116	39	1	1160	1	GPR97	16	57718088	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	113705	57718088	32636665	717	96339											
CES2	8824	broad.mit.edu	37	chr16	66974389	66974389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggctacctggaccaagtgGctgcactacgctgggtccag	7	7	15	12	1	0	0	0	0	0	0	1	1	1	1	3	5	3	4	3	5	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:66974389G>A	uc002eqr.2	+	5	1799	c.799G>A	c.(799-801)GCT>ACT	p.A267T	CES2_uc002eqq.2_Missense_Mutation_p.A267T|CES2_uc002eqs.2_Missense_Mutation_p.A110T	NM_003869	NP_003860	O00748	EST2_HUMAN	carboxylesterase 2 isoform 1	203					catabolic process	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0663)|Epithelial(162;0.166)		GGACCAAGTGGCTGCACTACG	0.607													19	40					0	0	0.006122	0	0		A	66974389	A	A	66974389	3	1	191	1	0	0	0	0	1	0	0	0	3273	1203	42	2	817	2	CES2	16	66974389	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	9256301	66974389	23380364	718	96340											
B3GNT9	84752	broad.mit.edu	37	chr16	67183798	67183798	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttaaaaaaggtgtcgtcGaaggcccagagcaggatgtc	13	7	14	7	2	0	1	0	0	0	1	3	3	0	2	1	4	1	2	1	4	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:67183798G>A	uc002erf.2	-	2	912	c.591C>T	c.(589-591)TTC>TTT	p.F197F	uc002erg.1_Silent_p.S67S	NM_033309	NP_171608	Q6UX72	B3GN9_HUMAN	UDP-GlcNAc:betaGal	197	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity				0						AGGTGTCGTCGAAGGCCCAGA	0.637													6	10					0	0	0.001984	0	0		A	67183798	A	A	67183798	2	1	191	1	0	0	0	0	0	0	0	1	1265	1049	37	1		1	B3GNT9	16	67183798	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	209409	67183798	23170955	719	96341											
CDH3	1001	broad.mit.edu	37	chr16	68714935	68714935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggggacggctccaccaccaCggcagtggcagtagtggaga	9	5	16	11	2	0	1	0	0	0	1	1	3	1	2	3	6	0	4	3	6	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:68714935C>T	uc002ewf.2	+	8	2064	c.932C>T	c.(931-933)ACG>ATG	p.T311M	CDH3_uc010vli.1_Missense_Mutation_p.T256M	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	311	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		TCCACCACCACGGCAGTGGCA	0.547													20	71					0	0	0.010504	0	0		T	68714935	T	T	68714935	3	4	191	1	0	0	0	0	1	0	0	0	3114	536	19	1	962	1	CDH3	16	68714935	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1531137	68714935	21639818	720	96342											
CDH1	999	broad.mit.edu	37	chr16	68847398	68847398	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcattttgaaaacagcaaaGgtttgtatggtacctggcaa	13	11	11	6	0	0	1	0	1	0	0	0	1	0	1	1	4	3	6	1	4	6	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:68847398G>T	uc002ewg.1	+	9	1444	c.1320G>T	c.(1318-1320)AAG>AAT	p.K440N	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Intron	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	440	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.Y380_K440del(5)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		AAACAGCAAAGGTTTGTATGG	0.458			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				104	252					1.24258e-46	1.47389e-46	0.01441	1	0		T	68847398	T	T	68847398	3	4	191	1	0	0	0	0	1	0	0	0	3098	1014	35	5	1354	5	CDH1	16	68847398	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	132463	68847398	21507355	721	96343											
HYDIN	54768	broad.mit.edu	37	chr16	70867810	70867810	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgcacccacatcgcctgtGttcatcatgaggatgcgacg	8	10	10	13	3	2	1	2	1	0	0	3	3	2	2	2	1	2	2	2	1	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:70867810G>A	uc002ezr.2	-	79	13784	c.13656C>T	c.(13654-13656)AAC>AAT	p.N4552N	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4553										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CATCGCCTGTGTTCATCATGA	0.582													15	27					0	0	0.003163	0	0		A	70867810	A	A	70867810	2	1	191	1	0	0	0	0	0	0	0	1	7483	1368	48	4		4	HYDIN	16	70867810	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2020412	70867810	19486943	722	96344											
FA2H	79152	broad.mit.edu	37	chr16	74752999	74752999	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtactcgatgaggctccagaGgaatgtccccagcatgaaga	12	7	12	10	1	0	4	0	2	0	2	3	6	2	5	3	2	2	3	3	2	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:74752999G>T	uc002fde.1	-	5	741	c.673C>A	c.(673-675)CTC>ATC	p.L225I	FA2H_uc002fdd.1_5'Flank|FA2H_uc010vmy.1_RNA	NM_024306	NP_077282	Q7L5A8	FA2H_HUMAN	fatty acid 2-hydroxylase	225	Helical; (Potential).				cell death|electron transport chain|fatty acid biosynthetic process|sphingolipid metabolic process|transport	endoplasmic reticulum membrane|integral to membrane|microsome	heme binding|oxidoreductase activity				0						AGGCTCCAGAGGAATGTCCCC	0.592													21	48					1.50039e-11	1.69704e-11	0.012319	1	0		T	74752999	T	T	74752999	3	4	191	1	0	0	0	0	1	0	0	0	5363	1000	35	5	457	5	FA2H	16	74752999	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3885189	74752999	15601754	723	96345											
CHST5	23563	broad.mit.edu	37	chr16	75563882	75563882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggacaggtttcggctctgtGgcatgtaggcatcaaacacg	9	9	13	10	3	2	0	1	0	1	0	3	1	2	1	0	5	1	5	0	5	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:75563882G>A	uc002fei.2	-	3	1796	c.401C>T	c.(400-402)CCA>CTA	p.P134L	CHST5_uc002fej.1_Missense_Mutation_p.P140L	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	134	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						TCGGCTCTGTGGCATGTAGGC	0.632													29	73					0	0	0.007291	0	0		A	75563882	A	A	75563882	3	1	191	1	0	0	0	0	1	0	0	0	3410	1348	47	4	838	4	CHST5	16	75563882	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	810883	75563882	14790871	724	96346											
CHST5	23563	broad.mit.edu	37	chr16	75563934	75563934	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaaagatagagcgcatcaGgtcgcgcacggccatgtgca	13	5	12	11	4	1	2	1	0	0	2	2	2	1	2	1	2	2	3	1	2	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:75563934G>A	uc002fei.2	-	3	1744	c.349C>T	c.(349-351)CTG>TTG	p.L117L	CHST5_uc002fej.1_Silent_p.L123L	NM_024533	NP_078809	Q9GZS9	CHST5_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	117	Lumenal (Potential).				N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GAGCGCATCAGGTCGCGCACG	0.617													22	59					0	0	0.014323	0	0		A	75563934	A	A	75563934	2	1	191	1	0	0	0	0	0	0	0	1	3410	991	35	4		4	CHST5	16	75563934	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	52	75563934	14790819	725	96347											
MON1B	22879	broad.mit.edu	37	chr16	77227571	77227571	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggcaagcccatctactcGcggtatggtagtgtggaggc	7	9	15	10	2	1	0	0	0	1	0	2	1	1	1	1	5	2	4	1	5	4	3	rs151075634		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:77227571G>A	uc002fez.2	+	3	702	c.372G>A	c.(370-372)TCG>TCA	p.S124S	MON1B_uc010vnf.1_Intron|MON1B_uc010vng.1_Intron|MON1B_uc002ffa.2_5'Flank	NM_014940	NP_055755	Q7L1V2	MON1B_HUMAN	MON1 homolog B	124							protein binding				0						CCATCTACTCGCGGTATGGTA	0.617													11	94					0	0	0.013537	0	0		A	77227571	A	A	77227571	2	1	191	1	0	0	0	0	0	0	0	1	9717	1074	38	1		1	MON1B	16	77227571	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1663637	77227571	13127182	726	96348											
C16orf7	9605	broad.mit.edu	37	chr16	89783151	89783151	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccaccaagcttggcggcCgtcgactgggccctctccag	6	6	12	17	3	1	0	0	0	1	0	3	2	1	0	5	3	1	1	5	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr16:89783151C>T	uc002fom.1	-	3	380	c.255G>A	c.(253-255)ACG>ACA	p.T85T	C16orf7_uc002fol.1_Silent_p.T15T|uc002fon.1_RNA|uc002foo.1_Intron	NM_004913	NP_004904	Q9Y2B5	CP007_HUMAN	chromosome 16 open reading frame 7	85					ATP synthesis coupled proton transport		GTPase activator activity|transporter activity				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GCTTGGCGGCCGTCGACTGGG	0.652													7	32					0	0	0.00308	0	0		T	89783151	T	T	89783151	2	4	191	1	0	0	0	0	0	0	0	1	1831	639	23	1		1	C16orf7	16	89783151	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	12555580	89783151	571602	727	96349											
GEMIN4	50628	broad.mit.edu	37	chr17	650231	650231	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tctggctgaaggaagtcagaCtgtcgcacagccggtagctg	9	8	14	10	2	2	2	1	1	1	1	3	3	2	3	1	3	2	4	1	3	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:650231C>T	uc002frs.1	-	2	1171	c.1052G>A	c.(1051-1053)AGT>AAT	p.S351N	GEMIN4_uc010vqa.1_3'UTR	NM_015721	NP_056536	P57678	GEMI4_HUMAN	gemin 4	351					rRNA processing|spliceosomal snRNP assembly	Cajal body|cytosol|nucleolus|small nuclear ribonucleoprotein complex|spliceosomal complex	protein binding			ovary(2)|kidney(1)|skin(1)	4		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.022)		GGAAGTCAGACTGTCGCACAG	0.637													8	124					0	0	0.00308	0	0		T	650231	T	T	650231	3	4	191	1	0	0	0	0	1	0	0	0	6345	565	20	4	2128	4	GEMIN4	17	650231	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08		650231	80544979	728	96350											
SMYD4	114826	broad.mit.edu	37	chr17	1704002	1704002	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgatggatgatgaggcattgGaaagttgttcattctcctcc	9	13	11	8	1	2	2	1	2	1	0	4	5	3	4	2	3	0	3	2	3	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:1704002G>T	uc002ftm.3	-	5	854	c.686C>A	c.(685-687)TCC>TAC	p.S229Y	SMYD4_uc002ftn.1_Missense_Mutation_p.S84Y	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	229							zinc ion binding			skin(3)|kidney(2)	5						TGAGGCATTGGAAAGTTGTTC	0.498													53	143					2.5401e-28	2.99671e-28	0.01441	1	0		T	1704002	T	T	1704002	3	4	191	1	0	0	0	0	1	0	0	0	14849	1174	41	5	1756	5	SMYD4	17	1704002	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1053771	1704002	79491208	729	96351											
METT10D	79066	broad.mit.edu	37	chr17	2323543	2323543	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaacctccacccctcccttTtcctcactcctttcatcctc	7	13	0	21	0	2	0	2	0	0	0	8	0	7	0	8	0	1	0	8	0	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:2323543T>C	uc002fut.2	-	10	1558	c.1410A>G	c.(1408-1410)GAA>GAG	p.E470E	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Intron|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_Silent_p.E252E	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	470							methyltransferase activity				0						CCCCTCCCTTTTCCTCACTCC	0.622													6	251					0	0	0.00308	0	0		C	2323543	C	C	2323543	2	2	191	1	0	0	0	0	0	0	0	1	9508	1838	64	3		3	METT10D	17	2323543	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	619541	2323543	78871667	730	96352											
RABEP1	9135	broad.mit.edu	37	chr17	5284683	5284683	+	Splice_Site	DEL	G	-	-																															ttcaaaacttgtattttttaGgctaccgttgaacaactaat																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:5284683delG	uc002gbm.3	+	17	2595	c.2371_splice	c.e17-1	p.A791_splice	RABEP1_uc010vsw.1_Splice_Site_p.A748_splice|RABEP1_uc002gbl.3_Splice_Site_p.A758_splice|NUP88_uc002gbn.2_Intron	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1						apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						GTATTTTTTAGGCTACCGTTG	0.383													36	30	---	---	---	---						.	-	5284683	-	-	5284683	8	5	191	1	0	1	0	1	0	0	1	0	12986	1014	35	0	2436	0	RABEP1	17	5284683	Splice_Site	DEL	G	TCGA-F1-6874-01A-11D-1882-08	2961140	5284683	75910527	731	96353											
MED31	51003	broad.mit.edu	37	chr17	6547901	6547901	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgttcatcaataaatttCgcacactgagcattcaccag	12	12	6	11	1	3	1	3	1	0	0	4	1	3	1	1	0	2	4	1	0	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:6547901C>T	uc002gdg.3	-	4	388	c.282G>A	c.(280-282)GCG>GCA	p.A94A	MED31_uc002gdh.3_RNA	NM_016060	NP_057144	Q9Y3C7	MED31_HUMAN	mediator of RNA polymerase II transcription,	94					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mediator complex	protein binding				0						CAATAAATTTCGCACACTGAG	0.458													62	42					0	0	0.01441	0	0		T	6547901	T	T	6547901	2	4	191	1	0	0	0	0	0	0	0	1	9467	871	31	1		1	MED31	17	6547901	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1263218	6547901	74647309	732	96354											
AMAC1L3	643664	broad.mit.edu	37	chr17	7385797	7385797	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtgtggactgttgggcaGcatcctaggactaatcatca	9	11	12	9	0	2	0	2	0	0	0	3	2	3	2	1	4	1	3	1	4	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:7385797G>T	uc010cmj.1	+	2	609	c.494G>T	c.(493-495)AGC>ATC	p.S165I	ZBTB4_uc002ghc.3_5'Flank|ZBTB4_uc002ghd.3_Intron|POLR2A_uc002ghe.2_5'Flank|POLR2A_uc002ghf.3_5'Flank	NM_001102614	NP_001096084	P0C7Q6	AMCL3_HUMAN	acyl-malonyl condensing enzyme 1-like 3	165	DUF6 1.|Helical; (Potential).					integral to membrane					0		Prostate(122;0.173)				CTGTTGGGCAGCATCCTAGGA	0.587													7	322					1.06961e-07	1.16763e-07	0.00308	1	0		T	7385797	T	T	7385797	3	4	191	1	0	0	0	0	1	0	0	0	561	971	34	5	500	5	AMAC1L3	17	7385797	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	837896	7385797	73809413	733	96355											
POLR2A	5430	broad.mit.edu	37	chr17	7399844	7399844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtctacgacctttgcaaggGcaaaaacatatgcgagggtg	12	9	12	8	2	1	0	0	0	1	0	1	2	1	0	1	2	4	2	1	2	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:7399844G>A	uc002ghf.3	+	4	683	c.449G>A	c.(448-450)GGC>GAC	p.G150D	POLR2A_uc002ghe.2_Missense_Mutation_p.G150D	NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	150					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				CTTTGCAAGGGCAAAAACATA	0.537													4	188					0	0	0.009096	0	0		A	7399844	A	A	7399844	3	1	191	1	0	0	0	0	1	0	0	0	12233	1203	42	2	463	2	POLR2A	17	7399844	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	14047	7399844	73795366	734	96356											
CD68	968	broad.mit.edu	37	chr17	7483329	7483329	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cactcacaaccccaccaccaCcagccatggaaacgtcacag	14	3	5	19	1	2	0	2	0	0	0	2	1	2	1	6	1	3	0	6	1	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:7483329C>G	uc002ghv.2	+	2	442	c.251C>G	c.(250-252)ACC>AGC	p.T84S	CD68_uc002ghu.2_Missense_Mutation_p.T57S	NM_001251	NP_001242	P34810	CD68_HUMAN	CD68 antigen isoform A	84	Mucin-like.|Extracellular (Potential).|1.|2 X 30 AA tandem repeats.					endosome membrane|integral to membrane|lysosomal membrane|membrane fraction|plasma membrane					0						cccaccaccaccaGCCATGGA	0.328													38	25					0	0	0.004289	0	0		G	7483329	G	G	7483329	3	3	191	1	0	0	0	0	1	0	0	0	3033	507	18	5	257	5	CD68	17	7483329	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	83485	7483329	73711881	735	96357											
TP53	7157	broad.mit.edu	37	chr17	7579348	7579348	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttggctgtcccagaatgcaaGaagcccagacggaaaccgta	13	6	11	11	2	0	3	0	0	0	3	1	4	1	4	3	2	3	3	3	2	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:7579348G>C	uc002gim.2	-	4	533	c.339C>G	c.(337-339)TTC>TTG	p.F113L	TP53_uc002gig.1_Missense_Mutation_p.F113L|TP53_uc002gih.2_Missense_Mutation_p.F113L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.F113L|TP53_uc010cni.1_Missense_Mutation_p.F113L|TP53_uc002gij.2_Missense_Mutation_p.F113L|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.F74L|TP53_uc010cnk.1_Missense_Mutation_p.F128L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	113	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).		F -> L (in sporadic cancers; somatic mutation).|F -> C (in sporadic cancers; somatic mutation).|F -> V (in sporadic cancers; somatic mutation).|F -> G (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|F -> S (in sporadic cancers; somatic mutation).|F -> I (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.F113C(8)|p.0?(7)|p.F113S(4)|p.F113V(4)|p.F113L(3)|p.G59fs*23(3)|p.F113del(2)|p.V73fs*9(1)|p.G105_T125del21(1)|p.G112_V122delGFLHSGTAKSV(1)|p.G112fs*9(1)|p.Y107fs*44(1)|p.G112_S116delGFLHS(1)|p.P13fs*18(1)|p.S33fs*23(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGAATGCAAGAAGCCCAGAC	0.602		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			57	36					0	0	0.01441	0	0		C	7579348	C	C	7579348	3	2	191	1	0	0	0	0	1	0	0	0	16407	933	33	5	963	5	TP53	17	7579348	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	96019	7579348	73615862	736	96358											
AURKB	9212	broad.mit.edu	37	chr17	8108691	8108691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggggcaggtagtccagggtgCcacacattgtcttcctcctg	6	10	13	12	0	1	0	0	0	1	0	4	0	4	0	4	4	1	2	4	4	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:8108691C>T	uc002gkm.2	-	8	765	c.704G>A	c.(703-705)GGC>GAC	p.G235D	AURKB_uc010cnu.2_Missense_Mutation_p.G55D|AURKB_uc002gkn.2_Missense_Mutation_p.G236D|AURKB_uc010vuu.1_Missense_Mutation_p.G194D|AURKB_uc002gko.2_RNA	NM_004217	NP_004208	Q96GD4	AURKB_HUMAN	aurora kinase B	235	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|mitotic prometaphase|protein localization to kinetochore	chromosome passenger complex|condensed nuclear chromosome, centromeric region|cytosol|spindle	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(1)|central_nervous_system(1)	4						GTCCAGGGTGCCACACATTGT	0.577													33	85					0	0	0.006999	0	0		T	8108691	T	T	8108691	3	4	191	1	0	0	0	0	1	0	0	0	1224	739	26	2	338	2	AURKB	17	8108691	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	529343	8108691	73086519	737	96359											
WDR16	146845	broad.mit.edu	37	chr17	9546391	9546391	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	ttataatgagggtgaagtgaCtcacgttggggtgggacaca	11	10	15	5	1	1	3	1	3	0	0	1	4	1	4	0	4	0	1	0	4	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:9546391C>G	uc002gly.2	+	14	1808	c.1739C>G	c.(1738-1740)ACT>AGT	p.T580S	USP43_uc002gma.3_5'Flank|USP43_uc010cod.2_5'Flank|USP43_uc010vva.1_5'Flank|WDR16_uc002glz.2_Missense_Mutation_p.T512S|WDR16_uc010coc.2_Missense_Mutation_p.T590S	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	580	WD 10.					cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GGTGAAGTGACTCACGTTGGG	0.443													3	64					0	0	0.004672	0	0		G	9546391	G	G	9546391	3	3	191	1	0	0	0	0	1	0	0	0	17302	565	20	5	1793	5	WDR16	17	9546391	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1437700	9546391	71648819	738	96360											
GAS7	8522	broad.mit.edu	37	chr17	9828811	9828811	+	Missense_Mutation	SNP	T	C	C	0	1	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	accagcctgtgtggactttcTccgcgccttcttgatgtcct	4	14	9	14	2	2	1	0	1	2	0	4	2	3	2	5	1	1	0	5	1	0	3	rs145454710		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:9828811T>C	uc002gmg.1	-	11	1281	c.1120A>G	c.(1120-1122)AGA>GGA	p.R374G	GAS7_uc010vvc.1_Missense_Mutation_p.R188G|GAS7_uc002gmh.1_Missense_Mutation_p.R234G|GAS7_uc010vvd.1_Missense_Mutation_p.R326G|GAS7_uc002gmi.2_Missense_Mutation_p.R310G|GAS7_uc002gmj.1_Missense_Mutation_p.R314G|GAS7_uc010coh.1_Missense_Mutation_p.R314G	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	374	Potential.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						GTGGACTTTCTCCGCGCCTTC	0.597			T	MLL	AML*						OREG0024170	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	99	106					0	0	0.01441	0	0		C	9828811	C	C	9828811	3	2	191	1	0	0	0	0	1	0	0	0	6265	1559	54	3	326	3	GAS7	17	9828811	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	282420	9828811	71366399	739	96361											
MYH2	4620	broad.mit.edu	37	chr17	10436629	10436629	+	Missense_Mutation	SNP	A	G	G	1	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	ccaccatcctctggtactccActcttgccaagaaccctctg	8	10	5	18	0	3	1	0	0	3	1	5	1	5	1	6	1	3	1	6	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:10436629A>G	uc010coi.2	-	21	2542	c.2414T>C	c.(2413-2415)GTG>GCG	p.V805A	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.V805A|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	805	IQ.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTGGTACTCCACTCTTGCCAA	0.458													11	110					0	0	0.010729	0	0		G	10436629	G	G	10436629	3	3	191	1	0	0	0	0	1	0	0	0	10053	159	6	3	3491	3	MYH2	17	10436629	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	607818	10436629	70758581	740	96362											
MYOCD	93649	broad.mit.edu	37	chr17	12626278	12626278	+	Frame_Shift_Del	DEL	A	-	-																															agggccactggagctggtggAaaaaaacattcttcctgtgg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:12626278delA	uc002gnn.2	+	5	667	c.368delA	c.(367-369)GAAfs	p.E123fs	MYOCD_uc002gno.2_Frame_Shift_Del_p.E123fs|MYOCD_uc002gnp.1_Frame_Shift_Del_p.E27fs	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	123	RPEL 3.				cardiac muscle cell differentiation|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|positive regulation of smooth muscle cell differentiation|positive regulation of smooth muscle contraction|positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation|regulation of histone acetylation|smooth muscle cell differentiation	nucleus	nucleic acid binding|RNA polymerase II transcription factor binding transcription factor activity|transcription factor binding			central_nervous_system(2)|skin(2)|ovary(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.0969)		GAGCTGGTGGAAAAAAACATT	0.468													101	104	---	---	---	---						.	-	12626278	-	-	12626278	7	5	191	1	0	1	0	1	0	0	0	0	10105	246	9	0	386	0	MYOCD	17	12626278	Frame_Shift_Del	DEL	A	TCGA-F1-6874-01A-11D-1882-08	2189649	12626278	68568932	741	96363											
MYO15A	51168	broad.mit.edu	37	chr17	18034842	18034842	+	Silent	SNP	T	C	C	0	1	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	gagaaatccaggatcgtgttTcaggtgggccaccccctccc	8	8	11	14	1	1	1	1	0	0	1	4	3	3	2	5	3	0	1	5	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:18034842T>C	uc010vxh.1	+	9	4541	c.4203T>C	c.(4201-4203)TTT>TTC	p.F1401F		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1401	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					GGATCGTGTTTCAGGTGGGCC	0.612													6	31					0	0	0.001168	0	0		C	18034842	C	C	18034842	2	2	191	1	0	0	0	0	0	0	0	1	10081	1780	62	3		3	MYO15A	17	18034842	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	5408564	18034842	63160368	742	96364											
LLGL1	3996	broad.mit.edu	37	chr17	18144927	18144927	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacctgggtgacgtccacGtcttctcggtgcctggcctg	4	10	12	15	3	2	1	0	1	2	0	4	1	3	1	5	3	2	0	5	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:18144927G>A	uc002gsp.2	+	18	2726	c.2665G>A	c.(2665-2667)GTC>ATC	p.V889I		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	889	WD 13.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					TGACGTCCACGTCTTCTCGGT	0.637													33	20					0	0	0.012213	0	0		A	18144927	A	A	18144927	3	1	191	1	0	0	0	0	1	0	0	0	8850	1145	40	1	2735	1	LLGL1	17	18144927	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	110085	18144927	63050283	743	96365											
SLC13A2	9058	broad.mit.edu	37	chr17	26817589	26817589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctccgtgtcctcctcatcGttggggtgcggcctgccccg	1	10	12	18	4	1	0	1	0	0	0	5	0	4	0	7	3	2	1	7	3	0	1	rs11568463		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:26817589G>A	uc002hbh.2	+	3	416	c.349G>A	c.(349-351)GTT>ATT	p.V117I	SLC13A2_uc010wal.1_Missense_Mutation_p.V74I|SLC13A2_uc010wam.1_Missense_Mutation_p.V73I|SLC13A2_uc010wan.1_Missense_Mutation_p.V166I|SLC13A2_uc010wao.1_Missense_Mutation_p.V74I|SLC13A2_uc002hbi.2_Missense_Mutation_p.V46I	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	117	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	CCTCCTCATCGTTGGGGTGCG	0.607													36	56					0	0	0.004878	0	0		A	26817589	A	A	26817589	3	1	191	1	0	0	0	0	1	0	0	0	14417	1145	40	1	506	1	SLC13A2	17	26817589	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	8672662	26817589	54377621	744	96366											
FOXN1	8456	broad.mit.edu	37	chr17	26861463	26861463	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagggctgcctgtgggccCtcaatccggccaagatcgac	8	6	13	14	2	1	1	1	0	0	1	3	2	2	1	4	3	1	2	4	3	3	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:26861463C>A	uc010crm.2	+	7	1240	c.1042C>A	c.(1042-1044)CTC>ATC	p.L348I	FOXN1_uc002hbj.2_Missense_Mutation_p.L348I	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	348	Fork-head.				defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	Lung NSC(42;0.00431)					CCTGTGGGCCCTCAATCCGGC	0.537													22	48					9.57634e-11	1.07318e-10	0.00333	1	0		A	26861463	A	A	26861463	3	1	191	1	0	0	0	0	1	0	0	0	6033	681	24	5	1064	5	FOXN1	17	26861463	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	43874	26861463	54333747	745	96367											
RASL10B	91608	broad.mit.edu	37	chr17	34062267	34062267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggcaagagtgccatcgtgCgccagttcttgtacaacgag	9	9	13	10	3	1	1	0	0	1	1	2	2	1	1	2	1	4	3	2	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:34062267C>T	uc002hju.2	+	2	430	c.64C>T	c.(64-66)CGC>TGC	p.R22C		NM_033315	NP_201572	Q96S79	RSLAB_HUMAN	RAS-like, family 10, member B precursor	22	Small GTPase-like.				small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			lung(2)|breast(2)	4				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TGCCATCGTGCGCCAGTTCTT	0.672													15	30					0	0	0.00499	0	0		T	34062267	T	T	34062267	3	4	191	1	0	0	0	0	1	0	0	0	13105	768	27	1	66	1	RASL10B	17	34062267	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7200804	34062267	47132943	746	96368											
ACACA	31	broad.mit.edu	37	chr17	35687288	35687288	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagaacctattatgaatcGagagtgctggttcagctcca	12	10	9	10	1	1	3	1	1	0	2	3	4	2	3	2	1	3	3	2	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:35687288G>A	uc002hnm.2	-	3	243	c.52C>T	c.(52-54)CGA>TGA	p.R18*	ACACA_uc002hnn.2_Nonsense_Mutation_p.R18*|ACACA_uc002hno.2_Nonsense_Mutation_p.R55*|ACACA_uc010cuz.2_Nonsense_Mutation_p.R18*|ACACA_uc002hnq.2_5'UTR|ACACA_uc002hnp.1_RNA|ACACA_uc002hnr.1_RNA	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	18					acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	ATTATGAATCGAGAGTGCTGG	0.473													33	97					0	0	0.004289	0	0		A	35687288	A	A	35687288	4	1	191	1	0	0	0	0	0	1	0	0	106	1066	37	1	7261	1	ACACA	17	35687288	Nonsense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1625021	35687288	45507922	747	96369											
PLXDC1	57125	broad.mit.edu	37	chr17	37243886	37243886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggggtgaactccacggccGacatgctggtgaccttgctg	7	9	14	11	2	0	2	0	2	0	0	1	3	1	2	3	4	3	2	3	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:37243886G>A	uc002hrg.2	-	8	1093	c.881C>T	c.(880-882)TCG>TTG	p.S294L	uc002hrf.1_Intron|PLXDC1_uc010cvr.1_Missense_Mutation_p.S2L|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	294	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						CTCCACGGCCGACATGCTGGT	0.433													8	20					0	0	0.006214	0	0		A	37243886	A	A	37243886	3	1	191	1	0	0	0	0	1	0	0	0	12136	1059	37	1	649	1	PLXDC1	17	37243886	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1556598	37243886	43951324	748	96370											
C17orf37	84299	broad.mit.edu	37	chr17	37885823	37885823	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggtgatcttttctagggtTtctccattactggctcttcg	4	19	9	9	1	4	1	0	1	4	0	6	1	4	1	1	3	1	2	1	3	2	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:37885823T>G	uc002hsq.2	-	4	340	c.300A>C	c.(298-300)GAA>GAC	p.E100D		NM_032339	NP_115715	Q9BRT3	CQ037_HUMAN	hypothetical protein LOC84299	100					cell redox homeostasis	cytosol|membrane	selenium binding				0	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;3.72e-63)|all cancers(3;1.87e-56)|BRCA - Breast invasive adenocarcinoma(8;6.8e-45)|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)|OV - Ovarian serous cystadenocarcinoma(8;0.0917)|LUSC - Lung squamous cell carcinoma(15;0.171)			TTTCTAGGGTTTCTCCATTAC	0.547													57	156					0	0	0.01441	0	0		G	37885823	G	G	37885823	3	3	191	1	0	0	0	0	1	0	0	0	1857	1838	64	5	51	5	C17orf37	17	37885823	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	641937	37885823	43309387	749	96371											
PSMD3	5709	broad.mit.edu	37	chr17	38142881	38142881	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccgcacgggaaaagctgcGtcgacacccctcctgcctga	8	5	10	18	4	0	1	0	1	0	0	2	3	1	2	6	1	3	2	6	1	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:38142881G>A	uc002htn.1	+	3	629	c.465G>A	c.(463-465)GCG>GCA	p.A155A	PSMD3_uc010wen.1_RNA|PSMD3_uc010weo.1_Silent_p.A56A	NM_002809	NP_002800	O43242	PSMD3_HUMAN	proteasome 26S non-ATPase subunit 3	155					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|regulation of protein catabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome complex	enzyme regulator activity|protein binding			ovary(1)|pancreas(1)	2	Colorectal(19;0.000442)					GAAAAGCTGCGTCGACACCCC	0.522													77	160					0	0	0.01441	0	0		A	38142881	A	A	38142881	2	1	191	1	0	0	0	0	0	0	0	1	12721	1132	40	1		1	PSMD3	17	38142881	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	257058	38142881	43052329	750	96372											
THRA	7067	broad.mit.edu	37	chr17	38233862	38233862	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcacttgtgagggctgcaagGtatggaagctacctcctgcc	8	10	12	11	0	1	1	1	1	0	0	2	2	2	2	3	3	4	4	3	3	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:38233862G>A	uc002htw.2	+	4	705	c.222_splice	c.e4+1	p.K74_splice	THRA_uc010cwp.1_Splice_Site_p.K74_splice|THRA_uc002htv.2_Splice_Site_p.K74_splice|THRA_uc002htx.2_Splice_Site_p.K74_splice	NM_003250	NP_003241	P10827	THA_HUMAN	thyroid hormone receptor, alpha isoform 2						negative regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of transcription initiation, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription from RNA polymerase II promoter	cytosol|nucleoplasm	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|TBP-class protein binding|thyroid hormone binding|thyroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding				0	Colorectal(19;0.000442)	Myeloproliferative disorder(1115;0.0255)			Levothyroxine(DB00451)|Liothyronine(DB00279)	GGGCTGCAAGGTATGGAAGCT	0.507													17	116					0	0	0.004007	0	0		A	38233862	A	A	38233862	5	1	191	1	0	0	0	0	0	0	1	0	15898	1275	44	4	233	4	THRA	17	38233862	Splice_Site	SNP	G	TCGA-F1-6874-01A-11D-1882-08	90981	38233862	42961348	751	96373											
KRT12	3859	broad.mit.edu	37	chr17	39019563	39019563	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcgcagtaatcgccctcGgcttcggccaaggagtcctc	6	8	12	15	5	0	0	0	0	0	0	5	1	1	1	3	3	1	3	3	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:39019563G>A	uc002hvk.2	-	6	1152	c.1128C>T	c.(1126-1128)GCC>GCT	p.A376A		NM_000223	NP_000214	Q99456	K1C12_HUMAN	keratin 12	376	Rod.|Coil 2.				visual perception	intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				AATCGCCCTCGGCTTCGGCCA	0.612													5	27					0	0	0.001168	0	0		A	39019563	A	A	39019563	2	1	191	1	0	0	0	0	0	0	0	1	8465	1103	39	1		1	KRT12	17	39019563	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	785701	39019563	42175647	752	96374											
KRT33B	3884	broad.mit.edu	37	chr17	39525807	39525807	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggtagctggccaggcGgtcgttcaggaactgcatag	8	8	14	11	2	1	0	1	0	0	0	3	1	2	1	2	5	3	4	2	5	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:39525807G>T	uc002hwl.2	-	1	241	c.196C>A	c.(196-198)CGC>AGC	p.R66S		NM_002279	NP_002270	Q14525	KT33B_HUMAN	type I hair keratin 3B	66	Coil 1A.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				CTGGCCAGGCGGTCGTTCAGG	0.617													25	104					2.70662e-09	2.9934e-09	0.009535	1	0		T	39525807	T	T	39525807	3	4	191	1	0	0	0	0	1	0	0	0	8486	1116	39	5	1046	5	KRT33B	17	39525807	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	506244	39525807	41669403	753	96375											
JUP	3728	broad.mit.edu	37	chr17	39680055	39680055	+	Silent	SNP	G	A	A	0	0	1	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	tcctgtccctcgagcaggctGcggtaggtggcaatctcctg	5	10	13	13	2	1	0	0	0	1	0	5	1	3	0	3	4	2	4	3	4	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:39680055G>A	uc010wfs.1	-	9	1640	c.1632C>T	c.(1630-1632)CGC>CGT	p.R544R	KRT15_uc002hxb.1_5'Flank|uc002hxc.1_5'Flank|KRT19_uc002hxd.3_Silent_p.R381R	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	Error:Variant_position_missing_in_P14923_after_alignment					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		CGAGCAGGCTGCGGTAGGTGG	0.587													14	39					0	0	0.00245	0	0		A	39680055	A	A	39680055	2	1	191	1	0	0	0	0	0	0	0	1	7988	1306	46	2		2	JUP	17	39680055	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	154248	39680055	41515155	754	96376											
JUP	3728	broad.mit.edu	37	chr17	39680717	39680717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgtcactcaggatcttggCgagatcggtgcccggagcgg	7	8	15	11	4	3	1	2	0	1	1	4	4	3	3	1	5	2	0	1	5	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:39680717C>T	uc010wfs.1	-	7	1233	c.1225G>A	c.(1225-1227)GCC>ACC	p.A409T	KRT15_uc002hxb.1_5'Flank|uc002hxc.1_5'Flank|KRT19_uc002hxd.3_Missense_Mutation_p.A246T	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	Error:Variant_position_missing_in_P14923_after_alignment					adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		AGGATCTTGGCGAGATCGGTG	0.577													50	97					0	0	0.01441	0	0		T	39680717	T	T	39680717	3	4	191	1	0	0	0	0	1	0	0	0	7988	768	27	1		1	JUP	17	39680717	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	662	39680717	41514493	755	96377											
FKBP10	60681	broad.mit.edu	37	chr17	39969513	39969513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caacggcacttttgaagatgGcaagaagtttgattcaaggt	13	11	11	6	1	1	4	1	2	0	2	1	4	1	4	0	3	1	3	0	3	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:39969513G>A	uc002hxv.2	+	1	552	c.227G>A	c.(226-228)GGC>GAC	p.G76D	SC65_uc002hxt.2_5'Flank|SC65_uc002hxu.2_5'Flank	NM_021939	NP_068758	Q96AY3	FKB10_HUMAN	FK506 binding protein 10 precursor	76	PPIase FKBP-type 1.				protein folding	endoplasmic reticulum lumen|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1		Breast(137;0.00122)		BRCA - Breast invasive adenocarcinoma(366;0.148)		TTTGAAGATGGCAAGAAGTTT	0.562													15	192					0	0	0.007413	0	0		A	39969513	A	A	39969513	3	1	191	1	0	0	0	0	1	0	0	0	5916	1203	42	2	229	2	FKBP10	17	39969513	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	288796	39969513	41225697	756	96378											
HSD17B1	3292	broad.mit.edu	37	chr17	40706846	40706846	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgacgttccggcaaaggccGaggctggggccgaggctggg	6	4	20	11	5	0	0	0	0	0	0	1	3	1	0	3	7	0	4	3	7	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:40706846G>A	uc002hzw.2	+	6	1845	c.877G>A	c.(877-879)GAG>AAG	p.E293K	HSD17B1_uc002hzx.2_Missense_Mutation_p.E294K|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_5'Flank|HSD17B1_uc010cyi.2_Missense_Mutation_p.E324K	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	293					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	GGCAAAggccgaggctggggc	0.552													3	24					0	0	0.000602	0	0		A	40706846	A	A	40706846	3	1	191	1	0	0	0	0	1	0	0	0	7394	1059	37	1	899	1	HSD17B1	17	40706846	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	737333	40706846	40488364	757	96379											
NBR1	4077	broad.mit.edu	37	chr17	41341640	41341640	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttaacgaaacggttgagaaGcttgaacagaaattacatga	17	9	10	5	2	0	4	0	3	0	2	0	6	0	4	0	1	5	3	0	1	6	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:41341640G>A	uc010czd.2	+	8	656	c.516G>A	c.(514-516)AAG>AAA	p.K172K	NBR1_uc010diz.2_Silent_p.K172K|NBR1_uc010whu.1_Silent_p.K172K|NBR1_uc010whv.1_Silent_p.K172K|NBR1_uc010whw.1_Silent_p.K151K|NBR1_uc010whx.1_5'Flank	NM_031862	NP_114068	Q14596	NBR1_HUMAN	neighbor of BRCA1 gene 1	172					macroautophagy|protein oligomerization	autophagic vacuole|cytoplasmic vesicle|cytosol|late endosome|lysosome|sarcomere	ubiquitin binding|zinc ion binding			skin(1)	1		Breast(137;0.00086)		BRCA - Breast invasive adenocarcinoma(366;0.0934)		CGGTTGAGAAGCTTGAACAGA	0.388													27	103					0	0	0.007291	0	0		A	41341640	A	A	41341640	2	1	191	1	0	0	0	0	0	0	0	1	10219	962	34	2		2	NBR1	17	41341640	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	634794	41341640	39853570	758	96380											
HEXIM2	124790	broad.mit.edu	37	chr17	43246699	43246699	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagagggcctcccgggtccgCgaagagatgttcgccaaagg	9	5	15	12	4	0	2	0	0	0	2	3	4	2	2	4	3	0	1	4	3	2	1	rs150581722		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:43246699C>T	uc002iih.1	+	4	623	c.384C>T	c.(382-384)CGC>CGT	p.R128R	HEXIM2_uc010daf.1_Silent_p.R150R|HEXIM2_uc002iii.1_Silent_p.R128R|HEXIM2_uc002iij.1_Silent_p.R128R|uc002iik.1_RNA	NM_144608	NP_653209	Q96MH2	HEXI2_HUMAN	hexamthylene bis-acetamide inducible 2	128					negative regulation of cyclin-dependent protein kinase activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	cyclin-dependent protein kinase inhibitor activity|protein binding|snRNA binding				0						CCCGGGTCCGCGAAGAGATGT	0.627													19	42					0	0	0.006122	0	0		T	43246699	T	T	43246699	2	4	191	1	0	0	0	0	0	0	0	1	7093	755	27	1		1	HEXIM2	17	43246699	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1905059	43246699	37948511	759	96381											
WNT3	7473	broad.mit.edu	37	chr17	44845923	44845923	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaagttgggggagttctcGtagtagaccaggtccctctc	9	10	12	10	1	2	1	0	0	2	1	5	2	3	2	2	3	0	4	2	3	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:44845923G>A	uc002ikv.2	-	4	950	c.831C>T	c.(829-831)TAC>TAT	p.Y277Y		NM_030753	NP_110380	P56703	WNT3_HUMAN	wingless-type MMTV integration site family,	277					canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|cellular response to retinoic acid|dorsal/ventral axis specification|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic pattern specification|head morphogenesis|hemopoietic stem cell proliferation|inner ear morphogenesis|limb bud formation|mammary gland epithelium development|mesoderm formation|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|positive regulation of cell proliferation|Spemann organizer formation at the anterior end of the primitive streak|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane fraction|membrane raft|plasma membrane|proteinaceous extracellular matrix	frizzled binding|frizzled-2 binding|signal transducer activity			lung(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.0257)			GGGAGTTCTCGTAGTAGACCA	0.602													34	96					0	0	0.013726	0	0		A	44845923	A	A	44845923	2	1	191	1	0	0	0	0	0	0	0	1	17414	1140	40	1		1	WNT3	17	44845923	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1599224	44845923	36349287	760	96382											
ITGB3	3690	broad.mit.edu	37	chr17	45380143	45380143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatgaggatgactgtgtcGtcagattccagtactatgaa	13	11	11	6	1	1	5	1	3	0	2	3	6	2	6	1	1	1	1	1	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:45380143G>A	uc002ilj.2	+	13	2091	c.2071G>A	c.(2071-2073)GTC>ATC	p.V691I	ITGB3_uc010wkr.1_RNA	NM_000212	NP_000203	P05106	ITB3_HUMAN	integrin beta chain, beta 3 precursor	691	Extracellular (Potential).				activation of protein kinase activity|angiogenesis involved in wound healing|axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|negative regulation of lipid storage|negative regulation of lipid transport|negative regulation of lipoprotein metabolic process|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|platelet activation|platelet degranulation|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|regulation of bone resorption|smooth muscle cell migration|tube development	alphav-beta3 integrin-vitronectin complex|integrin complex|platelet alpha granule membrane	cell adhesion molecule binding|identical protein binding|platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			central_nervous_system(5)|large_intestine(1)	6					Abciximab(DB00054)|Tirofiban(DB00775)	TGACTGTGTCGTCAGATTCCA	0.488													19	49					0	0	0.007413	0	0		A	45380143	A	A	45380143	3	1	191	1	0	0	0	0	1	0	0	0	7911	1145	40	1	2121	1	ITGB3	17	45380143	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	534220	45380143	35815067	761	96383											
SGCA	6442	broad.mit.edu	37	chr17	48252649	48252649	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaccactgcaccatccacGggaacacagaggagctgcgg	11	4	11	15	2	0	1	0	0	0	1	2	3	2	3	4	3	4	2	4	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:48252649G>T	uc002iqi.2	+	9	1051	c.1015G>T	c.(1015-1017)GGG>TGG	p.G339W	SGCA_uc002iqj.2_Missense_Mutation_p.G215W|SGCA_uc010wmi.1_RNA|HILS1_uc010wmj.1_5'Flank|HILS1_uc002iqk.2_Intron|HILS1_uc002iql.2_5'Flank	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	339	Cytoplasmic (Potential).				muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						CACCATCCACGGGAACACAGA	0.647													6	14					8.12818e-05	8.56586e-05	0.001984	1	0		T	48252649	T	T	48252649	3	4	191	1	0	0	0	0	1	0	0	0	14224	1116	39	5	1049	5	SGCA	17	48252649	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2872506	48252649	32942561	762	96384											
COL1A1	1277	broad.mit.edu	37	chr17	48272956	48272956	+	Frame_Shift_Del	DEL	G	-	-																															cagcagcaccagcagggccaGgggggccaggctcaccacgc																								rs72645369		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:48272956delG	uc002iqm.2	-	17	1253	c.1127delC	c.(1126-1128)CCTfs	p.P376fs		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	376	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	AGCAGGGCCAGGGGGGCCAGG	0.607			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta				OREG0024559	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	94	---	---	---	---						.	-	48272956	-	-	48272956	7	5	191	1	0	1	0	1	0	0	0	0	3680	1000	35	0	3407	0	COL1A1	17	48272956	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	20307	48272956	32922254	763	96385											
TEX14	56155	broad.mit.edu	37	chr17	56700344	56700344	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgcccgaaaatgctgctgcaTggacaggggtgctcccatca	9	8	12	12	1	1	0	1	0	0	0	2	2	2	1	2	3	5	4	2	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:56700344T>C	uc010dcz.1	-	4	399	c.281A>G	c.(280-282)CAT>CGT	p.H94R	TEX14_uc002iwr.1_Missense_Mutation_p.H94R|TEX14_uc002iws.1_Missense_Mutation_p.H94R|TEX14_uc010dda.1_5'UTR	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	94	ANK 3.					cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGCTGCTGCATGGACAGGGGT	0.562													14	30					0	0	0.001855	0	0		C	56700344	C	C	56700344	3	2	191	1	0	0	0	0	1	0	0	0	15803	1464	51	3	4314	3	TEX14	17	56700344	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	8427388	56700344	24494866	764	96386											
MED13	9969	broad.mit.edu	37	chr17	60062071	60062071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aacctcaattttgaactgcgCtcctatactagaactatttc	12	14	4	11	1	1	2	1	1	0	1	3	2	2	2	2	0	5	1	2	0	8	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:60062071C>T	uc002izo.2	-	14	2709	c.2632G>A	c.(2632-2634)GCG>ACG	p.A878T		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	878					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						TTGAACTGCGCTCCTATACTA	0.338													12	31					0	0	0.003163	0	0		T	60062071	T	T	60062071	3	4	191	1	0	0	0	0	1	0	0	0	9448	797	28	2	3960	2	MED13	17	60062071	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3361727	60062071	21133139	765	96387											
MRC2	9902	broad.mit.edu	37	chr17	60757243	60757243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagagggggtcagagttggCgctggagcgacggcgtaggg	7	5	21	8	4	1	2	1	0	0	2	1	4	1	3	1	6	1	3	1	6	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:60757243C>T	uc002jad.2	+	14	2680	c.2278C>T	c.(2278-2280)CGC>TGC	p.R760C	MRC2_uc010ddq.1_RNA|MRC2_uc002jae.2_5'Flank|MRC2_uc002jaf.2_5'Flank	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	760	Extracellular (Potential).|C-type lectin 4.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TCAGAGTTGGCGCTGGAGCGA	0.667													15	23					0	0	0.007413	0	0		T	60757243	T	T	60757243	3	4	191	1	0	0	0	0	1	0	0	0	9776	768	27	1	2332	1	MRC2	17	60757243	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	695172	60757243	20437967	766	96388											
STRADA	92335	broad.mit.edu	37	chr17	61781857	61781857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagttggccactgagcgcGaagggctcatggtcagctcc	8	7	14	12	2	2	2	2	1	0	1	3	3	3	2	2	3	2	3	2	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:61781857G>A	uc002jbm.2	-	11	1103	c.944C>T	c.(943-945)TCG>TTG	p.S315L	STRADA_uc002jbn.2_Missense_Mutation_p.S257L|STRADA_uc002jbo.2_Missense_Mutation_p.S278L|STRADA_uc002jbp.2_Missense_Mutation_p.S278L|STRADA_uc002jbq.2_Missense_Mutation_p.S257L|STRADA_uc010wpq.1_Missense_Mutation_p.S271L|STRADA_uc010wpr.1_Missense_Mutation_p.S286L|STRADA_uc010ddw.2_Missense_Mutation_p.S286L|STRADA_uc002jbr.2_3'UTR	NM_001003787	NP_001003787	Q7RTN6	STRAA_HUMAN	STE20-related kinase adaptor alpha isoform 1	315	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|kinase binding|protein kinase activity			ovary(1)	1						CACTGAGCGCGAAGGGCTCAT	0.632													18	86					0	0	0.010504	0	0		A	61781857	A	A	61781857	3	1	191	1	0	0	0	0	1	0	0	0	15349	1059	37	1	421	1	STRADA	17	61781857	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1024614	61781857	19413353	767	96389											
SMARCD2	6603	broad.mit.edu	37	chr17	61911863	61911863	+	Missense_Mutation	SNP	A	G	G	1	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	cagcatgagcaggagggtgcActtgacgttgaggtctccag	9	8	15	9	1	1	3	0	3	1	0	2	4	1	4	1	3	3	4	1	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:61911863A>G	uc010deb.1	-	7	1209	c.892T>C	c.(892-894)TGC>CGC	p.C298R	SMARCD2_uc010wpt.1_Missense_Mutation_p.C250R|SMARCD2_uc010dea.1_Missense_Mutation_p.C223R|SMARCD2_uc010dec.1_Missense_Mutation_p.C277R	NM_001098426	NP_001091896	Q92925	SMRD2_HUMAN	SWI/SNF-related matrix-associated	298					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0						AGGAGGGTGCACTTGACGTTG	0.592											OREG0024642	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	39	109					0	0	0.00874	0	0		G	61911863	G	G	61911863	3	3	191	1	0	0	0	0	1	0	0	0	14803	159	6	3	731	3	SMARCD2	17	61911863	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	130006	61911863	19283347	768	96390											
SMARCD2	6603	broad.mit.edu	37	chr17	61912836	61912836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccttgtcccctgctggggttCccccaggggtccctgcagtt	2	11	12	16	0	0	0	0	0	0	0	3	0	3	0	6	4	2	4	6	4	0	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:61912836C>T	uc010deb.1	-	5	976	c.659G>A	c.(658-660)GGA>GAA	p.G220E	SMARCD2_uc010wpt.1_Missense_Mutation_p.G172E|SMARCD2_uc010dea.1_Missense_Mutation_p.G145E|SMARCD2_uc010dec.1_Missense_Mutation_p.G199E	NM_001098426	NP_001091896	Q92925	SMRD2_HUMAN	SWI/SNF-related matrix-associated	220					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0						TGCTGGGGTTCCCCCAGGGGT	0.562													22	32					0	0	0.014323	0	0		T	61912836	T	T	61912836	3	4	191	1	0	0	0	0	1	0	0	0	14803	855	30	4	972	4	SMARCD2	17	61912836	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	973	61912836	19282374	769	96391											
SDK2	54549	broad.mit.edu	37	chr17	71398252	71398252	+	Missense_Mutation	SNP	T	A	A	0	1	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	cggtcaccatggtaacctccTcttcctgttccggctcccag	5	11	8	17	2	2	0	1	0	1	0	6	0	6	0	6	3	1	3	6	3	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:71398252T>A	uc010dfm.2	-	19	2513	c.2513A>T	c.(2512-2514)GAG>GTG	p.E838V	SDK2_uc002jjt.3_5'UTR|SDK2_uc010dfn.2_Missense_Mutation_p.E517V	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	838	Fibronectin type-III 3.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						GGTAACCTCCTCTTCCTGTTC	0.602													11	53					0	0	0.010729	0	0		A	71398252	A	A	71398252	3	1	191	1	0	0	0	0	1	0	0	0	13994	1551	54	5	4113	5	SDK2	17	71398252	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	9485416	71398252	9796958	770	96392											
KIF19	124602	broad.mit.edu	37	chr17	72345394	72345394	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcatcgctgacctgcggggCgagatccagcgactcaagcg	9	6	13	13	5	2	2	2	1	0	1	4	4	3	2	2	2	3	1	2	2	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:72345394C>T	uc002jkm.3	+	10	1257	c.1119C>T	c.(1117-1119)GGC>GGT	p.G373G	KIF19_uc002jkj.2_Silent_p.G373G|KIF19_uc002jkk.2_Silent_p.G331G|KIF19_uc002jkl.2_Silent_p.G331G	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	373	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						ACCTGCGGGGCGAGATCCAGC	0.642													17	34					0	0	0.00499	0	0		T	72345394	T	T	72345394	2	4	191	1	0	0	0	0	0	0	0	1	8298	755	27	1		1	KIF19	17	72345394	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	947142	72345394	8849816	771	96393											
RECQL5	9400	broad.mit.edu	37	chr17	73658666	73658666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcatagaagaggttggcccGgaagcagggagtcttgaaga	13	7	15	6	1	2	4	1	1	1	3	2	6	2	6	1	4	1	2	1	4	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:73658666G>A	uc010dgl.2	-	4	820	c.664C>T	c.(664-666)CGG>TGG	p.R222W	RECQL5_uc010dgk.2_Missense_Mutation_p.R195W|RECQL5_uc002jpb.1_Missense_Mutation_p.R222W|RECQL5_uc002joz.3_Missense_Mutation_p.R222W|RECQL5_uc002jpa.3_Missense_Mutation_p.R222W	NM_004259	NP_004250	O94762	RECQ5_HUMAN	RecQ protein-like 5 isoform 1	222					DNA recombination|DNA repair	cytoplasm|nuclear membrane|nucleolus|nucleoplasm	ATP binding|ATP-dependent helicase activity|DNA helicase activity|nucleic acid binding			kidney(3)	3	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)			AGGTTGGCCCGGAAGCAGGGA	0.537								Other_identified_genes_with_known_or_suspected_DNA_repair_function					28	391					0	0	0.009535	0	0		A	73658666	A	A	73658666	3	1	191	1	0	0	0	0	1	0	0	0	13228	1115	39	1	2466	1	RECQL5	17	73658666	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1313272	73658666	7536544	772	96394											
UNC13D	201294	broad.mit.edu	37	chr17	73832117	73832117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagatcttgtcccatgtgCgctggcactggtgcaggtcg	6	10	15	10	2	1	1	0	0	1	1	3	2	2	2	1	4	2	3	1	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:73832117C>T	uc002jpp.2	-	17	1900	c.1520G>A	c.(1519-1521)CGC>CAC	p.R507H	UNC13D_uc010wsk.1_Missense_Mutation_p.R507H|UNC13D_uc002jpq.1_Missense_Mutation_p.R157H|UNC13D_uc010dgq.1_Missense_Mutation_p.R303H	NM_199242	NP_954712	Q70J99	UN13D_HUMAN	unc-13 homolog D	507	Interaction with RAB27A.				positive regulation of exocytosis|regulation of mast cell degranulation	exocytic vesicle|late endosome|lysosome|membrane|recycling endosome	protein binding			upper_aerodigestive_tract(1)|skin(1)	2			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)			GTCCCATGTGCGCTGGCACTG	0.622									Familial_Hemophagocytic_Lymphohistiocytosis				51	138					0	0	0.01441	0	0		T	73832117	T	T	73832117	3	4	191	1	0	0	0	0	1	0	0	0	17013	768	27	1	1816	1	UNC13D	17	73832117	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	173451	73832117	7363093	773	96395											
EVPL	2125	broad.mit.edu	37	chr17	74003402	74003402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcttcactgatcatccCggagaggagggcctgctgga	8	8	13	12	1	3	2	2	1	1	1	4	5	4	4	2	4	2	2	2	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:74003402C>T	uc002jqi.2	-	22	6112	c.5884G>A	c.(5884-5886)GGG>AGG	p.G1962R	EVPL_uc010wss.1_Missense_Mutation_p.G1984R|EVPL_uc010wst.1_Missense_Mutation_p.G1432R	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1962	Plectin 6.|Globular 2.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CTGATCATCCCGGAGAGGAGG	0.627													24	78					0	0	0.014323	0	0		T	74003402	T	T	74003402	3	4	191	1	0	0	0	0	1	0	0	0	5300	652	23	1	221	1	EVPL	17	74003402	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	171285	74003402	7191808	774	96396											
FOXJ1	2302	broad.mit.edu	37	chr17	74136150	74136150	+	Frame_Shift_Del	DEL	G	-	-																															gtggcgtagtccacgtcgtcGgggggtggggcctgcagccc																								rs145296122	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:74136150delG	uc002jqw.2	-	1	417	c.327delC	c.(325-327)CCCfs	p.P109fs	FOXJ1_uc002jqx.2_Frame_Shift_Del_p.P109fs|uc002jqy.1_5'Flank	NM_001454	NP_001445	Q92949	FOXJ1_HUMAN	forkhead box J1	109					actin cytoskeleton organization|activation of Rho GTPase activity|central tolerance induction|cilium assembly|epithelial cell differentiation|establishment of apical/basal cell polarity|heart looping|humoral immune response|left/right pattern formation|leukocyte migration|lung development|negative regulation of B cell activation|negative regulation of germinal center formation|negative regulation of humoral immune response mediated by circulating immunoglobulin|negative regulation of interleukin-6 biosynthetic process|negative regulation of NF-kappaB transcription factor activity|negative regulation of T cell differentiation in thymus|negative regulation of T cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of central B cell tolerance induction|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			pancreas(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			CCACGTCGTCGGGGGGTGGGG	0.706													19	40	---	---	---	---						.	-	74136150	-	-	74136150	7	5	191	1	0	1	0	1	0	0	0	0	6025	1103	39	0	946	0	FOXJ1	17	74136150	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	132748	74136150	7059060	775	96397											
ST6GALNAC1	55808	broad.mit.edu	37	chr17	74623283	74623283	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccaggagcagctgctgctgGggcactggagggaagcgtgt	7	6	19	9	1	0	0	0	0	0	0	0	3	0	3	1	5	5	5	1	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:74623283G>A	uc002jsh.2	-	4	1212	c.1038C>T	c.(1036-1038)CCC>CCT	p.P346P	ST6GALNAC1_uc002jsi.2_Silent_p.P214P|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	346	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						GCTGCTGCTGGGGCACTGGAG	0.647													26	32					0	0	0.007291	0	0		A	74623283	A	A	74623283	2	1	191	1	0	0	0	0	0	0	0	1	15248	1219	43	4		4	ST6GALNAC1	17	74623283	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	487133	74623283	6571927	776	96398											
ENPP7	339221	broad.mit.edu	37	chr17	77709262	77709262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcaccttccgggacatcGagtttgagctcctggactac	8	11	9	13	2	1	1	1	1	0	0	4	4	3	3	3	2	2	2	3	2	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:77709262G>A	uc002jxa.2	+	3	840	c.820G>A	c.(820-822)GAG>AAG	p.E274K		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	274					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CCGGGACATCGAGTTTGAGCT	0.577													13	65					0	0	0.001855	0	0		A	77709262	A	A	77709262	3	1	191	1	0	0	0	0	1	0	0	0	5143	1059	37	1	830	1	ENPP7	17	77709262	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3085979	77709262	3485948	777	96399											
GPS1	2873	broad.mit.edu	37	chr17	80014355	80014355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttccccaggacaacctgCtcctggacatgtatctggcc	7	9	8	17	0	1	0	0	0	1	0	3	2	3	2	6	3	2	2	6	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:80014355C>T	uc002kdl.1	+	10	1102	c.1057C>T	c.(1057-1059)CTC>TTC	p.L353F	GPS1_uc002kdk.1_Missense_Mutation_p.L389F|GPS1_uc010dij.1_Missense_Mutation_p.L388F|GPS1_uc002kdm.1_Missense_Mutation_p.L333F|GPS1_uc002kdn.1_Missense_Mutation_p.L349F|GPS1_uc002kdo.1_Missense_Mutation_p.L352F|GPS1_uc010wvh.1_Missense_Mutation_p.L345F	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	353	PCI.				cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	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)			GGACAACCTGCTCCTGGACAT	0.662													9	40					0	0	0.004482	0	0		T	80014355	T	T	80014355	3	4	191	1	0	0	0	0	1	0	0	0	6748	797	28	2	1252	2	GPS1	17	80014355	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2305093	80014355	1180855	778	96400											
TEX19	400629	broad.mit.edu	37	chr17	80320038	80320038	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctggccatgtgccctccGgtcagcatgcggtatgagga	7	8	14	12	2	1	1	1	1	0	0	2	2	2	2	4	4	4	2	4	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr17:80320038G>A	uc002keq.2	+	2	321	c.12G>A	c.(10-12)CCG>CCA	p.P4P		NM_207459	NP_997342	Q8NA77	TEX19_HUMAN	testis expressed 19	4						nucleus					0						TGTGCCCTCCGGTCAGCATGC	0.587													47	97					0	0	0.01441	0	0		A	80320038	A	A	80320038	2	1	191	1	0	0	0	0	0	0	0	1	15805	1103	39	1		1	TEX19	17	80320038	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	305683	80320038	875172	779	96401											
COLEC12	81035	broad.mit.edu	37	chr18	334972	334972	+	Frame_Shift_Del	DEL	G	-	-																															cctctttgcctggtgggcccGgggggcctgggtccccactg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:334972delG	uc002kkm.2	-	6	1801	c.1586delC	c.(1585-1587)CCGfs	p.P529fs		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	529	Collagen-like 2.|Extracellular (Potential).				carbohydrate mediated signaling|innate immune response|phagocytosis, recognition|protein homooligomerization	collagen|integral to membrane	galactose binding|low-density lipoprotein particle binding|metal ion binding|pattern recognition receptor activity|scavenger receptor activity			ovary(1)|pancreas(1)	2		all_cancers(4;0.0442)|Myeloproliferative disorder(11;0.0426)				TGGTGGGCCCGGGGGGCCTGG	0.716													9	17	---	---	---	---						.	-	334972	-	-	334972	7	5	191	1	0	1	0	1	0	0	0	0	3715	1116	39	0	662	0	COLEC12	18	334972	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08		334972	77742276	780	96402											
PTPRM	5797	broad.mit.edu	37	chr18	7955139	7955139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccacccgttcctattgccCcacctcagctcgcctctgta	7	10	5	19	2	2	0	1	0	1	0	4	0	3	0	7	0	3	3	7	0	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:7955139C>T	uc002knn.3	+	7	1362	c.859C>T	c.(859-861)CCA>TCA	p.P287S	PTPRM_uc010dkv.2_Missense_Mutation_p.P287S|PTPRM_uc010wzl.1_Missense_Mutation_p.P74S	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	287	Fibronectin type-III 1.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				TCCTATTGCCCCACCTCAGCT	0.488													16	69					0	0	0.00499	0	0		T	7955139	T	T	7955139	3	4	191	1	0	0	0	0	1	0	0	0	12831	623	22	4	885	4	PTPRM	18	7955139	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7620167	7955139	70122109	781	96403											
PPP4R1	9989	broad.mit.edu	37	chr18	9570554	9570554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttcacctagaggcttccCggatgcctcagcagcatggt	9	10	10	12	1	2	1	2	0	0	1	3	2	3	2	3	3	3	3	3	3	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:9570554C>T	uc002koe.1	-	11	1292	c.1174G>A	c.(1174-1176)GGG>AGG	p.G392R	PPP4R1_uc002kof.2_5'UTR|PPP4R1_uc010wzo.1_Missense_Mutation_p.G238R|PPP4R1_uc002kod.1_Missense_Mutation_p.G375R|PPP4R1_uc010wzp.1_RNA	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	392					protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						AGAGGCTTCCCGGATGCCTCA	0.448													32	77					0	0	0.003755	0	0		T	9570554	T	T	9570554	3	4	191	1	0	0	0	0	1	0	0	0	12425	652	23	1	1718	1	PPP4R1	18	9570554	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1615415	9570554	68506694	782	96404											
C18orf1	753	broad.mit.edu	37	chr18	13621130	13621130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagcggagctggagttcGcccaaatcatcatcatcgtc	9	9	11	12	3	3	0	3	0	0	0	6	2	3	2	1	3	2	3	1	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:13621130G>A	uc002ksa.2	+	5	864	c.196G>A	c.(196-198)GCC>ACC	p.A66T	C18orf1_uc002ksb.2_Missense_Mutation_p.A66T|C18orf1_uc002kse.2_Missense_Mutation_p.A29T|C18orf1_uc002ksf.2_Missense_Mutation_p.A29T|C18orf1_uc002ksg.1_5'UTR|C18orf1_uc002ksh.1_Missense_Mutation_p.A8T|C18orf1_uc002ksi.1_Missense_Mutation_p.A8T	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	66	Helical; (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		GCTGGAGTTCGCCCAAATCAT	0.592													48	136					0	0	0.01441	0	0		A	13621130	A	A	13621130	3	1	191	1	0	0	0	0	1	0	0	0	1897	1087	38	1	287	1	C18orf1	18	13621130	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	4050576	13621130	64456118	783	96405											
DSG1	1828	broad.mit.edu	37	chr18	28913557	28913557	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatatgtatttttagcaataCggccagtatgctcttgctgt	10	16	8	7	1	1	0	0	0	1	0	1	0	1	0	1	1	4	5	1	1	7	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:28913557C>T	uc002kwp.2	+	7	902	c.690C>T	c.(688-690)TAC>TAT	p.Y230Y		NM_001942	NP_001933	Q02413	DSG1_HUMAN	desmoglein 1 preproprotein	230	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|cell-cell junction assembly|cellular component disassembly involved in apoptosis|homophilic cell adhesion|protein stabilization	cytosol|desmosome|integral to membrane|internal side of plasma membrane	calcium ion binding|gamma-catenin binding|toxin binding			skin(3)|ovary(2)|central_nervous_system(2)	7			OV - Ovarian serous cystadenocarcinoma(10;0.00559)			TTTAGCAATACGGCCAGTATG	0.428													22	83					0	0	0.014323	0	0		T	28913557	T	T	28913557	2	4	191	1	0	0	0	0	0	0	0	1	4782	547	19	1		1	DSG1	18	28913557	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	15292427	28913557	49163691	784	96406											
SLC14A2	8170	broad.mit.edu	37	chr18	43216967	43216967	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttcagcccagttctttcTagtgccttgaattccatctt	7	17	5	12	0	5	1	1	1	4	0	6	1	6	1	3	0	2	1	3	0	2	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:43216967T>C	uc010dnj.2	+	7	984	c.663T>C	c.(661-663)TCT>TCC	p.S221S	SLC14A2_uc002lbb.2_Silent_p.S221S|SLC14A2_uc002lbe.2_Silent_p.S221S	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	221	Helical; (Potential).					apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CAGTTCTTTCTAGTGCCTTGA	0.512													107	271					0	0	0.01441	0	0		C	43216967	C	C	43216967	2	2	191	1	0	0	0	0	0	0	0	1	14422	1509	53	3		3	SLC14A2	18	43216967	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	14303410	43216967	34860281	785	96407											
KIAA0427	9811	broad.mit.edu	37	chr18	46284491	46284491	+	Frame_Shift_Del	DEL	G	-	-																															aagcacccaccaggcgacaaGggggaggcaggcgcacaccg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:46284491delG	uc002ldc.2	+	8	1071	c.786delG	c.(784-786)AAGfs	p.K262fs	KIAA0427_uc002ldd.2_Frame_Shift_Del_p.K262fs|KIAA0427_uc002lde.3_5'Flank	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	262	Interaction with NCBP1/CBP80.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						CAGGCGACAAGGGGGAGGCAG	0.642													28	62	---	---	---	---						.	-	46284491	-	-	46284491	7	5	191	1	0	1	0	1	0	0	0	0	8192	991	35	0	812	0	KIAA0427	18	46284491	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	3067524	46284491	31792757	786	96408											
KIAA0427	9811	broad.mit.edu	37	chr18	46343630	46343630	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggagctgcagcagcaggaCgtggagcgctggctgggctt	7	6	19	9	2	0	0	0	0	0	0	0	4	0	3	0	5	5	7	0	5	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:46343630C>T	uc002ldc.2	+	10	1695	c.1410C>T	c.(1408-1410)GAC>GAT	p.D470D	KIAA0427_uc002ldd.2_Silent_p.D472D|KIAA0427_uc002lde.3_Silent_p.D99D	NM_014772	NP_055587	O43310	CTIF_HUMAN	hypothetical protein LOC9811 isoform 1	470	MIF4G.				nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational initiation	perinuclear region of cytoplasm	protein binding				0						AGCAGCAGGACGTGGAGCGCT	0.677													19	39					0	0	0.006122	0	0		T	46343630	T	T	46343630	2	4	191	1	0	0	0	0	0	0	0	1	8192	535	19	1		1	KIAA0427	18	46343630	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	59139	46343630	31733618	787	96409											
MBD1	4152	broad.mit.edu	37	chr18	47802019	47802019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actggcgcctgagaccagggCggggagggcgaaggcagatg	9	3	20	9	3	0	2	0	1	0	2	0	5	0	3	2	6	0	1	2	6	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:47802019C>T	uc010dow.1	-	8	1180	c.743G>A	c.(742-744)CGC>CAC	p.R248H	MBD1_uc002lef.2_Missense_Mutation_p.R30H|MBD1_uc002leg.2_Missense_Mutation_p.R199H|MBD1_uc010xdi.1_Missense_Mutation_p.R274H|MBD1_uc002leh.3_Missense_Mutation_p.R248H|MBD1_uc002len.2_Missense_Mutation_p.R248H|MBD1_uc002lei.3_Missense_Mutation_p.R248H|MBD1_uc002lej.3_Missense_Mutation_p.R248H|MBD1_uc002lek.3_Missense_Mutation_p.R199H|MBD1_uc002lel.3_Missense_Mutation_p.R248H|MBD1_uc002lem.3_Missense_Mutation_p.R248H|MBD1_uc010xdj.1_Missense_Mutation_p.R248H|MBD1_uc010xdk.1_Missense_Mutation_p.R248H|MBD1_uc010dox.1_Missense_Mutation_p.R248H|MBD1_uc002leo.2_Missense_Mutation_p.R248H	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	248	CXXC-type 2.				negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GAGACCAGGGCGGGGAGGGCG	0.627													20	54					0	0	0.008871	0	0		T	47802019	T	T	47802019	3	4	191	1	0	0	0	0	1	0	0	0	9360	768	27	1	1304	1	MBD1	18	47802019	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1458389	47802019	30275229	788	96410											
MAPK4	5596	broad.mit.edu	37	chr18	48190498	48190498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gattgccctgagcgatgcccGcagcatgaagcacgcgctcc	8	6	12	15	4	0	2	0	2	0	0	1	4	1	2	3	0	5	4	3	0	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:48190498G>A	uc002lev.2	+	2	1170	c.170G>A	c.(169-171)CGC>CAC	p.R57H	MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Missense_Mutation_p.R57H	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	57	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		AGCGATGCCCGCAGCATGAAG	0.612													17	74					0	0	0.00499	0	0		A	48190498	A	A	48190498	3	1	191	1	0	0	0	0	1	0	0	0	9298	1087	38	1	172	1	MAPK4	18	48190498	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	388479	48190498	29886750	789	96411											
MAPK4	5596	broad.mit.edu	37	chr18	48190669	48190669	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catggagaccgacctggcacGcctgctggagcagggcacgc	8	4	15	14	3	0	1	0	0	0	1	0	4	0	2	3	4	2	4	3	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:48190669G>A	uc002lev.2	+	2	1341	c.341G>A	c.(340-342)CGC>CAC	p.R114H	MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Missense_Mutation_p.R114H	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	114	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		GACCTGGCACGCCTGCTGGAG	0.612													4	98					0	0	0.009096	0	0		A	48190669	A	A	48190669	3	1	191	1	0	0	0	0	1	0	0	0	9298	1087	38	1	343	1	MAPK4	18	48190669	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	171	48190669	29886579	790	96412											
ATP8B1	5205	broad.mit.edu	37	chr18	55315824	55315824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccggaggagatgaggtccgCgtagccccgctggtgcgaga	7	5	17	12	5	0	3	0	1	0	2	1	6	1	4	4	4	2	2	4	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:55315824C>T	uc002lgw.2	-	27	3652	c.3652G>A	c.(3652-3654)GCG>ACG	p.A1218T	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	1218	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				ATGAGGTCCGCGTAGCCCCGC	0.701									Byler_disease				8	23					0	0	0.004482	0	0		T	55315824	T	T	55315824	3	4	191	1	0	0	0	0	1	0	0	0	1195	768	27	1	107	1	ATP8B1	18	55315824	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7125155	55315824	22761424	791	96413											
VPS4B	9525	broad.mit.edu	37	chr18	61058235	61058235	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgaccaaaatcttctgtAaacttctttaatttcaacaa	14	16	2	9	0	5	1	1	1	4	0	5	1	5	1	1	0	2	1	1	0	7	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:61058235A>G	uc002lix.2	-	11	1568	c.1308T>C	c.(1306-1308)TTT>TTC	p.F436F		NM_004869	NP_004860	O75351	VPS4B_HUMAN	vacuolar protein sorting factor 4B	436					cell cycle|cell division|cellular membrane organization|endosome to lysosome transport via multivesicular body sorting pathway|intracellular cholesterol transport|protein transport|response to lipid	cytosol|early endosome|late endosome membrane|lysosome|nucleus|vacuolar membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding			ovary(1)	1						AATCTTCTGTAAACTTCTTTA	0.363													11	33					0	0	0.013537	0	0		G	61058235	G	G	61058235	2	3	191	1	0	0	0	0	0	0	0	1	17239	359	13	3		3	VPS4B	18	61058235	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	5742411	61058235	17019013	792	96414											
CD226	10666	broad.mit.edu	37	chr18	67563197	67563197	+	Missense_Mutation	SNP	A	G	G	1	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	ctgcctgcacaggccacgtcAtctgaggctgacaagtgagt	9	8	12	12	1	2	3	1	3	1	0	2	3	2	3	2	2	2	2	2	2	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr18:67563197A>G	uc010dqo.2	-	3	914	c.467T>C	c.(466-468)ATG>ACG	p.M156T	CD226_uc002lkm.3_Missense_Mutation_p.M156T	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	156	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				AGGCCACGTCATCTGAGGCTG	0.488													28	50					0	0	0.00632	0	0		G	67563197	G	G	67563197	3	3	191	1	0	0	0	0	1	0	0	0	2989	217	8	3	559	3	CD226	18	67563197	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	6504962	67563197	10514051	793	96415											
CDC34	997	broad.mit.edu	37	chr19	535840	535840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccttctgcccctgcaggcgCgcctcaagttccccatcgac	5	8	9	19	3	2	0	1	0	1	0	4	1	3	0	6	1	2	2	6	1	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:535840C>T	uc002lov.2	+	2	380	c.181C>T	c.(181-183)CGC>TGC	p.R61C		NM_004359	NP_004350	P49427	UB2R1_HUMAN	ubiquitin-conjugating enzyme Cdc34	61					DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|negative regulation of cAMP-mediated signaling|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination	cytoplasm|nucleus	ATP binding|protein binding|ubiquitin-protein ligase activity				0		all_cancers(10;1.94e-35)|all_epithelial(18;5.94e-23)|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)		CCTGCAGGCGCGCCTCAAGTT	0.637													99	258					0	0	0.01441	0	0		T	535840	T	T	535840	3	4	191	1	0	0	0	0	1	0	0	0	3070	768	27	1	187	1	CDC34	19	535840	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08		535840	58593143	794	96416											
ABCA7	10347	broad.mit.edu	37	chr19	1055119	1055119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggcaccagaagttcctgCtgaagtggccaaggtcttgg	8	9	13	11	1	1	2	0	1	1	1	3	2	2	2	3	4	1	3	3	4	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:1055119C>T	uc002lqw.3	+	30	4205	c.3974C>T	c.(3973-3975)GCT>GTT	p.A1325V	ABCA7_uc010dsb.1_Missense_Mutation_p.A1187V|ABCA7_uc002lqy.2_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1325	Extracellular (By similarity).				phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		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)		GAAGTTCCTGCTGAAGTGGCC	0.652													10	43					0	0	0.013537	0	0		T	1055119	T	T	1055119	3	4	191	1	0	0	0	0	1	0	0	0	37	797	28	2	4088	2	ABCA7	19	1055119	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	519279	1055119	58073864	795	96417											
PCSK4	54760	broad.mit.edu	37	chr19	1487263	1487263	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgcggctgcaggctcagCgactgggcctcgatgacatc	6	8	14	13	3	1	1	1	1	0	0	3	3	1	1	1	3	4	4	1	3	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:1487263C>T	uc002ltb.1	-	7	794	c.732G>A	c.(730-732)TCG>TCA	p.S244S	PCSK4_uc002lta.2_Silent_p.S56S	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	244	Catalytic (By similarity).				proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGGCTCAGCGACTGGGCCT	0.647													7	13					0	0	0.00308	0	0		T	1487263	T	T	1487263	2	4	191	1	0	0	0	0	0	0	0	1	11621	755	27	1		1	PCSK4	19	1487263	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	432144	1487263	57641720	796	96418											
SPPL2B	56928	broad.mit.edu	37	chr19	2340969	2340969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctggcgctcttctgcGtggccgtcagcgtggtgtgg	1	12	16	12	4	3	0	1	0	2	0	4	0	4	0	2	4	3	2	2	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:2340969G>A	uc002lvs.2	+	9	993	c.913G>A	c.(913-915)GTG>ATG	p.V305M	SPPL2B_uc010dsw.1_Silent_p.A276A|SPPL2B_uc010dsy.1_Silent_p.A276A|SPPL2B_uc010dsz.1_Silent_p.A304A|SPPL2B_uc002lvr.2_Missense_Mutation_p.V305M|SPPL2B_uc010dta.1_Silent_p.A156A|SPPL2B_uc002lvu.2_Silent_p.A98A	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	305	Helical; (Potential).					Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCTTCTGCGTGGCCGTCAG	0.697													13	57					0	0	0.00245	0	0		A	2340969	A	A	2340969	3	1	191	1	0	0	0	0	1	0	0	0	15114	1145	40	1	942	1	SPPL2B	19	2340969	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	853706	2340969	56788014	797	96419											
ZNF556	80032	broad.mit.edu	37	chr19	2878023	2878023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagtcttccgcgaggcctcGcccctccacagatgtcaaat	10	8	8	15	3	2	1	1	0	1	1	5	2	4	1	5	1	0	0	5	1	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:2878023G>A	uc002lwp.1	+	4	1154	c.1067G>A	c.(1066-1068)CGC>CAC	p.R356H	ZNF556_uc002lwq.2_Missense_Mutation_p.R355H	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	356					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCGAGGCCTCGCCCCTCCACA	0.488													10	37					0	0	0.006214	0	0		A	2878023	A	A	2878023	3	1	191	1	0	0	0	0	1	0	0	0	18012	1087	38	1	1081	1	ZNF556	19	2878023	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	537054	2878023	56250960	798	96420											
TBXA2R	6915	broad.mit.edu	37	chr19	3600462	3600462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaggaggagcgcgtgtgCgaacccccctgccgcgcgcc	7	3	16	15	6	0	0	0	0	0	0	0	4	0	3	5	3	4	0	5	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:3600462C>T	uc002lyg.1	-	2	385	c.171G>A	c.(169-171)TCG>TCA	p.S57S	TBXA2R_uc002lye.1_Silent_p.S57S	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	57	Cytoplasmic (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	AGCGCGTGTGCGAACCCCCCT	0.706													12	24					0	0	0.001855	0	0		T	3600462	T	T	3600462	2	4	191	1	0	0	0	0	0	0	0	1	15688	755	27	1		1	TBXA2R	19	3600462	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	722439	3600462	55528521	799	96421											
TMIGD2	126259	broad.mit.edu	37	chr19	4294602	4294602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctttgctggcagctgcggCggccccagaaccaggcaccc	6	5	12	18	2	0	1	0	0	0	1	0	1	0	1	5	4	4	4	5	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:4294602C>T	uc002lzx.1	-	4	570	c.524G>A	c.(523-525)CGC>CAC	p.R175H	TMIGD2_uc010dtv.1_Missense_Mutation_p.R175H	NM_144615	NP_653216	Q96BF3	TMIG2_HUMAN	transmembrane and immunoglobulin domain	175	Cytoplasmic (Potential).					integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGCTGCGGCGGCCCCAGAA	0.627													10	476					0	0	0.006214	0	0		T	4294602	T	T	4294602	3	4	191	1	0	0	0	0	1	0	0	0	16256	768	27	1	332	1	TMIGD2	19	4294602	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	694140	4294602	54834381	800	96422											
PTPRS	5802	broad.mit.edu	37	chr19	5231455	5231455	+	Missense_Mutation	SNP	A	G	G	1	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	tctgagtggtggtcggggggAtgccgttcacctccttgggt	3	12	17	9	2	2	1	1	1	1	0	4	2	3	2	3	6	1	1	3	6	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:5231455A>G	uc002mbv.2	-	14	2255	c.2021T>C	c.(2020-2022)ATC>ACC	p.I674T	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Intron|PTPRS_uc002mbw.2_Missense_Mutation_p.I661T|PTPRS_uc002mbx.2_Intron|PTPRS_uc002mby.2_Intron	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	674	Extracellular (Potential).|Fibronectin type-III 4.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGTCGGGGGGATGCCGTTCAC	0.677													18	43					0	0	0.00499	0	0		G	5231455	G	G	5231455	3	3	191	1	0	0	0	0	1	0	0	0	12836	333	12	3	3925	3	PTPRS	19	5231455	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	936853	5231455	53897528	801	96423											
PTPRS	5802	broad.mit.edu	37	chr19	5239009	5239009	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggccgccaggcggaaggcGtactccgtgttgggcttcag	5	7	17	12	5	1	0	1	0	0	0	2	1	2	1	3	5	1	3	3	5	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:5239009G>A	uc002mbv.2	-	13	2004	c.1770C>T	c.(1768-1770)TAC>TAT	p.Y590Y	PTPRS_uc002mbu.1_Silent_p.Y577Y|PTPRS_uc010xin.1_Silent_p.Y577Y|PTPRS_uc002mbw.2_Silent_p.Y577Y|PTPRS_uc002mbx.2_Silent_p.Y581Y|PTPRS_uc002mby.2_Silent_p.Y577Y	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	590	Extracellular (Potential).|Fibronectin type-III 3.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGCGGAAGGCGTACTCCGTGT	0.701													28	61					0	0	0.008361	0	0		A	5239009	A	A	5239009	2	1	191	1	0	0	0	0	0	0	0	1	12836	1140	40	1		1	PTPRS	19	5239009	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	7554	5239009	53889974	802	96424											
SMARCA4	6597	broad.mit.edu	37	chr19	11152043	11152043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccggcagaagaaatcatcaCggaagcgcaagcgagacagc	15	3	12	11	4	2	3	2	0	0	3	3	5	3	4	1	2	3	2	1	2	4	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:11152043C>T	uc002mqf.3	+	30	4515	c.4231C>T	c.(4231-4233)CGG>TGG	p.R1411W	SMARCA4_uc010dxp.2_Missense_Mutation_p.R1411W|SMARCA4_uc010dxo.2_Missense_Mutation_p.R1443W|SMARCA4_uc010dxq.2_Missense_Mutation_p.R1378W|SMARCA4_uc010dxr.2_Missense_Mutation_p.R1378W|SMARCA4_uc002mqj.3_Missense_Mutation_p.R1381W|SMARCA4_uc010dxs.2_Missense_Mutation_p.R1381W|SMARCA4_uc002mqh.3_Missense_Mutation_p.R501W	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	1411					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity			lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GAAATCATCACGGAAGCGCAA	0.612			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				25	76					0	0	0.003954	0	0		T	11152043	T	T	11152043	3	4	191	1	0	0	0	0	1	0	0	0	14795	527	19	1	4454	1	SMARCA4	19	11152043	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5913034	11152043	47976940	803	96425											
MAN2B1	4125	broad.mit.edu	37	chr19	12760206	12760206	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtttcctgccacgggctcCgtctggttcagtttccaggt	4	14	11	12	2	2	0	1	0	1	0	5	0	5	0	4	3	1	4	4	3	1	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:12760206C>T	uc002mub.2	-	19	2380	c.2304G>A	c.(2302-2304)ACG>ACA	p.T768T	MAN2B1_uc010dyv.1_Silent_p.T767T	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	768					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						CCACGGGCTCCGTCTGGTTCA	0.527													4	23					0	0	0.000602	0	0		T	12760206	T	T	12760206	2	4	191	1	0	0	0	0	0	0	0	1	9234	639	23	1		1	MAN2B1	19	12760206	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1608163	12760206	46368777	804	96426											
TNPO2	30000	broad.mit.edu	37	chr19	12814278	12814278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcaccaatggcccaggtggCgttgttgcagacggagatga	9	9	14	9	2	1	3	1	1	0	2	1	4	1	3	2	4	1	3	2	4	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:12814278C>T	uc002muo.2	-	19	2358	c.2173G>A	c.(2173-2175)GCC>ACC	p.A725T	TNPO2_uc002mup.2_Missense_Mutation_p.A817T|TNPO2_uc002muq.2_Missense_Mutation_p.A725T|TNPO2_uc002mur.2_Missense_Mutation_p.A725T	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	725	HEAT 12.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						GCCCAGGTGGCGTTGTTGCAG	0.602													48	96					0	0	0.01441	0	0		T	12814278	T	T	12814278	3	4	191	1	0	0	0	0	1	0	0	0	16361	768	27	1	544	1	TNPO2	19	12814278	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	54072	12814278	46314705	805	96427											
MAST1	22983	broad.mit.edu	37	chr19	12979633	12979633	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagtcatcaaatcagcctcaGccactgccttatctgtcatg	11	11	6	13	0	6	0	5	0	1	0	6	0	6	0	3	0	3	0	3	0	3	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:12979633G>A	uc002mvm.2	+	21	2871	c.2743G>A	c.(2743-2745)GCC>ACC	p.A915T		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	915					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						ATCAGCCTCAGCCACTGCCTT	0.587													31	60					0	0	0.012213	0	0		A	12979633	A	A	12979633	3	1	191	1	0	0	0	0	1	0	0	0	9342	971	34	2	2825	2	MAST1	19	12979633	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	165355	12979633	46149350	806	96428											
FARSA	2193	broad.mit.edu	37	chr19	13041545	13041545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcccagtgcttggtggaccGaagttcagcctcgatgacct	7	10	11	13	2	1	1	1	1	0	0	3	4	2	2	4	2	2	2	4	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:13041545G>A	uc002mvs.2	-	2	214	c.166C>T	c.(166-168)CGG>TGG	p.R56W	FARSA_uc002mvt.2_RNA|FARSA_uc010xmv.1_Missense_Mutation_p.R56W|FARSA_uc010dyy.1_Intron	NM_004461	NP_004452	Q9Y285	SYFA_HUMAN	phenylalanyl-tRNA synthetase, alpha subunit	56					phenylalanyl-tRNA aminoacylation	cytosol|soluble fraction	ATP binding|phenylalanine-tRNA ligase activity|protein binding|tRNA binding			ovary(1)	1					L-Phenylalanine(DB00120)	TTGGTGGACCGAAGTTCAGCC	0.642													14	63					0	0	0.00245	0	0		A	13041545	A	A	13041545	3	1	191	1	0	0	0	0	1	0	0	0	5693	1057	37	1	1408	1	FARSA	19	13041545	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	61912	13041545	46087438	807	96429											
NFIX	4784	broad.mit.edu	37	chr19	13201132	13201132	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattcgcaacgacaggcgcCtcctctgccaaccggtttgt	7	9	10	15	4	1	0	0	0	1	0	3	1	2	0	4	2	3	3	4	2	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:13201132C>T	uc010xmx.1	+	10	1499	c.1446C>T	c.(1444-1446)GCC>GCT	p.A482A	NFIX_uc002mwd.2_Missense_Mutation_p.P425L|NFIX_uc002mwe.2_Missense_Mutation_p.P417L|NFIX_uc002mwf.2_Missense_Mutation_p.P387L|NFIX_uc002mwg.1_Missense_Mutation_p.P424L			Q14938	NFIX_HUMAN	RecName: Full=Nuclear factor 1;	474					DNA replication|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(19;8.2e-22)			CGACAGGCGCCTCCTCTGCCA	0.647													34	122					0	0	0.004878	0	0		T	13201132	T	T	13201132	2	4	191	1	0	0	0	0	0	0	0	1	10393	681	24	4		4	NFIX	19	13201132	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	159587	13201132	45927851	808	96430											
PODNL1	79883	broad.mit.edu	37	chr19	14045127	14045127	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaggtagctgagctggttGttggagaggctgagggtggc	6	9	21	5	0	0	3	0	2	0	1	0	4	0	3	0	7	2	7	0	7	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:14045127G>A	uc002mxr.2	-	6	886	c.612C>T	c.(610-612)AAC>AAT	p.N204N	PODNL1_uc010xni.1_Silent_p.N122N|PODNL1_uc010xnj.1_Silent_p.N202N|PODNL1_uc002mxs.2_Intron	NM_024825	NP_079101	Q6PEZ8	PONL1_HUMAN	podocan-like 1 isoform 1	204	Leu-rich.|LRR 6.					proteinaceous extracellular matrix				central_nervous_system(1)	1			OV - Ovarian serous cystadenocarcinoma(19;5.26e-23)			TGAGCTGGTTGTTGGAGAGGC	0.677													8	12					0	0	0.00308	0	0		A	14045127	A	A	14045127	2	1	191	1	0	0	0	0	0	0	0	1	12198	1368	48	4		4	PODNL1	19	14045127	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	843995	14045127	45083856	809	96431											
RFX1	5989	broad.mit.edu	37	chr19	14080843	14080843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggttcgcaggcccatgaagaCggagcggatgagcttgccga	9	6	16	10	4	0	3	0	2	0	1	1	6	0	5	2	4	3	3	2	4	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:14080843C>T	uc002mxv.2	-	10	1731	c.1459G>A	c.(1459-1461)GTC>ATC	p.V487I	RFX1_uc010dzi.2_Missense_Mutation_p.V487I	NM_002918	NP_002909	P22670	RFX1_HUMAN	regulatory factor X1	487	RFX-type winged-helix.				immune response	nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			lung(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(19;6.67e-23)			CCCATGAAGACGGAGCGGATG	0.647													20	34					0	0	0.012319	0	0		T	14080843	T	T	14080843	3	4	191	1	0	0	0	0	1	0	0	0	13287	536	19	1	1528	1	RFX1	19	14080843	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	35716	14080843	45048140	810	96432											
CYP4F22	126410	broad.mit.edu	37	chr19	15648801	15648801	+	Missense_Mutation	SNP	A	G	G	1	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	cagctacaacagcaactgccAagagtgagtgtgacccttct	12	8	9	12	0	1	3	0	2	1	1	1	3	1	3	2	0	6	2	2	0	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:15648801A>G	uc002nbh.3	+	7	835	c.668A>G	c.(667-669)CAA>CGA	p.Q223R		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	223						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						AGCAACTGCCAAGAGTGAGTG	0.373													14	58					0	0	0.003163	0	0		G	15648801	G	G	15648801	3	3	191	1	0	0	0	0	1	0	0	0	4192	130	5	3	686	3	CYP4F22	19	15648801	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1567958	15648801	43480182	811	96433											
OR10H5	284433	broad.mit.edu	37	chr19	15905282	15905282	+	Missense_Mutation	SNP	A	G	G	1	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	tcatgagcctgcggggctgcAcctgccgggtgggctgctcc	3	8	16	14	2	1	1	1	1	0	0	2	1	2	1	4	4	5	4	4	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:15905282A>G	uc010xos.1	+	1	424	c.424A>G	c.(424-426)ACC>GCC	p.T142A		NM_001004466	NP_001004466	Q8NGA6	O10H5_HUMAN	olfactory receptor, family 10, subfamily H,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GCGGGGCTGCACCTGCCGGGT	0.627													7	65					0	0	0.010729	0	0		G	15905282	G	G	15905282	3	3	191	1	0	0	0	0	1	0	0	0	10928	159	6	3	426	3	OR10H5	19	15905282	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	256481	15905282	43223701	812	96434											
OR10H1	26539	broad.mit.edu	37	chr19	15918308	15918308	+	Silent	SNP	A	G	G	1	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	aacttcaacagaggtggcacAtggcaagcaaaatggtggat	15	7	12	7	0	1	1	1	0	0	1	1	2	1	2	0	5	3	3	0	5	5	1	rs143264407		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:15918308A>G	uc002nbq.2	-	1	629	c.540T>C	c.(538-540)CAT>CAC	p.H180H		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	180	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GAGGTGGCACATGGCAAGCAA	0.587													30	125					0	0	0.013726	0	0		G	15918308	G	G	15918308	2	3	191	1	0	0	0	0	0	0	0	1	10924	214	8	3		3	OR10H1	19	15918308	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	13026	15918308	43210675	813	96435											
OR10H1	26539	broad.mit.edu	37	chr19	15918435	15918435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcaggcgcagccccgcGggctcatgagcacgttgtag	7	5	15	14	4	1	1	1	1	0	0	1	1	1	1	3	3	2	6	3	3	1	2	rs143282709		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:15918435G>A	uc002nbq.2	-	1	502	c.413C>T	c.(412-414)CCG>CTG	p.P138L		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GCAGCCCCGCGGGCTCATGAG	0.647													17	106					0	0	0.008361	0	0		A	15918435	A	A	15918435	3	1	191	1	0	0	0	0	1	0	0	0	10924	1116	39	1	547	1	OR10H1	19	15918435	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	127	15918435	43210548	814	96436											
CHERP	10523	broad.mit.edu	37	chr19	16652696	16652696	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctcacgctgctgctgctccaGcgccagcttgcacttgtagt	5	11	10	15	2	1	0	1	0	0	0	2	0	2	0	2	0	6	7	2	0	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:16652696G>T	uc002nei.1	-	2	258	c.184C>A	c.(184-186)CTG>ATG	p.L62M	MED26_uc002nee.2_Intron|CHERP_uc002nej.2_Missense_Mutation_p.L30M	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	62					cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						TGCTGCTCCAGCGCCAGCTTG	0.542													28	141					4.22769e-11	4.76703e-11	0.00632	1	0		T	16652696	T	T	16652696	3	4	191	1	0	0	0	0	1	0	0	0	3339	962	34	5	2630	5	CHERP	19	16652696	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	734261	16652696	42476287	815	96437											
F2RL3	9002	broad.mit.edu	37	chr19	17001150	17001150	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtggtgctggcctccgcCgtggccttcttcgtgcccag	2	10	14	15	3	1	0	0	0	1	0	3	0	2	0	5	3	2	2	5	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:17001150C>T	uc002nfa.2	+	2	1051	c.876C>T	c.(874-876)GCC>GCT	p.A292A		NM_003950	NP_003941	Q96RI0	PAR4_HUMAN	coagulation factor II (thrombin) receptor-like 3	292	Helical; Name=6; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation|positive regulation of release of sequestered calcium ion into cytosol	extracellular region|integral to plasma membrane	thrombin receptor activity				0						TGGCCTCCGCCGTGGCCTTCT	0.706													8	15					0	0	0.004482	0	0		T	17001150	T	T	17001150	2	4	191	1	0	0	0	0	0	0	0	1	5354	639	23	1		1	F2RL3	19	17001150	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	348454	17001150	42127833	816	96438											
PLVAP	83483	broad.mit.edu	37	chr19	17487777	17487777	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattgatgcggtccaggtcGcggcgagcattcagccacat	8	8	13	12	4	1	1	1	1	0	0	3	2	2	1	2	3	3	2	2	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:17487777G>A	uc002ngk.1	-	1	371	c.321C>T	c.(319-321)CGC>CGT	p.R107R		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	107	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						GGTCCAGGTCGCGGCGAGCAT	0.522													16	45					0	0	0.006122	0	0		A	17487777	A	A	17487777	2	1	191	1	0	0	0	0	0	0	0	1	12135	1074	38	1		1	PLVAP	19	17487777	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	486627	17487777	41641206	817	96439											
FKBP8	23770	broad.mit.edu	37	chr19	18650477	18650477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctggcccttgaccgggcGgctcgaacctggcggccctg	4	6	14	17	4	0	1	0	1	0	0	1	2	0	1	5	5	1	1	5	5	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:18650477G>A	uc002njk.1	-	3	459	c.346C>T	c.(346-348)CGC>TGC	p.R116C	FKBP8_uc002nji.1_5'UTR|FKBP8_uc010xqi.1_Missense_Mutation_p.R145C|FKBP8_uc002njj.1_Missense_Mutation_p.R116C|FKBP8_uc002njl.1_Missense_Mutation_p.R116C|FKBP8_uc002njm.1_Missense_Mutation_p.R116C|FKBP8_uc010ebr.1_Intron|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	116					apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						TTGACCGGGCGGCTCGAACCT	0.642													66	244					0	0	0.01441	0	0		A	18650477	A	A	18650477	3	1	191	1	0	0	0	0	1	0	0	0	5928	1116	39	1	923	1	FKBP8	19	18650477	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1162700	18650477	40478506	818	96440											
UPF1	5976	broad.mit.edu	37	chr19	18964115	18964115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggtacaaaggggaccttgCgcccctgtggaaagggatcg	9	6	16	10	3	0	0	0	0	0	0	1	3	0	3	3	5	2	1	3	5	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:18964115C>T	uc002nkg.2	+	8	1420	c.1145C>T	c.(1144-1146)GCG>GTG	p.A382V	UPF1_uc002nkf.2_Missense_Mutation_p.A371V	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	382	Sufficient for interaction with RENT2.				cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGGGACCTTGCGCCCCTGTGG	0.562													13	40					0	0	0.00499	0	0		T	18964115	T	T	18964115	3	4	191	1	0	0	0	0	1	0	0	0	17029	768	27	1	1142	1	UPF1	19	18964115	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	313638	18964115	40164868	819	96441											
ARMC6	93436	broad.mit.edu	37	chr19	19162542	19162542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaggcctgccgcttcctcGcggcccagaagggggcctac	7	5	13	16	3	0	1	0	0	0	1	2	1	1	1	5	4	2	1	5	4	3	2	rs145390530	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:19162542G>A	uc002nld.2	+	5	739	c.391G>A	c.(391-393)GCG>ACG	p.A131T	ARMC6_uc002nlc.2_Missense_Mutation_p.A106T|ARMC6_uc010xql.1_Missense_Mutation_p.A38T|ARMC6_uc002nle.2_Missense_Mutation_p.A106T|ARMC6_uc010xqm.1_Missense_Mutation_p.A131T	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	131							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			CCGCTTCCTCGCGGCCCAGAA	0.642													27	64					0	0	0.004656	0	0		A	19162542	A	A	19162542	3	1	191	1	0	0	0	0	1	0	0	0	956	1087	38	1	326	1	ARMC6	19	19162542	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	198427	19162542	39966441	820	96442											
GATAD2A	54815	broad.mit.edu	37	chr19	19613277	19613277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagacattctgagagaacCgtgagcgccggcaagggcag	11	4	16	10	3	1	4	0	2	1	2	1	5	1	4	2	3	2	3	2	3	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:19613277C>T	uc010xqt.1	+	11	2025	c.1713C>T	c.(1711-1713)ACC>ACT	p.T571T	GATAD2A_uc010xqu.1_Silent_p.T200T|GATAD2A_uc010xqv.1_Silent_p.T591T|GATAD2A_uc010xqw.1_Silent_p.T374T	NM_017660	NP_060130	Q86YP4	P66A_HUMAN	GATA zinc finger domain containing 2A	571					DNA methylation|negative regulation of transcription, DNA-dependent	nuclear speck|NuRD complex	protein binding, bridging|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CTGAGAGAACCGTGAGCGCCG	0.647													46	130					0	0	0.01441	0	0		T	19613277	T	T	19613277	2	4	191	1	0	0	0	0	0	0	0	1	6275	639	23	1		1	GATAD2A	19	19613277	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	450735	19613277	39515706	821	96443											
ZNF708	7562	broad.mit.edu	37	chr19	21476609	21476609	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgtagggtttctctccagTatgaattaccttatgattag	9	18	8	6	0	1	2	0	2	1	0	3	2	2	2	2	1	1	3	2	1	6	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:21476609T>C	uc002npq.1	-	4	1357	c.1159A>G	c.(1159-1161)ACT>GCT	p.T387A	ZNF708_uc002npr.1_Missense_Mutation_p.T323A|ZNF708_uc010ecs.1_Missense_Mutation_p.T323A	NM_021269	NP_067092	P17019	ZN708_HUMAN	zinc finger protein 708	387					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(4)|skin(2)	6						TTCTCTCCAGTATGAATTACC	0.363													23	71					0	0	0.014323	0	0		C	21476609	C	C	21476609	3	2	191	1	0	0	0	0	1	0	0	0	18137	1638	57	3	536	3	ZNF708	19	21476609	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1863332	21476609	37652374	822	96444											
ZNF208	7757	broad.mit.edu	37	chr19	22155740	22155740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaccagttgaaagctttgCcacattcttcacatttgtag	11	13	8	9	0	2	1	1	1	1	0	2	2	2	2	2	1	2	3	2	1	2	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:22155740C>T	uc002nqp.2	-	5	1945	c.1796G>A	c.(1795-1797)GGC>GAC	p.G599D	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GAAAGCTTTGCCACATTCTTC	0.363													17	68					0	0	0.008871	0	0		T	22155740	T	T	22155740	3	4	191	1	0	0	0	0	1	0	0	0	17791	739	26	2	1750	2	ZNF208	19	22155740	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	679131	22155740	36973243	823	96445											
ZNF91	7644	broad.mit.edu	37	chr19	23544326	23544326	+	Silent	SNP	A	G	G	1	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	catttgtagggcttctctccAgtgtgtatcctcttatgtct	5	18	8	10	0	3	0	0	0	3	0	6	0	5	0	2	1	0	3	2	1	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:23544326A>G	uc002nre.2	-	4	1568	c.1455T>C	c.(1453-1455)ACT>ACC	p.T485T	ZNF91_uc002nrd.2_5'Flank|ZNF91_uc010xrj.1_Silent_p.T453T	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	485						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				GCTTCTCTCCAGTGTGTATCC	0.368													30	71					0	0	0.013726	0	0		G	23544326	G	G	23544326	2	3	191	1	0	0	0	0	0	0	0	1	18225	175	7	3		3	ZNF91	19	23544326	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1388586	23544326	35584657	824	96446											
ZNF536	9745	broad.mit.edu	37	chr19	31039848	31039848	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accctgcattttgtaacttcCcatcagacttctacaagcag	11	12	5	13	0	2	1	1	0	1	1	3	1	3	1	2	0	4	3	2	0	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:31039848C>A	uc002nsu.1	+	4	3460	c.3322C>A	c.(3322-3324)CCA>ACA	p.P1108T	ZNF536_uc010edd.1_Missense_Mutation_p.P1108T	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TTGTAACTTCCCATCAGACTT	0.562													17	48					3.52763e-06	3.79047e-06	0.00499	1	0		A	31039848	A	A	31039848	3	1	191	1	0	0	0	0	1	0	0	0	17999	623	22	5	3332	5	ZNF536	19	31039848	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7495522	31039848	28089135	825	96447											
GAPDHS	26330	broad.mit.edu	37	chr19	36034314	36034314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaaggcctggcgagatgggCggggtgcccaccagaacatc	9	4	17	11	2	0	2	0	0	0	2	1	4	0	3	3	6	2	0	3	6	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:36034314C>T	uc002oaf.1	+	8	930	c.814C>T	c.(814-816)CGG>TGG	p.R272W	uc010eec.1_RNA|uc002oag.2_Intron|TMEM147_uc002oai.1_5'Flank|TMEM147_uc002oaj.1_5'Flank|TMEM147_uc002oak.1_5'Flank	NM_014364	NP_055179	O14556	G3PT_HUMAN	glyceraldehyde-3-phosphate dehydrogenase,	272					gluconeogenesis|glycolysis|positive regulation of glycolysis|sperm motility	cytosol	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity|NAD binding|protein binding				0	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)		NADH(DB00157)	GCGAGATGGGCGGGGTGCCCA	0.582													35	98					0	0	0.004289	0	0		T	36034314	T	T	36034314	3	4	191	1	0	0	0	0	1	0	0	0	6252	759	27	1	844	1	GAPDHS	19	36034314	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4994466	36034314	23094669	826	96448											
MLL4	9757	broad.mit.edu	37	chr19	36214078	36214078	+	Silent	SNP	C	T	T	0	0	0	1	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	cgcatggctcgatgtggacaCtgtcggggctgcctacgtgt	5	10	15	11	4	0	0	0	0	0	0	2	2	0	1	1	4	2	3	1	4	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:36214078C>T	uc010eei.2	+	6	2904	c.2904C>T	c.(2902-2904)CAC>CAT	p.H968H		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	968	CXXC-type.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GATGTGGACACTGTCGGGGCT	0.607													5	72					0	0	0.001168	0	0		T	36214078	T	T	36214078	2	4	191	1	0	0	0	0	0	0	0	1	9641	564	20	4		4	MLL4	19	36214078	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	179764	36214078	22914905	827	96449											
ZNF420	147923	broad.mit.edu	37	chr19	37619350	37619350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgggaaatcttttattcGtggttcccagcttactcaac	9	15	8	9	1	2	0	1	0	1	0	4	1	3	1	1	2	3	2	1	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:37619350G>A	uc002ofl.2	+	5	1672	c.1457G>A	c.(1456-1458)CGT>CAT	p.R486H		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	486	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCTTTTATTCGTGGTTCCCAG	0.403													11	42					0	0	0.008291	0	0		A	37619350	A	A	37619350	3	1	191	1	0	0	0	0	1	0	0	0	17922	1145	40	1	1467	1	ZNF420	19	37619350	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1405272	37619350	21509633	828	96450											
RYR1	6261	broad.mit.edu	37	chr19	38939141	38939141	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctacctccttctgcttccGcatctccaaggtcagtgggg	5	11	11	14	1	3	0	1	0	2	0	6	0	5	0	4	4	2	3	4	4	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:38939141G>A	uc002oit.2	+	10	1077	c.947G>A	c.(946-948)CGC>CAC	p.R316H	RYR1_uc002oiu.2_Missense_Mutation_p.R316H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	316	MIR 4.|Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TTCTGCTTCCGCATCTCCAAG	0.652													53	101					0	0	0.01441	0	0		A	38939141	A	A	38939141	3	1	191	1	0	0	0	0	1	0	0	0	13793	1087	38	1	985	1	RYR1	19	38939141	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1319791	38939141	20189842	829	96451											
ZNF546	339327	broad.mit.edu	37	chr19	40520059	40520059	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttactgaacatcagagaatAcattctggtgtgaaacccta	14	11	7	9	0	2	3	1	2	1	1	2	4	2	3	1	1	4	0	1	1	6	4	rs17653956		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:40520059A>G	uc002oms.2	+	7	1138	c.882A>G	c.(880-882)ATA>ATG	p.I294M	ZNF546_uc002omt.2_Missense_Mutation_p.I268M	NM_178544	NP_848639	Q86UE3	ZN546_HUMAN	zinc finger protein 546	294	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ATCAGAGAATACATTCTGGTG	0.433													5	92					0	0	0.000602	0	0		G	40520059	G	G	40520059	3	3	191	1	0	0	0	0	1	0	0	0	18003	381	14	3	900	3	ZNF546	19	40520059	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	1580918	40520059	18608924	830	96452											
ZNF780A	284323	broad.mit.edu	37	chr19	40581329	40581329	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtcagaagagtaaacgcCtttccacattctttacattc	11	15	5	10	1	2	2	1	0	1	2	4	2	3	2	2	0	2	1	2	0	4	7			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:40581329C>A	uc002omy.2	-	6	1245	c.1020G>T	c.(1018-1020)AAG>AAT	p.K340N	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.K340N|ZNF780A_uc010xvh.1_Missense_Mutation_p.K341N	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	340	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					GAGTAAACGCCTTTCCACATT	0.408													34	94					1.36615e-20	1.59118e-20	0.013726	1	0		A	40581329	A	A	40581329	3	1	191	1	0	0	0	0	1	0	0	0	18177	680	24	5	1036	5	ZNF780A	19	40581329	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	61270	40581329	18547654	831	96453											
CYP2B6	1555	broad.mit.edu	37	chr19	41515233	41515233	+	Missense_Mutation	SNP	A	G	G	1	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	tggccacagtgtggagaagcAccgtgaaaccctggacccca	11	5	12	13	1	0	2	0	1	0	1	0	4	0	3	5	3	2	1	5	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:41515233A>G	uc002opr.1	+	5	762	c.755A>G	c.(754-756)CAC>CGC	p.H252R	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Intron	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	252					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	GTGGAGAAGCACCGTGAAACC	0.493													4	146					0	0	0.004482	0	0		G	41515233	G	G	41515233	3	3	191	1	0	0	0	0	1	0	0	0	4167	159	6	3	773	3	CYP2B6	19	41515233	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	933904	41515233	17613750	832	96454											
CYP2B6	1555	broad.mit.edu	37	chr19	41515274	41515274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcccccaaggacctcatcGacacctacctgctccacatg	9	6	7	19	2	1	0	1	0	0	0	3	2	2	1	6	1	2	1	6	1	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:41515274G>A	uc002opr.1	+	5	803	c.796G>A	c.(796-798)GAC>AAC	p.D266N	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Intron	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	266					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	GGACCTCATCGACACCTACCT	0.393													37	36					0	0	0.005524	0	0		A	41515274	A	A	41515274	3	1	191	1	0	0	0	0	1	0	0	0	4167	1058	37	1	814	1	CYP2B6	19	41515274	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	41	41515274	17613709	833	96455											
BCKDHA	593	broad.mit.edu	37	chr19	41928571	41928571	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tatggcatcatgtcaatccgCgtggatggtaatgatgtgtt	9	14	12	6	2	2	1	2	1	0	0	3	2	3	2	1	3	0	3	1	3	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:41928571C>T	uc002oqq.2	+	7	920	c.891C>T	c.(889-891)CGC>CGT	p.R297R	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Silent_p.R331R|BCKDHA_uc002oqp.1_Silent_p.R189R|BCKDHA_uc002oqr.2_Silent_p.R296R|BCKDHA_uc010xvz.1_Silent_p.R275R	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	297					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						TGTCAATCCGCGTGGATGGTA	0.592													30	87					0	0	0.004289	0	0		T	41928571	T	T	41928571	2	4	191	1	0	0	0	0	0	0	0	1	1360	755	27	1		1	BCKDHA	19	41928571	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	413297	41928571	17200412	834	96456											
CEACAM5	1048	broad.mit.edu	37	chr19	42221555	42221555	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaacaggaccctcactctActcagtgtcacaaggaatga	14	7	8	12	0	4	1	3	1	1	0	4	4	4	3	1	2	2	0	1	2	4	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:42221555A>G	uc002ork.2	+	5	1261	c.1140A>G	c.(1138-1140)CTA>CTG	p.L380L	CEACAM5_uc002orj.1_Silent_p.L379L|CEACAM5_uc002orl.2_Silent_p.L380L	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	380	Ig-like 4.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CCCTCACTCTACTCAGTGTCA	0.498													81	174					0	0	0.01441	0	0		G	42221555	G	G	42221555	2	3	191	1	0	0	0	0	0	0	0	1	3198	378	14	3		3	CEACAM5	19	42221555	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	292984	42221555	16907428	835	96457											
CIC	23152	broad.mit.edu	37	chr19	42791776	42791776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccctggtccaccagcGtcatcccaaccaggacaacc	9	4	9	19	2	1	0	1	0	0	0	3	1	3	1	7	3	3	0	7	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:42791776G>A	uc002otf.1	+	5	702	c.662G>A	c.(661-663)CGT>CAT	p.R221H		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	221	HMG box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GTCCACCAGCGTCATCCCAAC	0.612			T	DUX4	soft tissue sarcoma								26	68					0	0	0.004656	0	0		A	42791776	A	A	42791776	3	1	191	1	0	0	0	0	1	0	0	0	3427	1145	40	1	680	1	CIC	19	42791776	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	570221	42791776	16337207	836	96458											
PRR19	284338	broad.mit.edu	37	chr19	42814088	42814088	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagggcccaggaaccagccCcacggtccagggacaaagag	12	1	14	14	1	0	1	0	0	0	1	1	3	1	3	5	4	2	1	5	4	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:42814088C>A	uc002oti.2	+	2	730	c.352C>A	c.(352-354)CCA>ACA	p.P118T	PRR19_uc002oth.1_Missense_Mutation_p.P118T|PRR19_uc002otj.2_Missense_Mutation_p.P118T	NM_199285	NP_954979	A6NJB7	PRR19_HUMAN	proline rich 19	118											0		Prostate(69;0.00682)				GGAACCAGCCCCACGGTCCAG	0.672													23	31					1.28384e-07	1.3987e-07	0.012319	1	0		A	42814088	A	A	42814088	3	1	191	1	0	0	0	0	1	0	0	0	12613	623	22	5	354	5	PRR19	19	42814088	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	22312	42814088	16314895	837	96459											
PSG7	5676	broad.mit.edu	37	chr19	43439735	43439735	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttaattatttgaccgtctActatatatgatgtaacataa	15	17	4	5	1	1	2	0	2	1	0	1	2	1	2	1	0	2	1	1	0	8	10			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:43439735A>G	uc002ovl.3	-	2	353	c.251T>C	c.(250-252)GTA>GCA	p.V84A	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Intron	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	84	Ig-like V-type.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				TTGACCGTCTACTATATATGA	0.418													7	467					0	0	0.008871	0	0		G	43439735	G	G	43439735	3	3	191	1	0	0	0	0	1	0	0	0	12682	391	14	3	1028	3	PSG7	19	43439735	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	625647	43439735	15689248	838	96460											
XRCC1	7515	broad.mit.edu	37	chr19	44056177	44056177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcaagcctacatgaggtgCgtgctgtcccgggtccagtc	6	8	14	13	3	0	1	0	1	0	0	3	1	2	1	3	2	4	2	3	2	2	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:44056177C>T	uc002owt.2	-	9	1194	c.1074G>A	c.(1072-1074)ACG>ACA	p.T358T	XRCC1_uc010xwp.1_Silent_p.T327T	NM_006297	NP_006288	P18887	XRCC1_HUMAN	X-ray repair cross complementing protein 1	358	BRCT 1.				base-excision repair|single strand break repair	nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(2)|large_intestine(1)|prostate(1)|breast(1)	7		Prostate(69;0.0153)				ACATGAGGTGCGTGCTGTCCC	0.627								Other_BER_factors					43	104					0	0	0.01441	0	0		T	44056177	T	T	44056177	2	4	191	1	0	0	0	0	0	0	0	1	17478	755	27	1		1	XRCC1	19	44056177	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	616442	44056177	15072806	839	96461											
ZNF234	10780	broad.mit.edu	37	chr19	44660800	44660800	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagtgtgacgtgtgtggtAaggaatttagtcagagctca	12	12	13	4	1	2	2	2	1	0	1	2	3	2	3	0	2	1	2	0	2	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:44660800A>T	uc002oym.2	+	6	938	c.631A>T	c.(631-633)AAG>TAG	p.K211*	ZNF234_uc002oyl.3_Nonsense_Mutation_p.K211*	NM_006630	NP_006621	Q14588	ZN234_HUMAN	zinc finger protein 234	211	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0435)				CGTGTGTGGTAAGGAATTTAG	0.423													20	173					0	0	0.010504	0	0		T	44660800	T	T	44660800	4	4	191	1	0	0	0	0	0	1	0	0	17812	363	13	5	645	5	ZNF234	19	44660800	Nonsense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	604623	44660800	14468183	840	96462											
ZNF226	7769	broad.mit.edu	37	chr19	44680402	44680402	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagacccatcagaaagtccaCgtgatagagaaaccatacaa	18	5	7	11	1	1	4	1	1	0	3	2	5	2	4	3	0	2	0	3	0	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:44680402C>T	uc002oyp.2	+	6	1131	c.987C>T	c.(985-987)CAC>CAT	p.H329H	ZNF226_uc002oyq.2_Silent_p.H212H|ZNF226_uc002oyr.2_Silent_p.H212H|ZNF226_uc010ejg.2_3'UTR|ZNF226_uc002oys.2_Silent_p.H329H|ZNF226_uc002oyt.2_Silent_p.H329H	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a	329	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				AGAAAGTCCACGTGATAGAGA	0.433													22	75					0	0	0.014323	0	0		T	44680402	T	T	44680402	2	4	191	1	0	0	0	0	0	0	0	1	17805	535	19	1		1	ZNF226	19	44680402	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	19602	44680402	14448581	841	96463											
ZNF235	9310	broad.mit.edu	37	chr19	44792700	44792700	+	Silent	SNP	A	G	G	1	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	ctataactggtgtccttctcAtgtgtactacacgctggaga	9	13	9	10	1	1	1	1	0	1	1	3	2	2	1	1	2	3	2	1	2	4	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:44792700A>G	uc002oza.3	-	5	991	c.888T>C	c.(886-888)CAT>CAC	p.H296H	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF235_uc002ozb.3_Silent_p.H292H|ZNF235_uc010xwx.1_Silent_p.H210H	NM_004234	NP_004225	Q14590	ZN235_HUMAN	zinc finger protein 93 homolog	296					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)	3		Prostate(69;0.0352)|all_neural(266;0.116)				TGTCCTTCTCATGTGTACTAC	0.423													26	66					0	0	0.003954	0	0		G	44792700	G	G	44792700	2	3	191	1	0	0	0	0	0	0	0	1	17813	214	8	3		3	ZNF235	19	44792700	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	112298	44792700	14336283	842	96464											
CLPTM1	1209	broad.mit.edu	37	chr19	45490487	45490487	+	Missense_Mutation	SNP	A	G	G	1	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	actatcccatcatctacttcAatgactactggaacctgcag	12	11	5	13	0	3	1	2	1	1	0	4	2	4	2	2	1	4	1	2	1	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:45490487A>G	uc002pai.2	+	8	859	c.844A>G	c.(844-846)AAT>GAT	p.N282D	CLPTM1_uc010ejv.1_Missense_Mutation_p.N180D|CLPTM1_uc010xxf.1_Missense_Mutation_p.N180D|CLPTM1_uc010xxg.1_Missense_Mutation_p.N268D	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane	282	Extracellular (Potential).				cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		CATCTACTTCAATGACTACTG	0.612													71	158					0	0	0.01441	0	0		G	45490487	G	G	45490487	3	3	191	1	0	0	0	0	1	0	0	0	3557	130	5	3	874	3	CLPTM1	19	45490487	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	697787	45490487	13638496	843	96465											
PPP1R13L	10848	broad.mit.edu	37	chr19	45899977	45899977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgcggggggagcctgcgcGgcccaggaagtcgaaaggcg	7	2	20	12	6	0	0	0	0	0	0	1	3	0	2	3	6	2	0	3	6	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:45899977G>A	uc002pbn.2	-	4	615	c.538C>T	c.(538-540)CGC>TGC	p.R180C	PPP1R13L_uc002pbo.2_Missense_Mutation_p.R180C|PPP1R13L_uc002pbp.2_Missense_Mutation_p.R180C	NM_006663	NP_006654	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13	180	Pro-rich.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			skin(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		GAGCCTGCGCGGCCCAGGAAG	0.796													7	12					0	0	0.00308	0	0		A	45899977	A	A	45899977	3	1	191	1	0	0	0	0	1	0	0	0	12380	1116	39	1	1988	1	PPP1R13L	19	45899977	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	409490	45899977	13229006	844	96466											
FKRP	79147	broad.mit.edu	37	chr19	47259842	47259842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggcaactgcgagcagctgCggggggcagaggccggctcg	6	4	20	11	4	0	1	0	0	0	1	1	2	0	1	1	6	5	5	1	6	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:47259842C>T	uc002pfn.2	+	4	1432	c.1135C>T	c.(1135-1137)CGG>TGG	p.R379W	FKRP_uc002pfp.2_Missense_Mutation_p.R379W	NM_024301	NP_077277	Q9H9S5	FKRP_HUMAN	fukutin-related protein	379						extracellular space|Golgi apparatus|rough endoplasmic reticulum|sarcolemma	transferase activity			pancreas(1)	1		all_epithelial(76;5.08e-05)|Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000541)|all cancers(93;0.00128)|Epithelial(262;0.0207)|GBM - Glioblastoma multiforme(486;0.0336)		CGAGCAGCTGCGGGGGGCAGA	0.657													5	12					0	0	0.001168	0	0		T	47259842	T	T	47259842	3	4	191	1	0	0	0	0	1	0	0	0	5931	759	27	1	1137	1	FKRP	19	47259842	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1359865	47259842	11869141	845	96467											
NPAS1	4861	broad.mit.edu	37	chr19	47535965	47535965	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctctacatctcagagacagTctccatctatctgggtctct	8	13	6	14	0	6	1	1	0	6	1	9	2	6	1	2	1	1	0	2	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:47535965T>C	uc002pfw.2	+	5	693	c.497T>C	c.(496-498)GTC>GCC	p.V166A	NPAS1_uc002pfx.2_5'UTR|NPAS1_uc002pfy.2_Missense_Mutation_p.V166A|NPAS1_uc010xyj.1_5'Flank	NM_002517	NP_002508	Q99742	NPAS1_HUMAN	neuronal PAS domain protein 1	166	PAS 1.				central nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity				0		all_cancers(25;4.31e-08)|all_epithelial(76;2.96e-06)|all_lung(116;7.86e-06)|Lung NSC(112;2.31e-05)|all_neural(266;0.026)|Ovarian(192;0.0392)|Breast(70;0.102)		all cancers(93;6.02e-05)|OV - Ovarian serous cystadenocarcinoma(262;7.35e-05)|Epithelial(262;0.00389)|GBM - Glioblastoma multiforme(486;0.0252)		TCAGAGACAGTCTCCATCTAT	0.557											OREG0025585	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	83					0	0	0.007291	0	0		C	47535965	C	C	47535965	3	2	191	1	0	0	0	0	1	0	0	0	10581	1667	58	3	511	3	NPAS1	19	47535965	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	276123	47535965	11593018	846	96468											
ZC3H4	23211	broad.mit.edu	37	chr19	47569698	47569698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcaccctcgcgggccGgactgttcccagcaaatggg	6	7	12	16	3	1	0	1	0	0	0	3	1	2	1	4	3	2	3	4	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:47569698G>A	uc002pga.3	-	15	3865	c.3827C>T	c.(3826-3828)CCG>CTG	p.P1276L	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	1276							nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		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)		CTCGCGGGCCGGACTGTTCCC	0.637													10	21					0	0	0.008291	0	0		A	47569698	A	A	47569698	3	1	191	1	0	0	0	0	1	0	0	0	17595	1116	39	1	88	1	ZC3H4	19	47569698	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	33733	47569698	11559285	847	96469											
TPRX1	284355	broad.mit.edu	37	chr19	48305502	48305502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggcctgagattgggcctgGgattgggcctgggatcaggc	5	9	19	8	0	1	1	1	1	0	1	1	4	1	3	3	6	0	0	3	6	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:48305502G>A	uc002php.1	-	2	837	c.766C>T	c.(766-768)CCA>TCA	p.P256S		NM_198479	NP_940881	Q8N7U7	TPRX1_HUMAN	tetra-peptide repeat homeobox	256	Gly-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		attgggcctgggattgggcct	0.224													4	16					0	0	0.000602	0	0		A	48305502	A	A	48305502	3	1	191	1	0	0	0	0	1	0	0	0	16448	1232	43	4	473	4	TPRX1	19	48305502	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	735804	48305502	10823481	848	96470											
IL4I1	259307	broad.mit.edu	37	chr19	50399160	50399160	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctctggggcttcagggtcCgattgagcccccaggtcacc	5	8	12	16	1	3	1	2	1	1	0	4	2	4	1	5	4	1	1	5	4	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:50399160C>A	uc002pqt.1	-	3	242	c.164G>T	c.(163-165)CGG>CTG	p.R55L	IL4I1_uc002pqv.1_Missense_Mutation_p.R64L|IL4I1_uc010eno.1_Missense_Mutation_p.R63L|IL4I1_uc002pqw.1_Missense_Mutation_p.R63L|IL4I1_uc002pqu.1_Missense_Mutation_p.R77L	NM_152899	NP_690863	Q96RQ9	OXLA_HUMAN	interleukin 4 induced 1 isoform 1 precursor	55						lysosome	L-amino-acid oxidase activity			lung(1)|ovary(1)|prostate(1)	3		all_lung(116;1.47e-05)|all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00245)|OV - Ovarian serous cystadenocarcinoma(262;0.0169)		CTTCAGGGTCCGATTGAGCCC	0.612													36	133					3.3946e-10	3.78098e-10	0.005524	1	0		A	50399160	A	A	50399160	3	1	191	1	0	0	0	0	1	0	0	0	7713	652	23	5	1563	5	IL4I1	19	50399160	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2093658	50399160	8729823	849	96471											
SIGLEC10	89790	broad.mit.edu	37	chr19	51914440	51914440	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgacgcctgggaagttgagCgtggcataatggagctcctc	8	9	14	10	2	0	2	0	2	0	0	2	4	1	4	2	3	2	3	2	3	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:51914440C>T	uc002pwo.2	-	11	2623	c.2007G>A	c.(2005-2007)ACG>ACA	p.T669T	SIGLEC10_uc002pwp.2_Silent_p.T611T|SIGLEC10_uc002pwq.2_Silent_p.T516T|SIGLEC10_uc002pwr.2_Silent_p.T574T|SIGLEC10_uc010ycy.1_Silent_p.T484T|SIGLEC10_uc010ycz.1_Silent_p.T526T|SIGLEC10_uc010eow.2_Silent_p.T386T	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	669	ITIM motif 2.|Cytoplasmic (Potential).				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GGAAGTTGAGCGTGGCATAAT	0.557													50	160					0	0	0.01441	0	0		T	51914440	T	T	51914440	2	4	191	1	0	0	0	0	0	0	0	1	14331	755	27	1		1	SIGLEC10	19	51914440	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1515280	51914440	7214543	850	96472											
ZNF841	284371	broad.mit.edu	37	chr19	52568436	52568436	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagttgtaaggttctctccaGcatgttttatctgatgttta	8	19	8	6	0	2	1	0	1	2	0	4	1	3	1	1	1	1	6	1	1	4	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:52568436G>T	uc002pyl.1	-	5	2903	c.2351C>A	c.(2350-2352)GCT>GAT	p.A784D	ZNF841_uc010ydh.1_Missense_Mutation_p.A900D|ZNF841_uc010epk.1_Missense_Mutation_p.A476D	NM_001136499	NP_001129971	Q6ZN19	ZN841_HUMAN	zinc finger protein 841	784					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTTCTCTCCAGCATGTTTTAT	0.363													13	38					1.37285e-15	1.5739e-15	0.004007	1	0		T	52568436	T	T	52568436	3	4	191	1	0	0	0	0	1	0	0	0	18214	971	34	5	79	5	ZNF841	19	52568436	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	653996	52568436	6560547	851	96473											
MYADM	91663	broad.mit.edu	37	chr19	54377349	54377349	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgttgcctgcatcatcttcgCgttcatcagcgaccccaacc	7	10	7	17	4	4	0	3	0	1	0	5	1	4	0	4	0	4	3	4	0	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:54377349C>T	uc002qcl.2	+	3	714	c.566C>T	c.(565-567)GCG>GTG	p.A189V	MYADM_uc002qcm.2_Missense_Mutation_p.A189V|MYADM_uc002qcn.2_Missense_Mutation_p.A189V|MYADM_uc002qco.2_Missense_Mutation_p.A189V|MYADM_uc002qcp.2_Missense_Mutation_p.A189V	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	189	MARVEL 2.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		ATCATCTTCGCGTTCATCAGC	0.652													53	125					0	0	0.01441	0	0		T	54377349	T	T	54377349	3	4	191	1	0	0	0	0	1	0	0	0	10024	768	27	1	568	1	MYADM	19	54377349	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1808913	54377349	4751634	852	96474											
LENG8	114823	broad.mit.edu	37	chr19	54965667	54965667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccccctcagcagctgcCgtcggctcagccccctcagc	4	6	10	21	2	3	0	3	0	0	0	5	0	4	0	5	2	5	4	5	2	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:54965667C>T	uc002qfv.1	+	5	518	c.374C>T	c.(373-375)CCG>CTG	p.P125L	LENG8_uc002qfw.2_Missense_Mutation_p.P162L			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	125							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CAGCAGCTGCCGTCGGCTCAG	0.657													18	38					0	0	0.008871	0	0		T	54965667	T	T	54965667	3	4	191	1	0	0	0	0	1	0	0	0	8740	652	23	1	503	1	LENG8	19	54965667	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	588318	54965667	4163316	853	96475											
LILRA2	11027	broad.mit.edu	37	chr19	55087381	55087381	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggcagttccacactttcCttctgaccaaggagggggca	8	8	14	11	0	1	1	0	1	1	0	3	2	3	2	3	5	0	3	3	5	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:55087381C>A	uc002qgg.3	+	6	1149	c.1060C>A	c.(1060-1062)CTT>ATT	p.L354I	LILRA2_uc010ern.2_Missense_Mutation_p.L354I|LILRA2_uc002qgf.2_Missense_Mutation_p.L354I|LILRA2_uc010yfe.1_Missense_Mutation_p.L354I|LILRA2_uc010yff.1_Missense_Mutation_p.L342I|LILRA2_uc010ero.2_Missense_Mutation_p.L342I|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	354	Ig-like C2-type 4.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		CCACACTTTCCTTCTGACCAA	0.597													19	63					2.4624e-09	2.72605e-09	0.008871	1	0		A	55087381	A	A	55087381	3	1	191	1	0	0	0	0	1	0	0	0	8801	681	24	5	1082	5	LILRA2	19	55087381	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	121714	55087381	4041602	854	96476											
ZNF524	147807	broad.mit.edu	37	chr19	56113688	56113688	+	Frame_Shift_Del	DEL	G	-	-																															cccccactggtgcaggtgcaGggggtgacagccccagtagg																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:56113688delG	uc002qlk.1	+	2	293	c.210delG	c.(208-210)CAGfs	p.Q70fs	FIZ1_uc002qli.3_5'Flank|FIZ1_uc002qlj.3_5'Flank	NM_153219	NP_694951	Q96C55	ZN524_HUMAN	zinc finger protein 524	70					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TGCAGGTGCAGGGGGTGACAG	0.672													3	4	---	---	---	---						.	-	56113688	-	-	56113688	7	5	191	1	0	1	0	1	0	0	0	0	17991	991	35	0	212	0	ZNF524	19	56113688	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	1026307	56113688	3015295	855	96477											
NLRP8	126205	broad.mit.edu	37	chr19	56477621	56477621	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgttgaaccaggacttaatCggtgttttgacggggaacca	11	11	12	7	2	0	2	0	2	0	0	1	4	0	4	2	4	2	2	2	4	3	4	rs61740147	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:56477621C>T	uc002qmh.2	+	5	2327	c.2256C>T	c.(2254-2256)ATC>ATT	p.I752I	NLRP8_uc010etg.2_Silent_p.I752I	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	752						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		AGGACTTAATCGGTGTTTTGA	0.502													24	125					0	0	0.00278	0	0		T	56477621	T	T	56477621	2	4	191	1	0	0	0	0	0	0	0	1	10502	874	31	1		1	NLRP8	19	56477621	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	363933	56477621	2651362	856	96478											
ZNF667	63934	broad.mit.edu	37	chr19	56969550	56969550	+	Missense_Mutation	SNP	T	A	A	0	1	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	cccggcgtcttcttactggcTctaccatccagggtgctttc	4	13	9	15	2	3	0	0	0	3	0	5	0	4	0	3	3	3	2	3	3	2	4	rs139445582		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:56969550T>A	uc002qnd.2	-	4	389	c.227A>T	c.(226-228)GAG>GTG	p.E76V	ZNF667_uc010etl.2_5'UTR|ZNF667_uc002qne.2_Missense_Mutation_p.E76V|ZNF667_uc010etm.2_5'UTR	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	76	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		TCTTACTGGCTCTACCATCCA	0.368													22	62					0	0	0.014323	0	0		A	56969550	A	A	56969550	3	1	191	1	0	0	0	0	1	0	0	0	18099	1551	54	5	1613	5	ZNF667	19	56969550	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	491929	56969550	2159433	857	96479											
ZNF460	10794	broad.mit.edu	37	chr19	57802483	57802483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcatgagcagattctccctCgtgtgaagccctatgattgc	9	11	10	11	1	1	4	0	3	1	1	3	4	1	4	2	0	4	2	2	0	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr19:57802483C>T	uc002qog.2	+	3	896	c.574C>T	c.(574-576)CGT>TGT	p.R192C	ZNF460_uc010ygv.1_Missense_Mutation_p.R151C	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	192					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GATTCTCCCTCGTGTGAAGCC	0.438													9	96					0	0	0.008291	0	0		T	57802483	T	T	57802483	3	4	191	1	0	0	0	0	1	0	0	0	17949	884	31	1	584	1	ZNF460	19	57802483	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	832933	57802483	1326500	858	96480											
TGM6	343641	broad.mit.edu	37	chr20	2378642	2378642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaacccagccaccgacGtgtcctgccgccacaacccc	12	3	6	20	3	0	0	0	0	0	0	1	1	1	0	8	0	5	0	8	0	4	0	rs61743614	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:2378642G>A	uc002wfy.1	+	5	683	c.622G>A	c.(622-624)GTG>ATG	p.V208M	TGM6_uc010gal.1_Missense_Mutation_p.V208M	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	208					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	AGCCACCGACGTGTCCTGCCG	0.592													31	31					0	0	0.009535	0	0		A	2378642	A	A	2378642	3	1	191	1	0	0	0	0	1	0	0	0	15859	1145	40	1	640	1	TGM6	20	2378642	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08		2378642	60646878	859	96481											
NOP56	10528	broad.mit.edu	37	chr20	2635586	2635586	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatcaataccttctctatgCgtgtcaggtaaagtgcaggg	11	11	10	9	1	3	0	2	0	1	0	4	0	3	0	1	2	3	2	1	2	5	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:2635586C>T	uc002wgh.2	+	5	615	c.562C>T	c.(562-564)CGT>TGT	p.R188C	NOP56_uc010zpy.1_RNA|NOP56_uc002wgi.2_Missense_Mutation_p.R22C|SNORA51_uc002wgk.1_5'Flank|NOP56_uc002wgm.1_5'Flank|SNORD86_uc010gaq.1_5'Flank|SNORD56_uc010gar.2_5'Flank|SNORD57_uc002wgo.1_5'Flank	NM_006392	NP_006383	O00567	NOP56_HUMAN	nucleolar protein 5A	188					rRNA processing	box C/D snoRNP complex|pre-snoRNP complex	protein binding|snoRNA binding			ovary(1)|pancreas(1)	2						CTTCTCTATGCGTGTCAGGTA	0.463													33	154					0	0	0.003271	0	0		T	2635586	T	T	2635586	3	4	191	1	0	0	0	0	1	0	0	0	10558	768	27	1	580	1	NOP56	20	2635586	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	256944	2635586	60389934	860	96482											
PLCB4	5332	broad.mit.edu	37	chr20	9449312	9449312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatcaagaataaagcagaaCgggaaaggtaagtctgagag	18	6	12	5	1	2	3	1	1	1	3	2	5	2	4	0	2	2	2	0	2	8	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:9449312C>T	uc002wnf.2	+	34	3443	c.3307C>T	c.(3307-3309)CGG>TGG	p.R1103W	PLCB4_uc010gbx.2_Missense_Mutation_p.R1115W|PLCB4_uc002wne.2_Missense_Mutation_p.R1103W|PLCB4_uc002wnh.2_Missense_Mutation_p.R950W	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	1103					intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						TAAAGCAGAACGGGAAAGGTA	0.418													27	120					0	0	0.004656	0	0		T	9449312	T	T	9449312	3	4	191	1	0	0	0	0	1	0	0	0	12049	527	19	1	3473	1	PLCB4	20	9449312	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6813726	9449312	53576208	861	96483											
C20orf12	55184	broad.mit.edu	37	chr20	18365044	18365044	+	Nonstop_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccgtggaggcctcagggcTaacagtcatccaggctgagg	8	7	14	12	1	2	1	2	1	0	0	4	2	4	2	3	5	1	2	3	5	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:18365044T>C	uc010zsa.1	-	21	2524	c.2315A>G	c.(2314-2316)TAG>TGG	p.*772W	C20orf12_uc010zrz.1_Nonstop_Mutation_p.*291W|C20orf12_uc002wqp.3_Nonstop_Mutation_p.*463W|C20orf12_uc002wqr.3_RNA|C20orf12_uc002wqs.3_Nonstop_Mutation_p.*639W|C20orf12_uc002wqq.3_Nonstop_Mutation_p.*753W	NM_001099407	NP_001092877	Q9NVP4	CT012_HUMAN	hypothetical protein LOC55184	772						intracellular	zinc ion binding			ovary(1)	1		Myeloproliferative disorder(85;0.0122)				GCCTCAGGGCTAACAGTCATC	0.388													4	30					0	0	0.009096	0	0		C	18365044	C	C	18365044	4	2	191	1	0	0	0	0	0	0	0	0	2088	1535	53	3	4	3	C20orf12	20	18365044	Nonstop_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	8915732	18365044	44660476	862	96484											
ACSS1	84532	broad.mit.edu	37	chr20	25038512	25038512	+	Missense_Mutation	SNP	A	G	G	1	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	acacgagagtgtcccgcgccAgaggcccccagaaggcggcc	9	2	14	16	4	0	3	0	0	0	3	1	4	1	3	5	3	0	0	5	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:25038512A>G	uc002wub.2	-	1	1105	c.227T>C	c.(226-228)CTG>CCG	p.L76P	ACSS1_uc002wuc.2_Missense_Mutation_p.L76P|ACSS1_uc010gdc.2_Missense_Mutation_p.L76P	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	76					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GTCCCGCGCCAGAGGCCCCCA	0.672													25	60					0	0	0.00333	0	0		G	25038512	G	G	25038512	3	3	191	1	0	0	0	0	1	0	0	0	188	188	7	3	1898	3	ACSS1	20	25038512	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	6673468	25038512	37987008	863	96485											
MYLK2	85366	broad.mit.edu	37	chr20	30419926	30419926	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcttaagaaatacctcatgaAgaggcgctggaaggtaccgc	13	7	12	9	2	1	3	1	1	0	2	1	4	1	4	2	3	2	3	2	3	6	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:30419926A>T	uc002wwq.2	+	12	1799	c.1697A>T	c.(1696-1698)AAG>ATG	p.K566M	MYLK2_uc002wws.2_Missense_Mutation_p.K183M|MYLK2_uc010gdw.1_RNA	NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase	566					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			TACCTCATGAAGAGGCGCTGG	0.582													6	24					0	0	0.00308	0	0		T	30419926	T	T	30419926	3	4	191	1	0	0	0	0	1	0	0	0	10075	72	3	5	1739	5	MYLK2	20	30419926	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	5381414	30419926	32605594	864	96486											
TTLL9	164395	broad.mit.edu	37	chr20	30497561	30497561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacccggaagaactacatgGtgaagaacctgaagcggttc	13	7	12	9	2	0	5	0	3	0	2	1	6	0	6	2	3	4	1	2	3	6	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:30497561G>A	uc010gdx.1	+	6	593	c.340G>A	c.(340-342)GTG>ATG	p.V114M	TTLL9_uc002wwy.1_RNA|TTLL9_uc002wwz.1_RNA|TTLL9_uc002wxa.1_RNA|TTLL9_uc002wxb.1_RNA|TTLL9_uc010zto.1_RNA|TTLL9_uc002wxc.2_Intron|TTLL9_uc010ztp.1_RNA|TTLL9_uc010ztq.1_RNA	NM_001008409	NP_001008409	Q3SXZ7	TTLL9_HUMAN	tubulin tyrosine ligase-like family, member 9	114	TTL.				protein modification process	cilium|microtubule|microtubule basal body	ATP binding|tubulin-tyrosine ligase activity			ovary(2)	2			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GAACTACATGGTGAAGAACCT	0.607													10	38					0	0	0.010729	0	0		A	30497561	A	A	30497561	3	1	191	1	0	0	0	0	1	0	0	0	16760	1261	44	4	358	4	TTLL9	20	30497561	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	77635	30497561	32527959	865	96487											
TM9SF4	9777	broad.mit.edu	37	chr20	30730868	30730868	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggagcacacgtaccgtgtCgtccgcttcgaggtgattcc	7	9	12	13	5	0	1	0	1	0	0	4	3	2	2	3	2	2	3	3	2	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:30730868C>T	uc002wxj.2	+	6	847	c.612C>T	c.(610-612)GTC>GTT	p.V204V	TM9SF4_uc010ztr.1_Silent_p.V130V|TM9SF4_uc010zts.1_Silent_p.V111V|TM9SF4_uc002wxk.2_Silent_p.V187V|TM9SF4_uc010gdz.2_Silent_p.V111V	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	204						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CGTACCGTGTCGTCCGCTTCG	0.592													9	87					0	0	0.008291	0	0		T	30730868	T	T	30730868	2	4	191	1	0	0	0	0	0	0	0	1	16005	871	31	1		1	TM9SF4	20	30730868	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	233307	30730868	32294652	866	96488											
TM9SF4	9777	broad.mit.edu	37	chr20	30734633	30734633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaccctccggaaggacattgCcaactacaacaaggaggatg	14	5	11	11	1	0	0	0	0	0	0	1	5	1	4	3	4	4	0	3	4	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:30734633C>T	uc002wxj.2	+	9	1164	c.929C>T	c.(928-930)GCC>GTC	p.A310V	TM9SF4_uc010ztr.1_Missense_Mutation_p.A236V|TM9SF4_uc010zts.1_Missense_Mutation_p.A217V|TM9SF4_uc002wxk.2_Missense_Mutation_p.A293V|TM9SF4_uc010gdz.2_Missense_Mutation_p.A217V	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	310						integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			AAGGACATTGCCAACTACAAC	0.532													6	37					0	0	0.001168	0	0		T	30734633	T	T	30734633	3	4	191	1	0	0	0	0	1	0	0	0	16005	739	26	2	963	2	TM9SF4	20	30734633	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3765	30734633	32290887	867	96489											
ASXL1	171023	broad.mit.edu	37	chr20	31024830	31024830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccaactcagcatcaagcagGcattttatgggaagctttct	11	11	8	11	0	3	0	2	0	1	0	3	1	3	1	1	2	4	4	1	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:31024830G>A	uc002wxs.2	+	12	4741	c.4315G>A	c.(4315-4317)GCA>ACA	p.A1439T	ASXL1_uc010geb.2_Missense_Mutation_p.A1330T	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1439					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						CATCAAGCAGGCATTTTATGG	0.517			F|N|Mis		MDS|CMML								6	158					0	0	0.00308	0	0		A	31024830	A	A	31024830	3	1	191	1	0	0	0	0	1	0	0	0	1067	1203	42	2	4371	2	ASXL1	20	31024830	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	290197	31024830	32000690	868	96490											
CBFA2T2	9139	broad.mit.edu	37	chr20	32232401	32232401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacctcggcaaccacatcGcgttcctcaacacctgcttc	10	8	6	17	3	1	1	1	0	0	1	5	1	2	1	4	1	3	3	4	1	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:32232401G>A	uc002wzg.1	+	12	2301	c.1764G>A	c.(1762-1764)TCG>TCA	p.S588S	CBFA2T2_uc010zug.1_Silent_p.S362S|CBFA2T2_uc002wze.1_Silent_p.S579S|CBFA2T2_uc002wzf.1_RNA|CBFA2T2_uc002wzh.1_Silent_p.S559S|CBFA2T2_uc002wzi.1_RNA|CBFA2T2_uc002wzj.1_RNA|CBFA2T2_uc002wzk.1_Silent_p.S136S	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit	588						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						CAACCACATCGCGTTCCTCAA	0.637													48	113					0	0	0.01441	0	0		A	32232401	A	A	32232401	2	1	191	1	0	0	0	0	0	0	0	1	2700	1074	38	1		1	CBFA2T2	20	32232401	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1207571	32232401	30793119	869	96491											
RALY	22913	broad.mit.edu	37	chr20	32660136	32660136	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctggccgggcagaccctgGgtaagcctctcttcactata	7	10	11	13	1	2	1	1	0	1	1	3	1	2	1	3	3	2	3	3	3	3	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:32660136G>T	uc002xab.2	+	3	554	c.256G>T	c.(256-258)GAC>TAC	p.D86Y	RALY_uc010zui.1_Missense_Mutation_p.D86Y|RALY_uc002xac.2_Missense_Mutation_p.D86Y|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Missense_Mutation_p.D86Y	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	86	RRM.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						GCAGACCCTGGGTAAGCCTCT	0.537													21	91					3.7963e-18	4.37513e-18	0.00333	1	0		T	32660136	T	T	32660136	3	4	191	1	0	0	0	0	1	0	0	0	13044	1246	43	5	258	5	RALY	20	32660136	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	427735	32660136	30365384	870	96492											
RALY	22913	broad.mit.edu	37	chr20	32664877	32664877	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggtggcgccggcggcggcggCggtggtggtggcagcggtgg	1	5	26	9	7	0	0	0	0	0	0	0	0	0	0	1	12	1	1	1	12	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:32664877C>T	uc002xab.2	+	8	1000	c.702C>T	c.(700-702)GGC>GGT	p.G234G	RALY_uc002xac.2_Silent_p.G218G|RALY_uc002xad.2_RNA|RALY_uc002xae.1_Silent_p.G234G	NM_016732	NP_057951	Q9UKM9	RALY_HUMAN	RNA binding protein (autoantigenic,	234	Epitope (recognized by BKRF1 antibodies).|Poly-Gly.					catalytic step 2 spliceosome|heterogeneous nuclear ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(1)	1						gcggcggcggcggtggtggtg	0.353													6	21					0	0	0.001168	0	0		T	32664877	T	T	32664877	2	4	191	1	0	0	0	0	0	0	0	1	13044	755	27	1		1	RALY	20	32664877	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4741	32664877	30360643	871	96493											
PHF20	51230	broad.mit.edu	37	chr20	34526919	34526919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctctgccctcgacgatgcGgtcaaccccctccatgagaa	8	7	10	16	3	2	1	1	1	1	1	4	4	3	1	4	2	3	1	4	2	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:34526919G>A	uc002xek.1	+	16	2712	c.2601G>A	c.(2599-2601)GCG>GCA	p.A867A		NM_016436	NP_057520	Q9BVI0	PHF20_HUMAN	PHD finger protein 20	867					regulation of transcription, DNA-dependent|transcription, DNA-dependent	MLL1 complex	DNA binding|zinc ion binding			ovary(1)	1	Breast(12;0.00631)|all_lung(11;0.0145)					TCGACGATGCGGTCAACCCCC	0.622													25	68					0	0	0.00333	0	0		A	34526919	A	A	34526919	2	1	191	1	0	0	0	0	0	0	0	1	11850	1103	39	1		1	PHF20	20	34526919	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1862042	34526919	28498601	872	96494											
EPB41L1	2036	broad.mit.edu	37	chr20	34785928	34785928	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgccctcctcccccgcctccCcctcccccaagggcacccct	3	6	5	27	1	0	0	0	0	0	0	4	0	4	0	11	1	1	1	11	1	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:34785928C>G	uc002xfb.2	+	14	1804	c.1633C>G	c.(1633-1635)CCC>GCC	p.P545A	EPB41L1_uc002xeu.2_Missense_Mutation_p.P471A|EPB41L1_uc010zvo.1_Missense_Mutation_p.P545A|EPB41L1_uc002xev.2_Missense_Mutation_p.P545A|EPB41L1_uc002xew.2_Missense_Mutation_p.P436A|EPB41L1_uc002xex.2_Missense_Mutation_p.P502A|EPB41L1_uc002xey.2_Missense_Mutation_p.P460A|EPB41L1_uc002xez.2_Missense_Mutation_p.P471A|EPB41L1_uc010gfq.2_5'UTR	NM_012156	NP_036288	Q9H4G0	E41L1_HUMAN	erythrocyte membrane protein band 4.1-like 1	545					cortical actin cytoskeleton organization|synaptic transmission	cytoskeleton|cytosol|extrinsic to membrane|plasma membrane	actin binding|structural molecule activity			ovary(2)|pancreas(1)	3	Breast(12;0.0239)					CCCCGCCTCCCCCTCCCCCAA	0.612													18	75					0	0	0.010504	0	0		G	34785928	G	G	34785928	3	3	191	1	0	0	0	0	1	0	0	0	5160	623	22	5	1683	5	EPB41L1	20	34785928	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	259009	34785928	28239592	873	96495											
DHX35	60625	broad.mit.edu	37	chr20	37634835	37634835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacctctatcacaatcagcgGcattgtgtatgtgatcgact	11	12	8	10	2	3	1	2	1	1	0	4	2	3	1	1	1	2	2	1	1	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:37634835G>A	uc002xjh.2	+	12	1069	c.1058G>A	c.(1057-1059)GGC>GAC	p.G353D	DHX35_uc010zwa.1_Missense_Mutation_p.G198D|DHX35_uc010zwb.1_Missense_Mutation_p.G198D|DHX35_uc010zwc.1_Missense_Mutation_p.G322D	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	353	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				ACAATCAGCGGCATTGTGTAT	0.453													11	654					0	0	0.003163	0	0		A	37634835	A	A	37634835	3	1	191	1	0	0	0	0	1	0	0	0	4514	1203	42	2	1104	2	DHX35	20	37634835	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2848907	37634835	25390685	874	96496											
PLCG1	5335	broad.mit.edu	37	chr20	39798904	39798904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggcccagacagcagacGccagggtgagattctgctgg	10	6	15	10	1	1	3	0	1	1	3	1	4	1	3	2	3	2	2	2	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:39798904G>A	uc002xjp.1	+	24	2924	c.2803G>A	c.(2803-2805)GCC>ACC	p.A935T	PLCG1_uc002xjo.1_Missense_Mutation_p.A935T|PLCG1_uc010zwe.1_Missense_Mutation_p.A561T|PLCG1_uc010ggf.2_Missense_Mutation_p.A259T	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	935					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				GACAGCAGACGCCAGGGTGAG	0.647													15	62					0	0	0.003163	0	0		A	39798904	A	A	39798904	3	1	191	1	0	0	0	0	1	0	0	0	12054	1087	38	1	2897	1	PLCG1	20	39798904	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2164069	39798904	23226616	875	96497											
CHD6	84181	broad.mit.edu	37	chr20	40081514	40081514	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgaaaactccatgagctcGtcttcctcaaacgagttgta	11	12	7	11	2	3	2	1	2	2	0	6	3	5	2	2	0	3	3	2	0	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:40081514G>A	uc002xka.1	-	21	3367	c.3189C>T	c.(3187-3189)GAC>GAT	p.D1063D		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1063					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				CCATGAGCTCGTCTTCCTCAA	0.522													27	79					0	0	0.003954	0	0		A	40081514	A	A	40081514	2	1	191	1	0	0	0	0	0	0	0	1	3332	1136	40	1		1	CHD6	20	40081514	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	282610	40081514	22944006	876	96498											
SPINLW1	57119	broad.mit.edu	37	chr20	44171359	44171359	+	Missense_Mutation	SNP	A	C	C	1	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	gtttattcttgcaggtgttcAggcagttggctttggattgg	5	17	14	5	0	2	0	1	0	1	0	2	1	2	1	0	5	1	6	0	5	1	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:44171359A>C	uc002xou.2	-	3	403	c.371T>G	c.(370-372)CTG>CGG	p.L124R	SPINLW1_uc010zxc.1_Missense_Mutation_p.L124R|SPINLW1_uc002xot.2_Missense_Mutation_p.L108R|SPINLW1_uc002xov.1_3'UTR	NM_020398	NP_065131	O95925	EPPI_HUMAN	serine peptidase inhibitor-like, with Kunitz and	124	BPTI/Kunitz inhibitor.					extracellular region	serine-type endopeptidase inhibitor activity			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				GCAGGTGTTCAGGCAGTTGGC	0.498													43	193					0	0	0.011902	0	0		C	44171359	C	C	44171359	3	2	191	1	0	0	0	0	1	0	0	0	15092	188	7	5	38	5	SPINLW1	20	44171359	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	4089845	44171359	18854161	877	96499											
ARFGEF2	10564	broad.mit.edu	37	chr20	47592562	47592562	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctccgcaggtcaggagaGgctcacggatcaggaaatag	11	8	13	9	2	4	1	3	0	1	1	5	4	4	3	1	5	0	2	1	5	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:47592562G>T	uc002xtx.3	+	14	1936	c.1784G>T	c.(1783-1785)AGG>ATG	p.R595M		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	595					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			GGTCAGGAGAGGCTCACGGAT	0.552													14	43					4.7546e-09	5.25307e-09	0.004007	1	0		T	47592562	T	T	47592562	3	4	191	1	0	0	0	0	1	0	0	0	853	1000	35	5	1838	5	ARFGEF2	20	47592562	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3421203	47592562	15432958	878	96500											
STAU1	6780	broad.mit.edu	37	chr20	47734557	47734557	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacagcctgggcgacctcGggcaccatgggaagaattcc	9	6	12	14	2	0	1	0	0	0	1	2	3	1	2	5	3	2	1	5	3	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:47734557G>A	uc002xud.2	-	11	1677	c.1266C>T	c.(1264-1266)CCC>CCT	p.P422P	STAU1_uc002xua.2_Silent_p.P341P|STAU1_uc002xub.2_Silent_p.P347P|STAU1_uc002xuc.2_Silent_p.P341P|STAU1_uc002xue.2_Silent_p.P341P|STAU1_uc002xuf.2_Silent_p.P347P|STAU1_uc002xug.2_Silent_p.P422P	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	422						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			GGGCGACCTCGGGCACCATGG	0.517													46	168					0	0	0.01441	0	0		A	47734557	A	A	47734557	2	1	191	1	0	0	0	0	0	0	0	1	15297	1103	39	1		1	STAU1	20	47734557	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	141995	47734557	15290963	879	96501											
PARD6B	84612	broad.mit.edu	37	chr20	49354499	49354499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataagatccccaatgttgacGttttggtaggctatgcagac	11	12	10	8	1	0	3	0	1	0	2	1	3	1	3	2	2	1	5	2	2	4	6	rs142377445		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:49354499G>A	uc002xvo.2	+	2	415	c.172G>A	c.(172-174)GTT>ATT	p.V58I		NM_032521	NP_115910	Q9BYG5	PAR6B_HUMAN	PAR-6 beta	58	OPR.				axonogenesis|cell cycle|cell division|establishment or maintenance of cell polarity|protein complex assembly|regulation of cell migration|tight junction assembly	cytosol|tight junction	protein binding			kidney(1)	1						CAATGTTGACGTTTTGGTAGG	0.383													18	55					0	0	0.006122	0	0		A	49354499	A	A	49354499	3	1	191	1	0	0	0	0	1	0	0	0	11465	1145	40	1	178	1	PARD6B	20	49354499	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1619942	49354499	13671021	880	96502											
ADNP	23394	broad.mit.edu	37	chr20	49510515	49510515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgacctgatagcctatacGttcatggtcttcgatgacat	10	13	9	9	2	2	3	1	3	1	0	3	4	2	3	2	1	2	1	2	1	3	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:49510515G>A	uc002xvt.1	-	5	1081	c.736C>T	c.(736-738)CGT>TGT	p.R246C	ADNP_uc002xvu.1_Missense_Mutation_p.R246C	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	246						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TAGCCTATACGTTCATGGTCT	0.468													18	73					0	0	0.007413	0	0		A	49510515	A	A	49510515	3	1	191	1	0	0	0	0	1	0	0	0	323	1145	40	1	2576	1	ADNP	20	49510515	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	156016	49510515	13515005	881	96503											
ATP9A	10079	broad.mit.edu	37	chr20	50346505	50346505	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctccaccgcagcatctcagCcactcgcagcacctgtggga	8	6	9	18	2	1	0	1	0	1	0	4	1	2	1	5	1	3	4	5	1	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:50346505C>T	uc002xwg.1	-	2	81	c.81G>A	c.(79-81)TGG>TGA	p.W27*	ATP9A_uc010gih.1_Nonsense_Mutation_p.W12*	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	27	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						AGCATCTCAGCCACTCGCAGC	0.602													41	139					0	0	0.01441	0	0		T	50346505	T	T	50346505	4	4	191	1	0	0	0	0	0	1	0	0	1199	740	26	2	3170	2	ATP9A	20	50346505	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	835990	50346505	12679015	882	96504											
CSTF1	1477	broad.mit.edu	37	chr20	54974190	54974190	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atatgttccgttaattacaaTtctagtgccaatatgtacgt	12	16	6	7	2	1	0	0	0	1	0	2	0	2	0	2	0	3	3	2	0	8	8			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:54974190T>A	uc002xxl.1	+	5	1013	c.813T>A	c.(811-813)AAT>AAA	p.N271K	CSTF1_uc002xxm.1_Missense_Mutation_p.N271K|CSTF1_uc002xxn.1_Missense_Mutation_p.N271K|CSTF1_uc002xxo.1_Missense_Mutation_p.N214K	NM_001033521	NP_001028693	Q05048	CSTF1_HUMAN	cleavage stimulation factor subunit 1	271	WD 4.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding			central_nervous_system(1)	1			Colorectal(105;0.202)			TTAATTACAATTCTAGTGCCA	0.393													60	179					0	0	0.01441	0	0		A	54974190	A	A	54974190	3	1	191	1	0	0	0	0	1	0	0	0	3986	1490	52	5	827	5	CSTF1	20	54974190	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	4627685	54974190	8051330	883	96505											
PHACTR3	116154	broad.mit.edu	37	chr20	58420272	58420272	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtaaagaattaaatgagtAcaaaagtaatgaaatggagg	20	9	10	2	1	0	3	0	2	0	1	1	4	0	4	0	2	1	3	0	2	10	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:58420272A>G	uc002yau.2	+	12	2083	c.1616A>G	c.(1615-1617)TAC>TGC	p.Y539C	PHACTR3_uc002yat.2_Missense_Mutation_p.Y536C|PHACTR3_uc010zzw.1_Missense_Mutation_p.Y498C|PHACTR3_uc002yav.2_Missense_Mutation_p.Y498C|PHACTR3_uc002yaw.2_Missense_Mutation_p.Y498C|PHACTR3_uc002yax.2_Missense_Mutation_p.Y428C|PHACTR3_uc002yay.2_Missense_Mutation_p.Y108C	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	539						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			TTAAATGAGTACAAAAGTAAT	0.313													3	20					0	0	0.004672	0	0		G	58420272	G	G	58420272	3	3	191	1	0	0	0	0	1	0	0	0	11830	391	14	3	1662	3	PHACTR3	20	58420272	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08	3446082	58420272	4605248	884	96506											
PPP1R3D	5509	broad.mit.edu	37	chr20	58514392	58514392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agccacctgcttctcgaaggCcacgttgcacacgcgcaccg	8	6	10	17	5	1	0	0	0	1	0	2	1	1	0	4	1	3	4	4	1	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:58514392C>T	uc002ybb.2	-	1	961	c.595G>A	c.(595-597)GCC>ACC	p.A199T	C20orf177_uc002yba.2_Intron|C20orf177_uc010zzx.1_5'Flank|C20orf177_uc002ybc.2_5'Flank	NM_006242	NP_006233	O95685	PPR3D_HUMAN	protein phosphatase 1, regulatory subunit 3D	199	CBM21.				glycogen metabolic process		protein binding|protein serine/threonine phosphatase activity				0	all_lung(29;0.00391)		BRCA - Breast invasive adenocarcinoma(7;5.12e-09)			TTCTCGAAGGCCACGTTGCAC	0.701													16	40					0	0	0.003163	0	0		T	58514392	T	T	58514392	3	4	191	1	0	0	0	0	1	0	0	0	12396	739	26	2	308	2	PPP1R3D	20	58514392	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	94120	58514392	4511128	885	96507											
CDH4	1002	broad.mit.edu	37	chr20	60509202	60509202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcgcgtggatgagcggcCggtgggcgctgagccccagt	4	6	19	12	6	0	2	0	2	0	0	1	3	0	3	3	4	2	1	3	4	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:60509202C>T	uc002ybn.1	+	15	2482	c.2468C>T	c.(2467-2469)CCG>CTG	p.P823L	CDH4_uc002ybp.1_Missense_Mutation_p.P749L	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	823	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GATGAGCGGCCGGTGGGCGCT	0.677													13	58					0	0	0.001855	0	0		T	60509202	T	T	60509202	3	4	191	1	0	0	0	0	1	0	0	0	3115	652	23	1	2526	1	CDH4	20	60509202	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1994810	60509202	2516318	886	96508											
TAF4	6874	broad.mit.edu	37	chr20	60551346	60551346	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgcgtgaactgtctgggggTtccgacacccgagctgcctg	5	9	14	13	4	1	1	0	1	1	0	3	3	2	1	3	2	3	2	3	2	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:60551346T>G	uc002ybs.2	-	15	3136	c.3136A>C	c.(3136-3138)ACC>CCC	p.T1046P		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	1046					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			TGTCTGGGGGTTCCGACACCC	0.557													39	169					0	0	0.013114	0	0		G	60551346	G	G	60551346	3	3	191	1	0	0	0	0	1	0	0	0	15551	1725	60	5	125	5	TAF4	20	60551346	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	42144	60551346	2474174	887	96509											
GMEB2	26205	broad.mit.edu	37	chr20	62223391	62223391	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacctgccaggtcccgggcGtactgctcccgcgagcggtc	5	7	13	16	5	0	0	0	0	0	0	3	1	2	0	4	3	5	2	4	3	2	2	rs145663342		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:62223391G>A	uc002yfp.1	-	8	1415	c.936C>T	c.(934-936)TAC>TAT	p.Y312Y	GMEB2_uc002yfo.1_Silent_p.Y234Y|GMEB2_uc002yfq.1_Silent_p.Y312Y	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	312	Potential.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			GGTCCCGGGCGTACTGCTCCC	0.647													25	60					0	0	0.00632	0	0		A	62223391	A	A	62223391	2	1	191	1	0	0	0	0	0	0	0	1	6503	1140	40	1		1	GMEB2	20	62223391	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1672045	62223391	802129	888	96510											
ZBTB46	140685	broad.mit.edu	37	chr20	62421759	62421759	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagtcgtggcaggcttgcaCgatgtccgtcatctgcagga	8	9	14	10	3	2	0	1	0	1	0	4	3	3	1	1	3	2	4	1	3	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr20:62421759C>T	uc002ygv.1	-	2	553	c.352G>A	c.(352-354)GTG>ATG	p.V118M	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	118					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CAGGCTTGCACGATGTCCGTC	0.602													19	32					0	0	0.008871	0	0		T	62421759	T	T	62421759	3	4	191	1	0	0	0	0	1	0	0	0	17572	536	19	1	1433	1	ZBTB46	20	62421759	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	198368	62421759	603761	889	96511											
NCAM2	4685	broad.mit.edu	37	chr21	22849643	22849643	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaccaatggctagagaaaaAagtgcaaggaaataaagacc	21	4	10	6	0	0	3	0	0	0	3	0	5	0	4	2	2	1	2	2	2	9	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:22849643A>G	uc002yld.1	+	15	2177	c.1928A>G	c.(1927-1929)AAA>AGA	p.K643R	NCAM2_uc011acb.1_Missense_Mutation_p.K501R	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	643	Fibronectin type-III 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CTAGAGAAAAAAGTGCAAGGA	0.353													18	30					0	0	0.007413	0	0		G	22849643	G	G	22849643	3	3	191	1	0	0	0	0	1	0	0	0	10222	14	1	3	1986	3	NCAM2	21	22849643	Missense_Mutation	SNP	A	TCGA-F1-6874-01A-11D-1882-08		22849643	25280252	890	96512											
NCAM2	4685	broad.mit.edu	37	chr21	22881367	22881367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaactcgaagaaggaaaagCtgcatacctgtgagtatcag	16	7	11	7	1	1	3	1	1	0	2	2	5	1	4	1	1	4	3	1	1	7	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:22881367C>T	uc002yld.1	+	16	2522	c.2273C>T	c.(2272-2274)GCT>GTT	p.A758V	NCAM2_uc011acb.1_Missense_Mutation_p.A616V	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	758	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		GAAGGAAAAGCTGCATACCTG	0.453													13	33					0	0	0.013537	0	0		T	22881367	T	T	22881367	3	4	191	1	0	0	0	0	1	0	0	0	10222	797	28	2	2335	2	NCAM2	21	22881367	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	31724	22881367	25248528	891	96513											
RNF160	26046	broad.mit.edu	37	chr21	30339315	30339315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttctggctcactgattttcgCaacacagatctctgacagtc	9	13	7	12	1	3	3	1	2	2	1	6	3	3	3	0	1	1	2	0	1	1	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:30339315C>T	uc002ymr.2	-	10	1649	c.1636G>A	c.(1636-1638)GCG>ACG	p.A546T	RNF160_uc010gll.1_RNA	NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	500							ligase activity|zinc ion binding				0						CTGATTTTCGCAACACAGATC	0.438													18	160					0	0	0.007413	0	0		T	30339315	T	T	30339315	3	4	191	1	0	0	0	0	1	0	0	0	13480	710	25	2	3886	2	RNF160	21	30339315	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7457948	30339315	17790580	892	96514											
KRTAP19-4	337971	broad.mit.edu	37	chr21	31869351	31869351	+	Silent	SNP	G	T	T	0	0	1	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	cggaagctgccacatccacaGccatagccatagcctaggcc	11	5	9	16	1	0	0	0	0	0	0	1	1	1	1	6	2	5	1	6	2	4	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:31869351G>T	uc011acz.1	-	1	78	c.78C>A	c.(76-78)GGC>GGA	p.G26G		NM_181610	NP_853641	Q3LI73	KR194_HUMAN	keratin associated protein 19-4	26						intermediate filament				ovary(2)	2						CACATCCACAGCCATAGCCAT	0.547													68	178					1.68946e-44	2.00178e-44	0.01441	1	0		T	31869351	T	T	31869351	2	4	191	1	0	0	0	0	0	0	0	1	8547	958	34	5		5	KRTAP19-4	21	31869351	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1530036	31869351	16260544	893	96515											
TIAM1	7074	broad.mit.edu	37	chr21	32496898	32496898	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaatcttttgcctccaaaAgggacatattgctgggatga	12	11	9	9	0	1	1	0	1	1	0	2	3	2	3	2	2	2	1	2	2	4	4			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:32496898A>G	uc002yow.1	-	28	4720	c.4248T>C	c.(4246-4248)CCT>CCC	p.P1416P	TIAM1_uc011adk.1_Silent_p.P1416P|TIAM1_uc011adl.1_Silent_p.P1356P	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1416					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						TGCCTCCAAAAGGGACATATT	0.537													23	57					0	0	0.004656	0	0		G	32496898	G	G	32496898	2	3	191	1	0	0	0	0	0	0	0	1	15915	59	3	3		3	TIAM1	21	32496898	Silent	SNP	A	TCGA-F1-6874-01A-11D-1882-08	627547	32496898	15632997	894	96516											
GART	2618	broad.mit.edu	37	chr21	34889350	34889350	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatgttctctagtaatcCtccaccagtaatatgggcaa	11	11	10	9	0	1	0	0	0	1	0	4	1	3	1	3	3	0	4	3	3	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:34889350C>A	uc002yrx.2	-	16	2188	c.2053G>T	c.(2053-2055)GGA>TGA	p.G685*	GART_uc002yrz.2_Nonsense_Mutation_p.G685*|GART_uc010gmd.2_Nonsense_Mutation_p.G347*|GART_uc002yry.2_Nonsense_Mutation_p.G685*	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	685	AIRS.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	TCTAGTAATCCTCCACCAGTA	0.448													24	106					3.08376e-08	3.3798e-08	0.00333	1	0		A	34889350	A	A	34889350	4	1	191	1	0	0	0	0	0	1	0	0	6258	690	24	5	1007	5	GART	21	34889350	Nonsense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2392452	34889350	13240545	895	96517											
RUNX1	861	broad.mit.edu	37	chr21	36164838	36164838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcgcctggatagtgcatgCgggggtcggagatggagggc	7	6	21	7	3	0	1	0	0	0	1	1	4	0	3	1	7	2	1	1	7	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:36164838C>T	uc002yuh.2	-	6	2534	c.956G>A	c.(955-957)CGC>CAC	p.R319H	RUNX1_uc002yui.2_Missense_Mutation_p.R255H|RUNX1_uc010gmu.2_Missense_Mutation_p.R346H|RUNX1_uc010gmv.2_Missense_Mutation_p.R346H|RUNX1_uc002yuj.3_Missense_Mutation_p.R214H|RUNX1_uc002yuk.3_Missense_Mutation_p.R346H	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform	319	Interaction with MYST3.|Interaction with MYST4 (By similarity).|Pro/Ser/Thr-rich.			Missing: No DNA-binding.	myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding	p.R346fs*137(2)		haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						ATAGTGCATGCGGGGGTCGGA	0.701			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				3	16					0	0	0.009096	0	0		T	36164838	T	T	36164838	3	4	191	1	0	0	0	0	1	0	0	0	13771	768	27	1	409	1	RUNX1	21	36164838	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1275488	36164838	11965057	896	96518											
LCA5L	150082	broad.mit.edu	37	chr21	40782015	40782015	+	Frame_Shift_Del	DEL	T	-	-																															gatcgatgtttcctgttgccTttttaccctgtaatttagaa																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:40782015delT	uc002yxu.2	-	9	1485	c.1172delA	c.(1171-1173)AAGfs	p.K391fs	LCA5L_uc002yxv.2_Frame_Shift_Del_p.K391fs	NM_152505	NP_689718	O95447	LCA5L_HUMAN	Leber congenital amaurosis 5-like	391											0		Prostate(19;1.2e-06)				TCCTGTTGCCTTTTTACCCTG	0.313													23	45	---	---	---	---						.	-	40782015	-	-	40782015	7	5	191	1	0	1	0	1	0	0	0	0	8673	1609	56	0	848	0	LCA5L	21	40782015	Frame_Shift_Del	DEL	T	TCGA-F1-6874-01A-11D-1882-08	4617177	40782015	7347880	897	96519											
B3GALT5	10317	broad.mit.edu	37	chr21	41032654	41032654	+	Silent	SNP	T	C	C	0	1	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	acagactgcaggcagacaccTcccttcctcgtcctgctggt	7	9	9	16	1	0	2	0	0	0	2	4	2	3	2	4	2	2	3	4	2	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:41032654T>C	uc002yyb.1	+	5	760	c.168T>C	c.(166-168)CCT>CCC	p.P56P	B3GALT5_uc002yye.2_Silent_p.P56P|B3GALT5_uc002yyi.1_Silent_p.P56P|B3GALT5_uc002yyj.1_Silent_p.P56P|B3GALT5_uc002yyk.1_Silent_p.P56P|B3GALT5_uc002yyl.1_Silent_p.P56P|B3GALT5_uc002yym.1_Silent_p.P56P	NM_033173	NP_149363	Q9Y2C3	B3GT5_HUMAN	UDP-Gal:betaGlcNAc beta	56	Lumenal (Potential).				protein glycosylation	endoplasmic reticulum|Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			skin(1)	1		Prostate(19;2.55e-06)				GGCAGACACCTCCCTTCCTCG	0.512													16	52					0	0	0.00499	0	0		C	41032654	C	C	41032654	2	2	191	1	0	0	0	0	0	0	0	1	1251	1538	54	3		3	B3GALT5	21	41032654	Silent	SNP	T	TCGA-F1-6874-01A-11D-1882-08	250639	41032654	7097241	898	96520											
MX2	4600	broad.mit.edu	37	chr21	42762585	42762585	+	Silent	SNP	C	T	T	0	0	0	1	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	acattgccaccacggaggcgCtgagcatggcccatgaggtg	9	6	14	12	2	0	2	0	2	0	0	0	3	0	3	3	4	2	2	3	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:42762585C>T	uc002yzf.1	+	6	930	c.826C>T	c.(826-828)CTG>TTG	p.L276L	MX2_uc011aer.1_Intron|MX2_uc002yzg.1_5'UTR	NM_002463	NP_002454	P20592	MX2_HUMAN	myxovirus resistance protein 2	276					response to virus|type I interferon-mediated signaling pathway	cytoplasm|nucleus	GTP binding|GTPase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0222)				CACGGAGGCGCTGAGCATGGC	0.458													53	77					0	0	0.01441	0	0		T	42762585	T	T	42762585	2	4	191	1	0	0	0	0	0	0	0	1	10016	796	28	2		2	MX2	21	42762585	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	1729931	42762585	5367310	899	96521											
MX1	4599	broad.mit.edu	37	chr21	42821193	42821193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcaaggcactggaagagcCggctgtggatatgctacaca	13	7	12	9	1	1	1	1	0	0	1	1	3	1	3	1	4	3	3	1	4	5	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:42821193C>T	uc002yzh.2	+	16	2350	c.1403C>T	c.(1402-1404)CCG>CTG	p.P468L	MX1_uc002yzi.2_Missense_Mutation_p.P468L|MX1_uc010goq.2_Missense_Mutation_p.P468L	NM_001144925	NP_001138397	P20591	MX1_HUMAN	myxovirus resistance protein 1	468					induction of apoptosis|response to virus|type I interferon-mediated signaling pathway	cytosol	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(19;3.18e-07)|all_epithelial(19;0.0277)				CTGGAAGAGCCGGCTGTGGAT	0.458													17	90					0	0	0.007413	0	0		T	42821193	T	T	42821193	3	4	191	1	0	0	0	0	1	0	0	0	10015	652	23	1	1441	1	MX1	21	42821193	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	58608	42821193	5308702	900	96522											
UMODL1	89766	broad.mit.edu	37	chr21	43519071	43519071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgactacgtggtcctcaacGtcaccagtgacagttttcaa	10	11	9	11	2	3	2	3	2	0	0	4	2	4	2	2	1	2	1	2	1	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:43519071G>A	uc002zaf.1	+	7	967	c.967G>A	c.(967-969)GTC>ATC	p.V323I	UMODL1_uc002zad.1_Missense_Mutation_p.V251I|UMODL1_uc002zae.1_Missense_Mutation_p.V251I|UMODL1_uc002zag.1_Missense_Mutation_p.V323I|UMODL1_uc010gow.1_Missense_Mutation_p.V115I|UMODL1_uc002zai.1_5'UTR|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_5'UTR|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Missense_Mutation_p.V68I	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	323	Extracellular (Potential).|Fibronectin type-III 1.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						GGTCCTCAACGTCACCAGTGA	0.502													49	168					0	0	0.01441	0	0		A	43519071	A	A	43519071	3	1	191	1	0	0	0	0	1	0	0	0	17006	1145	40	1	993	1	UMODL1	21	43519071	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	697878	43519071	4610824	901	96523											
POFUT2	23275	broad.mit.edu	37	chr21	46697010	46697010	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgtctgctcctgaactcGtctcccacctcccgcaggtg	6	10	9	16	2	2	2	0	1	2	1	6	2	4	2	4	1	2	2	4	1	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:46697010G>A	uc002zhc.2	-	6	778	c.753C>T	c.(751-753)GAC>GAT	p.D251D	POFUT2_uc002zha.2_RNA|POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Silent_p.D251D	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	251					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		TCCTGAACTCGTCTCCCACCT	0.627													26	87					0	0	0.005443	0	0		A	46697010	A	A	46697010	2	1	191	1	0	0	0	0	0	0	0	1	12203	1136	40	1		1	POFUT2	21	46697010	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3177939	46697010	1432885	902	96524											
COL18A1	80781	broad.mit.edu	37	chr21	46925087	46925087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccggggccagcccggcccaCctggacctcagggacccccc	5	3	12	21	2	1	0	1	0	0	0	2	2	2	2	9	5	1	0	9	5	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr21:46925087C>T	uc011afs.1	+	35	4165	c.4144C>T	c.(4144-4146)CCT>TCT	p.P1382S	COL18A1_uc002zhg.2_Missense_Mutation_p.P967S|COL18A1_uc002zhi.2_Missense_Mutation_p.P1147S|SLC19A1_uc010gpy.1_Intron|COL18A1_uc002zhj.2_5'UTR|COL18A1_uc002zhk.2_5'Flank	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	1385	Triple-helical region 9 (COL9).				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		GCCCGGCCCACCTGGACCTCA	0.726													3	15					0	0	0.004672	0	0		T	46925087	T	T	46925087	3	4	191	1	0	0	0	0	1	0	0	0	3678	507	18	4	4396	4	COL18A1	21	46925087	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	228077	46925087	1204808	903	96525											
TUBA8	51807	broad.mit.edu	37	chr22	18604386	18604386	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatcaacgatgatgactcCttcaccacctttttcagcga	12	11	6	12	2	3	3	3	2	0	1	4	5	4	3	3	0	2	0	3	0	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:18604386C>A	uc002znv.1	+	2	217	c.144C>A	c.(142-144)TCC>TCA	p.S48S	TUBA8_uc002znr.2_5'UTR|TUBA8_uc002znw.1_Silent_p.S72S|TUBA8_uc002znu.1_Silent_p.S48S	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8	48					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						ATGATGACTCCTTCACCACCT	0.552													27	55					4.59853e-10	5.11155e-10	0.005443	1	0		A	18604386	A	A	18604386	2	1	191	1	0	0	0	0	0	0	0	1	16776	668	24	5		5	TUBA8	22	18604386	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08		18604386	32700180	904	96526											
DGCR2	9993	broad.mit.edu	37	chr22	19052470	19052470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgagagagccattcaggcGctggcaggtctgcgcggcat	7	6	17	11	4	2	1	1	0	1	1	2	3	2	1	1	5	2	3	1	5	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:19052470G>A	uc002zoq.1	-	4	687	c.439C>T	c.(439-441)CGC>TGC	p.R147C	DGCR2_uc002zor.1_5'UTR|DGCR2_uc011agr.1_Missense_Mutation_p.R103C	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	147	Extracellular (Potential).|C-type lectin.				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					CCATTCAGGCGCTGGCAGGTC	0.642													22	37					0	0	0.014323	0	0		A	19052470	A	A	19052470	3	1	191	1	0	0	0	0	1	0	0	0	4467	1087	38	1	1241	1	DGCR2	22	19052470	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	448084	19052470	32252096	905	96527											
TBX1	6899	broad.mit.edu	37	chr22	19752515	19752515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgcacagataccagccccGcttccacgtggtctatgtgg	8	9	10	14	2	1	1	0	0	1	1	2	1	2	1	4	2	3	2	4	2	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:19752515G>A	uc002zqb.2	+	6	848	c.719G>A	c.(718-720)CGC>CAC	p.R240H	TBX1_uc002zqa.1_Missense_Mutation_p.R240H|TBX1_uc002zqc.2_Missense_Mutation_p.R240H	NM_080646	NP_542377	O43435	TBX1_HUMAN	T-box 1 isoform A	240	T-box.				embryonic viscerocranium morphogenesis|heart development|parathyroid gland development|pharyngeal system development|regulation of transcription from RNA polymerase II promoter|soft palate development|thymus development	nucleus	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)	2	Colorectal(54;0.0993)	all_lung(157;3.05e-06)				TACCAGCCCCGCTTCCACGTG	0.547													24	72					0	0	0.003954	0	0		A	19752515	A	A	19752515	3	1	191	1	0	0	0	0	1	0	0	0	15675	1087	38	1	737	1	TBX1	22	19752515	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	700045	19752515	31552051	906	96528											
ARVCF	421	broad.mit.edu	37	chr22	19969123	19969123	+	Silent	SNP	C	T	T	0	0	0	1	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	gccactgggccaccaccacgCagcaggaaatgccggtccag	10	3	12	16	2	0	0	0	0	0	0	1	1	1	1	6	3	2	2	6	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:19969123C>T	uc002zqz.2	-	5	778	c.507G>A	c.(505-507)CTG>CTA	p.L169L	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_Silent_p.L169L	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	169					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CACCACCACGCAGCAGGAAAT	0.682													15	68					0	0	0.006122	0	0		T	19969123	T	T	19969123	2	4	191	1	0	0	0	0	0	0	0	1	1004	697	25	2		2	ARVCF	22	19969123	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	216608	19969123	31335443	907	96529											
KLHL22	84861	broad.mit.edu	37	chr22	20800825	20800825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgccgtgccaggcgcgccGcacaggcccatcagccagtg	7	4	13	17	4	1	0	1	0	0	0	1	0	1	0	5	2	3	1	5	2	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:20800825G>A	uc002zsl.1	-	6	1553	c.1444C>T	c.(1444-1446)CGG>TGG	p.R482W	KLHL22_uc011ahr.1_Missense_Mutation_p.R339W	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	482	Kelch 4.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CAGGCGCGCCGCACAGGCCCA	0.602													30	76					0	0	0.007291	0	0		A	20800825	A	A	20800825	3	1	191	1	0	0	0	0	1	0	0	0	8393	1086	38	1	468	1	KLHL22	22	20800825	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	831702	20800825	30503741	908	96530											
HIC2	23119	broad.mit.edu	37	chr22	21799242	21799242	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggcagggcgcggggacatgGggcccgacatggagctgccc	6	3	20	12	3	0	0	0	0	0	0	0	3	0	2	2	7	2	2	2	7	0	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:21799242G>T	uc002zur.3	+	3	288	c.58G>T	c.(58-60)GGG>TGG	p.G20W	HIC2_uc002zus.3_Missense_Mutation_p.G20W	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	20					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CGGGGACATGGGGCCCGACAT	0.647													11	66					3.86212e-05	4.08974e-05	0.008291	1	0		T	21799242	T	T	21799242	3	4	191	1	0	0	0	0	1	0	0	0	7118	1232	43	5	64	5	HIC2	22	21799242	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	998417	21799242	29505324	909	96531											
HIC2	23119	broad.mit.edu	37	chr22	21799520	21799520	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagcgaccagccagcCgagcccaacttcagcaccct	9	4	8	20	2	1	0	1	0	0	0	1	2	1	0	6	0	7	1	6	0	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:21799520C>T	uc002zur.3	+	3	566	c.336C>T	c.(334-336)GCC>GCT	p.A112A	HIC2_uc002zus.3_Silent_p.A112A	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	112					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				ACCAGCCAGCCGAGCCCAACT	0.617													25	45					0	0	0.00278	0	0		T	21799520	T	T	21799520	2	4	191	1	0	0	0	0	0	0	0	1	7118	639	23	1		1	HIC2	22	21799520	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	278	21799520	29505046	910	96532											
PPM1F	9647	broad.mit.edu	37	chr22	22280022	22280022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccacccaatgcttcaatgCgcgccttctcatcctgcaga	9	9	7	16	2	2	1	2	0	1	1	4	1	3	1	4	0	4	2	4	0	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:22280022C>T	uc002zvp.1	-	7	1019	c.905G>A	c.(904-906)CGC>CAC	p.R302H	PPM1F_uc011aik.1_Missense_Mutation_p.R198H|PPM1F_uc002zvq.2_Missense_Mutation_p.R302H	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	302					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		TGCTTCAATGCGCGCCTTCTC	0.627													11	37					0	0	0.001855	0	0		T	22280022	T	T	22280022	3	4	191	1	0	0	0	0	1	0	0	0	12361	768	27	1	467	1	PPM1F	22	22280022	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	480502	22280022	29024544	911	96533											
BCR	613	broad.mit.edu	37	chr22	23523816	23523816	+	Frame_Shift_Del	DEL	G	-	-																															cacggcgcgggctcgagcgtGggggatgcatccaggccccc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:23523816delG	uc002zww.2	+	1	1265	c.669delG	c.(667-669)GTGfs	p.V223fs	BCR_uc002zwx.2_Frame_Shift_Del_p.V223fs	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	223	Kinase.|Binding to ABL SH2-domain.				regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						GCTCGAGCGTGGGGGATGCAT	0.667			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								29	41	---	---	---	---						.	-	23523816	-	-	23523816	7	5	191	1	0	1	0	1	0	0	0	0	1389	1335	47	0	671	0	BCR	22	23523816	Frame_Shift_Del	DEL	G	TCGA-F1-6874-01A-11D-1882-08	1243794	23523816	27780750	912	96534											
PISD	23761	broad.mit.edu	37	chr22	32015604	32015604	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggaaagagactctagagCgagcccagggcttccccaaa	13	5	11	12	1	2	2	1	0	1	2	3	5	3	3	3	2	2	1	3	2	3	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:32015604C>T	uc003alm.3	-	8	1231	c.1224G>A	c.(1222-1224)TCG>TCA	p.S408S	PISD_uc003alk.2_Silent_p.S374S|PISD_uc003all.2_3'UTR|PISD_uc011alr.1_Silent_p.S373S|PISD_uc003aln.3_Silent_p.S370S	NM_014338	NP_055153	Q9UG56	PISD_HUMAN	phosphatidylserine decarboxylase	408					phospholipid biosynthetic process	mitochondrion	phosphatidylserine decarboxylase activity			central_nervous_system(2)|ovary(1)	3					Phosphatidylserine(DB00144)	GACTCTAGAGCGAGCCCAGGG	0.532													6	31					0	0	0.006214	0	0		T	32015604	T	T	32015604	2	4	191	1	0	0	0	0	0	0	0	1	11965	755	27	1		1	PISD	22	32015604	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	8491788	32015604	19288962	913	96535											
MYH9	4627	broad.mit.edu	37	chr22	36690176	36690176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcggccagctctgtgcgcaCgcgctctccctcgttgaact	4	10	11	16	5	2	1	0	1	2	0	5	1	2	1	2	1	3	4	2	1	1	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:36690176C>T	uc003apg.2	-	28	4030	c.3799G>A	c.(3799-3801)GTG>ATG	p.V1267M		NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	1267	Potential.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TCTGTGCGCACGCGCTCTCCC	0.657			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				34	89					0	0	0.004878	0	0		T	36690176	T	T	36690176	3	4	191	1	0	0	0	0	1	0	0	0	10060	536	19	1	2139	1	MYH9	22	36690176	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	4674572	36690176	14614390	914	96536											
TRIOBP	11078	broad.mit.edu	37	chr22	38119860	38119860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaccccagaacatcctgcGcccagcgggacaatcccaga	13	3	8	17	2	0	2	0	0	0	2	2	3	2	3	5	1	4	0	5	1	3	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:38119860G>A	uc003atr.2	+	7	1568	c.1297G>A	c.(1297-1299)GCC>ACC	p.A433T	TRIOBP_uc003atu.2_Missense_Mutation_p.A261T|TRIOBP_uc003atq.1_Missense_Mutation_p.A433T|TRIOBP_uc003ats.1_Missense_Mutation_p.A261T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	433					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					AACATCCTGCGCCCAGCGGGA	0.582													31	100					0	0	0.003755	0	0		A	38119860	A	A	38119860	3	1	191	1	0	0	0	0	1	0	0	0	16579	1087	38	1	1315	1	TRIOBP	22	38119860	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	1429684	38119860	13184706	915	96537											
DDX17	10521	broad.mit.edu	37	chr22	38882439	38882439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtggtccggtaacgagaaCgaccacctaatgggaagata	15	6	12	8	3	0	2	0	0	0	2	1	5	1	3	3	3	2	1	3	3	6	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:38882439C>T	uc003avy.3	-	13	1800	c.1697G>A	c.(1696-1698)CGT>CAT	p.R566H	DDX17_uc003avw.3_Missense_Mutation_p.R18H|DDX17_uc010gxp.2_Missense_Mutation_p.R16H|DDX17_uc003avx.3_Missense_Mutation_p.R564H	NM_001098504	NP_001091974	Q92841	DDX17_HUMAN	DEAD box polypeptide 17 isoform 3	485					RNA processing	nucleus	ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity|RNA-dependent ATPase activity			skin(3)|upper_aerodigestive_tract(1)	4	Melanoma(58;0.0286)					GTAACGAGAACGACCACCTAA	0.423													8	29					0	0	0.004482	0	0		T	38882439	T	T	38882439	3	4	191	1	0	0	0	0	1	0	0	0	4347	536	19	1	502	1	DDX17	22	38882439	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	762579	38882439	12422127	916	96538											
TAB1	10454	broad.mit.edu	37	chr22	39826100	39826100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgacggaggcctcttccGctcccggcccgcccactcgc	3	7	10	21	5	2	1	0	1	2	0	5	2	4	2	5	3	0	1	5	3	0	1	rs151213024	byFrequency	TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:39826100G>A	uc003axt.2	+	11	1437	c.1388G>A	c.(1387-1389)CGC>CAC	p.R463H	TAB1_uc003axr.2_Missense_Mutation_p.R539H|TAB1_uc011aok.1_Missense_Mutation_p.R297H|TAB1_uc003axu.1_Intron	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	463					activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						GGCCTCTTCCGCTCCCGGCCC	0.647													5	126					0	0	0.001168	0	0		A	39826100	A	A	39826100	3	1	191	1	0	0	0	0	1	0	0	0	15520	1087	38	1	1430	1	TAB1	22	39826100	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	943661	39826100	11478466	917	96539											
PPPDE2	27351	broad.mit.edu	37	chr22	41999312	41999312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtaagaaggaatcttccGcccagtcaggaactgtgcca	12	8	11	10	1	2	1	1	0	1	1	3	4	3	3	3	2	2	1	3	2	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:41999312G>A	uc003ban.1	-	5	437	c.364C>T	c.(364-366)CGG>TGG	p.R122W	PPPDE2_uc011apb.1_RNA	NM_015704	NP_056519	Q6ICB0	PPDE2_HUMAN	PPPDE peptidase domain containing 2	122	PPPDE peptidase.										0						GGAATCTTCCGCCCAGTCAGG	0.502													33	99					0	0	0.004878	0	0		A	41999312	A	A	41999312	3	1	191	1	0	0	0	0	1	0	0	0	12431	1086	38	1	150	1	PPPDE2	22	41999312	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2173212	41999312	9305254	918	96540											
CYP2D6	1565	broad.mit.edu	37	chr22	42523547	42523547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgctgcacctcatgaatcaCggcagtggtgtagggcatgt	8	9	14	10	2	2	1	2	1	0	0	2	1	2	1	1	3	1	5	1	3	2	1	rs79489631		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:42523547C>T	uc003bce.2	-	7	1165	c.1075G>A	c.(1075-1077)GTG>ATG	p.V359M	uc003bcd.1_Intron|CYP2D6_uc010gyu.2_Missense_Mutation_p.V53M|CYP2D6_uc003bcf.2_Missense_Mutation_p.V308M	NM_000106	NP_000097	Q6NWU0	Q6NWU0_HUMAN	cytochrome P450, family 2, subfamily D,	359							electron carrier activity|heme binding|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			breast(1)|skin(1)	2						TCATGAATCACGGCAGTGGTG	0.592													11	38					0	0	0.010729	0	0		T	42523547	T	T	42523547	3	4	191	1	0	0	0	0	1	0	0	0	4172	536	19	1	430	1	CYP2D6	22	42523547	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	524235	42523547	8781019	919	96541											
TCF20	6942	broad.mit.edu	37	chr22	42608372	42608372	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgtgggtctgctgtcttgCgggccatagtctgaaaggga	6	10	17	8	2	3	1	0	1	3	0	3	2	3	2	1	4	2	1	1	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:42608372C>T	uc003bcj.1	-	1	3074	c.2940G>A	c.(2938-2940)CCG>CCA	p.P980P	TCF20_uc003bck.1_Silent_p.P980P|TCF20_uc003bnt.2_Silent_p.P980P	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	980					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						TGCTGTCTTGCGGGCCATAGT	0.592													27	107					0	0	0.008361	0	0		T	42608372	T	T	42608372	2	4	191	1	0	0	0	0	0	0	0	1	15715	755	27	1		1	TCF20	22	42608372	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	84825	42608372	8696194	920	96542											
FBLN1	2192	broad.mit.edu	37	chr22	45939288	45939288	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcactttcagatgtcaaCgagtgccagcgctaccccgg	8	8	9	16	3	3	1	3	0	0	1	3	2	3	1	4	1	4	1	4	1	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:45939288C>T	uc003bgj.1	+	11	1350	c.1203C>T	c.(1201-1203)AAC>AAT	p.N401N	FBLN1_uc003bgg.1_Silent_p.N401N|FBLN1_uc003bgh.2_Silent_p.N401N|FBLN1_uc010gzz.2_Silent_p.N439N|FBLN1_uc003bgi.1_Silent_p.N401N	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	401	EGF-like 6; calcium-binding.|Self-association and FN1-binding; calcium is necessary for homotypic binding, but not for heterotypic binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CAGATGTCAACGAGTGCCAGC	0.612													12	28					0	0	0.00245	0	0		T	45939288	T	T	45939288	2	4	191	1	0	0	0	0	0	0	0	1	5712	535	19	1		1	FBLN1	22	45939288	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	3330916	45939288	5365278	921	96543											
PKDREJ	10343	broad.mit.edu	37	chr22	46653549	46653549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcagtgtggaattaaaccGctgctgttctggaaaaaaat	13	11	9	8	1	2	0	1	0	1	0	2	2	2	2	2	2	2	3	2	2	6	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:46653549G>A	uc003bhh.2	-	1	5671	c.5671C>T	c.(5671-5673)CGG>TGG	p.R1891W		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1891	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		GAATTAAACCGCTGCTGTTCT	0.403													6	146					0	0	0.001168	0	0		A	46653549	A	A	46653549	3	1	191	1	0	0	0	0	1	0	0	0	11989	1086	38	1	1094	1	PKDREJ	22	46653549	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	714261	46653549	4651017	922	96544											
CELSR1	9620	broad.mit.edu	37	chr22	46929555	46929555	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctccatgagcgcctccagCggccggttgttgtccaggtc	5	9	12	15	3	0	1	0	1	0	0	4	1	3	1	6	3	2	2	6	3	0	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:46929555C>T	uc003bhw.1	-	1	3513	c.3513G>A	c.(3511-3513)CCG>CCA	p.P1171P		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1171	Extracellular (Potential).|Cadherin 9.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GCGCCTCCAGCGGCCGGTTGT	0.657													13	50					0	0	0.00245	0	0		T	46929555	T	T	46929555	2	4	191	1	0	0	0	0	0	0	0	1	3224	755	27	1		1	CELSR1	22	46929555	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	276006	46929555	4375011	923	96545											
GRAMD4	23151	broad.mit.edu	37	chr22	47054103	47054103	+	Silent	SNP	G	A	A	0	0	1	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	gaggaggagctccggaagctGcgagaagaaaccaacgcgga	14	2	16	9	4	0	2	0	0	0	2	1	8	1	6	2	4	5	2	2	4	4	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:47054103G>A	uc003bhx.2	+	3	342	c.303G>A	c.(301-303)CTG>CTA	p.L101L	GRAMD4_uc010had.2_Silent_p.L40L	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	101	Potential.				apoptosis	integral to membrane|mitochondrial membrane				ovary(1)	1		Breast(42;0.00571)|Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|BRCA - Breast invasive adenocarcinoma(115;0.166)		TCCGGAAGCTGCGAGAAGAAA	0.662													11	39					0	0	0.00245	0	0		A	47054103	A	A	47054103	2	1	191	1	0	0	0	0	0	0	0	1	6768	1306	46	2		2	GRAMD4	22	47054103	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	124548	47054103	4250463	924	96546											
ZBED4	9889	broad.mit.edu	37	chr22	50279692	50279692	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagtgctggtgggaagcGtgggtgacctccaccggcct	5	8	17	11	2	0	1	0	1	0	0	1	3	1	3	4	5	2	1	4	5	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:50279692G>A	uc003bix.2	+	2	2852	c.2382G>A	c.(2380-2382)GCG>GCA	p.A794A		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	794						cytoplasm|nucleus	DNA binding|metal ion binding|protein dimerization activity			ovary(2)	2		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.168)|BRCA - Breast invasive adenocarcinoma(115;0.2)|LUAD - Lung adenocarcinoma(64;0.247)		GGTGGGAAGCGTGGGTGACCT	0.632													8	19					0	0	0.00308	0	0		A	50279692	A	A	50279692	2	1	191	1	0	0	0	0	0	0	0	1	17545	1132	40	1		1	ZBED4	22	50279692	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	3225589	50279692	1024874	925	96547											
PANX2	56666	broad.mit.edu	37	chr22	50615930	50615930	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacctgcgcgctgggcgcGtccccggacggggcggcagg	3	5	18	15	7	1	0	1	0	0	0	2	1	2	1	3	6	1	2	3	6	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:50615930G>A	uc003bjn.3	+	2	789	c.789G>A	c.(787-789)GCG>GCA	p.A263A	PANX2_uc003bjp.3_Silent_p.A129A|PANX2_uc003bjo.3_Silent_p.A263A	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	263	Extracellular (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		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)		CGCTGGGCGCGTCCCCGGACG	0.697													6	21					0	0	0.001984	0	0		A	50615930	A	A	50615930	2	1	191	1	0	0	0	0	0	0	0	1	11440	1132	40	1		1	PANX2	22	50615930	Silent	SNP	G	TCGA-F1-6874-01A-11D-1882-08	336238	50615930	688636	926	96548											
MIOX	55586	broad.mit.edu	37	chr22	50925873	50925873	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagaggtggccaaagacaaGgccagcttccggaactacac	13	4	11	13	1	0	2	0	0	0	2	1	3	1	3	4	4	3	1	4	4	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chr22:50925873G>T	uc003bll.1	+	2	189	c.75G>T	c.(73-75)AAG>AAT	p.K25N	MIOX_uc003blm.1_Missense_Mutation_p.K25N|MIOX_uc003bln.1_Missense_Mutation_p.K25N	NM_017584	NP_060054	Q9UGB7	MIOX_HUMAN	myo-inositol oxygenase	25					inositol catabolic process	cytoplasm|inclusion body	aldo-keto reductase (NADP) activity|ferric iron binding|inositol oxygenase activity				0		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;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCAAAGACAAGGCCAGCTTCC	0.592													4	81					0.00024832	0.000261189	0.009096	1	0		T	50925873	T	T	50925873	3	4	191	1	0	0	0	0	1	0	0	0	9608	991	35	5	81	5	MIOX	22	50925873	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	309943	50925873	378693	927	96549											
P2RY8	286530	broad.mit.edu	37	chrX	1584732	1584732	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaaggccagcaagaccacCgcggccaggcccaccgcgcg	11	0	12	18	5	0	1	0	0	0	1	0	1	0	1	6	3	1	1	6	3	2	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:1584732C>T	uc004cpz.2	-	2	968	c.720G>A	c.(718-720)GCG>GCA	p.A240A		NM_178129	NP_835230	Q86VZ1	P2RY8_HUMAN	G-protein coupled purinergic receptor P2Y8	240	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(5)	5		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)				GCAAGACCACCGCGGCCAGGC	0.657			T	CRLF2	B-ALL|Downs associated ALL								18	57					0	0	0.006122	0	0		T	1584732	T	T	1584732	2	4	191	1	0	0	0	0	0	0	0	1	11374	639	23	1		1	P2RY8	23	1584732	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08		1584732	153685828	928	96550											
ZBED1	9189	broad.mit.edu	37	chrX	2408192	2408192	+	Missense_Mutation	SNP	T	C	C	0	1	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	agatgccacaccaggtggccTcggccagctccttcaggatc	8	7	11	15	1	1	1	1	0	0	1	4	2	2	2	5	4	2	1	5	4	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:2408192T>C	uc004cqg.2	-	2	770	c.569A>G	c.(568-570)GAG>GGG	p.E190G	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Missense_Mutation_p.E190G	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	190						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCAGGTGGCCTCGGCCAGCTC	0.657													26	249					0	0	0.007291	0	0		C	2408192	C	C	2408192	3	2	191	1	0	0	0	0	1	0	0	0	17543	1551	54	3	1519	3	ZBED1	23	2408192	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	823460	2408192	152862368	929	96551											
WWC3	55841	broad.mit.edu	37	chrX	10096130	10096130	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctctgaaccatcaaggacgCgggaggctgggtgtgcagga	9	6	17	9	2	2	1	1	1	1	0	2	4	2	4	1	5	2	3	1	5	2	0	rs138880852		TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:10096130C>T	uc004csx.3	+	16	2407	c.2209C>T	c.(2209-2211)CGG>TGG	p.R737W	WWC3_uc010nds.2_Missense_Mutation_p.R401W|WWC3_uc010ndt.2_RNA	NM_015691	NP_056506	Q9ULE0	WWC3_HUMAN	WWC family member 3	737										ovary(4)	4						ATCAAGGACGCGGGAGGCTGG	0.582													32	19					0	0	0.003755	0	0		T	10096130	T	T	10096130	3	4	191	1	0	0	0	0	1	0	0	0	17439	759	27	1	2267	1	WWC3	23	10096130	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	7687938	10096130	145174430	930	96552											
CLCN4	1183	broad.mit.edu	37	chrX	10182015	10182015	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gactgtcgaggacgtggagaCgctcatcaaggagaccgact	11	6	14	10	4	2	2	2	0	0	2	3	8	2	3	1	3	0	1	1	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:10182015C>T	uc004csy.3	+	11	2301	c.1871C>T	c.(1870-1872)ACG>ATG	p.T624M	CLCN4_uc011mid.1_Missense_Mutation_p.T530M	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	624	CBS 1.|Cytoplasmic (By similarity).					early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GACGTGGAGACGCTCATCAAG	0.632													9	7					0	0	0.004482	0	0		T	10182015	T	T	10182015	3	4	191	1	0	0	0	0	1	0	0	0	3468	536	19	1	1905	1	CLCN4	23	10182015	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	85885	10182015	145088545	931	96553											
MSL3	10943	broad.mit.edu	37	chrX	11790306	11790307	+	Frame_Shift_Ins	INS	-	C	C																															aagcttgtgcctgacaattaINSccccccaggtgaccagccgc																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:11790306_11790307insC	uc004cuw.2	+	11	1418_1419	c.1313_1314insC	c.(1312-1314)TACfs	p.Y438fs	MSL3_uc004cux.2_Frame_Shift_Ins_p.Y379fs|MSL3_uc011mig.1_Frame_Shift_Ins_p.Y289fs|MSL3_uc011mih.1_Frame_Shift_Ins_p.Y426fs|MSL3_uc004cuy.2_Frame_Shift_Ins_p.Y272fs	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	438					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCTGACAATTACCCCCCAGGTG	0.455													82	60	---	---	---	---						.	C	11790307	C	C	11790306	7	5	191	1	0	1	1	0	0	0	0	0	9897	391	14	0	1435	0	MSL3	23	11790306	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	1608291	11790306	143480254	932	96554											
ASB11	140456	broad.mit.edu	37	chrX	15333660	15333660	+	Frame_Shift_Del	DEL	A	-	-																															ctttaattaaaagcttaaagAaaaaaaacgtagcaaacatt																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:15333660delA	uc004cwp.1	-	1	68	c.68delT	c.(67-69)TTCfs	p.F23fs	ASB11_uc004cwo.1_5'Flank|ASB11_uc010nes.1_RNA|ASB11_uc010net.1_Frame_Shift_Del_p.F23fs	NM_080873	NP_543149	Q8WXH4	ASB11_HUMAN	ankyrin repeat and SOCS box-containing protein	23					intracellular signal transduction					breast(2)|skin(1)	3	Hepatocellular(33;0.183)					AAGCTTAAAGAAAAAAAACGT	0.338													48	39	---	---	---	---						.	-	15333660	-	-	15333660	7	5	191	1	0	1	0	1	0	0	0	0	1016	246	9	0	1053	0	ASB11	23	15333660	Frame_Shift_Del	DEL	A	TCGA-F1-6874-01A-11D-1882-08	3543354	15333660	139936900	933	96555											
ACE2	59272	broad.mit.edu	37	chrX	15589815	15589815	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctttcagccaggtaaataagGgctcaaagtagttgagcagt	13	10	11	7	0	2	1	2	1	0	0	2	1	2	1	1	2	2	5	1	2	5	5			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:15589815G>A	uc004cxa.1	-	13	1937	c.1769C>T	c.(1768-1770)CCC>CTC	p.P590L	ACE2_uc004cxb.2_Missense_Mutation_p.P590L	NM_021804	NP_068576	Q9BYF1	ACE2_HUMAN	angiotensin I converting enzyme 2 precursor	590	Extracellular (Potential).				angiotensin-mediated drinking behavior|proteolysis|receptor biosynthetic process|regulation of cell proliferation|virion attachment, binding of host cell surface receptor	cell surface|extracellular space|integral to membrane|membrane raft|plasma membrane	carboxypeptidase activity|glycoprotein binding|metallopeptidase activity|peptidyl-dipeptidase activity|viral receptor activity|zinc ion binding			ovary(3)	3	Hepatocellular(33;0.183)				Moexipril(DB00691)	GGTAAATAAGGGCTCAAAGTA	0.458													56	24					0	0	0.01441	0	0		A	15589815	A	A	15589815	3	1	191	1	0	0	0	0	1	0	0	0	137	1232	43	4	672	4	ACE2	23	15589815	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	256155	15589815	139680745	934	96556											
YY2	404281	broad.mit.edu	37	chrX	21874825	21874825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacgggctatggcgaccacGaccaggaaatgcttatgttg	11	8	12	10	3	0	0	0	0	0	0	0	3	0	1	2	3	1	3	2	3	3	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:21874825G>A	uc011mjp.1	+	1	223	c.223G>A	c.(223-225)GAC>AAC	p.D75N	MBTPS2_uc004dae.2_Intron|MBTPS2_uc010nfr.2_Intron|YY2_uc010nfq.2_Missense_Mutation_p.D293N|MBTPS2_uc004dab.2_Intron	NM_206923	NP_996806	O15391	TYY2_HUMAN	YY2 transcription factor	75	Mediates transcriptional activation.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|plasma membrane	DNA binding|zinc ion binding			breast(1)|skin(1)	2						TGGCGACCACGACCAGGAAAT	0.557													32	43					0	0	0.003271	0	0		A	21874825	A	A	21874825	3	1	191	1	0	0	0	0	1	0	0	0	17535	1058	37	1	225	1	YY2	23	21874825	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	6285010	21874825	133395735	935	96557											
SYTL5	94122	broad.mit.edu	37	chrX	37984696	37984696	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttgcctagaacttactatcTgggacaaggaggccttttcc	9	13	9	10	0	1	1	0	0	1	1	2	3	2	3	3	3	3	0	3	3	5	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:37984696T>C	uc004ddu.2	+	17	2521	c.1987T>C	c.(1987-1989)TGG>CGG	p.W663R	SYTL5_uc004ddv.2_Missense_Mutation_p.W663R|SYTL5_uc004ddx.2_Missense_Mutation_p.W685R	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	663	C2 2.				intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						ACTTACTATCTGGGACAAGGA	0.453													61	37					0	0	0.01441	0	0		C	37984696	C	C	37984696	3	2	191	1	0	0	0	0	1	0	0	0	15511	1580	55	3	2115	3	SYTL5	23	37984696	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	16109871	37984696	117285864	936	96558											
FGD1	2245	broad.mit.edu	37	chrX	54472656	54472656	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtgtgggccccgggcagaaCgtgtcccctcggcccgcccg	4	5	15	17	5	0	1	0	0	0	1	2	1	1	1	6	3	1	1	6	3	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:54472656C>T	uc004dtg.2	-	18	3506	c.2772G>A	c.(2770-2772)ACG>ACA	p.T924T		NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	924					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CCGGGCAGAACGTGTCCCCTC	0.652													7	30					0	0	0.001984	0	0		T	54472656	T	T	54472656	2	4	191	1	0	0	0	0	0	0	0	1	5846	523	19	1		1	FGD1	23	54472656	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	16487960	54472656	100797904	937	96559											
FAM46D	169966	broad.mit.edu	37	chrX	79698294	79698295	+	Frame_Shift_Ins	INS	-	T	T																															ctataaggatctggacgttaINStttttggtgttgagcttcca																										TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:79698294_79698295insT	uc004edl.1	+	5	590_591	c.256_257insT	c.(256-258)ATTfs	p.I86fs	FAM46D_uc004edm.1_Frame_Shift_Ins_p.I86fs	NM_152630	NP_689843	Q8NEK8	FA46D_HUMAN	hypothetical protein LOC169966	86										lung(2)	2						TCTGGACGTTATTTTTGGTGTT	0.381													35	34	---	---	---	---						.	T	79698295	T	T	79698294	7	5	191	1	0	1	1	0	0	0	0	0	5582	449	16	0	258	0	FAM46D	23	79698294	Frame_Shift_Ins	INS	-	TCGA-F1-6874-01A-11D-1882-08	25225638	79698294	75572266	938	96560											
PCDH19	57526	broad.mit.edu	37	chrX	99657662	99657662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtgctctcagagcggcGgcagcccaggggcagcgtct	8	5	16	12	3	2	1	1	0	2	1	3	2	2	1	1	4	4	3	1	4	1	0			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:99657662G>A	uc010nmz.2	-	3	4152	c.2476C>T	c.(2476-2478)CGC>TGC	p.R826C	PCDH19_uc004efw.3_Missense_Mutation_p.R779C|PCDH19_uc004efx.3_Missense_Mutation_p.R779C	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	826	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						TCAGAGCGGCGGCAGCCCAGG	0.547													11	5					0	0	0.010729	0	0		A	99657662	A	A	99657662	3	1	191	1	0	0	0	0	1	0	0	0	11533	1116	39	1	986	1	PCDH19	23	99657662	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	19959368	99657662	55612898	939	96561											
MUM1L1	139221	broad.mit.edu	37	chrX	105450793	105450793	+	Silent	SNP	C	T	T	0	0	0	1	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	gagaaacaaatgctagtggaCaaagccagggaggattatag	17	6	13	5	0	0	1	0	0	0	1	0	5	0	4	1	3	3	1	1	3	6	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:105450793C>T	uc004emf.1	+	4	2017	c.1368C>T	c.(1366-1368)GAC>GAT	p.D456D	MUM1L1_uc004emg.1_Silent_p.D456D	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	456										ovary(2)|pancreas(1)|skin(1)	4						TGCTAGTGGACAAAGCCAGGG	0.363													8	46					0	0	0.00308	0	0		T	105450793	T	T	105450793	2	4	191	1	0	0	0	0	0	0	0	1	10004	477	17	4		4	MUM1L1	23	105450793	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	5793131	105450793	49819767	940	96562											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698712	111698712	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccacagatccaccaccCaagaaagggcctatacagct	14	4	7	16	0	0	2	0	0	0	2	1	2	1	2	6	1	3	1	6	1	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:111698712C>T	uc004epo.1	+	3	1197	c.756C>T	c.(754-756)CCC>CCT	p.P252P		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	252							nucleic acid binding|zinc ion binding			ovary(1)	1						ATCCACCACCCAAGAAAGGGC	0.562													84	63					0	0	0.01441	0	0		T	111698712	T	T	111698712	2	4	191	1	0	0	0	0	0	0	0	1	17609	581	21	4		4	ZCCHC16	23	111698712	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	6247919	111698712	43571848	941	96563											
HTR2C	3358	broad.mit.edu	37	chrX	113965833	113965833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagacggggtacaaaactggCcagcactttcaatcgtcatc	12	8	9	12	2	2	1	2	0	0	1	4	1	2	1	1	3	3	2	1	3	4	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:113965833C>T	uc004epu.1	+	4	894	c.166C>T	c.(166-168)CCA>TCA	p.P56S	HTR2C_uc010nqc.1_Missense_Mutation_p.P56S|HTR2C_uc004epv.1_Missense_Mutation_p.P56S	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	56	Helical; Name=1; (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	ACAAAACTGGCCAGCACTTTC	0.433													16	70					0	0	0.004007	0	0		T	113965833	T	T	113965833	3	4	191	1	0	0	0	0	1	0	0	0	7459	739	26	2	172	2	HTR2C	23	113965833	Missense_Mutation	SNP	C	TCGA-F1-6874-01A-11D-1882-08	2267121	113965833	41304727	942	96564											
BCORL1	63035	broad.mit.edu	37	chrX	129189948	129189948	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaaggccgagttctacaGgcaggtggcctccagtcagc	8	6	13	14	1	2	0	1	0	1	0	3	1	3	0	4	4	2	2	4	4	2	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:129189948G>T	uc004evb.1	+	13	5087	c.4973G>T	c.(4972-4974)AGG>ATG	p.R1658M	BCORL1_uc004evc.1_Missense_Mutation_p.R494M	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	1658					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						GAGTTCTACAGGCAGGTGGCC	0.602													85	61					2.79443e-65	3.3218e-65	0.01441	1	0		T	129189948	T	T	129189948	3	4	191	1	0	0	0	0	1	0	0	0	1388	1000	35	5	5245	5	BCORL1	23	129189948	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	15224115	129189948	26080612	943	96565											
MAMLD1	10046	broad.mit.edu	37	chrX	149639606	149639606	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctcagccactgcctcCtccacggccactgccacctt	5	8	6	22	1	1	0	1	0	0	0	4	0	4	0	9	1	3	0	9	1	0	1			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:149639606C>A	uc004fee.1	+	3	1837	c.1761C>A	c.(1759-1761)TCC>TCA	p.S587S	MAMLD1_uc011mxt.1_Silent_p.S549S|MAMLD1_uc011mxu.1_Silent_p.S562S|MAMLD1_uc011mxv.1_Silent_p.S562S|MAMLD1_uc011mxw.1_Silent_p.S514S	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	587					male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					CCACTGCCTCCTCCACGGCCA	0.488													48	28					5.2432e-18	6.03629e-18	0.01441	1	0		A	149639606	A	A	149639606	2	1	191	1	0	0	0	0	0	0	0	1	9226	668	24	5		5	MAMLD1	23	149639606	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	20449658	149639606	5630954	944	96566											
GABRE	2564	broad.mit.edu	37	chrX	151128320	151128320	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcacgcttaccaactggggTtgtgattatttcagttttgt	7	16	11	7	1	1	1	1	1	0	0	1	1	1	1	1	3	2	4	1	3	3	6			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:151128320T>C	uc004ffi.2	-	6	829	c.775A>G	c.(775-777)ACC>GCC	p.T259A	GABRE_uc011myd.1_RNA|GABRE_uc011mye.1_RNA|MIR224_hsa-mir-224|MI0000301_5'Flank|MIR452_hsa-mir-452|MI0001733_5'Flank	NM_004961	NP_004952	P78334	GBRE_HUMAN	gamma-aminobutyric acid (GABA) A receptor,	259	Helical; (Potential).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CCAACTGGGGTTGTGATTATT	0.463													35	26					0	0	0.003755	0	0		C	151128320	C	C	151128320	3	2	191	1	0	0	0	0	1	0	0	0	6184	1725	60	3	761	3	GABRE	23	151128320	Missense_Mutation	SNP	T	TCGA-F1-6874-01A-11D-1882-08	1488714	151128320	4142240	945	96567											
IRAK1	3654	broad.mit.edu	37	chrX	153278091	153278091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttgatgataatctgcggtgGctctgacgacgatgatgcag	9	11	14	7	3	2	4	0	4	2	0	2	6	2	4	0	2	2	3	0	2	1	2			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:153278091G>A	uc004fjs.1	-	13	2048	c.1969C>T	c.(1969-1971)CCA>TCA	p.P657S	IRAK1_uc004fjr.1_Missense_Mutation_p.P627S|IRAK1_uc004fjt.1_Missense_Mutation_p.P578S|IRAK1_uc010nur.2_Intron	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	657					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ATCTGCGGTGGCTCTGACGAC	0.627													4	49					0	0	0.000602	0	0		A	153278091	A	A	153278091	3	1	191	1	0	0	0	0	1	0	0	0	7837	1203	42	2	177	2	IRAK1	23	153278091	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	2149771	153278091	1992469	946	96568											
ATP6AP1	537	broad.mit.edu	37	chrX	153663736	153663736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caatgcttcccaggtcacagGgcccagcatctactccttcc	8	9	7	17	0	2	0	1	0	1	0	5	0	5	0	4	2	3	2	4	2	2	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:153663736G>A	uc004flf.1	+	9	1149	c.1088G>A	c.(1087-1089)GGG>GAG	p.G363E	ATP6AP1_uc004flg.1_RNA|ATP6AP1_uc004flh.1_Missense_Mutation_p.G323E|GDI1_uc011mzo.1_5'Flank|GDI1_uc004fli.3_5'Flank	NM_001183	NP_001174	Q15904	VAS1_HUMAN	ATPase, H+ transporting, lysosomal accessory	363					ATP hydrolysis coupled proton transport	integral to membrane|proton-transporting V-type ATPase, V1 domain|vacuolar membrane	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			ovary(3)|breast(1)	4	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)					CAGGTCACAGGGCCCAGCATC	0.607													27	12					0	0	0.007291	0	0		A	153663736	A	A	153663736	3	1	191	1	0	0	0	0	1	0	0	0	1166	1232	43	4	1122	4	ATP6AP1	23	153663736	Missense_Mutation	SNP	G	TCGA-F1-6874-01A-11D-1882-08	385645	153663736	1606824	947	96569											
DKC1	1736	broad.mit.edu	37	chrX	153995617	153995617	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccgagtgaggaccatctaCgagagcaaaatgattgaata	15	8	10	8	2	1	4	0	3	1	1	2	7	2	5	2	1	2	1	2	1	5	3			TCGA-F1-6874-01A-11D-1882-08	TCGA-F1-6874-10A-01D-1882-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ec0d479-4948-4ce0-b9d0-9b808cbfcae9	bfd4cdc1-5298-4940-82cd-0994eca8b99d	g.chrX:153995617C>T	uc004fmm.2	+	7	810	c.600C>T	c.(598-600)TAC>TAT	p.Y200Y	DKC1_uc010nvf.2_Silent_p.Y200Y|SNORA36A_uc004fmn.2_5'Flank	NM_001363	NP_001354	O60832	DKC1_HUMAN	dyskerin isoform 1	200					cell proliferation|pseudouridine synthesis|rRNA processing|telomere maintenance via telomerase	Cajal body|nucleolus|telomerase holoenzyme complex	protein binding|pseudouridine synthase activity|RNA binding|telomerase activity				0	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)					GGACCATCTACGAGAGCAAAA	0.453									Congenital_Dyskeratosis				72	51					0	0	0.01441	0	0		T	153995617	T	T	153995617	2	4	191	1	0	0	0	0	0	0	0	1	4548	547	19	1		1	DKC1	23	153995617	Silent	SNP	C	TCGA-F1-6874-01A-11D-1882-08	331881	153995617	1274943	948	96570											
ATAD3C	219293	broad.mit.edu	37	chr1	1403804	1403804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggacggggtcctgaccgaggCcatgatggacgcctgcgtgc	6	6	17	12	4	0	2	0	2	0	0	1	5	1	4	4	5	2	0	4	5	0	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:1403804C>T	uc001aft.2	+	12	2125	c.1130C>T	c.(1129-1131)GCC>GTC	p.A377V		NM_001039211	NP_001034300	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	377							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CTGACCGAGGCCATGATGGAC	0.657													12	16					0	0	0.00499	0	0		T	1403804	T	T	1403804	3	4	192	1	0	0	0	0	1	0	0	0	1076	739	26	2	1176	2	ATAD3C	1	1403804	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08		1403804	247846817	1	96571											
CHD5	26038	broad.mit.edu	37	chr1	6184073	6184073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcactggtgtgttggggtccGaggagatcacctcgcccgac	6	8	15	12	3	1	1	1	0	0	1	3	4	2	1	3	4	0	2	3	4	0	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:6184073G>A	uc001amb.1	-	31	4734	c.4634C>T	c.(4633-4635)TCG>TTG	p.S1545L	CHD5_uc001alz.1_Missense_Mutation_p.S402L|CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA|CHD5_uc009vlx.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1545					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GTTGGGGTCCGAGGAGATCAC	0.667													4	8					0	0	0.009096	0	0		A	6184073	A	A	6184073	3	1	192	1	0	0	0	0	1	0	0	0	3331	1059	37	1	1274	1	CHD5	1	6184073	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	4780269	6184073	243066548	2	96572											
CLCNKB	1188	broad.mit.edu	37	chr1	16374443	16374443	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accatgttggcgggtgtggtCttggaggactacctggatat	7	12	15	7	1	1	0	0	0	1	0	1	3	1	3	2	6	1	1	2	6	2	4			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:16374443C>T	uc001axw.3	+	5	482	c.402C>T	c.(400-402)GTC>GTT	p.V134V	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Silent_p.V134V|CLCNKB_uc001axy.3_5'Flank	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	134					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		CGGGTGTGGTCTTGGAGGACT	0.577													39	40					0	0	0.010771	0	0		T	16374443	T	T	16374443	2	4	192	1	0	0	0	0	0	0	0	1	3473	900	32	4		4	CLCNKB	1	16374443	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	10190370	16374443	232876178	3	96573											
EPHA8	2046	broad.mit.edu	37	chr1	22913046	22913046	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccctccccacagccactcCgcagctccagccgcccaagc	7	4	7	23	2	0	0	0	0	0	0	3	0	3	0	8	0	5	2	8	0	1	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:22913046C>T	uc001bfx.1	+	4	1022	c.897C>T	c.(895-897)TCC>TCT	p.S299S	EPHA8_uc001bfw.2_Silent_p.S299S	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	299	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		ACAGCCACTCCGCAGCTCCAG	0.667													22	28					0	0	0.016522	0	0		T	22913046	T	T	22913046	2	4	192	1	0	0	0	0	0	0	0	1	5181	639	23	1		1	EPHA8	1	22913046	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	6538603	22913046	226337575	4	96574											
ZMYND12	84217	broad.mit.edu	37	chr1	42921644	42921644	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gagtctgcgccccttggggaCtgccagtgggtagatcacat	7	9	14	11	1	2	1	1	0	1	1	2	3	2	2	3	3	2	1	3	3	1	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:42921644C>G	uc001chj.2	-	1	295	c.25G>C	c.(25-27)GTC>CTC	p.V9L	ZMYND12_uc010ojt.1_5'UTR|PPCS_uc001chk.2_5'Flank|PPCS_uc001chl.2_5'Flank	NM_032257	NP_115633	Q9H0C1	ZMY12_HUMAN	zinc finger, MYND-type containing 12 isoform 1	9						intracellular	zinc ion binding			ovary(1)	1	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCCTTGGGGACTGCCAGTGGG	0.612													9	17					0	0	0.010729	0	0		G	42921644	G	G	42921644	3	3	192	1	0	0	0	0	1	0	0	0	17732	565	20	5	1104	5	ZMYND12	1	42921644	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	20008598	42921644	206328977	5	96575											
GPATCH4	54865	broad.mit.edu	37	chr1	156566248	156566248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtctttgtttggcttctctCcacctgaagtcaatgtagcc	7	15	8	11	0	3	1	1	1	2	0	5	1	4	1	3	1	1	3	3	1	3	4			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:156566248C>T	uc001fpm.2	-	6	410	c.371G>A	c.(370-372)GGA>GAA	p.G124E	APOA1BP_uc010php.1_Intron|GPATCH4_uc001fpl.2_Missense_Mutation_p.G119E	NM_015590	NP_056405	Q5T3I0	GPTC4_HUMAN	G patch domain containing 4 isoform 1	119						intracellular	nucleic acid binding			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGGCTTCTCTCCACCTGAAGT	0.502													35	104					0	0	0.017118	0	0		T	156566248	T	T	156566248	3	4	192	1	0	0	0	0	1	0	0	0	6608	855	30	4	768	4	GPATCH4	1	156566248	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	113644604	156566248	92684373	6	96576											
OR6K2	81448	broad.mit.edu	37	chr1	158670349	158670349	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgaaagcatagatgaagaGcagtggaacaaagcagacaa	21	4	11	5	0	0	5	0	2	0	3	0	6	0	6	0	1	4	3	0	1	7	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:158670349G>T	uc001fsu.1	-	1	94	c.94C>A	c.(94-96)CTC>ATC	p.L32I		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TAGATGAAGAGCAGTGGAACA	0.453													21	76					3.5997e-14	3.85867e-14	0.014323	1	0		T	158670349	T	T	158670349	3	4	192	1	0	0	0	0	1	0	0	0	11221	971	34	5	884	5	OR6K2	1	158670349	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	2104101	158670349	90580272	7	96577											
MNDA	4332	broad.mit.edu	37	chr1	158819008	158819008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccaagaaaaacaaggaagGaccaatgaatgttaattgaa	20	6	10	5	0	0	3	0	2	0	1	0	5	0	5	2	3	1	1	2	3	9	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:158819008G>T	uc001fsz.1	+	7	1405	c.1205G>T	c.(1204-1206)GGA>GTA	p.G402V		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	402					B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AACAAGGAAGGACCAATGAAT	0.318													25	20					1.17739e-12	1.2442e-12	0.005443	1	0		T	158819008	T	T	158819008	3	4	192	1	0	0	0	0	1	0	0	0	9694	1174	41	5	1227	5	MNDA	1	158819008	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	148659	158819008	90431613	8	96578											
FCGR3B	2215	broad.mit.edu	37	chr1	161599690	161599690	+	Missense_Mutation	SNP	A	T	T	1	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	tcgaggcctggcttgagatgAggttctcattgtgaaaccac	9	11	12	9	1	1	3	1	3	1	1	3	5	1	3	2	3	1	2	2	3	1	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:161599690A>T	uc009wul.2	-	3	471	c.197T>A	c.(196-198)CTC>CAC	p.L66H		NM_000570	NP_000561	O75015	FCG3B_HUMAN	low affinity immunoglobulin gamma Fc region	66	Ig-like C2-type 1.				immune response	anchored to membrane|extracellular region|plasma membrane	IgG binding|receptor activity				0	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	GCTTGAGATGAGGTTCTCATT	0.542													23	65					0	0	0.012213	0	0		T	161599690	T	T	161599690	3	4	192	1	0	0	0	0	1	0	0	0	5799	304	11	5	516	5	FCGR3B	1	161599690	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08	2780682	161599690	87650931	9	96579											
DDR2	4921	broad.mit.edu	37	chr1	162724593	162724593	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccatgtacaagatcaattAcagtcgggatggcactcgct	11	9	9	12	2	1	1	1	0	0	1	3	2	1	2	2	2	2	3	2	2	4	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr1:162724593A>G	uc001gcf.2	+	6	830	c.365A>G	c.(364-366)TAC>TGC	p.Y122C	DDR2_uc001gcg.2_Missense_Mutation_p.Y122C	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	122	Extracellular (Potential).|F5/8 type C.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			AAGATCAATTACAGTCGGGAT	0.522													3	73					0	0	0.004672	0	0		G	162724593	G	G	162724593	3	3	192	1	0	0	0	0	1	0	0	0	4340	391	14	3	375	3	DDR2	1	162724593	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08	1124903	162724593	86526028	10	96580											
MXD1	4084	broad.mit.edu	37	chr2	70165237	70165237	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctccctgcagaagaaatcGacgttgacgtggagagcacg	11	7	12	11	4	0	4	0	1	0	3	3	6	2	4	2	1	2	3	2	1	2	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:70165237G>A	uc002sfy.2	+	6	747	c.487G>A	c.(487-489)GAC>AAC	p.D163N	MXD1_uc010yqp.1_Missense_Mutation_p.D162N|MXD1_uc010yqq.1_Missense_Mutation_p.D100N|MXD1_uc010yqr.1_RNA|MXD1_uc010yqs.1_Missense_Mutation_p.D153N	NM_002357	NP_002348	Q05195	MAD1_HUMAN	MAX dimerization protein 1	163					cell proliferation|multicellular organismal development	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						AGAAGAAATCGACGTTGACGT	0.453													15	23					0	0	0.003163	0	0		A	70165237	A	A	70165237	3	1	192	1	0	0	0	0	1	0	0	0	10017	1058	37	1	509	1	MXD1	2	70165237	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		70165237	173034136	11	96581											
ADD2	119	broad.mit.edu	37	chr2	70910804	70910804	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggcccaaaggtgctcccGgcccactgcacggagcccac	9	4	11	17	2	0	0	0	0	0	0	1	1	1	1	4	4	3	2	4	4	2	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:70910804G>A	uc002sgz.2	-	10	1509	c.1044C>T	c.(1042-1044)GCC>GCT	p.A348A	ADD2_uc010fds.1_RNA|ADD2_uc002sgy.2_Silent_p.A348A|ADD2_uc002sha.2_Intron|ADD2_uc002sgx.2_Silent_p.A348A|ADD2_uc010fdt.1_Silent_p.A348A|ADD2_uc002shc.1_Silent_p.A348A|ADD2_uc002shd.1_Intron|ADD2_uc010fdu.1_Silent_p.A364A	NM_001617	NP_001608	P35612	ADDB_HUMAN	adducin 2 isoform a	348					actin filament bundle assembly|barbed-end actin filament capping|positive regulation of protein binding	cytoplasm|F-actin capping protein complex|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding			ovary(2)|pancreas(1)	3						AGGTGCTCCCGGCCCACTGCA	0.627													21	13					0	0	0.010504	0	0		A	70910804	A	A	70910804	2	1	192	1	0	0	0	0	0	0	0	1	305	1103	39	1		1	ADD2	2	70910804	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	745567	70910804	172288569	12	96582											
TGFBRAP1	9392	broad.mit.edu	37	chr2	105890146	105890146	+	Missense_Mutation	SNP	A	G	G	1	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	tggtgaaaacctgaactccgAcctgaaagaggagcgacaat	15	6	11	9	2	0	4	0	3	0	1	1	7	1	5	3	2	3	0	3	2	5	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:105890146A>G	uc002tcq.2	-	9	1751	c.1667T>C	c.(1666-1668)GTC>GCC	p.V556A	TGFBRAP1_uc010fjc.2_Intron|TGFBRAP1_uc002tcr.3_Missense_Mutation_p.V556A	NM_004257	NP_004248	Q8WUH2	TGFA1_HUMAN	transforming growth factor, beta receptor	556					regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|membrane	SMAD binding|small GTPase regulator activity|transforming growth factor beta receptor binding			central_nervous_system(1)|skin(1)	2						CTGAACTCCGACCTGAAAGAG	0.398													28	10					0	0	0.012213	0	0		G	105890146	G	G	105890146	3	3	192	1	0	0	0	0	1	0	0	0	15849	289	10	3	931	3	TGFBRAP1	2	105890146	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08	34979342	105890146	137309227	13	96583											
RGPD4	285190	broad.mit.edu	37	chr2	108479248	108479248	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatggttctttgcgaaatgcGgattcagaaataaaacattc	15	12	8	6	2	2	1	1	0	1	1	3	3	2	2	0	2	3	1	0	2	5	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:108479248G>A	uc010ywk.1	+	16	2398	c.2316G>A	c.(2314-2316)GCG>GCA	p.A772A	RGPD4_uc002tdu.2_5'UTR|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	772					intracellular transport		binding			skin(2)	2						TGCGAAATGCGGATTCAGAAA	0.368													6	51					0	0	0.001984	0	0		A	108479248	A	A	108479248	2	1	192	1	0	0	0	0	0	0	0	1	13313	1103	39	1		1	RGPD4	2	108479248	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	2589102	108479248	134720125	14	96584											
IL1F6	27179	broad.mit.edu	37	chr2	113763626	113763626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgggttcttcaggaccagaCgctcatagcagtcccgagga	9	8	13	11	2	3	1	2	0	1	1	4	4	4	3	2	3	1	3	2	3	1	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:113763626C>T	uc010yxr.1	+	2	86	c.86C>T	c.(85-87)ACG>ATG	p.T29M		NM_014440	NP_055255	Q9UHA7	IL36A_HUMAN	interleukin 1 family, member 6 (epsilon)	29					immune response|inflammatory response	extracellular space	cytokine activity|interleukin-1 receptor binding				0						CAGGACCAGACGCTCATAGCA	0.498													9	79					0	0	0.006214	0	0		T	113763626	T	T	113763626	3	4	192	1	0	0	0	0	1	0	0	0	7670	536	19	1	92	1	IL1F6	2	113763626	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	5284378	113763626	129435747	15	96585											
LYPD1	116372	broad.mit.edu	37	chr2	133403681	133403681	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtggtgcggagccctggcctGagggccgaggcagaacttcc	6	6	17	12	2	0	2	0	1	0	1	1	4	1	3	4	5	3	1	4	5	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:133403681G>A	uc002ttn.2	-	3	1339	c.363C>T	c.(361-363)CTC>CTT	p.L121L	GPR39_uc002ttl.2_3'UTR|LYPD1_uc002ttm.3_Silent_p.L137L|LYPD1_uc002tto.2_Silent_p.L69L	NM_144586	NP_653187	Q8N2G4	LYPD1_HUMAN	LY6/PLAUR domain containing 1 isoform a	121						anchored to membrane|plasma membrane					0						GCCCTGGCCTGAGGGCCGAGG	0.572													38	30					0	0	0.009718	0	0		A	133403681	A	A	133403681	2	1	192	1	0	0	0	0	0	0	0	1	9127	1277	45	4		4	LYPD1	2	133403681	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	19640055	133403681	109795692	16	96586											
XRCC5	7520	broad.mit.edu	37	chr2	216997075	216997075	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagattcttcatgggaaatCaagttctaaaggtctttgca	13	13	9	6	0	5	1	2	0	3	1	5	3	5	2	0	2	1	2	0	2	5	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:216997075C>T	uc002vfy.2	+	10	1218	c.1078C>T	c.(1078-1080)CAA>TAA	p.Q360*	XRCC5_uc002vfz.2_Nonsense_Mutation_p.Q246*	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	360	Ku.				double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		CATGGGAAATCAAGTTCTAAA	0.383								Direct_reversal_of_damage|NHEJ					26	68					0	0	0.009535	0	0		T	216997075	T	T	216997075	4	4	192	1	0	0	0	0	0	1	0	0	17482	827	29	4	1116	4	XRCC5	2	216997075	Nonsense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	83593394	216997075	26202298	17	96587											
CXCR2	3579	broad.mit.edu	37	chr2	218999946	218999946	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cctgctactggcctgcatcaGtgtggaccgttacctggcca	6	10	11	14	1	1	0	1	0	0	0	1	1	1	1	5	3	4	3	5	3	2	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:218999946G>A	uc002vgz.1	+	4	647	c.422G>A	c.(421-423)AGT>AAT	p.S141N	CXCR2_uc002vha.1_Missense_Mutation_p.S141N|CXCR2_uc002vhb.1_Missense_Mutation_p.S141N	NM_001557	NP_001548	P25025	CXCR2_HUMAN	interleukin 8 receptor beta	141	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cellular defense response|dendritic cell chemotaxis|inflammatory response|neutrophil activation|neutrophil chemotaxis|positive regulation of cell proliferation	cell surface|integral to plasma membrane|mast cell granule	interleukin-8 receptor activity			lung(1)|breast(1)	2						GCCTGCATCAGTGTGGACCGT	0.512													43	39					0	0	0.01441	0	0		A	218999946	A	A	218999946	3	1	192	1	0	0	0	0	1	0	0	0	4094	1029	36	4	424	4	CXCR2	2	218999946	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	2002871	218999946	24199427	18	96588											
SP140	11262	broad.mit.edu	37	chr2	231152636	231152636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggcaaacctggaacccgcTtcactcagagtgacagagct	12	6	11	12	1	2	3	2	1	0	2	2	5	2	4	2	2	3	3	2	2	2	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:231152636T>C	uc002vql.2	+	18	1790	c.1675T>C	c.(1675-1677)TTC>CTC	p.F559L	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Missense_Mutation_p.F445L|SP140_uc002vqm.2_Missense_Mutation_p.F499L|SP140_uc010fxl.2_Missense_Mutation_p.F532L	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	559					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		TGGAACCCGCTTCACTCAGAG	0.378													6	37					0	0	0.001984	0	0		C	231152636	C	C	231152636	3	2	192	1	0	0	0	0	1	0	0	0	14987	1609	56	3	1862	3	SP140	2	231152636	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	12152690	231152636	12046737	19	96589											
COL6A3	1293	broad.mit.edu	37	chr2	238249716	238249716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccatgtcgatgtccacatCgctccctgccgctctcctgt	5	11	8	17	3	1	0	0	0	1	0	6	1	3	0	5	0	2	2	5	0	0	0	rs145884404		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr2:238249716C>T	uc002vwl.2	-	38	8128	c.7843G>A	c.(7843-7845)GAT>AAT	p.D2615N	COL6A3_uc002vwo.2_Missense_Mutation_p.D2409N|COL6A3_uc010znj.1_Missense_Mutation_p.D2008N|COL6A3_uc002vwj.2_5'UTR	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2615	Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ATGTCCACATCGCTCCCTGCC	0.522													78	140					0	0	0.01441	0	0		T	238249716	T	T	238249716	3	4	192	1	0	0	0	0	1	0	0	0	3704	884	31	1	1718	1	COL6A3	2	238249716	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	7097080	238249716	4949657	20	96590											
CAMK1	8536	broad.mit.edu	37	chr3	9804598	9804598	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacccccttgagccccacCttgagatcccggtgtacaat	9	8	7	17	1	0	2	0	2	0	1	1	3	1	2	6	1	2	1	6	1	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:9804598C>T	uc003bst.2	-	5	607	c.429G>A	c.(427-429)AAG>AAA	p.K143K	OGG1_uc003bsk.2_Intron|OGG1_uc003bsl.2_Intron|OGG1_uc003bsm.2_Intron|OGG1_uc003bsn.2_Intron|OGG1_uc003bso.2_Intron|CAMK1_uc003bsu.2_RNA|CAMK1_uc003bss.2_5'Flank|uc003bsv.1_RNA	NM_003656	NP_003647	Q14012	KCC1A_HUMAN	calcium/calmodulin-dependent protein kinase I	143	Protein kinase.				cell differentiation|nervous system development|positive regulation of muscle cell differentiation|signal transduction	cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|skin(1)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.0475)		TGAGCCCCACCTTGAGATCCC	0.488													19	24					0	0	0.021523	0	0		T	9804598	T	T	9804598	2	4	192	1	0	0	0	0	0	0	0	1	2599	695	24	4		4	CAMK1	3	9804598	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08		9804598	188217832	21	96591											
ZNF385D	79750	broad.mit.edu	37	chr3	21706378	21706378	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatttggcaggtacttacCgcattgaaattggggaagag	13	10	12	6	1	0	2	0	1	0	1	0	3	0	3	1	4	2	3	1	4	5	5	rs147583836		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:21706378C>T	uc003cce.2	-	2	573	c.165G>A	c.(163-165)GCG>GCA	p.A55A	ZNF385D_uc010hfb.1_Intron	NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	55						nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						AGGTACTTACCGCATTGAAAT	0.468													36	41					0	0	0.013114	0	0		T	21706378	T	T	21706378	2	4	192	1	0	0	0	0	0	0	0	1	17903	666	23	1		1	ZNF385D	3	21706378	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	11901780	21706378	176316052	22	96592											
STT3B	201595	broad.mit.edu	37	chr3	31661247	31661247	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggtgtctttcttctttgatCtacatattcttgtatgtacc	6	20	7	8	0	5	1	0	1	5	0	5	1	5	1	1	1	2	2	1	1	4	9			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:31661247C>T	uc011axe.1	+	9	1252	c.1252C>T	c.(1252-1254)CTA>TTA	p.L418L	STT3B_uc010hft.1_Intron|STT3B_uc003cer.1_Silent_p.L418L|STT3B_uc003cet.2_Silent_p.L169L	NM_178862	NP_849193	Q8TCJ2	STT3B_HUMAN	source of immunodominant MHC-associated	418	Helical; (Potential).				protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding				0						CTTCTTTGATCTACATATTCT	0.348													18	25					0	0	0.010504	0	0		T	31661247	T	T	31661247	2	4	192	1	0	0	0	0	0	0	0	1	15359	912	32	4		4	STT3B	3	31661247	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	9954869	31661247	166361183	23	96593											
EXOG	9941	broad.mit.edu	37	chr3	38542927	38542927	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccttcaatgaagattatgTtggaagtgggtggtcacgag	10	12	14	5	1	2	2	2	1	0	1	2	4	2	3	1	3	1	1	1	3	4	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:38542927T>C	uc003cih.2	+	3	491	c.395T>C	c.(394-396)GTT>GCT	p.V132A	EXOG_uc010hhg.2_RNA|EXOG_uc011ayq.1_Missense_Mutation_p.V82A|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_5'UTR|EXOG_uc010hhe.2_5'UTR|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_5'UTR	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	132						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						GAAGATTATGTTGGAAGTGGG	0.443													3	73					0	0	0.009096	0	0		C	38542927	C	C	38542927	3	2	192	1	0	0	0	0	1	0	0	0	5320	1725	60	3	405	3	EXOG	3	38542927	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	6881680	38542927	159479503	24	96594											
LARS2	23395	broad.mit.edu	37	chr3	45559430	45559430	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgctgagatggcaacaaCgactgtggaccttgacaact	11	8	13	9	1	0	2	0	2	0	1	0	5	0	3	1	3	4	2	1	3	3	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:45559430C>T	uc003cop.1	+	18	2265	c.2080C>T	c.(2080-2082)CGA>TGA	p.R694*	LARS2_uc010hit.1_Nonsense_Mutation_p.R651*	NM_015340	NP_056155	Q15031	SYLM_HUMAN	leucyl-tRNA synthetase 2, mitochondrial	694					leucyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|leucine-tRNA ligase activity	p.R694*(1)		upper_aerodigestive_tract(1)|ovary(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.0122)|KIRC - Kidney renal clear cell carcinoma(197;0.0313)|Kidney(197;0.0372)	L-Leucine(DB00149)	ATGGCAACAACGACTGTGGAC	0.507													13	24					0	0	0.00499	0	0		T	45559430	T	T	45559430	4	4	192	1	0	0	0	0	0	1	0	0	8651	528	19	1	2142	1	LARS2	3	45559430	Nonsense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	7016503	45559430	152463000	25	96595											
EPHA3	2042	broad.mit.edu	37	chr3	89468434	89468434	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggccattaagaccctgaaAgttggctacacagaaaagca	15	7	10	9	0	0	3	0	1	0	2	0	3	0	3	2	2	2	3	2	2	5	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:89468434A>C	uc003dqy.2	+	11	2193	c.1968A>C	c.(1966-1968)AAA>AAC	p.K656N	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	656	Cytoplasmic (Potential).|Protein kinase.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		AGACCCTGAAAGTTGGCTACA	0.438										TSP Lung(6;0.00050)			22	27					0	0	0.012319	0	0		C	89468434	C	C	89468434	3	2	192	1	0	0	0	0	1	0	0	0	5176	69	3	5	2036	5	EPHA3	3	89468434	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08	43909004	89468434	108553996	26	96596											
PAQR9	344838	broad.mit.edu	37	chr3	142681581	142681581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gataaggcgcgtgcagtccaCgtgccagcccaggcgctgct	7	6	14	14	4	0	0	0	0	0	0	1	1	1	0	3	2	4	3	3	2	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:142681581C>T	uc003evg.2	-	1	598	c.598G>A	c.(598-600)GTG>ATG	p.V200M	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	200	Extracellular (Potential).					integral to membrane	receptor activity				0						GTGCAGTCCACGTGCCAGCCC	0.647													5	8					0	0	0.001168	0	0		T	142681581	T	T	142681581	3	4	192	1	0	0	0	0	1	0	0	0	11461	536	19	1	539	1	PAQR9	3	142681581	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	53213147	142681581	55340849	27	96597											
PLOD2	5352	broad.mit.edu	37	chr3	145789117	145789117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactggtgcaatgaactcccGgataaaatgaagccatacat	16	8	8	9	1	0	2	0	2	0	0	1	3	1	3	2	2	5	1	2	2	7	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:145789117G>A	uc003evs.1	-	17	2385	c.1879C>T	c.(1879-1881)CGG>TGG	p.R627W	PLOD2_uc003evq.1_Missense_Mutation_p.R308W|PLOD2_uc011bnm.1_Missense_Mutation_p.R593W|PLOD2_uc003evr.1_Missense_Mutation_p.R648W	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	627					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	ATGAACTCCCGGATAAAATGA	0.413													33	51					0	0	0.019004	0	0		A	145789117	A	A	145789117	3	1	192	1	0	0	0	0	1	0	0	0	12121	1115	39	1	346	1	PLOD2	3	145789117	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	3107536	145789117	52233313	28	96598											
DLG1	1739	broad.mit.edu	37	chr3	196778537	196778537	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgttagacgcttattcattTccctacgaaaataaatgtag	13	14	6	8	2	1	1	1	0	0	1	2	2	2	1	1	0	1	3	1	0	8	7			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr3:196778537T>C	uc003fxo.3	-	25	2709	c.2519A>G	c.(2518-2520)GAA>GGA	p.E840G	DLG1_uc011bub.1_Missense_Mutation_p.E736G|DLG1_uc011buc.1_Missense_Mutation_p.E724G|DLG1_uc011bud.1_Missense_Mutation_p.E523G|DLG1_uc003fxn.3_Missense_Mutation_p.E862G|DLG1_uc011bue.1_Missense_Mutation_p.E828G|DLG1_uc010ial.2_Missense_Mutation_p.E840G	NM_001098424	NP_001091894	Q12959	DLG1_HUMAN	discs, large homolog 1 isoform 1	840	Guanylate kinase-like.				actin filament organization|axon guidance|cell-cell adhesion|cortical actin cytoskeleton organization|endothelial cell proliferation|establishment or maintenance of cell polarity|interspecies interaction between organisms|mitotic cell cycle G1/S transition checkpoint|negative regulation of mitotic cell cycle|protein localization in plasma membrane|synaptic transmission|tight junction assembly	basolateral plasma membrane|cytosol|endoplasmic reticulum membrane|immunological synapse|MPP7-DLG1-LIN7 complex|nucleus|postsynaptic density|postsynaptic membrane|sarcolemma|tight junction	cytoskeletal protein binding|guanylate kinase activity|L27 domain binding|phosphatase binding|phosphoprotein phosphatase activity|potassium channel regulator activity|protein binding|protein C-terminus binding|protein kinase binding			ovary(3)	3	all_cancers(143;6.22e-10)|Ovarian(172;0.0418)|Breast(254;0.0589)	Lung NSC(153;0.133)	Epithelial(36;3.23e-24)|all cancers(36;2.15e-22)|OV - Ovarian serous cystadenocarcinoma(49;3.88e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0148)		CTTATTCATTTCCCTACGAAA	0.323													18	19					0	0	0.010504	0	0		C	196778537	C	C	196778537	3	2	192	1	0	0	0	0	1	0	0	0	4560	1783	62	3	203	3	DLG1	3	196778537	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	50989420	196778537	1243893	29	96599											
BOD1L	259282	broad.mit.edu	37	chr4	13603233	13603233	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcctggtggtgcatcattaTctcccaggacaacacctgca	9	11	8	13	0	2	0	1	0	1	0	4	1	3	1	3	3	3	2	3	3	2	2	rs151182576		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr4:13603233T>C	uc003gmz.1	-	10	5408	c.5291A>G	c.(5290-5292)GAT>GGT	p.D1764G	BOD1L_uc010idr.1_Missense_Mutation_p.D1101G	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	1764							DNA binding			ovary(5)|breast(1)	6						TGCATCATTATCTCCCAGGAC	0.527													130	151					0	0	0.01441	0	0		C	13603233	C	C	13603233	3	2	192	1	0	0	0	0	1	0	0	0	1484	1435	50	3	3932	3	BOD1L	4	13603233	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08		13603233	177551043	30	96600											
FAM13A	10144	broad.mit.edu	37	chr4	89772203	89772203	+	Silent	SNP	T	C	C	0	1	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	ttggcactaatagcaccctcTgctgaattcatgtcttccaa	10	13	6	12	0	3	1	1	1	2	0	4	1	4	1	2	1	2	3	2	1	4	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr4:89772203T>C	uc003hse.1	-	7	1183	c.975A>G	c.(973-975)GCA>GCG	p.A325A	FAM13A_uc003hsf.1_Intron|FAM13A_uc003hsh.1_Silent_p.A139A	NM_014883	NP_055698	O94988	FA13A_HUMAN	family with sequence similarity 13, member A1	325					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|liver(1)	2						TAGCACCCTCTGCTGAATTCA	0.453													51	88					0	0	0.01441	0	0		C	89772203	C	C	89772203	2	2	192	1	0	0	0	0	0	0	0	1	5463	1567	55	3		3	FAM13A	4	89772203	Silent	SNP	T	TCGA-F1-6875-01A-11D-2053-08	76168970	89772203	101382073	31	96601											
TARS	6897	broad.mit.edu	37	chr5	33455057	33455057	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaaattttcaggtgtattGgcactctagtgctcacataa	11	16	7	7	0	3	0	2	0	1	0	3	0	3	0	0	2	1	3	0	2	5	8			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr5:33455057G>A	uc003jhy.2	+	5	756	c.461G>A	c.(460-462)TGG>TAG	p.W154*	TARS_uc011cob.1_Nonsense_Mutation_p.W142*|TARS_uc010iup.1_Nonsense_Mutation_p.W95*|TARS_uc011coc.1_Nonsense_Mutation_p.W175*|TARS_uc003jhz.2_Nonsense_Mutation_p.W50*|TARS_uc011cod.1_Intron	NM_152295	NP_689508	P26639	SYTC_HUMAN	threonyl-tRNA synthetase	154					threonyl-tRNA aminoacylation	cytosol	ATP binding|protein homodimerization activity|threonine-tRNA ligase activity			ovary(2)	2					L-Threonine(DB00156)	CAGGTGTATTGGCACTCTAGT	0.383													40	30					0	0	0.010771	0	0		A	33455057	A	A	33455057	4	1	192	1	0	0	0	0	0	1	0	0	15584	1357	47	4	479	4	TARS	5	33455057	Nonsense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		33455057	147460203	32	96602											
APC	324	broad.mit.edu	37	chr5	112162891	112162891	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actacagtattacactaagaCgatatgctggaatggctttg	13	12	9	7	1	0	1	0	0	0	1	0	3	0	2	0	2	3	3	0	2	6	6	rs137854580		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr5:112162891C>T	uc010jby.2	+	12	1875	c.1495C>T	c.(1495-1497)CGA>TGA	p.R499*	APC_uc011cvt.1_Nonsense_Mutation_p.R481*|APC_uc003kpz.3_Nonsense_Mutation_p.R499*|APC_uc003kpy.3_Nonsense_Mutation_p.R499*|APC_uc010jbz.2_Nonsense_Mutation_p.R216*|APC_uc010jca.2_Intron	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	499	Leu-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.R499*(2)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TACACTAAGACGATATGCTGG	0.373		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			31	11					0	0	0.00623	0	0		T	112162891	T	T	112162891	4	4	192	1	0	0	0	0	0	1	0	0	763	528	19	1	1537	1	APC	5	112162891	Nonsense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	78707834	112162891	68752369	33	96603											
PCDHB10	56126	broad.mit.edu	37	chr5	140572514	140572514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagggatataaatgatcacgCgccagtatttcaggacaaag	15	8	10	8	2	2	1	2	1	0	0	2	3	2	3	1	2	0	1	1	2	5	4			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr5:140572514C>T	uc003lix.2	+	1	563	c.389C>T	c.(388-390)GCG>GTG	p.A130V		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	130	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AATGATCACGCGCCAGTATTT	0.423													21	9					0	0	0.005443	0	0		T	140572514	T	T	140572514	3	4	192	1	0	0	0	0	1	0	0	0	11554	768	27	1	391	1	PCDHB10	5	140572514	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	28409623	140572514	40342746	34	96604											
MDGA1	266727	broad.mit.edu	37	chr6	37626035	37626035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actcacactgcacgtccacgCggatggacttgatggccggc	8	7	12	14	4	1	1	1	1	0	0	2	3	2	3	2	4	1	1	2	4	0	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr6:37626035C>T	uc003onu.1	-	3	1547	c.368G>A	c.(367-369)CGC>CAC	p.R123H		NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	123	Ig-like 1.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						CACGTCCACGCGGATGGACTT	0.682													4	8					0	0	0.001984	0	0		T	37626035	T	T	37626035	3	4	192	1	0	0	0	0	1	0	0	0	9424	768	27	1	2559	1	MDGA1	6	37626035	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08		37626035	133489032	35	96605											
LRFN2	57497	broad.mit.edu	37	chr6	40399786	40399786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tggcagcaatgcaggtgaagGcaccactgtcctgagatgtg	10	8	14	9	0	0	2	0	2	0	1	1	3	1	2	2	3	2	4	2	3	2	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr6:40399786G>A	uc003oph.1	-	2	1532	c.1067C>T	c.(1066-1068)GCC>GTC	p.A356V		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	356	Extracellular (Potential).|Ig-like.					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GCAGGTGAAGGCACCACTGTC	0.602													24	13					0	0	0.016522	0	0		A	40399786	A	A	40399786	3	1	192	1	0	0	0	0	1	0	0	0	8956	1203	42	2	1310	2	LRFN2	6	40399786	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	2773751	40399786	130715281	36	96606											
MYB	4602	broad.mit.edu	37	chr6	135517008	135517008	+	Silent	SNP	G	A	A	0	0	1	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	caccactccactccatctctGccagcggatcctggctccct	6	9	6	20	1	1	0	0	0	1	0	6	1	5	1	6	2	2	1	6	2	0	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr6:135517008G>A	uc003qfc.2	+	9	1270	c.1071G>A	c.(1069-1071)CTG>CTA	p.L357L	MYB_uc003qfh.2_Silent_p.L357L|MYB_uc003qfi.2_Silent_p.L357L|MYB_uc010kgi.2_Silent_p.L357L|MYB_uc003qfq.2_Silent_p.L354L|MYB_uc010kgj.2_Silent_p.L322L|MYB_uc003qfo.2_Intron|MYB_uc003qfu.2_Silent_p.L354L|MYB_uc003qfl.2_RNA|MYB_uc003qfv.2_RNA|MYB_uc003qfz.2_RNA|MYB_uc003qfx.2_RNA|MYB_uc003qga.2_RNA|MYB_uc003qgb.2_RNA|MYB_uc010kgk.2_RNA|MYB_uc003qfd.2_RNA|MYB_uc003qfe.2_RNA|MYB_uc003qfg.2_RNA|MYB_uc003qff.2_RNA|MYB_uc003qfj.2_Intron|MYB_uc003qfm.2_RNA|MYB_uc003qfp.2_RNA|MYB_uc003qfn.2_RNA|MYB_uc003qfk.2_RNA|MYB_uc003qfr.2_RNA|MYB_uc003qfs.2_5'UTR|MYB_uc003qft.2_RNA|MYB_uc003qfw.2_Silent_p.L169L|MYB_uc003qfy.2_RNA|MYB_uc003qgc.2_RNA|MYB_uc003qfb.1_Silent_p.L357L|MYB_uc003qge.1_RNA	NM_005375	NP_005366	P10242	MYB_HUMAN	v-myb myeloblastosis viral oncogene homolog	357	Negative regulatory domain (By similarity).				blood coagulation|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of histone H3-K4 methylation|positive regulation of histone H3-K9 methylation|positive regulation of T-helper cell differentiation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear matrix	DNA binding|protein binding			lung(1)	1	all_epithelial(2;0.109)|Breast(56;0.158)|Colorectal(23;0.221)	Lung NSC(302;3.08e-05)|Ovarian(999;0.208)		OV - Ovarian serous cystadenocarcinoma(155;0.0079)|GBM - Glioblastoma multiforme(68;0.0117)		CTCCATCTCTGCCAGCGGATC	0.567			T	NFIB	adenoid cystic carcinoma								17	32					0	0	0.00499	0	0		A	135517008	A	A	135517008	2	1	192	1	0	0	0	0	0	0	0	1	10025	1306	46	2		2	MYB	6	135517008	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	95117222	135517008	35598059	37	96607											
GRM1	2911	broad.mit.edu	37	chr6	146480704	146480704	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcgccatgcggcgccttggCgtcgtgggcgagttctcact	4	9	15	13	6	1	0	1	0	1	0	3	1	1	0	2	3	2	1	2	3	0	2	rs150520977		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr6:146480704C>T	uc010khw.1	+	3	1391	c.921C>T	c.(919-921)GGC>GGT	p.G307G	GRM1_uc010khu.1_Silent_p.G307G|GRM1_uc010khv.1_Silent_p.G307G|GRM1_uc003qll.2_Silent_p.G307G|GRM1_uc011edz.1_Silent_p.G307G|GRM1_uc011eea.1_Silent_p.G307G	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	307	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GGCGCCTTGGCGTCGTGGGCG	0.398													12	13					0	0	0.013537	0	0		T	146480704	T	T	146480704	2	4	192	1	0	0	0	0	0	0	0	1	6812	755	27	1		1	GRM1	6	146480704	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	10963696	146480704	24634363	38	96608											
HEATR2	54919	broad.mit.edu	37	chr7	813704	813704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagtttcccagctacctcGagacggtgacaaaggacatc	11	7	11	12	2	0	2	0	1	0	1	3	4	1	3	2	3	2	3	2	3	2	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr7:813704G>A	uc010krz.1	+	10	1971	c.1951G>A	c.(1951-1953)GAG>AAG	p.E651K	HEATR2_uc003siz.2_Missense_Mutation_p.E519K|HEATR2_uc003sjb.2_Missense_Mutation_p.E31K|HEATR2_uc003sjc.2_Missense_Mutation_p.E76K	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	651							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		CAGCTACCTCGAGACGGTGAC	0.632													74	59					0	0	0.01441	0	0		A	813704	A	A	813704	3	1	192	1	0	0	0	0	1	0	0	0	7044	1059	37	1	1989	1	HEATR2	7	813704	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		813704	158324959	39	96609											
POLM	27434	broad.mit.edu	37	chr7	44120346	44120346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcacctccaggcggtgccGgcactccacaggtacaggct	7	6	12	16	2	1	0	1	0	0	0	3	0	3	0	4	5	2	4	4	5	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr7:44120346G>A	uc003tjt.2	-	2	450	c.358C>T	c.(358-360)CGG>TGG	p.R120W	POLM_uc003tju.2_Missense_Mutation_p.R120W|POLM_uc003tjx.2_Missense_Mutation_p.R120W|POLM_uc003tjv.2_RNA|POLM_uc011kbt.1_5'UTR|POLM_uc003tka.1_5'Flank|POLM_uc003tjz.3_Missense_Mutation_p.R120W|POLM_uc011kbu.1_Missense_Mutation_p.R120W|POLM_uc010kxy.2_Missense_Mutation_p.R120W	NM_013284	NP_037416	Q9NP87	DPOLM_HUMAN	DNA-directed DNA polymerase mu	120	BRCT.				DNA recombination|DNA repair	nucleus	DNA binding|DNA nucleotidylexotransferase activity|DNA-directed DNA polymerase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3						AGGCGGTGCCGGCACTCCACA	0.627								DNA_polymerases_(catalytic_subunits)					44	111					0	0	0.01441	0	0		A	44120346	A	A	44120346	3	1	192	1	0	0	0	0	1	0	0	0	12225	1115	39	1	1166	1	POLM	7	44120346	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	43306642	44120346	115018317	40	96610											
PKD1L1	168507	broad.mit.edu	37	chr7	47937792	47937792	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaggctgagacctccatatCtaagtatcaagaagagaaga	17	7	9	8	0	2	4	1	1	1	4	3	6	3	4	2	1	0	2	2	1	6	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr7:47937792C>T	uc003tny.1	-	14	2065	c.2065_splice	c.e14-1	p.I689_splice		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1						cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						ACCTCCATATCTAAGTATCAA	0.398													5	12					0	0	0.014758	0	0		T	47937792	T	T	47937792	5	4	192	1	0	0	0	0	0	0	1	0	11983	927	32	4	6661	4	PKD1L1	7	47937792	Splice_Site	SNP	C	TCGA-F1-6875-01A-11D-2053-08	3817446	47937792	111200871	41	96611											
AKAP9	10142	broad.mit.edu	37	chr7	91731945	91731945	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttgagggcagaaagttttcGaaaggctctcatttaccaga	12	11	10	8	1	1	3	1	1	1	2	3	4	1	3	1	2	1	3	1	2	3	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr7:91731945G>A	uc003ulg.2	+	46	11360	c.11135G>A	c.(11134-11136)CGA>CAA	p.R3712Q	AKAP9_uc003ulf.2_Missense_Mutation_p.R3704Q|AKAP9_uc003uli.2_Missense_Mutation_p.R3335Q|AKAP9_uc003ulj.2_Missense_Mutation_p.R1482Q|AKAP9_uc003ull.2_Missense_Mutation_p.R608Q	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	3716					G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GAAAGTTTTCGAAAGGCTCTC	0.458			T	BRAF	papillary thyroid								27	55					0	0	0.004656	0	0		A	91731945	A	A	91731945	3	1	192	1	0	0	0	0	1	0	0	0	459	1058	37	1	11317	1	AKAP9	7	91731945	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	43794153	91731945	67406718	42	96612											
KCND2	3751	broad.mit.edu	37	chr7	119915579	119915579	+	Missense_Mutation	SNP	T	G	G	0	1	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	actccgagtcttccgggtctTcaggatctttaagttttccc	6	15	8	12	2	4	0	1	0	3	0	7	2	7	1	3	2	0	1	3	2	1	6			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr7:119915579T>G	uc003vjj.1	+	1	1858	c.893T>G	c.(892-894)TTC>TGC	p.F298C		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	298	Helical; Voltage-sensor; Name=Segment S4; (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TTCCGGGTCTTCAGGATCTTT	0.532													23	13					0	0	0.012319	0	0		G	119915579	G	G	119915579	3	3	192	1	0	0	0	0	1	0	0	0	8035	1783	62	5	895	5	KCND2	7	119915579	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	28183634	119915579	39223084	43	96613											
TAS2R5	54429	broad.mit.edu	37	chr7	141491041	141491041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtggaagacagtgtgtgctCggagatgctggggcccatga	8	9	17	7	1	0	3	0	1	0	2	1	5	0	4	1	4	2	2	1	4	1	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr7:141491041C>T	uc003vwr.1	+	1	1025	c.880C>T	c.(880-882)CGG>TGG	p.R294W		NM_018980	NP_061853	Q9NYW4	TA2R5_HUMAN	taste receptor T2R5	294	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste		taste receptor activity				0	Melanoma(164;0.0171)					AGTGTGTGCTCGGAGATGCTG	0.493													81	53					0	0	0.01441	0	0		T	141491041	T	T	141491041	3	4	192	1	0	0	0	0	1	0	0	0	15608	875	31	1	882	1	TAS2R5	7	141491041	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	21575462	141491041	17647622	44	96614											
ADAM28	10863	broad.mit.edu	37	chr8	24184071	24184071	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattcctttcttgcagagcaAcagaacttgctggaacgact	11	12	8	10	1	1	2	0	0	1	2	2	4	2	3	1	1	6	3	1	1	4	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr8:24184071A>C	uc003xdy.2	+	10	978	c.895A>C	c.(895-897)ACA>CCA	p.T299P	ADAM28_uc003xdx.2_Missense_Mutation_p.T299P|ADAM28_uc011kzz.1_Missense_Mutation_p.T66P|ADAM28_uc011laa.1_RNA|ADAM28_uc010lua.2_5'UTR	NM_014265	NP_055080	Q9UKQ2	ADA28_HUMAN	ADAM metallopeptidase domain 28 isoform 1	299	Peptidase M12B.|Extracellular (Potential).				proteolysis|spermatogenesis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|lung(1)|central_nervous_system(1)	5		Prostate(55;0.0959)		Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0434)|BRCA - Breast invasive adenocarcinoma(99;0.175)		TTGCAGAGCAACAGAACTTGC	0.358													25	100					0	0	0.007291	0	0		C	24184071	C	C	24184071	3	2	192	1	0	0	0	0	1	0	0	0	246	43	2	5	933	5	ADAM28	8	24184071	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08		24184071	122179951	45	96615											
DPYS	1807	broad.mit.edu	37	chr8	105436539	105436539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagctattcttccttttcTtggatagagattaaaaattt	12	18	5	6	0	2	1	0	0	2	1	3	3	3	2	1	1	2	1	1	1	6	10			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr8:105436539T>C	uc003yly.3	-	7	1300	c.1171A>G	c.(1171-1173)AGA>GGA	p.R391G		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	391					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTTCCTTTTCTTGGATAGAGA	0.373													42	52					0	0	0.01441	0	0		C	105436539	C	C	105436539	3	2	192	1	0	0	0	0	1	0	0	0	4752	1617	56	3	400	3	DPYS	8	105436539	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	81252468	105436539	40927483	46	96616											
DPYS	1807	broad.mit.edu	37	chr8	105463594	105463594	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccacctttctgaggaatggcGaaatcaataatcatggtggt	12	11	10	8	1	3	1	2	1	1	0	3	3	3	2	2	4	0	0	2	4	4	2	rs141057778		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr8:105463594G>A	uc003yly.3	-	2	432	c.303C>T	c.(301-303)TTC>TTT	p.F101F		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	101					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GAGGAATGGCGAAATCAATAA	0.468													25	46					0	0	0.009535	0	0		A	105463594	A	A	105463594	2	1	192	1	0	0	0	0	0	0	0	1	4752	1049	37	1		1	DPYS	8	105463594	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	27055	105463594	40900428	47	96617											
LRP12	29967	broad.mit.edu	37	chr8	105510027	105510027	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttggcacatcacagtctatCtcatctcctaggtcaaggca	10	11	8	12	0	5	0	3	0	3	0	7	0	5	0	1	3	0	3	1	3	3	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr8:105510027C>G	uc003yma.2	-	5	848	c.753G>C	c.(751-753)GAG>GAC	p.E251D	LRP12_uc003ymb.2_Missense_Mutation_p.E232D|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	251	Extracellular (Potential).|LDL-receptor class A 2.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CACAGTCTATCTCATCTCCTA	0.398													69	59					0	0	0.01441	0	0		G	105510027	G	G	105510027	3	3	192	1	0	0	0	0	1	0	0	0	8972	912	32	5	1838	5	LRP12	8	105510027	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	46433	105510027	40853995	48	96618											
CSMD3	114788	broad.mit.edu	37	chr8	113326718	113326718	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaagaattctacaaacatggTgatattataacccttttcca	15	13	5	8	0	1	2	0	1	1	1	2	3	2	2	2	1	3	0	2	1	7	7			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr8:113326718T>C	uc003ynu.2	-	48	7648	c.7489A>G	c.(7489-7491)ACC>GCC	p.T2497A	CSMD3_uc003yns.2_Missense_Mutation_p.T1699A|CSMD3_uc003ynt.2_Missense_Mutation_p.T2457A|CSMD3_uc011lhx.1_Missense_Mutation_p.T2393A|CSMD3_uc003ynw.1_Missense_Mutation_p.T208A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2497	CUB 14.|Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ACAAACATGGTGATATTATAA	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			48	75					0	0	0.01441	0	0		C	113326718	C	C	113326718	3	2	192	1	0	0	0	0	1	0	0	0	3949	1696	59	3	3730	3	CSMD3	8	113326718	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	7816691	113326718	33037304	49	96619											
EPPK1	83481	broad.mit.edu	37	chr8	144940350	144940350	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccggtaggccacgtccacggGcacgcggtggctgtgcacgg	5	5	17	14	6	0	0	0	0	0	0	1	0	1	0	3	6	1	4	3	6	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr8:144940350G>C	uc003zaa.1	-	2	15095	c.15082C>G	c.(15082-15084)CCC>GCC	p.P5028A		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	5028	Plectin 64.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			ACGTCCACGGGCACGCGGTGG	0.687													13	707					0	0	0.020292	0	0		C	144940350	C	C	144940350	3	2	192	1	0	0	0	0	1	0	0	0	5198	1203	42	5	194	5	EPPK1	8	144940350	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	31613632	144940350	1423672	50	96620											
RNF38	152006	broad.mit.edu	37	chr9	36339763	36339763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttggtcattctgaatcccGatgcacttctgaagcatcag	9	12	10	10	1	4	2	2	2	2	0	5	3	5	2	1	2	2	3	1	2	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr9:36339763G>A	uc003zzh.2	-	12	1725	c.1534C>T	c.(1534-1536)CGG>TGG	p.R512W	RNF38_uc003zzi.2_Missense_Mutation_p.R462W|RNF38_uc003zzj.2_Missense_Mutation_p.R429W|RNF38_uc003zzk.2_Missense_Mutation_p.R429W|RNF38_uc003zzl.2_Missense_Mutation_p.R436W|RNF38_uc003zzm.2_Missense_Mutation_p.R429W	NM_022781	NP_073618	Q9H0F5	RNF38_HUMAN	ring finger protein 38 isoform 1	512							zinc ion binding			central_nervous_system(1)	1			STAD - Stomach adenocarcinoma(86;0.228)			TCTGAATCCCGATGCACTTCT	0.388													4	3					0	0	0.014758	0	0		A	36339763	A	A	36339763	3	1	192	1	0	0	0	0	1	0	0	0	13515	1057	37	1	17	1	RNF38	9	36339763	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		36339763	104873668	51	96621											
ZNF462	58499	broad.mit.edu	37	chr9	109686821	109686821	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaccctgtggttccgcccGtatcactgcaggacccctgc	6	8	10	17	2	1	1	1	0	0	1	2	2	2	2	5	2	2	3	5	2	1	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr9:109686821G>A	uc004bcz.2	+	3	917	c.628G>A	c.(628-630)GTA>ATA	p.V210I	ZNF462_uc010mto.2_Missense_Mutation_p.V58I|ZNF462_uc004bda.2_Missense_Mutation_p.V58I	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	210					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GGTTCCGCCCGTATCACTGCA	0.507													6	48					0	0	0.001168	0	0		A	109686821	A	A	109686821	3	1	192	1	0	0	0	0	1	0	0	0	17951	1145	40	1	634	1	ZNF462	9	109686821	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	73347058	109686821	31526610	52	96622											
TLR4	7099	broad.mit.edu	37	chr9	120475034	120475034	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcaatctctctttagacCtgtccctgaaccctatgaac	10	13	4	14	0	3	3	1	2	2	1	5	3	4	3	3	0	3	0	3	0	6	4			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr9:120475034C>A	uc004bjz.2	+	3	919	c.628C>A	c.(628-630)CTG>ATG	p.L210M	TLR4_uc004bka.2_Missense_Mutation_p.L170M|TLR4_uc004bkb.2_Missense_Mutation_p.L10M	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	210	LRR 7.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CTCTTTAGACCTGTCCCTGAA	0.368													20	54					5.35356e-11	5.61747e-11	0.016522	1	0		A	120475034	A	A	120475034	3	1	192	1	0	0	0	0	1	0	0	0	15978	680	24	5	638	5	TLR4	9	120475034	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	10788213	120475034	20738397	53	96623											
ZNF438	220929	broad.mit.edu	37	chr10	31134426	31134426	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctgagcagtaatctgacaacGaccacatttgatttgtaatt	13	13	7	8	1	1	3	0	3	1	0	1	4	1	3	1	0	2	3	1	0	3	5	rs146555674	by1000genomes	TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr10:31134426G>C	uc010qdz.1	-	8	2386	c.1951C>G	c.(1951-1953)CGT>GGT	p.R651G	ZNF438_uc001ivn.2_Missense_Mutation_p.R602G|ZNF438_uc010qdy.1_Missense_Mutation_p.R641G|ZNF438_uc001ivo.3_Missense_Mutation_p.R215G|ZNF438_uc009xlg.2_Missense_Mutation_p.R651G|ZNF438_uc001ivp.3_Missense_Mutation_p.R641G|ZNF438_uc010qea.1_Missense_Mutation_p.R651G|ZNF438_uc010qeb.1_Missense_Mutation_p.R651G	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	651					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				ATCTGACAACGACCACATTTG	0.408													14	85					0	0	0.003163	0	0		C	31134426	C	C	31134426	3	2	192	1	0	0	0	0	1	0	0	0	17935	1058	37	5	539	5	ZNF438	10	31134426	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		31134426	104400321	54	96624											
ACTA2	59	broad.mit.edu	37	chr10	90699289	90699289	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggatggctggaacagggtCtctgggcagcggaaacgttc	10	7	16	8	2	1	0	0	0	1	0	3	3	1	3	0	6	3	3	0	6	3	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr10:90699289C>T	uc001kfp.2	-	7	899	c.783G>A	c.(781-783)GAG>GAA	p.E261E	STAMBPL1_uc010qmx.1_Intron|ACTA2_uc010qmy.1_Silent_p.E216E|ACTA2_uc001kfq.2_Silent_p.E261E|uc001kfo.1_RNA	NM_001613	NP_001604	P62736	ACTA_HUMAN	alpha 2 actin	261					response to virus	cytosol	ATP binding				0		Colorectal(252;0.0161)		Colorectal(12;0.000123)|COAD - Colon adenocarcinoma(12;0.00018)		GGAACAGGGTCTCTGGGCAGC	0.532													32	99					0	0	0.00874	0	0		T	90699289	T	T	90699289	2	4	192	1	0	0	0	0	0	0	0	1	192	912	32	4		4	ACTA2	10	90699289	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	59564863	90699289	44835458	55	96625											
NLRP10	338322	broad.mit.edu	37	chr11	7981973	7981973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagcagcccccatcatcatCgggcggcagaaaggtggaga	11	4	15	11	2	2	2	2	0	0	2	3	4	2	3	2	5	2	2	2	5	1	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:7981973C>T	uc001mfv.1	-	2	1203	c.1186G>A	c.(1186-1188)GAT>AAT	p.D396N		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	396	NACHT.						ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCATCATCATCGGGCGGCAGA	0.557													14	21					0	0	0.003163	0	0		T	7981973	T	T	7981973	3	4	192	1	0	0	0	0	1	0	0	0	10491	884	31	1	785	1	NLRP10	11	7981973	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08		7981973	127024543	56	96626											
KCNJ11	3767	broad.mit.edu	37	chr11	17409232	17409232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcactcctcagtcaccatgCgccccccaaagccaatagtc	10	6	7	18	1	2	0	2	0	0	0	4	0	3	0	6	1	2	1	6	1	3	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:17409232C>T	uc001mna.2	-	1	975	c.407G>A	c.(406-408)CGC>CAC	p.R136H	KCNJ11_uc001mnb.3_Missense_Mutation_p.R49H	NM_000525	NP_000516	B4DWI4	B4DWI4_HUMAN	potassium inwardly-rectifying channel J11	136						integral to membrane	ATP-activated inward rectifier potassium channel activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0276)|Colorectal(2;0.0633)		AGTCACCATGCGCCCCCCAAA	0.562													8	14					0	0	0.004482	0	0		T	17409232	T	T	17409232	3	4	192	1	0	0	0	0	1	0	0	0	8061	768	27	1	769	1	KCNJ11	11	17409232	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	9427259	17409232	117597284	57	96627											
DGKZ	8525	broad.mit.edu	37	chr11	46400600	46400600	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagacgagcagagtcgcacGctcctgcaccacgcagtcag	10	4	12	15	5	1	2	1	0	0	2	3	4	2	2	2	0	2	5	2	0	0	0	rs142962841		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:46400600G>A	uc001ncn.1	+	29	3167	c.3042G>A	c.(3040-3042)ACG>ACA	p.T1014T	DGKZ_uc001nch.1_Silent_p.T842T|DGKZ_uc010rgq.1_3'UTR|DGKZ_uc001ncj.1_Silent_p.T792T|DGKZ_uc010rgr.1_Silent_p.T791T|DGKZ_uc001nck.1_Silent_p.T604T|DGKZ_uc001ncl.2_Silent_p.T826T|DGKZ_uc001ncm.2_Silent_p.T825T|DGKZ_uc009yky.1_Silent_p.T826T|DGKZ_uc010rgs.1_Silent_p.T803T|MDK_uc009ykz.1_5'Flank|MDK_uc001nco.2_5'Flank|MDK_uc001ncp.2_5'Flank|MDK_uc009yla.2_5'Flank|MDK_uc009ylb.2_5'Flank|MDK_uc001ncq.2_5'Flank|MDK_uc001ncr.2_5'Flank|MDK_uc001ncs.2_5'Flank	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	1014	ANK 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		AGAGTCGCACGCTCCTGCACC	0.692													14	1					0	0	0.004007	0	0		A	46400600	A	A	46400600	2	1	192	1	0	0	0	0	0	0	0	1	4480	1074	38	1		1	DGKZ	11	46400600	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	28991368	46400600	88605916	58	96628											
ARFGAP2	84364	broad.mit.edu	37	chr11	47188381	47188381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctgcgaatttctgacgcGcctcactagactcgaggcct	7	10	9	15	4	2	2	1	1	1	1	4	4	3	2	3	1	1	0	3	1	2	2	rs139591977		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:47188381G>A	uc001ndt.2	-	13	1277	c.1262C>T	c.(1261-1263)GCG>GTG	p.A421V	ARFGAP2_uc010rha.1_Missense_Mutation_p.A152V|ARFGAP2_uc010rhb.1_Missense_Mutation_p.A393V|ARFGAP2_uc001ndu.2_Missense_Mutation_p.A285V|ARFGAP2_uc010rhc.1_Missense_Mutation_p.A152V	NM_032389	NP_115765	Q8N6H7	ARFG2_HUMAN	ADP-ribosylation factor GTPase activating	421	Required for interaction with coatomer.				protein transport|regulation of ARF GTPase activity|vesicle-mediated transport	Golgi membrane|nucleolus|plasma membrane	ARF GTPase activator activity|zinc ion binding			ovary(1)	1						TTTCTGACGCGCCTCACTAGA	0.567													141	18					0	0	0.01441	0	0		A	47188381	A	A	47188381	3	1	192	1	0	0	0	0	1	0	0	0	850	1087	38	1	319	1	ARFGAP2	11	47188381	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	787781	47188381	87818135	59	96629											
MADD	8567	broad.mit.edu	37	chr11	47296188	47296188	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggaggatcacactgagtTtcccctgcccccagatgtag	8	10	10	13	0	1	2	1	1	0	1	2	4	2	4	4	2	1	2	4	2	1	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:47296188T>G	uc001ner.1	+	3	328	c.137T>G	c.(136-138)TTT>TGT	p.F46C	MADD_uc001neq.2_Missense_Mutation_p.F46C|MADD_uc001nev.1_Missense_Mutation_p.F46C|MADD_uc001nes.1_Missense_Mutation_p.F46C|MADD_uc001net.1_Missense_Mutation_p.F46C|MADD_uc009yln.1_Missense_Mutation_p.F46C|MADD_uc001neu.1_Missense_Mutation_p.F46C|MADD_uc001nex.2_Missense_Mutation_p.F46C|MADD_uc001nez.2_Missense_Mutation_p.F46C|MADD_uc001new.2_Missense_Mutation_p.F46C	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	46	UDENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CACACTGAGTTTCCCCTGCCC	0.567													69	103					0	0	0.01441	0	0		G	47296188	G	G	47296188	3	3	192	1	0	0	0	0	1	0	0	0	9170	1841	64	5	143	5	MADD	11	47296188	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	107807	47296188	87710328	60	96630											
FNBP4	23360	broad.mit.edu	37	chr11	47765704	47765704	+	Silent	SNP	T	G	G	0	1	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	ccatctccttcctccaaggcTcgcaactctgcctacaaaga	10	9	5	17	1	2	1	0	0	2	1	6	1	4	1	5	1	3	2	5	1	4	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:47765704T>G	uc009ylv.2	-	8	1410	c.1257A>C	c.(1255-1257)CGA>CGC	p.R419R	FNBP4_uc001ngj.2_Silent_p.R326R|FNBP4_uc001ngl.2_RNA	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	419										ovary(1)	1						CCTCCAAGGCTCGCAACTCTG	0.388													39	4					0	0	0.013114	0	0		G	47765704	G	G	47765704	2	3	192	1	0	0	0	0	0	0	0	1	5981	1538	54	5		5	FNBP4	11	47765704	Silent	SNP	T	TCGA-F1-6875-01A-11D-2053-08	469516	47765704	87240812	61	96631											
SYVN1	84447	broad.mit.edu	37	chr11	64897313	64897313	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggtgctgccgctcatGgccctccagagctcgtagct	5	9	11	16	2	1	1	1	0	0	1	4	1	3	1	4	2	4	5	4	2	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:64897313G>T	uc001odb.2	-	14	1577	c.1483C>A	c.(1483-1485)CAT>AAT	p.H495N	SYVN1_uc001odc.2_Missense_Mutation_p.H494N|SYVN1_uc009yqc.2_Missense_Mutation_p.H443N	NM_172230	NP_757385	Q86TM6	SYVN1_HUMAN	synoviolin 1 isoform b	495	Cytoplasmic (Potential).				ER-associated protein catabolic process|response to stress	endoplasmic reticulum membrane|integral to membrane|nucleus	acid-amino acid ligase activity|protein binding|zinc ion binding			ovary(1)	1						TGCCGCTCATGGCCCTCCAGA	0.652													32	30					1.36161e-19	1.49177e-19	0.019004	1	0		T	64897313	T	T	64897313	3	4	192	1	0	0	0	0	1	0	0	0	15512	1348	47	5	382	5	SYVN1	11	64897313	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	17131609	64897313	70109203	62	96632											
SUV420H1	51111	broad.mit.edu	37	chr11	67926049	67926049	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtctcatgagccagttcTtcctcctgcagcacaggagc	8	9	10	14	0	2	1	1	1	2	0	5	2	4	2	3	1	4	4	3	1	0	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:67926049T>C	uc001onm.1	-	11	2020	c.1764A>G	c.(1762-1764)GAA>GAG	p.E588E	SUV420H1_uc009yse.1_Silent_p.E174E|SUV420H1_uc001onn.1_Silent_p.E416E|SUV420H1_uc009ysf.2_Silent_p.E348E	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	588					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GAGCCAGTTCTTCCTCCTGCA	0.488													14	93					0	0	0.016723	0	0		C	67926049	C	C	67926049	2	2	192	1	0	0	0	0	0	0	0	1	15439	1606	56	3		3	SUV420H1	11	67926049	Silent	SNP	T	TCGA-F1-6875-01A-11D-2053-08	3028736	67926049	67080467	63	96633											
FAT3	120114	broad.mit.edu	37	chr11	92577863	92577863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcatcagctttgtgtgtcCgcgtttctacaggaacgtgc	6	13	11	11	4	2	0	1	0	1	0	4	1	3	1	1	1	4	3	1	1	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:92577863C>T	uc001pdj.3	+	18	11347	c.11330C>T	c.(11329-11331)CCG>CTG	p.P3777L	FAT3_uc001pdi.3_Missense_Mutation_p.P217L	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3777	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTTGTGTGTCCGCGTTTCTAC	0.517										TCGA Ovarian(4;0.039)			5	10					0	0	0.001168	0	0		T	92577863	T	T	92577863	3	4	192	1	0	0	0	0	1	0	0	0	5705	652	23	1	11400	1	FAT3	11	92577863	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	24651814	92577863	42428653	64	96634											
NCAM1	4684	broad.mit.edu	37	chr11	113076803	113076803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaactacctgcagatcCggggcatcaagaaaacagat	16	5	8	12	1	1	3	1	0	0	3	2	3	2	3	3	2	5	2	3	2	6	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:113076803C>T	uc009yyq.1	+	5	869	c.175C>T	c.(175-177)CGG>TGG	p.R59W	NCAM1_uc001pno.2_Missense_Mutation_p.R59W	NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	177	Ig-like C2-type 2.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		CCTGCAGATCCGGGGCATCAA	0.507													89	112					0	0	0.01441	0	0		T	113076803	T	T	113076803	3	4	192	1	0	0	0	0	1	0	0	0	10221	643	23	1	548	1	NCAM1	11	113076803	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	20498940	113076803	21929713	65	96635											
CCDC84	338657	broad.mit.edu	37	chr11	118886110	118886110	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcaggctggctgccctcttTtggccgcgtctggaataatg	5	12	13	11	2	2	0	0	0	2	0	2	1	2	1	2	4	2	3	2	4	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:118886110T>C	uc001pul.2	+	10	955	c.899T>C	c.(898-900)TTT>TCT	p.F300S	CCDC84_uc010ryk.1_RNA|CCDC84_uc010ryl.1_RNA|CCDC84_uc010rym.1_RNA	NM_198489	NP_940891	Q86UT8	CCD84_HUMAN	coiled-coil domain containing 84	300										ovary(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_neural(223;0.224)|all_hematologic(192;0.243)		BRCA - Breast invasive adenocarcinoma(274;7.72e-05)		CTGCCCTCTTTTGGCCGCGTC	0.542													8	34					0	0	0.010729	0	0		C	118886110	C	C	118886110	3	2	192	1	0	0	0	0	1	0	0	0	2861	1841	64	3	937	3	CCDC84	11	118886110	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	5809307	118886110	16120406	66	96636											
NTM	50863	broad.mit.edu	37	chr11	131781508	131781508	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaaagctatggacaacGtgacggtccggcagggggag	10	5	15	11	3	0	1	0	1	0	0	2	3	2	3	3	5	2	2	3	5	3	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:131781508G>C	uc001qgp.2	+	1	797	c.133G>C	c.(133-135)GTG>CTG	p.V45L	NTM_uc001qgm.2_Missense_Mutation_p.V45L|NTM_uc010sch.1_Missense_Mutation_p.V36L|NTM_uc010sci.1_Missense_Mutation_p.V45L|NTM_uc010scj.1_Missense_Mutation_p.V4L|NTM_uc001qgo.2_Missense_Mutation_p.V45L|NTM_uc001qgq.2_Missense_Mutation_p.V45L	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	45	Ig-like C2-type 1.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						TATGGACAACGTGACGGTCCG	0.617											OREG0021537	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	58	92					0	0	0.01441	0	0		C	131781508	C	C	131781508	3	2	192	1	0	0	0	0	1	0	0	0	10718	1145	40	5	221	5	NTM	11	131781508	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	12895398	131781508	3225008	67	96637											
GLB1L2	89944	broad.mit.edu	37	chr11	134238552	134238552	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagaggttttgaaaaccGtgtctgccattgtggacgcc	8	10	13	10	3	1	2	0	1	1	1	1	3	1	3	3	3	2	2	3	3	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr11:134238552G>A	uc001qhp.2	+	10	1092	c.904G>A	c.(904-906)GTG>ATG	p.V302M	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	302					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		TTTGAAAACCGTGTCTGCCAT	0.532													58	65					0	0	0.01441	0	0		A	134238552	A	A	134238552	3	1	192	1	0	0	0	0	1	0	0	0	6444	1145	40	1	942	1	GLB1L2	11	134238552	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	2457044	134238552	767964	68	96638											
A2ML1	144568	broad.mit.edu	37	chr12	9001452	9001452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaagggcattcgagccagcGttccattatctggaggccct	8	9	11	13	2	1	0	0	0	1	0	3	2	2	1	4	3	2	2	4	3	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr12:9001452G>A	uc001quz.3	+	16	2068	c.1970G>A	c.(1969-1971)CGT>CAT	p.R657H	A2ML1_uc001qva.1_Missense_Mutation_p.R237H|A2ML1_uc010sgm.1_Missense_Mutation_p.R157H	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	501						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TCGAGCCAGCGTTCCATTATC	0.522													73	16					0	0	0.01441	0	0		A	9001452	A	A	9001452	3	1	192	1	0	0	0	0	1	0	0	0	5	1145	40	1	2032	1	A2ML1	12	9001452	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		9001452	124850443	69	96639											
HOXC12	3228	broad.mit.edu	37	chr12	54348852	54348852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgctgtcctacccacgcCgcgacaacgtgtgctccctg	5	9	9	18	5	0	0	0	0	0	0	3	1	2	0	4	0	3	2	4	0	2	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr12:54348852C>T	uc010soq.1	+	1	139	c.139C>T	c.(139-141)CGC>TGC	p.R47C		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	47					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						CTACCCACGCCGCGACAACGT	0.672													6	1					0	0	0.001168	0	0		T	54348852	T	T	54348852	3	4	192	1	0	0	0	0	1	0	0	0	7327	652	23	1	141	1	HOXC12	12	54348852	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	45347400	54348852	79503043	70	96640											
MYF6	4618	broad.mit.edu	37	chr12	81101573	81101573	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgttactctgcagccattAgaagtggcagaaggctctcc	11	10	10	10	0	2	2	0	0	2	2	3	2	2	2	2	2	3	4	2	2	5	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr12:81101573A>G	uc001szf.1	+	1	128	c.75A>G	c.(73-75)TTA>TTG	p.L25L		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	25					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						TGCAGCCATTAGAAGTGGCAG	0.532													45	6					0	0	0.01441	0	0		G	81101573	G	G	81101573	2	3	192	1	0	0	0	0	0	0	0	1	10046	417	15	3		3	MYF6	12	81101573	Silent	SNP	A	TCGA-F1-6875-01A-11D-2053-08	26752721	81101573	52750322	71	96641											
CHST11	50515	broad.mit.edu	37	chr12	105150997	105150997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgaggcacacgtctccGccaacctgaagaccctgaac	12	4	8	17	3	1	3	0	2	1	1	2	4	1	3	5	1	3	1	5	1	4	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr12:105150997G>A	uc001tkx.1	+	4	766	c.475G>A	c.(475-477)GCC>ACC	p.A159T	CHST11_uc001tky.2_Missense_Mutation_p.A154T|uc001tkz.2_5'Flank	NM_018413	NP_060883	Q9NPF2	CHSTB_HUMAN	carbohydrate sulfotransferase 11	159	Lumenal (Potential).				chondroitin sulfate biosynthetic process	Golgi membrane|integral to membrane	chondroitin 4-sulfotransferase activity|N-acetylgalactosamine 4-O-sulfotransferase activity				0						ACACGTCTCCGCCAACCTGAA	0.592													26	6					0	0	0.009535	0	0		A	105150997	A	A	105150997	3	1	192	1	0	0	0	0	1	0	0	0	3402	1087	38	1	485	1	CHST11	12	105150997	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	24049424	105150997	28700898	72	96642											
CLIP1	6249	broad.mit.edu	37	chr12	122757592	122757592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtcgtggagatcaaagcagtCacaaatgtcacagaagaggc	15	6	12	8	1	3	3	3	0	0	3	4	4	3	3	0	2	1	1	0	2	3	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr12:122757592C>T	uc001ucg.1	-	25	4253	c.4147G>A	c.(4147-4149)GAC>AAC	p.D1383N	CLIP1_uc001uch.1_Missense_Mutation_p.D1372N|CLIP1_uc001uci.1_Missense_Mutation_p.D1337N|CLIP1_uc001ucf.1_Missense_Mutation_p.D42N	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1383					mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		TCAAAGCAGTCACAAATGTCA	0.468													23	29					0	0	0.004656	0	0		T	122757592	T	T	122757592	3	4	192	1	0	0	0	0	1	0	0	0	3535	826	29	4	173	4	CLIP1	12	122757592	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	17606595	122757592	11094303	73	96643											
MAB21L1	4081	broad.mit.edu	37	chr13	36049251	36049251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctcttgccagtcgccacGtttgtttggcagcgttttcc	3	16	9	13	3	2	0	0	0	2	0	5	0	3	0	3	1	2	4	3	1	0	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr13:36049251G>A	uc001uvc.2	-	1	1582	c.1025C>T	c.(1024-1026)ACG>ATG	p.T342M	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	342					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		CAGTCGCCACGTTTGTTTGGC	0.473													4	127					0	0	0.001168	0	0		A	36049251	A	A	36049251	3	1	192	1	0	0	0	0	1	0	0	0	9159	1145	40	1	58	1	MAB21L1	13	36049251	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		36049251	79120627	74	96644											
ATP11A	23250	broad.mit.edu	37	chr13	113526064	113526064	+	Missense_Mutation	SNP	A	G	G	1	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	aacagatatttggaaactggAcgtttggaacgctggtattc	12	12	11	6	2	0	1	0	0	0	1	1	4	0	4	0	4	3	3	0	4	5	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr13:113526064A>G	uc001vsi.3	+	26	3095	c.3007A>G	c.(3007-3009)ACG>GCG	p.T1003A	ATP11A_uc001vsj.3_Missense_Mutation_p.T1003A|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	1003	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			large_intestine(2)|ovary(2)	4	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.134)|all_epithelial(44;0.141)				TGGAAACTGGACGTTTGGAAC	0.428													6	176					0	0	0.004482	0	0		G	113526064	G	G	113526064	3	3	192	1	0	0	0	0	1	0	0	0	1120	275	10	3	3109	3	ATP11A	13	113526064	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08	77476813	113526064	1643814	75	96645											
OR4N2	390429	broad.mit.edu	37	chr14	20296316	20296316	+	Missense_Mutation	SNP	A	T	T	1	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	ctgaggcaaaaaacaaggccAtgtccacgtgcatcacccat	14	6	8	13	1	1	1	1	1	0	0	2	1	2	1	3	2	2	2	3	2	4	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr14:20296316A>T	uc010tkv.1	+	1	709	c.709A>T	c.(709-711)ATG>TTG	p.M237L		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	237	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AAACAAGGCCATGTCCACGTG	0.502													22	141					0	0	0.01892	0	0		T	20296316	T	T	20296316	3	4	192	1	0	0	0	0	1	0	0	0	11096	217	8	5	711	5	OR4N2	14	20296316	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08		20296316	87053224	76	96646											
OR4K13	390433	broad.mit.edu	37	chr14	20502652	20502652	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaccatgagatggtcttaCgttctcggaggaaatctaca	11	10	9	11	2	3	1	0	1	3	1	4	4	3	3	2	3	2	1	2	3	3	3	rs138902767		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr14:20502652C>A	uc010tkz.1	-	1	266	c.266G>T	c.(265-267)CGT>CTT	p.R89L		NM_001004714	NP_001004714	Q8NH42	OR4KD_HUMAN	olfactory receptor, family 4, subfamily K,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2.9e-06)	GBM - Glioblastoma multiforme(265;0.0064)		GATGGTCTTACGTTCTCGGAG	0.458													10	24					1.08611e-07	1.13168e-07	0.010729	1	0		A	20502652	A	A	20502652	3	1	192	1	0	0	0	0	1	0	0	0	11087	536	19	5	650	5	OR4K13	14	20502652	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	206336	20502652	86846888	77	96647											
NIN	51199	broad.mit.edu	37	chr14	51243828	51243828	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccactctgtgaagcattcaAgtcatctgggttccaaaacc	11	11	7	12	0	4	1	2	1	2	0	6	1	6	1	3	1	2	2	3	1	4	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr14:51243828A>C	uc001wym.2	-	7	696	c.505T>G	c.(505-507)TTG>GTG	p.L169V	NIN_uc001wyi.2_Missense_Mutation_p.L169V|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Missense_Mutation_p.L169V|NIN_uc010tqp.1_Missense_Mutation_p.L175V|NIN_uc001wyo.2_Missense_Mutation_p.L169V|NIN_uc001wyp.1_Missense_Mutation_p.L131V	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	169					centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					GAAGCATTCAAGTCATCTGGG	0.448			T	PDGFRB	MPD								28	43					0	0	0.019004	0	0		C	51243828	C	C	51243828	3	2	192	1	0	0	0	0	1	0	0	0	10436	69	3	5	6144	5	NIN	14	51243828	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08	30741176	51243828	56105712	78	96648											
C14orf37	145407	broad.mit.edu	37	chr14	58605379	58605379	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagcaccaggaaaagaagttGtcctgtggtctgtgtctgct	9	11	12	9	0	2	1	0	0	2	1	3	2	3	2	2	2	2	3	2	2	3	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr14:58605379G>A	uc001xdc.2	-	2	809	c.698C>T	c.(697-699)ACA>ATA	p.T233I	C14orf37_uc010tro.1_Missense_Mutation_p.T271I|C14orf37_uc001xdd.2_Missense_Mutation_p.T233I|C14orf37_uc001xde.2_Missense_Mutation_p.T233I	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	233	Extracellular (Potential).					integral to membrane	binding				0						AAAAGAAGTTGTCCTGTGGTC	0.483													29	35					0	0	0.012213	0	0		A	58605379	A	A	58605379	3	1	192	1	0	0	0	0	1	0	0	0	1774	1377	48	4	1654	4	C14orf37	14	58605379	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	7361551	58605379	48744161	79	96649											
PLEKHG3	26030	broad.mit.edu	37	chr14	65207762	65207762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctatgtttcaggttgagccGgaccctgaggctgggagtga	7	10	16	8	1	1	3	1	3	0	0	1	5	1	5	2	4	1	4	2	4	1	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr14:65207762G>A	uc001xho.1	+	16	1796	c.1527G>A	c.(1525-1527)CCG>CCA	p.P509P	PLEKHG3_uc001xhn.1_Silent_p.P453P|PLEKHG3_uc001xhp.2_Silent_p.P630P|PLEKHG3_uc010aqh.1_Silent_p.P51P|PLEKHG3_uc001xhq.1_Silent_p.P14P	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	509					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		AGGTTGAGCCGGACCCTGAGG	0.552													9	17					0	0	0.008291	0	0		A	65207762	A	A	65207762	2	1	192	1	0	0	0	0	0	0	0	1	12089	1103	39	1		1	PLEKHG3	14	65207762	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	6602383	65207762	42141778	80	96650											
GALNTL1	57452	broad.mit.edu	37	chr14	69805397	69805397	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagggtgtggatgtgtggtGgcagtctggagatcgtcccc	5	11	17	8	1	2	1	1	0	1	1	4	3	3	2	2	5	0	1	2	5	0	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr14:69805397G>T	uc010aqu.1	+	10	1090	c.997G>T	c.(997-999)GGC>TGC	p.G333C	GALNTL1_uc001xla.1_Missense_Mutation_p.G333C|GALNTL1_uc001xlb.1_Missense_Mutation_p.G333C	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	333	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		GATGTGTGGTGGCAGTCTGGA	0.587													22	61					1.39806e-14	1.50949e-14	0.008361	1	0		T	69805397	T	T	69805397	3	4	192	1	0	0	0	0	1	0	0	0	6236	1348	47	5	1035	5	GALNTL1	14	69805397	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	4597635	69805397	37544143	81	96651											
APBA2	321	broad.mit.edu	37	chr15	29346255	29346255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgcggccagagagcccCgcgccagaggaacaggagtg	9	2	16	14	3	0	2	0	0	0	2	0	5	0	4	5	3	3	0	5	3	1	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr15:29346255C>T	uc001zck.2	+	3	375	c.168C>T	c.(166-168)CCC>CCT	p.P56P	APBA2_uc010azj.2_Silent_p.P56P|APBA2_uc010uat.1_Silent_p.P56P|APBA2_uc001zcl.2_Silent_p.P56P|APBA2_uc010uas.1_Silent_p.P56P	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	56					nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		CAGAGAGCCCCGCGCCAGAGG	0.657													43	5					0	0	0.010771	0	0		T	29346255	T	T	29346255	2	4	192	1	0	0	0	0	0	0	0	1	757	639	23	1		1	APBA2	15	29346255	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08		29346255	73185137	82	96652											
DMXL2	23312	broad.mit.edu	37	chr15	51749571	51749571	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagtgcccagccatggcagaGatgaaggtggatgcacctga	11	6	14	10	0	0	3	0	2	0	1	0	5	0	4	3	3	3	2	3	3	1	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr15:51749571G>C	uc002abf.2	-	36	8450	c.8225C>G	c.(8224-8226)TCT>TGT	p.S2742C	DMXL2_uc002abd.2_Missense_Mutation_p.S834C|DMXL2_uc010ufy.1_Missense_Mutation_p.S2743C|DMXL2_uc010bfa.2_Missense_Mutation_p.S2106C	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2742						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		CCATGGCAGAGATGAAGGTGG	0.428													59	109					0	0	0.01441	0	0		C	51749571	C	C	51749571	3	2	192	1	0	0	0	0	1	0	0	0	4601	942	33	5	917	5	DMXL2	15	51749571	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	22403316	51749571	50781821	83	96653											
BBS4	585	broad.mit.edu	37	chr15	73029293	73029293	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcagcagctgcatacaggaCgctcccctcaggtaggacca	10	7	10	14	1	2	0	2	0	0	0	3	2	3	2	3	3	4	5	3	3	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr15:73029293C>T	uc002avb.2	+	15	1482	c.1439C>T	c.(1438-1440)ACG>ATG	p.T480M	BBS4_uc010ukv.1_Missense_Mutation_p.T468M|BBS4_uc002avc.2_Missense_Mutation_p.T308M|BBS4_uc002avd.2_Missense_Mutation_p.T488M	NM_033028	NP_149017	Q96RK4	BBS4_HUMAN	Bardet-Biedl syndrome 4	480	Required for localization to centrosomes.				adult behavior|brain morphogenesis|cell cycle cytokinesis|centrosome organization|cerebral cortex development|convergent extension involved in gastrulation|dendrite development|fat cell differentiation|heart looping|hippocampus development|intracellular transport|maintenance of protein location in nucleus|melanosome transport|microtubule anchoring at centrosome|neural tube closure|nonmotile primary cilium assembly|photoreceptor cell maintenance|pigment granule aggregation in cell center|positive regulation of flagellum assembly|regulation of cilium beat frequency involved in ciliary motility|regulation of cytokinesis|regulation of lipid metabolic process|retina homeostasis|retinal rod cell development|sensory perception of smell|sensory processing|spermatid development|striatum development	BBSome|centriolar satellite|centriole|cilium membrane|microtubule basal body|motile cilium|nonmotile primary cilium|nucleus|pericentriolar material	alpha-tubulin binding|beta-tubulin binding|dynactin binding|microtubule motor activity				0						GCATACAGGACGCTCCCCTCA	0.522									Bardet-Biedl_syndrome				101	161					0	0	0.01441	0	0		T	73029293	T	T	73029293	3	4	192	1	0	0	0	0	1	0	0	0	1340	536	19	1	1497	1	BBS4	15	73029293	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	21279722	73029293	29502099	84	96654											
ACAN	176	broad.mit.edu	37	chr15	89391173	89391173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagcccccggaccccatgcGtgggtgacaaggacagcagc	9	4	14	14	2	0	2	0	2	0	0	0	4	0	4	4	3	4	1	4	3	1	0	rs62640041		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr15:89391173G>A	uc010upo.1	+	9	2010	c.1636G>A	c.(1636-1638)GTG>ATG	p.V546M	ACAN_uc002bmx.2_Missense_Mutation_p.V546M|ACAN_uc010upp.1_Missense_Mutation_p.V546M|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	546					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GACCCCATGCGTGGGTGACAA	0.592													62	34					0	0	0.01441	0	0		A	89391173	A	A	89391173	3	1	192	1	0	0	0	0	1	0	0	0	117	1145	40	1	1666	1	ACAN	15	89391173	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	16361880	89391173	13140219	85	96655											
ACSM2B	348158	broad.mit.edu	37	chr16	20554485	20554485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaatgatatcatctgcccGtcccataaactggaaatacc	13	11	6	11	1	2	1	1	1	1	0	3	2	3	2	3	1	3	1	3	1	6	4	rs143500332		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr16:20554485G>A	uc002dhj.3	-	12	1591	c.1381C>T	c.(1381-1383)CGG>TGG	p.R461W	ACSM2B_uc002dhk.3_Missense_Mutation_p.R461W|ACSM2B_uc010bwf.1_Missense_Mutation_p.R461W	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	461		ATP (By similarity).			fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						TCATCTGCCCGTCCCATAAAC	0.502													136	237					0	0	0.01441	0	0		A	20554485	A	A	20554485	3	1	192	1	0	0	0	0	1	0	0	0	184	1144	40	1	368	1	ACSM2B	16	20554485	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08		20554485	69800268	86	96656											
IL21R	50615	broad.mit.edu	37	chr16	27460309	27460309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagccctgggctaggagggcCcctgggaagcctcctggaca	7	5	15	14	0	0	0	0	0	0	0	1	3	1	3	5	5	2	1	5	5	2	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr16:27460309C>T	uc002doq.1	+	9	1555	c.1322C>T	c.(1321-1323)CCC>CTC	p.P441L	IL21R_uc002dor.1_Missense_Mutation_p.P441L|IL21R_uc002dos.1_Missense_Mutation_p.P441L|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	441	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						CTAGGAGGGCCCCTGGGAAGC	0.667			T	BCL6	NHL								8	23					0	0	0.004482	0	0		T	27460309	T	T	27460309	3	4	192	1	0	0	0	0	1	0	0	0	7687	623	22	4	1352	4	IL21R	16	27460309	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	6905824	27460309	62894444	87	96657											
CES7	221223	broad.mit.edu	37	chr16	55880585	55880585	+	Silent	SNP	A	G	G	1	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	cacagagacaggtcgttcccAttaggattcctagaagggag	12	8	12	9	1	0	2	0	0	0	2	3	5	2	4	2	3	0	1	2	3	3	4			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr16:55880585A>G	uc002eip.2	-	13	1655	c.1506T>C	c.(1504-1506)AAT>AAC	p.N502N	CES7_uc002eio.2_Silent_p.N452N|CES7_uc002eiq.2_Silent_p.N263N|CES7_uc002eir.2_Silent_p.N396N	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	502						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		GGTCGTTCCCATTAGGATTCC	0.547													8	158					0	0	0.00308	0	0		G	55880585	G	G	55880585	2	3	192	1	0	0	0	0	0	0	0	1	3275	214	8	3		3	CES7	16	55880585	Silent	SNP	A	TCGA-F1-6875-01A-11D-2053-08	28420276	55880585	34474168	88	96658											
GOT2	2806	broad.mit.edu	37	chr16	58752443	58752443	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacttactgaaatatcctcCacagcgcctgtgaagtcaaa	14	9	6	12	1	1	2	1	2	0	0	3	2	3	2	3	0	2	0	3	0	5	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr16:58752443C>T	uc002eof.1	-	5	699	c.585G>A	c.(583-585)GTG>GTA	p.V195V	GOT2_uc010vim.1_Silent_p.V152V	NM_002080	NP_002071	P00505	AATM_HUMAN	aspartate aminotransferase 2 precursor	195					aspartate catabolic process|fatty acid transport|gluconeogenesis|response to ethanol	mitochondrial matrix|plasma membrane	L-aspartate:2-oxoglutarate aminotransferase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AAATATCCTCCACAGCGCCTG	0.488													33	52					0	0	0.00874	0	0		T	58752443	T	T	58752443	2	4	192	1	0	0	0	0	0	0	0	1	6596	581	21	4		4	GOT2	16	58752443	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	2871858	58752443	31602310	89	96659											
CDH8	1006	broad.mit.edu	37	chr16	61823293	61823293	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgttgtgccatacacttaaTtctctgtcaagtggtgttgc	8	16	9	8	0	2	0	1	0	1	0	3	0	2	0	1	1	3	2	1	1	3	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr16:61823293T>C	uc002eog.1	-	8	1623	c.1371A>G	c.(1369-1371)GAA>GAG	p.E457E	CDH8_uc002eoh.2_Silent_p.E226E	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	457	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		ATACACTTAATTCTCTGTCAA	0.413													28	50					0	0	0.010818	0	0		C	61823293	C	C	61823293	2	2	192	1	0	0	0	0	0	0	0	1	3119	1490	52	3		3	CDH8	16	61823293	Silent	SNP	T	TCGA-F1-6875-01A-11D-2053-08	3070850	61823293	28531460	90	96660											
PITPNM3	83394	broad.mit.edu	37	chr17	6368010	6368010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccaccatgtcgaggggccCgtacatgaaccgccccacca	10	4	10	17	3	0	1	0	1	0	0	1	2	0	1	7	2	3	1	7	2	2	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr17:6368010C>T	uc002gdd.3	-	15	2123	c.1972G>A	c.(1972-1974)GGG>AGG	p.G658R	PITPNM3_uc010cln.2_Missense_Mutation_p.G622R|PITPNM3_uc010clm.2_Missense_Mutation_p.G141R|PITPNM3_uc002gdc.3_Missense_Mutation_p.G249R	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	658					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		TCGAGGGGCCCGTACATGAAC	0.607													26	1					0	0	0.005443	0	0		T	6368010	T	T	6368010	3	4	192	1	0	0	0	0	1	0	0	0	11971	652	23	1	976	1	PITPNM3	17	6368010	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08		6368010	74827200	91	96661											
TP53	7157	broad.mit.edu	37	chr17	7577497	7577497	+	Splice_Site	SNP	A	C	C	1	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	agggtggcaagtggctcctgAcctggagtcttccagtgtga	7	10	15	9	0	1	2	0	2	1	0	3	3	3	3	3	4	0	2	3	4	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr17:7577497A>C	uc002gim.2	-	7	976	c.782_splice	c.e7+1	p.S261_splice	TP53_uc002gig.1_Splice_Site_p.R261_splice|TP53_uc002gih.2_Splice_Site_p.S261_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Splice_Site_p.S129_splice|TP53_uc010cng.1_Splice_Site_p.S129_splice|TP53_uc002gii.1_Splice_Site_p.S129_splice|TP53_uc010cnh.1_Splice_Site_p.S261_splice|TP53_uc010cni.1_Splice_Site_p.S261_splice|TP53_uc002gij.2_Splice_Site_p.S261_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.?(3)|p.E258fs*71(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTGGCTCCTGACCTGGAGTCT	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			27	7					0	0	0.012213	0	0		C	7577497	C	C	7577497	5	2	192	1	0	0	0	0	0	0	1	0	16407	289	10	5	506	5	TP53	17	7577497	Splice_Site	SNP	A	TCGA-F1-6875-01A-11D-2053-08	1209487	7577497	73617713	92	96662											
FOXN1	8456	broad.mit.edu	37	chr17	26851007	26851007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggtgtcgctacccccgcCgcagtctgacgtcacgctgc	5	8	12	16	5	2	1	1	1	1	0	3	2	2	1	3	1	2	3	3	1	1	1	rs148865374	byFrequency	TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr17:26851007C>T	uc010crm.2	+	2	218	c.20C>T	c.(19-21)CCG>CTG	p.P7L	FOXN1_uc002hbj.2_Missense_Mutation_p.P7L	NM_003593	NP_003584	O15353	FOXN1_HUMAN	forkhead box N1	7					defense response|embryo development|epithelial cell proliferation|keratinocyte differentiation|organ morphogenesis|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter|thymus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	Lung NSC(42;0.00431)					CTACCCCCGCCGCAGTCTGAC	0.677													11	38					0	0	0.016723	0	0		T	26851007	T	T	26851007	3	4	192	1	0	0	0	0	1	0	0	0	6033	652	23	1	22	1	FOXN1	17	26851007	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	19273510	26851007	54344203	93	96663											
KRTAP4-11	653240	broad.mit.edu	37	chr17	39274132	39274132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggattcacagcaagaggggcGgcagcagctggagatgctgc	10	5	17	9	1	1	2	1	0	0	2	1	4	1	3	0	5	5	5	0	5	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr17:39274132G>A	uc002hvz.2	-	1	475	c.436C>T	c.(436-438)CGC>TGC	p.R146C		NM_033059	NP_149048	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	146	27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].|24.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			caagaggggcggcagcagctg	0.179													5	48					0	0	0.001984	0	0		A	39274132	A	A	39274132	3	1	192	1	0	0	0	0	1	0	0	0	8565	1116	39	1	155	1	KRTAP4-11	17	39274132	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	12423125	39274132	41921078	94	96664											
AARSD1	80755	broad.mit.edu	37	chr17	41108328	41108328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgatcatcaggcaaaccccGgccactcacctggactcaag	12	6	8	15	1	4	1	4	1	0	0	4	2	4	2	4	3	1	1	4	3	2	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr17:41108328G>A	uc002icc.2	-	6	559	c.556C>T	c.(556-558)CGG>TGG	p.R186W	AARSD1_uc002icd.2_Missense_Mutation_p.R299W|AARSD1_uc002ice.2_Missense_Mutation_p.R269W|AARSD1_uc002icf.2_Missense_Mutation_p.R360W|AARSD1_uc010whg.1_Missense_Mutation_p.R360W|AARSD1_uc010cyu.1_Missense_Mutation_p.R186W	NM_025267	NP_079543	Q9BTE6	AASD1_HUMAN	alanyl-tRNA synthetase domain containing 1	186					alanyl-tRNA aminoacylation	cytoplasm	alanine-tRNA ligase activity|ATP binding|metal ion binding|nucleic acid binding				0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		GGCAAACCCCGGCCACTCACC	0.542													17	93					0	0	0.016522	0	0		A	41108328	A	A	41108328	3	1	192	1	0	0	0	0	1	0	0	0	21	1115	39	1	710	1	AARSD1	17	41108328	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	1834196	41108328	40086882	95	96665											
QRICH2	84074	broad.mit.edu	37	chr17	74288595	74288595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacgaggttgtgccaaaccaCgctgatctactccaggttgg	9	9	11	12	2	1	1	0	1	1	0	2	2	2	1	3	3	3	3	3	3	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr17:74288595C>T	uc002jrd.1	-	4	1895	c.1715G>A	c.(1714-1716)CGT>CAT	p.R572H	QRICH2_uc010wsz.1_Missense_Mutation_p.R498H|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	572	Gln-rich.						protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						TGCCAAACCACGCTGATCTAC	0.527													40	108					0	0	0.006999	0	0		T	74288595	T	T	74288595	3	4	192	1	0	0	0	0	1	0	0	0	12905	536	19	1	3340	1	QRICH2	17	74288595	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	33180267	74288595	6906615	96	96666											
TMC6	11322	broad.mit.edu	37	chr17	76121030	76121030	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accccgccgctgcccggctgGcccctccacttccccctcgg	2	6	9	24	4	0	0	0	0	0	0	3	0	2	0	9	3	1	2	9	3	0	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr17:76121030G>C	uc002juj.1	-	6	699	c.573C>G	c.(571-573)GGC>GGG	p.G191G	TMC6_uc002jui.1_5'Flank|TMC6_uc010dhf.1_Silent_p.G24G|TMC6_uc002juk.2_Silent_p.G191G|TMC6_uc010dhg.1_Silent_p.G191G|TMC6_uc002jul.1_Silent_p.G191G|TMC6_uc002jum.3_Silent_p.G24G|TMC6_uc002jun.3_Silent_p.G191G|TMC6_uc002juo.2_Intron|TMC6_uc010wtp.1_Silent_p.G24G	NM_007267	NP_009198	Q7Z403	TMC6_HUMAN	transmembrane channel-like 6	191	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			TGCCCGGCTGGCCCCTCCACT	0.692									Epidermodysplasia_Verruciformis_Familial_Clustering_of				9	2					0	0	0.020292	0	0		C	76121030	C	C	76121030	2	2	192	1	0	0	0	0	0	0	0	1	16014	1190	42	5		5	TMC6	17	76121030	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08	1832435	76121030	5074180	97	96667											
DCC	1630	broad.mit.edu	37	chr18	50976874	50976874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtcttttcccagagccGccaattggacaaatgcaccc	9	10	7	15	1	1	1	0	0	1	1	3	2	3	2	5	1	2	1	5	1	2	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr18:50976874G>A	uc002lfe.1	+	23	3821	c.3234G>A	c.(3232-3234)CCG>CCA	p.P1078P	DCC_uc010dpf.1_Silent_p.P713P	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1078	Extracellular (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		TCCCAGAGCCGCCAATTGGAC	0.483													52	27					0	0	0.01441	0	0		A	50976874	A	A	50976874	2	1	192	1	0	0	0	0	0	0	0	1	4285	1074	38	1		1	DCC	18	50976874	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08		50976874	27100374	98	96668											
ZNF536	9745	broad.mit.edu	37	chr19	31040279	31040279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggcgggcctgccaaagccGgagcgggggccccagagcct	6	4	17	14	3	0	1	0	0	0	1	0	2	0	2	6	5	4	0	6	5	1	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr19:31040279G>A	uc002nsu.1	+	4	3891	c.3753G>A	c.(3751-3753)CCG>CCA	p.P1251P	ZNF536_uc010edd.1_Silent_p.P1251P	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1251					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TGCCAAAGCCGGAGCGGGGGC	0.607													12	8					0	0	0.013537	0	0		A	31040279	A	A	31040279	2	1	192	1	0	0	0	0	0	0	0	1	17999	1103	39	1		1	ZNF536	19	31040279	Silent	SNP	G	TCGA-F1-6875-01A-11D-2053-08		31040279	28088704	99	96669											
PPFIA3	8541	broad.mit.edu	37	chr19	49646220	49646220	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcctcgccatccaggagatgGtctcgctcacctcgccctca	6	8	9	18	3	3	1	2	0	1	1	7	2	4	1	5	2	0	1	5	2	0	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr19:49646220G>T	uc002pmr.2	+	21	3036	c.2704G>T	c.(2704-2706)GTC>TTC	p.V902F	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.V770F|PPFIA3_uc002pmt.2_Missense_Mutation_p.V50F	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	902	SAM 1.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		CCAGGAGATGGTCTCGCTCAC	0.652													8	156					5.18039e-06	5.36027e-06	0.00308	1	0		T	49646220	T	T	49646220	3	4	192	1	0	0	0	0	1	0	0	0	12330	1261	44	5	2782	5	PPFIA3	19	49646220	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	18605941	49646220	9482763	100	96670											
ZNF530	348327	broad.mit.edu	37	chr19	58118470	58118470	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgagtgcgatgaatgtgggaAatcctatagccaaagctctg	12	10	12	7	1	1	2	0	2	1	0	2	4	2	3	2	1	3	1	2	1	5	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr19:58118470A>C	uc002qpk.2	+	3	1797	c.1577A>C	c.(1576-1578)AAA>ACA	p.K526T	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	526	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GAATGTGGGAAATCCTATAGC	0.453													28	60					0	0	0.00632	0	0		C	58118470	C	C	58118470	3	2	192	1	0	0	0	0	1	0	0	0	17996	14	1	5	1587	5	ZNF530	19	58118470	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08	8472250	58118470	1010513	101	96671											
CCDC116	164592	broad.mit.edu	37	chr22	21991296	21991296	+	Silent	SNP	T	C	C	0	1	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	gataaagccgagattgaagaTgaagatgaggatgagttcaa	17	8	13	3	1	1	7	1	4	0	3	1	10	1	8	1	1	1	1	1	1	5	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr22:21991296T>C	uc002zve.2	+	5	1872	c.1779T>C	c.(1777-1779)GAT>GAC	p.D593D		NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	Error:Variant_position_missing_in_Q8IYX3_after_alignment										ovary(1)|skin(1)	2	Colorectal(54;0.105)					AGATTGAAGATGAAGATGagg	0.448													35	17					0	0	0.005524	0	0		C	21991296	C	C	21991296	2	2	192	1	0	0	0	0	0	0	0	1	2756	1461	51	3		3	CCDC116	22	21991296	Silent	SNP	T	TCGA-F1-6875-01A-11D-2053-08		21991296	29313270	102	96672											
IGLL1	3543	broad.mit.edu	37	chr22	23917253	23917253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggggccagtccaggagcCgcgctggagcaggaacctgc	7	4	16	14	2	0	0	0	0	0	0	1	3	1	3	5	5	4	2	5	5	1	0			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr22:23917253C>T	uc002zxd.2	-	2	341	c.223G>A	c.(223-225)GGC>AGC	p.G75S	IGLL1_uc002zxe.2_Intron	NM_020070	NP_064455	P15814	IGLL1_HUMAN	immunoglobulin lambda-like polypeptide 1 isoform	75					immune response	extracellular region|membrane					0						GTCCAGGAGCCGCGCTGGAGC	0.632													41	33					0	0	0.01441	0	0		T	23917253	T	T	23917253	3	4	192	1	0	0	0	0	1	0	0	0	7609	652	23	1	426	1	IGLL1	22	23917253	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	1925957	23917253	27387313	103	96673											
SGSM1	129049	broad.mit.edu	37	chr22	25264737	25264737	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaagccctcagggttctgcCgagtccacatcttcagacaa	10	8	9	14	2	4	1	2	0	2	1	5	3	5	1	3	1	2	1	3	1	2	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr22:25264737C>G	uc003abg.2	+	12	1363	c.1206C>G	c.(1204-1206)GCC>GCG	p.A402A	SGSM1_uc003abh.2_Silent_p.A402A|SGSM1_uc010guu.1_Silent_p.A402A|SGSM1_uc003abj.2_Silent_p.A402A|SGSM1_uc003abi.1_Silent_p.A377A	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	402						Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						AGGGTTCTGCCGAGTCCACAT	0.517													39	108					0	0	0.007835	0	0		G	25264737	G	G	25264737	2	3	192	1	0	0	0	0	0	0	0	1	14247	639	23	5		5	SGSM1	22	25264737	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	1347484	25264737	26039829	104	96674											
MYO18B	84700	broad.mit.edu	37	chr22	26173746	26173746	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtgtggatggcagggtctCaggtatggtggtctctaggt	6	12	17	6	0	2	0	1	0	2	0	4	1	2	1	0	7	0	2	0	7	2	2			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chr22:26173746C>A	uc003abz.1	+	8	2316	c.2066C>A	c.(2065-2067)TCA>TAA	p.S689*	MYO18B_uc003aca.1_Nonsense_Mutation_p.S570*|MYO18B_uc010guy.1_Nonsense_Mutation_p.S570*|MYO18B_uc010guz.1_Nonsense_Mutation_p.S570*|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_Nonsense_Mutation_p.S202*	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	689	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GGCAGGGTCTCAGGTATGGTG	0.542													76	46					3.60193e-44	3.97546e-44	0.01441	1	0		A	26173746	A	A	26173746	4	1	192	1	0	0	0	0	0	1	0	0	10084	838	29	5	2092	5	MYO18B	22	26173746	Nonsense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	909009	26173746	25130820	105	96675											
ACOT9	23597	broad.mit.edu	37	chrX	23724827	23724827	+	Missense_Mutation	SNP	A	T	T	1	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	cattttcagtaacgacgtggAgctgaaggcaattcttctcc	10	12	9	10	2	3	1	1	1	2	0	4	3	3	2	1	2	2	3	1	2	3	5			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chrX:23724827A>T	uc004dap.2	-	10	879	c.733T>A	c.(733-735)TCC>ACC	p.S245T	ACOT9_uc004dan.2_5'UTR|ACOT9_uc004dao.2_Missense_Mutation_p.S254T|ACOT9_uc004daq.2_Missense_Mutation_p.S203T|ACOT9_uc004dar.2_Missense_Mutation_p.S185T|ACOT9_uc011mjt.1_RNA|ACOT9_uc004das.2_Missense_Mutation_p.S185T	NM_001033583	NP_001028755	Q9Y305	ACOT9_HUMAN	acyl-Coenzyme A thioesterase 2, mitochondrial	245					acyl-CoA metabolic process	mitochondrion	acetyl-CoA hydrolase activity|carboxylesterase activity			ovary(2)|pancreas(1)	3						AACGACGTGGAGCTGAAGGCA	0.507													48	5					0	0	0.01441	0	0		T	23724827	T	T	23724827	3	4	192	1	0	0	0	0	1	0	0	0	157	304	11	5	610	5	ACOT9	23	23724827	Missense_Mutation	SNP	A	TCGA-F1-6875-01A-11D-2053-08		23724827	131545733	106	96676											
MAGEB6	158809	broad.mit.edu	37	chrX	26212897	26212897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggaggtctgggagttcctgGgtctgttggggatatatgat	7	13	17	4	0	2	1	0	1	2	0	3	4	3	4	1	6	0	2	1	6	2	4			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chrX:26212897G>A	uc004dbr.2	+	2	1083	c.934G>A	c.(934-936)GGT>AGT	p.G312S	MAGEB6_uc010ngc.1_Missense_Mutation_p.G92S	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	312	MAGE.									ovary(3)	3						GGAGTTCCTGGGTCTGTTGGG	0.498													93	106					0	0	0.01441	0	0		A	26212897	A	A	26212897	3	1	192	1	0	0	0	0	1	0	0	0	9197	1232	43	4	936	4	MAGEB6	23	26212897	Missense_Mutation	SNP	G	TCGA-F1-6875-01A-11D-2053-08	2488070	26212897	129057663	107	96677											
FAM47A	158724	broad.mit.edu	37	chrX	34148843	34148843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtcttgggaggctccgagCggagactggacgtccgacga	8	6	17	10	5	1	1	0	0	1	1	3	8	3	3	2	4	1	1	2	4	0	1			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chrX:34148843C>T	uc004ddg.2	-	1	1586	c.1553G>A	c.(1552-1554)CGC>CAC	p.R518H		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	518										ovary(4)|central_nervous_system(1)	5						AGGCTCCGAGCGGAGACTGGA	0.652													6	50					0	0	0.001984	0	0		T	34148843	T	T	34148843	3	4	192	1	0	0	0	0	1	0	0	0	5583	768	27	1	826	1	FAM47A	23	34148843	Missense_Mutation	SNP	C	TCGA-F1-6875-01A-11D-2053-08	7935946	34148843	121121717	108	96678											
TMEM47	83604	broad.mit.edu	37	chrX	34648573	34648573	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagtttcaatgaacttgaTtgggtaaaggaccaggctgc	12	10	11	8	0	1	2	1	2	0	0	1	3	1	3	1	3	2	3	1	3	4	4			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chrX:34648573T>C	uc004ddh.2	-	3	662	c.403A>G	c.(403-405)ATC>GTC	p.I135V	TMEM47_uc010ngs.2_RNA	NM_031442	NP_113630	Q9BQJ4	TMM47_HUMAN	transmembrane protein 47	135	Helical; (Potential).					integral to membrane				lung(1)	1						ATGAACTTGATTGGGTAAAGG	0.368													24	24					0	0	0.007291	0	0		C	34648573	C	C	34648573	3	2	192	1	0	0	0	0	1	0	0	0	16196	1493	52	3	146	3	TMEM47	23	34648573	Missense_Mutation	SNP	T	TCGA-F1-6875-01A-11D-2053-08	499730	34648573	120621987	109	96679											
PFKFB1	5207	broad.mit.edu	37	chrX	54959866	54959866	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgggacagtatccagggcTtcctcaggttcccgggtgat	6	10	14	11	1	1	1	1	1	0	0	4	2	4	2	3	4	0	4	3	4	1	3			TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chrX:54959866T>C	uc004dty.1	-	14	1457	c.1386A>G	c.(1384-1386)GAA>GAG	p.E462E	PFKFB1_uc010nkd.1_Silent_p.E270E|PFKFB1_uc011mol.1_Silent_p.E397E	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	462	Fructose-2,6-bisphosphatase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						TATCCAGGGCTTCCTCAGGTT	0.547													13	52					0	0	0.003163	0	0		C	54959866	C	C	54959866	2	2	192	1	0	0	0	0	0	0	0	1	11779	1606	56	3		3	PFKFB1	23	54959866	Silent	SNP	T	TCGA-F1-6875-01A-11D-2053-08	20311293	54959866	100310694	110	96680											
SLC6A8	6535	broad.mit.edu	37	chrX	152960203	152960203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcaacgttgtgtactaCgagccgctggtctacaacaa	11	11	8	11	3	3	0	1	0	2	0	3	1	3	0	1	1	6	3	1	1	6	5	rs140601882		TCGA-F1-6875-01A-11D-2053-08	TCGA-F1-6875-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	ea1cac20-88c1-4257-9cdb-d2890eb2e123	f3a4fd8d-1f1c-48ab-854f-6717fd62c46c	g.chrX:152960203C>T	uc004fib.3	+	12	1904	c.1626C>T	c.(1624-1626)TAC>TAT	p.Y542Y	SLC6A8_uc004fic.3_Silent_p.Y532Y|SLC6A8_uc011myx.1_Silent_p.Y427Y|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	542	Extracellular (Potential).				creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	TTGTGTACTACGAGCCGCTGG	0.483													10	58					0	0	0.016723	0	0		T	152960203	T	T	152960203	2	4	192	1	0	0	0	0	0	0	0	1	14715	547	19	1		1	SLC6A8	23	152960203	Silent	SNP	C	TCGA-F1-6875-01A-11D-2053-08	98000337	152960203	2310357	111	96681											
DNAJC6	9829	broad.mit.edu	37	chr1	65871724	65871724	+	Frame_Shift_Del	DEL	A	-	-																															gcctcagcccagcatgccccActcctctccccagaaccgac																										TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:65871724delA	uc001dcd.1	+	16	2392	c.2228delA	c.(2227-2229)CACfs	p.H743fs	DNAJC6_uc010opc.1_Frame_Shift_Del_p.H730fs|DNAJC6_uc001dce.1_Frame_Shift_Del_p.H800fs	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6	743	Pro-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						AGCATGCCCCACTCCTCTCCC	0.602													50	36	---	---	---	---						.	-	65871724	-	-	65871724	7	5	193	1	0	1	0	1	0	0	0	0	4659	159	6	0	2290	0	DNAJC6	1	65871724	Frame_Shift_Del	DEL	A	TCGA-FP-7735-01A-11D-2053-08		65871724	183378897	1	96682											
ABCA4	24	broad.mit.edu	37	chr1	94546153	94546153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccgagagccacctccctcgGggtagccacacaggaggtca	9	4	12	16	2	1	1	1	0	0	1	3	3	2	2	5	4	2	1	5	4	1	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:94546153G>A	uc001dqh.2	-	8	1084	c.980C>T	c.(979-981)CCC>CTC	p.P327L	ABCA4_uc010otn.1_Missense_Mutation_p.P327L	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	327	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		ACCTCCCTCGGGGTAGCCACA	0.532													37	60					0	0	0.013114	0	0		A	94546153	A	A	94546153	3	1	193	1	0	0	0	0	1	0	0	0	34	1232	43	4	6013	4	ABCA4	1	94546153	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	28674429	94546153	154704468	2	96683											
CSDE1	7812	broad.mit.edu	37	chr1	115266562	115266562	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtgttggatcaacactcctCagggggcgaattactttgcc	8	12	11	10	1	2	0	2	0	0	0	3	2	3	1	2	3	3	1	2	3	3	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:115266562C>T	uc001efk.2	-	16	2281	c.1815G>A	c.(1813-1815)CTG>CTA	p.L605L	CSDE1_uc001efi.2_Silent_p.L651L|CSDE1_uc001efj.2_RNA|CSDE1_uc001efl.2_Silent_p.L574L|CSDE1_uc001efm.2_Silent_p.L620L|CSDE1_uc009wgv.2_Silent_p.L605L|CSDE1_uc001efn.2_Silent_p.L574L	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1	605					male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	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)		CAACACTCCTCAGGGGGCGAA	0.423													11	144					0	0	0.013537	0	0		T	115266562	T	T	115266562	2	4	193	1	0	0	0	0	0	0	0	1	3932	813	29	4		4	CSDE1	1	115266562	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08	20720409	115266562	133984059	3	96684											
SYCP1	6847	broad.mit.edu	37	chr1	115453042	115453042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaggaaacacttttatatGaaaataaacaatttgagaag	22	10	6	3	0	0	2	0	2	0	1	0	4	0	3	0	1	2	0	0	1	11	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:115453042G>A	uc001efr.2	+	17	1554	c.1345G>A	c.(1345-1347)GAA>AAA	p.E449K	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.E449K|SYCP1_uc009wgw.2_Missense_Mutation_p.E449K	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	449	Potential.			E -> D (in Ref. 2; BAA22586).	cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACTTTTATATGAAAATAAACA	0.328													3	40					0	0	0.009096	0	0		A	115453042	A	A	115453042	3	1	193	1	0	0	0	0	1	0	0	0	15456	1291	45	4	1407	4	SYCP1	1	115453042	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	186480	115453042	133797579	4	96685											
FLG	2312	broad.mit.edu	37	chr1	152286012	152286012	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggccacgtgtggactcttgGtggctctgctgtctcagccc	3	11	13	14	2	3	0	1	0	3	0	4	1	3	1	2	4	2	2	2	4	0	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:152286012G>T	uc001ezu.1	-	3	1386	c.1350C>A	c.(1348-1350)CAC>CAA	p.H450Q	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	450	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGGACTCTTGGTGGCTCTGCT	0.577									Ichthyosis				29	286					3.73988e-18	4.18276e-18	0.00632	1	0		T	152286012	T	T	152286012	3	4	193	1	0	0	0	0	1	0	0	0	5936	1252	44	5	10839	5	FLG	1	152286012	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	36832970	152286012	96964609	5	96686											
SLAMF6	114836	broad.mit.edu	37	chr1	160465991	160465991	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttcagtcgctttccctgtTtcggattagtcacgtggatt	6	16	10	9	3	2	0	2	0	0	0	5	2	3	2	1	2	0	3	1	2	1	5	rs61761948		TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:160465991T>C	uc001fwe.1	-	2	302	c.242A>G	c.(241-243)AAA>AGA	p.K81R	SLAMF6_uc001fwd.1_Missense_Mutation_p.K81R|SLAMF6_uc010pjh.1_Missense_Mutation_p.K32R|SLAMF6_uc010pji.1_Intron|SLAMF6_uc010pjj.1_Intron|SLAMF6_uc009wtm.1_Missense_Mutation_p.K32R	NM_052931	NP_443163	Q96DU3	SLAF6_HUMAN	activating NK receptor precursor	81	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|skin(1)	2	all_cancers(52;1.05e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0923)			CTTTCCCTGTTTCGGATTAGT	0.463													3	82					0	0	0.004672	0	0		C	160465991	C	C	160465991	3	2	193	1	0	0	0	0	1	0	0	0	14393	1841	64	3	784	3	SLAMF6	1	160465991	Missense_Mutation	SNP	T	TCGA-FP-7735-01A-11D-2053-08	8179979	160465991	88784630	6	96687											
HMCN1	83872	broad.mit.edu	37	chr1	186158760	186158760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaatcaagatttaatccGgctggttgcatacacacagg	13	9	8	11	1	1	1	1	0	0	1	2	1	2	1	2	3	2	3	2	3	4	4	rs148530862		TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:186158760G>A	uc001grq.1	+	107	16887	c.16658G>A	c.(16657-16659)CGG>CAG	p.R5553Q	HMCN1_uc001grs.1_Missense_Mutation_p.R1005Q	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	5553					response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GATTTAATCCGGCTGGTTGCA	0.468													18	35					0	0	0.010504	0	0		A	186158760	A	A	186158760	3	1	193	1	0	0	0	0	1	0	0	0	7236	1116	39	1	17084	1	HMCN1	1	186158760	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	25692769	186158760	63091861	7	96688											
KLHL12	59349	broad.mit.edu	37	chr1	202878254	202878254	+	Splice_Site	SNP	T	A	A	0	1	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	aactacagcggatgaaaggcTgaaatatagcagacagcaga	18	5	11	7	1	0	4	0	2	0	2	0	5	0	5	0	2	5	3	0	2	6	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr1:202878254T>A	uc001gyo.1	-	6	918	c.718_splice	c.e6-1	p.P240_splice	KLHL12_uc001gym.1_5'UTR|KLHL12_uc001gyn.1_Splice_Site_p.P90_splice|KLHL12_uc010pqc.1_Splice_Site_p.P278_splice|KLHL12_uc009xah.1_Splice_Site_p.P240_splice	NM_021633	NP_067646	Q53G59	KLH12_HUMAN	kelch-like 12						Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			GATGAAAGGCTGAAATATAGC	0.438													4	118					0	0	0.001168	0	0		A	202878254	A	A	202878254	5	1	193	1	0	0	0	0	0	0	1	0	8384	1594	55	5	1018	5	KLHL12	1	202878254	Splice_Site	SNP	T	TCGA-FP-7735-01A-11D-2053-08	16719494	202878254	46372367	8	96689											
KIAA1310	55683	broad.mit.edu	37	chr2	97271204	97271204	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcttcagctgaaccctaaGatcctctttctctccttcct	6	15	4	16	1	3	2	1	1	2	1	8	2	6	2	4	0	2	2	4	0	2	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr2:97271204G>T	uc002swn.3	-	15	1932	c.1786C>A	c.(1786-1788)CTT>ATT	p.L596I	KIAA1310_uc002swh.3_Missense_Mutation_p.L484I|KIAA1310_uc002swi.3_Missense_Mutation_p.L523I|KIAA1310_uc002swj.3_RNA|KIAA1310_uc002swk.3_Missense_Mutation_p.L509I|KIAA1310_uc010fhz.2_Missense_Mutation_p.L416I|KIAA1310_uc002swl.3_Missense_Mutation_p.L497I|KIAA1310_uc002swm.3_RNA|KIAA1310_uc010yur.1_Missense_Mutation_p.L390I|KIAA1310_uc002swo.2_5'UTR|KIAA1310_uc002swp.1_Missense_Mutation_p.L497I	NM_001115016	NP_001108488	Q9P2N6	K1310_HUMAN	hypothetical protein LOC55683 isoform a	622											0						TGAACCCTAAGATCCTCTTTC	0.502													29	77					2.20474e-14	2.4338e-14	0.003755	1	0		T	97271204	T	T	97271204	3	4	193	1	0	0	0	0	1	0	0	0	8238	942	33	5	878	5	KIAA1310	2	97271204	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08		97271204	145928169	9	96690											
AFF3	3899	broad.mit.edu	37	chr2	100181979	100181979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactgtttctgaatacatcGtataaggagatttggattcc	11	15	8	7	1	1	2	0	1	1	1	3	4	2	3	1	2	2	2	1	2	5	7			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr2:100181979G>A	uc002tag.2	-	19	3325	c.3089C>T	c.(3088-3090)ACG>ATG	p.T1030M	AFF3_uc002taf.2_Missense_Mutation_p.T1055M	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	1030				T -> YL (in Ref. 1; AAA98763).	multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)|lung(1)|kidney(1)|skin(1)	6						TGAATACATCGTATAAGGAGA	0.448													10	122					0	0	0.010729	0	0		A	100181979	A	A	100181979	3	1	193	1	0	0	0	0	1	0	0	0	358	1145	40	1	615	1	AFF3	2	100181979	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	2910775	100181979	143017394	10	96691											
SDPR	8436	broad.mit.edu	37	chr2	192700704	192700704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacggggtccccatcggagCgctccgcctcctcggatgtt	4	8	13	16	5	0	0	0	0	0	0	5	2	3	2	5	4	1	3	5	4	0	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr2:192700704C>T	uc002utb.2	-	2	1553	c.1223G>A	c.(1222-1224)CGC>CAC	p.R408H		NM_004657	NP_004648	O95810	SDPR_HUMAN	serum deprivation response protein	408						caveola|cytosol	phosphatidylserine binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	CCCATCGGAGCGCTCCGCCTC	0.622													18	23					0	0	0.008871	0	0		T	192700704	T	T	192700704	3	4	193	1	0	0	0	0	1	0	0	0	13995	768	27	1	58	1	SDPR	2	192700704	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	92518725	192700704	50498669	11	96692											
SLC39A10	57181	broad.mit.edu	37	chr2	196548511	196548511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttacatacctttgccctgCattgttatatcaaatcgaca	12	15	4	10	1	1	0	1	0	0	0	2	1	1	0	2	0	4	2	2	0	5	7			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr2:196548511C>T	uc002utg.3	+	3	1311	c.1097C>T	c.(1096-1098)GCA>GTA	p.A366V	SLC39A10_uc002uth.3_Missense_Mutation_p.A366V|SLC39A10_uc010zgp.1_5'UTR	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	366					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			CTTTGCCCTGCATTGTTATAT	0.358													5	85					0	0	0.001984	0	0		T	196548511	T	T	196548511	3	4	193	1	0	0	0	0	1	0	0	0	14638	710	25	2	1103	2	SLC39A10	2	196548511	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	3847807	196548511	46650862	12	96693											
SGEF	26084	broad.mit.edu	37	chr3	153973256	153973256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctaggactggagaccaaCgtgtagtctctcagatggtc	9	11	12	9	1	2	2	1	0	1	2	4	4	2	3	1	3	2	2	1	3	3	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr3:153973256C>T	uc011bog.1	+	15	2821	c.2610C>T	c.(2608-2610)AAC>AAT	p.N870N	SGEF_uc011boh.1_3'UTR|SGEF_uc011boi.1_Silent_p.N138N	NM_015595	NP_056410	Q96DR7	ARHGQ_HUMAN	Src homology 3 domain-containing guanine	870					regulation of Rho protein signal transduction	intracellular|ruffle	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TGGAGACCAACGTGTAGTCTC	0.453													9	13					0	0	0.008291	0	0		T	153973256	T	T	153973256	2	4	193	1	0	0	0	0	0	0	0	1	14230	535	19	1		1	SGEF	3	153973256	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08		153973256	44049174	13	96694											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; 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; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			5	75					0	0	0.001984	0	0		A	178936091	A	A	178936091	3	1	193	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	24962835	178936091	19086339	14	96695											
RPL9	6133	broad.mit.edu	37	chr4	39458038	39458038	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gcacatacctggtctcatccGaaccctgcggatatattttt	9	13	7	12	2	1	0	1	0	1	0	3	2	2	1	3	2	3	1	3	2	4	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr4:39458038G>C	uc003gub.2	-	4	527	c.379C>G	c.(379-381)CGG>GGG	p.R127G	RPL9_uc003guc.2_Missense_Mutation_p.R127G|RPL9_uc011byk.1_RNA|RPL9_uc011byl.1_Missense_Mutation_p.R127G|LIAS_uc003gue.3_5'Flank|LIAS_uc011bym.1_5'Flank|LIAS_uc003guf.2_5'Flank|LIAS_uc003gug.2_5'Flank|LIAS_uc003guh.2_5'Flank	NM_001024921	NP_001020092	P32969	RL9_HUMAN	ribosomal protein L9	127					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|nucleolus|ribosome	rRNA binding|structural constituent of ribosome			skin(1)	1						GGTCTCATCCGAACCCTGCGG	0.408													15	29					0	0	0.010504	0	0		C	39458038	C	C	39458038	3	2	193	1	0	0	0	0	1	0	0	0	13628	1057	37	5	211	5	RPL9	4	39458038	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08		39458038	151696238	15	96696											
NKX6-1	4825	broad.mit.edu	37	chr4	85419238	85419238	+	Frame_Shift_Del	DEL	G	-	-																															gacgacgaggacgaggaggaGggggggccggcaggcagcgg																										TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr4:85419238delG	uc003hpa.1	-	1	150	c.144delC	c.(142-144)CCCfs	p.P48fs		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	48					detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		acgaggaggagggggggccgg	0.458													2	4	---	---	---	---						.	-	85419238	-	-	85419238	7	5	193	1	0	1	0	1	0	0	0	0	10476	987	35	0	971	0	NKX6-1	4	85419238	Frame_Shift_Del	DEL	G	TCGA-FP-7735-01A-11D-2053-08	45961200	85419238	105735038	16	96697											
USP53	54532	broad.mit.edu	37	chr4	120177442	120177442	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattttcacatagtgccaagCagagatgcagacatgtgtac	13	10	9	9	0	1	2	1	0	0	2	1	3	1	2	1	0	4	3	1	0	3	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr4:120177442C>G	uc003ics.3	+	7	1480	c.414C>G	c.(412-414)AGC>AGG	p.S138R	USP53_uc003icr.3_Missense_Mutation_p.S138R|USP53_uc003icu.3_5'UTR	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	138					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						TAGTGCCAAGCAGAGATGCAG	0.343													6	78					0	0	0.001984	0	0		G	120177442	G	G	120177442	3	3	193	1	0	0	0	0	1	0	0	0	17110	709	25	5	428	5	USP53	4	120177442	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	34758204	120177442	70976834	17	96698											
MTNR1A	4543	broad.mit.edu	37	chr4	187455407	187455407	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tactggagagtccctgcacgGaggttgggcaggacggccgc	7	6	17	11	3	0	1	0	0	0	1	1	4	1	3	2	6	2	3	2	6	1	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr4:187455407G>A	uc003izd.1	-	2	507	c.489C>T	c.(487-489)CTC>CTT	p.L163L		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	163	Helical; Name=4; (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	TCCCTGCACGGAGGTTGGGCA	0.602													3	42					0	0	0.004672	0	0		A	187455407	A	A	187455407	2	1	193	1	0	0	0	0	0	0	0	1	9969	1161	41	4		4	MTNR1A	4	187455407	Silent	SNP	G	TCGA-FP-7735-01A-11D-2053-08	67277965	187455407	3698869	18	96699											
APC	324	broad.mit.edu	37	chr5	112175944	112175945	+	Frame_Shift_Del	DEL	AG	-	-																															tcaaatgaaaaccaagagaaAgaggcagaaaaaactattga																										TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr5:112175944_112175945delAG	uc010jby.2	+	16	5033_5034	c.4653_4654delAG	c.(4651-4656)AAAGAGfs	p.K1551fs	APC_uc011cvt.1_Frame_Shift_Del_p.K1533fs|APC_uc003kpz.3_Frame_Shift_Del_p.K1551fs|APC_uc003kpy.3_Frame_Shift_Del_p.K1551fs|APC_uc010jbz.2_Frame_Shift_Del_p.K1268fs|APC_uc010jca.2_Frame_Shift_Del_p.K851fs	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1551_1552	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.E1552*(8)|p.K1192fs*3(1)|p.?(1)|p.K1551*(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		ACCAAGAGAAAGAGGCAGAAAA	0.342		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			12	24	---	---	---	---						.	-	112175945	-	-	112175944	7	5	193	1	0	1	0	1	0	0	0	0	763	69	3	0	4711	0	APC	5	112175944	Frame_Shift_Del	DEL	AG	TCGA-FP-7735-01A-11D-2053-08		112175944	68739316	19	96700											
HIST1H3H	8357	broad.mit.edu	37	chr6	27777970	27777970	+	Missense_Mutation	SNP	A	C	C	1	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	cggcggtgtcaagaagccccAtcgctatcggcctggtacag	8	7	13	13	4	1	1	1	0	0	1	3	1	1	1	3	4	2	2	3	4	4	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr6:27777970A>C	uc003njm.2	+	1	129	c.119A>C	c.(118-120)CAT>CCT	p.H40P	HIST1H2BL_uc003njl.2_5'Flank	NM_003536	NP_003527	P68431	H31_HUMAN	histone cluster 1, H3h	40					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						AAGAAGCCCCATCGCTATCGG	0.647													9	40					0	0	0.013537	0	0		C	27777970	C	C	27777970	3	2	193	1	0	0	0	0	1	0	0	0	7178	217	8	5	121	5	HIST1H3H	6	27777970	Missense_Mutation	SNP	A	TCGA-FP-7735-01A-11D-2053-08		27777970	143337097	20	96701											
C6orf142	90523	broad.mit.edu	37	chr6	54034364	54034364	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcagctggtcgagaaacCaaatatgtaagtacctttat	15	10	9	7	1	0	2	0	0	0	2	1	3	0	2	2	1	4	4	2	1	6	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr6:54034364C>A	uc003pcg.3	+	8	1046	c.933C>A	c.(931-933)ACC>ACA	p.T311T	C6orf142_uc003pcf.2_Silent_p.T835T|C6orf142_uc003pch.3_Silent_p.T155T|C6orf142_uc011dxa.1_Silent_p.T846T	NM_138569	NP_612636	Q5VWP3	MLIP_HUMAN	hypothetical protein LOC90523	311						nuclear envelope|PML body	protein binding				0	Lung NSC(77;0.0317)					GTCGAGAAACCAAATATGTAA	0.299													12	26					4.7546e-09	5.11571e-09	0.004007	1	0		A	54034364	A	A	54034364	2	1	193	1	0	0	0	0	0	0	0	1	2336	581	21	5		5	C6orf142	6	54034364	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08	26256394	54034364	117080703	21	96702											
PHF3	23469	broad.mit.edu	37	chr6	64410303	64410303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcttatcagaatgagtccaGaagaactagcttctaaagag	16	10	8	7	0	3	5	1	1	2	4	4	5	4	5	1	0	2	1	1	0	7	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr6:64410303G>A	uc003pep.1	+	8	3072	c.3046G>A	c.(3046-3048)GAA>AAA	p.E1016K	PHF3_uc010kah.1_Missense_Mutation_p.E830K|PHF3_uc003pen.2_Missense_Mutation_p.E928K|PHF3_uc011dxs.1_Missense_Mutation_p.E285K	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1016	TFIIS central.				multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AATGAGTCCAGAAGAACTAGC	0.323													6	68					0	0	0.00308	0	0		A	64410303	A	A	64410303	3	1	193	1	0	0	0	0	1	0	0	0	11855	943	33	4	3076	4	PHF3	6	64410303	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	10375939	64410303	106704764	22	96703											
ARMC2	84071	broad.mit.edu	37	chr6	109274511	109274511	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcgtgggcccggtgctGgccgccaacccggggatagt	4	5	18	14	5	0	0	0	0	0	0	0	1	0	1	5	6	2	1	5	6	2	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr6:109274511G>A	uc003pss.3	+	13	2046	c.1872G>A	c.(1870-1872)CTG>CTA	p.L624L	ARMC2_uc011eao.1_Silent_p.L459L	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	624	ARM 9.						binding				0		all_cancers(87;1.14e-07)|Acute lymphoblastic leukemia(125;2.3e-10)|all_hematologic(75;3.3e-08)|all_epithelial(87;0.000111)|Colorectal(196;0.03)|all_lung(197;0.11)		Epithelial(106;0.000197)|BRCA - Breast invasive adenocarcinoma(108;0.000236)|all cancers(137;0.000279)|OV - Ovarian serous cystadenocarcinoma(136;0.00434)		GCCCGGTGCTGGCCGCCAACC	0.667													16	17					0	0	0.008871	0	0		A	109274511	A	A	109274511	2	1	193	1	0	0	0	0	0	0	0	1	952	1335	47	4		4	ARMC2	6	109274511	Silent	SNP	G	TCGA-FP-7735-01A-11D-2053-08	44864208	109274511	61840556	23	96704											
AMD1	262	broad.mit.edu	37	chr6	111214017	111214017	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgtgggtattcgatgaatgGaatgaaatcggatgtgagta	12	13	14	2	2	0	3	0	3	0	0	2	6	0	5	0	3	0	2	0	3	5	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr6:111214017G>T	uc003puk.1	+	7	1017	c.695G>T	c.(694-696)GGA>GTA	p.G232V	AMD1_uc011eay.1_Missense_Mutation_p.G163V|AMD1_uc011eaz.1_Missense_Mutation_p.G203V|AMD1_uc011eba.1_Missense_Mutation_p.G112V|AMD1_uc003pul.1_Missense_Mutation_p.G84V	NM_001634	NP_001625	P17707	DCAM_HUMAN	adenosylmethionine decarboxylase 1 isoform 1	232					spermidine biosynthetic process|spermine biosynthetic process	cytosol	adenosylmethionine decarboxylase activity			upper_aerodigestive_tract(1)	1		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)	TCGATGAATGGAATGAAATCG	0.393													36	46					2.95478e-19	3.34875e-19	0.00874	1	0		T	111214017	T	T	111214017	3	4	193	1	0	0	0	0	1	0	0	0	566	1174	41	5	721	5	AMD1	6	111214017	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	1939506	111214017	59901050	24	96705											
GTF2IRD2	84163	broad.mit.edu	37	chr7	74212378	74212378	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagatacttcctgagcccTtttttcagctcgtgaagctt	9	14	8	10	1	1	3	1	2	0	1	3	4	2	3	2	0	4	2	2	0	3	6			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr7:74212378T>C	uc003ubd.1	-	16	1657	c.1473A>G	c.(1471-1473)AAA>AAG	p.K491K	GTF2IRD2_uc010lbt.1_Silent_p.K38K	NM_173537	NP_775808	Q86UP8	GTD2A_HUMAN	GTF2I repeat domain containing 2	491					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						tcctgagcccttttttcagct	0													3	85					0	0	0.004672	0	0		C	74212378	C	C	74212378	2	2	193	1	0	0	0	0	0	0	0	1	6885	1606	56	3		3	GTF2IRD2	7	74212378	Silent	SNP	T	TCGA-FP-7735-01A-11D-2053-08		74212378	84926285	25	96706											
NCAPG2	54892	broad.mit.edu	37	chr7	158476040	158476040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcctcggaaggtgtatcccGtggaacatgaagtcctggat	9	10	12	10	2	0	1	0	1	0	0	4	4	3	4	3	4	1	1	3	4	4	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr7:158476040G>A	uc003wnv.1	-	9	1021	c.876C>T	c.(874-876)CAC>CAT	p.H292H	NCAPG2_uc010lqu.1_Silent_p.H84H|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Silent_p.H292H|NCAPG2_uc011kwe.1_Silent_p.H292H	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	292					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	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)		GGTGTATCCCGTGGAACATGA	0.428													10	122					0	0	0.010729	0	0		A	158476040	A	A	158476040	2	1	193	1	0	0	0	0	0	0	0	1	10227	1136	40	1		1	NCAPG2	7	158476040	Silent	SNP	G	TCGA-FP-7735-01A-11D-2053-08	84263662	158476040	662623	26	96707											
C8orf80	389643	broad.mit.edu	37	chr8	27884560	27884560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgcccttcaccttctccaCgattccagtctatgcaacaa	9	11	5	16	1	3	0	1	0	2	0	5	1	4	0	4	0	3	2	4	0	3	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr8:27884560C>T	uc003xgm.3	-	18	2307	c.2164G>A	c.(2164-2166)GTG>ATG	p.V722M		NM_001010906	NP_001010906	Q68CJ6	SLIP_HUMAN	speckled-like pattern in the germinal center	722						nucleus	GTP binding|GTPase activity			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.0218)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|KIRC - Kidney renal clear cell carcinoma(542;0.126)|Kidney(114;0.15)|Colorectal(74;0.181)		ACCTTCTCCACGATTCCAGTC	0.532													48	67					0	0	0.01441	0	0		T	27884560	T	T	27884560	3	4	193	1	0	0	0	0	1	0	0	0	2442	536	19	1	234	1	C8orf80	8	27884560	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08		27884560	118479462	27	96708											
PRKDC	5591	broad.mit.edu	37	chr8	48740855	48740855	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttaaatttatccatctctttCaaaattccagaaaacaagct	16	14	2	9	0	2	1	1	0	1	1	5	1	4	1	2	0	2	1	2	0	8	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr8:48740855C>T	uc003xqi.2	-	63	8508	c.8451G>A	c.(8449-8451)TTG>TTA	p.L2817L	PRKDC_uc003xqj.2_Silent_p.L2817L|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2817	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CCATCTCTTTCAAAATTCCAG	0.323								NHEJ					7	27					0	0	0.004482	0	0		T	48740855	T	T	48740855	2	4	193	1	0	0	0	0	0	0	0	1	12543	825	29	4		4	PRKDC	8	48740855	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08	20856295	48740855	97623167	28	96709											
COL14A1	7373	broad.mit.edu	37	chr8	121256220	121256220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctacacggatggcgaaggcGtcagcgtctccgctcctgga	7	8	13	13	5	3	0	1	0	2	0	5	3	4	2	2	4	2	1	2	4	2	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr8:121256220G>A	uc003yox.2	+	20	2717	c.2452G>A	c.(2452-2454)GTC>ATC	p.V818I	COL14A1_uc003yoy.2_Missense_Mutation_p.V496I	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	818	Fibronectin type-III 6.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TGGCGAAGGCGTCAGCGTCTC	0.493													30	68					0	0	0.008361	0	0		A	121256220	A	A	121256220	3	1	193	1	0	0	0	0	1	0	0	0	3674	1145	40	1	2526	1	COL14A1	8	121256220	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	72515365	121256220	25107802	29	96710											
BAI1	575	broad.mit.edu	37	chr8	143623631	143623631	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctctggacacgagctacGtgatcctgcccacggccacg	8	6	12	15	4	1	1	0	1	1	0	2	3	2	2	3	3	3	2	3	3	1	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr8:143623631G>C	uc003ywm.2	+	27	4219	c.4036G>C	c.(4036-4038)GTG>CTG	p.V1346L		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	1346	Cytoplasmic (Potential).				axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					CACGAGCTACGTGATCCTGCC	0.642													5	62					0	0	0.001168	0	0		C	143623631	C	C	143623631	3	2	193	1	0	0	0	0	1	0	0	0	1299	1145	40	5	4142	5	BAI1	8	143623631	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	22367411	143623631	2740391	30	96711											
ERMP1	79956	broad.mit.edu	37	chr9	5810125	5810125	+	Missense_Mutation	SNP	A	C	C	1	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	taccatgagagagactgtccAataagagagatgaacactgc	16	7	10	8	0	0	5	0	2	0	4	1	8	1	5	2	0	3	0	2	0	4	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr9:5810125A>C	uc003zjm.1	-	8	1488	c.1434T>G	c.(1432-1434)ATT>ATG	p.I478M	ERMP1_uc011lme.1_RNA|ERMP1_uc010mhs.1_Missense_Mutation_p.I92M	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna	478	Helical; (Potential).				proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		GAGACTGTCCAATAAGAGAGA	0.403													39	51					0	0	0.011902	0	0		C	5810125	C	C	5810125	3	2	193	1	0	0	0	0	1	0	0	0	5244	126	5	5	1312	5	ERMP1	9	5810125	Missense_Mutation	SNP	A	TCGA-FP-7735-01A-11D-2053-08		5810125	135403306	31	96712											
DENND1A	57706	broad.mit.edu	37	chr9	126202698	126202698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagcttggggtccttggcctCcaccagtggggacggtgcag	5	8	17	11	1	0	0	0	0	0	0	2	2	2	1	4	6	2	2	4	6	0	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr9:126202698C>T	uc004bnz.1	-	19	1662	c.1429G>A	c.(1429-1431)GAG>AAG	p.E477K	DENND1A_uc011lzl.1_Missense_Mutation_p.E252K|DENND1A_uc004bny.1_Missense_Mutation_p.E216K|DENND1A_uc011lzm.1_Missense_Mutation_p.E445K|DENND1A_uc004boa.1_Missense_Mutation_p.E477K|DENND1A_uc004bob.1_Missense_Mutation_p.E447K|DENND1A_uc004boc.2_Missense_Mutation_p.E445K|DENND1A_uc010mwh.1_5'UTR	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	477						cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						TCCTTGGCCTCCACCAGTGGG	0.577													3	63					0	0	0.009096	0	0		T	126202698	T	T	126202698	3	4	193	1	0	0	0	0	1	0	0	0	4432	864	30	4	1723	4	DENND1A	9	126202698	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	120392573	126202698	15010733	32	96713											
DCLRE1C	64421	broad.mit.edu	37	chr10	14976747	14976747	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcacagaacgtagtatcCaaatatacactttggatgtc	14	11	8	8	1	1	1	1	0	0	1	3	3	2	3	1	2	2	2	1	2	6	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:14976747C>T	uc001inn.2	-	7	577	c.492G>A	c.(490-492)TTG>TTA	p.L164L	DCLRE1C_uc010qbx.1_Silent_p.L164L|DCLRE1C_uc001inl.2_Silent_p.L44L|DCLRE1C_uc009xji.2_Silent_p.L49L|DCLRE1C_uc001inm.2_Silent_p.L44L|DCLRE1C_uc001ino.2_Silent_p.L49L|DCLRE1C_uc009xjh.2_RNA|DCLRE1C_uc001inp.2_Silent_p.L44L|DCLRE1C_uc001inq.2_Silent_p.L44L|DCLRE1C_uc001inr.2_Silent_p.L49L|DCLRE1C_uc009xjj.1_RNA	NM_001033855	NP_001029027	Q96SD1	DCR1C_HUMAN	artemis protein isoform a	164					DNA recombination	nucleus	5'-3' exonuclease activity|single-stranded DNA specific endodeoxyribonuclease activity			ovary(1)	1						ACGTAGTATCCAAATATACAC	0.343								Involved_in_tolerance_or_repair_of_DNA_crosslinks|NHEJ					39	106					0	0	0.013114	0	0		T	14976747	T	T	14976747	2	4	193	1	0	0	0	0	0	0	0	1	4299	593	21	4		4	DCLRE1C	10	14976747	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08		14976747	120558000	33	96714											
FAM21A	387680	broad.mit.edu	37	chr10	51827887	51827887	+	Missense_Mutation	SNP	A	G	G	1	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	gaaccggacgacccccgaccAggagctggcgccagcgtcgg	8	2	15	16	6	0	0	0	0	0	0	1	5	0	2	5	4	3	1	5	4	1	0			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:51827887A>G	uc001jjb.2	+	2	108	c.26A>G	c.(25-27)CAG>CGG	p.Q9R	uc001jiz.1_5'Flank|FAM21A_uc001jja.1_5'UTR|FAM21A_uc010qhi.1_Missense_Mutation_p.Q9R|FAM21A_uc010qhj.1_Missense_Mutation_p.Q9R	NM_001005751	NP_001005751	Q641Q2	FA21A_HUMAN	hypothetical protein LOC387680	9					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						ACCCCCGACCAGGAGCTGGCG	0.711													9	22					0	0	0.004007	0	0		G	51827887	G	G	51827887	3	3	193	1	0	0	0	0	1	0	0	0	5551	188	7	3	32	3	FAM21A	10	51827887	Missense_Mutation	SNP	A	TCGA-FP-7735-01A-11D-2053-08	36851140	51827887	83706860	34	96715											
ASAH2	56624	broad.mit.edu	37	chr10	52003054	52003054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctgccatgatgaaggcacGactgtatagcctggtgagga	10	10	13	8	1	1	3	0	3	1	0	1	5	1	4	2	3	2	2	2	3	3	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:52003054G>A	uc001jjd.2	-	3	418	c.418C>T	c.(418-420)CGT>TGT	p.R140C	ASAH2_uc009xos.2_Missense_Mutation_p.R140C	NM_019893	NP_063946	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase 2 isoform a	140	Lumenal (Potential).				apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						ATGAAGGCACGACTGTATAGC	0.512													52	115					0	0	0.01441	0	0		A	52003054	A	A	52003054	3	1	193	1	0	0	0	0	1	0	0	0	1008	1058	37	1	1996	1	ASAH2	10	52003054	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	175167	52003054	83531693	35	96716											
ANK3	288	broad.mit.edu	37	chr10	61932869	61932869	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttttggcattaacttttgCagaatgctggagcaggaaat	11	14	11	5	0	0	1	0	0	0	1	0	3	0	3	0	3	4	5	0	3	3	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:61932869C>G	uc001jky.2	-	19	2452	c.2260G>C	c.(2260-2262)GCA>CCA	p.A754P	ANK3_uc001jkx.2_5'Flank|ANK3_uc010qih.1_Missense_Mutation_p.A737P|ANK3_uc001jkz.3_Missense_Mutation_p.A748P|ANK3_uc001jlb.1_Missense_Mutation_p.A283P|ANK3_uc001jlc.1_Missense_Mutation_p.A415P	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	754	ANK 21.				establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTAACTTTTGCAGAATGCTGG	0.343													23	229					0	0	0.010818	0	0		G	61932869	G	G	61932869	3	3	193	1	0	0	0	0	1	0	0	0	622	710	25	5	11306	5	ANK3	10	61932869	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	9929815	61932869	73601878	36	96717											
PTEN	5728	broad.mit.edu	37	chr10	89653785	89653785	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaactaaagtactcagataTttatccaaacattattgcta	16	15	3	7	0	1	1	1	0	0	1	2	1	2	1	1	0	4	2	1	0	9	9			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:89653785T>G	uc001kfb.2	+	3	1114	c.83T>G	c.(82-84)ATT>AGT	p.I28S		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	28	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.?(4)|p.Y27fs*1(3)|p.Y27_N212>Y(2)|p.I28M(1)|p.I28fs*17(1)|p.Y29fs*25(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		TACTCAGATATTTATCCAAAC	0.294		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			4	39					0	0	0.000602	0	0		G	89653785	G	G	89653785	3	3	193	1	0	0	0	0	1	0	0	0	12760	1493	52	5	89	5	PTEN	10	89653785	Missense_Mutation	SNP	T	TCGA-FP-7735-01A-11D-2053-08	27720916	89653785	45880962	37	96718											
IFIT1	3434	broad.mit.edu	37	chr10	91162119	91162119	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgggagttatccattgatgaCgatgaaatgcctgatttaga	12	13	11	5	1	0	5	0	4	0	1	1	7	1	6	2	1	1	1	2	1	3	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:91162119C>T	uc001kgi.2	+	2	235	c.87C>T	c.(85-87)GAC>GAT	p.D29D	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|IFIT1_uc009xtt.2_Silent_p.D29D|IFIT1_uc001kgj.2_Translation_Start_Site	NM_001548	NP_001539	P09914	IFIT1_HUMAN	interferon-induced protein with	29					cellular response to exogenous dsRNA|intracellular transport of viral proteins in host cell|negative regulation of defense response to virus by host|negative regulation of helicase activity|negative regulation of protein binding|negative regulation of viral genome replication|positive regulation of viral genome replication|response to virus|type I interferon-mediated signaling pathway	cytoplasm	protein binding				0						CCATTGATGACGATGAAATGC	0.383													29	44					0	0	0.010818	0	0		T	91162119	T	T	91162119	2	4	193	1	0	0	0	0	0	0	0	1	7537	535	19	1		1	IFIT1	10	91162119	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08	1508334	91162119	44372628	38	96719											
LBX1	10660	broad.mit.edu	37	chr10	102987212	102987212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgccgcagccgccgccacCgccggctgtggcctccgagt	3	5	13	20	6	0	0	0	0	0	0	1	1	1	0	9	2	2	2	9	2	0	0			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:102987212C>T	uc001ksx.2	-	2	806	c.661G>A	c.(661-663)GGT>AGT	p.G221S	uc010qpy.1_5'Flank	NM_006562	NP_006553	P52954	LBX1_HUMAN	ladybird homeobox 1	221	Poly-Gly.				muscle organ development		sequence-specific DNA binding				0		Colorectal(252;0.234)		Epithelial(162;3.22e-09)|all cancers(201;1.79e-07)		CCGCCGCCACCGCCGGCTGTG	0.741													2	4					0	0	0.004672	0	0		T	102987212	T	T	102987212	3	4	193	1	0	0	0	0	1	0	0	0	8669	652	23	1	188	1	LBX1	10	102987212	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	11825093	102987212	32547535	39	96720											
C10orf82	143379	broad.mit.edu	37	chr10	118424407	118424407	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tggctctcggcaggtagcctGcccagccagggatcgggggc	5	6	17	13	2	1	0	0	0	1	0	3	1	1	1	3	6	3	3	3	6	1	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:118424407G>T	uc001lcr.2	-	4	381	c.326C>A	c.(325-327)GCA>GAA	p.A109E	C10orf82_uc001lcs.1_3'UTR	NM_144661	NP_653262	Q8WW14	CJ082_HUMAN	hypothetical protein LOC143379	109											0				all cancers(201;0.0143)		CAGGTAGCCTGCCCAGCCAGG	0.493													50	63					5.82218e-30	6.68764e-30	0.01441	1	0		T	118424407	T	T	118424407	3	4	193	1	0	0	0	0	1	0	0	0	1623	1319	46	5	146	5	C10orf82	10	118424407	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	15437195	118424407	17110340	40	96721											
C10orf120	399814	broad.mit.edu	37	chr10	124457429	124457429	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcggtttgttaggcctgcGatggaccgttccggtttctt	3	17	12	9	4	1	0	0	0	1	0	3	2	2	1	3	4	1	4	3	4	1	6			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr10:124457429G>A	uc001lgn.2	-	3	860	c.828C>T	c.(826-828)ATC>ATT	p.I276I		NM_001010912	NP_001010912	Q5SQS8	CJ120_HUMAN	hypothetical protein LOC399814	276										kidney(1)	1		all_neural(114;0.169)|Glioma(114;0.222)				TTAGGCCTGCGATGGACCGTT	0.398													50	53					0	0	0.01441	0	0		A	124457429	A	A	124457429	2	1	193	1	0	0	0	0	0	0	0	1	1593	1048	37	1		1	C10orf120	10	124457429	Silent	SNP	G	TCGA-FP-7735-01A-11D-2053-08	6033022	124457429	11077318	41	96722											
OR52A4	390053	broad.mit.edu	37	chr11	5142176	5142176	+	Silent	SNP	A	G	G	1	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	aaaatgaagtcaagcccaccAacaataaatgctccaaggat	19	6	6	10	0	1	1	1	1	0	0	2	2	2	2	3	1	3	1	3	1	9	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr11:5142176A>G	uc001lzz.1	-	1	633	c.633T>C	c.(631-633)GTT>GTC	p.V211V		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		CAAGCCCACCAACAATAAATG	0.393													3	42					0	0	0.009096	0	0		G	5142176	G	G	5142176	2	3	193	1	0	0	0	0	0	0	0	1	11128	117	5	3		3	OR52A4	11	5142176	Silent	SNP	A	TCGA-FP-7735-01A-11D-2053-08		5142176	129864340	42	96723											
SLC17A6	57084	broad.mit.edu	37	chr11	22363309	22363309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acagcaccatccaccgcgggGgcaaggtcatcaaggaggtg	11	4	14	12	2	2	0	2	0	0	0	3	1	3	1	3	5	1	2	3	5	2	0			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr11:22363309G>A	uc001mqk.2	+	2	735	c.322G>A	c.(322-324)GGC>AGC	p.G108S		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	108	Vesicular (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CCACCGCGGGGGCAAGGTCAT	0.627													31	21					0	0	0.006999	0	0		A	22363309	A	A	22363309	3	1	193	1	0	0	0	0	1	0	0	0	14446	1232	43	4	328	4	SLC17A6	11	22363309	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	17221133	22363309	112643207	43	96724											
OR8H3	390152	broad.mit.edu	37	chr11	55890333	55890333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcctttgtcaatgtggtttCcatgagcagattgcatttct	7	17	8	9	0	2	2	1	1	1	1	4	2	4	2	2	1	2	3	2	1	1	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr11:55890333C>T	uc001nii.1	+	1	485	c.485C>T	c.(484-486)TCC>TTC	p.S162F		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	162	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					AATGTGGTTTCCATGAGCAGA	0.438													7	143					0	0	0.001984	0	0		T	55890333	T	T	55890333	3	4	193	1	0	0	0	0	1	0	0	0	11258	855	30	4	487	4	OR8H3	11	55890333	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	33527024	55890333	79116183	44	96725											
GANAB	23193	broad.mit.edu	37	chr11	62394519	62394519	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatgcccttccttaactcaCctccccttggccaggcagat	7	10	6	18	0	1	1	1	0	0	1	3	1	3	1	7	2	2	1	7	2	1	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr11:62394519C>T	uc001nub.2	-	19	2355	c.2322_splice	c.e19+1	p.E774_splice	GANAB_uc001ntz.2_Splice_Site|GANAB_uc001nua.2_Splice_Site_p.E796_splice|GANAB_uc001nuc.2_Splice_Site_p.E677_splice|GANAB_uc010rma.1_Splice_Site_p.E682_splice|GANAB_uc010rmb.1_Splice_Site_p.E660_splice	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|Golgi apparatus|melanosome	carbohydrate binding|glucan 1,3-alpha-glucosidase activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5						CCTTAACTCACCTCCCCTTGG	0.537													8	63					0	0	0.004482	0	0		T	62394519	T	T	62394519	5	4	193	1	0	0	0	0	0	0	1	0	6248	521	18	4	535	4	GANAB	11	62394519	Splice_Site	SNP	C	TCGA-FP-7735-01A-11D-2053-08	6504186	62394519	72611997	45	96726											
FAM86C	55199	broad.mit.edu	37	chr11	71498623	71498624	+	Frame_Shift_Del	DEL	AG	-	-																															ggggagcgaactcttgctgcAgagtttcaagcgccgcttcc																										TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr11:71498623_71498624delAG	uc001oqv.3	+	1	67_68	c.41_42delAG	c.(40-42)CAGfs	p.Q14fs	FAM86C_uc009ysr.2_Frame_Shift_Del_p.Q14fs|FAM86C_uc001oqw.3_Frame_Shift_Del_p.Q14fs|FAM86C_uc009yss.2_RNA|FAM86C_uc010rqq.1_RNA	NM_018172	NP_060642	Q9NVL1	FA86C_HUMAN	hypothetical protein LOC55199 isoform 1	14											0						CTCTTGCTGCAGAGTTTCAAGC	0.644													6	5	---	---	---	---						.	-	71498624	-	-	71498623	7	5	193	1	0	1	0	1	0	0	0	0	5660	188	7	0	43	0	FAM86C	11	71498623	Frame_Shift_Del	DEL	AG	TCGA-FP-7735-01A-11D-2053-08	9104104	71498623	63507893	46	96727											
HTR3A	3359	broad.mit.edu	37	chr11	113853876	113853876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctccaaatatcccgtacGtgtatattcggcatcaaggc	11	11	8	11	3	2	0	1	0	1	0	5	0	3	0	2	2	1	3	2	2	6	5	rs139646314		TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr11:113853876G>A	uc010rxb.1	+	5	660	c.427G>A	c.(427-429)GTG>ATG	p.V143M	HTR3A_uc010rxa.1_Missense_Mutation_p.V143M|HTR3A_uc009yyx.2_RNA|HTR3A_uc010rxc.1_Missense_Mutation_p.V122M	NM_213621	NP_998786	P46098	5HT3A_HUMAN	5-hydroxytryptamine (serotonin) receptor 3A	137	Extracellular (Potential).				digestion|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	serotonin binding|serotonin receptor activity|serotonin-activated cation-selective channel activity				0		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)|Chloroprocaine(DB01161)|Cisapride(DB00604)|Dolasetron(DB00757)|Granisetron(DB00889)|Mirtazapine(DB00370)|Ondansetron(DB00904)|Palonosetron(DB00377)|Procaine(DB00721)|Tubocurarine(DB01199)	TATCCCGTACGTGTATATTCG	0.532													43	55					0	0	0.01441	0	0		A	113853876	A	A	113853876	3	1	193	1	0	0	0	0	1	0	0	0	7460	1145	40	1	471	1	HTR3A	11	113853876	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	42355253	113853876	21152640	47	96728											
CLEC9A	283420	broad.mit.edu	37	chr12	10215774	10215774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttgtttaaaggaaggttccaCgctgctacaaatagagagca	14	10	10	7	1	0	1	0	0	0	1	1	3	1	2	1	2	3	5	1	2	6	6	rs149852205		TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr12:10215774C>T	uc001qxa.2	+	7	1053	c.440C>T	c.(439-441)ACG>ATG	p.T147M		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	147	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						GAAGGTTCCACGCTGCTACAA	0.348													23	61					0	0	0.004656	0	0		T	10215774	T	T	10215774	3	4	193	1	0	0	0	0	1	0	0	0	3525	536	19	1	454	1	CLEC9A	12	10215774	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08		10215774	123636121	48	96729											
ERBB3	2065	broad.mit.edu	37	chr12	56495354	56495354	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcaccctttcttcagtgggtCtcagttctgtcctgggtact	4	15	10	12	0	4	0	2	0	3	0	6	0	5	0	2	2	1	3	2	2	1	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr12:56495354C>G	uc001sjh.2	+	28	3737	c.3544C>G	c.(3544-3546)CTC>GTC	p.L1182V	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Missense_Mutation_p.L539V|ERBB3_uc010sqc.1_Missense_Mutation_p.L1123V|ERBB3_uc009zok.2_Missense_Mutation_p.L447V|ERBB3_uc001sjk.2_Missense_Mutation_p.L423V|ERBB3_uc001sjl.2_Missense_Mutation_p.L302V|PA2G4_uc001sjm.2_5'Flank|PA2G4_uc009zol.2_5'Flank|PA2G4_uc009zom.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	1182	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TTCAGTGGGTCTCAGTTCTGT	0.517													17	22					0	0	0.007413	0	0		G	56495354	G	G	56495354	3	3	193	1	0	0	0	0	1	0	0	0	5216	913	32	5	3785	5	ERBB3	12	56495354	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	46279580	56495354	77356541	49	96730											
LATS2	26524	broad.mit.edu	37	chr13	21555776	21555776	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggctccatgctgtcctgtcTgacatggctcccttcaccca	5	11	9	16	0	2	1	1	1	1	0	5	1	5	1	4	2	1	3	4	2	0	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr13:21555776T>C	uc009zzs.2	-	6	2859	c.2494A>G	c.(2494-2496)AGA>GGA	p.R832G	LATS2_uc001unr.3_Missense_Mutation_p.R832G	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	832	Protein kinase.				cell division|G1/S transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|intracellular protein kinase cascade|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity	microtubule organizing center|nucleus|spindle pole	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|central_nervous_system(3)|ovary(2)|breast(1)|pancreas(1)	10		all_cancers(29;4.74e-22)|all_epithelial(30;1.45e-18)|all_lung(29;4.69e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000781)|Epithelial(112;0.00144)|OV - Ovarian serous cystadenocarcinoma(117;0.0183)|Lung(94;0.0375)|LUSC - Lung squamous cell carcinoma(192;0.104)		CTGTCCTGTCTGACATGGCTC	0.493													9	26					0	0	0.008291	0	0		C	21555776	C	C	21555776	3	2	193	1	0	0	0	0	1	0	0	0	8663	1588	55	3	784	3	LATS2	13	21555776	Missense_Mutation	SNP	T	TCGA-FP-7735-01A-11D-2053-08		21555776	93614102	50	96731											
KIAA1704	55425	broad.mit.edu	37	chr13	45578502	45578502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagattcatcagacagcgatGaagacagtagttctttgtac	13	11	9	8	1	3	4	2	1	1	3	3	5	3	4	0	0	2	3	0	0	3	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr13:45578502G>A	uc001uzq.2	+	2	254	c.151G>A	c.(151-153)GAA>AAA	p.E51K	KIAA1704_uc010tfo.1_RNA|KIAA1704_uc001uzr.1_Missense_Mutation_p.E51K|KIAA1704_uc001uzs.2_5'UTR|KIAA1704_uc001uzt.2_5'Flank	NM_018559	NP_061029	Q8IXQ4	K1704_HUMAN	hypothetical protein LOC55425	51										pancreas(1)|skin(1)	2		Lung NSC(96;0.00143)|Prostate(109;0.0137)|Breast(139;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.133)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000313)|BRCA - Breast invasive adenocarcinoma(63;0.126)		AGACAGCGATGAAGACAGTAG	0.388													6	93					0	0	0.001168	0	0		A	45578502	A	A	45578502	3	1	193	1	0	0	0	0	1	0	0	0	8268	1291	45	4	157	4	KIAA1704	13	45578502	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	24022726	45578502	69591376	51	96732											
KIF26A	26153	broad.mit.edu	37	chr14	104642071	104642071	+	Frame_Shift_Del	DEL	G	-	-																															gtggcacggacccctcccgtGggcatgagtgggcaggtggc																										TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr14:104642071delG	uc001yos.3	+	12	2946	c.2946delG	c.(2944-2946)GTGfs	p.V982fs		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	982					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		CCCCTCCCGTGGGCATGAGTG	0.716													2	4	---	---	---	---						.	-	104642071	-	-	104642071	7	5	193	1	0	1	0	1	0	0	0	0	8310	1335	47	0	2992	0	KIF26A	14	104642071	Frame_Shift_Del	DEL	G	TCGA-FP-7735-01A-11D-2053-08		104642071	2707469	52	96733											
CDAN1	146059	broad.mit.edu	37	chr15	43021535	43021535	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccactactgcctgacacccaCgaagcgagcagtttccggag	10	6	10	15	3	0	1	0	1	0	0	1	4	1	2	4	1	4	2	4	1	2	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr15:43021535C>T	uc001zql.2	-	18	2550	c.2433G>A	c.(2431-2433)TCG>TCA	p.S811S	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Silent_p.S137S	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	811						integral to membrane	protein binding			ovary(2)	2		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)		CTGACACCCACGAAGCGAGCA	0.567													24	43					0	0	0.013726	0	0		T	43021535	T	T	43021535	2	4	193	1	0	0	0	0	0	0	0	1	3057	523	19	1		1	CDAN1	15	43021535	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08		43021535	59509857	53	96734											
ANPEP	290	broad.mit.edu	37	chr15	90347484	90347484	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgagatgggggtctacCtggtgggccagctcatgagc	6	8	15	12	1	2	2	1	1	1	1	3	3	3	2	4	4	3	1	4	4	1	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr15:90347484C>A	uc002bop.3	-	6	1471	c.1179G>T	c.(1177-1179)CAG>CAT	p.Q393H		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	393	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	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)	GGGGGTCTACCTGGTGGGCCA	0.642													12	99					4.14922e-12	4.52158e-12	0.004007	1	0		A	90347484	A	A	90347484	3	1	193	1	0	0	0	0	1	0	0	0	710	695	24	5	1788	5	ANPEP	15	90347484	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	47325949	90347484	12183908	54	96735											
EEF2K	29904	broad.mit.edu	37	chr16	22268610	22268610	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttttgagcgttccggccatCagctgatagtggtggacatc	7	12	12	10	2	1	2	1	2	0	0	3	3	2	3	2	3	2	2	2	3	1	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr16:22268610C>T	uc002dki.2	+	8	1290	c.805C>T	c.(805-807)CAG>TAG	p.Q269*	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	269	Alpha-type protein kinase.				insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		TTCCGGCCATCAGCTGATAGT	0.562													6	98					0	0	0.001984	0	0		T	22268610	T	T	22268610	4	4	193	1	0	0	0	0	0	1	0	0	4936	827	29	4	831	4	EEF2K	16	22268610	Nonsense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08		22268610	68086143	55	96736											
WSCD1	23302	broad.mit.edu	37	chr17	6021341	6021341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggaccactggcggagccGacgcaccatctgtgtcaaaa	13	5	11	12	3	2	0	1	0	1	0	2	3	2	2	3	3	1	1	3	3	3	0			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr17:6021341G>A	uc010cli.2	+	8	1587	c.1208G>A	c.(1207-1209)CGA>CAA	p.R403Q	WSCD1_uc002gcn.2_Missense_Mutation_p.R403Q|WSCD1_uc002gco.2_Missense_Mutation_p.R403Q|WSCD1_uc010clj.2_Missense_Mutation_p.R94Q	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	403						integral to membrane	sulfotransferase activity				0						TGGCGGAGCCGACGCACCATC	0.557													11	52					0	0	0.003163	0	0		A	6021341	A	A	6021341	3	1	193	1	0	0	0	0	1	0	0	0	17432	1058	37	1	1234	1	WSCD1	17	6021341	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08		6021341	75173869	56	96737											
TP53	7157	broad.mit.edu	37	chr17	7578413	7578413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	atggtgggggcagcgcctcaCaacctccgtcatgtgctgtg	6	9	14	12	2	2	0	2	0	0	0	3	0	3	0	3	3	3	2	3	3	1	0			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr17:7578413C>T	uc002gim.2	-	5	711	c.517G>A	c.(517-519)GTG>ATG	p.V173M	TP53_uc002gig.1_Missense_Mutation_p.V173M|TP53_uc002gih.2_Missense_Mutation_p.V173M|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V41M|TP53_uc010cng.1_Missense_Mutation_p.V41M|TP53_uc002gii.1_Missense_Mutation_p.V41M|TP53_uc010cnh.1_Missense_Mutation_p.V173M|TP53_uc010cni.1_Missense_Mutation_p.V173M|TP53_uc002gij.2_Missense_Mutation_p.V173M|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.V80M|TP53_uc002gio.2_Missense_Mutation_p.V41M|TP53_uc010vug.1_Missense_Mutation_p.V134M	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	173	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> M (in LFS; germline mutation and in sporadic cancers; somatic mutation).|V -> W (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|V -> E (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> A (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.V173L(54)|p.V173M(40)|p.V173A(8)|p.V173V(8)|p.0?(7)|p.V173G(6)|p.V173fs*1(4)|p.V80L(2)|p.V173fs*59(2)|p.V41L(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V172_R174delVVR(1)|p.V173fs*69(1)|p.P151_V173del23(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.V173E(1)|p.E171fs*1(1)|p.V173W(1)|p.V173fs*8(1)|p.H168fs*69(1)|p.V80M(1)|p.E171_H179delEVVRRCPHH(1)|p.S149fs*72(1)|p.V41M(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGCGCCTCACAACCTCCGTC	0.662		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			17	19					0	0	0.008871	0	0		T	7578413	T	T	7578413	3	4	193	1	0	0	0	0	1	0	0	0	16407	478	17	4	781	4	TP53	17	7578413	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	1557072	7578413	73616797	57	96738											
NDEL1	81565	broad.mit.edu	37	chr17	8349043	8349043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gattagcttccaggaagctcGggatgagctagttgaattcc	10	11	12	8	1	0	2	0	2	0	0	3	5	2	4	2	2	3	4	2	2	4	5			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr17:8349043G>A	uc002glj.2	+	3	298	c.101G>A	c.(100-102)CGG>CAG	p.R34Q	NDEL1_uc002gli.2_Missense_Mutation_p.R34Q	NM_030808	NP_110435	Q9GZM8	NDEL1_HUMAN	nudE nuclear distribution gene E homolog (A.	34	Potential.				chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|microtubule|spindle					0						CAGGAAGCTCGGGATGAGCTA	0.423													17	19					0	0	0.008871	0	0		A	8349043	A	A	8349043	3	1	193	1	0	0	0	0	1	0	0	0	10263	1116	39	1	107	1	NDEL1	17	8349043	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	770630	8349043	72846167	58	96739											
ALDH3A2	224	broad.mit.edu	37	chr17	19555900	19555900	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttctgaactgagtgaaaaTacagccaagatcttggcaaa	15	9	8	9	0	2	4	0	3	2	1	2	4	2	4	2	1	3	1	2	1	6	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr17:19555900T>A	uc002gwb.1	+	3	647	c.426T>A	c.(424-426)AAT>AAA	p.N142K	ALDH3A2_uc002gwa.1_Missense_Mutation_p.N142K|ALDH3A2_uc010cqr.1_5'UTR|ALDH3A2_uc002gwc.1_Missense_Mutation_p.N142K	NM_000382	NP_000373	P51648	AL3A2_HUMAN	aldehyde dehydrogenase 3A2 isoform 2	142	Cytoplasmic.				cellular aldehyde metabolic process|central nervous system development|epidermis development|lipid metabolic process|peripheral nervous system development	endoplasmic reticulum membrane|integral to membrane	3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(2)	2	all_cancers(12;1.39e-05)|all_epithelial(12;0.00158)|Breast(13;0.245)				NADH(DB00157)	TGAGTGAAAATACAGCCAAGA	0.333													4	88					0	0	0.000602	0	0		A	19555900	A	A	19555900	3	1	193	1	0	0	0	0	1	0	0	0	498	1403	49	5	436	5	ALDH3A2	17	19555900	Missense_Mutation	SNP	T	TCGA-FP-7735-01A-11D-2053-08	11206857	19555900	61639310	59	96740											
KPNB1	3837	broad.mit.edu	37	chr17	45757454	45757454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgaccacattgctggagatGaggatcacacagatggagta	13	9	12	7	0	1	4	1	2	0	2	1	7	1	6	1	3	1	2	1	3	1	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr17:45757454G>A	uc002ilt.1	+	20	2758	c.2422G>A	c.(2422-2424)GAG>AAG	p.E808K	KPNB1_uc010wkw.1_Missense_Mutation_p.E663K|KPNB1_uc010wkx.1_Missense_Mutation_p.E592K	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	808					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TGCTGGAGATGAGGATCACAC	0.393													64	83					0	0	0.01441	0	0		A	45757454	A	A	45757454	3	1	193	1	0	0	0	0	1	0	0	0	8451	1291	45	4	2500	4	KPNB1	17	45757454	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	26201554	45757454	35437756	60	96741											
MUC16	94025	broad.mit.edu	37	chr19	9018164	9018164	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtctgcagccagagtacaGaaggccaacactggtgttct	11	8	11	11	0	2	2	0	0	2	2	2	2	2	2	2	2	4	3	2	2	3	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:9018164G>A	uc002mkp.2	-	25	37978	c.37774C>T	c.(37774-37776)CTG>TTG	p.L12592L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12594	SEA 4.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CCAGAGTACAGAAGGCCAACA	0.537													8	120					0	0	0.004482	0	0		A	9018164	A	A	9018164	2	1	193	1	0	0	0	0	0	0	0	1	9991	933	33	4		4	MUC16	19	9018164	Silent	SNP	G	TCGA-FP-7735-01A-11D-2053-08		9018164	50110819	61	96742											
PDE4A	5141	broad.mit.edu	37	chr19	10568647	10568647	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccctcccagccgcccccgCcccctgtaccacacttacag	7	5	6	23	2	0	0	0	0	0	0	1	1	1	0	8	0	3	1	8	0	2	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:10568647C>G	uc002moj.2	+	8	1078	c.970C>G	c.(970-972)CCC>GCC	p.P324A	PDE4A_uc002mok.2_Missense_Mutation_p.P298A|PDE4A_uc002mol.2_Missense_Mutation_p.P263A|PDE4A_uc002mom.2_Missense_Mutation_p.P85A|PDE4A_uc002mon.2_Intron|PDE4A_uc002moo.2_5'Flank	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	324					signal transduction	cytosol|membrane fraction|perinuclear region of cytoplasm|ruffle membrane|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;5.8e-10)|Epithelial(33;7.58e-07)|all cancers(31;3.91e-06)		Cilostazol(DB01166)|Dipyridamole(DB00975)|Dyphylline(DB00651)|Enprofylline(DB00824)|Iloprost(DB01088)|Milrinone(DB00235)|Pentoxifylline(DB00806)|Phentolamine(DB00692)|Tadalafil(DB00820)|Theophylline(DB00277)	GCCGCCCCCGCCCCCTGTACC	0.522													3	98					0	0	0.009096	0	0		G	10568647	G	G	10568647	3	3	193	1	0	0	0	0	1	0	0	0	11658	739	26	5	1457	5	PDE4A	19	10568647	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	1550483	10568647	48560336	62	96743											
PRKCSH	5589	broad.mit.edu	37	chr19	11556203	11556203	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagaggtggcttctttacaGagcagctggctgctgccaag	9	9	13	10	0	1	2	0	0	1	2	1	2	1	2	1	3	5	5	1	3	2	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:11556203G>A	uc002mrt.2	+	8	935	c.599_splice	c.e8-1	p.E200_splice	PRKCSH_uc002mru.2_Splice_Site_p.E200_splice|PRKCSH_uc010xlz.1_Splice_Site_p.E200_splice|PRKCSH_uc010dya.2_Intron|PRKCSH_uc002mrv.1_Splice_Site_p.E200_splice|PRKCSH_uc010dyb.2_Splice_Site_p.E200_splice	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1						innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						CTTCTTTACAGAGCAGCTGGC	0.572													4	50					0	0	0.001168	0	0		A	11556203	A	A	11556203	5	1	193	1	0	0	0	0	0	0	1	0	12538	956	33	4	624	4	PRKCSH	19	11556203	Splice_Site	SNP	G	TCGA-FP-7735-01A-11D-2053-08	987556	11556203	47572780	63	96744											
CPAMD8	27151	broad.mit.edu	37	chr19	17122279	17122279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagctgatctcaccttctCgttgacaggcctcagatttg	9	12	9	11	1	3	4	2	2	2	2	5	4	3	4	2	1	1	2	2	1	1	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:17122279C>T	uc002nfb.2	-	5	654	c.622G>A	c.(622-624)GAG>AAG	p.E208K		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	161						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						CTCACCTTCTCGTTGACAGGC	0.572													4	70					0	0	0.009096	0	0		T	17122279	T	T	17122279	3	4	193	1	0	0	0	0	1	0	0	0	3798	893	31	1	5328	1	CPAMD8	19	17122279	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	5566076	17122279	42006704	64	96745											
KIRREL2	84063	broad.mit.edu	37	chr19	36349318	36349318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgactccagggtggtccCggtactggatatcagggaat	8	9	13	11	1	1	1	1	1	0	0	3	3	3	3	3	5	1	1	3	5	3	2	rs143964977		TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:36349318C>T	uc002ocb.3	+	3	432	c.220C>T	c.(220-222)CGG>TGG	p.R74W	KIRREL2_uc002obz.3_Missense_Mutation_p.R74W|KIRREL2_uc002oca.3_Missense_Mutation_p.R24W|KIRREL2_uc002occ.3_Missense_Mutation_p.R21W|KIRREL2_uc002ocd.3_Missense_Mutation_p.R71W	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	74	Ig-like C2-type 1.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGGTGGTCCCGGTACTGGAT	0.552													57	40					0	0	0.01441	0	0		T	36349318	T	T	36349318	3	4	193	1	0	0	0	0	1	0	0	0	8341	643	23	1	230	1	KIRREL2	19	36349318	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08	19227039	36349318	22779665	65	96746											
APLP1	333	broad.mit.edu	37	chr19	36370317	36370317	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acggctatgagaaccccactTaccgcttcctggaggaacga	11	7	10	13	3	0	1	0	1	0	1	1	5	1	3	4	3	3	2	4	3	4	3			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:36370317T>C	uc002oce.2	+	17	2065	c.1927T>C	c.(1927-1929)TAC>CAC	p.Y643H	APLP1_uc010xsz.1_Missense_Mutation_p.Y604H|APLP1_uc002ocf.2_Missense_Mutation_p.Y644H|APLP1_uc002ocg.2_Missense_Mutation_p.Y547H|APLP1_uc010xta.1_Missense_Mutation_p.Y637H	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	643	Clathrin-binding (Potential).|NPXY motif; contains endocytosis signal.|Cytoplasmic (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	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)			GAACCCCACTTACCGCTTCCT	0.657													8	108					0	0	0.006214	0	0		C	36370317	C	C	36370317	3	2	193	1	0	0	0	0	1	0	0	0	778	1754	61	3	1996	3	APLP1	19	36370317	Missense_Mutation	SNP	T	TCGA-FP-7735-01A-11D-2053-08	20999	36370317	22758666	66	96747											
SLC6A16	28968	broad.mit.edu	37	chr19	49797748	49797748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttgtaaagcaggttgacaGggggcttggcatcaggaggc	9	8	18	6	0	1	1	1	1	0	0	1	2	1	2	0	7	1	6	0	7	2	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:49797748G>A	uc002pmz.2	-	8	1526	c.1292C>T	c.(1291-1293)CCT>CTT	p.P431L	SLC6A16_uc002pna.2_Missense_Mutation_p.P431L	NM_014037	NP_054756	Q9GZN6	S6A16_HUMAN	solute carrier family 6, member 16	431	Extracellular (Potential).					integral to membrane|intracellular	neurotransmitter:sodium symporter activity			skin(2)|ovary(1)|kidney(1)	4		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00099)|GBM - Glioblastoma multiforme(486;0.0336)		CAGGTTGACAGGGGGCTTGGC	0.502													15	123					0	0	0.010504	0	0		A	49797748	A	A	49797748	3	1	193	1	0	0	0	0	1	0	0	0	14704	1000	35	4	938	4	SLC6A16	19	49797748	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	13427431	49797748	9331235	67	96748											
TEAD2	8463	broad.mit.edu	37	chr19	49850456	49850456	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgagaactcacccagaacttGaccaggaagaaggcatgggg	14	5	13	9	0	1	4	1	2	0	3	1	6	1	5	2	4	2	1	2	4	4	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr19:49850456G>C	uc002pnj.2	-	9	991	c.900C>G	c.(898-900)GTC>GTG	p.V300V	TEAD2_uc002png.2_Silent_p.V303V|TEAD2_uc002pnh.2_Silent_p.V304V|TEAD2_uc002pni.2_Silent_p.V303V|TEAD2_uc010yao.1_Silent_p.V172V|TEAD2_uc010emw.2_Silent_p.V303V	NM_003598	NP_003589	Q15562	TEAD2_HUMAN	TEA domain family member 2	300	Transcriptional activation (Potential).				hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3		all_lung(116;7.65e-05)|Lung NSC(112;0.000132)|all_neural(266;0.0506)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00093)|GBM - Glioblastoma multiforme(486;0.0467)		CCCAGAACTTGACCAGGAAGA	0.547													8	260					0	0	0.006214	0	0		C	49850456	C	C	49850456	2	2	193	1	0	0	0	0	0	0	0	1	15764	1277	45	5		5	TEAD2	19	49850456	Silent	SNP	G	TCGA-FP-7735-01A-11D-2053-08	52708	49850456	9278527	68	96749											
PRIC285	85441	broad.mit.edu	37	chr20	62203721	62203721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaggccacccagctgctcGgcctcccacacagccatctc	7	6	9	19	1	1	0	0	0	1	0	4	1	2	1	5	3	3	2	5	3	0	0			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr20:62203721G>A	uc002yfm.2	-	2	910	c.18C>T	c.(16-18)GCC>GCT	p.A6A	PRIC285_uc002yfn.2_Silent_p.A6A	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	6					cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CCAGCTGCTCGGCCTCCCACA	0.731													2	2					0	0	0.004672	0	0		A	62203721	A	A	62203721	2	1	193	1	0	0	0	0	0	0	0	1	12507	1103	39	1		1	PRIC285	20	62203721	Silent	SNP	G	TCGA-FP-7735-01A-11D-2053-08		62203721	821799	69	96750											
UMODL1	89766	broad.mit.edu	37	chr21	43531059	43531059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aacggtcccaggtcttggcaCgggaacagcagccctcggcc	8	5	13	15	3	1	0	0	0	1	0	3	1	2	1	3	5	4	2	3	5	2	1			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr21:43531059C>T	uc002zaf.1	+	11	1727	c.1727C>T	c.(1726-1728)ACG>ATG	p.T576M	UMODL1_uc002zad.1_Missense_Mutation_p.T504M|UMODL1_uc002zae.1_Missense_Mutation_p.T504M|UMODL1_uc002zag.1_Missense_Mutation_p.T576M|C21orf128_uc002zak.2_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	576	Extracellular (Potential).					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						GGTCTTGGCACGGGAACAGCA	0.657													6	10					0	0	0.00308	0	0		T	43531059	T	T	43531059	3	4	193	1	0	0	0	0	1	0	0	0	17006	536	19	1	1769	1	UMODL1	21	43531059	Missense_Mutation	SNP	C	TCGA-FP-7735-01A-11D-2053-08		43531059	4598836	70	96751											
KCTD17	79734	broad.mit.edu	37	chr22	37456885	37456887	+	In_Frame_Del	DEL	AGC	-	-																															cacggaggagcagctggaggAgcagcagcagcaggaggagg																										TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr22:37456885_37456887delAGC	uc010gxb.2	+	6	657_659	c.635_637delAGC	c.(634-639)GAGCAG>GAG	p.Q216del	KCTD17_uc010gxa.1_In_Frame_Del_p.Q216del|KCTD17_uc011amv.1_In_Frame_Del_p.Q223del|KCTD17_uc010gxc.2_Intron	NM_024681	NP_078957	Q8N5Z5	KCD17_HUMAN	potassium channel tetramerisation domain	223	Potential.					voltage-gated potassium channel complex	identical protein binding|voltage-gated potassium channel activity				0						cagctggaggagcagcagcagca	0.433													2	4	---	---	---	---						.	-	37456887	-	-	37456885	7	5	193	1	0	1	0	1	0	0	0	0	8120	304	11	0	678	0	KCTD17	22	37456885	In_Frame_Del	DEL	AGC	TCGA-FP-7735-01A-11D-2053-08		37456885	13847681	71	96752											
LGALS1	3956	broad.mit.edu	37	chr22	38074508	38074508	+	Silent	SNP	C	T	T	0	0	0	1	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	agcttcgtgctgaacctgggCaaagacagcaacaacctgtg	12	7	11	11	1	0	2	0	1	0	1	1	2	0	2	2	1	6	4	2	1	4	1	rs111593545		TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chr22:38074508C>T	uc003atn.2	+	3	205	c.108C>T	c.(106-108)GGC>GGT	p.G36G		NM_002305	NP_002296	P09382	LEG1_HUMAN	galectin-1	36	Galectin.				apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of apoptosis	cytoplasm|extracellular space|proteinaceous extracellular matrix	galactoside binding|signal transducer activity				0	Melanoma(58;0.0574)					TGAACCTGGGCAAAGACAGCA	0.622													28	21					0	0	0.003271	0	0		T	38074508	T	T	38074508	2	4	193	1	0	0	0	0	0	0	0	1	8754	697	25	2		2	LGALS1	22	38074508	Silent	SNP	C	TCGA-FP-7735-01A-11D-2053-08	617623	38074508	13230058	72	96753											
SAGE1	55511	broad.mit.edu	37	chrX	134986673	134986673	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatttgtgaagagaggatAaataacggccaaccagtagc	16	7	11	7	1	0	2	0	1	0	1	0	4	0	3	2	2	4	2	2	2	6	4			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chrX:134986673A>T	uc004ezh.2	+	4	425	c.258A>T	c.(256-258)ATA>ATT	p.I86I	SAGE1_uc010nry.1_Intron|SAGE1_uc011mvv.1_Silent_p.I86I	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	86										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AAGAGAGGATAAATAACGGCC	0.448													79	47					0	0	0.01441	0	0		T	134986673	T	T	134986673	2	4	193	1	0	0	0	0	0	0	0	1	13834	352	13	5		5	SAGE1	23	134986673	Silent	SNP	A	TCGA-FP-7735-01A-11D-2053-08		134986673	20283887	73	96754											
MAGEC1	9947	broad.mit.edu	37	chrX	140994453	140994453	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tccttctcctctactttattGagtattttacagagttctcc	7	19	4	11	0	3	2	0	1	3	1	6	2	4	2	3	0	2	2	3	0	4	9			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chrX:140994453G>C	uc004fbt.2	+	4	1549	c.1263G>C	c.(1261-1263)TTG>TTC	p.L421F	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	421							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CTACTTTATTGAGTATTTTAC	0.463										HNSCC(15;0.026)			3	113					0	0	0.009096	0	0		C	140994453	C	C	140994453	3	2	193	1	0	0	0	0	1	0	0	0	9198	1281	45	5	1269	5	MAGEC1	23	140994453	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	6007780	140994453	14276107	74	96755											
L1CAM	3897	broad.mit.edu	37	chrX	153134082	153134082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccaggcagaagtagcGtccggtgtcattggcctgga	8	7	16	10	2	1	1	1	0	0	1	2	2	2	2	3	5	2	3	3	5	2	2			TCGA-FP-7735-01A-11D-2053-08	TCGA-FP-7735-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	fe717798-d698-49c2-bbc9-e0c5679505c1	59959e21-07c4-44c6-ab30-17f34d848641	g.chrX:153134082G>A	uc004fjb.2	-	12	1588	c.1480C>T	c.(1480-1482)CGC>TGC	p.R494C	L1CAM_uc004fjc.2_Missense_Mutation_p.R494C|L1CAM_uc010nuo.2_Missense_Mutation_p.R489C|L1CAM_uc004fjd.1_Missense_Mutation_p.R308C	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	494	Extracellular (Potential).|Ig-like C2-type 5.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	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)					CAGAAGTAGCGTCCGGTGTCA	0.557													5	41					0	0	0.000602	0	0		A	153134082	A	A	153134082	3	1	193	1	0	0	0	0	1	0	0	0	8604	1145	40	1	2361	1	L1CAM	23	153134082	Missense_Mutation	SNP	G	TCGA-FP-7735-01A-11D-2053-08	12139629	153134082	2136478	75	96756											
NPHP4	261734	broad.mit.edu	37	chr1	5925294	5925294	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcagggagtggaggtaGacctgccacgtctgtgtggg	6	8	18	9	2	1	1	0	0	1	1	1	3	1	3	2	4	2	3	2	4	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:5925294G>T	uc001alq.1	-	27	3950	c.3684C>A	c.(3682-3684)GTC>GTA	p.V1228V	NPHP4_uc001alr.1_3'UTR	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	1228					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	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)		AGTGGAGGTAGACCTGCCACG	0.647													5	16					0.000602214	0.000617176	0.014758	1	0		T	5925294	T	T	5925294	2	4	194	1	0	0	0	0	0	0	0	1	10600	929	33	5		5	NPHP4	1	5925294	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08		5925294	243325327	1	96757											
PRDM2	7799	broad.mit.edu	37	chr1	14057566	14057566	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgtgctgcgaggacttccGgaggaagtgaggcttttccc	7	10	14	10	2	0	1	0	1	0	0	2	5	2	4	2	4	2	2	2	4	1	3	rs146413934		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:14057566G>A	uc001avi.2	+	3	937	c.81G>A	c.(79-81)CCG>CCA	p.P27P	PRDM2_uc001avg.2_Silent_p.P27P|PRDM2_uc001avh.2_Silent_p.P27P|PRDM2_uc001avj.2_RNA	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	27	SET.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GAGGACTTCCGGAGGAAGTGA	0.562													43	101					0	0	0.013114	0	0		A	14057566	A	A	14057566	2	1	194	1	0	0	0	0	0	0	0	1	12480	1103	39	1		1	PRDM2	1	14057566	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	8132272	14057566	235193055	2	96758											
CLIC4	25932	broad.mit.edu	37	chr1	25167282	25167282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtggtggccaaaaaatatCgcaactttgatattccaaaa	16	10	8	7	1	0	1	0	1	0	0	2	1	1	1	2	3	1	1	2	3	8	4	rs145958058	byFrequency	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:25167282C>T	uc001bjo.2	+	6	901	c.616C>T	c.(616-618)CGC>TGC	p.R206C	CLIC4_uc001bjn.2_RNA|CLIC4_uc001bjp.1_Missense_Mutation_p.R186C	NM_013943	NP_039234	Q9Y696	CLIC4_HUMAN	chloride intracellular channel 4	206	GST C-terminal.				cellular response to calcium ion|establishment or maintenance of apical/basal cell polarity|keratinocyte differentiation|negative regulation of cell migration|regulation of cytoskeleton organization	actin cytoskeleton|apical part of cell|cell surface|cell-cell junction|centrosome|chloride channel complex|cytoplasmic vesicle membrane|cytosol|microvillus|midbody|mitochondrion|nuclear matrix|perinuclear region of cytoplasm|soluble fraction	voltage-gated chloride channel activity				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000778)|all_lung(284;0.00106)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0479)|OV - Ovarian serous cystadenocarcinoma(117;1.06e-24)|Colorectal(126;1.03e-07)|COAD - Colon adenocarcinoma(152;4.93e-06)|STAD - Stomach adenocarcinoma(196;0.000418)|GBM - Glioblastoma multiforme(114;0.000451)|BRCA - Breast invasive adenocarcinoma(304;0.00215)|KIRC - Kidney renal clear cell carcinoma(1967;0.00216)|READ - Rectum adenocarcinoma(331;0.0693)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.18)		CAAAAAATATCGCAACTTTGA	0.378													46	68					0	0	0.01441	0	0		T	25167282	T	T	25167282	3	4	194	1	0	0	0	0	1	0	0	0	3531	884	31	1	638	1	CLIC4	1	25167282	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	11109716	25167282	224083339	3	96759											
PHACTR4	65979	broad.mit.edu	37	chr1	28800582	28800582	+	Missense_Mutation	SNP	A	T	T	1	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	agctcattcgttgctttttgAaaacagtgacagcttttctg	9	16	8	8	1	2	2	1	2	1	0	3	2	2	2	0	0	4	4	0	0	2	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:28800582A>T	uc001bpw.2	+	7	1622	c.1340A>T	c.(1339-1341)GAA>GTA	p.E447V	PHACTR4_uc001bpv.1_RNA|PHACTR4_uc001bpx.2_Missense_Mutation_p.E431V|PHACTR4_uc001bpy.2_Missense_Mutation_p.E457V	NM_001048183	NP_001041648	Q8IZ21	PHAR4_HUMAN	phosphatase and actin regulator 4 isoform 1	447							actin binding|protein phosphatase inhibitor activity				0		Colorectal(325;3.46e-05)|Lung NSC(340;4.37e-05)|all_lung(284;7.01e-05)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)		OV - Ovarian serous cystadenocarcinoma(117;1.35e-21)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00299)|BRCA - Breast invasive adenocarcinoma(304;0.0144)|READ - Rectum adenocarcinoma(331;0.0649)		TTGCTTTTTGAAAACAGTGAC	0.488													53	97					0	0	0.01441	0	0		T	28800582	T	T	28800582	3	4	194	1	0	0	0	0	1	0	0	0	11831	246	9	5	1412	5	PHACTR4	1	28800582	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	3633300	28800582	220450039	4	96760											
SFRS4	6429	broad.mit.edu	37	chr1	29481422	29481422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcctgcctgacgcatataatCctgaagaaaaaaaaaagtgt	17	9	7	8	1	0	3	0	2	0	1	2	3	2	3	3	0	1	1	3	0	8	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:29481422C>T	uc001bro.2	-	4	737	c.364G>A	c.(364-366)GAT>AAT	p.D122N	SFRS4_uc010ofy.1_Intron|SFRS4_uc009vtp.2_RNA	NM_005626	NP_005617	Q08170	SRSF4_HUMAN	splicing factor, arginine/serine-rich 4	122	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)		CGCATATAATCCTGAAGAAAA	0.348													26	17					0	0	0.004656	0	0		T	29481422	T	T	29481422	3	4	194	1	0	0	0	0	1	0	0	0	14204	869	30	4	1132	4	SFRS4	1	29481422	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	680840	29481422	219769199	5	96761											
GRIK3	2899	broad.mit.edu	37	chr1	37291214	37291214	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	attgccttacctggcgatgaCgaagaggacacagctgaccc	11	7	11	12	2	0	3	0	2	0	1	0	6	0	4	3	2	3	1	3	2	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:37291214C>A	uc001caz.2	-	11	1879	c.1744G>T	c.(1744-1746)GTC>TTC	p.V582F	GRIK3_uc001cba.1_Missense_Mutation_p.V582F	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	582	Helical; (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CTGGCGATGACGAAGAGGACA	0.577													9	25					3.09899e-07	3.29892e-07	0.004482	1	0		A	37291214	A	A	37291214	3	1	194	1	0	0	0	0	1	0	0	0	6791	536	19	5	1039	5	GRIK3	1	37291214	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7809792	37291214	211959407	6	96762											
MTF1	4520	broad.mit.edu	37	chr1	38289411	38289411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggatcttcctgaattgccGtatcatctgaattctggaac	10	13	9	9	1	4	2	1	2	3	0	5	5	5	4	2	2	2	1	2	2	4	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:38289411G>A	uc001cce.1	-	8	1283	c.1142C>T	c.(1141-1143)ACG>ATG	p.T381M	MTF1_uc009vvj.1_Missense_Mutation_p.T72M	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1	381						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				CTGAATTGCCGTATCATCTGA	0.453													16	48					0	0	0.006122	0	0		A	38289411	A	A	38289411	3	1	194	1	0	0	0	0	1	0	0	0	9940	1145	40	1	1135	1	MTF1	1	38289411	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	998197	38289411	210961210	7	96763											
TIE1	7075	broad.mit.edu	37	chr1	43770806	43770806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgctggggcgcggcgcacgCgcgtcatctacgtgcacaac	6	6	15	14	7	2	0	1	0	1	0	2	0	2	0	0	3	4	3	0	3	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:43770806C>T	uc001ciu.2	+	2	422	c.343C>T	c.(343-345)CGC>TGC	p.R115C	TIE1_uc010okd.1_Missense_Mutation_p.R115C|TIE1_uc010oke.1_Missense_Mutation_p.R70C|TIE1_uc009vwq.2_Missense_Mutation_p.R115C|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'Flank|TIE1_uc010oka.1_Missense_Mutation_p.R115C|TIE1_uc010okb.1_Missense_Mutation_p.R115C|TIE1_uc010okc.1_Missense_Mutation_p.R115C	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	115	Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCGGCGCACGCGCGTCATCTA	0.701													13	19					0	0	0.006122	0	0		T	43770806	T	T	43770806	3	4	194	1	0	0	0	0	1	0	0	0	15918	768	27	1	349	1	TIE1	1	43770806	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	5481395	43770806	205479815	8	96764											
BEND5	79656	broad.mit.edu	37	chr1	49224580	49224580	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggcactcaccgctgccaAgccgcaggagcagcacgtcc	8	4	13	16	3	1	0	1	0	0	0	2	1	2	1	4	3	4	5	4	3	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:49224580A>C	uc001crx.3	-	3	781	c.737T>G	c.(736-738)CTT>CGT	p.L246R	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_Missense_Mutation_p.L77R	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	246										skin(1)	1						ACCGCTGCCAAGCCGCAGGAG	0.577													44	24					0	0	0.013114	0	0		C	49224580	C	C	49224580	3	2	194	1	0	0	0	0	1	0	0	0	1402	72	3	5	544	5	BEND5	1	49224580	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	5453774	49224580	200026041	9	96765											
ELAVL4	1996	broad.mit.edu	37	chr1	50610646	50610646	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tagataattagcaccatggaGcctcaggtgtcaaatggtcc	12	10	10	9	0	2	1	2	0	0	1	3	2	3	2	3	3	2	1	3	3	4	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:50610646G>T	uc001csb.2	+	2	295	c.27G>T	c.(25-27)GAG>GAT	p.E9D	ELAVL4_uc001cry.3_Missense_Mutation_p.E12D|ELAVL4_uc001crz.3_Missense_Mutation_p.E9D|ELAVL4_uc001csa.3_Missense_Mutation_p.E26D|ELAVL4_uc001csc.3_Missense_Mutation_p.E9D|ELAVL4_uc009vyu.2_Missense_Mutation_p.E14D|ELAVL4_uc010omz.1_Missense_Mutation_p.E14D	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	9					mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						GCACCATGGAGCCTCAGGTGT	0.373													10	30					1.61879e-10	1.82321e-10	0.013537	1	0		T	50610646	T	T	50610646	3	4	194	1	0	0	0	0	1	0	0	0	5060	962	34	5	132	5	ELAVL4	1	50610646	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1386066	50610646	198639975	10	96766											
ELAVL4	1996	broad.mit.edu	37	chr1	50642827	50642827	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	tgcagagaaagccatcaacaCtttaaatggactcagactcc	15	8	7	11	0	2	2	2	0	0	2	3	4	3	3	2	1	3	1	2	1	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:50642827C>G	uc001csb.2	+	3	585	c.317C>G	c.(316-318)ACT>AGT	p.T106S	ELAVL4_uc001cry.3_Missense_Mutation_p.T109S|ELAVL4_uc001crz.3_Missense_Mutation_p.T106S|ELAVL4_uc001csa.3_Missense_Mutation_p.T123S|ELAVL4_uc001csc.3_Missense_Mutation_p.T106S|ELAVL4_uc009vyu.2_Missense_Mutation_p.T111S|ELAVL4_uc010omz.1_Missense_Mutation_p.T111S	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	106	RRM 1.				mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						GCCATCAACACTTTAAATGGA	0.358													28	36					0	0	0.013726	0	0		G	50642827	G	G	50642827	3	3	194	1	0	0	0	0	1	0	0	0	5060	565	20	5	426	5	ELAVL4	1	50642827	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	32181	50642827	198607794	11	96767											
C1orf173	127254	broad.mit.edu	37	chr1	75097440	75097440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catttggagcagtggttggaCgaaatcttctccttctccat	8	14	9	10	1	3	0	0	0	3	0	5	3	3	2	2	3	1	2	2	3	1	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:75097440C>T	uc001dgg.2	-	7	995	c.776G>A	c.(775-777)CGT>CAT	p.R259H	C1orf173_uc001dgi.3_Missense_Mutation_p.R53H	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	259	Poly-Arg.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						AGTGGTTGGACGAAATCTTCT	0.363													10	49					0	0	0.013537	0	0		T	75097440	T	T	75097440	3	4	194	1	0	0	0	0	1	0	0	0	2017	536	19	1	3848	1	C1orf173	1	75097440	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	24454613	75097440	174153181	12	96768											
DENND2C	163259	broad.mit.edu	37	chr1	115168270	115168270	+	Silent	SNP	T	G	G	0	1	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	gaacatacccagttggattcTgattcatttttaaagaagtg	13	14	8	6	0	2	2	1	1	1	1	2	4	2	3	1	1	2	1	1	1	5	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:115168270T>G	uc001efd.1	-	4	1038	c.336A>C	c.(334-336)TCA>TCC	p.S112S	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Silent_p.S112S	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	112										skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		AGTTGGATTCTGATTCATTTT	0.343													16	24					0	0	0.004007	0	0		G	115168270	G	G	115168270	2	3	194	1	0	0	0	0	0	0	0	1	4436	1567	55	5		5	DENND2C	1	115168270	Silent	SNP	T	TCGA-FP-7829-01A-11D-2053-08	40070830	115168270	134082351	13	96769											
HFE2	148738	broad.mit.edu	37	chr1	145415460	145415460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgctctgcactcggcgcacCgcccgcacctgccgcgggga	4	4	14	19	7	1	0	0	0	1	0	2	1	1	1	4	3	2	4	4	3	0	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:145415460C>T	uc001eni.2	+	3	604	c.279C>T	c.(277-279)ACC>ACT	p.T93T	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Intron|HFE2_uc001enk.2_5'UTR|HFE2_uc001enl.2_Intron	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	93					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTCGGCGCACCGCCCGCACCT	0.692													42	50					0	0	0.013114	0	0		T	145415460	T	T	145415460	2	4	194	1	0	0	0	0	0	0	0	1	7098	639	23	1		1	HFE2	1	145415460	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	30247190	145415460	103835161	14	96770											
FLG	2312	broad.mit.edu	37	chr1	152282081	152282081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagaggaaagaccctgaacGtccagacctttcccctgact	11	8	9	13	1	0	5	0	2	0	3	2	6	2	6	5	1	1	1	5	1	3	2	rs149721675		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:152282081G>A	uc001ezu.1	-	3	5317	c.5281C>T	c.(5281-5283)CGT>TGT	p.R1761C		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1761	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACCCTGAACGTCCAGACCTT	0.597									Ichthyosis				106	240					0	0	0.01441	0	0		A	152282081	A	A	152282081	3	1	194	1	0	0	0	0	1	0	0	0	5936	1145	40	1	6908	1	FLG	1	152282081	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	6866621	152282081	96968540	15	96771											
ASH1L	55870	broad.mit.edu	37	chr1	155307502	155307502	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aaagtacgccttcgcagtttCctgcctgatccttcctccag	7	12	7	15	2	0	1	0	1	0	0	5	1	4	1	6	0	2	3	6	0	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:155307502C>T	uc009wqq.2	-	28	9339	c.8859G>A	c.(8857-8859)AGG>AGA	p.R2953R	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Silent_p.R2948R	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2953					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TTCGCAGTTTCCTGCCTGATC	0.453													30	114					0	0	0.006999	0	0		T	155307502	T	T	155307502	2	4	194	1	0	0	0	0	0	0	0	1	1042	854	30	4		4	ASH1L	1	155307502	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	3025421	155307502	93943119	16	96772											
IQGAP3	128239	broad.mit.edu	37	chr1	156521536	156521536	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgccacaaggaggagatgGtaccgaggggcgacagggag	11	3	19	8	2	0	1	0	0	0	1	0	6	0	3	2	6	2	2	2	6	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:156521536G>A	uc001fpf.2	-	15	1770	c.1695C>T	c.(1693-1695)TAC>TAT	p.Y565Y	IQGAP3_uc009wsb.1_Silent_p.Y522Y	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	565					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GGAGGAGATGGTACCGAGGGG	0.567													24	17					0	0	0.01892	0	0		A	156521536	A	A	156521536	2	1	194	1	0	0	0	0	0	0	0	1	7832	1256	44	4		4	IQGAP3	1	156521536	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1214034	156521536	92729085	17	96773											
HAPLN2	60484	broad.mit.edu	37	chr1	156593630	156593630	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcccccactacctcctgccCcccatccacgaggtcattca	7	7	6	21	1	2	0	2	0	0	0	4	1	4	0	8	2	2	0	8	2	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:156593630C>T	uc001fpn.1	+	4	524	c.117C>T	c.(115-117)CCC>CCT	p.P39P	HAPLN2_uc010phq.1_Silent_p.P39P	NM_021817	NP_068589	Q9GZV7	HPLN2_HUMAN	brain link protein-1 precursor	39	Ig-like V-type.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					ACCTCCTGCCCCCCATCCACG	0.682													7	14					0	0	0.00308	0	0		T	156593630	T	T	156593630	2	4	194	1	0	0	0	0	0	0	0	1	6971	610	22	4		4	HAPLN2	1	156593630	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	72094	156593630	92656991	18	96774											
NES	10763	broad.mit.edu	37	chr1	156646946	156646946	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggagccccccgagctccgcGctgagcagctcattctgctc	5	7	11	18	4	2	1	1	1	1	0	4	3	3	2	4	1	5	5	4	1	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:156646946G>A	uc001fpq.2	-	1	244	c.111C>T	c.(109-111)AGC>AGT	p.S37S		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	37	Coil 1A.|Rod.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CGAGCTCCGCGCTGAGCAGCT	0.697													10	14					0	0	0.006214	0	0		A	156646946	A	A	156646946	2	1	194	1	0	0	0	0	0	0	0	1	10356	1078	38	1		1	NES	1	156646946	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	53316	156646946	92603675	19	96775											
ETV3L	440695	broad.mit.edu	37	chr1	157069094	157069094	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccttctgcagcagctccagGatgaagtgccacagctggat	9	9	11	12	0	1	1	0	1	1	0	3	3	3	3	3	2	5	4	3	2	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:157069094G>A	uc001fqq.1	-	2	420	c.135C>T	c.(133-135)ATC>ATT	p.I45I		NM_001004341	NP_001004341	Q6ZN32	ETV3L_HUMAN	ets variant 3-like	45	ETS.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Hepatocellular(266;0.158)	Prostate(1639;0.184)				GCAGCTCCAGGATGAAGTGCC	0.612													30	21					0	0	0.007835	0	0		A	157069094	A	A	157069094	2	1	194	1	0	0	0	0	0	0	0	1	5288	1164	41	4		4	ETV3L	1	157069094	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	422148	157069094	92181527	20	96776											
OR6Y1	391112	broad.mit.edu	37	chr1	158517014	158517014	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcatggttcctcagacagtaAatgatggggttgaggagtgg	10	11	15	5	0	2	3	2	2	0	1	3	4	3	4	1	5	0	3	1	5	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:158517014A>C	uc010pil.1	-	1	882	c.882T>G	c.(880-882)ATT>ATG	p.I294M		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	294	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TCAGACAGTAAATGATGGGGT	0.453													27	92					0	0	0.007291	0	0		C	158517014	C	C	158517014	3	2	194	1	0	0	0	0	1	0	0	0	11232	10	1	5	97	5	OR6Y1	1	158517014	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	1447920	158517014	90733607	21	96777											
OR6K3	391114	broad.mit.edu	37	chr1	158687639	158687639	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtcattgagatggccttCttttcactgatgaggttgga	8	14	11	8	0	3	3	2	3	1	1	3	5	3	4	2	3	0	1	2	3	0	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:158687639C>A	uc010pip.1	-	1	315	c.315G>T	c.(313-315)AAG>AAT	p.K105N		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	105	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					AGATGGCCTTCTTTTCACTGA	0.443													105	67					8.54645e-47	1.08474e-46	0.01441	1	0		A	158687639	A	A	158687639	3	1	194	1	0	0	0	0	1	0	0	0	11222	912	32	5	682	5	OR6K3	1	158687639	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	170625	158687639	90562982	22	96778											
CD247	919	broad.mit.edu	37	chr1	167400933	167400933	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggctgttagcgagggggcagGgcctgcatgtgaagggcgtc	6	7	20	8	2	0	1	0	1	0	0	1	2	0	1	1	5	2	4	1	5	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:167400933G>A	uc001gei.3	-	8	625	c.480C>T	c.(478-480)GCC>GCT	p.A160A	CD247_uc001gej.3_Silent_p.A159A	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor	160	Cytoplasmic (Potential).				interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)			GAGGGGGCAGGGCCTGCATGT	0.547													23	119					0	0	0.004656	0	0		A	167400933	A	A	167400933	2	1	194	1	0	0	0	0	0	0	0	1	2991	1219	43	4		4	CD247	1	167400933	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	8713294	167400933	81849688	23	96779											
TNN	63923	broad.mit.edu	37	chr1	175086196	175086196	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgctacacctctgccaaggaCggagagaccagggaggttcc	10	5	13	13	2	1	1	0	0	1	1	2	5	2	4	4	4	2	2	4	4	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:175086196C>T	uc001gkl.1	+	10	2354	c.2241C>T	c.(2239-2241)GAC>GAT	p.D747D		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	747	Fibronectin type-III 6.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CTGCCAAGGACGGAGAGACCA	0.637													52	64					0	0	0.01441	0	0		T	175086196	T	T	175086196	2	4	194	1	0	0	0	0	0	0	0	1	16348	535	19	1		1	TNN	1	175086196	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7685263	175086196	74164425	24	96780											
FAM20B	9917	broad.mit.edu	37	chr1	179019498	179019498	+	Silent	SNP	C	T	T	0	0	0	1	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	gtagcagcctttcacttggaCaggtgcgtatgatcacagca	10	10	11	10	1	2	1	2	1	0	0	2	2	2	2	1	2	4	4	1	2	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:179019498C>T	uc001gmc.2	+	3	755	c.462C>T	c.(460-462)GAC>GAT	p.D154D		NM_014864	NP_055679	O75063	XYLK_HUMAN	hypothetical protein LOC9917 precursor	154	Lumenal (Potential).					Golgi membrane|integral to membrane	ATP binding|kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(3)	3						TTCACTTGGACAGGTGCGTAT	0.458													74	53					0	0	0.01441	0	0		T	179019498	T	T	179019498	2	4	194	1	0	0	0	0	0	0	0	1	5549	477	17	4		4	FAM20B	1	179019498	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	3933302	179019498	70231123	25	96781											
ASPM	259266	broad.mit.edu	37	chr1	197093437	197093437	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaatttcttcctttaattGatctaagttaagggaaatat	13	16	7	5	0	2	1	0	1	2	0	3	2	3	2	1	2	0	2	1	2	6	8			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:197093437G>A	uc001gtu.2	-	13	3450	c.3193C>T	c.(3193-3195)CAA>TAA	p.Q1065*	ASPM_uc001gtv.2_Nonsense_Mutation_p.Q1065*|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1065	Potential.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TCCTTTAATTGATCTAAGTTA	0.264													5	10					0	0	0.001168	0	0		A	197093437	A	A	197093437	4	1	194	1	0	0	0	0	0	1	0	0	1057	1299	45	4	7304	4	ASPM	1	197093437	Nonsense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	18073939	197093437	52157184	26	96782											
KIF21B	23046	broad.mit.edu	37	chr1	200956132	200956132	+	Silent	SNP	G	T	T	0	0	1	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	tcccatccttacaaagtgctGccccgggtaggcagactgac	9	8	10	14	1	0	2	0	1	0	1	2	2	2	2	4	2	3	3	4	2	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:200956132G>T	uc001gvs.1	-	25	3923	c.3606C>A	c.(3604-3606)GGC>GGA	p.G1202G	KIF21B_uc001gvr.1_Silent_p.G1202G|KIF21B_uc009wzl.1_Silent_p.G1202G|KIF21B_uc010ppn.1_Silent_p.G1202G	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	1202					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						ACAAAGTGCTGCCCCGGGTAG	0.592													33	77					9.62906e-15	1.14714e-14	0.00623	1	0		T	200956132	T	T	200956132	2	4	194	1	0	0	0	0	0	0	0	1	8305	1306	46	5		5	KIF21B	1	200956132	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3862695	200956132	48294489	27	96783											
PPP1R12B	4660	broad.mit.edu	37	chr1	202318221	202318221	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagaaagcttctggcaagagGtgctgatatcaacacggtca	13	8	12	8	1	3	3	2	1	1	2	3	4	3	3	0	3	3	3	0	3	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:202318221G>T	uc001gya.1	+	1	386	c.242G>T	c.(241-243)GGT>GTT	p.G81V	PPP1R12B_uc001gxy.2_Missense_Mutation_p.G81V|PPP1R12B_uc009xad.1_5'UTR|PPP1R12B_uc009xae.1_Missense_Mutation_p.G81V|PPP1R12B_uc001gxz.1_Missense_Mutation_p.G81V	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	81	ANK 1.				regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			CTGGCAAGAGGTGCTGATATC	0.597													10	27					6.40141e-05	6.64297e-05	0.010729	1	0		T	202318221	T	T	202318221	3	4	194	1	0	0	0	0	1	0	0	0	12377	1261	44	5	244	5	PPP1R12B	1	202318221	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1362089	202318221	46932400	28	96784											
SUSD4	55061	broad.mit.edu	37	chr1	223396725	223396725	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagactttggagcagctcaGaagagcctgagacgctgtca	12	7	12	10	1	2	4	2	1	0	4	2	6	2	5	1	1	3	3	1	1	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:223396725G>T	uc001hnx.2	-	7	1944	c.1310C>A	c.(1309-1311)TCT>TAT	p.S437Y	SUSD4_uc001hny.3_Missense_Mutation_p.S437Y|SUSD4_uc010puw.1_Missense_Mutation_p.S277Y	NM_017982	NP_060452	Q5VX71	SUSD4_HUMAN	sushi domain containing 4 isoform a	437	Cytoplasmic (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)		GAGCAGCTCAGAAGAGCCTGA	0.607													15	36					1.5739e-10	1.78483e-10	0.004007	1	0		T	223396725	T	T	223396725	3	4	194	1	0	0	0	0	1	0	0	0	15435	942	33	5	170	5	SUSD4	1	223396725	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	21078504	223396725	25853896	29	96785											
ZP4	57829	broad.mit.edu	37	chr1	238048755	238048755	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgggtgttgcccaacactGttgtaggagcagccccaggt	7	9	14	11	0	0	0	0	0	0	0	0	1	0	1	3	3	4	5	3	3	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:238048755G>A	uc001hym.2	-	8	1096	c.1096C>T	c.(1096-1098)CAG>TAG	p.Q366*	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	366	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			GCCCAACACTGTTGTAGGAGC	0.537													22	67					0	0	0.014323	0	0		A	238048755	A	A	238048755	4	1	194	1	0	0	0	0	0	1	0	0	18243	1386	48	4	546	4	ZP4	1	238048755	Nonsense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	14652030	238048755	11201866	30	96786											
FMN2	56776	broad.mit.edu	37	chr1	240256749	240256749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaggatcaagaggcggcCggaaccctccctgagccgag	9	3	13	16	3	1	2	1	1	0	1	2	5	2	4	6	4	2	0	6	4	2	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:240256749C>T	uc010pyd.1	+	1	1565	c.1340C>T	c.(1339-1341)CCG>CTG	p.P447L	FMN2_uc010pye.1_Missense_Mutation_p.P447L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	447					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			AAGAGGCGGCCGGAACCCTCC	0.687													16	58					0	0	0.004007	0	0		T	240256749	T	T	240256749	3	4	194	1	0	0	0	0	1	0	0	0	5964	652	23	1	1342	1	FMN2	1	240256749	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	2207994	240256749	8993872	31	96787											
CEP170	9859	broad.mit.edu	37	chr1	243385112	243385112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgttgcttatccacactacGagactgaaaggaatgttgtc	11	12	10	8	1	0	2	0	1	0	1	2	4	1	3	1	1	2	3	1	1	4	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:243385112G>A	uc001hzs.2	-	3	517	c.109C>T	c.(109-111)CGT>TGT	p.R37C	CEP170_uc001hzt.2_Missense_Mutation_p.R37C|CEP170_uc001hzu.2_Missense_Mutation_p.R37C	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	37	FHA.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			TCCACACTACGAGACTGAAAG	0.368													8	16					0	0	0.008291	0	0		A	243385112	A	A	243385112	3	1	194	1	0	0	0	0	1	0	0	0	3253	1058	37	1	4747	1	CEP170	1	243385112	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3128363	243385112	5865509	32	96788											
OR2C3	81472	broad.mit.edu	37	chr1	247695102	247695102	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaagaacaggtgttgaatgCctttctccgcccttctgctg	7	12	11	11	1	2	2	0	1	2	1	3	3	2	3	3	2	3	2	3	2	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:247695102C>A	uc009xgy.2	-	2	1074	c.712G>T	c.(712-714)GCA>TCA	p.A238S	C1orf150_uc009xgw.2_Intron|C1orf150_uc001ida.3_Intron|C1orf150_uc001idb.3_Intron|C1orf150_uc009xgx.2_Intron|LOC148824_uc001idd.2_5'Flank	NM_198074	NP_932340	Q8N628	OR2C3_HUMAN	olfactory receptor, family 2, subfamily C,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	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)			GTGTTGAATGCCTTTCTCCGC	0.547													20	102					0.00047179	0.000485017	0.01892	1	0		A	247695102	A	A	247695102	3	1	194	1	0	0	0	0	1	0	0	0	11012	739	26	5	254	5	OR2C3	1	247695102	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4309990	247695102	1555519	33	96789											
OR2T6	254879	broad.mit.edu	37	chr1	248551279	248551279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggcctatgaccgctacGtggccatctgcaacccactg	8	9	9	15	2	2	1	1	1	1	0	2	1	2	1	4	2	3	2	4	2	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:248551279G>A	uc001iei.1	+	1	370	c.370G>A	c.(370-372)GTG>ATG	p.V124M		NM_001005471	NP_001005471	Q8NHC8	OR2T6_HUMAN	olfactory receptor, family 2, subfamily T,	124	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TGACCGCTACGTGGCCATCTG	0.567													37	59					0	0	0.007835	0	0		A	248551279	A	A	248551279	3	1	194	1	0	0	0	0	1	0	0	0	11048	1145	40	1	372	1	OR2T6	1	248551279	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	856177	248551279	699342	34	96790											
OR2G6	391211	broad.mit.edu	37	chr1	248685675	248685675	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctttgggacctgttcgtCtcacctggttgtggtcatca	4	14	12	11	1	3	0	3	0	1	0	5	1	3	1	3	4	0	2	3	4	0	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr1:248685675C>A	uc001ien.1	+	1	728	c.728C>A	c.(727-729)TCT>TAT	p.S243Y		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	243	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			ACCTGTTCGTCTCACCTGGTT	0.458													44	24					9.84934e-19	1.20828e-18	0.010771	1	0		A	248685675	A	A	248685675	3	1	194	1	0	0	0	0	1	0	0	0	11019	913	32	5	730	5	OR2G6	1	248685675	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	134396	248685675	564946	35	96791											
SNTG2	54221	broad.mit.edu	37	chr2	1241788	1241788	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagggagctgacacttcagaAcgtgagcacacggtgtttct	10	9	12	10	2	2	3	1	2	1	1	2	4	2	4	0	2	3	3	0	2	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:1241788A>G	uc002qwq.2	+	10	976	c.848A>G	c.(847-849)AAC>AGC	p.N283S	SNTG2_uc010ewi.2_Missense_Mutation_p.N156S	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	283					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		ACACTTCAGAACGTGAGCACA	0.507													5	11					0	0	0.001168	0	0		G	1241788	G	G	1241788	3	3	194	1	0	0	0	0	1	0	0	0	14900	57	2	3	886	3	SNTG2	2	1241788	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08		1241788	241957585	36	96792											
PQLC3	130814	broad.mit.edu	37	chr2	11300802	11300802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taacgggaacgtgaagcaggCcactccttacatcgctgtgt	10	9	11	11	3	0	1	0	1	0	0	2	2	1	2	2	2	4	2	2	2	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:11300802C>T	uc002rbc.2	+	3	411	c.278C>T	c.(277-279)GCC>GTC	p.A93V	PQLC3_uc010yjk.1_Missense_Mutation_p.A93V	NM_152391	NP_689604	Q8N755	PQLC3_HUMAN	PQ loop repeat containing 3 precursor	93						integral to membrane					0	all_hematologic(175;0.0797)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.0978)|OV - Ovarian serous cystadenocarcinoma(76;0.132)		GTGAAGCAGGCCACTCCTTAC	0.507													50	54					0	0	0.01441	0	0		T	11300802	T	T	11300802	3	4	194	1	0	0	0	0	1	0	0	0	12442	739	26	2	288	2	PQLC3	2	11300802	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	10059014	11300802	231898571	37	96793											
PEX13	5194	broad.mit.edu	37	chr2	61275819	61275819	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctttggatgaacaggaagctGcctttgaatctgtttttgtt	8	17	10	6	0	1	2	0	2	1	0	1	4	1	4	1	2	3	3	1	2	3	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:61275819G>T	uc002sau.3	+	4	1209	c.1126G>T	c.(1126-1128)GCC>TCC	p.A376S		NM_002618	NP_002609	Q92968	PEX13_HUMAN	peroxisomal biogenesis factor 13	376	Cytoplasmic (Potential).				cerebral cortex cell migration|fatty acid alpha-oxidation|locomotory behavior|microtubule-based peroxisome localization|neuron migration|protein import into peroxisome matrix, docking|suckling behavior	integral to peroxisomal membrane|membrane fraction	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(5;2.05e-06)|Lung(5;3.13e-05)|Epithelial(17;0.114)			ACAGGAAGCTGCCTTTGAATC	0.393													14	82					6.31663e-08	6.81205e-08	0.003163	1	0		T	61275819	T	T	61275819	3	4	194	1	0	0	0	0	1	0	0	0	11760	1319	46	5	1140	5	PEX13	2	61275819	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	49975017	61275819	181923554	38	96794											
USP34	9736	broad.mit.edu	37	chr2	61697850	61697850	+	Splice_Site	SNP	T	C	C	0	1	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	ttcggccgccgcccccccccTcccccgcttcggatcacact	3	7	7	24	5	1	0	1	0	0	0	4	1	2	1	8	2	0	1	8	2	0	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:61697850T>C	uc002sbe.2	-	1	1	c.-21_splice	c.e1-1			NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34						positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			GCCCCCCCCCTCCCCCGCTTC	0.433													4	88					0	0	0.001168	0	0		C	61697850	C	C	61697850	5	2	194	1	0	0	0	0	0	0	1	0	17091	1566	54	3		3	USP34	2	61697850	Splice_Site	SNP	T	TCGA-FP-7829-01A-11D-2053-08	422031	61697850	181501523	39	96795											
STEAP3	55240	broad.mit.edu	37	chr2	120005614	120005614	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctgccctgcagctgcggcgCggcaccaagtaccagcgctt	6	6	13	16	4	0	0	0	0	0	0	0	0	0	0	3	2	6	6	3	2	2	2	rs150323456	byFrequency	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:120005614C>T	uc002tlp.2	+	4	1009	c.852C>T	c.(850-852)CGC>CGT	p.R284R	STEAP3_uc002tlq.2_Silent_p.R294R|STEAP3_uc002tlr.2_Silent_p.R284R|STEAP3_uc010fle.2_Silent_p.R284R	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	284	Ferric oxidoreductase.|Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						AGCTGCGGCGCGGCACCAAGT	0.682													19	56					0	0	0.007413	0	0		T	120005614	T	T	120005614	2	4	194	1	0	0	0	0	0	0	0	1	15304	755	27	1		1	STEAP3	2	120005614	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	58307764	120005614	123193759	40	96796											
CNTNAP5	129684	broad.mit.edu	37	chr2	125521594	125521594	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcattttatacagaagcctcTtacctccactttcctacctt	9	16	2	14	0	2	1	1	0	1	1	4	1	4	1	5	0	4	0	5	0	5	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:125521594T>A	uc002tno.2	+	16	2764	c.2400T>A	c.(2398-2400)TCT>TCA	p.S800S	CNTNAP5_uc010flu.2_Silent_p.S801S	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	800	Laminin G-like 3.|Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		CAGAAGCCTCTTACCTCCACT	0.428													34	42					0	0	0.005524	0	0		A	125521594	A	A	125521594	2	1	194	1	0	0	0	0	0	0	0	1	3653	1596	56	5		5	CNTNAP5	2	125521594	Silent	SNP	T	TCGA-FP-7829-01A-11D-2053-08	5515980	125521594	117677779	41	96797											
LRP1B	53353	broad.mit.edu	37	chr2	141072523	141072523	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctagaactgatggtacgcaAgttcctccattctggcagta	10	11	9	11	1	1	2	0	1	1	1	3	2	3	2	3	2	2	5	3	2	5	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:141072523A>G	uc002tvj.1	-	83	13758	c.12786T>C	c.(12784-12786)ACT>ACC	p.T4262T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4262	Extracellular (Potential).|EGF-like 11.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		ATGGTACGCAAGTTCCTCCAT	0.358										TSP Lung(27;0.18)			39	50					0	0	0.01441	0	0		G	141072523	G	G	141072523	2	3	194	1	0	0	0	0	0	0	0	1	8973	59	3	3		3	LRP1B	2	141072523	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	15550929	141072523	102126850	42	96798											
LRP1B	53353	broad.mit.edu	37	chr2	142888247	142888247	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tcccacggtcagcaccctggCaatcggcaataatcccgaga	11	6	9	15	3	1	1	1	0	0	1	4	2	3	1	3	3	1	3	3	3	3	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:142888247C>A	uc002tvj.1	-	1	1024	c.52G>T	c.(52-54)GCC>TCC	p.A18S	LRP1B_uc010fnl.1_Missense_Mutation_p.A55S	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	18					protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGCACCCTGGCAATCGGCAAT	0.617										TSP Lung(27;0.18)			6	36					0.00198382	0.00202681	0.001984	1	0		A	142888247	A	A	142888247	3	1	194	1	0	0	0	0	1	0	0	0	8973	710	25	5	14111	5	LRP1B	2	142888247	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1815724	142888247	100311126	43	96799											
LYPD6B	130576	broad.mit.edu	37	chr2	150064896	150064896	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggataattataactgcaatCgatgggcagaagacaaatgg	16	8	12	5	1	0	2	0	0	0	2	1	4	0	3	0	3	2	2	0	3	6	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:150064896C>T	uc002twv.1	+	5	699	c.298C>T	c.(298-300)CGA>TGA	p.R100*	LYPD6B_uc002tww.1_Nonsense_Mutation_p.R62*|LYPD6B_uc002twx.1_Nonsense_Mutation_p.R62*	NM_177964	NP_808879	Q8NI32	LPD6B_HUMAN	LY6/PLAUR domain containing 6B	76	UPAR/Ly6.					anchored to membrane|plasma membrane					0						TAACTGCAATCGATGGGCAGA	0.378													7	102					0	0	0.006214	0	0		T	150064896	T	T	150064896	4	4	194	1	0	0	0	0	0	1	0	0	9133	876	31	1	312	1	LYPD6B	2	150064896	Nonsense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7176649	150064896	93134477	44	96800											
KCNH7	90134	broad.mit.edu	37	chr2	163374466	163374466	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaagggagaacatttgctGggctgtatcaaagcttttgt	11	12	11	7	0	1	1	1	0	0	1	1	2	1	1	1	2	3	4	1	2	4	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:163374466G>T	uc002uch.1	-	4	878	c.666C>A	c.(664-666)CCC>CCA	p.P222P	KCNH7_uc002uci.2_Silent_p.P222P	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	222	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	AACATTTGCTGGGCTGTATCA	0.463													19	65					6.94344e-10	7.741e-10	0.006122	1	0		T	163374466	T	T	163374466	2	4	194	1	0	0	0	0	0	0	0	1	8053	1335	47	5		5	KCNH7	2	163374466	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	13309570	163374466	79824907	45	96801											
TTN	7273	broad.mit.edu	37	chr2	179438077	179438077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggccagctttatcacgcCgttccacaatataattgatg	10	13	8	10	2	1	1	1	1	0	0	2	1	2	1	3	1	1	3	3	1	4	7	rs142874389	by1000genomes	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:179438077C>T	uc010zfg.1	-	275	65302	c.65078G>A	c.(65077-65079)CGG>CAG	p.R21693Q	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R15388Q|TTN_uc010zfi.1_Missense_Mutation_p.R15321Q|TTN_uc010zfj.1_Missense_Mutation_p.R15196Q	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22620							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTATCACGCCGTTCCACAAT	0.393													12	52					0	0	0.010729	0	0		T	179438077	T	T	179438077	3	4	194	1	0	0	0	0	1	0	0	0	16761	652	23	1	35345	1	TTN	2	179438077	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	16063611	179438077	63761296	46	96802											
COL5A2	1290	broad.mit.edu	37	chr2	189899659	189899659	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagagcaagtgtcttgaaGaacgatataccggaatctaa	16	9	9	7	2	2	3	0	1	2	2	2	5	2	4	1	1	4	1	1	1	8	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:189899659G>T	uc002uqk.2	-	53	4611	c.4336C>A	c.(4336-4338)CTT>ATT	p.L1446I	COL5A2_uc010frx.2_Missense_Mutation_p.L1022I	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	1446	Fibrillar collagen NC1.				axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			GTGTCTTGAAGAACGATATAC	0.353													14	69					0.00498961	0.00506637	0.00499	1	0		T	189899659	T	T	189899659	3	4	194	1	0	0	0	0	1	0	0	0	3700	942	33	5	171	5	COL5A2	2	189899659	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	10461582	189899659	53299714	47	96803											
PLCL1	5334	broad.mit.edu	37	chr2	198953756	198953756	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtgcaattccagatgtgCagaaaaagatgctgactgct	12	10	12	7	0	0	4	0	1	0	3	1	4	1	4	1	1	4	4	1	1	3	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:198953756C>T	uc010fsp.2	+	3	3181	c.2890C>T	c.(2890-2892)CAG>TAG	p.Q964*	PLCL1_uc002uuv.3_Nonsense_Mutation_p.Q885*	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	964					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	TCCAGATGTGCAGAAAAAGAT	0.448													39	59					0	0	0.010771	0	0		T	198953756	T	T	198953756	4	4	194	1	0	0	0	0	0	1	0	0	12058	711	25	2	2900	2	PLCL1	2	198953756	Nonsense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	9054097	198953756	44245617	48	96804											
MPP4	58538	broad.mit.edu	37	chr2	202519634	202519634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gctcatttactccaacaccaGagggtcctaaacacaaaaag	16	7	6	12	0	1	1	1	0	0	1	3	1	3	1	3	1	3	1	3	1	6	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:202519634G>A	uc002uyk.3	-	18	1515	c.1307C>T	c.(1306-1308)TCT>TTT	p.S436F	MPP4_uc002uyi.3_Missense_Mutation_p.S54F|MPP4_uc010ftj.2_Missense_Mutation_p.S429F|MPP4_uc010zhq.1_Missense_Mutation_p.S405F|MPP4_uc010zhr.1_Missense_Mutation_p.S412F|MPP4_uc010zhs.1_Missense_Mutation_p.S361F|MPP4_uc002uyj.3_Missense_Mutation_p.S401F|MPP4_uc010zht.1_Missense_Mutation_p.S378F|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.S392F	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	436	Guanylate kinase-like.					cytoplasm	protein binding				0						TCCAACACCAGAGGGTCCTAA	0.353													3	9					0	0	0.001168	0	0		A	202519634	A	A	202519634	3	1	194	1	0	0	0	0	1	0	0	0	9754	942	33	4	626	4	MPP4	2	202519634	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3565878	202519634	40679739	49	96805											
ADAM23	8745	broad.mit.edu	37	chr2	207459514	207459514	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgggctatgtagaagatgGaacgccatgtggcccgtcta	9	10	14	8	2	1	2	0	0	1	2	1	3	1	3	2	3	1	2	2	3	5	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:207459514G>T	uc002vbq.2	+	23	2355	c.2132G>T	c.(2131-2133)GGA>GTA	p.G711V	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	711	Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		GTAGAAGATGGAACGCCATGT	0.428													23	82					2.41591e-17	2.94188e-17	0.004656	1	0		T	207459514	T	T	207459514	3	4	194	1	0	0	0	0	1	0	0	0	245	1174	41	5	2222	5	ADAM23	2	207459514	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	4939880	207459514	35739859	50	96806											
MAP2	4133	broad.mit.edu	37	chr2	210560529	210560529	+	Missense_Mutation	SNP	T	C	C	0	1	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	agagaccccagatatatccaTcacgccttctgatgttgcag	11	10	8	12	1	2	3	1	1	1	2	3	4	3	3	4	0	1	2	4	0	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:210560529T>C	uc002vde.1	+	7	3883	c.3635T>C	c.(3634-3636)ATC>ACC	p.I1212T	MAP2_uc002vdc.1_Missense_Mutation_p.I1212T|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.I1208T	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	1212					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	GATATATCCATCACGCCTTCT	0.453													9	31					0	0	0.008291	0	0		C	210560529	C	C	210560529	3	2	194	1	0	0	0	0	1	0	0	0	9253	1435	50	3	3649	3	MAP2	2	210560529	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	3101015	210560529	32638844	51	96807											
COL6A3	1293	broad.mit.edu	37	chr2	238234360	238234360	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcgtctttcggcaacttGcatatatctttaataaaaac	12	15	4	10	2	2	0	0	0	2	0	4	0	2	0	1	1	3	2	1	1	7	8			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr2:238234360G>T	uc002vwl.2	-	43	9621	c.9336C>A	c.(9334-9336)TGC>TGA	p.C3112*	COL6A3_uc002vwo.2_Nonsense_Mutation_p.C2906*|COL6A3_uc010znj.1_Nonsense_Mutation_p.C2505*|COL6A3_uc002vwj.2_Nonsense_Mutation_p.C493*	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	3112	Nonhelical region.|BPTI/Kunitz inhibitor.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TCGGCAACTTGCATATATCTT	0.418													12	35					2.68362e-12	3.10735e-12	0.013537	1	0		T	238234360	T	T	238234360	4	4	194	1	0	0	0	0	0	1	0	0	3704	1311	46	5	205	5	COL6A3	2	238234360	Nonsense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	27673831	238234360	4965013	52	96808											
CNTN6	27255	broad.mit.edu	37	chr3	1427425	1427425	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttccgtaagagcttacaAcactgctgggacagggccct	9	9	11	12	1	0	1	0	0	0	1	1	2	1	2	2	2	5	4	2	2	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:1427425A>C	uc003boz.2	+	20	2915	c.2648A>C	c.(2647-2649)AAC>ACC	p.N883T	CNTN6_uc011asj.1_Missense_Mutation_p.N811T|CNTN6_uc003bpa.2_Missense_Mutation_p.N883T	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	883	Fibronectin type-III 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		AGAGCTTACAACACTGCTGGG	0.443													59	36					0	0	0.01441	0	0		C	1427425	C	C	1427425	3	2	194	1	0	0	0	0	1	0	0	0	3648	43	2	5	2722	5	CNTN6	3	1427425	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08		1427425	196595005	53	96809											
CAV3	859	broad.mit.edu	37	chr3	8787374	8787374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctggggcttcctgttcGcctgcatctccttctgccac	2	14	9	16	1	3	0	0	0	3	0	6	0	4	0	4	2	3	4	4	2	0	3	rs28936686		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:8787374G>A	uc003bra.2	+	2	344	c.277G>A	c.(277-279)GCC>ACC	p.A93T	C3orf32_uc003bqz.2_5'Flank|CAV3_uc003brb.2_Missense_Mutation_p.A93T	NM_001234	NP_001225	P56539	CAV3_HUMAN	caveolin 3	93	Required for interaction with DAG1.				cell growth|elevation of cytosolic calcium ion concentration|muscle organ development|negative regulation of cardiac muscle hypertrophy|negative regulation of cell size|negative regulation of MAP kinase activity|negative regulation of sarcomere organization|positive regulation of microtubule polymerization|regulation of skeletal muscle contraction|regulation of ventricular cardiomyocyte membrane repolarization|T-tubule organization	caveola|dystrophin-associated glycoprotein complex|Golgi membrane|neuromuscular junction|T-tubule	protein C-terminus binding|protein complex binding|protein complex scaffold|sodium channel regulator activity			lung(1)|breast(1)	2						CTTCCTGTTCGCCTGCATCTC	0.582													11	18					0	0	0.010729	0	0		A	8787374	A	A	8787374	3	1	194	1	0	0	0	0	1	0	0	0	2698	1087	38	1	283	1	CAV3	3	8787374	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	7359949	8787374	189235056	54	96810											
IRAK2	3656	broad.mit.edu	37	chr3	10276201	10276201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcgctctgctccaggaagaCgggcgtggagaacgtgatgg	8	7	16	10	4	1	3	0	1	1	2	3	5	2	4	1	4	2	2	1	4	2	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:10276201C>T	uc003bve.1	+	11	1407	c.1331C>T	c.(1330-1332)ACG>ATG	p.T444M		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	444	Protein kinase.				activation of MAPK activity|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cell surface|cytosol|endosome membrane|plasma membrane	ATP binding|NF-kappaB-inducing kinase activity|protein heterodimerization activity|protein homodimerization activity			lung(5)|breast(3)	8						TCCAGGAAGACGGGCGTGGAG	0.607													19	66					0	0	0.01892	0	0		T	10276201	T	T	10276201	3	4	194	1	0	0	0	0	1	0	0	0	7839	536	19	1	1373	1	IRAK2	3	10276201	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1488827	10276201	187746229	55	96811											
TMEM43	79188	broad.mit.edu	37	chr3	14176343	14176343	+	Silent	SNP	T	A	A	0	1	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	gaccctcatgtggacatcatTcgccgtggagactttttcta	8	13	9	11	2	3	1	2	0	1	1	4	4	3	2	2	2	0	0	2	2	1	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:14176343T>A	uc003byk.2	+	8	911	c.657T>A	c.(655-657)ATT>ATA	p.I219I	TMEM43_uc003byl.1_Silent_p.I99I	NM_024334	NP_077310	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	219	Lumenal (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nuclear inner membrane				ovary(1)	1						TGGACATCATTCGCCGTGGAG	0.547													12	42					0	0	0.013537	0	0		A	14176343	A	A	14176343	2	1	194	1	0	0	0	0	0	0	0	1	16192	1771	62	5		5	TMEM43	3	14176343	Silent	SNP	T	TCGA-FP-7829-01A-11D-2053-08	3900142	14176343	183846087	56	96812											
SLC25A20	788	broad.mit.edu	37	chr3	48916844	48916844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgattcctgtggtgaataCgccagataacatcccagctg	11	10	9	11	1	0	3	0	2	0	1	2	3	2	3	3	1	3	1	3	1	3	3	rs150419695		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:48916844C>T	uc003cva.3	-	4	539	c.364G>A	c.(364-366)GTA>ATA	p.V122I	SLC25A20_uc011bbw.1_Missense_Mutation_p.V72I|SLC25A20_uc010hkj.2_Intron	NM_000387	NP_000378	O43772	MCAT_HUMAN	carnitine/acylcarnitine translocase	122	Helical; Name=3; (Potential).|Solcar 2.				carnitine shuttle|cellular lipid metabolic process|regulation of fatty acid oxidation	integral to membrane|mitochondrial inner membrane	acyl carnitine transporter activity				0				BRCA - Breast invasive adenocarcinoma(193;0.000168)|Kidney(197;0.00231)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)	L-Carnitine(DB00583)	GTGGTGAATACGCCAGATAAC	0.448													51	88					0	0	0.01441	0	0		T	48916844	T	T	48916844	3	4	194	1	0	0	0	0	1	0	0	0	14508	536	19	1	565	1	SLC25A20	3	48916844	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	34740501	48916844	149105586	57	96813											
PRKCD	5580	broad.mit.edu	37	chr3	53218979	53218979	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttggctgaggccttgaacCaagtcacccaggtgggcagg	8	9	14	10	0	1	2	1	2	0	0	1	2	1	2	3	5	1	2	3	5	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:53218979C>A	uc003dgl.2	+	10	1230	c.877C>A	c.(877-879)CAA>AAA	p.Q293K	PRKCD_uc003dgm.2_Missense_Mutation_p.Q293K|PRKCD_uc010hmt.1_Missense_Mutation_p.Q65K	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	293					activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		GGCCTTGAACCAAGTCACCCA	0.607													14	47					1.99824e-07	2.13404e-07	0.00499	1	0		A	53218979	A	A	53218979	3	1	194	1	0	0	0	0	1	0	0	0	12531	595	21	5	907	5	PRKCD	3	53218979	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4302135	53218979	144803451	58	96814											
IMPG2	50939	broad.mit.edu	37	chr3	100976610	100976610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtaactgcatagtaaacatCtacgccactatggatggaaa	15	9	9	8	1	1	0	0	0	1	0	1	2	1	2	1	3	4	3	1	3	7	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:100976610C>T	uc003duq.1	-	10	1119	c.916G>A	c.(916-918)GAT>AAT	p.D306N	IMPG2_uc011bhe.1_Missense_Mutation_p.D169N	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	306	Extracellular (Potential).|SEA 1.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						TAGTAAACATCTACGCCACTA	0.458													18	63					0	0	0.007413	0	0		T	100976610	T	T	100976610	3	4	194	1	0	0	0	0	1	0	0	0	7745	913	32	4	2849	4	IMPG2	3	100976610	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	47757631	100976610	97045820	59	96815											
C3orf30	152405	broad.mit.edu	37	chr3	118865646	118865646	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgtctggcgaggctgagCgaagaacttctgagcagatt	11	9	14	7	2	2	4	0	2	2	2	2	7	2	4	0	2	3	2	0	2	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:118865646C>T	uc003ecb.1	+	1	650	c.610C>T	c.(610-612)CGA>TGA	p.R204*	IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_Nonsense_Mutation_p.R204*	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405	204										ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		CGAGGCTGAGCGAAGAACTTC	0.517													28	119					0	0	0.004878	0	0		T	118865646	T	T	118865646	4	4	194	1	0	0	0	0	0	1	0	0	2223	760	27	1	612	1	C3orf30	3	118865646	Nonsense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	17889036	118865646	79156784	60	96816											
POLQ	10721	broad.mit.edu	37	chr3	121178916	121178916	+	Missense_Mutation	SNP	A	G	G	1	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	cctgttttgcctgctgcctcAgatcatccccaacagactct	7	12	6	16	0	3	2	2	0	1	2	4	2	4	2	5	0	4	2	5	0	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:121178916A>G	uc003eee.3	-	25	7262	c.7133T>C	c.(7132-7134)CTG>CCG	p.L2378P	POLQ_uc003eed.2_Missense_Mutation_p.L1550P	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2378					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		CTGCTGCCTCAGATCATCCCC	0.393								DNA_polymerases_(catalytic_subunits)					40	99					0	0	0.01441	0	0		G	121178916	G	G	121178916	3	3	194	1	0	0	0	0	1	0	0	0	12227	188	7	3	663	3	POLQ	3	121178916	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	2313270	121178916	76843514	61	96817											
AMOTL2	51421	broad.mit.edu	37	chr3	134090185	134090185	+	Silent	SNP	G	A	A	0	0	1	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	ctgctgctggatggctagcaGcgtgcgcgtctcagtcaggt	5	10	15	11	3	2	0	2	0	1	0	3	1	2	1	0	3	5	4	0	3	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:134090185G>A	uc003eqf.2	-	2	382	c.265C>T	c.(265-267)CTG>TTG	p.L89L	AMOTL2_uc003eqg.1_Silent_p.L31L|AMOTL2_uc003eqh.1_Silent_p.L31L	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	31										large_intestine(1)	1						ATGGCTAGCAGCGTGCGCGTC	0.652													25	21					0	0	0.01892	0	0		A	134090185	A	A	134090185	2	1	194	1	0	0	0	0	0	0	0	1	584	962	34	2		2	AMOTL2	3	134090185	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	12911269	134090185	63932245	62	96818											
PLOD2	5352	broad.mit.edu	37	chr3	145790418	145790418	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attcatcacaggctttttcaGaaaatatggggaaccaaaag	16	10	8	7	0	3	1	3	0	0	1	3	2	3	2	1	3	1	1	1	3	6	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:145790418G>C	uc003evs.1	-	16	2221	c.1715C>G	c.(1714-1716)TCT>TGT	p.S572C	PLOD2_uc003evq.1_Missense_Mutation_p.S253C|PLOD2_uc011bnm.1_Missense_Mutation_p.S538C|PLOD2_uc003evr.1_Missense_Mutation_p.S593C	NM_000935	NP_000926	O00469	PLOD2_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	572					protein modification process|response to hypoxia	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2					Vitamin C(DB00126)	GGCTTTTTCAGAAAATATGGG	0.308													10	38					0	0	0.010729	0	0		C	145790418	C	C	145790418	3	2	194	1	0	0	0	0	1	0	0	0	12121	942	33	5	514	5	PLOD2	3	145790418	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	11700233	145790418	52232012	63	96819											
GPR171	29909	broad.mit.edu	37	chr3	150916462	150916462	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gattcggacaatgtggtaagGaacaaagcatatgatgtagc	15	9	12	5	1	0	1	0	1	0	0	1	4	0	3	0	3	3	3	0	3	6	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:150916462G>T	uc003eyq.3	-	3	952	c.712C>A	c.(712-714)CCT>ACT	p.P238T	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_013308	NP_037440	O14626	GP171_HUMAN	G protein-coupled receptor 171	238	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled				0			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			ATGTGGTAAGGAACAAAGCAT	0.413													26	64					3.80469e-20	4.70243e-20	0.009535	1	0		T	150916462	T	T	150916462	3	4	194	1	0	0	0	0	1	0	0	0	6683	1174	41	5	251	5	GPR171	3	150916462	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	5126044	150916462	47105968	64	96820											
ZBBX	79740	broad.mit.edu	37	chr3	167023731	167023731	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcaaaatctgtgtttgaAgtttctgctgttaaaaacac	12	16	7	6	0	3	1	1	1	2	0	3	1	3	1	0	0	2	4	0	0	6	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:167023731A>C	uc003fep.2	-	17	1748	c.1425T>G	c.(1423-1425)ACT>ACG	p.T475T	ZBBX_uc011bpc.1_Silent_p.T475T|ZBBX_uc003feq.2_Silent_p.T446T	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	475						intracellular	zinc ion binding			ovary(2)	2						CTGTGTTTGAAGTTTCTGCTG	0.294													5	12					0	0	0.001168	0	0		C	167023731	C	C	167023731	2	2	194	1	0	0	0	0	0	0	0	1	17542	59	3	5		5	ZBBX	3	167023731	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	16107269	167023731	30998699	65	96821											
ZBBX	79740	broad.mit.edu	37	chr3	167039914	167039914	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagaaaatacctcctgtgtTttttaagccataatttttcc	11	17	4	9	0	1	1	1	0	0	1	3	1	3	1	4	0	2	1	4	0	5	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:167039914T>G	uc003fep.2	-	12	1297	c.974A>C	c.(973-975)AAA>ACA	p.K325T	ZBBX_uc011bpc.1_Missense_Mutation_p.K325T|ZBBX_uc003feq.2_Missense_Mutation_p.K296T	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	325						intracellular	zinc ion binding			ovary(2)	2						CCTCCTGTGTTTTTTAAGCCA	0.279													15	49					0	0	0.007413	0	0		G	167039914	G	G	167039914	3	3	194	1	0	0	0	0	1	0	0	0	17542	1841	64	5	1468	5	ZBBX	3	167039914	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	16183	167039914	30982516	66	96822											
DVL3	1857	broad.mit.edu	37	chr3	183882634	183882634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aacggcggcgagaaccagggGgttatgatagctcatccacc	11	6	13	11	3	1	2	1	1	0	1	2	3	2	2	3	4	3	2	3	4	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:183882634G>A	uc003fms.2	+	5	654	c.514G>A	c.(514-516)GGT>AGT	p.G172S	DVL3_uc011bqw.1_Missense_Mutation_p.G172S|DVL3_uc003fmt.2_5'UTR|DVL3_uc003fmu.2_5'UTR	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	172					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			AGAACCAGGGGGTTATGATAG	0.567													24	63					0	0	0.01892	0	0		A	183882634	A	A	183882634	3	1	194	1	0	0	0	0	1	0	0	0	4843	1232	43	4	532	4	DVL3	3	183882634	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	16842720	183882634	14139796	67	96823											
C3orf21	152002	broad.mit.edu	37	chr3	194790800	194790800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggggcgggcccccaacccGggtctgggggttctcatggc	3	6	19	13	2	2	0	1	0	2	0	3	0	2	0	3	8	1	1	3	8	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr3:194790800G>A	uc003fum.3	-	4	934	c.826C>T	c.(826-828)CGG>TGG	p.R276W	C3orf21_uc003ful.2_Missense_Mutation_p.R73W|C3orf21_uc003fuk.2_Missense_Mutation_p.R70W	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	276						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		CCCCCAACCCGGGTCTGGGGG	0.672													33	53					0	0	0.015359	0	0		A	194790800	A	A	194790800	3	1	194	1	0	0	0	0	1	0	0	0	2217	1115	39	1	359	1	C3orf21	3	194790800	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	10908166	194790800	3231630	68	96824											
JAKMIP1	152789	broad.mit.edu	37	chr4	6064098	6064098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcctggagcagggcgtaggCgcgttgcagggcctggtact	5	8	17	11	3	0	0	0	0	0	0	1	1	1	1	2	5	3	5	2	5	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr4:6064098C>T	uc003giu.3	-	10	1777	c.1501G>A	c.(1501-1503)GCC>ACC	p.A501T	JAKMIP1_uc010idb.1_Missense_Mutation_p.A501T|JAKMIP1_uc010idc.1_Missense_Mutation_p.A316T|JAKMIP1_uc010idd.1_Intron|JAKMIP1_uc011bwc.1_Missense_Mutation_p.A336T|JAKMIP1_uc003giv.3_Missense_Mutation_p.A501T|JAKMIP1_uc010ide.2_Missense_Mutation_p.A501T	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	501	Mediates interaction with TYK2 and GABBR1.|Potential.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						AGGGCGTAGGCGCGTTGCAGG	0.647													33	78					0	0	0.015359	0	0		T	6064098	T	T	6064098	3	4	194	1	0	0	0	0	1	0	0	0	7956	768	27	1	1117	1	JAKMIP1	4	6064098	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08		6064098	185090178	69	96825											
KLB	152831	broad.mit.edu	37	chr4	39448186	39448186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccactggcaacctgtccGcggtgaaccgacaggccctg	7	7	11	16	3	0	1	0	1	0	0	2	2	2	1	5	3	2	1	5	3	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr4:39448186G>A	uc003gua.2	+	4	1937	c.1840G>A	c.(1840-1842)GCG>ACG	p.A614T	KLB_uc011byj.1_Missense_Mutation_p.A605T	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	614	Extracellular (Potential).|Glycosyl hydrolase-1 2.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						CAACCTGTCCGCGGTGAACCG	0.552													42	40					0	0	0.011902	0	0		A	39448186	A	A	39448186	3	1	194	1	0	0	0	0	1	0	0	0	8348	1087	38	1	1854	1	KLB	4	39448186	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	33384088	39448186	151706090	70	96826											
EXOC1	55763	broad.mit.edu	37	chr4	56736993	56736993	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtaaaagaacaaatggatcaGatctctgaaagcaaccacct	18	7	7	9	0	2	3	1	1	1	2	3	4	2	4	2	1	3	2	2	1	6	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr4:56736993G>A	uc003hbe.1	+	6	911	c.753G>A	c.(751-753)CAG>CAA	p.Q251Q	EXOC1_uc003hbf.1_Silent_p.Q251Q|EXOC1_uc003hbg.1_Silent_p.Q251Q	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	251	Potential.				exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					AAATGGATCAGATCTCTGAAA	0.353													23	37					0	0	0.003954	0	0		A	56736993	A	A	56736993	2	1	194	1	0	0	0	0	0	0	0	1	5309	933	33	4		4	EXOC1	4	56736993	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	17288807	56736993	134417283	71	96827											
HELQ	113510	broad.mit.edu	37	chr4	84350749	84350749	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttcttcagacttataaatagTgtctttttgtaggagtcctt	9	19	7	6	0	3	1	1	0	2	1	4	2	4	2	1	1	0	1	1	1	5	9			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr4:84350749T>A	uc003hom.2	-	12	2625	c.2446A>T	c.(2446-2448)ACT>TCT	p.T816S	HELQ_uc010ikb.2_Missense_Mutation_p.T749S|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	816							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TTATAAATAGTGTCTTTTTGT	0.328								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					55	6					0	0	0.01441	0	0		A	84350749	A	A	84350749	3	1	194	1	0	0	0	0	1	0	0	0	7063	1696	59	5	887	5	HELQ	4	84350749	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	27613756	84350749	106803527	72	96828											
SEC24D	9871	broad.mit.edu	37	chr4	119652578	119652578	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtgtagaccattagccaGtaagaatattccttcttctg	11	14	7	9	0	2	2	0	0	2	2	3	2	3	2	3	0	1	2	3	0	5	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr4:119652578G>A	uc003ici.3	-	21	3033	c.2761C>T	c.(2761-2763)CTG>TTG	p.L921L	SEC24D_uc003ich.3_RNA|SEC24D_uc003icj.3_Silent_p.L922L|SEC24D_uc003ick.2_Silent_p.L83L	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D	921					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	zinc ion binding				0						CCATTAGCCAGTAAGAATATT	0.463													27	36					0	0	0.009535	0	0		A	119652578	A	A	119652578	2	1	194	1	0	0	0	0	0	0	0	1	14022	1020	36	4		4	SEC24D	4	119652578	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	35301829	119652578	71501698	73	96829											
FAT1	2195	broad.mit.edu	37	chr4	187628514	187628514	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacaaaatagctctcctgtAaaaactcgggtggattatca	14	10	7	10	1	2	0	1	0	1	0	4	1	2	1	2	2	2	2	2	2	7	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr4:187628514A>T	uc003izf.2	-	2	2656	c.2468T>A	c.(2467-2469)TTA>TAA	p.L823*	FAT1_uc010iso.1_Nonsense_Mutation_p.L823*	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	823	Extracellular (Potential).|Cadherin 7.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GCTCTCCTGTAAAAACTCGGG	0.483										HNSCC(5;0.00058)			48	64					0	0	0.01441	0	0		T	187628514	T	T	187628514	4	4	194	1	0	0	0	0	0	1	0	0	5703	372	13	5	11402	5	FAT1	4	187628514	Nonsense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	67975936	187628514	3525762	74	96830											
PLEKHG4B	153478	broad.mit.edu	37	chr5	161981	161981	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggatttcagaaggggcctGagcgccgtggtcagccaggc	8	6	16	11	2	2	2	2	1	0	1	2	3	2	3	3	5	2	0	3	5	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:161981G>A	uc003jak.2	+	10	1553	c.1503G>A	c.(1501-1503)CTG>CTA	p.L501L		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	501					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GAAGGGGCCTGAGCGCCGTGG	0.607													48	26					0	0	0.01441	0	0		A	161981	A	A	161981	2	1	194	1	0	0	0	0	0	0	0	1	12091	1277	45	4		4	PLEKHG4B	5	161981	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08		161981	180753279	75	96831											
IRX1	79192	broad.mit.edu	37	chr5	3599588	3599588	+	Missense_Mutation	SNP	A	G	G	1	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	tgaccctcacgcaggtctccAcctggttcgccaacgcgcgc	6	7	10	18	5	2	1	1	1	1	0	4	1	2	1	4	2	1	2	4	2	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:3599588A>G	uc003jde.2	+	2	578	c.526A>G	c.(526-528)ACC>GCC	p.T176A		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	176	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GCAGGTCTCCACCTGGTTCGC	0.617													24	130					0	0	0.008361	0	0		G	3599588	G	G	3599588	3	3	194	1	0	0	0	0	1	0	0	0	7859	159	6	3	532	3	IRX1	5	3599588	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	3437607	3599588	177315672	76	96832											
FBXL7	23194	broad.mit.edu	37	chr5	15936756	15936756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgctgcgtccgcctgaccGacgaaggcctgcgctacctg	5	6	13	17	6	0	1	0	1	0	0	1	3	1	1	6	1	3	2	6	1	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:15936756G>A	uc003jfn.1	+	4	1418	c.937G>A	c.(937-939)GAC>AAC	p.D313N		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	313	LRR 6.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						CCGCCTGACCGACGAAGGCCT	0.667													31	13					0	0	0.013726	0	0		A	15936756	A	A	15936756	3	1	194	1	0	0	0	0	1	0	0	0	5738	1058	37	1	951	1	FBXL7	5	15936756	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	12337168	15936756	164978504	77	96833											
PDZD2	23037	broad.mit.edu	37	chr5	32090272	32090272	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggacgggagggtcaccccCcacacagcctgggtcgctct	6	7	13	15	2	2	0	1	0	1	0	3	2	2	2	4	4	1	1	4	4	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:32090272C>A	uc003jhl.2	+	20	7106	c.6718C>A	c.(6718-6720)CCA>ACA	p.P2240T	PDZD2_uc003jhm.2_Missense_Mutation_p.P2240T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2240					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						GGGTCACCCCCCACACAGCCT	0.622													82	358					5.56898e-48	7.09561e-48	0.01441	1	0		A	32090272	A	A	32090272	3	1	194	1	0	0	0	0	1	0	0	0	11720	623	22	5	6792	5	PDZD2	5	32090272	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	16153516	32090272	148824988	78	96834											
EGFLAM	133584	broad.mit.edu	37	chr5	38427162	38427162	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctctgagatcttacgctgCaactccctggccactggagc	7	10	10	14	1	2	1	0	1	2	1	4	3	3	2	2	2	4	2	2	2	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:38427162C>A	uc003jlc.1	+	14	2186	c.1862C>A	c.(1861-1863)GCA>GAA	p.A621E	EGFLAM_uc003jlb.1_Missense_Mutation_p.A621E|EGFLAM_uc003jle.1_Missense_Mutation_p.A387E|EGFLAM_uc003jlf.1_5'UTR	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	621	Laminin G-like 2.					cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					TCTTACGCTGCAACTCCCTGG	0.443													30	136					1.99505e-19	2.45659e-19	0.012213	1	0		A	38427162	A	A	38427162	3	1	194	1	0	0	0	0	1	0	0	0	4972	710	25	5	1930	5	EGFLAM	5	38427162	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	6336890	38427162	142488098	79	96835											
PAIP1	10605	broad.mit.edu	37	chr5	43536983	43536983	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attagaaaacagggcattcaGcaattctcgaagaccaacct	16	8	7	10	1	2	2	1	0	1	2	3	3	2	2	2	1	3	2	2	1	6	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:43536983G>A	uc003job.2	-	6	1157	c.910C>T	c.(910-912)CTG>TTG	p.L304L	PAIP1_uc003joa.2_Silent_p.L225L|PAIP1_uc010ivp.2_Silent_p.L225L|PAIP1_uc010ivo.2_RNA|PAIP1_uc003joc.2_Silent_p.L192L	NM_006451	NP_006442	Q9H074	PAIP1_HUMAN	poly(A) binding protein interacting protein 1	304	MIF4G.				mRNA stabilization|nuclear-transcribed mRNA poly(A) tail shortening|translational initiation	cytosol	protein binding|RNA binding|translation activator activity			ovary(1)	1	Lung NSC(6;2.07e-05)					AGGGCATTCAGCAATTCTCGA	0.328													171	30					0	0	0.01441	0	0		A	43536983	A	A	43536983	2	1	194	1	0	0	0	0	0	0	0	1	11415	962	34	2		2	PAIP1	5	43536983	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	5109821	43536983	137378277	80	96836											
CMYA5	202333	broad.mit.edu	37	chr5	79057703	79057703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaagatctggaacctgaccGatgctatcaagtgtgggtga	11	10	13	7	1	2	4	1	3	1	1	2	6	2	5	2	2	2	1	2	2	4	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:79057703G>A	uc003kgc.2	+	8	11402	c.11330G>A	c.(11329-11331)CGA>CAA	p.R3777Q		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3777	Fibronectin type-III 1.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GAACCTGACCGATGCTATCAA	0.443													15	2					0	0	0.006122	0	0		A	79057703	A	A	79057703	3	1	194	1	0	0	0	0	1	0	0	0	3593	1058	37	1	11360	1	CMYA5	5	79057703	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	35520720	79057703	101857557	81	96837											
RASA1	5921	broad.mit.edu	37	chr5	86659260	86659260	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaacgagctaccaaaccaAaaggattaatagatctcagt	20	7	6	8	1	1	1	1	0	1	1	2	3	1	2	2	1	4	1	2	1	8	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:86659260A>T	uc003kiw.2	+	11	1667	c.1549A>T	c.(1549-1551)AAA>TAA	p.K517*	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Nonsense_Mutation_p.K340*|RASA1_uc011ctv.1_Nonsense_Mutation_p.K350*|RASA1_uc011ctw.1_Nonsense_Mutation_p.K351*|RASA1_uc010jaw.2_Nonsense_Mutation_p.K339*	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	517	PH.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		TACCAAACCAAAAGGATTAAT	0.353													30	14					0	0	0.012213	0	0		T	86659260	T	T	86659260	4	4	194	1	0	0	0	0	0	1	0	0	13085	15	1	5	1603	5	RASA1	5	86659260	Nonsense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	7601557	86659260	94256000	82	96838											
SLC27A6	28965	broad.mit.edu	37	chr5	128302292	128302292	+	Silent	SNP	A	G	G	1	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	atccgcgcctgtgggcccagAgccctagtggtgggcgcagg	5	6	17	13	3	0	1	0	0	0	1	1	1	1	1	4	4	1	1	4	4	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:128302292A>G	uc003kuy.2	+	2	858	c.462A>G	c.(460-462)AGA>AGG	p.R154R	SLC27A6_uc003kuz.2_Silent_p.R154R	NM_014031	NP_054750	Q9Y2P4	S27A6_HUMAN	solute carrier family 27 (fatty acid	154					long-chain fatty acid transport|transmembrane transport|very long-chain fatty acid metabolic process	integral to membrane|sarcolemma	fatty acid transporter activity|long-chain fatty acid-CoA ligase activity|nucleotide binding				0		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)		GTGGGCCCAGAGCCCTAGTGG	0.547													13	3					0	0	0.004007	0	0		G	128302292	G	G	128302292	2	3	194	1	0	0	0	0	0	0	0	1	14555	301	11	3		3	SLC27A6	5	128302292	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	41643032	128302292	52612968	83	96839											
PCDHA3	56145	broad.mit.edu	37	chr5	140182706	140182706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccctggacgaggtggacGccccgcgccatcgcctactg	5	6	14	16	5	0	0	0	0	0	0	1	3	0	2	5	3	2	0	5	3	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:140182706G>A	uc003lhf.2	+	1	1924	c.1924G>A	c.(1924-1926)GCC>ACC	p.A642T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A642T	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	642	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGAGGTGGACGCCCCGCGCCA	0.677													52	44					0	0	0.01441	0	0		A	140182706	A	A	140182706	3	1	194	1	0	0	0	0	1	0	0	0	11544	1087	38	1	1926	1	PCDHA3	5	140182706	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	11880414	140182706	40732554	84	96840											
PCDHB12	56124	broad.mit.edu	37	chr5	140588663	140588663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggtgagtgagctgtcttcgCggggggctcgggtggtttct	3	12	19	7	3	2	2	0	2	2	0	4	2	2	2	0	6	1	3	0	6	0	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:140588663C>T	uc003liz.2	+	1	373	c.184C>T	c.(184-186)CGG>TGG	p.R62W	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	62	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGTCTTCGCGGGGGGCTCG	0.507													47	62					0	0	0.01441	0	0		T	140588663	T	T	140588663	3	4	194	1	0	0	0	0	1	0	0	0	11556	759	27	1	186	1	PCDHB12	5	140588663	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	405957	140588663	40326597	85	96841											
PCDHGA6	56109	broad.mit.edu	37	chr5	140755048	140755048	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtccttgaaaacaacccCaggggtgcctccatcttctc	9	11	7	14	0	2	1	0	1	2	0	5	1	4	1	5	2	3	0	5	2	4	3	rs140643836	by1000genomes	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:140755048C>T	uc003ljy.1	+	1	1398	c.1398C>T	c.(1396-1398)CCC>CCT	p.P466P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Silent_p.P466P	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	466	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAACAACCCCAGGGGTGCCT	0.547													43	143					0	0	0.011902	0	0		T	140755048	T	T	140755048	2	4	194	1	0	0	0	0	0	0	0	1	11577	581	21	4		4	PCDHGA6	5	140755048	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	166385	140755048	40160212	86	96842											
PCDHGA8	9708	broad.mit.edu	37	chr5	140773250	140773250	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attaatgaaaaacaaactccGttattccagcttaatgaaaa	19	11	4	7	1	0	2	0	2	0	0	2	2	2	2	2	0	3	2	2	0	8	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:140773250G>A	uc003lkd.1	+	1	1768	c.870G>A	c.(868-870)CCG>CCA	p.P290P	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Silent_p.P290P	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	290	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACAAACTCCGTTATTCCAGC	0.393													49	42					0	0	0.01441	0	0		A	140773250	A	A	140773250	2	1	194	1	0	0	0	0	0	0	0	1	11579	1132	40	1		1	PCDHGA8	5	140773250	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	18202	140773250	40142010	87	96843											
GABRA1	2554	broad.mit.edu	37	chr5	161324205	161324205	+	Missense_Mutation	SNP	A	C	C	1	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	ccctaatttggccaggggcgAcccgggcttagccaccattg	7	8	12	14	2	0	0	0	0	0	0	0	1	0	0	5	4	1	1	5	4	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:161324205A>C	uc010jiw.2	+	11	1616	c.1148A>C	c.(1147-1149)GAC>GCC	p.D383A	GABRA1_uc010jix.2_Missense_Mutation_p.D383A|GABRA1_uc010jiy.2_Missense_Mutation_p.D383A|GABRA1_uc003lyx.3_Missense_Mutation_p.D383A|GABRA1_uc010jiz.2_Missense_Mutation_p.D383A|GABRA1_uc010jja.2_Missense_Mutation_p.D383A|GABRA1_uc010jjb.2_Missense_Mutation_p.D383A	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	383	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	GCCAGGGGCGACCCGGGCTTA	0.453													25	78					0	0	0.008361	0	0		C	161324205	C	C	161324205	3	2	194	1	0	0	0	0	1	0	0	0	6174	275	10	5	1182	5	GABRA1	5	161324205	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	20550955	161324205	19591055	88	96844											
NSD1	64324	broad.mit.edu	37	chr5	176638327	176638327	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatggcactcagaactccgCcaatcctagccctagtgggg	10	7	11	13	1	1	2	1	0	0	2	3	2	3	2	4	3	2	1	4	3	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr5:176638327C>A	uc003mfr.3	+	5	3065	c.2927C>A	c.(2926-2928)GCC>GAC	p.A976D	NSD1_uc003mft.3_Missense_Mutation_p.A707D|NSD1_uc003mfs.1_Missense_Mutation_p.A873D|NSD1_uc011dfx.1_Missense_Mutation_p.A624D	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	976					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		CAGAACTCCGCCAATCCTAGC	0.507			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			13	53					1.05317e-09	1.16626e-09	0.00245	1	0		A	176638327	A	A	176638327	3	1	194	1	0	0	0	0	1	0	0	0	10688	739	26	5	2941	5	NSD1	5	176638327	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	15314122	176638327	4276933	89	96845											
RIPK1	8737	broad.mit.edu	37	chr6	3078166	3078166	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgcacgtgctgaaagcCgaggtagagagggcccctcc	9	6	14	12	2	0	3	0	2	0	1	1	5	1	3	4	2	3	3	4	2	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:3078166C>T	uc010jni.2	+	3	550	c.318C>T	c.(316-318)GCC>GCT	p.A106A	RIPK1_uc003muv.3_5'UTR|RIPK1_uc003muw.3_Silent_p.A41A|RIPK1_uc011dhs.1_Silent_p.A106A|RIPK1_uc003mux.2_Silent_p.A106A	NM_003804	NP_003795	Q13546	RIPK1_HUMAN	receptor (TNFRSF)-interacting serine-threonine	106	Protein kinase.				activation of caspase activity|activation of JUN kinase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|induction of necroptosis by extracellular signals|innate immune response|MyD88-independent toll-like receptor signaling pathway|positive regulation of anti-apoptosis|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of NF-kappaB transcription factor activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|protein autophosphorylation|regulation of ATP:ADP antiporter activity|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|death-inducing signaling complex|endosome membrane|mitochondrion|receptor complex	ATP binding|death domain binding|death receptor binding|protein serine/threonine kinase activity			large_intestine(3)|lung(1)|skin(1)	5	Ovarian(93;0.0386)	all_hematologic(90;0.0895)				TGCTGAAAGCCGAGGTAGAGA	0.602													14	46					0	0	0.007413	0	0		T	3078166	T	T	3078166	2	4	194	1	0	0	0	0	0	0	0	1	13405	639	23	1		1	RIPK1	6	3078166	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08		3078166	168036901	90	96846											
SLC17A1	6568	broad.mit.edu	37	chr6	25819768	25819768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatagaagtaagtcggcctCgttccaggggaggagcccat	10	8	13	10	2	1	1	1	0	0	1	4	3	2	3	3	4	1	2	3	4	3	3	rs146175657	byFrequency	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:25819768C>T	uc003nfh.3	-	5	616	c.500G>A	c.(499-501)CGA>CAA	p.R167Q	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Missense_Mutation_p.R165Q|SLC17A1_uc010jqc.1_Missense_Mutation_p.R165Q	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	167					sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						AAGTCGGCCTCGTTCCAGGGG	0.393													16	63					0	0	0.006122	0	0		T	25819768	T	T	25819768	3	4	194	1	0	0	0	0	1	0	0	0	14441	884	31	1	935	1	SLC17A1	6	25819768	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	22741602	25819768	145295299	91	96847											
ZNF76	7629	broad.mit.edu	37	chr6	35262953	35262953	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaccttagaggaggccatCaatgtggccactgcggccat	10	7	12	12	1	1	2	1	0	0	2	1	3	1	3	4	4	1	0	4	4	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:35262953C>A	uc003oki.1	+	14	1846	c.1641C>A	c.(1639-1641)ATC>ATA	p.I547I	ZNF76_uc003okj.1_Silent_p.I492I|DEF6_uc003okk.2_5'Flank|DEF6_uc010jvs.2_5'Flank|DEF6_uc010jvt.2_5'Flank	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	547					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AGGAGGCCATCAATGTGGCCA	0.587													6	18					1.12685e-05	1.18805e-05	0.004482	1	0		A	35262953	A	A	35262953	2	1	194	1	0	0	0	0	0	0	0	1	18160	816	29	5		5	ZNF76	6	35262953	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	9443185	35262953	135852114	92	96848											
XPO5	57510	broad.mit.edu	37	chr6	43543539	43543539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgggtggagttggggtcCatcatgaccgtcaccgcttt	5	11	14	11	3	2	1	2	1	0	0	3	2	3	2	3	4	0	3	3	4	0	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:43543539C>T	uc003ovp.2	-	1	274	c.63G>A	c.(61-63)ATG>ATA	p.M21I	POLH_uc010jyu.2_5'Flank|POLH_uc011dvl.1_5'Flank|POLH_uc003ovq.3_5'Flank	NM_020750	NP_065801	Q9HAV4	XPO5_HUMAN	exportin 5	21	Necessary for interaction with Ran.				gene silencing by RNA	cytosol|nucleoplasm	protein binding|tRNA binding			skin(2)|breast(1)|kidney(1)	4	all_cancers(18;2.08e-05)|Lung NSC(15;0.000907)|all_lung(25;0.00243)		all cancers(41;0.000321)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0524)			AGTTGGGGTCCATCATGACCG	0.662													72	223					0	0	0.01441	0	0		T	43543539	T	T	43543539	3	4	194	1	0	0	0	0	1	0	0	0	17473	594	21	4	3679	4	XPO5	6	43543539	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	8280586	43543539	127571528	93	96849											
RUNX2	860	broad.mit.edu	37	chr6	45390466	45390466	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagcagcagcagcagcaAcagcagcagcagcagcagga	15	0	13	13	0	0	0	0	0	0	0	0	1	0	1	0	1	12	11	0	1	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:45390466A>G	uc011dvx.1	+	3	405	c.195A>G	c.(193-195)CAA>CAG	p.Q65Q	RUNX2_uc011dvy.1_Silent_p.Q65Q|RUNX2_uc003oxt.2_Silent_p.Q51Q	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	65	Poly-Gln.				negative regulation of transcription, DNA-dependent|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3						agcagcagcaacagcagcagc	0.274													3	33					0	0	0.009096	0	0		G	45390466	G	G	45390466	2	3	194	1	0	0	0	0	0	0	0	1	13773	40	2	3		3	RUNX2	6	45390466	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	1846927	45390466	125724601	94	96850											
LGSN	51557	broad.mit.edu	37	chr6	63990178	63990178	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaagtccatctaagccGgcagcaacagttgcagccag	12	7	10	12	1	1	1	0	1	1	0	2	1	2	1	3	1	5	4	3	1	4	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:63990178G>A	uc003peh.2	-	4	1312	c.1278C>T	c.(1276-1278)GCC>GCT	p.A426A	LGSN_uc003pei.2_3'UTR	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	426					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	CATCTAAGCCGGCAGCAACAG	0.453													12	223					0	0	0.016723	0	0		A	63990178	A	A	63990178	2	1	194	1	0	0	0	0	0	0	0	1	8775	1103	39	1		1	LGSN	6	63990178	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	18599712	63990178	107124889	95	96851											
EYS	346007	broad.mit.edu	37	chr6	66063353	66063353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attacataaatttgttacctGcaaatcccaattgccacaca	15	12	3	11	0	0	0	0	0	0	0	1	0	1	0	3	0	4	2	3	0	6	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:66063353G>T	uc011dxu.1	-	9	1995	c.1457C>A	c.(1456-1458)GCA>GAA	p.A486E	EYS_uc003peq.2_Missense_Mutation_p.A486E|EYS_uc003per.1_Missense_Mutation_p.A486E	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	486					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						TTTGTTACCTGCAAATCCCAA	0.338													13	54					1.15088e-07	1.23308e-07	0.004007	1	0		T	66063353	T	T	66063353	3	4	194	1	0	0	0	0	1	0	0	0	5340	1319	46	5	8079	5	EYS	6	66063353	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2073175	66063353	105051714	96	96852											
RIMS1	22999	broad.mit.edu	37	chr6	73001696	73001696	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacacatcgttcagcagtcGcaggggaagacagctcccac	12	5	11	13	2	1	2	1	0	0	2	4	3	2	3	1	2	2	4	1	2	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:73001696G>A	uc003pga.2	+	26	3874	c.3797G>A	c.(3796-3798)CGC>CAC	p.R1266H	RIMS1_uc011dyb.1_Missense_Mutation_p.R663H|RIMS1_uc003pgc.2_Missense_Mutation_p.R715H|RIMS1_uc010kaq.2_Missense_Mutation_p.R586H|RIMS1_uc011dyc.1_Missense_Mutation_p.R563H|RIMS1_uc010kar.2_Missense_Mutation_p.R506H|RIMS1_uc011dyd.1_Missense_Mutation_p.R572H|RIMS1_uc003pgf.2_Missense_Mutation_p.R275H|RIMS1_uc003pgg.2_Missense_Mutation_p.R334H|RIMS1_uc003pgi.2_Missense_Mutation_p.R254H|RIMS1_uc003pgh.2_Missense_Mutation_p.R305H|RIMS1_uc003pgd.2_Missense_Mutation_p.R332H|RIMS1_uc003pge.2_Missense_Mutation_p.R306H|RIMS1_uc011dye.1_Missense_Mutation_p.R62H|RIMS1_uc011dyf.1_Missense_Mutation_p.R62H	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1266					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				TTCAGCAGTCGCAGGGGAAGA	0.468													3	4					0	0	0.004672	0	0		A	73001696	A	A	73001696	3	1	194	1	0	0	0	0	1	0	0	0	13392	1087	38	1	4062	1	RIMS1	6	73001696	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	6938343	73001696	98113371	97	96853											
SLC17A5	26503	broad.mit.edu	37	chr6	74346391	74346391	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatatagtagcaaattattCcagaaagaggaagagaaatt	19	10	8	4	0	1	3	1	0	0	3	2	5	2	4	1	1	1	2	1	1	8	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:74346391C>A	uc003phn.3	-	5	781	c.653G>T	c.(652-654)GGA>GTA	p.G218V	SLC17A5_uc010kax.2_5'Flank|SLC17A5_uc010kay.2_RNA|SLC17A5_uc011dyo.1_Missense_Mutation_p.G87V	NM_012434	NP_036566	Q9NRA2	S17A5_HUMAN	sialin	218	Helical; (Potential).				anion transport	integral to plasma membrane|lysosomal membrane|membrane fraction	sialic acid:hydrogen symporter activity			skin(5)|central_nervous_system(1)	6						GCAAATTATTCCAGAAAGAGG	0.294													30	77					1.08052e-11	1.24241e-11	0.019004	1	0		A	74346391	A	A	74346391	3	1	194	1	0	0	0	0	1	0	0	0	14445	855	30	5	862	5	SLC17A5	6	74346391	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1344695	74346391	96768676	98	96854											
QRSL1	55278	broad.mit.edu	37	chr6	107111010	107111010	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttcatcaaagaggacaacaGaacccgaagtgcccaggatg	15	5	11	10	1	2	2	2	0	0	2	2	5	2	4	2	2	3	1	2	2	4	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:107111010G>T	uc003prm.2	+	10	1432	c.1316G>T	c.(1315-1317)AGA>ATA	p.R439I		NM_018292	NP_060762	Q9H0R6	QRSL1_HUMAN	glutaminyl-tRNA synthase	439					translation		ATP binding|carbon-nitrogen ligase activity, with glutamine as amido-N-donor				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;0.00768)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.248)	Epithelial(6;0.000334)|all cancers(7;0.00157)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0152)	BRCA - Breast invasive adenocarcinoma(108;0.118)|all cancers(137;0.167)|Epithelial(106;0.176)		GAGGACAACAGAACCCGAAGT	0.423													15	28					3.57192e-18	4.36568e-18	0.006122	1	0		T	107111010	T	T	107111010	3	4	194	1	0	0	0	0	1	0	0	0	12906	942	33	5	1354	5	QRSL1	6	107111010	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	32764619	107111010	64004057	99	96855											
TCF21	6943	broad.mit.edu	37	chr6	134210769	134210769	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcagccaggaggggaagcaGgtccagcgcaacgccgccaa	11	2	15	13	3	1	0	1	0	0	0	2	2	2	2	4	4	4	2	4	4	3	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:134210769G>T	uc003qei.3	+	1	510	c.234G>T	c.(232-234)CAG>CAT	p.Q78H	uc003qeg.1_5'Flank|TCF21_uc003qej.2_Missense_Mutation_p.Q78H	NM_003206	NP_003197	O43680	TCF21_HUMAN	transcription factor 21	78					branching involved in ureteric bud morphogenesis|mesoderm development|negative regulation of androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus	androgen receptor binding|E-box binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity				0	Colorectal(23;0.221)|Breast(56;0.247)			GBM - Glioblastoma multiforme(68;0.00518)|OV - Ovarian serous cystadenocarcinoma(155;0.00783)		AGGGGAAGCAGGTCCAGCGCA	0.701													15	41					1.05317e-09	1.16626e-09	0.00245	1	0		T	134210769	T	T	134210769	3	4	194	1	0	0	0	0	1	0	0	0	15716	991	35	5	236	5	TCF21	6	134210769	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	27099759	134210769	36904298	100	96856											
SLC2A12	154091	broad.mit.edu	37	chr6	134350098	134350099	+	Frame_Shift_Ins	INS	-	A	A																															ggttggccagtgatttgtacINSaaaaaatactagtgttagtc																								rs148451864	by1000genomes	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:134350098_134350099insA	uc003qem.1	-	2	1035_1036	c.864_865insT	c.(862-867)TTTGTAfs	p.F288fs		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	288_289	Helical; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		GTGATTTGTACAAAAAATACTA	0.411													44	55	---	---	---	---						.	A	134350099	A	A	134350098	7	5	194	1	0	1	1	0	0	0	0	0	14566	478	17	0	1004	0	SLC2A12	6	134350098	Frame_Shift_Ins	INS	-	TCGA-FP-7829-01A-11D-2053-08	139329	134350098	36764969	101	96857											
GRM1	2911	broad.mit.edu	37	chr6	146351157	146351157	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggctccagctctgtagcCattcaagtgcagaacctgct	8	9	9	15	1	2	1	1	0	1	1	3	1	3	1	4	1	5	5	4	1	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:146351157C>T	uc010khw.1	+	2	974	c.504C>T	c.(502-504)GCC>GCT	p.A168A	GRM1_uc010khu.1_Silent_p.A168A|GRM1_uc010khv.1_Silent_p.A168A|GRM1_uc003qll.2_Silent_p.A168A|GRM1_uc011edz.1_Silent_p.A168A|GRM1_uc011eea.1_Silent_p.A168A	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	168	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity	p.A168V(1)		lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GCTCTGTAGCCATTCAAGTGC	0.557													30	85					0	0	0.017118	0	0		T	146351157	T	T	146351157	2	4	194	1	0	0	0	0	0	0	0	1	6812	581	21	4		4	GRM1	6	146351157	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	12001059	146351157	24763910	102	96858											
LATS1	9113	broad.mit.edu	37	chr6	150005125	150005125	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtggtggctgccgattcacaGtgccagcagggacaacattt	9	9	13	10	1	1	0	1	0	0	0	1	2	1	1	2	3	4	2	2	3	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr6:150005125G>A	uc003qmu.1	-	4	1648	c.1100C>T	c.(1099-1101)ACT>ATT	p.T367I	LATS1_uc010kif.1_Missense_Mutation_p.T262I|LATS1_uc003qmv.1_Missense_Mutation_p.T367I|LATS1_uc003qmw.2_Missense_Mutation_p.T367I|LATS1_uc010kig.1_Missense_Mutation_p.T262I	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	367					cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		CCGATTCACAGTGCCAGCAGG	0.468													22	55					0	0	0.014323	0	0		A	150005125	A	A	150005125	3	1	194	1	0	0	0	0	1	0	0	0	8662	1029	36	4	2312	4	LATS1	6	150005125	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3653968	150005125	21109942	103	96859											
PAPOLB	56903	broad.mit.edu	37	chr7	4900521	4900521	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataagatggtacctatcactGggatttactcttgggtccca	10	13	9	9	0	2	1	1	0	1	1	3	2	3	2	2	3	2	1	2	3	4	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:4900521G>T	uc003snk.2	-	1	1105	c.921C>A	c.(919-921)CCC>CCA	p.P307P	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	306					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		ACCTATCACTGGGATTTACTC	0.448													23	124					1.50039e-11	1.7192e-11	0.012319	1	0		T	4900521	T	T	4900521	2	4	194	1	0	0	0	0	0	0	0	1	11449	1335	47	5		5	PAPOLB	7	4900521	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08		4900521	154238142	104	96860											
DNAH11	8701	broad.mit.edu	37	chr7	21598515	21598515	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacatagaagtcatgaaaaaGaagatgtatatttttagggg	17	11	10	3	0	1	4	1	1	0	3	1	4	1	4	0	2	0	1	0	2	8	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:21598515G>A	uc003svc.2	+	3	622	c.591G>A	c.(589-591)AAG>AAA	p.K197K		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	197	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						TCATGAAAAAGAAGATGTATA	0.358									Kartagener_syndrome				4	15					0	0	0.009096	0	0		A	21598515	A	A	21598515	2	1	194	1	0	0	0	0	0	0	0	1	4605	933	33	4		4	DNAH11	7	21598515	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	16697994	21598515	137540148	105	96861											
PKD1L1	168507	broad.mit.edu	37	chr7	47869075	47869075	+	Missense_Mutation	SNP	A	G	G	1	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	tgcagcttgaagagaaggggAggcgagtccaggaacgttct	11	7	16	7	2	1	2	0	1	1	1	2	6	2	4	1	4	3	3	1	4	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:47869075A>G	uc003tny.1	-	44	6683	c.6683T>C	c.(6682-6684)CTC>CCC	p.L2228P	C7orf69_uc003toa.1_Intron|PKD1L1_uc003tob.2_5'Flank	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2228	Cytoplasmic (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGAGAAGGGGAGGCGAGTCCA	0.428													3	153					0	0	0.014758	0	0		G	47869075	G	G	47869075	3	3	194	1	0	0	0	0	1	0	0	0	11983	304	11	3	1922	3	PKD1L1	7	47869075	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	26270560	47869075	111269588	106	96862											
EGFR	1956	broad.mit.edu	37	chr7	55223604	55223604	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggaggaagacggcgtccGcaagtgtaagaagtgcgaag	13	5	17	6	4	0	2	0	0	0	2	1	6	1	4	1	3	1	2	1	3	5	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:55223604G>A	uc003tqk.2	+	8	1217	c.971G>A	c.(970-972)CGC>CAC	p.R324H	EGFR_uc003tqh.2_Missense_Mutation_p.R324H|EGFR_uc003tqi.2_Missense_Mutation_p.R324H|EGFR_uc003tqj.2_Missense_Mutation_p.R324H|EGFR_uc010kzg.1_Missense_Mutation_p.R279H|EGFR_uc011kco.1_Missense_Mutation_p.R271H|EGFR_uc011kcp.1_5'Flank|EGFR_uc011kcq.1_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	324	Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.R324L(2)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	GACGGCGTCCGCAAGTGTAAG	0.602		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			16	20					0	0	0.006122	0	0		A	55223604	A	A	55223604	3	1	194	1	0	0	0	0	1	0	0	0	4973	1087	38	1	1001	1	EGFR	7	55223604	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	7354529	55223604	103915059	107	96863											
ZNF735	730291	broad.mit.edu	37	chr7	63667589	63667589	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccgcagatttatggctaaAagaccgggaccccctggaag	12	7	11	11	2	0	2	0	0	0	2	1	4	1	4	4	3	0	2	4	3	4	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:63667589A>C	uc011kdn.1	+	1	9	c.9A>C	c.(7-9)AAA>AAC	p.K3N		NM_001159524	NP_001152996	P0CB33	ZN735_HUMAN	zinc finger protein 735	3					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTATGGCTAAAAGACCGGGAC	0.567													28	15					0	0	0.015359	0	0		C	63667589	C	C	63667589	3	2	194	1	0	0	0	0	1	0	0	0	18149	11	1	5	11	5	ZNF735	7	63667589	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	8443985	63667589	95471074	108	96864											
RABGEF1	27342	broad.mit.edu	37	chr7	66103848	66103848	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttcatccttatagaccacTtggagcggattgtggagatc	9	13	11	8	1	1	2	1	0	0	2	3	5	2	4	2	3	1	1	2	3	2	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:66103848T>A	uc003tvf.2	+	3	491	c.-703T>A	c.(-705--701)ACTTG>ACATG		KCTD7_uc003tvd.3_Missense_Mutation_p.L167M|KCTD7_uc003tve.2_Missense_Mutation_p.L167M	NM_014504	NP_055319	Q9UJ41	RABX5_HUMAN	RAB guanine nucleotide exchange factor (GEF) 1						endocytosis|protein transport	early endosome|recycling endosome	DNA binding|protein binding|zinc ion binding			ovary(1)	1						TATAGACCACTTGGAGCGGAT	0.562													16	34					0	0	0.010504	0	0		A	66103848	A	A	66103848	1	1	194	1	0	0	0	0	0	0	0	0	12991	1606	56	5		5	RABGEF1	7	66103848	Translation_Start_Site	SNP	T	TCGA-FP-7829-01A-11D-2053-08	2436259	66103848	93034815	109	96865											
WBSCR17	64409	broad.mit.edu	37	chr7	71036345	71036345	+	Silent	SNP	C	A	A	0	0	0	1	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	attggtcttctggatcctggCatggatgtatacggaggaga	9	12	14	6	1	2	1	0	0	2	1	3	5	3	4	1	6	1	2	1	6	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:71036345C>A	uc003tvy.2	+	6	1038	c.1038C>A	c.(1036-1038)GGC>GGA	p.G346G	WBSCR17_uc003tvz.2_Silent_p.G45G	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	346	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TGGATCCTGGCATGGATGTAT	0.502													22	118					1.17739e-12	1.3681e-12	0.005443	1	0		A	71036345	A	A	71036345	2	1	194	1	0	0	0	0	0	0	0	1	17290	697	25	5		5	WBSCR17	7	71036345	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4932497	71036345	88102318	110	96866											
STEAP2	261729	broad.mit.edu	37	chr7	89861667	89861667	+	Missense_Mutation	SNP	T	G	G	0	1	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	caagtctacacttggatatgTcgctctgctcataagtactt	10	14	7	10	1	3	0	1	0	2	0	4	1	3	1	0	1	3	3	0	1	5	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:89861667T>G	uc003ujz.2	+	5	1595	c.1202T>G	c.(1201-1203)GTC>GGC	p.V401G	STEAP2_uc010len.2_Missense_Mutation_p.V401G|STEAP2_uc003uka.2_Missense_Mutation_p.V401G|STEAP2_uc003ukb.2_Missense_Mutation_p.V401G|STEAP2_uc003ukc.2_Intron|STEAP2_uc003ukd.2_Missense_Mutation_p.V401G	NM_152999	NP_694544	Q8NFT2	STEA2_HUMAN	six transmembrane epithelial antigen of the	401	Ferric oxidoreductase.|Helical; (Potential).				electron transport chain|endocytosis|Golgi to plasma membrane transport|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			ovary(2)	2	all_hematologic(106;0.112)					CTTGGATATGTCGCTCTGCTC	0.353													10	13					0	0	0.003163	0	0		G	89861667	G	G	89861667	3	3	194	1	0	0	0	0	1	0	0	0	15303	1667	58	5	1216	5	STEAP2	7	89861667	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	18825322	89861667	69276996	111	96867											
GAL3ST4	79690	broad.mit.edu	37	chr7	99757923	99757923	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagagagcccagtccaggttGttccaggctcgggcccgtgc	6	8	14	13	2	0	1	0	0	0	1	3	2	2	1	4	3	2	3	4	3	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:99757923G>T	uc003utt.2	-	3	2106	c.1089C>A	c.(1087-1089)AAC>AAA	p.N363K	C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.N363K|GAL3ST4_uc010lgq.2_Missense_Mutation_p.N301K	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	363	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGTCCAGGTTGTTCCAGGCTC	0.622													21	49					1.22574e-08	1.33496e-08	0.014323	1	0		T	99757923	T	T	99757923	3	4	194	1	0	0	0	0	1	0	0	0	6215	1368	48	5	375	5	GAL3ST4	7	99757923	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	9896256	99757923	59380740	112	96868											
FOXP2	93986	broad.mit.edu	37	chr7	114269988	114269988	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaacaacaacaacaacaGcagcaacaacagcagcagca	21	0	6	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	6	0	0	7	0	rs147822368		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:114269988G>A	uc003vhb.2	+	5	899	c.525G>A	c.(523-525)CAG>CAA	p.Q175Q	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.Q200Q|FOXP2_uc003vha.2_Silent_p.Q83Q|FOXP2_uc011kmu.1_Silent_p.Q192Q|FOXP2_uc011kmv.1_Silent_p.Q175Q|FOXP2_uc010ljz.1_Silent_p.Q83Q|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Silent_p.Q175Q|FOXP2_uc003vgx.2_Silent_p.Q175Q|FOXP2_uc003vhd.2_Silent_p.Q175Q|FOXP2_uc003vhc.2_Silent_p.Q200Q	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	175	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						aacaacaacagcagcaacaac	0.164													11	10					0	0	0.010729	0	0		A	114269988	A	A	114269988	2	1	194	1	0	0	0	0	0	0	0	1	6041	962	34	2		2	FOXP2	7	114269988	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	14512065	114269988	44868675	113	96869											
FEZF1	389549	broad.mit.edu	37	chr7	121944205	121944205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctccagactggccttcCgcggctcggagcccgtcact	4	7	13	17	4	1	1	1	0	0	1	4	2	3	2	5	4	1	1	5	4	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:121944205C>T	uc003vkd.2	-	1	361	c.287G>A	c.(286-288)CGG>CAG	p.R96Q	FEZF1_uc003vkc.2_Missense_Mutation_p.R96Q|uc010lko.1_RNA|uc003vkf.1_5'Flank	NM_001024613	NP_001019784	A0PJY2	FEZF1_HUMAN	FEZ family zinc finger 1 isoform 1	96					cell differentiation|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)	3						ACTGGCCTTCCGCGGCTCGGA	0.567													11	2					0	0	0.00245	0	0		T	121944205	T	T	121944205	3	4	194	1	0	0	0	0	1	0	0	0	5839	652	23	1	1156	1	FEZF1	7	121944205	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7674217	121944205	37194458	114	96870											
GRM8	2918	broad.mit.edu	37	chr7	126882944	126882944	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcataggtgtccctagagcaCgtgtcgaggatgcggacacc	9	7	14	11	3	0	1	0	0	0	1	2	4	1	3	2	3	2	2	2	3	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:126882944C>T	uc003vlr.2	-	1	626	c.315G>A	c.(313-315)ACG>ACA	p.T105T	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.T105T|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	105	Extracellular (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CCCTAGAGCACGTGTCGAGGA	0.483										HNSCC(24;0.065)			19	19					0	0	0.010504	0	0		T	126882944	T	T	126882944	2	4	194	1	0	0	0	0	0	0	0	1	6819	523	19	1		1	GRM8	7	126882944	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4938739	126882944	32255719	115	96871											
MRPS33	51650	broad.mit.edu	37	chr7	140706300	140706300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccacgaagcttctttagtCgtttttgctcatccataaaa	10	16	5	10	2	2	0	1	0	1	0	5	1	4	0	2	0	2	3	2	0	4	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:140706300C>T	uc003vwd.3	-	3	407	c.251G>A	c.(250-252)CGA>CAA	p.R84Q	MRPS33_uc003vwe.3_Missense_Mutation_p.R84Q	NM_016071	NP_057155	Q9Y291	RT33_HUMAN	mitochondrial ribosomal protein S33	84					translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0	Melanoma(164;0.00956)					CTTCTTTAGTCGTTTTTGCTC	0.373													50	22					0	0	0.01441	0	0		T	140706300	T	T	140706300	3	4	194	1	0	0	0	0	1	0	0	0	9860	884	31	1	73	1	MRPS33	7	140706300	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	13823356	140706300	18432363	116	96872											
NOS3	4846	broad.mit.edu	37	chr7	150703991	150703991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaggagttataagatccGcttcaacagcatctcctgct	10	11	8	12	1	2	1	1	0	1	1	4	2	3	2	3	1	4	4	3	1	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:150703991G>A	uc003wif.2	+	16	2131	c.1835G>A	c.(1834-1836)CGC>CAC	p.R612H	NOS3_uc011kuy.1_Missense_Mutation_p.R406H	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1	612	Flavodoxin-like.				anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	TATAAGATCCGCTTCAACAGC	0.607													57	15					0	0	0.01441	0	0		A	150703991	A	A	150703991	3	1	194	1	0	0	0	0	1	0	0	0	10563	1087	38	1	2175	1	NOS3	7	150703991	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	9997691	150703991	8434672	117	96873											
RBM33	155435	broad.mit.edu	37	chr7	155530820	155530820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtccccctccaccaccacCgcctcctacccttcttaaca	9	8	2	22	1	1	0	0	0	1	0	4	0	4	0	9	0	2	0	9	0	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr7:155530820C>T	uc010lqk.1	+	11	1828	c.1460C>T	c.(1459-1461)CCG>CTG	p.P487L	RBM33_uc011kvv.1_Missense_Mutation_p.P296L	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	487	Pro-rich.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		CCACCACCACCGCCTCCTACC	0.493													70	24					0	0	0.01441	0	0		T	155530820	T	T	155530820	3	4	194	1	0	0	0	0	1	0	0	0	13155	652	23	1	1502	1	RBM33	7	155530820	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4826829	155530820	3607843	118	96874											
MYOM2	9172	broad.mit.edu	37	chr8	2054185	2054185	+	Missense_Mutation	SNP	A	T	T	1	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	taaaatcgaaaccgtgggggAtcagtaagtcaggcctggaa	14	7	13	7	2	2	0	2	0	0	0	3	3	2	2	2	4	1	1	2	4	5	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:2054185A>T	uc003wpx.3	+	22	3026	c.2888A>T	c.(2887-2889)GAT>GTT	p.D963V	MYOM2_uc011kwi.1_Missense_Mutation_p.D388V	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	963	Ig-like C2-type 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		ACCGTGGGGGATCAGTAAGTC	0.443													12	83					0	0	0.010818	0	0		T	2054185	T	T	2054185	3	4	194	1	0	0	0	0	1	0	0	0	10110	333	12	5	2970	5	MYOM2	8	2054185	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08		2054185	144309837	119	96875											
RP1L1	94137	broad.mit.edu	37	chr8	10469956	10469956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctggacagccctggggcCgcccaccccattcgctggat	5	7	12	17	2	0	0	0	0	0	0	1	2	0	2	6	4	2	1	6	4	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:10469956C>T	uc003wtc.2	-	4	1881	c.1652G>A	c.(1651-1653)CGG>CAG	p.R551Q		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	551					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		GCCCTGGGGCCGCCCACCCCA	0.677													85	83					0	0	0.01441	0	0		T	10469956	T	T	10469956	3	4	194	1	0	0	0	0	1	0	0	0	13558	652	23	1	5554	1	RP1L1	8	10469956	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	8415771	10469956	135894066	120	96876											
C8orf79	57604	broad.mit.edu	37	chr8	12878856	12878856	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgaacctgctatggcaaGaacctgttttgcaaatattt	12	14	7	8	0	0	2	0	1	0	1	0	2	0	2	2	1	4	4	2	1	7	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:12878856G>T	uc010lsq.2	+	5	1160	c.668G>T	c.(667-669)AGA>ATA	p.R223I	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Missense_Mutation_p.R136I|C8orf79_uc010lsr.2_Missense_Mutation_p.R97I	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	223							methyltransferase activity				0						GCTATGGCAAGAACCTGTTTT	0.428													4	106					0.00024832	0.00025608	0.009096	1	0		T	12878856	T	T	12878856	3	4	194	1	0	0	0	0	1	0	0	0	2441	942	33	5	678	5	C8orf79	8	12878856	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2408900	12878856	133485166	121	96877											
LGI3	203190	broad.mit.edu	37	chr8	22005847	22005847	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcatcccactggtagatCtgggtgaaggagaaatcact	11	9	10	11	0	3	3	2	1	1	2	4	4	4	3	2	3	0	1	2	3	3	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:22005847C>A	uc003xav.2	-	8	1762	c.1473G>T	c.(1471-1473)CAG>CAT	p.Q491H	LGI3_uc010ltu.2_Missense_Mutation_p.Q467H	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	491	EAR 6.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		ACTGGTAGATCTGGGTGAAGG	0.652													30	27					4.4194e-11	5.02898e-11	0.013726	1	0		A	22005847	A	A	22005847	3	1	194	1	0	0	0	0	1	0	0	0	8769	912	32	5	177	5	LGI3	8	22005847	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	9126991	22005847	124358175	122	96878											
SORBS3	10174	broad.mit.edu	37	chr8	22414348	22414348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaccaaggacagcaagcgtcGggacaagcgctgggtcaagt	12	4	15	10	3	1	0	1	0	0	0	2	3	1	2	1	3	3	2	1	3	4	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:22414348G>A	uc003xbv.2	+	4	681	c.341G>A	c.(340-342)CGG>CAG	p.R114Q	SORBS3_uc011kzk.1_RNA	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	114					muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		AGCAAGCGTCGGGACAAGCGC	0.662													17	88					0	0	0.008871	0	0		A	22414348	A	A	22414348	3	1	194	1	0	0	0	0	1	0	0	0	14954	1116	39	1	351	1	SORBS3	8	22414348	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	408501	22414348	123949674	123	96879											
SCARA3	51435	broad.mit.edu	37	chr8	27516465	27516465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgactggcagaactacacaCggctcttcagcggcctgcgc	8	6	11	16	4	2	1	1	0	1	1	2	2	2	1	2	3	4	2	2	3	2	2	rs147727919		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:27516465C>T	uc003xga.1	+	5	919	c.778C>T	c.(778-780)CGG>TGG	p.R260W	SCARA3_uc003xgb.1_Missense_Mutation_p.R260W	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	260	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		GAACTACACACGGCTCTTCAG	0.622													27	45					0	0	0.00632	0	0		T	27516465	T	T	27516465	3	4	194	1	0	0	0	0	1	0	0	0	13904	527	19	1	796	1	SCARA3	8	27516465	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	5102117	27516465	118847557	124	96880											
SNAI2	6591	broad.mit.edu	37	chr8	49832925	49832925	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacagtgatggggctgtatGctcctgagctgaggatctct	8	11	13	9	0	1	3	0	3	1	0	3	4	2	4	1	3	2	4	1	3	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:49832925G>T	uc003xqp.2	-	2	319	c.155C>A	c.(154-156)GCA>GAA	p.A52E		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	52					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				GGGGCTGTATGCTCCTGAGCT	0.527													40	244					7.88023e-25	9.85029e-25	0.01441	1	0		T	49832925	T	T	49832925	3	4	194	1	0	0	0	0	1	0	0	0	14852	1319	46	5	659	5	SNAI2	8	49832925	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	22316460	49832925	96531097	125	96881											
MYBL1	4603	broad.mit.edu	37	chr8	67492545	67492545	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaggctatttagagtattAgacatgttatcatccatgag	13	14	8	6	0	2	3	2	1	0	2	3	3	3	3	1	1	0	3	1	1	6	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:67492545A>C	uc003xwj.2	-	9	1331	c.924T>G	c.(922-924)TCT>TCG	p.S308S	MYBL1_uc003xwl.2_Silent_p.S308S|MYBL1_uc003xwk.2_Silent_p.S307S	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	308	Negative regulatory domain (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			TTAGAGTATTAGACATGTTAT	0.388													25	27					0	0	0.013726	0	0		C	67492545	C	C	67492545	2	2	194	1	0	0	0	0	0	0	0	1	10027	407	15	5		5	MYBL1	8	67492545	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	17659620	67492545	78871477	126	96882											
SULF1	23213	broad.mit.edu	37	chr8	70540421	70540421	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcagctattacaataaagaGaaaggtgtaaaaaagcaaga	21	7	9	4	0	0	2	0	0	0	2	0	3	0	2	0	1	4	4	0	1	10	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:70540421G>A	uc010lza.1	+	18	2775	c.2058G>A	c.(2056-2058)GAG>GAA	p.E686E	SULF1_uc003xyd.2_Silent_p.E686E|SULF1_uc003xye.2_Silent_p.E686E|SULF1_uc003xyf.2_Silent_p.E686E|SULF1_uc003xyg.2_Silent_p.E686E|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_5'UTR	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	686					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			ACAATAAAGAGAAAGGTGTAA	0.353													38	99					0	0	0.009718	0	0		A	70540421	A	A	70540421	2	1	194	1	0	0	0	0	0	0	0	1	15395	933	33	4		4	SULF1	8	70540421	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3047876	70540421	75823601	127	96883											
ZFPM2	23414	broad.mit.edu	37	chr8	106813641	106813641	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggacaagtgtgagaaaaAgactcagctctttctcacga	13	9	10	9	1	3	2	2	1	2	2	4	5	3	3	0	1	1	2	0	1	3	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:106813641A>C	uc003ymd.2	+	8	1354	c.1331A>C	c.(1330-1332)AAG>ACG	p.K444T	ZFPM2_uc011lhs.1_Missense_Mutation_p.K175T|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	444					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			TGTGAGAAAAAGACTCAGCTC	0.458													21	9					0	0	0.010504	0	0		C	106813641	C	C	106813641	3	2	194	1	0	0	0	0	1	0	0	0	17683	72	3	5	1361	5	ZFPM2	8	106813641	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	36273220	106813641	39550381	128	96884											
ANGPT1	284	broad.mit.edu	37	chr8	108359227	108359227	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagtctgagagaggaggctGgttcctatctccagcatggt	8	10	14	9	0	2	2	0	1	2	1	4	4	3	3	2	4	1	4	2	4	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:108359227G>T	uc003ymn.2	-	2	864	c.396C>A	c.(394-396)ACC>ACA	p.T132T	ANGPT1_uc003ymo.2_Silent_p.T132T	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	132					activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|blood coagulation|cell differentiation|heparin biosynthetic process|leukocyte migration|negative regulation of cell adhesion|negative regulation of endothelial cell apoptosis|negative regulation of vascular permeability|positive chemotaxis|positive regulation of blood vessel endothelial cell migration|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|positive regulation of receptor internalization|protein localization at cell surface|regulation of satellite cell proliferation|sprouting angiogenesis|Tie receptor signaling pathway	extracellular space|membrane raft|microvillus|plasma membrane	receptor tyrosine kinase binding			ovary(3)|skin(3)|upper_aerodigestive_tract(1)	7	Breast(1;5.06e-08)		OV - Ovarian serous cystadenocarcinoma(57;5.53e-09)			AGAGGAGGCTGGTTCCTATCT	0.502													90	50					4.64247e-43	5.84739e-43	0.01441	1	0		T	108359227	T	T	108359227	2	4	194	1	0	0	0	0	0	0	0	1	610	1335	47	5		5	ANGPT1	8	108359227	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1545586	108359227	38004795	129	96885											
TRPS1	7227	broad.mit.edu	37	chr8	116427108	116427108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttacttaggctggggagtgGaatttctctctggtgacttt	6	17	12	6	0	2	1	0	1	2	0	3	3	2	3	0	5	1	1	0	5	3	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:116427108G>A	uc003ynz.2	-	6	3448	c.2989C>T	c.(2989-2991)CCA>TCA	p.P997S	TRPS1_uc011lhy.1_Missense_Mutation_p.P1001S|TRPS1_uc003yny.2_Missense_Mutation_p.P1010S|TRPS1_uc010mcy.2_Missense_Mutation_p.P997S	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	997	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			CTGGGGAGTGGAATTTCTCTC	0.483									Langer-Giedion_syndrome				47	128					0	0	0.01441	0	0		A	116427108	A	A	116427108	3	1	194	1	0	0	0	0	1	0	0	0	16619	1174	41	4	860	4	TRPS1	8	116427108	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	8067881	116427108	29936914	130	96886											
MTSS1	9788	broad.mit.edu	37	chr8	125565369	125565369	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagggtcactctctggaatcTggcctggggagacagtggca	8	8	15	10	0	3	1	1	0	2	1	4	3	3	2	1	6	0	1	1	6	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:125565369T>C	uc003yrk.2	-	14	2666	c.2132A>G	c.(2131-2133)CAG>CGG	p.Q711R	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.Q360R|MTSS1_uc011lin.1_Missense_Mutation_p.Q485R|MTSS1_uc011lio.1_Missense_Mutation_p.Q601R|MTSS1_uc003yri.2_Missense_Mutation_p.Q429R|MTSS1_uc003yrj.2_Missense_Mutation_p.Q686R|MTSS1_uc003yrl.2_Missense_Mutation_p.Q715R	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	711	Pro-rich.				actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTCTGGAATCTGGCCTGGGGA	0.567													93	315					0	0	0.01441	0	0		C	125565369	C	C	125565369	3	2	194	1	0	0	0	0	1	0	0	0	9980	1580	55	3	139	3	MTSS1	8	125565369	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	9138261	125565369	20798653	131	96887											
TRAPPC9	83696	broad.mit.edu	37	chr8	141294065	141294065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagccactggtttttattccCggcaggttatccagcaaaca	10	11	9	11	1	0	0	0	0	0	0	2	1	2	0	3	3	3	4	3	3	3	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:141294065C>T	uc003yvj.2	-	14	2171	c.2037G>A	c.(2035-2037)CCG>CCA	p.P679P	TRAPPC9_uc003yvh.2_Silent_p.P777P|TRAPPC9_uc010mel.1_Silent_p.P100P|TRAPPC9_uc003yvi.1_Silent_p.P670P	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform	679					cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						TTTTTATTCCCGGCAGGTTAT	0.522													21	90					0	0	0.014323	0	0		T	141294065	T	T	141294065	2	4	194	1	0	0	0	0	0	0	0	1	16491	639	23	1		1	TRAPPC9	8	141294065	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	15728696	141294065	5069957	132	96888											
GPAA1	8733	broad.mit.edu	37	chr8	145139196	145139196	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	caatctcttccagaccttctGccagaaagggggcctgttgt	8	11	10	12	0	2	2	0	0	2	2	4	2	3	2	4	2	1	1	4	2	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr8:145139196G>T	uc003zax.2	+	6	886	c.776G>T	c.(775-777)TGC>TTC	p.C259F	GPAA1_uc003zav.1_Missense_Mutation_p.C137F|GPAA1_uc003zaw.1_Missense_Mutation_p.C199F	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	259	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CAGACCTTCTGCCAGAAAGGG	0.627													23	101					3.65163e-15	4.36608e-15	0.00632	1	0		T	145139196	T	T	145139196	3	4	194	1	0	0	0	0	1	0	0	0	6602	1319	46	5	798	5	GPAA1	8	145139196	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3845131	145139196	1224826	133	96889											
ELAVL2	1993	broad.mit.edu	37	chr9	23692860	23692860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagccaaactggtcattcCgtcaatggtcattggagaaa	12	10	9	10	1	3	1	3	0	0	1	5	2	5	1	3	3	2	0	3	3	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr9:23692860C>T	uc003zpu.2	-	7	1050	c.775G>A	c.(775-777)GGA>AGA	p.G259R	ELAVL2_uc003zps.2_Missense_Mutation_p.G246R|ELAVL2_uc003zpt.2_Missense_Mutation_p.G246R|ELAVL2_uc003zpv.2_Missense_Mutation_p.G259R|ELAVL2_uc003zpw.2_Missense_Mutation_p.G246R	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	259					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		CTGGTCATTCCGTCAATGGTC	0.423													22	30					0	0	0.004656	0	0		T	23692860	T	T	23692860	3	4	194	1	0	0	0	0	1	0	0	0	5058	661	23	1	308	1	ELAVL2	9	23692860	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08		23692860	117520571	134	96890											
LINGO2	158038	broad.mit.edu	37	chr9	27949498	27949498	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaaatccttgaaagacCtctcacggatggtgtctggg	10	11	12	8	1	2	2	1	1	2	1	4	4	3	4	2	4	0	0	2	4	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr9:27949498C>T	uc003zqu.1	-	2	1366	c.1172G>A	c.(1171-1173)AGG>AAG	p.R391K	LINGO2_uc010mjf.1_Missense_Mutation_p.R391K|LINGO2_uc003zqv.1_Missense_Mutation_p.R391K	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	391	LRRCT.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		CTTGAAAGACCTCTCACGGAT	0.502													28	52					0	0	0.007291	0	0		T	27949498	T	T	27949498	3	4	194	1	0	0	0	0	1	0	0	0	8832	681	24	4	652	4	LINGO2	9	27949498	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4256638	27949498	113263933	135	96891											
ZNF658	26149	broad.mit.edu	37	chr9	40773269	40773269	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgctctcagggctgaattgTaggtgaaagatctcccacat	10	11	11	9	0	2	3	1	2	2	1	4	3	2	3	1	2	1	3	1	2	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr9:40773269T>C	uc004abs.2	-	5	2158	c.2006A>G	c.(2005-2007)TAC>TGC	p.Y669C	ZNF658_uc010mmm.1_Intron|ZNF658_uc010mmn.1_Missense_Mutation_p.Y669C	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	669	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		GGCTGAATTGTAGGTGAAAGA	0.418													43	116					0	0	0.01441	0	0		C	40773269	C	C	40773269	3	2	194	1	0	0	0	0	1	0	0	0	18094	1638	57	3	1177	3	ZNF658	9	40773269	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	12823771	40773269	100440162	136	96892											
DAPK1	1612	broad.mit.edu	37	chr9	90266561	90266561	+	Missense_Mutation	SNP	T	A	A	0	1	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	cacggcaatactcccctccaTgtggcatgtaaagatggcaa	12	8	9	12	1	0	1	0	0	0	1	2	1	2	1	3	3	1	4	3	3	5	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr9:90266561T>A	uc004apc.2	+	17	1884	c.1746T>A	c.(1744-1746)CAT>CAA	p.H582Q	DAPK1_uc004apd.2_Missense_Mutation_p.H582Q|DAPK1_uc011ltg.1_Missense_Mutation_p.H582Q|DAPK1_uc011lth.1_Missense_Mutation_p.H319Q|DAPK1_uc004apf.1_Missense_Mutation_p.H136Q	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	582	ANK 7.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						CTCCCCTCCATGTGGCATGTA	0.498									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				17	47					0	0	0.007413	0	0		A	90266561	A	A	90266561	3	1	194	1	0	0	0	0	1	0	0	0	4238	1461	51	5	1808	5	DAPK1	9	90266561	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	49493292	90266561	50946870	137	96893											
FBP2	8789	broad.mit.edu	37	chr9	97333768	97333768	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagcatgaagaggtccacGccttgccctgtggagagagc	10	7	13	11	1	1	3	1	1	0	2	2	5	2	4	3	2	3	1	3	2	2	1	rs144416702		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr9:97333768G>A	uc004auv.2	-	4	610	c.543C>T	c.(541-543)GGC>GGT	p.G181G	uc004auu.2_Intron	NM_003837	NP_003828	O00757	F16P2_HUMAN	fructose-1,6-bisphosphatase 2	181					fructose metabolic process|gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)				AGAGGTCCACGCCTTGCCCTG	0.562													17	48					0	0	0.007413	0	0		A	97333768	A	A	97333768	2	1	194	1	0	0	0	0	0	0	0	1	5720	1074	38	1		1	FBP2	9	97333768	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	7067207	97333768	43879663	138	96894											
OR1L3	26735	broad.mit.edu	37	chr9	125437502	125437502	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccactctttgccctctttCttatcatatacctggtcact	6	16	5	14	0	5	0	2	0	3	0	5	0	5	0	3	2	2	0	3	2	3	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr9:125437502C>A	uc011lzb.1	+	1	94	c.94C>A	c.(94-96)CTT>ATT	p.L32I		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGCCCTCTTTCTTATCATATA	0.443													34	95					1.90571e-15	2.3036e-15	0.019004	1	0		A	125437502	A	A	125437502	3	1	194	1	0	0	0	0	1	0	0	0	10983	913	32	5	96	5	OR1L3	9	125437502	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	28103734	125437502	15775929	139	96895											
CIZ1	25792	broad.mit.edu	37	chr9	130940034	130940034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcagggagcccccggcGccccatacctgcatggggag	7	5	13	16	2	1	0	1	0	0	0	1	2	1	2	6	4	3	1	6	4	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr9:130940034G>A	uc004btt.2	-	10	1792	c.1629C>T	c.(1627-1629)GGC>GGT	p.G543G	CIZ1_uc004btr.2_Silent_p.G515G|CIZ1_uc004bts.2_Silent_p.G514G|CIZ1_uc011maq.1_Silent_p.G482G|CIZ1_uc004btu.2_Silent_p.G463G|CIZ1_uc011mar.1_Silent_p.G442G|CIZ1_uc011mas.1_Silent_p.G573G|CIZ1_uc004btw.2_Silent_p.G487G|CIZ1_uc004btv.2_Silent_p.G543G	NM_001131016	NP_001124488	Q9ULV3	CIZ1_HUMAN	CDKN1A interacting zinc finger protein 1 isoform	543						nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4						AGCCCCCGGCGCCCCATACCT	0.577													6	6					0	0	0.001168	0	0		A	130940034	A	A	130940034	2	1	194	1	0	0	0	0	0	0	0	1	3444	1074	38	1		1	CIZ1	9	130940034	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	5502532	130940034	10273397	140	96896											
NEBL	10529	broad.mit.edu	37	chr10	21104554	21104554	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgaagaaaaccacttgcCgagctaatattttcttgatt	15	13	6	7	1	1	3	0	2	1	1	1	4	1	3	2	0	3	1	2	0	6	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:21104554C>T	uc001iqi.2	-	22	2638	c.2241G>A	c.(2239-2241)TCG>TCA	p.S747S	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_RNA	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	747	Nebulin 21.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						AACCACTTGCCGAGCTAATAT	0.348													19	16					0	0	0.008871	0	0		T	21104554	T	T	21104554	2	4	194	1	0	0	0	0	0	0	0	1	10322	666	23	1		1	NEBL	10	21104554	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08		21104554	114430193	141	96897											
ABI1	10006	broad.mit.edu	37	chr10	27057879	27057879	+	Silent	SNP	T	C	C	0	1	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	atatagtcattaggaactgtTgggggtttaacaggttccag	11	13	12	5	0	1	0	1	0	0	0	2	1	2	1	1	4	2	3	1	4	5	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:27057879T>C	uc001isx.2	-	6	788	c.621A>G	c.(619-621)CCA>CCG	p.P207P	ABI1_uc001ite.2_Silent_p.P202P|ABI1_uc010qdh.1_Silent_p.P202P|ABI1_uc010qdi.1_Silent_p.P143P|ABI1_uc001isy.2_Silent_p.P207P|ABI1_uc001ita.2_Silent_p.P207P|ABI1_uc001isz.2_Silent_p.P202P|ABI1_uc001itb.2_Silent_p.P224P|ABI1_uc001itc.2_Silent_p.P207P|ABI1_uc010qdj.1_Silent_p.P207P|ABI1_uc001itd.2_Silent_p.P207P|ABI1_uc010qdk.1_Silent_p.P207P|ABI1_uc010qdg.1_Silent_p.P73P	NM_005470	NP_005461	Q8IZP0	ABI1_HUMAN	abl-interactor 1 isoform a	207					actin polymerization or depolymerization|cellular component movement|negative regulation of cell proliferation|peptidyl-tyrosine phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	cell junction|cytoskeleton|cytosol|endoplasmic reticulum|filopodium|growth cone|lamellipodium|nucleus|soluble fraction|synapse|synaptosome	cytoskeletal protein binding			central_nervous_system(1)	1						TAGGAACTGTTGGGGGTTTAA	0.403													99	45					0	0	0.01441	0	0		C	27057879	C	C	27057879	2	2	194	1	0	0	0	0	0	0	0	1	88	1799	63	3		3	ABI1	10	27057879	Silent	SNP	T	TCGA-FP-7829-01A-11D-2053-08	5953325	27057879	108476868	142	96898											
ANKRD30A	91074	broad.mit.edu	37	chr10	37506754	37506754	+	Frame_Shift_Del	DEL	C	-	-																															gaaacaacaacttgaacaggCtctcagaatacaagatatag																										TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:37506754delC	uc001iza.1	+	33	3146	c.3047delC	c.(3046-3048)GCTfs	p.A1016fs		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	1072	Potential.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						CTTGAACAGGCTCTCAGAATA	0.294													24	43	---	---	---	---						.	-	37506754	-	-	37506754	7	5	194	1	0	1	0	1	0	0	0	0	658	797	28	0	3177	0	ANKRD30A	10	37506754	Frame_Shift_Del	DEL	C	TCGA-FP-7829-01A-11D-2053-08	10448875	37506754	98027993	143	96899											
TMEM72	643236	broad.mit.edu	37	chr10	45427458	45427458	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgcaggtttacaggagcCgctgtctccatatgtgaagg	9	10	12	10	1	1	1	0	1	1	0	2	2	1	2	3	3	3	3	3	3	3	3	rs80056477	byFrequency	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:45427458C>T	uc001jbn.2	+	3	347	c.150C>T	c.(148-150)GCC>GCT	p.A50A	uc001jbk.1_Intron|uc001jbl.2_Intron|TMEM72_uc009xmm.1_5'UTR	NM_001123376	NP_001116848	A0PK05	TMM72_HUMAN	transmembrane protein 72	50	Helical; (Potential).					integral to membrane					0						TTACAGGAGCCGCTGTCTCCA	0.572													3	23					0	0	0.014758	0	0		T	45427458	T	T	45427458	2	4	194	1	0	0	0	0	0	0	0	1	16226	639	23	1		1	TMEM72	10	45427458	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7920704	45427458	90107289	144	96900											
CHAT	1103	broad.mit.edu	37	chr10	50854647	50854647	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagctcagcgacacccacaGggcactccagctccttcacg	9	5	10	17	2	2	0	2	0	0	0	4	2	4	1	3	2	3	3	3	2	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:50854647G>T	uc001jhz.2	+	8	1361	c.1208G>T	c.(1207-1209)AGG>ATG	p.R403M	CHAT_uc001jhv.1_Missense_Mutation_p.R285M|CHAT_uc001jhx.1_Missense_Mutation_p.R285M|CHAT_uc001jhy.1_Missense_Mutation_p.R285M|CHAT_uc001jia.2_Missense_Mutation_p.R285M|CHAT_uc010qgs.1_Missense_Mutation_p.R285M	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2	403					neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	GACACCCACAGGGCACTCCAG	0.632													16	48					1.00905e-13	1.18923e-13	0.008871	1	0		T	50854647	T	T	50854647	3	4	194	1	0	0	0	0	1	0	0	0	3316	1000	35	5	1282	5	CHAT	10	50854647	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	5427189	50854647	84680100	145	96901											
ZNF365	22891	broad.mit.edu	37	chr10	64415217	64415217	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccatcctgcagagaggaaaAcccaagtttggcgttggcag	11	8	12	10	1	0	1	0	0	0	1	2	3	2	2	3	3	2	4	3	3	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:64415217A>C	uc001jmd.1	+	4	551	c.217A>C	c.(217-219)ACC>CCC	p.T73P	ZNF365_uc001jmc.2_Intron|ZNF365_uc001jme.1_Intron|ZNF365_uc001jmf.1_Intron|ZNF365_uc009xpg.1_Intron	NM_199452	NP_955524	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform D	73										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					AGAGAGGAAAACCCAAGTTTG	0.502													21	25					0	0	0.012319	0	0		C	64415217	C	C	64415217	3	2	194	1	0	0	0	0	1	0	0	0	17894	43	2	5	1705	5	ZNF365	10	64415217	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	13560570	64415217	71119530	146	96902											
LRRTM3	347731	broad.mit.edu	37	chr10	68687350	68687350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agctcaacctggccctttttCcaaggttggtcagccttcag	7	12	9	13	0	3	0	3	0	0	0	4	0	4	0	4	3	3	2	4	3	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:68687350C>A	uc001jmz.1	+	2	1226	c.676C>A	c.(676-678)CCA>ACA	p.P226T	CTNNA3_uc009xpn.1_Intron|CTNNA3_uc001jmw.2_Intron|CTNNA3_uc001jmx.3_Intron|CTNNA3_uc009xpo.1_Intron|LRRTM3_uc001jmy.2_Missense_Mutation_p.P226T	NM_178011	NP_821079	Q86VH5	LRRT3_HUMAN	leucine rich repeat transmembrane neuronal 3	226	Extracellular (Potential).|LRR 7.					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						GGCCCTTTTTCCAAGGTTGGT	0.463													27	41					1.39806e-14	1.65956e-14	0.008361	1	0		A	68687350	A	A	68687350	3	1	194	1	0	0	0	0	1	0	0	0	9059	855	30	5	682	5	LRRTM3	10	68687350	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4272133	68687350	66847397	147	96903											
CPN1	1369	broad.mit.edu	37	chr10	101825124	101825124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	caccgcccgggtctcgggttCcacctgggaggaggcgagag	6	5	17	13	4	1	1	0	0	1	1	3	4	2	3	4	5	0	1	4	5	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:101825124C>T	uc001kql.2	-	4	840	c.580G>A	c.(580-582)GAA>AAA	p.E194K		NM_001308	NP_001299	P15169	CBPN_HUMAN	carboxypeptidase N, polypeptide 1 precursor	194	Catalytic.				proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			central_nervous_system(3)|pancreas(1)	4		Colorectal(252;0.234)		Epithelial(162;4.77e-10)|all cancers(201;3.82e-08)		GTCTCGGGTTCCACCTGGGAG	0.582													10	16					0	0	0.010729	0	0		T	101825124	T	T	101825124	3	4	194	1	0	0	0	0	1	0	0	0	3812	864	30	4	820	4	CPN1	10	101825124	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	33137774	101825124	33709623	148	96904											
FAM178A	55719	broad.mit.edu	37	chr10	102684668	102684668	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacttcaatcagactcctgCagctacaggaaagcctcctg	12	8	8	13	0	2	1	2	0	0	1	4	3	4	2	3	1	5	2	3	1	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:102684668C>T	uc001krt.3	+	5	2452	c.1910C>T	c.(1909-1911)GCA>GTA	p.A637V	FAM178A_uc001krr.1_Missense_Mutation_p.A637V|FAM178A_uc001krs.2_Missense_Mutation_p.A637V|FAM178A_uc001kru.1_Missense_Mutation_p.A572V	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	637											0						CAGACTCCTGCAGCTACAGGA	0.413													4	82					0	0	0.009096	0	0		T	102684668	T	T	102684668	3	4	194	1	0	0	0	0	1	0	0	0	5514	710	25	2	1928	2	FAM178A	10	102684668	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	859544	102684668	32850079	149	96905											
SORCS1	114815	broad.mit.edu	37	chr10	108389086	108389086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttccatggagctgagattgaCgtaagacaccgcgataccat	12	9	10	10	3	0	3	0	2	0	2	1	6	1	4	3	1	2	2	3	1	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:108389086C>T	uc001kym.2	-	19	2544	c.2536G>A	c.(2536-2538)GTC>ATC	p.V846I	SORCS1_uc001kyl.2_Missense_Mutation_p.V846I|SORCS1_uc009xxs.2_Missense_Mutation_p.V846I|SORCS1_uc001kyn.1_Missense_Mutation_p.V846I|SORCS1_uc001kyo.2_Missense_Mutation_p.V846I	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	846	Lumenal (Potential).|PKD.					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CTGAGATTGACGTAAGACACC	0.488													13	41					0	0	0.003163	0	0		T	108389086	T	T	108389086	3	4	194	1	0	0	0	0	1	0	0	0	14955	536	19	1	1236	1	SORCS1	10	108389086	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	5704418	108389086	27145661	150	96906											
HSPA12A	259217	broad.mit.edu	37	chr10	118434850	118434850	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcctgcaccgcctgctgCagcaggggcgcctcggcaaa	7	4	14	16	3	0	0	0	0	0	0	1	0	0	0	4	3	5	6	4	3	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:118434850C>A	uc001lct.2	-	12	1575	c.1470G>T	c.(1468-1470)CTG>CTT	p.L490L	HSPA12A_uc001lcu.2_Silent_p.L407L	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	490							ATP binding			ovary(1)	1				all cancers(201;0.0158)		CCGCCTGCTGCAGCAGGGGCG	0.642													7	20					0.00307968	0.00313671	0.00308	1	0		A	118434850	A	A	118434850	2	1	194	1	0	0	0	0	0	0	0	1	7420	697	25	5		5	HSPA12A	10	118434850	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	10045764	118434850	17099897	151	96907											
TACC2	10579	broad.mit.edu	37	chr10	123844926	123844926	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagcagatgtcttaaaaGacttttctcttgcagggaac	12	11	9	9	0	2	2	0	0	2	2	3	3	2	3	0	1	4	3	0	1	3	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:123844926G>T	uc001lfv.2	+	4	3271	c.2911G>T	c.(2911-2913)GAC>TAC	p.D971Y	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.D971Y|TACC2_uc010qtv.1_Missense_Mutation_p.D971Y	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	971						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				TGTCTTAAAAGACTTTTCTCT	0.547													56	41					3.00063e-23	3.73663e-23	0.01441	1	0		T	123844926	T	T	123844926	3	4	194	1	0	0	0	0	1	0	0	0	15527	942	33	5	2921	5	TACC2	10	123844926	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	5410076	123844926	11689821	152	96908											
DMBT1	1755	broad.mit.edu	37	chr10	124339248	124339248	+	Silent	SNP	C	A	A	0	0	0	1	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	tgcaggcagctgggctgtggCtgggccatgtcagccccagg	5	7	17	12	0	1	0	1	0	0	0	1	0	1	0	3	5	3	5	3	5	0	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:124339248C>A	uc001lgk.1	+	10	940	c.834C>A	c.(832-834)GGC>GGA	p.G278G	DMBT1_uc001lgl.1_Silent_p.G278G|DMBT1_uc001lgm.1_Silent_p.G278G|DMBT1_uc009xzz.1_Silent_p.G278G|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Silent_p.G130G	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	278	SRCR 2.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TGGGCTGTGGCTGGGCCATGT	0.602													88	272					1.82171e-49	2.3301e-49	0.01441	1	0		A	124339248	A	A	124339248	2	1	194	1	0	0	0	0	0	0	0	1	4583	784	28	5		5	DMBT1	10	124339248	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	494322	124339248	11195499	153	96909											
EBF3	253738	broad.mit.edu	37	chr10	131671794	131671794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccgtgtttggaattgttgtGcacaaacatgttgtctgaca	9	14	10	8	1	1	1	0	1	1	0	1	2	1	2	1	1	2	4	1	1	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:131671794G>A	uc001lki.1	-	8	762	c.703C>T	c.(703-705)CAC>TAC	p.H235Y		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	235					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		GAATTGTTGTGCACAAACATG	0.507													22	27					0	0	0.01892	0	0		A	131671794	A	A	131671794	3	1	194	1	0	0	0	0	1	0	0	0	4888	1319	46	2	988	2	EBF3	10	131671794	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	7332546	131671794	3862953	154	96910											
C10orf93	255352	broad.mit.edu	37	chr10	134755211	134755211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggatgcagtcctcgctcaCctctggctgcctcatctgca	5	12	9	15	1	4	0	2	0	2	0	6	1	5	1	3	2	3	4	3	2	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr10:134755211C>T	uc001llt.1	-	3	266	c.190G>A	c.(190-192)GTG>ATG	p.V64M	C10orf93_uc001llu.2_Missense_Mutation_p.V64M	NM_173572	NP_775843	Q5SR76	CJ093_HUMAN	hypothetical protein LOC255352	64							binding			pancreas(1)	1		all_cancers(35;1.8e-07)|all_epithelial(44;6.22e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Colorectal(31;0.119)|Glioma(114;0.172)|Melanoma(40;0.175)		Epithelial(32;4.28e-05)|OV - Ovarian serous cystadenocarcinoma(35;4.31e-05)|all cancers(32;5.02e-05)		TCCTCGCTCACCTCTGGCTGC	0.612													17	31					0	0	0.010504	0	0		T	134755211	T	T	134755211	3	4	194	1	0	0	0	0	1	0	0	0	1628	507	18	4	1055	4	C10orf93	10	134755211	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	3083417	134755211	779536	155	96911											
ANO9	338440	broad.mit.edu	37	chr11	430130	430130	+	Frame_Shift_Del	DEL	G	-	-																															ccgctggtacctgcggctgtGgtcgccgaggggacacatga																										TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:430130delG	uc001lpi.2	-	9	809	c.724delC	c.(724-726)CACfs	p.H242fs	ANO9_uc001lph.2_5'Flank|ANO9_uc010qvv.1_Frame_Shift_Del_p.H98fs	NM_001012302	NP_001012302	A1A5B4	ANO9_HUMAN	tumor protein p53 inducible protein 5	242	Extracellular (Potential).					chloride channel complex	chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4						CTGCGGCTGTGGTCGCCGAGG	0.652													2	4	---	---	---	---						.	-	430130	-	-	430130	7	5	194	1	0	1	0	1	0	0	0	0	704	1348	47	0	1684	0	ANO9	11	430130	Frame_Shift_Del	DEL	G	TCGA-FP-7829-01A-11D-2053-08		430130	134576386	156	96912											
EPS8L2	64787	broad.mit.edu	37	chr11	709560	709560	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcccctgcagtggcagcCtgggccggtccgacggtgtg	3	7	15	16	3	0	0	0	0	0	0	2	1	2	0	6	4	2	2	6	4	0	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:709560C>T	uc001lqt.2	+	3	299	c.52C>T	c.(52-54)CTG>TTG	p.L18L	EPS8L2_uc010qwj.1_Silent_p.L18L|EPS8L2_uc001lqu.2_Silent_p.L18L|EPS8L2_uc010qwk.1_Silent_p.L18L|EPS8L2_uc001lqv.2_5'Flank	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	18						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CAGTGGCAGCCTGGGCCGGTC	0.642													26	7					0	0	0.008361	0	0		T	709560	T	T	709560	2	4	194	1	0	0	0	0	0	0	0	1	5204	680	24	4		4	EPS8L2	11	709560	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	279430	709560	134296956	157	96913											
MUC5B	727897	broad.mit.edu	37	chr11	1272662	1272662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggatcctcacagagcCgagcactatagccaccgtga	11	6	9	15	2	1	2	1	1	0	1	2	4	2	3	5	1	3	1	5	1	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:1272662C>T	uc009ycr.1	+	52	15644	c.15518C>T	c.(15517-15519)CCG>CTG	p.P5173L	MUC5B_uc001ltb.2_Missense_Mutation_p.P4854L	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4851	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCACAGAGCCGAGCACTATA	0.627													32	120					0	0	0.012213	0	0		T	1272662	T	T	1272662	3	4	194	1	0	0	0	0	1	0	0	0	9997	652	23	1	14683	1	MUC5B	11	1272662	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	563102	1272662	133733854	158	96914											
OR52H1	390067	broad.mit.edu	37	chr11	5566174	5566174	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatatcagcacaggcgagctGggcaacacctatatgctcac	12	7	10	12	1	2	0	2	0	0	0	2	2	2	0	1	2	4	4	1	2	4	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:5566174G>T	uc010qzh.1	-	1	580	c.580C>A	c.(580-582)CAG>AAG	p.Q194K	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGCGAGCTGGGCAACACCT	0.488													20	67					1.10513e-12	1.28867e-12	0.014323	1	0		T	5566174	T	T	5566174	3	4	194	1	0	0	0	0	1	0	0	0	11138	1357	47	5	385	5	OR52H1	11	5566174	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	4293512	5566174	129440342	159	96915											
OR56A1	120796	broad.mit.edu	37	chr11	6048513	6048513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caaattgattagtgatgatgGatgggtaccgcagtgggtgg	10	11	16	4	1	0	3	0	3	0	0	0	4	0	4	1	4	1	2	1	4	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:6048513G>A	uc010qzw.1	-	1	422	c.422C>T	c.(421-423)TCC>TTC	p.S141F		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGTGATGATGGATGGGTACCG	0.498													19	62					0	0	0.014323	0	0		A	6048513	A	A	6048513	3	1	194	1	0	0	0	0	1	0	0	0	11152	1174	41	4	538	4	OR56A1	11	6048513	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	482339	6048513	128958003	160	96916											
LMO1	4004	broad.mit.edu	37	chr11	8284922	8284922	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcatctcgggcgctccGtgtccagccgcagctaggct	6	8	11	16	4	2	0	1	0	1	0	5	0	4	0	4	2	2	4	4	2	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:8284922G>A	uc001mgg.1	-	1	485	c.-12C>T	c.(-14--10)CACGG>CATGG		LMO1_uc009yfo.1_RNA|LMO1_uc001mgh.1_Intron	NM_002315	NP_002306	P25800	RBTN1_HUMAN	LIM domain only 1						cell proliferation|multicellular organismal development|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;1.59e-07)|BRCA - Breast invasive adenocarcinoma(625;0.203)		CGGGCGCTCCGTGTCCAGCCG	0.736			T|A	TRD@	T-ALL|neuroblastoma	neuroblastoma							11	33					0	0	0.016723	0	0		A	8284922	A	A	8284922	1	1	194	1	0	0	0	0	0	0	0	0	8868	1160	40	1		1	LMO1	11	8284922	Translation_Start_Site	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2236409	8284922	126721594	161	96917											
OR4C13	283092	broad.mit.edu	37	chr11	49974600	49974600	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gttcatatgcctgttaaactGtctcttgctcctggtctcct	5	17	7	12	0	3	0	1	0	2	0	6	0	4	0	3	1	3	3	3	1	3	4	rs138466175	byFrequency	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:49974600G>T	uc010rhz.1	+	1	626	c.626G>T	c.(625-627)TGT>TTT	p.C209F		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	209	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CTGTTAAACTGTCTCTTGCTC	0.488													53	61					3.53049e-34	4.42989e-34	0.01441	1	0		T	49974600	T	T	49974600	3	4	194	1	0	0	0	0	1	0	0	0	11066	1377	48	5	628	5	OR4C13	11	49974600	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	41689678	49974600	85031916	162	96918											
DDB1	1642	broad.mit.edu	37	chr11	61081144	61081144	+	Silent	SNP	G	T	T	0	0	1	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	ctcaatacggtgggctgggtGcccaaagtcaccttcttacg	8	10	11	12	2	3	0	2	0	1	0	3	0	3	0	2	3	3	1	2	3	4	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:61081144G>T	uc001nrc.3	-	16	2122	c.1896C>A	c.(1894-1896)GGC>GGA	p.G632G	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Silent_p.G632G	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	632	Interaction with CDT1.|Interaction with CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						TGGGCTGGGTGCCCAAAGTCA	0.478								NER					5	13					1.23904e-05	1.29804e-05	0.014758	1	0		T	61081144	T	T	61081144	2	4	194	1	0	0	0	0	0	0	0	1	4326	1306	46	5		5	DDB1	11	61081144	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	11106544	61081144	73925372	163	96919											
BEST1	7439	broad.mit.edu	37	chr11	61729788	61729788	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgaggaggatgctcacgctGgcatcattggccgcttccta	8	9	12	12	3	2	0	2	0	0	0	3	3	3	2	2	4	1	4	2	4	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:61729788G>C	uc001nss.2	+	10	1742	c.1162G>C	c.(1162-1164)GGC>CGC	p.G388R	BEST1_uc010rlq.1_3'UTR|BEST1_uc010rlr.1_Missense_Mutation_p.W259S|BEST1_uc010rls.1_Missense_Mutation_p.G16R|BEST1_uc001nsr.2_Missense_Mutation_p.G328R|BEST1_uc009ynt.2_RNA|BEST1_uc010rlt.1_Missense_Mutation_p.G328R|BEST1_uc001nst.2_Missense_Mutation_p.G301R|BEST1_uc010rlu.1_3'UTR|BEST1_uc010rlv.1_Missense_Mutation_p.G282R	NM_004183	NP_004174	O76090	BEST1_HUMAN	bestrophin 1 isoform 1	388	Cytoplasmic (Potential).				response to stimulus|transepithelial chloride transport|visual perception	basolateral plasma membrane|chloride channel complex|cytosol|membrane fraction	chloride channel activity			central_nervous_system(1)	1						TGCTCACGCTGGCATCATTGG	0.562													15	51					0	0	0.00499	0	0		C	61729788	C	C	61729788	3	2	194	1	0	0	0	0	1	0	0	0	1405	1348	47	5	1196	5	BEST1	11	61729788	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	648644	61729788	73276728	164	96920											
AHNAK	79026	broad.mit.edu	37	chr11	62290003	62290003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccttgggtcctgagacGtcaaggtcagccttgggcag	7	9	13	12	1	2	1	2	1	0	1	4	2	4	1	4	3	1	1	4	3	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:62290003G>A	uc001ntl.2	-	5	12186	c.11886C>T	c.(11884-11886)GAC>GAT	p.D3962D	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3962					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GTCCTGAGACGTCAAGGTCAG	0.483													8	318					0	0	0.008291	0	0		A	62290003	A	A	62290003	2	1	194	1	0	0	0	0	0	0	0	1	414	1136	40	1		1	AHNAK	11	62290003	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	560215	62290003	72716513	165	96921											
PCNXL3	399909	broad.mit.edu	37	chr11	65402868	65402868	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggatgatgcctccgacgaGtacaagatcatcatgctcaa	12	9	9	11	2	3	2	3	1	0	1	4	5	4	3	2	1	3	2	2	1	3	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:65402868G>C	uc001oey.2	+	31	5133	c.5133G>C	c.(5131-5133)GAG>GAC	p.E1711D	PCNXL3_uc001oez.2_Missense_Mutation_p.E598D	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1711						integral to membrane					0						CCTCCGACGAGTACAAGATCA	0.637													5	16					0	0	0.014758	0	0		C	65402868	C	C	65402868	3	2	194	1	0	0	0	0	1	0	0	0	11612	1020	36	5	5255	5	PCNXL3	11	65402868	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3112865	65402868	69603648	166	96922											
FAM181B	220382	broad.mit.edu	37	chr11	82444664	82444664	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctcatcgtcctcgaaacaGcagcccttgtccagggctcc	7	9	9	16	2	1	0	1	0	1	0	7	1	4	0	4	1	3	2	4	1	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:82444664G>A	uc001ozp.2	-	1	243	c.108C>T	c.(106-108)TGC>TGT	p.C36C		NM_175885	NP_787081	A6NEQ2	F181B_HUMAN	hypothetical protein LOC220382	36										large_intestine(1)	1						CCTCGAAACAGCAGCCCTTGT	0.706													6	4					0	0	0.00308	0	0		A	82444664	A	A	82444664	2	1	194	1	0	0	0	0	0	0	0	1	5520	963	34	2		2	FAM181B	11	82444664	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	17041796	82444664	52561852	167	96923											
CNTN5	53942	broad.mit.edu	37	chr11	100221534	100221534	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctggagtctatattattgaAgttcgagcatatagtgaagg	12	13	12	4	1	1	2	0	2	1	0	2	4	1	3	0	2	1	3	0	2	7	7			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:100221534A>C	uc001pga.2	+	24	3471	c.3132A>C	c.(3130-3132)GAA>GAC	p.E1044D	CNTN5_uc001pgb.2_Missense_Mutation_p.E970D|CNTN5_uc010ruk.1_Missense_Mutation_p.E315D	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	1044	Fibronectin type-III 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		ATATTATTGAAGTTCGAGCAT	0.388													61	15					0	0	0.01441	0	0		C	100221534	C	C	100221534	3	2	194	1	0	0	0	0	1	0	0	0	3647	69	3	5	3218	5	CNTN5	11	100221534	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	17776870	100221534	34784982	168	96924											
UBE4A	9354	broad.mit.edu	37	chr11	118253350	118253350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactagcagaggtgttggaaGcagtgatgccccacctggat	11	8	13	9	0	0	2	0	1	0	1	0	4	0	4	3	3	4	3	3	3	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:118253350G>A	uc001psw.2	+	13	2185	c.2056G>A	c.(2056-2058)GCA>ACA	p.A686T	UBE4A_uc001psv.2_Missense_Mutation_p.A693T	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	686					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		GGTGTTGGAAGCAGTGATGCC	0.483													199	43					0	0	0.01441	0	0		A	118253350	A	A	118253350	3	1	194	1	0	0	0	0	1	0	0	0	16908	971	34	2	2123	2	UBE4A	11	118253350	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	18031816	118253350	16753166	169	96925											
ARCN1	372	broad.mit.edu	37	chr11	118454629	118454629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaaagcaccaggatttggcGgatttggcagctctgcagta	12	9	12	8	1	1	0	0	0	1	0	1	2	1	2	1	4	3	5	1	4	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:118454629G>A	uc001ptq.2	+	4	714	c.553G>A	c.(553-555)GGA>AGA	p.G185R	ARCN1_uc009zah.2_Intron|ARCN1_uc010ryg.1_Missense_Mutation_p.G97R|ARCN1_uc009zag.2_Missense_Mutation_p.G226R	NM_001655	NP_001646	P48444	COPD_HUMAN	archain isoform 1	185					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	clathrin adaptor complex|COPI vesicle coat|cytosol					0	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)		AGGATTTGGCGGATTTGGCAG	0.502													69	18					0	0	0.01441	0	0		A	118454629	A	A	118454629	3	1	194	1	0	0	0	0	1	0	0	0	842	1117	39	1	567	1	ARCN1	11	118454629	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	201279	118454629	16551887	170	96926											
OR8B3	390271	broad.mit.edu	37	chr11	124267190	124267190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggttgctggaactctggatGatctgttaatccagcaagaa	11	11	12	7	0	2	2	0	1	2	1	3	4	3	4	1	3	3	4	1	3	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:124267190G>T	uc010saj.1	-	1	58	c.58C>A	c.(58-60)CAT>AAT	p.H20N	OR8B2_uc001qab.3_RNA	NM_001005467	NP_001005467	Q8NGG8	OR8B3_HUMAN	olfactory receptor, family 8, subfamily B,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		AACTCTGGATGATCTGTTAAT	0.383													97	10					1.50363e-43	1.90114e-43	0.01441	1	0		T	124267190	T	T	124267190	3	4	194	1	0	0	0	0	1	0	0	0	11247	1290	45	5	885	5	OR8B3	11	124267190	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	5812561	124267190	10739326	171	96927											
APLP2	334	broad.mit.edu	37	chr11	130011402	130011402	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactgtttcaggtcattgacGagactctggatgttaaggaa	11	12	12	6	1	3	2	2	1	1	1	3	6	3	4	0	3	0	2	0	3	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr11:130011402G>A	uc010sby.1	+	16	2126	c.1969G>A	c.(1969-1971)GAG>AAG	p.E657K	APLP2_uc001qfp.2_Missense_Mutation_p.E645K|APLP2_uc001qfq.2_Missense_Mutation_p.E589K|APLP2_uc010sbz.1_Missense_Mutation_p.E445K|APLP2_uc001qfr.2_Missense_Mutation_p.E411K|APLP2_uc001qfs.2_Missense_Mutation_p.E416K|APLP2_uc001qfv.2_Missense_Mutation_p.E548K|APLP2_uc009zcv.2_Missense_Mutation_p.E5K	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	657	Extracellular (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)		GGTCATTGACGAGACTCTGGA	0.502													45	13					0	0	0.01441	0	0		A	130011402	A	A	130011402	3	1	194	1	0	0	0	0	1	0	0	0	779	1059	37	1	2031	1	APLP2	11	130011402	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	5744212	130011402	4995114	172	96928											
CLEC4E	26253	broad.mit.edu	37	chr12	8687405	8687405	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcccctacatcccagaaGctgaaaaagaatgacatagg	15	6	9	11	0	0	4	0	2	0	2	2	4	2	4	3	2	2	2	3	2	6	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr12:8687405G>A	uc001quo.1	-	6	654	c.489C>T	c.(487-489)AGC>AGT	p.S163S		NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E	163	C-type lectin.|Extracellular (Potential).					integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					CATCCCAGAAGCTGAAAAAGA	0.348													9	32					0	0	0.006214	0	0		A	8687405	A	A	8687405	2	1	194	1	0	0	0	0	0	0	0	1	3518	985	34	2		2	CLEC4E	12	8687405	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08		8687405	125164490	173	96929											
KIF21A	55605	broad.mit.edu	37	chr12	39735371	39735371	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatcaatgtcatcttcctcCtcctcctcctcctcttcttc	4	16	1	20	0	5	0	2	0	3	0	12	0	11	0	7	0	0	0	7	0	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr12:39735371C>T	uc001rly.2	-	14	2003	c.1857G>A	c.(1855-1857)GAG>GAA	p.E619E	KIF21A_uc001rlw.2_5'Flank|KIF21A_uc001rlx.2_Silent_p.E606E|KIF21A_uc001rlz.2_Silent_p.E606E|KIF21A_uc010skl.1_Silent_p.E606E	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	619					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CAtcttcctcctcctcctcct	0.274													8	38					0	0	0.00308	0	0		T	39735371	T	T	39735371	2	4	194	1	0	0	0	0	0	0	0	1	8304	680	24	4		4	KIF21A	12	39735371	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	31047966	39735371	94116524	174	96930											
EPYC	1833	broad.mit.edu	37	chr12	91371944	91371944	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatcagcctgggagtagaTtcctcctcctcttcctcttc	6	14	6	15	0	4	1	2	0	2	1	9	2	8	2	5	1	1	1	5	1	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr12:91371944T>A	uc001tbk.2	-	3	354	c.261A>T	c.(259-261)GAA>GAT	p.E87D		NM_004950	NP_004941	Q99645	EPYC_HUMAN	dermatan sulfate proteoglycan 3 precursor	87	Poly-Glu.				female pregnancy	proteinaceous extracellular matrix	glycosaminoglycan binding			skin(1)	1						TGGGAGTAGATTCCTCCTCCT	0.537											OREG0022019	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	16					0	0	0.013726	0	0		A	91371944	A	A	91371944	3	1	194	1	0	0	0	0	1	0	0	0	5209	1490	52	5	727	5	EPYC	12	91371944	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	51636573	91371944	42479951	175	96931											
SLC7A1	6541	broad.mit.edu	37	chr13	30110029	30110029	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccaacggtgacatagctgtaGaggtaagctgagcccgtctt	10	9	12	10	2	1	3	0	2	1	1	1	3	1	3	2	2	4	4	2	2	4	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr13:30110029G>A	uc001uso.2	-	3	684	c.297C>T	c.(295-297)CTC>CTT	p.L99L		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	99	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		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)	CATAGCTGTAGAGGTAAGCTG	0.592													9	62					0	0	0.006214	0	0		A	30110029	A	A	30110029	2	1	194	1	0	0	0	0	0	0	0	1	14717	929	33	4		4	SLC7A1	13	30110029	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08		30110029	85059849	176	96932											
DCLK1	9201	broad.mit.edu	37	chr13	36699928	36699928	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttggtccaggctggaaatcTtcttgagcccatcaatggtg	8	12	12	9	0	3	1	1	1	2	0	4	2	4	2	2	4	1	2	2	4	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr13:36699928T>C	uc001uvf.2	-	2	580	c.347A>G	c.(346-348)AAG>AGG	p.K116R		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	116	Doublecortin 1.				cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		GCTGGAAATCTTCTTGAGCCC	0.522													16	73					0	0	0.008871	0	0		C	36699928	C	C	36699928	3	2	194	1	0	0	0	0	1	0	0	0	4294	1609	56	3	1910	3	DCLK1	13	36699928	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	6589899	36699928	78469950	177	96933											
DCT	1638	broad.mit.edu	37	chr13	95131262	95131262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attttcttggccacagctcaCggtcatcctggtttcgtagg	6	14	10	11	2	3	0	2	0	1	0	5	0	4	0	2	4	1	3	2	4	1	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr13:95131262C>T	uc001vlv.3	-	1	675	c.248G>A	c.(247-249)CGT>CAT	p.R83H	DCT_uc010afh.2_Missense_Mutation_p.R83H	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	83	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity	p.R83H(1)		ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		CCACAGCTCACGGTCATCCTG	0.602													45	94					0	0	0.01441	0	0		T	95131262	T	T	95131262	3	4	194	1	0	0	0	0	1	0	0	0	4307	536	19	1	1450	1	DCT	13	95131262	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	58431334	95131262	20038616	178	96934											
ERCC5	2073	broad.mit.edu	37	chr13	103492133	103492133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctagtttccatcaggactCggcatggaaaaagatgtcta	12	11	10	8	1	2	1	1	0	1	1	4	3	3	3	1	3	1	3	1	3	4	3	rs139012037	byFrequency	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr13:103492133C>T	uc001vpu.1	+	9	1552	c.1430C>T	c.(1429-1431)TCG>TTG	p.S477L	BIVM_uc001vps.2_Missense_Mutation_p.S477L|BIVM_uc010agc.2_Missense_Mutation_p.S255L|BIVM_uc001vpv.2_Missense_Mutation_p.S248L	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	Error:Variant_position_missing_in_P28715_after_alignment					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CATCAGGACTCGGCATGGAAA	0.468			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				40	236					0	0	0.007835	0	0		T	103492133	T	T	103492133	3	4	194	1	0	0	0	0	1	0	0	0	5224	893	31	1		1	ERCC5	13	103492133	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	8360871	103492133	11677745	179	96935											
COL4A2	1284	broad.mit.edu	37	chr13	111155584	111155584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggatgggccggggactccGggccccagggcaggcctggt	6	4	19	12	2	0	0	0	0	0	0	1	2	1	2	5	8	0	1	5	8	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr13:111155584G>A	uc001vqx.2	+	42	4283	c.3994G>A	c.(3994-3996)GGG>AGG	p.G1332R		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1332	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CGGGGACTCCGGGCCCCAGGG	0.642													33	14					0	0	0.017118	0	0		A	111155584	A	A	111155584	3	1	194	1	0	0	0	0	1	0	0	0	3693	1116	39	1	4156	1	COL4A2	13	111155584	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	7663451	111155584	4014294	180	96936											
SOX1	6656	broad.mit.edu	37	chr13	112722276	112722276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgagaagcggccgttcatcGacgaggccaagcggctgcgc	8	4	15	14	7	1	1	1	0	0	1	2	4	1	1	3	3	3	2	3	3	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr13:112722276G>A	uc001vsb.1	+	1	364	c.304G>A	c.(304-306)GAC>AAC	p.D102N		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	102	HMG box.				chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		GCCGTTCATCGACGAGGCCAA	0.627													15	45					0	0	0.003163	0	0		A	112722276	A	A	112722276	3	1	194	1	0	0	0	0	1	0	0	0	14965	1058	37	1	306	1	SOX1	13	112722276	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1566692	112722276	2447602	181	96937											
RASA3	22821	broad.mit.edu	37	chr13	114781717	114781717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctttcaacttcacagggtCgatttcacagggtttgtggc	7	14	11	9	1	4	0	3	0	1	0	5	1	4	0	0	3	1	1	0	3	1	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr13:114781717C>T	uc001vui.2	-	13	1368	c.1237G>A	c.(1237-1239)GAC>AAC	p.D413N	RASA3_uc010tkk.1_Missense_Mutation_p.D381N|RASA3_uc001vuj.2_Missense_Mutation_p.D30N	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	413	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			TTCACAGGGTCGATTTCACAG	0.517													52	23					0	0	0.01441	0	0		T	114781717	T	T	114781717	3	4	194	1	0	0	0	0	1	0	0	0	13087	884	31	1	1315	1	RASA3	13	114781717	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	2059441	114781717	388161	182	96938											
NPAS3	64067	broad.mit.edu	37	chr14	34269090	34269090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagtaacccggacagccGcgacagcgacgacagcttcg	10	4	11	16	6	0	0	0	0	0	0	2	4	1	1	3	1	4	2	3	1	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr14:34269090G>A	uc001wru.2	+	12	1641	c.1577G>A	c.(1576-1578)CGC>CAC	p.R526H	NPAS3_uc001wrs.2_Missense_Mutation_p.R513H|NPAS3_uc001wrt.2_Missense_Mutation_p.R494H|NPAS3_uc001wrv.2_Missense_Mutation_p.R496H	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	526					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		CCGGACAGCCGCGACAGCGAC	0.642													12	20					0	0	0.00245	0	0		A	34269090	A	A	34269090	3	1	194	1	0	0	0	0	1	0	0	0	10583	1087	38	1	1678	1	NPAS3	14	34269090	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08		34269090	73080450	183	96939											
CFL2	1073	broad.mit.edu	37	chr14	35182762	35182762	+	Silent	SNP	A	C	C	1	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	tcatcattcactgtaactccAgaagcctgaaaataaacaca	17	9	4	11	0	3	2	3	1	0	1	4	2	4	2	2	0	3	1	2	0	6	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr14:35182762A>C	uc001wsg.3	-	2	150	c.9T>G	c.(7-9)TCT>TCG	p.S3S	CFL2_uc010tpn.1_5'UTR|CFL2_uc001wsh.3_Silent_p.S3S|CFL2_uc001wsi.3_RNA|CFL2_uc001wsj.3_RNA	NM_021914	NP_068733	Q9Y281	COF2_HUMAN	cofilin 2	3						cytoplasm|cytoskeleton|nuclear matrix	actin binding			breast(2)	2	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)		CTGTAACTCCAGAAGCCTGAA	0.338													8	19					0	0	0.00308	0	0		C	35182762	C	C	35182762	2	2	194	1	0	0	0	0	0	0	0	1	3294	175	7	5		5	CFL2	14	35182762	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	913672	35182762	72166778	184	96940											
POLE2	5427	broad.mit.edu	37	chr14	50154897	50154897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgaaggcggagagcgcccGgctccgcagccgctccggcg	5	4	16	16	7	0	2	0	1	0	1	2	3	2	2	4	4	2	3	4	4	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr14:50154897G>A	uc001wwu.2	-	1	39	c.25C>T	c.(25-27)CGG>TGG	p.R9W	SDCCAG1_uc010anj.1_Intron|POLE2_uc001wwv.2_RNA	NM_002692	NP_002683	P56282	DPOE2_HUMAN	DNA-directed DNA polymerase epsilon 2	9					DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity			ovary(1)|skin(1)	2	all_epithelial(31;0.0021)|Breast(41;0.0124)					GAGAGCGCCCGGCTCCGCAGC	0.731													5	3					0	0	0.004482	0	0		A	50154897	A	A	50154897	3	1	194	1	0	0	0	0	1	0	0	0	12216	1115	39	1	1634	1	POLE2	14	50154897	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	14972135	50154897	57194643	185	96941											
PYGL	5836	broad.mit.edu	37	chr14	51401876	51401876	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcatcttcttcaatttCttctaactcttctatatcca	9	18	1	13	0	7	0	1	0	6	0	9	0	9	0	2	0	2	1	2	0	4	8			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr14:51401876C>A	uc001wyu.2	-	3	500	c.373G>T	c.(373-375)GAA>TAA	p.E125*	PYGL_uc010tqq.1_Nonsense_Mutation_p.E91*|PYGL_uc001wyv.2_5'UTR|PYGL_uc001wyw.3_Nonsense_Mutation_p.E125*	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	125					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	TCTTCAATTTCTTCTAACTCT	0.408													33	47					3.33393e-15	4.00072e-15	0.004878	1	0		A	51401876	A	A	51401876	4	1	194	1	0	0	0	0	0	1	0	0	12886	922	32	5	2242	5	PYGL	14	51401876	Nonsense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1246979	51401876	55947664	186	96942											
SLC38A6	145389	broad.mit.edu	37	chr14	61512843	61512843	+	Missense_Mutation	SNP	A	G	G	1	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	caattgctttaagttttctcAtttattttatatctgcactc	9	21	3	8	0	2	0	1	0	2	0	4	0	2	0	0	0	2	3	0	0	5	10			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr14:61512843A>G	uc001xfg.1	+	12	999	c.883A>G	c.(883-885)ATT>GTT	p.I295V	SLC38A6_uc001xfh.1_Missense_Mutation_p.I295V|SLC38A6_uc001xfi.2_RNA|SLC38A6_uc001xfj.1_RNA|SLC38A6_uc001xfk.2_RNA|SLC38A6_uc010trz.1_Missense_Mutation_p.I272V	NM_153811	NP_722518	Q8IZM9	S38A6_HUMAN	solute carrier family 38, member 6	295	Helical; (Potential).				amino acid transport|sodium ion transport	integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0981)		AAGTTTTCTCATTTATTTTAT	0.303													17	15					0	0	0.008871	0	0		G	61512843	G	G	61512843	3	3	194	1	0	0	0	0	1	0	0	0	14633	217	8	3	929	3	SLC38A6	14	61512843	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	10110967	61512843	45836697	187	96943											
NRXN3	9369	broad.mit.edu	37	chr14	79433625	79433625	+	Missense_Mutation	SNP	A	G	G	1	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	cagtgaccgccccctgaatgAcaaccagtggcacaatgtcg	11	6	10	14	2	0	3	0	3	0	0	1	3	0	3	4	1	1	1	4	1	3	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr14:79433625A>G	uc001xun.2	+	10	2224	c.1733A>G	c.(1732-1734)GAC>GGC	p.D578G	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.D703G	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	951	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CCCCTGAATGACAACCAGTGG	0.438													8	48					0	0	0.004482	0	0		G	79433625	G	G	79433625	3	3	194	1	0	0	0	0	1	0	0	0	10686	275	10	3	1763	3	NRXN3	14	79433625	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	17920782	79433625	27915915	188	96944											
RIN3	79890	broad.mit.edu	37	chr14	93118805	93118805	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacggatctctcgacaactgGcctcgaccctcccagctccc	8	7	7	19	3	1	0	0	0	1	0	6	3	3	1	4	2	3	1	4	2	2	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr14:93118805G>C	uc001yap.2	+	6	1563	c.1411G>C	c.(1411-1413)GCC>CCC	p.A471P	RIN3_uc010auk.2_Missense_Mutation_p.A133P|RIN3_uc001yaq.2_Missense_Mutation_p.A396P|RIN3_uc001yar.1_Missense_Mutation_p.A133P|RIN3_uc001yas.1_Missense_Mutation_p.A133P	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	471	Pro-rich.				endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				TCGACAACTGGCCTCGACCCT	0.632													61	73					0	0	0.01441	0	0		C	93118805	C	C	93118805	3	2	194	1	0	0	0	0	1	0	0	0	13398	1203	42	5	1433	5	RIN3	14	93118805	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	13685180	93118805	14230735	189	96945											
C15orf2	23742	broad.mit.edu	37	chr15	24921694	24921694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgagtgagaaggcccaggCgtctccagcgagctcctgct	8	7	13	13	2	1	2	0	2	1	1	3	4	2	2	3	2	3	2	3	2	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:24921694C>T	uc001ywo.2	+	1	1154	c.680C>T	c.(679-681)GCG>GTG	p.A227V		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	227					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		AAGGCCCAGGCGTCTCCAGCG	0.602													20	17					0	0	0.014323	0	0		T	24921694	T	T	24921694	3	4	194	1	0	0	0	0	1	0	0	0	1787	768	27	1	682	1	C15orf2	15	24921694	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08		24921694	77609698	190	96946											
ATP10A	57194	broad.mit.edu	37	chr15	25925073	25925073	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtcaactgacgtgccagCtgaagttgtgtggggaaaac	10	9	14	8	1	1	2	1	2	0	0	1	3	1	3	1	3	4	2	1	3	4	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:25925073C>A	uc010ayu.2	-	21	4021	c.3915G>T	c.(3913-3915)CAG>CAT	p.Q1305H		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1305	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		GACGTGCCAGCTGAAGTTGTG	0.507													47	46					1.86277e-20	2.31096e-20	0.01441	1	0		A	25925073	A	A	25925073	3	1	194	1	0	0	0	0	1	0	0	0	1117	796	28	5	588	5	ATP10A	15	25925073	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1003379	25925073	76606319	191	96947											
ZFP106	64397	broad.mit.edu	37	chr15	42742247	42742247	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaagccaagcttacttagTtcaggcaggagagggcccga	12	6	14	9	1	1	1	1	0	0	1	1	4	1	2	2	4	3	3	2	4	4	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:42742247T>G	uc001zpw.2	-	2	2489	c.2154A>C	c.(2152-2154)GAA>GAC	p.E718D	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.E501D|ZFP106_uc001zpy.1_Missense_Mutation_p.E741D	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	718						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GCTTACTTAGTTCAGGCAGGA	0.483													38	45					0	0	0.00874	0	0		G	42742247	G	G	42742247	3	3	194	1	0	0	0	0	1	0	0	0	17662	1722	60	5	3569	5	ZFP106	15	42742247	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	16817174	42742247	59789145	192	96948											
PPIP5K1	9677	broad.mit.edu	37	chr15	43826988	43826988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagattgatcgcagaagtctCctgggccagcctgccaacct	9	8	10	14	1	1	3	0	1	1	2	3	3	1	3	5	1	3	1	5	1	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:43826988C>T	uc001zrw.2	-	31	4369	c.4186G>A	c.(4186-4188)GAG>AAG	p.E1396K	PPIP5K1_uc001zrx.1_Missense_Mutation_p.E1369K|PPIP5K1_uc001zru.2_Missense_Mutation_p.E1371K|PPIP5K1_uc001zry.3_Missense_Mutation_p.E1371K|PPIP5K1_uc001zrv.2_Missense_Mutation_p.E1157K	NM_001130858	NP_001124330	Q6PFW1	VIP1_HUMAN	histidine acid phosphatase domain containing 2A	1396					inositol metabolic process	cytosol	acid phosphatase activity|ATP binding|diphosphoinositol-pentakisphosphate kinase activity|inositol 1,3,4,5,6-pentakisphosphate kinase activity|inositol hexakisphosphate 5-kinase activity				0						GCAGAAGTCTCCTGGGCCAGC	0.547													50	47					0	0	0.01441	0	0		T	43826988	T	T	43826988	3	4	194	1	0	0	0	0	1	0	0	0	12354	864	30	4	119	4	PPIP5K1	15	43826988	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1084741	43826988	58704404	193	96949											
DUOX2	50506	broad.mit.edu	37	chr15	45386852	45386852	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcccgtgaacagactcCggttcagcactttctggaag	9	8	12	12	2	2	2	1	1	1	1	3	3	3	3	2	3	2	3	2	3	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:45386852C>T	uc010bea.2	-	33	4636	c.4433G>A	c.(4432-4434)CGG>CAG	p.R1478Q	DUOX2_uc001zun.2_Missense_Mutation_p.R1478Q	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	1478	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		GAACAGACTCCGGTTCAGCAC	0.637													26	27					0	0	0.00632	0	0		T	45386852	T	T	45386852	3	4	194	1	0	0	0	0	1	0	0	0	4807	652	23	1	221	1	DUOX2	15	45386852	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1559864	45386852	57144540	194	96950											
UNC13C	440279	broad.mit.edu	37	chr15	54306946	54306946	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gtgttcagggtatccaagggCagactgaaactgaaaacaca	15	7	11	8	0	1	3	1	2	0	1	2	3	2	3	1	2	2	3	1	2	5	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:54306946C>A	uc002ack.2	+	1	1846	c.1846C>A	c.(1846-1848)CAG>AAG	p.Q616K		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	616					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TATCCAAGGGCAGACTGAAAC	0.502													20	92					3.01185e-09	3.29109e-09	0.003954	1	0		A	54306946	A	A	54306946	3	1	194	1	0	0	0	0	1	0	0	0	17012	711	25	5	1848	5	UNC13C	15	54306946	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	8920094	54306946	48224446	195	96951											
UNC13C	440279	broad.mit.edu	37	chr15	54307612	54307612	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggagatttcggacattatctCaatcaactgcaaatgagtca	14	11	8	8	1	3	2	3	1	1	1	5	4	3	3	0	2	2	1	0	2	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:54307612C>G	uc002ack.2	+	1	2512	c.2512C>G	c.(2512-2514)CAA>GAA	p.Q838E		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	838					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		GACATTATCTCAATCAACTGC	0.423													7	38					0	0	0.001984	0	0		G	54307612	G	G	54307612	3	3	194	1	0	0	0	0	1	0	0	0	17012	827	29	5	2514	5	UNC13C	15	54307612	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	666	54307612	48223780	196	96952											
USP3	9960	broad.mit.edu	37	chr15	63866244	63866244	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtgtggtgattttgtttaGaaatggagcatctactgttg	8	17	12	4	0	1	2	0	1	1	1	1	3	1	3	0	2	2	3	0	2	3	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:63866244G>A	uc002amf.2	+	10	1038	c.909_splice	c.e10-1	p.I303_splice	USP3_uc010uii.1_Splice_Site|USP3_uc002amg.2_Splice_Site_p.I218_splice|USP3_uc002amh.2_Splice_Site_p.I281_splice|USP3_uc010uij.1_Splice_Site_p.I259_splice|USP3_uc010uik.1_Splice_Site_p.I54_splice|USP3_uc010bgs.2_Splice_Site_p.I286_splice|USP3_uc002ami.2_Splice_Site_p.I134_splice	NM_006537	NP_006528	Q9Y6I4	UBP3_HUMAN	ubiquitin thiolesterase 3						DNA repair|histone deubiquitination|mitotic cell cycle|regulation of protein stability|ubiquitin-dependent protein catabolic process	nuclear chromatin	histone binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(80;0.0187)		ATTTTGTTTAGAAATGGAGCA	0.383													21	45					0	0	0.01892	0	0		A	63866244	A	A	63866244	5	1	194	1	0	0	0	0	0	0	1	0	17086	956	33	4	946	4	USP3	15	63866244	Splice_Site	SNP	G	TCGA-FP-7829-01A-11D-2053-08	9558632	63866244	38665148	197	96953											
TBC1D21	161514	broad.mit.edu	37	chr15	74174028	74174028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgaagcctggaaattcctcaCgggctacttctcatggcaga	10	10	10	11	1	2	2	2	1	1	1	4	3	3	3	2	3	2	2	2	3	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:74174028C>T	uc002avz.2	+	3	295	c.212C>T	c.(211-213)ACG>ATG	p.T71M	TBC1D21_uc010ulc.1_Missense_Mutation_p.T35M	NM_153356	NP_699187	Q8IYX1	TBC21_HUMAN	TBC1 domain family, member 21	71	Rab-GAP TBC.					intracellular	Rab GTPase activator activity			ovary(2)	2						AAATTCCTCACGGGCTACTTC	0.612													11	29					0	0	0.013537	0	0		T	74174028	T	T	74174028	3	4	194	1	0	0	0	0	1	0	0	0	15635	536	19	1	222	1	TBC1D21	15	74174028	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	10307784	74174028	28357364	198	96954											
ISLR	3671	broad.mit.edu	37	chr15	74467329	74467329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctaccgcgacctagaatccGtgccgcctggcttcccggcc	5	7	10	19	5	0	1	0	0	0	1	2	2	2	1	8	2	2	1	8	2	3	3	rs148769100		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:74467329G>A	uc002axg.1	+	2	412	c.130G>A	c.(130-132)GTG>ATG	p.V44M	ISLR_uc002axh.1_Missense_Mutation_p.V44M	NM_005545	NP_005536	O14498	ISLR_HUMAN	immunoglobulin superfamily containing	44	LRRNT.				cell adhesion	extracellular region				large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						CCTAGAATCCGTGCCGCCTGG	0.652													30	37					0	0	0.00623	0	0		A	74467329	A	A	74467329	3	1	194	1	0	0	0	0	1	0	0	0	7874	1145	40	1	132	1	ISLR	15	74467329	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	293301	74467329	28064063	199	96955											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84582130	84582130	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacagcaacatgcgtgggaGgtatttgaacctttgcttaa	11	11	11	8	1	0	1	0	1	0	0	0	2	0	2	1	2	5	4	1	2	4	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:84582130G>A	uc002bjz.3	+	16	2211	c.1987G>A	c.(1987-1989)GGC>AGC	p.G663S	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.G663S|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.G663S	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	663						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			ATGCGTGGGAGGTATTTGAAC	0.483													9	38					0	0	0.010729	0	0		A	84582130	A	A	84582130	3	1	194	1	0	0	0	0	1	0	0	0	276	1014	35	4	2045	4	ADAMTSL3	15	84582130	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	10114801	84582130	17949262	200	96956											
ACAN	176	broad.mit.edu	37	chr15	89392905	89392905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagaacggtctacctctacCctaaccagacgggcctccca	10	7	8	16	2	2	2	0	1	2	2	3	3	3	2	5	2	4	0	5	2	4	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr15:89392905C>T	uc010upo.1	+	10	2343	c.1969C>T	c.(1969-1971)CCT>TCT	p.P657S	ACAN_uc002bmx.2_Missense_Mutation_p.P657S|ACAN_uc010upp.1_Missense_Mutation_p.P657S|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	657					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CTACCTCTACCCTAACCAGAC	0.652													15	41					0	0	0.00499	0	0		T	89392905	T	T	89392905	3	4	194	1	0	0	0	0	1	0	0	0	117	623	22	4	2003	4	ACAN	15	89392905	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4810775	89392905	13138487	201	96957											
CACNA1H	8912	broad.mit.edu	37	chr16	1259359	1259359	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcccagcgacttcttcctgCgcatcgacagccaccgtgag	7	8	10	16	4	1	1	0	1	1	0	3	3	2	1	4	0	4	1	4	0	0	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr16:1259359C>T	uc002cks.2	+	17	3939	c.3691C>T	c.(3691-3693)CGC>TGC	p.R1231C	CACNA1H_uc002ckt.2_Missense_Mutation_p.R1231C|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1231	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CTTCTTCCTGCGCATCGACAG	0.711													29	24					0	0	0.010818	0	0		T	1259359	T	T	1259359	3	4	194	1	0	0	0	0	1	0	0	0	2548	768	27	1	3753	1	CACNA1H	16	1259359	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08		1259359	89095394	202	96958											
FLYWCH1	84256	broad.mit.edu	37	chr16	2983164	2983164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcgagttcctgaggacgtGctacgggggcagcttcctgg	5	9	15	12	3	0	1	0	1	0	0	3	3	2	2	3	4	3	4	3	4	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr16:2983164G>A	uc002csd.2	+	5	1193	c.830G>A	c.(829-831)TGC>TAC	p.C277Y	FLYWCH1_uc002csb.2_Missense_Mutation_p.C276Y|FLYWCH1_uc002csc.2_Missense_Mutation_p.C276Y|FLYWCH1_uc010bsv.2_5'UTR	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	277	FLYWCH-type 2.					nucleus	DNA binding|metal ion binding				0						CTGAGGACGTGCTACGGGGGC	0.647													23	18					0	0	0.004656	0	0		A	2983164	A	A	2983164	3	1	194	1	0	0	0	0	1	0	0	0	5961	1319	46	2	837	2	FLYWCH1	16	2983164	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1723805	2983164	87371589	203	96959											
ITGAL	3683	broad.mit.edu	37	chr16	30505559	30505559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtgacctggctgccctccCggcaaaagacttcgttgctg	6	9	11	15	3	0	2	0	1	0	1	2	2	1	2	4	2	2	4	4	2	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr16:30505559C>T	uc002dyi.3	+	12	1416	c.1240C>T	c.(1240-1242)CGG>TGG	p.R414W	ITGAL_uc002dyj.3_Missense_Mutation_p.R331W|ITGAL_uc010vev.1_Intron	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	414	FG-GAP 4.|Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	GCTGCCCTCCCGGCAAAAGAC	0.617													47	91					0	0	0.01441	0	0		T	30505559	T	T	30505559	3	4	194	1	0	0	0	0	1	0	0	0	7902	643	23	1	1286	1	ITGAL	16	30505559	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	27522395	30505559	59849194	204	96960											
TRIM72	493829	broad.mit.edu	37	chr16	31230619	31230619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catccctgcaggagacagtgCgtcagttccggggggccgtg	6	7	16	12	3	1	1	1	0	0	1	3	2	3	1	3	4	2	2	3	4	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr16:31230619C>T	uc002ebn.1	+	4	725	c.496C>T	c.(496-498)CGT>TGT	p.R166C	PYDC1_uc002ebo.2_5'Flank	NM_001008274	NP_001008275	Q6ZMU5	TRI72_HUMAN	tripartite motif-containing 72	166	Potential.				exocytosis|muscle organ development|muscle system process|plasma membrane repair|protein homooligomerization	cytoplasmic vesicle membrane|sarcolemma	phosphatidylserine binding|zinc ion binding				0						GGAGACAGTGCGTCAGTTCCG	0.652													33	116					0	0	0.019004	0	0		T	31230619	T	T	31230619	3	4	194	1	0	0	0	0	1	0	0	0	16571	768	27	1	506	1	TRIM72	16	31230619	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	725060	31230619	59124134	205	96961											
ZFHX3	463	broad.mit.edu	37	chr16	72828910	72828910	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggggtggatgaactggttCtgcgcgctcaggaagtggag	7	9	19	6	2	2	1	1	1	1	0	2	4	2	4	0	6	2	2	0	6	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr16:72828910C>A	uc002fck.2	-	9	8344	c.7671G>T	c.(7669-7671)CAG>CAT	p.Q2557H	ZFHX3_uc002fcl.2_Missense_Mutation_p.Q1643H	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2557					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				TGAACTGGTTCTGCGCGCTCA	0.547													25	72					1.66031e-10	1.85729e-10	0.003954	1	0		A	72828910	A	A	72828910	3	1	194	1	0	0	0	0	1	0	0	0	17659	912	32	5	3448	5	ZFHX3	16	72828910	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	41598291	72828910	17525843	206	96962											
ADAMTS18	170692	broad.mit.edu	37	chr16	77331238	77331238	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggctcagttactggcttggTttttgcactgcagaatgagg	7	13	14	7	0	1	2	1	1	0	1	1	2	1	2	0	4	3	6	0	4	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr16:77331238T>G	uc002ffc.3	-	18	3168	c.2749A>C	c.(2749-2751)ACC>CCC	p.T917P	ADAMTS18_uc010chc.1_Missense_Mutation_p.T505P|ADAMTS18_uc002ffe.1_Missense_Mutation_p.T613P	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	917					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						ACTGGCTTGGTTTTTGCACTG	0.408													34	70					0	0	0.011902	0	0		G	77331238	G	G	77331238	3	3	194	1	0	0	0	0	1	0	0	0	263	1725	60	5	940	5	ADAMTS18	16	77331238	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	4502328	77331238	13023515	207	96963											
VPS53	55275	broad.mit.edu	37	chr17	559155	559155	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtcaggtggcgtttggcGtgatctaattgcttaatatc	7	15	13	6	2	2	1	1	1	1	0	3	1	2	1	0	4	1	2	0	4	3	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:559155G>A	uc002frn.2	-	6	558	c.411C>T	c.(409-411)CAC>CAT	p.H137H	VPS53_uc002frk.2_Intron|VPS53_uc010cjo.1_Silent_p.H137H|VPS53_uc002frl.2_RNA|VPS53_uc002frm.2_Silent_p.H108H|VPS53_uc002fro.2_Translation_Start_Site|VPS53_uc010cjp.1_Intron	NM_018289	NP_060759	Q5VIR6	VPS53_HUMAN	vacuolar protein sorting 53 isoform 2	137	Potential.				protein transport	endosome membrane|Golgi apparatus					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0265)		GGCGTTTGGCGTGATCTAATT	0.448													13	52					0	0	0.004007	0	0		A	559155	A	A	559155	2	1	194	1	0	0	0	0	0	0	0	1	17241	1136	40	1		1	VPS53	17	559155	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08		559155	80636055	208	96964											
ZZEF1	23140	broad.mit.edu	37	chr17	3937348	3937348	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaggctaaagagcaggtggGtggttttccagccatctggc	8	9	14	10	0	1	1	0	0	1	1	2	1	2	1	3	5	2	3	3	5	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:3937348G>C	uc002fxe.2	-	40	6609	c.6545C>G	c.(6544-6546)ACC>AGC	p.T2182S	ZZEF1_uc002fxh.2_Missense_Mutation_p.T496S|ZZEF1_uc002fxi.2_Missense_Mutation_p.T417S|ZZEF1_uc002fxj.1_Missense_Mutation_p.T795S	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2182							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GAGCAGGTGGGTGGTTTTCCA	0.547													91	132					0	0	0.01441	0	0		C	3937348	C	C	3937348	3	2	194	1	0	0	0	0	1	0	0	0	18280	1261	44	5	2404	5	ZZEF1	17	3937348	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	3378193	3937348	77257862	209	96965											
ZZEF1	23140	broad.mit.edu	37	chr17	3954207	3954207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctctgcactggccaggtgggCgctatagagagccagggcag	8	6	16	11	1	1	1	0	0	1	1	1	2	1	1	2	4	2	3	2	4	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:3954207C>T	uc002fxe.2	-	36	5795	c.5731G>A	c.(5731-5733)GCC>ACC	p.A1911T	ZZEF1_uc002fxh.2_Missense_Mutation_p.A225T|ZZEF1_uc002fxi.2_Missense_Mutation_p.A146T|ZZEF1_uc002fxj.1_Missense_Mutation_p.A524T	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1911							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCCAGGTGGGCGCTATAGAGA	0.607													32	56					0	0	0.012213	0	0		T	3954207	T	T	3954207	3	4	194	1	0	0	0	0	1	0	0	0	18280	768	27	1	3234	1	ZZEF1	17	3954207	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	16859	3954207	77241003	210	96966											
RABEP1	9135	broad.mit.edu	37	chr17	5253802	5253802	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	accagttaaaacatacgtggCagaaggccaatgaccagttt	15	8	9	9	1	0	2	0	1	0	1	0	2	0	2	3	2	2	3	3	2	5	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:5253802C>A	uc002gbm.3	+	7	1065	c.841C>A	c.(841-843)CAG>AAG	p.Q281K	RABEP1_uc010clc.1_Missense_Mutation_p.Q274K|RABEP1_uc010cld.1_Missense_Mutation_p.Q238K|RABEP1_uc010vsw.1_Missense_Mutation_p.Q238K|RABEP1_uc002gbl.3_Missense_Mutation_p.Q281K	NM_004703	NP_004694	Q15276	RABE1_HUMAN	rabaptin, RAB GTPase binding effector protein 1	281	Potential.				apoptosis|cellular membrane fusion|endocytosis|protein transport	centrosome|early endosome|endocytic vesicle|recycling endosome	growth factor activity|GTPase activator activity|protein homodimerization activity			large_intestine(1)|ovary(1)	2						ACATACGTGGCAGAAGGCCAA	0.448													4	88					1.23904e-05	1.29804e-05	0.014758	1	0		A	5253802	A	A	5253802	3	1	194	1	0	0	0	0	1	0	0	0	12986	711	25	5	867	5	RABEP1	17	5253802	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1299595	5253802	75941408	211	96967											
ATP1B2	482	broad.mit.edu	37	chr17	7554931	7554931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgcaccagtttatgggccGcaccgggaccagctggggta	8	6	15	12	3	0	0	0	0	0	0	0	2	0	1	4	4	1	5	4	4	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:7554931G>A	uc002gif.1	+	1	678	c.95G>A	c.(94-96)CGC>CAC	p.R32H		NM_001678	NP_001669	P14415	AT1B2_HUMAN	Na+/K+ -ATPase beta 2 subunit	32	Cytoplasmic (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	integral to membrane|plasma membrane	protein binding|sodium:potassium-exchanging ATPase activity	p.0?(2)|p.?(1)		central_nervous_system(1)|pancreas(1)	2		all_cancers(10;0.000178)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;2.55e-06)|READ - Rectum adenocarcinoma(115;0.168)		TTTATGGGCCGCACCGGGACC	0.687													5	5					0	0	0.001984	0	0		A	7554931	A	A	7554931	3	1	194	1	0	0	0	0	1	0	0	0	1134	1087	38	1	97	1	ATP1B2	17	7554931	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2301129	7554931	73640279	212	96968											
TP53	7157	broad.mit.edu	37	chr17	7578403	7578403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	agcagcgctcatggtgggggCagcgcctcacaacctccgtc	7	6	13	15	3	2	0	2	0	0	0	4	0	3	0	3	3	4	3	3	3	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:7578403C>A	uc002gim.2	-	5	721	c.527G>T	c.(526-528)TGC>TTC	p.C176F	TP53_uc002gig.1_Missense_Mutation_p.C176F|TP53_uc002gih.2_Missense_Mutation_p.C176F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C44F|TP53_uc010cng.1_Missense_Mutation_p.C44F|TP53_uc002gii.1_Missense_Mutation_p.C44F|TP53_uc010cnh.1_Missense_Mutation_p.C176F|TP53_uc010cni.1_Missense_Mutation_p.C176F|TP53_uc002gij.2_Missense_Mutation_p.C176F|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.C83F|TP53_uc002gio.2_Missense_Mutation_p.C44F|TP53_uc010vug.1_Missense_Mutation_p.C137F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	176	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	CP -> FS (in a sporadic cancer; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C176F(102)|p.C176Y(56)|p.C176S(19)|p.C176W(11)|p.C176R(8)|p.C176fs*71(7)|p.0?(7)|p.C176*(6)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.C176G(3)|p.C176fs*5(3)|p.R175_E180delRCPHHE(3)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(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.C44Y(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.R175_H178>X(1)|p.R42fs*24(1)|p.C83Y(1)|p.C176fs*72(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.C176fs*6(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			32	14					3.33393e-15	4.00072e-15	0.004878	1	0		A	7578403	A	A	7578403	3	1	194	1	0	0	0	0	1	0	0	0	16407	710	25	5	771	5	TP53	17	7578403	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	23472	7578403	73616807	213	96969											
MYH10	4628	broad.mit.edu	37	chr17	8383470	8383470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctccagctgcccaatcttgGcctccagggctgagatggtg	6	9	12	14	0	1	1	0	1	1	1	3	2	3	1	5	3	2	2	5	3	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:8383470G>A	uc002gll.2	-	38	5558	c.5462C>T	c.(5461-5463)GCC>GTC	p.A1821V	MYH10_uc002glm.2_Missense_Mutation_p.A1852V|MYH10_uc010cnx.2_Missense_Mutation_p.A1830V	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1821	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						CCCAATCTTGGCCTCCAGGGC	0.532													27	106					0	0	0.007291	0	0		A	8383470	A	A	8383470	3	1	194	1	0	0	0	0	1	0	0	0	10048	1203	42	2	484	2	MYH10	17	8383470	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	805067	8383470	72811740	214	96970											
PIK3R5	23533	broad.mit.edu	37	chr17	8814786	8814786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggatgcggtcctccGtgcatgtcgtggcccctggc	3	10	14	14	3	0	0	0	0	0	0	3	1	2	1	4	4	3	2	4	4	0	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:8814786G>A	uc002glt.2	-	2	93	c.26C>T	c.(25-27)ACG>ATG	p.T9M	PIK3R5_uc010vuz.1_Missense_Mutation_p.T9M|PIK3R5_uc002glu.3_Translation_Start_Site|PIK3R5_uc010coa.1_Missense_Mutation_p.T9M|PIK3R5_uc010cob.1_Intron	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	9					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GCGGTCCTCCGTGCATGTCGT	0.667													30	51					0	0	0.007291	0	0		A	8814786	A	A	8814786	3	1	194	1	0	0	0	0	1	0	0	0	11941	1145	40	1	2688	1	PIK3R5	17	8814786	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	431316	8814786	72380424	215	96971											
GLP2R	9340	broad.mit.edu	37	chr17	9764495	9764495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaccctggggtttcgcccGtgcacacctggagaacacag	8	8	12	13	2	0	1	0	0	0	1	1	2	0	1	3	3	3	3	3	3	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:9764495G>A	uc002gmd.1	+	8	965	c.965G>A	c.(964-966)CGT>CAT	p.R322H		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	322	Helical; Name=4; (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	GGTTTCGCCCGTGCACACCTG	0.493													83	116					0	0	0.01441	0	0		A	9764495	A	A	9764495	3	1	194	1	0	0	0	0	1	0	0	0	6468	1145	40	1	995	1	GLP2R	17	9764495	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	949709	9764495	71430715	216	96972											
MYH13	8735	broad.mit.edu	37	chr17	10265478	10265478	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ttgtcagagatggagaagatGtggggcggggcctcctggcg	7	8	19	7	2	1	3	1	0	0	3	2	5	2	3	2	6	0	0	2	6	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:10265478G>T	uc002gmk.1	-	5	552	c.462C>A	c.(460-462)CAC>CAA	p.H154Q		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	154	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGGAGAAGATGTGGGGCGGGG	0.493													89	153					1.49705e-65	1.92979e-65	0.01441	1	0		T	10265478	T	T	10265478	3	4	194	1	0	0	0	0	1	0	0	0	10050	1368	48	5	5502	5	MYH13	17	10265478	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	500983	10265478	70929732	217	96973											
MYH4	4622	broad.mit.edu	37	chr17	10366655	10366655	+	Missense_Mutation	SNP	A	G	G	1	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	actaatatttattaacttacAtgtttcaatatctgcagaag	15	16	4	6	0	2	1	1	0	1	1	2	1	2	1	0	0	3	2	0	0	8	8			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:10366655A>G	uc002gmn.2	-	9	916	c.805T>C	c.(805-807)TAT>CAT	p.Y269H	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	269	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						ATTAACTTACATGTTTCAATA	0.303													22	44					0	0	0.004656	0	0		G	10366655	G	G	10366655	3	3	194	1	0	0	0	0	1	0	0	0	10055	231	8	3	5142	3	MYH4	17	10366655	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	101177	10366655	70828555	218	96974											
MYH2	4620	broad.mit.edu	37	chr17	10426631	10426631	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	actactggctgtacctggtaAgtgagttccttcactcgcct	7	13	9	12	1	1	1	1	1	0	0	3	1	2	1	3	2	2	4	3	2	3	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:10426631A>C	uc010coi.2	-	38	5699	c.5571T>G	c.(5569-5571)ACT>ACG	p.T1857T	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.T1857T|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1857	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						GTACCTGGTAAGTGAGTTCCT	0.453													39	63					0	0	0.00874	0	0		C	10426631	C	C	10426631	2	2	194	1	0	0	0	0	0	0	0	1	10053	59	3	5		5	MYH2	17	10426631	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	59976	10426631	70768579	219	96975											
KIF2B	84643	broad.mit.edu	37	chr17	51901904	51901904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaactcacactggtgctcCgggactcctttataggccag	9	9	10	13	1	1	0	1	0	0	0	3	1	3	1	3	3	2	2	3	3	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:51901904C>T	uc002iua.2	+	1	1666	c.1510C>T	c.(1510-1512)CGG>TGG	p.R504W	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	504					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						ACTGGTGCTCCGGGACTCCTT	0.478													21	24					0	0	0.016522	0	0		T	51901904	T	T	51901904	3	4	194	1	0	0	0	0	1	0	0	0	8314	643	23	1	1512	1	KIF2B	17	51901904	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	41475273	51901904	29293306	220	96976											
INTS2	57508	broad.mit.edu	37	chr17	59949691	59949691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggagcatcagtttgtccaaCtaaaccaattgtattattct	12	14	6	9	1	2	0	1	0	1	0	3	1	3	1	2	1	3	3	2	1	6	6			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:59949691C>T	uc002izn.2	-	20	2813	c.2737G>A	c.(2737-2739)GTT>ATT	p.V913I	INTS2_uc002izm.2_Missense_Mutation_p.V905I	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	913					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						GTTTGTCCAACTAAACCAATT	0.383													15	38					0	0	0.010504	0	0		T	59949691	T	T	59949691	3	4	194	1	0	0	0	0	1	0	0	0	7794	565	20	4	901	4	INTS2	17	59949691	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	8047787	59949691	21245519	221	96977											
METTL2A	339175	broad.mit.edu	37	chr17	60518011	60518011	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	atgatccttctcggtgttttGcctttgttcacgacctgtgt	4	18	9	10	2	2	1	1	1	1	0	4	2	3	1	3	1	1	2	3	1	0	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:60518011G>T	uc002izv.2	+	6	721	c.703G>T	c.(703-705)GCC>TCC	p.A235S	METTL2A_uc002izw.2_Missense_Mutation_p.A99S	NM_181725	NP_859076	Q96IZ6	MTL2A_HUMAN	methyltransferase like 2A	235							methyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(2;1.08e-10)			TCGGTGTTTTGCCTTTGTTCA	0.378													21	59					1.75199e-13	2.05749e-13	0.007291	1	0		T	60518011	T	T	60518011	3	4	194	1	0	0	0	0	1	0	0	0	9517	1319	46	5	725	5	METTL2A	17	60518011	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	568320	60518011	20677199	222	96978											
HELZ	9931	broad.mit.edu	37	chr17	65082948	65082948	+	Missense_Mutation	SNP	T	A	A	0	1	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	caccaactctgtcttacctaTcaactctctgggctgagctg	8	12	7	14	0	4	1	1	1	3	0	5	1	4	1	2	1	4	2	2	1	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:65082948T>A	uc010wqk.1	-	32	5681	c.5494A>T	c.(5494-5496)ATA>TTA	p.I1832L	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.I1831L	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					GTCTTACCTATCAACTCTCTG	0.478													33	83					0	0	0.006999	0	0		A	65082948	A	A	65082948	3	1	194	1	0	0	0	0	1	0	0	0	7065	1435	50	5	345	5	HELZ	17	65082948	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	4564937	65082948	16112262	223	96979											
WIPI1	55062	broad.mit.edu	37	chr17	66423299	66423299	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccgtggaggctgaagatGcacttggtctggctacggtc	7	9	15	10	2	1	2	0	1	1	1	2	3	1	3	1	5	2	4	1	5	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:66423299G>T	uc010dey.2	-	11	1260	c.1169C>A	c.(1168-1170)GCA>GAA	p.A390E	WIPI1_uc002jhd.3_RNA|WIPI1_uc010wqo.1_Missense_Mutation_p.A308E|WIPI1_uc002jhe.3_RNA|MIR635_hsa-mir-635|MI0003650_5'Flank	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	390					macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0						GGCTGAAGATGCACTTGGTCT	0.567													20	67					2.4624e-09	2.70864e-09	0.008871	1	0		T	66423299	T	T	66423299	3	4	194	1	0	0	0	0	1	0	0	0	17396	1319	46	5	183	5	WIPI1	17	66423299	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1340351	66423299	14771911	224	96980											
SLC39A11	201266	broad.mit.edu	37	chr17	70732815	70732815	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcaaaggtagcagatgcCgtcttttctatagccccaaa	11	11	7	12	1	3	1	1	0	3	1	4	1	3	1	3	1	3	2	3	1	5	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:70732815C>T	uc002jjb.2	-	7	781	c.666G>A	c.(664-666)ACG>ACA	p.T222T	SLC39A11_uc002jja.2_Silent_p.T215T	NM_001159770	NP_001153242	Q8N1S5	S39AB_HUMAN	solute carrier family 39, member 11 isoform 1	222					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1						TAGCAGATGCCGTCTTTTCTA	0.512													50	47					0	0	0.01441	0	0		T	70732815	T	T	70732815	2	4	194	1	0	0	0	0	0	0	0	1	14639	639	23	1		1	SLC39A11	17	70732815	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4309516	70732815	10462395	225	96981											
DNAI2	64446	broad.mit.edu	37	chr17	72308221	72308221	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgaaggagaagggtaaggCggagggcagggatgaggagc	12	3	22	4	1	0	3	0	2	0	1	0	7	0	6	0	7	1	3	0	7	3	1	rs145602856	by1000genomes	TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:72308221C>T	uc002jkf.2	+	12	1673	c.1574C>T	c.(1573-1575)GCG>GTG	p.A525V	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_Intron|uc002jkh.1_5'Flank|DNAI2_uc002jki.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	525					cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						AAGGGTAAGGCGGAGGGCAGG	0.622									Kartagener_syndrome				21	27					0	0	0.014323	0	0		T	72308221	T	T	72308221	3	4	194	1	0	0	0	0	1	0	0	0	4616	768	27	1	1616	1	DNAI2	17	72308221	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1575406	72308221	8886989	226	96982											
SLC25A10	1468	broad.mit.edu	37	chr17	79683076	79683076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agctgccccagggtcagcggCgcaagtgagtcatgggcggc	7	5	17	12	3	2	1	2	1	0	0	2	1	2	1	2	4	3	2	2	4	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr17:79683076C>T	uc002kbi.2	+	5	501	c.415C>T	c.(415-417)CGC>TGC	p.R139C	SLC25A10_uc010wut.1_Missense_Mutation_p.R294C|SLC25A10_uc010dif.2_Missense_Mutation_p.R139C|SLC25A10_uc010wuu.1_Missense_Mutation_p.R93C	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	139	Solcar 2.				gluconeogenesis|mitochondrial transport	integral to membrane|mitochondrial inner membrane|nucleus	protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0117)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)		Succinic acid(DB00139)	GGGTCAGCGGCGCAAGTGAGT	0.706													3	9					0	0	0.009096	0	0		T	79683076	T	T	79683076	3	4	194	1	0	0	0	0	1	0	0	0	14497	768	27	1	433	1	SLC25A10	17	79683076	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7374855	79683076	1512134	227	96983											
L3MBTL4	91133	broad.mit.edu	37	chr18	6046755	6046755	+	Splice_Site	SNP	T	C	C	0	1	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	ctgggatgcagcacaagcacTgtgaagagaaaagtttatga	15	8	12	6	0	0	3	0	2	0	1	0	5	0	4	0	1	3	4	0	1	5	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr18:6046755T>C	uc002kmz.3	-	17	1605	c.1445_splice	c.e17-1	p.V482_splice	L3MBTL4_uc010dkt.2_Splice_Site_p.V482_splice|L3MBTL4_uc002kmy.3_Intron	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4						chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)				gcacaagcactgtgaagagaa	0													44	60					0	0	0.01441	0	0		C	6046755	C	C	6046755	5	2	194	1	0	0	0	0	0	0	1	0	8610	1594	55	3	444	3	L3MBTL4	18	6046755	Splice_Site	SNP	T	TCGA-FP-7829-01A-11D-2053-08		6046755	72030493	228	96984											
DSG3	1830	broad.mit.edu	37	chr18	29037082	29037082	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	actcaaaaagaaacccaattGccaaggtaagttatatcaac	19	8	5	9	0	2	1	2	0	0	1	2	1	2	1	2	1	3	2	2	1	9	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr18:29037082G>T	uc002kws.2	+	3	320	c.211G>T	c.(211-213)GCC>TCC	p.A71S		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	71	Extracellular (Potential).|Cadherin 1.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			AAACCCAATTGCCAAGGTAAG	0.343													13	37					1.49906e-05	1.56547e-05	0.00245	1	0		T	29037082	T	T	29037082	3	4	194	1	0	0	0	0	1	0	0	0	4784	1319	46	5	221	5	DSG3	18	29037082	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	22990327	29037082	49040166	229	96985											
NOL4	8715	broad.mit.edu	37	chr18	31709844	31709844	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaacttactgctttgtaAgttctcttttgtccagcgtg	6	20	7	8	1	1	0	0	0	1	0	3	0	2	0	1	0	4	3	1	0	3	8			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr18:31709844A>G	uc010dmi.2	-	2	634	c.405T>C	c.(403-405)ACT>ACC	p.T135T	NOL4_uc002kxr.3_5'UTR|NOL4_uc010xbt.1_Silent_p.T61T|NOL4_uc010dmh.2_Silent_p.T61T|NOL4_uc010xbu.1_Silent_p.T135T|NOL4_uc002kxt.3_Silent_p.T135T|NOL4_uc010xbw.1_Silent_p.T21T	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	135						nucleolus	RNA binding			ovary(3)	3						CTGCTTTGTAAGTTCTCTTTT	0.333													26	11					0	0	0.00632	0	0		G	31709844	G	G	31709844	2	3	194	1	0	0	0	0	0	0	0	1	10543	59	3	3		3	NOL4	18	31709844	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	2672762	31709844	46367404	230	96986											
FHOD3	80206	broad.mit.edu	37	chr18	34205579	34205579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggcggaggcgagcacCggggcctggaccgcagaagg	8	2	19	12	4	0	1	0	0	0	1	0	4	0	3	4	7	1	2	4	7	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr18:34205579C>T	uc002kzt.1	+	10	1160	c.1063C>T	c.(1063-1065)CGG>TGG	p.R355W	FHOD3_uc002kzr.1_Missense_Mutation_p.R355W|FHOD3_uc002kzs.1_Missense_Mutation_p.R355W|FHOD3_uc002kzu.1_Missense_Mutation_p.R180W|FHOD3_uc010dmz.1_Missense_Mutation_p.R108W	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	355	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				AGGCGAGCACCGGGGCCTGGA	0.697													32	14					0	0	0.012213	0	0		T	34205579	T	T	34205579	3	4	194	1	0	0	0	0	1	0	0	0	5897	643	23	1	1101	1	FHOD3	18	34205579	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	2495735	34205579	43871669	231	96987											
SMAD4	4089	broad.mit.edu	37	chr18	48591904	48591904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgatggatacgtggaccCttctggaggagatcgctttt	7	14	13	7	2	1	2	0	1	1	1	2	6	1	5	1	4	1	2	1	4	1	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr18:48591904C>T	uc010xdp.1	+	9	1605	c.1067C>T	c.(1066-1068)CCT>CTT	p.P356L	SMAD4_uc002lfb.3_Missense_Mutation_p.P201L	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	356	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.P356L(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TACGTGGACCCTTCTGGAGGA	0.433									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				18	10					0	0	0.007413	0	0		T	48591904	T	T	48591904	3	4	194	1	0	0	0	0	1	0	0	0	14785	681	24	4	1097	4	SMAD4	18	48591904	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	14386325	48591904	29485344	232	96988											
RAX	30062	broad.mit.edu	37	chr18	56939701	56939701	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagctcatgcagctggtaCgtggtgaaagtcgtgcggtt	7	11	14	9	3	1	1	1	1	0	0	3	1	2	1	1	3	5	5	1	3	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr18:56939701C>T	uc002lhx.2	-	2	622	c.435G>A	c.(433-435)ACG>ACA	p.T145T	RAX_uc010dpp.2_Intron	NM_013435	NP_038463	Q9Y2V3	RX_HUMAN	retina and anterior neural fold homeobox	145	Homeobox.				visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1		Lung NSC(161;0.0804)|Colorectal(73;0.0946)		STAD - Stomach adenocarcinoma(84;0.18)		GCAGCTGGTACGTGGTGAAAG	0.642													29	32					0	0	0.013726	0	0		T	56939701	T	T	56939701	2	4	194	1	0	0	0	0	0	0	0	1	13121	523	19	1		1	RAX	18	56939701	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	8347797	56939701	21137547	233	96989											
C18orf22	79863	broad.mit.edu	37	chr18	77805864	77805864	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaggcgctcaacaagcaGattatggagtacaaaaggag	16	6	12	7	1	1	2	1	1	0	1	1	4	1	4	0	3	3	3	0	3	6	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr18:77805864G>T	uc002lns.2	+	7	879	c.741G>T	c.(739-741)CAG>CAT	p.Q247H	C18orf22_uc010drh.2_Missense_Mutation_p.R219I|C18orf22_uc010dri.1_Intron|C18orf22_uc002lnt.2_Missense_Mutation_p.Q80H|uc002lnu.2_5'Flank	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	247					rRNA processing	mitochondrion					0		all_cancers(4;3.21e-14)|all_epithelial(4;7.11e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0545)|all_hematologic(56;0.15)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;6.46e-08)|BRCA - Breast invasive adenocarcinoma(31;0.00376)		TCAACAAGCAGATTATGGAGT	0.572													23	15					3.01185e-09	3.29109e-09	0.003954	1	0		T	77805864	T	T	77805864	3	4	194	1	0	0	0	0	1	0	0	0	1901	942	33	5	767	5	C18orf22	18	77805864	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	20866163	77805864	271384	234	96990											
ATP8B3	148229	broad.mit.edu	37	chr19	1802601	1802601	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccattccaggcaccccacGaagtggtgcatccgactgtt	8	10	9	14	2	0	0	0	0	0	0	3	2	3	0	5	2	1	3	5	2	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:1802601G>A	uc002ltw.2	-	11	1182	c.948C>T	c.(946-948)TTC>TTT	p.F316F	ATP8B3_uc002ltv.2_Silent_p.F263F|ATP8B3_uc002ltx.2_RNA|ATP8B3_uc002lty.1_Silent_p.F64F|ATP8B3_uc002ltz.1_Silent_p.F263F	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	316	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCACCCCACGAAGTGGTGCA	0.597													12	16					0	0	0.013537	0	0		A	1802601	A	A	1802601	2	1	194	1	0	0	0	0	0	0	0	1	1197	1049	37	1		1	ATP8B3	19	1802601	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08		1802601	57326382	235	96991											
GNG7	2788	broad.mit.edu	37	chr19	2515067	2515067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cttaaaggggttctccgaggCagggactccgaccagcaggg	9	6	15	11	2	1	0	0	0	1	0	3	3	2	1	3	5	1	3	3	5	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:2515067C>T	uc002lwd.2	-	5	397	c.160G>A	c.(160-162)GCC>ACC	p.A54T	GNG7_uc010dte.1_Intron	NM_052847	NP_443079	O60262	GBG7_HUMAN	guanine nucleotide binding protein (G protein),	54					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	heterotrimeric G-protein complex	signal transducer activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TTCTCCGAGGCAGGGACTCCG	0.408													28	77					0	0	0.012213	0	0		T	2515067	T	T	2515067	3	4	194	1	0	0	0	0	1	0	0	0	6546	710	25	2	50	2	GNG7	19	2515067	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	712466	2515067	56613916	236	96992											
KDM4B	23030	broad.mit.edu	37	chr19	5131234	5131234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatccccactggagccccCggtgctgggcccaggccctg	4	5	13	19	1	0	0	0	0	0	0	1	1	1	1	7	4	2	1	7	4	0	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:5131234C>T	uc002mbq.3	+	12	1689	c.1463C>T	c.(1462-1464)CCG>CTG	p.P488L	KDM4B_uc010xim.1_Missense_Mutation_p.P522L|KDM4B_uc002mbr.3_Missense_Mutation_p.P246L	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	488	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CTGGAGCCCCCGGTGCTGGGC	0.692													6	2					0	0	0.001984	0	0		T	5131234	T	T	5131234	3	4	194	1	0	0	0	0	1	0	0	0	8145	652	23	1	1501	1	KDM4B	19	5131234	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	2616167	5131234	53997749	237	96993											
DENND1C	79958	broad.mit.edu	37	chr19	6476976	6476976	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	accaccagctccgttaggttCctctgaggatcagagagtcg	9	9	11	12	2	2	2	1	1	1	1	5	4	4	3	4	2	1	3	4	2	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:6476976C>T	uc002mfe.2	-	10	662	c.570G>A	c.(568-570)AGG>AGA	p.R190R	DENND1C_uc002mfb.2_5'Flank|DENND1C_uc002mfc.2_5'Flank|DENND1C_uc002mfd.2_5'UTR|DENND1C_uc010xje.1_Silent_p.R146R	NM_024898	NP_079174	Q8IV53	DEN1C_HUMAN	DENN/MADD domain containing 1C	190	DENN.					clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1						CCGTTAGGTTCCTCTGAGGAT	0.647													9	46					0	0	0.006214	0	0		T	6476976	T	T	6476976	2	4	194	1	0	0	0	0	0	0	0	1	4434	854	30	4		4	DENND1C	19	6476976	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1345742	6476976	52652007	238	96994											
MUC16	94025	broad.mit.edu	37	chr19	9015369	9015369	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagggccaacactggtgttcTtgaacatgggaccaagctgt	10	9	13	9	0	1	1	0	1	1	0	1	3	1	2	2	3	3	2	2	3	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:9015369T>A	uc002mkp.2	-	30	38423	c.38219A>T	c.(38218-38220)AAG>ATG	p.K12740M	MUC16_uc010xki.1_5'Flank	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12742	SEA 5.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACTGGTGTTCTTGAACATGGG	0.537													39	78					0	0	0.01441	0	0		A	9015369	A	A	9015369	3	1	194	1	0	0	0	0	1	0	0	0	9991	1609	56	5	5524	5	MUC16	19	9015369	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	2538393	9015369	50113614	239	96995											
OR7G1	125962	broad.mit.edu	37	chr19	9225581	9225581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tctcaggctgtagatgaaggGgttcatcatttgagggacca	10	11	13	7	0	3	3	3	2	1	1	4	4	3	4	1	4	0	3	1	4	2	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:9225581G>A	uc002mks.1	-	1	859	c.859C>T	c.(859-861)CCC>TCC	p.P287S		NM_001005192	NP_001005192	Q8NGA0	OR7G1_HUMAN	olfactory receptor, family 7, subfamily G,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2						TAGATGAAGGGGTTCATCATT	0.438													19	62					0	0	0.012319	0	0		A	9225581	A	A	9225581	3	1	194	1	0	0	0	0	1	0	0	0	11241	1232	43	4	150	4	OR7G1	19	9225581	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	210212	9225581	49903402	240	96996											
ZNF699	374879	broad.mit.edu	37	chr19	9407101	9407101	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttatctccactgtgaattcTtttgtgtttggagagtgagg	7	17	11	6	0	2	3	0	2	2	1	3	4	2	3	1	2	0	1	1	2	2	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:9407101T>G	uc002mlc.1	-	5	979	c.979A>C	c.(979-981)AGA>CGA	p.R327R		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	327	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTGTGAATTCTTTTGTGTTTG	0.408													58	50					0	0	0.01441	0	0		G	9407101	G	G	9407101	2	3	194	1	0	0	0	0	0	0	0	1	18126	1617	56	5		5	ZNF699	19	9407101	Silent	SNP	T	TCGA-FP-7829-01A-11D-2053-08	181520	9407101	49721882	241	96997											
RDH8	50700	broad.mit.edu	37	chr19	10132297	10132297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgaccacgctcaaaaccGtggattcctctggcagcctg	8	8	10	15	3	2	1	1	1	1	0	3	2	3	2	4	2	2	3	4	2	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:10132297G>A	uc002mmr.2	+	6	1057	c.808G>A	c.(808-810)GTG>ATG	p.V270M		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	270					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	GCTCAAAACCGTGGATTCCTC	0.607													36	63					0	0	0.006999	0	0		A	10132297	A	A	10132297	3	1	194	1	0	0	0	0	1	0	0	0	13221	1145	40	1	830	1	RDH8	19	10132297	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	725196	10132297	48996686	242	96998											
CC2D1A	54862	broad.mit.edu	37	chr19	14037367	14037368	+	Frame_Shift_Ins	INS	-	TCATC	TCATC																															cagcaacgacatgctcctctINStcatcgtgaagggcatcaac																										TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:14037367_14037368insTCATC	uc002mxo.2	+	18	2277_2278	c.1978_1979insTCATC	c.(1978-1980)TTCfs	p.F660fs	CC2D1A_uc002mxp.2_Frame_Shift_Ins_p.F660fs|CC2D1A_uc010dzh.2_Frame_Shift_Ins_p.F229fs|CC2D1A_uc002mxq.1_Frame_Shift_Ins_p.F305fs	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	660	C2.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			CATGCTCCTCTTCATCGTGAAG	0.535													16	29	---	---	---	---						.	TCATC	14037368	TCATC	TCATC	14037367	7	5	194	1	0	1	1	0	0	0	0	0	2729	1609	56	0	2048	0	CC2D1A	19	14037367	Frame_Shift_Ins	INS	-	TCGA-FP-7829-01A-11D-2053-08	3905070	14037367	45091616	243	96999											
NWD1	284434	broad.mit.edu	37	chr19	16860348	16860348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggctctaccaagagatcCgccaccacctttggcagagc	9	7	10	15	2	1	2	0	0	1	2	2	3	2	2	5	2	2	2	5	2	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:16860348C>T	uc002neu.3	+	6	1317	c.895C>T	c.(895-897)CGC>TGC	p.R299C	NWD1_uc002net.3_Missense_Mutation_p.R164C|NWD1_uc002nev.3_Missense_Mutation_p.R93C			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	299	WD 1.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						CCAAGAGATCCGCCACCACCT	0.622													8	31					0	0	0.004482	0	0		T	16860348	T	T	16860348	3	4	194	1	0	0	0	0	1	0	0	0	10800	652	23	1	496	1	NWD1	19	16860348	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	2822981	16860348	42268635	244	97000											
MEF2B	100271849	broad.mit.edu	37	chr19	19261546	19261546	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatttttttcctccccatcGtcccaggctgagtggaatga	7	13	10	11	1	0	2	0	2	0	0	4	4	3	4	4	3	0	1	4	3	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:19261546G>A	uc002nlm.2	-	2	113	c.-1C>T	c.(-3-1)GACGA>GATGA		MEF2B_uc002nln.2_Missense_Mutation_p.T47M|MEF2B_uc002nll.2_Translation_Start_Site|LOC729991-MEF2B_uc010xqo.1_Translation_Start_Site|LOC729991-MEF2B_uc010xqp.1_Translation_Start_Site|LOC729991-MEF2B_uc002nlo.2_Translation_Start_Site|LOC729991-MEF2B_uc002nlp.2_Translation_Start_Site|MEF2B_uc002nlk.2_Translation_Start_Site	NM_001145785	NP_001139257			myocyte enhancer factor 2B isoform a											skin(1)	1			OV - Ovarian serous cystadenocarcinoma(5;0.00011)|Epithelial(12;0.00412)			CCTCCCCATCGTCCCAGGCTG	0.557													20	54					0	0	0.014323	0	0		A	19261546	A	A	19261546	1	1	194	1	0	0	0	0	0	0	0	0	9474	1160	40	1		1	MEF2B	19	19261546	Translation_Start_Site	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2401198	19261546	39867437	245	97001											
CILP2	148113	broad.mit.edu	37	chr19	19654586	19654586	+	Missense_Mutation	SNP	A	G	G	1	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	tagtggccctgcctacctggAtgtgggcctctgtcccgaca	5	10	12	14	1	1	0	0	0	1	0	2	2	2	1	5	3	2	0	5	3	2	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:19654586A>G	uc002nmv.3	+	8	1317	c.1232A>G	c.(1231-1233)GAT>GGT	p.D411G	CILP2_uc002nmw.3_Missense_Mutation_p.D417G	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	411						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GCCTACCTGGATGTGGGCCTC	0.716													55	110					0	0	0.01441	0	0		G	19654586	G	G	19654586	3	3	194	1	0	0	0	0	1	0	0	0	3433	333	12	3	1262	3	CILP2	19	19654586	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	393040	19654586	39474397	246	97002											
ZNF90	7643	broad.mit.edu	37	chr19	20236018	20236018	+	RNA	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagctgctggagccagttCtgcttcttggcaaggagcga	8	9	14	10	2	2	0	0	0	2	0	2	4	2	2	1	3	5	5	1	3	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:20236018C>A	uc002nos.1	+	5		c.694C>A			ZNF90_uc002not.1_RNA			Q03938	ZNF90_HUMAN	Synthetic construct DNA, clone: pF1KB9685, Homo sapiens ZNF90 gene for zinc finger protein 90, without stop codon, in Flexi system.							Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						GGAGCCAGTTCTGCTTCTTGG	0.582													23	9					4.87955e-14	5.77152e-14	0.005443	1	0		A	20236018	A	A	20236018	1	1	194	0	1	0	0	0	0	0	0	0	18224	928	32	5		5	ZNF90	19	20236018	RNA	SNP	C	TCGA-FP-7829-01A-11D-2053-08	581432	20236018	38892965	247	97003											
ZNF429	353088	broad.mit.edu	37	chr19	21719370	21719370	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagacatactggaaagaaacCtttccagtgtaaaaaatgtg	18	9	8	6	0	0	2	0	0	0	2	1	3	1	3	2	1	2	1	2	1	7	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:21719370C>A	uc002nqd.1	+	4	652	c.515C>A	c.(514-516)CCT>CAT	p.P172H	ZNF429_uc010ecu.1_Intron	NM_001001415	NP_001001415	Q86V71	ZN429_HUMAN	zinc finger protein 429	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GGAAAGAAACCTTTCCAGTGT	0.313													24	17					5.35047e-06	5.65915e-06	0.01892	1	0		A	21719370	A	A	21719370	3	1	194	1	0	0	0	0	1	0	0	0	17927	681	24	5	529	5	ZNF429	19	21719370	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1483352	21719370	37409613	248	97004											
TSHZ3	57616	broad.mit.edu	37	chr19	31769276	31769276	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgaccgctttctccttgtCgacttccttcttgacctcca	5	15	6	15	2	2	2	0	2	2	0	6	3	4	2	5	0	0	1	5	0	0	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:31769276C>T	uc002nsy.3	-	2	1488	c.1423G>A	c.(1423-1425)GAC>AAC	p.D475N		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	475					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TTCTCCTTGTCGACTTCCTTC	0.522													84	90					0	0	0.01441	0	0		T	31769276	T	T	31769276	3	4	194	1	0	0	0	0	1	0	0	0	16651	884	31	1	1826	1	TSHZ3	19	31769276	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	10049906	31769276	27359707	249	97005											
ZNF781	163115	broad.mit.edu	37	chr19	38160615	38160615	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttcccacattctgtacattCgtaaagtctctcatcagtgt	9	15	5	12	1	4	0	2	0	2	0	7	0	5	0	1	0	1	2	1	0	3	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:38160615C>T	uc002ogy.2	-	4	1177	c.435G>A	c.(433-435)ACG>ACA	p.T145T	ZNF781_uc002ogz.2_Silent_p.T140T	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	145					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TCTGTACATTCGTAAAGTCTC	0.388													34	96					0	0	0.005524	0	0		T	38160615	T	T	38160615	2	4	194	1	0	0	0	0	0	0	0	1	18179	871	31	1		1	ZNF781	19	38160615	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	6391339	38160615	20968368	250	97006											
C19orf61	56006	broad.mit.edu	37	chr19	44244320	44244320	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcgatgccactggtctggTtgccccctcgttccttcatt	4	14	9	14	2	2	0	1	0	1	0	5	1	3	0	4	2	2	2	4	2	0	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:44244320T>A	uc002oxj.2	-	7	1095	c.752A>T	c.(751-753)AAC>ATC	p.N251I	C19orf61_uc002oxk.2_Missense_Mutation_p.N251I|C19orf61_uc010eiy.1_Missense_Mutation_p.N251I	NM_019108	NP_061981	Q9H0W8	SMG9_HUMAN	SMG9 protein	251					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	intracellular	protein binding				0		Prostate(69;0.0352)				ACTGGTCTGGTTGCCCCCTCG	0.572													74	69					0	0	0.01441	0	0		A	44244320	A	A	44244320	3	1	194	1	0	0	0	0	1	0	0	0	1946	1725	60	5	842	5	C19orf61	19	44244320	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	6083705	44244320	14884663	251	97007											
FBXO46	23403	broad.mit.edu	37	chr19	46215975	46215975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagatgcggaaggcgatgCgcacctccccagggcctggc	7	5	16	13	3	0	1	0	0	0	1	1	4	1	2	4	5	2	1	4	5	1	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:46215975C>T	uc002pcy.2	-	2	904	c.779G>A	c.(778-780)CGC>CAC	p.R260H	FBXO46_uc002pcz.2_Missense_Mutation_p.R260H	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	260							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		GAAGGCGATGCGCACCTCCCC	0.726													9	33					0	0	0.006214	0	0		T	46215975	T	T	46215975	3	4	194	1	0	0	0	0	1	0	0	0	5769	768	27	1	1036	1	FBXO46	19	46215975	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1971655	46215975	12913008	252	97008											
LIG1	3978	broad.mit.edu	37	chr19	48636295	48636295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaagctgcctcctcaaagcGtttcaggacctcgctgatgc	9	9	10	13	2	2	1	2	1	0	0	4	3	3	2	3	1	4	3	3	1	2	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:48636295G>A	uc002pia.1	-	18	1789	c.1669C>T	c.(1669-1671)CGC>TGC	p.R557C	LIG1_uc010xze.1_Missense_Mutation_p.R250C|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.R489C|LIG1_uc010xzg.1_Missense_Mutation_p.R526C	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	557					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	TCCTCAAAGCGTTTCAGGACC	0.557								NER					70	191					0	0	0.01441	0	0		A	48636295	A	A	48636295	3	1	194	1	0	0	0	0	1	0	0	0	8797	1145	40	1	1134	1	LIG1	19	48636295	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2420320	48636295	10492688	253	97009											
LMTK3	114783	broad.mit.edu	37	chr19	48994447	48994447	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaagcgggagaagcacagCggggggcctggaggggggag	10	1	24	6	2	0	2	0	0	0	2	0	6	0	4	1	8	3	1	1	8	2	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:48994447C>A	uc002pjk.2	-	15	4371	c.4371G>T	c.(4369-4371)CCG>CCT	p.P1457P		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		AGAAGCACAGCGGGGGGCCTG	0.537													5	28					1.024e-07	1.10072e-07	0.014758	1	0		A	48994447	A	A	48994447	2	1	194	1	0	0	0	0	0	0	0	1	8877	755	27	5		5	LMTK3	19	48994447	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	358152	48994447	10134536	254	97010											
SLC17A7	57030	broad.mit.edu	37	chr19	49936185	49936185	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atggcatagactggcatagaCgtgaagaagcgccgccaggg	12	5	15	9	3	0	4	0	1	0	3	0	4	0	4	2	3	1	2	2	3	4	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:49936185C>T	uc002pnp.2	-	8	1072	c.900G>A	c.(898-900)ACG>ACA	p.T300T	SLC17A7_uc002pno.2_5'UTR	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	300	Cytoplasmic (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		CTGGCATAGACGTGAAGAAGC	0.622													5	5					0	0	0.001984	0	0		T	49936185	T	T	49936185	2	4	194	1	0	0	0	0	0	0	0	1	14447	523	19	1		1	SLC17A7	19	49936185	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	941738	49936185	9192798	255	97011											
ACPT	93650	broad.mit.edu	37	chr19	51293690	51293690	+	Missense_Mutation	SNP	T	G	G	0	1	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	aaatggccggcctggggtttTggggccaccctgctggacct	5	9	15	12	1	0	0	0	0	0	0	0	1	0	1	5	7	1	2	5	7	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:51293690T>G	uc002pta.1	+	1	19	c.19T>G	c.(19-21)TGG>GGG	p.W7G		NM_033068	NP_149059	Q9BZG2	PPAT_HUMAN	testicular acid phosphatase precursor	7						integral to membrane	acid phosphatase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		CCTGGGGTTTTGGGGCCACCC	0.617													6	6					0	0	0.001984	0	0		G	51293690	G	G	51293690	3	3	194	1	0	0	0	0	1	0	0	0	168	1812	63	5	21	5	ACPT	19	51293690	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	1357505	51293690	7835293	256	97012											
ZNF880	400713	broad.mit.edu	37	chr19	52887920	52887920	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatgtggcaaggtcttcaatCgaaatgcacaccttaccaga	14	9	8	10	1	2	1	1	0	1	1	3	2	2	1	2	2	2	2	2	2	5	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:52887920C>T	uc002pzc.2	+	4	1136	c.1087C>T	c.(1087-1089)CGA>TGA	p.R363*		NM_001145434	NP_001138906	Q6PDB4	ZN880_HUMAN	zinc finger protein LOC400713	363	C2H2-type 7.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						GGTCTTCAATCGAAATGCACA	0.403													13	13					0	0	0.003163	0	0		T	52887920	T	T	52887920	4	4	194	1	0	0	0	0	0	1	0	0	18222	876	31	1	1101	1	ZNF880	19	52887920	Nonsense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	1594230	52887920	6241063	257	97013											
KIR2DL4	3805	broad.mit.edu	37	chr19	55316320	55316320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacacgtgactcttcGgtgtcactatcgtcgtgggt	7	11	14	9	4	2	1	1	1	1	0	5	3	2	3	0	4	0	0	0	4	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:55316320G>A	uc010yfm.1	+	3	189	c.149G>A	c.(148-150)CGG>CAG	p.R50Q	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL4_uc010yfl.1_Missense_Mutation_p.R45Q|KIR2DL4_uc002qhg.2_Missense_Mutation_p.R50Q|KIR2DL4_uc002qhi.2_Missense_Mutation_p.R50Q|KIR2DL4_uc002qhh.2_Intron|KIR2DL4_uc002qhj.2_Missense_Mutation_p.R50Q|KIR2DL4_uc002qhf.2_Intron|KIR2DL4_uc010esd.2_Missense_Mutation_p.R50Q|KIR2DL4_uc010ese.2_5'Flank	NM_002255	NP_002246	Q99706	KI2L4_HUMAN	killer cell immunoglobulin-like receptor, two	50	Ig-like C2-type 1.|Extracellular (Potential).				cellular defense response|regulation of immune response	integral to plasma membrane	protein binding|transmembrane receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0192)		GTGACTCTTCGGTGTCACTAT	0.547													46	61					0	0	0.01441	0	0		A	55316320	A	A	55316320	3	1	194	1	0	0	0	0	1	0	0	0	8334	1116	39	1	159	1	KIR2DL4	19	55316320	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2428400	55316320	3812663	258	97014											
KIR2DS4	3809	broad.mit.edu	37	chr19	55349296	55349296	+	Silent	SNP	A	G	G	1	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	cactccccctatcagttgtcAgctcccagtgaccctctgga	7	10	7	17	0	3	1	2	1	1	0	5	2	5	2	4	1	1	2	4	1	1	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:55349296A>G	uc002qhm.1	+	3	382	c.336A>G	c.(334-336)TCA>TCG	p.S112S	KIR2DS4_uc010yfj.1_Silent_p.S105S|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Silent_p.S112S|KIR2DS4_uc002qhn.1_Silent_p.S59S	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	112	Extracellular (Potential).					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		ATCAGTTGTCAGCTCCCAGTG	0.512													221	200					0	0	0.01441	0	0		G	55349296	G	G	55349296	2	3	194	1	0	0	0	0	0	0	0	1	8335	175	7	3		3	KIR2DS4	19	55349296	Silent	SNP	A	TCGA-FP-7829-01A-11D-2053-08	32976	55349296	3779687	259	97015											
SAPS1	22870	broad.mit.edu	37	chr19	55750801	55750801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcctcctgctccccaaactCctcatcattgaagccgaagt	9	10	5	17	1	2	1	2	1	0	0	6	2	6	1	6	0	3	1	6	0	3	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:55750801C>T	uc002qjw.3	-	15	1965	c.1723G>A	c.(1723-1725)GAG>AAG	p.E575K	SAPS1_uc002qjv.2_Missense_Mutation_p.E637K	NM_014931	NP_055746	Q9UPN7	PP6R1_HUMAN	SAPS domain family, member 1	575					regulation of phosphoprotein phosphatase activity	cytoplasm	protein phosphatase binding				0		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		TCCCCAAACTCCTCATCATTG	0.592													6	37					0	0	0.001168	0	0		T	55750801	T	T	55750801	3	4	194	1	0	0	0	0	1	0	0	0	13861	864	30	4	962	4	SAPS1	19	55750801	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	401505	55750801	3378182	260	97016											
ZFP28	140612	broad.mit.edu	37	chr19	57066450	57066450	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtgtgtgtggcaaagccTttagtcatcgtcaatccctt	8	13	10	10	1	2	0	2	0	0	0	4	0	3	0	2	1	1	2	2	1	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:57066450T>A	uc002qnj.2	+	8	2367	c.2296T>A	c.(2296-2298)TTT>ATT	p.F766I	uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	766	C2H2-type 13.			Missing (in Ref. 4).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TGGCAAAGCCTTTAGTCATCG	0.398													23	60					0	0	0.016522	0	0		A	57066450	A	A	57066450	3	1	194	1	0	0	0	0	1	0	0	0	17667	1609	56	5	2326	5	ZFP28	19	57066450	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	1315649	57066450	2062533	261	97017											
ZSCAN18	65982	broad.mit.edu	37	chr19	58596724	58596724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctcgcaggcgcacccagcGctctcctgccgcctcccgcc	3	6	9	23	5	1	0	0	0	1	0	5	0	3	0	7	1	2	3	7	1	0	0			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr19:58596724G>A	uc002qri.2	-	7	1170	c.861C>T	c.(859-861)AGC>AGT	p.S287S	ZSCAN18_uc002qrj.3_Silent_p.S286S|ZSCAN18_uc010yhs.1_Silent_p.S151S|ZSCAN18_uc002qrh.2_Silent_p.S287S|ZSCAN18_uc010yht.1_Silent_p.S343S|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	287					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CGCACCCAGCGCTCTCCTGCC	0.751													8	8					0	0	0.00308	0	0		A	58596724	A	A	58596724	2	1	194	1	0	0	0	0	0	0	0	1	18255	1078	38	1		1	ZSCAN18	19	58596724	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1530274	58596724	532259	262	97018											
SIRPB2	284759	broad.mit.edu	37	chr20	1456815	1456815	+	Silent	SNP	C	T	T	0	0	0	1	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	actctggggctgacccctcaCtcttgacccttgctccatgc	5	11	8	17	0	3	2	1	2	2	0	4	2	4	2	4	2	2	2	4	2	0	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:1456815C>T	uc002wfg.2	-	5	1254	c.1026G>A	c.(1024-1026)GAG>GAA	p.E342E	SIRPB2_uc002wfh.3_Silent_p.E244E	NM_001122962	NP_001116434	Q5JXA9	SIRB2_HUMAN	signal-regulatory protein beta 2 isoform 1	342	Cytoplasmic (Potential).					integral to membrane					0						TGACCCCTCACTCTTGACCCT	0.612													44	71					0	0	0.01441	0	0		T	1456815	T	T	1456815	2	4	194	1	0	0	0	0	0	0	0	1	14359	564	20	4		4	SIRPB2	20	1456815	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08		1456815	61568705	263	97019											
ZNF341	84905	broad.mit.edu	37	chr20	32336741	32336741	+	Missense_Mutation	SNP	A	G	G	1	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	ctgtccagatctccacatacAtcacagtgcccccgtcccca	9	8	5	19	1	2	1	1	0	1	1	5	1	4	1	6	0	2	0	6	0	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:32336741A>G	uc002wzy.2	+	4	372	c.352A>G	c.(352-354)ATC>GTC	p.I118V	ZNF341_uc002wzx.2_Missense_Mutation_p.I118V|ZNF341_uc010geq.2_Missense_Mutation_p.I28V|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	118					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CTCCACATACATCACAGTGCC	0.448													44	58					0	0	0.01441	0	0		G	32336741	G	G	32336741	3	3	194	1	0	0	0	0	1	0	0	0	17882	217	8	3	366	3	ZNF341	20	32336741	Missense_Mutation	SNP	A	TCGA-FP-7829-01A-11D-2053-08	30879926	32336741	30688779	264	97020											
GDF5	8200	broad.mit.edu	37	chr20	34022548	34022548	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggcactaatgtcaaacacgTacctctgcttcctgaccacg	10	9	8	14	2	2	1	1	1	1	0	3	1	3	1	3	1	3	3	3	1	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:34022548T>C	uc002xck.1	-	2	984	c.665A>G	c.(664-666)TAC>TGC	p.Y222C	GDF5_uc010gfc.1_Missense_Mutation_p.Y222C|uc002xcj.2_Missense_Mutation_p.V320A|GDF5_uc010zvc.1_Missense_Mutation_p.Y222C	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	222					cartilage development|cell-cell signaling|growth|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(9;0.00642)|all_lung(11;0.0094)		BRCA - Breast invasive adenocarcinoma(18;0.00663)			GTCAAACACGTACCTCTGCTT	0.617													48	200					0	0	0.01441	0	0		C	34022548	C	C	34022548	3	2	194	1	0	0	0	0	1	0	0	0	6331	1638	57	3	844	3	GDF5	20	34022548	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	1685807	34022548	29002972	265	97021											
NEURL2	140825	broad.mit.edu	37	chr20	44519401	44519401	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagacgcagatgtccgcacCagcccagctctttctcctcg	7	8	9	17	4	2	2	0	0	2	2	5	3	3	2	4	0	2	3	4	0	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:44519401C>T	uc002xqg.1	-	1	501	c.230G>A	c.(229-231)TGG>TAG	p.W77*	CTSA_uc002xqh.2_5'Flank|CTSA_uc002xqj.3_5'Flank|CTSA_uc002xqi.2_5'Flank|CTSA_uc010zxi.1_5'Flank|CTSA_uc002xqk.3_5'Flank	NM_080749	NP_542787	Q9BR09	NEUL2_HUMAN	neuralized-like protein 2	77	NHR.				intracellular signal transduction						0		Myeloproliferative disorder(115;0.0122)				ATGTCCGCACCAGCCCAGCTC	0.677													25	24					0	0	0.005443	0	0		T	44519401	T	T	44519401	4	4	194	1	0	0	0	0	0	1	0	0	10365	595	21	4	635	4	NEURL2	20	44519401	Nonsense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	10496853	44519401	18506119	266	97022											
MMP9	4318	broad.mit.edu	37	chr20	44642407	44642407	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gactcggtctttgaggagcgGctctccaagaagcttttctt	7	13	11	10	2	3	2	0	1	3	1	5	4	3	3	1	3	2	2	1	3	2	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:44642407G>A	uc002xqz.2	+	10	1741	c.1722G>A	c.(1720-1722)CGG>CGA	p.R574R		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	574	Hemopexin-like 2.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	TTGAGGAGCGGCTCTCCAAGA	0.577											OREG0025990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	22					0	0	0.00245	0	0		A	44642407	A	A	44642407	2	1	194	1	0	0	0	0	0	0	0	1	9687	1190	42	2		2	MMP9	20	44642407	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	123006	44642407	18383113	267	97023											
ARFGEF2	10564	broad.mit.edu	37	chr20	47602105	47602105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagcccaaaagattgaccGattaatggagaagtttgccg	15	8	11	7	2	0	4	0	1	0	3	0	6	0	4	3	1	2	1	3	1	5	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:47602105G>A	uc002xtx.3	+	16	2383	c.2231G>A	c.(2230-2232)CGA>CAA	p.R744Q	ARFGEF2_uc010zyf.1_Missense_Mutation_p.R37Q	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	744	SEC7.				exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AAGATTGACCGATTAATGGAG	0.483													16	80					0	0	0.007413	0	0		A	47602105	A	A	47602105	3	1	194	1	0	0	0	0	1	0	0	0	853	1058	37	1	2293	1	ARFGEF2	20	47602105	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	2959698	47602105	15423415	268	97024											
CASS4	57091	broad.mit.edu	37	chr20	55033513	55033513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaaagccatcagcgcatttCacggcagcctcagcagcagc	11	6	9	15	2	4	0	4	0	0	0	4	0	4	0	2	1	6	4	2	1	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:55033513C>T	uc002xxp.2	+	7	2296	c.2071C>T	c.(2071-2073)CAC>TAC	p.H691Y	CASS4_uc002xxr.2_Missense_Mutation_p.H691Y|CASS4_uc010zze.1_Missense_Mutation_p.H637Y|CASS4_uc010gio.2_Missense_Mutation_p.H254Y	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	691					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CAGCGCATTTCACGGCAGCCT	0.577													38	150					0	0	0.011902	0	0		T	55033513	T	T	55033513	3	4	194	1	0	0	0	0	1	0	0	0	2686	826	29	4	2093	4	CASS4	20	55033513	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7431408	55033513	7992007	269	97025											
GMEB2	26205	broad.mit.edu	37	chr20	62234354	62234354	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgatgccgggacacacaaaCttcctccagatgaggttggc	10	9	11	11	1	0	3	0	2	0	1	2	4	2	4	3	3	2	1	3	3	1	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr20:62234354C>T	uc002yfp.1	-	3	800	c.321G>A	c.(319-321)AAG>AAA	p.K107K	GMEB2_uc002yfo.1_Silent_p.K29K|GMEB2_uc002yfq.1_Silent_p.K107K	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	107	SAND.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			GACACACAAACTTCCTCCAGA	0.542													127	118					0	0	0.01441	0	0		T	62234354	T	T	62234354	2	4	194	1	0	0	0	0	0	0	0	1	6503	564	20	4		4	GMEB2	20	62234354	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	7200841	62234354	791166	270	97026											
CLDN17	26285	broad.mit.edu	37	chr21	31538438	31538438	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagcgcttgcccagccaagGaaaagtgctgctcccagctc	9	6	11	15	1	0	0	0	0	0	0	2	1	1	1	3	1	6	5	3	1	3	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr21:31538438G>T	uc011acv.1	-	1	498	c.498C>A	c.(496-498)TTC>TTA	p.F166L		NM_012131	NP_036263	P56750	CLD17_HUMAN	claudin 17	166	Helical; (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	Golgi apparatus|integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(2)	2						CCCAGCCAAGGAAAAGTGCTG	0.502													24	10					1.96895e-08	2.13734e-08	0.016522	1	0		T	31538438	T	T	31538438	3	4	194	1	0	0	0	0	1	0	0	0	3481	1165	41	5	180	5	CLDN17	21	31538438	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08		31538438	16591457	271	97027											
MICAL3	57553	broad.mit.edu	37	chr22	18389633	18389633	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggatggctgtgggtccaCctgacactgtcacgttaatc	7	11	13	10	1	1	1	1	1	0	0	3	2	2	2	2	3	0	2	2	3	1	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr22:18389633C>T	uc002zng.3	-	2	299	c.-54G>A	c.(-56--52)AGGTG>AGATG		MICAL3_uc011agl.1_Translation_Start_Site|MICAL3_uc002znh.2_Translation_Start_Site|MICAL3_uc002znk.1_Translation_Start_Site|MICAL3_uc002znl.1_Translation_Start_Site|MICAL3_uc010grf.2_Translation_Start_Site|MICAL3_uc011agm.1_Translation_Start_Site	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin							cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TGTGGGTCCACCTGACACTGT	0.498													22	58					0	0	0.016522	0	0		T	18389633	T	T	18389633	1	4	194	1	0	0	0	0	0	0	0	0	9589	522	18	4		4	MICAL3	22	18389633	Translation_Start_Site	SNP	C	TCGA-FP-7829-01A-11D-2053-08		18389633	32914933	272	97028											
MKL1	57591	broad.mit.edu	37	chr22	40814951	40814951	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cgggggccctcctccttcacGaggatctgcagtggcgaggc	5	7	15	14	3	2	0	1	0	1	0	4	3	4	1	3	5	1	1	3	5	0	1			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr22:40814951G>C	uc003ayv.1	-	9	1698	c.1491C>G	c.(1489-1491)CTC>CTG	p.L497L	MKL1_uc003ayw.1_Silent_p.L497L|MKL1_uc010gye.1_Silent_p.L497L|MKL1_uc010gyf.1_Silent_p.L447L	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	497					positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CCTCCTTCACGAGGATCTGCA	0.667			T	RBM15	acute megakaryocytic leukemia								17	44					0	0	0.00499	0	0		C	40814951	C	C	40814951	2	2	194	1	0	0	0	0	0	0	0	1	9619	1045	37	5		5	MKL1	22	40814951	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	22425318	40814951	10489615	273	97029											
MEI1	150365	broad.mit.edu	37	chr22	42189872	42189872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggcctgtgttggctgcctgGaggccttgcttgactacctg	4	12	14	11	0	0	1	0	1	0	0	0	2	0	2	4	4	3	3	4	4	1	4			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chr22:42189872G>A	uc003baz.1	+	27	3410	c.3385G>A	c.(3385-3387)GAG>AAG	p.E1129K	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.E515K|MEI1_uc003bbc.1_Missense_Mutation_p.E497K|MEI1_uc010gym.1_Missense_Mutation_p.E462K|MEI1_uc003bbd.1_Missense_Mutation_p.E372K|MEI1_uc010gyn.1_RNA|MEI1_uc003bbe.1_RNA|MEI1_uc011apf.1_Missense_Mutation_p.E143K|MEI1_uc010gyo.1_Missense_Mutation_p.G84E|MEI1_uc003bbf.2_Missense_Mutation_p.E143K|MEI1_uc003bbg.2_Missense_Mutation_p.E143K	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	1129							binding			central_nervous_system(1)|skin(1)	2						TGGCTGCCTGGAGGCCTTGCT	0.393													4	12					0	0	0.001168	0	0		A	42189872	A	A	42189872	3	1	194	1	0	0	0	0	1	0	0	0	9483	1175	41	4	3491	4	MEI1	22	42189872	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1374921	42189872	9114694	274	97030											
MXRA5	25878	broad.mit.edu	37	chrX	3229022	3229022	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gccgctgtcagaacgctgggCtttctgaataaggagagtgc	9	9	14	9	2	2	3	1	1	1	2	2	4	2	3	1	2	2	3	1	2	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chrX:3229022C>A	uc004crg.3	-	7	7379	c.7222G>T	c.(7222-7224)GCC>TCC	p.A2408S		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2408	Ig-like C2-type 8.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GAACGCTGGGCTTTCTGAATA	0.537													23	31					1.66031e-10	1.85729e-10	0.003954	1	0		A	3229022	A	A	3229022	3	1	194	1	0	0	0	0	1	0	0	0	10021	797	28	5	1268	5	MXRA5	23	3229022	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08		3229022	152041538	275	97031											
KLF8	11279	broad.mit.edu	37	chrX	56295828	56295828	+	Missense_Mutation	SNP	T	C	C	0	1	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	tagtgaaagttgaccccaccTccatgtctccactggaaatt	11	11	7	12	0	1	2	0	2	1	0	3	3	2	3	5	1	0	1	5	1	3	3			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chrX:56295828T>C	uc004dur.2	+	4	1610	c.664T>C	c.(664-666)TCC>CCC	p.S222P	KLF8_uc010nkg.2_3'UTR|KLF8_uc011mop.1_Missense_Mutation_p.S222P|KLF8_uc010nkh.2_RNA	NM_007250	NP_009181	O95600	KLF8_HUMAN	Kruppel-like factor 8 isoform 1	222					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGACCCCACCTCCATGTCTCC	0.473													10	8					0	0	0.010729	0	0		C	56295828	C	C	56295828	3	2	194	1	0	0	0	0	1	0	0	0	8368	1551	54	3	678	3	KLF8	23	56295828	Missense_Mutation	SNP	T	TCGA-FP-7829-01A-11D-2053-08	53066806	56295828	98974732	276	97032											
TCEAL6	158931	broad.mit.edu	37	chrX	101396191	101396191	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcattctgtcttcccctccGcgtctggcttttcttcctcg	1	16	7	17	4	4	0	0	0	4	0	8	0	7	0	4	1	0	2	4	1	0	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chrX:101396191G>A	uc004eiq.2	-	3	274	c.113C>T	c.(112-114)GCG>GTG	p.A38V		NM_001006938	NP_001006939	Q6IPX3	TCAL6_HUMAN	transcription elongation factor A (SII)-like 6	38	Glu-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus		p.A38T(1)		ovary(1)	1						cttcccctccgcgtctggctt	0.144													9	17					0	0	0.006214	0	0		A	101396191	A	A	101396191	3	1	194	1	0	0	0	0	1	0	0	0	15700	1087	38	1	442	1	TCEAL6	23	101396191	Missense_Mutation	SNP	G	TCGA-FP-7829-01A-11D-2053-08	45100363	101396191	53874369	277	97033											
TBC1D8B	54885	broad.mit.edu	37	chrX	106069425	106069425	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aattatatctgctttgctagCcaagatggcaatcagtgtag	12	13	9	7	0	2	1	1	0	1	1	2	1	2	1	1	1	3	4	1	1	7	5			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chrX:106069425C>T	uc004emo.2	+	6	1158	c.993C>T	c.(991-993)AGC>AGT	p.S331S	MORC4_uc004emp.3_Intron|TBC1D8B_uc004emm.2_Silent_p.S331S|TBC1D8B_uc004emn.2_Silent_p.S331S	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	331	GRAM 2.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GCTTTGCTAGCCAAGATGGCA	0.353													24	43					0	0	0.008361	0	0		T	106069425	T	T	106069425	2	4	194	1	0	0	0	0	0	0	0	1	15651	738	26	2		2	TBC1D8B	23	106069425	Silent	SNP	C	TCGA-FP-7829-01A-11D-2053-08	4673234	106069425	49201135	278	97034											
COL4A6	1288	broad.mit.edu	37	chrX	107400416	107400416	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcattcgatgaaaggagtGgcccgaaagtcctctaggca	11	8	12	10	2	1	1	0	1	1	0	3	4	2	2	2	3	1	2	2	3	3	2			TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chrX:107400416G>T	uc004enw.3	-	45	4993	c.4890C>A	c.(4888-4890)GCC>GCA	p.A1630A	COL4A6_uc004env.3_Silent_p.A1629A|COL4A6_uc011msn.1_Silent_p.A1605A|COL4A6_uc010npk.2_Silent_p.A1572A|COL4A6_uc011msm.1_Silent_p.A164A|COL4A6_uc010npj.2_Silent_p.A109A	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1630	Collagen IV NC1.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						TGAAAGGAGTGGCCCGAAAGT	0.567									Alport_syndrome_with_Diffuse_Leiomyomatosis				22	47					5.26018e-13	6.15553e-13	0.012319	1	0		T	107400416	T	T	107400416	2	4	194	1	0	0	0	0	0	0	0	1	3698	1335	47	5		5	COL4A6	23	107400416	Silent	SNP	G	TCGA-FP-7829-01A-11D-2053-08	1330991	107400416	47870144	279	97035											
TKTL1	8277	broad.mit.edu	37	chrX	153524217	153524217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaaggggttggactaatggCggatgctgaggcgagggctg	9	7	19	6	2	0	1	0	1	0	0	0	4	0	3	0	7	1	3	0	7	2	2	rs141543964		TCGA-FP-7829-01A-11D-2053-08	TCGA-FP-7829-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	27986151-673b-48a6-91de-e53a8fc0b5f7	b1bf056a-d0e3-4a6c-a88d-8bb28591485f	g.chrX:153524217C>T	uc004fkg.2	+	1	191	c.5C>T	c.(4-6)GCG>GTG	p.A2V	TEX28_uc004fke.2_5'Flank|TEX28_uc004fkf.2_5'Flank|TEX28_uc010nut.1_5'Flank|TKTL1_uc011mzl.1_Missense_Mutation_p.A2V|TKTL1_uc011mzm.1_Missense_Mutation_p.A2V	NM_012253	NP_036385	P51854	TKTL1_HUMAN	transketolase-like 1 isoform a	2					glucose catabolic process|thiamine metabolic process	cytoplasm|nucleus	metal ion binding|transketolase activity			ovary(3)|skin(1)	4	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)					GGACTAATGGCGGATGCTGAG	0.597													48	7					0	0	0.01441	0	0		T	153524217	T	T	153524217	3	4	194	1	0	0	0	0	1	0	0	0	15960	768	27	1	7	1	TKTL1	23	153524217	Missense_Mutation	SNP	C	TCGA-FP-7829-01A-11D-2053-08	46123801	153524217	1746343	280	97036											
HP1BP3	50809	broad.mit.edu	37	chr1	21071490	21071490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagggcctagctttcccccGctgggcagctgagactttag	7	9	12	13	1	0	1	0	1	0	1	1	2	1	1	3	2	2	4	3	2	3	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:21071490G>A	uc001bdw.1	-	13	1602	c.1462C>T	c.(1462-1464)CGG>TGG	p.R488W	HP1BP3_uc001bdv.1_Missense_Mutation_p.R450W|HP1BP3_uc010odh.1_Missense_Mutation_p.R450W|HP1BP3_uc001bdy.1_Missense_Mutation_p.R488W|HP1BP3_uc010odf.1_Missense_Mutation_p.R147W|HP1BP3_uc010odg.1_Missense_Mutation_p.R336W	NM_016287	NP_057371	Q5SSJ5	HP1B3_HUMAN	HP1-BP74	488	Lys-rich.				nucleosome assembly	nucleosome|nucleus	DNA binding			central_nervous_system(1)|skin(1)	2		all_lung(284;6.55e-06)|Lung NSC(340;6.59e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.26e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00015)|GBM - Glioblastoma multiforme(114;0.000521)|Kidney(64;0.000529)|STAD - Stomach adenocarcinoma(196;0.00311)|KIRC - Kidney renal clear cell carcinoma(64;0.00687)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.201)		GCTTTCCCCCGCTGGGCAGCT	0.557													3	34					0	0	0.004672	0	0		A	21071490	A	A	21071490	3	1	195	1	0	0	0	0	1	0	0	0	7344	1086	38	1	203	1	HP1BP3	1	21071490	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08		21071490	228179131	1	97037											
RAVER2	55225	broad.mit.edu	37	chr1	65255185	65255185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccccagttatgtggacgaGctgttaaaccaggtatggac	11	9	12	9	1	0	0	0	0	0	0	0	3	0	2	3	3	3	4	3	3	4	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:65255185G>A	uc001dbs.1	+	5	1171	c.1093G>A	c.(1093-1095)GCT>ACT	p.A365T	RAVER2_uc001dbt.1_Missense_Mutation_p.A244T|RAVER2_uc010opb.1_Missense_Mutation_p.A244T	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	365						cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						ATGTGGACGAGCTGTTAAACC	0.358													5	50					0	0	0.004482	0	0		A	65255185	A	A	65255185	3	1	195	1	0	0	0	0	1	0	0	0	13120	971	34	2	1111	2	RAVER2	1	65255185	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	44183695	65255185	183995436	2	97038											
ADORA3	140	broad.mit.edu	37	chr1	112031538	112031538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtagtcacggaaatagcctCggcaccagtatttggggtga	11	9	13	8	2	1	1	1	1	0	0	2	2	1	2	2	4	1	3	2	4	4	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:112031538C>T	uc001ebf.2	-	3	1333	c.566G>A	c.(565-567)CGA>CAA	p.R189Q	ADORA3_uc001ebg.3_Missense_Mutation_p.R108Q	NM_020683	NP_065734	P33765	AA3R_HUMAN	adenosine A3 receptor isoform 1	Error:Variant_position_missing_in_P33765_after_alignment					activation of adenylate cyclase activity|inflammatory response|regulation of heart contraction	integral to plasma membrane	adenosine receptor activity, G-protein coupled	p.P189P(1)		ovary(2)|large_intestine(1)|skin(1)	4		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)	GAAATAGCCTCGGCACCAGTA	0.507													7	36					0	0	0.006214	0	0		T	112031538	T	T	112031538	3	4	195	1	0	0	0	0	1	0	0	0	329	884	31	1	493	1	ADORA3	1	112031538	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	46776353	112031538	137219083	3	97039											
NOTCH2	4853	broad.mit.edu	37	chr1	120493400	120493400	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacttatgtcatcaaagcagGttccttggttcaggcatgga	10	12	10	9	0	3	0	3	0	0	0	4	1	4	1	1	4	1	4	1	4	2	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:120493400G>T	uc001eik.2	-	15	2682	c.2426C>A	c.(2425-2427)ACC>AAC	p.T809N	NOTCH2_uc001eil.2_Missense_Mutation_p.T809N|NOTCH2_uc001eim.3_Missense_Mutation_p.T726N	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	809	EGF-like 21; calcium-binding (Potential).|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATCAAAGCAGGTTCCTTGGTT	0.463			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				10	100					1.52009e-12	1.79033e-12	0.003163	1	0		T	120493400	T	T	120493400	3	4	195	1	0	0	0	0	1	0	0	0	10567	1261	44	5	5069	5	NOTCH2	1	120493400	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	8461862	120493400	128757221	4	97040											
NBPF16	728936	broad.mit.edu	37	chr1	148753300	148753300	+	Silent	SNP	A	C	C	1	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	cctgaagtcttgcaggactcActggatagatgttattcgac	10	12	10	9	1	2	2	1	1	1	1	3	5	2	4	1	2	1	2	1	2	3	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:148753300A>C	uc010pba.1	+	12	1508	c.1317A>C	c.(1315-1317)TCA>TCC	p.S439S	NBPF16_uc009wkt.1_Silent_p.S219S	NM_001102663	NP_001096133			hypothetical protein LOC728936												0	all_hematologic(923;0.032)					TGCAGGACTCACTGGATAGAT	0.468													5	48					0	0	0.001168	0	0		C	148753300	C	C	148753300	2	2	195	1	0	0	0	0	0	0	0	1	10215	146	6	5		5	NBPF16	1	148753300	Silent	SNP	A	TCGA-FP-7916-01A-11D-2201-08	28259900	148753300	100497321	5	97041											
HRNR	388697	broad.mit.edu	37	chr1	152188175	152188175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agccagactcatatgggccaCggctggaagaccaccctgag	11	5	12	13	1	1	3	1	1	0	2	1	4	1	4	4	3	1	1	4	3	2	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:152188175C>T	uc001ezt.1	-	3	6006	c.5930G>A	c.(5929-5931)CGT>CAT	p.R1977H		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1977	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATATGGGCCACGGCTGGAAGA	0.602													21	417					0	0	0.005524	0	0		T	152188175	T	T	152188175	3	4	195	1	0	0	0	0	1	0	0	0	7375	536	19	1	2626	1	HRNR	1	152188175	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	3434875	152188175	97062446	6	97042											
CRNN	49860	broad.mit.edu	37	chr1	152382770	152382770	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctcagtccctctgttctggTcattggtggcctcctgtgtc	2	16	10	13	0	4	0	2	0	3	0	8	0	6	0	3	3	0	1	3	3	0	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:152382770T>C	uc001ezx.2	-	3	862	c.788A>G	c.(787-789)GAC>GGC	p.D263G		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	263	Gln-rich.				cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTGTTCTGGTCATTGGTGGC	0.602													5	309					0	0	0.004482	0	0		C	152382770	C	C	152382770	3	2	195	1	0	0	0	0	1	0	0	0	3895	1667	58	3	703	3	CRNN	1	152382770	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	194595	152382770	96867851	7	97043											
IGSF9	57549	broad.mit.edu	37	chr1	159897636	159897636	+	Missense_Mutation	SNP	T	G	G	0	1	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	attccatgtccccagggaatTctgagtcccactcatagttc	9	12	7	13	0	2	1	1	1	1	0	6	2	5	2	4	1	0	1	4	1	2	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:159897636T>G	uc001fur.2	-	20	3470	c.3272A>C	c.(3271-3273)GAA>GCA	p.E1091A	IGSF9_uc001fuq.2_Missense_Mutation_p.E1075A|CCDC19_uc001ful.2_5'Flank|TAGLN2_uc001fun.1_5'Flank|TAGLN2_uc001fuo.1_5'Flank|TAGLN2_uc010piy.1_5'Flank|IGSF9_uc001fup.2_Missense_Mutation_p.E237A	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	1091	Cytoplasmic (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CCCAGGGAATTCTGAGTCCCA	0.512													9	37					0	0	0.013537	0	0		G	159897636	G	G	159897636	3	3	195	1	0	0	0	0	1	0	0	0	7621	1783	62	5	275	5	IGSF9	1	159897636	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	7514866	159897636	89352985	8	97044											
FMO4	2329	broad.mit.edu	37	chr1	171310946	171310946	+	Missense_Mutation	SNP	T	C	C	0	1	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	ataaactacaggacagaatgTccccttacctagtaagtctt	14	11	6	10	0	1	1	0	0	1	1	2	2	2	2	3	1	3	1	3	1	7	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:171310946T>C	uc001gho.2	+	10	1862	c.1645T>C	c.(1645-1647)TCC>CCC	p.S549P		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	549					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					GGACAGAATGTCCCCTTACCT	0.338													8	26					0	0	0.010729	0	0		C	171310946	C	C	171310946	3	2	195	1	0	0	0	0	1	0	0	0	5971	1667	58	3	1675	3	FMO4	1	171310946	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	11413310	171310946	77939675	9	97045											
TNFSF4	7292	broad.mit.edu	37	chr1	173176198	173176198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcaggcagatgtaggtgaAgcacaggagcagccccagtc	11	5	15	10	0	0	2	0	1	0	1	1	3	0	3	2	3	4	5	2	3	2	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:173176198A>G	uc001giw.2	-	1	274	c.118T>C	c.(118-120)TTC>CTC	p.F40L	TNFSF4_uc001giv.2_5'Flank	NM_003326	NP_003317	P23510	TNFL4_HUMAN	tumor necrosis factor (ligand) superfamily,	40	Helical; Signal-anchor for type II membrane protein; (Potential).				acute inflammatory response|cellular response to lipopolysaccharide|cellular response to prostaglandin E stimulus|chemokine (C-C motif) ligand 11 production|defense response to nematode|interleukin-4-dependent isotype switching to IgE isotypes|memory T cell activation|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of regulatory T cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T-helper 1 cell differentiation|negative regulation of transcription, DNA-dependent|positive regulation of alpha-beta T cell proliferation|positive regulation of B cell activation|positive regulation of immunoglobulin mediated immune response|positive regulation of immunoglobulin secretion|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-13 production|positive regulation of interleukin-4 production|positive regulation of interleukin-6 production|positive regulation of memory T cell differentiation|positive regulation of T cell cytokine production|positive regulation of T-helper 2 cell differentiation|positive regulation of type 2 immune response|response to virus|signal transduction|T-helper 2 cell activation	cell surface|extracellular space|integral to plasma membrane	cytokine activity			central_nervous_system(1)	1						ATGTAGGTGAAGCACAGGAGC	0.547													3	34					0	0	0.004672	0	0		G	173176198	G	G	173176198	3	3	195	1	0	0	0	0	1	0	0	0	16335	72	3	3	445	3	TNFSF4	1	173176198	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	1865252	173176198	76074423	10	97046											
FAM5C	339479	broad.mit.edu	37	chr1	190068073	190068073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtgttgcaggtgccgcagCgggtgcggttgtctggtgcg	2	10	20	9	5	1	0	0	0	1	0	1	0	1	0	1	5	5	4	1	5	0	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:190068073C>T	uc001gse.1	-	8	1608	c.1376G>A	c.(1375-1377)CGC>CAC	p.R459H	FAM5C_uc010pot.1_Missense_Mutation_p.R357H	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	459						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GGTGCCGCAGCGGGTGCGGTT	0.617													21	62					0	0	0.014323	0	0		T	190068073	T	T	190068073	3	4	195	1	0	0	0	0	1	0	0	0	5608	768	27	1	928	1	FAM5C	1	190068073	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	16891875	190068073	59182548	11	97047											
OR2M2	391194	broad.mit.edu	37	chr1	248344198	248344198	+	Missense_Mutation	SNP	T	A	A	0	1	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	gactagagcattcatgaagaTcttaggaaagggcaagtctg	14	9	12	6	0	3	3	1	1	2	2	3	5	3	4	0	2	1	2	0	2	5	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr1:248344198T>A	uc010pzf.1	+	1	911	c.911T>A	c.(910-912)ATC>AAC	p.I304N		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TTCATGAAGATCTTAGGAAAG	0.413													10	105					0	0	0.00245	0	0		A	248344198	A	A	248344198	3	1	195	1	0	0	0	0	1	0	0	0	11029	1435	50	5	913	5	OR2M2	1	248344198	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	58276125	248344198	906423	12	97048											
C2orf16	84226	broad.mit.edu	37	chr2	27804634	27804634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatcgcagtccctcagagaGaagccatcacagtccctctg	10	7	8	16	1	3	2	2	0	1	2	6	3	5	2	4	0	1	1	4	0	1	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:27804634G>A	uc002rkz.3	+	1	5246	c.5195G>A	c.(5194-5196)AGA>AAA	p.R1732K	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1732	27 X 8 AA approximative tandem repeat of P-S-E-R-S-H-H-S.|13.|Arg-rich.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					CCCTCAGAGAGAAGCCATCAC	0.562													9	192					0	0	0.004482	0	0		A	27804634	A	A	27804634	3	1	195	1	0	0	0	0	1	0	0	0	2160	942	33	4	5197	4	C2orf16	2	27804634	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08		27804634	215394739	13	97049											
C2orf16	84226	broad.mit.edu	37	chr2	27804786	27804786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtccctctgagagaagacatCacagtccctcagagaaaagc	14	6	9	12	0	3	4	2	1	1	3	5	6	5	4	2	0	1	0	2	0	3	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:27804786C>T	uc002rkz.3	+	1	5398	c.5347C>T	c.(5347-5349)CAC>TAC	p.H1783Y	ZNF512_uc010ylv.1_5'Flank|ZNF512_uc010ylw.1_5'Flank|ZNF512_uc002rlb.2_5'Flank|ZNF512_uc010ylx.1_5'Flank|ZNF512_uc002rlc.2_5'Flank|ZNF512_uc002rla.2_5'Flank|ZNF512_uc010yly.1_5'Flank|ZNF512_uc010ylz.1_5'Flank	NM_032266	NP_115642	Q68DN1	CB016_HUMAN	hypothetical protein LOC84226	1783	27 X 8 AA approximative tandem repeat of P-S-E-R-S-H-H-S.|Arg-rich.|19.									large_intestine(1)	1	Acute lymphoblastic leukemia(172;0.155)					GAGAAGACATCACAGTCCCTC	0.537													13	90					0	0	0.00278	0	0		T	27804786	T	T	27804786	3	4	195	1	0	0	0	0	1	0	0	0	2160	826	29	4	5349	4	C2orf16	2	27804786	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	152	27804786	215394587	14	97050											
SNRNP200	23020	broad.mit.edu	37	chr2	96944340	96944340	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcatgcctaggttcagaggCgccacgtccatctcgtcctc	7	10	9	15	3	3	1	2	0	1	1	7	1	5	1	4	2	1	1	4	2	1	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:96944340C>T	uc002svu.2	-	38	5519	c.5433G>A	c.(5431-5433)GCG>GCA	p.A1811A	SNRNP200_uc002svt.2_Silent_p.A421A|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1811						catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						GGTTCAGAGGCGCCACGTCCA	0.567													6	64					0	0	0.00308	0	0		T	96944340	T	T	96944340	2	4	195	1	0	0	0	0	0	0	0	1	14877	755	27	1		1	SNRNP200	2	96944340	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	69139554	96944340	146255033	15	97051											
VWA3B	200403	broad.mit.edu	37	chr2	98853145	98853145	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtcccgcacagctccacCtatgttcccgtcctggacaa	8	8	8	17	2	0	0	0	0	0	0	4	1	4	1	5	1	1	4	5	1	2	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:98853145C>A	uc002syo.2	+	19	2889	c.2625C>A	c.(2623-2625)ACC>ACA	p.T875T	VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Silent_p.T394T|VWA3B_uc002sym.2_Silent_p.T875T|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Silent_p.T532T|VWA3B_uc002syp.1_Silent_p.T267T|VWA3B_uc002syq.1_Silent_p.T151T|VWA3B_uc002syr.1_Silent_p.T192T|VWA3B_uc010fih.1_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	875										ovary(3)|large_intestine(2)|skin(1)	6						ACAGCTCCACCTATGTTCCCG	0.493													44	86					1.38658e-30	1.67019e-30	0.01441	1	0		A	98853145	A	A	98853145	2	1	195	1	0	0	0	0	0	0	0	1	17267	668	24	5		5	VWA3B	2	98853145	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	1908805	98853145	144346228	16	97052											
SLC9A4	389015	broad.mit.edu	37	chr2	103130659	103130659	+	Missense_Mutation	SNP	A	G	G	1	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	ggaaatgaagcaagccatcgAgatggtggagactgggatac	14	6	15	6	1	0	3	0	1	0	2	1	7	0	5	1	4	3	1	1	4	4	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:103130659A>G	uc002tbz.3	+	8	2127	c.1670A>G	c.(1669-1671)GAG>GGG	p.E557G		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	557	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						CAAGCCATCGAGATGGTGGAG	0.224													8	50					0	0	0.006214	0	0		G	103130659	G	G	103130659	3	3	195	1	0	0	0	0	1	0	0	0	14741	304	11	3	1700	3	SLC9A4	2	103130659	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	4277514	103130659	140068714	17	97053											
TTN	7273	broad.mit.edu	37	chr2	179417608	179417608	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttcattttctgcaagaaCtctgaagaagaatggagtct	14	13	8	6	0	4	4	1	1	3	3	4	5	4	5	0	1	2	1	0	1	6	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:179417608C>G	uc010zfg.1	-	284	82539	c.82315G>C	c.(82315-82317)GTT>CTT	p.V27439L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V21134L|TTN_uc010zfi.1_Missense_Mutation_p.V21067L|TTN_uc010zfj.1_Missense_Mutation_p.V20942L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28366							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTGCAAGAACTCTGAAGAAG	0.438													5	14					0	0	0.001984	0	0		G	179417608	G	G	179417608	3	3	195	1	0	0	0	0	1	0	0	0	16761	565	20	5	18072	5	TTN	2	179417608	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	76286949	179417608	63781765	18	97054											
TTN	7273	broad.mit.edu	37	chr2	179454471	179454471	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaatagggttaatagccaGaatgggagtttttgtttcga	11	14	12	4	1	1	1	1	0	0	1	2	3	1	2	1	2	1	3	1	2	5	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:179454471G>T	uc010zfg.1	-	253	54501	c.54277C>A	c.(54277-54279)CTG>ATG	p.L18093M	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.L11788M|TTN_uc010zfi.1_Missense_Mutation_p.L11721M|TTN_uc010zfj.1_Missense_Mutation_p.L11596M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19020							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTAATAGCCAGAATGGGAGTT	0.423													8	94					2.17888e-05	2.40584e-05	0.006214	1	0		T	179454471	T	T	179454471	3	4	195	1	0	0	0	0	1	0	0	0	16761	933	33	5	46234	5	TTN	2	179454471	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	36863	179454471	63744902	19	97055											
IGFBP5	3488	broad.mit.edu	37	chr2	217559462	217559462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgggccggccccgcataggCggccagcagcaggaggaccg	7	2	17	15	4	0	0	0	0	0	0	0	2	0	2	5	6	2	3	5	6	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:217559462C>T	uc002vgj.3	-	1	811	c.37G>A	c.(37-39)GCC>ACC	p.A13T		NM_000599	NP_000590	P24593	IBP5_HUMAN	insulin-like growth factor binding protein 5	13					negative regulation of insulin-like growth factor receptor signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of translation|signal transduction		insulin-like growth factor I binding				0		Renal(323;0.0822)		Epithelial(149;2.1e-06)|all cancers(144;0.000165)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCCGCATAGGCGGCCAGCAGC	0.677													3	8					0	0	0.004672	0	0		T	217559462	T	T	217559462	3	4	195	1	0	0	0	0	1	0	0	0	7598	768	27	1	797	1	IGFBP5	2	217559462	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	38104991	217559462	25639911	20	97056											
SLC4A3	6508	broad.mit.edu	37	chr2	220500552	220500552	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcactcccagtgtgtggcCgctgtgctcttcatctactt	4	14	9	14	1	3	0	1	0	2	0	4	0	4	0	2	1	3	3	2	1	1	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:220500552C>T	uc002vmp.3	+	14	2399	c.2130C>T	c.(2128-2130)GCC>GCT	p.A710A	SLC4A3_uc002vmo.3_Silent_p.A737A|SLC4A3_uc010fwm.2_Silent_p.A260A|SLC4A3_uc010fwn.1_Silent_p.A219A	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	710	Helical; (Potential).|Membrane (anion exchange).				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGTGTGTGGCCGCTGTGCTCT	0.652													3	9					0	0	0.000602	0	0		T	220500552	T	T	220500552	2	4	195	1	0	0	0	0	0	0	0	1	14680	639	23	1		1	SLC4A3	2	220500552	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	2941090	220500552	22698821	21	97057											
COL4A4	1286	broad.mit.edu	37	chr2	227953444	227953444	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	agccagccagggagccccaaGtctcccttactcccctgcct	7	7	8	19	0	1	0	0	0	1	0	3	1	2	1	8	1	5	0	8	1	2	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr2:227953444G>T	uc010zlt.1	-	22	2202	c.1548C>A	c.(1546-1548)GAC>GAA	p.D516E		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	516	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		GGAGCCCCAAGTCTCCCTTAC	0.597													7	39					2.0095e-06	2.25007e-06	0.001984	1	0		T	227953444	T	T	227953444	3	4	195	1	0	0	0	0	1	0	0	0	3696	1020	36	5	3632	5	COL4A4	2	227953444	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	7452892	227953444	15245929	22	97058											
CNTN6	27255	broad.mit.edu	37	chr3	1371510	1371510	+	Missense_Mutation	SNP	T	G	G	0	1	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	aaagtccagttaaaaaaaagTcttttgttcaagttggtggg	14	13	10	4	0	2	0	1	0	1	0	3	0	3	0	1	2	0	3	1	2	6	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr3:1371510T>G	uc003boz.2	+	11	1522	c.1255T>G	c.(1255-1257)TCT>GCT	p.S419A	CNTN6_uc011asj.1_Missense_Mutation_p.S347A|CNTN6_uc003bpa.2_Missense_Mutation_p.S419A	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	419	Ig-like C2-type 5.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TAAAAAAAAGTCTTTTGTTCA	0.383													8	26					0	0	0.006214	0	0		G	1371510	G	G	1371510	3	3	195	1	0	0	0	0	1	0	0	0	3648	1667	58	5	1293	5	CNTN6	3	1371510	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08		1371510	196650920	23	97059											
LMCD1	29995	broad.mit.edu	37	chr3	8590452	8590452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ataagagcgaggccctcggcGtgggagaagtggccctcccg	8	5	16	12	4	0	2	0	0	0	2	2	4	1	2	3	4	1	0	3	4	2	1	rs150819156		TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr3:8590452G>A	uc003bqq.2	+	4	700	c.586G>A	c.(586-588)GTG>ATG	p.V196M	LMCD1_uc011atd.1_Missense_Mutation_p.V123M|LMCD1_uc011ate.1_Missense_Mutation_p.V84M|LMCD1_uc011atf.1_Missense_Mutation_p.V123M	NM_014583	NP_055398	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	196	PET.				positive regulation of calcineurin-NFAT signaling pathway|regulation of cardiac muscle hypertrophy|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	transcription corepressor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(96;0.124)		GGCCCTCGGCGTGGGAGAAGT	0.577													13	47					0	0	0.00245	0	0		A	8590452	A	A	8590452	3	1	195	1	0	0	0	0	1	0	0	0	8861	1145	40	1	600	1	LMCD1	3	8590452	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	7218942	8590452	189431978	24	97060											
TGFBR2	7048	broad.mit.edu	37	chr3	30686363	30686363	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcatgagcaactgcagcatCacctccatctgtgagaagcc	11	8	9	13	0	2	2	1	2	1	1	3	3	3	2	3	0	6	4	3	0	2	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr3:30686363C>T	uc003ceo.2	+	2	601	c.219C>T	c.(217-219)ATC>ATT	p.I73I	TGFBR2_uc003cen.2_Silent_p.I98I	NM_003242	NP_003233	P37173	TGFR2_HUMAN	transforming growth factor, beta receptor II	73	Extracellular (Potential).		I -> V (in a colorectal cancer sample; somatic mutation).		activation of protein kinase activity|brain development|embryonic cranial skeleton morphogenesis|embryonic hemopoiesis|heart development|myeloid dendritic cell differentiation|palate development|pathway-restricted SMAD protein phosphorylation|patterning of blood vessels|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of B cell tolerance induction|positive regulation of mesenchymal cell proliferation|positive regulation of NK T cell differentiation|positive regulation of reactive oxygen species metabolic process|positive regulation of T cell tolerance induction|positive regulation of tolerance induction to self antigen|response to cholesterol|response to drug|transforming growth factor beta receptor signaling pathway|transforming growth factor beta receptor signaling pathway|vasculogenesis	caveola|external side of plasma membrane	ATP binding|glycosaminoglycan binding|metal ion binding|protein binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type II|type I transforming growth factor beta receptor binding|type I transforming growth factor beta receptor binding|type III transforming growth factor beta receptor binding	p.I73V(1)		pancreas(9)|large_intestine(6)|stomach(4)|lung(3)|ovary(3)|central_nervous_system(1)	26						ACTGCAGCATCACCTCCATCT	0.413													4	21					0	0	0.001984	0	0		T	30686363	T	T	30686363	2	4	195	1	0	0	0	0	0	0	0	1	15847	816	29	4		4	TGFBR2	3	30686363	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	22095911	30686363	167336067	25	97061											
USP4	7375	broad.mit.edu	37	chr3	49336032	49336032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagagagcctcgcacaggtCggacacagcccccatcagcg	10	3	13	15	3	1	1	1	0	0	1	3	4	1	3	3	3	3	1	3	3	0	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr3:49336032C>T	uc003cwq.2	-	12	1628	c.1549G>A	c.(1549-1551)GAC>AAC	p.D517N	USP4_uc003cwo.2_Missense_Mutation_p.D229N|USP4_uc003cwp.2_Missense_Mutation_p.D247N|USP4_uc003cwr.2_Missense_Mutation_p.D470N	NM_003363	NP_003354	Q13107	UBP4_HUMAN	ubiquitin specific protease 4 isoform a	517					negative regulation of protein ubiquitination|protein deubiquitination|protein localization at cell surface|regulation of protein stability|ubiquitin-dependent protein catabolic process	lysosome|nucleus	adenosine receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)|urinary_tract(1)|lung(1)	4		Ovarian(412;0.00308)|Myeloproliferative disorder(1037;0.0255)|Hepatocellular(537;0.121)		OV - Ovarian serous cystadenocarcinoma(275;4.74e-26)|Kidney(197;2.22e-07)|KIRC - Kidney renal clear cell carcinoma(197;5.14e-06)|BRCA - Breast invasive adenocarcinoma(193;9.46e-05)		TCGCACAGGTCGGACACAGCC	0.552													28	188					0	0	0.00623	0	0		T	49336032	T	T	49336032	3	4	195	1	0	0	0	0	1	0	0	0	17097	884	31	1	1386	1	USP4	3	49336032	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	18649669	49336032	148686398	26	97062											
SMC4	10051	broad.mit.edu	37	chr3	160143863	160143863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttaaaacttttttgtagcGtttaatagagcaagaagaat	15	15	8	3	1	0	3	0	0	0	3	0	3	0	3	0	0	3	4	0	0	8	8	rs143540491		TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr3:160143863G>A	uc003fdh.2	+	17	2593	c.2480G>A	c.(2479-2481)CGT>CAT	p.R827H	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.R802H|SMC4_uc003fdj.2_Missense_Mutation_p.R827H|SMC4_uc010hwd.2_Missense_Mutation_p.R827H|SMC4_uc003fdl.2_Missense_Mutation_p.R530H	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	827	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TTTTTGTAGCGTTTAATAGAG	0.244													5	28					0	0	0.001168	0	0		A	160143863	A	A	160143863	3	1	195	1	0	0	0	0	1	0	0	0	14810	1159	40	1	2542	1	SMC4	3	160143863	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	110807831	160143863	37878567	27	97063											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	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	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			11	26					0	0	0.00245	0	0		G	178952085	G	G	178952085	3	3	195	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	18808222	178952085	19070345	28	97064											
ZNF721	170960	broad.mit.edu	37	chr4	437293	437293	+	Silent	SNP	A	G	G	1	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	gtatgaattctcctatgtacAtaaaggtttgcggactgtct	10	15	9	7	1	2	1	0	1	2	0	3	2	2	2	1	2	2	3	1	2	6	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr4:437293A>G	uc003gag.2	-	3	1654	c.963T>C	c.(961-963)TAT>TAC	p.Y321Y	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Silent_p.Y353Y|ZNF721_uc010ibe.2_Silent_p.Y309Y	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	321						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TCCTATGTACATAAAGGTTTG	0.413													3	28					0	0	0.009096	0	0		G	437293	G	G	437293	2	3	195	1	0	0	0	0	0	0	0	1	18147	224	8	3		3	ZNF721	4	437293	Silent	SNP	A	TCGA-FP-7916-01A-11D-2201-08		437293	190716983	29	97065											
MUC7	4589	broad.mit.edu	37	chr4	71347208	71347208	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaactacaccagctccactAtcttcctcagctccaccaga	11	8	4	18	0	2	1	1	0	1	1	5	1	5	1	5	0	4	3	5	0	3	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr4:71347208A>G	uc011cat.1	+	4	1035	c.747A>G	c.(745-747)CTA>CTG	p.L249L	MUC7_uc011cau.1_Silent_p.L249L|MUC7_uc003hfj.2_Silent_p.L249L|uc011cav.1_Intron	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	249	Thr-rich.|4.					extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			CAGCTCCACTATCTTCCTCAG	0.587													5	211					0	0	0.013537	0	0		G	71347208	G	G	71347208	2	3	195	1	0	0	0	0	0	0	0	1	9999	436	16	3		3	MUC7	4	71347208	Silent	SNP	A	TCGA-FP-7916-01A-11D-2201-08	70909915	71347208	119807068	30	97066											
ANKRD17	26057	broad.mit.edu	37	chr4	73962962	73962962	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagtagatagagaattactGgtcccttcactgatagtttc	12	13	8	8	0	1	3	1	1	0	2	3	4	2	3	1	1	1	2	1	1	6	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr4:73962962G>C	uc003hgp.2	-	27	5166	c.5049C>G	c.(5047-5049)ACC>ACG	p.T1683T	ANKRD17_uc003hgo.2_Silent_p.T1570T|ANKRD17_uc003hgq.2_Silent_p.T1432T|ANKRD17_uc003hgr.2_Silent_p.T1682T	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1683	Ser-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GAGAATTACTGGTCCCTTCAC	0.378													3	28					0	0	0.004672	0	0		C	73962962	C	C	73962962	2	2	195	1	0	0	0	0	0	0	0	1	646	1335	47	5		5	ANKRD17	4	73962962	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08	2615754	73962962	117191314	31	97067											
SDAD1	55153	broad.mit.edu	37	chr4	76882453	76882453	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgttatctcctttataGcattgattctagaaaaagaa	14	14	7	6	0	2	3	0	1	2	2	3	4	2	3	1	0	2	3	1	0	7	7			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr4:76882453G>A	uc003hje.3	-	15	1309	c.1190C>T	c.(1189-1191)GCT>GTT	p.A397V	SDAD1_uc003hjf.3_Missense_Mutation_p.A300V|SDAD1_uc011cbr.1_Missense_Mutation_p.A360V	NM_018115	NP_060585	Q9NVU7	SDA1_HUMAN	SDA1 domain containing 1	397					protein transport|ribosomal large subunit biogenesis	nucleolus	protein binding			ovary(1)	1			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			CTCCTTTATAGCATTGATTCT	0.363													3	30					0	0	0.009096	0	0		A	76882453	A	A	76882453	3	1	195	1	0	0	0	0	1	0	0	0	13975	971	34	2	905	2	SDAD1	4	76882453	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	2919491	76882453	114271823	32	97068											
FAT4	79633	broad.mit.edu	37	chr4	126398337	126398337	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgttcagccaaatagagtTacagttggaggtatcagatc	13	11	11	6	0	2	2	2	0	0	2	3	4	2	3	1	2	2	4	1	2	4	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr4:126398337T>A	uc003ifj.3	+	13	12321	c.12321T>A	c.(12319-12321)GTT>GTA	p.V4107V	FAT4_uc011cgp.1_Silent_p.V2370V|FAT4_uc003ifi.1_Silent_p.V1585V	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4107	Laminin G-like 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAAATAGAGTTACAGTTGGAG	0.338													6	43					0	0	0.00308	0	0		A	126398337	A	A	126398337	2	1	195	1	0	0	0	0	0	0	0	1	5706	1741	61	5		5	FAT4	4	126398337	Silent	SNP	T	TCGA-FP-7916-01A-11D-2201-08	49515884	126398337	64755939	33	97069											
CDH9	1007	broad.mit.edu	37	chr5	26915959	26915959	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgtattttcatctataacaAatagactgccagccccatct	12	13	4	12	0	3	1	1	0	2	1	3	1	3	1	3	0	3	1	3	0	5	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:26915959A>T	uc003jgs.1	-	3	471	c.302T>A	c.(301-303)TTT>TAT	p.F101Y	CDH9_uc010iug.2_Missense_Mutation_p.F101Y	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	101	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)	9						ATCTATAACAAATAGACTGCC	0.373													5	36					0	0	0.001168	0	0		T	26915959	T	T	26915959	3	4	195	1	0	0	0	0	1	0	0	0	3120	14	1	5	2107	5	CDH9	5	26915959	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08		26915959	153999301	34	97070											
KLHL3	26249	broad.mit.edu	37	chr5	136974737	136974737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcatgctggcaatggacGtccactggtccttcacgccg	6	9	11	15	3	1	0	1	0	0	0	3	1	3	1	4	3	2	3	4	3	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:136974737G>A	uc010jek.2	-	10	1568	c.1124C>T	c.(1123-1125)ACG>ATG	p.T375M	KLHL3_uc011cyc.1_Missense_Mutation_p.T144M|KLHL3_uc003lbr.3_Missense_Mutation_p.T293M|KLHL3_uc011cyd.1_Intron|KLHL3_uc010jel.1_Missense_Mutation_p.T144M|KLHL3_uc010jem.1_Missense_Mutation_p.T335M	NM_017415	NP_059111	Q9UH77	KLHL3_HUMAN	kelch-like 3	375	Kelch 2.					cytoplasm|cytoskeleton	actin binding|structural molecule activity				0		all_hematologic(541;3.67e-07)|Breast(839;7.61e-05)|Prostate(281;0.000825)|Ovarian(839;0.0481)|all_lung(232;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	GBM - Glioblastoma multiforme(465;0.0223)		GGCAATGGACGTCCACTGGTC	0.602													6	35					0	0	0.001168	0	0		A	136974737	A	A	136974737	3	1	195	1	0	0	0	0	1	0	0	0	8399	1145	40	1	663	1	KLHL3	5	136974737	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	110058778	136974737	43940523	35	97071											
PCDHB1	29930	broad.mit.edu	37	chr5	140431196	140431196	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggctcgtttgtggccaaCgtagctaaggacctaggact	9	9	13	10	3	0	0	0	0	0	0	1	2	0	2	2	4	3	4	2	4	4	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:140431196C>T	uc003lik.1	+	1	218	c.141C>T	c.(139-141)AAC>AAT	p.N47N		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	47	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTGTGGCCAACGTAGCTAAGG	0.562													6	17					0	0	0.001168	0	0		T	140431196	T	T	140431196	2	4	195	1	0	0	0	0	0	0	0	1	11553	535	19	1		1	PCDHB1	5	140431196	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	3456459	140431196	40484064	36	97072											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725685	140725685	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcactctgtacctggtggtGgcggtggccgcggtctcctg	2	11	15	13	3	3	0	1	0	2	0	4	0	3	0	3	6	1	1	3	6	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:140725685G>A	uc003ljm.1	+	1	2085	c.2085G>A	c.(2083-2085)GTG>GTA	p.V695V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.V455V|PCDHGA3_uc011dap.1_Silent_p.V695V	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	695	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTGGTGGTGGCGGTGGCCG	0.682													4	83					0	0	0.009096	0	0		A	140725685	A	A	140725685	2	1	195	1	0	0	0	0	0	0	0	1	11574	1335	47	4		4	PCDHGA3	5	140725685	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08	294489	140725685	40189575	37	97073											
PCDHGB2	56103	broad.mit.edu	37	chr5	140739917	140739917	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgcgggttagcgcggagaAggaatatttcacagtaaacc	12	8	13	8	3	1	1	1	0	0	1	1	3	1	2	1	3	3	3	1	3	6	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:140739917A>C	uc003ljs.1	+	1	215	c.215A>C	c.(214-216)AAG>ACG	p.K72T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc011dar.1_Missense_Mutation_p.K72T	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	72	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGCGGAGAAGGAATATTTC	0.547													13	74					0	0	0.00499	0	0		C	140739917	C	C	140739917	3	2	195	1	0	0	0	0	1	0	0	0	11582	72	3	5	217	5	PCDHGB2	5	140739917	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	14232	140739917	40175343	38	97074											
PCDHGB2	56103	broad.mit.edu	37	chr5	140741308	140741308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcacactgcaggcccgcGaccagggctcgcccgcgctc	6	4	12	19	5	1	0	1	0	0	0	3	1	1	0	3	2	2	4	3	2	0	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:140741308G>A	uc003ljs.1	+	1	1606	c.1606G>A	c.(1606-1608)GAC>AAC	p.D536N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.D536N|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	536	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGGCCCGCGACCAGGGCTC	0.692													3	39					0	0	0.004672	0	0		A	140741308	A	A	140741308	3	1	195	1	0	0	0	0	1	0	0	0	11582	1058	37	1	1608	1	PCDHGB2	5	140741308	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	1391	140741308	40173952	39	97075											
CYFIP2	26999	broad.mit.edu	37	chr5	156734811	156734811	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatggatggaaatgtcagtAacatttacaaactggatgcc	15	11	9	6	0	1	0	1	0	0	0	1	3	1	3	1	3	4	1	1	3	5	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:156734811A>T	uc003lwq.2	+	11	976	c.838A>T	c.(838-840)AAC>TAC	p.N280Y	CYFIP2_uc011ddn.1_Missense_Mutation_p.N254Y|CYFIP2_uc011ddo.1_Missense_Mutation_p.N84Y|CYFIP2_uc003lwr.2_Missense_Mutation_p.N280Y|CYFIP2_uc003lws.2_Missense_Mutation_p.N280Y|CYFIP2_uc003lwt.2_Missense_Mutation_p.N158Y|CYFIP2_uc011ddp.1_Missense_Mutation_p.N14Y	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	280					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			AAATGTCAGTAACATTTACAA	0.428													3	11					0	0	0.004672	0	0		T	156734811	T	T	156734811	3	4	195	1	0	0	0	0	1	0	0	0	4141	362	13	5	868	5	CYFIP2	5	156734811	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	15993503	156734811	24180449	40	97076											
EBF1	1879	broad.mit.edu	37	chr5	158267086	158267086	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccgcattctttaggcaatttTggttacatttgaggaaaaat	12	15	8	6	1	1	1	0	1	1	0	1	2	1	2	1	3	1	3	1	3	5	7			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr5:158267086T>G	uc010jip.2	-	7	889	c.587A>C	c.(586-588)CAA>CCA	p.Q196P	EBF1_uc011ddw.1_Missense_Mutation_p.Q63P|EBF1_uc011ddx.1_Missense_Mutation_p.Q196P|EBF1_uc003lxl.3_Missense_Mutation_p.Q173P	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	196					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TAGGCAATTTTGGTTACATTT	0.403			T	HMGA2	lipoma								5	38					0	0	0.000602	0	0		G	158267086	G	G	158267086	3	3	195	1	0	0	0	0	1	0	0	0	4886	1812	63	5	1228	5	EBF1	5	158267086	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	1532275	158267086	22648174	41	97077											
DSP	1832	broad.mit.edu	37	chr6	7581033	7581033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagcaagaactgacacGcctgaggatcgactatgaaa	15	6	11	9	2	1	4	1	3	0	1	2	7	1	6	1	2	2	1	1	2	4	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr6:7581033G>A	uc003mxp.1	+	23	4889	c.4610G>A	c.(4609-4611)CGC>CAC	p.R1537H	DSP_uc003mxq.1_Intron	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1537	Central fibrous rod domain.|Potential.		R -> C.		cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GAACTGACACGCCTGAGGATC	0.498													33	59					0	0	0.010771	0	0		A	7581033	A	A	7581033	3	1	195	1	0	0	0	0	1	0	0	0	4787	1087	38	1	4700	1	DSP	6	7581033	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08		7581033	163534034	42	97078											
DNAH8	1769	broad.mit.edu	37	chr6	38890879	38890879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggaaaaagatgcaggccGcctccactctcatcgatggg	10	6	12	13	3	1	1	1	0	1	1	4	3	2	2	4	3	1	1	4	3	2	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr6:38890879G>A	uc003ooe.1	+	70	10657	c.10057G>A	c.(10057-10059)GCC>ACC	p.A3353T	uc003oof.1_RNA	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GATGCAGGCCGCCTCCACTCT	0.448													11	18					0	0	0.008291	0	0		A	38890879	A	A	38890879	3	1	195	1	0	0	0	0	1	0	0	0	4613	1087	38	1	10327	1	DNAH8	6	38890879	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	31309846	38890879	132224188	43	97079											
DAAM2	23500	broad.mit.edu	37	chr6	39841029	39841029	+	Missense_Mutation	SNP	A	C	C	1	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	cccaggtccacatcgacaccAagagtgcttcccagatgttt	10	9	8	14	1	0	2	0	0	0	2	3	3	2	2	4	1	1	2	4	1	1	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr6:39841029A>C	uc003oow.2	+	10	1216	c.1060A>C	c.(1060-1062)AAG>CAG	p.K354Q	DAAM2_uc010jxc.2_Missense_Mutation_p.K354Q|DAAM2_uc003oox.2_Missense_Mutation_p.K354Q	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	354	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					CATCGACACCAAGAGTGCTTC	0.557													6	14					0	0	0.001984	0	0		C	39841029	C	C	39841029	3	2	195	1	0	0	0	0	1	0	0	0	4219	131	5	5	1094	5	DAAM2	6	39841029	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	950150	39841029	131274038	44	97080											
FUT9	10690	broad.mit.edu	37	chr6	96651497	96651497	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agcacttgtttaacctgactCtgacttaccgccgtgattca	9	13	7	12	2	2	3	1	3	1	0	2	3	2	3	3	0	3	2	3	0	2	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr6:96651497C>G	uc003pop.3	+	3	807	c.466C>G	c.(466-468)CTG>GTG	p.L156V		NM_006581	NP_006572	Q9Y231	FUT9_HUMAN	fucosyltransferase 9 (alpha (1,3)	156	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			skin(4)|ovary(1)	5		all_cancers(76;4.77e-07)|Acute lymphoblastic leukemia(125;4.01e-09)|all_hematologic(75;1.25e-06)|all_epithelial(107;0.00279)|Colorectal(196;0.0356)		BRCA - Breast invasive adenocarcinoma(108;0.08)		TAACCTGACTCTGACTTACCG	0.458													9	27					0	0	0.013537	0	0		G	96651497	G	G	96651497	3	3	195	1	0	0	0	0	1	0	0	0	6125	912	32	5	468	5	FUT9	6	96651497	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	56810468	96651497	74463570	45	97081											
GRM1	2911	broad.mit.edu	37	chr6	146755497	146755497	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgatcccggattttcacgcGgtgctggcaggccccggtgg	4	8	16	13	5	1	0	1	0	0	0	2	2	2	1	3	6	1	2	3	6	0	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr6:146755497G>A	uc010khw.1	+	9	3620	c.3150G>A	c.(3148-3150)GCG>GCA	p.A1050A	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1050	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	ATTTTCACGCGGTGCTGGCAG	0.667													3	36					0	0	0.004672	0	0		A	146755497	A	A	146755497	2	1	195	1	0	0	0	0	0	0	0	1	6812	1103	39	1		1	GRM1	6	146755497	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08	50104000	146755497	24359570	46	97082											
SOD2	6648	broad.mit.edu	37	chr6	160109172	160109172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accaacctttgggttctccaCcaccgttagggctgaggttt	7	12	10	12	1	1	1	0	1	1	0	2	1	1	1	5	3	1	4	5	3	2	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr6:160109172C>T	uc003qsg.2	-	3	483	c.329G>A	c.(328-330)GGT>GAT	p.G110D	SOD2_uc003qsh.2_Intron|SOD2_uc003qsi.1_Missense_Mutation_p.G110D|SOD2_uc011efu.1_Missense_Mutation_p.G110D|SOD2_uc011efv.1_Intron	NM_001024465	NP_001019636	P04179	SODM_HUMAN	manganese superoxide dismutase isoform A	110					age-dependent response to reactive oxygen species|negative regulation of neuron apoptosis|oxygen homeostasis|protein homotetramerization|regulation of transcription from RNA polymerase II promoter|release of cytochrome c from mitochondria|removal of superoxide radicals|vasodilation by acetylcholine involved in regulation of systemic arterial blood pressure		manganese ion binding|superoxide dismutase activity				0		Breast(66;0.000776)|Ovarian(120;0.0303)|Prostate(117;0.103)		OV - Ovarian serous cystadenocarcinoma(65;1.4e-18)|BRCA - Breast invasive adenocarcinoma(81;5.77e-06)		GGGTTCTCCACCACCGTTAGG	0.423													31	42					0	0	0.004878	0	0		T	160109172	T	T	160109172	3	4	195	1	0	0	0	0	1	0	0	0	14946	507	18	4	351	4	SOD2	6	160109172	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	13353675	160109172	11005895	47	97083											
PACRG	135138	broad.mit.edu	37	chr6	163735873	163735873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccagtgaactccggagacGgcattgactacagccagcag	12	5	11	13	2	0	3	0	2	0	1	1	4	1	3	3	2	4	2	3	2	2	2	rs143276239	by1000genomes	TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr6:163735873G>A	uc003qua.2	+	7	969	c.745G>A	c.(745-747)GGC>AGC	p.G249S	PACRG_uc003qub.2_Missense_Mutation_p.G210S|PACRG_uc003quc.2_Missense_Mutation_p.G210S|LOC285796_uc011egh.1_Intron	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1	249											0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		CTCCGGAGACGGCATTGACTA	0.493													17	17					0	0	0.010504	0	0		A	163735873	A	A	163735873	3	1	195	1	0	0	0	0	1	0	0	0	11389	1116	39	1	767	1	PACRG	6	163735873	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	3626701	163735873	7379194	48	97084											
STK31	56164	broad.mit.edu	37	chr7	23749937	23749937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcactcttctagagcttcCgcaacggaaagtgtgaggtc	9	10	12	10	2	3	2	1	1	2	1	5	3	4	3	1	3	2	2	1	3	3	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr7:23749937C>T	uc003sws.3	+	1	100	c.33C>T	c.(31-33)TCC>TCT	p.S11S	STK31_uc003swt.3_5'UTR|STK31_uc011jze.1_Silent_p.S11S|STK31_uc010kuq.2_5'Flank	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	11							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						CTAGAGCTTCCGCAACGGAAA	0.557													3	42					0	0	0.004672	0	0		T	23749937	T	T	23749937	2	4	195	1	0	0	0	0	0	0	0	1	15321	639	23	1		1	STK31	7	23749937	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08		23749937	135388726	49	97085											
ZNF680	340252	broad.mit.edu	37	chr7	63982107	63982107	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttctctccagtatgaattTtcttatgtttagtaaggttt	8	21	7	5	0	2	1	0	1	2	0	4	1	3	1	1	1	0	5	1	1	5	9			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr7:63982107T>C	uc003tta.2	-	4	1198	c.1025A>G	c.(1024-1026)AAA>AGA	p.K342R	ZNF680_uc010kzr.2_Missense_Mutation_p.K269R	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	342	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				AGTATGAATTTTCTTATGTTT	0.348													3	33					0	0	0.004672	0	0		C	63982107	C	C	63982107	3	2	195	1	0	0	0	0	1	0	0	0	18112	1841	64	3	571	3	ZNF680	7	63982107	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	40232170	63982107	95156556	50	97086											
ZNF804B	219578	broad.mit.edu	37	chr7	88964364	88964364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatgaccagcaaggtttccGgatgtggaaaccaaagatac	14	7	11	9	1	0	2	0	1	0	1	1	4	1	4	3	3	3	3	3	3	4	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr7:88964364G>A	uc011khi.1	+	4	2606	c.2068G>A	c.(2068-2070)GGA>AGA	p.G690R		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	690						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CAAGGTTTCCGGATGTGGAAA	0.453										HNSCC(36;0.09)			4	19					0	0	0.000602	0	0		A	88964364	A	A	88964364	3	1	195	1	0	0	0	0	1	0	0	0	18196	1117	39	1	2082	1	ZNF804B	7	88964364	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	24982257	88964364	70174299	51	97087											
REPIN1	29803	broad.mit.edu	37	chr7	150068855	150068855	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcccgccccggaggcccgGcccttcatatgcggcaactg	5	6	11	19	4	1	0	1	0	0	0	2	1	2	1	6	4	2	1	6	4	2	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr7:150068855G>A	uc010lpq.1	+	4	1014	c.525G>A	c.(523-525)CGG>CGA	p.R175R	REPIN1_uc003whd.2_Silent_p.R164R|REPIN1_uc010lpr.1_Silent_p.R232R|REPIN1_uc003whc.2_Silent_p.R175R|REPIN1_uc003whe.2_Silent_p.R175R	NM_013400	NP_037532	Q9BWE0	REPI1_HUMAN	replication initiator 1 isoform 1	175					DNA replication	nuclear origin of replication recognition complex	DNA binding|zinc ion binding			pancreas(1)	1	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.011)			CGGAGGCCCGGCCCTTCATAT	0.667													4	25					0	0	0.001168	0	0		A	150068855	A	A	150068855	2	1	195	1	0	0	0	0	0	0	0	1	13252	1190	42	2		2	REPIN1	7	150068855	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08	61104491	150068855	9069808	52	97088											
MLL3	58508	broad.mit.edu	37	chr7	151875049	151875049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaggaggcacaaggaagcGctcttgactcggcatggtac	10	7	14	10	2	1	2	0	2	1	0	2	4	1	4	0	5	2	4	0	5	3	2	rs150994342	byFrequency	TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr7:151875049G>A	uc003wla.2	-	38	7708	c.7489C>T	c.(7489-7491)CGC>TGC	p.R2497C	MLL3_uc003wkz.2_Missense_Mutation_p.R1558C|MLL3_uc003wky.2_Missense_Mutation_p.R6C	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2497	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ACAAGGAAGCGCTCTTGACTC	0.363			N		medulloblastoma								9	35					0	0	0.001855	0	0		A	151875049	A	A	151875049	3	1	195	1	0	0	0	0	1	0	0	0	9640	1087	38	1	7334	1	MLL3	7	151875049	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	1806194	151875049	7263614	53	97089											
CSMD1	64478	broad.mit.edu	37	chr8	4851918	4851918	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	agaagcaggagcagcgactgGaatctcctccacgcagtcat	12	6	11	12	2	2	1	1	0	1	1	4	4	3	3	2	2	3	3	2	2	2	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr8:4851918G>C	uc011kwk.1	-	1	411	c.21C>G	c.(19-21)TTC>TTG	p.F7L		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	7						integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GCAGCGACTGGAATCTCCTCC	0.622													3	40					0	0	0.004672	0	0		C	4851918	C	C	4851918	3	2	195	1	0	0	0	0	1	0	0	0	3947	1165	41	5	10766	5	CSMD1	8	4851918	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08		4851918	141512104	54	97090											
DLC1	10395	broad.mit.edu	37	chr8	13357579	13357579	+	Missense_Mutation	SNP	A	G	G	1	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	tctttctgatagctacagacAtgtcatcgtagtttaacaac	12	14	6	9	1	3	2	1	1	2	1	4	2	3	2	0	0	4	3	0	0	5	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr8:13357579A>G	uc003wwm.2	-	2	446	c.2T>C	c.(1-3)ATG>ACG	p.M1T	DLC1_uc003wwn.2_Missense_Mutation_p.M1T|DLC1_uc011kxy.1_Missense_Mutation_p.M1T	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						AGCTACAGACATGTCATCGTA	0.388													3	44					0	0	0.009096	0	0		G	13357579	G	G	13357579	3	3	195	1	0	0	0	0	1	0	0	0	4556	217	8	3	4737	3	DLC1	8	13357579	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	8505661	13357579	133006443	55	97091											
KCNU1	157855	broad.mit.edu	37	chr8	36698093	36698093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctttcctgaagttgcccGgtaagtgaagtgaaatactt	11	12	11	7	1	0	3	0	3	0	0	1	4	1	3	2	1	3	3	2	1	5	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr8:36698093G>A	uc010lvw.2	+	15	1718	c.1631G>A	c.(1630-1632)CGG>CAG	p.R544Q	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	544	Segment S8.|Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		GAAGTTGCCCGGTAAGTGAAG	0.299													3	7					0	0	0.004672	0	0		A	36698093	A	A	36698093	3	1	195	1	0	0	0	0	1	0	0	0	8109	1130	39	1	1689	1	KCNU1	8	36698093	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	23340514	36698093	109665929	56	97092											
SNTG1	54212	broad.mit.edu	37	chr8	51617262	51617262	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggaaagtgacctcgcccagTgggaaagagccttccagaca	12	6	12	11	1	0	3	0	1	0	2	2	5	1	5	4	2	1	0	4	2	2	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr8:51617262T>G	uc010lxy.1	+	17	1512	c.1141T>G	c.(1141-1143)TGG>GGG	p.W381G	SNTG1_uc003xqs.1_Missense_Mutation_p.W381G|SNTG1_uc010lxz.1_Missense_Mutation_p.W381G|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	381	PH.				cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				CCTCGCCCAGTGGGAAAGAGC	0.557													6	43					0	0	0.001984	0	0		G	51617262	G	G	51617262	3	3	195	1	0	0	0	0	1	0	0	0	14899	1696	59	5	1195	5	SNTG1	8	51617262	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	14919169	51617262	94746760	57	97093											
OSR2	116039	broad.mit.edu	37	chr8	99961494	99961494	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcagggggccattgcccacgTcctcccagccctgcacaagg	7	5	12	17	1	0	0	0	0	0	0	2	0	2	0	5	3	3	2	5	3	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr8:99961494T>A	uc003yir.2	+	2	849	c.314T>A	c.(313-315)GTC>GAC	p.V105D	OSR2_uc010mbn.2_Missense_Mutation_p.V105D|OSR2_uc003yiq.2_Missense_Mutation_p.V105D|OSR2_uc011lgx.1_Missense_Mutation_p.V226D	NM_001142462	NP_001135934	Q8N2R0	OSR2_HUMAN	odd-skipped related 2 isoform a	105					bone morphogenesis|chondrocyte differentiation|embryonic digit morphogenesis|embryonic forelimb morphogenesis|embryonic hindlimb morphogenesis|embryonic leg joint morphogenesis|embryonic skeletal joint morphogenesis|eyelid development in camera-type eye|head development|mesonephros development|metanephros development|middle ear morphogenesis|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|osteoblast proliferation|palate development|positive regulation of bone mineralization|positive regulation of epithelial cell proliferation|positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|zinc ion binding			central_nervous_system(1)	1	Breast(36;4.14e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.0136)			ATTGCCCACGTCCTCCCAGCC	0.652													28	131					0	0	0.003755	0	0		A	99961494	A	A	99961494	3	1	195	1	0	0	0	0	1	0	0	0	11313	1667	58	5	316	5	OSR2	8	99961494	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	48344232	99961494	46402528	58	97094											
KCNQ3	3786	broad.mit.edu	37	chr8	133150173	133150173	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctggaaagcatgtcgagatgCccggcagaatactgctcaat	12	8	11	10	2	1	2	1	0	0	2	2	4	1	3	1	2	4	3	1	2	4	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr8:133150173C>T	uc003ytj.2	-	12	1884	c.1659G>A	c.(1657-1659)GGG>GGA	p.G553G	KCNQ3_uc010mdt.2_Silent_p.G553G	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	553					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			TGTCGAGATGCCCGGCAGAAT	0.463													11	69					0	0	0.013537	0	0		T	133150173	T	T	133150173	2	4	195	1	0	0	0	0	0	0	0	1	8100	726	26	2		2	KCNQ3	8	133150173	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	33188679	133150173	13213849	59	97095											
CNTLN	54875	broad.mit.edu	37	chr9	17135365	17135365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggaggcgatggtgacccGgacgcagctgctggaggaag	10	4	19	8	3	0	2	0	1	0	1	0	7	0	6	1	6	2	3	1	6	1	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr9:17135365G>A	uc003zmz.2	+	1	328	c.302G>A	c.(301-303)CGG>CAG	p.R101Q	CNTLN_uc003zmx.3_Missense_Mutation_p.R101Q|CNTLN_uc003zmy.2_Missense_Mutation_p.R101Q|CNTLN_uc003zmw.1_Missense_Mutation_p.R101Q	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	101	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		ATGGTGACCCGGACGCAGCTG	0.667													4	4					0	0	0.001168	0	0		A	17135365	A	A	17135365	3	1	195	1	0	0	0	0	1	0	0	0	3642	1116	39	1	304	1	CNTLN	9	17135365	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08		17135365	124078066	60	97096											
CNTFR	1271	broad.mit.edu	37	chr9	34552722	34552722	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggttcctcagtccagggcGtagcgtgggcggctacgctc	4	8	16	13	5	1	0	1	0	0	0	4	0	3	0	2	4	2	4	2	4	2	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr9:34552722G>A	uc003zup.1	-	8	1180	c.899C>T	c.(898-900)ACG>ATG	p.T300M	CNTFR_uc003zuq.1_Missense_Mutation_p.T300M	NM_147164	NP_671693	P26992	CNTFR_HUMAN	ciliary neurotrophic factor receptor	300	Fibronectin type-III 2.				nervous system development	anchored to membrane|extrinsic to membrane|plasma membrane	ciliary neurotrophic factor receptor activity|receptor binding			ovary(3)|central_nervous_system(1)|skin(1)	5	all_epithelial(49;0.0899)		STAD - Stomach adenocarcinoma(86;0.212)	GBM - Glioblastoma multiforme(74;0.00494)		AGTCCAGGGCGTAGCGTGGGC	0.627													10	39					0	0	0.008291	0	0		A	34552722	A	A	34552722	3	1	195	1	0	0	0	0	1	0	0	0	3641	1145	40	1	231	1	CNTFR	9	34552722	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	17417357	34552722	106660709	61	97097											
C9orf79	286234	broad.mit.edu	37	chr9	90501251	90501251	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtcagcccccatccttcccGgggttgtcaccagccctgag	6	8	10	17	1	2	1	2	1	0	0	4	1	4	1	6	2	2	1	6	2	0	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr9:90501251G>A	uc004app.3	+	4	1884	c.1849G>A	c.(1849-1851)GGG>AGG	p.G617R	C9orf79_uc004apo.1_Missense_Mutation_p.G429R	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	617						integral to membrane				ovary(3)	3						CATCCTTCCCGGGGTTGTCAC	0.627													9	57					0	0	0.008291	0	0		A	90501251	A	A	90501251	3	1	195	1	0	0	0	0	1	0	0	0	2500	1116	39	1	1863	1	C9orf79	9	90501251	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	55948529	90501251	50712180	62	97098											
C9orf3	84909	broad.mit.edu	37	chr9	97563249	97563249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcggctggatgttctcatCgtccctgccaactttccaag	6	13	8	14	2	2	0	1	0	2	0	7	1	4	1	3	2	2	2	3	2	2	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr9:97563249C>T	uc004ava.2	+	4	1464	c.1329C>T	c.(1327-1329)ATC>ATT	p.I443I	C9orf3_uc004aux.1_Silent_p.I443I|C9orf3_uc004auy.2_Silent_p.I443I|C9orf3_uc004auz.1_Silent_p.I443I	NM_032823	NP_116212	Q8N6M6	AMPO_HUMAN	aminopeptidase O	443					leukotriene biosynthetic process|proteolysis	cytoplasm	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.000275)		ATGTTCTCATCGTCCCTGCCA	0.522													20	112					0	0	0.00333	0	0		T	97563249	T	T	97563249	2	4	195	1	0	0	0	0	0	0	0	1	2480	874	31	1		1	C9orf3	9	97563249	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	7061998	97563249	43650182	63	97099											
MUSK	4593	broad.mit.edu	37	chr9	113538210	113538210	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcttcccagcatgcattggGaccccacggcctgtgccaga	8	7	11	15	1	0	1	0	0	0	1	1	2	1	2	5	2	4	3	5	2	0	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr9:113538210G>A	uc004bey.2	+	9	1425	c.1327G>A	c.(1327-1329)GAC>AAC	p.D443N	MUSK_uc004bez.1_Missense_Mutation_p.D31N	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	443	FZ.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						CATGCATTGGGACCCCACGGC	0.488													16	134					0	0	0.010504	0	0		A	113538210	A	A	113538210	3	1	195	1	0	0	0	0	1	0	0	0	10007	1174	41	4	1397	4	MUSK	9	113538210	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	15974961	113538210	27675221	64	97100											
RNF183	138065	broad.mit.edu	37	chr9	116060314	116060314	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggcacagcaggcggcgccGggctggagtcacaaggctga	8	4	18	11	3	1	1	1	1	0	0	1	2	1	2	1	6	1	4	1	6	1	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr9:116060314G>A	uc004bgz.2	-	2	269	c.151C>T	c.(151-153)CGG>TGG	p.R51W	RNF183_uc004bha.2_Missense_Mutation_p.R51W	NM_145051	NP_659488	Q96D59	RN183_HUMAN	ring finger protein 183	51	RING-type.					integral to membrane	zinc ion binding				0						AGGCGGCGCCGGGCTGGAGTC	0.627													10	35					0	0	0.013537	0	0		A	116060314	A	A	116060314	3	1	195	1	0	0	0	0	1	0	0	0	13492	1115	39	1	431	1	RNF183	9	116060314	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	2522104	116060314	25153117	65	97101											
TTC16	158248	broad.mit.edu	37	chr9	130479638	130479638	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccagaggccagcagtgcttgGagcaggcagactgggagaca	11	4	16	10	0	0	3	0	0	0	3	0	5	0	4	2	4	3	4	2	4	0	1	rs139753825	byFrequency	TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr9:130479638G>C	uc004brq.1	+	3	284	c.217G>C	c.(217-219)GAG>CAG	p.E73Q	PTRH1_uc004brm.2_5'Flank|PTRH1_uc004bro.2_5'Flank|PTRH1_uc010mxm.2_5'Flank|PTRH1_uc011mah.1_Intron|TTC16_uc011mai.1_Missense_Mutation_p.E73Q|TTC16_uc004brr.1_Missense_Mutation_p.E66Q|TTC16_uc010mxn.1_5'Flank	NM_144965	NP_659402	Q8NEE8	TTC16_HUMAN	tetratricopeptide repeat domain 16	73	TPR 1.						binding				0						GCAGTGCTTGGAGCAGGCAGA	0.662													11	42					0	0	0.00245	0	0		C	130479638	C	C	130479638	3	2	195	1	0	0	0	0	1	0	0	0	16709	1175	41	5	227	5	TTC16	9	130479638	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	14419324	130479638	10733793	66	97102											
MPP7	143098	broad.mit.edu	37	chr10	28420612	28420612	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccacagtatcatgtacagaGagcaaagcctgtaatattca	15	9	8	9	0	2	1	2	0	0	1	2	2	2	1	2	0	3	4	2	0	5	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr10:28420612G>C	uc001iua.1	-	8	728	c.324C>G	c.(322-324)CTC>CTG	p.L108L	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Silent_p.L108L|MPP7_uc009xla.2_Silent_p.L108L|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	108	L27 2.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						CATGTACAGAGAGCAAAGCCT	0.294													3	28					0	0	0.009096	0	0		C	28420612	C	C	28420612	2	2	195	1	0	0	0	0	0	0	0	1	9757	929	33	5		5	MPP7	10	28420612	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08		28420612	107114135	67	97103											
NRP1	8829	broad.mit.edu	37	chr10	33469182	33469182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccaggaggacccccagggcaCtcatggctatgatggtgatg	9	7	14	11	0	1	2	1	2	0	0	1	4	1	4	3	5	0	2	3	5	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr10:33469182C>T	uc001iwx.3	-	17	3117	c.2594G>A	c.(2593-2595)AGT>AAT	p.S865N	NRP1_uc001iwv.3_Missense_Mutation_p.S848N|NRP1_uc009xlz.2_Missense_Mutation_p.S859N|NRP1_uc001iww.3_Missense_Mutation_p.S677N|NRP1_uc001iwy.3_Missense_Mutation_p.S858N	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	865	Helical; (Potential).				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	CCCCAGGGCACTCATGGCTAT	0.537													9	68					0	0	0.010729	0	0		T	33469182	T	T	33469182	3	4	195	1	0	0	0	0	1	0	0	0	10679	565	20	4	181	4	NRP1	10	33469182	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	5048570	33469182	102065565	68	97104											
JMJD1C	221037	broad.mit.edu	37	chr10	64974716	64974717	+	Frame_Shift_Ins	INS	-	A	A																															atttatttttgaagtattttINStatttttcaattcattctct																										TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr10:64974716_64974717insA	uc001jmn.2	-	8	1510_1511	c.1210_1211insT	c.(1210-1212)AAAfs	p.K404fs	JMJD1C_uc001jml.2_Frame_Shift_Ins_p.K185fs|JMJD1C_uc001jmm.2_Frame_Shift_Ins_p.K116fs|JMJD1C_uc010qiq.1_Frame_Shift_Ins_p.K222fs|JMJD1C_uc009xpi.2_Frame_Shift_Ins_p.K222fs|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_Frame_Shift_Ins_p.K116fs	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	404					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					TGAAGTATTTTTATTTTTCAAT	0.347													2	4	---	---	---	---						.	A	64974717	A	A	64974716	7	5	195	1	0	1	1	0	0	0	0	0	7966	1841	64	0	6487	0	JMJD1C	10	64974716	Frame_Shift_Ins	INS	-	TCGA-FP-7916-01A-11D-2201-08	31505534	64974716	70560031	69	97105											
EBF3	253738	broad.mit.edu	37	chr10	131760472	131760472	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctatgaggcgaacatacagaTcttgctctgttctgactcct	9	13	8	11	1	3	3	0	2	3	1	4	4	4	3	1	1	3	2	1	1	3	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr10:131760472T>A	uc001lki.1	-	4	433	c.374A>T	c.(373-375)GAT>GTT	p.D125V	EBF3_uc010qur.1_3'UTR	NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	125					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		AACATACAGATCTTGCTCTGT	0.493													5	73					0	0	0.001168	0	0		A	131760472	A	A	131760472	3	1	195	1	0	0	0	0	1	0	0	0	4888	1435	50	5	1333	5	EBF3	10	131760472	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	66785756	131760472	3774275	70	97106											
KRTAP5-4	387267	broad.mit.edu	37	chr11	1642992	1642992	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tggaacccccacaggagccaCagccccccttggagccccca	9	3	9	20	0	0	0	0	0	0	0	0	3	0	3	8	3	4	0	8	3	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:1642992C>T	uc009ycy.1	-	3	557	c.470G>A	c.(469-471)TGT>TAT	p.C157Y		NM_001012709	NP_001012727	Q6L8H1	KRA54_HUMAN	keratin associated protein 5-4	171	9 X 4 AA repeats of C-C-X-P.					keratin filament					0		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)		ACAGGAGCCACAGCCCCCCTT	0.672													5	164					0	0	0.001168	0	0		T	1642992	T	T	1642992	3	4	195	1	0	0	0	0	1	0	0	0	8579	478	17	4	358	4	KRTAP5-4	11	1642992	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08		1642992	133363524	71	97107											
RBMXL2	27288	broad.mit.edu	37	chr11	7110411	7110411	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcctcaacctcgaaaccgaCgagaaagccctcgaagccga	13	3	10	15	5	1	1	1	0	0	1	3	6	1	1	5	1	4	0	5	1	4	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:7110411C>T	uc001mfc.2	+	1	247	c.60C>T	c.(58-60)GAC>GAT	p.D20D		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	20	RRM.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TCGAAACCGACGAGAAAGCCC	0.607													8	22					0	0	0.008291	0	0		T	7110411	T	T	7110411	2	4	195	1	0	0	0	0	0	0	0	1	13179	535	19	1		1	RBMXL2	11	7110411	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	5467419	7110411	127896105	72	97108											
SYT9	143425	broad.mit.edu	37	chr11	7334764	7334764	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aggtcattggataatgatgaCgggagacggagtaacagcaa	15	7	14	5	2	1	3	1	2	0	1	1	6	1	5	0	4	2	2	0	4	3	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:7334764C>T	uc001mfe.2	+	3	873	c.636C>T	c.(634-636)GAC>GAT	p.D212D	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	212	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		ATAATGATGACGGGAGACGGA	0.403													9	44					0	0	0.013537	0	0		T	7334764	T	T	7334764	2	4	195	1	0	0	0	0	0	0	0	1	15506	535	19	1		1	SYT9	11	7334764	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	224353	7334764	127671752	73	97109											
PAX6	5080	broad.mit.edu	37	chr11	31822268	31822268	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gttgccctggcaccgaagtcCccggataccaaccagggcgg	8	5	13	15	3	0	0	0	0	0	0	1	2	1	1	6	4	3	2	6	4	3	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:31822268C>A	uc001mtd.3	-	6	1384	c.494G>T	c.(493-495)GGG>GTG	p.G165V	PAX6_uc001mte.3_Missense_Mutation_p.G165V|PAX6_uc001mtg.3_Missense_Mutation_p.G179V|PAX6_uc001mtf.3_Missense_Mutation_p.G165V|PAX6_uc001mth.3_Missense_Mutation_p.G165V|PAX6_uc009yjr.2_Missense_Mutation_p.G165V	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	165	Gln/Gly-rich.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CACCGAAGTCCCCGGATACCA	0.572									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				10	137					0.000151284	0.000164755	0.001855	1	0		A	31822268	A	A	31822268	3	1	195	1	0	0	0	0	1	0	0	0	11502	623	22	5	802	5	PAX6	11	31822268	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	24487504	31822268	103184248	74	97110											
F2	2147	broad.mit.edu	37	chr11	46750282	46750282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaccccaggtacaactggcGggagaacctggaccgggaca	11	3	13	14	2	0	1	0	0	0	1	0	4	0	3	5	5	3	1	5	5	3	1	rs143498218		TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:46750282G>A	uc001ndf.3	+	11	1410	c.1367G>A	c.(1366-1368)CGG>CAG	p.R456Q	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	456	Peptidase S1.				activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	TACAACTGGCGGGAGAACCTG	0.517													23	70					0	0	0.00632	0	0		A	46750282	A	A	46750282	3	1	195	1	0	0	0	0	1	0	0	0	5350	1116	39	1	1409	1	F2	11	46750282	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	14928014	46750282	88256234	75	97111											
C11orf66	220004	broad.mit.edu	37	chr11	61254513	61254513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacgttgccctgcttggcCgggagactgtggggaaaaag	10	7	15	9	2	0	1	0	0	0	1	0	3	0	2	2	4	3	2	2	4	3	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:61254513C>T	uc001nru.1	+	10	1053	c.928C>T	c.(928-930)CGG>TGG	p.R310W	C11orf66_uc009ynq.1_Missense_Mutation_p.R290W	NM_145017	NP_659454	Q7Z5V6	CK066_HUMAN	IIIG9 protein	310										ovary(1)	1						CCTGCTTGGCCGGGAGACTGT	0.582													8	163					0	0	0.004482	0	0		T	61254513	T	T	61254513	3	4	195	1	0	0	0	0	1	0	0	0	1659	643	23	1	962	1	C11orf66	11	61254513	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	14504231	61254513	73752003	76	97112											
MARK2	2011	broad.mit.edu	37	chr11	63671514	63671514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcttctgccgcagtctctgCggcccggccccgccagcacc	3	7	11	20	4	2	0	0	0	2	0	3	0	2	0	6	2	4	3	6	2	0	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:63671514C>T	uc001nxw.2	+	15	2150	c.1571C>T	c.(1570-1572)GCG>GTG	p.A524V	MARK2_uc001nxx.2_Intron|MARK2_uc001nxy.2_Intron|MARK2_uc001nxv.3_Intron|MARK2_uc001nxz.3_Missense_Mutation_p.A490V|MARK2_uc009yoy.2_Intron	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	524					cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						GCAGTCTCTGCGGCCCGGCCC	0.662													5	11					0	0	0.001168	0	0		T	63671514	T	T	63671514	3	4	195	1	0	0	0	0	1	0	0	0	9331	768	27	1	1629	1	MARK2	11	63671514	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	2417001	63671514	71335002	77	97113											
KCNK7	10089	broad.mit.edu	37	chr11	65361001	65361001	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggtgcaggctgcggccgcGgccgggcagcaagtcctcca	5	4	18	14	4	0	0	0	0	0	0	2	0	2	0	4	6	3	4	4	6	1	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:65361001G>A	uc001oes.2	-	2	888	c.664C>T	c.(664-666)CGC>TGC	p.R222C	KCNK7_uc001oeq.2_Missense_Mutation_p.R222C|KCNK7_uc001oer.2_Missense_Mutation_p.R222C|KCNK7_uc001oeu.2_Missense_Mutation_p.R222C	NM_033347	NP_203133	Q9Y2U2	KCNK7_HUMAN	potassium channel, subfamily K, member 7 isoform	222						integral to membrane	potassium channel activity|voltage-gated ion channel activity				0						CTGCGGCCGCGGCCGGGCAGC	0.657													5	52					0	0	0.000602	0	0		A	65361001	A	A	65361001	3	1	195	1	0	0	0	0	1	0	0	0	8087	1116	39	1	368	1	KCNK7	11	65361001	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	1689487	65361001	69645515	78	97114											
RSF1	51773	broad.mit.edu	37	chr11	77378083	77378083	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccattggaggctaggcttGcactggctgtgctgttgtcc	4	13	13	11	0	0	0	0	0	0	0	2	1	2	1	2	4	2	6	2	4	1	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:77378083G>T	uc001oyn.2	-	16	4325	c.4205C>A	c.(4204-4206)GCA>GAA	p.A1402E	RSF1_uc001oym.2_Missense_Mutation_p.A1150E	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	1402					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	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)			GGCTAGGCTTGCACTGGCTGT	0.527													12	59					3.52763e-06	3.92233e-06	0.00499	1	0		T	77378083	T	T	77378083	3	4	195	1	0	0	0	0	1	0	0	0	13724	1319	46	5	124	5	RSF1	11	77378083	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	12017082	77378083	57628433	79	97115											
OR10G8	219869	broad.mit.edu	37	chr11	123901046	123901046	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcacagagcctttcagacCtgtgcctcccactgtatcgt	9	10	8	14	1	1	2	1	0	0	2	3	2	2	2	4	0	3	2	4	0	2	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr11:123901046C>A	uc001pzp.1	+	1	717	c.717C>A	c.(715-717)ACC>ACA	p.T239T		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0521)		CCTTTCAGACCTGTGCCTCCC	0.562													11	25					0.000151284	0.000164755	0.001855	1	0		A	123901046	A	A	123901046	2	1	195	1	0	0	0	0	0	0	0	1	10922	668	24	5		5	OR10G8	11	123901046	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	46522963	123901046	11105470	80	97116											
SLC2A13	114134	broad.mit.edu	37	chr12	40265616	40265616	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacctgctaaactaccaaaGgtaagctttctgcggcccac	11	9	7	14	1	1	0	0	0	1	0	1	0	1	0	3	2	6	3	3	2	6	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr12:40265616G>T	uc010skm.1	-	5	1233	c.1182C>A	c.(1180-1182)ACC>ACA	p.T394T	C12orf40_uc009zjv.1_Intron|SLC2A13_uc001rme.1_Silent_p.T41T	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	394	Helical; Name=9; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				AACTACCAAAGGTAAGCTTTC	0.383										HNSCC(50;0.14)			7	31					4.68919e-08	5.28781e-08	0.008291	1	0		T	40265616	T	T	40265616	2	4	195	1	0	0	0	0	0	0	0	1	14567	987	35	5		5	SLC2A13	12	40265616	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08		40265616	93586279	81	97117											
RDH16	8608	broad.mit.edu	37	chr12	57351150	57351150	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtcacagcccgtgatgaAcacatacttatctctcaggt	12	10	8	11	1	3	3	2	2	1	1	4	3	3	3	1	1	3	0	1	1	3	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr12:57351150A>G	uc001smi.3	-	1	269	c.97T>C	c.(97-99)TTC>CTC	p.F33L	RDH16_uc009zpa.2_5'UTR|RDH16_uc010sqx.1_RNA	NM_003708	NP_003699	O75452	RDH16_HUMAN	retinol dehydrogenase 16	33	NAD (By similarity).|Cytoplasmic (Potential).				lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	binding|electron carrier activity|retinol dehydrogenase activity				0						CCCGTGATGAACACATACTTA	0.587													19	104					0	0	0.008871	0	0		G	57351150	G	G	57351150	3	3	195	1	0	0	0	0	1	0	0	0	13219	43	2	3	872	3	RDH16	12	57351150	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	17085534	57351150	76500745	82	97118											
NAV3	89795	broad.mit.edu	37	chr12	78400619	78400619	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtggtctgaatagtggtgGctcaacaaatagcagtccca	12	9	11	9	0	2	1	1	1	1	0	3	1	3	1	1	3	2	2	1	3	5	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr12:78400619G>T	uc001syp.2	+	8	1474	c.1301G>T	c.(1300-1302)GGC>GTC	p.G434V	NAV3_uc001syo.2_Missense_Mutation_p.G434V	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	434						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AATAGTGGTGGCTCAACAAAT	0.453										HNSCC(70;0.22)			20	55					1.1804e-14	1.41115e-14	0.003954	1	0		T	78400619	T	T	78400619	3	4	195	1	0	0	0	0	1	0	0	0	10203	1203	42	5	1331	5	NAV3	12	78400619	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	21049469	78400619	55451276	83	97119											
DCN	1634	broad.mit.edu	37	chr12	91558423	91558423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagtctccatctttgatttCggttattttgttgttttgca	7	21	7	6	1	2	1	0	1	2	0	4	1	2	1	1	1	1	4	1	1	2	8			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr12:91558423C>T	uc001tbs.2	-	2	377	c.283G>A	c.(283-285)GAA>AAA	p.E95K	DCN_uc001tbo.2_Intron|DCN_uc001tbp.2_Intron|DCN_uc001tbq.2_Missense_Mutation_p.E95K|DCN_uc001tbr.2_Intron|DCN_uc001tbt.2_Missense_Mutation_p.E95K|DCN_uc001tbu.2_Missense_Mutation_p.E95K	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	95	LRR 2.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4						TCTTTGATTTCGGTTATTTTG	0.373													4	23					0	0	0.001168	0	0		T	91558423	T	T	91558423	3	4	195	1	0	0	0	0	1	0	0	0	4300	893	31	1	820	1	DCN	12	91558423	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	13157804	91558423	42293472	84	97120											
SACS	26278	broad.mit.edu	37	chr13	23914670	23914670	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgatcaggacaagcaccGacctgtaaggcttcaatttt	11	12	8	10	1	3	1	2	1	1	0	3	3	3	2	2	2	1	3	2	2	3	5	rs143287019	byFrequency	TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr13:23914670G>A	uc001uon.2	-	10	3934	c.3345C>T	c.(3343-3345)GTC>GTT	p.V1115V	SACS_uc001uoo.2_Silent_p.V968V|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	1115					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GACAAGCACCGACCTGTAAGG	0.378													13	70					0	0	0.003163	0	0		A	23914670	A	A	23914670	2	1	195	1	0	0	0	0	0	0	0	1	13829	1045	37	1		1	SACS	13	23914670	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08		23914670	91255208	85	97121											
LNX2	222484	broad.mit.edu	37	chr13	28143217	28143217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgtcaaggccaggctcctCactccatgtggaaagagacg	10	8	12	11	1	2	1	2	0	0	1	4	3	4	2	3	3	0	2	3	3	2	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr13:28143217C>T	uc001url.3	-	3	913	c.604G>A	c.(604-606)GAG>AAG	p.E202K	LNX2_uc001urm.1_Missense_Mutation_p.E202K	NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	202							zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		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)		CCAGGCTCCTCACTCCATGTG	0.527													18	101					0	0	0.014323	0	0		T	28143217	T	T	28143217	3	4	195	1	0	0	0	0	1	0	0	0	8883	835	29	4	1500	4	LNX2	13	28143217	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	4228547	28143217	87026661	86	97122											
SIX6	4990	broad.mit.edu	37	chr14	60976612	60976612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgagctcgcccaggcaaccGgactgacccctacgcaggtg	8	5	13	15	3	0	2	0	2	0	0	1	3	0	3	4	3	3	3	4	3	2	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr14:60976612G>A	uc001xfa.3	+	1	675	c.496G>A	c.(496-498)GGA>AGA	p.G166R		NM_007374	NP_031400	O95475	SIX6_HUMAN	SIX homeobox 6	166	Homeobox.				organ morphogenesis|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.088)		CCAGGCAACCGGACTGACCCC	0.617													4	15					0	0	0.009096	0	0		A	60976612	A	A	60976612	3	1	195	1	0	0	0	0	1	0	0	0	14376	1117	39	1	498	1	SIX6	14	60976612	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08		60976612	46372928	87	97123											
FLRT2	23768	broad.mit.edu	37	chr14	86089507	86089507	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgggcttgatcgggggcgCggtgatatttgtgctggtgg	3	11	21	6	4	0	2	0	2	0	0	1	2	0	2	0	7	1	2	0	7	1	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr14:86089507C>T	uc001xvr.2	+	2	2416	c.1649C>T	c.(1648-1650)GCG>GTG	p.A550V	FLRT2_uc010atd.2_Missense_Mutation_p.A550V	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		ATCGGGGGCGCGGTGATATTT	0.587													12	70					0	0	0.003163	0	0		T	86089507	T	T	86089507	3	4	195	1	0	0	0	0	1	0	0	0	5953	768	27	1	1651	1	FLRT2	14	86089507	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	25112895	86089507	21260033	88	97124											
RHOT2	89941	broad.mit.edu	37	chr16	722946	722946	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	agcaccattacatggacgggCagaccccctgcctctttgtc	8	9	9	15	1	1	1	0	0	1	1	2	2	1	2	4	2	3	2	4	2	1	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr16:722946C>A	uc002cip.2	+	18	1613	c.1546C>A	c.(1546-1548)CAG>AAG	p.Q516K	RHOT2_uc002ciq.2_Missense_Mutation_p.Q409K|RHOT2_uc010bqy.2_Missense_Mutation_p.Q295K|RHBDL1_uc002cir.1_5'Flank|RHBDL1_uc010uun.1_5'Flank	NM_138769	NP_620124	Q8IXI1	MIRO2_HUMAN	ras homolog gene family, member T2	516	Miro 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			pancreas(1)	1		Hepatocellular(780;0.0218)				CATGGACGGGCAGACCCCCTG	0.652													6	72					0.000274275	0.000292683	0.004482	1	0		A	722946	A	A	722946	3	1	195	1	0	0	0	0	1	0	0	0	13369	711	25	5	1616	5	RHOT2	16	722946	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08		722946	89631807	89	97125											
SYT17	51760	broad.mit.edu	37	chr16	19191722	19191722	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccttcctataggatggccagCcggagcagtgacaaggatgg	10	7	14	10	1	0	1	0	1	0	0	1	4	1	4	4	5	2	1	4	5	3	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr16:19191722C>A	uc002dfw.2	+	4	523	c.192C>A	c.(190-192)AGC>AGA	p.S64R	SYT17_uc002dfx.2_Missense_Mutation_p.S3R|SYT17_uc002dfy.2_Missense_Mutation_p.S60R|SYT17_uc002dfv.1_Missense_Mutation_p.S3R	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	64						membrane|synaptic vesicle	transporter activity			ovary(1)	1						GGATGGCCAGCCGGAGCAGTG	0.597											OREG0023658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	88					4.14922e-12	4.85092e-12	0.004007	1	0		A	19191722	A	A	19191722	3	1	195	1	0	0	0	0	1	0	0	0	15498	738	26	5	206	5	SYT17	16	19191722	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	18468776	19191722	71163031	90	97126											
GPR139	124274	broad.mit.edu	37	chr16	20043149	20043149	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccggcgagatccaggggcTacttgttatggaaaagttat	10	11	13	7	2	0	1	0	0	0	1	1	3	1	2	2	4	2	3	2	4	5	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr16:20043149T>C	uc002dgu.1	-	2	1132	c.970A>G	c.(970-972)AGC>GGC	p.S324G	GPR139_uc010vaw.1_Missense_Mutation_p.S231G	NM_001002911	NP_001002911	Q6DWJ6	GP139_HUMAN	G protein-coupled receptor 139	324	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)	2						ATCCAGGGGCTACTTGTTATG	0.483													6	117					0	0	0.00308	0	0		C	20043149	C	C	20043149	3	2	195	1	0	0	0	0	1	0	0	0	6663	1522	53	3	95	3	GPR139	16	20043149	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	851427	20043149	70311604	91	97127											
GPR114	221188	broad.mit.edu	37	chr16	57608778	57608778	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtcctggtcatgggctacggCggcctcacgtccctcttcaa	5	10	11	15	3	4	0	3	0	1	0	6	0	6	0	3	4	1	1	3	4	2	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr16:57608778C>T	uc002elx.3	+	11	1345	c.1260C>T	c.(1258-1260)GGC>GGT	p.G420G	GPR114_uc010vhr.1_Missense_Mutation_p.A381V|GPR114_uc002ely.2_Silent_p.G420G	NM_153837	NP_722579	Q8IZF4	GP114_HUMAN	G protein-coupled receptor 114 precursor	420	Helical; Name=5; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						TGGGCTACGGCGGCCTCACGT	0.701													10	85					0	0	0.001855	0	0		T	57608778	T	T	57608778	2	4	195	1	0	0	0	0	0	0	0	1	6646	755	27	1		1	GPR114	16	57608778	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	37565629	57608778	32745975	92	97128											
CNOT1	23019	broad.mit.edu	37	chr16	58554928	58554928	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatgcagcactgtgcgacCgactggaataacctgaagga	12	6	11	12	2	0	1	0	1	0	0	0	5	0	3	3	2	4	2	3	2	3	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr16:58554928C>T	uc002env.2	-	49	7358	c.7065G>A	c.(7063-7065)TCG>TCA	p.S2355S	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Silent_p.S2350S|CNOT1_uc002ent.2_Silent_p.S293S|CNOT1_uc010vik.1_Silent_p.S1312S	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	2355					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		ACTGTGCGACCGACTGGAATA	0.478													8	50					0	0	0.004482	0	0		T	58554928	T	T	58554928	2	4	195	1	0	0	0	0	0	0	0	1	3620	639	23	1		1	CNOT1	16	58554928	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	946150	58554928	31799825	93	97129											
NECAB2	54550	broad.mit.edu	37	chr16	84005763	84005763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttttctgcagattttccGccgtgcggacaaaaatggtg	8	13	10	10	3	2	1	0	0	2	1	3	2	3	2	2	2	2	1	2	2	2	4	rs150219439		TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr16:84005763G>A	uc002fhd.2	+	2	226	c.209G>A	c.(208-210)CGC>CAC	p.R70H	NECAB2_uc002fhe.2_5'UTR	NM_019065	NP_061938	Q7Z6G3	NECA2_HUMAN	neuronal calcium-binding protein 2	70	EF-hand 1.				antibiotic biosynthetic process	cytoplasm	calcium ion binding|oxidoreductase activity|protein binding			ovary(2)	2						CAGATTTTCCGCCGTGCGGAC	0.592													5	51					0	0	0.001168	0	0		A	84005763	A	A	84005763	3	1	195	1	0	0	0	0	1	0	0	0	10324	1087	38	1	215	1	NECAB2	16	84005763	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	25450835	84005763	6348990	94	97130											
CTNS	1497	broad.mit.edu	37	chr17	3552213	3552213	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaatattactatccttgaGctccccgatgaagtaagtaa	16	11	6	8	1	0	2	0	2	0	0	2	3	2	2	3	0	2	3	3	0	8	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr17:3552213G>A	uc002fwb.2	+	5	806	c.213G>A	c.(211-213)GAG>GAA	p.E71E	CTNS_uc002fwa.2_Silent_p.E71E|CTNS_uc010ckj.2_Silent_p.E71E|CTNS_uc010vrv.1_Intron|CTNS_uc010vrw.1_Intron	NM_004937	NP_004928	O60931	CTNS_HUMAN	cystinosin isoform 2	71	Lumenal (Potential).		Missing (in CTNSJAN).		ATP metabolic process|brain development|cognition|glutathione metabolic process	integral to membrane|late endosome|lysosomal membrane	L-cystine transmembrane transporter activity				0				COAD - Colon adenocarcinoma(5;0.0829)	L-Cystine(DB00138)	CTATCCTTGAGCTCCCCGATG	0.418													10	43					0	0	0.008291	0	0		A	3552213	A	A	3552213	2	1	195	1	0	0	0	0	0	0	0	1	4024	962	34	2		2	CTNS	17	3552213	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08		3552213	77642997	95	97131											
DNAH2	146754	broad.mit.edu	37	chr17	7735984	7735984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgggccagccgggccCggcctcctgtgatcttctgg	3	9	15	14	2	2	1	0	1	2	0	3	1	3	1	5	4	2	1	5	4	0	1	rs145079158		TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr17:7735984C>T	uc002giu.1	+	82	12828	c.12814C>T	c.(12814-12816)CGG>TGG	p.R4272W		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	4272					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CAGCCGGGCCCGGCCTCCTGT	0.587													22	106					0	0	0.00333	0	0		T	7735984	T	T	7735984	3	4	195	1	0	0	0	0	1	0	0	0	4608	643	23	1	13140	1	DNAH2	17	7735984	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	4183771	7735984	73459226	96	97132											
CYTSB	92521	broad.mit.edu	37	chr17	20108520	20108520	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaagaaaaccaccatagCactgcagaagaactacaggc	18	4	9	10	0	0	3	0	0	0	3	0	4	0	4	2	2	5	2	2	2	7	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr17:20108520C>T	uc002gwq.2	+	4	1303	c.1158C>T	c.(1156-1158)AGC>AGT	p.S386S	CYTSB_uc010cqx.2_Silent_p.S386S|CYTSB_uc002gwr.2_Silent_p.S386S|CYTSB_uc002gws.2_Silent_p.S386S|CYTSB_uc002gwv.2_Silent_p.S305S|CYTSB_uc010vzf.1_Intron|CYTSB_uc002gww.2_Silent_p.S162S|CYTSB_uc002gwt.2_Silent_p.S305S|CYTSB_uc002gwu.2_Silent_p.S305S	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	386						nucleus					0						ACCACCATAGCACTGCAGAAG	0.438													3	32					0	0	0.004672	0	0		T	20108520	T	T	20108520	2	4	195	1	0	0	0	0	0	0	0	1	4213	709	25	2		2	CYTSB	17	20108520	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	12372536	20108520	61086690	97	97133											
KRTAP4-12	83755	broad.mit.edu	37	chr17	39280042	39280042	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcggcagcaagtggtcctGcagcaggtggtctgacagca	8	6	17	10	1	1	1	0	1	1	0	2	1	2	1	1	5	4	5	1	5	1	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr17:39280042G>A	uc002hwa.2	-	1	378	c.333C>T	c.(331-333)TGC>TGT	p.C111C		NM_031854	NP_114060	Q9BQ66	KR412_HUMAN	keratin associated protein 4-12	111	20.|31 X 5 AA repeats of C-C-[GRQVIL]-[SPTR]- [VSTQPC].		Missing (in allele KAP4.12-v1).			keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			aAGTGGTCCTGCAGCAGGTGG	0.363													6	181					0	0	0.00308	0	0		A	39280042	A	A	39280042	2	1	195	1	0	0	0	0	0	0	0	1	8566	1311	46	2		2	KRTAP4-12	17	39280042	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08	19171522	39280042	41915168	98	97134											
MPP2	4355	broad.mit.edu	37	chr17	41955298	41955298	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaggtcaaagtagtgcccGtagccccgctggatgcggct	8	7	14	12	3	1	1	1	0	0	1	1	2	1	2	3	3	3	4	3	3	3	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr17:41955298G>A	uc010wip.1	-	13	1728	c.1671C>T	c.(1669-1671)TAC>TAT	p.Y557Y	MPP2_uc002ien.1_Silent_p.Y529Y|MPP2_uc010wim.1_Silent_p.Y501Y|MPP2_uc002ieo.1_Silent_p.Y512Y|MPP2_uc010win.1_Silent_p.Y373Y|MPP2_uc010wio.1_Silent_p.Y501Y	NM_005374	NP_005365	Q14168	MPP2_HUMAN	palmitoylated membrane protein 2	536	Guanylate kinase-like.				signal transduction	cell surface|integral to plasma membrane|membrane fraction	guanylate kinase activity				0		Breast(137;0.00314)		BRCA - Breast invasive adenocarcinoma(366;0.12)		AGTAGTGCCCGTAGCCCCGCT	0.627													8	58					0	0	0.013537	0	0		A	41955298	A	A	41955298	2	1	195	1	0	0	0	0	0	0	0	1	9752	1140	40	1		1	MPP2	17	41955298	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08	2675256	41955298	39239912	99	97135											
TMEM100	55273	broad.mit.edu	37	chr17	53798136	53798136	+	Frame_Shift_Del	DEL	A	-	-																															acaaggcactggaggctagtAaaaaaagtccagatgacaga																										TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr17:53798136delA	uc002iuj.3	-	2	607	c.296delT	c.(295-297)TTAfs	p.L99fs	TMEM100_uc002iuk.3_Frame_Shift_Del_p.L99fs	NM_018286	NP_060756	Q9NV29	TM100_HUMAN	transmembrane protein 100	99	Helical; (Potential).					integral to membrane					0						GGAGGCTAGTAAAAAAAGTCC	0.502													20	36	---	---	---	---						.	-	53798136	-	-	53798136	7	5	195	1	0	1	0	1	0	0	0	0	16040	372	13	0	112	0	TMEM100	17	53798136	Frame_Shift_Del	DEL	A	TCGA-FP-7916-01A-11D-2201-08	11842838	53798136	27397074	100	97136											
ZNF626	199777	broad.mit.edu	37	chr19	20807836	20807836	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcttcacatttgtagggttTcttttccgtatgaattatct	7	21	6	7	1	4	1	1	1	3	0	5	1	5	1	1	1	0	3	1	1	4	9			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:20807836T>C	uc002npb.1	-	4	997	c.847A>G	c.(847-849)AAA>GAA	p.K283E	ZNF626_uc002npc.1_Missense_Mutation_p.K207E	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	283					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TTGTAGGGTTTCTTTTCCGTA	0.383													7	31					0	0	0.004482	0	0		C	20807836	C	C	20807836	3	2	195	1	0	0	0	0	1	0	0	0	18075	1792	62	3	743	3	ZNF626	19	20807836	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08		20807836	38321147	101	97137											
ZNF626	199777	broad.mit.edu	37	chr19	20808006	20808006	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttcacatttgtagggtttcTctccagtatgaattttctta	8	19	6	8	0	3	1	1	1	2	0	5	1	4	1	1	1	0	3	1	1	4	8			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:20808006T>C	uc002npb.1	-	4	827	c.677A>G	c.(676-678)GAG>GGG	p.E226G	ZNF626_uc002npc.1_Missense_Mutation_p.E150G	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	226					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GTAGGGTTTCTCTCCAGTATG	0.393													3	48					0	0	0.004672	0	0		C	20808006	C	C	20808006	3	2	195	1	0	0	0	0	1	0	0	0	18075	1551	54	3	913	3	ZNF626	19	20808006	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08	170	20808006	38320977	102	97138											
SLC7A9	11136	broad.mit.edu	37	chr19	33355032	33355032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggccaggcatttcacaaCgatttgaggaggcttgcagc	9	8	14	10	2	1	1	1	1	0	0	1	3	1	2	1	5	3	3	1	5	1	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:33355032C>T	uc002ntv.3	-	4	565	c.448G>A	c.(448-450)GTT>ATT	p.V150I	SLC7A9_uc002ntt.3_RNA|SLC7A9_uc002ntu.3_Missense_Mutation_p.V150I|SLC7A9_uc002ntw.3_5'UTR	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	150	Helical; (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CATTTCACAACGATTTGAGGA	0.597													3	39					0	0	0.009096	0	0		T	33355032	T	T	33355032	3	4	195	1	0	0	0	0	1	0	0	0	14730	536	19	1	1055	1	SLC7A9	19	33355032	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	12547026	33355032	25773951	103	97139											
TBCB	1155	broad.mit.edu	37	chr19	36616392	36616392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctactggattggtgtccGctatgatgagccactgggga	7	11	15	8	1	0	2	0	2	0	0	1	4	1	4	2	5	2	2	2	5	2	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:36616392G>A	uc002odg.1	+	5	1162	c.587G>A	c.(586-588)CGC>CAC	p.R196H	TBCB_uc002odh.1_Missense_Mutation_p.R177H	NM_001281	NP_001272	Q99426	TBCB_HUMAN	cytoskeleton associated protein 1	196	CAP-Gly.				'de novo' posttranslational protein folding|cell differentiation|nervous system development	cytoplasm|microtubule	protein binding				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ATTGGTGTCCGCTATGATGAG	0.473													10	87					0	0	0.008291	0	0		A	36616392	A	A	36616392	3	1	195	1	0	0	0	0	1	0	0	0	15655	1087	38	1	605	1	TBCB	19	36616392	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	3261360	36616392	22512591	104	97140											
CAPN12	147968	broad.mit.edu	37	chr19	39228953	39228953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaccagcagggcatcgcGgcactcggtggggagtgtgt	6	9	16	10	3	1	0	1	0	0	0	3	1	1	1	1	5	1	3	1	5	0	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:39228953G>A	uc002ojd.1	-	8	1234	c.925C>T	c.(925-927)CGC>TGC	p.R309C	CAPN12_uc010egd.1_5'Flank|CAPN12_uc002ojc.1_5'Flank	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	309	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			AGGGCATCGCGGCACTCGGTG	0.657													6	73					0	0	0.001984	0	0		A	39228953	A	A	39228953	3	1	195	1	0	0	0	0	1	0	0	0	2628	1116	39	1	1290	1	CAPN12	19	39228953	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	2612561	39228953	19900030	105	97141											
LRRC4B	94030	broad.mit.edu	37	chr19	51021480	51021480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcctctccgggctgcGtctccagggtctccacggtc	2	9	13	17	3	3	0	0	0	3	0	8	0	4	0	5	4	1	1	5	4	0	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:51021480G>A	uc002pss.2	-	3	1627	c.1490C>T	c.(1489-1491)ACG>ATG	p.T497M		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	497	Gly-rich.|Extracellular (Potential).					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		TCCGGGCTGCGTCTCCAGGGT	0.502													5	16					0	0	0.001984	0	0		A	51021480	A	A	51021480	3	1	195	1	0	0	0	0	1	0	0	0	9025	1145	40	1	655	1	LRRC4B	19	51021480	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	11792527	51021480	8107503	106	97142											
NLRP12	91662	broad.mit.edu	37	chr19	54301528	54301528	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtctgcaggcgggatgttGcagcccctcagccagcaacc	8	6	13	14	1	2	0	1	0	1	0	2	2	2	1	4	2	6	4	4	2	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:54301528G>T	uc002qch.3	-	8	3116	c.2896C>A	c.(2896-2898)CAA>AAA	p.Q966K	NLRP12_uc010eqw.2_Intron|NLRP12_uc002qci.3_Intron|NLRP12_uc002qcj.3_Missense_Mutation_p.Q967K|NLRP12_uc002qck.3_Intron|NLRP12_uc010eqx.2_Intron	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	966					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		GCGGGATGTTGCAGCCCCTCA	0.597													11	77					9.05144e-12	1.0505e-11	0.001855	1	0		T	54301528	T	T	54301528	3	4	195	1	0	0	0	0	1	0	0	0	10493	1328	46	5	301	5	NLRP12	19	54301528	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	3280048	54301528	4827455	107	97143											
ZIK1	284307	broad.mit.edu	37	chr19	58102244	58102244	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggccttataagtgtggtgaAtgtgggaattcctttagtca	10	14	12	5	0	1	1	1	1	0	0	2	2	2	2	2	3	0	0	2	3	5	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:58102244A>C	uc002qpg.2	+	4	1162	c.1065A>C	c.(1063-1065)GAA>GAC	p.E355D	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Missense_Mutation_p.E300D|ZIK1_uc002qpi.2_Missense_Mutation_p.E342D|ZIK1_uc002qpj.2_Missense_Mutation_p.E252D	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	355	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		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)		AGTGTGGTGAATGTGGGAATT	0.433													3	48					0	0	0.000602	0	0		C	58102244	C	C	58102244	3	2	195	1	0	0	0	0	1	0	0	0	17708	98	4	5	1079	5	ZIK1	19	58102244	Missense_Mutation	SNP	A	TCGA-FP-7916-01A-11D-2201-08	3800716	58102244	1026739	108	97144											
ZNF446	55663	broad.mit.edu	37	chr19	58991757	58991757	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acgtgcgagcagtgtggccgCggcttcgactggaagtcagt	7	8	16	10	5	1	0	1	0	0	0	2	3	1	1	1	3	2	2	1	3	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr19:58991757C>T	uc002qsz.2	+	7	1134	c.1017C>T	c.(1015-1017)CGC>CGT	p.R339R	ZNF446_uc002qta.2_Missense_Mutation_p.A311V|ZNF446_uc010eur.2_3'UTR|SLC27A5_uc002qtb.2_RNA	NM_017908	NP_060378	Q9NWS9	ZN446_HUMAN	zinc finger protein 446	339	C2H2-type 1.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		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)		AGTGTGGCCGCGGCTTCGACT	0.662													3	20					0	0	0.009096	0	0		T	58991757	T	T	58991757	2	4	195	1	0	0	0	0	0	0	0	1	17944	755	27	1		1	ZNF446	19	58991757	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	889513	58991757	137226	109	97145											
SLC9A8	23315	broad.mit.edu	37	chr20	48479596	48479596	+	Missense_Mutation	SNP	T	G	G	0	1	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	gcactctcactggcttaattTctgcattaatatccttttaa	10	17	4	10	0	2	0	1	0	2	0	4	0	3	0	1	1	1	3	1	1	4	6			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr20:48479596T>G	uc002xuv.1	+	9	1054	c.844T>G	c.(844-846)TCT>GCT	p.S282A	SLC9A8_uc010zym.1_Intron|SLC9A8_uc010gic.2_5'Flank|SLC9A8_uc010gid.2_5'Flank|SLC9A8_uc010zyj.1_Missense_Mutation_p.S298A|SLC9A8_uc010zyk.1_3'UTR|SLC9A8_uc010zyl.1_3'UTR|SLC9A8_uc010gib.1_3'UTR	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	282	Helical; (Potential).					Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			TGGCTTAATTTCTGCATTAAT	0.418													3	62					0	0	0.009096	0	0		G	48479596	G	G	48479596	3	3	195	1	0	0	0	0	1	0	0	0	14745	1783	62	5	878	5	SLC9A8	20	48479596	Missense_Mutation	SNP	T	TCGA-FP-7916-01A-11D-2201-08		48479596	14545924	110	97146											
KCNG1	3755	broad.mit.edu	37	chr20	49620778	49620778	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	aggccatgagcaggatgccgCtcaggatgctgctcagggcc	8	6	15	12	1	2	1	2	1	0	0	2	3	2	3	3	4	4	4	3	4	0	0			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr20:49620778C>G	uc002xwa.3	-	3	1635	c.1340G>C	c.(1339-1341)AGC>ACC	p.S447T		NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	447	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						CAGGATGCCGCTCAGGATGCT	0.622													6	86					0	0	0.001168	0	0		G	49620778	G	G	49620778	3	3	195	1	0	0	0	0	1	0	0	0	8043	797	28	5	205	5	KCNG1	20	49620778	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	1141182	49620778	13404742	111	97147											
ZNF831	128611	broad.mit.edu	37	chr20	57766245	57766245	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccactgtgttcctgaaggcCctgcccatcccactgtacca	7	9	7	18	0	0	1	0	1	0	0	2	1	2	1	6	1	2	2	6	1	2	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr20:57766245C>T	uc002yan.2	+	1	171	c.171C>T	c.(169-171)GCC>GCT	p.A57A		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	57	Pro-rich.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					TCCTGAAGGCCCTGCCCATCC	0.711													5	26					0	0	0.001168	0	0		T	57766245	T	T	57766245	2	4	195	1	0	0	0	0	0	0	0	1	18210	610	22	4		4	ZNF831	20	57766245	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	8145467	57766245	5259275	112	97148											
KCNJ15	3772	broad.mit.edu	37	chr21	39671579	39671579	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acaaccattggctatggagtCcgttccatcacagaggaatg	12	9	10	10	1	1	1	1	0	0	1	3	3	3	3	3	3	1	2	3	3	3	3			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr21:39671579C>A	uc002ywv.2	+	4	698	c.396C>A	c.(394-396)GTC>GTA	p.V132V	KCNJ15_uc002yww.2_Silent_p.V132V|KCNJ15_uc002ywx.2_Silent_p.V132V	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	132	Selectivity filter (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						GCTATGGAGTCCGTTCCATCA	0.498													10	61					0.000673444	0.000713851	0.008291	1	0		A	39671579	A	A	39671579	2	1	195	1	0	0	0	0	0	0	0	1	8065	842	30	5		5	KCNJ15	21	39671579	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08		39671579	8458316	113	97149											
UBASH3A	53347	broad.mit.edu	37	chr21	43857605	43857605	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactattttccaggggacgcGctactggacagtggtatcag	9	10	12	10	2	1	0	1	0	0	0	2	2	2	2	1	4	1	2	1	4	3	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr21:43857605G>A	uc002zbe.2	+	11	1437	c.1401G>A	c.(1399-1401)GCG>GCA	p.A467A	UBASH3A_uc002zbf.2_Silent_p.A429A|UBASH3A_uc010gpc.2_RNA|UBASH3A_uc010gpd.2_Intron|UBASH3A_uc010gpe.2_Silent_p.A429A	NM_018961	NP_061834	P57075	UBS3A_HUMAN	ubiquitin associated and SH3 domain containing,	467	Phosphatase-like.					cytosol|nucleus				ovary(3)	3						CAGGGGACGCGCTACTGGACA	0.488													5	55					0	0	0.001168	0	0		A	43857605	A	A	43857605	2	1	195	1	0	0	0	0	0	0	0	1	16865	1074	38	1		1	UBASH3A	21	43857605	Silent	SNP	G	TCGA-FP-7916-01A-11D-2201-08	4186026	43857605	4272290	114	97150											
CACNA1I	8911	broad.mit.edu	37	chr22	40057308	40057308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggatgagctatgaccagcGctccctggtgagtccttgtg	7	10	14	10	1	0	3	0	3	0	0	2	5	2	4	3	2	2	2	3	2	1	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chr22:40057308G>A	uc003ayc.2	+	16	2894	c.2894G>A	c.(2893-2895)CGC>CAC	p.R965H	CACNA1I_uc003ayd.2_Missense_Mutation_p.R930H|CACNA1I_uc003aye.2_Missense_Mutation_p.R880H|CACNA1I_uc003ayf.2_Missense_Mutation_p.R845H	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	965	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	TATGACCAGCGCTCCCTGGTG	0.642													3	24					0	0	0.009096	0	0		A	40057308	A	A	40057308	3	1	195	1	0	0	0	0	1	0	0	0	2549	1087	38	1	2956	1	CACNA1I	22	40057308	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08		40057308	11247258	115	97151											
DMD	1756	broad.mit.edu	37	chrX	32360399	32360399	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgcaattcccgatcaatttCctattgagcaaaaccaatac	14	11	4	12	1	1	1	1	1	0	0	3	2	3	1	3	0	4	2	3	0	7	5			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chrX:32360399C>A	uc004dda.1	-	41	5984	c.5740G>T	c.(5740-5742)GAA>TAA	p.E1914*	DMD_uc004dcw.2_Nonsense_Mutation_p.E570*|DMD_uc004dcx.2_Nonsense_Mutation_p.E573*|DMD_uc004dcz.2_Nonsense_Mutation_p.E1791*|DMD_uc004dcy.1_Nonsense_Mutation_p.E1910*|DMD_uc004ddb.1_Nonsense_Mutation_p.E1906*|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1914	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CGATCAATTTCCTATTGAGCA	0.493													11	12					5.16669e-11	5.95292e-11	0.010729	1	0		A	32360399	A	A	32360399	4	1	195	1	0	0	0	0	0	1	0	0	4586	869	30	5	5621	5	DMD	23	32360399	Nonsense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08		32360399	122910161	116	97152											
BMP15	9210	broad.mit.edu	37	chrX	50659159	50659159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatactcataaaagcattcGgaaggctaaatttcttccca	14	12	6	9	1	2	1	1	1	1	0	4	2	3	2	1	2	2	2	1	2	6	6	rs145017754	byFrequency	TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chrX:50659159G>A	uc011mnw.1	+	2	731	c.731G>A	c.(730-732)CGG>CAG	p.R244Q		NM_005448	NP_005439	O95972	BMP15_HUMAN	bone morphogenetic protein 15 precursor	244					female gamete generation|granulosa cell development|ovarian follicle development	extracellular space	cytokine activity|growth factor activity			ovary(2)	2	Ovarian(276;0.236)					AAAAGCATTCGGAAGGCTAAA	0.458													3	16					0	0	0.009096	0	0		A	50659159	A	A	50659159	3	1	195	1	0	0	0	0	1	0	0	0	1459	1116	39	1	737	1	BMP15	23	50659159	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	18298760	50659159	104611401	117	97153											
ACRC	93953	broad.mit.edu	37	chrX	70823918	70823918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcagtgatgattcggaagCtcccgacgacagcagtgatg	11	7	13	10	3	0	3	0	3	0	0	2	6	1	4	1	1	3	3	1	1	1	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chrX:70823918C>T	uc004eae.2	+	8	1292	c.791C>T	c.(790-792)GCT>GTT	p.A264V	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	264	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					GATTCGGAAGCTCCCGACGAC	0.557													3	47					0	0	0.001168	0	0		T	70823918	T	T	70823918	3	4	195	1	0	0	0	0	1	0	0	0	171	797	28	2	817	2	ACRC	23	70823918	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	20164759	70823918	84446642	118	97154											
RPS6KA6	27330	broad.mit.edu	37	chrX	83411138	83411138	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcaaactgtgcaggatctGctttctcatagccttcctta	9	14	6	12	0	3	0	2	0	2	0	5	1	4	1	2	1	4	2	2	1	3	4			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chrX:83411138G>T	uc004eej.1	-	3	280	c.203C>A	c.(202-204)GCA>GAA	p.A68E	RPS6KA6_uc011mqt.1_Missense_Mutation_p.A68E|RPS6KA6_uc011mqu.1_5'UTR|RPS6KA6_uc010nmo.1_RNA	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	68					axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TGCAGGATCTGCTTTCTCATA	0.358													3	12					0.00024832	0.000266776	0.009096	1	0		T	83411138	T	T	83411138	3	4	195	1	0	0	0	0	1	0	0	0	13680	1319	46	5	2114	5	RPS6KA6	23	83411138	Missense_Mutation	SNP	G	TCGA-FP-7916-01A-11D-2201-08	12587220	83411138	71859422	119	97155											
PNMA5	114824	broad.mit.edu	37	chrX	152159384	152159384	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagactttctctccaatcttCggagaggtctgcagaaacct	10	11	9	11	1	3	3	0	0	3	3	6	5	4	3	2	2	2	1	2	2	2	2			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chrX:152159384C>T	uc010ntw.2	-	3	1098	c.759G>A	c.(757-759)CCG>CCA	p.P253P	PNMA5_uc004fha.3_Silent_p.P253P|PNMA5_uc010ntx.2_Silent_p.P253P|PNMA5_uc004fgy.3_Silent_p.P253P	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	253					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CTCCAATCTTCGGAGAGGTCT	0.522													3	24					0	0	0.009096	0	0		T	152159384	T	T	152159384	2	4	195	1	0	0	0	0	0	0	0	1	12175	871	31	1		1	PNMA5	23	152159384	Silent	SNP	C	TCGA-FP-7916-01A-11D-2201-08	68748246	152159384	3111176	120	97156											
TREX2	11219	broad.mit.edu	37	chrX	152713230	152713230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcacaacgtggggctgcaaCggcttctgctgccacaatca	10	7	11	13	2	2	0	1	0	1	0	2	0	2	0	1	3	6	5	1	3	3	1			TCGA-FP-7916-01A-11D-2201-08	TCGA-FP-7916-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	08fbbee6-0780-4d19-bbab-346dda361e08	da15d7f0-0838-4ba6-9348-badfdf50a5f8	g.chrX:152713230C>T	uc010nue.1	-	1	138	c.22G>A	c.(22-24)GTT>ATT	p.V8I	TREX2_uc010nud.1_5'Flank|TREX2_uc011myp.1_5'Flank|HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_RNA|HAUS7_uc004fhn.1_3'UTR|HAUS7_uc004fho.1_3'UTR|HAUS7_uc004fhp.1_RNA	NM_080701	NP_542432	Q9BQ50	TREX2_HUMAN	three prime repair exonuclease 2	Error:Variant_position_missing_in_Q9BQ50_after_alignment					DNA repair	nucleus	3'-5'-exodeoxyribonuclease activity|exodeoxyribonuclease III activity|nucleic acid binding			large_intestine(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGGGCTGCAACGGCTTCTGCT	0.587								Editing_and_processing_nucleases					27	131					0	0	0.003755	0	0		T	152713230	T	T	152713230	3	4	195	1	0	0	0	0	1	0	0	0	16503	551	19	1		1	TREX2	23	152713230	Missense_Mutation	SNP	C	TCGA-FP-7916-01A-11D-2201-08	553846	152713230	2557330	121	97157											
UBR4	23352	broad.mit.edu	37	chr1	19454159	19454159	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagatttggtgcgggacatGaagacactcaggagtctcat	11	9	12	9	1	2	3	2	1	1	2	3	5	2	5	1	3	1	0	1	3	1	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:19454159G>A	uc001bbi.2	-	63	9190	c.9186C>T	c.(9184-9186)TTC>TTT	p.F3062F	UBR4_uc001bbk.1_Silent_p.F709F	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3062					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TGCGGGACATGAAGACACTCA	0.488													6	93					0	0	0.00308	0	0		A	19454159	A	A	19454159	2	1	196	1	0	0	0	0	0	0	0	1	16930	1281	45	4		4	UBR4	1	19454159	Silent	SNP	G	TCGA-FP-7998-01A-11D-2201-08		19454159	229796462	1	97158											
ARID1A	8289	broad.mit.edu	37	chr1	27101252	27101252	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	cctataattatgccaacaggCagagcacgggctctgccccc	10	7	9	15	1	1	1	0	0	1	1	1	1	1	1	4	2	4	3	4	2	4	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:27101252C>T	uc001bmv.1	+	18	4907	c.4534C>T	c.(4534-4536)CAG>TAG	p.Q1512*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.Q1511*|ARID1A_uc001bmu.1_Intron|ARID1A_uc001bmw.1_Nonsense_Mutation_p.Q1129*|ARID1A_uc001bmx.1_Nonsense_Mutation_p.Q358*|ARID1A_uc009vsm.1_Intron|ARID1A_uc009vsn.1_5'UTR	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1512					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		TGCCAACAGGCAGAGCACGGG	0.577			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								21	71					0	0	0.00278	0	0		T	27101252	T	T	27101252	4	4	196	1	0	0	0	0	0	1	0	0	913	711	25	2	4604	2	ARID1A	1	27101252	Nonsense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	7647093	27101252	222149369	2	97159											
SFRS4	6429	broad.mit.edu	37	chr1	29475721	29475721	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccggctccggctcttgctcCgggagcgggagcccgacctg	3	7	15	16	5	1	0	0	0	1	0	4	3	4	2	5	4	3	3	5	4	0	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:29475721C>T	uc001bro.2	-	6	1059	c.686G>A	c.(685-687)CGG>CAG	p.R229Q	SFRS4_uc010ofy.1_Silent_p.P127P	NM_005626	NP_005617	Q08170	SRSF4_HUMAN	splicing factor, arginine/serine-rich 4	229	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)		gctcTTGCTCCGGGAGCGGGA	0.438													3	34					0	0	0.004672	0	0		T	29475721	T	T	29475721	3	4	196	1	0	0	0	0	1	0	0	0	14204	652	23	1	802	1	SFRS4	1	29475721	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	2374469	29475721	219774900	3	97160											
NCDN	23154	broad.mit.edu	37	chr1	36023804	36023804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttcatcaatgtcgtgttgtGacctggctgcggcgggacag	6	11	14	10	3	2	1	2	1	0	0	3	2	2	2	1	3	1	2	1	3	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:36023804G>A	uc001bza.2	+	2	140	c.13G>A	c.(13-15)GAC>AAC	p.D5N	KIAA0319L_uc001byx.2_5'Flank|KIAA0319L_uc010ohw.1_5'Flank|KIAA0319L_uc001byz.2_5'Flank|KIAA0319L_uc010ohx.1_5'Flank|NCDN_uc001bzb.2_Missense_Mutation_p.D5N|NCDN_uc001bzc.2_Intron	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	5					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTCGTGTTGTGACCTGGCTGC	0.567													32	224					0	0	0.00623	0	0		A	36023804	A	A	36023804	3	1	196	1	0	0	0	0	1	0	0	0	10233	1290	45	4	15	4	NCDN	1	36023804	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	6548083	36023804	213226817	4	97161											
NT5C1A	84618	broad.mit.edu	37	chr1	40131295	40131295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actatcagggtacagctcccGcagccgcctgttcacggcct	7	8	10	16	3	2	0	2	0	0	0	3	0	3	0	4	2	3	4	4	2	2	3	rs144180251		TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:40131295G>A	uc001cdq.1	-	3	331	c.331C>T	c.(331-333)CGG>TGG	p.R111W		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	111					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TACAGCTCCCGCAGCCGCCTG	0.557													4	43					0	0	0.000602	0	0		A	40131295	A	A	40131295	3	1	196	1	0	0	0	0	1	0	0	0	10704	1086	38	1	791	1	NT5C1A	1	40131295	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	4107491	40131295	209119326	5	97162											
SLC6A17	388662	broad.mit.edu	37	chr1	110737326	110737326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgggcctgggcagcatgatCgggaccatggcaggcatcac	8	6	15	12	1	1	1	1	1	0	0	2	2	1	2	2	5	1	4	2	5	0	0			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:110737326C>T	uc009wfq.2	+	9	1886	c.1425C>T	c.(1423-1425)ATC>ATT	p.I475I	SLC6A17_uc001dze.1_Silent_p.I73I	NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	475	Helical; Name=8; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)		GCAGCATGATCGGGACCATGG	0.592													8	97					0	0	0.004482	0	0		T	110737326	T	T	110737326	2	4	196	1	0	0	0	0	0	0	0	1	14705	874	31	1		1	SLC6A17	1	110737326	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	70606031	110737326	138513295	6	97163											
IGSF3	3321	broad.mit.edu	37	chr1	117150568	117150568	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acatctctctacttactgagGgggaggactatgatggggat	10	11	13	7	0	2	2	0	2	2	0	3	5	2	5	0	5	2	0	0	5	3	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:117150568G>A	uc001egr.1	-	5	1923	c.1218C>T	c.(1216-1218)CCC>CCT	p.P406P	IGSF3_uc001egq.1_Silent_p.P406P|IGSF3_uc001egs.1_Silent_p.P79P	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	406	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		ACTTACTGAGGGGGAGGACTA	0.517													4	131					0	0	0.009096	0	0		A	117150568	A	A	117150568	2	1	196	1	0	0	0	0	0	0	0	1	7617	1219	43	4		4	IGSF3	1	117150568	Silent	SNP	G	TCGA-FP-7998-01A-11D-2201-08	6413242	117150568	132100053	7	97164											
ATP8B2	57198	broad.mit.edu	37	chr1	154316667	154316667	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aacttcagcaaggggttccaGagaccattgccctcctgaca	11	8	9	13	0	1	2	1	1	0	1	3	3	3	2	4	2	3	2	4	2	2	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:154316667G>C	uc001fex.2	+	19	2071	c.2071G>C	c.(2071-2073)GAG>CAG	p.E691Q		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	677	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGGGGTTCCAGAGACCATTGC	0.547													7	59					0	0	0.004482	0	0		C	154316667	C	C	154316667	3	2	196	1	0	0	0	0	1	0	0	0	1196	943	33	5	2275	5	ATP8B2	1	154316667	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	37166099	154316667	94933954	8	97165											
PEX19	5824	broad.mit.edu	37	chr1	160252825	160252825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcattgccttctcgaactcCgcagtggcttgggaagccag	7	11	11	12	2	2	0	1	0	1	0	4	2	3	1	3	2	3	2	3	2	2	4	rs150928521	byFrequency	TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:160252825C>T	uc001fvs.2	-	3	282	c.255G>A	c.(253-255)GCG>GCA	p.A85A	DCAF8_uc010pjc.1_5'UTR|PEX19_uc010pje.1_RNA|PEX19_uc001fvt.2_5'UTR	NM_002857	NP_002848	P40855	PEX19_HUMAN	peroxisomal biogenesis factor 19 isoform a	85	Necessary for PEX19 function on peroxisome biogenesis.				peroxisome membrane biogenesis|peroxisome organization|protein targeting to peroxisome|transmembrane transport	brush border membrane|cytosol|integral to membrane|nucleus|peroxisomal membrane	protein binding|protein N-terminus binding				0	all_cancers(52;1.27e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			TCTCGAACTCCGCAGTGGCTT	0.552													8	61					0	0	0.00308	0	0		T	160252825	T	T	160252825	2	4	196	1	0	0	0	0	0	0	0	1	11763	639	23	1		1	PEX19	1	160252825	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	5936158	160252825	88997796	9	97166											
HMCN1	83872	broad.mit.edu	37	chr1	186157143	186157143	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacgggatcctgtttcagggTatgtcttgccttctcatccc	6	14	9	12	1	3	0	2	0	2	0	6	1	5	1	3	2	2	2	3	2	2	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:186157143T>C	uc001grq.1	+	106	16770	c.16541_splice	c.e106+2	p.G5514_splice	HMCN1_uc001grs.1_Splice_Site_p.G966_splice	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor						response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGTTTCAGGGTATGTCTTGCC	0.478													4	98					0	0	0.009096	0	0		C	186157143	C	C	186157143	5	2	196	1	0	0	0	0	0	0	1	0	7236	1652	57	3	16965	3	HMCN1	1	186157143	Splice_Site	SNP	T	TCGA-FP-7998-01A-11D-2201-08	25904318	186157143	63093478	10	97167											
ACTN2	88	broad.mit.edu	37	chr1	236914816	236914816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaggccacgctgcccgaggCggacggagagcggcagtcca	9	2	16	14	5	0	1	0	0	0	1	1	4	1	2	3	5	2	2	3	5	1	0			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr1:236914816C>T	uc001hyf.2	+	15	1907	c.1703C>T	c.(1702-1704)GCG>GTG	p.A568V	ACTN2_uc001hyg.2_Missense_Mutation_p.A360V|ACTN2_uc009xgi.1_Missense_Mutation_p.A568V|ACTN2_uc010pxu.1_Missense_Mutation_p.A257V|ACTN2_uc001hyh.2_Missense_Mutation_p.A256V	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	568	Spectrin 3.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CTGCCCGAGGCGGACGGAGAG	0.522													8	69					0	0	0.008291	0	0		T	236914816	T	T	236914816	3	4	196	1	0	0	0	0	1	0	0	0	205	768	27	1	1761	1	ACTN2	1	236914816	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	50757673	236914816	12335805	11	97168											
LRRN1	57633	broad.mit.edu	37	chr3	3887403	3887403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaaagacagtcgaatccCtccccaatctgcgtgagatc	13	7	7	14	2	1	2	0	1	1	2	5	4	3	2	4	0	1	0	4	0	4	0			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr3:3887403C>T	uc003bpt.3	+	2	1839	c.1078C>T	c.(1078-1080)CTC>TTC	p.L360F	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	360	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1				Epithelial(13;0.000886)|all cancers(10;0.0032)|OV - Ovarian serous cystadenocarcinoma(96;0.00608)|STAD - Stomach adenocarcinoma(44;0.0617)		AGTCGAATCCCTCCCCAATCT	0.478													10	62					0	0	0.013537	0	0		T	3887403	T	T	3887403	3	4	196	1	0	0	0	0	1	0	0	0	9052	681	24	4	1080	4	LRRN1	3	3887403	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08		3887403	194135027	12	97169											
CSPG5	10675	broad.mit.edu	37	chr3	47610613	47610613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacgggcatggggggaggagGtacggggagtgttgcaaagt	9	6	21	5	2	0	0	0	0	0	0	0	3	0	3	0	8	2	4	0	8	2	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr3:47610613G>A	uc003crp.3	-	4	1663	c.1487C>T	c.(1486-1488)ACC>ATC	p.T496I	CSPG5_uc003crn.2_Intron|CSPG5_uc003cro.3_Intron|CSPG5_uc011bbb.1_Missense_Mutation_p.T358I	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	496	Cytoplasmic (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GGGGGAGGAGGTACGGGGAGT	0.512													3	12					0	0	0.000602	0	0		A	47610613	A	A	47610613	3	1	196	1	0	0	0	0	1	0	0	0	3964	1276	44	4		4	CSPG5	3	47610613	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	43723210	47610613	150411817	13	97170											
KALRN	8997	broad.mit.edu	37	chr3	124174132	124174132	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgaccacggtggacaagCactacagagatttctccctg	10	8	12	11	1	1	2	0	1	1	1	2	4	1	3	2	3	2	1	2	3	2	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr3:124174132C>G	uc003ehg.2	+	22	3782	c.3655C>G	c.(3655-3657)CAC>GAC	p.H1219D	KALRN_uc010hrv.1_Missense_Mutation_p.H1210D|KALRN_uc003ehf.1_Missense_Mutation_p.H1219D|KALRN_uc011bjy.1_Missense_Mutation_p.H1210D|KALRN_uc003ehh.1_Missense_Mutation_p.H565D	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1219	Spectrin 5.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GGTGGACAAGCACTACAGAGA	0.512													5	69					0	0	0.000602	0	0		G	124174132	G	G	124174132	3	3	196	1	0	0	0	0	1	0	0	0	7991	710	25	5	3741	5	KALRN	3	124174132	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	76563519	124174132	73848298	14	97171											
ALDH1L1	10840	broad.mit.edu	37	chr3	125826018	125826018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagatgatcatgacaggccCgaaggactcctccttggcta	11	8	11	11	1	1	3	1	2	0	1	3	6	3	4	3	3	0	1	3	3	2	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr3:125826018C>T	uc003eim.1	-	21	2609	c.2419G>A	c.(2419-2421)GGG>AGG	p.G807R	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.G706R|ALDH1L1_uc003ein.1_Missense_Mutation_p.G342R	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	807	Aldehyde dehydrogenase.				10-formyltetrahydrofolate catabolic process|biosynthetic process		acyl carrier activity|cofactor binding|formyltetrahydrofolate dehydrogenase activity|hydroxymethyl-, formyl- and related transferase activity|methyltransferase activity			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(114;0.0462)	Tetrahydrofolic acid(DB00116)	ATGACAGGCCCGAAGGACTCC	0.512													17	142					0	0	0.010504	0	0		T	125826018	T	T	125826018	3	4	196	1	0	0	0	0	1	0	0	0	494	652	23	1	301	1	ALDH1L1	3	125826018	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	1651886	125826018	72196412	15	97172											
BCHE	590	broad.mit.edu	37	chr3	165548173	165548173	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaagagagttacacttttagGatttccaccaaaggctgcta	14	11	8	8	0	0	1	0	0	0	1	1	3	1	2	2	2	2	3	2	2	5	5			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr3:165548173G>C	uc003fem.3	-	2	809	c.649C>G	c.(649-651)CCT>GCT	p.P217A	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	217					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	ACACTTTTAGGATTTCCACCA	0.443													5	55					0	0	0.000602	0	0		C	165548173	C	C	165548173	3	2	196	1	0	0	0	0	1	0	0	0	1359	1174	41	5	1171	5	BCHE	3	165548173	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	39722155	165548173	32474257	16	97173											
PIK3CA	5290	broad.mit.edu	37	chr3	178936082	178936082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacacgagatcctctctctGaaatcactgagcaggagaaa	14	8	8	11	1	3	4	1	2	2	2	5	6	4	4	1	1	2	1	1	1	3	1	rs121913273		TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr3:178936082G>A	uc003fjk.2	+	10	1781	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542	PI3K helical.		E -> V (in cancer).|E -> K (in KERSEB; 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).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(481)|p.E542V(8)|p.E542Q(6)|p.E542G(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TCCTCTCTCTGAAATCACTGA	0.333	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			3	12					0	0	0.000602	0	0		A	178936082	A	A	178936082	3	1	196	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1658	4	PIK3CA	3	178936082	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	13387909	178936082	19086348	17	97174											
PPP3CA	5530	broad.mit.edu	37	chr4	102117123	102117123	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttttttcctgtcgaagaattGatgcaccctctgttattatt	8	19	6	8	1	1	2	0	1	1	1	3	3	2	2	2	0	1	2	2	0	4	7			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr4:102117123G>C	uc011cen.1	-	2	884	c.209C>G	c.(208-210)TCA>TGA	p.S70*	PPP3CA_uc003hvu.2_Nonsense_Mutation_p.S70*|PPP3CA_uc010ilj.2_Nonsense_Mutation_p.S70*|PPP3CA_uc003hvt.2_Nonsense_Mutation_p.S57*|PPP3CA_uc003hvs.2_Intron|PPP3CA_uc010ilk.2_Nonsense_Mutation_p.S70*	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	70	Catalytic.				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		TCGAAGAATTGATGCACCCTC	0.428													6	59					0	0	0.001168	0	0		C	102117123	C	C	102117123	4	2	196	1	0	0	0	0	0	1	0	0	12419	1294	45	5	1408	5	PPP3CA	4	102117123	Nonsense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08		102117123	89037153	18	97175											
PCDH18	54510	broad.mit.edu	37	chr4	138451632	138451632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaaaagtgatctgactcacTtcttcatgatcaaagattct	14	13	5	9	0	6	4	3	3	3	1	6	4	6	4	0	0	0	0	0	0	3	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr4:138451632T>G	uc003ihe.3	-	1	1998	c.1611A>C	c.(1609-1611)GAA>GAC	p.E537D	PCDH18_uc003ihf.3_Missense_Mutation_p.E530D|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.E317D|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	537	Extracellular (Potential).|Cadherin 5.				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					TCTGACTCACTTCTTCATGAT	0.418													18	69					0	0	0.008871	0	0		G	138451632	G	G	138451632	3	3	196	1	0	0	0	0	1	0	0	0	11532	1606	56	5	1812	5	PCDH18	4	138451632	Missense_Mutation	SNP	T	TCGA-FP-7998-01A-11D-2201-08	36334509	138451632	52702644	19	97176											
FSTL5	56884	broad.mit.edu	37	chr4	162307248	162307248	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtgcagatttgtgtaaataTcaaaagcctcctgtatttct	11	16	7	7	0	2	1	1	0	1	1	3	1	3	1	2	0	2	3	2	0	6	5			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr4:162307248T>C	uc003iqh.2	-	16	2631	c.2195A>G	c.(2194-2196)GAT>GGT	p.D732G	FSTL5_uc003iqi.2_Missense_Mutation_p.D731G|FSTL5_uc010iqv.2_Missense_Mutation_p.D722G|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	732						extracellular region	calcium ion binding	p.D732N(1)		ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TGTGTAAATATCAAAAGCCTC	0.408													3	27					0	0	0.004672	0	0		C	162307248	C	C	162307248	3	2	196	1	0	0	0	0	1	0	0	0	6094	1435	50	3	352	3	FSTL5	4	162307248	Missense_Mutation	SNP	T	TCGA-FP-7998-01A-11D-2201-08	23855616	162307248	28847028	20	97177											
ADAMTS16	170690	broad.mit.edu	37	chr5	5232555	5232555	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catggccactggtcggactgGtcttcttggtccccatgctc	4	12	11	14	1	2	0	0	0	2	0	5	1	3	1	3	5	1	1	3	5	0	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr5:5232555G>C	uc003jdl.2	+	12	1914	c.1776G>C	c.(1774-1776)TGG>TGC	p.W592C	ADAMTS16_uc003jdk.1_Missense_Mutation_p.W592C|ADAMTS16_uc010itk.1_5'Flank	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	592	TSP type-1 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						GGTCGGACTGGTCTTCTTGGT	0.537													4	104					0	0	0.000602	0	0		C	5232555	C	C	5232555	3	2	196	1	0	0	0	0	1	0	0	0	261	1270	44	5	1822	5	ADAMTS16	5	5232555	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08		5232555	175682705	21	97178											
VCAN	1462	broad.mit.edu	37	chr5	82836373	82836373	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcatatgagaggtccacagaCggtagtttccaagaccgttt	11	11	10	9	2	1	3	1	1	0	3	3	4	3	3	3	2	0	3	3	2	3	4	rs77870162	byFrequency	TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr5:82836373C>T	uc003kii.3	+	8	7907	c.7551C>T	c.(7549-7551)GAC>GAT	p.D2517D	VCAN_uc003kij.3_Silent_p.D1530D|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Silent_p.D1181D	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2517	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GGTCCACAGACGGTAGTTTCC	0.433													4	40					0	0	0.001984	0	0		T	82836373	T	T	82836373	2	4	196	1	0	0	0	0	0	0	0	1	17164	535	19	1		1	VCAN	5	82836373	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	77603818	82836373	98078887	22	97179											
MEF2C	4208	broad.mit.edu	37	chr5	88047821	88047821	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgttgtggctggacactgGgatggagactggcatctcga	8	10	15	8	1	1	1	0	0	1	1	2	5	1	3	0	5	0	3	0	5	0	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr5:88047821G>T	uc003kjj.2	-	5	1115	c.442C>A	c.(442-444)CCA>ACA	p.P148T	MEF2C_uc003kji.2_Missense_Mutation_p.P148T|MEF2C_uc003kjk.2_Missense_Mutation_p.P148T|MEF2C_uc003kjm.2_Missense_Mutation_p.P146T|MEF2C_uc003kjl.2_Missense_Mutation_p.P166T	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	148	Ser-rich.				apoptosis|B cell proliferation|innate immune response|learning or memory|muscle cell differentiation|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|neuron development|positive regulation of muscle cell differentiation|positive regulation of survival gene product expression|positive regulation of transcription from RNA polymerase II promoter|regulation of germinal center formation|regulation of megakaryocyte differentiation|regulation of synaptic activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nuclear speck	activating transcription factor binding|protein heterodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			lung(3)|breast(2)|ovary(1)|large_intestine(1)	7		all_cancers(142;6.67e-05)|all_epithelial(76;7.77e-07)|Lung NSC(167;0.00566)|all_lung(232;0.00732)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;1.04e-33)|Epithelial(54;1.6e-28)|all cancers(79;2.9e-25)		CTGGACACTGGGATGGAGACT	0.478										HNSCC(66;0.2)			8	53					2.17888e-05	2.38974e-05	0.006214	1	0		T	88047821	T	T	88047821	3	4	196	1	0	0	0	0	1	0	0	0	9475	1232	43	5	1007	5	MEF2C	5	88047821	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	5211448	88047821	92867439	23	97180											
AFF4	27125	broad.mit.edu	37	chr5	132227941	132227941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttttgctgctgccactcGtctccttgttgctgttactg	2	19	9	11	1	1	0	0	0	1	0	3	0	1	0	2	0	5	6	2	0	1	5			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr5:132227941G>A	uc003kyd.2	-	13	2960	c.2552C>T	c.(2551-2553)ACG>ATG	p.T851M	AFF4_uc011cxk.1_Missense_Mutation_p.T529M|AFF4_uc003kye.1_Missense_Mutation_p.T851M	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	851	Ser-rich.				transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GCTGCCACTCGTCTCCTTGTT	0.468													11	74					0	0	0.001855	0	0		A	132227941	A	A	132227941	3	1	196	1	0	0	0	0	1	0	0	0	359	1145	40	1	975	1	AFF4	5	132227941	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	44180120	132227941	48687319	24	97181											
KIAA1191	57179	broad.mit.edu	37	chr5	175774949	175774949	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtacttctgaagggatctCggtccaaagaggctccactt	9	11	10	11	2	2	2	0	1	2	1	6	3	4	3	2	3	1	2	2	3	3	3	rs138167765	byFrequency	TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr5:175774949C>T	uc003mdw.2	-	8	1056	c.684G>A	c.(682-684)CCG>CCA	p.P228P	KIAA1191_uc003mdx.2_Silent_p.P209P|KIAA1191_uc003mdy.2_Silent_p.P228P|KIAA1191_uc003mea.2_Silent_p.P21P|KIAA1191_uc003mdz.2_RNA	NM_020444	NP_065177	Q96A73	K1191_HUMAN	hypothetical protein LOC57179 isoform a	228							protein binding			ovary(1)	1	all_cancers(89;0.00575)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.101)		GAAGGGATCTCGGTCCAAAGA	0.483													6	92					0	0	0.001984	0	0		T	175774949	T	T	175774949	2	4	196	1	0	0	0	0	0	0	0	1	8228	871	31	1		1	KIAA1191	5	175774949	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	43547008	175774949	5140311	25	97182											
PRL	5617	broad.mit.edu	37	chr6	22294695	22294695	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtgggacaggacgacggcGcggtcaaacaggtctcgaag	11	5	16	9	5	2	0	1	0	1	0	3	4	2	2	0	5	1	0	0	5	3	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr6:22294695G>A	uc003ndp.2	-	2	666	c.147C>T	c.(145-147)CGC>CGT	p.R49R	PRL_uc003ndo.2_Silent_p.R50R|PRL_uc003ndq.2_Silent_p.R49R|PRL_uc003ndr.1_RNA	NM_000948	NP_000939	P01236	PRL_HUMAN	prolactin precursor	49					cell proliferation|cell surface receptor linked signaling pathway|female pregnancy|lactation|positive regulation of JAK-STAT cascade|regulation of multicellular organism growth	cytosol|extracellular region	hormone activity|prolactin receptor binding				0	Ovarian(93;0.163)					GGACGACGGCGCGGTCAAACA	0.592													14	80					0	0	0.00499	0	0		A	22294695	A	A	22294695	2	1	196	1	0	0	0	0	0	0	0	1	12550	1074	38	1		1	PRL	6	22294695	Silent	SNP	G	TCGA-FP-7998-01A-11D-2201-08		22294695	148820372	26	97183											
TFAP2D	83741	broad.mit.edu	37	chr6	50682949	50682949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttactccaccaccggcaccGagtttgcgtccccctacttc	6	10	6	19	3	0	0	0	0	0	0	3	1	2	0	6	1	3	2	6	1	2	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr6:50682949G>A	uc003paf.2	+	2	672	c.160G>A	c.(160-162)GAG>AAG	p.E54K	TFAP2D_uc011dwt.1_RNA	NM_172238	NP_758438	Q7Z6R9	AP2D_HUMAN	transcription factor AP-2 beta-like 1	54							DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|breast(1)	7	Lung NSC(77;0.0334)					CACCGGCACCGAGTTTGCGTC	0.572													24	199					0	0	0.005443	0	0		A	50682949	A	A	50682949	3	1	196	1	0	0	0	0	1	0	0	0	15815	1059	37	1	166	1	TFAP2D	6	50682949	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	28388254	50682949	120432118	27	97184											
COL19A1	1310	broad.mit.edu	37	chr6	70637880	70637880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagaaacgccaaaaaggaaCggtggtttctgtggcaggtt	13	8	14	6	2	1	1	0	0	1	1	1	3	1	2	1	5	2	3	1	5	5	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr6:70637880C>T	uc003pfc.1	+	5	463	c.346C>T	c.(346-348)CGG>TGG	p.R116W	COL19A1_uc010kam.1_Missense_Mutation_p.R12W	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	116	TSP N-terminal.			FRVRRNAKKERWFL -> ETTVPFWRFFVLET (in Ref. 6; AAA36358).	cell differentiation|cell-cell adhesion|extracellular matrix organization|skeletal system development	collagen	extracellular matrix structural constituent|protein binding, bridging			ovary(2)|breast(2)	4						CAAAAAGGAACGGTGGTTTCT	0.428													14	33					0	0	0.003163	0	0		T	70637880	T	T	70637880	3	4	196	1	0	0	0	0	1	0	0	0	3679	527	19	1	360	1	COL19A1	6	70637880	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	19954931	70637880	100477187	28	97185											
RPF2	84154	broad.mit.edu	37	chr6	111329288	111329288	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccatgctgatatttgctggCgatgatttcgatgtaacaga	10	13	10	8	2	0	3	0	2	0	1	1	5	0	3	1	1	3	3	1	1	2	4	rs113376369		TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr6:111329288C>T	uc003pun.2	+	7	460	c.441C>T	c.(439-441)GGC>GGT	p.G147G	RPF2_uc003puo.2_Silent_p.G84G	NM_032194	NP_115570	Q9H7B2	RPF2_HUMAN	brix domain containing 1	147	Brix.					nucleolus	protein binding			ovary(2)	2						TATTTGCTGGCGATGATTTCG	0.303													3	45					0	0	0.009096	0	0		T	111329288	T	T	111329288	2	4	196	1	0	0	0	0	0	0	0	1	13572	755	27	1		1	RPF2	6	111329288	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	40691408	111329288	59785779	29	97186											
QKI	9444	broad.mit.edu	37	chr6	163836228	163836228	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgcggagcctggaatatGgtcggggaaatggaaacgaa	13	6	16	6	3	0	0	0	0	0	0	1	5	0	4	1	6	4	1	1	6	5	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr6:163836228G>A	uc003qui.2	+	1	554	c.3G>A	c.(1-3)ATG>ATA	p.M1I	QKI_uc003que.2_Missense_Mutation_p.M1I|QKI_uc003quf.2_Missense_Mutation_p.M1I|QKI_uc003qug.2_Missense_Mutation_p.M1I|QKI_uc003quh.2_Missense_Mutation_p.M1I|QKI_uc003quj.2_Missense_Mutation_p.M1I	NM_006775	NP_006766	Q96PU8	QKI_HUMAN	quaking homolog, KH domain RNA binding isoform	1					mRNA processing|mRNA transport|regulation of translation|RNA splicing	cytoplasm|nucleus|plasma membrane	RNA binding|SH3 domain binding			large_intestine(1)|ovary(1)	2		Breast(66;5e-05)|Prostate(117;0.0235)|all_neural(5;0.0416)|Ovarian(120;0.0448)|Glioma(2;0.203)		all cancers(1;4.4e-46)|OV - Ovarian serous cystadenocarcinoma(33;6.91e-23)|GBM - Glioblastoma multiforme(1;2.94e-19)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|Kidney(3;0.000199)|KIRC - Kidney renal clear cell carcinoma(3;0.000234)		CCTGGAATATGGTCGGGGAAA	0.393													6	27					0	0	0.001168	0	0		A	163836228	A	A	163836228	3	1	196	1	0	0	0	0	1	0	0	0	12898	1348	47	4	5	4	QKI	6	163836228	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	52506940	163836228	7278839	30	97187											
PDE10A	10846	broad.mit.edu	37	chr6	165808679	165808679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcattcataccaggatgtcCcacaggaccgatgaaccatg	12	8	9	12	1	2	1	2	1	0	0	3	4	3	3	4	2	2	0	4	2	2	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr6:165808679C>T	uc003qun.2	-	16	1707	c.1466G>A	c.(1465-1467)GGG>GAG	p.G489E	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.G419E|PDE10A_uc003quo.2_Missense_Mutation_p.G499E	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	489					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	CCAGGATGTCCCACAGGACCG	0.373													10	21					0	0	0.010729	0	0		T	165808679	T	T	165808679	3	4	196	1	0	0	0	0	1	0	0	0	11649	623	22	4	905	4	PDE10A	6	165808679	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	1972451	165808679	5306388	31	97188											
ZNF804B	219578	broad.mit.edu	37	chr7	88963200	88963200	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccatctccataaactctaaaAttttgcaagacaaacacgac	17	9	3	12	1	2	1	0	0	2	1	3	2	2	1	2	0	3	1	2	0	6	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr7:88963200A>C	uc011khi.1	+	4	1442	c.904A>C	c.(904-906)ATT>CTT	p.I302L		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	302						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			AAACTCTAAAATTTTGCAAGA	0.343										HNSCC(36;0.09)			4	22					0	0	0.009096	0	0		C	88963200	C	C	88963200	3	2	196	1	0	0	0	0	1	0	0	0	18196	101	4	5	918	5	ZNF804B	7	88963200	Missense_Mutation	SNP	A	TCGA-FP-7998-01A-11D-2201-08		88963200	70175463	32	97189											
LMTK2	22853	broad.mit.edu	37	chr7	97821450	97821450	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatatccagttagaagaaaAaagtggtagtaacttggagc	16	11	10	4	0	0	2	0	0	0	2	1	3	1	3	1	2	2	3	1	2	9	6			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr7:97821450A>G	uc003upd.1	+	11	1966	c.1673A>G	c.(1672-1674)AAA>AGA	p.K558R		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	558					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					TTAGAAGAAAAAAGTGGTAGT	0.517													6	49					0	0	0.001168	0	0		G	97821450	G	G	97821450	3	3	196	1	0	0	0	0	1	0	0	0	8876	14	1	3	1715	3	LMTK2	7	97821450	Missense_Mutation	SNP	A	TCGA-FP-7998-01A-11D-2201-08	8858250	97821450	61317213	33	97190											
ANK1	286	broad.mit.edu	37	chr8	41550270	41550270	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgcaggcgcccctctcGggggtcattcatcttggcaa	6	8	13	14	3	4	0	2	0	2	0	5	0	4	0	2	4	1	3	2	4	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr8:41550270G>A	uc003xok.2	-	31	3838	c.3754C>T	c.(3754-3756)CGA>TGA	p.R1252*	NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Nonsense_Mutation_p.R568*|ANK1_uc003xoi.2_Nonsense_Mutation_p.R1252*|ANK1_uc003xoj.2_Nonsense_Mutation_p.R1252*|ANK1_uc003xol.2_Nonsense_Mutation_p.R1252*|ANK1_uc003xom.2_Nonsense_Mutation_p.R1293*	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1	1252					axon guidance|cytoskeleton organization|exocytosis|maintenance of epithelial cell apical/basal polarity|signal transduction	basolateral plasma membrane|cytosol|sarcomere|sarcoplasmic reticulum|spectrin-associated cytoskeleton	cytoskeletal adaptor activity|enzyme binding|protein binding|spectrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(3)|lung(2)|breast(1)	9	Ovarian(28;0.00541)|Colorectal(14;0.0398)|Lung SC(25;0.211)	all_lung(54;0.000626)|Lung NSC(58;0.00245)|Esophageal squamous(32;0.0559)|Hepatocellular(245;0.0663)|Renal(179;0.188)	OV - Ovarian serous cystadenocarcinoma(14;0.000984)|Lung(22;0.00108)|Colorectal(10;0.00245)|LUSC - Lung squamous cell carcinoma(45;0.00392)|COAD - Colon adenocarcinoma(11;0.0264)			CGCCCCTCTCGGGGGTCATTC	0.557													19	263					0	0	0.007413	0	0		A	41550270	A	A	41550270	4	1	196	1	0	0	0	0	0	1	0	0	620	1124	39	1	2265	1	ANK1	8	41550270	Nonsense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08		41550270	104813752	34	97191											
ZNF251	90987	broad.mit.edu	37	chr8	145947781	145947781	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgtgtgaatccttacgtgttCagtaagatgagagttaaaac	13	13	10	5	1	1	3	1	2	0	2	2	4	2	3	1	0	2	3	1	0	5	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr8:145947781C>G	uc003zdv.3	-	5	1520	c.1264G>C	c.(1264-1266)GAA>CAA	p.E422Q		NM_138367	NP_612376	Q9BRH9	ZN251_HUMAN	zinc finger protein 251	422	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;3.54e-11)|all_epithelial(106;2.65e-10)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.75e-39)|Epithelial(56;7.54e-38)|all cancers(56;6.19e-33)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.11)	GBM - Glioblastoma multiforme(99;0.198)		CTTACGTGTTCAGTAAGATGA	0.448													4	77					0	0	0.001168	0	0		G	145947781	G	G	145947781	3	3	196	1	0	0	0	0	1	0	0	0	17821	835	29	5	755	5	ZNF251	8	145947781	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	104397511	145947781	416241	35	97192											
PTPRD	5789	broad.mit.edu	37	chr9	8485824	8485824	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggcccgggccctttgctcGtatgagcacgtacttttaca	7	12	10	12	3	0	1	0	1	0	0	1	1	0	1	2	2	4	4	2	2	3	5			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr9:8485824G>A	uc003zkk.2	-	27	3704	c.2993C>T	c.(2992-2994)ACG>ATG	p.T998M	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.T989M|PTPRD_uc003zkm.2_Missense_Mutation_p.T985M|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	998	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CCCTTTGCTCGTATGAGCACG	0.498										TSP Lung(15;0.13)			5	25					0	0	0.000602	0	0		A	8485824	A	A	8485824	3	1	196	1	0	0	0	0	1	0	0	0	12824	1145	40	1	2889	1	PTPRD	9	8485824	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08		8485824	132727607	36	97193											
GAPVD1	26130	broad.mit.edu	37	chr9	128092357	128092357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttcccactggttatacagGtgctgcagcagagaacatgt	10	10	11	10	0	0	1	0	0	0	1	1	2	1	1	1	2	5	5	1	2	3	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr9:128092357G>A	uc010mwx.2	+	13	2359	c.2033G>A	c.(2032-2034)GGT>GAT	p.G678D	GAPVD1_uc011lzs.1_Missense_Mutation_p.G678D|GAPVD1_uc004bpp.2_Missense_Mutation_p.G678D|GAPVD1_uc004bpq.2_Missense_Mutation_p.G678D|GAPVD1_uc004bpr.2_Missense_Mutation_p.G657D|GAPVD1_uc004bps.2_Missense_Mutation_p.G678D|GAPVD1_uc010mwy.1_Missense_Mutation_p.G537D	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	678					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GGTTATACAGGTGCTGCAGCA	0.468													13	111					0	0	0.00245	0	0		A	128092357	A	A	128092357	3	1	196	1	0	0	0	0	1	0	0	0	6254	1275	44	4	2071	4	GAPVD1	9	128092357	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	119606533	128092357	13121074	37	97194											
QSOX2	169714	broad.mit.edu	37	chr9	139113777	139113777	+	Missense_Mutation	SNP	T	A	A	0	1	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	tgctttcatacgggatcaggTctaagatcacctgggggatg	9	11	13	8	1	4	1	3	0	1	1	4	3	4	3	1	4	2	1	1	4	2	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr9:139113777T>A	uc010nbi.2	-	6	724	c.686A>T	c.(685-687)GAC>GTC	p.D229V		NM_181701	NP_859052	Q6ZRP7	QSOX2_HUMAN	quiescin Q6 sulfhydryl oxidase 2 precursor	229					cell redox homeostasis	extracellular region|integral to membrane|nuclear membrane|plasma membrane	thiol oxidase activity			ovary(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;7.78e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.55e-07)		CGGGATCAGGTCTAAGATCAC	0.522													12	80					0	0	0.004007	0	0		A	139113777	A	A	139113777	3	1	196	1	0	0	0	0	1	0	0	0	12909	1667	58	5	1438	5	QSOX2	9	139113777	Missense_Mutation	SNP	T	TCGA-FP-7998-01A-11D-2201-08	11021420	139113777	2099654	38	97195											
MUC5B	727897	broad.mit.edu	37	chr11	1267649	1267649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacggtgcccaccggatccaCggccaccgcctcctccaccc	6	4	9	22	4	0	0	0	0	0	0	3	2	3	1	9	3	1	0	9	3	0	0			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr11:1267649C>T	uc009ycr.1	+	49	11414	c.11288C>T	c.(11287-11289)ACG>ATG	p.T3763M	MUC5B_uc001ltb.2_Missense_Mutation_p.T3183M	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3180	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCGGATCCACGGCCACCGCC	0.687													9	102					0	0	0.008291	0	0		T	1267649	T	T	1267649	3	4	196	1	0	0	0	0	1	0	0	0	9997	536	19	1	9670	1	MUC5B	11	1267649	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08		1267649	133738867	39	97196											
CTR9	9646	broad.mit.edu	37	chr11	10777233	10777233	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attacttcatagaaccatttGttgggaagagcctgcttctg	10	14	9	8	0	2	2	1	0	1	2	2	3	2	3	2	1	4	2	2	1	4	6			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr11:10777233G>A	uc001mja.2	+	4	542	c.393G>A	c.(391-393)TTG>TTA	p.L131L		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	131	TPR 2.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		AGAACCATTTGTTGGGAAGAG	0.383													3	46					0	0	0.000602	0	0		A	10777233	A	A	10777233	2	1	196	1	0	0	0	0	0	0	0	1	4027	1368	48	4		4	CTR9	11	10777233	Silent	SNP	G	TCGA-FP-7998-01A-11D-2201-08	9509584	10777233	124229283	40	97197											
ABCC8	6833	broad.mit.edu	37	chr11	17415246	17415246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catcaatgggccccttaccgCgatggtgaccacagtgcggt	8	8	12	13	3	1	1	1	1	0	0	1	2	1	1	4	3	2	0	4	3	2	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr11:17415246C>T	uc001mnc.2	-	38	4732	c.4606G>A	c.(4606-4608)GCG>ACG	p.A1536T		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	1536	Cytoplasmic (By similarity).|ABC transporter 2.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CCCCTTACCGCGATGGTGACC	0.622													13	197					0	0	0.004007	0	0		T	17415246	T	T	17415246	3	4	196	1	0	0	0	0	1	0	0	0	58	768	27	1	147	1	ABCC8	11	17415246	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	6638013	17415246	117591270	41	97198											
PHOX2A	401	broad.mit.edu	37	chr11	71952253	71952253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctccagctccttgagctgcgCgctggtgaacgtggtgcgga	5	9	15	12	4	0	2	0	2	0	0	2	3	2	3	2	3	5	3	2	3	1	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr11:71952253C>T	uc001osh.3	-	2	470	c.298G>A	c.(298-300)GCG>ACG	p.A100T		NM_005169	NP_005160	O14813	PHX2A_HUMAN	paired-like homeobox 2a	100	Homeobox.				noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TTGAGCTGCGCGCTGGTGAAC	0.637													4	49					0	0	0.009096	0	0		T	71952253	T	T	71952253	3	4	196	1	0	0	0	0	1	0	0	0	11877	768	27	1	564	1	PHOX2A	11	71952253	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	54537007	71952253	63054263	42	97199											
NINJ2	4815	broad.mit.edu	37	chr12	675332	675332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgggctggctcctggggtCggagcttccaggctgtaggg	4	9	19	9	1	0	0	0	0	0	0	3	2	2	1	2	7	1	5	2	7	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr12:675332C>T	uc001qil.2	-	2	275	c.184G>A	c.(184-186)GAC>AAC	p.D62N	NINJ2_uc010sdr.1_5'UTR|NINJ2_uc010sds.1_Missense_Mutation_p.D62N	NM_016533	NP_057617	Q9NZG7	NINJ2_HUMAN	ninjurin 2	16	Extracellular (Potential).				nervous system development|neuron cell-cell adhesion|tissue regeneration	integral to plasma membrane				ovary(2)	2	all_cancers(10;0.0101)|all_epithelial(11;0.0174)|Ovarian(42;0.0512)|all_lung(10;0.103)|Lung NSC(10;0.185)		OV - Ovarian serous cystadenocarcinoma(31;3.26e-05)|BRCA - Breast invasive adenocarcinoma(9;0.0508)			CTCCTGGGGTCGGAGCTTCCA	0.512													3	10					0	0	0.004672	0	0		T	675332	T	T	675332	3	4	196	1	0	0	0	0	1	0	0	0	10438	884	31	1	390	1	NINJ2	12	675332	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08		675332	133176563	43	97200											
PRB3	5544	broad.mit.edu	37	chr12	11420936	11420936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggactggtttcctccttgtgGgggtggtccttctggctttc	1	16	14	10	0	1	0	0	0	1	0	5	1	4	1	3	6	0	2	3	6	0	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr12:11420936G>A	uc001qzs.2	-	3	285	c.247C>T	c.(247-249)CCA>TCA	p.P83S	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	83	2.|10 X 21 AA tandem repeats of [RH]-P-G-K- P-[EQ]-G-[PQS]-P-[PS]-Q-[GE]-G-N-[QK]- [SP]-[QR]-[GR]-P-P-P.|Pro-rich.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			CCTCCTTGTGGGGGTGGTCCT	0.627													27	347					0	0	0.003271	0	0		A	11420936	A	A	11420936	3	1	196	1	0	0	0	0	1	0	0	0	12466	1232	43	4	690	4	PRB3	12	11420936	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	10745604	11420936	122430959	44	97201											
SP7	121340	broad.mit.edu	37	chr12	53722327	53722327	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgccatacaccttgccgcagCcagggatgtggcagctgtgg	7	8	14	12	1	0	0	0	0	0	0	0	1	0	1	4	3	5	3	4	3	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr12:53722327C>T	uc001sct.2	-	2	1006	c.899G>A	c.(898-900)GGC>GAC	p.G300D	SP7_uc001scu.2_Missense_Mutation_p.G282D|SP7_uc001scv.2_Missense_Mutation_p.G300D	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	300	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTGCCGCAGCCAGGGATGTG	0.647													3	28					0	0	0.009096	0	0		T	53722327	T	T	53722327	3	4	196	1	0	0	0	0	1	0	0	0	14994	739	26	2	400	2	SP7	12	53722327	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	42301391	53722327	80129568	45	97202											
MMP19	4327	broad.mit.edu	37	chr12	56231058	56231058	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgccaactcatagcagccGagggctggtttggcactccc	7	9	11	14	1	1	0	1	0	0	0	2	1	2	0	3	3	4	4	3	3	2	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr12:56231058G>T	uc001sib.2	-	9	1410	c.1289C>A	c.(1288-1290)TCG>TAG	p.S430*	MMP19_uc001sia.2_Nonsense_Mutation_p.S144*|MMP19_uc001sid.2_RNA|MMP19_uc010spw.1_3'UTR	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	430	Hemopexin-like 4.				angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						CATAGCAGCCGAGGGCTGGTT	0.557													25	157					4.31634e-10	5.06053e-10	0.012213	1	0		T	56231058	T	T	56231058	4	4	196	1	0	0	0	0	0	1	0	0	9675	1059	37	5	241	5	MMP19	12	56231058	Nonsense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	2508731	56231058	77620837	46	97203											
SUOX	6821	broad.mit.edu	37	chr12	56397880	56397880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctatcgcttacacgtagtagGagcacctgggggtcagtcac	9	9	12	11	2	2	0	2	0	0	0	3	1	2	1	1	3	2	4	1	3	4	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr12:56397880G>T	uc001six.2	+	6	1033	c.707G>T	c.(706-708)GGA>GTA	p.G236V	SUOX_uc001siy.2_Missense_Mutation_p.G236V|SUOX_uc001siz.2_Missense_Mutation_p.G236V|SUOX_uc001sja.2_Missense_Mutation_p.G236V	NM_000456	NP_000447	P51687	SUOX_HUMAN	sulfite oxidase precursor	236	Molybdenum-pterin domain (By similarity).					mitochondrial intermembrane space	electron carrier activity|molybdenum ion binding|sulfite oxidase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.119)			CACGTAGTAGGAGCACCTGGG	0.532													22	62					1.50039e-11	1.80047e-11	0.012319	1	0		T	56397880	T	T	56397880	3	4	196	1	0	0	0	0	1	0	0	0	15420	1174	41	5	717	5	SUOX	12	56397880	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	166822	56397880	77454015	47	97204											
MYF5	4617	broad.mit.edu	37	chr12	81111120	81111120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagccactatgcgcgagcGgaggcgcctgaagaaggtca	10	4	16	11	4	1	2	1	1	0	1	1	4	1	3	2	4	3	1	2	4	3	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr12:81111120G>A	uc001szg.2	+	1	413	c.278G>A	c.(277-279)CGG>CAG	p.R93Q		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	93	Basic motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						ATGCGCGAGCGGAGGCGCCTG	0.607													3	39					0	0	0.004672	0	0		A	81111120	A	A	81111120	3	1	196	1	0	0	0	0	1	0	0	0	10045	1116	39	1	280	1	MYF5	12	81111120	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	24713240	81111120	52740775	48	97205											
CIT	11113	broad.mit.edu	37	chr12	120190007	120190007	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagagctgtagctctgtgaGctggcgcttgagctccagtt	6	11	15	9	1	1	3	0	2	1	1	2	4	2	3	1	2	4	7	1	2	1	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr12:120190007G>C	uc001txi.1	-	22	2679	c.2626C>G	c.(2626-2628)CTC>GTC	p.L876V	CIT_uc001txh.1_Missense_Mutation_p.L410V|CIT_uc001txj.1_Missense_Mutation_p.L918V	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	876	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		AGCTCTGTGAGCTGGCGCTTG	0.517													4	27					0	0	0.000602	0	0		C	120190007	C	C	120190007	3	2	196	1	0	0	0	0	1	0	0	0	3441	971	34	5	3561	5	CIT	12	120190007	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	39078887	120190007	13661888	49	97206											
FLT1	2321	broad.mit.edu	37	chr13	28903858	28903858	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctttgtactcgctggccgtGgccccctctgtgtgagaagc	4	11	13	13	2	1	1	0	1	1	1	2	2	1	1	3	2	2	3	3	2	2	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr13:28903858G>T	uc001usb.3	-	19	2886	c.2601C>A	c.(2599-2601)GCC>GCA	p.A867A	FLT1_uc010aaq.2_5'UTR|FLT1_uc001usa.3_Silent_p.A85A	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	867	Cytoplasmic (Potential).|Protein kinase.				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CGCTGGCCGTGGCCCCCTCTG	0.567													4	17					2.56e-06	2.86945e-06	0.009096	1	0		T	28903858	T	T	28903858	2	4	196	1	0	0	0	0	0	0	0	1	5955	1335	47	5		5	FLT1	13	28903858	Silent	SNP	G	TCGA-FP-7998-01A-11D-2201-08		28903858	86266020	50	97207											
FREM2	341640	broad.mit.edu	37	chr13	39262281	39262281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaactaggcgtgcgctatcGccacacagccgccagtcgct	8	6	12	15	5	0	0	0	0	0	0	2	1	0	1	3	2	3	2	3	2	3	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr13:39262281G>A	uc001uwv.2	+	1	1109	c.800G>A	c.(799-801)CGC>CAC	p.R267H		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	267	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GTGCGCTATCGCCACACAGCC	0.632													5	109					0	0	0.000602	0	0		A	39262281	A	A	39262281	3	1	196	1	0	0	0	0	1	0	0	0	6059	1087	38	1	802	1	FREM2	13	39262281	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	10358423	39262281	75907597	51	97208											
NUFIP1	26747	broad.mit.edu	37	chr13	45517811	45517811	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagtcttgatgggagtttcTaagtgtgatgaaaaacaaac	14	12	10	5	0	3	3	1	3	2	0	3	4	3	4	0	1	2	1	0	1	4	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr13:45517811T>A	uc001uzp.2	-	9	1181	c.1139_splice	c.e9-1	p.E380_splice		NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein						box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		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)		TGGGAGTTTCTAAGTGTGATG	0.333													4	23					0	0	0.009096	0	0		A	45517811	A	A	45517811	5	1	196	1	0	0	0	0	0	0	1	0	10767	1536	53	5	358	5	NUFIP1	13	45517811	Splice_Site	SNP	T	TCGA-FP-7998-01A-11D-2201-08	6255530	45517811	69652067	52	97209											
OR4K1	79544	broad.mit.edu	37	chr14	20404085	20404085	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgcttgtagacttttttaTtgagcgcaagactatctcct	9	16	8	8	1	1	3	0	1	1	2	2	4	1	3	1	0	2	3	1	0	4	7			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr14:20404085T>C	uc001vwj.1	+	1	260	c.260T>C	c.(259-261)ATT>ACT	p.I87T		NM_001004063	NP_001004063	Q8NGD4	OR4K1_HUMAN	olfactory receptor, family 4, subfamily K,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00124)		GACTTTTTTATTGAGCGCAAG	0.408													3	94					0	0	0.000602	0	0		C	20404085	C	C	20404085	3	2	196	1	0	0	0	0	1	0	0	0	11086	1493	52	3	262	3	OR4K1	14	20404085	Missense_Mutation	SNP	T	TCGA-FP-7998-01A-11D-2201-08		20404085	86945455	53	97210											
MYH6	4624	broad.mit.edu	37	chr14	23851751	23851751	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	accttgcggaacttggacagGttggtgttggcttgctcctc	5	13	13	10	1	0	0	0	0	0	0	2	2	1	2	2	5	3	4	2	5	1	5			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr14:23851751G>T	uc001wjv.2	-	38	5749	c.5682C>A	c.(5680-5682)AAC>AAA	p.N1894K		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1894	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		ACTTGGACAGGTTGGTGTTGG	0.592													5	168					8.12818e-05	8.7271e-05	0.001984	1	0		T	23851751	T	T	23851751	3	4	196	1	0	0	0	0	1	0	0	0	10056	1252	44	5	145	5	MYH6	14	23851751	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	3447666	23851751	83497789	54	97211											
RPL10L	140801	broad.mit.edu	37	chr14	47120763	47120763	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagggcttcagaagacagCtgctcatattcatcagacac	12	9	8	12	0	4	3	4	0	0	3	5	3	5	3	1	1	2	3	1	1	2	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr14:47120763C>A	uc001wwg.2	-	1	266	c.177G>T	c.(175-177)CAG>CAT	p.Q59H		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	59					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						CAGAAGACAGCTGCTCATATT	0.512													6	68					0.00116845	0.00124147	0.001168	1	0		A	47120763	A	A	47120763	3	1	196	1	0	0	0	0	1	0	0	0	13581	796	28	5	471	5	RPL10L	14	47120763	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	23269012	47120763	60228777	55	97212											
BCL11B	64919	broad.mit.edu	37	chr14	99723808	99723808	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaagcgcagcatcccatacCtgcaatgttctcctgcttgg	8	10	9	14	1	1	0	0	0	1	0	3	0	2	0	3	1	5	6	3	1	3	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr14:99723808C>A	uc001yga.2	-	2	694	c.427G>T	c.(427-429)GGG>TGG	p.G143W	BCL11B_uc001ygb.2_Missense_Mutation_p.G143C	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	143						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		CATCCCATACCTGCAATGTTC	0.622			T	TLX3	T-ALL								18	172					1.2644e-06	1.43299e-06	0.010504	1	0		A	99723808	A	A	99723808	3	1	196	1	0	0	0	0	1	0	0	0	1365	695	24	5	2269	5	BCL11B	14	99723808	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	52603045	99723808	7625732	56	97213											
AHNAK2	113146	broad.mit.edu	37	chr14	105413048	105413048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcccttgacgtctatctgggGgcccttgagatccactttgg	5	12	12	12	1	2	2	0	2	2	1	3	3	3	2	3	3	0	0	3	3	1	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr14:105413048G>A	uc010axc.1	-	7	8860	c.8740C>T	c.(8740-8742)CCC>TCC	p.P2914S	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2814S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2914						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TCTATCTGGGGGCCCTTGAGA	0.647													26	146					0	0	0.010818	0	0		A	105413048	A	A	105413048	3	1	196	1	0	0	0	0	1	0	0	0	415	1232	43	4	8651	4	AHNAK2	14	105413048	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	5689240	105413048	1936492	57	97214											
PLK1	5347	broad.mit.edu	37	chr16	23691501	23691501	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggctgccagtacctgcacCgaaaccgagttattcatcga	10	10	9	12	3	1	0	1	0	0	0	2	3	1	0	4	1	4	4	4	1	3	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr16:23691501C>T	uc002dlz.1	+	2	558	c.505C>T	c.(505-507)CGA>TGA	p.R169*		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	169	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		GTACCTGCACCGAAACCGAGT	0.532													12	80					0	0	0.013537	0	0		T	23691501	T	T	23691501	4	4	196	1	0	0	0	0	0	1	0	0	12113	644	23	1	511	1	PLK1	16	23691501	Nonsense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08		23691501	66663252	58	97215											
ZNF785	146540	broad.mit.edu	37	chr16	30594148	30594148	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaataggtgaagcggcggccGcagtcaggacaggggtaggg	10	4	20	7	3	1	1	1	1	0	0	1	3	1	2	1	7	1	2	1	7	4	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr16:30594148G>A	uc002dyw.1	-	3	1029	c.951C>T	c.(949-951)TGC>TGT	p.C317C	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Silent_p.C302C|ZNF785_uc010vez.1_Silent_p.C282C	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	317	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGCGGCGGCCGCAGTCAGGAC	0.642													4	56					0	0	0.000602	0	0		A	30594148	A	A	30594148	2	1	196	1	0	0	0	0	0	0	0	1	18182	1079	38	1		1	ZNF785	16	30594148	Silent	SNP	G	TCGA-FP-7998-01A-11D-2201-08	6902647	30594148	59760605	59	97216											
ZNF423	23090	broad.mit.edu	37	chr16	49669967	49669967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatggatcttgagctcaagCgtggaagtgactgtctgcat	9	11	12	9	1	3	2	1	2	2	0	3	4	3	4	1	2	3	2	1	2	2	1	rs145829157		TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr16:49669967C>T	uc002efs.2	-	5	3394	c.3096G>A	c.(3094-3096)ACG>ACA	p.T1032T	ZNF423_uc010vgn.1_Silent_p.T915T	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	1032	C2H2-type 24.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TGAGCTCAAGCGTGGAAGTGA	0.597													6	35					0	0	0.004482	0	0		T	49669967	T	T	49669967	2	4	196	1	0	0	0	0	0	0	0	1	17923	755	27	1		1	ZNF423	16	49669967	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	19075819	49669967	40684786	60	97217											
POLR2C	5432	broad.mit.edu	37	chr16	57503165	57503165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agaccagacgcgacatgtcaCgtctcgagacctcatctcca	11	7	8	15	4	4	3	2	0	2	3	6	5	4	3	3	0	0	0	3	0	0	0			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr16:57503165C>T	uc002elt.1	+	5	433	c.347C>T	c.(346-348)ACG>ATG	p.T116M	POLR2C_uc010vhq.1_Missense_Mutation_p.T116M	NM_032940	NP_116558	P19387	RPB3_HUMAN	DNA directed RNA polymerase II polypeptide C	116					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|protein dimerization activity				0						CGACATGTCACGTCTCGAGAC	0.577													6	128					0	0	0.001168	0	0		T	57503165	T	T	57503165	3	4	196	1	0	0	0	0	1	0	0	0	12235	536	19	1	365	1	POLR2C	16	57503165	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	7833198	57503165	32851588	61	97218											
SETD6	79918	broad.mit.edu	37	chr16	58550528	58550528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcttcagcctcagggttcGctccctagaactctaccacc	7	11	6	17	1	4	1	2	0	2	1	7	1	5	1	4	1	3	2	4	1	3	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr16:58550528G>A	uc002ens.2	+	4	682	c.623G>A	c.(622-624)CGC>CAC	p.R208H	SETD6_uc010cdl.2_Missense_Mutation_p.R208H|SETD6_uc002enr.2_Missense_Mutation_p.R184H|SETD6_uc010cdm.2_RNA|SETD6_uc010vij.1_Missense_Mutation_p.R132H	NM_001160305	NP_001153777	Q8TBK2	SETD6_HUMAN	SET domain containing 6 isoform a	208	SET.				negative regulation of NF-kappaB transcription factor activity|peptidyl-lysine monomethylation|regulation of inflammatory response	nucleus	NF-kappaB binding|protein-lysine N-methyltransferase activity			ovary(1)	1						CTCAGGGTTCGCTCCCTAGAA	0.572													6	40					0	0	0.001984	0	0		A	58550528	A	A	58550528	3	1	196	1	0	0	0	0	1	0	0	0	14160	1087	38	1	637	1	SETD6	16	58550528	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08	1047363	58550528	31804225	62	97219											
CDH16	1014	broad.mit.edu	37	chr16	66948198	66948198	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggacacccaggtgctctctAtgatggagacttccacggtg	8	9	13	11	1	1	2	0	1	1	1	3	4	2	3	2	4	1	1	2	4	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr16:66948198A>G	uc002eql.2	-	7	774	c.701T>C	c.(700-702)ATA>ACA	p.I234T	CDH16_uc010cdy.2_Missense_Mutation_p.I234T|CDH16_uc002eqm.2_Missense_Mutation_p.I137T	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	234	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		GGTGCTCTCTATGATGGAGAC	0.587													16	60					0	0	0.00499	0	0		G	66948198	G	G	66948198	3	3	196	1	0	0	0	0	1	0	0	0	3104	449	16	3	1836	3	CDH16	16	66948198	Missense_Mutation	SNP	A	TCGA-FP-7998-01A-11D-2201-08	8397670	66948198	23406555	63	97220											
WDR81	124997	broad.mit.edu	37	chr17	1635975	1635975	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cataggatctgaagctggacCctgcgggccgtggtgagggc	7	7	17	10	2	1	2	0	2	1	0	1	4	1	4	2	5	2	1	2	5	2	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr17:1635975C>T	uc002fti.2	+	6	919	c.658C>T	c.(658-660)CCT>TCT	p.P220S	WDR81_uc002fth.2_Missense_Mutation_p.P396S|WDR81_uc010vqp.1_Missense_Mutation_p.P244S|WDR81_uc002ftj.2_Missense_Mutation_p.P1447S|WDR81_uc010vqq.1_Missense_Mutation_p.P78S	NM_001163811	NP_001157283	Q562E7	WDR81_HUMAN	WD repeat domain 81 isoform 4	220										skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GAAGCTGGACCCTGCGGGCCG	0.692													4	28					0	0	0.000602	0	0		T	1635975	T	T	1635975	3	4	196	1	0	0	0	0	1	0	0	0	17356	623	22	4	4423	4	WDR81	17	1635975	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08		1635975	79559235	64	97221											
CHRNE	1145	broad.mit.edu	37	chr17	4805383	4805383	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccgaactggccatcaataCtgtgggctcggggaaaccga	10	7	12	12	3	1	0	1	0	0	0	3	3	2	1	3	4	3	1	3	4	4	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr17:4805383C>G	uc002fzk.1	-	5	356	c.345_splice	c.e5-1	p.N115_splice	C17orf107_uc002fzl.3_3'UTR	NM_000080	NP_000071	Q04844	ACHE_HUMAN	nicotinic acetylcholine receptor epsilon						muscle contraction|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GCCATCAATACTGTGGGCTCG	0.647													4	25					0	0	0.000602	0	0		G	4805383	G	G	4805383	5	3	196	1	0	0	0	0	0	0	1	0	3398	579	20	5	1169	5	CHRNE	17	4805383	Splice_Site	SNP	C	TCGA-FP-7998-01A-11D-2201-08	3169408	4805383	76389827	65	97222											
NLRP1	22861	broad.mit.edu	37	chr17	5442796	5442796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagagcagtcgcacgccaaCgtcatccaggttgttctgct	9	9	10	13	3	2	1	1	0	1	1	4	1	3	1	2	1	3	5	2	1	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr17:5442796C>T	uc002gci.2	-	7	3364	c.2809G>A	c.(2809-2811)GTT>ATT	p.V937I	NLRP1_uc002gcg.1_Missense_Mutation_p.V937I|NLRP1_uc002gck.2_Missense_Mutation_p.V937I|NLRP1_uc002gcj.2_Missense_Mutation_p.V937I|NLRP1_uc002gcl.2_Missense_Mutation_p.V937I|NLRP1_uc002gch.3_Missense_Mutation_p.V937I|NLRP1_uc010clh.2_Missense_Mutation_p.V937I	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	937	LRR 5.				defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				CGCACGCCAACGTCATCCAGG	0.622													11	45					0	0	0.001855	0	0		T	5442796	T	T	5442796	3	4	196	1	0	0	0	0	1	0	0	0	10490	536	19	1	1731	1	NLRP1	17	5442796	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	637413	5442796	75752414	66	97223											
MRM1	79922	broad.mit.edu	37	chr17	34958746	34958746	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcgttccgcacacttcctCggagtggataaggtcatcac	8	10	10	13	3	2	0	2	0	0	0	5	2	4	2	2	3	1	2	2	3	1	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr17:34958746C>T	uc002hne.2	+	1	722	c.507C>T	c.(505-507)CTC>CTT	p.L169L	MRM1_uc002hnf.2_Intron	NM_024864	NP_079140	Q6IN84	MRM1_HUMAN	mitochondrial rRNA methyltransferase 1 homolog	169					RNA processing	mitochondrion	RNA binding|RNA methyltransferase activity				0		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		CACACTTCCTCGGAGTGGATA	0.602													9	42					0	0	0.008291	0	0		T	34958746	T	T	34958746	2	4	196	1	0	0	0	0	0	0	0	1	9789	871	31	1		1	MRM1	17	34958746	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	29515950	34958746	46236464	67	97224											
DNAJC7	7266	broad.mit.edu	37	chr17	40140786	40140786	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccgattacagtagagtttAgcatttgtttttatattgtt	9	19	7	6	1	0	1	0	0	0	1	0	2	0	1	2	0	2	5	2	0	5	11			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr17:40140786A>G	uc002hyo.2	-	8	1119	c.882T>C	c.(880-882)GCT>GCC	p.A294A	DNAJC7_uc010cxu.2_Silent_p.A238A|DNAJC7_uc010cxv.2_Silent_p.A238A|DNAJC7_uc010wgb.1_Silent_p.A238A|DNAJC7_uc010wgc.1_Silent_p.A152A|DNAJC7_uc002hyp.2_Silent_p.A238A|DNAJC7_uc010cxw.2_RNA	NM_003315	NP_003306	Q99615	DNJC7_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 7	294	TPR 8.				chaperone cofactor-dependent protein refolding	cytoplasm|cytoskeleton|nucleus	heat shock protein binding|unfolded protein binding			ovary(1)	1		all_cancers(22;0.00273)|Breast(137;0.00104)|all_epithelial(22;0.0305)				AGTAGAGTTTAGCATTTGTTT	0.383													16	44					0	0	0.007413	0	0		G	40140786	G	G	40140786	2	3	196	1	0	0	0	0	0	0	0	1	4660	407	15	3		3	DNAJC7	17	40140786	Silent	SNP	A	TCGA-FP-7998-01A-11D-2201-08	5182040	40140786	41054424	68	97225											
STAT3	6774	broad.mit.edu	37	chr17	40475070	40475070	+	Missense_Mutation	SNP	T	G	G	0	1	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	agtgacgcctccttctttgcTgctttcactgaatcttagca	7	15	7	12	1	3	2	1	2	2	0	4	2	4	2	2	0	3	3	2	0	2	4			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr17:40475070T>G	uc002hzl.1	-	20	2080	c.1840A>C	c.(1840-1842)AGC>CGC	p.S614R	STAT3_uc002hzk.1_Missense_Mutation_p.S614R|STAT3_uc002hzm.1_Missense_Mutation_p.S614R|STAT3_uc010wgh.1_Missense_Mutation_p.S516R|STAT3_uc002hzn.1_Missense_Mutation_p.S614R	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	614	SH2.				cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		CCTTCTTTGCTGCTTTCACTG	0.572									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome		OREG0024421	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	129					0	0	0.009096	0	0		G	40475070	G	G	40475070	3	3	196	1	0	0	0	0	1	0	0	0	15291	1580	55	5	492	5	STAT3	17	40475070	Missense_Mutation	SNP	T	TCGA-FP-7998-01A-11D-2201-08	334284	40475070	40720140	69	97226											
CDH7	1005	broad.mit.edu	37	chr18	63477064	63477064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccaccaagagactggatcGtgaggagcaggcctactaca	12	6	12	11	1	0	2	0	1	0	1	1	5	0	4	3	3	4	1	3	3	3	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr18:63477064G>A	uc002ljz.2	+	3	660	c.335G>A	c.(334-336)CGT>CAT	p.R112H	CDH7_uc002lka.2_Missense_Mutation_p.R112H|CDH7_uc002lkb.2_Missense_Mutation_p.R112H	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	112	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				AGACTGGATCGTGAGGAGCAG	0.498													9	48					0	0	0.008291	0	0		A	63477064	A	A	63477064	3	1	196	1	0	0	0	0	1	0	0	0	3118	1145	40	1	341	1	CDH7	18	63477064	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08		63477064	14600184	70	97227											
MCOLN1	57192	broad.mit.edu	37	chr19	7593841	7593841	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgggcaccatcatgaagatCggcatcgaggccaaggtgcg	10	6	14	11	4	1	2	1	1	0	1	4	3	1	2	2	4	1	2	2	4	2	0			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr19:7593841C>T	uc002mgo.2	+	9	1244	c.1119C>T	c.(1117-1119)ATC>ATT	p.I373I	MCOLN1_uc002mgp.2_Silent_p.I338I	NM_020533	NP_065394	Q9GZU1	MCLN1_HUMAN	mucolipin 1	373					calcium ion transport|cellular iron ion homeostasis|transferrin transport	integral to plasma membrane|late endosome membrane|lysosomal membrane	cation channel activity|iron ion transmembrane transporter activity			breast(1)	1						TCATGAAGATCGGCATCGAGG	0.627													10	93					0	0	0.010729	0	0		T	7593841	T	T	7593841	2	4	196	1	0	0	0	0	0	0	0	1	9413	874	31	1		1	MCOLN1	19	7593841	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08		7593841	51535142	71	97228											
GRIN2D	2906	broad.mit.edu	37	chr19	48908092	48908092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggacgtcctttgtagcCgtgaccactcgtgcccctgg	5	10	12	14	3	0	1	0	1	0	0	2	3	1	2	5	2	2	1	5	2	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr19:48908092C>T	uc002pjc.3	+	3	655	c.567C>T	c.(565-567)GCC>GCT	p.A189A		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	189	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		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)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	CCTTTGTAGCCGTGACCACTC	0.617													24	288					0	0	0.007291	0	0		T	48908092	T	T	48908092	2	4	196	1	0	0	0	0	0	0	0	1	6798	639	23	1		1	GRIN2D	19	48908092	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	41314251	48908092	10220891	72	97229											
NLRP4	147945	broad.mit.edu	37	chr19	56369488	56369488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggcggcttgaacgaaccCgattcggatctgtgtggtga	8	9	15	9	4	1	2	0	2	1	0	2	5	1	3	1	4	2	1	1	4	2	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr19:56369488C>T	uc002qmd.3	+	3	1151	c.729C>T	c.(727-729)CCC>CCT	p.P243P	NLRP4_uc002qmf.2_Silent_p.P168P|NLRP4_uc010etf.2_Silent_p.P74P	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	243	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TGAACGAACCCGATTCGGATC	0.567													4	120					0	0	0.000602	0	0		T	56369488	T	T	56369488	2	4	196	1	0	0	0	0	0	0	0	1	10498	639	23	1		1	NLRP4	19	56369488	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	7461396	56369488	2759495	73	97230											
BFSP1	631	broad.mit.edu	37	chr20	17475310	17475310	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccctgtgaccagcacgtgCcgctctttggtgtagagctc	5	11	11	14	2	1	2	0	1	1	1	3	2	2	2	4	1	3	4	4	1	1	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr20:17475310C>A	uc002wpo.2	-	8	1446	c.1407G>T	c.(1405-1407)CGG>CGT	p.R469R	BFSP1_uc002wpp.2_Silent_p.R344R|BFSP1_uc010zrn.1_Silent_p.R330R|BFSP1_uc010zro.1_Silent_p.R330R	NM_001195	NP_001186	Q12934	BFSP1_HUMAN	filensin isoform 1	469	Tail.					cytoplasm|intermediate filament|membrane	structural constituent of cytoskeleton|structural constituent of eye lens			central_nervous_system(1)	1						CCAGCACGTGCCGCTCTTTGG	0.517													16	50					2.32078e-09	2.65978e-09	0.003163	1	0		A	17475310	A	A	17475310	2	1	196	1	0	0	0	0	0	0	0	1	1416	726	26	5		5	BFSP1	20	17475310	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08		17475310	45550210	74	97231											
YWHAB	7529	broad.mit.edu	37	chr20	43530312	43530312	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aacgaagagagaaatctgctCtctgttgcctacaagaatgt	14	10	9	8	1	2	3	0	0	2	3	3	5	2	3	1	0	4	2	1	0	6	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr20:43530312C>T	uc002xmt.2	+	3	420	c.138C>T	c.(136-138)CTC>CTT	p.L46L	YWHAB_uc002xmu.2_Silent_p.L46L	NM_003404	NP_003395	P31946	1433B_HUMAN	tyrosine 3-monooxygenase/tryptophan	46					activation of MAPKK activity|activation of pro-apoptotic gene products|axon guidance|cytoplasmic sequestering of protein|epidermal growth factor receptor signaling pathway|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|mRNA metabolic process|negative regulation of protein dephosphorylation|nerve growth factor receptor signaling pathway|Ras protein signal transduction	centrosome|cytosol|melanosome|perinuclear region of cytoplasm	histone deacetylase binding|phosphoserine binding|protein domain specific binding			kidney(2)|ovary(1)|breast(1)	4		Myeloproliferative disorder(115;0.0122)				GAAATCTGCTCTCTGTTGCCT	0.522													5	56					0	0	0.001168	0	0		T	43530312	T	T	43530312	2	4	196	1	0	0	0	0	0	0	0	1	17527	900	32	4		4	YWHAB	20	43530312	Silent	SNP	C	TCGA-FP-7998-01A-11D-2201-08	26055002	43530312	19495208	75	97232											
CLTCL1	8218	broad.mit.edu	37	chr22	19222200	19222200	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggttgcataattcacaatGttatcttcctcaacacaaac	13	14	4	10	0	3	0	2	0	1	0	4	0	4	0	1	1	3	3	1	1	5	6			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr22:19222200G>T	uc002zpb.2	-	7	1074	c.999C>A	c.(997-999)AAC>AAA	p.N333K	CLTCL1_uc011agv.1_Missense_Mutation_p.N333K|CLTCL1_uc011agw.1_Missense_Mutation_p.N333K	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	333	Globular terminal domain.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					AATTCACAATGTTATCTTCCT	0.498			T	?	ALCL								5	128					8.12818e-05	8.7271e-05	0.001984	1	0		T	19222200	T	T	19222200	3	4	196	1	0	0	0	0	1	0	0	0	3570	1368	48	5	4027	5	CLTCL1	22	19222200	Missense_Mutation	SNP	G	TCGA-FP-7998-01A-11D-2201-08		19222200	32082366	76	97233											
MYO18B	84700	broad.mit.edu	37	chr22	26222459	26222459	+	Missense_Mutation	SNP	A	T	T	1	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	ttgcggctgtggtctcactcAtcaacaggtaacggggcctt	7	11	12	11	2	3	0	3	0	1	0	4	0	3	0	1	5	3	2	1	5	2	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chr22:26222459A>T	uc003abz.1	+	14	3029	c.2779A>T	c.(2779-2781)ATC>TTC	p.I927F	MYO18B_uc003aca.1_Missense_Mutation_p.I808F|MYO18B_uc010guy.1_Missense_Mutation_p.I808F|MYO18B_uc010guz.1_Missense_Mutation_p.I808F|MYO18B_uc011aka.1_Missense_Mutation_p.I81F|MYO18B_uc011akb.1_Missense_Mutation_p.I440F	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	927	Myosin head-like.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GGTCTCACTCATCAACAGGTA	0.507													23	123					0	0	0.003954	0	0		T	26222459	T	T	26222459	3	4	196	1	0	0	0	0	1	0	0	0	10084	217	8	5	2829	5	MYO18B	22	26222459	Missense_Mutation	SNP	A	TCGA-FP-7998-01A-11D-2201-08	7000259	26222459	25082107	77	97234											
FAM123B	139285	broad.mit.edu	37	chrX	63412939	63412939	+	Silent	SNP	T	C	C	0	1	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	ttcccagaacctttgctccgTccccctccaaagaaactagg	10	9	6	16	1	0	2	0	0	0	2	4	2	4	2	6	1	3	1	6	1	4	3			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chrX:63412939T>C	uc004dvo.2	-	2	501	c.228A>G	c.(226-228)GGA>GGG	p.G76G		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	76					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						CTTTGCTCCGTCCCCCTCCAA	0.537													3	46					0	0	0.009096	0	0		C	63412939	C	C	63412939	2	2	196	1	0	0	0	0	0	0	0	1	5434	1654	58	3		3	FAM123B	23	63412939	Silent	SNP	T	TCGA-FP-7998-01A-11D-2201-08		63412939	91857621	78	97235											
IRS4	8471	broad.mit.edu	37	chrX	107977194	107977194	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagccaccctgaggatttCtggggttttttggaattgca	9	13	12	7	0	1	2	0	1	1	1	1	4	1	4	2	4	2	2	2	4	2	5			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chrX:107977194C>A	uc004eoc.2	-	1	2414	c.2381G>T	c.(2380-2382)AGA>ATA	p.R794I		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	794	CRK-binding.					plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CTGAGGATTTCTGGGGTTTTT	0.473													10	69					0.00829132	0.00871871	0.008291	1	0		A	107977194	A	A	107977194	3	1	196	1	0	0	0	0	1	0	0	0	7858	913	32	5	1396	5	IRS4	23	107977194	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	44564255	107977194	47293366	79	97236											
SAGE1	55511	broad.mit.edu	37	chrX	134992203	134992203	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagatgctaccgtcactCacaatgtccatgaagagaag	13	9	8	11	1	2	3	2	1	0	2	4	4	4	3	3	0	2	1	3	0	4	2			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chrX:134992203C>A	uc004ezh.2	+	15	1905	c.1738C>A	c.(1738-1740)CAC>AAC	p.H580N	SAGE1_uc010nry.1_Missense_Mutation_p.H549N|SAGE1_uc011mvv.1_Missense_Mutation_p.H204N	NM_018666	NP_061136	Q9NXZ1	SAGE1_HUMAN	sarcoma antigen 1	580										ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TACCGTCACTCACAATGTCCA	0.413													14	26					6.72482e-11	7.97595e-11	0.003163	1	0		A	134992203	A	A	134992203	3	1	196	1	0	0	0	0	1	0	0	0	13834	826	29	5	1792	5	SAGE1	23	134992203	Missense_Mutation	SNP	C	TCGA-FP-7998-01A-11D-2201-08	27015009	134992203	20278357	80	97237											
MAMLD1	10046	broad.mit.edu	37	chrX	149639635	149639635	+	Missense_Mutation	SNP	A	T	T	1	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	cactgccaccttgcagctgcAgcagcagcagcagcaacagc	11	4	10	16	0	0	0	0	0	0	0	0	0	0	0	2	0	11	8	2	0	1	1			TCGA-FP-7998-01A-11D-2201-08	TCGA-FP-7998-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	172c9864-c26d-4e9b-947a-e8ce761e996d	1c38848b-b948-49d7-8c2f-bfdcbcddd43f	g.chrX:149639635A>T	uc004fee.1	+	3	1866	c.1790A>T	c.(1789-1791)CAG>CTG	p.Q597L	MAMLD1_uc011mxt.1_Missense_Mutation_p.Q559L|MAMLD1_uc011mxu.1_Missense_Mutation_p.Q572L|MAMLD1_uc011mxv.1_Missense_Mutation_p.Q572L|MAMLD1_uc011mxw.1_Missense_Mutation_p.Q524L	NM_005491	NP_005482	Q13495	MAMD1_HUMAN	mastermind-like domain containing 1	597	Poly-Gln.				male gonad development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(192;6.56e-05)					TTgcagctgcagcagcagcag	0.483													4	51					0	0	0.009096	0	0		T	149639635	T	T	149639635	3	4	196	1	0	0	0	0	1	0	0	0	9226	188	7	5	1800	5	MAMLD1	23	149639635	Missense_Mutation	SNP	A	TCGA-FP-7998-01A-11D-2201-08	14647432	149639635	5630925	81	97238											
ARID1A	8289	broad.mit.edu	37	chr1	27099124	27099124	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccccattgccaggcatgagGtaaggccaagagcaggggca	11	4	14	12	0	0	2	0	1	0	1	0	2	0	2	4	5	2	4	4	5	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:27099124G>A	uc001bmv.1	+	13	3912	c.3539_splice	c.e13+1	p.S1180_splice	ARID1A_uc001bmt.1_Splice_Site_p.R1180_splice|ARID1A_uc001bmu.1_Splice_Site_p.S1180_splice|ARID1A_uc001bmw.1_Splice_Site_p.S797_splice|ARID1A_uc001bmx.1_Splice_Site_p.R27_splice|ARID1A_uc009vsm.1_5'Flank|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a						androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CAGGCATGAGGTAAGGCCAAG	0.572			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								42	25					0	0	0.010771	0	0		A	27099124	A	A	27099124	5	1	197	1	0	0	0	0	0	0	1	0	913	1275	44	4	3590	4	ARID1A	1	27099124	Splice_Site	SNP	G	TCGA-FP-8099-01A-11D-2340-08		27099124	222151497	1	97239											
C1orf87	127795	broad.mit.edu	37	chr1	60499178	60499178	+	Silent	SNP	G	T	T	0	0	1	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	gggaggcagccagagaacgaGcgatcttcttttcgaaaact	12	8	12	9	3	2	1	0	0	2	1	3	6	2	2	1	2	4	1	1	2	3	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:60499178G>T	uc001czs.1	-	7	1091	c.999C>A	c.(997-999)CGC>CGA	p.R333R		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	333							calcium ion binding			ovary(1)|breast(1)	2						CAGAGAACGAGCGATCTTCTT	0.428													46	69					2.43468e-25	2.72281e-25	0.01441	1	0		T	60499178	T	T	60499178	2	4	197	1	0	0	0	0	0	0	0	1	2067	958	34	5		5	C1orf87	1	60499178	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	33400054	60499178	188751443	2	97240											
LRRC39	127495	broad.mit.edu	37	chr1	100614640	100614640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attggtaaagtagttgaaccGttgacttggtgatctgaaac	12	13	11	5	1	1	4	0	4	1	0	1	4	1	4	1	2	2	4	1	2	5	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:100614640G>A	uc001dsw.1	-	10	1165	c.966C>T	c.(964-966)AAC>AAT	p.N322N	CCDC76_uc001dsv.2_3'UTR|CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_3'UTR|LRRC39_uc001dsx.1_Silent_p.N322N|LRRC39_uc001dsy.1_3'UTR|LRRC39_uc001dsz.1_Silent_p.N322N	NM_144620	NP_653221	Q96DD0	LRC39_HUMAN	leucine rich repeat containing 39	322										ovary(2)|skin(1)	3		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0826)|all cancers(265;0.135)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.195)		TAGTTGAACCGTTGACTTGGT	0.303													3	26					0	0	0.004672	0	0		A	100614640	A	A	100614640	2	1	197	1	0	0	0	0	0	0	0	1	9013	1136	40	1		1	LRRC39	1	100614640	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	40115462	100614640	148635981	3	97241											
NTNG1	22854	broad.mit.edu	37	chr1	107867370	107867370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttgctggacctcgcctacGcaatatggcttccctctacg	6	13	8	14	3	1	0	0	0	1	0	3	1	2	1	3	2	3	3	3	2	4	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:107867370G>A	uc001dvh.3	+	3	1431	c.713G>A	c.(712-714)CGC>CAC	p.R238H	NTNG1_uc001dvf.3_Missense_Mutation_p.R238H|NTNG1_uc010out.1_Missense_Mutation_p.R238H|NTNG1_uc001dvc.3_Missense_Mutation_p.R238H|NTNG1_uc001dvd.1_Missense_Mutation_p.R238H	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	238	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CCTCGCCTACGCAATATGGCT	0.433													10	48					0	0	0.016723	0	0		A	107867370	A	A	107867370	3	1	197	1	0	0	0	0	1	0	0	0	10723	1087	38	1	719	1	NTNG1	1	107867370	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	7252730	107867370	141383251	4	97242											
SPAG17	200162	broad.mit.edu	37	chr1	118624180	118624180	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atcccagaaggtttcagtttCcctttttcatcaacctcaga	10	14	5	12	0	4	2	4	0	0	2	6	2	6	2	3	1	1	2	3	1	2	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:118624180C>T	uc001ehk.2	-	14	1916	c.1848G>A	c.(1846-1848)GGG>GGA	p.G616G		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	616						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		GTTTCAGTTTCCCTTTTTCAT	0.438													21	85					0	0	0.008871	0	0		T	118624180	T	T	118624180	2	4	197	1	0	0	0	0	0	0	0	1	15004	842	30	4		4	SPAG17	1	118624180	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	10756810	118624180	130626441	5	97243											
BCL9	607	broad.mit.edu	37	chr1	147095750	147095750	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agccactttctcactccaatCagatgccctctccaaatgcc	10	10	4	17	0	3	1	2	0	2	1	6	1	4	1	5	0	3	0	5	0	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:147095750C>G	uc001epq.2	+	10	4011	c.3271C>G	c.(3271-3273)CAG>GAG	p.Q1091E	BCL9_uc010ozr.1_Missense_Mutation_p.Q1005E	NM_004326	NP_004317	O00512	BCL9_HUMAN	B-cell CLL/lymphoma 9	1091	Pro-rich.				Wnt receptor signaling pathway	nucleus	protein binding			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.115)					TCACTCCAATCAGATGCCCTC	0.537			T	IGH@|IGL@	B-ALL								14	298					0	0	0.020292	0	0		G	147095750	G	G	147095750	3	3	197	1	0	0	0	0	1	0	0	0	1382	827	29	5	3297	5	BCL9	1	147095750	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	28471570	147095750	102154871	6	97244											
OR6Y1	391112	broad.mit.edu	37	chr1	158517100	158517100	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatacatgagtttgggacGggcataggtgaaaagtgtca	12	9	15	5	1	1	2	1	2	0	0	1	3	1	3	0	4	1	3	0	4	4	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:158517100G>A	uc010pil.1	-	1	796	c.796C>T	c.(796-798)CGT>TGT	p.R266C		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	266	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AGTTTGGGACGGGCATAGGTG	0.483													21	103					0	0	0.010504	0	0		A	158517100	A	A	158517100	3	1	197	1	0	0	0	0	1	0	0	0	11232	1116	39	1	183	1	OR6Y1	1	158517100	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	11421350	158517100	90733521	7	97245											
CACNA1E	777	broad.mit.edu	37	chr1	181706750	181706750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agccagcagcatcgccctggCggcagaggaccccgtcctga	8	4	13	16	3	0	2	0	1	0	1	2	3	1	3	5	3	3	3	5	3	0	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:181706750C>T	uc001gow.2	+	23	3677	c.3512C>T	c.(3511-3513)GCG>GTG	p.A1171V	CACNA1E_uc009wxs.2_Missense_Mutation_p.A1059V|CACNA1E_uc001gox.1_Missense_Mutation_p.A397V|CACNA1E_uc009wxt.2_Missense_Mutation_p.A397V	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	1171	Extracellular (Potential).|III.				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						ATCGCCCTGGCGGCAGAGGAC	0.622													86	73					0	0	0.01441	0	0		T	181706750	T	T	181706750	3	4	197	1	0	0	0	0	1	0	0	0	2545	768	27	1	3602	1	CACNA1E	1	181706750	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	23189650	181706750	67543871	8	97246											
IVNS1ABP	10625	broad.mit.edu	37	chr1	185270181	185270181	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcataggagacatgggctttTcgattagctcatcttgttgc	8	14	11	8	1	2	1	1	0	1	1	3	3	2	1	0	2	2	4	0	2	2	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:185270181T>C	uc001grl.2	-	10	1666	c.1043A>G	c.(1042-1044)GAA>GGA	p.E348G	IVNS1ABP_uc001gri.2_Missense_Mutation_p.E8G|IVNS1ABP_uc001grj.2_Missense_Mutation_p.E8G|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.E130G|IVNS1ABP_uc009wyk.2_RNA|IVNS1ABP_uc001grm.2_Missense_Mutation_p.E8G	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	348	Sufficient for AHR interaction and signaling.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						CATGGGCTTTTCGATTAGCTC	0.438													51	36					0	0	0.01441	0	0		C	185270181	C	C	185270181	3	2	197	1	0	0	0	0	1	0	0	0	7946	1783	62	3	909	3	IVNS1ABP	1	185270181	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	3563431	185270181	63980440	9	97247											
SIPA1L2	57568	broad.mit.edu	37	chr1	232615460	232615460	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgtggtatagagagagtgCgtgcccgtggaatcagctga	10	10	15	6	2	1	3	1	1	0	2	1	5	1	4	1	2	3	2	1	2	4	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:232615460C>T	uc001hvg.2	-	5	2156	c.1998G>A	c.(1996-1998)ACG>ACA	p.T666T		NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	666	Rap-GAP.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				AGAGAGAGTGCGTGCCCGTGG	0.433													7	61					0	0	0.00308	0	0		T	232615460	T	T	232615460	2	4	197	1	0	0	0	0	0	0	0	1	14355	755	27	1		1	SIPA1L2	1	232615460	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	47345279	232615460	16635161	10	97248											
OR2G6	391211	broad.mit.edu	37	chr1	248685576	248685576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtagtctttctaattgtccCggtgttactcatcttagtct	6	19	7	9	1	5	0	1	0	4	0	6	0	6	0	1	1	1	2	1	1	4	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr1:248685576C>T	uc001ien.1	+	1	629	c.629C>T	c.(628-630)CCG>CTG	p.P210L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTAATTGTCCCGGTGTTACTC	0.478													14	83					0	0	0.020292	0	0		T	248685576	T	T	248685576	3	4	197	1	0	0	0	0	1	0	0	0	11019	652	23	1	631	1	OR2G6	1	248685576	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	16070116	248685576	565045	11	97249											
GREB1	9687	broad.mit.edu	37	chr2	11750887	11750887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgcggccgccctgatggccGtaagcggcctcccgcagatg	6	5	14	16	6	0	2	0	1	0	1	1	2	1	2	5	3	1	2	5	3	1	1	rs139446036	by1000genomes	TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:11750887G>A	uc002rbk.1	+	18	3040	c.2740G>A	c.(2740-2742)GTA>ATA	p.V914I	GREB1_uc002rbo.1_Missense_Mutation_p.V548I|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	914						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CCTGATGGCCGTAAGCGGCCT	0.632													71	110					0	0	0.01441	0	0		A	11750887	A	A	11750887	3	1	197	1	0	0	0	0	1	0	0	0	6776	1145	40	1	2914	1	GREB1	2	11750887	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		11750887	231448486	12	97250											
OTOF	9381	broad.mit.edu	37	chr2	26684574	26684574	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctctgcacccaggaagtcGtcagcggagaagtggtccgc	8	7	14	12	3	2	1	1	0	1	1	4	3	3	2	2	3	3	2	2	3	2	0	rs145894536	byFrequency	TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:26684574G>A	uc002rhk.2	-	43	5650	c.5523C>T	c.(5521-5523)GAC>GAT	p.D1841D	OTOF_uc010yla.1_Silent_p.D571D|OTOF_uc002rhh.2_Silent_p.D1074D|OTOF_uc002rhi.2_Silent_p.D1151D|OTOF_uc002rhj.2_Silent_p.D1074D	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1841	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCAGGAAGTCGTCAGCGGAGA	0.632													73	33					0	0	0.01441	0	0		A	26684574	A	A	26684574	2	1	197	1	0	0	0	0	0	0	0	1	11322	1136	40	1		1	OTOF	2	26684574	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	14933687	26684574	216514799	13	97251											
OTOF	9381	broad.mit.edu	37	chr2	26702140	26702140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggccctgaccagcttgtCggcaatgtggtccatgatgt	6	11	12	12	1	0	2	0	2	0	0	2	2	1	2	4	3	1	2	4	3	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:26702140C>T	uc002rhk.2	-	18	2333	c.2206G>A	c.(2206-2208)GAC>AAC	p.D736N	OTOF_uc002rhh.2_5'Flank|OTOF_uc002rhi.2_5'Flank|OTOF_uc002rhj.2_5'Flank	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	736	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACCAGCTTGTCGGCAATGTGG	0.642													5	24					0	0	0.001984	0	0		T	26702140	T	T	26702140	3	4	197	1	0	0	0	0	1	0	0	0	11322	884	31	1	4232	1	OTOF	2	26702140	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	17566	26702140	216497233	14	97252											
OTOF	9381	broad.mit.edu	37	chr2	26712138	26712138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccaccagggtgccactgCgcagcaggttcttggagtga	8	7	14	12	1	1	1	0	1	1	0	1	2	1	2	3	3	4	3	3	3	0	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:26712138C>T	uc002rhk.2	-	11	1113	c.986G>A	c.(985-987)CGC>CAC	p.R329H		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	329	Cytoplasmic (Potential).|C2 1.				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGTGCCACTGCGCAGCAGGTT	0.617													30	13					0	0	0.007291	0	0		T	26712138	T	T	26712138	3	4	197	1	0	0	0	0	1	0	0	0	11322	768	27	1	5480	1	OTOF	2	26712138	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	9998	26712138	216487235	15	97253											
XDH	7498	broad.mit.edu	37	chr2	31595105	31595105	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcactcacttgatcttggcGtgggcccgggtgctggtgac	4	11	15	11	2	3	2	2	2	1	0	3	2	3	2	1	4	1	1	1	4	0	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:31595105G>A	uc002rnv.1	-	17	1924	c.1845C>T	c.(1843-1845)CAC>CAT	p.H615H		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	615					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	TGATCTTGGCGTGGGCCCGGG	0.617													41	205					0	0	0.011902	0	0		A	31595105	A	A	31595105	2	1	197	1	0	0	0	0	0	0	0	1	17452	1136	40	1		1	XDH	2	31595105	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	4882967	31595105	211604268	16	97254											
MSH2	4436	broad.mit.edu	37	chr2	47639634	47639634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttatcaggacctcaacCggttgttgaaaggcaaaaag	15	9	9	8	1	2	1	2	1	0	0	2	2	2	2	2	3	1	3	2	3	5	4	rs138857091		TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:47639634C>T	uc002rvy.1	+	4	795	c.727C>T	c.(727-729)CGG>TGG	p.R243W	MSH2_uc010yoh.1_Missense_Mutation_p.R177W|MSH2_uc002rvz.2_Missense_Mutation_p.R243W|MSH2_uc010fbg.2_Missense_Mutation_p.R103W|MSH2_uc010fbf.1_Missense_Mutation_p.R150W	NM_000251	NP_000242	P43246	MSH2_HUMAN	mutS homolog 2	243					B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding			large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GGACCTCAACCGGTTGTTGAA	0.338			D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				19	14					0	0	0.008871	0	0		T	47639634	T	T	47639634	3	4	197	1	0	0	0	0	1	0	0	0	9888	643	23	1	741	1	MSH2	2	47639634	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	16044529	47639634	195559739	17	97255											
LRRTM1	347730	broad.mit.edu	37	chr2	80530432	80530432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgggcacaaactggatggcGttggcccgcatatgcagcgt	9	7	14	11	4	0	0	0	0	0	0	0	1	0	1	1	4	3	4	1	4	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:80530432G>A	uc002sok.1	-	2	783	c.513C>T	c.(511-513)AAC>AAT	p.N171N	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	171	LRR 4.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						ACTGGATGGCGTTGGCCCGCA	0.612										HNSCC(69;0.2)			30	56					0	0	0.00632	0	0		A	80530432	A	A	80530432	2	1	197	1	0	0	0	0	0	0	0	1	9057	1136	40	1		1	LRRTM1	2	80530432	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	32890798	80530432	162668941	18	97256											
GPR45	11250	broad.mit.edu	37	chr2	105859311	105859311	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tggagaatcaaaaaattccgCgaggcctgcatagagttgct	13	9	11	8	2	1	2	1	0	0	2	2	4	2	2	2	2	2	3	2	2	5	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:105859311C>T	uc002tco.1	+	1	1112	c.996C>T	c.(994-996)CGC>CGT	p.R332R		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	332	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						AAAAATTCCGCGAGGCCTGCA	0.552													110	138					0	0	0.01441	0	0		T	105859311	T	T	105859311	2	4	197	1	0	0	0	0	0	0	0	1	6711	755	27	1		1	GPR45	2	105859311	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	25328879	105859311	137340062	19	97257											
NEB	4703	broad.mit.edu	37	chr2	152521048	152521048	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctagaggctcttgcagcCtttattgcaatggcatcagg	8	13	10	10	0	3	1	1	0	2	1	4	1	3	1	1	3	3	4	1	3	3	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:152521048C>T	uc010fnx.2	-	44	5609	c.5418G>A	c.(5416-5418)AAG>AAA	p.K1806K		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1806	Nebulin 47.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTCTTGCAGCCTTTATTGCAA	0.428													6	4					0	0	0.001168	0	0		T	152521048	T	T	152521048	2	4	197	1	0	0	0	0	0	0	0	1	10321	680	24	4		4	NEB	2	152521048	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	46661737	152521048	90678325	20	97258											
TTN	7273	broad.mit.edu	37	chr2	179472320	179472320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttttgtaggtacagggcGaccagtcaccacagctggaa	11	9	11	10	1	1	0	1	0	0	0	1	2	1	1	2	3	3	3	2	3	4	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:179472320G>A	uc010zfg.1	-	226	45615	c.45391C>T	c.(45391-45393)CGC>TGC	p.R15131C	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R8826C|TTN_uc010zfi.1_Missense_Mutation_p.R8759C|TTN_uc010zfj.1_Missense_Mutation_p.R8634C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16058							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity	p.R8634C(1)|p.R15131C(1)		ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTACAGGGCGACCAGTCACC	0.443													37	163					0	0	0.021022	0	0		A	179472320	A	A	179472320	3	1	197	1	0	0	0	0	1	0	0	0	16761	1058	37	1	54942	1	TTN	2	179472320	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	26951272	179472320	63727053	21	97259											
TTN	7273	broad.mit.edu	37	chr2	179483531	179483531	+	Silent	SNP	G	A	A	0	0	1	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	accaccattgtcagaggcttGccaacatcaaccacaaggtc	13	7	7	14	0	2	1	2	0	0	1	3	1	2	1	4	2	3	1	4	2	3	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:179483531G>A	uc010zfg.1	-	200	39266	c.39042C>T	c.(39040-39042)GGC>GGT	p.G13014G	TTN_uc010zfh.1_Silent_p.G6709G|TTN_uc010zfi.1_Silent_p.G6642G|TTN_uc010zfj.1_Silent_p.G6517G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	13941							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAGAGGCTTGCCAACATCAA	0.413													6	26					0	0	0.001168	0	0		A	179483531	A	A	179483531	2	1	197	1	0	0	0	0	0	0	0	1	16761	1306	46	2		2	TTN	2	179483531	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	11211	179483531	63715842	22	97260											
TTN	7273	broad.mit.edu	37	chr2	179501304	179501304	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccgtctttcatccaggttGtaattgcagtggaaggggag	9	12	13	7	1	2	0	1	0	1	0	3	2	3	2	2	4	2	3	2	4	3	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:179501304G>T	uc010zfg.1	-	174	33670	c.33446C>A	c.(33445-33447)ACA>AAA	p.T11149K	TTN_uc010zfh.1_Missense_Mutation_p.T4844K|TTN_uc010zfi.1_Missense_Mutation_p.T4777K|TTN_uc010zfj.1_Missense_Mutation_p.T4652K|TTN_uc010fre.1_Missense_Mutation_p.T1010K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12076							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATCCAGGTTGTAATTGCAGT	0.413													13	54					6.81908e-15	7.44974e-15	0.020292	1	0		T	179501304	T	T	179501304	3	4	197	1	0	0	0	0	1	0	0	0	16761	1377	48	5	67095	5	TTN	2	179501304	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	17773	179501304	63698069	23	97261											
TNS1	7145	broad.mit.edu	37	chr2	218700881	218700881	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtccatcactggccgcccGcctccgcagaggggctgggg	4	6	15	16	3	1	1	1	0	0	1	3	1	3	1	5	5	0	2	5	5	0	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:218700881G>A	uc002vgt.2	-	18	3084	c.2686C>T	c.(2686-2688)CGG>TGG	p.R896W	TNS1_uc002vgr.2_Missense_Mutation_p.R896W|TNS1_uc002vgs.2_Missense_Mutation_p.R896W|TNS1_uc010zjv.1_Missense_Mutation_p.R896W	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	896						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CTGGCCGCCCGCCTCCGCAGA	0.617													20	88					0	0	0.008871	0	0		A	218700881	A	A	218700881	3	1	197	1	0	0	0	0	1	0	0	0	16368	1086	38	1	2585	1	TNS1	2	218700881	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	39199577	218700881	24498492	24	97262											
STK36	27148	broad.mit.edu	37	chr2	219558685	219558685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctcccttcttgtctttcGgctccaaaacctgccttgtg	4	15	6	16	1	3	0	0	0	3	0	6	0	4	0	5	1	2	1	5	1	2	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:219558685G>A	uc002viu.2	+	19	2581	c.2315G>A	c.(2314-2316)CGG>CAG	p.R772Q	STK36_uc002viv.2_Missense_Mutation_p.R772Q|STK36_uc002viw.2_5'Flank|STK36_uc002vix.2_5'Flank	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	772					cilium assembly|positive regulation of hh target transcription factor activity|positive regulation of smoothened signaling pathway|post-embryonic development	aggresome|cytoplasm|focal adhesion|intermediate filament cytoskeleton|nucleus	ATP binding|protein serine/threonine kinase activity|transcription factor binding			ovary(4)|stomach(2)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	11		Renal(207;0.0915)		Epithelial(149;9.65e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00984)		CTTGTCTTTCGGCTCCAAAAC	0.438													31	41					0	0	0.012213	0	0		A	219558685	A	A	219558685	3	1	197	1	0	0	0	0	1	0	0	0	15327	1116	39	1	2385	1	STK36	2	219558685	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	857804	219558685	23640688	25	97263											
DOCK10	55619	broad.mit.edu	37	chr2	225669928	225669928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaattctctttaccgtacGaaatcgttttcataatgtga	13	15	6	7	3	2	2	1	1	1	1	4	3	2	2	1	0	2	2	1	0	6	7			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:225669928G>A	uc010fwz.1	-	36	4285	c.4046C>T	c.(4045-4047)TCG>TTG	p.S1349L	DOCK10_uc002vob.2_Missense_Mutation_p.S1343L|DOCK10_uc002voa.2_Missense_Mutation_p.S5L|DOCK10_uc002voc.2_Missense_Mutation_p.S203L	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1349							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		TTTACCGTACGAAATCGTTTT	0.363													15	73					0	0	0.020292	0	0		A	225669928	A	A	225669928	3	1	197	1	0	0	0	0	1	0	0	0	4691	1059	37	1	2598	1	DOCK10	2	225669928	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	6111243	225669928	17529445	26	97264											
COL6A3	1293	broad.mit.edu	37	chr2	238259791	238259791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctttcttcccagtggaccGgttctgcctcgttctccagg	4	13	9	15	2	3	0	0	0	3	0	6	1	4	1	5	3	1	2	5	3	0	4	rs116541926	by1000genomes	TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr2:238259791G>A	uc002vwl.2	-	27	7083	c.6798C>T	c.(6796-6798)ACC>ACT	p.T2266T	COL6A3_uc002vwo.2_Silent_p.T2060T|COL6A3_uc010znj.1_Silent_p.T1659T|COL6A3_uc002vwp.1_Silent_p.T87T	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2266	Triple-helical region.|Collagen-like 4.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CCAGTGGACCGGTTCTGCCTC	0.577													49	77					0	0	0.01441	0	0		A	238259791	A	A	238259791	2	1	197	1	0	0	0	0	0	0	0	1	3704	1103	39	1		1	COL6A3	2	238259791	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	12589863	238259791	4939582	27	97265											
SEMA3F	6405	broad.mit.edu	37	chr3	50224175	50224175	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatcctggtgaccggcgccGagaggtgagttcctgcgccc	6	7	15	13	4	0	4	0	2	0	2	2	5	2	4	5	3	1	1	5	3	0	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr3:50224175G>A	uc003cyj.2	+	18	2141	c.1943G>A	c.(1942-1944)CGA>CAA	p.R648Q	SEMA3F_uc003cyk.2_Missense_Mutation_p.R617Q	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	648	Ig-like C2-type.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		GACCGGCGCCGAGAGGTGAGT	0.612													4	22					0	0	0.009096	0	0		A	50224175	A	A	50224175	3	1	197	1	0	0	0	0	1	0	0	0	14054	1058	37	1	2009	1	SEMA3F	3	50224175	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		50224175	147798255	28	97266											
FLNB	2317	broad.mit.edu	37	chr3	58064475	58064475	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactgggaatcctgggacccGcagaagcctgtggataatgc	10	7	14	10	1	0	1	0	0	0	1	1	5	1	4	3	3	2	1	3	3	3	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr3:58064475G>A	uc003djj.2	+	3	738	c.573G>A	c.(571-573)CCG>CCA	p.P191P	FLNB_uc010hne.2_Silent_p.P191P|FLNB_uc003djk.2_Silent_p.P191P|FLNB_uc010hnf.2_Silent_p.P191P|FLNB_uc003djl.2_Silent_p.P22P|FLNB_uc003djm.2_Silent_p.P22P	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	191	CH 2.|Actin-binding.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		CCTGGGACCCGCAGAAGCCTG	0.517													8	14					0	0	0.006214	0	0		A	58064475	A	A	58064475	2	1	197	1	0	0	0	0	0	0	0	1	5948	1074	38	1		1	FLNB	3	58064475	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	7840300	58064475	139957955	29	97267											
PLCXD2	257068	broad.mit.edu	37	chr3	111432935	111432935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagagtgaagaccattgccCggggcttggttgggggcctc	6	8	16	11	1	0	3	0	1	0	2	1	3	0	3	4	5	1	2	4	5	1	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr3:111432935C>T	uc003dya.2	+	3	1412	c.826C>T	c.(826-828)CGG>TGG	p.R276W	PLCXD2_uc003dyb.2_Missense_Mutation_p.R276W|PLCXD2_uc003dxz.2_Missense_Mutation_p.R276W	NM_001134478	NP_001127950	Q0VAA5	PLCX2_HUMAN	phosphatidylinositol-specific phospholipase C, X	276					intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(1)	1						GACCATTGCCCGGGGCTTGGT	0.502													22	29					0	0	0.014323	0	0		T	111432935	T	T	111432935	3	4	197	1	0	0	0	0	1	0	0	0	12061	643	23	1	836	1	PLCXD2	3	111432935	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	53368460	111432935	86589495	30	97268											
CLSTN2	64084	broad.mit.edu	37	chr3	140281655	140281655	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgtggtctcttggcacaggtGtgggctccatgagccgctat	5	12	14	10	1	1	1	0	1	1	0	3	1	2	1	2	4	1	3	2	4	1	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr3:140281655G>A	uc003etn.2	+	14	2405	c.2215G>A	c.(2215-2217)GTG>ATG	p.V739M		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	739	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TGGCACAGGTGTGGGCTCCAT	0.572										HNSCC(16;0.037)			24	34					0	0	0.021523	0	0		A	140281655	A	A	140281655	3	1	197	1	0	0	0	0	1	0	0	0	3565	1377	48	4	2269	4	CLSTN2	3	140281655	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	28848720	140281655	57740775	31	97269											
ACOX3	8310	broad.mit.edu	37	chr4	8401309	8401309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggctgacataggtgccctCgggggtgacgtctcccatcc	5	8	15	13	2	1	2	0	2	1	0	4	2	2	2	3	5	1	1	3	5	1	1	rs142830697		TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr4:8401309C>T	uc010idk.2	-	8	992	c.847G>A	c.(847-849)GAG>AAG	p.E283K	ACOX3_uc003glc.3_Missense_Mutation_p.E283K|ACOX3_uc003gld.3_Missense_Mutation_p.E283K|ACOX3_uc003gle.1_Missense_Mutation_p.E188K	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	283					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						TAGGTGCCCTCGGGGGTGACG	0.607													16	61					0	0	0.007413	0	0		T	8401309	T	T	8401309	3	4	197	1	0	0	0	0	1	0	0	0	160	893	31	1	1299	1	ACOX3	4	8401309	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08		8401309	182752967	32	97270											
DRD5	1816	broad.mit.edu	37	chr4	9783986	9783986	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttactggccctttggagcGttctgcgacgtctgggtggc	3	12	16	10	3	2	0	0	0	2	0	2	2	2	1	1	5	3	2	1	5	1	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr4:9783986G>A	uc003gmb.3	+	1	729	c.333G>A	c.(331-333)GCG>GCA	p.A111A		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	111	Extracellular (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CCTTTGGAGCGTTCTGCGACG	0.617													13	50					0	0	0.016723	0	0		A	9783986	A	A	9783986	2	1	197	1	0	0	0	0	0	0	0	1	4766	1132	40	1		1	DRD5	4	9783986	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	1382677	9783986	181370290	33	97271											
GRID2	2895	broad.mit.edu	37	chr4	93225854	93225854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttgtccgtctggtggtctcGaacctgggactcggcgaatg	5	12	14	10	4	2	0	0	0	2	0	5	3	3	1	2	4	1	0	2	4	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr4:93225854G>A	uc011cdt.1	+	1	305	c.47G>A	c.(46-48)CGA>CAA	p.R16Q	GRID2_uc010ikx.2_Missense_Mutation_p.R16Q|GRID2_uc011cdu.1_Missense_Mutation_p.R16Q	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	16					glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	TGGTGGTCTCGAACCTGGGAC	0.443													13	40					0	0	0.016723	0	0		A	93225854	A	A	93225854	3	1	197	1	0	0	0	0	1	0	0	0	6788	1058	37	1	49	1	GRID2	4	93225854	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	83441868	93225854	97928422	34	97272											
ANK2	287	broad.mit.edu	37	chr4	114254239	114254239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtggagatccctcactttgCggcccttcgaggaaaggaaa	10	8	12	11	3	1	1	1	0	0	1	3	5	2	3	2	4	1	0	2	4	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr4:114254239C>T	uc003ibe.3	+	29	3354	c.3254C>T	c.(3253-3255)GCG>GTG	p.A1085V	ANK2_uc003ibd.3_Missense_Mutation_p.A1076V|ANK2_uc003ibf.3_Missense_Mutation_p.A1085V|ANK2_uc011cgc.1_Missense_Mutation_p.A261V|ANK2_uc003ibg.3_Missense_Mutation_p.A80V|ANK2_uc003ibc.2_Missense_Mutation_p.A1061V|ANK2_uc011cgb.1_Missense_Mutation_p.A1100V	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1052	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CCTCACTTTGCGGCCCTTCGA	0.502													52	55					0	0	0.01441	0	0		T	114254239	T	T	114254239	3	4	197	1	0	0	0	0	1	0	0	0	621	768	27	1	3433	1	ANK2	4	114254239	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	21028385	114254239	76900037	35	97273											
KIAA1109	84162	broad.mit.edu	37	chr4	123252601	123252601	+	Silent	SNP	C	T	T	0	0	0	1	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	gctacagagagaaatattgaCtttgaacttgatatacgggt	14	12	10	5	1	0	5	0	3	0	2	0	6	0	5	0	1	3	1	0	1	6	7			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr4:123252601C>T	uc003ieh.2	+	65	11415	c.11370C>T	c.(11368-11370)GAC>GAT	p.D3790D	KIAA1109_uc003iem.2_Silent_p.D181D	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3790					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GAAATATTGACTTTGAACTTG	0.408													5	13					0	0	0.014758	0	0		T	123252601	T	T	123252601	2	4	197	1	0	0	0	0	0	0	0	1	8224	564	20	4		4	KIAA1109	4	123252601	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	8998362	123252601	67901675	36	97274											
IRX1	79192	broad.mit.edu	37	chr5	3600242	3600242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatgcgctccttcctgggcGttggcgctccccacgccgcg	3	8	12	18	6	0	0	0	0	0	0	3	0	3	0	5	2	1	3	5	2	0	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:3600242G>A	uc003jde.2	+	2	1232	c.1180G>A	c.(1180-1182)GTT>ATT	p.V394I		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	394						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CTTCCTGGGCGTTGGCGCTCC	0.657													43	21					0	0	0.01441	0	0		A	3600242	A	A	3600242	3	1	197	1	0	0	0	0	1	0	0	0	7859	1145	40	1	1186	1	IRX1	5	3600242	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		3600242	177315018	37	97275											
IL6ST	3572	broad.mit.edu	37	chr5	55237554	55237554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	caatgatttcagatcttctgGaaaaggctttttgtcatttg	10	17	8	6	0	4	2	2	1	2	1	4	3	4	3	0	2	0	1	0	2	3	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:55237554G>A	uc003jqq.2	-	17	2368	c.2113C>T	c.(2113-2115)CCA>TCA	p.P705S	uc003jqp.2_5'Flank|IL6ST_uc010iwb.2_Missense_Mutation_p.P644S|IL6ST_uc010iwc.2_3'UTR|IL6ST_uc010iwd.2_Missense_Mutation_p.P24S|IL6ST_uc011cqk.1_Missense_Mutation_p.P416S|IL6ST_uc003jqr.2_3'UTR	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	705	Cytoplasmic (Potential).				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				AGATCTTCTGGAAAAGGCTTT	0.358			O		hepatocellular ca								7	79					0	0	0.001984	0	0		A	55237554	A	A	55237554	3	1	197	1	0	0	0	0	1	0	0	0	7719	1174	41	4	647	4	IL6ST	5	55237554	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	51637312	55237554	125677706	38	97276											
VCAN	1462	broad.mit.edu	37	chr5	82836187	82836187	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcaaccagacaagaaagCagcaccacatttgtttctga	15	7	8	11	0	1	3	0	1	1	2	1	3	1	3	2	1	3	4	2	1	3	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:82836187C>A	uc003kii.3	+	8	7721	c.7365C>A	c.(7363-7365)AGC>AGA	p.S2455R	VCAN_uc003kij.3_Missense_Mutation_p.S1468R|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.S1119R	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2455	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GACAAGAAAGCAGCACCACAT	0.448													42	26					4.67007e-22	5.19201e-22	0.00874	1	0		A	82836187	A	A	82836187	3	1	197	1	0	0	0	0	1	0	0	0	17164	709	25	5	7391	5	VCAN	5	82836187	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	27598633	82836187	98079073	39	97277											
VCAN	1462	broad.mit.edu	37	chr5	82836404	82836404	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaccgtttcagggaattcGaggattccaccttaaaacct	13	10	8	10	2	1	1	1	0	0	1	3	4	2	3	4	2	1	1	4	2	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:82836404G>A	uc003kii.3	+	8	7938	c.7582G>A	c.(7582-7584)GAG>AAG	p.E2528K	VCAN_uc003kij.3_Missense_Mutation_p.E1541K|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.E1192K	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2528	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		CAGGGAATTCGAGGATTCCAC	0.408													31	12					0	0	0.009535	0	0		A	82836404	A	A	82836404	3	1	197	1	0	0	0	0	1	0	0	0	17164	1059	37	1	7608	1	VCAN	5	82836404	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	217	82836404	98078856	40	97278											
DMXL1	1657	broad.mit.edu	37	chr5	118533640	118533640	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctttactggaacctacaaaCactcctttcaagtaggtttt	11	14	6	10	0	1	0	1	0	0	0	2	1	2	1	2	2	4	3	2	2	6	7			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:118533640C>T	uc003ksd.2	+	32	7915	c.7734C>T	c.(7732-7734)AAC>AAT	p.N2578N	DMXL1_uc010jcl.1_Silent_p.N2578N	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2578										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		AACCTACAAACACTCCTTTCA	0.308													16	107					0	0	0.003163	0	0		T	118533640	T	T	118533640	2	4	197	1	0	0	0	0	0	0	0	1	4600	477	17	4		4	DMXL1	5	118533640	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	35697236	118533640	62381620	41	97279											
ZNF474	133923	broad.mit.edu	37	chr5	121488536	121488536	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaccaaatcaagctcagcTtgtgttctgcccacattgta	10	11	9	11	0	3	0	2	0	1	0	3	1	3	1	2	1	3	4	2	1	3	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:121488536T>C	uc003ksv.2	+	2	1227	c.851T>C	c.(850-852)CTT>CCT	p.L284P		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	284						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		CAAGCTCAGCTTGTGTTCTGC	0.527													14	70					0	0	0.016723	0	0		C	121488536	C	C	121488536	3	2	197	1	0	0	0	0	1	0	0	0	17957	1609	56	3	853	3	ZNF474	5	121488536	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	2954896	121488536	59426724	42	97280											
NEUROG1	4762	broad.mit.edu	37	chr5	134871035	134871035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacgagggcagcacgctgcGcagtgcgtccagggccgcgt	7	4	17	13	6	0	0	0	0	0	0	1	2	1	0	2	2	4	4	2	2	1	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:134871035G>A	uc003lax.2	-	1	605	c.346C>T	c.(346-348)CGC>TGC	p.R116C		NM_006161	NP_006152	Q92886	NGN1_HUMAN	neurogenin 1	116	Helix-loop-helix motif.				positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter	nucleus	chromatin binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			AGCACGCTGCGCAGTGCGTCC	0.657													5	25					0	0	0.014758	0	0		A	134871035	A	A	134871035	3	1	197	1	0	0	0	0	1	0	0	0	10371	1087	38	1	371	1	NEUROG1	5	134871035	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	13382499	134871035	46044225	43	97281											
PCDHB3	56132	broad.mit.edu	37	chr5	140482078	140482078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccacggagcccgggctgttCggcgtgtgggcgcacaatgg	5	6	18	12	5	0	0	0	0	0	0	1	1	0	1	2	5	1	3	2	5	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:140482078C>T	uc003lio.2	+	1	1845	c.1845C>T	c.(1843-1845)TTC>TTT	p.F615F	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	615	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCGGGCTGTTCGGCGTGTGGG	0.692													12	169					0	0	0.016723	0	0		T	140482078	T	T	140482078	2	4	197	1	0	0	0	0	0	0	0	1	11562	883	31	1		1	PCDHB3	5	140482078	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	5611043	140482078	40433182	44	97282											
C1QTNF2	114898	broad.mit.edu	37	chr5	159776631	159776631	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	caggggcctgggaggcctggCtcccccttcttgcccttggg	2	9	15	15	0	1	0	0	0	1	0	2	1	2	1	5	6	1	1	5	6	0	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr5:159776631C>A	uc003lyd.2	-	3	541	c.537G>T	c.(535-537)GAG>GAT	p.E179D		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	134	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGAGGCCTGGCTCCCCCTTCT	0.677													41	239					1.8453e-21	2.03954e-21	0.010771	1	0		A	159776631	A	A	159776631	3	1	197	1	0	0	0	0	1	0	0	0	1966	796	28	5	459	5	C1QTNF2	5	159776631	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	19294553	159776631	21138629	45	97283											
RNF182	221687	broad.mit.edu	37	chr6	13977379	13977379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaacctcctgaagacactgCggagtctcaggcctctgatg	9	9	10	13	1	3	3	2	2	2	1	5	4	4	4	3	2	2	0	3	2	2	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr6:13977379C>T	uc003nbe.2	+	3	447	c.29C>T	c.(28-30)GCG>GTG	p.A10V	RNF182_uc003nbf.2_Missense_Mutation_p.A10V|RNF182_uc003nbg.2_Missense_Mutation_p.A10V	NM_152737	NP_689950	Q8N6D2	RN182_HUMAN	ring finger protein 182	10						cytoplasm|integral to membrane|intracellular membrane-bounded organelle	protein binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Breast(50;0.00405)|Ovarian(93;0.0964)	all_hematologic(90;0.135)	Epithelial(50;0.195)			GAAGACACTGCGGAGTCTCAG	0.468													24	100					0	0	0.01892	0	0		T	13977379	T	T	13977379	3	4	197	1	0	0	0	0	1	0	0	0	13491	768	27	1	31	1	RNF182	6	13977379	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08		13977379	157137688	46	97284											
BTN1A1	696	broad.mit.edu	37	chr6	26501921	26501921	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgcgagcgccgagcacttGgagctacgctggttccgaaa	10	6	13	12	6	0	0	0	0	0	0	1	4	1	1	2	2	5	4	2	2	3	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr6:26501921G>T	uc003nif.3	+	2	203	c.183G>T	c.(181-183)TTG>TTT	p.L61F		NM_001732	NP_001723	Q13410	BT1A1_HUMAN	butyrophilin, subfamily 1, member A1 precursor	61	Extracellular (Potential).|Ig-like V-type 1.					extracellular region|integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						CCGAGCACTTGGAGCTACGCT	0.677													5	57					0.00116845	0.00118094	0.001168	1	0		T	26501921	T	T	26501921	3	4	197	1	0	0	0	0	1	0	0	0	1562	1339	47	5	189	5	BTN1A1	6	26501921	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	12524542	26501921	144613146	47	97285											
SCAND3	114821	broad.mit.edu	37	chr6	28543893	28543893	+	Missense_Mutation	SNP	T	C	C	0	1	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	acccatgctttgagacatcaTggaaaaccacaaaaatgacc	17	7	6	11	0	1	2	1	2	0	1	1	4	1	3	3	1	2	1	3	1	4	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr6:28543893T>C	uc003nlo.2	-	3	1207	c.589A>G	c.(589-591)ATG>GTG	p.M197V		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	197					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGAGACATCATGGAAAACCAC	0.333													6	20					0	0	0.001168	0	0		C	28543893	C	C	28543893	3	2	197	1	0	0	0	0	1	0	0	0	13901	1464	51	3	3396	3	SCAND3	6	28543893	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	2041972	28543893	142571174	48	97286											
GRM4	2914	broad.mit.edu	37	chr6	34004261	34004261	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtaccctgtgcaaggctcGcagtgccagcagcaaggcat	9	7	13	12	1	0	0	0	0	0	0	1	0	0	0	2	3	5	7	2	3	3	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr6:34004261G>A	uc003oir.3	-	8	1796	c.1626C>T	c.(1624-1626)TGC>TGT	p.C542C	GRM4_uc011dsn.1_Silent_p.C495C|GRM4_uc010jvh.2_Silent_p.C542C|GRM4_uc010jvi.2_Silent_p.C234C|GRM4_uc003oio.2_Silent_p.C234C|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Silent_p.C402C|GRM4_uc003oiq.2_Silent_p.C409C|GRM4_uc011dsm.1_Silent_p.C373C	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	542	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TGCAAGGCTCGCAGTGCCAGC	0.657													39	33					0	0	0.006999	0	0		A	34004261	A	A	34004261	2	1	197	1	0	0	0	0	0	0	0	1	6815	1079	38	1		1	GRM4	6	34004261	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	5460368	34004261	137110806	49	97287											
SYNE1	23345	broad.mit.edu	37	chr6	152563500	152563500	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtagggccctctcatactGactcttgagtgtaaggttct	7	15	10	9	0	3	2	1	2	3	0	4	2	3	2	1	2	1	3	1	2	3	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr6:152563500G>A	uc010kiw.2	-	107	20370	c.19768C>T	c.(19768-19770)CAG>TAG	p.Q6590*	SYNE1_uc010kiv.2_Nonsense_Mutation_p.Q1114*|SYNE1_uc003qos.3_Nonsense_Mutation_p.Q1114*|SYNE1_uc003qot.3_Nonsense_Mutation_p.Q6519*|SYNE1_uc003qou.3_Nonsense_Mutation_p.Q6590*	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6590	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTCTCATACTGACTCTTGAGT	0.478										HNSCC(10;0.0054)			20	74					0	0	0.008871	0	0		A	152563500	A	A	152563500	4	1	197	1	0	0	0	0	0	1	0	0	15470	1299	45	4	6858	4	SYNE1	6	152563500	Nonsense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	118559239	152563500	18551567	50	97288											
MYCT1	80177	broad.mit.edu	37	chr6	153043291	153043291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttcccacagtctgagccGtcctgactactggtccagta	8	10	8	15	1	1	2	0	2	1	0	4	2	4	2	4	1	2	1	4	1	2	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr6:153043291G>A	uc003qpd.3	+	2	619	c.611G>A	c.(610-612)CGT>CAT	p.R204H	MYCT1_uc010kjc.1_Missense_Mutation_p.R156H|MYCT1_uc003qpc.3_Missense_Mutation_p.R204H	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	204						nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		AGTCTGAGCCGTCCTGACTAC	0.532													20	83					0	0	0.008871	0	0		A	153043291	A	A	153043291	3	1	197	1	0	0	0	0	1	0	0	0	10040	1145	40	1	617	1	MYCT1	6	153043291	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	479791	153043291	18071776	51	97289											
FNDC1	84624	broad.mit.edu	37	chr6	159677562	159677562	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccattttcaggttacttGgtttacagtgcatcctatga	8	18	7	8	0	1	1	1	1	0	0	3	1	3	1	2	2	3	3	2	2	3	8			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr6:159677562G>T	uc010kjv.2	+	18	5273	c.5073G>T	c.(5071-5073)TTG>TTT	p.L1691F		NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1691	Fibronectin type-III 5.					extracellular region				large_intestine(4)|ovary(3)|central_nervous_system(1)	8		Breast(66;0.000781)|Ovarian(120;0.0308)|Prostate(117;0.195)		OV - Ovarian serous cystadenocarcinoma(65;2.6e-16)|BRCA - Breast invasive adenocarcinoma(81;1.06e-05)		CAGGTTACTTGGTTTACAGTG	0.458													20	70					4.96729e-08	5.21565e-08	0.008871	1	0		T	159677562	T	T	159677562	3	4	197	1	0	0	0	0	1	0	0	0	5982	1339	47	5	5143	5	FNDC1	6	159677562	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	6634271	159677562	11437505	52	97290											
POM121	9883	broad.mit.edu	37	chr7	72418975	72418975	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagggtcttccacggagagGacaggcatcttcctttccca	8	9	10	14	1	2	1	0	0	2	1	5	3	5	2	4	4	0	1	4	4	0	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr7:72418975G>A	uc010lam.1	+	16	4007	c.2966G>A	c.(2965-2967)GGA>GAA	p.G989E	NSUN5P2_uc003twl.2_RNA|NSUN5P2_uc003twm.2_Missense_Mutation_p.S275F|NSUN5P2_uc003twn.2_Missense_Mutation_p.S299F|NSUN5P2_uc003two.2_Missense_Mutation_p.S299F|NSUN5P2_uc003twq.2_3'UTR|NSUN5P2_uc010lan.1_3'UTR|NSUN5P2_uc003twp.2_3'UTR	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	Error:Variant_position_missing_in_Q96HA1_after_alignment					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				CCACGGAGAGGACAGGCATCT	0.572													24	178					0	0	0.016522	0	0		A	72418975	A	A	72418975	3	1	197	1	0	0	0	0	1	0	0	0	12258	1189	41	4		4	POM121	7	72418975	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		72418975	86719688	53	97291											
MAGI2	9863	broad.mit.edu	37	chr7	77789454	77789454	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgcaggctgtgggaggcGaagccttcagggggagaggc	7	6	20	8	1	2	1	1	0	1	1	2	4	2	2	1	6	2	2	1	6	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr7:77789454G>A	uc003ugx.2	-	16	2987	c.2733C>T	c.(2731-2733)TTC>TTT	p.F911F	MAGI2_uc003ugy.2_Silent_p.F897F|MAGI2_uc010ldx.1_Silent_p.F504F	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	911						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGTGGGAGGCGAAGCCTTCAG	0.577													25	65					0	0	0.01892	0	0		A	77789454	A	A	77789454	2	1	197	1	0	0	0	0	0	0	0	1	9209	1049	37	1		1	MAGI2	7	77789454	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	5370479	77789454	81349209	54	97292											
SEMA3C	10512	broad.mit.edu	37	chr7	80432050	80432050	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagcctcgcctttaagaAagtggtccacttgttgacaa	11	10	8	12	1	0	2	0	1	0	1	2	2	1	2	4	1	1	1	4	1	3	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr7:80432050A>C	uc003uhj.2	-	9	1409	c.847T>G	c.(847-849)TTC>GTC	p.F283V	SEMA3C_uc011kgw.1_Missense_Mutation_p.F301V|SEMA3C_uc011kgx.1_Missense_Mutation_p.F135V	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	283	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						GCCTTTAAGAAAGTGGTCCAC	0.393													22	69					0	0	0.014323	0	0		C	80432050	C	C	80432050	3	2	197	1	0	0	0	0	1	0	0	0	14051	14	1	5	1448	5	SEMA3C	7	80432050	Missense_Mutation	SNP	A	TCGA-FP-8099-01A-11D-2340-08	2642596	80432050	78706613	55	97293											
RELN	5649	broad.mit.edu	37	chr7	103234184	103234184	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctcgagttactgcaaatCgatctccatctgattttcca	11	14	5	11	2	3	1	0	1	3	0	7	3	4	1	2	0	2	2	2	0	3	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr7:103234184C>A	uc003vca.2	-	27	4017	c.3857G>T	c.(3856-3858)CGA>CTA	p.R1286L	RELN_uc010liz.2_Missense_Mutation_p.R1286L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1286					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TACTGCAAATCGATCTCCATC	0.403													5	83					0.000602214	0.000615235	0.014758	1	0		A	103234184	A	A	103234184	3	1	197	1	0	0	0	0	1	0	0	0	13245	884	31	5	6681	5	RELN	7	103234184	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	22802134	103234184	55904479	56	97294											
SLC26A4	5172	broad.mit.edu	37	chr7	107334909	107334909	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcttgccctggggaagcttcTggaacccttgcagaaggtat	8	11	12	10	0	2	1	0	0	2	1	2	3	2	3	2	4	4	3	2	4	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr7:107334909T>C	uc003vep.2	+	11	1549	c.1325T>C	c.(1324-1326)CTG>CCG	p.L442P	SLC26A4_uc011kmb.1_Missense_Mutation_p.L29P|SLC26A4_uc011kmc.1_Intron|SLC26A4_uc011kmd.1_Missense_Mutation_p.L11P	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	442	Helical; (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						GGGAAGCTTCTGGAACCCTTG	0.458									Pendred_syndrome				39	39					0	0	0.005524	0	0		C	107334909	C	C	107334909	3	2	197	1	0	0	0	0	1	0	0	0	14544	1580	55	3	1363	3	SLC26A4	7	107334909	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	4100725	107334909	51803754	57	97295											
FLNC	2318	broad.mit.edu	37	chr7	128494556	128494556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcgagggcgaggacagcGcctacagcgtgcgctttgtg	6	8	16	11	6	0	0	0	0	0	0	2	3	0	1	1	2	4	1	1	2	1	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr7:128494556G>A	uc003vnz.3	+	41	7026	c.6817G>A	c.(6817-6819)GCC>ACC	p.A2273T	FLNC_uc003voa.3_Missense_Mutation_p.A2240T	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2273	Filamin 20.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CGAGGACAGCGCCTACAGCGT	0.632													16	16					0	0	0.003163	0	0		A	128494556	A	A	128494556	3	1	197	1	0	0	0	0	1	0	0	0	5949	1087	38	1	6979	1	FLNC	7	128494556	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	21159647	128494556	30644107	58	97296											
MAK16	84549	broad.mit.edu	37	chr8	33353133	33353133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagagactgaaacaagataCggtgagaaagccattagctt	16	7	12	6	1	0	4	0	2	0	3	0	7	0	5	1	2	4	1	1	2	5	3	rs150362163		TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr8:33353133C>T	uc003xjj.2	+	7	561	c.521C>T	c.(520-522)ACG>ATG	p.T174M	C8orf41_uc010lvu.1_Intron	NM_032509	NP_115898	Q9BXY0	MAK16_HUMAN	MAK16 homolog	174						nucleolus				ovary(1)	1						AAACAAGATACGGTGAGAAAG	0.343													14	45					0	0	0.003163	0	0		T	33353133	T	T	33353133	3	4	197	1	0	0	0	0	1	0	0	0	9216	550	19	1	547	1	MAK16	8	33353133	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08		33353133	113010889	59	97297											
GRHL2	79977	broad.mit.edu	37	chr8	102570941	102570941	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tttgaacagactcagtatgaCgtgccctcgctggccaccca	9	9	9	14	2	1	3	1	2	0	1	2	3	1	3	3	1	2	2	3	1	2	2	rs144668624		TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr8:102570941C>T	uc010mbu.2	+	4	909	c.579C>T	c.(577-579)GAC>GAT	p.D193D	GRHL2_uc011lhi.1_Silent_p.D193D	NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	193						cytoplasm|nucleus	DNA binding			ovary(2)|skin(1)	3	all_cancers(14;4.39e-08)|all_epithelial(15;4.09e-10)|Lung NSC(17;7.11e-06)|all_lung(17;1.44e-05)		Epithelial(11;5.81e-09)|all cancers(13;3.81e-07)|OV - Ovarian serous cystadenocarcinoma(57;0.000213)			CTCAGTATGACGTGCCCTCGC	0.567													27	112					0	0	0.005443	0	0		T	102570941	T	T	102570941	2	4	197	1	0	0	0	0	0	0	0	1	6780	535	19	1		1	GRHL2	8	102570941	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	69217808	102570941	43793081	60	97298											
SYBU	55638	broad.mit.edu	37	chr8	110588230	110588230	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgggacttaagctccacGatttcactttccctagagtg	9	12	9	11	1	1	1	1	0	0	1	3	3	3	2	2	1	2	2	2	1	2	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr8:110588230G>T	uc003ynj.3	-	7	1060	c.897C>A	c.(895-897)ATC>ATA	p.I299I	SYBU_uc003yni.3_Silent_p.I296I|SYBU_uc003ynk.3_Silent_p.I180I|SYBU_uc010mco.2_Silent_p.I298I|SYBU_uc003ynl.3_Silent_p.I298I|SYBU_uc010mcp.2_Silent_p.I299I|SYBU_uc010mcq.2_Silent_p.I299I|SYBU_uc003yno.3_Silent_p.I180I|SYBU_uc010mcr.2_Silent_p.I299I|SYBU_uc003ynm.3_Silent_p.I298I|SYBU_uc003ynn.3_Silent_p.I298I|SYBU_uc010mcs.2_Silent_p.I180I|SYBU_uc010mct.2_Silent_p.I299I|SYBU_uc010mcu.2_Silent_p.I298I|SYBU_uc003ynp.3_Silent_p.I231I|SYBU_uc010mcv.2_Silent_p.I299I|SYBU_uc003ynh.3_Silent_p.I93I|SYBU_uc011lhw.1_Silent_p.I169I	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	299	Potential.|Sufficient for interaction with KIF5B.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						TAAGCTCCACGATTTCACTTT	0.463													12	101					0.000978159	0.000993936	0.010729	1	0		T	110588230	T	T	110588230	2	4	197	1	0	0	0	0	0	0	0	1	15452	1048	37	5		5	SYBU	8	110588230	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	8017289	110588230	35775792	61	97299											
ADCY8	114	broad.mit.edu	37	chr8	131793086	131793086	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatactgtggtttcttagcGccgataacgccagctaccac	9	11	8	13	3	2	0	1	0	1	0	2	1	2	0	3	1	5	2	3	1	4	5	rs145809062		TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr8:131793086G>A	uc003ytd.3	-	18	3562	c.3306C>T	c.(3304-3306)GGC>GGT	p.G1102G	ADCY8_uc010mds.2_Silent_p.G971G	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1102	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GTTTCTTAGCGCCGATAACGC	0.567										HNSCC(32;0.087)			72	255					0	0	0.01441	0	0		A	131793086	A	A	131793086	2	1	197	1	0	0	0	0	0	0	0	1	300	1074	38	1		1	ADCY8	8	131793086	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	21204856	131793086	14570936	62	97300											
TG	7038	broad.mit.edu	37	chr8	133882060	133882060	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcaggcagccaggacGgcctgtggcttgtaagtggg	7	6	19	9	1	0	0	0	0	0	0	0	1	0	1	2	6	2	5	2	6	1	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr8:133882060G>A	uc003ytw.2	+	3	304	c.263G>A	c.(262-264)CGG>CAG	p.R88Q		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	88	Thyroglobulin type-1 1.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CAGCCAGGACGGCCTGTGGCT	0.622													19	90					0	0	0.006122	0	0		A	133882060	A	A	133882060	3	1	197	1	0	0	0	0	1	0	0	0	15838	1116	39	1	273	1	TG	8	133882060	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	2088974	133882060	12481962	63	97301											
RANBP6	26953	broad.mit.edu	37	chr9	6015438	6015438	+	Missense_Mutation	SNP	A	G	G	1	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	aacctgctcttctatttctgAcggcatctaagaggaaggta	11	12	9	9	1	4	2	0	1	4	1	4	3	4	3	1	3	2	3	1	3	5	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr9:6015438A>G	uc003zjr.2	-	1	181	c.170T>C	c.(169-171)GTC>GCC	p.V57A	RANBP6_uc011lmf.1_Missense_Mutation_p.V57A|RANBP6_uc003zjs.2_Intron	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	57					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		TCTATTTCTGACGGCATCTAA	0.473													22	51					0	0	0.010504	0	0		G	6015438	G	G	6015438	3	3	197	1	0	0	0	0	1	0	0	0	13056	275	10	3	3151	3	RANBP6	9	6015438	Missense_Mutation	SNP	A	TCGA-FP-8099-01A-11D-2340-08		6015438	135197993	64	97302											
CDKN2A	1029	broad.mit.edu	37	chr9	21974697	21974697	+	Frame_Shift_Del	DEL	A	-	-																															ctggatcggcctccgaccgtAactattcggtgcgttgggca																										TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr9:21974697delA	uc003zpk.2	-	1	342	c.130delT	c.(130-132)TACfs	p.Y44fs	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Frame_Shift_Del_p.Y44fs|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	44	ANK 2.				cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(23)|p.Y44*(3)|p.Y44fs*1(1)|p.Y44fs*76(1)|p.V28_V51del(1)|p.Y44S(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CTCCGACCGTAACTATTCGGT	0.692		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			51	74	---	---	---	---						.	-	21974697	-	-	21974697	7	5	197	1	0	1	0	1	0	0	0	0	3164	362	13	0	553	0	CDKN2A	9	21974697	Frame_Shift_Del	DEL	A	TCGA-FP-8099-01A-11D-2340-08	15959259	21974697	119238734	65	97303											
SVEP1	79987	broad.mit.edu	37	chr9	113171166	113171166	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacaaatacaggacttccGactgacttatagcccgggtt	12	9	9	11	2	0	2	0	1	0	1	1	4	1	3	2	2	2	1	2	2	4	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr9:113171166G>A	uc010mtz.2	-	38	7051	c.6714C>T	c.(6712-6714)GTC>GTT	p.V2238V	SVEP1_uc010mty.2_Silent_p.V164V	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2238	Sushi 14.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CAGGACTTCCGACTGACTTAT	0.502													28	109					0	0	0.005443	0	0		A	113171166	A	A	113171166	2	1	197	1	0	0	0	0	0	0	0	1	15445	1045	37	1		1	SVEP1	9	113171166	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	91196469	113171166	28042265	66	97304											
MUSK	4593	broad.mit.edu	37	chr9	113562732	113562732	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgagggctcaggtctccagcCctgggcccccacccctctcc	4	7	10	20	0	3	1	1	1	2	0	5	1	3	1	7	3	1	1	7	3	0	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr9:113562732C>G	uc004bey.2	+	14	2172	c.2074C>G	c.(2074-2076)CCT>GCT	p.P692A	MUSK_uc004bez.1_Missense_Mutation_p.P272A	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	692	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						GGTCTCCAGCCCTGGGCCCCC	0.587													22	182					0	0	0.014323	0	0		G	113562732	G	G	113562732	3	3	197	1	0	0	0	0	1	0	0	0	10007	623	22	5	2164	5	MUSK	9	113562732	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	391566	113562732	27650699	67	97305											
COL27A1	85301	broad.mit.edu	37	chr9	117051000	117051000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggccctgtgggtgatcgaGgagaccgcggggaaccggga	8	4	20	9	4	0	2	0	1	0	1	1	6	0	4	3	6	1	0	3	6	1	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr9:117051000G>A	uc011lxl.1	+	43	4063	c.4063G>A	c.(4063-4065)GGA>AGA	p.G1355R	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1355	Collagen-like 12.|Pro-rich.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGGTGATCGAGGAGACCGCGG	0.612													25	21					0	0	0.005443	0	0		A	117051000	A	A	117051000	3	1	197	1	0	0	0	0	1	0	0	0	3688	1001	35	4	4233	4	COL27A1	9	117051000	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	3488268	117051000	24162431	68	97306											
PTGS1	5742	broad.mit.edu	37	chr9	125154794	125154794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagtcaggatgatgggcctGctgtggagcgaccatccaca	9	7	13	12	1	1	1	1	1	0	0	2	4	2	3	4	3	2	1	4	3	0	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr9:125154794G>A	uc004bmg.1	+	11	1906	c.1771G>A	c.(1771-1773)GCT>ACT	p.A591T	PTGS1_uc011lys.1_Missense_Mutation_p.A529T|PTGS1_uc010mwb.1_Missense_Mutation_p.A445T|PTGS1_uc004bmf.1_Missense_Mutation_p.A554T|PTGS1_uc004bmh.1_Missense_Mutation_p.A482T|PTGS1_uc011lyt.1_Missense_Mutation_p.A482T	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	591					cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	TGATGGGCCTGCTGTGGAGCG	0.582													8	54					0	0	0.010729	0	0		A	125154794	A	A	125154794	3	1	197	1	0	0	0	0	1	0	0	0	12778	1319	46	2	1813	2	PTGS1	9	125154794	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	8103794	125154794	16058637	69	97307											
FCN1	2219	broad.mit.edu	37	chr9	137806261	137806261	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcatccccttctctcctcGgtctcctggaggaagaggca	7	9	10	15	2	2	1	0	0	2	1	7	3	4	3	4	4	0	2	4	4	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr9:137806261G>A	uc004cfi.2	-	4	369	c.277C>T	c.(277-279)CGA>TGA	p.R93*		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	93	Collagen-like.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		TTCTCTCCTCGGTCTCCTGGA	0.617													28	47					0	0	0.007291	0	0		A	137806261	A	A	137806261	4	1	197	1	0	0	0	0	0	1	0	0	5805	1124	39	1	727	1	FCN1	9	137806261	Nonsense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	12651467	137806261	3407170	70	97308											
ITGA8	8516	broad.mit.edu	37	chr10	15628600	15628600	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccctcttatttccacctgCgctacagcagtgatgttgat	8	14	7	12	1	1	2	0	2	1	0	2	2	2	2	3	0	4	3	3	0	3	5	rs145199076	by1000genomes	TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:15628600C>T	uc001ioc.1	-	23	2355	c.2355G>A	c.(2353-2355)GCG>GCA	p.A785A	ITGA8_uc010qcb.1_Silent_p.A770A	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	785	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						TTTCCACCTGCGCTACAGCAG	0.363													19	37					0	0	0.012319	0	0		T	15628600	T	T	15628600	2	4	197	1	0	0	0	0	0	0	0	1	7898	755	27	1		1	ITGA8	10	15628600	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08		15628600	119906147	71	97309											
PTCHD3	374308	broad.mit.edu	37	chr10	27702628	27702628	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtgaaatggccctgcacGaagcgccgctccgccttggc	6	7	14	14	4	0	1	0	1	0	0	1	2	1	1	4	3	2	2	4	3	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:27702628G>A	uc001itu.2	-	1	670	c.552C>T	c.(550-552)TTC>TTT	p.F184F		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	184					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GGCCCTGCACGAAGCGCCGCT	0.627													162	207					0	0	0.01441	0	0		A	27702628	A	A	27702628	2	1	197	1	0	0	0	0	0	0	0	1	12756	1049	37	1		1	PTCHD3	10	27702628	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	12074028	27702628	107832119	72	97310											
ZNF438	220929	broad.mit.edu	37	chr10	31139181	31139181	+	Silent	SNP	C	T	T	0	0	0	1	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	cgtgatggtgaatgacatggCagcattctggacgttaggac	10	10	14	7	2	1	3	0	3	1	0	1	5	1	5	0	4	1	3	0	4	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:31139181C>T	uc010qdz.1	-	7	588	c.153G>A	c.(151-153)CTG>CTA	p.L51L	ZNF438_uc001ivn.2_Silent_p.L2L|ZNF438_uc010qdy.1_Silent_p.L41L|ZNF438_uc001ivo.3_5'UTR|ZNF438_uc009xlg.2_Silent_p.L51L|ZNF438_uc001ivp.3_Silent_p.L41L|ZNF438_uc010qea.1_Silent_p.L51L|ZNF438_uc010qeb.1_Silent_p.L51L|ZNF438_uc010qec.1_5'UTR	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	51					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				AATGACATGGCAGCATTCTGG	0.488													73	173					0	0	0.01441	0	0		T	31139181	T	T	31139181	2	4	197	1	0	0	0	0	0	0	0	1	17935	697	25	2		2	ZNF438	10	31139181	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	3436553	31139181	104395566	73	97311											
ARHGAP12	94134	broad.mit.edu	37	chr10	32150542	32150542	+	Silent	SNP	A	G	G	1	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	ttcagttcttgaaggttagcAtagacaggagaatctggcct	11	12	11	7	0	3	3	1	1	2	2	3	4	3	3	1	3	1	3	1	3	4	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:32150542A>G	uc001ivz.1	-	4	999	c.729T>C	c.(727-729)TAT>TAC	p.Y243Y	ARHGAP12_uc001ivy.1_Silent_p.Y241Y|ARHGAP12_uc009xls.2_Silent_p.Y241Y|ARHGAP12_uc001iwb.1_Silent_p.Y241Y|ARHGAP12_uc001iwc.1_Silent_p.Y241Y|ARHGAP12_uc009xlq.1_Silent_p.Y241Y|ARHGAP12_uc001iwd.1_Silent_p.Y241Y|ARHGAP12_uc009xlr.1_Silent_p.Y241Y	NM_018287	NP_060757	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12	243					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)				GAAGGTTAGCATAGACAGGAG	0.398													14	67					0	0	0.004007	0	0		G	32150542	G	G	32150542	2	3	197	1	0	0	0	0	0	0	0	1	865	224	8	3		3	ARHGAP12	10	32150542	Silent	SNP	A	TCGA-FP-8099-01A-11D-2340-08	1011361	32150542	103384205	74	97312											
BMS1	9790	broad.mit.edu	37	chr10	43287160	43287160	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctgggccgttttattacagTtatgaagtttaggcctctca	8	16	9	8	1	2	1	1	1	2	0	3	1	2	1	2	2	1	3	2	2	5	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:43287160T>G	uc001jaj.2	+	6	1080	c.722T>G	c.(721-723)GTT>GGT	p.V241G		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	241					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TTTATTACAGTTATGAAGTTT	0.398													14	58					0	0	0.00499	0	0		G	43287160	G	G	43287160	3	3	197	1	0	0	0	0	1	0	0	0	1473	1725	60	5	740	5	BMS1	10	43287160	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	11136618	43287160	92247587	75	97313											
RET	5979	broad.mit.edu	37	chr10	43596039	43596039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtgcccagcttccgcctggGccagcatctctacggcacgt	5	8	12	16	3	1	0	0	0	1	0	3	0	2	0	4	3	4	3	4	3	1	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:43596039G>A	uc001jal.2	+	2	396	c.206G>A	c.(205-207)GGC>GAC	p.G69D	RET_uc001jak.1_Missense_Mutation_p.G69D	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	69	Extracellular (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	TTCCGCCTGGGCCAGCATCTC	0.637		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				10	63					0	0	0.008291	0	0		A	43596039	A	A	43596039	3	1	197	1	0	0	0	0	1	0	0	0	13260	1203	42	2	212	2	RET	10	43596039	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	308879	43596039	91938708	76	97314											
SIRT1	23411	broad.mit.edu	37	chr10	69672419	69672419	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaattactgaaaaacctccaCgaacacaaaaagaattggct	20	7	5	9	1	0	2	0	1	0	1	1	3	1	2	2	1	3	1	2	1	8	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:69672419C>T	uc001jnd.2	+	8	1599	c.1546C>T	c.(1546-1548)CGA>TGA	p.R516*	SIRT1_uc010qis.1_Nonsense_Mutation_p.R221*|SIRT1_uc009xpp.2_Nonsense_Mutation_p.R324*|SIRT1_uc001jne.2_Nonsense_Mutation_p.R213*	NM_012238	NP_036370	Q96EB6	SIRT1_HUMAN	sirtuin 1 isoform a	516					apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0						AAAACCTCCACGAACACAAAA	0.388													6	40					0	0	0.001168	0	0		T	69672419	T	T	69672419	4	4	197	1	0	0	0	0	0	1	0	0	14362	528	19	1	1576	1	SIRT1	10	69672419	Nonsense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	26076380	69672419	65862328	77	97315											
IFIT1B	439996	broad.mit.edu	37	chr10	91143907	91143907	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcttaaaaatggccttggaGacaacacccacttctgcctt	11	11	6	13	0	2	1	0	0	2	1	2	2	2	1	3	2	2	0	3	2	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:91143907G>A	uc001kgh.2	+	2	917	c.837G>A	c.(835-837)GAG>GAA	p.E279E	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron	NM_001010987	NP_001010987	Q5T764	IFT1B_HUMAN	interferon-induced protein with	279	TPR 5.						binding				0						TGGCCTTGGAGACAACACCCA	0.458													9	147					0	0	0.008291	0	0		A	91143907	A	A	91143907	2	1	197	1	0	0	0	0	0	0	0	1	7538	933	33	4		4	IFIT1B	10	91143907	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	21471488	91143907	44390840	78	97316											
MGEA5	10724	broad.mit.edu	37	chr10	103550838	103550838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgagggaaagcagccctcCtactaacctgctcagaagga	12	6	11	12	0	1	2	1	1	0	1	2	4	2	4	3	2	5	3	3	2	4	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:103550838C>T	uc001ktv.2	-	14	2712	c.2269G>A	c.(2269-2271)GGA>AGA	p.G757R	MGEA5_uc001ktu.2_RNA|MGEA5_uc010qqe.1_Missense_Mutation_p.G704R|MGEA5_uc009xws.2_Missense_Mutation_p.G690R	NM_012215	NP_036347	O60502	NCOAT_HUMAN	meningioma expressed antigen 5 (hyaluronidase)	757	Histone acetyltransferase activity (By similarity).|Required for histone H4 binding (By similarity).				glycoprotein catabolic process	cytoplasm|nucleus	histone acetyltransferase activity|hyalurononglucosaminidase activity			ovary(2)|skin(1)	3		Colorectal(252;0.207)		Epithelial(162;4.67e-09)|all cancers(201;2.54e-07)		AGCAGCCCTCCTACTAACCTG	0.448													4	56					0	0	0.001168	0	0		T	103550838	T	T	103550838	3	4	197	1	0	0	0	0	1	0	0	0	9573	690	24	4	493	4	MGEA5	10	103550838	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	12406931	103550838	31983909	79	97317											
SORCS1	114815	broad.mit.edu	37	chr10	108923946	108923946	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttctgccttctcctgatcCgctccgctccgtctcctccg	1	13	7	20	5	3	1	0	1	3	0	9	1	7	1	7	0	1	3	7	0	0	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:108923946C>T	uc001kym.2	-	1	347	c.339G>A	c.(337-339)GCG>GCA	p.A113A	SORCS1_uc001kyl.2_Silent_p.A113A|SORCS1_uc009xxs.2_Silent_p.A113A|SORCS1_uc001kyn.1_Silent_p.A113A|SORCS1_uc001kyo.2_Silent_p.A113A	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	113	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCTCCTGATCCGCTCCGCTCC	0.721													11	60					0	0	0.010729	0	0		T	108923946	T	T	108923946	2	4	197	1	0	0	0	0	0	0	0	1	14955	639	23	1		1	SORCS1	10	108923946	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	5373108	108923946	26610801	80	97318											
DCLRE1A	9937	broad.mit.edu	37	chr10	115609996	115609996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagtcactgaagtcattttCtggcaatggcaaatttatgt	12	14	8	7	0	3	1	2	1	1	0	3	1	3	1	0	2	0	2	0	2	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:115609996C>T	uc001law.2	-	2	1786	c.868G>A	c.(868-870)GAA>AAA	p.E290K		NM_014881	NP_055696	Q6PJP8	DCR1A_HUMAN	DNA cross-link repair 1A	290					cell division|mitosis	nucleus	hydrolase activity			skin(2)	2				Epithelial(162;0.0157)|all cancers(201;0.0171)		AAGTCATTTTCTGGCAATGGC	0.378								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					5	79					0	0	0.014758	0	0		T	115609996	T	T	115609996	3	4	197	1	0	0	0	0	1	0	0	0	4297	922	32	4	2286	4	DCLRE1A	10	115609996	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	6686050	115609996	19924751	81	97319											
PNLIP	5406	broad.mit.edu	37	chr10	118320019	118320019	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaataaaggaaactctaaGcagtatgaaattttcaagtg	18	10	9	4	0	2	1	1	1	1	0	2	3	2	3	0	2	2	2	0	2	8	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:118320019G>A	uc001lcm.2	+	11	1195	c.1152G>A	c.(1150-1152)AAG>AAA	p.K384K		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	384	PLAT.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	GAAACTCTAAGCAGTATGAAA	0.264													16	16					0	0	0.003163	0	0		A	118320019	A	A	118320019	2	1	197	1	0	0	0	0	0	0	0	1	12168	962	34	2		2	PNLIP	10	118320019	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	2710023	118320019	17214728	82	97320											
MGMT	4255	broad.mit.edu	37	chr10	131334524	131334524	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtacttggaaaaatggacaAggattgtgaaatgaaacgca	17	8	12	4	1	0	2	0	2	0	0	0	5	0	5	0	4	2	2	0	4	6	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr10:131334524A>G	uc001lkh.2	+	2	127	c.101A>G	c.(100-102)AAG>AGG	p.K34R		NM_002412	NP_002403	P16455	MGMT_HUMAN	O-6-methylguanine-DNA methyltransferase	3										ovary(1)|breast(1)	2		all_cancers(35;9.44e-09)|all_epithelial(44;6.98e-08)|Lung NSC(174;0.0157)|all_lung(145;0.0201)|all_neural(114;0.0732)|Colorectal(57;0.0792)|Breast(234;0.167)		OV - Ovarian serous cystadenocarcinoma(35;0.00291)		AAAATGGACAAGGATTGTGAA	0.433								Direct_reversal_of_damage					7	84					0	0	0.004482	0	0		G	131334524	G	G	131334524	3	3	197	1	0	0	0	0	1	0	0	0	9575	72	3	3	107	3	MGMT	10	131334524	Missense_Mutation	SNP	A	TCGA-FP-8099-01A-11D-2340-08	13014505	131334524	4200223	83	97321											
MICAL2	9645	broad.mit.edu	37	chr11	12229626	12229626	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctgatgctgggagttgaaAtccatgtgaatgtggagttc	9	12	13	7	0	0	3	0	3	0	0	2	5	1	5	2	2	1	3	2	2	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:12229626A>T	uc001mjz.2	+	5	817	c.529A>T	c.(529-531)ATC>TTC	p.I177F	MICAL2_uc010rch.1_Missense_Mutation_p.I177F|MICAL2_uc001mjy.2_Missense_Mutation_p.I177F|MICAL2_uc001mka.2_Missense_Mutation_p.I177F|MICAL2_uc010rci.1_Missense_Mutation_p.I177F|MICAL2_uc001mkb.2_Missense_Mutation_p.I177F|MICAL2_uc001mkc.2_Missense_Mutation_p.I177F|MICAL2_uc001mkd.2_Missense_Mutation_p.I6F	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	177						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		GGGAGTTGAAATCCATGTGAA	0.443													79	112					0	0	0.01441	0	0		T	12229626	T	T	12229626	3	4	197	1	0	0	0	0	1	0	0	0	9588	101	4	5	539	5	MICAL2	11	12229626	Missense_Mutation	SNP	A	TCGA-FP-8099-01A-11D-2340-08		12229626	122776890	84	97322											
KCNA4	3739	broad.mit.edu	37	chr11	30032457	30032457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	atttcttgagcaaattagagGggaggtatggacaactgact	13	11	12	5	0	1	3	0	2	1	1	1	5	1	5	0	4	2	2	0	4	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:30032457G>A	uc001msk.2	-	2	2921	c.1769C>T	c.(1768-1770)CCC>CTC	p.P590L		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	590						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CAAATTAGAGGGGAGGTATGG	0.433													18	68					0	0	0.00499	0	0		A	30032457	A	A	30032457	3	1	197	1	0	0	0	0	1	0	0	0	8021	1232	43	4	196	4	KCNA4	11	30032457	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	17802831	30032457	104974059	85	97323											
OR4C3	256144	broad.mit.edu	37	chr11	48346854	48346854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaaccatctcttatgagtGctgcatggctcagctctttg	8	13	10	10	0	3	2	1	1	2	1	4	3	3	2	1	1	4	4	1	1	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:48346854G>A	uc010rhv.1	+	1	362	c.362G>A	c.(361-363)TGC>TAC	p.C121Y		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCTTATGAGTGCTGCATGGCT	0.458													44	398					0	0	0.01441	0	0		A	48346854	A	A	48346854	3	1	197	1	0	0	0	0	1	0	0	0	11069	1319	46	2	364	2	OR4C3	11	48346854	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	18314397	48346854	86659662	86	97324											
OR4C46	119749	broad.mit.edu	37	chr11	51515370	51515370	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcatatttgttgtgttttTtgtcatctatatcatcactg	9	21	5	6	0	5	0	4	0	1	0	5	0	5	0	0	0	0	2	0	0	4	8			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:51515370T>G	uc010ric.1	+	1	89	c.89T>G	c.(88-90)TTT>TGT	p.F30C		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTTGTGTTTTTTGTCATCTAT	0.433													88	127					0	0	0.01441	0	0		G	51515370	G	G	51515370	3	3	197	1	0	0	0	0	1	0	0	0	11070	1841	64	5	91	5	OR4C46	11	51515370	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	3168516	51515370	83491146	87	97325											
OR4C11	219429	broad.mit.edu	37	chr11	55371644	55371644	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgtggaagttgaaaagcaaGaatctgcaaaggacaaataa	19	7	10	5	0	1	2	0	1	1	1	1	4	1	4	0	2	2	3	0	2	8	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:55371644G>A	uc010rii.1	-	1	206	c.206C>T	c.(205-207)TCT>TTT	p.S69F		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	69	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGAAAAGCAAGAATCTGCAAA	0.408													28	66					0	0	0.00632	0	0		A	55371644	A	A	55371644	3	1	197	1	0	0	0	0	1	0	0	0	11064	942	33	4	728	4	OR4C11	11	55371644	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	3856274	55371644	79634872	88	97326											
EML3	256364	broad.mit.edu	37	chr11	62376557	62376557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtagaccacctccccagagCgcaacacaaacagattagag	16	4	8	13	1	0	4	0	0	0	4	1	4	1	4	4	0	3	2	4	0	4	2	rs35971607	byFrequency	TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:62376557C>T	uc001ntu.1	-	7	1114	c.806G>A	c.(805-807)CGC>CAC	p.R269H	EML3_uc001ntr.1_Missense_Mutation_p.R241H|EML3_uc001nts.1_Missense_Mutation_p.R241H|EML3_uc001ntt.1_Missense_Mutation_p.R153H|EML3_uc010rly.1_Missense_Mutation_p.R269H|EML3_uc009yny.1_Missense_Mutation_p.R52H	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	269						cytoplasm|microtubule	protein binding			ovary(1)	1						CTCCCCAGAGCGCAACACAAA	0.597													65	515					0	0	0.01441	0	0		T	62376557	T	T	62376557	3	4	197	1	0	0	0	0	1	0	0	0	5106	768	27	1	1948	1	EML3	11	62376557	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	7004913	62376557	72629959	89	97327											
DSCAML1	57453	broad.mit.edu	37	chr11	117299086	117299086	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtaggccccggccccctgCttctgagacctccctacccc	5	7	9	20	1	1	1	0	1	1	1	2	3	2	1	8	2	2	2	8	2	2	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:117299086C>T	uc001prh.1	-	33	6302	c.6300G>A	c.(6298-6300)AAG>AAA	p.K2100K		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	2040	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CGGCCCCCTGCTTCTGAGACC	0.692													40	47					0	0	0.013114	0	0		T	117299086	T	T	117299086	2	4	197	1	0	0	0	0	0	0	0	1	4775	796	28	2		2	DSCAML1	11	117299086	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	54922529	117299086	17707430	90	97328											
CHEK1	1111	broad.mit.edu	37	chr11	125514068	125514068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ataccagcccctcatacattGataaattggtacaagggatc	14	10	7	10	0	1	1	1	1	0	0	2	2	1	2	3	2	4	1	3	2	6	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr11:125514068G>A	uc009zbo.2	+	10	1898	c.1006G>A	c.(1006-1008)GAT>AAT	p.D336N	CHEK1_uc010sbh.1_Missense_Mutation_p.D352N|CHEK1_uc010sbi.1_Missense_Mutation_p.D336N|CHEK1_uc001qcf.3_Missense_Mutation_p.D336N|CHEK1_uc009zbp.2_Missense_Mutation_p.D336N|CHEK1_uc001qcg.3_Missense_Mutation_p.D336N|CHEK1_uc009zbq.2_Missense_Mutation_p.D336N|CHEK1_uc001qci.1_RNA|CHEK1_uc001qcj.2_5'UTR	NM_001114122	NP_001107594	O14757	CHK1_HUMAN	checkpoint kinase 1	336					cellular response to mechanical stimulus|DNA repair|DNA replication|gamete generation|negative regulation of cell proliferation|reciprocal meiotic recombination|regulation of cyclin-dependent protein kinase activity|replicative senescence	condensed nuclear chromosome|microtubule organizing center|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|skin(1)	6	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)		CTCATACATTGATAAATTGGT	0.468								Other_conserved_DNA_damage_response_genes					7	91					0	0	0.001984	0	0		A	125514068	A	A	125514068	3	1	197	1	0	0	0	0	1	0	0	0	3337	1290	45	4	1040	4	CHEK1	11	125514068	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	8214982	125514068	9492448	91	97329											
A2M	2	broad.mit.edu	37	chr12	9254201	9254201	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaacacaagataagcagtgtGatgtgcctcttcgtgttctt	10	13	10	8	1	2	2	0	1	2	1	3	3	2	2	1	0	3	2	1	0	3	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:9254201G>T	uc001qvk.1	-	12	1449	c.1336C>A	c.(1336-1338)CAC>AAC	p.H446N	A2M_uc009zgk.1_Missense_Mutation_p.H296N	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	446					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	TAAGCAGTGTGATGTGCCTCT	0.443													6	24					8.12818e-05	8.34906e-05	0.001984	1	0		T	9254201	T	T	9254201	3	4	197	1	0	0	0	0	1	0	0	0	4	1290	45	5	3188	5	A2M	12	9254201	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		9254201	124597694	92	97330											
KLRC1	3821	broad.mit.edu	37	chr12	10603730	10603730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgggggcagattcaggtctGagtagattactccttggtta	8	14	13	6	0	2	3	1	1	1	2	3	3	3	3	1	4	1	3	1	4	3	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:10603730G>A	uc001qyl.2	-	2	190	c.26C>T	c.(25-27)TCA>TTA	p.S9L	KLRC1_uc009zhm.1_Missense_Mutation_p.S9L|KLRC1_uc001qym.2_Missense_Mutation_p.S9L|KLRC1_uc001qyn.2_Missense_Mutation_p.S9L|KLRC1_uc001qyo.2_Missense_Mutation_p.S9L	NM_002259	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C,	9	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						ATTCAGGTCTGAGTAGATTAC	0.388													6	42					0	0	0.001168	0	0		A	10603730	A	A	10603730	3	1	197	1	0	0	0	0	1	0	0	0	8431	1294	45	4	699	4	KLRC1	12	10603730	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	1349529	10603730	123248165	93	97331											
SLC4A8	9498	broad.mit.edu	37	chr12	51882580	51882580	+	Missense_Mutation	SNP	T	G	G	0	1	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	cccagctcttctctgtactaTcttgatattcatggatcagc	8	15	6	12	0	5	1	2	1	3	0	6	2	5	2	1	1	3	2	1	1	3	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:51882580T>G	uc001rys.1	+	18	2562	c.2384T>G	c.(2383-2385)ATC>AGC	p.I795S	SLC4A8_uc001rym.2_Missense_Mutation_p.I742S|SLC4A8_uc001ryn.2_Missense_Mutation_p.I742S|SLC4A8_uc001ryo.2_Missense_Mutation_p.I742S|SLC4A8_uc010snj.1_Missense_Mutation_p.I822S|SLC4A8_uc001ryr.2_Missense_Mutation_p.I795S	NM_001039960	NP_001035049	Q2Y0W8	S4A8_HUMAN	solute carrier family 4, sodium bicarbonate	795	Helical; (Potential).				bicarbonate transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity			ovary(3)|pancreas(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.15)		CTCTGTACTATCTTGATATTC	0.458													9	61					0	0	0.004482	0	0		G	51882580	G	G	51882580	3	3	197	1	0	0	0	0	1	0	0	0	14684	1435	50	5	2454	5	SLC4A8	12	51882580	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	41278850	51882580	81969315	94	97332											
SP1	6667	broad.mit.edu	37	chr12	53776035	53776035	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	tcacagccacacaactttcaCagggtgccaatggctggcag	11	7	10	13	0	2	0	2	0	0	0	2	0	2	0	2	3	3	2	2	3	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:53776035C>T	uc001scw.2	+	3	401	c.304C>T	c.(304-306)CAG>TAG	p.Q102*	SP1_uc010sog.1_Nonsense_Mutation_p.Q95*	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	102	Ser/Thr-rich.				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		ACAACTTTCACAGGGTGCCAA	0.552													24	32					0	0	0.016522	0	0		T	53776035	T	T	53776035	4	4	197	1	0	0	0	0	0	1	0	0	14984	479	17	4	314	4	SP1	12	53776035	Nonsense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	1893455	53776035	80075860	95	97333											
CALCOCO1	57658	broad.mit.edu	37	chr12	54109688	54109688	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acttcagccacttccaggcgGctgcggtgtagttcggctat	6	11	12	12	3	1	0	1	0	0	0	3	0	2	0	2	4	2	4	2	4	2	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:54109688G>A	uc001sef.2	-	9	1293	c.1149C>T	c.(1147-1149)AGC>AGT	p.S383S	CALCOCO1_uc001see.2_5'Flank|CALCOCO1_uc010som.1_Silent_p.S298S|CALCOCO1_uc010son.1_Silent_p.S260S|CALCOCO1_uc001seh.2_Silent_p.S383S|CALCOCO1_uc009znd.2_Silent_p.S383S|CALCOCO1_uc001seg.2_Silent_p.S208S|CALCOCO1_uc010soo.1_Silent_p.S376S	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	383					steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1						CTTCCAGGCGGCTGCGGTGTA	0.602													12	48					0	0	0.016723	0	0		A	54109688	A	A	54109688	2	1	197	1	0	0	0	0	0	0	0	1	2580	1194	42	2		2	CALCOCO1	12	54109688	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	333653	54109688	79742207	96	97334											
NEUROD4	58158	broad.mit.edu	37	chr12	55420273	55420273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gatgggagagctagtcaacaCaccatcctggatggataaag	14	7	12	8	0	1	1	1	0	0	1	2	5	2	3	2	3	2	1	2	3	4	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:55420273C>T	uc001sgp.3	+	2	428	c.50C>T	c.(49-51)ACA>ATA	p.T17I		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	17					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						CTAGTCAACACACCATCCTGG	0.443													15	19					0	0	0.00499	0	0		T	55420273	T	T	55420273	3	4	197	1	0	0	0	0	1	0	0	0	10369	478	17	4	52	4	NEUROD4	12	55420273	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	1310585	55420273	78431622	97	97335											
MMP19	4327	broad.mit.edu	37	chr12	56234970	56234970	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctcatgcgggcccttgtgGcatcatccagctgacctgag	6	9	12	14	1	2	2	2	2	0	0	3	2	3	2	4	2	2	2	4	2	0	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:56234970G>C	uc001sib.2	-	3	345	c.224C>G	c.(223-225)GCC>GGC	p.A75G	MMP19_uc001sia.2_5'Flank|MMP19_uc001sid.2_RNA|MMP19_uc010spw.1_Missense_Mutation_p.A75G	NM_002429	NP_002420	Q99542	MMP19_HUMAN	matrix metalloproteinase 19 isoform rasi-1	75					angiogenesis|cell differentiation|collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)	1						GGCCCTTGTGGCATCATCCAG	0.522													13	92					0	0	0.016723	0	0		C	56234970	C	C	56234970	3	2	197	1	0	0	0	0	1	0	0	0	9675	1203	42	5	1330	5	MMP19	12	56234970	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	814697	56234970	77616925	98	97336											
USP44	84101	broad.mit.edu	37	chr12	95926835	95926835	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagcatagcaaatggtgagaCcaacgcccactttccagacc	13	7	8	13	1	0	2	0	1	0	2	1	3	1	2	4	1	3	2	4	1	4	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:95926835C>A	uc001teg.2	-	2	1342	c.1198G>T	c.(1198-1200)GTC>TTC	p.V400F	USP44_uc001teh.2_Missense_Mutation_p.V400F|USP44_uc009zte.2_Missense_Mutation_p.V397F	NM_001042403	NP_001035862	Q9H0E7	UBP44_HUMAN	ubiquitin thiolesterase 44	400					anaphase|cell division|mitosis|negative regulation of mitotic anaphase-promoting complex activity|protein deubiquitination|regulation of spindle checkpoint|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)|breast(1)|central_nervous_system(1)	3						AATGGTGAGACCAACGCCCAC	0.443													51	45					7.90463e-13	8.537e-13	0.01441	1	0		A	95926835	A	A	95926835	3	1	197	1	0	0	0	0	1	0	0	0	17101	507	18	5	960	5	USP44	12	95926835	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	39691865	95926835	37925060	99	97337											
MMP17	4326	broad.mit.edu	37	chr12	132329865	132329865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtacttctggcggctgacgCgggaccggcacctggtgtcc	5	8	15	13	4	1	1	0	1	1	0	2	2	2	2	3	5	1	3	3	5	1	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr12:132329865C>T	uc001ujc.1	+	8	1174	c.1075C>T	c.(1075-1077)CGG>TGG	p.R359W	MMP17_uc001ujd.1_Missense_Mutation_p.R275W	NM_016155	NP_057239	Q9ULZ9	MMP17_HUMAN	matrix metalloproteinase 17 preproprotein	359	Hemopexin-like 1.				proteolysis	anchored to membrane|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0	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)		GCGGCTGACGCGGGACCGGCA	0.711													18	31					0	0	0.00499	0	0		T	132329865	T	T	132329865	3	4	197	1	0	0	0	0	1	0	0	0	9674	759	27	1	1105	1	MMP17	12	132329865	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	36403030	132329865	1522030	100	97338											
MIPEP	4285	broad.mit.edu	37	chr13	24380153	24380153	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttgagaatgtctgtggttGaattcctcaggggatgcttc	7	14	12	8	0	2	2	1	2	1	1	4	4	3	3	2	3	1	2	2	3	2	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr13:24380153G>A	uc001uox.3	-	16	1884	c.1784C>T	c.(1783-1785)TCA>TTA	p.S595L		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	595					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		GTCTGTGGTTGAATTCCTCAG	0.403													40	96					0	0	0.007835	0	0		A	24380153	A	A	24380153	3	1	197	1	0	0	0	0	1	0	0	0	9610	1294	45	4	373	4	MIPEP	13	24380153	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		24380153	90789725	101	97339											
LECT1	11061	broad.mit.edu	37	chr13	53298181	53298181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcgcccacctcaggaataCgagccttcacttgcgcttta	8	9	9	15	4	2	0	2	0	0	0	2	2	2	1	3	2	3	1	3	2	3	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr13:53298181C>T	uc001vhf.2	-	4	530	c.419G>A	c.(418-420)CGT>CAT	p.R140H	LECT1_uc001vhg.2_Missense_Mutation_p.R140H|LECT1_uc001vhh.2_Intron	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	140	BRICHOS.				cartilage development|proteoglycan metabolic process	endomembrane system|extracellular region|integral to membrane				ovary(2)	2		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.38e-08)		CTCAGGAATACGAGCCTTCAC	0.473													14	59					0	0	0.020292	0	0		T	53298181	T	T	53298181	3	4	197	1	0	0	0	0	1	0	0	0	8728	536	19	1	601	1	LECT1	13	53298181	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	28918028	53298181	61871697	102	97340											
MYCBP2	23077	broad.mit.edu	37	chr13	77754282	77754282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctcagatcccagggctgacgCtgtcagttcactgacaatgc	9	9	10	13	1	3	3	3	2	0	1	4	3	4	3	1	1	1	3	1	1	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr13:77754282C>T	uc001vkf.2	-	35	5090	c.4999G>A	c.(4999-5001)GCG>ACG	p.A1667T	MYCBP2_uc010aev.2_Missense_Mutation_p.A1071T	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	1667					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		AGGGCTGACGCTGTCAGTTCA	0.428													34	44					0	0	0.015359	0	0		T	77754282	T	T	77754282	3	4	197	1	0	0	0	0	1	0	0	0	10036	797	28	2	9123	2	MYCBP2	13	77754282	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	24456101	77754282	37415596	103	97341											
NKX2-1	7080	broad.mit.edu	37	chr14	36987207	36987207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgttcatgccgctcgccGggcccatgaagcgggagact	7	8	13	13	4	2	2	2	1	0	1	3	3	2	2	3	2	2	2	3	2	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr14:36987207G>A	uc001wtt.2	-	2	733	c.392C>T	c.(391-393)CCG>CTG	p.P131L	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Missense_Mutation_p.P161L|NKX2-1_uc001wtv.2_Missense_Mutation_p.P131L|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	131					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		GCCGCTCGCCGGGCCCATGAA	0.716			A		NSCLC								5	30					0	0	0.001168	0	0		A	36987207	A	A	36987207	3	1	197	1	0	0	0	0	1	0	0	0	10468	1116	39	1	727	1	NKX2-1	14	36987207	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		36987207	70362333	104	97342											
KCNH5	27133	broad.mit.edu	37	chr14	63417125	63417125	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccgatgctataccatatGcaggccagccagtgggccac	9	8	10	14	1	1	0	0	0	1	0	2	1	1	0	5	2	4	2	5	2	3	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr14:63417125G>A	uc001xfx.2	-	7	1146	c.1095C>T	c.(1093-1095)TGC>TGT	p.C365C	KCNH5_uc001xfy.2_Silent_p.C365C|KCNH5_uc001xfz.1_Silent_p.C307C|KCNH5_uc001xga.2_Silent_p.C307C	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	365	Helical; Name=Segment S5; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		TATACCATATGCAGGCCAGCC	0.522													11	101					0	0	0.013537	0	0		A	63417125	A	A	63417125	2	1	197	1	0	0	0	0	0	0	0	1	8051	1311	46	2		2	KCNH5	14	63417125	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	26429918	63417125	43932415	105	97343											
C14orf156	81892	broad.mit.edu	37	chr14	78174460	78174460	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctttagtctgaagatggcGgcctcagcagcgagaggtgc	8	9	15	9	2	2	3	1	1	1	2	2	4	2	3	1	3	4	2	1	3	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr14:78174460G>T	uc001xue.3	+	1	36	c.6G>T	c.(4-6)GCG>GCT	p.A2A	ALKBH1_uc001xuc.1_5'Flank|ALKBH1_uc001xud.1_5'Flank	NM_031210	NP_112487	Q9GZT3	SLIRP_HUMAN	SRA stem-loop-interacting RNA-binding protein	2					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	nucleotide binding|RNA binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0276)		TGAAGATGGCGGCCTCAGCAG	0.562													8	41					1.01871e-10	1.09396e-10	0.008871	1	0		T	78174460	T	T	78174460	2	4	197	1	0	0	0	0	0	0	0	1	1757	1103	39	5		5	C14orf156	14	78174460	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	14757335	78174460	29175080	106	97344											
INF2	64423	broad.mit.edu	37	chr14	105174317	105174317	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaagctgaactggcagaaGctgccatccaacgtggcacg	13	5	12	11	2	0	3	0	1	0	2	1	3	1	3	2	2	5	4	2	2	5	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr14:105174317G>A	uc001ypb.2	+	8	1856	c.1713G>A	c.(1711-1713)AAG>AAA	p.K571K	INF2_uc010tyi.1_Silent_p.K571K|INF2_uc001ypc.2_Silent_p.K571K|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	571	FH2.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		ACTGGCAGAAGCTGCCATCCA	0.657													25	54					0	0	0.01892	0	0		A	105174317	A	A	105174317	2	1	197	1	0	0	0	0	0	0	0	1	7750	962	34	2		2	INF2	14	105174317	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	26999857	105174317	2175223	107	97345											
PACS2	23241	broad.mit.edu	37	chr14	105836184	105836184	+	Missense_Mutation	SNP	A	T	T	1	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	cgcctgtcttgcagcaacagAacttcaagcagaaagtggta	13	8	10	10	1	2	2	1	0	1	2	2	2	2	2	1	1	5	4	1	1	5	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr14:105836184A>T	uc001yqt.2	+	8	923	c.748A>T	c.(748-750)AAC>TAC	p.N250Y	PACS2_uc001yqs.2_Missense_Mutation_p.N175Y|PACS2_uc001yqv.2_Missense_Mutation_p.N250Y|PACS2_uc001yqu.2_Missense_Mutation_p.N250Y	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	250					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		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)		GCAGCAACAGAACTTCAAGCA	0.677													9	7					0	0	0.006214	0	0		T	105836184	T	T	105836184	3	4	197	1	0	0	0	0	1	0	0	0	11392	246	9	5	778	5	PACS2	14	105836184	Missense_Mutation	SNP	A	TCGA-FP-8099-01A-11D-2340-08	661867	105836184	1513356	108	97346											
DISP2	85455	broad.mit.edu	37	chr15	40656717	40656717	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggactgttgggggcccGgctgcccgacttctccaagc	4	8	15	14	2	1	0	0	0	1	0	2	2	1	1	3	5	2	3	3	5	1	2	rs146996300		TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr15:40656717G>T	uc001zlk.1	+	4	664	c.575G>T	c.(574-576)CGG>CTG	p.R192L		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	192					smoothened signaling pathway	integral to membrane				ovary(2)	2		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)		TTGGGGGCCCGGCTGCCCGAC	0.637													12	142					7.93312e-07	8.23824e-07	0.020292	1	0		T	40656717	T	T	40656717	3	4	197	1	0	0	0	0	1	0	0	0	4546	1116	39	5	589	5	DISP2	15	40656717	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		40656717	61874675	109	97347											
DISP2	85455	broad.mit.edu	37	chr15	40661395	40661395	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctctctgcctcagtgggcCtctcagtagacttcactgtc	5	14	8	14	0	5	1	3	0	3	1	8	1	5	1	2	1	1	1	2	1	1	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr15:40661395C>A	uc001zlk.1	+	8	3171	c.3082C>A	c.(3082-3084)CTC>ATC	p.L1028I		NM_033510	NP_277045	A7MBM2	DISP2_HUMAN	dispatched B	1028	Helical; (Potential).				smoothened signaling pathway	integral to membrane				ovary(2)	2		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)		CTCAGTGGGCCTCTCAGTAGA	0.602													33	203					4.31634e-10	4.55747e-10	0.012213	1	0		A	40661395	A	A	40661395	3	1	197	1	0	0	0	0	1	0	0	0	4546	681	24	5	3112	5	DISP2	15	40661395	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	4678	40661395	61869997	110	97348											
PLA2G4F	255189	broad.mit.edu	37	chr15	42438358	42438358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccactcaagttggtgcggaCgttgacactggtgtaaatgg	9	10	13	9	2	1	1	1	1	0	0	1	2	1	2	1	4	1	3	1	4	3	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr15:42438358C>T	uc001zoz.2	-	14	1564	c.1501G>A	c.(1501-1503)GTC>ATC	p.V501I	PLA2G4F_uc010bcq.2_5'Flank|PLA2G4F_uc001zoy.2_Missense_Mutation_p.V133I|PLA2G4F_uc010bcr.2_Missense_Mutation_p.V252I|PLA2G4F_uc001zpa.2_Missense_Mutation_p.V252I|PLA2G4F_uc010bcs.2_Missense_Mutation_p.V288I	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	501	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		TTGGTGCGGACGTTGACACTG	0.592													31	90					0	0	0.013726	0	0		T	42438358	T	T	42438358	3	4	197	1	0	0	0	0	1	0	0	0	12025	536	19	1	1076	1	PLA2G4F	15	42438358	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	1776963	42438358	60093034	111	97349											
CAPN3	825	broad.mit.edu	37	chr15	42652295	42652295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagttccccatccagttcGtctggaagagacctccggtg	9	9	11	12	2	1	2	0	0	1	2	5	4	4	3	5	2	0	2	5	2	2	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr15:42652295G>A	uc001zpn.1	+	1	598	c.292G>A	c.(292-294)GTC>ATC	p.V98I	CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_Intron|CAPN3_uc010udg.1_Intron|CAPN3_uc001zpo.1_Missense_Mutation_p.V98I|CAPN3_uc001zpp.1_Missense_Mutation_p.V98I	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	98	Calpain catalytic.		Missing (in LGMD2A).		muscle organ development|proteolysis	cytoplasm	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|signal transducer activity			central_nervous_system(1)	1		all_cancers(109;1.65e-16)|all_epithelial(112;8.34e-15)|Lung NSC(122;3.56e-09)|all_lung(180;1.68e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;7.36e-07)		CATCCAGTTCGTCTGGAAGAG	0.532													137	271					0	0	0.01441	0	0		A	42652295	A	A	42652295	3	1	197	1	0	0	0	0	1	0	0	0	2631	1145	40	1	346	1	CAPN3	15	42652295	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	213937	42652295	59879097	112	97350											
UNC13C	440279	broad.mit.edu	37	chr15	54306827	54306827	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcactagaactaatggaaGctctctcctgtcatcttcgg	9	14	7	11	1	4	1	2	0	2	1	7	2	5	2	1	2	2	1	1	2	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr15:54306827G>T	uc002ack.2	+	1	1727	c.1727G>T	c.(1726-1728)AGC>ATC	p.S576I		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	576					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ACTAATGGAAGCTCTCTCCTG	0.433													29	36					5.61819e-17	6.17347e-17	0.005443	1	0		T	54306827	T	T	54306827	3	4	197	1	0	0	0	0	1	0	0	0	17012	971	34	5	1729	5	UNC13C	15	54306827	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	11654532	54306827	48224565	113	97351											
BNC1	646	broad.mit.edu	37	chr15	83932806	83932806	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctatggcgattccggctcctTagggagctgaacaccatgtt	8	11	11	11	2	0	1	0	1	0	0	2	3	2	2	3	3	2	3	3	3	3	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr15:83932806T>C	uc002bjt.1	-	4	1285	c.1197A>G	c.(1195-1197)CTA>CTG	p.L399L	BNC1_uc010uos.1_Silent_p.L387L	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	399	C2H2-type 2.				epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						TCCGGCTCCTTAGGGAGCTGA	0.517													106	116					0	0	0.01441	0	0		C	83932806	C	C	83932806	2	2	197	1	0	0	0	0	0	0	0	1	1475	1741	61	3		3	BNC1	15	83932806	Silent	SNP	T	TCGA-FP-8099-01A-11D-2340-08	29625979	83932806	18598586	114	97352											
NTRK3	4916	broad.mit.edu	37	chr15	88420326	88420326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcggggccgctccaaaacaCgaccttgggtaatgcactca	10	7	10	14	3	1	0	1	0	0	0	3	1	2	0	3	3	2	3	3	3	3	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr15:88420326C>T	uc002bme.1	-	19	2522	c.2360G>A	c.(2359-2361)CGT>CAT	p.R787H	NTRK3_uc002bmh.2_Missense_Mutation_p.R765H|NTRK3_uc002bmf.1_Missense_Mutation_p.R773H	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3	787	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			CTCCAAAACACGACCTTGGGT	0.537			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			20	61					0	0	0.012319	0	0		T	88420326	T	T	88420326	3	4	197	1	0	0	0	0	1	0	0	0	10727	536	19	1	163	1	NTRK3	15	88420326	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	4487520	88420326	14111066	115	97353											
DCI	1632	broad.mit.edu	37	chr16	2290000	2290000	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttagcctttttcttctttgaGcctctctaagtacatctgca	7	18	5	11	0	4	1	0	1	4	0	5	1	4	1	2	0	4	2	2	0	3	7			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr16:2290000G>A	uc002cpr.2	-	7	925	c.889C>T	c.(889-891)CTC>TTC	p.L297F	DCI_uc002cps.2_Missense_Mutation_p.L280F	NM_001919	NP_001910	P42126	ECI1_HUMAN	dodecenoyl-Coenzyme A delta isomerase precursor	297					fatty acid beta-oxidation	mitochondrial matrix	dodecenoyl-CoA delta-isomerase activity				0						TCTTCTTTGAGCCTCTCTAAG	0.537													60	57					0	0	0.01441	0	0		A	2290000	A	A	2290000	3	1	197	1	0	0	0	0	1	0	0	0	4292	971	34	2	23	2	DCI	16	2290000	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		2290000	88064753	116	97354											
OR1F1	4992	broad.mit.edu	37	chr16	3254578	3254578	+	Missense_Mutation	SNP	A	G	G	1	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	tttcatgttcgtggacatggAcaatttcctcctagctgtga	8	15	9	9	1	1	1	1	1	0	0	4	3	3	3	2	2	1	2	2	2	2	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr16:3254578A>G	uc010uwu.1	+	1	332	c.332A>G	c.(331-333)GAC>GGC	p.D111G		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTGGACATGGACAATTTCCTC	0.507													33	254					0	0	0.012213	0	0		G	3254578	G	G	3254578	3	3	197	1	0	0	0	0	1	0	0	0	10975	275	10	3	334	3	OR1F1	16	3254578	Missense_Mutation	SNP	A	TCGA-FP-8099-01A-11D-2340-08	964578	3254578	87100175	117	97355											
ZFHX3	463	broad.mit.edu	37	chr16	72821612	72821612	+	Silent	SNP	G	A	A																															gagccgccgccgccgccgccGccgccaccgccgccgccgcc																										TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr16:72821612G>A	uc002fck.2	-	10	11236	c.10563C>T	c.(10561-10563)GGC>GGT	p.G3521G	uc002fcj.1_RNA|ZFHX3_uc002fcl.2_Silent_p.G2607G	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3521	Poly-Gly.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				cgccgccgccgccgccaccgc	0.408													19	35					0	0	0.008871	0	0		A	72821612	A	A	72821612	2	1	197	1	0	0	0	0	0	0	0	1	17659	1074	38	1		1	ZFHX3	16	72821612	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	69567034	72821612	17533141	118	97356	184	2									
ZFHX3	463	broad.mit.edu	37	chr16	72821614	72821614	+	Missense_Mutation	SNP	C	T	T																															gccgccgccgccgccgccgcCgccaccgccgccgccgccgc																										TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr16:72821614C>T	uc002fck.2	-	10	11234	c.10561G>A	c.(10561-10563)GGC>AGC	p.G3521S	uc002fcj.1_RNA|ZFHX3_uc002fcl.2_Missense_Mutation_p.G2607S	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3521	Poly-Gly.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ccgccgccgccgccaccgccg	0.408													17	35					0	0	0.006122	0	0		T	72821614	T	T	72821614	3	4	197	1	0	0	0	0	1	0	0	0	17659	652	23	1	554	1	ZFHX3	16	72821614	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	2	72821614	17533139	119	97357	184	2									
PLCG2	5336	broad.mit.edu	37	chr16	81925130	81925130	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atctgggatgagaagtatgaCgcggtggacatgcaggacat	12	8	15	6	2	1	2	0	2	1	1	1	6	1	5	0	4	1	2	0	4	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr16:81925130C>T	uc002fgt.2	+	11	1073	c.921C>T	c.(919-921)GAC>GAT	p.D307D	PLCG2_uc010chg.1_Silent_p.D307D	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2	307					intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8						AGAAGTATGACGCGGTGGACA	0.498													20	38					0	0	0.010504	0	0		T	81925130	T	T	81925130	2	4	197	1	0	0	0	0	0	0	0	1	12055	535	19	1		1	PLCG2	16	81925130	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	9103516	81925130	8429623	120	97358											
LRRC50	123872	broad.mit.edu	37	chr16	84203642	84203642	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	agaggagccgcctgtggaggCtaaaagagaggatggaggtc	12	5	18	6	1	0	2	0	0	0	2	1	7	0	6	2	6	1	1	2	6	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr16:84203642C>A	uc002fhl.3	+	8	1389	c.1208C>A	c.(1207-1209)GCT>GAT	p.A403D	LRRC50_uc010vnw.1_Missense_Mutation_p.A167D	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	403	Pro-rich.				axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						CCTGTGGAGGCTAAAAGAGAG	0.557									Kartagener_syndrome				17	102					2.23348e-06	2.30671e-06	0.004007	1	0		A	84203642	A	A	84203642	3	1	197	1	0	0	0	0	1	0	0	0	9027	797	28	5	1238	5	LRRC50	16	84203642	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	2278512	84203642	6151111	121	97359											
SGSM2	9905	broad.mit.edu	37	chr17	2279113	2279113	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagccaggagaagcctcagGccggagaactggaggccgga	11	2	16	12	2	1	2	1	0	0	2	1	6	1	4	5	6	3	0	5	6	2	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr17:2279113G>C	uc002fun.3	+	17	2468	c.2293G>C	c.(2293-2295)GCC>CCC	p.A765P	SGSM2_uc002fum.3_Missense_Mutation_p.A810P|SGSM2_uc010vqw.1_Missense_Mutation_p.A765P|SGSM2_uc002fup.1_5'UTR|SGSM2_uc002fuq.2_5'Flank	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	765	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		GAAGCCTCAGGCCGGAGAACT	0.682													41	48					0	0	0.010771	0	0		C	2279113	C	C	2279113	3	2	197	1	0	0	0	0	1	0	0	0	14248	1203	42	5	2498	5	SGSM2	17	2279113	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		2279113	78916097	122	97360											
TP53	7157	broad.mit.edu	37	chr17	7578406	7578406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctcatggtgggggcagCgcctcacaacctccgtcatg	7	7	13	14	3	3	0	3	0	0	0	4	0	4	0	3	3	3	2	3	3	1	0	rs28934578		TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr17:7578406C>T	uc002gim.2	-	5	718	c.524G>A	c.(523-525)CGC>CAC	p.R175H	TP53_uc002gig.1_Missense_Mutation_p.R175H|TP53_uc002gih.2_Missense_Mutation_p.R175H|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R43H|TP53_uc010cng.1_Missense_Mutation_p.R43H|TP53_uc002gii.1_Missense_Mutation_p.R43H|TP53_uc010cnh.1_Missense_Mutation_p.R175H|TP53_uc010cni.1_Missense_Mutation_p.R175H|TP53_uc002gij.2_Missense_Mutation_p.R175H|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R82H|TP53_uc002gio.2_Missense_Mutation_p.R43H|TP53_uc010vug.1_Missense_Mutation_p.R136H	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	175	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in a sporadic cancer; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> C (in sporadic cancers; somatic mutation).|R -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R175H(729)|p.R175L(19)|p.R175C(12)|p.R175G(11)|p.0?(7)|p.R175P(5)|p.R175S(5)|p.R43H(5)|p.R82H(5)|p.R175R(4)|p.R174fs*24(3)|p.R175_E180delRCPHHE(3)|p.R175fs*5(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V173fs*69(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.R175fs*6(1)|p.R42fs*24(1)|p.R174_C176delRRC(1)|p.H168fs*69(1)|p.R175fs*72(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.R174fs*3(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GTGGGGGCAGCGCCTCACAAC	0.652	R175H(KMS26_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R175H(HCC1395_BREAST)|R175H(KLE_ENDOMETRIUM)|R175H(NCIH196_LUNG)|R175H(AU565_BREAST)|R175H(TYKNU_OVARY)|R175H(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|R175H(SKUT1_SOFT_TISSUE)|R175H(CAL33_UPPER_AERODIGESTIVE_TRACT)|R175H(LS123_LARGE_INTESTINE)|R175H(SKBR3_BREAST)|R175H(RKN_OVARY)|R175H(HUCCT1_BILIARY_TRACT)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			30	27					0	0	0.013726	0	0		T	7578406	T	T	7578406	3	4	197	1	0	0	0	0	1	0	0	0	16407	768	27	1	774	1	TP53	17	7578406	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	5299293	7578406	73616804	123	97361											
CCDC144NL	339184	broad.mit.edu	37	chr17	20799061	20799061	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctccaccccagggacgtcGcccgaccgggcagctctgtg	5	6	13	17	4	1	0	0	0	1	0	3	2	2	1	5	2	2	3	5	2	0	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr17:20799061G>A	uc002gyf.2	-	1	393	c.273C>T	c.(271-273)GGC>GGT	p.G91G	uc002gyg.1_Intron|uc002gyh.1_Intron	NM_001004306	NP_001004306	Q6NUI1	C144L_HUMAN	coiled-coil domain containing 144 family,	91											0						CAGGGACGTCGCCCGACCGGG	0.642													72	37					0	0	0.01441	0	0		A	20799061	A	A	20799061	2	1	197	1	0	0	0	0	0	0	0	1	2782	1074	38	1		1	CCDC144NL	17	20799061	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	13220655	20799061	60396149	124	97362											
SPAG5	10615	broad.mit.edu	37	chr17	26919760	26919760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctcctctctcaccagatCgtctgttctcaaaggtccat	8	12	5	16	1	4	1	2	0	3	1	9	1	6	1	4	1	0	1	4	1	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr17:26919760C>T	uc002hbq.2	-	3	594	c.502G>A	c.(502-504)GAT>AAT	p.D168N	SGK494_uc010waq.1_Intron	NM_006461	NP_006452	Q96R06	SPAG5_HUMAN	sperm associated antigen 5	168					cell division|mitosis|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytoplasm|spindle pole	protein binding			central_nervous_system(1)	1	Lung NSC(42;0.00431)					CTCACCAGATCGTCTGTTCTC	0.473													35	75					0	0	0.013726	0	0		T	26919760	T	T	26919760	3	4	197	1	0	0	0	0	1	0	0	0	15006	884	31	1	3167	1	SPAG5	17	26919760	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	6120699	26919760	54275450	125	97363											
SCN4A	6329	broad.mit.edu	37	chr17	62019209	62019209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgaagagggcaggcagcGacatcatgagggcgaacagc	12	5	16	8	2	1	3	1	2	0	1	1	5	1	3	0	3	3	3	0	3	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr17:62019209G>A	uc002jds.1	-	24	4510	c.4433C>T	c.(4432-4434)TCG>TTG	p.S1478L		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1478	IV.				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	GGCAGGCAGCGACATCATGAG	0.607													21	59					0	0	0.014323	0	0		A	62019209	A	A	62019209	3	1	197	1	0	0	0	0	1	0	0	0	13945	1059	37	1	1081	1	SCN4A	17	62019209	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	35099449	62019209	19176001	126	97364											
TTYH2	94015	broad.mit.edu	37	chr17	72233438	72233438	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctcctccctaggtttcCggaactacccagaagatgaa	10	9	8	14	1	0	3	0	1	0	2	3	4	3	4	5	2	3	2	5	2	5	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr17:72233438C>T	uc002jkc.2	+	4	451	c.420C>T	c.(418-420)TCC>TCT	p.S140S	TTYH2_uc010wqw.1_Silent_p.S119S	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	140	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						CCTAGGTTTCCGGAACTACCC	0.557													31	114					0	0	0.009535	0	0		T	72233438	T	T	72233438	2	4	197	1	0	0	0	0	0	0	0	1	16766	639	23	1		1	TTYH2	17	72233438	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	10214229	72233438	8961772	127	97365											
MYOM1	8736	broad.mit.edu	37	chr18	3188832	3188832	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttcttcctgttgaagagCggatgtggcctgtttggaaa	8	14	13	6	1	1	2	0	1	1	1	2	4	2	4	2	3	1	3	2	3	2	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr18:3188832C>T	uc002klp.2	-	4	1019	c.685G>A	c.(685-687)GCT>ACT	p.A229T	MYOM1_uc002klq.2_Missense_Mutation_p.A229T	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	229						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						TGTTGAAGAGCGGATGTGGCC	0.512													15	41					0	0	0.020292	0	0		T	3188832	T	T	3188832	3	4	197	1	0	0	0	0	1	0	0	0	10109	768	27	1	4512	1	MYOM1	18	3188832	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08		3188832	74888416	128	97366											
SETBP1	26040	broad.mit.edu	37	chr18	42531860	42531860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggctccctaaaggaaatcaCgctgtcccctgtgagcgagt	9	9	11	12	2	1	1	1	1	0	0	3	3	3	2	3	2	1	2	3	2	3	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr18:42531860C>T	uc010dni.2	+	4	2851	c.2555C>T	c.(2554-2556)ACG>ATG	p.T852M		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	852						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AAGGAAATCACGCTGTCCCCT	0.562									Schinzel-Giedion_syndrome				13	49					0	0	0.013537	0	0		T	42531860	T	T	42531860	3	4	197	1	0	0	0	0	1	0	0	0	14154	536	19	1	2758	1	SETBP1	18	42531860	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	39343028	42531860	35545388	129	97367											
PLIN4	729359	broad.mit.edu	37	chr19	4510934	4510934	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggtggtgtccaggccccccTggacggcccctttggccatg	3	9	14	15	1	0	0	0	0	0	0	1	1	1	1	7	6	0	0	7	6	0	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:4510934T>G	uc002mar.1	-	3	2996	c.2996A>C	c.(2995-2997)CAG>CCG	p.Q999P	PLIN4_uc010dub.1_Missense_Mutation_p.Q23P	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	999						lipid particle|plasma membrane					0						CAGGCCCCCCTGGACGGCCCC	0.642													11	77					0	0	0.013537	0	0		G	4510934	G	G	4510934	3	3	197	1	0	0	0	0	1	0	0	0	12111	1580	55	5	1093	5	PLIN4	19	4510934	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08		4510934	54618049	130	97368											
SMARCA4	6597	broad.mit.edu	37	chr19	11134252	11134252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtctccacaaagtgctgcGgcccttcttgctccgacgac	6	9	10	16	4	2	0	0	0	2	0	4	2	3	0	3	1	3	2	3	1	1	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:11134252G>A	uc002mqf.3	+	20	3202	c.2918G>A	c.(2917-2919)CGG>CAG	p.R973Q	SMARCA4_uc010dxp.2_Missense_Mutation_p.R973Q|SMARCA4_uc010dxo.2_Missense_Mutation_p.R973Q|SMARCA4_uc002mqg.1_Missense_Mutation_p.R973Q|SMARCA4_uc010dxq.2_Missense_Mutation_p.R973Q|SMARCA4_uc010dxr.2_Missense_Mutation_p.R973Q|SMARCA4_uc002mqj.3_Missense_Mutation_p.R973Q|SMARCA4_uc010dxs.2_Missense_Mutation_p.R973Q|SMARCA4_uc010dxt.1_Missense_Mutation_p.R193Q|SMARCA4_uc002mqh.3_Missense_Mutation_p.R96Q|SMARCA4_uc002mqi.1_Missense_Mutation_p.R176Q	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	973					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				AAAGTGCTGCGGCCCTTCTTG	0.562			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				22	4					0	0	0.01892	0	0		A	11134252	A	A	11134252	3	1	197	1	0	0	0	0	1	0	0	0	14795	1116	39	1	2992	1	SMARCA4	19	11134252	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	6623318	11134252	47994731	131	97369											
EMR2	30817	broad.mit.edu	37	chr19	14862365	14862365	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatctgttgatgcttgagTagttgaccaccgtcaggttc	8	14	11	8	1	2	4	1	4	1	0	3	4	2	4	2	1	1	5	2	1	2	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:14862365T>C	uc002mzp.1	-	16	2363	c.1907A>G	c.(1906-1908)TAC>TGC	p.Y636C	EMR2_uc010dzs.1_Missense_Mutation_p.Y95C|EMR2_uc010xnw.1_Missense_Mutation_p.Y578C|EMR2_uc002mzo.1_Missense_Mutation_p.Y625C|EMR2_uc002mzq.1_Missense_Mutation_p.Y576C|EMR2_uc002mzr.1_Missense_Mutation_p.Y587C|EMR2_uc002mzs.1_Missense_Mutation_p.Y494C|EMR2_uc002mzt.1_Missense_Mutation_p.Y532C|EMR2_uc002mzu.1_Missense_Mutation_p.Y543C|EMR2_uc010xnx.1_RNA|EMR2_uc010xny.1_RNA	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone	636	Cytoplasmic (Potential).				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						GATGCTTGAGTAGTTGACCAC	0.562													81	70					0	0	0.01441	0	0		C	14862365	C	C	14862365	3	2	197	1	0	0	0	0	1	0	0	0	5113	1638	57	3	588	3	EMR2	19	14862365	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08	3728113	14862365	44266618	132	97370											
IL12RB1	3594	broad.mit.edu	37	chr19	18179266	18179266	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcttctcggggtgcgcagaGgcaaagatggtaatgtagta	11	9	15	6	2	1	2	0	0	1	2	2	2	1	2	0	4	2	6	0	4	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:18179266G>C	uc002nhw.1	-	11	1324	c.1260C>G	c.(1258-1260)GCC>GCG	p.A420A	IL12RB1_uc010xqb.1_Silent_p.A420A|IL12RB1_uc002nhx.1_Silent_p.A460A	NM_005535	NP_005526	P42701	I12R1_HUMAN	interleukin 12 receptor, beta 1 isoform 1	420	Extracellular (Potential).|Fibronectin type-III 4.				cellular response to interferon-gamma|interleukin-12-mediated signaling pathway|positive regulation of activated T cell proliferation|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response	interleukin-12 receptor complex|interleukin-23 receptor complex	cytokine receptor activity			pancreas(1)	1						GGTGCGCAGAGGCAAAGATGG	0.522													12	152					0	0	0.013537	0	0		C	18179266	C	C	18179266	2	2	197	1	0	0	0	0	0	0	0	1	7642	987	35	5		5	IL12RB1	19	18179266	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	3316901	18179266	40949717	133	97371											
ZNF492	57615	broad.mit.edu	37	chr19	22847938	22847938	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaagcctttaacaactcCtctattcttaacagacataa	15	11	4	11	0	2	1	0	0	2	1	3	1	3	1	2	1	4	1	2	1	6	6			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:22847938C>T	uc002nqw.3	+	4	1711	c.1467C>T	c.(1465-1467)TCC>TCT	p.S489S		NM_020855	NP_065906	Q9P255	ZN492_HUMAN	zinc finger protein 492	489	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.0266)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00203)|Hepatocellular(1079;0.244)				TTAACAACTCCTCTATTCTTA	0.368													16	7					0	0	0.012319	0	0		T	22847938	T	T	22847938	2	4	197	1	0	0	0	0	0	0	0	1	17968	668	24	4		4	ZNF492	19	22847938	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	4668672	22847938	36281045	134	97372											
ZNF569	148266	broad.mit.edu	37	chr19	37903672	37903672	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtcgaagggtttctcacCtgtatgtcctcgtatatgta	9	14	9	9	2	1	0	1	0	1	0	5	1	2	0	2	1	0	4	2	1	5	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:37903672C>T	uc002ogi.2	-	6	2446	c.1888G>A	c.(1888-1890)GGT>AGT	p.G630S	ZNF569_uc002ogh.2_Missense_Mutation_p.G471S|ZNF569_uc002ogj.2_Missense_Mutation_p.G654S	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	630					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGTTTCTCACCTGTATGTCCT	0.408													9	75					0	0	0.004482	0	0		T	37903672	T	T	37903672	3	4	197	1	0	0	0	0	1	0	0	0	18025	681	24	4	176	4	ZNF569	19	37903672	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	15055734	37903672	21225311	135	97373											
NUMBL	9253	broad.mit.edu	37	chr19	41188680	41188680	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccatcggctgacacccacaGgacagacttcacggactttc	10	7	8	16	2	1	2	1	1	0	1	3	4	1	4	2	3	0	1	2	3	0	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:41188680G>A	uc002oon.2	-	5	520	c.352C>T	c.(352-354)CTG>TTG	p.L118L	NUMBL_uc010xvq.1_Silent_p.L77L|NUMBL_uc002ooo.2_Silent_p.L118L|NUMBL_uc010xvr.1_Silent_p.L77L	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	118	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			GACACCCACAGGACAGACTTC	0.647													27	42					0	0	0.00632	0	0		A	41188680	A	A	41188680	2	1	197	1	0	0	0	0	0	0	0	1	10771	991	35	4		4	NUMBL	19	41188680	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	3285008	41188680	17940303	136	97374											
IRF2BP1	26145	broad.mit.edu	37	chr19	46388028	46388028	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaagctgcggacgccgtcGgtaagcagctcgcccagctg	7	5	15	14	6	0	0	0	0	0	0	2	2	0	2	2	3	5	5	2	3	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:46388028G>T	uc002pds.1	-	1	1349	c.1005C>A	c.(1003-1005)ACC>ACA	p.T335T		NM_015649	NP_056464	Q8IU81	I2BP1_HUMAN	interferon regulatory factor 2 binding protein	335					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0402)|Epithelial(262;0.231)		GGACGCCGTCGGTAAGCAGCT	0.692													11	36					1.61879e-10	1.71883e-10	0.013537	1	0		T	46388028	T	T	46388028	2	4	197	1	0	0	0	0	0	0	0	1	7845	1103	39	5		5	IRF2BP1	19	46388028	Silent	SNP	G	TCGA-FP-8099-01A-11D-2340-08	5199348	46388028	12740955	137	97375											
LILRA3	11026	broad.mit.edu	37	chr19	54803070	54803070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccacacatagggagcgcGcgagtcataaccatagcacc	14	4	10	13	3	1	1	1	0	0	1	1	3	1	2	3	1	3	1	3	1	3	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr19:54803070G>A	uc002qfd.2	-	4	672	c.607C>T	c.(607-609)CGC>TGC	p.R203C	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Intron	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	203	Ig-like C2-type 2.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TAGGGAGCGCGCGAGTCATAA	0.612													134	43					0	0	0.01441	0	0		A	54803070	A	A	54803070	3	1	197	1	0	0	0	0	1	0	0	0	8802	1087	38	1	728	1	LILRA3	19	54803070	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	8415042	54803070	4325913	138	97376											
NAPB	63908	broad.mit.edu	37	chr20	23370595	23370596	+	Frame_Shift_Ins	INS	-	T	T																															tcctcacctgctcatagatcINStcaatggctttctggtactg																										TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:23370595_23370596insT	uc002wta.2	-	7	665_666	c.548_549insA	c.(547-549)GAGfs	p.E183fs	NAPB_uc002wtc.2_Frame_Shift_Ins_p.E89fs|NAPB_uc002wtb.2_Frame_Shift_Ins_p.E187fs|NAPB_uc002wtd.3_RNA|NAPB_uc010zss.1_Frame_Shift_Ins_p.E70fs|NAPB_uc010zst.1_Frame_Shift_Ins_p.E144fs	NM_022080	NP_071363	Q9H115	SNAB_HUMAN	N-ethylmaleimide-sensitive factor attachment	183					intracellular protein transport|vesicle-mediated transport	membrane				ovary(1)	1	Lung NSC(19;0.0646)|Colorectal(13;0.0993)|all_lung(19;0.143)					GCTCATAGATCTCAATGGCTTT	0.376													64	116	---	---	---	---						.	T	23370596	T	T	23370595	7	5	197	1	0	1	1	0	0	0	0	0	10180	912	32	0	367	0	NAPB	20	23370595	Frame_Shift_Ins	INS	-	TCGA-FP-8099-01A-11D-2340-08		23370595	39654925	139	97377											
TPX2	22974	broad.mit.edu	37	chr20	30371652	30371652	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccaggagcgagaatcaaaGaagaaaacagaggatgaaca	21	3	11	6	1	1	5	1	1	0	4	2	8	2	7	1	2	3	0	1	2	6	0			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:30371652G>T	uc002wwp.1	+	12	2039	c.1341G>T	c.(1339-1341)AAG>AAT	p.K447N	TPX2_uc010gdv.1_Missense_Mutation_p.K483N	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog	447					activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			GAGAATCAAAGAAGAAAACAG	0.453													33	137					2.61193e-14	2.8371e-14	0.009535	1	0		T	30371652	T	T	30371652	3	4	197	1	0	0	0	0	1	0	0	0	16458	933	33	5	1379	5	TPX2	20	30371652	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	7001057	30371652	32653868	140	97378											
SLC32A1	140679	broad.mit.edu	37	chr20	37356300	37356300	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgcgccccgcgcttccCaacgctgggcggccgagtgg	3	6	15	17	6	0	0	0	0	0	0	1	1	1	0	4	3	3	3	4	3	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:37356300C>G	uc002xjc.2	+	2	859	c.596C>G	c.(595-597)CCA>CGA	p.P199R		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	199	Lumenal, vesicle (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	CCGCGCTTCCCAACGCTGGGC	0.627													48	62					0	0	0.01441	0	0		G	37356300	G	G	37356300	3	3	197	1	0	0	0	0	1	0	0	0	14590	594	21	5	602	5	SLC32A1	20	37356300	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	6984648	37356300	25669220	141	97379											
SEMG1	6406	broad.mit.edu	37	chr20	43837007	43837007	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcaagtacggaagaaagaCgactccactatggagaaaat	17	7	9	8	2	1	3	1	0	0	3	2	6	2	4	1	2	1	1	1	2	7	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:43837007C>T	uc002xni.2	+	2	1126	c.1069C>T	c.(1069-1071)CGA>TGA	p.R357*	SEMG1_uc002xnj.2_Nonsense_Mutation_p.R297*|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Intron	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	357	58 AA repeat 2.				insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				GGAAGAAAGACGACTCCACTA	0.413													21	42					0	0	0.012319	0	0		T	43837007	T	T	43837007	4	4	197	1	0	0	0	0	0	1	0	0	14069	528	19	1	1075	1	SEMG1	20	43837007	Nonsense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	6480707	43837007	19188513	142	97380											
CSTF1	1477	broad.mit.edu	37	chr20	54972832	54972832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcctggcttctggttcaaggGattatactcttaaattattt	9	18	7	7	0	3	0	1	0	2	0	4	1	4	1	1	3	1	2	1	3	6	7			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:54972832G>A	uc002xxl.1	+	4	780	c.580G>A	c.(580-582)GAT>AAT	p.D194N	CSTF1_uc002xxm.1_Missense_Mutation_p.D194N|CSTF1_uc002xxn.1_Missense_Mutation_p.D194N|CSTF1_uc002xxo.1_Missense_Mutation_p.D137N	NM_001033521	NP_001028693	Q05048	CSTF1_HUMAN	cleavage stimulation factor subunit 1	194	WD 2.				mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding			central_nervous_system(1)	1			Colorectal(105;0.202)			TGGTTCAAGGGATTATACTCT	0.393													6	84					0	0	0.001168	0	0		A	54972832	A	A	54972832	3	1	197	1	0	0	0	0	1	0	0	0	3986	1174	41	4	590	4	CSTF1	20	54972832	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	11135825	54972832	8052688	143	97381											
CTSZ	1522	broad.mit.edu	37	chr20	57571768	57571768	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccccacccagccacagaaaCgacatggtttatatatgtgg	12	8	9	12	1	0	1	0	0	0	1	0	2	0	1	4	2	2	1	4	2	4	4			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:57571768C>T	uc002yai.2	-	5	853	c.727G>A	c.(727-729)GTT>ATT	p.V243I	CTSZ_uc002yaj.3_Missense_Mutation_p.V243I	NM_001336	NP_001327	Q9UBR2	CATZ_HUMAN	cathepsin Z preproprotein	243					proteolysis	endoplasmic reticulum|extracellular space|lysosome	cysteine-type endopeptidase activity			kidney(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			GCCACAGAAACGACATGGTTT	0.473													44	129					0	0	0.010771	0	0		T	57571768	T	T	57571768	3	4	197	1	0	0	0	0	1	0	0	0	4046	536	19	1	192	1	CTSZ	20	57571768	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	2598936	57571768	5453752	144	97382											
ZNF831	128611	broad.mit.edu	37	chr20	57767395	57767395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtccaaacagggcagcatcGacctgcccacgccctacacc	10	5	8	18	2	0	0	0	0	0	0	2	1	1	0	5	1	4	2	5	1	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:57767395G>A	uc002yan.2	+	1	1321	c.1321G>A	c.(1321-1323)GAC>AAC	p.D441N		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	441						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGGCAGCATCGACCTGCCCAC	0.677													36	33					0	0	0.015359	0	0		A	57767395	A	A	57767395	3	1	197	1	0	0	0	0	1	0	0	0	18210	1058	37	1	1323	1	ZNF831	20	57767395	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	195627	57767395	5258125	145	97383											
CDH4	1002	broad.mit.edu	37	chr20	60485495	60485495	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtttgcaggggaggtcccCgaaaaccgcgtggagaccgt	9	6	15	11	4	0	1	0	0	0	1	1	4	1	2	4	4	2	2	4	4	2	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:60485495C>T	uc002ybn.1	+	9	1220	c.1206C>T	c.(1204-1206)CCC>CCT	p.P402P	CDH4_uc002ybp.1_Silent_p.P328P	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	402	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GGGAGGTCCCCGAAAACCGCG	0.428													18	85					0	0	0.006122	0	0		T	60485495	T	T	60485495	2	4	197	1	0	0	0	0	0	0	0	1	3115	639	23	1		1	CDH4	20	60485495	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	2718100	60485495	2540025	146	97384											
PSMA7	5688	broad.mit.edu	37	chr20	60714221	60714221	+	Silent	SNP	A	G	G	1	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	acgatgagggcagagatgccAaacggcctgcgcccattgct	10	6	13	12	3	0	2	0	1	0	1	0	4	0	2	3	2	4	2	3	2	1	1			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:60714221A>G	uc002ybx.1	-	4	496	c.381T>C	c.(379-381)TTT>TTC	p.F127F	PSMA7_uc002yby.1_RNA	NM_002792	NP_002783	O14818	PSA7_HUMAN	proteasome alpha 7 subunit	127					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			CAGAGATGCCAAACGGCCTGC	0.512													82	110					0	0	0.01441	0	0		G	60714221	G	G	60714221	2	3	197	1	0	0	0	0	0	0	0	1	12694	127	5	3		3	PSMA7	20	60714221	Silent	SNP	A	TCGA-FP-8099-01A-11D-2340-08	228726	60714221	2311299	147	97385											
C20orf135	140701	broad.mit.edu	37	chr20	62493709	62493709	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtgctggacgccaccttCgacgaccttgtgccgctggc	4	9	13	15	4	0	0	0	0	0	0	1	3	0	1	4	3	2	2	4	3	0	2			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr20:62493709C>T	uc002ygx.1	+	1	1144	c.816C>T	c.(814-816)TTC>TTT	p.F272F	TPD52L2_uc002ygy.2_5'Flank|TPD52L2_uc002ygz.2_5'Flank|TPD52L2_uc002yha.2_5'Flank|TPD52L2_uc002yhb.2_5'Flank|TPD52L2_uc002yhc.2_5'Flank|TPD52L2_uc002yhd.2_5'Flank|TPD52L2_uc011abk.1_5'Flank|TPD52L2_uc011abl.1_5'Flank	NM_080622	NP_542189	Q9H3Z7	ABHGB_HUMAN	hypothetical protein LOC140701	272							hydrolase activity				0	all_cancers(38;1.77e-12)|all_epithelial(29;3.12e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					ACGCCACCTTCGACGACCTTG	0.667													21	29					0	0	0.01892	0	0		T	62493709	T	T	62493709	2	4	197	1	0	0	0	0	0	0	0	1	2091	883	31	1		1	C20orf135	20	62493709	Silent	SNP	C	TCGA-FP-8099-01A-11D-2340-08	1779488	62493709	531811	148	97386											
SMTN	6525	broad.mit.edu	37	chr22	31495818	31495818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttcttccctgaggccttcGactatgggcagcttagccct	6	12	9	14	1	1	1	0	1	1	0	3	2	2	1	3	2	2	2	3	2	2	5			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chr22:31495818G>A	uc003ajl.1	+	19	2757	c.2539G>A	c.(2539-2541)GAC>AAC	p.D847N	SMTN_uc003ajk.1_Missense_Mutation_p.D847N|SMTN_uc003ajm.1_Missense_Mutation_p.D847N|SMTN_uc011ale.1_Missense_Mutation_p.D932N|SMTN_uc011alf.1_Missense_Mutation_p.D903N|SMTN_uc003ajn.1_Missense_Mutation_p.D870N|SMTN_uc011alg.1_Missense_Mutation_p.D303N|SMTN_uc003ajo.1_Missense_Mutation_p.D370N|SMTN_uc010gwe.1_Missense_Mutation_p.D227N|SMTN_uc003ajp.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	847	CH.				muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						TGAGGCCTTCGACTATGGGCA	0.572													18	44					0	0	0.00499	0	0		A	31495818	A	A	31495818	3	1	197	1	0	0	0	0	1	0	0	0	14839	1058	37	1	2609	1	SMTN	22	31495818	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08		31495818	19808748	149	97387											
NAP1L2	4674	broad.mit.edu	37	chrX	72433043	72433043	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcataaataattttgtcaTaaattgcatcattaacttct	15	18	2	6	0	4	0	3	0	1	0	4	0	4	0	0	0	2	1	0	0	7	9			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chrX:72433043T>C	uc004ebi.2	-	1	1642	c.1286A>G	c.(1285-1287)TAT>TGT	p.Y429C	NAP1L2_uc011mqj.1_Missense_Mutation_p.Y287C	NM_021963	NP_068798	Q9ULW6	NP1L2_HUMAN	nucleosome assembly protein 1-like 2	429					nucleosome assembly	chromatin assembly complex				lung(1)	1	Renal(35;0.156)					AATTTTGTCATAAATTGCATC	0.358													6	3					0	0	0.001984	0	0		C	72433043	C	C	72433043	3	2	197	1	0	0	0	0	1	0	0	0	10175	1406	49	3	100	3	NAP1L2	23	72433043	Missense_Mutation	SNP	T	TCGA-FP-8099-01A-11D-2340-08		72433043	82837517	150	97388											
CXorf48	54967	broad.mit.edu	37	chrX	134294425	134294425	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacacatccaattaaaactCtggttcctgagtctgagggt	12	12	8	9	0	2	2	0	2	2	0	4	2	4	2	2	2	2	1	2	2	4	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chrX:134294425C>A	uc004eyk.1	-	3	991	c.335G>T	c.(334-336)AGA>ATA	p.R112I	CXorf48_uc004eyl.1_Missense_Mutation_p.R112I	NM_001031705	NP_001026875	Q8WUE5	CX048_HUMAN	hypothetical protein LOC54967 isoform 1	112											0	Acute lymphoblastic leukemia(192;0.000127)					AATTAAAACTCTGGTTCCTGA	0.328													12	2					4.3838e-07	4.57756e-07	0.016723	1	0		A	134294425	A	A	134294425	3	1	197	1	0	0	0	0	1	0	0	0	4114	913	32	5	479	5	CXorf48	23	134294425	Missense_Mutation	SNP	C	TCGA-FP-8099-01A-11D-2340-08	61861382	134294425	20976135	151	97389											
PDZD4	57595	broad.mit.edu	37	chrX	153072792	153072792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgccctccataaactccGccgggtcataatactcatgg	9	8	9	15	3	2	0	2	0	0	0	4	0	4	0	5	3	2	0	5	3	4	3			TCGA-FP-8099-01A-11D-2340-08	TCGA-FP-8099-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c3586481-ed72-4767-9679-09051e29f925	7cf5b9a5-a93c-4956-bb53-40d2cfea4994	g.chrX:153072792G>A	uc004fiz.1	-	3	579	c.329C>T	c.(328-330)GCG>GTG	p.A110V	PDZD4_uc004fiy.1_Missense_Mutation_p.A35V|PDZD4_uc004fix.2_Missense_Mutation_p.A14V|PDZD4_uc004fja.1_Missense_Mutation_p.A116V|PDZD4_uc011mze.1_Intron	NM_032512	NP_115901	Q76G19	PDZD4_HUMAN	PDZ domain containing 4	110						cell cortex				breast(1)	1	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)					CATAAACTCCGCCGGGTCATA	0.672													3	24					0	0	0.004672	0	0		A	153072792	A	A	153072792	3	1	197	1	0	0	0	0	1	0	0	0	11722	1087	38	1	2004	1	PDZD4	23	153072792	Missense_Mutation	SNP	G	TCGA-FP-8099-01A-11D-2340-08	18778367	153072792	2197768	152	97390											
NBPF9	400818	broad.mit.edu	37	chr1	144823868	144823868	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagtcttgcaggactcactgTatagatgttattcaactcct	11	14	7	9	0	3	1	2	0	1	1	4	2	4	2	1	1	2	3	1	1	5	5			TCGA-FP-8209-01A-11D-2340-08	TCGA-FP-8209-11A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	b379db23-0a52-4758-8511-6ab09c95f18c	1b97b4d8-4c58-4014-8c82-7e933a3357ff	g.chr1:144823868T>G	uc009wig.1	+	17	1985	c.1909T>G	c.(1909-1911)TAT>GAT	p.Y637D	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Intron|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Missense_Mutation_p.Y438D|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|NBPF9_uc001elp.2_Missense_Mutation_p.Y297D	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	637	NBPF 4.					cytoplasm					0						GGACTCACTGTATAGATGTTA	0.478													5	0					0	0	1	0	0		G	144823868	G	G	144823868	3	3	198	1	0	0	0	0	1	0	0	0	10218	1638	57	5	1961	5	NBPF9	1	144823868	Missense_Mutation	SNP	T	TCGA-FP-8209-01A-11D-2340-08		144823868	104426753	1	97391											
JUND	3727	broad.mit.edu	37	chr19	18391902	18391902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggcgaactcctgctcctcGctggccgccaccttggggta	4	9	12	16	4	0	0	0	0	0	0	4	1	2	0	5	4	2	3	5	4	2	2			TCGA-FP-8209-01A-11D-2340-08	TCGA-FP-8209-11A-01D-2340-08									Somatic	Phase_I	Capture				Illumina GAIIx	b379db23-0a52-4758-8511-6ab09c95f18c	1b97b4d8-4c58-4014-8c82-7e933a3357ff	g.chr19:18391902G>A	uc002nip.2	-	1	531	c.393C>T	c.(391-393)AGC>AGT	p.S131S	hsa-mir-3188|MI0014232_5'Flank	NM_005354	NP_005345	P17535	JUND_HUMAN	jun D proto-oncogene	131					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						CCTGCTCCTCGCTGGCCGCCA	0.572													3	12					0	0	1	0	0		A	18391902	A	A	18391902	2	1	198	1	0	0	0	0	0	0	0	1	7987	1078	38	1		1	JUND	19	18391902	Silent	SNP	G	TCGA-FP-8209-01A-11D-2340-08		18391902	40737081	2	97392											
NOC2L	26155	broad.mit.edu	37	chr1	892322	892322	+	Silent	SNP	A	C	C	1	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	atggcgacggtcacaggaacAgaattcttcttccccttcag	10	10	9	12	2	4	1	2	0	2	1	5	3	5	2	2	3	1	0	2	3	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:892322A>C	uc001abz.3	-	4	497	c.438T>G	c.(436-438)TCT>TCG	p.S146S	NOC2L_uc001aby.3_5'UTR|NOC2L_uc009vjq.2_Silent_p.S146S	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	146						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		TCACAGGAACAGAATTCTTCT	0.597													25	118					0	0	1	0	0		C	892322	C	C	892322	2	2	199	1	0	0	0	0	0	0	0	1	10532	175	7	5		5	NOC2L	1	892322	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08		892322	248358299	1	97393											
ATAD3C	219293	broad.mit.edu	37	chr1	1390849	1390849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccctccagcaggtcagcCggcggctcctcagtcgaccc	5	7	10	19	3	2	0	2	0	0	0	6	1	5	0	6	3	2	2	6	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:1390849C>T	uc001aft.2	+	5	1383	c.388C>T	c.(388-390)CGG>TGG	p.R130W		NM_001039211	NP_001034300	Q5T2N8	ATD3C_HUMAN	ATPase family, AAA domain containing 3C	130							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		GCAGGTCAGCCGGCGGCTCCT	0.652													3	28					0	0	1	0	0		T	1390849	T	T	1390849	3	4	199	1	0	0	0	0	1	0	0	0	1076	643	23	1	406	1	ATAD3C	1	1390849	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	498527	1390849	247859772	2	97394											
SKI	6497	broad.mit.edu	37	chr1	2235472	2235472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggagccccagagacgctgGcgcccgtggctgccccagag	7	3	15	16	3	0	2	0	0	0	2	0	4	0	3	5	3	2	2	5	3	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:2235472G>A	uc001aja.3	+	4	1477	c.1405G>A	c.(1405-1407)GCG>ACG	p.A469T		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	469					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	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)		AGAGACGCTGGCGCCCGTGGC	0.672													6	19					0	0	1	0	0		A	2235472	A	A	2235472	3	1	199	1	0	0	0	0	1	0	0	0	14382	1203	42	2	1419	2	SKI	1	2235472	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	844623	2235472	247015149	3	97395											
CAMTA1	23261	broad.mit.edu	37	chr1	7792623	7792623	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggaggcggcagcagtggaggCggcagcgggagcgggaatgg	8	2	24	7	4	0	0	0	0	0	0	0	4	0	4	0	9	3	3	0	9	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:7792623C>T	uc001aoi.2	+	12	3237	c.3030C>T	c.(3028-3030)GGC>GGT	p.G1010G	CAMTA1_uc010nzv.1_Silent_p.G97G|CAMTA1_uc001aok.3_Silent_p.G53G	NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	1010					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		GCAGTGGAGGCGGCAGCGGGA	0.627													6	23					0	0	1	0	0		T	7792623	T	T	7792623	2	4	199	1	0	0	0	0	0	0	0	1	2616	755	27	1		1	CAMTA1	1	7792623	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5557151	7792623	241457998	4	97396											
TMEM201	199953	broad.mit.edu	37	chr1	9661216	9661216	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcatcctgctccgtgccctCgccttcctggcctgcgcctt	1	12	9	19	3	1	0	1	0	0	0	5	0	4	0	7	1	3	1	7	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:9661216C>T	uc001apz.2	+	5	672	c.660C>T	c.(658-660)CTC>CTT	p.L220L	TMEM201_uc001apy.2_Silent_p.L220L	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	220	Helical; (Potential).					integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		TCCGTGCCCTCGCCTTCCTGG	0.662													23	81					0	0	1	0	0		T	9661216	T	T	9661216	2	4	199	1	0	0	0	0	0	0	0	1	16151	871	31	1		1	TMEM201	1	9661216	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1868593	9661216	239589405	5	97397											
CLSTN1	22883	broad.mit.edu	37	chr1	9793524	9793524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagatgagcttaaacttccGgtcaagcaaggacctggcat	12	8	11	10	1	1	2	1	1	0	1	2	3	2	3	2	3	3	4	2	3	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:9793524G>A	uc001aqh.2	-	16	3121	c.2362C>T	c.(2362-2364)CGG>TGG	p.R788W	CLSTN1_uc001aqi.2_Missense_Mutation_p.R778W|CLSTN1_uc010oag.1_Missense_Mutation_p.R769W|CLSTN1_uc001aqf.2_Missense_Mutation_p.R24W	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	788	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TTAAACTTCCGGTCAAGCAAG	0.562													9	40					0	0	1	0	0		A	9793524	A	A	9793524	3	1	199	1	0	0	0	0	1	0	0	0	3564	1115	39	1	599	1	CLSTN1	1	9793524	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	132308	9793524	239457097	6	97398											
UBE4B	10277	broad.mit.edu	37	chr1	10132092	10132092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctcatgttgtagattcgaCggaggcgccttgcacgactt	7	11	11	12	4	1	1	1	0	0	1	2	4	1	2	2	2	1	3	2	2	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:10132092C>T	uc001aqs.3	+	2	744	c.31C>T	c.(31-33)CGG>TGG	p.R11W	UBE4B_uc001aqr.3_Missense_Mutation_p.R11W|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_Translation_Start_Site	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	11					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		GTAGATTCGACGGAGGCGCCT	0.522													12	37					0	0	1	0	0		T	10132092	T	T	10132092	3	4	199	1	0	0	0	0	1	0	0	0	16909	527	19	1	37	1	UBE4B	1	10132092	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	338568	10132092	239118529	7	97399											
PRAMEF12	390999	broad.mit.edu	37	chr1	12835720	12835720	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagtgttggacttgcggaatGtggatgagaacttctggggc	9	11	16	5	1	1	1	0	1	1	1	1	5	1	4	0	5	2	1	0	5	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:12835720G>A	uc001aui.2	+	2	349	c.322G>A	c.(322-324)GTG>ATG	p.V108M		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	108										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTTGCGGAATGTGGATGAGAA	0.522													26	168					0	0	1	0	0		A	12835720	A	A	12835720	3	1	199	1	0	0	0	0	1	0	0	0	12450	1377	48	4	328	4	PRAMEF12	1	12835720	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2703628	12835720	236414901	8	97400											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809705	18809705	+	Missense_Mutation	SNP	A	G	G	1	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	tagcagactctgtctcacccAggtttgtgcccaaggagctg	8	10	11	12	0	2	1	1	0	2	1	3	2	2	2	2	2	3	3	2	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:18809705A>G	uc001bax.2	+	1	2282	c.2230A>G	c.(2230-2232)AGG>GGG	p.R744G	KLHDC7A_uc009vpg.2_Missense_Mutation_p.R526G	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	744						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TGTCTCACCCAGGTTTGTGCC	0.652													19	73					0	0	1	0	0		G	18809705	G	G	18809705	3	3	199	1	0	0	0	0	1	0	0	0	8376	179	7	3	2232	3	KLHDC7A	1	18809705	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	5973985	18809705	230440916	9	97401											
NBL1	4681	broad.mit.edu	37	chr1	19981835	19981835	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcgtgcctaggacagtgCttcagctacagcgtccccaa	9	7	12	13	2	1	0	1	0	0	0	2	1	2	1	3	2	5	2	3	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:19981835C>T	uc001bck.1	+	3	341	c.186C>T	c.(184-186)TGC>TGT	p.C62C	NBL1_uc009vpl.1_Silent_p.C63C|NBL1_uc001bcj.1_Silent_p.C98C|NBL1_uc009vpm.1_Silent_p.C63C	NM_005380	NP_005371	P41271	NBL1_HUMAN	neuroblastoma, suppression of tumorigenicity 1 2	62	CTCK.					extracellular region				ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Breast(348;0.00043)|Ovarian(437;0.00373)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;5.9e-05)|Kidney(64;0.000173)|GBM - Glioblastoma multiforme(114;0.0012)|KIRC - Kidney renal clear cell carcinoma(64;0.0026)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TAGGACAGTGCTTCAGCTACA	0.602													8	80					0	0	1	0	0		T	19981835	T	T	19981835	2	4	199	1	0	0	0	0	0	0	0	1	10208	805	28	2		2	NBL1	1	19981835	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1172130	19981835	229268786	10	97402											
USP48	84196	broad.mit.edu	37	chr1	22016488	22016488	+	Silent	SNP	A	G	G	1	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	ttcaataaaatgacagattcAggaatgacgccaagggtgcc	15	8	10	8	1	2	3	2	2	0	1	2	4	2	4	2	2	1	0	2	2	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:22016488A>G	uc001bfb.2	-	24	3226	c.2988T>C	c.(2986-2988)CCT>CCC	p.P996P	USP48_uc001bfa.2_Silent_p.P482P|USP48_uc010odq.1_Silent_p.P1008P|USP48_uc009vqc.2_Silent_p.P930P|USP48_uc001bfc.2_Silent_p.P944P|USP48_uc001bfd.1_Silent_p.P121P	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	996	Ubiquitin-like.				ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		TGACAGATTCAGGAATGACGC	0.393													10	46					0	0	1	0	0		G	22016488	G	G	22016488	2	3	199	1	0	0	0	0	0	0	0	1	17105	175	7	3		3	USP48	1	22016488	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2034653	22016488	227234133	11	97403											
EPHA8	2046	broad.mit.edu	37	chr1	22923860	22923860	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgggaaagctcccagagccCcagttctatgcggaacccca	10	5	10	16	2	1	1	0	0	1	1	2	3	2	3	6	2	4	2	6	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:22923860C>T	uc001bfx.1	+	10	1946	c.1821C>T	c.(1819-1821)CCC>CCT	p.P607P		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	607	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TCCCAGAGCCCCAGTTCTATG	0.642													7	82					0	0	1	0	0		T	22923860	T	T	22923860	2	4	199	1	0	0	0	0	0	0	0	1	5181	610	22	4		4	EPHA8	1	22923860	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	907372	22923860	226326761	12	97404											
EPHB2	2048	broad.mit.edu	37	chr1	23240030	23240030	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtatccaggtgatgcgggcGcagatgaaccagattcagtc	11	8	13	9	2	1	4	1	2	0	2	3	4	2	4	2	2	2	2	2	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:23240030G>A	uc009vqj.1	+	16	3073	c.2928G>A	c.(2926-2928)GCG>GCA	p.A976A	EPHB2_uc001bge.2_Silent_p.A977A|EPHB2_uc001bgf.2_Silent_p.A976A|EPHB2_uc010odu.1_Silent_p.A918A	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	976	Cytoplasmic (Potential).|SAM.				axon guidance	integral to plasma membrane	ATP binding|transmembrane-ephrin receptor activity			ovary(3)|lung(1)|pancreas(1)	5		Colorectal(325;3.46e-05)|Lung NSC(340;3.7e-05)|all_lung(284;5.45e-05)|Renal(390;0.000228)|Breast(348;0.0027)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0258)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0348)|OV - Ovarian serous cystadenocarcinoma(117;3.67e-26)|Colorectal(126;3.23e-08)|COAD - Colon adenocarcinoma(152;9.32e-07)|GBM - Glioblastoma multiforme(114;2.93e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000606)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.126)|Lung(427;0.153)		TGATGCGGGCGCAGATGAACC	0.582									Hereditary_Prostate_Cancer				6	77					0	0	1	0	0		A	23240030	A	A	23240030	2	1	199	1	0	0	0	0	0	0	0	1	5183	1074	38	1		1	EPHB2	1	23240030	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	316170	23240030	226010591	13	97405											
C1orf201	90529	broad.mit.edu	37	chr1	24685105	24685105	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggaagctctggcttgtaCgtagctgtgaggggacagag	8	9	16	8	1	1	2	0	1	1	1	1	4	1	4	1	4	3	5	1	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:24685105C>T	uc001bjc.2	-	9	1068	c.933G>A	c.(931-933)ACG>ACA	p.T311T	C1orf201_uc010oej.1_Missense_Mutation_p.V98I|C1orf201_uc001bja.2_Silent_p.T264T|C1orf201_uc001bjb.2_Silent_p.T219T|C1orf201_uc001bjd.2_Silent_p.T311T			Q5TH74	CA201_HUMAN	RecName: Full=UPF0490 protein C1orf201;	311										ovary(1)|breast(1)	2		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.0191)|all_lung(284;0.0251)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.056)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.48e-25)|Colorectal(126;7.29e-08)|COAD - Colon adenocarcinoma(152;3.85e-06)|GBM - Glioblastoma multiforme(114;0.000399)|BRCA - Breast invasive adenocarcinoma(304;0.00107)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00393)|READ - Rectum adenocarcinoma(331;0.0672)|Lung(427;0.145)		CTGGCTTGTACGTAGCTGTGA	0.458													5	45					0	0	1	0	0		T	24685105	T	T	24685105	2	4	199	1	0	0	0	0	0	0	0	1	2030	523	19	1		1	C1orf201	1	24685105	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1445075	24685105	224565516	14	97406											
ZDHHC18	84243	broad.mit.edu	37	chr1	27179250	27179250	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcctgcttgcagatcaaaGgctcgtggtccagcaagagg	9	9	12	11	1	1	2	1	0	0	2	4	2	3	2	2	3	3	4	2	3	2	2	rs35264488		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:27179250G>T	uc001bnb.2	+	7	1038	c.943G>T	c.(943-945)GGC>TGC	p.G315C		NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18	315						integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|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)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		GCAGATCAAAGGCTCGTGGTC	0.547											OREG0013274	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	58					2.32078e-09	2.52409e-09	1	1	0		T	27179250	T	T	27179250	3	4	199	1	0	0	0	0	1	0	0	0	17633	1000	35	5	969	5	ZDHHC18	1	27179250	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2494145	27179250	222071371	15	97407											
NUDC	10726	broad.mit.edu	37	chr1	27269429	27269429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtggacatccagcggcGgcacctccgggtggggctca	5	6	18	12	3	1	0	1	0	0	0	3	1	3	1	3	8	1	2	3	8	0	0	rs148845287	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:27269429G>A	uc001bng.1	+	6	730	c.614G>A	c.(613-615)CGG>CAG	p.R205Q	NUDC_uc001bnh.1_Missense_Mutation_p.R262Q|NUDC_uc009vsq.1_Missense_Mutation_p.R179Q	NM_006600	NP_006591	Q9Y266	NUDC_HUMAN	nuclear distribution gene C homolog	205	CS.				cell proliferation|cytokinesis|mitotic prometaphase|multicellular organismal development	cytosol|microtubule|nucleoplasm	protein binding			ovary(1)	1				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)		ATCCAGCGGCGGCACCTCCGG	0.607													14	52					0	0	1	0	0		A	27269429	A	A	27269429	3	1	199	1	0	0	0	0	1	0	0	0	10740	1116	39	1	636	1	NUDC	1	27269429	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	90179	27269429	221981192	16	97408											
SLC9A1	6548	broad.mit.edu	37	chr1	27426886	27426886	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgctgtatcctctgggagCtggggctgtcactgggcgcg	4	9	17	11	3	2	0	1	0	1	0	3	1	3	1	1	4	2	4	1	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:27426886C>A	uc001bnm.2	-	12	2986	c.2360G>T	c.(2359-2361)AGC>ATC	p.S787I	SLC9A1_uc001bnl.2_Missense_Mutation_p.S291I|SLC9A1_uc010ofk.1_Missense_Mutation_p.S448I	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	787	Cytoplasmic (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	CCTCTGGGAGCTGGGGCTGTC	0.647													5	39					0.00198382	0.00202812	1	1	0		A	27426886	A	A	27426886	3	1	199	1	0	0	0	0	1	0	0	0	14734	797	28	5	91	5	SLC9A1	1	27426886	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	157457	27426886	221823735	17	97409											
EPB41	2035	broad.mit.edu	37	chr1	29379779	29379779	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctgaagtgaaaaaggaagaCgagccacctgagcaagctga	16	4	13	8	1	0	5	0	4	0	1	0	7	0	6	2	1	3	3	2	1	5	0	rs139530083		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:29379779C>T	uc001brm.1	+	11	1807	c.1800C>T	c.(1798-1800)GAC>GAT	p.D600D	EPB41_uc001brg.1_Silent_p.D391D|EPB41_uc001brh.1_Silent_p.D391D|EPB41_uc001bri.1_Silent_p.D565D|EPB41_uc001brj.1_Silent_p.D391D|EPB41_uc009vtk.1_Silent_p.D564D|EPB41_uc001brk.2_Silent_p.D600D|EPB41_uc001brl.1_Silent_p.D600D|EPB41_uc009vtl.1_Silent_p.D391D|EPB41_uc009vtm.1_Silent_p.D233D	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	600	Hydrophilic.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		AAAAGGAAGACGAGCCACCTG	0.478													6	60					0	0	1	0	0		T	29379779	T	T	29379779	2	4	199	1	0	0	0	0	0	0	0	1	5159	535	19	1		1	EPB41	1	29379779	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1952893	29379779	219870842	18	97410											
PTPRU	10076	broad.mit.edu	37	chr1	29585071	29585071	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccaggccagcgagcccatgTcatcttccagagcctgagcg	8	6	11	16	2	2	2	1	1	1	1	3	3	3	2	5	1	4	0	5	1	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:29585071T>C	uc001bru.2	+	3	370	c.260T>C	c.(259-261)GTC>GCC	p.V87A	PTPRU_uc001brv.2_Missense_Mutation_p.V87A|PTPRU_uc001brw.2_Missense_Mutation_p.V87A|PTPRU_uc009vtq.2_Missense_Mutation_p.V87A|PTPRU_uc009vtr.2_Missense_Mutation_p.V87A	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	87	Extracellular (Potential).|MAM.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CGAGCCCATGTCATCTTCCAG	0.602													40	299					0	0	1	0	0		C	29585071	C	C	29585071	3	2	199	1	0	0	0	0	1	0	0	0	12838	1667	58	3	270	3	PTPRU	1	29585071	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	205292	29585071	219665550	19	97411											
HPCA	3208	broad.mit.edu	37	chr1	33354832	33354832	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcagcatgtatgacctggaCggcaacggctacatcagccg	10	8	11	12	3	2	1	2	1	0	0	2	2	2	2	2	3	4	4	2	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:33354832C>T	uc001bwh.2	+	2	373	c.333C>T	c.(331-333)GAC>GAT	p.D111D		NM_002143	NP_002134	P84074	HPCA_HUMAN	hippocalcin	111	EF-hand 3.|2 (Potential).						actin binding|calcium ion binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				ATGACCTGGACGGCAACGGCT	0.602													8	44					0	0	1	0	0		T	33354832	T	T	33354832	2	4	199	1	0	0	0	0	0	0	0	1	7345	535	19	1		1	HPCA	1	33354832	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3769761	33354832	215895789	20	97412											
CSMD2	114784	broad.mit.edu	37	chr1	33998768	33998768	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgagcgtgtagcccatggaGggcaaatccagggccccgac	10	5	14	12	2	0	1	0	1	0	0	1	3	1	2	4	3	2	2	4	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:33998768G>T	uc001bxn.1	-	63	9650	c.9621C>A	c.(9619-9621)CCC>CCA	p.P3207P	CSMD2_uc001bxm.1_Silent_p.P3351P	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3207	Sushi 26.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGCCCATGGAGGGCAAATCCA	0.627													3	22					1	1	1	1	0		T	33998768	T	T	33998768	2	4	199	1	0	0	0	0	0	0	0	1	3948	987	35	5		5	CSMD2	1	33998768	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	643936	33998768	215251853	21	97413											
EIF2C1	26523	broad.mit.edu	37	chr1	36381048	36381048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacttgtcctacatggtgCgtgagctcctcatccaattc	9	12	8	12	1	1	2	1	1	0	1	5	2	4	2	3	1	3	1	3	1	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:36381048C>T	uc001bzl.2	+	15	2146	c.1933C>T	c.(1933-1935)CGT>TGT	p.R645C	EIF2C1_uc001bzk.2_Missense_Mutation_p.R570C|EIF2C1_uc009vuy.2_RNA	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	645	Piwi.				negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTACATGGTGCGTGAGCTCCT	0.562													23	74					0	0	1	0	0		T	36381048	T	T	36381048	3	4	199	1	0	0	0	0	1	0	0	0	5011	768	27	1	1991	1	EIF2C1	1	36381048	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2382280	36381048	212869573	22	97414											
EIF2C1	26523	broad.mit.edu	37	chr1	36384702	36384702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttctttgggatgacaaccGtttcacagcagatgagctcc	9	12	10	10	1	2	3	1	2	1	1	3	4	3	4	2	1	3	4	2	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:36384702G>A	uc001bzl.2	+	18	2525	c.2312G>A	c.(2311-2313)CGT>CAT	p.R771H	EIF2C1_uc001bzk.2_Missense_Mutation_p.R696H|EIF2C1_uc009vuy.2_RNA	NM_012199	NP_036331	Q9UL18	AGO1_HUMAN	eukaryotic translation initiation factor 2C, 1	771	Piwi.				negative regulation of translation involved in gene silencing by miRNA|nuclear-transcribed mRNA catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|polysome	protein binding|RNA binding			ovary(2)|skin(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GATGACAACCGTTTCACAGCA	0.547													20	46					0	0	1	0	0		A	36384702	A	A	36384702	3	1	199	1	0	0	0	0	1	0	0	0	5011	1145	40	1	2382	1	EIF2C1	1	36384702	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3654	36384702	212865919	23	97415											
EPHA10	284656	broad.mit.edu	37	chr1	38185131	38185131	+	Missense_Mutation	SNP	A	G	G	1	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	tggggggctctgggtcctgcAccatcttgctcaggatgctg	4	11	15	11	0	3	0	1	0	2	0	4	1	4	1	2	5	3	4	2	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:38185131A>G	uc009vvi.2	-	15	2797	c.2711T>C	c.(2710-2712)GTG>GCG	p.V904A	EPHA10_uc001cbt.2_Intron|EPHA10_uc009vvh.1_Intron|EPHA10_uc001cbu.2_Intron|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	904	Cytoplasmic (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				TGGGTCCTGCACCATCTTGCT	0.617													3	29					0	0	1	0	0		G	38185131	G	G	38185131	3	3	199	1	0	0	0	0	1	0	0	0	5174	159	6	3	327	3	EPHA10	1	38185131	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1800429	38185131	211065490	24	97416											
EPHA10	284656	broad.mit.edu	37	chr1	38197252	38197252	+	Silent	SNP	A	G	G	1	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	gagtaagtctgctcactctgAccctggagagagatcaagaa	13	8	11	9	0	4	4	2	1	2	3	4	7	4	4	1	1	1	2	1	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:38197252A>G	uc009vvi.2	-	7	1580	c.1494T>C	c.(1492-1494)GGT>GGC	p.G498G	EPHA10_uc009vvh.1_RNA|EPHA10_uc001cbu.2_RNA|EPHA10_uc001cbv.1_RNA	NM_001099439	NP_001092909	Q5JZY3	EPHAA_HUMAN	EPH receptor A10 isofom 3	498	Fibronectin type-III 2.|Extracellular (Potential).					extracellular region|integral to membrane|integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding|transmembrane-ephrin receptor activity			breast(4)|stomach(3)|lung(1)	8	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GCTCACTCTGACCCTGGAGAG	0.582													11	76					0	0	1	0	0		G	38197252	G	G	38197252	2	3	199	1	0	0	0	0	0	0	0	1	5174	262	10	3		3	EPHA10	1	38197252	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	12121	38197252	211053369	25	97417											
PPT1	5538	broad.mit.edu	37	chr1	40557020	40557020	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttgatgttgtcccccaacCgagatcagattgatcatggg	9	11	10	11	1	2	4	2	2	0	2	3	5	3	4	4	1	1	1	4	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:40557020C>T	uc001cfb.2	-	4	646	c.414G>A	c.(412-414)TCG>TCA	p.S138S	PPT1_uc010ojf.1_Silent_p.S88S|PPT1_uc010ojg.1_Intron|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	138					brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	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)			GTCCCCCAACCGAGATCAGAT	0.423													3	35					0	0	1	0	0		T	40557020	T	T	40557020	2	4	199	1	0	0	0	0	0	0	0	1	12433	639	23	1		1	PPT1	1	40557020	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2359768	40557020	208693601	26	97418											
PPT1	5538	broad.mit.edu	37	chr1	40557753	40557753	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggagaatcccatagcattgTagccttgctgcaatttagga	11	11	11	8	0	0	1	0	0	0	1	1	3	1	2	2	2	4	4	2	2	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:40557753T>C	uc001cfb.2	-	3	558	c.326A>G	c.(325-327)TAC>TGC	p.Y109C	PPT1_uc010ojf.1_Missense_Mutation_p.Y59C|PPT1_uc010ojg.1_Intron|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	109			Y -> D (in CLN1).		brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	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)			CATAGCATTGTAGCCTTGCTG	0.388													17	82					0	0	1	0	0		C	40557753	C	C	40557753	3	2	199	1	0	0	0	0	1	0	0	0	12433	1638	57	3	622	3	PPT1	1	40557753	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	733	40557753	208692868	27	97419											
RLF	6018	broad.mit.edu	37	chr1	40702683	40702683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaaaagcatgacgatctgcGttacaaatgtgaattaaatg	17	10	8	6	2	1	2	0	2	1	0	1	3	1	2	0	0	3	2	0	0	7	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:40702683G>A	uc001cfc.3	+	8	2340	c.2309G>A	c.(2308-2310)CGT>CAT	p.R770H	RLF_uc001cfd.3_Missense_Mutation_p.R461H	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	770					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			GACGATCTGCGTTACAAATGT	0.388													31	110					0	0	1	0	0		A	40702683	A	A	40702683	3	1	199	1	0	0	0	0	1	0	0	0	13414	1145	40	1	2339	1	RLF	1	40702683	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	144930	40702683	208547938	28	97420											
TMCO2	127391	broad.mit.edu	37	chr1	40717165	40717165	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tagaagggataatcgttgctCaaaaacctgccacgaagagg	15	7	11	8	2	1	2	1	0	0	2	2	4	1	3	2	2	3	2	2	2	6	3	rs79139067		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:40717165C>T	uc001cfe.2	+	2	541	c.448C>T	c.(448-450)CAA>TAA	p.Q150*		NM_001008740	NP_001008740	Q7Z6W1	TMCO2_HUMAN	transmembrane and coiled-coil domains 2	150	Potential.					integral to membrane				ovary(1)	1	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)			AATCGTTGCTCAAAAACCTGC	0.443													4	45					0	0	1	0	0		T	40717165	T	T	40717165	4	4	199	1	0	0	0	0	0	1	0	0	16021	827	29	4	454	4	TMCO2	1	40717165	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	14482	40717165	208533456	29	97421											
PPCS	79717	broad.mit.edu	37	chr1	42922652	42922652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggagctaccaggaggctgCggctgcaggcaccttcctgg	7	6	16	12	1	0	0	0	0	0	0	1	3	1	2	3	6	4	5	3	6	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:42922652C>T	uc001chl.2	+	1	480	c.416C>T	c.(415-417)GCG>GTG	p.A139V	ZMYND12_uc001chj.2_5'Flank|ZMYND12_uc010ojt.1_5'Flank|PPCS_uc001chk.2_Intron	NM_024664	NP_078940	Q9HAB8	PPCS_HUMAN	phosphopantothenoylcysteine synthetase isoform	139					coenzyme biosynthetic process|pantothenate metabolic process	cytosol	phosphopantothenate--cysteine ligase activity				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CAGGAGGCTGCGGCTGCAGGC	0.627													3	51					0	0	1	0	0		T	42922652	T	T	42922652	3	4	199	1	0	0	0	0	1	0	0	0	12324	768	27	1	418	1	PPCS	1	42922652	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2205487	42922652	206327969	30	97422											
HYI	81888	broad.mit.edu	37	chr1	43919088	43919088	+	Frame_Shift_Del	DEL	C	-	-																															cagggctttggcataccgcaCggcctgctccagtccctctc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:43919088delC	uc001cjo.2	-	2	450	c.280delG	c.(280-282)GTGfs	p.V94fs	HYI_uc001cjm.2_Frame_Shift_Del_p.V21fs|HYI_uc001cjn.2_Frame_Shift_Del_p.V94fs|HYI_uc001cjp.2_Frame_Shift_Del_p.V21fs	NM_031207	NP_112484	Q5T013	HYI_HUMAN	hydroxypyruvate isomerase homolog	94							hydroxypyruvate isomerase activity			ovary(1)	1	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCATACCGCACGGCCTGCTCC	0.677													4	6	---	---	---	---						.	-	43919088	-	-	43919088	7	5	199	1	0	1	0	1	0	0	0	0	7484	536	19	0	581	0	HYI	1	43919088	Frame_Shift_Del	DEL	C	TCGA-HF-7132-01A-11D-2053-08	996436	43919088	205331533	31	97423											
PTPRF	5792	broad.mit.edu	37	chr1	44035429	44035429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgccacgagcaacggccGcatcaagcagctgcgttcag	9	5	11	16	4	2	0	2	0	0	0	2	1	2	0	3	1	6	5	3	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:44035429G>A	uc001cjr.2	+	6	888	c.548G>A	c.(547-549)CGC>CAC	p.R183H	PTPRF_uc001cjq.3_Missense_Mutation_p.R183H|PTPRF_uc001cjs.2_Missense_Mutation_p.R183H|PTPRF_uc001cjt.3_Missense_Mutation_p.R183H	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	183	Extracellular (Potential).|Ig-like C2-type 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGCAACGGCCGCATCAAGCAG	0.587													8	33					0	0	1	0	0		A	44035429	A	A	44035429	3	1	199	1	0	0	0	0	1	0	0	0	12826	1087	38	1	562	1	PTPRF	1	44035429	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	116341	44035429	205215192	32	97424											
NRD1	4898	broad.mit.edu	37	chr1	52293532	52293532	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attagtgggtggatgaagaaCtgcgcccatctgaacaaaaa	15	8	11	7	1	1	3	0	2	1	1	1	4	1	4	1	2	3	0	1	2	6	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:52293532C>T	uc001ctc.3	-	7	1402	c.1080G>A	c.(1078-1080)CAG>CAA	p.Q360Q	NRD1_uc009vzb.2_Silent_p.Q55Q|NRD1_uc001ctd.3_Silent_p.Q292Q|NRD1_uc001cte.2_Silent_p.Q228Q|NRD1_uc001ctf.2_Silent_p.Q292Q|NRD1_uc010ong.1_RNA|NRD1_uc009vzc.1_Silent_p.Q160Q	NM_002525	NP_002516	O43847	NRDC_HUMAN	nardilysin isoform a	291					cell migration|cell proliferation|neuromuscular junction development|positive regulation of membrane protein ectodomain proteolysis|proteolysis|regulation of endopeptidase activity	cell surface|cytosol	epidermal growth factor binding|metalloendopeptidase activity|zinc ion binding				0						GGATGAAGAACTGCGCCCATC	0.353													9	70					0	0	1	0	0		T	52293532	T	T	52293532	2	4	199	1	0	0	0	0	0	0	0	1	10664	564	20	4		4	NRD1	1	52293532	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	8258103	52293532	196957089	33	97425											
ORC1L	4998	broad.mit.edu	37	chr1	52862005	52862005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcatttttcagattcgtcGgtaccacatcctttggggct	6	16	8	11	2	2	1	2	0	1	1	6	1	3	1	2	3	1	2	2	3	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:52862005G>A	uc001ctt.2	-	5	653	c.434C>T	c.(433-435)CCG>CTG	p.P145L	ORC1L_uc010oni.1_Missense_Mutation_p.P145L|ORC1L_uc001ctu.2_Missense_Mutation_p.P145L|ORC1L_uc009vzd.2_5'UTR	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	145	BAH.				cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						CAGATTCGTCGGTACCACATC	0.413													7	100					0	0	1	0	0		A	52862005	A	A	52862005	3	1	199	1	0	0	0	0	1	0	0	0	11280	1116	39	1	2203	1	ORC1L	1	52862005	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	568473	52862005	196388616	34	97426											
LRP8	7804	broad.mit.edu	37	chr1	53729922	53729922	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtcggcggccaccatcaactGtggccactgagatggtctta	8	9	12	12	2	2	1	1	1	1	1	3	2	2	1	3	4	1	0	3	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:53729922G>A	uc001cvi.1	-	10	1716	c.1574C>T	c.(1573-1575)ACA>ATA	p.T525I	LRP8_uc001cvh.1_Missense_Mutation_p.T78I|LRP8_uc001cvk.1_Missense_Mutation_p.T355I|LRP8_uc001cvj.1_Missense_Mutation_p.T525I|LRP8_uc001cvl.1_Missense_Mutation_p.T396I|LRP8_uc001cvm.1_Missense_Mutation_p.T110I	NM_004631	NP_004622	Q14114	LRP8_HUMAN	low density lipoprotein receptor-related protein	525	LDL-receptor class B 2.|Extracellular (Potential).				cytokine-mediated signaling pathway|endocytosis|lipid metabolic process|platelet activation|proteolysis	caveola	calcium ion binding|very-low-density lipoprotein particle receptor activity				0						ACCATCAACTGTGGCCACTGA	0.592													8	46					0	0	1	0	0		A	53729922	A	A	53729922	3	1	199	1	0	0	0	0	1	0	0	0	8981	1377	48	4	1357	4	LRP8	1	53729922	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	867917	53729922	195520699	35	97427											
CYB5RL	606495	broad.mit.edu	37	chr1	54649860	54649860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtttatagaagaaatctcCgaaaggtcctcgccagaaag	14	9	10	8	2	1	3	0	0	1	3	4	4	2	3	3	2	0	1	3	2	6	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:54649860C>T	uc009vzo.2	-	6	834	c.514G>A	c.(514-516)GGA>AGA	p.G172R	CYB5RL_uc001cww.2_5'UTR|CYB5RL_uc001cwx.3_RNA|CYB5RL_uc001cwy.3_Missense_Mutation_p.G24R	NM_001031672	NP_001026842	Q6IPT4	NB5R5_HUMAN	cytochrome b5 reductase-like	172	FAD (By similarity).|FAD-binding FR-type.						cytochrome-b5 reductase activity				0						AAGAAATCTCCGAAAGGTCCT	0.502													5	24					0	0	1	0	0		T	54649860	T	T	54649860	3	4	199	1	0	0	0	0	1	0	0	0	4133	661	23	1	445	1	CYB5RL	1	54649860	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	919938	54649860	194600761	36	97428											
C1orf175	374977	broad.mit.edu	37	chr1	55151960	55151960	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctgtgcgagctcctgtcCgtcaacagctgcatgggccg	5	8	14	14	3	1	0	1	0	0	0	3	1	3	0	4	2	5	3	4	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:55151960C>T	uc010ooe.1	+	15	2874	c.2550C>T	c.(2548-2550)TCC>TCT	p.S850S	C1orf175_uc001cxq.2_RNA|C1orf175_uc010ooc.1_Silent_p.S418S|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Silent_p.S368S|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_Intron|C1orf175_uc010oog.1_Silent_p.S850S|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA|C1orf175_uc009vzr.1_Silent_p.S52S|C1orf175_uc001cxu.2_5'UTR	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	850						integral to membrane	binding				0						AGCTCCTGTCCGTCAACAGCT	0.652													5	32					0	0	1	0	0		T	55151960	T	T	55151960	2	4	199	1	0	0	0	0	0	0	0	1	2019	639	23	1		1	C1orf175	1	55151960	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	502100	55151960	194098661	37	97429											
C1orf177	163747	broad.mit.edu	37	chr1	55272709	55272709	+	Missense_Mutation	SNP	A	G	G	1	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	atcccaactggaagaagttcAgcaccttcactgaggcccca	12	7	8	14	0	2	2	2	1	0	1	3	3	3	3	4	2	2	2	4	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:55272709A>G	uc001cyb.3	+	2	199	c.145A>G	c.(145-147)AGC>GGC	p.S49G	C1orf177_uc001cya.3_Missense_Mutation_p.S49G	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	49											0						GAAGAAGTTCAGCACCTTCAC	0.597													48	170					0	0	1	0	0		G	55272709	G	G	55272709	3	3	199	1	0	0	0	0	1	0	0	0	2020	188	7	3	151	3	C1orf177	1	55272709	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	120749	55272709	193977912	38	97430											
RAVER2	55225	broad.mit.edu	37	chr1	65272888	65272888	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatttatggtttgctacaGcatctagcctgattccaact	9	15	7	10	0	1	1	0	1	1	0	2	1	2	1	2	1	6	4	2	1	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:65272888G>A	uc001dbs.1	+	9	1451	c.1373_splice	c.e9-1	p.T458_splice	RAVER2_uc001dbt.1_Splice_Site_p.T350_splice|RAVER2_uc010opb.1_Intron	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2							cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						GTTTGCTACAGCATCTAGCCT	0.383													10	24					0	0	1	0	0		A	65272888	A	A	65272888	5	1	199	1	0	0	0	0	0	0	1	0	13120	985	34	2	1406	2	RAVER2	1	65272888	Splice_Site	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10000179	65272888	183977733	39	97431											
JAK1	3716	broad.mit.edu	37	chr1	65309880	65309880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacactcaggagcaatccatGggattcgttcaatgcattct	11	11	8	11	1	3	0	2	0	1	0	5	2	4	2	1	2	2	3	1	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:65309880G>A	uc001dbu.1	-	17	2519	c.2270C>T	c.(2269-2271)CCA>CTA	p.P757L	JAK1_uc009wam.1_Missense_Mutation_p.P745L|JAK1_uc009wal.1_5'UTR	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	757	Protein kinase 1.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		AGCAATCCATGGGATTCGTTC	0.498			Mis		ALL								12	123					0	0	1	0	0		A	65309880	A	A	65309880	3	1	199	1	0	0	0	0	1	0	0	0	7953	1348	47	4	1230	4	JAK1	1	65309880	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	36992	65309880	183940741	40	97432											
LEPR	3953	broad.mit.edu	37	chr1	66102113	66102113	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgaggctgagggtactgaGgtaacctatgaggacgaaag	12	8	15	6	1	1	4	0	4	1	0	1	6	1	5	1	4	2	3	1	4	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:66102113G>T	uc001dci.2	+	20	3115	c.2913G>T	c.(2911-2913)GAG>GAT	p.E971D	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	971	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		AGGGTACTGAGGTAACCTATG	0.438													11	47					4.36969e-10	4.76309e-10	1	1	0		T	66102113	T	T	66102113	3	4	199	1	0	0	0	0	1	0	0	0	8744	991	35	5	3213	5	LEPR	1	66102113	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	792233	66102113	183148508	41	97433											
IL23R	149233	broad.mit.edu	37	chr1	67685299	67685299	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacatatgtgcaacagtcaGaattctacttggagccaaac	14	11	7	9	0	2	1	1	0	1	1	2	2	2	2	1	1	6	1	1	1	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:67685299G>T	uc001ddo.2	+	7	926	c.841G>T	c.(841-843)GAA>TAA	p.E281*	IL23R_uc009waz.2_Nonsense_Mutation_p.E78*|IL23R_uc001ddp.2_RNA|IL23R_uc010opi.1_Intron|IL23R_uc010opj.1_5'UTR|IL23R_uc010opk.1_Nonsense_Mutation_p.E238*|IL23R_uc010opl.1_5'UTR|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Nonsense_Mutation_p.E27*|IL23R_uc010opn.1_Nonsense_Mutation_p.E126*|IL23R_uc001ddr.2_RNA|IL23R_uc010opo.1_Nonsense_Mutation_p.E140*|IL23R_uc010opp.1_Intron|IL23R_uc010opq.1_Nonsense_Mutation_p.E140*|IL23R_uc010opr.1_RNA|IL23R_uc010ops.1_Nonsense_Mutation_p.E78*|IL23R_uc010opt.1_Intron|IL23R_uc010opu.1_Intron|IL23R_uc010opv.1_Intron|IL23R_uc010opw.1_5'UTR|IL23R_uc010opx.1_Intron|IL23R_uc010opy.1_Nonsense_Mutation_p.E78*|IL23R_uc010opz.1_5'UTR|IL23R_uc010oqa.1_5'UTR|IL23R_uc010oqb.1_Nonsense_Mutation_p.E140*|IL23R_uc010oqc.1_Nonsense_Mutation_p.E27*|IL23R_uc010oqd.1_5'UTR|IL23R_uc010oqe.1_5'UTR|IL23R_uc010oqf.1_5'UTR|IL23R_uc010oqg.1_5'UTR|IL23R_uc010oqh.1_5'UTR|IL23R_uc001dds.2_Nonsense_Mutation_p.E26*|IL23R_uc001ddt.2_5'UTR	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	281	Extracellular (Potential).|Fibronectin type-III 2.				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						GCAACAGTCAGAATTCTACTT	0.333													11	56					7.03913e-09	7.62746e-09	1	1	0		T	67685299	T	T	67685299	4	4	199	1	0	0	0	0	0	1	0	0	7692	943	33	5	863	5	IL23R	1	67685299	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1583186	67685299	181565322	42	97434											
DEPDC1	55635	broad.mit.edu	37	chr1	68947138	68947138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaccagtgacctcgtaccCattgcatcatgaagtttggg	9	12	9	11	1	1	2	1	2	0	0	2	2	1	2	3	1	3	3	3	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:68947138C>A	uc001dem.3	-	9	2037	c.1920G>T	c.(1918-1920)ATG>ATT	p.M640I	DEPDC1_uc001dej.3_Missense_Mutation_p.M8I|DEPDC1_uc001dek.3_RNA|DEPDC1_uc001del.3_Missense_Mutation_p.M356I	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	640	Interaction with ZNF224.				intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		ACCTCGTACCCATTGCATCAT	0.358													6	38					1.12685e-05	1.18001e-05	1	1	0		A	68947138	A	A	68947138	3	1	199	1	0	0	0	0	1	0	0	0	4445	594	21	5	531	5	DEPDC1	1	68947138	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1261839	68947138	180303483	43	97435											
DEPDC1	55635	broad.mit.edu	37	chr1	68948470	68948470	+	Missense_Mutation	SNP	A	T	T	1	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	gagaagaaggcactcagttgAtttgaaggaattcaaattgt	15	11	11	4	0	2	4	2	2	0	2	2	6	2	5	0	2	0	2	0	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:68948470A>T	uc001dem.3	-	8	1138	c.1021T>A	c.(1021-1023)TCA>ACA	p.S341T	DEPDC1_uc001dej.3_5'Flank|DEPDC1_uc001dek.3_RNA|DEPDC1_uc001del.3_Intron	NM_001114120	NP_001107592	Q5TB30	DEP1A_HUMAN	DEP domain containing 1 isoform a	341					intracellular signal transduction|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcriptional repressor complex	GTPase activator activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(397;7.21e-36)		CACTCAGTTGATTTGAAGGAA	0.353													12	52					0	0	1	0	0		T	68948470	T	T	68948470	3	4	199	1	0	0	0	0	1	0	0	0	4445	333	12	5	1434	5	DEPDC1	1	68948470	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1332	68948470	180302151	44	97436											
PTGER3	5733	broad.mit.edu	37	chr1	71512610	71512610	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatgcgaagagctagtcccGttgccccctcgcccggtgct	5	10	11	15	4	0	1	0	0	0	1	2	2	1	1	4	1	4	3	4	1	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:71512610G>T	uc001dfg.1	-	1	882	c.651C>A	c.(649-651)AAC>AAA	p.N217K	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Missense_Mutation_p.N217K|PTGER3_uc001dfl.1_Missense_Mutation_p.N217K|PTGER3_uc009wbm.1_Missense_Mutation_p.N217K|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Missense_Mutation_p.N217K|PTGER3_uc009wbn.1_Missense_Mutation_p.N217K|PTGER3_uc009wbo.2_Missense_Mutation_p.N217K|PTGER3_uc001dfo.2_Missense_Mutation_p.N217K|PTGER3_uc001dfp.1_Missense_Mutation_p.N217K|PTGER3_uc001dfq.2_Missense_Mutation_p.N217K|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	217	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	AGCTAGTCCCGTTGCCCCCTC	0.647													28	103					1.08312e-15	1.20301e-15	1	1	0		T	71512610	T	T	71512610	3	4	199	1	0	0	0	0	1	0	0	0	12767	1136	40	5	840	5	PTGER3	1	71512610	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2564140	71512610	177738011	45	97437											
PIGK	10026	broad.mit.edu	37	chr1	77620260	77620260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctctgaaaaagatcagtgCgatgtccaggagtagacaca	14	7	10	10	1	2	3	1	1	1	2	3	5	3	4	2	1	1	1	2	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:77620260C>T	uc001dhk.2	-	9	905	c.860G>A	c.(859-861)CGC>CAC	p.R287H	PIGK_uc010orj.1_Missense_Mutation_p.R211H|PIGK_uc009wbx.2_Missense_Mutation_p.R193H|PIGK_uc001dhl.1_Missense_Mutation_p.R287H	NM_005482	NP_005473	Q92643	GPI8_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	287	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein thiol-disulfide exchange|proteolysis	GPI-anchor transamidase complex	cysteine-type endopeptidase activity|GPI-anchor transamidase activity|protein binding			ovary(2)|pancreas(1)	3						AAGATCAGTGCGATGTCCAGG	0.348													7	38					0	0	1	0	0		T	77620260	T	T	77620260	3	4	199	1	0	0	0	0	1	0	0	0	11909	768	27	1	339	1	PIGK	1	77620260	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6107650	77620260	171630361	46	97438											
ZZZ3	26009	broad.mit.edu	37	chr1	78098731	78098731	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtttgccttctctcacaAttttctatagcctgcctttc	5	19	4	13	0	4	0	1	0	3	0	6	0	4	0	3	0	3	1	3	0	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:78098731A>T	uc001dhq.2	-	5	785	c.309T>A	c.(307-309)AAT>AAA	p.N103K	ZZZ3_uc001dhr.2_Intron|ZZZ3_uc009wbz.1_Missense_Mutation_p.N103K|ZZZ3_uc001dhp.2_Missense_Mutation_p.N103K	NM_015534	NP_056349	Q8IYH5	ZZZ3_HUMAN	zinc finger, ZZ-type containing 3	103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|large_intestine(1)	5						TTCTCTCACAATTTTCTATAG	0.383													31	105					0	0	1	0	0		T	78098731	T	T	78098731	3	4	199	1	0	0	0	0	1	0	0	0	18281	98	4	5	2446	5	ZZZ3	1	78098731	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	478471	78098731	171151890	47	97439											
NEXN	91624	broad.mit.edu	37	chr1	78392424	78392424	+	Frame_Shift_Del	DEL	A	-	-																															gatgaaatagaaagtgaagcAaaaaaagaatcactttctcc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:78392424delA	uc001dic.3	+	8	1008	c.711delA	c.(709-711)GCAfs	p.A237fs	NEXN_uc001dia.3_Frame_Shift_Del_p.A223fs|NEXN_uc009wcb.1_Frame_Shift_Del_p.A159fs|NEXN_uc001dib.3_Frame_Shift_Del_p.A173fs|NEXN_uc001did.1_Frame_Shift_Del_p.A147fs|NEXN_uc001dif.1_Frame_Shift_Del_p.A129fs	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)	237	Glu-rich.				regulation of cell migration|regulation of cytoskeleton organization	cytoskeleton|Z disc	actin filament binding|structural constituent of muscle			ovary(2)	2				Colorectal(170;0.114)		AAAGTGAAGCAAAAAAAGAAT	0.358													20	42	---	---	---	---						.	-	78392424	-	-	78392424	7	5	199	1	0	1	0	1	0	0	0	0	10374	117	5	0	737	0	NEXN	1	78392424	Frame_Shift_Del	DEL	A	TCGA-HF-7132-01A-11D-2053-08	293693	78392424	170858197	48	97440											
WDR63	126820	broad.mit.edu	37	chr1	85546976	85546976	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagaaatatttaactgcCgaatagatgaagatgtcaca	17	9	7	8	1	1	4	1	1	0	3	1	5	1	4	2	0	2	0	2	0	7	4	rs145459682	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:85546976C>T	uc001dkt.2	+	4	354	c.163C>T	c.(163-165)CGA>TGA	p.R55*	WDR63_uc009wcl.2_Nonsense_Mutation_p.R55*	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	55										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		ATTTAACTGCCGAATAGATGA	0.363													10	75					0	0	1	0	0		T	85546976	T	T	85546976	4	4	199	1	0	0	0	0	0	1	0	0	17340	644	23	1	173	1	WDR63	1	85546976	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7154552	85546976	163703645	49	97441											
WDR63	126820	broad.mit.edu	37	chr1	85550330	85550330	+	Silent	SNP	C	T	T	0	0	0	1	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	aaaccatgggtttctttgggCagtgaaaaagaaattgagga	15	10	12	4	0	1	3	0	2	1	1	1	4	1	4	1	3	1	2	1	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:85550330C>T	uc001dkt.2	+	6	683	c.492C>T	c.(490-492)GGC>GGT	p.G164G	WDR63_uc009wcl.2_Silent_p.G164G	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	164										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		TTTCTTTGGGCAGTGAAAAAG	0.373													8	79					0	0	1	0	0		T	85550330	T	T	85550330	2	4	199	1	0	0	0	0	0	0	0	1	17340	697	25	2		2	WDR63	1	85550330	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3354	85550330	163700291	50	97442											
CLCA1	1179	broad.mit.edu	37	chr1	86964339	86964339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtttcagcagaacatcctCgggaggctcatttgtggctt	7	13	12	9	1	2	1	2	0	0	1	4	2	3	2	1	3	2	4	1	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:86964339C>T	uc001dlt.2	+	13	2327	c.2198C>T	c.(2197-2199)TCG>TTG	p.S733L		NM_001285	NP_001276	A8K7I4	CLCA1_HUMAN	chloride channel accessory 1 precursor	733					calcium ion transport	extracellular space|integral to plasma membrane	chloride channel activity			ovary(1)	1		Lung NSC(277;0.239)		all cancers(265;0.0249)|Epithelial(280;0.0476)		AGAACATCCTCGGGAGGCTCA	0.453													19	92					0	0	1	0	0		T	86964339	T	T	86964339	3	4	199	1	0	0	0	0	1	0	0	0	3460	893	31	1	2248	1	CLCA1	1	86964339	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1414009	86964339	162286282	51	97443											
HFM1	164045	broad.mit.edu	37	chr1	91851225	91851225	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaaaaagcattatttgctgTaaacacatttgcagaatact	17	12	6	6	0	0	2	0	0	0	2	0	2	0	2	0	0	5	4	0	0	7	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:91851225T>C	uc001doa.3	-	5	761	c.661A>G	c.(661-663)ACA>GCA	p.T221A	HFM1_uc010osu.1_Intron|HFM1_uc010osv.1_Intron|HFM1_uc001doc.1_Missense_Mutation_p.T221A	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	221							ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		TTATTTGCTGTAAACACATTT	0.343													8	35					0	0	1	0	0		C	91851225	C	C	91851225	3	2	199	1	0	0	0	0	1	0	0	0	7099	1638	57	3	3786	3	HFM1	1	91851225	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	4886886	91851225	157399396	52	97444											
TGFBR3	7049	broad.mit.edu	37	chr1	92174326	92174326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagcgaggtgcaggcttcGtcaggaggcacacactgcag	9	6	14	12	2	1	0	1	0	0	0	3	2	2	1	1	4	3	4	1	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:92174326G>A	uc001doh.2	-	14	2647	c.2181C>T	c.(2179-2181)GAC>GAT	p.D727D	TGFBR3_uc009wde.2_Silent_p.D422D|TGFBR3_uc010osy.1_Silent_p.D685D|TGFBR3_uc001doi.2_Silent_p.D726D|TGFBR3_uc001doj.2_Silent_p.D726D	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	727	ZP.|Extracellular (Potential).				BMP signaling pathway|cardiac epithelial to mesenchymal transition|cardiac muscle cell proliferation|cell growth|cell migration|definitive erythrocyte differentiation|heart trabecula formation|immune response|intracellular protein kinase cascade|liver development|negative regulation of cellular component movement|negative regulation of epithelial cell proliferation|palate development|pathway-restricted SMAD protein phosphorylation|response to follicle-stimulating hormone stimulus|response to luteinizing hormone stimulus|response to prostaglandin E stimulus|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis	external side of plasma membrane|extracellular space|inhibin-betaglycan-ActRII complex|integral to plasma membrane|intracellular membrane-bounded organelle	coreceptor activity|heparin binding|PDZ domain binding|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity, type III|type II transforming growth factor beta receptor binding			ovary(3)	3		all_lung(203;0.00719)|Lung NSC(277;0.0268)		all cancers(265;0.0108)|Epithelial(280;0.0825)		TGCAGGCTTCGTCAGGAGGCA	0.542													4	14					0	0	1	0	0		A	92174326	A	A	92174326	2	1	199	1	0	0	0	0	0	0	0	1	15848	1136	40	1		1	TGFBR3	1	92174326	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	323101	92174326	157076295	53	97445											
BCAR3	8412	broad.mit.edu	37	chr1	94140238	94140238	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgccatcctgggtcacaggCgagttctgccgtggggattt	6	11	14	10	2	2	0	1	0	1	0	3	2	3	1	3	4	2	1	3	4	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:94140238C>T	uc001dpz.2	-	2	524	c.249G>A	c.(247-249)TCG>TCA	p.S83S	BCAR3_uc001dqa.2_Silent_p.S83S|BCAR3_uc001dqb.2_Silent_p.S83S	NM_003567	NP_003558	O75815	BCAR3_HUMAN	breast cancer antiestrogen resistance 3	83					response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		GGGTCACAGGCGAGTTCTGCC	0.547													4	31					0	0	1	0	0		T	94140238	T	T	94140238	2	4	199	1	0	0	0	0	0	0	0	1	1350	755	27	1		1	BCAR3	1	94140238	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1965912	94140238	155110383	54	97446											
AGL	178	broad.mit.edu	37	chr1	100345545	100345545	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagctgaactgttcacaggaAgtgaagatctggacaatgtc	13	10	11	7	0	2	3	1	2	1	1	3	5	2	5	0	2	2	2	0	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:100345545A>C	uc001dsi.1	+	13	2078	c.1678A>C	c.(1678-1680)AGT>CGT	p.S560R	AGL_uc001dsj.1_Missense_Mutation_p.S560R|AGL_uc001dsk.1_Missense_Mutation_p.S560R|AGL_uc001dsl.1_Missense_Mutation_p.S560R|AGL_uc001dsm.1_Missense_Mutation_p.S544R|AGL_uc001dsn.1_Missense_Mutation_p.S543R	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	560	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		GTTCACAGGAAGTGAAGATCT	0.368													17	105					0	0	1	0	0		C	100345545	C	C	100345545	3	2	199	1	0	0	0	0	1	0	0	0	384	72	3	5	1793	5	AGL	1	100345545	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	6205307	100345545	148905076	55	97447											
CCDC76	54482	broad.mit.edu	37	chr1	100608734	100608734	+	Missense_Mutation	SNP	A	C	C	1	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	aaaaattcagtgtttgaaagActtcaaattgatattcaaca	18	13	5	5	0	3	3	3	2	0	1	3	3	3	3	0	0	1	1	0	0	6	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:100608734A>C	uc001dsv.2	+	8	730	c.711A>C	c.(709-711)AGA>AGC	p.R237S	CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Missense_Mutation_p.R237S	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	237					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)		TGTTTGAAAGACTTCAAATTG	0.299													5	22					0	0	1	0	0		C	100608734	C	C	100608734	3	2	199	1	0	0	0	0	1	0	0	0	2853	272	10	5	741	5	CCDC76	1	100608734	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	263189	100608734	148641887	56	97448											
CDC14A	8556	broad.mit.edu	37	chr1	100964688	100964688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacaacagaagcagcaacaGcaacgggggcaacctgaaca	17	2	11	11	1	0	2	0	1	0	1	0	2	0	2	1	2	9	5	1	2	7	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:100964688G>A	uc001dtg.3	+	15	2113	c.1625G>A	c.(1624-1626)AGC>AAC	p.S542N	CDC14A_uc010oui.1_Missense_Mutation_p.S484N|CDC14A_uc001dtf.2_Missense_Mutation_p.S542N|CDC14A_uc009wed.1_Missense_Mutation_p.S249N|CDC14A_uc009wee.2_Missense_Mutation_p.S542N	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	542					cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		AGCAGCAACAGCAACGGGGGC	0.562													11	44					0	0	1	0	0		A	100964688	A	A	100964688	3	1	199	1	0	0	0	0	1	0	0	0	3059	971	34	2	1698	2	CDC14A	1	100964688	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	355954	100964688	148285933	57	97449											
CDC14A	8556	broad.mit.edu	37	chr1	100964751	100964751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagacagaggagcacaccaCcatcctccgaccctcctaca	13	4	6	18	1	0	2	0	0	0	2	3	4	3	3	6	1	2	1	6	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:100964751C>T	uc001dtg.3	+	15	2176	c.1688C>T	c.(1687-1689)ACC>ATC	p.T563I	CDC14A_uc010oui.1_Missense_Mutation_p.T505I|CDC14A_uc001dtf.2_Missense_Mutation_p.T563I|CDC14A_uc009wed.1_Missense_Mutation_p.T270I|CDC14A_uc009wee.2_Missense_Mutation_p.T563I	NM_003672	NP_003663	Q9UNH5	CC14A_HUMAN	CDC14 homolog A isoform 1	563					cell cycle|cell division|cell proliferation	centrosome|nucleus|spindle	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			large_intestine(1)	1		all_epithelial(167;3.71e-06)|all_lung(203;0.00097)|Lung NSC(277;0.001)		Epithelial(280;0.0676)|all cancers(265;0.127)|COAD - Colon adenocarcinoma(174;0.201)|Lung(183;0.227)|Colorectal(144;0.241)		GAGCACACCACCATCCTCCGA	0.577													18	53					0	0	1	0	0		T	100964751	T	T	100964751	3	4	199	1	0	0	0	0	1	0	0	0	3059	507	18	4	1761	4	CDC14A	1	100964751	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	63	100964751	148285870	58	97450											
DPH5	51611	broad.mit.edu	37	chr1	101456081	101456081	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgatcaaggaatgcaatggTtctcccaagtccacagtgca	13	9	9	10	0	2	1	1	1	1	0	4	2	3	2	2	2	2	3	2	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:101456081T>C	uc001dts.2	-	8	888	c.741A>G	c.(739-741)GAA>GAG	p.E247E	DPH5_uc001dtr.2_Silent_p.E246E|DPH5_uc001dtq.2_RNA|DPH5_uc001dtt.2_Silent_p.E247E|DPH5_uc001dtu.2_RNA|DPH5_uc001dtv.2_RNA|DPH5_uc001dtw.2_RNA|DPH5_uc001dtx.2_Missense_Mutation_p.T212A|DPH5_uc001dty.2_Silent_p.E126E|DPH5_uc001dtz.2_RNA	NM_015958	NP_057042	Q9H2P9	DPH5_HUMAN	diphthine synthase isoform a	247					peptidyl-diphthamide biosynthetic process from peptidyl-histidine		diphthine synthase activity				0		all_epithelial(167;3.1e-06)|all_lung(203;0.000414)|Lung NSC(277;0.000946)		Epithelial(280;0.0385)|all cancers(265;0.043)|COAD - Colon adenocarcinoma(174;0.151)|Colorectal(144;0.173)|Lung(183;0.198)		AATGCAATGGTTCTCCCAAGT	0.473													17	83					0	0	1	0	0		C	101456081	C	C	101456081	2	2	199	1	0	0	0	0	0	0	0	1	4729	1722	60	3		3	DPH5	1	101456081	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	491330	101456081	147794540	59	97451											
VAV3	10451	broad.mit.edu	37	chr1	108315356	108315356	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaacaagtaaaagtcctaCgggctgatgtgcttcctctg	13	10	9	9	1	1	1	0	1	1	0	3	1	3	1	2	1	3	3	2	1	6	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:108315356C>T	uc001dvk.1	-	5	609	c.555_splice	c.e5+1	p.P185_splice	VAV3_uc010ouw.1_Splice_Site_p.P185_splice|VAV3_uc001dvl.1_Splice_Site_p.P9_splice|VAV3_uc010oux.1_Splice_Site_p.P185_splice	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		AAAAGTCCTACGGGCTGATGT	0.353													4	68					0	0	1	0	0		T	108315356	T	T	108315356	5	4	199	1	0	0	0	0	0	0	1	0	17159	550	19	1	2104	1	VAV3	1	108315356	Splice_Site	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6859275	108315356	140935265	60	97452											
CELSR2	1952	broad.mit.edu	37	chr1	109815573	109815573	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaagaggaggccgcCttccctggagagcagggctg	9	4	19	9	1	0	2	0	0	0	2	1	7	1	5	3	6	1	2	3	6	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:109815573C>A	uc001dxa.3	+	31	8323	c.8262C>A	c.(8260-8262)GCC>GCA	p.A2754A		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2754	Cytoplasmic (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		aggaggCCGCCTTCCCTGGAG	0.527													7	24					0.000274275	0.000282967	1	1	0		A	109815573	A	A	109815573	2	1	199	1	0	0	0	0	0	0	0	1	3225	668	24	5		5	CELSR2	1	109815573	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1500217	109815573	139435048	61	97453											
FAM40A	85369	broad.mit.edu	37	chr1	110593031	110593031	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctgacggcggagagtttGgtgagtggctgggctctcct	5	10	18	8	2	1	3	0	2	1	1	2	5	1	3	1	5	1	4	1	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:110593031G>A	uc001dza.1	+	18	1975	c.1956G>A	c.(1954-1956)TTG>TTA	p.L652L	FAM40A_uc001dyz.1_Silent_p.L557L|FAM40A_uc009wfp.1_Silent_p.L476L	NM_033088	NP_149079	Q5VSL9	FA40A_HUMAN	hypothetical protein LOC85369	652						nucleus	protein binding			ovary(3)|large_intestine(1)	4		all_cancers(81;8.51e-05)|all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0154)|all cancers(265;0.0732)|Epithelial(280;0.0781)|Colorectal(144;0.115)|LUSC - Lung squamous cell carcinoma(189;0.137)		CGGAGAGTTTGGTGAGTGGCT	0.592													6	43					0	0	1	0	0		A	110593031	A	A	110593031	2	1	199	1	0	0	0	0	0	0	0	1	5574	1362	47	4		4	FAM40A	1	110593031	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	777458	110593031	138657590	62	97454											
CSDE1	7812	broad.mit.edu	37	chr1	115261289	115261289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccattaggcgaggagcactgGcatcatccagagtgatattc	11	9	11	10	1	1	2	1	1	0	1	3	4	2	3	2	3	1	2	2	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:115261289G>A	uc001efk.2	-	19	2760	c.2294C>T	c.(2293-2295)GCC>GTC	p.A765V	NRAS_uc009wgu.2_5'Flank|CSDE1_uc001efi.2_Missense_Mutation_p.A811V|CSDE1_uc001efj.2_RNA|CSDE1_uc001efl.2_Missense_Mutation_p.A734V|CSDE1_uc001efm.2_Missense_Mutation_p.A780V|CSDE1_uc009wgv.2_Missense_Mutation_p.A765V|CSDE1_uc001efn.2_Missense_Mutation_p.A734V	NM_001007553	NP_001007554	O75534	CSDE1_HUMAN	upstream of NRAS isoform 1	765					male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			ovary(1)	1	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)		AGGAGCACTGGCATCATCCAG	0.507													8	54					0	0	1	0	0		A	115261289	A	A	115261289	3	1	199	1	0	0	0	0	1	0	0	0	3932	1203	42	2	110	2	CSDE1	1	115261289	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4668258	115261289	133989332	63	97455											
NBPF10	100132406	broad.mit.edu	37	chr1	145326024	145326024	+	Silent	SNP	T	G	G	0	1	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	ctggatagatgttattcaacTccttcaggttgtcttgaact	9	16	8	8	0	3	2	2	1	1	1	4	3	4	3	1	2	2	2	1	2	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:145326024T>G	uc001end.3	+	32	4157	c.4122T>G	c.(4120-4122)ACT>ACG	p.T1374T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Intron|NBPF10_uc010oyk.1_Intron|NBPF10_uc010oyl.1_Intron|NBPF10_uc001enc.2_Intron|NBPF10_uc010oym.1_Intron|NBPF10_uc010oyn.1_Intron|NBPF10_uc010oyo.1_Intron|NBPF10_uc010oyp.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	1299											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GTTATTCAACTCCTTCAGGTT	0.468													21	177					0	0	1	0	0		G	145326024	G	G	145326024	2	3	199	1	0	0	0	0	0	0	0	1	10211	1538	54	5		5	NBPF10	1	145326024	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	30064735	145326024	103924597	64	97456											
SV2A	9900	broad.mit.edu	37	chr1	149885257	149885257	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctcctcaaagcgggagtAcgatcttcgggaatattcgt	9	11	10	11	4	2	0	1	0	1	0	6	3	4	2	2	2	2	1	2	2	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:149885257A>G	uc001etg.2	-	2	627	c.136T>C	c.(136-138)TAC>CAC	p.Y46H	SV2A_uc001eth.2_Missense_Mutation_p.Y46H	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	46	Cytoplasmic (Potential).|Interaction with SYT1 (By similarity).				neurotransmitter transport	cell junction|endoplasmic reticulum|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(6)|pancreas(1)	7	Breast(34;0.00769)|all_hematologic(923;0.127)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.221)|STAD - Stomach adenocarcinoma(528;0.247)		Levetiracetam(DB01202)	AAGCGGGAGTACGATCTTCGG	0.542													20	83					0	0	1	0	0		G	149885257	G	G	149885257	3	3	199	1	0	0	0	0	1	0	0	0	15442	391	14	3	2140	3	SV2A	1	149885257	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	4559233	149885257	99365364	65	97457											
OTUD7B	56957	broad.mit.edu	37	chr1	149949436	149949436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgacagaacagcatccatgtCcagggtcatgtgatcctcaa	12	9	9	11	0	2	3	2	2	0	1	5	3	5	3	3	1	2	1	3	1	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:149949436C>T	uc001etn.2	-	2	366	c.10G>A	c.(10-12)GAC>AAC	p.D4N		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	4					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			GCATCCATGTCCAGGGTCATG	0.478													20	66					0	0	1	0	0		T	149949436	T	T	149949436	3	4	199	1	0	0	0	0	1	0	0	0	11338	855	30	4	2565	4	OTUD7B	1	149949436	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	64179	149949436	99301185	66	97458											
RFX5	5993	broad.mit.edu	37	chr1	151316303	151316303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcacaggtcagggcacacGctgcctccaccagttcatct	9	8	9	15	1	4	0	3	0	1	0	5	0	5	0	3	2	1	3	3	2	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:151316303G>A	uc001exv.1	-	9	825	c.611C>T	c.(610-612)GCG>GTG	p.A204V	RFX5_uc001exw.1_Missense_Mutation_p.A204V|RFX5_uc009wmr.1_Missense_Mutation_p.A204V|RFX5_uc010pcx.1_Missense_Mutation_p.A164V	NM_001025603	NP_001020774	P48382	RFX5_HUMAN	regulatory factor X, 5	204						nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	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)			CAGGGCACACGCTGCCTCCAC	0.552													20	79					0	0	1	0	0		A	151316303	A	A	151316303	3	1	199	1	0	0	0	0	1	0	0	0	13291	1087	38	1	1251	1	RFX5	1	151316303	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1366867	151316303	97934318	67	97459											
MRPL9	65005	broad.mit.edu	37	chr1	151733319	151733319	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacaccaatactcgccccaCcgtgtgataggctcttctgg	8	10	8	15	2	3	1	1	1	2	0	4	1	3	1	4	2	1	1	4	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:151733319C>T	uc001eyv.2	-	6	730	c.645G>A	c.(643-645)CGG>CGA	p.R215R	MRPL9_uc009wmz.2_RNA	NM_031420	NP_113608	Q9BYD2	RM09_HUMAN	mitochondrial ribosomal protein L9 precursor	215					translation	mitochondrial ribosome	structural constituent of ribosome			ovary(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			ACTCGCCCCACCGTGTGATAG	0.368													10	52					0	0	1	0	0		T	151733319	T	T	151733319	2	4	199	1	0	0	0	0	0	0	0	1	9838	494	18	4		4	MRPL9	1	151733319	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	417016	151733319	97517302	68	97460											
THEM4	117145	broad.mit.edu	37	chr1	151849481	151849481	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagaccagcttcttacttgtCgcctctgagtatagggtctt	8	14	9	10	1	3	2	0	1	3	1	4	2	3	2	2	1	2	2	2	1	4	6	rs146012344		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:151849481C>T	uc001ezj.1	-	5	857	c.678G>A	c.(676-678)GCG>GCA	p.A226A	THEM4_uc001ezk.1_RNA	NM_053055	NP_444283	Q5T1C6	THEM4_HUMAN	thioesterase superfamily member 4	226					insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|ruffle membrane					0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			TCTTACTTGTCGCCTCTGAGT	0.353													36	87					0	0	1	0	0		T	151849481	T	T	151849481	2	4	199	1	0	0	0	0	0	0	0	1	15883	871	31	1		1	THEM4	1	151849481	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	116162	151849481	97401140	69	97461											
FLG	2312	broad.mit.edu	37	chr1	152278793	152278793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggaagcttcatggtgacGcgaccctgagtgcctggagc	8	8	15	10	2	1	2	1	2	0	0	1	5	1	4	2	3	3	1	2	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:152278793G>A	uc001ezu.1	-	3	8605	c.8569C>T	c.(8569-8571)CGT>TGT	p.R2857C		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2857	Ser-rich.|Filaggrin 17.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCATGGTGACGCGACCCTGAG	0.572									Ichthyosis				79	328					0	0	1	0	0		A	152278793	A	A	152278793	3	1	199	1	0	0	0	0	1	0	0	0	5936	1087	38	1	3620	1	FLG	1	152278793	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	429312	152278793	96971828	70	97462											
SLC39A1	27173	broad.mit.edu	37	chr1	153932722	153932722	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggtgccagctgccatgcccTctagcacagactgggccagc	8	6	12	15	0	1	1	0	0	1	1	1	1	1	1	4	2	6	2	4	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:153932722T>C	uc001fdh.2	-	4	996	c.827A>G	c.(826-828)GAG>GGG	p.E276G	CRTC2_uc010ped.1_5'Flank|SLC39A1_uc001fdi.2_Missense_Mutation_p.E276G|SLC39A1_uc001fdj.2_Missense_Mutation_p.E276G|SLC39A1_uc001fdk.2_Missense_Mutation_p.E276G|SLC39A1_uc010pee.1_Missense_Mutation_p.E174G|SLC39A1_uc001fdl.2_Missense_Mutation_p.E276G	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),	276	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		TGCCATGCCCTCTAGCACAGA	0.577													24	64					0	0	1	0	0		C	153932722	C	C	153932722	3	2	199	1	0	0	0	0	1	0	0	0	14637	1551	54	3	151	3	SLC39A1	1	153932722	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1653929	153932722	95317899	71	97463											
SLC39A1	27173	broad.mit.edu	37	chr1	153934820	153934820	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctaggctcagggctttctggCgggaagctgggtaggggtga	6	9	19	7	1	2	1	1	1	1	0	2	2	2	2	0	7	1	4	0	7	3	3	rs61755890	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:153934820C>T	uc001fdh.2	-	3	363	c.194G>A	c.(193-195)CGC>CAC	p.R65H	SLC39A1_uc001fdi.2_Missense_Mutation_p.R65H|SLC39A1_uc001fdj.2_Missense_Mutation_p.R65H|SLC39A1_uc001fdk.2_Missense_Mutation_p.R65H|SLC39A1_uc010pee.1_Intron|SLC39A1_uc001fdl.2_Missense_Mutation_p.R65H	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),	65	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		GGCTTTCTGGCGGGAAGCTGG	0.587													16	51					0	0	1	0	0		T	153934820	T	T	153934820	3	4	199	1	0	0	0	0	1	0	0	0	14637	768	27	1	788	1	SLC39A1	1	153934820	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2098	153934820	95315801	72	97464											
ZBTB7B	51043	broad.mit.edu	37	chr1	154987844	154987844	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccttgacctatgaggaggaGgaggtggcgggcagagtggg	8	6	20	7	1	0	3	0	2	0	1	0	6	0	6	2	7	0	1	2	7	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:154987844G>T	uc001fgk.3	+	3	866	c.708G>T	c.(706-708)GAG>GAT	p.E236D	ZBTB7B_uc009wpa.2_Missense_Mutation_p.E236D|ZBTB7B_uc001fgj.3_Missense_Mutation_p.E270D|ZBTB7B_uc010peq.1_Missense_Mutation_p.E270D|ZBTB7B_uc001fgl.3_Missense_Mutation_p.E236D	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	236					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	all_epithelial(22;2.77e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			ATGAGGAGGAGGAGGTGGCGG	0.662													3	34					0.004672	0.00476967	1	1	0		T	154987844	T	T	154987844	3	4	199	1	0	0	0	0	1	0	0	0	17579	991	35	5	710	5	ZBTB7B	1	154987844	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1053024	154987844	94262777	73	97465											
ADAM15	8751	broad.mit.edu	37	chr1	155030333	155030333	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccaccctccacagctgcgcCcgtctggctggcagtgtcgt	4	9	11	17	3	1	0	0	0	1	0	4	0	3	0	4	2	2	3	4	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:155030333C>A	uc001fgr.1	+	14	1524	c.1423C>A	c.(1423-1425)CCG>ACG	p.P475T	ADAM15_uc001fgq.1_Missense_Mutation_p.P160T|ADAM15_uc010pet.1_Missense_Mutation_p.P459T|ADAM15_uc010peu.1_Missense_Mutation_p.P492T|ADAM15_uc001fgt.1_Missense_Mutation_p.P475T|ADAM15_uc010pev.1_Missense_Mutation_p.P485T|ADAM15_uc001fgs.1_Missense_Mutation_p.P475T|ADAM15_uc001fgu.1_Missense_Mutation_p.P475T|ADAM15_uc001fgw.1_Missense_Mutation_p.P475T|ADAM15_uc001fgv.1_Missense_Mutation_p.P475T|ADAM15_uc001fgx.1_Missense_Mutation_p.P475T|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	475	Disintegrin.|Extracellular (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			ACAGCTGCGCCCGTCTGGCTG	0.617													32	93					9.80977e-26	1.10209e-25	1	1	0		A	155030333	A	A	155030333	3	1	199	1	0	0	0	0	1	0	0	0	237	623	22	5	1477	5	ADAM15	1	155030333	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	42489	155030333	94220288	74	97466											
EFNA1	1942	broad.mit.edu	37	chr1	155103890	155103890	+	Missense_Mutation	SNP	T	A	A	0	1	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	atctgtccgcactatgaagaTcactctgtggcagacgctgc	9	10	10	12	2	3	3	1	1	2	2	4	3	4	3	1	1	1	3	1	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:155103890T>A	uc001fhh.2	+	2	273	c.168T>A	c.(166-168)GAT>GAA	p.D56E	EFNA1_uc001fhi.2_Missense_Mutation_p.D56E|EFNA1_uc009wpd.1_5'Flank	NM_004428	NP_004419	P20827	EFNA1_HUMAN	ephrin A1 isoform a precursor	56					angiogenesis|aortic valve morphogenesis|cell migration|cell-cell signaling|endocardial cushion to mesenchymal transition involved in heart valve formation|ephrin receptor signaling pathway|mitral valve morphogenesis|negative regulation of epithelial to mesenchymal transition|negative regulation of transcription from RNA polymerase II promoter|positive regulation of peptidyl-tyrosine phosphorylation|regulation of cell adhesion mediated by integrin|substrate adhesion-dependent cell spreading	extracellular region|integral to plasma membrane	ephrin receptor binding				0	all_epithelial(22;4.71e-30)|all_lung(78;3.15e-27)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;2.28e-10)|all cancers(21;6.16e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000395)|LUSC - Lung squamous cell carcinoma(543;0.193)			ACTATGAAGATCACTCTGTGG	0.547													9	47					0	0	1	0	0		A	155103890	A	A	155103890	3	1	199	1	0	0	0	0	1	0	0	0	4956	1432	50	5	174	5	EFNA1	1	155103890	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	73557	155103890	94146731	75	97467											
SYT11	23208	broad.mit.edu	37	chr1	155837764	155837764	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccgccttcagatgtgtcaCcggtggtggccggcctcatc	4	10	12	15	3	3	1	3	0	0	1	5	1	4	1	5	4	0	0	5	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:155837764C>T	uc001fmg.2	+	2	306	c.43C>T	c.(43-45)CCG>TCG	p.P15S	SYT11_uc010pgq.1_Intron	NM_152280	NP_689493	Q9BT88	SYT11_HUMAN	synaptotagmin XI	15	Vesicular (Potential).					cell junction|synaptic vesicle membrane	protein binding|transporter activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;0.000162)			AGATGTGTCACCGGTGGTGGC	0.597													8	45					0	0	1	0	0		T	155837764	T	T	155837764	3	4	199	1	0	0	0	0	1	0	0	0	15492	507	18	4	49	4	SYT11	1	155837764	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	733874	155837764	93412857	76	97468											
ARHGEF2	9181	broad.mit.edu	37	chr1	155939051	155939051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggtgcccattggtatagCgggcatccttggcttccttc	6	12	12	11	1	0	1	0	0	0	1	3	1	2	1	3	4	2	3	3	4	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:155939051C>T	uc001fmt.2	-	2	222	c.104G>A	c.(103-105)CGC>CAC	p.R35H	ARHGEF2_uc001fmr.2_Missense_Mutation_p.R8H|ARHGEF2_uc001fms.2_Missense_Mutation_p.R35H|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R80H|ARHGEF2_uc010pgt.1_Missense_Mutation_p.R8H|ARHGEF2_uc010pgu.1_Missense_Mutation_p.R80H	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	35					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					ATTGGTATAGCGGGCATCCTT	0.537													18	79					0	0	1	0	0		T	155939051	T	T	155939051	3	4	199	1	0	0	0	0	1	0	0	0	903	768	27	1	2940	1	ARHGEF2	1	155939051	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	101287	155939051	93311570	77	97469											
TMEM79	84283	broad.mit.edu	37	chr1	156256115	156256115	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggccctttggggagccacgGcgggaggtggagatccaccg	6	5	18	12	4	0	1	0	0	0	1	1	4	1	3	4	7	1	0	4	7	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:156256115G>A	uc010phi.1	+	3	1018	c.822G>A	c.(820-822)CGG>CGA	p.R274R	TMEM79_uc001fod.2_Silent_p.R115R|TMEM79_uc009wrw.2_Silent_p.R274R	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	274						integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					GGGAGCCACGGCGGGAGGTGG	0.582													26	86					0	0	1	0	0		A	156256115	A	A	156256115	2	1	199	1	0	0	0	0	0	0	0	1	16228	1190	42	2		2	TMEM79	1	156256115	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	317064	156256115	92994506	78	97470											
TTC24	164118	broad.mit.edu	37	chr1	156552170	156552170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcgggatggcccacaatgCcctcggcaactatcaggaag	10	6	11	14	2	1	0	1	0	0	0	3	2	1	2	3	4	2	1	3	4	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:156552170C>T	uc009wsc.1	+	1	154	c.14C>T	c.(13-15)GCC>GTC	p.A5V		NM_001105669	NP_001099139	A2A3L6	TTC24_HUMAN	tetratricopeptide repeat domain 24	285	TPR 6.						binding			pancreas(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCCCACAATGCCCTCGGCAAC	0.632													5	22					0	0	1	0	0		T	156552170	T	T	156552170	3	4	199	1	0	0	0	0	1	0	0	0	16718	739	26	2	860	2	TTC24	1	156552170	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	296055	156552170	92698451	79	97471											
ISG20L2	81875	broad.mit.edu	37	chr1	156696887	156696887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctttggtcctgtgcccacCatctcacagtcaattgccac	7	11	6	17	0	2	0	2	0	1	0	4	0	3	0	5	1	2	0	5	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:156696887C>T	uc001fps.1	-	1	819	c.558G>A	c.(556-558)ATG>ATA	p.M186I	ISG20L2_uc001fpt.1_Missense_Mutation_p.M186I|C1orf66_uc001fpu.2_5'Flank|C1orf66_uc001fpv.2_5'Flank	NM_030980	NP_112242	Q9H9L3	I20L2_HUMAN	interferon stimulated exonuclease gene	186	Exonuclease.				ribosome biogenesis	nucleolus	exonuclease activity|nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					CTGTGCCCACCATCTCACAGT	0.502											OREG0013885	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	115					0	0	1	0	0		T	156696887	T	T	156696887	3	4	199	1	0	0	0	0	1	0	0	0	7871	594	21	4	515	4	ISG20L2	1	156696887	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	144717	156696887	92553734	80	97472											
HDGF	3068	broad.mit.edu	37	chr1	156714103	156714103	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctctgcagcttcgggctctGgttcaggctcttccacacag	5	11	10	15	1	4	0	1	0	3	0	6	0	5	0	2	3	2	5	2	3	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:156714103G>T	uc001fpy.3	-	4	663	c.341C>A	c.(340-342)CCA>CAA	p.P114Q	HDGF_uc009wsd.2_Missense_Mutation_p.P82Q|HDGF_uc001fpz.3_Missense_Mutation_p.P107Q|HDGF_uc009wse.2_Missense_Mutation_p.P130Q|HDGF_uc010phr.1_Missense_Mutation_p.P137Q|HDGF_uc009wsf.2_Missense_Mutation_p.P82Q|HDGF_uc009wsg.2_Missense_Mutation_p.P114Q	NM_004494	NP_004485	P51858	HDGF_HUMAN	hepatoma-derived growth factor isoform a	114	Glu-rich.				cell proliferation|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	DNA binding|growth factor activity|heparin binding|nucleotide binding			lung(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)	Breast(1374;0.198)		Colorectal(1306;0.018)		TTCGGGCTCTGGTTCAGGCTC	0.607													116	316					4.67462e-85	5.25984e-85	1	1	0		T	156714103	T	T	156714103	3	4	199	1	0	0	0	0	1	0	0	0	7034	1348	47	5	393	5	HDGF	1	156714103	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	17216	156714103	92536518	81	97473											
PRCC	5546	broad.mit.edu	37	chr1	156767101	156767101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agccaacaggccagcagcggCggaaacaccagatcacatat	15	3	10	13	2	1	1	1	0	0	1	1	2	1	2	3	3	5	1	3	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:156767101C>T	uc001fqa.2	+	6	1647	c.1357C>T	c.(1357-1359)CGG>TGG	p.R453W	PRCC_uc001fqb.2_Missense_Mutation_p.R421W	NM_005973	NP_005964	Q92733	PRCC_HUMAN	papillary renal cell carcinoma	453					cell cycle|mitotic cell cycle checkpoint	nucleus	protein binding		PRCC/TFE3(25)	kidney(25)|central_nervous_system(2)	27	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCAGCAGCGGCGGAAACACCA	0.468			T	TFE3	papillary renal 						OREG0013886	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	122					0	0	1	0	0		T	156767101	T	T	156767101	3	4	199	1	0	0	0	0	1	0	0	0	12469	759	27	1	1379	1	PRCC	1	156767101	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	52998	156767101	92483520	82	97474											
INSRR	3645	broad.mit.edu	37	chr1	156823941	156823941	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggaagagcagcaggtagtcGgtgacctgggtgaggcgagg	9	5	20	7	3	0	3	0	2	0	1	1	5	0	4	1	6	2	3	1	6	2	1	rs149908610		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:156823941G>A	uc010pht.1	-	2	494	c.240C>T	c.(238-240)ACC>ACT	p.T80T	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Silent_p.T80T	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	80					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GCAGGTAGTCGGTGACCTGGG	0.647													6	46					0	0	1	0	0		A	156823941	A	A	156823941	2	1	199	1	0	0	0	0	0	0	0	1	7790	1103	39	1		1	INSRR	1	156823941	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	56840	156823941	92426680	83	97475											
ARHGEF11	9826	broad.mit.edu	37	chr1	156909626	156909626	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggtgtcaggtcgtcctcGggctcctgggcagcctgagt	3	10	17	11	2	1	1	1	1	0	0	5	1	3	1	3	4	1	2	3	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:156909626G>A	uc001fqo.2	-	36	4730	c.3690C>T	c.(3688-3690)CCC>CCT	p.P1230P	ARHGEF11_uc010phu.1_Silent_p.P646P|ARHGEF11_uc001fqn.2_Silent_p.P1270P	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	1230					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GGTCGTCCTCGGGCTCCTGGG	0.632													7	44					0	0	1	0	0		A	156909626	A	A	156909626	2	1	199	1	0	0	0	0	0	0	0	1	896	1103	39	1		1	ARHGEF11	1	156909626	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	85685	156909626	92340995	84	97476											
FCRL3	115352	broad.mit.edu	37	chr1	157668338	157668338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagggaatgtgatatgctgCtgcatatgagagccactttt	10	13	11	7	0	0	2	0	2	0	1	0	4	0	3	1	1	4	3	1	1	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:157668338C>T	uc001frb.2	-	4	426	c.134G>A	c.(133-135)AGC>AAC	p.S45N	FCRL3_uc001fqx.3_RNA|FCRL3_uc001fqy.3_RNA|FCRL3_uc001fqz.3_Missense_Mutation_p.S45N|FCRL3_uc009wsn.2_RNA|FCRL3_uc009wso.2_RNA|FCRL3_uc001fra.2_5'Flank|FCRL3_uc001frc.1_Missense_Mutation_p.S45N	NM_052939	NP_443171	Q96P31	FCRL3_HUMAN	Fc receptor-like 3 precursor	45	Ig-like C2-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(1)	4	all_hematologic(112;0.0378)					TGATATGCTGCTGCATATGAG	0.443													14	58					0	0	1	0	0		T	157668338	T	T	157668338	3	4	199	1	0	0	0	0	1	0	0	0	5810	797	28	2	2118	2	FCRL3	1	157668338	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	758712	157668338	91582283	85	97477											
KLHDC9	126823	broad.mit.edu	37	chr1	161069416	161069416	+	Missense_Mutation	SNP	T	C	C	0	1	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	acctgttgctcctcatttgaTggaacagcttgcaaggcttg	8	13	10	10	0	1	1	1	1	0	0	2	2	2	2	2	2	4	5	2	2	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:161069416T>C	uc001fxr.2	+	3	888	c.716T>C	c.(715-717)ATG>ACG	p.M239T	KLHDC9_uc001fxq.2_Missense_Mutation_p.M1T|KLHDC9_uc001fxs.2_Silent_p.D245D	NM_152366	NP_689579	Q8NEP7	KLDC9_HUMAN	kelch/ankyrin repeat containing cyclin A1	239											0	all_cancers(52;1.28e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			CCTCATTTGATGGAACAGCTT	0.542													53	305					0	0	1	0	0		C	161069416	C	C	161069416	3	2	199	1	0	0	0	0	1	0	0	0	8380	1464	51	3	745	3	KLHDC9	1	161069416	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	3401078	161069416	88181205	86	97478											
RGS4	5999	broad.mit.edu	37	chr1	163043401	163043401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgaattcatctcagtccagGcaaccaaagaggtaggtttt	13	11	9	8	0	2	2	2	1	1	1	4	2	3	2	2	3	1	3	2	3	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:163043401G>A	uc009wuy.2	+	4	878	c.367G>A	c.(367-369)GCA>ACA	p.A123T	RGS4_uc001gcl.3_Missense_Mutation_p.A220T|RGS4_uc009wuz.2_Intron|RGS4_uc009wva.2_Missense_Mutation_p.A105T	NM_005613	NP_005604	P49798	RGS4_HUMAN	regulator of G-protein signaling 4 isoform 2	123	RGS.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(2)|central_nervous_system(1)	3						CTCAGTCCAGGCAACCAAAGA	0.234													6	21					0	0	1	0	0		A	163043401	A	A	163043401	3	1	199	1	0	0	0	0	1	0	0	0	13332	1203	42	2	676	2	RGS4	1	163043401	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1973985	163043401	86207220	87	97479											
SLC9A11	284525	broad.mit.edu	37	chr1	173545802	173545802	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacgataggaaacttacttAgtaattacaagttcgatctt	14	13	7	7	2	1	0	0	0	1	0	2	3	1	1	0	1	3	3	0	1	7	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:173545802A>G	uc001giz.2	-	8	1323	c.900T>C	c.(898-900)ACT>ACC	p.T300T	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	300					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AAACTTACTTAGTAATTACAA	0.403													8	24					0	0	1	0	0		G	173545802	G	G	173545802	2	3	199	1	0	0	0	0	0	0	0	1	14736	407	15	3		3	SLC9A11	1	173545802	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	10502401	173545802	75704819	88	97480											
RC3H1	149041	broad.mit.edu	37	chr1	173950010	173950010	+	Silent	SNP	C	T	T	0	0	0	1	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	ccataaagcaaagaggaccaCtggtccggtgcaattcgtaa	14	7	10	10	2	0	1	0	0	0	1	2	2	1	2	3	3	2	3	3	3	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:173950010C>T	uc001gju.3	-	5	993	c.906G>A	c.(904-906)CAG>CAA	p.Q302Q	RC3H1_uc010pms.1_Silent_p.Q302Q|RC3H1_uc001gjv.2_Silent_p.Q302Q|RC3H1_uc010pmt.1_Silent_p.Q302Q	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	302					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						AAGAGGACCACTGGTCCGGTG	0.433													12	32					0	0	1	0	0		T	173950010	T	T	173950010	2	4	199	1	0	0	0	0	0	0	0	1	13191	564	20	4		4	RC3H1	1	173950010	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	404208	173950010	75300611	89	97481											
TNN	63923	broad.mit.edu	37	chr1	175048557	175048557	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagggagggccccgcctgCgagcggctggcctgccccgg	3	3	19	16	4	0	0	0	0	0	0	0	2	0	1	6	6	3	2	6	6	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:175048557C>T	uc001gkl.1	+	3	611	c.498C>T	c.(496-498)TGC>TGT	p.C166C	TNN_uc010pmx.1_Silent_p.C166C	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	166					cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GCCCCGCCTGCGAGCGGCTGG	0.726													3	8					0	0	1	0	0		T	175048557	T	T	175048557	2	4	199	1	0	0	0	0	0	0	0	1	16348	776	27	1		1	TNN	1	175048557	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1098547	175048557	74202064	90	97482											
SOAT1	6646	broad.mit.edu	37	chr1	179314166	179314166	+	Missense_Mutation	SNP	A	C	C	1	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	atatcaaacaggagcccttcAgcgctcgtgttctggtccta	9	11	9	12	2	3	0	2	0	1	0	5	1	4	1	2	2	3	2	2	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:179314166A>C	uc001gml.2	+	11	1135	c.1072A>C	c.(1072-1074)AGC>CGC	p.S358R	SOAT1_uc010pni.1_Missense_Mutation_p.S293R|SOAT1_uc001gmm.2_Missense_Mutation_p.S300R|SOAT1_uc010pnj.1_Missense_Mutation_p.S94R|SOAT1_uc010pnk.1_Missense_Mutation_p.S293R	NM_003101	NP_003092	P35610	SOAT1_HUMAN	sterol O-acyltransferase 1	358					cholesterol efflux|cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|cholesterol storage|macrophage derived foam cell differentiation|positive regulation of amyloid precursor protein biosynthetic process|very-low-density lipoprotein particle assembly	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol binding|cholesterol O-acyltransferase activity|fatty-acyl-CoA binding			central_nervous_system(1)|skin(1)	2					Ezetimibe(DB00973)|Hesperetin(DB01094)	GGAGCCCTTCAGCGCTCGTGT	0.413													25	101					0	0	1	0	0		C	179314166	C	C	179314166	3	2	199	1	0	0	0	0	1	0	0	0	14935	188	7	5	1110	5	SOAT1	1	179314166	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	4265609	179314166	69936455	91	97483											
C1orf125	126859	broad.mit.edu	37	chr1	179364323	179364323	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacaagctcttttaaatgcGgaaaagaatgccaagtgagt	15	9	10	7	1	1	2	0	1	1	1	1	3	1	3	1	1	3	2	1	1	7	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:179364323G>A	uc001gmo.2	+	11	1222	c.1095G>A	c.(1093-1095)GCG>GCA	p.A365A	C1orf125_uc009wxg.2_RNA|C1orf125_uc001gmn.1_Silent_p.A153A|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Silent_p.A365A	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	365	Potential.										0						TTTTAAATGCGGAAAAGAATG	0.348													19	194					0	0	1	0	0		A	179364323	A	A	179364323	2	1	199	1	0	0	0	0	0	0	0	1	1996	1103	39	1		1	C1orf125	1	179364323	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	50157	179364323	69886298	92	97484											
DHX9	1660	broad.mit.edu	37	chr1	182853799	182853799	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctgtatcactggtctccgGgcagccatggaggctttggt	5	11	14	11	1	2	0	1	0	1	0	3	1	2	1	3	5	1	3	3	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:182853799G>T	uc001gpr.2	+	27	3475	c.3312G>T	c.(3310-3312)CGG>CGT	p.R1104R	DHX9_uc001gps.2_Silent_p.R890R|DHX9_uc001gpt.2_Silent_p.R383R|DHX9_uc009wyd.2_Silent_p.R69R	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	1104					CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						CTGGTCTCCGGGCAGCCATGG	0.433													10	33					0.000978159	0.0010035	1	1	0		T	182853799	T	T	182853799	2	4	199	1	0	0	0	0	0	0	0	1	4522	1219	43	5		5	DHX9	1	182853799	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3489476	182853799	66396822	93	97485											
HMCN1	83872	broad.mit.edu	37	chr1	185833648	185833648	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tattggagctataaaaattgCcttggaaatttctcttcctg	11	16	7	7	0	1	0	0	0	1	0	3	2	2	2	2	2	2	1	2	2	6	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:185833648C>A	uc001grq.1	+	3	615	c.386C>A	c.(385-387)GCC>GAC	p.A129D		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	129	VWFA.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ATAAAAATTGCCTTGGAAATT	0.403													14	48					1.49906e-05	1.56642e-05	1	1	0		A	185833648	A	A	185833648	3	1	199	1	0	0	0	0	1	0	0	0	7236	739	26	5	396	5	HMCN1	1	185833648	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2979849	185833648	63416973	94	97486											
F13B	2165	broad.mit.edu	37	chr1	197026324	197026324	+	Silent	SNP	T	C	C	0	1	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	tcacaggctaccttctcctgTccttctgaaaaggtacagtt	9	13	7	12	0	3	1	1	1	2	0	5	1	4	1	3	2	2	3	3	2	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:197026324T>C	uc001gtt.1	-	7	1034	c.990A>G	c.(988-990)GGA>GGG	p.G330G		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	330					blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CCTTCTCCTGTCCTTCTGAAA	0.383													14	51					0	0	1	0	0		C	197026324	C	C	197026324	2	2	199	1	0	0	0	0	0	0	0	1	5349	1654	58	3		3	F13B	1	197026324	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	11192676	197026324	52224297	95	97487											
ASPM	259266	broad.mit.edu	37	chr1	197094202	197094202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcacttaattcaattcctCgtgatttaagaacttgaaga	14	14	5	8	1	2	4	2	2	0	2	4	4	3	4	1	0	1	0	1	0	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:197094202C>T	uc001gtu.2	-	11	3313	c.3056G>A	c.(3055-3057)CGA>CAA	p.R1019Q	ASPM_uc001gtv.2_Missense_Mutation_p.R1019Q|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	1019	CH 1.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTCAATTCCTCGTGATTTAAG	0.373													6	40					0	0	1	0	0		T	197094202	T	T	197094202	3	4	199	1	0	0	0	0	1	0	0	0	1057	884	31	1	7449	1	ASPM	1	197094202	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	67878	197094202	52156419	96	97488											
IGFN1	91156	broad.mit.edu	37	chr1	201183365	201183365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgcagccgggggaggccgCcacactctcctgtaccctca	7	6	12	16	2	2	0	1	0	1	0	3	1	2	1	5	3	3	2	5	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:201183365C>T	uc001gwc.2	+	2	1041	c.269C>T	c.(268-270)GCC>GTC	p.A90V	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						GGGGAGGCCGCCACACTCTCC	0.642													9	43					0	0	1	0	0		T	201183365	T	T	201183365	3	4	199	1	0	0	0	0	1	0	0	0	7606	739	26	2	8835	2	IGFN1	1	201183365	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4089163	201183365	48067256	97	97489											
NAV1	89796	broad.mit.edu	37	chr1	201682022	201682022	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagagaccatgtccagcCtgcgagggtcccaggtgact	9	7	14	11	1	0	2	0	1	0	1	2	5	2	3	4	3	2	0	4	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:201682022C>A	uc001gwu.2	+	2	1182	c.835C>A	c.(835-837)CTG>ATG	p.L279M		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	279	Potential.				cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CATGTCCAGCCTGCGAGGGTC	0.607													20	97					1.01871e-10	1.11125e-10	1	1	0		A	201682022	A	A	201682022	3	1	199	1	0	0	0	0	1	0	0	0	10201	680	24	5	841	5	NAV1	1	201682022	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	498657	201682022	47568599	98	97490											
NAV1	89796	broad.mit.edu	37	chr1	201780773	201780773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctagccaaccagatagacCgggaaacaggaattggggat	15	5	12	9	1	0	2	0	0	0	2	0	5	0	5	4	4	3	0	4	4	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:201780773C>T	uc001gwu.2	+	24	5178	c.4831C>T	c.(4831-4833)CGG>TGG	p.R1611W	NAV1_uc001gwx.2_Missense_Mutation_p.R1220W	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	1614					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CCAGATAGACCGGGAAACAGG	0.517													31	150					0	0	1	0	0		T	201780773	T	T	201780773	3	4	199	1	0	0	0	0	1	0	0	0	10201	643	23	1	4995	1	NAV1	1	201780773	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	98751	201780773	47469848	99	97491											
TIMM17A	10440	broad.mit.edu	37	chr1	201926416	201926416	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccctgttcttagcccatggCgaattgtggatgactgtggt	6	13	12	10	1	1	1	0	1	1	0	1	3	1	2	3	3	1	1	3	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:201926416C>T	uc001gxc.2	+	2	70	c.34C>T	c.(34-36)CGA>TGA	p.R12*		NM_006335	NP_006326	Q99595	TI17A_HUMAN	translocase of inner mitochondrial membrane 17	12					protein targeting to mitochondrion	integral to membrane|mitochondrial inner membrane presequence translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity				0						TAGCCCATGGCGAATTGTGGA	0.413													21	47					0	0	1	0	0		T	201926416	T	T	201926416	4	4	199	1	0	0	0	0	0	1	0	0	15933	760	27	1	40	1	TIMM17A	1	201926416	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	145643	201926416	47324205	100	97492											
PPP1R12B	4660	broad.mit.edu	37	chr1	202386024	202386024	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccttcatgcagcagcttcctGtggctatctcaacatagcag	9	11	8	13	0	2	0	2	0	1	0	4	0	3	0	2	1	5	5	2	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:202386024G>A	uc001gya.1	+	2	545	c.401G>A	c.(400-402)TGT>TAT	p.C134Y	PPP1R12B_uc001gxy.2_Missense_Mutation_p.C134Y|PPP1R12B_uc009xad.1_Translation_Start_Site|PPP1R12B_uc009xae.1_Missense_Mutation_p.C134Y|PPP1R12B_uc001gxz.1_Missense_Mutation_p.C134Y	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	134	ANK 3.				regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			GCAGCTTCCTGTGGCTATCTC	0.448													44	139					0	0	1	0	0		A	202386024	A	A	202386024	3	1	199	1	0	0	0	0	1	0	0	0	12377	1377	48	4	407	4	PPP1R12B	1	202386024	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	459608	202386024	46864597	101	97493											
KLHL12	59349	broad.mit.edu	37	chr1	202894275	202894275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcattatgtctttgggggCcataatgcctcccataaagc	9	13	9	10	0	2	0	1	0	1	0	3	0	3	0	3	2	2	0	3	2	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:202894275C>T	uc001gyo.1	-	2	216	c.16G>A	c.(16-18)GCC>ACC	p.A6T	KLHL12_uc010pqc.1_Missense_Mutation_p.A44T|KLHL12_uc009xah.1_Missense_Mutation_p.A6T	NM_021633	NP_067646	Q53G59	KLH12_HUMAN	kelch-like 12	6					Wnt receptor signaling pathway		protein binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			TCTTTGGGGGCCATAATGCCT	0.408													9	83					0	0	1	0	0		T	202894275	T	T	202894275	3	4	199	1	0	0	0	0	1	0	0	0	8384	739	26	2	1734	2	KLHL12	1	202894275	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	508251	202894275	46356346	102	97494											
NFASC	23114	broad.mit.edu	37	chr1	204948564	204948564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccaagtaccccggcagcGttaactcagccgtcctccgg	8	8	9	16	4	1	0	1	0	0	0	4	0	4	0	6	2	4	3	6	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:204948564G>A	uc001hbj.2	+	19	2381	c.2053G>A	c.(2053-2055)GTT>ATT	p.V685I	NFASC_uc010pra.1_Missense_Mutation_p.V681I|NFASC_uc001hbi.2_Missense_Mutation_p.V681I|NFASC_uc010prb.1_Missense_Mutation_p.V696I|NFASC_uc010prc.1_Missense_Mutation_p.V252I|NFASC_uc001hbk.1_Missense_Mutation_p.V491I|NFASC_uc001hbl.1_5'Flank	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	685	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	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)			CCCCGGCAGCGTTAACTCAGC	0.572													32	117					0	0	1	0	0		A	204948564	A	A	204948564	3	1	199	1	0	0	0	0	1	0	0	0	10378	1145	40	1	2203	1	NFASC	1	204948564	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2054289	204948564	44302057	103	97495											
IKBKE	9641	broad.mit.edu	37	chr1	206648304	206648304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaatgcctttgggctgcctGaggatgagttcctggtggtg	6	12	16	7	0	0	3	0	2	0	1	1	4	1	4	3	4	2	2	3	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:206648304G>A	uc001hdz.1	+	5	693	c.325G>A	c.(325-327)GAG>AAG	p.E109K	IKBKE_uc009xbu.1_Missense_Mutation_p.E109K|IKBKE_uc009xbv.1_Missense_Mutation_p.E109K|IKBKE_uc001hea.1_Missense_Mutation_p.E24K	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	109	Protein kinase.				DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					TGGGCTGCCTGAGGATGAGTT	0.632													9	75					0	0	1	0	0		A	206648304	A	A	206648304	3	1	199	1	0	0	0	0	1	0	0	0	7628	1291	45	4	335	4	IKBKE	1	206648304	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1699740	206648304	42602317	104	97496											
PFKFB2	5208	broad.mit.edu	37	chr1	207236057	207236057	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggaggccatgaagatcCgcaagtgagtcttgtttaag	12	10	13	6	1	1	4	0	3	1	1	2	5	2	5	2	2	0	2	2	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:207236057C>A	uc001hfg.2	+	4	413	c.304C>A	c.(304-306)CGC>AGC	p.R102S	PFKFB2_uc010psc.1_Missense_Mutation_p.R4S|PFKFB2_uc001hfh.2_Missense_Mutation_p.R102S|PFKFB2_uc009xcc.2_Missense_Mutation_p.R60S|PFKFB2_uc010psd.1_5'Flank	NM_006212	NP_006203	O60825	F262_HUMAN	6-phosphofructo-2-kinase/fructose-2,	102	6-phosphofructo-2-kinase.	Fructose-6-phosphate (By similarity).			fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			ovary(1)	1	Prostate(682;0.19)					CATGAAGATCCGCAAGTGAGT	0.468													7	152					0.0293803	0.0297048	1	1	0		A	207236057	A	A	207236057	3	1	199	1	0	0	0	0	1	0	0	0	11780	652	23	5	314	5	PFKFB2	1	207236057	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	587753	207236057	42014564	105	97497											
CR1	1378	broad.mit.edu	37	chr1	207789961	207789961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagctatccttaatgggagaCacacaggaactccctttgga	12	9	9	11	0	0	1	0	0	0	1	2	4	2	3	2	3	2	1	2	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:207789961C>T	uc001hfy.2	+	33	5493	c.5353C>T	c.(5353-5355)CAC>TAC	p.H1785Y	CR1_uc001hfx.2_Missense_Mutation_p.H2235Y	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1785	Sushi 28.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TAATGGGAGACACACAGGAAC	0.408													14	116					0	0	1	0	0		T	207789961	T	T	207789961	3	4	199	1	0	0	0	0	1	0	0	0	3843	478	17	4	6865	4	CR1	1	207789961	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	553904	207789961	41460660	106	97498											
CD34	947	broad.mit.edu	37	chr1	208062131	208062131	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggtgaccagtgcaatcagggTcttttgggaatagctctggt	8	12	14	7	0	3	1	1	1	2	0	3	2	3	2	1	4	2	2	1	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:208062131T>A	uc001hgw.1	-	7	1126	c.868A>T	c.(868-870)ACC>TCC	p.T290S	CD34_uc001hgv.1_Missense_Mutation_p.T132S|CD34_uc001hgx.1_Missense_Mutation_p.T290S|CD34_uc010psj.1_Missense_Mutation_p.T155S	NM_001025109	NP_001020280	P28906	CD34_HUMAN	CD34 antigen isoform a	290	Extracellular (Potential).				cell-cell adhesion|leukocyte migration|regulation of immune response	integral to membrane	carbohydrate binding			ovary(1)	1						GCAATCAGGGTCTTTTGGGAA	0.527													38	226					0	0	1	0	0		A	208062131	A	A	208062131	3	1	199	1	0	0	0	0	1	0	0	0	3009	1667	58	5	316	5	CD34	1	208062131	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	272170	208062131	41188490	107	97499											
PLXNA2	5362	broad.mit.edu	37	chr1	208390710	208390710	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcttcccatccacagcCgtgccgatgaagagcttgcc	7	9	9	16	2	0	2	0	1	0	1	3	3	3	2	6	0	5	2	6	0	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:208390710C>A	uc001hgz.2	-	2	1316	c.558G>T	c.(556-558)ACG>ACT	p.T186T	PLXNA2_uc001hha.3_Silent_p.T240T	NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	186	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		CATCCACAGCCGTGCCGATGA	0.587													33	185					1.08052e-11	1.18396e-11	1	1	0		A	208390710	A	A	208390710	2	1	199	1	0	0	0	0	0	0	0	1	12139	639	23	5		5	PLXNA2	1	208390710	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	328579	208390710	40859911	108	97500											
HHAT	55733	broad.mit.edu	37	chr1	210536201	210536201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttttttttggtcagaacacGaagaggagctggaccaggaa	12	11	12	6	1	1	2	1	0	0	2	1	6	1	5	1	4	2	1	1	4	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:210536201G>A	uc009xcx.2	+	3	263	c.97G>A	c.(97-99)GAA>AAA	p.E33K	HHAT_uc010psq.1_Missense_Mutation_p.E33K|HHAT_uc001hhz.3_Missense_Mutation_p.E33K|HHAT_uc010psr.1_Missense_Mutation_p.E34K|HHAT_uc010pss.1_Intron|HHAT_uc009xcy.2_Missense_Mutation_p.E33K|HHAT_uc010pst.1_Intron|HHAT_uc010psu.1_Missense_Mutation_p.E33K	NM_001122834	NP_001116306	Q5VTY9	HHAT_HUMAN	hedgehog acyltransferase	33					multicellular organismal development	endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0136)|all cancers(67;0.161)|KIRC - Kidney renal clear cell carcinoma(1967;0.215)		GTCAGAACACGAAGAGGAGCT	0.398													8	54					0	0	1	0	0		A	210536201	A	A	210536201	3	1	199	1	0	0	0	0	1	0	0	0	7105	1059	37	1	201	1	HHAT	1	210536201	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2145491	210536201	38714420	109	97501											
KCNH1	3756	broad.mit.edu	37	chr1	211192138	211192138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgtacctgactctctctcCcctccagtggtggtggaatc	6	12	10	13	0	2	1	0	1	2	0	6	3	3	2	4	3	1	1	4	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:211192138C>T	uc001hib.2	-	6	1189	c.1019G>A	c.(1018-1020)GGG>GAG	p.G340E	KCNH1_uc001hic.2_Intron	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	340	Extracellular (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		ACTCTCTCTCCCCTCCAGTGG	0.438													24	84					0	0	1	0	0		T	211192138	T	T	211192138	3	4	199	1	0	0	0	0	1	0	0	0	8047	623	22	4	1974	4	KCNH1	1	211192138	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	655937	211192138	38058483	110	97502											
CENPF	1063	broad.mit.edu	37	chr1	214815734	214815734	+	Silent	SNP	T	C	C	0	1	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	gaagttaaaatattaaatgaTgacagtggtcttctccatgg	14	13	9	5	0	2	2	0	2	2	0	3	3	2	2	1	2	0	1	1	2	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:214815734T>C	uc001hkm.2	+	12	4227	c.4053T>C	c.(4051-4053)GAT>GAC	p.D1351D		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TATTAAATGATGACAGTGGTC	0.408													9	59					0	0	1	0	0		C	214815734	C	C	214815734	2	2	199	1	0	0	0	0	0	0	0	1	3234	1461	51	3		3	CENPF	1	214815734	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	3623596	214815734	34434887	111	97503											
KCTD3	51133	broad.mit.edu	37	chr1	215785202	215785202	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagacgatcaacaggtgtttAtccagaaagttgttcccatc	12	11	9	9	1	1	2	1	0	0	2	4	4	3	2	2	1	1	3	2	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:215785202A>G	uc001hks.2	+	15	1795	c.1501A>G	c.(1501-1503)ATC>GTC	p.I501V	KCTD3_uc001hkt.2_Missense_Mutation_p.I501V|KCTD3_uc010pub.1_Missense_Mutation_p.I399V|KCTD3_uc009xdn.2_Missense_Mutation_p.I225V	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	501						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		ACAGGTGTTTATCCAGAAAGT	0.308													6	85					0	0	1	0	0		G	215785202	G	G	215785202	3	3	199	1	0	0	0	0	1	0	0	0	8126	449	16	3	1559	3	KCTD3	1	215785202	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	969468	215785202	33465419	112	97504											
SUSD4	55061	broad.mit.edu	37	chr1	223396620	223396620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtcgatgcctgggctggtgGatgccacctcctctgccgtg	3	11	14	13	2	1	0	0	0	1	0	3	2	2	1	5	3	3	1	5	3	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:223396620G>A	uc001hnx.2	-	7	2049	c.1415C>T	c.(1414-1416)TCC>TTC	p.S472F	SUSD4_uc001hny.3_Missense_Mutation_p.S472F|SUSD4_uc010puw.1_Missense_Mutation_p.S312F	NM_017982	NP_060452	Q5VX71	SUSD4_HUMAN	sushi domain containing 4 isoform a	472	Cytoplasmic (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0611)		TGGGCTGGTGGATGCCACCTC	0.587													18	69					0	0	1	0	0		A	223396620	A	A	223396620	3	1	199	1	0	0	0	0	1	0	0	0	15435	1174	41	4	65	4	SUSD4	1	223396620	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7611418	223396620	25854001	113	97505											
OBSCN	84033	broad.mit.edu	37	chr1	228550291	228550291	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacagacaccaccctggagCgagcggaccaggaggtcaca	12	3	12	14	2	1	1	1	0	0	1	1	5	1	4	3	4	3	0	3	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:228550291C>T	uc009xez.1	+	80	18720	c.18676C>T	c.(18676-18678)CGA>TGA	p.R6226*	OBSCN_uc001hsr.1_Nonsense_Mutation_p.R855*	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6226					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CACCCTGGAGCGAGCGGACCA	0.677													5	36					0	0	1	0	0		T	228550291	T	T	228550291	4	4	199	1	0	0	0	0	0	1	0	0	10831	760	27	1	20200	1	OBSCN	1	228550291	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5153671	228550291	20700330	114	97506											
TRIM11	81559	broad.mit.edu	37	chr1	228584848	228584848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggctgggttcgtacctgcGcagggcgtccttgatgtcct	4	11	15	11	3	0	1	0	1	0	0	3	2	2	1	3	3	2	4	3	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:228584848G>A	uc001hss.2	-	4	1009	c.754C>T	c.(754-756)CGC>TGC	p.R252C	TRIM11_uc010pvx.1_Missense_Mutation_p.R251C|TRIM11_uc001hst.1_Missense_Mutation_p.R252C	NM_145214	NP_660215	Q96F44	TRI11_HUMAN	tripartite motif-containing 11	252					response to virus	cytoplasm|nucleus	protein binding|zinc ion binding			lung(3)|ovary(1)	4		Prostate(94;0.0724)				TCGTACCTGCGCAGGGCGTCC	0.652													13	76					0	0	1	0	0		A	228584848	A	A	228584848	3	1	199	1	0	0	0	0	1	0	0	0	16513	1087	38	1	664	1	TRIM11	1	228584848	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	34557	228584848	20665773	115	97507											
GALNT2	2590	broad.mit.edu	37	chr1	230372444	230372444	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggaaaattgagaaagtgCgagttcttagaaatgatcga	15	10	13	3	2	1	3	0	2	1	2	2	7	1	4	0	2	1	1	0	2	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:230372444C>T	uc010pwa.1	+	6	652	c.580C>T	c.(580-582)CGA>TGA	p.R194*	GALNT2_uc010pvy.1_Nonsense_Mutation_p.R156*|GALNT2_uc010pvz.1_RNA	NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	194	Lumenal (Potential).|Catalytic subdomain A.				immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				TGAGAAAGTGCGAGTTCTTAG	0.403													7	97					0	0	1	0	0		T	230372444	T	T	230372444	4	4	199	1	0	0	0	0	0	1	0	0	6228	760	27	1	602	1	GALNT2	1	230372444	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1787596	230372444	18878177	116	97508											
TTC13	79573	broad.mit.edu	37	chr1	231067185	231067185	+	Missense_Mutation	SNP	A	G	G	1	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	gagccctttcatatactggcAcacttcattatatggctcta	10	14	6	11	0	3	0	2	0	1	0	3	1	3	0	1	2	2	2	1	2	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:231067185A>G	uc001huf.3	-	11	1190	c.1159T>C	c.(1159-1161)TGC>CGC	p.C387R	TTC13_uc009xfi.2_Missense_Mutation_p.C334R|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.C334R|TTC13_uc009xfk.1_Missense_Mutation_p.C277R	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	387	TPR 7.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		ATATACTGGCACACTTCATTA	0.413													22	70					0	0	1	0	0		G	231067185	G	G	231067185	3	3	199	1	0	0	0	0	1	0	0	0	16706	159	6	3	1475	3	TTC13	1	231067185	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	694741	231067185	18183436	117	97509											
EXOC8	149371	broad.mit.edu	37	chr1	231472660	231472660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gagggccctcttggtgtcctCcagcacttccagccactctc	5	10	9	17	0	2	0	0	0	2	0	6	1	5	0	5	2	2	1	5	2	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:231472660C>T	uc001huq.2	-	1	919	c.832G>A	c.(832-834)GAG>AAG	p.E278K		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	278	PH.				exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				TTGGTGTCCTCCAGCACTTCC	0.577													12	75					0	0	1	0	0		T	231472660	T	T	231472660	3	4	199	1	0	0	0	0	1	0	0	0	5319	864	30	4	1349	4	EXOC8	1	231472660	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	405475	231472660	17777961	118	97510											
PCNXL2	80003	broad.mit.edu	37	chr1	233134179	233134179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgggcattgcaatccttcCgcatcctgtgggagggagaa	8	8	15	10	2	0	1	0	0	0	1	3	3	3	2	3	4	1	3	3	4	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:233134179C>T	uc001hvl.2	-	32	5844	c.5609G>A	c.(5608-5610)CGG>CAG	p.R1870Q	PCNXL2_uc001hvk.1_Missense_Mutation_p.R522Q|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1870						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GCAATCCTTCCGCATCCTGTG	0.582													7	59					0	0	1	0	0		T	233134179	T	T	233134179	3	4	199	1	0	0	0	0	1	0	0	0	11611	652	23	1	816	1	PCNXL2	1	233134179	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1661519	233134179	16116442	119	97511											
LYST	1130	broad.mit.edu	37	chr1	235884029	235884029	+	Silent	SNP	A	G	G	1	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	gcaagtataaatgggaacacAggatactgcatgagatcatt	16	9	10	6	0	1	1	1	1	0	1	1	4	1	3	0	2	3	3	0	2	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:235884029A>G	uc001hxj.2	-	40	9667	c.9492T>C	c.(9490-9492)CCT>CCC	p.P3164P	LYST_uc001hxi.2_Silent_p.P388P	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3164	BEACH.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			ATGGGAACACAGGATACTGCA	0.363									Chediak-Higashi_syndrome				42	120					0	0	1	0	0		G	235884029	G	G	235884029	2	3	199	1	0	0	0	0	0	0	0	1	9146	175	7	3		3	LYST	1	235884029	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2749850	235884029	13366592	120	97512											
HEATR1	55127	broad.mit.edu	37	chr1	236721600	236721600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgctatgcacagcagcGcgcttcccaggacattcttc	7	10	8	16	2	2	0	0	0	2	0	4	1	3	1	2	1	4	4	2	1	1	4	rs143495736	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:236721600G>A	uc001hyd.1	-	36	5266	c.5141C>T	c.(5140-5142)GCG>GTG	p.A1714V	HEATR1_uc009xgh.1_Missense_Mutation_p.A876V	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	1714					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			GCACAGCAGCGCGCTTCCCAG	0.562													27	51					0	0	1	0	0		A	236721600	A	A	236721600	3	1	199	1	0	0	0	0	1	0	0	0	7043	1087	38	1	1333	1	HEATR1	1	236721600	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	837571	236721600	12529021	121	97513											
FMN2	56776	broad.mit.edu	37	chr1	240256069	240256069	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctccagctccagcaacaGcagcagcagcagcagctcca	12	3	9	17	0	0	0	0	0	0	0	3	0	3	0	3	0	10	9	3	0	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:240256069G>A	uc010pyd.1	+	1	885	c.660G>A	c.(658-660)CAG>CAA	p.Q220Q	FMN2_uc010pye.1_Silent_p.Q220Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	220	Potential.|Gln-rich.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			tccagcaacagcagcagcagc	0.468													4	6					0	0	1	0	0		A	240256069	A	A	240256069	2	1	199	1	0	0	0	0	0	0	0	1	5964	962	34	2		2	FMN2	1	240256069	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3534469	240256069	8994552	122	97514											
CEP170	9859	broad.mit.edu	37	chr1	243349656	243349656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgttcctcaagagttgcacGtttgctacagcgcctgtgag	7	12	12	10	2	1	2	1	1	0	1	2	2	2	2	2	0	4	5	2	0	2	4	rs151038677	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:243349656G>A	uc001hzs.2	-	9	1585	c.1177C>T	c.(1177-1179)CGT>TGT	p.R393C	CEP170_uc001hzt.2_Missense_Mutation_p.R393C|CEP170_uc001hzu.2_Missense_Mutation_p.R393C	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	393						centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			AGAGTTGCACGTTTGCTACAG	0.438													15	80					0	0	1	0	0		A	243349656	A	A	243349656	3	1	199	1	0	0	0	0	1	0	0	0	3253	1145	40	1	3655	1	CEP170	1	243349656	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3093587	243349656	5900965	123	97515											
AKT3	10000	broad.mit.edu	37	chr1	243809301	243809301	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttcttgcctctgcagtCtgtctgctacagcctggata	5	14	8	14	0	5	0	0	0	5	0	5	1	5	1	3	1	5	2	3	1	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:243809301C>A	uc001iab.1	-	4	404	c.323G>T	c.(322-324)AGA>ATA	p.R108I	AKT3_uc001hzz.1_Missense_Mutation_p.R108I	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	108					signal transduction	Golgi apparatus|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_cancers(71;0.000307)|all_epithelial(71;0.000374)|all_lung(81;0.0323)|Ovarian(71;0.0619)|all_neural(11;0.101)|Lung NSC(105;0.168)	all_cancers(173;0.0274)	all cancers(7;4.3e-08)|GBM - Glioblastoma multiforme(7;5.12e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00196)			CCTCTGCAGTCTGTCTGCTAC	0.363													10	44					0.00829132	0.00845287	1	1	0		A	243809301	A	A	243809301	3	1	199	1	0	0	0	0	1	0	0	0	481	913	32	5	1204	5	AKT3	1	243809301	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	459645	243809301	5441320	124	97516											
KIF26B	55083	broad.mit.edu	37	chr1	245583006	245583006	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctcctgcgtggccagcgaGacttccacaggcacatcggt	7	7	13	14	3	0	1	0	0	0	1	3	2	2	1	3	4	2	2	3	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:245583006G>A	uc001ibf.1	+	4	1565	c.1125G>A	c.(1123-1125)GAG>GAA	p.E375E	KIF26B_uc010pyq.1_Silent_p.E375E	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	375					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			TGGCCAGCGAGACTTCCACAG	0.602													21	81					0	0	1	0	0		A	245583006	A	A	245583006	2	1	199	1	0	0	0	0	0	0	0	1	8311	933	33	4		4	KIF26B	1	245583006	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1773705	245583006	3667615	125	97517											
SMYD3	64754	broad.mit.edu	37	chr1	245912889	245912889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgctctgatgttggcgtcGcattcttctaaaagtagaat	10	14	10	7	2	3	2	0	1	3	1	4	3	3	2	0	1	1	4	0	1	4	5	rs139195102	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:245912889G>A	uc001ibl.2	-	12	1358	c.1263C>T	c.(1261-1263)TGC>TGT	p.C421C	SMYD3_uc001ibk.2_Silent_p.C362C|SMYD3_uc001ibi.2_3'UTR|SMYD3_uc001ibj.2_Silent_p.C232C	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	SET and MYND domain containing 3	421						cytoplasm|nucleus	histone-lysine N-methyltransferase activity|protein binding|zinc ion binding				0	all_cancers(71;0.000291)|all_epithelial(71;0.000174)|Ovarian(71;0.0377)|all_lung(81;0.0568)|Lung NSC(105;0.0804)|Breast(184;0.173)|Melanoma(84;0.242)	all_cancers(173;0.0496)|Acute lymphoblastic leukemia(190;0.164)	OV - Ovarian serous cystadenocarcinoma(106;0.0129)	all cancers(4;0.028)|GBM - Glioblastoma multiforme(49;0.0537)		TGTTGGCGTCGCATTCTTCTA	0.433													10	42					0	0	1	0	0		A	245912889	A	A	245912889	2	1	199	1	0	0	0	0	0	0	0	1	14848	1079	38	1		1	SMYD3	1	245912889	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	329883	245912889	3337732	126	97518											
OR2M3	127062	broad.mit.edu	37	chr1	248367150	248367150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctttgttcatgtacataCggcccacatctgatcgctcc	8	12	7	14	2	2	1	1	1	1	0	4	1	3	1	2	1	3	4	2	1	2	4	rs147728074	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr1:248367150C>T	uc010pzg.1	+	1	781	c.781C>T	c.(781-783)CGG>TGG	p.R261W		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CATGTACATACGGCCCACATC	0.502													47	175					0	0	1	0	0		T	248367150	T	T	248367150	3	4	199	1	0	0	0	0	1	0	0	0	11030	527	19	1	783	1	OR2M3	1	248367150	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2454261	248367150	883471	127	97519											
PXDN	7837	broad.mit.edu	37	chr2	1653138	1653138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcgggtgtgacggtctccGtcccgatcagggtggtggac	4	9	17	11	5	2	1	1	1	1	0	5	3	3	2	2	5	0	0	2	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:1653138G>A	uc002qxa.2	-	17	2478	c.2414C>T	c.(2413-2415)ACG>ATG	p.T805M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	805					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GACGGTCTCCGTCCCGATCAG	0.652													13	38					0	0	1	0	0		A	1653138	A	A	1653138	3	1	199	1	0	0	0	0	1	0	0	0	12872	1145	40	1	2053	1	PXDN	2	1653138	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		1653138	241546235	128	97520											
TTC15	51112	broad.mit.edu	37	chr2	3483101	3483101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactacctgcacgagagcGtgctcttcaacctgaccacc	9	7	9	16	2	2	2	1	1	1	1	2	3	2	2	4	1	5	3	4	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:3483101G>A	uc002qxm.1	+	12	2283	c.2077G>A	c.(2077-2079)GTG>ATG	p.V693M	TTC15_uc002qxn.1_Missense_Mutation_p.V693M|TTC15_uc010ewm.1_Intron	NM_016030	NP_057114	Q8WVT3	TTC15_HUMAN	tetratricopeptide repeat domain 15	693							binding			ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)	all_cancers(51;0.214)		OV - Ovarian serous cystadenocarcinoma(76;0.0402)|Epithelial(75;0.0986)|all cancers(51;0.149)		GCACGAGAGCGTGCTCTTCAA	0.637													18	77					0	0	1	0	0		A	3483101	A	A	3483101	3	1	199	1	0	0	0	0	1	0	0	0	16708	1145	40	1	2119	1	TTC15	2	3483101	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1829963	3483101	239716272	129	97521											
YWHAQ	10971	broad.mit.edu	37	chr2	9728377	9728377	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttaagagcaagccccaggcGgattgggtgtgtgggttgca	8	9	17	7	1	0	1	0	0	0	1	0	2	0	2	2	4	3	4	2	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:9728377G>A	uc002qzw.2	-	3	663	c.499C>T	c.(499-501)CGC>TGC	p.R167C	YWHAQ_uc002qzx.2_Missense_Mutation_p.R167C	NM_006826	NP_006817	P27348	1433T_HUMAN	tyrosine 3/tryptophan 5 -monooxygenase	167					negative regulation of transcription, DNA-dependent	centrosome|nucleus	protein N-terminus binding			breast(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.241)		AGCCCCAGGCGGATTGGGTGT	0.428													20	48					0	0	1	0	0		A	9728377	A	A	9728377	3	1	199	1	0	0	0	0	1	0	0	0	17531	1116	39	1	250	1	YWHAQ	2	9728377	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6245276	9728377	233470996	130	97522											
ROCK2	9475	broad.mit.edu	37	chr2	11332391	11332391	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggagctgggggctttttaGgtatctttttcaccaaccga	7	14	11	9	1	2	0	1	0	1	0	2	2	2	1	2	4	2	3	2	4	3	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:11332391G>T	uc002rbd.1	-	32	4495	c.4046C>A	c.(4045-4047)CCT>CAT	p.P1349H		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	1349	PH.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		GGGCTTTTTAGGTATCTTTTT	0.413													46	197					1.86277e-20	2.08796e-20	1	1	0		T	11332391	T	T	11332391	3	4	199	1	0	0	0	0	1	0	0	0	13543	1000	35	5	128	5	ROCK2	2	11332391	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1604014	11332391	231866982	131	97523											
NCOA1	8648	broad.mit.edu	37	chr2	24930502	24930502	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctacttctgtgtcagtGactggacaggtacaaggaaa	12	10	11	8	0	3	1	1	1	2	0	3	3	3	3	0	3	2	2	0	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:24930502G>T	uc002rfk.2	+	11	2421	c.2163G>T	c.(2161-2163)GTG>GTT	p.V721V	NCOA1_uc010eye.2_Silent_p.V721V|NCOA1_uc002rfi.2_Silent_p.V570V|NCOA1_uc002rfj.2_Silent_p.V721V|NCOA1_uc002rfl.2_Silent_p.V721V	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	721									PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGTGTCAGTGACTGGACAGG	0.423			T	PAX3	alveolar rhadomyosarcoma								16	45					8.04996e-18	8.99557e-18	1	1	0		T	24930502	T	T	24930502	2	4	199	1	0	0	0	0	0	0	0	1	10247	1277	45	5		5	NCOA1	2	24930502	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	13598111	24930502	218268871	132	97524											
C2orf79	391356	broad.mit.edu	37	chr2	25013338	25013338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttccttggggtagggcCggagagcaatacaagtggcg	8	9	15	9	2	1	1	0	0	1	1	2	2	2	1	2	5	2	2	2	5	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:25013338C>T	uc002rfm.2	-	2	370	c.365G>A	c.(364-366)CGG>CAG	p.R122Q	CENPO_uc002rfn.2_5'Flank|CENPO_uc002rfo.1_5'Flank|CENPO_uc002rfp.1_5'Flank|CENPO_uc002rfq.1_5'Flank	NM_001013663	NP_001013685	Q6GMV3	PTRD1_HUMAN	hypothetical protein LOC391356	122					translation		aminoacyl-tRNA hydrolase activity|protein tyrosine phosphatase activity				0						GGGGTAGGGCCGGAGAGCAAT	0.502													10	68					0	0	1	0	0		T	25013338	T	T	25013338	3	4	199	1	0	0	0	0	1	0	0	0	2199	652	23	1	61	1	C2orf79	2	25013338	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	82836	25013338	218186035	133	97525											
DNMT3A	1788	broad.mit.edu	37	chr2	25463308	25463308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagaactcaaagaagagccGgccagtgccctctgagaggt	12	6	13	10	1	2	4	1	1	1	4	2	5	2	4	3	2	3	1	3	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:25463308G>A	uc002rgc.2	-	19	2442	c.2185C>T	c.(2185-2187)CGG>TGG	p.R729W	DNMT3A_uc002rgd.2_Missense_Mutation_p.R729W|DNMT3A_uc010eyi.2_RNA|DNMT3A_uc002rgb.2_Missense_Mutation_p.R540W	NM_022552	NP_072046	Q9Y6K1	DNM3A_HUMAN	DNA cytosine methyltransferase 3 alpha isoform	729					regulation of gene expression by genetic imprinting	cytoplasm|euchromatin|nuclear matrix	DNA (cytosine-5-)-methyltransferase activity|DNA binding|metal ion binding|protein binding	p.R729Q(1)|p.R729W(1)		haematopoietic_and_lymphoid_tissue(133)|lung(4)|ovary(3)	140	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGAAGAGCCGGCCAGTGCCC	0.612			Mis|F|N|S		AML								7	32					0	0	1	0	0		A	25463308	A	A	25463308	3	1	199	1	0	0	0	0	1	0	0	0	4682	1115	39	1	573	1	DNMT3A	2	25463308	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	449970	25463308	217736065	134	97526											
DTNB	1838	broad.mit.edu	37	chr2	25611181	25611181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactggcatgggcattggcCggccgcctccatgggtgggc	4	7	17	13	2	0	0	0	0	0	0	1	0	1	0	4	6	0	3	4	6	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:25611181C>T	uc002rgh.2	-	17	1875	c.1625G>A	c.(1624-1626)CGG>CAG	p.R542Q	DTNB_uc002rgg.2_Missense_Mutation_p.R171Q|DTNB_uc010yko.1_Missense_Mutation_p.R478Q|DTNB_uc010ykp.1_Missense_Mutation_p.R331Q|DTNB_uc002rgo.2_Missense_Mutation_p.R326Q|DTNB_uc002rgi.2_Missense_Mutation_p.R542Q|DTNB_uc002rgj.2_Missense_Mutation_p.R542Q|DTNB_uc002rgk.2_Missense_Mutation_p.R512Q|DTNB_uc002rgl.2_Missense_Mutation_p.R505Q|DTNB_uc002rgq.2_Missense_Mutation_p.R535Q|DTNB_uc002rgm.2_Missense_Mutation_p.R505Q|DTNB_uc002rgn.2_Missense_Mutation_p.R331Q|DTNB_uc002rgp.1_Missense_Mutation_p.R40Q	NM_021907	NP_068707	O60941	DTNB_HUMAN	dystrobrevin, beta isoform 1	542						cytoplasm	calcium ion binding|zinc ion binding			large_intestine(2)|ovary(2)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGGCATTGGCCGGCCGCCTCC	0.622													5	18					0	0	1	0	0		T	25611181	T	T	25611181	3	4	199	1	0	0	0	0	1	0	0	0	4795	652	23	1	274	1	DTNB	2	25611181	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	147873	25611181	217588192	135	97527											
RAB10	10890	broad.mit.edu	37	chr2	26350067	26350067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaacaagtgtgatatggacGacaaaagagttgtacctaaa	18	8	10	5	1	0	2	0	1	0	1	0	5	0	3	1	1	2	2	1	1	8	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:26350067G>A	uc002rgv.2	+	4	1131	c.382G>A	c.(382-384)GAC>AAC	p.D128N		NM_016131	NP_057215	P61026	RAB10_HUMAN	ras-related GTP-binding protein RAB10	128					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGATATGGACGACAAAAGAGT	0.318													16	66					0	0	1	0	0		A	26350067	A	A	26350067	3	1	199	1	0	0	0	0	1	0	0	0	12915	1058	37	1	396	1	RAB10	2	26350067	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	738886	26350067	216849306	136	97528											
OTOF	9381	broad.mit.edu	37	chr2	26700603	26700603	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgatcatctcctgtatgtcGttcaggccttcttcctgtga	5	17	8	11	1	4	2	2	2	2	0	7	2	5	2	3	1	0	2	3	1	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:26700603G>A	uc002rhk.2	-	19	2356	c.2229C>T	c.(2227-2229)AAC>AAT	p.N743N	OTOF_uc002rhh.2_Translation_Start_Site|OTOF_uc002rhi.2_Silent_p.N53N|OTOF_uc002rhj.2_Translation_Start_Site	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	743	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CCTGTATGTCGTTCAGGCCTT	0.617													4	28					0	0	1	0	0		A	26700603	A	A	26700603	2	1	199	1	0	0	0	0	0	0	0	1	11322	1136	40	1		1	OTOF	2	26700603	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	350536	26700603	216498770	137	97529											
EMILIN1	11117	broad.mit.edu	37	chr2	27306220	27306220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccaagaggaactaggccGccttcgggatggtgtggagc	9	7	16	9	2	0	1	0	0	0	1	2	4	1	4	3	5	2	0	3	5	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:27306220G>A	uc002rii.3	+	4	2209	c.1781G>A	c.(1780-1782)CGC>CAC	p.R594H	EMILIN1_uc002rik.3_5'Flank	NM_007046	NP_008977	Q9Y6C2	EMIL1_HUMAN	elastin microfibril interfacer 1 precursor	594	Potential.				cell adhesion	collagen				pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAACTAGGCCGCCTTCGGGAT	0.697													17	48					0	0	1	0	0		A	27306220	A	A	27306220	3	1	199	1	0	0	0	0	1	0	0	0	5101	1087	38	1	1795	1	EMILIN1	2	27306220	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	605617	27306220	215893153	138	97530											
CAD	790	broad.mit.edu	37	chr2	27454356	27454356	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgaagtcatgggcattgggCgttcatttgaggaggccttc	7	12	15	7	1	2	2	2	2	0	0	3	3	2	3	1	4	0	2	1	4	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:27454356C>T	uc002rji.2	+	16	2470	c.2308C>T	c.(2308-2310)CGT>TGT	p.R770C	CAD_uc010eyw.2_Missense_Mutation_p.R707C	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	770	CPSase (Carbamoyl-phosphate synthase).|CPSase A.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GGGCATTGGGCGTTCATTTGA	0.512													6	24					0	0	1	0	0		T	27454356	T	T	27454356	3	4	199	1	0	0	0	0	1	0	0	0	2568	768	27	1	2370	1	CAD	2	27454356	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	148136	27454356	215745017	139	97531											
SLC4A1AP	22950	broad.mit.edu	37	chr2	27890237	27890237	+	Missense_Mutation	SNP	A	G	G	1	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	ggatcccaaaaaggctctccAaggcttttttgaccgagaag	12	9	10	10	1	1	2	0	1	1	1	3	4	2	3	3	3	0	2	3	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:27890237A>G	uc002rlk.3	+	3	1406	c.1124A>G	c.(1123-1125)CAA>CGA	p.Q375R		NM_018158	NP_060628	Q9BWU0	NADAP_HUMAN	solute carrier family 4 (anion exchanger),	375						cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)					AAGGCTCTCCAAGGCTTTTTT	0.418													3	48					0	0	1	0	0		G	27890237	G	G	27890237	3	3	199	1	0	0	0	0	1	0	0	0	14678	130	5	3	1134	3	SLC4A1AP	2	27890237	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	435881	27890237	215309136	140	97532											
CLIP4	79745	broad.mit.edu	37	chr2	29404460	29404460	+	Missense_Mutation	SNP	A	G	G	1	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	cgaaagctgctttgcgtcgcAgttggagcagcacccccacc	8	7	11	15	3	0	0	0	0	0	0	1	2	0	1	3	1	5	6	3	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:29404460A>G	uc002rmv.2	+	16	2058	c.1819A>G	c.(1819-1821)AGT>GGT	p.S607G	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	607										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					TTTGCGTCGCAGTTGGAGCAG	0.522													11	42					0	0	1	0	0		G	29404460	G	G	29404460	3	3	199	1	0	0	0	0	1	0	0	0	3538	188	7	3	1877	3	CLIP4	2	29404460	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1514223	29404460	213794913	141	97533											
LCLAT1	253558	broad.mit.edu	37	chr2	30791031	30791031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttacttttgtggtagaccGtctaagagaaggtaagcacc	11	12	10	8	1	1	2	0	0	1	2	1	3	1	2	2	2	2	3	2	2	5	7	rs139333259	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:30791031G>A	uc002rnj.2	+	6	940	c.731G>A	c.(730-732)CGT>CAT	p.R244H	LCLAT1_uc010ymp.1_Missense_Mutation_p.R82H|LCLAT1_uc002rnk.1_Missense_Mutation_p.R244H|LCLAT1_uc002rnl.2_Missense_Mutation_p.R206H|LCLAT1_uc010ymq.1_Missense_Mutation_p.R206H	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	244					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						GTGGTAGACCGTCTAAGAGAA	0.328													4	38					0	0	1	0	0		A	30791031	A	A	30791031	3	1	199	1	0	0	0	0	1	0	0	0	8693	1145	40	1	749	1	LCLAT1	2	30791031	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1386571	30791031	212408342	142	97534											
FAM98A	25940	broad.mit.edu	37	chr2	33810391	33810391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atagccacctctccctcctcCtcggcctcctgtttgctgct	3	13	6	19	1	1	0	0	0	1	0	6	0	4	0	7	1	3	3	7	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:33810391C>T	uc002rpa.1	-	8	1083	c.1009G>A	c.(1009-1011)GGA>AGA	p.G337R	FAM98A_uc010yne.1_Missense_Mutation_p.G142R|FAM98A_uc010ynd.1_Missense_Mutation_p.G168R|FAM98A_uc002roz.1_Missense_Mutation_p.G175R	NM_015475	NP_056290	Q8NCA5	FA98A_HUMAN	hypothetical protein LOC25940	338	Gly-rich.			G -> V (in Ref. 2; CAB43217).						ovary(1)	1	all_hematologic(175;0.115)					CTCCCTCCTCCTCGGCCTCCT	0.587													12	64					0	0	1	0	0		T	33810391	T	T	33810391	3	4	199	1	0	0	0	0	1	0	0	0	5670	690	24	4	551	4	FAM98A	2	33810391	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3019360	33810391	209388982	143	97535											
STRN	6801	broad.mit.edu	37	chr2	37113870	37113870	+	Missense_Mutation	SNP	T	C	C																															tccacttactcttcacccccTttttcccctttctctccttt																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:37113870T>C	uc002rpn.2	-	8	1040	c.1031A>G	c.(1030-1032)AAG>AGG	p.K344R	STRN_uc010ezx.2_Intron	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	344					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				CTTCACCCCCTTTTTCCCCTT	0.388													21	128					0	0	1	0	0		C	37113870	C	C	37113870	3	2	199	1	0	0	0	0	1	0	0	0	15354	1609	56	3	1355	3	STRN	2	37113870	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	3303479	37113870	206085503	144	97536	185	2									
STRN	6801	broad.mit.edu	37	chr2	37113874	37113874	+	Missense_Mutation	SNP	T	C	C																															cttactcttcacccccttttTcccctttctctcctttttgt																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:37113874T>C	uc002rpn.2	-	8	1036	c.1027A>G	c.(1027-1029)AAA>GAA	p.K343E	STRN_uc010ezx.2_Intron	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	343					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				ACCCCCTTTTTCCCCTTTCTC	0.383													4	143					0	0	1	0	0		C	37113874	C	C	37113874	3	2	199	1	0	0	0	0	1	0	0	0	15354	1792	62	3	1359	3	STRN	2	37113874	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	4	37113874	206085499	145	97537	185	2									
PLEKHH2	130271	broad.mit.edu	37	chr2	43973034	43973034	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attatttccaaatgggaacaGgcttccaaagaacagcagcc	15	8	8	10	0	0	1	0	0	0	1	2	2	2	2	3	2	4	2	3	2	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:43973034G>T	uc010yny.1	+	24	3668	c.3585G>T	c.(3583-3585)CAG>CAT	p.Q1195H		NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H	1195	FERM.					cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				AATGGGAACAGGCTTCCAAAG	0.383													10	29					1.08611e-07	1.16142e-07	1	1	0		T	43973034	T	T	43973034	3	4	199	1	0	0	0	0	1	0	0	0	12096	991	35	5	3675	5	PLEKHH2	2	43973034	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6859160	43973034	199226339	146	97538											
ABCG5	64240	broad.mit.edu	37	chr2	44053638	44053638	+	Silent	SNP	T	C	C	0	1	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	atgcagtccaggcctgtggtTggctcatcaaacagcatgac	10	9	11	11	0	2	1	2	1	0	0	3	1	3	1	2	3	3	4	2	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:44053638T>C	uc002rtn.2	-	6	797	c.657A>G	c.(655-657)CCA>CCG	p.P219P	ABCG5_uc002rtm.2_Intron|ABCG5_uc002rto.2_Intron|ABCG5_uc002rtp.2_Intron	NM_022436	NP_071881	Q9H222	ABCG5_HUMAN	ATP-binding cassette sub-family G member 5	219	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GGCCTGTGGTTGGCTCATCAA	0.532													18	121					0	0	1	0	0		C	44053638	C	C	44053638	2	2	199	1	0	0	0	0	0	0	0	1	71	1799	63	3		3	ABCG5	2	44053638	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	80604	44053638	199145735	147	97539											
SLC3A1	6519	broad.mit.edu	37	chr2	44540984	44540984	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgacatagaatacccttcGctcaaagtcaccaatgcagt	13	11	6	11	1	2	2	2	1	0	1	3	2	2	2	2	0	2	2	2	0	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:44540984G>A	uc002ruc.3	+	9	1589	c.1511G>A	c.(1510-1512)CGC>CAC	p.R504H	SLC3A1_uc002rua.2_Missense_Mutation_p.R504H|SLC3A1_uc002rub.2_Missense_Mutation_p.R504H|SLC3A1_uc002rud.3_Missense_Mutation_p.R226H|SLC3A1_uc002rue.3_Missense_Mutation_p.R124H	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	504	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	AATACCCTTCGCTCAAAGTCA	0.373													9	49					0	0	1	0	0		A	44540984	A	A	44540984	3	1	199	1	0	0	0	0	1	0	0	0	14651	1087	38	1	1545	1	SLC3A1	2	44540984	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	487346	44540984	198658389	148	97540											
TTC7A	57217	broad.mit.edu	37	chr2	47233862	47233862	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccatggtggcttgtgggaAggtaaggcccagggggcgct	6	8	18	9	1	0	0	0	0	0	0	1	1	1	1	2	7	0	3	2	7	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:47233862A>G	uc002rvo.2	+	10	1654	c.1286A>G	c.(1285-1287)AAG>AGG	p.K429R	TTC7A_uc002rvm.2_Missense_Mutation_p.K395R|TTC7A_uc002rvn.1_Missense_Mutation_p.K310R|TTC7A_uc010fbb.2_Missense_Mutation_p.K429R|TTC7A_uc010fbc.2_Missense_Mutation_p.K75R|TTC7A_uc002rvp.2_Missense_Mutation_p.K310R|TTC7A_uc002rvq.2_Missense_Mutation_p.K169R|TTC7A_uc002rvr.2_5'UTR	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	429	TPR 3.						binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			GCTTGTGGGAAGGTAAGGCCC	0.602													9	37					0	0	1	0	0		G	47233862	G	G	47233862	3	3	199	1	0	0	0	0	1	0	0	0	16738	86	3	3	1324	3	TTC7A	2	47233862	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2692878	47233862	195965511	149	97541											
TTC7A	57217	broad.mit.edu	37	chr2	47251450	47251450	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcagctggcgcccagtgaCccccaggtcatcctctatgt	7	8	10	16	1	2	1	1	1	1	0	3	1	3	1	4	2	2	2	4	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:47251450C>T	uc002rvo.2	+	14	1961	c.1593C>T	c.(1591-1593)GAC>GAT	p.D531D	TTC7A_uc002rvm.2_Silent_p.D497D|TTC7A_uc002rvn.1_Silent_p.D412D|TTC7A_uc010fbb.2_Silent_p.D531D|TTC7A_uc010fbc.2_Silent_p.D177D|TTC7A_uc002rvp.2_Silent_p.D412D|TTC7A_uc002rvq.2_Silent_p.D271D|TTC7A_uc002rvr.2_5'UTR	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	531	TPR 4.						binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			CGCCCAGTGACCCCCAGGTCA	0.642													8	41					0	0	1	0	0		T	47251450	T	T	47251450	2	4	199	1	0	0	0	0	0	0	0	1	16738	506	18	4		4	TTC7A	2	47251450	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	17588	47251450	195947923	150	97542											
NRXN1	9378	broad.mit.edu	37	chr2	51255042	51255042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgaagagcgtggtgttgcGgaactggcggcggatgcgca	8	7	19	7	5	0	2	0	1	0	1	0	5	0	4	0	5	4	2	0	5	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:51255042G>A	uc010fbq.2	-	2	1847	c.370C>T	c.(370-372)CGC>TGC	p.R124C	NRXN1_uc002rxe.3_Missense_Mutation_p.R124C|NRXN1_uc002rxd.1_Missense_Mutation_p.R124C	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GTGGTGTTGCGGAACTGGCGG	0.652													8	24					0	0	1	0	0		A	51255042	A	A	51255042	3	1	199	1	0	0	0	0	1	0	0	0	10684	1116	39	1	4628	1	NRXN1	2	51255042	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4003592	51255042	191944331	151	97543											
SPTBN1	6711	broad.mit.edu	37	chr2	54856880	54856880	+	Missense_Mutation	SNP	A	G	G	1	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	ctggatcgacgagaaggagcAgtggctcaacaacatgcaga	14	5	13	9	2	1	2	1	0	0	2	2	6	1	4	0	3	4	3	0	3	3	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:54856880A>G	uc002rxu.2	+	14	2858	c.2609A>G	c.(2608-2610)CAG>CGG	p.Q870R	SPTBN1_uc002rxv.1_Missense_Mutation_p.Q870R|SPTBN1_uc002rxx.2_Missense_Mutation_p.Q857R	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	870	Spectrin 6.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			GAGAAGGAGCAGTGGCTCAAC	0.602													3	27					0	0	1	0	0		G	54856880	G	G	54856880	3	3	199	1	0	0	0	0	1	0	0	0	15144	188	7	3	2772	3	SPTBN1	2	54856880	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3601838	54856880	188342493	152	97544											
USP34	9736	broad.mit.edu	37	chr2	61441427	61441427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgggttctgaacaataaggCggatattctctggacagtca	11	11	11	8	1	3	1	1	1	2	0	4	3	3	3	0	4	1	1	0	4	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:61441427C>T	uc002sbe.2	-	68	8472	c.8450G>A	c.(8449-8451)CGC>CAC	p.R2817H		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2817					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			AACAATAAGGCGGATATTCTC	0.428													28	169					0	0	1	0	0		T	61441427	T	T	61441427	3	4	199	1	0	0	0	0	1	0	0	0	17091	768	27	1	2242	1	USP34	2	61441427	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6584547	61441427	181757946	153	97545											
AFTPH	54812	broad.mit.edu	37	chr2	64800123	64800123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accactgaaaccactttctgCtgcagaaaaaatagcttcca	15	9	5	12	0	1	2	0	1	1	1	2	2	2	2	3	0	4	3	3	0	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:64800123C>T	uc002sdc.2	+	5	2347	c.2315C>T	c.(2314-2316)GCT>GTT	p.A772V	AFTPH_uc002scz.2_Missense_Mutation_p.A772V|AFTPH_uc002sda.2_Missense_Mutation_p.A772V|AFTPH_uc002sdb.2_Missense_Mutation_p.A772V	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	772					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						CCACTTTCTGCTGCAGAAAAA	0.408													37	161					0	0	1	0	0		T	64800123	T	T	64800123	3	4	199	1	0	0	0	0	1	0	0	0	364	797	28	2	2333	2	AFTPH	2	64800123	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3358696	64800123	178399250	154	97546											
SPRED2	200734	broad.mit.edu	37	chr2	65571870	65571870	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taccagtttgtctttctgtcGttcaccatggatgagaaagc	9	14	9	9	1	3	1	1	1	2	1	4	3	3	2	2	1	2	2	2	1	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:65571870G>A	uc002sdr.3	-	2	722	c.187C>T	c.(187-189)CGA>TGA	p.R63*	SPRED2_uc010fcw.2_Nonsense_Mutation_p.R60*|SPRED2_uc010fcx.1_RNA	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	63	WH1.				inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						TCTTTCTGTCGTTCACCATGG	0.478													5	28					0	0	1	0	0		A	65571870	A	A	65571870	4	1	199	1	0	0	0	0	0	1	0	0	15118	1153	40	1	1089	1	SPRED2	2	65571870	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	771747	65571870	177627503	155	97547											
MCEE	84693	broad.mit.edu	37	chr2	71351378	71351378	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccagccttgtttttctgCagaaaacctgcaattggact	9	13	7	12	0	1	1	0	0	1	1	2	2	2	2	4	1	4	3	4	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:71351378C>T	uc002shs.2	-	2	381	c.336G>A	c.(334-336)CTG>CTA	p.L112L		NM_032601	NP_115990	Q96PE7	MCEE_HUMAN	methylmalonyl CoA epimerase precursor	112					fatty acid beta-oxidation|L-methylmalonyl-CoA metabolic process	mitochondrial matrix	methylmalonyl-CoA epimerase activity			ovary(1)	1						TGTTTTTCTGCAGAAAACCTG	0.378													7	39					0	0	1	0	0		T	71351378	T	T	71351378	2	4	199	1	0	0	0	0	0	0	0	1	9395	697	25	2		2	MCEE	2	71351378	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5779508	71351378	171847995	156	97548											
EXOC6B	23233	broad.mit.edu	37	chr2	72719479	72719479	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatattcttccttttaattaCattctgcagagagttgctca	11	17	5	8	0	3	1	1	0	2	1	4	2	4	1	1	0	3	3	1	0	4	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:72719479C>A	uc010fep.2	-	16	1771	c.1633G>T	c.(1633-1635)GTA>TTA	p.V545L	EXOC6B_uc002sij.2_Missense_Mutation_p.V545L	NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	545					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						CTTTTAATTACATTCTGCAGA	0.428													3	117					1	1	1	1	0		A	72719479	A	A	72719479	3	1	199	1	0	0	0	0	1	0	0	0	5317	478	17	5	830	5	EXOC6B	2	72719479	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1368101	72719479	170479894	157	97549											
INO80B	83444	broad.mit.edu	37	chr2	74682557	74682557	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agccctggagttgagcctggCgggtgcccatggccatggag	6	7	17	11	1	0	1	0	1	0	0	0	3	0	3	4	5	3	1	4	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:74682557C>T	uc002slg.2	+	2	128	c.83C>T	c.(82-84)GCG>GTG	p.A28V	INO80B_uc002slf.1_Missense_Mutation_p.A15V|INO80B_uc010yrr.1_Missense_Mutation_p.A15V|WBP1_uc002slh.1_RNA|INO80B_uc002sli.1_RNA|INO80B_uc010yrs.1_Missense_Mutation_p.A46V	NM_031288	NP_112578	Q9C086	IN80B_HUMAN	high mobility group AT-hook 1-like 4	28					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|nucleolus	metal ion binding|protein binding			pancreas(1)	1						TTGAGCCTGGCGGGTGCCCAT	0.473													6	32					0	0	1	0	0		T	74682557	T	T	74682557	3	4	199	1	0	0	0	0	1	0	0	0	7763	768	27	1	89	1	INO80B	2	74682557	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1963078	74682557	168516816	158	97550											
MOGS	7841	broad.mit.edu	37	chr2	74688756	74688756	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaaggggctccagagatgGcggctgtcggctagaatgtc	9	7	15	10	2	0	2	0	0	0	2	3	3	1	2	2	5	0	3	2	5	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:74688756G>A	uc010ffj.2	-	4	2323	c.2160C>T	c.(2158-2160)CGC>CGT	p.R720R	MOGS_uc010ffh.2_Silent_p.R445R|MOGS_uc010yrt.1_Silent_p.R601R|MOGS_uc010ffi.2_Silent_p.R614R	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	720	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						TCCAGAGATGGCGGCTGTCGG	0.597													6	32					0	0	1	0	0		A	74688756	A	A	74688756	2	1	199	1	0	0	0	0	0	0	0	1	9715	1190	42	2		2	MOGS	2	74688756	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6199	74688756	168510617	159	97551											
CTNNA2	1496	broad.mit.edu	37	chr2	80136799	80136799	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggagaggctggagagcatcaTcagcggcgcagcgctgatgg	9	5	18	9	3	2	3	2	1	0	2	2	5	2	3	0	5	3	4	0	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:80136799T>C	uc010ysh.1	+	6	937	c.932T>C	c.(931-933)ATC>ACC	p.I311T	CTNNA2_uc010yse.1_Missense_Mutation_p.I311T|CTNNA2_uc010ysf.1_Missense_Mutation_p.I311T|CTNNA2_uc010ysg.1_Missense_Mutation_p.I311T	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	311					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAGAGCATCATCAGCGGCGCA	0.637													13	58					0	0	1	0	0		C	80136799	C	C	80136799	3	2	199	1	0	0	0	0	1	0	0	0	4016	1435	50	3		3	CTNNA2	2	80136799	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	5448043	80136799	163062574	160	97552											
LRRTM1	347730	broad.mit.edu	37	chr2	80530698	80530698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattaaccccgtgaactggcCggcgcgcagctccgagaggc	8	5	13	15	5	0	2	0	1	0	1	1	3	1	2	4	3	3	2	4	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:80530698C>T	uc002sok.1	-	2	517	c.247G>A	c.(247-249)GGC>AGC	p.G83S	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	83	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GTGAACTGGCCGGCGCGCAGC	0.622										HNSCC(69;0.2)			14	84					0	0	1	0	0		T	80530698	T	T	80530698	3	4	199	1	0	0	0	0	1	0	0	0	9057	652	23	1	1325	1	LRRTM1	2	80530698	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	393899	80530698	162668675	161	97553											
LRRTM1	347730	broad.mit.edu	37	chr2	80530714	80530714	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccggcgcgcagctccgaGaggctgttgtagcgcaggga	6	6	18	11	5	0	1	0	0	0	1	1	3	1	2	2	4	2	6	2	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:80530714G>T	uc002sok.1	-	2	501	c.231C>A	c.(229-231)CTC>CTA	p.L77L	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	77	Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						GCAGCTCCGAGAGGCTGTTGT	0.647										HNSCC(69;0.2)			17	56					1.33834e-09	1.45666e-09	1	1	0		T	80530714	T	T	80530714	2	4	199	1	0	0	0	0	0	0	0	1	9057	929	33	5		5	LRRTM1	2	80530714	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	16	80530714	162668659	162	97554											
TGOLN2	10618	broad.mit.edu	37	chr2	85554262	85554262	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttggggtctgatcctccGcacccgacttgctggagccg	4	11	12	14	3	1	1	0	1	1	0	3	3	3	2	4	3	2	2	4	3	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:85554262G>A	uc010fgd.1	-	2	882	c.593C>T	c.(592-594)GCG>GTG	p.A198V	TGOLN2_uc002soz.2_Missense_Mutation_p.A198V|TGOLN2_uc002spa.2_RNA|TGOLN2_uc002spb.2_Missense_Mutation_p.A198V|TGOLN2_uc002spc.1_Missense_Mutation_p.A198V	NM_006464	NP_006455	O43493	TGON2_HUMAN	trans-golgi network protein 2	198	Extracellular (Potential).|14 X 14 AA tandem repeats.|11.					integral to membrane|nucleus|plasma membrane|trans-Golgi network|transport vesicle	protein binding				0						CTGATCCTCCGCACCCGACTT	0.587													56	260					0	0	1	0	0		A	85554262	A	A	85554262	3	1	199	1	0	0	0	0	1	0	0	0	15861	1087	38	1	732	1	TGOLN2	2	85554262	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5023548	85554262	157645111	163	97555											
ST3GAL5	8869	broad.mit.edu	37	chr2	86075257	86075257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtgctcaaataacagcGccattgatgtcttggcaaac	12	10	8	11	1	2	1	1	1	1	0	2	1	2	1	2	1	4	2	2	1	3	3	rs140019292	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:86075257G>A	uc002sqq.1	-	4	518	c.389C>T	c.(388-390)GCG>GTG	p.A130V	ST3GAL5_uc010fgq.1_Missense_Mutation_p.A2V|ST3GAL5_uc002sqp.1_Missense_Mutation_p.A107V	NM_003896	NP_003887	Q9UNP4	SIAT9_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	130	Lumenal (Potential).				ganglioside biosynthetic process|protein glycosylation	integral to Golgi membrane|integral to plasma membrane	lactosylceramide alpha-2,3-sialyltransferase activity|neolactotetraosylceramide alpha-2,3-sialyltransferase activity				0						AAATAACAGCGCCATTGATGT	0.473													10	418					0	0	1	0	0		A	86075257	A	A	86075257	3	1	199	1	0	0	0	0	1	0	0	0	15243	1087	38	1	883	1	ST3GAL5	2	86075257	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	520995	86075257	157124116	164	97556											
MAL	4118	broad.mit.edu	37	chr2	95713804	95713804	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtctgtgttctgcttcgtggCcaccaccaccttgatcatcc	5	13	8	15	1	3	1	1	1	2	0	5	1	4	1	5	1	1	2	5	1	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:95713804C>G	uc002stx.1	+	2	253	c.194C>G	c.(193-195)GCC>GGC	p.A65G	MAL_uc002sty.1_Intron|MAL_uc002stz.1_Missense_Mutation_p.A65G|MAL_uc002sua.1_Intron	NM_002371	NP_002362	P21145	MAL_HUMAN	T-lymphocyte maturation-associated protein	65	Helical; (Potential).|MARVEL.				apical protein localization|cell differentiation|central nervous system development|induction of apoptosis|membrane raft polarization|myelination	apical plasma membrane|endoplasmic reticulum|endosome|integral to plasma membrane|membrane raft	apoptotic protease activator activity|channel activity|lipid binding|structural constituent of myelin sheath				0				STAD - Stomach adenocarcinoma(1183;0.18)		TGCTTCGTGGCCACCACCACC	0.612													6	47					0	0	1	0	0		G	95713804	G	G	95713804	3	3	199	1	0	0	0	0	1	0	0	0	9217	739	26	5	200	5	MAL	2	95713804	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9638547	95713804	147485569	165	97557											
SNRNP200	23020	broad.mit.edu	37	chr2	96943574	96943574	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttcctccgtatctgactGcaactcagcactcagctgca	9	11	7	14	1	3	1	2	1	1	0	5	2	5	1	2	0	5	5	2	0	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:96943574G>A	uc002svu.2	-	40	5811	c.5725C>T	c.(5725-5727)CAG>TAG	p.Q1909*	SNRNP200_uc002svt.2_Nonsense_Mutation_p.Q519*|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1909	SEC63 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						GTATCTGACTGCAACTCAGCA	0.532													16	81					0	0	1	0	0		A	96943574	A	A	96943574	4	1	199	1	0	0	0	0	0	1	0	0	14877	1328	46	2	709	2	SNRNP200	2	96943574	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1229770	96943574	146255799	166	97558											
NPAS2	4862	broad.mit.edu	37	chr2	101606731	101606731	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctccagggtccaaagccaaTgagaagctcacagctaatgc	13	6	10	12	0	1	1	1	1	0	1	3	2	3	1	3	1	4	3	3	1	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:101606731T>C	uc002tap.1	+	18	2127	c.1841T>C	c.(1840-1842)ATG>ACG	p.M614T	NPAS2_uc010yvt.1_Missense_Mutation_p.M679T|NPAS2_uc010fit.1_Intron	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	614					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						CCAAAGCCAATGAGAAGCTCA	0.562													19	79					0	0	1	0	0		C	101606731	C	C	101606731	3	2	199	1	0	0	0	0	1	0	0	0	10582	1464	51	3	1907	3	NPAS2	2	101606731	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	4663157	101606731	141592642	167	97559											
MFSD9	84804	broad.mit.edu	37	chr2	103340244	103340244	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgagatagccaccgaccacGgggcccaagatgaagcccac	12	3	12	14	2	0	3	0	2	0	2	0	5	0	3	5	2	2	0	5	2	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:103340244G>A	uc002tcb.2	-	5	620	c.552C>T	c.(550-552)CCC>CCT	p.P184P	MFSD9_uc010fja.2_RNA	NM_032718	NP_116107	Q8NBP5	MFSD9_HUMAN	major facilitator superfamily domain containing	184	Helical; (Potential).				transmembrane transport	integral to membrane|plasma membrane	transporter activity			ovary(2)|breast(2)	4						CACCGACCACGGGGCCCAAGA	0.493													4	75					0	0	1	0	0		A	103340244	A	A	103340244	2	1	199	1	0	0	0	0	0	0	0	1	9557	1103	39	1		1	MFSD9	2	103340244	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1733513	103340244	139859129	168	97560											
GPR45	11250	broad.mit.edu	37	chr2	105859047	105859047	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggcagctcaccagggcGggcctgcggcgcctgcagcg	4	4	17	16	5	1	0	1	0	0	0	1	0	1	0	3	4	5	3	3	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:105859047G>A	uc002tco.1	+	1	848	c.732G>A	c.(730-732)GCG>GCA	p.A244A		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	244	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						TCACCAGGGCGGGCCTGCGGC	0.642													25	76					0	0	1	0	0		A	105859047	A	A	105859047	2	1	199	1	0	0	0	0	0	0	0	1	6711	1103	39	1		1	GPR45	2	105859047	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2518803	105859047	137340326	169	97561											
ST6GAL2	84620	broad.mit.edu	37	chr2	107460323	107460323	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gagagggagctgggtacaggCtcagcggggttgctgtcggt	6	8	20	7	2	1	1	1	0	0	1	2	3	1	2	0	6	4	5	0	6	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:107460323C>A	uc002tdq.2	-	2	230	c.111G>T	c.(109-111)GAG>GAT	p.E37D	ST6GAL2_uc002tdr.2_Missense_Mutation_p.E37D|ST6GAL2_uc002tds.3_Missense_Mutation_p.E37D	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	37	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						TGGGTACAGGCTCAGCGGGGT	0.587													5	27					3.59834e-05	3.7387e-05	1	1	0		A	107460323	A	A	107460323	3	1	199	1	0	0	0	0	1	0	0	0	15247	796	28	5	1585	5	ST6GAL2	2	107460323	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1601276	107460323	135739050	170	97562											
FOXD4L1	200350	broad.mit.edu	37	chr2	114257061	114257061	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccgagagcacatcgagggCggcggcccgagcgacccctc	7	2	14	18	6	0	1	0	0	0	1	2	5	0	1	5	3	2	1	5	3	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:114257061C>T	uc002tjw.3	+	1	401	c.228C>T	c.(226-228)GGC>GGT	p.G76G		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	76					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						ACATCGAGGGCGGCGGCCCGA	0.677													19	34					0	0	1	0	0		T	114257061	T	T	114257061	2	4	199	1	0	0	0	0	0	0	0	1	6014	755	27	1		1	FOXD4L1	2	114257061	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6796738	114257061	128942312	171	97563											
MARCO	8685	broad.mit.edu	37	chr2	119752091	119752091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcaggcgtggagtgcagcGtctgacccggaaaccctttc	8	7	13	13	4	1	1	0	1	1	0	2	3	1	3	2	3	3	2	2	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:119752091G>A	uc002tln.1	+	17	1690	c.1558G>A	c.(1558-1560)GTC>ATC	p.V520I	MARCO_uc010yyf.1_Missense_Mutation_p.V442I	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	520	Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|skin(2)|central_nervous_system(1)	6						GGAGTGCAGCGTCTGACCCGG	0.602													15	49					0	0	1	0	0		A	119752091	A	A	119752091	3	1	199	1	0	0	0	0	1	0	0	0	9329	1145	40	1	1624	1	MARCO	2	119752091	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5495030	119752091	123447282	172	97564											
RAB6C	84084	broad.mit.edu	37	chr2	130738155	130738155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttacgtttattgaaactaGggcaaaagctggatacaatg	14	12	10	5	1	0	1	0	1	0	0	0	2	0	2	0	2	4	4	0	2	8	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:130738155G>T	uc002tpx.1	+	1	921	c.467G>T	c.(466-468)AGG>ATG	p.R156M	uc002tpw.1_5'Flank	NM_032144	NP_115520	Q9H0N0	RAB6C_HUMAN	RAB6C, member RAS oncogene family	156					protein transport|response to drug|small GTPase mediated signal transduction		GTP binding|GTPase activity			lung(1)	1	Colorectal(110;0.1)					ATTGAAACTAGGGCAAAAGCT	0.468													17	60					7.41877e-09	8.02696e-09	1	1	0		T	130738155	T	T	130738155	3	4	199	1	0	0	0	0	1	0	0	0	12978	1000	35	5	469	5	RAB6C	2	130738155	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10986064	130738155	112461218	173	97565											
SMPD4	55627	broad.mit.edu	37	chr2	130912733	130912733	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccactcggaacaccatgagCgcgtgcttggggctgaccag	8	6	14	13	3	0	2	0	2	0	0	1	3	0	3	3	3	3	2	3	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:130912733C>T	uc002tqq.1	-	15	2026	c.1506G>A	c.(1504-1506)GCG>GCA	p.A502A	SMPD4_uc002tqo.1_5'UTR|SMPD4_uc002tqp.1_Silent_p.A241A|SMPD4_uc010yzy.1_Silent_p.A251A|SMPD4_uc010yzz.1_Silent_p.A166A|SMPD4_uc002tqr.1_Silent_p.A473A|SMPD4_uc002tqs.1_Silent_p.A370A|SMPD4_uc002tqt.1_Silent_p.A351A|SMPD4_uc010zaa.1_Silent_p.A360A|SMPD4_uc010zab.1_Silent_p.A400A|SMPD4_uc010zac.1_Silent_p.A243A|SMPD4_uc010zad.1_Silent_p.A138A	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	463					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	ACACCATGAGCGCGTGCTTGG	0.582													11	44					0	0	1	0	0		T	130912733	T	T	130912733	2	4	199	1	0	0	0	0	0	0	0	1	14832	755	27	1		1	SMPD4	2	130912733	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	174578	130912733	112286640	174	97566											
NCKAP5	344148	broad.mit.edu	37	chr2	133540012	133540012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgaactcacagcatcagtcgCggttgcagaggcatctggat	10	9	12	10	2	3	2	2	1	1	1	4	3	3	3	0	3	3	4	0	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:133540012C>T	uc002ttp.2	-	14	4746	c.4372G>A	c.(4372-4374)GCG>ACG	p.A1458T	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1458							protein binding				0						GCATCAGTCGCGGTTGCAGAG	0.507													3	16					0	0	1	0	0		T	133540012	T	T	133540012	3	4	199	1	0	0	0	0	1	0	0	0	10242	768	27	1	1385	1	NCKAP5	2	133540012	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2627279	133540012	109659361	175	97567											
LRP1B	53353	broad.mit.edu	37	chr2	141272227	141272227	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agatacacaacttaccacaaAtgctgtcactttcatctaac	15	11	3	12	0	3	1	2	0	1	1	3	1	3	1	1	0	5	1	1	0	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:141272227A>G	uc002tvj.1	-	51	9236	c.8264T>C	c.(8263-8265)ATT>ACT	p.I2755T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2755	Extracellular (Potential).|LDL-receptor class A 16.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTTACCACAAATGCTGTCACT	0.333										TSP Lung(27;0.18)			18	100					0	0	1	0	0		G	141272227	G	G	141272227	3	3	199	1	0	0	0	0	1	0	0	0	8973	101	4	3	5699	3	LRP1B	2	141272227	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	7732215	141272227	101927146	176	97568											
ZEB2	9839	broad.mit.edu	37	chr2	145162430	145162430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcttgcccattggcctctgGcgtgccaaggcgagacagct	6	10	12	13	2	2	1	0	0	2	1	2	2	2	1	3	3	3	1	3	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:145162430G>A	uc002tvu.2	-	5	1045	c.565C>T	c.(565-567)CCA>TCA	p.P189S	ZEB2_uc002tvv.2_Missense_Mutation_p.P183S|ZEB2_uc010zbm.1_Missense_Mutation_p.P160S|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.P218S	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	189						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TTGGCCTCTGGCGTGCCAAGG	0.512													4	14					0	0	1	0	0		A	145162430	A	A	145162430	3	1	199	1	0	0	0	0	1	0	0	0	17649	1203	42	2	3103	2	ZEB2	2	145162430	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3890203	145162430	98036943	177	97569											
TANC1	85461	broad.mit.edu	37	chr2	160042391	160042391	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggagcttggccaccacatccTgaaggcgcacattttcaagg	10	8	11	12	1	1	1	1	1	0	0	2	2	2	2	3	4	1	2	3	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:160042391T>C	uc002uag.2	+	15	2874	c.2600T>C	c.(2599-2601)CTG>CCG	p.L867P	TANC1_uc010zcm.1_Missense_Mutation_p.L859P|TANC1_uc010fom.1_Missense_Mutation_p.L673P	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	867						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CACCACATCCTGAAGGCGCAC	0.512													8	30					0	0	1	0	0		C	160042391	C	C	160042391	3	2	199	1	0	0	0	0	1	0	0	0	15569	1580	55	3	2650	3	TANC1	2	160042391	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	14879961	160042391	83156982	178	97570											
KCNH7	90134	broad.mit.edu	37	chr2	163250908	163250908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgaattacctttctctcCttcactttcaaatgacaatt	12	16	3	10	0	3	2	2	2	1	0	5	3	4	2	2	0	1	0	2	0	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:163250908C>T	uc002uch.1	-	12	2913	c.2701G>A	c.(2701-2703)GGA>AGA	p.G901R		NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	901	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	CCTTTCTCTCCTTCACTTTCA	0.343													5	37					0	0	1	0	0		T	163250908	T	T	163250908	3	4	199	1	0	0	0	0	1	0	0	0	8053	690	24	4	909	4	KCNH7	2	163250908	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3208517	163250908	79948465	179	97571											
CSRNP3	80034	broad.mit.edu	37	chr2	166514422	166514422	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtccagccgccataacagCgtgcgccagtacactcttgg	9	8	10	14	3	1	0	0	0	1	0	2	0	2	0	4	1	5	1	4	1	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:166514422C>T	uc002udf.2	+	5	676	c.300C>T	c.(298-300)AGC>AGT	p.S100S	CSRNP3_uc002udg.2_Silent_p.S100S	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	100					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						GCCATAACAGCGTGCGCCAGT	0.552													10	37					0	0	1	0	0		T	166514422	T	T	166514422	2	4	199	1	0	0	0	0	0	0	0	1	3968	767	27	1		1	CSRNP3	2	166514422	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3263514	166514422	76684951	180	97572											
SCN1A	6323	broad.mit.edu	37	chr2	166903335	166903335	+	Missense_Mutation	SNP	T	A	A	0	1	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	tcatctgctgaaattcggccTctttctgttctgcttcttcc	4	18	6	13	1	6	1	1	1	5	0	8	1	7	1	2	1	2	3	2	1	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:166903335T>A	uc010zcz.1	-	9	1340	c.1322A>T	c.(1321-1323)GAG>GTG	p.E441V	SCN1A_uc002udo.3_Missense_Mutation_p.E310V|SCN1A_uc010fpk.2_Missense_Mutation_p.E310V	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	441	I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	AAATTCGGCCTCTTTCTGTTC	0.473													15	77					0	0	1	0	0		A	166903335	A	A	166903335	3	1	199	1	0	0	0	0	1	0	0	0	13939	1551	54	5	4779	5	SCN1A	2	166903335	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	388913	166903335	76296038	181	97573											
SCN7A	6332	broad.mit.edu	37	chr2	167288977	167288977	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attttcagtagcgtttttctCtgtgccactgcttttttcct	4	21	6	10	1	2	0	1	0	1	0	4	0	3	0	2	0	3	3	2	0	1	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:167288977C>A	uc002udu.1	-	15	2570	c.2443G>T	c.(2443-2445)GAG>TAG	p.E815*	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	815					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GCGTTTTTCTCTGTGCCACTG	0.373													24	142					7.07758e-08	7.59052e-08	1	1	0		A	167288977	A	A	167288977	4	1	199	1	0	0	0	0	0	1	0	0	13948	922	32	5	2649	5	SCN7A	2	167288977	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	385642	167288977	75910396	182	97574											
XIRP2	129446	broad.mit.edu	37	chr2	168105800	168105800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaccaactctccacaacatCgccagaaacagtcgctgcca	14	6	5	16	2	1	1	0	0	1	1	4	1	1	1	4	0	5	1	4	0	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:168105800C>T	uc002udx.2	+	8	7916	c.7898C>T	c.(7897-7899)TCG>TTG	p.S2633L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.S2458L|XIRP2_uc010fpq.2_Missense_Mutation_p.S2411L|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2458					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCCACAACATCGCCAGAAACA	0.448													20	75					0	0	1	0	0		T	168105800	T	T	168105800	3	4	199	1	0	0	0	0	1	0	0	0	17456	893	31	1	7928	1	XIRP2	2	168105800	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	816823	168105800	75093573	183	97575											
LRP2	4036	broad.mit.edu	37	chr2	170097872	170097872	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcacataccaggaggcctgGttgctagaaggaaaacatgg	13	6	14	8	0	0	1	0	0	0	1	0	3	0	3	2	6	3	3	2	6	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:170097872G>A	uc002ues.2	-	25	3884	c.3671C>T	c.(3670-3672)ACC>ATC	p.T1224I	LRP2_uc010zdf.1_Missense_Mutation_p.T1087I	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1224	LDL-receptor class A 12.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGGAGGCCTGGTTGCTAGAAG	0.448													29	113					0	0	1	0	0		A	170097872	A	A	170097872	3	1	199	1	0	0	0	0	1	0	0	0	8974	1261	44	4	10516	4	LRP2	2	170097872	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1992072	170097872	73101501	184	97576											
UBR3	130507	broad.mit.edu	37	chr2	170850862	170850862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtgccgtgacaatgttgagCcaaaaaagttgccgatcagt	13	9	11	8	2	1	2	1	2	0	0	1	3	1	2	3	0	3	2	3	0	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:170850862C>T	uc010zdi.1	+	26	3814	c.3814C>T	c.(3814-3816)CCA>TCA	p.P1272S	UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_Missense_Mutation_p.P93S|UBR3_uc002uft.3_Missense_Mutation_p.P125S	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3	1272					sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						CAATGTTGAGCCAAAAAAGTT	0.403													13	73					0	0	1	0	0		T	170850862	T	T	170850862	3	4	199	1	0	0	0	0	1	0	0	0	16929	739	26	2	3916	2	UBR3	2	170850862	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	752990	170850862	72348511	185	97577											
MYO3B	140469	broad.mit.edu	37	chr2	171258099	171258099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgccaacactgtagacagggCtgcggacgttcgagacgcca	10	6	13	12	4	0	2	0	0	0	2	1	4	0	3	2	2	3	3	2	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:171258099C>T	uc002ufy.2	+	18	2170	c.2027C>T	c.(2026-2028)GCT>GTT	p.A676V	MYO3B_uc002ufv.2_Missense_Mutation_p.A663V|MYO3B_uc010fqb.1_Missense_Mutation_p.A663V|MYO3B_uc002ufz.2_Missense_Mutation_p.A676V|MYO3B_uc002ufw.2_RNA|MYO3B_uc002ufx.2_RNA|MYO3B_uc002ugb.2_RNA	NM_138995	NP_620482	Q8WXR4	MYO3B_HUMAN	myosin IIIB isoform 2	676	Myosin head-like.				response to stimulus|visual perception	cytoplasm|myosin complex	actin binding|ATP binding|motor activity|protein serine/threonine kinase activity			lung(8)|ovary(6)|skin(4)|central_nervous_system(1)	19						GTAGACAGGGCTGCGGACGTT	0.562													12	42					0	0	1	0	0		T	171258099	T	T	171258099	3	4	199	1	0	0	0	0	1	0	0	0	10095	797	28	2	2097	2	MYO3B	2	171258099	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	407237	171258099	71941274	186	97578											
DLX2	1746	broad.mit.edu	37	chr2	172965288	172965288	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggttagaaaatcgtccccgCgctcaccggggcgcccccgc	6	5	13	17	6	1	1	1	0	0	1	3	1	2	1	5	3	0	2	5	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:172965288C>T	uc002uhn.2	-	3	1182	c.970G>A	c.(970-972)GCG>ACG	p.A324T		NM_004405	NP_004396	Q07687	DLX2_HUMAN	distal-less homeobox 2	324						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.216)			ATCGTCCCCGCGCTCACCGGG	0.677													8	35					0	0	1	0	0		T	172965288	T	T	172965288	3	4	199	1	0	0	0	0	1	0	0	0	4577	768	27	1	20	1	DLX2	2	172965288	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1707189	172965288	70234085	187	97579											
HOXD3	3232	broad.mit.edu	37	chr2	177036642	177036642	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaatatgtacggcctggcCgcctacacggcgccactcag	8	6	10	17	4	1	0	1	0	0	0	1	0	1	0	5	3	2	1	5	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:177036642C>T	uc002ukt.1	+	3	1115	c.939C>T	c.(937-939)GCC>GCT	p.A313A		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	313					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		ACGGCCTGGCCGCCTACACGG	0.692													6	13					0	0	1	0	0		T	177036642	T	T	177036642	2	4	199	1	0	0	0	0	0	0	0	1	7339	639	23	1		1	HOXD3	2	177036642	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4071354	177036642	66162731	188	97580											
HOXD3	3232	broad.mit.edu	37	chr2	177036654	177036654	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctggccgcctacacggcGccactcagcagctgcctgcc	5	5	12	19	3	1	0	1	0	0	0	1	0	1	0	6	3	5	2	6	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:177036654G>A	uc002ukt.1	+	3	1127	c.951G>A	c.(949-951)GCG>GCA	p.A317A		NM_006898	NP_008829	P31249	HXD3_HUMAN	homeobox D3	317					anterior/posterior pattern formation|cartilage development|cell-matrix adhesion|embryonic skeletal system morphogenesis|Notch signaling pathway|positive regulation of gene expression|positive regulation of neuron differentiation|thyroid gland development		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.00569)|Epithelial(96;0.0864)|all cancers(119;0.226)	Colorectal(32;0.247)		CCTACACGGCGCCACTCAGCA	0.692													3	15					0	0	1	0	0		A	177036654	A	A	177036654	2	1	199	1	0	0	0	0	0	0	0	1	7339	1074	38	1		1	HOXD3	2	177036654	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	12	177036654	66162719	189	97581											
TTN	7273	broad.mit.edu	37	chr2	179404574	179404574	+	Missense_Mutation	SNP	T	C	C	0	1	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	actaatatcctggccttcctTggtccatttacatattggga	9	15	7	10	0	0	0	0	0	0	0	3	1	3	1	4	3	1	0	4	3	4	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:179404574T>C	uc010zfg.1	-	301	90738	c.90514A>G	c.(90514-90516)AAG>GAG	p.K30172E	uc002umo.2_RNA|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K23867E|TTN_uc010zfi.1_Missense_Mutation_p.K23800E|TTN_uc010zfj.1_Missense_Mutation_p.K23675E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31099							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGCCTTCCTTGGTCCATTTA	0.428													3	54					0	0	1	0	0		C	179404574	C	C	179404574	3	2	199	1	0	0	0	0	1	0	0	0	16761	1821	63	3	9805	3	TTN	2	179404574	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	2367920	179404574	63794799	190	97582											
TTN	7273	broad.mit.edu	37	chr2	179413214	179413214	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taccacataatgatggattcGggcaccaccgtcaagaagag	14	7	10	10	2	1	3	1	1	0	2	2	4	1	4	3	2	1	1	3	2	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:179413214G>A	uc010zfg.1	-	288	85659	c.85435C>T	c.(85435-85437)CGA>TGA	p.R28479*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R22174*|TTN_uc010zfi.1_Nonsense_Mutation_p.R22107*|TTN_uc010zfj.1_Nonsense_Mutation_p.R21982*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	29406							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGATGGATTCGGGCACCACCG	0.512													26	208					0	0	1	0	0		A	179413214	A	A	179413214	4	1	199	1	0	0	0	0	0	1	0	0	16761	1124	39	1	14936	1	TTN	2	179413214	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	8640	179413214	63786159	191	97583											
TTN	7273	broad.mit.edu	37	chr2	179447201	179447201	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggcctgcttgtttcacgtttGtcaacaatatagttggtgat	8	16	10	7	1	2	1	2	1	0	0	2	1	2	1	1	2	2	4	1	2	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:179447201G>T	uc010zfg.1	-	263	58502	c.58278C>A	c.(58276-58278)GAC>GAA	p.D19426E	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.D13121E|TTN_uc010zfi.1_Missense_Mutation_p.D13054E|TTN_uc010zfj.1_Missense_Mutation_p.D12929E	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	20353							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCACGTTTGTCAACAATAT	0.453													5	23					0.000602214	0.000619553	1	1	0		T	179447201	T	T	179447201	3	4	199	1	0	0	0	0	1	0	0	0	16761	1368	48	5	42193	5	TTN	2	179447201	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	33987	179447201	63752172	192	97584											
TTN	7273	broad.mit.edu	37	chr2	179481674	179481674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacttggaaccaggatcGtgataggatttgggacaata	12	11	12	6	1	0	1	0	1	0	0	1	5	0	5	1	4	2	1	1	4	5	5	rs150364979	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:179481674G>A	uc010zfg.1	-	205	40462	c.40238C>T	c.(40237-40239)ACG>ATG	p.T13413M	TTN_uc010zfh.1_Missense_Mutation_p.T7108M|TTN_uc010zfi.1_Missense_Mutation_p.T7041M|TTN_uc010zfj.1_Missense_Mutation_p.T6916M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14340							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACCAGGATCGTGATAGGATT	0.418													37	131					0	0	1	0	0		A	179481674	A	A	179481674	3	1	199	1	0	0	0	0	1	0	0	0	16761	1145	40	1	60179	1	TTN	2	179481674	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	34473	179481674	63717699	193	97585											
TTN	7273	broad.mit.edu	37	chr2	179501201	179501201	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtgtattcaccagcatcGgaaagttgaacatcaatgat	14	10	9	8	1	2	2	2	2	0	0	3	3	2	3	1	2	2	3	1	2	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:179501201G>A	uc010zfg.1	-	174	33773	c.33549C>T	c.(33547-33549)TCC>TCT	p.S11183S	TTN_uc010zfh.1_Silent_p.S4878S|TTN_uc010zfi.1_Silent_p.S4811S|TTN_uc010zfj.1_Silent_p.S4686S|TTN_uc010fre.1_Silent_p.S1044S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	12110							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACCAGCATCGGAAAGTTGAA	0.418													8	38					0	0	1	0	0		A	179501201	A	A	179501201	2	1	199	1	0	0	0	0	0	0	0	1	16761	1103	39	1		1	TTN	2	179501201	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	19527	179501201	63698172	194	97586											
MFSD6	54842	broad.mit.edu	37	chr2	191301852	191301852	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtaagccccccgagtacaGgaattaccagatcgtcttca	11	9	9	12	2	2	1	1	0	1	1	3	3	2	2	4	1	3	2	4	1	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:191301852G>T	uc002urz.2	+	3	1421	c.1097G>T	c.(1096-1098)AGG>ATG	p.R366M		NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	366					transmembrane transport	integral to membrane				ovary(2)	2						CCCGAGTACAGGAATTACCAG	0.547													3	26					0.00024832	0.000256551	1	1	0		T	191301852	T	T	191301852	3	4	199	1	0	0	0	0	1	0	0	0	9553	1000	35	5	1099	5	MFSD6	2	191301852	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	11800651	191301852	51897521	195	97587											
MYO1B	4430	broad.mit.edu	37	chr2	192257883	192257883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatatcgggggtggaaatgcCgcacacacttcctgctaatg	10	10	11	10	2	0	0	0	0	0	0	2	1	1	1	2	3	2	2	2	3	4	4	rs147751540		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:192257883C>T	uc010fsg.2	+	20	2416	c.2161C>T	c.(2161-2163)CGC>TGC	p.R721C	MYO1B_uc002usq.2_Missense_Mutation_p.R721C|MYO1B_uc002usr.2_Missense_Mutation_p.R721C|MYO1B_uc002usu.2_5'UTR	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	721	IQ 1.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			GTGGAAATGCCGCACACACTT	0.413													11	57					0	0	1	0	0		T	192257883	T	T	192257883	3	4	199	1	0	0	0	0	1	0	0	0	10087	652	23	1	2235	1	MYO1B	2	192257883	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	956031	192257883	50941490	196	97588											
SDPR	8436	broad.mit.edu	37	chr2	192701367	192701367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagggatttgttttcatccGgaagctcctccttcccttcc	5	14	7	15	1	1	0	1	0	0	0	6	2	6	2	6	2	1	2	6	2	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:192701367G>A	uc002utb.2	-	2	890	c.560C>T	c.(559-561)CCG>CTG	p.P187L		NM_004657	NP_004648	O95810	SDPR_HUMAN	serum deprivation response protein	187						caveola|cytosol	phosphatidylserine binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0647)		Phosphatidylserine(DB00144)	GTTTTCATCCGGAAGCTCCTC	0.547													10	25					0	0	1	0	0		A	192701367	A	A	192701367	3	1	199	1	0	0	0	0	1	0	0	0	13995	1116	39	1	721	1	SDPR	2	192701367	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	443484	192701367	50498006	197	97589											
PGAP1	80055	broad.mit.edu	37	chr2	197781161	197781161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttatagagtttgagaattGttttaatacattcatgtaca	13	17	6	5	0	1	2	1	1	0	2	1	3	1	2	1	0	2	3	1	0	6	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:197781161G>A	uc002utw.2	-	3	572	c.458C>T	c.(457-459)ACA>ATA	p.T153I	PGAP1_uc002utx.2_5'UTR|PGAP1_uc002uty.1_Missense_Mutation_p.T153I|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_5'UTR	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	153	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						TTTGAGAATTGTTTTAATACA	0.353													4	80					0	0	1	0	0		A	197781161	A	A	197781161	3	1	199	1	0	0	0	0	1	0	0	0	11796	1377	48	4	2410	4	PGAP1	2	197781161	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5079794	197781161	45418212	198	97590											
TRAK2	66008	broad.mit.edu	37	chr2	202265809	202265809	+	Missense_Mutation	SNP	T	C	C	0	1	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	catctgctccaccctgtctgTgcctagaactaatatagtta	10	13	6	12	0	2	1	0	0	2	1	3	1	3	1	3	0	3	2	3	0	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:202265809T>C	uc002uyb.3	-	4	741	c.295A>G	c.(295-297)ACA>GCA	p.T99A	TRAK2_uc002uyc.2_Missense_Mutation_p.T99A	NM_015049	NP_055864	O60296	TRAK2_HUMAN	trafficking protein, kinesin binding 2	99						early endosome|plasma membrane	GABA receptor binding				0						ACCCTGTCTGTGCCTAGAACT	0.323													14	75					0	0	1	0	0		C	202265809	C	C	202265809	3	2	199	1	0	0	0	0	1	0	0	0	16476	1696	59	3	2501	3	TRAK2	2	202265809	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	4484648	202265809	40933564	199	97591											
STRADB	55437	broad.mit.edu	37	chr2	202339376	202339376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtttatcctagaaagccGtgattctatcccactttttc	8	17	6	10	1	1	2	0	1	1	1	4	2	3	2	3	0	1	1	3	0	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:202339376G>A	uc002uyd.3	+	6	687	c.322G>A	c.(322-324)GTG>ATG	p.V108M		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	108	Protein kinase.				activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			skin(2)|stomach(1)|lung(1)	4						CTAGAAAGCCGTGATTCTATC	0.383													18	78					0	0	1	0	0		A	202339376	A	A	202339376	3	1	199	1	0	0	0	0	1	0	0	0	15350	1145	40	1	340	1	STRADB	2	202339376	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	73567	202339376	40859997	200	97592											
NRP2	8828	broad.mit.edu	37	chr2	206659485	206659485	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatgtatcgcagatgaataCgaggtggactggagcaattc	12	11	12	6	2	0	2	0	1	0	1	2	5	0	4	0	3	2	3	0	3	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:206659485C>T	uc002vaw.2	+	17	3290	c.2499C>T	c.(2497-2499)TAC>TAT	p.Y833Y	NRP2_uc002vax.2_Silent_p.Y828Y|NRP2_uc002vay.2_Silent_p.Y811Y	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	833	Extracellular (Potential).				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						CAGATGAATACGAGGTGGACT	0.522													4	76					0	0	1	0	0		T	206659485	T	T	206659485	2	4	199	1	0	0	0	0	0	0	0	1	10680	547	19	1		1	NRP2	2	206659485	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4320109	206659485	36539888	201	97593											
INO80D	54891	broad.mit.edu	37	chr2	206882406	206882406	+	Frame_Shift_Del	DEL	T	-	-																															ctctgttgcagaacttaccaTttttttggcatgttcttcac																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:206882406delT	uc002vaz.3	-	8	1945	c.1540delA	c.(1540-1542)ATGfs	p.M514fs		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	514					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						GAACTTACCATTTTTTTGGCA	0.254													3	6	---	---	---	---						.	-	206882406	-	-	206882406	7	5	199	1	0	1	0	1	0	0	0	0	7765	1493	52	0	1559	0	INO80D	2	206882406	Frame_Shift_Del	DEL	T	TCGA-HF-7132-01A-11D-2053-08	222921	206882406	36316967	202	97594											
RPE	6120	broad.mit.edu	37	chr2	210882219	210882219	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcactggttgaggacccagtTcccatctttggatatagagg	9	12	11	9	0	2	2	1	1	1	1	3	4	3	4	2	4	0	2	2	4	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:210882219T>C	uc002vdn.2	+	5	505	c.500T>C	c.(499-501)TTC>TCC	p.F167S	RPE_uc002vdm.2_Missense_Mutation_p.F167S|RPE_uc002vdo.2_Missense_Mutation_p.F117S|RPE_uc010zjf.1_Intron|RPE_uc002vdp.2_Missense_Mutation_p.F114S|RPE_uc010fup.2_Missense_Mutation_p.F99S|RPE_uc002vdq.2_Missense_Mutation_p.F117S|RPE_uc002vdr.2_Missense_Mutation_p.F82S	NM_199229	NP_954699	Q96AT9	RPE_HUMAN	ribulose-5-phosphate-3-epimerase isoform 1	167					pentose-phosphate shunt	cytosol	metal ion binding|protein homodimerization activity|ribulose-phosphate 3-epimerase activity				0				Epithelial(149;0.00241)|Lung(261;0.041)|all cancers(144;0.0429)|LUSC - Lung squamous cell carcinoma(261;0.0431)		AGGACCCAGTTCCCATCTTTG	0.373													18	84					0	0	1	0	0		C	210882219	C	C	210882219	3	2	199	1	0	0	0	0	1	0	0	0	13569	1783	62	3	576	3	RPE	2	210882219	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	3999813	210882219	32317154	203	97595											
SPAG16	79582	broad.mit.edu	37	chr2	214354794	214354794	+	Silent	SNP	C	G	G																															ctgaaaaacatttttagactCcatgaacttccagtgagctg																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:214354794C>G	uc002veq.2	+	10	1142	c.1050C>G	c.(1048-1050)CTC>CTG	p.L350L	SPAG16_uc010fuz.1_Silent_p.L201L|SPAG16_uc002ver.2_Silent_p.L296L|SPAG16_uc010zjk.1_Silent_p.L256L	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	350	WD 1.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		TTTTTAGACTCCATGAACTTC	0.313													4	43					0	0	1	0	0		G	214354794	G	G	214354794	2	3	199	1	0	0	0	0	0	0	0	1	15003	842	30	5		5	SPAG16	2	214354794	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3472575	214354794	28844579	204	97596	186	2									
SPAG16	79582	broad.mit.edu	37	chr2	214354804	214354804	+	Missense_Mutation	SNP	C	A	A																															tttttagactccatgaacttCcagtgagctggtaggatttt																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:214354804C>A	uc002veq.2	+	10	1152	c.1060C>A	c.(1060-1062)CCA>ACA	p.P354T	SPAG16_uc010fuz.1_Missense_Mutation_p.P205T|SPAG16_uc002ver.2_Missense_Mutation_p.P300T|SPAG16_uc010zjk.1_Missense_Mutation_p.P260T	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	354	WD 1.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CCATGAACTTCCAGTGAGCTG	0.318													4	37					0.00909568	0.00925359	1	1	0		A	214354804	A	A	214354804	3	1	199	1	0	0	0	0	1	0	0	0	15003	855	30	5	1114	5	SPAG16	2	214354804	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	10	214354804	28844569	205	97597	186	2									
FN1	2335	broad.mit.edu	37	chr2	216226286	216226286	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaagatgatttactctcGggaatcttctctgtcagcct	9	14	9	9	1	4	2	1	1	3	1	6	4	4	4	1	2	2	0	1	2	3	3	rs146924311	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:216226286G>A	uc002vfa.2	-	46	7692	c.7426C>T	c.(7426-7428)CGA>TGA	p.R2476*	FN1_uc002vfb.2_Nonsense_Mutation_p.R2264*|FN1_uc002vfc.2_Nonsense_Mutation_p.R2239*|FN1_uc002vfd.2_Nonsense_Mutation_p.R2420*|FN1_uc002vfe.2_Nonsense_Mutation_p.R2354*|FN1_uc002vff.2_Nonsense_Mutation_p.R2329*|FN1_uc002vfg.2_Nonsense_Mutation_p.R2295*|FN1_uc002vfh.2_Nonsense_Mutation_p.R2175*|FN1_uc002vfi.2_Nonsense_Mutation_p.R2445*|FN1_uc002vfj.2_Nonsense_Mutation_p.R2266*|FN1_uc002vez.2_Nonsense_Mutation_p.R639*|FN1_uc010zjp.1_Nonsense_Mutation_p.R1013*	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	2385					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATTTACTCTCGGGAATCTTCT	0.408													23	152					0	0	1	0	0		A	216226286	A	A	216226286	4	1	199	1	0	0	0	0	0	1	0	0	5976	1124	39	1	11	1	FN1	2	216226286	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1871482	216226286	26973087	206	97598											
IGFBP2	3485	broad.mit.edu	37	chr2	217525350	217525350	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcaccatgaacatgttgggCgggggaggcagtgctggccg	8	6	18	9	2	0	1	0	1	0	0	0	2	0	2	2	5	3	4	2	5	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:217525350C>T	uc010zjt.1	+	4	642	c.492C>T	c.(490-492)GGC>GGT	p.G164G	IGFBP2_uc010zju.1_Silent_p.G99G	NM_000597	NP_000588	P18065	IBP2_HUMAN	insulin-like growth factor binding protein 2,	171					positive regulation of activated T cell proliferation|regulation of cell growth|regulation of insulin-like growth factor receptor signaling pathway	extracellular space	insulin-like growth factor I binding|insulin-like growth factor II binding				0		Renal(323;0.0458)		Epithelial(149;2.9e-06)|all cancers(144;0.000223)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00968)		ACATGTTGGGCGGGGGAGGCA	0.607													4	37					0	0	1	0	0		T	217525350	T	T	217525350	2	4	199	1	0	0	0	0	0	0	0	1	7595	755	27	1		1	IGFBP2	2	217525350	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1299064	217525350	25674023	207	97599											
USP37	57695	broad.mit.edu	37	chr2	219328045	219328045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaccttgaagacttaactcGgtagctcttttgaggtcatc	10	13	8	10	1	2	3	1	2	1	1	4	3	2	3	1	2	2	2	1	2	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:219328045G>A	uc002vie.2	-	22	2964	c.2511C>T	c.(2509-2511)ACC>ACT	p.T837T	USP37_uc010fvs.1_Silent_p.T837T|USP37_uc010zkf.1_Silent_p.T837T|USP37_uc002vif.2_Silent_p.T837T|USP37_uc002vig.2_Silent_p.T743T	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37	837	UIM 3.				ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		GACTTAACTCGGTAGCTCTTT	0.244													11	64					0	0	1	0	0		A	219328045	A	A	219328045	2	1	199	1	0	0	0	0	0	0	0	1	17094	1103	39	1		1	USP37	2	219328045	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1802695	219328045	23871328	208	97600											
CCDC108	255101	broad.mit.edu	37	chr2	219875635	219875635	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaagatggggtgatcaaaAtttttttcctgaacctgtga	13	13	9	6	0	1	4	1	3	0	1	2	4	2	4	2	2	1	0	2	2	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:219875635A>T	uc002vjl.1	-	25	4125	c.4041T>A	c.(4039-4041)AAT>AAA	p.N1347K		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	1347						integral to membrane	structural molecule activity			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)	4		Renal(207;0.0915)		Epithelial(149;1.12e-06)|all cancers(144;0.000196)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GGTGATCAAAATTTTTTTCCT	0.522													8	29					0	0	1	0	0		T	219875635	T	T	219875635	3	4	199	1	0	0	0	0	1	0	0	0	2746	98	4	5	1780	5	CCDC108	2	219875635	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	547590	219875635	23323738	209	97601											
PTPRN	5798	broad.mit.edu	37	chr2	220164967	220164967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgtctctgccctccacCggcccctccattgtctgttc	2	13	8	18	1	2	0	0	0	2	0	6	0	4	0	6	1	1	2	6	1	0	2	rs143421810		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:220164967C>T	uc002vkz.2	-	9	1265	c.1176G>A	c.(1174-1176)CCG>CCA	p.P392P	PTPRN_uc010zlc.1_Silent_p.P302P|PTPRN_uc002vla.2_Silent_p.P392P	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	392	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		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)		TGCCCTCCACCGGCCCCTCCA	0.637													6	58					0	0	1	0	0		T	220164967	T	T	220164967	2	4	199	1	0	0	0	0	0	0	0	1	12832	639	23	1		1	PTPRN	2	220164967	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	289332	220164967	23034406	210	97602											
OBSL1	23363	broad.mit.edu	37	chr2	220435497	220435497	+	Frame_Shift_Del	DEL	C	-	-																															acagtgtgggctcggggaggCcccccgcccggcacgtcagc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:220435497delC	uc010fwk.2	-	1	515	c.458delG	c.(457-459)GGCfs	p.G153fs	OBSL1_uc002vmi.2_Frame_Shift_Del_p.G153fs|OBSL1_uc002vmj.2_Intron|INHA_uc002vmk.1_5'Flank	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	153	Ig-like 2.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		CTCGGGGAGGCCCCCCGCCCG	0.746													6	7	---	---	---	---						.	-	220435497	-	-	220435497	7	5	199	1	0	1	0	1	0	0	0	0	10832	739	26	0	5468	0	OBSL1	2	220435497	Frame_Shift_Del	DEL	C	TCGA-HF-7132-01A-11D-2053-08	270530	220435497	22763876	211	97603											
KCNE4	23704	broad.mit.edu	37	chr2	223918058	223918058	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaacatccatcagaattcCtagcacccccgggacccctg	11	6	8	16	1	1	2	1	0	0	2	3	4	3	3	6	1	2	1	6	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:223918058C>A	uc002vnl.3	+	2	664	c.510C>A	c.(508-510)TCC>TCA	p.S170S		NM_080671	NP_542402	Q8WWG9	KCNE4_HUMAN	potassium voltage-gated channel, Isk-related	170	Cytoplasmic (Potential).					integral to membrane	voltage-gated potassium channel activity			ovary(1)	1		Renal(207;0.0183)|Lung NSC(271;0.137)|all_lung(227;0.175)		Epithelial(121;4.48e-11)|all cancers(144;2.88e-08)|Lung(261;0.00688)|LUSC - Lung squamous cell carcinoma(224;0.008)		ATCAGAATTCCTAGCACCCCC	0.582													4	13					0.0215528	0.0218209	1	1	0		A	223918058	A	A	223918058	2	1	199	1	0	0	0	0	0	0	0	1	8041	668	24	5		5	KCNE4	2	223918058	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3482561	223918058	19281315	212	97604											
SERPINE2	5270	broad.mit.edu	37	chr2	224863030	224863030	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	cttcttggagacgatggcctTgttgatcttctttaatattt	7	19	8	7	1	3	2	0	1	3	1	3	4	3	2	1	2	0	1	1	2	2	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:224863030T>A	uc002vnu.2	-	3	532	c.289A>T	c.(289-291)AAG>TAG	p.K97*	SERPINE2_uc002vnt.2_Nonsense_Mutation_p.K97*|SERPINE2_uc010zlr.1_Nonsense_Mutation_p.K109*|SERPINE2_uc002vnv.2_Nonsense_Mutation_p.K97*	NM_006216	NP_006207	P07093	GDN_HUMAN	plasminogen activator inhibitor type 1, member 2	97					negative regulation of blood coagulation|negative regulation of plasminogen activation|negative regulation of platelet aggregation|positive regulation of astrocyte differentiation|regulation of cell migration	cytosol|extracellular matrix|extracellular space|extrinsic to external side of plasma membrane|neuromuscular junction|platelet alpha granule	heparin binding|receptor binding|serine-type endopeptidase inhibitor activity			breast(2)|ovary(1)|central_nervous_system(1)	4		Renal(207;0.025)|all_lung(227;0.0586)|Lung NSC(271;0.0682)|all_hematologic(139;0.0797)		Epithelial(121;5.68e-10)|all cancers(144;1.9e-07)|Lung(261;0.0088)|LUSC - Lung squamous cell carcinoma(224;0.00902)		ACGATGGCCTTGTTGATCTTC	0.338													18	57					0	0	1	0	0		A	224863030	A	A	224863030	4	1	199	1	0	0	0	0	0	1	0	0	14137	1821	63	5	935	5	SERPINE2	2	224863030	Nonsense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	944972	224863030	18336343	213	97605											
KIAA1486	57624	broad.mit.edu	37	chr2	226446979	226446979	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tttgacgacttgggccaagaCgccaaatgtgacttcgacca	11	9	10	11	3	0	3	0	2	0	1	1	5	0	3	3	1	0	0	3	1	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:226446979C>T	uc002voe.2	+	4	1021	c.846C>T	c.(844-846)GAC>GAT	p.D282D	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.D52D	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	282										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		TGGGCCAAGACGCCAAATGTG	0.557													18	73					0	0	1	0	0		T	226446979	T	T	226446979	2	4	199	1	0	0	0	0	0	0	0	1	8253	535	19	1		1	KIAA1486	2	226446979	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1583949	226446979	16752394	214	97606											
COL4A3	1285	broad.mit.edu	37	chr2	228158020	228158020	+	Silent	SNP	T	C	C	0	1	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	gcccctggaagtcctggaagTcctggcctcccaggtaaggc	7	7	13	14	0	0	0	0	0	0	0	3	2	3	2	6	5	0	1	6	5	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:228158020T>C	uc002vom.1	+	38	3486	c.3324T>C	c.(3322-3324)AGT>AGC	p.S1108S	COL4A3_uc002von.1_Silent_p.S1108S|COL4A3_uc002voo.1_Silent_p.S1108S|COL4A3_uc002vop.1_Silent_p.S1108S|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1108	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		GTCCTGGAAGTCCTGGCCTCC	0.512													3	26					0	0	1	0	0		C	228158020	C	C	228158020	2	2	199	1	0	0	0	0	0	0	0	1	3694	1664	58	3		3	COL4A3	2	228158020	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1711041	228158020	15041353	215	97607											
DNER	92737	broad.mit.edu	37	chr2	230223322	230223322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggactgtaatcttcataggcGatggggctcacatcatacat	11	11	10	9	1	4	0	3	0	1	0	4	2	4	1	0	4	1	2	0	4	3	4	rs139616890		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:230223322G>A	uc002vpv.2	-	13	2295	c.2148C>T	c.(2146-2148)ATC>ATT	p.I716I		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	716	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		CTTCATAGGCGATGGGGCTCA	0.358													15	63					0	0	1	0	0		A	230223322	A	A	230223322	2	1	199	1	0	0	0	0	0	0	0	1	4673	1048	37	1		1	DNER	2	230223322	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2065302	230223322	12976051	216	97608											
DNER	92737	broad.mit.edu	37	chr2	230231681	230231681	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggctggcctggaagaaccCtggtattcaatgcggctgat	9	10	13	9	1	1	2	1	1	0	1	1	3	1	3	2	5	2	3	2	5	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:230231681C>A	uc002vpv.2	-	12	2157	c.2010G>T	c.(2008-2010)CAG>CAT	p.Q670H		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	670	Cytoplasmic (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		TGGAAGAACCCTGGTATTCAA	0.547													8	35					0.00448238	0.00457928	1	1	0		A	230231681	A	A	230231681	3	1	199	1	0	0	0	0	1	0	0	0	4673	680	24	5	211	5	DNER	2	230231681	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	8359	230231681	12967692	217	97609											
DIS3L2	129563	broad.mit.edu	37	chr2	233001390	233001390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacacactgttcatctgccGcattgtggactggaaggagg	10	9	12	10	1	2	0	1	0	1	0	2	3	2	3	1	4	2	2	1	4	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:233001390G>A	uc010fxz.2	+	8	1187	c.911G>A	c.(910-912)CGC>CAC	p.R304H	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	304							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		TTCATCTGCCGCATTGTGGAC	0.507													15	93					0	0	1	0	0		A	233001390	A	A	233001390	3	1	199	1	0	0	0	0	1	0	0	0	4543	1087	38	1	937	1	DIS3L2	2	233001390	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2769709	233001390	10197983	218	97610											
ALPP	250	broad.mit.edu	37	chr2	233243925	233243925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagggatgggggtgtctaCggtgacagctgccaggatcc	7	9	16	9	1	2	1	1	1	1	0	3	3	3	3	2	5	3	1	2	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:233243925C>T	uc002vsq.2	+	3	374	c.209C>T	c.(208-210)ACG>ATG	p.T70M	ALPP_uc002vsr.2_5'Flank	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	70						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		GGGGTGTCTACGGTGACAGCT	0.612													8	60					0	0	1	0	0		T	233243925	T	T	233243925	3	4	199	1	0	0	0	0	1	0	0	0	548	536	19	1	219	1	ALPP	2	233243925	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	242535	233243925	9955448	219	97611											
ALPP	250	broad.mit.edu	37	chr2	233246265	233246265	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacgaagagacccacgcaggCgaggacgtggcggtgttcgc	9	4	17	11	6	0	1	0	0	0	1	1	6	0	2	1	4	0	2	1	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:233246265C>T	uc002vsq.2	+	11	1533	c.1368C>T	c.(1366-1368)GGC>GGT	p.G456G	ALPP_uc002vsr.2_RNA	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	456						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		CCCACGCAGGCGAGGACGTGG	0.662													6	22					0	0	1	0	0		T	233246265	T	T	233246265	2	4	199	1	0	0	0	0	0	0	0	1	548	755	27	1		1	ALPP	2	233246265	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2340	233246265	9953108	220	97612											
TRPM8	79054	broad.mit.edu	37	chr2	234846108	234846108	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accaaggaatttcctaccgaCgcctttggggatattcagtt	10	12	9	10	2	1	0	1	0	0	0	2	3	2	2	4	3	1	1	4	3	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:234846108C>T	uc002vvh.2	+	4	343	c.303C>T	c.(301-303)GAC>GAT	p.D101D	TRPM8_uc010fyj.2_Translation_Start_Site|TRPM8_uc002vvi.3_Silent_p.D51D|TRPM8_uc002vvj.3_Silent_p.D24D	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	101	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	TTCCTACCGACGCCTTTGGGG	0.483													24	137					0	0	1	0	0		T	234846108	T	T	234846108	2	4	199	1	0	0	0	0	0	0	0	1	16618	535	19	1		1	TRPM8	2	234846108	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1599843	234846108	8353265	221	97613											
COL6A3	1293	broad.mit.edu	37	chr2	238280909	238280909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctctatgagggtgcgaaCgtactggaactcaggcccgg	8	8	13	12	3	2	1	1	1	1	0	3	3	2	2	2	4	4	1	2	4	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:238280909C>T	uc002vwl.2	-	9	4036	c.3751G>A	c.(3751-3753)GTT>ATT	p.V1251I	COL6A3_uc002vwo.2_Missense_Mutation_p.V1045I|COL6A3_uc010znj.1_Missense_Mutation_p.V644I|COL6A3_uc002vwq.2_Missense_Mutation_p.V1045I|COL6A3_uc002vwr.2_Missense_Mutation_p.V844I	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1251	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGGTGCGAACGTACTGGAAC	0.567													7	36					0	0	1	0	0		T	238280909	T	T	238280909	3	4	199	1	0	0	0	0	1	0	0	0	3704	536	19	1	5973	1	COL6A3	2	238280909	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3434801	238280909	4918464	222	97614											
HDAC4	9759	broad.mit.edu	37	chr2	239975163	239975163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaggtgctcacctcttttCggcgggcttcacgcccacgg	4	9	13	15	4	3	0	2	0	1	0	4	0	3	0	2	5	1	3	2	5	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:239975163C>T	uc002vyk.3	-	26	4000	c.3208G>A	c.(3208-3210)GAA>AAA	p.E1070K	HDAC4_uc010fyy.2_Missense_Mutation_p.E1027K	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	1070	Nuclear export signal (By similarity).|Histone deacetylase.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CACCTCTTTTCGGCGGGCTTC	0.632													6	76					0	0	1	0	0		T	239975163	T	T	239975163	3	4	199	1	0	0	0	0	1	0	0	0	7025	893	31	1	54	1	HDAC4	2	239975163	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1694254	239975163	3224210	223	97615											
HDLBP	3069	broad.mit.edu	37	chr2	242203992	242203992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttgtaggttggagggtcGctctcctcttctgaatttag	5	16	11	9	1	3	1	0	1	3	0	6	2	4	2	2	3	0	3	2	3	3	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:242203992G>A	uc002waz.2	-	4	333	c.105C>T	c.(103-105)AGC>AGT	p.S35S	HDLBP_uc002wba.2_Silent_p.S35S|HDLBP_uc002wbb.2_Silent_p.S56S|HDLBP_uc010fzn.1_5'UTR|uc010zoo.1_5'Flank	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	35					cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TTGGAGGGTCGCTCTCCTCTT	0.483													32	88					0	0	1	0	0		A	242203992	A	A	242203992	2	1	199	1	0	0	0	0	0	0	0	1	7041	1078	38	1		1	HDLBP	2	242203992	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2228829	242203992	995381	224	97616											
C2orf85	285093	broad.mit.edu	37	chr2	242815402	242815402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatgtgtcggctgaacccCgggatctacccgcagcaagt	8	8	12	13	3	1	1	0	1	1	0	2	2	1	2	3	2	4	4	3	2	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr2:242815402C>T	uc010fzu.1	+	2	1718	c.1695C>T	c.(1693-1695)CCC>CCT	p.P565P		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	565						integral to membrane				ovary(1)	1						GGCTGAACCCCGGGATCTACC	0.652													9	154					0	0	1	0	0		T	242815402	T	T	242815402	2	4	199	1	0	0	0	0	0	0	0	1	2203	639	23	1		1	C2orf85	2	242815402	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	611410	242815402	383971	225	97617											
ITPR1	3708	broad.mit.edu	37	chr3	4859858	4859858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcactatctgtgcttcatcGtcctggtgaaagtaaaggac	10	11	11	9	1	2	1	1	1	1	0	4	2	3	2	1	3	1	3	1	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:4859858G>A	uc003bqa.2	+	57	8164	c.7816G>A	c.(7816-7818)GTC>ATC	p.V2606I	ITPR1_uc010hca.1_Missense_Mutation_p.V2591I|ITPR1_uc011asu.1_Missense_Mutation_p.V617I|ITPR1_uc003bqc.2_Missense_Mutation_p.V1576I|ITPR1_uc010hcc.1_Missense_Mutation_p.V374I|ITPR1_uc011asv.1_Missense_Mutation_p.V330I	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2654	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		GTGCTTCATCGTCCTGGTGAA	0.468													5	24					0	0	1	0	0		A	4859858	A	A	4859858	3	1	199	1	0	0	0	0	1	0	0	0	7936	1145	40	1	8190	1	ITPR1	3	4859858	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		4859858	193162572	226	97618											
CAMK1	8536	broad.mit.edu	37	chr3	9803194	9803194	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaatccacagccttgctgtAgggcttctgggccaggactt	7	10	12	12	0	1	0	0	0	1	0	2	1	2	1	3	3	2	4	3	3	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:9803194A>G	uc003bst.2	-	7	761	c.583T>C	c.(583-585)TAC>CAC	p.Y195H	OGG1_uc003bsk.2_Intron|OGG1_uc003bsl.2_Intron|OGG1_uc003bsm.2_Intron|OGG1_uc003bsn.2_Intron|OGG1_uc003bso.2_Intron|CAMK1_uc003bsu.2_RNA|CAMK1_uc003bss.2_5'Flank|uc003bsv.1_RNA	NM_003656	NP_003647	Q14012	KCC1A_HUMAN	calcium/calmodulin-dependent protein kinase I	195	Protein kinase.				cell differentiation|nervous system development|positive regulation of muscle cell differentiation|signal transduction	cytoplasm|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)|skin(1)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.0475)		GCCTTGCTGTAGGGCTTCTGG	0.587													7	81					0	0	1	0	0		G	9803194	G	G	9803194	3	3	199	1	0	0	0	0	1	0	0	0	2599	420	15	3	553	3	CAMK1	3	9803194	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	4943336	9803194	188219236	227	97619											
IL17RC	84818	broad.mit.edu	37	chr3	9969997	9969997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttccttgcagacccccgcGcacaccagaacctctggcaa	9	7	7	18	2	1	2	0	0	1	2	2	2	2	2	5	1	2	3	5	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:9969997G>A	uc003bua.2	+	11	1335	c.1099G>A	c.(1099-1101)GCA>ACA	p.A367T	CIDEC_uc003bto.2_Intron|IL17RC_uc011ato.1_RNA|IL17RC_uc010hcs.2_Missense_Mutation_p.A271T|IL17RC_uc003btz.2_Missense_Mutation_p.A296T|IL17RC_uc011atp.1_Missense_Mutation_p.A152T|IL17RC_uc003bud.2_5'UTR|IL17RC_uc003bub.2_Missense_Mutation_p.A281T|IL17RC_uc010hct.2_Missense_Mutation_p.A296T|IL17RC_uc010hcu.2_Missense_Mutation_p.A296T|IL17RC_uc010hcv.2_Missense_Mutation_p.A281T|IL17RC_uc011atq.1_Missense_Mutation_p.A281T|IL17RC_uc003buc.2_5'UTR|IL17RC_uc003bue.2_5'Flank	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	367	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						AGACCCCCGCGCACACCAGAA	0.687													10	73					0	0	1	0	0		A	9969997	A	A	9969997	3	1	199	1	0	0	0	0	1	0	0	0	7657	1087	38	1	1141	1	IL17RC	3	9969997	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	166803	9969997	188052433	228	97620											
RAF1	5894	broad.mit.edu	37	chr3	12633207	12633207	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgccagctttctactcacCgcagaacagccacctcattc	10	8	5	18	2	3	1	2	0	1	1	4	1	3	1	5	0	4	2	5	0	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:12633207C>A	uc003bxf.3	-	11	1608	c.1193G>T	c.(1192-1194)CGC>CTC	p.R398L	RAF1_uc011aut.1_Missense_Mutation_p.R183L|RAF1_uc011auu.1_Missense_Mutation_p.R316L	NM_002880	NP_002871	P04049	RAF1_HUMAN	v-raf-1 murine leukemia viral oncogene homolog	398	Protein kinase.				activation of MAPKK activity|apoptosis|axon guidance|cell proliferation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of peptidyl-serine phosphorylation|Ras protein signal transduction|synaptic transmission	cytosol|mitochondrial outer membrane|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|receptor signaling protein activity		ESRP1/RAF1(4)|SRGAP3/RAF1(4)	central_nervous_system(4)|prostate(4)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)|liver(1)|ovary(1)	14					Sorafenib(DB00398)	TTCTACTCACCGCAGAACAGC	0.547			T	SRGAP3	pilocytic astrocytoma				Noonan_syndrome				13	47					1.15088e-07	1.22889e-07	1	1	0		A	12633207	A	A	12633207	3	1	199	1	0	0	0	0	1	0	0	0	13027	666	23	5	781	5	RAF1	3	12633207	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2663210	12633207	185389223	229	97621											
IQSEC1	9922	broad.mit.edu	37	chr3	12977201	12977201	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgccggttggctgagcCattgatggccaagtggctgt	5	11	15	10	1	1	2	0	2	1	0	1	2	1	2	3	4	2	4	3	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:12977201C>A	uc003bxt.2	-	3	1366	c.1357G>T	c.(1357-1359)GGC>TGC	p.G453C	IQSEC1_uc003bxu.3_Missense_Mutation_p.G331C|IQSEC1_uc011auw.1_Missense_Mutation_p.G439C	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	453					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						TTGGCTGAGCCATTGATGGCC	0.637													5	37					5.9392e-07	6.30502e-07	1	1	0		A	12977201	A	A	12977201	3	1	199	1	0	0	0	0	1	0	0	0	7833	594	21	5	2127	5	IQSEC1	3	12977201	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	343994	12977201	185045229	230	97622											
FBLN2	2199	broad.mit.edu	37	chr3	13612535	13612535	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtccaggcaggcgcaggggGccccccagctgctctgggag	6	4	17	14	1	1	0	0	0	1	0	2	1	2	1	4	5	2	4	4	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:13612535G>C	uc011avb.1	+	2	805	c.680G>C	c.(679-681)GGC>GCC	p.G227A	FBLN2_uc011auz.1_Missense_Mutation_p.G253A|FBLN2_uc011ava.1_Missense_Mutation_p.G227A|FBLN2_uc011avc.1_Missense_Mutation_p.G227A	NM_001998	NP_001989	P98095	FBLN2_HUMAN	fibulin 2 isoform b precursor	227	Subdomain NB (Cys-free).|N.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1			UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)			GGCGCAGGGGGCCCCCCAGCT	0.701													4	2					0	0	1	0	0		C	13612535	C	C	13612535	3	2	199	1	0	0	0	0	1	0	0	0	5713	1203	42	5		5	FBLN2	3	13612535	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	635334	13612535	184409895	231	97623											
NR2C2	7182	broad.mit.edu	37	chr3	15057748	15057748	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagtactgtgtggtctgtggCgacaaagcctccggtatgta	8	11	14	8	2	1	0	0	0	1	0	2	2	2	0	2	3	2	3	2	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:15057748C>T	uc003bzj.3	+	4	580	c.363C>T	c.(361-363)GGC>GGT	p.G121G	NR2C2_uc003bzi.2_Silent_p.G140G	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	121	Nuclear receptor.|NR C4-type.				cell differentiation|nervous system development|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						TGGTCTGTGGCGACAAAGCCT	0.507													12	70					0	0	1	0	0		T	15057748	T	T	15057748	2	4	199	1	0	0	0	0	0	0	0	1	10642	755	27	1		1	NR2C2	3	15057748	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1445213	15057748	182964682	232	97624											
HACL1	26061	broad.mit.edu	37	chr3	15637913	15637913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcttgtcagatatccaatcgCggaggcagcataacaagcct	12	8	10	11	2	1	1	1	0	0	1	3	2	2	2	2	2	3	3	2	2	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:15637913C>T	uc003caf.2	-	3	365	c.205G>A	c.(205-207)GCG>ACG	p.A69T	HACL1_uc011avr.1_RNA|HACL1_uc011avs.1_Missense_Mutation_p.A69T|HACL1_uc011avt.1_Missense_Mutation_p.A69T|HACL1_uc003cag.2_5'UTR|HACL1_uc011avu.1_Missense_Mutation_p.A69T|HACL1_uc010hep.2_Intron	NM_012260	NP_036392	Q9UJ83	HACL1_HUMAN	2-hydroxyphytanoyl-CoA lyase	69					fatty acid alpha-oxidation	peroxisomal matrix	carbon-carbon lyase activity|identical protein binding|magnesium ion binding|thiamine pyrophosphate binding				0						TATCCAATCGCGGAGGCAGCA	0.363													7	38					0	0	1	0	0		T	15637913	T	T	15637913	3	4	199	1	0	0	0	0	1	0	0	0	6957	768	27	1	1591	1	HACL1	3	15637913	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	580165	15637913	182384517	233	97625											
SGOL1	151648	broad.mit.edu	37	chr3	20215770	20215770	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttttgttggcttagaacccTccgtctctttttcatctgtg	4	20	7	10	1	3	1	1	0	2	1	5	1	4	1	2	1	1	2	2	1	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:20215770T>C	uc003cbs.2	-	6	1440	c.1253A>G	c.(1252-1254)GAG>GGG	p.E418G	SGOL1_uc003cbr.2_Intron|SGOL1_uc010hfa.2_Intron|SGOL1_uc003cbt.2_Intron|SGOL1_uc003cbu.2_Missense_Mutation_p.E418G|SGOL1_uc003cbv.2_Intron|SGOL1_uc003cbw.2_Intron|SGOL1_uc003cbx.2_Intron|SGOL1_uc003cby.2_Intron|SGOL1_uc003cbz.2_Missense_Mutation_p.E418G|SGOL1_uc003cca.2_Missense_Mutation_p.E418G|SGOL1_uc003ccb.2_Intron|SGOL1_uc003ccc.2_Intron	NM_001012410	NP_001012410	Q5FBB7	SGOL1_HUMAN	shugoshin-like 1 isoform A2	418					attachment of spindle microtubules to kinetochore|cell division|centriole-centriole cohesion|meiotic chromosome segregation|mitotic prometaphase	centrosome|condensed chromosome kinetochore|cytosol|mitotic cohesin complex|spindle pole	protein binding				0						CTTAGAACCCTCCGTCTCTTT	0.393													31	82					0	0	1	0	0		C	20215770	C	C	20215770	3	2	199	1	0	0	0	0	1	0	0	0	14241	1551	54	3	468	3	SGOL1	3	20215770	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	4577857	20215770	177806660	234	97626											
DCLK3	85443	broad.mit.edu	37	chr3	36759617	36759617	+	Missense_Mutation	SNP	A	G	G	1	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	atgggggaaagccacacagcAggatatagaggatcacgcca	15	4	13	9	1	1	1	1	0	0	1	1	4	1	4	2	4	2	1	2	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:36759617A>G	uc003cgi.2	-	4	2128	c.1637T>C	c.(1636-1638)CTG>CCG	p.L546P		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	546	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						GCCACACAGCAGGATATAGAG	0.577													34	203					0	0	1	0	0		G	36759617	G	G	36759617	3	3	199	1	0	0	0	0	1	0	0	0	4296	188	7	3	317	3	DCLK3	3	36759617	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	16543847	36759617	161262813	235	97627											
TRANK1	9881	broad.mit.edu	37	chr3	36887887	36887887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagctgcttcagctctccGttgaggagctaaagataaca	12	10	9	10	1	2	2	1	1	1	1	3	3	2	3	1	1	6	5	1	1	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:36887887G>A	uc003cgj.2	-	7	3563	c.3261C>T	c.(3259-3261)AAC>AAT	p.N1087N		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1637					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TCAGCTCTCCGTTGAGGAGCT	0.448													7	26					0	0	1	0	0		A	36887887	A	A	36887887	2	1	199	1	0	0	0	0	0	0	0	1	16480	1136	40	1		1	TRANK1	3	36887887	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	128270	36887887	161134543	236	97628											
TGM4	7047	broad.mit.edu	37	chr3	44943120	44943120	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagtgccccgatcctgcaGcagtactacaacacgaagca	12	5	10	14	2	0	0	0	0	0	0	1	2	1	0	3	1	7	5	3	1	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:44943120G>T	uc003coc.3	+	7	835	c.762G>T	c.(760-762)CAG>CAT	p.Q254H	TGM4_uc003cob.2_RNA	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)	254					peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CGATCCTGCAGCAGTACTACA	0.582													13	38					1.67942e-08	1.81308e-08	1	1	0		T	44943120	T	T	44943120	3	4	199	1	0	0	0	0	1	0	0	0	15857	962	34	5	788	5	TGM4	3	44943120	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	8055233	44943120	153079310	237	97629											
CDCP1	64866	broad.mit.edu	37	chr3	45132848	45132848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcctggatgatcatgaatgCgcgccctgtctggcagacca	8	9	11	13	2	2	3	1	2	1	1	3	4	3	4	3	2	1	1	3	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:45132848C>T	uc003com.2	-	7	1945	c.1810G>A	c.(1810-1812)GCA>ACA	p.A604T		NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	604	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		ATCATGAATGCGCGCCCTGTC	0.607													3	48					0	0	1	0	0		T	45132848	T	T	45132848	3	4	199	1	0	0	0	0	1	0	0	0	3096	768	27	1	712	1	CDCP1	3	45132848	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	189728	45132848	152889582	238	97630											
SLC6A20	54716	broad.mit.edu	37	chr3	45817323	45817323	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccaggaggaggcacagcGccggctcccactgcacaccc	9	2	13	17	2	0	0	0	0	0	0	1	2	1	2	4	5	2	3	4	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:45817323G>A	uc011bai.1	-	4	636	c.512C>T	c.(511-513)GCG>GTG	p.A171V	SLC6A20_uc011baj.1_Missense_Mutation_p.A171V	NM_020208	NP_064593	Q9NP91	S6A20_HUMAN	solute carrier family 6, member 20 isoform 1	171	Helical; Name=4; (Potential).				cellular nitrogen compound metabolic process|glycine transport|proline transport	apical plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.01)|KIRC - Kidney renal clear cell carcinoma(197;0.0225)|Kidney(197;0.0267)		GAGGCACAGCGCCGGCTCCCA	0.627													32	78					0	0	1	0	0		A	45817323	A	A	45817323	3	1	199	1	0	0	0	0	1	0	0	0	14709	1087	38	1	1298	1	SLC6A20	3	45817323	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	684475	45817323	152205107	239	97631											
CXCR6	10663	broad.mit.edu	37	chr3	45988802	45988802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatggtgacagaggccatcGcatacctgagggcctgcctt	8	9	12	12	1	1	3	1	2	0	1	2	3	1	3	4	3	2	1	4	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:45988802G>A	uc003cpc.1	+	2	910	c.829G>A	c.(829-831)GCA>ACA	p.A277T	FYCO1_uc003cpb.3_Intron|FYCO1_uc011bal.1_Intron|CXCR6_uc010hix.1_Missense_Mutation_p.A277T	NM_006564	NP_006555	O00574	CXCR6_HUMAN	G protein-coupled receptor TYMSTR	277	Helical; Name=7; (Potential).				viral genome replication	integral to plasma membrane	coreceptor activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		AGAGGCCATCGCATACCTGAG	0.507													12	30					0	0	1	0	0		A	45988802	A	A	45988802	3	1	199	1	0	0	0	0	1	0	0	0	4098	1087	38	1	831	1	CXCR6	3	45988802	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	171479	45988802	152033628	240	97632											
NBEAL2	23218	broad.mit.edu	37	chr3	47030391	47030391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggatgagctgcatgtgctggCcgaacagctgcaccaggctg	8	7	15	11	1	0	1	0	1	0	0	0	3	0	2	2	3	6	6	2	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:47030391C>T	uc003cqp.2	+	3	379	c.200C>T	c.(199-201)GCC>GTC	p.A67V	NBEAL2_uc003cqq.1_Missense_Mutation_p.A60V	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	67							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CATGTGCTGGCCGAACAGCTG	0.602													10	61					0	0	1	0	0		T	47030391	T	T	47030391	3	4	199	1	0	0	0	0	1	0	0	0	10207	739	26	2	210	2	NBEAL2	3	47030391	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1041589	47030391	150992039	241	97633											
SETD2	29072	broad.mit.edu	37	chr3	47098794	47098794	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaccagcaaagggatgatgCggggcattataaccaagaga	16	6	12	7	1	0	2	0	1	0	1	0	4	0	3	2	3	4	2	2	3	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:47098794C>T	uc003cqs.2	-	15	6533	c.6480G>A	c.(6478-6480)CCG>CCA	p.P2160P	SETD2_uc003cqv.2_Silent_p.P2227P|SETD2_uc003cqt.1_RNA	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2160	Pro-rich.|Low charge region.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		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)		AGGGATGATGCGGGGCATTAT	0.537			N|F|S|Mis		clear cell renal carcinoma								25	164					0	0	1	0	0		T	47098794	T	T	47098794	2	4	199	1	0	0	0	0	0	0	0	1	14156	755	27	1		1	SETD2	3	47098794	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	68403	47098794	150923636	242	97634											
PTPN23	25930	broad.mit.edu	37	chr3	47454478	47454478	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaagcccccagctcggggCccccctcctcctccctggaa	5	6	9	21	1	0	1	0	1	0	0	4	2	3	2	8	3	2	1	8	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:47454478C>G	uc003crf.1	+	25	4810	c.4714C>G	c.(4714-4716)CCC>GCC	p.P1572A	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.P1442A|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1572	Pro-rich.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAGCTCGGGGCCCCCCTCCTC	0.657													3	5					0	0	1	0	0		G	47454478	G	G	47454478	3	3	199	1	0	0	0	0	1	0	0	0	12813	739	26	5	4812	5	PTPN23	3	47454478	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	355684	47454478	150567952	243	97635											
SCAP	22937	broad.mit.edu	37	chr3	47459936	47459936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acccagctgcccgtagttgcGcgggcatagcacgcggtaga	8	6	14	13	5	0	1	0	0	0	1	0	1	0	1	2	2	4	6	2	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:47459936G>A	uc003crh.1	-	15	2461	c.2206C>T	c.(2206-2208)CGC>TGC	p.R736C	SCAP_uc011baz.1_Missense_Mutation_p.R481C|SCAP_uc003crg.2_Missense_Mutation_p.R344C	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	736	Interaction with SREBF2 (By similarity).|Cytoplasmic (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		CCGTAGTTGCGCGGGCATAGC	0.726													3	14					0	0	1	0	0		A	47459936	A	A	47459936	3	1	199	1	0	0	0	0	1	0	0	0	13902	1087	38	1	1669	1	SCAP	3	47459936	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5458	47459936	150562494	244	97636											
COL7A1	1294	broad.mit.edu	37	chr3	48606837	48606837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggtccccattgtctccccGaggtcctttgtcaccatcca	6	11	8	16	1	2	0	1	0	1	0	6	1	5	0	7	2	0	0	7	2	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:48606837G>A	uc003ctz.2	-	102	7658	c.7657C>T	c.(7657-7659)CGG>TGG	p.R2553W		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2553	Triple-helical region.|Cell attachment site (Potential).				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TTGTCTCCCCGAGGTCCTTTG	0.602													16	77					0	0	1	0	0		A	48606837	A	A	48606837	3	1	199	1	0	0	0	0	1	0	0	0	3707	1057	37	1	1245	1	COL7A1	3	48606837	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1146901	48606837	149415593	245	97637											
CELSR3	1951	broad.mit.edu	37	chr3	48697513	48697513	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagaccggccgatgagtgTtggcatctgtgatgttgatg	9	11	15	6	2	1	4	0	3	1	1	1	6	1	4	2	2	0	3	2	2	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:48697513T>C	uc003cul.2	-	1	2836	c.2555A>G	c.(2554-2556)AAC>AGC	p.N852S	CELSR3_uc003cuf.1_Missense_Mutation_p.N922S	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	852	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCGATGAGTGTTGGCATCTGT	0.343													33	148					0	0	1	0	0		C	48697513	C	C	48697513	3	2	199	1	0	0	0	0	1	0	0	0	3226	1725	60	3	7523	3	CELSR3	3	48697513	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	90676	48697513	149324917	246	97638											
CELSR3	1951	broad.mit.edu	37	chr3	48699725	48699725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcggctgcccaatggctggaCgccgtgttcaatccccagct	6	8	12	15	3	1	0	1	0	0	0	2	1	2	1	4	3	2	4	4	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:48699725C>T	uc003cul.2	-	1	624	c.343G>A	c.(343-345)GTC>ATC	p.V115I	CELSR3_uc003cuf.1_Missense_Mutation_p.V185I	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	115	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AATGGCTGGACGCCGTGTTCA	0.632													46	133					0	0	1	0	0		T	48699725	T	T	48699725	3	4	199	1	0	0	0	0	1	0	0	0	3226	536	19	1	9735	1	CELSR3	3	48699725	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2212	48699725	149322705	247	97639											
NCKIPSD	51517	broad.mit.edu	37	chr3	48717524	48717524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctctaggtagcagcGgatgacaccctcatcctcat	9	9	8	15	1	3	1	2	1	1	0	5	2	5	2	3	2	3	3	3	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:48717524G>A	uc003cun.2	-	6	1325	c.1231C>T	c.(1231-1233)CGC>TGC	p.R411C	NCKIPSD_uc003cum.2_Missense_Mutation_p.R404C	NM_016453	NP_057537	Q9NZQ3	SPN90_HUMAN	NCK interacting protein with SH3 domain isoform	411					cytoskeleton organization|NLS-bearing substrate import into nucleus|signal transduction	intermediate filament|nucleus	cytoskeletal protein binding|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		AGGTAGCAGCGGATGACACCC	0.602													15	73					0	0	1	0	0		A	48717524	A	A	48717524	3	1	199	1	0	0	0	0	1	0	0	0	10244	1116	39	1	969	1	NCKIPSD	3	48717524	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	17799	48717524	149304906	248	97640											
PRKAR2A	5576	broad.mit.edu	37	chr3	48789613	48789613	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagaacttttcttacctaaGcatttgacatctccaactgc	13	13	4	11	0	2	2	0	1	2	1	3	2	2	2	2	0	5	1	2	0	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:48789613G>T	uc010hki.1	-	10	1318	c.1077C>A	c.(1075-1077)TGC>TGA	p.C359*	PRKAR2A_uc003cux.1_Nonsense_Mutation_p.C359*|PRKAR2A_uc003cuy.1_Nonsense_Mutation_p.C337*	NM_004157	NP_004148	P13861	KAP2_HUMAN	cAMP-dependent protein kinase, regulatory	359	cAMP 2.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|membrane fraction	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)		TCTTACCTAAGCATTTGACAT	0.418													6	27					0.0381472	0.0385153	1	1	0		T	48789613	T	T	48789613	4	4	199	1	0	0	0	0	0	1	0	0	12527	963	34	5	145	5	PRKAR2A	3	48789613	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	72089	48789613	149232817	249	97641											
IMPDH2	3615	broad.mit.edu	37	chr3	49064427	49064427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagaatttcatttgcctcCttcagtgtgatgcctgcagg	7	14	10	10	0	2	2	2	1	0	1	3	2	3	2	3	1	4	2	3	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:49064427C>A	uc003cvt.2	-	6	677	c.585G>T	c.(583-585)AAG>AAT	p.K195N		NM_000884	NP_000875	P12268	IMDH2_HUMAN	inosine monophosphate dehydrogenase 2	195	CBS 2.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	IMP dehydrogenase activity|metal ion binding|nucleotide binding|protein binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)	CATTTGCCTCCTTCAGTGTGA	0.522													13	255					3.52763e-06	3.72065e-06	1	1	0		A	49064427	A	A	49064427	3	1	199	1	0	0	0	0	1	0	0	0	7743	680	24	5	995	5	IMPDH2	3	49064427	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	274814	49064427	148958003	250	97642											
AMT	275	broad.mit.edu	37	chr3	49457752	49457752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaagatgcctccagcctcGttggtaaacagcgacagtgt	10	10	10	11	2	1	1	0	0	1	1	3	2	2	1	3	1	4	2	3	1	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:49457752G>A	uc003cww.2	-	4	492	c.363C>T	c.(361-363)AAC>AAT	p.N121N	AMT_uc011bcn.1_Intron|AMT_uc003cwx.2_Silent_p.N121N|AMT_uc011bco.1_Intron|AMT_uc003cwy.2_Silent_p.N73N|AMT_uc011bcp.1_Silent_p.N24N|AMT_uc011bcq.1_Silent_p.N65N	NM_000481	NP_000472	P48728	GCST_HUMAN	aminomethyltransferase isoform 1 precursor	121					glycine catabolic process	mitochondrion	aminomethyltransferase activity|transaminase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	NADH(DB00157)|Tetrahydrofolic acid(DB00116)	CTCCAGCCTCGTTGGTAAACA	0.552													21	75					0	0	1	0	0		A	49457752	A	A	49457752	2	1	199	1	0	0	0	0	0	0	0	1	589	1136	40	1		1	AMT	3	49457752	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	393325	49457752	148564678	251	97643											
DAG1	1605	broad.mit.edu	37	chr3	49568441	49568441	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaccacagtgagctgcagtCggtgaggacagcctccccag	10	5	13	13	1	0	3	0	2	0	1	2	4	1	4	4	2	3	2	4	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:49568441C>T	uc003cxc.3	+	3	915	c.497C>T	c.(496-498)TCG>TTG	p.S166L		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	166	Required for laminin recognition.				cytoskeletal anchoring at plasma membrane|interspecies interaction between organisms|microtubule anchoring|negative regulation of cell migration|negative regulation of MAPKKK cascade|negative regulation of protein kinase B signaling cascade	basement membrane|contractile ring|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|extracellular space|filopodium|integral to membrane|integral to membrane of membrane fraction|lamellipodium|nucleoplasm	actin binding|alpha-actinin binding|calcium ion binding|laminin-1 binding|receptor activity|structural constituent of muscle|tubulin binding|vinculin binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.00241)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GAGCTGCAGTCGGTGAGGACA	0.597													6	56					0	0	1	0	0		T	49568441	T	T	49568441	3	4	199	1	0	0	0	0	1	0	0	0	4228	893	31	1	503	1	DAG1	3	49568441	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	110689	49568441	148453989	252	97644											
BSN	8927	broad.mit.edu	37	chr3	49699943	49699943	+	Silent	SNP	T	C	C	0	1	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	cgggcccacgcatataagcgTgaggagggctacatcctgga	10	6	14	11	3	0	1	0	1	0	0	1	3	1	3	2	4	2	2	2	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:49699943T>C	uc003cxe.3	+	6	10779	c.10665T>C	c.(10663-10665)CGT>CGC	p.R3555R		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	3555					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CATATAAGCGTGAGGAGGGCT	0.597													14	54					0	0	1	0	0		C	49699943	C	C	49699943	2	2	199	1	0	0	0	0	0	0	0	1	1533	1683	59	3		3	BSN	3	49699943	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	131502	49699943	148322487	253	97645											
AMIGO3	386724	broad.mit.edu	37	chr3	49756465	49756465	+	Missense_Mutation	SNP	A	G	G	1	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	catgctcgtccaagtgcaccAagcggttattgaacagaagc	12	8	10	11	2	0	2	0	1	0	1	2	2	1	2	2	1	5	3	2	1	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:49756465A>G	uc003cxj.2	-	1	774	c.434T>C	c.(433-435)TTG>TCG	p.L145S	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	145	Extracellular (Potential).|LRR 4.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CAAGTGCACCAAGCGGTTATT	0.622											OREG0015572	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	119					0	0	1	0	0		G	49756465	G	G	49756465	3	3	199	1	0	0	0	0	1	0	0	0	577	131	5	3	1084	3	AMIGO3	3	49756465	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	56522	49756465	148265965	254	97646											
GNAT1	2779	broad.mit.edu	37	chr3	50231210	50231210	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctccgacctggagcgcctGgtaaccccgggctacgtgcc	5	7	12	17	4	1	0	0	0	1	0	2	2	1	1	6	3	4	2	6	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:50231210G>A	uc003cym.2	+	5	590	c.474G>A	c.(472-474)CTG>CTA	p.L158L	GNAT1_uc003cyl.2_Silent_p.L158L	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	158					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TGGAGCGCCTGGTAACCCCGG	0.532													5	12					0	0	1	0	0		A	50231210	A	A	50231210	2	1	199	1	0	0	0	0	0	0	0	1	6526	1335	47	4		4	GNAT1	3	50231210	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	474745	50231210	147791220	255	97647											
SEMA3B	7869	broad.mit.edu	37	chr3	50313226	50313226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgagccccgctcgctgcaggCgcgcgtggagtggactttcc	4	8	15	14	5	0	1	0	1	0	0	2	3	1	3	3	3	2	3	3	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:50313226C>T	uc003cyu.2	+	18	2038	c.1796C>T	c.(1795-1797)GCG>GTG	p.A599V	SEMA3B_uc003cyt.2_Missense_Mutation_p.A598V|SEMA3B_uc003cyv.2_Missense_Mutation_p.A486V|SEMA3B_uc003cyw.2_Missense_Mutation_p.A322V|SEMA3B_uc010hli.2_Missense_Mutation_p.A491V|SEMA3B_uc003cyx.2_Missense_Mutation_p.A485V|SEMA3B_uc003cyy.2_Missense_Mutation_p.A256V|SEMA3B_uc011bdo.1_Missense_Mutation_p.A256V	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	599	Ig-like C2-type.				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TCGCTGCAGGCGCGCGTGGAG	0.687													6	23					0	0	1	0	0		T	50313226	T	T	50313226	3	4	199	1	0	0	0	0	1	0	0	0	14050	768	27	1	1857	1	SEMA3B	3	50313226	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	82016	50313226	147709204	256	97648											
CYB561D2	11068	broad.mit.edu	37	chr3	50388931	50388931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtactgcttctggcgctgccGcccaccttgtggccctgggc	2	10	13	16	2	1	0	0	0	1	0	1	0	1	0	4	3	3	3	4	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:50388931G>A	uc003dak.2	+	1	643	c.67G>A	c.(67-69)GCC>ACC	p.A23T	NPRL2_uc003dai.1_5'Flank|NPRL2_uc003daj.1_5'Flank|CYB561D2_uc003dal.2_Missense_Mutation_p.A23T|CYB561D2_uc003dam.2_Missense_Mutation_p.A23T	NM_007022	NP_008953	O14569	C56D2_HUMAN	cytochrome b-561 domain containing 2	23	Helical; (Potential).|Cytochrome b561.				electron transport chain|transport	integral to membrane	metal ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		TGGCGCTGCCGCCCACCTTGT	0.577													10	51					0	0	1	0	0		A	50388931	A	A	50388931	3	1	199	1	0	0	0	0	1	0	0	0	4124	1087	38	1	69	1	CYB561D2	3	50388931	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	75705	50388931	147633499	257	97649											
MAPKAPK3	7867	broad.mit.edu	37	chr3	50685366	50685366	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccactatgcgggtagactaCgaccaggtgaagatcaagga	13	6	13	9	2	1	3	1	1	0	2	1	5	1	4	2	3	2	1	2	3	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:50685366C>T	uc003day.1	+	13	1634	c.1038C>T	c.(1036-1038)TAC>TAT	p.Y346Y	MAPKAPK3_uc003daz.1_Silent_p.Y346Y|MAPKAPK3_uc003dba.1_Silent_p.Y346Y|MAPKAPK3_uc010hlr.1_Silent_p.Y346Y	NM_004635	NP_004626	Q16644	MAPK3_HUMAN	mitogen-activated protein kinase-activated	346					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.0188)|Kidney(197;0.0223)		GGGTAGACTACGACCAGGTGA	0.552													15	62					0	0	1	0	0		T	50685366	T	T	50685366	2	4	199	1	0	0	0	0	0	0	0	1	9308	547	19	1		1	MAPKAPK3	3	50685366	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	296435	50685366	147337064	258	97650											
ACY1	95	broad.mit.edu	37	chr3	52021073	52021073	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaggacacagcagcagagaAgctggtacgtggcaccccag	12	3	15	11	1	0	1	0	0	0	1	0	4	0	3	2	4	4	5	2	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:52021073A>C	uc003dcp.2	+	9	714	c.653A>C	c.(652-654)AAG>ACG	p.K218T	ACY1_uc011bea.1_Missense_Mutation_p.K308T|ACY1_uc011beb.1_Missense_Mutation_p.K218T|ACY1_uc003dcq.2_Missense_Mutation_p.K218T	NM_000666	NP_000657	Q03154	ACY1_HUMAN	aminoacylase 1	218					cellular amino acid metabolic process|proteolysis	cytosol	aminoacylase activity|metal ion binding|metallopeptidase activity			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	L-Aspartic Acid(DB00128)	GCAGCAGAGAAGCTGGTACGT	0.582													12	63					0	0	1	0	0		C	52021073	C	C	52021073	3	2	199	1	0	0	0	0	1	0	0	0	226	72	3	5	683	5	ACY1	3	52021073	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1335707	52021073	146001357	259	97651											
ALAS1	211	broad.mit.edu	37	chr3	52237967	52237967	+	Silent	SNP	C	T	T	0	0	0	1	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	ctgctgaagaacttccaggaCatcatgcaaaagcaaagacc	16	6	8	11	0	1	3	1	1	0	2	2	4	2	4	2	1	4	3	2	1	5	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:52237967C>T	uc003dcy.1	+	5	853	c.516C>T	c.(514-516)GAC>GAT	p.D172D	ALAS1_uc003dcz.1_Silent_p.D172D|ALAS1_uc011bec.1_Silent_p.D189D	NM_000688	NP_000679	P13196	HEM1_HUMAN	5-aminolevulinate synthase 1 precursor	172					heme biosynthetic process	mitochondrial matrix	5-aminolevulinate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(2)|upper_aerodigestive_tract(1)	3				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	ACTTCCAGGACATCATGCAAA	0.438													15	60					0	0	1	0	0		T	52237967	T	T	52237967	2	4	199	1	0	0	0	0	0	0	0	1	484	477	17	4		4	ALAS1	3	52237967	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	216894	52237967	145784463	260	97652											
NISCH	11188	broad.mit.edu	37	chr3	52524132	52524132	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctcatgtggtcctcggtGgtgttctaccagaccccagg	6	10	11	14	1	2	1	1	0	1	1	4	1	3	1	5	4	1	1	5	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:52524132G>A	uc011beg.1	+	19	3570	c.3498G>A	c.(3496-3498)GTG>GTA	p.V1166V	NISCH_uc003ded.3_Silent_p.V1166V|NISCH_uc003dee.3_Silent_p.V655V|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_5'Flank	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1166					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				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)		GGTCCTCGGTGGTGTTCTACC	0.612													3	32					0	0	1	0	0		A	52524132	A	A	52524132	2	1	199	1	0	0	0	0	0	0	0	1	10451	1335	47	4		4	NISCH	3	52524132	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	286165	52524132	145498298	261	97653											
GNL3	26354	broad.mit.edu	37	chr3	52728093	52728093	+	Missense_Mutation	SNP	A	G	G	1	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	tgctgcagaagagacaggggAggcactgtctgaggagacta	12	6	16	7	0	1	4	0	1	1	3	1	7	1	5	0	4	2	3	0	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:52728093A>G	uc003dfd.2	+	14	1714	c.1541A>G	c.(1540-1542)GAG>GGG	p.E514G	GNL3_uc003dfe.2_Missense_Mutation_p.E502G|GNL3_uc003dff.2_Missense_Mutation_p.E502G	NM_014366	NP_055181	Q9BVP2	GNL3_HUMAN	guanine nucleotide binding protein-like 3	514	Acidic (By similarity).				regulation of cell proliferation	nucleolus	GTP binding|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;6.75e-05)|Kidney(197;0.000611)|KIRC - Kidney renal clear cell carcinoma(197;0.000773)|OV - Ovarian serous cystadenocarcinoma(275;0.048)		GAGACAGGGGAGGCACTGTCT	0.438													6	52					0	0	1	0	0		G	52728093	G	G	52728093	3	3	199	1	0	0	0	0	1	0	0	0	6552	304	11	3	1595	3	GNL3	3	52728093	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	203961	52728093	145294337	262	97654											
SFMBT1	51460	broad.mit.edu	37	chr3	52962301	52962301	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacacaaaggatcgccgtgcGtggttctcaggacgcaagtc	10	7	12	12	4	1	0	1	0	1	0	4	2	1	2	1	3	1	2	1	3	2	1	rs112153185	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:52962301G>A	uc003dgf.2	-	10	1523	c.954C>T	c.(952-954)CAC>CAT	p.H318H	SFMBT1_uc010hmr.2_Silent_p.H265H|SFMBT1_uc003dgg.2_Silent_p.H318H|SFMBT1_uc003dgh.2_Silent_p.H318H	NM_001005159	NP_001005159	Q9UHJ3	SMBT1_HUMAN	Scm-like with four mbt domains 1	318	MBT 3.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.91e-05)|Kidney(197;0.000644)|KIRC - Kidney renal clear cell carcinoma(197;0.000792)|OV - Ovarian serous cystadenocarcinoma(275;0.113)		ATCGCCGTGCGTGGTTCTCAG	0.488													6	92					0	0	1	0	0		A	52962301	A	A	52962301	2	1	199	1	0	0	0	0	0	0	0	1	14182	1136	40	1		1	SFMBT1	3	52962301	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	234208	52962301	145060129	263	97655											
PRKCD	5580	broad.mit.edu	37	chr3	53223077	53223077	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctccccaccgccagatcCtacagggcctgaagtacaca	10	6	8	17	1	1	2	0	1	1	1	3	2	2	2	6	1	2	2	6	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:53223077C>A	uc003dgl.2	+	17	1911	c.1558C>A	c.(1558-1560)CTA>ATA	p.L520I	PRKCD_uc003dgm.2_Missense_Mutation_p.L520I	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	520	Protein kinase.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		CCGCCAGATCCTACAGGGCCT	0.577													3	20					0.150653	0.151066	1	1	0		A	53223077	A	A	53223077	3	1	199	1	0	0	0	0	1	0	0	0	12531	680	24	5	1616	5	PRKCD	3	53223077	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	260776	53223077	144799353	264	97656											
CCDC66	285331	broad.mit.edu	37	chr3	56600714	56600714	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aaactgaaatggtttcatctGtcccagctgaaaataaatct	15	12	6	8	0	3	2	1	2	2	0	4	2	4	2	1	1	2	2	1	1	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:56600714G>A	uc003dhz.2	+	5	724	c.637G>A	c.(637-639)GTC>ATC	p.V213I	CCDC66_uc003dhy.2_5'UTR|CCDC66_uc003dhu.2_Missense_Mutation_p.V179I|CCDC66_uc003dhx.2_RNA|CCDC66_uc003dhv.2_RNA|CCDC66_uc003dhw.2_Missense_Mutation_p.V213I	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	213										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		GGTTTCATCTGTCCCAGCTGA	0.333													4	62					0	0	1	0	0		A	56600714	A	A	56600714	3	1	199	1	0	0	0	0	1	0	0	0	2841	1377	48	4	655	4	CCDC66	3	56600714	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3377637	56600714	141421716	265	97657											
C3orf63	23272	broad.mit.edu	37	chr3	56658877	56658877	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttaaaaagactatgtgtcGttgctgtatgttctgagcct	9	16	10	6	1	1	2	0	1	1	1	2	2	1	2	1	0	2	5	1	0	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:56658877G>A	uc003did.3	-	21	4215	c.4114C>T	c.(4114-4116)CGA>TGA	p.R1372*	C3orf63_uc003dib.3_Nonsense_Mutation_p.R491*|C3orf63_uc003dic.3_Nonsense_Mutation_p.R996*|C3orf63_uc003die.3_Nonsense_Mutation_p.R1433*	NM_015224	NP_056039	Q9UK61	CC063_HUMAN	retinoblastoma-associated protein 140 isoform b	1433										ovary(3)|kidney(1)|central_nervous_system(1)	5				KIRC - Kidney renal clear cell carcinoma(284;0.0126)|Kidney(284;0.0147)		ACTATGTGTCGTTGCTGTATG	0.388													14	67					0	0	1	0	0		A	56658877	A	A	56658877	4	1	199	1	0	0	0	0	0	1	0	0	2242	1153	40	1	787	1	C3orf63	3	56658877	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	58163	56658877	141363553	266	97658											
IL17RD	54756	broad.mit.edu	37	chr3	57132009	57132009	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctccaagactggctcccgGtagcgcagtggaggaggatg	8	8	15	10	2	1	1	0	0	1	1	3	4	2	4	2	5	1	3	2	5	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:57132009G>A	uc003dil.2	-	12	1811	c.1722C>T	c.(1720-1722)TAC>TAT	p.Y574Y	IL17RD_uc003dik.2_Silent_p.Y550Y|IL17RD_uc010hna.2_Silent_p.Y430Y|IL17RD_uc011bex.1_Silent_p.Y430Y	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	574	Cytoplasmic (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		CTGGCTCCCGGTAGCGCAGTG	0.517													3	32					0	0	1	0	0		A	57132009	A	A	57132009	2	1	199	1	0	0	0	0	0	0	0	1	7658	1256	44	4		4	IL17RD	3	57132009	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	473132	57132009	140890421	267	97659											
CADPS	8618	broad.mit.edu	37	chr3	62518693	62518693	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggactccatttcgggcgcaaTactcgtctagtacaaacacc	11	9	8	13	3	1	0	0	0	1	0	4	1	2	1	2	2	3	2	2	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:62518693T>C	uc003dll.2	-	13	2504	c.2144A>G	c.(2143-2145)TAT>TGT	p.Y715C	CADPS_uc003dlk.1_Missense_Mutation_p.Y219C|CADPS_uc003dlm.2_Missense_Mutation_p.Y715C|CADPS_uc003dln.2_Missense_Mutation_p.Y698C	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	715					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|cytosol|synapse	lipid binding|metal ion binding			central_nervous_system(2)|ovary(1)	3		Lung SC(41;0.0452)		BRCA - Breast invasive adenocarcinoma(55;5.98e-05)|KIRC - Kidney renal clear cell carcinoma(15;0.0246)|Kidney(15;0.0334)		TCGGGCGCAATACTCGTCTAG	0.498													13	77					0	0	1	0	0		C	62518693	C	C	62518693	3	2	199	1	0	0	0	0	1	0	0	0	2573	1406	49	3	2062	3	CADPS	3	62518693	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	5386684	62518693	135503737	268	97660											
FOXP1	27086	broad.mit.edu	37	chr3	71096238	71096238	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaactgctgggtagccacCtgctgttgctgtaagaaatc	9	10	11	11	0	0	1	0	0	0	1	1	1	0	1	3	1	5	6	3	1	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:71096238C>A	uc003dol.2	-	6	842	c.519G>T	c.(517-519)CAG>CAT	p.Q173H	FOXP1_uc003dom.2_Missense_Mutation_p.Q97H|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.Q173H|FOXP1_uc003dop.2_Missense_Mutation_p.Q173H|FOXP1_uc003doq.1_Missense_Mutation_p.Q172H|FOXP1_uc003doi.2_Missense_Mutation_p.Q73H|FOXP1_uc003doj.2_Missense_Mutation_p.Q73H|FOXP1_uc003dok.2_Translation_Start_Site	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	173	Gln-rich.			Q -> R (in Ref. 3; BAB55005).	cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		GGGTAGCCACCTGCTGTTGCT	0.468			T	PAX5	ALL								6	68					0.00198382	0.00202812	1	1	0		A	71096238	A	A	71096238	3	1	199	1	0	0	0	0	1	0	0	0	6040	680	24	5	1562	5	FOXP1	3	71096238	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	8577545	71096238	126926192	269	97661											
COL8A1	1295	broad.mit.edu	37	chr3	99514656	99514656	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccccagtgaagtttaacaaActgctgtataacggcagaca	14	8	9	10	1	0	2	0	1	0	1	0	2	0	2	2	1	4	4	2	1	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:99514656A>G	uc003dtg.1	+	5	2156	c.1911A>G	c.(1909-1911)AAA>AAG	p.K637K	COL8A1_uc003dth.1_Silent_p.K637K|COL8A1_uc003dti.1_Silent_p.K638K	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	637	C1q.|Nonhelical region (NC1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						AGTTTAACAAACTGCTGTATA	0.537													12	41					0	0	1	0	0		G	99514656	G	G	99514656	2	3	199	1	0	0	0	0	0	0	0	1	3708	40	2	3		3	COL8A1	3	99514656	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	28418418	99514656	98507774	270	97662											
FAM55C	91775	broad.mit.edu	37	chr3	101540395	101540395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caatgagctccattatgtggCgaatgagctgaatggcattg	11	11	12	7	1	0	3	0	3	0	0	1	4	1	3	1	2	2	3	1	2	4	2	rs139135706	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:101540395C>T	uc003dvn.2	+	8	1914	c.1277C>T	c.(1276-1278)GCG>GTG	p.A426V	FAM55C_uc010hpn.2_Missense_Mutation_p.A426V	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	426						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						CATTATGTGGCGAATGAGCTG	0.522													4	21					0	0	1	0	0		T	101540395	T	T	101540395	3	4	199	1	0	0	0	0	1	0	0	0	5600	768	27	1	1295	1	FAM55C	3	101540395	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2025739	101540395	96482035	271	97663											
MYH15	22989	broad.mit.edu	37	chr3	108163557	108163557	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgctttcagttcctccCtctgaaactctgatttctcc	5	17	5	14	0	4	2	1	2	3	0	7	2	6	2	3	0	2	3	3	0	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:108163557C>A	uc003dxa.1	-	23	2702	c.2645G>T	c.(2644-2646)AGG>ATG	p.R882M		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	882	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CAGTTCCTCCCTCTGAAACTC	0.423													14	76					9.31168e-06	9.77193e-06	1	1	0		A	108163557	A	A	108163557	3	1	199	1	0	0	0	0	1	0	0	0	10052	681	24	5	3275	5	MYH15	3	108163557	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6623162	108163557	89858873	272	97664											
DZIP3	9666	broad.mit.edu	37	chr3	108363261	108363261	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagttaccgcaatccaaacaGtttgacttatgcctcctgtt	10	13	7	11	1	0	1	0	1	0	0	2	2	2	1	4	0	3	4	4	0	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:108363261G>A	uc003dxd.2	+	14	1814	c.1392G>A	c.(1390-1392)CAG>CAA	p.Q464Q	DZIP3_uc003dxf.1_Silent_p.Q464Q|DZIP3_uc011bhm.1_Intron|DZIP3_uc003dxe.1_Silent_p.Q464Q|DZIP3_uc003dxg.1_Silent_p.Q187Q	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	464					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						AATCCAAACAGTTTGACTTAT	0.423													21	91					0	0	1	0	0		A	108363261	A	A	108363261	2	1	199	1	0	0	0	0	0	0	0	1	4871	1020	36	4		4	DZIP3	3	108363261	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	199704	108363261	89659169	273	97665											
DPPA2	151871	broad.mit.edu	37	chr3	109028172	109028172	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctcatttgtttgaagtaGatgacctaagacaagaatgg	13	13	10	5	0	1	5	1	2	0	3	1	5	1	5	1	1	1	3	1	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:109028172G>T	uc003dxo.2	-	4	434	c.187C>A	c.(187-189)CTA>ATA	p.L63I		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	63						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						GTTTGAAGTAGATGACCTAAG	0.318													12	53					1.49906e-05	1.56642e-05	1	1	0		T	109028172	T	T	109028172	3	4	199	1	0	0	0	0	1	0	0	0	4740	933	33	5	729	5	DPPA2	3	109028172	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	664911	109028172	88994258	274	97666											
ZBTB20	26137	broad.mit.edu	37	chr3	114069728	114069728	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggttcagcctggctgtcccgCgccgccccaggcccaaactg	5	6	12	18	3	1	0	1	0	0	0	2	0	2	0	6	3	2	2	6	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:114069728C>T	uc003ebi.2	-	4	1377	c.1197G>A	c.(1195-1197)GCG>GCA	p.A399A	ZBTB20_uc003ebj.2_Silent_p.A326A|ZBTB20_uc010hqp.2_Silent_p.A326A|ZBTB20_uc003ebk.2_Silent_p.A326A|ZBTB20_uc003ebl.2_Silent_p.A326A|ZBTB20_uc003ebm.2_Silent_p.A326A|ZBTB20_uc003ebn.2_Silent_p.A326A|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	399					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GGCTGTCCCGCGCCGCCCCAG	0.647													5	59					0	0	1	0	0		T	114069728	T	T	114069728	2	4	199	1	0	0	0	0	0	0	0	1	17554	755	27	1		1	ZBTB20	3	114069728	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5041556	114069728	83952702	275	97667											
C3orf1	51300	broad.mit.edu	37	chr3	119236144	119236144	+	Missense_Mutation	SNP	A	G	G	1	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	ggatcgaaaggcactccatgAgctaaaactggaagagtggt	14	7	13	7	1	0	2	0	1	0	1	2	5	1	4	1	4	2	2	1	4	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:119236144A>G	uc003ecn.2	+	6	902	c.689A>G	c.(688-690)GAG>GGG	p.E230G	C3orf1_uc003eco.2_RNA|C3orf1_uc003ecp.2_RNA	NM_016589	NP_057673	Q9NPL8	TIDC1_HUMAN	hypothetical protein LOC51300	230						integral to membrane|mitochondrial inner membrane	protein transporter activity				0				GBM - Glioblastoma multiforme(114;0.186)		GCACTCCATGAGCTAAAACTG	0.468													16	89					0	0	1	0	0		G	119236144	G	G	119236144	3	3	199	1	0	0	0	0	1	0	0	0	2209	304	11	3	711	3	C3orf1	3	119236144	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	5166416	119236144	78786286	276	97668											
POLQ	10721	broad.mit.edu	37	chr3	121187159	121187159	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaacagcacctacctgcccaTgggaagtaggcctttgccta	11	8	9	13	0	0	0	0	0	0	0	0	1	0	1	5	2	5	2	5	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:121187159T>C	uc003eee.3	-	23	6967	c.6838A>G	c.(6838-6840)ATG>GTG	p.M2280V	POLQ_uc003eed.2_Missense_Mutation_p.M1452V	NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	2280					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		TACCTGCCCATGGGAAGTAGG	0.358								DNA_polymerases_(catalytic_subunits)					12	58					0	0	1	0	0		C	121187159	C	C	121187159	3	2	199	1	0	0	0	0	1	0	0	0	12227	1464	51	3	966	3	POLQ	3	121187159	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1951015	121187159	76835271	277	97669											
GOLGB1	2804	broad.mit.edu	37	chr3	121416064	121416064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttatcttgcaaggtctgattCatctgtttgaccagagcctg	8	15	9	9	0	4	3	1	2	3	1	4	3	4	3	2	1	2	2	2	1	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:121416064C>T	uc003eei.3	-	13	3417	c.3291G>A	c.(3289-3291)ATG>ATA	p.M1097I	GOLGB1_uc010hrc.2_Missense_Mutation_p.M1102I|GOLGB1_uc003eej.3_Missense_Mutation_p.M1063I|GOLGB1_uc011bjm.1_Missense_Mutation_p.M983I|GOLGB1_uc010hrd.1_Missense_Mutation_p.M1061I	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1097	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		AGGTCTGATTCATCTGTTTGA	0.393													13	90					0	0	1	0	0		T	121416064	T	T	121416064	3	4	199	1	0	0	0	0	1	0	0	0	6580	826	29	4	6528	4	GOLGB1	3	121416064	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	228905	121416064	76606366	278	97670											
SLC15A2	6565	broad.mit.edu	37	chr3	121641106	121641106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaatatacaataaaccacCccctgaaggaaacatagtgg	19	6	6	10	0	0	1	0	1	0	0	0	2	0	2	3	2	3	0	3	2	10	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:121641106C>T	uc003eep.2	+	8	890	c.737C>T	c.(736-738)CCC>CTC	p.P246L	SLC15A2_uc011bjn.1_Missense_Mutation_p.P215L	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a	246					protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	AATAAACCACCCCCTGAAGGA	0.323													12	69					0	0	1	0	0		T	121641106	T	T	121641106	3	4	199	1	0	0	0	0	1	0	0	0	14424	623	22	4	767	4	SLC15A2	3	121641106	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	225042	121641106	76381324	279	97671											
MYLK	4638	broad.mit.edu	37	chr3	123333139	123333139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtagtctatctggaagtggCgggactccctgattgactgg	7	11	14	9	2	2	2	0	2	2	0	3	4	3	4	1	4	0	1	1	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:123333139C>T	uc003ego.2	-	34	5840	c.5558G>A	c.(5557-5559)CGC>CAC	p.R1853H	uc003egk.2_Intron|MYLK_uc003egl.2_Missense_Mutation_p.R93H|MYLK_uc003egm.2_Missense_Mutation_p.R92H|MYLK_uc010hrr.2_Missense_Mutation_p.R288H|MYLK_uc011bjv.1_Missense_Mutation_p.R653H|MYLK_uc011bjw.1_Missense_Mutation_p.R1852H|MYLK_uc003egp.2_Missense_Mutation_p.R1784H|MYLK_uc003egq.2_Missense_Mutation_p.R1802H|MYLK_uc003egr.2_Missense_Mutation_p.R1733H|MYLK_uc003egs.2_Missense_Mutation_p.R1677H	NM_053025	NP_444253	Q15746	MYLK_HUMAN	myosin light chain kinase isoform 1	1853	Ig-like C2-type 9.				aorta smooth muscle tissue morphogenesis|muscle contraction	cytosol	actin binding|ATP binding|calmodulin binding|metal ion binding|myosin light chain kinase activity			ovary(6)|skin(2)|stomach(1)	9		Lung NSC(201;0.0496)		GBM - Glioblastoma multiforme(114;0.0736)		CTGGAAGTGGCGGGACTCCCT	0.498													19	56					0	0	1	0	0		T	123333139	T	T	123333139	3	4	199	1	0	0	0	0	1	0	0	0	10074	768	27	1	190	1	MYLK	3	123333139	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1692033	123333139	74689291	280	97672											
KALRN	8997	broad.mit.edu	37	chr3	124201667	124201667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcaggagatacaacagCggcatggtctggccaactcc	10	6	11	14	1	1	1	0	0	1	1	2	2	2	1	3	4	5	2	3	4	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:124201667C>T	uc003ehg.2	+	28	4325	c.4198C>T	c.(4198-4200)CGG>TGG	p.R1400W	KALRN_uc010hrv.1_Missense_Mutation_p.R1391W|KALRN_uc003ehf.1_Missense_Mutation_p.R1400W|KALRN_uc011bjy.1_Missense_Mutation_p.R1391W|KALRN_uc003ehh.1_Missense_Mutation_p.R746W	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1400	DH 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GATACAACAGCGGCATGGTCT	0.507													21	89					0	0	1	0	0		T	124201667	T	T	124201667	3	4	199	1	0	0	0	0	1	0	0	0	7991	759	27	1	4308	1	KALRN	3	124201667	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	868528	124201667	73820763	281	97673											
ITGB5	3693	broad.mit.edu	37	chr3	124485176	124485176	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagaaacatagcacagcCtcctggtcatctttcactgg	10	12	8	11	0	3	1	2	0	1	1	4	1	4	1	2	2	3	2	2	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:124485176C>A	uc003eho.2	-	13	2331	c.2034G>T	c.(2032-2034)GAG>GAT	p.E678D	ITGB5_uc010hrx.2_RNA	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	678	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		ATAGCACAGCCTCCTGGTCAT	0.572													13	86					3.45872e-05	3.59874e-05	1	1	0		A	124485176	A	A	124485176	3	1	199	1	0	0	0	0	1	0	0	0	7914	680	24	5	377	5	ITGB5	3	124485176	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	283509	124485176	73537254	282	97674											
HEG1	57493	broad.mit.edu	37	chr3	124731613	124731613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaacgtgaagctgggctgTactctgctgtaacgccaagc	9	8	14	10	2	1	1	0	1	1	0	1	2	1	2	1	2	6	5	1	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:124731613T>C	uc003ehs.3	-	6	2878	c.2810A>G	c.(2809-2811)TAC>TGC	p.Y937C	HEG1_uc011bke.1_Missense_Mutation_p.Y1037C	NM_020733	NP_065784	Q9ULI3	HEG1_HUMAN	HEG homolog 1 precursor	937	Extracellular (Potential).					extracellular region|integral to membrane	calcium ion binding			ovary(2)	2						AGCTGGGCTGTACTCTGCTGT	0.502													5	24					0	0	1	0	0		C	124731613	C	C	124731613	3	2	199	1	0	0	0	0	1	0	0	0	7060	1638	57	3	1383	3	HEG1	3	124731613	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	246437	124731613	73290817	283	97675											
SNX4	8723	broad.mit.edu	37	chr3	125216990	125216990	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaattcactatatcgccgCcatagtgagtctgttaggac	11	12	8	10	2	3	1	2	1	1	0	4	2	3	2	2	1	0	1	2	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:125216990C>T	uc003eib.2	-	3	354	c.312G>A	c.(310-312)TGG>TGA	p.W104*	SNX4_uc011bkf.1_5'UTR	NM_003794	NP_003785	O95219	SNX4_HUMAN	sorting nexin 4	104	PX.				cell communication|endocytic recycling|endocytosis|protein transport	cytoplasmic dynein complex|early endosome membrane	phosphatidylinositol binding|protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4						TATATCGCCGCCATAGTGAGT	0.378													3	53					0	0	1	0	0		T	125216990	T	T	125216990	4	4	199	1	0	0	0	0	0	1	0	0	14929	740	26	2	1088	2	SNX4	3	125216990	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	485377	125216990	72805440	284	97676											
KLF15	28999	broad.mit.edu	37	chr3	126062715	126062715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgcgagcgcctgtgccgcGacagctcgtcagagcgcgag	7	5	16	13	7	1	1	1	0	0	1	2	4	1	1	2	0	5	1	2	0	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:126062715G>A	uc011bkk.1	-	3	1288	c.1106C>T	c.(1105-1107)TCG>TTG	p.S369L		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	369	C2H2-type 2.					nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		CCTGTGCCGCGACAGCTCGTC	0.667													3	11					0	0	1	0	0		A	126062715	A	A	126062715	3	1	199	1	0	0	0	0	1	0	0	0	8359	1059	37	1	148	1	KLF15	3	126062715	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	845725	126062715	71959715	285	97677											
RPN1	6184	broad.mit.edu	37	chr3	128339335	128339335	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttctcattctcaatgtaCgtgtctttcttgagcttgcc	6	17	7	11	1	4	1	2	1	4	0	6	1	4	1	1	0	4	3	1	0	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:128339335C>T	uc003ekr.1	-	10	1819	c.1743G>A	c.(1741-1743)ACG>ACA	p.T581T	RPN1_uc011bkq.1_Silent_p.T409T	NM_002950	NP_002941	P04843	RPN1_HUMAN	ribophorin I precursor	581	Cytoplasmic (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|melanosome|oligosaccharyltransferase complex|rough microsome	dolichyl-diphosphooligosaccharide-protein glycotransferase activity|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(114;0.189)		TCTCAATGTACGTGTCTTTCT	0.577			T	EVI1	AML								18	58					0	0	1	0	0		T	128339335	T	T	128339335	2	4	199	1	0	0	0	0	0	0	0	1	13632	523	19	1		1	RPN1	3	128339335	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2276620	128339335	69683095	286	97678											
IFT122	55764	broad.mit.edu	37	chr3	129239022	129239022	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctgtcttcccttagatgTtccattctgaggactatgag	8	14	9	10	0	2	3	0	2	2	1	4	4	4	4	2	1	1	2	2	1	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:129239022T>G	uc003emm.2	+	30	3846	c.3640T>G	c.(3640-3642)TTC>GTC	p.F1214V	IFT122_uc003eml.2_Missense_Mutation_p.F1265V|IFT122_uc003emn.2_Missense_Mutation_p.F1155V|IFT122_uc003emo.2_Missense_Mutation_p.F1104V|IFT122_uc003emp.2_Missense_Mutation_p.F1064V|IFT122_uc010htc.2_Missense_Mutation_p.F1207V|IFT122_uc011bky.1_Missense_Mutation_p.F1005V|IFT122_uc003emq.2_Missense_Mutation_p.F1054V|IFT122_uc003emr.2_Missense_Mutation_p.F967V|IFT122_uc011bla.1_Missense_Mutation_p.F988V|IFT122_uc010hte.2_Missense_Mutation_p.F540V|IFT122_uc003ems.2_Missense_Mutation_p.F596V	NM_052989	NP_443715	Q9HBG6	IF122_HUMAN	WD repeat domain 10 isoform 2	1214					camera-type eye morphogenesis|cilium morphogenesis|embryonic body morphogenesis|embryonic heart tube development|limb development|neural tube closure	microtubule basal body|photoreceptor connecting cilium				ovary(1)|skin(1)	2						CCCTTAGATGTTCCATTCTGA	0.602													5	24					0	0	1	0	0		G	129239022	G	G	129239022	3	3	199	1	0	0	0	0	1	0	0	0	7571	1725	60	5	3918	5	IFT122	3	129239022	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	899687	129239022	68783408	287	97679											
PLXND1	23129	broad.mit.edu	37	chr3	129282078	129282078	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagaatggctcccccacCgtctcctgaggggcacgggg	8	5	15	13	2	1	2	0	1	1	1	3	3	2	3	4	6	0	2	4	6	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:129282078C>T	uc003emx.2	-	26	4627	c.4527G>A	c.(4525-4527)ACG>ACA	p.T1509T	PLXND1_uc011blb.1_Silent_p.T177T	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1509	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GCTCCCCCACCGTCTCCTGAG	0.627													4	8					0	0	1	0	0		T	129282078	T	T	129282078	2	4	199	1	0	0	0	0	0	0	0	1	12146	639	23	1		1	PLXND1	3	129282078	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	43056	129282078	68740352	288	97680											
NEK11	79858	broad.mit.edu	37	chr3	130992390	130992390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caattttcaacagtgtgatgGccaggaccaagatgaaacgc	14	8	10	9	1	1	3	1	2	0	1	1	4	1	4	2	2	2	0	2	2	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:130992390G>A	uc003eny.2	+	17	2016	c.1690G>A	c.(1690-1692)GCC>ACC	p.A564T	NEK11_uc003eoa.2_Intron|NEK11_uc003enz.2_Missense_Mutation_p.A382T|NEK11_uc010htn.2_RNA|NEK11_uc011blk.1_Missense_Mutation_p.A380T|NEK11_uc011bll.1_Missense_Mutation_p.A459T	NM_024800	NP_079076	Q8NG66	NEK11_HUMAN	NIMA-related kinase 11 isoform 1	564					cell cycle|intra-S DNA damage checkpoint|intracellular protein kinase cascade	nucleolus	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(4)|stomach(1)|central_nervous_system(1)	6						CAGTGTGATGGCCAGGACCAA	0.488													12	45					0	0	1	0	0		A	130992390	A	A	130992390	3	1	199	1	0	0	0	0	1	0	0	0	10342	1203	42	2	1766	2	NEK11	3	130992390	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1710312	130992390	67030040	289	97681											
SLCO2A1	6578	broad.mit.edu	37	chr3	133698394	133698394	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcttctcaatggtggtgagGctgctcttgaagtaggcgct	6	12	14	9	2	2	2	1	2	2	0	3	2	2	2	0	4	1	5	0	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:133698394G>A	uc003eqa.3	-	2	439	c.165C>T	c.(163-165)AGC>AGT	p.S55S	SLCO2A1_uc003eqb.3_Silent_p.S55S|SLCO2A1_uc011blv.1_Silent_p.S55S|SLCO2A1_uc010htw.1_5'UTR	NM_005630	NP_005621	Q92959	SO2A1_HUMAN	solute carrier organic anion transporter family,	55	Extracellular (Potential).				sodium-independent organic anion transport	integral to plasma membrane|membrane fraction	prostaglandin transmembrane transporter activity|protein binding			central_nervous_system(1)	1						TGGTGGTGAGGCTGCTCTTGA	0.562													4	59					0	0	1	0	0		A	133698394	A	A	133698394	2	1	199	1	0	0	0	0	0	0	0	1	14751	1194	42	2		2	SLCO2A1	3	133698394	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2706004	133698394	64324036	290	97682											
EPHB1	2047	broad.mit.edu	37	chr3	134884866	134884866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgattgctggctcggcagcgGccggggtcgtgttcgttgtg	2	12	18	9	5	0	1	0	1	0	0	3	1	0	1	1	5	2	5	1	5	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:134884866G>A	uc003eqt.2	+	8	1862	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T	EPHB1_uc003equ.2_Missense_Mutation_p.A109T	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	548	Helical; (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						CTCGGCAGCGGCCGGGGTCGT	0.567													25	106					0	0	1	0	0		A	134884866	A	A	134884866	3	1	199	1	0	0	0	0	1	0	0	0	5182	1203	42	2	1672	2	EPHB1	3	134884866	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1186472	134884866	63137564	291	97683											
MSL2	55167	broad.mit.edu	37	chr3	135871374	135871374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgcttctattatatcccGtgccagtgtagtctgtgtta	8	16	8	9	1	2	0	0	0	2	0	3	0	3	0	2	0	3	3	2	0	6	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:135871374G>A	uc003eqx.1	-	2	1082	c.349C>T	c.(349-351)CGG>TGG	p.R117W	MSL2_uc011bmb.1_Missense_Mutation_p.R43W	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	117					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						ATTATATCCCGTGCCAGTGTA	0.388													22	117					0	0	1	0	0		A	135871374	A	A	135871374	3	1	199	1	0	0	0	0	1	0	0	0	9896	1144	40	1	1388	1	MSL2	3	135871374	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	986508	135871374	62151056	292	97684											
ZIC1	7545	broad.mit.edu	37	chr3	147127972	147127972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgtcccgccaccactccGcgggcgacgtggccgaacga	6	3	14	18	9	0	0	0	0	0	0	2	3	2	0	5	2	1	0	5	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:147127972G>A	uc003ewe.2	+	1	792	c.73G>A	c.(73-75)GCG>ACG	p.A25T		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	25					behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCACCACTCCGCGGGCGACGT	0.711													4	41					0	0	1	0	0		A	147127972	A	A	147127972	3	1	199	1	0	0	0	0	1	0	0	0	17703	1087	38	1	75	1	ZIC1	3	147127972	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	11256598	147127972	50894458	293	97685											
ZIC1	7545	broad.mit.edu	37	chr3	147128612	147128612	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccgagcagctggccaaccCcaaaaagtcgtgcaacaaaa	15	3	9	14	2	0	0	0	0	0	0	1	1	0	0	4	1	5	3	4	1	6	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:147128612C>A	uc003ewe.2	+	1	1432	c.713C>A	c.(712-714)CCC>CAC	p.P238H		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	238	C2H2-type 1; atypical.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CTGGCCAACCCCAAAAAGTCG	0.592													8	33					3.09899e-07	3.30183e-07	1	1	0		A	147128612	A	A	147128612	3	1	199	1	0	0	0	0	1	0	0	0	17703	623	22	5	715	5	ZIC1	3	147128612	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	640	147128612	50893818	294	97686											
TIPARP	25976	broad.mit.edu	37	chr3	156422868	156422868	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaatgatgaccagagttAcccttattttgttatccaat	11	18	5	7	0	0	3	0	2	0	1	1	3	1	3	3	0	1	2	3	0	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:156422868A>G	uc003fav.2	+	6	2170	c.1922A>G	c.(1921-1923)TAC>TGC	p.Y641C	TIPARP_uc003faw.2_Missense_Mutation_p.Y641C	NM_015508	NP_056323	Q7Z3E1	PARPT_HUMAN	TCDD-inducible poly(ADP-ribose) polymerase	641	PARP catalytic.						NAD+ ADP-ribosyltransferase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|breast(1)	2			LUSC - Lung squamous cell carcinoma(72;0.0461)|Lung(72;0.0465)			GACCAGAGTTACCCTTATTTT	0.204													19	73					0	0	1	0	0		G	156422868	G	G	156422868	3	3	199	1	0	0	0	0	1	0	0	0	15949	391	14	3	1940	3	TIPARP	3	156422868	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	9294256	156422868	41599562	295	97687											
IFT80	57560	broad.mit.edu	37	chr3	160018781	160018781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attttggagatgaaataaagCgcccttcatatgaatataaa	17	12	7	5	1	1	3	1	2	0	1	1	4	1	3	1	1	1	0	1	1	8	7	rs147955112		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:160018781C>T	uc011boy.1	-	12	1638	c.1205G>A	c.(1204-1206)CGC>CAC	p.R402H	IFT80_uc003fda.2_RNA|IFT80_uc003fdb.1_Missense_Mutation_p.R265H|IFT80_uc003fdd.1_Missense_Mutation_p.R85H|IFT80_uc003fde.1_Missense_Mutation_p.R265H	NM_020800	NP_065851	Q9P2H3	IFT80_HUMAN	WD repeat domain 56	402						cilium axoneme|microtubule basal body				ovary(1)	1			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TGAAATAAAGCGCCCTTCATA	0.313													8	48					0	0	1	0	0		T	160018781	T	T	160018781	3	4	199	1	0	0	0	0	1	0	0	0	7580	768	27	1	1164	1	IFT80	3	160018781	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3595913	160018781	38003649	296	97688											
PHC3	80012	broad.mit.edu	37	chr3	169896574	169896574	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaatacctgtacagcatgtCggtctgaaccactgtagaca	13	9	9	10	1	1	2	0	1	1	1	2	3	1	2	2	1	4	3	2	1	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:169896574C>T	uc010hws.1	-	2	195	c.131G>A	c.(130-132)CGA>CAA	p.R44Q	PHC3_uc003fgl.2_Missense_Mutation_p.R56Q|PHC3_uc011bpq.1_Missense_Mutation_p.R56Q|PHC3_uc011bpr.1_Missense_Mutation_p.R56Q|PHC3_uc003fgm.2_Missense_Mutation_p.R56Q|PHC3_uc003fgo.1_Missense_Mutation_p.R44Q|PHC3_uc003fgp.3_Missense_Mutation_p.R56Q|PHC3_uc003fgq.3_Missense_Mutation_p.R56Q|PHC3_uc003fgr.1_RNA	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	44					multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			TACAGCATGTCGGTCTGAACC	0.363													30	195					0	0	1	0	0		T	169896574	T	T	169896574	3	4	199	1	0	0	0	0	1	0	0	0	11837	884	31	1	2876	1	PHC3	3	169896574	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9877793	169896574	28125856	297	97689											
SLC7A14	57709	broad.mit.edu	37	chr3	170201192	170201192	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgactgtcagtcctgcaacCgacccaatggccactacgaa	11	7	8	15	2	1	1	1	1	0	0	2	3	2	1	4	1	3	1	4	1	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:170201192C>T	uc003fgz.2	-	6	1342	c.1026G>A	c.(1024-1026)TCG>TCA	p.S342S	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	342	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			GTCCTGCAACCGACCCAATGG	0.527											OREG0015917	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	90					0	0	1	0	0		T	170201192	T	T	170201192	2	4	199	1	0	0	0	0	0	0	0	1	14721	639	23	1		1	SLC7A14	3	170201192	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	304618	170201192	27821238	298	97690											
FNDC3B	64778	broad.mit.edu	37	chr3	171965513	171965513	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taccggacctggagatatgcCgcctcagttttttccccagc	7	11	9	14	2	1	1	1	0	0	1	2	3	2	2	6	2	3	1	6	2	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:171965513C>T	uc003fhy.2	+	5	627	c.455C>T	c.(454-456)CCG>CTG	p.P152L	FNDC3B_uc003fhz.3_Missense_Mutation_p.P152L|FNDC3B_uc003fia.2_Missense_Mutation_p.P83L	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B	152						endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	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)		GGAGATATGCCGCCTCAGTTT	0.483													31	111					0	0	1	0	0		T	171965513	T	T	171965513	3	4	199	1	0	0	0	0	1	0	0	0	5984	652	23	1	469	1	FNDC3B	3	171965513	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1764321	171965513	26056917	299	97691											
PIK3CA	5290	broad.mit.edu	37	chr3	178916891	178916891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagacgactttgtgaccttcGgctttttcaaccctttttaa	9	16	6	10	2	1	2	1	1	0	1	2	3	1	2	2	1	1	1	2	1	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:178916891G>A	uc003fjk.2	+	2	435	c.278G>A	c.(277-279)CGG>CAG	p.R93Q		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	93	PI3K-ABD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R93W(5)|p.R93Q(3)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGTGACCTTCGGCTTTTTCAA	0.343		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			14	58					0	0	1	0	0		A	178916891	A	A	178916891	3	1	199	1	0	0	0	0	1	0	0	0	11932	1116	39	1	280	1	PIK3CA	3	178916891	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6951378	178916891	19105539	300	97692											
MFN1	55669	broad.mit.edu	37	chr3	179076708	179076708	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggattggccatataaccaAttgcttcctaagtgttgaag	11	13	10	7	0	0	1	0	1	0	0	1	2	1	2	3	2	2	2	3	2	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:179076708A>G	uc003fjs.2	+	4	455	c.329A>G	c.(328-330)AAT>AGT	p.N110S	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Missense_Mutation_p.N138S	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	110	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			CATATAACCAATTGCTTCCTA	0.383													16	59					0	0	1	0	0		G	179076708	G	G	179076708	3	3	199	1	0	0	0	0	1	0	0	0	9541	101	4	3	339	3	MFN1	3	179076708	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	159817	179076708	18945722	301	97693											
LAMP3	27074	broad.mit.edu	37	chr3	182870290	182870290	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtatctccgaggtgaaaaaAcctaaatcaagttagataga	18	9	8	6	1	2	3	1	1	1	2	3	4	2	3	2	1	1	2	2	1	9	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:182870290A>C	uc003flh.3	-	3	985	c.761T>G	c.(760-762)GTT>GGT	p.V254G		NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3	254	Lumenal (Potential).				cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			AGGTGAAAAAACCTAAATCAA	0.458													38	136					0	0	1	0	0		C	182870290	C	C	182870290	3	2	199	1	0	0	0	0	1	0	0	0	8635	57	2	5	505	5	LAMP3	3	182870290	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3793582	182870290	15152140	302	97694											
MCF2L2	23101	broad.mit.edu	37	chr3	183041028	183041028	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taagctggtactcacagtgcGgtgatttacccactgaccgt	9	11	10	11	2	1	2	1	2	0	0	1	2	1	2	2	2	4	2	2	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:183041028G>T	uc003fli.1	-	6	688	c.598C>A	c.(598-600)CGC>AGC	p.R200S	MCF2L2_uc003flj.1_Missense_Mutation_p.R200S|MCF2L2_uc003flp.1_Missense_Mutation_p.R235S	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	200					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CTCACAGTGCGGTGATTTACC	0.512													18	82					8.28177e-16	9.20546e-16	1	1	0		T	183041028	T	T	183041028	3	4	199	1	0	0	0	0	1	0	0	0	9398	1116	39	5	2846	5	MCF2L2	3	183041028	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	170738	183041028	14981402	303	97695											
ATP13A4	84239	broad.mit.edu	37	chr3	193220287	193220287	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cataagtttacttacctttaGgtctggctttcttatggctc	7	18	7	9	0	2	0	0	0	2	0	3	0	2	0	1	3	2	3	1	3	5	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:193220287G>T	uc003ftd.2	-	3	484	c.376C>A	c.(376-378)CTA>ATA	p.L126I	ATP13A4_uc003fte.1_Missense_Mutation_p.L126I|ATP13A4_uc011bsr.1_5'UTR	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	126	Extracellular (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		CTTACCTTTAGGTCTGGCTTT	0.413													13	79					3.27435e-08	3.52715e-08	1	1	0		T	193220287	T	T	193220287	3	4	199	1	0	0	0	0	1	0	0	0	1127	991	35	5	3326	5	ATP13A4	3	193220287	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10179259	193220287	4802143	304	97696											
MUC20	200958	broad.mit.edu	37	chr3	195452850	195452850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtccacctccgatccacCagctctgcctgactccactg	6	9	6	20	2	1	1	0	1	1	0	6	2	5	1	7	0	2	1	7	0	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:195452850C>T	uc010hzo.2	+	3	989	c.863C>T	c.(862-864)CCA>CTA	p.P288L	MUC20_uc010hzp.2_Missense_Mutation_p.P253L|MUC20_uc011bte.1_RNA	NM_152673	NP_689886	Q8N307	MUC20_HUMAN	mucin 20 isoform L	459	Involved in oligomerization.				protein homooligomerization	apical plasma membrane|basal plasma membrane|extracellular region|microvillus membrane					0	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)		TCCGATCCACCAGCTCTGCCT	0.577													4	20					0	0	1	0	0		T	195452850	T	T	195452850	3	4	199	1	0	0	0	0	1	0	0	0	9994	594	21	4	873	4	MUC20	3	195452850	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2232563	195452850	2569580	305	97697											
MUC4	4585	broad.mit.edu	37	chr3	195495991	195495991	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcataggacctgctcccGtccgtggagaggatggcttg	7	8	16	10	2	0	1	0	0	0	1	2	4	2	3	3	5	1	3	3	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr3:195495991G>A	uc011bto.1	-	8	13507	c.13047C>T	c.(13045-13047)GAC>GAT	p.D4349D	MUC4_uc003fuz.2_Missense_Mutation_p.T105M|MUC4_uc003fva.2_Translation_Start_Site|MUC4_uc003fvb.2_Missense_Mutation_p.T23M|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.T23M|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Translation_Start_Site|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.D41D|MUC4_uc011bti.1_Silent_p.D41D|MUC4_uc011btj.1_Silent_p.D218D|MUC4_uc011btk.1_Translation_Start_Site|MUC4_uc011btl.1_Translation_Start_Site|MUC4_uc011btm.1_Silent_p.D166D|MUC4_uc011btn.1_Translation_Start_Site|MUC4_uc003fvo.2_Silent_p.D241D|MUC4_uc003fvp.2_Silent_p.D190D|MUC4_uc010hzu.1_Silent_p.D1089D	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1234	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		ACCTGCTCCCGTCCGTGGAGA	0.612													6	27					0	0	1	0	0		A	195495991	A	A	195495991	2	1	199	1	0	0	0	0	0	0	0	1	9996	1136	40	1		1	MUC4	3	195495991	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	43141	195495991	2526439	306	97698											
TMEM175	84286	broad.mit.edu	37	chr4	951785	951785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatgtgcgcaaggccacgcGggccatggggctgctgaaca	8	5	16	12	3	0	1	0	1	0	0	0	1	0	1	2	4	3	4	2	4	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:951785G>A	uc003gbq.2	+	11	1114	c.1016G>A	c.(1015-1017)CGG>CAG	p.R339Q	TMEM175_uc003gbr.2_Missense_Mutation_p.R257Q|TMEM175_uc003gbu.2_Missense_Mutation_p.R257Q|TMEM175_uc003gbs.2_Missense_Mutation_p.R222Q|TMEM175_uc003gbt.2_Missense_Mutation_p.R222Q|TMEM175_uc003gbv.2_Missense_Mutation_p.R222Q|TMEM175_uc010ibm.2_Missense_Mutation_p.R155Q	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	339						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			AAGGCCACGCGGGCCATGGGG	0.682													8	26					0	0	1	0	0		A	951785	A	A	951785	3	1	199	1	0	0	0	0	1	0	0	0	16116	1116	39	1	1054	1	TMEM175	4	951785	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		951785	190202491	307	97699											
FAM193A	8603	broad.mit.edu	37	chr4	2648497	2648497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgttccgaggaggagctgCgcagagtcgccgaggagtgg	8	5	19	9	5	0	1	0	0	0	1	2	6	1	4	2	4	3	3	2	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:2648497C>T	uc010icl.2	+	5	727	c.376C>T	c.(376-378)CGC>TGC	p.R126C	FAM193A_uc010ick.2_Missense_Mutation_p.R326C|FAM193A_uc003gfd.2_Missense_Mutation_p.R126C|FAM193A_uc011bvm.1_Missense_Mutation_p.R126C|FAM193A_uc011bvn.1_Missense_Mutation_p.R126C|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	126	Potential.									ovary(3)	3						GGAGGAGCTGCGCAGAGTCGC	0.622													17	73					0	0	1	0	0		T	2648497	T	T	2648497	3	4	199	1	0	0	0	0	1	0	0	0	5535	768	27	1	386	1	FAM193A	4	2648497	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1696712	2648497	188505779	308	97700											
LYAR	55646	broad.mit.edu	37	chr4	4283517	4283517	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagagacgttacctgaatcCacgcctgctgtttgatgtcg	9	11	11	10	3	0	4	0	2	0	2	2	5	1	4	3	0	2	3	3	0	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:4283517C>A	uc011bvy.1	-	4	373	c.230G>T	c.(229-231)TGG>TTG	p.W77L	LYAR_uc011bvx.1_5'Flank|LYAR_uc003ght.2_Missense_Mutation_p.W77L	NM_001145725	NP_001139197	Q9NX58	LYAR_HUMAN	Ly1 antibody reactive homolog	77						nucleolus	metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		TACCTGAATCCACGCCTGCTG	0.448													25	126					1.88708e-17	2.10554e-17	1	1	0		A	4283517	A	A	4283517	3	1	199	1	0	0	0	0	1	0	0	0	9121	595	21	5	937	5	LYAR	4	4283517	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1635020	4283517	186870759	309	97701											
D4S234E	27065	broad.mit.edu	37	chr4	4411342	4411342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggccttcctcacctgcGtcgtcttcctggttgtctac	2	14	8	17	2	3	0	1	0	2	0	6	0	5	0	5	2	2	1	5	2	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:4411342G>A	uc011bvz.1	+	7	1570	c.289G>A	c.(289-291)GTC>ATC	p.V97I	D4S234E_uc011bwa.1_Missense_Mutation_p.V58I|D4S234E_uc003ghz.2_Missense_Mutation_p.V97I|D4S234E_uc003gia.2_Missense_Mutation_p.V97I|D4S234E_uc003gib.2_Missense_Mutation_p.V97I	NM_014392	NP_055207	P42857	NSG1_HUMAN	brain neuron cytoplasmic protein 1	97	Helical; Signal-anchor for type II membrane protein; (Potential).				dopamine receptor signaling pathway	Golgi membrane|integral to membrane|nucleus	dopamine receptor binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.166)		CCTCACCTGCGTCGTCTTCCT	0.612													17	78					0	0	1	0	0		A	4411342	A	A	4411342	3	1	199	1	0	0	0	0	1	0	0	0	4217	1145	40	1	299	1	D4S234E	4	4411342	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	127825	4411342	186742934	310	97702											
CRMP1	1400	broad.mit.edu	37	chr4	5838617	5838617	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggacagtggccgctgcctgTgacctgcaagtccccactgg	6	7	14	14	1	0	1	0	1	0	0	1	2	1	2	5	3	2	2	5	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:5838617T>C	uc003gip.2	-	11	1086	c.985A>G	c.(985-987)ACA>GCA	p.T329A	CRMP1_uc003gin.1_Missense_Mutation_p.T241A|CRMP1_uc003giq.2_Missense_Mutation_p.T329A|CRMP1_uc003gir.2_Missense_Mutation_p.T324A|CRMP1_uc003gis.2_Missense_Mutation_p.T443A	NM_001313	NP_001304	Q14194	DPYL1_HUMAN	collapsin response mediator protein 1 isoform 2	329					axon guidance|pyrimidine base catabolic process	cytosol|microtubule organizing center|spindle	dihydropyrimidinase activity|protein binding			ovary(2)	2				Colorectal(103;0.0721)		CCGCTGCCTGTGACCTGCAAG	0.547													14	64					0	0	1	0	0		C	5838617	C	C	5838617	3	2	199	1	0	0	0	0	1	0	0	0	3893	1696	59	3	753	3	CRMP1	4	5838617	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1427275	5838617	185315659	311	97703											
SORCS2	57537	broad.mit.edu	37	chr4	7194811	7194811	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctcaagggggacgcgacGcacaaccaggcgatggtgca	10	4	16	11	4	1	0	1	0	0	0	1	3	1	1	1	4	3	3	1	4	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:7194811G>A	uc003gkb.3	+	1	438	c.438G>A	c.(436-438)ACG>ACA	p.T146T		NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor	146	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						GGGACGCGACGCACAACCAGG	0.726													4	22					0	0	1	0	0		A	7194811	A	A	7194811	2	1	199	1	0	0	0	0	0	0	0	1	14956	1074	38	1		1	SORCS2	4	7194811	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1356194	7194811	183959465	312	97704											
GPR125	166647	broad.mit.edu	37	chr4	22425931	22425931	+	Silent	SNP	A	G	G	1	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	agccacaggacacgttcatcAgccaacatgatgttacttgc	12	9	8	12	1	2	1	2	1	0	0	2	2	2	2	2	1	5	2	2	1	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:22425931A>G	uc003gqm.1	-	11	1753	c.1488T>C	c.(1486-1488)GCT>GCC	p.A496A	GPR125_uc010ieo.1_Silent_p.A370A|GPR125_uc003gqn.1_Silent_p.A270A|GPR125_uc003gqo.2_Silent_p.A496A	NM_145290	NP_660333	Q8IWK6	GP125_HUMAN	G protein-coupled receptor 125 precursor	496	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	G-protein coupled receptor activity			skin(1)	1		Breast(46;0.198)				CACGTTCATCAGCCAACATGA	0.488													16	84					0	0	1	0	0		G	22425931	G	G	22425931	2	3	199	1	0	0	0	0	0	0	0	1	6654	175	7	3		3	GPR125	4	22425931	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	15231120	22425931	168728345	313	97705											
PPARGC1A	10891	broad.mit.edu	37	chr4	23815680	23815680	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accggtcttgtctgcttcgtCgtcaaaaacagcttgactgg	8	12	10	11	3	3	1	1	1	2	0	5	1	3	1	1	2	3	2	1	2	2	3	rs143142906		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:23815680C>T	uc003gqs.2	-	8	1546	c.1426G>A	c.(1426-1428)GAC>AAC	p.D476N	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	476					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)				TCTGCTTCGTCGTCAAAAACA	0.473													8	60					0	0	1	0	0		T	23815680	T	T	23815680	3	4	199	1	0	0	0	0	1	0	0	0	12319	884	31	1	994	1	PPARGC1A	4	23815680	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1389749	23815680	167338596	314	97706											
ARAP2	116984	broad.mit.edu	37	chr4	36121278	36121278	+	Silent	SNP	G	A	A	0	0	1	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	ctattactactcacttgggtGtctttccacttggtaataaa	10	16	6	9	0	2	0	1	0	1	0	3	0	3	0	1	2	2	1	1	2	6	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:36121278G>A	uc003gsq.1	-	24	4295	c.3957C>T	c.(3955-3957)GAC>GAT	p.D1319D		NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	1319					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytosol	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						TCACTTGGGTGTCTTTCCACT	0.294													11	101					0	0	1	0	0		A	36121278	A	A	36121278	2	1	199	1	0	0	0	0	0	0	0	1	839	1368	48	4		4	ARAP2	4	36121278	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	12305598	36121278	155032998	315	97707											
KLF3	51274	broad.mit.edu	37	chr4	38691351	38691351	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttctatttttattttttagtAcctgtaattgaatcatatga	11	22	4	4	0	2	2	1	2	1	0	2	2	2	2	1	0	1	2	1	0	7	12			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:38691351A>G	uc003gth.3	+	4	878	c.546A>G	c.(544-546)GTA>GTG	p.V182V	KLF3_uc003gtg.2_Silent_p.V182V	NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	182	Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						ATTTTTTAGTACCTGTAATTG	0.328													4	29					0	0	1	0	0		G	38691351	G	G	38691351	2	3	199	1	0	0	0	0	0	0	0	1	8363	405	14	3		3	KLF3	4	38691351	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2570073	38691351	152462925	316	97708											
KLF3	51274	broad.mit.edu	37	chr4	38698754	38698754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcacatggaagtttgctcGgtctgatgaactaacaagac	12	10	11	8	1	1	3	0	2	1	1	2	4	1	4	0	2	4	3	0	2	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:38698754G>A	uc003gth.3	+	6	1240	c.908G>A	c.(907-909)CGG>CAG	p.R303Q		NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	303	C2H2-type 2.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						AAGTTTGCTCGGTCTGATGAA	0.433													11	81					0	0	1	0	0		A	38698754	A	A	38698754	3	1	199	1	0	0	0	0	1	0	0	0	8363	1116	39	1	926	1	KLF3	4	38698754	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7403	38698754	152455522	317	97709											
FAM114A1	92689	broad.mit.edu	37	chr4	38933860	38933860	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtctattcatttcaggaagTatacatgtcgtccattgaaa	12	15	7	7	1	3	1	2	1	1	0	5	2	4	2	1	1	1	1	1	1	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:38933860T>C	uc003gtn.2	+	12	1504	c.1328T>C	c.(1327-1329)GTA>GCA	p.V443A	FAM114A1_uc011byh.1_Missense_Mutation_p.V236A|FAM114A1_uc010ifi.2_Missense_Mutation_p.V101A	NM_138389	NP_612398	Q8IWE2	NXP20_HUMAN	hypothetical protein LOC92689	443						cytoplasm				ovary(1)	1						TTTCAGGAAGTATACATGTCG	0.353													11	43					0	0	1	0	0		C	38933860	C	C	38933860	3	2	199	1	0	0	0	0	1	0	0	0	5414	1638	57	3	1366	3	FAM114A1	4	38933860	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	235106	38933860	152220416	318	97710											
APBB2	323	broad.mit.edu	37	chr4	40832535	40832535	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttttgctggtgtgtcacatCgaaatacatgacatttcaaa	12	14	7	8	1	2	1	2	1	0	0	3	2	2	1	0	1	2	1	0	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:40832535C>T	uc003gvl.2	-	13	2216	c.1586G>A	c.(1585-1587)CGA>CAA	p.R529Q	APBB2_uc010ifu.2_Missense_Mutation_p.R101Q|APBB2_uc003gvm.2_Missense_Mutation_p.R508Q|APBB2_uc003gvn.2_Missense_Mutation_p.R530Q|APBB2_uc003gvk.2_5'UTR	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	529	PID 1.				cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						TGTGTCACATCGAAATACATG	0.428													11	74					0	0	1	0	0		T	40832535	T	T	40832535	3	4	199	1	0	0	0	0	1	0	0	0	761	884	31	1	714	1	APBB2	4	40832535	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1898675	40832535	150321741	319	97711											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984155	41984155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttcgttccacgtgtacGtgctcagaaacctctacgtc	7	12	7	15	4	2	1	1	0	1	1	6	1	4	1	3	0	4	3	3	0	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:41984155G>A	uc003gwk.2	+	1	443	c.346G>A	c.(346-348)GTG>ATG	p.V116M		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	116										skin(1)	1						CCACGTGTACGTGCTCAGAAA	0.562													17	66					0	0	1	0	0		A	41984155	A	A	41984155	3	1	199	1	0	0	0	0	1	0	0	0	4274	1145	40	1	348	1	DCAF4L1	4	41984155	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1151620	41984155	149170121	320	97712											
SLC30A9	10463	broad.mit.edu	37	chr4	42072645	42072645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagaagcactcttagggcGgtccatccagccagaacaag	13	5	10	13	1	1	2	0	0	1	2	3	2	3	2	3	2	3	1	3	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:42072645G>A	uc003gwl.2	+	15	1501	c.1355G>A	c.(1354-1356)CGG>CAG	p.R452Q	SLC30A9_uc011byx.1_Missense_Mutation_p.R212Q	NM_006345	NP_006336	Q6PML9	ZNT9_HUMAN	solute carrier family 30 (zinc transporter),	452					nucleotide-excision repair|zinc ion transport	cytoskeleton|integral to membrane|nucleus	cation transmembrane transporter activity|nucleotide binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)	3						CTCTTAGGGCGGTCCATCCAG	0.478													10	34					0	0	1	0	0		A	42072645	A	A	42072645	3	1	199	1	0	0	0	0	1	0	0	0	14587	1116	39	1	1413	1	SLC30A9	4	42072645	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	88490	42072645	149081631	321	97713											
GABRG1	2565	broad.mit.edu	37	chr4	46125887	46125887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccctctactttgactcCgcagaagaaaaggggagaag	13	7	10	11	1	2	4	1	1	1	3	3	5	3	4	3	2	1	1	3	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:46125887C>T	uc003gxb.2	-	1	196	c.44G>A	c.(43-45)CGG>CAG	p.R15Q		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	15					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		ACTTTGACTCCGCAGAAGAAA	0.448													7	41					0	0	1	0	0		T	46125887	T	T	46125887	3	4	199	1	0	0	0	0	1	0	0	0	6185	652	23	1	1389	1	GABRG1	4	46125887	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4053242	46125887	145028389	322	97714											
FRYL	285527	broad.mit.edu	37	chr4	48572868	48572868	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gactaatgacaccagcatctGccagcagttcaaatattcgt	13	10	7	11	1	2	1	1	1	1	0	3	2	2	1	2	0	3	3	2	0	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:48572868G>A	uc003gyh.1	-	27	3577	c.2972C>T	c.(2971-2973)GCA>GTA	p.A991V	FRYL_uc003gyk.2_Missense_Mutation_p.A991V	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	991					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						ACCAGCATCTGCCAGCAGTTC	0.378													5	76					0	0	1	0	0		A	48572868	A	A	48572868	3	1	199	1	0	0	0	0	1	0	0	0	6078	1319	46	2	6221	2	FRYL	4	48572868	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2446981	48572868	142581408	323	97715											
FRYL	285527	broad.mit.edu	37	chr4	48588698	48588698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggaatcaaccttggaatcGcagcaatacaagttctaaac	16	8	7	10	1	2	0	1	0	1	0	3	2	2	2	1	2	4	3	1	2	8	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:48588698G>A	uc003gyh.1	-	19	2293	c.1688C>T	c.(1687-1689)GCG>GTG	p.A563V	FRYL_uc003gyk.2_Missense_Mutation_p.A563V	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	563					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						CCTTGGAATCGCAGCAATACA	0.343													27	101					0	0	1	0	0		A	48588698	A	A	48588698	3	1	199	1	0	0	0	0	1	0	0	0	6078	1087	38	1	7537	1	FRYL	4	48588698	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	15830	48588698	142565578	324	97716											
PDGFRA	5156	broad.mit.edu	37	chr4	55133541	55133541	+	Missense_Mutation	SNP	T	C	C	0	1	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	gacggtccccgaggccacggTgaaagacagtggagattacg	11	5	15	10	4	0	3	0	1	0	2	1	6	1	3	3	4	1	0	3	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:55133541T>C	uc003han.3	+	6	1176	c.845T>C	c.(844-846)GTG>GCG	p.V282A	PDGFRA_uc003haa.2_Intron|PDGFRA_uc010igq.1_Missense_Mutation_p.V176A|PDGFRA_uc003ham.2_RNA	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	282	Ig-like C2-type 3.|Extracellular (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	GAGGCCACGGTGAAAGACAGT	0.483			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			14	54					0	0	1	0	0		C	55133541	C	C	55133541	3	2	199	1	0	0	0	0	1	0	0	0	11680	1696	59	3	863	3	PDGFRA	4	55133541	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	6544843	55133541	136020735	325	97717											
SRP72	6731	broad.mit.edu	37	chr4	57335866	57335866	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgccctgcattgtaaagtgGtatgccttatccagaatgga	10	12	10	9	0	0	1	0	0	0	1	1	2	1	2	3	2	3	3	3	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:57335866G>A	uc003hbv.2	+	2	197	c.157G>A	c.(157-159)GTA>ATA	p.V53I	SRP72_uc010ihe.2_Missense_Mutation_p.V53I	NM_006947	NP_008878	O76094	SRP72_HUMAN	signal recognition particle 72kDa	53					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|nucleolus|plasma membrane|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding|signal recognition particle binding			ovary(1)	1	Glioma(25;0.08)|all_neural(26;0.101)					TTGTAAAGTGGTATGCCTTAT	0.358													22	84					0	0	1	0	0		A	57335866	A	A	57335866	3	1	199	1	0	0	0	0	1	0	0	0	15182	1261	44	4	163	4	SRP72	4	57335866	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2202325	57335866	133818410	326	97718											
LPHN3	23284	broad.mit.edu	37	chr4	62758566	62758566	+	Missense_Mutation	SNP	A	G	G	1	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	ccttccatcagcatcgtcccAaatcccagctctcgaagaga	11	8	6	16	2	2	1	1	0	1	1	7	3	5	1	4	0	2	2	4	0	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:62758566A>G	uc010ihh.2	+	7	1642	c.1469A>G	c.(1468-1470)CAA>CGA	p.Q490R	LPHN3_uc003hcq.3_Missense_Mutation_p.Q490R|LPHN3_uc003hcs.1_Missense_Mutation_p.Q319R	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	490	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GCATCGTCCCAAATCCCAGCT	0.522													8	29					0	0	1	0	0		G	62758566	G	G	62758566	3	3	199	1	0	0	0	0	1	0	0	0	8935	130	5	3	1495	3	LPHN3	4	62758566	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	5422700	62758566	128395710	327	97719											
UGT2B10	7365	broad.mit.edu	37	chr4	69870627	69870627	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaacttccagaaacaaaacaGacaacactttgtgatgataa	19	8	6	8	0	0	4	0	2	0	2	1	5	1	4	1	0	4	0	1	0	6	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:69870627G>A	uc011cao.1	-	9	1559	c.1423C>T	c.(1423-1425)CTG>TTG	p.L475L	UGT2B10_uc011can.1_Silent_p.L391L			P36537	UDB10_HUMAN	RecName: Full=UDP-glucuronosyltransferase 2B28;          Short=UDPGT 2B28;          EC=2.4.1.17; Flags: Precursor;	512	Helical; (Potential).				lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(3)|ovary(2)	5						AAACAAAACAGACAACACTTT	0.423													10	64					0	0	1	0	0		A	69870627	A	A	69870627	2	1	199	1	0	0	0	0	0	0	0	1	16982	933	33	4		4	UGT2B10	4	69870627	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7112061	69870627	121283649	328	97720											
CXCL2	2920	broad.mit.edu	37	chr4	74964394	74964394	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agctttctgcccattcttgaGtgtggctctgcagagagaag	8	12	12	9	0	3	3	0	1	3	2	3	4	3	3	1	1	3	3	1	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:74964394G>A	uc003hhm.3	-	3	392	c.232C>T	c.(232-234)CTC>TTC	p.L78F		NM_002089	NP_002080	P19875	CXCL2_HUMAN	chemokine (C-X-C motif) ligand 2	78					chemotaxis|immune response|inflammatory response|response to molecule of bacterial origin	extracellular space|soluble fraction	chemokine activity				0	Breast(15;0.00612)		all cancers(17;0.00317)|Lung(101;0.196)			CCATTCTTGAGTGTGGCTCTG	0.527													16	76					0	0	1	0	0		A	74964394	A	A	74964394	3	1	199	1	0	0	0	0	1	0	0	0	4088	1029	36	4	99	4	CXCL2	4	74964394	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5093767	74964394	116189882	329	97721											
FRAS1	80144	broad.mit.edu	37	chr4	79420948	79420948	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccagatgccattgcgattctGaacatcaaggtgatccgcag	11	9	10	11	2	2	3	1	2	1	1	3	4	3	3	3	1	3	1	3	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:79420948G>A	uc003hlb.2	+	61	9629	c.9189G>A	c.(9187-9189)CTG>CTA	p.L3063L	FRAS1_uc003hlc.1_Silent_p.L65L	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3058	Calx-beta 5.|Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TTGCGATTCTGAACATCAAGG	0.532													18	117					0	0	1	0	0		A	79420948	A	A	79420948	2	1	199	1	0	0	0	0	0	0	0	1	6056	1277	45	4		4	FRAS1	4	79420948	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4456554	79420948	111733328	330	97722											
SPARCL1	8404	broad.mit.edu	37	chr4	88414892	88414892	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcatcacttgcactgtgccTggggccatcagtgccgccat	6	10	11	14	1	3	0	3	0	0	0	3	0	3	0	4	2	3	1	4	2	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:88414892T>C	uc010ikm.2	-	5	1632	c.1060A>G	c.(1060-1062)AGG>GGG	p.R354G	SPARCL1_uc011cdc.1_Missense_Mutation_p.R229G|SPARCL1_uc003hqs.3_Missense_Mutation_p.R354G|SPARCL1_uc011cdd.1_Missense_Mutation_p.R229G|SPARCL1_uc003hqt.2_Missense_Mutation_p.R354G	NM_001128310	NP_001121782	Q14515	SPRL1_HUMAN	SPARC-like 1 precursor	354					signal transduction	extracellular space|proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00118)		GCACTGTGCCTGGGGCCATCA	0.438													8	36					0	0	1	0	0		C	88414892	C	C	88414892	3	2	199	1	0	0	0	0	1	0	0	0	15021	1579	55	3	966	3	SPARCL1	4	88414892	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	8993944	88414892	102739384	331	97723											
ABCG2	9429	broad.mit.edu	37	chr4	89042930	89042930	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctccagacacaccacggatAaactgagttccaacctaaat	15	7	5	14	1	0	2	0	1	0	1	2	3	2	3	5	1	2	1	5	1	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:89042930A>G	uc003hrg.2	-	6	1039	c.546T>C	c.(544-546)TTT>TTC	p.F182F	ABCG2_uc003hrh.2_Silent_p.F182F|ABCG2_uc003hrf.2_Silent_p.F52F	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	182	ABC transporter.|Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	CACCACGGATAAACTGAGTTC	0.308													3	82					0	0	1	0	0		G	89042930	G	G	89042930	2	3	199	1	0	0	0	0	0	0	0	1	69	359	13	3		3	ABCG2	4	89042930	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	628038	89042930	102111346	332	97724											
TMSL3	7117	broad.mit.edu	37	chr4	91760057	91760057	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcggcgcacgcctcattaCgattcgcctgcttgcttctc	4	12	10	15	5	2	0	1	0	1	0	4	1	2	0	2	2	3	3	2	2	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:91760057C>T	uc003hsy.2	-	1	213	c.132G>A	c.(130-132)TCG>TCA	p.S44S	FAM190A_uc003hsv.3_Intron|FAM190A_uc010ikv.2_Intron|FAM190A_uc003hsx.2_Intron	NM_183049	NP_898870			thymosin-like 3												0		all_cancers(2;6.48e-24)|all_epithelial(2;3.86e-25)|Colorectal(2;8.52e-12)|all_lung(2;3.73e-07)|Lung NSC(2;7.99e-07)|Renal(2;0.0243)|Hepatocellular(203;0.0411)		Epithelial(2;5.28e-11)|OV - Ovarian serous cystadenocarcinoma(123;8.9e-10)|all cancers(2;3.21e-09)|STAD - Stomach adenocarcinoma(1;0.0201)		CGCCTCATTACGATTCGCCTG	0.423													8	89					0	0	1	0	0		T	91760057	T	T	91760057	2	4	199	1	0	0	0	0	0	0	0	1	16284	523	19	1		1	TMSL3	4	91760057	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2717127	91760057	99394219	333	97725											
UNC5C	8633	broad.mit.edu	37	chr4	96124100	96124100	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggtgaagttttcctcccCgaccaccaccacatcctggg	7	9	10	15	1	0	1	0	1	0	0	3	2	3	1	7	3	0	1	7	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:96124100C>A	uc003htp.1	-	12	2072	c.1918G>T	c.(1918-1920)GGG>TGG	p.G640W	UNC5C_uc010ilc.1_Missense_Mutation_p.G659W	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	640	Cytoplasmic (Potential).				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		TTTTCCTCCCCGACCACCACC	0.597													9	34					0.000442599	0.000455983	1	1	0		A	96124100	A	A	96124100	3	1	199	1	0	0	0	0	1	0	0	0	17019	652	23	5	897	5	UNC5C	4	96124100	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4364043	96124100	95030176	334	97726											
TACR3	6870	broad.mit.edu	37	chr4	104640418	104640418	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtagatgaaattgaccaacgTgttgaaggcggccatggagg	12	8	15	6	2	0	4	0	3	0	1	0	5	0	5	2	4	1	2	2	4	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:104640418T>G	uc003hxe.1	-	1	558	c.415A>C	c.(415-417)ACG>CCG	p.T139P		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	139	Helical; Name=2; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		TTGACCAACGTGTTGAAGGCG	0.537													3	33					0	0	1	0	0		G	104640418	G	G	104640418	3	3	199	1	0	0	0	0	1	0	0	0	15532	1696	59	5	1002	5	TACR3	4	104640418	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	8516318	104640418	86513858	335	97727											
ELOVL6	79071	broad.mit.edu	37	chr4	110972636	110972636	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacactggtcatgctgcatcCagcagaagaccaggtagtta	12	8	11	10	0	1	2	1	0	0	2	2	3	2	2	2	2	3	5	2	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:110972636C>T	uc003hzz.2	-	5	782	c.656G>A	c.(655-657)TGG>TAG	p.W219*	ELOVL6_uc003iaa.2_Nonsense_Mutation_p.W219*	NM_001130721	NP_001124193	Q9H5J4	ELOV6_HUMAN	elongation of very long chain fatty acids-like	219					fatty acid elongation, saturated fatty acid|long-chain fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process		fatty acid elongase activity|protein binding			haematopoietic_and_lymphoid_tissue(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.00462)		ATGCTGCATCCAGCAGAAGAC	0.498													12	67					0	0	1	0	0		T	110972636	T	T	110972636	4	4	199	1	0	0	0	0	0	1	0	0	5086	595	21	4	145	4	ELOVL6	4	110972636	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6332218	110972636	80181640	336	97728											
PRDM5	11107	broad.mit.edu	37	chr4	121719471	121719471	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcaaatccctttccacaaAgtttgcatttgtaaggtttg	10	14	9	8	0	0	0	0	0	0	0	2	0	2	0	2	2	1	5	2	2	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:121719471A>C	uc003idn.2	-	10	1389	c.1139T>G	c.(1138-1140)CTT>CGT	p.L380R	PRDM5_uc003ido.2_Missense_Mutation_p.L349R|PRDM5_uc010ine.2_Missense_Mutation_p.L349R	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	380	C2H2-type 8.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						CTTTCCACAAAGTTTGCATTT	0.328													4	40					0	0	1	0	0		C	121719471	C	C	121719471	3	2	199	1	0	0	0	0	1	0	0	0	12482	72	3	5	781	5	PRDM5	4	121719471	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	10746835	121719471	69434805	337	97729											
TRPC3	7222	broad.mit.edu	37	chr4	122854138	122854138	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgggcccctgacagcctggCgccggcccttctcccgcatc	3	6	11	21	4	1	1	0	1	1	0	3	1	1	1	7	3	1	1	7	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:122854138C>T	uc003ieg.2	-	2	349	c.275G>A	c.(274-276)CGC>CAC	p.R92H	TRPC3_uc010inr.2_Missense_Mutation_p.R19H|TRPC3_uc003ief.2_Missense_Mutation_p.R19H|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	7	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						GACAGCCTGGCGCCGGCCCTT	0.602													4	29					0	0	1	0	0		T	122854138	T	T	122854138	3	4	199	1	0	0	0	0	1	0	0	0	16605	768	27	1	2534	1	TRPC3	4	122854138	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1134667	122854138	68300138	338	97730											
SPATA5	166378	broad.mit.edu	37	chr4	123850212	123850212	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggtgtatacagcctggccTatggcaggatttcctggagg	8	10	14	9	0	0	0	0	0	0	0	1	2	1	2	3	6	2	2	3	6	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:123850212T>G	uc003iez.3	+	3	379	c.306T>G	c.(304-306)CCT>CCG	p.P102P	SPATA5_uc003iey.2_Silent_p.P101P	NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	102					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						CAGCCTGGCCTATGGCAGGAT	0.453													11	36					0	0	1	0	0		G	123850212	G	G	123850212	2	3	199	1	0	0	0	0	0	0	0	1	15036	1509	53	5		5	SPATA5	4	123850212	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	996074	123850212	67304064	339	97731											
SPATA5	166378	broad.mit.edu	37	chr4	124177318	124177318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactcatccttcaaaccgacGcatactcaggagcagaggta	14	7	8	12	2	3	1	3	0	0	1	4	3	4	2	2	2	4	3	2	2	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:124177318G>A	uc003iez.3	+	15	2561	c.2488G>A	c.(2488-2490)GCA>ACA	p.A830T		NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5	830					cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						TCAAACCGACGCATACTCAGG	0.453													14	90					0	0	1	0	0		A	124177318	A	A	124177318	3	1	199	1	0	0	0	0	1	0	0	0	15036	1087	38	1	2546	1	SPATA5	4	124177318	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	327106	124177318	66976958	340	97732											
ANKRD50	57182	broad.mit.edu	37	chr4	125591851	125591851	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aataagtgcttcacatatcaAtctgtgcccttcaaaagctg	13	12	6	10	0	4	0	3	0	1	0	4	0	4	0	1	0	3	2	1	0	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:125591851A>T	uc003ifg.3	-	3	2847	c.2581T>A	c.(2581-2583)TTG>ATG	p.L861M	ANKRD50_uc011cgo.1_Missense_Mutation_p.L682M|ANKRD50_uc010inw.2_Missense_Mutation_p.L861M	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	861	ANK 12.									central_nervous_system(1)	1						TCACATATCAATCTGTGCCCT	0.418													18	104					0	0	1	0	0		T	125591851	T	T	125591851	3	4	199	1	0	0	0	0	1	0	0	0	677	98	4	5	1712	5	ANKRD50	4	125591851	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1414533	125591851	65562425	341	97733											
FAT4	79633	broad.mit.edu	37	chr4	126241559	126241559	+	Silent	SNP	T	C	C	0	1	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	ttggaaaacatgagaattggTgaactcgtgtcctctgttac	11	13	10	7	1	1	2	0	2	1	1	3	4	2	3	1	2	3	1	1	2	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:126241559T>C	uc003ifj.3	+	1	3993	c.3993T>C	c.(3991-3993)GGT>GGC	p.G1331G		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1331	Cadherin 13.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGAGAATTGGTGAACTCGTGT	0.358													29	110					0	0	1	0	0		C	126241559	C	C	126241559	2	2	199	1	0	0	0	0	0	0	0	1	5706	1683	59	3		3	FAT4	4	126241559	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	649708	126241559	64912717	342	97734											
FAT4	79633	broad.mit.edu	37	chr4	126372561	126372561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcagacaggacagatcaccGttactgcagaattagatcga	14	7	10	10	3	1	4	1	0	0	4	2	6	1	5	1	1	2	3	1	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:126372561G>A	uc003ifj.3	+	9	10390	c.10390G>A	c.(10390-10392)GTT>ATT	p.V3464I	FAT4_uc011cgp.1_Missense_Mutation_p.V1762I|FAT4_uc003ifi.1_Missense_Mutation_p.V942I	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3464	Cadherin 33.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACAGATCACCGTTACTGCAGA	0.463													11	89					0	0	1	0	0		A	126372561	A	A	126372561	3	1	199	1	0	0	0	0	1	0	0	0	5706	1145	40	1	10424	1	FAT4	4	126372561	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	131002	126372561	64781715	343	97735											
MFSD8	256471	broad.mit.edu	37	chr4	128878707	128878707	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcctaatagatctccatcGgctcttataatgctcttcag	11	14	5	11	1	4	1	1	0	3	1	7	1	5	1	2	1	1	2	2	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:128878707G>A	uc003ifp.2	-	3	266	c.103C>T	c.(103-105)CGA>TGA	p.R35*	MFSD8_uc011cgu.1_5'UTR|MFSD8_uc011cgv.1_Nonsense_Mutation_p.R35*|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_5'UTR	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	35	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						GATCTCCATCGGCTCTTATAA	0.303													30	112					0	0	1	0	0		A	128878707	A	A	128878707	4	1	199	1	0	0	0	0	0	1	0	0	9556	1124	39	1	1497	1	MFSD8	4	128878707	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2506146	128878707	62275569	344	97736											
LARP1B	55132	broad.mit.edu	37	chr4	129121762	129121762	+	Frame_Shift_Del	DEL	A	-	-																															tcctcagagatcacttcaatAaaaaaatgtatgaggaattt																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:129121762delA	uc003iga.2	+	17	2382	c.2251delA	c.(2251-2253)AAAfs	p.K751fs	LARP1B_uc003igc.2_Frame_Shift_Del_p.K170fs|LARP1B_uc010ioa.1_RNA|LARP1B_uc003ige.2_RNA|LARP1B_uc003igd.2_RNA|LARP1B_uc003igf.2_5'UTR	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2	751							RNA binding				0						TCACTTCAATAAAAAAATGTA	0.338													17	30	---	---	---	---						.	-	129121762	-	-	129121762	7	5	199	1	0	1	0	1	0	0	0	0	8645	363	13	0	2443	0	LARP1B	4	129121762	Frame_Shift_Del	DEL	A	TCGA-HF-7132-01A-11D-2053-08	243055	129121762	62032514	345	97737											
RNF150	57484	broad.mit.edu	37	chr4	141888894	141888894	+	Silent	SNP	G	A	A	0	0	1	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	gagacaaacacaaccgaagtGcggctcacatatttctgcaa	15	7	8	11	2	2	1	1	0	1	1	2	3	2	1	1	1	4	2	1	1	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:141888894G>A	uc003iio.1	-	2	1272	c.618C>T	c.(616-618)CGC>CGT	p.R206R	RNF150_uc010iok.1_Intron|RNF150_uc003iip.1_Silent_p.R206R	NM_020724	NP_065775	Q9ULK6	RN150_HUMAN	ring finger protein 150 precursor	206	Extracellular (Potential).					integral to membrane	zinc ion binding			ovary(1)	1	all_hematologic(180;0.162)					CAACCGAAGTGCGGCTCACAT	0.458													37	159					0	0	1	0	0		A	141888894	A	A	141888894	2	1	199	1	0	0	0	0	0	0	0	1	13476	1306	46	2		2	RNF150	4	141888894	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	12767132	141888894	49265382	346	97738											
FBXW7	55294	broad.mit.edu	37	chr4	153249385	153249385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcatgaagatgcatacaacGcacagtggaagtatgcccat	14	9	9	9	1	1	2	1	1	0	1	1	3	1	3	1	1	4	3	1	1	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:153249385G>A	uc003ims.2	-	9	1542	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXW7_uc011cii.1_Missense_Mutation_p.R465C|FBXW7_uc003imt.2_Missense_Mutation_p.R465C|FBXW7_uc011cih.1_Missense_Mutation_p.R289C|FBXW7_uc003imq.2_Missense_Mutation_p.R385C|FBXW7_uc003imr.2_Missense_Mutation_p.R347C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	465	WD 3.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in a acute lymphoblastic leukemia cell line).		interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R465C(52)|p.R465H(36)|p.R465L(2)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				TGCATACAACGCACAGTGGAA	0.413			Mis|N|D|F		colorectal|endometrial|T-ALL								52	183					0	0	1	0	0		A	153249385	A	A	153249385	3	1	199	1	0	0	0	0	1	0	0	0	5783	1087	38	1	746	1	FBXW7	4	153249385	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	11360491	153249385	37904891	347	97739											
TMEM154	201799	broad.mit.edu	37	chr4	153573990	153573990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	taatgtttctttgatggtcaCtgcagcaaatgtgcttggaa	10	15	10	6	0	2	1	1	1	1	0	2	2	2	2	0	2	3	4	0	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:153573990C>T	uc003imw.1	-	2	260	c.154G>A	c.(154-156)GTG>ATG	p.V52M		NM_152680	NP_689893	Q6P9G4	TM154_HUMAN	transmembrane protein 154 precursor	52	Extracellular (Potential).					integral to membrane					0	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				TTGATGGTCACTGCAGCAAAT	0.348													13	79					0	0	1	0	0		T	153573990	T	T	153573990	3	4	199	1	0	0	0	0	1	0	0	0	16096	565	20	4	421	4	TMEM154	4	153573990	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	324605	153573990	37580286	348	97740											
SFRP2	6423	broad.mit.edu	37	chr4	154709813	154709813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccagcaggttgggcagccGcatgttctggtattcgatgc	6	10	14	11	2	1	0	0	0	1	0	2	1	1	0	2	3	3	6	2	3	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:154709813G>A	uc003inv.1	-	1	416	c.175C>T	c.(175-177)CGG>TGG	p.R59W		NM_003013	NP_003004	Q96HF1	SFRP2_HUMAN	secreted frizzled-related protein 2 precursor	59	FZ.				brain development|cardiac left ventricle morphogenesis|cell-cell signaling|dermatome development|hemopoietic stem cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|negative regulation of cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|outflow tract morphogenesis|patterning of blood vessels|positive regulation of angiogenesis|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell adhesion mediated by integrin|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of fat cell differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of stem cell division|sclerotome development	cytoplasm|extracellular matrix|extracellular space|plasma membrane	fibronectin binding|integrin binding|PDZ domain binding|receptor agonist activity|Wnt receptor activity|Wnt-protein binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(180;0.093)	Renal(120;0.117)				TTGGGCAGCCGCATGTTCTGG	0.617													20	135					0	0	1	0	0		A	154709813	A	A	154709813	3	1	199	1	0	0	0	0	1	0	0	0	14187	1086	38	1	724	1	SFRP2	4	154709813	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1135823	154709813	36444463	349	97741											
GUCY1A3	2982	broad.mit.edu	37	chr4	156632139	156632139	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagcaaaccccagtcctcGctggtgattcccacatcgct	8	8	7	18	2	0	1	0	1	0	0	4	1	2	1	5	1	2	3	5	1	1	1	rs148529562	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:156632139G>A	uc003iov.2	+	7	1358	c.822G>A	c.(820-822)TCG>TCA	p.S274S	GUCY1A3_uc003iou.2_Silent_p.S274S|GUCY1A3_uc010iqc.2_Silent_p.S274S|GUCY1A3_uc003iow.2_Silent_p.S274S|GUCY1A3_uc010iqd.2_Silent_p.S273S|GUCY1A3_uc003iox.2_Silent_p.S274S|GUCY1A3_uc003ioz.2_Silent_p.S39S|GUCY1A3_uc003ioy.2_Silent_p.S274S|GUCY1A3_uc010iqe.2_Silent_p.S39S|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Silent_p.S274S	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	274					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		CCCAGTCCTCGCTGGTGATTC	0.458													22	66					0	0	1	0	0		A	156632139	A	A	156632139	2	1	199	1	0	0	0	0	0	0	0	1	6910	1074	38	1		1	GUCY1A3	4	156632139	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1922326	156632139	34522137	350	97742											
GUCY1B3	2983	broad.mit.edu	37	chr4	156723545	156723545	+	Silent	SNP	G	A	A	0	0	1	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	gccaatgagctgcggcacaaGcgtccagtgcctgccaaaag	11	5	12	13	2	0	1	0	1	0	0	1	1	1	1	4	1	5	2	4	1	4	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:156723545G>A	uc003ipc.2	+	10	1394	c.1227G>A	c.(1225-1227)AAG>AAA	p.K409K	GUCY1B3_uc011cio.1_Silent_p.K431K|GUCY1B3_uc011cip.1_Silent_p.K389K|GUCY1B3_uc003ipd.2_Silent_p.K337K|GUCY1B3_uc010iqf.2_Intron|GUCY1B3_uc010iqg.2_Silent_p.K380K|GUCY1B3_uc011ciq.1_Silent_p.K337K	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	409					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		TGCGGCACAAGCGTCCAGTGC	0.488													7	58					0	0	1	0	0		A	156723545	A	A	156723545	2	1	199	1	0	0	0	0	0	0	0	1	6911	962	34	2		2	GUCY1B3	4	156723545	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	91406	156723545	34430731	351	97743											
GUCY1B3	2983	broad.mit.edu	37	chr4	156725866	156725866	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacagaaaccacaggagaaaAgggaaaaataaatgtgtctg	21	5	10	5	0	1	2	0	0	1	2	1	4	1	3	1	2	2	0	1	2	8	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:156725866A>G	uc003ipc.2	+	12	1843	c.1676A>G	c.(1675-1677)AAG>AGG	p.K559R	GUCY1B3_uc011cio.1_Missense_Mutation_p.K581R|GUCY1B3_uc011cip.1_Missense_Mutation_p.K539R|GUCY1B3_uc003ipd.2_Missense_Mutation_p.K487R|GUCY1B3_uc010iqf.2_Missense_Mutation_p.K526R|GUCY1B3_uc010iqg.2_Missense_Mutation_p.K530R|GUCY1B3_uc011ciq.1_Missense_Mutation_p.K487R	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	559					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		ACAGGAGAAAAGGGAAAAATA	0.398													6	14					0	0	1	0	0		G	156725866	G	G	156725866	3	3	199	1	0	0	0	0	1	0	0	0	6911	72	3	3	1722	3	GUCY1B3	4	156725866	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2321	156725866	34428410	352	97744											
GRIA2	2891	broad.mit.edu	37	chr4	158255214	158255214	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttacccttactgagctccCttctggaaatgacacctctg	8	13	7	13	0	2	2	0	2	2	0	3	3	3	3	3	1	3	2	3	1	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:158255214C>G	uc003ipm.3	+	9	1667	c.1208C>G	c.(1207-1209)CCT>CGT	p.P403R	GRIA2_uc011cit.1_Missense_Mutation_p.P356R|GRIA2_uc003ipl.3_Missense_Mutation_p.P403R|GRIA2_uc003ipk.3_Missense_Mutation_p.P356R|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	403	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|endoplasmic reticulum membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			central_nervous_system(3)|ovary(1)	4	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0294)	L-Glutamic Acid(DB00142)	ACTGAGCTCCCTTCTGGAAAT	0.393													15	131					0	0	1	0	0		G	158255214	G	G	158255214	3	3	199	1	0	0	0	0	1	0	0	0	6784	681	24	5	1242	5	GRIA2	4	158255214	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1529348	158255214	32899062	353	97745											
FAM198B	51313	broad.mit.edu	37	chr4	159091970	159091970	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcccccggctcgcactccCggaccccgcaccaacctcca	6	3	9	23	4	0	0	0	0	0	0	3	1	2	1	8	3	1	3	8	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:159091970C>T	uc003ipp.3	-	2	1010	c.558G>A	c.(556-558)CCG>CCA	p.P186P	uc003ipu.1_5'Flank|FAM198B_uc003ipq.3_Silent_p.P186P|FAM198B_uc003ipr.3_Silent_p.P186P|FAM198B_uc003ips.2_Silent_p.P186P|uc003ipt.1_RNA	NM_016613	NP_057697	Q6UWH4	F198B_HUMAN	hypothetical protein LOC51313 isoform 2	186	Extracellular (Potential).					Golgi membrane|integral to membrane					0						CTCGCACTCCCGGACCCCGCA	0.622											OREG0016378	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	30					0	0	1	0	0		T	159091970	T	T	159091970	2	4	199	1	0	0	0	0	0	0	0	1	5540	639	23	1		1	FAM198B	4	159091970	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	836756	159091970	32062306	354	97746											
RAPGEF2	9693	broad.mit.edu	37	chr4	160277143	160277143	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcccttcagagatcgcGgatggtcgcacgatcctccg	6	8	13	14	6	1	1	1	0	0	1	5	4	3	2	3	3	0	1	3	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:160277143G>A	uc003iqg.3	+	23	4617	c.4307G>A	c.(4306-4308)CGG>CAG	p.R1436Q		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1436					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		CAGAGATCGCGGATGGTCGCA	0.587													7	17					0	0	1	0	0		A	160277143	A	A	160277143	3	1	199	1	0	0	0	0	1	0	0	0	13069	1116	39	1	4397	1	RAPGEF2	4	160277143	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1185173	160277143	30877133	355	97747											
DDX60L	91351	broad.mit.edu	37	chr4	169393873	169393873	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgcttcttgggctacaGggtagaagagtagagctgga	9	11	15	6	0	1	3	0	0	1	3	1	4	1	4	0	3	4	6	0	3	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:169393873G>T	uc003irq.3	-	2	199	c.-22C>A	c.(-24--20)CCCTG>CCATG		DDX60L_uc003irr.1_Translation_Start_Site|DDX60L_uc003irt.1_Translation_Start_Site	NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like								ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		TTGGGCTACAGGGTAGAAGAG	0.343													14	70					8.60227e-14	9.51119e-14	1	1	0		T	169393873	T	T	169393873	1	4	199	1	0	0	0	0	0	0	0	0	4382	1015	35	5		5	DDX60L	4	169393873	Translation_Start_Site	SNP	G	TCGA-HF-7132-01A-11D-2053-08	9116730	169393873	21760403	356	97748											
ODZ3	55714	broad.mit.edu	37	chr4	183710390	183710390	+	Missense_Mutation	SNP	A	G	G	1	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	ggctgccaagcagcaagctgAtggccgtcaatgtcacctat	10	8	11	12	1	2	1	2	1	0	0	2	1	2	1	3	2	4	4	3	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:183710390A>G	uc003ivd.1	+	24	5486	c.5449A>G	c.(5449-5451)ATG>GTG	p.M1817V		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1817	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CAGCAAGCTGATGGCCGTCAA	0.517													3	23					0	0	1	0	0		G	183710390	G	G	183710390	3	3	199	1	0	0	0	0	1	0	0	0	10855	333	12	3	5543	3	ODZ3	4	183710390	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	14316517	183710390	7443886	357	97749											
ODZ3	55714	broad.mit.edu	37	chr4	183720983	183720983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgcatcaaggtggcggccGtgctcaacaacgccttctac	9	8	10	14	3	3	0	2	0	1	0	3	0	3	0	2	3	5	2	2	3	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:183720983G>A	uc003ivd.1	+	27	7616	c.7579G>A	c.(7579-7581)GTG>ATG	p.V2527M		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2527	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GGTGGCGGCCGTGCTCAACAA	0.622													3	19					0	0	1	0	0		A	183720983	A	A	183720983	3	1	199	1	0	0	0	0	1	0	0	0	10855	1145	40	1	7685	1	ODZ3	4	183720983	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10593	183720983	7433293	358	97750											
C4orf41	60684	broad.mit.edu	37	chr4	184606268	184606268	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaagatgaccagaagtctcgGatagaaaagaacctcataaa	20	6	8	7	1	2	5	1	1	1	4	3	6	2	6	2	1	1	0	2	1	8	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr4:184606268G>A	uc003ivx.2	+	16	1775	c.1599G>A	c.(1597-1599)CGG>CGA	p.R533R	C4orf41_uc003ivw.2_Silent_p.R533R|C4orf41_uc010isc.2_Intron|C4orf41_uc003ivy.2_Silent_p.R139R	NM_021942	NP_068761	Q7Z392	CD041_HUMAN	hypothetical protein LOC60684 isoform a	533											0		all_lung(41;4.4e-14)|Lung NSC(41;1.03e-13)|Colorectal(36;0.00139)|all_hematologic(60;0.00756)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.202)		all cancers(43;1.39e-26)|Epithelial(43;2.42e-22)|OV - Ovarian serous cystadenocarcinoma(60;6.85e-10)|GBM - Glioblastoma multiforme(59;6.71e-06)|Colorectal(24;9.67e-06)|STAD - Stomach adenocarcinoma(60;2.36e-05)|COAD - Colon adenocarcinoma(29;7.07e-05)|LUSC - Lung squamous cell carcinoma(40;0.00984)|READ - Rectum adenocarcinoma(43;0.171)		AGAAGTCTCGGATAGAAAAGA	0.303													7	26					0	0	1	0	0		A	184606268	A	A	184606268	2	1	199	1	0	0	0	0	0	0	0	1	2273	1161	41	4		4	C4orf41	4	184606268	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	885285	184606268	6548008	359	97751											
SLC6A18	348932	broad.mit.edu	37	chr5	1235779	1235779	+	Splice_Site	SNP	T	C	C	0	1	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	cattgagactacagggaaggTgagagctggcagggcctgat	11	7	16	7	0	0	3	0	3	0	2	0	6	0	4	1	4	2	2	1	4	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:1235779T>C	uc003jby.1	+	4	744	c.621_splice	c.e4+2	p.K207_splice		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18						cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			ACAGGGAAGGTGAGAGCTGGC	0.557													17	153					0	0	1	0	0		C	1235779	C	C	1235779	5	2	199	1	0	0	0	0	0	0	1	0	14706	1710	59	3	637	3	SLC6A18	5	1235779	Splice_Site	SNP	T	TCGA-HF-7132-01A-11D-2053-08		1235779	179679481	360	97752											
IRX1	79192	broad.mit.edu	37	chr5	3599703	3599703	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgacaccgagggcgaccCggagaaggccgaggacgacg	11	0	17	13	7	0	1	0	0	0	1	0	8	0	2	3	4	1	0	3	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:3599703C>T	uc003jde.2	+	2	693	c.641C>T	c.(640-642)CCG>CTG	p.P214L		NM_024337	NP_077313	P78414	IRX1_HUMAN	iroquois homeobox protein 1	214						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						GAGGGCGACCCGGAGAAGGCC	0.627													7	32					0	0	1	0	0		T	3599703	T	T	3599703	3	4	199	1	0	0	0	0	1	0	0	0	7859	652	23	1	647	1	IRX1	5	3599703	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2363924	3599703	177315557	361	97753											
NSUN2	54888	broad.mit.edu	37	chr5	6604300	6604300	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgagttttctaaaaaaGggattttcctgggtcaacag	11	13	10	7	0	2	1	1	1	1	0	3	2	3	2	1	2	2	2	1	2	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:6604300G>A	uc003jdu.2	-	17	1973	c.1908C>T	c.(1906-1908)CCC>CCT	p.P636P	NSUN2_uc003jds.2_Silent_p.P82P|NSUN2_uc003jdt.2_Silent_p.P400P|NSUN2_uc011cmk.1_Silent_p.P601P|NSUN2_uc003jdv.2_Silent_p.P400P	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	636						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TTCTAAAAAAGGGATTTTCCT	0.358													9	42					0	0	1	0	0		A	6604300	A	A	6604300	2	1	199	1	0	0	0	0	0	0	0	1	10697	987	35	4		4	NSUN2	5	6604300	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3004597	6604300	174310960	362	97754											
DNAH5	1767	broad.mit.edu	37	chr5	13864659	13864659	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggccatgtattccagcagCgggcaacactcgctgaaatc	10	8	10	13	2	0	1	0	1	0	0	3	1	1	1	2	2	3	4	2	2	3	2	rs141196881	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:13864659C>T	uc003jfd.2	-	28	4485	c.4443G>A	c.(4441-4443)CCG>CCA	p.P1481P		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1481	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ATTCCAGCAGCGGGCAACACT	0.522									Kartagener_syndrome				8	43					0	0	1	0	0		T	13864659	T	T	13864659	2	4	199	1	0	0	0	0	0	0	0	1	4610	755	27	1		1	DNAH5	5	13864659	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7260359	13864659	167050601	363	97755											
DNAH5	1767	broad.mit.edu	37	chr5	13900481	13900481	+	Missense_Mutation	SNP	A	G	G	1	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	cccctgtgcctggagccttcAccaataatgaagcctcaaga	11	8	8	14	0	2	2	2	1	0	1	2	3	2	3	6	1	3	0	6	1	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:13900481A>G	uc003jfd.2	-	15	2135	c.2093T>C	c.(2092-2094)GTG>GCG	p.V698A		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	698	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGGAGCCTTCACCAATAATGA	0.408									Kartagener_syndrome				5	55					0	0	1	0	0		G	13900481	G	G	13900481	3	3	199	1	0	0	0	0	1	0	0	0	4610	159	6	3	12041	3	DNAH5	5	13900481	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	35822	13900481	167014779	364	97756											
CDH10	1008	broad.mit.edu	37	chr5	24509865	24509865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taggtaataaaaacggggatCtacatgggtgttttctgctt	11	14	11	5	1	2	0	0	0	2	0	2	1	2	1	0	4	3	3	0	4	6	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:24509865C>T	uc003jgr.1	-	7	1398	c.1066G>A	c.(1066-1068)GAT>AAT	p.D356N	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	356	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		AAACGGGGATCTACATGGGTG	0.378										HNSCC(23;0.051)			21	47					0	0	1	0	0		T	24509865	T	T	24509865	3	4	199	1	0	0	0	0	1	0	0	0	3099	913	32	4	1324	4	CDH10	5	24509865	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	10609384	24509865	156405395	365	97757											
C5orf22	55322	broad.mit.edu	37	chr5	31538590	31538590	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtgactcttcttcagaaGgactggaaaaggacacagca	14	8	10	9	0	3	2	1	1	2	1	3	5	3	5	0	3	1	1	0	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:31538590G>T	uc003jhj.3	+	4	728	c.601G>T	c.(601-603)GGA>TGA	p.G201*	C5orf22_uc011cnw.1_Splice_Site|C5orf22_uc003jhk.3_Splice_Site	NM_018356	NP_060826	Q49AR2	CE022_HUMAN	hypothetical protein LOC55322	201										ovary(2)	2						TTCTTCAGAAGGACTGGAAAA	0.453													3	43					0.115264	0.116136	1	1	0		T	31538590	T	T	31538590	4	4	199	1	0	0	0	0	0	1	0	0	2288	1001	35	5	615	5	C5orf22	5	31538590	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7028725	31538590	149376670	366	97758											
AMACR	23600	broad.mit.edu	37	chr5	34008070	34008070	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccaggaccatagcacagaAcgggcccggggccaggccgg	10	1	16	14	3	0	1	0	0	0	1	0	2	0	2	5	6	3	1	5	6	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:34008070A>G	uc003jig.2	-	1	137	c.55T>C	c.(55-57)TTC>CTC	p.F19L	AMACR_uc003jih.2_Missense_Mutation_p.F19L|AMACR_uc003jii.2_Missense_Mutation_p.F19L|AMACR_uc003jij.2_Missense_Mutation_p.F19L|AMACR_uc003jil.1_Missense_Mutation_p.F19L|AMACR_uc003jik.1_Missense_Mutation_p.F19L	NM_014324	NP_055139	Q9UHK6	AMACR_HUMAN	alpha-methylacyl-CoA racemase isoform 1	19					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	mitochondrion|peroxisomal matrix	alpha-methylacyl-CoA racemase activity				0						ATAGCACAGAACGGGCCCGGG	0.701													3	39					0	0	1	0	0		G	34008070	G	G	34008070	3	3	199	1	0	0	0	0	1	0	0	0	562	43	2	3	1443	3	AMACR	5	34008070	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2469480	34008070	146907190	367	97759											
BRIX1	55299	broad.mit.edu	37	chr5	34923325	34923325	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttggataataggatatggTttcggaactttcaggtaagc	11	15	11	4	1	1	0	1	0	0	0	2	3	1	3	0	5	2	2	0	5	5	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:34923325T>C	uc003jja.2	+	8	673	c.649T>C	c.(649-651)TTT>CTT	p.F217L	BRIX1_uc011col.1_3'UTR	NM_018321	NP_060791	Q8TDN6	BRX1_HUMAN	BRIX	217	Brix.				ribosome biogenesis|translation	nucleolus	aminoacyl-tRNA ligase activity|ATP binding|protein binding				0						TAGGATATGGTTTCGGAACTT	0.264													16	58					0	0	1	0	0		C	34923325	C	C	34923325	3	2	199	1	0	0	0	0	1	0	0	0	1518	1725	60	3	679	3	BRIX1	5	34923325	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	915255	34923325	145991935	368	97760											
DNAJC21	134218	broad.mit.edu	37	chr5	34954736	34954736	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaccatctaaaggccacaGgtcatgcaagagcaccttca	13	8	8	12	0	3	2	2	1	1	1	3	2	3	2	3	2	2	2	3	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:34954736G>T	uc003jjc.2	+	12	1740	c.1513G>T	c.(1513-1515)GGT>TGT	p.G505C	DNAJC21_uc003jjb.2_Missense_Mutation_p.G550C	NM_001012339	NP_001012339	Q5F1R6	DJC21_HUMAN	DnaJ homology subfamily A member 5 isoform 2	505	C2H2-type 2.				protein folding	ribosome	heat shock protein binding|nucleic acid binding|unfolded protein binding|zinc ion binding			breast(1)|skin(1)	2	all_lung(31;7.08e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)			AAAGGCCACAGGTCATGCAAG	0.403													11	76					3.07112e-06	3.24149e-06	1	1	0		T	34954736	T	T	34954736	3	4	199	1	0	0	0	0	1	0	0	0	4646	1000	35	5	1698	5	DNAJC21	5	34954736	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	31411	34954736	145960524	369	97761											
SPEF2	79925	broad.mit.edu	37	chr5	35667345	35667345	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactaaagtggcagactatCgaatgttgacaaataagtaa	17	9	8	7	1	0	2	0	1	0	1	1	3	0	2	1	1	0	3	1	1	7	5	rs147855827		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:35667345C>T	uc003jjo.2	+	9	1450	c.1339C>T	c.(1339-1341)CGA>TGA	p.R447*	SPEF2_uc003jjn.1_Nonsense_Mutation_p.R447*|SPEF2_uc003jjq.3_Nonsense_Mutation_p.R447*	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	447					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GGCAGACTATCGAATGTTGAC	0.328													4	46					0	0	1	0	0		T	35667345	T	T	35667345	4	4	199	1	0	0	0	0	0	1	0	0	15060	876	31	1	1373	1	SPEF2	5	35667345	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	712609	35667345	145247915	370	97762											
C5orf33	133686	broad.mit.edu	37	chr5	36225645	36225645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtatacgttctttcttaccGttctggatcagtgtttaccc	6	18	7	10	2	4	0	1	0	3	0	4	1	4	1	2	1	3	4	2	1	4	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:36225645G>A	uc003jkf.3	-	4	559	c.559C>T	c.(559-561)CGG>TGG	p.R187W	C5orf33_uc010iux.2_Missense_Mutation_p.R24W|C5orf33_uc003jkg.3_Missense_Mutation_p.R24W|C5orf33_uc011cov.1_Missense_Mutation_p.R24W	NM_001085411	NP_001078880	Q4G0N4	NAKD1_HUMAN	hypothetical protein LOC133686 isoform 1	187							NAD+ kinase activity				0	all_lung(31;5.63e-05)		Epithelial(62;0.0254)|all cancers(62;0.0805)|Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTTTCTTACCGTTCTGGATCA	0.368													34	136					0	0	1	0	0		A	36225645	A	A	36225645	3	1	199	1	0	0	0	0	1	0	0	0	2295	1159	40	1	805	1	C5orf33	5	36225645	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	558300	36225645	144689615	371	97763											
EGFLAM	133584	broad.mit.edu	37	chr5	38407104	38407104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacagagaaaggggaagaatGgtgtggccataatgtcaagg	15	7	15	4	0	1	2	1	0	0	2	1	4	1	3	1	5	1	0	1	5	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:38407104G>A	uc003jlc.1	+	8	1327	c.1003G>A	c.(1003-1005)GGT>AGT	p.G335S	EGFLAM_uc003jlb.1_Missense_Mutation_p.G335S|EGFLAM_uc003jle.1_Missense_Mutation_p.G101S|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	335						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					GGGGAAGAATGGTGTGGCCAT	0.547													21	93					0	0	1	0	0		A	38407104	A	A	38407104	3	1	199	1	0	0	0	0	1	0	0	0	4972	1348	47	4	1047	4	EGFLAM	5	38407104	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2181459	38407104	142508156	372	97764											
TTC33	23548	broad.mit.edu	37	chr5	40716358	40716358	+	Silent	SNP	T	G	G	0	1	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	ataaccattgttttatttgcTgaaactgtcttctctttctc	8	20	4	9	0	3	1	0	1	3	0	5	1	3	1	1	0	3	2	1	0	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:40716358T>G	uc003jma.2	-	5	826	c.678A>C	c.(676-678)TCA>TCC	p.S226S	TTC33_uc011cpm.1_Silent_p.S118S|TTC33_uc010ivg.2_3'UTR	NM_012382	NP_036514	Q6PID6	TTC33_HUMAN	tetratricopeptide repeat domain 33	226							binding			ovary(1)	1						TTTTATTTGCTGAAACTGTCT	0.403													13	53					0	0	1	0	0		G	40716358	G	G	40716358	2	3	199	1	0	0	0	0	0	0	0	1	16728	1567	55	5		5	TTC33	5	40716358	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	2309254	40716358	140198902	373	97765											
ISL1	3670	broad.mit.edu	37	chr5	50685554	50685554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggagaagaccacccgcgtgCggactgtgctgaacgagaag	11	4	15	11	5	0	4	0	1	0	3	0	7	0	5	2	2	3	1	2	2	3	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:50685554C>T	uc003jor.2	+	4	1101	c.553C>T	c.(553-555)CGG>TGG	p.R185W		NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	185	Homeobox.				generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				CACCCGCGTGCGGACTGTGCT	0.672													4	64					0	0	1	0	0		T	50685554	T	T	50685554	3	4	199	1	0	0	0	0	1	0	0	0	7872	759	27	1	567	1	ISL1	5	50685554	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9969196	50685554	130229706	374	97766											
GZMA	3001	broad.mit.edu	37	chr5	54403958	54403958	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttcttccaacagctgatGgaaaaagcaaaaattaacaa	18	11	5	7	0	1	1	0	1	1	0	2	2	2	2	1	1	4	2	1	1	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:54403958G>A	uc003jpm.2	+	4	400	c.363G>A	c.(361-363)ACG>ACA	p.T121T		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	121	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				AACAGCTGATGGAAAAAGCAA	0.353													4	35					0	0	1	0	0		A	54403958	A	A	54403958	2	1	199	1	0	0	0	0	0	0	0	1	6931	1348	47	4		4	GZMA	5	54403958	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3718404	54403958	126511302	375	97767											
GPBP1	65056	broad.mit.edu	37	chr5	56526980	56526980	+	Silent	SNP	A	G	G	1	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	acacatggaagaaatggtacAgaaaacataaatcatcgagg	20	6	9	6	1	1	2	1	0	0	2	2	4	1	3	0	3	2	1	0	3	7	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:56526980A>G	uc003jrh.3	+	5	1517	c.243A>G	c.(241-243)ACA>ACG	p.T81T	GPBP1_uc010iwg.2_Silent_p.T81T|GPBP1_uc003jri.3_5'UTR|GPBP1_uc003jrj.3_Silent_p.T88T|GPBP1_uc003jrk.3_Silent_p.T88T|GPBP1_uc003jrl.3_RNA	NM_022913	NP_075064	Q86WP2	GPBP1_HUMAN	GC-rich promoter binding protein 1 isoform 1	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			large_intestine(1)|central_nervous_system(1)	2		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.222)		OV - Ovarian serous cystadenocarcinoma(10;7.64e-39)		GAAATGGTACAGAAAACATAA	0.363													8	75					0	0	1	0	0		G	56526980	G	G	56526980	2	3	199	1	0	0	0	0	0	0	0	1	6610	175	7	3		3	GPBP1	5	56526980	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2123022	56526980	124388280	376	97768											
CENPK	64105	broad.mit.edu	37	chr5	64824337	64824337	+	Missense_Mutation	SNP	A	G	G	1	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	ggtcttctagaaactcgcccAaggtactcaagagtttctcc	10	11	8	12	1	4	2	1	0	3	2	6	2	4	2	2	2	2	2	2	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:64824337A>G	uc003jts.2	-	9	751	c.539T>C	c.(538-540)TTG>TCG	p.L180S	CENPK_uc003jtt.2_Missense_Mutation_p.L150S|CENPK_uc003jtu.2_Missense_Mutation_p.L180S	NM_022145	NP_071428	Q9BS16	CENPK_HUMAN	SoxLZ/Sox6 leucine zipper binding protein	180					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm					0		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		Lung(70;0.00466)		AAACTCGCCCAAGGTACTCAA	0.269													5	23					0	0	1	0	0		G	64824337	G	G	64824337	3	3	199	1	0	0	0	0	1	0	0	0	3238	131	5	3	282	3	CENPK	5	64824337	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	8297357	64824337	116090923	377	97769											
CCNB1	891	broad.mit.edu	37	chr5	68470089	68470089	+	Silent	SNP	A	G	G	1	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	cttttgcaggaagagcaagcAgtcagaccaaaatacctact	15	8	8	10	0	1	2	1	0	0	2	1	3	1	3	2	1	5	3	2	1	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:68470089A>G	uc003jvm.2	+	5	735	c.558A>G	c.(556-558)GCA>GCG	p.A186A	CCNB1_uc011crd.1_Silent_p.A186A|CCNB1_uc010ixb.2_Silent_p.A186A	NM_031966	NP_114172	P14635	CCNB1_HUMAN	cyclin B1	186					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|G1/S transition of mitotic cell cycle|G2/M transition of mitotic cell cycle|mitotic cell cycle spindle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|mitotic spindle stabilization|positive regulation of attachment of spindle microtubules to kinetochore|positive regulation of mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	condensed nuclear chromosome outer kinetochore|cytosol|microtubule organizing center|nucleoplasm|spindle pole					0		Lung NSC(167;5.51e-05)|Prostate(74;0.00634)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.24e-56)|Epithelial(20;1.12e-52)|all cancers(19;2.63e-48)|Lung(70;0.0177)		AAGAGCAAGCAGTCAGACCAA	0.413													4	79					0	0	1	0	0		G	68470089	G	G	68470089	2	3	199	1	0	0	0	0	0	0	0	1	2914	175	7	3		3	CCNB1	5	68470089	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3645752	68470089	112445171	378	97770											
CMYA5	202333	broad.mit.edu	37	chr5	79025033	79025033	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccatcattacgccggaaaGgcaacagaaaaagaaattct	18	6	7	10	2	2	2	1	0	1	2	2	3	2	3	2	2	2	1	2	2	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:79025033G>T	uc003kgc.2	+	2	517	c.445G>T	c.(445-447)GGC>TGC	p.G149C		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	149						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ACGCCGGAAAGGCAACAGAAA	0.403													9	24					0.0477658	0.0481934	1	1	0		T	79025033	T	T	79025033	3	4	199	1	0	0	0	0	1	0	0	0	3593	1000	35	5	451	5	CMYA5	5	79025033	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10554944	79025033	101890227	379	97771											
THBS4	7060	broad.mit.edu	37	chr5	79368151	79368151	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttcccaatcgtgaccaaCgggacaaggatggtgatggt	12	9	12	8	2	0	2	0	2	0	0	2	4	1	4	2	4	1	0	2	4	4	1	rs148589675		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:79368151C>T	uc003kgh.2	+	15	2094	c.1771C>T	c.(1771-1773)CGG>TGG	p.R591W	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	591	TSP type-3 5.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		TCGTGACCAACGGGACAAGGA	0.468													62	386					0	0	1	0	0		T	79368151	T	T	79368151	3	4	199	1	0	0	0	0	1	0	0	0	15881	527	19	1	1825	1	THBS4	5	79368151	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	343118	79368151	101547109	380	97772											
ANKRD34B	340120	broad.mit.edu	37	chr5	79854681	79854681	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcctataagtgctttgccGtcttctgaagttggaggggt	6	16	12	7	1	2	1	0	1	2	0	3	2	3	2	2	3	2	2	2	3	3	6	rs141172423		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:79854681G>A	uc010jam.2	-	4	1508	c.1158C>T	c.(1156-1158)GAC>GAT	p.D386D	ANKRD34B_uc003kgw.2_Silent_p.D386D|ANKRD34B_uc010jan.2_Silent_p.D386D	NM_001004441	NP_001004441	A5PLL1	AN34B_HUMAN	ankyrin repeat domain 34B	386						cytoplasm|nucleus				pancreas(1)	1		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-46)|Epithelial(54;5.64e-41)|all cancers(79;3.24e-36)		GTGCTTTGCCGTCTTCTGAAG	0.463													13	39					0	0	1	0	0		A	79854681	A	A	79854681	2	1	199	1	0	0	0	0	0	0	0	1	663	1136	40	1		1	ANKRD34B	5	79854681	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	486530	79854681	101060579	381	97773											
LYSMD3	116068	broad.mit.edu	37	chr5	89815177	89815177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atgaatgacgtgaagtctgtCttccttttggaggacaaagt	11	13	11	6	1	2	3	0	3	2	0	3	5	3	5	1	2	0	0	1	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:89815177C>T	uc003kjr.2	-	3	528	c.380G>A	c.(379-381)AGA>AAA	p.R127K	LYSMD3_uc010jaz.1_Intron|LYSMD3_uc003kjs.1_Silent_p.K107K	NM_198273	NP_938014	Q7Z3D4	LYSM3_HUMAN	LysM, putative peptidoglycan-binding, domain	127	Extracellular (Potential).				cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)		TGAAGTCTGTCTTCCTTTTGG	0.393													8	64					0	0	1	0	0		T	89815177	T	T	89815177	3	4	199	1	0	0	0	0	1	0	0	0	9144	913	32	4	544	4	LYSMD3	5	89815177	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9960496	89815177	91100083	382	97774											
ELL2	22936	broad.mit.edu	37	chr5	95242268	95242268	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggagttcttgtctttttgatTgacaccatctttctggagtc	6	18	9	8	0	4	2	0	2	4	0	5	4	4	4	1	2	0	1	1	2	0	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:95242268T>C	uc003klr.3	-	5	1050	c.700A>G	c.(700-702)AAT>GAT	p.N234D		NM_012081	NP_036213	O00472	ELL2_HUMAN	elongation factor, RNA polymerase II, 2	234					regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter	transcription elongation factor complex				central_nervous_system(1)	1		all_cancers(142;2.04e-06)|all_epithelial(76;3.1e-09)|all_lung(232;0.00309)|Lung NSC(167;0.00454)|Ovarian(225;0.0165)|Colorectal(57;0.0343)|Breast(839;0.198)		all cancers(79;2.16e-15)		TCTTTTTGATTGACACCATCT	0.473													36	76					0	0	1	0	0		C	95242268	C	C	95242268	3	2	199	1	0	0	0	0	1	0	0	0	5071	1812	63	3	1254	3	ELL2	5	95242268	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	5427091	95242268	85672992	383	97775											
FAM174A	345757	broad.mit.edu	37	chr5	99871497	99871497	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggcaatggcagcaaccctgTggccgggcttgagacggacg	9	5	16	11	3	0	1	0	1	0	1	0	3	0	2	2	5	2	4	2	5	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:99871497T>C	uc003knj.1	+	1	383	c.263T>C	c.(262-264)GTG>GCG	p.V88A	uc003kni.2_5'Flank	NM_198507	NP_940909	Q8TBP5	F174A_HUMAN	family with sequence similarity 174, member A	88	Extracellular (Potential).					integral to membrane					0						AGCAACCCTGTGGCCGGGCTT	0.726													3	14					0	0	1	0	0		C	99871497	C	C	99871497	3	2	199	1	0	0	0	0	1	0	0	0	5506	1696	59	3	265	3	FAM174A	5	99871497	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	4629229	99871497	81043763	384	97776											
PGGT1B	5229	broad.mit.edu	37	chr5	114573651	114573651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaataactaagcatgagaggCcagtgtaggtcattgcaatg	14	9	12	6	0	1	1	1	1	0	1	1	3	1	1	1	2	3	3	1	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:114573651C>T	uc003kqw.3	-	4	404	c.383G>A	c.(382-384)GGC>GAC	p.G128D	PGGT1B_uc003kqx.3_Missense_Mutation_p.G5D|PGGT1B_uc010jch.2_Missense_Mutation_p.G128D	NM_005023	NP_005014	P53609	PGTB1_HUMAN	geranylgeranyltransferase type 1 beta	128					protein geranylgeranylation	CAAX-protein geranylgeranyltransferase complex	CAAX-protein geranylgeranyltransferase activity				0		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)	Pravastatin(DB00175)	GCATGAGAGGCCAGTGTAGGT	0.413													16	97					0	0	1	0	0		T	114573651	T	T	114573651	3	4	199	1	0	0	0	0	1	0	0	0	11808	739	26	2	774	2	PGGT1B	5	114573651	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	14702154	114573651	66341609	385	97777											
AP3S1	1176	broad.mit.edu	37	chr5	115230848	115230848	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctggatttgattttccatgTagacaaggtactatttgtat	10	17	9	5	0	0	2	0	1	0	1	1	3	1	3	1	2	1	4	1	2	5	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:115230848T>C	uc003krl.2	+	4	454	c.338T>C	c.(337-339)GTA>GCA	p.V113A	AP3S1_uc003krk.2_Missense_Mutation_p.V91A|AP3S1_uc003krm.2_Missense_Mutation_p.V113A	NM_001284	NP_001275	Q92572	AP3S1_HUMAN	adaptor-related protein complex 3, sigma 1	113					insulin receptor signaling pathway|intracellular protein transport|vesicle-mediated transport	AP-type membrane coat adaptor complex|cytoplasmic vesicle membrane|Golgi apparatus|transport vesicle	protein binding|protein transporter activity				0		all_cancers(142;0.00377)|all_epithelial(76;0.000129)|Prostate(80;0.0132)|Ovarian(225;0.0776)|Lung NSC(810;0.245)		OV - Ovarian serous cystadenocarcinoma(64;1.08e-07)|Epithelial(69;1.11e-06)|all cancers(49;5.2e-05)		ATTTTCCATGTAGACAAGGTA	0.269													7	44					0	0	1	0	0		C	115230848	C	C	115230848	3	2	199	1	0	0	0	0	1	0	0	0	749	1638	57	3	352	3	AP3S1	5	115230848	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	657197	115230848	65684412	386	97778											
SEMA6A	57556	broad.mit.edu	37	chr5	115782940	115782940	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgctggtagccctgctgcGtgatgggcaggaccaccacg	7	7	14	13	2	0	1	0	1	0	0	0	2	0	2	3	3	4	4	3	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:115782940G>A	uc010jck.2	-	19	3171	c.2462C>T	c.(2461-2463)ACG>ATG	p.T821M	SEMA6A_uc003krx.3_Missense_Mutation_p.T838M|SEMA6A_uc011cwe.1_Missense_Mutation_p.T200M|SEMA6A_uc003krv.3_Missense_Mutation_p.T248M|SEMA6A_uc003krw.3_Missense_Mutation_p.T298M|SEMA6A_uc010jcj.2_Missense_Mutation_p.T365M	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	821	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		GCCCTGCTGCGTGATGGGCAG	0.652													21	118					0	0	1	0	0		A	115782940	A	A	115782940	3	1	199	1	0	0	0	0	1	0	0	0	14064	1145	40	1	634	1	SEMA6A	5	115782940	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	552092	115782940	65132320	387	97779											
FAM170A	340069	broad.mit.edu	37	chr5	118969758	118969758	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacaacatgtctccttgtcGtcctattcatcctataagac	10	14	4	13	1	3	1	2	0	1	1	7	1	5	1	3	0	1	0	3	0	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:118969758G>A	uc003ksm.2	+	3	525	c.315G>A	c.(313-315)TCG>TCA	p.S105S	FAM170A_uc003ksl.2_Silent_p.S105S|FAM170A_uc003ksn.2_Silent_p.S105S|FAM170A_uc003kso.2_Silent_p.S58S	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	105						intracellular	zinc ion binding			skin(1)	1						TCTCCTTGTCGTCCTATTCAT	0.488													21	44					0	0	1	0	0		A	118969758	A	A	118969758	2	1	199	1	0	0	0	0	0	0	0	1	5500	1132	40	1		1	FAM170A	5	118969758	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3186818	118969758	61945502	388	97780											
MEGF10	84466	broad.mit.edu	37	chr5	126746174	126746174	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagtgttaccacgtgagcggCgcatgcctctgtgaagcagg	9	8	14	10	3	1	2	0	2	1	0	1	2	1	2	2	2	4	3	2	2	3	1	rs148970564		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:126746174C>T	uc003kuh.3	+	10	1373	c.1011C>T	c.(1009-1011)GGC>GGT	p.G337G	MEGF10_uc010jdc.1_Silent_p.G337G|MEGF10_uc010jdd.1_Silent_p.G337G|MEGF10_uc003kui.3_Silent_p.G337G	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	337	Extracellular (Potential).|EGF-like 6.|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ACGTGAGCGGCGCATGCCTCT	0.592													4	49					0	0	1	0	0		T	126746174	T	T	126746174	2	4	199	1	0	0	0	0	0	0	0	1	9478	755	27	1		1	MEGF10	5	126746174	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7776416	126746174	54169086	389	97781											
SHROOM1	134549	broad.mit.edu	37	chr5	132159629	132159629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctctgctaaaggaatcagtCcatccagcaggcccaggggt	10	7	11	13	0	2	0	1	0	1	0	4	1	4	1	4	4	2	2	4	4	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:132159629C>T	uc003kxx.2	-	7	2529	c.1724G>A	c.(1723-1725)GGA>GAA	p.G575E	SHROOM1_uc003kxy.1_Missense_Mutation_p.G575E	NM_133456	NP_597713	Q2M3G4	SHRM1_HUMAN	shroom family member 1	575	ASD2.				actin filament bundle assembly|cell morphogenesis	cytoplasm|microtubule	actin filament binding			pancreas(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGGAATCAGTCCATCCAGCAG	0.612													7	45					0	0	1	0	0		T	132159629	T	T	132159629	3	4	199	1	0	0	0	0	1	0	0	0	14318	855	30	4	850	4	SHROOM1	5	132159629	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5413455	132159629	48755631	390	97782											
AFF4	27125	broad.mit.edu	37	chr5	132232379	132232379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catctgaatctgaggatgagGtatctgtttctatgatttcc	9	16	9	7	0	4	4	0	4	4	0	5	5	5	5	1	2	0	2	1	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:132232379G>A	uc003kyd.2	-	11	2351	c.1943C>T	c.(1942-1944)ACC>ATC	p.T648I	AFF4_uc011cxk.1_Missense_Mutation_p.T326I|AFF4_uc003kye.1_Missense_Mutation_p.T648I	NM_014423	NP_055238	Q9UHB7	AFF4_HUMAN	ALL1 fused gene from 5q31	648					transcription from RNA polymerase II promoter	mitochondrion|nucleolus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)|kidney(2)|skin(1)	5		all_cancers(142;0.145)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TGAGGATGAGGTATCTGTTTC	0.433													4	47					0	0	1	0	0		A	132232379	A	A	132232379	3	1	199	1	0	0	0	0	1	0	0	0	359	1261	44	4	1592	4	AFF4	5	132232379	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	72750	132232379	48682881	391	97783											
PHF15	23338	broad.mit.edu	37	chr5	133873698	133873698	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcatgcgacatctacatcCgcatcaagatgctccaaact	12	9	7	13	2	3	1	2	0	1	1	5	2	5	1	2	1	4	2	2	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:133873698C>T	uc003kzo.1	+	3	257	c.78C>T	c.(76-78)TCC>TCT	p.S26S	PHF15_uc011cxt.1_Silent_p.S26S|PHF15_uc003kzk.2_Silent_p.S42S|PHF15_uc003kzl.2_Silent_p.S26S|PHF15_uc003kzm.2_Silent_p.S26S|PHF15_uc003kzn.2_Silent_p.S26S	NM_015288	NP_056103	Q9NQC1	JADE2_HUMAN	PHD finger protein 15	26					histone H3 acetylation|histone H4-K12 acetylation|histone H4-K5 acetylation|histone H4-K8 acetylation	histone acetyltransferase complex	zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CATCTACATCCGCATCAAGAT	0.552													8	88					0	0	1	0	0		T	133873698	T	T	133873698	2	4	199	1	0	0	0	0	0	0	0	1	11845	639	23	1		1	PHF15	5	133873698	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1641319	133873698	47041562	392	97784											
TGFBI	7045	broad.mit.edu	37	chr5	135398902	135398902	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatcaaaagttattagagaGgatgaagcattagcttgaag	16	11	10	4	0	1	3	1	2	0	1	1	5	1	4	0	1	2	3	0	1	8	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:135398902G>T	uc003lbf.3	+	17	2200	c.2039G>T	c.(2038-2040)AGG>ATG	p.R680M	TGFBI_uc003lbg.3_Missense_Mutation_p.R413M|TGFBI_uc003lbh.3_Missense_Mutation_p.R506M|TGFBI_uc011cyb.1_Missense_Mutation_p.R506M|TGFBI_uc010jed.2_Missense_Mutation_p.R378M|TGFBI_uc010jee.2_RNA	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	680					angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TTATTAGAGAGGATGAAGCAT	0.438													9	23					2.17888e-05	2.27193e-05	1	1	0		T	135398902	T	T	135398902	3	4	199	1	0	0	0	0	1	0	0	0	15845	1000	35	5	2105	5	TGFBI	5	135398902	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1525204	135398902	45516358	393	97785											
TRPC7	57113	broad.mit.edu	37	chr5	135587451	135587451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggaaggccatgaagcGtgctgtgaaggaggccacga	11	6	15	9	2	1	2	1	2	0	0	1	5	1	4	2	4	2	1	2	4	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:135587451G>A	uc003lbn.1	-	5	1465	c.1462C>T	c.(1462-1464)CGC>TGC	p.R488C	TRPC7_uc010jef.1_Missense_Mutation_p.R425C|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Missense_Mutation_p.R419C|TRPC7_uc010jei.1_Missense_Mutation_p.R364C|TRPC7_uc010jej.1_Missense_Mutation_p.R40C	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	489	Extracellular (Potential).				axon guidance|platelet activation	integral to membrane|plasma membrane	calcium channel activity|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GCCATGAAGCGTGCTGTGAAG	0.602													7	38					0	0	1	0	0		A	135587451	A	A	135587451	3	1	199	1	0	0	0	0	1	0	0	0	16610	1145	40	1	1151	1	TRPC7	5	135587451	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	188549	135587451	45327809	394	97786											
PCDHA2	56146	broad.mit.edu	37	chr5	140174696	140174696	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttcgtgggccgcatcgcGcaggacctggggctggagct	5	7	16	13	4	0	0	0	0	0	0	2	2	0	2	3	5	1	4	3	5	0	1	rs144324178	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140174696G>A	uc003lhd.2	+	1	253	c.147G>A	c.(145-147)GCG>GCA	p.A49A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.A49A|PCDHA2_uc011czy.1_Silent_p.A49A	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	49	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCGCATCGCGCAGGACCTGG	0.667													34	72					0	0	1	0	0		A	140174696	A	A	140174696	2	1	199	1	0	0	0	0	0	0	0	1	11543	1074	38	1		1	PCDHA2	5	140174696	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4587245	140174696	40740564	395	97787											
PCDHA2	56146	broad.mit.edu	37	chr5	140175430	140175430	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cactatacagactaagtttaCcatagatcccatctcagggg	13	10	7	11	0	1	2	1	0	1	2	3	2	2	2	2	2	2	1	2	2	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140175430C>G	uc003lhd.2	+	1	987	c.881C>G	c.(880-882)ACC>AGC	p.T294S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.T294S|PCDHA2_uc011czy.1_Missense_Mutation_p.T294S	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	294	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTAAGTTTACCATAGATCCC	0.428													15	95					0	0	1	0	0		G	140175430	G	G	140175430	3	3	199	1	0	0	0	0	1	0	0	0	11543	507	18	5	883	5	PCDHA2	5	140175430	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	734	140175430	40739830	396	97788											
PCDHA4	56144	broad.mit.edu	37	chr5	140188556	140188556	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgtggtggcaaaggtgcGcgcggtggatgctgactcgg	6	7	18	10	5	0	1	0	1	0	0	1	2	0	2	1	6	2	2	1	6	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140188556G>A	uc003lhi.2	+	1	1885	c.1784G>A	c.(1783-1785)CGC>CAC	p.R595H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.R595H|PCDHA4_uc011daa.1_Missense_Mutation_p.R595H	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	595	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAAAGGTGCGCGCGGTGGAT	0.697													33	73					0	0	1	0	0		A	140188556	A	A	140188556	3	1	199	1	0	0	0	0	1	0	0	0	11545	1087	38	1	1786	1	PCDHA4	5	140188556	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	13126	140188556	40726704	397	97789											
PCDHA5	56143	broad.mit.edu	37	chr5	140201489	140201489	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagccaaacacggaaccttCgttggccgcatcgcgcagga	11	5	12	13	5	0	0	0	0	0	0	2	3	0	2	3	3	3	3	3	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140201489C>T	uc003lhl.2	+	1	129	c.129C>T	c.(127-129)TTC>TTT	p.F43F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.F43F|PCDHA5_uc003lhj.1_Silent_p.F43F	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	43	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGGAACCTTCGTTGGCCGCA	0.667													34	72					0	0	1	0	0		T	140201489	T	T	140201489	2	4	199	1	0	0	0	0	0	0	0	1	11546	883	31	1		1	PCDHA5	5	140201489	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	12933	140201489	40713771	398	97790											
PCDHA5	56143	broad.mit.edu	37	chr5	140201685	140201685	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatccacctggaggtgatcGtggacaggccgctgcaggtt	7	8	15	11	2	0	1	0	1	0	0	2	3	1	3	3	5	1	4	3	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140201685G>A	uc003lhl.2	+	1	325	c.325G>A	c.(325-327)GTG>ATG	p.V109M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.V109M|PCDHA5_uc003lhj.1_Missense_Mutation_p.V109M	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	109	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGAGGTGATCGTGGACAGGCC	0.527													56	138					0	0	1	0	0		A	140201685	A	A	140201685	3	1	199	1	0	0	0	0	1	0	0	0	11546	1145	40	1	327	1	PCDHA5	5	140201685	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	196	140201685	40713575	399	97791											
PCDHA6	56142	broad.mit.edu	37	chr5	140209128	140209128	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcgcgagacgcggacgcGcaggagaacgcgctggtgtc	7	5	17	12	8	1	2	0	0	1	2	2	5	1	3	0	3	2	2	0	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140209128G>A	uc003lho.2	+	1	1479	c.1452G>A	c.(1450-1452)GCG>GCA	p.A484A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.A484A|PCDHA6_uc011dab.1_Silent_p.A484A	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	484	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGCGGACGCGCAGGAGAACG	0.662													27	71					0	0	1	0	0		A	140209128	A	A	140209128	2	1	199	1	0	0	0	0	0	0	0	1	11547	1074	38	1		1	PCDHA6	5	140209128	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7443	140209128	40706132	400	97792											
PCDHA12	56137	broad.mit.edu	37	chr5	140255202	140255202	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaccttcgtgggccgcatcGctcaggacctggggctggag	5	7	16	13	3	1	0	1	0	0	0	3	2	1	2	3	5	0	4	3	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140255202G>A	uc003lic.2	+	1	272	c.145G>A	c.(145-147)GCT>ACT	p.A49T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.A49T	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	49	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCCGCATCGCTCAGGACCT	0.652													18	73					0	0	1	0	0		A	140255202	A	A	140255202	3	1	199	1	0	0	0	0	1	0	0	0	11541	1087	38	1	147	1	PCDHA12	5	140255202	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	46074	140255202	40660058	401	97793											
PCDHA12	56137	broad.mit.edu	37	chr5	140256424	140256424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgacaatgcgcctgcgttcgCgcagcccgagtacacagtgt	8	7	12	14	6	0	0	0	0	0	0	1	2	0	0	2	0	4	3	2	0	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140256424C>T	uc003lic.2	+	1	1494	c.1367C>T	c.(1366-1368)GCG>GTG	p.A456V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.A456V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	456	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGCGTTCGCGCAGCCCGAG	0.662													39	99					0	0	1	0	0		T	140256424	T	T	140256424	3	4	199	1	0	0	0	0	1	0	0	0	11541	768	27	1	1369	1	PCDHA12	5	140256424	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1222	140256424	40658836	402	97794											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308873	140308873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatatcctgtattcagattcGgaataggaaaggggatcacg	14	10	11	6	2	2	1	2	0	0	1	4	4	3	4	1	4	0	1	1	4	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140308873G>A	uc003lih.2	+	1	2572	c.2396G>A	c.(2395-2397)CGG>CAG	p.R799Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.R799Q	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	799	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTCAGATTCGGAATAGGAAA	0.453													55	144					0	0	1	0	0		A	140308873	A	A	140308873	3	1	199	1	0	0	0	0	1	0	0	0	11551	1116	39	1	2398	1	PCDHAC1	5	140308873	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	52449	140308873	40606387	403	97795											
PCDHB1	29930	broad.mit.edu	37	chr5	140432846	140432846	+	Silent	SNP	A	G	G	1	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	gtggctgtggatggtgactcAggtcagaattcttggctttc	6	14	14	7	0	3	2	2	1	1	1	4	3	3	3	0	5	0	2	0	5	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140432846A>G	uc003lik.1	+	1	1868	c.1791A>G	c.(1789-1791)TCA>TCG	p.S597S		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	597	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATGGTGACTCAGGTCAGAATT	0.488													11	29					0	0	1	0	0		G	140432846	G	G	140432846	2	3	199	1	0	0	0	0	0	0	0	1	11553	175	7	3		3	PCDHB1	5	140432846	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	123973	140432846	40482414	404	97796											
PCDHB2	56133	broad.mit.edu	37	chr5	140476383	140476383	+	Missense_Mutation	SNP	A	G	G	1	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	cctggtggacggcttctcccAgccctacctgctgctcccgg	3	9	11	18	2	1	0	0	0	1	0	3	1	2	1	5	4	4	3	5	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140476383A>G	uc003lil.2	+	1	2147	c.2009A>G	c.(2008-2010)CAG>CGG	p.Q670R	PCDHB2_uc003lim.1_Missense_Mutation_p.Q331R	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	670	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCTTCTCCCAGCCCTACCTG	0.692													18	158					0	0	1	0	0		G	140476383	G	G	140476383	3	3	199	1	0	0	0	0	1	0	0	0	11561	188	7	3	2011	3	PCDHB2	5	140476383	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	43537	140476383	40438877	405	97797											
PCDHB3	56132	broad.mit.edu	37	chr5	140482363	140482363	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggtgctcctgttcgtggcGgtgcggctgtgcaggaggag	3	10	19	9	4	0	0	0	0	0	0	3	2	1	2	1	6	3	4	1	6	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140482363G>A	uc003lio.2	+	1	2130	c.2130G>A	c.(2128-2130)GCG>GCA	p.A710A	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	710	Helical; (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGTTCGTGGCGGTGCGGCTGT	0.687													18	154					0	0	1	0	0		A	140482363	A	A	140482363	2	1	199	1	0	0	0	0	0	0	0	1	11562	1103	39	1		1	PCDHB3	5	140482363	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5980	140482363	40432897	406	97798											
PCDHB5	26167	broad.mit.edu	37	chr5	140515304	140515304	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagaccgggaggtgatgtgCggggcgacagaaccctgtat	9	7	16	9	3	0	3	0	1	0	2	0	5	0	4	2	4	2	1	2	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140515304C>T	uc003liq.2	+	1	505	c.288C>T	c.(286-288)TGC>TGT	p.C96C		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	96	Extracellular (Potential).|Cadherin 1.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGGTGATGTGCGGGGCGACAG	0.433													13	84					0	0	1	0	0		T	140515304	T	T	140515304	2	4	199	1	0	0	0	0	0	0	0	1	11564	776	27	1		1	PCDHB5	5	140515304	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	32941	140515304	40399956	407	97799											
PCDHB5	26167	broad.mit.edu	37	chr5	140517028	140517028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctcccagccctacctgcCgctgccggaggcggccccgg	3	6	12	20	4	1	0	0	0	1	0	2	1	1	1	7	4	4	1	7	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140517028C>T	uc003liq.2	+	1	2229	c.2012C>T	c.(2011-2013)CCG>CTG	p.P671L		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	671	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCCTACCTGCCGCTGCCGGAG	0.692													19	103					0	0	1	0	0		T	140517028	T	T	140517028	3	4	199	1	0	0	0	0	1	0	0	0	11564	652	23	1	2014	1	PCDHB5	5	140517028	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1724	140517028	40398232	408	97800											
PCDHB9	56127	broad.mit.edu	37	chr5	140567733	140567733	+	Frame_Shift_Del	DEL	T	-	-																															atgcagaagtatcctattcaTtttttgatgcttctgaagat																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140567733delT	uc003liw.1	+	1	841	c.841delT	c.(841-843)TTTfs	p.F281fs		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	281	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCCTATTCATTTTTTGATGC	0.383													4	9	---	---	---	---						.	-	140567733	-	-	140567733	7	5	199	1	0	1	0	1	0	0	0	0	11568	1493	52	0	843	0	PCDHB9	5	140567733	Frame_Shift_Del	DEL	T	TCGA-HF-7132-01A-11D-2053-08	50705	140567733	40347527	409	97801											
PCDHGA1	56114	broad.mit.edu	37	chr5	140711013	140711013	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catataaatgtccccgaaaaCgtgccgctgggtactcagct	11	9	9	12	3	1	0	1	0	0	0	2	1	2	0	3	1	4	3	3	1	6	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140711013C>T	uc003lji.1	+	1	762	c.762C>T	c.(760-762)AAC>AAT	p.N254N	PCDHGA1_uc011dan.1_Silent_p.N254N	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	254	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCCCGAAAACGTGCCGCTGG	0.488													10	54					0	0	1	0	0		T	140711013	T	T	140711013	2	4	199	1	0	0	0	0	0	0	0	1	11569	535	19	1		1	PCDHGA1	5	140711013	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	143280	140711013	40204247	410	97802											
PCDHGA3	56112	broad.mit.edu	37	chr5	140723769	140723769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacctggggctagagcccCgggagctggcggagcgcgga	7	3	19	12	5	0	1	0	0	0	1	0	5	0	4	3	6	3	2	3	6	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140723769C>T	uc003ljm.1	+	1	169	c.169C>T	c.(169-171)CGG>TGG	p.R57W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Missense_Mutation_p.R57W	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	57	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTAGAGCCCCGGGAGCTGGC	0.602											OREG0016855	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	100					0	0	1	0	0		T	140723769	T	T	140723769	3	4	199	1	0	0	0	0	1	0	0	0	11574	643	23	1	171	1	PCDHGA3	5	140723769	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	12756	140723769	40191491	411	97803											
PCDHGA5	56110	broad.mit.edu	37	chr5	140744911	140744911	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggtggtcacagtacaGgacgtgaatgacaatgcccc	12	7	13	9	1	1	2	1	2	0	0	1	3	1	3	2	4	2	1	2	4	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140744911G>T	uc003lju.1	+	1	1014	c.1014G>T	c.(1012-1014)CAG>CAT	p.Q338H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.Q338H	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	338	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCACAGTACAGGACGTGAATG	0.512													8	43					5.68852e-11	6.21917e-11	1	1	0		T	140744911	T	T	140744911	3	4	199	1	0	0	0	0	1	0	0	0	11576	991	35	5	1016	5	PCDHGA5	5	140744911	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	21142	140744911	40170349	412	97804											
PCDHGB7	56099	broad.mit.edu	37	chr5	140799068	140799068	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcagcgccaatgtgagcCtgcgcgtgttggtgggcgac	5	8	16	12	5	1	1	1	1	0	0	1	2	1	1	2	2	3	2	2	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140799068C>T	uc003lkn.1	+	1	1787	c.1642C>T	c.(1642-1644)CTG>TTG	p.L548L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkm.2_Silent_p.L548L|PCDHGA11_uc003lko.1_5'Flank|PCDHGA11_uc003lkp.1_5'Flank|PCDHGA11_uc003lkq.1_5'Flank	NM_018927	NP_061750	Q9Y5F8	PCDGJ_HUMAN	protocadherin gamma subfamily B, 7 isoform 1	548	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAATGTGAGCCTGCGCGTGTT	0.716													6	42					0	0	1	0	0		T	140799068	T	T	140799068	2	4	199	1	0	0	0	0	0	0	0	1	11587	680	24	4		4	PCDHGB7	5	140799068	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	54157	140799068	40116192	413	97805											
PCDHGA11	56105	broad.mit.edu	37	chr5	140800954	140800954	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcaatatctccaaggacctgGggctggagccccgggagctg	8	6	15	12	1	1	0	0	0	1	0	2	3	1	3	4	5	2	3	4	5	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:140800954G>T	uc003lkq.1	+	1	418	c.160G>T	c.(160-162)GGG>TGG	p.G54W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.G54W|PCDHGA11_uc003lkp.1_Missense_Mutation_p.G54W	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	54	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAAGGACCTGGGGCTGGAGCC	0.632													5	59					1.58986e-06	1.68535e-06	1	1	0		T	140800954	T	T	140800954	3	4	199	1	0	0	0	0	1	0	0	0	11571	1232	43	5	162	5	PCDHGA11	5	140800954	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1886	140800954	40114306	414	97806											
HDAC3	8841	broad.mit.edu	37	chr5	141004855	141004855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggaggtctgcaggcacGtcatgaatctggacactagg	10	8	14	9	1	4	1	2	1	2	0	4	3	4	3	0	5	1	2	0	5	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:141004855G>A	uc003llf.2	-	14	1203	c.1137C>T	c.(1135-1137)GAC>GAT	p.D379D	HDAC3_uc003lle.1_Silent_p.D322D	NM_003883	NP_003874	O15379	HDAC3_HUMAN	histone deacetylase 3	379					anti-apoptosis|cellular lipid metabolic process|negative regulation of cell cycle|negative regulation of JNK cascade|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|spindle assembly|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|spindle microtubule|transcriptional repressor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription corepressor activity|transcription factor binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Vorinostat(DB02546)	CTGCAGGCACGTCATGAATCT	0.512													69	181					0	0	1	0	0		A	141004855	A	A	141004855	2	1	199	1	0	0	0	0	0	0	0	1	7024	1136	40	1		1	HDAC3	5	141004855	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	203901	141004855	39910405	415	97807											
KIAA0141	9812	broad.mit.edu	37	chr5	141304247	141304247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccactttgctggttcctgtgCctaacctcgacaggtaagat	8	12	9	12	1	0	1	0	0	0	1	2	2	1	1	4	2	3	3	4	2	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:141304247C>T	uc003lls.2	+	2	255	c.133C>T	c.(133-135)CCT>TCT	p.P45S	KIAA0141_uc003llt.2_Missense_Mutation_p.P45S	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	45					apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTTCCTGTGCCTAACCTCGA	0.438													4	79					0	0	1	0	0		T	141304247	T	T	141304247	3	4	199	1	0	0	0	0	1	0	0	0	8172	739	26	2	139	2	KIAA0141	5	141304247	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	299392	141304247	39611013	416	97808											
SPINK13	153218	broad.mit.edu	37	chr5	147661674	147661674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtatttgcagccccgatGtaaaatgtatatcccactgg	11	12	8	10	1	0	0	0	0	0	0	1	1	1	0	3	1	2	4	3	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:147661674G>A	uc003lpc.2	+	4	178	c.116G>A	c.(115-117)TGT>TAT	p.C39Y	uc003lpb.1_Intron|SPINK13_uc010jgt.2_RNA	NM_001040129	NP_001035218	Q1W4C9	ISK13_HUMAN	serine PI Kazal type 5-like 3 precursor	39	Kazal-like.					extracellular region	serine-type endopeptidase inhibitor activity				0						CAGCCCCGATGTAAAATGTAT	0.418													25	150					0	0	1	0	0		A	147661674	A	A	147661674	3	1	199	1	0	0	0	0	1	0	0	0	15083	1377	48	4	126	4	SPINK13	5	147661674	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6357427	147661674	33253586	417	97809											
AFAP1L1	134265	broad.mit.edu	37	chr5	148691717	148691717	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagttgggggagctgagggaGtggaggtccccagatcccca	8	6	17	10	0	0	2	0	1	0	1	2	5	2	5	4	5	1	2	4	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:148691717G>A	uc003lqh.2	+	9	1101	c.970G>A	c.(970-972)GTG>ATG	p.V324M	AFAP1L1_uc003lqg.3_Missense_Mutation_p.V324M|AFAP1L1_uc010jgy.2_Missense_Mutation_p.V324M	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	324							protein binding			breast(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTGAGGGAGTGGAGGTCCC	0.572													5	185					0	0	1	0	0		A	148691717	A	A	148691717	3	1	199	1	0	0	0	0	1	0	0	0	354	1029	36	4	1004	4	AFAP1L1	5	148691717	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1030043	148691717	32223543	418	97810											
TIGD6	81789	broad.mit.edu	37	chr5	149374812	149374812	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tctgccaacatttcaccactGtggatggcttgactgaccac	9	11	8	13	0	2	2	1	2	1	0	2	3	2	3	3	2	2	1	3	2	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:149374812G>A	uc003lri.2	-	2	1862	c.1100C>T	c.(1099-1101)ACA>ATA	p.T367I	TIGD6_uc003lrj.2_Missense_Mutation_p.T367I	NM_030953	NP_112215	Q17RP2	TIGD6_HUMAN	hypothetical protein LOC81789	367	DDE.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			TTTCACCACTGTGGATGGCTT	0.502													35	124					0	0	1	0	0		A	149374812	A	A	149374812	3	1	199	1	0	0	0	0	1	0	0	0	15925	1377	48	4	469	4	TIGD6	5	149374812	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	683095	149374812	31540448	419	97811											
SYNPO	11346	broad.mit.edu	37	chr5	150029852	150029852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttctctacccggaacgccgGgatcgaggctcaggtgtgga	7	8	14	12	4	2	0	1	0	1	0	4	4	2	3	2	5	2	1	2	5	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:150029852G>A	uc003lsn.2	+	3	3121	c.2747G>A	c.(2746-2748)GGG>GAG	p.G916E	SYNPO_uc003lso.3_Missense_Mutation_p.G672E|SYNPO_uc003lsp.2_Missense_Mutation_p.G672E	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	916					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGGAACGCCGGGATCGAGGCT	0.632													17	51					0	0	1	0	0		A	150029852	A	A	150029852	3	1	199	1	0	0	0	0	1	0	0	0	15481	1232	43	4	2753	4	SYNPO	5	150029852	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	655040	150029852	30885408	420	97812											
FAT2	2196	broad.mit.edu	37	chr5	150908810	150908810	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggatcttgggggaattgggGccggtgttcattgacatcag	7	12	16	6	1	3	1	2	1	1	0	3	3	3	3	1	6	0	1	1	6	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:150908810G>A	uc003lue.3	-	14	9968	c.9955C>T	c.(9955-9957)CCC>TCC	p.P3319S	GM2A_uc011dcs.1_Intron|FAT2_uc003lud.3_Missense_Mutation_p.P12S	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	3319	Extracellular (Potential).|Cadherin 29.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGGAATTGGGGCCGGTGTTCA	0.522													12	110					0	0	1	0	0		A	150908810	A	A	150908810	3	1	199	1	0	0	0	0	1	0	0	0	5704	1203	42	2	3134	2	FAT2	5	150908810	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	878958	150908810	30006450	421	97813											
FAT2	2196	broad.mit.edu	37	chr5	150924238	150924238	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcctcactctggagggatggCgttcctccatcccgagcaat	7	10	10	14	2	2	0	1	0	1	0	6	3	6	2	4	3	1	2	4	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:150924238C>T	uc003lue.3	-	9	6463	c.6450G>A	c.(6448-6450)ACG>ACA	p.T2150T	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	2150	Extracellular (Potential).|Cadherin 18.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGAGGGATGGCGTTCCTCCAT	0.413													31	154					0	0	1	0	0		T	150924238	T	T	150924238	2	4	199	1	0	0	0	0	0	0	0	1	5704	755	27	1		1	FAT2	5	150924238	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	15428	150924238	29991022	422	97814											
LARP1	23367	broad.mit.edu	37	chr5	154172187	154172187	+	Silent	SNP	G	A	A	0	0	1	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	tacttcctgctatagccacaGtcccacaagcctcagcctac	10	9	5	17	0	1	0	1	0	0	0	3	0	3	0	5	0	6	1	5	0	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:154172187G>A	uc003lvp.2	+	4	999	c.570G>A	c.(568-570)CAG>CAA	p.Q190Q	LARP1_uc003lvo.2_Silent_p.Q113Q|LARP1_uc010jie.1_5'UTR	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2	190							protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TATAGCCACAGTCCCACAAGC	0.517													6	180					0	0	1	0	0		A	154172187	A	A	154172187	2	1	199	1	0	0	0	0	0	0	0	1	8644	1020	36	4		4	LARP1	5	154172187	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3247949	154172187	26743073	423	97815											
LARP1	23367	broad.mit.edu	37	chr5	154183869	154183869	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccgtactgcttccatcaggTacctggggcagtgggggaag	7	8	15	11	1	1	0	1	0	0	0	2	1	2	1	3	5	3	4	3	5	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:154183869T>C	uc003lvp.2	+	14	2975	c.2546_splice	c.e14+2	p.S849_splice	LARP1_uc003lvo.2_Splice_Site_p.S772_splice	NM_033551	NP_291029	Q6PKG0	LARP1_HUMAN	la related protein isoform 2								protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TTCCATCAGGTACCTGGGGCA	0.532													20	88					0	0	1	0	0		C	154183869	C	C	154183869	5	2	199	1	0	0	0	0	0	0	1	0	8644	1652	57	3	2371	3	LARP1	5	154183869	Splice_Site	SNP	T	TCGA-HF-7132-01A-11D-2053-08	11682	154183869	26731391	424	97816											
ADRA1B	147	broad.mit.edu	37	chr5	159344089	159344089	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgccttcatcctctttgcCatcgtgggcaacatcctagt	6	12	9	14	2	2	0	1	0	1	0	5	0	4	0	4	2	2	1	4	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:159344089C>T	uc003lxt.1	+	1	350	c.177C>T	c.(175-177)GCC>GCT	p.A59A		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	59	Helical; Name=1; (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	TCCTCTTTGCCATCGTGGGCA	0.617													30	87					0	0	1	0	0		T	159344089	T	T	159344089	2	4	199	1	0	0	0	0	0	0	0	1	335	581	21	4		4	ADRA1B	5	159344089	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5160220	159344089	21571171	425	97817											
TLX3	30012	broad.mit.edu	37	chr5	170736389	170736389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatggaggcgcccgccagcgCgcagaccccgcacccgcacg	7	1	14	19	7	0	1	0	0	0	1	0	3	0	2	5	2	1	3	5	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:170736389C>T	uc003mbf.2	+	1	102	c.20C>T	c.(19-21)GCG>GTG	p.A7V	uc003mbe.1_5'Flank	NM_021025	NP_066305	O43711	TLX3_HUMAN	T-cell leukemia homeobox 3	7						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			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)			CCCGCCAGCGCGCAGACCCCG	0.771			T	BCL11B	T-ALL								8	22					0	0	1	0	0		T	170736389	T	T	170736389	3	4	199	1	0	0	0	0	1	0	0	0	15987	768	27	1	22	1	TLX3	5	170736389	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	11392300	170736389	10178871	426	97818											
HK3	3101	broad.mit.edu	37	chr5	176311062	176311062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcgagtgatggcttccCgcaacagactcacgacatct	9	9	10	13	3	3	2	1	1	2	1	4	4	4	2	1	1	2	2	1	1	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:176311062C>T	uc003mfa.2	-	14	2023	c.1931G>A	c.(1930-1932)CGG>CAG	p.R644Q	HK3_uc003mez.2_Missense_Mutation_p.R200Q	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	644	Catalytic.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity	p.R644W(1)		ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|Renal(175;0.000269)|Lung NSC(126;0.00696)|all_lung(126;0.0115)	Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GATGGCTTCCCGCAACAGACT	0.587													24	120					0	0	1	0	0		T	176311062	T	T	176311062	3	4	199	1	0	0	0	0	1	0	0	0	7208	652	23	1	864	1	HK3	5	176311062	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5574673	176311062	4604198	427	97819											
GRK6	2870	broad.mit.edu	37	chr5	176858998	176858998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccatcactgccaacagagCgtgactatcacagcctgtgc	10	9	8	14	1	2	2	2	1	0	1	3	2	3	2	3	0	5	0	3	0	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:176858998C>T	uc011dfz.1	+	3	311	c.151C>T	c.(151-153)CGT>TGT	p.R51C	GRK6_uc003mgp.2_Missense_Mutation_p.R51C|GRK6_uc003mgq.2_Missense_Mutation_p.R51C|GRK6_uc003mgs.1_Missense_Mutation_p.R21C	NM_002082	NP_002073	P43250	GRK6_HUMAN	G protein-coupled receptor kinase 6 isoform B	51	N-terminal.				regulation of G-protein coupled receptor protein signaling pathway	membrane	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)|stomach(1)|breast(1)	3	all_cancers(89;1.15e-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)			GCCAACAGAGCGTGACTATCA	0.657													23	108					0	0	1	0	0		T	176858998	T	T	176858998	3	4	199	1	0	0	0	0	1	0	0	0	6809	768	27	1	161	1	GRK6	5	176858998	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	547936	176858998	4056262	428	97820											
DDX41	51428	broad.mit.edu	37	chr5	176938902	176938902	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agtgatccgatgacccaggcCcccgcagaaggcacagccgc	10	3	12	16	3	0	3	0	2	0	1	1	4	1	3	5	2	1	2	5	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:176938902C>A	uc003mho.2	-	17	1780	c.1759G>T	c.(1759-1761)GGC>TGC	p.G587C	DOK3_uc003mhi.3_5'Flank|DOK3_uc003mhj.3_5'Flank|DOK3_uc003mhk.2_5'Flank|DOK3_uc003mhl.2_5'Flank|DDX41_uc003mhm.2_Missense_Mutation_p.G367C|DDX41_uc003mhn.2_Missense_Mutation_p.G456C|DDX41_uc003mhp.2_Missense_Mutation_p.G456C	NM_016222	NP_057306	Q9UJV9	DDX41_HUMAN	DEAD-box protein abstrakt	587	CCHC-type.				apoptosis|multicellular organismal development	catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|zinc ion binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			TGACCCAGGCCCCCGCAGAAG	0.632													11	41					1.5842e-08	1.71154e-08	1	1	0		A	176938902	A	A	176938902	3	1	199	1	0	0	0	0	1	0	0	0	4364	623	22	5	113	5	DDX41	5	176938902	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	79904	176938902	3976358	429	97821											
FLT4	2324	broad.mit.edu	37	chr5	180046343	180046343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctccgacatcagcgcgcGgtgctcgctggccgtggcgc	4	6	16	15	7	1	0	1	0	0	0	3	2	2	0	2	3	3	3	2	3	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr5:180046343G>A	uc003mma.3	-	19	2750	c.2671C>T	c.(2671-2673)CGC>TGC	p.R891C	FLT4_uc003mlz.3_Missense_Mutation_p.R891C	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	891	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	ATCAGCGCGCGGTGCTCGCTG	0.697									Congenital_Hereditary_Lymphedema				10	32					0	0	1	0	0		A	180046343	A	A	180046343	3	1	199	1	0	0	0	0	1	0	0	0	5958	1116	39	1	1476	1	FLT4	5	180046343	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3107441	180046343	868917	430	97822											
DUSP22	56940	broad.mit.edu	37	chr6	348149	348149	+	Missense_Mutation	SNP	A	G	G	1	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	cactggtgatcgcatacatcAtgaccgtcactgactttggc	9	11	9	12	2	2	3	2	3	0	0	3	3	2	3	1	2	1	1	1	2	1	2	rs147274051		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:348149A>G	uc003msx.2	+	6	749	c.310A>G	c.(310-312)ATG>GTG	p.M104V	DUSP22_uc011dhn.1_Missense_Mutation_p.M104V|DUSP22_uc003msy.1_Missense_Mutation_p.M61V	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	104	Tyrosine-protein phosphatase.				apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		CGCATACATCATGACCGTCAC	0.607													26	305					0	0	1	0	0		G	348149	G	G	348149	3	3	199	1	0	0	0	0	1	0	0	0	4827	217	8	3	332	3	DUSP22	6	348149	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08		348149	170766918	431	97823											
FAM50B	26240	broad.mit.edu	37	chr6	3850780	3850780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggaggacctcatcctgccGcactaccacaccttctacga	11	7	7	16	2	2	0	1	0	1	0	3	3	3	2	5	2	3	1	5	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:3850780G>A	uc003mvu.2	+	2	847	c.735G>A	c.(733-735)CCG>CCA	p.P245P		NM_012135	NP_036267	Q9Y247	FA50B_HUMAN	family with sequence similarity 50, member B	245						nucleus				pancreas(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				TCATCCTGCCGCACTACCACA	0.632													14	30					0	0	1	0	0		A	3850780	A	A	3850780	2	1	199	1	0	0	0	0	0	0	0	1	5592	1074	38	1		1	FAM50B	6	3850780	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3502631	3850780	167264287	432	97824											
CDYL	9425	broad.mit.edu	37	chr6	4952571	4952571	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagggcctggtctcccaGgtgttttggcccgggacgtt	4	10	16	11	2	1	0	0	0	1	0	2	1	1	1	3	6	0	3	3	6	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:4952571G>A	uc003mwi.2	+	8	1697	c.1566G>A	c.(1564-1566)CAG>CAA	p.Q522Q	CDYL_uc003mwj.2_Silent_p.Q468Q|CDYL_uc003mwk.2_Silent_p.Q233Q|CDYL_uc011dhx.1_Silent_p.Q336Q|CDYL_uc011dhy.1_Silent_p.Q336Q	NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform	522					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		TGGTCTCCCAGGTGTTTTGGC	0.527													17	36					0	0	1	0	0		A	4952571	A	A	4952571	2	1	199	1	0	0	0	0	0	0	0	1	3188	991	35	4		4	CDYL	6	4952571	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1101791	4952571	166162496	433	97825											
LRRC16A	55604	broad.mit.edu	37	chr6	25450638	25450638	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagggaagaagtacaatggGtaagaatgtctgtgtacatg	15	9	13	4	0	1	2	0	0	1	2	1	3	1	3	0	2	2	3	0	2	7	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:25450638G>A	uc011djw.1	+	7	916	c.540_splice	c.e7+1	p.W180_splice	LRRC16A_uc010jpx.2_Splice_Site_p.W180_splice|LRRC16A_uc010jpy.2_Splice_Site_p.W180_splice|LRRC16A_uc003nez.1_Splice_Site_p.W19_splice	NM_017640	NP_060110	Q5VZK9	LR16A_HUMAN	leucine rich repeat containing 16A						actin filament organization|blood coagulation|cell migration|lamellipodium assembly|ruffle organization|urate metabolic process	cytosol|lamellipodium|nucleus				ovary(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4						AGTACAATGGGTAAGAATGTC	0.388													3	24					0	0	1	0	0		A	25450638	A	A	25450638	5	1	199	1	0	0	0	0	0	0	1	0	8989	1275	44	4	567	4	LRRC16A	6	25450638	Splice_Site	SNP	G	TCGA-HF-7132-01A-11D-2053-08	20498067	25450638	145664429	434	97826											
PRSS16	10279	broad.mit.edu	37	chr6	27216672	27216672	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttggccaggatggacccaTattcctgcatctagggggtg	7	10	15	9	0	1	0	0	0	1	0	2	2	2	2	3	6	1	2	3	6	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:27216672T>G	uc003nja.2	+	3	296	c.284T>G	c.(283-285)ATA>AGA	p.I95R	PRSS16_uc011dkt.1_RNA|PRSS16_uc003njb.2_Intron|PRSS16_uc010jqq.1_5'UTR|PRSS16_uc010jqr.1_5'UTR|PRSS16_uc003njc.1_RNA|PRSS16_uc003njd.2_5'Flank	NM_005865	NP_005856	Q9NQE7	TSSP_HUMAN	protease, serine, 16 precursor	95					protein catabolic process|proteolysis	cytoplasmic membrane-bounded vesicle	serine-type peptidase activity			ovary(2)|central_nervous_system(2)|skin(1)	5						GATGGACCCATATTCCTGCAT	0.552													19	47					0	0	1	0	0		G	27216672	G	G	27216672	3	3	199	1	0	0	0	0	1	0	0	0	12638	1406	49	5	294	5	PRSS16	6	27216672	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1766034	27216672	143898395	435	97827											
C6orf15	29113	broad.mit.edu	37	chr6	31079953	31079953	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagggtccagagcgggctgCggatgttcagagttagaggg	8	8	18	7	2	1	3	1	0	0	3	2	4	2	4	1	4	2	3	1	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:31079953C>T	uc003nsk.1	-	2	183	c.183G>A	c.(181-183)CCG>CCA	p.P61P	PSORS1C1_uc003nsl.1_5'Flank|PSORS1C1_uc010jsj.1_5'Flank	NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	61											0						GAGCGGGCTGCGGATGTTCAG	0.567													9	70					0	0	1	0	0		T	31079953	T	T	31079953	2	4	199	1	0	0	0	0	0	0	0	1	2339	755	27	1		1	C6orf15	6	31079953	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3863281	31079953	140035114	436	97828											
CFB	629	broad.mit.edu	37	chr6	31914339	31914339	+	Missense_Mutation	SNP	T	C	C	0	1	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	tacggggtcctggagcacccTgaagactcaagaccaaaaga	14	5	11	11	1	1	4	1	1	0	3	2	5	2	5	3	3	2	1	3	3	5	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:31914339T>C	uc003nyj.3	+	2	532	c.254T>C	c.(253-255)CTG>CCG	p.L85P	CFB_uc011dor.1_Missense_Mutation_p.L587P|CFB_uc011dos.1_Missense_Mutation_p.L85P|CFB_uc003nyi.2_Missense_Mutation_p.L85P	NM_001710	NP_001701	P00751	CFAB_HUMAN	complement factor B preproprotein	85	Sushi 1.				complement activation, alternative pathway|proteolysis	extracellular region|plasma membrane	complement binding|serine-type endopeptidase activity			skin(1)	1						TGGAGCACCCTGAAGACTCAA	0.582													10	28					0	0	1	0	0		C	31914339	C	C	31914339	3	2	199	1	0	0	0	0	1	0	0	0	3281	1580	55	3	260	3	CFB	6	31914339	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	834386	31914339	139200728	437	97829											
VPS52	6293	broad.mit.edu	37	chr6	33236284	33236284	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctacttcccaccttgacccGgagccgatcgagcacgcctc	7	7	8	19	4	0	1	0	1	0	0	3	4	1	2	6	1	3	1	6	1	1	3	rs147423039		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:33236284G>A	uc003odm.1	-	7	901	c.691C>T	c.(691-693)CGG>TGG	p.R231W	VPS52_uc003odn.1_Missense_Mutation_p.R106W|VPS52_uc003odo.1_Missense_Mutation_p.R156W|VPS52_uc011dqy.1_Missense_Mutation_p.R106W|VPS52_uc011dqz.1_Missense_Mutation_p.R106W	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	231					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						ACCTTGACCCGGAGCCGATCG	0.587													9	33					0	0	1	0	0		A	33236284	A	A	33236284	3	1	199	1	0	0	0	0	1	0	0	0	17240	1115	39	1	1536	1	VPS52	6	33236284	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1321945	33236284	137878783	438	97830											
SYNGAP1	8831	broad.mit.edu	37	chr6	33410722	33410722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaaagccacccccaccacCgcctggtggtggtaaagacc	11	4	11	15	1	0	1	0	0	0	1	0	2	0	2	7	4	1	1	7	4	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:33410722C>T	uc011dri.1	+	15	2588	c.2393C>T	c.(2392-2394)CCG>CTG	p.P798L	SYNGAP1_uc010juy.2_Missense_Mutation_p.P769L|SYNGAP1_uc010juz.2_Missense_Mutation_p.P510L	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	798	SH3-binding (Potential).				negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						CCCCCACCACCGCCTGGTGGT	0.597													16	51					0	0	1	0	0		T	33410722	T	T	33410722	3	4	199	1	0	0	0	0	1	0	0	0	15472	652	23	1	2451	1	SYNGAP1	6	33410722	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	174438	33410722	137704345	439	97831											
ITPR3	3710	broad.mit.edu	37	chr6	33642006	33642006	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaacatgaacctggatcGcatcggggagcaggcggagg	10	5	16	10	3	0	1	0	1	0	0	2	4	0	4	2	6	4	2	2	6	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:33642006G>A	uc011drk.1	+	24	3299	c.3080G>A	c.(3079-3081)CGC>CAC	p.R1027H		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1027	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						AACCTGGATCGCATCGGGGAG	0.627													13	28					0	0	1	0	0		A	33642006	A	A	33642006	3	1	199	1	0	0	0	0	1	0	0	0	7938	1087	38	1	3174	1	ITPR3	6	33642006	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	231284	33642006	137473061	440	97832											
ITPR3	3710	broad.mit.edu	37	chr6	33657105	33657105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaagcgctacagcatccGccccctcatcgtggcgctca	8	6	8	19	4	2	0	2	0	0	0	4	0	3	0	4	1	3	3	4	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:33657105G>A	uc011drk.1	+	50	7004	c.6785G>A	c.(6784-6786)CGC>CAC	p.R2262H	ITPR3_uc003oey.2_Missense_Mutation_p.R349H	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2262	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						TACAGCATCCGCCCCCTCATC	0.612													19	72					0	0	1	0	0		A	33657105	A	A	33657105	3	1	199	1	0	0	0	0	1	0	0	0	7938	1087	38	1	6983	1	ITPR3	6	33657105	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	15099	33657105	137457962	441	97833											
SNRPC	6631	broad.mit.edu	37	chr6	34730386	34730386	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacagccatctgtgagaaaGacacactgcagtggaaggaa	15	7	11	8	0	1	2	0	1	1	2	1	5	1	4	1	2	3	1	1	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:34730386G>T	uc003ojt.1	+	3	81	c.66G>T	c.(64-66)AAG>AAT	p.K22N		NM_003093	NP_003084	P09234	RU1C_HUMAN	small nuclear ribonucleoprotein polypeptide C	22	Matrin-type.				spliceosomal snRNP assembly	Cajal body|U1 snRNP	protein homodimerization activity|single-stranded RNA binding|zinc ion binding			pancreas(1)	1						CTGTGAGAAAGACACACTGCA	0.348													10	32					7.03913e-09	7.62746e-09	1	1	0		T	34730386	T	T	34730386	3	4	199	1	0	0	0	0	1	0	0	0	14888	933	33	5	76	5	SNRPC	6	34730386	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1073281	34730386	136384681	442	97834											
SCUBE3	222663	broad.mit.edu	37	chr6	35196500	35196500	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggattccacctggcacatgaCggacacaactgtctgggtaa	11	8	11	11	1	1	1	0	1	1	0	2	3	2	3	2	4	1	2	2	4	2	2	rs144991938		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:35196500C>T	uc003okf.1	+	3	324	c.318C>T	c.(316-318)GAC>GAT	p.D106D	SCUBE3_uc003okg.1_Silent_p.D106D|SCUBE3_uc003okh.1_Translation_Start_Site	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	106	EGF-like 2; calcium-binding (Potential).				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						TGGCACATGACGGACACAACT	0.498													7	129					0	0	1	0	0		T	35196500	T	T	35196500	2	4	199	1	0	0	0	0	0	0	0	1	13971	535	19	1		1	SCUBE3	6	35196500	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	466114	35196500	135918567	443	97835											
DNAH8	1769	broad.mit.edu	37	chr6	38709643	38709643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcataaatgtgctaaatgttGcacactccaaactgctaaag	15	11	6	9	0	1	0	1	0	0	0	2	0	2	0	1	0	4	4	1	0	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:38709643G>A	uc003ooe.1	+	6	1222	c.622G>A	c.(622-624)GCA>ACA	p.A208T		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GCTAAATGTTGCACACTCCAA	0.353													14	30					0	0	1	0	0		A	38709643	A	A	38709643	3	1	199	1	0	0	0	0	1	0	0	0	4613	1319	46	2	636	2	DNAH8	6	38709643	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3513143	38709643	132405424	444	97836											
KCNK5	8645	broad.mit.edu	37	chr6	39196773	39196773	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatgcagcttctgtgtgtAgtagtttttcttggcctcct	5	17	10	9	0	2	1	0	0	2	1	3	1	3	1	2	1	2	5	2	1	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:39196773A>G	uc003oon.2	-	1	479	c.115T>C	c.(115-117)TAC>CAC	p.Y39H		NM_003740	NP_003731	O95279	KCNK5_HUMAN	potassium channel, subfamily K, member 5	39					excretion	integral to plasma membrane	potassium channel activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						TTCTGTGTGTAGTAGTTTTTC	0.582													30	74					0	0	1	0	0		G	39196773	G	G	39196773	3	3	199	1	0	0	0	0	1	0	0	0	8085	420	15	3	1404	3	KCNK5	6	39196773	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	487130	39196773	131918294	445	97837											
TRERF1	55809	broad.mit.edu	37	chr6	42227226	42227226	+	Frame_Shift_Del	DEL	G	-	-																															gcatgggtgggggcgtgtaaGggggcagctcgtgggtgggg																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:42227226delG	uc003osd.2	-	9	2683	c.2120delC	c.(2119-2121)CCTfs	p.P707fs	TRERF1_uc011duq.1_Frame_Shift_Del_p.P624fs|TRERF1_uc003osb.2_Frame_Shift_Del_p.P463fs|TRERF1_uc003osc.2_Frame_Shift_Del_p.P463fs|TRERF1_uc003ose.2_Frame_Shift_Del_p.P727fs	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	707	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGGCGTGTAAGGGGGCAGCTC	0.726													9	18	---	---	---	---						.	-	42227226	-	-	42227226	7	5	199	1	0	1	0	1	0	0	0	0	16501	1000	35	0	1522	0	TRERF1	6	42227226	Frame_Shift_Del	DEL	G	TCGA-HF-7132-01A-11D-2053-08	3030453	42227226	128887841	446	97838											
POLH	5429	broad.mit.edu	37	chr6	43568821	43568821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcagccaaatgcccattCgcaaaatgtaagtattcagg	13	11	7	10	1	3	0	2	0	1	0	4	0	3	0	2	1	2	3	2	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:43568821C>T	uc003ovq.3	+	6	1061	c.757C>T	c.(757-759)CGC>TGC	p.R253C	POLH_uc010jyu.2_Missense_Mutation_p.R129C|POLH_uc011dvl.1_RNA|POLH_uc003ovr.3_Missense_Mutation_p.R154C	NM_006502	NP_006493	Q9Y253	POLH_HUMAN	DNA-directed DNA polymerase eta	253	UmuC.				DNA replication|DNA synthesis involved in DNA repair|regulation of DNA repair|response to UV-C	cytoplasm|nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			breast(2)	2	all_cancers(18;1.89e-05)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000753)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			AATGCCCATTCGCAAAATGTA	0.458								DNA_polymerases_(catalytic_subunits)	Xeroderma_Pigmentosum				15	44					0	0	1	0	0		T	43568821	T	T	43568821	3	4	199	1	0	0	0	0	1	0	0	0	12221	884	31	1	775	1	POLH	6	43568821	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1341595	43568821	127546246	447	97839											
RSPH9	221421	broad.mit.edu	37	chr6	43612962	43612962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgcgactaccgctatgatCgggttctcttctggggccgc	5	10	13	13	5	2	1	0	1	2	0	4	2	2	1	2	3	2	2	2	3	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:43612962C>T	uc003ovw.1	+	1	153	c.127C>T	c.(127-129)CGG>TGG	p.R43W	RSPH9_uc003ovx.1_Missense_Mutation_p.R43W	NM_152732	NP_689945	Q9H1X1	RSPH9_HUMAN	radial spoke head 9 homolog	43					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton				upper_aerodigestive_tract(1)|skin(1)	2						CCGCTATGATCGGGTTCTCTT	0.642									Kartagener_syndrome				12	60					0	0	1	0	0		T	43612962	T	T	43612962	3	4	199	1	0	0	0	0	1	0	0	0	13733	875	31	1	129	1	RSPH9	6	43612962	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	44141	43612962	127502105	448	97840											
HSP90AB1	3326	broad.mit.edu	37	chr6	44219244	44219244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaaaatcttgaaagtcattCgcaaaaacattgttaagaag	18	10	7	6	1	2	2	1	1	1	1	3	2	2	2	0	0	1	3	0	0	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:44219244C>T	uc003oxa.1	+	8	1297	c.1213C>T	c.(1213-1215)CGC>TGC	p.R405C	HSP90AB1_uc011dvr.1_Missense_Mutation_p.R395C|HSP90AB1_uc003oxb.1_Missense_Mutation_p.R405C|HSP90AB1_uc011dvs.1_Missense_Mutation_p.R225C|HSP90AB1_uc003oxc.1_Missense_Mutation_p.R43C	NM_007355	NP_031381	P08238	HS90B_HUMAN	heat shock 90kDa protein 1, beta	405					axon guidance|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of nitric oxide biosynthetic process|protein folding|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to unfolded protein	cytosol|melanosome	ATP binding|nitric-oxide synthase regulator activity|TPR domain binding|unfolded protein binding			lung(3)|breast(1)	4	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)			GAAAGTCATTCGCAAAAACAT	0.428													3	10					0	0	1	0	0		T	44219244	T	T	44219244	3	4	199	1	0	0	0	0	1	0	0	0	7418	884	31	1	1239	1	HSP90AB1	6	44219244	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	606282	44219244	126895823	449	97841											
PGK2	5232	broad.mit.edu	37	chr6	49754037	49754037	+	Silent	SNP	A	G	G	1	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	ttctcgtcaaacttgtccccAgtaacaaaatcaacaggaaa	16	9	5	11	1	3	0	2	0	1	0	5	1	4	1	2	1	3	1	2	1	6	3	rs139041045	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:49754037A>G	uc003ozu.2	-	1	971	c.864T>C	c.(862-864)ACT>ACC	p.T288T		NM_138733	NP_620061	P07205	PGK2_HUMAN	phosphoglycerate kinase 2	288					glycolysis	cytosol	ATP binding|phosphoglycerate kinase activity			ovary(1)	1	Lung NSC(77;0.0402)					ACTTGTCCCCAGTAACAAAAT	0.458													39	109					0	0	1	0	0		G	49754037	G	G	49754037	2	3	199	1	0	0	0	0	0	0	0	1	11810	175	7	3		3	PGK2	6	49754037	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	5534793	49754037	121361030	450	97842											
PKHD1	5314	broad.mit.edu	37	chr6	51920455	51920455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggacaaggtgtcgaggctgaCggaggctgaacctgccacag	10	5	16	10	2	0	2	0	2	0	0	1	5	0	4	2	5	2	2	2	5	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:51920455C>T	uc003pah.1	-	19	2042	c.1766G>A	c.(1765-1767)CGT>CAT	p.R589H	PKHD1_uc003pai.2_Missense_Mutation_p.R589H	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	589	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity	p.R589H(1)		lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCGAGGCTGACGGAGGCTGAA	0.547													9	21					0	0	1	0	0		T	51920455	T	T	51920455	3	4	199	1	0	0	0	0	1	0	0	0	11990	536	19	1	10693	1	PKHD1	6	51920455	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2166418	51920455	119194612	451	97843											
KHDRBS2	202559	broad.mit.edu	37	chr6	62442603	62442603	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttacctttgtgtttgggtcgCatagctgttatcataagtct	7	18	9	7	1	2	0	1	0	1	0	3	0	2	0	1	1	2	4	1	1	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:62442603C>T	uc003peg.2	-	7	1124	c.877G>A	c.(877-879)GCG>ACG	p.A293T		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	293					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		GTTTGGGTCGCATAGCTGTTA	0.378													17	66					0	0	1	0	0		T	62442603	T	T	62442603	3	4	199	1	0	0	0	0	1	0	0	0	8163	710	25	2	184	2	KHDRBS2	6	62442603	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	10522148	62442603	108672464	452	97844											
KCNQ5	56479	broad.mit.edu	37	chr6	73902388	73902388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagacgatctcagtatgctcGgtcgggtggtcaaggttgaa	9	10	14	8	3	2	2	2	1	1	1	5	3	2	2	0	4	1	3	0	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:73902388G>A	uc003pgk.2	+	13	2157	c.1810G>A	c.(1810-1812)GGT>AGT	p.G604S	KCNQ5_uc011dyh.1_Missense_Mutation_p.G623S|KCNQ5_uc011dyi.1_Missense_Mutation_p.G614S|KCNQ5_uc010kat.2_Missense_Mutation_p.G595S|KCNQ5_uc011dyj.1_Missense_Mutation_p.G494S|KCNQ5_uc011dyk.1_Missense_Mutation_p.G354S	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	604					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		CAGTATGCTCGGTCGGGTGGT	0.383													15	54					0	0	1	0	0		A	73902388	A	A	73902388	3	1	199	1	0	0	0	0	1	0	0	0	8102	1116	39	1	1921	1	KCNQ5	6	73902388	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	11459785	73902388	97212679	453	97845											
COL12A1	1303	broad.mit.edu	37	chr6	75840678	75840678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagatgcaccatgcgcGtgtttcctggcactactatc	7	11	9	14	2	0	1	0	0	0	1	3	1	2	1	3	1	3	4	3	1	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:75840678G>A	uc003phs.2	-	36	6123	c.5957C>T	c.(5956-5958)ACG>ATG	p.T1986M	COL12A1_uc003pht.2_Missense_Mutation_p.T822M	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1986	Fibronectin type-III 15.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CACCATGCGCGTGTTTCCTGG	0.502													25	81					0	0	1	0	0		A	75840678	A	A	75840678	3	1	199	1	0	0	0	0	1	0	0	0	3672	1145	40	1	3358	1	COL12A1	6	75840678	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1938290	75840678	95274389	454	97846											
COL12A1	1303	broad.mit.edu	37	chr6	75843032	75843032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttccagtatctgatgtgCgtcccccatcaccttcagta	7	13	6	15	1	3	1	2	1	1	0	6	1	6	1	5	0	1	2	5	0	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:75843032C>T	uc003phs.2	-	34	5937	c.5771G>A	c.(5770-5772)CGC>CAC	p.R1924H	COL12A1_uc003pht.2_Missense_Mutation_p.R760H	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1924	Fibronectin type-III 14.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ATCTGATGTGCGTCCCCCATC	0.388													11	74					0	0	1	0	0		T	75843032	T	T	75843032	3	4	199	1	0	0	0	0	1	0	0	0	3672	768	27	1	3552	1	COL12A1	6	75843032	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2354	75843032	95272035	455	97847											
COL12A1	1303	broad.mit.edu	37	chr6	75866132	75866132	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttccctctcccatgagggcGatagacaacacggtagttga	10	9	10	12	2	1	3	0	2	1	1	3	4	2	3	2	2	1	2	2	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:75866132G>A	uc003phs.2	-	15	3257	c.3091C>T	c.(3091-3093)CGC>TGC	p.R1031C	COL12A1_uc003pht.2_Intron	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1031	Fibronectin type-III 7.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CCATGAGGGCGATAGACAACA	0.473													15	52					0	0	1	0	0		A	75866132	A	A	75866132	3	1	199	1	0	0	0	0	1	0	0	0	3672	1058	37	1	6308	1	COL12A1	6	75866132	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	23100	75866132	95248935	456	97848											
LCA5	167691	broad.mit.edu	37	chr6	80228566	80228566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaataatggtgtttgcctgCctttctttcttgatcagtac	8	17	8	8	0	3	2	1	1	2	1	3	2	3	2	2	1	3	2	2	1	3	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:80228566C>T	uc003pix.2	-	2	481	c.46G>A	c.(46-48)GCA>ACA	p.A16T	LCA5_uc003piy.2_Missense_Mutation_p.A16T|LCA5_uc011dyq.1_RNA|LCA5_uc011dyr.1_Missense_Mutation_p.A16T	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	16					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		TGTTTGCCTGCCTTTCTTTCT	0.413													58	198					0	0	1	0	0		T	80228566	T	T	80228566	3	4	199	1	0	0	0	0	1	0	0	0	8672	739	26	2	2075	2	LCA5	6	80228566	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4362434	80228566	90886501	457	97849											
IBTK	25998	broad.mit.edu	37	chr6	82912316	82912316	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtttcaactgttttgcactAtacattgctgcaaattccag	11	15	6	9	0	1	0	1	0	0	0	2	0	2	0	1	0	5	5	1	0	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:82912316A>G	uc003pjl.1	-	18	3185	c.2658T>C	c.(2656-2658)TAT>TAC	p.Y886Y	IBTK_uc011dyu.1_5'UTR|IBTK_uc011dyv.1_Silent_p.Y886Y|IBTK_uc011dyw.1_Silent_p.Y685Y|IBTK_uc010kbi.1_Silent_p.Y580Y|IBTK_uc003pjm.2_Silent_p.Y886Y	NM_015525	NP_056340	Q9P2D0	IBTK_HUMAN	inhibitor of Bruton's tyrosine kinase	886					negative regulation of protein phosphorylation|release of sequestered calcium ion into cytosol	cytoplasm|membrane|nucleus	protein kinase binding|protein tyrosine kinase inhibitor activity			ovary(2)|central_nervous_system(2)	4		all_cancers(76;3.38e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.0037)		BRCA - Breast invasive adenocarcinoma(397;0.0901)		GTTTTGCACTATACATTGCTG	0.363													17	158					0	0	1	0	0		G	82912316	G	G	82912316	2	3	199	1	0	0	0	0	0	0	0	1	7492	456	16	3		3	IBTK	6	82912316	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2683750	82912316	88202751	458	97850											
TPBG	7162	broad.mit.edu	37	chr6	83075702	83075702	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaactcaacagtgctgacCtggactgtgacccgattctt	9	11	10	11	1	2	2	1	2	1	0	2	5	2	4	2	2	3	1	2	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:83075702C>A	uc003pjn.3	+	3	1960	c.1024C>A	c.(1024-1026)CTG>ATG	p.L342M	TPBG_uc010kbj.2_Missense_Mutation_p.L342M|TPBG_uc003pjo.2_Missense_Mutation_p.L342M	NM_006670	NP_006661	Q13641	TPBG_HUMAN	trophoblast glycoprotein precursor	342	Extracellular (Potential).|LRRCT.				cell adhesion	integral to plasma membrane				central_nervous_system(1)	1		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		CAGTGCTGACCTGGACTGTGA	0.502													21	63					3.10358e-05	3.23152e-05	1	1	0		A	83075702	A	A	83075702	3	1	199	1	0	0	0	0	1	0	0	0	16420	680	24	5	1026	5	TPBG	6	83075702	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	163386	83075702	88039365	459	97851											
HTR1E	3354	broad.mit.edu	37	chr6	87725829	87725829	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accacagagtttgaaaagttCcatgcctccatcaggatccc	12	9	7	13	0	1	2	1	1	0	1	4	3	4	3	5	1	1	2	5	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:87725829C>A	uc003pli.2	+	2	1480	c.777C>A	c.(775-777)TTC>TTA	p.F259L		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	259	Cytoplasmic (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	TTGAAAAGTTCCATGCCTCCA	0.498													42	225					2.68985e-26	3.02428e-26	1	1	0		A	87725829	A	A	87725829	3	1	199	1	0	0	0	0	1	0	0	0	7455	854	30	5	779	5	HTR1E	6	87725829	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4650127	87725829	83389238	460	97852											
GABRR2	2570	broad.mit.edu	37	chr6	89974270	89974270	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttgacgtaggagacgcgcGgcatggaggcattcacgccc	8	6	14	13	5	1	2	1	1	0	1	1	4	1	3	2	4	0	3	2	4	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:89974270G>T	uc003pnb.2	-	8	1030	c.1022C>A	c.(1021-1023)CCG>CAG	p.P341Q	GABRR2_uc011dzx.1_Missense_Mutation_p.P217Q	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	341					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		GGAGACGCGCGGCATGGAGGC	0.587													8	117					0.000673444	0.000692348	1	1	0		T	89974270	T	T	89974270	3	4	199	1	0	0	0	0	1	0	0	0	6191	1116	39	5	458	5	GABRR2	6	89974270	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2248441	89974270	81140797	461	97853											
AIM1	202	broad.mit.edu	37	chr6	106989472	106989472	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttttcagggtggccgtaaAgttgaattccctacagatcc	9	14	9	9	1	1	2	1	1	0	1	3	2	3	2	3	2	1	2	3	2	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:106989472A>G	uc003prh.2	+	8	4120	c.3633A>G	c.(3631-3633)AAA>AAG	p.K1211K	AIM1_uc003pri.2_Silent_p.K15K	NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	1211							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	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)		GTGGCCGTAAAGTTGAATTCC	0.214													7	39					0	0	1	0	0		G	106989472	G	G	106989472	2	3	199	1	0	0	0	0	0	0	0	1	430	69	3	3		3	AIM1	6	106989472	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	17015202	106989472	64125595	462	97854											
C6orf182	285753	broad.mit.edu	37	chr6	109471409	109471409	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagagaatggttctcaacgtAgagcgagaaaagaacatgat	18	7	11	5	2	1	5	1	1	1	4	2	7	1	5	0	1	3	2	0	1	7	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:109471409A>G	uc010kdk.2	+	6	1006	c.429A>G	c.(427-429)GTA>GTG	p.V143V	C6orf182_uc003psv.3_Silent_p.V127V|C6orf182_uc003psw.3_Silent_p.V143V|C6orf182_uc003psx.3_Silent_p.V143V|C6orf182_uc010kdl.2_Silent_p.V143V|C6orf182_uc003psy.3_Silent_p.V143V	NM_001083535	NP_001077004	Q8IYX8	CE57L_HUMAN	hypothetical protein LOC285753	143	Potential.					microtubule|microtubule organizing center					0		all_cancers(87;4.45e-07)|Acute lymphoblastic leukemia(125;2.15e-10)|all_hematologic(75;3.25e-08)|all_epithelial(87;0.000254)|Colorectal(196;0.0293)|all_lung(197;0.11)		BRCA - Breast invasive adenocarcinoma(108;0.00123)|Epithelial(106;0.0022)|all cancers(137;0.00405)|OV - Ovarian serous cystadenocarcinoma(136;0.0233)		TTCTCAACGTAGAGCGAGAAA	0.303													26	99					0	0	1	0	0		G	109471409	G	G	109471409	2	3	199	1	0	0	0	0	0	0	0	1	2349	407	15	3		3	C6orf182	6	109471409	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2481937	109471409	61643658	463	97855											
ZBTB24	9841	broad.mit.edu	37	chr6	109787365	109787365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctctggctgctgcgtgaGcagggtaagattagcagcct	7	11	14	9	1	1	2	0	1	1	1	1	2	1	2	1	2	6	6	1	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:109787365G>A	uc003ptl.1	-	7	1951	c.1783C>T	c.(1783-1785)CTC>TTC	p.L595F	MICAL1_uc011eaq.1_5'Flank|ZBTB24_uc011ear.1_RNA|ZBTB24_uc010kds.1_Missense_Mutation_p.L539F|ZBTB24_uc010kdt.1_RNA	NM_014797	NP_055612	O43167	ZBT24_HUMAN	zinc finger and BTB domain containing 24 isoform	595					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_cancers(87;0.000189)|Acute lymphoblastic leukemia(125;3.07e-08)|all_hematologic(75;3.33e-06)|all_epithelial(87;0.00686)|Lung SC(18;0.0743)|Colorectal(196;0.101)|all_lung(197;0.149)		Epithelial(106;0.0154)|all cancers(137;0.0216)|OV - Ovarian serous cystadenocarcinoma(136;0.0242)|BRCA - Breast invasive adenocarcinoma(108;0.059)		TGCTGCGTGAGCAGGGTAAGA	0.473													20	67					0	0	1	0	0		A	109787365	A	A	109787365	3	1	199	1	0	0	0	0	1	0	0	0	17556	971	34	2	314	2	ZBTB24	6	109787365	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	315956	109787365	61327702	464	97856											
DDO	8528	broad.mit.edu	37	chr6	110714089	110714089	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagatgcccccactcccatgGccatagtggtggactacagg	9	7	12	13	0	0	1	0	0	0	1	1	3	1	2	4	4	2	0	4	4	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:110714089G>A	uc003puc.2	-	5	1003	c.999C>T	c.(997-999)GGC>GGT	p.G333G	C6orf186_uc003pub.2_Intron|DDO_uc003pud.2_Silent_p.G274G	NM_003649	NP_003640	Q99489	OXDD_HUMAN	D-aspartate oxidase isoform a	305					aspartate catabolic process	peroxisome	binding|D-amino-acid oxidase activity|D-aspartate oxidase activity			ovary(2)|breast(1)	3		all_cancers(87;3.47e-21)|all_epithelial(87;9.03e-20)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_lung(197;2.98e-05)|Lung NSC(302;3.25e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.00327)		all cancers(137;2.54e-48)|Epithelial(106;3.11e-44)|OV - Ovarian serous cystadenocarcinoma(136;2.08e-24)|BRCA - Breast invasive adenocarcinoma(108;0.000141)|GBM - Glioblastoma multiforme(226;0.00046)		CACTCCCATGGCCATAGTGGT	0.642													9	67					0	0	1	0	0		A	110714089	A	A	110714089	2	1	199	1	0	0	0	0	0	0	0	1	4337	1190	42	2		2	DDO	6	110714089	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	926724	110714089	60400978	465	97857											
RPF2	84154	broad.mit.edu	37	chr6	111336989	111336989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccacagtatcaaatatcCgcctggctggattagagtat	11	10	9	11	1	1	1	1	0	0	1	2	2	2	2	4	2	0	3	4	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:111336989C>T	uc003pun.2	+	8	545	c.526C>T	c.(526-528)CGC>TGC	p.R176C	RPF2_uc003puo.2_Missense_Mutation_p.R113C	NM_032194	NP_115570	Q9H7B2	RPF2_HUMAN	brix domain containing 1	176	Brix.					nucleolus	protein binding			ovary(2)	2						ATCAAATATCCGCCTGGCTGG	0.338													16	85					0	0	1	0	0		T	111336989	T	T	111336989	3	4	199	1	0	0	0	0	1	0	0	0	13572	652	23	1	556	1	RPF2	6	111336989	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	622900	111336989	59778078	466	97858											
C6orf170	221322	broad.mit.edu	37	chr6	121577313	121577313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatgtactatatatgtgacGacacacagaaataaaagctc	18	9	6	8	1	0	2	0	1	0	1	1	3	0	2	0	0	2	2	0	0	7	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:121577313G>A	uc003pyo.1	-	16	1920	c.1852C>T	c.(1852-1854)CGT>TGT	p.R618C	C6orf170_uc003pyq.1_RNA|C6orf170_uc003pyp.1_Missense_Mutation_p.R137C	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	618					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		TATATGTGACGACACACAGAA	0.338													8	32					0	0	1	0	0		A	121577313	A	A	121577313	3	1	199	1	0	0	0	0	1	0	0	0	2347	1058	37	1	1989	1	C6orf170	6	121577313	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10240324	121577313	49537754	467	97859											
TPD52L1	7164	broad.mit.edu	37	chr6	125550288	125550288	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagacgaaattacaacactaCgacaagttttgtcagcgaaa	18	8	7	8	3	1	1	1	0	0	1	1	4	1	1	0	0	4	1	0	0	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:125550288C>T	uc003pzu.1	+	3	379	c.160C>T	c.(160-162)CGA>TGA	p.R54*	TPD52L1_uc003pzv.1_Nonsense_Mutation_p.R54*|TPD52L1_uc003pzw.1_Nonsense_Mutation_p.R54*|TPD52L1_uc003pzx.1_Nonsense_Mutation_p.R25*|TPD52L1_uc003pzy.1_Nonsense_Mutation_p.R25*|TPD52L1_uc003pzz.1_Nonsense_Mutation_p.R25*	NM_003287	NP_003278	Q16890	TPD53_HUMAN	tumor protein D52-like 1 isoform 1	54	Potential.				DNA fragmentation involved in apoptotic nuclear change|G2/M transition of mitotic cell cycle|induction of apoptosis|positive regulation of JNK cascade|positive regulation of MAP kinase activity	perinuclear region of cytoplasm	caspase activator activity|protein heterodimerization activity|protein homodimerization activity				0			LUSC - Lung squamous cell carcinoma(4;0.0263)|Lung(4;0.0828)	GBM - Glioblastoma multiforme(226;0.0265)		TACAACACTACGACAAGTTTT	0.408													12	46					0	0	1	0	0		T	125550288	T	T	125550288	4	4	199	1	0	0	0	0	0	1	0	0	16424	528	19	1	170	1	TPD52L1	6	125550288	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3972975	125550288	45564779	468	97860											
ENPP3	5169	broad.mit.edu	37	chr6	131973697	131973697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagctcgaatatggatgtGcaataaatttcgttgtggag	12	13	11	5	2	0	0	0	0	0	0	2	3	0	2	0	2	3	3	0	2	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:131973697G>A	uc003qcu.3	+	5	640	c.293G>A	c.(292-294)TGC>TAC	p.C98Y	ENPP3_uc010kfn.1_RNA|ENPP3_uc011ecc.1_Missense_Mutation_p.C64Y|ENPP3_uc010kfo.1_RNA|ENPP3_uc010kfp.1_RNA|ENPP3_uc010kfq.2_RNA|ENPP3_uc003qcv.2_Missense_Mutation_p.C98Y	NM_005021	NP_005012	O14638	ENPP3_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	98	Extracellular (Potential).|SMB 2.				immune response|nucleoside triphosphate catabolic process|phosphate metabolic process	extracellular region|integral to plasma membrane|perinuclear region of cytoplasm	metal ion binding|nucleic acid binding|nucleoside-triphosphate diphosphatase activity|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity			ovary(3)|skin(1)	4	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0252)|OV - Ovarian serous cystadenocarcinoma(155;0.0511)		ATATGGATGTGCAATAAATTT	0.353													24	128					0	0	1	0	0		A	131973697	A	A	131973697	3	1	199	1	0	0	0	0	1	0	0	0	5139	1319	46	2	307	2	ENPP3	6	131973697	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6423409	131973697	39141370	469	97861											
VNN2	8875	broad.mit.edu	37	chr6	133070863	133070863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccaggtgacagatgaatttCggtaagtagcacttcaggaa	13	10	11	7	1	1	3	1	2	0	1	3	4	2	4	1	3	1	3	1	3	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:133070863C>T	uc003qdt.2	-	6	1353	c.1342G>A	c.(1342-1344)GAA>AAA	p.E448K	VNN2_uc003qds.2_Missense_Mutation_p.E157K|VNN2_uc010kgb.2_Missense_Mutation_p.E227K|VNN2_uc003qdv.2_Missense_Mutation_p.E395K	NM_004665	NP_004656	O95498	VNN2_HUMAN	vanin 2 isoform 1 precursor	448					cellular component movement|pantothenate metabolic process	anchored to membrane|plasma membrane	pantetheine hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(155;0.00237)|GBM - Glioblastoma multiforme(226;0.0267)		AGATGAATTTCGGTAAGTAGC	0.373													18	38					0	0	1	0	0		T	133070863	T	T	133070863	3	4	199	1	0	0	0	0	1	0	0	0	17209	893	31	1	228	1	VNN2	6	133070863	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1097166	133070863	38044204	470	97862											
KIAA1244	57221	broad.mit.edu	37	chr6	138655839	138655839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcatccaccccatccacCgggggcttctctgggaaaga	9	7	11	14	1	2	1	1	0	1	1	5	3	4	2	5	3	0	1	5	3	1	1	rs147588243	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:138655839C>T	uc003qhu.2	+	33	5856	c.5856C>T	c.(5854-5856)ACC>ACT	p.T1952T		NM_020340	NP_065073	Q5TH69	BIG3_HUMAN	brefeldin A-inhibited guanine	1952					regulation of ARF protein signal transduction	cytoplasm|integral to membrane	ARF guanyl-nucleotide exchange factor activity			ovary(1)|skin(1)	2	Breast(32;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00102)|GBM - Glioblastoma multiforme(68;0.00259)		CCCCATCCACCGGGGGCTTCT	0.617													5	25					0	0	1	0	0		T	138655839	T	T	138655839	2	4	199	1	0	0	0	0	0	0	0	1	8233	639	23	1		1	KIAA1244	6	138655839	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5584976	138655839	32459228	471	97863											
ECT2L	345930	broad.mit.edu	37	chr6	139186191	139186191	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcttccatctacttctgCgaatcgaagctacagacgtg	9	11	7	14	3	3	1	0	0	3	1	5	3	4	1	2	0	4	1	2	0	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:139186191C>T	uc003qif.1	+	10	1453	c.1350C>T	c.(1348-1350)TGC>TGT	p.C450C	ECT2L_uc011edq.1_Silent_p.C381C	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	450					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						TCTACTTCTGCGAATCGAAGC	0.458													21	40					0	0	1	0	0		T	139186191	T	T	139186191	2	4	199	1	0	0	0	0	0	0	0	1	4908	776	27	1		1	ECT2L	6	139186191	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	530352	139186191	31928876	472	97864											
LTV1	84946	broad.mit.edu	37	chr6	144165680	144165680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aagctgtgtcttttcacttgGtccaccggagccaacgagat	9	11	10	11	2	2	1	1	0	1	1	3	3	3	2	3	2	3	1	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:144165680G>A	uc003qjs.2	+	2	168	c.61G>A	c.(61-63)GTC>ATC	p.V21I		NM_032860	NP_116249	Q96GA3	LTV1_HUMAN	LTV1 homolog	21										ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(155;2.72e-06)|GBM - Glioblastoma multiforme(68;0.0372)		TTTTCACTTGGTCCACCGGAG	0.433													17	49					0	0	1	0	0		A	144165680	A	A	144165680	3	1	199	1	0	0	0	0	1	0	0	0	9099	1261	44	4	67	4	LTV1	6	144165680	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4979489	144165680	26949387	473	97865											
STX11	8676	broad.mit.edu	37	chr6	144508363	144508363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggccgacgtgaagggcgCgcgggccgccctcaacgaga	7	3	17	14	7	1	2	1	1	0	1	1	4	1	2	3	3	1	1	3	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:144508363C>T	uc003qks.3	+	2	791	c.599C>T	c.(598-600)GCG>GTG	p.A200V		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	200				ARAALNEIESRHRELLRLESR -> RGPPTTRSRAATANCC AWRAA (in Ref. 2; AAC24031).|A -> V (in Ref. 1; AAD02107).	cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		GTGAAGGGCGCGCGGGCCGCC	0.632									Familial_Hemophagocytic_Lymphohistiocytosis				8	32					0	0	1	0	0		T	144508363	T	T	144508363	3	4	199	1	0	0	0	0	1	0	0	0	15362	768	27	1	601	1	STX11	6	144508363	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	342683	144508363	26606704	474	97866											
SASH1	23328	broad.mit.edu	37	chr6	148792601	148792601	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtatttctggcagaacttccGaaagaaccagaaaggaataa	17	8	9	7	1	1	3	0	0	1	3	2	5	2	4	2	2	2	2	2	2	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:148792601G>A	uc003qme.1	+	6	951	c.476G>A	c.(475-477)CGA>CAA	p.R159Q		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	159							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CAGAACTTCCGAAAGAACCAG	0.338													6	36					0	0	1	0	0		A	148792601	A	A	148792601	3	1	199	1	0	0	0	0	1	0	0	0	13873	1058	37	1	498	1	SASH1	6	148792601	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4284238	148792601	22322466	475	97867											
ZC3H12D	340152	broad.mit.edu	37	chr6	149777807	149777807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccagccggacctaccggtcGttgacgaaggagaacatgag	11	5	13	12	4	0	3	0	2	0	1	1	6	0	4	4	3	3	1	4	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:149777807G>A	uc003qmn.1	-	3	745	c.675C>T	c.(673-675)AAC>AAT	p.N225N	PPIL4_uc010kic.2_Intron|ZC3H12D_uc003qmm.2_Silent_p.N225N|ZC3H12D_uc010kid.2_Silent_p.N225N	NM_207360	NP_997243	A2A288	ZC12D_HUMAN	zinc finger CCCH-type containing 12D	225						cytoplasm|nucleus	endonuclease activity|nucleic acid binding|zinc ion binding				0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.23e-11)|GBM - Glioblastoma multiforme(68;0.0921)		CCTACCGGTCGTTGACGAAGG	0.532													10	42					0	0	1	0	0		A	149777807	A	A	149777807	2	1	199	1	0	0	0	0	0	0	0	1	17589	1136	40	1		1	ZC3H12D	6	149777807	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	985206	149777807	21337260	476	97868											
C6orf211	79624	broad.mit.edu	37	chr6	151790201	151790201	+	Missense_Mutation	SNP	A	G	G	1	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	cctctgagcccagctggtggAccactggaaaatatggaata	12	8	11	10	0	1	1	0	1	1	0	1	4	1	4	3	4	2	1	3	4	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:151790201A>G	uc003qok.1	+	5	1541	c.1282A>G	c.(1282-1284)ACC>GCC	p.T428A	C6orf211_uc011ees.1_Missense_Mutation_p.T309A	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	428							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		CAGCTGGTGGACCACTGGAAA	0.483													3	31					0	0	1	0	0		G	151790201	G	G	151790201	3	3	199	1	0	0	0	0	1	0	0	0	2357	275	10	3	1300	3	C6orf211	6	151790201	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2012394	151790201	19324866	477	97869											
ESR1	2099	broad.mit.edu	37	chr6	152129139	152129139	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcccctgaaccgtccgcagcTcaagatccccctggagcggc	7	5	11	18	3	1	2	1	1	0	1	3	3	3	3	6	2	3	2	6	2	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:152129139T>C	uc003qom.3	+	3	462	c.92T>C	c.(91-93)CTC>CCC	p.L31P	ESR1_uc010kin.2_Missense_Mutation_p.L31P|ESR1_uc010kio.2_Missense_Mutation_p.L31P|ESR1_uc010kip.2_Missense_Mutation_p.L31P|ESR1_uc003qon.3_Missense_Mutation_p.L31P|ESR1_uc003qoo.3_Missense_Mutation_p.L31P|ESR1_uc010kiq.2_5'UTR|ESR1_uc010kir.2_Missense_Mutation_p.L31P	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	31	Modulating; mediates interaction with MACROD1.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	CGTCCGCAGCTCAAGATCCCC	0.642													3	26					0	0	1	0	0		C	152129139	C	C	152129139	3	2	199	1	0	0	0	0	1	0	0	0	5264	1551	54	3	94	3	ESR1	6	152129139	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	338938	152129139	18985928	478	97870											
SYNE1	23345	broad.mit.edu	37	chr6	152605134	152605134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaagctgccgtttcccCgaggctttcatcctgatggt	7	12	9	13	2	1	1	1	1	0	0	4	2	4	1	5	2	2	3	5	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:152605134C>T	uc010kiw.2	-	96	18788	c.18186G>A	c.(18184-18186)TCG>TCA	p.S6062S	SYNE1_uc010kiv.2_Silent_p.S586S|SYNE1_uc003qos.3_Silent_p.S586S|SYNE1_uc003qot.3_Silent_p.S5991S|SYNE1_uc003qou.3_Silent_p.S6062S|SYNE1_uc010kiy.1_Silent_p.S241S	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6062	Spectrin 20.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GCCGTTTCCCCGAGGCTTTCA	0.507										HNSCC(10;0.0054)			10	47					0	0	1	0	0		T	152605134	T	T	152605134	2	4	199	1	0	0	0	0	0	0	0	1	15470	639	23	1		1	SYNE1	6	152605134	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	475995	152605134	18509933	479	97871											
SYNE1	23345	broad.mit.edu	37	chr6	152847285	152847285	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttcatgtcttcaaaaagaTcgtccaccaccattggaggt	11	12	7	11	1	3	1	2	0	1	1	5	2	4	2	3	2	0	0	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:152847285T>C	uc010kiw.2	-	5	757	c.155A>G	c.(154-156)GAT>GGT	p.D52G	SYNE1_uc003qot.3_Missense_Mutation_p.D52G|SYNE1_uc003qou.3_Missense_Mutation_p.D52G|SYNE1_uc010kjb.1_Missense_Mutation_p.D52G|SYNE1_uc003qpa.1_Missense_Mutation_p.D52G	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	52	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		TTCAAAAAGATCGTCCACCAC	0.338										HNSCC(10;0.0054)			10	85					0	0	1	0	0		C	152847285	C	C	152847285	3	2	199	1	0	0	0	0	1	0	0	0	15470	1435	50	3	26904	3	SYNE1	6	152847285	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	242151	152847285	18267782	480	97872											
TIAM2	26230	broad.mit.edu	37	chr6	155504511	155504511	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccggacacaaaagcaaccCtgtgtacatcctggtcagac	12	7	8	14	1	1	1	1	0	0	1	3	2	3	2	3	2	3	2	3	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:155504511C>A	uc003qqb.2	+	16	4214	c.2941C>A	c.(2941-2943)CTG>ATG	p.L981M	TIAM2_uc003qqe.2_Missense_Mutation_p.L981M|TIAM2_uc010kjj.2_Missense_Mutation_p.L514M|TIAM2_uc003qqf.2_Missense_Mutation_p.L357M|TIAM2_uc011efl.1_Missense_Mutation_p.L317M|TIAM2_uc003qqg.2_Missense_Mutation_p.L293M	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	981					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		AAAAGCAACCCTGTGTACATC	0.542													12	66					3.07112e-06	3.24149e-06	1	1	0		A	155504511	A	A	155504511	3	1	199	1	0	0	0	0	1	0	0	0	15916	680	24	5	2983	5	TIAM2	6	155504511	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2657226	155504511	15610556	481	97873											
TFB1M	51106	broad.mit.edu	37	chr6	155581417	155581417	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcattcttacctgagccctcGatggcagtatttccttcgga	7	13	9	12	2	1	1	0	1	1	0	4	3	2	2	3	2	2	3	3	2	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:155581417G>A	uc003qqj.3	-	6	848	c.784C>T	c.(784-786)CGA>TGA	p.R262*	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	262					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		CTGAGCCCTCGATGGCAGTAT	0.423													15	65					0	0	1	0	0		A	155581417	A	A	155581417	4	1	199	1	0	0	0	0	0	1	0	0	15818	1066	37	1	264	1	TFB1M	6	155581417	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	76906	155581417	15533650	482	97874											
ARID1B	57492	broad.mit.edu	37	chr6	157528079	157528079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gactcctctgtgtaccatcgCgcactggcaggactcgctgg	6	9	12	14	3	1	0	0	0	1	0	4	2	2	1	2	3	1	4	2	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:157528079C>T	uc003qqn.2	+	20	5902	c.5750C>T	c.(5749-5751)GCG>GTG	p.A1917V	ARID1B_uc003qqo.2_Missense_Mutation_p.A1877V|ARID1B_uc003qqp.2_Missense_Mutation_p.A1864V	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1922					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		TGTACCATCGCGCACTGGCAG	0.532													33	97					0	0	1	0	0		T	157528079	T	T	157528079	3	4	199	1	0	0	0	0	1	0	0	0	914	768	27	1	5882	1	ARID1B	6	157528079	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1946662	157528079	13586988	483	97875											
EZR	7430	broad.mit.edu	37	chr6	159190862	159190862	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaccgcctgtctctccagcTcctccttagcccgcagtgca	5	9	7	20	2	1	0	0	0	1	0	5	0	4	0	7	0	3	3	7	0	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:159190862T>C	uc003qrt.3	-	10	1420	c.1205A>G	c.(1204-1206)GAG>GGG	p.E402G	EZR_uc011efr.1_Missense_Mutation_p.E9G|EZR_uc011efs.1_Missense_Mutation_p.E370G|EZR_uc003qru.3_Missense_Mutation_p.E402G	NM_003379	NP_003370	P15311	EZRI_HUMAN	ezrin	402	Interaction with SCYL3.				actin filament bundle assembly|axon guidance|cytoskeletal anchoring at plasma membrane|leukocyte cell-cell adhesion|membrane to membrane docking|regulation of cell shape	actin filament|apical plasma membrane|basolateral plasma membrane|cortical cytoskeleton|cytosol|extrinsic to membrane|filopodium|microvillus membrane|nucleolus|ruffle membrane	actin filament binding|cell adhesion molecule binding			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-17)|BRCA - Breast invasive adenocarcinoma(81;6.58e-06)		TCTCTCCAGCTCCTCCTTAGC	0.587													3	124					0	0	1	0	0		C	159190862	C	C	159190862	3	2	199	1	0	0	0	0	1	0	0	0	5343	1551	54	3	571	3	EZR	6	159190862	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1662783	159190862	11924205	484	97876											
TAGAP	117289	broad.mit.edu	37	chr6	159457193	159457193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatcctcgccctcatgctcCccaccgtcatgctccccacg	5	8	6	22	3	2	0	2	0	0	0	6	0	5	0	7	0	2	3	7	0	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:159457193C>T	uc003qrz.2	-	10	2194	c.1862G>A	c.(1861-1863)GGG>GAG	p.G621E	TAGAP_uc011eft.1_Missense_Mutation_p.G558E|TAGAP_uc003qsa.2_Missense_Mutation_p.G443E	NM_054114	NP_473455	Q8N103	TAGAP_HUMAN	T-cell activation Rho GTPase-activating protein	621					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		CCTCATGCTCCCCACCGTCAT	0.642													17	80					0	0	1	0	0		T	159457193	T	T	159457193	3	4	199	1	0	0	0	0	1	0	0	0	15562	623	22	4	337	4	TAGAP	6	159457193	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	266331	159457193	11657874	485	97877											
PARK2	5071	broad.mit.edu	37	chr6	161969940	161969940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttcctctggtcaggctcCggcagcagccccgctccaca	6	8	9	18	2	2	0	1	0	1	0	5	0	5	0	5	3	2	4	5	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:161969940C>T	uc003qtx.3	-	9	1163	c.1029G>A	c.(1027-1029)CCG>CCA	p.P343P	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Silent_p.P152P|PARK2_uc003qtw.3_Silent_p.P152P|PARK2_uc003qty.3_Silent_p.P315P|PARK2_uc003qtz.3_Silent_p.P194P|PARK2_uc010kke.1_Silent_p.P362P|PARK2_uc011egf.1_Silent_p.P17P	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	343	IBR-type.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GGTCAGGCTCCGGCAGCAGCC	0.637													25	110					0	0	1	0	0		T	161969940	T	T	161969940	2	4	199	1	0	0	0	0	0	0	0	1	11468	639	23	1		1	PARK2	6	161969940	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2512747	161969940	9145127	486	97878											
UNC93A	54346	broad.mit.edu	37	chr6	167708152	167708152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctctccatgtgtggctacGtggccttctccgtgggcaac	4	12	11	14	2	2	0	0	0	2	0	5	0	3	0	4	3	2	2	4	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:167708152G>A	uc003qvq.2	+	2	410	c.235G>A	c.(235-237)GTG>ATG	p.V79M	UNC93A_uc003qvr.2_Missense_Mutation_p.V79M	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	79	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GTGTGGCTACGTGGCCTTCTC	0.642													61	218					0	0	1	0	0		A	167708152	A	A	167708152	3	1	199	1	0	0	0	0	1	0	0	0	17022	1145	40	1	241	1	UNC93A	6	167708152	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5738212	167708152	3406915	487	97879											
MLLT4	4301	broad.mit.edu	37	chr6	168352423	168352423	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaccctgctccgttttctccCctgactgcacagcagatgaa	9	10	7	15	1	1	3	0	2	1	1	3	3	2	3	4	0	4	4	4	0	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr6:168352423C>T	uc003qwd.2	+	29	4507	c.4365C>T	c.(4363-4365)CCC>CCT	p.P1455P	MLLT4_uc003qwb.1_Silent_p.P1440P|MLLT4_uc003qwc.1_Silent_p.P1456P|MLLT4_uc003qwg.1_Silent_p.P765P	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1456					adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		CGTTTTCTCCCCTGACTGCAC	0.617			T	MLL	AL								38	125					0	0	1	0	0		T	168352423	T	T	168352423	2	4	199	1	0	0	0	0	0	0	0	1	9647	610	22	4		4	MLLT4	6	168352423	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	644271	168352423	2762644	488	97880											
PRKAR1B	5575	broad.mit.edu	37	chr7	635869	635869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgcagccctgggggtgcCgtagatgagcgccagctccc	5	6	16	14	3	0	2	0	1	0	1	2	2	1	2	4	3	4	3	4	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:635869C>T	uc003siu.1	-	8	728	c.622G>A	c.(622-624)GGC>AGC	p.G208S	PRKAR1B_uc003siv.2_Missense_Mutation_p.G208S|PRKAR1B_uc003siw.1_Missense_Mutation_p.G208S|PRKAR1B_uc003six.1_RNA	NM_002735	NP_002726	P31321	KAP1_HUMAN	protein kinase, cAMP-dependent, regulatory, type	208	cAMP 1.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of insulin secretion|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity				0		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|Epithelial(4;5.75e-19)|OV - Ovarian serous cystadenocarcinoma(56;2.01e-18)|all cancers(6;3.96e-16)|BRCA - Breast invasive adenocarcinoma(126;0.152)		CTGGGGGTGCCGTAGATGAGC	0.617													21	47					0	0	1	0	0		T	635869	T	T	635869	3	4	199	1	0	0	0	0	1	0	0	0	12526	652	23	1	543	1	PRKAR1B	7	635869	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08		635869	158502794	489	97881											
SUN1	23353	broad.mit.edu	37	chr7	891069	891069	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gatcggagctgtgggccaggCtgtgtccaggacggcgtggt	5	8	19	9	3	0	0	0	0	0	0	2	3	1	2	2	6	1	2	2	6	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:891069C>A	uc011jvp.1	+	7	786	c.707C>A	c.(706-708)GCT>GAT	p.A236D	GET4_uc003sjj.1_5'Flank|SUN1_uc003sjf.2_Intron|SUN1_uc011jvq.1_Intron|SUN1_uc003sjg.2_Missense_Mutation_p.A141D|SUN1_uc011jvr.1_Intron|SUN1_uc003sji.2_Missense_Mutation_p.A74D|SUN1_uc003sjk.2_5'Flank	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	263	SYNE2-binding.|Nuclear.|EMD-binding.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						GTGGGCCAGGCTGTGTCCAGG	0.607													3	17					0.0215528	0.0218209	1	1	0		A	891069	A	A	891069	3	1	199	1	0	0	0	0	1	0	0	0	15416	797	28	5	912	5	SUN1	7	891069	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	255200	891069	158247594	490	97882											
GPR146	115330	broad.mit.edu	37	chr7	1097241	1097241	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggggctgtcactgttgtcGctgctgggcctggtggtggg	1	12	19	9	1	1	0	1	0	0	0	2	0	1	0	1	6	1	4	1	6	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:1097241G>A	uc003sjw.2	+	2	166	c.90G>A	c.(88-90)TCG>TCA	p.S30S	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPR146_uc003sjx.3_Silent_p.S30S|GPR146_uc003sjy.1_Silent_p.S30S	NM_138445	NP_612454	Q96CH1	GP146_HUMAN	G protein-coupled receptor 146	30	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0779)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		CACTGTTGTCGCTGCTGGGCC	0.677													5	8					0	0	1	0	0		A	1097241	A	A	1097241	2	1	199	1	0	0	0	0	0	0	0	1	6667	1074	38	1		1	GPR146	7	1097241	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	206172	1097241	158041422	491	97883											
GPER	2852	broad.mit.edu	37	chr7	1132424	1132424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgaaccgcttctgtcacGctgccctgaaggccgtcatt	6	10	9	16	3	3	2	2	2	1	0	3	2	3	2	4	1	2	2	4	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:1132424G>A	uc010ksd.1	+	2	1449	c.1060G>A	c.(1060-1062)GCT>ACT	p.A354T	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.A354T|GPER_uc003ska.1_Missense_Mutation_p.A354T|GPER_uc003skb.2_Missense_Mutation_p.A354T	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	354	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		CTTCTGTCACGCTGCCCTGAA	0.587													5	30					0	0	1	0	0		A	1132424	A	A	1132424	3	1	199	1	0	0	0	0	1	0	0	0	6622	1087	38	1	1062	1	GPER	7	1132424	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	35183	1132424	158006239	492	97884											
INTS1	26173	broad.mit.edu	37	chr7	1518027	1518027	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgatcaggtccggctccacGctgcactgctccccagacct	6	8	9	18	2	1	2	1	1	0	1	4	2	4	2	5	2	2	4	5	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:1518027G>A	uc003skn.2	-	33	4706	c.4605C>T	c.(4603-4605)AGC>AGT	p.S1535S	INTS1_uc003skm.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1535					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CCGGCTCCACGCTGCACTGCT	0.667													10	42					0	0	1	0	0		A	1518027	A	A	1518027	2	1	199	1	0	0	0	0	0	0	0	1	7791	1078	38	1		1	INTS1	7	1518027	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	385603	1518027	157620636	493	97885											
INTS1	26173	broad.mit.edu	37	chr7	1535174	1535174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatctggttctggaatgagCggagcacttccaggtctgaa	10	10	12	9	1	3	2	0	2	3	0	4	4	4	4	1	4	2	2	1	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:1535174C>T	uc003skn.2	-	13	1828	c.1727G>A	c.(1726-1728)CGC>CAC	p.R576H	INTS1_uc003skp.1_5'Flank	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	576					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CTGGAATGAGCGGAGCACTTC	0.612													9	19					0	0	1	0	0		T	1535174	T	T	1535174	3	4	199	1	0	0	0	0	1	0	0	0	7791	768	27	1	4989	1	INTS1	7	1535174	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	17147	1535174	157603489	494	97886											
MAD1L1	8379	broad.mit.edu	37	chr7	1937855	1937855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttgaagatgaggcagtcgCctgggtgctcggcgtacagc	7	8	15	11	3	0	3	0	2	0	1	2	3	0	3	2	3	3	3	2	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:1937855C>A	uc003slh.1	-	18	2245	c.1979G>T	c.(1978-1980)GGC>GTC	p.G660V	MAD1L1_uc003sle.1_Missense_Mutation_p.G389V|MAD1L1_uc003slf.1_Missense_Mutation_p.G660V|MAD1L1_uc003slg.1_Missense_Mutation_p.G660V|MAD1L1_uc010ksh.1_Missense_Mutation_p.G660V|MAD1L1_uc003sli.1_Missense_Mutation_p.G568V|MAD1L1_uc010ksi.1_Missense_Mutation_p.G613V|MAD1L1_uc010ksj.2_Missense_Mutation_p.G660V|MAD1L1_uc003sld.1_Missense_Mutation_p.G116V	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	660					cell division|mitotic anaphase|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase|mitotic prometaphase|mitotic telophase	actin cytoskeleton|centrosome|condensed chromosome kinetochore|cytosol|mitochondrion|nucleus|spindle	protein binding			lung(1)|central_nervous_system(1)	2		Ovarian(82;0.0272)		UCEC - Uterine corpus endometrioid carcinoma (27;0.134)|OV - Ovarian serous cystadenocarcinoma(56;3.63e-14)		GAGGCAGTCGCCTGGGTGCTC	0.632													5	8					0.014758	0.014983	1	1	0		A	1937855	A	A	1937855	3	1	199	1	0	0	0	0	1	0	0	0	9165	739	26	5	185	5	MAD1L1	7	1937855	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	402681	1937855	157200808	495	97887											
TNRC18	84629	broad.mit.edu	37	chr7	5353487	5353487	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcccctcctccagggtagcGgctctgtctgcaaaacaaaa	10	9	8	14	1	2	0	0	0	2	0	5	0	5	0	4	2	3	3	4	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:5353487G>A	uc003soi.3	-	27	7384	c.7035C>T	c.(7033-7035)GCC>GCT	p.A2345A		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2345							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CCAGGGTAGCGGCTCTGTCTG	0.587													5	28					0	0	1	0	0		A	5353487	A	A	5353487	2	1	199	1	0	0	0	0	0	0	0	1	16364	1103	39	1		1	TNRC18	7	5353487	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3415632	5353487	153785176	496	97888											
OCM	654231	broad.mit.edu	37	chr7	5922230	5922230	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatagacaacgaccagagCgggtacctggatgaagaaga	15	6	12	8	2	1	5	1	1	0	4	1	7	1	6	2	2	3	1	2	2	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:5922230C>T	uc003spe.3	+	2	260	c.168C>T	c.(166-168)AGC>AGT	p.S56S		NM_001097622	NP_001091091	P0CE72	ONCO_HUMAN	oncomodulin	56	1.|EF-hand 1.	Calcium 1.					calcium ion binding				0		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0978)|OV - Ovarian serous cystadenocarcinoma(56;2.11e-14)		ACGACCAGAGCGGGTACCTGG	0.527													16	74					0	0	1	0	0		T	5922230	T	T	5922230	2	4	199	1	0	0	0	0	0	0	0	1	10840	767	27	1		1	OCM	7	5922230	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	568743	5922230	153216433	497	97889											
USP42	84132	broad.mit.edu	37	chr7	6187483	6187483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccaacaaacaggctgcgcCaggctttatcggaccacagc	12	5	9	15	2	0	0	0	0	0	0	1	1	0	1	3	3	4	2	3	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:6187483C>T	uc011jwo.1	+	12	1469	c.1346C>T	c.(1345-1347)CCA>CTA	p.P449L	USP42_uc010kth.1_Missense_Mutation_p.P382L|USP42_uc011jwp.1_Missense_Mutation_p.P449L|USP42_uc011jwq.1_Missense_Mutation_p.P256L|USP42_uc011jwr.1_Missense_Mutation_p.P294L	NM_032172	NP_115548	Q9H9J4	UBP42_HUMAN	ubiquitin specific peptidase 42	449					cell differentiation|protein deubiquitination|spermatogenesis|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(2)|ovary(1)|pancreas(1)|breast(1)	5		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.108)|OV - Ovarian serous cystadenocarcinoma(56;5.77e-14)		CAGGCTGCGCCAGGCTTTATC	0.473													16	106					0	0	1	0	0		T	6187483	T	T	6187483	3	4	199	1	0	0	0	0	1	0	0	0	17099	594	21	4	1388	4	USP42	7	6187483	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	265253	6187483	152951180	498	97890											
THSD7A	221981	broad.mit.edu	37	chr7	11457139	11457139	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcctcagggcatggtaattTgcacactctagagcccaggg	9	9	12	11	0	2	1	1	0	1	1	3	1	3	1	2	3	2	3	2	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:11457139T>C	uc003ssf.3	-	16	3727	c.3475A>G	c.(3475-3477)AAA>GAA	p.K1159E		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	1159	TSP type-1 11.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CATGGTAATTTGCACACTCTA	0.438										HNSCC(18;0.044)			3	42					0	0	1	0	0		C	11457139	C	C	11457139	3	2	199	1	0	0	0	0	1	0	0	0	15904	1821	63	3	1546	3	THSD7A	7	11457139	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	5269656	11457139	147681524	499	97891											
CDCA7L	55536	broad.mit.edu	37	chr7	21942677	21942677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgtggcacagcggccgtcaCgcttccgacagtagctgcaa	8	7	12	14	4	1	0	1	0	0	0	2	1	2	0	2	2	3	5	2	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:21942677C>T	uc010kuk.2	-	9	1373	c.1253G>A	c.(1252-1254)CGT>CAT	p.R418H	CDCA7L_uc003sve.3_Missense_Mutation_p.R384H|CDCA7L_uc010kul.2_Missense_Mutation_p.R372H|CDCA7L_uc003svf.3_Missense_Mutation_p.R417H	NM_018719	NP_061189	Q96GN5	CDA7L_HUMAN	cell division cycle associated 7-like isoform 1	418					positive regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus					0						GCGGCCGTCACGCTTCCGACA	0.493													8	47					0	0	1	0	0		T	21942677	T	T	21942677	3	4	199	1	0	0	0	0	1	0	0	0	3094	536	19	1	119	1	CDCA7L	7	21942677	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	10485538	21942677	137195986	500	97892											
HOXA11	3207	broad.mit.edu	37	chr7	27224775	27224775	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaatccattattgggctacCttgggctctccgcagtagcc	9	11	9	12	1	1	0	0	0	1	0	3	0	2	0	4	2	2	4	4	2	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:27224775C>A	uc003syx.2	-	1	61	c.-11G>T	c.(-13--9)AAGGT>AATGT		HOXA11_uc003syy.2_RNA|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11						branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						ATTGGGCTACCTTGGGCTCTC	0.493			T	NUP98	CML						OREG0003747	type=REGULATORY REGION|Gene=BC025338|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	17	54					5.35267e-07	5.69061e-07	1	1	0		A	27224775	A	A	27224775	1	1	199	1	0	0	0	0	0	0	0	0	7306	696	24	5		5	HOXA11	7	27224775	Translation_Start_Site	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5282098	27224775	131913888	501	97893											
TRIL	9865	broad.mit.edu	37	chr7	28997415	28997415	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtccagccgtctgagctgcCccagacggtggaagtcgaag	8	6	15	12	3	1	2	0	1	1	1	3	4	2	3	4	3	3	1	4	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:28997415C>T	uc003szt.2	-	3	615	c.248G>A	c.(247-249)GGG>GAG	p.G83E	uc003szu.1_5'Flank	NM_014817	NP_055632	Q7L0X0	TRIL_HUMAN	TLR4 interactor with leucine rich repeats	83	Extracellular (Potential).				inflammatory response|innate immune response|regulation of cytokine production involved in immune response|toll-like receptor 4 signaling pathway	lipopolysaccharide receptor complex	lipopolysaccharide binding				0						TCTGAGCTGCCCCAGACGGTG	0.622													7	29					0	0	1	0	0		T	28997415	T	T	28997415	3	4	199	1	0	0	0	0	1	0	0	0	16511	623	22	4	2191	4	TRIL	7	28997415	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1772640	28997415	130141248	502	97894											
ELMO1	9844	broad.mit.edu	37	chr7	36927225	36927225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccacaaggcggttcaggcGttgctgtttgatcagctcta	7	13	11	10	2	3	1	2	1	1	0	4	1	4	1	1	3	2	5	1	3	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:36927225G>A	uc003tfk.1	-	18	1961	c.1654C>T	c.(1654-1656)CGC>TGC	p.R552C	ELMO1_uc003tfi.1_Missense_Mutation_p.R72C|ELMO1_uc003tfj.1_Missense_Mutation_p.R72C|ELMO1_uc011kbb.1_Intron|ELMO1_uc011kbc.1_Missense_Mutation_p.R456C|ELMO1_uc010kxg.1_Missense_Mutation_p.R552C	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	552					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						CGGTTCAGGCGTTGCTGTTTG	0.473													12	62					0	0	1	0	0		A	36927225	A	A	36927225	3	1	199	1	0	0	0	0	1	0	0	0	5073	1145	40	1	549	1	ELMO1	7	36927225	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7929810	36927225	122211438	503	97895											
GLI3	2737	broad.mit.edu	37	chr7	42006188	42006188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagaggtcgcttctgcccGggagaagcgtcatgggccca	8	6	15	12	3	2	2	1	0	1	2	3	4	2	2	2	3	2	1	2	3	1	1	rs116840759		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:42006188G>A	uc011kbh.1	-	15	2574	c.2483C>T	c.(2482-2484)CCG>CTG	p.P828L	GLI3_uc011kbg.1_Missense_Mutation_p.P769L	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	828					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GCTTCTGCCCGGGAGAAGCGT	0.592									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				18	66					0	0	1	0	0		A	42006188	A	A	42006188	3	1	199	1	0	0	0	0	1	0	0	0	6454	1116	39	1	2263	1	GLI3	7	42006188	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5078963	42006188	117132475	504	97896											
AEBP1	165	broad.mit.edu	37	chr7	44149840	44149840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacgactactatgatggtgCgtggtgtgccgaggacgatg	8	9	17	7	4	0	1	0	1	0	0	0	6	0	3	1	4	3	0	1	4	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:44149840C>T	uc003tkb.2	+	11	1600	c.1295C>T	c.(1294-1296)GCG>GTG	p.A432V	AEBP1_uc003tkc.3_5'Flank|AEBP1_uc003tkd.2_5'Flank	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	432	Required for DNA-binding and interaction with NFKBIA (By similarity).|F5/8 type C.|Interaction with MAPK1 and MAPK3 (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TATGATGGTGCGTGGTGTGCC	0.632													8	42					0	0	1	0	0		T	44149840	T	T	44149840	3	4	199	1	0	0	0	0	1	0	0	0	349	768	27	1	1337	1	AEBP1	7	44149840	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2143652	44149840	114988823	505	97897											
GRB10	2887	broad.mit.edu	37	chr7	50686887	50686887	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgggatttttaaagaactCgtattttgcgtaattcttcc	10	17	7	7	2	1	1	0	0	1	1	3	2	2	2	1	1	2	2	1	1	5	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:50686887C>T	uc003tpi.2	-	6	788	c.757G>A	c.(757-759)GAG>AAG	p.E253K	GRB10_uc003tph.3_Missense_Mutation_p.E195K|GRB10_uc003tpj.2_Missense_Mutation_p.E253K|GRB10_uc003tpk.2_Missense_Mutation_p.E253K|GRB10_uc010kzb.2_Missense_Mutation_p.E195K|GRB10_uc003tpl.2_Missense_Mutation_p.E247K|GRB10_uc003tpm.2_Missense_Mutation_p.E195K|GRB10_uc003tpn.2_Missense_Mutation_p.E195K	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	253					insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TTAAAGAACTCGTATTTTGCG	0.423									Russell-Silver_syndrome				7	48					0	0	1	0	0		T	50686887	T	T	50686887	3	4	199	1	0	0	0	0	1	0	0	0	6772	893	31	1	1071	1	GRB10	7	50686887	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6537047	50686887	108451776	506	97898											
ZNF680	340252	broad.mit.edu	37	chr7	63981713	63981713	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgattagcaagagttgcaggCcagttaaaaacattgccaca	15	9	9	8	0	0	2	0	1	0	1	0	2	0	2	2	1	4	4	2	1	5	4	rs144844755		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:63981713C>T	uc003tta.2	-	4	1592	c.1419G>A	c.(1417-1419)TGG>TGA	p.W473*	ZNF680_uc010kzr.2_Nonsense_Mutation_p.W400*	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	473	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				GAGTTGCAGGCCAGTTAAAAA	0.373													7	31					0	0	1	0	0		T	63981713	T	T	63981713	4	4	199	1	0	0	0	0	0	1	0	0	18112	740	26	2	177	2	ZNF680	7	63981713	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	13294826	63981713	95156950	507	97899											
GUSB	2990	broad.mit.edu	37	chr7	65439613	65439613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataggggtagtggctggtacGgaaagcgttggcaccaagcc	10	7	16	8	2	0	0	0	0	0	0	0	1	0	1	2	6	3	5	2	6	5	4	rs121918173		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:65439613G>A	uc003tun.2	-	7	1220	c.1144C>T	c.(1144-1146)CGT>TGT	p.R382C	GUSB_uc011kdt.1_Missense_Mutation_p.R236C	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	382			R -> C (in MPS7).|R -> H (in MPS7).		glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						TGGCTGGTACGGAAAGCGTTG	0.592													10	84					0	0	1	0	0		A	65439613	A	A	65439613	3	1	199	1	0	0	0	0	1	0	0	0	6918	1116	39	1	835	1	GUSB	7	65439613	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1457900	65439613	93699050	508	97900											
TYW1B	441250	broad.mit.edu	37	chr7	72081707	72081707	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttcgtgttcacatgcaaTttcatattcggggatcagat	9	15	10	7	2	3	1	3	0	0	1	5	2	3	2	0	2	1	3	0	2	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:72081707T>G	uc011kej.1	-	16	1894	c.1735A>C	c.(1735-1737)ATT>CTT	p.I579L	TYW1B_uc011keh.1_Missense_Mutation_p.I417L|TYW1B_uc011kei.1_Missense_Mutation_p.I205L	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform	579					tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						TCACATGCAATTTCATATTCG	0.473													25	218					0	0	1	0	0		G	72081707	G	G	72081707	3	3	199	1	0	0	0	0	1	0	0	0	16845	1493	52	5	400	5	TYW1B	7	72081707	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	6642094	72081707	87056956	509	97901											
TYW1B	441250	broad.mit.edu	37	chr7	72193868	72193868	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctggtccatcttctaccGccattcagtgcccacagggt	7	10	10	14	1	3	0	1	0	2	0	4	0	4	0	4	3	2	1	4	3	1	3	rs2960999	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:72193868G>A	uc011kej.1	-	10	1272	c.1113_splice	c.e10+1	p.W371_splice	TYW1B_uc011keh.1_Splice_Site_p.W209_splice|TYW1B_uc011kei.1_5'UTR|TYW1B_uc011kek.1_RNA	NM_001145440	NP_001138912	Q6NUM6	TYW1B_HUMAN	tRNA-yW synthesizing protein 1 homolog B isoform						tRNA processing		4 iron, 4 sulfur cluster binding|FMN binding|iron ion binding|oxidoreductase activity				0						ATCTTCTACCGCCATTCAGTG	0.418													3	35					0	0	1	0	0		A	72193868	A	A	72193868	5	1	199	1	0	0	0	0	0	0	1	0	16845	1086	38	1	1037	1	TYW1B	7	72193868	Splice_Site	SNP	G	TCGA-HF-7132-01A-11D-2053-08	112161	72193868	86944795	510	97902											
FZD9	8326	broad.mit.edu	37	chr7	72849435	72849435	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggctgcctggggcctgccCgcgctcaagaccatcgtcat	6	8	12	15	3	2	1	2	0	0	1	3	1	2	1	4	3	2	2	4	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:72849435C>T	uc003tyb.2	+	1	1327	c.1098C>T	c.(1096-1098)CCC>CCT	p.P366P		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	366	Helical; Name=4; (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGGGCCTGCCCGCGCTCAAGA	0.652													4	44					0	0	1	0	0		T	72849435	T	T	72849435	2	4	199	1	0	0	0	0	0	0	0	1	6151	639	23	1		1	FZD9	7	72849435	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	655567	72849435	86289228	511	97903											
PHTF2	57157	broad.mit.edu	37	chr7	77569558	77569558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tataataagttttgtggttcGcgtgtctcttgtgtggattt	6	20	11	4	2	1	0	0	0	1	0	3	1	1	1	0	2	0	2	0	2	3	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:77569558G>A	uc003ugs.3	+	13	1805	c.1679G>A	c.(1678-1680)CGC>CAC	p.R560H	PHTF2_uc003ugp.2_Missense_Mutation_p.R522H|PHTF2_uc003ugq.3_Missense_Mutation_p.R522H|PHTF2_uc010ldv.2_Missense_Mutation_p.R522H|PHTF2_uc003ugt.3_Missense_Mutation_p.R526H|PHTF2_uc003ugu.3_Missense_Mutation_p.R522H|PHTF2_uc010ldw.1_Missense_Mutation_p.R342H	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	560					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						TTTGTGGTTCGCGTGTCTCTT	0.343													8	63					0	0	1	0	0		A	77569558	A	A	77569558	3	1	199	1	0	0	0	0	1	0	0	0	11882	1087	38	1	1677	1	PHTF2	7	77569558	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4720123	77569558	81569105	512	97904											
MAGI2	9863	broad.mit.edu	37	chr7	77885526	77885526	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cttgggtggccccagatgaaGccatagacacattgtcatca	11	9	10	11	0	2	3	2	1	0	2	2	3	2	3	3	2	1	0	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:77885526G>A	uc003ugx.2	-	10	2035	c.1781C>T	c.(1780-1782)GCT>GTT	p.A594V	MAGI2_uc003ugy.2_Missense_Mutation_p.A594V|MAGI2_uc010ldx.1_Missense_Mutation_p.A203V|MAGI2_uc010ldy.1_Missense_Mutation_p.A203V|MAGI2_uc011kgr.1_Missense_Mutation_p.A426V|MAGI2_uc011kgs.1_Missense_Mutation_p.A431V	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	594						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CCCAGATGAAGCCATAGACAC	0.542													6	27					0	0	1	0	0		A	77885526	A	A	77885526	3	1	199	1	0	0	0	0	1	0	0	0	9209	971	34	2	2638	2	MAGI2	7	77885526	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	315968	77885526	81253137	513	97905											
PCLO	27445	broad.mit.edu	37	chr7	82579564	82579564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtggcatcttcgtcatccGtttgtacaccactgtccact	6	14	7	14	2	2	0	1	0	1	0	5	0	4	0	3	1	1	3	3	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:82579564G>A	uc003uhx.2	-	6	10629	c.10340C>T	c.(10339-10341)ACG>ATG	p.T3447M	PCLO_uc003uhv.2_Missense_Mutation_p.T3447M|PCLO_uc010lec.2_Missense_Mutation_p.T412M	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3378					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTCGTCATCCGTTTGTACACC	0.433													13	56					0	0	1	0	0		A	82579564	A	A	82579564	3	1	199	1	0	0	0	0	1	0	0	0	11602	1145	40	1	5185	1	PCLO	7	82579564	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4694038	82579564	76559099	514	97906											
SEMA3E	9723	broad.mit.edu	37	chr7	83119550	83119550	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggagatcaagaaatccaaaAgggctatgaaatattgatgt	17	10	10	4	0	1	4	1	2	0	2	2	5	2	4	1	2	0	1	1	2	7	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:83119550A>G	uc003uhy.1	-	2	622	c.156T>C	c.(154-156)CCT>CCC	p.P52P		NM_012431	NP_036563	O15041	SEM3E_HUMAN	semaphorin 3E precursor	52	Sema.				axon guidance	extracellular space|membrane	receptor activity			ovary(3)	3		Medulloblastoma(109;0.109)				GAAATCCAAAAGGGCTATGAA	0.408													3	51					0	0	1	0	0		G	83119550	G	G	83119550	2	3	199	1	0	0	0	0	0	0	0	1	14053	59	3	3		3	SEMA3E	7	83119550	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	539986	83119550	76019113	515	97907											
SEMA3A	10371	broad.mit.edu	37	chr7	83739842	83739842	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgaaaagcccccgttcCacaggcgtacaagtgagtct	11	8	11	11	2	1	2	0	2	1	0	2	3	2	3	3	2	2	2	3	2	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:83739842C>A	uc003uhz.2	-	4	712	c.397G>T	c.(397-399)GGA>TGA	p.G133*		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	133	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						GCCCCCGTTCCACAGGCGTAC	0.383													21	84					2.32416e-17	2.59124e-17	1	1	0		A	83739842	A	A	83739842	4	1	199	1	0	0	0	0	0	1	0	0	14049	603	21	5	1974	5	SEMA3A	7	83739842	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	620292	83739842	75398821	516	97908											
ABCB4	5244	broad.mit.edu	37	chr7	87060812	87060812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactccatcctcaaacccagCgatgacatctgcatttcgga	11	10	6	14	2	2	1	1	1	1	0	5	3	4	2	3	1	4	1	3	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:87060812C>T	uc003uiv.1	-	15	1877	c.1801G>A	c.(1801-1803)GCT>ACT	p.A601T	ABCB4_uc003uiw.1_Missense_Mutation_p.A601T|ABCB4_uc003uix.1_Missense_Mutation_p.A601T	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	601	ABC transporter 1.|Cytoplasmic (By similarity).				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					TCAAACCCAGCGATGACATCT	0.493													19	123					0	0	1	0	0		T	87060812	T	T	87060812	3	4	199	1	0	0	0	0	1	0	0	0	43	768	27	1	2115	1	ABCB4	7	87060812	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3320970	87060812	72077851	517	97909											
KRIT1	889	broad.mit.edu	37	chr7	91830633	91830633	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacttacctgttttgtatgTactataaagctcattttatt	11	20	4	6	0	1	0	1	0	0	0	1	0	1	0	1	0	4	4	1	0	8	11			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:91830633T>C	uc003ulq.1	-	16	2301	c.2130A>G	c.(2128-2130)GTA>GTG	p.V710V	KRIT1_uc010lev.1_Silent_p.V467V|KRIT1_uc003ulr.1_Silent_p.V710V|KRIT1_uc003uls.1_Silent_p.V710V|KRIT1_uc003ult.1_Silent_p.V662V|KRIT1_uc003ulu.1_Silent_p.V710V|KRIT1_uc003ulv.1_Silent_p.V710V	NM_194456	NP_919438	O00522	KRIT1_HUMAN	krev interaction trapped 1 isoform 1	710	Required for RAP1A binding.|FERM.				angiogenesis|cell redox homeostasis|negative regulation of angiogenesis|negative regulation of endothelial cell apoptosis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|regulation of establishment of cell polarity|small GTPase mediated signal transduction	cell-cell junction|cytoskeleton	protein binding|small GTPase regulator activity			ovary(2)|lung(1)	3	all_cancers(62;1.04e-09)|all_epithelial(64;5.75e-09)|Breast(17;0.00206)|all_lung(186;0.0509)|Lung NSC(181;0.0692)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GTTTTGTATGTACTATAAAGC	0.289									Familial_Cerebral_Cavernous_Angioma				13	65					0	0	1	0	0		C	91830633	C	C	91830633	2	2	199	1	0	0	0	0	0	0	0	1	8461	1625	57	3		3	KRIT1	7	91830633	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	4769821	91830633	67308030	518	97910											
PPP1R9A	55607	broad.mit.edu	37	chr7	94539496	94539496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcacaggaatgcatatcGaactgagtttcaggcactga	12	10	9	10	1	2	2	2	2	0	0	4	4	3	3	1	2	2	3	1	2	3	2	rs140272671		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:94539496G>A	uc003unp.2	+	2	353	c.71G>A	c.(70-72)CGA>CAA	p.R24Q	PPP1R9A_uc010lfj.2_Missense_Mutation_p.R24Q|PPP1R9A_uc011kif.1_Missense_Mutation_p.R24Q|PPP1R9A_uc003unq.2_Missense_Mutation_p.R24Q|PPP1R9A_uc011kig.1_Missense_Mutation_p.R24Q	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	24	Actin-binding.					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			AATGCATATCGAACTGAGTTT	0.473										HNSCC(28;0.073)			7	27					0	0	1	0	0		A	94539496	A	A	94539496	3	1	199	1	0	0	0	0	1	0	0	0	12400	1058	37	1	73	1	PPP1R9A	7	94539496	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2708863	94539496	64599167	519	97911											
LMTK2	22853	broad.mit.edu	37	chr7	97822648	97822648	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aatcagctcaattctaaagaCgcagcaaaagaagcaggctt	17	7	8	9	1	3	2	2	0	1	2	3	2	3	2	0	1	3	5	0	1	7	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:97822648C>T	uc003upd.1	+	11	3164	c.2871C>T	c.(2869-2871)GAC>GAT	p.D957D		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	957					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					ATTCTAAAGACGCAGCAAAAG	0.502													20	92					0	0	1	0	0		T	97822648	T	T	97822648	2	4	199	1	0	0	0	0	0	0	0	1	8876	535	19	1		1	LMTK2	7	97822648	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3283152	97822648	61316015	520	97912											
LMTK2	22853	broad.mit.edu	37	chr7	97822957	97822957	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcagaaccagccaccacgggCgatggcggccacagcggtct	9	4	13	15	4	2	1	1	0	1	1	2	2	2	1	4	4	3	0	4	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:97822957C>T	uc003upd.1	+	11	3473	c.3180C>T	c.(3178-3180)GGC>GGT	p.G1060G		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	1060					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					CCACCACGGGCGATGGCGGCC	0.622													3	13					0	0	1	0	0		T	97822957	T	T	97822957	2	4	199	1	0	0	0	0	0	0	0	1	8876	755	27	1		1	LMTK2	7	97822957	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	309	97822957	61315706	521	97913											
TRRAP	8295	broad.mit.edu	37	chr7	98508867	98508867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtcccttatatggtggaGagaatctcaaaaaattatgc	14	11	9	7	1	1	1	1	0	1	1	3	3	2	2	1	3	1	0	1	3	7	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:98508867G>T	uc003upp.2	+	17	2189	c.1980G>T	c.(1978-1980)GAG>GAT	p.E660D	TRRAP_uc011kis.1_Missense_Mutation_p.E660D|TRRAP_uc003upr.2_Missense_Mutation_p.E352D	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	660				E -> D (in Ref. 2; AAD04629).	histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ATATGGTGGAGAGAATCTCAA	0.338													8	42					4.68919e-08	5.04751e-08	1	1	0		T	98508867	T	T	98508867	3	4	199	1	0	0	0	0	1	0	0	0	16627	933	33	5	2042	5	TRRAP	7	98508867	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	685910	98508867	60629796	522	97914											
MBLAC1	255374	broad.mit.edu	37	chr7	99725616	99725616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtttgagcgagatggggacGaggattcgtggcaggcactg	8	9	18	6	3	0	2	0	1	0	1	1	6	0	4	0	5	1	3	0	5	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:99725616G>A	uc003utp.2	+	2	997	c.598G>A	c.(598-600)GAG>AAG	p.E200K		NM_203397	NP_981942	A4D2B0	MBLC1_HUMAN	metallo-beta-lactamase domain containing 1	200							hydrolase activity|metal ion binding			breast(1)	1						AGATGGGGACGAGGATTCGTG	0.701													7	18					0	0	1	0	0		A	99725616	A	A	99725616	3	1	199	1	0	0	0	0	1	0	0	0	9369	1059	37	1	600	1	MBLAC1	7	99725616	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1216749	99725616	59413047	523	97915											
MUC17	140453	broad.mit.edu	37	chr7	100683157	100683157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgcctgtcaaccacacGccagtggccagttctgaggc	9	8	11	13	1	2	1	1	1	1	0	2	1	2	1	4	2	2	2	4	2	2	2	rs140072363	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:100683157G>A	uc003uxp.1	+	3	8513	c.8460G>A	c.(8458-8460)ACG>ACA	p.T2820T	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2820	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|45.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCAACCACACGCCAGTGGCCA	0.493													8	441					0	0	1	0	0		A	100683157	A	A	100683157	2	1	199	1	0	0	0	0	0	0	0	1	9992	1074	38	1		1	MUC17	7	100683157	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	957541	100683157	58455506	524	97916											
PLOD3	8985	broad.mit.edu	37	chr7	100855210	100855210	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaagtagaactcacactcGgggtcctgccgacacaggtc	10	7	11	13	2	1	2	1	1	0	1	4	3	2	2	2	3	2	1	2	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:100855210G>A	uc003uyd.2	-	11	1605	c.1149C>T	c.(1147-1149)CCC>CCT	p.P383P	PLOD3_uc010lhs.2_5'UTR	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	383					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	ACTCACACTCGGGGTCCTGCC	0.642													4	10					0	0	1	0	0		A	100855210	A	A	100855210	2	1	199	1	0	0	0	0	0	0	0	1	12122	1103	39	1		1	PLOD3	7	100855210	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	172053	100855210	58283453	525	97917											
PRKRIP1	79706	broad.mit.edu	37	chr7	102045105	102045105	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaaattgctgcagaggagCagaccgcaaagcgccggaag	15	4	13	9	3	0	2	0	0	0	2	0	4	0	4	2	2	4	4	2	2	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:102045105C>T	uc003uzh.2	+	4	422	c.367C>T	c.(367-369)CAG>TAG	p.Q123*	PRKRIP1_uc003uzf.2_Nonsense_Mutation_p.Q72*|PRKRIP1_uc003uzg.2_Nonsense_Mutation_p.Q72*|PRKRIP1_uc011kkq.1_Nonsense_Mutation_p.Q66*|PRKRIP1_uc011kkr.1_Nonsense_Mutation_p.Q123*	NM_024653	NP_078929	Q9H875	PKRI1_HUMAN	PRKR interacting protein 1 (IL11 inducible)	123	Potential.|Required for RNA-binding (By similarity).					nucleolus				ovary(1)	1						TGCAGAGGAGCAGACCGCAAA	0.507											OREG0018229	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	63					0	0	1	0	0		T	102045105	T	T	102045105	4	4	199	1	0	0	0	0	0	1	0	0	12547	711	25	2	381	2	PRKRIP1	7	102045105	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1189895	102045105	57093558	526	97918											
RELN	5649	broad.mit.edu	37	chr7	103155847	103155847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccaccagcggaagcgagtgGcaatctctttagcatcagga	11	7	12	11	2	2	0	1	0	1	0	3	3	2	2	2	3	3	2	2	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:103155847G>A	uc003vca.2	-	50	8064	c.7904C>T	c.(7903-7905)GCC>GTC	p.A2635V	RELN_uc010liz.2_Missense_Mutation_p.A2635V	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2635					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		GAAGCGAGTGGCAATCTCTTT	0.502													8	46					0	0	1	0	0		A	103155847	A	A	103155847	3	1	199	1	0	0	0	0	1	0	0	0	13245	1203	42	2	2542	2	RELN	7	103155847	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1110742	103155847	55982816	527	97919											
RELN	5649	broad.mit.edu	37	chr7	103341413	103341413	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttggcatataacacgatGatgctggggtctgaataact	11	13	10	7	1	2	2	0	2	2	0	2	3	2	2	0	3	3	2	0	3	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:103341413G>A	uc003vca.2	-	9	1006	c.846C>T	c.(844-846)ATC>ATT	p.I282I	RELN_uc010liz.2_Silent_p.I282I	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	282					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATAACACGATGATGCTGGGGT	0.328													4	114					0	0	1	0	0		A	103341413	A	A	103341413	2	1	199	1	0	0	0	0	0	0	0	1	13245	1280	45	4		4	RELN	7	103341413	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	185566	103341413	55797250	528	97920											
MLL5	55904	broad.mit.edu	37	chr7	104681416	104681416	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatgagcatagtgatccCattgggggttgatacagcag	10	10	13	8	1	1	3	1	3	0	0	2	3	2	3	1	2	3	3	1	2	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:104681416C>A	uc003vcm.2	+	3	551	c.17C>A	c.(16-18)CCA>CAA	p.P6Q	MLL5_uc010lja.1_5'UTR|MLL5_uc010ljb.1_Missense_Mutation_p.P6Q|MLL5_uc003vcl.2_Missense_Mutation_p.P6Q|MLL5_uc010ljc.2_Missense_Mutation_p.P6Q	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	6					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						ATAGTGATCCCATTGGGGGTT	0.428													22	89					1.30897e-18	1.46497e-18	1	1	0		A	104681416	A	A	104681416	3	1	199	1	0	0	0	0	1	0	0	0	9642	594	21	5	19	5	MLL5	7	104681416	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1340003	104681416	54457247	529	97921											
LAMB1	3912	broad.mit.edu	37	chr7	107575868	107575868	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cccaaaccttaccatttcggCagcggctgaaaggtctaggc	10	8	10	13	2	1	1	0	1	1	0	2	1	1	1	3	4	3	2	3	4	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:107575868C>T	uc003vew.2	-	27	4515	c.4180G>A	c.(4180-4182)GCC>ACC	p.A1394T	LAMB1_uc003vev.2_Missense_Mutation_p.A1418T	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1394	Domain II.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACCATTTCGGCAGCGGCTGAA	0.413													6	143					0	0	1	0	0		T	107575868	T	T	107575868	3	4	199	1	0	0	0	0	1	0	0	0	8626	710	25	2	1212	2	LAMB1	7	107575868	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2894452	107575868	51562795	530	97922											
LAMB1	3912	broad.mit.edu	37	chr7	107615466	107615466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctgtcctgtcaccagacGcttgcagtagcagtgacctg	8	10	11	12	1	1	2	1	1	0	1	2	2	2	2	3	0	3	5	3	0	1	2	rs139568495	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:107615466G>A	uc003vew.2	-	12	1782	c.1447C>T	c.(1447-1449)CGT>TGT	p.R483C	LAMB1_uc003vev.2_Missense_Mutation_p.R507C|LAMB1_uc003vex.2_Missense_Mutation_p.R483C|LAMB1_uc010ljn.1_Missense_Mutation_p.R569C	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	483	Laminin EGF-like 4.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTCACCAGACGCTTGCAGTAG	0.468													14	53					0	0	1	0	0		A	107615466	A	A	107615466	3	1	199	1	0	0	0	0	1	0	0	0	8626	1087	38	1	4005	1	LAMB1	7	107615466	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	39598	107615466	51523197	531	97923											
LRRN3	54674	broad.mit.edu	37	chr7	110763830	110763830	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcatttttcagactcccCaagctggaatcactcatgct	11	12	6	12	0	3	1	3	0	0	1	4	2	4	2	2	1	3	3	2	1	3	2	rs147135549		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:110763830C>A	uc003vft.3	+	4	2048	c.1002C>A	c.(1000-1002)CCC>CCA	p.P334P	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.P334P|LRRN3_uc003vfs.3_Silent_p.P334P	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	334	Extracellular (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		TCAGACTCCCCAAGCTGGAAT	0.433													9	74					4.3838e-07	4.66396e-07	1	1	0		A	110763830	A	A	110763830	2	1	199	1	0	0	0	0	0	0	0	1	9054	581	21	5		5	LRRN3	7	110763830	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3148364	110763830	48374833	532	97924											
IFRD1	3475	broad.mit.edu	37	chr7	112112350	112112350	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgctgggtaaaaaaacacaCctatgacacctttaaggagg	15	9	9	8	0	0	1	0	1	0	0	0	2	0	2	2	3	2	2	2	3	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:112112350C>G	uc003vgh.2	+	11	1561	c.1118C>G	c.(1117-1119)ACC>AGC	p.T373S	IFRD1_uc011kmn.1_Missense_Mutation_p.T323S|IFRD1_uc003vgj.2_Missense_Mutation_p.T373S|IFRD1_uc011kmo.1_RNA|IFRD1_uc011kmp.1_Missense_Mutation_p.T323S|IFRD1_uc003vgk.2_Missense_Mutation_p.T90S	NM_001007245	NP_001007246	O00458	IFRD1_HUMAN	interferon-related developmental regulator 1	373					multicellular organismal development|myoblast cell fate determination		binding			kidney(1)|central_nervous_system(1)	2						AAAAAACACACCTATGACACC	0.398													4	116					0	0	1	0	0		G	112112350	G	G	112112350	3	3	199	1	0	0	0	0	1	0	0	0	7569	507	18	5	1156	5	IFRD1	7	112112350	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1348520	112112350	47026313	533	97925											
IFRD1	3475	broad.mit.edu	37	chr7	112112914	112112914	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaagatttctcgtttcgaaAgggtaggttttgtttttatt	8	20	10	3	2	1	2	0	1	1	1	3	3	1	2	0	2	0	4	0	2	4	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:112112914A>C	uc003vgh.2	+	12	1707	c.1264A>C	c.(1264-1266)AGG>CGG	p.R422R	IFRD1_uc011kmn.1_Silent_p.R372R|IFRD1_uc003vgj.2_Silent_p.R422R|IFRD1_uc011kmo.1_RNA|IFRD1_uc011kmp.1_Silent_p.R372R|IFRD1_uc003vgk.2_Silent_p.R139R	NM_001007245	NP_001007246	O00458	IFRD1_HUMAN	interferon-related developmental regulator 1	422					multicellular organismal development|myoblast cell fate determination		binding			kidney(1)|central_nervous_system(1)	2						TCGTTTCGAAAGGGTAGGTTT	0.373													8	51					0	0	1	0	0		C	112112914	C	C	112112914	2	2	199	1	0	0	0	0	0	0	0	1	7569	63	3	5		5	IFRD1	7	112112914	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	564	112112914	47025749	534	97926											
PPP1R3A	5506	broad.mit.edu	37	chr7	113518738	113518738	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatacctaaacgtgattcCttttcaaaatcattgtcata	15	14	3	9	1	3	1	3	1	0	0	4	1	4	1	2	0	2	0	2	0	7	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:113518738C>A	uc010ljy.1	-	4	2440	c.2409G>T	c.(2407-2409)AAG>AAT	p.K803N		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	803					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						AACGTGATTCCTTTTCAAAAT	0.368													4	48					1	1	1	1	0		A	113518738	A	A	113518738	3	1	199	1	0	0	0	0	1	0	0	0	12393	680	24	5	963	5	PPP1R3A	7	113518738	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1405824	113518738	45619925	535	97927											
CFTR	1080	broad.mit.edu	37	chr7	117232511	117232511	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggccccacgcttcaggcaCgaaggaggcagtctgtcctg	7	7	13	14	2	2	0	1	0	1	0	3	2	3	1	3	4	0	3	3	4	1	1	rs121908810		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:117232511C>T	uc003vjd.2	+	14	2422	c.2290C>T	c.(2290-2292)CGA>TGA	p.R764*	CFTR_uc011knq.1_Nonsense_Mutation_p.R170*	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	764	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	GCTTCAGGCACGAAGGAGGCA	0.532									Cystic_Fibrosis				5	17					0	0	1	0	0		T	117232511	T	T	117232511	4	4	199	1	0	0	0	0	0	1	0	0	3297	528	19	1	2344	1	CFTR	7	117232511	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3713773	117232511	41906152	536	97928											
KCND2	3751	broad.mit.edu	37	chr7	119915075	119915075	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcatcccggaaatcatcgGcgactgctgttatgaggagt	9	10	11	11	3	2	1	2	1	0	0	4	4	3	3	2	3	1	2	2	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:119915075G>A	uc003vjj.1	+	1	1354	c.389G>A	c.(388-390)GGC>GAC	p.G130D		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	130	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					GAAATCATCGGCGACTGCTGT	0.587													24	101					0	0	1	0	0		A	119915075	A	A	119915075	3	1	199	1	0	0	0	0	1	0	0	0	8035	1203	42	2	391	2	KCND2	7	119915075	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2682564	119915075	39223588	537	97929											
KCND2	3751	broad.mit.edu	37	chr7	120373105	120373105	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaatcaacgagcagacaaaCgaagggcacaaaaggtgcgt	18	3	12	8	3	1	2	1	0	0	2	1	4	1	2	0	2	4	2	0	2	6	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:120373105C>T	uc003vjj.1	+	2	2229	c.1264C>T	c.(1264-1266)CGA>TGA	p.R422*		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	422	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					AGCAGACAAACGAAGGGCACA	0.438													4	53					0	0	1	0	0		T	120373105	T	T	120373105	4	4	199	1	0	0	0	0	0	1	0	0	8035	528	19	1	1270	1	KCND2	7	120373105	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	458030	120373105	38765558	538	97930											
IQUB	154865	broad.mit.edu	37	chr7	123120018	123120018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtgtaagttcttcttgcCgccagactagaggaataaca	12	11	9	9	2	2	2	0	0	2	2	2	3	2	3	2	1	3	2	2	1	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:123120018C>T	uc003vkn.2	-	8	1818	c.1241G>A	c.(1240-1242)CGG>CAG	p.R414Q	IQUB_uc003vko.2_Missense_Mutation_p.R414Q|IQUB_uc010lkt.2_Intron|IQUB_uc003vkp.1_Missense_Mutation_p.R414Q	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	414										ovary(3)|large_intestine(1)	4						TTCTTCTTGCCGCCAGACTAG	0.363													7	41					0	0	1	0	0		T	123120018	T	T	123120018	3	4	199	1	0	0	0	0	1	0	0	0	7836	652	23	1	1158	1	IQUB	7	123120018	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2746913	123120018	36018645	539	97931											
LMOD2	442721	broad.mit.edu	37	chr7	123302716	123302716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggataaacagaggcaaaaacGtttgcaggagcaaaaacagc	19	4	11	7	1	0	1	0	0	0	1	0	3	0	3	0	3	6	4	0	3	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:123302716G>A	uc003vky.2	+	2	1233	c.1076G>A	c.(1075-1077)CGT>CAT	p.R359H		NM_207163	NP_997046	Q6P5Q4	LMOD2_HUMAN	leiomodin 2 (cardiac)	359						cytoskeleton	actin binding|tropomyosin binding				0						AGGCAAAAACGTTTGCAGGAG	0.463													13	70					0	0	1	0	0		A	123302716	A	A	123302716	3	1	199	1	0	0	0	0	1	0	0	0	8874	1145	40	1	1082	1	LMOD2	7	123302716	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	182698	123302716	35835947	540	97932											
POT1	25913	broad.mit.edu	37	chr7	124469343	124469343	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaggaatccacgatgttttaTcaaccagggaatttagattt	14	13	8	6	1	1	1	1	0	0	1	2	4	2	3	2	2	1	1	2	2	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:124469343T>C	uc003vlm.2	-	16	2160	c.1559A>G	c.(1558-1560)GAT>GGT	p.D520G	POT1_uc011koe.1_RNA|POT1_uc003vlk.2_RNA|POT1_uc003vll.2_RNA|POT1_uc003vlo.2_Missense_Mutation_p.D389G|POT1_uc003vln.2_Intron	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	520					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						CGATGTTTTATCAACCAGGGA	0.303													13	84					0	0	1	0	0		C	124469343	C	C	124469343	3	2	199	1	0	0	0	0	1	0	0	0	12279	1435	50	3	361	3	POT1	7	124469343	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1166627	124469343	34669320	541	97933											
IMPDH1	3614	broad.mit.edu	37	chr7	128038487	128038487	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaagactatgacgtcgacgCccgcctgggtgagcaggtcc	8	6	13	14	4	0	3	0	2	0	1	2	4	1	3	4	2	1	1	4	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:128038487C>T	uc011kol.1	-	7	906	c.800G>A	c.(799-801)GGC>GAC	p.G267D	IMPDH1_uc011kom.1_Missense_Mutation_p.G262D|IMPDH1_uc003vmt.2_Missense_Mutation_p.G242D|IMPDH1_uc003vmu.2_Missense_Mutation_p.G352D|IMPDH1_uc003vmw.2_Missense_Mutation_p.G342D|IMPDH1_uc011kon.1_Missense_Mutation_p.G319D|IMPDH1_uc003vmv.2_Missense_Mutation_p.G316D|IMPDH1_uc003vmx.2_Missense_Mutation_p.G275D|IMPDH1_uc003vmy.2_Missense_Mutation_p.G283D	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	267	NAD (By similarity).				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	GACGTCGACGCCCGCCTGGGT	0.607											OREG0018292	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	51					0	0	1	0	0		T	128038487	T	T	128038487	3	4	199	1	0	0	0	0	1	0	0	0	7742	739	26	2	776	2	IMPDH1	7	128038487	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3569144	128038487	31100176	542	97934											
NRF1	4899	broad.mit.edu	37	chr7	129350368	129350368	+	Missense_Mutation	SNP	T	A	A	0	1	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	tgtaccatcacagactgtagTccagacttttagtaaccctg	11	12	7	11	0	1	2	1	0	0	2	2	2	2	2	3	0	2	3	3	0	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:129350368T>A	uc003voz.2	+	7	1037	c.920T>A	c.(919-921)GTC>GAC	p.V307D	NRF1_uc003vpa.2_Missense_Mutation_p.V307D|NRF1_uc011kpa.1_Missense_Mutation_p.V146D|NRF1_uc003vpb.2_Missense_Mutation_p.V307D	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1	307	Required for transcriptional activation.				generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						CAGACTGTAGTCCAGACTTTT	0.493													16	71					0	0	1	0	0		A	129350368	A	A	129350368	3	1	199	1	0	0	0	0	1	0	0	0	10665	1667	58	5	942	5	NRF1	7	129350368	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1311881	129350368	29788295	543	97935											
CHRM2	1129	broad.mit.edu	37	chr7	136700421	136700421	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaagcccccagggatcctgTgactgaaaactgtgttcagg	11	8	11	11	0	1	2	1	2	0	0	2	3	2	3	3	2	2	1	3	2	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:136700421T>C	uc003vtf.1	+	4	1432	c.809T>C	c.(808-810)GTG>GCG	p.V270A	CHRM2_uc003vtg.1_Missense_Mutation_p.V270A|CHRM2_uc003vtj.1_Missense_Mutation_p.V270A|CHRM2_uc003vtk.1_Missense_Mutation_p.V270A|CHRM2_uc003vtl.1_Missense_Mutation_p.V270A|CHRM2_uc003vtm.1_Missense_Mutation_p.V270A|CHRM2_uc003vti.1_Missense_Mutation_p.V270A|CHRM2_uc003vto.1_Missense_Mutation_p.V270A|CHRM2_uc003vtn.1_Missense_Mutation_p.V270A|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	270	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	AGGGATCCTGTGACTGAAAAC	0.488													7	22					0	0	1	0	0		C	136700421	C	C	136700421	3	2	199	1	0	0	0	0	1	0	0	0	3380	1696	59	3	811	3	CHRM2	7	136700421	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	7350053	136700421	22438242	544	97936											
SSPO	23145	broad.mit.edu	37	chr7	149512418	149512418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcccaggacgggctgtgcGtgcccccagcccactgccgc	4	6	12	19	3	1	0	0	0	1	0	2	1	1	1	5	2	4	1	5	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:149512418G>A	uc010lpk.2	+	76	10738	c.10738G>A	c.(10738-10740)GTG>ATG	p.V3580M		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3580					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CGGGCTGTGCGTGCCCCCAGC	0.711													3	6					0	0	1	0	0		A	149512418	A	A	149512418	3	1	199	1	0	0	0	0	1	0	0	0	15214	1145	40	1	11030	1	SSPO	7	149512418	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	12811997	149512418	9626245	545	97937											
DPP6	1804	broad.mit.edu	37	chr7	154585835	154585835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaccagcaccaaggtcGccgtgacctggctgaaccgg	8	4	14	15	3	0	2	0	2	0	0	1	2	0	2	6	4	2	2	6	4	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:154585835G>A	uc003wlk.2	+	11	1312	c.1183G>A	c.(1183-1185)GCC>ACC	p.A395T	DPP6_uc003wli.2_Missense_Mutation_p.A331T|DPP6_uc003wlm.2_Missense_Mutation_p.A333T|DPP6_uc011kvq.1_Missense_Mutation_p.A288T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	395	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CACCAAGGTCGCCGTGACCTG	0.637													6	20					0	0	1	0	0		A	154585835	A	A	154585835	3	1	199	1	0	0	0	0	1	0	0	0	4736	1087	38	1	1341	1	DPP6	7	154585835	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5073417	154585835	4552828	546	97938											
HTR5A	3361	broad.mit.edu	37	chr7	154862987	154862987	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgacgtgctttgctgcacGgccagcatctggaacgtgac	7	9	13	12	4	1	1	0	1	1	0	1	3	1	2	1	2	6	4	1	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:154862987G>A	uc003wlu.1	+	1	442	c.378G>A	c.(376-378)ACG>ACA	p.T126T	uc011kvt.1_Silent_p.A9A|uc003wlt.2_Silent_p.A9A	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	126	Helical; Name=3; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TTTGCTGCACGGCCAGCATCT	0.652													9	33					0	0	1	0	0		A	154862987	A	A	154862987	2	1	199	1	0	0	0	0	0	0	0	1	7466	1103	39	1		1	HTR5A	7	154862987	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	277152	154862987	4275676	547	97939											
LMBR1	64327	broad.mit.edu	37	chr7	156518499	156518499	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagctcccacaaaaccaaaCgtagaaagagaggcatttcc	16	5	8	12	1	0	2	0	0	0	2	2	3	2	2	3	1	3	4	3	1	5	2	rs140247020	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:156518499C>T	uc003wmw.3	-	13	1241	c.1026G>A	c.(1024-1026)ACG>ACA	p.T342T	LMBR1_uc003wmv.3_Silent_p.T190T|LMBR1_uc003wmx.3_Silent_p.T190T|LMBR1_uc010lqn.2_Silent_p.T383T|LMBR1_uc011kvx.1_Silent_p.T321T	NM_022458	NP_071903	Q8WVP7	LMBR1_HUMAN	limb region 1 protein	342	Helical; (Potential).					integral to membrane	receptor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.208)		CAAAACCAAACGTAGAAAGAG	0.403													13	45					0	0	1	0	0		T	156518499	T	T	156518499	2	4	199	1	0	0	0	0	0	0	0	1	8857	523	19	1		1	LMBR1	7	156518499	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1655512	156518499	2620164	548	97940											
NOM1	64434	broad.mit.edu	37	chr7	156743059	156743059	+	Missense_Mutation	SNP	A	G	G	1	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	gcagcagctccgtgccgctgAgctttgcacgcgacggtctt	5	9	13	14	5	1	1	0	1	1	0	2	2	2	1	2	1	5	6	2	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:156743059A>G	uc003wmy.2	+	1	643	c.628A>G	c.(628-630)AGC>GGC	p.S210G		NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1	210	Necessary for nucleolar localization and for targeting PPP1CA to the nucleolus.				RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		CGTGCCGCTGAGCTTTGCACG	0.582													19	100					0	0	1	0	0		G	156743059	G	G	156743059	3	3	199	1	0	0	0	0	1	0	0	0	10549	304	11	3	630	3	NOM1	7	156743059	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	224560	156743059	2395604	549	97941											
ESYT2	57488	broad.mit.edu	37	chr7	158560419	158560419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtgattcgattgggaagcaCcagatagtttgatattatat	12	14	11	4	1	0	3	0	2	0	1	1	5	0	4	1	2	1	2	1	2	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr7:158560419C>T	uc003wob.1	-	8	1060	c.994G>A	c.(994-996)GTG>ATG	p.V332M	ESYT2_uc003woc.1_Missense_Mutation_p.V156M|ESYT2_uc003wod.1_Missense_Mutation_p.V332M	NM_020728	NP_065779	A0FGR8	ESYT2_HUMAN	family with sequence similarity 62 (C2 domain	360						integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3						TTGGGAAGCACCAGATAGTTT	0.423													7	47					0	0	1	0	0		T	158560419	T	T	158560419	3	4	199	1	0	0	0	0	1	0	0	0	5273	507	18	4	1747	4	ESYT2	7	158560419	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1817360	158560419	578244	550	97942											
ZNF596	169270	broad.mit.edu	37	chr8	194678	194678	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcaacatatctatcagaagGgcacgtccaccatcagcaca	14	8	6	13	1	4	1	3	0	1	1	5	1	5	1	2	1	2	2	2	1	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:194678G>T	uc003wot.2	+	5	571	c.283G>T	c.(283-285)GGC>TGC	p.G95C	ZNF596_uc003wou.2_5'UTR|ZNF596_uc003wov.2_Missense_Mutation_p.G95C|ZNF596_uc003wow.2_Missense_Mutation_p.G95C	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	95					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		CTATCAGAAGGGCACGTCCAC	0.358													12	53					4.14922e-12	4.56009e-12	1	1	0		T	194678	T	T	194678	3	4	199	1	0	0	0	0	1	0	0	0	18051	1232	43	5	297	5	ZNF596	8	194678	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		194678	146169344	551	97943											
DLGAP2	9228	broad.mit.edu	37	chr8	1497079	1497079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgatgccggtggtgctgggcGaccacgtgtccagcagcacc	6	7	15	13	3	0	1	0	1	0	0	1	2	1	1	4	3	4	3	4	3	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:1497079G>A	uc003wpl.2	+	2	317	c.220G>A	c.(220-222)GAC>AAC	p.D74N	DLGAP2_uc003wpm.2_Missense_Mutation_p.D74N	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	153					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GGTGCTGGGCGACCACGTGTC	0.716													3	34					0	0	1	0	0		A	1497079	A	A	1497079	3	1	199	1	0	0	0	0	1	0	0	0	4566	1058	37	1	222	1	DLGAP2	8	1497079	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1302401	1497079	144866943	552	97944											
ARHGEF10	9639	broad.mit.edu	37	chr8	1833846	1833846	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggaagccatcttgaccccGatgcccgagggtttatctca	8	9	10	14	3	2	1	1	1	2	0	3	4	2	2	5	2	2	1	5	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:1833846G>A	uc003wpr.2	+	11	1333	c.1155G>A	c.(1153-1155)CCG>CCA	p.P385P	ARHGEF10_uc003wpq.1_Silent_p.P410P|ARHGEF10_uc003wps.2_Silent_p.P347P|ARHGEF10_uc003wpt.2_Silent_p.P261P|ARHGEF10_uc003wpv.2_Silent_p.P118P|ARHGEF10_uc010lre.2_Silent_p.P65P	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	410					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TCTTGACCCCGATGCCCGAGG	0.443													22	72					0	0	1	0	0		A	1833846	A	A	1833846	2	1	199	1	0	0	0	0	0	0	0	1	894	1045	37	1		1	ARHGEF10	8	1833846	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	336767	1833846	144530176	553	97945											
CSMD1	64478	broad.mit.edu	37	chr8	3245031	3245031	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctaccgtcgcagctgggcaAggcgtggttccactggtggt	5	9	15	12	3	0	0	0	0	0	0	2	0	1	0	3	5	2	4	3	5	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:3245031A>C	uc011kwk.1	-	18	3160	c.2770T>G	c.(2770-2772)TTG>GTG	p.L924V	CSMD1_uc011kwj.1_Missense_Mutation_p.L316V|CSMD1_uc003wqe.2_Missense_Mutation_p.L80V	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	924	Extracellular (Potential).|Sushi 5.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAGCTGGGCAAGGCGTGGTTC	0.577													3	6					0	0	1	0	0		C	3245031	C	C	3245031	3	2	199	1	0	0	0	0	1	0	0	0	3947	69	3	5	8139	5	CSMD1	8	3245031	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1411185	3245031	143118991	554	97946											
DEFA5	1670	broad.mit.edu	37	chr8	6914177	6914177	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgactcagcctgggcctgcaGggccaccaggagaatggcag	9	5	15	12	0	1	2	1	1	0	1	1	3	1	2	4	4	2	2	4	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:6914177G>T	uc003wra.1	-	1	83	c.43C>A	c.(43-45)CTG>ATG	p.L15M		NM_021010	NP_066290	Q01523	DEF5_HUMAN	defensin, alpha 5 preproprotein	15					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space					0				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		TGGGCCTGCAGGGCCACCAGG	0.587													5	61					5.18039e-06	5.44815e-06	1	1	0		T	6914177	T	T	6914177	3	4	199	1	0	0	0	0	1	0	0	0	4395	991	35	5	249	5	DEFA5	8	6914177	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3669146	6914177	139449845	555	97947											
XKR6	286046	broad.mit.edu	37	chr8	11058321	11058321	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcggaagctcaggctctgCaccagcagcgacggcaccag	10	3	13	15	3	2	0	1	0	1	0	2	2	2	1	2	3	5	5	2	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:11058321C>T	uc003wtk.1	-	1	555	c.528G>A	c.(526-528)GTG>GTA	p.V176V		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	176	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		TCAGGCTCTGCACCAGCAGCG	0.697													10	69					0	0	1	0	0		T	11058321	T	T	11058321	2	4	199	1	0	0	0	0	0	0	0	1	17461	697	25	2		2	XKR6	8	11058321	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4144144	11058321	135305701	556	97948											
XKR6	286046	broad.mit.edu	37	chr8	11058806	11058806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccaggttgtgcagctgagCgaagcccacccccacgccac	8	5	11	17	2	0	1	0	1	0	0	1	2	1	1	5	1	4	3	5	1	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:11058806C>T	uc003wtk.1	-	1	70	c.43G>A	c.(43-45)GCT>ACT	p.A15T		NM_173683	NP_775954	Q5GH73	XKR6_HUMAN	XK, Kell blood group complex subunit-related	15	Gly-rich.					integral to membrane				ovary(1)|skin(1)	2				Lung(29;0.0407)|COAD - Colon adenocarcinoma(149;0.0555)		TGCAGCTGAGCGAAGCCCACC	0.468													3	38					0	0	1	0	0		T	11058806	T	T	11058806	3	4	199	1	0	0	0	0	1	0	0	0	17461	768	27	1	1894	1	XKR6	8	11058806	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	485	11058806	135305216	557	97949											
C8orf79	57604	broad.mit.edu	37	chr8	12878931	12878931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacattaggaaaatcgtttcGttcctggtttttctccagat	9	16	7	9	2	1	1	0	0	1	1	5	2	2	2	2	2	0	3	2	2	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:12878931G>A	uc010lsq.2	+	5	1235	c.743G>A	c.(742-744)CGT>CAT	p.R248H	C8orf79_uc011kxw.1_Intron|C8orf79_uc003wwj.3_Missense_Mutation_p.R161H|C8orf79_uc010lsr.2_Missense_Mutation_p.R122H	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	248							methyltransferase activity				0						AAATCGTTTCGTTCCTGGTTT	0.413													6	62					0	0	1	0	0		A	12878931	A	A	12878931	3	1	199	1	0	0	0	0	1	0	0	0	2441	1145	40	1	753	1	C8orf79	8	12878931	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1820125	12878931	133485091	558	97950											
CNOT7	29883	broad.mit.edu	37	chr8	17088329	17088329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaaatgaccacaatatttgGcatcatcaatatgatcttca	16	12	4	9	0	4	2	3	2	1	0	4	2	4	2	1	1	0	1	1	1	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:17088329G>A	uc003wxf.1	-	7	926	c.758C>T	c.(757-759)GCC>GTC	p.A253V	CNOT7_uc003wxg.1_Missense_Mutation_p.A253V	NM_013354	NP_037486	Q9UIV1	CNOT7_HUMAN	CCR4-NOT transcription complex, subunit 7	253					carbohydrate metabolic process|nuclear-transcribed mRNA poly(A) tail shortening	CCR4-NOT complex|cytoplasmic mRNA processing body|cytosol	nucleic acid binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(1)	1				Colorectal(111;0.0523)|COAD - Colon adenocarcinoma(73;0.209)		ACAATATTTGGCATCATCAAT	0.338													7	41					0	0	1	0	0		A	17088329	A	A	17088329	3	1	199	1	0	0	0	0	1	0	0	0	3627	1203	42	2	103	2	CNOT7	8	17088329	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4209398	17088329	129275693	559	97951											
LZTS1	11178	broad.mit.edu	37	chr8	20107520	20107520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcagccgctccagctcccGctgcagggcagggacgtcct	5	5	13	18	4	0	0	0	0	0	0	3	1	3	1	5	2	3	6	5	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:20107520G>A	uc003wzr.2	-	3	1615	c.1504C>T	c.(1504-1506)CGG>TGG	p.R502W	LZTS1_uc010ltg.1_Intron	NM_021020	NP_066300	Q9Y250	LZTS1_HUMAN	leucine zipper, putative tumor suppressor 1	502					cell cycle|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	cell junction|dendritic spine|Golgi apparatus|nucleolus|nucleoplasm|postsynaptic density|postsynaptic membrane	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				Colorectal(74;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TCCAGCTCCCGCTGCAGGGCA	0.721													13	25					0	0	1	0	0		A	20107520	A	A	20107520	3	1	199	1	0	0	0	0	1	0	0	0	9156	1086	38	1	290	1	LZTS1	8	20107520	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3019191	20107520	126256502	560	97952											
XPO7	23039	broad.mit.edu	37	chr8	21847891	21847891	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctagtgaagcttagtgcGgtacagttcatgctgaacaa	13	10	11	7	1	1	2	1	2	0	0	1	2	1	2	0	1	6	5	0	1	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:21847891G>T	uc003xaa.3	+	17	2007	c.1905G>T	c.(1903-1905)GCG>GCT	p.A635A	XPO7_uc010lti.2_Silent_p.A644A|XPO7_uc010ltk.2_Silent_p.A636A	NM_015024	NP_055839	Q9UIA9	XPO7_HUMAN	exportin 7 isoform b	635					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)		AGCTTAGTGCGGTACAGTTCA	0.458													9	158					0.00010058	0.000104281	1	1	0		T	21847891	T	T	21847891	2	4	199	1	0	0	0	0	0	0	0	1	17475	1103	39	5		5	XPO7	8	21847891	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1740371	21847891	124516131	561	97953											
REEP4	80346	broad.mit.edu	37	chr8	21998164	21998164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acgaatgttcttggtcttcaCagccttataggaagcataag	12	12	9	8	1	3	0	1	0	2	0	3	2	3	1	1	2	2	2	1	2	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:21998164C>T	uc003xau.1	-	2	532	c.79G>A	c.(79-81)GTG>ATG	p.V27M	REEP4_uc010ltt.1_Missense_Mutation_p.V27M|REEP4_uc011kyz.1_Missense_Mutation_p.V27M	NM_025232	NP_079508	Q9H6H4	REEP4_HUMAN	receptor accessory protein 4	27						integral to membrane				skin(1)	1				Colorectal(74;0.00187)|COAD - Colon adenocarcinoma(73;0.061)|READ - Rectum adenocarcinoma(644;0.0993)		TTGGTCTTCACAGCCTTATAG	0.552													49	495					0	0	1	0	0		T	21998164	T	T	21998164	3	4	199	1	0	0	0	0	1	0	0	0	13232	478	17	4	722	4	REEP4	8	21998164	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	150273	21998164	124365858	562	97954											
SFTPC	6440	broad.mit.edu	37	chr8	22020095	22020095	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccgtgtcaggactactcCgcagctccccggggccgatt	6	7	11	17	4	1	0	1	0	0	0	3	2	3	1	6	3	2	2	6	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:22020095C>T	uc003xax.3	+	2	209	c.51C>T	c.(49-51)TCC>TCT	p.S17S	SFTPC_uc003xaw.3_Silent_p.S66S|SFTPC_uc011kza.1_Silent_p.S17S|SFTPC_uc003xaz.2_Silent_p.S17S|SFTPC_uc003xay.3_Silent_p.S17S	NM_003018	NP_003009	P11686	PSPC_HUMAN	surfactant protein C precursor	17					respiratory gaseous exchange	extracellular space					0				Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		AGGACTACTCCGCAGCTCCCC	0.607													22	143					0	0	1	0	0		T	22020095	T	T	22020095	2	4	199	1	0	0	0	0	0	0	0	1	14217	639	23	1		1	SFTPC	8	22020095	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	21931	22020095	124343927	563	97955											
CDCA2	157313	broad.mit.edu	37	chr8	25343307	25343307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacttcaagtatcatttgcCgttctcagttctcctaataa	10	15	4	12	1	4	0	3	0	2	0	6	0	4	0	3	0	1	3	3	0	4	7	rs138630584		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:25343307C>T	uc003xep.1	+	11	1877	c.1398C>T	c.(1396-1398)GCC>GCT	p.A466A	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_Silent_p.A466A|CDCA2_uc003xeq.1_Silent_p.A451A|CDCA2_uc003xer.1_Silent_p.A129A	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	466					cell division|mitosis	cytoplasm|nucleus					0		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)		TATCATTTGCCGTTCTCAGTT	0.308													7	58					0	0	1	0	0		T	25343307	T	T	25343307	2	4	199	1	0	0	0	0	0	0	0	1	3089	639	23	1		1	CDCA2	8	25343307	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3323212	25343307	121020715	564	97956											
EBF2	64641	broad.mit.edu	37	chr8	25716012	25716012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagatgctgcttgtgttgcGgatgtacccttggcaacaaa	10	11	12	8	1	0	1	0	0	0	1	0	3	0	2	1	2	5	5	1	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:25716012G>A	uc003xes.1	-	14	1368	c.1351C>T	c.(1351-1353)CGC>TGC	p.R451C	PPP2R2A_uc003xek.2_Intron|EBF2_uc010lug.1_RNA	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	451					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		CTTGTGTTGCGGATGTACCCT	0.527													16	53					0	0	1	0	0		A	25716012	A	A	25716012	3	1	199	1	0	0	0	0	1	0	0	0	4887	1116	39	1	388	1	EBF2	8	25716012	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	372705	25716012	120648010	565	97957											
PTK2B	2185	broad.mit.edu	37	chr8	27279842	27279842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccggaacgactacatgcagCgctacgccagcaaggtcagc	11	5	11	14	4	1	0	1	0	0	0	2	2	2	1	2	2	7	3	2	2	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:27279842C>T	uc003xfn.1	+	10	1301	c.493C>T	c.(493-495)CGC>TGC	p.R165C	PTK2B_uc003xfo.1_Missense_Mutation_p.R165C|PTK2B_uc003xfp.1_Missense_Mutation_p.R165C|PTK2B_uc003xfq.1_Missense_Mutation_p.R165C	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	165	FERM.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		CTACATGCAGCGCTACGCCAG	0.627													11	50					0	0	1	0	0		T	27279842	T	T	27279842	3	4	199	1	0	0	0	0	1	0	0	0	12786	768	27	1	507	1	PTK2B	8	27279842	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1563830	27279842	119084180	566	97958											
WRN	7486	broad.mit.edu	37	chr8	30916670	30916670	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gaaatttactaaactcaaggCatgtgttcggaagagtgttt	13	13	10	5	1	1	1	1	0	0	1	2	3	1	2	0	2	2	3	0	2	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:30916670C>A	uc003xio.3	+	3	886	c.98C>A	c.(97-99)GCA>GAA	p.A33E		NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	33	Interaction with WRNIP1 (By similarity).				base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		AAACTCAAGGCATGTGTTCGG	0.353			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				21	115					1.50039e-11	1.64158e-11	1	1	0		A	30916670	A	A	30916670	3	1	199	1	0	0	0	0	1	0	0	0	17428	724	25	5	104	5	WRN	8	30916670	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3636828	30916670	115447352	567	97959											
WRN	7486	broad.mit.edu	37	chr8	30969281	30969281	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgaaaaacagggaatatcCttcaggatctgcagccattt	13	9	10	9	1	2	0	1	0	1	0	3	3	3	2	2	3	3	1	2	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:30969281C>A	uc003xio.3	+	19	3027	c.2239C>A	c.(2239-2241)CTT>ATT	p.L747I	WRN_uc010lvk.2_Missense_Mutation_p.L214I	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	747					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		AGGGAATATCCTTCAGGATCT	0.343			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				16	50					1.56452e-12	1.72203e-12	1	1	0		A	30969281	A	A	30969281	3	1	199	1	0	0	0	0	1	0	0	0	17428	681	24	5	2309	5	WRN	8	30969281	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	52611	30969281	115394741	568	97960											
LETM2	137994	broad.mit.edu	37	chr8	38261959	38261959	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccctccttcccttttgctcCtgtcccgcaccttctacctg	2	15	4	20	1	1	0	0	0	1	0	6	0	6	0	7	0	2	2	7	0	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:38261959C>A	uc003xlm.1	+	8	1183	c.1012C>A	c.(1012-1014)CTG>ATG	p.L338M	LETM2_uc011lbn.1_Missense_Mutation_p.L182M|LETM2_uc003xll.1_Missense_Mutation_p.L290M|LETM2_uc003xln.1_Missense_Mutation_p.L182M|LETM2_uc003xlo.1_Missense_Mutation_p.L182M	NM_144652	NP_653253	Q2VYF4	LETM2_HUMAN	leucine zipper-EF-hand containing transmembrane	385	Poly-Leu.|LETM1.|Mitochondrial matrix (Potential).					integral to membrane|mitochondrial inner membrane					0	all_cancers(2;6.77e-47)|all_epithelial(2;1.01e-50)|all_lung(3;1.25e-23)|Lung NSC(2;2.76e-23)|Colorectal(12;0.000442)|Esophageal squamous(3;0.00202)	all_lung(54;0.0657)|Hepatocellular(245;0.152)|Lung NSC(58;0.175)	Epithelial(3;1.17e-42)|all cancers(3;5.44e-38)|BRCA - Breast invasive adenocarcinoma(5;5.44e-27)|LUSC - Lung squamous cell carcinoma(2;7.12e-25)|Lung(2;4.49e-22)|COAD - Colon adenocarcinoma(9;0.114)			CCTTTTGCTCCTGTCCCGCAC	0.567													20	98					1.50538e-07	1.60625e-07	1	1	0		A	38261959	A	A	38261959	3	1	199	1	0	0	0	0	1	0	0	0	8751	680	24	5	886	5	LETM2	8	38261959	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7292678	38261959	108102063	569	97961											
IKBKB	3551	broad.mit.edu	37	chr8	42179608	42179608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacagtcaggaaatggtacGgctgctgcttcaggcaattc	10	10	12	9	1	2	1	2	1	0	0	3	2	2	2	0	4	3	5	0	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:42179608G>A	uc003xow.1	+	18	1952	c.1775G>A	c.(1774-1776)CGG>CAG	p.R592Q	IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Missense_Mutation_p.R369Q|IKBKB_uc003xox.1_Missense_Mutation_p.R313Q|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Missense_Mutation_p.R590Q|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Missense_Mutation_p.R533Q	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	592					anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	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)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	GAAATGGTACGGCTGCTGCTT	0.537													18	91					0	0	1	0	0		A	42179608	A	A	42179608	3	1	199	1	0	0	0	0	1	0	0	0	7627	1116	39	1	1841	1	IKBKB	8	42179608	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3917649	42179608	104184414	570	97962											
CHRNB3	1142	broad.mit.edu	37	chr8	42586933	42586933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggacgtcacgtttttcccGttcgaccgacagaactgctc	8	11	9	13	5	1	1	1	0	0	1	4	4	2	2	2	1	2	3	2	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:42586933G>A	uc003xpi.1	+	5	611	c.483G>A	c.(481-483)CCG>CCA	p.P161P		NM_000749	NP_000740	Q05901	ACHB3_HUMAN	cholinergic receptor, nicotinic, beta	161	Extracellular (Potential).				synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	nicotinic acetylcholine-activated cation-selective channel activity|receptor activity			ovary(1)	1	all_lung(13;5.7e-12)|Lung NSC(13;1.6e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00026)|Lung NSC(58;0.000992)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	Lung(22;0.0199)|LUSC - Lung squamous cell carcinoma(45;0.0869)			CGTTTTTCCCGTTCGACCGAC	0.488													3	18					0	0	1	0	0		A	42586933	A	A	42586933	2	1	199	1	0	0	0	0	0	0	0	1	3395	1132	40	1		1	CHRNB3	8	42586933	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	407325	42586933	103777089	571	97963											
PRKDC	5591	broad.mit.edu	37	chr8	48743175	48743175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaaactgacctgggccacGgcctgtaacggggtgatgag	11	6	14	10	2	0	3	0	3	0	0	0	3	0	3	3	4	2	1	3	4	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:48743175G>A	uc003xqi.2	-	62	8445	c.8388C>T	c.(8386-8388)GCC>GCT	p.A2796A	PRKDC_uc003xqj.2_Silent_p.A2796A|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2796	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CCTGGGCCACGGCCTGTAACG	0.532								NHEJ					8	75					0	0	1	0	0		A	48743175	A	A	48743175	2	1	199	1	0	0	0	0	0	0	0	1	12543	1103	39	1		1	PRKDC	8	48743175	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6156242	48743175	97620847	572	97964											
SNTG1	54212	broad.mit.edu	37	chr8	51449300	51449300	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtgggagaagcgatggtgCgacctcagactgatccctct	9	8	14	10	2	2	3	1	1	1	2	3	6	3	3	2	3	2	0	2	3	1	0	rs35419988		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:51449300C>T	uc010lxy.1	+	12	983	c.612C>T	c.(610-612)TGC>TGT	p.C204C	SNTG1_uc003xqs.1_Silent_p.C204C|SNTG1_uc010lxz.1_Silent_p.C204C|SNTG1_uc011ldl.1_RNA	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	204					cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				AGCGATGGTGCGACCTCAGAC	0.473													16	147					0	0	1	0	0		T	51449300	T	T	51449300	2	4	199	1	0	0	0	0	0	0	0	1	14899	776	27	1		1	SNTG1	8	51449300	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2706125	51449300	94914722	573	97965											
PXDNL	137902	broad.mit.edu	37	chr8	52320800	52320800	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggccgcagaataagccgcGgagaagagcctctgggtcag	11	4	15	11	4	2	3	1	0	1	3	2	4	2	3	3	3	2	1	3	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:52320800G>A	uc003xqu.3	-	17	3485	c.3384C>T	c.(3382-3384)TCC>TCT	p.S1128S	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1128					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				AATAAGCCGCGGAGAAGAGCC	0.567													17	104					0	0	1	0	0		A	52320800	A	A	52320800	2	1	199	1	0	0	0	0	0	0	0	1	12873	1103	39	1		1	PXDNL	8	52320800	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	871500	52320800	94043222	574	97966											
PXDNL	137902	broad.mit.edu	37	chr8	52321953	52321953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgaaggcggtcagcgccGcgccccacgtgggctgctgc	4	4	17	16	7	1	0	1	0	0	0	1	1	1	0	3	3	3	2	3	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:52321953G>A	uc003xqu.3	-	17	2332	c.2231C>T	c.(2230-2232)GCG>GTG	p.A744V	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	744					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGTCAGCGCCGCGCCCCACGT	0.726													4	20					0	0	1	0	0		A	52321953	A	A	52321953	3	1	199	1	0	0	0	0	1	0	0	0	12873	1087	38	1	2188	1	PXDNL	8	52321953	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1153	52321953	94042069	575	97967											
RP1	6101	broad.mit.edu	37	chr8	55539117	55539117	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	acaacatgctacaaccagggCaaattctttagcttctttga	13	12	6	10	0	2	1	0	1	2	0	2	1	2	1	1	1	5	3	1	1	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:55539117C>A	uc003xsd.1	+	4	2823	c.2675C>A	c.(2674-2676)GCA>GAA	p.A892E	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	892					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ACAACCAGGGCAAATTCTTTA	0.333													7	27					2.0095e-06	2.12864e-06	1	1	0		A	55539117	A	A	55539117	3	1	199	1	0	0	0	0	1	0	0	0	13557	710	25	5	2685	5	RP1	8	55539117	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3217164	55539117	90824905	576	97968											
TOX	9760	broad.mit.edu	37	chr8	59750746	59750746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgatggcggcctgagtatcaCgaaagaataacgcataggca	14	7	12	8	3	1	3	1	2	0	1	1	4	1	3	1	3	1	3	1	3	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:59750746C>T	uc003xtw.1	-	5	1039	c.818G>A	c.(817-819)CGT>CAT	p.R273H		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	273	HMG box.					nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				CTGAGTATCACGAAAGAATAA	0.468													15	81					0	0	1	0	0		T	59750746	T	T	59750746	3	4	199	1	0	0	0	0	1	0	0	0	16403	536	19	1	782	1	TOX	8	59750746	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4211629	59750746	86613276	577	97969											
CHD7	55636	broad.mit.edu	37	chr8	61769061	61769061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaggaggaggagaaaaatcGaaattgaggccgaaagagct	17	4	16	4	2	0	3	0	1	0	2	1	9	0	6	1	5	1	1	1	5	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:61769061G>A	uc003xue.2	+	34	7699	c.7222G>A	c.(7222-7224)GAA>AAA	p.E2408K		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2408	Potential.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GAGAAAAATCGAAATTGAGGC	0.488													3	30					0	0	1	0	0		A	61769061	A	A	61769061	3	1	199	1	0	0	0	0	1	0	0	0	3333	1059	37	1	7352	1	CHD7	8	61769061	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2018315	61769061	84594961	578	97970											
NCOA2	10499	broad.mit.edu	37	chr8	71071820	71071820	+	Silent	SNP	A	G	G	1	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	agtttgctcttcgtttgtgcAgcaacaagagtgccatcaga	10	12	10	9	1	2	2	1	0	1	2	3	2	2	2	1	0	5	5	1	0	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:71071820A>G	uc003xyn.1	-	10	1206	c.1044T>C	c.(1042-1044)GCT>GCC	p.A348A		NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2	348					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			TCGTTTGTGCAGCAACAAGAG	0.413			T	RUNXBP2	AML								12	128					0	0	1	0	0		G	71071820	G	G	71071820	2	3	199	1	0	0	0	0	0	0	0	1	10248	175	7	3		3	NCOA2	8	71071820	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	9302759	71071820	75292202	579	97971											
MMP16	4325	broad.mit.edu	37	chr8	89128759	89128759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaaaacaaacatctcacgacGaagaatagctagagtgttaa	19	7	8	7	2	1	2	1	0	1	2	2	5	1	2	0	0	3	2	0	0	8	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:89128759G>A	uc003yeb.3	-	6	1342	c.1060C>T	c.(1060-1062)CGT>TGT	p.R354C	MMP16_uc003yec.2_Missense_Mutation_p.R354C	NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	354	Extracellular (Potential).|Hemopexin-like 1.				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						ATCTCACGACGAAGAATAGCT	0.433													5	50					0	0	1	0	0		A	89128759	A	A	89128759	3	1	199	1	0	0	0	0	1	0	0	0	9673	1058	37	1	939	1	MMP16	8	89128759	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	18056939	89128759	57235263	580	97972											
CALB1	793	broad.mit.edu	37	chr8	91094854	91094854	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagataatcaccgtcagcGtcgaaatggagccagatctc	14	7	10	10	3	3	3	2	0	1	3	5	5	3	4	2	1	2	0	2	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:91094854G>A	uc003yel.1	-	1	254	c.72C>T	c.(70-72)GAC>GAT	p.D24D	CALB1_uc003yem.1_Intron|CALB1_uc011lge.1_5'Flank	NM_004929	NP_004920	P05937	CALB1_HUMAN	calbindin 1	24	1.|EF-hand 1.					nucleus	calcium ion binding|vitamin D binding			pancreas(1)	1			BRCA - Breast invasive adenocarcinoma(11;0.00953)			CACCGTCAGCGTCGAAATGGA	0.502													15	109					0	0	1	0	0		A	91094854	A	A	91094854	2	1	199	1	0	0	0	0	0	0	0	1	2576	1136	40	1		1	CALB1	8	91094854	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1966095	91094854	55269168	581	97973											
TMEM67	91147	broad.mit.edu	37	chr8	94808178	94808178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgccaattcaggaagaacGttttgtcacttatgttggat	12	14	9	6	1	2	1	2	0	0	1	2	3	2	3	1	2	2	2	1	2	5	5	rs146130549	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:94808178G>A	uc011lgk.1	+	18	1894	c.1823G>A	c.(1822-1824)CGT>CAT	p.R608H	TMEM67_uc010maw.2_Missense_Mutation_p.R314H|TMEM67_uc003yga.3_Missense_Mutation_p.R527H|TMEM67_uc011lgl.1_Missense_Mutation_p.R7H	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1	608					cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			CAGGAAGAACGTTTTGTCACT	0.333													19	101					0	0	1	0	0		A	94808178	A	A	94808178	3	1	199	1	0	0	0	0	1	0	0	0	16221	1145	40	1	2031	1	TMEM67	8	94808178	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3713324	94808178	51555844	582	97974											
TSPYL5	85453	broad.mit.edu	37	chr8	98289649	98289649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcccggcagggccacGccggtttccaacgcgggggg	4	7	15	15	5	1	0	0	0	1	0	3	0	3	0	4	6	1	2	4	6	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:98289649G>A	uc003yhy.2	-	1	528	c.424C>T	c.(424-426)CGT>TGT	p.R142C		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	142					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					GCAGGGCCACGCCGGTTTCCA	0.672													7	51					0	0	1	0	0		A	98289649	A	A	98289649	3	1	199	1	0	0	0	0	1	0	0	0	16688	1087	38	1	833	1	TSPYL5	8	98289649	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3481471	98289649	48074373	583	97975											
VPS13B	157680	broad.mit.edu	37	chr8	100789120	100789120	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtttgtcccatccctttgCgtttctttccagtttgctca	3	19	7	12	1	2	0	1	0	1	0	5	0	5	0	3	1	2	4	3	1	0	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:100789120C>T	uc003yiv.2	+	41	7551	c.7440C>T	c.(7438-7440)TGC>TGT	p.C2480C	VPS13B_uc003yiw.2_Silent_p.C2455C	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2480					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CATCCCTTTGCGTTTCTTTCC	0.458													27	166					0	0	1	0	0		T	100789120	T	T	100789120	2	4	199	1	0	0	0	0	0	0	0	1	17216	776	27	1		1	VPS13B	8	100789120	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2499471	100789120	45574902	584	97976											
FZD6	8323	broad.mit.edu	37	chr8	104341961	104341961	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattctaaagttaaacacaaAaagaagcactataaaccaag	23	7	4	7	0	1	1	0	0	1	1	1	1	1	1	1	0	3	2	1	0	12	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:104341961A>G	uc003ylh.2	+	6	1904	c.1620A>G	c.(1618-1620)AAA>AAG	p.K540K	FZD6_uc003ylj.2_Silent_p.K540K|FZD6_uc011lhn.1_Silent_p.K506K|FZD6_uc011lho.1_Silent_p.K235K|FZD6_uc011lhp.1_Silent_p.K485K	NM_003506	NP_003497	O60353	FZD6_HUMAN	frizzled 6 isoform a precursor	540	Cytoplasmic (Potential).				angiogenesis|axonogenesis|cell proliferation in midbrain|establishment of planar polarity|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|inner ear morphogenesis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity|neural tube closure|non-canonical Wnt receptor signaling pathway	apical part of cell|apicolateral plasma membrane|cytoplasm|integral to plasma membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(57;2.86e-05)|STAD - Stomach adenocarcinoma(118;0.197)			TTAAACACAAAAAGAAGCACT	0.388													17	29					0	0	1	0	0		G	104341961	G	G	104341961	2	3	199	1	0	0	0	0	0	0	0	1	6148	11	1	3		3	FZD6	8	104341961	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3552841	104341961	42022061	585	97977											
ABRA	137735	broad.mit.edu	37	chr8	107773549	107773549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttggttccttctttggggcGgccatagccctcatctcctt	3	16	9	13	1	3	0	1	0	2	0	5	0	4	0	4	4	1	1	4	4	1	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:107773549G>A	uc003ymm.3	-	2	916	c.862C>T	c.(862-864)CGC>TGC	p.R288C		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	288					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			TCTTTGGGGCGGCCATAGCCC	0.498													6	41					0	0	1	0	0		A	107773549	A	A	107773549	3	1	199	1	0	0	0	0	1	0	0	0	100	1116	39	1	287	1	ABRA	8	107773549	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3431588	107773549	38590473	586	97978											
C8orf85	441376	broad.mit.edu	37	chr8	117950647	117950647	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctcgccgccagcccgctGctggaggacctcagacgacg	6	4	13	18	5	1	1	1	0	0	1	2	4	1	3	5	2	2	2	5	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:117950647G>A	uc003yof.2	+	1	184	c.165G>A	c.(163-165)CTG>CTA	p.L55L		NM_001025357	NP_001020528	Q4LEZ3	AARD_HUMAN	alanine and arginine-rich domain-containing	55											0						CCAGCCCGCTGCTGGAGGACC	0.627													5	17					0	0	1	0	0		A	117950647	A	A	117950647	2	1	199	1	0	0	0	0	0	0	0	1	2444	1306	46	2		2	C8orf85	8	117950647	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10177098	117950647	28413375	587	97979											
EXT1	2131	broad.mit.edu	37	chr8	119122745	119122745	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accattgttccacaagtggaGactctgcactttggatctca	10	12	8	11	0	2	1	1	0	2	1	4	3	3	2	2	2	1	2	2	2	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:119122745G>T	uc003yok.1	-	1	1314	c.541C>A	c.(541-543)CTC>ATC	p.L181I		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	181	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			CACAAGTGGAGACTCTGCACT	0.483			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				35	190					3.61848e-18	4.04662e-18	1	1	0		T	119122745	T	T	119122745	3	4	199	1	0	0	0	0	1	0	0	0	5331	942	33	5	1743	5	EXT1	8	119122745	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1172098	119122745	27241277	588	97980											
HAS2	3037	broad.mit.edu	37	chr8	122641065	122641065	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttggacaagaccaattgCgttacgtgttgcgagctttc	8	14	11	8	3	0	1	0	0	0	1	1	3	0	2	1	1	4	4	1	1	3	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:122641065C>T	uc003yph.2	-	2	1054	c.516G>A	c.(514-516)ACG>ACA	p.T172T		NM_005328	NP_005319	Q92819	HAS2_HUMAN	hyaluronan synthase 2	172	Cytoplasmic (Potential).					integral to plasma membrane	hyaluronan synthase activity		HAS2/PLAG1(10)	soft_tissue(10)|ovary(5)	15	Lung NSC(37;3.12e-08)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)|all_neural(195;0.142)		STAD - Stomach adenocarcinoma(47;0.00503)			AGACCAATTGCGTTACGTGTT	0.458													19	338					0	0	1	0	0		T	122641065	T	T	122641065	2	4	199	1	0	0	0	0	0	0	0	1	6978	755	27	1		1	HAS2	8	122641065	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3518320	122641065	23722957	589	97981											
ANXA13	312	broad.mit.edu	37	chr8	124714942	124714942	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctcatctgatgtcctgccCgataagatttcaatgatggc	9	13	8	11	1	3	3	2	2	2	1	5	4	4	3	2	1	1	0	2	1	2	2	rs140057297		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:124714942C>T	uc003yqu.2	-	3	199	c.126G>A	c.(124-126)TCG>TCA	p.S42S	ANXA13_uc003yqt.2_Silent_p.S83S	NM_004306	NP_004297	P27216	ANX13_HUMAN	annexin A13 isoform a	42	Annexin 1.				cell differentiation	plasma membrane	calcium ion binding|calcium-dependent phospholipid binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(37;2.06e-11)|Ovarian(258;0.00579)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00288)			ATGTCCTGCCCGATAAGATTT	0.448													23	141					0	0	1	0	0		T	124714942	T	T	124714942	2	4	199	1	0	0	0	0	0	0	0	1	717	639	23	1		1	ANXA13	8	124714942	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2073877	124714942	21649080	590	97982											
FAM91A1	157769	broad.mit.edu	37	chr8	124786386	124786386	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagtatccgcaatcagttaCgatatagaaataacttaggt	16	11	7	7	2	1	1	1	0	0	1	2	2	2	1	1	1	2	3	1	1	8	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:124786386C>T	uc003yqv.2	+	2	200	c.139C>T	c.(139-141)CGA>TGA	p.R47*	FAM91A1_uc011lik.1_Nonsense_Mutation_p.R47*|FAM91A1_uc011lil.1_Translation_Start_Site	NM_144963	NP_659400	Q658Y4	F91A1_HUMAN	hypothetical protein LOC157769	47										ovary(1)|central_nervous_system(1)	2	Lung NSC(37;8.76e-13)|Ovarian(258;0.00744)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00192)			CAATCAGTTACGATATAGAAA	0.333													6	166					0	0	1	0	0		T	124786386	T	T	124786386	4	4	199	1	0	0	0	0	0	1	0	0	5665	528	19	1	145	1	FAM91A1	8	124786386	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	71444	124786386	21577636	591	97983											
WISP1	8840	broad.mit.edu	37	chr8	134232870	134232870	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggggtgcgctacaacaaCggccagtccttccagcctaa	10	7	11	13	2	0	0	0	0	0	0	2	1	2	0	4	3	5	1	4	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:134232870C>T	uc003yub.2	+	3	472	c.396C>T	c.(394-396)AAC>AAT	p.N132N	WISP1_uc003yuc.2_Intron|WISP1_uc010meb.2_Intron|WISP1_uc010mec.2_Intron|WISP1_uc010med.2_Intron|WISP1_uc003yud.2_Intron	NM_003882	NP_003873	O95388	WISP1_HUMAN	WNT1 inducible signaling pathway protein 1	132	VWFC.				cell adhesion|cell-cell signaling|regulation of cell growth|Wnt receptor signaling pathway	extracellular region|soluble fraction	insulin-like growth factor binding			central_nervous_system(1)|kidney(1)	2	all_epithelial(106;5.39e-23)|Lung NSC(106;7.26e-07)|all_lung(105;2.77e-06)|Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0107)			GCTACAACAACGGCCAGTCCT	0.667													8	119					0	0	1	0	0		T	134232870	T	T	134232870	2	4	199	1	0	0	0	0	0	0	0	1	17398	535	19	1		1	WISP1	8	134232870	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9446484	134232870	12131152	592	97984											
COL22A1	169044	broad.mit.edu	37	chr8	139890158	139890158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcggatgccagcgcggtgggCtgccgccgcggcgtccagca	4	4	18	15	7	0	0	0	0	0	0	1	1	1	1	4	4	4	2	4	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:139890158C>T	uc003yvd.2	-	3	940	c.493G>A	c.(493-495)GCC>ACC	p.A165T		NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	165	Poly-Ala.|VWFA.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GCGCGGTGGGCTGCCGCCGCG	0.716										HNSCC(7;0.00092)			5	15					0	0	1	0	0		T	139890158	T	T	139890158	3	4	199	1	0	0	0	0	1	0	0	0	3684	797	28	2	4639	2	COL22A1	8	139890158	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5657288	139890158	6473864	593	97985											
CYP11B2	1585	broad.mit.edu	37	chr8	143996496	143996496	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaagatgctgggctggacGtccagggtcaggctcccccg	6	7	16	12	2	1	1	1	0	0	1	3	3	3	3	3	5	1	3	3	5	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:143996496G>A	uc003yxk.1	-	3	564	c.561C>T	c.(559-561)GAC>GAT	p.D187D		NM_000498	NP_000489	P19099	C11B2_HUMAN	cytochrome P450, family 11, subfamily B,	187					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|potassium ion homeostasis|regulation of blood volume by renal aldosterone|sodium ion homeostasis|xenobiotic metabolic process		corticosterone 18-monooxygenase activity|electron carrier activity|steroid 11-beta-monooxygenase activity				0	all_cancers(97;5.56e-11)|all_epithelial(106;2.49e-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)				Candesartan(DB00796)|Metyrapone(DB01011)	TGGGCTGGACGTCCAGGGTCA	0.637									Familial_Hyperaldosteronism_type_I				5	17					0	0	1	0	0		A	143996496	A	A	143996496	2	1	199	1	0	0	0	0	0	0	0	1	4149	1136	40	1		1	CYP11B2	8	143996496	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4106338	143996496	2367526	594	97986											
GPIHBP1	338328	broad.mit.edu	37	chr8	144296964	144296964	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcagaactgctcacatggCcagacctgcacaaccctcat	12	6	7	16	1	2	2	2	0	0	2	2	2	2	2	3	1	4	3	3	1	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:144296964C>T	uc003yxu.1	+	3	333	c.258C>T	c.(256-258)GGC>GGT	p.G86G		NM_178172	NP_835466	Q8IV16	HDBP1_HUMAN	glycosylphosphatidylinositol anchored high	86	UPAR/Ly6.				cholesterol homeostasis|intracellular protein transport|positive regulation of chylomicron remnant clearance|positive regulation of lipoprotein lipase activity|protein import|protein localization at cell surface|protein stabilization|response to heparin|triglyceride homeostasis	anchored to external side of plasma membrane|apical plasma membrane|basolateral plasma membrane|high-density lipoprotein particle|integral to membrane|intracellular	apolipoprotein binding|chylomicron binding|lipase binding|lipid binding|protein transmembrane transporter activity				0	all_cancers(97;6.49e-11)|all_epithelial(106;2.77e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					GCTCACATGGCCAGACCTGCA	0.682													4	19					0	0	1	0	0		T	144296964	T	T	144296964	2	4	199	1	0	0	0	0	0	0	0	1	6627	726	26	2		2	GPIHBP1	8	144296964	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	300468	144296964	2067058	595	97987											
SCRIB	23513	broad.mit.edu	37	chr8	144874928	144874928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcacccaccagggacacgCgcttaggggggccctcggcc	7	3	14	17	3	0	0	0	0	0	0	1	1	0	1	4	5	1	2	4	5	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:144874928C>T	uc003yzp.1	-	30	4134	c.4127G>A	c.(4126-4128)CGC>CAC	p.R1376H	SCRIB_uc003yzn.1_Missense_Mutation_p.R85H|SCRIB_uc003yzo.1_Missense_Mutation_p.R1376H	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	1376					activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CAGGGACACGCGCTTAGGGGG	0.692													5	11					0	0	1	0	0		T	144874928	T	T	144874928	3	4	199	1	0	0	0	0	1	0	0	0	13962	768	27	1	872	1	SCRIB	8	144874928	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	577964	144874928	1489094	596	97988											
SCRIB	23513	broad.mit.edu	37	chr8	144895815	144895815	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaggcactcacttgcccacGtccccgggcagtgcctgcag	7	6	12	16	2	1	0	1	0	0	0	2	1	2	0	4	2	3	3	4	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:144895815G>A	uc003yzp.1	-	4	445	c.438C>T	c.(436-438)GAC>GAT	p.D146D	SCRIB_uc003yzo.1_Silent_p.D146D|MIR937_hsa-mir-937|MI0005759_5'Flank	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	146	Sufficient for targeting to adherens junction and to inhibit cell proliferation.|LRR 5.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			ACTTGCCCACGTCCCCGGGCA	0.637													4	66					0	0	1	0	0		A	144895815	A	A	144895815	2	1	199	1	0	0	0	0	0	0	0	1	13962	1136	40	1		1	SCRIB	8	144895815	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	20887	144895815	1468207	597	97989											
PLEC	5339	broad.mit.edu	37	chr8	144991824	144991824	+	Silent	SNP	A	G	G	1	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	ggcagccggtggctctcctcAgggtcgatgatgccgcccgt	4	8	15	14	4	2	1	1	1	1	0	4	2	2	1	4	4	2	2	4	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:144991824A>G	uc003zaf.1	-	32	12746	c.12576T>C	c.(12574-12576)CCT>CCC	p.P4192P	PLEC_uc003zab.1_Silent_p.P4055P|PLEC_uc003zac.1_Silent_p.P4059P|PLEC_uc003zad.2_Silent_p.P4055P|PLEC_uc003zae.1_Silent_p.P4023P|PLEC_uc003zag.1_Silent_p.P4033P|PLEC_uc003zah.2_Silent_p.P4041P|PLEC_uc003zaj.2_Silent_p.P4082P	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4192	Plectin 25.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GGCTCTCCTCAGGGTCGATGA	0.637													10	42					0	0	1	0	0		G	144991824	G	G	144991824	2	3	199	1	0	0	0	0	0	0	0	1	12071	175	7	3		3	PLEC	8	144991824	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	96009	144991824	1372198	598	97990											
OPLAH	26873	broad.mit.edu	37	chr8	145111052	145111052	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccggacttcagcccacctGttactgtcgatgatgaggca	8	9	12	12	2	1	2	1	2	0	0	2	4	1	3	3	3	2	2	3	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:145111052G>A	uc003zar.3	-	15	2176	c.2094C>T	c.(2092-2094)AAC>AAT	p.N698N	OPLAH_uc003zas.1_5'Flank	NM_017570	NP_060040	O14841	OPLA_HUMAN	5-oxoprolinase (ATP-hydrolysing)	698							5-oxoprolinase (ATP-hydrolyzing) activity|ATP binding				0	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)		L-Glutamic Acid(DB00142)	CAGCCCACCTGTTACTGTCGA	0.652													8	73					0	0	1	0	0		A	145111052	A	A	145111052	2	1	199	1	0	0	0	0	0	0	0	1	10895	1368	48	4		4	OPLAH	8	145111052	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	119228	145111052	1252970	599	97991											
SCRT1	83482	broad.mit.edu	37	chr8	145557017	145557017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaatgcgtctgcatgtgcgCgcgcaggttggagcggtcgg	5	8	18	10	7	1	0	0	0	1	0	2	2	1	1	0	4	4	3	0	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:145557017C>T	uc003zbw.1	-	2	989	c.877G>A	c.(877-879)GCG>ACG	p.A293T		NM_031309	NP_112599	Q9BWW7	SCRT1_HUMAN	scratch	293	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.94e-40)|Epithelial(56;1.35e-39)|all cancers(56;1.37e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			TGCATGTGCGCGCGCAGGTTG	0.642													3	3					0	0	1	0	0		T	145557017	T	T	145557017	3	4	199	1	0	0	0	0	1	0	0	0	13966	768	27	1	173	1	SCRT1	8	145557017	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	445965	145557017	807005	600	97992											
PPP1R16A	84988	broad.mit.edu	37	chr8	145725521	145725521	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaccgacgggaacatgccCtatgacctgtgtgatgatga	12	8	11	10	2	0	4	0	4	0	0	0	6	0	5	3	1	3	0	3	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:145725521C>A	uc003zdd.2	+	5	1432	c.519C>A	c.(517-519)CCC>CCA	p.P173P	uc003zde.1_5'Flank|PPP1R16A_uc003zdf.2_Silent_p.P173P|GPT_uc011lli.1_5'Flank	NM_032902	NP_116291	Q96I34	PP16A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	173						plasma membrane	protein binding				0	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)			GGAACATGCCCTATGACCTGT	0.672													4	29					5.9392e-07	6.30502e-07	1	1	0		A	145725521	A	A	145725521	2	1	199	1	0	0	0	0	0	0	0	1	12387	668	24	5		5	PPP1R16A	8	145725521	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	168504	145725521	638501	601	97993											
RECQL4	9401	broad.mit.edu	37	chr8	145738726	145738726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagcccgcacatctggccGgtccagccccatcccaaagg	9	4	9	19	2	1	0	0	0	1	0	3	0	3	0	6	3	2	1	6	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:145738726G>A	uc003zdj.2	-	15	2370	c.2338C>T	c.(2338-2340)CGG>TGG	p.R780W		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	780	Helicase C-terminal.				DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			ACATCTGGCCGGTCCAGCCCC	0.716			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				7	35					0	0	1	0	0		A	145738726	A	A	145738726	3	1	199	1	0	0	0	0	1	0	0	0	13227	1116	39	1	1320	1	RECQL4	8	145738726	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	13205	145738726	625296	602	97994											
ARHGAP39	80728	broad.mit.edu	37	chr8	145771085	145771085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttctcgatgtccgtctccGaggagggcttgcgcagcgtg	5	10	15	11	5	2	0	0	0	2	0	5	3	3	1	2	2	2	3	2	2	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr8:145771085G>A	uc003zdt.1	-	7	2624	c.2069C>T	c.(2068-2070)TCG>TTG	p.S690L	ARHGAP39_uc011llk.1_Missense_Mutation_p.S690L|ARHGAP39_uc003zds.1_Missense_Mutation_p.S690L	NM_025251	NP_079527	Q9C0H5	RHG39_HUMAN	KIAA1688 protein	690					axon guidance|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|nucleus	GTPase activator activity				0						GTCCGTCTCCGAGGAGGGCTT	0.652													9	54					0	0	1	0	0		A	145771085	A	A	145771085	3	1	199	1	0	0	0	0	1	0	0	0	884	1059	37	1	1303	1	ARHGAP39	8	145771085	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	32359	145771085	592937	603	97995											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													7	89					0	0	1	0	0		G	164038	G	G	164038	5	3	199	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-HF-7132-01A-11D-2053-08		164038	141049393	604	97996											
KIAA0020	9933	broad.mit.edu	37	chr9	2831330	2831330	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatcacacgagttgaatcGtgtgcaaatgcaatctgcag	12	10	11	8	2	2	1	1	1	1	0	3	3	2	2	0	1	3	4	0	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:2831330G>A	uc003zhp.1	-	6	627	c.531C>T	c.(529-531)CAC>CAT	p.H177H	KIAA0020_uc010mhc.1_Silent_p.H176H|KIAA0020_uc003zhq.1_Silent_p.H177H	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	177	Pumilio 1.|PUM-HD.					endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		GAGTTGAATCGTGTGCAAATG	0.343													9	64					0	0	1	0	0		A	2831330	A	A	2831330	2	1	199	1	0	0	0	0	0	0	0	1	8168	1136	40	1		1	KIAA0020	9	2831330	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2667292	2831330	138382101	605	97997											
RFX3	5991	broad.mit.edu	37	chr9	3293131	3293131	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aaattgatcttattaattttCcaaaagaggcagcattgact	15	14	6	6	0	1	3	0	2	1	1	2	3	2	3	1	1	1	2	1	1	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:3293131C>A	uc003zhr.2	-	7	989	c.677G>T	c.(676-678)GGA>GTA	p.G226V	RFX3_uc010mhd.2_Missense_Mutation_p.G226V|RFX3_uc003zhs.1_Missense_Mutation_p.G226V|RFX3_uc003zht.1_Missense_Mutation_p.G226V|RFX3_uc010mhe.1_Missense_Mutation_p.G201V	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	226	RFX-type winged-helix.				cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		TATTAATTTTCCAAAAGAGGC	0.408													12	73					4.7546e-09	5.15963e-09	1	1	0		A	3293131	A	A	3293131	3	1	199	1	0	0	0	0	1	0	0	0	13289	855	30	5	1776	5	RFX3	9	3293131	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	461801	3293131	137920300	606	97998											
C9orf93	203238	broad.mit.edu	37	chr9	15846708	15846708	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgcttgcagagtctctcCgaggcaaagatggagctgag	9	9	14	9	1	2	3	0	1	2	2	4	5	3	4	1	2	3	4	1	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:15846708C>T	uc003zmd.2	+	22	3591	c.3276C>T	c.(3274-3276)TCC>TCT	p.S1092S	C9orf93_uc003zme.2_Silent_p.S1007S|C9orf93_uc011lmu.1_Silent_p.S1100S|C9orf93_uc003zmf.1_Silent_p.S400S	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	1092	Potential.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		AGAGTCTCTCCGAGGCAAAGA	0.438													6	37					0	0	1	0	0		T	15846708	T	T	15846708	2	4	199	1	0	0	0	0	0	0	0	1	2509	639	23	1		1	C9orf93	9	15846708	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	12553577	15846708	125366723	607	97999											
C9orf23	138716	broad.mit.edu	37	chr9	34610959	34610959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccacactgcaggcacatggCggcgcactgtgagggggtct	7	6	15	13	2	1	1	0	1	1	0	1	1	1	1	1	5	1	3	1	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:34610959C>T	uc003zuu.2	-	2	616	c.335G>A	c.(334-336)CGC>CAC	p.R112H	C9orf23_uc003zuv.2_Missense_Mutation_p.R112H	NM_148179	NP_680545	Q8N5L8	CI023_HUMAN	hypothetical protein LOC138716	112							nucleic acid binding				0	all_epithelial(49;0.0863)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.0385)		AGGCACATGGCGGCGCACTGT	0.647													10	49					0	0	1	0	0		T	34610959	T	T	34610959	3	4	199	1	0	0	0	0	1	0	0	0	2477	768	27	1	160	1	C9orf23	9	34610959	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	18764251	34610959	106602472	608	98000											
KIAA1045	23349	broad.mit.edu	37	chr9	34977119	34977119	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacagtgaaggagcgggagCgagcccgagccgccttcctg	8	5	16	12	4	0	2	0	2	0	0	1	6	1	4	4	2	4	0	4	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:34977119C>T	uc003zvq.2	+	6	1067	c.889C>T	c.(889-891)CGA>TGA	p.R297*	KIAA1045_uc003zvr.2_Nonsense_Mutation_p.R297*	NM_015297	NP_056112	Q9UPV7	K1045_HUMAN	hypothetical protein LOC23349	297							calcium ion binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00575)			GGAGCGGGAGCGAGCCCGAGC	0.572													3	46					0	0	1	0	0		T	34977119	T	T	34977119	4	4	199	1	0	0	0	0	0	1	0	0	8223	760	27	1	907	1	KIAA1045	9	34977119	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	366160	34977119	106236312	609	98001											
RUSC2	9853	broad.mit.edu	37	chr9	35546877	35546877	+	Missense_Mutation	SNP	A	G	G	1	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	acttggtgacctgtatgatgAcagcattggtgacagtgcca	10	11	12	8	0	0	4	0	4	0	0	0	4	0	4	2	2	2	2	2	2	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:35546877A>G	uc003zww.2	+	2	614	c.359A>G	c.(358-360)GAC>GGC	p.D120G	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.D120G	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	120						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			CTGTATGATGACAGCATTGGT	0.592													14	73					0	0	1	0	0		G	35546877	G	G	35546877	3	3	199	1	0	0	0	0	1	0	0	0	13776	275	10	3	361	3	RUSC2	9	35546877	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	569758	35546877	105666554	610	98002											
RUSC2	9853	broad.mit.edu	37	chr9	35547005	35547005	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcaggccatgggggacaacaCgcagtcgggctggagtggtg	8	5	19	9	2	0	0	0	0	0	0	1	2	0	2	1	6	1	3	1	6	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:35547005C>T	uc003zww.2	+	2	742	c.487C>T	c.(487-489)CGC>TGC	p.R163C	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.R163C	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	163						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			GGGGACAACACGCAGTCGGGC	0.622													16	56					0	0	1	0	0		T	35547005	T	T	35547005	3	4	199	1	0	0	0	0	1	0	0	0	13776	536	19	1	489	1	RUSC2	9	35547005	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	128	35547005	105666426	611	98003											
FRMPD1	22844	broad.mit.edu	37	chr9	37746671	37746671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcgagagaggctaccacGacctgagtgtgaaactcctg	10	7	12	12	2	0	3	0	2	0	1	1	6	1	3	4	1	3	1	4	1	2	1	rs146303578		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:37746671G>A	uc004aag.1	+	16	4686	c.4642G>A	c.(4642-4644)GAC>AAC	p.D1548N	FRMPD1_uc004aah.1_Missense_Mutation_p.D1548N	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1548						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		AGGCTACCACGACCTGAGTGT	0.607													37	175					0	0	1	0	0		A	37746671	A	A	37746671	3	1	199	1	0	0	0	0	1	0	0	0	6071	1058	37	1	4700	1	FRMPD1	9	37746671	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2199666	37746671	103466760	612	98004											
ZNF658	26149	broad.mit.edu	37	chr9	40773222	40773222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagtcactacattcataggGttttctacctgtgtgaattc	10	15	7	9	0	3	1	2	1	1	0	4	1	3	1	1	1	2	1	1	1	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:40773222G>A	uc004abs.2	-	5	2205	c.2053C>T	c.(2053-2055)CCC>TCC	p.P685S	ZNF658_uc010mmm.1_Intron|ZNF658_uc010mmn.1_Missense_Mutation_p.P685S	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	685					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		CATTCATAGGGTTTTCTACCT	0.418													38	138					0	0	1	0	0		A	40773222	A	A	40773222	3	1	199	1	0	0	0	0	1	0	0	0	18094	1261	44	4	1130	4	ZNF658	9	40773222	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3026551	40773222	100440209	613	98005											
FOXD4L5	653427	broad.mit.edu	37	chr9	70177147	70177147	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgctttcttcggtgccccGgcatagacgggggccgagag	5	9	15	12	4	2	2	0	0	2	2	3	3	2	2	3	4	2	2	3	4	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:70177147G>A	uc010moc.2	-	1	1669	c.837C>T	c.(835-837)GCC>GCT	p.A279A		NM_001126334	NP_001119806	Q5VV16	FX4L5_HUMAN	forkhead box D4-like 5	279					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						TCGGTGCCCCGGCATAGACGG	0.687													10	45					0	0	1	0	0		A	70177147	A	A	70177147	2	1	199	1	0	0	0	0	0	0	0	1	6016	1103	39	1		1	FOXD4L5	9	70177147	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	29403925	70177147	71036284	614	98006											
PGM5	5239	broad.mit.edu	37	chr9	70993121	70993121	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttggatggtttagattggaCgactgattattggacagaat	11	15	12	3	1	0	3	0	1	0	2	0	7	0	6	0	4	0	1	0	4	3	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:70993121C>T	uc004agr.2	+	2	497	c.268C>T	c.(268-270)CGA>TGA	p.R90*		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	90					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TTAGATTGGACGACTGATTAT	0.443													5	109					0	0	1	0	0		T	70993121	T	T	70993121	4	4	199	1	0	0	0	0	0	1	0	0	11820	528	19	1	274	1	PGM5	9	70993121	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	815974	70993121	70220310	615	98007											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	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	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													10	102					0	0	1	0	0		G	70993145	G	G	70993145	3	3	199	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	24	70993145	70220286	616	98008											
TJP2	9414	broad.mit.edu	37	chr9	71863051	71863051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acacggacggtgaaggaggcGcctacactgacaatgagctg	12	5	14	10	3	0	3	0	3	0	0	0	5	0	5	1	4	2	1	1	4	3	1	rs139276234		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:71863051G>A	uc004ahe.2	+	19	2991	c.2791G>A	c.(2791-2793)GCC>ACC	p.A931T	TJP2_uc011lrs.1_Missense_Mutation_p.A908T|TJP2_uc004ahd.2_Missense_Mutation_p.A931T|TJP2_uc004ahf.2_Missense_Mutation_p.A931T|TJP2_uc011lru.1_Missense_Mutation_p.A935T|TJP2_uc011lrv.1_Missense_Mutation_p.A953T|TJP2_uc010mom.1_Missense_Mutation_p.A91T	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	931					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						TGAAGGAGGCGCCTACACTGA	0.622													8	27					0	0	1	0	0		A	71863051	A	A	71863051	3	1	199	1	0	0	0	0	1	0	0	0	15955	1087	38	1	3022	1	TJP2	9	71863051	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	869906	71863051	69350380	617	98009											
TRPM3	80036	broad.mit.edu	37	chr9	73254016	73254016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctggagatggtgagaaaaCggtgcatgcttactccattc	10	11	12	8	1	1	2	0	1	1	2	3	4	2	2	1	3	4	2	1	3	3	2	rs143760929		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:73254016C>T	uc004aid.2	-	11	1785	c.1541G>A	c.(1540-1542)CGT>CAT	p.R514H	TRPM3_uc004ahu.2_Missense_Mutation_p.R344H|TRPM3_uc004ahv.2_Intron|TRPM3_uc004ahw.2_Missense_Mutation_p.R386H|TRPM3_uc004ahx.2_Missense_Mutation_p.R361H|TRPM3_uc004ahy.2_Missense_Mutation_p.R386H|TRPM3_uc004ahz.2_Missense_Mutation_p.R361H|TRPM3_uc004aia.2_Missense_Mutation_p.R361H|TRPM3_uc004aib.2_Missense_Mutation_p.R361H|TRPM3_uc004aic.2_Missense_Mutation_p.R514H|TRPM3_uc010mor.2_Missense_Mutation_p.R514H	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	539	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GGTGAGAAAACGGTGCATGCT	0.413													39	100					0	0	1	0	0		T	73254016	T	T	73254016	3	4	199	1	0	0	0	0	1	0	0	0	16613	536	19	1	3682	1	TRPM3	9	73254016	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1390965	73254016	67959415	618	98010											
RORB	6096	broad.mit.edu	37	chr9	77249562	77249562	+	Missense_Mutation	SNP	A	C	C	1	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	tcaagggattctttaggaggAgccagcagaacaatgcttct	12	10	11	8	0	3	1	1	0	2	1	3	4	3	4	1	3	4	2	1	3	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:77249562A>C	uc004aji.2	+	3	191	c.142A>C	c.(142-144)AGC>CGC	p.S48R	RORB_uc004ajh.2_Missense_Mutation_p.S37R	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	48	Nuclear receptor.				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						CTTTAGGAGGAGCCAGCAGAA	0.423													5	13					0	0	1	0	0		C	77249562	C	C	77249562	3	2	199	1	0	0	0	0	1	0	0	0	13554	304	11	5	119	5	RORB	9	77249562	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3995546	77249562	63963869	619	98011											
PRUNE2	158471	broad.mit.edu	37	chr9	79328528	79328528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacagcaatctgtcgtctcGgctgctgctcctctgacaga	8	10	9	14	2	3	2	0	1	3	1	6	2	4	2	1	1	3	4	1	1	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:79328528G>A	uc010mpk.2	-	7	990	c.866C>T	c.(865-867)CCG>CTG	p.P289L		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	289					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CTGTCGTCTCGGCTGCTGCTC	0.498													4	14					0	0	1	0	0		A	79328528	A	A	79328528	3	1	199	1	0	0	0	0	1	0	0	0	12663	1116	39	1	8452	1	PRUNE2	9	79328528	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2078966	79328528	61884903	620	98012											
TLE4	7091	broad.mit.edu	37	chr9	82333695	82333695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcctgtcccttttccacccGacgccctcatcggacctgga	6	9	8	18	3	1	0	1	0	0	0	4	3	3	2	6	2	1	0	6	2	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:82333695G>A	uc004ald.2	+	16	2323	c.1474G>A	c.(1474-1476)GAC>AAC	p.D492N	TLE4_uc004alc.2_Missense_Mutation_p.D467N|TLE4_uc010mpr.2_Missense_Mutation_p.D346N|TLE4_uc004ale.2_Missense_Mutation_p.D104N|TLE4_uc011lsq.1_Missense_Mutation_p.D435N|TLE4_uc010mps.2_Missense_Mutation_p.D391N|TLE4_uc004alf.2_Missense_Mutation_p.D406N	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						TTTTCCACCCGACGCCCTCAT	0.562													23	78					0	0	1	0	0		A	82333695	A	A	82333695	3	1	199	1	0	0	0	0	1	0	0	0	15966	1058	37	1	1457	1	TLE4	9	82333695	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3005167	82333695	58879736	621	98013											
TLE1	7088	broad.mit.edu	37	chr9	84226807	84226807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctcgccgttcatgccagcGtgggggaccatcccaaaagg	9	6	13	13	3	1	0	1	0	0	0	3	1	2	1	4	3	3	2	4	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:84226807G>A	uc004aly.2	-	13	1572	c.1131C>T	c.(1129-1131)CAC>CAT	p.H377H	TLE1_uc004alz.2_Silent_p.H387H|TLE1_uc011lsr.1_Silent_p.H362H|TLE1_uc004ama.1_Silent_p.H376H|TLE1_uc011lss.1_Silent_p.H303H	NM_005077	NP_005068	Q04724	TLE1_HUMAN	transducin-like enhancer protein 1	377	Pro/Ser-rich.				negative regulation of Wnt receptor signaling pathway|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway		transcription factor binding			ovary(1)|skin(1)	2						TCATGCCAGCGTGGGGGACCA	0.642													24	54					0	0	1	0	0		A	84226807	A	A	84226807	2	1	199	1	0	0	0	0	0	0	0	1	15963	1136	40	1		1	TLE1	9	84226807	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1893112	84226807	56986624	622	98014											
FLJ46321	389763	broad.mit.edu	37	chr9	84606168	84606168	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtggagtccagcctccaAcctgaagccagtttgtctct	9	10	10	12	0	1	2	0	1	1	1	4	3	3	3	5	1	3	1	5	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:84606168A>T	uc004amn.2	+	4	830	c.783A>T	c.(781-783)CAA>CAT	p.Q261H		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	261						integral to membrane					0						CCAGCCTCCAACCTGAAGCCA	0.507													6	366					0	0	1	0	0		T	84606168	T	T	84606168	3	4	199	1	0	0	0	0	1	0	0	0	5946	40	2	5	797	5	FLJ46321	9	84606168	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	379361	84606168	56607263	623	98015											
RASEF	158158	broad.mit.edu	37	chr9	85637259	85637259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagaaactcacgtctttccGtgtcttatgttctgcagcct	7	14	7	13	2	4	1	1	0	3	1	5	1	5	1	3	0	3	2	3	0	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:85637259G>A	uc004amo.1	-	3	922	c.661C>T	c.(661-663)CGG>TGG	p.R221W		NM_152573	NP_689786	Q8IZ41	RASEF_HUMAN	RAS and EF-hand domain containing	221	Potential.				protein transport|small GTPase mediated signal transduction	perinuclear region of cytoplasm	calcium ion binding|GTP binding			upper_aerodigestive_tract(1)|lung(1)|breast(1)	3						ACGTCTTTCCGTGTCTTATGT	0.303													24	104					0	0	1	0	0		A	85637259	A	A	85637259	3	1	199	1	0	0	0	0	1	0	0	0	13093	1144	40	1	1621	1	RASEF	9	85637259	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1031091	85637259	55576172	624	98016											
FAM75C1	441452	broad.mit.edu	37	chr9	90535982	90535982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggagtagcttgccctgCgtcgcagaataaagtgcaag	11	8	12	10	2	0	1	0	0	0	1	1	2	0	2	1	1	4	4	1	1	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:90535982C>T	uc010mqi.2	+	4	1189	c.1160C>T	c.(1159-1161)GCG>GTG	p.A387V	FAM75C1_uc004apq.3_Missense_Mutation_p.A370V	NM_001145124	NP_001138596			family with sequence similarity 75, member C1												0						GCTTGCCCTGCGTCGCAGAAT	0.512													11	176					0	0	1	0	0		T	90535982	T	T	90535982	3	4	199	1	0	0	0	0	1	0	0	0	5637	768	27	1	1174	1	FAM75C1	9	90535982	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4898723	90535982	50677449	625	98017											
FANCC	2176	broad.mit.edu	37	chr9	97933362	97933362	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtttagtttaacacctaccGcctttgagtgttaaatccat	10	16	6	9	1	0	1	0	1	0	0	1	1	1	1	4	0	2	3	4	0	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:97933362G>A	uc004avh.2	-	6	782	c.520C>T	c.(520-522)CGA>TGA	p.R174*	FANCC_uc004avi.3_Nonsense_Mutation_p.R174*|FANCC_uc010mrm.1_RNA|FANCC_uc011lul.1_RNA	NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C	174					protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				AACACCTACCGCCTTTGAGTG	0.353			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				14	42					0	0	1	0	0		A	97933362	A	A	97933362	4	1	199	1	0	0	0	0	0	1	0	0	5678	1101	38	1	1196	1	FANCC	9	97933362	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7397380	97933362	43280069	626	98018											
TBC1D2	55357	broad.mit.edu	37	chr9	100983199	100983199	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagactggtcaggggggtgCgtgaagtcctgggtgacctt	6	9	19	7	1	1	3	1	2	0	1	2	4	2	3	2	6	1	0	2	6	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:100983199C>T	uc011lvb.1	-	6	1470	c.1290G>A	c.(1288-1290)ACG>ACA	p.T430T	TBC1D2_uc004ayq.2_Silent_p.T430T|TBC1D2_uc004ayr.2_Silent_p.T212T|TBC1D2_uc004ayo.3_Silent_p.T430T	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	430	Interaction with RAC1.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		CAGGGGGGTGCGTGAAGTCCT	0.607													12	73					0	0	1	0	0		T	100983199	T	T	100983199	2	4	199	1	0	0	0	0	0	0	0	1	15633	755	27	1		1	TBC1D2	9	100983199	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3049837	100983199	40230232	627	98019											
TEX10	54881	broad.mit.edu	37	chr9	103070934	103070934	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccaaaaacacagccagcCgtgctgtcaggaattacagt	15	6	8	12	1	1	0	1	0	0	0	1	1	1	1	3	1	5	1	3	1	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:103070934C>T	uc004bas.2	-	13	2528	c.2313G>A	c.(2311-2313)ACG>ACA	p.T771T	TEX10_uc011lvf.1_Silent_p.T610T|TEX10_uc011lvg.1_Silent_p.T774T	NM_017746	NP_060216	Q9NXF1	TEX10_HUMAN	testis expressed 10 isoform 1	771						integral to membrane|MLL1 complex|nuclear membrane|nucleolus	binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)		OV - Ovarian serous cystadenocarcinoma(323;0.157)		CACAGCCAGCCGTGCTGTCAG	0.443													18	50					0	0	1	0	0		T	103070934	T	T	103070934	2	4	199	1	0	0	0	0	0	0	0	1	15797	639	23	1		1	TEX10	9	103070934	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2087735	103070934	38142497	628	98020											
ABCA1	19	broad.mit.edu	37	chr9	107555572	107555572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagataatggtgacacaaagCgattctcccctagtagacac	15	8	8	10	1	1	3	0	1	1	2	2	4	1	3	2	1	1	1	2	1	5	4	rs139363994	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:107555572C>T	uc004bcl.2	-	41	5829	c.5516G>A	c.(5515-5517)CGC>CAC	p.R1839H		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1839					Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TGACACAAAGCGATTCTCCCC	0.483													10	40					0	0	1	0	0		T	107555572	T	T	107555572	3	4	199	1	0	0	0	0	1	0	0	0	28	768	27	1	1309	1	ABCA1	9	107555572	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4484638	107555572	33657859	629	98021											
ABCA1	19	broad.mit.edu	37	chr9	107583747	107583747	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcttttcccaggatgtaggCggtgcccgaggtcgggggga	5	9	18	9	3	1	0	0	0	1	0	3	3	2	2	2	7	1	1	2	7	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:107583747C>T	uc004bcl.2	-	20	3182	c.2869G>A	c.(2869-2871)GCC>ACC	p.A957T		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	957	ABC transporter 1.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGGATGTAGGCGGTGCCCGAG	0.532													18	48					0	0	1	0	0		T	107583747	T	T	107583747	3	4	199	1	0	0	0	0	1	0	0	0	28	768	27	1	4040	1	ABCA1	9	107583747	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	28175	107583747	33629684	630	98022											
ZNF462	58499	broad.mit.edu	37	chr9	109689704	109689704	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggctccccccggccacccGcccccatacaacagctgaac	10	3	7	21	2	0	1	0	1	0	0	1	1	1	1	7	2	4	2	7	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:109689704G>A	uc004bcz.2	+	3	3800	c.3511G>A	c.(3511-3513)GCC>ACC	p.A1171T	ZNF462_uc010mto.2_Missense_Mutation_p.A1019T|ZNF462_uc004bda.2_Missense_Mutation_p.A1019T	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1171					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.A1171T(1)		ovary(5)	5						CCGGCCACCCGCCCCCATACA	0.557													49	133					0	0	1	0	0		A	109689704	A	A	109689704	3	1	199	1	0	0	0	0	1	0	0	0	17951	1087	38	1	3517	1	ZNF462	9	109689704	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2105957	109689704	31523727	631	98023											
C9orf6	54942	broad.mit.edu	37	chr9	111698719	111698719	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgggaaatttaagcgggTatgttcctgtaattctgtga	9	15	11	6	1	2	1	0	1	2	0	3	2	3	2	1	2	1	3	1	2	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:111698719T>C	uc004bdn.2	+	3	355	c.261_splice	c.e3+2	p.R87_splice	IKBKAP_uc004bdm.3_5'Flank|IKBKAP_uc011lwc.1_5'Flank|IKBKAP_uc010mtq.2_5'Flank|C9orf6_uc010mtr.2_Intron	NM_017832	NP_060302	Q9NX38	CI006_HUMAN	hypothetical protein LOC54942						glycine catabolic process	glycine cleavage complex				pancreas(1)	1		Myeloproliferative disorder(63;0.0511)		OV - Ovarian serous cystadenocarcinoma(323;9.58e-07)		TTTAAGCGGGTATGTTCCTGT	0.373													37	116					0	0	1	0	0		C	111698719	C	C	111698719	5	2	199	1	0	0	0	0	0	0	1	0	2491	1652	57	3	273	3	C9orf6	9	111698719	Splice_Site	SNP	T	TCGA-HF-7132-01A-11D-2053-08	2009015	111698719	29514712	632	98024											
UGCG	7357	broad.mit.edu	37	chr9	114691946	114691946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agattactttatggccaaagCgatagctgaccggtaagaca	14	9	10	8	2	0	3	0	1	0	2	0	4	0	3	2	2	3	2	2	2	5	5	rs62570269		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:114691946C>T	uc004bft.2	+	6	1015	c.725C>T	c.(724-726)GCG>GTG	p.A242V		NM_003358	NP_003349	Q16739	CEGT_HUMAN	ceramide glucosyltransferase	242	Lumenal (Potential).				epidermis development|glucosylceramide biosynthetic process	Golgi membrane|integral to membrane|membrane fraction	ceramide glucosyltransferase activity	p.A242A(1)		ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(323;0.0433)	Miglustat(DB00419)	ATGGCCAAAGCGATAGCTGAC	0.363													49	117					0	0	1	0	0		T	114691946	T	T	114691946	3	4	199	1	0	0	0	0	1	0	0	0	16965	768	27	1	747	1	UGCG	9	114691946	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2993227	114691946	26521485	633	98025											
SUSD1	64420	broad.mit.edu	37	chr9	114825301	114825301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtaaaaaattctacttccGggaggggaggctctgaaaac	13	8	11	9	2	2	1	0	1	2	0	3	3	3	3	2	4	2	2	2	4	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:114825301G>A	uc004bfu.2	-	13	1807	c.1766C>T	c.(1765-1767)CCG>CTG	p.P589L	SUSD1_uc010mui.2_Missense_Mutation_p.P589L|SUSD1_uc010muj.2_Missense_Mutation_p.P589L	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	589	Extracellular (Potential).					integral to membrane	calcium ion binding				0						TTCTACTTCCGGGAGGGGAGG	0.463													19	55					0	0	1	0	0		A	114825301	A	A	114825301	3	1	199	1	0	0	0	0	1	0	0	0	15432	1116	39	1	497	1	SUSD1	9	114825301	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	133355	114825301	26388130	634	98026											
TNC	3371	broad.mit.edu	37	chr9	117825395	117825395	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tggtcataggttccatctggCgtggtccagttcagtctgag	6	13	13	9	1	4	1	2	1	2	0	6	1	6	1	2	4	0	2	2	4	1	3	rs150370072		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:117825395C>T	uc004bjj.3	-	13	4196	c.3834G>A	c.(3832-3834)ACG>ACA	p.T1278T	TNC_uc010mvf.2_Silent_p.T1278T	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1278	Fibronectin type-III 8.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TTCCATCTGGCGTGGTCCAGT	0.537													12	37					0	0	1	0	0		T	117825395	T	T	117825395	2	4	199	1	0	0	0	0	0	0	0	1	16295	755	27	1		1	TNC	9	117825395	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3000094	117825395	23388036	635	98027											
DAB2IP	153090	broad.mit.edu	37	chr9	124544646	124544646	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggatgccgccaatgccCgcctcatgagtgccctgacc	6	8	11	16	3	1	2	1	2	0	0	1	3	1	3	6	1	3	1	6	1	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:124544646C>T	uc004bln.2	+	16	3424	c.3355C>T	c.(3355-3357)CGC>TGC	p.R1119C	DAB2IP_uc004blo.2_Missense_Mutation_p.R1023C|DAB2IP_uc004blp.2_Missense_Mutation_p.R552C	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	1147	Potential.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CGCCAATGCCCGCCTCATGAG	0.572													27	160					0	0	1	0	0		T	124544646	T	T	124544646	3	4	199	1	0	0	0	0	1	0	0	0	4222	652	23	1	3417	1	DAB2IP	9	124544646	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6719251	124544646	16668785	636	98028											
NDUFA8	4702	broad.mit.edu	37	chr9	124910470	124910470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaactttgcctgctgtttgCgacagtgacgaaataactgc	11	11	9	10	2	0	1	0	1	0	0	0	3	0	1	1	0	6	2	1	0	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:124910470C>T	uc004blv.2	-	3	444	c.302G>A	c.(301-303)CGC>CAC	p.R101H		NM_014222	NP_055037	P51970	NDUA8_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	101	CHCH 2.|C-X9-C motif 4.				mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1					NADH(DB00157)	CTGCTGTTTGCGACAGTGACG	0.483													31	99					0	0	1	0	0		T	124910470	T	T	124910470	3	4	199	1	0	0	0	0	1	0	0	0	10290	768	27	1	224	1	NDUFA8	9	124910470	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	365824	124910470	16302961	637	98029											
OR1K1	392392	broad.mit.edu	37	chr9	125562441	125562441	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagagggaatctcattcGttttattgggactgacaaca	11	13	9	8	1	2	2	2	1	1	1	4	4	2	4	0	2	1	1	0	2	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:125562441G>A	uc011lze.1	+	1	40	c.40G>A	c.(40-42)GTT>ATT	p.V14I		NM_080859	NP_543135	Q8NGR3	OR1K1_HUMAN	olfactory receptor, family 1, subfamily K,	14	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AATCTCATTCGTTTTATTGGG	0.522													12	35					0	0	1	0	0		A	125562441	A	A	125562441	3	1	199	1	0	0	0	0	1	0	0	0	10981	1145	40	1	42	1	OR1K1	9	125562441	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	651971	125562441	15650990	638	98030											
PPP6C	5537	broad.mit.edu	37	chr9	127911974	127911974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaggaaatatggcgttgtcGttctgggaggaataacacgt	13	10	13	5	3	1	0	0	0	1	0	2	3	1	3	0	4	1	2	0	4	5	4	rs144776498		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:127911974G>A	uc004bpg.3	-	7	1117	c.896C>T	c.(895-897)ACG>ATG	p.T299M	PPP6C_uc010mwv.2_Missense_Mutation_p.T336M|PPP6C_uc010mww.2_Missense_Mutation_p.T277M|PPP6C_uc011lzr.1_Missense_Mutation_p.T152M	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	299					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(1)|skin(1)	2						TGGCGTTGTCGTTCTGGGAGG	0.428													8	41					0	0	1	0	0		A	127911974	A	A	127911974	3	1	199	1	0	0	0	0	1	0	0	0	12429	1145	40	1	25	1	PPP6C	9	127911974	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2349533	127911974	13301457	639	98031											
ZBTB34	403341	broad.mit.edu	37	chr9	129642360	129642360	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccatgagcaaggagacCtattggtgagggagagccag	13	5	16	7	0	0	5	0	2	0	3	0	8	0	5	3	3	2	1	3	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:129642360C>T	uc004bqm.3	+	2	767	c.670C>T	c.(670-672)CTA>TTA	p.L224L		NM_001099270	NP_001092740	Q8NCN2	ZBT34_HUMAN	zinc finger and BTB domain containing 34	224					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCAAGGAGACCTATTGGTGAG	0.582													3	58					0	0	1	0	0		T	129642360	T	T	129642360	2	4	199	1	0	0	0	0	0	0	0	1	17562	680	24	4		4	ZBTB34	9	129642360	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1730386	129642360	11571071	640	98032											
TOR2A	27433	broad.mit.edu	37	chr9	130496636	130496636	+	Missense_Mutation	SNP	A	G	G	1	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	ggacgggagaaaagtggtgcAcgcgggggctgcggaggccg	8	3	22	8	5	0	1	0	0	0	1	0	4	0	3	1	7	2	2	1	7	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:130496636A>G	uc004brs.3	-	2	414	c.359T>C	c.(358-360)GTG>GCG	p.V120A	TOR2A_uc004brt.3_Missense_Mutation_p.V120A|TOR2A_uc004brw.3_Missense_Mutation_p.V120A|TOR2A_uc011maj.1_Intron|TOR2A_uc004bru.3_Intron|TOR2A_uc004brv.3_Intron|TOR2A_uc004brx.1_5'UTR	NM_001085347	NP_001078816	Q5JU69	TOR2A_HUMAN	torsin family 2, member A isoform a	120					chaperone mediated protein folding requiring cofactor	endoplasmic reticulum|extracellular region	ATP binding|nucleoside-triphosphatase activity				0						AAAGTGGTGCACGCGGGGGCT	0.647											OREG0019509	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	42					0	0	1	0	0		G	130496636	G	G	130496636	3	3	199	1	0	0	0	0	1	0	0	0	16401	159	6	3	791	3	TOR2A	9	130496636	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	854276	130496636	10716795	641	98033											
NAIF1	203245	broad.mit.edu	37	chr9	130829150	130829150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaccttgcgacggacctcGgtcttgaggtcagaccactt	8	9	11	13	3	2	2	1	1	1	1	3	4	2	3	3	3	2	1	3	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:130829150G>A	uc004bta.2	-	1	450	c.231C>T	c.(229-231)ACC>ACT	p.T77T	NAIF1_uc004bsz.2_RNA|SLC25A25_uc004btb.2_5'Flank	NM_197956	NP_931045	Q69YI7	NAIF1_HUMAN	nuclear apoptosis inducing factor 1	77					apoptosis|induction of apoptosis	nucleus					0						GACGGACCTCGGTCTTGAGGT	0.692													16	66					0	0	1	0	0		A	130829150	A	A	130829150	2	1	199	1	0	0	0	0	0	0	0	1	10164	1103	39	1		1	NAIF1	9	130829150	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	332514	130829150	10384281	642	98034											
SLC27A4	10999	broad.mit.edu	37	chr9	131117710	131117710	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatggacgagctgggctaccTgtacttccgagaccgcactg	8	8	13	12	3	0	1	0	0	0	1	1	5	1	2	3	2	3	4	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:131117710T>C	uc004but.2	+	11	1780	c.1496T>C	c.(1495-1497)CTG>CCG	p.L499P	SLC27A4_uc004buu.2_Missense_Mutation_p.L93P	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	499					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						CTGGGCTACCTGTACTTCCGA	0.642													15	30					0	0	1	0	0		C	131117710	C	C	131117710	3	2	199	1	0	0	0	0	1	0	0	0	14553	1580	55	3	1534	3	SLC27A4	9	131117710	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	288560	131117710	10095721	643	98035											
NUP188	23511	broad.mit.edu	37	chr9	131765224	131765224	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcctgaggccctggacttCgtgggtgtccaccaggagcg	5	8	15	13	2	0	1	0	1	0	0	2	3	1	3	4	4	2	0	4	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:131765224C>T	uc004bws.1	+	37	4288	c.4266C>T	c.(4264-4266)TTC>TTT	p.F1422F	NUP188_uc004bwu.2_Silent_p.F765F	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1422					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CCCTGGACTTCGTGGGTGTCC	0.592													7	46					0	0	1	0	0		T	131765224	T	T	131765224	2	4	199	1	0	0	0	0	0	0	0	1	10777	883	31	1		1	NUP188	9	131765224	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	647514	131765224	9448207	644	98036											
NUP188	23511	broad.mit.edu	37	chr9	131768861	131768861	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actggtgtcctcccctcgccGcagggcaagtccacctctct	5	9	9	18	2	1	0	0	0	1	0	6	0	4	0	6	2	0	2	6	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:131768861G>A	uc004bws.1	+	44	5176	c.5154G>A	c.(5152-5154)CCG>CCA	p.P1718P		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1718					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						TCCCCTCGCCGCAGGGCAAGT	0.612											OREG0019528	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	68					0	0	1	0	0		A	131768861	A	A	131768861	2	1	199	1	0	0	0	0	0	0	0	1	10777	1074	38	1		1	NUP188	9	131768861	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3637	131768861	9444570	645	98037											
LAMC3	10319	broad.mit.edu	37	chr9	133942350	133942350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccctctacacacagggcGgcgctgtgaggtctgtgatg	6	9	14	12	2	2	2	0	2	2	0	3	2	3	2	1	3	1	2	1	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:133942350G>A	uc004caa.1	+	14	2449	c.2351G>A	c.(2350-2352)CGG>CAG	p.R784Q		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	784	Laminin EGF-like 7.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CACACAGGGCGGCGCTGTGAG	0.642													4	76					0	0	1	0	0		A	133942350	A	A	133942350	3	1	199	1	0	0	0	0	1	0	0	0	8632	1116	39	1	2405	1	LAMC3	9	133942350	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2173489	133942350	7271081	646	98038											
RAPGEF1	2889	broad.mit.edu	37	chr9	134455666	134455666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacgcctgctggaagcagcGcatgctgtcgaggatgttga	8	9	14	10	3	1	1	1	1	0	0	2	4	1	3	1	2	4	5	1	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:134455666G>A	uc004cbc.2	-	23	3197	c.3067C>T	c.(3067-3069)CGC>TGC	p.R1023C	RAPGEF1_uc004cbb.2_Missense_Mutation_p.R1041C	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	1023	Ras-GEF.				activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		TGGAAGCAGCGCATGCTGTCG	0.632													11	44					0	0	1	0	0		A	134455666	A	A	134455666	3	1	199	1	0	0	0	0	1	0	0	0	13068	1087	38	1	174	1	RAPGEF1	9	134455666	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	513316	134455666	6757765	647	98039											
CEL	1056	broad.mit.edu	37	chr9	135939797	135939797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtctccctcgcagctgggcGccgtgtacacagaaggtggg	6	8	15	12	3	1	1	0	0	1	1	3	1	1	1	2	3	2	3	2	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:135939797G>A	uc010naa.1	+	2	98	c.82G>A	c.(82-84)GCC>ACC	p.A28T		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	25	Heparin-binding.				cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		GCAGCTGGGCGCCGTGTACAC	0.652													7	31					0	0	1	0	0		A	135939797	A	A	135939797	3	1	199	1	0	0	0	0	1	0	0	0	3212	1087	38	1	88	1	CEL	9	135939797	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1484131	135939797	5273634	648	98040											
BRD3	8019	broad.mit.edu	37	chr9	136899859	136899859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgctgctcagctgccCgctgacatcctgcagacgct	5	10	10	16	2	1	2	1	1	0	1	2	2	2	2	2	0	6	7	2	0	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:136899859C>T	uc004cew.2	-	11	2217	c.2029G>A	c.(2029-2031)GGG>AGG	p.G677R		NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	677	Potential.|Ser-rich.					nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		CTCAGCTGCCCGCTGACATCC	0.617			T	NUT|C15orf55	lethal midline carcinoma of young people								32	66					0	0	1	0	0		T	136899859	T	T	136899859	3	4	199	1	0	0	0	0	1	0	0	0	1506	652	23	1	159	1	BRD3	9	136899859	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	960062	136899859	4313572	649	98041											
CAMSAP1	157922	broad.mit.edu	37	chr9	138713788	138713788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccttgccgagcttcaggcGctgccttgccgacagcgcct	5	8	12	16	4	1	0	1	0	0	0	1	2	1	0	5	1	6	2	5	1	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:138713788G>A	uc004cgr.3	-	11	2719	c.2719C>T	c.(2719-2721)CGC>TGC	p.R907C	CAMSAP1_uc004cgq.3_Missense_Mutation_p.R797C|CAMSAP1_uc010nbg.2_Missense_Mutation_p.R629C	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	907						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		AGCTTCAGGCGCTGCCTTGCC	0.622													4	83					0	0	1	0	0		A	138713788	A	A	138713788	3	1	199	1	0	0	0	0	1	0	0	0	2614	1087	38	1	2117	1	CAMSAP1	9	138713788	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1813929	138713788	2499643	650	98042											
UBAC1	10422	broad.mit.edu	37	chr9	138825253	138825253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaacaacgccacctacgtgCgatttagtgtctggaagatt	11	10	11	9	3	1	1	0	0	1	1	1	4	1	3	2	2	4	0	2	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:138825253C>T	uc004cgt.2	-	10	1429	c.1211G>A	c.(1210-1212)CGC>CAC	p.R404H	UBAC1_uc004cgs.1_Intron|UBAC1_uc004cgu.2_RNA	NM_016172	NP_057256	Q9BSL1	UBAC1_HUMAN	ubiquitin associated domain containing 1	404						Golgi apparatus|plasma membrane	protein binding			skin(2)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.1e-06)|Epithelial(140;7.79e-06)		CACCTACGTGCGATTTAGTGT	0.572													27	68					0	0	1	0	0		T	138825253	T	T	138825253	3	4	199	1	0	0	0	0	1	0	0	0	16860	768	27	1	10	1	UBAC1	9	138825253	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	111465	138825253	2388178	651	98043											
SEC16A	9919	broad.mit.edu	37	chr9	139341370	139341370	+	Silent	SNP	A	C	C	1	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	gctgcaggcccttccctgccAgtcccgtctggaagctgtgg	4	9	13	15	1	1	0	0	0	1	0	3	1	3	1	4	3	3	3	4	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:139341370A>C	uc004chx.2	-	28	7038	c.6729T>G	c.(6727-6729)ACT>ACG	p.T2243T	SEC16A_uc004chp.2_RNA|SEC16A_uc004chq.2_Silent_p.T106T|SEC16A_uc011mea.1_Silent_p.T103T|SEC16A_uc004chr.2_Silent_p.T271T|SEC16A_uc004chs.2_Silent_p.T83T|SEC16A_uc004cht.2_Silent_p.T293T|SEC16A_uc004chu.2_Silent_p.T450T|SEC16A_uc004chv.3_Silent_p.T1633T|SEC16A_uc004chw.2_Silent_p.T2243T|SEC16A_uc010nbn.2_Silent_p.T2265T	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	2065	Required for interaction with SEC23A.|Pro-rich.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		CTTCCCTGCCAGTCCCGTCTG	0.627													29	98					0	0	1	0	0		C	139341370	C	C	139341370	2	2	199	1	0	0	0	0	0	0	0	1	14011	175	7	5		5	SEC16A	9	139341370	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	516117	139341370	1872061	652	98044											
ABCA2	20	broad.mit.edu	37	chr9	139903997	139903997	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtgggggcgccctcacctgtGtgatgtcagcaccactgaac	7	8	13	13	1	2	2	2	2	0	0	2	2	2	2	3	2	2	1	3	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:139903997G>A	uc011mem.1	-	43	6875	c.6727C>T	c.(6727-6729)CAC>TAC	p.H2243Y	ABCA2_uc011mel.1_Missense_Mutation_p.H2244Y|ABCA2_uc004ckl.1_Missense_Mutation_p.H2174Y|ABCA2_uc004ckm.1_Missense_Mutation_p.H2274Y	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	2243	ABC transporter 2.				cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CCTCACCTGTGTGATGTCAGC	0.652													29	103					0	0	1	0	0		A	139903997	A	A	139903997	3	1	199	1	0	0	0	0	1	0	0	0	32	1377	48	4	604	4	ABCA2	9	139903997	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	562627	139903997	1309434	653	98045											
COBRA1	25920	broad.mit.edu	37	chr9	140161507	140161507	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggagaaagccccagtctcaTatccaaacacacttcccgaa	15	6	6	14	1	1	1	1	0	1	1	4	3	3	1	4	1	2	0	4	1	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:140161507T>C	uc004cmm.3	+	9	1410	c.1207T>C	c.(1207-1209)TAT>CAT	p.Y403H		NM_015456	NP_056271	Q8WX92	NELFB_HUMAN	cofactor of BRCA1	403					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleoplasm	protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.42e-05)|Epithelial(140;0.000766)		CCCAGTCTCATATCCAAACAC	0.567													33	51					0	0	1	0	0		C	140161507	C	C	140161507	3	2	199	1	0	0	0	0	1	0	0	0	3658	1406	49	3	1241	3	COBRA1	9	140161507	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	257510	140161507	1051924	654	98046											
ENTPD8	377841	broad.mit.edu	37	chr9	140332630	140332630	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accttgatgtctgtgggcagGagcacgctggtggcctccac	6	9	14	12	1	1	1	0	1	1	0	2	2	2	2	3	4	1	3	3	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:140332630G>T	uc004cmw.2	-	2	292	c.108C>A	c.(106-108)CTC>CTA	p.L36L	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Silent_p.L36L|ENTPD8_uc004cmy.2_Silent_p.L36L	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	36	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		CTGTGGGCAGGAGCACGCTGG	0.677													5	12					0.014758	0.014983	1	1	0		T	140332630	T	T	140332630	2	4	199	1	0	0	0	0	0	0	0	1	5153	1161	41	5		5	ENTPD8	9	140332630	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	171123	140332630	880801	655	98047											
PNPLA7	375775	broad.mit.edu	37	chr9	140417285	140417285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatggccgcgcggacggagaCcgttttgtaaggtgcagcat	8	8	16	9	5	0	1	0	0	0	1	0	4	0	2	2	4	2	4	2	4	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:140417285C>T	uc004cnf.2	-	8	1034	c.697G>A	c.(697-699)GTC>ATC	p.V233I	PNPLA7_uc011mfa.1_5'UTR|PNPLA7_uc010ncj.1_Missense_Mutation_p.V258I	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	233	cNMP 1.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		CGGACGGAGACCGTTTTGTAA	0.592													40	113					0	0	1	0	0		T	140417285	T	T	140417285	3	4	199	1	0	0	0	0	1	0	0	0	12189	507	18	4	3364	4	PNPLA7	9	140417285	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	84655	140417285	796146	656	98048											
CACNA1B	774	broad.mit.edu	37	chr9	140777293	140777293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacaagggctcttacctgcGgaacggctggaacgtcatgg	9	7	13	12	3	2	0	1	0	1	0	2	2	2	2	2	5	4	2	2	5	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr9:140777293G>A	uc004cog.2	+	3	633	c.488G>A	c.(487-489)CGG>CAG	p.R163Q	uc004cof.1_RNA	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	163	Cytoplasmic (Potential).|I.				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	TCTTACCTGCGGAACGGCTGG	0.582													23	198					0	0	1	0	0		A	140777293	A	A	140777293	3	1	199	1	0	0	0	0	1	0	0	0	2542	1116	39	1	498	1	CACNA1B	9	140777293	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	360008	140777293	436138	657	98049											
ZMYND11	10771	broad.mit.edu	37	chr10	298288	298288	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccccgatttcttacctgcagTgctacaactgtgaggaggag	9	10	11	11	1	1	1	0	1	1	0	1	4	1	3	3	2	5	2	3	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:298288T>C	uc010pzt.1	+	15	2115	c.1687T>C	c.(1687-1689)TGC>CGC	p.C563R	ZMYND11_uc010pzu.1_Missense_Mutation_p.C563R|ZMYND11_uc010pzv.1_Missense_Mutation_p.C508R|ZMYND11_uc010pzw.1_Missense_Mutation_p.C478R|ZMYND11_uc001ifm.2_Missense_Mutation_p.C509R|ZMYND11_uc009xhg.2_Missense_Mutation_p.C546R|ZMYND11_uc009xhh.2_Missense_Mutation_p.C437R|ZMYND11_uc010pzy.1_Missense_Mutation_p.C415R	NM_006624	NP_006615	Q15326	ZMY11_HUMAN	zinc finger, MYND domain containing 11 isoform	523	MYND-type.|Interaction with human adenovirus E1A.				cell cycle|cell proliferation|interspecies interaction between organisms|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(4;1.32e-05)|all_lung(4;3.67e-05)|Lung NSC(4;0.000301)|all_epithelial(10;0.000416)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.132)	Epithelial(11;0.00289)|all cancers(11;0.0108)|Lung(33;0.0689)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		TTACCTGCAGTGCTACAACTG	0.512													17	278					0	0	1	0	0		C	298288	C	C	298288	3	2	199	1	0	0	0	0	1	0	0	0	17731	1710	59	3	1762	3	ZMYND11	10	298288	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08		298288	135236459	658	98050											
TUBAL3	79861	broad.mit.edu	37	chr10	5443015	5443015	+	Silent	SNP	G	A	A	0	0	1	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	caggcgtccccaatctggatGccagcttgaccgatgtggat	8	9	12	12	2	1	1	0	1	1	0	2	4	2	3	4	3	2	1	4	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:5443015G>A	uc001ihy.2	-	2	79	c.39C>T	c.(37-39)GGC>GGT	p.G13G	TUBAL3_uc001ihz.2_Intron	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	13					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						CAATCTGGATGCCAGCTTGAC	0.463													5	86					0	0	1	0	0		A	5443015	A	A	5443015	2	1	199	1	0	0	0	0	0	0	0	1	16777	1306	46	2		2	TUBAL3	10	5443015	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5144727	5443015	130091732	659	98051											
FAM171A1	221061	broad.mit.edu	37	chr10	15255359	15255359	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggttcattcatatctacgCcagagtccaaactggcatca	11	12	7	11	1	4	1	3	0	1	1	5	1	5	1	2	2	2	2	2	2	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:15255359C>A	uc001iob.2	-	8	2235	c.2228G>T	c.(2227-2229)GGC>GTC	p.G743V		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	743	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						CATATCTACGCCAGAGTCCAA	0.507													21	83					1.33986e-20	1.50299e-20	1	1	0		A	15255359	A	A	15255359	3	1	199	1	0	0	0	0	1	0	0	0	5501	739	26	5	448	5	FAM171A1	10	15255359	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9812344	15255359	120279388	660	98052											
ARHGAP21	57584	broad.mit.edu	37	chr10	24909067	24909067	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtttttagatctggtggaAtttttttaaactgcgacaca	11	17	8	5	1	1	1	0	0	1	1	1	3	1	2	0	2	2	1	0	2	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:24909067A>T	uc001isb.2	-	9	2244	c.1757T>A	c.(1756-1758)ATT>AAT	p.I586N	ARHGAP21_uc010qdb.1_RNA|ARHGAP21_uc009xkl.1_Missense_Mutation_p.I586N|ARHGAP21_uc010qdc.1_Missense_Mutation_p.I421N|ARHGAP21_uc001isc.1_Missense_Mutation_p.I576N	NM_020824	NP_065875	Q5T5U3	RHG21_HUMAN	Rho GTPase activating protein 21	585					signal transduction	cell junction|cytoplasmic vesicle membrane|cytoskeleton|Golgi membrane	GTPase activator activity|protein binding			ovary(7)|pancreas(1)	8						ATCTGGTGGAATTTTTTTAAA	0.423													25	97					0	0	1	0	0		T	24909067	T	T	24909067	3	4	199	1	0	0	0	0	1	0	0	0	871	101	4	5	4191	5	ARHGAP21	10	24909067	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	9653708	24909067	110625680	661	98053											
WAC	51322	broad.mit.edu	37	chr10	28905168	28905168	+	Silent	SNP	A	G	G	1	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	agtaatgcatcaaatgcaacAgttgtaccacagaattcttc	15	11	6	9	0	2	1	1	0	1	1	3	1	2	1	1	0	4	5	1	0	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:28905168A>G	uc001iuf.2	+	12	1708	c.1623A>G	c.(1621-1623)ACA>ACG	p.T541T	WAC_uc001iud.2_Silent_p.T496T|WAC_uc001iue.2_Silent_p.T231T|WAC_uc001iug.2_Silent_p.T438T|WAC_uc001iuh.2_Silent_p.T492T	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	541					cell cycle checkpoint|histone H2B conserved C-terminal lysine ubiquitination|histone monoubiquitination|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nuclear speck	chromatin binding|RNA polymerase II core binding			large_intestine(1)|ovary(1)	2						CAAATGCAACAGTTGTACCAC	0.408													26	82					0	0	1	0	0		G	28905168	G	G	28905168	2	3	199	1	0	0	0	0	0	0	0	1	17273	175	7	3		3	WAC	10	28905168	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3996101	28905168	106629579	662	98054											
KIAA1462	57608	broad.mit.edu	37	chr10	30316027	30316027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcaaacttccgagggaccGcttcacttggtttcacagag	9	11	10	11	2	3	1	3	0	0	1	4	3	4	2	2	2	1	2	2	2	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:30316027G>A	uc001iux.2	-	2	3109	c.3050C>T	c.(3049-3051)GCG>GTG	p.A1017V	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.A879V|KIAA1462_uc009xle.1_Missense_Mutation_p.A1017V	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1017										ovary(4)	4						CCGAGGGACCGCTTCACTTGG	0.572													20	93					0	0	1	0	0		A	30316027	A	A	30316027	3	1	199	1	0	0	0	0	1	0	0	0	8250	1087	38	1	1037	1	KIAA1462	10	30316027	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1410859	30316027	105218720	663	98055											
RBP3	5949	broad.mit.edu	37	chr10	48388083	48388083	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgggcaccttggcacgcagaGccactatgtcctgggctatg	7	9	13	12	1	0	1	0	0	0	1	1	1	1	1	3	3	1	4	3	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:48388083G>A	uc001jez.2	-	1	2909	c.2795C>T	c.(2794-2796)GCT>GTT	p.A932V		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	932	4 X approximate tandem repeats.|4.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GGCACGCAGAGCCACTATGTC	0.627													11	47					0	0	1	0	0		A	48388083	A	A	48388083	3	1	199	1	0	0	0	0	1	0	0	0	13182	971	34	2	964	2	RBP3	10	48388083	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	18072056	48388083	87146664	664	98056											
RBP3	5949	broad.mit.edu	37	chr10	48389980	48389980	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccacacagggcagcacccCgctgccctcccacgtctggc	6	4	9	22	2	1	0	0	0	1	0	2	0	2	0	6	2	2	3	6	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:48389980C>T	uc001jez.2	-	1	1012	c.898G>A	c.(898-900)GGG>AGG	p.G300R		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	300	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GGCAGCACCCCGCTGCCCTCC	0.677													10	11					0	0	1	0	0		T	48389980	T	T	48389980	3	4	199	1	0	0	0	0	1	0	0	0	13182	652	23	1	2861	1	RBP3	10	48389980	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1897	48389980	87144767	665	98057											
OGDHL	55753	broad.mit.edu	37	chr10	50945994	50945994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgggacggagactcaccGgcttgcggaagggcagcagg	8	4	17	12	3	1	1	1	0	0	1	1	4	1	3	2	6	2	3	2	6	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:50945994G>A	uc001jie.2	-	19	2658	c.2516C>T	c.(2515-2517)CCG>CTG	p.P839L	OGDHL_uc009xog.2_Missense_Mutation_p.P866L|OGDHL_uc010qgt.1_Missense_Mutation_p.P782L|OGDHL_uc010qgu.1_Missense_Mutation_p.P630L	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	839					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GAGACTCACCGGCTTGCGGAA	0.632													35	92					0	0	1	0	0		A	50945994	A	A	50945994	3	1	199	1	0	0	0	0	1	0	0	0	10859	1130	39	1	536	1	OGDHL	10	50945994	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2556014	50945994	84588753	666	98058											
AGAP7	653268	broad.mit.edu	37	chr10	51465266	51465266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtggcttcaaagtgccacGtttggccagtggcagacaca	9	9	12	11	2	1	1	1	0	0	1	2	1	1	1	2	3	1	3	2	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:51465266G>A	uc001jio.2	-	7	1316	c.1190C>T	c.(1189-1191)ACG>ATG	p.T397M	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	397	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						AAAGTGCCACGTTTGGCCAGT	0.522													19	94					0	0	1	0	0		A	51465266	A	A	51465266	3	1	199	1	0	0	0	0	1	0	0	0	373	1145	40	1	805	1	AGAP7	10	51465266	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	519272	51465266	84069481	667	98059											
SIRT1	23411	broad.mit.edu	37	chr10	69647248	69647248	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgatgaggaggatagagcCtcacatgcaagctctagtga	13	8	13	7	0	2	4	1	3	1	1	2	6	2	6	1	2	3	2	1	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:69647248C>A	uc001jnd.2	+	2	557	c.504C>A	c.(502-504)GCC>GCA	p.A168A	SIRT1_uc010qis.1_5'UTR|SIRT1_uc009xpp.2_5'UTR	NM_012238	NP_036370	Q96EB6	SIRT1_HUMAN	sirtuin 1 isoform a	168	Interaction with HIST1H1E.				apoptosis|cell aging|cellular response to hydrogen peroxide|cellular response to starvation|chromatin silencing at rDNA|DNA repair|DNA replication|establishment of chromatin silencing|histone H3 deacetylation|interspecies interaction between organisms|maintenance of chromatin silencing|muscle organ development|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of fat cell differentiation|negative regulation of helicase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine acetylation|peptidyl-lysine deacetylation|positive regulation of anti-apoptosis|positive regulation of chromatin silencing|positive regulation of DNA repair|regulation of apoptosis|regulation of cell proliferation|regulation of endodeoxyribonuclease activity|regulation of protein import into nucleus, translocation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|rRNA processing|transcription, DNA-dependent|triglyceride mobilization|white fat cell differentiation	chromatin silencing complex|cytoplasm|nuclear euchromatin|nuclear heterochromatin|nuclear inner membrane|nucleolus|PML body|rDNA heterochromatin	bHLH transcription factor binding|histone binding|HLH domain binding|identical protein binding|mitogen-activated protein kinase binding|NAD+ binding|NAD-dependent histone deacetylase activity (H3-K9 specific)|p53 binding|protein C-terminus binding|transcription corepressor activity|zinc ion binding				0						AGGATAGAGCCTCACATGCAA	0.398													11	57					0.00185496	0.00190169	1	1	0		A	69647248	A	A	69647248	2	1	199	1	0	0	0	0	0	0	0	1	14362	668	24	5		5	SIRT1	10	69647248	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	18181982	69647248	65887499	668	98060											
HERC4	26091	broad.mit.edu	37	chr10	69692445	69692445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcagaaggacttttcctccaCagaccttatgaaagcccgca	12	8	8	13	1	0	3	0	1	0	2	2	4	2	4	4	1	1	2	4	1	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:69692445C>T	uc001jng.3	-	24	3082	c.2771G>A	c.(2770-2772)TGT>TAT	p.C924Y	HERC4_uc009xpq.2_Missense_Mutation_p.C456Y|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.C916Y|HERC4_uc009xpr.2_Missense_Mutation_p.C846Y|HERC4_uc001jni.3_Missense_Mutation_p.C660Y	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	924	HECT.				cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						TTTTCCTCCACAGACCTTATG	0.388													13	96					0	0	1	0	0		T	69692445	T	T	69692445	3	4	199	1	0	0	0	0	1	0	0	0	7076	478	17	4	414	4	HERC4	10	69692445	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	45197	69692445	65842302	669	98061											
MYPN	84665	broad.mit.edu	37	chr10	69934351	69934351	+	Silent	SNP	G	A	A	0	0	1	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	gctttcctcagctctgttctGccttctctccctgccatccc	2	15	5	19	0	4	0	1	0	3	0	8	0	7	0	5	0	3	3	5	0	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:69934351G>A	uc001jnm.3	+	12	2687	c.2502G>A	c.(2500-2502)CTG>CTA	p.L834L	MYPN_uc001jnn.3_Silent_p.L559L|MYPN_uc001jno.3_Silent_p.L834L|MYPN_uc009xpt.2_Silent_p.L834L|MYPN_uc010qit.1_Silent_p.L540L|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	834	Pro-rich.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						GCTCTGTTCTGCCTTCTCTCC	0.537													4	84					0	0	1	0	0		A	69934351	A	A	69934351	2	1	199	1	0	0	0	0	0	0	0	1	10116	1306	46	2		2	MYPN	10	69934351	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	241906	69934351	65600396	670	98062											
STOX1	219736	broad.mit.edu	37	chr10	70645650	70645650	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aattattgagaaaaggatttGtccaggatgcagagactaca	16	10	10	5	0	0	2	0	1	0	2	1	6	1	4	1	2	2	1	1	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:70645650G>A	uc001jos.2	+	3	2185	c.2098G>A	c.(2098-2100)GTC>ATC	p.V700I	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Missense_Mutation_p.V590I	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	700						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						AAAAGGATTTGTCCAGGATGC	0.423													25	85					0	0	1	0	0		A	70645650	A	A	70645650	3	1	199	1	0	0	0	0	1	0	0	0	15344	1377	48	4	2108	4	STOX1	10	70645650	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	711299	70645650	64889097	671	98063											
CDH23	64072	broad.mit.edu	37	chr10	73405682	73405682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggggaaggcggacattcGtattcgggtggccatcccac	8	7	14	12	3	0	0	0	0	0	0	3	2	1	2	3	6	0	1	3	6	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:73405682G>A	uc001jrx.3	+	12	1612	c.1235G>A	c.(1234-1236)CGT>CAT	p.R412H	CDH23_uc001jrw.3_Missense_Mutation_p.R412H|CDH23_uc001jry.2_Missense_Mutation_p.R28H|CDH23_uc001jrz.2_Missense_Mutation_p.R28H	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	412	Cadherin 4.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GCGGACATTCGTATTCGGGTG	0.587													15	50					0	0	1	0	0		A	73405682	A	A	73405682	3	1	199	1	0	0	0	0	1	0	0	0	3111	1145	40	1	1364	1	CDH23	10	73405682	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2760032	73405682	62129065	672	98064											
DLG5	9231	broad.mit.edu	37	chr10	79576336	79576336	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccgctccccgagggacGcggggttgacagcgattctg	5	9	14	13	5	2	1	0	1	2	0	4	4	3	2	3	3	1	2	3	3	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:79576336G>A	uc001jzk.2	-	20	4068	c.3998C>T	c.(3997-3999)GCG>GTG	p.A1333V	DLG5_uc001jzi.2_Missense_Mutation_p.A88V|DLG5_uc001jzj.2_Missense_Mutation_p.A748V|DLG5_uc009xru.1_RNA|DLG5_uc001jzl.3_Missense_Mutation_p.A937V	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1333					cell-cell adhesion|intracellular signal transduction|negative regulation of cell proliferation|regulation of apoptosis	cell junction|cytoplasm	beta-catenin binding|cytoskeletal protein binding|receptor signaling complex scaffold activity			ovary(5)|breast(3)	8	all_cancers(46;0.0316)|all_epithelial(25;0.00147)|Breast(12;0.0015)|Prostate(51;0.0146)		Epithelial(14;0.00105)|OV - Ovarian serous cystadenocarcinoma(4;0.00151)|all cancers(16;0.00446)			CCCGAGGGACGCGGGGTTGAC	0.627													12	98					0	0	1	0	0		A	79576336	A	A	79576336	3	1	199	1	0	0	0	0	1	0	0	0	4564	1087	38	1	1813	1	DLG5	10	79576336	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6170654	79576336	55958411	673	98065											
NRG3	10718	broad.mit.edu	37	chr10	83635280	83635280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgactgcatcgtgtggaacCggcagcagacgtggctgtgc	7	7	16	11	4	0	1	0	0	0	1	1	3	0	2	1	3	4	4	1	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:83635280C>T	uc001kco.2	+	1	211	c.184C>T	c.(184-186)CGG>TGG	p.R62W	NRG3_uc010qlz.1_Missense_Mutation_p.R62W|NRG3_uc001kcp.2_5'Flank|NRG3_uc001kcq.2_5'Flank	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	62	Extracellular (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		CGTGTGGAACCGGCAGCAGAC	0.493													3	13					0	0	1	0	0		T	83635280	T	T	83635280	3	4	199	1	0	0	0	0	1	0	0	0	10668	643	23	1	186	1	NRG3	10	83635280	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4058944	83635280	51899467	674	98066											
GRID1	2894	broad.mit.edu	37	chr10	87484278	87484278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaatgcaggcccacacagcGaaatcaaatggagcaaagag	17	3	11	10	1	1	1	1	0	0	1	1	3	1	2	1	2	3	3	1	2	4	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:87484278G>A	uc001kdl.1	-	11	1790	c.1689C>T	c.(1687-1689)TTC>TTT	p.F563F	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Silent_p.F134F	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	563	Helical; (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CCCACACAGCGAAATCAAATG	0.507										Multiple Myeloma(13;0.14)			17	60					0	0	1	0	0		A	87484278	A	A	87484278	2	1	199	1	0	0	0	0	0	0	0	1	6787	1049	37	1		1	GRID1	10	87484278	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3848998	87484278	48050469	675	98067											
MMRN2	79812	broad.mit.edu	37	chr10	88705369	88705369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcggacacggctgctgcGagtggatgaggaatttctct	7	10	14	10	3	1	1	0	1	1	0	2	5	1	4	1	4	3	2	1	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:88705369G>A	uc001kea.2	-	2	369	c.242C>T	c.(241-243)TCG>TTG	p.S81L	MMRN2_uc010qmn.1_5'UTR|MMRN2_uc009xtb.2_Intron	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	81	EMI.					extracellular space				large_intestine(1)	1						CGGCTGCTGCGAGTGGATGAG	0.562													4	14					0	0	1	0	0		A	88705369	A	A	88705369	3	1	199	1	0	0	0	0	1	0	0	0	9689	1059	37	1	2631	1	MMRN2	10	88705369	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1221091	88705369	46829378	676	98068											
FAM22A	728118	broad.mit.edu	37	chr10	88985930	88985930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggaaactgccagacagcgGtggtcagtgcccagcctgag	9	5	15	12	2	1	2	1	1	0	1	1	3	1	3	3	3	5	0	3	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:88985930G>A	uc001kek.2	+	1	726	c.343G>A	c.(343-345)GTG>ATG	p.V115M	LOC728190_uc009xtc.2_Intron|LOC728190_uc009xtd.2_Intron	NM_001099338	NP_001092808	Q8IVF1	FA22A_HUMAN	hypothetical protein LOC728118	115											0						CCAGACAGCGGTGGTCAGTGC	0.532													19	39					0	0	1	0	0		A	88985930	A	A	88985930	3	1	199	1	0	0	0	0	1	0	0	0	5554	1261	44	4	345	4	FAM22A	10	88985930	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	280561	88985930	46548817	677	98069											
LIPF	8513	broad.mit.edu	37	chr10	90428385	90428385	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactggatttccaacctgccGaacaacagccttgccttcat	11	10	6	14	1	1	0	1	0	0	0	2	2	2	1	5	1	7	0	5	1	4	3	rs140420172		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:90428385G>A	uc001kfg.1	+	4	460	c.294G>A	c.(292-294)CCG>CCA	p.P98P	LIPF_uc009xtk.2_Silent_p.P98P|LIPF_uc001kfh.1_Intron|LIPF_uc010qmt.1_Silent_p.P108P|LIPF_uc010qmu.1_Intron	NM_004190	NP_004181	P07098	LIPG_HUMAN	lipase, gastric precursor	98					lipid catabolic process|triglyceride metabolic process	extracellular region	lipid binding|triglyceride lipase activity				0		Colorectal(252;0.0161)		Colorectal(12;3.91e-05)|COAD - Colon adenocarcinoma(12;5.43e-05)		CCAACCTGCCGAACAACAGCC	0.453													10	43					0	0	1	0	0		A	90428385	A	A	90428385	2	1	199	1	0	0	0	0	0	0	0	1	8839	1045	37	1		1	LIPF	10	90428385	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1442455	90428385	45106362	678	98070											
BTAF1	9044	broad.mit.edu	37	chr10	93784688	93784688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatttgagattagatggcaGcatacctcctggtcagaggc	10	12	11	8	0	1	3	1	1	0	3	2	4	2	3	2	3	2	2	2	3	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:93784688G>A	uc001khr.2	+	35	5137	c.5039G>A	c.(5038-5040)AGC>AAC	p.S1680N		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1680	Helicase C-terminal.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				TTAGATGGCAGCATACCTCCT	0.388													28	130					0	0	1	0	0		A	93784688	A	A	93784688	3	1	199	1	0	0	0	0	1	0	0	0	1539	971	34	2	5177	2	BTAF1	10	93784688	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3356303	93784688	41750059	679	98071											
CYP26A1	1592	broad.mit.edu	37	chr10	94834191	94834191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcttgctcggagagcacCggctggtgtcggtccactgg	5	9	15	12	3	1	1	0	0	1	1	4	2	2	1	2	5	2	4	2	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:94834191C>T	uc001kil.2	+	2	361	c.316C>T	c.(316-318)CGG>TGG	p.R106W	CYP26A1_uc001kik.1_Missense_Mutation_p.R37W|CYP26A1_uc001kim.1_Silent_p.T10T	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	106					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				CGGAGAGCACCGGCTGGTGTC	0.622													60	193					0	0	1	0	0		T	94834191	T	T	94834191	3	4	199	1	0	0	0	0	1	0	0	0	4158	643	23	1	322	1	CYP26A1	10	94834191	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1049503	94834191	40700556	680	98072											
SLIT1	6585	broad.mit.edu	37	chr10	98803215	98803215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagaggagccggacgttgcGcaggcccgtgaagctgtcgt	7	6	17	11	6	0	2	0	1	0	1	1	5	0	4	2	3	3	3	2	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:98803215G>A	uc001kmw.2	-	19	2161	c.1909C>T	c.(1909-1911)CGC>TGC	p.R637C	SLIT1_uc009xvh.1_Missense_Mutation_p.R647C	NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	637					axon extension involved in axon guidance|forebrain morphogenesis|motor axon guidance|negative chemotaxis|negative regulation of synaptogenesis	cytoplasm|extracellular space	calcium ion binding|Roundabout binding			ovary(4)	4		Colorectal(252;0.162)		Epithelial(162;2.02e-08)|all cancers(201;1.5e-06)		CGGACGTTGCGCAGGCCCGTG	0.642													14	59					0	0	1	0	0		A	98803215	A	A	98803215	3	1	199	1	0	0	0	0	1	0	0	0	14764	1087	38	1	2771	1	SLIT1	10	98803215	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3969024	98803215	36731532	681	98073											
RRP12	23223	broad.mit.edu	37	chr10	99130743	99130743	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcttcttcaggtcctccagGtggctctgcacgaagagggc	6	10	13	12	1	4	1	1	0	3	1	6	2	6	1	2	4	1	2	2	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:99130743G>A	uc001knf.2	-	21	2578	c.2439C>T	c.(2437-2439)CAC>CAT	p.H813H	RRP12_uc009xvl.2_5'UTR|RRP12_uc009xvm.2_Silent_p.H531H|RRP12_uc010qou.1_Silent_p.H752H|RRP12_uc009xvn.2_Silent_p.H713H	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	813						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		GGTCCTCCAGGTGGCTCTGCA	0.677													5	25					0	0	1	0	0		A	99130743	A	A	99130743	2	1	199	1	0	0	0	0	0	0	0	1	13711	1252	44	4		4	RRP12	10	99130743	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	327528	99130743	36404004	682	98074											
NKX2-3	159296	broad.mit.edu	37	chr10	101292889	101292889	+	Missense_Mutation	SNP	A	G	G	1	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	tggacaattaagtggccctgAtgatgttaccaagcccggtc	10	10	11	10	1	0	2	0	2	0	0	1	3	0	3	3	3	2	1	3	3	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:101292889A>G	uc009xwj.2	+	1	200	c.1A>G	c.(1-3)ATG>GTG	p.M1V	uc001kps.1_5'Flank	NM_145285	NP_660328	Q8TAU0	NKX23_HUMAN	NK2 transcription factor related, locus 3	1						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.45e-08)		AGTGGCCCTGATGATGTTACC	0.597													17	129					0	0	1	0	0		G	101292889	G	G	101292889	3	3	199	1	0	0	0	0	1	0	0	0	10470	333	12	3	3	3	NKX2-3	10	101292889	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2162146	101292889	34241858	683	98075											
DNMBP	23268	broad.mit.edu	37	chr10	101643927	101643927	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggggatacctggccaggaGggaggcccggagttcttctg	7	7	18	9	1	2	0	0	0	2	0	2	4	2	4	3	7	1	1	3	7	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:101643927G>T	uc001kqj.2	-	15	3930	c.3838C>A	c.(3838-3840)CTC>ATC	p.L1280I	DNMBP_uc010qpl.1_Missense_Mutation_p.L216I|DNMBP_uc001kqg.2_Missense_Mutation_p.L568I|DNMBP_uc001kqh.2_Missense_Mutation_p.L912I	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1280					intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		CTGGCCAGGAGGGAGGCCCGG	0.502													10	83					1.08611e-07	1.16142e-07	1	1	0		T	101643927	T	T	101643927	3	4	199	1	0	0	0	0	1	0	0	0	4680	1000	35	5	907	5	DNMBP	10	101643927	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	351038	101643927	33890820	684	98076											
PKD2L1	9033	broad.mit.edu	37	chr10	102055890	102055890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccaggtaccttgatccaggCgaagaagaggttgacagcat	12	7	12	10	1	0	4	0	2	0	2	1	5	1	4	3	3	2	3	3	3	3	3	rs149093514	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:102055890C>T	uc001kqx.1	-	7	1728	c.1345G>A	c.(1345-1347)GCC>ACC	p.A449T	PKD2L1_uc009xwm.1_Missense_Mutation_p.A402T	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	449	Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		TTGATCCAGGCGAAGAAGAGG	0.433													5	90					0	0	1	0	0		T	102055890	T	T	102055890	3	4	199	1	0	0	0	0	1	0	0	0	11986	768	27	1	1112	1	PKD2L1	10	102055890	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	411963	102055890	33478857	685	98077											
PPRC1	23082	broad.mit.edu	37	chr10	103899081	103899081	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactgtgtgagcagtatcccGgacttccccatgcatttggc	8	11	10	12	1	0	1	0	1	0	0	2	2	2	2	3	2	3	3	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:103899081G>A	uc001kum.2	+	5	855	c.816G>A	c.(814-816)CCG>CCA	p.P272P	PPRC1_uc001kun.2_Silent_p.P152P|PPRC1_uc010qqj.1_Silent_p.P272P|PPRC1_uc009xxa.2_RNA	NM_015062	NP_055877	Q5VV67	PPRC1_HUMAN	peroxisome proliferator-activated receptor	272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.122)		Epithelial(162;4.97e-08)|all cancers(201;8.99e-07)		GCAGTATCCCGGACTTCCCCA	0.577													15	129					0	0	1	0	0		A	103899081	A	A	103899081	2	1	199	1	0	0	0	0	0	0	0	1	12432	1103	39	1		1	PPRC1	10	103899081	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1843191	103899081	31635666	686	98078											
GBF1	8729	broad.mit.edu	37	chr10	104128502	104128502	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtaacattacaggaagtgCgccatgatctccgcccacta	11	8	10	12	2	1	1	0	1	1	0	2	2	1	2	3	2	3	1	3	2	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:104128502C>T	uc001kux.1	+	23	3123	c.2883C>T	c.(2881-2883)TGC>TGT	p.C961C	GBF1_uc001kuy.1_Silent_p.C961C|GBF1_uc001kuz.1_Silent_p.C962C	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	961					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		ACAGGAAGTGCGCCATGATCT	0.537													21	63					0	0	1	0	0		T	104128502	T	T	104128502	2	4	199	1	0	0	0	0	0	0	0	1	6286	776	27	1		1	GBF1	10	104128502	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	229421	104128502	31406245	687	98079											
PSD	5662	broad.mit.edu	37	chr10	104173625	104173625	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggctctggcctctgcctccTcctcctcccctctctgtgtc	0	14	7	20	0	3	0	0	0	3	0	9	0	7	0	7	2	1	1	7	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:104173625T>C	uc001kvg.1	-	5	1981	c.1454A>G	c.(1453-1455)GAG>GGG	p.E485G	PSD_uc001kvh.1_Missense_Mutation_p.E106G|PSD_uc009xxd.1_Missense_Mutation_p.E485G	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	485	Poly-Glu.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		CTCTGCCTCCTCCTCCTCCCC	0.677													11	35					0	0	1	0	0		C	104173625	C	C	104173625	3	2	199	1	0	0	0	0	1	0	0	0	12668	1551	54	3	1672	3	PSD	10	104173625	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	45123	104173625	31361122	688	98080											
GPAM	57678	broad.mit.edu	37	chr10	113928224	113928224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtttttccactcctagaaCgtgtgccttccaggaagatc	9	12	9	11	1	0	2	0	0	0	2	4	3	3	3	4	2	2	1	4	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:113928224C>T	uc009xxy.1	-	11	1151	c.953G>A	c.(952-954)CGT>CAT	p.R318H	GPAM_uc001kzp.2_Missense_Mutation_p.R318H|GPAM_uc001kzq.1_Missense_Mutation_p.R318H	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	318					phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		ACTCCTAGAACGTGTGCCTTC	0.418													21	69					0	0	1	0	0		T	113928224	T	T	113928224	3	4	199	1	0	0	0	0	1	0	0	0	6603	536	19	1	1581	1	GPAM	10	113928224	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9754599	113928224	21606523	689	98081											
C10orf46	143384	broad.mit.edu	37	chr10	120489879	120489879	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atggcaccatccaattttggCcagtatgtgctcttataatc	10	14	7	10	0	1	0	0	0	1	0	3	0	2	0	3	2	1	3	3	2	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:120489879C>T	uc001lds.1	-	2	895	c.411G>A	c.(409-411)TGG>TGA	p.W137*	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	137					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		CCAATTTTGGCCAGTATGTGC	0.323													7	40					0	0	1	0	0		T	120489879	T	T	120489879	4	4	199	1	0	0	0	0	0	1	0	0	1607	740	26	2	730	2	C10orf46	10	120489879	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6561655	120489879	15044868	690	98082											
PSTK	118672	broad.mit.edu	37	chr10	124746902	124746902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcaaagatgggtaagagcGaaccatgcagctatctggag	15	6	13	7	1	1	2	0	0	1	2	1	4	1	3	1	2	5	4	1	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:124746902G>A	uc001lgy.1	+	6	1370	c.930G>A	c.(928-930)GCG>GCA	p.A310A		NM_153336	NP_699167	Q8IV42	PSTK_HUMAN	phosphoseryl-tRNA kinase	310							ATP binding|kinase activity			liver(1)	1		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.0686)|COAD - Colon adenocarcinoma(40;0.0725)		gggtaagagcgaaccatgcag	0													14	43					0	0	1	0	0		A	124746902	A	A	124746902	2	1	199	1	0	0	0	0	0	0	0	1	12742	1045	37	1		1	PSTK	10	124746902	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4257023	124746902	10787845	691	98083											
CHST15	51363	broad.mit.edu	37	chr10	125769742	125769742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagggcctgtagaaatcccGcagaatcttctgtgtgatgg	10	10	13	8	1	2	3	0	1	2	2	3	4	3	3	2	2	0	2	2	2	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:125769742G>A	uc001lhl.2	-	7	2122	c.1609C>T	c.(1609-1611)CGG>TGG	p.R537W	CHST15_uc001lhm.2_Missense_Mutation_p.R537W|CHST15_uc001lhn.2_Missense_Mutation_p.R537W	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	537	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						TAGAAATCCCGCAGAATCTTC	0.602													7	26					0	0	1	0	0		A	125769742	A	A	125769742	3	1	199	1	0	0	0	0	1	0	0	0	3406	1086	38	1	80	1	CHST15	10	125769742	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1022840	125769742	9765005	692	98084											
PTPRE	5791	broad.mit.edu	37	chr10	129868017	129868017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgatggccatgatgcacGcggagcagaaggtggatgtg	10	7	16	8	2	0	3	0	2	0	1	0	5	0	5	2	4	2	2	2	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:129868017G>A	uc001lkb.2	+	13	1348	c.1069G>A	c.(1069-1071)GCG>ACG	p.A357T	PTPRE_uc009yat.2_Missense_Mutation_p.A368T|PTPRE_uc009yau.2_Missense_Mutation_p.A357T|PTPRE_uc001lkd.2_Missense_Mutation_p.A299T|PTPRE_uc010quq.1_Missense_Mutation_p.A258T	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	357	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				CATGATGCACGCGGAGCAGAA	0.552											OREG0020623	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	140					0	0	1	0	0		A	129868017	A	A	129868017	3	1	199	1	0	0	0	0	1	0	0	0	12825	1087	38	1	1150	1	PTPRE	10	129868017	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4098275	129868017	5666730	693	98085											
MKI67	4288	broad.mit.edu	37	chr10	129907238	129907238	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	agacattggtgcacatttctGcccccaagttcttgatctct	8	14	7	12	0	3	2	0	1	3	1	4	2	3	2	2	1	2	2	2	1	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:129907238G>A	uc001lke.2	-	13	3061	c.2866C>T	c.(2866-2868)CAG>TAG	p.Q956*	MKI67_uc001lkf.2_Nonsense_Mutation_p.Q596*|MKI67_uc009yav.1_Nonsense_Mutation_p.Q531*|MKI67_uc009yaw.1_Nonsense_Mutation_p.Q106*	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	956					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				GCACATTTCTGCCCCCAAGTT	0.413													23	97					0	0	1	0	0		A	129907238	A	A	129907238	4	1	199	1	0	0	0	0	0	1	0	0	9616	1328	46	2	6916	2	MKI67	10	129907238	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	39221	129907238	5627509	694	98086											
INPP5A	3632	broad.mit.edu	37	chr10	134591262	134591262	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccgcatcctcatgtccccGtctgccaaggagctggtgct	6	9	11	15	2	2	0	1	0	1	0	4	2	4	1	5	2	3	3	5	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:134591262G>A	uc001llp.2	+	13	1313	c.1065G>A	c.(1063-1065)CCG>CCA	p.P355P	INPP5A_uc001llo.1_Silent_p.P355P|INPP5A_uc001llq.2_Silent_p.P250P	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	355					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		TCATGTCCCCGTCTGCCAAGG	0.662													5	25					0	0	1	0	0		A	134591262	A	A	134591262	2	1	199	1	0	0	0	0	0	0	0	1	7770	1132	40	1		1	INPP5A	10	134591262	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4684024	134591262	943485	695	98087											
PAOX	196743	broad.mit.edu	37	chr10	135193657	135193657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcacgtgggcctgccctcCgtgagctacgccagctccgg	4	7	14	16	4	1	1	1	1	0	0	3	1	3	1	5	3	4	2	5	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr10:135193657C>T	uc001lmv.2	+	2	416	c.336C>T	c.(334-336)TCC>TCT	p.S112S	PAOX_uc001lmw.2_Intron|PAOX_uc001lmx.2_Silent_p.S112S|PAOX_uc001lmy.2_Silent_p.S112S|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_Intron|PAOX_uc001lnb.2_RNA|PAOX_uc001lnc.2_Intron	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	250					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		GCCTGCCCTCCGTGAGCTACG	0.672													7	9					0	0	1	0	0		T	135193657	T	T	135193657	2	4	199	1	0	0	0	0	0	0	0	1	11442	639	23	1		1	PAOX	10	135193657	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	602395	135193657	341090	696	98088											
PSMD13	5719	broad.mit.edu	37	chr11	239045	239045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgattttgtgcaggatcCgtgctttgcccaaggagatg	7	13	13	8	1	0	2	0	1	0	1	1	4	1	3	2	2	3	3	2	2	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:239045C>T	uc001lol.2	+	2	385	c.143C>T	c.(142-144)CCG>CTG	p.P48L	SIRT3_uc001loj.3_5'Flank|SIRT3_uc001lok.3_5'Flank|SIRT3_uc010qvm.1_5'Flank|SIRT3_uc010qvn.1_5'Flank|SIRT3_uc010qvo.1_5'Flank|SIRT3_uc010qvp.1_5'Flank|SIRT3_uc010qvq.1_5'Flank|SIRT3_uc009ybt.1_5'Flank|PSMD13_uc010qvr.1_RNA|PSMD13_uc001loo.2_Intron|PSMD13_uc001lon.2_5'UTR|PSMD13_uc001lom.2_5'UTR	NM_002817	NP_002808	Q9UNM6	PSD13_HUMAN	proteasome 26S non-ATPase subunit 13 isoform 1	48					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	proteasome regulatory particle	protein binding			ovary(1)	1		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;7.79e-27)|Epithelial(43;4e-26)|OV - Ovarian serous cystadenocarcinoma(40;6.02e-21)|BRCA - Breast invasive adenocarcinoma(625;3.93e-05)|Lung(200;0.112)|LUSC - Lung squamous cell carcinoma(625;0.129)		GTGCAGGATCCGTGCTTTGCC	0.403													32	124					0	0	1	0	0		T	239045	T	T	239045	3	4	199	1	0	0	0	0	1	0	0	0	12718	652	23	1	149	1	PSMD13	11	239045	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08		239045	134767471	697	98089											
RASSF7	8045	broad.mit.edu	37	chr11	561891	561891	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcgcactagcccaagcaatAggtgagtcctctcggggtca	10	8	11	12	2	2	1	1	1	1	0	5	1	3	1	2	3	2	2	2	3	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:561891A>G	uc001lqc.2	+	2	158	c.123A>G	c.(121-123)ATA>ATG	p.I41M	C11orf35_uc001lpx.2_5'Flank|RASSF7_uc001lqa.2_Missense_Mutation_p.I41M|RASSF7_uc001lqb.2_Missense_Mutation_p.I41M|RASSF7_uc001lqd.2_Missense_Mutation_p.I41M	NM_003475	NP_003466	Q02833	RASF7_HUMAN	Ras association (RalGDS/AF-6) domain family	41	Ras-associating.				regulation of transcription, DNA-dependent|signal transduction	nucleus	DNA binding|protein binding			skin(1)	1		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;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CCCAAGCAATAGGTGAGTCCT	0.622													4	39					0	0	1	0	0		G	561891	G	G	561891	3	3	199	1	0	0	0	0	1	0	0	0	13116	434	15	3	125	3	RASSF7	11	561891	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	322846	561891	134444625	698	98090											
MUC2	4583	broad.mit.edu	37	chr11	1101020	1101020	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcacttcgagttcgactgCaagaactgtgtctgcctgga	9	10	12	10	2	1	1	0	0	1	1	3	5	1	2	1	1	4	3	1	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:1101020C>T	uc001lsx.1	+	44	14532	c.14505C>T	c.(14503-14505)TGC>TGT	p.C4835C		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4835	VWFC 1.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AGTTCGACTGCAAGAACTGTG	0.607													6	17					0	0	1	0	0		T	1101020	T	T	1101020	2	4	199	1	0	0	0	0	0	0	0	1	9993	718	25	2		2	MUC2	11	1101020	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	539129	1101020	133905496	699	98091											
MUC5B	727897	broad.mit.edu	37	chr11	1272662	1272662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctggatcctcacagagcCgagcactatagccaccgtga	11	6	9	15	2	1	2	1	1	0	1	2	4	2	3	5	1	3	1	5	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:1272662C>T	uc009ycr.1	+	52	15644	c.15518C>T	c.(15517-15519)CCG>CTG	p.P5173L	MUC5B_uc001ltb.2_Missense_Mutation_p.P4854L	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4851	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CTCACAGAGCCGAGCACTATA	0.627													11	112					0	0	1	0	0		T	1272662	T	T	1272662	3	4	199	1	0	0	0	0	1	0	0	0	9997	652	23	1	14683	1	MUC5B	11	1272662	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	171642	1272662	133733854	700	98092											
MUC5B	727897	broad.mit.edu	37	chr11	1276035	1276035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgccctgggcgtgagcGtcaccttcaatggccaagtc	6	10	11	14	2	2	1	2	1	0	0	4	1	3	1	4	2	2	0	4	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:1276035G>A	uc009ycr.1	+	57	16726	c.16600G>A	c.(16600-16602)GTC>ATC	p.V5534I	MUC5B_uc001ltb.2_Missense_Mutation_p.V5200I	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5197	VWFD 4.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GGGCGTGAGCGTCACCTTCAA	0.637													7	34					0	0	1	0	0		A	1276035	A	A	1276035	3	1	199	1	0	0	0	0	1	0	0	0	9997	1145	40	1	15736	1	MUC5B	11	1276035	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3373	1276035	133730481	701	98093											
PGAP2	27315	broad.mit.edu	37	chr11	3832493	3832493	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccaggtctgacaagatgTaccaggtcccactaccactg	10	8	8	15	0	1	2	0	1	1	1	3	2	3	2	5	2	2	1	5	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:3832493T>C	uc001lys.2	+	2	130	c.4T>C	c.(4-6)TAC>CAC	p.Y2H	PGAP2_uc001lyl.2_5'UTR|PGAP2_uc010qxw.1_Missense_Mutation_p.Y59H|PGAP2_uc010qxx.1_Intron|PGAP2_uc001lyp.3_Silent_p.C13C|PGAP2_uc010qxy.1_Missense_Mutation_p.Y59H|PGAP2_uc010qxz.1_Missense_Mutation_p.Y59H|PGAP2_uc001lyn.3_Intron|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Missense_Mutation_p.Y2H|PGAP2_uc010qyb.1_Intron|PGAP2_uc001lyt.2_Intron	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	2					GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						TGACAAGATGTACCAGGTCCC	0.597													9	67					0	0	1	0	0		C	3832493	C	C	3832493	3	2	199	1	0	0	0	0	1	0	0	0	11797	1638	57	3	185	3	PGAP2	11	3832493	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	2556458	3832493	131174023	702	98094											
RHOG	391	broad.mit.edu	37	chr11	3848830	3848830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcccacgcttgatcggcGtggggttgagcacagcccgg	6	6	15	14	5	0	2	0	2	0	0	1	2	0	2	3	4	2	3	3	4	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:3848830G>A	uc001lyu.2	-	2	697	c.539C>T	c.(538-540)ACG>ATG	p.T180M		NM_001665	NP_001656	P84095	RHOG_HUMAN	ras homolog gene family, member G precursor	180					actin cytoskeleton organization|activation of Rac GTPase activity|axon guidance|cell chemotaxis|platelet activation|positive regulation of cell proliferation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of transcription, DNA-dependent|Rac protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0349)|LUSC - Lung squamous cell carcinoma(625;0.194)		CTTGATCGGCGTGGGGTTGAG	0.632													9	34					0	0	1	0	0		A	3848830	A	A	3848830	3	1	199	1	0	0	0	0	1	0	0	0	13364	1145	40	1	40	1	RHOG	11	3848830	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	16337	3848830	131157686	703	98095											
OR52R1	119695	broad.mit.edu	37	chr11	4825181	4825181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatggtccccagtttgatcaCgaccgatggggtcaggatgc	8	9	14	10	2	2	1	2	1	0	0	3	5	3	2	3	4	1	1	3	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:4825181C>T	uc010qym.1	-	1	667	c.667G>A	c.(667-669)GTG>ATG	p.V223M		NM_001005177	NP_001005177	Q8NGF1	O52R1_HUMAN	olfactory receptor, family 52, subfamily R,	144	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0184)|all_neural(188;0.0227)		Epithelial(150;4.77e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00435)|LUSC - Lung squamous cell carcinoma(625;0.19)		AGTTTGATCACGACCGATGGG	0.572													17	68					0	0	1	0	0		T	4825181	T	T	4825181	3	4	199	1	0	0	0	0	1	0	0	0	11150	536	19	1	520	1	OR52R1	11	4825181	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	976351	4825181	130181335	704	98096											
OR51G1	79324	broad.mit.edu	37	chr11	4944754	4944754	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatgaagaggtgtacaacGcggggcagatgttcaccaaa	14	6	13	8	2	1	3	1	1	0	2	1	4	1	3	1	3	2	3	1	3	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:4944754G>A	uc010qyr.1	-	1	816	c.816C>T	c.(814-816)CGC>CGT	p.R272R		NM_001005237	NP_001005237	Q8NGK1	O51G1_HUMAN	olfactory receptor, family 51, subfamily G,	272	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.58e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GGTGTACAACGCGGGGCAGAT	0.498													17	92					0	0	1	0	0		A	4944754	A	A	4944754	2	1	199	1	0	0	0	0	0	0	0	1	11117	1074	38	1		1	OR51G1	11	4944754	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	119573	4944754	130061762	705	98097											
OR51B5	282763	broad.mit.edu	37	chr11	5364477	5364477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcctgggaaaagcaggccGcacttccaatctccctgtga	10	7	11	13	1	1	1	0	1	1	0	3	2	2	2	4	3	1	2	4	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:5364477G>A	uc001map.1	-	1	278	c.278C>T	c.(277-279)GCG>GTG	p.A93V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.A93V	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAGCAGGCCGCACTTCCAAT	0.557													6	35					0	0	1	0	0		A	5364477	A	A	5364477	3	1	199	1	0	0	0	0	1	0	0	0	11110	1087	38	1	664	1	OR51B5	11	5364477	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	419723	5364477	129642039	706	98098											
DNHD1	144132	broad.mit.edu	37	chr11	6593053	6593053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagtgacctgccagccccagCcgacctgactgtgtactcgt	7	8	10	16	2	0	2	0	2	0	0	1	3	0	2	6	0	4	1	6	0	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:6593053C>T	uc001mdw.3	+	43	14663	c.14099C>T	c.(14098-14100)GCC>GTC	p.A4700V	DNHD1_uc001mea.3_Missense_Mutation_p.A969V|DNHD1_uc001meb.2_3'UTR|DNHD1_uc001mec.2_Missense_Mutation_p.A968V|DNHD1_uc010rao.1_Missense_Mutation_p.A958V|DNHD1_uc009yfg.2_Missense_Mutation_p.A325V	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	4700					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CCAGCCCCAGCCGACCTGACT	0.632													3	51					0	0	1	0	0		T	6593053	T	T	6593053	3	4	199	1	0	0	0	0	1	0	0	0	4674	739	26	2	14270	2	DNHD1	11	6593053	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1228576	6593053	128413463	707	98099											
STK33	65975	broad.mit.edu	37	chr11	8478889	8478889	+	Silent	SNP	A	G	G	1	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	tggataaccctcttcttaccAttattgtgaagatatgctat	11	16	6	8	0	2	2	0	1	2	1	2	3	2	3	2	1	3	1	2	1	6	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:8478889A>G	uc001mgi.1	-	5	1615	c.696T>C	c.(694-696)AAT>AAC	p.N232N	STK33_uc001mgj.1_Silent_p.N232N|STK33_uc001mgk.1_Silent_p.N232N|STK33_uc010rbn.1_Silent_p.N191N|STK33_uc001mgl.3_Silent_p.N45N|STK33_uc009yfp.2_Intron	NM_030906	NP_112168	Q9BYT3	STK33_HUMAN	serine/threonine kinase 33	232	Protein kinase.					Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|pancreas(1)|central_nervous_system(1)|skin(1)	7				Epithelial(150;2.13e-06)|BRCA - Breast invasive adenocarcinoma(625;0.239)		TCTTCTTACCATTATTGTGAA	0.363													9	59					0	0	1	0	0		G	8478889	G	G	8478889	2	3	199	1	0	0	0	0	0	0	0	1	15325	231	8	3		3	STK33	11	8478889	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1885836	8478889	126527627	708	98100											
CTR9	9646	broad.mit.edu	37	chr11	10800334	10800334	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaccagaacaagtctggcagCgaggccggcagtccccggag	11	3	14	13	3	1	1	0	0	1	1	2	3	2	2	4	4	3	2	4	4	3	0	rs149166333		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:10800334C>T	uc001mja.2	+	25	3353	c.3204C>T	c.(3202-3204)AGC>AGT	p.S1068S		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	1068	Ser-rich.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		AGTCTGGCAGCGAGGCCGGCA	0.557													8	23					0	0	1	0	0		T	10800334	T	T	10800334	2	4	199	1	0	0	0	0	0	0	0	1	4027	767	27	1		1	CTR9	11	10800334	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2321445	10800334	124206182	709	98101											
MICALCL	84953	broad.mit.edu	37	chr11	12316004	12316004	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttagccctcctgaccctgcCctccgcacccacagtttgcc	5	10	6	20	1	0	1	0	1	0	0	2	1	2	1	7	0	3	2	7	0	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:12316004C>A	uc001mkg.1	+	3	1317	c.1026C>A	c.(1024-1026)GCC>GCA	p.A342A		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	342					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding			skin(1)	1				Epithelial(150;0.00177)		CTGACCCTGCCCTCCGCACCC	0.562													20	83					5.26018e-13	5.79847e-13	1	1	0		A	12316004	A	A	12316004	2	1	199	1	0	0	0	0	0	0	0	1	9590	610	22	5		5	MICALCL	11	12316004	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1515670	12316004	122690512	710	98102											
ABCC8	6833	broad.mit.edu	37	chr11	17482097	17482097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatcccaaagatgcacagtgGcccggcgaagcccagcaggt	11	4	13	13	2	0	1	0	0	0	1	1	3	1	1	3	3	3	2	3	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:17482097G>A	uc001mnc.2	-	6	1075	c.949C>T	c.(949-951)CCA>TCA	p.P317S	ABCC8_uc010rcy.1_Missense_Mutation_p.P316S	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	317	Helical; Name=6; (By similarity).|ABC transmembrane type-1 1.				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	ATGCACAGTGGCCCGGCGAAG	0.642													17	100					0	0	1	0	0		A	17482097	A	A	17482097	3	1	199	1	0	0	0	0	1	0	0	0	58	1203	42	2	3932	2	ABCC8	11	17482097	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5166093	17482097	117524419	711	98103											
IGSF22	283284	broad.mit.edu	37	chr11	18741301	18741301	+	Silent	SNP	T	G	G	0	1	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	cttcatctctttgagcttccTgagcagcccccgaaagtcgg	7	11	9	14	2	2	2	1	2	1	0	5	3	3	2	3	1	3	2	3	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:18741301T>G	uc009yht.2	-	7	848	c.658A>C	c.(658-660)AGG>CGG	p.R220R	IGSF22_uc001mpa.2_RNA	NM_173588	NP_775859	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	220	Lys-rich.									ovary(4)|large_intestine(2)|kidney(1)	7						TTGAGCTTCCTGAGCAGCCCC	0.512													20	77					0	0	1	0	0		G	18741301	G	G	18741301	2	3	199	1	0	0	0	0	0	0	0	1	7616	1579	55	5		5	IGSF22	11	18741301	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1259204	18741301	116265215	712	98104											
PTPN5	84867	broad.mit.edu	37	chr11	18764950	18764950	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaccagatgtggccataaccGctgaaccagagcaccccaca	13	4	9	15	1	0	3	0	1	0	2	0	4	0	3	6	1	3	2	6	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:18764950G>A	uc001mpd.2	-	5	749	c.318C>T	c.(316-318)AGC>AGT	p.S106S	PTPN5_uc001mpb.2_Intron|PTPN5_uc001mpc.2_Silent_p.S106S|PTPN5_uc001mpe.2_Intron|PTPN5_uc010rdj.1_Intron|PTPN5_uc001mpf.2_Silent_p.S82S|PTPN5_uc010rdk.1_Silent_p.S51S	NM_006906	NP_008837	P54829	PTN5_HUMAN	protein-tyrosine-phosphatase non-receptor 5	106						integral to membrane	phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(2)	2						GGCCATAACCGCTGAACCAGA	0.612													8	53					0	0	1	0	0		A	18764950	A	A	18764950	2	1	199	1	0	0	0	0	0	0	0	1	12816	1078	38	1		1	PTPN5	11	18764950	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	23649	18764950	116241566	713	98105											
NELL1	4745	broad.mit.edu	37	chr11	21581797	21581797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attctgcctgcatcaacctgGcagggggctttgactgtctc	6	12	11	12	0	3	1	1	1	2	0	4	1	3	1	2	3	3	3	2	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:21581797G>A	uc001mqe.2	+	17	2002	c.1849G>A	c.(1849-1851)GCA>ACA	p.A617T	NELL1_uc001mqf.2_Missense_Mutation_p.A570T|NELL1_uc009yid.2_Missense_Mutation_p.A645T|NELL1_uc010rdo.1_Missense_Mutation_p.A560T|NELL1_uc010rdp.1_Missense_Mutation_p.A330T|NELL1_uc001mqh.2_Intron	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	617	EGF-like 6; calcium-binding (Potential).				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						CATCAACCTGGCAGGGGGCTT	0.527													15	130					0	0	1	0	0		A	21581797	A	A	21581797	3	1	199	1	0	0	0	0	1	0	0	0	10352	1203	42	2	1915	2	NELL1	11	21581797	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2816847	21581797	113424719	714	98106											
SLC17A6	57084	broad.mit.edu	37	chr11	22363180	22363180	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctgtgcgactgcacgtgcTtcggcctgccccgccgctac	3	8	12	18	6	0	0	0	0	0	0	1	1	0	0	4	1	5	4	4	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:22363180T>C	uc001mqk.2	+	2	606	c.193T>C	c.(193-195)TTC>CTC	p.F65L		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	65	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CTGCACGTGCTTCGGCCTGCC	0.627													5	23					0	0	1	0	0		C	22363180	C	C	22363180	3	2	199	1	0	0	0	0	1	0	0	0	14446	1609	56	3	199	3	SLC17A6	11	22363180	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	781383	22363180	112643336	715	98107											
ANO3	63982	broad.mit.edu	37	chr11	26681924	26681924	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tcaagaaatgatgtatgaggCtgaactggaacatttgcaac	15	10	10	6	0	1	4	1	3	0	1	1	5	1	5	0	2	4	3	0	2	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:26681924C>T	uc001mqt.3	+	27	3024	c.2879C>T	c.(2878-2880)GCT>GTT	p.A960V	ANO3_uc010rdr.1_Missense_Mutation_p.A944V|ANO3_uc010rds.1_Missense_Mutation_p.A799V|ANO3_uc010rdt.1_Missense_Mutation_p.A814V	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	960	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ATGTATGAGGCTGAACTGGAA	0.428													20	85					0	0	1	0	0		T	26681924	T	T	26681924	3	4	199	1	0	0	0	0	1	0	0	0	698	797	28	2	2985	2	ANO3	11	26681924	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4318744	26681924	108324592	716	98108											
LIN7C	55327	broad.mit.edu	37	chr11	27520240	27520240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctcattttttcaaagcGcgactccatttcttctaaga	10	16	5	10	2	4	2	2	1	3	1	6	3	5	2	1	0	1	0	1	0	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:27520240G>A	uc001mrl.2	-	5	577	c.550C>T	c.(550-552)CGC>TGC	p.R184C	LIN7C_uc009yii.2_Missense_Mutation_p.R160C	NM_018362	NP_060832	Q9NUP9	LIN7C_HUMAN	lin-7 homolog C	184					exocytosis|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction					0						TTTTCAAAGCGCGACTCCATT	0.378													25	121					0	0	1	0	0		A	27520240	A	A	27520240	3	1	199	1	0	0	0	0	1	0	0	0	8829	1087	38	1	47	1	LIN7C	11	27520240	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	838316	27520240	107486276	717	98109											
QSER1	79832	broad.mit.edu	37	chr11	32955470	32955470	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacagcgtgttcaaagccCtcaacaaatagtacatccct	14	8	6	13	1	2	0	2	0	0	0	3	0	3	0	2	0	5	3	2	0	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:32955470C>T	uc001mty.2	+	4	2546	c.2279C>T	c.(2278-2280)CCT>CTT	p.P760L	QSER1_uc001mtz.1_Missense_Mutation_p.P521L|QSER1_uc001mua.2_Missense_Mutation_p.P265L	NM_001076786	NP_001070254	Q2KHR3	QSER1_HUMAN	glutamine and serine rich 1	760	Gln-rich.									ovary(3)|central_nervous_system(2)|skin(1)	6	Breast(20;0.158)					GTTCAAAGCCCTCAACAAATA	0.408													23	131					0	0	1	0	0		T	32955470	T	T	32955470	3	4	199	1	0	0	0	0	1	0	0	0	12907	681	24	4	2285	4	QSER1	11	32955470	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5435230	32955470	102051046	718	98110											
TP53I11	9537	broad.mit.edu	37	chr11	44956502	44956502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgatgacgacaaaaaggaggCggctgaccaggagcagcagg	14	3	16	8	2	0	3	0	3	0	0	0	6	0	5	1	5	2	3	1	5	2	0	rs141661210		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:44956502C>T	uc001myi.2	-	10	1108	c.503G>A	c.(502-504)CGC>CAC	p.R168H	TP53I11_uc001myf.1_Intron|TP53I11_uc001myj.2_Missense_Mutation_p.R168H|TP53I11_uc001myk.2_Missense_Mutation_p.R168H|TP53I11_uc001myl.2_Missense_Mutation_p.R168H|TP53I11_uc001mym.2_Missense_Mutation_p.R115H	NM_006034	NP_006025	O14683	P5I11_HUMAN	p53-induced protein	168	Helical; (Potential).				negative regulation of cell proliferation|response to stress	integral to membrane				ovary(1)	1						AAAAAGGAGGCGGCTGACCAG	0.607													17	101					0	0	1	0	0		T	44956502	T	T	44956502	3	4	199	1	0	0	0	0	1	0	0	0	16411	768	27	1	70	1	TP53I11	11	44956502	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	12001032	44956502	90050014	719	98111											
CHST1	8534	broad.mit.edu	37	chr11	45671602	45671602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtacttgcccttgagccacGggggccgcatgaggccggtg	5	8	16	12	3	0	2	0	2	0	0	0	2	0	2	4	4	3	2	4	4	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:45671602G>A	uc001mys.1	-	4	1543	c.872C>T	c.(871-873)CCG>CTG	p.P291L		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	291	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CTTGAGCCACGGGGGCCGCAT	0.622													20	65					0	0	1	0	0		A	45671602	A	A	45671602	3	1	199	1	0	0	0	0	1	0	0	0	3400	1116	39	1	367	1	CHST1	11	45671602	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	715100	45671602	89334914	720	98112											
NR1H3	10062	broad.mit.edu	37	chr11	47282097	47282097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaagggattcttccgcCgcagcgtcatcaagggagcg	8	7	14	12	4	3	0	2	0	1	0	4	2	4	2	2	2	3	3	2	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:47282097C>T	uc009ylm.2	+	4	591	c.370C>T	c.(370-372)CGC>TGC	p.R124C	NR1H3_uc009yll.1_Missense_Mutation_p.R130C|NR1H3_uc010rhk.1_Missense_Mutation_p.R130C|NR1H3_uc001nek.2_Missense_Mutation_p.R79C|NR1H3_uc001nej.2_Missense_Mutation_p.R124C|NR1H3_uc001nel.2_Missense_Mutation_p.R79C|NR1H3_uc001nen.3_Missense_Mutation_p.R124C|NR1H3_uc001nem.2_Missense_Mutation_p.R124C|NR1H3_uc001nep.2_Missense_Mutation_p.R33C	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	124	Nuclear receptor.				apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3						ATTCTTCCGCCGCAGCGTCAT	0.602													5	30					0	0	1	0	0		T	47282097	T	T	47282097	3	4	199	1	0	0	0	0	1	0	0	0	10637	652	23	1	380	1	NR1H3	11	47282097	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1610495	47282097	87724419	721	98113											
PTPRJ	5795	broad.mit.edu	37	chr11	48145177	48145177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taaaatagagccgatcccagTttctgatctccgtgttgccc	9	12	8	12	2	2	2	0	1	2	1	4	3	3	2	4	0	2	2	4	0	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:48145177T>C	uc001ngp.3	+	5	984	c.629T>C	c.(628-630)GTT>GCT	p.V210A	PTPRJ_uc001ngo.3_Missense_Mutation_p.V210A	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	210	Extracellular (Potential).|Fibronectin type-III 2.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CCGATCCCAGTTTCTGATCTC	0.488													9	29					0	0	1	0	0		C	48145177	C	C	48145177	3	2	199	1	0	0	0	0	1	0	0	0	12829	1725	60	3	647	3	PTPRJ	11	48145177	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	863080	48145177	86861339	722	98114											
OR4B1	119765	broad.mit.edu	37	chr11	48238920	48238920	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcctttattcaagcttgccTgcactgacaccttcatggag	9	12	8	12	0	2	1	2	1	0	0	2	2	2	2	3	1	4	2	3	1	2	5	rs145940486		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:48238920T>C	uc010rhs.1	+	1	559	c.559T>C	c.(559-561)TGC>CGC	p.C187R		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						CAAGCTTGCCTGCACTGACAC	0.443													17	131					0	0	1	0	0		C	48238920	C	C	48238920	3	2	199	1	0	0	0	0	1	0	0	0	11063	1580	55	3	561	3	OR4B1	11	48238920	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	93743	48238920	86767596	723	98115											
OR4C13	283092	broad.mit.edu	37	chr11	49974622	49974622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcttgctcctggtctcctgCgtggtcatactgtactcctt	3	16	8	14	1	3	0	1	0	2	0	6	0	5	0	3	2	4	2	3	2	2	4	rs142785731		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:49974622C>T	uc010rhz.1	+	1	648	c.648C>T	c.(646-648)TGC>TGT	p.C216C		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	216	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						TGGTCTCCTGCGTGGTCATAC	0.483													11	98					0	0	1	0	0		T	49974622	T	T	49974622	2	4	199	1	0	0	0	0	0	0	0	1	11066	776	27	1		1	OR4C13	11	49974622	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1735702	49974622	85031894	724	98116											
OR4C15	81309	broad.mit.edu	37	chr11	55322287	55322287	+	Missense_Mutation	SNP	A	G	G	1	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	gggtggaggtgattgtcctcAcagccatggcctatgatcgt	7	11	14	9	1	1	2	1	2	0	0	3	3	2	3	3	4	1	0	3	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:55322287A>G	uc010rig.1	+	1	505	c.505A>G	c.(505-507)ACA>GCA	p.T169A		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	115	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GATTGTCCTCACAGCCATGGC	0.488										HNSCC(20;0.049)			12	83					0	0	1	0	0		G	55322287	G	G	55322287	3	3	199	1	0	0	0	0	1	0	0	0	11067	159	6	3	507	3	OR4C15	11	55322287	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	5347665	55322287	79684229	725	98117											
OR4C6	219432	broad.mit.edu	37	chr11	55433482	55433482	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaatcatcacacccatgttAaatcccttgatctatacact	13	13	2	13	0	4	1	3	1	1	0	5	1	5	1	2	0	1	1	2	0	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:55433482A>G	uc001nht.3	+	3	1105	c.840A>G	c.(838-840)TTA>TTG	p.L280L	OR4C6_uc010rik.1_Silent_p.L280L	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	280	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CACCCATGTTAAATCCCTTGA	0.453													12	48					0	0	1	0	0		G	55433482	G	G	55433482	2	3	199	1	0	0	0	0	0	0	0	1	11071	359	13	3		3	OR4C6	11	55433482	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	111195	55433482	79573034	726	98118											
OR5T3	390154	broad.mit.edu	37	chr11	56020522	56020522	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggagtgacaatttatcatGgaacaattctcgtcagttat	12	14	8	7	1	3	1	2	1	1	0	4	3	3	3	0	2	1	1	0	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:56020522G>T	uc010rjd.1	+	1	847	c.847G>T	c.(847-849)GGA>TGA	p.G283*		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	283	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					AATTTATCATGGAACAATTCT	0.398													25	95					2.12542e-12	2.33764e-12	1	1	0		T	56020522	T	T	56020522	4	4	199	1	0	0	0	0	0	1	0	0	11202	1349	47	5	849	5	OR5T3	11	56020522	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	587040	56020522	78985994	727	98119											
OR5M3	219482	broad.mit.edu	37	chr11	56237921	56237921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agagaacttgccattctcgaCggctcgttagccccaaaaga	12	8	9	12	3	1	2	0	0	1	2	3	4	1	2	3	1	3	2	3	1	4	3	rs142752109		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:56237921C>T	uc010rjk.1	-	1	53	c.53G>A	c.(52-54)CGT>CAT	p.R18H		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					CCATTCTCGACGGCTCGTTAG	0.398													11	65					0	0	1	0	0		T	56237921	T	T	56237921	3	4	199	1	0	0	0	0	1	0	0	0	11194	536	19	1	872	1	OR5M3	11	56237921	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	217399	56237921	78768595	728	98120											
FAM111B	374393	broad.mit.edu	37	chr11	58891822	58891822	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatgttgtttcacctttacGttgaatggaaactccagaaa	13	13	8	7	1	1	2	1	1	0	1	2	4	2	3	2	1	2	3	2	1	5	5	rs141392651	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:58891822G>A	uc001nnl.2	+	4	495	c.252G>A	c.(250-252)ACG>ACA	p.T84T	FAM111B_uc001nnm.2_Silent_p.T54T|FAM111B_uc010rko.1_Silent_p.T54T	NM_198947	NP_945185	Q6SJ93	F111B_HUMAN	hypothetical protein LOC374393 isoform a	84							catalytic activity			ovary(2)	2						TCACCTTTACGTTGAATGGAA	0.388													10	96					0	0	1	0	0		A	58891822	A	A	58891822	2	1	199	1	0	0	0	0	0	0	0	1	5411	1132	40	1		1	FAM111B	11	58891822	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2653901	58891822	76114694	729	98121											
OR10V1	390201	broad.mit.edu	37	chr11	59481128	59481128	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tttctagaactgccagattaGccaggaaaaagtacatgggg	14	9	11	7	0	1	2	0	0	1	2	1	3	1	3	2	3	4	1	2	3	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:59481128G>A	uc001nof.1	-	1	191	c.191C>T	c.(190-192)GCT>GTT	p.A64V		NM_001005324	NP_001005324	Q8NGI7	O10V1_HUMAN	olfactory receptor, family 10, subfamily V,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCCAGATTAGCCAGGAAAAA	0.458													5	23					0	0	1	0	0		A	59481128	A	A	59481128	3	1	199	1	0	0	0	0	1	0	0	0	10939	971	34	2	742	2	OR10V1	11	59481128	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	589306	59481128	75525388	730	98122											
ZP1	22917	broad.mit.edu	37	chr11	60637116	60637116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccaaacctgacccctcccGgactctggactcccagctgg	7	7	8	19	1	1	1	0	1	1	0	4	3	4	3	6	3	2	1	6	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:60637116G>A	uc001nqd.2	+	3	445	c.425G>A	c.(424-426)CGG>CAG	p.R142Q	ZP1_uc001nqe.2_5'Flank	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	142	Extracellular (Potential).				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						GACCCCTCCCGGACTCTGGAC	0.592													10	63					0	0	1	0	0		A	60637116	A	A	60637116	3	1	199	1	0	0	0	0	1	0	0	0	18240	1116	39	1	435	1	ZP1	11	60637116	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1155988	60637116	74369400	731	98123											
TMEM132A	54972	broad.mit.edu	37	chr11	60703936	60703936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcgtcctgcgctatcagCgcaaagaacctcccgacagt	9	9	8	15	4	2	1	1	0	1	1	5	2	4	1	3	0	3	2	3	0	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:60703936C>T	uc001nqj.2	+	11	2822	c.2629C>T	c.(2629-2631)CGC>TGC	p.R877C	TMEM132A_uc001nqi.2_Missense_Mutation_p.R878C|TMEM132A_uc001nqm.2_Missense_Mutation_p.R87C	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	877	Binds to HSPA5/GRP78 (By similarity).|Cytoplasmic (Potential).|Confers cellular localization similar to full-length form (By similarity).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GCGCTATCAGCGCAAAGAACC	0.612													34	109					0	0	1	0	0		T	60703936	T	T	60703936	3	4	199	1	0	0	0	0	1	0	0	0	16070	768	27	1	2674	1	TMEM132A	11	60703936	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	66820	60703936	74302580	732	98124											
DDB1	1642	broad.mit.edu	37	chr11	61071387	61071387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaagcagcagcactgagcGcataaggtcgcccaccagga	12	3	13	13	2	0	1	0	1	0	0	1	2	0	2	2	3	4	5	2	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:61071387G>A	uc001nrc.3	-	22	3008	c.2782C>T	c.(2782-2784)CGC>TGC	p.R928C	DDB1_uc010rle.1_Missense_Mutation_p.R239C|DDB1_uc010rlf.1_Missense_Mutation_p.R928C	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	928	Interaction with CDT1 and CUL4A.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						AGCACTGAGCGCATAAGGTCG	0.562								NER					13	83					0	0	1	0	0		A	61071387	A	A	61071387	3	1	199	1	0	0	0	0	1	0	0	0	4326	1087	38	1	664	1	DDB1	11	61071387	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	367451	61071387	73935129	733	98125											
SYT7	9066	broad.mit.edu	37	chr11	61323636	61323636	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagtgacgctaaggctgacGgtgatgatggcagagaccag	12	6	15	8	2	0	5	0	4	0	1	0	6	0	5	1	3	0	3	1	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:61323636G>A	uc001nrv.2	-	2	81	c.75C>T	c.(73-75)ACC>ACT	p.T25T	SYT7_uc009ynr.2_Silent_p.T25T|SYT7_uc001nrx.1_RNA	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	25	Helical; (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						TAAGGCTGACGGTGATGATGG	0.667													6	24					0	0	1	0	0		A	61323636	A	A	61323636	2	1	199	1	0	0	0	0	0	0	0	1	15504	1103	39	1		1	SYT7	11	61323636	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	252249	61323636	73682880	734	98126											
NRXN2	9379	broad.mit.edu	37	chr11	64390423	64390423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcacattggggtcgctctcGgcggccagcgccagcacctt	5	7	13	16	5	1	0	0	0	1	0	3	0	1	0	3	4	2	3	3	4	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:64390423G>A	uc001oap.2	-	6	1348	c.837C>T	c.(835-837)GCC>GCT	p.A279A	NRXN2_uc001oar.2_Silent_p.A1325A|NRXN2_uc001oas.2_Silent_p.A1255A|NRXN2_uc001oao.2_5'UTR|NRXN2_uc001oaq.2_Silent_p.A992A	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	279	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						GGTCGCTCTCGGCGGCCAGCG	0.701													4	20					0	0	1	0	0		A	64390423	A	A	64390423	2	1	199	1	0	0	0	0	0	0	0	1	10685	1103	39	1		1	NRXN2	11	64390423	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3066787	64390423	70616093	735	98127											
SF1	7536	broad.mit.edu	37	chr11	64534506	64534506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggctgcccactgggaggcGgcggcggcggcggcatcatg	4	4	21	12	5	1	0	1	0	0	0	1	1	1	1	1	9	1	2	1	9	0	0	rs149376410		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:64534506G>A	uc001obb.1	-	12	1825	c.1448C>T	c.(1447-1449)CCG>CTG	p.P483L	SF1_uc010rnm.1_Missense_Mutation_p.P175L|SF1_uc010rnn.1_Missense_Mutation_p.P457L|SF1_uc001oaz.1_Missense_Mutation_p.P608L|SF1_uc001oba.1_Missense_Mutation_p.P483L|SF1_uc001obc.1_Missense_Mutation_p.P483L|SF1_uc001obd.1_Silent_p.A484A|SF1_uc001obe.1_Silent_p.A369A|SF1_uc010rno.1_Missense_Mutation_p.P368L	NM_004630	NP_004621	Q15637	SF01_HUMAN	splicing factor 1 isoform 1	483	Pro-rich.				nuclear mRNA 3'-splice site recognition|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ribosome|spliceosomal complex	protein binding|RNA binding|transcription corepressor activity|zinc ion binding			ovary(1)|breast(1)|skin(1)	3						ACTGGGAGGCGGCGGCGGCGG	0.687													14	47					0	0	1	0	0		A	64534506	A	A	64534506	3	1	199	1	0	0	0	0	1	0	0	0	14170	1116	39	1	613	1	SF1	11	64534506	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	144083	64534506	70472010	736	98128											
BATF2	116071	broad.mit.edu	37	chr11	64757191	64757191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggcacaggcgctcatgcaCgtgcagggtccggctccacc	6	5	15	15	3	1	0	1	0	0	0	3	0	3	0	3	5	2	5	3	5	0	0	rs137880686	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:64757191C>T	uc001ocf.1	-	3	366	c.235G>A	c.(235-237)GTG>ATG	p.V79M	BATF2_uc001oce.1_Translation_Start_Site	NM_138456	NP_612465	Q8N1L9	BATF2_HUMAN	basic leucine zipper transcription factor,	79						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGCTCATGCACGTGCAGGGTC	0.667													5	41					0	0	1	0	0		T	64757191	T	T	64757191	3	4	199	1	0	0	0	0	1	0	0	0	1327	536	19	1	593	1	BATF2	11	64757191	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	222685	64757191	70249325	737	98129											
SAC3D1	29901	broad.mit.edu	37	chr11	64812170	64812170	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggcagaggaggaagatgagGgcacggacagacctgggtcc	11	4	18	8	1	0	4	0	1	0	3	1	7	1	7	2	6	0	2	2	6	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:64812170G>T	uc001ocm.2	+	2	1437	c.1048G>T	c.(1048-1050)GGC>TGC	p.G350C	SAC3D1_uc010rnv.1_Missense_Mutation_p.G337C	NM_013299	NP_037431			SAC3 domain containing 1												0						GGAAGATGAGGGCACGGACAG	0.602													10	32					9.05144e-12	9.93286e-12	1	1	0		T	64812170	T	T	64812170	3	4	199	1	0	0	0	0	1	0	0	0	13827	1232	43	5	1054	5	SAC3D1	11	64812170	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	54979	64812170	70194346	738	98130											
LTBP3	4054	broad.mit.edu	37	chr11	65320450	65320450	+	Missense_Mutation	SNP	A	G	G	1	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	ccggcattgcgcactcgttgAtgtctgtggtaagtggaagt	7	12	14	8	3	1	1	0	1	1	0	2	2	1	2	1	3	1	4	1	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:65320450A>G	uc001oej.2	-	6	1336	c.1067T>C	c.(1066-1068)ATC>ACC	p.I356T	LTBP3_uc010roi.1_Missense_Mutation_p.I239T|LTBP3_uc001oei.2_Missense_Mutation_p.I356T|LTBP3_uc010roj.1_Intron|LTBP3_uc010rok.1_Missense_Mutation_p.I267T	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	356	EGF-like 2; calcium-binding (Potential).					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GCACTCGTTGATGTCTGTGGT	0.617													7	31					0	0	1	0	0		G	65320450	G	G	65320450	3	3	199	1	0	0	0	0	1	0	0	0	9093	333	12	3	2936	3	LTBP3	11	65320450	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	508280	65320450	69686066	739	98131											
SF3B2	10992	broad.mit.edu	37	chr11	65825861	65825861	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actgaggaggacacagtgtcCgtatctaaaaaggaggtagg	14	7	14	6	1	1	1	0	1	1	0	2	4	2	4	1	5	0	2	1	5	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:65825861C>T	uc001ogy.1	+	9	991	c.951C>T	c.(949-951)TCC>TCT	p.S317S		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	317					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						ACACAGTGTCCGTATCTAAAA	0.493													20	60					0	0	1	0	0		T	65825861	T	T	65825861	2	4	199	1	0	0	0	0	0	0	0	1	14176	639	23	1		1	SF3B2	11	65825861	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	505411	65825861	69180655	740	98132											
DPP3	10072	broad.mit.edu	37	chr11	66252663	66252663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgttcctggtctatgccgCgggtgtttactccaacatgg	5	12	13	11	3	1	0	0	0	1	0	3	0	3	0	3	4	3	2	3	4	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:66252663C>T	uc001oig.1	+	3	352	c.290C>T	c.(289-291)GCG>GTG	p.A97V	DPP3_uc001oif.1_Missense_Mutation_p.A97V|DPP3_uc010rpe.1_Intron	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	97					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						GTCTATGCCGCGGGTGTTTAC	0.592													11	49					0	0	1	0	0		T	66252663	T	T	66252663	3	4	199	1	0	0	0	0	1	0	0	0	4734	768	27	1	296	1	DPP3	11	66252663	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	426802	66252663	68753853	741	98133											
SPTBN2	6712	broad.mit.edu	37	chr11	66453406	66453406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctctgccgtctttgctgCggagcacaacaggcccctca	6	10	10	15	2	3	0	1	0	2	0	4	1	3	1	3	2	5	3	3	2	1	2	rs145522851	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:66453406C>T	uc001ojd.2	-	37	7181	c.7109G>A	c.(7108-7110)CGC>CAC	p.R2370H	SPTBN2_uc001ojc.1_3'UTR	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	2370					actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GTCTTTGCTGCGGAGCACAAC	0.627													10	49					0	0	1	0	0		T	66453406	T	T	66453406	3	4	199	1	0	0	0	0	1	0	0	0	15145	768	27	1	67	1	SPTBN2	11	66453406	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	200743	66453406	68553110	742	98134											
CARNS1	57571	broad.mit.edu	37	chr11	67191666	67191666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttatcgagatcaacccccGcatgggtggcttctacctgc	7	10	10	14	2	2	1	1	0	1	1	3	2	2	1	3	2	3	3	3	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:67191666G>A	uc009yrp.2	+	9	2530	c.2078G>A	c.(2077-2079)CGC>CAC	p.R693H	CARNS1_uc001olc.3_Missense_Mutation_p.R832H	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	693	ATP-grasp.				carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						ATCAACCCCCGCATGGGTGGC	0.617													7	39					0	0	1	0	0		A	67191666	A	A	67191666	3	1	199	1	0	0	0	0	1	0	0	0	2659	1087	38	1	2481	1	CARNS1	11	67191666	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	738260	67191666	67814850	743	98135											
ALDH3B2	222	broad.mit.edu	37	chr11	67430713	67430713	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtgcagctctgggagccCatgccccagcgtaacagctg	8	6	14	13	1	1	0	0	0	1	0	1	1	1	1	3	2	7	4	3	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:67430713C>A	uc001omr.2	-	10	1570	c.1131G>T	c.(1129-1131)ATG>ATT	p.M377I	ALDH3B2_uc001oms.2_Missense_Mutation_p.M377I	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	377					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	TCTGGGAGCCCATGCCCCAGC	0.612													33	91					2.87052e-16	3.1931e-16	1	1	0		A	67430713	A	A	67430713	3	1	199	1	0	0	0	0	1	0	0	0	500	594	21	5	30	5	ALDH3B2	11	67430713	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	239047	67430713	67575803	744	98136											
LRP5	4041	broad.mit.edu	37	chr11	68183850	68183850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatcagtcggatgatccCggacgaccagcacagcccgg	9	5	12	15	4	1	1	1	1	0	0	3	4	2	3	4	3	3	1	4	3	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:68183850C>T	uc001ont.2	+	13	2957	c.2882C>T	c.(2881-2883)CCG>CTG	p.P961L	LRP5_uc009ysg.2_Missense_Mutation_p.P371L	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	961	Beta-propeller 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CGGATGATCCCGGACGACCAG	0.572													29	92					0	0	1	0	0		T	68183850	T	T	68183850	3	4	199	1	0	0	0	0	1	0	0	0	8978	652	23	1	2932	1	LRP5	11	68183850	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	753137	68183850	66822666	745	98137											
LRP5	4041	broad.mit.edu	37	chr11	68201246	68201246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtcagtgtgtggacctgCgcctgcgctgcgacggcgag	4	7	19	11	5	1	0	1	0	0	0	1	3	1	1	2	4	3	1	2	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:68201246C>T	uc001ont.2	+	18	4015	c.3940C>T	c.(3940-3942)CGC>TGC	p.R1314C	LRP5_uc009ysg.2_Missense_Mutation_p.R724C	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1314	LDL-receptor class A 2.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						TGTGGACCTGCGCCTGCGCTG	0.701													13	57					0	0	1	0	0		T	68201246	T	T	68201246	3	4	199	1	0	0	0	0	1	0	0	0	8978	768	27	1	4010	1	LRP5	11	68201246	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	17396	68201246	66805270	746	98138											
MRPL21	219927	broad.mit.edu	37	chr11	68664114	68664114	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagcctgccatactgccccgTgacgatcatctcattcacct	8	10	7	16	2	3	1	3	1	1	0	4	3	3	1	5	0	4	0	5	0	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:68664114T>C	uc001ooi.2	-	4	290	c.265A>G	c.(265-267)ACG>GCG	p.T89A	MRPL21_uc001ooh.2_Missense_Mutation_p.T4A|MRPL21_uc010rqe.1_Missense_Mutation_p.T89A	NM_181514	NP_852615	Q7Z2W9	RM21_HUMAN	mitochondrial ribosomal protein L21 isoform d	89					translation	mitochondrion|ribosome	RNA binding|structural constituent of ribosome				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TACTGCCCCGTGACGATCATC	0.577													12	153					0	0	1	0	0		C	68664114	C	C	68664114	3	2	199	1	0	0	0	0	1	0	0	0	9805	1696	59	3	368	3	MRPL21	11	68664114	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	462868	68664114	66342402	747	98139											
FGF3	2248	broad.mit.edu	37	chr11	69631101	69631101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gactcaccgaagcatagagtCgtcccctcttgttcatggcc	8	10	9	14	2	3	1	2	0	1	1	5	3	4	1	4	1	1	2	4	1	2	3	rs150581924	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:69631101C>T	uc001oph.2	-	2	802	c.311G>A	c.(310-312)CGA>CAA	p.R104Q		NM_005247	NP_005238	P11487	FGF3_HUMAN	fibroblast growth factor 3 precursor	104					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of cardiac muscle tissue development|positive regulation of cell division|positive regulation of cell proliferation	extracellular region	growth factor activity			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(11;5.05e-15)|STAD - Stomach adenocarcinoma(18;0.0278)			AGCATAGAGTCGTCCCCTCTT	0.597													12	84					0	0	1	0	0		T	69631101	T	T	69631101	3	4	199	1	0	0	0	0	1	0	0	0	5867	884	31	1	416	1	FGF3	11	69631101	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	966987	69631101	65375415	748	98140											
KRTAP5-10	387273	broad.mit.edu	37	chr11	71276692	71276692	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtgggggttgtggctccgGctgtgggggctgtggctccg	0	11	21	9	2	0	0	0	0	0	0	2	0	2	0	2	7	0	5	2	7	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:71276692G>T	uc001oqt.1	+	1	84	c.59G>T	c.(58-60)GGC>GTC	p.G20V		NM_001012710	NP_001012728	Q6L8G5	KR510_HUMAN	keratin associated protein 5-10	20						keratin filament				skin(1)	1						TGTGGCTCCGGCTGTGGGGGC	0.667													12	42					2.80697e-09	3.05061e-09	1	1	0		T	71276692	T	T	71276692	3	4	199	1	0	0	0	0	1	0	0	0	8575	1203	42	5	61	5	KRTAP5-10	11	71276692	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1645591	71276692	63729824	749	98141											
PHOX2A	401	broad.mit.edu	37	chr11	71952170	71952170	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcgagcctcagtgaggtcGatcttgagcgccagctcctc	7	8	12	14	4	2	2	1	2	1	0	5	4	3	2	3	1	3	1	3	1	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:71952170G>A	uc001osh.3	-	2	553	c.381C>T	c.(379-381)ATC>ATT	p.I127I		NM_005169	NP_005160	O14813	PHX2A_HUMAN	paired-like homeobox 2a	127	Homeobox.				noradrenergic neuron differentiation|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CAGTGAGGTCGATCTTGAGCG	0.597													12	44					0	0	1	0	0		A	71952170	A	A	71952170	2	1	199	1	0	0	0	0	0	0	0	1	11877	1048	37	1		1	PHOX2A	11	71952170	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	675478	71952170	63054346	750	98142											
ARHGEF17	9828	broad.mit.edu	37	chr11	73022117	73022117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggggcctggcaccctggggCgtgtggtggacgacaggatt	6	7	19	9	2	0	0	0	0	0	0	0	3	0	2	2	8	0	1	2	8	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:73022117C>T	uc001otu.2	+	1	2455	c.2434C>T	c.(2434-2436)CGT>TGT	p.R812C		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	812					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						CACCCTGGGGCGTGTGGTGGA	0.607													6	63					0	0	1	0	0		T	73022117	T	T	73022117	3	4	199	1	0	0	0	0	1	0	0	0	900	768	27	1	2436	1	ARHGEF17	11	73022117	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1069947	73022117	61984399	751	98143											
P4HA3	283208	broad.mit.edu	37	chr11	73990445	73990445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttaccttttgctgatgCggtactccacttgtaactgc	6	16	7	12	1	1	1	0	1	1	0	2	1	2	1	2	1	6	3	2	1	3	7	rs140613720	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:73990445C>T	uc001ouz.2	-	8	1206	c.1163G>A	c.(1162-1164)CGC>CAC	p.R388H	P4HA3_uc001ouy.3_RNA|P4HA3_uc010rrj.1_Missense_Mutation_p.R388H	NM_182904	NP_878907	Q7Z4N8	P4HA3_HUMAN	prolyl 4-hydroxylase, alpha III subunit	388						endoplasmic reticulum lumen	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			skin(1)	1	Breast(11;2.31e-05)					TTTGCTGATGCGGTACTCCAC	0.527													22	102					0	0	1	0	0		T	73990445	T	T	73990445	3	4	199	1	0	0	0	0	1	0	0	0	11377	768	27	1	495	1	P4HA3	11	73990445	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	968328	73990445	61016071	752	98144											
PGM2L1	283209	broad.mit.edu	37	chr11	74057834	74057834	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggatctgtggctagcactAcccgggcattttctttctct	6	14	9	12	1	3	0	0	0	3	0	4	1	3	1	1	3	2	3	1	3	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:74057834A>G	uc001ovb.1	-	8	1276	c.980T>C	c.(979-981)GTA>GCA	p.V327A		NM_173582	NP_775853	Q6PCE3	PGM2L_HUMAN	phosphoglucomutase 2-like 1	327					glucose 1-phosphate metabolic process	cytosol	glucose-1,6-bisphosphate synthase activity|phosphoglucomutase activity			ovary(1)	1	Breast(11;3.32e-06)					GGCTAGCACTACCCGGGCATT	0.418													32	175					0	0	1	0	0		G	74057834	G	G	74057834	3	3	199	1	0	0	0	0	1	0	0	0	11818	391	14	3	916	3	PGM2L1	11	74057834	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	67389	74057834	60948682	753	98145											
RNF169	254225	broad.mit.edu	37	chr11	74547506	74547506	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agccacttccttctttgcgtCgaggccggaaaagacactgc	9	9	10	13	3	1	1	0	0	1	1	3	3	2	2	3	2	3	0	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:74547506C>T	uc001ovl.3	+	6	1871	c.1858C>T	c.(1858-1860)CGA>TGA	p.R620*	XRRA1_uc001ovm.2_Intron	NM_001098638	NP_001092108	Q8NCN4	RN169_HUMAN	ring finger protein 169	620							zinc ion binding			ovary(1)	1						TTCTTTGCGTCGAGGCCGGAA	0.453													16	44					0	0	1	0	0		T	74547506	T	T	74547506	4	4	199	1	0	0	0	0	0	1	0	0	13485	876	31	1	1880	1	RNF169	11	74547506	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	489672	74547506	60459010	754	98146											
NOX4	50507	broad.mit.edu	37	chr11	89075264	89075264	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagggtgttgagtattgatgCaaatggagttactccaatgc	11	12	12	6	0	0	2	0	2	0	0	1	3	1	3	1	2	3	4	1	2	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:89075264C>A	uc001pct.2	-	14	1554	c.1315G>T	c.(1315-1317)GCA>TCA	p.A439S	NOX4_uc009yvr.2_Missense_Mutation_p.A414S|NOX4_uc001pcu.2_Missense_Mutation_p.A365S|NOX4_uc001pcw.2_Missense_Mutation_p.A132S|NOX4_uc001pcx.2_Intron|NOX4_uc001pcv.2_Intron|NOX4_uc009yvo.2_RNA|NOX4_uc010rtu.1_Missense_Mutation_p.A273S|NOX4_uc009yvp.2_Intron|NOX4_uc010rtv.1_Intron|NOX4_uc009yvq.2_Missense_Mutation_p.A415S	NM_016931	NP_058627	Q9NPH5	NOX4_HUMAN	NADPH oxidase 4 isoform a	439	Helical; (Potential).|Mediates interaction with TLR4.				cell aging|cell morphogenesis|inflammatory response|negative regulation of cell proliferation|superoxide anion generation	endoplasmic reticulum membrane|focal adhesion|integral to membrane|nucleus	electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|nucleotide binding|oxygen sensor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.011)				AGTATTGATGCAAATGGAGTT	0.383													15	63					1.02788e-11	1.12713e-11	1	1	0		A	89075264	A	A	89075264	3	1	199	1	0	0	0	0	1	0	0	0	10577	710	25	5	441	5	NOX4	11	89075264	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	14527758	89075264	45931252	755	98147											
FAT3	120114	broad.mit.edu	37	chr11	92543168	92543168	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgttttcttctgaccactAcaacacctgtgtctatgaga	9	15	7	10	0	3	2	0	2	3	1	3	3	3	2	2	0	2	1	2	0	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:92543168A>G	uc001pdj.3	+	12	9424	c.9407A>G	c.(9406-9408)TAC>TGC	p.Y3136C		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3136	Cadherin 29.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCTGACCACTACAACACCTGT	0.542										TCGA Ovarian(4;0.039)			11	58					0	0	1	0	0		G	92543168	G	G	92543168	3	3	199	1	0	0	0	0	1	0	0	0	5705	391	14	3	9453	3	FAT3	11	92543168	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3467904	92543168	42463348	756	98148											
FAT3	120114	broad.mit.edu	37	chr11	92577840	92577840	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctcatgacctacagcacGgctcgcatcagctttgtgtg	7	10	11	13	3	2	1	2	1	0	0	3	1	2	1	1	1	3	5	1	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:92577840G>A	uc001pdj.3	+	18	11324	c.11307G>A	c.(11305-11307)ACG>ACA	p.T3769T	FAT3_uc001pdi.3_Silent_p.T209T	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3769	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CCTACAGCACGGCTCGCATCA	0.537										TCGA Ovarian(4;0.039)			4	8					0	0	1	0	0		A	92577840	A	A	92577840	2	1	199	1	0	0	0	0	0	0	0	1	5705	1103	39	1		1	FAT3	11	92577840	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	34672	92577840	42428676	757	98149											
FAT3	120114	broad.mit.edu	37	chr11	92590407	92590407	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccggggtccaacgatcCttgtgtggagaagccgtgtc	6	10	15	10	3	0	1	0	0	0	1	4	3	3	1	4	3	2	0	4	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:92590407C>A	uc001pdj.3	+	19	11410	c.11393C>A	c.(11392-11394)CCT>CAT	p.P3798H	FAT3_uc001pdi.3_Missense_Mutation_p.P238H	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3798	EGF-like 1.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TCCAACGATCCTTGTGTGGAG	0.542										TCGA Ovarian(4;0.039)			14	71					4.7546e-09	5.15963e-09	1	1	0		A	92590407	A	A	92590407	3	1	199	1	0	0	0	0	1	0	0	0	5705	681	24	5	11467	5	FAT3	11	92590407	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	12567	92590407	42416109	758	98150											
MTNR1B	4544	broad.mit.edu	37	chr11	92715374	92715374	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctcttggccctttggaacCcacggcactgcattcaagat	8	11	8	14	1	2	1	1	0	1	1	3	2	3	2	3	3	2	2	3	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:92715374C>A	uc001pdk.1	+	2	1088	c.985C>A	c.(985-987)CCA>ACA	p.P329T		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	329	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	CCTTTGGAACCCACGGCACTG	0.552													5	135					0.00198382	0.00202812	1	1	0		A	92715374	A	A	92715374	3	1	199	1	0	0	0	0	1	0	0	0	9970	623	22	5	991	5	MTNR1B	11	92715374	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	124967	92715374	42291142	759	98151											
SLC36A4	120103	broad.mit.edu	37	chr11	92914014	92914014	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaacactacagaatcccagCtgtgttatcaccagaaaaaa	18	8	5	10	0	1	2	1	0	0	2	2	2	2	2	2	0	3	2	2	0	8	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:92914014C>T	uc001pdn.2	-	6	586	c.489G>A	c.(487-489)CAG>CAA	p.Q163Q	SLC36A4_uc001pdm.2_Silent_p.Q28Q	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	163	Helical; (Potential).				L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				AGAATCCCAGCTGTGTTATCA	0.343													14	38					0	0	1	0	0		T	92914014	T	T	92914014	2	4	199	1	0	0	0	0	0	0	0	1	14621	796	28	2		2	SLC36A4	11	92914014	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	198640	92914014	42092502	760	98152											
BIRC3	330	broad.mit.edu	37	chr11	102195592	102195592	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacttttccttcttcagtaAcaaattccacacactcatta	12	15	1	13	0	3	0	2	0	1	0	5	0	5	0	2	0	2	1	2	0	4	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:102195592A>T	uc001pgx.2	+	3	574	c.352A>T	c.(352-354)ACA>TCA	p.T118S		NM_182962	NP_892007	Q13489	BIRC3_HUMAN	baculoviral IAP repeat-containing protein 3	118					anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway	cytoplasm|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|skin(1)	4	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)		TTCTTCAGTAACAAATTCCAC	0.398			T	MALT1	MALT								37	165					0	0	1	0	0		T	102195592	T	T	102195592	3	4	199	1	0	0	0	0	1	0	0	0	1437	43	2	5	354	5	BIRC3	11	102195592	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	9281578	102195592	32810924	761	98153											
ZC3H12C	85463	broad.mit.edu	37	chr11	110030104	110030104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgaagctggcttttgagtCggacggtatcattgtgtcca	7	13	13	8	3	1	2	1	2	0	0	3	3	2	3	1	3	1	3	1	3	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:110030104C>T	uc009yxw.2	+	4	1088	c.1037C>T	c.(1036-1038)TCG>TTG	p.S346L	ZC3H12C_uc010rwc.1_Missense_Mutation_p.S347L|ZC3H12C_uc010rwd.1_Missense_Mutation_p.S347L|ZC3H12C_uc001pkr.3_Missense_Mutation_p.S315L|ZC3H12C_uc001pkq.2_Missense_Mutation_p.S315L	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	346							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		GCTTTTGAGTCGGACGGTATC	0.463													5	24					0	0	1	0	0		T	110030104	T	T	110030104	3	4	199	1	0	0	0	0	1	0	0	0	17588	893	31	1	1051	1	ZC3H12C	11	110030104	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7834512	110030104	24976412	762	98154											
PPP2R1B	5519	broad.mit.edu	37	chr11	111631752	111631752	+	Silent	SNP	A	G	G	1	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	cgaacaacagtctcttccacAgttgccagattttccaaagg	12	10	7	12	1	1	1	0	0	1	1	4	2	3	1	3	1	3	1	3	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:111631752A>G	uc001plx.1	-	4	414	c.330T>C	c.(328-330)ACT>ACC	p.T110T	PPP2R1B_uc001plw.1_Silent_p.T110T|PPP2R1B_uc010rwi.1_Silent_p.T46T|PPP2R1B_uc010rwj.1_Intron|PPP2R1B_uc010rwk.1_Silent_p.T110T|PPP2R1B_uc010rwl.1_Intron	NM_002716	NP_002707	P30154	2AAB_HUMAN	beta isoform of regulatory subunit A, protein	110	HEAT 3.						protein binding				0		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)		TCTCTTCCACAGTTGCCAGAT	0.423													6	27					0	0	1	0	0		G	111631752	G	G	111631752	2	3	199	1	0	0	0	0	0	0	0	1	12405	175	7	3		3	PPP2R1B	11	111631752	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1601648	111631752	23374764	763	98155											
TTC12	54970	broad.mit.edu	37	chr11	113215077	113215077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccaaggtcctggccatcCggcagcagagctttgccctg	6	8	11	16	1	0	1	0	0	0	1	3	1	3	1	6	3	3	3	6	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:113215077C>T	uc001pnu.2	+	13	1174	c.1069C>T	c.(1069-1071)CGG>TGG	p.R357W	TTC12_uc001pnv.2_Missense_Mutation_p.R363W|TTC12_uc001pnw.2_RNA|TTC12_uc001pnx.2_Missense_Mutation_p.R207W	NM_017868	NP_060338	Q9H892	TTC12_HUMAN	tetratricopeptide repeat domain 12	357							binding			pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4		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)		CCTGGCCATCCGGCAGCAGAG	0.592													30	99					0	0	1	0	0		T	113215077	T	T	113215077	3	4	199	1	0	0	0	0	1	0	0	0	16705	643	23	1	1115	1	TTC12	11	113215077	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1583325	113215077	21791439	764	98156											
ZW10	9183	broad.mit.edu	37	chr11	113610003	113610003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacaaagaatgggggcaagaCgcaatctgaactgatgcccg	14	5	12	10	2	1	4	0	2	1	2	1	4	1	4	1	2	2	2	1	2	5	0	rs61762985	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:113610003C>T	uc001poe.2	-	12	1722	c.1685G>A	c.(1684-1686)CGT>CAT	p.R562H	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	562					cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		GGGGGCAAGACGCAATCTGAA	0.453													20	79					0	0	1	0	0		T	113610003	T	T	113610003	3	4	199	1	0	0	0	0	1	0	0	0	18272	536	19	1	674	1	ZW10	11	113610003	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	394926	113610003	21396513	765	98157											
ZBTB16	7704	broad.mit.edu	37	chr11	113934110	113934110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggccaaccagatgcggctgGccgggactttgtgcgatgtg	7	8	16	10	3	0	1	0	0	0	1	0	3	0	2	3	4	3	1	3	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:113934110G>A	uc001pop.2	+	2	352	c.88G>A	c.(88-90)GCC>ACC	p.A30T	ZBTB16_uc001poo.1_Missense_Mutation_p.A30T|ZBTB16_uc001poq.2_Missense_Mutation_p.A30T	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	30					apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		GATGCGGCTGGCCGGGACTTT	0.597													13	49					0	0	1	0	0		A	113934110	A	A	113934110	3	1	199	1	0	0	0	0	1	0	0	0	17551	1203	42	2	90	2	ZBTB16	11	113934110	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	324107	113934110	21072406	766	98158											
ZBTB16	7704	broad.mit.edu	37	chr11	114113008	114113008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatctgcagtgagtgcaacCgcaccttccccagccacacg	10	6	8	17	2	1	1	0	1	1	0	2	1	2	1	5	0	4	3	5	0	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:114113008C>T	uc001pop.2	+	5	1837	c.1573C>T	c.(1573-1575)CGC>TGC	p.R525C	ZBTB16_uc001poq.2_Missense_Mutation_p.R525C	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	525	C2H2-type 5.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|zinc ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)		TGAGTGCAACCGCACCTTCCC	0.632													10	30					0	0	1	0	0		T	114113008	T	T	114113008	3	4	199	1	0	0	0	0	1	0	0	0	17551	652	23	1	1587	1	ZBTB16	11	114113008	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	178898	114113008	20893508	767	98159											
SIDT2	51092	broad.mit.edu	37	chr11	117063305	117063305	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagactcggggatcttccGccgcatcctccacgtgctct	5	9	10	17	5	2	1	0	0	2	1	6	2	5	2	4	2	1	3	4	2	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:117063305G>A	uc001pqh.1	+	21	2038	c.1997G>A	c.(1996-1998)CGC>CAC	p.R666H	SIDT2_uc010rxe.1_Missense_Mutation_p.R666H|SIDT2_uc001pqg.2_Missense_Mutation_p.R687H|SIDT2_uc001pqi.1_Missense_Mutation_p.R663H|SIDT2_uc001pqj.1_5'UTR	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	666	Extracellular (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		GGGATCTTCCGCCGCATCCTC	0.642													22	78					0	0	1	0	0		A	117063305	A	A	117063305	3	1	199	1	0	0	0	0	1	0	0	0	14328	1087	38	1	2079	1	SIDT2	11	117063305	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2950297	117063305	17943211	768	98160											
DSCAML1	57453	broad.mit.edu	37	chr11	117303115	117303115	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgatgaggggtcctgtgctcTggatgagggttgggtggtgc	4	11	20	6	1	1	2	0	2	1	0	2	4	2	3	1	6	2	2	1	6	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:117303115T>C	uc001prh.1	-	30	5314	c.5312A>G	c.(5311-5313)CAG>CGG	p.Q1771R		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1711	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TCCTGTGCTCTGGATGAGGGT	0.587													5	33					0	0	1	0	0		C	117303115	C	C	117303115	3	2	199	1	0	0	0	0	1	0	0	0	4775	1580	55	3	1045	3	DSCAML1	11	117303115	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	239810	117303115	17703401	769	98161											
DSCAML1	57453	broad.mit.edu	37	chr11	117403212	117403212	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagagatgtacagcccgccGtggtaggtaataaaaaacct	14	8	10	9	2	1	1	1	0	0	1	1	2	1	1	3	2	3	3	3	2	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:117403212G>A	uc001prh.1	-	4	719	c.717C>T	c.(715-717)CAC>CAT	p.H239H	DSCAML1_uc001pri.1_Silent_p.H43H	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	179	Extracellular (Potential).|Ig-like C2-type 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		ACAGCCCGCCGTGGTAGGTAA	0.537													10	55					0	0	1	0	0		A	117403212	A	A	117403212	2	1	199	1	0	0	0	0	0	0	0	1	4775	1136	40	1		1	DSCAML1	11	117403212	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	100097	117403212	17603304	770	98162											
UBE4A	9354	broad.mit.edu	37	chr11	118263589	118263589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtcactgtggatagatccaCcattgcaagacatttgctca	12	11	8	10	0	2	2	2	0	0	2	3	3	3	3	2	1	2	2	2	1	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:118263589C>T	uc001psw.2	+	19	3182	c.3053C>T	c.(3052-3054)ACC>ATC	p.T1018I	UBE4A_uc001psv.2_Missense_Mutation_p.T1025I	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	1018	U-box.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		GATAGATCCACCATTGCAAGA	0.453													24	87					0	0	1	0	0		T	118263589	T	T	118263589	3	4	199	1	0	0	0	0	1	0	0	0	16908	507	18	4	3144	4	UBE4A	11	118263589	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	860377	118263589	16742927	771	98163											
MLL	4297	broad.mit.edu	37	chr11	118361992	118361992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaatgtggaaagtgtgatcGctgggtccattccaaatgtg	10	11	13	7	1	0	1	0	1	0	0	3	2	2	2	2	2	0	2	2	2	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:118361992G>A	uc001pta.2	+	14	4801	c.4778G>A	c.(4777-4779)CGC>CAC	p.R1593H	MLL_uc001ptb.2_Missense_Mutation_p.R1593H|MLL_uc001pte.1_RNA	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1593	PHD-type 3.				apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AAGTGTGATCGCTGGGTCCAT	0.383			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								14	121					0	0	1	0	0		A	118361992	A	A	118361992	3	1	199	1	0	0	0	0	1	0	0	0	9638	1087	38	1	4832	1	MLL	11	118361992	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	98403	118361992	16644524	772	98164											
TTC36	143941	broad.mit.edu	37	chr11	118398293	118398293	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacattgttggattggacctCggagaggaagcagaaaagga	14	7	15	5	1	0	2	0	0	0	2	1	8	0	6	1	5	1	2	1	5	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:118398293C>T	uc001ptg.1	+	1	84	c.84C>T	c.(82-84)CTC>CTT	p.L28L	TTC36_uc010ryb.1_RNA|TTC36_uc010ryc.1_5'UTR	NM_001080441	NP_001073910	A6NLP5	TTC36_HUMAN	tetratricopeptide repeat domain 36	28							binding				0						GATTGGACCTCGGAGAGGAAG	0.532													41	201					0	0	1	0	0		T	118398293	T	T	118398293	2	4	199	1	0	0	0	0	0	0	0	1	16730	871	31	1		1	TTC36	11	118398293	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	36301	118398293	16608223	773	98165											
DDX6	1656	broad.mit.edu	37	chr11	118625487	118625487	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaggctcttatcaatgttGctcggaataggtttaatttc	10	16	8	7	1	2	0	1	0	1	0	4	1	2	1	0	3	2	4	0	3	6	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:118625487G>A	uc001pub.2	-	13	1747	c.1386C>T	c.(1384-1386)AGC>AGT	p.S462S	DDX6_uc001pua.2_Silent_p.S162S|DDX6_uc001puc.2_Silent_p.S462S	NM_004397	NP_004388	P26196	DDX6_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 6	462	Helicase C-terminal.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay	cytoplasmic mRNA processing body|cytosol|RNA-induced silencing complex|stress granule	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding|RNA helicase activity			ovary(1)	1	all_hematologic(175;0.0839)	Renal(330;0.0183)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)|Hepatocellular(160;0.0893)|Breast(348;0.0979)|all_hematologic(192;0.103)		OV - Ovarian serous cystadenocarcinoma(223;3.39e-06)|BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Colorectal(284;0.0377)		TATCAATGTTGCTCGGAATAG	0.438			T	IGH@	B-NHL								12	82					0	0	1	0	0		A	118625487	A	A	118625487	2	1	199	1	0	0	0	0	0	0	0	1	4380	1310	46	2		2	DDX6	11	118625487	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	227194	118625487	16381029	774	98166											
HMBS	3145	broad.mit.edu	37	chr11	118963986	118963986	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcacggcagcttaacgatgCccattaactggtttgtgggg	8	11	13	9	2	0	0	0	0	0	0	0	1	0	0	1	4	5	4	1	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:118963986C>T	uc001puz.1	+	14	1236	c.1079C>T	c.(1078-1080)GCC>GTC	p.A360V	HMBS_uc001pvc.1_Missense_Mutation_p.A305V|HMBS_uc009zap.1_Missense_Mutation_p.A343V|HMBS_uc001pva.1_Missense_Mutation_p.A320V|HMBS_uc001pvb.1_Missense_Mutation_p.A329V|HMBS_uc001pvd.1_Missense_Mutation_p.A343V|HMBS_uc001pve.1_Missense_Mutation_p.A303V|HMBS_uc001pvf.1_Missense_Mutation_p.A343V	NM_000190	NP_000181	P08397	HEM3_HUMAN	hydroxymethylbilane synthase isoform 1	360					peptidyl-pyrromethane cofactor linkage	cytosol	hydroxymethylbilane synthase activity				0	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.72e-05)		CTTAACGATGCCCATTAACTG	0.567									Porphyria_Acute_Intermittent				6	22					0	0	1	0	0		T	118963986	T	T	118963986	3	4	199	1	0	0	0	0	1	0	0	0	7235	739	26	2	1133	2	HMBS	11	118963986	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	338499	118963986	16042530	775	98167											
DPAGT1	1798	broad.mit.edu	37	chr11	118967888	118967888	+	Silent	SNP	A	G	G	1	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	agcaatgtgaggtttctctcAtgtatgggcccaaggacttt	9	13	11	8	0	2	1	1	1	1	0	3	2	2	2	1	3	1	3	1	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:118967888A>G	uc001pvi.2	-	8	1545	c.1125T>C	c.(1123-1125)CAT>CAC	p.H375H	H2AFX_uc001pvg.2_5'Flank|H2AFX_uc001pvh.1_5'Flank|DPAGT1_uc001pvj.2_Silent_p.H268H|DPAGT1_uc009zaq.2_RNA|DPAGT1_uc001pvk.2_Silent_p.H203H|DPAGT1_uc010ryz.1_Silent_p.H375H|DPAGT1_uc001pvm.1_3'UTR|DPAGT1_uc010rza.1_Silent_p.H268H	NM_001382	NP_001373	Q9H3H5	GPT_HUMAN	UDP-N-acetylglucosamine-dolichyl-phosphate	375	Cytoplasmic (Potential).				dolichol biosynthetic process|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|protein oligomerization	integral to endoplasmic reticulum membrane|microsome	phospho-N-acetylmuramoyl-pentapeptide-transferase activity|transferase activity, transferring glycosyl groups|UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity			breast(2)|ovary(1)	3	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)		GGTTTCTCTCATGTATGGGCC	0.478													38	153					0	0	1	0	0		G	118967888	G	G	118967888	2	3	199	1	0	0	0	0	0	0	0	1	4716	214	8	3		3	DPAGT1	11	118967888	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3902	118967888	16038628	776	98168											
NLRX1	79671	broad.mit.edu	37	chr11	119052858	119052858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccgtgctaatggaggggctgGcaggaaacacctcagtgacg	10	6	15	10	2	1	1	1	1	0	0	1	3	1	3	2	5	2	3	2	5	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:119052858G>A	uc001pvu.2	+	9	2625	c.2410G>A	c.(2410-2412)GCA>ACA	p.A804T	NLRX1_uc001pvv.2_Missense_Mutation_p.A804T|NLRX1_uc001pvw.2_Missense_Mutation_p.A804T|NLRX1_uc001pvx.2_Missense_Mutation_p.A804T	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	804	Required for the repression of MAVS- induced interferon signaling.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		GGAGGGGCTGGCAGGAAACAC	0.637													29	102					0	0	1	0	0		A	119052858	A	A	119052858	3	1	199	1	0	0	0	0	1	0	0	0	10504	1203	42	2	2440	2	NLRX1	11	119052858	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	84970	119052858	15953658	777	98169											
TECTA	7007	broad.mit.edu	37	chr11	121023678	121023678	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccgcctgaagagtgactgCagccactactgcgtggaggg	9	7	14	11	2	0	3	0	2	0	1	1	4	1	4	3	2	4	1	3	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:121023678C>T	uc010rzo.1	+	12	4194	c.4194C>T	c.(4192-4194)TGC>TGT	p.C1398C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1398	TIL 3.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AGAGTGACTGCAGCCACTACT	0.632													13	54					0	0	1	0	0		T	121023678	T	T	121023678	2	4	199	1	0	0	0	0	0	0	0	1	15772	718	25	2		2	TECTA	11	121023678	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1970820	121023678	13982838	778	98170											
TMEM218	219854	broad.mit.edu	37	chr11	124971177	124971177	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgatgatcacagcaccgaAgaataaaaaaatgacagaga	20	6	9	6	1	1	5	1	3	0	2	1	7	1	5	1	0	1	1	1	0	6	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:124971177A>C	uc001qbs.2	-	3	785	c.133T>G	c.(133-135)TTC>GTC	p.F45V	TMEM218_uc001qbr.2_Missense_Mutation_p.F71V|TMEM218_uc010saw.1_Missense_Mutation_p.F80V|TMEM218_uc010sax.1_Missense_Mutation_p.F45V|TMEM218_uc001qbt.2_Missense_Mutation_p.F80V|TMEM218_uc010say.1_Intron	NM_001080546	NP_001074015	A2RU14	TM218_HUMAN	transmembrane protein 218	45	Helical; (Potential).					integral to membrane					0						ACAGCACCGAAGAATAAAAAA	0.408													7	35					0	0	1	0	0		C	124971177	C	C	124971177	3	2	199	1	0	0	0	0	1	0	0	0	16166	72	3	5	222	5	TMEM218	11	124971177	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3947499	124971177	10035339	779	98171											
SRPR	6734	broad.mit.edu	37	chr11	126137546	126137546	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacttgtcccgaaacagcCgatgcacgtcatctatcaat	11	10	8	12	3	3	0	2	0	1	0	4	2	4	0	2	1	4	2	2	1	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:126137546C>T	uc001qdh.2	-	3	314	c.263G>A	c.(262-264)CGG>CAG	p.R88Q	SRPR_uc010sbm.1_Missense_Mutation_p.R60Q|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	88					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		CCGAAACAGCCGATGCACGTC	0.423													10	59					0	0	1	0	0		T	126137546	T	T	126137546	3	4	199	1	0	0	0	0	1	0	0	0	15187	652	23	1	1701	1	SRPR	11	126137546	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1166369	126137546	8868970	780	98172											
KCNJ5	3762	broad.mit.edu	37	chr11	128781757	128781757	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tcagccagcccaagaagagaGcggagaccctcatgttttcc	11	7	10	13	1	2	3	2	0	0	3	3	5	3	3	4	1	3	1	4	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr11:128781757G>A	uc001qet.2	+	2	903	c.589G>A	c.(589-591)GCG>ACG	p.A197T	KCNJ5_uc009zck.2_Missense_Mutation_p.A197T|KCNJ5_uc001qew.2_Missense_Mutation_p.A197T	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	197	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	CAAGAAGAGAGCGGAGACCCT	0.567													11	118					0	0	1	0	0		A	128781757	A	A	128781757	3	1	199	1	0	0	0	0	1	0	0	0	8070	971	34	2	591	2	KCNJ5	11	128781757	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2644211	128781757	6224759	781	98173											
SLC6A12	6539	broad.mit.edu	37	chr12	302470	302470	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtccaggggtcaggaagagCcaggagatcttcaccagggg	11	5	16	9	0	3	2	2	0	1	2	4	4	4	3	3	6	1	0	3	6	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:302470C>A	uc001qhz.2	-	15	2046	c.1503G>T	c.(1501-1503)TGG>TGT	p.W501C	SLC6A12_uc001qhx.2_Missense_Mutation_p.W158C|SLC6A12_uc001qhy.2_Missense_Mutation_p.W57C|SLC6A12_uc001qia.2_Missense_Mutation_p.W501C|SLC6A12_uc001qib.2_Missense_Mutation_p.W501C|SLC6A12_uc009zdh.1_Missense_Mutation_p.W501C	NM_003044	NP_003035	P48065	S6A12_HUMAN	solute carrier family 6 (neurotransmitter	501	Helical; Name=11; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	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)			TCAGGAAGAGCCAGGAGATCT	0.587													4	107					0.000602214	0.000619553	1	1	0		A	302470	A	A	302470	3	1	199	1	0	0	0	0	1	0	0	0	14700	740	26	5	353	5	SLC6A12	12	302470	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08		302470	133549425	782	98174											
TULP3	7289	broad.mit.edu	37	chr12	3018723	3018723	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaagaaatgatgaagatgCgacaggctaagctggattat	16	9	12	4	1	0	5	0	3	0	2	0	7	0	6	0	2	2	2	0	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:3018723C>T	uc010seh.1	+	2	151	c.70C>T	c.(70-72)CGA>TGA	p.R24*	TULP3_uc010sef.1_RNA|TULP3_uc009zec.1_5'UTR|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Nonsense_Mutation_p.R24*|TULP3_uc010sei.1_5'UTR	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	24					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GATGAAGATGCGACAGGCTAA	0.373													24	88					0	0	1	0	0		T	3018723	T	T	3018723	4	4	199	1	0	0	0	0	0	1	0	0	16801	760	27	1	76	1	TULP3	12	3018723	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2716253	3018723	130833172	783	98175											
TEAD4	7004	broad.mit.edu	37	chr12	3129845	3129845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccatcgccctctgcgccccCggcacccccatggcagggcc	4	4	10	23	3	1	0	0	0	1	0	2	0	1	0	7	3	1	2	7	3	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:3129845C>T	uc010sej.1	+	9	903	c.626C>T	c.(625-627)CCG>CTG	p.P209L	TEAD4_uc010sek.1_Missense_Mutation_p.P166L|TEAD4_uc001qln.2_Missense_Mutation_p.P81L	NM_003213	NP_003204	Q15561	TEAD4_HUMAN	TEA domain family member 4 isoform 1	210					hippo signaling cascade|muscle organ development|skeletal system development		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(42;0.211)		OV - Ovarian serous cystadenocarcinoma(31;0.000563)|COAD - Colon adenocarcinoma(12;0.0831)			TCTGCGCCCCCGGCACCCCCA	0.667													11	42					0	0	1	0	0		T	3129845	T	T	3129845	3	4	199	1	0	0	0	0	1	0	0	0	15766	652	23	1	655	1	TEAD4	12	3129845	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	111122	3129845	130722050	784	98176											
KCNA5	3741	broad.mit.edu	37	chr12	5153795	5153795	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctacttcgaccccctgaggaAcgagtacttcttcgaccgca	9	9	8	15	4	1	1	0	1	1	0	3	5	1	2	3	1	3	2	3	1	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:5153795A>G	uc001qni.2	+	1	711	c.482A>G	c.(481-483)AAC>AGC	p.N161S		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	161						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						CCCCTGAGGAACGAGTACTTC	0.667													17	65					0	0	1	0	0		G	5153795	G	G	5153795	3	3	199	1	0	0	0	0	1	0	0	0	8022	43	2	3	484	3	KCNA5	12	5153795	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2023950	5153795	128698100	785	98177											
CD9	928	broad.mit.edu	37	chr12	6344406	6344406	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccattgtaggtgattaaggaAgtccaggagttttacaagga	13	11	12	5	0	0	1	0	1	0	0	1	4	1	4	2	4	1	2	2	4	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:6344406A>C	uc001qnp.1	+	6	804	c.360A>C	c.(358-360)GAA>GAC	p.E120D	CD9_uc010sev.1_Missense_Mutation_p.E120D|CD9_uc001qnq.1_Missense_Mutation_p.E120D	NM_001769	NP_001760	P21926	CD9_HUMAN	CD9 antigen	120	Extracellular (Potential).				cell adhesion|cellular component movement|fusion of sperm to egg plasma membrane|paranodal junction assembly|platelet activation|platelet degranulation	integral to plasma membrane|platelet alpha granule membrane				ovary(1)	1						TGATTAAGGAAGTCCAGGAGT	0.493													31	147					0	0	1	0	0		C	6344406	C	C	6344406	3	2	199	1	0	0	0	0	1	0	0	0	3049	69	3	5	378	5	CD9	12	6344406	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1190611	6344406	127507489	786	98178											
TNFRSF1A	7132	broad.mit.edu	37	chr12	6439448	6439448	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcacctctttttcaggtgtCgatttcccacaaactgagga	9	13	7	12	1	3	1	2	1	1	0	5	3	4	2	2	2	1	0	2	2	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:6439448C>T	uc001qnu.2	-	8	1034	c.753G>A	c.(751-753)TCG>TCA	p.S251S	TNFRSF1A_uc001qnt.2_Silent_p.S143S|TNFRSF1A_uc010sey.1_Silent_p.S19S|TNFRSF1A_uc010sez.1_Silent_p.S143S|TNFRSF1A_uc009zek.2_Silent_p.S208S	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	251	Cytoplasmic (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						TTTCAGGTGTCGATTTCCCAC	0.463													27	106					0	0	1	0	0		T	6439448	T	T	6439448	2	4	199	1	0	0	0	0	0	0	0	1	16318	871	31	1		1	TNFRSF1A	12	6439448	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	95042	6439448	127412447	787	98179											
DPPA3	359787	broad.mit.edu	37	chr12	7867781	7867781	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttaaccttctctttcagggGcctctcaaatctcctccgag	7	14	6	14	1	4	0	2	0	3	0	8	1	5	0	4	2	1	0	4	2	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:7867781G>A	uc001qtf.2	+	2	163	c.85G>A	c.(85-87)GCC>ACC	p.A29T		NM_199286	NP_954980	Q6W0C5	DPPA3_HUMAN	stella	29						cytoplasm|nucleus					0				Kidney(36;0.0887)		TCTTTCAGGGGCCTCTCAAAT	0.468													18	122					0	0	1	0	0		A	7867781	A	A	7867781	3	1	199	1	0	0	0	0	1	0	0	0	4741	1203	42	2	91	2	DPPA3	12	7867781	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1428333	7867781	125984114	788	98180											
A2ML1	144568	broad.mit.edu	37	chr12	8995753	8995753	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtttcaaatggaagacttAgtatataatccggaacaagt	17	11	8	5	1	1	1	1	0	0	1	2	3	2	3	1	2	1	2	1	2	9	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:8995753A>G	uc001quz.3	+	12	1370	c.1272A>G	c.(1270-1272)TTA>TTG	p.L424L	A2ML1_uc001qva.1_Silent_p.L4L|A2ML1_uc010sgm.1_5'Flank	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	268						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TGGAAGACTTAGTATATAATC	0.473													14	60					0	0	1	0	0		G	8995753	G	G	8995753	2	3	199	1	0	0	0	0	0	0	0	1	5	417	15	3		3	A2ML1	12	8995753	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1127972	8995753	124856142	789	98181											
PHC1	1911	broad.mit.edu	37	chr12	9091935	9091935	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaggaatttcgctcacaGgagattgatggacaggccct	11	8	13	9	1	1	3	1	1	0	2	2	6	1	5	1	4	0	2	1	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:9091935G>T	uc001qvd.2	+	15	3051	c.2895G>T	c.(2893-2895)CAG>CAT	p.Q965H	PHC1_uc001qve.2_Missense_Mutation_p.Q965H	NM_004426	NP_004417	P78364	PHC1_HUMAN	polyhomeotic 1-like	965	SAM.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						TTCGCTCACAGGAGATTGATG	0.443													8	63					0.0381472	0.0385153	1	1	0		T	9091935	T	T	9091935	3	4	199	1	0	0	0	0	1	0	0	0	11835	991	35	5	2949	5	PHC1	12	9091935	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	96182	9091935	124759960	790	98182											
STYK1	55359	broad.mit.edu	37	chr12	10777340	10777340	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtagaggagatggcccctCgggtgtaaacttcataagcc	11	8	13	9	1	1	2	1	0	0	2	2	4	1	2	3	3	2	2	3	3	4	4	rs147511596		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:10777340C>T	uc001qys.2	-	8	1357	c.836G>A	c.(835-837)CGA>CAA	p.R279Q		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	279	Protein kinase.					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						GATGGCCCCTCGGGTGTAAAC	0.502										HNSCC(73;0.22)			28	159					0	0	1	0	0		T	10777340	T	T	10777340	3	4	199	1	0	0	0	0	1	0	0	0	15384	884	31	1	448	1	STYK1	12	10777340	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1685405	10777340	123074555	791	98183											
TAS2R31	259290	broad.mit.edu	37	chr12	11183740	11183740	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaacacagttgaataccaAtttaataataatacccagag	19	11	4	7	0	0	2	0	1	0	1	0	2	0	2	2	0	3	1	2	0	9	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:11183740A>G	uc001qzo.1	-	1	267	c.195T>C	c.(193-195)AAT>AAC	p.N65N	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176885	NP_795366	P59538	T2R31_HUMAN	taste receptor, type 2, member 31	65	Helical; Name=2; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						TTGAATACCAATTTAATAATA	0.423													5	102					0	0	1	0	0		G	11183740	G	G	11183740	2	3	199	1	0	0	0	0	0	0	0	1	15599	98	4	3		3	TAS2R31	12	11183740	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	406400	11183740	122668155	792	98184											
GRIN2B	2904	broad.mit.edu	37	chr12	13716608	13716608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtaccccgctgaccacGccgtgtttgtcgcccgtccc	4	8	11	18	5	0	1	0	1	0	0	2	1	1	1	6	1	1	4	6	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:13716608G>A	uc001rbt.2	-	13	3743	c.3564C>T	c.(3562-3564)GGC>GGT	p.G1188G		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	1188	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CGCTGACCACGCCGTGTTTGT	0.627													26	116					0	0	1	0	0		A	13716608	A	A	13716608	2	1	199	1	0	0	0	0	0	0	0	1	6796	1074	38	1		1	GRIN2B	12	13716608	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2532868	13716608	120135287	793	98185											
GRIN2B	2904	broad.mit.edu	37	chr12	13717418	13717418	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaagtccagggcgctctgCggtgagccattcacaccaga	10	7	12	12	2	2	3	1	2	1	1	3	3	3	3	3	2	2	1	3	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:13717418C>T	uc001rbt.2	-	13	2933	c.2754G>A	c.(2752-2754)CCG>CCA	p.P918P		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	918	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGGCGCTCTGCGGTGAGCCAT	0.572													36	183					0	0	1	0	0		T	13717418	T	T	13717418	2	4	199	1	0	0	0	0	0	0	0	1	6796	755	27	1		1	GRIN2B	12	13717418	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	810	13717418	120134477	794	98186											
GOLT1B	51026	broad.mit.edu	37	chr12	21665287	21665287	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagtccttggatccctcCtaaatttacctggaattaga	10	13	7	11	0	0	1	0	0	0	1	3	3	3	3	5	2	2	0	5	2	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:21665287C>T	uc001rez.2	+	4	514	c.355C>T	c.(355-357)CTA>TTA	p.L119L	GOLT1B_uc009zis.2_RNA|GOLT1B_uc009zit.2_RNA|GOLT1B_uc009ziu.2_RNA	NM_016072	NP_057156	Q9Y3E0	GOT1B_HUMAN	golgi transport 1 homolog B	119	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade|protein transport|vesicle-mediated transport	endoplasmic reticulum|Golgi membrane|integral to membrane	signal transducer activity				0						TGGATCCCTCCTAAATTTACC	0.343													16	106					0	0	1	0	0		T	21665287	T	T	21665287	2	4	199	1	0	0	0	0	0	0	0	1	6586	680	24	4		4	GOLT1B	12	21665287	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7947869	21665287	112186608	795	98187											
GYS2	2998	broad.mit.edu	37	chr12	21721851	21721851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attgctgttatttcagaaacCgtggtgaacacgtgagcgca	11	11	11	8	3	1	3	1	2	0	1	1	3	1	3	1	1	4	3	1	1	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:21721851C>T	uc001rfb.2	-	5	1026	c.771G>A	c.(769-771)ACG>ACA	p.T257T		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	257					glucose metabolic process|glycogen biosynthetic process|response to glucose stimulus	cortical actin cytoskeleton|cytosol|ectoplasm|insoluble fraction|soluble fraction	glycogen (starch) synthase activity|protein homodimerization activity			lung(1)|skin(1)	2						TTTCAGAAACCGTGGTGAACA	0.438													18	96					0	0	1	0	0		T	21721851	T	T	21721851	2	4	199	1	0	0	0	0	0	0	0	1	6929	639	23	1		1	GYS2	12	21721851	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	56564	21721851	112130044	796	98188											
KIAA0528	9847	broad.mit.edu	37	chr12	22677508	22677508	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcattgaccacaagttCttctacaaatccatgaatta	13	14	4	10	0	4	2	1	2	3	0	5	2	5	2	2	0	1	1	2	0	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:22677508C>A	uc001rfq.2	-	6	727	c.499G>T	c.(499-501)GAA>TAA	p.E167*	KIAA0528_uc010sir.1_5'UTR|KIAA0528_uc010sis.1_Nonsense_Mutation_p.E167*|KIAA0528_uc010sit.1_Nonsense_Mutation_p.E167*|KIAA0528_uc010siu.1_Nonsense_Mutation_p.E167*|KIAA0528_uc001rfr.2_Nonsense_Mutation_p.E167*|KIAA0528_uc009ziy.1_Nonsense_Mutation_p.E167*	NM_014802	NP_055617	Q86YS7	K0528_HUMAN	hypothetical protein LOC9847	167							protein binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						ACCACAAGTTCTTCTACAAAT	0.373													11	48					1.08611e-07	1.16142e-07	1	1	0		A	22677508	A	A	22677508	4	1	199	1	0	0	0	0	0	1	0	0	8198	922	32	5	2583	5	KIAA0528	12	22677508	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	955657	22677508	111174387	797	98189											
PPHLN1	51535	broad.mit.edu	37	chr12	42745792	42745792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acagtcatgttgattaccgaGactatgacgagggccgcagt	11	9	12	9	3	1	3	1	2	0	1	1	5	1	3	2	1	1	2	2	1	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:42745792G>A	uc001rng.1	+	3	283	c.178G>A	c.(178-180)GAC>AAC	p.D60N	PPHLN1_uc001rmy.2_Missense_Mutation_p.D78N|PPHLN1_uc001rna.2_Intron|PPHLN1_uc001rne.2_Missense_Mutation_p.D67N|PPHLN1_uc001rnb.2_Missense_Mutation_p.D67N|PPHLN1_uc001rnd.2_Intron|PPHLN1_uc001rnc.2_Missense_Mutation_p.D60N|PPHLN1_uc001rnf.2_Missense_Mutation_p.D60N|PPHLN1_uc010skq.1_Intron|PPHLN1_uc010skr.1_Intron|PPHLN1_uc010sks.1_Intron|PPHLN1_uc010skt.1_Intron|PPHLN1_uc001rni.1_Intron|PPHLN1_uc001rnh.1_Intron|PPHLN1_uc010sku.1_Intron	NM_016488	NP_057572	Q8NEY8	PPHLN_HUMAN	periphilin 1 isoform 1	60					keratinization	cytoplasm|nucleus				ovary(1)|breast(1)	2	all_cancers(12;0.00049)|Breast(8;0.165)	Lung NSC(34;0.123)		GBM - Glioblastoma multiforme(48;0.0875)		TGATTACCGAGACTATGACGA	0.403													9	49					0	0	1	0	0		A	42745792	A	A	42745792	3	1	199	1	0	0	0	0	1	0	0	0	12334	942	33	4	209	4	PPHLN1	12	42745792	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	20068284	42745792	91106103	798	98190											
ARID2	196528	broad.mit.edu	37	chr12	46287412	46287412	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttttcctttctttttaaGgatgaaaaagagggaccaat	12	17	7	5	0	1	2	0	1	1	1	2	4	2	4	2	2	0	0	2	2	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:46287412G>T	uc001ros.1	+	20	5272	c.5272_splice	c.e20-1	p.D1758_splice	ARID2_uc001ror.2_Splice_Site_p.D1758_splice|ARID2_uc009zkg.1_Splice_Site_p.D1214_splice|ARID2_uc009zkh.1_Splice_Site_p.D1385_splice|ARID2_uc001rou.1_Splice_Site_p.D1092_splice	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)						chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		TTCTTTTTAAGGATGAAAAAG	0.328													17	54					1.45105e-14	1.6068e-14	1	1	0		T	46287412	T	T	46287412	5	4	199	1	0	0	0	0	0	0	1	0	915	1014	35	5	5349	5	ARID2	12	46287412	Splice_Site	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3541620	46287412	87564483	799	98191											
ENDOU	8909	broad.mit.edu	37	chr12	48110149	48110149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgatctctctgaggaaggCgtcctgctcggccagctcct	6	10	11	14	2	2	2	0	2	2	0	6	3	4	3	3	3	2	2	3	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:48110149C>T	uc001rpu.1	-	6	839	c.685G>A	c.(685-687)GCC>ACC	p.A229T	ENDOU_uc010sll.1_5'UTR|ENDOU_uc001rpt.1_Missense_Mutation_p.A188T|ENDOU_uc010slm.1_Missense_Mutation_p.A166T|uc001rpv.2_5'Flank	NM_006025	NP_006016	P21128	ENDOU_HUMAN	placental protein 11 precursor	229					female pregnancy|immune response|proteolysis	cytoplasm|extracellular space|plasma membrane	endoribonuclease activity|growth factor activity|manganese ion binding|polysaccharide binding|RNA binding|scavenger receptor activity|serine-type peptidase activity			ovary(2)|pancreas(1)	3						CTGAGGAAGGCGTCCTGCTCG	0.587											OREG0021752	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	49					0	0	1	0	0		T	48110149	T	T	48110149	3	4	199	1	0	0	0	0	1	0	0	0	5124	768	27	1	567	1	ENDOU	12	48110149	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1822737	48110149	85741746	800	98192											
COL2A1	1280	broad.mit.edu	37	chr12	48376306	48376306	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtcgcctttgggcccagcGataccagctgctcccctctc	4	10	9	18	2	1	0	0	0	1	0	4	1	2	0	5	1	4	2	5	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:48376306G>A	uc001rqu.2	-	34	2461	c.2280C>T	c.(2278-2280)ATC>ATT	p.I760I	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Silent_p.I691I	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	760	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	TGGGCCCAGCGATACCAGCTG	0.632													6	21					0	0	1	0	0		A	48376306	A	A	48376306	2	1	199	1	0	0	0	0	0	0	0	1	3690	1048	37	1		1	COL2A1	12	48376306	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	266157	48376306	85475589	801	98193											
CCNT1	904	broad.mit.edu	37	chr12	49087737	49087737	+	Silent	SNP	A	G	G	1	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	gaaaggagattctgggcagcAtatgcatattgtgacttcac	12	11	11	7	0	2	2	1	1	1	1	2	4	2	2	0	2	2	3	0	2	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:49087737A>G	uc001rse.1	-	9	1583	c.1260T>C	c.(1258-1260)TAT>TAC	p.Y420Y	LOC144438_uc001rsd.3_5'Flank|CCNT1_uc009zkz.1_Silent_p.Y135Y	NM_001240	NP_001231	O60563	CCNT1_HUMAN	cyclin T1	420	Potential.				cell cycle|cell division|interspecies interaction between organisms|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	DNA binding|protein kinase binding			ovary(3)|lung(1)|breast(1)|skin(1)	6						TCTGGGCAGCATATGCATATT	0.463													24	132					0	0	1	0	0		G	49087737	G	G	49087737	2	3	199	1	0	0	0	0	0	0	0	1	2937	224	8	3		3	CCNT1	12	49087737	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	711431	49087737	84764158	802	98194											
WNT1	7471	broad.mit.edu	37	chr12	49373465	49373465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgctggaactgtcccactGctccagggccccacctcttc	5	8	9	19	1	1	0	0	0	1	0	4	1	3	1	6	2	2	2	6	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:49373465G>A	uc001rsu.2	+	2	517	c.319G>A	c.(319-321)GCT>ACT	p.A107T		NM_005430	NP_005421	P04628	WNT1_HUMAN	wingless-type MMTV integration site family,	107					brain segmentation|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|central nervous system morphogenesis|cerebellum formation|dermatome development|diencephalon development|embryonic axis specification|forebrain anterior/posterior pattern formation|fourth ventricle development|hemopoietic stem cell proliferation|hepatocyte differentiation|inner ear morphogenesis|mesoderm morphogenesis|midbrain development|midbrain-hindbrain boundary maturation during brain development|negative regulation of cell-cell adhesion|negative regulation of cell-substrate adhesion|negative regulation of DNA damage checkpoint|negative regulation of fat cell differentiation|neuron fate determination|positive regulation of fibroblast proliferation|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of lamellipodium assembly|positive regulation of Notch signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to wounding|signal transduction in response to DNA damage|Spemann organizer formation|T cell differentiation in thymus|Wnt receptor signaling pathway, calcium modulating pathway	early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	cytokine activity|frizzled-2 binding|transcription regulatory region DNA binding			kidney(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.244)		CTGTCCCACTGCTCCAGGGCC	0.672													3	19					0	0	1	0	0		A	49373465	A	A	49373465	3	1	199	1	0	0	0	0	1	0	0	0	17407	1319	46	2	325	2	WNT1	12	49373465	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	285728	49373465	84478430	803	98195											
MLL2	8085	broad.mit.edu	37	chr12	49436573	49436573	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cggctgccttctaggccaggGgttccacaacccagatgctg	7	8	12	14	1	1	1	0	0	1	1	2	1	2	1	4	4	3	3	4	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:49436573G>A	uc001rta.3	-	26	5733	c.5733C>T	c.(5731-5733)ACC>ACT	p.T1911T		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1911					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CTAGGCCAGGGGTTCCACAAC	0.542			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			16	63					0	0	1	0	0		A	49436573	A	A	49436573	2	1	199	1	0	0	0	0	0	0	0	1	9639	1219	43	4		4	MLL2	12	49436573	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	63108	49436573	84415322	804	98196											
PRPH	5630	broad.mit.edu	37	chr12	49691820	49691820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attgagacccggaatggggaGgtgaggcaggtcccctaatg	10	7	16	8	1	0	2	0	2	0	1	1	5	1	4	3	6	0	1	3	6	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:49691820G>T	uc001rtu.2	+	8	1422	c.1347G>T	c.(1345-1347)GAG>GAT	p.E449D		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	449	Tail.						structural molecule activity				0						GGAATGGGGAGGTGAGGCAGG	0.547													9	34					1.12685e-05	1.18001e-05	1	1	0		T	49691820	T	T	49691820	3	4	199	1	0	0	0	0	1	0	0	0	12598	1014	35	5	1377	5	PRPH	12	49691820	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	255247	49691820	84160075	805	98197											
NCKAP5L	57701	broad.mit.edu	37	chr12	50190545	50190545	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacttagacagctgtgggggCgcctggtctggggaggatga	7	8	19	7	1	1	2	0	1	1	1	1	5	1	4	1	6	1	1	1	6	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:50190545C>T	uc009zlk.2	-	8	1300	c.1098G>A	c.(1096-1098)GCG>GCA	p.A366A	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_5'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	362	Pro-rich.									central_nervous_system(1)	1						GCTGTGGGGGCGCCTGGTCTG	0.657													3	23					0	0	1	0	0		T	50190545	T	T	50190545	2	4	199	1	0	0	0	0	0	0	0	1	10243	755	27	1		1	NCKAP5L	12	50190545	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	498725	50190545	83661350	806	98198											
AQP5	362	broad.mit.edu	37	chr12	50355937	50355937	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcctaccatcctgcagatcgCgctggcgtttggcctggcca	5	9	12	15	3	0	1	0	0	0	1	2	1	1	1	5	3	2	3	5	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:50355937C>T	uc001rvo.2	+	1	659	c.137C>T	c.(136-138)GCG>GTG	p.A46V		NM_001651	NP_001642	P55064	AQP5_HUMAN	aquaporin 5	46	Helical; (Potential).				carbon dioxide transport|excretion|odontogenesis|pancreatic juice secretion	apical plasma membrane|integral to plasma membrane	protein binding|water channel activity				0						CTGCAGATCGCGCTGGCGTTT	0.677													4	28					0	0	1	0	0		T	50355937	T	T	50355937	3	4	199	1	0	0	0	0	1	0	0	0	829	768	27	1	139	1	AQP5	12	50355937	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	165392	50355937	83495958	807	98199											
RACGAP1	29127	broad.mit.edu	37	chr12	50390908	50390908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attctggatgagagaccacaCgacagtctcgacacttcaga	13	8	9	11	2	3	3	1	1	2	2	4	7	3	4	1	1	0	0	1	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:50390908C>T	uc001rvt.2	-	12	1269	c.959G>A	c.(958-960)CGT>CAT	p.R320H	RACGAP1_uc009zlm.1_Missense_Mutation_p.R320H|RACGAP1_uc001rvs.2_Missense_Mutation_p.R320H|RACGAP1_uc001rvu.2_Missense_Mutation_p.R320H	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1	320	Phorbol-ester/DAG-type.				blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						AGAGACCACACGACAGTCTCG	0.463													16	77					0	0	1	0	0		T	50390908	T	T	50390908	3	4	199	1	0	0	0	0	1	0	0	0	13002	536	19	1	971	1	RACGAP1	12	50390908	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	34971	50390908	83460987	808	98200											
KRT5	3852	broad.mit.edu	37	chr12	52913955	52913955	+	Silent	SNP	A	G	G	1	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	accctgccgaagccaccaccAccgccacccccggaccggga	9	1	9	22	4	0	0	0	0	0	0	0	3	0	2	10	2	2	0	10	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:52913955A>G	uc001san.2	-	1	289	c.126T>C	c.(124-126)GGT>GGC	p.G42G	KRT5_uc009zmh.2_Silent_p.G42G	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	42	Head.|Gly-rich.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		AGCCACCACCACCGCCACCCC	0.672													6	45					0	0	1	0	0		G	52913955	G	G	52913955	2	3	199	1	0	0	0	0	0	0	0	1	8495	146	6	3		3	KRT5	12	52913955	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2523047	52913955	80937940	809	98201											
KRT76	51350	broad.mit.edu	37	chr12	53170507	53170507	+	Missense_Mutation	SNP	A	C	C	1	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	aggaggcaaacttgttgttgAgggtcttgatctgttcccgc	7	13	13	8	1	2	2	0	2	2	0	3	3	3	3	1	3	1	4	1	3	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:53170507A>C	uc001sax.2	-	1	623	c.569T>G	c.(568-570)CTC>CGC	p.L190R		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	190	Coil 1A.|Rod.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						CTTGTTGTTGAGGGTCTTGAT	0.522													24	92					0	0	1	0	0		C	53170507	C	C	53170507	3	2	199	1	0	0	0	0	1	0	0	0	8505	304	11	5	1383	5	KRT76	12	53170507	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	256552	53170507	80681388	810	98202											
PFDN5	5204	broad.mit.edu	37	chr12	53691644	53691644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttctcagatgtatgtccCtgggaagctgcatgatgtgg	7	13	13	8	0	1	2	1	1	1	1	3	3	2	3	1	2	3	4	1	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:53691644C>T	uc001scl.2	+	4	335	c.218C>T	c.(217-219)CCT>CTT	p.P73L	PFDN5_uc001scm.2_Missense_Mutation_p.P28L|PFDN5_uc001scn.2_RNA|PFDN5_uc001sco.2_RNA|C12orf10_uc010sof.1_5'Flank|C12orf10_uc001scp.3_5'Flank|C12orf10_uc009zmx.2_5'Flank|C12orf10_uc001scq.3_5'Flank	NM_002624	NP_002615	Q99471	PFD5_HUMAN	prefoldin subunit 5 isoform alpha	73					'de novo' posttranslational protein folding|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent	nucleus|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)	1						ATGTATGTCCCTGGGAAGCTG	0.522													13	56					0	0	1	0	0		T	53691644	T	T	53691644	3	4	199	1	0	0	0	0	1	0	0	0	11777	681	24	4	232	4	PFDN5	12	53691644	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	521137	53691644	80160251	811	98203											
SP1	6667	broad.mit.edu	37	chr12	53775576	53775576	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagcacaggcagtagcagCagcactggaggaggagggca	13	2	17	9	0	0	0	0	0	0	0	0	3	0	3	0	5	5	8	0	5	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:53775576C>T	uc001scw.2	+	2	238	c.141C>T	c.(139-141)AGC>AGT	p.S47S	SP1_uc010sog.1_Silent_p.S40S	NM_138473	NP_612482	P08047	SP1_HUMAN	Sp1 transcription factor isoform a	47	Ser/Thr-rich.|Repressor domain.				positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter	cytoplasm	double-stranded DNA binding|histone deacetylase binding|HMG box domain binding|protein C-terminus binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(357;0.00527)		GCAGTAGCAGCAGCACTGGAG	0.453											OREG0021870	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	103					0	0	1	0	0		T	53775576	T	T	53775576	2	4	199	1	0	0	0	0	0	0	0	1	14984	709	25	2		2	SP1	12	53775576	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	83932	53775576	80076319	812	98204											
NFE2	4778	broad.mit.edu	37	chr12	54686543	54686543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcattaaagtcatctaccGgcaagttgacaatcttgtcc	11	12	7	11	1	4	1	2	1	2	0	5	1	5	1	2	1	1	3	2	1	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:54686543G>A	uc009znk.2	-	2	1247	c.737C>T	c.(736-738)CCG>CTG	p.P246L	NFE2_uc001sfq.2_Missense_Mutation_p.P246L|NFE2_uc001sfr.3_Missense_Mutation_p.P246L|NFE2_uc009znl.2_Missense_Mutation_p.P246L	NM_006163	NP_006154	Q16621	NFE2_HUMAN	nuclear factor, erythroid derived 2 isoform 1	246					blood circulation|blood coagulation|multicellular organismal development|nucleosome disassembly|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	actin cytoskeleton|cytoplasm|PML body	protein dimerization activity|protein N-terminus binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|WW domain binding				0						GTCATCTACCGGCAAGTTGAC	0.572													9	31					0	0	1	0	0		A	54686543	A	A	54686543	3	1	199	1	0	0	0	0	1	0	0	0	10385	1116	39	1	388	1	NFE2	12	54686543	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	910967	54686543	79165352	813	98205											
ITGA7	3679	broad.mit.edu	37	chr12	56078944	56078944	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctcccgccgggggctgccCcagttgttcctcaggatggt	3	9	13	16	2	1	0	1	0	0	0	3	1	3	1	6	4	1	3	6	4	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:56078944C>A	uc001shh.2	-	25	3544	c.3324G>T	c.(3322-3324)TGG>TGT	p.W1108C	ITGA7_uc001shg.2_Missense_Mutation_p.W1104C|ITGA7_uc010sps.1_Missense_Mutation_p.W1011C|ITGA7_uc001shf.2_3'UTR|ITGA7_uc009znw.2_Missense_Mutation_p.W351C|ITGA7_uc009znx.2_Missense_Mutation_p.W985C	NM_001144996	NP_001138468	Q13683	ITA7_HUMAN	integrin alpha 7 isoform 1 precursor	1148	Cytoplasmic (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development|regulation of cell shape	integrin complex	receptor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5						GGGGGCTGCCCCAGTTGTTCC	0.682													13	37					9.31168e-06	9.77193e-06	1	1	0		A	56078944	A	A	56078944	3	1	199	1	0	0	0	0	1	0	0	0	7897	624	22	5	105	5	ITGA7	12	56078944	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1392401	56078944	77772951	814	98206											
ERBB3	2065	broad.mit.edu	37	chr12	56481659	56481659	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agtgctgccatgatgagtgtGccgggggctgctcaggccct	5	9	16	11	1	1	2	1	2	0	0	1	2	1	2	3	3	4	3	3	3	0	0	rs67617070		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:56481659G>A	uc001sjh.2	+	6	887	c.694G>A	c.(694-696)GCC>ACC	p.A232T	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.A173T|ERBB3_uc001sji.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	232	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			TGATGAGTGTGCCGGGGGCTG	0.542													41	153					0	0	1	0	0		A	56481659	A	A	56481659	3	1	199	1	0	0	0	0	1	0	0	0	5216	1319	46	2	847	2	ERBB3	12	56481659	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	402715	56481659	77370236	815	98207											
ERBB3	2065	broad.mit.edu	37	chr12	56487185	56487185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtcacatctctgggcttccGatccctgaaggaaattagtg	9	12	10	10	1	2	1	1	1	1	0	5	3	4	2	2	2	0	1	2	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:56487185G>A	uc001sjh.2	+	12	1524	c.1331G>A	c.(1330-1332)CGA>CAA	p.R444Q	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Missense_Mutation_p.R385Q|ERBB3_uc009zok.2_5'Flank|ERBB3_uc001sjk.2_5'Flank|ERBB3_uc001sjj.1_Missense_Mutation_p.R12Q	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	444	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CTGGGCTTCCGATCCCTGAAG	0.493													15	76					0	0	1	0	0		A	56487185	A	A	56487185	3	1	199	1	0	0	0	0	1	0	0	0	5216	1058	37	1	1508	1	ERBB3	12	56487185	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5526	56487185	77364710	816	98208											
SMARCC2	6601	broad.mit.edu	37	chr12	56561898	56561898	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tcctcaaagtgccgaagtttGatctccaactttttcatctg	9	15	6	11	1	4	1	2	1	2	0	6	2	5	1	3	0	2	1	3	0	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:56561898G>C	uc001skb.2	-	25	2809	c.2703C>G	c.(2701-2703)ATC>ATG	p.I901M	SMARCC2_uc001skd.2_Missense_Mutation_p.I932M|SMARCC2_uc001ska.2_Missense_Mutation_p.I932M|SMARCC2_uc001skc.2_Missense_Mutation_p.I931M|SMARCC2_uc010sqf.1_Missense_Mutation_p.I821M	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	901					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity	p.I901M(1)		lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			GCCGAAGTTTGATCTCCAACT	0.547													21	73					0	0	1	0	0		C	56561898	C	C	56561898	3	2	199	1	0	0	0	0	1	0	0	0	14801	1280	45	5	957	5	SMARCC2	12	56561898	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	74713	56561898	77289997	817	98209											
SMARCC2	6601	broad.mit.edu	37	chr12	56567584	56567584	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggttggtcgactctcagCatccacctggtagttaataa	9	12	11	9	1	1	0	1	0	1	0	4	1	2	0	2	4	1	4	2	4	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:56567584C>G	uc001skb.2	-	17	1652	c.1546G>C	c.(1546-1548)GCT>CCT	p.A516P	SMARCC2_uc001skd.2_Missense_Mutation_p.A516P|SMARCC2_uc001ska.2_Missense_Mutation_p.A516P|SMARCC2_uc001skc.2_Missense_Mutation_p.A516P|SMARCC2_uc010sqf.1_Missense_Mutation_p.A405P	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	516	SWIRM.				chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			CGACTCTCAGCATCCACCTGG	0.572													9	158					0	0	1	0	0		G	56567584	G	G	56567584	3	3	199	1	0	0	0	0	1	0	0	0	14801	710	25	5	2243	5	SMARCC2	12	56567584	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5686	56567584	77284311	818	98210											
INHBC	3626	broad.mit.edu	37	chr12	57843561	57843561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catccagcctgagggctacgCcatgaacttctgcatagggc	9	8	11	13	1	1	2	0	2	1	0	2	2	2	2	3	2	4	2	3	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:57843561C>T	uc001snv.1	+	2	942	c.815C>T	c.(814-816)GCC>GTC	p.A272V		NM_005538	NP_005529	P55103	INHBC_HUMAN	inhibin beta C chain preproprotein	272					growth	extracellular region	growth factor activity|hormone activity|transforming growth factor beta receptor binding				0						GAGGGCTACGCCATGAACTTC	0.542													8	37					0	0	1	0	0		T	57843561	T	T	57843561	3	4	199	1	0	0	0	0	1	0	0	0	7759	739	26	2	821	2	INHBC	12	57843561	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1275977	57843561	76008334	819	98211											
AVPR1A	552	broad.mit.edu	37	chr12	63544480	63544480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttggccagctcctcgttgCgcacgtccctcggtgggccg	2	10	14	15	5	0	0	0	0	0	0	4	0	2	0	4	3	2	4	4	3	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:63544480C>T	uc001sro.1	-	1	2111	c.137G>A	c.(136-138)CGC>CAC	p.R46H		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	46	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	CTCCTCGTTGCGCACGTCCCT	0.697													4	46					0	0	1	0	0		T	63544480	T	T	63544480	3	4	199	1	0	0	0	0	1	0	0	0	1232	768	27	1	1127	1	AVPR1A	12	63544480	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5700919	63544480	70307415	820	98212											
TBK1	29110	broad.mit.edu	37	chr12	64891772	64891772	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagaaattaaaggaagagatGgaaggggtggttaaagaact	19	7	14	1	0	0	3	0	0	0	3	0	6	0	5	0	5	1	1	0	5	9	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:64891772G>T	uc001ssc.1	+	20	2153	c.2091G>T	c.(2089-2091)ATG>ATT	p.M697I		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	697	Potential.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		AGGAAGAGATGGAAGGGGTGG	0.294													6	50					5.18039e-06	5.44815e-06	1	1	0		T	64891772	T	T	64891772	3	4	199	1	0	0	0	0	1	0	0	0	15662	1348	47	5	2165	5	TBK1	12	64891772	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1347292	64891772	68960123	821	98213											
GRIP1	23426	broad.mit.edu	37	chr12	66800084	66800084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaattatcttcatctttgcGgattttgagcttcaccaggt	8	17	8	8	1	4	2	2	2	2	0	4	3	4	3	1	2	2	1	1	2	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:66800084G>A	uc001stk.2	-	15	2048	c.1807C>T	c.(1807-1809)CGC>TGC	p.R603C	GRIP1_uc010sta.1_Missense_Mutation_p.R547C|GRIP1_uc001stj.2_Missense_Mutation_p.R385C|GRIP1_uc001stl.1_Missense_Mutation_p.R495C|GRIP1_uc001stm.2_Missense_Mutation_p.R603C	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	655	PDZ 5.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TCATCTTTGCGGATTTTGAGC	0.393													17	76					0	0	1	0	0		A	66800084	A	A	66800084	3	1	199	1	0	0	0	0	1	0	0	0	6803	1116	39	1	1463	1	GRIP1	12	66800084	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1908312	66800084	67051811	822	98214											
E2F7	144455	broad.mit.edu	37	chr12	77440093	77440093	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catttacaatgtcatagatgCgtctcctttccacacctgtt	9	15	5	12	1	2	1	1	0	1	1	4	1	3	1	3	0	2	1	3	0	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:77440093C>T	uc001sym.3	-	5	790	c.554G>A	c.(553-555)CGC>CAC	p.R185H	E2F7_uc001syn.2_Missense_Mutation_p.R185H	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	185	Potential.			R->A: Loss of DNA-binding and inhibition of E2F1-dependent activation.	cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						GTCATAGATGCGTCTCCTTTC	0.488													9	31					0	0	1	0	0		T	77440093	T	T	77440093	3	4	199	1	0	0	0	0	1	0	0	0	4878	768	27	1	2217	1	E2F7	12	77440093	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	10640009	77440093	56411802	823	98215											
NAV3	89795	broad.mit.edu	37	chr12	78225343	78225343	+	Silent	SNP	A	G	G	1	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	aatcttggcactactgggtcAcagcactgttcttcaagacc	10	11	8	12	0	4	1	2	0	2	1	4	1	4	1	1	2	2	3	1	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:78225343A>G	uc001syp.2	+	1	275	c.102A>G	c.(100-102)TCA>TCG	p.S34S	NAV3_uc001syo.2_Silent_p.S34S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	34						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTACTGGGTCACAGCACTGTT	0.473										HNSCC(70;0.22)			17	109					0	0	1	0	0		G	78225343	G	G	78225343	2	3	199	1	0	0	0	0	0	0	0	1	10203	146	6	3		3	NAV3	12	78225343	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	785250	78225343	55626552	824	98216											
NAV3	89795	broad.mit.edu	37	chr12	78592446	78592446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caccaaatctagagctgcatCacaatttcaggtaaagttaa	16	10	6	9	0	3	1	2	0	1	1	3	1	3	1	1	1	2	4	1	1	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:78592446C>T	uc001syp.2	+	36	6681	c.6508C>T	c.(6508-6510)CAC>TAC	p.H2170Y	NAV3_uc001syo.2_Missense_Mutation_p.H2148Y|NAV3_uc010sub.1_Missense_Mutation_p.H1627Y|NAV3_uc009zsf.2_Missense_Mutation_p.H979Y	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	2170						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGAGCTGCATCACAATTTCAG	0.348										HNSCC(70;0.22)			13	75					0	0	1	0	0		T	78592446	T	T	78592446	3	4	199	1	0	0	0	0	1	0	0	0	10203	826	29	4	6580	4	NAV3	12	78592446	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	367103	78592446	55259449	825	98217											
PPFIA2	8499	broad.mit.edu	37	chr12	82147944	82147944	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccgagccactgctttgggaCcccctttggctcattggggt	4	12	12	13	1	1	0	1	0	0	0	2	2	2	1	4	4	2	2	4	4	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:82147944C>A	uc001szo.1	-	3	218	c.57G>T	c.(55-57)GGG>GGT	p.G19G	PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(3)|lung(2)|pancreas(1)	6						TGCTTTGGGACCCCCTTTGGC	0.478													3	17					0.00909568	0.00925359	1	1	0		A	82147944	A	A	82147944	2	1	199	1	0	0	0	0	0	0	0	1	12329	494	18	5		5	PPFIA2	12	82147944	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3555498	82147944	51703951	826	98218											
RASSF9	9182	broad.mit.edu	37	chr12	86198882	86198882	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacttgcagcttccccttcCgcatcttcatttatatcaat	8	16	3	14	1	4	0	3	0	1	0	6	0	6	0	3	0	2	3	3	0	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:86198882C>T	uc001taf.1	-	2	1245	c.906G>A	c.(904-906)GCG>GCA	p.A302A		NM_005447	NP_005438	O75901	RASF9_HUMAN	Ras association (RalGDS/AF-6) domain family	302					endosome transport|protein targeting|signal transduction	cytosol|endosome|trans-Golgi network transport vesicle membrane	protein binding|transporter activity			ovary(1)	1						CTTCCCCTTCCGCATCTTCAT	0.363													4	149					0	0	1	0	0		T	86198882	T	T	86198882	2	4	199	1	0	0	0	0	0	0	0	1	13118	639	23	1		1	RASSF9	12	86198882	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4050938	86198882	47653013	827	98219											
GALNT4	8693	broad.mit.edu	37	chr12	89917656	89917656	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cacagtgacaatccaggaaaGtgaggacgtccccagtggcg	12	5	13	11	2	0	2	0	2	0	0	2	4	2	4	3	3	0	0	3	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:89917656G>A	uc001tbd.2	-	1	880	c.671C>T	c.(670-672)ACT>ATT	p.T224I	POC1B_uc001tba.2_Intron|POC1B_uc001tbb.2_Intron|POC1B_uc001tbc.2_Intron|POC1B_uc010sun.1_Intron|GALNT4_uc001tbe.2_Missense_Mutation_p.T221I|GALNT4_uc010suo.1_Intron	NM_003774	NP_003765	Q8N4A0	GALT4_HUMAN	polypeptide N-acetylgalactosaminyltransferase 4	224	Lumenal (Potential).|Catalytic subdomain A.				carbohydrate metabolic process	Golgi membrane|integral to membrane|perinuclear region of cytoplasm	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0						ATCCAGGAAAGTGAGGACGTC	0.507											OREG0022018	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	80					0	0	1	0	0		A	89917656	A	A	89917656	3	1	199	1	0	0	0	0	1	0	0	0	6230	1029	36	4	1069	4	GALNT4	12	89917656	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3718774	89917656	43934239	828	98220											
EEA1	8411	broad.mit.edu	37	chr12	93170622	93170622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaacaaaattatttacccGtctcactgttactgaaaagc	15	12	5	9	1	1	2	1	2	1	0	2	2	1	2	1	0	4	1	1	0	8	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:93170622G>A	uc001tck.2	-	28	4376	c.4111C>T	c.(4111-4113)CGG>TGG	p.R1371W		NM_003566	NP_003557	Q15075	EEA1_HUMAN	early endosome antigen 1, 162kD	1371	FYVE-type.			R->A: Abolishes phosphatidylinositol 3- phosphate binding and endosomal location.	early endosome to late endosome transport|synaptic vesicle to endosome fusion|vesicle fusion	cytosol|early endosome membrane|extrinsic to plasma membrane|membrane fraction	1-phosphatidylinositol binding|calmodulin binding|GTP-dependent protein binding|protein homodimerization activity|zinc ion binding			ovary(2)|skin(1)	3						TTATTTACCCGTCTCACTGTT	0.348													9	112					0	0	1	0	0		A	93170622	A	A	93170622	3	1	199	1	0	0	0	0	1	0	0	0	4927	1144	40	1	132	1	EEA1	12	93170622	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3252966	93170622	40681273	829	98221											
PLXNC1	10154	broad.mit.edu	37	chr12	94620456	94620456	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccaccccttcacagcttgCgacccttctgattatgagag	9	11	7	14	1	2	2	1	2	1	1	3	4	3	2	4	0	2	1	4	0	1	4	rs139278274	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:94620456C>T	uc001tdc.2	+	8	2115	c.1866C>T	c.(1864-1866)TGC>TGT	p.C622C		NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	622	Extracellular (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						TCACAGCTTGCGACCCTTCTG	0.363													5	76					0	0	1	0	0		T	94620456	T	T	94620456	2	4	199	1	0	0	0	0	0	0	0	1	12145	776	27	1		1	PLXNC1	12	94620456	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1449834	94620456	39231439	830	98222											
VEZT	55591	broad.mit.edu	37	chr12	95663938	95663939	+	Frame_Shift_Ins	INS	-	T	T																															ccaacttccaagcagcaaggINSctagctaccctatatatgct																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:95663938_95663939insT	uc001tdz.2	+	6	927_928	c.822_823insT	c.(820-825)AGGCTAfs	p.R274fs	VEZT_uc009zsy.1_Frame_Shift_Ins_p.R120fs|VEZT_uc001tdr.2_Frame_Shift_Ins_p.R116fs|VEZT_uc001tds.2_Frame_Shift_Ins_p.R226fs|VEZT_uc001tdt.2_Frame_Shift_Ins_p.R230fs|VEZT_uc009zsz.1_Frame_Shift_Ins_p.R278fs|VEZT_uc001tdv.2_Frame_Shift_Ins_p.R247fs|VEZT_uc001tdw.1_Frame_Shift_Ins_p.R230fs|VEZT_uc009zta.1_Frame_Shift_Ins_p.R230fs	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane	274_275						acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						AAGCAGCAAGGCTAGCTACCCT	0.391													8	15	---	---	---	---						.	T	95663939	T	T	95663938	7	5	199	1	0	1	1	0	0	0	0	0	17182	1194	42	0	844	0	VEZT	12	95663938	Frame_Shift_Ins	INS	-	TCGA-HF-7132-01A-11D-2053-08	1043482	95663938	38187957	831	98223											
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100453799	100453799	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aactgtagtgcattcagctgGctatagaggttgggagatgg	10	11	15	5	0	1	2	1	0	0	2	1	3	1	2	0	4	3	5	0	4	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:100453799G>A	uc001tgq.2	-	13	1801	c.1572C>T	c.(1570-1572)AGC>AGT	p.S524S	UHRF1BP1L_uc001tgp.2_Silent_p.S174S	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	524										ovary(2)	2						CATTCAGCTGGCTATAGAGGT	0.343													5	23					0	0	1	0	0		A	100453799	A	A	100453799	2	1	199	1	0	0	0	0	0	0	0	1	16995	1194	42	2		2	UHRF1BP1L	12	100453799	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4789861	100453799	33398096	832	98224											
ACTR6	64431	broad.mit.edu	37	chr12	100606103	100606103	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtatgctatgtgtctcaGgatttttatagagacatgga	11	15	11	4	0	1	1	1	0	1	1	2	5	1	3	0	2	1	2	0	2	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:100606103G>T	uc001thb.1	+	7	698	c.642G>T	c.(640-642)CAG>CAT	p.Q214H	ACTR6_uc001thc.1_Missense_Mutation_p.Q106H|ACTR6_uc001thd.1_Missense_Mutation_p.Q214H|ACTR6_uc009ztu.1_Missense_Mutation_p.Q19H|ACTR6_uc001the.1_Missense_Mutation_p.Q132H|ACTR6_uc001thf.1_Missense_Mutation_p.Q132H|uc001thg.1_Intron	NM_022496	NP_071941	Q9GZN1	ARP6_HUMAN	ARP6 actin-related protein 6 homolog	214						cytoplasm|cytoskeleton				ovary(1)	1						ATGTGTCTCAGGATTTTTATA	0.308													5	206					5.18039e-06	5.44815e-06	1	1	0		T	100606103	T	T	100606103	3	4	199	1	0	0	0	0	1	0	0	0	216	991	35	5	668	5	ACTR6	12	100606103	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	152304	100606103	33245792	833	98225											
MYBPC1	4604	broad.mit.edu	37	chr12	102069194	102069194	+	Silent	SNP	T	C	C	0	1	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	ggctataccattcagaaggcTgacaagaagagcatggtaag	15	7	12	7	0	1	4	1	1	0	3	1	4	1	4	1	3	2	4	1	3	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:102069194T>C	uc001tii.2	+	25	3015	c.2913T>C	c.(2911-2913)GCT>GCC	p.A971A	MYBPC1_uc001tig.2_Silent_p.A978A|MYBPC1_uc010svq.1_Silent_p.A940A|MYBPC1_uc001tih.2_Silent_p.A978A|MYBPC1_uc001tij.2_Silent_p.A953A|MYBPC1_uc010svr.1_Silent_p.A953A|MYBPC1_uc010svs.1_Silent_p.A971A|MYBPC1_uc010svt.1_Silent_p.A941A|MYBPC1_uc010svu.1_Silent_p.A934A|MYBPC1_uc001tik.2_Silent_p.A927A|MYBPC1_uc001til.2_5'UTR|MYBPC1_uc001tim.2_5'UTR	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	971	Fibronectin type-III 3.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						TTCAGAAGGCTGACAAGAAGA	0.473													14	52					0	0	1	0	0		C	102069194	C	C	102069194	2	2	199	1	0	0	0	0	0	0	0	1	10029	1567	55	3		3	MYBPC1	12	102069194	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1463091	102069194	31782701	834	98226											
CMKLR1	1240	broad.mit.edu	37	chr12	108686284	108686284	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccatgtaagccaggcgaacGctgcggtggttctgggacca	8	7	15	11	3	1	0	0	0	1	0	1	2	1	1	3	4	3	3	3	4	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:108686284G>A	uc009zuw.2	-	3	647	c.456C>T	c.(454-456)AGC>AGT	p.S152S	CMKLR1_uc001tmw.2_Silent_p.S152S|CMKLR1_uc001tmv.2_Silent_p.S150S|CMKLR1_uc009zuv.2_Silent_p.S152S	NM_001142345	NP_001135817	Q99788	CML1_HUMAN	chemokine-like receptor 1 isoform a	152	Cytoplasmic (Potential).				chemotaxis|immune response|negative regulation of interleukin-12 production|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage chemotaxis|regulation of calcium-mediated signaling|skeletal system development	integral to plasma membrane	chemokine receptor activity			lung(3)|ovary(1)|pancreas(1)	5						CCAGGCGAACGCTGCGGTGGT	0.572													15	44					0	0	1	0	0		A	108686284	A	A	108686284	2	1	199	1	0	0	0	0	0	0	0	1	3582	1078	38	1		1	CMKLR1	12	108686284	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6617090	108686284	25165611	835	98227											
USP30	84749	broad.mit.edu	37	chr12	109509448	109509448	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attattccatgtcattacctCgtcattggaagatgagcgag	11	13	9	8	2	2	2	2	1	0	1	4	4	3	3	2	1	2	0	2	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:109509448C>T	uc010sxi.1	+	5	616	c.512C>T	c.(511-513)TCG>TTG	p.S171L	USP30_uc001tnu.3_Missense_Mutation_p.S140L	NM_032663	NP_116052	Q70CQ3	UBP30_HUMAN	ubiquitin specific peptidase 30	171	Cytoplasmic (Potential).				ubiquitin-dependent protein catabolic process	integral to membrane|mitochondrial outer membrane	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(1)	1						GTCATTACCTCGTCATTGGAA	0.468													17	84					0	0	1	0	0		T	109509448	T	T	109509448	3	4	199	1	0	0	0	0	1	0	0	0	17087	893	31	1	530	1	USP30	12	109509448	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	823164	109509448	24342447	836	98228											
MMAB	326625	broad.mit.edu	37	chr12	110006573	110006573	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggccaatcctgtcccccttAcccaatagctgaacttaatt	11	11	5	14	0	0	1	0	1	0	0	2	1	2	1	5	1	3	1	5	1	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:110006573A>G	uc001tou.2	-	3	363	c.290_splice	c.e3+1	p.G97_splice	MMAB_uc001tov.2_Splice_Site|MMAB_uc001tow.2_Splice_Site|MMAB_uc010sxq.1_Splice_Site|MMAB_uc001tox.2_Intron	NM_052845	NP_443077	Q96EY8	MMAB_HUMAN	cob(I)alamin adenosyltransferase precursor						cobalamin biosynthetic process	mitochondrion	ATP binding|cob(I)yrinic acid a,c-diamide adenosyltransferase activity				0					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGTCCCCCTTACCCAATAGCT	0.488													14	44					0	0	1	0	0		G	110006573	G	G	110006573	5	3	199	1	0	0	0	0	0	0	1	0	9658	405	14	3	488	3	MMAB	12	110006573	Splice_Site	SNP	A	TCGA-HF-7132-01A-11D-2053-08	497125	110006573	23845322	837	98229											
RPH3A	22895	broad.mit.edu	37	chr12	113314521	113314521	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggagtcgggggctacccaGcagttggagccagagaggac	9	4	19	9	1	0	1	0	0	0	1	1	5	0	4	2	6	3	3	2	6	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:113314521G>T	uc010syl.1	+	13	1383	c.1021G>T	c.(1021-1023)GCA>TCA	p.A341S	RPH3A_uc001ttz.2_Missense_Mutation_p.A341S|RPH3A_uc001tty.2_Missense_Mutation_p.A337S|RPH3A_uc009zwe.1_Missense_Mutation_p.A337S|RPH3A_uc010sym.1_Missense_Mutation_p.A292S|RPH3A_uc001tua.2_Missense_Mutation_p.A101S	NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1	341	Pro-rich.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		GGGCTACCCAGCAGTTGGAGC	0.662													4	39					0.150653	0.151066	1	1	0		T	113314521	T	T	113314521	3	4	199	1	0	0	0	0	1	0	0	0	13576	971	34	5	1063	5	RPH3A	12	113314521	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3307948	113314521	20537374	838	98230											
LHX5	64211	broad.mit.edu	37	chr12	113906026	113906026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgaaggcagccttgagcGtctccagctgcttggccttg	5	9	14	13	3	1	1	0	1	1	0	2	2	1	1	3	3	4	3	3	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:113906026G>A	uc001tvj.1	-	3	1155	c.581C>T	c.(580-582)ACG>ATG	p.T194M		NM_022363	NP_071758	Q9H2C1	LHX5_HUMAN	LIM homeobox protein 5	194	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGCCTTGAGCGTCTCCAGCTG	0.682													6	23					0	0	1	0	0		A	113906026	A	A	113906026	3	1	199	1	0	0	0	0	1	0	0	0	8790	1145	40	1	639	1	LHX5	12	113906026	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	591505	113906026	19945869	839	98231											
LHX5	64211	broad.mit.edu	37	chr12	113909232	113909232	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgaacacatttgatgtgccaCgcgcggtccagcacgttcag	9	9	11	12	4	1	2	1	2	0	0	2	2	2	2	2	1	3	2	2	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:113909232C>T	uc001tvj.1	-	1	646	c.72G>A	c.(70-72)GCG>GCA	p.A24A		NM_022363	NP_071758	Q9H2C1	LHX5_HUMAN	LIM homeobox protein 5	24	LIM zinc-binding 1.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGATGTGCCACGCGCGGTCCA	0.612													4	13					0	0	1	0	0		T	113909232	T	T	113909232	2	4	199	1	0	0	0	0	0	0	0	1	8790	523	19	1		1	LHX5	12	113909232	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3206	113909232	19942663	840	98232											
TBX5	6910	broad.mit.edu	37	chr12	114793771	114793771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcatacatgcaagcttgccGctgtgccgactctgtcctgt	6	11	11	13	2	1	0	0	0	1	0	2	1	2	0	3	1	5	4	3	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:114793771G>A	uc001tvo.2	-	9	1618	c.1123C>T	c.(1123-1125)CGG>TGG	p.R375W	TBX5_uc001tvp.2_Missense_Mutation_p.R375W|TBX5_uc001tvq.2_Missense_Mutation_p.R325W	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	375					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding	p.R375W(1)		ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		CAAGCTTGCCGCTGTGCCGAC	0.592													12	82					0	0	1	0	0		A	114793771	A	A	114793771	3	1	199	1	0	0	0	0	1	0	0	0	15686	1086	38	1	437	1	TBX5	12	114793771	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	884539	114793771	19058124	841	98233											
RNFT2	84900	broad.mit.edu	37	chr12	117217143	117217143	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcccaagatcatcctggctgTcaagtccaaggtaggcactg	10	8	11	12	0	2	1	2	0	0	1	4	1	4	1	3	3	0	3	3	3	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:117217143T>C	uc009zwn.2	+	7	1105	c.872T>C	c.(871-873)GTC>GCC	p.V291A	RNFT2_uc001twb.3_Missense_Mutation_p.V291A|RNFT2_uc001twa.3_Missense_Mutation_p.V201A|RNFT2_uc001twc.3_Missense_Mutation_p.V39A	NM_001109903	NP_001103373	Q96EX2	RNFT2_HUMAN	transmembrane protein 118 isoform 1	291	Cytoplasmic (Potential).					integral to membrane	zinc ion binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)		ATCCTGGCTGTCAAGTCCAAG	0.547													3	45					0	0	1	0	0		C	117217143	C	C	117217143	3	2	199	1	0	0	0	0	1	0	0	0	13527	1667	58	3	894	3	RNFT2	12	117217143	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	2423372	117217143	16634752	842	98234											
KSR2	283455	broad.mit.edu	37	chr12	117962692	117962692	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtgaggcgggctcatgcaGgcacccatgaaaagcaccac	12	4	13	12	1	1	2	1	2	0	0	1	2	1	2	2	4	2	4	2	4	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:117962692G>A	uc001two.2	-	14	2152	c.2097C>T	c.(2095-2097)GCC>GCT	p.A699A		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	728	Protein kinase.				intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GGCTCATGCAGGCACCCATGA	0.502													10	44					0	0	1	0	0		A	117962692	A	A	117962692	2	1	199	1	0	0	0	0	0	0	0	1	8598	987	35	4		4	KSR2	12	117962692	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	745549	117962692	15889203	843	98235											
CIT	11113	broad.mit.edu	37	chr12	120156088	120156088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctttctgcggctggatggcGgggccagcaggctcatggca	5	8	16	12	2	2	0	1	0	1	0	2	1	2	1	2	7	2	4	2	7	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:120156088G>A	uc001txi.1	-	31	4057	c.4004C>T	c.(4003-4005)CCG>CTG	p.P1335L	CIT_uc001txh.1_Missense_Mutation_p.P854L|CIT_uc001txj.1_Missense_Mutation_p.P1377L	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	1335					intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		GCTGGATGGCGGGGCCAGCAG	0.577													5	26					0	0	1	0	0		A	120156088	A	A	120156088	3	1	199	1	0	0	0	0	1	0	0	0	3441	1116	39	1	2147	1	CIT	12	120156088	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2193396	120156088	13695807	844	98236											
GCN1L1	10985	broad.mit.edu	37	chr12	120584908	120584908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatctgggctgccatcttcCgcgtgtccgtggaacggtcc	5	11	12	13	4	2	0	0	0	2	0	5	1	5	1	4	3	2	1	4	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:120584908C>T	uc001txo.2	-	38	4908	c.4895G>A	c.(4894-4896)CGG>CAG	p.R1632Q		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	1632	HEAT 11.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGCCATCTTCCGCGTGTCCGT	0.552													5	25					0	0	1	0	0		T	120584908	T	T	120584908	3	4	199	1	0	0	0	0	1	0	0	0	6314	652	23	1	3204	1	GCN1L1	12	120584908	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	428820	120584908	13266987	845	98237											
WDR66	144406	broad.mit.edu	37	chr12	122361622	122361622	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgagcacacaaattgaatTtcttgatttggatcaaatca	14	13	6	8	0	3	3	2	3	1	0	3	4	3	4	1	1	1	1	1	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:122361622T>G	uc009zxk.2	+	3	615	c.473T>G	c.(472-474)TTT>TGT	p.F158C		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	158							calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		CAAATTGAATTTCTTGATTTG	0.438													14	70					0	0	1	0	0		G	122361622	G	G	122361622	3	3	199	1	0	0	0	0	1	0	0	0	17343	1841	64	5	479	5	WDR66	12	122361622	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1776714	122361622	11490273	846	98238											
LRRC43	254050	broad.mit.edu	37	chr12	122667814	122667814	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgcggaagctgtgtctgcgCgagttcccgtgcggtgccgg	3	10	17	11	6	1	0	0	0	1	0	2	2	2	1	2	3	5	2	2	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:122667814C>T	uc009zxm.2	+	1	148	c.123C>T	c.(121-123)CGC>CGT	p.R41R	LRRC43_uc001ubw.3_Intron|LRRC43_uc009zxl.1_Intron	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	41											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TGTGTCTGCGCGAGTTCCCGT	0.771													10	12					0	0	1	0	0		T	122667814	T	T	122667814	2	4	199	1	0	0	0	0	0	0	0	1	9019	755	27	1		1	LRRC43	12	122667814	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	306192	122667814	11184081	847	98239											
LRRC43	254050	broad.mit.edu	37	chr12	122676097	122676097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggcgaaatgaatgagtccGcgggcgtcctggccgaggtg	9	6	17	9	5	0	2	0	2	0	0	2	4	2	2	3	4	0	0	3	4	3	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:122676097G>A	uc009zxm.2	+	6	1097	c.1072G>A	c.(1072-1074)GCG>ACG	p.A358T	LRRC43_uc001ubw.3_Missense_Mutation_p.A173T|LRRC43_uc009zxn.2_Missense_Mutation_p.A119T	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	358	Glu-rich.										0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		GAATGAGTCCGCGGGCGTCCT	0.527											OREG0022219	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	72					0	0	1	0	0		A	122676097	A	A	122676097	3	1	199	1	0	0	0	0	1	0	0	0	9019	1087	38	1	1094	1	LRRC43	12	122676097	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	8283	122676097	11175798	848	98240											
SBNO1	55206	broad.mit.edu	37	chr12	123829930	123829930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgaaggtgcagaggtcatgGcatttcgtactgttggtgct	7	14	14	6	1	1	2	1	1	0	1	2	2	1	2	0	4	3	5	0	4	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:123829930G>A	uc010tap.1	-	3	425	c.425C>T	c.(424-426)GCC>GTC	p.A142V	SBNO1_uc010tao.1_Missense_Mutation_p.A141V|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Missense_Mutation_p.A142V|SBNO1_uc001ueu.2_Missense_Mutation_p.A141V|SBNO1_uc001uev.2_Missense_Mutation_p.A140V|SBNO1_uc009zxy.1_Missense_Mutation_p.A107V	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	142							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		AGAGGTCATGGCATTTCGTAC	0.413													14	101					0	0	1	0	0		A	123829930	A	A	123829930	3	1	199	1	0	0	0	0	1	0	0	0	13887	1203	42	2	3872	2	SBNO1	12	123829930	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1153833	123829930	10021965	849	98241											
SLC15A4	121260	broad.mit.edu	37	chr12	129299599	129299599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaatctcctagtggcttccGgacctcgatctttaacctaa	11	12	6	12	2	2	0	0	0	2	0	5	2	3	1	4	2	1	1	4	2	5	5	rs144816528	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:129299599G>A	uc001uhu.2	-	2	616	c.563C>T	c.(562-564)CCG>CTG	p.P188L	SLC15A4_uc001uhv.2_RNA|MGC16384_uc001uhw.2_5'Flank	NM_145648	NP_663623	Q8N697	S15A4_HUMAN	solute carrier family 15, member 4	188					oligopeptide transport|protein transport	integral to membrane|lysosomal membrane	peptide:hydrogen symporter activity				0	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)		AGTGGCTTCCGGACCTCGATC	0.403													13	94					0	0	1	0	0		A	129299599	A	A	129299599	3	1	199	1	0	0	0	0	1	0	0	0	14426	1116	39	1	1198	1	SLC15A4	12	129299599	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5469669	129299599	4552296	850	98242											
FZD10	11211	broad.mit.edu	37	chr12	130647672	130647672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggccacgagaaccagcGcgaggcagccatccagttgc	10	4	14	13	3	0	1	0	0	0	1	1	4	1	1	4	2	4	2	4	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:130647672G>A	uc001uii.2	+	1	641	c.185G>A	c.(184-186)CGC>CAC	p.R62H	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	62	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		GAGAACCAGCGCGAGGCAGCC	0.637													11	43					0	0	1	0	0		A	130647672	A	A	130647672	3	1	199	1	0	0	0	0	1	0	0	0	6143	1087	38	1	187	1	FZD10	12	130647672	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1348073	130647672	3204223	851	98243											
SFRS8	6433	broad.mit.edu	37	chr12	132281836	132281836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccccggcccgcggcccccgCggcccactcggcgcactcag	3	2	13	23	7	1	0	1	0	0	0	2	0	1	0	6	4	0	1	6	4	0	0	rs140639709	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:132281836C>T	uc001uja.1	+	16	2788	c.2648C>T	c.(2647-2649)GCG>GTG	p.A883V	SFRS8_uc010tbn.1_Missense_Mutation_p.A935V	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	883	Arg/Ser-rich (RS domain).				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		gcggcccccgcggcccACTCG	0.557													9	34					0	0	1	0	0		T	132281836	T	T	132281836	3	4	199	1	0	0	0	0	1	0	0	0	14208	768	27	1	2710	1	SFRS8	12	132281836	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1634164	132281836	1570059	852	98244											
EP400	57634	broad.mit.edu	37	chr12	132547141	132547141	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcagcagcagcaacaGcagcagcagcaacagacgac	16	0	11	14	1	0	1	0	0	0	1	0	2	0	1	0	0	11	9	0	0	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr12:132547141G>A	uc001ujn.2	+	46	8264	c.8229G>A	c.(8227-8229)CAG>CAA	p.Q2743Q	EP400_uc001ujl.2_Silent_p.Q2742Q|EP400_uc001ujm.2_Silent_p.Q2662Q|EP400_uc001ujp.2_5'UTR	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2779	Poly-Gln.|Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		agcagcaacagcagcagcagc	0.323													3	27					0	0	1	0	0		A	132547141	A	A	132547141	2	1	199	1	0	0	0	0	0	0	0	1	5157	962	34	2		2	EP400	12	132547141	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	265305	132547141	1304754	853	98245											
TNFRSF19	55504	broad.mit.edu	37	chr13	24233225	24233225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcgtgaagatcgcgtccaCggcctccagcccacgggaca	8	5	11	17	5	0	2	0	1	0	1	4	3	2	3	5	2	1	0	5	2	1	0	rs139502219		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:24233225C>T	uc001uov.1	+	6	546	c.482C>T	c.(481-483)ACG>ATG	p.T161M	TNFRSF19_uc001uot.2_Missense_Mutation_p.T161M|TNFRSF19_uc010tcu.1_Missense_Mutation_p.T29M|TNFRSF19_uc001uow.2_Missense_Mutation_p.T161M	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	161	Extracellular (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		ATCGCGTCCACGGCCTCCAGC	0.587													11	68					0	0	1	0	0		T	24233225	T	T	24233225	3	4	199	1	0	0	0	0	1	0	0	0	16317	536	19	1	500	1	TNFRSF19	13	24233225	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08		24233225	90936653	854	98246											
FLT1	2321	broad.mit.edu	37	chr13	28897011	28897011	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gctgctggtgacgctatctaGtcttggtttcttgccttgtt	3	18	11	9	1	3	1	0	1	3	0	3	1	3	1	1	2	2	5	1	2	2	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:28897011G>T	uc001usb.3	-	21	3154	c.2869C>A	c.(2869-2871)CTA>ATA	p.L957I	FLT1_uc010aap.2_5'Flank|FLT1_uc010aaq.2_Missense_Mutation_p.L82I|FLT1_uc001usa.3_Missense_Mutation_p.L175I	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	957	Cytoplasmic (Potential).|Protein kinase.				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	ACGCTATCTAGTCTTGGTTTC	0.478													8	110					1.12685e-05	1.18001e-05	1	1	0		T	28897011	T	T	28897011	3	4	199	1	0	0	0	0	1	0	0	0	5955	1020	36	5	1187	5	FLT1	13	28897011	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4663786	28897011	86272867	855	98247											
C13orf33	84935	broad.mit.edu	37	chr13	31480852	31480852	+	Frame_Shift_Del	DEL	G	-	-																															cggggagccggcggcggcgcGggggggcttcaacgtcttcg																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:31480852delG	uc001uth.3	+	1	541	c.200delG	c.(199-201)CGGfs	p.R67fs	uc001utg.1_Intron	NM_032849	NP_116238	Q5VYS4	CM033_HUMAN	hypothetical protein LOC84935	67											0		Lung SC(185;0.0281)		all cancers(112;0.00914)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.0559)|GBM - Glioblastoma multiforme(144;0.244)		gcggcggcgcgggggggcTTC	0.582													5	1	---	---	---	---						.	-	31480852	-	-	31480852	7	5	199	1	0	1	0	1	0	0	0	0	1730	1116	39	0	202	0	C13orf33	13	31480852	Frame_Shift_Del	DEL	G	TCGA-HF-7132-01A-11D-2053-08	2583841	31480852	83689026	856	98248											
FRY	10129	broad.mit.edu	37	chr13	32758746	32758746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttctacacagaacaagaaaCgccgagaacggcgagacttg	15	6	10	10	4	1	4	0	0	1	4	1	6	1	4	1	1	4	0	1	1	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:32758746C>T	uc001utx.2	+	25	3560	c.3064C>T	c.(3064-3066)CGC>TGC	p.R1022C	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	1022					regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GAACAAGAAACGCCGAGAACG	0.368													5	23					0	0	1	0	0		T	32758746	T	T	32758746	3	4	199	1	0	0	0	0	1	0	0	0	6077	536	19	1	3162	1	FRY	13	32758746	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1277894	32758746	82411132	857	98249											
BRCA2	675	broad.mit.edu	37	chr13	32912505	32912505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcataacttagaatttgatgGcagtgattcaagtaaaaatg	16	13	8	4	0	2	3	2	2	0	1	2	3	2	3	0	1	1	2	0	1	7	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:32912505G>A	uc001uub.1	+	11	4240	c.4013G>A	c.(4012-4014)GGC>GAC	p.G1338D		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1338					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding	p.G1338G(1)		ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		GAATTTGATGGCAGTGATTCA	0.303			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			6	27					0	0	1	0	0		A	32912505	A	A	32912505	3	1	199	1	0	0	0	0	1	0	0	0	1502	1203	42	2	4051	2	BRCA2	13	32912505	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	153759	32912505	82257373	858	98250											
BRCA2	675	broad.mit.edu	37	chr13	32914237	32914237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gataatgatgaatgtagcacGcattcacataaggtttttgc	13	13	9	6	1	1	2	1	2	0	0	1	3	1	2	0	1	2	4	0	1	4	6	rs1799953		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:32914237G>A	uc001uub.1	+	11	5972	c.5745G>A	c.(5743-5745)ACG>ACA	p.T1915T		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1915					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		AATGTAGCACGCATTCACATA	0.343			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			13	40					0	0	1	0	0		A	32914237	A	A	32914237	2	1	199	1	0	0	0	0	0	0	0	1	1502	1074	38	1		1	BRCA2	13	32914237	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1732	32914237	82255641	859	98251											
NBEA	26960	broad.mit.edu	37	chr13	35517248	35517248	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atcgtggagacggtgctcaaCctggtaaggaaaaggcgtgc	11	7	15	8	3	1	1	1	0	0	1	2	3	1	2	1	5	3	2	1	5	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:35517248C>T	uc001uvb.2	+	2	497	c.291C>T	c.(289-291)AAC>AAT	p.N97N		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	97						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CGGTGCTCAACCTGGTAAGGA	0.587													32	171					0	0	1	0	0		T	35517248	T	T	35517248	2	4	199	1	0	0	0	0	0	0	0	1	10205	506	18	4		4	NBEA	13	35517248	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2603011	35517248	79652630	860	98252											
SMAD9	4093	broad.mit.edu	37	chr13	37453576	37453576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacatggggcaggcccttgCggtgggacacctgcagccgc	6	6	15	14	2	1	0	1	0	0	0	1	1	1	1	3	5	3	2	3	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:37453576C>T	uc001uvw.2	-	2	594	c.251G>A	c.(250-252)CGC>CAC	p.R84H	SMAD9_uc001uvx.2_Missense_Mutation_p.R84H|SMAD9_uc010tep.1_5'UTR	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	84	MH1.				BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		CAGGCCCTTGCGGTGGGACAC	0.657													4	27					0	0	1	0	0		T	37453576	T	T	37453576	3	4	199	1	0	0	0	0	1	0	0	0	14789	768	27	1	1176	1	SMAD9	13	37453576	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1936328	37453576	77716302	861	98253											
POSTN	10631	broad.mit.edu	37	chr13	38145526	38145526	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccatggatcacttcagttAttgtttcaccttctttaatc	8	18	4	11	0	4	0	3	0	1	0	6	1	5	1	2	1	0	2	2	1	2	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:38145526A>G	uc001uwo.3	-	18	2277	c.2159T>C	c.(2158-2160)ATA>ACA	p.I720T	POSTN_uc010tet.1_Missense_Mutation_p.I221T|POSTN_uc001uwp.3_Intron|POSTN_uc001uwr.2_Missense_Mutation_p.I693T|POSTN_uc001uwq.2_Intron|POSTN_uc010teu.1_Missense_Mutation_p.I693T|POSTN_uc010tev.1_Intron|POSTN_uc010tew.1_Intron	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	720					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		CACTTCAGTTATTGTTTCACC	0.378													5	121					0	0	1	0	0		G	38145526	G	G	38145526	3	3	199	1	0	0	0	0	1	0	0	0	12278	449	16	3	375	3	POSTN	13	38145526	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	691950	38145526	77024352	862	98254											
MRPS31	10240	broad.mit.edu	37	chr13	41328182	41328182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggtgcttctttagtaactgCcatcatgtcaaaaatattaa	14	14	6	7	0	3	0	2	0	1	0	3	0	3	0	1	1	3	2	1	1	6	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:41328182C>T	uc001uxm.3	-	5	862	c.787G>A	c.(787-789)GCA>ACA	p.A263T		NM_005830	NP_005821	Q92665	RT31_HUMAN	mitochondrial ribosomal protein S31 precursor	263						mitochondrion|ribosome	protein domain specific binding				0		Lung NSC(96;3.55e-06)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;1.52e-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)		TTAGTAACTGCCATCATGTCA	0.313													3	37					0	0	1	0	0		T	41328182	T	T	41328182	3	4	199	1	0	0	0	0	1	0	0	0	9859	739	26	2	412	2	MRPS31	13	41328182	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3182656	41328182	73841696	863	98255											
AKAP11	11215	broad.mit.edu	37	chr13	42874607	42874607	+	Silent	SNP	A	G	G	1	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	ttacagaaaggagtctcttcAtgtaccaatgctttgtacca	12	13	7	9	0	2	1	1	0	1	1	3	2	2	2	2	1	4	3	2	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:42874607A>G	uc001uys.1	+	8	1900	c.1725A>G	c.(1723-1725)TCA>TCG	p.S575S		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	575					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		GAGTCTCTTCATGTACCAATG	0.368													13	89					0	0	1	0	0		G	42874607	G	G	42874607	2	3	199	1	0	0	0	0	0	0	0	1	447	204	8	3		3	AKAP11	13	42874607	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1546425	42874607	72295271	864	98256											
PCDH20	64881	broad.mit.edu	37	chr13	61987886	61987886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggccaggctgaaggagagagGggggttccactcagcaccgg	9	4	18	10	1	1	2	1	1	0	1	2	4	2	3	3	7	1	3	3	7	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:61987886G>A	uc001vid.3	-	2	710	c.346C>T	c.(346-348)CCT>TCT	p.P116S	PCDH20_uc010thj.1_Missense_Mutation_p.P116S	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	89	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		AAGGAGAGAGGGGGGTTCCAC	0.682													5	16					0	0	1	0	0		A	61987886	A	A	61987886	3	1	199	1	0	0	0	0	1	0	0	0	11534	1232	43	4	2513	4	PCDH20	13	61987886	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	19113279	61987886	53181992	865	98257											
TBC1D4	9882	broad.mit.edu	37	chr13	75866265	75866265	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataattttttccatttcagaGgtattcatatcaggtagcgt	11	17	7	6	1	3	1	3	0	0	1	4	1	4	1	1	2	1	2	1	2	4	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:75866265G>T	uc001vjl.1	-	19	3806	c.3459C>A	c.(3457-3459)ACC>ACA	p.T1153T	TBC1D4_uc010tht.1_Silent_p.T363T|TBC1D4_uc010thu.1_Silent_p.T310T|TBC1D4_uc010aer.2_Silent_p.T1145T|TBC1D4_uc010aes.2_Silent_p.T1090T	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	1153						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CCATTTCAGAGGTATTCATAT	0.318													5	42					1.23904e-05	1.29657e-05	1	1	0		T	75866265	T	T	75866265	2	4	199	1	0	0	0	0	0	0	0	1	15647	987	35	5		5	TBC1D4	13	75866265	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	13878379	75866265	39303613	866	98258											
TBC1D4	9882	broad.mit.edu	37	chr13	75873672	75873672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacagctgtcctggcccaaGctgtactgaaaagtaagggt	11	9	12	9	0	0	2	0	2	0	0	1	2	1	2	2	2	3	4	2	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:75873672G>A	uc001vjl.1	-	17	3297	c.2950C>T	c.(2950-2952)CTT>TTT	p.L984F	TBC1D4_uc010tht.1_Missense_Mutation_p.L194F|TBC1D4_uc010thu.1_Missense_Mutation_p.L141F|TBC1D4_uc010aer.2_Missense_Mutation_p.L976F|TBC1D4_uc010aes.2_Missense_Mutation_p.L921F	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	984	Rab-GAP TBC.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CCTGGCCCAAGCTGTACTGAA	0.458													6	38					0	0	1	0	0		A	75873672	A	A	75873672	3	1	199	1	0	0	0	0	1	0	0	0	15647	971	34	2	966	2	TBC1D4	13	75873672	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7407	75873672	39296206	867	98259											
SLAIN1	122060	broad.mit.edu	37	chr13	78293734	78293734	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgactcctttgcagtggtgtAgacatgtcctagataaccca	10	12	9	10	0	0	3	0	1	0	2	2	3	2	3	3	1	2	2	3	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:78293734A>G	uc010thy.1	+	2	245	c.202A>G	c.(202-204)AGA>GGA	p.R68G	SLAIN1_uc001vkk.1_5'UTR	NM_144595	NP_653196	Q8ND83	SLAI1_HUMAN	SLAIN motif family, member 1 B	210										ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0853)		GCAGTGGTGTAGACATGTCCT	0.418													24	121					0	0	1	0	0		G	78293734	G	G	78293734	3	3	199	1	0	0	0	0	1	0	0	0	14390	435	15	3		3	SLAIN1	13	78293734	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2420062	78293734	36876144	868	98260											
POU4F1	5457	broad.mit.edu	37	chr13	79175721	79175721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggagcgcttctcgggcgcGgcgatggaagtccgcttgcg	5	7	18	11	7	1	0	0	0	1	0	3	3	2	2	1	4	2	2	1	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:79175721G>A	uc001vkv.2	-	2	1323	c.1089C>T	c.(1087-1089)GCC>GCT	p.A363A	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	363	Homeobox.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		TCTCGGGCGCGGCGATGGAAG	0.652													11	36					0	0	1	0	0		A	79175721	A	A	79175721	2	1	199	1	0	0	0	0	0	0	0	1	12297	1103	39	1		1	POU4F1	13	79175721	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	881987	79175721	35994157	869	98261											
SLITRK5	26050	broad.mit.edu	37	chr13	88328903	88328903	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgtatctgacagagaactaCatcgctgtcgtgcgcaggac	11	9	11	10	3	1	2	0	1	1	1	3	4	1	3	0	1	3	3	0	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:88328903C>A	uc001vln.2	+	2	1479	c.1260C>A	c.(1258-1260)TAC>TAA	p.Y420*	SLITRK5_uc010tic.1_Nonsense_Mutation_p.Y179*	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	420	LRR 7.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					CAGAGAACTACATCGCTGTCG	0.567													4	31					0.150653	0.151066	1	1	0		A	88328903	A	A	88328903	4	1	199	1	0	0	0	0	0	1	0	0	14771	489	17	5	1262	5	SLITRK5	13	88328903	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9153182	88328903	26840975	870	98262											
SLITRK5	26050	broad.mit.edu	37	chr13	88329623	88329623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcggaggggcgtcgtcGgtgcccttgtctgtgttaat	4	11	17	9	4	1	0	0	0	1	0	3	1	1	1	1	5	1	2	1	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:88329623G>A	uc001vln.2	+	2	2199	c.1980G>A	c.(1978-1980)TCG>TCA	p.S660S	SLITRK5_uc010tic.1_Silent_p.S419S	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	660	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					GGGCGTCGTCGGTGCCCTTGT	0.642													7	24					0	0	1	0	0		A	88329623	A	A	88329623	2	1	199	1	0	0	0	0	0	0	0	1	14771	1103	39	1		1	SLITRK5	13	88329623	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	720	88329623	26840255	871	98263											
CLDN10	9071	broad.mit.edu	37	chr13	96086249	96086249	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggatgaactgcgcaggtaaCgcgttgggttctttccattg	7	13	13	8	3	1	1	0	1	1	0	2	2	2	2	1	3	3	4	1	3	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:96086249C>T	uc001vmg.2	+	1	397	c.162C>T	c.(160-162)AAC>AAT	p.N54N	CLDN10_uc010tii.1_Intron	NM_182848	NP_878268	P78369	CLD10_HUMAN	claudin 10 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.18)			GCGCAGGTAACGCGTTGGGTT	0.488													10	70					0	0	1	0	0		T	96086249	T	T	96086249	2	4	199	1	0	0	0	0	0	0	0	1	3475	535	19	1		1	CLDN10	13	96086249	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7756626	96086249	19083629	872	98264											
DOCK9	23348	broad.mit.edu	37	chr13	99459997	99459997	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagtctctgagaaatttccGacagcggtgtgagtttgggt	8	12	15	6	2	1	2	0	2	1	1	3	5	2	3	1	3	1	1	1	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:99459997G>A	uc001vnt.2	-	50	5532	c.5477C>T	c.(5476-5478)TCG>TTG	p.S1826L	DOCK9_uc001vnw.2_Missense_Mutation_p.S1825L|DOCK9_uc001vnq.2_Missense_Mutation_p.S373L|DOCK9_uc001vnr.2_Missense_Mutation_p.S455L|DOCK9_uc010tin.1_Missense_Mutation_p.S444L|DOCK9_uc001vns.2_Missense_Mutation_p.S361L|DOCK9_uc010tio.1_Missense_Mutation_p.S481L|DOCK9_uc010tip.1_Missense_Mutation_p.S522L	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1826	DHR-2.				blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					AGAAATTTCCGACAGCGGTGT	0.393													15	41					0	0	1	0	0		A	99459997	A	A	99459997	3	1	199	1	0	0	0	0	1	0	0	0	4700	1059	37	1	760	1	DOCK9	13	99459997	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3373748	99459997	15709881	873	98265											
NALCN	259232	broad.mit.edu	37	chr13	101714336	101714336	+	Missense_Mutation	SNP	A	G	G	1	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	tcacagctctgatgcgcttcAggcacttcttgagccacatg	8	11	9	13	1	4	2	2	2	2	0	4	2	4	2	1	1	3	3	1	1	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:101714336A>G	uc001vox.1	-	41	4928	c.4739T>C	c.(4738-4740)CTG>CCG	p.L1580P		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1580	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GATGCGCTTCAGGCACTTCTT	0.483													22	63					0	0	1	0	0		G	101714336	G	G	101714336	3	3	199	1	0	0	0	0	1	0	0	0	10166	188	7	3	493	3	NALCN	13	101714336	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2254339	101714336	13455542	874	98266											
COL4A2	1284	broad.mit.edu	37	chr13	111164351	111164351	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgtctagaggacttccGcgccacaccattcatcgaat	10	9	8	14	3	2	1	1	0	1	1	4	3	3	2	3	1	1	1	3	1	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:111164351G>T	uc001vqx.2	+	48	5241	c.4952G>T	c.(4951-4953)CGC>CTC	p.R1651L		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	1651	Collagen IV NC1.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GAGGACTTCCGCGCCACACCA	0.617													19	108					4.96729e-08	5.33902e-08	1	1	0		T	111164351	T	T	111164351	3	4	199	1	0	0	0	0	1	0	0	0	3693	1087	38	5	5138	5	COL4A2	13	111164351	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	9450015	111164351	4005527	875	98267											
MCF2L	23263	broad.mit.edu	37	chr13	113742666	113742666	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aactcctgagattaaagccgCgtgggtgaatgaaattcgga	13	9	12	7	3	0	3	0	3	0	1	2	5	1	4	2	2	2	0	2	2	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:113742666C>T	uc001vsu.2	+	24	2907	c.2885C>T	c.(2884-2886)GCG>GTG	p.A962V	MCF2L_uc001vsq.2_Missense_Mutation_p.A962V|MCF2L_uc010tjr.1_Missense_Mutation_p.A905V|MCF2L_uc001vsr.2_Missense_Mutation_p.A909V|MCF2L_uc001vss.3_Missense_Mutation_p.A903V|MCF2L_uc010tjs.1_Missense_Mutation_p.A903V	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	935	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				ATTAAAGCCGCGTGGGTGAAT	0.552													19	69					0	0	1	0	0		T	113742666	T	T	113742666	3	4	199	1	0	0	0	0	1	0	0	0	9397	768	27	1	3074	1	MCF2L	13	113742666	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2578315	113742666	1427212	876	98268											
PCID2	55795	broad.mit.edu	37	chr13	113838692	113838692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgctgtcaaacatagccttgCgtccaacgtagtatttgtat	10	13	8	10	3	1	0	1	0	0	0	2	0	2	0	2	0	4	4	2	0	6	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:113838692C>T	uc010tju.1	-	9	734	c.653G>A	c.(652-654)CGC>CAC	p.R218H	PCID2_uc001vtb.2_Missense_Mutation_p.R51H|PCID2_uc010tjv.1_Missense_Mutation_p.R218H|PCID2_uc010tjw.1_Missense_Mutation_p.R218H|PCID2_uc001vte.2_Missense_Mutation_p.R111H|PCID2_uc001vtd.2_Missense_Mutation_p.R111H|PCID2_uc001vtf.2_Missense_Mutation_p.R111H	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2	218					negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			CATAGCCTTGCGTCCAACGTA	0.358													26	106					0	0	1	0	0		T	113838692	T	T	113838692	3	4	199	1	0	0	0	0	1	0	0	0	11598	768	27	1	570	1	PCID2	13	113838692	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	96026	113838692	1331186	877	98269											
GAS6	2621	broad.mit.edu	37	chr13	114538550	114538550	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaggcaggagtaggagccGggcaggttcttgcagcgcgc	8	5	18	10	3	1	1	0	0	1	1	1	3	1	3	1	5	3	5	1	5	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr13:114538550G>A	uc001vud.2	-	7	801	c.648C>T	c.(646-648)CCC>CCT	p.P216P	GAS6_uc001vug.2_5'Flank|GAS6_uc001vuf.2_5'UTR	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	216	EGF-like 3; calcium-binding (Potential).				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				AGTAGGAGCCGGGCAGGTTCT	0.627													10	58					0	0	1	0	0		A	114538550	A	A	114538550	2	1	199	1	0	0	0	0	0	0	0	1	6264	1103	39	1		1	GAS6	13	114538550	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	699858	114538550	631328	878	98270											
TEP1	7011	broad.mit.edu	37	chr14	20841475	20841475	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtacagaaccatcctcagaGgcggtcagcatgaggcctga	11	6	12	12	2	2	4	2	2	0	2	3	4	3	4	3	3	3	2	3	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:20841475G>T	uc001vxe.2	-	47	6808	c.6768C>A	c.(6766-6768)GCC>GCA	p.A2256A	TEP1_uc010ahj.1_5'Flank|TEP1_uc010ahk.2_Silent_p.A1599A|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.A2148A|TEP1_uc010tlh.1_Silent_p.A594A	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	2256	WD 15.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		CATCCTCAGAGGCGGTCAGCA	0.567													10	84					1.11149e-13	1.228e-13	1	1	0		T	20841475	T	T	20841475	2	4	199	1	0	0	0	0	0	0	0	1	15784	987	35	5		5	TEP1	14	20841475	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08		20841475	86508065	879	98271											
FLJ10357	55701	broad.mit.edu	37	chr14	21543656	21543656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atctggattcctcatcctgaCgggtcagtgggcatcagtgg	7	11	13	10	1	4	1	3	1	1	0	6	2	6	2	2	4	0	1	2	4	0	1	rs143657914		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:21543656C>T	uc001vzp.2	+	4	1645	c.1616C>T	c.(1615-1617)ACG>ATG	p.T539M	FLJ10357_uc001vzn.1_Missense_Mutation_p.T539M|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_Translation_Start_Site	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	539					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		CTCATCCTGACGGGTCAGTGG	0.562													24	79					0	0	1	0	0		T	21543656	T	T	21543656	3	4	199	1	0	0	0	0	1	0	0	0	5940	536	19	1	1630	1	FLJ10357	14	21543656	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	702181	21543656	85805884	880	98272											
RPGRIP1	57096	broad.mit.edu	37	chr14	21769213	21769213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgctctcggagaccgcaaggCgcgggcagaaggcgggatgg	8	3	19	11	6	1	2	0	0	1	2	2	4	1	3	1	6	0	3	1	6	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:21769213C>T	uc001wag.2	+	3	307	c.307C>T	c.(307-309)CGC>TGC	p.R103C		NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	103					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		GACCGCAAGGCGCGGGCAGAA	0.706													5	34					0	0	1	0	0		T	21769213	T	T	21769213	3	4	199	1	0	0	0	0	1	0	0	0	13574	768	27	1	317	1	RPGRIP1	14	21769213	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	225557	21769213	85580327	881	98273											
MYH6	4624	broad.mit.edu	37	chr14	23869597	23869597	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagaactgctgcagcttctcGttggtgaagttgatgcagag	10	11	13	7	1	1	4	0	2	1	2	2	4	1	4	0	1	5	6	0	1	3	3	rs145447555	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:23869597G>A	uc001wjv.2	-	14	1516	c.1449C>T	c.(1447-1449)AAC>AAT	p.N483N	MYH6_uc010akp.1_Silent_p.N483N	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	483	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GCAGCTTCTCGTTGGTGAAGT	0.537													24	74					0	0	1	0	0		A	23869597	A	A	23869597	2	1	199	1	0	0	0	0	0	0	0	1	10056	1136	40	1		1	MYH6	14	23869597	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2100384	23869597	83479943	882	98274											
PSME1	5720	broad.mit.edu	37	chr14	24607279	24607279	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccacctggttgcagctgCagatacctcggattgaggat	9	10	11	11	1	1	2	1	1	0	1	2	4	1	4	3	3	4	4	3	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:24607279C>T	uc001wmg.2	+	7	506	c.412C>T	c.(412-414)CAG>TAG	p.Q138*	PSME1_uc001wmh.2_Nonsense_Mutation_p.Q138*	NM_006263	NP_006254	Q06323	PSME1_HUMAN	proteasome activator subunit 1 isoform 1	138					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|proteasome activator complex				ovary(1)	1				GBM - Glioblastoma multiforme(265;0.00831)		GTTGCAGCTGCAGATACCTCG	0.532													16	91					0	0	1	0	0		T	24607279	T	T	24607279	4	4	199	1	0	0	0	0	0	1	0	0	12728	711	25	2	438	2	PSME1	14	24607279	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	737682	24607279	82742261	883	98275											
RNF31	55072	broad.mit.edu	37	chr14	24626574	24626574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaacgacccagaataccagGcccagggcctagcaatgtat	13	6	10	12	1	0	2	0	1	0	1	0	3	0	2	4	2	3	2	4	2	6	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:24626574G>A	uc001wmn.1	+	15	2818	c.2569G>A	c.(2569-2571)GCC>ACC	p.A857T	RNF31_uc001wml.1_Missense_Mutation_p.A706T|RNF31_uc010alg.1_Missense_Mutation_p.A616T|RNF31_uc001wmo.1_Missense_Mutation_p.A324T|RNF31_uc001wmp.2_RNA|RNF31_uc010alh.1_Missense_Mutation_p.A41T	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	857	IBR-type 2.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		AGAATACCAGGCCCAGGGCCT	0.562													9	16					0	0	1	0	0		A	24626574	A	A	24626574	3	1	199	1	0	0	0	0	1	0	0	0	13512	1203	42	2	2627	2	RNF31	14	24626574	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	19295	24626574	82722966	884	98276											
AKAP6	9472	broad.mit.edu	37	chr14	33291716	33291716	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccttttatctcatagttCatctattgagtccctttctc	6	19	3	13	0	4	1	2	1	3	0	8	1	6	1	2	0	0	1	2	0	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:33291716C>A	uc001wrq.2	+	13	4867	c.4697C>A	c.(4696-4698)TCA>TAA	p.S1566*		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1566	Ser-rich.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TCTCATAGTTCATCTATTGAG	0.408													25	103					9.80776e-20	1.0985e-19	1	1	0		A	33291716	A	A	33291716	4	1	199	1	0	0	0	0	0	1	0	0	455	838	29	5	4743	5	AKAP6	14	33291716	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	8665142	33291716	74057824	885	98277											
KIAA0391	9692	broad.mit.edu	37	chr14	35742707	35742707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcacataccatatgatgaaGacttggtagaaagatgttcc	14	10	10	7	0	0	5	0	2	0	3	1	5	1	5	2	2	1	3	2	2	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:35742707G>A	uc001wsy.1	+	8	2047	c.1687G>A	c.(1687-1689)GAC>AAC	p.D563N	KIAA0391_uc010tps.1_Missense_Mutation_p.D468N|KIAA0391_uc001wsz.1_Missense_Mutation_p.D547N|KIAA0391_uc001wta.2_RNA|KIAA0391_uc001wtb.1_Missense_Mutation_p.D547N|KIAA0391_uc001wtc.1_Missense_Mutation_p.D191N	NM_014672	NP_055487	O15091	MRRP3_HUMAN	mitochondrial RNase P protein 3 precursor	563					tRNA processing	mitochondrion					0	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;2.93e-05)|LUAD - Lung adenocarcinoma(48;3.86e-05)|Epithelial(34;0.0114)|all cancers(34;0.0277)	GBM - Glioblastoma multiforme(112;0.0593)		ATATGATGAAGACTTGGTAGA	0.403													9	54					0	0	1	0	0		A	35742707	A	A	35742707	3	1	199	1	0	0	0	0	1	0	0	0	8188	942	33	4	1713	4	KIAA0391	14	35742707	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2450991	35742707	71606833	886	98278											
MGAT2	4247	broad.mit.edu	37	chr14	50088553	50088553	+	Silent	SNP	A	G	G	1	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	ttgtaccctaacgagtttccAggtagtgaccctagagattg	10	12	10	9	1	0	2	0	1	0	1	1	4	1	2	3	1	2	3	3	1	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:50088553A>G	uc001wwr.2	+	1	1065	c.567A>G	c.(565-567)CCA>CCG	p.P189P	SDCCAG1_uc010anj.1_Intron|RPL36AL_uc001wwq.1_5'Flank	NM_002408	NP_002399	Q10469	MGAT2_HUMAN	mannosyl (alpha-1,6-)-glycoprotein	189	Lumenal (Potential).				oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|Golgi stack|integral to membrane|membrane fraction	alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity				0	all_epithelial(31;0.0021)|Breast(41;0.0124)					ACGAGTTTCCAGGTAGTGACC	0.507													25	129					0	0	1	0	0		G	50088553	G	G	50088553	2	3	199	1	0	0	0	0	0	0	0	1	9561	175	7	3		3	MGAT2	14	50088553	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	14345846	50088553	57260987	887	98279											
NIN	51199	broad.mit.edu	37	chr14	51226994	51226994	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttctaaggtgtgcgtttcGttctcatgcctttgcttcat	4	20	8	9	2	3	0	2	0	2	0	5	0	3	0	1	1	3	3	1	1	1	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:51226994G>A	uc001wym.2	-	17	2171	c.1980C>T	c.(1978-1980)AAC>AAT	p.N660N	NIN_uc001wyi.2_Silent_p.N660N|NIN_uc001wyj.2_RNA|NIN_uc001wyk.2_Silent_p.N660N|NIN_uc010tqp.1_Silent_p.N666N|NIN_uc001wyo.2_Silent_p.N660N	NM_182946	NP_891991	Q8N4C6	NIN_HUMAN	ninein isoform 5	660	Potential.				centrosome localization	centrosome|microtubule	calcium ion binding|GTP binding|protein binding			skin(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6	all_epithelial(31;0.00244)|Breast(41;0.127)					TGTGCGTTTCGTTCTCATGCC	0.478			T	PDGFRB	MPD								21	59					0	0	1	0	0		A	51226994	A	A	51226994	2	1	199	1	0	0	0	0	0	0	0	1	10436	1136	40	1		1	NIN	14	51226994	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1138441	51226994	56122546	888	98280											
PYGL	5836	broad.mit.edu	37	chr14	51411117	51411117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtccgtcaggggcttcGccatggctggggcggcgggc	2	7	19	13	4	1	0	1	0	0	0	3	0	2	0	3	8	0	2	3	8	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:51411117G>A	uc001wyu.2	-	1	132	c.5C>T	c.(4-6)GCG>GTG	p.A2V	PYGL_uc010tqq.1_Missense_Mutation_p.A2V|PYGL_uc001wyv.2_5'UTR|PYGL_uc001wyw.3_Missense_Mutation_p.A2V	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	2				AK -> GE (in Ref. 1; AAA52577 and 3; AAC18079).	glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	CAGGGGCTTCGCCATGGCTGG	0.602													3	13					0	0	1	0	0		A	51411117	A	A	51411117	3	1	199	1	0	0	0	0	1	0	0	0	12886	1087	38	1	2618	1	PYGL	14	51411117	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	184123	51411117	55938423	889	98281											
KIAA0586	9786	broad.mit.edu	37	chr14	58954677	58954677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tactacacctcctccagcggCggcagtttttaccccaactt	8	11	6	16	2	0	0	0	0	0	0	2	0	2	0	5	2	5	2	5	2	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:58954677C>T	uc001xdv.3	+	22	3422	c.3149C>T	c.(3148-3150)GCG>GTG	p.A1050V	KIAA0586_uc010trr.1_Missense_Mutation_p.A1167V|KIAA0586_uc001xdt.3_Missense_Mutation_p.A1082V|KIAA0586_uc001xdu.3_Missense_Mutation_p.A1111V|KIAA0586_uc010trs.1_Missense_Mutation_p.A1041V|KIAA0586_uc010trt.1_Missense_Mutation_p.A986V|KIAA0586_uc010tru.1_Missense_Mutation_p.A986V	NM_014749	NP_055564	E9PGW8	E9PGW8_HUMAN	talpid3 protein	1050										ovary(1)	1						CCTCCAGCGGCGGCAGTTTTT	0.448													3	22					0	0	1	0	0		T	58954677	T	T	58954677	3	4	199	1	0	0	0	0	1	0	0	0	8202	768	27	1	3235	1	KIAA0586	14	58954677	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7543560	58954677	48394863	890	98282											
C14orf149	112849	broad.mit.edu	37	chr14	59942860	59942860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttggttccttggtataagCatcttttccatctgttaata	8	18	8	7	0	2	0	0	0	2	0	4	0	4	0	2	3	1	5	2	3	4	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:59942860C>T	uc001xee.1	-	3	790	c.751G>A	c.(751-753)GCT>ACT	p.A251T		NM_144581	NP_653182	Q96EM0	PRCM_HUMAN	proline racemase-like	251							proline racemase activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.14)	L-Proline(DB00172)	TTGGTATAAGCATCTTTTCCA	0.338													20	79					0	0	1	0	0		T	59942860	T	T	59942860	3	4	199	1	0	0	0	0	1	0	0	0	1755	710	25	2	325	2	C14orf149	14	59942860	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	988183	59942860	47406680	891	98283											
JKAMP	51528	broad.mit.edu	37	chr14	59961932	59961932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacactgtactcatgaagccGtctacccactgtaagtgttt	10	13	7	11	1	2	1	1	1	1	0	2	1	2	1	2	0	4	3	2	0	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:59961932G>A	uc001xei.3	+	4	992	c.490G>A	c.(490-492)GTC>ATC	p.V164I	JKAMP_uc001xef.3_Missense_Mutation_p.V150I|JKAMP_uc001xeh.3_Missense_Mutation_p.V144I|JKAMP_uc001xeg.3_Missense_Mutation_p.V158I|JKAMP_uc010try.1_Missense_Mutation_p.V87I|JKAMP_uc001xej.3_Missense_Mutation_p.V87I	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	165	Helical; (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						TCATGAAGCCGTCTACCCACT	0.318													20	33					0	0	1	0	0		A	59961932	A	A	59961932	3	1	199	1	0	0	0	0	1	0	0	0	7965	1145	40	1	462	1	JKAMP	14	59961932	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	19072	59961932	47387608	892	98284											
SYT16	83851	broad.mit.edu	37	chr14	62547763	62547763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcctggtaagaaacacagggGcaggacgaacatacagagag	16	3	14	8	1	0	2	0	0	0	2	0	5	0	3	1	4	3	2	1	4	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:62547763G>A	uc001xfu.1	+	4	1402	c.1205G>A	c.(1204-1206)GGC>GAC	p.G402D	SYT16_uc010tsd.1_3'UTR|SYT16_uc010tse.1_5'UTR	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	402	C2 1.									central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		AAACACAGGGGCAGGACGAAC	0.577													5	22					0	0	1	0	0		A	62547763	A	A	62547763	3	1	199	1	0	0	0	0	1	0	0	0	15497	1203	42	2	1219	2	SYT16	14	62547763	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2585831	62547763	44801777	893	98285											
SYNE2	23224	broad.mit.edu	37	chr14	64467370	64467370	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaatgacataaaaaagcctTttgtaattaaggaaagagac	19	10	8	4	0	0	3	0	2	0	1	0	5	0	4	1	1	1	1	1	1	7	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:64467370T>G	uc001xgm.2	+	28	3801	c.3571T>G	c.(3571-3573)TTT>GTT	p.F1191V	SYNE2_uc001xgl.2_Missense_Mutation_p.F1191V	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1191	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		AAAAAAGCCTTTTGTAATTAA	0.313													4	77					0	0	1	0	0		G	64467370	G	G	64467370	3	3	199	1	0	0	0	0	1	0	0	0	15471	1841	64	5	3677	5	SYNE2	14	64467370	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1919607	64467370	42882170	894	98286											
SPTB	6710	broad.mit.edu	37	chr14	65251050	65251050	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccatttattgtgaaggtttCgtgcttcatcataggagaca	10	14	10	7	1	2	2	2	1	0	1	3	3	2	2	1	2	1	2	1	2	3	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:65251050C>T	uc001xht.2	-	18	3971	c.3917G>A	c.(3916-3918)CGA>CAA	p.R1306Q	SPTB_uc001xhr.2_Missense_Mutation_p.R1306Q|SPTB_uc001xhs.2_Missense_Mutation_p.R1306Q|SPTB_uc001xhu.2_Missense_Mutation_p.R1306Q|SPTB_uc010aqi.2_5'Flank	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1306	Spectrin 10.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GTGAAGGTTTCGTGCTTCATC	0.478													24	105					0	0	1	0	0		T	65251050	T	T	65251050	3	4	199	1	0	0	0	0	1	0	0	0	15143	884	31	1	3210	1	SPTB	14	65251050	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	783680	65251050	42098490	895	98287											
SPTB	6710	broad.mit.edu	37	chr14	65253729	65253729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgatacctgccaggtccCgccccaggtcttttgtggac	6	10	11	14	2	1	1	0	1	1	0	2	3	2	2	5	3	2	0	5	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:65253729C>T	uc001xht.2	-	15	3008	c.2954G>A	c.(2953-2955)CGG>CAG	p.R985Q	SPTB_uc001xhr.2_Missense_Mutation_p.R985Q|SPTB_uc001xhs.2_Missense_Mutation_p.R985Q|SPTB_uc001xhu.2_Missense_Mutation_p.R985Q	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	985	Spectrin 7.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TGCCAGGTCCCGCCCCAGGTC	0.602													11	33					0	0	1	0	0		T	65253729	T	T	65253729	3	4	199	1	0	0	0	0	1	0	0	0	15143	652	23	1	4185	1	SPTB	14	65253729	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2679	65253729	42095811	896	98288											
FNTB	2342	broad.mit.edu	37	chr14	65392757	65392757	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	agaattgtcatcatgtaataGccagacatgagtatacattc	15	12	7	7	0	2	3	2	1	0	2	3	3	2	3	1	0	2	2	1	0	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:65392757G>C	uc010tsl.1	+	3	279	c.205G>C	c.(205-207)GCC>CCC	p.A69P	CHURC1_uc010tsj.1_Missense_Mutation_p.A69P|CHURC1_uc010tsk.1_Intron|FNTB_uc010tsm.1_Intron|CHURC1_uc001xhv.1_Missense_Mutation_p.A70P|CHURC1_uc001xhw.1_Missense_Mutation_p.A69P	NM_002028	NP_002019	P49356	FNTB_HUMAN	farnesyltransferase, CAAX box, beta	Error:Variant_position_missing_in_P49356_after_alignment					protein farnesylation	microtubule associated complex	protein binding|protein farnesyltransferase activity			ovary(1)	1				all cancers(60;0.00115)|OV - Ovarian serous cystadenocarcinoma(108;0.00412)|BRCA - Breast invasive adenocarcinoma(234;0.011)		TCATGTAATAGCCAGACATGA	0.289													39	182					0	0	1	0	0		C	65392757	C	C	65392757	3	2	199	1	0	0	0	0	1	0	0	0	5992	971	34	5		5	FNTB	14	65392757	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	139028	65392757	41956783	897	98289											
SLC8A3	6547	broad.mit.edu	37	chr14	70517819	70517819	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgatcagtttgtccacCgtagtctgttaagaagagaa	11	14	9	7	1	3	3	1	1	2	2	4	4	4	3	2	0	0	3	2	0	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:70517819C>T	uc001xly.2	-	6	2791	c.2037G>A	c.(2035-2037)ACG>ACA	p.T679T	SLC8A3_uc001xlu.2_Silent_p.T36T|SLC8A3_uc001xlv.2_Silent_p.T50T|SLC8A3_uc001xlw.2_Silent_p.T676T|SLC8A3_uc001xlx.2_Silent_p.T677T|SLC8A3_uc001xlz.2_Silent_p.T673T|SLC8A3_uc010ara.2_RNA|SLC8A3_uc001xma.2_Silent_p.T36T	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	679	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		GTTTGTCCACCGTAGTCTGTT	0.488													13	44					0	0	1	0	0		T	70517819	T	T	70517819	2	4	199	1	0	0	0	0	0	0	0	1	14733	639	23	1		1	SLC8A3	14	70517819	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5125062	70517819	36831721	898	98290											
PCNX	22990	broad.mit.edu	37	chr14	71479728	71479728	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcccacagattcgattgaaTagactattgaccattgatac	13	12	6	10	1	0	5	0	3	0	2	2	6	1	5	2	0	1	0	2	0	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:71479728T>C	uc001xmo.2	+	11	3251	c.2805T>C	c.(2803-2805)AAT>AAC	p.N935N	PCNX_uc010are.1_Silent_p.N824N|PCNX_uc010arf.1_5'UTR	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	935						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		TTCGATTGAATAGACTATTGA	0.348													19	86					0	0	1	0	0		C	71479728	C	C	71479728	2	2	199	1	0	0	0	0	0	0	0	1	11610	1403	49	3		3	PCNX	14	71479728	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	961909	71479728	35869812	899	98291											
HEATR4	399671	broad.mit.edu	37	chr14	73945320	73945320	+	Silent	SNP	A	G	G	1	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	aagtgttcagcttagagatgAgcacctttctttccagaggg	10	12	11	8	0	2	3	1	1	1	2	3	4	3	3	2	1	2	3	2	1	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:73945320A>G	uc010tua.1	-	18	3341	c.2931T>C	c.(2929-2931)GCT>GCC	p.A977A	uc001xoi.1_RNA	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		CTTAGAGATGAGCACCTTTCT	0.418													9	56					0	0	1	0	0		G	73945320	G	G	73945320	2	3	199	1	0	0	0	0	0	0	0	1	7046	291	11	3		3	HEATR4	14	73945320	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2465592	73945320	33404220	900	98292											
PNMA1	9240	broad.mit.edu	37	chr14	74179982	74179982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctgaaacccaaggacacGggcaacatcttgcacggtcc	11	7	10	13	2	2	1	0	1	2	0	3	2	3	2	2	3	3	3	2	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:74179982G>A	uc001xor.1	-	1	1147	c.361C>T	c.(361-363)CGT>TGT	p.R121C		NM_006029	NP_006020	Q8ND90	PNMA1_HUMAN	paraneoplastic antigen MA1	121					apoptosis|central nervous system development|inflammatory response to antigenic stimulus|spermatogenesis	cytoplasm|focal adhesion|nucleolus	protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00331)|KIRC - Kidney renal clear cell carcinoma(182;0.0797)		ccaaggacacgggcaacatct	0													30	101					0	0	1	0	0		A	74179982	A	A	74179982	3	1	199	1	0	0	0	0	1	0	0	0	12172	1116	39	1	704	1	PNMA1	14	74179982	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	234662	74179982	33169558	901	98293											
COQ6	51004	broad.mit.edu	37	chr14	74428588	74428588	+	Silent	SNP	T	C	C	0	1	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	tggggcttgcaggccacaaaTgcagtgtctccactcaaagt	10	9	11	11	0	2	0	1	0	1	0	3	0	2	0	2	3	2	3	2	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:74428588T>C	uc001xph.2	+	11	1439	c.1359T>C	c.(1357-1359)AAT>AAC	p.N453N	ENTPD5_uc001xpi.2_Intron|COQ6_uc001xpe.2_Silent_p.N378N|COQ6_uc001xpf.2_Silent_p.N378N|COQ6_uc010tuk.1_Silent_p.N428N|COQ6_uc001xpg.2_Intron	NM_182476	NP_872282	Q9Y2Z9	COQ6_HUMAN	coenzyme Q6 homolog isoform a	453					ubiquinone biosynthetic process	mitochondrion	flavin adenine dinucleotide binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of one atom of oxygen				0				BRCA - Breast invasive adenocarcinoma(234;0.00337)		AGGCCACAAATGCAGTGTCTC	0.398													18	112					0	0	1	0	0		C	74428588	C	C	74428588	2	2	199	1	0	0	0	0	0	0	0	1	3752	1461	51	3		3	COQ6	14	74428588	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	248606	74428588	32920952	902	98294											
LTBP2	4053	broad.mit.edu	37	chr14	75002696	75002696	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggccattctcaatcacCggggaggctgaagagtggag	10	7	15	9	1	2	2	2	1	1	1	3	4	2	4	2	5	1	2	2	5	2	1	rs144293300	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:75002696C>T	uc001xqa.2	-	9	2184	c.1797G>A	c.(1795-1797)CCG>CCA	p.P599P		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	599	TB 1.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		TCTCAATCACCGGGGAGGCTG	0.622													13	52					0	0	1	0	0		T	75002696	T	T	75002696	2	4	199	1	0	0	0	0	0	0	0	1	9092	639	23	1		1	LTBP2	14	75002696	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	574108	75002696	32346844	903	98295											
ESRRB	2103	broad.mit.edu	37	chr14	76905756	76905756	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttcatcaagactgagccGtccagcccgtcctcgggcat	7	9	9	16	3	2	2	2	1	0	1	6	2	5	2	5	1	2	1	5	1	1	1	rs1064434		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:76905756G>A	uc001xsq.1	+	2	127	c.60G>A	c.(58-60)CCG>CCA	p.P20P	ESRRB_uc001xsr.2_Silent_p.P20P|ESRRB_uc001xso.2_RNA	NM_004452	NP_004443	A2VDJ2	A2VDJ2_HUMAN	estrogen-related receptor beta	20						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0213)		AGACTGAGCCGTCCAGCCCGT	0.672													6	56					0	0	1	0	0		A	76905756	A	A	76905756	2	1	199	1	0	0	0	0	0	0	0	1	5269	1132	40	1		1	ESRRB	14	76905756	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1903060	76905756	30443784	904	98296											
C14orf174	161394	broad.mit.edu	37	chr14	77846757	77846757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacaaacttcatcagtggccGaaaactcattcacgtcaact	14	9	5	13	2	5	0	5	0	0	0	5	1	5	0	1	1	3	0	1	1	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:77846757G>A	uc001xtq.1	+	2	1721	c.1721G>A	c.(1720-1722)CGA>CAA	p.R574Q		NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	574	SAM.										0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		ATCAGTGGCCGAAAACTCATT	0.363													16	66					0	0	1	0	0		A	77846757	A	A	77846757	3	1	199	1	0	0	0	0	1	0	0	0	1762	1058	37	1	1727	1	C14orf174	14	77846757	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	941001	77846757	29502783	905	98297											
NRXN3	9369	broad.mit.edu	37	chr14	80164095	80164095	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtttgaaagtactgaacatgGcggctgagaacaaccccaat	14	8	10	9	1	0	3	0	3	0	1	0	4	0	3	2	2	4	3	2	2	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:80164095G>C	uc001xun.2	+	15	3111	c.2620G>C	c.(2620-2622)GCG>CCG	p.A874P	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.A242P|NRXN3_uc010asw.2_Missense_Mutation_p.A272P|NRXN3_uc001xur.3_Missense_Mutation_p.A242P	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1247	Extracellular (Potential).|Laminin G-like 6.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		ACTGAACATGGCGGCTGAGAA	0.483													9	46					0	0	1	0	0		C	80164095	C	C	80164095	3	2	199	1	0	0	0	0	1	0	0	0	10686	1203	42	5	3015	5	NRXN3	14	80164095	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2317338	80164095	27185445	906	98298											
STON2	85439	broad.mit.edu	37	chr14	81837459	81837459	+	Silent	SNP	A	G	G	1	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	tgggtggtccagctgctctcAgaagtcagagggcatctccc	7	9	13	12	0	3	2	2	0	2	2	6	2	4	2	2	3	2	3	2	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:81837459A>G	uc010tvu.1	-	3	645	c.444T>C	c.(442-444)TCT>TCC	p.S148S	STON2_uc001xvk.1_Silent_p.S148S	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	148					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		AGCTGCTCTCAGAAGTCAGAG	0.532													11	113					0	0	1	0	0		G	81837459	G	G	81837459	2	3	199	1	0	0	0	0	0	0	0	1	15343	175	7	3		3	STON2	14	81837459	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1673364	81837459	25512081	907	98299											
PTPN21	11099	broad.mit.edu	37	chr14	88945359	88945359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtccctccgggctcggtagcGgcctgacgtggtgaggtcgg	3	8	18	12	5	0	2	0	2	0	0	4	2	2	2	3	6	1	2	3	6	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:88945359G>A	uc001xwv.3	-	13	2747	c.2416C>T	c.(2416-2418)CGC>TGC	p.R806C	PTPN21_uc010twc.1_Missense_Mutation_p.R602C	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	806						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						GCTCGGTAGCGGCCTGACGTG	0.657													17	48					0	0	1	0	0		A	88945359	A	A	88945359	3	1	199	1	0	0	0	0	1	0	0	0	12811	1116	39	1	1136	1	PTPN21	14	88945359	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7107900	88945359	18404181	908	98300											
PTPN21	11099	broad.mit.edu	37	chr14	88946027	88946027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgctgctgatgtaaaggtggCgggacaggtctggcgtgctg	6	10	18	7	2	1	1	0	1	1	0	1	2	1	2	0	5	3	4	0	5	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:88946027C>T	uc001xwv.3	-	13	2079	c.1748G>A	c.(1747-1749)CGC>CAC	p.R583H	PTPN21_uc010twc.1_Missense_Mutation_p.R379H	NM_007039	NP_008970	Q16825	PTN21_HUMAN	protein tyrosine phosphatase, non-receptor type	583						cytoplasm|cytoskeleton	binding|protein tyrosine phosphatase activity			ovary(3)|skin(1)	4						GTAAAGGTGGCGGGACAGGTC	0.677													5	17					0	0	1	0	0		T	88946027	T	T	88946027	3	4	199	1	0	0	0	0	1	0	0	0	12811	768	27	1	1804	1	PTPN21	14	88946027	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	668	88946027	18403513	909	98301											
BTBD7	55727	broad.mit.edu	37	chr14	93760654	93760654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtaatcaaagagtccacGcatatctacatcaagggaat	16	9	7	9	1	3	1	2	0	1	1	4	2	4	2	1	1	1	2	1	1	6	3	rs143569452		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:93760654G>A	uc001ybo.2	-	3	1038	c.712C>T	c.(712-714)CGT>TGT	p.R238C	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Missense_Mutation_p.R153C|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_Missense_Mutation_p.R153C|BTBD7_uc001ybr.2_Missense_Mutation_p.R238C	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	238										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		AAGAGTCCACGCATATCTACA	0.383													13	51					0	0	1	0	0		A	93760654	A	A	93760654	3	1	199	1	0	0	0	0	1	0	0	0	1549	1087	38	1	2797	1	BTBD7	14	93760654	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4814627	93760654	13588886	910	98302											
KIAA1409	57578	broad.mit.edu	37	chr14	94173056	94173056	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccctttttcgacagcacttaTctgcgggactccagcttcgc	6	12	8	15	3	1	0	0	0	1	0	4	2	2	1	2	1	3	2	2	1	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:94173056T>A	uc001ybv.1	+	48	7332	c.7249T>A	c.(7249-7251)TCT>ACT	p.S2417T	KIAA1409_uc001ybs.1_Missense_Mutation_p.S2395T	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	2572						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		ACAGCACTTATCTGCGGGACT	0.577													20	71					0	0	1	0	0		A	94173056	A	A	94173056	3	1	199	1	0	0	0	0	1	0	0	0	8246	1435	50	5	7369	5	KIAA1409	14	94173056	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	412402	94173056	13176484	911	98303											
DICER1	23405	broad.mit.edu	37	chr14	95574428	95574428	+	Silent	SNP	A	G	G	1	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	gtgtacacaggaaagtgtggAatcttagcaaaaggaaatgt	16	9	12	4	0	1	0	0	0	1	0	1	3	1	3	0	3	2	2	0	3	7	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:95574428A>G	uc001ydw.2	-	17	2621	c.2439T>C	c.(2437-2439)ATT>ATC	p.I813I	DICER1_uc010avh.1_5'Flank|DICER1_uc001ydv.2_Silent_p.I803I|DICER1_uc001ydx.2_Silent_p.I813I	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	813					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GAAAGTGTGGAATCTTAGCAA	0.373			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				6	22					0	0	1	0	0		G	95574428	G	G	95574428	2	3	199	1	0	0	0	0	0	0	0	1	4527	242	9	3		3	DICER1	14	95574428	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1401372	95574428	11775112	912	98304											
DICER1	23405	broad.mit.edu	37	chr14	95590932	95590932	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtatttctgtagttctcttAccatcattccagctacttta	8	19	4	10	0	3	0	1	0	2	0	5	0	4	0	2	0	3	4	2	0	5	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:95590932A>G	uc001ydw.2	-	9	1159	c.977T>C	c.(976-978)GTA>GCA	p.V326A	DICER1_uc001ydv.2_Missense_Mutation_p.V316A|DICER1_uc001ydx.2_Missense_Mutation_p.V326A	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	326	Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		TAGTTCTCTTACCATCATTCC	0.378			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				22	57					0	0	1	0	0		G	95590932	G	G	95590932	3	3	199	1	0	0	0	0	1	0	0	0	4527	391	14	3	4871	3	DICER1	14	95590932	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	16504	95590932	11758608	913	98305											
CLMN	79789	broad.mit.edu	37	chr14	95670279	95670279	+	Silent	SNP	A	G	G	1	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	tgtttctgttccttttcctcAgcaacctcaactgccaagac	8	14	5	14	0	3	1	2	0	1	1	5	1	5	1	4	0	4	3	4	0	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:95670279A>G	uc001yef.2	-	9	1523	c.1407T>C	c.(1405-1407)GCT>GCC	p.A469A		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	469						integral to membrane	actin binding				0				Epithelial(152;0.193)		CCTTTTCCTCAGCAACCTCAA	0.468													3	24					0	0	1	0	0		G	95670279	G	G	95670279	2	3	199	1	0	0	0	0	0	0	0	1	3545	175	7	3		3	CLMN	14	95670279	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	79347	95670279	11679261	914	98306											
DYNC1H1	1778	broad.mit.edu	37	chr14	102452991	102452991	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggtggctggcttgaaaaAggaagtgcaggccctgatcg	9	10	15	7	1	0	2	0	2	0	0	1	3	0	3	1	5	1	3	1	5	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:102452991A>G	uc001yks.2	+	8	2593	c.2429A>G	c.(2428-2430)AAG>AGG	p.K810R		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	810	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GGCTTGAAAAAGGAAGTGCAG	0.517													3	102					0	0	1	0	0		G	102452991	G	G	102452991	3	3	199	1	0	0	0	0	1	0	0	0	4847	72	3	3	2459	3	DYNC1H1	14	102452991	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	6782712	102452991	4896549	915	98307											
DYNC1H1	1778	broad.mit.edu	37	chr14	102493518	102493518	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtaatgtttcagaatattcCgtcaacctcaaggccacttg	11	12	7	11	2	3	1	3	0	0	1	4	1	4	1	3	1	1	2	3	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:102493518C>T	uc001yks.2	+	45	8943	c.8779C>T	c.(8779-8781)CGT>TGT	p.R2927C		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2927	AAA 4 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CAGAATATTCCGTCAACCTCA	0.428													55	268					0	0	1	0	0		T	102493518	T	T	102493518	3	4	199	1	0	0	0	0	1	0	0	0	4847	652	23	1	8957	1	DYNC1H1	14	102493518	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	40527	102493518	4856022	916	98308											
DYNC1H1	1778	broad.mit.edu	37	chr14	102505519	102505519	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatgcaggaggtggagacCgtgtcccagcagtacctccc	8	7	13	13	1	1	1	1	0	0	1	3	3	3	2	4	3	3	3	4	3	1	1	rs149806996		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:102505519C>T	uc001yks.2	+	60	11552	c.11388C>T	c.(11386-11388)ACC>ACT	p.T3796T		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3796	Potential.				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						AGGTGGAGACCGTGTCCCAGC	0.577													8	77					0	0	1	0	0		T	102505519	T	T	102505519	2	4	199	1	0	0	0	0	0	0	0	1	4847	639	23	1		1	DYNC1H1	14	102505519	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	12001	102505519	4844021	917	98309											
TRAF3	7187	broad.mit.edu	37	chr14	103338278	103338278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagtccaaaatgtacagcGtgtcaagagagcatcgttaa	15	9	9	8	2	2	1	2	0	0	1	4	2	3	1	1	0	3	3	1	0	6	2	rs149018928		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:103338278G>A	uc001ymc.1	+	4	623	c.270G>A	c.(268-270)GCG>GCA	p.A90A	TRAF3_uc001yme.1_Silent_p.A90A|TRAF3_uc001ymd.1_Silent_p.A90A|TRAF3_uc010txy.1_Silent_p.A90A	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	90					apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		AATGTACAGCGTGTCAAGAGA	0.403													19	66					0	0	1	0	0		A	103338278	A	A	103338278	2	1	199	1	0	0	0	0	0	0	0	1	16465	1132	40	1		1	TRAF3	14	103338278	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	832759	103338278	4011262	918	98310											
CDC42BPB	9578	broad.mit.edu	37	chr14	103470322	103470322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgatccactggcagtcgccGttcaccagcacatcgcgctc	7	8	10	16	4	1	1	1	1	0	0	5	1	2	1	3	1	1	4	3	1	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:103470322G>A	uc001ymi.1	-	4	622	c.390C>T	c.(388-390)AAC>AAT	p.N130N		NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	130	Protein kinase.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		GGCAGTCGCCGTTCACCAGCA	0.622													5	30					0	0	1	0	0		A	103470322	A	A	103470322	2	1	199	1	0	0	0	0	0	0	0	1	3076	1136	40	1		1	CDC42BPB	14	103470322	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	132044	103470322	3879218	919	98311											
TDRD9	122402	broad.mit.edu	37	chr14	104508506	104508506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgcagcttcaagacattgCccgtcagaagcttttagggt	9	11	11	10	2	2	2	2	0	0	2	2	2	2	2	1	1	4	3	1	1	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:104508506C>T	uc001yom.3	+	34	3986	c.3956C>T	c.(3955-3957)GCC>GTC	p.A1319V	TDRD9_uc001yon.3_Missense_Mutation_p.A866V	NM_153046	NP_694591	Q8NDG6	TDRD9_HUMAN	tudor domain containing 9	1319					cell differentiation|DNA methylation involved in gamete generation|fertilization|gene silencing by RNA|male meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	nucleus|piP-body	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(2)|central_nervous_system(1)	3		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0768)				CAAGACATTGCCCGTCAGAAG	0.468													7	46					0	0	1	0	0		T	104508506	T	T	104508506	3	4	199	1	0	0	0	0	1	0	0	0	15761	739	26	2	4090	2	TDRD9	14	104508506	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1038184	104508506	2841034	920	98312											
ASPG	374569	broad.mit.edu	37	chr14	104570673	104570673	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgcagcctcccctgaagggCgtggtcatggagaccttcgg	6	9	14	12	2	1	2	1	1	0	1	3	3	2	2	4	4	2	1	4	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:104570673C>T	uc001yoq.1	+	8	846	c.786C>T	c.(784-786)GGC>GGT	p.G262G	ASPG_uc001yoo.1_Silent_p.G290G|ASPG_uc001yop.1_Silent_p.G262G|ASPG_uc001yor.1_Silent_p.G262G	NM_001080464	NP_001073933	Q86U10	LPP60_HUMAN	60 kDa lysophospholipase	262	Asparaginase.				lipid catabolic process		1-alkyl-2-acetylglycerophosphocholine esterase activity|asparaginase activity|lysophospholipase activity				0						CCCTGAAGGGCGTGGTCATGG	0.677													16	37					0	0	1	0	0		T	104570673	T	T	104570673	2	4	199	1	0	0	0	0	0	0	0	1	1053	755	27	1		1	ASPG	14	104570673	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	62167	104570673	2778867	921	98313											
INF2	64423	broad.mit.edu	37	chr14	105174271	105174271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgggtccccagccatcggcGggtgaacccacccacactgc	8	5	11	17	2	0	1	0	1	0	0	2	1	1	1	5	3	3	0	5	3	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:105174271G>A	uc001ypb.2	+	8	1810	c.1667G>A	c.(1666-1668)CGG>CAG	p.R556Q	INF2_uc010tyi.1_Missense_Mutation_p.R556Q|INF2_uc001ypc.2_Missense_Mutation_p.R556Q|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	556	FH2.				actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		AGCCATCGGCGGGTGAACCCA	0.662													11	34					0	0	1	0	0		A	105174271	A	A	105174271	3	1	199	1	0	0	0	0	1	0	0	0	7750	1116	39	1	1697	1	INF2	14	105174271	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	603598	105174271	2175269	922	98314											
AHNAK2	113146	broad.mit.edu	37	chr14	105407934	105407934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttcccagctacatcctcGtgggccagggacaggtcccc	6	9	10	16	1	1	0	0	0	1	0	5	1	4	1	5	3	2	1	5	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:105407934G>A	uc010axc.1	-	7	13974	c.13854C>T	c.(13852-13854)CAC>CAT	p.H4618H	AHNAK2_uc001ypx.2_Silent_p.H4518H	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4618						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTACATCCTCGTGGGCCAGGG	0.552													15	53					0	0	1	0	0		A	105407934	A	A	105407934	2	1	199	1	0	0	0	0	0	0	0	1	415	1136	40	1		1	AHNAK2	14	105407934	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	233663	105407934	1941606	923	98315											
MTA1	9112	broad.mit.edu	37	chr14	105936475	105936475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctacaagcccatcgccctgCgccagagccaggccctgccg	7	4	10	20	3	0	1	0	0	0	1	1	1	0	1	7	1	5	0	7	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:105936475C>T	uc001yqx.2	+	21	2258	c.2071C>T	c.(2071-2073)CGC>TGC	p.R691C	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Missense_Mutation_p.R456C|CRIP2_uc010tyr.1_5'Flank|CRIP2_uc001yrc.2_5'Flank	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	691					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		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)		CATCGCCCTGCGCCAGAGCCA	0.652													5	43					0	0	1	0	0		T	105936475	T	T	105936475	3	4	199	1	0	0	0	0	1	0	0	0	9926	768	27	1	2153	1	MTA1	14	105936475	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	528541	105936475	1413065	924	98316											
CRIP2	1397	broad.mit.edu	37	chr14	105945514	105945514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccggccctgcctgcgctgCgagcgctgcgggaagacact	6	5	14	16	5	0	1	0	0	0	1	0	3	0	2	3	2	5	2	3	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr14:105945514C>T	uc001yrd.1	+	6	528	c.459C>T	c.(457-459)TGC>TGT	p.C153C	CRIP2_uc010tyr.1_Silent_p.C227C|CRIP2_uc001yre.1_Silent_p.C153C|CRIP2_uc001yrf.1_RNA|CRIP2_uc001yrg.2_RNA|CRIP2_uc001yrh.1_RNA	NM_001312	NP_001303	P52943	CRIP2_HUMAN	cysteine-rich protein 2	153	LIM zinc-binding 2.						zinc ion binding				0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.235)		GCCTGCGCTGCGAGCGCTGCG	0.667													11	43					0	0	1	0	0		T	105945514	T	T	105945514	2	4	199	1	0	0	0	0	0	0	0	1	3878	776	27	1		1	CRIP2	14	105945514	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9039	105945514	1404026	925	98317											
ATP10A	57194	broad.mit.edu	37	chr15	25959170	25959170	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgctgtagccgttgctggcGatggccgaggtgggctggcc	3	9	18	11	3	0	0	0	0	0	0	0	2	0	0	3	5	3	5	3	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:25959170G>A	uc010ayu.2	-	10	2101	c.1995C>T	c.(1993-1995)ATC>ATT	p.I665I		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	665	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CGTTGCTGGCGATGGCCGAGG	0.682													10	26					0	0	1	0	0		A	25959170	A	A	25959170	2	1	199	1	0	0	0	0	0	0	0	1	1117	1048	37	1		1	ATP10A	15	25959170	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08		25959170	76572222	926	98318											
C15orf55	256646	broad.mit.edu	37	chr15	34640629	34640629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggtcctccaggccttcCgcctcagcctccaccaccag	6	6	10	19	1	1	0	1	0	0	0	5	1	5	1	9	3	1	0	9	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:34640629C>T	uc001zif.2	+	2	631	c.476C>T	c.(475-477)CCG>CTG	p.P159L	C15orf55_uc010ucc.1_Missense_Mutation_p.P187L|C15orf55_uc010ucd.1_Missense_Mutation_p.P177L	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	159	Pro-rich.					cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		CCAGGCCTTCCGCCTCAGCCT	0.587			T	BRD3|BRD4	lethal midline carcinoma								7	19					0	0	1	0	0		T	34640629	T	T	34640629	3	4	199	1	0	0	0	0	1	0	0	0	1806	652	23	1	482	1	C15orf55	15	34640629	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	8681459	34640629	67890763	927	98319											
GJD2	57369	broad.mit.edu	37	chr15	35045231	35045231	+	Silent	SNP	G	T	T	0	0	1	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	aacttcttatcttctcgtttGcccccaccactgcccccacc	6	12	3	20	1	3	0	0	0	3	0	4	0	3	0	6	0	3	1	6	0	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:35045231G>T	uc001zis.1	-	2	414	c.414C>A	c.(412-414)GGC>GGA	p.G138G	uc001zit.1_5'Flank	NM_020660	NP_065711	Q9UKL4	CXD2_HUMAN	gap junction protein, delta 2, 36kDa	138	Cytoplasmic (Potential).|Poly-Gly.				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_lung(180;9.67e-07)		all cancers(64;2.75e-18)|GBM - Glioblastoma multiforme(113;1.9e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0156)		CTTCTCGTTTGCCCCCACCAC	0.532													41	143					2.47872e-24	2.78263e-24	1	1	0		T	35045231	T	T	35045231	2	4	199	1	0	0	0	0	0	0	0	1	6432	1306	46	5		5	GJD2	15	35045231	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	404602	35045231	67486161	928	98320											
INO80	54617	broad.mit.edu	37	chr15	41364223	41364223	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcccgtagggcagctgctcGactttcttttgcatcttcat	5	15	9	12	2	3	0	1	0	2	0	4	1	3	0	1	1	4	5	1	1	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:41364223G>A	uc001zni.2	-	12	1642	c.1429C>T	c.(1429-1431)CGA>TGA	p.R477*	INO80_uc010ucu.1_RNA	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1	477	Assembles INO80 complex module consisting of conserved components ACTR8, ACTL6A and YY1.				cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						GCAGCTGCTCGACTTTCTTTT	0.378													11	47					0	0	1	0	0		A	41364223	A	A	41364223	4	1	199	1	0	0	0	0	0	1	0	0	7762	1066	37	1	3341	1	INO80	15	41364223	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6318992	41364223	61167169	929	98321											
RTF1	23168	broad.mit.edu	37	chr15	41762553	41762553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatccagtgaaaagtcagacCgctcatcacgaacatcatcg	15	7	7	12	3	4	2	4	1	0	1	6	3	5	2	2	0	1	1	2	0	4	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:41762553C>T	uc001zny.2	+	7	1000	c.988C>T	c.(988-990)CGC>TGC	p.R330C		NM_015138	NP_055953	Q92541	RTF1_HUMAN	Paf1/RNA polymerase II complex component	330	Glu-rich.				histone modification|regulation of transcription, DNA-dependent|transcription initiation, DNA-dependent	nucleoplasm	protein binding|single-stranded DNA binding			ovary(2)	2		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)		AAAGTCAGACCGCTCATCACG	0.448													67	273					0	0	1	0	0		T	41762553	T	T	41762553	3	4	199	1	0	0	0	0	1	0	0	0	13746	652	23	1	1014	1	RTF1	15	41762553	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	398330	41762553	60768839	930	98322											
SHF	90525	broad.mit.edu	37	chr15	45464123	45464123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgctggtctcactgttgCgcaccaggtagctggcctct	4	13	11	13	1	3	0	1	0	3	0	4	0	3	0	2	3	3	5	2	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:45464123C>T	uc001zuy.2	-	7	1538	c.1043G>A	c.(1042-1044)CGC>CAC	p.R348H	SHF_uc010uen.1_Missense_Mutation_p.R164H|SHF_uc010ueo.1_Missense_Mutation_p.R164H|SHF_uc010uep.1_Silent_p.A163A|SHF_uc010ueq.1_Intron|SHF_uc010uer.1_Intron|SHF_uc010ues.1_Missense_Mutation_p.R211H|SHF_uc010uet.1_Missense_Mutation_p.R164H|SHF_uc010ueu.1_Silent_p.A210A	NM_138356	NP_612365	Q7M4L6	SHF_HUMAN	Src homology 2 domain containing F	Error:Variant_position_missing_in_B3KTY1_after_alignment										ovary(1)	1		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)		CTCACTGTTGCGCACCAGGTA	0.587													10	34					0	0	1	0	0		T	45464123	T	T	45464123	3	4	199	1	0	0	0	0	1	0	0	0	14302	768	27	1	236	1	SHF	15	45464123	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3701570	45464123	57067269	931	98323											
MYO5A	4644	broad.mit.edu	37	chr15	52720753	52720753	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccttggtctttggatctagaTggtattccaaatcctgaaaa	11	14	8	8	0	2	2	0	1	2	1	4	3	4	3	3	3	0	1	3	3	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:52720753T>G	uc002aby.2	-	3	396	c.152A>C	c.(151-153)CAT>CCT	p.H51P	MYO5A_uc002abx.3_Missense_Mutation_p.H51P|MYO5A_uc010uge.1_Intron	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	51	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		TGGATCTAGATGGTATTCCAA	0.453													3	121					0	0	1	0	0		G	52720753	G	G	52720753	3	3	199	1	0	0	0	0	1	0	0	0	10096	1464	51	5	5571	5	MYO5A	15	52720753	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	7256630	52720753	49810639	932	98324											
KIAA1370	56204	broad.mit.edu	37	chr15	52877021	52877021	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacacttctcttcacttcttGtttaacaggtacagaaaaag	14	13	5	9	0	3	1	1	0	2	1	4	1	3	1	0	1	3	2	0	1	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:52877021G>A	uc002acg.3	-	12	3151	c.2998C>T	c.(2998-3000)CAA>TAA	p.Q1000*	KIAA1370_uc002ach.3_RNA|KIAA1370_uc010bfg.1_Nonsense_Mutation_p.Q912*|KIAA1370_uc002acf.3_Nonsense_Mutation_p.Q30*|KIAA1370_uc010ugf.1_Nonsense_Mutation_p.Q1007*	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204	1000											0				all cancers(107;0.0803)		TTCACTTCTTGTTTAACAGGT	0.368													3	30					0	0	1	0	0		A	52877021	A	A	52877021	4	1	199	1	0	0	0	0	0	1	0	0	8242	1386	48	4	240	4	KIAA1370	15	52877021	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	156268	52877021	49654371	933	98325											
PIGB	9488	broad.mit.edu	37	chr15	55611484	55611484	+	Frame_Shift_Del	DEL	G	-	-																															agcaagtgcggaatggagccGgggggcggagatgccagcct																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:55611484delG	uc002act.2	+	1	352	c.36delG	c.(34-36)CCGfs	p.P12fs	uc002acs.2_5'Flank|PIGB_uc010ugg.1_5'UTR	NM_004855	NP_004846	Q92521	PIGB_HUMAN	phosphatidylinositol glycan, class B	12					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	integral to membrane|intrinsic to endoplasmic reticulum membrane	glycolipid mannosyltransferase activity				0				all cancers(107;0.0255)		GAATGGAGCCGGGGGGCGGAG	0.577													7	13	---	---	---	---						.	-	55611484	-	-	55611484	7	5	199	1	0	1	0	1	0	0	0	0	11904	1103	39	0	38	0	PIGB	15	55611484	Frame_Shift_Del	DEL	G	TCGA-HF-7132-01A-11D-2053-08	2734463	55611484	46919908	934	98326											
RFX7	64864	broad.mit.edu	37	chr15	56386689	56386689	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tagcttgggagaataccatgGccagaaactgatgaattacc	14	9	10	8	0	0	4	0	2	0	2	0	5	0	4	3	2	4	1	3	2	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:56386689G>A	uc010bfn.2	-	9	3237	c.3237C>T	c.(3235-3237)GGC>GGT	p.G1079G	RFX7_uc010ugk.1_RNA|RFX7_uc002adn.1_Silent_p.G893G	NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	982					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						GAATACCATGGCCAGAAACTG	0.463													14	72					0	0	1	0	0		A	56386689	A	A	56386689	2	1	199	1	0	0	0	0	0	0	0	1	13293	1190	42	2		2	RFX7	15	56386689	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	775205	56386689	46144703	935	98327											
HERC1	8925	broad.mit.edu	37	chr15	64026998	64026998	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtaattccatccgttctcgTaatggaggtaacagcatggt	11	12	10	8	2	1	0	0	0	1	0	4	1	3	1	2	3	2	5	2	3	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:64026998T>C	uc002amp.2	-	13	2719	c.2571A>G	c.(2569-2571)TTA>TTG	p.L857L	HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	857					protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TCCGTTCTCGTAATGGAGGTA	0.393													4	18					0	0	1	0	0		C	64026998	C	C	64026998	2	2	199	1	0	0	0	0	0	0	0	1	7073	1635	57	3		3	HERC1	15	64026998	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	7640309	64026998	38504394	936	98328											
TRIP4	9325	broad.mit.edu	37	chr15	64687698	64687698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttactgaacctgacacgactGcagaggttaaaacacctttt	13	11	7	10	1	0	3	0	2	0	1	0	4	0	3	2	1	4	2	2	1	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:64687698G>A	uc002anm.2	+	3	416	c.373G>A	c.(373-375)GCA>ACA	p.A125T		NM_016213	NP_057297	Q15650	TRIP4_HUMAN	thyroid hormone receptor interactor 4	125					positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	ligand-dependent nuclear receptor binding|transcription coactivator activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3						TGACACGACTGCAGAGGTTAA	0.423													17	91					0	0	1	0	0		A	64687698	A	A	64687698	3	1	199	1	0	0	0	0	1	0	0	0	16584	1319	46	2	383	2	TRIP4	15	64687698	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	660700	64687698	37843694	937	98329											
ITGA11	22801	broad.mit.edu	37	chr15	68619070	68619070	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgttggtgaatcggtccccGccctcgtccaggtgggccct	3	10	13	15	3	0	1	0	1	0	0	4	1	2	1	5	4	0	1	5	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:68619070G>A	uc002ari.2	-	17	2220	c.2133C>T	c.(2131-2133)GGC>GGT	p.G711G	ITGA11_uc010bib.2_Silent_p.G711G	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	711	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	ATCGGTCCCCGCCCTCGTCCA	0.617													3	7					0	0	1	0	0		A	68619070	A	A	68619070	2	1	199	1	0	0	0	0	0	0	0	1	7890	1074	38	1		1	ITGA11	15	68619070	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3931372	68619070	33912322	938	98330											
GRAMD2	196996	broad.mit.edu	37	chr15	72459382	72459382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtccattgggaaggagccGtgccatcttgtgttttttga	7	14	12	8	1	1	1	0	1	1	0	2	3	2	3	3	2	2	1	3	2	1	5	rs141536149		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:72459382G>A	uc002atq.2	-	6	448	c.424C>T	c.(424-426)CGG>TGG	p.R142W	GRAMD2_uc010bis.2_Missense_Mutation_p.R142W	NM_001012642	NP_001012660	Q8IUY3	GRAM2_HUMAN	GRAM domain containing 2	142						integral to membrane					0						GGAAGGAGCCGTGCCATCTTG	0.572													14	86					0	0	1	0	0		A	72459382	A	A	72459382	3	1	199	1	0	0	0	0	1	0	0	0	6766	1144	40	1	668	1	GRAMD2	15	72459382	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3840312	72459382	30072010	939	98331											
MPI	4351	broad.mit.edu	37	chr15	75189976	75189976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccaatccctctgcaacgtGgtggcgtgctcttcattggg	6	11	11	13	2	3	0	1	0	2	0	4	0	4	0	2	3	3	2	2	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:75189976G>A	uc002azc.1	+	8	1182	c.1177G>A	c.(1177-1179)GGT>AGT	p.G393S	MPI_uc002azd.1_3'UTR|MPI_uc010ulx.1_Missense_Mutation_p.G343S|MPI_uc002aze.1_Missense_Mutation_p.G332S	NM_002435	NP_002426	P34949	MPI_HUMAN	mannose-6- phosphate isomerase	393					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	mannose-6-phosphate isomerase activity|zinc ion binding			ovary(2)	2						TCTGCAACGTGGTGGCGTGCT	0.552													10	93					0	0	1	0	0		A	75189976	A	A	75189976	3	1	199	1	0	0	0	0	1	0	0	0	9747	1348	47	4	1207	4	MPI	15	75189976	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2730594	75189976	27341416	940	98332											
SNX33	257364	broad.mit.edu	37	chr15	75941857	75941857	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggtgggctgggcaccaaCgggcaccctcccctcaacct	6	6	12	17	1	1	0	1	0	0	0	2	0	2	0	5	4	2	4	5	4	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:75941857C>T	uc002bau.2	+	1	510	c.414C>T	c.(412-414)AAC>AAT	p.N138N	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_5'Flank	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	138					cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						TGGGCACCAACGGGCACCCTC	0.642													4	72					0	0	1	0	0		T	75941857	T	T	75941857	2	4	199	1	0	0	0	0	0	0	0	1	14928	535	19	1		1	SNX33	15	75941857	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	751881	75941857	26589535	941	98333											
SNX33	257364	broad.mit.edu	37	chr15	75942196	75942196	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcaaaagctacatctcCtacaagctcacacccaccca	14	6	4	17	0	3	0	2	0	1	0	4	0	3	0	3	1	4	3	3	1	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:75942196C>A	uc002bau.2	+	1	849	c.753C>A	c.(751-753)TCC>TCA	p.S251S	IMP3_uc002bat.2_5'Flank|SNX33_uc002bav.2_5'UTR	NM_153271	NP_695003	Q8WV41	SNX33_HUMAN	sorting nexin 33	251	PX.				cell communication		phosphatidylinositol binding|protein binding			ovary(1)	1						GCTACATCTCCTACAAGCTCA	0.542													27	118					2.65835e-16	2.96158e-16	1	1	0		A	75942196	A	A	75942196	2	1	199	1	0	0	0	0	0	0	0	1	14928	668	24	5		5	SNX33	15	75942196	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	339	75942196	26589196	942	98334											
MESDC2	23184	broad.mit.edu	37	chr15	81271767	81271767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtccttgatctcccaggcGtagctcccatcgcgaagcat	9	9	9	14	3	1	1	0	1	1	0	5	2	3	1	3	1	2	3	3	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:81271767G>A	uc002bfy.1	-	3	571	c.498C>T	c.(496-498)TAC>TAT	p.Y166Y	MESDC2_uc002bfx.2_RNA|MESDC2_uc010uno.1_Intron	NM_015154	NP_055969	Q14696	MESD_HUMAN	mesoderm development candidate 2	166	Escort domain (By similarity).				mesoderm development|protein folding|Wnt receptor signaling pathway	endoplasmic reticulum					0						TCTCCCAGGCGTAGCTCCCAT	0.537													5	61					0	0	1	0	0		A	81271767	A	A	81271767	2	1	199	1	0	0	0	0	0	0	0	1	9499	1140	40	1		1	MESDC2	15	81271767	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5329571	81271767	21259625	943	98335											
MEX3B	84206	broad.mit.edu	37	chr15	82335526	82335526	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aaaagatgcggatggcctgaGtgaccgcggtgtggcagacc	10	6	16	9	3	0	4	0	2	0	2	0	5	0	5	3	4	1	1	3	4	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:82335526G>A	uc002bgq.1	-	2	2000	c.1685C>T	c.(1684-1686)ACT>ATT	p.T562I		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	562					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						GATGGCCTGAGTGACCGCGGT	0.652													8	50					0	0	1	0	0		A	82335526	A	A	82335526	3	1	199	1	0	0	0	0	1	0	0	0	9528	1029	36	4	28	4	MEX3B	15	82335526	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1063759	82335526	20195866	944	98336											
HOMER2	9455	broad.mit.edu	37	chr15	83518521	83518521	+	Silent	SNP	A	G	G	1	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	cggaagtcatgcaggtcgtcAatcttcccgtccagcacctc	8	9	9	15	3	3	0	2	0	1	0	7	1	5	1	3	2	2	2	3	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:83518521A>G	uc002bjg.2	-	9	1197	c.1011T>C	c.(1009-1011)ATT>ATC	p.I337I	HOMER2_uc002bjh.2_Silent_p.I326I|HOMER2_uc002bjj.2_Silent_p.I271I|HOMER2_uc002bji.2_Silent_p.I282I	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2	337					metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						GCAGGTCGTCAATCTTCCCGT	0.597											OREG0023389	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	23					0	0	1	0	0		G	83518521	G	G	83518521	2	3	199	1	0	0	0	0	0	0	0	1	7295	126	5	3		3	HOMER2	15	83518521	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1182995	83518521	19012871	945	98337											
PDE8A	5151	broad.mit.edu	37	chr15	85660938	85660938	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaattcttacactgctcCgagtcaacgctaagatcatg	11	12	8	10	2	3	2	2	1	1	1	4	3	4	2	1	0	3	2	1	0	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:85660938C>T	uc002blh.2	+	17	1791	c.1602C>T	c.(1600-1602)TCC>TCT	p.S534S	PDE8A_uc002bli.2_Silent_p.S488S|PDE8A_uc010bnc.2_Silent_p.S287S|PDE8A_uc010bnd.2_Silent_p.S287S|PDE8A_uc002blj.2_Silent_p.S154S|PDE8A_uc002blk.2_Silent_p.S154S|PDE8A_uc002bll.2_5'Flank	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	534	Catalytic (By similarity).				cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			TACACTGCTCCGAGTCAACGC	0.393													22	163					0	0	1	0	0		T	85660938	T	T	85660938	2	4	199	1	0	0	0	0	0	0	0	1	11672	639	23	1		1	PDE8A	15	85660938	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2142417	85660938	16870454	946	98338											
AKAP13	11214	broad.mit.edu	37	chr15	86124395	86124395	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagagtcaaggcaggaagcCttgggggcagagcacaacag	14	3	15	9	0	1	2	1	0	0	2	1	3	1	3	1	4	3	3	1	4	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:86124395C>A	uc002blv.1	+	7	3266	c.3096C>A	c.(3094-3096)GCC>GCA	p.A1032A	AKAP13_uc002blt.1_Silent_p.A1032A|AKAP13_uc002blu.1_Silent_p.A1032A|AKAP13_uc010bne.1_5'Flank	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1032					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						GGCAGGAAGCCTTGGGGGCAG	0.597													4	47					0.00024832	0.000256551	1	1	0		A	86124395	A	A	86124395	2	1	199	1	0	0	0	0	0	0	0	1	449	668	24	5		5	AKAP13	15	86124395	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	463457	86124395	16406997	947	98339											
AKAP13	11214	broad.mit.edu	37	chr15	86284413	86284413	+	Missense_Mutation	SNP	A	G	G	1	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	cagcctggagaagcagcgccAggacctggccaacctgcaga	11	3	13	14	1	0	2	0	0	0	2	0	4	0	3	5	3	5	2	5	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:86284413A>G	uc002blv.1	+	35	7915	c.7745A>G	c.(7744-7746)CAG>CGG	p.Q2582R	AKAP13_uc002blu.1_Missense_Mutation_p.Q2586R|AKAP13_uc002blw.1_Missense_Mutation_p.Q1047R|AKAP13_uc002blx.1_Missense_Mutation_p.Q827R	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2582	Interaction with ESR1.|Potential.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AAGCAGCGCCAGGACCTGGCC	0.662													3	10					0	0	1	0	0		G	86284413	G	G	86284413	3	3	199	1	0	0	0	0	1	0	0	0	449	188	7	3	7949	3	AKAP13	15	86284413	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	160018	86284413	16246979	948	98340											
ACAN	176	broad.mit.edu	37	chr15	89392870	89392870	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccaaggcctgcctgcggtgGggacaagccaggcgtgagaa	9	4	16	12	2	0	1	0	1	0	1	0	3	0	2	4	5	3	0	4	5	3	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:89392870G>T	uc010upo.1	+	10	2308	c.1934G>T	c.(1933-1935)GGG>GTG	p.G645V	ACAN_uc002bmx.2_Missense_Mutation_p.G645V|ACAN_uc010upp.1_Missense_Mutation_p.G645V|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	645					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			GCCTGCGGTGGGGACAAGCCA	0.672													7	27					2.17888e-05	2.27193e-05	1	1	0		T	89392870	T	T	89392870	3	4	199	1	0	0	0	0	1	0	0	0	117	1232	43	5	1968	5	ACAN	15	89392870	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3108457	89392870	13138522	949	98341											
RLBP1	6017	broad.mit.edu	37	chr15	89760393	89760393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccacgttgaacttccgtgCgcggatgaagcgcaggaaga	10	6	14	11	5	0	3	0	2	0	1	1	5	1	5	2	2	3	2	2	2	3	2	rs143121722		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:89760393C>T	uc002bnl.2	-	5	684	c.304G>A	c.(304-306)GCA>ACA	p.A102T		NM_000326	NP_000317	P12271	RLBP1_HUMAN	retinaldehyde binding protein 1	102					response to stimulus|visual perception|vitamin A metabolic process	cytoplasm|soluble fraction	retinol binding|transporter activity			central_nervous_system(1)	1	Lung NSC(78;0.0472)|all_lung(78;0.089)				Vitamin A(DB00162)	AACTTCCGTGCGCGGATGAAG	0.662													6	37					0	0	1	0	0		T	89760393	T	T	89760393	3	4	199	1	0	0	0	0	1	0	0	0	13413	768	27	1	669	1	RLBP1	15	89760393	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	367523	89760393	12770999	950	98342											
FES	2242	broad.mit.edu	37	chr15	91433488	91433488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgctcctgcaggatgacCgccactccacgtcgtcctcg	5	9	10	17	4	0	1	0	1	0	0	5	2	3	2	5	1	3	3	5	1	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:91433488C>T	uc002bpv.2	+	9	1312	c.1216C>T	c.(1216-1218)CGC>TGC	p.R406C	FES_uc010uqj.1_Missense_Mutation_p.R348C|FES_uc010uqk.1_Missense_Mutation_p.R388C|FES_uc002bpw.2_RNA|FES_uc010bny.2_Missense_Mutation_p.R348C|FES_uc002bpx.2_Missense_Mutation_p.R406C|FES_uc002bpy.2_Missense_Mutation_p.R348C	NM_002005	NP_001996	P07332	FES_HUMAN	feline sarcoma oncogene isoform 1	406					axon guidance|cell proliferation|peptidyl-tyrosine phosphorylation	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(2)	2	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GCAGGATGACCGCCACTCCAC	0.721													4	25					0	0	1	0	0		T	91433488	T	T	91433488	3	4	199	1	0	0	0	0	1	0	0	0	5834	652	23	1	1246	1	FES	15	91433488	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1673095	91433488	11097904	951	98343											
ADAMTS17	170691	broad.mit.edu	37	chr15	100636613	100636613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaagtggcaggtcttgccGtccccgctgcagaccccgca	7	6	11	17	3	1	1	0	0	1	1	2	1	2	1	6	2	2	4	6	2	1	1	rs141443664		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr15:100636613G>A	uc002bvv.1	-	15	2164	c.2085C>T	c.(2083-2085)GAC>GAT	p.D695D	ADAMTS17_uc002bvx.1_Silent_p.D452D	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	695	Cys-rich.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		AGGTCTTGCCGTCCCCGCTGC	0.592													21	105					0	0	1	0	0		A	100636613	A	A	100636613	2	1	199	1	0	0	0	0	0	0	0	1	262	1136	40	1		1	ADAMTS17	15	100636613	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	9203125	100636613	1894779	952	98344											
HBQ1	3049	broad.mit.edu	37	chr16	231069	231069	+	Missense_Mutation	SNP	A	G	G	1	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	cgtcgctggacaagttcctgAgccacgttatctcggcgctg	6	10	12	13	5	1	1	0	1	1	0	4	2	2	2	2	2	1	4	2	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:231069A>G	uc002cfz.2	+	3	542	c.391A>G	c.(391-393)AGC>GGC	p.S131G		NM_005331	NP_005322	P09105	HBAT_HUMAN	theta 1 globin	131						hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0		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)				CAAGTTCCTGAGCCACGTTAT	0.662													16	56					0	0	1	0	0		G	231069	G	G	231069	3	3	199	1	0	0	0	0	1	0	0	0	7002	304	11	3	401	3	HBQ1	16	231069	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08		231069	90123684	953	98345											
WDR90	197335	broad.mit.edu	37	chr16	708580	708580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacgctcagtgaggacgcccGcttcctgctgattgccgccg	5	8	13	15	5	1	2	1	2	0	0	2	4	2	3	4	1	2	3	4	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:708580G>A	uc002cii.1	+	23	2876	c.2822G>A	c.(2821-2823)CGC>CAC	p.R941H	WDR90_uc002cij.1_Intron|WDR90_uc002cik.1_Missense_Mutation_p.R468H|WDR90_uc002cil.1_RNA|WDR90_uc002cim.1_Missense_Mutation_p.R115H|WDR90_uc002cin.1_5'Flank	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	941	WD 10.									ovary(1)	1		Hepatocellular(780;0.0218)				GAGGACGCCCGCTTCCTGCTG	0.662													15	70					0	0	1	0	0		A	708580	A	A	708580	3	1	199	1	0	0	0	0	1	0	0	0	17363	1087	38	1	2912	1	WDR90	16	708580	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	477511	708580	89646173	954	98346											
MSLNL	401827	broad.mit.edu	37	chr16	830735	830735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgacagctgtgtgcacggGtaggtgacagctgtgtgcac	7	9	17	8	1	0	2	0	2	0	0	0	2	0	2	0	3	4	5	0	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:830735G>A	uc002cjz.1	-	3	266	c.266C>T	c.(265-267)ACC>ATC	p.T89I		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	Error:Variant_position_missing_in_Q96KJ4_after_alignment					cell adhesion	integral to membrane				breast(3)|ovary(1)	4						GTGTGCACGGGTAGGTGACAG	0.587													19	221					0	0	1	0	0		A	830735	A	A	830735	3	1	199	1	0	0	0	0	1	0	0	0	9900	1261	44	4	2951	4	MSLNL	16	830735	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	122155	830735	89524018	955	98347											
UNKL	64718	broad.mit.edu	37	chr16	1416381	1416381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccacacactgcttggcgcGgagctggaagatcacctgca	9	6	13	13	2	1	1	1	0	0	1	1	3	1	3	2	4	3	3	2	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:1416381G>A	uc010brn.1	-	9	1051	c.1033C>T	c.(1033-1035)CGC>TGC	p.R345C	UNKL_uc002cln.2_Missense_Mutation_p.R187C|UNKL_uc002clo.2_Missense_Mutation_p.R184C|UNKL_uc002clp.2_Missense_Mutation_p.R137C			Q9H9P5	UNKL_HUMAN	SubName: Full=Putative ubiquitin-protein ligase;          EC=6.3.2.19; Flags: Fragment;	635						cytoplasm|nucleus	ligase activity|nucleic acid binding|zinc ion binding				0		Hepatocellular(780;0.0893)				TGCTTGGCGCGGAGCTGGAAG	0.711													7	19					0	0	1	0	0		A	1416381	A	A	1416381	3	1	199	1	0	0	0	0	1	0	0	0	17027	1116	39	1	143	1	UNKL	16	1416381	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	585646	1416381	88938372	956	98348											
CRAMP1L	57585	broad.mit.edu	37	chr16	1709951	1709951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaggaggagcagtcgatgaCgcccccagggaaggtggtga	10	4	17	10	2	0	2	0	2	0	0	1	6	0	5	3	5	1	1	3	5	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:1709951C>T	uc010uvh.1	+	10	2300	c.2300C>T	c.(2299-2301)ACG>ATG	p.T767M	CRAMP1L_uc002cmf.2_RNA	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Crm, cramped-like	767						nucleus	DNA binding				0						CAGTCGATGACGCCCCCAGGG	0.622													7	42					0	0	1	0	0		T	1709951	T	T	1709951	3	4	199	1	0	0	0	0	1	0	0	0	3849	536	19	1	2338	1	CRAMP1L	16	1709951	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	293570	1709951	88644802	957	98349											
TBL3	10607	broad.mit.edu	37	chr16	2025090	2025090	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcagcgccgacggccacaCcatgctcaggtcagcagtgg	8	6	12	15	3	3	0	3	0	0	0	3	1	3	0	3	3	3	2	3	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:2025090C>T	uc002cnu.1	+	7	728	c.626C>T	c.(625-627)ACC>ATC	p.T209I	TBL3_uc002cnv.1_Missense_Mutation_p.T95I|TBL3_uc010bsb.1_Silent_p.H23H|TBL3_uc010bsc.1_Missense_Mutation_p.T95I|TBL3_uc010uvt.1_5'UTR|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	209	WD 4.				G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						GACGGCCACACCATGCTCAGG	0.642													6	38					0	0	1	0	0		T	2025090	T	T	2025090	3	4	199	1	0	0	0	0	1	0	0	0	15668	507	18	4	652	4	TBL3	16	2025090	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	315139	2025090	88329663	958	98350											
BTBD12	84464	broad.mit.edu	37	chr16	3640830	3640830	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctctgctccccgtgcccCtgagtgctggccctggggtg	1	9	15	16	1	1	1	0	1	1	0	2	1	2	1	6	4	3	2	6	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:3640830C>A	uc002cvp.2	-	12	3436	c.2809G>T	c.(2809-2811)GGG>TGG	p.G937W		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	937	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CCCCGTGCCCCTGAGTGCTGG	0.672								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				13	68					9.31168e-06	9.77193e-06	1	1	0		A	3640830	A	A	3640830	3	1	199	1	0	0	0	0	1	0	0	0	1543	681	24	5	2711	5	BTBD12	16	3640830	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1615740	3640830	86713923	959	98351											
DNASE1	1773	broad.mit.edu	37	chr16	3706656	3706656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcctgaccaggtgtctgCggtggacagctactactacg	8	8	13	12	2	1	1	0	1	1	0	1	2	1	2	2	4	5	1	2	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:3706656C>T	uc002cvr.2	+	5	2445	c.338C>T	c.(337-339)GCG>GTG	p.A113V		NM_005223	NP_005214	P24855	DNAS1_HUMAN	deoxyribonuclease I precursor	113					apoptosis|DNA catabolic process	extracellular region|nuclear envelope	actin binding|deoxyribonuclease I activity				0		Ovarian(90;0.0261)		Kidney(780;0.0556)	Dornase Alfa(DB00003)	CAGGTGTCTGCGGTGGACAGC	0.647								Direct_reversal_of_damage					4	20					0	0	1	0	0		T	3706656	T	T	3706656	3	4	199	1	0	0	0	0	1	0	0	0	4666	768	27	1	352	1	DNASE1	16	3706656	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	65826	3706656	86648097	960	98352											
CREBBP	1387	broad.mit.edu	37	chr16	3777763	3777763	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tagcgtgtcccccgtggtgtCcccgaccagggacagttcgc	5	8	13	15	4	0	0	0	0	0	0	3	2	2	1	5	2	1	1	5	2	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:3777763C>T	uc002cvv.2	-	31	7489	c.7285G>A	c.(7285-7287)GAC>AAC	p.D2429N	CREBBP_uc002cvw.2_Missense_Mutation_p.D2391N	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2429					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CCCGTGGTGTCCCCGACCAGG	0.552			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				24	156					0	0	1	0	0		T	3777763	T	T	3777763	3	4	199	1	0	0	0	0	1	0	0	0	3864	855	30	4	47	4	CREBBP	16	3777763	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	71107	3777763	86576990	961	98353											
MGRN1	23295	broad.mit.edu	37	chr16	4723603	4723603	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccacctgtgcctctgtacCtcctgcgccgacacgctgcg	4	8	10	19	5	1	0	0	0	1	0	2	1	2	0	6	0	4	2	6	0	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:4723603C>A	uc002cwz.2	+	10	1036	c.900C>A	c.(898-900)ACC>ACA	p.T300T	MGRN1_uc002cxa.2_Silent_p.T300T|MGRN1_uc010btx.2_Silent_p.T301T|MGRN1_uc010btw.2_Silent_p.T301T|MGRN1_uc002cxb.2_Silent_p.T339T|MGRN1_uc010uxo.1_Silent_p.T300T|MGRN1_uc010uxp.1_Silent_p.T300T|MGRN1_uc010uxq.1_RNA	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	300	RING-type.				endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						GCCTCTGTACCTCCTGCGCCG	0.637													5	118					0.0215528	0.0218209	1	1	0		A	4723603	A	A	4723603	2	1	199	1	0	0	0	0	0	0	0	1	9577	668	24	5		5	MGRN1	16	4723603	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	945840	4723603	85631150	962	98354											
MGRN1	23295	broad.mit.edu	37	chr16	4730034	4730034	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	atgatttttatcttgacagtGtccctttaaaaaatcaaagc	14	15	5	7	0	2	2	1	2	1	0	3	2	3	2	1	0	1	0	1	0	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:4730034G>A	uc002cwz.2	+	12	1203	c.1067G>A	c.(1066-1068)TGT>TAT	p.C356Y	MGRN1_uc002cxa.2_Missense_Mutation_p.C356Y|MGRN1_uc010btx.2_Intron|MGRN1_uc010btw.2_Intron|MGRN1_uc002cxb.2_Missense_Mutation_p.C395Y|MGRN1_uc010uxo.1_Intron|MGRN1_uc010uxp.1_Intron|MGRN1_uc010uxq.1_Intron	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	356					endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						TCTTGACAGTGTCCCTTTAAA	0.527													3	22					0	0	1	0	0		A	4730034	A	A	4730034	3	1	199	1	0	0	0	0	1	0	0	0	9577	1391	48	4	1116	4	MGRN1	16	4730034	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6431	4730034	85624719	963	98355											
UBN1	29855	broad.mit.edu	37	chr16	4908638	4908638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtatggttatgatgaatccGactccttcatcgataactct	10	14	8	9	2	2	2	1	2	1	0	5	4	4	2	2	2	1	2	2	2	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:4908638G>A	uc002cyb.2	+	4	745	c.406G>A	c.(406-408)GAC>AAC	p.D136N	UBN1_uc010uxw.1_Missense_Mutation_p.D136N|UBN1_uc002cyc.2_Missense_Mutation_p.D136N	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	136	Sufficient for interaction with HIRA.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						TGATGAATCCGACTCCTTCAT	0.443													12	49					0	0	1	0	0		A	4908638	A	A	4908638	3	1	199	1	0	0	0	0	1	0	0	0	16918	1058	37	1	416	1	UBN1	16	4908638	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	178604	4908638	85446115	964	98356											
C16orf68	79091	broad.mit.edu	37	chr16	8722948	8722948	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggaagcacaaggcagcccGcacgatatcatcagaatagg	15	4	12	10	2	2	1	2	0	0	1	2	4	2	2	1	3	2	3	1	3	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:8722948G>A	uc002cyz.2	+	3	771	c.495G>A	c.(493-495)CCG>CCA	p.P165P	C16orf68_uc002cza.2_Silent_p.P109P	NM_024109	NP_077014	Q9BUU2	MET22_HUMAN	hypothetical protein LOC79091	165							methyltransferase activity				0						AAGGCAGCCCGCACGATATCA	0.537													49	261					0	0	1	0	0		A	8722948	A	A	8722948	2	1	199	1	0	0	0	0	0	0	0	1	1830	1074	38	1		1	C16orf68	16	8722948	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3814310	8722948	81631805	965	98357											
GRIN2A	2903	broad.mit.edu	37	chr16	9857693	9857693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccatccgcaggcaggcatcGcacttgaagggggacctcat	9	6	12	14	2	1	1	1	1	0	0	3	2	2	2	3	4	0	4	3	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:9857693G>A	uc002czo.3	-	13	4256	c.3708C>T	c.(3706-3708)TGC>TGT	p.C1236C	GRIN2A_uc010uym.1_Silent_p.C1236C|GRIN2A_uc010uyn.1_Silent_p.C1079C|GRIN2A_uc002czr.3_Silent_p.C1236C	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1236	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	GGCAGGCATCGCACTTGAAGG	0.587													22	83					0	0	1	0	0		A	9857693	A	A	9857693	2	1	199	1	0	0	0	0	0	0	0	1	6795	1079	38	1		1	GRIN2A	16	9857693	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1134745	9857693	80497060	966	98358											
MPV17L	255027	broad.mit.edu	37	chr16	15501834	15501834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcaatggagaacagcttaCgctggagtctgtggttttct	8	14	12	7	1	3	1	1	0	2	1	3	3	3	2	0	3	3	4	0	3	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:15501834C>T	uc002ddn.2	+	4	600	c.456C>T	c.(454-456)TAC>TAT	p.Y152Y	MPV17L_uc002ddm.2_Missense_Mutation_p.R129C	NM_001128423	NP_001121895	Q2QL34	MP17L_HUMAN	MPV17 mitochondrial membrane protein-like	152	Helical; (Potential).					integral to membrane|peroxisomal membrane					0						GAACAGCTTACGCTGGAGTCT	0.483													5	41					0	0	1	0	0		T	15501834	T	T	15501834	2	4	199	1	0	0	0	0	0	0	0	1	9764	548	19	1		1	MPV17L	16	15501834	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5644141	15501834	74852919	967	98359											
MYH11	4629	broad.mit.edu	37	chr16	15832541	15832541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctctcctcaaggagttttCgttcctttttggggaaagag	7	15	10	9	1	2	1	1	0	1	1	6	3	4	3	3	3	0	2	3	3	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:15832541C>T	uc002ddy.2	-	24	3109	c.3002G>A	c.(3001-3003)CGA>CAA	p.R1001Q	MYH11_uc002ddv.2_Missense_Mutation_p.R1008Q|MYH11_uc002ddw.2_Missense_Mutation_p.R1001Q|MYH11_uc002ddx.2_Missense_Mutation_p.R1008Q|MYH11_uc010bvg.2_Missense_Mutation_p.R833Q	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1001	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						AAGGAGTTTTCGTTCCTTTTT	0.358			T	CBFB	AML								7	59					0	0	1	0	0		T	15832541	T	T	15832541	3	4	199	1	0	0	0	0	1	0	0	0	10049	884	31	1	3023	1	MYH11	16	15832541	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	330707	15832541	74522212	968	98360											
SYT17	51760	broad.mit.edu	37	chr16	19191811	19191811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccccggatggaagacgctCgtcctcagacacatccaagt	10	8	9	14	3	1	2	1	0	0	2	5	4	4	4	4	2	0	1	4	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:19191811C>T	uc002dfw.2	+	4	612	c.281C>T	c.(280-282)TCG>TTG	p.S94L	SYT17_uc002dfx.2_Missense_Mutation_p.S33L|SYT17_uc002dfy.2_Missense_Mutation_p.S90L|SYT17_uc002dfv.1_Missense_Mutation_p.S33L	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	94						membrane|synaptic vesicle	transporter activity			ovary(1)	1						GGAAGACGCTCGTCCTCAGAC	0.582											OREG0023658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	54					0	0	1	0	0		T	19191811	T	T	19191811	3	4	199	1	0	0	0	0	1	0	0	0	15498	893	31	1	295	1	SYT17	16	19191811	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3359270	19191811	71162942	969	98361											
CP110	9738	broad.mit.edu	37	chr16	19548145	19548145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgttccaggacatcatcagCgtgtcatatacttataaata	14	12	6	9	2	3	0	3	0	0	0	4	1	4	1	1	1	2	1	1	1	6	6	rs142177955		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:19548145C>T	uc002dgl.3	+	4	1401	c.1154C>T	c.(1153-1155)GCG>GTG	p.A385V	CP110_uc002dgk.3_Missense_Mutation_p.A385V			O43303	CP110_HUMAN	RecName: Full=Centrosomal protein of 110 kDa;          Short=Cep110;	385	Interaction with CEP76.				centriole replication|G2/M transition of mitotic cell cycle|regulation of cytokinesis	centriole|cytosol	protein binding				0						ACATCATCAGCGTGTCATATA	0.368													3	39					0	0	1	0	0		T	19548145	T	T	19548145	3	4	199	1	0	0	0	0	1	0	0	0	3791	768	27	1	1164	1	CP110	16	19548145	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	356334	19548145	70806608	970	98362											
IQCK	124152	broad.mit.edu	37	chr16	19745048	19745048	+	Missense_Mutation	SNP	A	G	G	1	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	agtagaggaaatgctttttcAtggcttcagtgcagagcact	11	12	11	7	0	2	2	2	0	0	2	2	3	2	3	0	2	3	5	0	2	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:19745048A>G	uc002dgr.2	+	4	974	c.275A>G	c.(274-276)CAT>CGT	p.H92R	IQCK_uc002dgs.2_RNA|IQCK_uc010vat.1_Missense_Mutation_p.H92R|IQCK_uc010bwc.2_RNA|IQCK_uc010vau.1_Missense_Mutation_p.H4R	NM_153208	NP_694940	Q8N0W5	IQCK_HUMAN	IQ motif containing K	92										skin(1)	1						ATGCTTTTTCATGGCTTCAGT	0.433													7	113					0	0	1	0	0		G	19745048	G	G	19745048	3	3	199	1	0	0	0	0	1	0	0	0	7829	217	8	3	285	3	IQCK	16	19745048	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	196903	19745048	70609705	971	98363											
DNAH3	55567	broad.mit.edu	37	chr16	20975853	20975853	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggggtgcctaactgcagcGcgttttccagcatcctcatg	7	10	11	13	2	1	0	1	0	0	0	3	0	3	0	3	2	5	3	3	2	1	3	rs148895333		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:20975853G>A	uc010vbe.1	-	53	9353	c.9353C>T	c.(9352-9354)GCG>GTG	p.A3118V	DNAH3_uc010vbd.1_Missense_Mutation_p.A553V	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3118	AAA 5 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TAACTGCAGCGCGTTTTCCAG	0.458													33	151					0	0	1	0	0		A	20975853	A	A	20975853	3	1	199	1	0	0	0	0	1	0	0	0	4609	1087	38	1	3036	1	DNAH3	16	20975853	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1230805	20975853	69378900	972	98364											
DNAH3	55567	broad.mit.edu	37	chr16	21053360	21053360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcatttaccttgagattgtCgggcagttcagccctgccag	7	11	12	11	1	1	1	1	1	0	1	2	2	1	1	3	2	3	3	3	2	1	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:21053360C>T	uc010vbe.1	-	32	4627	c.4627G>A	c.(4627-4629)GAC>AAC	p.D1543N		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1543	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TTGAGATTGTCGGGCAGTTCA	0.403													12	73					0	0	1	0	0		T	21053360	T	T	21053360	3	4	199	1	0	0	0	0	1	0	0	0	4609	884	31	1	7846	1	DNAH3	16	21053360	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	77507	21053360	69301393	973	98365											
DNAH3	55567	broad.mit.edu	37	chr16	21060917	21060917	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgttgaactcatcaaagcaCgcccatgctccagcctgtgc	9	9	8	15	1	2	1	2	1	0	0	3	1	3	1	3	0	5	3	3	0	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:21060917C>T	uc010vbe.1	-	31	4434	c.4434G>A	c.(4432-4434)GCG>GCA	p.A1478A		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1478	AAA 1 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		CATCAAAGCACGCCCATGCTC	0.517													21	89					0	0	1	0	0		T	21060917	T	T	21060917	2	4	199	1	0	0	0	0	0	0	0	1	4609	523	19	1		1	DNAH3	16	21060917	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	7557	21060917	69293836	974	98366											
HS3ST2	9956	broad.mit.edu	37	chr16	22926539	22926539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatccgcatcggcatgtacGtgctgcacctggagagctgg	7	8	13	13	3	0	1	0	0	0	1	2	2	1	1	3	3	4	6	3	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:22926539G>A	uc002dli.2	+	2	832	c.760G>A	c.(760-762)GTG>ATG	p.V254M	HS3ST2_uc002dlj.2_RNA	NM_006043	NP_006034	Q9Y278	HS3S2_HUMAN	heparan sulfate D-glucosaminyl	254	Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 2 activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(48;0.0299)		CGGCATGTACGTGCTGCACCT	0.632													25	141					0	0	1	0	0		A	22926539	A	A	22926539	3	1	199	1	0	0	0	0	1	0	0	0	7380	1145	40	1	766	1	HS3ST2	16	22926539	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1865622	22926539	67428214	975	98367											
UBFD1	56061	broad.mit.edu	37	chr16	23569516	23569516	+	Missense_Mutation	SNP	A	G	G	1	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	agctggtggacttgaagatcAtctggaataagaccaagcat	14	9	11	7	0	2	3	1	1	1	2	2	5	2	5	1	3	2	2	1	3	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:23569516A>G	uc002dlv.2	+	2	473	c.271A>G	c.(271-273)ATC>GTC	p.I91V	EARS2_uc002dls.3_5'Flank|EARS2_uc002dlt.3_5'Flank|EARS2_uc002dlu.2_5'Flank	NM_019116	NP_061989	O14562	UBFD1_HUMAN	ubiquitin-binding protein homolog	91	Ubiquitin-like.										0				GBM - Glioblastoma multiforme(48;0.0331)		CTTGAAGATCATCTGGAATAA	0.637													17	59					0	0	1	0	0		G	23569516	G	G	23569516	3	3	199	1	0	0	0	0	1	0	0	0	16910	217	8	3	277	3	UBFD1	16	23569516	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	642977	23569516	66785237	976	98368											
AQP8	343	broad.mit.edu	37	chr16	25238448	25238448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttggacctgcggtggtggCcaaccactggaacttccact	7	11	11	12	1	0	0	0	0	0	0	1	2	1	2	4	5	3	0	4	5	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:25238448C>A	uc002doc.2	+	5	744	c.662C>A	c.(661-663)GCC>GAC	p.A221D		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	221	Extracellular (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		GCGGTGGTGGCCAACCACTGG	0.612													14	64					2.23348e-06	2.36249e-06	1	1	0		A	25238448	A	A	25238448	3	1	199	1	0	0	0	0	1	0	0	0	832	739	26	5	680	5	AQP8	16	25238448	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1668932	25238448	65116305	977	98369											
RNF40	9810	broad.mit.edu	37	chr16	30785346	30785346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttctgcttcgagtgcgtgCggggccgctatgaggcccgc	3	11	15	12	5	1	1	0	1	1	0	2	2	1	1	2	3	3	2	2	3	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:30785346C>T	uc002dzq.2	+	20	3040	c.2917C>T	c.(2917-2919)CGG>TGG	p.R973W	RNF40_uc010caa.2_Missense_Mutation_p.R972W|RNF40_uc010cab.2_Missense_Mutation_p.R873W|RNF40_uc010vfa.1_Missense_Mutation_p.R305W|RNF40_uc002dzr.2_Missense_Mutation_p.R973W|RNF40_uc010vfb.1_Missense_Mutation_p.R665W	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	973	RING-type.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			CGAGTGCGTGCGGGGCCGCTA	0.597													23	86					0	0	1	0	0		T	30785346	T	T	30785346	3	4	199	1	0	0	0	0	1	0	0	0	13518	759	27	1	2991	1	RNF40	16	30785346	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5546898	30785346	59569407	978	98370											
SETD1A	9739	broad.mit.edu	37	chr16	30991437	30991437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaggacatgagttacctgCggcttacgtacgagcggctg	9	8	14	10	4	0	2	0	1	0	1	0	4	0	3	1	3	5	4	1	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:30991437C>T	uc002ead.1	+	14	5016	c.4330C>T	c.(4330-4332)CGG>TGG	p.R1444W		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	1444	Interaction with CFP1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						GAGTTACCTGCGGCTTACGTA	0.522													14	51					0	0	1	0	0		T	30991437	T	T	30991437	3	4	199	1	0	0	0	0	1	0	0	0	14155	759	27	1	4380	1	SETD1A	16	30991437	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	206091	30991437	59363316	979	98371											
PYDC1	260434	broad.mit.edu	37	chr16	31228238	31228238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagcgcgccccgcgggatgcGctcaaagccctcgcgcagcg	6	3	15	17	8	1	0	1	0	0	0	2	2	1	1	3	1	4	2	3	1	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:31228238G>A	uc002ebo.2	-	1	161	c.112C>T	c.(112-114)CGC>TGC	p.R38C	TRIM72_uc002ebn.1_Intron	NM_152901	NP_690865	Q8WXC3	PYDC1_HUMAN	pyrin domain containing 1	38	DAPIN.				innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|positive regulation of interleukin-1 beta secretion|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex|nucleus	cysteine-type endopeptidase activity|protein binding				0						CGCGGGATGCGCTCAAAGCCC	0.647													12	33					0	0	1	0	0		A	31228238	A	A	31228238	3	1	199	1	0	0	0	0	1	0	0	0	12883	1087	38	1	161	1	PYDC1	16	31228238	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	236801	31228238	59126515	980	98372											
ITGAX	3687	broad.mit.edu	37	chr16	31383830	31383830	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagatacttcacggcctcCgtgagtcctggcactgggtc	7	9	12	13	2	1	2	1	1	0	1	4	3	3	2	3	3	1	1	3	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:31383830C>T	uc002ebu.1	+	18	2359	c.2292C>T	c.(2290-2292)TCC>TCT	p.S764S	ITGAX_uc002ebt.2_Silent_p.S764S	NM_000887	NP_000878	P20702	ITAX_HUMAN	integrin alpha X precursor	764	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration|organ morphogenesis	integrin complex	protein binding|receptor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TCACGGCCTCCGTGAGTCCTG	0.627													4	23					0	0	1	0	0		T	31383830	T	T	31383830	2	4	199	1	0	0	0	0	0	0	0	1	7905	666	23	1		1	ITGAX	16	31383830	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	155592	31383830	58970923	981	98373											
ABCC12	94160	broad.mit.edu	37	chr16	48138137	48138137	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagccaagatcacgagaataAacaccaccataaaaaactgc	20	4	5	12	1	1	2	1	0	0	2	1	3	1	2	3	0	4	0	3	0	7	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:48138137A>G	uc002efc.1	-	20	3162	c.2816T>C	c.(2815-2817)TTT>TCT	p.F939S	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_Intron|ABCC12_uc002efd.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	939	ABC transmembrane type-1 2.|Helical; (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3		all_cancers(37;0.0474)|all_lung(18;0.047)				CACGAGAATAAACACCACCAT	0.493													15	82					0	0	1	0	0		G	48138137	G	G	48138137	3	3	199	1	0	0	0	0	1	0	0	0	52	14	1	3	1303	3	ABCC12	16	48138137	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	16754307	48138137	42216616	982	98374											
SALL1	6299	broad.mit.edu	37	chr16	51174228	51174228	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggacgctactgctcgccgtCgggactgagttggtgaccat	7	9	14	11	4	0	2	0	2	0	0	2	4	0	4	2	3	2	3	2	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:51174228C>T	uc010vgs.1	-	2	1936	c.1905G>A	c.(1903-1905)CCG>CCA	p.P635P	SALL1_uc010vgr.1_Silent_p.P538P|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	635					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TGCTCGCCGTCGGGACTGAGT	0.637													11	39					0	0	1	0	0		T	51174228	T	T	51174228	2	4	199	1	0	0	0	0	0	0	0	1	13835	871	31	1		1	SALL1	16	51174228	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3036091	51174228	39180525	983	98375											
CHD9	80205	broad.mit.edu	37	chr16	53341746	53341746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcagctacagaatacagcGatcccagtgtacccactccc	12	6	8	15	1	0	1	0	0	0	1	2	3	2	1	3	0	6	3	3	0	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:53341746G>A	uc002ehb.2	+	32	7098	c.6934G>A	c.(6934-6936)GAT>AAT	p.D2312N	CHD9_uc002egy.2_Missense_Mutation_p.D2312N|CHD9_uc002ehc.2_Missense_Mutation_p.D2313N|CHD9_uc002ehf.2_Missense_Mutation_p.D1426N|CHD9_uc010cbw.2_Missense_Mutation_p.D378N|CHD9_uc002ehg.1_Missense_Mutation_p.D319N	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2312					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				AGAATACAGCGATCCCAGTGT	0.468													3	23					0	0	1	0	0		A	53341746	A	A	53341746	3	1	199	1	0	0	0	0	1	0	0	0	3335	1058	37	1	7060	1	CHD9	16	53341746	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2167518	53341746	37013007	984	98376											
GPR56	9289	broad.mit.edu	37	chr16	57691305	57691305	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtctcctcggtggaggtggaCgccgtgcacaagcactacct	7	8	13	13	3	1	0	0	0	1	0	3	2	1	2	3	4	3	2	3	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:57691305C>T	uc002emb.2	+	11	1480	c.1188C>T	c.(1186-1188)GAC>GAT	p.D396D	GPR56_uc002elz.1_Silent_p.D226D|GPR56_uc002ema.1_Silent_p.D221D|GPR56_uc002emc.2_Silent_p.D396D|GPR56_uc002emf.2_Silent_p.D396D|GPR56_uc010vhs.1_Silent_p.D396D|GPR56_uc002emd.2_Silent_p.D396D|GPR56_uc002eme.2_Silent_p.D396D|GPR56_uc010vht.1_Silent_p.D401D|GPR56_uc002emg.3_Silent_p.D396D|GPR56_uc010vhu.1_Silent_p.D221D	NM_005682	NP_005673	Q9Y653	GPR56_HUMAN	G protein-coupled receptor 56 isoform a	396	Extracellular (Potential).				brain development|cell adhesion|cell-cell signaling|neuropeptide signaling pathway	integral to plasma membrane	G-protein coupled receptor activity				0						TGGAGGTGGACGCCGTGCACA	0.637													21	85					0	0	1	0	0		T	57691305	T	T	57691305	2	4	199	1	0	0	0	0	0	0	0	1	6715	535	19	1		1	GPR56	16	57691305	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4349559	57691305	32663448	985	98377											
ZNF319	57567	broad.mit.edu	37	chr16	58031995	58031995	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgttgtgggggctgcaggcCggggtctggctgcaggagga	4	8	22	7	1	1	0	0	0	1	0	1	2	1	2	1	8	2	5	1	8	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:58031995C>G	uc002emx.1	-	2	798	c.175G>C	c.(175-177)GGC>CGC	p.G59R		NM_020807	NP_065858	Q9P2F9	ZN319_HUMAN	zinc finger protein 319	59	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCTGCAGGCCGGGGTCTGGC	0.697													7	33					0	0	1	0	0		G	58031995	G	G	58031995	3	3	199	1	0	0	0	0	1	0	0	0	17862	652	23	5	1577	5	ZNF319	16	58031995	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	340690	58031995	32322758	986	98378											
CDH11	1009	broad.mit.edu	37	chr16	65016141	65016141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attgctgataaacttcgggtCgatgtgcacgttggctgcct	7	13	12	9	3	0	1	0	1	0	0	2	2	0	1	1	2	4	4	1	2	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:65016141C>T	uc002eoi.2	-	8	1497	c.1063G>A	c.(1063-1065)GAC>AAC	p.D355N	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.D355N|CDH11_uc010vin.1_Missense_Mutation_p.D229N|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	355	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		AACTTCGGGTCGATGTGCACG	0.468			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			13	43					0	0	1	0	0		T	65016141	T	T	65016141	3	4	199	1	0	0	0	0	1	0	0	0	3100	884	31	1	1351	1	CDH11	16	65016141	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	6984146	65016141	25338612	987	98379											
KIAA0895L	653319	broad.mit.edu	37	chr16	67213378	67213378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccagtactggcgggctcCggtcaggttgatcgccaatg	8	8	13	12	3	1	1	1	1	0	0	3	1	2	1	3	4	2	3	3	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:67213378C>T	uc002ert.2	-	4	1577	c.802G>A	c.(802-804)GGA>AGA	p.G268R	KIAA0895L_uc002err.2_5'Flank|KIAA0895L_uc002ers.2_5'UTR|KIAA0895L_uc002eru.2_Missense_Mutation_p.G268R|EXOC3L_uc002erv.1_RNA	NM_001040715	NP_001035805	Q68EN5	K895L_HUMAN	hypothetical protein LOC653319	268											0						TGGCGGGCTCCGGTCAGGTTG	0.622													26	84					0	0	1	0	0		T	67213378	T	T	67213378	3	4	199	1	0	0	0	0	1	0	0	0	8214	661	23	1	629	1	KIAA0895L	16	67213378	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2197237	67213378	23141375	988	98380											
GFOD2	81577	broad.mit.edu	37	chr16	67709886	67709886	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgagctgcgggtagtagcgCgaggctgtcaccatccggaa	9	7	15	10	4	1	1	1	1	0	0	2	3	2	2	2	3	3	4	2	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:67709886C>T	uc002eub.2	-	3	625	c.330G>A	c.(328-330)TCG>TCA	p.S110S	GFOD2_uc002eua.1_RNA|GFOD2_uc002euc.2_Silent_p.S5S	NM_030819	NP_110446	Q3B7J2	GFOD2_HUMAN	glucose-fructose oxidoreductase domain	110						proteinaceous extracellular matrix	binding|oxidoreductase activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0151)|Epithelial(162;0.0505)|all cancers(182;0.242)		GGTAGTAGCGCGAGGCTGTCA	0.542													9	46					0	0	1	0	0		T	67709886	T	T	67709886	2	4	199	1	0	0	0	0	0	0	0	1	6359	755	27	1		1	GFOD2	16	67709886	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	496508	67709886	22644867	989	98381											
DPEP2	64174	broad.mit.edu	37	chr16	68025854	68025854	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaccctctacaccgatgagGcaggccaatttctgagtgtc	9	9	9	14	1	2	2	0	2	2	0	3	3	2	2	4	2	1	1	4	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:68025854G>A	uc010cey.2	-	4	713	c.549C>T	c.(547-549)TGC>TGT	p.C183C	DPEP2_uc002evd.3_Silent_p.C183C|DPEP2_uc002eve.2_Silent_p.C183C|DPEP2_uc002evf.2_RNA|DPEP2_uc002evg.2_3'UTR	NM_022355	NP_071750	Q9H4A9	DPEP2_HUMAN	dipeptidase 2 precursor	183					hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|proteolysis	anchored to membrane|plasma membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0119)|Epithelial(162;0.0489)|all cancers(182;0.239)		CACCGATGAGGCAGGCCAATT	0.547													15	47					0	0	1	0	0		A	68025854	A	A	68025854	2	1	199	1	0	0	0	0	0	0	0	1	4720	1195	42	2		2	DPEP2	16	68025854	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	315968	68025854	22328899	990	98382											
PLA2G15	23659	broad.mit.edu	37	chr16	68293136	68293136	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagctggctgctgccctAcaactacacatggtcacctg	9	8	8	16	0	1	0	1	0	0	0	1	0	1	0	3	2	6	3	3	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:68293136A>G	uc002evr.2	+	6	898	c.815A>G	c.(814-816)TAC>TGC	p.Y272C	PLA2G15_uc010vld.1_Silent_p.L230L|PLA2G15_uc010vle.1_Missense_Mutation_p.Y178C|PLA2G15_uc010vlf.1_Missense_Mutation_p.Y72C|PLA2G15_uc002evs.2_Missense_Mutation_p.Y93C	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	272					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						CTGCTGCCCTACAACTACACA	0.572													4	53					0	0	1	0	0		G	68293136	G	G	68293136	3	3	199	1	0	0	0	0	1	0	0	0	12011	391	14	3	837	3	PLA2G15	16	68293136	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	267282	68293136	22061617	991	98383											
CDH3	1001	broad.mit.edu	37	chr16	68732297	68732297	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgtacggtggcggggaggaCgactaggcggcctgcctgca	7	6	18	10	4	0	0	0	0	0	0	0	3	0	2	2	7	3	2	2	7	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:68732297C>T	uc002ewf.2	+	16	3616	c.2484C>T	c.(2482-2484)GAC>GAT	p.D828D	CDH3_uc010vli.1_Silent_p.D773D	NM_001793	NP_001784	P22223	CADH3_HUMAN	cadherin 3, type 1 preproprotein	828	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|response to stimulus|visual perception	integral to membrane	calcium ion binding	p.?(1)		ovary(3)|breast(1)|skin(1)	5		Ovarian(137;0.0564)		OV - Ovarian serous cystadenocarcinoma(108;0.000782)|Epithelial(162;0.0054)|all cancers(182;0.0384)		GCGGGGAGGACGACTAGGCGG	0.607													15	41					0	0	1	0	0		T	68732297	T	T	68732297	2	4	199	1	0	0	0	0	0	0	0	1	3114	535	19	1		1	CDH3	16	68732297	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	439161	68732297	21622456	992	98384											
CIRH1A	84916	broad.mit.edu	37	chr16	69184788	69184788	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaattacgatgccgctctccGaaaaatcacctttccccacg	11	9	6	15	4	2	0	1	0	1	0	4	3	3	0	5	0	2	1	5	0	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:69184788G>A	uc002ews.3	+	8	1079	c.983G>A	c.(982-984)CGA>CAA	p.R328Q	CIRH1A_uc002ewr.2_Missense_Mutation_p.R328Q|CIRH1A_uc002ewt.3_Missense_Mutation_p.R245Q|CIRH1A_uc010cfi.2_Missense_Mutation_p.R245Q|CIRH1A_uc010cfj.1_Missense_Mutation_p.R147Q	NM_032830	NP_116219	Q969X6	CIR1A_HUMAN	cirhin	328	WD 8.					nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)		GCCGCTCTCCGAAAAATCACC	0.537													26	58					0	0	1	0	0		A	69184788	A	A	69184788	3	1	199	1	0	0	0	0	1	0	0	0	3437	1058	37	1	1009	1	CIRH1A	16	69184788	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	452491	69184788	21169965	993	98385											
WWP2	11060	broad.mit.edu	37	chr16	69875982	69875982	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcagtagctccagagaaccgGcaccagccccccagcacaaa	13	2	9	17	1	0	1	0	0	0	1	1	2	1	1	6	1	4	5	6	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:69875982G>A	uc002exu.1	+	7	623	c.534G>A	c.(532-534)CGG>CGA	p.R178R	WWP2_uc002ext.2_Silent_p.R178R|WWP2_uc002exv.1_Silent_p.R178R|WWP2_uc010vlm.1_Silent_p.R62R	NM_007014	NP_008945	O00308	WWP2_HUMAN	WW domain containing E3 ubiquitin protein ligase	178					entry of virus into host cell|negative regulation of protein transport|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transporter activity|proteasomal ubiquitin-dependent protein catabolic process|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|ubiquitin ligase complex	RNA polymerase II transcription factor binding|ubiquitin-protein ligase activity			lung(3)|ovary(1)|breast(1)|skin(1)	6						CAGAGAACCGGCACCAGCCCC	0.502													4	25					0	0	1	0	0		A	69875982	A	A	69875982	2	1	199	1	0	0	0	0	0	0	0	1	17442	1190	42	2		2	WWP2	16	69875982	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	691194	69875982	20478771	994	98386											
PDPR	55066	broad.mit.edu	37	chr16	70176286	70176286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaagtactttgttccccccGacaagggtaagaagtcacat	13	9	8	11	1	1	1	1	0	0	1	2	2	2	1	3	1	1	3	3	1	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:70176286G>A	uc002eyf.1	+	12	2422	c.1465G>A	c.(1465-1467)GAC>AAC	p.D489N	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.D389N|PDPR_uc002eyg.1_Missense_Mutation_p.D217N	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	489					glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		TGTTCCCCCCGACAAGGGTAA	0.428													3	74					0	0	1	0	0		A	70176286	A	A	70176286	3	1	199	1	0	0	0	0	1	0	0	0	11708	1058	37	1	1503	1	PDPR	16	70176286	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	300304	70176286	20178467	995	98387											
VAC14	55697	broad.mit.edu	37	chr16	70806020	70806020	+	Silent	SNP	A	G	G	1	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	caagccacttacctggctgcAgtgaagacactgatgccgct	10	8	10	13	1	0	3	0	2	0	1	0	3	0	3	3	1	4	3	3	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:70806020A>G	uc002ezm.2	-	10	1410	c.1152T>C	c.(1150-1152)ACT>ACC	p.T384T	VAC14_uc010cfw.2_Silent_p.T150T|VAC14_uc002ezn.2_Intron|uc002ezp.1_3'UTR|uc002ezq.2_5'Flank	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog	384					interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				ACCTGGCTGCAGTGAAGACAC	0.542													3	43					0	0	1	0	0		G	70806020	G	G	70806020	2	3	199	1	0	0	0	0	0	0	0	1	17137	175	7	3		3	VAC14	16	70806020	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	629734	70806020	19548733	996	98388											
ZFHX3	463	broad.mit.edu	37	chr16	72845607	72845607	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	catgggttgcaccgagtgctGcgtcatggcatgcacccgga	7	8	14	12	3	1	0	1	0	0	0	1	2	1	1	2	3	4	5	2	3	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:72845607G>A	uc002fck.2	-	7	4406	c.3733C>T	c.(3733-3735)CAG>TAG	p.Q1245*	ZFHX3_uc002fcl.2_Nonsense_Mutation_p.Q331*	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	1245	C2H2-type 10; atypical.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ACCGAGTGCTGCGTCATGGCA	0.587													19	62					0	0	1	0	0		A	72845607	A	A	72845607	4	1	199	1	0	0	0	0	0	1	0	0	17659	1328	46	2	7394	2	ZFHX3	16	72845607	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2039587	72845607	17509146	997	98389											
ZFHX3	463	broad.mit.edu	37	chr16	72993115	72993115	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaattttccgctcgtcttcGctcagggtcattcgatggtc	6	14	10	11	4	3	1	2	0	1	1	8	2	4	1	1	2	0	2	1	2	1	4	rs35466869	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:72993115G>A	uc002fck.2	-	2	1603	c.930C>T	c.(928-930)AGC>AGT	p.S310S	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	310					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				GCTCGTCTTCGCTCAGGGTCA	0.483													6	43					0	0	1	0	0		A	72993115	A	A	72993115	2	1	199	1	0	0	0	0	0	0	0	1	17659	1078	38	1		1	ZFHX3	16	72993115	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	147508	72993115	17361638	998	98390											
MLYCD	23417	broad.mit.edu	37	chr16	83945904	83945904	+	Missense_Mutation	SNP	A	G	G	1	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	tcttttattccatcagcttgAcccagcagggactccaaggg	9	11	9	12	0	2	1	1	1	1	0	4	2	4	2	3	2	2	2	3	2	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:83945904A>G	uc002fgz.2	+	4	900	c.880A>G	c.(880-882)ACC>GCC	p.T294A		NM_012213	NP_036345	O95822	DCMC_HUMAN	malonyl-CoA decarboxylase precursor	294					acyl-CoA metabolic process|fatty acid biosynthetic process	mitochondrion|peroxisome	malonyl-CoA decarboxylase activity|methylmalonyl-CoA decarboxylase activity				0						CATCAGCTTGACCCAGCAGGG	0.517													12	41					0	0	1	0	0		G	83945904	G	G	83945904	3	3	199	1	0	0	0	0	1	0	0	0	9656	275	10	3	894	3	MLYCD	16	83945904	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	10952789	83945904	6408849	999	98391											
TAF1C	9013	broad.mit.edu	37	chr16	84216854	84216854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcacgggccactcacccccGctccctccagcttgaaattc	7	8	7	19	2	2	1	2	1	0	0	5	1	4	1	5	1	1	2	5	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:84216854G>A	uc002fhn.2	-	5	632	c.404C>T	c.(403-405)GCG>GTG	p.A135V	TAF1C_uc002fhm.2_Missense_Mutation_p.A68V|TAF1C_uc010vnx.1_Missense_Mutation_p.A135V|TAF1C_uc010vny.1_5'UTR|TAF1C_uc010vnz.1_5'UTR|TAF1C_uc002fho.2_5'UTR|TAF1C_uc010voa.1_Intron|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Missense_Mutation_p.A135V	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	135					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						ACTCACCCCCGCTCCCTCCAG	0.607													19	75					0	0	1	0	0		A	84216854	A	A	84216854	3	1	199	1	0	0	0	0	1	0	0	0	15546	1087	38	1	2245	1	TAF1C	16	84216854	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	270950	84216854	6137899	1000	98392											
ADAD2	161931	broad.mit.edu	37	chr16	84229828	84229828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgcctgccacctccctacGtccggaccgccctgcacctg	5	7	8	21	3	0	0	0	0	0	0	2	1	2	1	8	1	4	1	8	1	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:84229828G>A	uc002fhr.2	+	8	1492	c.1378G>A	c.(1378-1380)GTC>ATC	p.V460I	ADAD2_uc002fhq.2_Missense_Mutation_p.V542I|uc002fhs.1_Intron	NM_001145400	NP_001138872	Q8NCV1	ADAD2_HUMAN	adenosine deaminase domain containing 2 isoform	460	A to I editase.				RNA processing	intracellular	adenosine deaminase activity|double-stranded RNA binding				0						ACCTCCCTACGTCCGGACCGC	0.692													21	80					0	0	1	0	0		A	84229828	A	A	84229828	3	1	199	1	0	0	0	0	1	0	0	0	232	1145	40	1	1658	1	ADAD2	16	84229828	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	12974	84229828	6124925	1001	98393											
ZDHHC7	55625	broad.mit.edu	37	chr16	85015579	85015579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccatgtattctttcgtagCgtttcctttgggtactgccc	4	17	8	12	2	1	0	0	0	1	0	4	0	3	0	3	1	3	4	3	1	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:85015579C>T	uc002fiq.2	-	4	690	c.337G>A	c.(337-339)GCT>ACT	p.A113T	ZDHHC7_uc010voi.1_Missense_Mutation_p.A150T|ZDHHC7_uc002fir.1_RNA	NM_017740	NP_060210	Q9NXF8	ZDHC7_HUMAN	zinc finger, DHHC-type containing 7 isoform 2	113						integral to membrane	acyltransferase activity|protein binding|zinc ion binding			large_intestine(1)	1						TCTTTCGTAGCGTTTCCTTTG	0.423													16	97					0	0	1	0	0		T	85015579	T	T	85015579	3	4	199	1	0	0	0	0	1	0	0	0	17645	768	27	1	609	1	ZDHHC7	16	85015579	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	785751	85015579	5339174	1002	98394											
CDH15	1013	broad.mit.edu	37	chr16	89251636	89251636	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacgaccccgagacggacaaCgcagcgctgcggttctccat	9	5	12	15	6	1	1	0	0	1	1	2	5	1	2	3	2	3	3	3	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr16:89251636C>T	uc002fmt.2	+	5	635	c.558C>T	c.(556-558)AAC>AAT	p.N186N	CDH15_uc010cij.1_Silent_p.N186N	NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	186	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		AGACGGACAACGCAGCGCTGC	0.657													4	8					0	0	1	0	0		T	89251636	T	T	89251636	2	4	199	1	0	0	0	0	0	0	0	1	3103	535	19	1		1	CDH15	16	89251636	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4236057	89251636	1103117	1003	98395											
MYO1C	4641	broad.mit.edu	37	chr17	1386275	1386275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcggtcttgcctgccccGctctccccagagatcatcac	5	9	8	19	2	4	1	2	0	2	1	6	2	4	1	6	1	2	1	6	1	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:1386275G>A	uc002fsp.2	-	4	646	c.426C>T	c.(424-426)AGC>AGT	p.S142S	MYO1C_uc002fsn.2_Silent_p.S123S|MYO1C_uc002fso.2_Silent_p.S107S|MYO1C_uc010vqj.1_Silent_p.S107S|MYO1C_uc010vqk.1_Silent_p.S118S	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	142	Myosin head-like.|ATP (Potential).				mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		TGCCTGCCCCGCTCTCCCCAG	0.687													3	25					0	0	1	0	0		A	1386275	A	A	1386275	2	1	199	1	0	0	0	0	0	0	0	1	10088	1078	38	1		1	MYO1C	17	1386275	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08		1386275	79808935	1004	98396											
PRPF8	10594	broad.mit.edu	37	chr17	1579927	1579927	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccgttctcggttgtagtgggCagtgttggtccaccagtcag	5	12	14	10	2	2	0	1	0	1	0	4	0	3	0	3	3	0	5	3	3	1	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:1579927C>T	uc002fte.2	-	16	2374	c.2260G>A	c.(2260-2262)GCC>ACC	p.A754T		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	754						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TTGTAGTGGGCAGTGTTGGTC	0.542													84	242					0	0	1	0	0		T	1579927	T	T	1579927	3	4	199	1	0	0	0	0	1	0	0	0	12597	710	25	2	4859	2	PRPF8	17	1579927	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	193652	1579927	79615283	1005	98397											
SGSM2	9905	broad.mit.edu	37	chr17	2267458	2267458	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatgaatgggactctggggGactccgagctggaaaagagg	11	7	16	7	1	2	2	1	1	1	1	3	6	3	5	1	5	1	1	1	5	3	0	rs61733094		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:2267458G>T	uc002fun.3	+	8	1088	c.913G>T	c.(913-915)GAC>TAC	p.D305Y	SGSM2_uc002fum.3_Missense_Mutation_p.D305Y|SGSM2_uc010vqw.1_Missense_Mutation_p.D305Y|SGSM2_uc002fuo.2_5'Flank	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	305						intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		GACTCTGGGGGACTCCGAGCT	0.612													12	32					9.16793e-09	9.91219e-09	1	1	0		T	2267458	T	T	2267458	3	4	199	1	0	0	0	0	1	0	0	0	14248	1174	41	5	943	5	SGSM2	17	2267458	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	687531	2267458	78927752	1006	98398											
MYBBP1A	10514	broad.mit.edu	37	chr17	4451584	4451584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccggtgcctgcttgaactgCgtgctgagggtctgcaacag	6	9	14	12	2	1	2	0	2	1	0	1	2	1	2	2	2	7	3	2	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:4451584C>T	uc002fyb.3	-	12	1640	c.1578G>A	c.(1576-1578)ACG>ACA	p.T526T	MYBBP1A_uc002fxz.3_Silent_p.T526T	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	526	Interaction with MYB (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						GCTTGAACTGCGTGCTGAGGG	0.637													5	95					0	0	1	0	0		T	4451584	T	T	4451584	2	4	199	1	0	0	0	0	0	0	0	1	10026	755	27	1		1	MYBBP1A	17	4451584	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2184126	4451584	76743626	1007	98399											
NLRP1	22861	broad.mit.edu	37	chr17	5463094	5463094	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatctcaattaaatgtcctcGattctcctccacataatcag	12	13	4	12	1	3	0	2	0	2	0	8	2	5	0	3	0	0	0	3	0	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:5463094G>A	uc002gci.2	-	4	1477	c.922C>T	c.(922-924)CGA>TGA	p.R308*	NLRP1_uc002gcg.1_Nonsense_Mutation_p.R308*|NLRP1_uc002gck.2_Nonsense_Mutation_p.R308*|NLRP1_uc002gcj.2_Nonsense_Mutation_p.R308*|NLRP1_uc002gcl.2_Nonsense_Mutation_p.R308*|NLRP1_uc002gch.3_Nonsense_Mutation_p.R308*|NLRP1_uc010clh.2_Nonsense_Mutation_p.R308*	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	308					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				AAATGTCCTCGATTCTCCTCC	0.488													31	137					0	0	1	0	0		A	5463094	A	A	5463094	4	1	199	1	0	0	0	0	0	1	0	0	10490	1066	37	1	3630	1	NLRP1	17	5463094	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1011510	5463094	75732116	1008	98400											
PITPNM3	83394	broad.mit.edu	37	chr17	6367630	6367630	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	gatggctctgccattactagGatgtccacctgcggcagtga	8	10	12	11	1	1	1	0	1	1	0	2	3	2	2	3	3	3	2	3	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:6367630G>C	uc002gdd.3	-	16	2167	c.2016C>G	c.(2014-2016)ATC>ATG	p.I672M	PITPNM3_uc010cln.2_Missense_Mutation_p.I636M|PITPNM3_uc010clm.2_Missense_Mutation_p.I155M|PITPNM3_uc002gdc.3_Missense_Mutation_p.I263M	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	672					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CCATTACTAGGATGTCCACCT	0.637													14	28					0	0	1	0	0		C	6367630	C	C	6367630	3	2	199	1	0	0	0	0	1	0	0	0	11971	1164	41	5	928	5	PITPNM3	17	6367630	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	904536	6367630	74827580	1009	98401											
KIAA0753	9851	broad.mit.edu	37	chr17	6511778	6511778	+	Silent	SNP	T	C	C	0	1	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	ctagttttcacctttagccaTgcagcactgaaataaatgga	13	12	7	9	0	1	1	1	1	0	0	1	2	1	2	2	1	3	3	2	1	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:6511778T>C	uc002gde.3	-	10	2078	c.1719A>G	c.(1717-1719)GCA>GCG	p.A573A	KIAA0753_uc010vtd.1_Silent_p.A29A|KIAA0753_uc010clo.2_Silent_p.A274A|KIAA0753_uc010vte.1_Silent_p.A274A	NM_014804	NP_055619	Q2KHM9	K0753_HUMAN	hypothetical protein LOC9851	573						centrosome					0				COAD - Colon adenocarcinoma(228;0.157)		CCTTTAGCCATGCAGCACTGA	0.463													42	153					0	0	1	0	0		C	6511778	C	C	6511778	2	2	199	1	0	0	0	0	0	0	0	1	8207	1451	51	3		3	KIAA0753	17	6511778	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	144148	6511778	74683432	1010	98402											
BCL6B	255877	broad.mit.edu	37	chr17	6927843	6927843	+	Silent	SNP	A	G	G	1	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	gacccacctactgaatctcgAagctgcagtcaaggcccccc	10	6	8	17	1	2	1	1	1	1	0	3	3	2	1	5	1	3	2	5	1	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:6927843A>G	uc002geg.2	+	4	582	c.525A>G	c.(523-525)CGA>CGG	p.R175R	BCL6B_uc010clt.1_Silent_p.R175R	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	175	Pro-rich.					nucleus	zinc ion binding			skin(1)	1						CTGAATCTCGAAGCTGCAGTC	0.617													35	82					0	0	1	0	0		G	6927843	G	G	6927843	2	3	199	1	0	0	0	0	0	0	0	1	1378	233	9	3		3	BCL6B	17	6927843	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	416065	6927843	74267367	1011	98403											
ASGR1	432	broad.mit.edu	37	chr17	7077301	7077301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagcccgtctcgtagtccGtcccgtccacccacttccag	6	9	8	18	4	1	1	0	1	1	0	6	1	5	1	6	0	1	1	6	0	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:7077301G>A	uc002ges.3	-	8	1090	c.680C>T	c.(679-681)ACG>ATG	p.T227M	ASGR1_uc010clx.1_Missense_Mutation_p.T126M	NM_001671	NP_001662	P07306	ASGR1_HUMAN	asialoglycoprotein receptor 1	227	Extracellular (Probable).|C-type lectin.				receptor-mediated endocytosis	integral to plasma membrane	asialoglycoprotein receptor activity|metal ion binding|sugar binding			breast(1)|central_nervous_system(1)	2						CTCGTAGTCCGTCCCGTCCAC	0.657													22	54					0	0	1	0	0		A	7077301	A	A	7077301	3	1	199	1	0	0	0	0	1	0	0	0	1040	1145	40	1	203	1	ASGR1	17	7077301	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	149458	7077301	74117909	1012	98404											
ZBTB4	57659	broad.mit.edu	37	chr17	7369702	7369702	+	Missense_Mutation	SNP	A	G	G	1	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	gggcgctgtagatgaagttgAggacatcagaaaacgcagct	13	7	14	7	2	1	4	1	2	0	2	1	5	1	5	0	2	2	5	0	2	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:7369702A>G	uc002ghc.3	-	3	669	c.419T>C	c.(418-420)CTC>CCC	p.L140P	ZBTB4_uc002ghd.3_Missense_Mutation_p.L140P	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	140	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		GATGAAGTTGAGGACATCAGA	0.602													3	17					0	0	1	0	0		G	7369702	G	G	7369702	3	3	199	1	0	0	0	0	1	0	0	0	17566	304	11	3	2630	3	ZBTB4	17	7369702	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	292401	7369702	73825508	1013	98405											
TP53	7157	broad.mit.edu	37	chr17	7578555	7578555	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttgagggcaggggagtaCtgtaggaagaggaaggagac	12	7	19	3	0	0	3	0	1	0	2	0	7	0	6	0	6	1	4	0	6	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:7578555C>T	uc002gim.2	-	5	570	c.376_splice	c.e5-1	p.Y126_splice	TP53_uc002gig.1_Splice_Site_p.Y126_splice|TP53_uc002gih.2_Splice_Site_p.Y126_splice|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'UTR|TP53_uc010cng.1_5'UTR|TP53_uc002gii.1_5'UTR|TP53_uc010cnh.1_Splice_Site_p.Y126_splice|TP53_uc010cni.1_Splice_Site_p.Y126_splice|TP53_uc002gij.2_Splice_Site_p.Y126_splice|TP53_uc010cnj.1_Splice_Site|TP53_uc002gin.2_Splice_Site_p.Y33_splice|TP53_uc002gio.2_Splice_Site|TP53_uc010vug.1_Splice_Site_p.Y87_splice	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a						activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.?(31)|p.0?(7)|p.V73fs*9(1)|p.Y126fs*11(1)|p.P13fs*18(1)|p.T125_Y126insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CAGGGGAGTACTGTAGGAAGA	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			3	19					0	0	1	0	0		T	7578555	T	T	7578555	5	4	199	1	0	0	0	0	0	0	1	0	16407	579	20	4	923	4	TP53	17	7578555	Splice_Site	SNP	C	TCGA-HF-7132-01A-11D-2053-08	208853	7578555	73616655	1014	98406											
CHD3	1107	broad.mit.edu	37	chr17	7805989	7805989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaaggctacaagtatgagcGcatcgatggtggtatcacgg	11	9	14	7	3	1	2	1	2	0	0	2	3	1	2	0	4	2	4	0	4	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:7805989G>A	uc002gje.2	+	21	3464	c.3314G>A	c.(3313-3315)CGC>CAC	p.R1105H	CHD3_uc002gjd.2_Missense_Mutation_p.R1164H|CHD3_uc002gjf.2_Missense_Mutation_p.R1105H|CHD3_uc002gjh.2_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1105	Helicase C-terminal.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				AAGTATGAGCGCATCGATGGT	0.507													26	63					0	0	1	0	0		A	7805989	A	A	7805989	3	1	199	1	0	0	0	0	1	0	0	0	3329	1087	38	1	3677	1	CHD3	17	7805989	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	227434	7805989	73389221	1015	98407											
ALOX12B	242	broad.mit.edu	37	chr17	7978994	7978994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggatcaccctccacggctgCgtcactcgggtaataatagg	9	8	11	13	4	2	0	2	0	0	0	4	1	3	1	2	4	1	2	2	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:7978994C>T	uc002gjy.1	-	12	1834	c.1573G>A	c.(1573-1575)GCA>ACA	p.A525T		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	525	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						TCCACGGCTGCGTCACTCGGG	0.577										Multiple Myeloma(8;0.094)			57	197					0	0	1	0	0		T	7978994	T	T	7978994	3	4	199	1	0	0	0	0	1	0	0	0	537	768	27	1	548	1	ALOX12B	17	7978994	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	173005	7978994	73216216	1016	98408											
SLC25A35	399512	broad.mit.edu	37	chr17	8192959	8192959	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgggttcccaggagaatcGggctgggagggacagaacag	11	5	17	8	1	0	2	0	0	0	2	2	5	1	4	1	5	1	2	1	5	2	1	rs145334128		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:8192959G>T	uc002gku.1	-	6	908	c.863C>A	c.(862-864)CCG>CAG	p.P288Q	SLC25A35_uc002gkt.2_Missense_Mutation_p.P288Q|RANGRF_uc002gkv.2_Intron|RANGRF_uc002gkw.2_Intron|RANGRF_uc002gky.2_3'UTR|RANGRF_uc002gkx.2_3'UTR|SLC25A35_uc002gkz.1_RNA	NM_201520	NP_958928	Q3KQZ1	S2535_HUMAN	solute carrier family 25, member 35	Error:Variant_position_missing_in_Q3KQZ1_after_alignment					transport	integral to membrane|mitochondrial inner membrane					0						CAGGAGAATCGGGCTGGGAGG	0.587													11	40					6.31663e-08	6.77938e-08	1	1	0		T	8192959	T	T	8192959	3	4	199	1	0	0	0	0	1	0	0	0	14524	1116	39	5	28	5	SLC25A35	17	8192959	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	213965	8192959	73002251	1017	98409											
GAS7	8522	broad.mit.edu	37	chr17	9837547	9837547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcttcacctgggcccacGcctctcccaaggagctgcaa	7	9	8	17	1	4	0	1	0	3	0	5	1	4	1	4	2	2	2	4	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:9837547G>A	uc002gmg.1	-	9	982	c.821C>T	c.(820-822)GCG>GTG	p.A274V	GAS7_uc010vvc.1_Missense_Mutation_p.A88V|GAS7_uc002gmh.1_Missense_Mutation_p.A134V|GAS7_uc010vvd.1_Missense_Mutation_p.A226V|GAS7_uc002gmi.2_Missense_Mutation_p.A210V|GAS7_uc002gmj.1_Missense_Mutation_p.A214V|GAS7_uc010coh.1_Missense_Mutation_p.A214V	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	274	FCH.				cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						CTGGGCCCACGCCTCTCCCAA	0.597			T	MLL	AML*								3	4					0	0	1	0	0		A	9837547	A	A	9837547	3	1	199	1	0	0	0	0	1	0	0	0	6265	1087	38	1	633	1	GAS7	17	9837547	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1644588	9837547	71357663	1018	98410											
MYH13	8735	broad.mit.edu	37	chr17	10209901	10209901	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcatccgctccaggtgggCgctggtgtcctgttccttct	2	14	11	14	2	2	0	1	0	1	0	6	0	6	0	4	3	0	3	4	3	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:10209901C>T	uc002gmk.1	-	37	5431	c.5341G>A	c.(5341-5343)GCC>ACC	p.A1781T		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1781	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCCAGGTGGGCGCTGGTGTCC	0.582													14	54					0	0	1	0	0		T	10209901	T	T	10209901	3	4	199	1	0	0	0	0	1	0	0	0	10050	768	27	1	495	1	MYH13	17	10209901	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	372354	10209901	70985309	1019	98411											
MYH3	4621	broad.mit.edu	37	chr17	10558338	10558338	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttctgacttccggaggaaaGgagcagctatgccgaacact	11	9	11	10	2	1	1	0	1	1	0	2	5	2	4	2	3	4	2	2	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:10558338G>T	uc002gmq.1	-	2	121	c.44C>A	c.(43-45)CCT>CAT	p.P15H		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	15	Myosin head-like.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CCGGAGGAAAGGAGCAGCTAT	0.542													20	56					1.1804e-14	1.30907e-14	1	1	0		T	10558338	T	T	10558338	3	4	199	1	0	0	0	0	1	0	0	0	10054	1000	35	5	5934	5	MYH3	17	10558338	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	348437	10558338	70636872	1020	98412											
TEKT3	64518	broad.mit.edu	37	chr17	15217458	15217458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgacaccgtctgatgtgttgCgcaggtggtggcatttgtcg	5	12	15	9	4	1	1	0	1	1	0	2	2	1	1	1	3	1	3	1	3	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:15217458C>T	uc002gon.2	-	6	1011	c.824G>A	c.(823-825)CGC>CAC	p.R275H		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	275					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		TGATGTGTTGCGCAGGTGGTG	0.547													13	61					0	0	1	0	0		T	15217458	T	T	15217458	3	4	199	1	0	0	0	0	1	0	0	0	15779	768	27	1	664	1	TEKT3	17	15217458	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4659120	15217458	65977752	1021	98413											
NCOR1	9611	broad.mit.edu	37	chr17	16001755	16001755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggttttaacggagatgagaCgagtatagatccagtggggt	11	11	15	4	2	0	3	0	1	0	3	1	6	1	3	1	4	1	2	1	4	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:16001755C>T	uc002gpo.2	-	21	2986	c.2746G>A	c.(2746-2748)GTC>ATC	p.V916I	NCOR1_uc002gpn.2_Missense_Mutation_p.V932I|NCOR1_uc002gpp.1_Missense_Mutation_p.V823I|NCOR1_uc002gpr.2_Missense_Mutation_p.V823I	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	916					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		GGAGATGAGACGAGTATAGAT	0.378													9	35					0	0	1	0	0		T	16001755	T	T	16001755	3	4	199	1	0	0	0	0	1	0	0	0	10254	536	19	1	4680	1	NCOR1	17	16001755	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	784297	16001755	65193455	1022	98414											
RAI1	10743	broad.mit.edu	37	chr17	17698232	17698232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggactctgtggccaagagtgCgtggccccggcctggggagc	5	6	18	12	2	1	1	0	0	1	1	1	3	1	3	4	6	2	0	4	6	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:17698232C>T	uc002grm.2	+	3	2439	c.1970C>T	c.(1969-1971)GCG>GTG	p.A657V	RAI1_uc002grn.1_Missense_Mutation_p.A657V	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	657						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GCCAAGAGTGCGTGGCCCCGG	0.647													6	20					0	0	1	0	0		T	17698232	T	T	17698232	3	4	199	1	0	0	0	0	1	0	0	0	13032	768	27	1	1972	1	RAI1	17	17698232	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1696477	17698232	63496978	1023	98415											
SREBF1	6720	broad.mit.edu	37	chr17	17716744	17716744	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cgaggagctggtgtgtccgtGtggggctggcccccgccatc	3	8	17	13	3	0	0	0	0	0	0	2	2	1	1	4	5	1	2	4	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:17716744G>A	uc002gru.1	-	18	3346	c.3152C>T	c.(3151-3153)ACA>ATA	p.T1051I	SREBF1_uc002gro.3_5'Flank|SREBF1_uc002grp.1_Missense_Mutation_p.T670I|SREBF1_uc002grq.1_Missense_Mutation_p.T570I|SREBF1_uc002grr.1_Missense_Mutation_p.T797I|SREBF1_uc002grs.1_Missense_Mutation_p.T1027I|SREBF1_uc002grt.1_Missense_Mutation_p.T1081I	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	1051	Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						GTGTGTCCGTGTGGGGCTGGC	0.692													3	9					0	0	1	0	0		A	17716744	A	A	17716744	3	1	199	1	0	0	0	0	1	0	0	0	15166	1377	48	4	299	4	SREBF1	17	17716744	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	18512	17716744	63478466	1024	98416											
SREBF1	6720	broad.mit.edu	37	chr17	17722433	17722433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggctgtgcgcttctctccaCggctctgggcagaggccggg	3	8	17	13	3	2	1	0	0	2	1	4	1	3	1	2	5	1	4	2	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:17722433C>T	uc002gru.1	-	5	1156	c.962G>A	c.(961-963)CGT>CAT	p.R321H	SREBF1_uc002grp.1_5'Flank|SREBF1_uc002grq.1_Translation_Start_Site|SREBF1_uc002grr.1_Missense_Mutation_p.R67H|SREBF1_uc002grs.1_Missense_Mutation_p.R297H|SREBF1_uc002grt.1_Missense_Mutation_p.R351H|SREBF1_uc010cpp.1_Missense_Mutation_p.R297H|SREBF1_uc010cpq.1_Missense_Mutation_p.R321H	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	321	Cytoplasmic (Potential).|Interaction with LMNA (By similarity).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CTTCTCTCCACGGCTCTGGGC	0.592													14	34					0	0	1	0	0		T	17722433	T	T	17722433	3	4	199	1	0	0	0	0	1	0	0	0	15166	536	19	1	2541	1	SREBF1	17	17722433	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5689	17722433	63472777	1025	98417											
DRG2	1819	broad.mit.edu	37	chr17	18009790	18009790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccagccagttcaagtacgCcctggtgtgggtgagtctct	6	10	13	12	2	2	1	1	1	1	0	3	1	2	1	3	2	2	2	3	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:18009790C>T	uc002gsh.1	+	12	1053	c.998C>T	c.(997-999)GCC>GTC	p.A333V	DRG2_uc002gsi.1_RNA|DRG2_uc002gsj.1_Intron|MYO15A_uc010vxh.1_5'Flank	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	333					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)					TTCAAGTACGCCCTGGTGTGG	0.597													14	46					0	0	1	0	0		T	18009790	T	T	18009790	3	4	199	1	0	0	0	0	1	0	0	0	4768	739	26	2	1044	2	DRG2	17	18009790	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	287357	18009790	63185420	1026	98418											
LLGL1	3996	broad.mit.edu	37	chr17	18141431	18141431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggagggtccgctctcccGggtgaagtctctcaagaagt	8	9	13	11	2	3	2	1	1	2	1	6	3	4	3	2	3	0	1	2	3	3	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:18141431G>A	uc002gsp.2	+	15	2016	c.1955G>A	c.(1954-1956)CGG>CAG	p.R652Q		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	652	WD 10.				cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					CCGCTCTCCCGGGTGAAGTCT	0.607													10	15					0	0	1	0	0		A	18141431	A	A	18141431	3	1	199	1	0	0	0	0	1	0	0	0	8850	1116	39	1	2013	1	LLGL1	17	18141431	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	131641	18141431	63053779	1027	98419											
CYTSB	92521	broad.mit.edu	37	chr17	20135630	20135631	+	Missense_Mutation	DNP	GA	CT	CT																															ccgtgaagaggaaactgctgGaggaggaggagaagaatgcc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:20135630_20135631GA>CT	uc002gwq.2	+	7	2408_2409	c.2263_2264GA>CT	c.(2263-2265)GAG>CTG	p.E755L	CYTSB_uc010cqx.2_Missense_Mutation_p.E755L|CYTSB_uc002gwr.2_Missense_Mutation_p.E755L|CYTSB_uc002gws.2_Missense_Mutation_p.E755L|CYTSB_uc002gwv.2_Missense_Mutation_p.E674L|CYTSB_uc010vzf.1_Missense_Mutation_p.E95L|CYTSB_uc002gww.2_Missense_Mutation_p.E531L|CYTSB_uc002gwt.2_Missense_Mutation_p.E674L|CYTSB_uc002gwu.2_Missense_Mutation_p.E674L	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	755	Potential.					nucleus					0						GAAACTGCTGGAGGAGGAGGAG	0.644													6	20					0	0	1	0	0		CT	20135631	CT	CT	20135630	3	2	199	1	0	0	0	0	1	0	0	0	4213	1175	41	5	2329	5	CYTSB	17	20135630	Missense_Mutation	DNP	GA	TCGA-HF-7132-01A-11D-2053-08	1994199	20135630	61059580	1028	98420											
LGALS9B	284194	broad.mit.edu	37	chr17	20361569	20361569	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagggcatgtgcatcttcCtctcctcgggcccccatctt	5	11	10	15	1	3	0	0	0	3	0	6	1	4	1	4	3	1	2	4	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:20361569C>A	uc002gxa.1	-	3	325	c.260G>T	c.(259-261)AGG>ATG	p.R87M	LGALS9B_uc002gwz.1_Missense_Mutation_p.R87M|LGALS9B_uc010vzh.1_Translation_Start_Site	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	87	Beta-galactoside binding 1 (By similarity).|Galectin 1.						sugar binding			skin(1)	1						GTGCATCTTCCTCTCCTCGGG	0.552													16	139					7.45023e-12	8.18184e-12	1	1	0		A	20361569	A	A	20361569	3	1	199	1	0	0	0	0	1	0	0	0	8765	681	24	5	843	5	LGALS9B	17	20361569	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	225939	20361569	60833641	1029	98421											
KCNJ12	3768	broad.mit.edu	37	chr17	21319255	21319255	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgttcagccacaacgccGtggtggccctgcgtgacggc	5	8	14	14	4	1	1	1	1	0	0	1	1	1	1	3	3	4	2	3	3	1	1	rs147680561		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:21319255G>A	uc002gyv.1	+	3	1306	c.601G>A	c.(601-603)GTG>ATG	p.V201M		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	201	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	CCACAACGCCGTGGTGGCCCT	0.612										Prostate(3;0.18)			3	40					0	0	1	0	0		A	21319255	A	A	21319255	3	1	199	1	0	0	0	0	1	0	0	0	8062	1145	40	1	603	1	KCNJ12	17	21319255	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	957686	21319255	59875955	1030	98422											
ALDOC	230	broad.mit.edu	37	chr17	26902486	26902486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgcccggggctacaatcCgcagggcaatgtcagacaac	10	7	11	13	2	1	1	1	0	0	1	2	1	2	1	2	3	3	3	2	3	4	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:26902486C>T	uc002hbp.2	-	2	210	c.65G>A	c.(64-66)CGG>CAG	p.R22Q	ALDOC_uc010cro.2_Missense_Mutation_p.R22Q	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	22					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					GGCTACAATCCGCAGGGCAAT	0.557											OREG0024278	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	65					0	0	1	0	0		T	26902486	T	T	26902486	3	4	199	1	0	0	0	0	1	0	0	0	509	652	23	1	1061	1	ALDOC	17	26902486	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5583231	26902486	54292724	1031	98423											
TLCD1	116238	broad.mit.edu	37	chr17	27051593	27051593	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagggcagaagtcagagcGgaggaggcgggaaaagtaga	14	3	18	6	2	2	3	2	0	0	3	2	6	2	6	0	5	1	2	0	5	4	1	rs148558266		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:27051593G>T	uc002hco.2	-	4	794	c.679C>A	c.(679-681)CGC>AGC	p.R227S	TLCD1_uc010waw.1_Missense_Mutation_p.R180S	NM_138463	NP_612472	Q96CP7	TLCD1_HUMAN	TLC domain containing 1 isoform 1	227	TLC.					integral to membrane					0	Lung NSC(42;0.00431)					AAGTCAGAGCGGAGGAGGCGG	0.527													14	90					4.93089e-13	5.43957e-13	1	1	0		T	27051593	T	T	27051593	3	4	199	1	0	0	0	0	1	0	0	0	15962	1116	39	5	68	5	TLCD1	17	27051593	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	149107	27051593	54143617	1032	98424											
TLCD1	116238	broad.mit.edu	37	chr17	27051685	27051685	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtcctctggttcacataaCgcaagaagaaatgggtgagg	12	8	14	7	1	2	3	1	1	1	2	3	3	3	3	1	4	1	2	1	4	4	2	rs141253957		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:27051685C>T	uc002hco.2	-	4	702	c.587G>A	c.(586-588)CGT>CAT	p.R196H	TLCD1_uc010waw.1_Missense_Mutation_p.R149H	NM_138463	NP_612472	Q96CP7	TLCD1_HUMAN	TLC domain containing 1 isoform 1	196	TLC.					integral to membrane					0	Lung NSC(42;0.00431)					GTTCACATAACGCAAGAAGAA	0.532													16	52					0	0	1	0	0		T	27051685	T	T	27051685	3	4	199	1	0	0	0	0	1	0	0	0	15962	536	19	1	160	1	TLCD1	17	27051685	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	92	27051685	54143525	1033	98425											
SLC6A4	6532	broad.mit.edu	37	chr17	28538348	28538348	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgtgctgtccaagcccagCgtgattaacatcagaaagaa	14	7	9	11	2	1	3	1	1	0	2	2	3	2	3	3	0	4	1	3	0	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:28538348C>T	uc002hey.3	-	10	1843	c.1299G>A	c.(1297-1299)ACG>ACA	p.T433T	SLC6A4_uc010csg.2_RNA	NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	433	Helical; Name=8; (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	CCAAGCCCAGCGTGATTAACA	0.527													3	31					0	0	1	0	0		T	28538348	T	T	28538348	2	4	199	1	0	0	0	0	0	0	0	1	14711	755	27	1		1	SLC6A4	17	28538348	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1486663	28538348	52656862	1034	98426											
MYO1D	4642	broad.mit.edu	37	chr17	31048134	31048134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagatattctacttggtgcCggcagcgttcatcatcaaat	11	12	8	10	2	4	1	3	0	1	1	4	1	4	1	1	2	3	2	1	2	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:31048134C>T	uc002hho.1	-	15	1832	c.1820G>A	c.(1819-1821)CGG>CAG	p.R607Q	MYO1D_uc002hhp.1_Missense_Mutation_p.R607Q	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	607	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			TACTTGGTGCCGGCAGCGTTC	0.428													44	152					0	0	1	0	0		T	31048134	T	T	31048134	3	4	199	1	0	0	0	0	1	0	0	0	10089	652	23	1	1232	1	MYO1D	17	31048134	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2509786	31048134	50147076	1035	98427											
SLFN5	162394	broad.mit.edu	37	chr17	33588113	33588113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagaaacgctactttcCaggtaattggccatctctgg	10	10	10	11	1	1	1	0	0	1	1	3	1	2	1	2	3	3	4	2	3	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:33588113C>T	uc002hjf.3	+	3	1253	c.1136C>T	c.(1135-1137)CCA>CTA	p.P379L	SLFN5_uc010wcg.1_Missense_Mutation_p.P379L	NM_144975	NP_659412	Q08AF3	SLFN5_HUMAN	schlafen family member 5	379					cell differentiation		ATP binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0191)		CGCTACTTTCCAGGTAATTGG	0.338													24	99					0	0	1	0	0		T	33588113	T	T	33588113	3	4	199	1	0	0	0	0	1	0	0	0	14762	594	21	4	1142	4	SLFN5	17	33588113	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2539979	33588113	47607097	1036	98428											
ACACA	31	broad.mit.edu	37	chr17	35615203	35615203	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggacaaggaacgtgtgcagaAtcttcaaaatcaatgggaga	16	7	12	6	1	3	2	2	0	1	2	3	5	3	4	0	3	2	1	0	3	6	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:35615203A>C	uc002hnm.2	-	13	1673	c.1482T>G	c.(1480-1482)GAT>GAG	p.D494E	ACACA_uc002hnk.2_Missense_Mutation_p.D416E|ACACA_uc002hnl.2_Missense_Mutation_p.D436E|ACACA_uc002hnn.2_Missense_Mutation_p.D494E|ACACA_uc002hno.2_Missense_Mutation_p.D531E|ACACA_uc010cuz.2_Missense_Mutation_p.D494E	NM_198836	NP_942133	Q13085	ACACA_HUMAN	acetyl-Coenzyme A carboxylase alpha isoform 2	494	Biotin carboxylation.			D -> N (in Ref. 1; AAC50139).	acetyl-CoA metabolic process|energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|triglyceride biosynthetic process	cytosol	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			large_intestine(1)|ovary(1)	2		Breast(25;0.00157)|Ovarian(249;0.15)			Biotin(DB00121)	CGTGTGCAGAATCTTCAAAAT	0.443													15	57					0	0	1	0	0		C	35615203	C	C	35615203	3	2	199	1	0	0	0	0	1	0	0	0	106	98	4	5	5734	5	ACACA	17	35615203	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2027090	35615203	45580007	1037	98429											
PNMT	5409	broad.mit.edu	37	chr17	37826226	37826226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatgctggcaggataaggagCgccagctgcgagccagggtg	10	5	17	9	2	0	0	0	0	0	0	0	3	0	2	2	4	5	3	2	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:37826226C>T	uc002hsi.1	+	3	655	c.433C>T	c.(433-435)CGC>TGC	p.R145C		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	145					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	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)			GGATAAGGAGCGCCAGCTGCG	0.662													10	52					0	0	1	0	0		T	37826226	T	T	37826226	3	4	199	1	0	0	0	0	1	0	0	0	12178	768	27	1	443	1	PNMT	17	37826226	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2211023	37826226	43368984	1038	98430											
ERBB2	2064	broad.mit.edu	37	chr17	37883212	37883212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccagaccctgccccgggcGctgggggcatggtccaccac	5	5	14	17	2	0	1	0	0	0	1	2	1	2	1	6	4	1	2	6	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:37883212G>A	uc002hso.2	+	25	3353	c.3115G>A	c.(3115-3117)GCT>ACT	p.A1039T	ERBB2_uc002hsm.2_Missense_Mutation_p.A1009T|ERBB2_uc010cwa.2_Missense_Mutation_p.A1024T|ERBB2_uc002hsp.2_Missense_Mutation_p.A842T|ERBB2_uc010cwb.2_Missense_Mutation_p.A1039T|ERBB2_uc010wek.1_Missense_Mutation_p.A763T	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	1039	Cytoplasmic (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	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)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	TGCCCCGGGCGCTGGGGGCAT	0.647		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			28	86					0	0	1	0	0		A	37883212	A	A	37883212	3	1	199	1	0	0	0	0	1	0	0	0	5214	1087	38	1	3213	1	ERBB2	17	37883212	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	56986	37883212	43311998	1039	98431											
MED24	9862	broad.mit.edu	37	chr17	38192383	38192383	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcataccttactgatggctgTgaggacagaagagtaggaca	13	9	12	7	0	1	4	1	2	0	2	1	6	1	6	1	3	2	2	1	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:38192383T>C	uc002htt.2	-	4	551	c.238A>G	c.(238-240)ACA>GCA	p.T80A	MED24_uc010wes.1_5'Flank|MED24_uc010wet.1_RNA|MED24_uc002hts.2_Missense_Mutation_p.T105A|MED24_uc002htu.2_Intron|MED24_uc010cwn.2_Intron|MED24_uc010weu.1_Silent_p.S14S|MED24_uc010wev.1_Missense_Mutation_p.T30A|MED24_uc010wew.1_Missense_Mutation_p.T9A|MED24_uc010wex.1_Silent_p.S14S|MED24_uc010wez.1_5'Flank|MED24_uc010wfa.1_Missense_Mutation_p.T30A|MED24_uc010wfb.1_Intron|MED24_uc010wfc.1_Intron	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	80					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)					CTGATGGCTGTGAGGACAGAA	0.498													4	93					0	0	1	0	0		C	38192383	C	C	38192383	3	2	199	1	0	0	0	0	1	0	0	0	9460	1696	59	3	2823	3	MED24	17	38192383	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	309171	38192383	43002827	1040	98432											
CASC3	22794	broad.mit.edu	37	chr17	38323817	38323817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctgtgccagagccccccGcccctccagtgcatatcagt	7	7	9	18	1	1	1	1	0	0	1	2	2	2	1	8	0	3	1	8	0	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:38323817G>A	uc010cwt.1	+	9	1898	c.1603G>A	c.(1603-1605)GCC>ACC	p.A535T	CASC3_uc002hue.2_Missense_Mutation_p.A535T	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51	535	Necessary for localization in cytoplasmic stress granules.				mRNA processing|mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|response to stress|RNA splicing	exon-exon junction complex|nuclear speck|perinuclear region of cytoplasm	identical protein binding|RNA binding|ubiquitin protein ligase binding			ovary(1)	1						AGAGCCCCCCGCCCCTCCAGT	0.498													5	67					0	0	1	0	0		A	38323817	A	A	38323817	3	1	199	1	0	0	0	0	1	0	0	0	2664	1087	38	1	1637	1	CASC3	17	38323817	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	131434	38323817	42871393	1041	98433											
KRT39	390792	broad.mit.edu	37	chr17	39122766	39122766	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attctctcgttctagcattcGcaccttttgcaggtagttag	7	16	8	10	2	2	0	0	0	2	0	5	0	2	0	1	1	2	6	1	1	3	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:39122766G>A	uc002hvo.1	-	1	379	c.343C>T	c.(343-345)CGA>TGA	p.R115*	KRT39_uc010wfm.1_5'UTR	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	115	Coil 1A.|Rod.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				TCTAGCATTCGCACCTTTTGC	0.448													44	119					0	0	1	0	0		A	39122766	A	A	39122766	4	1	199	1	0	0	0	0	0	1	0	0	8492	1095	38	1	1160	1	KRT39	17	39122766	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	798949	39122766	42072444	1042	98434											
KRTAP4-11	653240	broad.mit.edu	37	chr17	39274186	39274186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcaggtgggctggcagcacaCagactggcagcactggggtc	8	5	17	11	0	0	1	0	0	0	1	1	1	0	1	0	6	2	6	0	6	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:39274186C>T	uc002hvz.2	-	1	421	c.382G>A	c.(382-384)GTG>ATG	p.V128M		NM_033059	NP_149048	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	128	21.|27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			tggcagcacacagactggcag	0.055													8	54					0	0	1	0	0		T	39274186	T	T	39274186	3	4	199	1	0	0	0	0	1	0	0	0	8565	478	17	4	209	4	KRTAP4-11	17	39274186	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	151420	39274186	41921024	1043	98435											
KRTAP9-2	83899	broad.mit.edu	37	chr17	39383096	39383096	+	Missense_Mutation	SNP	A	C	C	1	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	gtcaaaacacctgctgtaggAccacctgctgccagcccacc	10	6	8	17	0	1	0	1	0	0	0	1	1	1	1	6	1	5	3	6	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:39383096A>C	uc002hwf.2	+	1	197	c.190A>C	c.(190-192)ACC>CCC	p.T64P		NM_031961	NP_114167	Q9BYQ4	KRA92_HUMAN	keratin associated protein 9.2	64	17 X 5 AA repeats of C-C-[RQVSGE]-[SPTQ]- [TASP].|7.					keratin filament	protein binding			upper_aerodigestive_tract(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			CTGCTGTAGGACCACCTGCTG	0.657													14	89					0	0	1	0	0		C	39383096	C	C	39383096	3	2	199	1	0	0	0	0	1	0	0	0	8589	275	10	5	192	5	KRTAP9-2	17	39383096	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	108910	39383096	41812114	1044	98436											
KRT34	3885	broad.mit.edu	37	chr17	39535917	39535917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caggacctggttcaggtccaCagtgggggcagtgtccacct	7	8	14	12	0	1	0	1	0	0	0	3	1	3	1	4	5	0	2	4	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:39535917C>T	uc002hwm.2	-	4	793	c.781G>A	c.(781-783)GTG>ATG	p.V261M		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	261	Rod.|Linker 12.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)				TTCAGGTCCACAGTGGGGGCA	0.577													9	55					0	0	1	0	0		T	39535917	T	T	39535917	3	4	199	1	0	0	0	0	1	0	0	0	8487	478	17	4	545	4	KRT34	17	39535917	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	152821	39535917	41659293	1045	98437											
KRT36	8689	broad.mit.edu	37	chr17	39645760	39645760	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatgcggctctccagctcCgcgttctcccgctccagctg	3	10	11	17	4	2	0	0	0	2	0	6	1	4	1	4	2	3	5	4	2	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:39645760C>T	uc002hwt.2	-	1	357	c.357G>A	c.(355-357)GCG>GCA	p.A119A		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	119	Rod.|Coil 1A.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				TCTCCAGCTCCGCGTTCTCCC	0.567													33	137					0	0	1	0	0		T	39645760	T	T	39645760	2	4	199	1	0	0	0	0	0	0	0	1	8489	639	23	1		1	KRT36	17	39645760	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	109843	39645760	41549450	1046	98438											
ACBD4	79777	broad.mit.edu	37	chr17	43216487	43216487	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgcaggaggtgcaggcgaGggtgcagagcctggagagca	10	4	19	8	1	0	2	0	0	0	2	0	5	0	3	1	5	5	4	1	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:43216487G>T	uc002iid.2	+	9	1083	c.739G>T	c.(739-741)GGG>TGG	p.G247W	ACBD4_uc010wjj.1_Missense_Mutation_p.G263W|ACBD4_uc002iie.2_Missense_Mutation_p.G263W|ACBD4_uc002iif.2_Missense_Mutation_p.R250M|ACBD4_uc002iic.2_Missense_Mutation_p.R250M|ACBD4_uc010dae.2_Missense_Mutation_p.G185W	NM_001135707	NP_001129179	Q8NC06	ACBD4_HUMAN	acyl-Coenzyme A binding domain containing 4	247							fatty-acyl-CoA binding			ovary(1)|kidney(1)	2						GTGCAGGCGAGGGTGCAGAGC	0.652													13	59					6.31663e-08	6.77938e-08	1	1	0		T	43216487	T	T	43216487	3	4	199	1	0	0	0	0	1	0	0	0	124	1000	35	5	817	5	ACBD4	17	43216487	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3570727	43216487	37978723	1047	98439											
TBX21	30009	broad.mit.edu	37	chr17	45822254	45822254	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccccgaccttcctggccaggCgaaggatgtggttccccagg	6	7	13	15	2	0	0	0	0	0	0	2	3	2	1	7	5	0	1	7	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:45822254C>T	uc002ilv.1	+	6	1341	c.1130C>T	c.(1129-1131)GCG>GTG	p.A377V		NM_013351	NP_037483	Q9UL17	TBX21_HUMAN	T-box 21	377					lymphocyte migration|multicellular organismal development|positive regulation of transcription, DNA-dependent|response to virus	nucleus	sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						CCTGGCCAGGCGAAGGATGTG	0.597													15	108					0	0	1	0	0		T	45822254	T	T	45822254	3	4	199	1	0	0	0	0	1	0	0	0	15682	768	27	1	1152	1	TBX21	17	45822254	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2605767	45822254	35372956	1048	98440											
SP6	80320	broad.mit.edu	37	chr17	45925335	45925335	+	Frame_Shift_Del	DEL	C	-	-																															gctggtggtctccgacgtagCcccccaagcccgcctgaagc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:45925335delC	uc002img.1	-	2	793	c.461delG	c.(460-462)GGCfs	p.G154fs	SP6_uc002imh.1_Frame_Shift_Del_p.G154fs	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCCGACGTAGCCCCCCAAGCC	0.711													2	4	---	---	---	---						.	-	45925335	-	-	45925335	7	5	199	1	0	1	0	1	0	0	0	0	14993	739	26	0	673	0	SP6	17	45925335	Frame_Shift_Del	DEL	C	TCGA-HF-7132-01A-11D-2053-08	103081	45925335	35269875	1049	98441											
HOXB13	10481	broad.mit.edu	37	chr17	46804268	46804268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggctgccgagatcttgcGcctcttgtccttggtgatga	4	13	14	10	2	2	3	0	2	2	1	3	4	3	3	3	3	2	1	3	3	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:46804268G>A	uc002ioa.2	-	2	895	c.739C>T	c.(739-741)CGC>TGC	p.R247C	hsa-mir-3185|MI0014227_5'Flank	NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	247	Homeobox.				angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GAGATCTTGCGCCTCTTGTCC	0.577													24	95					0	0	1	0	0		A	46804268	A	A	46804268	3	1	199	1	0	0	0	0	1	0	0	0	7316	1087	38	1	119	1	HOXB13	17	46804268	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	878933	46804268	34390942	1050	98442			1	44		3	3	112	N	G_C	1.094877e-05
HOXB13	10481	broad.mit.edu	37	chr17	46804341	46804341	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaactgccccttgctgtaCggaatgcgtttcttgcggcc	5	11	11	14	4	1	0	0	0	1	0	1	1	1	1	3	2	6	4	3	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:46804341C>T	uc002ioa.2	-	2	822	c.666G>A	c.(664-666)CCG>CCA	p.P222P	hsa-mir-3185|MI0014227_5'Flank	NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	222	Homeobox.				angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CCTTGCTGTACGGAATGCGTT	0.627													15	76					0	0	1	0	0		T	46804341	T	T	46804341	2	4	199	1	0	0	0	0	0	0	0	1	7316	523	19	1		1	HOXB13	17	46804341	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	73	46804341	34390869	1051	98443			1	44		3	3	112	N	G_C	1.094877e-05
HOXB13	10481	broad.mit.edu	37	chr17	46804379	46804379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgcgacgaaaggcgcaggCgtcaggagggtgctgcccgc	7	3	18	13	6	1	0	1	0	0	0	1	3	1	1	2	4	2	2	2	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:46804379C>T	uc002ioa.2	-	2	784	c.628G>A	c.(628-630)GCC>ACC	p.A210T	hsa-mir-3185|MI0014227_5'Flank	NM_006361	NP_006352	Q92826	HXB13_HUMAN	homeobox B13	210					angiogenesis|epidermis development|response to wounding		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AAGGCGCAGGCGTCAGGAGGG	0.622													10	41					0	0	1	0	0		T	46804379	T	T	46804379	3	4	199	1	0	0	0	0	1	0	0	0	7316	768	27	1	230	1	HOXB13	17	46804379	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	38	46804379	34390831	1052	98444			1	44		3	3	112	N	G_C	1.094877e-05
DLX3	1747	broad.mit.edu	37	chr17	48072046	48072046	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgtggccctcacctgggtccTgggctggcagcggctgctcc	2	8	15	16	2	1	0	1	0	0	0	3	0	3	0	4	5	2	4	4	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:48072046T>C	uc002ipy.2	-	1	543	c.317A>G	c.(316-318)CAG>CGG	p.Q106R		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	106						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACCTGGGTCCTGGGCTGGCAG	0.622													9	31					0	0	1	0	0		C	48072046	C	C	48072046	3	2	199	1	0	0	0	0	1	0	0	0	4578	1580	55	3	558	3	DLX3	17	48072046	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1267667	48072046	33123164	1053	98445											
CACNA1G	8913	broad.mit.edu	37	chr17	48703700	48703700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcccccatccccacGggacctgaagaagtgctaca	11	4	12	14	1	0	2	0	1	0	1	1	5	1	5	5	3	3	1	5	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:48703700G>A	uc002irk.1	+	38	7094	c.6722G>A	c.(6721-6723)CGG>CAG	p.R2241Q	CACNA1G_uc002irj.1_Missense_Mutation_p.R2035Q|CACNA1G_uc002irl.1_Missense_Mutation_p.R2125Q|CACNA1G_uc002irm.1_Missense_Mutation_p.R2162Q|CACNA1G_uc002irn.1_Missense_Mutation_p.R2107Q|CACNA1G_uc002iro.1_Missense_Mutation_p.R2114Q|CACNA1G_uc002irp.1_Missense_Mutation_p.R2196Q|CACNA1G_uc002irq.1_Missense_Mutation_p.R2218Q|CACNA1G_uc002irr.1_Missense_Mutation_p.R2148Q|CACNA1G_uc002irs.1_Missense_Mutation_p.R2185Q|CACNA1G_uc002irt.1_Missense_Mutation_p.R2130Q|CACNA1G_uc002irv.1_Missense_Mutation_p.R2137Q|CACNA1G_uc002irw.1_Missense_Mutation_p.R2170Q|CACNA1G_uc002iru.1_Missense_Mutation_p.R2207Q|CACNA1G_uc002irx.1_Missense_Mutation_p.R1982Q|CACNA1G_uc002iry.1_Missense_Mutation_p.R1971Q|CACNA1G_uc002irz.1_Missense_Mutation_p.R2054Q|CACNA1G_uc002isa.1_Missense_Mutation_p.R2027Q|CACNA1G_uc002isb.1_Missense_Mutation_p.R2068Q|CACNA1G_uc002isc.1_Missense_Mutation_p.R2143Q|CACNA1G_uc002isd.1_Missense_Mutation_p.R2036Q|CACNA1G_uc002ise.1_Missense_Mutation_p.R2064Q|CACNA1G_uc002isf.1_Missense_Mutation_p.R2091Q|CACNA1G_uc002isg.1_Missense_Mutation_p.R2009Q|CACNA1G_uc002ish.1_Missense_Mutation_p.R2016Q|CACNA1G_uc002isi.1_Missense_Mutation_p.R2004Q	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	2241	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	CCATCCCCACGGGACCTGAAG	0.642											OREG0024569	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	16					0	0	1	0	0		A	48703700	A	A	48703700	3	1	199	1	0	0	0	0	1	0	0	0	2547	1116	39	1	7139	1	CACNA1G	17	48703700	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	631654	48703700	32491510	1054	98446											
KIF2B	84643	broad.mit.edu	37	chr17	51901032	51901032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcccccgcaagaacatcGcatctgcgtctgcgtgagga	9	6	13	13	4	2	2	0	1	2	1	3	4	2	4	2	2	4	2	2	2	2	0	rs140988115		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:51901032G>A	uc002iua.2	+	1	794	c.638G>A	c.(637-639)CGC>CAC	p.R213H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	213	Kinesin-motor.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CAAGAACATCGCATCTGCGTC	0.542													4	37					0	0	1	0	0		A	51901032	A	A	51901032	3	1	199	1	0	0	0	0	1	0	0	0	8314	1087	38	1	640	1	KIF2B	17	51901032	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3197332	51901032	29294178	1055	98447											
TUBD1	51174	broad.mit.edu	37	chr17	57937750	57937750	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtctaaaaagtcctcttctTcgattccaaattttgtgtac	10	17	5	9	1	3	0	0	0	3	0	6	1	5	0	2	0	1	1	2	0	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:57937750T>C	uc002ixw.1	-	9	1573	c.1295A>G	c.(1294-1296)GAA>GGA	p.E432G	TUBD1_uc010ddf.1_Missense_Mutation_p.E330G|TUBD1_uc010ddg.1_Missense_Mutation_p.E397G|TUBD1_uc010ddh.1_Missense_Mutation_p.E258G|TUBD1_uc010wok.1_Missense_Mutation_p.E375G|TUBD1_uc002ixx.1_Missense_Mutation_p.E377G|TUBD1_uc010wol.1_Missense_Mutation_p.E216G|TUBD1_uc010ddi.1_Missense_Mutation_p.E178G	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin	432					cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			GTCCTCTTCTTCGATTCCAAA	0.338													11	68					0	0	1	0	0		C	57937750	C	C	57937750	3	2	199	1	0	0	0	0	1	0	0	0	16788	1783	62	3	70	3	TUBD1	17	57937750	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	6036718	57937750	23257460	1056	98448											
METTL2A	339175	broad.mit.edu	37	chr17	60503712	60503712	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aatgacttctacaaaatccaCgaaaatgggtttttcaagga	16	11	7	7	1	2	1	1	1	1	0	3	3	3	2	1	2	1	1	1	2	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:60503712C>T	uc002izv.2	+	3	273	c.255C>T	c.(253-255)CAC>CAT	p.H85H	METTL2A_uc002izw.2_Translation_Start_Site	NM_181725	NP_859076	Q96IZ6	MTL2A_HUMAN	methyltransferase like 2A	85							methyltransferase activity				0			BRCA - Breast invasive adenocarcinoma(2;1.08e-10)			ACAAAATCCACGAAAATGGGT	0.353													8	35					0	0	1	0	0		T	60503712	T	T	60503712	2	4	199	1	0	0	0	0	0	0	0	1	9517	535	19	1		1	METTL2A	17	60503712	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2565962	60503712	20691498	1057	98449											
ERN1	2081	broad.mit.edu	37	chr17	62144207	62144207	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggccaccacaggggaggcGtagttttggatccacaggac	11	6	14	10	1	0	0	0	0	0	0	1	3	1	3	3	6	0	2	3	6	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:62144207G>A	uc002jdz.2	-	8	779	c.666C>T	c.(664-666)TAC>TAT	p.Y222Y		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	222	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						CAGGGGAGGCGTAGTTTTGGA	0.537													7	23					0	0	1	0	0		A	62144207	A	A	62144207	2	1	199	1	0	0	0	0	0	0	0	1	5245	1140	40	1		1	ERN1	17	62144207	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1640495	62144207	19051003	1058	98450											
TEX2	55852	broad.mit.edu	37	chr17	62272398	62272398	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagtcgaacaaagactgaatGtgtcaaagtcgcatggtagg	15	8	12	6	2	1	2	1	1	0	1	3	3	1	2	0	2	1	2	0	2	6	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:62272398G>A	uc002jec.2	-	3	1875	c.1702C>T	c.(1702-1704)CAT>TAT	p.H568Y	TEX2_uc002jed.2_Missense_Mutation_p.H568Y|TEX2_uc002jee.2_Missense_Mutation_p.H568Y	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	568					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		AAGACTGAATGTGTCAAAGTC	0.403													10	38					0	0	1	0	0		A	62272398	A	A	62272398	3	1	199	1	0	0	0	0	1	0	0	0	15806	1377	48	4	1742	4	TEX2	17	62272398	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	128191	62272398	18922812	1059	98451											
AXIN2	8313	broad.mit.edu	37	chr17	63533495	63533495	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttggagtggcttttgcatttCgagtagcagtaatactcgct	8	15	11	7	2	0	0	0	0	0	0	2	2	0	1	0	2	3	6	0	2	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:63533495C>T	uc002jfi.2	-	6	1948	c.1659G>A	c.(1657-1659)TCG>TCA	p.S553S	AXIN2_uc002jfh.2_Silent_p.S553S	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	553					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						TTTTGCATTTCGAGTAGCAGT	0.627									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				7	57					0	0	1	0	0		T	63533495	T	T	63533495	2	4	199	1	0	0	0	0	0	0	0	1	1238	871	31	1		1	AXIN2	17	63533495	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1261097	63533495	17661715	1060	98452											
CACNG5	27091	broad.mit.edu	37	chr17	64880774	64880774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccatctccttccttttaaCggaggtaaagcccgtcaccc	8	10	7	16	3	2	0	1	0	1	0	4	1	3	1	5	2	2	1	5	2	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:64880774C>T	uc010wqi.1	+	5	803	c.566C>T	c.(565-567)ACG>ATG	p.T189M	CACNG5_uc002jfr.2_Missense_Mutation_p.T189M|CACNG5_uc010wqj.1_Missense_Mutation_p.T189M	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	189	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			TTCCTTTTAACGGAGGTAAAG	0.552													3	86					0	0	1	0	0		T	64880774	T	T	64880774	3	4	199	1	0	0	0	0	1	0	0	0	2563	536	19	1	580	1	CACNG5	17	64880774	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1347279	64880774	16314436	1061	98453											
ABCA9	10350	broad.mit.edu	37	chr17	66982324	66982324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgtgatggcgatcattgCgtcccctttcctgagacctt	5	13	10	13	3	1	2	1	2	0	1	3	4	3	2	5	1	1	0	5	1	0	3	rs142295838		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:66982324C>T	uc002jhu.2	-	32	4332	c.4189G>A	c.(4189-4191)GCA>ACA	p.A1397T	ABCA9_uc010dez.2_Missense_Mutation_p.A1359T	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1397	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					GCGATCATTGCGTCCCCTTTC	0.567													27	127					0	0	1	0	0		T	66982324	T	T	66982324	3	4	199	1	0	0	0	0	1	0	0	0	39	768	27	1	717	1	ABCA9	17	66982324	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2101550	66982324	14212886	1062	98454											
SLC9A3R1	9368	broad.mit.edu	37	chr17	72764648	72764648	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaacaggactccacagcGccctcgtctacctcctcctc	9	7	5	20	2	1	0	0	0	1	0	6	1	4	1	6	1	3	0	6	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:72764648G>A	uc002jlo.2	+	6	1153	c.930G>A	c.(928-930)GCG>GCA	p.A310A	SLC9A3R1_uc002jlp.2_Silent_p.A154A	NM_004252	NP_004243	O14745	NHRF1_HUMAN	sodium/hydrogen exchanger regulatory factor 1	310					apoptosis|bile acid secretion|glutathione transport|microvillus assembly|negative regulation of cell proliferation|negative regulation of ERK1 and ERK2 cascade|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|protein complex assembly|regulation of protein kinase activity|regulation of sodium:hydrogen antiporter activity|renal absorption|Wnt receptor signaling pathway	actin cytoskeleton|apical plasma membrane|centrosome|endomembrane system|filopodium|intracellular membrane-bounded organelle|microvillus membrane|ruffle	beta-2 adrenergic receptor binding|beta-catenin binding|chloride channel regulator activity|growth factor receptor binding|PDZ domain binding|phosphatase binding|protein self-association				0						ACTCCACAGCGCCCTCGTCTA	0.592													50	152					0	0	1	0	0		A	72764648	A	A	72764648	2	1	199	1	0	0	0	0	0	0	0	1	14739	1074	38	1		1	SLC9A3R1	17	72764648	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5782324	72764648	8430562	1063	98455											
TMEM104	54868	broad.mit.edu	37	chr17	72787133	72787133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccgtttgaaatcacagacCgggtggaaatgggacaaatg	14	7	12	8	2	1	2	1	1	0	1	1	4	1	4	2	3	0	1	2	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:72787133C>T	uc002jls.3	+	6	547	c.385C>T	c.(385-387)CGG>TGG	p.R129W	TMEM104_uc010wrf.1_Missense_Mutation_p.R129W|TMEM104_uc010wrg.1_Missense_Mutation_p.R142W|TMEM104_uc010dfx.2_Missense_Mutation_p.R129W	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	129	Cytoplasmic (Potential).					integral to membrane					0	all_lung(278;0.23)					AATCACAGACCGGGTGGAAAT	0.527													19	61					0	0	1	0	0		T	72787133	T	T	72787133	3	4	199	1	0	0	0	0	1	0	0	0	16043	643	23	1	403	1	TMEM104	17	72787133	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	22485	72787133	8408077	1064	98456											
OTOP2	92736	broad.mit.edu	37	chr17	72926469	72926469	+	Missense_Mutation	SNP	A	G	G	1	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	acttctacctatatcccttcAacatcgagtacagcctcttc	10	13	3	15	1	3	0	1	0	2	0	6	1	4	0	3	0	4	1	3	0	5	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:72926469A>G	uc010wrp.1	+	7	828	c.739A>G	c.(739-741)AAC>GAC	p.N247D		NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	247	Helical; (Potential).					integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					ATATCCCTTCAACATCGAGTA	0.572													45	374					0	0	1	0	0		G	72926469	G	G	72926469	3	3	199	1	0	0	0	0	1	0	0	0	11325	130	5	3	757	3	OTOP2	17	72926469	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	139336	72926469	8268741	1065	98457											
C17orf28	283987	broad.mit.edu	37	chr17	72956336	72956336	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggaggtgaagaggggcaGggcatgtctgcagcaggaga	11	4	21	5	0	1	3	0	1	1	2	1	6	1	4	0	6	2	4	0	6	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:72956336G>A	uc002jmj.3	-	7	885	c.736C>T	c.(736-738)CTG>TTG	p.L246L	C17orf28_uc010wrs.1_Silent_p.L45L|C17orf28_uc002jmk.2_Silent_p.L245L	NM_030630	NP_085133	Q8IV36	CQ028_HUMAN	hypothetical protein LOC283987	246						integral to membrane|plasma membrane	protein binding				0	all_lung(278;0.151)|Lung NSC(278;0.185)					AAGAGGGGCAGGGCATGTCTG	0.632													13	32					0	0	1	0	0		A	72956336	A	A	72956336	2	1	199	1	0	0	0	0	0	0	0	1	1856	991	35	4		4	C17orf28	17	72956336	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	29867	72956336	8238874	1066	98458											
KCTD2	23510	broad.mit.edu	37	chr17	73059134	73059134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcttcaggagagaggatcgCggatgtaaactaagaccccg	12	8	12	9	3	2	2	1	0	1	2	3	6	2	5	2	3	1	1	2	3	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:73059134C>T	uc002jmp.2	+	6	851	c.784C>T	c.(784-786)CGG>TGG	p.R262W	KCTD2_uc010dfz.2_RNA|KCTD2_uc002jmq.2_RNA	NM_015353	NP_056168	Q14681	KCTD2_HUMAN	potassium channel tetramerisation domain	262						voltage-gated potassium channel complex	voltage-gated potassium channel activity				0	all_lung(278;0.226)					GAGAGGATCGCGGATGTAAAC	0.552													11	51					0	0	1	0	0		T	73059134	T	T	73059134	3	4	199	1	0	0	0	0	1	0	0	0	8123	759	27	1	806	1	KCTD2	17	73059134	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	102798	73059134	8136076	1067	98459											
GGA3	23163	broad.mit.edu	37	chr17	73238457	73238457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cgtccgaagagtcctcctggCtgtaatgaagcagcatctca	10	9	10	12	2	1	2	1	1	1	1	5	3	4	2	3	1	2	4	3	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:73238457C>T	uc002jni.1	-	8	716	c.707G>A	c.(706-708)AGC>AAC	p.S236N	GGA3_uc002jnj.1_Missense_Mutation_p.S203N|GGA3_uc010wrw.1_Missense_Mutation_p.S114N|GGA3_uc002jnk.1_Missense_Mutation_p.S164N|GGA3_uc010wrx.1_Missense_Mutation_p.S114N|GGA3_uc010wry.1_Missense_Mutation_p.S164N|GGA3_uc010wrz.1_3'UTR	NM_138619	NP_619525	Q9NZ52	GGA3_HUMAN	ADP-ribosylation factor binding protein 3	236	GAT.|Binds to ARF1 (in long isoform).				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|breast(1)	2			all cancers(21;2.39e-06)|Epithelial(20;2.38e-05)			GTCCTCCTGGCTGTAATGAAG	0.587													72	179					0	0	1	0	0		T	73238457	T	T	73238457	3	4	199	1	0	0	0	0	1	0	0	0	6369	797	28	2	1592	2	GGA3	17	73238457	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	179323	73238457	7956753	1068	98460											
UNK	85451	broad.mit.edu	37	chr17	73808347	73808347	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacgggccccatgacctcCgctcccctgtctacgacatc	6	7	7	21	3	1	1	0	1	1	0	4	2	3	1	7	1	1	1	7	1	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:73808347C>T	uc002jpm.2	+	4	697	c.697C>T	c.(697-699)CGC>TGC	p.R233C		NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	157							nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			CCATGACCTCCGCTCCCCTGT	0.602													38	105					0	0	1	0	0		T	73808347	T	T	73808347	3	4	199	1	0	0	0	0	1	0	0	0	17026	652	23	1	711	1	UNK	17	73808347	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	569890	73808347	7386863	1069	98461											
EVPL	2125	broad.mit.edu	37	chr17	74004016	74004016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtactcctccttagagatgCgccggcagcggagggcggcc	6	6	16	13	4	0	1	0	0	0	1	2	3	2	2	4	5	3	2	4	5	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:74004016C>T	uc002jqi.2	-	22	5498	c.5270G>A	c.(5269-5271)CGC>CAC	p.R1757H	EVPL_uc010wss.1_Missense_Mutation_p.R1779H|EVPL_uc010wst.1_Missense_Mutation_p.R1227H	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1757	Globular 2.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						CTTAGAGATGCGCCGGCAGCG	0.637													8	51					0	0	1	0	0		T	74004016	T	T	74004016	3	4	199	1	0	0	0	0	1	0	0	0	5300	768	27	1	835	1	EVPL	17	74004016	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	195669	74004016	7191194	1070	98462											
EVPL	2125	broad.mit.edu	37	chr17	74004807	74004807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcactcccgattcagctcGgttacctgggtcttctcctg	4	14	9	14	2	3	0	1	0	2	0	6	1	4	0	3	2	3	3	3	2	1	4	rs148808819		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:74004807G>A	uc002jqi.2	-	22	4707	c.4479C>T	c.(4477-4479)ACC>ACT	p.T1493T	EVPL_uc010wss.1_Silent_p.T1515T|EVPL_uc010wst.1_Silent_p.T963T	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1493	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GATTCAGCTCGGTTACCTGGG	0.572													21	108					0	0	1	0	0		A	74004807	A	A	74004807	2	1	199	1	0	0	0	0	0	0	0	1	5300	1103	39	1		1	EVPL	17	74004807	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	791	74004807	7190403	1071	98463											
EVPL	2125	broad.mit.edu	37	chr17	74005247	74005247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcgtacaccgcgtcctccgCggcccgcctcttctgggccg	2	8	11	20	7	2	0	0	0	2	0	5	0	4	0	6	2	1	1	6	2	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:74005247C>T	uc002jqi.2	-	22	4267	c.4039G>A	c.(4039-4041)GCG>ACG	p.A1347T	EVPL_uc010wss.1_Missense_Mutation_p.A1369T|EVPL_uc010wst.1_Missense_Mutation_p.A817T	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	1347	Central fibrous rod domain.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						GCGTCCTCCGCGGCCCGCCTC	0.677													24	41					0	0	1	0	0		T	74005247	T	T	74005247	3	4	199	1	0	0	0	0	1	0	0	0	5300	768	27	1	2066	1	EVPL	17	74005247	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	440	74005247	7189963	1072	98464											
DNAH17	8632	broad.mit.edu	37	chr17	76446422	76446422	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccctctccgcagccgggcGgtagttctctctcgcttcgt	2	12	11	16	5	3	0	0	0	3	0	7	0	3	0	3	2	2	4	3	2	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:76446422G>A	uc010dhp.1	-	13	2176	c.1954C>T	c.(1954-1956)CGC>TGC	p.R652C	DNAH17_uc002jvq.2_5'Flank|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GCAGCCGGGCGGTAGTTCTCT	0.517													9	27					0	0	1	0	0		A	76446422	A	A	76446422	3	1	199	1	0	0	0	0	1	0	0	0	4607	1116	39	1	2490	1	DNAH17	17	76446422	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2441175	76446422	4748788	1073	98465											
DNAH17	8632	broad.mit.edu	37	chr17	76456287	76456287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgggctgccagcagggccGgttctgctttggccaggtct	3	10	15	13	1	2	0	0	0	2	0	2	0	2	0	4	5	3	4	4	5	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:76456287G>A	uc010dhp.1	-	4	614	c.392C>T	c.(391-393)CCG>CTG	p.P131L	DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CAGCAGGGCCGGTTCTGCTTT	0.572													3	11					0	0	1	0	0		A	76456287	A	A	76456287	3	1	199	1	0	0	0	0	1	0	0	0	4607	1116	39	1	4088	1	DNAH17	17	76456287	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	9865	76456287	4738923	1074	98466											
RNF213	57674	broad.mit.edu	37	chr17	78363971	78363971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaacccccaaacccaaaccGaggagcgcttccgccctcag	12	3	8	18	3	1	1	1	0	0	1	2	3	2	2	6	1	4	1	6	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:78363971G>A	uc002jyh.1	+	42	9887	c.9664G>A	c.(9664-9666)GAG>AAG	p.E3222K	uc002jyi.1_Intron|RNF213_uc010dhx.1_Missense_Mutation_p.E166K	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			AACCCAAACCGAGGAGCGCTT	0.512													15	97					0	0	1	0	0		A	78363971	A	A	78363971	3	1	199	1	0	0	0	0	1	0	0	0	13502	1059	37	1	16026	1	RNF213	17	78363971	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1907684	78363971	2831239	1075	98467											
NPLOC4	55666	broad.mit.edu	37	chr17	79564302	79564302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtagcggacggtaccctttCgggtatcttctgagacgagg	7	11	14	9	4	2	1	0	1	2	1	3	4	2	2	1	4	2	3	1	4	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:79564302C>T	uc002kat.3	-	10	1144	c.962G>A	c.(961-963)CGA>CAA	p.R321Q	NPLOC4_uc002kau.3_Missense_Mutation_p.R321Q|NPLOC4_uc010wur.1_Missense_Mutation_p.R160Q	NM_017921	NP_060391	Q8TAT6	NPL4_HUMAN	nuclear protein localization 4	321					cellular membrane fusion|ER-associated protein catabolic process|Golgi organization	cytosol|endoplasmic reticulum|nuclear outer membrane-endoplasmic reticulum membrane network|nucleus	zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GGTACCCTTTCGGGTATCTTC	0.443													24	60					0	0	1	0	0		T	79564302	T	T	79564302	3	4	199	1	0	0	0	0	1	0	0	0	10605	884	31	1	896	1	NPLOC4	17	79564302	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1200331	79564302	1630908	1076	98468											
PCYT2	5833	broad.mit.edu	37	chr17	79866891	79866891	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctgagtgaacaccgggggCcccttgtgcttggcgatctc	5	10	13	13	2	1	2	0	2	1	0	3	3	2	2	4	3	2	1	4	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:79866891C>G	uc002kcf.1	-	3	264	c.201G>C	c.(199-201)GGG>GGC	p.G67G	PCYT2_uc010wva.1_Silent_p.G35G|PCYT2_uc010wvb.1_Silent_p.G35G|PCYT2_uc002kce.1_5'UTR|PCYT2_uc002kcg.1_Silent_p.G78G|PCYT2_uc002kch.1_Silent_p.G67G|PCYT2_uc002kci.1_Silent_p.G8G|PCYT2_uc010dii.1_Silent_p.G67G|PCYT2_uc010wvc.1_5'UTR	NM_002861	NP_002852	Q99447	PCY2_HUMAN	phosphate cytidylyltransferase 2, ethanolamine	67	Catalytic 1 (Potential).				phospholipid biosynthetic process		ethanolamine-phosphate cytidylyltransferase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			ACACCGGGGGCCCCTTGTGCT	0.622													7	77					0	0	1	0	0		G	79866891	G	G	79866891	2	3	199	1	0	0	0	0	0	0	0	1	11631	726	26	5		5	PCYT2	17	79866891	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	302589	79866891	1328319	1077	98469											
NOTUM	147111	broad.mit.edu	37	chr17	79913388	79913388	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccaccgtcagctgtgcctCgtcaaacagccactgcacca	9	7	8	17	2	2	0	2	0	0	0	4	0	3	0	5	0	5	2	5	0	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:79913388C>A	uc010wvg.1	-	9	1293	c.1021G>T	c.(1021-1023)GAG>TAG	p.E341*		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	341						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			AGCTGTGCCTCGTCAAACAGC	0.706													7	43					3.07112e-06	3.24149e-06	1	1	0		A	79913388	A	A	79913388	4	1	199	1	0	0	0	0	0	1	0	0	10571	893	31	5	481	5	NOTUM	17	79913388	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	46497	79913388	1281822	1078	98470											
HEXDC	284004	broad.mit.edu	37	chr17	80393683	80393683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggcgtgaaggcccggcGccccagcgtgacacccctgg	6	3	15	17	5	0	2	0	2	0	0	0	2	0	2	5	4	2	0	5	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:80393683G>A	uc002kew.2	+	5	617	c.566G>A	c.(565-567)CGC>CAC	p.R189H	HEXDC_uc002kev.3_Missense_Mutation_p.R189H|HEXDC_uc010diq.2_Missense_Mutation_p.R189H|HEXDC_uc010wvm.1_RNA|HEXDC_uc010wvn.1_5'Flank			Q8WVB3	HEXDC_HUMAN	SubName: Full=Hexosaminidase (Glycosyl hydrolase family 20, catalytic domain) containing, isoform CRA_c; SubName: Full=Hexosaminidase D;	189					carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)|skin(1)	2	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			AAGGCCCGGCGCCCCAGCGTG	0.706													25	120					0	0	1	0	0		A	80393683	A	A	80393683	3	1	199	1	0	0	0	0	1	0	0	0	7091	1087	38	1	584	1	HEXDC	17	80393683	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	480295	80393683	801527	1079	98471											
HEXDC	284004	broad.mit.edu	37	chr17	80399708	80399708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggttcagcccctaccaccGccagcggaagctcatccacc	8	6	8	19	2	2	0	2	0	0	0	3	1	3	1	7	2	4	2	7	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:80399708G>A	uc002kew.2	+	11	1247	c.1196G>A	c.(1195-1197)CGC>CAC	p.R399H	HEXDC_uc002kev.3_Missense_Mutation_p.A429T|HEXDC_uc010diq.2_Silent_p.P401P|HEXDC_uc010wvm.1_RNA			Q8WVB3	HEXDC_HUMAN	SubName: Full=Hexosaminidase (Glycosyl hydrolase family 20, catalytic domain) containing, isoform CRA_c; SubName: Full=Hexosaminidase D;	399					carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)|skin(1)	2	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			CCCTACCACCGCCAGCGGAAG	0.637													73	171					0	0	1	0	0		A	80399708	A	A	80399708	3	1	199	1	0	0	0	0	1	0	0	0	7091	1087	38	1	1323	1	HEXDC	17	80399708	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6025	80399708	795502	1080	98472											
ZNF750	79755	broad.mit.edu	37	chr17	80788991	80788991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgaggctttgctctggcGggtagagtcttcccagtgcg	4	12	15	10	2	2	2	0	1	2	1	3	2	3	2	1	3	2	3	1	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr17:80788991G>A	uc002kga.2	-	2	1651	c.1340C>T	c.(1339-1341)CCG>CTG	p.P447L	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	447						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TTGCTCTGGCGGGTAGAGTCT	0.587													33	65					0	0	1	0	0		A	80788991	A	A	80788991	3	1	199	1	0	0	0	0	1	0	0	0	18157	1116	39	1	839	1	ZNF750	17	80788991	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	389283	80788991	406219	1081	98473											
ZFP161	7541	broad.mit.edu	37	chr18	5291431	5291431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaacttcatgtcactggcgGctgttgtccagcctggtgtc	6	12	11	12	1	2	0	2	0	0	0	4	0	3	0	2	3	2	2	2	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:5291431G>A	uc002kmq.2	-	4	937	c.776C>T	c.(775-777)GCC>GTC	p.A259V	ZFP161_uc002kmr.2_Missense_Mutation_p.A259V|ZFP161_uc010dkp.2_Missense_Mutation_p.A259V	NM_003409	NP_003400	O43829	ZF161_HUMAN	zinc finger protein 161 homolog	259					negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTCACTGGCGGCTGTTGTCCA	0.488													14	51					0	0	1	0	0		A	5291431	A	A	5291431	3	1	199	1	0	0	0	0	1	0	0	0	17665	1203	42	2	577	2	ZFP161	18	5291431	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		5291431	72785817	1082	98474											
PTPRM	5797	broad.mit.edu	37	chr18	8253339	8253339	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagctccaccccgccatccGggtggcagacctccttcagc	6	6	10	19	2	1	1	1	0	0	1	4	1	4	1	7	2	2	3	7	2	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:8253339G>T	uc002knn.3	+	17	3145	c.2642G>T	c.(2641-2643)CGG>CTG	p.R881L	PTPRM_uc010dkv.2_Missense_Mutation_p.R894L|PTPRM_uc010wzl.1_Missense_Mutation_p.R668L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	881	Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CCCGCCATCCGGGTGGCAGAC	0.602													4	25					0.014758	0.014983	1	1	0		T	8253339	T	T	8253339	3	4	199	1	0	0	0	0	1	0	0	0	12831	1116	39	5	2755	5	PTPRM	18	8253339	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2961908	8253339	69823909	1083	98475											
KIAA0802	23255	broad.mit.edu	37	chr18	8813022	8813022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggagaactaggctcctccGctgagagcaagggggccttg	8	7	16	10	1	0	2	0	1	0	2	2	4	2	2	3	4	2	3	3	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:8813022G>A	uc002knr.2	+	12	2792	c.2650G>A	c.(2650-2652)GCT>ACT	p.A884T	KIAA0802_uc002knq.2_Missense_Mutation_p.A843T|KIAA0802_uc002kns.2_Missense_Mutation_p.A252T	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1194											0						AGGCTCCTCCGCTGAGAGCAA	0.537													7	33					0	0	1	0	0		A	8813022	A	A	8813022	3	1	199	1	0	0	0	0	1	0	0	0	8210	1087	38	1	2688	1	KIAA0802	18	8813022	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	559683	8813022	69264226	1084	98476											
GNAL	2774	broad.mit.edu	37	chr18	11872328	11872328	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagatatgctggcagaaaaaGtcttggcagggaaatcaaaa	18	7	11	5	0	2	2	1	0	1	2	2	3	2	3	0	3	1	3	0	3	7	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:11872328G>A	uc010dkz.2	+	11	1108	c.862G>A	c.(862-864)GTC>ATC	p.V288I	GNAL_uc002kqc.2_Missense_Mutation_p.V365I|GNAL_uc002kqd.2_Missense_Mutation_p.V288I|GNAL_uc010wzt.1_Missense_Mutation_p.V81I	NM_001142339	NP_001135811	P38405	GNAL_HUMAN	guanine nucleotide binding protein (G protein),	288					activation of adenylate cyclase activity by dopamine receptor signaling pathway|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception of smell|synaptic transmission	heterotrimeric G-protein complex	adenylate cyclase activity|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1						GGCAGAAAAAGTCTTGGCAGG	0.328													14	72					0	0	1	0	0		A	11872328	A	A	11872328	3	1	199	1	0	0	0	0	1	0	0	0	6522	1029	36	4	1280	4	GNAL	18	11872328	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3059306	11872328	66204920	1085	98477											
CEP192	55125	broad.mit.edu	37	chr18	13067918	13067918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actaaaattgataaaccgaaCgcatgccactgtgccaatta	16	9	6	10	2	0	1	0	1	0	0	0	2	0	1	3	0	4	1	3	0	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:13067918C>T	uc010xac.1	+	22	4657	c.4577C>T	c.(4576-4578)ACG>ATG	p.T1526M	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.T1051M|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Translation_Start_Site|CEP192_uc002krw.2_5'Flank	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	1526										ovary(4)|pancreas(1)	5						ATAAACCGAACGCATGCCACT	0.358													8	72					0	0	1	0	0		T	13067918	T	T	13067918	3	4	199	1	0	0	0	0	1	0	0	0	3254	536	19	1	4659	1	CEP192	18	13067918	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1195590	13067918	65009330	1086	98478											
SETBP1	26040	broad.mit.edu	37	chr18	42532870	42532870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagccacatcctgagcgagCggctgagtagcgcagacaaa	12	4	12	13	3	0	3	0	2	0	1	1	4	1	3	3	1	4	3	3	1	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:42532870C>T	uc010dni.2	+	4	3861	c.3565C>T	c.(3565-3567)CGG>TGG	p.R1189W		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1189						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		CCTGAGCGAGCGGCTGAGTAG	0.552									Schinzel-Giedion_syndrome				8	45					0	0	1	0	0		T	42532870	T	T	42532870	3	4	199	1	0	0	0	0	1	0	0	0	14154	759	27	1	3768	1	SETBP1	18	42532870	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	29464952	42532870	35544378	1087	98479											
SETBP1	26040	broad.mit.edu	37	chr18	42618454	42618454	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggttgttattttttagggatGccaagtccccacttaaaagt	10	15	9	7	0	0	0	0	0	0	0	1	1	1	1	3	2	1	2	3	2	5	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:42618454G>T	uc010dni.2	+	5	4301	c.4005G>T	c.(4003-4005)ATG>ATT	p.M1335I		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1335						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		TTTTAGGGATGCCAAGTCCCC	0.463									Schinzel-Giedion_syndrome				9	35					0.000978159	0.0010035	1	1	0		T	42618454	T	T	42618454	3	4	199	1	0	0	0	0	1	0	0	0	14154	1319	46	5	4212	5	SETBP1	18	42618454	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	85584	42618454	35458794	1088	98480											
PIAS2	9063	broad.mit.edu	37	chr18	44392503	44392503	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtactgctttcatgggagcTggtggtggtgacagacgtac	8	11	15	7	1	1	2	1	1	0	1	1	3	1	3	0	4	4	4	0	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:44392503T>C	uc002lck.2	-	14	1917	c.1759A>G	c.(1759-1761)AGC>GGC	p.S587G	PIAS2_uc010dnp.2_Missense_Mutation_p.S285G	NM_004671	NP_004662	O75928	PIAS2_HUMAN	protein inhibitor of activated STAT X isoform	587	Ser-rich.				androgen receptor signaling pathway|negative regulation of androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|PML body	androgen receptor binding|DNA binding|protein binding|SUMO ligase activity|transcription coactivator activity|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TCATGGGAGCTGGTGGTGGTG	0.463													14	59					0	0	1	0	0		C	44392503	C	C	44392503	3	2	199	1	0	0	0	0	1	0	0	0	11895	1580	55	3	110	3	PIAS2	18	44392503	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1774049	44392503	33684745	1089	98481											
CCDC11	220136	broad.mit.edu	37	chr18	47792706	47792706	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacatatcctgtgcttacCacgatcaccactttgggggt	9	11	9	12	1	1	1	1	0	0	1	2	2	2	1	3	2	2	1	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:47792706C>A	uc002lee.2	-	1	160	c.69G>T	c.(67-69)GTG>GTT	p.V23V		NM_145020	NP_659457	Q96M91	CCD11_HUMAN	coiled-coil domain containing 11	23										ovary(1)|pancreas(1)|skin(1)	3				STAD - Stomach adenocarcinoma(97;2.66e-05)|Colorectal(21;7.57e-05)|Lung(128;0.00932)|READ - Rectum adenocarcinoma(32;0.164)		CTGTGCTTACCACGATCACCA	0.632													6	143					0.0293803	0.0297048	1	1	0		A	47792706	A	A	47792706	2	1	199	1	0	0	0	0	0	0	0	1	2749	608	21	5		5	CCDC11	18	47792706	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3400203	47792706	30284542	1090	98482											
MAPK4	5596	broad.mit.edu	37	chr18	48190761	48190761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtacatccactccgccaacGtgctgcacagggacctgaag	11	6	10	14	2	0	1	0	1	0	0	2	2	2	2	4	1	4	3	4	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:48190761G>A	uc002lev.2	+	2	1433	c.433G>A	c.(433-435)GTG>ATG	p.V145M	MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Missense_Mutation_p.V145M	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	145	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CTCCGCCAACGTGCTGCACAG	0.592													12	58					0	0	1	0	0		A	48190761	A	A	48190761	3	1	199	1	0	0	0	0	1	0	0	0	9298	1145	40	1	435	1	MAPK4	18	48190761	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	398055	48190761	29886487	1091	98483											
CCDC68	80323	broad.mit.edu	37	chr18	52575028	52575028	+	Silent	SNP	A	G	G	1	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	agaccttaccttgtagagacAgccttagatacctttgtcct	10	13	7	11	0	0	3	0	0	0	3	1	4	1	3	5	0	3	1	5	0	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr18:52575028A>G	uc002lfs.2	-	11	1111	c.939T>C	c.(937-939)GCT>GCC	p.A313A	CCDC68_uc002lft.2_Silent_p.A313A	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	313										skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		TTGTAGAGACAGCCTTAGATA	0.393													9	56					0	0	1	0	0		G	52575028	G	G	52575028	2	3	199	1	0	0	0	0	0	0	0	1	2843	175	7	3		3	CCDC68	18	52575028	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	4384267	52575028	25502220	1092	98484											
ELANE	1991	broad.mit.edu	37	chr19	852351	852351	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccctcggccgccgactcgCgtgtcttttcctcgcctgtg	2	11	11	17	6	1	0	0	0	1	0	5	2	2	0	5	1	0	0	5	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:852351C>T	uc002lqb.2	+	1	61	c.23C>T	c.(22-24)GCG>GTG	p.A8V		NM_001972	NP_001963	P08246	ELNE_HUMAN	neutrophil elastase preproprotein	8					cellular calcium ion homeostasis|negative regulation of chemokine biosynthetic process|negative regulation of chemotaxis|negative regulation of inflammatory response|negative regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of MAP kinase activity|positive regulation of smooth muscle cell proliferation|protein catabolic process|proteolysis|response to UV	cell surface|extracellular region|stored secretory granule	bacterial cell surface binding|cytokine binding|heparin binding			pancreas(1)	1					Alpha-1-proteinase inhibitor(DB00058)|Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CGCCGACTCGCGTGTCTTTTC	0.677									Kostmann_syndrome				5	22					0	0	1	0	0		T	852351	T	T	852351	3	4	199	1	0	0	0	0	1	0	0	0	5056	768	27	1	25	1	ELANE	19	852351	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08		852351	58276632	1093	98485											
ABCA7	10347	broad.mit.edu	37	chr19	1065352	1065352	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgggagtggaccccgcGccaggcctgcagcaccccaa	8	3	15	15	2	0	0	0	0	0	0	0	3	0	3	6	4	2	2	6	4	1	0	rs145934264	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:1065352G>A	uc002lqw.3	+	47	6600	c.6369G>A	c.(6367-6369)GCG>GCA	p.A2123A	ABCA7_uc002lqy.2_Silent_p.A576A|ABCA7_uc010dsc.2_RNA|HMHA1_uc010xgd.1_5'Flank|HMHA1_uc002lqz.1_5'Flank|HMHA1_uc010xge.1_5'Flank|HMHA1_uc002lra.1_5'Flank	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	2123					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		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)		TGGACCCCGCGCCAGGCCTGC	0.657											OREG0025112	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	124					0	0	1	0	0		A	1065352	A	A	1065352	2	1	199	1	0	0	0	0	0	0	0	1	37	1074	38	1		1	ABCA7	19	1065352	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	213001	1065352	58063631	1094	98486											
REXO1	57455	broad.mit.edu	37	chr19	1828274	1828274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgcccggctcggcaggggCggccagtggggtgggctggt	2	6	22	11	3	0	0	0	0	0	0	1	0	0	0	2	9	1	4	2	9	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:1828274C>T	uc002lua.3	-	2	609	c.514G>A	c.(514-516)GCC>ACC	p.A172T	REXO1_uc010dsr.1_Missense_Mutation_p.A126T	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	172						nucleus	exonuclease activity|nucleic acid binding				0		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)		TCGGCAGGGGCGGCCAGTGGG	0.701													6	15					0	0	1	0	0		T	1828274	T	T	1828274	3	4	199	1	0	0	0	0	1	0	0	0	13266	768	27	1	3211	1	REXO1	19	1828274	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	762922	1828274	57300709	1095	98487											
SPPL2B	56928	broad.mit.edu	37	chr19	2345252	2345252	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgccctgtgcctcccccaggGctgctggtggcctactgcca	3	8	12	18	1	0	0	0	0	0	0	1	0	1	0	6	3	4	2	6	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:2345252G>A	uc002lvs.2	+	14	1358	c.1278G>A	c.(1276-1278)GGG>GGA	p.G426G	SPPL2B_uc002lvr.2_Silent_p.G426G	NM_152988	NP_694533	Q8TCT7	PSL1_HUMAN	signal peptide peptidase-like 2B isoform 2	426	Helical; (Potential).					Golgi membrane|integral to membrane	aspartic-type endopeptidase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCCCCCAGGGCTGCTGGTGG	0.672													11	45					0	0	1	0	0		A	2345252	A	A	2345252	2	1	199	1	0	0	0	0	0	0	0	1	15114	1217	42	2		2	SPPL2B	19	2345252	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	516978	2345252	56783731	1096	98488											
SLC39A3	29985	broad.mit.edu	37	chr19	2733324	2733324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgctgcccacgtccgatcCggcgttgaaggtctccaggt	5	9	13	14	5	1	1	0	1	1	0	5	2	3	1	4	3	1	2	4	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:2733324C>T	uc002lwg.2	-	3	624	c.370G>A	c.(370-372)GGA>AGA	p.G124R	SLC39A3_uc010xgy.1_Missense_Mutation_p.G124R	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	124	Cytoplasmic (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGTCCGATCCGGCGTTGAAG	0.662													14	62					0	0	1	0	0		T	2733324	T	T	2733324	3	4	199	1	0	0	0	0	1	0	0	0	14644	661	23	1	578	1	SLC39A3	19	2733324	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	388072	2733324	56395659	1097	98489											
ZNF556	80032	broad.mit.edu	37	chr19	2877955	2877955	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccctcatccttacacaaacaCgcgagaacgcatgctaaaaa	16	6	5	14	3	1	1	1	0	0	1	2	2	2	1	2	0	4	2	2	0	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:2877955C>T	uc002lwp.1	+	4	1086	c.999C>T	c.(997-999)CAC>CAT	p.H333H	ZNF556_uc002lwq.2_Silent_p.H332H	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	333	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TACACAAACACGCGAGAACGC	0.512													5	30					0	0	1	0	0		T	2877955	T	T	2877955	2	4	199	1	0	0	0	0	0	0	0	1	18012	535	19	1		1	ZNF556	19	2877955	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	144631	2877955	56251028	1098	98490											
TLE6	79816	broad.mit.edu	37	chr19	2989174	2989174	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgcggatcttggcacacGgggagctcgtgctcgccacg	7	7	15	12	5	1	1	0	0	1	1	3	3	1	3	1	4	3	3	1	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:2989174G>T	uc002lwu.2	+	11	887	c.487G>T	c.(487-489)GGG>TGG	p.G163W	TLE6_uc002lwt.2_Missense_Mutation_p.G286W|TLE6_uc010dtg.2_Missense_Mutation_p.G286W|TLE6_uc002lwv.2_Missense_Mutation_p.G67W	NM_024760	NP_079036	Q9H808	TLE6_HUMAN	transducin-like enhancer of split 6 isoform 2	163	WD 1.				regulation of transcription, DNA-dependent	nucleus				ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGGCACACGGGGAGCTCGT	0.602													4	35					0.150653	0.151066	1	1	0		T	2989174	T	T	2989174	3	4	199	1	0	0	0	0	1	0	0	0	15967	1116	39	5	898	5	TLE6	19	2989174	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	111219	2989174	56139809	1099	98491											
TBXA2R	6915	broad.mit.edu	37	chr19	3600260	3600260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtagcgctctgaggccatggCggcccccagcagcagcgggg	6	4	17	14	3	1	1	0	1	1	0	1	1	1	1	3	5	4	4	3	5	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:3600260C>T	uc002lyg.1	-	2	587	c.373G>A	c.(373-375)GCC>ACC	p.A125T	TBXA2R_uc002lye.1_Missense_Mutation_p.A125T	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	125	Helical; Name=3; (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	GAGGCCATGGCGGCCCCCAGC	0.716													4	17					0	0	1	0	0		T	3600260	T	T	3600260	3	4	199	1	0	0	0	0	1	0	0	0	15688	768	27	1	911	1	TBXA2R	19	3600260	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	611086	3600260	55528723	1100	98492											
PIAS4	51588	broad.mit.edu	37	chr19	4037624	4037624	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgcccgtaggcccctcggaCgccaatgggctcctgcccgc	4	7	12	18	4	0	0	0	0	0	0	2	1	1	1	6	3	2	2	6	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:4037624C>T	uc002lzg.2	+	11	1294	c.1284C>T	c.(1282-1284)GAC>GAT	p.D428D		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	428					positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCCCTCGGACGCCAATGGGC	0.692													9	40					0	0	1	0	0		T	4037624	T	T	4037624	2	4	199	1	0	0	0	0	0	0	0	1	11897	535	19	1		1	PIAS4	19	4037624	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	437364	4037624	55091359	1101	98493											
FSD1	79187	broad.mit.edu	37	chr19	4323385	4323385	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccgcaccaaacaagtgctGcacactttcaagaccaggtt	12	7	8	14	1	1	1	1	0	0	1	1	1	1	1	3	1	3	4	3	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:4323385G>A	uc002lzy.2	+	12	1485	c.1332G>A	c.(1330-1332)CTG>CTA	p.L444L	FSD1_uc002lzz.2_Missense_Mutation_p.C414Y|FSD1_uc002maa.2_Silent_p.L257L	NM_024333	NP_077309	Q9BTV5	FSD1_HUMAN	fibronectin type III and SPRY domain containing	444	B30.2/SPRY.				cell division|mitosis	cleavage furrow|microtubule|microtubule organizing center|nucleus				skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.034)|STAD - Stomach adenocarcinoma(1328;0.18)		AACAAGTGCTGCACACTTTCA	0.652													6	38					0	0	1	0	0		A	4323385	A	A	4323385	2	1	199	1	0	0	0	0	0	0	0	1	6084	1306	46	2		2	FSD1	19	4323385	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	285761	4323385	54805598	1102	98494											
UBXN6	80700	broad.mit.edu	37	chr19	4445546	4445546	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgggtttcaggatggagtcCggctcggcccccgcggcctt	3	9	15	14	5	1	0	1	0	0	0	4	2	2	2	4	6	0	2	4	6	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:4445546C>T	uc002man.1	-	11	1371	c.1275G>A	c.(1273-1275)CCG>CCA	p.P425P	UBXN6_uc010dty.1_Silent_p.P329P|UBXN6_uc002mam.1_Silent_p.P372P	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	425						microtubule organizing center|nucleus	protein binding				0						GGATGGAGTCCGGCTCGGCCC	0.617													32	122					0	0	1	0	0		T	4445546	T	T	4445546	2	4	199	1	0	0	0	0	0	0	0	1	16943	639	23	1		1	UBXN6	19	4445546	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	122161	4445546	54683437	1103	98495											
FUT6	2528	broad.mit.edu	37	chr19	5832493	5832493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgcagataggagaagaaaCacacagccatcagcagctga	17	3	10	11	1	1	4	1	1	0	3	1	5	1	4	1	1	4	3	1	1	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:5832493C>T	uc002mdf.1	-	4	612	c.86G>A	c.(85-87)TGT>TAT	p.C29Y	FUT6_uc002mdg.1_Missense_Mutation_p.C29Y|FUT6_uc002mdh.1_Missense_Mutation_p.C29Y|FUT6_uc010dul.1_Missense_Mutation_p.C29Y	NM_001040701	NP_001035791	P51993	FUT6_HUMAN	fucosyltransferase 6	29	Helical; Signal-anchor for type II membrane protein; (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						GGAGAAGAAACACACAGCCAT	0.607													5	18					0	0	1	0	0		T	5832493	T	T	5832493	3	4	199	1	0	0	0	0	1	0	0	0	6122	478	17	4	997	4	FUT6	19	5832493	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1386947	5832493	53296490	1104	98496											
FUT5	2527	broad.mit.edu	37	chr19	5866758	5866758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaagtagctcaggtagcgggCgtggtccttgtccagctcct	7	10	13	11	2	1	0	1	0	0	0	4	0	4	0	3	3	3	4	3	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:5866758C>T	uc002mdo.3	-	2	1067	c.979G>A	c.(979-981)GCC>ACC	p.A327T	FUT5_uc010duo.2_Missense_Mutation_p.A327T	NM_002034	NP_002025	Q11128	FUT5_HUMAN	fucosyltransferase 5	327	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity|alpha(1,3)-fucosyltransferase activity				0						AGGTAGCGGGCGTGGTCCTTG	0.642													9	19					0	0	1	0	0		T	5866758	T	T	5866758	3	4	199	1	0	0	0	0	1	0	0	0	6121	768	27	1	149	1	FUT5	19	5866758	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	34265	5866758	53262225	1105	98497											
RANBP3	8498	broad.mit.edu	37	chr19	5918537	5918537	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccttcacgccctggtcCtcggtgtccatggctgtgat	6	11	11	13	2	1	2	1	1	0	1	4	2	3	2	4	3	0	1	4	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:5918537C>A	uc002mdw.2	-	15	1670	c.1443G>T	c.(1441-1443)GAG>GAT	p.E481D	RANBP3_uc002mdv.2_Missense_Mutation_p.E200D|RANBP3_uc002mdx.2_Missense_Mutation_p.E476D|RANBP3_uc002mdy.2_Missense_Mutation_p.E413D|RANBP3_uc002mdz.2_Missense_Mutation_p.E408D|RANBP3_uc010duq.2_Missense_Mutation_p.E386D|RANBP3_uc002mea.2_Missense_Mutation_p.E348D|RANBP3_uc010xix.1_Missense_Mutation_p.E353D	NM_007322	NP_015561	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3 isoform RANBP3-d	481	RanBD1.				intracellular transport|protein transport	cytoplasm|nucleus	Ran GTPase binding			breast(1)	1						CGCCCTGGTCCTCGGTGTCCA	0.627													12	36					4.3838e-07	4.66396e-07	1	1	0		A	5918537	A	A	5918537	3	1	199	1	0	0	0	0	1	0	0	0	13054	680	24	5	272	5	RANBP3	19	5918537	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	51779	5918537	53210446	1106	98498											
INSR	3643	broad.mit.edu	37	chr19	7184545	7184545	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaagttgcggcaggccacGcacttggtggggtcgtcggg	6	8	18	9	4	0	1	0	0	0	1	2	1	0	1	1	6	1	3	1	6	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:7184545G>A	uc002mgd.1	-	3	865	c.756C>T	c.(754-756)TGC>TGT	p.C252C	INSR_uc002mge.1_Silent_p.C252C|INSR_uc002mgf.2_Silent_p.C252C	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	252	Cys-rich.				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGCAGGCCACGCACTTGGTGG	0.632													8	37					0	0	1	0	0		A	7184545	A	A	7184545	2	1	199	1	0	0	0	0	0	0	0	1	7789	1079	38	1		1	INSR	19	7184545	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1266008	7184545	51944438	1107	98499											
KIAA1543	57662	broad.mit.edu	37	chr19	7670158	7670158	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccttctataccgaccagtaCgcgcaggagcatgtgaagcc	10	7	10	14	3	1	1	0	1	1	0	1	3	1	2	4	1	4	3	4	1	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:7670158C>T	uc002mgv.3	+	2	296	c.195C>T	c.(193-195)TAC>TAT	p.Y65Y	KIAA1543_uc002mgu.3_Silent_p.Y65Y	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	65					epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CCGACCAGTACGCGCAGGAGC	0.622													34	170					0	0	1	0	0		T	7670158	T	T	7670158	2	4	199	1	0	0	0	0	0	0	0	1	8259	547	19	1		1	KIAA1543	19	7670158	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	485613	7670158	51458825	1108	98500											
KIAA1543	57662	broad.mit.edu	37	chr19	7671163	7671163	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgcccccacagggagccCacctagctgtcattgatgcc	7	8	10	16	0	1	1	1	1	0	0	1	2	1	2	5	1	4	2	5	1	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:7671163C>A	uc002mgv.3	+	3	510	c.409C>A	c.(409-411)CAC>AAC	p.H137N	KIAA1543_uc002mgu.3_Missense_Mutation_p.H137N	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	137					epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						ACAGGGAGCCCACCTAGCTGT	0.622													29	158					2.87052e-16	3.1931e-16	1	1	0		A	7671163	A	A	7671163	3	1	199	1	0	0	0	0	1	0	0	0	8259	594	21	5	419	5	KIAA1543	19	7671163	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1005	7671163	51457820	1109	98501											
LRRC8E	80131	broad.mit.edu	37	chr19	7964762	7964763	+	Frame_Shift_Ins	INS	-	C	C																															gccatctgcgatatcaccttINSccccccggggctgtcacagc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:7964762_7964763insC	uc002mir.2	+	3	1456_1457	c.1355_1356insC	c.(1354-1356)TTCfs	p.F452fs		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	452						integral to membrane				lung(1)|pancreas(1)	2						GATATCACCTTCCCCCCGGGGC	0.644													16	27	---	---	---	---						.	C	7964763	C	C	7964762	7	5	199	1	0	1	1	0	0	0	0	0	9043	1783	62	0	1361	0	LRRC8E	19	7964762	Frame_Shift_Ins	INS	-	TCGA-HF-7132-01A-11D-2053-08	293599	7964762	51164221	1110	98502											
MYO1F	4542	broad.mit.edu	37	chr19	8595116	8595116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacttggtgaccgaatcggcGaagtccacccgctccctctt	7	10	9	15	4	1	1	0	1	1	0	4	3	3	1	4	2	1	1	4	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:8595116G>A	uc002mkg.2	-	21	2406	c.2292C>T	c.(2290-2292)TTC>TTT	p.F764F		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	764						unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CCGAATCGGCGAAGTCCACCC	0.642													19	184					0	0	1	0	0		A	8595116	A	A	8595116	2	1	199	1	0	0	0	0	0	0	0	1	10091	1049	37	1		1	MYO1F	19	8595116	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	630354	8595116	50533867	1111	98503											
OR2Z1	284383	broad.mit.edu	37	chr19	8842032	8842032	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgctccctctttccctcatCgccacctcctacggccacgt	5	11	5	20	3	2	0	1	0	1	0	6	0	5	0	6	1	2	1	6	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:8842032C>T	uc010xkg.1	+	1	642	c.642C>T	c.(640-642)ATC>ATT	p.I214I		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						TTTCCCTCATCGCCACCTCCT	0.592													21	72					0	0	1	0	0		T	8842032	T	T	8842032	2	4	199	1	0	0	0	0	0	0	0	1	11055	874	31	1		1	OR2Z1	19	8842032	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	246916	8842032	50286951	1112	98504											
MUC16	94025	broad.mit.edu	37	chr19	9017469	9017469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agggcttttggggtcaagacGgtgggtgcagatggcatcca	8	9	17	7	1	1	2	1	0	0	2	2	2	2	2	1	6	1	3	1	6	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:9017469G>A	uc002mkp.2	-	26	38059	c.37855C>T	c.(37855-37857)CGT>TGT	p.R12619C		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12621	SEA 4.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGGTCAAGACGGTGGGTGCAG	0.567													7	51					0	0	1	0	0		A	9017469	A	A	9017469	3	1	199	1	0	0	0	0	1	0	0	0	9991	1116	39	1	5904	1	MUC16	19	9017469	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	175437	9017469	50111514	1113	98505											
MUC16	94025	broad.mit.edu	37	chr19	9069476	9069476	+	Silent	SNP	T	C	C	0	1	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	tcagaagtgagtatctcaccTgagaagctacttgcacttgg	11	11	10	9	0	2	3	2	2	1	2	3	4	2	3	1	1	3	3	1	1	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:9069476T>C	uc002mkp.2	-	3	18174	c.17970A>G	c.(17968-17970)TCA>TCG	p.S5990S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5992	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTATCTCACCTGAGAAGCTAC	0.458													23	119					0	0	1	0	0		C	9069476	C	C	9069476	2	2	199	1	0	0	0	0	0	0	0	1	9991	1567	55	3		3	MUC16	19	9069476	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	52007	9069476	50059507	1114	98506											
MUC16	94025	broad.mit.edu	37	chr19	9077552	9077552	+	Silent	SNP	A	G	G	1	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	ctggtccctcctggagttccAgaataaaggttggtccaagc	9	10	11	11	0	0	1	0	0	0	1	4	2	4	2	4	4	1	2	4	4	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:9077552A>G	uc002mkp.2	-	3	10098	c.9894T>C	c.(9892-9894)TCT>TCC	p.S3298S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3299	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGGAGTTCCAGAATAAAGGT	0.527													4	87					0	0	1	0	0		G	9077552	G	G	9077552	2	3	199	1	0	0	0	0	0	0	0	1	9991	175	7	3		3	MUC16	19	9077552	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	8076	9077552	50051431	1115	98507											
KRI1	65095	broad.mit.edu	37	chr19	10670506	10670506	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatgctgagtccggctcctCgaaacggaaattgtacttct	9	11	10	11	4	1	1	0	1	1	0	4	4	3	2	2	2	3	3	2	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:10670506C>A	uc002moy.1	-	10	934	c.925G>T	c.(925-927)GAG>TAG	p.E309*	KRI1_uc002mow.1_5'UTR|KRI1_uc002mox.1_Nonsense_Mutation_p.E305*	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	309	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			TCCGGCTCCTCGAAACGGAAA	0.602													3	33					0.00909568	0.00925359	1	1	0		A	10670506	A	A	10670506	4	1	199	1	0	0	0	0	0	1	0	0	8460	893	31	5	1244	5	KRI1	19	10670506	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1592954	10670506	48458477	1116	98508											
SMARCA4	6597	broad.mit.edu	37	chr19	11118655	11118655	+	Silent	SNP	A	C	C	1	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	aagaagaagattccagatccAgacagcgatgacgtctctga	15	7	10	9	2	1	7	0	2	1	5	4	8	3	7	2	0	1	0	2	0	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:11118655A>C	uc002mqf.3	+	14	2363	c.2079A>C	c.(2077-2079)CCA>CCC	p.P693P	SMARCA4_uc010dxp.2_Silent_p.P693P|SMARCA4_uc010dxo.2_Silent_p.P693P|SMARCA4_uc002mqg.1_Silent_p.P693P|SMARCA4_uc010dxq.2_Silent_p.P693P|SMARCA4_uc010dxr.2_Silent_p.P693P|SMARCA4_uc002mqj.3_Silent_p.P693P|SMARCA4_uc010dxs.2_Silent_p.P693P	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	693					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				TTCCAGATCCAGACAGCGATG	0.597			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				6	19					0	0	1	0	0		C	11118655	C	C	11118655	2	2	199	1	0	0	0	0	0	0	0	1	14795	175	7	5		5	SMARCA4	19	11118655	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	448149	11118655	48010328	1117	98509											
LDLR	3949	broad.mit.edu	37	chr19	11224068	11224068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaacgtggtcgctctggacaCggaggtggccagcaatagaa	11	6	15	9	3	1	1	0	0	1	1	2	4	1	3	1	5	2	2	1	5	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:11224068C>T	uc002mqk.3	+	9	1469	c.1301C>T	c.(1300-1302)ACG>ATG	p.T434M	LDLR_uc010xlk.1_Missense_Mutation_p.T434M|LDLR_uc010xll.1_Missense_Mutation_p.T393M|LDLR_uc010xlm.1_Missense_Mutation_p.T287M|LDLR_uc010xln.1_Missense_Mutation_p.T307M|LDLR_uc010xlo.1_Missense_Mutation_p.T266M	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	434	LDL-receptor class B 1.|Extracellular (Potential).		T -> K (in Algeria-3).		cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		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)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	GCTCTGGACACGGAGGTGGCC	0.602													11	53					0	0	1	0	0		T	11224068	T	T	11224068	3	4	199	1	0	0	0	0	1	0	0	0	8720	536	19	1	1335	1	LDLR	19	11224068	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	105413	11224068	47904915	1118	98510											
KANK2	25959	broad.mit.edu	37	chr19	11304103	11304103	+	Missense_Mutation	SNP	A	G	G	1	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	gccgcttttcctcctggagcAccgagagcttcacctggagc	6	9	11	15	2	1	1	1	0	0	1	3	4	3	3	5	2	3	3	5	2	0	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:11304103A>G	uc010dxv.2	-	6	1211	c.653T>C	c.(652-654)GTG>GCG	p.V218A	KANK2_uc002mqm.2_Missense_Mutation_p.V218A|KANK2_uc002mqo.3_Missense_Mutation_p.V218A|KANK2_uc002mqp.1_Missense_Mutation_p.V27A|KANK2_uc002mqq.2_Missense_Mutation_p.V218A	NM_015493	NP_056308	Q63ZY3	KANK2_HUMAN	ankyrin repeat domain 25 isoform 1	218	Potential.										0						CTCCTGGAGCACCGAGAGCTT	0.657													4	39					0	0	1	0	0		G	11304103	G	G	11304103	3	3	199	1	0	0	0	0	1	0	0	0	7993	159	6	3	1966	3	KANK2	19	11304103	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	80035	11304103	47824880	1119	98511											
ELAVL3	1995	broad.mit.edu	37	chr19	11565617	11565617	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgcccgccgcgcccccCgacaggcccacgcccgccag	4	0	12	25	8	0	0	0	0	0	0	0	1	0	0	9	2	0	0	9	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:11565617C>T	uc002mry.1	-	7	1208	c.828G>A	c.(826-828)TCG>TCA	p.S276S	ELAVL3_uc002mrx.1_Silent_p.S269S	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	276					cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						ccgcgccccccgACAGGCCCA	0.567													10	53					0	0	1	0	0		T	11565617	T	T	11565617	2	4	199	1	0	0	0	0	0	0	0	1	5059	639	23	1		1	ELAVL3	19	11565617	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	261514	11565617	47563366	1120	98512											
ZNF653	115950	broad.mit.edu	37	chr19	11598654	11598654	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctggccctcaggagactcCtcagagtcagaggcagagcc	9	5	14	13	0	3	4	3	0	0	4	4	5	4	4	3	4	1	2	3	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:11598654C>A	uc002mrz.1	-	4	677	c.624G>T	c.(622-624)GAG>GAT	p.E208D		NM_138783	NP_620138	Q96CK0	ZN653_HUMAN	zinc finger protein 653	208					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAGGAGACTCCTCAGAGTCAG	0.657													7	24					0.000157383	0.00016306	1	1	0		A	11598654	A	A	11598654	3	1	199	1	0	0	0	0	1	0	0	0	18091	680	24	5	1247	5	ZNF653	19	11598654	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	33037	11598654	47530329	1121	98513											
ECSIT	51295	broad.mit.edu	37	chr19	11624896	11624896	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgtcccgttccccaccaggCgcctgcccaaacaggtcctc	6	8	8	19	2	0	0	0	0	0	0	4	0	3	0	7	2	2	1	7	2	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:11624896C>T	uc002msb.2	-	3	371	c.237G>A	c.(235-237)GCG>GCA	p.A79A	ECSIT_uc002msa.1_5'Flank|ECSIT_uc010dyc.1_Silent_p.A79A|ECSIT_uc010dyd.2_Silent_p.A79A|ECSIT_uc010xma.1_Intron	NM_016581	NP_057665	Q9BQ95	ECSIT_HUMAN	evolutionarily conserved signaling intermediate	79					innate immune response|regulation of oxidoreductase activity	mitochondrion	oxidoreductase activity, acting on NADH or NADPH|protein binding			ovary(1)	1						CCCCACCAGGCGCCTGCCCAA	0.627													17	45					0	0	1	0	0		T	11624896	T	T	11624896	2	4	199	1	0	0	0	0	0	0	0	1	4906	755	27	1		1	ECSIT	19	11624896	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	26242	11624896	47504087	1122	98514											
ZNF490	57474	broad.mit.edu	37	chr19	12691650	12691650	+	Silent	SNP	A	C	C	1	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	cattcgtaagttttctcgccAgtgtgaactctttcgtgcaa	8	15	8	10	3	2	1	0	1	2	0	5	1	2	1	1	0	2	3	1	0	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:12691650A>C	uc002mtz.2	-	5	1368	c.1239T>G	c.(1237-1239)ACT>ACG	p.T413T		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	413					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTTCTCGCCAGTGTGAACTC	0.378													6	79					0	0	1	0	0		C	12691650	C	C	12691650	2	2	199	1	0	0	0	0	0	0	0	1	17966	175	7	5		5	ZNF490	19	12691650	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1066754	12691650	46437333	1123	98515											
MAST1	22983	broad.mit.edu	37	chr19	12985201	12985201	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagggctgtggccaaggcGgcgctgagcccggtgcagga	6	4	19	12	3	0	1	0	1	0	0	0	2	0	2	3	6	2	3	3	6	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:12985201G>A	uc002mvm.2	+	26	4358	c.4230G>A	c.(4228-4230)GCG>GCA	p.A1410A		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1410					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						TGGCCAAGGCGGCGCTGAGCC	0.726													9	33					0	0	1	0	0		A	12985201	A	A	12985201	2	1	199	1	0	0	0	0	0	0	0	1	9342	1103	39	1		1	MAST1	19	12985201	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	293551	12985201	46143782	1124	98516											
RAD23A	5886	broad.mit.edu	37	chr19	13063555	13063555	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gatgctgaacgagccccctgGggagctggcggacatctcag	8	6	15	12	2	1	1	1	1	1	0	2	5	1	3	2	4	4	2	2	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:13063555G>T	uc002mvw.1	+	8	975	c.866G>T	c.(865-867)GGG>GTG	p.G289V	RAD23A_uc002mvx.1_Missense_Mutation_p.G288V|RAD23A_uc002mvz.1_Missense_Mutation_p.G288V|RAD23A_uc002mwa.1_Intron|RAD23A_uc002mvy.1_Missense_Mutation_p.G123V|RAD23A_uc010xmw.1_Missense_Mutation_p.G124V	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	289					interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						GAGCCCCCTGGGGAGCTGGCG	0.617								NER					5	55					3.59834e-05	3.7387e-05	1	1	0		T	13063555	T	T	13063555	3	4	199	1	0	0	0	0	1	0	0	0	13007	1232	43	5	896	5	RAD23A	19	13063555	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	78354	13063555	46065428	1125	98517											
CC2D1A	54862	broad.mit.edu	37	chr19	14031609	14031609	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccgcaagaagcagctcctGcaggccgcactgcgagccaa	10	3	13	15	3	0	1	0	0	0	1	1	2	1	1	4	2	5	5	4	2	3	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:14031609G>A	uc002mxo.2	+	14	1814	c.1515G>A	c.(1513-1515)CTG>CTA	p.L505L	CC2D1A_uc002mxp.2_Silent_p.L505L|CC2D1A_uc010dzh.2_Silent_p.L74L|CC2D1A_uc002mxq.1_Silent_p.L150L	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A	505	Potential.				positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			AGCAGCTCCTGCAGGCCGCAC	0.647													7	29					0	0	1	0	0		A	14031609	A	A	14031609	2	1	199	1	0	0	0	0	0	0	0	1	2729	1306	46	2		2	CC2D1A	19	14031609	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	968054	14031609	45097374	1126	98518											
CC2D1A	54862	broad.mit.edu	37	chr19	14037633	14037633	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctcctctctggtcataGgaagaagctcagaaagacaa	13	8	9	11	0	3	3	2	0	1	3	5	4	4	4	2	2	2	1	2	2	5	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:14037633G>T	uc002mxo.2	+	20	2373	c.2074_splice	c.e20-1	p.E692_splice	CC2D1A_uc002mxp.2_Splice_Site_p.E692_splice|CC2D1A_uc010dzh.2_Splice_Site_p.E261_splice|CC2D1A_uc002mxq.1_Splice_Site_p.E337_splice	NM_017721	NP_060191	Q6P1N0	C2D1A_HUMAN	coiled-coil and C2 domain containing 1A						positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus|plasma membrane	DNA binding|signal transducer activity				0			OV - Ovarian serous cystadenocarcinoma(19;3.49e-23)			TCTGGTCATAGGAAGAAGCTC	0.592													9	34					9.70103e-10	1.05665e-09	1	1	0		T	14037633	T	T	14037633	5	4	199	1	0	0	0	0	0	0	1	0	2729	1014	35	5	2151	5	CC2D1A	19	14037633	Splice_Site	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6024	14037633	45091350	1127	98519											
PKN1	5585	broad.mit.edu	37	chr19	14581060	14581060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacggacacgtcgtacacGcgagctgtggactggtgggg	7	7	17	10	5	0	1	0	1	0	0	1	4	0	3	0	5	2	2	0	5	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:14581060G>A	uc002myp.2	+	19	2547	c.2379G>A	c.(2377-2379)ACG>ACA	p.T793T	PKN1_uc002myq.2_Silent_p.T799T|PKN1_uc002myr.2_Silent_p.T133T	NM_002741	NP_002732	Q16512	PKN1_HUMAN	protein kinase N1 isoform 2	793	Protein kinase.				activation of JUN kinase activity|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	endosome|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|GTP-Rho binding|histone binding|histone deacetylase binding|histone kinase activity (H3-T11 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|Rac GTPase binding			ovary(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8						CGTCGTACACGCGAGCTGTGG	0.637													7	55					0	0	1	0	0		A	14581060	A	A	14581060	2	1	199	1	0	0	0	0	0	0	0	1	11998	1074	38	1		1	PKN1	19	14581060	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	543427	14581060	44547923	1128	98520											
ZNF333	84449	broad.mit.edu	37	chr19	14805828	14805828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgctgttttaggaatccGtcacctttgaggatgtggcc	6	14	13	8	1	1	1	1	1	0	0	2	3	2	3	3	3	1	2	3	3	2	3	rs141404811	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:14805828G>A	uc002mzn.2	+	3	144	c.10G>A	c.(10-12)GTC>ATC	p.V4I	ZNF333_uc010dzq.2_Missense_Mutation_p.V4I|ZNF333_uc002mzk.3_5'UTR|ZNF333_uc002mzl.3_Missense_Mutation_p.V4I|ZNF333_uc002mzm.2_Missense_Mutation_p.V4I|ZNF333_uc010dzr.1_RNA	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	4	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TTAGGAATCCGTCACCTTTGA	0.527													6	192					0	0	1	0	0		A	14805828	A	A	14805828	3	1	199	1	0	0	0	0	1	0	0	0	17875	1145	40	1	16	1	ZNF333	19	14805828	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	224768	14805828	44323155	1129	98521											
OR10H1	26539	broad.mit.edu	37	chr19	15918418	15918418	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcccaggagcagcccaccaGgcaggcgcagccccgcgggc	8	0	15	18	3	0	0	0	0	0	0	0	1	0	1	5	4	4	3	5	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:15918418G>T	uc002nbq.2	-	1	519	c.430C>A	c.(430-432)CTG>ATG	p.L144M		NM_013940	NP_039228	Q9Y4A9	O10H1_HUMAN	olfactory receptor, family 10, subfamily H,	144	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CAGCCCACCAGGCAGGCGCAG	0.637													7	52					3.09899e-07	3.30183e-07	1	1	0		T	15918418	T	T	15918418	3	4	199	1	0	0	0	0	1	0	0	0	10924	991	35	5	530	5	OR10H1	19	15918418	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1112590	15918418	43210565	1130	98522											
ANKLE1	126549	broad.mit.edu	37	chr19	17394394	17394394	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggcagaactgaatgcccGtctgcaggccctgactctga	9	7	13	12	1	2	4	0	3	2	1	2	5	2	5	2	3	3	2	2	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:17394394G>A	uc002nga.2	+	5	1097	c.821G>A	c.(820-822)CGT>CAT	p.R274H	ANKLE1_uc010xpm.1_RNA|ANKLE1_uc010eao.1_Missense_Mutation_p.R296H|ANKLE1_uc010xpn.1_Missense_Mutation_p.R328H|ANKLE1_uc002nfy.2_Missense_Mutation_p.R263H|ANKLE1_uc002nfz.2_5'UTR	NM_152363	NP_689576	Q8NAG6	ANKL1_HUMAN	ankyrin repeat domain 41	274						nuclear envelope					0						CTGAATGCCCGTCTGCAGGCC	0.612													8	41					0	0	1	0	0		A	17394394	A	A	17394394	3	1	199	1	0	0	0	0	1	0	0	0	632	1145	40	1	839	1	ANKLE1	19	17394394	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1475976	17394394	41734589	1131	98523											
UNC13A	23025	broad.mit.edu	37	chr19	17780379	17780379	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacctaagggtagctcaaagCgcgtgtccaggaggatgcgg	10	6	15	10	3	1	0	1	0	0	0	2	2	2	2	2	4	3	2	2	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:17780379C>T	uc002nhd.2	-	6	641	c.641G>A	c.(640-642)CGC>CAC	p.R214H		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	126					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						TAGCTCAAAGCGCGTGTCCAG	0.612													5	30					0	0	1	0	0		T	17780379	T	T	17780379	3	4	199	1	0	0	0	0	1	0	0	0	17010	768	27	1	4886	1	UNC13A	19	17780379	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	385985	17780379	41348604	1132	98524											
MAP1S	55201	broad.mit.edu	37	chr19	17838443	17838443	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatttgagcatcgcaaggcGgtgccaatggcaccggcacc	10	6	13	12	3	0	1	0	1	0	0	1	2	0	1	3	4	2	4	3	4	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:17838443G>A	uc002nhe.1	+	5	2259	c.2250G>A	c.(2248-2250)GCG>GCA	p.A750A	MAP1S_uc010eba.1_Intron|MAP1S_uc002nhf.1_5'UTR|MAP1S_uc010xpv.1_Silent_p.A724A	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	750	Pro-rich.|Necessary for the microtubule-organizing center localization.|Necessary for association with microtubules.|Necessary for interaction with RASSF1 isoform A and isoform C.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						ATCGCAAGGCGGTGCCAATGG	0.697													7	18					0	0	1	0	0		A	17838443	A	A	17838443	2	1	199	1	0	0	0	0	0	0	0	1	9252	1103	39	1		1	MAP1S	19	17838443	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	58064	17838443	41290540	1133	98525											
MAST3	23031	broad.mit.edu	37	chr19	18256012	18256012	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtctacatgggtgatagcgaCgtctacactgtgcaccacgt	9	10	11	11	3	2	1	0	1	2	0	2	2	2	1	1	1	4	1	1	1	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:18256012C>T	uc002nhz.3	+	23	2925	c.2925C>T	c.(2923-2925)GAC>GAT	p.D975D		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	975	PDZ.						ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						GTGATAGCGACGTCTACACTG	0.617													54	143					0	0	1	0	0		T	18256012	T	T	18256012	2	4	199	1	0	0	0	0	0	0	0	1	9344	535	19	1		1	MAST3	19	18256012	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	417569	18256012	40872971	1134	98526											
PDE4C	5143	broad.mit.edu	37	chr19	18321983	18321983	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggatcttgctctggtaccacTctcgattgtcctccagcgtg	5	13	10	13	2	3	0	0	0	3	0	6	2	5	1	3	2	3	2	3	2	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:18321983T>G	uc010xqc.1	-	15	2375	c.1895A>C	c.(1894-1896)GAG>GCG	p.E632A	PDE4C_uc002nik.3_Missense_Mutation_p.E632A|PDE4C_uc002nil.3_Missense_Mutation_p.E632A|PDE4C_uc002nif.3_Missense_Mutation_p.E401A|PDE4C_uc002nig.3_Missense_Mutation_p.E347A|PDE4C_uc002nih.3_Missense_Mutation_p.E402A|PDE4C_uc010ebk.2_Missense_Mutation_p.E526A|PDE4C_uc002nii.3_Missense_Mutation_p.E600A|PDE4C_uc010ebl.2_Missense_Mutation_p.E346A	NM_001098819	NP_001092289	Q08493	PDE4C_HUMAN	phosphodiesterase 4C isoform PDE4C-2	632					signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|skin(2)|central_nervous_system(1)	5					Dyphylline(DB00651)	CTGGTACCACTCTCGATTGTC	0.547													6	117					0	0	1	0	0		G	18321983	G	G	18321983	3	3	199	1	0	0	0	0	1	0	0	0	11660	1551	54	5	247	5	PDE4C	19	18321983	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	65971	18321983	40807000	1135	98527											
LRRC25	126364	broad.mit.edu	37	chr19	18502805	18502805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcttaggctcagtgccCggggatcacgtactcctctt	7	11	10	13	2	4	0	2	0	2	0	5	2	5	1	2	3	2	2	2	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:18502805C>T	uc002niw.2	-	2	1552	c.910G>A	c.(910-912)GGG>AGG	p.G304R	LRRC25_uc002nix.2_Missense_Mutation_p.G304R	NM_145256	NP_660299	Q8N386	LRC25_HUMAN	leucine rich repeat containing 25 precursor	304	Cytoplasmic (Potential).					integral to membrane					0						GCTCAGTGCCCGGGGATCACG	0.428													6	16					0	0	1	0	0		T	18502805	T	T	18502805	3	4	199	1	0	0	0	0	1	0	0	0	8998	652	23	1	11	1	LRRC25	19	18502805	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	180822	18502805	40626178	1136	98528											
TSSK6	83983	broad.mit.edu	37	chr19	19625901	19625901	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atctgcgcaaagaggtcgcgCgcctgaactccggggatgcg	8	6	15	12	6	1	2	0	1	1	1	3	3	2	3	2	3	3	1	2	3	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:19625901C>T	uc002nmr.2	-	1	569	c.336G>A	c.(334-336)GCG>GCA	p.A112A	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	112	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						AGAGGTCGCGCGCCTGAACTC	0.657													14	49					0	0	1	0	0		T	19625901	T	T	19625901	2	4	199	1	0	0	0	0	0	0	0	1	16698	755	27	1		1	TSSK6	19	19625901	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1123096	19625901	39503082	1137	98529											
C19orf2	8725	broad.mit.edu	37	chr19	30502126	30502126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctgccgaccatcaggacGcctgcagacatttacaggtg	10	7	12	12	2	1	1	1	0	0	1	1	4	1	2	3	2	4	2	3	2	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:30502126G>A	uc002nsr.2	+	9	1191	c.1161G>A	c.(1159-1161)ACG>ACA	p.T387T	C19orf2_uc002nsq.2_Silent_p.T369T|C19orf2_uc002nss.2_Silent_p.T347T|C19orf2_uc002nst.2_Silent_p.T311T	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	387					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		CCATCAGGACGCCTGCAGACA	0.522													21	60					0	0	1	0	0		A	30502126	A	A	30502126	2	1	199	1	0	0	0	0	0	0	0	1	1914	1074	38	1		1	C19orf2	19	30502126	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	10876225	30502126	28626857	1138	98530											
ZNF536	9745	broad.mit.edu	37	chr19	30935293	30935293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccccggcggcgggcttccGctgtaccttctgcaagggca	4	7	15	15	4	1	0	0	0	1	0	2	0	2	0	4	5	2	5	4	5	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:30935293G>A	uc002nsu.1	+	2	962	c.824G>A	c.(823-825)CGC>CAC	p.R275H	ZNF536_uc010edd.1_Missense_Mutation_p.R275H	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	275	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCGGGCTTCCGCTGTACCTTC	0.667													5	7					0	0	1	0	0		A	30935293	A	A	30935293	3	1	199	1	0	0	0	0	1	0	0	0	17999	1087	38	1	826	1	ZNF536	19	30935293	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	433167	30935293	28193690	1139	98531											
TSHZ3	57616	broad.mit.edu	37	chr19	31770656	31770656	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttaactcttcggaaacatAggctgccatgataacaggtg	12	11	9	9	1	1	1	0	1	1	0	2	2	1	2	1	3	4	1	1	3	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:31770656A>G	uc002nsy.3	-	2	108	c.43T>C	c.(43-45)TAT>CAT	p.Y15H		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	15					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TCGGAAACATAGGCTGCCATG	0.368													3	30					0	0	1	0	0		G	31770656	G	G	31770656	3	3	199	1	0	0	0	0	1	0	0	0	16651	420	15	3	3206	3	TSHZ3	19	31770656	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	835363	31770656	27358327	1140	98532											
GRAMD1A	57655	broad.mit.edu	37	chr19	35504571	35504571	+	Silent	SNP	A	C	C	1	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	gtcacgcccaacctttcccgAgccagcagcgacgcagacca	10	4	9	18	4	1	1	1	0	0	1	2	3	2	1	5	0	4	2	5	0	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:35504571A>C	uc010xse.1	+	9	983	c.846A>C	c.(844-846)CGA>CGC	p.R282R	GRAMD1A_uc002nxi.1_Silent_p.R369R|GRAMD1A_uc002nxk.2_Silent_p.R275R|GRAMD1A_uc002nxl.2_Silent_p.R48R|GRAMD1A_uc010xsf.1_Silent_p.R287R|GRAMD1A_uc002nxm.1_RNA|GRAMD1A_uc002nxn.1_5'Flank	NM_020895	NP_065946	Q96CP6	GRM1A_HUMAN	GRAM domain containing 1A isoform 1	282						integral to membrane					0	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)			ACCTTTCCCGAGCCAGCAGCG	0.652													9	46					0	0	1	0	0		C	35504571	C	C	35504571	2	2	199	1	0	0	0	0	0	0	0	1	6763	291	11	5		5	GRAMD1A	19	35504571	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3733915	35504571	23624412	1141	98533											
COX6B1	1340	broad.mit.edu	37	chr19	36149497	36149497	+	Missense_Mutation	SNP	T	C	C	0	1	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	taacactgtctttccacaggTcacagactgggatgagcaac	12	9	9	11	0	2	2	1	1	1	1	3	3	3	3	1	2	3	1	1	2	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:36149497T>C	uc002oav.2	+	4	371	c.209T>C	c.(208-210)GTC>GCC	p.V70A		NM_001863	NP_001854	P14854	CX6B1_HUMAN	cytochrome c oxidase subunit VIb polypeptide 1	70					respiratory electron transport chain	mitochondrial inner membrane|mitochondrial intermembrane space	cytochrome-c oxidase activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TTTCCACAGGTCACAGACTGG	0.493													13	53					0	0	1	0	0		C	36149497	C	C	36149497	3	2	199	1	0	0	0	0	1	0	0	0	3779	1681	58	3	219	3	COX6B1	19	36149497	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	644926	36149497	22979486	1142	98534											
U2AF1L4	199746	broad.mit.edu	37	chr19	36234928	36234928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cataccccatctcatactggCgacagcatgactcccggaag	11	7	8	15	2	1	1	1	1	1	0	3	3	2	2	3	2	3	1	3	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:36234928C>T	uc002obg.2	-	5	482	c.173G>A	c.(172-174)CGC>CAC	p.R58H	TMEM149_uc002obb.2_5'Flank|TMEM149_uc002obc.2_5'Flank|TMEM149_uc002obd.3_5'Flank|TMEM149_uc010xsy.1_5'Flank|TMEM149_uc010eej.2_Intron|U2AF1L4_uc002obh.1_Intron|U2AF1L4_uc002obe.2_Missense_Mutation_p.R117H|U2AF1L4_uc002obf.2_Intron|PSENEN_uc002obi.1_5'Flank|PSENEN_uc002obj.1_5'Flank|PSENEN_uc002obk.1_5'Flank			Q8WU68	U2AF4_HUMAN	Homo sapiens cDNA FLJ35525 fis, clone SPLEN2001650.	156	C3H1-type 2.				mRNA processing|RNA splicing	nuclear speck|spliceosomal complex	nucleotide binding|RNA binding|zinc ion binding				0	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCATACTGGCGACAGCATGA	0.577													26	79					0	0	1	0	0		T	36234928	T	T	36234928	3	4	199	1	0	0	0	0	1	0	0	0	16848	768	27	1	328	1	U2AF1L4	19	36234928	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	85431	36234928	22894055	1143	98535											
ZNF569	148266	broad.mit.edu	37	chr19	37903917	37903917	+	Frame_Shift_Del	DEL	T	-	-																															atttatcacattcataaggcTtttcccctgtatgacttctc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:37903917delT	uc002ogi.2	-	6	2201	c.1643delA	c.(1642-1644)AAGfs	p.K548fs	ZNF569_uc002ogh.2_Frame_Shift_Del_p.K389fs|ZNF569_uc002ogj.2_Frame_Shift_Del_p.K572fs	NM_152484	NP_689697	Q5MCW4	ZN569_HUMAN	zinc finger protein 569	548					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTCATAAGGCTTTTCCCCTGT	0.388													44	101	---	---	---	---						.	-	37903917	-	-	37903917	7	5	199	1	0	1	0	1	0	0	0	0	18025	1609	56	0	421	0	ZNF569	19	37903917	Frame_Shift_Del	DEL	T	TCGA-HF-7132-01A-11D-2053-08	1668989	37903917	21225066	1144	98536											
SPINT2	10653	broad.mit.edu	37	chr19	38782560	38782560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctacctgatccgggtggcaCggaggaaccaggagcgtgcc	8	6	15	12	3	1	1	0	1	1	0	2	4	2	4	4	5	4	1	4	5	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:38782560C>T	uc002ohr.1	+	7	1004	c.673C>T	c.(673-675)CGG>TGG	p.R225W	SPINT2_uc002ohs.1_Missense_Mutation_p.R168W	NM_021102	NP_066925	O43291	SPIT2_HUMAN	serine protease inhibitor, Kunitz type, 2	225	Cytoplasmic (Potential).				cellular component movement	cytoplasm|extracellular region|integral to membrane|soluble fraction	serine-type endopeptidase inhibitor activity				0	all_cancers(60;6.83e-07)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CCGGGTGGCACGGAGGAACCA	0.622													4	17					0	0	1	0	0		T	38782560	T	T	38782560	3	4	199	1	0	0	0	0	1	0	0	0	15094	527	19	1	699	1	SPINT2	19	38782560	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	878643	38782560	20346423	1145	98537											
RYR1	6261	broad.mit.edu	37	chr19	38937165	38937165	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttcatggacatatggatgagTgtctgaccatttcccctgct	8	14	9	10	0	2	2	1	2	1	0	3	4	3	4	3	2	1	1	3	2	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:38937165T>G	uc002oit.2	+	8	815	c.685T>G	c.(685-687)TGT>GGT	p.C229G	RYR1_uc002oiu.2_Missense_Mutation_p.C229G	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	229	MIR 3.|Cytoplasmic.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	TATGGATGAGTGTCTGACCAT	0.617													12	80					0	0	1	0	0		G	38937165	G	G	38937165	3	3	199	1	0	0	0	0	1	0	0	0	13793	1696	59	5	715	5	RYR1	19	38937165	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	154605	38937165	20191818	1146	98538											
SARS2	54938	broad.mit.edu	37	chr19	39435738	39435738	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccgcagttctctcgagcGccccacctgccaggcagcag	7	5	11	18	3	1	0	0	0	1	0	3	1	1	0	5	1	4	4	5	1	0	1	rs138216167		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:39435738G>A	uc010xuq.1	-	4	277	c.69C>T	c.(67-69)GGC>GGT	p.G23G	FBXO17_uc002okg.1_Silent_p.G188G|FBXO17_uc002okf.1_Silent_p.G197G	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	Error:Variant_position_missing_in_Q9NP81_after_alignment					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			TCTCTCGAGCGCCCCACCTGC	0.627													13	72					0	0	1	0	0		A	39435738	A	A	39435738	2	1	199	1	0	0	0	0	0	0	0	1	13870	1074	38	1		1	SARS2	19	39435738	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	498573	39435738	19693245	1147	98539											
FBL	2091	broad.mit.edu	37	chr19	40331067	40331067	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactcaccctcatgccgatgCggctccaccatcacattctt	8	10	5	18	2	4	0	3	0	1	0	5	1	5	0	4	1	2	1	4	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:40331067C>T	uc002omn.2	-	3	384	c.270G>A	c.(268-270)CCG>CCA	p.P90P	FBL_uc002omm.1_Silent_p.P4P|FBL_uc002omo.2_Silent_p.P89P|FBL_uc010egr.2_Silent_p.P90P	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	90					rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	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)		CATGCCGATGCGGCTCCACCA	0.622													56	257					0	0	1	0	0		T	40331067	T	T	40331067	2	4	199	1	0	0	0	0	0	0	0	1	5710	755	27	1		1	FBL	19	40331067	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	895329	40331067	18797916	1148	98540											
ZNF780B	163131	broad.mit.edu	37	chr19	40541351	40541351	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cacattctttacattcaaagGgtttcccaccagtatgaatt	12	14	5	10	0	2	1	1	1	1	0	3	1	3	1	2	1	1	2	2	1	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:40541351G>A	uc002omu.2	-	5	1480	c.1415C>T	c.(1414-1416)CCC>CTC	p.P472L	ZNF780B_uc002omv.2_Missense_Mutation_p.P324L	NM_001005851	NP_001005851	Q9Y6R6	Z780B_HUMAN	zinc finger protein 780B	472					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					ACATTCAAAGGGTTTCCCACC	0.388													23	94					0	0	1	0	0		A	40541351	A	A	40541351	3	1	199	1	0	0	0	0	1	0	0	0	18178	1232	43	4	1090	4	ZNF780B	19	40541351	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	210284	40541351	18587632	1149	98541											
C19orf47	126526	broad.mit.edu	37	chr19	40829912	40829912	+	Splice_Site	SNP	C	A	A	0	0	0	1	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	cgctcccccatccccactcaCtttactccctgtcgtggtgt	4	12	6	19	2	1	0	1	0	0	0	5	0	4	0	5	1	1	1	5	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:40829912C>A	uc002oni.3	-	8	775	c.774_splice	c.e8+1	p.K258_splice	C19orf47_uc002ong.2_Splice_Site_p.K117_splice|C19orf47_uc002onh.2_Splice_Site_p.K191_splice	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526											ovary(1)|skin(1)	2			Lung(22;0.000636)			TCCCCACTCACTTTACTCCCT	0.597													17	125					7.41877e-09	8.02696e-09	1	1	0		A	40829912	A	A	40829912	5	1	199	1	0	0	0	0	0	0	1	0	1933	579	20	5	501	5	C19orf47	19	40829912	Splice_Site	SNP	C	TCGA-HF-7132-01A-11D-2053-08	288561	40829912	18299071	1150	98542											
HIPK4	147746	broad.mit.edu	37	chr19	40889748	40889748	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaggggttggcagcgtcaGggtgggggttgcgcttgaag	5	8	21	7	2	1	1	1	1	0	0	1	1	1	1	1	6	2	4	1	6	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:40889748G>T	uc002onp.2	-	2	1049	c.764C>A	c.(763-765)CCT>CAT	p.P255H		NM_144685	NP_653286	Q8NE63	HIPK4_HUMAN	homeodomain interacting protein kinase 4	255	Protein kinase.					cytoplasm	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2			Lung(22;4.95e-05)|LUSC - Lung squamous cell carcinoma(20;0.000292)			GGCAGCGTCAGGGTGGGGGTT	0.632													10	57					0.00010058	0.000104281	1	1	0		T	40889748	T	T	40889748	3	4	199	1	0	0	0	0	1	0	0	0	7135	1000	35	5	1098	5	HIPK4	19	40889748	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	59836	40889748	18239235	1151	98543											
CYP2A6	1548	broad.mit.edu	37	chr19	41356252	41356252	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttccccttgctcttcCtctgctgccaaacagacatc	7	11	6	17	0	2	1	0	0	2	1	5	1	4	1	4	0	5	4	4	0	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:41356252C>G	uc002opl.3	-	1	101	c.80G>C	c.(79-81)AGG>ACG	p.R27T	CYP2A6_uc010ehe.1_5'UTR|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	27					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	CTTGCTCTTCCTCTGCTGCCA	0.542													16	78					0	0	1	0	0		G	41356252	G	G	41356252	3	3	199	1	0	0	0	0	1	0	0	0	4165	681	24	5	1440	5	CYP2A6	19	41356252	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	466504	41356252	17772731	1152	98544											
CCDC97	90324	broad.mit.edu	37	chr19	41822684	41822684	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagggcactgcccggcccCgcaccctgcgtacccgcctg	4	4	13	20	4	0	0	0	0	0	0	0	0	0	0	6	3	3	4	6	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:41822684C>A	uc002oqg.2	+	2	564	c.442C>A	c.(442-444)CGC>AGC	p.R148S	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	148											0						TGCCCGGCCCCGCACCCTGCG	0.677													9	39					6.40141e-05	6.6464e-05	1	1	0		A	41822684	A	A	41822684	3	1	199	1	0	0	0	0	1	0	0	0	2878	652	23	5	448	5	CCDC97	19	41822684	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	466432	41822684	17306299	1153	98545											
ZNF230	7773	broad.mit.edu	37	chr19	44513052	44513052	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatgcttgagaacttcacGaacctgctgtcagtgggtga	9	11	13	8	1	2	3	2	3	0	1	2	5	2	3	1	1	4	2	1	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:44513052G>A	uc002oyb.1	+	3	377	c.126G>A	c.(124-126)ACG>ACA	p.T42T		NM_006300	NP_006291	Q9UIE0	ZN230_HUMAN	zinc finger protein 230	42	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				AGAACTTCACGAACCTGCTGT	0.517													25	127					0	0	1	0	0		A	44513052	A	A	44513052	2	1	199	1	0	0	0	0	0	0	0	1	17809	1045	37	1		1	ZNF230	19	44513052	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2690368	44513052	14615931	1154	98546											
CLPTM1	1209	broad.mit.edu	37	chr19	45480718	45480718	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacagtccacatgtcccggaGtaagtcgctcccctgcagcc	8	7	9	17	2	0	0	0	0	0	0	4	1	3	1	5	1	2	3	5	1	1	1	rs111806238		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:45480718G>T	uc002pai.2	+	5	601	c.586_splice	c.e5+1	p.M196_splice	CLPTM1_uc010ejv.1_Splice_Site_p.M94_splice|CLPTM1_uc010xxf.1_Splice_Site_p.M94_splice|CLPTM1_uc010xxg.1_Splice_Site_p.M182_splice	NM_001294	NP_001285	O96005	CLPT1_HUMAN	cleft lip and palate associated transmembrane						cell differentiation|multicellular organismal development|regulation of T cell differentiation in thymus	external side of plasma membrane|integral to plasma membrane				ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00354)|Epithelial(262;0.187)		ATGTCCCGGAGTAAGTCGCTC	0.622													18	81					1.01871e-10	1.11125e-10	1	1	0		T	45480718	T	T	45480718	5	4	199	1	0	0	0	0	0	0	1	0	3557	1043	36	5	605	5	CLPTM1	19	45480718	Splice_Site	SNP	G	TCGA-HF-7132-01A-11D-2053-08	967666	45480718	13648265	1155	98547											
SFRS16	11129	broad.mit.edu	37	chr19	45570838	45570838	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccgcgtcccctgctgtgggCgagaagctgaaaaagtgagc	9	6	15	11	3	0	3	0	2	0	1	1	4	1	3	3	1	3	2	3	1	3	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:45570838C>T	uc002pak.2	+	14	1751	c.1653C>T	c.(1651-1653)GGC>GGT	p.G551G	SFRS16_uc002pal.2_RNA|SFRS16_uc010xxh.1_Silent_p.G489G|SFRS16_uc002pam.2_Silent_p.G551G	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16	551	Arg-rich.				mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CTGCTGTGGGCGAGAAGCTGA	0.468													8	21					0	0	1	0	0		T	45570838	T	T	45570838	2	4	199	1	0	0	0	0	0	0	0	1	14197	755	27	1		1	SFRS16	19	45570838	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	90120	45570838	13558145	1156	98548											
CD3EAP	10849	broad.mit.edu	37	chr19	45912137	45912137	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agggatggagccagaggaggGggtgacagttgagtctcagc	10	6	19	6	0	1	3	1	2	1	1	2	6	1	6	1	5	2	1	1	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:45912137G>T	uc002pbq.1	+	3	1399	c.911G>T	c.(910-912)GGG>GTG	p.G304V	PPP1R13L_uc002pbo.2_5'Flank|PPP1R13L_uc002pbp.2_5'Flank|CD3EAP_uc002pbr.1_Missense_Mutation_p.G306V	NM_012099	NP_036231	O15446	RPA34_HUMAN	CD3E antigen, epsilon polypeptide associated	304					rRNA transcription|transmembrane receptor protein tyrosine kinase signaling pathway	chromosome|RNA polymerase I transcription factor complex	DNA-directed RNA polymerase activity			large_intestine(2)|ovary(2)	4		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0251)		CCAGAGGAGGGGGTGACAGTT	0.537													19	119					5.45024e-15	6.04894e-15	1	1	0		T	45912137	T	T	45912137	3	4	199	1	0	0	0	0	1	0	0	0	3015	1232	43	5	921	5	CD3EAP	19	45912137	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	341299	45912137	13216846	1157	98549											
GIPR	2696	broad.mit.edu	37	chr19	46177354	46177354	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaggctcatcttggagcGgttgcaggtcatgtacactg	9	10	12	10	1	3	0	2	0	1	0	3	1	3	1	1	4	3	4	1	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:46177354G>A	uc002pcu.1	+	6	506	c.407G>A	c.(406-408)CGG>CAG	p.R136Q	GIPR_uc002pct.1_Missense_Mutation_p.R136Q|GIPR_uc010xxp.1_Missense_Mutation_p.R100Q|GIPR_uc010xxq.1_RNA|MIR642_hsa-mir-642|MI0003657_5'Flank	NM_000164	NP_000155	P48546	GIPR_HUMAN	gastric inhibitory polypeptide receptor	136	Extracellular (Potential).				generation of precursor metabolites and energy|response to nutrient	integral to membrane|plasma membrane				skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0056)|GBM - Glioblastoma multiforme(486;0.0832)|Epithelial(262;0.199)		ATCTTGGAGCGGTTGCAGGTC	0.582													30	188					0	0	1	0	0		A	46177354	A	A	46177354	3	1	199	1	0	0	0	0	1	0	0	0	6410	1116	39	1	425	1	GIPR	19	46177354	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	265217	46177354	12951629	1158	98550											
PGLYRP1	8993	broad.mit.edu	37	chr19	46522823	46522823	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctgatgccaatggacatggGgttccataagtgacctgagt	10	10	13	8	0	0	3	0	3	0	0	1	4	1	4	3	3	1	2	3	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:46522823G>T	uc002pdx.1	-	2	414	c.370C>A	c.(370-372)CCC>ACC	p.P124T		NM_005091	NP_005082	O75594	PGRP1_HUMAN	peptidoglycan recognition protein 1 precursor	124					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptidoglycan catabolic process	extracellular region	bacterial cell surface binding|N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(2)	2		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.0036)|GBM - Glioblastoma multiforme(486;0.022)|Epithelial(262;0.208)		ATGGACATGGGGTTCCATAAG	0.592													17	39					2.48551e-13	2.74398e-13	1	1	0		T	46522823	T	T	46522823	3	4	199	1	0	0	0	0	1	0	0	0	11812	1232	43	5	228	5	PGLYRP1	19	46522823	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	345469	46522823	12606160	1159	98551											
PRKD2	25865	broad.mit.edu	37	chr19	47204366	47204366	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtttgtgacagttaaacttgCagtctggtaggacagggaac	11	11	13	6	0	1	1	0	1	1	0	1	3	1	3	0	3	3	4	0	3	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:47204366C>A	uc002pfh.2	-	7	1235	c.893G>T	c.(892-894)TGC>TTC	p.C298F	PRKD2_uc002pfg.2_Missense_Mutation_p.C141F|PRKD2_uc002pfi.2_Missense_Mutation_p.C298F|PRKD2_uc002pfj.2_Missense_Mutation_p.C298F|PRKD2_uc010xye.1_Missense_Mutation_p.C298F|PRKD2_uc002pfk.2_Missense_Mutation_p.C141F	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	298	Phorbol-ester/DAG-type 2.				cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		GTTAAACTTGCAGTCTGGTAG	0.567													3	44					0.150653	0.151066	1	1	0		A	47204366	A	A	47204366	3	1	199	1	0	0	0	0	1	0	0	0	12541	710	25	5	1795	5	PRKD2	19	47204366	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	681543	47204366	11924617	1160	98552											
CGB7	94027	broad.mit.edu	37	chr19	49557610	49557610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggatggacttggaaggctggGgggaggggcctttgaggaag	8	7	22	4	0	0	1	0	1	0	0	0	6	0	6	1	10	0	1	1	10	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:49557610G>A	uc002pmd.2	-	3	801	c.436C>T	c.(436-438)CCC>TCC	p.P146S	CGB_uc010yad.1_Intron|CGB8_uc002pmc.2_Intron|CGB7_uc002pme.2_Missense_Mutation_p.P146S	NM_033142	NP_149133	P01233	CGHB_HUMAN	chorionic gonadotropin, beta polypeptide 7	146					apoptosis|cell-cell signaling|cellular nitrogen compound metabolic process|female gamete generation|hormone biosynthetic process|peptide hormone processing|signal transduction	extracellular region|soluble fraction	hormone activity				0		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)	Choriogonadotropin alfa(DB00097)	GGAAGGCTGGGGGGAGGGGCC	0.642													17	76					0	0	1	0	0		A	49557610	A	A	49557610	3	1	199	1	0	0	0	0	1	0	0	0	3303	1232	43	4	65	4	CGB7	19	49557610	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2353244	49557610	9571373	1161	98553											
SLC17A7	57030	broad.mit.edu	37	chr19	49939837	49939837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcccccgcggtgggtcGtgctgttattgaccatggag	4	10	16	11	4	0	1	0	1	0	0	1	2	0	2	3	4	1	2	3	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:49939837G>A	uc002pnp.2	-	2	456	c.284C>T	c.(283-285)ACG>ATG	p.T95M	SLC17A7_uc002pnq.1_Missense_Mutation_p.T28M	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	95	Extracellular (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		GCGGTGGGTCGTGCTGTTATT	0.642													13	49					0	0	1	0	0		A	49939837	A	A	49939837	3	1	199	1	0	0	0	0	1	0	0	0	14447	1145	40	1	1442	1	SLC17A7	19	49939837	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	382227	49939837	9189146	1162	98554											
PRR12	57479	broad.mit.edu	37	chr19	50100533	50100533	+	Frame_Shift_Del	DEL	C	-	-																															ccaaggctggcgctgggccaCcccccggcccccctgcttat																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:50100533delC	uc002poo.3	+	4	2941	c.2941delC	c.(2941-2943)CCCfs	p.P981fs		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	160	Pro-rich.						DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		CGCTGGGCCACCCCCCGGCCC	0.726													6	1	---	---	---	---						.	-	50100533	-	-	50100533	7	5	199	1	0	1	0	1	0	0	0	0	12606	507	18	0	2955	0	PRR12	19	50100533	Frame_Shift_Del	DEL	C	TCGA-HF-7132-01A-11D-2053-08	160696	50100533	9028450	1163	98555											
PRR12	57479	broad.mit.edu	37	chr19	50128211	50128211	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaccctacaaccgcaagacGctcagcaagctcaagaggag	15	3	10	13	2	2	2	2	0	0	2	2	4	2	3	2	1	5	4	2	1	6	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:50128211G>A	uc002poo.3	+	12	5832	c.5832G>A	c.(5830-5832)ACG>ACA	p.T1944T		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	1123							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		ACCGCAAGACGCTCAGCAAGC	0.667													20	48					0	0	1	0	0		A	50128211	A	A	50128211	2	1	199	1	0	0	0	0	0	0	0	1	12606	1074	38	1		1	PRR12	19	50128211	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	27678	50128211	9000772	1164	98556											
MYBPC2	4606	broad.mit.edu	37	chr19	50961933	50961933	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggagccagaatcctcttcCgagtagttggggtcaacatc	9	9	11	12	2	2	1	1	0	1	1	5	3	4	2	4	3	2	2	4	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:50961933C>T	uc002psf.2	+	21	2479	c.2428C>T	c.(2428-2430)CGA>TGA	p.R810*		NM_004533	NP_004524	Q14324	MYPC2_HUMAN	myosin binding protein C, fast type	810	Fibronectin type-III 2.				cell adhesion|muscle filament sliding	cytosol|myosin filament	actin binding|structural constituent of muscle			breast(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.0079)|GBM - Glioblastoma multiforme(134;0.0144)		AATCCTCTTCCGAGTAGTTGG	0.667													19	32					0	0	1	0	0		T	50961933	T	T	50961933	4	4	199	1	0	0	0	0	0	1	0	0	10030	644	23	1	2510	1	MYBPC2	19	50961933	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	833722	50961933	8167050	1165	98557											
KLK15	55554	broad.mit.edu	37	chr19	51330155	51330155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtgaccgggggctcccagCggtcccaggctcgttgtggg	3	9	17	12	3	0	1	0	1	0	0	3	1	2	1	3	5	1	3	3	5	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:51330155C>T	uc002ptl.2	-	3	491	c.460G>A	c.(460-462)GCT>ACT	p.A154T	KLK15_uc002ptm.2_Intron|KLK15_uc002ptn.2_Missense_Mutation_p.A154T|KLK15_uc002pto.2_Missense_Mutation_p.A153T|KLK15_uc010ych.1_Intron|KLK15_uc010yci.1_Missense_Mutation_p.A153T|KLK15_uc010eod.2_RNA	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4	154	Peptidase S1.			SHNEPGTAGSPRSQ -> PLSSP (in Ref. 2).	proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		GGGCTCCCAGCGGTCCCAGGC	0.692													7	28					0	0	1	0	0		T	51330155	T	T	51330155	3	4	199	1	0	0	0	0	1	0	0	0	8419	768	27	1	322	1	KLK15	19	51330155	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	368222	51330155	7798828	1166	98558											
KLK5	25818	broad.mit.edu	37	chr19	51455908	51455908	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccaggggggtcttgctgtAgccatggccgctgcacctgg	5	9	15	12	1	1	0	0	0	1	0	2	0	2	0	4	5	3	4	4	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:51455908A>G	uc002pue.2	-	3	224	c.6T>C	c.(4-6)GCT>GCC	p.A2A	KLK5_uc002puf.2_Silent_p.A2A|KLK5_uc002pug.2_Silent_p.A2A	NM_001077491	NP_001070959	Q9Y337	KLK5_HUMAN	kallikrein-related peptidase 5 preproprotein	2					epidermis development|positive regulation of G-protein coupled receptor protein signaling pathway|proteolysis	extracellular space	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00379)|GBM - Glioblastoma multiforme(134;0.00888)		GTCTTGCTGTAGCCATGGCCG	0.617													8	36					0	0	1	0	0		G	51455908	G	G	51455908	2	3	199	1	0	0	0	0	0	0	0	1	8423	407	15	3		3	KLK5	19	51455908	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	125753	51455908	7673075	1167	98559											
SIGLEC7	27036	broad.mit.edu	37	chr19	51645721	51645721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttactcgctgacgatgcagaGttccgtgaccgtgcaagagg	9	9	13	10	4	0	4	0	2	0	2	2	5	1	4	2	1	3	4	2	1	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:51645721G>A	uc002pvv.1	+	1	164	c.95G>A	c.(94-96)AGT>AAT	p.S32N	SIGLEC7_uc002pvw.1_Missense_Mutation_p.S32N|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_Missense_Mutation_p.S32N	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	32	Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		ACGATGCAGAGTTCCGTGACC	0.493													11	39					0	0	1	0	0		A	51645721	A	A	51645721	3	1	199	1	0	0	0	0	1	0	0	0	14338	1029	36	4	97	4	SIGLEC7	19	51645721	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	189813	51645721	7483262	1168	98560											
SIGLEC6	946	broad.mit.edu	37	chr19	52034722	52034722	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacagaccctcctgcaccGtcagtgactctggcccctcc	6	7	8	20	2	2	2	1	1	1	1	4	2	4	2	6	1	1	2	6	1	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:52034722G>A	uc002pwy.2	-	2	281	c.119C>T	c.(118-120)ACG>ATG	p.T40M	SIGLEC6_uc002pwz.2_Missense_Mutation_p.T40M|SIGLEC6_uc002pxa.2_Missense_Mutation_p.T40M|SIGLEC6_uc010ydb.1_Intron|SIGLEC6_uc010ydc.1_Missense_Mutation_p.T29M|SIGLEC6_uc010eoz.1_Missense_Mutation_p.T29M|SIGLEC6_uc010epb.1_Intron|SIGLEC6_uc010epa.1_Missense_Mutation_p.T29M	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	40	Extracellular (Potential).|Ig-like V-type.				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		CTCCTGCACCGTCAGTGACTC	0.627													10	42					0	0	1	0	0		A	52034722	A	A	52034722	3	1	199	1	0	0	0	0	1	0	0	0	14337	1145	40	1	1303	1	SIGLEC6	19	52034722	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	389001	52034722	7094261	1169	98561											
ZNF836	162962	broad.mit.edu	37	chr19	52658932	52658932	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taggctttgccacaatcattAcatttgtaaggtttctctcc	9	16	6	10	0	2	0	1	0	1	0	4	0	3	0	2	2	2	3	2	2	4	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:52658932A>G	uc010ydi.1	-	5	2378	c.2004T>C	c.(2002-2004)TGT>TGC	p.C668C	ZNF836_uc010ydj.1_Silent_p.C668C	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	668	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACAATCATTACATTTGTAAG	0.413													18	92					0	0	1	0	0		G	52658932	G	G	52658932	2	3	199	1	0	0	0	0	0	0	0	1	18212	389	14	3		3	ZNF836	19	52658932	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	624210	52658932	6470051	1170	98562											
ZNF480	147657	broad.mit.edu	37	chr19	52825457	52825457	+	Silent	SNP	T	C	C	0	1	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	gagaaaccttacaaatgtaaTgaatgtggtaaaggcttcag	16	10	10	5	0	1	2	1	1	0	1	1	3	1	2	1	2	2	3	1	2	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:52825457T>C	uc010ydl.1	+	5	1024	c.954T>C	c.(952-954)AAT>AAC	p.N318N	ZNF480_uc002pyv.2_Silent_p.N241N|ZNF480_uc010ydm.1_Silent_p.N275N|ZNF480_uc010epn.2_Silent_p.N149N|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	318	C2H2-type 5; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		ACAAATGTAATGAATGTGGTA	0.368													11	46					0	0	1	0	0		C	52825457	C	C	52825457	2	2	199	1	0	0	0	0	0	0	0	1	17960	1461	51	3		3	ZNF480	19	52825457	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	166525	52825457	6303526	1171	98563											
ZNF160	90338	broad.mit.edu	37	chr19	53571638	53571638	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgggtggttaggcttgaacGaacactgaaggctttcccac	10	10	12	9	1	0	2	0	2	0	0	1	3	1	2	1	4	2	3	1	4	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:53571638G>A	uc010eqk.2	-	7	2565	c.2149C>T	c.(2149-2151)CGT>TGT	p.R717C	ZNF160_uc002qaq.3_Missense_Mutation_p.R717C|ZNF160_uc002qar.3_Missense_Mutation_p.R717C	NM_001102603	NP_001096073	Q9HCG1	ZN160_HUMAN	zinc finger protein 160	717	C2H2-type 17.				hemopoiesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(134;0.02)		AGGCTTGAACGAACACTGAAG	0.448													13	135					0	0	1	0	0		A	53571638	A	A	53571638	3	1	199	1	0	0	0	0	1	0	0	0	17764	1058	37	1	311	1	ZNF160	19	53571638	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	746181	53571638	5557345	1172	98564											
ZNF331	55422	broad.mit.edu	37	chr19	54080826	54080826	+	Missense_Mutation	SNP	T	G	G	0	1	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	agtgtgggaaggcctttcgcTggggttcgagcctcgttaag	6	11	16	8	3	0	0	0	0	0	0	3	2	0	1	2	4	1	3	2	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:54080826T>G	uc002qbx.1	+	7	2446	c.1012T>G	c.(1012-1014)TGG>GGG	p.W338G	ZNF331_uc002qby.1_Missense_Mutation_p.W338G|ZNF331_uc002qbz.1_Missense_Mutation_p.W338G|ZNF331_uc002qca.1_Missense_Mutation_p.W338G|ZNF331_uc010eqr.1_Missense_Mutation_p.W338G|ZNF331_uc002qcb.1_Missense_Mutation_p.W338G|ZNF331_uc002qcc.1_Missense_Mutation_p.W338G|ZNF331_uc002qcd.1_Missense_Mutation_p.W338G	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	338	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		GGCCTTTCGCTGGGGTTCGAG	0.522			T	?	follicular thyroid adenoma								17	60					0	0	1	0	0		G	54080826	G	G	54080826	3	3	199	1	0	0	0	0	1	0	0	0	17874	1580	55	5	1022	5	ZNF331	19	54080826	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	509188	54080826	5048157	1173	98565											
LAIR1	3903	broad.mit.edu	37	chr19	54872627	54872627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcacttactgagtcaatgCggaatctggcctctgactca	9	12	8	12	1	5	2	3	2	2	0	5	3	5	3	1	2	2	0	1	2	3	2	rs146444027	by1000genomes	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:54872627C>T	uc002qfk.1	-	3	570	c.260G>A	c.(259-261)CGC>CAC	p.R87H	LAIR1_uc002qfl.1_Missense_Mutation_p.R87H|LAIR1_uc002qfm.1_Missense_Mutation_p.R86H|LAIR1_uc002qfn.1_Missense_Mutation_p.R86H|LAIR1_uc010yex.1_Missense_Mutation_p.R80H|LAIR1_uc002qfo.2_Missense_Mutation_p.R69H	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like	87	Extracellular (Potential).|Ig-like C2-type.					integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		TGAGTCAATGCGGAATCTGGC	0.498													39	178					0	0	1	0	0		T	54872627	T	T	54872627	3	4	199	1	0	0	0	0	1	0	0	0	8618	768	27	1	635	1	LAIR1	19	54872627	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	791801	54872627	4256356	1174	98566											
KIR3DL1	3811	broad.mit.edu	37	chr19	55377854	55377854	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	taatggaccaagagcctgcgGgggacagaacagtgaatagg	14	5	15	7	1	0	3	0	1	0	2	0	5	0	5	2	4	3	0	2	4	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:55377854G>T	uc002qhl.3	+	8	1198	c.1135G>T	c.(1135-1137)GGG>TGG	p.G379W	KIR3DL2_uc010esh.2_Missense_Mutation_p.G362W|KIR3DL2_uc002qho.3_Missense_Mutation_p.G379W			P43629	KI3L1_HUMAN	SubName: Full=KIR3DS1;	379	Cytoplasmic (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		AGAGCCTGCGGGGGACAGAAC	0.542													24	98					1.17739e-12	1.2969e-12	1	1	0		T	55377854	T	T	55377854	3	4	199	1	0	0	0	0	1	0	0	0	8336	1232	43	5		5	KIR3DL1	19	55377854	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	505227	55377854	3751129	1175	98567											
RDH13	112724	broad.mit.edu	37	chr19	55570558	55570558	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccaaggcggtctgcttccCgatgcctgtgttggcacccg	4	11	12	14	3	1	0	0	0	1	0	3	1	3	0	4	3	2	3	4	3	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:55570558C>T	uc002qio.3	-	2	336	c.151G>A	c.(151-153)GGG>AGG	p.G51R	RDH13_uc002qip.2_5'UTR|RDH13_uc010yfq.1_Intron	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	51	NAD or NADP (By similarity).						binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	GTCTGCTTCCCGATGCCTGTG	0.478													4	6					0	0	1	0	0		T	55570558	T	T	55570558	3	4	199	1	0	0	0	0	1	0	0	0	13217	652	23	1	868	1	RDH13	19	55570558	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	192704	55570558	3558425	1176	98568											
PPP1R12C	54776	broad.mit.edu	37	chr19	55607662	55607662	+	Silent	SNP	C	T	T	0	0	0	1	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	ctgctagagggcgcttggggCtcctggccccggctctggga	3	8	17	13	2	1	1	0	0	1	1	2	2	2	2	3	6	1	4	3	6	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:55607662C>T	uc002qix.2	-	7	1009	c.993G>A	c.(991-993)GAG>GAA	p.E331E	PPP1R12C_uc010yfs.1_Silent_p.E257E|PPP1R12C_uc002qiy.2_Silent_p.E331E	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	331						cytoplasm				ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)		GCGCTTGGGGCTCCTGGCCCC	0.657													12	125					0	0	1	0	0		T	55607662	T	T	55607662	2	4	199	1	0	0	0	0	0	0	0	1	12378	796	28	2		2	PPP1R12C	19	55607662	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	37104	55607662	3521321	1177	98569											
NLRP13	126204	broad.mit.edu	37	chr19	56416401	56416401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattaaatcccaggcacaatCgagttacgtgttggatgctg	11	11	11	8	2	0	0	0	0	0	0	2	3	1	1	1	2	2	4	1	2	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:56416401C>T	uc010ygg.1	-	8	2550	c.2525G>A	c.(2524-2526)CGA>CAA	p.R842Q		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	842	LRR 3.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		CAGGCACAATCGAGTTACGTG	0.522													19	58					0	0	1	0	0		T	56416401	T	T	56416401	3	4	199	1	0	0	0	0	1	0	0	0	10494	884	31	1	620	1	NLRP13	19	56416401	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	808739	56416401	2712582	1178	98570											
NLRP8	126205	broad.mit.edu	37	chr19	56487605	56487605	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taagttttaatagcctgaagGatgatggggtgatcctgctg	10	13	13	5	0	0	3	0	3	0	0	1	4	1	4	2	3	2	2	2	3	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:56487605G>T	uc002qmh.2	+	8	2883	c.2812G>T	c.(2812-2814)GAT>TAT	p.D938Y	NLRP8_uc010etg.2_Missense_Mutation_p.D919Y	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	938	LRR 5.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		TAGCCTGAAGGATGATGGGGT	0.463													15	55					1.45105e-14	1.6068e-14	1	1	0		T	56487605	T	T	56487605	3	4	199	1	0	0	0	0	1	0	0	0	10502	1174	41	5	2842	5	NLRP8	19	56487605	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	71204	56487605	2641378	1179	98571											
ZNF583	147949	broad.mit.edu	37	chr19	56935008	56935008	+	Silent	SNP	T	C	C	0	1	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	gagagacctttcgaatgtatTgaatgtggaaaggcctttag	12	12	12	5	1	0	2	0	1	0	1	1	6	0	3	2	2	0	1	2	2	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:56935008T>C	uc010ygl.1	+	5	1146	c.981T>C	c.(979-981)ATT>ATC	p.I327I	ZNF583_uc002qnc.2_Silent_p.I327I|ZNF583_uc010ygm.1_Silent_p.I327I	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	327	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		TCGAATGTATTGAATGTGGAA	0.408													24	78					0	0	1	0	0		C	56935008	C	C	56935008	2	2	199	1	0	0	0	0	0	0	0	1	18040	1800	63	3		3	ZNF583	19	56935008	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	447403	56935008	2193975	1180	98572											
ZNF71	58491	broad.mit.edu	37	chr19	57133365	57133365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagcacgagcggatccacaCgggggagaagccctacgcgt	10	3	14	14	5	0	1	0	0	0	1	1	4	1	2	3	3	4	1	3	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:57133365C>T	uc002qnm.3	+	3	948	c.710C>T	c.(709-711)ACG>ATG	p.T237M		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	237						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		CGGATCCACACGGGGGAGAAG	0.652													12	42					0	0	1	0	0		T	57133365	T	T	57133365	3	4	199	1	0	0	0	0	1	0	0	0	18139	536	19	1	712	1	ZNF71	19	57133365	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	198357	57133365	1995618	1181	98573											
ZNF8	7554	broad.mit.edu	37	chr19	58805558	58805558	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggaagggaaggattcccGacagatgctccttatcccac	11	7	11	12	2	0	1	0	0	0	1	3	5	3	4	3	3	1	1	3	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:58805558G>A	uc002qry.1	+	4	514	c.384G>A	c.(382-384)CCG>CCA	p.P128P	ZNF8_uc002qrz.2_RNA	NM_021089	NP_066575	P17098	ZNF8_HUMAN	zinc finger protein 8	128					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(17;6.46e-05)|Lung NSC(17;0.0233)|all_neural(62;0.0381)|all_epithelial(17;0.0427)|all_lung(17;0.057)|Ovarian(87;0.17)|Colorectal(82;0.227)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.00619)		AAGGATTCCCGACAGATGCTC	0.537													7	33					0	0	1	0	0		A	58805558	A	A	58805558	2	1	199	1	0	0	0	0	0	0	0	1	18192	1045	37	1		1	ZNF8	19	58805558	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1672193	58805558	323425	1182	98574											
ZNF132	7691	broad.mit.edu	37	chr19	58946494	58946494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttcttggtggaaggatctGcattagggatcctgacctgt	7	14	12	8	0	2	1	0	1	2	0	3	4	3	4	2	4	1	1	2	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:58946494G>A	uc002qst.3	-	3	718	c.317C>T	c.(316-318)GCA>GTA	p.A106V		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	106	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		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)		GGAAGGATCTGCATTAGGGAT	0.488													34	128					0	0	1	0	0		A	58946494	A	A	58946494	3	1	199	1	0	0	0	0	1	0	0	0	17747	1319	46	2	1807	2	ZNF132	19	58946494	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	140936	58946494	182489	1183	98575											
TRIM28	10155	broad.mit.edu	37	chr19	59060698	59060698	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccctcatcaccaccttgcagGaggaggagacggaggctgcc	9	5	13	14	1	2	1	2	0	0	1	2	5	2	4	4	5	2	2	4	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr19:59060698G>C	uc002qtg.1	+	13	1952	c.1663G>C	c.(1663-1665)GAG>CAG	p.E555Q	TRIM28_uc010eut.1_Missense_Mutation_p.E473Q|TRIM28_uc002qth.1_Missense_Mutation_p.E170Q	NM_005762	NP_005753	Q13263	TIF1B_HUMAN	tripartite motif-containing 28 protein	555					epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	nucleoplasm	chromo shadow domain binding|ligase activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		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)		CACCTTGCAGGAGGAGGAGAC	0.572													13	204					0	0	1	0	0		C	59060698	C	C	59060698	3	2	199	1	0	0	0	0	1	0	0	0	16528	1188	41	5	1713	5	TRIM28	19	59060698	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	114204	59060698	68285	1184	98576											
TRIB3	57761	broad.mit.edu	37	chr20	368740	368740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacaacttagataccgagcGtcccgtccagaaacgagctc	12	7	9	13	4	0	3	0	1	0	2	3	5	2	3	3	0	5	1	3	0	4	2	rs142361535	byFrequency	TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:368740G>A	uc002wdm.2	+	2	592	c.86G>A	c.(85-87)CGT>CAT	p.R29H	TRIB3_uc002wdn.2_Missense_Mutation_p.R56H	NM_021158	NP_066981	Q96RU7	TRIB3_HUMAN	tribbles 3	29					apoptosis|cellular lipid metabolic process|insulin receptor signaling pathway|negative regulation of fat cell differentiation|negative regulation of fatty acid biosynthetic process|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of protein binding|positive regulation of ubiquitin-protein ligase activity|regulation of glucose transport|regulation of MAP kinase activity|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	ATP binding|protein kinase activity|protein kinase binding|protein kinase inhibitor activity|transcription corepressor activity|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			central_nervous_system(2)	2		all_epithelial(17;0.165)|Lung NSC(37;0.191)|Breast(17;0.231)		Colorectal(46;0.101)|COAD - Colon adenocarcinoma(99;0.112)		GATACCGAGCGTCCCGTCCAG	0.607													17	85					0	0	1	0	0		A	368740	A	A	368740	3	1	199	1	0	0	0	0	1	0	0	0	16510	1145	40	1	88	1	TRIB3	20	368740	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		368740	62656780	1185	98577											
PTPRA	5786	broad.mit.edu	37	chr20	3003439	3003439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctttgtgagccggatccGggcacagcgctgccagatgg	6	8	16	11	3	0	2	0	1	0	1	1	3	1	3	3	4	3	3	3	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:3003439G>A	uc010zqd.1	+	15	1783	c.1466G>A	c.(1465-1467)CGG>CAG	p.R489Q	PTPRA_uc002whj.2_Missense_Mutation_p.R478Q|PTPRA_uc002whk.2_Missense_Mutation_p.R469Q|PTPRA_uc002whl.2_Missense_Mutation_p.R469Q|PTPRA_uc002whm.2_Missense_Mutation_p.R245Q|PTPRA_uc002whn.2_Missense_Mutation_p.R469Q|PTPRA_uc002who.2_Missense_Mutation_p.R141Q	NM_002836	NP_002827	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	478	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			upper_aerodigestive_tract(1)	1						AGCCGGATCCGGGCACAGCGC	0.547													15	45					0	0	1	0	0		A	3003439	A	A	3003439	3	1	199	1	0	0	0	0	1	0	0	0	12820	1116	39	1	1483	1	PTPRA	20	3003439	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2634699	3003439	60022081	1186	98578											
SLC4A11	83959	broad.mit.edu	37	chr20	3209181	3209181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctccttgagcagcagggccaCgcgctggacgagctggttgc	6	7	15	13	3	0	1	0	1	0	0	1	3	1	2	2	3	4	5	2	3	0	2	rs145325200		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:3209181C>T	uc002wig.2	-	17	2461	c.2413G>A	c.(2413-2415)GTG>ATG	p.V805M	SLC4A11_uc010zqe.1_Missense_Mutation_p.V832M|SLC4A11_uc002wih.2_RNA|SLC4A11_uc010zqf.1_Missense_Mutation_p.V789M	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	805	Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						AGCAGGGCCACGCGCTGGACG	0.687													7	33					0	0	1	0	0		T	3209181	T	T	3209181	3	4	199	1	0	0	0	0	1	0	0	0	14677	536	19	1	274	1	SLC4A11	20	3209181	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	205742	3209181	59816339	1187	98579											
SIGLEC1	6614	broad.mit.edu	37	chr20	3669825	3669825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgtggtctctttctgaaaagCcatctccaccgaattctcgc	8	12	7	14	3	4	1	0	1	4	0	7	2	4	1	3	1	1	0	3	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:3669825C>T	uc002wja.2	-	20	5047	c.5047G>A	c.(5047-5049)GCT>ACT	p.A1683T	SIGLEC1_uc002wjb.1_3'UTR|SIGLEC1_uc002wiz.3_Intron	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1683	Cytoplasmic (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						TTCTGAAAAGCCATCTCCACC	0.557													26	156					0	0	1	0	0		T	3669825	T	T	3669825	3	4	199	1	0	0	0	0	1	0	0	0	14330	739	26	2	90	2	SIGLEC1	20	3669825	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	460644	3669825	59355695	1188	98580											
HSPA12B	116835	broad.mit.edu	37	chr20	3725645	3725645	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccacagctttggctacacCgcccgcgattactaccatga	9	10	7	15	3	0	1	0	1	0	0	1	2	1	1	4	1	4	2	4	1	3	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:3725645C>T	uc002wjd.2	+	5	466	c.363C>T	c.(361-363)ACC>ACT	p.T121T	HSPA12B_uc010zqi.1_Silent_p.T121T|HSPA12B_uc002wje.2_Silent_p.T34T|HSPA12B_uc010zqj.1_5'UTR	NM_052970	NP_443202	Q96MM6	HS12B_HUMAN	heat shock 70kD protein 12B	121							ATP binding				0						TTGGCTACACCGCCCGCGATT	0.632													57	161					0	0	1	0	0		T	3725645	T	T	3725645	2	4	199	1	0	0	0	0	0	0	0	1	7421	639	23	1		1	HSPA12B	20	3725645	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	55820	3725645	59299875	1189	98581											
CENPB	1059	broad.mit.edu	37	chr20	3765886	3765886	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcaccctcttcctcctcCtcttcttcctcctcctcctc	1	16	0	24	0	4	0	1	0	3	0	12	0	11	0	9	0	0	0	9	0	0	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:3765886C>T	uc002wjk.2	-	1	1452	c.1245G>A	c.(1243-1245)GAG>GAA	p.E415E	CDC25B_uc010zqk.1_5'Flank|CDC25B_uc010zql.1_5'Flank|CDC25B_uc010zqm.1_5'Flank	NM_001810	NP_001801	P07199	CENPB_HUMAN	centromere protein B	415	Glu-rich (acidic).				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|satellite DNA binding				0						cttcctcctcctcttcttcct	0.189													2	5					0	0	1	0	0		T	3765886	T	T	3765886	2	4	199	1	0	0	0	0	0	0	0	1	3230	680	24	4		4	CENPB	20	3765886	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	40241	3765886	59259634	1190	98582											
MCM8	84515	broad.mit.edu	37	chr20	5963723	5963723	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaggctggtgtggtttgtAgccttcctgcaagaacttcc	7	13	11	10	0	0	1	0	0	0	1	2	1	2	1	3	3	3	4	3	3	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:5963723A>G	uc002wmi.2	+	14	2022	c.1645A>G	c.(1645-1647)AGC>GGC	p.S549G	MCM8_uc002wmj.2_Missense_Mutation_p.S533G|MCM8_uc002wmk.2_Missense_Mutation_p.S589G|MCM8_uc002wml.2_Missense_Mutation_p.S549G|MCM8_uc010gbp.2_Missense_Mutation_p.S502G|MCM8_uc002wmm.2_Missense_Mutation_p.S87G	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	549	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TGTGGTTTGTAGCCTTCCTGC	0.408													14	64					0	0	1	0	0		G	5963723	G	G	5963723	3	3	199	1	0	0	0	0	1	0	0	0	9411	420	15	3	1695	3	MCM8	20	5963723	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	2197837	5963723	57061797	1191	98583											
TMX4	56255	broad.mit.edu	37	chr20	7963217	7963217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcatctttttcctcctccGcatcctgcaactgttcagct	7	15	4	15	1	3	0	2	0	1	0	7	0	7	0	4	0	3	4	4	0	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:7963217G>A	uc002wmx.1	-	8	864	c.731C>T	c.(730-732)GCG>GTG	p.A244V		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	244	Glu-rich.				cell redox homeostasis|electron transport chain|transport	integral to membrane					0						ttcctcctcCGCATCCTGCAA	0.229													10	35					0	0	1	0	0		A	7963217	A	A	7963217	3	1	199	1	0	0	0	0	1	0	0	0	16294	1087	38	1	322	1	TMX4	20	7963217	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1999494	7963217	55062303	1192	98584											
CSRP2BP	57325	broad.mit.edu	37	chr20	18143375	18143375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgctgttgccatgactcCggaagctcggagactgaaac	9	8	13	11	3	0	3	0	2	0	1	2	5	1	4	2	3	4	3	2	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:18143375C>T	uc002wqj.2	+	7	2079	c.1457C>T	c.(1456-1458)CCG>CTG	p.P486L	CSRP2BP_uc002wqk.2_Missense_Mutation_p.P358L|CSRP2BP_uc010zru.1_Missense_Mutation_p.P357L	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	486					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						GCCATGACTCCGGAAGCTCGG	0.498													27	70					0	0	1	0	0		T	18143375	T	T	18143375	3	4	199	1	0	0	0	0	1	0	0	0	3971	652	23	1	1479	1	CSRP2BP	20	18143375	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	10180158	18143375	44882145	1193	98585											
CSRP2BP	57325	broad.mit.edu	37	chr20	18143544	18143544	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccagctggacaagccacGtacagaaccacctgtcagga	12	6	9	14	1	1	1	1	0	0	1	2	3	2	3	4	2	4	2	4	2	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:18143544G>A	uc002wqj.2	+	7	2248	c.1626G>A	c.(1624-1626)ACG>ACA	p.T542T	CSRP2BP_uc002wqk.2_Silent_p.T414T|CSRP2BP_uc010zru.1_Silent_p.T413T	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	542					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						GACAAGCCACGTACAGAACCA	0.498													6	42					0	0	1	0	0		A	18143544	A	A	18143544	2	1	199	1	0	0	0	0	0	0	0	1	3971	1132	40	1		1	CSRP2BP	20	18143544	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	169	18143544	44881976	1194	98586											
PAX1	5075	broad.mit.edu	37	chr20	21687221	21687221	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cggcagctccgcgtatcccaCggctgcgtgagcaagatcct	7	7	12	15	5	0	2	0	1	0	1	3	2	3	2	3	2	3	5	3	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:21687221C>T	uc002wsj.2	+	2	486	c.432C>T	c.(430-432)CAC>CAT	p.H144H	PAX1_uc010zsl.1_Silent_p.H144H|PAX1_uc010zsm.1_Silent_p.H120H	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	144	Paired.				regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						GCGTATCCCACGGCTGCGTGA	0.687													6	54					0	0	1	0	0		T	21687221	T	T	21687221	2	4	199	1	0	0	0	0	0	0	0	1	11497	535	19	1		1	PAX1	20	21687221	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3543677	21687221	41338299	1195	98587											
ACSS1	84532	broad.mit.edu	37	chr20	24988454	24988454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtagacactcaggatctctgCgatgatgctggggtcctcca	8	10	12	11	1	2	2	1	1	1	1	5	4	4	3	2	3	2	2	2	3	1	1	rs143890712		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:24988454C>T	uc002wub.2	-	14	2892	c.2014G>A	c.(2014-2016)GCA>ACA	p.A672T	ACSS1_uc002wuc.2_Missense_Mutation_p.A670T|ACSS1_uc010gdc.2_Missense_Mutation_p.A467T|ACSS1_uc002wud.1_RNA|ACSS1_uc002wua.2_Missense_Mutation_p.A589T	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	672					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	AGGATCTCTGCGATGATGCTG	0.602													23	95					0	0	1	0	0		T	24988454	T	T	24988454	3	4	199	1	0	0	0	0	1	0	0	0	188	768	27	1	59	1	ACSS1	20	24988454	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3301233	24988454	38037066	1196	98588											
ACSS1	84532	broad.mit.edu	37	chr20	25004177	25004177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaccaggacatgctgcacGgtggggcagtgcttcacagc	8	6	14	13	1	1	0	1	0	0	0	1	1	1	1	2	4	4	4	2	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:25004177G>A	uc002wub.2	-	4	1610	c.732C>T	c.(730-732)ACC>ACT	p.T244T	ACSS1_uc002wuc.2_Silent_p.T244T|ACSS1_uc010gdc.2_Intron|ACSS1_uc002wud.1_5'Flank|ACSS1_uc002wua.2_Silent_p.T161T	NM_032501	NP_115890	Q9NUB1	ACS2L_HUMAN	acyl-CoA synthetase short-chain family member 1	244					acetyl-CoA biosynthetic process|ethanol oxidation|xenobiotic metabolic process	mitochondrial matrix	acetate-CoA ligase activity|AMP binding|ATP binding|protein binding			ovary(1)|skin(1)	2					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CATGCTGCACGGTGGGGCAGT	0.582													10	43					0	0	1	0	0		A	25004177	A	A	25004177	2	1	199	1	0	0	0	0	0	0	0	1	188	1103	39	1		1	ACSS1	20	25004177	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	15723	25004177	38021343	1197	98589											
NINL	22981	broad.mit.edu	37	chr20	25439088	25439088	+	Silent	SNP	A	G	G	1	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	aggcgatgcagctcggccacAcggtcctggggcaccagccg	7	4	15	15	4	0	0	0	0	0	0	2	1	1	0	4	5	3	3	4	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:25439088A>G	uc002wux.1	-	22	3848	c.3774T>C	c.(3772-3774)CGT>CGC	p.R1258R	NINL_uc010gdn.1_Silent_p.R909R|NINL_uc002wuw.1_Silent_p.R49R	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1258	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						GCTCGGCCACACGGTCCTGGG	0.677													2	5					0	0	1	0	0		G	25439088	G	G	25439088	2	3	199	1	0	0	0	0	0	0	0	1	10439	146	6	3		3	NINL	20	25439088	Silent	SNP	A	TCGA-HF-7132-01A-11D-2053-08	434911	25439088	37586432	1198	98590											
NECAB3	63941	broad.mit.edu	37	chr20	32248127	32248127	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagcgagctctgaagggcTtgcagctggctcaccgtctc	6	9	12	14	2	3	1	1	1	2	0	5	2	4	1	2	2	4	5	2	2	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:32248127T>C	uc002wzn.3	-	6	568	c.462A>G	c.(460-462)CAA>CAG	p.Q154Q	NECAB3_uc002wzl.2_5'UTR|NECAB3_uc002wzm.3_Silent_p.Q154Q|NECAB3_uc002wzo.3_RNA|NECAB3_uc002wzp.3_Silent_p.Q105Q|NECAB3_uc002wzq.3_Silent_p.Q154Q|NECAB3_uc002wzr.3_RNA|NECAB3_uc010geo.2_Silent_p.Q154Q|C20orf144_uc002wzs.1_5'Flank	NM_031232	NP_112509	Q96P71	NECA3_HUMAN	N-terminal EF-hand calcium binding protein 3	154					antibiotic biosynthetic process|protein metabolic process|protein secretion|regulation of amyloid precursor protein biosynthetic process	endoplasmic reticulum membrane|Golgi cis cisterna|nucleus	calcium ion binding|oxidoreductase activity|protein binding			lung(1)	1						TCTGAAGGGCTTGCAGCTGGC	0.642													12	49					0	0	1	0	0		C	32248127	C	C	32248127	2	2	199	1	0	0	0	0	0	0	0	1	10325	1606	56	3		3	NECAB3	20	32248127	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	6809039	32248127	30777393	1199	98591											
PIGU	128869	broad.mit.edu	37	chr20	33245009	33245009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatactgctccagaatacGgagatactcccaagtccaac	15	7	7	12	1	0	2	0	0	0	2	3	4	3	2	3	1	5	1	3	1	7	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:33245009G>A	uc002xas.2	-	2	370	c.170C>T	c.(169-171)CCG>CTG	p.P57L	PIGU_uc010zul.1_Missense_Mutation_p.P57L|PIGU_uc002xat.2_Missense_Mutation_p.P57L|PIGU_uc010gev.1_RNA	NM_080476	NP_536724	Q9H490	PIGU_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	57					attachment of GPI anchor to protein|C-terminal protein lipidation|regulation of JAK-STAT cascade	GPI-anchor transamidase complex|plasma membrane					0						TCCAGAATACGGAGATACTCC	0.393													5	50					0	0	1	0	0		A	33245009	A	A	33245009	3	1	199	1	0	0	0	0	1	0	0	0	11919	1116	39	1	1181	1	PIGU	20	33245009	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	996882	33245009	29780511	1200	98592											
NCOA6	23054	broad.mit.edu	37	chr20	33328372	33328372	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctgctgaggcagtgccCgggcccacagggctagaggt	6	6	17	12	1	0	2	0	1	0	1	1	2	1	2	3	5	2	3	3	5	1	1	rs141863711		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:33328372C>T	uc002xav.2	-	12	8259	c.5688G>A	c.(5686-5688)CCG>CCA	p.P1896P	NCOA6_uc002xaw.2_Silent_p.P1896P	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1896	EP300/CRSP3-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						AGGCAGTGCCCGGGCCCACAG	0.602													6	26					0	0	1	0	0		T	33328372	T	T	33328372	2	4	199	1	0	0	0	0	0	0	0	1	10252	639	23	1		1	NCOA6	20	33328372	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	83363	33328372	29697148	1201	98593											
TRPC4AP	26133	broad.mit.edu	37	chr20	33593526	33593526	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tccacctggttttcaaatcgGtccagggacagagtgacaca	11	9	10	11	1	1	2	1	1	0	1	4	3	3	3	3	3	0	1	3	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:33593526G>A	uc002xbk.2	-	16	1942	c.1908C>T	c.(1906-1908)GAC>GAT	p.D636D	TRPC4AP_uc002xbj.2_RNA|TRPC4AP_uc010zuq.1_Silent_p.D227D|TRPC4AP_uc002xbl.2_Silent_p.D628D|TRPC4AP_uc010zur.1_Silent_p.D597D	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	636					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			TTTCAAATCGGTCCAGGGACA	0.507													20	90					0	0	1	0	0		A	33593526	A	A	33593526	2	1	199	1	0	0	0	0	0	0	0	1	16607	1252	44	4		4	TRPC4AP	20	33593526	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	265154	33593526	29431994	1202	98594											
RBM12	10137	broad.mit.edu	37	chr20	34241632	34241632	+	Missense_Mutation	SNP	T	C	C	0	1	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	agactttggcagagttgacaTccccctctggatttagtatc	9	13	9	10	0	1	3	0	1	1	2	3	4	2	4	2	2	0	3	2	2	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:34241632T>C	uc002xdq.2	-	3	1845	c.1613A>G	c.(1612-1614)GAT>GGT	p.D538G	CPNE1_uc010zvj.1_5'UTR|CPNE1_uc002xde.2_Intron|CPNE1_uc002xdf.2_Intron|CPNE1_uc002xdg.2_Intron|CPNE1_uc010gfi.2_Intron|CPNE1_uc010gfj.2_Intron|CPNE1_uc002xdh.2_Intron|CPNE1_uc002xdi.2_Intron|CPNE1_uc002xdj.2_Intron|CPNE1_uc002xdk.2_Intron|CPNE1_uc002xdl.2_Intron|CPNE1_uc002xdm.2_Intron|CPNE1_uc010gfk.1_Intron|CPNE1_uc002xdn.1_Intron|CPNE1_uc002xdo.1_Intron|CPNE1_uc002xdp.1_Intron|RBM12_uc002xdr.2_Missense_Mutation_p.D538G|RBM12_uc002xds.2_Missense_Mutation_p.D538G	NM_152838	NP_690051	Q9NTZ6	RBM12_HUMAN	RNA binding motif protein 12	538						nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3	Lung NSC(9;0.00608)|all_lung(11;0.00918)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			AGAGTTGACATCCCCCTCTGG	0.393													55	276					0	0	1	0	0		C	34241632	C	C	34241632	3	2	199	1	0	0	0	0	1	0	0	0	13138	1435	50	3	1189	3	RBM12	20	34241632	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	648106	34241632	28783888	1203	98595											
RBL1	5933	broad.mit.edu	37	chr20	35672624	35672624	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgtcccttgagagcccCtcttctgagcggatcaccac	8	9	8	16	1	3	2	1	2	2	1	4	4	4	3	5	1	2	0	5	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:35672624C>A	uc002xgi.2	-	13	1714	c.1635G>T	c.(1633-1635)GAG>GAT	p.E545D	RBL1_uc010zvt.1_RNA|RBL1_uc002xgj.1_Missense_Mutation_p.E545D	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a	545	Domain A.|Pocket; binds T and E1A.				cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				TTGAGAGCCCCTCTTCTGAGC	0.483													19	51					2.44723e-14	2.70785e-14	1	1	0		A	35672624	A	A	35672624	3	1	199	1	0	0	0	0	1	0	0	0	13134	680	24	5	1620	5	RBL1	20	35672624	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1430992	35672624	27352896	1204	98596											
TGM2	7052	broad.mit.edu	37	chr20	36766620	36766620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagagcaggaggcggcagaCgtactcctcagcggtgttgt	9	7	15	10	3	1	2	1	0	0	2	2	3	2	3	1	4	3	4	1	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:36766620C>T	uc002xhr.2	-	10	1610	c.1510G>A	c.(1510-1512)GTC>ATC	p.V504I	TGM2_uc010zvx.1_Missense_Mutation_p.V423I|TGM2_uc010zvy.1_Missense_Mutation_p.V444I|TGM2_uc002xhs.1_Missense_Mutation_p.V480I|TGM2_uc002xht.2_Missense_Mutation_p.V504I	NM_004613	NP_004604	P21980	TGM2_HUMAN	transglutaminase 2 isoform a	504					apoptotic cell clearance|peptide cross-linking|positive regulation of cell adhesion		acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(1)|lung(1)|ovary(1)	3		Myeloproliferative disorder(115;0.00878)			L-Glutamine(DB00130)	AGGCGGCAGACGTACTCCTCA	0.592													3	13					0	0	1	0	0		T	36766620	T	T	36766620	3	4	199	1	0	0	0	0	1	0	0	0	15855	536	19	1	601	1	TGM2	20	36766620	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1093996	36766620	26258900	1205	98597											
PPP1R16B	26051	broad.mit.edu	37	chr20	37547109	37547109	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accccttccttagcacacacCtgggcagcagcatggccagg	9	6	10	16	0	0	0	0	0	0	0	1	0	1	0	5	3	3	4	5	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:37547109C>A	uc002xje.2	+	11	1693	c.1504C>A	c.(1504-1506)CTG>ATG	p.L502M	PPP1R16B_uc010ggc.2_Missense_Mutation_p.L460M	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	502					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TAGCACACACCTGGGCAGCAG	0.622													7	52					2.17888e-05	2.27193e-05	1	1	0		A	37547109	A	A	37547109	3	1	199	1	0	0	0	0	1	0	0	0	12388	680	24	5	1542	5	PPP1R16B	20	37547109	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	780489	37547109	25478411	1206	98598											
MAFB	9935	broad.mit.edu	37	chr20	39317281	39317281	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcggtcgggctgaagctgggCgacgagggcacggagctaca	8	5	18	10	5	0	1	0	1	0	0	2	4	0	2	0	5	3	4	0	5	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:39317281C>T	uc002xji.2	-	1	596	c.210G>A	c.(208-210)TCG>TCA	p.S70S		NM_005461	NP_005452	Q9Y5Q3	MAFB_HUMAN	transcription factor MAFB	70					negative regulation of erythrocyte differentiation		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		Myeloproliferative disorder(115;0.00878)				TGAAGCTGGGCGACGAGGGCA	0.672			T	IGH@	MM								14	82					0	0	1	0	0		T	39317281	T	T	39317281	2	4	199	1	0	0	0	0	0	0	0	1	9176	755	27	1		1	MAFB	20	39317281	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1770172	39317281	23708239	1207	98599											
RIMS4	140730	broad.mit.edu	37	chr20	43384955	43384955	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagccacacccatgaactgCttccgctccatccgcccgta	8	7	7	19	4	0	1	0	1	0	0	3	2	3	1	6	0	3	3	6	0	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:43384955C>A	uc002xms.2	-	6	630	c.630G>T	c.(628-630)AAG>AAT	p.K210N	RIMS4_uc010ggu.2_Missense_Mutation_p.K211N	NM_182970	NP_892015	Q9H426	RIMS4_HUMAN	regulating synaptic membrane exocytosis 4	210	C2.				exocytosis|neurotransmitter transport	cell junction|synapse				ovary(4)|central_nervous_system(1)	5		Myeloproliferative disorder(115;0.0122)				CCATGAACTGCTTCCGCTCCA	0.622													11	24					2.23348e-06	2.36249e-06	1	1	0		A	43384955	A	A	43384955	3	1	199	1	0	0	0	0	1	0	0	0	13395	796	28	5	183	5	RIMS4	20	43384955	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4067674	43384955	19640565	1208	98600											
YWHAB	7529	broad.mit.edu	37	chr20	43530295	43530295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggggcatgaactctccaacGaagagagaaatctgctctct	13	8	10	10	1	3	3	0	1	3	2	5	5	3	3	1	2	3	2	1	2	4	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:43530295G>A	uc002xmt.2	+	3	403	c.121G>A	c.(121-123)GAA>AAA	p.E41K	YWHAB_uc002xmu.2_Missense_Mutation_p.E41K	NM_003404	NP_003395	P31946	1433B_HUMAN	tyrosine 3-monooxygenase/tryptophan	41					activation of MAPKK activity|activation of pro-apoptotic gene products|axon guidance|cytoplasmic sequestering of protein|epidermal growth factor receptor signaling pathway|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|mRNA metabolic process|negative regulation of protein dephosphorylation|nerve growth factor receptor signaling pathway|Ras protein signal transduction	centrosome|cytosol|melanosome|perinuclear region of cytoplasm	histone deacetylase binding|phosphoserine binding|protein domain specific binding			kidney(2)|ovary(1)|breast(1)	4		Myeloproliferative disorder(115;0.0122)				ACTCTCCAACGAAGAGAGAAA	0.527													12	57					0	0	1	0	0		A	43530295	A	A	43530295	3	1	199	1	0	0	0	0	1	0	0	0	17527	1059	37	1	123	1	YWHAB	20	43530295	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	145340	43530295	19495225	1209	98601											
MATN4	8785	broad.mit.edu	37	chr20	43933003	43933003	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgcgcgctgcacccccaccgCgtaaatttcaatgccgcggg	7	6	11	17	7	1	0	1	0	0	0	1	0	1	0	4	1	2	3	4	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:43933003C>T	uc002xnn.2	-	3	695	c.508G>A	c.(508-510)GCG>ACG	p.A170T	MATN4_uc002xno.2_Missense_Mutation_p.A170T|MATN4_uc002xnp.2_Missense_Mutation_p.A170T|MATN4_uc010zwr.1_Missense_Mutation_p.A118T|MATN4_uc002xnr.1_Missense_Mutation_p.A170T|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	170	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				ACCCCCACCGCGTAAATTTCA	0.706													3	10					0	0	1	0	0		T	43933003	T	T	43933003	3	4	199	1	0	0	0	0	1	0	0	0	9354	768	27	1	1269	1	MATN4	20	43933003	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	402708	43933003	19092517	1210	98602											
RBPJL	11317	broad.mit.edu	37	chr20	43945395	43945395	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcgactggcgctggctgcgCgctcccatcacaatccccat	7	7	10	17	4	1	0	1	0	0	0	3	1	3	0	3	2	2	3	3	2	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:43945395C>T	uc002xns.2	+	12	1422	c.1350C>T	c.(1348-1350)CGC>CGT	p.R450R	RBPJL_uc002xnt.2_Missense_Mutation_p.R454C	NM_014276	NP_055091	Q9UBG7	RBPJL_HUMAN	recombining binding protein L	450	IPT/TIG.				signal transduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GCTGGCTGCGCGCTCCCATCA	0.697													4	16					0	0	1	0	0		T	43945395	T	T	43945395	2	4	199	1	0	0	0	0	0	0	0	1	13187	755	27	1		1	RBPJL	20	43945395	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	12392	43945395	19080125	1211	98603											
MMP9	4318	broad.mit.edu	37	chr20	44642001	44642001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccactgtccacccctcagagCgccccacagctggccccaca	8	4	7	22	1	1	1	1	0	0	1	2	1	2	1	8	1	2	1	8	1	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:44642001C>T	uc002xqz.2	+	9	1457	c.1438C>T	c.(1438-1440)CGC>TGC	p.R480C		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	480					collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CCCCTCAGAGCgccccacagc	0.463											OREG0025990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	47					0	0	1	0	0		T	44642001	T	T	44642001	3	4	199	1	0	0	0	0	1	0	0	0	9687	768	27	1	1472	1	MMP9	20	44642001	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	696606	44642001	18383519	1212	98604											
ZMYND8	23613	broad.mit.edu	37	chr20	45912325	45912325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tccaacttacacaaggctcaCaaaaccagttatctcgtttt	13	12	4	12	1	2	0	1	0	1	0	4	0	3	0	2	1	3	3	2	1	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:45912325C>T	uc002xta.1	-	9	1066	c.812G>A	c.(811-813)TGT>TAT	p.C271Y	ZMYND8_uc010ghr.1_Missense_Mutation_p.C246Y|ZMYND8_uc002xst.1_Missense_Mutation_p.C246Y|ZMYND8_uc002xsu.1_Missense_Mutation_p.C271Y|ZMYND8_uc002xsv.1_Missense_Mutation_p.C246Y|ZMYND8_uc002xsw.1_Missense_Mutation_p.C23Y|ZMYND8_uc002xsx.1_Missense_Mutation_p.C23Y|ZMYND8_uc002xsy.1_Missense_Mutation_p.C246Y|ZMYND8_uc002xsz.1_Missense_Mutation_p.C208Y|ZMYND8_uc010zxy.1_Missense_Mutation_p.C298Y|ZMYND8_uc002xtb.1_Missense_Mutation_p.C291Y|ZMYND8_uc002xss.2_Missense_Mutation_p.C271Y|ZMYND8_uc010zxz.1_Missense_Mutation_p.C266Y|ZMYND8_uc002xtc.1_Missense_Mutation_p.C291Y|ZMYND8_uc002xtd.1_Missense_Mutation_p.C266Y|ZMYND8_uc002xte.1_Missense_Mutation_p.C271Y|ZMYND8_uc010zya.1_Missense_Mutation_p.C271Y|ZMYND8_uc002xtf.1_Missense_Mutation_p.C291Y|ZMYND8_uc002xtg.2_Missense_Mutation_p.C265Y|ZMYND8_uc010ghs.1_Missense_Mutation_p.C265Y	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	271							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			ACAAGGCTCACAAAACCAGTT	0.388													5	62					0	0	1	0	0		T	45912325	T	T	45912325	3	4	199	1	0	0	0	0	1	0	0	0	17736	478	17	4	2754	4	ZMYND8	20	45912325	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1270324	45912325	17113195	1213	98605											
SULF2	55959	broad.mit.edu	37	chr20	46386103	46386103	+	Frame_Shift_Del	DEL	C	-	-																															acagcacgaggctcggggggCccatcttctttttttgctga																								rs146351737		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:46386103delC	uc002xto.2	-	2	335	c.5delG	c.(4-6)GGCfs	p.G2fs	SULF2_uc002xtr.2_Frame_Shift_Del_p.G2fs|SULF2_uc002xtq.2_Frame_Shift_Del_p.G2fs|SULF2_uc010ghv.1_Frame_Shift_Del_p.G2fs	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	2					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						GCTCGGGGGGCCCATCTTCTT	0.567													4	5	---	---	---	---						.	-	46386103	-	-	46386103	7	5	199	1	0	1	0	1	0	0	0	0	15396	739	26	0	2687	0	SULF2	20	46386103	Frame_Shift_Del	DEL	C	TCGA-HF-7132-01A-11D-2053-08	473778	46386103	16639417	1214	98606											
PREX1	57580	broad.mit.edu	37	chr20	47317313	47317313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggatttccgcttgcagtagaCgagaaggttgtcgaagagga	11	9	15	6	3	0	3	0	0	0	3	2	7	1	5	1	3	1	4	1	3	3	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:47317313C>T	uc002xtw.1	-	7	918	c.895G>A	c.(895-897)GTC>ATC	p.V299I		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	299	PH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			TTGCAGTAGACGAGAAGGTTG	0.483													28	99					0	0	1	0	0		T	47317313	T	T	47317313	3	4	199	1	0	0	0	0	1	0	0	0	12498	536	19	1	4220	1	PREX1	20	47317313	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	931210	47317313	15708207	1215	98607											
STAU1	6780	broad.mit.edu	37	chr20	47732351	47732351	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtttcctgttcttggcatCtctgtactttgttggtccaa	4	18	8	11	1	2	0	0	0	2	0	5	0	4	0	3	2	1	5	3	2	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:47732351C>A	uc002xud.2	-	13	2097	c.1686G>T	c.(1684-1686)GAG>GAT	p.E562D	STAU1_uc002xua.2_Missense_Mutation_p.E481D|STAU1_uc002xub.2_Missense_Mutation_p.E487D|STAU1_uc002xuc.2_Missense_Mutation_p.E481D|STAU1_uc002xue.2_Missense_Mutation_p.E481D|STAU1_uc002xuf.2_Missense_Mutation_p.E487D|STAU1_uc002xug.2_Missense_Mutation_p.E562D	NM_017453	NP_059347	O95793	STAU1_HUMAN	staufen isoform b	562						microtubule associated complex|rough endoplasmic reticulum|stress granule	double-stranded RNA binding			ovary(4)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(12;0.000644)|Colorectal(8;0.198)			TTCTTGGCATCTCTGTACTTT	0.522													42	188					9.90819e-18	1.10636e-17	1	1	0		A	47732351	A	A	47732351	3	1	199	1	0	0	0	0	1	0	0	0	15297	912	32	5	55	5	STAU1	20	47732351	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	415038	47732351	15293169	1216	98608											
ZNFX1	57169	broad.mit.edu	37	chr20	47887640	47887640	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctctggatactggtttcGgatgtcagggatgggttcag	6	13	16	6	1	3	0	2	0	1	0	4	3	3	3	0	5	2	3	0	5	1	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:47887640G>A	uc002xui.2	-	3	956	c.709C>T	c.(709-711)CGA>TGA	p.R237*		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	237							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TACTGGTTTCGGATGTCAGGG	0.483													29	88					0	0	1	0	0		A	47887640	A	A	47887640	4	1	199	1	0	0	0	0	0	1	0	0	18230	1124	39	1	5095	1	ZNFX1	20	47887640	Nonsense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	155289	47887640	15137880	1217	98609											
DOK5	55816	broad.mit.edu	37	chr20	53208299	53208299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttggccgctaagcgccctgcGgcggtatggacgtgatacta	7	9	14	11	5	0	1	0	1	0	0	0	2	0	2	2	4	3	2	2	4	4	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:53208299G>A	uc002xwy.2	+	5	774	c.554G>A	c.(553-555)CGG>CAG	p.R185Q	DOK5_uc010gin.2_Missense_Mutation_p.R77Q|DOK5_uc002xwz.2_Missense_Mutation_p.R47Q	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	185	IRS-type PTB.						insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			AGCGCCCTGCGGCGGTATGGA	0.458													18	42					0	0	1	0	0		A	53208299	A	A	53208299	3	1	199	1	0	0	0	0	1	0	0	0	4706	1116	39	1	572	1	DOK5	20	53208299	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5320659	53208299	9817221	1218	98610											
CASS4	57091	broad.mit.edu	37	chr20	55027043	55027043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggaagaatcaaggccccacGctctccccagttccagctcc	9	6	8	18	2	2	1	1	0	1	1	5	2	4	2	6	2	1	3	6	2	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:55027043G>A	uc002xxp.2	+	6	1036	c.811G>A	c.(811-813)GCT>ACT	p.A271T	CASS4_uc002xxq.3_Missense_Mutation_p.A271T|CASS4_uc002xxr.2_Missense_Mutation_p.A271T|CASS4_uc010zze.1_Missense_Mutation_p.A217T|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	271					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						AAGGCCCCACGCTCTCCCCAG	0.507													4	49					0	0	1	0	0		A	55027043	A	A	55027043	3	1	199	1	0	0	0	0	1	0	0	0	2686	1087	38	1	829	1	CASS4	20	55027043	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1818744	55027043	7998477	1219	98611											
GNAS	2778	broad.mit.edu	37	chr20	57430058	57430058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgatgactccagcggagacGagtccgacgatgggacctcc	10	5	13	13	5	0	2	0	1	0	1	3	8	3	3	4	2	1	0	4	2	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:57430058G>A	uc002xzw.2	+	1	2023	c.1738G>A	c.(1738-1740)GAG>AAG	p.E580K	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CAGCGGAGACGAGTCCGACGA	0.662			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			4	16					0	0	1	0	0		A	57430058	A	A	57430058	3	1	199	1	0	0	0	0	1	0	0	0	6525	1059	37	1	2482	1	GNAS	20	57430058	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2403015	57430058	5595462	1220	98612											
GNAS	2778	broad.mit.edu	37	chr20	57480483	57480483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgggaggatgaaggagtgCgtgcctgctacgaacgctcc	8	8	16	9	3	0	1	0	1	0	0	1	5	1	4	2	3	5	2	2	3	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:57480483C>T	uc002xzw.2	+	6	2692	c.2407C>T	c.(2407-2409)CGT>TGT	p.R803C	GNAS_uc002xzt.2_3'UTR|GNAS_uc010gjq.2_Missense_Mutation_p.R101C|GNAS_uc002xzx.2_Missense_Mutation_p.R101C|GNAS_uc010gjr.2_Missense_Mutation_p.R51C|GNAS_uc002xzy.2_Missense_Mutation_p.R86C|GNAS_uc002yaa.2_Missense_Mutation_p.R146C|GNAS_uc010zzt.1_Missense_Mutation_p.R161C|GNAS_uc002yab.2_Intron|GNAS_uc002yad.2_Missense_Mutation_p.R51C|GNAS_uc002yae.2_Missense_Mutation_p.R85C	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	160					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			TGAAGGAGTGCGTGCCTGCTA	0.468			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			16	81					0	0	1	0	0		T	57480483	T	T	57480483	3	4	199	1	0	0	0	0	1	0	0	0	6525	768	27	1	3317	1	GNAS	20	57480483	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	50425	57480483	5545037	1221	98613											
C20orf177	63939	broad.mit.edu	37	chr20	58519319	58519319	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagaattcccattcctccTtctcccctcacacctccaga	10	10	3	18	0	2	2	1	0	1	2	7	3	6	2	7	0	0	0	7	0	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:58519319T>G	uc002yba.2	+	5	736	c.321T>G	c.(319-321)CCT>CCG	p.P107P	C20orf177_uc010zzx.1_Intron|C20orf177_uc002ybc.2_Silent_p.P107P	NM_022106	NP_071389	Q9NTX9	CT177_HUMAN	hypothetical protein LOC63939	107										ovary(2)|breast(1)	3	all_lung(29;0.00693)		BRCA - Breast invasive adenocarcinoma(7;1.22e-08)			CCATTCCTCCTTCTCCCCTCA	0.408													7	50					0	0	1	0	0		G	58519319	G	G	58519319	2	3	199	1	0	0	0	0	0	0	0	1	2099	1596	56	5		5	C20orf177	20	58519319	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1038836	58519319	4506201	1222	98614											
CDH26	60437	broad.mit.edu	37	chr20	58559743	58559743	+	Silent	SNP	T	C	C	0	1	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	gatttggatgaagaaaacacTccaaattctcaagtccttta	15	12	6	8	0	1	2	1	1	1	1	4	4	3	3	2	1	1	0	2	1	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:58559743T>C	uc002ybe.2	+	6	891	c.591T>C	c.(589-591)ACT>ACC	p.T197T	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	197	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			AAGAAAACACTCCAAATTCTC	0.368													23	64					0	0	1	0	0		C	58559743	C	C	58559743	2	2	199	1	0	0	0	0	0	0	0	1	3113	1538	54	3		3	CDH26	20	58559743	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	40424	58559743	4465777	1223	98615											
TAF4	6874	broad.mit.edu	37	chr20	60551303	60551303	+	Missense_Mutation	SNP	A	G	G																															aacaaaatatgaggtccctgAggttgacccgcgtgattctt																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:60551303A>G	uc002ybs.2	-	15	3179	c.3179T>C	c.(3178-3180)CTC>CCC	p.L1060P		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	1060					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			GAGGTCCCTGAGGTTGACCCG	0.552													18	112					0	0	1	0	0		G	60551303	G	G	60551303	3	3	199	1	0	0	0	0	1	0	0	0	15551	304	11	3	82	3	TAF4	20	60551303	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	1991560	60551303	2474217	1224	98616	187	2									
TAF4	6874	broad.mit.edu	37	chr20	60551312	60551312	+	Missense_Mutation	SNP	C	T	T																															tgaggtccctgaggttgaccCgcgtgattctttgtcgcgtg																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:60551312C>T	uc002ybs.2	-	15	3170	c.3170G>A	c.(3169-3171)CGG>CAG	p.R1057Q		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	1057					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			GAGGTTGACCCGCGTGATTCT	0.537													20	114					0	0	1	0	0		T	60551312	T	T	60551312	3	4	199	1	0	0	0	0	1	0	0	0	15551	652	23	1	91	1	TAF4	20	60551312	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	9	60551312	2474208	1225	98617	187	2									
GTPBP5	26164	broad.mit.edu	37	chr20	60772933	60772933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcaagtcaagtccctgtcGtcggtcctgtcgcggtacca	7	9	11	14	4	1	0	1	0	0	0	6	0	3	0	3	2	2	2	3	2	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:60772933G>A	uc002yce.3	+	4	416	c.378G>A	c.(376-378)TCG>TCA	p.S126S	GTPBP5_uc011aab.1_5'UTR|GTPBP5_uc011aac.1_5'UTR|GTPBP5_uc011aad.1_Intron|GTPBP5_uc011aae.1_Intron|GTPBP5_uc011aaf.1_Intron|GTPBP5_uc011aag.1_Silent_p.S126S	NM_015666	NP_056481	Q9H4K7	GTPB5_HUMAN	GTP binding protein 5	126	Localized in the mitocondria.|Not localized in the mitocondria.				ribosome biogenesis	mitochondrion	GTP binding|GTPase activity|magnesium ion binding				0	Breast(26;3.52e-09)		BRCA - Breast invasive adenocarcinoma(19;2.5e-08)			AGTCCCTGTCGTCGGTCCTGT	0.547													22	92					0	0	1	0	0		A	60772933	A	A	60772933	2	1	199	1	0	0	0	0	0	0	0	1	6899	1132	40	1		1	GTPBP5	20	60772933	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	221621	60772933	2252587	1226	98618											
COL20A1	57642	broad.mit.edu	37	chr20	61944226	61944226	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgggtggccgcagccccGtctggcgtgcttgtctacca	3	9	15	14	4	2	0	0	0	2	0	2	0	2	0	4	3	3	2	4	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:61944226G>A	uc011aau.1	+	16	2116	c.2016G>A	c.(2014-2016)CCG>CCA	p.P672P	COL20A1_uc011aav.1_Silent_p.P493P	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	672	Fibronectin type-III 5.				cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CCGCAGCCCCGTCTGGCGTGC	0.662													3	5					0	0	1	0	0		A	61944226	A	A	61944226	2	1	199	1	0	0	0	0	0	0	0	1	3682	1132	40	1		1	COL20A1	20	61944226	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1171293	61944226	1081294	1227	98619											
KCNQ2	3785	broad.mit.edu	37	chr20	62076149	62076149	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacgttgccctgggagccggCggccagcaccgcaatggagg	7	4	17	13	4	0	0	0	0	0	0	0	3	0	2	4	5	3	3	4	5	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:62076149C>T	uc002yey.1	-	4	730	c.553G>A	c.(553-555)GCC>ACC	p.A185T	KCNQ2_uc002yez.1_Missense_Mutation_p.A185T|KCNQ2_uc002yfa.1_Missense_Mutation_p.A185T|KCNQ2_uc002yfb.1_Missense_Mutation_p.A185T|KCNQ2_uc011aax.1_Missense_Mutation_p.A185T|KCNQ2_uc002yfc.1_Missense_Mutation_p.A185T	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	185	Helical; Name=Segment S3; (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	TGGGAGCCGGCGGCCAGCACC	0.657													3	13					0	0	1	0	0		T	62076149	T	T	62076149	3	4	199	1	0	0	0	0	1	0	0	0	8099	768	27	1	2185	1	KCNQ2	20	62076149	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	131923	62076149	949371	1228	98620											
ZGPAT	84619	broad.mit.edu	37	chr20	62366010	62366010	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cttgcagtggtggggtcggaCgccgtggactctgcacagtc	5	9	16	11	3	1	0	0	0	1	0	3	2	1	2	1	5	2	2	1	5	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:62366010C>T	uc002ygk.2	+	5	1063	c.885C>T	c.(883-885)GAC>GAT	p.D295D	ZGPAT_uc002ygi.2_Intron|ZGPAT_uc002ygj.2_Intron|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Intron|ZGPAT_uc002ygm.2_Intron|ZGPAT_uc002ygn.3_Intron|LIME1_uc011abi.1_5'Flank|LIME1_uc002ygp.3_5'Flank	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	295					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					TGGGGTCGGACGCCGTGGACT	0.617													44	168					0	0	1	0	0		T	62366010	T	T	62366010	2	4	199	1	0	0	0	0	0	0	0	1	17699	535	19	1		1	ZGPAT	20	62366010	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	289861	62366010	659510	1229	98621											
NPBWR2	2832	broad.mit.edu	37	chr20	62738071	62738071	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagaggaacggcagtggctcGgagaaggtggcattgtggcc	9	7	18	7	2	0	2	0	0	0	2	1	4	0	3	1	7	1	3	1	7	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr20:62738071G>A	uc011abt.1	-	1	114	c.114C>T	c.(112-114)TCC>TCT	p.S38S		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	38	Extracellular (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					GCAGTGGCTCGGAGAAGGTGG	0.617													20	45					0	0	1	0	0		A	62738071	A	A	62738071	2	1	199	1	0	0	0	0	0	0	0	1	10588	1103	39	1		1	NPBWR2	20	62738071	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	372061	62738071	287449	1230	98622											
TMPRSS15	5651	broad.mit.edu	37	chr21	19701570	19701570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcaaattcttgaaaatgaaGttgtatattctttccttttt	11	20	5	5	0	3	2	1	2	2	0	4	2	4	2	1	0	0	2	1	0	6	9			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:19701570G>A	uc002ykw.2	-	15	1727	c.1696C>T	c.(1696-1698)CTT>TTT	p.L566F		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	566	Extracellular (Potential).|CUB 2.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TGAAAATGAAGTTGTATATTC	0.308													4	28					0	0	1	0	0		A	19701570	A	A	19701570	3	1	199	1	0	0	0	0	1	0	0	0	16271	1029	36	4	1407	4	TMPRSS15	21	19701570	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		19701570	28428325	1231	98623											
APP	351	broad.mit.edu	37	chr21	27423456	27423456	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcggaacttgtcaattccGcagggcagcaacatgccgta	10	8	10	13	3	1	0	1	0	0	0	3	1	2	1	3	2	4	4	3	2	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:27423456G>A	uc002ylz.2	-	5	722	c.522C>T	c.(520-522)TGC>TGT	p.C174C	APP_uc010glk.2_Silent_p.C169C|APP_uc002yma.2_Silent_p.C174C|APP_uc011ach.1_Silent_p.C118C|APP_uc002ymb.2_Silent_p.C174C|APP_uc010glj.2_Silent_p.C118C|APP_uc011aci.1_Silent_p.C139C|APP_uc011acj.1_Silent_p.C174C	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	174	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				TGTCAATTCCGCAGGGCAGCA	0.483													8	47					0	0	1	0	0		A	27423456	A	A	27423456	2	1	199	1	0	0	0	0	0	0	0	1	815	1079	38	1		1	APP	21	27423456	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7721886	27423456	20706439	1232	98624											
ADAMTS5	11096	broad.mit.edu	37	chr21	28306952	28306952	+	Missense_Mutation	SNP	A	G	G	1	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	acagacatccatgccgggacAcacggagtactcaggcccga	12	4	11	14	3	1	1	1	0	0	1	2	4	2	3	3	3	2	1	3	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:28306952A>G	uc002ymg.2	-	4	2251	c.1522T>C	c.(1522-1524)TGT>CGT	p.C508R		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	508	Disintegrin.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						ATGCCGGGACACACGGAGTAC	0.617													8	47					0	0	1	0	0		G	28306952	G	G	28306952	3	3	199	1	0	0	0	0	1	0	0	0	269	159	6	3	1290	3	ADAMTS5	21	28306952	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	883496	28306952	19822943	1233	98625											
KRTAP27-1	643812	broad.mit.edu	37	chr21	31709452	31709452	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagttgtggctcaggtgcaaCattgaccagaggtctacagg	10	9	14	8	0	2	2	1	1	1	1	2	3	2	2	1	4	3	3	1	4	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:31709452C>T	uc002ynx.1	-	1	561	c.535G>A	c.(535-537)GTT>ATT	p.V179I		NM_001077711	NP_001071179	Q3LI81	KR271_HUMAN	keratin associated protein 27-1	179						intermediate filament				ovary(2)	2						TCAGGTGCAACATTGACCAGA	0.453													9	60					0	0	1	0	0		T	31709452	T	T	31709452	3	4	199	1	0	0	0	0	1	0	0	0	8560	478	17	4	92	4	KRTAP27-1	21	31709452	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3402500	31709452	16420443	1234	98626											
TIAM1	7074	broad.mit.edu	37	chr21	32502560	32502560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaagctcgaacctgcagcGcttccgtggggatcatgtgt	8	9	12	12	3	1	0	1	0	0	0	3	2	2	1	3	2	4	3	3	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:32502560G>A	uc002yow.1	-	26	4488	c.4016C>T	c.(4015-4017)GCG>GTG	p.A1339V	TIAM1_uc011adk.1_Missense_Mutation_p.A1339V|TIAM1_uc011adl.1_Missense_Mutation_p.A1279V	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	1339	PH 2.		A -> V (in a colorectal cancer sample; somatic mutation).		apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cell-cell junction|cytosol	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity	p.A1339V(1)|p.A1339A(1)		lung(3)|breast(3)|ovary(2)|large_intestine(2)	10						AACCTGCAGCGCTTCCGTGGG	0.483													23	212					0	0	1	0	0		A	32502560	A	A	32502560	3	1	199	1	0	0	0	0	1	0	0	0	15915	1087	38	1	775	1	TIAM1	21	32502560	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	793108	32502560	15627335	1235	98627											
SFRS15	57466	broad.mit.edu	37	chr21	33065696	33065696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctttcttgagatcgagatCggggagaatgtcggcgtcta	8	12	14	7	4	3	3	0	1	3	3	6	6	3	3	0	3	0	0	0	3	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:33065696C>T	uc002ypd.2	-	12	1850	c.1424G>A	c.(1423-1425)CGA>CAA	p.R475Q	SFRS15_uc002ype.2_Missense_Mutation_p.R475Q|SFRS15_uc010glu.2_Missense_Mutation_p.R460Q|SFRS15_uc002ypf.1_Missense_Mutation_p.R149Q	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	475						nucleus	nucleotide binding|RNA binding				0						AGATCGAGATCGGGGAGAATG	0.507													7	37					0	0	1	0	0		T	33065696	T	T	33065696	3	4	199	1	0	0	0	0	1	0	0	0	14196	884	31	1	2055	1	SFRS15	21	33065696	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	563136	33065696	15064199	1236	98628											
DOPEY2	9980	broad.mit.edu	37	chr21	37602959	37602959	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcgggagcatgcagaggaCgtttctttgcatccaagagc	9	8	15	9	2	1	2	0	0	1	2	2	4	2	4	1	3	4	4	1	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:37602959C>T	uc002yvg.2	+	14	1956	c.1877C>T	c.(1876-1878)ACG>ATG	p.T626M	DOPEY2_uc011aeb.1_Missense_Mutation_p.T626M	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	626					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						ATGCAGAGGACGTTTCTTTGC	0.532													22	68					0	0	1	0	0		T	37602959	T	T	37602959	3	4	199	1	0	0	0	0	1	0	0	0	4714	536	19	1	1927	1	DOPEY2	21	37602959	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	4537263	37602959	10526936	1237	98629											
DYRK1A	1859	broad.mit.edu	37	chr21	38862711	38862711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttctttgtaaccccaaacGcagtgcaatcaagatagttg	12	11	7	11	1	2	1	1	0	1	1	2	1	2	1	3	0	3	4	3	0	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:38862711G>A	uc002ywk.2	+	6	974	c.899G>A	c.(898-900)CGC>CAC	p.R300H	DYRK1A_uc002ywi.2_Missense_Mutation_p.R300H|DYRK1A_uc002ywj.2_Missense_Mutation_p.R291H|DYRK1A_uc002ywl.2_Missense_Mutation_p.R300H|DYRK1A_uc002ywm.2_Missense_Mutation_p.R300H|DYRK1A_uc011aei.1_Missense_Mutation_p.R61H	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	300	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						AACCCCAAACGCAGTGCAATC	0.383													10	64					0	0	1	0	0		A	38862711	A	A	38862711	3	1	199	1	0	0	0	0	1	0	0	0	4860	1087	38	1	921	1	DYRK1A	21	38862711	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1259752	38862711	9267184	1238	98630											
SIK1	150094	broad.mit.edu	37	chr21	44838242	44838242	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcctgcagcactggggtggCggactgcgaccccaggaagg	8	4	17	12	2	0	0	0	0	0	0	0	3	0	2	3	6	4	2	3	6	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:44838242C>T	uc002zdf.2	-	12	1769	c.1642G>A	c.(1642-1644)GCC>ACC	p.A548T		NM_173354	NP_775490	P57059	SIK1_HUMAN	salt-inducible kinase 1	548					anoikis|cell cycle|cell differentiation|intracellular protein kinase cascade|multicellular organismal development|regulation of cell differentiation|regulation of mitotic cell cycle	nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|testis(2)|ovary(1)|central_nervous_system(1)|skin(1)	7						ACTGGGGTGGCGGACTGCGAC	0.711													5	20					0	0	1	0	0		T	44838242	T	T	44838242	3	4	199	1	0	0	0	0	1	0	0	0	14342	768	27	1	721	1	SIK1	21	44838242	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5975531	44838242	3291653	1239	98631											
RRP1B	23076	broad.mit.edu	37	chr21	45103227	45103227	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagatgactgtggaacCtttgaggacacagggcccct	11	7	14	9	0	0	3	0	2	0	1	0	7	0	6	3	4	1	0	3	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:45103227C>A	uc002zdk.2	+	9	978	c.864C>A	c.(862-864)ACC>ACA	p.T288T	RRP1B_uc002zdl.2_5'Flank	NM_015056	NP_055871	Q14684	RRP1B_HUMAN	ribosomal RNA processing 1 homolog B	288					rRNA processing	cytosol|nucleolus|preribosome, small subunit precursor	protein binding			skin(1)	1				STAD - Stomach adenocarcinoma(101;0.178)		ACTGTGGAACCTTTGAGGACA	0.433													8	43					0.000442599	0.000455983	1	1	0		A	45103227	A	A	45103227	2	1	199	1	0	0	0	0	0	0	0	1	13713	668	24	5		5	RRP1B	21	45103227	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	264985	45103227	3026668	1240	98632											
PWP2	5822	broad.mit.edu	37	chr21	45550604	45550604	+	Missense_Mutation	SNP	A	G	G	1	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	atctgaagatgacagcctgcAtctgcttggaggaggaggca	11	8	14	8	0	2	3	0	2	2	1	2	6	2	6	1	4	3	3	1	4	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:45550604A>G	uc002zeb.2	+	21	2801	c.2711A>G	c.(2710-2712)CAT>CGT	p.H904R	C21orf33_uc002zec.3_5'Flank|C21orf33_uc002zed.3_5'Flank	NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	904						cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		GACAGCCTGCATCTGCTTGGA	0.582													10	68					0	0	1	0	0		G	45550604	G	G	45550604	3	3	199	1	0	0	0	0	1	0	0	0	12869	217	8	3	2793	3	PWP2	21	45550604	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	447377	45550604	2579291	1241	98633											
KRTAP10-1	386677	broad.mit.edu	37	chr21	45959433	45959433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggaagccccagagcagacggGcacacagcagatgggcttgc	11	3	15	12	1	0	3	0	0	0	3	0	4	0	4	2	3	4	4	2	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:45959433G>A	uc002zfh.1	-	1	646	c.601C>T	c.(601-603)CCC>TCC	p.P201S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198691	NP_941964	P60331	KR101_HUMAN	keratin associated protein 10-1	201	18.|24 X 5 AA repeats of C-C-X(3).					keratin filament				skin(1)	1						GAGCAGACGGGCACACAGCAG	0.652													28	234					0	0	1	0	0		A	45959433	A	A	45959433	3	1	199	1	0	0	0	0	1	0	0	0	8521	1203	42	2	251	2	KRTAP10-1	21	45959433	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	408829	45959433	2170462	1242	98634											
KRTAP10-4	386672	broad.mit.edu	37	chr21	45994702	45994702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgcaccacctcctgctgcaGaccctcctcctccgtgtccc	4	9	6	22	1	0	1	0	0	0	1	5	1	5	1	8	0	3	3	8	0	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:45994702G>A	uc002zfk.1	+	1	1097	c.1067G>A	c.(1066-1068)AGA>AAA	p.R356K	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198687	NP_941960	P60372	KR104_HUMAN	keratin associated protein 10-4	356	36 X 5 AA repeats of C-C-X(3).|34.					keratin filament					0						TCCTGCTGCAGACCCTCCTCC	0.657													30	167					0	0	1	0	0		A	45994702	A	A	45994702	3	1	199	1	0	0	0	0	1	0	0	0	8527	942	33	4	1069	4	KRTAP10-4	21	45994702	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	35269	45994702	2135193	1243	98635											
PCBP3	54039	broad.mit.edu	37	chr21	47361613	47361613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaggtcaccgggatgggcaCgctgtaatcctacccagcac	9	6	12	14	3	1	0	1	0	0	0	2	2	2	1	3	3	2	4	3	3	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:47361613C>T	uc002zhq.1	+	14	1234	c.1109C>T	c.(1108-1110)ACG>ATG	p.T370M	PCBP3_uc002zhp.1_Missense_Mutation_p.T350M|PCBP3_uc002zhs.1_Missense_Mutation_p.T344M|PCBP3_uc002zhr.1_Missense_Mutation_p.T369M|PCBP3_uc002zht.1_Missense_Mutation_p.T360M	NM_020528	NP_065389	P57721	PCBP3_HUMAN	poly(rC) binding protein 3 isoform 1	370					mRNA metabolic process	cytosol|mitochondrion|nucleus|ribonucleoprotein complex	DNA binding|RNA binding			skin(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0411)|READ - Rectum adenocarcinoma(84;0.0649)		GGGATGGGCACGCTGTAATCC	0.642													10	64					0	0	1	0	0		T	47361613	T	T	47361613	3	4	199	1	0	0	0	0	1	0	0	0	11521	536	19	1	1163	1	PCBP3	21	47361613	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1366911	47361613	768282	1244	98636											
COL6A2	1292	broad.mit.edu	37	chr21	47536721	47536721	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcaagaacgggaccgatgGacagaaggtagagggagcct	13	4	17	7	2	0	3	0	0	0	3	0	7	0	6	2	5	2	2	2	5	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:47536721G>T	uc002zia.1	+	10	1074	c.992G>T	c.(991-993)GGA>GTA	p.G331V	COL6A2_uc002zhy.1_Missense_Mutation_p.G331V|COL6A2_uc002zhz.1_Missense_Mutation_p.G331V|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	331	Triple-helical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGGACCGATGGACAGAAGGTA	0.622													5	22					0.00198382	0.00202812	1	1	0		T	47536721	T	T	47536721	3	4	199	1	0	0	0	0	1	0	0	0	3703	1174	41	5	1026	5	COL6A2	21	47536721	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	175108	47536721	593174	1245	98637											
COL6A2	1292	broad.mit.edu	37	chr21	47542798	47542798	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtcacagggaggccgaGgcgactttggcttgaaagga	9	7	15	10	2	1	1	1	1	0	0	1	5	1	3	2	5	0	1	2	5	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:47542798G>T	uc002zia.1	+	21	1700	c.1618G>T	c.(1618-1620)GGC>TGC	p.G540C	COL6A2_uc002zhy.1_Missense_Mutation_p.G540C|COL6A2_uc002zhz.1_Missense_Mutation_p.G540C|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	540	Cell attachment site (Potential).|Triple-helical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGGAGGCCGAGGCGACTTTGG	0.562													3	48					0.150653	0.151066	1	1	0		T	47542798	T	T	47542798	3	4	199	1	0	0	0	0	1	0	0	0	3703	1000	35	5	1696	5	COL6A2	21	47542798	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6077	47542798	587097	1246	98638											
PCNT	5116	broad.mit.edu	37	chr21	47836279	47836279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaaatcaggccatagacgcGtgtgatgccaatacaacccc	15	6	8	12	2	1	2	1	1	0	1	1	2	1	2	4	1	3	0	4	1	6	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr21:47836279G>A	uc002zji.3	+	30	6554	c.6447G>A	c.(6445-6447)GCG>GCA	p.A2149A	PCNT_uc002zjj.2_Silent_p.A2031A	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2149					cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CCATAGACGCGTGTGATGCCA	0.448													21	56					0	0	1	0	0		A	47836279	A	A	47836279	2	1	199	1	0	0	0	0	0	0	0	1	11609	1132	40	1		1	PCNT	21	47836279	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	293481	47836279	293616	1247	98639											
POTEH	23784	broad.mit.edu	37	chr22	16287790	16287790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctccccctgcaccaggcGaagcagtggcggcaccactt	7	5	11	18	3	0	0	0	0	0	0	1	1	1	0	5	3	2	4	5	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:16287790G>A	uc010gqp.2	-	1	148	c.96C>T	c.(94-96)TTC>TTT	p.F32F	POTEH_uc002zlg.1_5'Flank|POTEH_uc002zlh.1_5'Flank|POTEH_uc002zlj.1_5'UTR	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	32										skin(1)	1						TGCACCAGGCGAAGCAGTGGC	0.582													50	69					0	0	1	0	0		A	16287790	A	A	16287790	2	1	199	1	0	0	0	0	0	0	0	1	12286	1049	37	1		1	POTEH	22	16287790	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08		16287790	35016776	1248	98640											
MICAL3	57553	broad.mit.edu	37	chr22	18273780	18273780	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaccttccactgccatgcgTtcccggagctcctgctgcag	5	10	9	17	2	1	0	1	0	0	0	4	1	4	1	5	1	5	4	5	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:18273780T>C	uc002zng.3	-	31	6161	c.5808A>G	c.(5806-5808)GAA>GAG	p.E1936E	MICAL3_uc011agl.1_Silent_p.E1852E|MICAL3_uc010grd.1_Silent_p.E52E|MICAL3_uc010gre.1_RNA	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	1936	Potential.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CTGCCATGCGTTCCCGGAGCT	0.642													5	21					0	0	1	0	0		C	18273780	C	C	18273780	2	2	199	1	0	0	0	0	0	0	0	1	9589	1722	60	3		3	MICAL3	22	18273780	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	1985990	18273780	33030786	1249	98641											
DGCR2	9993	broad.mit.edu	37	chr22	19052574	19052574	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accctgtcgggcacttccctAggaaacataaaggacagaag	14	6	10	11	1	0	1	0	0	0	1	2	3	1	3	2	3	1	1	2	3	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:19052574A>G	uc002zoq.1	-	4	583	c.335T>C	c.(334-336)CTA>CCA	p.L112P	DGCR2_uc002zor.1_Intron|DGCR2_uc011agr.1_Intron	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	112	Extracellular (Potential).				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)					GCACTTCCCTAGGAAACATAA	0.552													6	19					0	0	1	0	0		G	19052574	G	G	19052574	3	3	199	1	0	0	0	0	1	0	0	0	4467	420	15	3	1345	3	DGCR2	22	19052574	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	778794	19052574	32251992	1250	98642											
SEPT5	5413	broad.mit.edu	37	chr22	19707945	19707945	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagacaaccgagtgcactgCtgcctatacttcatctcccc	10	9	6	16	1	2	1	1	0	1	1	3	2	2	1	4	0	5	2	4	0	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:19707945C>T	uc002zpv.1	+	6	590	c.465C>T	c.(463-465)TGC>TGT	p.C155C	SEPT5_uc002zpw.1_RNA|SEPT5_uc002zpx.1_RNA|SEPT5_uc002zpy.1_5'Flank	NM_002688	NP_002679	Q99719	SEPT5_HUMAN	septin 5	155					cell cycle|cytokinesis|regulation of exocytosis|synaptic vesicle targeting	plasma membrane|septin complex|synaptic vesicle	GTP binding|GTPase activity|protein binding|structural molecule activity			lung(1)	1	Colorectal(54;0.0993)					GAGTGCACTGCTGCCTATACT	0.587													4	66					0	0	1	0	0		T	19707945	T	T	19707945	2	4	199	1	0	0	0	0	0	0	0	1	14092	805	28	2		2	SEPT5	22	19707945	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	655371	19707945	31596621	1251	98643											
DGCR8	54487	broad.mit.edu	37	chr22	20097586	20097586	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaagatgtccattgtggcGtccgcccagcctggcggtga	6	8	13	14	3	0	2	0	1	0	1	2	2	2	2	5	3	1	0	5	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:20097586G>A	uc002zri.2	+	14	2627	c.2277G>A	c.(2275-2277)GCG>GCA	p.A759A	DGCR8_uc010grz.2_Silent_p.A726A|DGCR8_uc002zrj.2_Silent_p.A402A	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	759	Necessary for interaction with DROSHA.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					CCATTGTGGCGTCCGCCCAGC	0.652													17	55					0	0	1	0	0		A	20097586	A	A	20097586	2	1	199	1	0	0	0	0	0	0	0	1	4470	1132	40	1		1	DGCR8	22	20097586	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	389641	20097586	31206980	1252	98644											
TRMT2A	27037	broad.mit.edu	37	chr22	20100532	20100532	+	Splice_Site	SNP	T	C	C	0	1	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	gccaggatcaccttggaatcTgaggaggcaaacaccagctg	12	6	12	11	0	2	1	1	1	1	0	2	4	2	4	3	4	2	2	3	4	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:20100532T>C	uc002zrk.1	-	12	1765	c.1550_splice	c.e12-1	p.H517_splice	TRMT2A_uc002zrl.1_Splice_Site_p.H517_splice|TRMT2A_uc002zrm.1_Splice_Site_p.H339_splice|TRMT2A_uc002zrn.1_Splice_Site_p.H535_splice	NM_182984	NP_892029	Q8IZ69	TRM2A_HUMAN	HpaII tiny fragments locus 9C						RNA processing		nucleotide binding|RNA binding|RNA methyltransferase activity			breast(1)	1						CCTTGGAATCTGAGGAGGCAA	0.582													20	62					0	0	1	0	0		C	20100532	C	C	20100532	5	2	199	1	0	0	0	0	0	0	1	0	16591	1594	55	3	337	3	TRMT2A	22	20100532	Splice_Site	SNP	T	TCGA-HF-7132-01A-11D-2053-08	2946	20100532	31204034	1253	98645											
RTN4R	65078	broad.mit.edu	37	chr22	20230512	20230512	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcccacgggcacagcctgCaggccctgctgggggcagct	6	5	15	15	1	0	0	0	0	0	0	0	0	0	0	3	4	5	5	3	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:20230512C>T	uc002zrv.2	-	2	345	c.144G>A	c.(142-144)CTG>CTA	p.L48L	RTN4R_uc002zru.2_5'UTR	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	48	LRRNT.				axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					GCACAGCCTGCAGGCCCTGCT	0.672													6	22					0	0	1	0	0		T	20230512	T	T	20230512	2	4	199	1	0	0	0	0	0	0	0	1	13755	697	25	2		2	RTN4R	22	20230512	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	129980	20230512	31074054	1254	98646											
ZNF74	7625	broad.mit.edu	37	chr22	20760918	20760918	+	Missense_Mutation	SNP	A	G	G	1	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	gaagccctacaagtgcagcgAgtgcggcagagccttcagcc	10	5	13	13	2	1	1	1	0	0	1	1	3	1	1	3	1	7	2	3	1	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:20760918A>G	uc010gsm.2	+	6	1807	c.1595A>G	c.(1594-1596)GAG>GGG	p.E532G	ZNF74_uc002zsg.2_Missense_Mutation_p.E461G|ZNF74_uc002zsh.2_Missense_Mutation_p.E532G|ZNF74_uc002zsi.2_Missense_Mutation_p.E461G|ZNF74_uc010gsn.2_Missense_Mutation_p.E461G	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	532	C2H2-type 11.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			AAGTGCAGCGAGTGCGGCAGA	0.552													8	103					0	0	1	0	0		G	20760918	G	G	20760918	3	3	199	1	0	0	0	0	1	0	0	0	18152	304	11	3	1613	3	ZNF74	22	20760918	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	530406	20760918	30543648	1255	98647											
PI4KA	5297	broad.mit.edu	37	chr22	21159385	21159385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	atgtagaatcttctggagctCcccctggctcgtgttgaact	7	13	10	11	1	2	2	0	1	2	1	4	3	3	3	2	2	2	4	2	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:21159385C>T	uc002zsz.3	-	11	1294	c.1063G>A	c.(1063-1065)GAG>AAG	p.E355K	PI4KA_uc010gsq.1_Missense_Mutation_p.E413K	NM_058004	NP_477352	P42356	PI4KA_HUMAN	phosphatidylinositol 4-kinase type 3 alpha	355					phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling|synaptic transmission	Golgi-associated vesicle	1-phosphatidylinositol 4-kinase activity|ATP binding|protein binding			lung(2)|upper_aerodigestive_tract(1)|salivary_gland(1)	4	all_cancers(11;7.59e-25)|all_epithelial(7;1.34e-22)|Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000536)|Lung(15;0.0108)|Epithelial(17;0.196)			TTCTGGAGCTCCCCCTGGCTC	0.547													5	61					0	0	1	0	0		T	21159385	T	T	21159385	3	4	199	1	0	0	0	0	1	0	0	0	11892	864	30	4	5251	4	PI4KA	22	21159385	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	398467	21159385	30145181	1256	98648											
CABIN1	23523	broad.mit.edu	37	chr22	24560440	24560440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcacatgaaccgctccatcGtgctgctgctcaaggtgctg	7	9	12	13	2	1	1	1	1	0	0	3	1	2	1	2	2	5	6	2	2	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:24560440G>A	uc002zzi.1	+	30	4946	c.4819G>A	c.(4819-4821)GTG>ATG	p.V1607M	CABIN1_uc002zzj.1_Missense_Mutation_p.V1528M|CABIN1_uc002zzl.1_Missense_Mutation_p.V1607M|CABIN1_uc002zzm.1_Missense_Mutation_p.V32M	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1607					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						CCGCTCCATCGTGCTGCTGCT	0.637													14	85					0	0	1	0	0		A	24560440	A	A	24560440	3	1	199	1	0	0	0	0	1	0	0	0	2531	1145	40	1	4933	1	CABIN1	22	24560440	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3401055	24560440	26744126	1257	98649											
CRYBB2	1415	broad.mit.edu	37	chr22	25627692	25627692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtccgtgcgccgtatcCgcgacatgcagtggcaccaa	8	7	12	14	5	0	0	0	0	0	0	2	1	2	0	4	1	3	4	4	1	2	1	rs148209404		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:25627692C>T	uc003abp.1	+	6	619	c.571C>T	c.(571-573)CGC>TGC	p.R191C		NM_000496	NP_000487	P43320	CRBB2_HUMAN	crystallin, beta B2	191	Beta/gamma crystallin 'Greek key' 4.				response to stimulus|visual perception		structural constituent of eye lens				0						GCGCCGTATCCGCGACATGCA	0.652													10	76					0	0	1	0	0		T	25627692	T	T	25627692	3	4	199	1	0	0	0	0	1	0	0	0	3914	652	23	1	589	1	CRYBB2	22	25627692	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1067252	25627692	25676874	1258	98650											
LRP5L	91355	broad.mit.edu	37	chr22	25750563	25750563	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccacccccctggactcacCgacgaccttgtccacgttca	7	7	7	20	3	2	0	2	0	0	0	3	3	3	1	7	1	0	1	7	1	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:25750563C>A	uc003abs.2	-	3	3120	c.655G>T	c.(655-657)GGA>TGA	p.G219*	LRP5L_uc011ajz.1_Nonsense_Mutation_p.G219*|LRP5L_uc010guw.1_Missense_Mutation_p.G219W	NM_182492	NP_872298	A4QPB2	LRP5L_HUMAN	low density lipoprotein receptor-related protein	219											0						CTGGACTCACCGACGACCTTG	0.582													15	40					1.15088e-07	1.22889e-07	1	1	0		A	25750563	A	A	25750563	4	1	199	1	0	0	0	0	0	1	0	0	8979	666	23	5	111	5	LRP5L	22	25750563	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	122871	25750563	25554003	1259	98651											
TFIP11	24144	broad.mit.edu	37	chr22	26888314	26888314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataggcaatgttctcccgtgCtcctggctgcatgtaggcac	7	11	11	12	1	1	0	0	0	1	0	3	0	2	0	2	3	2	7	2	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:26888314C>T	uc003acr.2	-	14	2553	c.2179G>A	c.(2179-2181)GCA>ACA	p.A727T	TFIP11_uc003acq.2_Missense_Mutation_p.A86T|TFIP11_uc003acs.2_Missense_Mutation_p.A727T|TFIP11_uc003act.2_Missense_Mutation_p.A727T|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	727					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						TTCTCCCGTGCTCCTGGCTGC	0.582													22	114					0	0	1	0	0		T	26888314	T	T	26888314	3	4	199	1	0	0	0	0	1	0	0	0	15832	797	28	2	338	2	TFIP11	22	26888314	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1137751	26888314	24416252	1260	98652											
MN1	4330	broad.mit.edu	37	chr22	28194071	28194071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagccaggcagctctggcCgaacaggttgtccttggagc	7	7	14	13	2	1	0	0	0	1	0	2	2	2	1	3	4	4	4	3	4	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:28194071C>T	uc003adj.2	-	1	3416	c.2461G>A	c.(2461-2463)GGC>AGC	p.G821S		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	821							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						CAGCTCTGGCCGAACAGGTTG	0.632			T	ETV6	AML|meningioma								21	39					0	0	1	0	0		T	28194071	T	T	28194071	3	4	199	1	0	0	0	0	1	0	0	0	9691	652	23	1	1509	1	MN1	22	28194071	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1305757	28194071	23110495	1261	98653											
AP1B1	162	broad.mit.edu	37	chr22	29747754	29747754	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccagcttctccagcttcacGtagatagggtcgttgtactt	7	14	9	11	2	2	1	1	0	1	1	5	1	3	1	2	1	3	5	2	1	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:29747754G>A	uc003afj.2	-	8	1183	c.999C>T	c.(997-999)TAC>TAT	p.Y333Y	AP1B1_uc003afi.2_Silent_p.Y333Y|AP1B1_uc003afk.2_Silent_p.Y333Y|AP1B1_uc003afl.2_Silent_p.Y333Y|AP1B1_uc011ako.1_5'Flank	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	333					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						CCAGCTTCACGTAGATAGGGT	0.567													10	28					0	0	1	0	0		A	29747754	A	A	29747754	2	1	199	1	0	0	0	0	0	0	0	1	731	1140	40	1		1	AP1B1	22	29747754	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1553683	29747754	21556812	1262	98654											
TCN2	6948	broad.mit.edu	37	chr22	31011453	31011453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgtctacagcaccccattggCattacaggtgggaaagagac	12	8	11	10	0	1	1	0	0	1	1	1	3	1	2	2	3	3	2	2	3	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:31011453C>T	uc003aip.1	+	5	904	c.746C>T	c.(745-747)GCA>GTA	p.A249V	TCN2_uc003aiq.1_Missense_Mutation_p.A245V|TCN2_uc003air.1_Missense_Mutation_p.A222V	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor	249					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ACCCCATTGGCATTACAGGTG	0.602													6	52					0	0	1	0	0		T	31011453	T	T	31011453	3	4	199	1	0	0	0	0	1	0	0	0	15732	710	25	2	764	2	TCN2	22	31011453	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1263699	31011453	20293113	1263	98655											
SLC5A4	6527	broad.mit.edu	37	chr22	32628914	32628914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcggctgatcatcccCggcatcaccatgaggaacat	11	7	11	12	2	2	2	2	2	0	0	3	4	3	4	3	4	2	2	3	4	1	0	rs143604627		TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:32628914C>T	uc003ami.2	-	9	995	c.993G>A	c.(991-993)CCG>CCA	p.P331P		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	331	Helical; (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						TGATCATCCCCGGCATCACCA	0.473													30	73					0	0	1	0	0		T	32628914	T	T	32628914	2	4	199	1	0	0	0	0	0	0	0	1	14692	639	23	1		1	SLC5A4	22	32628914	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1617461	32628914	18675652	1264	98656											
HMGXB4	10042	broad.mit.edu	37	chr22	35680012	35680012	+	Missense_Mutation	SNP	A	G	G	1	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	gtaaagagtatcgcgtgaccAttgtggctgaccatccaggt	10	10	12	9	2	0	3	0	2	0	1	2	3	1	3	3	2	0	3	3	2	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:35680012A>G	uc003anl.2	+	6	1447	c.1273A>G	c.(1273-1275)ATT>GTT	p.I425V	HMGXB4_uc003ank.2_Missense_Mutation_p.I316V	NM_001003681	NP_001003681	Q9UGU5	HMGX4_HUMAN	high-mobility group protein 2-like 1	425	HMG box.				endosome to lysosome transport|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	NURF complex	DNA binding			breast(1)|skin(1)	2						TCGCGTGACCATTGTGGCTGA	0.413													18	74					0	0	1	0	0		G	35680012	G	G	35680012	3	3	199	1	0	0	0	0	1	0	0	0	7255	217	8	3	1291	3	HMGXB4	22	35680012	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3051098	35680012	15624554	1265	98657											
CSF2RB	1439	broad.mit.edu	37	chr22	37334428	37334428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggcttttcaagtcaagaagCccccaggccaggctgtgccc	9	7	11	14	0	2	1	2	0	0	1	2	1	2	1	4	3	2	2	4	3	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:37334428C>T	uc003aqa.3	+	14	2795	c.2578C>T	c.(2578-2580)CCC>TCC	p.P860S	CSF2RB_uc003aqc.3_Missense_Mutation_p.P866S	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	860	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	AGTCAAGAAGCCCCCAGGCCA	0.622													33	99					0	0	1	0	0		T	37334428	T	T	37334428	3	4	199	1	0	0	0	0	1	0	0	0	3938	739	26	2	2628	2	CSF2RB	22	37334428	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1654416	37334428	13970138	1266	98658											
SSTR3	6753	broad.mit.edu	37	chr22	37603287	37603287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcaggtgctcatgccgcGgggcactcccgagaagacca	8	5	15	13	3	1	2	1	0	0	2	2	3	2	2	3	4	2	3	3	4	1	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:37603287G>A	uc003ara.2	-	2	618	c.556C>T	c.(556-558)CGC>TGC	p.R186C	SSTR3_uc003arb.2_Missense_Mutation_p.R186C	NM_001051	NP_001042	P32745	SSR3_HUMAN	somatostatin receptor 3	186	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|induction of apoptosis by hormones|negative regulation of cell proliferation	integral to plasma membrane|nonmotile primary cilium	somatostatin receptor activity			lung(1)	1						CTCATGCCGCGGGGCACTCCC	0.726													3	11					0	0	1	0	0		A	37603287	A	A	37603287	3	1	199	1	0	0	0	0	1	0	0	0	15224	1116	39	1	704	1	SSTR3	22	37603287	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	268859	37603287	13701279	1267	98659											
ELFN2	114794	broad.mit.edu	37	chr22	37769212	37769212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttgcgcagggcgtgaccgGcggccatgtacacctcctcc	5	8	12	16	4	1	1	0	1	1	0	3	1	3	1	5	3	2	2	5	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:37769212G>A	uc003asq.3	-	3	3149	c.2363C>T	c.(2362-2364)GCC>GTC	p.A788V		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	788	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					GGCGTGACCGGCGGCCATGTA	0.607													25	71					0	0	1	0	0		A	37769212	A	A	37769212	3	1	199	1	0	0	0	0	1	0	0	0	5066	1203	42	2	103	2	ELFN2	22	37769212	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	165925	37769212	13535354	1268	98660											
ELFN2	114794	broad.mit.edu	37	chr22	37769986	37769986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtggagatctctgcagccGagccctggccgttctcgagg	5	9	15	12	3	2	1	0	0	2	1	4	4	2	1	3	4	3	2	3	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:37769986G>A	uc003asq.3	-	3	2375	c.1589C>T	c.(1588-1590)TCG>TTG	p.S530L		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	530	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					CTCTGCAGCCGAGCCCTGGCC	0.607													14	99					0	0	1	0	0		A	37769986	A	A	37769986	3	1	199	1	0	0	0	0	1	0	0	0	5066	1059	37	1	877	1	ELFN2	22	37769986	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	774	37769986	13534580	1269	98661											
CARD10	29775	broad.mit.edu	37	chr22	37900249	37900249	+	Frame_Shift_Del	DEL	G	-	-																															cggaggatggagccggcactGggggggaagggcaggatgga																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:37900249delG	uc003asx.1	-	9	1581	c.1578delC	c.(1576-1578)CCCfs	p.P526fs	CARD10_uc003ast.1_RNA|CARD10_uc003asw.1_Frame_Shift_Del_p.P240fs|CARD10_uc003asy.1_Frame_Shift_Del_p.P526fs	NM_014550	NP_055365	Q9BWT7	CAR10_HUMAN	caspase recruitment domain protein 10	526					activation of NF-kappaB-inducing kinase activity|protein complex assembly|regulation of apoptosis	CBM complex	receptor signaling complex scaffold activity			upper_aerodigestive_tract(1)|lung(1)|breast(1)|ovary(1)|prostate(1)|kidney(1)	6	Melanoma(58;0.0574)					AGCCGGCACTGGGGGGGAAGG	0.642													7	11	---	---	---	---						.	-	37900249	-	-	37900249	7	5	199	1	0	1	0	1	0	0	0	0	2647	1335	47	0	1568	0	CARD10	22	37900249	Frame_Shift_Del	DEL	G	TCGA-HF-7132-01A-11D-2053-08	130263	37900249	13404317	1270	98662											
GGA1	26088	broad.mit.edu	37	chr22	38028140	38028140	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccgccccccagcccatcCgcaacatcgtgttccagtca	8	6	7	20	3	1	0	1	0	0	0	4	0	3	0	7	0	2	3	7	0	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:38028140C>T	uc003atc.2	+	15	2031	c.1666C>T	c.(1666-1668)CGC>TGC	p.R556C	GGA1_uc003atd.2_Missense_Mutation_p.R469C|GGA1_uc003ate.2_Missense_Mutation_p.R552C|GGA1_uc003atf.2_Missense_Mutation_p.R483C|SH3BP1_uc003atg.1_5'Flank	NM_013365	NP_037497	Q9UJY5	GGA1_HUMAN	golgi associated, gamma adaptin ear containing,	556	GAE.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|endosome membrane|Golgi apparatus part	protein binding			breast(2)|ovary(1)	3	Melanoma(58;0.0574)					CCAGCCCATCCGCAACATCGT	0.642													15	49					0	0	1	0	0		T	38028140	T	T	38028140	3	4	199	1	0	0	0	0	1	0	0	0	6367	652	23	1	1790	1	GGA1	22	38028140	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	127891	38028140	13276426	1271	98663											
MAFF	23764	broad.mit.edu	37	chr22	38610474	38610474	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcacctgtcggacgaggcGctgatggggctgtcggtgcg	4	7	18	12	6	0	1	0	1	0	0	2	3	0	2	2	5	1	3	2	5	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:38610474G>A	uc011anp.1	+	3	422	c.84G>A	c.(82-84)GCG>GCA	p.A28A	MAFF_uc003avc.2_Silent_p.A28A|MAFF_uc011anq.1_5'UTR|MAFF_uc011anr.1_Silent_p.A28A|MAFF_uc003avd.2_Missense_Mutation_p.A78T	NM_001161572	NP_001155044	Q9ULX9	MAFF_HUMAN	transcription factor MAFF isoform a	28					blood coagulation|parturition|transcription from RNA polymerase II promoter	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Melanoma(58;0.045)					CGGACGAGGCGCTGATGGGGC	0.682													7	29					0	0	1	0	0		A	38610474	A	A	38610474	2	1	199	1	0	0	0	0	0	0	0	1	9177	1074	38	1		1	MAFF	22	38610474	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	582334	38610474	12694092	1272	98664											
SUN2	25777	broad.mit.edu	37	chr22	39135767	39135767	+	Missense_Mutation	SNP	A	G	G	1	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	caccttctttctgcagcgtcAggctcagggaggccgcggct	5	9	13	14	3	4	0	2	0	2	0	4	1	4	1	2	4	2	3	2	4	0	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:39135767A>G	uc003awh.1	-	14	1822	c.1538T>C	c.(1537-1539)CTG>CCG	p.L513P	SUN2_uc011anz.1_Missense_Mutation_p.L548P|SUN2_uc011aoa.1_Missense_Mutation_p.L502P|SUN2_uc003awi.1_Missense_Mutation_p.L513P|SUN2_uc010gxq.1_Missense_Mutation_p.L534P|SUN2_uc010gxr.1_Missense_Mutation_p.L513P|SUN2_uc010gxs.1_Missense_Mutation_p.L513P	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	513	Perinuclear space.				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						CTGCAGCGTCAGGCTCAGGGA	0.627													8	61					0	0	1	0	0		G	39135767	G	G	39135767	3	3	199	1	0	0	0	0	1	0	0	0	15417	188	7	3	639	3	SUN2	22	39135767	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	525293	39135767	12168799	1273	98665											
EP300	2033	broad.mit.edu	37	chr22	41513540	41513540	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccaaatcagggtcctacGcagtcaacaggtatgatgaa	14	7	11	9	1	2	2	2	2	0	0	3	3	3	3	2	3	2	2	2	3	5	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:41513540G>A	uc003azl.3	+	2	839	c.444G>A	c.(442-444)ACG>ACA	p.T148T		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	148					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						AGGGTCCTACGCAGTCAACAG	0.498			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				8	44					0	0	1	0	0		A	41513540	A	A	41513540	2	1	199	1	0	0	0	0	0	0	0	1	5156	1074	38	1		1	EP300	22	41513540	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2377773	41513540	9791026	1274	98666											
TEF	7008	broad.mit.edu	37	chr22	41790188	41790188	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacttcaatccggaccccgcCgacctggtgctctccagtgt	7	9	9	16	3	2	0	1	0	1	0	4	2	3	1	6	2	2	1	6	2	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:41790188C>T	uc003azy.2	+	3	650	c.564C>T	c.(562-564)GCC>GCT	p.A188A	TEF_uc003azx.2_Silent_p.A158A|TEF_uc011apa.1_Silent_p.A193A	NM_003216	NP_003207	Q10587	TEF_HUMAN	thyrotrophic embryonic factor isoform 1	188	Pro-rich (proline/acidic region (PAR)).				rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CGGACCCCGCCGACCTGGTGC	0.557													16	101					0	0	1	0	0		T	41790188	T	T	41790188	2	4	199	1	0	0	0	0	0	0	0	1	15775	639	23	1		1	TEF	22	41790188	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	276648	41790188	9514378	1275	98667											
PACSIN2	11252	broad.mit.edu	37	chr22	43289531	43289531	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcatacgccttctcgatgCgcgcccgctcatgcaggcag	6	7	12	16	6	2	0	1	0	1	0	3	1	2	0	2	1	3	4	2	1	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:43289531C>T	uc010gzg.2	-	3	371	c.149G>A	c.(148-150)CGC>CAC	p.R50H	PACSIN2_uc003bdg.3_Missense_Mutation_p.R50H|PACSIN2_uc003bde.3_Missense_Mutation_p.R50H|PACSIN2_uc003bdf.3_Missense_Mutation_p.R50H	NM_007229	NP_009160	Q9UNF0	PACN2_HUMAN	protein kinase C and casein kinase substrate in	50	FCH.				actin cytoskeleton organization|endocytosis	cytoplasmic membrane-bounded vesicle	transporter activity				0		Glioma(61;0.222)				CTTCTCGATGCGCGCCCGCTC	0.647													9	46					0	0	1	0	0		T	43289531	T	T	43289531	3	4	199	1	0	0	0	0	1	0	0	0	11394	768	27	1	1347	1	PACSIN2	22	43289531	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1499343	43289531	8015035	1276	98668											
SMC1B	27127	broad.mit.edu	37	chr22	45758880	45758880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcaagttgaacattaagcCgagttttttgtttttcaaat	12	17	6	6	1	2	1	2	1	0	0	2	2	2	1	1	0	2	3	1	0	4	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:45758880C>T	uc003bgc.2	-	16	2499	c.2447G>A	c.(2446-2448)CGG>CAG	p.R816Q	SMC1B_uc003bgd.2_Missense_Mutation_p.R816Q	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	816	Potential.				chromosome organization|meiosis	chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nucleus	ATP binding			ovary(2)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		AACATTAAGCCGAGTTTTTTG	0.294													4	14					0	0	1	0	0		T	45758880	T	T	45758880	3	4	199	1	0	0	0	0	1	0	0	0	14807	652	23	1	1300	1	SMC1B	22	45758880	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	2469349	45758880	5545686	1277	98669											
CELSR1	9620	broad.mit.edu	37	chr22	46768944	46768944	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggaggaggatggcaaccactGtgcacagaaactgcgcaggg	12	4	16	9	1	0	1	0	0	0	1	0	4	0	4	1	5	4	3	1	5	2	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:46768944G>A	uc003bhw.1	-	25	7595	c.7595C>T	c.(7594-7596)ACA>ATA	p.T2532I	CELSR1_uc011arc.1_Missense_Mutation_p.T853I	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2532	Helical; Name=3; (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GGCAACCACTGTGCACAGAAA	0.622													6	9					0	0	1	0	0		A	46768944	A	A	46768944	3	1	199	1	0	0	0	0	1	0	0	0	3224	1377	48	4	1493	4	CELSR1	22	46768944	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1010064	46768944	4535622	1278	98670											
MOV10L1	54456	broad.mit.edu	37	chr22	50552165	50552165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttgaagttacacaggtgacgCattttggaaccctaaaggaa	14	10	10	7	1	0	2	0	2	0	0	0	4	0	4	1	3	2	2	1	3	6	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:50552165C>T	uc003bjj.2	+	6	915	c.832C>T	c.(832-834)CAT>TAT	p.H278Y	MOV10L1_uc003bjk.3_Missense_Mutation_p.H278Y|MOV10L1_uc011arp.1_Missense_Mutation_p.H258Y|MOV10L1_uc011arq.1_Missense_Mutation_p.H39Y|MOV10L1_uc010hao.1_5'Flank	NM_018995	NP_061868	Q9BXT6	M10L1_HUMAN	MOV10-like 1 isoform 1	278					germ cell development|multicellular organismal development|spermatogenesis		ATP binding|ATP-dependent RNA helicase activity|magnesium ion binding|RNA binding			ovary(2)|skin(1)	3		all_cancers(38;3.31e-11)|all_epithelial(38;5.69e-10)|all_lung(38;3.73e-05)|Breast(42;0.000525)|Lung NSC(38;0.000954)|Ovarian(80;0.0367)|Lung SC(80;0.114)		LUAD - Lung adenocarcinoma(64;0.0215)|BRCA - Breast invasive adenocarcinoma(115;0.24)		ACAGGTGACGCATTTTGGAAC	0.408													13	81					0	0	1	0	0		T	50552165	T	T	50552165	3	4	199	1	0	0	0	0	1	0	0	0	9737	710	25	2	895	2	MOV10L1	22	50552165	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3783221	50552165	752401	1279	98671											
TRABD	80305	broad.mit.edu	37	chr22	50636423	50636423	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	gagctgcctcgggcctctgaCggtgacggccgcccgcaggc	4	5	16	16	5	1	2	0	2	1	0	2	3	1	2	4	4	2	2	4	4	0	0			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:50636423C>G	uc003bjq.1	+	8	929	c.843C>G	c.(841-843)GAC>GAG	p.D281E	TRABD_uc003bjr.1_Missense_Mutation_p.D165E|TRABD_uc003bjs.1_Missense_Mutation_p.D281E|TRABD_uc003bjt.1_Missense_Mutation_p.D281E|TRABD_uc003bju.1_Missense_Mutation_p.D281E|TRABD_uc003bjv.2_Missense_Mutation_p.D281E|TRABD_uc003bjw.1_Missense_Mutation_p.D281E|SELO_uc011arr.1_5'Flank	NM_025204	NP_079480	Q9H4I3	TRABD_HUMAN	TraB domain containing	281											0		all_cancers(38;1.07e-07)|all_epithelial(38;9.6e-07)|all_lung(38;0.00141)|Breast(42;0.00387)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		LUAD - Lung adenocarcinoma(64;0.105)		GGGCCTCTGACGGTGACGGCC	0.701													7	43					0	0	1	0	0		G	50636423	G	G	50636423	3	3	199	1	0	0	0	0	1	0	0	0	16461	550	19	5	869	5	TRABD	22	50636423	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	84258	50636423	668143	1280	98672											
TUBGCP6	85378	broad.mit.edu	37	chr22	50658094	50658094	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catggactcgtaactgtccgGgtaccgctccaagtggtact	8	10	11	12	3	0	0	0	0	0	0	3	1	2	1	3	3	3	4	3	3	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chr22:50658094G>T	uc003bkb.1	-	18	4806	c.4294C>A	c.(4294-4296)CCG>ACG	p.P1432T	TUBGCP6_uc003bka.1_Missense_Mutation_p.P519T|TUBGCP6_uc010har.1_Missense_Mutation_p.P1424T|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1432					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		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)		TAACTGTCCGGGTACCGCTCC	0.672													19	66					4.96729e-08	5.33902e-08	1	1	0		T	50658094	T	T	50658094	3	4	199	1	0	0	0	0	1	0	0	0	16796	1232	43	5	1197	5	TUBGCP6	22	50658094	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	21671	50658094	646472	1281	98673											
TLR8	51311	broad.mit.edu	37	chrX	12937805	12937805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcaattctctttcacacGtgccacccaaactgccaagc	10	11	4	16	1	3	0	2	0	1	0	4	0	3	0	3	0	4	0	3	0	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:12937805G>A	uc004cve.2	+	2	714	c.646G>A	c.(646-648)GTG>ATG	p.V216M	TLR8_uc004cvd.2_Missense_Mutation_p.V234M	NM_138636	NP_619542	Q9NR97	TLR8_HUMAN	toll-like receptor 8 precursor	216	LRR 4.|Extracellular (Potential).				cellular response to mechanical stimulus|defense response to virus|I-kappaB kinase/NF-kappaB cascade|immunoglobulin mediated immune response|inflammatory response|innate immune response|positive regulation of innate immune response|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process	endosome membrane	DNA binding|double-stranded RNA binding|single-stranded RNA binding|transmembrane receptor activity			ovary(4)|lung(2)|large_intestine(1)	7						TCTTTCACACGTGCCACCCAA	0.368													26	50					0	0	1	0	0		A	12937805	A	A	12937805	3	1	199	1	0	0	0	0	1	0	0	0	15982	1145	40	1	652	1	TLR8	23	12937805	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		12937805	142332755	1282	98674											
CDKL5	6792	broad.mit.edu	37	chrX	18622777	18622777	+	Missense_Mutation	SNP	A	G	G	1	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	gaagctgccggagcacatggAcagtagccattcccattcac	11	7	10	13	1	1	0	1	0	0	0	2	3	2	2	3	2	4	3	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:18622777A>G	uc004cym.2	+	12	1986	c.1733A>G	c.(1732-1734)GAC>GGC	p.D578G	CDKL5_uc004cyn.2_Missense_Mutation_p.D578G	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	578					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					GAGCACATGGACAGTAGCCAT	0.498													25	38					0	0	1	0	0		G	18622777	G	G	18622777	3	3	199	1	0	0	0	0	1	0	0	0	3160	275	10	3	1775	3	CDKL5	23	18622777	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	5684972	18622777	136647783	1283	98675											
GPR64	10149	broad.mit.edu	37	chrX	19049103	19049103	+	Silent	SNP	T	C	C	0	1	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	aatgtacacaagaactaaccTgagtcattgcaaatagatga	18	9	7	7	0	1	4	1	2	0	2	1	4	1	4	1	0	4	2	1	0	7	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:19049103T>C	uc004cyx.2	-	9	521	c.357A>G	c.(355-357)TCA>TCG	p.S119S	GPR64_uc004cyy.2_Silent_p.S116S|GPR64_uc004cyz.2_Silent_p.S105S|GPR64_uc004czb.2_Silent_p.S119S|GPR64_uc004czc.2_Silent_p.S103S|GPR64_uc004czd.2_Silent_p.S95S|GPR64_uc004cze.2_Silent_p.S89S|GPR64_uc004czf.2_Silent_p.S81S|GPR64_uc004cza.2_Silent_p.S97S|GPR64_uc004cyw.2_Silent_p.S103S|GPR64_uc010nfj.2_Silent_p.S89S	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	119	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					AGAACTAACCTGAGTCATTGC	0.393													17	122					0	0	1	0	0		C	19049103	C	C	19049103	2	2	199	1	0	0	0	0	0	0	0	1	6720	1594	55	3		3	GPR64	23	19049103	Silent	SNP	T	TCGA-HF-7132-01A-11D-2053-08	426326	19049103	136221457	1284	98676											
PHEX	5251	broad.mit.edu	37	chrX	22115094	22115094	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgattccacatgaaaacCgaaccagcgaggccatgtac	15	7	8	11	2	0	2	0	2	0	0	1	4	1	2	4	1	4	1	4	1	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:22115094C>T	uc004dah.2	+	8	1074	c.871C>T	c.(871-873)CGA>TGA	p.R291*	PHEX_uc011mjr.1_Nonsense_Mutation_p.R291*|PHEX_uc011mjs.1_Nonsense_Mutation_p.R194*	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	291	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						ACATGAAAACCGAACCAGCGA	0.358													20	31					0	0	1	0	0		T	22115094	T	T	22115094	4	4	199	1	0	0	0	0	0	1	0	0	11838	644	23	1	901	1	PHEX	23	22115094	Nonsense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	3065991	22115094	133155466	1285	98677											
DMD	1756	broad.mit.edu	37	chrX	32366534	32366534	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaatttaccatatctttatTgaagtcttcctctttcagat	10	18	3	10	0	4	2	1	1	3	1	5	2	5	2	3	0	1	0	3	0	5	8			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:32366534T>C	uc004dda.1	-	38	5681	c.5437A>G	c.(5437-5439)AAT>GAT	p.N1813D	DMD_uc004dcw.2_Missense_Mutation_p.N469D|DMD_uc004dcx.2_Missense_Mutation_p.N472D|DMD_uc004dcz.2_Missense_Mutation_p.N1690D|DMD_uc004dcy.1_Missense_Mutation_p.N1809D|DMD_uc004ddb.1_Missense_Mutation_p.N1805D|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1813	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				ATATCTTTATTGAAGTCTTCC	0.348													16	32					0	0	1	0	0		C	32366534	C	C	32366534	3	2	199	1	0	0	0	0	1	0	0	0	4586	1812	63	3	5936	3	DMD	23	32366534	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	10251440	32366534	122904026	1286	98678											
SRPX	8406	broad.mit.edu	37	chrX	38008990	38008990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttacaggtctggctcatttCggcttgtaggaccatctctt	6	15	10	10	1	3	0	1	0	2	0	5	1	3	1	1	4	1	4	1	4	2	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:38008990C>T	uc004ddy.1	-	10	1455	c.1369G>A	c.(1369-1371)GAA>AAA	p.E457K	SRPX_uc004ddz.1_Missense_Mutation_p.E437K|SRPX_uc011mkh.1_Missense_Mutation_p.E398K|SRPX_uc011mki.1_3'UTR	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	457					cell adhesion	cell surface|membrane					0						TGGCTCATTTCGGCTTGTAGG	0.468													19	27					0	0	1	0	0		T	38008990	T	T	38008990	3	4	199	1	0	0	0	0	1	0	0	0	15189	893	31	1	29	1	SRPX	23	38008990	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5642456	38008990	117261570	1287	98679											
GPR82	27197	broad.mit.edu	37	chrX	41586424	41586424	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaaaataggtaaaaaaacaTcaacgcacatctacctgtca	20	7	4	10	1	3	0	2	0	1	0	3	0	3	0	1	1	3	2	1	1	9	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:41586424T>C	uc004dfs.1	+	3	385	c.145T>C	c.(145-147)TCA>CCA	p.S49P	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_Missense_Mutation_p.S49P|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007	Q96P67	GPR82_HUMAN	G protein-coupled receptor 82	49	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						TAAAAAAACATCAACGCACAT	0.378													9	16					0	0	1	0	0		C	41586424	C	C	41586424	3	2	199	1	0	0	0	0	1	0	0	0	6727	1435	50	3	147	3	GPR82	23	41586424	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	3577434	41586424	113684136	1288	98680											
GATA1	2623	broad.mit.edu	37	chrX	48650295	48650295	+	Frame_Shift_Del	DEL	G	-	-																															actgtatggaggggatcccaGggggctcaccatatgccggc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:48650295delG	uc004dkq.3	+	3	356	c.265delG	c.(265-267)GGGfs	p.G89fs		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	89					basophil differentiation|eosinophil differentiation|erythrocyte development|megakaryocyte differentiation|platelet aggregation|platelet formation|positive regulation of anti-apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|regulation of glycoprotein biosynthetic process|transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	C2H2 zinc finger domain binding|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.?(2)|p.V74_C199del(1)|p.V77_A120>A(1)		haematopoietic_and_lymphoid_tissue(246)|lung(2)	248						GGGGATCCCAGGGGGCTCACC	0.602			Mis|F		megakaryoblastic leukemia of Downs Syndrome								24	40	---	---	---	---						.	-	48650295	-	-	48650295	7	5	199	1	0	1	0	1	0	0	0	0	6268	1000	35	0	271	0	GATA1	23	48650295	Frame_Shift_Del	DEL	G	TCGA-HF-7132-01A-11D-2053-08	7063871	48650295	106620265	1289	98681											
CACNA1F	778	broad.mit.edu	37	chrX	49066136	49066136	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtcgttgcctagtagccCtttttctttcctccgccgga	3	14	10	14	4	1	0	0	0	1	0	4	1	3	1	5	2	2	2	5	2	2	6			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:49066136C>A	uc004dnb.2	-	41	4869	c.4807G>T	c.(4807-4809)GGG>TGG	p.G1603W	CACNA1F_uc010nip.2_Missense_Mutation_p.G1592W	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	1603	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	CCTAGTAGCCCTTTTTCTTTC	0.592													4	4					0.00024832	0.000256551	1	1	0		A	49066136	A	A	49066136	3	1	199	1	0	0	0	0	1	0	0	0	2546	681	24	5	1158	5	CACNA1F	23	49066136	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	415841	49066136	106204424	1290	98682											
NUDT10	170685	broad.mit.edu	37	chrX	51076039	51076039	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaagaggcgggagtcaagggGaagttaggccggctcctggg	9	5	20	7	2	1	1	1	0	0	1	2	4	2	3	2	7	0	2	2	7	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:51076039G>A	uc004dph.2	+	2	442	c.222G>A	c.(220-222)GGG>GGA	p.G74G	NUDT10_uc004dpi.3_Silent_p.G74G	NM_153183	NP_694853	Q8NFP7	NUD10_HUMAN	nudix-type motif 10	74	Nudix hydrolase.					cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding				0	Ovarian(276;0.236)					GAGTCAAGGGGAAGTTAGGCC	0.657													8	24					0	0	1	0	0		A	51076039	A	A	51076039	2	1	199	1	0	0	0	0	0	0	0	1	10745	1161	41	4		4	NUDT10	23	51076039	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	2009903	51076039	104194521	1291	98683											
MAGED1	9500	broad.mit.edu	37	chrX	51643310	51643311	+	Frame_Shift_Ins	INS	-	C	C																															agacgagtgcccaacagcaaINSccccccggagtatgagttcc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:51643310_51643311insC	uc004dpm.2	+	11	1972_1973	c.1877_1878insC	c.(1876-1878)AACfs	p.N626fs	MAGED1_uc004dpn.2_Frame_Shift_Ins_p.N682fs|MAGED1_uc004dpo.2_Frame_Shift_Ins_p.N626fs	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	626	MAGE.				apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					CCCAACAGCAACCCCCCGGAGT	0.48										Multiple Myeloma(10;0.10)			12	20	---	---	---	---						.	C	51643311	C	C	51643310	7	5	199	1	0	1	1	0	0	0	0	0	9201	43	2	0	2087	0	MAGED1	23	51643310	Frame_Shift_Ins	INS	-	TCGA-HF-7132-01A-11D-2053-08	567271	51643310	103627250	1292	98684											
MAGEH1	28986	broad.mit.edu	37	chrX	55479394	55479394	+	Missense_Mutation	SNP	A	G	G	1	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	agactggccttgtaattatgActgggattcggacgatgatg	10	12	13	6	2	0	3	0	2	0	1	1	6	0	5	1	3	0	1	1	3	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:55479394A>G	uc004dum.2	+	1	857	c.587A>G	c.(586-588)GAC>GGC	p.D196G		NM_014061	NP_054780	Q9H213	MAGH1_HUMAN	melanoma antigen, family H, 1 protein	196	MAGE.				apoptosis					ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGTAATTATGACTGGGATTCG	0.517													26	32					0	0	1	0	0		G	55479394	G	G	55479394	3	3	199	1	0	0	0	0	1	0	0	0	9206	275	10	3	589	3	MAGEH1	23	55479394	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	3836084	55479394	99791166	1293	98685											
MTMR8	55613	broad.mit.edu	37	chrX	63444967	63444967	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaggtgcccgtagactgcGgccaaatagagggggccaga	10	5	15	11	2	0	3	0	0	0	3	1	3	1	3	4	4	2	1	4	4	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:63444967G>A	uc011mou.1	-	10	1757	c.1689C>T	c.(1687-1689)GCC>GCT	p.A563A	ASB12_uc004dvp.1_Silent_p.A179A|ASB12_uc004dvq.1_Silent_p.A188A|ASB12_uc004dvr.1_Silent_p.A188A	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						CGTAGACTGCGGCCAAATAGA	0.562													10	7					0	0	1	0	0		A	63444967	A	A	63444967	2	1	199	1	0	0	0	0	0	0	0	1	9967	1103	39	1		1	MTMR8	23	63444967	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	7965573	63444967	91825593	1294	98686											
DLG3	1741	broad.mit.edu	37	chrX	69673549	69673550	+	Frame_Shift_Del	DEL	GA	-	-																															gggcttcaacatcgtaggagGagaggatggagaaggcattt																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:69673549_69673550delGA	uc004dyi.1	+	8	1536_1537	c.1208_1209delGA	c.(1207-1209)GGAfs	p.G403fs	DLG3_uc004dyj.1_Frame_Shift_Del_p.G66fs|DLG3_uc011mpn.1_5'Flank	NM_021120	NP_066943	Q92796	DLG3_HUMAN	synapse-associated protein 102 isoform a	403	PDZ 3.				axon guidance|negative regulation of cell proliferation|synaptic transmission	plasma membrane	guanylate kinase activity			large_intestine(1)|pancreas(1)	2	Renal(35;0.156)					ATCGTAGGAGGAGAGGATGGAG	0.574													6	9	---	---	---	---						.	-	69673550	-	-	69673549	7	5	199	1	0	1	0	1	0	0	0	0	4562	1174	41	0	1376	0	DLG3	23	69673549	Frame_Shift_Del	DEL	GA	TCGA-HF-7132-01A-11D-2053-08	6228582	69673549	85597011	1295	98687											
SLC7A3	84889	broad.mit.edu	37	chrX	70147355	70147355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcaataatgccagagaccaCggtggctatgattggggtgc	10	9	14	8	1	0	2	0	1	0	1	0	3	0	2	2	4	3	2	2	4	3	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:70147355C>T	uc004dyn.2	-	7	1320	c.1162G>A	c.(1162-1164)GTG>ATG	p.V388M	SLC7A3_uc004dyo.2_Missense_Mutation_p.V388M	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	388	Helical; Name=9; (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CCAGAGACCACGGTGGCTATG	0.537													9	15					0	0	1	0	0		T	70147355	T	T	70147355	3	4	199	1	0	0	0	0	1	0	0	0	14723	536	19	1	721	1	SLC7A3	23	70147355	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	473806	70147355	85123205	1296	98688											
IL2RG	3561	broad.mit.edu	37	chrX	70329102	70329102	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtattgctcccccagtGgattgggtggctccattcac	7	12	11	11	0	1	1	1	1	0	0	3	2	3	2	3	3	1	3	3	3	2	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:70329102G>A	uc004dyw.1	-	5	747	c.733C>T	c.(733-735)CAC>TAC	p.H245Y	CXorf65_uc011mpo.1_5'Flank|CXorf65_uc011mpp.1_5'Flank|IL2RG_uc004dyv.1_Missense_Mutation_p.P6L|IL2RG_uc004dyx.1_Missense_Mutation_p.H55Y	NM_000206	NP_000197	P31785	IL2RG_HUMAN	interleukin 2 receptor, gamma precursor	245	Extracellular (Potential).				immune response|interleukin-4-mediated signaling pathway|interspecies interaction between organisms	external side of plasma membrane|integral to plasma membrane	cytokine receptor activity|interleukin-2 binding			pancreas(1)	1	Renal(35;0.156)				Aldesleukin(DB00041)|Denileukin diftitox(DB00004)	CTCCCCCAGTGGATTGGGTGG	0.517									Severe_Combined_Immunodeficiency_X-linked				8	24					0	0	1	0	0		A	70329102	A	A	70329102	3	1	199	1	0	0	0	0	1	0	0	0	7704	1348	47	4	392	4	IL2RG	23	70329102	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	181747	70329102	84941458	1297	98689											
ZNF711	7552	broad.mit.edu	37	chrX	84526109	84526109	+	Missense_Mutation	SNP	A	G	G	1	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	ttcgacatccttctgaactcAagaaacatatgagaacccat	15	10	5	11	1	2	3	1	2	1	2	4	5	3	3	2	0	3	0	2	0	5	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:84526109A>G	uc004eeo.2	+	9	1908	c.1561A>G	c.(1561-1563)AAG>GAG	p.K521E	ZNF711_uc004eep.2_Missense_Mutation_p.K521E|ZNF711_uc004eeq.2_Missense_Mutation_p.K567E|ZNF711_uc011mqy.1_Missense_Mutation_p.K120E	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	521	C2H2-type 4.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						TTCTGAACTCAAGAAACATAT	0.403													7	20					0	0	1	0	0		G	84526109	G	G	84526109	3	3	199	1	0	0	0	0	1	0	0	0	18141	131	5	3	1587	3	ZNF711	23	84526109	Missense_Mutation	SNP	A	TCGA-HF-7132-01A-11D-2053-08	14197007	84526109	70744451	1298	98690											
PCDH19	57526	broad.mit.edu	37	chrX	99551849	99551849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagaatccggcattcttccCggcaatgaaatccttcattc	11	11	6	13	2	2	2	1	1	1	1	6	2	5	2	3	2	0	2	3	2	4	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:99551849C>T	uc010nmz.2	-	6	4549	c.2873G>A	c.(2872-2874)CGG>CAG	p.R958Q	PCDH19_uc004efw.3_Missense_Mutation_p.R910Q|PCDH19_uc004efx.3_Missense_Mutation_p.R911Q	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	958	Cytoplasmic (Potential).		R -> Q.		homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						GCATTCTTCCCGGCAATGAAA	0.483													15	35					0	0	1	0	0		T	99551849	T	T	99551849	3	4	199	1	0	0	0	0	1	0	0	0	11533	652	23	1	577	1	PCDH19	23	99551849	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	15025740	99551849	55718711	1299	98691											
SRPX2	27286	broad.mit.edu	37	chrX	99920543	99920543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccatgcagggtgacacttCggggccctgagcctggctct	5	9	13	14	1	1	2	0	2	1	0	3	2	2	2	3	4	2	2	3	4	0	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:99920543C>T	uc004egb.2	+	7	1150	c.670C>T	c.(670-672)CGG>TGG	p.R224W		NM_014467	NP_055282	O60687	SRPX2_HUMAN	sushi-repeat-containing protein, X-linked 2	224	HYR.				angiogenesis|cell motility|cell-cell adhesion|positive regulation of cell migration involved in sprouting angiogenesis|regulation of phosphorylation	cytoplasm|extracellular region	receptor binding			ovary(2)	2						GGTGACACTTCGGGGCCCTGA	0.537													14	10					0	0	1	0	0		T	99920543	T	T	99920543	3	4	199	1	0	0	0	0	1	0	0	0	15190	875	31	1	692	1	SRPX2	23	99920543	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	368694	99920543	55350017	1300	98692											
ARMCX6	54470	broad.mit.edu	37	chrX	100871447	100871447	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatcaaaccaaatatcaggcTcctcctcatccagctcctgg	12	9	5	15	0	3	0	3	0	0	0	7	0	7	0	5	2	2	2	5	2	4	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:100871447T>C	uc004ehx.2	-	3	509	c.164A>G	c.(163-165)GAG>GGG	p.E55G	ARMCX6_uc004ehy.2_Missense_Mutation_p.E55G	NM_019007	NP_061880	Q7L4S7	ARMX6_HUMAN	armadillo repeat containing, X-linked 6	55						integral to membrane					0						AATATCAGGctcctcctcatc	0.358													10	16					0	0	1	0	0		C	100871447	C	C	100871447	3	2	199	1	0	0	0	0	1	0	0	0	964	1551	54	3	742	3	ARMCX6	23	100871447	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	950904	100871447	54399113	1301	98693											
GPRASP2	114928	broad.mit.edu	37	chrX	101971622	101971622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttattaatggacaaaattCgggatccttttattcatgaa	13	17	6	5	1	1	1	1	1	0	0	3	3	2	3	1	2	0	0	1	2	6	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:101971622C>T	uc004ejk.2	+	4	3159	c.1825C>T	c.(1825-1827)CGG>TGG	p.R609W	GPRASP2_uc004ejl.2_Missense_Mutation_p.R609W|GPRASP2_uc004ejm.2_Missense_Mutation_p.R609W|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	609						cytoplasm	protein binding			ovary(1)	1						GGACAAAATTCGGGATCCTTT	0.383													17	27					0	0	1	0	0		T	101971622	T	T	101971622	3	4	199	1	0	0	0	0	1	0	0	0	6739	875	31	1	1827	1	GPRASP2	23	101971622	Missense_Mutation	SNP	C	TCGA-HF-7132-01A-11D-2053-08	1100175	101971622	53298938	1302	98694											
VSIG1	340547	broad.mit.edu	37	chrX	107320332	107320332	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaagcaatgccaagagaagaCgctacccaactagaagtaac	18	4	9	10	1	0	3	0	0	0	3	0	5	0	3	2	0	5	3	2	0	9	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:107320332C>T	uc004eno.2	+	7	1046	c.885C>T	c.(883-885)GAC>GAT	p.D295D	VSIG1_uc011msk.1_Silent_p.D331D	NM_182607	NP_872413	Q86XK7	VSIG1_HUMAN	V-set and immunoglobulin domain containing 1	295	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						CAAGAGAAGACGCTACCCAAC	0.448													12	26					0	0	1	0	0		T	107320332	T	T	107320332	2	4	199	1	0	0	0	0	0	0	0	1	17248	535	19	1		1	VSIG1	23	107320332	Silent	SNP	C	TCGA-HF-7132-01A-11D-2053-08	5348710	107320332	47950228	1303	98695											
ZCCHC16	340595	broad.mit.edu	37	chrX	111698774	111698774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccccagccaaacgagcccGccagcaagaaactcagttgt	13	4	8	16	2	1	1	1	0	0	1	1	2	1	1	5	0	5	2	5	0	3	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:111698774G>A	uc004epo.1	+	3	1259	c.818G>A	c.(817-819)CGC>CAC	p.R273H		NM_001004308	NP_001004308	Q6ZR62	ZCH16_HUMAN	zinc finger, CCHC domain containing 16	273							nucleic acid binding|zinc ion binding			ovary(1)	1						AAACGAGCCCGCCAGCAAGAA	0.552													11	30					0	0	1	0	0		A	111698774	A	A	111698774	3	1	199	1	0	0	0	0	1	0	0	0	17609	1087	38	1	820	1	ZCCHC16	23	111698774	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4378442	111698774	43571786	1304	98696											
ZCCHC12	170261	broad.mit.edu	37	chrX	117959606	117959607	+	Frame_Shift_Ins	INS	-	T	T																															gtgtgactgcccatggtaaaINSttttttaacaccctacaagc																										TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:117959606_117959607insT	uc004equ.2	+	4	872_873	c.399_400insT	c.(397-402)AAATTTfs	p.K133fs		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	133_134					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						cccatggtaaattttttaacac	0													41	66	---	---	---	---						.	T	117959607	T	T	117959606	7	5	199	1	0	1	1	0	0	0	0	0	17606	98	4	0	401	0	ZCCHC12	23	117959606	Frame_Shift_Ins	INS	-	TCGA-HF-7132-01A-11D-2053-08	6260832	117959606	37310954	1305	98697											
THOC2	57187	broad.mit.edu	37	chrX	122799589	122799589	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taacagaacatattgaacacGtctctcctcaaatcttcaaa	16	11	3	11	1	4	2	2	1	2	1	6	2	5	2	1	0	3	0	1	0	6	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:122799589G>A	uc004etu.2	-	12	1322	c.1290C>T	c.(1288-1290)GAC>GAT	p.D430D	THOC2_uc011muh.1_Silent_p.D351D|THOC2_uc011mui.1_Silent_p.D315D	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	430					intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TATTGAACACGTCTCTCCTCA	0.423													22	54					0	0	1	0	0		A	122799589	A	A	122799589	2	1	199	1	0	0	0	0	0	0	0	1	15890	1136	40	1		1	THOC2	23	122799589	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	4839983	122799589	32470971	1306	98698											
ODZ1	10178	broad.mit.edu	37	chrX	123518350	123518350	+	Missense_Mutation	SNP	T	C	C	0	1	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	catctactcctacccttatgTcacatattaccatgcggccc	9	12	4	16	1	2	0	1	0	1	0	3	0	3	0	4	1	4	0	4	1	5	5			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:123518350T>C	uc004euj.2	-	29	6474	c.6410A>G	c.(6409-6411)GAC>GGC	p.D2137G	ODZ1_uc011muj.1_Missense_Mutation_p.D2143G|ODZ1_uc010nqy.2_Missense_Mutation_p.D2144G	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2137	Extracellular (Potential).			MVICD -> HGNMC (in Ref. 1; AAF04723).	immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|skin(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	23						TACCCTTATGTCACATATTAC	0.408													3	108					0	0	1	0	0		C	123518350	C	C	123518350	3	2	199	1	0	0	0	0	1	0	0	0	10853	1667	58	3	1779	3	ODZ1	23	123518350	Missense_Mutation	SNP	T	TCGA-HF-7132-01A-11D-2053-08	718761	123518350	31752210	1307	98699											
SMARCA1	6594	broad.mit.edu	37	chrX	128615123	128615123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgcgtagtttgctttgcGttctcgtttaggaggttcaa	6	16	11	8	3	2	0	1	0	1	0	3	1	2	1	0	2	3	6	0	2	3	7			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:128615123G>A	uc004eun.3	-	18	2370	c.2257C>T	c.(2257-2259)CGC>TGC	p.R753C	SMARCA1_uc004eup.3_Missense_Mutation_p.R741C|SMARCA1_uc011muk.1_Missense_Mutation_p.R753C|SMARCA1_uc011mul.1_Missense_Mutation_p.R741C	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	753					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						TTTGCTTTGCGTTCTCGTTTA	0.418													9	20					0	0	1	0	0		A	128615123	A	A	128615123	3	1	199	1	0	0	0	0	1	0	0	0	14793	1145	40	1	935	1	SMARCA1	23	128615123	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	5096773	128615123	26655437	1308	98700											
SASH3	54440	broad.mit.edu	37	chrX	128925043	128925043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacttccggtgctcagccGccaggcatcaacaggtgagt	9	8	12	12	2	2	2	2	2	0	0	3	2	3	2	3	3	4	2	3	3	2	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:128925043G>A	uc011mun.1	+	4	610	c.428G>A	c.(427-429)CGC>CAC	p.R143H	SASH3_uc004euu.2_Missense_Mutation_p.R143H|SASH3_uc011muo.1_Missense_Mutation_p.R60H	NM_018990	NP_061863	O75995	SASH3_HUMAN	SAM and SH3 domain containing 3	143										ovary(2)|pancreas(1)	3						GTGCTCAGCCGCCAGGCATCA	0.617													17	26					0	0	1	0	0		A	128925043	A	A	128925043	3	1	199	1	0	0	0	0	1	0	0	0	13874	1087	38	1	442	1	SASH3	23	128925043	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	309920	128925043	26345517	1309	98701											
HS6ST2	90161	broad.mit.edu	37	chrX	132090966	132090966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagaagagccaggtttcccGcttacccggccggtggcaag	8	6	15	12	3	0	2	0	0	0	2	1	3	1	2	4	5	2	3	4	5	3	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:132090966G>A	uc011mve.1	-	3	1233	c.817C>T	c.(817-819)CGG>TGG	p.R273W	HS6ST2_uc011mvb.1_Missense_Mutation_p.R127W|HS6ST2_uc011mvc.1_Missense_Mutation_p.R127W|HS6ST2_uc011mvd.1_Missense_Mutation_p.R273W	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	273	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					CAGGTTTCCCGCTTACCCGGC	0.652													4	2					0	0	1	0	0		A	132090966	A	A	132090966	3	1	199	1	0	0	0	0	1	0	0	0	7387	1086	38	1	1136	1	HS6ST2	23	132090966	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	3165923	132090966	23179594	1310	98702											
MCF2	4168	broad.mit.edu	37	chrX	138713596	138713596	+	Silent	SNP	G	A	A	0	0	1	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	ctgtggcagtactgcaaggtGccgcctaactcaggggttaa	9	9	13	10	1	1	0	1	0	0	0	1	0	1	0	2	4	4	4	2	4	4	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:138713596G>A	uc004fau.2	-	3	540	c.246C>T	c.(244-246)GGC>GGT	p.G82G	MCF2_uc004fav.2_Silent_p.G82G|MCF2_uc011mwl.1_Intron|MCF2_uc010nsh.1_Silent_p.G82G|MCF2_uc011mwm.1_Intron|MCF2_uc011mwn.1_Silent_p.G227G|MCF2_uc004faw.2_Silent_p.G142G|MCF2_uc011mwo.1_Silent_p.G142G	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	82	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ACTGCAAGGTGCCGCCTAACT	0.388													37	54					0	0	1	0	0		A	138713596	A	A	138713596	2	1	199	1	0	0	0	0	0	0	0	1	9396	1306	46	2		2	MCF2	23	138713596	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	6622630	138713596	16556964	1311	98703											
ATP2B3	492	broad.mit.edu	37	chrX	152823744	152823744	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgatcgtggccttcacaGgtgcctgcattactcaggtg	6	12	12	11	1	2	1	2	1	0	0	3	1	2	1	2	3	3	1	2	3	1	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:152823744G>T	uc004fht.1	+	15	2734	c.2608G>T	c.(2608-2610)GGT>TGT	p.G870C	ATP2B3_uc004fhs.1_Missense_Mutation_p.G870C|ATP2B3_uc010nuf.1_5'Flank	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	870	Extracellular (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GGCCTTCACAGGTGCCTGCAT	0.567													8	70					0.000978159	0.0010035	1	1	0		T	152823744	T	T	152823744	3	4	199	1	0	0	0	0	1	0	0	0	1142	1000	35	5	2666	5	ATP2B3	23	152823744	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	14110148	152823744	2446816	1312	98704											
AVPR2	554	broad.mit.edu	37	chrX	153171113	153171113	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatagtctttgtggctgtGgccctgagcaatggcctggt	5	13	13	10	0	1	1	0	1	1	0	2	1	2	1	3	4	1	2	3	4	2	2			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:153171113G>T	uc004fjh.3	+	2	224	c.153G>T	c.(151-153)GTG>GTT	p.V51V	AVPR2_uc004fjg.3_Intron|AVPR2_uc004fji.2_Silent_p.V51V	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	51	Helical; Name=1; (Potential).				activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	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)|Terlipressin(DB02638)|Vasopressin(DB00067)	TTGTGGCTGTGGCCCTGAGCA	0.697													11	6					3.27435e-08	3.52715e-08	1	1	0		T	153171113	T	T	153171113	2	4	199	1	0	0	0	0	0	0	0	1	1234	1335	47	5		5	AVPR2	23	153171113	Silent	SNP	G	TCGA-HF-7132-01A-11D-2053-08	347369	153171113	2099447	1313	98705											
F8	2157	broad.mit.edu	37	chrX	154157611	154157611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtatgtgactgaatttgtgGcacttgtccccagggagcca	8	12	12	9	0	0	2	0	2	0	0	1	3	1	3	3	2	1	2	3	2	2	3			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrX:154157611G>A	uc004fmt.2	-	14	4625	c.4454C>T	c.(4453-4455)GCC>GTC	p.A1485V		NM_000132	NP_000123	P00451	FA8_HUMAN	coagulation factor VIII isoform a precursor	1485	B.				acute-phase response|blood coagulation, intrinsic pathway|cell adhesion|platelet activation|platelet degranulation	extracellular space|plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity|protein binding			ovary(5)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	11	all_cancers(53;7.19e-17)|all_epithelial(53;9.83e-11)|all_lung(58;6.63e-07)|Lung NSC(58;2.08e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)	TGAATTTGTGGCACTTGTCCC	0.423													8	24					0	0	1	0	0		A	154157611	A	A	154157611	3	1	199	1	0	0	0	0	1	0	0	0	5358	1203	42	2	2681	2	F8	23	154157611	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	986498	154157611	1112949	1314	98706											
USP9Y	8287	broad.mit.edu	37	chrY	14968300	14968300	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taaaggaattccagatgacaGagatgggctgttcgatacaa	15	9	11	6	1	0	3	0	1	0	2	2	6	1	4	1	2	1	2	1	2	5	4			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrY:14968300G>A	uc004fst.1	+	43	8045	c.7100G>A	c.(7099-7101)AGA>AAA	p.R2367K	USP9Y_uc010nwu.1_RNA	NM_004654	NP_004645	O00507	USP9Y_HUMAN	ubiquitin specific protease 9, Y-linked	2367					BMP signaling pathway|protein deubiquitination|spermatogenesis|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity				0						CCAGATGACAGAGATGGGCTG	0.313													5	17					0	0	1	0	0		A	14968300	A	A	14968300	3	1	199	1	0	0	0	0	1	0	0	0	17117	942	33	4	7262	4	USP9Y	24	14968300	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08		14968300	44405266	1315	98707											
NLGN4Y	22829	broad.mit.edu	37	chrY	16941639	16941639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaggccatcattcagagcGgcactgccctgtccagctgg	9	7	12	13	1	2	2	2	0	0	2	3	2	3	2	3	3	3	2	3	3	1	1			TCGA-HF-7132-01A-11D-2053-08	TCGA-HF-7132-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	e024a76a-01c8-4d44-8569-f4459a61ab9f	e18c9bee-e86d-4260-a286-c74e82550ad3	g.chrY:16941639G>A	uc004ftg.2	+	5	1093	c.841G>A	c.(841-843)GGC>AGC	p.G281S	NLGN4Y_uc004fte.2_Missense_Mutation_p.G113S|NLGN4Y_uc011nas.1_Missense_Mutation_p.G301S|NLGN4Y_uc004ftf.2_5'UTR|NLGN4Y_uc004fth.2_Missense_Mutation_p.G281S	NM_014893	NP_055708	Q8NFZ3	NLGNY_HUMAN	neuroligin 4, Y-linked isoform 1	281	Extracellular (Potential).				brainstem development|cell adhesion|cerebellum development|male courtship behavior|positive regulation of organ growth|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|integral to plasma membrane|synapse	neurexin binding|receptor activity				0						CATTCAGAGCGGCACTGCCCT	0.527													4	23					0	0	1	0	0		A	16941639	A	A	16941639	3	1	199	1	0	0	0	0	1	0	0	0	10484	1116	39	1	1009	1	NLGN4Y	24	16941639	Missense_Mutation	SNP	G	TCGA-HF-7132-01A-11D-2053-08	1973339	16941639	42431927	1316	98708											
SLC2A5	6518	broad.mit.edu	37	chr1	9117573	9117573	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accctccaaatggaaacatgGacacggttacagaccacagc	15	5	8	13	1	0	1	0	0	0	1	1	3	1	3	3	3	3	1	3	3	3	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:9117573G>A	uc001apo.2	-	3	519	c.227C>T	c.(226-228)TCC>TTC	p.S76F	SLC2A5_uc010nzz.1_Intron|SLC2A5_uc010oaa.1_Missense_Mutation_p.S32F|SLC2A5_uc010oab.1_Missense_Mutation_p.S76F|SLC2A5_uc010oac.1_Missense_Mutation_p.S76F|SLC2A5_uc001app.3_Missense_Mutation_p.S76F	NM_003039	NP_003030	P22732	GTR5_HUMAN	solute carrier family 2 (facilitated	76	Helical; Name=2; (Potential).				carbohydrate metabolic process	integral to membrane|plasma membrane	fructose transmembrane transporter activity|glucose transmembrane transporter activity			pancreas(2)|ovary(1)	3	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;7.78e-07)|COAD - Colon adenocarcinoma(227;8.83e-05)|Kidney(185;0.000286)|KIRC - Kidney renal clear cell carcinoma(229;0.00103)|STAD - Stomach adenocarcinoma(132;0.0019)|BRCA - Breast invasive adenocarcinoma(304;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		TGGAAACATGGACACGGTTAC	0.453													12	24					0	0	1	0	0		A	9117573	A	A	9117573	3	1	200	1	0	0	0	0	1	0	0	0	14573	1174	41	4	1482	4	SLC2A5	1	9117573	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		9117573	240133048	1	98709											
ARHGEF19	128272	broad.mit.edu	37	chr1	16531296	16531296	+	Missense_Mutation	SNP	A	C	C	1	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	agcagtcattgaagaggtggAggtagactgccttgctggac	10	9	15	7	0	1	3	1	1	0	2	1	5	1	5	1	4	3	3	1	4	2	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:16531296A>C	uc001ayc.1	-	12	2002	c.1865T>G	c.(1864-1866)CTC>CGC	p.L622R	ARHGEF19_uc009voo.1_5'UTR|ARHGEF19_uc001ayb.1_Missense_Mutation_p.L99R	NM_153213	NP_694945	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	622	PH.				regulation of actin cytoskeleton organization	intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		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)		GAAGAGGTGGAGGTAGACTGC	0.622													8	19					0	0	1	0	0		C	16531296	C	C	16531296	3	2	200	1	0	0	0	0	1	0	0	0	902	304	11	5	563	5	ARHGEF19	1	16531296	Missense_Mutation	SNP	A	TCGA-HF-7133-01A-11D-2053-08	7413723	16531296	232719325	2	98710											
CSMD2	114784	broad.mit.edu	37	chr1	34128512	34128512	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaattgaatggcaaagccCtgcttgctggtgaagaagtc	13	9	12	7	0	0	3	0	2	0	1	1	4	0	3	1	2	3	3	1	2	6	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:34128512C>T	uc001bxn.1	-	26	4142	c.4113G>A	c.(4111-4113)CAG>CAA	p.Q1371Q	CSMD2_uc001bxm.1_Silent_p.Q1411Q|CSMD2_uc001bxo.1_Silent_p.Q284Q	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1371	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGGCAAAGCCCTGCTTGCTGG	0.587													50	186					0	0	1	0	0		T	34128512	T	T	34128512	2	4	200	1	0	0	0	0	0	0	0	1	3948	680	24	4		4	CSMD2	1	34128512	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08	17597216	34128512	215122109	3	98711											
AGBL4	84871	broad.mit.edu	37	chr1	49056558	49056558	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttgggaaaaatggcctgccTctggaaccgttcctcatcct	8	11	9	13	1	2	0	1	0	1	0	4	2	4	2	5	3	2	1	5	3	3	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:49056558T>C	uc001cru.2	-	10	1209	c.1051A>G	c.(1051-1053)AGG>GGG	p.R351G	AGBL4_uc010omw.1_Missense_Mutation_p.R84G|AGBL4_uc010omx.1_Missense_Mutation_p.R363G|AGBL4_uc001crv.1_Missense_Mutation_p.R204G|AGBL4_uc010omy.1_Missense_Mutation_p.R174G	NM_032785	NP_116174	Q5VU57	CBPC6_HUMAN	ATP/GTP binding protein-like 4	351					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2				Colorectal(2;0.00349)|COAD - Colon adenocarcinoma(2;0.0037)		ATGGCCTGCCTCTGGAACCGT	0.517													3	15					0	0	1	0	0		C	49056558	C	C	49056558	3	2	200	1	0	0	0	0	1	0	0	0	377	1550	54	3	480	3	AGBL4	1	49056558	Missense_Mutation	SNP	T	TCGA-HF-7133-01A-11D-2053-08	14928046	49056558	200194063	4	98712											
COL11A1	1301	broad.mit.edu	37	chr1	103444943	103444943	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttatatatcatacccgtgCacctttctctccattggcac	9	15	4	13	1	2	0	1	0	1	0	4	0	3	0	3	1	2	2	3	1	4	7			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:103444943C>A	uc001dul.2	-	32	2923	c.2605G>T	c.(2605-2607)GCA>TCA	p.A869S	COL11A1_uc001duk.2_Missense_Mutation_p.A65S|COL11A1_uc001dum.2_Missense_Mutation_p.A881S|COL11A1_uc001dun.2_Missense_Mutation_p.A830S|COL11A1_uc009weh.2_Missense_Mutation_p.A753S	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	869	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CATACCCGTGCACCTTTCTCT	0.254													3	13					0.00024832	0.000252358	1	1	0		A	103444943	A	A	103444943	3	1	200	1	0	0	0	0	1	0	0	0	3670	710	25	5	2959	5	COL11A1	1	103444943	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	54388385	103444943	145805678	5	98713											
NTNG1	22854	broad.mit.edu	37	chr1	107691253	107691253	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtcgattcatgccctttGggttacggtgtcctcagtga	5	14	11	11	2	2	1	2	1	0	0	4	2	3	1	3	2	2	1	3	2	1	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:107691253G>A	uc001dvh.3	+	2	756	c.38G>A	c.(37-39)TGG>TAG	p.W13*	NTNG1_uc001dvf.3_Nonsense_Mutation_p.W13*|NTNG1_uc010out.1_Nonsense_Mutation_p.W13*|NTNG1_uc001dvc.3_Nonsense_Mutation_p.W13*|NTNG1_uc001dvd.1_Nonsense_Mutation_p.W13*	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	13					axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CATGCCCTTTGGGTTACGGTG	0.413													31	81					0	0	1	0	0		A	107691253	A	A	107691253	4	1	200	1	0	0	0	0	0	1	0	0	10723	1357	47	4	40	4	NTNG1	1	107691253	Nonsense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	4246310	107691253	141559368	6	98714											
FAM63A	55793	broad.mit.edu	37	chr1	150974704	150974704	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caagggccgttagtgctctgGgtgatgatgggtgtctgttc	5	13	16	7	1	2	2	0	2	2	0	3	2	2	2	1	3	1	3	1	3	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:150974704G>A	uc001ewf.2	-	3	2074	c.390C>T	c.(388-390)ACC>ACT	p.T130T	FAM63A_uc001ewc.2_5'UTR|FAM63A_uc010pcm.1_Silent_p.T35T|FAM63A_uc001ewd.2_5'UTR|FAM63A_uc001ewe.2_Intron|FAM63A_uc010pcn.1_Silent_p.T178T|FAM63A_uc001ewg.2_Silent_p.T130T	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	130							protein binding			ovary(1)	1	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TAGTGCTCTGGGTGATGATGG	0.517													97	136					0	0	1	0	0		A	150974704	A	A	150974704	2	1	200	1	0	0	0	0	0	0	0	1	5610	1219	43	4		4	FAM63A	1	150974704	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08	43283451	150974704	98275917	7	98715											
FLG	2312	broad.mit.edu	37	chr1	152277360	152277360	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggcctgactaccactggaCccccagtgtctactgtctct	6	11	8	16	0	2	1	0	1	2	0	3	2	2	2	4	2	2	0	4	2	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:152277360C>A	uc001ezu.1	-	3	10038	c.10002G>T	c.(10000-10002)GGG>GGT	p.G3334G		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3334	Filaggrin 20.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TACCACTGGACCCCCAGTGTC	0.582									Ichthyosis				123	749					2.04286e-61	2.27998e-61	1	1	0		A	152277360	A	A	152277360	2	1	200	1	0	0	0	0	0	0	0	1	5936	494	18	5		5	FLG	1	152277360	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08	1302656	152277360	96973261	8	98716											
FLG	2312	broad.mit.edu	37	chr1	152277694	152277694	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctcagagtcttctgaatgtCcctcactgtcactgtcctgg	6	14	8	13	0	5	2	3	1	3	1	8	2	7	2	2	1	0	0	2	1	1	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:152277694C>A	uc001ezu.1	-	3	9704	c.9668G>T	c.(9667-9669)GGA>GTA	p.G3223V		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3223	Filaggrin 19.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCTGAATGTCCCTCACTGTC	0.577									Ichthyosis				109	378					1.05862e-61	1.19213e-61	1	1	0		A	152277694	A	A	152277694	3	1	200	1	0	0	0	0	1	0	0	0	5936	855	30	5	2521	5	FLG	1	152277694	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	334	152277694	96972927	9	98717											
NES	10763	broad.mit.edu	37	chr1	156640628	156640628	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggggtggttccatcacctCttccctggtcagatggcctg	5	11	12	13	0	3	1	2	0	1	1	5	1	5	1	4	5	0	1	4	5	0	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:156640628C>G	uc001fpq.2	-	4	3485	c.3352G>C	c.(3352-3354)GAG>CAG	p.E1118Q		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1118	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCCATCACCTCTTCCCTGGTC	0.652													25	93					0	0	1	0	0		G	156640628	G	G	156640628	3	3	200	1	0	0	0	0	1	0	0	0	10356	922	32	5	1517	5	NES	1	156640628	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	4362934	156640628	92609993	10	98718											
ZNF648	127665	broad.mit.edu	37	chr1	182026767	182026767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttgtgtgcgagaccactggGaagggaacccagagctctgc	9	8	14	10	1	1	2	0	0	1	2	1	5	1	4	2	2	4	1	2	2	2	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:182026767G>A	uc001goz.2	-	2	587	c.379C>T	c.(379-381)CCC>TCC	p.P127S		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGACCACTGGGAAGGGAACCC	0.557													34	140					0	0	1	0	0		A	182026767	A	A	182026767	3	1	200	1	0	0	0	0	1	0	0	0	18088	1174	41	4	1331	4	ZNF648	1	182026767	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	25386139	182026767	67223854	11	98719											
HSD11B1	3290	broad.mit.edu	37	chr1	209880290	209880290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatagccatctcttgcaggaGgactagacatgctcattctc	10	12	8	11	0	3	1	1	0	2	1	5	3	3	3	1	2	3	2	1	2	3	5			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr1:209880290G>A	uc001hhj.2	+	5	441	c.334G>A	c.(334-336)GGA>AGA	p.G112R	HSD11B1_uc001hhk.2_Missense_Mutation_p.G112R	NM_181755	NP_861420	P28845	DHI1_HUMAN	11-beta-hydroxysteroid dehydrogenase 1	112	Lumenal (Potential).				glucocorticoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	11-beta-hydroxysteroid dehydrogenase (NADP+) activity|11-beta-hydroxysteroid dehydrogenase|binding			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;1.04e-55)|Epithelial(68;1.57e-52)|all cancers(67;1.83e-46)|Colorectal(1306;0.115)	NADH(DB00157)	TCTTGCAGGAGGACTAGACAT	0.438													32	104					0	0	1	0	0		A	209880290	A	A	209880290	3	1	200	1	0	0	0	0	1	0	0	0	7391	1001	35	4	348	4	HSD11B1	1	209880290	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	27853523	209880290	39370331	12	98720											
PXDN	7837	broad.mit.edu	37	chr2	1647316	1647316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatctgagtcagctgggccGgggagaacaccccagggttc	8	7	15	11	1	2	3	1	2	1	1	3	4	2	3	3	4	2	2	3	4	1	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:1647316G>A	uc002qxa.2	-	19	3840	c.3776C>T	c.(3775-3777)CCG>CTG	p.P1259L		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1259					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CAGCTGGGCCGGGGAGAACAC	0.587													22	87					0	0	1	0	0		A	1647316	A	A	1647316	3	1	200	1	0	0	0	0	1	0	0	0	12872	1116	39	1	683	1	PXDN	2	1647316	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		1647316	241552057	13	98721											
KIDINS220	57498	broad.mit.edu	37	chr2	8873723	8873723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcggcgagcaggctcacCgtgcggggctgggccactgc	5	4	18	14	5	1	0	1	0	0	0	1	1	1	0	2	5	4	3	2	5	0	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:8873723C>T	uc002qzc.2	-	29	4086	c.3904G>A	c.(3904-3906)GGT>AGT	p.G1302S	KIDINS220_uc010yiv.1_Missense_Mutation_p.G1011S|KIDINS220_uc002qzd.2_Missense_Mutation_p.G1203S|KIDINS220_uc002qzb.2_Missense_Mutation_p.G156S	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1302	Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GCAGGCTCACCGTGCGGGGCT	0.577													41	104					0	0	1	0	0		T	8873723	T	T	8873723	3	4	200	1	0	0	0	0	1	0	0	0	8287	652	23	1	1419	1	KIDINS220	2	8873723	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	7226407	8873723	234325650	14	98722											
THADA	63892	broad.mit.edu	37	chr2	43732809	43732809	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaggcccagccaaagagatTaactctttcattgttatttt	11	15	7	8	0	2	1	1	0	1	1	2	2	2	1	2	1	2	2	2	1	4	7			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:43732809T>C	uc002rsw.3	-	24	3925	c.3573A>G	c.(3571-3573)TTA>TTG	p.L1191L	THADA_uc010far.2_Silent_p.L460L|THADA_uc002rsx.3_Silent_p.L1191L|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Silent_p.L900L|THADA_uc010fat.1_Silent_p.L338L|THADA_uc002rta.2_Silent_p.L901L	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1191							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CCAAAGAGATTAACTCTTTCA	0.368													3	3					0	0	1	0	0		C	43732809	C	C	43732809	2	2	200	1	0	0	0	0	0	0	0	1	15865	1751	61	3		3	THADA	2	43732809	Silent	SNP	T	TCGA-HF-7133-01A-11D-2053-08	34859086	43732809	199466564	15	98723											
LRRTM1	347730	broad.mit.edu	37	chr2	80529981	80529981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacgaggctagggcacacaCgttgcgcccgcaatcccaca	10	4	10	17	4	0	0	0	0	0	0	1	1	1	0	3	2	1	4	3	2	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:80529981C>T	uc002sok.1	-	2	1234	c.964G>A	c.(964-966)GTG>ATG	p.V322M	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	322	LRRCT.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						AGGGCACACACGTTGCGCCCG	0.632										HNSCC(69;0.2)			12	46					0	0	1	0	0		T	80529981	T	T	80529981	3	4	200	1	0	0	0	0	1	0	0	0	9057	536	19	1	608	1	LRRTM1	2	80529981	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	36797172	80529981	162669392	16	98724											
ITGA4	3676	broad.mit.edu	37	chr2	182322539	182322539	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccccacaacacgctgttcgGctactcggtcgtgctgcaca	7	8	9	17	4	0	0	0	0	0	0	3	0	0	0	2	2	4	5	2	2	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:182322539G>T	uc002unu.2	+	1	921	c.158G>T	c.(157-159)GGC>GTC	p.G53V	ITGA4_uc002unt.2_Missense_Mutation_p.G53V|ITGA4_uc010zfl.1_Missense_Mutation_p.G53V	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	53	FG-GAP 1.|Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	ACGCTGTTCGGCTACTCGGTC	0.647													12	22					3.45872e-05	3.54377e-05	1	1	0		T	182322539	T	T	182322539	3	4	200	1	0	0	0	0	1	0	0	0	7894	1203	42	5	160	5	ITGA4	2	182322539	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	101792558	182322539	60876834	17	98725											
ICA1L	130026	broad.mit.edu	37	chr2	203693599	203693599	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagcatccagttcagcatcaGacgccaccaagtgctcatcc	11	8	7	15	1	3	1	3	0	0	1	5	1	5	1	4	0	3	4	4	0	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:203693599G>C	uc002uzh.1	-	3	298	c.134C>G	c.(133-135)TCT>TGT	p.S45C	ICA1L_uc002uzi.1_Missense_Mutation_p.S45C|ICA1L_uc002uzj.2_Missense_Mutation_p.S45C|ICA1L_uc002uzk.1_Missense_Mutation_p.S45C	NM_138468	NP_612477	Q8NDH6	ICA1L_HUMAN	islet cell autoantigen 1,69kDa-like isoform 1	45	AH.										0						TTCAGCATCAGACGCCACCAA	0.403													27	49					0	0	1	0	0		C	203693599	C	C	203693599	3	2	200	1	0	0	0	0	1	0	0	0	7494	942	33	5	1376	5	ICA1L	2	203693599	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	21371060	203693599	39505774	18	98726											
ALPPL2	251	broad.mit.edu	37	chr2	233274532	233274532	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgtggtccccgcgttgcttCctctgctggcagggaccttg	2	11	13	15	3	1	0	0	0	1	0	3	1	3	1	5	3	2	4	5	3	0	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:233274532C>A	uc002vss.3	+	11	1602	c.1549C>A	c.(1549-1551)CCT>ACT	p.P517T		NM_031313	NP_112603	P10696	PPBN_HUMAN	placental-like alkaline phosphatase	517					phosphorylation	anchored to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			skin(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)	Amifostine(DB01143)|Levamisole(DB00848)	CGCGTTGCTTCCTCTGCTGGC	0.746													17	26					6.94344e-10	7.41821e-10	1	1	0		A	233274532	A	A	233274532	3	1	200	1	0	0	0	0	1	0	0	0	549	855	30	5	1591	5	ALPPL2	2	233274532	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	29580933	233274532	9924841	19	98727											
ALPI	248	broad.mit.edu	37	chr2	233323432	233323432	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgttcaactcaggcgtgcGaccagacgtgaatgagagcg	10	7	14	10	5	2	3	2	2	0	2	2	5	2	3	1	1	3	1	1	1	2	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr2:233323432G>A	uc002vst.3	+	10	1351	c.1274G>A	c.(1273-1275)CGA>CAA	p.R425Q	ALPI_uc002vsu.3_Missense_Mutation_p.R336Q	NM_001631	NP_001622	P09923	PPBI_HUMAN	intestinal alkaline phosphatase precursor	425					phosphorylation	anchored to membrane|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding|protein binding			central_nervous_system(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;1.64e-16)|Kidney(3;9.71e-08)|KIRC - Kidney renal clear cell carcinoma(3;2.74e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000763)|Lung(119;0.00564)|LUSC - Lung squamous cell carcinoma(224;0.00746)		TCAGGCGTGCGACCAGACGTG	0.652													43	39					0	0	1	0	0		A	233323432	A	A	233323432	3	1	200	1	0	0	0	0	1	0	0	0	543	1058	37	1	1312	1	ALPI	2	233323432	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	48900	233323432	9875941	20	98728											
RBM5	10181	broad.mit.edu	37	chr3	50147860	50147860	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagtacacaggccccagccGcttcccctactggtgtagtt	8	9	9	15	1	0	0	0	0	0	0	1	0	1	0	5	2	3	4	5	2	4	5			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr3:50147860G>A	uc003cyg.2	+	16	1475	c.1327G>A	c.(1327-1329)GCT>ACT	p.A443T	RBM5_uc011bdj.1_Missense_Mutation_p.A387T|RBM5_uc011bdk.1_Missense_Mutation_p.A271T|RBM5_uc003cyh.2_5'Flank	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	443	Required for interaction with U2AF2.				apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GGCCCCAGCCGCTTCCCCTAC	0.453													7	34					0	0	1	0	0		A	50147860	A	A	50147860	3	1	200	1	0	0	0	0	1	0	0	0	13168	1087	38	1	1385	1	RBM5	3	50147860	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		50147860	147874570	21	98729											
KCTD6	200845	broad.mit.edu	37	chr3	58487062	58487062	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccaacccagtggctgtcatCataacgcaactaaccatcac	13	8	5	15	1	3	0	3	0	0	0	4	0	4	0	3	1	4	2	3	1	4	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr3:58487062C>T	uc003dkj.3	+	3	534	c.417C>T	c.(415-417)ATC>ATT	p.I139I	KCTD6_uc003dki.3_Silent_p.I139I|KCTD6_uc003dkk.3_Silent_p.I139I	NM_001128214	NP_001121686	Q8NC69	KCTD6_HUMAN	potassium channel tetramerisation domain	139						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000177)|Kidney(10;0.00229)|KIRC - Kidney renal clear cell carcinoma(10;0.00258)|OV - Ovarian serous cystadenocarcinoma(275;0.148)		TGGCTGTCATCATAACGCAAC	0.423													24	75					0	0	1	0	0		T	58487062	T	T	58487062	2	4	200	1	0	0	0	0	0	0	0	1	8129	816	29	4		4	KCTD6	3	58487062	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08	8339202	58487062	139535368	22	98730											
WDR49	151790	broad.mit.edu	37	chr3	167223127	167223127	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttataacttcaccataataaGgtttttgtgtttctttcatg	10	20	5	6	0	3	0	2	0	1	0	3	0	3	0	1	1	1	2	1	1	4	9			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr3:167223127G>T	uc003fev.1	-	13	2102	c.1796C>A	c.(1795-1797)CCT>CAT	p.P599H	WDR49_uc003feu.1_Missense_Mutation_p.P424H|WDR49_uc011bpd.1_Missense_Mutation_p.P564H|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	599										large_intestine(1)|ovary(1)|skin(1)	3						ACCATAATAAGGTTTTTGTGT	0.259													4	12					0.00909568	0.00909568	1	1	0		T	167223127	T	T	167223127	3	4	200	1	0	0	0	0	1	0	0	0	17328	1000	35	5	309	5	WDR49	3	167223127	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	108736065	167223127	30799303	23	98731											
AASDH	132949	broad.mit.edu	37	chr4	57221393	57221393	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaatcctataaatggtcGcccaacttgatacctctgtg	10	12	8	11	1	1	1	0	1	1	0	3	2	2	2	3	2	2	0	3	2	6	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr4:57221393G>A	uc003hbn.2	-	6	1211	c.1058C>T	c.(1057-1059)GCG>GTG	p.A353V	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Missense_Mutation_p.A200V|AASDH_uc003hbo.2_Missense_Mutation_p.A253V|AASDH_uc011cab.1_5'UTR|AASDH_uc010ihc.2_Missense_Mutation_p.A353V|AASDH_uc003hbp.2_Missense_Mutation_p.A353V	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	353					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				ATAAATGGTCGCCCAACTTGA	0.373													9	17					0	0	1	0	0		A	57221393	A	A	57221393	3	1	200	1	0	0	0	0	1	0	0	0	22	1087	38	1	2278	1	AASDH	4	57221393	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		57221393	133932883	24	98732											
LRRC14B	389257	broad.mit.edu	37	chr5	195112	195112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcgccagctcaagttcctcGggaacccgctgtcggcccgc	5	7	12	17	5	1	0	1	0	0	0	4	1	2	1	4	2	3	3	4	2	2	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:195112G>A	uc003jal.1	+	2	1217	c.1189G>A	c.(1189-1191)GGG>AGG	p.G397R		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	397	LRR 5.									skin(1)	1						CAAGTTCCTCGGGAACCCGCT	0.662													20	48					0	0	1	0	0		A	195112	A	A	195112	3	1	200	1	0	0	0	0	1	0	0	0	8987	1116	39	1	1195	1	LRRC14B	5	195112	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		195112	180720148	25	98733											
PDZD2	23037	broad.mit.edu	37	chr5	32088031	32088031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggctgctggtgcccccGcctacccacaatgggcctcc	4	7	11	19	1	0	0	0	0	0	0	1	0	1	0	7	3	3	2	7	3	2	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:32088031G>A	uc003jhl.2	+	20	4865	c.4477G>A	c.(4477-4479)GCC>ACC	p.A1493T	PDZD2_uc003jhm.2_Missense_Mutation_p.A1493T	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1493					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TGGTGCCCCCGCCTACCCACA	0.592													12	39					0	0	1	0	0		A	32088031	A	A	32088031	3	1	200	1	0	0	0	0	1	0	0	0	11720	1087	38	1	4551	1	PDZD2	5	32088031	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	31892919	32088031	148827229	26	98734											
DEPDC1B	55789	broad.mit.edu	37	chr5	59983029	59983029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccgtaacggcatcttagcaCgaaaaagctccacggtctca	12	8	8	13	4	2	0	1	0	2	0	5	1	4	0	2	2	3	4	2	2	4	2	rs141738735		TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:59983029C>T	uc003jsh.2	-	2	147	c.74G>A	c.(73-75)CGT>CAT	p.R25H	DEPDC1B_uc011cqm.1_Missense_Mutation_p.R25H|DEPDC1B_uc011cqn.1_Translation_Start_Site	NM_018369	NP_060839	Q8WUY9	DEP1B_HUMAN	DEP domain containing 1B isoform 1	25	DEP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)	1		Lung NSC(810;0.000214)|Prostate(74;0.0147)|Breast(144;0.0991)|Ovarian(174;0.17)				CATCTTAGCACGAAAAAGCTC	0.428													29	57					0	0	1	0	0		T	59983029	T	T	59983029	3	4	200	1	0	0	0	0	1	0	0	0	4446	536	19	1	1555	1	DEPDC1B	5	59983029	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	27894998	59983029	120932231	27	98735											
MAP1B	4131	broad.mit.edu	37	chr5	71495792	71495792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	acatggacccacctccagctCccgtgcaagaccgcagccct	9	5	8	19	2	0	1	0	0	0	1	2	2	2	2	6	1	3	3	6	1	1	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:71495792C>T	uc003kbw.3	+	5	6851	c.6610C>T	c.(6610-6612)CCC>TCC	p.P2204S	MAP1B_uc010iyw.1_Missense_Mutation_p.P2221S|MAP1B_uc010iyx.1_Missense_Mutation_p.P2078S|MAP1B_uc010iyy.1_Missense_Mutation_p.P2078S	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	2204						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		ACCTCCAGCTCCCGTGCAAGA	0.567													59	199					0	0	1	0	0		T	71495792	T	T	71495792	3	4	200	1	0	0	0	0	1	0	0	0	9246	855	30	4	6628	4	MAP1B	5	71495792	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	11512763	71495792	109419468	28	98736											
DMGDH	29958	broad.mit.edu	37	chr5	78340265	78340265	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggagcacaggcagttctcGtttcaaagctttcacttcag	10	11	9	11	2	4	0	3	0	1	0	5	1	4	1	0	2	2	5	0	2	1	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:78340265G>A	uc003kfs.2	-	6	862	c.856C>T	c.(856-858)CGA>TGA	p.R286*	DMGDH_uc011cte.1_Nonsense_Mutation_p.R136*|DMGDH_uc011ctf.1_Nonsense_Mutation_p.R85*|DMGDH_uc011ctg.1_Intron	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	286					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		GGCAGTTCTCGTTTCAAAGCT	0.408													4	45					0	0	1	0	0		A	78340265	A	A	78340265	4	1	200	1	0	0	0	0	0	1	0	0	4587	1153	40	1	1788	1	DMGDH	5	78340265	Nonsense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	6844473	78340265	102574995	29	98737											
PCDHB7	56129	broad.mit.edu	37	chr5	140554549	140554549	+	Silent	SNP	G	T	T	0	0	1	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	ctgttcgtggcggtgcggctGtgcaggaggagcagggcggc	4	7	21	9	4	0	0	0	0	0	0	1	2	0	2	0	7	3	4	0	7	0	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:140554549G>T	uc003lit.2	+	1	2307	c.2133G>T	c.(2131-2133)CTG>CTT	p.L711L	PCDHB8_uc011dai.1_5'Flank	NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	711	Cytoplasmic (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGTGCGGCTGTGCAGGAGGA	0.682													63	770					2.72615e-36	3.01566e-36	1	1	0		T	140554549	T	T	140554549	2	4	200	1	0	0	0	0	0	0	0	1	11566	1364	48	5		5	PCDHB7	5	140554549	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08	62214284	140554549	40360711	30	98738											
PCDHB8	56128	broad.mit.edu	37	chr5	140558070	140558070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagcagtcctcctgggactgCgtttcctctgaagaatgctg	7	11	12	11	1	1	2	0	1	1	1	4	4	4	3	3	1	3	3	3	1	2	1	rs17844484		TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:140558070C>T	uc011dai.1	+	1	641	c.455C>T	c.(454-456)GCG>GTG	p.A152V	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	152	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCTGGGACTGCGTTTCCTCTG	0.433													24	318					0	0	1	0	0		T	140558070	T	T	140558070	3	4	200	1	0	0	0	0	1	0	0	0	11567	768	27	1	457	1	PCDHB8	5	140558070	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	3521	140558070	40357190	31	98739											
PCDHB9	56127	broad.mit.edu	37	chr5	140568480	140568480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcaggctttcgacttccGcgtgggcgcctcagaccgcg	4	8	13	16	6	1	1	1	0	0	1	3	2	2	1	4	2	1	2	4	2	0	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:140568480G>A	uc003liw.1	+	3	1589	c.1589G>A	c.(1588-1590)CGC>CAC	p.R530H		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	530	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TTCGACTTCCGCGTGGGCGCC	0.667													92	219					0	0	1	0	0		A	140568480	A	A	140568480	3	1	200	1	0	0	0	0	1	0	0	0	11568	1087	38	1	1590	1	PCDHB9	5	140568480	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	10410	140568480	40346780	32	98740											
PPP2R2B	5521	broad.mit.edu	37	chr5	145980014	145980014	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgttgcttggatcttccggcTcttcaaaaactgcagaacaa	11	12	8	10	1	3	1	1	0	2	1	4	2	4	2	1	2	4	4	1	2	4	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:145980014T>C	uc003loe.2	-	7	1325	c.800A>G	c.(799-801)GAG>GGG	p.E267G	PPP2R2B_uc010jgm.2_Missense_Mutation_p.E256G|PPP2R2B_uc003log.3_Missense_Mutation_p.E267G|PPP2R2B_uc003lof.3_Missense_Mutation_p.E267G|PPP2R2B_uc003loi.3_Missense_Mutation_p.E270G|PPP2R2B_uc003loh.3_Missense_Mutation_p.E267G|PPP2R2B_uc003loj.3_Missense_Mutation_p.E247G|PPP2R2B_uc003lok.3_Missense_Mutation_p.E256G|PPP2R2B_uc011dbu.1_Missense_Mutation_p.E273G|PPP2R2B_uc011dbv.1_Missense_Mutation_p.E325G	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein	267					apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATCTTCCGGCTCTTCAAAAAC	0.413													10	19					0	0	1	0	0		C	145980014	C	C	145980014	3	2	200	1	0	0	0	0	1	0	0	0	12407	1551	54	3	543	3	PPP2R2B	5	145980014	Missense_Mutation	SNP	T	TCGA-HF-7133-01A-11D-2053-08	5411534	145980014	34935246	33	98741											
DOCK2	1794	broad.mit.edu	37	chr5	169445986	169445986	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagaacaaaatctgcttcatCccaggcatggtaggacctat	13	9	8	11	0	2	1	1	0	1	1	3	2	3	2	2	3	2	3	2	3	5	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr5:169445986C>T	uc003maf.2	+	33	3335	c.3255C>T	c.(3253-3255)ATC>ATT	p.I1085I	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.I577I	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1085	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTGCTTCATCCCAGGCATGG	0.488													74	167					0	0	1	0	0		T	169445986	T	T	169445986	2	4	200	1	0	0	0	0	0	0	0	1	4693	845	30	4		4	DOCK2	5	169445986	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08	23465972	169445986	11469274	34	98742											
HIST1H2AE	3012	broad.mit.edu	37	chr6	26217505	26217505	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aataagcttctaggtcgcgtGaccatcgcgcagggcggtgt	8	9	14	10	5	1	1	0	1	1	0	3	1	1	1	1	3	1	2	1	3	3	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr6:26217505G>C	uc003nha.1	+	1	358	c.303G>C	c.(301-303)GTG>GTC	p.V101V	HIST1H2BG_uc003ngz.2_5'Flank	NM_021052	NP_066390	P04908	H2A1B_HUMAN	histone cluster 1, H2ae	101					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2		all_hematologic(11;0.196)				TAGGTCGCGTGACCATCGCGC	0.577													48	157					0	0	1	0	0		C	26217505	C	C	26217505	2	2	200	1	0	0	0	0	0	0	0	1	7148	1277	45	5		5	HIST1H2AE	6	26217505	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08		26217505	144897562	35	98743											
BAT3	7917	broad.mit.edu	37	chr6	31614268	31614268	+	Missense_Mutation	SNP	A	G	G	1	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	ccagccgctgtagctcctggAgcacctcgacatactccgca	8	7	9	17	3	0	0	0	0	0	0	3	2	2	1	5	1	4	5	5	1	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr6:31614268A>G	uc003nvg.3	-	8	1153	c.839T>C	c.(838-840)CTC>CCC	p.L280P	BAT3_uc003nvf.3_Missense_Mutation_p.L274P|BAT3_uc003nvh.3_Missense_Mutation_p.L274P|BAT3_uc003nvi.3_Missense_Mutation_p.L274P|BAT3_uc011dnw.1_Missense_Mutation_p.L274P|BAT3_uc011dnx.1_Missense_Mutation_p.L274P|BAT3_uc003nvj.1_Missense_Mutation_p.L274P	NM_004639	NP_004630	P46379	BAG6_HUMAN	HLA-B associated transcript-3 isoform a	280	4 X 29 AA approximate repeats.				apoptosis in response to endoplasmic reticulum stress|brain development|cell differentiation|chromatin modification|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|embryo development|internal peptidyl-lysine acetylation|kidney development|lung development|negative regulation of proteasomal ubiquitin-dependent protein catabolic process|protein stabilization|spermatogenesis|synaptonemal complex assembly|tail-anchored membrane protein insertion into ER membrane|transport|ubiquitin-dependent protein catabolic process	BAT3 complex|nucleus	polyubiquitin binding|proteasome binding|ribosome binding				0						TAGCTCCTGGAGCACCTCGAC	0.582													35	113					0	0	1	0	0		G	31614268	G	G	31614268	3	3	200	1	0	0	0	0	1	0	0	0	1323	304	11	3	2631	3	BAT3	6	31614268	Missense_Mutation	SNP	A	TCGA-HF-7133-01A-11D-2053-08	5396763	31614268	139500799	36	98744											
ZNF318	24149	broad.mit.edu	37	chr6	43305127	43305127	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtaatggccccaactcCagggaactacatttagaagg	13	8	10	10	0	0	1	0	0	0	1	1	2	1	2	3	3	4	2	3	3	6	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr6:43305127C>T	uc003oux.2	-	10	6687	c.6609G>A	c.(6607-6609)CTG>CTA	p.L2203L	ZNF318_uc003ouw.2_Intron	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	2203					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			GCCCCAACTCCAGGGAACTAC	0.468													10	35					0	0	1	0	0		T	43305127	T	T	43305127	2	4	200	1	0	0	0	0	0	0	0	1	17861	581	21	4		4	ZNF318	6	43305127	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08	11690859	43305127	127809940	37	98745											
DST	667	broad.mit.edu	37	chr6	56416992	56416992	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agttccctaccttgaacatgTtaagctgctgattaattgtc	10	15	7	9	0	0	2	0	2	0	0	2	2	1	2	2	0	4	4	2	0	4	6			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr6:56416992T>G	uc003pdf.2	-	55	10269	c.10241A>C	c.(10240-10242)AAC>ACC	p.N3414T	DST_uc003pcz.3_Missense_Mutation_p.N3236T|DST_uc011dxj.1_Missense_Mutation_p.N3265T|DST_uc011dxk.1_Missense_Mutation_p.N3276T|DST_uc003pcy.3_Missense_Mutation_p.N2910T	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	5322	Spectrin 7.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			CTTGAACATGTTAAGCTGCTG	0.358													20	41					0	0	1	0	0		G	56416992	G	G	56416992	3	3	200	1	0	0	0	0	1	0	0	0	4789	1725	60	5	6958	5	DST	6	56416992	Missense_Mutation	SNP	T	TCGA-HF-7133-01A-11D-2053-08	13111865	56416992	114698075	38	98746											
GRM1	2911	broad.mit.edu	37	chr6	146755495	146755495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgatcccggattttcacGcggtgctggcaggccccggt	4	8	14	15	6	1	0	1	0	0	0	2	2	2	1	4	5	1	2	4	5	0	2	rs140795616		TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr6:146755495G>A	uc010khw.1	+	9	3618	c.3148G>A	c.(3148-3150)GCG>ACG	p.A1050T	GRM1_uc010khv.1_3'UTR|GRM1_uc003qll.2_3'UTR|GRM1_uc011edz.1_3'UTR|GRM1_uc011eea.1_3'UTR	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	1050	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GGATTTTCACGCGGTGCTGGC	0.667													31	81					0	0	1	0	0		A	146755495	A	A	146755495	3	1	200	1	0	0	0	0	1	0	0	0	6812	1087	38	1	3243	1	GRM1	6	146755495	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	90338503	146755495	24359572	39	98747											
LRP11	84918	broad.mit.edu	37	chr6	150158579	150158579	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcacagaagaagtggtagcGtgagcaagtgtgcaaacatc	14	7	13	7	1	1	3	1	1	0	2	2	3	1	3	0	1	4	3	0	1	5	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr6:150158579G>A	uc003qng.2	-	4	1258	c.934C>T	c.(934-936)CGC>TGC	p.R312C	LRP11_uc003qnh.1_Missense_Mutation_p.R312C	NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	312	Extracellular (Potential).|LDL-receptor class A.					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)		AAGTGGTAGCGTGAGCAAGTG	0.507													17	42					0	0	1	0	0		A	150158579	A	A	150158579	3	1	200	1	0	0	0	0	1	0	0	0	8971	1145	40	1	584	1	LRP11	6	150158579	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	3403084	150158579	20956488	40	98748											
SDK1	221935	broad.mit.edu	37	chr7	4088991	4088991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgccacagtgcccaccgcgCccccgcagaacgtgcagacg	8	3	11	19	5	0	2	0	0	0	2	0	2	0	2	5	0	4	2	5	0	1	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr7:4088991C>T	uc003smx.2	+	18	2753	c.2614C>T	c.(2614-2616)CCC>TCC	p.P872S	SDK1_uc010kso.2_Missense_Mutation_p.P148S	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	872	Fibronectin type-III 3.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GCCCACCGCGCCCCCGCAGAA	0.567													16	65					0	0	1	0	0		T	4088991	T	T	4088991	3	4	200	1	0	0	0	0	1	0	0	0	13993	739	26	2	2684	2	SDK1	7	4088991	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08		4088991	155049672	41	98749											
GAL3ST4	79690	broad.mit.edu	37	chr7	99757823	99757823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagggcctctcggcgagcccGgagctcggccacagctgtct	5	7	14	15	4	2	0	0	0	2	0	4	2	2	1	3	4	3	2	3	4	1	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr7:99757823G>A	uc003utt.2	-	3	2206	c.1189C>T	c.(1189-1191)CGG>TGG	p.R397W	C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.R397W|GAL3ST4_uc010lgq.2_Missense_Mutation_p.R335W	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	397	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGGCGAGCCCGGAGCTCGGCC	0.607													71	216					0	0	1	0	0		A	99757823	A	A	99757823	3	1	200	1	0	0	0	0	1	0	0	0	6215	1115	39	1	275	1	GAL3ST4	7	99757823	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	95668832	99757823	59380840	42	98750											
C7orf51	222950	broad.mit.edu	37	chr7	100086807	100086807	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggtgctggggagccaaagaCggagaaggagatctcggtcc	10	5	18	8	2	1	3	0	0	1	3	3	6	2	4	2	6	2	1	2	6	2	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr7:100086807C>T	uc003uvd.1	+	4	1622	c.1463C>T	c.(1462-1464)ACG>ATG	p.T488M	C7orf51_uc003uve.1_Missense_Mutation_p.T270M	NM_173564	NP_775835	Q6ZVC0	CG051_HUMAN	hypothetical protein FLJ37538	488										skin(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GAGCCAAAGACGGAGAAGGAG	0.642													7	20					0	0	1	0	0		T	100086807	T	T	100086807	3	4	200	1	0	0	0	0	1	0	0	0	2403	536	19	1	1473	1	C7orf51	7	100086807	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	328984	100086807	59051856	43	98751											
GIMAP8	155038	broad.mit.edu	37	chr7	150171184	150171184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctccttgtggggaaacGcggtgctggaaaaagtgcag	10	8	15	8	2	0	0	0	0	0	0	2	2	2	2	2	4	3	2	2	4	3	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr7:150171184G>A	uc003whj.2	+	4	1097	c.767G>A	c.(766-768)CGC>CAC	p.R256H		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	256						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GTGGGGAAACGCGGTGCTGGA	0.557													32	97					0	0	1	0	0		A	150171184	A	A	150171184	3	1	200	1	0	0	0	0	1	0	0	0	6400	1087	38	1	777	1	GIMAP8	7	150171184	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	50084377	150171184	8967479	44	98752											
DUSP26	78986	broad.mit.edu	37	chr8	33454943	33454943	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggttggcatctcctccagggTccctcgagttcgaacaggag	7	9	13	12	2	1	0	0	0	1	0	6	3	3	1	3	4	1	3	3	4	1	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr8:33454943T>C	uc003xjp.2	-	2	424	c.91A>G	c.(91-93)ACC>GCC	p.T31A	DUSP26_uc003xjq.2_Missense_Mutation_p.T31A	NM_024025	NP_076930	Q9BV47	DUS26_HUMAN	dual specificity phosphatase 26	31						Golgi apparatus|nucleus	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0				KIRC - Kidney renal clear cell carcinoma(67;0.0918)|Kidney(114;0.111)		TCCTCCAGGGTCCCTCGAGTT	0.542													19	58					0	0	1	0	0		C	33454943	C	C	33454943	3	2	200	1	0	0	0	0	1	0	0	0	4829	1667	58	3	556	3	DUSP26	8	33454943	Missense_Mutation	SNP	T	TCGA-HF-7133-01A-11D-2053-08		33454943	112909079	45	98753											
RSPO2	340419	broad.mit.edu	37	chr8	108972950	108972950	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcaaaaccatctggacattCatcaaagcaacggcctctat	14	9	6	12	1	4	0	2	0	2	0	4	1	4	1	2	2	4	2	2	2	5	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr8:108972950C>A	uc003yms.2	-	4	1037	c.379G>T	c.(379-381)GAA>TAA	p.E127*	RSPO2_uc003ymq.2_Nonsense_Mutation_p.E60*|RSPO2_uc003ymr.2_Nonsense_Mutation_p.E64*	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	127	FU.				Wnt receptor signaling pathway	extracellular region	heparin binding	p.E127V(1)		skin(3)|ovary(2)|pancreas(1)|lung(1)	7			OV - Ovarian serous cystadenocarcinoma(57;1.55e-09)			TCTGGACATTCATCAAAGCAA	0.368													10	37					4.68919e-08	4.96736e-08	1	1	0		A	108972950	A	A	108972950	4	1	200	1	0	0	0	0	0	1	0	0	13735	835	29	5	364	5	RSPO2	8	108972950	Nonsense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	75518007	108972950	37391072	46	98754											
KCNQ3	3786	broad.mit.edu	37	chr8	133492525	133492525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtcttggccaggagcccGatgccctgcggggtcctccg	3	7	17	14	3	1	0	0	0	1	0	3	2	3	1	5	6	3	0	5	6	0	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr8:133492525G>A	uc003ytj.2	-	1	480	c.255C>T	c.(253-255)ATC>ATT	p.I85I	KCNQ3_uc010mdt.2_Silent_p.I85I	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein	85					axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			CCAGGAGCCCGATGCCCTGCG	0.682													11	31					0	0	1	0	0		A	133492525	A	A	133492525	2	1	200	1	0	0	0	0	0	0	0	1	8100	1048	37	1		1	KCNQ3	8	133492525	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08	24519575	133492525	12871497	47	98755											
TMEM71	137835	broad.mit.edu	37	chr8	133759333	133759333	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aagagagaagaaaaggaatgGcagattctctttttctttct	14	13	9	5	0	3	4	0	0	3	4	4	6	3	5	0	2	0	1	0	2	5	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr8:133759333G>A	uc003ytp.2	-	5	571	c.342C>T	c.(340-342)TGC>TGT	p.C114C	TMEM71_uc003ytm.1_5'UTR|TMEM71_uc003ytn.2_Intron|TMEM71_uc003yto.2_Silent_p.C114C	NM_144649	NP_653250	Q6P5X7	TMM71_HUMAN	transmembrane protein 71 isoform 1	114						integral to membrane				ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			AAAAGGAATGGCAGATTCTCT	0.383													5	21					0	0	1	0	0		A	133759333	A	A	133759333	2	1	200	1	0	0	0	0	0	0	0	1	16225	1195	42	2		2	TMEM71	8	133759333	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08	266808	133759333	12604689	48	98756											
CYP11B1	1584	broad.mit.edu	37	chr8	143957257	143957257	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gctgcacgttggggttccgaGccagctcaaagagcgtcatc	8	8	13	12	3	2	1	2	0	0	1	4	2	3	1	2	2	4	5	2	2	1	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr8:143957257G>A	uc003yxi.2	-	6	999	c.992C>T	c.(991-993)GCT>GTT	p.A331V	CYP11B1_uc010mex.2_Missense_Mutation_p.A7V|CYP11B1_uc003yxh.2_Missense_Mutation_p.A47V|CYP11B1_uc003yxj.2_Missense_Mutation_p.A331V|CYP11B1_uc010mey.2_Missense_Mutation_p.A402V	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	331					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	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)				Mitotane(DB00648)	GGGGTTCCGAGCCAGCTCAAA	0.647									Familial_Hyperaldosteronism_type_I				68	179					0	0	1	0	0		A	143957257	A	A	143957257	3	1	200	1	0	0	0	0	1	0	0	0	4148	971	34	2	535	2	CYP11B1	8	143957257	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	10197924	143957257	2406765	49	98757											
SMC5	23137	broad.mit.edu	37	chr9	72874089	72874089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcggaggtcccgagcaagaGgaagaattcggccccgcagc	10	4	15	12	4	0	2	0	0	0	2	3	5	1	4	3	4	2	2	3	4	3	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr9:72874089G>A	uc004ahr.2	+	1	212	c.95G>A	c.(94-96)AGG>AAG	p.R32K	uc004ahq.1_5'Flank	NM_015110	NP_055925	Q8IY18	SMC5_HUMAN	SMC5 protein	32					DNA recombination|DNA repair	chromosome|nucleus	ATP binding			ovary(2)|central_nervous_system(1)	3						CCGAGCAAGAGGAAGAATTCG	0.607													8	12					0	0	1	0	0		A	72874089	A	A	72874089	3	1	200	1	0	0	0	0	1	0	0	0	14811	1000	35	4	97	4	SMC5	9	72874089	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		72874089	68339342	50	98758											
KCNT1	57582	broad.mit.edu	37	chr9	138671263	138671263	+	Missense_Mutation	SNP	A	G	G	1	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	acccttccaacatgcgcttcAtgcagttccgcgccaaggac	9	8	8	16	3	1	0	1	0	0	0	3	1	3	1	4	1	3	3	4	1	2	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr9:138671263A>G	uc011mdq.1	+	24	2862	c.2788A>G	c.(2788-2790)ATG>GTG	p.M930V	KCNT1_uc011mdr.1_Missense_Mutation_p.M757V|KCNT1_uc010nbf.2_Missense_Mutation_p.M885V|KCNT1_uc004cgo.1_Missense_Mutation_p.M679V	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	930						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		CATGCGCTTCATGCAGTTCCG	0.627													35	303					0	0	1	0	0		G	138671263	G	G	138671263	3	3	200	1	0	0	0	0	1	0	0	0	8107	217	8	3	2882	3	KCNT1	9	138671263	Missense_Mutation	SNP	A	TCGA-HF-7133-01A-11D-2053-08	65797174	138671263	2542168	51	98759											
ARHGAP22	58504	broad.mit.edu	37	chr10	49654578	49654578	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccgcagctttatttccagCatgatgtattttttcttttc	6	21	5	9	1	1	1	0	1	1	0	4	1	3	1	2	0	2	4	2	0	2	10			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr10:49654578C>T	uc001jgt.2	-	10	2250	c.1953G>A	c.(1951-1953)ATG>ATA	p.M651I	ARHGAP22_uc001jgs.2_Missense_Mutation_p.M561I|ARHGAP22_uc001jgu.2_Missense_Mutation_p.M667I|ARHGAP22_uc010qgl.1_Missense_Mutation_p.M608I|ARHGAP22_uc010qgm.1_Missense_Mutation_p.M657I|ARHGAP22_uc001jgv.2_Missense_Mutation_p.M349I|ARHGAP22_uc001jgr.2_Missense_Mutation_p.M368I	NM_021226	NP_067049	Q7Z5H3	RHG22_HUMAN	Rho GTPase activating protein 2	651	Potential.				angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|regulation of transcription, DNA-dependent|small GTPase mediated signal transduction|transcription, DNA-dependent	cytosol|nucleus	GTPase activator activity			ovary(1)	1						TTATTTCCAGCATGATGTATT	0.488													26	83					0	0	1	0	0		T	49654578	T	T	49654578	3	4	200	1	0	0	0	0	1	0	0	0	872	710	25	2	147	2	ARHGAP22	10	49654578	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08		49654578	85880169	52	98760											
DHX32	55760	broad.mit.edu	37	chr10	127525345	127525345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgacacaggggataggtgatCcactacttgctgtagaatgt	11	11	12	7	0	0	3	0	2	0	1	1	4	1	4	1	3	2	2	1	3	4	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr10:127525345C>T	uc001ljf.1	-	11	2634	c.2143G>A	c.(2143-2145)GAT>AAT	p.D715N	BCCIP_uc001ljd.3_Intron|DHX32_uc001lje.1_Missense_Mutation_p.D339N|DHX32_uc001ljg.1_Missense_Mutation_p.D715N|BCCIP_uc010qui.1_Intron|BCCIP_uc001ljc.3_Intron|BCCIP_uc010quj.1_Intron	NM_018180	NP_060650	Q7L7V1	DHX32_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 32	715						mitochondrion|nucleus	ATP binding|helicase activity			breast(2)|ovary(1)|lung(1)	4		all_lung(145;0.00751)|Lung NSC(174;0.0115)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GATAGGTGATCCACTACTTGC	0.423													16	44					0	0	1	0	0		T	127525345	T	T	127525345	3	4	200	1	0	0	0	0	1	0	0	0	4511	855	30	4	92	4	DHX32	10	127525345	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	77870767	127525345	8009402	53	98761											
INPP5A	3632	broad.mit.edu	37	chr10	134459401	134459401	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacacaagccgcacttcatGgccttgcactgtcaggagtt	10	9	9	13	1	2	0	2	0	0	0	2	1	2	1	2	2	2	3	2	2	1	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr10:134459401G>A	uc001llp.2	+	3	395	c.147G>A	c.(145-147)ATG>ATA	p.M49I	INPP5A_uc001llo.1_Missense_Mutation_p.M49I|INPP5A_uc001llq.2_Missense_Mutation_p.M1I	NM_005539	NP_005530	Q14642	I5P1_HUMAN	inositol polyphosphate-5-phosphatase A	49					cell communication	membrane	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|PH domain binding			skin(1)	1		all_cancers(35;8.59e-13)|all_epithelial(44;5.49e-09)|Lung NSC(174;0.000854)|all_lung(145;0.00146)|all_neural(114;0.0299)|Colorectal(31;0.0599)|Breast(234;0.0849)|Melanoma(40;0.124)|all_hematologic(284;0.196)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;0.000102)|Epithelial(32;0.00023)|all cancers(32;0.000326)		CGCACTTCATGGCCTTGCACT	0.597													10	27					0	0	1	0	0		A	134459401	A	A	134459401	3	1	200	1	0	0	0	0	1	0	0	0	7770	1348	47	4	157	4	INPP5A	10	134459401	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	6934056	134459401	1075346	54	98762											
MUC5B	727897	broad.mit.edu	37	chr11	1159361	1159361	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcccacttctcaacgtttgaCgggaagcaatacacggtgca	11	8	10	12	3	1	1	1	1	1	0	2	2	1	2	1	2	4	3	1	2	4	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr11:1159361C>T	uc009ycr.1	+	12	1464	c.1338C>T	c.(1336-1338)GAC>GAT	p.D446D		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	437	VWFD 2.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CAACGTTTGACGGGAAGCAAT	0.647													44	71					0	0	1	0	0		T	1159361	T	T	1159361	2	4	200	1	0	0	0	0	0	0	0	1	9997	551	19	1		1	MUC5B	11	1159361	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08		1159361	133847155	55	98763											
OR52B4	143496	broad.mit.edu	37	chr11	4389175	4389175	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcaaaggccatcaccagCaagatccctgactcagagat	13	7	9	12	0	3	3	3	1	0	2	4	4	4	3	3	2	1	1	3	2	2	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr11:4389175C>A	uc010qye.1	-	1	351	c.351G>T	c.(349-351)TTG>TTT	p.L117F		NM_001005161	NP_001005161	Q8NGK2	O52B4_HUMAN	olfactory receptor, family 52, subfamily B,	117	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0249)|all_neural(188;0.0577)		Epithelial(150;1.57e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0826)|LUSC - Lung squamous cell carcinoma(625;0.19)		CCATCACCAGCAAGATCCCTG	0.468													12	24					3.07112e-06	3.17264e-06	1	1	0		A	4389175	A	A	4389175	3	1	200	1	0	0	0	0	1	0	0	0	11131	709	25	5	597	5	OR52B4	11	4389175	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	3229814	4389175	130617341	56	98764											
NELL1	4745	broad.mit.edu	37	chr11	21135238	21135238	+	Silent	SNP	T	C	C	0	1	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	tgtgtcccaggatacattcgTgtggatgacttctcttgtac	7	15	10	9	1	1	1	0	1	1	0	4	3	2	3	1	2	2	1	1	2	2	5			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr11:21135238T>C	uc001mqe.2	+	13	1557	c.1404T>C	c.(1402-1404)CGT>CGC	p.R468R	NELL1_uc001mqf.2_Silent_p.R468R|NELL1_uc009yid.2_Silent_p.R496R|NELL1_uc010rdo.1_Silent_p.R411R|NELL1_uc010rdp.1_Silent_p.R228R	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	468	EGF-like 2; calcium-binding (Potential).				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GATACATTCGTGTGGATGACT	0.408													10	47					0	0	1	0	0		C	21135238	C	C	21135238	2	2	200	1	0	0	0	0	0	0	0	1	10352	1683	59	3		3	NELL1	11	21135238	Silent	SNP	T	TCGA-HF-7133-01A-11D-2053-08	16746063	21135238	113871278	57	98765											
OR4A15	81328	broad.mit.edu	37	chr11	55135685	55135685	+	Missense_Mutation	SNP	T	A	A	0	1	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	tactgcatttgctcccaaaaTgattgttgacttgctctctg	8	16	7	10	0	1	2	0	2	1	0	3	2	2	2	1	0	4	4	1	0	3	5			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr11:55135685T>A	uc010rif.1	+	1	326	c.326T>A	c.(325-327)ATG>AAG	p.M109K		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	109	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GCTCCCAAAATGATTGTTGAC	0.413													25	106					0	0	1	0	0		A	55135685	A	A	55135685	3	1	200	1	0	0	0	0	1	0	0	0	11059	1464	51	5	328	5	OR4A15	11	55135685	Missense_Mutation	SNP	T	TCGA-HF-7133-01A-11D-2053-08	34000447	55135685	79870831	58	98766											
SPTBN2	6712	broad.mit.edu	37	chr11	66472762	66472762	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgtcggctgaggccaggaggTgctgctgctcccgcacccag	5	7	15	14	2	0	1	0	1	0	0	2	2	1	2	3	4	3	5	3	4	0	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr11:66472762T>G	uc001ojd.2	-	14	2057	c.1985A>C	c.(1984-1986)CAC>CCC	p.H662P		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	662	Spectrin 4.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGCCAGGAGGTGCTGCTGCTC	0.721													7	28					0	0	1	0	0		G	66472762	G	G	66472762	3	3	200	1	0	0	0	0	1	0	0	0	15145	1696	59	5	5283	5	SPTBN2	11	66472762	Missense_Mutation	SNP	T	TCGA-HF-7133-01A-11D-2053-08	11337077	66472762	68533754	59	98767											
SUV420H1	51111	broad.mit.edu	37	chr11	67926371	67926371	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttttatacagaactactTtaggctctttcagtactaag	13	16	5	7	0	2	1	1	0	1	1	2	1	2	1	0	1	4	2	0	1	8	10			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr11:67926371T>C	uc001onm.1	-	11	1698	c.1442A>G	c.(1441-1443)AAA>AGA	p.K481R	SUV420H1_uc009yse.1_Missense_Mutation_p.K67R|SUV420H1_uc001onn.1_Missense_Mutation_p.K309R|SUV420H1_uc009ysf.2_Missense_Mutation_p.K241R	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	481					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						CAGAACTACTTTAGGCTCTTT	0.433													35	112					0	0	1	0	0		C	67926371	C	C	67926371	3	2	200	1	0	0	0	0	1	0	0	0	15439	1841	64	3	1219	3	SUV420H1	11	67926371	Missense_Mutation	SNP	T	TCGA-HF-7133-01A-11D-2053-08	1453609	67926371	67080145	60	98768											
SUV420H1	51111	broad.mit.edu	37	chr11	67926536	67926536	+	Frame_Shift_Del	DEL	G	-	-																															ttatatgagttagcttagatGaggtagagttggaagaagct																										TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr11:67926536delG	uc001onm.1	-	11	1533	c.1277delC	c.(1276-1278)TCAfs	p.S426fs	SUV420H1_uc009yse.1_Frame_Shift_Del_p.S12fs|SUV420H1_uc001onn.1_Frame_Shift_Del_p.S254fs|SUV420H1_uc009ysf.2_Frame_Shift_Del_p.S186fs	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	426					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						TAGCTTAGATGAGGTAGAGTT	0.368													54	70	---	---	---	---						.	-	67926536	-	-	67926536	7	5	200	1	0	1	0	1	0	0	0	0	15439	1294	45	0	1384	0	SUV420H1	11	67926536	Frame_Shift_Del	DEL	G	TCGA-HF-7133-01A-11D-2053-08	165	67926536	67079980	61	98769											
CLSTN3	9746	broad.mit.edu	37	chr12	7293961	7293961	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcctcatccacccacccCgaagggagcctgctctcatg	8	7	9	17	1	2	0	2	0	1	0	4	2	3	1	6	2	2	1	6	2	1	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr12:7293961C>T	uc001qsr.2	+	9	1725	c.1447C>T	c.(1447-1449)CGA>TGA	p.R483*	CLSTN3_uc001qss.2_Nonsense_Mutation_p.R495*	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	483	Extracellular (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						CCACCCACCCCGAAGGGAGCC	0.572											OREG0021650	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	68	241					0	0	1	0	0		T	7293961	T	T	7293961	4	4	200	1	0	0	0	0	0	1	0	0	3566	644	23	1	1481	1	CLSTN3	12	7293961	Nonsense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08		7293961	126557934	62	98770											
KLRC3	3823	broad.mit.edu	37	chr12	10569320	10569320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggatgatgactgctgttaCgaaacacaccaatccatgag	14	9	9	9	1	0	3	0	3	0	0	1	5	1	4	2	1	3	2	2	1	3	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr12:10569320C>T	uc001qyf.2	-	5	578	c.533G>A	c.(532-534)CGT>CAT	p.R178H	KLRC3_uc001qyh.2_Missense_Mutation_p.R178H|KLRC3_uc001qyi.1_Missense_Mutation_p.R178H	NM_002261	NP_002252	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C,	178	C-type lectin.|Extracellular (Potential).				cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity	p.R178C(1)		ovary(2)|skin(1)	3						ACTGCTGTTACGAAACACACC	0.294													6	22					0	0	1	0	0		T	10569320	T	T	10569320	3	4	200	1	0	0	0	0	1	0	0	0	8433	536	19	1	297	1	KLRC3	12	10569320	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	3275359	10569320	123282575	63	98771											
LST-3TM12	338821	broad.mit.edu	37	chr12	21205043	21205043	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttcagaaatagtccagtaAgatctcatgtagatgtacca	14	13	7	7	0	2	3	2	0	1	3	4	3	3	3	2	0	1	3	2	0	5	6			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr12:21205043A>T	uc010sin.1	+	9	1204	c.1204A>T	c.(1204-1206)AGA>TGA	p.R402*	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Nonsense_Mutation_p.R449*	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	402						membrane	transporter activity				0						TAGTCCAGTAAGATCTCATGT	0.249													11	35					0	0	1	0	0		T	21205043	T	T	21205043	4	4	200	1	0	0	0	0	0	1	0	0	9084	64	3	5	1238	5	LST-3TM12	12	21205043	Nonsense_Mutation	SNP	A	TCGA-HF-7133-01A-11D-2053-08	10635723	21205043	112646852	64	98772											
ABCC9	10060	broad.mit.edu	37	chr12	22061124	22061124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatccaagtaaattatagaGcagaatcacgcccattatga	16	10	7	8	1	1	4	1	2	0	2	2	4	2	4	2	0	1	2	2	0	7	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr12:22061124G>A	uc001rfi.1	-	9	1362	c.1342C>T	c.(1342-1344)CTC>TTC	p.L448F	ABCC9_uc001rfh.2_Missense_Mutation_p.L448F|ABCC9_uc001rfj.1_Missense_Mutation_p.L448F	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	448	Extracellular (Potential).|ABC transmembrane type-1 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AAATTATAGAGCAGAATCACG	0.423													9	25					0	0	1	0	0		A	22061124	A	A	22061124	3	1	200	1	0	0	0	0	1	0	0	0	59	971	34	2	3569	2	ABCC9	12	22061124	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	856081	22061124	111790771	65	98773											
CSRP2	1466	broad.mit.edu	37	chr12	77254166	77254166	+	Silent	SNP	A	G	G	1	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	gcaaatttagaagtgtttggAtttgttgtaggcctgtgagg	9	15	14	3	0	0	2	0	1	0	1	0	3	0	3	1	3	0	4	1	3	4	6			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr12:77254166A>G	uc001syl.1	-	4	392	c.309T>C	c.(307-309)AAT>AAC	p.N103N		NM_001321	NP_001312	Q16527	CSRP2_HUMAN	cysteine and glycine-rich protein 2	103					multicellular organismal development	nucleus	zinc ion binding			ovary(1)	1						AAGTGTTTGGATTTGTTGTAG	0.428													13	65					0	0	1	0	0		G	77254166	G	G	77254166	2	3	200	1	0	0	0	0	0	0	0	1	3970	330	12	3		3	CSRP2	12	77254166	Silent	SNP	A	TCGA-HF-7133-01A-11D-2053-08	55193042	77254166	56597729	66	98774											
HAL	3034	broad.mit.edu	37	chr12	96387251	96387251	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaatgtgagcgtactaaGttgacctgaagctccctgca	12	9	11	9	1	0	4	0	3	0	1	1	5	1	4	2	0	4	4	2	0	5	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr12:96387251G>A	uc001tem.1	-	8	864	c.567C>T	c.(565-567)AAC>AAT	p.N189N	HAL_uc009zti.1_RNA|HAL_uc010suw.1_5'UTR|HAL_uc010sux.1_Silent_p.N189N	NM_002108	NP_002099	P42357	HUTH_HUMAN	histidine ammonia-lyase	189					biosynthetic process|histidine catabolic process	cytosol	histidine ammonia-lyase activity			ovary(2)|skin(1)	3					L-Histidine(DB00117)	AGCGTACTAAGTTGACCTGAA	0.438													13	31					0	0	1	0	0		A	96387251	A	A	96387251	2	1	200	1	0	0	0	0	0	0	0	1	6963	1020	36	4		4	HAL	12	96387251	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08	19133085	96387251	37464644	67	98775											
CPNE6	9362	broad.mit.edu	37	chr14	24542739	24542739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaggtgcttcgctcctgttCcagccctgtcttctcccggg	3	12	11	15	2	2	1	0	0	2	1	6	1	4	1	4	2	2	3	4	2	0	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr14:24542739C>T	uc001wll.2	+	3	299	c.200C>T	c.(199-201)TCC>TTC	p.S67F	CPNE6_uc010tnv.1_Missense_Mutation_p.S122F|CPNE6_uc001wlm.2_5'UTR|CPNE6_uc001wln.2_5'Flank	NM_006032	NP_006023	O95741	CPNE6_HUMAN	copine 6	67	C2 1.				lipid metabolic process|nervous system development|synaptic transmission|vesicle-mediated transport		calcium ion binding|transporter activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0184)		CGCTCCTGTTCCAGCCCTGTC	0.592													46	133					0	0	1	0	0		T	24542739	T	T	24542739	3	4	200	1	0	0	0	0	1	0	0	0	3819	855	30	4	206	4	CPNE6	14	24542739	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08		24542739	82806801	68	98776											
HERC2	8924	broad.mit.edu	37	chr15	28459349	28459349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtgccaccacctcctccGccagtgtgctgctgtgggtg	4	9	13	15	1	0	0	0	0	0	0	2	0	2	0	6	1	3	3	6	1	0	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr15:28459349G>A	uc001zbj.2	-	41	6534	c.6428C>T	c.(6427-6429)GCG>GTG	p.A2143V		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	2143					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		CACCTCCTCCGCCAGTGTGCT	0.647													27	51					0	0	1	0	0		A	28459349	A	A	28459349	3	1	200	1	0	0	0	0	1	0	0	0	7074	1087	38	1	8288	1	HERC2	15	28459349	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		28459349	74072043	69	98777											
AP3B2	8120	broad.mit.edu	37	chr15	83345298	83345298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctgctgtgaatgacttgGccatttttcttaagacatca	9	15	7	10	0	3	3	1	2	2	1	3	3	3	3	2	1	1	1	2	1	2	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr15:83345298G>A	uc010uoh.1	-	14	1757	c.1580C>T	c.(1579-1581)GCC>GTC	p.A527V	AP3B2_uc010uoi.1_Missense_Mutation_p.A527V|AP3B2_uc010uoj.1_Missense_Mutation_p.A495V|AP3B2_uc010uog.1_Missense_Mutation_p.A163V	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	527					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			GAATGACTTGGCCATTTTTCT	0.507													16	50					0	0	1	0	0		A	83345298	A	A	83345298	3	1	200	1	0	0	0	0	1	0	0	0	745	1203	42	2	1720	2	AP3B2	15	83345298	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	54885949	83345298	19186094	70	98778											
ADAMTS17	170691	broad.mit.edu	37	chr15	100801697	100801697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcttacctggtcacaaacaCggcagcatccaccaggggcg	11	6	10	14	2	2	0	1	0	1	0	3	0	3	0	3	4	3	2	3	4	2	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr15:100801697C>T	uc002bvv.1	-	6	1097	c.1018G>A	c.(1018-1020)GTG>ATG	p.V340M	ADAMTS17_uc002bvx.1_Missense_Mutation_p.V97M	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	340	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		GTCACAAACACGGCAGCATCC	0.537													17	78					0	0	1	0	0		T	100801697	T	T	100801697	3	4	200	1	0	0	0	0	1	0	0	0	262	536	19	1	2337	1	ADAMTS17	15	100801697	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	17456399	100801697	1729695	71	98779											
GLYR1	84656	broad.mit.edu	37	chr16	4882012	4882012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggggccgaccccgcttccGgggactttgctcttgggctc	2	10	15	14	3	1	0	0	0	1	0	3	2	2	1	4	5	1	3	4	5	0	3			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr16:4882012G>A	uc002cxx.3	-	5	542	c.505C>T	c.(505-507)CGG>TGG	p.R169W	GLYR1_uc002cxy.2_RNA|GLYR1_uc002cxz.1_Missense_Mutation_p.R100W|GLYR1_uc002cya.2_Missense_Mutation_p.R169W|GLYR1_uc010uxv.1_Intron	NM_032569	NP_115958	Q49A26	GLYR1_HUMAN	cytokine-like nuclear factor n-pac	169	A.T hook.				pentose-phosphate shunt	nucleus	coenzyme binding|DNA binding|methylated histone residue binding|phosphogluconate dehydrogenase (decarboxylating) activity				0						CCCCGCTTCCGGGGACTTTGC	0.502													26	41					0	0	1	0	0		A	4882012	A	A	4882012	3	1	200	1	0	0	0	0	1	0	0	0	6498	1115	39	1	1204	1	GLYR1	16	4882012	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		4882012	85472741	72	98780											
ZNF768	79724	broad.mit.edu	37	chr16	30537361	30537361	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatttcctcttcctcattctCactcatgttgcctgcaggat	7	16	5	13	0	4	0	3	0	2	0	7	1	6	1	3	1	2	2	3	1	1	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr16:30537361C>G	uc002dyk.3	-	2	276	c.100G>C	c.(100-102)GAG>CAG	p.E34Q	ZNF768_uc010vex.1_Missense_Mutation_p.E3Q|uc002dyl.1_5'Flank|ZNF768_uc010vew.1_Missense_Mutation_p.E3Q	NM_024671	NP_078947	Q9H5H4	ZN768_HUMAN	zinc finger protein 768	34	Poly-Glu.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	DNA binding|zinc ion binding				0						TCCTCATTCTCACTCATGTTG	0.413													39	100					0	0	1	0	0		G	30537361	G	G	30537361	3	3	200	1	0	0	0	0	1	0	0	0	18166	835	29	5	1526	5	ZNF768	16	30537361	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	25655349	30537361	59817392	73	98781											
ANKRD13B	124930	broad.mit.edu	37	chr17	27936185	27936185	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcactggctgggcaggaccGggagctgctgctggctgctg	4	7	19	11	1	0	0	0	0	0	0	0	2	0	2	1	6	4	8	1	6	0	0			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr17:27936185G>A	uc002hei.2	+	6	760	c.647G>A	c.(646-648)CGG>CAG	p.R216Q	ANKRD13B_uc002heh.2_Missense_Mutation_p.R84Q|ANKRD13B_uc002hej.2_RNA	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B	216											0						GGGCAGGACCGGGAGCTGCTG	0.627													24	55					0	0	1	0	0		A	27936185	A	A	27936185	3	1	200	1	0	0	0	0	1	0	0	0	642	1116	39	1	669	1	ANKRD13B	17	27936185	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08		27936185	53259025	74	98782											
CLTC	1213	broad.mit.edu	37	chr17	57744325	57744325	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	attgaactttttgaatctttCaagagttttgaaggtaatta	13	18	7	3	0	2	4	1	3	1	1	2	4	2	4	0	1	1	2	0	1	6	8			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr17:57744325C>G	uc002ixq.1	+	13	2558	c.2115C>G	c.(2113-2115)TTC>TTG	p.F705L	CLTC_uc002ixp.2_Missense_Mutation_p.F705L|CLTC_uc002ixr.1_Missense_Mutation_p.F709L	NM_004859	NP_004850	Q00610	CLH1_HUMAN	clathrin heavy chain 1	705	Heavy chain arm.|Proximal segment.				axon guidance|epidermal growth factor receptor signaling pathway|intracellular protein transport|mitosis|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|post-Golgi vesicle-mediated transport|receptor internalization|transferrin transport	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|cytosol|melanosome|spindle	protein binding|structural molecule activity		CLTC/ALK(44)|CLTC/TFE3(2)	haematopoietic_and_lymphoid_tissue(33)|soft_tissue(11)|kidney(2)|ovary(1)|breast(1)	48	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTGAATCTTTCAAGAGTTTTG	0.358			T	ALK|TFE3	ALCL|renal 								10	26					0	0	1	0	0		G	57744325	G	G	57744325	3	3	200	1	0	0	0	0	1	0	0	0	3569	825	29	5	2165	5	CLTC	17	57744325	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	29808140	57744325	23450885	75	98783											
INO80C	125476	broad.mit.edu	37	chr18	33077741	33077741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tggcgccatagcccccgccgCtgctgccattgtgggaaggg	5	7	15	14	3	0	0	0	0	0	0	0	1	0	1	5	3	3	2	5	3	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr18:33077741C>T	uc002kyy.3	-	1	215	c.98G>A	c.(97-99)AGC>AAC	p.S33N	INO80C_uc002kyw.1_Missense_Mutation_p.S33N|INO80C_uc002kyx.3_5'Flank|INO80C_uc010dmt.2_Missense_Mutation_p.S33N	NM_194281	NP_919257	Q6PI98	IN80C_HUMAN	Ies6-similar protein isoform 2	33					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex|MLL1 complex					0						GCCCCCGCCGCTGCTGCCATT	0.627													11	47					0	0	1	0	0		T	33077741	T	T	33077741	3	4	200	1	0	0	0	0	1	0	0	0	7764	797	28	2	616	2	INO80C	18	33077741	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08		33077741	44999507	76	98784											
TUBB4	10382	broad.mit.edu	37	chr19	6495529	6495529	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgctcagcatctgctcGtccacctccttcatggacat	7	11	7	16	2	3	0	2	0	1	0	6	1	5	1	3	1	3	4	3	1	0	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr19:6495529G>A	uc002mfg.1	-	4	1088	c.981C>T	c.(979-981)GAC>GAT	p.D327D	TUBB4_uc002mff.1_Silent_p.D255D|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	327					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GCATCTGCTCGTCCACCTCCT	0.657													231	163					0	0	1	0	0		A	6495529	A	A	6495529	2	1	200	1	0	0	0	0	0	0	0	1	16784	1136	40	1		1	TUBB4	19	6495529	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08		6495529	52633454	77	98785											
GRIK5	2901	broad.mit.edu	37	chr19	42546812	42546812	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagcggaagcgcagcagctcGgccagctcccgcagcatgtc	8	5	13	15	4	0	0	0	0	0	0	3	1	1	1	2	2	6	6	2	2	2	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr19:42546812G>A	uc002osj.1	-	11	1400	c.1365C>T	c.(1363-1365)GCC>GCT	p.A455A	GRIK5_uc002osi.1_Silent_p.A27A|GRIK5_uc010eib.1_Silent_p.A374A	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	455	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	GCAGCAGCTCGGCCAGCTCCC	0.682													30	133					0	0	1	0	0		A	42546812	A	A	42546812	2	1	200	1	0	0	0	0	0	0	0	1	6793	1103	39	1		1	GRIK5	19	42546812	Silent	SNP	G	TCGA-HF-7133-01A-11D-2053-08	36051283	42546812	16582171	78	98786											
PRNP	5621	broad.mit.edu	37	chr20	4680251	4680251	+	Missense_Mutation	SNP	A	G	G	1	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	tggggggccttggcggctacAtgctgggaagtgccatgagc	6	8	18	9	1	0	1	0	1	0	0	0	2	0	2	2	6	4	2	2	6	2	2	rs1799990	byFrequency	TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr20:4680251A>G	uc002wku.2	+	2	748	c.385A>G	c.(385-387)ATG>GTG	p.M129V	PRNP_uc002wkv.2_Missense_Mutation_p.M129V|PRNP_uc002wkw.2_Missense_Mutation_p.M129V|PRNP_uc002wkx.2_Missense_Mutation_p.M129V|PRNP_uc002wkt.1_Missense_Mutation_p.M99V|PRNP_uc002wky.2_Missense_Mutation_p.M129V|PRNP_uc010gbe.1_Missense_Mutation_p.M129V	NM_001080122	NP_001073591	P04156	PRIO_HUMAN	prion protein preproprotein	129	Interaction with GRB2, ERI3 and SYN1 (By similarity).				axon guidance|cell cycle arrest|cellular copper ion homeostasis|metabolic process|negative regulation of activated T cell proliferation|negative regulation of calcineurin-NFAT signaling pathway|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-2 production|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of T cell receptor signaling pathway|protein homooligomerization|response to oxidative stress	anchored to membrane|endoplasmic reticulum|extrinsic to membrane|Golgi apparatus|membrane raft|nucleus|plasma membrane	copper ion binding|identical protein binding|microtubule binding	p.M129V(1)		central_nervous_system(1)	1					Tetracycline(DB00759)	TGGCGGCTACATGCTGGGAAG	0.547													5	63					0	0	1	0	0		G	4680251	G	G	4680251	3	3	200	1	0	0	0	0	1	0	0	0	12566	217	8	3	387	3	PRNP	20	4680251	Missense_Mutation	SNP	A	TCGA-HF-7133-01A-11D-2053-08		4680251	58345269	79	98787											
C20orf186	149954	broad.mit.edu	37	chr20	31692670	31692670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgacctggcattcatgcccGcaatgaacggtgagagcggg	9	8	14	10	3	1	3	1	3	0	1	1	4	1	3	2	3	3	2	2	3	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr20:31692670G>A	uc010zue.1	+	14	1750	c.1735G>A	c.(1735-1737)GCA>ACA	p.A579T		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	579						cytoplasm|extracellular region	lipid binding				0						ATTCATGCCCGCAATGAACGG	0.572													20	68					0	0	1	0	0		A	31692670	A	A	31692670	3	1	200	1	0	0	0	0	1	0	0	0	2101	1087	38	1	1789	1	C20orf186	20	31692670	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	27012419	31692670	31332850	80	98788											
R3HDML	140902	broad.mit.edu	37	chr20	42979392	42979392	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctgcaatagcaacatgtGcttcaaggggctgaaatcca	13	8	10	10	0	1	1	1	1	0	0	2	1	2	1	1	2	5	5	1	2	5	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr20:42979392G>A	uc002xls.1	+	5	894	c.722G>A	c.(721-723)TGC>TAC	p.C241Y		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	241						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			AGCAACATGTGCTTCAAGGGG	0.557													16	110					0	0	1	0	0		A	42979392	A	A	42979392	3	1	200	1	0	0	0	0	1	0	0	0	12914	1319	46	2	740	2	R3HDML	20	42979392	Missense_Mutation	SNP	G	TCGA-HF-7133-01A-11D-2053-08	11286722	42979392	20046128	81	98789											
GTPBP5	26164	broad.mit.edu	37	chr20	60770905	60770905	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgcttgtctgtggaggaaaCggaggcgctggggcaagctg	7	8	19	7	2	1	0	0	0	1	0	1	3	1	3	0	6	3	4	0	6	2	1			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr20:60770905C>T	uc002yce.3	+	3	290	c.252C>T	c.(250-252)AAC>AAT	p.N84N	GTPBP5_uc011aab.1_Translation_Start_Site|GTPBP5_uc011aac.1_Translation_Start_Site|GTPBP5_uc011aad.1_Translation_Start_Site|GTPBP5_uc011aae.1_Translation_Start_Site|GTPBP5_uc011aaf.1_Silent_p.N84N|GTPBP5_uc011aag.1_Silent_p.N84N	NM_015666	NP_056481	Q9H4K7	GTPB5_HUMAN	GTP binding protein 5	84	Localized in the mitocondria.|Not localized in the mitocondria.				ribosome biogenesis	mitochondrion	GTP binding|GTPase activity|magnesium ion binding				0	Breast(26;3.52e-09)		BRCA - Breast invasive adenocarcinoma(19;2.5e-08)			GTGGAGGAAACGGAGGCGCTG	0.542													21	80					0	0	1	0	0		T	60770905	T	T	60770905	2	4	200	1	0	0	0	0	0	0	0	1	6899	535	19	1		1	GTPBP5	20	60770905	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08	17791513	60770905	2254615	82	98790											
GTPBP5	26164	broad.mit.edu	37	chr20	60773769	60773769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggagatgagtacattgccgCgctgggcggggcaggaggga	8	5	21	7	3	0	2	0	1	0	1	0	5	0	4	1	6	2	3	1	6	1	2	rs138156304	byFrequency	TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr20:60773769C>T	uc002yce.3	+	5	586	c.548C>T	c.(547-549)GCG>GTG	p.A183V	GTPBP5_uc011aab.1_5'UTR|GTPBP5_uc011aac.1_5'UTR|GTPBP5_uc011aad.1_5'UTR|GTPBP5_uc011aae.1_5'UTR|GTPBP5_uc011aaf.1_Intron|GTPBP5_uc011aag.1_Missense_Mutation_p.A183V	NM_015666	NP_056481	Q9H4K7	GTPB5_HUMAN	GTP binding protein 5	183	Localized in the mitocondria.|Not localized in the mitocondria.				ribosome biogenesis	mitochondrion	GTP binding|GTPase activity|magnesium ion binding				0	Breast(26;3.52e-09)		BRCA - Breast invasive adenocarcinoma(19;2.5e-08)			TACATTGCCGCGCTGGGCGGG	0.637													9	110					0	0	1	0	0		T	60773769	T	T	60773769	3	4	200	1	0	0	0	0	1	0	0	0	6899	768	27	1	562	1	GTPBP5	20	60773769	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08	2864	60773769	2251751	83	98791											
HPS4	89781	broad.mit.edu	37	chr22	26868841	26868841	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattgtaaaaattaaagaatCcaactagctgatccagaaac	19	9	5	8	0	0	3	0	1	0	2	2	3	2	3	2	0	3	2	2	0	9	4			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr22:26868841C>A	uc003acl.2	-	5	1000	c.341G>T	c.(340-342)GGA>GTA	p.G114V	HPS4_uc003aci.2_Missense_Mutation_p.G109V|HPS4_uc003acj.2_5'UTR|HPS4_uc003ack.2_5'UTR|HPS4_uc003acn.2_5'UTR|HPS4_uc010gvd.1_Missense_Mutation_p.G114V|HPS4_uc003ach.2_5'Flank	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	114					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						ATTAAAGAATCCAACTAGCTG	0.398									Hermansky-Pudlak_syndrome				29	49					3.73148e-12	4.02099e-12	1	1	0		A	26868841	A	A	26868841	3	1	200	1	0	0	0	0	1	0	0	0	7357	855	30	5	1825	5	HPS4	22	26868841	Missense_Mutation	SNP	C	TCGA-HF-7133-01A-11D-2053-08		26868841	24435725	84	98792											
BRD1	23774	broad.mit.edu	37	chr22	50216631	50216631	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atataaggagcgcacacggtCggcaggaccgcgcagggctc	10	4	15	12	5	0	0	0	0	0	0	2	2	0	2	1	5	1	4	1	5	2	2			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chr22:50216631C>T	uc003biv.2	-	1	1822	c.1335G>A	c.(1333-1335)CCG>CCA	p.P445P	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Silent_p.P445P|BRD1_uc011arh.1_Silent_p.P445P|BRD1_uc003biu.3_Silent_p.P445P	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	445					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CGCACACGGTCGGCAGGACCG	0.572													60	108					0	0	1	0	0		T	50216631	T	T	50216631	2	4	200	1	0	0	0	0	0	0	0	1	1504	871	31	1		1	BRD1	22	50216631	Silent	SNP	C	TCGA-HF-7133-01A-11D-2053-08	23347790	50216631	1087935	85	98793											
USP51	158880	broad.mit.edu	37	chrX	55513295	55513295	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatacccttcactgtagagtAagtcctcaatggtagccttg	11	12	8	10	0	2	1	2	0	0	1	3	1	3	1	3	1	2	3	3	1	6	6			TCGA-HF-7133-01A-11D-2053-08	TCGA-HF-7133-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	45f0380c-c656-45a9-9acf-0d747215a5ab	3f90f656-74aa-499c-b018-76cdb94030d0	g.chrX:55513295A>T	uc004dun.1	-	2	2157	c.2078T>A	c.(2077-2079)TTA>TAA	p.L693*	USP51_uc011moo.1_Nonsense_Mutation_p.L397*	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	693					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						ACTGTAGAGTAAGTCCTCAAT	0.428													15	33					0	0	1	0	0		T	55513295	T	T	55513295	4	4	200	1	0	0	0	0	0	1	0	0	17109	372	13	5	61	5	USP51	23	55513295	Nonsense_Mutation	SNP	A	TCGA-HF-7133-01A-11D-2053-08		55513295	99757265	86	98794											
B4GALT2	8704	broad.mit.edu	37	chr1	44450680	44450680	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcaacctataccgctgcggCgaccaaccccgccactttgc	8	6	8	19	5	0	0	0	0	0	0	0	1	0	0	6	1	5	2	6	1	4	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:44450680C>T	uc001clg.2	+	4	1063	c.693C>T	c.(691-693)GGC>GGT	p.G231G	B4GALT2_uc001clh.2_Silent_p.G165G|B4GALT2_uc010okl.1_Silent_p.G260G|B4GALT2_uc001cli.2_Silent_p.G231G	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	231	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	ACCGCTGCGGCGACCAACCCC	0.612													9	29					0	0	0.080935	0	0		T	44450680	T	T	44450680	2	4	201	1	0	0	0	0	0	0	0	1	1272	755	27	1		1	B4GALT2	1	44450680	Silent	SNP	C	TCGA-HF-7136-01A-11D-2053-08		44450680	204799941	1	98795											
DMRTB1	63948	broad.mit.edu	37	chr1	53925206	53925206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtgcccgtcaagggacacgCgggcaaatgccgctggaagc	9	4	16	12	4	1	0	1	0	0	0	1	2	1	2	2	4	3	2	2	4	3	0			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:53925206C>T	uc001cvq.1	+	1	135	c.80C>T	c.(79-81)GCG>GTG	p.A27V		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	27	DM.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						AAGGGACACGCGGGCAAATGC	0.612													11	6					0	0	0.080935	0	0		T	53925206	T	T	53925206	3	4	201	1	0	0	0	0	1	0	0	0	4596	768	27	1	82	1	DMRTB1	1	53925206	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	9474526	53925206	195325415	2	98796											
ELTD1	64123	broad.mit.edu	37	chr1	79470902	79470902	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attcaacaaagtggaaaaaaCcactaaataaaatagagaaa	25	6	5	5	0	1	1	1	0	0	1	1	3	1	2	1	1	2	0	1	1	11	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:79470902C>A	uc001diq.3	-	2	181	c.25G>T	c.(25-27)GTT>TTT	p.V9F		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	9					neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		GTGGAAAAAACCACTAAATAA	0.318													9	7					2.17888e-05	2.31036e-05	0.058154	1	0		A	79470902	A	A	79470902	3	1	201	1	0	0	0	0	1	0	0	0	5092	507	18	5	2103	5	ELTD1	1	79470902	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	25545696	79470902	169779719	3	98797											
PHTF1	10745	broad.mit.edu	37	chr1	114267498	114267499	+	Frame_Shift_Del	DEL	AC	-	-																															ctcggctcccatcaccatttAcagtttttcgtaattttcta																										TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:114267498_114267499delAC	uc009wgp.1	-	6	957_958	c.505_506delGT	c.(505-507)GTAfs	p.V169fs	PHTF1_uc001edn.2_Frame_Shift_Del_p.V169fs|PHTF1_uc010own.1_Frame_Shift_Del_p.V169fs	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	169						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATCACCATTTACAGTTTTTCGT	0.332													8	2	---	---	---	---						.	-	114267499	-	-	114267498	7	5	201	1	0	1	0	1	0	0	0	0	11881	391	14	0	1834	0	PHTF1	1	114267498	Frame_Shift_Del	DEL	AC	TCGA-HF-7136-01A-11D-2053-08	34796596	114267498	134983123	4	98798											
GJA8	2703	broad.mit.edu	37	chr1	147380211	147380211	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttggcacggccgcagagttCgtgtggggggatgagcaatc	7	8	17	9	3	0	2	0	1	0	1	2	3	0	3	1	5	1	4	1	5	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:147380211C>T	uc001epu.1	+	2	192	c.129C>T	c.(127-129)TTC>TTT	p.F43F		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	43	Helical; (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CCGCAGAGTTCGTGTGGGGGG	0.592													28	52					0	0	0.163468	0	0		T	147380211	T	T	147380211	2	4	201	1	0	0	0	0	0	0	0	1	6420	883	31	1		1	GJA8	1	147380211	Silent	SNP	C	TCGA-HF-7136-01A-11D-2053-08	33112713	147380211	101870410	5	98799											
UBQLN4	56893	broad.mit.edu	37	chr1	156012626	156012626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgctgcgcatgtagggtgctGagatcacattctgcatcagc	8	11	12	10	1	3	1	2	1	1	1	3	2	3	1	0	1	5	5	0	1	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:156012626G>A	uc001fna.2	-	7	1229	c.1205C>T	c.(1204-1206)TCA>TTA	p.S402L	UBQLN4_uc010pgx.1_Missense_Mutation_p.S382L	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	402						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)|skin(1)	2	Hepatocellular(266;0.133)|all_neural(408;0.195)					GTAGGGTGCTGAGATCACATT	0.522													8	54					0	0	0.09319	0	0		A	156012626	A	A	156012626	3	1	201	1	0	0	0	0	1	0	0	0	16925	1294	45	4	620	4	UBQLN4	1	156012626	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	8632415	156012626	93237995	6	98800											
OR10J1	26476	broad.mit.edu	37	chr1	159409739	159409739	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaccatcatccgaatggatcTtcatcttcacacacccatgt	11	11	5	14	1	5	0	3	0	2	0	6	3	6	1	3	1	0	0	3	1	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:159409739T>G	uc010piv.1	+	1	191	c.191T>G	c.(190-192)CTT>CGT	p.L64R	uc001fts.3_Intron	NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	64	Cytoplasmic (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)					CGAATGGATCTTCATCTTCAC	0.448													84	115					0	0	0.139131	0	0		G	159409739	G	G	159409739	3	3	201	1	0	0	0	0	1	0	0	0	10929	1609	56	5	193	5	OR10J1	1	159409739	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08	3397113	159409739	89840882	7	98801											
HSPA6	3310	broad.mit.edu	37	chr1	161494681	161494682	+	Frame_Shift_Ins	INS	-	A	A																															gccaagcggctgatcgggcgINScaagttcgcggacaccacgg																										TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:161494681_161494682insA	uc001gap.2	+	2	893_894	c.233_234insA	c.(232-234)CGCfs	p.R78fs	HSPA6_uc001gaq.2_Frame_Shift_Ins_p.R78fs	NM_002155	NP_002146	P17066	HSP76_HUMAN	heat shock 70kDa protein 6 (HSP70B')	78					response to unfolded protein		ATP binding			skin(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)			CTGATCGGGCGCAAGTTCGCGG	0.688													31	55	---	---	---	---						.	A	161494682	A	A	161494681	7	5	201	1	0	1	1	0	0	0	0	0	7431	1087	38	0	235	0	HSPA6	1	161494681	Frame_Shift_Ins	INS	-	TCGA-HF-7136-01A-11D-2053-08	2084942	161494681	87755940	8	98802											
FCRLB	127943	broad.mit.edu	37	chr1	161693378	161693378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagacacggggagcacccGtcagtgaccccatccacctc	9	4	10	18	2	1	2	1	1	0	1	3	3	2	3	6	2	1	1	6	2	0	0	rs147870526		TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:161693378G>A	uc001gbh.2	+	5	508	c.274G>A	c.(274-276)GTC>ATC	p.V92I	FCRLB_uc009wus.2_Missense_Mutation_p.V92I|FCRLB_uc001gbj.2_Missense_Mutation_p.V92I|FCRLB_uc001gbk.2_Missense_Mutation_p.V92I|FCRLB_uc001gbl.2_Missense_Mutation_p.V85I|FCRLB_uc001gbm.2_Missense_Mutation_p.V85I|FCRLB_uc001gbi.2_Missense_Mutation_p.V92I|FCRLB_uc001gbn.3_5'Flank	NM_001002901	NP_001002901	Q6BAA4	FCRLB_HUMAN	Fc receptor-like B	92	Ig-like C2-type 1.					endoplasmic reticulum					0	all_hematologic(112;0.0359)		BRCA - Breast invasive adenocarcinoma(70;0.00634)			GGGAGCACCCGTCAGTGACCC	0.577													30	33					0	0	0.064281	0	0		A	161693378	A	A	161693378	3	1	201	1	0	0	0	0	1	0	0	0	5815	1145	40	1	284	1	FCRLB	1	161693378	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	198697	161693378	87557243	9	98803											
KIAA1383	54627	broad.mit.edu	37	chr1	232943384	232943384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagctcatgatagcagttCaaggacagaaaatccaaaac	19	6	7	9	0	2	2	2	1	0	1	3	3	3	3	1	1	3	3	1	1	7	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:232943384C>T	uc001hvh.2	+	1	2747	c.2615C>T	c.(2614-2616)TCA>TTA	p.S872L		NM_019090	NP_061963	Q9P2G4	K1383_HUMAN	hypothetical protein LOC54627	730	Ser-rich.									ovary(1)	1		all_cancers(173;0.00528)|Prostate(94;0.122)|all_epithelial(177;0.169)				GATAGCAGTTCAAGGACAGAA	0.393													3	4					0	0	0.014758	0	0		T	232943384	T	T	232943384	3	4	201	1	0	0	0	0	1	0	0	0	8244	838	29	4	2617	4	KIAA1383	1	232943384	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	71250006	232943384	16307237	10	98804											
PLD5	200150	broad.mit.edu	37	chr1	242428713	242428713	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttgatttcaatattttgcGaagtcagctggagcaacttt	10	15	9	7	1	2	1	2	1	0	0	2	3	2	2	0	1	4	3	0	1	4	6			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:242428713G>A	uc001hzn.1	-	4	660	c.533C>T	c.(532-534)TCG>TTG	p.S178L	PLD5_uc001hzl.3_Missense_Mutation_p.S116L|PLD5_uc001hzm.3_5'UTR|PLD5_uc001hzo.1_Missense_Mutation_p.S86L			Q8N7P1	PLD5_HUMAN	RecName: Full=Inactive phospholipase D5;          Short=Inactive PLD 5; AltName: Full=Inactive choline phosphatase 5; AltName: Full=Inactive phosphatidylcholine-hydrolyzing phospholipase D5; AltName: Full=PLDc;	178						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			AATATTTTGCGAAGTCAGCTG	0.358													9	37					0	0	0.047766	0	0		A	242428713	A	A	242428713	3	1	201	1	0	0	0	0	1	0	0	0	12068	1059	37	1	1105	1	PLD5	1	242428713	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	9485329	242428713	6821908	11	98805											
KIF26B	55083	broad.mit.edu	37	chr1	245850350	245850350	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gactctttcaacaaagcagcCcccatcaaaggctgcaaaat	15	7	6	13	0	3	0	2	0	1	0	3	1	3	0	2	1	4	3	2	1	5	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:245850350C>A	uc001ibf.1	+	12	4505	c.4065C>A	c.(4063-4065)GCC>GCA	p.A1355A	KIF26B_uc001ibg.1_Silent_p.A973A|KIF26B_uc001ibh.1_Silent_p.A597A	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1355					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			ACAAAGCAGCCCCCATCAAAG	0.547													20	9					1.15919e-05	1.23983e-05	0.049695	1	0		A	245850350	A	A	245850350	2	1	201	1	0	0	0	0	0	0	0	1	8311	610	22	5		5	KIF26B	1	245850350	Silent	SNP	C	TCGA-HF-7136-01A-11D-2053-08	3421637	245850350	3400271	12	98806											
AHCTF1	25909	broad.mit.edu	37	chr1	247004253	247004253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagccaagggggaaatcagcCgaatttctatgggaggaggt	12	8	15	6	1	2	0	1	0	1	0	2	4	2	3	2	5	2	0	2	5	5	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr1:247004253C>T	uc001ibu.1	-	35	6663	c.6656G>A	c.(6655-6657)CGG>CAG	p.R2219Q	AHCTF1_uc001ibv.1_Missense_Mutation_p.R2228Q|AHCTF1_uc009xgs.1_Silent_p.S1052S	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	2219	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GGAAATCAGCCGAATTTCTAT	0.393													11	18					0	0	0.080935	0	0		T	247004253	T	T	247004253	3	4	201	1	0	0	0	0	1	0	0	0	408	652	23	1	148	1	AHCTF1	1	247004253	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	1153903	247004253	2246368	13	98807											
NRXN1	9378	broad.mit.edu	37	chr2	51255000	51255000	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgcttggacttgacctccaCccacttggcctccacctggt	5	10	9	17	1	0	1	0	1	0	0	2	2	2	2	6	3	0	1	6	3	0	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr2:51255000C>A	uc010fbq.2	-	2	1889	c.412G>T	c.(412-414)GTG>TTG	p.V138L	NRXN1_uc002rxe.3_Missense_Mutation_p.V138L|NRXN1_uc002rxd.1_Missense_Mutation_p.V138L	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTGACCTCCACCCACTTGGCC	0.682													15	21					1.2644e-06	1.3763e-06	0.055883	1	0		A	51255000	A	A	51255000	3	1	201	1	0	0	0	0	1	0	0	0	10684	507	18	5	4586	5	NRXN1	2	51255000	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		51255000	191944373	14	98808											
IL1RL2	8808	broad.mit.edu	37	chr2	102836364	102836364	+	Missense_Mutation	SNP	A	T	T	1	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	ccatgtctcttttcgggaacAtaatttgtacacagtaaaca	13	13	6	9	1	1	0	0	0	1	0	3	1	1	1	1	1	3	2	1	1	5	6	rs139096768	byFrequency	TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr2:102836364A>T	uc002tbs.2	+	8	1004	c.878A>T	c.(877-879)CAT>CTT	p.H293L	IL1RL2_uc002tbt.2_Missense_Mutation_p.H175L	NM_003854	NP_003845	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2 precursor	293	Extracellular (Potential).|Ig-like C2-type 3.				cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			ovary(2)	2						TTTCGGGAACATAATTTGTAC	0.358													11	12					0	0	0.105934	0	0		T	102836364	T	T	102836364	3	4	201	1	0	0	0	0	1	0	0	0	7680	217	8	5	904	5	IL1RL2	2	102836364	Missense_Mutation	SNP	A	TCGA-HF-7136-01A-11D-2053-08	51581364	102836364	140363009	15	98809											
GLI2	2736	broad.mit.edu	37	chr2	121736090	121736090	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacgcgggagcagaagccCttcaaggcgcagtacatgct	10	6	13	12	3	1	1	1	0	0	1	1	2	1	2	1	2	5	5	1	2	3	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr2:121736090C>A	uc010flp.2	+	9	1479	c.1449C>A	c.(1447-1449)CCC>CCA	p.P483P	GLI2_uc002tmq.1_Silent_p.P155P|GLI2_uc002tmr.1_Silent_p.P138P|GLI2_uc002tmt.3_Silent_p.P155P|GLI2_uc002tmu.3_Silent_p.P138P|GLI2_uc002tmw.1_Silent_p.P466P	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	483	C2H2-type 2; degenerate.				axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				AGCAGAAGCCCTTCAAGGCGC	0.647													70	48					1.85135e-42	2.23251e-42	0.139131	1	0		A	121736090	A	A	121736090	2	1	201	1	0	0	0	0	0	0	0	1	6453	668	24	5		5	GLI2	2	121736090	Silent	SNP	C	TCGA-HF-7136-01A-11D-2053-08	18899726	121736090	121463283	16	98810											
PDE1A	5136	broad.mit.edu	37	chr2	183129090	183129090	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tattcaatattcttctttaaGtcgacgacgttaacatcacc	12	15	4	10	3	4	0	2	0	2	0	5	2	4	0	1	0	1	1	1	0	5	8			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr2:183129090G>T	uc002uos.2	-	3	237	c.153C>A	c.(151-153)GAC>GAA	p.D51E	PDE1A_uc010zfp.1_5'UTR|PDE1A_uc002uoq.1_Missense_Mutation_p.D51E|PDE1A_uc010zfq.1_Missense_Mutation_p.D51E|PDE1A_uc002uor.2_Missense_Mutation_p.D35E|PDE1A_uc002uov.1_RNA	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	51					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			TCTTCTTTAAGTCGACGACGT	0.358													15	54					7.07596e-05	7.43883e-05	0.175082	1	0		T	183129090	T	T	183129090	3	4	201	1	0	0	0	0	1	0	0	0	11652	1020	36	5	1584	5	PDE1A	2	183129090	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	61393000	183129090	60070283	17	98811											
CPS1	1373	broad.mit.edu	37	chr2	211473150	211473150	+	Missense_Mutation	SNP	T	C	C	0	1	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	acttccagaaattaagaacgTcgtatccgggaagacatcag	15	8	9	9	3	1	3	1	0	0	3	4	4	3	4	2	1	1	1	2	1	5	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr2:211473150T>C	uc002vee.3	+	19	2390	c.2258T>C	c.(2257-2259)GTC>GCC	p.V753A	CPS1_uc010fur.2_Missense_Mutation_p.V759A|CPS1_uc010fus.2_Missense_Mutation_p.V302A	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	753					carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		ATTAAGAACGTCGTATCCGGG	0.423													8	160					0	0	0.069234	0	0		C	211473150	C	C	211473150	3	2	201	1	0	0	0	0	1	0	0	0	3826	1667	58	3	2354	3	CPS1	2	211473150	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08	28344060	211473150	31726223	18	98812											
SH3BP4	23677	broad.mit.edu	37	chr2	235950502	235950502	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagccctgctggaccccccGctggagctcaacagtgacag	10	5	11	15	1	1	1	1	1	0	0	1	3	1	3	4	2	4	3	4	2	2	0			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr2:235950502G>A	uc002vvp.2	+	4	1482	c.1089G>A	c.(1087-1089)CCG>CCA	p.P363P	SH3BP4_uc010fym.2_Silent_p.P363P|SH3BP4_uc002vvq.2_Silent_p.P363P	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	363					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		TGGACCCCCCGCTGGAGCTCA	0.597													16	18					0	0	0.175082	0	0		A	235950502	A	A	235950502	2	1	201	1	0	0	0	0	0	0	0	1	14271	1074	38	1		1	SH3BP4	2	235950502	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	24477352	235950502	7248871	19	98813											
SCN11A	11280	broad.mit.edu	37	chr3	38888715	38888715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gtcatcttcacccaaagggtCctcactttcttcagtggctg	7	13	8	13	0	6	0	4	0	2	0	7	0	7	0	2	2	0	1	2	2	1	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr3:38888715C>T	uc011ays.1	-	26	5045	c.4846G>A	c.(4846-4848)GAC>AAC	p.D1616N		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1616					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CCCAAAGGGTCCTCACTTTCT	0.368													16	70					0	0	0.043863	0	0		T	38888715	T	T	38888715	3	4	201	1	0	0	0	0	1	0	0	0	13938	855	30	4	533	4	SCN11A	3	38888715	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		38888715	159133715	20	98814											
LPP	4026	broad.mit.edu	37	chr3	188242498	188242499	+	Missense_Mutation	DNP	GA	TT	TT																															aggagaggcgctccagcctgGacgctgagattgactccttg																										TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr3:188242498_188242499GA>TT	uc003frs.1	+	5	598_599	c.352_353GA>TT	c.(352-354)GAC>TTC	p.D118F	LPP_uc011bsg.1_Missense_Mutation_p.D118F|LPP_uc011bsi.1_Missense_Mutation_p.D118F|LPP_uc003frt.2_Missense_Mutation_p.D118F	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	118	Pro-rich.				cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		CTCCAGCCTGGACGCTGAGATT	0.52			T	HMGA2|MLL|C12orf9	lipoma|leukemia								62	98					0	0	0.115264	0	0		TT	188242499	TT	TT	188242498	3	4	201	1	0	0	0	0	1	0	0	0	8941	1174	41	5	362	5	LPP	3	188242498	Missense_Mutation	DNP	GA	TCGA-HF-7136-01A-11D-2053-08	149353783	188242498	9779932	21	98815											
TECRL	253017	broad.mit.edu	37	chr4	65155449	65155449	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgtgattgggatgagacaAcattacattgatgaaatgat	14	13	11	3	0	0	5	0	5	0	1	0	7	0	6	0	1	2	0	0	1	3	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr4:65155449A>C	uc003hcv.2	-	9	920	c.811T>G	c.(811-813)TTG>GTG	p.L271V		NM_001010874	NP_001010874	Q5HYJ1	TECRL_HUMAN	steroid 5 alpha-reductase 2-like 2	271					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors				0						GGATGAGACAACATTACATTG	0.274													9	11					0	0	0.09319	0	0		C	65155449	C	C	65155449	3	2	201	1	0	0	0	0	1	0	0	0	15771	40	2	5	296	5	TECRL	4	65155449	Missense_Mutation	SNP	A	TCGA-HF-7136-01A-11D-2053-08		65155449	125998827	22	98816											
TRIML2	205860	broad.mit.edu	37	chr4	189012609	189012609	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtgtctccatttgggataCagagggaaaacacaggcctg	11	10	12	8	0	1	1	0	0	1	1	2	3	1	3	2	3	2	0	2	3	3	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr4:189012609C>A	uc003izl.2	-	7	1118	c.1082G>T	c.(1081-1083)TGT>TTT	p.C361F	TRIML2_uc003izj.1_Missense_Mutation_p.C189F|TRIML2_uc003izk.1_Missense_Mutation_p.C169F|TRIML2_uc011cle.1_Missense_Mutation_p.C436F	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	361	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		ATTTGGGATACAGAGGGAAAA	0.463													38	24					2.54651e-27	2.98305e-27	0.092188	1	0		A	189012609	A	A	189012609	3	1	201	1	0	0	0	0	1	0	0	0	16577	478	17	5	85	5	TRIML2	4	189012609	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	123857160	189012609	2141667	23	98817											
OXCT1	5019	broad.mit.edu	37	chr5	41739516	41739516	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaatcacacccagtactcttCtgtacgtcatccactgtcag	11	11	5	14	1	5	0	3	0	2	0	6	0	6	0	2	0	2	2	2	0	3	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr5:41739516C>G	uc003jmn.2	-	16	1828	c.1497G>C	c.(1495-1497)CAG>CAC	p.Q499H	OXCT1_uc011cpo.1_Missense_Mutation_p.Q102H|OXCT1_uc011cpp.1_Missense_Mutation_p.Q102H	NM_000436	NP_000427	P55809	SCOT1_HUMAN	3-oxoacid CoA transferase 1 precursor	499					cellular lipid metabolic process|ketone body catabolic process	mitochondrial matrix	3-oxoacid CoA-transferase activity|protein homodimerization activity			ovary(2)|large_intestine(1)	3					Succinic acid(DB00139)	CAGTACTCTTCTGTACGTCAT	0.433													25	95					0	0	0.153744	0	0		G	41739516	G	G	41739516	3	3	201	1	0	0	0	0	1	0	0	0	11348	912	32	5	73	5	OXCT1	5	41739516	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		41739516	139175744	24	98818											
MSH3	4437	broad.mit.edu	37	chr5	79968173	79968173	+	Silent	SNP	A	T	T	1	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	cgccgcctggtggcaaaaggAtataaggtcagctttggctt	9	10	13	9	2	1	0	1	0	0	0	1	1	1	1	2	5	1	3	2	5	4	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr5:79968173A>T	uc003kgz.2	+	5	1156	c.903A>T	c.(901-903)GGA>GGT	p.G301G		NM_002439	NP_002430	P20585	MSH3_HUMAN	mutS homolog 3	301					maintenance of DNA repeat elements|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|somatic recombination of immunoglobulin gene segments	MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|enzyme binding|loop DNA binding|Y-form DNA binding			lung(2)|ovary(1)|breast(1)	4		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)		TGGCAAAAGGATATAAGGTCA	0.423								MMR					12	41					0	0	0.105934	0	0		T	79968173	T	T	79968173	2	4	201	1	0	0	0	0	0	0	0	1	9889	320	12	5		5	MSH3	5	79968173	Silent	SNP	A	TCGA-HF-7136-01A-11D-2053-08	38228657	79968173	100947087	25	98819											
ELOVL2	54898	broad.mit.edu	37	chr6	10990028	10990028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggaagccacacggtttcaCgacggcgctcatggtgtgcg	7	7	16	11	5	2	0	2	0	0	0	2	2	2	1	1	5	2	2	1	5	1	1	rs6919726	byFrequency	TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr6:10990028C>T	uc003mzp.3	-	7	834	c.673G>A	c.(673-675)GTG>ATG	p.V225M		NM_017770	NP_060240	Q9NXB9	ELOV2_HUMAN	elongation of very long chain fatty acids-like	225	Helical; (Potential).				fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Breast(50;0.0418)|Ovarian(93;0.0919)	all_hematologic(90;0.117)	Epithelial(50;0.176)			CACGGTTTCACGACGGCGCTC	0.532													44	102					0	0	0.139131	0	0		T	10990028	T	T	10990028	3	4	201	1	0	0	0	0	1	0	0	0	5082	536	19	1	225	1	ELOVL2	6	10990028	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		10990028	160125039	26	98820											
ETV7	51513	broad.mit.edu	37	chr6	36343663	36343663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgacctgagctgggcgcacGgtgccggaagtcgtccttgg	5	8	16	12	4	0	2	0	2	0	0	2	3	1	3	3	4	2	2	3	4	1	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr6:36343663G>A	uc003omb.2	-	3	441	c.292C>T	c.(292-294)CGT>TGT	p.R98C	ETV7_uc003olz.1_Missense_Mutation_p.R98C|ETV7_uc003oma.1_Intron|ETV7_uc010jwg.2_RNA|ETV7_uc003omc.2_Intron|ETV7_uc010jwj.2_Missense_Mutation_p.P25L|ETV7_uc010jwh.2_Missense_Mutation_p.R17C|ETV7_uc010jwi.2_Missense_Mutation_p.R98C|ETV7_uc011dtl.1_Intron	NM_016135	NP_057219	Q9Y603	ETV7_HUMAN	ets variant 7	98	PNT.				organ morphogenesis|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						CTGGGCGCACGGTGCCGGAAG	0.662													19	233					0	0	0.099896	0	0		A	36343663	A	A	36343663	3	1	201	1	0	0	0	0	1	0	0	0	5292	1116	39	1	757	1	ETV7	6	36343663	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	25353635	36343663	134771404	27	98821											
FAM46A	55603	broad.mit.edu	37	chr6	82459692	82459692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatgagatactcatacttgCggtcttccaatcccacaaag	12	11	6	12	1	3	1	2	1	1	1	5	2	5	1	2	1	3	0	2	1	4	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr6:82459692C>T	uc003pjg.2	-	3	1367	c.1049G>A	c.(1048-1050)CGC>CAC	p.R350H	FAM46A_uc003pjf.2_Missense_Mutation_p.R369H	NM_017633	NP_060103	Q96IP4	FA46A_HUMAN	hypothetical protein LOC55603	350											0		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)		CTCATACTTGCGGTCTTCCAA	0.438													30	45					0	0	0.074837	0	0		T	82459692	T	T	82459692	3	4	201	1	0	0	0	0	1	0	0	0	5579	768	27	1	283	1	FAM46A	6	82459692	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	46116029	82459692	88655375	28	98822											
FOXO3	2309	broad.mit.edu	37	chr6	108985299	108985299	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtataccaccaagggctcGggcctgggctccccaaccag	8	5	11	17	2	0	0	0	0	0	0	2	0	1	0	7	3	2	3	7	3	4	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr6:108985299G>A	uc003psk.2	+	3	1579	c.1263G>A	c.(1261-1263)TCG>TCA	p.S421S	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Silent_p.S421S|FOXO3_uc011ean.1_Silent_p.S201S|FOXO3_uc010kdj.1_Silent_p.S201S	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	421					antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		CCAAGGGCTCGGGCCTGGGCT	0.597													32	134					0	0	0.11126	0	0		A	108985299	A	A	108985299	2	1	201	1	0	0	0	0	0	0	0	1	6038	1103	39	1		1	FOXO3	6	108985299	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	26525607	108985299	62129768	29	98823											
HOXA11	3207	broad.mit.edu	37	chr7	27224536	27224536	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagtgggccagattgccGcgggggtgccatttagtggc	6	9	17	9	2	0	1	0	0	0	1	0	1	0	1	3	4	3	1	3	4	2	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr7:27224536G>A	uc003syx.2	-	1	300	c.228C>T	c.(226-228)CGC>CGT	p.R76R	HOXA11_uc003syy.2_RNA|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	76					branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|breast(1)	2						CCAGATTGCCGCGGGGGTGCC	0.657			T	NUP98	CML								3	78					0	0	0.014758	0	0		A	27224536	A	A	27224536	2	1	201	1	0	0	0	0	0	0	0	1	7306	1074	38	1		1	HOXA11	7	27224536	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08		27224536	131914127	30	98824											
TAS2R4	50832	broad.mit.edu	37	chr7	141478766	141478766	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	catcaccttttcctgaacttGtgactacgagaaataacaca	14	11	5	11	1	1	3	1	2	0	1	2	4	2	3	2	0	3	0	2	0	4	5			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr7:141478766G>A	uc003vwq.1	+	1	478	c.478G>A	c.(478-480)GTG>ATG	p.V160M		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	160	Extracellular (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		TCCTGAACTTGTGACTACGAG	0.453													59	150					0	0	0.139131	0	0		A	141478766	A	A	141478766	3	1	201	1	0	0	0	0	1	0	0	0	15602	1377	48	4	480	4	TAS2R4	7	141478766	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	114254230	141478766	17659897	31	98825											
ATG9B	285973	broad.mit.edu	37	chr7	150721409	150721409	+	Silent	SNP	A	T	T	1	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	cggcatgaaggaggaggaggAggtggcagtggcatggggag	10	4	23	4	1	0	1	0	1	0	0	0	6	0	6	0	10	0	3	0	10	1	0			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr7:150721409A>T	uc011kvc.1	-	1	178	c.102T>A	c.(100-102)CCT>CCA	p.P34P	ATG9B_uc003wig.3_5'Flank	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	34	Pro-rich.|Cytoplasmic (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAGGAGGAGGAGGTGGCAGTG	0.662													2	1					0	0	0.115264	0	0		T	150721409	T	T	150721409	2	4	201	1	0	0	0	0	0	0	0	1	1104	291	11	5		5	ATG9B	7	150721409	Silent	SNP	A	TCGA-HF-7136-01A-11D-2053-08	9242643	150721409	8417254	32	98826											
RP1	6101	broad.mit.edu	37	chr8	55533785	55533785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgaggaacatcagcacccctCggggcaggcacagcatcacg	11	4	12	14	2	2	1	2	1	0	0	3	2	2	2	2	4	3	4	2	4	1	0			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr8:55533785C>T	uc003xsd.1	+	2	407	c.259C>T	c.(259-261)CGG>TGG	p.R87W	RP1_uc011ldy.1_Missense_Mutation_p.R87W	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	87	Doublecortin 1.				axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			CAGCACCCCTCGGGGCAGGCA	0.592													41	160					0	0	0.131918	0	0		T	55533785	T	T	55533785	3	4	201	1	0	0	0	0	1	0	0	0	13557	875	31	1	261	1	RP1	8	55533785	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		55533785	90830237	33	98827											
ADCY8	114	broad.mit.edu	37	chr8	131795957	131795957	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatccggagttcaaaattgTtgaatgaatgcttgttgatc	12	14	9	6	1	1	3	1	3	0	0	3	4	2	4	1	1	1	4	1	1	5	5			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr8:131795957T>A	uc003ytd.3	-	17	3504	c.3248A>T	c.(3247-3249)AAC>ATC	p.N1083I	ADCY8_uc010mds.2_Missense_Mutation_p.N952I	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1083	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TTCAAAATTGTTGAATGAATG	0.512										HNSCC(32;0.087)			72	17					0	0	0.139131	0	0		A	131795957	A	A	131795957	3	1	201	1	0	0	0	0	1	0	0	0	300	1725	60	5	515	5	ADCY8	8	131795957	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08	76262172	131795957	14568065	34	98828											
HAUS6	54801	broad.mit.edu	37	chr9	19063161	19063161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttagaaattgcttcatTtttttctttgggagttccca	7	21	6	7	0	3	1	1	0	2	1	4	2	4	2	1	1	1	2	1	1	2	9			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr9:19063161T>G	uc003znk.2	-	14	1727	c.1474A>C	c.(1474-1476)AAT>CAT	p.N492H	HAUS6_uc011lmz.1_Missense_Mutation_p.N212H|HAUS6_uc003znl.1_Missense_Mutation_p.N356H|HAUS6_uc003znm.1_Missense_Mutation_p.N247H	NM_017645	NP_060115	Q7Z4H7	HAUS6_HUMAN	HAUS augmin-like complex, subunit 6	492					cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|nucleus|spindle				ovary(2)	2						ATTGCTTCATTTTTTTCTTTG	0.358													5	4					0	0	0.021553	0	0		G	19063161	G	G	19063161	3	3	201	1	0	0	0	0	1	0	0	0	6986	1841	64	5	1409	5	HAUS6	9	19063161	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08		19063161	122150270	35	98829											
CDKN2A	1029	broad.mit.edu	37	chr9	21971024	21971024	+	Frame_Shift_Del	DEL	G	-	-																															agccaggtccacgggcagacGgccccaggcatcgcgcacgt																										TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr9:21971024delG	uc003zpk.2	-	2	546	c.334delC	c.(334-336)CGTfs	p.R112fs	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Frame_Shift_Del_p.P167fs	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	112	ANK 4.		R -> RR (in CMM2).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.R112G(4)|p.H83fs*2(2)|p.R112fs(1)|p.R112S(1)|p.R112P(1)|p.A68fs*3(1)|p.R107fs*33(1)|p.R112fs*32(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		ACGGGCAGACGGCCCCAGGCA	0.736		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			19	29	---	---	---	---						.	-	21971024	-	-	21971024	7	5	201	1	0	1	0	1	0	0	0	0	3164	1116	39	0	144	0	CDKN2A	9	21971024	Frame_Shift_Del	DEL	G	TCGA-HF-7136-01A-11D-2053-08	2907863	21971024	119242407	36	98830											
FBXW2	26190	broad.mit.edu	37	chr9	123527050	123527050	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccatgatgtacaggtagcgGttgtcaaacagcagggcaaa	13	8	12	8	1	1	1	1	1	0	0	2	1	2	1	1	3	4	5	1	3	4	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr9:123527050G>A	uc004bkl.1	-	8	1313	c.1152C>T	c.(1150-1152)AAC>AAT	p.N384N	FBXW2_uc011lyc.1_Silent_p.N255N|FBXW2_uc004bkn.2_Silent_p.N416N|FBXW2_uc004bkm.1_Silent_p.N384N|FBXW2_uc010mvj.1_Silent_p.N319N	NM_012164	NP_036296	Q9UKT8	FBXW2_HUMAN	F-box and WD repeat domain containing 2	384					proteolysis		protein binding|ubiquitin-protein ligase activity			urinary_tract(1)|ovary(1)|pancreas(1)|skin(1)	4						ACAGGTAGCGGTTGTCAAACA	0.507													15	62					0	0	0.146539	0	0		A	123527050	A	A	123527050	2	1	201	1	0	0	0	0	0	0	0	1	5780	1252	44	4		4	FBXW2	9	123527050	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	101556026	123527050	17686381	37	98831											
TOR1A	1861	broad.mit.edu	37	chr9	132580876	132580876	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgtcttccctctgctttccaCtcctccagaaatccaaagcc	8	12	4	17	0	2	1	0	0	2	1	7	1	7	1	6	0	2	1	6	0	2	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr9:132580876C>T	uc004byl.2	-	4	748	c.671G>A	c.(670-672)AGT>AAT	p.S224N	TOR1A_uc004bym.2_RNA	NM_000113	NP_000104	O14656	TOR1A_HUMAN	torsin A precursor	224					chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen|nuclear membrane	ATP binding|serine-type endopeptidase activity|unfolded protein binding			central_nervous_system(1)	1		Ovarian(14;0.00556)				CTGCTTTCCACTCCTCCAGAA	0.493													33	61					0	0	0.139131	0	0		T	132580876	T	T	132580876	3	4	201	1	0	0	0	0	1	0	0	0	16397	565	20	4	335	4	TOR1A	9	132580876	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	9053826	132580876	8632555	38	98832											
KCNT1	57582	broad.mit.edu	37	chr9	138683695	138683695	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgtcctcatcaaccctccGcccgacacgaggctggagcc	8	6	9	18	4	2	0	2	0	0	0	4	3	4	1	5	2	3	1	5	2	2	1	rs144068763		TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr9:138683695G>A	uc011mdq.1	+	30	3629	c.3555G>A	c.(3553-3555)CCG>CCA	p.P1185P	KCNT1_uc011mdr.1_Silent_p.P1033P|KCNT1_uc010nbf.2_Silent_p.P1161P	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	1185						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		TCAACCCTCCGCCCGACACGA	0.642													76	63					0	0	0.139131	0	0		A	138683695	A	A	138683695	2	1	201	1	0	0	0	0	0	0	0	1	8107	1074	38	1		1	KCNT1	9	138683695	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	6102819	138683695	2529736	39	98833											
CACNA1B	774	broad.mit.edu	37	chr9	140772535	140772535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctacaagcaatcgatcgcGcagcgcgcgcggaccatggc	9	5	12	15	7	1	0	0	0	1	0	3	2	1	1	1	2	3	2	1	2	3	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr9:140772535G>A	uc004cog.2	+	1	295	c.150G>A	c.(148-150)GCG>GCA	p.A50A	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	50	Cytoplasmic (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	AATCGATCGCGCAGCGCGCGC	0.448													3	14					0	0	0.115264	0	0		A	140772535	A	A	140772535	2	1	201	1	0	0	0	0	0	0	0	1	2542	1074	38	1		1	CACNA1B	9	140772535	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	2088840	140772535	440896	40	98834											
ANK3	288	broad.mit.edu	37	chr10	62021617	62021617	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acacattgctgtgctcttacCcttgcggtgaaatccacagc	9	11	8	13	1	1	1	0	1	1	0	2	1	2	1	2	1	5	2	2	1	2	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr10:62021617C>G	uc001jky.2	-	7	990	c.798G>C	c.(796-798)AGG>AGC	p.R266S	ANK3_uc010qih.1_Missense_Mutation_p.R249S|ANK3_uc001jkz.3_Missense_Mutation_p.R260S|ANK3_uc001jlb.1_5'UTR	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	266					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GTGCTCTTACCCTTGCGGTGA	0.443													20	39					0	0	0.108266	0	0		G	62021617	G	G	62021617	3	3	201	1	0	0	0	0	1	0	0	0	622	637	22	5	12816	5	ANK3	10	62021617	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		62021617	73513130	41	98835											
HERC4	26091	broad.mit.edu	37	chr10	69750049	69750049	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgtgaaattgttggaatCactcatcaggggacattctg	10	14	11	6	0	4	1	3	1	1	0	4	3	4	3	0	3	0	2	0	3	2	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr10:69750049C>A	uc001jng.3	-	14	1863	c.1552G>T	c.(1552-1554)GAT>TAT	p.D518Y	HERC4_uc009xpq.2_Missense_Mutation_p.D59Y|HERC4_uc001jnf.3_RNA|HERC4_uc001jnh.3_Missense_Mutation_p.D518Y|HERC4_uc009xpr.2_Missense_Mutation_p.D518Y|HERC4_uc001jni.3_Missense_Mutation_p.D262Y|HERC4_uc001jnj.2_Missense_Mutation_p.D518Y	NM_022079	NP_071362	Q5GLZ8	HERC4_HUMAN	hect domain and RLD 4 isoform a	518					cell differentiation|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|spermatogenesis	cytosol	ubiquitin-protein ligase activity			ovary(1)|breast(1)|skin(1)	3						TTGTTGGAATCACTCATCAGG	0.368													25	37					0.000491102	0.00050761	0.173368	1	0		A	69750049	A	A	69750049	3	1	201	1	0	0	0	0	1	0	0	0	7076	826	29	5	1673	5	HERC4	10	69750049	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	7728432	69750049	65784698	42	98836											
TM9SF3	56889	broad.mit.edu	37	chr10	98292809	98292810	+	Frame_Shift_Ins	INS	-	T	T																															atttagcattctctttaccaINSttttttctccggtataggac																										TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr10:98292809_98292810insT	uc001kmm.3	-	10	1540_1541	c.1323_1324insA	c.(1321-1326)AAATGGfs	p.K441fs	TM9SF3_uc010qot.1_Frame_Shift_Ins_p.K441fs	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor	441_442						integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		TCTCTTTACCATTTTTTCTCCG	0.376													82	98	---	---	---	---						.	T	98292810	T	T	98292809	7	5	201	1	0	1	1	0	0	0	0	0	16004	231	8	0	469	0	TM9SF3	10	98292809	Frame_Shift_Ins	INS	-	TCGA-HF-7136-01A-11D-2053-08	28542760	98292809	37241938	43	98837											
GBF1	8729	broad.mit.edu	37	chr10	104125283	104125283	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggctccgagagaaccctCggctggacaagaagatgatt	12	7	13	9	2	0	4	0	1	0	3	2	7	1	5	2	3	1	2	2	3	3	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr10:104125283C>T	uc001kux.1	+	18	2473	c.2233C>T	c.(2233-2235)CGG>TGG	p.R745W	GBF1_uc001kuy.1_Missense_Mutation_p.R745W|GBF1_uc001kuz.1_Missense_Mutation_p.R746W	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	745	SEC7.				COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		AGAGAACCCTCGGCTGGACAA	0.488													27	78					0	0	0.173368	0	0		T	104125283	T	T	104125283	3	4	201	1	0	0	0	0	1	0	0	0	6286	875	31	1	2299	1	GBF1	10	104125283	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	5832474	104125283	31409464	44	98838											
OR52J3	119679	broad.mit.edu	37	chr11	5068218	5068218	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgcattgtaattcgtcccGttttacttacacttcccatg	7	17	6	11	2	0	0	0	0	0	0	3	0	2	0	2	0	3	3	2	0	3	7			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:5068218G>A	uc010qyv.1	+	1	463	c.463G>A	c.(463-465)GTT>ATT	p.V155I		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|lung(1)|skin(1)	3		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)		AATTCGTCCCGTTTTACTTAC	0.463													19	32					0	0	0.062417	0	0		A	5068218	A	A	5068218	3	1	201	1	0	0	0	0	1	0	0	0	11141	1145	40	1	465	1	OR52J3	11	5068218	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08		5068218	129938298	45	98839											
FAM160A2	84067	broad.mit.edu	37	chr11	6232859	6232859	+	Silent	SNP	A	G	G	1	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	gccaactccttgagaaattcAgggaaaatgactgcacagta	15	8	9	9	0	1	2	1	2	0	1	2	4	2	3	2	1	2	2	2	1	5	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:6232859A>G	uc001mcl.3	-	12	3155	c.2796T>C	c.(2794-2796)CCT>CCC	p.P932P	FAM160A2_uc001mck.3_Silent_p.P946P	NM_001098794	NP_001092264	Q8N612	F16A2_HUMAN	hypothetical protein LOC84067 isoform 2	932					early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|protein transport	FHF complex	protein binding			skin(2)	2						TGAGAAATTCAGGGAAAATGA	0.557													3	113					0	0	0.115264	0	0		G	6232859	G	G	6232859	2	3	201	1	0	0	0	0	0	0	0	1	5480	175	7	3		3	FAM160A2	11	6232859	Silent	SNP	A	TCGA-HF-7136-01A-11D-2053-08	1164641	6232859	128773657	46	98840											
RBMXL2	27288	broad.mit.edu	37	chr11	7111495	7111495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggaggccgtctaggaggcCgcttggagagaggaggaggc	8	4	21	8	3	1	1	0	0	1	1	1	7	1	6	2	8	0	1	2	8	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:7111495C>T	uc001mfc.2	+	1	1331	c.1144C>T	c.(1144-1146)CGC>TGC	p.R382C		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	382	Arg/Gly/Pro-rich.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		TCTAGGAGGCCGCTTGGAGAG	0.567													10	0					0	0	0.09319	0	0		T	7111495	T	T	7111495	3	4	201	1	0	0	0	0	1	0	0	0	13179	652	23	1	1146	1	RBMXL2	11	7111495	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	878636	7111495	127895021	47	98841											
SLC17A6	57084	broad.mit.edu	37	chr11	22399153	22399153	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaaaattatataaattatgGtaccaccaagtcttatggtg	15	14	6	6	0	2	0	1	0	1	0	2	0	2	0	2	2	1	1	2	2	10	6			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:22399153G>T	uc001mqk.2	+	12	2029	c.1616G>T	c.(1615-1617)GGT>GTT	p.G539V		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	539	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						ATAAATTATGGTACCACCAAG	0.408													9	41					9.70103e-10	1.08475e-09	0.069234	1	0		T	22399153	T	T	22399153	3	4	201	1	0	0	0	0	1	0	0	0	14446	1261	44	5	1662	5	SLC17A6	11	22399153	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	15287658	22399153	112607363	48	98842											
OR5AR1	219493	broad.mit.edu	37	chr11	56431542	56431542	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	ggtcgttttgtggccatttgTcgacccctccactatagcac	6	13	9	13	2	0	0	0	0	0	0	3	1	1	0	4	2	1	2	4	2	2	5			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:56431542T>A	uc010rjm.1	+	1	381	c.381T>A	c.(379-381)TGT>TGA	p.C127*		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	127	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGGCCATTTGTCGACCCCTCC	0.517													41	152					0	0	0.131918	0	0		A	56431542	A	A	56431542	4	1	201	1	0	0	0	0	0	1	0	0	11164	1673	58	5	383	5	OR5AR1	11	56431542	Nonsense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08	34032389	56431542	78574974	49	98843											
CASP1	834	broad.mit.edu	37	chr11	104900494	104900494	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tgcattgagttgtagtatatCtgggacttgctcagagtgtt	8	16	12	5	0	2	2	1	1	1	1	2	3	2	3	0	1	2	6	0	1	3	7			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:104900494C>G	uc010rve.1	-	6	777	c.760G>C	c.(760-762)GAT>CAT	p.D254H	CASP1_uc001pig.2_Missense_Mutation_p.D161H|CASP1_uc001pik.2_Missense_Mutation_p.D217H|CASP1_uc010rvf.1_Missense_Mutation_p.D161H|CASP1_uc010rvg.1_Missense_Mutation_p.D233H|CASP1_uc010rvh.1_Missense_Mutation_p.D161H|CASP1_uc010rvi.1_Intron|CASP1_uc001pim.3_Missense_Mutation_p.D254H|CASP1_uc009yxi.2_Missense_Mutation_p.D233H|CASP1_uc010rvj.1_Missense_Mutation_p.D254H|CASP1_uc009yxj.2_Missense_Mutation_p.D99H|CASP1_uc010rvk.1_Missense_Mutation_p.D215H	NM_033292	NP_150634	P29466	CASP1_HUMAN	caspase 1 isoform alpha precursor	254					cellular response to mechanical stimulus|cellular response to organic substance|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis|signal transduction	cytosol	caspase activator activity|cysteine-type endopeptidase activity|protein binding			ovary(2)	2		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000525)|Epithelial(105;0.0128)|all cancers(92;0.0482)	Minocycline(DB01017)|Penicillamine(DB00859)	TGTAGTATATCTGGGACTTGC	0.483													63	78					0	0	0.139131	0	0		G	104900494	G	G	104900494	3	3	201	1	0	0	0	0	1	0	0	0	2671	913	32	5	470	5	CASP1	11	104900494	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	48468952	104900494	30106022	50	98844											
SIK2	23235	broad.mit.edu	37	chr11	111571702	111571702	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	ccccagaagtctttgaagggCagcagtatgaaggaccacag	13	6	12	10	0	1	3	0	2	1	1	1	4	1	4	3	2	1	3	3	2	4	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:111571702C>T	uc001plt.2	+	5	689	c.571C>T	c.(571-573)CAG>TAG	p.Q191*		NM_015191	NP_056006	Q9H0K1	SIK2_HUMAN	SNF1-like kinase 2	191	Protein kinase.				intracellular protein kinase cascade|regulation of insulin receptor signaling pathway	Golgi apparatus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(2)|skin(1)	3						CTTTGAAGGGCAGCAGTATGA	0.458													37	9					0	0	0.131918	0	0		T	111571702	T	T	111571702	4	4	201	1	0	0	0	0	0	1	0	0	14343	711	25	2	589	2	SIK2	11	111571702	Nonsense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	6671208	111571702	23434814	51	98845											
RNF26	79102	broad.mit.edu	37	chr11	119206667	119206667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggatgtcatgcggctctctCgcctagcactgggctcagag	7	9	13	12	2	3	1	2	0	1	1	5	2	3	2	1	3	2	3	1	3	1	1	rs150176910		TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:119206667C>T	uc001pwh.2	+	1	1431	c.835C>T	c.(835-837)CGC>TGC	p.R279C		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	279							zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		GCGGCTCTCTCGCCTAGCACT	0.672													82	16					0	0	0.139131	0	0		T	119206667	T	T	119206667	3	4	201	1	0	0	0	0	1	0	0	0	13511	884	31	1	837	1	RNF26	11	119206667	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	7634965	119206667	15799849	52	98846											
SORL1	6653	broad.mit.edu	37	chr11	121425952	121425952	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcatcaattctggcctggaGacagtagaagctttggcttt	10	13	10	8	0	3	2	2	0	1	2	3	3	3	2	1	3	1	3	1	3	3	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr11:121425952G>A	uc001pxx.2	+	18	2576	c.2496G>A	c.(2494-2496)GAG>GAA	p.E832E		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	832	Extracellular (Potential).|LDL-receptor class B 1.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CTGGCCTGGAGACAGTAGAAG	0.433													24	73					0	0	0.153744	0	0		A	121425952	A	A	121425952	2	1	201	1	0	0	0	0	0	0	0	1	14959	933	33	4		4	SORL1	11	121425952	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	2219285	121425952	13580564	53	98847											
C12orf4	57102	broad.mit.edu	37	chr12	4600345	4600345	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agagaagattatgctcacctTtgacacacttgaacacaagt	15	10	7	9	0	1	4	1	2	0	2	1	5	1	4	1	0	2	1	1	0	4	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:4600345T>A	uc001qms.2	-	12	1584	c.1496A>T	c.(1495-1497)AAA>ATA	p.K499I	C12orf4_uc001qmt.2_Missense_Mutation_p.K499I	NM_020374	NP_065107	Q9NQ89	CL004_HUMAN	hypothetical protein LOC57102	499											0			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)	BRCA - Breast invasive adenocarcinoma(232;0.0281)		ATGCTCACCTTTGACACACTT	0.393													74	26					0	0	0.139131	0	0		A	4600345	A	A	4600345	3	1	201	1	0	0	0	0	1	0	0	0	1688	1841	64	5	174	5	C12orf4	12	4600345	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08		4600345	129251550	54	98848											
OR10AD1	121275	broad.mit.edu	37	chr12	48596917	48596917	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggggctgttgagcttgggGtctgtccaggaggtgataaa	8	11	17	5	0	1	2	0	2	1	0	2	3	2	3	1	6	1	3	1	6	2	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:48596917G>T	uc001rrl.1	-	1	159	c.159C>A	c.(157-159)GAC>GAA	p.D53E		NM_001004134	NP_001004134	Q8NGE0	O10AD_HUMAN	olfactory receptor, family 10, subfamily AD,	53	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGAGCTTGGGGTCTGTCCAGG	0.537													7	23					5.4927e-09	6.08651e-09	0.047766	1	0		T	48596917	T	T	48596917	3	4	201	1	0	0	0	0	1	0	0	0	10915	1252	44	5	798	5	OR10AD1	12	48596917	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	43996572	48596917	85254978	55	98849											
OR10A7	121364	broad.mit.edu	37	chr12	55615590	55615590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccagtctgacctacctgcGgcccaaatcaaaccagtccc	11	6	7	17	1	2	1	1	1	1	0	3	1	3	1	6	1	4	0	6	1	3	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:55615590G>A	uc010spf.1	+	1	782	c.782G>A	c.(781-783)CGG>CAG	p.R261Q		NM_001005280	NP_001005280	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)	4						ACCTACCTGCGGCCCAAATCA	0.522													19	50					0	0	0.083992	0	0		A	55615590	A	A	55615590	3	1	201	1	0	0	0	0	1	0	0	0	10914	1116	39	1	784	1	OR10A7	12	55615590	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	7018673	55615590	78236305	56	98850											
UBE2N	7334	broad.mit.edu	37	chr12	93804919	93804920	+	Nonsense_Mutation	DNP	GG	CT	CT																															tactttaggggctgccattgGgtattcttctggaaggaata																										TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:93804919_93804920GG>CT	uc001tcp.2	-	2	552_553	c.186_187CC>AG	c.(184-189)TACCCA>TAAGCA	p.62_63YP>*A		NM_003348	NP_003339	P61088	UBE2N_HUMAN	ubiquitin-conjugating enzyme E2N	62_63					DNA double-strand break processing|double-strand break repair via homologous recombination|histone ubiquitination|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of DNA repair|positive regulation of histone modification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity|postreplication repair|protein K63-linked ubiquitination|proteolysis|regulation of histone ubiquitination|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus|UBC13-MMS2 complex|UBC13-UEV1A complex|ubiquitin ligase complex	ATP binding|ubiquitin binding|ubiquitin-protein ligase activity				0						GCTGCCATTGGGTATTCTTCTG	0.406								Direct_reversal_of_damage|Rad6_pathway					3	71					0	0	0.115264	0	0		CT	93804920	CT	CT	93804919	4	2	201	1	0	0	0	0	0	1	0	0	16892	1232	43	5	283	5	UBE2N	12	93804919	Nonsense_Mutation	DNP	GG	TCGA-HF-7136-01A-11D-2053-08	38189329	93804919	40046976	57	98851											
ATXN2	6311	broad.mit.edu	37	chr12	111926287	111926287	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggtttactcactcagctgCgtctttcttctcttccttat	5	18	5	13	1	5	0	2	0	3	0	7	0	6	0	1	1	3	2	1	1	2	6			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:111926287C>A	uc001tsj.2	-	15	2875	c.2713G>T	c.(2713-2715)GCA>TCA	p.A905S	ATXN2_uc001tsh.2_Missense_Mutation_p.A640S|ATXN2_uc001tsi.2_Missense_Mutation_p.A616S|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Missense_Mutation_p.A91S	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	905					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						CACTCAGCTGCGTCTTTCTTC	0.443													14	45					3.52763e-06	3.80613e-06	0.160694	1	0		A	111926287	A	A	111926287	3	1	201	1	0	0	0	0	1	0	0	0	1212	768	27	5	1272	5	ATXN2	12	111926287	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	18121368	111926287	21925608	58	98852											
BRAP	8315	broad.mit.edu	37	chr12	112119584	112119584	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtgatctttacttctttgCgcagtgggggaggcttctga	5	15	13	8	1	3	2	0	2	3	0	3	3	3	3	0	3	2	2	0	3	1	5	rs142262681	byFrequency	TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:112119584C>T	uc001tsn.3	-	3	494	c.300G>A	c.(298-300)GCG>GCA	p.A100A	BRAP_uc010syh.1_5'UTR|BRAP_uc009zvv.2_Silent_p.A70A	NM_006768	NP_006759	Q7Z569	BRAP_HUMAN	BRCA1 associated protein	100					MAPKKK cascade|negative regulation of signal transduction|Ras protein signal transduction	cytoplasm|ubiquitin ligase complex	identical protein binding|nuclear localization sequence binding|nucleotide binding|ubiquitin-protein ligase activity|zinc ion binding			lung(1)	1						TACTTCTTTGCGCAGTGGGGG	0.408													5	66					0	0	0.038147	0	0		T	112119584	T	T	112119584	2	4	201	1	0	0	0	0	0	0	0	1	1500	755	27	1		1	BRAP	12	112119584	Silent	SNP	C	TCGA-HF-7136-01A-11D-2053-08	193297	112119584	21732311	59	98853											
ACADS	35	broad.mit.edu	37	chr12	121176172	121176172	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatccggggctcatccacGgccaacctcatctttgagga	8	8	11	14	2	3	1	2	1	1	0	5	2	5	2	4	5	1	2	4	5	1	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:121176172G>A	uc001tza.3	+	6	832	c.714G>A	c.(712-714)ACG>ACA	p.T238T	ACADS_uc010szl.1_Silent_p.T234T|ACADS_uc001tzb.3_Silent_p.T165T	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	238						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)	GCTCATCCACGGCCAACCTCA	0.612													10	78					0	0	0.09319	0	0		A	121176172	A	A	121176172	2	1	201	1	0	0	0	0	0	0	0	1	114	1103	39	1		1	ACADS	12	121176172	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	9056588	121176172	12675723	60	98854											
DNAH10	196385	broad.mit.edu	37	chr12	124325995	124325995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttgcgggctgaagggcgcGtggaggactggatgacggca	7	7	19	8	4	1	2	0	2	1	0	1	5	1	5	0	6	1	2	0	6	1	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:124325995G>A	uc001uft.3	+	29	4934	c.4909G>A	c.(4909-4911)GTG>ATG	p.V1637M		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1637	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		TGAAGGGCGCGTGGAGGACTG	0.453													33	85					0	0	0.183431	0	0		A	124325995	A	A	124325995	3	1	201	1	0	0	0	0	1	0	0	0	4604	1145	40	1	5023	1	DNAH10	12	124325995	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	3149823	124325995	9525900	61	98855											
POLE	5426	broad.mit.edu	37	chr12	133256628	133256628	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	aagatgaaacttctcgctcaCaaccctaatcaggatcagaa	16	8	6	11	1	4	3	3	1	1	2	5	4	4	4	1	1	2	1	1	1	5	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:133256628C>A	uc001uks.1	-	5	379	c.335G>T	c.(334-336)TGT>TTT	p.C112F	POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Missense_Mutation_p.C85F	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	112					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		TTCTCGCTCACAACCCTAATC	0.438								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	35					0.00909568	0.00924602	0.150653	1	0		A	133256628	A	A	133256628	3	1	201	1	0	0	0	0	1	0	0	0	12215	478	17	5	6705	5	POLE	12	133256628	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	8930633	133256628	595267	62	98856											
CHFR	55743	broad.mit.edu	37	chr12	133435752	133435752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctgacgtcctcgtggacGgtttgggcatttctacgcgg	4	12	14	11	5	2	1	0	1	2	0	4	2	3	2	1	4	1	3	1	4	1	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr12:133435752G>A	uc001ulf.2	-	8	933	c.849C>T	c.(847-849)ACC>ACT	p.T283T	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Silent_p.T271T|CHFR_uc010tbs.1_Silent_p.T283T|CHFR_uc001uld.2_Silent_p.T242T|CHFR_uc010tbt.1_Silent_p.T191T	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	283					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		CCTCGTGGACGGTTTGGGCAT	0.567													41	25					0	0	0.139131	0	0		A	133435752	A	A	133435752	2	1	201	1	0	0	0	0	0	0	0	1	3340	1103	39	1		1	CHFR	12	133435752	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	179124	133435752	416143	63	98857											
CSNK1A1L	122011	broad.mit.edu	37	chr13	37679324	37679324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccaaaggagccagaccCgatcttccgcaccagtttgt	9	9	9	14	2	2	1	0	0	2	1	4	3	3	2	5	1	1	2	5	1	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr13:37679324C>T	uc001uwm.1	-	1	478	c.70G>A	c.(70-72)GGG>AGG	p.G24R		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	24	ATP (By similarity).|Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		GAGCCAGACCCGATCTTCCGC	0.552													28	65					0	0	0.064281	0	0		T	37679324	T	T	37679324	3	4	201	1	0	0	0	0	1	0	0	0	3954	652	23	1	947	1	CSNK1A1L	13	37679324	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		37679324	77490554	64	98858											
WBP4	11193	broad.mit.edu	37	chr13	41639174	41639177	+	Frame_Shift_Del	DEL	GAAA	-	-																															tgttgaatttcatgaaagagGaaagaatcataaggaaaatg																										TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr13:41639174_41639177delGAAA	uc001uxt.2	+	3	211_214	c.98_101delGAAA	c.(97-102)GGAAAGfs	p.G33fs	WBP4_uc010tfd.1_Intron	NM_007187	NP_009118	O75554	WBP4_HUMAN	WW domain-containing binding protein 4	33_34	Matrin-type.				nuclear mRNA cis splicing, via spliceosome	nuclear speck|spliceosomal complex	nucleic acid binding|proline-rich region binding|zinc ion binding			breast(2)|kidney(1)	3		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)		CATGAAAGAGGAAAGAATCATAAG	0.27													29	29	---	---	---	---						.	-	41639177	-	-	41639174	7	5	201	1	0	1	0	1	0	0	0	0	17287	1174	41	0	108	0	WBP4	13	41639174	Frame_Shift_Del	DEL	GAAA	TCGA-HF-7136-01A-11D-2053-08	3959850	41639174	73530704	65	98859											
TEP1	7011	broad.mit.edu	37	chr14	20863741	20863741	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacggttcttttcatttctaGttagtatccgcctcatcagt	7	17	7	10	2	5	0	3	0	2	0	6	1	6	0	2	1	0	3	2	1	3	7			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr14:20863741G>T	uc001vxe.2	-	12	1836	c.1796C>A	c.(1795-1797)ACT>AAT	p.T599N	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Missense_Mutation_p.T491N	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	599	TROVE.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TTCATTTCTAGTTAGTATCCG	0.463													11	63					7.93312e-07	8.71227e-07	0.11911	1	0		T	20863741	T	T	20863741	3	4	201	1	0	0	0	0	1	0	0	0	15784	1029	36	5	6263	5	TEP1	14	20863741	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08		20863741	86485799	66	98860											
SIP1	8487	broad.mit.edu	37	chr14	39597518	39597518	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtcttggaatatctgagtaAttggtttggagaaagagact	12	14	12	3	0	2	3	0	1	2	2	2	6	2	4	0	3	0	2	0	3	4	5			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr14:39597518A>C	uc001wuq.2	+	7	621	c.599A>C	c.(598-600)AAT>ACT	p.N200T	SIP1_uc001wur.2_Missense_Mutation_p.N200T|SIP1_uc001wus.2_Missense_Mutation_p.N185T|SIP1_uc010amx.2_RNA	NM_003616	NP_003607	O14893	GEMI2_HUMAN	SMN-interacting protein 1 isoform alpha	200					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)		TATCTGAGTAATTGGTTTGGA	0.279													27	32					0	0	0.074837	0	0		C	39597518	C	C	39597518	3	2	201	1	0	0	0	0	1	0	0	0	14352	101	4	5	625	5	SIP1	14	39597518	Missense_Mutation	SNP	A	TCGA-HF-7136-01A-11D-2053-08	18733777	39597518	67752022	67	98861											
LRFN5	145581	broad.mit.edu	37	chr14	42360632	42360632	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gcgttgccatttcatgcagtCtcagtttttgggaggcacca	7	13	11	10	1	2	0	2	0	1	0	3	1	2	1	2	2	2	4	2	2	0	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr14:42360632C>G	uc001wvm.2	+	4	2763	c.1565C>G	c.(1564-1566)TCT>TGT	p.S522C	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	522	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TTCATGCAGTCTCAGTTTTTG	0.423										HNSCC(30;0.082)			50	157					0	0	0.139131	0	0		G	42360632	G	G	42360632	3	3	201	1	0	0	0	0	1	0	0	0	8959	913	32	5	1571	5	LRFN5	14	42360632	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	2763114	42360632	64988908	68	98862											
SERPINA10	51156	broad.mit.edu	37	chr14	94750385	94750385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcatgaaatgaaatggccGgtccactttgatgacaggag	13	9	12	7	1	1	4	1	4	0	0	2	6	2	5	2	3	0	0	2	3	2	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr14:94750385G>A	uc001yct.2	-	5	1718	c.1252C>T	c.(1252-1254)CGG>TGG	p.R418W	SERPINA10_uc001ycu.3_Missense_Mutation_p.R418W	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	418					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		TGAAATGGCCGGTCCACTTTG	0.453													3	57					0	0	0.150653	0	0		A	94750385	A	A	94750385	3	1	201	1	0	0	0	0	1	0	0	0	14112	1115	39	1	86	1	SERPINA10	14	94750385	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	52389753	94750385	12599155	69	98863											
EEF2K	29904	broad.mit.edu	37	chr16	22278169	22278169	+	Missense_Mutation	SNP	A	T	T	1	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	catgtactcgcagttgcctcAtcacatcctagccgatgtct	8	12	7	14	2	3	0	2	0	1	0	5	1	4	0	3	0	3	3	3	0	2	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr16:22278169A>T	uc002dki.2	+	15	2221	c.1736A>T	c.(1735-1737)CAT>CTT	p.H579L	EEF2K_uc002dkh.2_RNA	NM_013302	NP_037434	O00418	EF2K_HUMAN	elongation factor-2 kinase	579					insulin receptor signaling pathway|translational elongation	cytosol	ATP binding|calcium ion binding|calmodulin binding|elongation factor-2 kinase activity|translation factor activity, nucleic acid binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(48;0.0223)		CAGTTGCCTCATCACATCCTA	0.637													28	83					0	0	0.064281	0	0		T	22278169	T	T	22278169	3	4	201	1	0	0	0	0	1	0	0	0	4936	217	8	5	1790	5	EEF2K	16	22278169	Missense_Mutation	SNP	A	TCGA-HF-7136-01A-11D-2053-08		22278169	68076584	70	98864											
ADAMTS18	170692	broad.mit.edu	37	chr16	77325275	77325275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatttggtttcttaatattaCggcatcttcgctctgggaaa	9	16	9	7	2	3	0	0	0	3	0	4	2	3	1	0	3	1	3	0	3	4	6	rs150975249	byFrequency	TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr16:77325275C>T	uc002ffc.3	-	21	3709	c.3290G>A	c.(3289-3291)CGT>CAT	p.R1097H		NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1097	TSP type-1 4.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						CTTAATATTACGGCATCTTCG	0.502													108	34					0	0	0.139131	0	0		T	77325275	T	T	77325275	3	4	201	1	0	0	0	0	1	0	0	0	263	536	19	1	387	1	ADAMTS18	16	77325275	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	55047106	77325275	13029478	71	98865											
SLC16A13	201232	broad.mit.edu	37	chr17	6941923	6941923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctatttctgacctcgtggggCgtgtggtctccggatggctg	3	13	15	10	3	2	1	0	1	2	0	4	2	2	2	2	5	0	1	2	5	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr17:6941923C>T	uc002geh.2	+	3	1104	c.796C>T	c.(796-798)CGT>TGT	p.R266C		NM_201566	NP_963860	Q7RTY0	MOT13_HUMAN	monocarboxylate transporter 13	266	Helical; (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(1)|skin(1)	2						CCTCGTGGGGCGTGTGGTCTC	0.602													28	30					0	0	0.144211	0	0		T	6941923	T	T	6941923	3	4	201	1	0	0	0	0	1	0	0	0	14431	768	27	1	806	1	SLC16A13	17	6941923	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		6941923	74253287	72	98866											
DSC1	1823	broad.mit.edu	37	chr18	28710576	28710576	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccgatcgctgcagcaaccTactgagccggccagagaacc	10	5	11	15	3	0	2	0	1	0	1	1	4	0	2	5	1	7	3	5	1	3	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr18:28710576T>A	uc002kwn.2	-	16	2848	c.2586A>T	c.(2584-2586)GTA>GTT	p.V862V	DSC1_uc002kwm.2_3'UTR|uc002kwo.1_5'Flank	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	862	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			TGCAGCAACCTACTGAGCCGG	0.438													24	63					0	0	0.134883	0	0		A	28710576	A	A	28710576	2	1	201	1	0	0	0	0	0	0	0	1	4771	1509	53	5		5	DSC1	18	28710576	Silent	SNP	T	TCGA-HF-7136-01A-11D-2053-08		28710576	49366672	73	98867											
EMR2	30817	broad.mit.edu	37	chr19	14887536	14887536	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcggggccccaaagtacttAccgagaaagacgagaaagac	16	3	12	10	3	0	4	0	0	0	4	0	6	0	4	3	2	3	1	3	2	5	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr19:14887536A>G	uc002mzp.1	-	2	487	c.31_splice	c.e2+1	p.A11_splice	EMR2_uc010xnw.1_Intron|EMR2_uc002mzo.1_Splice_Site_p.A11_splice|EMR2_uc002mzq.1_Splice_Site_p.A11_splice|EMR2_uc002mzr.1_Splice_Site_p.A11_splice|EMR2_uc002mzs.1_Splice_Site_p.A11_splice|EMR2_uc002mzt.1_Splice_Site_p.A11_splice|EMR2_uc002mzu.1_Splice_Site_p.A11_splice|EMR2_uc010xny.1_Intron	NM_013447	NP_038475	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone						cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			lung(2)|ovary(1)|skin(1)	4						CAAAGTACTTACCGAGAAAGA	0.652													12	0					0	0	0.11911	0	0		G	14887536	G	G	14887536	5	3	201	1	0	0	0	0	0	0	1	0	5113	405	14	3	2518	3	EMR2	19	14887536	Splice_Site	SNP	A	TCGA-HF-7136-01A-11D-2053-08		14887536	44241447	74	98868											
MAST3	23031	broad.mit.edu	37	chr19	18255381	18255381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccggggccgccgccttggggGcccaagagacccagcccctg	5	3	15	18	3	0	1	0	0	0	1	0	2	0	1	8	4	1	0	8	4	1	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr19:18255381G>A	uc002nhz.3	+	22	2603	c.2603G>A	c.(2602-2604)GGC>GAC	p.G868D		NM_015016	NP_055831	O60307	MAST3_HUMAN	microtubule associated serine/threonine kinase	868							ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			large_intestine(2)|ovary(2)|stomach(1)	5						CGCCTTGGGGGCCCAAGAGAC	0.701													10	12					0	0	0.069234	0	0		A	18255381	A	A	18255381	3	1	201	1	0	0	0	0	1	0	0	0	9344	1203	42	2	2689	2	MAST3	19	18255381	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	3367845	18255381	40873602	75	98869											
ZNF568	374900	broad.mit.edu	37	chr19	37441189	37441189	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcgaatgtcatctgttacGctacatatgagaagtcacac	12	12	7	10	2	4	1	2	1	2	1	5	3	4	1	0	0	2	2	0	0	5	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr19:37441189G>A	uc002ofc.2	+	7	1649	c.1134G>A	c.(1132-1134)ACG>ACA	p.T378T	ZNF568_uc010efg.2_Intron|ZNF568_uc010xtn.1_Intron|ZNF568_uc002ofd.2_Silent_p.T302T|ZNF568_uc010efe.2_Silent_p.T302T|ZNF568_uc010eff.1_Intron	NM_198539	NP_940941	Q3ZCX4	ZN568_HUMAN	zinc finger protein 568	378	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CATCTGTTACGCTACATATGA	0.358													54	49					0	0	0.139131	0	0		A	37441189	A	A	37441189	2	1	201	1	0	0	0	0	0	0	0	1	18024	1074	38	1		1	ZNF568	19	37441189	Silent	SNP	G	TCGA-HF-7136-01A-11D-2053-08	19185808	37441189	21687794	76	98870											
QPCTL	54814	broad.mit.edu	37	chr19	46195970	46195970	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaagcggccatgcgttcCgggggccgcgggcgaccccg	5	3	18	15	7	0	0	0	0	0	0	1	1	1	0	5	5	2	2	5	5	1	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr19:46195970C>G	uc010xxr.1	+	1	230	c.9C>G	c.(7-9)TCC>TCG	p.S3S	SNRPD2_uc002pcv.2_5'Flank|SNRPD2_uc002pcw.2_5'Flank|QPCTL_uc010ekn.2_Silent_p.S3S	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	3					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		CCATGCGTTCCGGGGGCCGCG	0.662													11	22					0	0	0.105934	0	0		G	46195970	G	G	46195970	2	3	201	1	0	0	0	0	0	0	0	1	12900	639	23	5		5	QPCTL	19	46195970	Silent	SNP	C	TCGA-HF-7136-01A-11D-2053-08	8754781	46195970	12933013	77	98871											
ZNF776	284309	broad.mit.edu	37	chr19	58265941	58265941	+	Silent	SNP	T	C	C	0	1	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	ctcattcgacatcagcagatTcactctggagaaaggccaca	13	8	8	12	1	4	2	3	0	1	2	5	4	4	2	1	2	1	1	1	2	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr19:58265941T>C	uc002qpx.2	+	3	1666	c.1443T>C	c.(1441-1443)ATT>ATC	p.I481I	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Silent_p.I481I	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	481	C2H2-type 10; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0256)		ATCAGCAGATTCACTCTGGAG	0.448													3	111					0	0	0.115264	0	0		C	58265941	C	C	58265941	2	2	201	1	0	0	0	0	0	0	0	1	18174	1771	62	3		3	ZNF776	19	58265941	Silent	SNP	T	TCGA-HF-7136-01A-11D-2053-08	12069971	58265941	863042	78	98872											
RASSF2	9770	broad.mit.edu	37	chr20	4771185	4771185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcctcacattgccacggcgaCgcaccccaacatcactgcgt	9	7	7	18	4	2	0	2	0	0	0	3	1	3	0	4	1	3	1	4	1	1	1	rs145104204	byFrequency	TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:4771185C>T	uc002wld.2	-	6	503	c.449G>A	c.(448-450)CGT>CAT	p.R150H	RASSF2_uc002wlc.2_RNA|RASSF2_uc002wle.2_RNA|RASSF2_uc002wlf.2_Missense_Mutation_p.R150H	NM_170774	NP_739580	P50749	RASF2_HUMAN	Ras association domain family 2	150					cell cycle|signal transduction	nucleus	protein binding			ovary(3)|lung(2)|large_intestine(1)	6						GCCACGGCGACGCACCCCAAC	0.587													17	28					0	0	0.160694	0	0		T	4771185	T	T	4771185	3	4	201	1	0	0	0	0	1	0	0	0	13111	536	19	1	555	1	RASSF2	20	4771185	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		4771185	58254335	79	98873											
FOXS1	2307	broad.mit.edu	37	chr20	30432356	30432356	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaggtgaggctgcctttaCtcaaagaagaacattcctgg	11	9	11	10	1	1	3	1	1	0	2	2	4	2	3	3	3	3	1	3	3	4	3			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:30432356C>A	uc002wwt.1	-	1	1065	c.990G>T	c.(988-990)GAG>GAT	p.E330D		NM_004118	NP_004109	O43638	FOXS1_HUMAN	forkhead box S1	330					anti-apoptosis|artery morphogenesis|blood vessel remodeling|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|insulin receptor signaling pathway|lymphangiogenesis|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|neural crest cell fate commitment|neuromuscular process controlling balance|Notch signaling pathway|ossification|paraxial mesodermal cell fate commitment|patterning of blood vessels|positive regulation of multicellular organism growth|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|somitogenesis|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	transcription factor complex	chromatin DNA binding|DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)	1						GCTGCCTTTACTCAAAGAAGA	0.627													41	109					6.4308e-24	7.46216e-24	0.139131	1	0		A	30432356	A	A	30432356	3	1	201	1	0	0	0	0	1	0	0	0	6049	564	20	5	6	5	FOXS1	20	30432356	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	25661171	30432356	32593164	80	98874											
ZHX3	23051	broad.mit.edu	37	chr20	39832810	39832810	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcccgttggcggcatggggGttttttgcagagctggcaga	5	10	18	8	2	0	2	0	0	0	2	0	2	0	2	1	6	2	6	1	6	0	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:39832810G>T	uc002xjs.1	-	3	1125	c.747C>A	c.(745-747)AAC>AAA	p.N249K	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Missense_Mutation_p.N249K|ZHX3_uc002xjt.1_Missense_Mutation_p.N249K|ZHX3_uc002xju.1_Missense_Mutation_p.N249K|ZHX3_uc002xjv.1_Missense_Mutation_p.N249K|ZHX3_uc002xjw.1_Missense_Mutation_p.N249K|ZHX3_uc010ggg.1_Missense_Mutation_p.N249K	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	249	Required for homodimerization and interaction with NFYA.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				CGGCATGGGGGTTTTTTGCAG	0.587													51	46					1.02067e-35	1.20713e-35	0.139131	1	0		T	39832810	T	T	39832810	3	4	201	1	0	0	0	0	1	0	0	0	17702	1252	44	5	2131	5	ZHX3	20	39832810	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	9400454	39832810	23192710	81	98875											
TOX2	84969	broad.mit.edu	37	chr20	42695466	42695466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggactgggacagcagctacCccagtggggagtgtggcatc	8	6	17	10	0	0	0	0	0	0	0	1	3	0	3	2	5	3	3	2	5	1	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:42695466C>A	uc002xlf.3	+	7	1416	c.1399C>A	c.(1399-1401)CCC>ACC	p.P467T	TOX2_uc010ggo.2_Missense_Mutation_p.P485T|TOX2_uc002xle.3_Missense_Mutation_p.P443T|TOX2_uc010ggp.2_Missense_Mutation_p.P443T|TOX2_uc002xlg.2_Missense_Mutation_p.P284T|TOX2_uc010zwk.1_Missense_Mutation_p.P363T	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	467					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			CAGCAGCTACCCCAGTGGGGA	0.642													105	134					1.3662e-46	1.66379e-46	0.139131	1	0		A	42695466	A	A	42695466	3	1	201	1	0	0	0	0	1	0	0	0	16404	623	22	5	1613	5	TOX2	20	42695466	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	2862656	42695466	20330054	82	98876											
ZNF831	128611	broad.mit.edu	37	chr20	57769755	57769755	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaatggccctcctgggagCaatggaggatggacctggac	9	6	14	12	0	0	0	0	0	0	0	1	5	1	5	4	6	1	1	4	6	2	0			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:57769755C>A	uc002yan.2	+	1	3681	c.3681C>A	c.(3679-3681)AGC>AGA	p.S1227R		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1227						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTCCTGGGAGCAATGGAGGAT	0.627													24	7					5.60225e-13	6.3218e-13	0.144211	1	0		A	57769755	A	A	57769755	3	1	201	1	0	0	0	0	1	0	0	0	18210	709	25	5	3683	5	ZNF831	20	57769755	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	15074289	57769755	5255765	83	98877											
LAMA5	3911	broad.mit.edu	37	chr20	60903046	60903046	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agcaggtatcacagcggcgcCcagtcacgttgggtctgcac	8	7	13	13	3	3	0	2	0	1	0	3	0	3	0	1	3	3	4	1	3	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:60903046C>A	uc002ycq.2	-	36	4740	c.4673G>T	c.(4672-4674)GGG>GTG	p.G1558V		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	1558	Laminin EGF-like 14.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACAGCGGCGCCCAGTCACGTT	0.692													37	35					7.05377e-20	8.10854e-20	0.139131	1	0		A	60903046	A	A	60903046	3	1	201	1	0	0	0	0	1	0	0	0	8625	623	22	5	6594	5	LAMA5	20	60903046	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	3133291	60903046	2122474	84	98878											
UCKL1	54963	broad.mit.edu	37	chr20	62571773	62571773	+	Silent	SNP	C	A	A	0	0	0	1	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	atggccgccgcgcccgtggaCacggtgcagtccatgaggat	7	6	15	13	5	0	1	0	1	0	0	1	3	1	3	4	4	1	1	4	4	0	0			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:62571773C>A	uc010gkn.2	-	13	1411	c.1368G>T	c.(1366-1368)GTG>GTT	p.V456V	UCKL1_uc002yhj.2_Silent_p.V99V|UCKL1_uc011abm.1_Silent_p.V441V|UCKL1_uc011abn.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	456					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CGCCCGTGGACACGGTGCAGT	0.662													19	29					9.95505e-16	1.13377e-15	0.069288	1	0		A	62571773	A	A	62571773	2	1	201	1	0	0	0	0	0	0	0	1	16951	465	17	5		5	UCKL1	20	62571773	Silent	SNP	C	TCGA-HF-7136-01A-11D-2053-08	1668727	62571773	453747	85	98879											
TCEA2	6919	broad.mit.edu	37	chr20	62700799	62700799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtcacctgtgatgccgtgCgcaacaagtgccgcgagatg	8	8	13	12	4	1	2	1	1	0	1	1	3	1	2	3	0	4	1	3	0	2	0			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr20:62700799C>T	uc011abs.1	+	5	1071	c.415C>T	c.(415-417)CGC>TGC	p.R139C	TCEA2_uc011abr.1_Missense_Mutation_p.R112C|TCEA2_uc010gkq.2_Missense_Mutation_p.R112C|TCEA2_uc010gks.2_Missense_Mutation_p.R139C|TCEA2_uc010gkt.2_Missense_Mutation_p.R112C|TCEA2_uc010gku.1_Silent_p.C82C	NM_003195	NP_003186	Q15560	TCEA2_HUMAN	transcription elongation factor A protein 2	139	TFIIS central.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription elongation, DNA-dependent	transcription elongation factor complex	DNA binding|protein binding|translation elongation factor activity|zinc ion binding				0	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					TGATGCCGTGCGCAACAAGTG	0.682													42	6					0	0	0.139131	0	0		T	62700799	T	T	62700799	3	4	201	1	0	0	0	0	1	0	0	0	15693	768	27	1	433	1	TCEA2	20	62700799	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	129026	62700799	324721	86	98880											
DSCR6	53820	broad.mit.edu	37	chr21	38390196	38390196	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctatttacccatgtcaaagCgtcaagaatacctgcggagt	12	11	8	10	2	3	1	2	0	1	1	3	2	3	2	2	1	4	0	2	1	6	4			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr21:38390196C>G	uc002yvv.2	+	4	472	c.262C>G	c.(262-264)CGT>GGT	p.R88G	DSCR6_uc011aec.1_5'UTR|DSCR6_uc010gnd.2_5'UTR	NM_018962	NP_061835	P57055	DSCR6_HUMAN	Down syndrome critical region protein 6	88	Ripply homology domain.					nucleus				breast(1)	1		Myeloproliferative disorder(46;0.0632)				CATGTCAAAGCGTCAAGAATA	0.443													27	7					0	0	0.064281	0	0		G	38390196	G	G	38390196	3	3	201	1	0	0	0	0	1	0	0	0	4779	768	27	5	276	5	DSCR6	21	38390196	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08		38390196	9739699	87	98881											
BRWD1	54014	broad.mit.edu	37	chr21	40578076	40578076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcacctttacaattttgcCgttgcttgaacctctggctt	6	17	7	11	1	2	1	1	1	1	0	2	1	2	1	3	1	4	3	3	1	3	7	rs147847700	byFrequency	TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr21:40578076C>T	uc002yxk.1	-	37	4461	c.4322G>A	c.(4321-4323)CGG>CAG	p.R1441Q	BRWD1_uc010goc.1_Missense_Mutation_p.R84Q|BRWD1_uc002yxl.2_Missense_Mutation_p.R1441Q|BRWD1_uc010god.1_Missense_Mutation_p.R359Q	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1441					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				ACAATTTTGCCGTTGCTTGAA	0.294													14	116					0	0	0.049695	0	0		T	40578076	T	T	40578076	3	4	201	1	0	0	0	0	1	0	0	0	1528	652	23	1	2903	1	BRWD1	21	40578076	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	2187880	40578076	7551819	88	98882											
CLTCL1	8218	broad.mit.edu	37	chr22	19241744	19241744	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattaaagatctgaagtgtcTtcccagctagtatttgatat	12	16	7	6	0	2	3	0	2	2	1	3	3	3	3	1	0	1	2	1	0	7	7			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr22:19241744T>C	uc002zpb.2	-	3	332	c.257A>G	c.(256-258)AAG>AGG	p.K86R	CLTCL1_uc011agv.1_Missense_Mutation_p.K86R|CLTCL1_uc011agw.1_Missense_Mutation_p.K86R	NM_007098	NP_009029	P53675	CLH2_HUMAN	clathrin, heavy polypeptide-like 1 isoform 1	86	Globular terminal domain.				anatomical structure morphogenesis|intracellular protein transport|mitosis|positive regulation of glucose import|receptor-mediated endocytosis	clathrin coat of coated pit|clathrin coat of trans-Golgi network vesicle|spindle|trans-Golgi network	protein binding|signal transducer activity|structural molecule activity			ovary(4)|central_nervous_system(1)	5	Colorectal(54;0.0993)					CTGAAGTGTCTTCCCAGCTAG	0.299			T	?	ALCL								12	5					0	0	0.11911	0	0		C	19241744	C	C	19241744	3	2	201	1	0	0	0	0	1	0	0	0	3570	1609	56	3	4785	3	CLTCL1	22	19241744	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08		19241744	32062822	89	98883											
TIMP3	7078	broad.mit.edu	37	chr22	33254081	33254081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagctcaccctctcccagCgcaaggggctgaactatcgg	9	6	10	16	2	2	1	1	1	1	0	4	1	2	1	3	3	3	3	3	3	3	1			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr22:33254081C>T	uc003anb.2	+	4	1580	c.394C>T	c.(394-396)CGC>TGC	p.R132C	SYN3_uc003amx.2_Intron|SYN3_uc003amy.2_Intron|SYN3_uc003amz.2_Intron	NM_000362	NP_000353	P35625	TIMP3_HUMAN	tissue inhibitor of metalloproteinase 3	132	NTR.|Mediates interaction with EFEMP1.				negative regulation of membrane protein ectodomain proteolysis|visual perception		metal ion binding|metalloendopeptidase inhibitor activity|protein binding			lung(1)	1						CCTCTCCCAGCGCAAGGGGCT	0.562													43	17					0	0	0.139131	0	0		T	33254081	T	T	33254081	3	4	201	1	0	0	0	0	1	0	0	0	15944	768	27	1	408	1	TIMP3	22	33254081	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	14012337	33254081	18050485	90	98884											
SBF1	6305	broad.mit.edu	37	chr22	50905993	50905993	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgtggtcgagtcgcgacaCcagtaccagcgtcttcggtg	6	9	14	12	6	1	0	0	0	1	0	4	2	1	0	2	2	2	1	2	2	1	2			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chr22:50905993C>A	uc003blh.2	-	4	601	c.406G>T	c.(406-408)GTG>TTG	p.V136L	SBF1_uc011arx.1_5'Flank|SBF1_uc003bli.2_Missense_Mutation_p.V137L	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	136	DENN.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		AGTCGCGACACCAGTACCAGC	0.672													74	29					9.34078e-37	1.11545e-36	0.139131	1	0		A	50905993	A	A	50905993	3	1	201	1	0	0	0	0	1	0	0	0	13883	507	18	5	5427	5	SBF1	22	50905993	Missense_Mutation	SNP	C	TCGA-HF-7136-01A-11D-2053-08	17651912	50905993	398573	91	98885											
CYLC1	1538	broad.mit.edu	37	chrX	83128442	83128442	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagatttgctcagaaaatagTttaaatgttgatttcctcat	13	16	7	5	0	2	3	2	1	0	2	3	4	3	3	1	0	1	3	1	0	5	6			TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chrX:83128442T>G	uc004eei.1	+	4	747	c.726T>G	c.(724-726)AGT>AGG	p.S242R	CYLC1_uc004eeh.1_Missense_Mutation_p.S241R	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	242					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						CAGAAAATAGTTTAAATGTTG	0.323													12	5					0	0	0.11911	0	0		G	83128442	G	G	83128442	3	3	201	1	0	0	0	0	1	0	0	0	4144	1722	60	5	740	5	CYLC1	23	83128442	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08		83128442	72142118	92	98886											
MAGEC1	9947	broad.mit.edu	37	chrX	140994490	140994490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcctgagagtgctcaaagtGcttttgagggttttccccag	7	13	11	10	0	1	2	1	2	0	1	3	3	3	2	3	1	2	3	3	1	1	4	rs59853306	byFrequency	TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chrX:140994490G>A	uc004fbt.2	+	4	1586	c.1300G>A	c.(1300-1302)GCT>ACT	p.A434T	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	434							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TGCTCAAAGTGCTTTTGAGGG	0.463										HNSCC(15;0.026)			11	7					0	0	0.09319	0	0		A	140994490	A	A	140994490	3	1	201	1	0	0	0	0	1	0	0	0	9198	1319	46	2	1306	2	MAGEC1	23	140994490	Missense_Mutation	SNP	G	TCGA-HF-7136-01A-11D-2053-08	57866048	140994490	14276070	93	98887											
MAGEC1	9947	broad.mit.edu	37	chrX	140994530	140994530	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtctcctctccagattcctgTgagctcctctttctcctaca	5	15	5	16	0	4	2	0	1	4	1	9	2	6	2	5	0	2	1	5	0	1	3	rs57605162		TCGA-HF-7136-01A-11D-2053-08	TCGA-HF-7136-10A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	622eaa04-b8f9-471b-98b0-7befd119f14c	8417a72f-a578-450f-8e74-17faef5b8f67	g.chrX:140994530T>G	uc004fbt.2	+	4	1626	c.1340T>G	c.(1339-1341)GTG>GGG	p.V447G	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	447							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CAGATTCCTGTGAGCTCCTCT	0.453										HNSCC(15;0.026)			23	13					0	0	0.0918	0	0		G	140994530	G	G	140994530	3	3	201	1	0	0	0	0	1	0	0	0	9198	1696	59	5	1346	5	MAGEC1	23	140994530	Missense_Mutation	SNP	T	TCGA-HF-7136-01A-11D-2053-08	40	140994530	14276030	94	98888											
MIB2	142678	broad.mit.edu	37	chr1	1562274	1562274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagacgggaacctgcgtgtaGcagtcgctggtcagcggtgg	7	7	18	9	4	1	1	1	0	0	1	2	3	1	2	1	4	4	3	1	4	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:1562274G>A	uc001agg.2	+	10	1436	c.1309G>A	c.(1309-1311)GCA>ACA	p.A437T	MIB2_uc001agh.2_Missense_Mutation_p.A423T|MIB2_uc001agi.2_Missense_Mutation_p.A433T|MIB2_uc001agj.2_Missense_Mutation_p.A278T|MIB2_uc001agk.2_Missense_Mutation_p.A372T|MIB2_uc001agl.1_Missense_Mutation_p.A393T|MIB2_uc001agm.2_Missense_Mutation_p.A314T|MIB2_uc010nyq.1_Missense_Mutation_p.A393T|MIB2_uc009vkh.2_Missense_Mutation_p.A243T|MIB2_uc001agn.2_Missense_Mutation_p.A69T|MIB2_uc001ago.2_5'Flank	NM_080875	NP_543151	Q96AX9	MIB2_HUMAN	mindbomb homolog 2	437					Notch signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade	endosome	actin binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-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;5.26e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.54e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|BRCA - Breast invasive adenocarcinoma(365;0.00786)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CCTGCGTGTAGCAGTCGCTGG	0.697													5	23					0	0	0.001168	0	0		A	1562274	A	A	1562274	3	1	202	1	0	0	0	0	1	0	0	0	9585	971	34	2	1518	2	MIB2	1	1562274	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		1562274	247688347	1	98889											
TMEM52	339456	broad.mit.edu	37	chr1	1849409	1849409	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctctaggcccgaggccccaAggagagggctgggtttctgg	6	8	16	11	1	2	1	0	0	2	1	3	3	2	1	3	6	0	2	3	6	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:1849409A>C	uc001aij.2	-	5	578	c.542T>G	c.(541-543)CTT>CGT	p.L181R	TMEM52_uc001aii.2_Missense_Mutation_p.L166R	NM_178545	NP_848640	Q8NDY8	TMM52_HUMAN	transmembrane protein 52 precursor	181						integral to membrane					0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;6.04e-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)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.82e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.75e-23)|GBM - Glioblastoma multiforme(42;9e-08)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00435)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		CGAGGCCCCAAGGAGAGGGCT	0.617													5	119					0	0	0.001168	0	0		C	1849409	C	C	1849409	3	2	202	1	0	0	0	0	1	0	0	0	16203	72	3	5	91	5	TMEM52	1	1849409	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	287135	1849409	247401212	2	98890											
ARHGEF16	27237	broad.mit.edu	37	chr1	3396446	3396446	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtcacactgcagcaggcGgacgtggtcctggttctgca	7	8	15	11	2	2	0	1	0	1	0	3	2	3	1	1	5	3	4	1	5	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:3396446G>A	uc001akg.3	+	14	2207	c.1959G>A	c.(1957-1959)GCG>GCA	p.A653A	ARHGEF16_uc001aki.2_Silent_p.A365A|ARHGEF16_uc001akj.2_Silent_p.A365A|ARHGEF16_uc010nzh.1_Silent_p.A357A	NM_014448	NP_055263	Q5VV41	ARHGG_HUMAN	Rho guanine exchange factor 16	653	SH3.				activation of Cdc42 GTPase activity|activation of Rac GTPase activity|apoptosis|cell chemotaxis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of establishment of protein localization in plasma membrane|small GTPase mediated signal transduction	cytosol	PDZ domain binding|receptor tyrosine kinase binding|Rho GTPase binding|Rho guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(77;0.00276)|all_epithelial(69;0.00102)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.101)	all_epithelial(116;7.14e-21)|all_lung(118;2.24e-08)|Lung NSC(185;3.55e-06)|Breast(487;0.000765)|Renal(390;0.00121)|Hepatocellular(190;0.0046)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.211)		Epithelial(90;8.62e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.62e-22)|GBM - Glioblastoma multiforme(42;2.49e-12)|Colorectal(212;4.25e-05)|COAD - Colon adenocarcinoma(227;0.000196)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(365;0.000681)|KIRC - Kidney renal clear cell carcinoma(229;0.00549)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.201)		TGCAGCAGGCGGACGTGGTCC	0.642													41	60					0	0	0.00361	0	0		A	3396446	A	A	3396446	2	1	202	1	0	0	0	0	0	0	0	1	899	1103	39	1		1	ARHGEF16	1	3396446	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1547037	3396446	245854175	3	98891											
TP73	7161	broad.mit.edu	37	chr1	3644760	3644760	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagaagcggcggcatggagaCgaggacacgtactaccttca	13	5	13	10	4	1	2	1	0	0	2	1	5	1	3	1	4	3	2	1	4	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:3644760C>T	uc001akp.2	+	9	1163	c.1053C>T	c.(1051-1053)GAC>GAT	p.D351D	TP73_uc001akq.2_Silent_p.D351D|TP73_uc010nzj.1_Silent_p.D302D|TP73_uc001akr.2_Silent_p.D302D|TP73_uc009vlk.1_Silent_p.D302D|TP73_uc001aks.2_Silent_p.D302D|TP73_uc010nzk.1_Silent_p.D280D|TP73_uc010nzl.1_Translation_Start_Site	NM_005427	NP_005418	O15350	P73_HUMAN	tumor protein p73 isoform a	351	Oligomerization (Potential).|Interaction with HIPK2.				cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mismatch repair|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of JUN kinase activity|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|protein tetramerization|response to gamma radiation|response to X-ray	chromatin|cytosol|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|metal ion binding|p53 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|transcription repressor activity			ovary(1)|lung(1)	2	all_cancers(77;0.0395)|Ovarian(185;0.0634)|Lung NSC(156;0.188)|all_lung(157;0.198)	all_epithelial(116;7.42e-17)|all_lung(118;1.86e-06)|Lung NSC(185;0.000163)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.109)|Ovarian(437;0.127)		Epithelial(90;5.57e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.87e-22)|GBM - Glioblastoma multiforme(42;5.72e-16)|Colorectal(212;2.22e-05)|COAD - Colon adenocarcinoma(227;8.48e-05)|Kidney(185;0.000539)|BRCA - Breast invasive adenocarcinoma(365;0.000868)|STAD - Stomach adenocarcinoma(132;0.0072)|KIRC - Kidney renal clear cell carcinoma(229;0.00751)|Lung(427;0.226)		GGCATGGAGACGAGGACACGT	0.677													9	110					0	0	0.001368	0	0		T	3644760	T	T	3644760	2	4	202	1	0	0	0	0	0	0	0	1	16419	535	19	1		1	TP73	1	3644760	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	248314	3644760	245605861	4	98892											
CHD5	26038	broad.mit.edu	37	chr1	6206379	6206379	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttgttcttcctcttctcGctcttgccgtcttcatcccc	1	18	4	18	2	6	0	1	0	5	0	10	0	9	0	5	0	1	2	5	0	0	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:6206379G>A	uc001amb.1	-	11	1795	c.1695C>T	c.(1693-1695)AGC>AGT	p.S565S	CHD5_uc001ama.1_5'Flank|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	565					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TCCTCTTCTCGCTCTTGCCGT	0.532													19	51					0	0	0.002299	0	0		A	6206379	A	A	6206379	2	1	202	1	0	0	0	0	0	0	0	1	3331	1078	38	1		1	CHD5	1	6206379	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2561619	6206379	243044242	5	98893											
SLC45A1	50651	broad.mit.edu	37	chr1	8404001	8404001	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctgcctgtactcctccctGtttgtcatttatgaaattcc	6	16	7	12	0	1	1	1	1	0	0	4	1	4	1	4	1	2	3	4	1	3	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:8404001G>A	uc001apb.2	+	8	2175	c.2175G>A	c.(2173-2175)CTG>CTA	p.L725L	SLC45A1_uc001apc.2_Silent_p.L423L	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5	725	Helical; (Potential).				carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		ACTCCTCCCTGTTTGTCATTT	0.637													27	45					0	0	0.004656	0	0		A	8404001	A	A	8404001	2	1	202	1	0	0	0	0	0	0	0	1	14665	1364	48	4		4	SLC45A1	1	8404001	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2197622	8404001	240846620	6	98894											
DFFA	1676	broad.mit.edu	37	chr1	10521575	10521575	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcctgtctggctcgcttaGgattctgcaggtcaccaggt	6	12	12	11	1	3	0	1	0	2	0	5	2	4	1	2	4	1	3	2	4	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:10521575G>T	uc001arj.2	-	6	1066	c.968C>A	c.(967-969)CCT>CAT	p.P323H	DFFA_uc001ark.2_3'UTR	NM_004401	NP_004392	O00273	DFFA_HUMAN	DNA fragmentation factor, 45kDa, alpha	323					DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction|negative regulation of apoptosis	cytosol|mitochondrion|nucleoplasm|plasma membrane	deoxyribonuclease activity|identical protein binding				0	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)		GGCTCGCTTAGGATTCTGCAG	0.582													3	25					0.004672	0.00476371	0.004672	1	0		T	10521575	T	T	10521575	3	4	202	1	0	0	0	0	1	0	0	0	4458	1000	35	5	31	5	DFFA	1	10521575	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2117574	10521575	238729046	7	98895											
MASP2	10747	broad.mit.edu	37	chr1	11087239	11087239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtcaacaatcggtatgtcGacatacattagatttctagc	12	13	8	8	2	2	1	1	0	1	1	4	2	2	1	0	2	3	1	0	2	6	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:11087239G>A	uc001aru.2	-	11	1785	c.1764C>T	c.(1762-1764)GTC>GTT	p.V588V		NM_006610	NP_006601	O00187	MASP2_HUMAN	mannan-binding lectin serine protease 2 isoform	588	Peptidase S1.				complement activation, classical pathway|complement activation, lectin pathway|proteolysis	extracellular region	calcium ion binding|calcium-dependent protein binding|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.071)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.12e-07)|COAD - Colon adenocarcinoma(227;7.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)|STAD - Stomach adenocarcinoma(313;0.192)		TCGGTATGTCGACATACATTA	0.423													21	72					0	0	0.00278	0	0		A	11087239	A	A	11087239	2	1	202	1	0	0	0	0	0	0	0	1	9341	1045	37	1		1	MASP2	1	11087239	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	565664	11087239	238163382	8	98896											
MTOR	2475	broad.mit.edu	37	chr1	11217234	11217234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaaggcctcgaggcagcGcatgcggcccagcatcagct	8	4	12	17	3	1	0	1	0	0	0	2	1	1	0	4	3	4	4	4	3	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:11217234G>A	uc001asd.2	-	30	4565	c.4444C>T	c.(4444-4446)CGC>TGC	p.R1482C		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1482	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						TCGAGGCAGCGCATGCGGCCC	0.532													51	119					0	0	0.00361	0	0		A	11217234	A	A	11217234	3	1	202	1	0	0	0	0	1	0	0	0	9972	1087	38	1	3321	1	MTOR	1	11217234	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	129995	11217234	238033387	9	98897											
PTCHD2	57540	broad.mit.edu	37	chr1	11561902	11561902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctggcgcgcggcgacGcggagcgcaacattttcacc	6	8	12	15	7	2	0	1	0	1	0	3	2	3	1	2	3	2	1	2	3	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:11561902G>A	uc001ash.3	+	2	991	c.853G>A	c.(853-855)GCG>ACG	p.A285T	PTCHD2_uc001asi.1_Missense_Mutation_p.A285T	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	285	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		GCGCGGCGACGCGGAGCGCAA	0.637													9	15					0	0	0.000978	0	0		A	11561902	A	A	11561902	3	1	202	1	0	0	0	0	1	0	0	0	12755	1087	38	1	855	1	PTCHD2	1	11561902	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	344668	11561902	237688719	10	98898											
VPS13D	55187	broad.mit.edu	37	chr1	12336527	12336527	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctcctggcggaatttaaagTgaactgtatgcagcttggtg	9	12	12	8	1	0	1	0	1	0	0	1	2	1	2	2	3	3	3	2	3	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:12336527T>C	uc001atv.2	+	19	3023	c.2882T>C	c.(2881-2883)GTG>GCG	p.V961A	VPS13D_uc001atw.2_Missense_Mutation_p.V961A|VPS13D_uc001atx.2_Missense_Mutation_p.V149A	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	961					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		GAATTTAAAGTGAACTGTATG	0.488											OREG0013110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	67					0	0	0.001984	0	0		C	12336527	C	C	12336527	3	2	202	1	0	0	0	0	1	0	0	0	17218	1696	59	3	2952	3	VPS13D	1	12336527	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	774625	12336527	236914094	11	98899											
PRDM2	7799	broad.mit.edu	37	chr1	14107244	14107244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtattaactgttgccactcCgccccctcccctccttccta	5	12	5	19	1	0	0	0	0	0	0	4	0	4	0	8	1	2	2	8	1	3	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:14107244C>T	uc001avi.2	+	8	3810	c.2954C>T	c.(2953-2955)CCG>CTG	p.P985L	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.P985L|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.P784L|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	985	Pro-rich.|SH3-binding (Potential).					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		GTTGCCACTCCGCCCCCTCCC	0.612													49	110					0	0	0.00361	0	0		T	14107244	T	T	14107244	3	4	202	1	0	0	0	0	1	0	0	0	12480	652	23	1	2980	1	PRDM2	1	14107244	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1770717	14107244	235143377	12	98900											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17982495	17982495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgcatggagtatatccCggagctggaggaggaggcgg	8	7	18	8	2	1	0	0	0	1	0	2	5	2	5	1	7	2	4	1	7	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:17982495C>T	uc001ban.2	+	24	2762	c.2603C>T	c.(2602-2604)CCG>CTG	p.P868L	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.P829L|ARHGEF10L_uc001bao.2_Missense_Mutation_p.P829L|ARHGEF10L_uc001bap.2_Missense_Mutation_p.P824L|ARHGEF10L_uc001baq.2_Missense_Mutation_p.P629L|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.P641L|ARHGEF10L_uc001bar.2_Missense_Mutation_p.P571L|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	868					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		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)		GAGTATATCCCGGAGCTGGAG	0.647													3	6					0	0	0.004672	0	0		T	17982495	T	T	17982495	3	4	202	1	0	0	0	0	1	0	0	0	895	652	23	1	2693	1	ARHGEF10L	1	17982495	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3875251	17982495	231268126	13	98901											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809546	18809546	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaccgcagcctgggcatcGccgtgtaccgctgcagcgcc	6	6	12	17	5	1	0	1	0	0	0	2	0	1	0	5	1	5	5	5	1	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:18809546G>A	uc001bax.2	+	1	2123	c.2071G>A	c.(2071-2073)GCC>ACC	p.A691T	KLHDC7A_uc009vpg.2_Missense_Mutation_p.A473T	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	691						integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGGGCATCGCCGTGTACCG	0.687													20	65					0	0	0.00278	0	0		A	18809546	A	A	18809546	3	1	202	1	0	0	0	0	1	0	0	0	8376	1087	38	1	2073	1	KLHDC7A	1	18809546	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	827051	18809546	230441075	14	98902											
ID3	3399	broad.mit.edu	37	chr1	23885634	23885634	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttacctggatgggaaggtggGggccatcagggggtccaggg	7	7	20	7	0	1	0	1	0	0	0	2	2	2	2	3	8	1	0	3	8	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:23885634G>T	uc001bhh.3	-	1	689	c.284C>A	c.(283-285)CCC>CAC	p.P95H	ID3_uc001bhg.1_Missense_Mutation_p.P95H	NM_002167	NP_002158	Q02535	ID3_HUMAN	inhibitor of DNA binding 3	95					negative regulation of sequence-specific DNA binding transcription factor activity		transcription corepressor activity	p.P95S(1)		central_nervous_system(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00314)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;8.83e-25)|Colorectal(126;4.8e-08)|COAD - Colon adenocarcinoma(152;2.83e-06)|GBM - Glioblastoma multiforme(114;6.5e-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)		GGGAAGGTGGGGGCCATCAGG	0.622													19	119					1.10513e-12	1.18362e-12	0.002299	1	0		T	23885634	T	T	23885634	3	4	202	1	0	0	0	0	1	0	0	0	7507	1232	43	5	83	5	ID3	1	23885634	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5076088	23885634	225364987	15	98903											
LDLRAP1	26119	broad.mit.edu	37	chr1	25890244	25890244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaccaacatggacgaggtgCcgcggccacaagccttgagt	10	5	12	14	3	0	1	0	1	0	0	0	3	0	2	5	3	3	0	5	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:25890244C>T	uc001bkl.3	+	7	823	c.709C>T	c.(709-711)CCG>TCG	p.P237S	LDLRAP1_uc009vrw.2_RNA|LDLRAP1_uc009vrx.2_Missense_Mutation_p.P67S	NM_015627	NP_056442	Q5SW96	ARH_HUMAN	low density lipoprotein receptor adaptor protein	237					amyloid precursor protein metabolic process|cholesterol homeostasis|cholesterol metabolic process|positive regulation of receptor-mediated endocytosis|receptor internalization|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport|regulation of establishment of protein localization in plasma membrane|regulation of protein binding	basal plasma membrane|cytosol|early endosome|internal side of plasma membrane|neurofilament|recycling endosome	beta-amyloid binding|clathrin binding|low-density lipoprotein particle receptor binding|phosphatidylinositol-4,5-bisphosphate binding|phosphotyrosine binding|protein binding, bridging|protein complex binding|receptor signaling complex scaffold activity|signaling adaptor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.63e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|GBM - Glioblastoma multiforme(114;0.00914)|READ - Rectum adenocarcinoma(331;0.0649)		GGACGAGGTGCCGCGGCCACA	0.627													14	42					0	0	0.00499	0	0		T	25890244	T	T	25890244	3	4	202	1	0	0	0	0	1	0	0	0	8724	739	26	2	735	2	LDLRAP1	1	25890244	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2004610	25890244	223360377	16	98904											
MAP3K6	9064	broad.mit.edu	37	chr1	27687445	27687445	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcgccctccgcctcctcCgcgggcgccgtggaatccgg	2	5	13	21	8	0	0	0	0	0	0	4	1	4	1	8	3	0	0	8	3	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:27687445C>T	uc001bny.1	-	14	2136	c.1887G>A	c.(1885-1887)GCG>GCA	p.A629A	MAP3K6_uc009vsw.1_Silent_p.A621A|MAP3K6_uc001bnz.1_Silent_p.A152A	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	629					activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		CCGCCTCCTCCGCGGGCGCCG	0.716													4	13					0	0	0.000602	0	0		T	27687445	T	T	27687445	2	4	202	1	0	0	0	0	0	0	0	1	9272	639	23	1		1	MAP3K6	1	27687445	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1797201	27687445	221563176	17	98905											
WASF2	10163	broad.mit.edu	37	chr1	27755319	27755319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccagggtgatgttggtcaCgcattccagctcgcttctaa	7	12	11	11	2	2	1	1	1	1	0	4	1	3	1	2	2	2	4	2	2	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:27755319C>T	uc001bof.1	-	2	298	c.82G>A	c.(82-84)GTG>ATG	p.V28M	WASF2_uc010ofl.1_Missense_Mutation_p.V28M	NM_006990	NP_008921	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	28					actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		ATGTTGGTCACGCATTCCAGC	0.577													8	54					0	0	0.00308	0	0		T	27755319	T	T	27755319	3	4	202	1	0	0	0	0	1	0	0	0	17279	536	19	1	1446	1	WASF2	1	27755319	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	67874	27755319	221495302	18	98906											
SFRS4	6429	broad.mit.edu	37	chr1	29475303	29475303	+	Silent	SNP	A	G	G	1	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	tcactcttgctgcggctgcgActgcgactgcggctctcctc	3	11	11	16	4	3	0	1	0	2	0	5	2	3	0	1	2	5	3	1	2	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:29475303A>G	uc001bro.2	-	6	1477	c.1104T>C	c.(1102-1104)AGT>AGC	p.S368S	SFRS4_uc010ofy.1_3'UTR	NM_005626	NP_005617	Q08170	SRSF4_HUMAN	splicing factor, arginine/serine-rich 4	368	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nuclear speck	nucleotide binding|RNA binding				0		Colorectal(325;0.00161)|Breast(348;0.0364)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0529)|Lung NSC(340;0.0654)|all_lung(284;0.074)|Ovarian(437;0.104)|Medulloblastoma(700;0.151)		Colorectal(126;1.01e-07)|COAD - Colon adenocarcinoma(152;6.21e-06)|STAD - Stomach adenocarcinoma(196;0.0196)|BRCA - Breast invasive adenocarcinoma(304;0.0531)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.138)		tgcggctgcgactgcgactgc	0.08													3	10					0	0	0.004672	0	0		G	29475303	G	G	29475303	2	3	202	1	0	0	0	0	0	0	0	1	14204	272	10	3		3	SFRS4	1	29475303	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1719984	29475303	219775318	19	98907											
SERINC2	347735	broad.mit.edu	37	chr1	31896597	31896597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctgctgccccgccagcCgcaactccaccgtgagccgc	6	4	11	20	4	0	1	0	1	0	0	1	1	1	1	7	0	6	4	7	0	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:31896597C>T	uc010ogh.1	+	2	310	c.109C>T	c.(109-111)CGC>TGC	p.R37C	SERINC2_uc010ogg.1_Missense_Mutation_p.R34C|SERINC2_uc009vtw.1_Missense_Mutation_p.R33C|SERINC2_uc001bst.2_Missense_Mutation_p.R33C|SERINC2_uc001bsu.2_5'UTR|SERINC2_uc001bsv.2_5'UTR	NM_178865	NP_849196	Q96SA4	SERC2_HUMAN	tumor differentially expressed 2-like	33						integral to membrane					0		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)		CCCCGCCAGCCGCAACTCCAC	0.652													25	83					0	0	0.003954	0	0		T	31896597	T	T	31896597	3	4	202	1	0	0	0	0	1	0	0	0	14105	652	23	1	103	1	SERINC2	1	31896597	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2421294	31896597	217354024	20	98908											
CSMD2	114784	broad.mit.edu	37	chr1	34003177	34003177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggtcctctctcctcccacGggacgggacaccaggatccc	6	7	10	18	3	1	0	0	0	1	0	7	3	5	3	5	4	0	0	5	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:34003177G>A	uc001bxn.1	-	60	9261	c.9232C>T	c.(9232-9234)CGT>TGT	p.R3078C	CSMD2_uc001bxm.1_Missense_Mutation_p.R3222C	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3078	Extracellular (Potential).|Sushi 24.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CTCCTCCCACGGGACGGGACA	0.592													3	31					0	0	0.004672	0	0		A	34003177	A	A	34003177	3	1	202	1	0	0	0	0	1	0	0	0	3948	1116	39	1	1271	1	CSMD2	1	34003177	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2106580	34003177	215247444	21	98909											
MACF1	23499	broad.mit.edu	37	chr1	39900149	39900149	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tactcaattcagagcgttatGcccgcctagagcgggcccag	9	8	11	13	3	2	2	2	0	0	2	2	2	2	2	3	1	4	1	3	1	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:39900149G>A	uc010oiu.1	+	33	13080	c.12949G>A	c.(12949-12951)GCC>ACC	p.A4317T	MACF1_uc010ois.1_Missense_Mutation_p.A3815T|MACF1_uc001cda.1_Missense_Mutation_p.A3702T|MACF1_uc001cdc.1_Missense_Mutation_p.A2772T	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGAGCGTTATGCCCGCCTAGA	0.423													12	30					0	0	0.00499	0	0		A	39900149	A	A	39900149	3	1	202	1	0	0	0	0	1	0	0	0	9162	1319	46	2	17848	2	MACF1	1	39900149	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5896972	39900149	209350472	22	98910											
PPIE	10450	broad.mit.edu	37	chr1	40204576	40204576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaaagcgcgcgagcaagatgGccaccaccaagcgcgtcttg	12	4	12	13	5	1	1	0	0	1	1	1	2	1	1	3	1	3	1	3	1	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:40204576G>A	uc001cds.1	+	1	47	c.4G>A	c.(4-6)GCC>ACC	p.A2T	PPIE_uc001cdt.1_5'UTR|PPIE_uc010oiy.1_5'UTR|PPIE_uc001cdu.1_RNA|PPIE_uc001cdv.2_Missense_Mutation_p.A2T|PPIE_uc001cdw.2_Missense_Mutation_p.A2T	NM_006112	NP_006103	Q9UNP9	PPIE_HUMAN	peptidylprolyl isomerase E isoform 1	2					protein folding|regulation of transcription, DNA-dependent	catalytic step 2 spliceosome	cyclosporin A binding|nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|protein binding|RNA binding				0	all_cancers(7;1.63e-13)|all_lung(5;2.27e-16)|all_epithelial(6;1.35e-15)|Lung NSC(20;1.49e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;2.7e-17)|all cancers(16;5.5e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GAGCAAGATGGCCACCACCAA	0.682													13	24					0	0	0.003163	0	0		A	40204576	A	A	40204576	3	1	202	1	0	0	0	0	1	0	0	0	12344	1203	42	2	6	2	PPIE	1	40204576	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	304427	40204576	209046045	23	98911											
KIAA0467	23334	broad.mit.edu	37	chr1	43912756	43912756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccatctggtgctgcggcacgGctaccacctcaccacctttc	6	9	8	18	2	2	0	1	0	1	0	3	0	2	0	5	3	3	3	5	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:43912756G>A	uc001cjk.1	+	51	6968	c.6506G>A	c.(6505-6507)GGC>GAC	p.G2169D	KIAA0467_uc001cjl.1_Missense_Mutation_p.G157D	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3068						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTGCGGCACGGCTACCACCTC	0.602													9	31					0	0	0.000978	0	0		A	43912756	A	A	43912756	3	1	202	1	0	0	0	0	1	0	0	0	8194	1203	42	2	6700	2	KIAA0467	1	43912756	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3708180	43912756	205337865	24	98912											
PTPRF	5792	broad.mit.edu	37	chr1	44056811	44056811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatggtgtggccaccacccGctacagcattggcggcctca	7	7	13	14	2	1	0	1	0	0	0	1	1	1	1	4	5	2	2	4	5	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:44056811G>A	uc001cjr.2	+	9	1458	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H	PTPRF_uc001cjs.2_Missense_Mutation_p.R373H|PTPRF_uc001cju.2_5'UTR|PTPRF_uc009vwt.2_5'UTR|PTPRF_uc001cjv.2_5'UTR	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	373	Extracellular (Potential).|Fibronectin type-III 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				GCCACCACCCGCTACAGCATT	0.657													23	51					0	0	0.004656	0	0		A	44056811	A	A	44056811	3	1	202	1	0	0	0	0	1	0	0	0	12826	1087	38	1	1144	1	PTPRF	1	44056811	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	144055	44056811	205193810	25	98913											
PTPRF	5792	broad.mit.edu	37	chr1	44063476	44063476	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgggctccaccacggtccGggtaagttgggtcccgccgc	5	7	14	15	4	0	0	0	0	0	0	3	0	3	0	5	4	0	3	5	4	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:44063476G>T	uc001cjr.2	+	12	2211	c.1871G>T	c.(1870-1872)CGG>CTG	p.R624L	PTPRF_uc001cjs.2_Missense_Mutation_p.R624L|PTPRF_uc001cju.2_Missense_Mutation_p.R195L|PTPRF_uc009vwt.2_Missense_Mutation_p.R195L|PTPRF_uc001cjv.2_Intron|PTPRF_uc001cjw.2_5'Flank	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	624	Extracellular (Potential).|Fibronectin type-III 4.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACCACGGTCCGGGTAAGTTGG	0.677													4	20					0.00198382	0.0020294	0.001984	1	0		T	44063476	T	T	44063476	3	4	202	1	0	0	0	0	1	0	0	0	12826	1116	39	5	1909	5	PTPRF	1	44063476	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6665	44063476	205187145	26	98914											
B4GALT2	8704	broad.mit.edu	37	chr1	44447064	44447064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgccaccgcctctagctccGggctccctgaggtccccagt	5	7	10	19	3	1	1	0	1	1	0	4	1	4	1	7	2	1	2	7	2	1	1	rs148339623		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:44447064G>A	uc001clg.2	+	2	602	c.232G>A	c.(232-234)GGG>AGG	p.G78R	B4GALT2_uc001clh.2_Silent_p.P26P|B4GALT2_uc010okl.1_Missense_Mutation_p.G107R|B4GALT2_uc001cli.2_Missense_Mutation_p.G78R	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	78	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|lactose synthase activity|metal ion binding|N-acetyllactosamine synthase activity			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			N-Acetyl-D-glucosamine(DB00141)	CTCTAGCTCCGGGCTCCCTGA	0.632													15	31					0	0	0.00499	0	0		A	44447064	A	A	44447064	3	1	202	1	0	0	0	0	1	0	0	0	1272	1116	39	1	234	1	B4GALT2	1	44447064	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	383588	44447064	204803557	27	98915											
PIK3R3	8503	broad.mit.edu	37	chr1	46511600	46511600	+	Frame_Shift_Del	DEL	A	-	-																															gaagacttacaccacagagcAagcatagcatcctttcttgc																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:46511600delA	uc001cpb.3	-	9	1933	c.1177delT	c.(1177-1179)TGCfs	p.C393fs	PIK3R3_uc009vyb.2_Frame_Shift_Del_p.C334fs|PIK3R3_uc009vyc.2_Frame_Shift_Del_p.C410fs|PIK3R3_uc001cpc.3_Frame_Shift_Del_p.C393fs|PIK3R3_uc010olw.1_Frame_Shift_Del_p.C439fs|PIK3R3_uc010olv.1_Frame_Shift_Del_p.C183fs	NM_003629	NP_003620	Q92569	P55G_HUMAN	phosphoinositide-3-kinase, regulatory subunit 3	393	SH2 2.				insulin receptor signaling pathway|platelet activation|T cell costimulation		1-phosphatidylinositol-3-kinase activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					ACCACAGAGCAAGCATAGCAT	0.368													39	81	---	---	---	---						.	-	46511600	-	-	46511600	7	5	202	1	0	1	0	1	0	0	0	0	11939	130	5	0	216	0	PIK3R3	1	46511600	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	2064536	46511600	202739021	28	98916											
RAD54L	8438	broad.mit.edu	37	chr1	46743909	46743909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctccactgccatcaccttCgtcttccaccagcgttctca	6	11	5	19	2	3	0	2	0	2	0	7	0	5	0	6	0	2	1	6	0	0	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:46743909C>T	uc009vye.2	+	19	2313	c.2199C>T	c.(2197-2199)TTC>TTT	p.F733F	RAD54L_uc001cpl.2_Silent_p.F733F|RAD54L_uc001cpm.1_Silent_p.F516F	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	733					meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		CCATCACCTTCGTCTTCCACC	0.597								Direct_reversal_of_damage|Homologous_recombination					4	21					0	0	0.00308	0	0		T	46743909	T	T	46743909	2	4	202	1	0	0	0	0	0	0	0	1	13018	883	31	1		1	RAD54L	1	46743909	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	232309	46743909	202506712	29	98917											
BEND5	79656	broad.mit.edu	37	chr1	49224896	49224896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgttctgcttctctagccGagccaccactgcctcgatgc	5	10	9	17	3	2	0	0	0	2	0	4	2	2	0	5	0	5	2	5	0	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:49224896G>A	uc001crx.3	-	3	465	c.421C>T	c.(421-423)CGG>TGG	p.R141W	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_5'UTR	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	141										skin(1)	1						TTCTCTAGCCGAGCCACCACT	0.607													3	3					0	0	0.004672	0	0		A	49224896	A	A	49224896	3	1	202	1	0	0	0	0	1	0	0	0	1402	1057	37	1	860	1	BEND5	1	49224896	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2480987	49224896	200025725	30	98918											
ZFYVE9	9372	broad.mit.edu	37	chr1	52811808	52811808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggacagcgccttggtgcCggtgatccatggaggggcct	5	9	16	11	2	1	1	0	1	1	0	2	3	2	3	4	6	2	0	4	6	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:52811808C>T	uc001cto.2	+	19	4365	c.4193C>T	c.(4192-4194)CCG>CTG	p.P1398L	ZFYVE9_uc001ctp.2_Missense_Mutation_p.P1339L	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	1398					endocytosis|SMAD protein complex assembly|SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	early endosome membrane	metal ion binding|protein binding|receptor activity|serine-type peptidase activity			ovary(2)|lung(2)|central_nervous_system(2)|skin(2)	8						GCCTTGGTGCCGGTGATCCAT	0.512													25	68					0	0	0.009535	0	0		T	52811808	T	T	52811808	3	4	202	1	0	0	0	0	1	0	0	0	17696	652	23	1	4270	1	ZFYVE9	1	52811808	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3586912	52811808	196438813	31	98919											
C1orf175	374977	broad.mit.edu	37	chr1	55119617	55119617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccaatgagactctgagcctgGactccagcctcctgttcagc	8	9	9	15	0	2	2	1	2	1	1	4	4	4	3	5	1	3	1	5	1	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:55119617G>A	uc010ooe.1	+	3	1342	c.1018G>A	c.(1018-1020)GAC>AAC	p.D340N	C1orf175_uc001cxq.2_RNA|C1orf175_uc001cxo.2_Missense_Mutation_p.D340N|C1orf175_uc010ooc.1_Intron|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Intron|C1orf175_uc010oof.1_RNA|C1orf175_uc001cxr.1_RNA|C1orf175_uc010oog.1_Missense_Mutation_p.D340N|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	340	Ser-rich.					integral to membrane	binding				0						TCTGAGCCTGGACTCCAGCCT	0.567													9	94					0	0	0.006214	0	0		A	55119617	A	A	55119617	3	1	202	1	0	0	0	0	1	0	0	0	2019	1174	41	4	1020	4	C1orf175	1	55119617	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2307809	55119617	194131004	32	98920											
JAK1	3716	broad.mit.edu	37	chr1	65301870	65301870	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcagaggcaatataaaattTagattgcattaaacattctg	16	13	7	5	0	2	2	1	0	1	2	2	2	2	2	0	1	2	2	0	1	7	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:65301870T>C	uc001dbu.1	-	23	3418	c.3169A>G	c.(3169-3171)AAA>GAA	p.K1057E	JAK1_uc009wam.1_Missense_Mutation_p.K1045E|JAK1_uc009wal.1_Missense_Mutation_p.K234E	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	1057	Protein kinase 2.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		ATATAAAATTTAGATTGCATT	0.428			Mis		ALL								18	19					0	0	0.001882	0	0		C	65301870	C	C	65301870	3	2	202	1	0	0	0	0	1	0	0	0	7953	1763	61	3	307	3	JAK1	1	65301870	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	10182253	65301870	183948751	33	98921											
JAK1	3716	broad.mit.edu	37	chr1	65321216	65321216	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcttgggctggcagcagcGttttagcatgaagctgatgt	7	11	16	7	1	0	2	0	2	0	0	0	2	0	2	0	3	4	7	0	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:65321216G>A	uc001dbu.1	-	11	1873	c.1624C>T	c.(1624-1626)CGC>TGC	p.R542C	JAK1_uc009wam.1_Missense_Mutation_p.R530C	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	542	SH2.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		TGGCAGCAGCGTTTTAGCATG	0.577			Mis		ALL								13	30					0	0	0.004007	0	0		A	65321216	A	A	65321216	3	1	202	1	0	0	0	0	1	0	0	0	7953	1145	40	1	1900	1	JAK1	1	65321216	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	19346	65321216	183929405	34	98922											
PDE4B	5142	broad.mit.edu	37	chr1	66831415	66831415	+	Silent	SNP	T	C	C	0	1	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	gccatccatgacgttgatcaTcctggagtctccaatcagtt	9	12	8	12	1	3	2	2	2	1	0	6	3	5	3	4	1	0	2	4	1	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:66831415T>C	uc001dcn.2	+	13	1541	c.1350T>C	c.(1348-1350)CAT>CAC	p.H450H	PDE4B_uc009war.2_Silent_p.H358H|PDE4B_uc001dco.2_Silent_p.H450H|PDE4B_uc001dcp.2_Silent_p.H435H|PDE4B_uc001dcq.2_Silent_p.H278H|PDE4B_uc009was.2_Silent_p.H217H	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	450					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	ACGTTGATCATCCTGGAGTCT	0.428													10	29					0	0	0.001368	0	0		C	66831415	C	C	66831415	2	2	202	1	0	0	0	0	0	0	0	1	11659	1432	50	3		3	PDE4B	1	66831415	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1510199	66831415	182419206	35	98923											
ACADM	34	broad.mit.edu	37	chr1	76200474	76200474	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatgtcaattttcttcggtAgcaaatgcctattattattg	11	18	6	6	1	2	0	1	0	1	0	3	0	2	0	1	1	2	2	1	1	7	9			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:76200474A>G	uc001dgw.3	+	6	818	c.388_splice	c.e6-2	p.Q130_splice	ACADM_uc010orc.1_Splice_Site_p.A96_splice|ACADM_uc010ord.1_Splice_Site_p.Q44_splice|ACADM_uc009wbp.2_Splice_Site_p.Q134_splice|ACADM_uc009wbr.2_Splice_Site_p.Q163_splice|ACADM_uc010ore.1_Splice_Site_p.Q94_splice|ACADM_uc010orf.1_Intron|ACADM_uc001dgx.3_Splice_Site_p.Q44_splice|ACADM_uc010org.1_Splice_Site	NM_000016	NP_000007	P11310	ACADM_HUMAN	medium-chain acyl-CoA dehydrogenase isoform a						carnitine biosynthetic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|medium-chain fatty acid catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|identical protein binding|medium-chain-acyl-CoA dehydrogenase activity			breast(2)|ovary(1)|skin(1)	4						TTTCTTCGGTAGCAAATGCCT	0.308													3	10					0	0	0.004672	0	0		G	76200474	G	G	76200474	5	3	202	1	0	0	0	0	0	0	1	0	113	434	15	3	420	3	ACADM	1	76200474	Splice_Site	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	9369059	76200474	173050147	36	98924											
FAM73A	374986	broad.mit.edu	37	chr1	78279472	78279472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggaacaagctctgacctttCgcaatagacaggctgaagat	13	8	11	9	1	1	4	0	2	1	2	2	5	1	5	1	2	2	3	1	2	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:78279472C>T	uc001dhx.2	+	6	723	c.691C>T	c.(691-693)CGC>TGC	p.R231C	FAM73A_uc010ork.1_Missense_Mutation_p.R231C|FAM73A_uc010orl.1_Missense_Mutation_p.R193C|FAM73A_uc001dhy.1_Missense_Mutation_p.R20C	NM_198549	NP_940951	Q8NAN2	FA73A_HUMAN	hypothetical protein LOC374986	231						integral to membrane				ovary(1)	1				Colorectal(170;0.226)		TCTGACCTTTCGCAATAGACA	0.408													25	57					0	0	0.007291	0	0		T	78279472	T	T	78279472	3	4	202	1	0	0	0	0	1	0	0	0	5631	884	31	1	713	1	FAM73A	1	78279472	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2078998	78279472	170971149	37	98925											
DNAJB4	11080	broad.mit.edu	37	chr1	78470858	78470858	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcagatgaagatattaaaAaggcttaccgaaaacaagcc	18	8	7	8	1	1	3	1	1	0	2	1	4	1	3	2	1	3	1	2	1	9	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:78470858A>T	uc001dij.2	+	1	223	c.64A>T	c.(64-66)AAG>TAG	p.K22*	DNAJB4_uc010orn.1_Intron	NM_007034	NP_008965	Q9UDY4	DNJB4_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 4	22	J.				protein folding|response to heat|response to unfolded protein	cytoplasm|plasma membrane	heat shock protein binding|unfolded protein binding				0						AGATATTAAAAAGGCTTACCG	0.368													9	34					0	0	0.008291	0	0		T	78470858	T	T	78470858	4	4	202	1	0	0	0	0	0	1	0	0	4628	15	1	5	66	5	DNAJB4	1	78470858	Nonsense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	191386	78470858	170779763	38	98926											
FNBP1L	54874	broad.mit.edu	37	chr1	93996334	93996334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaacagcagttgaatctgcGtacgcatatggccgatgaaa	14	8	10	9	3	1	2	0	2	1	0	1	3	1	2	1	1	4	4	1	1	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:93996334G>A	uc001dpw.2	+	7	533	c.533G>A	c.(532-534)CGT>CAT	p.R178H	FNBP1L_uc001dpv.2_Missense_Mutation_p.R178H|FNBP1L_uc010otk.1_5'UTR	NM_001024948	NP_001020119	Q5T0N5	FBP1L_HUMAN	formin binding protein 1-like isoform 1	178	Induction of membrane tubulation (By similarity).				endocytosis	cell cortex|cytoplasmic membrane-bounded vesicle|cytoskeleton|plasma membrane	lipid binding				0		all_lung(203;0.00206)|Lung NSC(277;0.00902)|Melanoma(281;0.155)		all cancers(265;0.00666)|GBM - Glioblastoma multiforme(16;0.0378)|Epithelial(280;0.111)		TTGAATCTGCGTACGCATATG	0.318													4	6					0	0	0.001168	0	0		A	93996334	A	A	93996334	3	1	202	1	0	0	0	0	1	0	0	0	5980	1145	40	1	559	1	FNBP1L	1	93996334	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	15525476	93996334	155254287	39	98927											
SARS	6301	broad.mit.edu	37	chr1	109772104	109772104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatcctgaagtgtgacgcGgagcggataaagttggaagc	11	7	15	8	3	0	2	0	2	0	0	1	5	1	5	2	3	2	1	2	3	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:109772104G>A	uc001dwu.1	+	4	432	c.357G>A	c.(355-357)GCG>GCA	p.A119A	SARS_uc001dwt.1_Silent_p.A119A|SARS_uc001dwv.1_Silent_p.A119A|SARS_uc001dww.1_Silent_p.A52A|SARS_uc001dwx.1_Silent_p.A119A|SARS_uc009wfa.1_Silent_p.A119A|SARS_uc001dwy.1_5'UTR|SARS_uc001dwz.1_5'UTR	NM_006513	NP_006504	P49591	SYSC_HUMAN	seryl-tRNA synthetase	119					seryl-tRNA aminoacylation|tRNA processing	cytosol	ATP binding|protein binding|RNA binding|serine-tRNA ligase activity			central_nervous_system(1)	1		all_epithelial(167;7.64e-05)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0301)|Lung(183;0.0677)|COAD - Colon adenocarcinoma(174;0.116)|Epithelial(280;0.233)	L-Serine(DB00133)	AGTGTGACGCGGAGCGGATAA	0.507													10	200					0	0	0.006214	0	0		A	109772104	A	A	109772104	2	1	202	1	0	0	0	0	0	0	0	1	13869	1103	39	1		1	SARS	1	109772104	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	15775770	109772104	139478517	40	98928											
CTTNBP2NL	55917	broad.mit.edu	37	chr1	112998629	112998629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagtcagctggaagaggagcGctcccgccacaagcagctct	10	6	12	13	2	2	1	1	0	1	1	3	3	3	3	2	2	4	4	2	2	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:112998629G>A	uc001ebx.2	+	6	743	c.515G>A	c.(514-516)CGC>CAC	p.R172H	CTTNBP2NL_uc001ebz.2_5'Flank	NM_018704	NP_061174	Q9P2B4	CT2NL_HUMAN	CTTNBP2 N-terminal like	172	Potential.					actin cytoskeleton	protein binding			central_nervous_system(2)|ovary(1)	3		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)		GAAGAGGAGCGCTCCCGCCAC	0.468													13	30					0	0	0.001855	0	0		A	112998629	A	A	112998629	3	1	202	1	0	0	0	0	1	0	0	0	4049	1087	38	1	529	1	CTTNBP2NL	1	112998629	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3226525	112998629	136251992	41	98929											
MOV10	4343	broad.mit.edu	37	chr1	113234345	113234345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacatactacccacctcccCgcctcaggcagctgctcccc	7	6	7	21	1	1	0	1	0	0	0	3	1	3	1	7	2	4	3	7	2	2	2	rs148870988		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:113234345C>T	uc001eck.2	+	6	1165	c.895C>T	c.(895-897)CGC>TGC	p.R299C	MOV10_uc001ecl.2_Missense_Mutation_p.R299C|MOV10_uc001ecn.2_Missense_Mutation_p.R299C|MOV10_uc001ecm.2_Missense_Mutation_p.R239C|MOV10_uc009wgj.1_Missense_Mutation_p.R239C	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	299					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		CCCACCTCCCCGCCTCAGGCA	0.547													28	93					0	0	0.002445	0	0		T	113234345	T	T	113234345	3	4	202	1	0	0	0	0	1	0	0	0	9736	652	23	1	913	1	MOV10	1	113234345	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	235716	113234345	136016276	42	98930											
NRAS	4893	broad.mit.edu	37	chr1	115256529	115256529	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcatggcactgtactcttctTgtccagctgtatccagtatg	7	15	8	11	0	3	0	1	0	2	0	5	0	5	0	2	1	2	5	2	1	3	5	rs11554290		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:115256529T>C	uc009wgu.2	-	3	436	c.182A>G	c.(181-183)CAA>CGA	p.Q61R		NM_002524	NP_002515	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61	GTP.		Q -> K (in neuroblastoma cell).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.Q61R(757)|p.Q61K(537)|p.Q61L(147)|p.Q61H(95)|p.Q61P(21)|p.Q61E(9)|p.Q61?(4)|p.Q61Q(3)|p.Q61_E62>HK(1)		haematopoietic_and_lymphoid_tissue(1008)|skin(956)|thyroid(334)|large_intestine(62)|NS(60)|soft_tissue(32)|lung(31)|upper_aerodigestive_tract(25)|urinary_tract(12)|liver(10)|adrenal_gland(9)|autonomic_ganglia(8)|testis(8)|central_nervous_system(8)|prostate(8)|breast(7)|biliary_tract(6)|ovary(6)|stomach(5)|pancreas(5)|endometrium(2)|kidney(2)|cervix(2)|eye(1)	2607	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTACTCTTCTTGTCCAGCTGT	0.458	Q61L(HEPG2_LIVER)|Q61R(SKMEL2_SKIN)|Q61R(KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(IPC298_SKIN)|Q61P(TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MHHES1_BONE)|Q61R(HT1197_URINARY_TRACT)|Q61L(MELJUSO_SKIN)|Q61R(ONS76_CENTRAL_NERVOUS_SYSTEM)|Q61R(KU1919_URINARY_TRACT)|Q61L(C3A_LIVER)|Q61R(TT2609C02_THYROID)|Q61R(NCIH2347_LUNG)|Q61L(KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(SW1271_LUNG)|Q61L(HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	50	Mis		melanoma|MM|AML|thyroid				Noonan_syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			50	73					0	0	0.00361	0	0		C	115256529	C	C	115256529	3	2	202	1	0	0	0	0	1	0	0	0	10659	1812	63	3	399	3	NRAS	1	115256529	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	2022184	115256529	133994092	43	98931											
TRIM45	80263	broad.mit.edu	37	chr1	117660760	117660760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctttctcctgaggacagaagCgtatcttatcatttactcca	10	14	6	11	1	3	2	1	1	2	1	5	3	4	3	2	1	2	1	2	1	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:117660760C>T	uc001egz.2	-	2	1706	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H	TRIM45_uc009whe.2_Missense_Mutation_p.R373H|TRIM45_uc001eha.2_Missense_Mutation_p.R269H	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	373						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		AGGACAGAAGCGTATCTTATC	0.468													27	71					0	0	0.00632	0	0		T	117660760	T	T	117660760	3	4	202	1	0	0	0	0	1	0	0	0	16546	768	27	1	644	1	TRIM45	1	117660760	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2404231	117660760	131589861	44	98932											
ANKRD34A	284615	broad.mit.edu	37	chr1	145474607	145474607	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcggccgggtttcctacccCctctcaacgtcagtccccac	5	8	8	20	4	2	0	2	0	1	0	5	0	4	0	6	2	2	1	6	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:145474607C>A	uc001enq.1	+	4	2572	c.1279C>A	c.(1279-1281)CCT>ACT	p.P427T	NBPF10_uc001emp.3_Intron|LIX1L_uc001enr.2_5'Flank	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	427	Pro-rich.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TTTCCTACCCCCTCTCAACGT	0.687													10	25					3.07112e-06	3.20837e-06	0.000978	1	0		A	145474607	A	A	145474607	3	1	202	1	0	0	0	0	1	0	0	0	662	623	22	5	1281	5	ANKRD34A	1	145474607	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	27813847	145474607	103776014	45	98933											
PIAS3	10401	broad.mit.edu	37	chr1	145578119	145578119	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcttggctttgctggcCggaacaagagtggacggaag	8	10	15	8	2	1	1	0	0	1	1	1	4	1	4	1	5	3	3	1	5	3	3	rs142721064		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:145578119C>T	uc001eoc.1	+	2	173	c.82C>T	c.(82-84)CGG>TGG	p.R28W	NBPF10_uc001emp.3_Intron|PIAS3_uc010oyy.1_Missense_Mutation_p.R19W|PIAS3_uc001eod.1_5'Flank	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	28	SAP.				positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CTTTGCTGGCCGGAACAAGAG	0.542													9	80					0	0	0.004482	0	0		T	145578119	T	T	145578119	3	4	202	1	0	0	0	0	1	0	0	0	11896	643	23	1	88	1	PIAS3	1	145578119	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	103512	145578119	103672502	46	98934											
PRPF3	9129	broad.mit.edu	37	chr1	150318544	150318544	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcaagattgaagccaatgCtgggcaactgtacctgacag	12	9	11	9	0	1	3	1	2	0	1	1	3	1	3	2	1	4	4	2	1	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:150318544C>T	uc001eum.3	+	13	1853	c.1691C>T	c.(1690-1692)GCT>GTT	p.A564V	PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.A523V|PRPF3_uc010pcb.1_Missense_Mutation_p.A515V|PRPF3_uc009wlq.1_RNA	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	564					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		GAAGCCAATGCTGGGCAACTG	0.483													51	140					0	0	0.00361	0	0		T	150318544	T	T	150318544	3	4	202	1	0	0	0	0	1	0	0	0	12587	797	28	2	1737	2	PRPF3	1	150318544	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4740425	150318544	98932077	47	98935											
RPRD2	23248	broad.mit.edu	37	chr1	150444786	150444786	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaatagaggacatgggcGtgaggcttcaagggtgggtt	10	8	19	4	1	1	2	1	1	0	1	1	4	1	4	0	6	0	2	0	6	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:150444786G>A	uc009wlr.2	+	11	3563	c.3362G>A	c.(3361-3363)CGT>CAT	p.R1121H	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Missense_Mutation_p.R1095H	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1121							protein binding			ovary(1)	1						GGACATGGGCGTGAGGCTTCA	0.542													5	17					0	0	0.000602	0	0		A	150444786	A	A	150444786	3	1	202	1	0	0	0	0	1	0	0	0	13642	1145	40	1	3404	1	RPRD2	1	150444786	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	126242	150444786	98805835	48	98936											
LYSMD1	388695	broad.mit.edu	37	chr1	151133390	151133390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttcatcctcctggtcccGtagtgtccgggtccgagagg	5	11	13	12	3	1	1	1	0	0	1	6	3	6	1	5	3	0	1	5	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:151133390G>A	uc001ewy.2	-	3	1288	c.652C>T	c.(652-654)CGG>TGG	p.R218W	LYSMD1_uc010pcr.1_Missense_Mutation_p.R170W	NM_212551	NP_997716	Q96S90	LYSM1_HUMAN	LysM, putative peptidoglycan-binding, domain	218					cell wall macromolecule catabolic process						0	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)			TCCTGGTCCCGTAGTGTCCGG	0.567													26	74					0	0	0.008361	0	0		A	151133390	A	A	151133390	3	1	202	1	0	0	0	0	1	0	0	0	9142	1144	40	1	35	1	LYSMD1	1	151133390	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	688604	151133390	98117231	49	98937											
HRNR	388697	broad.mit.edu	37	chr1	152191933	152191933	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagccgtgttttctgtagccGgaggagtgacttgagccaga	8	10	15	8	2	1	3	0	2	1	1	1	6	1	5	3	2	3	2	3	2	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:152191933G>A	uc001ezt.1	-	3	2248	c.2172C>T	c.(2170-2172)TCC>TCT	p.S724S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	724	7.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCTGTAGCCGGAGGAGTGAC	0.542													9	251					0	0	0.000978	0	0		A	152191933	A	A	152191933	2	1	202	1	0	0	0	0	0	0	0	1	7375	1103	39	1		1	HRNR	1	152191933	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1058543	152191933	97058688	50	98938											
KIRREL	55243	broad.mit.edu	37	chr1	158064489	158064489	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaagaccgcccgtcttccaGggcagtgctctatgctgact	7	10	11	13	2	2	3	0	2	2	1	3	3	3	3	3	1	2	3	3	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:158064489G>T	uc001frn.3	+	15	2257	c.1853G>T	c.(1852-1854)AGG>ATG	p.R618M	KIRREL_uc010pib.1_Missense_Mutation_p.R518M|KIRREL_uc009wsq.2_Missense_Mutation_p.R454M|KIRREL_uc001fro.3_Missense_Mutation_p.R432M|uc001frp.2_5'Flank	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	618	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					CCGTCTTCCAGGGCAGTGCTC	0.637													23	56					6.12954e-19	6.65635e-19	0.004656	1	0		T	158064489	T	T	158064489	3	4	202	1	0	0	0	0	1	0	0	0	8340	1000	35	5	1911	5	KIRREL	1	158064489	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5872556	158064489	91186132	51	98939											
OR10J5	127385	broad.mit.edu	37	chr1	159505663	159505663	+	Silent	SNP	A	G	G	1	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	tcaatgcagatgatagtcacAatgatgatgttagcaaccag	15	10	9	7	0	2	4	2	3	0	1	2	4	2	4	1	0	3	3	1	0	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:159505663A>G	uc010piw.1	-	1	135	c.135T>C	c.(133-135)ATT>ATC	p.I45I		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	45	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					TGATAGTCACAATGATGATGT	0.413													30	78					0	0	0.008361	0	0		G	159505663	G	G	159505663	2	3	202	1	0	0	0	0	0	0	0	1	10931	126	5	3		3	OR10J5	1	159505663	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1441174	159505663	89744958	52	98940											
IGSF9	57549	broad.mit.edu	37	chr1	159898247	159898247	+	Frame_Shift_Del	DEL	G	-	-																															gccccaggaagtgattccctGggggatacaggaggggtttc																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:159898247delG	uc001fur.2	-	19	3129	c.2931delC	c.(2929-2931)CCCfs	p.P977fs	IGSF9_uc001fuq.2_Frame_Shift_Del_p.P961fs|CCDC19_uc001ful.2_5'Flank|TAGLN2_uc001fun.1_5'Flank|TAGLN2_uc001fuo.1_5'Flank|TAGLN2_uc010piy.1_5'Flank|IGSF9_uc001fup.2_Frame_Shift_Del_p.P123fs	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	977	Pro-rich.|Cytoplasmic (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GTGATTCCCTGGGGGATACAG	0.627													4	7	---	---	---	---						.	-	159898247	-	-	159898247	7	5	202	1	0	1	0	1	0	0	0	0	7621	1335	47	0	620	0	IGSF9	1	159898247	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	392584	159898247	89352374	53	98941											
PIGM	93183	broad.mit.edu	37	chr1	160000584	160000584	+	Frame_Shift_Del	DEL	A	-	-																															ggacgtatgaagaaaacaacAaaaaacgaggtctctgtaat																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:160000584delA	uc001fuv.1	-	1	1200	c.946delT	c.(946-948)TGTfs	p.C316fs		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	316	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGAAAACAACAAAAAACGAGG	0.443													10	19	---	---	---	---						.	-	160000584	-	-	160000584	7	5	202	1	0	1	0	1	0	0	0	0	11911	130	5	0	329	0	PIGM	1	160000584	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	102337	160000584	89250037	54	98942											
ATP1A2	477	broad.mit.edu	37	chr1	160106150	160106150	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctcatcagcatggcctaCggacagatcggtgcgccaag	10	6	13	12	3	2	1	2	0	0	1	3	2	2	2	2	4	3	2	2	4	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:160106150C>T	uc001fvc.2	+	18	2685	c.2553C>T	c.(2551-2553)TAC>TAT	p.Y851Y	ATP1A2_uc001fvb.2_Silent_p.Y851Y|ATP1A2_uc001fvd.2_Silent_p.Y587Y	NM_000702	NP_000693	P50993	AT1A2_HUMAN	Na+/K+ -ATPase alpha 2 subunit proprotein	851	Helical; (Potential).				ATP biosynthetic process		ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			central_nervous_system(3)|ovary(2)|skin(2)	7	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)			GCATGGCCTACGGACAGATCG	0.577													28	74					0	0	0.002096	0	0		T	160106150	T	T	160106150	2	4	202	1	0	0	0	0	0	0	0	1	1130	547	19	1		1	ATP1A2	1	160106150	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	105566	160106150	89144471	55	98943											
ADAMTS4	9507	broad.mit.edu	37	chr1	161160941	161160941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgaggttatttcctgcccGcccaggggcgccgccgaagg	6	7	15	13	4	0	1	0	1	0	0	1	2	1	1	5	4	1	1	5	4	2	2	rs114600134	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:161160941G>A	uc001fyt.3	-	9	2929	c.2501C>T	c.(2500-2502)GCG>GTG	p.A834V		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	834	Spacer.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			TTTCCTGCCCGCCCAGGGGCG	0.637													7	39					0	0	0.006214	0	0		A	161160941	A	A	161160941	3	1	202	1	0	0	0	0	1	0	0	0	268	1087	38	1	16	1	ADAMTS4	1	161160941	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1054791	161160941	88089680	56	98944											
F5	2153	broad.mit.edu	37	chr1	169511840	169511840	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tatagggtcttcagaatatgGgctggaatgctctgctgtgg	8	13	14	6	0	3	1	1	0	2	1	3	2	3	2	0	4	2	3	0	4	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:169511840G>T	uc001ggg.1	-	13	2633	c.2488C>A	c.(2488-2490)CCA>ACA	p.P830T		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	830	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	TCAGAATATGGGCTGGAATGC	0.488													5	102					5.9392e-07	6.23249e-07	0.001168	1	0		T	169511840	T	T	169511840	3	4	202	1	0	0	0	0	1	0	0	0	5356	1232	43	5	4238	5	F5	1	169511840	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8350899	169511840	79738781	57	98945											
F5	2153	broad.mit.edu	37	chr1	169511874	169511874	+	Silent	SNP	T	C	C	0	1	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	gctgtggaagaattgagaacTgagttcttgccaatgaggtg	11	11	14	5	0	1	4	0	3	1	2	1	6	1	5	1	2	2	2	1	2	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:169511874T>C	uc001ggg.1	-	13	2599	c.2454A>G	c.(2452-2454)TCA>TCG	p.S818S		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	818	B.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	AATTGAGAACTGAGTTCTTGC	0.488													18	83					0	0	0.010504	0	0		C	169511874	C	C	169511874	2	2	202	1	0	0	0	0	0	0	0	1	5356	1567	55	3		3	F5	1	169511874	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	34	169511874	79738747	58	98946											
CACYBP	27101	broad.mit.edu	37	chr1	174976324	174976324	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccatctctgtggaaggcagTtcaaaaaaagtgagtgtgct	12	10	11	8	0	2	1	1	1	1	0	3	2	2	2	1	2	1	3	1	2	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:174976324T>A	uc001gkj.1	+	4	848	c.423T>A	c.(421-423)AGT>AGA	p.S141R	CACYBP_uc001gki.1_Missense_Mutation_p.S98R	NM_014412	NP_055227	Q9HB71	CYBP_HUMAN	calcyclin binding protein isoform 1	141	Interaction with SKP1.|CS.					beta-catenin destruction complex	protein homodimerization activity				0						TGGAAGGCAGTTCAAAAAAAG	0.358													9	17					0	0	0.008291	0	0		A	174976324	A	A	174976324	3	1	202	1	0	0	0	0	1	0	0	0	2567	1722	60	5	437	5	CACYBP	1	174976324	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	5464450	174976324	74274297	59	98947											
ANGPTL1	9068	broad.mit.edu	37	chr1	178834299	178834299	+	Frame_Shift_Del	DEL	A	-	-																															cacatgggtgtcttgtcgggAaaatatcctcaagcactgtt																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:178834299delA	uc001gma.2	-	3	1089	c.613delT	c.(613-615)TCCfs	p.S205fs	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Frame_Shift_Del_p.S205fs|ANGPTL1_uc010pnc.1_Frame_Shift_Del_p.S127fs	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	205						extracellular space	receptor binding				0						TCTTGTCGGGAAAATATCCTC	0.463													33	59	---	---	---	---						.	-	178834299	-	-	178834299	7	5	202	1	0	1	0	1	0	0	0	0	613	246	9	0	878	0	ANGPTL1	1	178834299	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	3857975	178834299	70416322	60	98948											
ABL2	27	broad.mit.edu	37	chr1	179078099	179078099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aagtgtcatcactggctgtgGgtttacctgctcgtaagccc	7	12	11	11	1	2	0	2	0	0	0	3	0	2	0	2	2	3	4	2	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:179078099G>A	uc001gmj.3	-	12	2590	c.2303C>T	c.(2302-2304)CCC>CTC	p.P768L	ABL2_uc010pnf.1_Intron|ABL2_uc010png.1_Intron|ABL2_uc010pnh.1_Missense_Mutation_p.P747L|ABL2_uc001gmg.3_Intron|ABL2_uc001gmi.3_Missense_Mutation_p.P753L|ABL2_uc001gmh.3_Missense_Mutation_p.P732L|ABL2_uc010pne.1_Intron	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	768	F-actin-binding (By similarity).				axon guidance|cell adhesion|peptidyl-tyrosine phosphorylation|positive regulation of oxidoreductase activity|signal transduction	cytoskeleton|cytosol	ATP binding|magnesium ion binding|manganese ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(8)|breast(3)|ovary(2)|central_nervous_system(1)	14					Adenosine triphosphate(DB00171)|Dasatinib(DB01254)	ACTGGCTGTGGGTTTACCTGC	0.532			T	ETV6	AML								28	75					0	0	0.00632	0	0		A	179078099	A	A	179078099	3	1	202	1	0	0	0	0	1	0	0	0	93	1232	43	4	1249	4	ABL2	1	179078099	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	243800	179078099	70172522	61	98949											
HMCN1	83872	broad.mit.edu	37	chr1	186008082	186008082	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgctggcatatataaatgCgtggccatcaactcagctgg	11	10	11	9	1	2	0	2	0	0	0	2	1	2	0	1	3	4	3	1	3	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:186008082C>T	uc001grq.1	+	38	6202	c.5973C>T	c.(5971-5973)TGC>TGT	p.C1991C		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1991	Ig-like C2-type 17.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TATATAAATGCGTGGCCATCA	0.433													23	35					0	0	0.003954	0	0		T	186008082	T	T	186008082	2	4	202	1	0	0	0	0	0	0	0	1	7236	776	27	1		1	HMCN1	1	186008082	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6929983	186008082	63242539	62	98950											
HMCN1	83872	broad.mit.edu	37	chr1	186114898	186114898	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttcacagtggatggaagttgGggaagctggcatagttggag	10	10	17	4	0	1	0	1	0	0	0	1	4	1	4	0	6	1	4	0	6	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:186114898G>T	uc001grq.1	+	93	14680	c.14451G>T	c.(14449-14451)TGG>TGT	p.W4817C	HMCN1_uc001grs.1_Missense_Mutation_p.W386C	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4817	TSP type-1 6.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ATGGAAGTTGGGGAAGCTGGC	0.502													9	54					1.58986e-06	1.66464e-06	0.008291	1	0		T	186114898	T	T	186114898	3	4	202	1	0	0	0	0	1	0	0	0	7236	1241	43	5	14821	5	HMCN1	1	186114898	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	106816	186114898	63135723	63	98951											
ZBTB41	360023	broad.mit.edu	37	chr1	197144169	197144169	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttctctccaaggtgtacGcttttgtaatgaacagtgag	10	14	9	8	1	1	2	0	2	1	0	3	2	2	2	1	1	2	3	1	1	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:197144169G>A	uc001gtx.1	-	8	2025	c.1956C>T	c.(1954-1956)AGC>AGT	p.S652S	ZBTB41_uc009wyz.1_RNA	NM_194314	NP_919290	Q5SVQ8	ZBT41_HUMAN	zinc finger and BTB domain containing 41	652	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						CAAGGTGTACGCTTTTGTAAT	0.353													14	56					0	0	0.007413	0	0		A	197144169	A	A	197144169	2	1	202	1	0	0	0	0	0	0	0	1	17568	1078	38	1		1	ZBTB41	1	197144169	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	11029271	197144169	52106452	64	98952											
PPP1R12B	4660	broad.mit.edu	37	chr1	202409874	202409874	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tattagttcactagcaccccGgaagctcaacagcacaagtg	13	8	8	12	1	2	0	2	0	0	0	2	1	2	1	2	1	4	4	2	1	6	4	rs111305872		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:202409874G>T	uc001gya.1	+	11	1643	c.1499G>T	c.(1498-1500)CGG>CTG	p.R500L	PPP1R12B_uc001gxz.1_Missense_Mutation_p.R500L	NM_002481	NP_002472	O60237	MYPT2_HUMAN	protein phosphatase 1, regulatory (inhibitor)	500					regulation of muscle contraction|signal transduction	cytoplasm	enzyme activator activity			ovary(3)	3			BRCA - Breast invasive adenocarcinoma(75;0.166)			CTAGCACCCCGGAAGCTCAAC	0.388													14	39					0.000566183	0.000581738	0.00499	1	0		T	202409874	T	T	202409874	3	4	202	1	0	0	0	0	1	0	0	0	12377	1116	39	5	1631	5	PPP1R12B	1	202409874	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5265705	202409874	46840747	65	98953											
CNTN2	6900	broad.mit.edu	37	chr1	205033795	205033795	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cttgatcataagaaacatcaGccggtcagatgaaggcaaat	16	8	9	8	1	3	4	3	2	0	2	3	4	3	4	1	2	2	1	1	2	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:205033795G>A	uc001hbr.2	+	12	1705	c.1436G>A	c.(1435-1437)AGC>AAC	p.S479N	CNTN2_uc001hbq.1_Missense_Mutation_p.S370N|CNTN2_uc001hbs.2_Missense_Mutation_p.S267N	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	479	Ig-like C2-type 5.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	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)			AGAAACATCAGCCGGTCAGAT	0.527													12	67					0	0	0.001368	0	0		A	205033795	A	A	205033795	3	1	202	1	0	0	0	0	1	0	0	0	3644	971	34	2	1478	2	CNTN2	1	205033795	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2623921	205033795	44216826	66	98954											
TMCC2	9911	broad.mit.edu	37	chr1	205210709	205210709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacagccgccgtcggtctcGggaaagggagcaccagacgt	9	4	14	14	5	1	1	0	0	1	1	3	3	1	3	4	3	2	1	4	3	1	0	rs138497244	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:205210709G>A	uc001hbz.1	+	3	728	c.284G>A	c.(283-285)CGG>CAG	p.R95Q	TMCC2_uc010prf.1_Missense_Mutation_p.R17Q	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	95						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CGTCGGTCTCGGGAAAGGGAG	0.587													9	22					0	0	0.006214	0	0		A	205210709	A	A	205210709	3	1	202	1	0	0	0	0	1	0	0	0	16018	1116	39	1	290	1	TMCC2	1	205210709	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	176914	205210709	44039912	67	98955											
TMCC2	9911	broad.mit.edu	37	chr1	205210851	205210851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtccctgcacgacctgccCgcccggcccaccgccttcaa	6	6	8	21	4	1	0	1	0	0	0	2	1	2	0	7	1	2	1	7	1	1	1	rs140397839		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:205210851C>T	uc001hbz.1	+	3	870	c.426C>T	c.(424-426)CCC>CCT	p.P142P	TMCC2_uc010prf.1_Silent_p.P64P	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	142						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			ACGACCTGCCCGCCCGGCCCA	0.597													21	36					0	0	0.005443	0	0		T	205210851	T	T	205210851	2	4	202	1	0	0	0	0	0	0	0	1	16018	639	23	1		1	TMCC2	1	205210851	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	142	205210851	44039770	68	98956											
CDK18	5129	broad.mit.edu	37	chr1	205492350	205492350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttctccctgtcagtgcccCgcactgagaccattgaagaa	9	10	9	13	1	2	3	1	2	1	2	3	4	2	3	4	0	1	2	4	0	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:205492350C>A	uc001hcr.2	+	2	274	c.55C>A	c.(55-57)CGC>AGC	p.R19S	CDK18_uc009xbk.1_Intron|CDK18_uc009xbl.1_RNA|CDK18_uc010pri.1_5'UTR|CDK18_uc001hcp.2_Missense_Mutation_p.R19S|CDK18_uc001hcq.2_Missense_Mutation_p.R19S|CDK18_uc010prj.1_5'UTR|CDK18_uc001hcs.2_5'UTR|CDK18_uc009xbm.1_5'Flank	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	17							ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						GTCAGTGCCCCGCACTGAGAC	0.552													12	47					9.31168e-06	9.71699e-06	0.001855	1	0		A	205492350	A	A	205492350	3	1	202	1	0	0	0	0	1	0	0	0	3137	652	23	5	57	5	CDK18	1	205492350	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	281499	205492350	43758271	69	98957											
NUCKS1	64710	broad.mit.edu	37	chr1	205687461	205687461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccttcatccccagatttctCgggtggggggcttgtagatg	5	12	13	11	1	2	2	1	0	1	2	4	2	3	2	3	4	0	2	3	4	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:205687461C>T	uc001hdb.2	-	7	939	c.679G>A	c.(679-681)GAG>AAG	p.E227K		NM_022731	NP_073568	Q9H1E3	NUCKS_HUMAN	nuclear casein kinase and cyclin-dependent	227						nucleus					0	Breast(84;0.07)		BRCA - Breast invasive adenocarcinoma(75;0.0194)			CCAGATTTCTCGGGTGGGGGG	0.438													21	65					0	0	0.00333	0	0		T	205687461	T	T	205687461	3	4	202	1	0	0	0	0	1	0	0	0	10739	893	31	1	56	1	NUCKS1	1	205687461	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	195111	205687461	43563160	70	98958											
USH2A	7399	broad.mit.edu	37	chr1	215956110	215956110	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tataggttttctccagtttaAgacaattgtatcttcaagat	12	17	6	6	0	3	2	1	0	2	2	4	2	3	2	1	1	0	3	1	1	6	9			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:215956110A>G	uc001hku.1	-	53	10942	c.10555T>C	c.(10555-10557)TTA>CTA	p.L3519L		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3519	Extracellular (Potential).|Fibronectin type-III 20.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		CTCCAGTTTAAGACAATTGTA	0.348										HNSCC(13;0.011)			15	26					0	0	0.00499	0	0		G	215956110	G	G	215956110	2	3	202	1	0	0	0	0	0	0	0	1	17062	69	3	3		3	USH2A	1	215956110	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	10268649	215956110	33294511	71	98959											
MIA3	375056	broad.mit.edu	37	chr1	222802330	222802330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggagatgaccaccctaacGcatccagagacagtgtggag	12	6	13	10	1	0	3	0	1	0	2	1	6	1	4	3	2	1	1	3	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:222802330G>A	uc001hnl.2	+	4	1777	c.1768G>A	c.(1768-1770)GCA>ACA	p.A590T	MIA3_uc009xea.1_Missense_Mutation_p.A426T	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	590	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		CCACCCTAACGCATCCAGAGA	0.483													14	37					0	0	0.00245	0	0		A	222802330	A	A	222802330	3	1	202	1	0	0	0	0	1	0	0	0	9583	1087	38	1	1782	1	MIA3	1	222802330	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6846220	222802330	26448291	72	98960											
LIN9	286826	broad.mit.edu	37	chr1	226426763	226426763	+	Missense_Mutation	SNP	T	C	C	0	1	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	caattgttgcatatctccgcTgaaattcaatgctgatgggc	10	13	9	9	1	2	2	1	2	1	0	3	2	2	2	1	1	2	4	1	1	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:226426763T>C	uc001hqa.2	-	12	1512	c.1202A>G	c.(1201-1203)CAG>CGG	p.Q401R	LIN9_uc001hqb.2_Missense_Mutation_p.Q366R|LIN9_uc001hqc.2_Missense_Mutation_p.Q333R|LIN9_uc009xel.1_Missense_Mutation_p.Q366R	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	385	Potential.				cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)			GBM - Glioblastoma multiforme(131;0.131)		ATATCTCCGCTGAAATTCAAT	0.353													8	19					0	0	0.006214	0	0		C	226426763	C	C	226426763	3	2	202	1	0	0	0	0	1	0	0	0	8830	1580	55	3	490	3	LIN9	1	226426763	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	3624433	226426763	22823858	73	98961											
OBSCN	84033	broad.mit.edu	37	chr1	228509303	228509303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcggctggagtgtgtcGtggccagcaaggcagatgtg	6	8	17	10	2	0	1	0	0	0	1	1	2	0	2	2	4	2	3	2	4	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:228509303G>A	uc009xez.1	+	55	14805	c.14761G>A	c.(14761-14763)GTG>ATG	p.V4921M	OBSCN_uc001hsn.2_Missense_Mutation_p.V4921M	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4921	Ig-like 48.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGAGTGTGTCGTGGCCAGCAA	0.637													9	26					0	0	0.006214	0	0		A	228509303	A	A	228509303	3	1	202	1	0	0	0	0	1	0	0	0	10831	1145	40	1	14975	1	OBSCN	1	228509303	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2082540	228509303	20741318	74	98962											
SIPA1L2	57568	broad.mit.edu	37	chr1	232561511	232561511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctctcgtcagacagcgtgCggtaaagcgacctccttgga	8	9	12	12	4	2	1	1	0	1	1	4	3	3	2	2	2	4	2	2	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:232561511C>T	uc001hvg.2	-	16	4612	c.4454G>A	c.(4453-4455)CGC>CAC	p.R1485H	SIPA1L2_uc001hvf.2_Missense_Mutation_p.R559H	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1485					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				AGACAGCGTGCGGTAAAGCGA	0.542													17	30					0	0	0.008871	0	0		T	232561511	T	T	232561511	3	4	202	1	0	0	0	0	1	0	0	0	14355	768	27	1	738	1	SIPA1L2	1	232561511	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4052208	232561511	16689110	75	98963											
PCNXL2	80003	broad.mit.edu	37	chr1	233136126	233136126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcaccctcgtccaccacGtgccgcagggtgagcagctc	6	6	12	17	4	0	1	0	1	0	0	4	1	1	1	4	2	3	4	4	2	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:233136126G>A	uc001hvl.2	-	30	5488	c.5253C>T	c.(5251-5253)CAC>CAT	p.H1751H	PCNXL2_uc001hvk.1_Silent_p.H403H|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1751						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				CGTCCACCACGTGCCGCAGGG	0.607													40	79					0	0	0.00361	0	0		A	233136126	A	A	233136126	2	1	202	1	0	0	0	0	0	0	0	1	11611	1136	40	1		1	PCNXL2	1	233136126	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	574615	233136126	16114495	76	98964											
CHRM3	1131	broad.mit.edu	37	chr1	240070882	240070882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggcagctacaatgtttctcGagcagctggcaatttctcct	8	12	9	12	2	2	0	0	0	2	0	4	1	2	0	1	2	4	6	1	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:240070882G>A	uc001hyp.2	+	5	910	c.131G>A	c.(130-132)CGA>CAA	p.R44Q		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	44	Extracellular (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	AATGTTTCTCGAGCAGCTGGC	0.557													22	67					0	0	0.00333	0	0		A	240070882	A	A	240070882	3	1	202	1	0	0	0	0	1	0	0	0	3381	1058	37	1	133	1	CHRM3	1	240070882	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6934756	240070882	9179739	77	98965											
ZNF496	84838	broad.mit.edu	37	chr1	247464040	247464040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagctcagtttggccttgccGttttccagcggctctttggg	4	14	12	11	2	2	0	1	0	1	0	3	0	3	0	3	3	3	4	3	3	1	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr1:247464040G>A	uc001ico.2	-	9	2010	c.1545C>T	c.(1543-1545)AAC>AAT	p.N515N	ZNF496_uc009xgv.2_Silent_p.N551N|ZNF496_uc001icp.2_Silent_p.N515N	NM_032752	NP_116141	Q96IT1	ZN496_HUMAN	zinc finger protein 496	515					positive regulation of transcription, DNA-dependent|viral reproduction		DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(71;0.000136)|all_epithelial(71;2.62e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)		OV - Ovarian serous cystadenocarcinoma(106;0.00703)			TGGCCTTGCCGTTTTCCAGCG	0.632													38	83					0	0	0.00361	0	0		A	247464040	A	A	247464040	2	1	202	1	0	0	0	0	0	0	0	1	17970	1136	40	1		1	ZNF496	1	247464040	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7393158	247464040	1786581	78	98966											
TPO	7173	broad.mit.edu	37	chr2	1481016	1481016	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacctcgttcctggacgcGtccaccgtgtatggcagctc	5	11	11	14	4	0	1	0	1	0	0	4	2	2	2	4	2	1	4	4	2	1	3	rs145985334	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:1481016G>A	uc002qww.2	+	8	1069	c.978G>A	c.(976-978)GCG>GCA	p.A326A	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Silent_p.A326A|TPO_uc002qwr.2_Silent_p.A326A|TPO_uc002qwx.2_Silent_p.A326A|TPO_uc010yio.1_Intron|TPO_uc010yip.1_Silent_p.A326A	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	326	Extracellular (Potential).		A -> T (in TDH2A).		cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	TCCTGGACGCGTCCACCGTGT	0.706													8	11					0	0	0.008291	0	0		A	1481016	A	A	1481016	2	1	202	1	0	0	0	0	0	0	0	1	16436	1132	40	1		1	TPO	2	1481016	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		1481016	241718357	79	98967											
PXDN	7837	broad.mit.edu	37	chr2	1648403	1648403	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctcacctgtccccatctcGcaggcgcttgaactgtgtgc	5	11	10	15	2	2	1	1	1	1	0	4	1	3	1	3	1	3	3	3	1	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:1648403G>A	uc002qxa.2	-	18	3794	c.3730C>T	c.(3730-3732)CGA>TGA	p.R1244*		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1244					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TCCCCATCTCGCAGGCGCTTG	0.617													4	39					0	0	0.001984	0	0		A	1648403	A	A	1648403	4	1	202	1	0	0	0	0	0	1	0	0	12872	1095	38	1	733	1	PXDN	2	1648403	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	167387	1648403	241550970	80	98968											
PXDN	7837	broad.mit.edu	37	chr2	1683982	1683982	+	Frame_Shift_Del	DEL	G	-	-																															caccacagttcagctcttccGgggtgatggttgccactgag																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:1683982delG	uc002qxa.2	-	7	777	c.713delC	c.(712-714)CCGfs	p.P238fs	PXDN_uc002qxb.1_Frame_Shift_Del_p.P238fs|PXDN_uc002qxc.1_Frame_Shift_Del_p.P55fs	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	238	LRRCT.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CAGCTCTTCCGGGGTGATGGT	0.438													2	4	---	---	---	---						.	-	1683982	-	-	1683982	7	5	202	1	0	1	0	1	0	0	0	0	12872	1116	39	0	3794	0	PXDN	2	1683982	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	35579	1683982	241515391	81	98969											
ADAM17	6868	broad.mit.edu	37	chr2	9630357	9630357	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgacgctgcagtttaaaGgaggcagccttttcacttct	8	14	9	10	1	3	1	1	1	2	0	3	2	3	2	1	2	2	4	1	2	2	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:9630357G>T	uc002qzu.2	-	19	2607	c.2424C>A	c.(2422-2424)TCC>TCA	p.S808S	IAH1_uc010yiz.1_Intron|ADAM17_uc010ewy.2_Silent_p.S791S|ADAM17_uc010ewz.2_Silent_p.S151S	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	808	Cytoplasmic (Potential).				B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			lung(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)		GCAGTTTAAAGGAGGCAGCCT	0.443													7	25					0.00448238	0.00457536	0.004482	1	0		T	9630357	T	T	9630357	2	4	202	1	0	0	0	0	0	0	0	1	238	987	35	5		5	ADAM17	2	9630357	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7946375	9630357	233569016	82	98970											
GREB1	9687	broad.mit.edu	37	chr2	11751001	11751001	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccacgggctcatggtcctgCtgcgggtgccctgttcgccc	2	9	14	16	3	1	0	1	0	0	0	3	0	2	0	4	3	3	3	4	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:11751001C>T	uc002rbk.1	+	18	3154	c.2854C>T	c.(2854-2856)CTG>TTG	p.L952L	GREB1_uc002rbo.1_Silent_p.L586L|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	952						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		CATGGTCCTGCTGCGGGTGCC	0.667													7	29					0	0	0.001984	0	0		T	11751001	T	T	11751001	2	4	202	1	0	0	0	0	0	0	0	1	6776	796	28	2		2	GREB1	2	11751001	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2120644	11751001	231448372	83	98971											
GREB1	9687	broad.mit.edu	37	chr2	11777870	11777870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taactctgccgcggtcgtgcCggcccagtacatctgtgccc	5	9	11	16	4	2	0	0	0	2	0	3	0	2	0	4	2	5	1	4	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:11777870C>T	uc002rbk.1	+	31	5675	c.5375C>T	c.(5374-5376)CCG>CTG	p.P1792L	GREB1_uc002rbp.1_Missense_Mutation_p.P790L	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1792						integral to membrane		p.P1792L(1)		ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GCGGTCGTGCCGGCCCAGTAC	0.662													11	72					0	0	0.00245	0	0		T	11777870	T	T	11777870	3	4	202	1	0	0	0	0	1	0	0	0	6776	652	23	1	5601	1	GREB1	2	11777870	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	26869	11777870	231421503	84	98972											
NBAS	51594	broad.mit.edu	37	chr2	15468434	15468434	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatgcaccaccacatttttgCccctaaaaagaaaaaaagta	18	9	4	10	0	0	1	0	0	0	1	0	1	0	1	4	0	2	2	4	0	8	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:15468434C>T	uc002rcc.1	-	37	4376	c.4350G>A	c.(4348-4350)GGG>GGA	p.G1450G	NBAS_uc010exl.1_Silent_p.G522G|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1450										ovary(2)|liver(1)|skin(1)	4						CACATTTTTGCCCCTaaaaag	0.209													11	38					0	0	0.001368	0	0		T	15468434	T	T	15468434	2	4	202	1	0	0	0	0	0	0	0	1	10204	726	26	2		2	NBAS	2	15468434	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3690564	15468434	227730939	85	98973											
RAD51AP2	729475	broad.mit.edu	37	chr2	17698737	17698737	+	Frame_Shift_Del	DEL	T	-	-																															aatgttttccgcttctacagTttttttatcattctgtaact																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:17698737delT	uc002rcl.1	-	1	970	c.946delA	c.(946-948)ACTfs	p.T316fs	RAD51AP2_uc010exn.1_Frame_Shift_Del_p.T307fs	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	316										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					GCTTCTACAGTTTTTTTATCA	0.328													8	11	---	---	---	---						.	-	17698737	-	-	17698737	7	5	202	1	0	1	0	1	0	0	0	0	13012	1725	60	0	2545	0	RAD51AP2	2	17698737	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08	2230303	17698737	225500636	86	98974											
SMC6	79677	broad.mit.edu	37	chr2	17877597	17877597	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atccagttctcgtttcttttTatttaaggtatccaagtgtt	8	20	6	7	1	2	0	0	0	2	0	5	0	4	0	2	1	0	4	2	1	4	9			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:17877597T>C	uc002rco.2	-	22	2787	c.2491A>G	c.(2491-2493)AAA>GAA	p.K831E	SMC6_uc010exo.2_Missense_Mutation_p.K831E|SMC6_uc002rcn.2_Missense_Mutation_p.K831E|SMC6_uc002rcp.1_Missense_Mutation_p.K857E	NM_001142286	NP_001135758	Q96SB8	SMC6_HUMAN	SMC6 protein	831	Potential.				DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CGTTTCTTTTTATTTAAGGTA	0.318													7	3					0	0	0.001984	0	0		C	17877597	C	C	17877597	3	2	202	1	0	0	0	0	1	0	0	0	14812	1763	61	3	812	3	SMC6	2	17877597	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	178860	17877597	225321776	87	98975											
MFSD2B	388931	broad.mit.edu	37	chr2	24246517	24246517	+	Missense_Mutation	SNP	A	G	G	1	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	gtcacgggccaggcctggagAccatcttctactcctcctac	7	9	9	16	1	3	1	1	0	2	1	5	2	5	1	5	3	2	0	5	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:24246517A>G	uc002reo.1	+	12	1248	c.1234A>G	c.(1234-1236)ACC>GCC	p.T412A		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	412	Helical; (Potential).				transport	integral to membrane				ovary(2)	2						AGGCCTGGAGACCATCTTCTA	0.612													5	109					0	0	0.001168	0	0		G	24246517	G	G	24246517	3	3	202	1	0	0	0	0	1	0	0	0	9549	275	10	3	1280	3	MFSD2B	2	24246517	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	6368920	24246517	218952856	88	98976											
HADHB	3032	broad.mit.edu	37	chr2	26502949	26502949	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acctgcattcatcaagccctAcggcacagtgacagctgcaa	12	7	8	14	1	2	1	2	1	0	0	2	1	2	1	2	1	5	4	2	1	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:26502949A>G	uc002rgz.2	+	10	1150	c.899A>G	c.(898-900)TAC>TGC	p.Y300C	HADHB_uc010ykv.1_Missense_Mutation_p.Y278C|HADHB_uc010ykw.1_Missense_Mutation_p.Y285C|HADHB_uc002rha.2_Missense_Mutation_p.Y177C|HADHB_uc010ykx.1_Missense_Mutation_p.Y226C	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	300					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCAAGCCCTACGGCACAGTG	0.383													3	54					0	0	0.000602	0	0		G	26502949	G	G	26502949	3	3	202	1	0	0	0	0	1	0	0	0	6960	391	14	3	933	3	HADHB	2	26502949	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2256432	26502949	216696424	89	98977											
KCNK3	3777	broad.mit.edu	37	chr2	26950776	26950776	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgctgtgcatcggcgcCgccgccttctcccactacga	6	7	10	18	6	1	0	0	0	1	0	3	1	1	0	4	1	3	3	4	1	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:26950776C>T	uc002rhn.2	+	2	688	c.525C>T	c.(523-525)GCC>GCT	p.A175A		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	175	Helical; (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCATCGGCGCCGCCGCCTTCT	0.637													9	36					0	0	0.004482	0	0		T	26950776	T	T	26950776	2	4	202	1	0	0	0	0	0	0	0	1	8083	639	23	1		1	KCNK3	2	26950776	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	447827	26950776	216248597	90	98978											
NRBP1	29959	broad.mit.edu	37	chr2	27663726	27663726	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcggccccagcagccacaGcaggaggaggtgacatcacc	10	3	12	16	1	1	1	1	1	0	0	2	3	1	3	5	4	3	2	5	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:27663726G>A	uc002rko.2	+	15	2080	c.1248G>A	c.(1246-1248)CAG>CAA	p.Q416Q	NRBP1_uc002rkq.2_Silent_p.Q415Q|NRBP1_uc002rkp.2_Silent_p.Q416Q|NRBP1_uc002rkr.2_Silent_p.Q207Q|KRTCAP3_uc002rks.2_5'Flank|KRTCAP3_uc010ylr.1_5'Flank|KRTCAP3_uc002rkt.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	416					ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					AGCAGCCACAGCAGGAGGAGG	0.602													7	79					0	0	0.00308	0	0		A	27663726	A	A	27663726	2	1	202	1	0	0	0	0	0	0	0	1	10661	962	34	2		2	NRBP1	2	27663726	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	712950	27663726	215535647	91	98979											
NRBP1	29959	broad.mit.edu	37	chr2	27664014	27664014	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtgctgatgcagtgcaaCattgagtcggtggaggaggg	8	9	19	5	1	0	2	0	2	0	0	1	4	0	4	0	5	4	3	0	5	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:27664014C>T	uc002rko.2	+	16	2182	c.1350C>T	c.(1348-1350)AAC>AAT	p.N450N	NRBP1_uc002rkq.2_Silent_p.N449N|NRBP1_uc002rkp.2_Silent_p.N450N|NRBP1_uc002rkr.2_Silent_p.N241N|KRTCAP3_uc002rks.2_5'Flank|KRTCAP3_uc010ylr.1_5'Flank|KRTCAP3_uc002rkt.2_5'Flank	NM_013392	NP_037524	Q9UHY1	NRBP_HUMAN	nuclear receptor binding protein	450					ER to Golgi vesicle-mediated transport|gene expression|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cell cortex|endomembrane system|lamellipodium|membrane|nucleoplasm	ATP binding|protein homodimerization activity|protein kinase activity			ovary(2)|lung(1)	3	Acute lymphoblastic leukemia(172;0.155)					TGCAGTGCAACATTGAGTCGG	0.532													57	156					0	0	0.00361	0	0		T	27664014	T	T	27664014	2	4	202	1	0	0	0	0	0	0	0	1	10661	477	17	4		4	NRBP1	2	27664014	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	288	27664014	215535359	92	98980											
IFT172	26160	broad.mit.edu	37	chr2	27688653	27688653	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatggctgttccaaactcgaTgaggccctcatccaatgtgt	10	11	9	11	1	1	1	1	1	0	0	4	2	3	1	3	2	1	2	3	2	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:27688653T>C	uc002rku.2	-	17	1840	c.1789A>G	c.(1789-1791)ATC>GTC	p.I597V		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	597	TPR 1.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CCAAACTCGATGAGGCCCTCA	0.547													32	373					0	0	0.002445	0	0		C	27688653	C	C	27688653	3	2	202	1	0	0	0	0	1	0	0	0	7573	1464	51	3	3588	3	IFT172	2	27688653	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	24639	27688653	215510720	93	98981											
CRIM1	51232	broad.mit.edu	37	chr2	36668566	36668566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgcaaagtctgccagcCgggaaacctgaacatactag	12	7	10	12	2	2	1	0	1	2	0	2	2	2	2	3	1	6	1	3	1	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:36668566C>T	uc002rpd.2	+	3	710	c.671C>T	c.(670-672)CCG>CTG	p.P224L		NM_016441	NP_057525	Q9NZV1	CRIM1_HUMAN	cysteine-rich motor neuron 1 precursor	224	Extracellular (Potential).				nervous system development|regulation of cell growth	extracellular region|integral to membrane|plasma membrane	insulin-like growth factor binding|insulin-like growth factor receptor activity|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_hematologic(82;0.131)|Acute lymphoblastic leukemia(82;0.154)				GTCTGCCAGCCGGGAAACCTG	0.577													22	76					0	0	0.002299	0	0		T	36668566	T	T	36668566	3	4	202	1	0	0	0	0	1	0	0	0	3876	652	23	1	681	1	CRIM1	2	36668566	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8979913	36668566	206530807	94	98982											
EIF2AK2	5610	broad.mit.edu	37	chr2	37353552	37353552	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttctttaaaatccatgccaAaccttaaagataaaaaccac	18	11	2	10	0	1	1	0	0	1	1	2	1	2	1	4	0	3	0	4	0	8	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:37353552A>G	uc010ynh.1	-	11	1345	c.788T>C	c.(787-789)TTT>TCT	p.F263S	EIF2AK2_uc010fab.1_Intron|EIF2AK2_uc010yng.1_Missense_Mutation_p.F263S|EIF2AK2_uc010fac.2_Missense_Mutation_p.F263S|EIF2AK2_uc010fad.2_Missense_Mutation_p.F263S	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	263				Missing: Loss of activity.	evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				ATCCATGCCAAACCTTAAAGA	0.393													8	27					0	0	0.004482	0	0		G	37353552	G	G	37353552	3	3	202	1	0	0	0	0	1	0	0	0	5003	14	1	3	895	3	EIF2AK2	2	37353552	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	684986	37353552	205845821	95	98983											
TTC7A	57217	broad.mit.edu	37	chr2	47278950	47278950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccatgtcagagctgactatgCcctcttcggtcctgaagcag	8	10	10	13	1	2	3	1	2	1	1	4	3	3	3	3	1	3	2	3	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:47278950C>T	uc002rvo.2	+	18	2451	c.2083C>T	c.(2083-2085)CCC>TCC	p.P695S	TTC7A_uc002rvm.2_Missense_Mutation_p.P661S|TTC7A_uc010fbb.2_Missense_Mutation_p.P719S|TTC7A_uc010fbc.2_Missense_Mutation_p.P341S|TTC7A_uc002rvp.2_Missense_Mutation_p.P576S|TTC7A_uc002rvq.2_Missense_Mutation_p.P435S|TTC7A_uc002rvr.2_Missense_Mutation_p.P144S	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	695							binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			GCTGACTATGCCCTCTTCGGT	0.657													22	23					0	0	0.002299	0	0		T	47278950	T	T	47278950	3	4	202	1	0	0	0	0	1	0	0	0	16738	739	26	2	2153	2	TTC7A	2	47278950	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	9925398	47278950	195920423	96	98984											
BCL11A	53335	broad.mit.edu	37	chr2	60688523	60688523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagccgtagtccaccctctcGctctccgtcagctcctcctc	5	10	6	20	3	3	0	1	0	2	0	9	0	6	0	6	0	2	3	6	0	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:60688523G>A	uc002sae.1	-	4	1752	c.1524C>T	c.(1522-1524)AGC>AGT	p.S508S	BCL11A_uc002sab.2_Silent_p.S508S|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Silent_p.S177S|BCL11A_uc010ypj.1_Silent_p.S474S|BCL11A_uc002sad.1_Silent_p.S356S|BCL11A_uc002saf.1_Silent_p.S474S	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	508	Glu-rich.				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CCACCCTCTCGCTCTCCGTCA	0.463			T	IGH@	B-CLL								5	9					0	0	0.00308	0	0		A	60688523	A	A	60688523	2	1	202	1	0	0	0	0	0	0	0	1	1364	1078	38	1		1	BCL11A	2	60688523	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	13409573	60688523	182510850	97	98985											
CTNNA2	1496	broad.mit.edu	37	chr2	80136848	80136848	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctgcacgcgagacgaccgGcgcgagaggatcgtggcgga	8	4	17	12	8	0	2	0	0	0	2	2	7	1	4	2	4	1	1	2	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:80136848G>A	uc010ysh.1	+	6	986	c.981G>A	c.(979-981)CGG>CGA	p.R327R	CTNNA2_uc010yse.1_Silent_p.R327R|CTNNA2_uc010ysf.1_Silent_p.R327R|CTNNA2_uc010ysg.1_Silent_p.R327R	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	327					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						GAGACGACCGGCGCGAGAGGA	0.637													14	49					0	0	0.006122	0	0		A	80136848	A	A	80136848	2	1	202	1	0	0	0	0	0	0	0	1	4016	1190	42	2		2	CTNNA2	2	80136848	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	19448325	80136848	163062525	98	98986											
POLR1A	25885	broad.mit.edu	37	chr2	86305045	86305045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatgactgagcgcgcagcGtagtccactcgctttcccat	8	9	10	14	4	0	3	0	2	0	1	3	3	2	3	2	0	2	3	2	0	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:86305045G>A	uc002sqs.2	-	11	1696	c.1317C>T	c.(1315-1317)TAC>TAT	p.Y439Y		NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	439				YA -> ST (in Ref. 1; AAC99959).	termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						AGCGCGCAGCGTAGTCCACTC	0.358													8	150					0	0	0.006214	0	0		A	86305045	A	A	86305045	2	1	202	1	0	0	0	0	0	0	0	1	12228	1140	40	1		1	POLR1A	2	86305045	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6168197	86305045	156894328	99	98987											
ZAP70	7535	broad.mit.edu	37	chr2	98351799	98351799	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatgcgcgaggcgcagatcaTgcaccagctggacaacccct	10	5	12	14	3	1	1	1	0	0	1	1	4	1	2	3	2	4	3	3	2	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:98351799T>C	uc002syd.1	+	10	1376	c.1169T>C	c.(1168-1170)ATG>ACG	p.M390T	ZAP70_uc010yvf.1_3'UTR|ZAP70_uc002sye.1_Missense_Mutation_p.M280T|ZAP70_uc002syf.1_Missense_Mutation_p.M83T	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	390	Protein kinase.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GCGCAGATCATGCACCAGCTG	0.652													6	156					0	0	0.001984	0	0		C	98351799	C	C	98351799	3	2	202	1	0	0	0	0	1	0	0	0	17540	1464	51	3	1199	3	ZAP70	2	98351799	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	12046754	98351799	144847574	100	98988											
POU3F3	5455	broad.mit.edu	37	chr2	105472966	105472966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagcagttcaagcagcggcGcatcaagctgggcttcacgc	10	6	12	13	3	3	0	3	0	0	0	3	0	3	0	0	2	4	6	0	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:105472966G>A	uc010ywg.1	+	1	998	c.998G>A	c.(997-999)CGC>CAC	p.R333H		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	333	POU-specific.				metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						AAGCAGCGGCGCATCAAGCTG	0.652													8	59					0	0	0.008291	0	0		A	105472966	A	A	105472966	3	1	202	1	0	0	0	0	1	0	0	0	12295	1087	38	1	1000	1	POU3F3	2	105472966	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7121167	105472966	137726407	101	98989											
IL1F6	27179	broad.mit.edu	37	chr2	113765559	113765559	+	Missense_Mutation	SNP	A	G	G	1	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	ctgaaggaggctgtcctctcAtccttacccaagaactgggg	9	9	11	12	0	1	2	1	1	1	1	4	3	3	3	3	4	2	1	3	4	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:113765559A>G	uc010yxr.1	+	4	415	c.415A>G	c.(415-417)ATC>GTC	p.I139V		NM_014440	NP_055255	Q9UHA7	IL36A_HUMAN	interleukin 1 family, member 6 (epsilon)	139					immune response|inflammatory response	extracellular space	cytokine activity|interleukin-1 receptor binding				0						CTGTCCTCTCATCCTTACCCA	0.512													5	23					0	0	0.001984	0	0		G	113765559	G	G	113765559	3	3	202	1	0	0	0	0	1	0	0	0	7670	217	8	3	429	3	IL1F6	2	113765559	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	8292593	113765559	129433814	102	98990											
PRPF40A	55660	broad.mit.edu	37	chr2	153519623	153519623	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaaatgcagattcttttcGtttcatcttccgagcctctt	7	18	5	11	2	4	1	1	0	3	1	6	2	5	1	2	0	2	2	2	0	2	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:153519623G>A	uc002tyh.3	-	20	2174	c.2152C>T	c.(2152-2154)CGA>TGA	p.R718*	PRPF40A_uc002tyg.3_Nonsense_Mutation_p.R174*|PRPF40A_uc010zcd.1_Nonsense_Mutation_p.R669*	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	745	FF 5.				mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						GATTCTTTTCGTTTCATCTTC	0.338													4	8					0	0	0.000602	0	0		A	153519623	A	A	153519623	4	1	202	1	0	0	0	0	0	1	0	0	12593	1153	40	1	668	1	PRPF40A	2	153519623	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	39754064	153519623	89679750	103	98991											
TANC1	85461	broad.mit.edu	37	chr2	160035383	160035383	+	Missense_Mutation	SNP	A	G	G	1	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	ctctgagctctatttgcttcAgtgcaacatgaagttcatga	10	14	8	9	0	4	3	2	3	2	0	4	3	4	3	0	0	4	4	0	0	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:160035383A>G	uc002uag.2	+	14	2493	c.2219A>G	c.(2218-2220)CAG>CGG	p.Q740R	TANC1_uc010fol.1_Missense_Mutation_p.Q634R|TANC1_uc010zcm.1_Missense_Mutation_p.Q732R|TANC1_uc010fom.1_Missense_Mutation_p.Q546R|TANC1_uc002uai.1_RNA	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	740						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						TATTTGCTTCAGTGCAACATG	0.552													28	152					0	0	0.007291	0	0		G	160035383	G	G	160035383	3	3	202	1	0	0	0	0	1	0	0	0	15569	188	7	3	2265	3	TANC1	2	160035383	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	6515760	160035383	83163990	104	98992											
IFIH1	64135	broad.mit.edu	37	chr2	163128888	163128888	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctctcatcagctctggctcGaccacgggcctgaaaacaca	10	7	9	15	2	3	1	2	1	2	0	5	2	3	1	2	2	2	3	2	2	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:163128888G>A	uc002uce.2	-	13	2686	c.2464C>T	c.(2464-2466)CGA>TGA	p.R822*		NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	822	Helicase C-terminal.				detection of virus|innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|regulation of apoptosis	cytosol|nucleus	ATP binding|DNA binding|double-stranded RNA binding|helicase activity|protein binding|ribonucleoprotein binding|zinc ion binding			ovary(1)	1						GCTCTGGCTCGACCACGGGCC	0.428													6	23					0	0	0.004482	0	0		A	163128888	A	A	163128888	4	1	202	1	0	0	0	0	0	1	0	0	7536	1066	37	1	629	1	IFIH1	2	163128888	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3093505	163128888	80070485	105	98993											
FIGN	55137	broad.mit.edu	37	chr2	164466291	164466291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccagaaaagccttctgtgCgctggacgagcagtgcaaac	11	7	12	11	2	1	1	0	0	1	1	2	3	2	2	2	1	5	3	2	1	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:164466291C>T	uc002uck.1	-	3	2362	c.2051G>A	c.(2050-2052)CGC>CAC	p.R684H		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	684						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						GCCTTCTGTGCGCTGGACGAG	0.522													19	14					0	0	0.008871	0	0		T	164466291	T	T	164466291	3	4	202	1	0	0	0	0	1	0	0	0	5905	768	27	1	232	1	FIGN	2	164466291	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1337403	164466291	78733082	106	98994											
DYNC1I2	1781	broad.mit.edu	37	chr2	172563873	172563873	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agccaagactctggagatggCgccgtgggatctaggtacag	10	7	15	9	2	2	2	0	0	2	2	2	4	2	3	2	4	2	1	2	4	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:172563873C>T	uc002uha.1	+	5	486	c.321C>T	c.(319-321)GGC>GGT	p.G107G	DYNC1I2_uc002uhc.2_Silent_p.G101G|DYNC1I2_uc002uhb.1_Silent_p.G101G|DYNC1I2_uc010zds.1_Silent_p.G119G|DYNC1I2_uc002uhd.1_Silent_p.G101G|DYNC1I2_uc002uhe.1_Silent_p.G107G|DYNC1I2_uc002uhf.1_Silent_p.G101G|DYNC1I2_uc010zdt.1_Silent_p.G119G|DYNC1I2_uc002uhg.1_Silent_p.G22G	NM_001378	NP_001369	Q13409	DC1I2_HUMAN	dynein, cytoplasmic 1, intermediate chain 2	107					G2/M transition of mitotic cell cycle|interspecies interaction between organisms|microtubule-based movement|transport	centrosome|cytosol|dynein complex|microtubule|vesicle	microtubule motor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.198)			CTGGAGATGGCGCCGTGGGAT	0.413													13	27					0	0	0.001855	0	0		T	172563873	T	T	172563873	2	4	202	1	0	0	0	0	0	0	0	1	4849	755	27	1		1	DYNC1I2	2	172563873	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8097582	172563873	70635500	107	98995											
SLC25A12	8604	broad.mit.edu	37	chr2	172647993	172647993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cagctgcaagaagatttaaaCctcccacgtgtccattttca	12	11	6	12	1	1	2	1	0	0	2	3	2	3	2	3	0	3	2	3	0	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:172647993C>T	uc002uhh.2	-	15	1642	c.1553G>A	c.(1552-1554)GGT>GAT	p.G518D	SLC25A12_uc010fqh.2_Missense_Mutation_p.G411D	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	518	Solcar 3.				gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	AAGATTTAAACCTCCCACGTG	0.378													9	38					0	0	0.000978	0	0		T	172647993	T	T	172647993	3	4	202	1	0	0	0	0	1	0	0	0	14499	507	18	4	499	4	SLC25A12	2	172647993	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	84120	172647993	70551380	108	98996											
TTN	7273	broad.mit.edu	37	chr2	179440987	179440987	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttctgagggcggttcctgtgGtatcttttatccaggcctcg	4	15	12	10	2	2	1	0	1	2	0	5	1	4	1	3	4	0	2	3	4	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:179440987G>A	uc010zfg.1	-	275	62392	c.62168C>T	c.(62167-62169)ACC>ATC	p.T20723I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T14418I|TTN_uc010zfi.1_Missense_Mutation_p.T14351I|TTN_uc010zfj.1_Missense_Mutation_p.T14226I|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21650							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GGTTCCTGTGGTATCTTTTAT	0.453													5	12					0	0	0.001984	0	0		A	179440987	A	A	179440987	3	1	202	1	0	0	0	0	1	0	0	0	16761	1261	44	4	38255	4	TTN	2	179440987	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6792994	179440987	63758386	109	98997											
DNAH7	56171	broad.mit.edu	37	chr2	196822106	196822106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggctccagatacagccacGtggcttggactttgagccat	8	10	12	11	1	0	2	0	1	0	1	1	3	1	3	3	3	3	2	3	3	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:196822106G>A	uc002utj.3	-	19	3058	c.2957C>T	c.(2956-2958)ACG>ATG	p.T986M		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	986	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						ATACAGCCACGTGGCTTGGAC	0.493													15	23					0	0	0.003163	0	0		A	196822106	A	A	196822106	3	1	202	1	0	0	0	0	1	0	0	0	4612	1145	40	1	9305	1	DNAH7	2	196822106	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	17381119	196822106	46377267	110	98998											
CDK15	65061	broad.mit.edu	37	chr2	202671472	202671472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggcgaggcacacagctgtCggaggagtcagcctgagacc	10	4	16	11	2	1	1	1	1	0	1	2	6	1	3	2	4	2	2	2	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:202671472C>T	uc002uyt.2	+	1	134	c.85C>T	c.(85-87)CGG>TGG	p.R29W	CDK15_uc010ftm.2_Intron|CDK15_uc002uys.2_Intron|CDK15_uc010ftn.1_Intron|CDK15_uc010fto.1_Missense_Mutation_p.R29W	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	29							ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	ACACAGCTGTCGGAGGAGTCA	0.507													4	21					0	0	0.000602	0	0		T	202671472	T	T	202671472	3	4	202	1	0	0	0	0	1	0	0	0	3134	899	31	1		1	CDK15	2	202671472	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5849366	202671472	40527901	111	98999											
ADAM23	8745	broad.mit.edu	37	chr2	207413068	207413068	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggttgaaaagaaggaagaGagcagtgaatgtgagtgtgg	14	8	18	1	0	0	5	0	3	0	2	0	7	0	6	0	3	1	2	0	3	5	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:207413068G>T	uc002vbq.2	+	8	1080	c.857G>T	c.(856-858)AGA>ATA	p.R286I	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	286					cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		AGAAGGAAGAGAGCAGTGAAT	0.413													11	19					0.000219431	0.000226205	0.00245	1	0		T	207413068	T	T	207413068	3	4	202	1	0	0	0	0	1	0	0	0	245	942	33	5	887	5	ADAM23	2	207413068	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4741596	207413068	35786305	112	99000											
ADAM23	8745	broad.mit.edu	37	chr2	207459518	207459518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctatgtagaagatggaacGccatgtggcccgtctatgat	10	10	13	8	2	1	3	0	1	1	2	1	4	1	4	2	3	1	2	2	3	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:207459518G>A	uc002vbq.2	+	23	2359	c.2136G>A	c.(2134-2136)ACG>ACA	p.T712T	ADAM23_uc010ziv.1_RNA	NM_003812	NP_003803	O75077	ADA23_HUMAN	ADAM metallopeptidase domain 23 preproprotein	712	Extracellular (Potential).				cell adhesion|central nervous system development|proteolysis	extracellular region|integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			skin(2)|ovary(1)	3				LUSC - Lung squamous cell carcinoma(261;0.0961)|Lung(261;0.182)|Epithelial(149;0.205)		AAGATGGAACGCCATGTGGCC	0.428													10	34					0	0	0.000978	0	0		A	207459518	A	A	207459518	2	1	202	1	0	0	0	0	0	0	0	1	245	1074	38	1		1	ADAM23	2	207459518	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	46450	207459518	35739855	113	99001											
ABCA12	26154	broad.mit.edu	37	chr2	215809791	215809791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatgatcttccagaggtgcCgtttcgacttcggatccatg	9	12	10	10	3	1	2	0	1	1	1	5	4	3	3	3	2	1	1	3	2	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:215809791C>T	uc002vew.2	-	49	7497	c.7277G>A	c.(7276-7278)CGG>CAG	p.R2426Q	ABCA12_uc002vev.2_Missense_Mutation_p.R2108Q|ABCA12_uc010zjn.1_Missense_Mutation_p.R1353Q	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	2426	ABC transporter 2.				cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		CCAGAGGTGCCGTTTCGACTT	0.373													6	18					0	0	0.001984	0	0		T	215809791	T	T	215809791	3	4	202	1	0	0	0	0	1	0	0	0	30	652	23	1	530	1	ABCA12	2	215809791	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8350273	215809791	27389582	114	99002											
ABCA12	26154	broad.mit.edu	37	chr2	215914482	215914482	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacaatgtatcctgaataGctgtcacatagttctcttcg	10	14	6	11	1	2	1	1	1	1	0	6	1	4	1	2	0	1	3	2	0	5	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:215914482G>A	uc002vew.2	-	6	781	c.561C>T	c.(559-561)AGC>AGT	p.S187S	ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	187					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		ATCCTGAATAGCTGTCACATA	0.328													4	9					0	0	0.009096	0	0		A	215914482	A	A	215914482	2	1	202	1	0	0	0	0	0	0	0	1	30	962	34	2		2	ABCA12	2	215914482	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	104691	215914482	27284891	115	99003											
IHH	3549	broad.mit.edu	37	chr2	219920419	219920419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctctcagcctgtgaggctcgCggtccaggaaaatgagcaca	10	7	12	12	2	1	2	1	2	1	0	4	3	2	3	2	3	2	2	2	3	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:219920419C>T	uc002vjo.1	-	3	746	c.746G>A	c.(745-747)CGC>CAC	p.R249H		NM_002181	NP_002172	Q14623	IHH_HUMAN	Indian hedgehog homolog precursor	249					cell-cell signaling|intein-mediated protein splicing|proteolysis	extracellular space|plasma membrane	cholesterol binding|patched binding|peptidase activity			breast(1)	1		Renal(207;0.0915)		Epithelial(149;1.13e-06)|all cancers(144;0.000188)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GTGAGGCTCGCGGTCCAGGAA	0.647													19	38					0	0	0.001882	0	0		T	219920419	T	T	219920419	3	4	202	1	0	0	0	0	1	0	0	0	7623	768	27	1	493	1	IHH	2	219920419	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4005937	219920419	23278954	116	99004											
KIAA1486	57624	broad.mit.edu	37	chr2	226447162	226447162	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtatttccccccgccccCgtgcattgctcccccaactc	4	10	6	21	2	0	0	0	0	0	0	3	0	2	0	7	1	3	3	7	1	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:226447162C>T	uc002voe.2	+	4	1204	c.1029C>T	c.(1027-1029)CCC>CCT	p.P343P	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.P113P	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	343	Pro-rich.									ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		CCCCCGCCCCCGTGCATTGCT	0.632													19	41					0	0	0.00278	0	0		T	226447162	T	T	226447162	2	4	202	1	0	0	0	0	0	0	0	1	8253	639	23	1		1	KIAA1486	2	226447162	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6526743	226447162	16752211	117	99005											
IRS1	3667	broad.mit.edu	37	chr2	227662789	227662791	+	In_Frame_Del	DEL	GAA	-	-																															gcagaacggcccacctcgatGaagaagaagttttccgagtg																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:227662789_227662791delGAA	uc002voh.3	-	1	716_718	c.664_666delTTC	c.(664-666)TTCdel	p.F222del		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	222	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		CCACCTCGATGAAGAAGAAGTTT	0.606											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	45	92	---	---	---	---						.	-	227662791	-	-	227662789	7	5	202	1	0	1	0	1	0	0	0	0	7856	1281	45	0	3066	0	IRS1	2	227662789	In_Frame_Del	DEL	GAA	TCGA-HJ-7597-01A-21D-2201-08	1215627	227662789	15536584	118	99006											
SP140	11262	broad.mit.edu	37	chr2	231150516	231150516	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagtgaaaagaaggcgaaCgtgaatctgaaagacctttc	15	8	10	8	2	1	5	0	3	1	2	3	6	2	5	2	1	1	0	2	1	6	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:231150516C>T	uc002vql.2	+	17	1729	c.1614C>T	c.(1612-1614)AAC>AAT	p.N538N	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Silent_p.N424N|SP140_uc002vqm.2_Silent_p.N478N|SP140_uc010fxl.2_Silent_p.N511N	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	538					defense response	cytoplasm|nuclear envelope|nucleolus|nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Renal(207;0.0112)|all_lung(227;0.0221)|Lung NSC(271;0.0977)|all_hematologic(139;0.103)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		AGAAGGCGAACGTGAATCTGA	0.448													7	54					0	0	0.00308	0	0		T	231150516	T	T	231150516	2	4	202	1	0	0	0	0	0	0	0	1	14987	535	19	1		1	SP140	2	231150516	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3487727	231150516	12048857	119	99007											
GPR55	9290	broad.mit.edu	37	chr2	231775308	231775308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcaccagtagcgggtaacGgatggccaagaaccggtcca	11	5	13	12	3	1	1	1	0	0	1	2	2	2	2	4	4	3	3	4	4	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:231775308G>A	uc002vrg.2	-	2	563	c.370C>T	c.(370-372)CGT>TGT	p.R124C	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Missense_Mutation_p.R124C	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	124	Cytoplasmic (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		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)		AGCGGGTAACGGATGGCCAAG	0.582													5	30					0	0	0.001984	0	0		A	231775308	A	A	231775308	3	1	202	1	0	0	0	0	1	0	0	0	6714	1116	39	1	593	1	GPR55	2	231775308	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	624792	231775308	11424065	120	99008											
ARL4C	10123	broad.mit.edu	37	chr2	235405084	235405084	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgctcagcttgatcttctcGgtgttgaagccgatggtggg	5	14	14	8	2	3	2	1	2	2	0	4	3	3	2	1	3	3	3	1	3	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:235405084G>A	uc002vvn.2	-	1	610	c.147C>T	c.(145-147)ACC>ACT	p.T49T	ARL4C_uc002vvm.3_Silent_p.T49T	NM_005737	NP_005728	P56559	ARL4C_HUMAN	ADP-ribosylation factor-like 4C	49					endocytic recycling|small GTPase mediated signal transduction	cytoplasm|filopodium|nucleus|plasma membrane	alpha-tubulin binding|GTP binding|GTPase activity			skin(1)	1		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)		TGATCTTCTCGGTGTTGAAGC	0.612													13	57					0	0	0.00499	0	0		A	235405084	A	A	235405084	2	1	202	1	0	0	0	0	0	0	0	1	938	1103	39	1		1	ARL4C	2	235405084	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3629776	235405084	7794289	121	99009											
COL6A3	1293	broad.mit.edu	37	chr2	238280505	238280505	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaccgagaacacatattcGgggctcagcgagatcttcac	11	8	9	13	3	4	2	3	0	1	2	5	4	4	2	1	2	2	1	1	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:238280505G>A	uc002vwl.2	-	9	4440	c.4155C>T	c.(4153-4155)CCC>CCT	p.P1385P	COL6A3_uc002vwo.2_Silent_p.P1179P|COL6A3_uc010znj.1_Silent_p.P778P|COL6A3_uc002vwq.2_Silent_p.P1179P|COL6A3_uc002vwr.2_Silent_p.P978P	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1385	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ACACATATTCGGGGCTCAGCG	0.617													23	52					0	0	0.002096	0	0		A	238280505	A	A	238280505	2	1	202	1	0	0	0	0	0	0	0	1	3704	1103	39	1		1	COL6A3	2	238280505	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2875421	238280505	4918868	122	99010											
ESPNL	339768	broad.mit.edu	37	chr2	239040289	239040289	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccagcagggcagcttcaaCggtgaggacatctgcggcta	9	7	13	12	2	2	1	1	1	1	0	3	2	3	2	1	4	4	4	1	4	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:239040289C>T	uc002vxq.3	+	9	3044	c.2934C>T	c.(2932-2934)AAC>AAT	p.N978N	ESPNL_uc010fyw.2_Silent_p.N674N	NM_194312	NP_919288	Q6ZVH7	ESPNL_HUMAN	espin-like	978										pancreas(1)	1		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;4.71e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.02e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.63e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000109)|Lung(119;0.0108)|LUSC - Lung squamous cell carcinoma(224;0.0253)		GCAGCTTCAACGGTGAGGACA	0.637													8	33					0	0	0.006214	0	0		T	239040289	T	T	239040289	2	4	202	1	0	0	0	0	0	0	0	1	5263	535	19	1		1	ESPNL	2	239040289	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	759784	239040289	4159084	123	99011											
HDAC4	9759	broad.mit.edu	37	chr2	240085512	240085512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttacccgtaccagtagcGagggtcgctggaaatgcagt	10	8	12	11	3	0	0	0	0	0	0	1	2	0	1	2	2	4	4	2	2	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:240085512G>A	uc002vyk.3	-	6	1390	c.598C>T	c.(598-600)CGC>TGC	p.R200C	HDAC4_uc010fyz.1_Missense_Mutation_p.R195C|HDAC4_uc010zoa.1_Missense_Mutation_p.R195C|HDAC4_uc010fza.2_Missense_Mutation_p.R200C|HDAC4_uc010fyy.2_Missense_Mutation_p.R152C|HDAC4_uc010znz.1_Missense_Mutation_p.R83C	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	200	Interaction with MEF2A.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		TACCAGTAGCGAGGGTCGCTG	0.567													11	65					0	0	0.000978	0	0		A	240085512	A	A	240085512	3	1	202	1	0	0	0	0	1	0	0	0	7025	1058	37	1	2744	1	HDAC4	2	240085512	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1045223	240085512	3113861	124	99012											
GPR35	2859	broad.mit.edu	37	chr2	241570285	241570285	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagccaggactctctgtgcGtgaccctcgcctaagaggcg	9	7	12	13	3	1	2	0	1	1	1	3	3	1	3	3	2	2	0	3	2	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:241570285G>A	uc002vzs.1	+	1	1491	c.916G>A	c.(916-918)GTG>ATG	p.V306M	GPR35_uc010fzh.1_Missense_Mutation_p.V337M|GPR35_uc010fzi.1_Missense_Mutation_p.V337M	NM_005301	NP_005292	Q9HC97	GPR35_HUMAN	G protein-coupled receptor 35	306	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(2)|pancreas(1)	3		all_epithelial(40;7.49e-12)|Breast(86;0.000148)|Renal(207;0.00571)|Ovarian(221;0.104)|all_neural(83;0.107)|all_hematologic(139;0.182)|all_lung(227;0.186)|Melanoma(123;0.238)		Epithelial(32;5.29e-32)|all cancers(36;1.38e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.13e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.02e-06)|Lung(119;0.00163)|Colorectal(34;0.00463)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.031)		CTCTCTGTGCGTGACCCTCGC	0.642													36	53					0	0	0.004289	0	0		A	241570285	A	A	241570285	3	1	202	1	0	0	0	0	1	0	0	0	6705	1145	40	1	918	1	GPR35	2	241570285	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1484773	241570285	1629088	125	99013											
PASK	23178	broad.mit.edu	37	chr2	242080005	242080005	+	Silent	SNP	T	C	C	0	1	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	acaggggccggaagcagaggTgaggaccaccctgaggacag	12	2	17	10	1	0	3	0	2	0	1	0	6	0	6	3	6	1	1	3	6	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr2:242080005T>C	uc002wao.1	-	3	452	c.360A>G	c.(358-360)TCA>TCG	p.S120S	PASK_uc010zol.1_Intron|PASK_uc010zom.1_Silent_p.S120S|PASK_uc010fzl.1_Silent_p.S120S|PASK_uc010zon.1_Intron|PASK_uc002waq.2_Silent_p.S120S	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	120	PAS 1.				regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		GAAGCAGAGGTGAGGACCACC	0.612													16	23					0	0	0.007413	0	0		C	242080005	C	C	242080005	2	2	202	1	0	0	0	0	0	0	0	1	11491	1683	59	3		3	PASK	2	242080005	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	509720	242080005	1119368	126	99014											
XPC	7508	broad.mit.edu	37	chr3	14220065	14220065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccggccgcgcgtttccgagCcatgttgcttgtctgggcaa	4	10	14	13	5	1	0	0	0	1	0	2	1	2	0	4	2	2	4	4	2	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:14220065C>T	uc011ave.1	-	1	108	c.4G>A	c.(4-6)GCT>ACT	p.A2T	XPC_uc011avf.1_5'UTR|XPC_uc011avg.1_Missense_Mutation_p.A2T|LSM3_uc003byn.2_5'Flank	NM_004628	NP_004619	Q01831	XPC_HUMAN	xeroderma pigmentosum, complementation group C	2					nucleotide-excision repair, DNA damage recognition|nucleotide-excision repair, DNA damage removal	cytoplasm|nucleoplasm|XPC complex	bubble DNA binding|damaged DNA binding|loop DNA binding|protein binding|single-stranded DNA binding			ovary(2)|breast(1)	3						CGTTTCCGAGCCATGTTGCTT	0.706			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		NER	Xeroderma_Pigmentosum				15	51					0	0	0.004007	0	0		T	14220065	T	T	14220065	3	4	202	1	0	0	0	0	1	0	0	0	17467	739	26	2	1831	2	XPC	3	14220065	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		14220065	183802365	127	99015											
AZI2	64343	broad.mit.edu	37	chr3	28382055	28382055	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggagtcactgtatctctcttAtgggctttttcatgattcag	7	17	9	8	0	5	1	3	1	2	0	6	2	5	2	0	2	0	2	0	2	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:28382055A>G	uc003ceb.2	-	2	586	c.54T>C	c.(52-54)CAT>CAC	p.H18H	AZI2_uc003cec.2_5'UTR|AZI2_uc003ced.2_Silent_p.H18H|AZI2_uc003cee.3_Silent_p.H18H|AZI2_uc003ceg.2_Silent_p.H18H|AZI2_uc011axd.1_Silent_p.H18H|AZI2_uc003cef.2_Silent_p.H18H	NM_022461	NP_071906	Q9H6S1	AZI2_HUMAN	5-azacytidine induced 2 isoform a	18						mitochondrion|plasma membrane				ovary(2)	2						TATCTCTCTTATGGGCTTTTT	0.358													3	32					0	0	0.009096	0	0		G	28382055	G	G	28382055	2	3	202	1	0	0	0	0	0	0	0	1	1242	446	16	3		3	AZI2	3	28382055	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	14161990	28382055	169640375	128	99016											
VILL	50853	broad.mit.edu	37	chr3	38039623	38039623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtggtcctggagttggcGacccccccactgacccagga	6	7	13	15	1	0	1	0	1	0	0	1	4	1	3	5	5	0	1	5	5	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:38039623G>A	uc003chj.2	+	8	1093	c.807G>A	c.(805-807)GCG>GCA	p.A269A	VILL_uc003chk.1_Silent_p.A269A|VILL_uc003chl.2_Silent_p.A269A|VILL_uc010hgu.2_Silent_p.A99A	NM_015873	NP_056957	O15195	VILL_HUMAN	villin-like protein	269	Gelsolin-like 3.				actin filament capping|cytoskeleton organization	actin cytoskeleton	actin binding|structural constituent of cytoskeleton				0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		TGGAGTTGGCGACCCCCCCAC	0.637													5	19					0	0	0.004482	0	0		A	38039623	A	A	38039623	2	1	202	1	0	0	0	0	0	0	0	1	17191	1045	37	1		1	VILL	3	38039623	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	9657568	38039623	159982807	129	99017											
DLEC1	9940	broad.mit.edu	37	chr3	38159361	38159361	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cactacagagatcccacactActtccggcttatggtctcca	10	10	6	15	1	1	1	0	0	1	1	4	2	3	1	3	2	2	1	3	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:38159361A>G	uc003cho.1	+	33	4571	c.4550A>G	c.(4549-4551)TAC>TGC	p.Y1517C	DLEC1_uc003chp.1_Missense_Mutation_p.Y1517C|DLEC1_uc010hgv.1_Missense_Mutation_p.Y1520C|DLEC1_uc003chr.1_Missense_Mutation_p.Y588C|DLEC1_uc003chs.1_Missense_Mutation_p.Y74C	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1517					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		ATCCCACACTACTTCCGGCTT	0.597											OREG0015476	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	124					0	0	0.00874	0	0		G	38159361	G	G	38159361	3	3	202	1	0	0	0	0	1	0	0	0	4558	391	14	3	4680	3	DLEC1	3	38159361	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	119738	38159361	159863069	130	99018											
DLEC1	9940	broad.mit.edu	37	chr3	38163206	38163206	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggacctgctttgtgagccagCagcgagtccgggaggtctac	7	8	15	11	2	1	1	0	1	1	0	2	4	2	3	3	3	5	2	3	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:38163206C>T	uc003cho.1	+	35	4975	c.4954C>T	c.(4954-4956)CAG>TAG	p.Q1652*	DLEC1_uc003chp.1_Nonsense_Mutation_p.Q1652*|DLEC1_uc010hgv.1_Nonsense_Mutation_p.Q1655*|DLEC1_uc003chr.1_Nonsense_Mutation_p.Q723*|DLEC1_uc003chs.1_Nonsense_Mutation_p.Q209*	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1652					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		TGTGAGCCAGCAGCGAGTCCG	0.632													14	69					0	0	0.004007	0	0		T	38163206	T	T	38163206	4	4	202	1	0	0	0	0	0	1	0	0	4558	711	25	2	5092	2	DLEC1	3	38163206	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3845	38163206	159859224	131	99019											
XIRP1	165904	broad.mit.edu	37	chr3	39227496	39227496	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgggtcaaaggtcctcacGggatgagcggtgtagatgcc	8	8	17	8	2	2	2	2	1	0	1	3	3	3	3	2	5	2	1	2	5	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:39227496G>A	uc003cjk.1	-	2	3662	c.3441C>T	c.(3439-3441)CCC>CCT	p.P1147P	XIRP1_uc003cji.2_Intron|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1147							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		AGGTCCTCACGGGATGAGCGG	0.622													23	58					0	0	0.00278	0	0		A	39227496	A	A	39227496	2	1	202	1	0	0	0	0	0	0	0	1	17455	1103	39	1		1	XIRP1	3	39227496	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1064290	39227496	158794934	132	99020											
KLHL18	23276	broad.mit.edu	37	chr3	47378111	47378111	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacaacagcccgcagccgcGttggcgtggctgtggtgaac	7	7	15	12	4	0	2	0	2	0	0	0	2	0	2	2	3	4	3	2	3	2	1	rs149811108		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:47378111G>A	uc003crd.2	+	7	1111	c.985G>A	c.(985-987)GTT>ATT	p.V329I	KLHL18_uc003crc.2_Missense_Mutation_p.V329I|KLHL18_uc011bav.1_Missense_Mutation_p.V217I|KLHL18_uc010hjq.1_Missense_Mutation_p.V185I	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	329	Kelch 1.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		CCGCAGCCGCGTTGGCGTGGC	0.567													15	47					0	0	0.004007	0	0		A	47378111	A	A	47378111	3	1	202	1	0	0	0	0	1	0	0	0	8389	1145	40	1	1011	1	KLHL18	3	47378111	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8150615	47378111	150644319	133	99021											
CELSR3	1951	broad.mit.edu	37	chr3	48698477	48698477	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctagcacagttatgtgtaCgcgcacagtggccgagcgcg	8	8	14	11	5	1	0	0	0	1	0	1	1	1	0	1	1	3	4	1	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:48698477C>T	uc003cul.2	-	1	1872	c.1591G>A	c.(1591-1593)GTA>ATA	p.V531I	CELSR3_uc003cuf.1_Missense_Mutation_p.V601I	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	531	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GTTATGTGTACGCGCACAGTG	0.642													9	46					0	0	0.000978	0	0		T	48698477	T	T	48698477	3	4	202	1	0	0	0	0	1	0	0	0	3226	536	19	1	8487	1	CELSR3	3	48698477	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1320366	48698477	149323953	134	99022											
ARIH2	10425	broad.mit.edu	37	chr3	48965171	48965171	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgatcccgaggagtaccaGttcacttgcttgacctacaa	10	12	8	11	1	1	2	1	2	0	0	2	4	2	3	3	1	3	3	3	1	3	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:48965171G>C	uc003cvb.2	+	3	492	c.180G>C	c.(178-180)CAG>CAC	p.Q60H	ARIH2_uc003cvc.2_Missense_Mutation_p.Q60H|ARIH2_uc003cvf.2_5'UTR|ARIH2_uc010hkl.2_Missense_Mutation_p.Q60H|ARIH2_uc003cvd.1_Missense_Mutation_p.Q60H|ARIH2_uc003cve.1_Missense_Mutation_p.Q60H	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	60	Asp/Glu-rich (acidic).				developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		AGGAGTACCAGTTCACTTGCT	0.507													4	61					0	0	0.009096	0	0		C	48965171	C	C	48965171	3	2	202	1	0	0	0	0	1	0	0	0	924	1020	36	5	182	5	ARIH2	3	48965171	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	266694	48965171	149057259	135	99023											
ARIH2	10425	broad.mit.edu	37	chr3	49008080	49008080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agactgccccatggttattcGggtacaggagcctagagctc	9	9	12	11	1	0	2	0	0	0	2	2	3	0	3	3	3	4	3	3	3	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:49008080G>A	uc003cvb.2	+	8	1025	c.713G>A	c.(712-714)CGG>CAG	p.R238Q	ARIH2_uc003cvc.2_Missense_Mutation_p.R238Q|ARIH2_uc003cvf.2_Missense_Mutation_p.R156Q|ARIH2_uc010hkl.2_Missense_Mutation_p.R238Q	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	238	IBR-type.				developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)		ATGGTTATTCGGGTACAGGAG	0.547													14	73					0	0	0.006122	0	0		A	49008080	A	A	49008080	3	1	202	1	0	0	0	0	1	0	0	0	924	1116	39	1	735	1	ARIH2	3	49008080	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	42909	49008080	149014350	136	99024											
BSN	8927	broad.mit.edu	37	chr3	49690307	49690307	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcgaggatgcctccccgacGgaggagctgaggcaggcggc	8	4	17	12	4	0	1	0	1	0	0	2	6	1	4	3	6	2	2	3	6	0	0	rs139466364		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:49690307G>A	uc003cxe.3	+	5	3432	c.3318G>A	c.(3316-3318)ACG>ACA	p.T1106T		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1106					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCTCCCCGACGGAGGAGCTGA	0.647													30	86					0	0	0.005524	0	0		A	49690307	A	A	49690307	2	1	202	1	0	0	0	0	0	0	0	1	1533	1103	39	1		1	BSN	3	49690307	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	682227	49690307	148332123	137	99025											
RAD54L2	23132	broad.mit.edu	37	chr3	51690036	51690036	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgtggccagtgttcgtcctGtgcagtccacccccatcccc	4	10	9	18	1	0	0	0	0	0	0	4	0	3	0	7	1	1	2	7	1	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:51690036G>A	uc011bdt.1	+	19	3201	c.3076G>A	c.(3076-3078)GTG>ATG	p.V1026M	RAD54L2_uc003dbh.2_Missense_Mutation_p.V615M|RAD54L2_uc011bdu.1_Missense_Mutation_p.V720M|RAD54L2_uc003dbj.2_Missense_Mutation_p.V352M	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	1026						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		TGTTCGTCCTGTGCAGTCCAC	0.507													35	130					0	0	0.006999	0	0		A	51690036	A	A	51690036	3	1	202	1	0	0	0	0	1	0	0	0	13019	1377	48	4	3146	4	RAD54L2	3	51690036	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1999729	51690036	146332394	138	99026											
RAD54L2	23132	broad.mit.edu	37	chr3	51696526	51696526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccgaccctgaggggctggCcaggcccgtctctcctgaca	5	6	12	18	2	1	2	0	2	1	0	3	3	2	2	6	4	0	1	6	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:51696526C>T	uc011bdt.1	+	22	3619	c.3494C>T	c.(3493-3495)GCC>GTC	p.A1165V	RAD54L2_uc003dbh.2_Missense_Mutation_p.A754V|RAD54L2_uc011bdu.1_Missense_Mutation_p.A859V|RAD54L2_uc003dbj.2_Missense_Mutation_p.A491V	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	1165						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GAGGGGCTGGCCAGGCCCGTC	0.607													19	68					0	0	0.006122	0	0		T	51696526	T	T	51696526	3	4	202	1	0	0	0	0	1	0	0	0	13019	739	26	2	3576	2	RAD54L2	3	51696526	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6490	51696526	146325904	139	99027											
WDR82	80335	broad.mit.edu	37	chr3	52292564	52292564	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcacataccatgttggaacaCgcactggcaaaagtcatgaa	15	8	8	10	1	2	1	2	1	0	0	2	2	2	2	1	2	2	3	1	2	5	2	rs141471824	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:52292564C>T	uc003ddl.2	-	8	1182	c.900G>A	c.(898-900)GCG>GCA	p.A300A	WDR82_uc003ddk.2_Silent_p.A225A	NM_025222	NP_079498	Q6UXN9	WDR82_HUMAN	WD repeat domain 82	300	WD 6.				histone H3-K4 methylation	chromatin|PTW/PP1 phosphatase complex|Set1C/COMPASS complex	protein binding				0				BRCA - Breast invasive adenocarcinoma(193;2.67e-05)|Kidney(197;0.00198)|KIRC - Kidney renal clear cell carcinoma(197;0.00223)|OV - Ovarian serous cystadenocarcinoma(275;0.246)		TGTTGGAACACGCACTGGCAA	0.493													29	88					0	0	0.00623	0	0		T	52292564	T	T	52292564	2	4	202	1	0	0	0	0	0	0	0	1	17357	523	19	1		1	WDR82	3	52292564	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	596038	52292564	145729866	140	99028											
PRICKLE2	166336	broad.mit.edu	37	chr3	64133273	64133273	+	Missense_Mutation	SNP	A	G	G	1	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	atatctggccctgcttcgggAggaatggccgccccaggagg	7	7	15	12	2	1	0	0	0	1	0	2	3	1	3	4	6	1	1	4	6	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:64133273A>G	uc003dmf.2	-	7	1479	c.893T>C	c.(892-894)CTC>CCC	p.L298P		NM_198859	NP_942559	Q7Z3G6	PRIC2_HUMAN	prickle-like 2	298	LIM zinc-binding 3.					cytoplasm|nuclear membrane	zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(201;0.136)		BRCA - Breast invasive adenocarcinoma(55;0.000971)|KIRC - Kidney renal clear cell carcinoma(15;0.00443)|Kidney(15;0.00497)		CTGCTTCGGGAGGAATGGCCG	0.582													25	89					0	0	0.004656	0	0		G	64133273	G	G	64133273	3	3	202	1	0	0	0	0	1	0	0	0	12509	304	11	3	1649	3	PRICKLE2	3	64133273	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	11840709	64133273	133889157	141	99029											
FRMD4B	23150	broad.mit.edu	37	chr3	69230203	69230203	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcccgctggtaccagccacGcaagtgctcggcaactaagg	9	5	13	14	3	0	0	0	0	0	0	1	0	0	0	3	4	4	5	3	4	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:69230203G>A	uc003dnv.2	-	21	2988	c.2698C>T	c.(2698-2700)CGT>TGT	p.R900C	FRMD4B_uc003dnw.2_RNA|FRMD4B_uc003dnu.2_Missense_Mutation_p.R552C|FRMD4B_uc011bga.1_Missense_Mutation_p.R744C	NM_015123	NP_055938	Q9Y2L6	FRM4B_HUMAN	FERM domain containing 4B	900						cytoplasm|cytoskeleton	binding			ovary(3)|central_nervous_system(1)	4		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)		TACCAGCCACGCAAGTGCTCG	0.572													11	31					0	0	0.000978	0	0		A	69230203	A	A	69230203	3	1	202	1	0	0	0	0	1	0	0	0	6066	1087	38	1	418	1	FRMD4B	3	69230203	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5096930	69230203	128792227	142	99030											
ROBO2	6092	broad.mit.edu	37	chr3	77671492	77671492	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcagatgatgatgccgacgaCgaagaggaagctttagaaat	15	7	13	6	3	0	5	0	2	0	3	0	9	0	6	1	1	2	2	1	1	4	2	rs2272164		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:77671492C>T	uc003dpy.3	+	23	4312	c.3669C>T	c.(3667-3669)GAC>GAT	p.D1223D	ROBO2_uc003dpz.2_Silent_p.D1227D|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.D1227D	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1223	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		ATGCCGACGACGAAGAGGAAG	0.502													10	29					0	0	0.000978	0	0		T	77671492	T	T	77671492	2	4	202	1	0	0	0	0	0	0	0	1	13539	535	19	1		1	ROBO2	3	77671492	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8441289	77671492	120350938	143	99031											
CGGBP1	8545	broad.mit.edu	37	chr3	88105087	88105087	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atacaaagcagtcttagaacGgtttcgagcaggtggtgctg	11	10	13	7	2	1	1	0	0	1	1	2	2	1	1	0	3	5	4	0	3	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:88105087G>C	uc003dqs.2	-	4	552	c.40C>G	c.(40-42)CGT>GGT	p.R14G	CGGBP1_uc003dqt.2_Missense_Mutation_p.R14G|CGGBP1_uc003dqu.2_Missense_Mutation_p.R14G	NM_001008390	NP_001008391	Q9UFW8	CGBP1_HUMAN	CGG triplet repeat binding protein 1	14					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding				0		Lung NSC(201;0.0283)		LUSC - Lung squamous cell carcinoma(29;0.00359)|Lung(72;0.00677)		GTCTTAGAACGGTTTCGAGCA	0.413													27	66					0	0	0.007291	0	0		C	88105087	C	C	88105087	3	2	202	1	0	0	0	0	1	0	0	0	3305	1116	39	5	467	5	CGGBP1	3	88105087	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	10433595	88105087	109917343	144	99032											
TMPRSS7	344805	broad.mit.edu	37	chr3	111795816	111795816	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgagaagaattgtggtccaCgagtactataacagtcagac	14	9	11	7	1	1	3	1	1	0	3	2	5	2	3	1	1	2	1	1	1	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:111795816C>T	uc010hqb.2	+	14	1841	c.1671C>T	c.(1669-1671)CAC>CAT	p.H557H	TMPRSS7_uc011bhr.1_Silent_p.H412H	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	683	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						TTGTGGTCCACGAGTACTATA	0.478													29	140					0	0	0.002445	0	0		T	111795816	T	T	111795816	2	4	202	1	0	0	0	0	0	0	0	1	16277	535	19	1		1	TMPRSS7	3	111795816	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	23690729	111795816	86226614	145	99033											
CCDC80	151887	broad.mit.edu	37	chr3	112358275	112358275	+	Missense_Mutation	SNP	A	C	C	1	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	gaggcggtagtagccttccgAggcatgaggggctgagatga	9	7	18	7	2	0	3	0	3	0	1	1	6	1	3	2	5	1	4	2	5	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:112358275A>C	uc003dzf.2	-	2	696	c.478T>G	c.(478-480)TCG>GCG	p.S160A	CCDC80_uc011bhv.1_Missense_Mutation_p.S160A|CCDC80_uc003dzg.2_Missense_Mutation_p.S160A|CCDC80_uc003dzh.1_Missense_Mutation_p.S160A	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	160										ovary(2)	2						TAGCCTTCCGAGGCATGAGGG	0.557													19	50					0	0	0.008871	0	0		C	112358275	C	C	112358275	3	2	202	1	0	0	0	0	1	0	0	0	2857	304	11	5	2402	5	CCDC80	3	112358275	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	562459	112358275	85664155	146	99034											
BOC	91653	broad.mit.edu	37	chr3	112969433	112969433	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtcaccgtccagcctgcGtccaccgtccagaagcccgg	7	5	11	18	4	1	1	1	0	0	1	4	1	4	1	7	2	3	0	7	2	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:112969433G>A	uc003dzx.2	+	4	750	c.129G>A	c.(127-129)GCG>GCA	p.A43A	BOC_uc010hqi.2_Silent_p.A43A|BOC_uc003dzy.2_Silent_p.A43A|BOC_uc003dzz.2_Silent_p.A43A|BOC_uc003dzw.1_Silent_p.A43A|BOC_uc003eaa.1_Silent_p.A43A	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	brother of CDO precursor	43	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|muscle cell differentiation|positive regulation of myoblast differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|pancreas(1)	6			Epithelial(53;0.227)			TCCAGCCTGCGTCCACCGTCC	0.552													18	72					0	0	0.010504	0	0		A	112969433	A	A	112969433	2	1	202	1	0	0	0	0	0	0	0	1	1482	1132	40	1		1	BOC	3	112969433	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	611158	112969433	85052997	147	99035											
KIAA2018	205717	broad.mit.edu	37	chr3	113379374	113379374	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcccgaaagagtgcttatAggaatggtggccttccctac	9	12	10	10	1	0	1	0	0	0	1	2	3	2	2	3	3	2	1	3	3	5	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:113379374A>G	uc003eam.2	-	7	1566	c.1155T>C	c.(1153-1155)CCT>CCC	p.P385P	KIAA2018_uc003eal.2_Silent_p.P329P	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	385					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GAGTGCTTATAGGAATGGTGG	0.428													18	26					0	0	0.010504	0	0		G	113379374	G	G	113379374	2	3	202	1	0	0	0	0	0	0	0	1	8284	407	15	3		3	KIAA2018	3	113379374	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	409941	113379374	84643056	148	99036											
PLXNA1	5361	broad.mit.edu	37	chr3	126730836	126730836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccctccacgcagatctaCgtgccagtgggagtggtaaa	9	8	12	12	2	1	1	0	0	1	1	2	2	2	2	3	2	3	2	3	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:126730836C>T	uc003ejg.2	+	9	2083	c.2079C>T	c.(2077-2079)TAC>TAT	p.Y693Y		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	716	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CGCAGATCTACGTGCCAGTGG	0.617													61	91					0	0	0.00361	0	0		T	126730836	T	T	126730836	2	4	202	1	0	0	0	0	0	0	0	1	12138	547	19	1		1	PLXNA1	3	126730836	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	13351462	126730836	71291594	149	99037											
EEFSEC	60678	broad.mit.edu	37	chr3	128060255	128060255	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcatctctgtggaaaagatAccgtatttccgggggcccct	8	11	10	12	2	2	1	1	0	1	1	4	2	3	2	4	3	1	1	4	3	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:128060255A>G	uc003eki.2	+	5	1004	c.966A>G	c.(964-966)ATA>ATG	p.I322M	EEFSEC_uc003ekj.2_Missense_Mutation_p.I267M	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	322						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						TGGAAAAGATACCGTATTTCC	0.582													33	29					0	0	0.004289	0	0		G	128060255	G	G	128060255	3	3	202	1	0	0	0	0	1	0	0	0	4937	381	14	3	984	3	EEFSEC	3	128060255	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1329419	128060255	69962175	150	99038											
PIK3R4	30849	broad.mit.edu	37	chr3	130447382	130447382	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagtaatcatgtgggacaAcaaaacatcgttggctttct	14	11	9	7	1	2	0	1	0	1	0	3	2	2	1	0	2	2	3	0	2	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:130447382A>G	uc003enj.2	-	6	2313	c.1732T>C	c.(1732-1734)TTG>CTG	p.L578L		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	578	HEAT 3.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						ATGTGGGACAACAAAACATCG	0.353													16	15					0	0	0.008871	0	0		G	130447382	G	G	130447382	2	3	202	1	0	0	0	0	0	0	0	1	11940	40	2	3		3	PIK3R4	3	130447382	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2387127	130447382	67575048	151	99039											
DZIP1L	199221	broad.mit.edu	37	chr3	137822357	137822357	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcattagcagctgctgcaGggtgctgatcatcttgcgac	7	11	12	11	1	2	1	1	1	1	0	2	2	2	1	0	1	7	6	0	1	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:137822357G>T	uc003erq.2	-	2	820	c.457C>A	c.(457-459)CTG>ATG	p.L153M	DZIP1L_uc003err.1_Missense_Mutation_p.L153M	NM_173543	NP_775814	Q8IYY4	DZI1L_HUMAN	DAZ interacting protein 1-like	153						intracellular	zinc ion binding			ovary(1)|pancreas(1)	2						AGCTGCTGCAGGGTGCTGATC	0.662													10	34					0.00829132	0.00844486	0.008291	1	0		T	137822357	T	T	137822357	3	4	202	1	0	0	0	0	1	0	0	0	4870	991	35	5	1915	5	DZIP1L	3	137822357	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7374975	137822357	60200073	152	99040											
PRR23B	389151	broad.mit.edu	37	chr3	138738987	138738987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtagagcccagcggctgagcCggttggggagtccatccgga	7	6	17	11	3	0	2	0	1	0	1	2	4	2	4	4	5	3	3	4	5	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:138738987C>T	uc003esy.1	-	1	782	c.517G>A	c.(517-519)GGC>AGC	p.G173S		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	173										breast(1)	1						GCGGCTGAGCCGGTTGGGGAG	0.652													15	47					0	0	0.00499	0	0		T	138738987	T	T	138738987	3	4	202	1	0	0	0	0	1	0	0	0	12617	652	23	1	284	1	PRR23B	3	138738987	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	916630	138738987	59283443	153	99041											
ATP1B3	483	broad.mit.edu	37	chr3	141632589	141632589	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgttgcatgtcagtttcctAtttcattacttcaagcatgc	9	17	6	9	0	3	0	3	0	0	0	4	0	4	0	1	0	4	4	1	0	3	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:141632589A>T	uc003eug.1	+	4	616	c.442A>T	c.(442-444)ATT>TTT	p.I148F	ATP1B3_uc011bne.1_RNA|ATP1B3_uc003euh.1_Missense_Mutation_p.I134F	NM_001679	NP_001670	P54709	AT1B3_HUMAN	Na+/K+ -ATPase beta 3 subunit	148	Extracellular (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	melanosome|sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity				0						TCAGTTTCCTATTTCATTACT	0.378													5	50					0	0	0.001168	0	0		T	141632589	T	T	141632589	3	4	202	1	0	0	0	0	1	0	0	0	1135	449	16	5	456	5	ATP1B3	3	141632589	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2893602	141632589	56389841	154	99042											
ATR	545	broad.mit.edu	37	chr3	142266679	142266679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgatagtgttctccaataCgcagcaataattcattatgc	12	14	7	8	1	2	1	1	1	1	0	3	1	2	1	1	0	3	4	1	0	6	7	rs146504354		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:142266679C>T	uc003eux.3	-	16	3367	c.3245G>A	c.(3244-3246)CGT>CAT	p.R1082H		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1082					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						TTCTCCAATACGCAGCAATAA	0.373								Other_conserved_DNA_damage_response_genes					6	22					0	0	0.001168	0	0		T	142266679	T	T	142266679	3	4	202	1	0	0	0	0	1	0	0	0	1205	536	19	1	4817	1	ATR	3	142266679	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	634090	142266679	55755751	155	99043											
PLS1	5357	broad.mit.edu	37	chr3	142388367	142388367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctgacagcaacaaagatgGcaaaatcagttttgaagagt	16	9	10	6	0	1	4	1	2	0	2	1	4	1	4	0	1	3	4	0	1	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:142388367G>A	uc010huv.2	+	3	365	c.206G>A	c.(205-207)GGC>GAC	p.G69D	PLS1_uc003euz.2_Missense_Mutation_p.G69D|PLS1_uc003eva.2_Missense_Mutation_p.G69D	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	69	2 (Potential).|EF-hand 2.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(1)	1						AACAAAGATGGCAAAATCAGT	0.418													16	117					0	0	0.008871	0	0		A	142388367	A	A	142388367	3	1	202	1	0	0	0	0	1	0	0	0	12126	1203	42	2	212	2	PLS1	3	142388367	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	121688	142388367	55634063	156	99044											
TRPC1	7220	broad.mit.edu	37	chr3	142524988	142524988	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaaaatctaaacgaactgCgccaagatctgtcaaaattc	16	9	7	9	2	3	1	1	0	2	1	4	3	3	2	1	1	3	0	1	1	8	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:142524988C>T	uc003evc.2	+	13	2429	c.2293C>T	c.(2293-2295)CGC>TGC	p.R765C	TRPC1_uc003evb.2_Missense_Mutation_p.R731C	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	765					axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AAACGAACTGCGCCAAGATCT	0.373													3	29					0	0	0.000602	0	0		T	142524988	T	T	142524988	3	4	202	1	0	0	0	0	1	0	0	0	16604	768	27	1	2237	1	TRPC1	3	142524988	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	136621	142524988	55497442	157	99045											
TRPC1	7220	broad.mit.edu	37	chr3	142525010	142525010	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaagatctgtcaaaattccGaaatgaaataagggatttac	17	10	7	7	1	2	2	1	1	1	1	3	4	3	3	2	1	1	0	2	1	7	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:142525010G>A	uc003evc.2	+	13	2451	c.2315G>A	c.(2314-2316)CGA>CAA	p.R772Q	TRPC1_uc003evb.2_Missense_Mutation_p.R738Q	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	772					axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						TCAAAATTCCGAAATGAAATA	0.363													3	26					0	0	0.009096	0	0		A	142525010	A	A	142525010	3	1	202	1	0	0	0	0	1	0	0	0	16604	1058	37	1	2259	1	TRPC1	3	142525010	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	22	142525010	55497420	158	99046											
ZIC4	84107	broad.mit.edu	37	chr3	147113919	147113919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctcggggtcgcggtgccGtcggccgccagccacttgca	4	6	16	15	6	0	0	0	0	0	0	3	0	0	0	4	5	3	2	4	5	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:147113919G>A	uc003ewd.1	-	3	681	c.408C>T	c.(406-408)GAC>GAT	p.D136D	ZIC4_uc003ewc.1_Silent_p.D66D|ZIC4_uc011bno.1_Silent_p.D186D	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	136	C2H2-type 1; atypical.					nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						TCGCGGTGCCGTCGGCCGCCA	0.657													40	57					0	0	0.002852	0	0		A	147113919	A	A	147113919	2	1	202	1	0	0	0	0	0	0	0	1	17706	1136	40	1		1	ZIC4	3	147113919	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4588909	147113919	50908511	159	99047											
MED12L	116931	broad.mit.edu	37	chr3	151105932	151105932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaaacaaaaggaaggaagcGcaagacgaaatctagctcaa	21	3	10	7	2	2	1	1	0	1	1	2	5	2	3	0	2	3	2	0	2	10	1	rs149611856		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:151105932G>A	uc003eyp.2	+	35	5356	c.5318G>A	c.(5317-5319)CGC>CAC	p.R1773H	MED12L_uc011bnz.1_Missense_Mutation_p.R1633H|MED12L_uc003eyy.1_Missense_Mutation_p.R936H	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1773					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GGAAGGAAGCGCAAGACGAAA	0.428													14	22					0	0	0.00499	0	0		A	151105932	A	A	151105932	3	1	202	1	0	0	0	0	1	0	0	0	9447	1087	38	1	5456	1	MED12L	3	151105932	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3992013	151105932	46916498	160	99048											
NCEH1	57552	broad.mit.edu	37	chr3	172351525	172351525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaatgagtggggcggagcGggcatccagcaactgaggaa	11	5	17	8	2	0	2	0	2	0	0	1	4	1	4	1	5	4	3	1	5	3	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:172351525G>A	uc011bpx.1	-	5	1225	c.1087C>T	c.(1087-1089)CGC>TGC	p.R363C	NCEH1_uc003fig.2_Missense_Mutation_p.R355C|NCEH1_uc011bpw.1_Missense_Mutation_p.R190C|NCEH1_uc011bpy.1_Missense_Mutation_p.R190C	NM_001146276	NP_001139748	Q6PIU2	NCEH1_HUMAN	arylacetamide deacetylase-like 1 isoform a	323	Lumenal (Potential).				lipid catabolic process	endoplasmic reticulum|integral to membrane|microsome	carboxylesterase activity				0						GGGGCGGAGCGGGCATCCAGC	0.542													15	26					0	0	0.006122	0	0		A	172351525	A	A	172351525	3	1	202	1	0	0	0	0	1	0	0	0	10234	1116	39	1	263	1	NCEH1	3	172351525	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	21245593	172351525	25670905	161	99049											
PEX5L	51555	broad.mit.edu	37	chr3	179537729	179537729	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccgagccatttcttcccaTtctgcttgcatcttatccca	6	15	4	16	1	3	0	0	0	3	0	6	1	6	0	4	0	3	2	4	0	1	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:179537729T>G	uc003fki.1	-	9	988	c.858A>C	c.(856-858)GAA>GAC	p.E286D	PEX5L_uc011bqd.1_Missense_Mutation_p.E243D|PEX5L_uc011bqe.1_Missense_Mutation_p.E94D|PEX5L_uc011bqf.1_Missense_Mutation_p.E178D|PEX5L_uc003fkj.1_Missense_Mutation_p.E251D|PEX5L_uc010hxd.1_Missense_Mutation_p.E284D|PEX5L_uc011bqg.1_Missense_Mutation_p.E262D|PEX5L_uc011bqh.1_Missense_Mutation_p.E227D	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	286					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)			TTTCTTCCCATTCTGCTTGCA	0.428													13	57					0	0	0.003163	0	0		G	179537729	G	G	179537729	3	3	202	1	0	0	0	0	1	0	0	0	11768	1490	52	5	1050	5	PEX5L	3	179537729	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	7186204	179537729	18484701	162	99050											
ABCC5	10057	broad.mit.edu	37	chr3	183699620	183699620	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acgttcatccgtggcggccaCgcattttctcctgaaatatg	8	12	9	12	4	2	1	1	1	1	0	4	1	3	1	3	2	0	2	3	2	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:183699620C>T	uc003fmg.2	-	8	1207	c.1042G>A	c.(1042-1044)GTG>ATG	p.V348M	ABCC5_uc011bqt.1_Translation_Start_Site|ABCC5_uc010hxl.2_Missense_Mutation_p.V348M	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	348	ABC transmembrane type-1 1.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GTGGCGGCCACGCATTTTCTC	0.413													6	32					0	0	0.001984	0	0		T	183699620	T	T	183699620	3	4	202	1	0	0	0	0	1	0	0	0	56	536	19	1	3363	1	ABCC5	3	183699620	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4161891	183699620	14322810	163	99051											
HTR3D	200909	broad.mit.edu	37	chr3	183756182	183756182	+	Frame_Shift_Del	DEL	C	-	-																															gcctctggccctcatgcagaCccccttgcctgcaggtgtct																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:183756182delC	uc011bqv.1	+	7	905	c.905delC	c.(904-906)ACCfs	p.T302fs	HTR3D_uc003fmj.2_Intron|HTR3D_uc011bqu.1_Intron|HTR3D_uc010hxp.2_Intron	NM_001163646	NP_001157118	Q70Z44	5HT3D_HUMAN	5-hydroxytryptamine receptor 3 subunit D isoform	302	Extracellular (Potential).					integral to membrane|plasma membrane	extracellular ligand-gated ion channel activity|receptor activity				0	all_cancers(143;2.33e-10)|Ovarian(172;0.0303)		Epithelial(37;6.23e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CTCATGCAGACCCCCTTGCCT	0.582													33	48	---	---	---	---						.	-	183756182	-	-	183756182	7	5	202	1	0	1	0	1	0	0	0	0	7463	507	18	0	1101	0	HTR3D	3	183756182	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	56562	183756182	14266248	164	99052											
HTR3E	285242	broad.mit.edu	37	chr3	183824457	183824457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcctcctctatcatcacCgtcatatgcctctggaacac	9	11	6	15	1	5	0	3	0	2	0	6	1	6	1	4	2	2	0	4	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:183824457C>T	uc010hxq.2	+	9	1813	c.1347C>T	c.(1345-1347)ACC>ACT	p.T449T	HTR3E_uc003fml.3_Silent_p.T434T|HTR3E_uc003fmm.2_Silent_p.T464T|HTR3E_uc010hxr.2_Silent_p.T475T|HTR3E_uc003fmn.2_Silent_p.T449T	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	449	Helical; Name=4; (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CTATCATCACCGTCATATGCC	0.582													9	141					0	0	0.000978	0	0		T	183824457	T	T	183824457	2	4	202	1	0	0	0	0	0	0	0	1	7464	639	23	1		1	HTR3E	3	183824457	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	68275	183824457	14197973	165	99053											
EIF2B5	8893	broad.mit.edu	37	chr3	183853261	183853261	+	Frame_Shift_Del	DEL	G	-	-																															ggccgggaggcagcggtggcGggggagccagaggggcggag																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:183853261delG	uc003fmp.2	+	1	452	c.88delG	c.(88-90)GGGfs	p.G30fs	EIF2B5_uc010hxs.2_Frame_Shift_Del_p.G30fs|EIF2B5_uc003fmq.2_5'UTR	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	30					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CAGCGGTGGCGGGGGAGCCAG	0.682											OREG0015363	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	6	---	---	---	---						.	-	183853261	-	-	183853261	7	5	202	1	0	1	0	1	0	0	0	0	5010	1116	39	0	90	0	EIF2B5	3	183853261	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	28804	183853261	14169169	166	99054											
ECE2	9718	broad.mit.edu	37	chr3	183994720	183994720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagacagctgttaggctcacGcacgcagctggagctggtct	9	8	13	11	2	2	1	1	0	1	1	2	2	2	2	0	3	3	7	0	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:183994720G>A	uc003fni.3	+	3	559	c.521G>A	c.(520-522)CGC>CAC	p.R174H	ECE2_uc011brg.1_Missense_Mutation_p.R102H|ECE2_uc011brh.1_Missense_Mutation_p.R27H|ECE2_uc003fnl.3_Missense_Mutation_p.R102H|ECE2_uc003fnm.3_Missense_Mutation_p.R56H|ECE2_uc003fnk.3_Missense_Mutation_p.R27H|ECE2_uc011bri.1_Missense_Mutation_p.R89H|ECE2_uc010hxv.2_5'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	174	Cytoplasmic (Potential).				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TTAGGCTCACGCACGCAGCTG	0.592													23	39					0	0	0.00278	0	0		A	183994720	A	A	183994720	3	1	202	1	0	0	0	0	1	0	0	0	4896	1087	38	1	1095	1	ECE2	3	183994720	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	141459	183994720	14027710	167	99055											
BCL6	604	broad.mit.edu	37	chr3	187442794	187442794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtctgaaggtgccggaaacGggtgccacagatttcacagg	11	7	14	9	2	2	2	1	1	1	1	2	3	2	3	2	4	3	0	2	4	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:187442794G>A	uc003frp.3	-	9	2369	c.1912C>T	c.(1912-1914)CGT>TGT	p.R638C	BCL6_uc011bsf.1_Missense_Mutation_p.R582C|BCL6_uc010hza.2_Missense_Mutation_p.R536C|BCL6_uc003frq.1_Missense_Mutation_p.R638C	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	638	C2H2-type 5.				negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		TGCCGGAAACGGGTGCCACAG	0.557			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								27	50					0	0	0.002445	0	0		A	187442794	A	A	187442794	3	1	202	1	0	0	0	0	1	0	0	0	1377	1116	39	1	216	1	BCL6	3	187442794	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3448074	187442794	10579636	168	99056											
WDR53	348793	broad.mit.edu	37	chr3	196288243	196288243	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gagttccatcttcaccccaaGccgtgagatctccgccctct	7	10	7	17	2	4	1	1	1	3	1	6	3	5	1	6	0	1	1	6	0	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:196288243G>T	uc003fwt.2	-	3	575	c.104C>A	c.(103-105)GCT>GAT	p.A35D		NM_182627	NP_872433	Q7Z5U6	WDR53_HUMAN	WD repeat domain 53	35	WD 1.									breast(1)|skin(1)	2	all_cancers(143;8.88e-09)|Ovarian(172;0.0634)|Breast(254;0.135)		Epithelial(36;1.6e-23)|all cancers(36;1.54e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.29e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00326)		TTCACCCCAAGCCGTGAGATC	0.542													6	26					0.00116845	0.00119791	0.001168	1	0		T	196288243	T	T	196288243	3	4	202	1	0	0	0	0	1	0	0	0	17331	971	34	5	980	5	WDR53	3	196288243	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8845449	196288243	1734187	169	99057											
KIAA0226	9711	broad.mit.edu	37	chr3	197421303	197421303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttggtgcggatttgctggcGccgaaggcggatcttctgct	4	12	15	10	4	2	0	0	0	2	0	2	3	2	2	1	5	3	2	1	5	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr3:197421303G>A	uc003fyc.2	-	10	1810	c.1627C>T	c.(1627-1629)CGC>TGC	p.R543C	KIAA0226_uc003fyd.3_Missense_Mutation_p.R498C|KIAA0226_uc003fye.1_Missense_Mutation_p.R250C|KIAA0226_uc003fyf.2_Missense_Mutation_p.R391C	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	543					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		ATTTGCTGGCGCCGAAGGCGG	0.547													29	73					0	0	0.002445	0	0		A	197421303	A	A	197421303	3	1	202	1	0	0	0	0	1	0	0	0	8178	1087	38	1	1335	1	KIAA0226	3	197421303	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1133060	197421303	601127	170	99058											
TMEM175	84286	broad.mit.edu	37	chr4	941596	941596	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgccccccaggcaggagagaCgaggacgctggggaggggat	9	3	19	10	2	0	1	0	0	0	1	0	7	0	5	3	7	1	2	3	7	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:941596C>T	uc003gbq.2	+	2	167	c.69C>T	c.(67-69)GAC>GAT	p.D23D	TMEM175_uc010ibl.1_Silent_p.D23D|TMEM175_uc003gbp.1_Translation_Start_Site|TMEM175_uc003gbr.2_Translation_Start_Site|TMEM175_uc003gbu.2_Intron|TMEM175_uc003gbs.2_Translation_Start_Site|TMEM175_uc003gbt.2_Translation_Start_Site|TMEM175_uc003gbv.2_Intron	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	23						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			GCAGGAGAGACGAGGACGCTG	0.687													15	29					0	0	0.006122	0	0		T	941596	T	T	941596	2	4	202	1	0	0	0	0	0	0	0	1	16116	535	19	1		1	TMEM175	4	941596	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		941596	190212680	171	99059											
DRD5	1816	broad.mit.edu	37	chr4	9784294	9784294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgggagcccgacgtgaatgCagagaactgtgactccagcc	10	7	13	11	2	0	3	0	2	0	1	1	6	1	4	3	1	4	1	3	1	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:9784294C>T	uc003gmb.3	+	1	1037	c.641C>T	c.(640-642)GCA>GTA	p.A214V		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	214	Extracellular (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	GACGTGAATGCAGAGAACTGT	0.602													8	90					0	0	0.006214	0	0		T	9784294	T	T	9784294	3	4	202	1	0	0	0	0	1	0	0	0	4766	710	25	2	643	2	DRD5	4	9784294	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8842698	9784294	181369982	172	99060											
SCFD2	152579	broad.mit.edu	37	chr4	54140037	54140037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagaaagttgtcccacttggCagtctgtgggtgtttcaacg	8	12	12	9	1	2	1	1	0	1	1	3	1	3	1	1	2	1	3	1	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:54140037C>T	uc003gzu.2	-	4	1401	c.1267G>A	c.(1267-1269)GCC>ACC	p.A423T	SCFD2_uc010igm.2_Missense_Mutation_p.A423T	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2	423					protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			TCCCACTTGGCAGTCTGTGGG	0.448													16	25					0	0	0.007413	0	0		T	54140037	T	T	54140037	3	4	202	1	0	0	0	0	1	0	0	0	13915	710	25	2	811	2	SCFD2	4	54140037	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	44355743	54140037	137014239	173	99061											
SRD5A3	79644	broad.mit.edu	37	chr4	56225592	56225592	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttactcaatctctgttcctgGgagcaccttttccaagctgg	7	14	8	12	0	2	0	1	0	1	0	5	1	4	1	3	2	3	3	3	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:56225592G>T	uc003hau.2	+	2	396	c.301G>T	c.(301-303)GGA>TGA	p.G101*		NM_024592	NP_078868	Q9H8P0	PORED_HUMAN	steroid 5 alpha-reductase 3	101	Helical; (Potential).				androgen biosynthetic process|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|polyprenol catabolic process	endoplasmic reticulum membrane|integral to membrane	3-oxo-5-alpha-steroid 4-dehydrogenase activity|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor				0	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)			TCTGTTCCTGGGAGCACCTTT	0.493													38	51					2.26627e-22	2.46678e-22	0.007835	1	0		T	56225592	T	T	56225592	4	4	202	1	0	0	0	0	0	1	0	0	15165	1233	43	5	307	5	SRD5A3	4	56225592	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2085555	56225592	134928684	174	99062											
AASDH	132949	broad.mit.edu	37	chr4	57221488	57221488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaactgtcaatgatggaaaCgcttcaccaccaagggctaa	15	7	9	10	1	2	2	2	1	0	1	2	3	2	3	2	2	2	2	2	2	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:57221488C>T	uc003hbn.2	-	6	1116	c.963G>A	c.(961-963)GCG>GCA	p.A321A	AASDH_uc010ihb.2_5'UTR|AASDH_uc011caa.1_Silent_p.A168A|AASDH_uc003hbo.2_Silent_p.A221A|AASDH_uc011cab.1_5'UTR|AASDH_uc010ihc.2_Silent_p.A321A|AASDH_uc003hbp.2_Silent_p.A321A	NM_181806	NP_861522	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	321					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding			ovary(4)	4	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				ATGATGGAAACGCTTCACCAC	0.413													25	53					0	0	0.00632	0	0		T	57221488	T	T	57221488	2	4	202	1	0	0	0	0	0	0	0	1	22	523	19	1		1	AASDH	4	57221488	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	995896	57221488	133932788	175	99063											
UGT2B15	7366	broad.mit.edu	37	chr4	69536157	69536157	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcattgacaagagtagaAgccgaagatgtcaacacagt	15	7	11	8	1	1	4	1	1	0	3	1	5	1	4	1	1	2	2	1	1	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:69536157A>G	uc011cal.1	-	1	218	c.180T>C	c.(178-180)GCT>GCC	p.A60A		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	60					steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						CAAGAGTAGAAGCCGAAGATG	0.373													10	166					0	0	0.000978	0	0		G	69536157	G	G	69536157	2	3	202	1	0	0	0	0	0	0	0	1	16984	59	3	3		3	UGT2B15	4	69536157	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	12314669	69536157	121618119	176	99064											
PAQR3	152559	broad.mit.edu	37	chr4	79841787	79841787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaatataacatcactactGcaaggatatgccatatttgg	15	11	6	9	0	1	0	1	0	0	0	1	1	1	1	2	2	4	1	2	2	7	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:79841787G>A	uc003hlp.1	-	6	1046	c.842C>T	c.(841-843)GCA>GTA	p.A281V	PAQR3_uc003hlm.2_RNA|PAQR3_uc003hln.2_RNA|PAQR3_uc003hlq.1_Missense_Mutation_p.A163V	NM_001040202	NP_001035292	Q6TCH7	PAQR3_HUMAN	progestin and adipoQ receptor family member III	281	Helical; (Potential).					Golgi membrane|integral to membrane	receptor activity				0						CATCACTACTGCAAGGATATG	0.378													13	26					0	0	0.001855	0	0		A	79841787	A	A	79841787	3	1	202	1	0	0	0	0	1	0	0	0	11455	1319	46	2	97	2	PAQR3	4	79841787	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	10305630	79841787	111312489	177	99065											
GK2	2712	broad.mit.edu	37	chr4	80329257	80329257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgatgactaagtagttccGctgtttttgaattgaaaacc	11	15	9	6	1	0	4	0	4	0	0	1	4	1	4	2	0	1	4	2	0	5	6	rs140376639	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:80329257G>A	uc003hlu.2	-	1	116	c.98C>T	c.(97-99)GCG>GTG	p.A33V		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	33					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						AAGTAGTTCCGCTGTTTTTGA	0.493													15	30					0	0	0.004007	0	0		A	80329257	A	A	80329257	3	1	202	1	0	0	0	0	1	0	0	0	6436	1087	38	1	1567	1	GK2	4	80329257	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	487470	80329257	110825019	178	99066											
C4orf22	255119	broad.mit.edu	37	chr4	81866027	81866027	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaactatcaagtgattgcCgataatccagaaggcttact	13	10	7	11	1	1	2	1	1	0	1	2	3	2	2	3	1	3	1	3	1	6	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:81866027C>T	uc003hmf.2	+	5	589	c.540C>T	c.(538-540)GCC>GCT	p.A180A	C4orf22_uc010ijp.2_Silent_p.A197A	NM_152770	NP_689983	Q6V702	CD022_HUMAN	hypothetical protein LOC255119	180										skin(2)	2						AAGTGATTGCCGATAATCCAG	0.323													3	16					0	0	0.004672	0	0		T	81866027	T	T	81866027	2	4	202	1	0	0	0	0	0	0	0	1	2258	639	23	1		1	C4orf22	4	81866027	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1536770	81866027	109288249	179	99067											
PRKG2	5593	broad.mit.edu	37	chr4	82026979	82026979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attctcacctgcaaagcctcCgaatcaaatcctcaggtcgt	11	10	6	14	2	3	0	3	0	1	0	7	1	5	0	4	1	2	1	4	1	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:82026979C>T	uc003hmh.2	-	15	2065	c.2051G>A	c.(2050-2052)CGG>CAG	p.R684Q	PRKG2_uc011ccf.1_Missense_Mutation_p.R264Q|PRKG2_uc011ccg.1_Missense_Mutation_p.R264Q|PRKG2_uc011cch.1_Missense_Mutation_p.R655Q	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	684	Protein kinase.				platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						GCAAAGCCTCCGAATCAAATC	0.398													8	29					0	0	0.006214	0	0		T	82026979	T	T	82026979	3	4	202	1	0	0	0	0	1	0	0	0	12545	652	23	1	253	1	PRKG2	4	82026979	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	160952	82026979	109127297	180	99068											
SEC31A	22872	broad.mit.edu	37	chr4	83785628	83785628	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgaagttggtctgatcGgctgaggaactccttttctg	6	14	12	9	1	2	3	0	3	2	0	4	4	3	4	1	3	2	3	1	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:83785628G>A	uc003hnf.2	-	11	1485	c.1321C>T	c.(1321-1323)CGA>TGA	p.R441*	SEC31A_uc003hne.2_Nonsense_Mutation_p.R213*|SEC31A_uc011ccl.1_Nonsense_Mutation_p.R441*|SEC31A_uc003hnl.2_Nonsense_Mutation_p.R441*|SEC31A_uc003hng.2_Nonsense_Mutation_p.R441*|SEC31A_uc003hnh.2_Nonsense_Mutation_p.R441*|SEC31A_uc003hni.2_Nonsense_Mutation_p.R441*|SEC31A_uc003hnj.2_Nonsense_Mutation_p.R441*|SEC31A_uc011ccm.1_Nonsense_Mutation_p.R436*|SEC31A_uc011ccn.1_Nonsense_Mutation_p.R441*|SEC31A_uc003hnk.2_Nonsense_Mutation_p.R441*|SEC31A_uc003hnm.2_Nonsense_Mutation_p.R441*|SEC31A_uc003hnn.1_Nonsense_Mutation_p.R441*|SEC31A_uc003hno.2_Nonsense_Mutation_p.R441*	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	441	Interaction with SEC13.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				TGGTCTGATCGGCTGAGGAAC	0.433													20	39					0	0	0.002299	0	0		A	83785628	A	A	83785628	4	1	202	1	0	0	0	0	0	1	0	0	14023	1124	39	1	2409	1	SEC31A	4	83785628	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1758649	83785628	107368648	181	99069											
WDFY3	23001	broad.mit.edu	37	chr4	85708803	85708803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtaccaatgtaggcatagaCcgtgctcaccactggtggat	11	9	11	10	1	1	1	1	0	0	1	1	2	1	2	3	3	2	4	3	3	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:85708803C>T	uc003hpd.2	-	23	4141	c.3733G>A	c.(3733-3735)GTC>ATC	p.V1245I		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1245						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TAGGCATAGACCGTGCTCACC	0.483													14	46					0	0	0.007413	0	0		T	85708803	T	T	85708803	3	4	202	1	0	0	0	0	1	0	0	0	17296	507	18	4	7031	4	WDFY3	4	85708803	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1923175	85708803	105445473	182	99070											
PTPN13	5783	broad.mit.edu	37	chr4	87671685	87671685	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttagaggatttaatatgggaCgagcaatcagcactggcagt	13	10	12	6	1	1	1	1	0	0	1	1	4	1	3	0	3	2	3	0	3	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:87671685C>T	uc003hpz.2	+	18	3193	c.2713C>T	c.(2713-2715)CGA>TGA	p.R905*	PTPN13_uc003hpy.2_Nonsense_Mutation_p.R905*|PTPN13_uc003hqa.2_Nonsense_Mutation_p.R905*|PTPN13_uc003hqb.2_Intron	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	905						cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TAATATGGGACGAGCAATCAG	0.468													32	82					0	0	0.004289	0	0		T	87671685	T	T	87671685	4	4	202	1	0	0	0	0	0	1	0	0	12805	528	19	1	2779	1	PTPN13	4	87671685	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1962882	87671685	103482591	183	99071											
HERC6	55008	broad.mit.edu	37	chr4	89311998	89311998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggggaagtaacagtgccGggcagctggccctcagtggg	7	6	18	10	1	1	0	1	0	0	0	1	1	1	1	2	5	3	4	2	5	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:89311998G>A	uc011cdi.1	+	4	814	c.631G>A	c.(631-633)GGG>AGG	p.G211R	HERC6_uc003hrp.1_RNA|HERC6_uc011cdj.1_Missense_Mutation_p.G211R|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	211	RCC1 4.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		TAACAGTGCCGGGCAGCTGGC	0.562													12	30					0	0	0.001855	0	0		A	89311998	A	A	89311998	3	1	202	1	0	0	0	0	1	0	0	0	7078	1116	39	1	442	1	HERC6	4	89311998	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1640313	89311998	101842278	184	99072											
EIF4E	1977	broad.mit.edu	37	chr4	99812387	99812387	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaaaacaaatggttacttaCgcccaaaagtcttcaacagt	16	10	5	10	1	2	0	1	0	1	0	2	0	2	0	1	1	4	1	1	1	8	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:99812387C>T	uc003hue.2	-	3	1744	c.221_splice	c.e3+1	p.A74_splice	EIF4E_uc011cea.1_Splice_Site_p.A94_splice|EIF4E_uc011ceb.1_Splice_Site_p.A74_splice|EIF4E_uc011cec.1_Splice_Site_p.A74_splice	NM_001968	NP_001959	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E						G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|interspecies interaction between organisms|mRNA export from nucleus|nuclear-transcribed mRNA poly(A) tail shortening|positive regulation of mitotic cell cycle|regulation of translation	cytoplasmic mRNA processing body|cytosol|eukaryotic translation initiation factor 4F complex|mRNA cap binding complex|RNA-induced silencing complex	protein binding|RNA cap binding|translation initiation factor activity			lung(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		TGGTTACTTACGCCCAAAAGT	0.294													8	15					0	0	0.008291	0	0		T	99812387	T	T	99812387	5	4	202	1	0	0	0	0	0	0	1	0	5036	550	19	1	548	1	EIF4E	4	99812387	Splice_Site	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	10500389	99812387	91341889	185	99073											
DNAJB14	79982	broad.mit.edu	37	chr4	100824920	100824920	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcagttatttcgaatattAgtcacataatcttcctccac	12	14	4	11	1	2	0	1	0	1	0	5	1	4	0	2	0	1	2	2	0	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:100824920A>G	uc003hvl.2	-	7	1129	c.978T>C	c.(976-978)ACT>ACC	p.T326T	DNAJB14_uc003hvk.2_Silent_p.T241T|DNAJB14_uc010ili.2_Silent_p.T259T	NM_001031723	NP_001026893	Q8TBM8	DJB14_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 14	326					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;4.59e-09)		TTCGAATATTAGTCACATAAT	0.303													5	18					0	0	0.001984	0	0		G	100824920	G	G	100824920	2	3	202	1	0	0	0	0	0	0	0	1	4625	407	15	3		3	DNAJB14	4	100824920	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1012533	100824920	90329356	186	99074											
NFKB1	4790	broad.mit.edu	37	chr4	103527761	103527761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttgggtaactctgttttgCacctagctgccaaagaagga	10	11	11	9	0	1	1	0	0	1	1	1	2	1	2	2	2	4	5	2	2	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:103527761C>T	uc011ceq.1	+	17	2325	c.1858C>T	c.(1858-1860)CAC>TAC	p.H620Y	NFKB1_uc011cep.1_Missense_Mutation_p.H621Y|NFKB1_uc011cer.1_Missense_Mutation_p.H440Y	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	620	Interaction with CFLAR.|ANK 3.				anti-apoptosis|apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of calcidiol 1-monooxygenase activity|nerve growth factor receptor signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter	cytosol|I-kappaB/NF-kappaB complex|mitochondrion|nucleoplasm	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)|breast(2)|skin(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;6.59e-08)	Dexamethasone(DB01234)|Pranlukast(DB01411)|Thalidomide(DB01041)	CTCTGTTTTGCACCTAGCTGC	0.517													22	68					0	0	0.00632	0	0		T	103527761	T	T	103527761	3	4	202	1	0	0	0	0	1	0	0	0	10394	710	25	2	1923	2	NFKB1	4	103527761	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2702841	103527761	87626515	187	99075											
SYNPO2	171024	broad.mit.edu	37	chr4	119952584	119952584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaggcagtcgagaatggagaAgtatgtggtcgattcagaca	14	8	14	5	2	1	3	1	0	0	3	3	6	1	3	0	3	0	2	0	3	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:119952584A>G	uc003icm.3	+	4	2850	c.2654A>G	c.(2653-2655)AAG>AGG	p.K885R	SYNPO2_uc010ina.2_Missense_Mutation_p.K885R|SYNPO2_uc010inb.2_Missense_Mutation_p.K885R|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.K813R	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	885						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						AGAATGGAGAAGTATGTGGTC	0.552													20	52					0	0	0.008871	0	0		G	119952584	G	G	119952584	3	3	202	1	0	0	0	0	1	0	0	0	15482	72	3	3	2668	3	SYNPO2	4	119952584	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	16424823	119952584	71201692	188	99076											
KIAA1109	84162	broad.mit.edu	37	chr4	123170765	123170765	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctgttccagatgtaactCgaataggtcccagccaagaa	14	8	9	10	1	0	2	0	0	0	2	3	3	2	2	3	1	3	3	3	1	6	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:123170765C>T	uc003ieh.2	+	34	5683	c.5638C>T	c.(5638-5640)CGA>TGA	p.R1880*	KIAA1109_uc003iek.2_Nonsense_Mutation_p.R499*	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1880					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGATGTAACTCGAATAGGTCC	0.343													10	16					0	0	0.000978	0	0		T	123170765	T	T	123170765	4	4	202	1	0	0	0	0	0	1	0	0	8224	876	31	1	5772	1	KIAA1109	4	123170765	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3218181	123170765	67983511	189	99077											
INTU	27152	broad.mit.edu	37	chr4	128628042	128628042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agaagatgatggctttagccCccatactacaccggatgcag	12	8	10	11	1	0	3	0	1	0	2	0	4	0	4	3	2	4	2	3	2	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:128628042C>T	uc003ifk.1	+	12	2259	c.2189C>T	c.(2188-2190)CCC>CTC	p.P730L	INTU_uc011cgq.1_RNA	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	PDZ domain containing 6	730										ovary(1)	1						GGCTTTAGCCCCCATACTACA	0.463													35	83					0	0	0.004878	0	0		T	128628042	T	T	128628042	3	4	202	1	0	0	0	0	1	0	0	0	7802	623	22	4	2235	4	INTU	4	128628042	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5457277	128628042	62526234	190	99078											
PCDH10	57575	broad.mit.edu	37	chr4	134084227	134084227	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcccttctgatggacgcCaggctgctgattatcgcagc	6	12	11	12	2	1	2	0	2	1	0	3	3	2	3	2	2	2	3	2	2	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:134084227C>T	uc003iha.2	+	4	3719	c.2893C>T	c.(2893-2895)CAG>TAG	p.Q965*		NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	965	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		TGATGGACGCCAGGCTGCTGA	0.527													16	40					0	0	0.006122	0	0		T	134084227	T	T	134084227	4	4	202	1	0	0	0	0	0	1	0	0	11526	595	21	4	2967	4	PCDH10	4	134084227	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5456185	134084227	57070049	191	99079											
POU4F2	5458	broad.mit.edu	37	chr4	147561355	147561355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggcgctatggcgggccccGacggcgctgtggtgtccacg	3	7	18	13	6	0	0	0	0	0	0	1	1	1	0	3	5	0	2	3	5	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:147561355G>A	uc003ikv.2	+	2	873	c.625G>A	c.(625-627)GAC>AAC	p.D209N		NM_004575	NP_004566	Q12837	PO4F2_HUMAN	Brn3b POU domain transcription factor	209					estrogen receptor signaling pathway|MAPKKK cascade|negative regulation of transcription from RNA polymerase II promoter	nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription			breast(1)	1	all_hematologic(180;0.151)					GGCGGGCCCCGACGGCGCTGT	0.647													5	12					0	0	0.001984	0	0		A	147561355	A	A	147561355	3	1	202	1	0	0	0	0	1	0	0	0	12298	1058	37	1	631	1	POU4F2	4	147561355	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	13477128	147561355	43592921	192	99080											
PRMT10	90826	broad.mit.edu	37	chr4	148594871	148594871	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttggattgctgcattataaaTtgtattcctcttggtgtcat	8	19	8	6	0	2	0	1	0	1	0	3	1	3	1	1	2	2	3	1	2	4	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:148594871T>A	uc003ilc.2	-	3	635	c.493A>T	c.(493-495)ATT>TTT	p.I165F	PRMT10_uc003ild.2_Missense_Mutation_p.I52F	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	165						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						GCATTATAAATTGTATTCCTC	0.403													9	29					0	0	0.006214	0	0		A	148594871	A	A	148594871	3	1	202	1	0	0	0	0	1	0	0	0	12558	1493	52	5	2084	5	PRMT10	4	148594871	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1033516	148594871	42559405	193	99081											
LRBA	987	broad.mit.edu	37	chr4	151520209	151520209	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggatgtgtcgatcctagaGggttacgcacaaatcgtcgc	10	9	12	10	4	0	1	0	0	0	1	4	3	1	2	1	2	1	2	1	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:151520209G>C	uc010ipj.2	-	38	6470	c.5996C>G	c.(5995-5997)CCT>CGT	p.P1999R	LRBA_uc003ilt.3_Missense_Mutation_p.P658R|LRBA_uc003ilu.3_Missense_Mutation_p.P1999R	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	1999						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CGATCCTAGAGGGTTACGCAC	0.502													21	41					0	0	0.00278	0	0		C	151520209	C	C	151520209	3	2	202	1	0	0	0	0	1	0	0	0	8949	1000	35	5	2679	5	LRBA	4	151520209	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2925338	151520209	39634067	194	99082											
DCHS2	54798	broad.mit.edu	37	chr4	155241940	155241940	+	Silent	SNP	A	G	G	1	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	ctgttcaaaaaactgccgtcAtcatctttggcattgaagac	12	12	7	10	1	4	2	3	1	1	1	4	2	4	2	1	1	2	2	1	1	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:155241940A>G	uc003inw.2	-	14	3246	c.3246T>C	c.(3244-3246)GAT>GAC	p.D1082D		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1082	Cadherin 9.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		AACTGCCGTCATCATCTTTGG	0.443													10	63					0	0	0.006214	0	0		G	155241940	G	G	155241940	2	3	202	1	0	0	0	0	0	0	0	1	4291	214	8	3		3	DCHS2	4	155241940	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	3721731	155241940	35912336	195	99083											
TKTL2	84076	broad.mit.edu	37	chr4	164394816	164394816	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccctgatggaatggatcCgcaggcggttggctgtgtcc	5	10	16	10	2	0	1	0	1	0	0	2	3	2	3	3	6	0	3	3	6	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:164394816C>T	uc003iqp.3	-	1	232	c.71G>A	c.(70-72)CGG>CAG	p.R24Q		NM_032136	NP_115512	Q9H0I9	TKTL2_HUMAN	transketolase-like 2	24						cytoplasm	metal ion binding|transketolase activity			ovary(2)|skin(2)|pancreas(1)	5	all_hematologic(180;0.166)	Prostate(90;0.0959)|all_neural(102;0.223)				GGAATGGATCCGCAGGCGGTT	0.602													13	38					0	0	0.003163	0	0		T	164394816	T	T	164394816	3	4	202	1	0	0	0	0	1	0	0	0	15961	652	23	1	1813	1	TKTL2	4	164394816	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	9152876	164394816	26759460	196	99084											
SCRG1	11341	broad.mit.edu	37	chr4	174312470	174312470	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacagttgtgatcttttagTatctttctgtagcaagagag	10	16	10	5	0	3	3	0	2	3	1	3	4	3	3	0	0	1	4	0	0	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr4:174312470T>C	uc003ite.2	-	2	509	c.96A>G	c.(94-96)ATA>ATG	p.I32M	SCRG1_uc003itf.2_RNA	NM_007281	NP_009212	O75711	SCRG1_HUMAN	stimulator of chondrogenesis 1 precursor	32					nervous system development	extracellular space					0		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;1.15e-17)|Epithelial(43;4.33e-16)|OV - Ovarian serous cystadenocarcinoma(60;6.62e-09)|STAD - Stomach adenocarcinoma(60;0.00278)|GBM - Glioblastoma multiforme(59;0.00659)|LUSC - Lung squamous cell carcinoma(193;0.0919)		GATCTTTTAGTATCTTTCTGT	0.453													51	91					0	0	0.00361	0	0		C	174312470	C	C	174312470	3	2	202	1	0	0	0	0	1	0	0	0	13961	1628	57	3	208	3	SCRG1	4	174312470	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	9917654	174312470	16841806	197	99085											
SLC6A18	348932	broad.mit.edu	37	chr5	1243678	1243678	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtgtattgcagagtgcctcGggcccgggcctggccttcgt	3	10	15	13	4	0	1	0	0	0	1	2	1	0	1	4	3	2	2	4	3	1	3	rs151263479	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:1243678G>A	uc003jby.1	+	9	1263	c.1140G>A	c.(1138-1140)TCG>TCA	p.S380S		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	380	Extracellular (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			AGAGTGCCTCGGGCCCGGGCC	0.652													22	62					0	0	0.003954	0	0		A	1243678	A	A	1243678	2	1	202	1	0	0	0	0	0	0	0	1	14706	1103	39	1		1	SLC6A18	5	1243678	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		1243678	179671582	198	99086											
SEMA5A	9037	broad.mit.edu	37	chr5	9190505	9190505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactggctgtaccacctcatGcatcagaatgaacttctgag	11	10	8	12	0	3	3	2	2	1	1	3	3	3	3	2	1	3	3	2	1	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:9190505G>A	uc003jek.2	-	11	1859	c.1147C>T	c.(1147-1149)CAT>TAT	p.H383Y		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	383	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						ACCACCTCATGCATCAGAATG	0.577													15	34					0	0	0.004007	0	0		A	9190505	A	A	9190505	3	1	202	1	0	0	0	0	1	0	0	0	14062	1319	46	2	2129	2	SEMA5A	5	9190505	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7946827	9190505	171724755	199	99087											
DNAH5	1767	broad.mit.edu	37	chr5	13871844	13871844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgccaaatgtgattgtagcGtttgaagcaatccatggatg	11	13	11	6	1	0	2	0	2	0	0	1	3	1	3	2	1	3	3	2	1	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:13871844G>A	uc003jfd.2	-	23	3469	c.3427C>T	c.(3427-3429)CGC>TGC	p.R1143C		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	1143	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					TGATTGTAGCGTTTGAAGCAA	0.343									Kartagener_syndrome				3	12					0	0	0.009096	0	0		A	13871844	A	A	13871844	3	1	202	1	0	0	0	0	1	0	0	0	4610	1145	40	1	10675	1	DNAH5	5	13871844	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4681339	13871844	167043416	200	99088											
TRIO	7204	broad.mit.edu	37	chr5	14389425	14389425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggaaatgaccagtggcGtggaagagattccacctggc	10	8	15	8	1	0	2	0	1	0	1	1	5	1	4	3	4	0	0	3	4	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:14389425G>A	uc003jff.2	+	25	3982	c.3976G>A	c.(3976-3978)GTG>ATG	p.V1326M	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Missense_Mutation_p.V1277M|TRIO_uc003jfh.1_Missense_Mutation_p.V975M	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1326	DH 1.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GACCAGTGGCGTGGAAGAGAT	0.398													8	11					0	0	0.008291	0	0		A	14389425	A	A	14389425	3	1	202	1	0	0	0	0	1	0	0	0	16578	1145	40	1	4074	1	TRIO	5	14389425	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	517581	14389425	166525835	201	99089											
MYO10	4651	broad.mit.edu	37	chr5	16701363	16701363	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagcagcaccgtgctgtcCgcactggggctggtgggcac	5	6	17	13	3	0	0	0	0	0	0	1	1	1	0	2	4	3	6	2	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:16701363C>T	uc003jft.3	-	25	3609	c.3141G>A	c.(3139-3141)GCG>GCA	p.A1047A	MYO10_uc011cnc.1_5'Flank|MYO10_uc011cnd.1_Silent_p.A404A|MYO10_uc011cne.1_Silent_p.A404A|MYO10_uc010itx.2_Silent_p.A670A	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1047					axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						CCGTGCTGTCCGCACTGGGGC	0.637													5	15					0	0	0.001168	0	0		T	16701363	T	T	16701363	2	4	202	1	0	0	0	0	0	0	0	1	10080	639	23	1		1	MYO10	5	16701363	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2311938	16701363	164213897	202	99090											
CDH10	1008	broad.mit.edu	37	chr5	24593378	24593378	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaagcttaccttgcctacGtactgataatcagatcctgt	11	12	6	12	1	1	2	1	1	0	1	2	2	2	2	3	0	5	2	3	0	5	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:24593378G>A	uc003jgr.1	-	2	554	c.222C>T	c.(220-222)TAC>TAT	p.Y74Y	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	74	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		CCTTGCCTACGTACTGATAAT	0.333										HNSCC(23;0.051)			4	38					0	0	0.000602	0	0		A	24593378	A	A	24593378	2	1	202	1	0	0	0	0	0	0	0	1	3099	1140	40	1		1	CDH10	5	24593378	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7892015	24593378	156321882	203	99091											
UGT3A2	167127	broad.mit.edu	37	chr5	36037950	36037950	+	Missense_Mutation	SNP	A	G	G	1	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	gagccaatgtctctgccttgAgcttctttaactgaatagaa	11	13	8	9	0	2	3	0	2	2	1	3	4	2	3	2	0	4	1	2	0	5	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:36037950A>G	uc003jjz.1	-	6	1337	c.1244T>C	c.(1243-1245)CTC>CCC	p.L415P	UGT3A2_uc011cos.1_Missense_Mutation_p.L381P|UGT3A2_uc011cot.1_Missense_Mutation_p.L113P	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	415	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTCTGCCTTGAGCTTCTTTAA	0.453													7	95					0	0	0.006214	0	0		G	36037950	G	G	36037950	3	3	202	1	0	0	0	0	1	0	0	0	16990	304	11	3	335	3	UGT3A2	5	36037950	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	11444572	36037950	144877310	204	99092											
EGFLAM	133584	broad.mit.edu	37	chr5	38352305	38352305	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcatcccacctagattcctgCctgcctcctgcagctcccca	6	10	5	20	0	1	1	1	0	0	1	5	1	5	1	8	0	4	2	8	0	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:38352305C>A	uc003jlc.1	+	5	741	c.417C>A	c.(415-417)TGC>TGA	p.C139*	EGFLAM_uc003jlb.1_Nonsense_Mutation_p.C139*	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	139						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					TAGATTCCTGCCTGCCTCCTG	0.562													26	84					2.81731e-10	2.9968e-10	0.002096	1	0		A	38352305	A	A	38352305	4	1	202	1	0	0	0	0	0	1	0	0	4972	747	26	5	435	5	EGFLAM	5	38352305	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2314355	38352305	142562955	205	99093											
HCN1	348980	broad.mit.edu	37	chr5	45262136	45262136	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtgctggagggactcctcGgttcggggggatggctcccg	3	8	20	10	3	0	0	0	0	0	0	4	3	2	3	2	8	1	3	2	8	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:45262136G>A	uc003jok.2	-	8	2585	c.2560C>T	c.(2560-2562)CGA>TGA	p.R854*		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	854	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GGGACTCCTCGGTTCGGGGGG	0.632													32	76					0	0	0.003755	0	0		A	45262136	A	A	45262136	4	1	202	1	0	0	0	0	0	1	0	0	7012	1124	39	1	116	1	HCN1	5	45262136	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6909831	45262136	135653124	206	99094											
C5orf35	133383	broad.mit.edu	37	chr5	56208890	56208890	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagtccattggaaatccGtttatttttagatgcctgga	9	16	8	8	1	0	1	0	0	0	1	3	3	3	3	4	2	1	1	4	2	3	7	rs146080809	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:56208890G>A	uc003jqx.2	+	3	892	c.519G>A	c.(517-519)CCG>CCA	p.P173P	C5orf35_uc003jqy.2_RNA	NM_153706	NP_714917	Q8NE22	CE035_HUMAN	hypothetical protein LOC133383	173										ovary(1)	1		Lung NSC(810;0.000861)|Prostate(74;0.0305)|Breast(144;0.173)		OV - Ovarian serous cystadenocarcinoma(10;2.58e-39)		TTGGAAATCCGTTTATTTTTA	0.348													4	52					0	0	0.001168	0	0		A	56208890	A	A	56208890	2	1	202	1	0	0	0	0	0	0	0	1	2297	1132	40	1		1	C5orf35	5	56208890	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	10946754	56208890	124706370	207	99095											
ERBB2IP	55914	broad.mit.edu	37	chr5	65320241	65320243	+	In_Frame_Del	DEL	ATC	-	-																															aaccttcaagacctcctattAtcaagcaattcacttcagca																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:65320241_65320243delATC	uc003juk.1	+	10	1088_1090	c.780_782delATC	c.(778-783)TTATCA>TTA	p.S262del	ERBB2IP_uc003juh.1_In_Frame_Del_p.S262del|ERBB2IP_uc003jui.1_In_Frame_Del_p.S262del|ERBB2IP_uc003juj.1_In_Frame_Del_p.S262del|ERBB2IP_uc011cqx.1_In_Frame_Del_p.S262del|ERBB2IP_uc011cqy.1_In_Frame_Del_p.S262del|ERBB2IP_uc011cqz.1_In_Frame_Del_p.S262del|ERBB2IP_uc010iwx.1_In_Frame_Del_p.S262del|ERBB2IP_uc003jul.1_In_Frame_Del_p.S262del	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2	262	LRR 11.				basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		ACCTCCTATTATCAAGCAATTCA	0.31													15	25	---	---	---	---						.	-	65320243	-	-	65320241	7	5	202	1	0	1	0	1	0	0	0	0	5215	446	16	0	810	0	ERBB2IP	5	65320241	In_Frame_Del	DEL	ATC	TCGA-HJ-7597-01A-21D-2201-08	9111351	65320241	115595019	208	99096											
BDP1	55814	broad.mit.edu	37	chr5	70791221	70791221	+	Frame_Shift_Del	DEL	A	-	-																															gaagaaagaaatgttgacctAaaaaataattcactgtaagt																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:70791221delA	uc003kbp.1	+	12	2048	c.1785delA	c.(1783-1785)CTAfs	p.L595fs	BDP1_uc003kbn.1_Frame_Shift_Del_p.L595fs|BDP1_uc003kbo.2_Frame_Shift_Del_p.L595fs	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	595					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		ATGTTGACCTAAAAAATAATT	0.303													12	27	---	---	---	---						.	-	70791221	-	-	70791221	7	5	202	1	0	1	0	1	0	0	0	0	1396	349	13	0	1831	0	BDP1	5	70791221	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	5470980	70791221	110124039	209	99097											
MAP1B	4131	broad.mit.edu	37	chr5	71490625	71490625	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcatccagcaaaccctgcGgagaaaatcatccgagtcct	12	7	9	13	2	1	1	1	0	0	1	4	3	4	1	4	2	3	2	4	2	3	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:71490625G>A	uc003kbw.3	+	5	1684	c.1443G>A	c.(1441-1443)GCG>GCA	p.A481A	MAP1B_uc010iyw.1_Silent_p.A498A|MAP1B_uc010iyx.1_Silent_p.A355A|MAP1B_uc010iyy.1_Silent_p.A355A	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	481						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CAAACCCTGCGGAGAAAATCA	0.463													11	57					0	0	0.001368	0	0		A	71490625	A	A	71490625	2	1	202	1	0	0	0	0	0	0	0	1	9246	1103	39	1		1	MAP1B	5	71490625	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	699404	71490625	109424635	210	99098											
GFM2	84340	broad.mit.edu	37	chr5	74054702	74054702	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatcttgtatatccggaataGtacaatattctttctgtggt	10	17	8	6	1	3	0	0	0	3	0	4	2	4	1	1	2	1	2	1	2	7	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:74054702G>A	uc003kdh.1	-	5	580	c.276C>T	c.(274-276)TAC>TAT	p.Y92Y	GFM2_uc003kdi.1_Silent_p.Y92Y|GFM2_uc010izj.1_Silent_p.Y124Y|GFM2_uc010izk.1_RNA|GFM2_uc003kdj.1_Silent_p.Y92Y|GFM2_uc010izl.1_Silent_p.Y92Y	NM_032380	NP_115756	Q969S9	RRF2M_HUMAN	mitochondrial elongation factor G2 isoform 1	92					mitochondrial translation|ribosome disassembly	mitochondrion	GTP binding|GTPase activity				0		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Breast(144;0.231)		OV - Ovarian serous cystadenocarcinoma(47;1.86e-56)		ATCCGGAATAGTACAATATTC	0.363													5	35					0	0	0.00308	0	0		A	74054702	A	A	74054702	2	1	202	1	0	0	0	0	0	0	0	1	6357	1024	36	4		4	GFM2	5	74054702	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2564077	74054702	106860558	211	99099											
S100Z	170591	broad.mit.edu	37	chr5	76171212	76171212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cccagctcgagatggccatgGacaccatgattagaatcttc	11	9	9	12	1	1	3	0	1	1	2	3	5	1	4	3	2	1	1	3	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:76171212G>A	uc003kep.1	+	3	358	c.28G>A	c.(28-30)GAC>AAC	p.D10N	S100Z_uc003keq.3_Missense_Mutation_p.D10N	NM_130772	NP_570128	Q8WXG8	S100Z_HUMAN	S100 calcium binding protein Z	10							calcium ion binding			ovary(1)	1		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;8.91e-51)|Epithelial(54;5.43e-45)|all cancers(79;1.82e-40)		GATGGCCATGGACACCATGAT	0.532													4	27					0	0	0.009096	0	0		A	76171212	A	A	76171212	3	1	202	1	0	0	0	0	1	0	0	0	13817	1174	41	4	30	4	S100Z	5	76171212	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2116510	76171212	104744048	212	99100											
CMYA5	202333	broad.mit.edu	37	chr5	79054697	79054697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcaggtttactgcatggaGgagccacaagatgatcaaga	13	10	11	7	0	2	3	2	1	0	2	2	5	2	5	1	3	3	2	1	3	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:79054697G>T	uc003kgc.2	+	7	11304	c.11232G>T	c.(11230-11232)GAG>GAT	p.E3744D		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3744	Fibronectin type-III 1.					perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ACTGCATGGAGGAGCCACAAG	0.373													11	37					9.05144e-12	9.66107e-12	0.001855	1	0		T	79054697	T	T	79054697	3	4	202	1	0	0	0	0	1	0	0	0	3593	991	35	5	11258	5	CMYA5	5	79054697	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2883485	79054697	101860563	213	99101											
RASGRF2	5924	broad.mit.edu	37	chr5	80513294	80513294	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctccaaaatgagaatggTaggtataatttcataattag	15	15	7	4	0	2	1	1	1	1	1	3	2	2	1	1	2	0	2	1	2	8	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:80513294T>C	uc003kha.1	+	25	3552	c.3552_splice	c.e25+2	p.M1184_splice	RNU5E_uc011cto.1_Intron|RASGRF2_uc011ctn.1_Splice_Site	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		ATGAGAATGGTAGGTATAATT	0.338													16	25					0	0	0.007413	0	0		C	80513294	C	C	80513294	5	2	202	1	0	0	0	0	0	0	1	0	13098	1652	57	3	3652	3	RASGRF2	5	80513294	Splice_Site	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1458597	80513294	100401966	214	99102											
VCAN	1462	broad.mit.edu	37	chr5	82816273	82816275	+	In_Frame_Del	DEL	AGA	-	-																															agtccatttatgggaaaaacAgaagaagaagtcttctctgg																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:82816273_82816275delAGA	uc003kii.3	+	7	2504_2506	c.2148_2150delAGA	c.(2146-2151)ACAGAA>ACA	p.E719del	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_In_Frame_Del_p.E719del|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	719	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGGGAAAAACAGAAGAAGAAGTC	0.369													6	9	---	---	---	---						.	-	82816275	-	-	82816273	7	5	202	1	0	1	0	1	0	0	0	0	17164	175	7	0	2170	0	VCAN	5	82816273	In_Frame_Del	DEL	AGA	TCGA-HJ-7597-01A-21D-2201-08	2302979	82816273	98098987	215	99103											
EFNA5	1946	broad.mit.edu	37	chr5	106717055	106717055	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcgccgcgggatggctcGgctgactcatgtacggtgtc	4	11	14	12	5	2	1	1	1	1	0	5	2	2	2	1	4	1	3	1	4	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:106717055G>A	uc003kol.2	-	5	870	c.588C>T	c.(586-588)GCC>GCT	p.A196A		NM_001962	NP_001953	P52803	EFNA5_HUMAN	ephrin-A5 precursor	196					cell-cell signaling	anchored to plasma membrane|caveola|extracellular space	ephrin receptor binding				0		all_cancers(142;5.15e-06)|all_epithelial(76;4.39e-07)|Prostate(80;0.00726)|Lung NSC(167;0.0736)|Ovarian(225;0.0797)|all_lung(232;0.0854)|Colorectal(57;0.241)		Epithelial(69;1.25e-12)|OV - Ovarian serous cystadenocarcinoma(64;1.32e-11)|BRCA - Breast invasive adenocarcinoma(61;0.0376)|COAD - Colon adenocarcinoma(37;0.109)		GGGATGGCTCGGCTGACTCAT	0.493													4	33					0	0	0.009096	0	0		A	106717055	A	A	106717055	2	1	202	1	0	0	0	0	0	0	0	1	4960	1103	39	1		1	EFNA5	5	106717055	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	23900782	106717055	74198205	216	99104											
PJA2	9867	broad.mit.edu	37	chr5	108719145	108719145	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgacatatatggcagcGtctgtgtgaccagttcagta	10	12	11	8	1	2	2	1	2	1	0	2	2	2	2	1	1	1	3	1	1	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:108719145G>A	uc003kos.3	-	2	210	c.-10C>T	c.(-12--8)GACGC>GATGC			NM_014819	NP_055634	O43164	PJA2_HUMAN	praja 2, RING-H2 motif containing						long-term memory|regulation of protein kinase A signaling cascade	cell junction|endoplasmic reticulum membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	ligase activity|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(142;4.4e-06)|all_epithelial(76;8.17e-08)|Prostate(80;0.00676)|Lung NSC(167;0.0436)|Ovarian(225;0.0443)|all_lung(232;0.053)|Colorectal(57;0.0946)|Breast(839;0.151)		OV - Ovarian serous cystadenocarcinoma(64;3.46e-10)|Epithelial(69;6.02e-09)|COAD - Colon adenocarcinoma(37;0.224)		atatggcagcgtctgtgtgac	0													6	55					0	0	0.004482	0	0		A	108719145	A	A	108719145	1	1	202	1	0	0	0	0	0	0	0	0	11981	1160	40	1		1	PJA2	5	108719145	Translation_Start_Site	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2002090	108719145	72196115	217	99105											
FSTL4	23105	broad.mit.edu	37	chr5	132552921	132552921	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actccattaaagaggtgtacCtgtaggactttctgggcttg	9	13	11	8	0	1	1	0	0	1	1	2	2	2	2	2	3	1	3	2	3	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:132552921C>A	uc003kyn.1	-	13	1826	c.1608G>T	c.(1606-1608)CAG>CAT	p.Q536H	FSTL4_uc003kym.1_Missense_Mutation_p.Q185H	NM_015082	NP_055897	Q6MZW2	FSTL4_HUMAN	follistatin-like 4 precursor	536						extracellular region	calcium ion binding			central_nervous_system(1)|skin(1)	2		all_cancers(142;0.244)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGAGGTGTACCTGTAGGACTT	0.522													13	42					2.23348e-06	2.33591e-06	0.004007	1	0		A	132552921	A	A	132552921	3	1	202	1	0	0	0	0	1	0	0	0	6093	695	24	5	936	5	FSTL4	5	132552921	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	23833776	132552921	48362339	218	99106											
CDC25C	995	broad.mit.edu	37	chr5	137622195	137622195	+	Frame_Shift_Del	DEL	C	-	-																															tagacactcacattcgggggCccctctctgaggagaattca																								rs66784649		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:137622195delC	uc003lcp.1	-	12	1422	c.1151delG	c.(1150-1152)GGCfs	p.G384fs	CDC25C_uc003lcq.1_Frame_Shift_Del_p.G311fs|CDC25C_uc003lcr.1_Frame_Shift_Del_p.G384fs|CDC25C_uc011cyp.1_Frame_Shift_Del_p.G401fs|CDC25C_uc003lcs.1_Frame_Shift_Del_p.G462fs	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a	384	Rhodanese.				cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CATTCGGGGGCCCCTCTCTGA	0.478													29	67	---	---	---	---						.	-	137622195	-	-	137622195	7	5	202	1	0	1	0	1	0	0	0	0	3067	739	26	0	282	0	CDC25C	5	137622195	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	5069274	137622195	43293065	219	99107											
FAM53C	51307	broad.mit.edu	37	chr5	137677044	137677044	+	Missense_Mutation	SNP	A	T	T	1	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	catgataaccctgatcactgAgcagctacagaagcagactc	14	7	8	12	0	1	5	1	3	0	2	2	5	1	5	1	0	5	3	1	0	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:137677044A>T	uc003lcv.2	+	2	490	c.20A>T	c.(19-21)GAG>GTG	p.E7V	CDC25C_uc011cyp.1_5'Flank|CDC25C_uc003lcs.1_5'Flank|FAM53C_uc003lcw.2_Missense_Mutation_p.E7V|FAM53C_uc011cyq.1_RNA|FAM53C_uc011cyr.1_Intron	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	7										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CTGATCACTGAGCAGCTACAG	0.502													9	134					0	0	0.008291	0	0		T	137677044	T	T	137677044	3	4	202	1	0	0	0	0	1	0	0	0	5595	304	11	5	22	5	FAM53C	5	137677044	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	54849	137677044	43238216	220	99108											
LRRTM2	26045	broad.mit.edu	37	chr5	138209269	138209269	+	Silent	SNP	G	A	A	0	0	1	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	tcccaccgaccttggaaactGcccagccaggaggccagagc	10	4	11	16	1	0	1	0	0	0	1	1	4	1	3	6	3	4	0	6	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:138209269G>A	uc011cyz.1	-	2	1438	c.981C>T	c.(979-981)GGC>GGT	p.G327G	CTNNA1_uc003ldh.2_Intron|CTNNA1_uc011cyx.1_Intron|CTNNA1_uc011cyy.1_Intron|CTNNA1_uc003ldi.2_Intron|CTNNA1_uc003ldj.2_Intron|LRRTM2_uc010jez.2_Intron|LRRTM2_uc011cza.1_Silent_p.G193G|CTNNA1_uc003ldl.2_5'Flank	NM_015564	NP_056379	O43300	LRRT2_HUMAN	leucine rich repeat transmembrane neuronal 2	327	Extracellular (Potential).|LRRCT.					cell junction|integral to membrane|postsynaptic membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CTTGGAAACTGCCCAGCCAGG	0.537													11	38					0	0	0.000978	0	0		A	138209269	A	A	138209269	2	1	202	1	0	0	0	0	0	0	0	1	9058	1306	46	2		2	LRRTM2	5	138209269	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	532225	138209269	42705991	221	99109											
PCDHA4	56144	broad.mit.edu	37	chr5	140186857	140186857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgggaggcagggaacGgtcagctccactactcggtc	8	6	14	13	2	1	0	1	0	0	0	4	2	2	2	2	5	4	2	2	5	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140186857G>A	uc003lhi.2	+	1	186	c.85G>A	c.(85-87)GGT>AGT	p.G29S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.G29S|PCDHA4_uc011daa.1_Missense_Mutation_p.G29S	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	29					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCAGGGAACGGTCAGCTCCA	0.632													31	74					0	0	0.009535	0	0		A	140186857	A	A	140186857	3	1	202	1	0	0	0	0	1	0	0	0	11545	1116	39	1	87	1	PCDHA4	5	140186857	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1977588	140186857	40728403	222	99110											
PCDHA4	56144	broad.mit.edu	37	chr5	140188890	140188890	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcattgccatctgcgcGgtgtccagccttttggtgct	4	14	11	12	2	2	1	1	1	1	0	3	1	3	1	3	2	4	1	3	2	0	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140188890G>A	uc003lhi.2	+	1	2219	c.2118G>A	c.(2116-2118)GCG>GCA	p.A706A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.A706A|PCDHA4_uc011daa.1_Silent_p.A706A	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	706	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCATCTGCGCGGTGTCCAGCC	0.672													5	84					0	0	0.001168	0	0		A	140188890	A	A	140188890	2	1	202	1	0	0	0	0	0	0	0	1	11545	1103	39	1		1	PCDHA4	5	140188890	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2033	140188890	40726370	223	99111											
PCDHA6	56142	broad.mit.edu	37	chr5	140209767	140209767	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggcgctggtggatgtcaaCgtgtacctgatcatcgccat	7	10	13	11	4	2	1	2	1	0	0	3	2	2	2	2	3	2	2	2	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140209767C>T	uc003lho.2	+	1	2118	c.2091C>T	c.(2089-2091)AAC>AAT	p.N697N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Silent_p.N697N	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	697	Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGATGTCAACGTGTACCTGA	0.682													21	81					0	0	0.00278	0	0		T	140209767	T	T	140209767	2	4	202	1	0	0	0	0	0	0	0	1	11547	535	19	1		1	PCDHA6	5	140209767	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	20877	140209767	40705493	224	99112											
PCDHA8	56140	broad.mit.edu	37	chr5	140221046	140221046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacggcaccttcgtgggccGgatcgcgcaggacctggggc	6	5	16	14	5	0	0	0	0	0	0	2	2	0	2	3	6	0	2	3	6	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140221046G>A	uc003lhs.2	+	1	140	c.140G>A	c.(139-141)CGG>CAG	p.R47Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.R47Q	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	47	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGTGGGCCGGATCGCGCAG	0.662													37	67					0	0	0.00874	0	0		A	140221046	A	A	140221046	3	1	202	1	0	0	0	0	1	0	0	0	11549	1116	39	1	142	1	PCDHA8	5	140221046	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	11279	140221046	40694214	225	99113											
PCDHA11	56138	broad.mit.edu	37	chr5	140249968	140249968	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaactggtggtgactgcgcGggatgggggttcgccttctc	4	11	17	9	3	1	2	0	2	1	0	3	3	1	3	1	5	2	1	1	5	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140249968G>A	uc003lia.2	+	1	2138	c.1280G>A	c.(1279-1281)CGG>CAG	p.R427Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.R427Q	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	427	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGACTGCGCGGGATGGGGGT	0.617													7	239					0	0	0.008291	0	0		A	140249968	A	A	140249968	3	1	202	1	0	0	0	0	1	0	0	0	11540	1116	39	1	1282	1	PCDHA11	5	140249968	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	28922	140249968	40665292	226	99114											
PCDHA11	56138	broad.mit.edu	37	chr5	140250122	140250122	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatcttcacagtgtcggcGcgggacgcggacgcgcagga	8	5	15	13	7	2	0	1	0	1	0	3	3	2	3	0	4	0	1	0	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140250122G>A	uc003lia.2	+	1	2292	c.1434G>A	c.(1432-1434)GCG>GCA	p.A478A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.A478A	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	478	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGTGTCGGCGCGGGACGCGG	0.667													36	127					0	0	0.007835	0	0		A	140250122	A	A	140250122	2	1	202	1	0	0	0	0	0	0	0	1	11540	1074	38	1		1	PCDHA11	5	140250122	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	154	140250122	40665138	227	99115											
PCDHA12	56137	broad.mit.edu	37	chr5	140256792	140256792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcaggaggcgcagttagcGagttggtaccgcggtcggtg	6	7	19	9	6	0	0	0	0	0	0	1	2	0	1	1	5	2	5	1	5	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140256792G>A	uc003lic.2	+	1	1862	c.1735G>A	c.(1735-1737)GAG>AAG	p.E579K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.E579K	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	579	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCAGTTAGCGAGTTGGTACC	0.667													49	125					0	0	0.00361	0	0		A	140256792	A	A	140256792	3	1	202	1	0	0	0	0	1	0	0	0	11541	1059	37	1	1737	1	PCDHA12	5	140256792	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6670	140256792	40658468	228	99116											
PCDHB2	56133	broad.mit.edu	37	chr5	140475679	140475679	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacacccaggctgaaaacCgagcacaacataaccgtgct	14	4	10	13	2	0	1	0	1	0	0	0	3	0	2	3	2	5	3	3	2	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140475679C>A	uc003lil.2	+	1	1443	c.1305C>A	c.(1303-1305)ACC>ACA	p.T435T	PCDHB2_uc003lim.1_Silent_p.T96T	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	435	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCTGAAAACCGAGCACAACA	0.577													22	207					1.55795e-14	1.68597e-14	0.001882	1	0		A	140475679	A	A	140475679	2	1	202	1	0	0	0	0	0	0	0	1	11561	639	23	5		5	PCDHB2	5	140475679	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	218887	140475679	40439581	229	99117											
PCDHB7	56129	broad.mit.edu	37	chr5	140553577	140553577	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acagtgtgctccatccaggaCgatgtccccttcatcctgaa	9	10	8	14	1	1	1	1	1	0	0	5	3	5	2	5	1	1	1	5	1	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140553577C>T	uc003lit.2	+	1	1335	c.1161C>T	c.(1159-1161)GAC>GAT	p.D387D		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	387	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCATCCAGGACGATGTCCCCT	0.473													11	19					0	0	0.000978	0	0		T	140553577	T	T	140553577	2	4	202	1	0	0	0	0	0	0	0	1	11566	535	19	1		1	PCDHB7	5	140553577	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	77898	140553577	40361683	230	99118											
PCDHGA8	9708	broad.mit.edu	37	chr5	140774370	140774370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcacgctcaccgtagccGtggctgacagcatccccgaa	8	7	10	16	4	2	1	2	1	0	0	3	2	3	1	4	1	2	4	4	1	2	1	rs143444747	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:140774370G>A	uc003lkd.1	+	1	2888	c.1990G>A	c.(1990-1992)GTG>ATG	p.V664M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkb.3_Missense_Mutation_p.V664M	NM_032088	NP_114477	Q9Y5G5	PCDG8_HUMAN	protocadherin gamma subfamily A, 8 isoform 1	664	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCGTAGCCGTGGCTGACAG	0.627													20	44					0	0	0.010504	0	0		A	140774370	A	A	140774370	3	1	202	1	0	0	0	0	1	0	0	0	11579	1145	40	1	1992	1	PCDHGA8	5	140774370	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	220793	140774370	40140890	231	99119											
PCDH12	51294	broad.mit.edu	37	chr5	141325097	141325097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaccgagagccgccgcagcGcctcggaggcggcctccacg	7	2	15	17	7	0	2	0	0	0	2	2	4	1	3	6	3	2	1	6	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:141325097G>A	uc003llx.2	-	4	4615	c.3404C>T	c.(3403-3405)GCG>GTG	p.A1135V		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	1135	Cytoplasmic (Potential).				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCGCCGCAGCGCCTCGGAGGC	0.647													5	12					0	0	0.001984	0	0		A	141325097	A	A	141325097	3	1	202	1	0	0	0	0	1	0	0	0	11529	1087	38	1	154	1	PCDH12	5	141325097	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	550727	141325097	39590163	232	99120											
PDGFRB	5159	broad.mit.edu	37	chr5	149515165	149515165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcatcggtctccagtccaCgggagtcattgtgggtgcaa	7	10	13	11	2	3	0	2	0	1	0	6	1	4	1	2	3	1	2	2	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:149515165C>T	uc003lro.2	-	3	786	c.317G>A	c.(316-318)CGT>CAT	p.R106H	PDGFRB_uc010jhd.2_Translation_Start_Site|PDGFRB_uc011dcg.1_Missense_Mutation_p.R106H	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	106	Extracellular (Potential).|Ig-like C2-type 1.				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CTCCAGTCCACGGGAGTCATT	0.577			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								33	81					0	0	0.006999	0	0		T	149515165	T	T	149515165	3	4	202	1	0	0	0	0	1	0	0	0	11681	536	19	1	3087	1	PDGFRB	5	149515165	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8190068	149515165	31400095	233	99121											
GRIA1	2890	broad.mit.edu	37	chr5	153030051	153030051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtggactgtgaatcagaaCgcctcaatgctatcttgggc	9	11	12	9	1	3	2	2	1	1	1	3	3	3	3	1	3	2	1	1	3	4	2	rs146865938	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:153030051C>T	uc003lva.3	+	4	987	c.622C>T	c.(622-624)CGC>TGC	p.R208C	GRIA1_uc003luy.3_Missense_Mutation_p.R208C|GRIA1_uc003luz.3_Missense_Mutation_p.R113C|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.R128C|GRIA1_uc011dcx.1_Missense_Mutation_p.R139C|GRIA1_uc011dcy.1_Missense_Mutation_p.R218C|GRIA1_uc011dcz.1_Missense_Mutation_p.R218C|GRIA1_uc010jia.1_Missense_Mutation_p.R188C	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	208	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	TGAATCAGAACGCCTCAATGC	0.527													9	34					0	0	0.006214	0	0		T	153030051	T	T	153030051	3	4	202	1	0	0	0	0	1	0	0	0	6783	536	19	1	636	1	GRIA1	5	153030051	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3514886	153030051	27885209	234	99122											
GEMIN5	25929	broad.mit.edu	37	chr5	154272096	154272096	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagggtcaagtcatggcaaAtgtgaagcaggagctggaga	13	6	15	7	0	2	2	2	1	0	1	2	4	2	3	1	4	2	3	1	4	3	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:154272096A>T	uc003lvx.3	-	25	3694	c.3611T>A	c.(3610-3612)ATT>AAT	p.I1204N	GEMIN5_uc011ddk.1_Missense_Mutation_p.I1203N	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	1204					ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			GTCATGGCAAATGTGAAGCAG	0.577													4	30					0	0	0.009096	0	0		T	154272096	T	T	154272096	3	4	202	1	0	0	0	0	1	0	0	0	6346	101	4	5	931	5	GEMIN5	5	154272096	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1242045	154272096	26643164	235	99123											
PWWP2A	114825	broad.mit.edu	37	chr5	159520771	159520771	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtacatttttcgtttgggtcGcttaattttccgaggaggtg	6	17	12	6	3	0	0	0	0	0	0	3	2	1	1	1	3	1	3	1	3	2	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:159520771G>A	uc011ded.1	-	2	943	c.886C>T	c.(886-888)CGA>TGA	p.R296*	PWWP2A_uc003lxv.3_Nonsense_Mutation_p.R296*|PWWP2A_uc011dec.1_Nonsense_Mutation_p.R296*	NM_001130864	NP_001124336	Q96N64	PWP2A_HUMAN	PWWP domain containing 2A isoform b	296											0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CGTTTGGGTCGCTTAATTTTC	0.423													14	56					0	0	0.006122	0	0		A	159520771	A	A	159520771	4	1	202	1	0	0	0	0	0	1	0	0	12870	1095	38	1	1527	1	PWWP2A	5	159520771	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5248675	159520771	21394489	236	99124											
MAT2B	27430	broad.mit.edu	37	chr5	162945289	162945289	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttgggcattggccaacgaAcaccatttcgaattggaatc	11	10	9	11	2	0	0	0	0	0	0	2	3	0	1	3	3	2	1	3	3	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:162945289A>G	uc003lzk.2	+	7	1033	c.925A>G	c.(925-927)ACA>GCA	p.T309A	MAT2B_uc003lzj.2_Missense_Mutation_p.T298A|MAT2B_uc003lzl.1_3'UTR|MAT2B_uc003lzm.2_Missense_Mutation_p.T49A	NM_013283	NP_037415	Q9NZL9	MAT2B_HUMAN	methionine adenosyltransferase II, beta isoform	309					extracellular polysaccharide biosynthetic process|methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol|methionine adenosyltransferase complex|nucleus	dTDP-4-dehydrorhamnose reductase activity|methionine adenosyltransferase regulator activity|protein binding			upper_aerodigestive_tract(1)	1	Renal(175;0.000281)	Medulloblastoma(196;0.0208)|all_neural(177;0.0765)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.027)|OV - Ovarian serous cystadenocarcinoma(192;0.0406)|Epithelial(171;0.0797)	L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	TGGCCAACGAACACCATTTCG	0.433													7	17					0	0	0.004482	0	0		G	162945289	G	G	162945289	3	3	202	1	0	0	0	0	1	0	0	0	9349	43	2	3	985	3	MAT2B	5	162945289	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	3424518	162945289	17969971	237	99125											
DOCK2	1794	broad.mit.edu	37	chr5	169108866	169108866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caactgataaaatcacagagCgtatcaaagaagaaatggtg	19	7	9	6	1	2	4	2	1	0	3	2	4	2	4	0	1	2	1	0	1	7	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:169108866C>T	uc003maf.2	+	7	669	c.589C>T	c.(589-591)CGT>TGT	p.R197C	DOCK2_uc011der.1_RNA	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	197					actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AATCACAGAGCGTATCAAAGA	0.383													4	36					0	0	0.001984	0	0		T	169108866	T	T	169108866	3	4	202	1	0	0	0	0	1	0	0	0	4693	768	27	1	615	1	DOCK2	5	169108866	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6163577	169108866	11806394	238	99126											
RGS14	10636	broad.mit.edu	37	chr5	176793219	176793219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagggccagggcgagggcCgcggcagctctctcagcatc	6	4	15	16	3	2	0	1	0	1	0	4	1	2	0	3	4	2	3	3	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:176793219C>T	uc003mgf.2	+	3	291	c.109C>T	c.(109-111)CGC>TGC	p.R37C	RGS14_uc003mgg.1_5'Flank|RGS14_uc003mgh.2_5'Flank|RGS14_uc003mgi.2_5'Flank	NM_006480	NP_006471	O43566	RGS14_HUMAN	regulator of G-protein signalling 14	37					chromosome segregation|long-term memory|long-term synaptic potentiation|negative regulation of ERK1 and ERK2 cascade|negative regulation of MAP kinase activity|negative regulation of synaptic plasticity|nucleocytoplasmic transport|platelet-derived growth factor receptor signaling pathway|positive regulation of neurogenesis|regulation of DNA-dependent transcription in response to stress|regulation of G-protein coupled receptor protein signaling pathway|response to oxidative stress|spindle organization|visual learning|zygote asymmetric cell division	cell junction|centrosome|dendritic spine|microtubule|PML body|postsynaptic density|postsynaptic membrane|spindle pole	GDP-dissociation inhibitor activity|GTPase activator activity|microtubule binding|receptor signaling complex scaffold activity|receptor signaling protein activity			lung(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGGCGAGGGCCGCGGCAGCTC	0.697													5	21					0	0	0.001168	0	0		T	176793219	T	T	176793219	3	4	202	1	0	0	0	0	1	0	0	0	13322	652	23	1	119	1	RGS14	5	176793219	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7684353	176793219	4122041	239	99127											
SQSTM1	8878	broad.mit.edu	37	chr5	179263532	179263532	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctcctgcagaccaagaActatgacatcggagcggctc	11	6	11	13	2	0	3	0	1	0	2	3	4	1	4	2	3	3	3	2	3	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:179263532A>G	uc003mkw.3	+	8	1357	c.1262A>G	c.(1261-1263)AAC>AGC	p.N421S	SQSTM1_uc011dgr.1_Missense_Mutation_p.N337S|SQSTM1_uc011dgs.1_Missense_Mutation_p.N337S|SQSTM1_uc003mkv.3_Missense_Mutation_p.T338A|SQSTM1_uc003mkx.2_Missense_Mutation_p.N337S	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	421	Interaction with NTRK1 (By similarity).|UBA.				anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CAGACCAAGAACTATGACATC	0.592									Paget_Disease_of_Bone				30	87					0	0	0.008361	0	0		G	179263532	G	G	179263532	3	3	202	1	0	0	0	0	1	0	0	0	15155	43	2	3	1292	3	SQSTM1	5	179263532	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2470313	179263532	1651728	240	99128											
GFPT2	9945	broad.mit.edu	37	chr5	179734305	179734305	+	Splice_Site	SNP	T	C	C	0	1	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	agcacttccttgatcagctcTgggccatgcacggagcagag	9	8	12	12	1	2	2	1	1	1	1	3	3	3	3	2	2	4	4	2	2	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:179734305T>C	uc003mlw.1	-	16	1645	c.1547_splice	c.e16-1	p.E516_splice		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2						dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	TGATCAGCTCTGGGCCATGCA	0.537													16	37					0	0	0.001882	0	0		C	179734305	C	C	179734305	5	2	202	1	0	0	0	0	0	0	1	0	6361	1594	55	3	519	3	GFPT2	5	179734305	Splice_Site	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	470773	179734305	1180955	241	99129											
CNOT6	57472	broad.mit.edu	37	chr5	179992921	179992921	+	Frame_Shift_Del	DEL	A	-	-																															cgctaaactgggactacaggAaaaaggccattattcaagaa																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr5:179992921delA	uc003mlx.2	+	7	1010	c.661delA	c.(661-663)AAAfs	p.K221fs	CNOT6_uc010jld.2_Frame_Shift_Del_p.K221fs|CNOT6_uc010jle.2_Frame_Shift_Del_p.K216fs	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	221					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		GGACTACAGGAAAAAGGCCAT	0.418													16	36	---	---	---	---						.	-	179992921	-	-	179992921	7	5	202	1	0	1	0	1	0	0	0	0	3625	247	9	0	683	0	CNOT6	5	179992921	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	258616	179992921	922339	242	99130											
EXOC2	55770	broad.mit.edu	37	chr6	576834	576834	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatggcccaacactgagggaCgtgtatcattatcaagatcc	12	9	10	10	1	2	2	2	1	0	1	3	4	3	3	2	2	1	1	2	2	4	2	rs145867129		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:576834C>T	uc003mtd.2	-	12	1375	c.1241G>A	c.(1240-1242)CGT>CAT	p.R414H	EXOC2_uc003mte.2_Missense_Mutation_p.R414H|EXOC2_uc011dho.1_Missense_Mutation_p.R9H	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	414					exocytosis|protein transport					breast(4)|ovary(2)|pancreas(1)	7	Ovarian(93;0.0733)	Breast(5;0.0014)|all_lung(73;0.0697)|all_hematologic(90;0.0897)		OV - Ovarian serous cystadenocarcinoma(45;0.0507)|BRCA - Breast invasive adenocarcinoma(62;0.14)		CACTGAGGGACGTGTATCATT	0.502													21	51					0	0	0.002299	0	0		T	576834	T	T	576834	3	4	202	1	0	0	0	0	1	0	0	0	5310	536	19	1	1601	1	EXOC2	6	576834	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		576834	170538233	243	99131											
MYLK4	340156	broad.mit.edu	37	chr6	2675355	2675355	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcgcttgcacttattcGccaactagaaggaaattcag	12	11	8	10	2	1	1	1	0	0	1	3	2	1	2	1	1	3	3	1	1	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:2675355G>A	uc003mty.3	-	11	1342	c.1045C>T	c.(1045-1047)CGA>TGA	p.R349*	MYLK4_uc003mtx.3_Nonsense_Mutation_p.R64*	NM_001012418	NP_001012418	Q86YV6	MYLK4_HUMAN	myosin light chain kinase family, member 4	349	Protein kinase.						ATP binding|protein serine/threonine kinase activity			breast(3)|ovary(1)	4	Ovarian(93;0.0412)	all_hematologic(90;0.0897)				GCACTTATTCGCCAACTAGAA	0.512													3	22					0	0	0.009096	0	0		A	2675355	A	A	2675355	4	1	202	1	0	0	0	0	0	1	0	0	10077	1095	38	1	129	1	MYLK4	6	2675355	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2098521	2675355	168439712	244	99132											
C6orf146	222826	broad.mit.edu	37	chr6	4073578	4073578	+	Splice_Site	SNP	T	G	G	0	1	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	agatcccttgtttactattcTgatgacagaaaaataatggg	14	13	8	6	0	1	4	0	2	1	2	2	4	2	4	1	1	1	1	1	1	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:4073578T>G	uc003mvx.2	-	6	575	c.235_splice	c.e6-1	p.N79_splice	C6orf146_uc010jnq.1_Splice_Site|C6orf146_uc003mvy.2_Splice_Site_p.N16_splice	NM_173563	NP_775834	Q8IXS0	CF146_HUMAN	hypothetical protein LOC222826											ovary(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				TTTACTATTCTGATGACAGAA	0.303													4	21					0	0	0.009096	0	0		G	4073578	G	G	4073578	5	3	202	1	0	0	0	0	0	0	1	0	2338	1594	55	5	1301	5	C6orf146	6	4073578	Splice_Site	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1398223	4073578	167041489	245	99133											
PECI	10455	broad.mit.edu	37	chr6	4125528	4125528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaatagcccaaggagggtgaCggagatgcccacagctggac	12	4	15	10	1	0	2	0	1	0	1	0	6	0	4	2	4	3	1	2	4	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:4125528C>T	uc003mwf.2	-	7	788	c.751G>A	c.(751-753)GTC>ATC	p.V251I	C6orf201_uc003mwa.3_Intron|C6orf201_uc003mvz.3_RNA|C6orf201_uc011dhw.1_3'UTR|C6orf201_uc003mwb.3_RNA|PECI_uc003mwc.2_Missense_Mutation_p.V84I|PECI_uc003mwd.2_Missense_Mutation_p.V221I|PECI_uc003mwe.2_Missense_Mutation_p.V98I|PECI_uc010jnr.1_Intron	NM_206836	NP_996667	O75521	ECI2_HUMAN	peroxisomal D3,D2-enoyl-CoA isomerase isoform 2	251	ECH-like.				fatty acid metabolic process	mitochondrion|peroxisomal matrix	dodecenoyl-CoA delta-isomerase activity|fatty-acyl-CoA binding				0	Ovarian(93;0.0925)	all_hematologic(90;0.0895)				AGGAGGGTGACGGAGATGCCC	0.493													5	45					0	0	0.000602	0	0		T	4125528	T	T	4125528	3	4	202	1	0	0	0	0	1	0	0	0	11735	536	19	1	449	1	PECI	6	4125528	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	51950	4125528	166989539	246	99134											
CD83	9308	broad.mit.edu	37	chr6	14131847	14131847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaaatggttctttcgacGcccccaatgaaaggccctat	11	9	9	12	2	1	1	0	1	1	0	2	2	1	1	3	3	0	2	3	3	5	3	rs147342996		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:14131847G>A	uc003nbi.2	+	3	428	c.250G>A	c.(250-252)GCC>ACC	p.A84T	CD83_uc003nbh.2_Missense_Mutation_p.A84T	NM_004233	NP_004224	Q01151	CD83_HUMAN	CD83 antigen isoform a	84	Extracellular (Potential).|Ig-like V-type.				defense response|humoral immune response|signal transduction	integral to plasma membrane					0	Breast(50;0.00245)|Ovarian(93;0.137)	all_hematologic(90;0.117)				TTCTTTCGACGCCCCCAATGA	0.542													8	60					0	0	0.004482	0	0		A	14131847	A	A	14131847	3	1	202	1	0	0	0	0	1	0	0	0	3044	1087	38	1	260	1	CD83	6	14131847	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	10006319	14131847	156983220	247	99135											
NHLRC1	378884	broad.mit.edu	37	chr6	18122356	18122356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctctccaaactgatgcGcgcatcctccccctgagtca	7	10	6	18	2	2	2	1	2	1	0	6	2	5	2	5	0	2	1	5	0	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:18122356G>A	uc003ncl.1	-	1	496	c.482C>T	c.(481-483)GCG>GTG	p.A161V		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	161	NHL 2.				proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			AAACTGATGCGCGCATCCTCC	0.602													19	49					0	0	0.007413	0	0		A	18122356	A	A	18122356	3	1	202	1	0	0	0	0	1	0	0	0	10424	1087	38	1	709	1	NHLRC1	6	18122356	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3990509	18122356	152992711	248	99136											
DEK	7913	broad.mit.edu	37	chr6	18237613	18237613	+	Frame_Shift_Del	DEL	T	-	-																															aatgttatttctaacataccTtttttggaactgttttgatt																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:18237613delT	uc003ncr.1	-	8	1090	c.897delA	c.(895-897)AAAfs	p.K299fs	DEK_uc011djf.1_Frame_Shift_Del_p.K265fs|DEK_uc011djg.1_RNA	NM_003472	NP_003463	P35659	DEK_HUMAN	DEK oncogene isoform 1	299					chromatin modification|regulation of transcription from RNA polymerase II promoter|signal transduction|transcription from RNA polymerase II promoter|viral genome replication	nucleus	DNA binding|histone binding			kidney(1)	1	Ovarian(93;0.00769)|Breast(50;0.0495)	all_hematologic(90;0.053)	OV - Ovarian serous cystadenocarcinoma(7;0.00291)|all cancers(50;0.031)|Epithelial(50;0.0332)			CTAACATACCTTTTTTGGAAC	0.313			T	NUP214	AML								8	17	---	---	---	---						.	-	18237613	-	-	18237613	7	5	202	1	0	1	0	1	0	0	0	0	4430	1623	56	0	246	0	DEK	6	18237613	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08	115257	18237613	152877454	249	99137											
HIST1H2BF	8343	broad.mit.edu	37	chr6	26200079	26200079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccagggagatccagacggCcgtacgcctgctgctgcccg	6	6	13	16	4	0	2	0	0	0	2	2	3	2	2	5	2	4	3	5	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:26200079C>T	uc003ngx.2	+	1	293	c.293C>T	c.(292-294)GCC>GTC	p.A98V	HIST1H3D_uc003ngv.2_5'Flank|HIST1H2AD_uc003ngw.2_5'Flank	NM_003522	NP_003513	P62807	H2B1C_HUMAN	histone cluster 1, H2bf	98					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding				0		all_hematologic(11;0.196)				ATCCAGACGGCCGTACGCCTG	0.597													28	115					0	0	0.005443	0	0		T	26200079	T	T	26200079	3	4	202	1	0	0	0	0	1	0	0	0	7161	739	26	2	295	2	HIST1H2BF	6	26200079	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7962466	26200079	144914988	250	99138											
HIST1H2AE	3012	broad.mit.edu	37	chr6	26217297	26217297	+	Missense_Mutation	SNP	A	G	G	1	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	gtttccagttggccgtgtgcAccgcctcctccgcaaaggca	6	9	11	15	3	0	0	0	0	0	0	3	0	3	0	6	2	1	5	6	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:26217297A>G	uc003nha.1	+	1	150	c.95A>G	c.(94-96)CAC>CGC	p.H32R	HIST1H2BG_uc003ngz.2_5'Flank	NM_021052	NP_066390	P04908	H2A1B_HUMAN	histone cluster 1, H2ae	32					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|skin(1)	2		all_hematologic(11;0.196)				GGCCGTGTGCACCGCCTCCTC	0.597													11	35					0	0	0.000978	0	0		G	26217297	G	G	26217297	3	3	202	1	0	0	0	0	1	0	0	0	7148	159	6	3	97	3	HIST1H2AE	6	26217297	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	17218	26217297	144897770	251	99139											
DDR1	780	broad.mit.edu	37	chr6	30856514	30856514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatcaggagctatgggacCagaggccctgtcatctttac	9	9	13	10	0	3	1	2	0	1	1	3	4	3	4	2	4	2	1	2	4	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:30856514C>T	uc003nrr.2	+	3	267	c.8C>T	c.(7-9)CCA>CTA	p.P3L	DDR1_uc010jse.2_Missense_Mutation_p.P3L|DDR1_uc003nrq.2_Missense_Mutation_p.P3L|DDR1_uc003nrs.2_Missense_Mutation_p.P3L|DDR1_uc003nrt.2_Missense_Mutation_p.P3L|DDR1_uc011dms.1_Missense_Mutation_p.P21L|DDR1_uc011dmt.1_Missense_Mutation_p.P29L|DDR1_uc003nru.2_Missense_Mutation_p.P3L|DDR1_uc011dmu.1_Missense_Mutation_p.P3L|DDR1_uc003nrv.2_Missense_Mutation_p.P3L|DDR1_uc003nrw.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	3					cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	GCTATGGGACCAGAGGCCCTG	0.542													5	24					0	0	0.006214	0	0		T	30856514	T	T	30856514	3	4	202	1	0	0	0	0	1	0	0	0	4339	594	21	4	10	4	DDR1	6	30856514	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4639217	30856514	140258553	252	99140											
VARS2	57176	broad.mit.edu	37	chr6	30887544	30887544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcccttcagcatctacacGggcgacagcttcgtcacccc	7	9	7	18	3	3	0	2	0	1	0	5	1	4	0	3	1	3	2	3	1	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:30887544G>A	uc003nsc.1	+	11	1716	c.1084G>A	c.(1084-1086)GGG>AGG	p.G362R	VARS2_uc011dmx.1_Missense_Mutation_p.G362R|VARS2_uc011dmy.1_Missense_Mutation_p.G222R|VARS2_uc011dmz.1_Missense_Mutation_p.G392R|VARS2_uc011dna.1_Missense_Mutation_p.G362R|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_5'UTR|VARS2_uc010jsg.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	362					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						GCATCTACACGGGCGACAGCT	0.587													82	257					0	0	0.00361	0	0		A	30887544	A	A	30887544	3	1	202	1	0	0	0	0	1	0	0	0	17150	1116	39	1	1220	1	VARS2	6	30887544	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	31030	30887544	140227523	253	99141											
C6orf27	80737	broad.mit.edu	37	chr6	31733790	31733790	+	Missense_Mutation	SNP	A	G	G	1	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	ccgctgaatctgggacctccAgccacaggcggccccaggcc	7	4	12	18	2	1	1	0	1	1	0	2	2	2	2	7	4	1	1	7	4	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:31733790A>G	uc011dog.1	-	16	2607	c.2369T>C	c.(2368-2370)CTG>CCG	p.L790P		NM_025258	NP_079534	Q9Y334	G7C_HUMAN	G7c protein precursor	790						extracellular region				ovary(3)	3						TGGGACCTCCAGCCACAGGCG	0.622													35	103					0	0	0.007835	0	0		G	31733790	G	G	31733790	3	3	202	1	0	0	0	0	1	0	0	0	2365	188	7	3	313	3	C6orf27	6	31733790	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	846246	31733790	139381277	254	99142											
C6orf48	50854	broad.mit.edu	37	chr6	31807422	31807422	+	Silent	SNP	A	G	G	1	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	agctgtcaccttattgggggAaaaatgcctgaaaattaggg	13	10	12	6	0	1	1	1	1	0	0	1	2	1	2	2	3	2	1	2	3	6	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:31807422A>G	uc003rjx.1	+	5	723	c.210A>G	c.(208-210)GGA>GGG	p.G70G	C6orf48_uc003rjy.1_Silent_p.G70G|C6orf48_uc003rjz.1_RNA	NM_001040437	NP_001035527	Q9UBA6	G8_HUMAN	G8 protein	70											0						TTATTGGGGGAAAAATGCCTG	0.368													12	31					0	0	0.00245	0	0		G	31807422	G	G	31807422	2	3	202	1	0	0	0	0	0	0	0	1	2368	233	9	3		3	C6orf48	6	31807422	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	73632	31807422	139307645	255	99143											
TNXB	7148	broad.mit.edu	37	chr6	32063535	32063535	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacacacactggcctgcccGgcacagttcccggggcccgc	7	4	11	19	3	0	0	0	0	0	0	1	0	1	0	4	4	1	2	4	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:32063535G>A	uc003nzl.2	-	3	2297	c.2095C>T	c.(2095-2097)CGG>TGG	p.R699W		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	699	EGF-like 18.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TGGCCTGCCCGGCACAGTTCC	0.682													6	23					0	0	0.001168	0	0		A	32063535	A	A	32063535	3	1	202	1	0	0	0	0	1	0	0	0	16371	1115	39	1	12786	1	TNXB	6	32063535	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	256113	32063535	139051532	256	99144											
GPSM3	63940	broad.mit.edu	37	chr6	32159934	32159934	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtaggggtacctgtgtggcGggtccctggaggaggagggg	5	7	23	6	1	0	0	0	0	0	0	1	3	1	3	2	10	1	2	2	10	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:32159934G>A	uc003oay.3	-	2	529	c.136C>T	c.(136-138)CGC>TGC	p.R46C	PBX2_uc003oav.1_5'Flank|PBX2_uc003oaw.2_5'Flank|GPSM3_uc003oax.3_Silent_p.P35P|GPSM3_uc003oaz.2_Missense_Mutation_p.R46C	NM_022107	NP_071390	Q9Y4H4	GPSM3_HUMAN	G-protein signaling modulator 3 (AGS3-like, C.	46					signal transduction	cytoplasm	GTPase activator activity|protein binding				0						CCTGTGTGGCGGGTCCCTGGA	0.662													7	29					0	0	0.004482	0	0		A	32159934	A	A	32159934	3	1	202	1	0	0	0	0	1	0	0	0	6752	1116	39	1	358	1	GPSM3	6	32159934	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	96399	32159934	138955133	257	99145											
NOTCH4	4855	broad.mit.edu	37	chr6	32187491	32187491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agcctgtgtagccaggtggaCagaggcagttgaaggagcca	11	6	16	8	0	0	2	0	1	0	1	0	4	0	4	3	4	3	3	3	4	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:32187491C>T	uc003obb.2	-	8	1527	c.1388G>A	c.(1387-1389)TGT>TAT	p.C463Y	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Missense_Mutation_p.C463Y	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	463	EGF-like 11; calcium-binding (Potential).|Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						GCCAGGTGGACAGAGGCAGTT	0.607													7	14					0	0	0.001984	0	0		T	32187491	T	T	32187491	3	4	202	1	0	0	0	0	1	0	0	0	10570	478	17	4	4715	4	NOTCH4	6	32187491	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	27557	32187491	138927576	258	99146											
ITPR3	3710	broad.mit.edu	37	chr6	33623607	33623607	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcagtactggaaggccaaGcagactaagcaggacaagga	17	3	13	8	0	0	1	0	0	0	1	0	4	0	4	1	4	4	4	1	4	6	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:33623607G>A	uc011drk.1	+	3	444	c.225G>A	c.(223-225)AAG>AAA	p.K75K		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	75	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GGAAGGCCAAGCAGACTAAGC	0.562													17	51					0	0	0.006122	0	0		A	33623607	A	A	33623607	2	1	202	1	0	0	0	0	0	0	0	1	7938	962	34	2		2	ITPR3	6	33623607	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1436116	33623607	137491460	259	99147											
NUDT3	11165	broad.mit.edu	37	chr6	34309655	34309655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atacctcctcacagacttcaCgaactgctgccacacttggc	10	9	6	16	1	2	1	2	0	0	1	3	2	3	1	3	1	4	1	3	1	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:34309655C>T	uc003ojl.2	-	2	496	c.194G>A	c.(193-195)CGT>CAT	p.R65H		NM_006703	NP_006694	O95989	NUDT3_HUMAN	nudix-type motif 3	65	Nudix box.|Nudix hydrolase.				cell-cell signaling|diadenosine polyphosphate catabolic process|diphosphoinositol polyphosphate catabolic process	cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|magnesium ion binding				0						ACAGACTTCACGAACTGCTGC	0.527													6	52					0	0	0.004482	0	0		T	34309655	T	T	34309655	3	4	202	1	0	0	0	0	1	0	0	0	10759	536	19	1	340	1	NUDT3	6	34309655	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	686048	34309655	136805412	260	99148											
SLC26A8	116369	broad.mit.edu	37	chr6	35919042	35919042	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaggcaaacagcacggcGtcgtgaacgctgaggaacag	14	3	14	10	4	0	2	0	2	0	0	1	4	0	3	0	3	4	3	0	3	4	0	rs143363265		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:35919042G>A	uc003olm.2	-	19	2481	c.2370C>T	c.(2368-2370)GAC>GAT	p.D790D	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Silent_p.D372D|SLC26A8_uc003oln.2_Silent_p.D790D|SLC26A8_uc003oll.2_Silent_p.D685D	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	790	Interaction with RACGAP1.|STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						ACAGCACGGCGTCGTGAACGC	0.488													5	38					0	0	0.000602	0	0		A	35919042	A	A	35919042	2	1	202	1	0	0	0	0	0	0	0	1	14548	1136	40	1		1	SLC26A8	6	35919042	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1609387	35919042	135196025	261	99149											
PI16	221476	broad.mit.edu	37	chr6	36929281	36929281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcccacttctgtgagaagCtccagggtgttgaggagacc	8	10	13	10	0	1	3	0	2	1	2	3	5	3	3	3	2	1	3	3	2	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:36929281C>T	uc003ona.2	+	3	776	c.448C>T	c.(448-450)CTC>TTC	p.L150F	PI16_uc003omz.1_Missense_Mutation_p.L150F|PI16_uc003onb.2_Missense_Mutation_p.L150F|PI16_uc011dts.1_5'UTR	NM_153370	NP_699201	Q6UXB8	PI16_HUMAN	protease inhibitor 16 precursor	150	Extracellular (Potential).					extracellular region|integral to membrane	peptidase inhibitor activity				0						CTGTGAGAAGCTCCAGGGTGT	0.577													30	79					0	0	0.004878	0	0		T	36929281	T	T	36929281	3	4	202	1	0	0	0	0	1	0	0	0	11888	797	28	2	458	2	PI16	6	36929281	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1010239	36929281	134185786	262	99150											
RNF8	9025	broad.mit.edu	37	chr6	37336726	37336726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggttcatcatgagcagaaagCctcaaactcttcagcatctc	12	10	7	12	0	6	2	4	1	2	1	7	2	6	2	1	1	4	3	1	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:37336726C>T	uc003onq.3	+	3	900	c.707C>T	c.(706-708)GCC>GTC	p.A236V	RNF8_uc003onr.3_Missense_Mutation_p.A236V|RNF8_uc011dtx.1_Missense_Mutation_p.A168V	NM_003958	NP_003949	O76064	RNF8_HUMAN	ring finger protein 8 isoform 1	236					cell division|double-strand break repair|histone H2A ubiquitination|histone H2B ubiquitination|mitosis|positive regulation of DNA repair|response to ionizing radiation	midbody|nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1						GAGCAGAAAGCCTCAAACTCT	0.473													3	38					0	0	0.000602	0	0		T	37336726	T	T	37336726	3	4	202	1	0	0	0	0	1	0	0	0	13525	739	26	2	717	2	RNF8	6	37336726	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	407445	37336726	133778341	263	99151											
DNAH8	1769	broad.mit.edu	37	chr6	38875809	38875809	+	Silent	SNP	T	C	C	0	1	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	gtgatgaagagggagctaccTcgccatcctcctacctttga	9	10	10	12	1	0	4	0	3	0	1	3	5	2	5	5	1	3	1	5	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:38875809T>C	uc003ooe.1	+	62	9375	c.8775T>C	c.(8773-8775)CCT>CCC	p.P2925P	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GGGAGCTACCTCGCCATCCTC	0.388													8	23					0	0	0.00308	0	0		C	38875809	C	C	38875809	2	2	202	1	0	0	0	0	0	0	0	1	4613	1538	54	3		3	DNAH8	6	38875809	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1539083	38875809	132239258	264	99152											
KIF6	221458	broad.mit.edu	37	chr6	39325124	39325124	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaatggcttcgtgtgatcGagtgaattcactgctggaga	11	11	13	6	2	1	4	1	2	0	2	3	6	1	4	0	2	1	2	0	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:39325124G>A	uc003oot.2	-	19	2204	c.2109C>T	c.(2107-2109)CTC>CTT	p.L703L	KIF6_uc003oos.2_Silent_p.L154L|KIF6_uc010jwz.1_Silent_p.L78L|KIF6_uc010jxa.1_Silent_p.L494L|KIF6_uc011dua.1_Silent_p.L686L|KIF6_uc010jxb.1_Silent_p.L647L	NM_145027	NP_659464	Q6ZMV9	KIF6_HUMAN	kinesin family member 6	703					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			breast(2)|central_nervous_system(1)	3						TCGTGTGATCGAGTGAATTCA	0.438													14	49					0	0	0.006122	0	0		A	39325124	A	A	39325124	2	1	202	1	0	0	0	0	0	0	0	1	8324	1045	37	1		1	KIF6	6	39325124	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	449315	39325124	131789943	265	99153											
CNPY3	10695	broad.mit.edu	37	chr6	42905564	42905564	+	Missense_Mutation	SNP	A	C	C	1	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	gacttctgcagaggtggctgAcctcaagaagcaggtacagg	11	7	14	9	0	2	3	1	1	1	2	2	4	2	3	1	4	3	4	1	4	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:42905564A>C	uc003ota.3	+	4	931	c.482A>C	c.(481-483)GAC>GCC	p.D161A	CNPY3_uc003osy.2_RNA|CNPY3_uc003osz.2_Missense_Mutation_p.D161A|CNPY3_uc003otc.3_Missense_Mutation_p.D36A|CNPY3_uc003otb.3_Missense_Mutation_p.D72A	NM_006586	NP_006577	Q9BT09	CNPY3_HUMAN	trinucleotide repeat containing 5 precursor	161	Saposin B-type.|Potential.				innate immune response	endoplasmic reticulum				ovary(1)	1	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)			GAGGTGGCTGACCTCAAGAAG	0.567													24	91					0	0	0.00333	0	0		C	42905564	C	C	42905564	3	2	202	1	0	0	0	0	1	0	0	0	3632	275	10	5	496	5	CNPY3	6	42905564	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	3580440	42905564	128209503	266	99154											
MEP1A	4224	broad.mit.edu	37	chr6	46801266	46801266	+	Missense_Mutation	SNP	A	G	G	1	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	tcactacctcgaagtcgcacAcatctccaggtgggtggtgt	8	10	11	12	2	2	0	1	0	1	0	5	1	2	0	2	3	1	1	2	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:46801266A>G	uc010jzh.1	+	11	1642	c.1600A>G	c.(1600-1602)ACA>GCA	p.T534A	MEP1A_uc011dwg.1_Missense_Mutation_p.T256A|MEP1A_uc011dwh.1_Missense_Mutation_p.T562A|MEP1A_uc011dwi.1_Missense_Mutation_p.T434A	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	534	MATH.|Extracellular (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			GAAGTCGCACACATCTCCAGG	0.507													6	62					0	0	0.001168	0	0		G	46801266	G	G	46801266	3	3	202	1	0	0	0	0	1	0	0	0	9493	159	6	3	1642	3	MEP1A	6	46801266	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	3895702	46801266	124313801	267	99155											
KIAA1586	57691	broad.mit.edu	37	chr6	56917622	56917622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcaaaggaaccacatttcGagtatattgaacaaccaatc	17	8	7	9	1	0	1	0	1	0	0	2	3	0	2	2	2	3	2	2	2	7	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:56917622G>A	uc003pdj.2	+	4	495	c.325G>A	c.(325-327)GAG>AAG	p.E109K	KIAA1586_uc011dxm.1_Missense_Mutation_p.E82K	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	109							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			ACCACATTTCGAGTATATTGA	0.333													7	11					0	0	0.001984	0	0		A	56917622	A	A	56917622	3	1	202	1	0	0	0	0	1	0	0	0	8261	1059	37	1	339	1	KIAA1586	6	56917622	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	10116356	56917622	114197445	268	99156											
EYS	346007	broad.mit.edu	37	chr6	66204803	66204803	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagaactgctgtttcactgtCacatttagtcgaagtcccag	10	12	8	11	1	2	1	2	0	0	1	4	2	3	1	1	0	2	2	1	0	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:66204803C>G	uc011dxu.1	-	4	1039	c.501G>C	c.(499-501)GTG>GTC	p.V167V	EYS_uc003peq.2_Silent_p.V167V|EYS_uc003per.1_Silent_p.V167V|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	167					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						GTTTCACTGTCACATTTAGTC	0.433													6	28					0	0	0.001168	0	0		G	66204803	G	G	66204803	2	3	202	1	0	0	0	0	0	0	0	1	5340	813	29	5		5	EYS	6	66204803	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	9287181	66204803	104910264	269	99157											
ZNF292	23036	broad.mit.edu	37	chr6	87970954	87970954	+	Frame_Shift_Del	DEL	A	-	-																															tttgaagagagttaataaggAaaaaaatgtctcacaaaata																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:87970954delA	uc003plm.3	+	8	7648	c.7607delA	c.(7606-7608)GAAfs	p.E2536fs		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2536					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		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)		GTTAATAAGGAAAAAAATGTC	0.343													5	7	---	---	---	---						.	-	87970954	-	-	87970954	7	5	202	1	0	1	0	1	0	0	0	0	17851	246	9	0	7637	0	ZNF292	6	87970954	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	21766151	87970954	83144113	270	99158											
SOBP	55084	broad.mit.edu	37	chr6	107827633	107827633	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcataaagccaccagcaggTaagtcactactggtgttttc	11	12	8	10	0	2	0	2	0	0	0	3	0	2	0	2	2	3	3	2	2	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:107827633T>C	uc003prx.2	+	3	925	c.421_splice	c.e3+2	p.E141_splice	SOBP_uc003prw.1_Splice_Site_p.E141_splice	NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog								metal ion binding			ovary(1)	1		all_cancers(87;5.26e-06)|Acute lymphoblastic leukemia(125;2.87e-08)|all_hematologic(75;1.14e-06)|all_epithelial(87;0.00193)|Colorectal(196;0.156)		BRCA - Breast invasive adenocarcinoma(108;0.026)|all cancers(137;0.087)|Epithelial(106;0.104)|OV - Ovarian serous cystadenocarcinoma(136;0.154)		CACCAGCAGGTAAGTCACTAC	0.393													31	72					0	0	0.002445	0	0		C	107827633	C	C	107827633	5	2	202	1	0	0	0	0	0	0	1	0	14937	1652	57	3	433	3	SOBP	6	107827633	Splice_Site	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	19856679	107827633	63287434	271	99159											
SCML4	256380	broad.mit.edu	37	chr6	108067962	108067962	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctgctggtgggcgcagtCgatgcaggcttggacggcct	4	10	16	11	3	1	0	0	0	1	0	2	2	1	1	1	5	2	4	1	5	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:108067962C>T	uc010kdf.2	-	4	669	c.418G>A	c.(418-420)GAC>AAC	p.D140N	SCML4_uc003prz.3_Missense_Mutation_p.D82N|SCML4_uc011eam.1_Missense_Mutation_p.D140N|SCML4_uc003psa.3_Missense_Mutation_p.D111N	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	140					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		TGGGCGCAGTCGATGCAGGCT	0.642													31	93					0	0	0.004878	0	0		T	108067962	T	T	108067962	3	4	202	1	0	0	0	0	1	0	0	0	13936	884	31	1	846	1	SCML4	6	108067962	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	240329	108067962	63047105	272	99160											
SMPD2	6610	broad.mit.edu	37	chr6	109764279	109764279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccgcattgactacgtgcttTacaaggtcaggctcctccct	7	12	8	14	2	1	1	1	1	0	0	4	1	4	1	3	2	3	3	3	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:109764279T>C	uc003pti.2	+	8	1118	c.724T>C	c.(724-726)TAC>CAC	p.Y242H	PPIL6_uc003ptg.3_5'Flank|PPIL6_uc010kdo.2_5'Flank|PPIL6_uc010kdp.2_5'Flank|PPIL6_uc003pth.1_5'Flank	NM_003080	NP_003071	O60906	NSMA_HUMAN	sphingomyelin phosphodiesterase 2, neutral	242					induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|sphingomyelin metabolic process	integral to plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity				0		all_cancers(87;1.1e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000144)|all_lung(197;0.0221)|Colorectal(196;0.0488)|Lung SC(18;0.0548)		Epithelial(106;0.0137)|all cancers(137;0.0188)|OV - Ovarian serous cystadenocarcinoma(136;0.0228)|BRCA - Breast invasive adenocarcinoma(108;0.0566)		CTACGTGCTTTACAAGGTCAG	0.498													5	18					0	0	0.001168	0	0		C	109764279	C	C	109764279	3	2	202	1	0	0	0	0	1	0	0	0	14830	1754	61	3	754	3	SMPD2	6	109764279	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1696317	109764279	61350788	273	99161											
LAMA4	3910	broad.mit.edu	37	chr6	112454679	112454679	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatatctaggggaaggtgtgCtctgagggccctggaaaaga	11	8	16	6	0	2	2	0	1	2	1	2	5	2	4	1	5	1	1	1	5	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:112454679C>A	uc003pvu.2	-	27	3877	c.3568G>T	c.(3568-3570)GCA>TCA	p.A1190S	LAMA4_uc003pvv.2_Missense_Mutation_p.A1183S|LAMA4_uc003pvt.2_Missense_Mutation_p.A1183S	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1190	Laminin G-like 2.				cell adhesion|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	extracellular matrix structural constituent|receptor binding			ovary(4)|breast(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	9		all_cancers(87;0.000196)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0335)|OV - Ovarian serous cystadenocarcinoma(136;0.0578)|Epithelial(106;0.0748)|BRCA - Breast invasive adenocarcinoma(108;0.242)		GGAAGGTGTGCTCTGAGGGCC	0.448													10	27					3.27435e-08	3.45154e-08	0.00245	1	0		A	112454679	A	A	112454679	3	1	202	1	0	0	0	0	1	0	0	0	8624	797	28	5	1955	5	LAMA4	6	112454679	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2690400	112454679	58660388	274	99162											
C6orf204	387119	broad.mit.edu	37	chr6	118953649	118953649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaacaggaagttccaatgcCagtgtctccactgtcagaag	13	8	10	10	0	2	2	1	0	1	2	4	3	3	3	3	1	2	1	3	1	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:118953649C>T	uc003pxz.1	-	2	787	c.199G>A	c.(199-201)GGC>AGC	p.G67S	C6orf204_uc003pya.1_Missense_Mutation_p.G70S|C6orf204_uc003pyb.2_Missense_Mutation_p.G67S|C6orf204_uc011ebj.1_5'UTR|C6orf204_uc003pyc.2_Missense_Mutation_p.G70S|C6orf204_uc011ebl.1_5'UTR	NM_001042475	NP_001035940	Q5SZL2	CF204_HUMAN	chromosome 6 open reading frame 204 isoform a	67						centrosome				breast(1)	1		all_cancers(87;0.0814)|all_epithelial(87;0.115)		GBM - Glioblastoma multiforme(226;0.0114)|all cancers(137;0.035)|OV - Ovarian serous cystadenocarcinoma(136;0.0618)		GTTCCAATGCCAGTGTCTCCA	0.403													14	40					0	0	0.003163	0	0		T	118953649	T	T	118953649	3	4	202	1	0	0	0	0	1	0	0	0	2356	594	21	4	2320	4	C6orf204	6	118953649	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6498970	118953649	52161418	275	99163											
EYA4	2070	broad.mit.edu	37	chr6	133783519	133783519	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cagcagctcaaacaatgtctGcctatgcaggccagactcag	12	7	9	13	0	3	1	2	0	1	1	3	1	3	1	2	1	5	3	2	1	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:133783519G>A	uc003qec.3	+	8	942	c.484G>A	c.(484-486)GCC>ACC	p.A162T	EYA4_uc011ecq.1_Missense_Mutation_p.A108T|EYA4_uc011ecr.1_Missense_Mutation_p.A108T|EYA4_uc003qed.3_Missense_Mutation_p.A162T|EYA4_uc003qee.3_Missense_Mutation_p.A139T|EYA4_uc011ecs.1_Missense_Mutation_p.A162T|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	162					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		AACAATGTCTGCCTATGCAGG	0.468													10	108					0	0	0.001368	0	0		A	133783519	A	A	133783519	3	1	202	1	0	0	0	0	1	0	0	0	5339	1319	46	2	510	2	EYA4	6	133783519	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	14829870	133783519	37331548	276	99164											
SLC2A12	154091	broad.mit.edu	37	chr6	134312334	134312334	+	Missense_Mutation	SNP	A	G	G	1	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	cctggattggcccctaccacAcagcttgttacactccaaga	10	9	7	15	0	0	1	0	0	0	1	1	2	1	2	5	2	3	2	5	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:134312334A>G	uc003qem.1	-	5	1984	c.1813T>C	c.(1813-1815)TGT>CGT	p.C605R		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	605	Cytoplasmic (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		CCCCTACCACACAGCTTGTTA	0.463													27	105					0	0	0.00632	0	0		G	134312334	G	G	134312334	3	3	202	1	0	0	0	0	1	0	0	0	14566	159	6	3	44	3	SLC2A12	6	134312334	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	528815	134312334	36802733	277	99165											
LRP11	84918	broad.mit.edu	37	chr6	150141737	150141737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attcctcagatgtaatgggaCgagcttttttcagtttctgt	8	17	9	7	1	3	1	2	0	1	1	4	3	4	2	1	1	1	3	1	1	1	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:150141737C>T	uc003qng.2	-	7	1775	c.1451G>A	c.(1450-1452)CGT>CAT	p.R484H		NM_032832	NP_116221	Q86VZ4	LRP11_HUMAN	low density lipoprotein receptor-related protein	484	Cytoplasmic (Potential).					integral to membrane	receptor activity				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;4.56e-12)|GBM - Glioblastoma multiforme(68;0.225)		TGTAATGGGACGAGCTTTTTT	0.448													9	16					0	0	0.004482	0	0		T	150141737	T	T	150141737	3	4	202	1	0	0	0	0	1	0	0	0	8971	536	19	1	55	1	LRP11	6	150141737	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	15829403	150141737	20973330	278	99166											
ARID1B	57492	broad.mit.edu	37	chr6	157488279	157488279	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgaacacgcaggcgccGccctacagcatggcgcccgc	8	4	12	17	5	0	2	0	2	0	0	0	2	0	2	3	2	3	2	3	2	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:157488279G>A	uc003qqn.2	+	9	2924	c.2772G>A	c.(2770-2772)CCG>CCA	p.P924P	ARID1B_uc003qqo.2_Silent_p.P937P|ARID1B_uc003qqp.2_Silent_p.P924P|ARID1B_uc010kjl.2_Silent_p.P122P	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	982					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		CGCAGGCGCCGCCCTACAGCA	0.612													6	99					0	0	0.001984	0	0		A	157488279	A	A	157488279	2	1	202	1	0	0	0	0	0	0	0	1	914	1074	38	1		1	ARID1B	6	157488279	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7346542	157488279	13626788	279	99167											
ACAT2	39	broad.mit.edu	37	chr6	160198409	160198409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtgggcttacacctttagCacggatagtttcctggtccc	7	12	10	12	2	0	0	0	0	0	0	2	1	2	1	3	3	2	3	3	3	3	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:160198409C>T	uc010kjy.2	+	7	964	c.833C>T	c.(832-834)GCA>GTA	p.A278V	ACAT2_uc011efw.1_Missense_Mutation_p.A307V	NM_005891	NP_005882	Q9BWD1	THIC_HUMAN	acetyl-Coenzyme A acetyltransferase 2	278						mitochondrion|nucleolus	acetyl-CoA C-acetyltransferase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.51e-18)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		ACACCTTTAGCACGGATAGTT	0.433													7	31					0	0	0.001984	0	0		T	160198409	T	T	160198409	3	4	202	1	0	0	0	0	1	0	0	0	122	710	25	2	859	2	ACAT2	6	160198409	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2710130	160198409	10916658	280	99168											
THBS2	7058	broad.mit.edu	37	chr6	169648825	169648825	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctccagagccaacagcGtgcccctggacttgccgtcc	6	6	11	18	2	0	1	0	0	0	1	2	2	2	2	7	2	5	0	7	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:169648825G>A	uc003qwt.2	-	4	544	c.296C>T	c.(295-297)ACG>ATG	p.T99M		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	99	TSP N-terminal.|Heparin-binding (Potential).				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity	p.T99M(1)		ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		AGCCAACAGCGTGCCCCTGGA	0.622													15	69					0	0	0.00499	0	0		A	169648825	A	A	169648825	3	1	202	1	0	0	0	0	1	0	0	0	15879	1145	40	1	3302	1	THBS2	6	169648825	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	9450416	169648825	1466242	281	99169											
C6orf70	55780	broad.mit.edu	37	chr6	170159118	170159118	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggtctcaacctgcgtaacGtcttatggcatgggtttgcg	6	13	13	9	3	2	0	1	0	2	0	3	0	2	0	1	3	4	3	1	3	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr6:170159118G>A	uc003qxg.1	+	6	595	c.562G>A	c.(562-564)GTC>ATC	p.V188I	C6orf70_uc011ehb.1_Missense_Mutation_p.V62I|C6orf70_uc003qxh.1_Missense_Mutation_p.V188I|C6orf70_uc010kky.1_Missense_Mutation_p.V62I	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	188						integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		CCTGCGTAACGTCTTATGGCA	0.378													19	78					0	0	0.00278	0	0		A	170159118	A	A	170159118	3	1	202	1	0	0	0	0	1	0	0	0	2373	1145	40	1	584	1	C6orf70	6	170159118	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	510293	170159118	955949	282	99170											
MICALL2	79778	broad.mit.edu	37	chr7	1476465	1476465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcagctcctgctcccgcCgccgctcctgcagtgacttc	4	8	9	20	3	0	1	0	1	0	0	4	1	3	1	6	0	4	5	6	0	0	1	rs147056642	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:1476465C>T	uc003skj.3	-	15	2651	c.2504G>A	c.(2503-2505)CGG>CAG	p.R835Q	MICALL2_uc003skh.3_Missense_Mutation_p.R58Q|MICALL2_uc003ski.3_Missense_Mutation_p.R322Q	NM_182924	NP_891554	Q8IY33	MILK2_HUMAN	MICAL-like 2 isoform 1	835	Potential.					cytoplasm|cytoskeleton	zinc ion binding			central_nervous_system(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;6.01e-15)		CTGCTCCCGCCGCCGCTCCTG	0.667													8	23					0	0	0.00308	0	0		T	1476465	T	T	1476465	3	4	202	1	0	0	0	0	1	0	0	0	9592	652	23	1	222	1	MICALL2	7	1476465	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		1476465	157662198	283	99171											
FOXK1	221937	broad.mit.edu	37	chr7	4794120	4794120	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcctgcccagccagtccacgCggtgccggctcctccagtta	5	8	10	18	3	0	0	0	0	0	0	4	0	4	0	7	2	3	2	7	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:4794120C>T	uc003snc.1	+	3	787	c.777C>T	c.(775-777)CGC>CGT	p.R259R	FOXK1_uc003sna.1_Silent_p.R96R|FOXK1_uc003snb.1_Silent_p.R259R	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	forkhead box K1	259					cell differentiation|embryo development|muscle organ development|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|magnesium ion binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			upper_aerodigestive_tract(1)|skin(1)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)|OV - Ovarian serous cystadenocarcinoma(56;7.43e-15)		CCAGTCCACGCGGTGCCGGCT	0.627													17	56					0	0	0.010504	0	0		T	4794120	T	T	4794120	2	4	202	1	0	0	0	0	0	0	0	1	6028	755	27	1		1	FOXK1	7	4794120	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3317655	4794120	154344543	284	99172											
TNRC18	84629	broad.mit.edu	37	chr7	5352185	5352185	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccgggctggcaggaaggcGgcgatcttgggccggttctc	4	8	18	11	4	2	0	0	0	2	0	3	2	2	1	2	7	1	3	2	7	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:5352185G>A	uc003soi.3	-	27	8686	c.8337C>T	c.(8335-8337)GCC>GCT	p.A2779A		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2779							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GCAGGAAGGCGGCGATCTTGG	0.706													14	69					0	0	0.003163	0	0		A	5352185	A	A	5352185	2	1	202	1	0	0	0	0	0	0	0	1	16364	1103	39	1		1	TNRC18	7	5352185	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	558065	5352185	153786478	285	99173											
TNRC18	84629	broad.mit.edu	37	chr7	5401258	5401259	+	Frame_Shift_Ins	INS	-	G	G																															gccgctcttccctctcttgcINSgggggggcgacagggcgctc																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:5401258_5401259insG	uc003soi.3	-	14	4976_4977	c.4627_4628insC	c.(4627-4629)CGCfs	p.R1543fs		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1543							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CCCTCTCTTGCGGGGGGGCGAC	0.693													5	7	---	---	---	---						.	G	5401259	G	G	5401258	7	5	202	1	0	1	1	0	0	0	0	0	16364	768	27	0	4346	0	TNRC18	7	5401258	Frame_Shift_Ins	INS	-	TCGA-HJ-7597-01A-21D-2201-08	49073	5401258	153737405	286	99174											
EIF2AK1	27102	broad.mit.edu	37	chr7	6080770	6080770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgtcagattctccaaagCgtttttctttttctggggtg	6	17	10	8	1	4	1	1	0	3	1	5	1	4	1	1	2	1	1	1	2	1	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:6080770C>T	uc003spp.2	-	9	1018	c.872G>A	c.(871-873)CGC>CAC	p.R291H	EIF2AK1_uc003spq.2_Missense_Mutation_p.R290H|EIF2AK1_uc011jwm.1_Missense_Mutation_p.R167H|EIF2AK1_uc003spr.1_Missense_Mutation_p.R83H	NM_014413	NP_055228	Q9BQI3	E2AK1_HUMAN	eukaryotic translation initiation factor 2-alpha	291	Protein kinase.				negative regulation of hemoglobin biosynthetic process|negative regulation of translational initiation by iron|protein autophosphorylation|response to external stimulus|response to stress	cytoplasm	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|heme binding|protein homodimerization activity			upper_aerodigestive_tract(1)|stomach(1)|lung(1)|central_nervous_system(1)	4		Ovarian(82;0.0423)		UCEC - Uterine corpus endometrioid carcinoma (126;0.106)|OV - Ovarian serous cystadenocarcinoma(56;5.22e-14)		TTCTCCAAAGCGTTTTTCTTT	0.388													4	58					0	0	0.000602	0	0		T	6080770	T	T	6080770	3	4	202	1	0	0	0	0	1	0	0	0	5002	768	27	1	1048	1	EIF2AK1	7	6080770	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	679512	6080770	153057893	287	99175											
KDELR2	11014	broad.mit.edu	37	chr7	6505908	6505908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctgatcataaatagctgcGgaaggatagccacggactcc	12	8	11	10	2	1	1	1	1	0	0	2	4	2	4	2	3	4	2	2	3	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:6505908G>A	uc003sqe.3	-	4	559	c.398C>T	c.(397-399)CCG>CTG	p.P133L	DAGLB_uc003sqd.3_Intron|KDELR2_uc003sqf.3_Intron	NM_006854	NP_006845	P33947	ERD22_HUMAN	KDEL receptor 2 isoform 1	133	Helical; (Potential).				intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	KDEL sequence binding|protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		AAATAGCTGCGGAAGGATAGC	0.542													22	67					0	0	0.003954	0	0		A	6505908	A	A	6505908	3	1	202	1	0	0	0	0	1	0	0	0	8136	1116	39	1	423	1	KDELR2	7	6505908	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	425138	6505908	152632755	288	99176											
HDAC9	9734	broad.mit.edu	37	chr7	18833017	18833017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acactcgtccggtgctgcacGcatggctgttggctgtgtca	5	11	13	12	3	1	0	1	0	0	0	3	0	2	0	1	3	2	6	1	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:18833017G>A	uc003suh.2	+	16	2296	c.2255G>A	c.(2254-2256)CGC>CAC	p.R752H	HDAC9_uc003sue.2_Missense_Mutation_p.R752H|HDAC9_uc011jyd.1_Missense_Mutation_p.R752H|HDAC9_uc003sui.2_Missense_Mutation_p.R755H|HDAC9_uc003suj.2_Missense_Mutation_p.R711H|HDAC9_uc003suk.2_5'UTR|HDAC9_uc003sua.1_Missense_Mutation_p.R730H	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	752	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	GGTGCTGCACGCATGGCTGTT	0.488													4	3					0	0	0.000602	0	0		A	18833017	A	A	18833017	3	1	202	1	0	0	0	0	1	0	0	0	7030	1087	38	1	2377	1	HDAC9	7	18833017	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	12327109	18833017	140305646	289	99177											
BMPER	168667	broad.mit.edu	37	chr7	34118621	34118621	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgaagaacgacgcccgcCggacacgctccttctcgtgg	7	7	13	14	6	1	2	0	1	1	1	3	4	2	3	3	3	1	1	3	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:34118621C>T	uc011kap.1	+	12	1345	c.1231C>T	c.(1231-1233)CGG>TGG	p.R411W		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	411	VWFD.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CGACGCCCGCCGGACACGCTC	0.622													34	122					0	0	0.004878	0	0		T	34118621	T	T	34118621	3	4	202	1	0	0	0	0	1	0	0	0	1469	643	23	1	1277	1	BMPER	7	34118621	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	15285604	34118621	125020042	290	99178											
AEBP1	165	broad.mit.edu	37	chr7	44153382	44153382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggccatgaacgggaaccGgcctatcccacacatagacc	12	5	9	15	2	0	2	0	1	0	1	1	3	1	3	5	3	2	0	5	3	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:44153382G>A	uc003tkb.2	+	21	3304	c.2999G>A	c.(2998-3000)CGG>CAG	p.R1000Q	AEBP1_uc003tkc.3_Missense_Mutation_p.R575Q|AEBP1_uc003tkd.2_Missense_Mutation_p.R250Q	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	1000	Required for transcriptional repression (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AACGGGAACCGGCCTATCCCA	0.607													49	105					0	0	0.00361	0	0		A	44153382	A	A	44153382	3	1	202	1	0	0	0	0	1	0	0	0	349	1116	39	1	3081	1	AEBP1	7	44153382	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	10034761	44153382	114985281	291	99179											
SUN3	256979	broad.mit.edu	37	chr7	48046807	48046807	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtctccatgggtgttccaGttgtgattattgtccatacc	6	15	11	9	0	1	1	0	1	1	0	4	1	3	1	4	2	1	2	4	2	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:48046807G>C	uc003tof.2	-	6	544	c.447C>G	c.(445-447)AAC>AAG	p.N149K	SUN3_uc010kyq.2_Missense_Mutation_p.N49K|SUN3_uc003tog.2_Missense_Mutation_p.N149K|SUN3_uc011kcf.1_Missense_Mutation_p.N137K	NM_152782	NP_689995	Q8TAQ9	SUN3_HUMAN	Sad1 and UNC84 domain containing 1	149						integral to membrane				central_nervous_system(1)	1						GGGTGTTCCAGTTGTGATTAT	0.493													12	31					0	0	0.001855	0	0		C	48046807	C	C	48046807	3	2	202	1	0	0	0	0	1	0	0	0	15418	1020	36	5	650	5	SUN3	7	48046807	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3893425	48046807	111091856	292	99180											
ZPBP	11055	broad.mit.edu	37	chr7	50022936	50022936	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaatcataattcattacatAccacagcactcaggacattt	16	11	4	10	0	3	0	3	0	0	0	3	2	3	1	1	1	3	1	1	1	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:50022936A>G	uc003tou.2	-	7	1031	c.961_splice	c.e7+1	p.V321_splice	ZPBP_uc011kci.1_Splice_Site_p.V247_splice|ZPBP_uc010kyw.2_Splice_Site_p.V320_splice	NM_007009	NP_008940	Q9BS86	ZPBP1_HUMAN	zona pellucida binding protein isoform 1						binding of sperm to zona pellucida	extracellular region					0	Glioma(55;0.08)|all_neural(89;0.245)					TTCATTACATACCACAGCACT	0.323													9	16					0	0	0.000978	0	0		G	50022936	G	G	50022936	5	3	202	1	0	0	0	0	0	0	1	0	18244	405	14	3	100	3	ZPBP	7	50022936	Splice_Site	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1976129	50022936	109115727	293	99181											
BAZ1B	9031	broad.mit.edu	37	chr7	72925183	72925183	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcgggcttcatactctCtgttggcagtagttcaggaa	9	11	11	10	1	3	0	2	0	1	0	4	1	3	1	1	3	2	5	1	3	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:72925183C>A	uc003tyc.2	-	2	453	c.108_splice	c.e2-1	p.E36_splice		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B						ATP-dependent chromatin remodeling|chromatin-mediated maintenance of transcription|DNA replication-dependent nucleosome disassembly|double-strand break repair|heart morphogenesis|transcription, DNA-dependent	WINAC complex	ATP binding|chromatin binding|histone acetyl-lysine binding|histone kinase activity|non-membrane spanning protein tyrosine kinase activity|protein complex scaffold|vitamin D receptor activator activity|vitamin D receptor binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	7		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCATACTCTCTGTTGGCAGT	0.433													18	42					3.62473e-10	3.85128e-10	0.001882	1	0		A	72925183	A	A	72925183	5	1	202	1	0	0	0	0	0	0	1	0	1331	927	32	5	4416	5	BAZ1B	7	72925183	Splice_Site	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	22902247	72925183	86213480	294	99182											
CLIP2	7461	broad.mit.edu	37	chr7	73790244	73790244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtggccgagaagtcgcgcGtgctgcagctggaggaggag	8	5	19	9	4	0	1	0	0	0	1	1	5	0	4	1	4	3	3	1	4	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:73790244G>A	uc003uam.2	+	10	1840	c.1513G>A	c.(1513-1515)GTG>ATG	p.V505M	CLIP2_uc003uan.2_Missense_Mutation_p.V470M|CLIP2_uc003uao.2_Translation_Start_Site	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	505	Potential.					microtubule associated complex				skin(3)	3						GAAGTCGCGCGTGCTGCAGCT	0.657													4	6					0	0	0.009096	0	0		A	73790244	A	A	73790244	3	1	202	1	0	0	0	0	1	0	0	0	3536	1145	40	1	1547	1	CLIP2	7	73790244	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	865061	73790244	85348419	295	99183											
PCLO	27445	broad.mit.edu	37	chr7	82785657	82785657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctggacgcccagggtcCgggggtcttcctgattgctt	4	11	15	11	2	1	2	0	2	1	0	3	3	3	3	3	4	2	2	3	4	0	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:82785657C>T	uc003uhx.2	-	2	589	c.300G>A	c.(298-300)CCG>CCA	p.P100P	PCLO_uc003uhv.2_Silent_p.P100P	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	100					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCCCAGGGTCCGGGGGTCTTC	0.418													5	15					0	0	0.001168	0	0		T	82785657	T	T	82785657	2	4	202	1	0	0	0	0	0	0	0	1	11602	639	23	1		1	PCLO	7	82785657	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8995413	82785657	76353006	296	99184											
ABCB1	5243	broad.mit.edu	37	chr7	87144568	87144568	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttccctgccaaggggtcGtagaaccgctccaggagctg	8	8	12	13	2	0	1	0	0	0	1	3	2	2	2	4	3	3	3	4	3	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:87144568G>A	uc003uiz.1	-	26	3679	c.3261C>T	c.(3259-3261)TAC>TAT	p.Y1087Y	ABCB1_uc011khc.1_Silent_p.Y1023Y	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	1087	Cytoplasmic (Potential).|ABC transporter 2.				G2/M transition of mitotic cell cycle|stem cell proliferation	apical plasma membrane|cell surface|Golgi membrane|integral to membrane|intercellular canaliculus|membrane fraction	ATP binding|protein binding|xenobiotic-transporting ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	Esophageal squamous(14;0.00164)				Adenosine triphosphate(DB00171)|Alfentanil(DB00802)|Arsenic trioxide(DB01169)|Atazanavir(DB01072)|Carvedilol(DB01136)|Colchicine(DB01394)|Cyclosporine(DB00091)|Daunorubicin(DB00694)|Dipyridamole(DB00975)|Estramustine(DB01196)|Flupenthixol(DB00875)|Imatinib(DB00619)|Itraconazole(DB01167)|Nicardipine(DB00622)|Propafenone(DB01182)|Quinacrine(DB01103)|Quinidine(DB00908)|Ranolazine(DB00243)|Rifampin(DB01045)|Roxithromycin(DB00778)|Saquinavir(DB01232)|Tamoxifen(DB00675)|Vinblastine(DB00570)	CCAAGGGGTCGTAGAACCGCT	0.517													18	32					0	0	0.002299	0	0		A	87144568	A	A	87144568	2	1	202	1	0	0	0	0	0	0	0	1	40	1140	40	1		1	ABCB1	7	87144568	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4358911	87144568	71994095	297	99185											
PON1	5444	broad.mit.edu	37	chr7	94953783	94953783	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgagcgcaatcagcttcGccatggtcggggatagacaa	10	7	15	9	3	1	2	1	1	0	1	3	3	1	3	1	4	2	2	1	4	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:94953783G>A	uc003uns.2	-	1	102	c.5C>T	c.(4-6)GCG>GTG	p.A2V	PON1_uc011kih.1_Intron	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	2					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	AATCAGCTTCGCCATGGTCGG	0.622													10	27					0	0	0.008291	0	0		A	94953783	A	A	94953783	3	1	202	1	0	0	0	0	1	0	0	0	12267	1087	38	1	1098	1	PON1	7	94953783	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7809215	94953783	64184880	298	99186											
TRRAP	8295	broad.mit.edu	37	chr7	98490105	98490105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaaccaacgaacatcttcGtcctcacacaaaaaatgttt	16	9	3	13	2	2	0	1	0	1	0	4	1	3	0	3	0	3	1	3	0	6	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:98490105G>A	uc003upp.2	+	5	529	c.320G>A	c.(319-321)CGT>CAT	p.R107H	TRRAP_uc011kis.1_Missense_Mutation_p.R107H	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	107					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GAACATCTTCGTCCTCACACA	0.333													15	47					0	0	0.002299	0	0		A	98490105	A	A	98490105	3	1	202	1	0	0	0	0	1	0	0	0	16627	1145	40	1	334	1	TRRAP	7	98490105	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3536322	98490105	60648558	299	99187											
CUX1	1523	broad.mit.edu	37	chr7	101844792	101844792	+	Missense_Mutation	SNP	A	G	G	1	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	cactgtcccagagtgacatcAccatcctcacccccaagctt	10	8	5	18	0	2	2	2	1	0	1	4	2	4	2	5	0	1	1	5	0	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:101844792A>G	uc003uyx.3	+	18	2253	c.2215A>G	c.(2215-2217)ACC>GCC	p.T739A	CUX1_uc003uys.3_Missense_Mutation_p.T750A|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	739					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						GAGTGACATCACCATCCTCAC	0.642													29	225					0	0	0.003271	0	0		G	101844792	G	G	101844792	3	3	202	1	0	0	0	0	1	0	0	0	4067	159	6	3	2352	3	CUX1	7	101844792	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	3354687	101844792	57293871	300	99188											
PUS7	54517	broad.mit.edu	37	chr7	105108874	105108874	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attccacacatagctttggtAgctatgaatatacattaagc	14	13	6	8	0	0	1	0	1	0	0	1	1	1	1	1	1	4	3	1	1	7	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:105108874A>G	uc003vcx.2	-	12	1654	c.1435T>C	c.(1435-1437)TAC>CAC	p.Y479H	PUS7_uc010lji.2_Missense_Mutation_p.Y485H|PUS7_uc003vcy.2_Missense_Mutation_p.Y479H|PUS7_uc003vcz.1_Missense_Mutation_p.Y479H	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog	479	TRUD.				pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						TAGCTTTGGTAGCTATGAATA	0.368													6	32					0	0	0.00308	0	0		G	105108874	G	G	105108874	3	3	202	1	0	0	0	0	1	0	0	0	12858	420	15	3	570	3	PUS7	7	105108874	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	3264082	105108874	54029789	301	99189											
PIK3CG	5294	broad.mit.edu	37	chr7	106508461	106508461	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagtcccaagccttccagcGgcagctcacggcgctgattg	7	7	13	14	3	1	1	1	1	0	0	3	2	3	2	3	3	3	3	3	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:106508461G>A	uc003vdv.3	+	2	540	c.455G>A	c.(454-456)CGG>CAG	p.R152Q	PIK3CG_uc003vdu.2_Missense_Mutation_p.R152Q|PIK3CG_uc003vdw.2_Missense_Mutation_p.R152Q	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	152					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						GCCTTCCAGCGGCAGCTCACG	0.672													6	17					0	0	0.001168	0	0		A	106508461	A	A	106508461	3	1	202	1	0	0	0	0	1	0	0	0	11935	1116	39	1	457	1	PIK3CG	7	106508461	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1399587	106508461	52630202	302	99190											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519997	113519997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtaaaaatctccctttaCggagctttctgctgatgaac	11	12	8	10	1	2	2	0	2	2	0	3	3	2	3	1	1	4	4	1	1	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:113519997C>T	uc010ljy.1	-	4	1181	c.1150G>A	c.(1150-1152)GTA>ATA	p.V384I		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	384					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TCTCCCTTTACGGAGCTTTCT	0.398													21	55					0	0	0.002299	0	0		T	113519997	T	T	113519997	3	4	202	1	0	0	0	0	1	0	0	0	12393	536	19	1	2222	1	PPP1R3A	7	113519997	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7011536	113519997	45618666	303	99191											
FAM3C	10447	broad.mit.edu	37	chr7	121003000	121003000	+	Silent	SNP	T	A	A	0	1	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	tctaatacttctcctgttttTcctaaaagagattaaattca	13	17	3	8	0	3	1	1	0	2	1	5	2	4	1	2	0	1	1	2	0	6	8	rs146438816		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:121003000T>A	uc003vjx.2	-	7	581	c.333A>T	c.(331-333)GGA>GGT	p.G111G	FAM3C_uc010lkm.2_Silent_p.G111G	NM_014888	NP_055703	Q92520	FAM3C_HUMAN	family with sequence similarity 3, member C	111					multicellular organismal development	cytoplasmic membrane-bounded vesicle|extracellular region	cytokine activity				0	all_neural(327;0.117)					CTCCTGTTTTTCCTAAAAGAG	0.323													4	14					0	0	0.009096	0	0		A	121003000	A	A	121003000	2	1	202	1	0	0	0	0	0	0	0	1	5572	1797	62	5		5	FAM3C	7	121003000	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	7483003	121003000	38135663	304	99192											
NRF1	4899	broad.mit.edu	37	chr7	129367082	129367082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgttcctgtgcccgcagcGaagctgccgcccatgctgtc	4	9	11	17	3	0	0	0	0	0	0	2	1	1	0	5	0	5	4	5	0	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:129367082G>A	uc003voz.2	+	10	1342	c.1225G>A	c.(1225-1227)GAA>AAA	p.E409K	NRF1_uc003vpa.2_Missense_Mutation_p.E409K|NRF1_uc011kpa.1_Missense_Mutation_p.E248K|NRF1_uc003vpb.2_Missense_Mutation_p.E409K	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1	409	Required for transcriptional activation.				generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						TGCCCGCAGCGAAGCTGCCGC	0.577													14	27					0	0	0.004007	0	0		A	129367082	A	A	129367082	3	1	202	1	0	0	0	0	1	0	0	0	10665	1072	37	1	1259	1	NRF1	7	129367082	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8364082	129367082	29771581	305	99193											
PLXNA4	91584	broad.mit.edu	37	chr7	131825445	131825445	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccagccggtgctctgacGtggagcaagagtccatgaag	9	7	14	11	2	1	3	0	2	1	1	2	4	2	4	3	2	4	2	3	2	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:131825445G>A	uc003vra.3	-	30	5580	c.5351C>T	c.(5350-5352)ACG>ATG	p.T1784M	PLXNA4_uc003vqz.3_Missense_Mutation_p.T69M	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1784	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GTGCTCTGACGTGGAGCAAGA	0.552													40	59					0	0	0.00361	0	0		A	131825445	A	A	131825445	3	1	202	1	0	0	0	0	1	0	0	0	12141	1145	40	1	345	1	PLXNA4	7	131825445	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2458363	131825445	27313218	306	99194											
CALD1	800	broad.mit.edu	37	chr7	134632353	134632353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggagcttcgtcgtcgtCgcggggagaccgagagcgaa	8	6	18	9	7	0	2	0	0	0	2	4	7	0	4	1	4	2	1	1	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:134632353C>T	uc003vrz.2	+	8	2086	c.1627C>T	c.(1627-1629)CGC>TGC	p.R543C	CALD1_uc003vry.2_Missense_Mutation_p.R288C|CALD1_uc003vsa.2_Missense_Mutation_p.R314C|CALD1_uc003vsb.2_Missense_Mutation_p.R288C|CALD1_uc010lmm.2_Missense_Mutation_p.R314C|CALD1_uc011kpt.1_Missense_Mutation_p.R62C|CALD1_uc003vsc.2_Missense_Mutation_p.R308C|CALD1_uc003vsd.2_Missense_Mutation_p.R282C|CALD1_uc011kpu.1_Missense_Mutation_p.R293C|CALD1_uc011kpv.1_Missense_Mutation_p.R152C|CALD1_uc003vse.2_Missense_Mutation_p.R407C	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	543	Poly-Arg.				cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0						TCGTCGTCGTCGCGGGGAGAC	0.468													3	5					0	0	0.004672	0	0		T	134632353	T	T	134632353	3	4	202	1	0	0	0	0	1	0	0	0	2584	884	31	1	1706	1	CALD1	7	134632353	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2806908	134632353	24506310	307	99195											
CHRM2	1129	broad.mit.edu	37	chr7	136700133	136700133	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtgagaactgtggaggatgGggagtgctacattcagtttt	9	12	16	4	0	1	1	1	1	0	1	1	5	1	4	0	5	3	2	0	5	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:136700133G>T	uc003vtf.1	+	4	1144	c.521G>T	c.(520-522)GGG>GTG	p.G174V	CHRM2_uc003vtg.1_Missense_Mutation_p.G174V|CHRM2_uc003vtj.1_Missense_Mutation_p.G174V|CHRM2_uc003vtk.1_Missense_Mutation_p.G174V|CHRM2_uc003vtl.1_Missense_Mutation_p.G174V|CHRM2_uc003vtm.1_Missense_Mutation_p.G174V|CHRM2_uc003vti.1_Missense_Mutation_p.G174V|CHRM2_uc003vto.1_Missense_Mutation_p.G174V|CHRM2_uc003vtn.1_Missense_Mutation_p.G174V|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	174	Extracellular (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GTGGAGGATGGGGAGTGCTAC	0.488													35	73					6.5261e-18	7.07878e-18	0.00874	1	0		T	136700133	T	T	136700133	3	4	202	1	0	0	0	0	1	0	0	0	3380	1232	43	5	523	5	CHRM2	7	136700133	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2067780	136700133	22438530	308	99196											
UBN2	254048	broad.mit.edu	37	chr7	138967781	138967781	+	Frame_Shift_Del	DEL	A	-	-																															ttacattaggagtgtagtccAaaaaaggaccagaaaactcc																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:138967781delA	uc011kqr.1	+	15	2130	c.2130delA	c.(2128-2130)CCAfs	p.P710fs		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	710										ovary(1)|skin(1)	2						AGTGTAGTCCAAAAAAGGACC	0.398													9	14	---	---	---	---						.	-	138967781	-	-	138967781	7	5	202	1	0	1	0	1	0	0	0	0	16919	117	5	0	2188	0	UBN2	7	138967781	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	2267648	138967781	20170882	309	99197											
PARP12	64761	broad.mit.edu	37	chr7	139727098	139727098	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggtagacttcccagagggCcaggttctgtactcgctcaa	8	10	11	12	1	2	2	1	0	1	2	4	2	3	2	2	3	1	4	2	3	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:139727098C>T	uc003vvl.1	-	10	2480	c.1606G>A	c.(1606-1608)GCC>ACC	p.A536T	PARP12_uc003vvk.1_Missense_Mutation_p.A322T|PARP12_uc010lnf.1_RNA	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	536	PARP catalytic.					nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)					TCCCAGAGGGCCAGGTTCTGT	0.557													22	47					0	0	0.002299	0	0		T	139727098	T	T	139727098	3	4	202	1	0	0	0	0	1	0	0	0	11476	739	26	2	511	2	PARP12	7	139727098	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	759317	139727098	19411565	310	99198											
SLC37A3	84255	broad.mit.edu	37	chr7	140035244	140035244	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgtgagcctgtctccttaGcacgagagagaatatttccc	10	12	9	10	1	1	3	0	1	1	2	3	5	2	3	3	0	2	1	3	0	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:140035244G>A	uc003vvo.2	-	15	1619	c.1453C>T	c.(1453-1455)CTA>TTA	p.L485L	SLC37A3_uc003vvn.2_Silent_p.L63L|SLC37A3_uc003vvp.2_Missense_Mutation_p.A384V|SLC37A3_uc010lnh.2_Silent_p.L469L	NM_207113	NP_996996	Q8NCC5	SPX3_HUMAN	solute carrier family 37 (glycerol-3-phosphate	485					carbohydrate transport|transmembrane transport	integral to membrane				ovary(3)	3	Melanoma(164;0.0142)					TGTCTCCTTAGCACGAGAGAG	0.453													23	54					0	0	0.003954	0	0		A	140035244	A	A	140035244	2	1	202	1	0	0	0	0	0	0	0	1	14624	971	34	2		2	SLC37A3	7	140035244	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	308146	140035244	19103419	311	99199											
WEE2	494551	broad.mit.edu	37	chr7	141416054	141416054	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccagaggaaggcaagggagGgctgcctgccaaggtaagcg	11	4	17	9	1	0	1	0	0	0	1	1	3	1	3	3	5	3	3	3	5	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:141416054G>T	uc003vwn.2	+	3	978	c.572G>T	c.(571-573)GGG>GTG	p.G191V	FLJ40852_uc011krh.1_Intron|FLJ40852_uc010lnm.2_Intron|FLJ40852_uc010lnn.2_Intron|FLJ40852_uc003vwm.3_Intron|FLJ40852_uc010lno.2_Intron	NM_001105558	NP_001099028	P0C1S8	WEE2_HUMAN	WEE1 homolog 2	191					egg activation|female meiosis|female pronucleus assembly|meiotic metaphase II|meiotic prophase I|mitosis|negative regulation of oocyte development|regulation of meiosis I	centrosome|nucleus	ATP binding|magnesium ion binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			ovary(1)|stomach(1)	2	Melanoma(164;0.0171)					GGCAAGGGAGGGCTGCCTGCC	0.269													24	74					7.01153e-11	7.46672e-11	0.007291	1	0		T	141416054	T	T	141416054	3	4	202	1	0	0	0	0	1	0	0	0	17371	1232	43	5	582	5	WEE2	7	141416054	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1380810	141416054	17722609	312	99200											
TRYX3	136541	broad.mit.edu	37	chr7	141954898	141954898	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcacacacattgtagctcCaggtagagacagagcacatg	14	8	9	10	0	1	2	1	0	0	2	2	3	2	2	1	1	2	4	1	1	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:141954898C>A	uc003vxb.2	-	3	733	c.413G>T	c.(412-414)TGG>TTG	p.W138L	TRYX3_uc003vxc.3_Missense_Mutation_p.W138L	NM_001001317	NP_001001317	Q8IYP2	PRS58_HUMAN	trypsin X3 precursor	138	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0	Melanoma(164;0.0272)					ATTGTAGCTCCAGGTAGAGAC	0.423													26	77					2.12542e-12	2.27376e-12	0.00632	1	0		A	141954898	A	A	141954898	3	1	202	1	0	0	0	0	1	0	0	0	16630	595	21	5	324	5	TRYX3	7	141954898	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	538844	141954898	17183765	313	99201											
PDIA4	9601	broad.mit.edu	37	chr7	148701189	148701189	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagaactcgatgaggacGtccttcttggggtccatcac	8	10	12	11	3	2	2	1	1	1	1	5	4	4	3	2	3	1	1	2	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:148701189G>A	uc003wff.2	-	10	1917	c.1635C>T	c.(1633-1635)GAC>GAT	p.D545D		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	545	Thioredoxin 3.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			CGATGAGGACGTCCTTCTTGG	0.567													18	126					0	0	0.010504	0	0		A	148701189	A	A	148701189	2	1	202	1	0	0	0	0	0	0	0	1	11689	1136	40	1		1	PDIA4	7	148701189	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6746291	148701189	10437474	314	99202											
ABP1	26	broad.mit.edu	37	chr7	150553856	150553856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgcgggaagcccgtgccGtcatcttctttggtgaccag	5	11	13	12	3	3	1	1	1	2	0	3	2	3	2	3	2	3	0	3	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:150553856G>A	uc003why.1	+	3	4516	c.298G>A	c.(298-300)GTC>ATC	p.V100I	ABP1_uc003whz.1_Missense_Mutation_p.V100I|ABP1_uc003wia.1_Missense_Mutation_p.V100I	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	100					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	AGCCCGTGCCGTCATCTTCTT	0.582													14	83					0	0	0.003163	0	0		A	150553856	A	A	150553856	3	1	202	1	0	0	0	0	1	0	0	0	98	1145	40	1	300	1	ABP1	7	150553856	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1852667	150553856	8584807	315	99203											
ABCB8	11194	broad.mit.edu	37	chr7	150739135	150739135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaggtgtacacagccgccCgggaagcgaatgctcacgag	12	4	14	11	4	1	1	1	0	0	1	1	4	1	2	2	2	4	2	2	2	4	1	rs148191540	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:150739135C>T	uc003wil.3	+	15	1849	c.1756C>T	c.(1756-1758)CGG>TGG	p.R586W	ABCB8_uc010lpw.1_3'UTR|ABCB8_uc010lpx.2_Missense_Mutation_p.R569W|ABCB8_uc011kvd.1_Missense_Mutation_p.R481W|ABCB8_uc003wim.3_Missense_Mutation_p.R364W|ABCB8_uc003wik.3_Missense_Mutation_p.R569W	NM_007188	NP_009119	Q9NUT2	ABCB8_HUMAN	ATP-binding cassette, sub-family B, member 8	586	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|membrane fraction|mitochondrial inner membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CACAGCCGCCCGGGAAGCGAA	0.612													4	69					0	0	0.009096	0	0		T	150739135	T	T	150739135	3	4	202	1	0	0	0	0	1	0	0	0	47	643	23	1	1759	1	ABCB8	7	150739135	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	185279	150739135	8399528	316	99204											
MNX1	3110	broad.mit.edu	37	chr7	156798301	156798301	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcggcgtggacgctggcGccgttgctgtaggggaaatg	6	7	20	8	5	0	0	0	0	0	0	0	3	0	2	1	6	1	4	1	6	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr7:156798301G>A	uc003wnd.1	-	3	1422	c.1119C>T	c.(1117-1119)GGC>GGT	p.G373G	MNX1_uc003wmz.2_Intron|MNX1_uc003wna.2_Intron|MNX1_uc010lqq.1_Silent_p.G166G|MNX1_uc003wnc.1_Silent_p.G161G|MNX1_uc010lqr.1_RNA	NM_005515	NP_005506	P50219	MNX1_HUMAN	motor neuron and pancreas homeobox 1 isoform 1	373					humoral immune response|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(565;0.218)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGACGCTGGCGCCGTTGCTGT	0.731									Currarino_syndrome				6	14					0	0	0.00308	0	0		A	156798301	A	A	156798301	2	1	202	1	0	0	0	0	0	0	0	1	9697	1074	38	1		1	MNX1	7	156798301	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6059166	156798301	2340362	317	99205											
CSMD1	64478	broad.mit.edu	37	chr8	2975988	2975988	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgacaagtgaggacaggatgGcctattagaatgtacccagg	13	8	13	7	0	0	3	0	2	0	1	0	5	0	5	2	4	1	1	2	4	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:2975988G>A	uc011kwk.1	-	42	6756	c.6366C>T	c.(6364-6366)GGC>GGT	p.G2122G	CSMD1_uc011kwj.1_Silent_p.G1514G|CSMD1_uc010lrg.2_Silent_p.G190G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2122	Extracellular (Potential).|Sushi 12.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GGACAGGATGGCCTATTAGAA	0.458													15	29					0	0	0.00245	0	0		A	2975988	A	A	2975988	2	1	202	1	0	0	0	0	0	0	0	1	3947	1190	42	2		2	CSMD1	8	2975988	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		2975988	143388034	318	99206											
TNKS	8658	broad.mit.edu	37	chr8	9609128	9609128	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catttttttaggctgacgatAtcagagctttgctgatagat	10	16	9	6	1	1	4	1	2	0	2	1	5	1	4	0	1	2	3	0	1	3	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:9609128A>G	uc003wss.2	+	19	2847	c.2842A>G	c.(2842-2844)ATC>GTC	p.I948V	TNKS_uc011kww.1_Missense_Mutation_p.I711V|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	948					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		GGCTGACGATATCAGAGCTTT	0.373													24	97					0	0	0.00278	0	0		G	9609128	G	G	9609128	3	3	202	1	0	0	0	0	1	0	0	0	16344	449	16	3	2916	3	TNKS	8	9609128	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	6633140	9609128	136754894	319	99207											
TNKS	8658	broad.mit.edu	37	chr8	9609186	9609186	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacctacctgttttaaacCtcaggctactgtagtgagtg	9	14	8	10	0	1	1	1	1	0	0	1	1	1	1	3	1	4	3	3	1	6	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:9609186C>A	uc003wss.2	+	19	2905	c.2900C>A	c.(2899-2901)CCT>CAT	p.P967H	TNKS_uc011kww.1_Missense_Mutation_p.P730H|TNKS_uc010lrt.1_RNA	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	967					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		TGTTTTAAACCTCAGGCTACT	0.488													22	186					6.21321e-17	6.73158e-17	0.00278	1	0		A	9609186	A	A	9609186	3	1	202	1	0	0	0	0	1	0	0	0	16344	681	24	5	2974	5	TNKS	8	9609186	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	58	9609186	136754836	320	99208											
PPP3CC	5533	broad.mit.edu	37	chr8	22355520	22355520	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatttgtcttgtagtgtgtgCtgtatttatggagtttaaag	9	19	11	2	0	1	0	0	0	1	0	1	1	1	1	0	1	1	4	0	1	6	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:22355520C>T	uc003xbs.2	+	4	706	c.379C>T	c.(379-381)CTG>TTG	p.L127L	PPP3CC_uc003xbr.1_Silent_p.L127L|PPP3CC_uc011kzi.1_Silent_p.L127L|PPP3CC_uc003xbt.2_Silent_p.L127L	NM_005605	NP_005596	P48454	PP2BC_HUMAN	protein phosphatase 3, catalytic subunit, gamma	127					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	cytosol	calmodulin binding|metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		Prostate(55;0.104)		BRCA - Breast invasive adenocarcinoma(99;0.00756)|Colorectal(74;0.0238)|COAD - Colon adenocarcinoma(73;0.0835)		GTAGTGTGTGCTGTATTTATG	0.229													8	19					0	0	0.00308	0	0		T	22355520	T	T	22355520	2	4	202	1	0	0	0	0	0	0	0	1	12421	796	28	2		2	PPP3CC	8	22355520	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	12746334	22355520	124008502	321	99209											
SORBS3	10174	broad.mit.edu	37	chr8	22428492	22428492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacgcatcacgggcacggggCgccaaggcatattccctgcc	8	5	13	15	4	1	0	1	0	0	0	2	1	2	0	3	4	1	3	3	4	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:22428492C>T	uc003xbv.2	+	18	1841	c.1501C>T	c.(1501-1503)CGC>TGC	p.R501C	SORBS3_uc003xbw.3_Missense_Mutation_p.R159C	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	501	SH3 2.|Binds to vinculin.				muscle contraction|positive regulation of stress fiber assembly	cytoskeleton|cytosol|nucleus	protein binding|structural constituent of cytoskeleton|vinculin binding				0		Prostate(55;0.0421)|Breast(100;0.102)		BRCA - Breast invasive adenocarcinoma(99;0.00566)|Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		GGGCACGGGGCGCCAAGGCAT	0.652													36	76					0	0	0.006999	0	0		T	22428492	T	T	22428492	3	4	202	1	0	0	0	0	1	0	0	0	14954	768	27	1	1567	1	SORBS3	8	22428492	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	72972	22428492	123935530	322	99210											
ENTPD4	9583	broad.mit.edu	37	chr8	23291937	23291937	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttatagttgacaggaaaCgaaaagcccctatgaaacac	16	9	7	9	1	0	2	0	2	0	0	0	4	0	3	2	1	3	1	2	1	7	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:23291937C>T	uc003xdl.2	-	12	1679	c.1515G>A	c.(1513-1515)TCG>TCA	p.S505S	ENTPD4_uc011kzu.1_Silent_p.S497S|ENTPD4_uc003xdm.2_Silent_p.S497S|ENTPD4_uc011kzv.1_Silent_p.S505S	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	505	Lumenal (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		TGACAGGAAACGAAAAGCCCC	0.478													9	42					0	0	0.006214	0	0		T	23291937	T	T	23291937	2	4	202	1	0	0	0	0	0	0	0	1	5149	523	19	1		1	ENTPD4	8	23291937	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	863445	23291937	123072085	323	99211											
ADRA1A	148	broad.mit.edu	37	chr8	26722168	26722168	+	Frame_Shift_Del	DEL	C	-	-																															ggacgcggtgcagcacagcaCatccactgccgcccagatgt																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:26722168delC	uc003xfh.1	-	1	755	c.319delG	c.(319-321)GTGfs	p.V107fs	ADRA1A_uc003xfc.1_Frame_Shift_Del_p.V107fs|ADRA1A_uc010lul.1_Frame_Shift_Del_p.V107fs|ADRA1A_uc003xfd.1_RNA|ADRA1A_uc003xfe.1_Frame_Shift_Del_p.V107fs|ADRA1A_uc010lum.1_Frame_Shift_Del_p.V107fs|ADRA1A_uc003xff.1_RNA|ADRA1A_uc003xfg.1_Frame_Shift_Del_p.V107fs	NM_000680	NP_000671	P35348	ADA1A_HUMAN	alpha-1A-adrenergic receptor isoform 1	107	Helical; Name=3; (By similarity).				activation of phospholipase C activity|aging|apoptosis|calcium ion transport into cytosol|cell-cell signaling|intracellular protein kinase cascade|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of synaptic transmission, GABAergic|positive regulation of action potential|positive regulation of cardiac muscle contraction|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein kinase C signaling cascade|positive regulation of vasoconstriction|response to drug|response to hormone stimulus|response to stress|smooth muscle contraction	integral to plasma membrane	alpha1-adrenergic receptor activity			breast(2)|ovary(1)|lung(1)|skin(1)	5		all_cancers(63;0.122)|Ovarian(32;2.61e-05)|all_epithelial(46;0.118)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0228)|Epithelial(17;4.92e-10)|Colorectal(74;0.0132)|READ - Rectum adenocarcinoma(644;0.115)	Alfuzosin(DB00346)|Amiodarone(DB01118)|Amphetamine(DB00182)|Benzphetamine(DB00865)|Bethanidine(DB00217)|Carvedilol(DB01136)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Epinastine(DB00751)|Epinephrine(DB00668)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Maprotiline(DB00934)|Mephentermine(DB01365)|Metaraminol(DB00610)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Nefazodone(DB01149)|Nicergoline(DB00699)|Nilutamide(DB00665)|Norepinephrine(DB00368)|Norgestrel(DB00506)|Oxymetazoline(DB00935)|Perphenazine(DB00850)|Phendimetrazine(DB01579)|Phenoxybenzamine(DB00925)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Prazosin(DB00457)|Promazine(DB00420)|Promethazine(DB01069)|Propericiazine(DB01608)|Propiomazine(DB00777)|Pseudoephedrine(DB00852)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Thioridazine(DB00679)|Tolazoline(DB00797)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Ziprasidone(DB00246)	CAGCACAGCACATCCACTGCC	0.627													28	50	---	---	---	---						.	-	26722168	-	-	26722168	7	5	202	1	0	1	0	1	0	0	0	0	334	478	17	0	1380	0	ADRA1A	8	26722168	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	3430231	26722168	119641854	324	99212											
NKX6-3	157848	broad.mit.edu	37	chr8	41504815	41504815	+	Frame_Shift_Del	DEL	G	-	-																															ggcgcagcgggttggagctcGgggaggccccagggccctga																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:41504815delG	uc003xoa.2	-	1	64	c.60delC	c.(58-60)CCCfs	p.P20fs	NKX6-3_uc010lxa.1_Frame_Shift_Del_p.P20fs	NM_152568	NP_689781	A6NJ46	NKX63_HUMAN	NK6 homeobox 3	Error:Variant_position_missing_in_A6NJ46_after_alignment						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	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)			GTTGGAGCTCGGGGAGGCCCC	0.652													6	13	---	---	---	---						.	-	41504815	-	-	41504815	7	5	202	1	0	1	0	1	0	0	0	0	10478	1103	39	0	355	0	NKX6-3	8	41504815	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	14782647	41504815	104859207	325	99213											
CHRNA6	8973	broad.mit.edu	37	chr8	42611903	42611903	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatagctggtggagtccaggTtatcatgccattgtatttaa	11	14	10	6	0	1	0	1	0	0	0	2	1	2	1	2	3	2	3	2	3	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:42611903T>A	uc003xpj.2	-	5	485	c.439A>T	c.(439-441)ACC>TCC	p.T147S	CHRNA6_uc011lcw.1_Missense_Mutation_p.T132S	NM_004198	NP_004189	Q15825	ACHA6_HUMAN	cholinergic receptor, nicotinic, alpha 6	147	Extracellular.					cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(13;3.33e-12)|Lung NSC(13;9.17e-11)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00439)|Lung NSC(58;0.0124)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.0252)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GGAGTCCAGGTTATCATGCCA	0.413													23	45					0	0	0.00278	0	0		A	42611903	A	A	42611903	3	1	202	1	0	0	0	0	1	0	0	0	3390	1725	60	5	1053	5	CHRNA6	8	42611903	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1107088	42611903	103752119	326	99214											
RGS20	8601	broad.mit.edu	37	chr8	54859256	54859256	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaaccaggaagatcagaggCccacaatagcttcccacgaa	16	4	9	12	1	1	2	1	0	0	2	2	5	2	3	3	2	2	1	3	2	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:54859256C>G	uc003xrp.2	+	4	783	c.691C>G	c.(691-693)CCC>GCC	p.P231A	RGS20_uc003xrq.2_Missense_Mutation_p.P116A|RGS20_uc010lye.2_Missense_Mutation_p.P23A|RGS20_uc010lyf.2_Intron|RGS20_uc003xrs.2_Missense_Mutation_p.P84A|RGS20_uc003xrt.2_5'UTR	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	231					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			AGATCAGAGGCCCACAATAGC	0.393													5	22					0	0	0.000602	0	0		G	54859256	G	G	54859256	3	3	202	1	0	0	0	0	1	0	0	0	13328	739	26	5	778	5	RGS20	8	54859256	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	12247353	54859256	91504766	327	99215											
TMEM68	137695	broad.mit.edu	37	chr8	56663707	56663707	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacaaaacacatccagtaatAaactaaaccctgtaagaaac	21	6	3	11	0	0	1	0	0	0	1	1	1	1	1	2	0	4	2	2	0	9	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:56663707A>G	uc003xsg.1	-	3	572	c.503T>C	c.(502-504)TTA>TCA	p.L168S	TMEM68_uc003xsh.1_Missense_Mutation_p.L168S	NM_152417	NP_689630	Q96MH6	TMM68_HUMAN	transmembrane protein 68	168						integral to membrane	acyltransferase activity			skin(1)	1			Epithelial(17;0.000361)|all cancers(17;0.00326)			ATCCAGTAATAAACTAAACCC	0.348													7	48					0	0	0.00308	0	0		G	56663707	G	G	56663707	3	3	202	1	0	0	0	0	1	0	0	0	16222	372	13	3	278	3	TMEM68	8	56663707	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1804451	56663707	89700315	328	99216											
PENK	5179	broad.mit.edu	37	chr8	57358422	57358422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taggcggtagctgcacgtcgCgcaatcctggctgcattcgg	6	9	14	12	5	0	0	0	0	0	0	3	0	1	0	1	4	3	6	1	4	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:57358422C>T	uc003xsz.2	-	1	172	c.91G>A	c.(91-93)GCG>ACG	p.A31T	uc003xtb.1_RNA|PENK_uc003xta.3_Missense_Mutation_p.A31T|PENK_uc010lym.2_Missense_Mutation_p.A31T	NM_006211	NP_006202	P01210	PENK_HUMAN	proenkephalin	31					neuropeptide signaling pathway	extracellular region	neuropeptide hormone activity|opioid peptide activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_lung(136;0.229)	Epithelial(17;0.000873)|all cancers(17;0.0069)			CTGCACGTCGCGCAATCCTGG	0.652													29	67					0	0	0.002445	0	0		T	57358422	T	T	57358422	3	4	202	1	0	0	0	0	1	0	0	0	11746	768	27	1	720	1	PENK	8	57358422	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	694715	57358422	89005600	329	99217											
KCNB2	9312	broad.mit.edu	37	chr8	73848244	73848244	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaatacgctgccggagctGcaggaaacggacgaatttgg	11	7	13	10	4	1	0	1	0	0	0	1	4	1	3	1	4	5	3	1	4	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:73848244G>A	uc003xzb.2	+	3	1242	c.654G>A	c.(652-654)CTG>CTA	p.L218L		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	218					regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			TGCCGGAGCTGCAGGAAACGG	0.478													4	81					0	0	0.009096	0	0		A	73848244	A	A	73848244	2	1	202	1	0	0	0	0	0	0	0	1	8029	1306	46	2		2	KCNB2	8	73848244	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	16489822	73848244	72515778	330	99218											
E2F5	1875	broad.mit.edu	37	chr8	86121436	86121436	+	Silent	SNP	T	C	C	0	1	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	agtcattcaggacctatccaTgtgctgcttataaataaaga	14	12	7	8	0	2	1	2	0	0	1	3	2	3	2	2	1	2	2	2	1	6	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:86121436T>C	uc003ycz.3	+	6	712	c.675T>C	c.(673-675)CAT>CAC	p.H225H	E2F5_uc003yda.3_Silent_p.H225H|E2F5_uc010mab.2_Silent_p.H64H|E2F5_uc003ydb.3_Silent_p.H44H	NM_001951	NP_001942	Q15329	E2F5_HUMAN	E2F transcription factor 5 isoform 1	225					G1 phase of mitotic cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1						GACCTATCCATGTGCTGCTTA	0.408													8	22					0	0	0.004482	0	0		C	86121436	C	C	86121436	2	2	202	1	0	0	0	0	0	0	0	1	4876	1461	51	3		3	E2F5	8	86121436	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	12273192	86121436	60242586	331	99219											
TMEM64	169200	broad.mit.edu	37	chr8	91657390	91657390	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgggtgtcagtctggccagCgccaccactttcaggccgct	6	9	12	14	2	3	0	2	0	1	0	3	0	3	0	4	3	1	1	4	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:91657390C>T	uc003yen.2	-	1	744	c.744G>A	c.(742-744)GCG>GCA	p.A248A	TMEM64_uc003yeo.2_Intron|TMEM64_uc011lgf.1_Silent_p.A248A|uc003yep.2_5'Flank	NM_001008495	NP_001008495	Q6YI46	TMM64_HUMAN	transmembrane protein 64 isoform 1	248						integral to membrane					0			BRCA - Breast invasive adenocarcinoma(11;0.0598)			GTCTGGCCAGCGCCACCACTT	0.602											OREG0018858	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	83					0	0	0.004482	0	0		T	91657390	T	T	91657390	2	4	202	1	0	0	0	0	0	0	0	1	16218	755	27	1		1	TMEM64	8	91657390	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5535954	91657390	54706632	332	99220											
VPS13B	157680	broad.mit.edu	37	chr8	100050671	100050671	+	Frame_Shift_Del	DEL	T	-	-																															gaactgaaattaccattcacTtttttaagtggacatattca																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:100050671delT	uc003yiv.2	+	3	279	c.168delT	c.(166-168)ACTfs	p.T56fs	VPS13B_uc003yiw.2_Frame_Shift_Del_p.T56fs|VPS13B_uc003yit.2_Frame_Shift_Del_p.T56fs|VPS13B_uc003yiu.1_Frame_Shift_Del_p.T56fs|VPS13B_uc003yis.2_Frame_Shift_Del_p.T56fs|VPS13B_uc011lgy.1_5'UTR	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	56					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			TACCATTCACTTTTTTAAGTG	0.254													10	13	---	---	---	---						.	-	100050671	-	-	100050671	7	5	202	1	0	1	0	1	0	0	0	0	17216	1596	56	0	174	0	VPS13B	8	100050671	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08	8393281	100050671	46313351	333	99221											
ABRA	137735	broad.mit.edu	37	chr8	107781751	107781751	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggagaatgcattcacttacTgggagggcaaggggcgcttg	9	8	17	7	1	1	1	1	0	0	1	1	3	1	2	0	5	2	3	0	5	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:107781751T>C	uc003ymm.3	-	1	722	c.668A>G	c.(667-669)CAG>CGG	p.Q223R		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	223					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			ATTCACTTACTGGGAGGGCAA	0.577													22	263					0	0	0.004656	0	0		C	107781751	C	C	107781751	3	2	202	1	0	0	0	0	1	0	0	0	100	1594	55	3	485	3	ABRA	8	107781751	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	7731080	107781751	38582271	334	99222											
CSMD3	114788	broad.mit.edu	37	chr8	113529286	113529286	+	Missense_Mutation	SNP	T	G	G	0	1	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	tacagactggtgggctgggcTgccagaagtaccgattttct	8	11	13	9	1	1	2	0	0	1	2	1	3	1	2	2	3	3	3	2	3	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:113529286T>G	uc003ynu.2	-	28	4892	c.4733A>C	c.(4732-4734)CAG>CCG	p.Q1578P	CSMD3_uc003yns.2_Missense_Mutation_p.Q850P|CSMD3_uc003ynt.2_Missense_Mutation_p.Q1538P|CSMD3_uc011lhx.1_Missense_Mutation_p.Q1474P	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1578	Extracellular (Potential).|Sushi 8.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGGGCTGGGCTGCCAGAAGTA	0.368										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			17	44					0	0	0.00278	0	0		G	113529286	G	G	113529286	3	3	202	1	0	0	0	0	1	0	0	0	3949	1580	55	5	6566	5	CSMD3	8	113529286	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	5747535	113529286	32834736	335	99223											
WDR67	93594	broad.mit.edu	37	chr8	124121761	124121761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgcctgaaaatcatactgCgtttagtaccctcatagata	13	12	6	10	1	2	2	2	1	0	1	2	2	2	2	2	0	4	2	2	0	7	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:124121761C>T	uc003ypp.1	+	10	1427	c.1337C>T	c.(1336-1338)GCG>GTG	p.A446V	WDR67_uc011lig.1_Missense_Mutation_p.A446V|WDR67_uc011lih.1_Missense_Mutation_p.A336V|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Missense_Mutation_p.A159V	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	446	Rab-GAP TBC.					centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			AATCATACTGCGTTTAGTACC	0.378													24	51					0	0	0.005443	0	0		T	124121761	T	T	124121761	3	4	202	1	0	0	0	0	1	0	0	0	17344	768	27	1	1375	1	WDR67	8	124121761	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	10592475	124121761	22242261	336	99224											
DENND3	22898	broad.mit.edu	37	chr8	142202491	142202491	+	Silent	SNP	T	C	C	0	1	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	ctccatcaagaattgaagatTgaggagaacttcaaagacac	17	8	8	8	0	2	6	2	2	0	4	3	7	3	6	1	1	1	0	1	1	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:142202491T>C	uc003yvy.2	+	21	3479	c.3201T>C	c.(3199-3201)ATT>ATC	p.I1067I	DENND3_uc010mep.2_Silent_p.I1028I|DENND3_uc003ywa.1_Silent_p.I117I|DENND3_uc003ywb.2_Silent_p.I117I	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	1067										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			AATTGAAGATTGAGGAGAACT	0.552													13	28					0	0	0.00245	0	0		C	142202491	C	C	142202491	2	2	202	1	0	0	0	0	0	0	0	1	4438	1800	63	3		3	DENND3	8	142202491	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	18080730	142202491	4161531	337	99225											
SLC45A4	57210	broad.mit.edu	37	chr8	142225981	142225981	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgggaaacatggccatcacGgctgtgccgacagagaagcc	11	6	13	11	2	1	1	1	0	0	1	1	4	1	2	3	3	3	1	3	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:142225981G>A	uc003ywd.1	-	6	1973	c.1665C>T	c.(1663-1665)GCC>GCT	p.A555A	SLC45A4_uc003ywc.1_Silent_p.A555A|SLC45A4_uc010meq.1_Silent_p.A553A	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	606	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			TGGCCATCACGGCTGTGCCGA	0.592													10	38					0	0	0.008291	0	0		A	142225981	A	A	142225981	2	1	202	1	0	0	0	0	0	0	0	1	14668	1103	39	1		1	SLC45A4	8	142225981	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	23490	142225981	4138041	338	99226											
ZFP41	286128	broad.mit.edu	37	chr8	144332292	144332292	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tatgagtgcagtgagtgtggGcggatctttaagcacaagac	11	10	14	6	1	1	3	0	2	1	1	1	4	1	4	0	2	2	2	0	2	3	3	rs144267705		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:144332292G>A	uc003yxw.2	+	2	637	c.279G>A	c.(277-279)GGG>GGA	p.G93G	ZFP41_uc003yxv.2_RNA	NM_173832	NP_776193	Q8N8Y5	ZFP41_HUMAN	zinc finger protein 41 homolog	93	C2H2-type 1.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.6e-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)			GTGAGTGTGGGCGGATCTTTA	0.517													25	48					0	0	0.004656	0	0		A	144332292	A	A	144332292	2	1	202	1	0	0	0	0	0	0	0	1	17674	1190	42	2		2	ZFP41	8	144332292	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2106311	144332292	2031730	339	99227											
TOP1MT	116447	broad.mit.edu	37	chr8	144391652	144391652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccatggcgagagcccaggCgaacctctcccgctgtgttt	6	9	12	14	3	1	1	0	0	1	1	2	3	1	1	4	2	3	2	4	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:144391652C>T	uc003yxz.2	-	14	1784	c.1765G>A	c.(1765-1767)GCC>ACC	p.A589T	TOP1MT_uc011lkd.1_Missense_Mutation_p.A491T|TOP1MT_uc011lke.1_Missense_Mutation_p.A491T|TOP1MT_uc010mfb.2_Missense_Mutation_p.A491T|TOP1MT_uc011lkf.1_3'UTR	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	589					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	AGAGCCCAGGCGAACCTCTCC	0.517													12	60					0	0	0.00245	0	0		T	144391652	T	T	144391652	3	4	202	1	0	0	0	0	1	0	0	0	16390	768	27	1	44	1	TOP1MT	8	144391652	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	59360	144391652	1972370	340	99228											
PYCRL	65263	broad.mit.edu	37	chr8	144688646	144688646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatactcacgaaggccacGccactgccactgaggccagt	11	5	10	15	2	1	1	1	1	0	0	1	2	1	1	4	2	2	1	4	2	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:144688646G>A	uc003yyy.2	-	4	586	c.576C>T	c.(574-576)GGC>GGT	p.G192G	PYCRL_uc011lkm.1_Silent_p.G172G|PYCRL_uc011lkn.1_RNA	NM_023078	NP_075566	Q53H96	P5CR3_HUMAN	pyrroline-5-carboxylate reductase-like	180					proline biosynthetic process		pyrroline-5-carboxylate reductase activity				0	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;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			CGAAGGCCACGCCACTGCCAC	0.652													10	67					0	0	0.003163	0	0		A	144688646	A	A	144688646	2	1	202	1	0	0	0	0	0	0	0	1	12882	1074	38	1		1	PYCRL	8	144688646	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	296994	144688646	1675376	341	99229											
EPPK1	83481	broad.mit.edu	37	chr8	144940460	144940460	+	Missense_Mutation	SNP	A	C	C	1	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	ccttctgcatggcctggaagAgggagatctgctgcccggtg	6	9	15	11	1	2	2	0	0	2	2	2	4	2	3	3	4	3	2	3	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:144940460A>C	uc003zaa.1	-	2	14985	c.14972T>G	c.(14971-14973)CTC>CGC	p.L4991R		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4991	Plectin 63.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGCCTGGAAGAGGGAGATCTG	0.706													12	323					0	0	0.003163	0	0		C	144940460	C	C	144940460	3	2	202	1	0	0	0	0	1	0	0	0	5198	304	11	5	304	5	EPPK1	8	144940460	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	251814	144940460	1423562	342	99230											
PLEC	5339	broad.mit.edu	37	chr8	145008551	145008551	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtgcagcttgccccactcCttctccacatccagcgggtg	6	9	9	17	2	1	0	0	0	1	0	4	0	3	0	5	1	4	2	5	1	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:145008551C>A	uc003zaf.1	-	11	1685	c.1515G>T	c.(1513-1515)AAG>AAT	p.K505N	PLEC_uc003zab.1_Missense_Mutation_p.K368N|PLEC_uc003zac.1_Missense_Mutation_p.K372N|PLEC_uc003zad.2_Missense_Mutation_p.K368N|PLEC_uc003zae.1_Missense_Mutation_p.K336N|PLEC_uc003zag.1_Missense_Mutation_p.K346N|PLEC_uc003zah.2_Missense_Mutation_p.K354N|PLEC_uc003zaj.2_Missense_Mutation_p.K395N	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	505	Globular 1.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TGCCCCACTCCTTCTCCACAT	0.667													8	59					2.62144e-13	2.81729e-13	0.004482	1	0		A	145008551	A	A	145008551	3	1	202	1	0	0	0	0	1	0	0	0	12071	680	24	5	12627	5	PLEC	8	145008551	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	68091	145008551	1355471	343	99231											
CPSF1	29894	broad.mit.edu	37	chr8	145625454	145625454	+	Missense_Mutation	SNP	A	G	G	1	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	cctgggcgcagtccagggtgAtccgcacaccctcctgggtg	5	7	14	15	2	0	1	0	1	0	0	3	1	3	1	5	3	0	2	5	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr8:145625454A>G	uc003zcj.2	-	10	1034	c.959T>C	c.(958-960)ATC>ACC	p.I320T	CPSF1_uc003zck.1_Missense_Mutation_p.I270T|CPSF1_uc011lle.1_Missense_Mutation_p.I320T	NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	320					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			GTCCAGGGTGATCCGCACACC	0.577													6	54					0	0	0.00308	0	0		G	145625454	G	G	145625454	3	3	202	1	0	0	0	0	1	0	0	0	3827	333	12	3	3488	3	CPSF1	8	145625454	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	616903	145625454	738568	344	99232											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													3	52					0	0	0.004672	0	0		G	164038	G	G	164038	5	3	202	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		164038	141049393	345	99233											
DMRT2	10655	broad.mit.edu	37	chr9	1056568	1056568	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaatttcttctaatgtcagCgtggccacaacttatagaca	12	13	6	10	1	3	1	1	0	2	1	3	1	3	1	1	1	2	0	1	1	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:1056568C>T	uc003zha.2	+	4	1181	c.981C>T	c.(979-981)AGC>AGT	p.S327S	DMRT2_uc003zgx.3_Silent_p.S94S|DMRT2_uc010mgz.2_Silent_p.S94S|DMRT2_uc003zgy.3_Silent_p.S171S|DMRT2_uc003zhb.3_3'UTR|DMRT2_uc011llt.1_3'UTR|DMRT2_uc011llu.1_3'UTR|DMRT2_uc011llv.1_Silent_p.S327S	NM_181872	NP_870987	Q9Y5R5	DMRT2_HUMAN	doublesex and mab-3 related transcription factor	327					male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0		all_lung(10;1.49e-09)|Lung NSC(10;1.86e-09)		Lung(218;0.0195)|GBM - Glioblastoma multiforme(50;0.0388)		CTAATGTCAGCGTGGCCACAA	0.463													21	23					0	0	0.002299	0	0		T	1056568	T	T	1056568	2	4	202	1	0	0	0	0	0	0	0	1	4592	767	27	1		1	DMRT2	9	1056568	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	892530	1056568	140156863	346	99234											
SMARCA2	6595	broad.mit.edu	37	chr9	2039779	2039779	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacaacagcagcagcaacaGcagcagcagcagcagcagca	17	0	10	14	0	0	0	0	0	0	0	0	0	0	0	0	0	13	10	0	0	3	0	rs62639301	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:2039779G>A	uc003zhc.2	+	4	768	c.669G>A	c.(667-669)CAG>CAA	p.Q223Q	SMARCA2_uc003zhd.2_Silent_p.Q223Q|SMARCA2_uc010mha.2_Silent_p.Q214Q	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	223	Poly-Gln.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		agcagcaacagcagcagcagc	0.274													5	22					0	0	0.000602	0	0		A	2039779	A	A	2039779	2	1	202	1	0	0	0	0	0	0	0	1	14794	962	34	2		2	SMARCA2	9	2039779	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	983211	2039779	139173652	347	99235											
KCNV2	169522	broad.mit.edu	37	chr9	2718442	2718442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggcggaggaactcttccgcGacatgcgcttctacggcccg	7	7	13	14	6	2	0	0	0	2	0	3	3	3	2	2	4	3	1	2	4	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:2718442G>A	uc003zho.1	+	1	917	c.703G>A	c.(703-705)GAC>AAC	p.D235N		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	235	Extracellular (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		ACTCTTCCGCGACATGCGCTT	0.687													3	9					0	0	0.000602	0	0		A	2718442	A	A	2718442	3	1	202	1	0	0	0	0	1	0	0	0	8111	1058	37	1	705	1	KCNV2	9	2718442	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	678663	2718442	138494989	348	99236											
RANBP6	26953	broad.mit.edu	37	chr9	6015587	6015587	+	Silent	SNP	T	C	C	0	1	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	gacacggtcgccggcaccccTgcagacgcggttgccgccat	6	5	13	17	6	0	1	0	0	0	1	1	2	0	1	5	3	2	3	5	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:6015587T>C	uc003zjr.2	-	1	32	c.21A>G	c.(19-21)GCA>GCG	p.A7A	RANBP6_uc011lmf.1_Silent_p.A7A|RANBP6_uc003zjs.2_5'UTR	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	7					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		CCGGCACCCCTGCAGACGCGG	0.602													39	35					0	0	0.002522	0	0		C	6015587	C	C	6015587	2	2	202	1	0	0	0	0	0	0	0	1	13056	1567	55	3		3	RANBP6	9	6015587	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	3297145	6015587	135197844	349	99237											
PTPRD	5789	broad.mit.edu	37	chr9	8485953	8485953	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatatccctataaagaaggGtatacttggtgataatgcca	14	12	9	6	0	0	3	0	2	0	1	1	3	1	3	2	2	2	1	2	2	8	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:8485953G>T	uc003zkk.2	-	27	3575	c.2864C>A	c.(2863-2865)ACC>AAC	p.T955N	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.T946N|PTPRD_uc003zkm.2_Missense_Mutation_p.T942N|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	955	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		ATAAAGAAGGGTATACTTGGT	0.478										TSP Lung(15;0.13)			15	80					9.7654e-05	0.000101003	0.007413	1	0		T	8485953	T	T	8485953	3	4	202	1	0	0	0	0	1	0	0	0	12824	1261	44	5	3018	5	PTPRD	9	8485953	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2470366	8485953	132727478	350	99238											
FREM1	158326	broad.mit.edu	37	chr9	14859191	14859191	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gacatcatacgggactctggGaaaaaactgtgtggctgatc	12	9	12	8	1	2	1	1	1	1	0	3	4	2	3	0	3	2	1	0	3	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:14859191G>A	uc003zlm.2	-	4	1211	c.621C>T	c.(619-621)TTC>TTT	p.F207F	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	207					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)		GGGACTCTGGGAAAAAACTGT	0.502													8	18					0	0	0.004482	0	0		A	14859191	A	A	14859191	2	1	202	1	0	0	0	0	0	0	0	1	6058	1165	41	4		4	FREM1	9	14859191	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6373238	14859191	126354240	351	99239											
CNTLN	54875	broad.mit.edu	37	chr9	17484353	17484353	+	Frame_Shift_Del	DEL	A	-	-																															ggcgacaaataagagagcttAaaaaaatgaagaaaaacagg																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:17484353delA	uc003zmz.2	+	24	3939	c.3913delA	c.(3913-3915)AAAfs	p.K1305fs	CNTLN_uc003zmy.2_Frame_Shift_Del_p.K1306fs|CNTLN_uc010mio.2_Frame_Shift_Del_p.K985fs	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	1306	Potential.					centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		AAGAGAGCTTAAAAAAATGAA	0.398													17	32	---	---	---	---						.	-	17484353	-	-	17484353	7	5	202	1	0	1	0	1	0	0	0	0	3642	363	13	0	4040	0	CNTLN	9	17484353	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	2625162	17484353	123729078	352	99240											
UNC13B	10497	broad.mit.edu	37	chr9	35380501	35380501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctctgaccgcattaaggtgCgtgtatgggatgaggatgat	9	11	14	7	2	1	3	0	3	1	0	1	5	1	5	2	3	1	2	2	3	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:35380501C>T	uc003zwq.2	+	17	2285	c.1993C>T	c.(1993-1995)CGT>TGT	p.R665C	UNC13B_uc003zwr.2_Missense_Mutation_p.R665C	NM_006377	NP_006368	O14795	UN13B_HUMAN	UNC13 (C. elegans)-like	665	C2 2.				excretion|induction of apoptosis|intracellular signal transduction	cell junction|Golgi apparatus|synapse	metal ion binding|receptor activity			ovary(3)|large_intestine(1)|skin(1)	5	all_epithelial(49;0.212)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)|STAD - Stomach adenocarcinoma(86;0.194)			CATTAAGGTGCGTGTATGGGA	0.493													4	34					0	0	0.000602	0	0		T	35380501	T	T	35380501	3	4	202	1	0	0	0	0	1	0	0	0	17011	768	27	1	2059	1	UNC13B	9	35380501	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	17896148	35380501	105832930	353	99241											
RUSC2	9853	broad.mit.edu	37	chr9	35558199	35558199	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctaccacacctacaggcaaaGctgggaaacagttctgtgag	13	7	10	11	0	1	1	0	1	1	0	1	2	1	2	2	2	4	3	2	2	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:35558199G>T	uc003zww.2	+	7	3321	c.3066G>T	c.(3064-3066)AAG>AAT	p.K1022N	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.K1022N	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	1022						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			TACAGGCAAAGCTGGGAAACA	0.607													5	54					1.06961e-07	1.12369e-07	0.00308	1	0		T	35558199	T	T	35558199	3	4	202	1	0	0	0	0	1	0	0	0	13776	962	34	5	3088	5	RUSC2	9	35558199	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	177698	35558199	105655232	354	99242											
TRPM3	80036	broad.mit.edu	37	chr9	73151247	73151247	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctgcttctcgctctggatgGcagcaagttaagtcctccac	7	12	9	13	1	3	0	0	0	3	0	6	1	5	1	2	2	2	5	2	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:73151247G>A	uc004aid.2	-	25	4990	c.4746C>T	c.(4744-4746)TGC>TGT	p.C1582C	TRPM3_uc004ahu.2_Silent_p.C1424C|TRPM3_uc004ahv.2_Silent_p.C1384C|TRPM3_uc004ahw.2_Silent_p.C1454C|TRPM3_uc004ahx.2_Silent_p.C1441C|TRPM3_uc004ahy.2_Silent_p.C1444C|TRPM3_uc004ahz.2_Silent_p.C1431C|TRPM3_uc004aia.2_Silent_p.C1429C|TRPM3_uc004aib.2_Silent_p.C1419C|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1607	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GCTCTGGATGGCAGCAAGTTA	0.542													9	70					0	0	0.008291	0	0		A	73151247	A	A	73151247	2	1	202	1	0	0	0	0	0	0	0	1	16613	1195	42	2		2	TRPM3	9	73151247	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	37593048	73151247	68062184	355	99243											
FLJ46321	389763	broad.mit.edu	37	chr9	84606266	84606266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccattgattcttgtgctcGtcatcacggaccaccaatcc	8	12	6	15	2	3	1	2	1	1	0	6	2	5	2	4	1	1	1	4	1	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:84606266G>A	uc004amn.2	+	4	928	c.881G>A	c.(880-882)CGT>CAT	p.R294H		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	294						integral to membrane					0						TCTTGTGCTCGTCATCACGGA	0.463													71	242					0	0	0.00361	0	0		A	84606266	A	A	84606266	3	1	202	1	0	0	0	0	1	0	0	0	5946	1145	40	1	895	1	FLJ46321	9	84606266	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	11455019	84606266	56607165	356	99244											
KIF27	55582	broad.mit.edu	37	chr9	86504110	86504110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacccaacagcatctgacttCgtgttcgaaatccagcaaat	13	9	7	12	2	1	1	0	1	1	0	4	3	2	1	2	0	3	3	2	0	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:86504110C>T	uc004ana.2	-	7	2012	c.1868G>A	c.(1867-1869)CGA>CAA	p.R623Q	KIF27_uc010mpw.2_Missense_Mutation_p.R623Q|KIF27_uc010mpx.2_Missense_Mutation_p.R623Q	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	623					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						CATCTGACTTCGTGTTCGAAA	0.428													33	103					0	0	0.007835	0	0		T	86504110	T	T	86504110	3	4	202	1	0	0	0	0	1	0	0	0	8312	884	31	1	2385	1	KIF27	9	86504110	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1897844	86504110	54709321	357	99245											
AGTPBP1	23287	broad.mit.edu	37	chr9	88204537	88204537	+	Silent	SNP	A	G	G	1	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	gacagggtttcacataacacAtctttccgaaaatagatttg	14	12	7	8	1	2	1	1	0	1	1	3	3	3	1	1	1	1	1	1	1	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:88204537A>G	uc011ltd.1	-	19	2661	c.2628T>C	c.(2626-2628)GAT>GAC	p.D876D	AGTPBP1_uc004aod.3_Silent_p.D502D|AGTPBP1_uc011ltc.1_Intron|AGTPBP1_uc010mqc.2_Silent_p.D836D|AGTPBP1_uc011lte.1_Silent_p.D888D	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	876					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)|skin(1)	7						CACATAACACATCTTTCCGAA	0.338													8	29					0	0	0.000978	0	0		G	88204537	G	G	88204537	2	3	202	1	0	0	0	0	0	0	0	1	400	214	8	3		3	AGTPBP1	9	88204537	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1700427	88204537	53008894	358	99246											
ZCCHC6	79670	broad.mit.edu	37	chr9	88967763	88967763	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aacaggaattctaggtccagGtttgaattctctccagttgt	10	14	9	8	0	2	1	0	1	2	0	5	2	4	2	2	3	1	2	2	3	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:88967763G>T	uc004aoq.2	-	2	567	c.352C>A	c.(352-354)CCT>ACT	p.P118T	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Missense_Mutation_p.P118T|ZCCHC6_uc004aou.2_Missense_Mutation_p.P118T|ZCCHC6_uc004aov.2_Missense_Mutation_p.P118T|ZCCHC6_uc004aow.2_Missense_Mutation_p.P118T|ZCCHC6_uc010mqf.1_Missense_Mutation_p.P118T	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	118					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						CTAGGTCCAGGTTTGAATTCT	0.423													21	57					2.21704e-12	2.36906e-12	0.00278	1	0		T	88967763	T	T	88967763	3	4	202	1	0	0	0	0	1	0	0	0	17617	1261	44	5	4239	5	ZCCHC6	9	88967763	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	763226	88967763	52245668	359	99247											
ROR2	4920	broad.mit.edu	37	chr9	94493360	94493360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggggtgctgcagggcccacgGctggcactggtggcctgact	4	7	18	12	1	0	1	0	1	0	0	0	1	0	1	2	7	2	4	2	7	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:94493360G>A	uc004arj.1	-	7	1214	c.1015C>T	c.(1015-1017)CCG>TCG	p.P339S	ROR2_uc004ari.1_Missense_Mutation_p.P199S|ROR2_uc004ark.2_Missense_Mutation_p.P339S	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	339	Extracellular (Potential).|Kringle.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						AGGGCCCACGGCTGGCACTGG	0.612													25	51					0	0	0.004656	0	0		A	94493360	A	A	94493360	3	1	202	1	0	0	0	0	1	0	0	0	13552	1203	42	2	1828	2	ROR2	9	94493360	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5525597	94493360	46720071	360	99248											
KIAA1529	57653	broad.mit.edu	37	chr9	100124717	100124717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgccagtgctacctctgCaggcaggtaggacacaaagc	11	6	12	12	0	1	0	0	0	1	0	1	1	1	1	2	3	5	4	2	3	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:100124717C>T	uc011lut.1	+	40	5218	c.4445C>T	c.(4444-4446)GCA>GTA	p.A1482V	KIAA1529_uc004axe.1_Missense_Mutation_p.A1277V|KIAA1529_uc004axg.1_Missense_Mutation_p.A1343V|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Missense_Mutation_p.A462V	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				GCTACCTCTGCAGGCAGGTAG	0.582													23	83					0	0	0.004656	0	0		T	100124717	T	T	100124717	3	4	202	1	0	0	0	0	1	0	0	0	8256	710	25	2	3944	2	KIAA1529	9	100124717	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5631357	100124717	41088714	361	99249											
NCBP1	4686	broad.mit.edu	37	chr9	100416081	100416081	+	Missense_Mutation	SNP	T	C	C	0	1	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	actcatgattcttttgtaggTgatctttgcagagctgtttc	7	18	9	7	0	3	3	1	2	2	1	4	3	3	3	0	1	2	4	0	1	1	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:100416081T>C	uc004axq.2	+	11	1520	c.1061T>C	c.(1060-1062)GTG>GCG	p.V354A		NM_002486	NP_002477	Q09161	NCBP1_HUMAN	nuclear cap binding protein subunit 1, 80kDa	354					gene silencing by RNA|histone mRNA metabolic process|mRNA 3'-end processing|mRNA capping|mRNA cleavage|mRNA export from nucleus|ncRNA metabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of mRNA 3'-end processing|positive regulation of viral transcription|regulation of translational initiation|spliceosomal snRNP assembly|termination of RNA polymerase II transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytosol|mRNA cap binding complex|nucleoplasm|ribonucleoprotein complex	protein binding|RNA cap binding			central_nervous_system(1)	1		Acute lymphoblastic leukemia(62;0.158)				CTTTTGTAGGTGATCTTTGCA	0.413													19	22					0	0	0.00278	0	0		C	100416081	C	C	100416081	3	2	202	1	0	0	0	0	1	0	0	0	10230	1710	59	3	1103	3	NCBP1	9	100416081	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	291364	100416081	40797350	362	99250											
FOXE1	2304	broad.mit.edu	37	chr9	100617252	100617252	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctcggaggggccagtgcaggCgcctaccatgctcgccatgc	6	6	14	15	3	0	0	0	0	0	0	2	1	0	1	4	4	4	2	4	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:100617252C>T	uc004axu.2	+	1	1716	c.1056C>T	c.(1054-1056)GGC>GGT	p.G352G		NM_004473	NP_004464	O00358	FOXE1_HUMAN	forkhead box E1	352					cell migration|embryonic organ morphogenesis|hair follicle morphogenesis|hard palate development|lens morphogenesis in camera-type eye|negative regulation of transcription from RNA polymerase II promoter|pattern specification process|peripheral nervous system development|pharynx development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|soft palate development|thymus development|thyroid gland development|thyroid hormone generation	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		Acute lymphoblastic leukemia(62;0.158)				CCAGTGCAGGCGCCTACCATG	0.647													5	25					0	0	0.000602	0	0		T	100617252	T	T	100617252	2	4	202	1	0	0	0	0	0	0	0	1	6017	755	27	1		1	FOXE1	9	100617252	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	201171	100617252	40596179	363	99251											
INVS	27130	broad.mit.edu	37	chr9	103035301	103035301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggtcagaaaagccttccGagacaggaaaaatctcctca	16	6	8	11	1	3	2	2	0	1	2	5	4	4	3	3	2	1	0	3	2	5	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:103035301G>A	uc004bap.1	+	12	1939	c.1727G>A	c.(1726-1728)CGA>CAA	p.R576Q	INVS_uc010mta.1_Missense_Mutation_p.R480Q|INVS_uc011lve.1_Missense_Mutation_p.R480Q|INVS_uc004bao.1_Missense_Mutation_p.R576Q|INVS_uc004baq.1_Missense_Mutation_p.R480Q|INVS_uc004bar.1_Missense_Mutation_p.R480Q|INVS_uc010mtb.1_Missense_Mutation_p.R250Q	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	576	IQ 1.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				AAAGCCTTCCGAGACAGGAAA	0.488													22	92					0	0	0.010504	0	0		A	103035301	A	A	103035301	3	1	202	1	0	0	0	0	1	0	0	0	7803	1058	37	1	1769	1	INVS	9	103035301	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2418049	103035301	38178130	364	99252											
ZNF462	58499	broad.mit.edu	37	chr9	109690581	109690581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcagctagcttcagccaaccCcgccatatcctccaccccat	9	7	5	20	1	1	0	1	0	0	0	3	0	3	0	8	0	4	3	8	0	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:109690581C>T	uc004bcz.2	+	3	4677	c.4388C>T	c.(4387-4389)CCC>CTC	p.P1463L	ZNF462_uc010mto.2_Missense_Mutation_p.P1311L|ZNF462_uc004bda.2_Missense_Mutation_p.P1311L	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1463					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TCAGCCAACCCCGCCATATCC	0.532													20	17					0	0	0.001882	0	0		T	109690581	T	T	109690581	3	4	202	1	0	0	0	0	1	0	0	0	17951	623	22	4	4394	4	ZNF462	9	109690581	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6655280	109690581	31522850	365	99253											
ZNF462	58499	broad.mit.edu	37	chr9	109773168	109773168	+	Missense_Mutation	SNP	A	G	G	1	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	caaaagagatcatggagaacAgtgttaaaatgccctccata	17	8	8	8	0	1	2	1	0	0	2	2	4	2	2	2	1	2	1	2	1	6	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:109773168A>G	uc004bcz.2	+	13	7667	c.7378A>G	c.(7378-7380)AGT>GGT	p.S2460G	ZNF462_uc010mto.2_Missense_Mutation_p.S2369G|ZNF462_uc004bda.2_Missense_Mutation_p.S2368G|ZNF462_uc011lvz.1_Missense_Mutation_p.S417G|uc004bdc.1_Intron	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	2460					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						CATGGAGAACAGTGTTAAAAT	0.423													5	15					0	0	0.000602	0	0		G	109773168	G	G	109773168	3	3	202	1	0	0	0	0	1	0	0	0	17951	188	7	3	7424	3	ZNF462	9	109773168	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	82587	109773168	31440263	366	99254											
KIAA1958	158405	broad.mit.edu	37	chr9	115422066	115422066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctaccatgagcattcccGgggacacaaacagtgccctt	11	8	9	13	1	1	1	0	1	1	0	2	3	2	2	3	2	4	1	3	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:115422066G>A	uc004bgf.1	+	4	2043	c.1868G>A	c.(1867-1869)CGG>CAG	p.R623Q	KIAA1958_uc011lwx.1_Missense_Mutation_p.R651Q	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	623										skin(1)	1						GAGCATTCCCGGGGACACAAA	0.592													13	40					0	0	0.00245	0	0		A	115422066	A	A	115422066	3	1	202	1	0	0	0	0	1	0	0	0	8280	1116	39	1	1878	1	KIAA1958	9	115422066	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5648898	115422066	25791365	367	99255											
COL27A1	85301	broad.mit.edu	37	chr9	117063971	117063971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttcccccagggtcctcccGgccccagagggcggcccggc	3	5	14	19	3	0	1	0	0	0	1	3	1	3	1	7	5	0	1	7	5	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:117063971G>A	uc011lxl.1	+	55	4819	c.4819G>A	c.(4819-4821)GGC>AGC	p.G1607S	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1607	Pro-rich.|Collagen-like 16.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGGTCCTCCCGGCCCCAGAGG	0.632													9	44					0	0	0.000978	0	0		A	117063971	A	A	117063971	3	1	202	1	0	0	0	0	1	0	0	0	3688	1116	39	1	5037	1	COL27A1	9	117063971	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1641905	117063971	24149460	368	99256											
COL27A1	85301	broad.mit.edu	37	chr9	117066886	117066886	+	Splice_Site	SNP	A	G	G	1	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	accctgtcttttccttgcccAgcaacaagatgatcttgggg	8	12	9	12	0	2	2	0	1	2	1	3	2	3	2	3	2	3	1	3	2	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:117066886A>G	uc011lxl.1	+	57	4873	c.4873_splice	c.e57-2	p.Q1625_splice	COL27A1_uc004bii.2_Splice_Site|COL27A1_uc011lxn.1_5'Flank	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor						cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						TTCCTTGCCCAGCAACAAGAT	0.597													6	90					0	0	0.00308	0	0		G	117066886	G	G	117066886	5	3	202	1	0	0	0	0	0	0	1	0	3688	202	7	3	5097	3	COL27A1	9	117066886	Splice_Site	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2915	117066886	24146545	369	99257											
TNC	3371	broad.mit.edu	37	chr9	117848730	117848730	+	Missense_Mutation	SNP	T	G	G	0	1	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	agtcctccccagtatagcccTcatcacacacacactgccca	11	7	4	19	0	2	0	2	0	0	0	4	0	4	0	5	0	2	1	5	0	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:117848730T>G	uc004bjj.3	-	3	1642	c.1280A>C	c.(1279-1281)GAG>GCG	p.E427A	TNC_uc010mvf.2_Missense_Mutation_p.E427A	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	427	EGF-like 9.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						AGTATAGCCCTCATCACACAC	0.577													30	107					0	0	0.002445	0	0		G	117848730	G	G	117848730	3	3	202	1	0	0	0	0	1	0	0	0	16295	1551	54	5	5429	5	TNC	9	117848730	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	781844	117848730	23364701	370	99258											
ASTN2	23245	broad.mit.edu	37	chr9	119382591	119382591	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggccatacatacgtacacCggctgcagaagggggctgca	10	5	15	11	2	0	1	0	0	0	1	0	1	0	1	2	5	5	5	2	5	4	3	rs111633658	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:119382591C>T	uc004bjs.1	-	18	3305	c.3204G>A	c.(3202-3204)CCG>CCA	p.P1068P	ASTN2_uc004bjr.1_Silent_p.P1064P|ASTN2_uc004bjt.1_Silent_p.P1017P|ASTN2_uc004bjp.1_Silent_p.P161P|ASTN2_uc004bjq.1_Silent_p.P120P|ASTN2_uc011lxr.1_Silent_p.P120P|ASTN2_uc011lxs.1_Silent_p.P120P|ASTN2_uc011lxt.1_Silent_p.P120P|ASTN2_uc004bjv.1_Silent_p.P120P	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	1068	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						ATACGTACACCGGCTGCAGAA	0.582													9	58					0	0	0.004482	0	0		T	119382591	T	T	119382591	2	4	202	1	0	0	0	0	0	0	0	1	1066	639	23	1		1	ASTN2	9	119382591	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1533861	119382591	21830840	371	99259											
OR1J4	26219	broad.mit.edu	37	chr9	125282057	125282057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattactctaccactaatatGcatcttgatctcttatggcc	10	15	4	12	0	3	1	0	1	3	0	4	1	3	1	2	1	3	1	2	1	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:125282057G>A	uc011lyw.1	+	1	638	c.638G>A	c.(637-639)TGC>TAC	p.C213Y		NM_001004452	NP_001004452	Q8NGS1	OR1J4_HUMAN	olfactory receptor, family 1, subfamily J,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCACTAATATGCATCTTGATC	0.483													25	51					0	0	0.008361	0	0		A	125282057	A	A	125282057	3	1	202	1	0	0	0	0	1	0	0	0	10980	1319	46	2	640	2	OR1J4	9	125282057	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5899466	125282057	15931374	372	99260											
SH2D3C	10044	broad.mit.edu	37	chr9	130536608	130536608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgggggactcttgggcaccGtcaccatgtcatcctgcgtg	5	10	13	13	2	3	0	2	0	1	0	4	1	4	1	3	3	1	1	3	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:130536608G>A	uc004bsc.2	-	2	318	c.176C>T	c.(175-177)ACG>ATG	p.T59M	SH2D3C_uc004bsa.2_5'Flank|SH2D3C_uc004bsb.2_5'Flank|SH2D3C_uc004bsd.1_Missense_Mutation_p.T3M	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	59					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						CTTGGGCACCGTCACCATGTC	0.577													28	63					0	0	0.004289	0	0		A	130536608	A	A	130536608	3	1	202	1	0	0	0	0	1	0	0	0	14259	1145	40	1	2583	1	SH2D3C	9	130536608	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5254551	130536608	10676823	373	99261											
FAM102A	399665	broad.mit.edu	37	chr9	130707096	130707096	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgaaatcctggctctgcacGatcttctccacgatggcatc	8	11	9	13	2	3	1	0	1	3	0	6	3	4	1	2	2	1	3	2	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:130707096G>A	uc004bsx.1	-	9	1078	c.999C>T	c.(997-999)ATC>ATT	p.I333I	FAM102A_uc004bsw.1_Silent_p.I191I|FAM102A_uc004bsy.1_Silent_p.I61I	NM_001035254	NP_001030331	Q5T9C2	F102A_HUMAN	early estrogen-induced gene 1 protein isoform a	333										ovary(1)	1						GGCTCTGCACGATCTTCTCCA	0.672													22	24					0	0	0.001882	0	0		A	130707096	A	A	130707096	2	1	202	1	0	0	0	0	0	0	0	1	5393	1048	37	1		1	FAM102A	9	130707096	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	170488	130707096	10506335	374	99262											
CIZ1	25792	broad.mit.edu	37	chr9	130932369	130932369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggcaggtgttgcaccagCgccttggtggaggctccctg	4	9	16	12	1	0	0	0	0	0	0	1	1	1	1	3	5	2	5	3	5	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:130932369C>T	uc004btt.2	-	12	2124	c.1961G>A	c.(1960-1962)CGC>CAC	p.R654H	CIZ1_uc004btr.2_Missense_Mutation_p.R626H|CIZ1_uc004bts.2_Missense_Mutation_p.R625H|CIZ1_uc011maq.1_Missense_Mutation_p.R593H|CIZ1_uc004btu.2_Missense_Mutation_p.R574H|CIZ1_uc011mar.1_Missense_Mutation_p.R553H|CIZ1_uc011mas.1_Missense_Mutation_p.R684H|CIZ1_uc004btw.2_Missense_Mutation_p.R598H|CIZ1_uc004btv.2_Missense_Mutation_p.R654H	NM_001131016	NP_001124488	Q9ULV3	CIZ1_HUMAN	CDKN1A interacting zinc finger protein 1 isoform	654						nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4						GTTGCACCAGCGCCTTGGTGG	0.532													24	65					0	0	0.008361	0	0		T	130932369	T	T	130932369	3	4	202	1	0	0	0	0	1	0	0	0	3444	768	27	1	759	1	CIZ1	9	130932369	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	225273	130932369	10281062	375	99263											
GLE1	2733	broad.mit.edu	37	chr9	131287597	131287597	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaagaggaggcaggatgaaGaagaggcccaggtaaagctg	16	3	16	6	0	0	4	0	1	0	3	0	6	0	6	1	5	1	3	1	5	5	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:131287597G>A	uc004bvj.2	+	7	1138	c.1024G>A	c.(1024-1026)GAA>AAA	p.E342K	GLE1_uc004bvi.2_Missense_Mutation_p.E342K|GLE1_uc010myd.2_Missense_Mutation_p.E88K	NM_001003722	NP_001003722	Q53GS7	GLE1_HUMAN	GLE1 RNA export mediator homolog isoform 1	342	Potential.				poly(A)+ mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear pore	protein binding				0						GCAGGATGAAGAAGAGGCCCA	0.607													4	32					0	0	0.009096	0	0		A	131287597	A	A	131287597	3	1	202	1	0	0	0	0	1	0	0	0	6450	943	33	4	1050	4	GLE1	9	131287597	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	355228	131287597	9925834	376	99264											
SPTAN1	6709	broad.mit.edu	37	chr9	131353800	131353800	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcgtcagggttttgtgccGgctgcgtacgtgaagaaatt	8	12	14	7	4	1	2	1	1	0	1	2	3	1	2	1	2	3	3	1	2	3	4	rs140279996	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:131353800G>A	uc004bvl.3	+	22	3164	c.3051G>A	c.(3049-3051)CCG>CCA	p.P1017P	SPTAN1_uc011mbg.1_Silent_p.P1017P|SPTAN1_uc011mbh.1_Silent_p.P1029P|SPTAN1_uc004bvm.3_Silent_p.P1017P|SPTAN1_uc004bvn.3_Silent_p.P1017P	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1017	SH3.		P -> S (in a breast cancer sample; somatic mutation).		actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton	p.P1017S(1)		breast(5)|ovary(4)|pancreas(1)	10						GTTTTGTGCCGGCTGCGTACG	0.527													33	116					0	0	0.006999	0	0		A	131353800	A	A	131353800	2	1	202	1	0	0	0	0	0	0	0	1	15142	1103	39	1		1	SPTAN1	9	131353800	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	66203	131353800	9859631	377	99265											
CEL	1056	broad.mit.edu	37	chr9	135942250	135942250	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctccccctacaacaagggccTcatccggcgagccatcagcc	9	5	8	19	2	2	0	2	0	0	0	4	1	4	0	6	2	4	0	6	2	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:135942250T>C	uc010naa.1	+	6	720	c.704T>C	c.(703-705)CTC>CCC	p.L235P		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	232					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		AACAAGGGCCTCATCCGGCGA	0.632													8	13					0	0	0.008291	0	0		C	135942250	C	C	135942250	3	2	202	1	0	0	0	0	1	0	0	0	3212	1551	54	3	726	3	CEL	9	135942250	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	4588450	135942250	5271181	378	99266											
RALGDS	5900	broad.mit.edu	37	chr9	135978616	135978616	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggctgcctgcagctgcttaCcttcctcctcttctcaaagt	5	13	8	15	0	2	0	1	0	2	0	5	0	4	0	4	1	5	4	4	1	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:135978616C>T	uc004cco.2	-	12	1811	c.1791_splice	c.e12+1	p.K597_splice	RALGDS_uc004ccn.2_5'Flank|RALGDS_uc004ccp.2_Splice_Site|RALGDS_uc004ccq.2_Splice_Site_p.K585_splice|RALGDS_uc004ccr.2_Splice_Site_p.K596_splice|RALGDS_uc011mcv.1_Splice_Site_p.K568_splice|RALGDS_uc004ccs.2_Splice_Site_p.K542_splice|RALGDS_uc011mcw.1_Splice_Site_p.K668_splice|RALGDS_uc004ccv.1_Splice_Site_p.K366_splice|RALGDS_uc004ccu.1_Splice_Site_p.K366_splice	NM_006266	NP_006257	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator						nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		CAGCTGCTTACCTTCCTCCTC	0.537			T	CIITA	PMBL|Hodgkin Lymphona|						OREG0019581	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	41					0	0	0.001368	0	0		T	135978616	T	T	135978616	5	4	202	1	0	0	0	0	0	0	1	0	13041	521	18	4	980	4	RALGDS	9	135978616	Splice_Site	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	36366	135978616	5234815	379	99267											
OBP2B	29989	broad.mit.edu	37	chr9	136082718	136082718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggtacatgagcttcctgcCcccatctgtagatgacagag	10	9	10	12	0	1	4	0	2	1	2	2	4	2	4	3	1	3	3	3	1	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:136082718C>T	uc004ccz.2	-	4	325	c.283G>A	c.(283-285)GGC>AGC	p.G95S	OBP2B_uc010nad.2_RNA|OBP2B_uc011mcy.1_Missense_Mutation_p.G27S	NM_014581	NP_055396	Q9NPH6	OBP2B_HUMAN	odorant binding protein 2B precursor	95					chemosensory behavior|sensory perception of smell	extracellular region	odorant binding|transporter activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.41e-06)|Epithelial(140;1.88e-05)		AGCTTCCTGCCCCCATCTGTA	0.552													5	26					0	0	0.000602	0	0		T	136082718	T	T	136082718	3	4	202	1	0	0	0	0	1	0	0	0	10830	623	22	4	241	4	OBP2B	9	136082718	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	104102	136082718	5130713	380	99268											
CAMSAP1	157922	broad.mit.edu	37	chr9	138713203	138713203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcagctccgccggccttcCggaacgggaattccggcctt	5	9	11	16	5	1	0	1	0	0	0	4	2	4	2	6	4	2	1	6	4	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:138713203C>T	uc004cgr.3	-	11	3304	c.3304G>A	c.(3304-3306)GGA>AGA	p.G1102R	CAMSAP1_uc004cgq.3_Missense_Mutation_p.G992R|CAMSAP1_uc010nbg.2_Missense_Mutation_p.G824R	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein	1102						cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		GCCGGCCTTCCGGAACGGGAA	0.647													9	37					0	0	0.006214	0	0		T	138713203	T	T	138713203	3	4	202	1	0	0	0	0	1	0	0	0	2614	661	23	1	1532	1	CAMSAP1	9	138713203	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2630485	138713203	2500228	381	99269											
NOTCH1	4851	broad.mit.edu	37	chr9	139409965	139409965	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcaggcagaagcagaggtAggcgttgtcgcggtcctggc	7	8	16	10	3	1	2	1	0	0	2	3	2	2	2	1	5	1	4	1	5	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:139409965A>C	uc004chz.2	-	11	1873	c.1873T>G	c.(1873-1875)TAC>GAC	p.Y625D	NOTCH1_uc004cia.1_5'Flank	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	625	Extracellular (Potential).|EGF-like 16; calcium-binding (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		AAGCAGAGGTAGGCGTTGTCG	0.721			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			17	23					0	0	0.002299	0	0		C	139409965	C	C	139409965	3	2	202	1	0	0	0	0	1	0	0	0	10566	420	15	5	5890	5	NOTCH1	9	139409965	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	696762	139409965	1803466	382	99270											
CLIC3	9022	broad.mit.edu	37	chr9	139889995	139889995	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcagctgcgagccgggggcGaagtccttcagcacgtccgg	6	5	17	13	5	1	0	1	0	0	0	3	2	3	0	3	4	4	3	3	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:139889995G>A	uc004ckj.1	-	3	197	c.168C>T	c.(166-168)TTC>TTT	p.F56F		NM_004669	NP_004660	O95833	CLIC3_HUMAN	chloride intracellular channel 3	56	GST N-terminal.|Required for insertion into the membrane (By similarity).				signal transduction	chloride channel complex|cytoplasm|nucleus	protein binding|voltage-gated chloride channel activity				0	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)		AGCCGGGGGCGAAGTCCTTCA	0.706													38	47					0	0	0.007835	0	0		A	139889995	A	A	139889995	2	1	202	1	0	0	0	0	0	0	0	1	3530	1049	37	1		1	CLIC3	9	139889995	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	480030	139889995	1323436	383	99271											
FAM166A	401565	broad.mit.edu	37	chr9	140140301	140140301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagctgcggaaagaagccggCatagctgtggagggaagaga	13	4	17	7	2	0	2	0	0	0	2	0	6	0	5	1	4	4	3	1	4	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr9:140140301C>T	uc004cmi.1	-	2	116	c.61G>A	c.(61-63)GCC>ACC	p.A21T		NM_001001710	NP_001001710	Q6J272	F166A_HUMAN	hypothetical protein LOC401565	21										ovary(1)	1						AAGAAGCCGGCATAGCTGTGG	0.552													3	20					0	0	0.009096	0	0		T	140140301	T	T	140140301	3	4	202	1	0	0	0	0	1	0	0	0	5492	710	25	2	916	2	FAM166A	9	140140301	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	250306	140140301	1073130	384	99272											
CCDC3	83643	broad.mit.edu	37	chr10	12940438	12940438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acccccgcaggtagggggggCgcacgggcccccgggcattg	5	3	18	15	4	0	0	0	0	0	0	0	0	0	0	4	6	0	4	4	6	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:12940438C>T	uc001ilq.1	-	3	925	c.791G>A	c.(790-792)CGC>CAC	p.R264H	CCDC3_uc009xjb.1_RNA|CCDC3_uc001ilr.2_RNA|CCDC3_uc009xjc.1_RNA	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	264						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			GTAGGGGGGGCGCACGGGCCC	0.657													7	17					0	0	0.00308	0	0		T	12940438	T	T	12940438	3	4	202	1	0	0	0	0	1	0	0	0	2807	768	27	1	25	1	CCDC3	10	12940438	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		12940438	122594309	385	99273											
CCDC3	83643	broad.mit.edu	37	chr10	13043355	13043356	+	Frame_Shift_Ins	INS	-	C	C																															cctcggccgagtagaagaggINScccccctggccggcgtggta																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:13043355_13043356insC	uc001ilq.1	-	1	349_350	c.215_216insG	c.(214-216)GGCfs	p.G72fs	CCDC3_uc009xjb.1_Intron|CCDC3_uc001ilr.2_Intron|CCDC3_uc009xjc.1_Intron	NM_031455	NP_113643	Q9BQI4	CCDC3_HUMAN	coiled-coil domain containing 3 precursor	72						endoplasmic reticulum|extracellular region				ovary(1)	1		Ovarian(717;0.0822)	BRCA - Breast invasive adenocarcinoma(52;0.163)			AGTAGAAGAGGCCCCCCTGGCC	0.713													6	10	---	---	---	---						.	C	13043356	C	C	13043355	7	5	202	1	0	1	1	0	0	0	0	0	2807	1190	42	0	608	0	CCDC3	10	13043355	Frame_Shift_Ins	INS	-	TCGA-HJ-7597-01A-21D-2201-08	102917	13043355	122491392	386	99274											
VIM	7431	broad.mit.edu	37	chr10	17271730	17271731	+	Frame_Shift_Ins	INS	-	A	A																															agaacacccgcaccaacgagINSaaggtggagctgcaggagct																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:17271730_17271731insA	uc001iou.2	+	2	722_723	c.309_310insA	c.(307-312)GAGAAGfs	p.E103fs	uc001iot.1_RNA|VIM_uc001iov.1_Frame_Shift_Ins_p.E103fs|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Frame_Shift_Ins_p.E103fs|VIM_uc001ioy.1_Frame_Shift_Ins_p.E103fs|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Frame_Shift_Ins_p.E103fs|VIM_uc001ipc.1_Frame_Shift_Ins_p.E103fs	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	103_104	Rod.|Coil 1A.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						GCACCAACGAGAAGGTGGAGCT	0.619													6	5	---	---	---	---						.	A	17271731	A	A	17271730	7	5	202	1	0	1	1	0	0	0	0	0	17192	933	33	0	311	0	VIM	10	17271730	Frame_Shift_Ins	INS	-	TCGA-HJ-7597-01A-21D-2201-08	4228375	17271730	118263017	387	99275											
MLLT10	8028	broad.mit.edu	37	chr10	22002772	22002772	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gctcgggatctagtactcctGtctccagctctcacttacct	6	13	7	15	1	3	0	1	0	3	0	7	1	4	1	3	1	3	3	3	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:22002772G>A	uc001iqs.2	+	15	2167	c.1819G>A	c.(1819-1821)GTC>ATC	p.V607I	MLLT10_uc001iqt.2_Missense_Mutation_p.V591I|MLLT10_uc001iqv.2_RNA|MLLT10_uc001iqy.2_Missense_Mutation_p.V591I|MLLT10_uc001ira.2_Missense_Mutation_p.V48I|MLLT10_uc001irb.2_RNA	NM_004641	NP_004632	P55197	AF10_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	607	DNA-binding.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(1)|skin(1)	2						TAGTACTCCTGTCTCCAGCTC	0.443			T	MLL|PICALM|CDK6	AL								13	46					0	0	0.010504	0	0		A	22002772	A	A	22002772	3	1	202	1	0	0	0	0	1	0	0	0	9644	1377	48	4	1873	4	MLLT10	10	22002772	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4731042	22002772	113531975	388	99276											
FRMPD2	143162	broad.mit.edu	37	chr10	49440209	49440209	+	Missense_Mutation	SNP	A	T	T	1	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	ttcctcgaggttggcaaaggAtgtcacggcattgaagacag	11	9	13	8	2	1	2	1	1	0	1	3	4	2	3	1	4	0	3	1	4	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:49440209A>T	uc001jgi.2	-	10	1224	c.1117T>A	c.(1117-1119)TCC>ACC	p.S373T	FRMPD2_uc001jgh.2_Missense_Mutation_p.S342T|FRMPD2_uc001jgj.2_Missense_Mutation_p.S351T	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	373	FERM.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TTGGCAAAGGATGTCACGGCA	0.532													13	48					0	0	0.003163	0	0		T	49440209	T	T	49440209	3	4	202	1	0	0	0	0	1	0	0	0	6072	333	12	5	2892	5	FRMPD2	10	49440209	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	27437437	49440209	86094538	389	99277											
C10orf72	196740	broad.mit.edu	37	chr10	50315809	50315809	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcaggcgcagcctccgcCgtttggcgctgcggctgaaa	6	6	14	15	5	0	1	0	1	0	0	1	1	1	1	4	3	3	5	4	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:50315809C>T	uc001jhf.2	-	2	316	c.287G>A	c.(286-288)CGG>CAG	p.R96Q	C10orf72_uc001jhh.2_Missense_Mutation_p.R96Q	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	96	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						CAGCCTCCGCCGTTTGGCGCT	0.607													19	64					0	0	0.002299	0	0		T	50315809	T	T	50315809	3	4	202	1	0	0	0	0	1	0	0	0	1618	652	23	1	826	1	C10orf72	10	50315809	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	875600	50315809	85218938	390	99278											
DRGX	644168	broad.mit.edu	37	chr10	50574403	50574403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagtcccatggggtctgggaCgcagcaagagcacagtgggc	9	5	17	10	1	1	1	0	0	1	1	2	3	2	2	1	4	2	3	1	4	1	0	rs143541395	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:50574403C>T	uc010qgq.1	-	6	565	c.565G>A	c.(565-567)GTC>ATC	p.V189I		NM_001080520	NP_001073989	A6NNA5	DRGX_HUMAN	dorsal root ganglia homeobox	189					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGTCTGGGACGCAGCAAGAG	0.607													21	53					0	0	0.002299	0	0		T	50574403	T	T	50574403	3	4	202	1	0	0	0	0	1	0	0	0	4769	536	19	1	244	1	DRGX	10	50574403	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	258594	50574403	84960344	391	99279											
NCOA4	8031	broad.mit.edu	37	chr10	51584688	51584688	+	Missense_Mutation	SNP	A	G	G	1	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	gcttagaaaactggctcctcAagagtgaaaaatcaagttat	16	10	8	7	0	2	3	2	1	0	2	3	3	3	3	1	1	1	3	1	1	8	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:51584688A>G	uc001jis.3	+	8	990	c.787A>G	c.(787-789)AAG>GAG	p.K263E	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Missense_Mutation_p.K279E|NCOA4_uc010qhd.1_Missense_Mutation_p.K279E|NCOA4_uc010qhe.1_Missense_Mutation_p.K163E|NCOA4_uc010qhf.1_Missense_Mutation_p.K97E|NCOA4_uc001jit.2_Missense_Mutation_p.K263E|NCOA4_uc009xoo.2_Missense_Mutation_p.K263E	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	263					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						CTGGCTCCTCAAGAGTGAAAA	0.388			T	RET	papillary thyroid 								19	40					0	0	0.008871	0	0		G	51584688	G	G	51584688	3	3	202	1	0	0	0	0	1	0	0	0	10250	131	5	3	865	3	NCOA4	10	51584688	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1010285	51584688	83950059	392	99280											
FAM21A	387680	broad.mit.edu	37	chr10	51829407	51829407	+	Missense_Mutation	SNP	A	T	T	1	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	tcgggaaaccaaagccacagAttgtcgcctgcataatgtct	12	9	9	11	2	1	1	0	0	1	1	3	2	1	2	3	1	3	1	3	1	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:51829407A>T	uc001jjb.2	+	3	309	c.227A>T	c.(226-228)GAT>GTT	p.D76V	uc001jiz.1_5'Flank|FAM21A_uc001jja.1_5'UTR|FAM21A_uc010qhi.1_Missense_Mutation_p.D76V|FAM21A_uc010qhj.1_Missense_Mutation_p.D76V	NM_001005751	NP_001005751	Q641Q2	FA21A_HUMAN	hypothetical protein LOC387680	76					retrograde transport, endosome to Golgi	early endosome membrane|WASH complex				ovary(1)	1						AAAGCCACAGATTGTCGCCTG	0.383													22	67					0	0	0.008361	0	0		T	51829407	T	T	51829407	3	4	202	1	0	0	0	0	1	0	0	0	5551	333	12	5	237	5	FAM21A	10	51829407	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	244719	51829407	83705340	393	99281											
CTNNA3	29119	broad.mit.edu	37	chr10	68940148	68940148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attctgcgataatccgctctCggtgtaagtccctcgtacat	8	13	8	12	4	2	0	0	0	2	0	6	1	4	0	2	1	2	3	2	1	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:68940148C>T	uc009xpn.1	-	7	1097	c.974G>A	c.(973-975)CGA>CAA	p.R325Q	CTNNA3_uc001jmw.2_Missense_Mutation_p.R325Q|CTNNA3_uc001jmx.3_Missense_Mutation_p.R325Q|CTNNA3_uc009xpo.1_Missense_Mutation_p.R185Q|CTNNA3_uc001jna.2_Missense_Mutation_p.R337Q	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	325	Potential.				cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						AATCCGCTCTCGGTGTAAGTC	0.512													19	41					0	0	0.00333	0	0		T	68940148	T	T	68940148	3	4	202	1	0	0	0	0	1	0	0	0	4017	884	31	1	1761	1	CTNNA3	10	68940148	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	17110741	68940148	66594599	394	99282											
PSAP	5660	broad.mit.edu	37	chr10	73581689	73581689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attcttggaggccactttggCggggaccagagtctgcatgg	7	10	15	9	1	2	1	0	0	2	1	2	3	2	3	2	6	1	1	2	6	0	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:73581689C>T	uc001jsm.2	-	8	957	c.853G>A	c.(853-855)GCC>ACC	p.A285T	PSAP_uc001jsl.2_Missense_Mutation_p.A9T	NM_002778	NP_002769	P07602	SAP_HUMAN	prosaposin isoform a preproprotein	285					glycosphingolipid metabolic process|lipid transport|platelet activation|platelet degranulation	extracellular space|Golgi apparatus|integral to membrane|lysosomal lumen	enzyme activator activity|lipid binding			ovary(1)	1						GCCACTTTGGCGGGGACCAGA	0.542													16	22					0	0	0.00499	0	0		T	73581689	T	T	73581689	3	4	202	1	0	0	0	0	1	0	0	0	12665	768	27	1	749	1	PSAP	10	73581689	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4641541	73581689	61953058	395	99283											
EIF5AL1	143244	broad.mit.edu	37	chr10	81272626	81272626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaatatgaagatatctgccCgtcaactcataatatggatg	15	11	8	7	1	3	2	2	1	1	1	3	4	3	3	1	1	2	0	1	1	7	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:81272626C>T	uc009xrx.2	+	1	270	c.221C>T	c.(220-222)CCG>CTG	p.P74L	uc010qls.1_5'Flank	NM_001099692	NP_001093162	Q6IS14	IF5AL_HUMAN	eukaryotic translation initiation factor 5A-like	74					mRNA transport|peptidyl-lysine modification to hypusine|positive regulation of translational elongation|positive regulation of translational termination|protein transport|translational frameshifting|transmembrane transport	endoplasmic reticulum membrane|nuclear pore	ribosome binding|translation elongation factor activity				0	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)			GATATCTGCCCGTCAACTCAT	0.498													6	20					0	0	0.000978	0	0		T	81272626	T	T	81272626	3	4	202	1	0	0	0	0	1	0	0	0	5051	652	23	1	223	1	EIF5AL1	10	81272626	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7690937	81272626	54262121	396	99284											
ANXA11	311	broad.mit.edu	37	chr10	81915622	81915622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcactgttcagtcattgccaCcacagatcttcagcagaatc	11	11	6	13	0	5	2	4	0	1	2	6	2	5	2	2	0	2	2	2	0	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:81915622C>T	uc001kbq.1	-	17	2330	c.1505G>A	c.(1504-1506)GGT>GAT	p.G502D	ANXA11_uc010qlx.1_Missense_Mutation_p.G602D|ANXA11_uc001kbr.1_Missense_Mutation_p.G502D|ANXA11_uc001kbs.1_Missense_Mutation_p.G502D|ANXA11_uc001kbt.1_Missense_Mutation_p.G502D|ANXA11_uc010qly.1_Missense_Mutation_p.G469D|ANXA11_uc009xsq.1_Missense_Mutation_p.G506D|ANXA11_uc001kbu.1_Missense_Mutation_p.G502D	NM_145869	NP_665876	P50995	ANX11_HUMAN	annexin A11	502					cell cycle|cytokinesis, completion of separation|phagocytosis|response to calcium ion	azurophil granule|melanosome|midbody|nuclear envelope|nucleoplasm|phagocytic vesicle|specific granule|spindle	calcium-dependent phospholipid binding|calcium-dependent protein binding|S100 alpha binding			ovary(1)	1	Prostate(51;0.00985)|all_epithelial(25;0.0951)		Colorectal(32;0.109)			GTCATTGCCACCACAGATCTT	0.507													45	165					0	0	0.00361	0	0		T	81915622	T	T	81915622	3	4	202	1	0	0	0	0	1	0	0	0	716	507	18	4	16	4	ANXA11	10	81915622	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	642996	81915622	53619125	397	99285											
IDE	3416	broad.mit.edu	37	chr10	94297296	94297296	+	Frame_Shift_Del	DEL	T	-	-																															tattcattttgctgtaagtcTttttttggaaactgaaaaga																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:94297296delT	uc001kia.2	-	2	186	c.110delA	c.(109-111)AAGfs	p.K37fs		NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	37					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GCTGTAAGTCTTTTTTTGGAA	0.343													8	10	---	---	---	---						.	-	94297296	-	-	94297296	7	5	202	1	0	1	0	1	0	0	0	0	7509	1609	56	0	3045	0	IDE	10	94297296	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08	12381674	94297296	41237451	398	99286											
C10orf28	27291	broad.mit.edu	37	chr10	99968718	99968718	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttgatcaaacttgcgtaGattttgaagttgagagtgta	11	16	10	4	1	2	4	1	3	1	2	2	5	2	4	0	0	2	3	0	0	4	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:99968718G>T	uc001kow.3	+	4	1142	c.847G>T	c.(847-849)GAT>TAT	p.D283Y	C10orf28_uc001kox.3_Missense_Mutation_p.D283Y|C10orf28_uc001koy.3_Missense_Mutation_p.D283Y|C10orf28_uc009xvx.2_Missense_Mutation_p.D283Y|C10orf28_uc009xvy.2_Intron|C10orf28_uc001koz.3_Intron	NM_014472	NP_055287	Q4KMY3	Q4KMY3_HUMAN	growth inhibition and differentiation related	283							nucleotide binding			large_intestine(1)|skin(1)	2		Colorectal(252;0.234)		Epithelial(162;7.18e-11)|all cancers(201;8.75e-09)		AACTTGCGTAGATTTTGAAGT	0.423													6	41					3.59834e-05	3.73827e-05	0.001168	1	0		T	99968718	T	T	99968718	3	4	202	1	0	0	0	0	1	0	0	0	1604	942	33	5	849	5	C10orf28	10	99968718	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5671422	99968718	35566029	399	99287											
LOXL4	84171	broad.mit.edu	37	chr10	100016575	100016575	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaacccaggccgagctgtcGgcaggccaccatggcttcgg	9	5	13	14	3	0	0	0	0	0	0	2	1	0	0	4	5	2	3	4	5	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:100016575G>A	uc001kpa.1	-	9	1541	c.1390C>T	c.(1390-1392)CGA>TGA	p.R464*		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	464	SRCR 4.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		CCGAGCTGTCGGCAGGCCACC	0.602													24	42					0	0	0.007291	0	0		A	100016575	A	A	100016575	4	1	202	1	0	0	0	0	0	1	0	0	8920	1124	39	1	908	1	LOXL4	10	100016575	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	47857	100016575	35518172	400	99288											
DNMBP	23268	broad.mit.edu	37	chr10	101728961	101728961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcttttagactgggaatgGtcacaatttccacaaaactg	12	12	7	10	0	2	1	1	0	1	1	3	2	3	2	2	2	1	0	2	2	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:101728961G>A	uc001kqj.2	-	3	271	c.179C>T	c.(178-180)ACC>ATC	p.T60I		NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	60	SH3 1.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		ACTGGGAATGGTCACAATTTC	0.408													4	41					0	0	0.009096	0	0		A	101728961	A	A	101728961	3	1	202	1	0	0	0	0	1	0	0	0	4680	1261	44	4	4614	4	DNMBP	10	101728961	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1712386	101728961	33805786	401	99289											
PKD2L1	9033	broad.mit.edu	37	chr10	102048787	102048787	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcacagctggggctggctgCgggtgcttccaaatagcttg	6	10	15	10	1	1	0	1	0	0	0	2	0	2	0	1	4	4	5	1	4	2	3	rs140831551		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:102048787C>A	uc001kqx.1	-	15	2660	c.2277G>T	c.(2275-2277)CCG>CCT	p.P759P	BLOC1S2_uc001kqv.1_5'Flank|BLOC1S2_uc001kqw.1_5'Flank|PKD2L1_uc009xwm.1_Silent_p.P712P	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	759	Cytoplasmic (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		GGGCTGGCTGCGGGTGCTTCC	0.517													12	32					2.31682e-05	2.41497e-05	0.003163	1	0		A	102048787	A	A	102048787	2	1	202	1	0	0	0	0	0	0	0	1	11986	755	27	5		5	PKD2L1	10	102048787	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	319826	102048787	33485960	402	99290											
SEMA4G	57715	broad.mit.edu	37	chr10	102732747	102732747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaccctcactgcggagaccGtctagagaactagatgccac	11	6	11	13	2	2	3	1	0	1	3	2	6	2	4	3	2	3	0	3	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:102732747G>A	uc010qpt.1	+	2	521	c.78G>A	c.(76-78)CCG>CCA	p.P26P	SEMA4G_uc001krv.2_RNA|SEMA4G_uc001krw.1_Silent_p.P26P|SEMA4G_uc001krx.2_Silent_p.P26P|MIR608_hsa-mir-608|MI0003621_5'Flank	NM_017893	NP_060363	Q9NTN9	SEM4G_HUMAN	semaphorin 4G	26	Extracellular (Potential).				cell differentiation|nervous system development	integral to membrane	receptor activity			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3.71e-09)|all cancers(201;2.1e-07)		TGCGGAGACCGTCTAGAGAAC	0.607													21	58					0	0	0.002299	0	0		A	102732747	A	A	102732747	2	1	202	1	0	0	0	0	0	0	0	1	14061	1132	40	1		1	SEMA4G	10	102732747	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	683960	102732747	32802000	403	99291											
LZTS2	84445	broad.mit.edu	37	chr10	102762318	102762318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccattgtgcagactctgcCagtgccactggagcctgctc	6	9	12	14	0	1	1	0	0	1	1	2	2	1	2	4	2	5	2	4	2	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:102762318C>T	uc001ksj.2	+	2	92	c.23C>T	c.(22-24)CCA>CTA	p.P8L	LZTS2_uc010qpw.1_Missense_Mutation_p.P8L|LZTS2_uc001ksk.2_Missense_Mutation_p.P8L|LZTS2_uc001ksl.2_Missense_Mutation_p.P8L|LZTS2_uc001ksm.2_RNA	NM_032429	NP_115805	Q9BRK4	LZTS2_HUMAN	leucine zipper, putative tumor suppressor 2	8	Required for centrosomal localization (By similarity).				cell division|mitosis|Wnt receptor signaling pathway	membrane|microtubule|microtubule organizing center				ovary(2)|large_intestine(1)|breast(1)	4				Epithelial(162;7.3e-09)|all cancers(201;3.72e-07)		CAGACTCTGCCAGTGCCACTG	0.657													18	47					0	0	0.007413	0	0		T	102762318	T	T	102762318	3	4	202	1	0	0	0	0	1	0	0	0	9157	594	21	4	25	4	LZTS2	10	102762318	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	29571	102762318	32772429	404	99292											
FBXW4	6468	broad.mit.edu	37	chr10	103436163	103436163	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctccagttctgagacaccttCactcgttccttcactgggac	7	12	7	15	1	3	1	2	1	1	1	6	3	5	2	3	1	0	2	3	1	0	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:103436163C>T	uc001kto.2	-	2	637	c.291G>A	c.(289-291)GTG>GTA	p.V97V		NM_022039	NP_071322	P57775	FBXW4_HUMAN	F-box and WD repeat domain containing 4	97					ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	ubiquitin ligase complex				skin(1)	1		Colorectal(252;0.123)		Epithelial(162;4.35e-08)|all cancers(201;1.92e-06)		GAGACACCTTCACTCGTTCCT	0.478													52	121					0	0	0.00361	0	0		T	103436163	T	T	103436163	2	4	202	1	0	0	0	0	0	0	0	1	5781	813	29	4		4	FBXW4	10	103436163	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	673845	103436163	32098584	405	99293											
ELOVL3	83401	broad.mit.edu	37	chr10	103987432	103987432	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acctggttctcatcgctgtgGggcagaactacatgaaggaa	11	9	12	9	1	1	2	1	1	1	1	3	3	1	3	1	4	2	3	1	4	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:103987432G>T	uc001kut.2	+	2	314	c.151G>T	c.(151-153)GGG>TGG	p.G51W		NM_152310	NP_689523	Q9HB03	ELOV3_HUMAN	elongation of very long chain fatty acids like	51					fatty acid elongation, monounsaturated fatty acid|fatty acid elongation, polyunsaturated fatty acid|fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding			ovary(2)	2		Colorectal(252;0.207)		Epithelial(162;4.47e-08)|all cancers(201;7.96e-07)		CATCGCTGTGGGGCAGAACTA	0.557													26	73					1.12875e-08	1.19387e-08	0.00632	1	0		T	103987432	T	T	103987432	3	4	202	1	0	0	0	0	1	0	0	0	5083	1232	43	5	157	5	ELOVL3	10	103987432	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	551269	103987432	31547315	406	99294											
PSD	5662	broad.mit.edu	37	chr10	104176728	104176728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggccttcggggagccagcggCgtgggcatcgtggtggggag	4	6	22	9	4	0	0	0	0	0	0	2	2	0	2	2	8	2	1	2	8	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:104176728C>T	uc001kvg.1	-	2	595	c.68G>A	c.(67-69)CGC>CAC	p.R23H	PSD_uc001kvh.1_Intron|PSD_uc009xxd.1_Missense_Mutation_p.R23H|PSD_uc001kvi.1_Missense_Mutation_p.R23H|FBXL15_uc001kvj.1_5'Flank|FBXL15_uc001kvk.2_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	23	Pro-rich.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GAGCCAGCGGCGTGGGCATCG	0.711													8	17					0	0	0.004482	0	0		T	104176728	T	T	104176728	3	4	202	1	0	0	0	0	1	0	0	0	12668	768	27	1	3070	1	PSD	10	104176728	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	189296	104176728	31358019	407	99295											
INA	9118	broad.mit.edu	37	chr10	105046856	105046856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagatggcacgccaccttcGggaataccaggacttgctca	10	8	11	12	2	1	1	1	1	0	1	2	4	1	3	3	3	2	2	3	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:105046856G>A	uc001kws.2	+	2	1179	c.1130G>A	c.(1129-1131)CGG>CAG	p.R377Q		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	377	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		CGCCACCTTCGGGAATACCAG	0.463													3	22					0	0	0.004672	0	0		A	105046856	A	A	105046856	3	1	202	1	0	0	0	0	1	0	0	0	7746	1116	39	1	1136	1	INA	10	105046856	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	870128	105046856	30487891	408	99296											
PDCD11	22984	broad.mit.edu	37	chr10	105201638	105201638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcagctgtcttcaggcttcgCttggaatgtgggactagact	7	12	13	9	1	2	1	1	0	1	1	3	3	2	3	0	3	1	4	0	3	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:105201638C>T	uc001kwy.1	+	31	4700	c.4613C>T	c.(4612-4614)GCT>GTT	p.A1538V		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1538					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TCAGGCTTCGCTTGGAATGTG	0.597													7	26					0	0	0.004482	0	0		T	105201638	T	T	105201638	3	4	202	1	0	0	0	0	1	0	0	0	11636	797	28	2	4731	2	PDCD11	10	105201638	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	154782	105201638	30333109	409	99297											
CALHM2	51063	broad.mit.edu	37	chr10	105209489	105209489	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgttgaggatgatgccaatGatgaagagcaccagggcggg	11	8	16	6	1	0	5	0	4	0	1	0	6	0	6	2	3	2	2	2	3	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:105209489G>A	uc001kwz.2	-	2	596	c.210C>T	c.(208-210)ATC>ATT	p.I70I	CALHM2_uc001kxa.2_Silent_p.I70I|CALHM2_uc001kxc.2_Silent_p.I70I|CALHM2_uc001kxb.2_Silent_p.I70I|CALHM2_uc001kxd.1_Silent_p.I70I	NM_015916	NP_057000	Q9HA72	CAHM2_HUMAN	calcium homeostasis modulator 2	70	Helical; (Potential).					integral to membrane				skin(1)	1						TGATGCCAATGATGAAGAGCA	0.642													6	78					0	0	0.001168	0	0		A	105209489	A	A	105209489	2	1	202	1	0	0	0	0	0	0	0	1	2586	1280	45	4		4	CALHM2	10	105209489	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7851	105209489	30325258	410	99298											
KIAA1598	57698	broad.mit.edu	37	chr10	118674916	118674916	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtctggctgtctgattaacGggtctaagatgaactccctt	8	13	11	9	1	3	3	0	2	3	1	4	3	4	3	1	3	2	1	1	3	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:118674916G>A	uc009xyw.2	-	13	1773	c.1275C>T	c.(1273-1275)CCC>CCT	p.P425P	KIAA1598_uc001lcz.3_Silent_p.P425P|KIAA1598_uc010qso.1_Silent_p.P365P|KIAA1598_uc010qsp.1_Silent_p.P425P|KIAA1598_uc010qsq.1_Silent_p.P365P|KIAA1598_uc001lcy.3_Silent_p.P395P	NM_001127211	NP_001120683	A0MZ66	SHOT1_HUMAN	shootin1 isoform a	425					axon guidance	axon					0				all cancers(201;0.00494)		TCTGATTAACGGGTCTAAGAT	0.363													16	58					0	0	0.004007	0	0		A	118674916	A	A	118674916	2	1	202	1	0	0	0	0	0	0	0	1	8262	1103	39	1		1	KIAA1598	10	118674916	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	13465427	118674916	16859831	411	99299											
C10orf46	143384	broad.mit.edu	37	chr10	120460914	120460914	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagcttggtttcgatgtaaaActtattctgaaaaataaaat	17	14	6	4	1	1	1	0	1	1	0	2	2	1	1	0	1	2	3	0	1	8	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:120460914A>G	uc001lds.1	-	5	1184	c.700T>C	c.(700-702)TTT>CTT	p.F234L	C10orf46_uc010qst.1_RNA	NM_153810	NP_722517	Q86Y37	CJ046_HUMAN	chromosome 10 open reading frame 46	234					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex	ubiquitin protein ligase binding				0		Lung NSC(174;0.142)|all_lung(145;0.175)		all cancers(201;0.0131)		TCGATGTAAAACTTATTCTGA	0.299													4	9					0	0	0.009096	0	0		G	120460914	G	G	120460914	3	3	202	1	0	0	0	0	1	0	0	0	1607	43	2	3	429	3	C10orf46	10	120460914	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1785998	120460914	15073833	412	99300											
WDR11	55717	broad.mit.edu	37	chr10	122661812	122661812	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccagaattcactctcttgCagaggtgcctgcttgtttca	8	14	8	11	0	3	2	2	0	1	2	5	2	4	2	2	1	3	3	2	1	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:122661812C>T	uc010qtf.1	+	22	2969	c.2731C>T	c.(2731-2733)CAG>TAG	p.Q911*	WDR11_uc010qte.1_Nonsense_Mutation_p.Q513*|WDR11_uc001lfd.1_Nonsense_Mutation_p.Q429*|WDR11_uc009xzn.2_Nonsense_Mutation_p.Q202*	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	911	WD 9.					integral to membrane					0						CACTCTCTTGCAGAGGTGCCT	0.343													3	21					0	0	0.009096	0	0		T	122661812	T	T	122661812	4	4	202	1	0	0	0	0	0	1	0	0	17299	711	25	2	2817	2	WDR11	10	122661812	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2200898	122661812	12872935	413	99301											
ZRANB1	54764	broad.mit.edu	37	chr10	126631810	126631810	+	Frame_Shift_Del	DEL	A	-	-																															aggaacttgaagtagactttAaaaaactaaagcaaattaaa																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:126631810delA	uc001lic.2	+	1	1119	c.748delA	c.(748-750)AAAfs	p.K250fs	ZRANB1_uc010qug.1_Frame_Shift_Del_p.K276fs	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	250					positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		AGTAGACTTTAAAAAACTAAA	0.413													11	23	---	---	---	---						.	-	126631810	-	-	126631810	7	5	202	1	0	1	0	1	0	0	0	0	18247	363	13	0	750	0	ZRANB1	10	126631810	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	3969998	126631810	8902937	414	99302											
ADAM12	8038	broad.mit.edu	37	chr10	127753389	127753389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtacctggtccccagagcGtgacacactgctgctcgtga	8	8	11	14	3	0	3	0	2	0	1	2	3	1	3	3	1	4	3	3	1	1	1	rs149776150		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:127753389G>A	uc001ljk.2	-	14	2017	c.1604C>T	c.(1603-1605)ACG>ATG	p.T535M	ADAM12_uc010qul.1_Missense_Mutation_p.T486M|ADAM12_uc001ljm.2_Missense_Mutation_p.T535M|ADAM12_uc001ljn.2_Missense_Mutation_p.T532M|ADAM12_uc001ljl.3_Missense_Mutation_p.T532M	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	535	Extracellular (Potential).|Cys-rich.				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		TCCCCAGAGCGTGACACACTG	0.602													3	30					0	0	0.009096	0	0		A	127753389	A	A	127753389	3	1	202	1	0	0	0	0	1	0	0	0	236	1145	40	1	1273	1	ADAM12	10	127753389	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1121579	127753389	7781358	415	99303											
PTPRE	5791	broad.mit.edu	37	chr10	129881102	129881102	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttgtcttttcaggaacagTatgaattctgctacaaagtg	11	15	9	6	0	3	1	1	1	2	0	3	2	3	2	0	1	3	3	0	1	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:129881102T>C	uc001lkb.2	+	21	2314	c.2035T>C	c.(2035-2037)TAT>CAT	p.Y679H	PTPRE_uc009yat.2_Missense_Mutation_p.Y690H|PTPRE_uc009yau.2_Missense_Mutation_p.Y679H|PTPRE_uc001lkd.2_Missense_Mutation_p.Y621H|PTPRE_uc010quq.1_Silent_p.S534S	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	679	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				TCAGGAACAGTATGAATTCTG	0.254													5	15					0	0	0.001984	0	0		C	129881102	C	C	129881102	3	2	202	1	0	0	0	0	1	0	0	0	12825	1638	57	3	2148	3	PTPRE	10	129881102	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	2127713	129881102	5653645	416	99304											
MKI67	4288	broad.mit.edu	37	chr10	129899944	129899944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcagtcttattttggcGtctggagcgcagggatattc	6	14	12	9	2	3	0	1	0	2	0	4	2	3	2	1	3	2	1	1	3	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr10:129899944G>A	uc001lke.2	-	14	9478	c.9283C>T	c.(9283-9285)CGC>TGC	p.R3095C	MKI67_uc001lkf.2_Missense_Mutation_p.R2735C	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	3095					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				TTATTTTGGCGTCTGGAGCGC	0.368													6	14					0	0	0.00308	0	0		A	129899944	A	A	129899944	3	1	202	1	0	0	0	0	1	0	0	0	9616	1145	40	1	495	1	MKI67	10	129899944	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	18842	129899944	5634803	417	99305											
MUC2	4583	broad.mit.edu	37	chr11	1085825	1085825	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtggcactacgggcgtcaccTgctccaaggccatcaagatc	9	7	11	14	2	2	1	2	0	0	1	4	1	3	1	3	3	2	2	3	3	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:1085825T>C	uc001lsx.1	+	21	2773	c.2746T>C	c.(2746-2748)TGC>CGC	p.C916R		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	916	VWFD 3.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GGGCGTCACCTGCTCCAAGGC	0.642													13	85					0	0	0.004007	0	0		C	1085825	C	C	1085825	3	2	202	1	0	0	0	0	1	0	0	0	9993	1580	55	3	2828	3	MUC2	11	1085825	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08		1085825	133920691	418	99306											
OR51E1	143503	broad.mit.edu	37	chr11	4674184	4674184	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagtacttacgttgcctcGtgtcaccaaaattggtgtgg	9	12	10	10	2	1	0	1	0	0	0	2	0	1	0	2	2	3	2	2	2	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:4674184G>A	uc001lzi.3	+	2	572	c.428G>A	c.(427-429)CGT>CAT	p.R143H		NM_152430	NP_689643	Q8TCB6	O51E1_HUMAN	olfactory receptor, family 51, subfamily E,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(3)|pancreas(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;7.37e-14)|GBM - Glioblastoma multiforme(2;2.85e-05)|BRCA - Breast invasive adenocarcinoma(625;0.00222)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACGTTGCCTCGTGTCACCAAA	0.567													6	74					0	0	0.001168	0	0		A	4674184	A	A	4674184	3	1	202	1	0	0	0	0	1	0	0	0	11113	1145	40	1	430	1	OR51E1	11	4674184	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3588359	4674184	130332332	419	99307											
OR51B2	79345	broad.mit.edu	37	chr11	5345106	5345106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaacactcccactcctaacGctatgactctagtattggtg	11	11	7	12	1	1	1	0	1	1	0	3	2	3	1	2	1	2	2	2	1	5	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:5345106G>A	uc001mao.1	-	1	477	c.422C>T	c.(421-423)GCG>GTG	p.A141V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACTCCTAACGCTATGACTCT	0.413													46	17					0	0	0.00361	0	0		A	5345106	A	A	5345106	3	1	202	1	0	0	0	0	1	0	0	0	11108	1087	38	1	520	1	OR51B2	11	5345106	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	670922	5345106	129661410	420	99308											
DCHS1	8642	broad.mit.edu	37	chr11	6662451	6662451	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcgttgatgtcagccactcGcactgtaacttctacggtgg	7	12	11	11	3	2	1	1	1	1	0	4	1	2	1	1	2	3	3	1	2	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:6662451G>A	uc001mem.1	-	2	804	c.394C>T	c.(394-396)CGA>TGA	p.R132*		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	132	Cadherin 1.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCAGCCACTCGCACTGTAACT	0.612													21	15					0	0	0.002299	0	0		A	6662451	A	A	6662451	4	1	202	1	0	0	0	0	0	1	0	0	4290	1095	38	1	9582	1	DCHS1	11	6662451	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1317345	6662451	128344065	421	99309											
SBF2	81846	broad.mit.edu	37	chr11	9861197	9861197	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttccattgtagacttctcGgaggccttcagggtggtact	6	14	12	9	1	2	1	1	0	1	1	4	2	3	2	2	4	1	3	2	4	2	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:9861197G>A	uc001mib.2	-	26	3441	c.3303C>T	c.(3301-3303)TCC>TCT	p.S1101S	SBF2_uc001mif.3_Silent_p.S857S|uc001mig.2_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1101					myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TAGACTTCTCGGAGGCCTTCA	0.453													35	21					0	0	0.005524	0	0		A	9861197	A	A	9861197	2	1	202	1	0	0	0	0	0	0	0	1	13884	1103	39	1		1	SBF2	11	9861197	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3198746	9861197	125145319	422	99310											
BTBD10	84280	broad.mit.edu	37	chr11	13435172	13435172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagatatgccatcaggacaaCggattattcctgttttatag	12	14	8	7	1	1	1	1	0	0	1	2	3	2	3	2	2	2	1	2	2	6	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:13435172C>T	uc001mkz.2	-	6	970	c.713G>A	c.(712-714)CGT>CAT	p.R238H	BTBD10_uc010rcl.1_Missense_Mutation_p.R246H|BTBD10_uc001mla.2_Missense_Mutation_p.R222H|BTBD10_uc009ygn.2_RNA|BTBD10_uc010rcm.1_Missense_Mutation_p.R190H|BTBD10_uc010rcn.1_Missense_Mutation_p.R207H|BTBD10_uc009ygo.2_Missense_Mutation_p.R190H	NM_032320	NP_115696	Q9BSF8	BTBDA_HUMAN	K+ channel tetramerization protein	238	BTB.					nucleus					0				Epithelial(150;0.0214)		ATCAGGACAACGGATTATTCC	0.338													13	9					0	0	0.004007	0	0		T	13435172	T	T	13435172	3	4	202	1	0	0	0	0	1	0	0	0	1541	536	19	1	730	1	BTBD10	11	13435172	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3573975	13435172	121571344	423	99311											
NAV2	89797	broad.mit.edu	37	chr11	19735450	19735450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggggctgcaggagccagCgggggaggggctcccgctgc	5	3	21	12	2	0	0	0	0	0	0	1	2	1	2	2	7	4	5	2	7	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:19735450C>T	uc010rdm.1	+	1	570	c.209C>T	c.(208-210)GCG>GTG	p.A70V	NAV2_uc001mpp.2_Intron|NAV2_uc001mpr.3_Missense_Mutation_p.A70V|LOC100126784_uc010rdl.1_3'UTR	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	70						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						CAGGAGCCAGCGGGGGAGGGG	0.617													6	46					0	0	0.001168	0	0		T	19735450	T	T	19735450	3	4	202	1	0	0	0	0	1	0	0	0	10202	768	27	1	290	1	NAV2	11	19735450	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6300278	19735450	115271066	424	99312											
GAS2	2620	broad.mit.edu	37	chr11	22707287	22707287	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgtcaacttgcagaaacTatgcaggagaaattcaagga	15	9	9	8	0	3	2	2	0	1	2	3	4	3	3	0	2	4	2	0	2	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:22707287T>C	uc009yie.2	+	3	525	c.219T>C	c.(217-219)ACT>ACC	p.T73T	GAS2_uc001mqm.2_Silent_p.T73T|GAS2_uc001mqn.2_RNA|GAS2_uc001mqo.2_Silent_p.T73T	NM_001143830	NP_001137302	O43903	GAS2_HUMAN	growth arrest-specific 2	73	CH.				cell cycle arrest|cellular component disassembly involved in apoptosis|regulation of cell shape	actin filament|cytosol|membrane				ovary(1)|skin(1)	2						TTGCAGAAACTATGCAGGAGA	0.378													5	26					0	0	0.000602	0	0		C	22707287	C	C	22707287	2	2	202	1	0	0	0	0	0	0	0	1	6260	1509	53	3		3	GAS2	11	22707287	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	2971837	22707287	112299229	425	99313											
MADD	8567	broad.mit.edu	37	chr11	47303960	47303960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtacggttcttcaattccGccaacgtgctgcagggattt	7	13	11	10	3	2	0	1	0	1	0	3	1	3	1	2	3	4	4	2	3	3	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:47303960G>A	uc001ner.1	+	9	1689	c.1498G>A	c.(1498-1500)GCC>ACC	p.A500T	MADD_uc001neq.2_Missense_Mutation_p.A500T|MADD_uc001nev.1_Missense_Mutation_p.A500T|MADD_uc001nes.1_Missense_Mutation_p.A500T|MADD_uc001net.1_Missense_Mutation_p.A500T|MADD_uc009yln.1_Missense_Mutation_p.A500T|MADD_uc001neu.1_Missense_Mutation_p.A500T|MADD_uc001nex.2_Missense_Mutation_p.A500T|MADD_uc001nez.2_Missense_Mutation_p.A500T|MADD_uc001new.2_Missense_Mutation_p.A500T	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	500	dDENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CTTCAATTCCGCCAACGTGCT	0.522													20	37					0	0	0.003954	0	0		A	47303960	A	A	47303960	3	1	202	1	0	0	0	0	1	0	0	0	9170	1087	38	1	1528	1	MADD	11	47303960	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	24596673	47303960	87702556	426	99314											
OR5M9	390162	broad.mit.edu	37	chr11	56230191	56230191	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgccttcctcctgccatcGgcagagcgcatgcgtagcac	8	7	10	16	4	0	1	0	0	0	1	3	1	2	1	4	1	5	4	4	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:56230191G>A	uc010rjj.1	-	1	687	c.687C>T	c.(685-687)GCC>GCT	p.A229A		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					TCCTGCCATCGGCAGAGCGCA	0.502													5	3					0	0	0.001984	0	0		A	56230191	A	A	56230191	2	1	202	1	0	0	0	0	0	0	0	1	11196	1103	39	1		1	OR5M9	11	56230191	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8926231	56230191	78776325	427	99315											
OR9G4	283189	broad.mit.edu	37	chr11	56511005	56511005	+	Missense_Mutation	SNP	T	G	G	0	1	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	gacacaactggccaggatttTgggggtatacacagaggtat	12	9	13	7	0	0	1	0	0	0	1	0	3	0	2	1	5	2	2	1	5	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:56511005T>G	uc010rjo.1	-	1	283	c.283A>C	c.(283-285)AAA>CAA	p.K95Q		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GCCAGGATTTTGGGGGTATAC	0.428													4	65					0	0	0.001168	0	0		G	56511005	G	G	56511005	3	3	202	1	0	0	0	0	1	0	0	0	11270	1821	63	5	703	5	OR9G4	11	56511005	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	280814	56511005	78495511	428	99316											
OR5A1	219982	broad.mit.edu	37	chr11	59211321	59211321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctatggttacatagtgtctgCggtcctgaagatcccttcag	8	13	10	10	1	2	2	1	1	1	1	4	2	4	2	2	2	2	1	2	2	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:59211321C>T	uc001nnx.1	+	1	680	c.680C>T	c.(679-681)GCG>GTG	p.A227V		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						ATAGTGTCTGCGGTCCTGAAG	0.532													20	61					0	0	0.001882	0	0		T	59211321	T	T	59211321	3	4	202	1	0	0	0	0	1	0	0	0	11158	768	27	1	682	1	OR5A1	11	59211321	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2700316	59211321	75795195	429	99317											
AHNAK	79026	broad.mit.edu	37	chr11	62298947	62298947	+	Missense_Mutation	SNP	T	C	C	0	1	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	caacatctggggcactgacaTctacttttgggcctttcagg	8	12	10	11	0	3	1	1	1	2	0	3	1	3	1	1	4	2	1	1	4	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:62298947T>C	uc001ntl.2	-	5	3242	c.2942A>G	c.(2941-2943)GAT>GGT	p.D981G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	981					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGCACTGACATCTACTTTTGG	0.458													4	82					0	0	0.000602	0	0		C	62298947	C	C	62298947	3	2	202	1	0	0	0	0	1	0	0	0	414	1435	50	3	14850	3	AHNAK	11	62298947	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	3087626	62298947	72707569	430	99318											
SLC22A8	9376	broad.mit.edu	37	chr11	62760982	62760982	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcactgcccccgaggagggcGgtgatcccgtagatgatatt	8	8	14	11	3	0	3	0	2	0	1	1	5	1	4	3	3	1	2	3	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:62760982G>A	uc001nwo.2	-	10	1579	c.1443C>T	c.(1441-1443)ACC>ACT	p.T481T	SLC22A8_uc001nwn.1_3'UTR|SLC22A8_uc001nwp.2_Silent_p.T481T|SLC22A8_uc009yom.2_Silent_p.T358T|SLC22A8_uc010rmm.1_Silent_p.T390T|SLC22A8_uc009yon.2_Silent_p.T481T	NM_004254	NP_004245	Q8TCC7	S22A8_HUMAN	solute carrier family 22 member 8	481	Helical; (Potential).				response to toxin	basolateral plasma membrane|integral to plasma membrane|membrane fraction	inorganic anion exchanger activity|organic anion transmembrane transporter activity			skin(2)|ovary(1)	3						CGAGGAGGGCGGTGATCCCGT	0.577													47	60					0	0	0.00361	0	0		A	62760982	A	A	62760982	2	1	202	1	0	0	0	0	0	0	0	1	14485	1103	39	1		1	SLC22A8	11	62760982	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	462035	62760982	72245534	431	99319											
KCNK4	50801	broad.mit.edu	37	chr11	64066960	64066960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgtccagcgcagccgctggGcaggccccgatccccttcgc	4	6	12	19	4	0	0	0	0	0	0	3	1	2	0	6	2	2	3	6	2	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:64066960G>A	uc001nzj.1	+	7	1267	c.944G>A	c.(943-945)GGC>GAC	p.G315D	KCNK4_uc001nzk.1_Silent_p.G199G|KCNK4_uc010rnk.1_Missense_Mutation_p.G143D|KCNK4_uc001nzl.1_Silent_p.G199G|KCNK4_uc001nzm.3_RNA|KCNK4_uc001nzn.1_Missense_Mutation_p.G315D|KCNK4_uc001nzo.2_Missense_Mutation_p.G315D|KCNK4_uc001nzp.1_Missense_Mutation_p.G201D|C11orf20_uc009ypm.2_5'Flank	NM_033310	NP_201567	Q9NYG8	KCNK4_HUMAN	TRAAK	315	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0						CAGCCGCTGGGCAGGCCCCGA	0.617													5	13					0	0	0.001168	0	0		A	64066960	A	A	64066960	3	1	202	1	0	0	0	0	1	0	0	0	8084	1203	42	2	966	2	KCNK4	11	64066960	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1305978	64066960	70939556	432	99320											
MRPL49	740	broad.mit.edu	37	chr11	64893016	64893016	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggatgcacaacatccccGtctacaaggacatcacgcat	12	7	7	15	3	2	0	1	0	1	0	4	2	3	2	2	2	3	2	2	2	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:64893016G>A	uc001oda.1	+	3	377	c.286G>A	c.(286-288)GTC>ATC	p.V96I	MRPL49_uc001ocz.1_RNA	NM_004927	NP_004918	Q13405	RM49_HUMAN	mitochondrial ribosomal protein L49	96					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome				0						CAACATCCCCGTCTACAAGGA	0.557													45	45					0	0	0.00361	0	0		A	64893016	A	A	64893016	3	1	202	1	0	0	0	0	1	0	0	0	9831	1145	40	1	296	1	MRPL49	11	64893016	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	826056	64893016	70113500	433	99321											
EHBP1L1	254102	broad.mit.edu	37	chr11	65347416	65347416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcccaggacccccacGtggaccagtatgaggccaaa	10	7	9	15	1	1	1	0	1	1	0	2	3	2	3	5	3	0	1	5	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:65347416G>A	uc001oeo.3	+	4	533	c.268G>A	c.(268-270)GTG>ATG	p.V90M	EHBP1L1_uc001oep.1_5'Flank	NM_001099409	NP_001092879	Q8N3D4	EH1L1_HUMAN	tangerin	90										central_nervous_system(1)	1						GGACCCCCACGTGGACCAGTA	0.552													31	39					0	0	0.004289	0	0		A	65347416	A	A	65347416	3	1	202	1	0	0	0	0	1	0	0	0	4982	1145	40	1	282	1	EHBP1L1	11	65347416	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	454400	65347416	69659100	434	99322											
PCNXL3	399909	broad.mit.edu	37	chr11	65397039	65397039	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctatgagcacttgacacGttcgctgcagcacacactgt	9	11	8	13	2	1	2	0	2	1	0	2	2	1	2	0	0	3	5	0	0	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:65397039G>A	uc001oey.2	+	26	4049	c.4049G>A	c.(4048-4050)CGT>CAT	p.R1350H	PCNXL3_uc001oez.2_Missense_Mutation_p.R237H	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1350						integral to membrane					0						CACTTGACACGTTCGCTGCAG	0.567													14	14					0	0	0.00245	0	0		A	65397039	A	A	65397039	3	1	202	1	0	0	0	0	1	0	0	0	11612	1145	40	1	4151	1	PCNXL3	11	65397039	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	49623	65397039	69609477	435	99323											
SF3B2	10992	broad.mit.edu	37	chr11	65835515	65835515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacatttatgacatgtccaCggtgagtacttggaggatac	11	11	10	9	1	0	2	0	2	0	0	1	4	1	4	2	3	2	1	2	3	3	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:65835515C>T	uc001ogy.1	+	20	2469	c.2429C>T	c.(2428-2430)ACG>ATG	p.T810M	PACS1_uc001ogz.1_5'Flank|PACS1_uc001oha.1_5'Flank	NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	810					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						GACATGTCCACGGTGAGTACT	0.512											OREG0021094	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	69					0	0	0.006214	0	0		T	65835515	T	T	65835515	3	4	202	1	0	0	0	0	1	0	0	0	14176	550	19	1	2507	1	SF3B2	11	65835515	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	438476	65835515	69171001	436	99324											
KLC2	64837	broad.mit.edu	37	chr11	66033663	66033664	+	Frame_Shift_Ins	INS	-	C	C																															aaagaagctgcaggggggcaINSccccccaggagccccctaac																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:66033663_66033664insC	uc010rov.1	+	14	1945_1946	c.1702_1703insC	c.(1702-1704)ACCfs	p.T568fs	KLC2_uc010row.1_Frame_Shift_Ins_p.T568fs|KLC2_uc009yra.2_Intron|KLC2_uc001ohb.2_Frame_Shift_Ins_p.T568fs|KLC2_uc010rox.1_Frame_Shift_Ins_p.T491fs|KLC2_uc001ohc.2_Frame_Shift_Ins_p.T568fs|KLC2_uc001ohd.2_Frame_Shift_Ins_p.T491fs|KLC2_uc001ohe.1_Frame_Shift_Ins_p.T429fs|RAB1B_uc001ohf.2_5'Flank	NM_001134775	NP_001128247	Q9H0B6	KLC2_HUMAN	kinesin light chain 2 isoform 1	568					blood coagulation	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0						GCAGGGGGGCACCCCCCAGGAG	0.649													21	23	---	---	---	---						.	C	66033664	C	C	66033663	7	5	202	1	0	1	1	0	0	0	0	0	8350	159	6	0	1752	0	KLC2	11	66033663	Frame_Shift_Ins	INS	-	TCGA-HJ-7597-01A-21D-2201-08	198148	66033663	68972853	437	99325											
PELI3	246330	broad.mit.edu	37	chr11	66238782	66238782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggcactgagccgccggtcGcacgccaacggggtgaagcc	7	4	15	15	5	0	2	0	2	0	0	1	2	0	2	4	4	3	2	4	4	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:66238782G>A	uc001oic.3	+	4	458	c.294G>A	c.(292-294)TCG>TCA	p.S98S	PELI3_uc001oib.2_Silent_p.S98S|PELI3_uc001oid.3_Silent_p.S74S|PELI3_uc001oie.3_5'UTR|PELI3_uc010rpd.1_5'Flank	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	98						cytosol	protein binding			ovary(1)	1						GCCGCCGGTCGCACGCCAACG	0.627													44	56					0	0	0.002522	0	0		A	66238782	A	A	66238782	2	1	202	1	0	0	0	0	0	0	0	1	11742	1074	38	1		1	PELI3	11	66238782	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	205119	66238782	68767734	438	99326											
ARHGEF17	9828	broad.mit.edu	37	chr11	73020197	73020197	+	Frame_Shift_Del	DEL	C	-	-																															cgcggcagccaccgacgccaCcccctcggacatgcttcccc																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:73020197delC	uc001otu.2	+	1	535	c.514delC	c.(514-516)CCCfs	p.P172fs		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	172					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						ACCGACGCCACCCCCTCGGAC	0.751													4	7	---	---	---	---						.	-	73020197	-	-	73020197	7	5	202	1	0	1	0	1	0	0	0	0	900	507	18	0	516	0	ARHGEF17	11	73020197	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	6781415	73020197	61986319	439	99327											
MAP6	4135	broad.mit.edu	37	chr11	75298881	75298881	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatcctttagagactctggTaccacagagccttgatcctt	9	13	8	11	0	1	4	0	2	1	2	3	5	3	4	4	1	2	1	4	1	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:75298881T>C	uc001owu.2	-	4	1730	c.1665A>G	c.(1663-1665)GTA>GTG	p.V555V		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	555	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					GAGACTCTGGTACCACAGAGC	0.502													6	40					0	0	0.001168	0	0		C	75298881	C	C	75298881	2	2	202	1	0	0	0	0	0	0	0	1	9282	1625	57	3		3	MAP6	11	75298881	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	2278684	75298881	59707635	440	99328											
AQP11	282679	broad.mit.edu	37	chr11	77301362	77301362	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgtgatgatgcagatgatgCtggggggcatgtcccccgag	7	8	17	9	2	0	4	0	3	0	1	1	5	1	4	2	3	2	3	2	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:77301362C>T	uc001oyj.2	+	1	683	c.325C>T	c.(325-327)CTG>TTG	p.L109L	AQP11_uc009yuu.2_Intron	NM_173039	NP_766627	Q8NBQ7	AQP11_HUMAN	aquaporin 11	109						cell surface|integral to membrane	transporter activity				0	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)			GCAGATGATGCTGGGGGGCAT	0.622													8	81					0	0	0.006214	0	0		T	77301362	T	T	77301362	2	4	202	1	0	0	0	0	0	0	0	1	823	796	28	2		2	AQP11	11	77301362	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2002481	77301362	57705154	441	99329											
ODZ4	26011	broad.mit.edu	37	chr11	78369475	78369475	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgatctgggacacagtgacGttgaccccattctccagggt	8	11	11	11	1	2	3	0	3	2	0	3	4	2	4	3	2	0	1	3	2	0	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:78369475G>A	uc001ozl.3	-	34	8401	c.7938C>T	c.(7936-7938)AAC>AAT	p.N2646N	ODZ4_uc001ozk.3_Silent_p.N871N|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2646	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						ACACAGTGACGTTGACCCCAT	0.562													24	23					0	0	0.005443	0	0		A	78369475	A	A	78369475	2	1	202	1	0	0	0	0	0	0	0	1	10856	1136	40	1		1	ODZ4	11	78369475	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1068113	78369475	56637041	442	99330											
DYNC2H1	79659	broad.mit.edu	37	chr11	103349968	103349969	+	Frame_Shift_Ins	INS	-	A	A																															tgtggagcagctctattcctINSaaaaaatcagtagaatctaa																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:103349968_103349969insA	uc001pho.2	+	89	13055_13056	c.12911_12912insA	c.(12910-12912)CTAfs	p.L4304fs	DYNC2H1_uc001phn.1_Frame_Shift_Ins_p.L4311fs|DYNC2H1_uc009yxe.1_Frame_Shift_Ins_p.L917fs	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	4304					cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		GCTCTATTCCTAAAAAATCAGT	0.391													10	16	---	---	---	---						.	A	103349969	A	A	103349968	7	5	202	1	0	1	1	0	0	0	0	0	4852	1522	53	0	13290	0	DYNC2H1	11	103349968	Frame_Shift_Ins	INS	-	TCGA-HJ-7597-01A-21D-2201-08	24980493	103349968	31656548	443	99331											
GRIA4	2893	broad.mit.edu	37	chr11	105781166	105781166	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctctatttggcaggttggTtactggaatgatatggataa	10	16	11	4	0	1	1	0	1	1	0	2	3	1	3	0	5	1	3	0	5	5	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:105781166T>C	uc001pix.2	+	10	1610	c.1164T>C	c.(1162-1164)GGT>GGC	p.G388G	GRIA4_uc001piu.1_Silent_p.G388G|GRIA4_uc001piw.2_Silent_p.G388G|GRIA4_uc009yxk.1_Silent_p.G388G	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	388	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	GGCAGGTTGGTTACTGGAATG	0.358													8	6					0	0	0.006214	0	0		C	105781166	C	C	105781166	2	2	202	1	0	0	0	0	0	0	0	1	6786	1712	60	3		3	GRIA4	11	105781166	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	2431198	105781166	29225350	444	99332											
NPAT	4863	broad.mit.edu	37	chr11	108032226	108032226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagctatagatttctcacttCgcaaacccccattttgctgc	10	13	5	13	1	1	1	1	0	1	1	3	1	1	1	2	0	4	3	2	0	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:108032226C>T	uc001pjz.3	-	17	3689	c.3587G>A	c.(3586-3588)CGA>CAA	p.R1196Q	NPAT_uc010rvv.1_Missense_Mutation_p.R252Q	NM_002519	NP_002510	Q14207	NPAT_HUMAN	nuclear protein,  ataxia-telangiectasia locus	1196					positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	protein C-terminus binding|protein N-terminus binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			ovary(2)	2		all_cancers(61;2.31e-10)|all_epithelial(67;1.11e-06)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;1.05e-05)|Epithelial(105;3.01e-05)|all cancers(92;0.000816)|Colorectal(284;0.116)		TTTCTCACTTCGCAAACCCCC	0.368													59	71					0	0	0.00361	0	0		T	108032226	T	T	108032226	3	4	202	1	0	0	0	0	1	0	0	0	10585	884	31	1	704	1	NPAT	11	108032226	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2251060	108032226	26974290	445	99333											
PHLDB1	23187	broad.mit.edu	37	chr11	118516346	118516346	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaccgggggcaactcggccTgctcccctgacaacatgtcc	7	6	10	18	2	0	1	0	1	0	0	3	1	2	1	6	3	3	2	6	3	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:118516346T>C	uc001ptr.1	+	17	3747	c.3394T>C	c.(3394-3396)TGC>CGC	p.C1132R	PHLDB1_uc001pts.2_Missense_Mutation_p.C1132R|PHLDB1_uc001ptt.2_Missense_Mutation_p.C1085R|PHLDB1_uc001ptu.1_RNA|PHLDB1_uc001ptv.1_Missense_Mutation_p.C947R|PHLDB1_uc001ptw.1_Missense_Mutation_p.C487R|PHLDB1_uc009zai.1_Missense_Mutation_p.C168R|PHLDB1_uc001ptx.1_Missense_Mutation_p.C168R|PHLDB1_uc010ryi.1_Missense_Mutation_p.C275R	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	1132											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CAACTCGGCCTGCTCCCCTGA	0.642													8	59					0	0	0.006214	0	0		C	118516346	C	C	118516346	3	2	202	1	0	0	0	0	1	0	0	0	11870	1580	55	3	3452	3	PHLDB1	11	118516346	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	10484120	118516346	16490170	446	99334											
MFRP	83552	broad.mit.edu	37	chr11	119212402	119212402	+	Silent	SNP	G	A	A	0	0	1	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	cggcaagggggcagaacactGcctagtggggtgcaacgggg	9	4	19	9	2	0	1	0	0	0	1	0	1	0	1	1	7	4	3	1	7	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:119212402G>A	uc001pwj.2	-	13	1756	c.1596C>T	c.(1594-1596)GGC>GGT	p.G532G	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Silent_p.G414G	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		GCAGAACACTGCCTAGTGGGG	0.647													4	49					0	0	0.000602	0	0		A	119212402	A	A	119212402	2	1	202	1	0	0	0	0	0	0	0	1	9544	1306	46	2		2	MFRP	11	119212402	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	696056	119212402	15794114	447	99335											
PRDM10	56980	broad.mit.edu	37	chr11	129788598	129788598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctctgcatgtgttcccGtagtttgtcttttcgctatt	4	19	7	11	2	2	0	0	0	2	0	5	0	4	0	2	0	1	5	2	0	2	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:129788598G>A	uc001qfm.2	-	15	2294	c.2062C>T	c.(2062-2064)CGG>TGG	p.R688W	PRDM10_uc001qfj.2_Missense_Mutation_p.R602W|PRDM10_uc001qfk.2_Missense_Mutation_p.R598W|PRDM10_uc001qfl.2_Missense_Mutation_p.R602W|PRDM10_uc010sbx.1_Missense_Mutation_p.R598W|PRDM10_uc001qfn.2_Missense_Mutation_p.R684W|PRDM10_uc009zcs.1_5'Flank	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	688	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1	all_hematologic(175;0.0537)	Breast(109;0.000496)|Lung NSC(97;0.000693)|all_lung(97;0.00151)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0174)|Lung(977;0.176)|LUSC - Lung squamous cell carcinoma(976;0.185)		ATGTGTTCCCGTAGTTTGTCT	0.458													55	81					0	0	0.00361	0	0		A	129788598	A	A	129788598	3	1	202	1	0	0	0	0	1	0	0	0	12473	1144	40	1	1452	1	PRDM10	11	129788598	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	10576196	129788598	5217918	448	99336											
SNX19	399979	broad.mit.edu	37	chr11	130750601	130750601	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttacgggccgtggaaactTaggcaaaactccaccaggcc	11	6	10	14	2	0	0	0	0	0	0	1	1	1	1	5	4	3	1	5	4	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:130750601T>C	uc001qgk.3	-	9	3222	c.2674A>G	c.(2674-2676)AAG>GAG	p.K892E	SNX19_uc009zcw.2_Missense_Mutation_p.K129E|SNX19_uc010sce.1_Missense_Mutation_p.K272E|SNX19_uc010scf.1_Missense_Mutation_p.K335E|SNX19_uc010scg.1_Missense_Mutation_p.K129E	NM_014758	NP_055573	Q92543	SNX19_HUMAN	sorting nexin 19	892					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|lung(2)	4	all_hematologic(175;0.0597)	Lung NSC(97;0.000272)|all_lung(97;0.000608)|Breast(109;0.000962)|all_neural(223;0.0298)|Medulloblastoma(222;0.0425)		OV - Ovarian serous cystadenocarcinoma(99;0.0195)|Lung(977;0.233)		CGTGGAAACTTAGGCAAAACT	0.537													27	40					0	0	0.004656	0	0		C	130750601	C	C	130750601	3	2	202	1	0	0	0	0	1	0	0	0	14915	1763	61	3	316	3	SNX19	11	130750601	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	962003	130750601	4255915	449	99337											
NCAPD3	23310	broad.mit.edu	37	chr11	134047223	134047223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccaccatgatggtgtagCgaatgcagagatcgcacatt	11	10	11	9	2	0	2	0	1	0	1	2	4	1	2	2	1	2	3	2	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr11:134047223C>T	uc001qhd.1	-	23	3518	c.2912G>A	c.(2911-2913)CGC>CAC	p.R971H	NCAPD3_uc010scm.1_RNA|NCAPD3_uc009zda.1_RNA	NM_015261	NP_056076	P42695	CNDD3_HUMAN	non-SMC condensin II complex, subunit D3	971					cell division|mitotic chromosome condensation	nuclear centromeric heterochromatin|nuclear condensin complex	methylated histone residue binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	5	all_hematologic(175;0.127)	all_cancers(12;1.68e-21)|all_epithelial(12;5.86e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000182)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;8.74e-10)|BRCA - Breast invasive adenocarcinoma(10;1e-08)|all cancers(11;1.46e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00345)|Lung(977;0.227)		GATGGTGTAGCGAATGCAGAG	0.507													40	43					0	0	0.007835	0	0		T	134047223	T	T	134047223	3	4	202	1	0	0	0	0	1	0	0	0	10225	768	27	1	1636	1	NCAPD3	11	134047223	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3296622	134047223	959293	450	99338											
B4GALNT3	283358	broad.mit.edu	37	chr12	665815	665815	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgttggaacaaggccagcgCgtggtgcggctctcggagta	7	8	16	10	4	1	0	0	0	1	0	2	2	1	2	1	5	3	3	1	5	3	2	rs150429681	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:665815C>T	uc001qii.1	+	15	2163	c.2163C>T	c.(2161-2163)CGC>CGT	p.R721R	B4GALNT3_uc001qik.1_Silent_p.R270R	NM_173593	NP_775864	Q6L9W6	B4GN3_HUMAN	beta	721	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	N-acetyl-beta-glucosaminyl-glycoprotein 4-beta-N-acetylgalactosaminyltransferase activity			ovary(1)|skin(1)	2	all_cancers(10;0.0158)|all_epithelial(11;0.0274)|Ovarian(42;0.0512)|all_lung(10;0.154)|Lung NSC(10;0.215)		OV - Ovarian serous cystadenocarcinoma(31;0.00018)|BRCA - Breast invasive adenocarcinoma(9;0.0262)			AAGGCCAGCGCGTGGTGCGGC	0.622													14	39					0	0	0.003163	0	0		T	665815	T	T	665815	2	4	202	1	0	0	0	0	0	0	0	1	1269	755	27	1		1	B4GALNT3	12	665815	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		665815	133186080	451	99339											
CACNA1C	775	broad.mit.edu	37	chr12	2659185	2659185	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatcgagggagaaaactgCggggccaggctggcgtgagt	10	5	18	8	3	0	2	0	1	0	1	1	5	0	2	1	5	2	1	1	5	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:2659185C>T	uc009zdu.1	+	10	1780	c.1467C>T	c.(1465-1467)TGC>TGT	p.C489C	CACNA1C_uc009zdv.1_Silent_p.C486C|CACNA1C_uc001qkb.2_Silent_p.C489C|CACNA1C_uc001qkc.2_Silent_p.C489C|CACNA1C_uc001qke.2_Silent_p.C489C|CACNA1C_uc001qkf.2_Silent_p.C489C|CACNA1C_uc001qjz.2_Silent_p.C489C|CACNA1C_uc001qkd.2_Silent_p.C489C|CACNA1C_uc001qkg.2_Silent_p.C489C|CACNA1C_uc009zdw.1_Silent_p.C489C|CACNA1C_uc001qkh.2_Silent_p.C489C|CACNA1C_uc001qkl.2_Silent_p.C489C|CACNA1C_uc001qkn.2_Silent_p.C489C|CACNA1C_uc001qko.2_Silent_p.C489C|CACNA1C_uc001qkp.2_Silent_p.C489C|CACNA1C_uc001qkr.2_Silent_p.C489C|CACNA1C_uc001qku.2_Silent_p.C489C|CACNA1C_uc001qkq.2_Silent_p.C489C|CACNA1C_uc001qks.2_Silent_p.C489C|CACNA1C_uc001qkt.2_Silent_p.C489C|CACNA1C_uc001qka.1_Silent_p.C24C|CACNA1C_uc001qki.1_Silent_p.C225C|CACNA1C_uc001qkj.1_Silent_p.C225C|CACNA1C_uc001qkk.1_Silent_p.C225C|CACNA1C_uc001qkm.1_Silent_p.C225C|CACNA1C_uc009zdy.1_Silent_p.C114C|CACNA1C_uc001qkv.1_Silent_p.C59C	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	489	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAGAAAACTGCGGGGCCAGGC	0.597													4	9					0	0	0.009096	0	0		T	2659185	T	T	2659185	2	4	202	1	0	0	0	0	0	0	0	1	2543	776	27	1		1	CACNA1C	12	2659185	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1993370	2659185	131192710	452	99340											
KCNA5	3741	broad.mit.edu	37	chr12	5154231	5154231	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcggggtcatggccccGccctctggccctacggtggc	3	6	16	16	3	2	0	1	0	1	0	2	0	2	0	4	7	2	1	4	7	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:5154231G>A	uc001qni.2	+	1	1147	c.918G>A	c.(916-918)CCG>CCA	p.P306P		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	306						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TCATGGCCCCGCCCTCTGGCC	0.706													16	49					0	0	0.004007	0	0		A	5154231	A	A	5154231	2	1	202	1	0	0	0	0	0	0	0	1	8022	1074	38	1		1	KCNA5	12	5154231	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2495046	5154231	128697664	453	99341											
GPR162	27239	broad.mit.edu	37	chr12	6933561	6933561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcgagcgctactatgcccGcggctgccagttcatagtct	6	9	12	14	5	2	0	1	0	1	0	2	1	2	0	2	2	4	3	2	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:6933561G>A	uc001qqw.1	+	2	1032	c.497G>A	c.(496-498)CGC>CAC	p.R166H	GPR162_uc010sfn.1_Missense_Mutation_p.R166H|GPR162_uc001qqx.1_Intron|GPR162_uc009zfd.1_Intron|GPR162_uc001qqy.1_5'Flank	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	166	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TACTATGCCCGCGGCTGCCAG	0.587													8	51					0	0	0.00308	0	0		A	6933561	A	A	6933561	3	1	202	1	0	0	0	0	1	0	0	0	6681	1087	38	1	518	1	GPR162	12	6933561	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1779330	6933561	126918334	454	99342											
A2M	2	broad.mit.edu	37	chr12	9243798	9243798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaggaaagagatccttaccCggatgcatttgggaaggtag	12	10	13	6	1	0	1	0	0	0	1	1	5	1	4	2	4	2	2	2	4	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:9243798C>T	uc001qvk.1	-	19	2581	c.2468G>A	c.(2467-2469)CGG>CAG	p.R823Q	A2M_uc009zgk.1_Missense_Mutation_p.R673Q	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	823					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	GATCCTTACCCGGATGCATTT	0.428													13	17					0	0	0.003163	0	0		T	9243798	T	T	9243798	3	4	202	1	0	0	0	0	1	0	0	0	4	666	23	1	2028	1	A2M	12	9243798	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2310237	9243798	124608097	455	99343											
C12orf59	120939	broad.mit.edu	37	chr12	10339095	10339095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgctgctgctgtctgagcCgccagcaaaatggggaagat	9	8	13	11	2	1	2	0	1	1	1	2	3	2	3	3	2	4	4	3	2	3	0	rs143637558	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:10339095C>T	uc001qxr.2	+	4	831	c.214C>T	c.(214-216)CGC>TGC	p.R72C	C12orf59_uc001qxq.2_Missense_Mutation_p.R52C			Q4KMG9	CL059_HUMAN	RecName: Full=Uncharacterized protein C12orf59; Flags: Precursor;	72						integral to membrane				ovary(1)	1						CTGTCTGAGCCGCCAGCAAAA	0.582													21	47					0	0	0.001882	0	0		T	10339095	T	T	10339095	3	4	202	1	0	0	0	0	1	0	0	0	1705	652	23	1	164	1	C12orf59	12	10339095	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1095297	10339095	123512800	456	99344											
ETV6	2120	broad.mit.edu	37	chr12	12022435	12022435	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccattgaactgttgcacCgctccaggtcacctatcacg	9	9	7	16	2	2	1	2	1	0	0	3	1	3	1	5	1	2	3	5	1	2	3	rs149660037	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:12022435C>T	uc001qzz.2	+	5	815	c.541C>T	c.(541-543)CGC>TGC	p.R181C	ETV6_uc001raa.1_5'UTR	NM_001987	NP_001978	P41212	ETV6_HUMAN	ets variant 6	181						cytoplasm|nucleolus	protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		ETV6/NTRK3(234)|ETV6/JAK2(11)	soft_tissue(85)|kidney(66)|breast(55)|salivary_gland(26)|haematopoietic_and_lymphoid_tissue(13)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)|pancreas(1)	250		all_cancers(2;1.88e-12)|Acute lymphoblastic leukemia(2;6.91e-39)|all_hematologic(2;2.7e-36)				ACTGTTGCACCGCTCCAGGTC	0.602			T	NTRK3|RUNX1|PDGFRB|ABL1|MN1|ABL2|FACL6|CHIC2|ARNT|JAK2|EVI1|CDX2|STL|HLXB9|MDS2|PER1|SYK|TTL|FGFR3|PAX5	congenital fibrosarcoma|multiple leukemia and lymphoma| secretory breast|MDS|ALL								66	195					0	0	0.00361	0	0		T	12022435	T	T	12022435	3	4	202	1	0	0	0	0	1	0	0	0	5291	652	23	1	559	1	ETV6	12	12022435	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1683340	12022435	121829460	457	99345											
GSG1	83445	broad.mit.edu	37	chr12	13256440	13256440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgagtcagttgagagggatCgctcattcactcttgcagcg	8	12	12	9	2	4	2	3	2	1	1	5	4	4	3	0	1	2	3	0	1	0	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:13256440C>T	uc001rbn.2	-	1	180	c.7G>A	c.(7-9)GAT>AAT	p.D3N	GSG1_uc001rbo.2_Missense_Mutation_p.D3N|GSG1_uc001rbp.2_Missense_Mutation_p.D3N|GSG1_uc001rbq.1_Missense_Mutation_p.D3N	NM_001080555	NP_001074024	Q2KHT4	GSG1_HUMAN	germ cell associated 1 isoform 4	Error:Variant_position_missing_in_Q2KHT4_after_alignment						endoplasmic reticulum membrane|integral to membrane					0		Prostate(47;0.183)		BRCA - Breast invasive adenocarcinoma(232;0.15)		TGAGAGGGATCGCTCATTCAC	0.428													31	108					0	0	0.005524	0	0		T	13256440	T	T	13256440	3	4	202	1	0	0	0	0	1	0	0	0	6836	884	31	1	1246	1	GSG1	12	13256440	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1234005	13256440	120595455	458	99346											
PLBD1	79887	broad.mit.edu	37	chr12	14688687	14688687	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcctgagcatggctgcataCgtgtaccagcttgagtgagc	9	10	12	10	1	0	3	0	3	0	0	1	3	1	3	2	1	6	5	2	1	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:14688687C>T	uc001rcc.1	-	6	911	c.750G>A	c.(748-750)ACG>ACA	p.T250T		NM_024829	NP_079105	Q6P4A8	PLBL1_HUMAN	phospholipase B domain containing 1	250					lipid catabolic process	extracellular region	hydrolase activity				0						TGGCTGCATACGTGTACCAGC	0.428													13	51					0	0	0.00245	0	0		T	14688687	T	T	14688687	2	4	202	1	0	0	0	0	0	0	0	1	12044	523	19	1		1	PLBD1	12	14688687	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1432247	14688687	119163208	459	99347											
GUCY2C	2984	broad.mit.edu	37	chr12	14825885	14825885	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccaaggtcactggaccGtcataccctagggcaagatc	11	8	9	13	1	3	1	3	0	0	1	5	2	4	2	3	3	1	1	3	3	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:14825885G>A	uc001rcd.2	-	9	1229	c.1092C>T	c.(1090-1092)GAC>GAT	p.D364D		NM_004963	NP_004954	P25092	GUC2C_HUMAN	guanylate cyclase 2C precursor	364	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway	integral to membrane	ATP binding|GTP binding|guanylate cyclase activity|protein binding|protein kinase activity|receptor activity			ovary(4)|skin(2)	6						TCACTGGACCGTCATACCCTA	0.448													23	63					0	0	0.005443	0	0		A	14825885	A	A	14825885	2	1	202	1	0	0	0	0	0	0	0	1	6912	1136	40	1		1	GUCY2C	12	14825885	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	137198	14825885	119026010	460	99348											
RECQL	5965	broad.mit.edu	37	chr12	21639508	21639508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agagatcaatgggcaaatgaCgagtgtaaaacctaaaagag	19	6	11	5	1	1	3	1	1	0	2	1	5	1	3	1	1	1	2	1	1	6	2	rs138278747	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:21639508C>T	uc001rex.2	-	6	754	c.406G>A	c.(406-408)GTC>ATC	p.V136I	RECQL_uc001rey.2_Missense_Mutation_p.V136I	NM_032941	NP_116559	P46063	RECQ1_HUMAN	RecQ protein-like	136	Helicase ATP-binding.				DNA recombination|DNA repair|DNA replication	nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|DNA strand annealing activity|protein binding			ovary(1)|lung(1)	2						GGGCAAATGACGAGTGTAAAA	0.308								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					6	5					0	0	0.001168	0	0		T	21639508	T	T	21639508	3	4	202	1	0	0	0	0	1	0	0	0	13226	536	19	1	1587	1	RECQL	12	21639508	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6813623	21639508	112212387	461	99349											
ARNTL2	56938	broad.mit.edu	37	chr12	27543174	27543174	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccaactcaaagaagaaaggTatcattttgaaatgtcaagt	17	10	7	7	0	3	3	3	1	0	2	3	3	3	3	1	1	1	1	1	1	7	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:27543174T>C	uc001rht.1	+	9	937	c.919_splice	c.e9+2	p.E307_splice	ARNTL2_uc001rhw.2_Splice_Site_p.E270_splice|ARNTL2_uc010sjp.1_Splice_Site_p.E270_splice|ARNTL2_uc001rhu.1_Splice_Site_p.E293_splice|ARNTL2_uc009zji.1_Splice_Site_p.E273_splice|ARNTL2_uc001rhv.1_Splice_Site_p.E259_splice|uc001rhx.2_Intron	NM_020183	NP_064568	Q8WYA1	BMAL2_HUMAN	aryl hydrocarbon receptor nuclear						circadian rhythm|entrainment of circadian clock|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|skin(1)	2	Colorectal(261;0.0847)|Lung SC(9;0.184)					AGAAGAAAGGTATCATTTTGA	0.323													6	14					0	0	0.001984	0	0		C	27543174	C	C	27543174	5	2	202	1	0	0	0	0	0	0	1	0	969	1652	57	3	955	3	ARNTL2	12	27543174	Splice_Site	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	5903666	27543174	106308721	462	99350											
PTHLH	5744	broad.mit.edu	37	chr12	28116577	28116577	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagttaggggacacctcCgaggtagctctgatttcagc	8	11	13	9	1	2	1	1	1	1	0	3	4	3	3	2	4	2	3	2	4	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:28116577C>T	uc001rik.2	-	3	531	c.228G>A	c.(226-228)TCG>TCA	p.S76S	PTHLH_uc001ril.2_Silent_p.S76S|PTHLH_uc001rim.2_Silent_p.S76S|PTHLH_uc001rin.2_Silent_p.S76S	NM_198966	NP_945317	P12272	PTHR_HUMAN	parathyroid hormone-like hormone isoform 1	76					activation of adenylate cyclase activity by G-protein signaling pathway|cAMP metabolic process|cell-cell signaling|epidermis development|female pregnancy|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation	cytoplasm|extracellular space|nucleus	hormone activity|peptide hormone receptor binding			breast(1)	1	Lung SC(9;0.184)					GGGACACCTCCGAGGTAGCTC	0.507													13	132					0	0	0.004007	0	0		T	28116577	T	T	28116577	2	4	202	1	0	0	0	0	0	0	0	1	12784	639	23	1		1	PTHLH	12	28116577	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	573403	28116577	105735318	463	99351											
CCDC91	55297	broad.mit.edu	37	chr12	28603309	28603309	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaaaagtgtttggaggaAgaaaggcaaagaaataaaga	20	7	13	1	0	0	3	0	0	0	3	0	6	0	6	0	4	0	2	0	4	8	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:28603309A>C	uc001riq.2	+	9	898	c.882A>C	c.(880-882)GAA>GAC	p.E294D	CCDC91_uc001rio.2_Missense_Mutation_p.E264D|CCDC91_uc009zjk.2_RNA|CCDC91_uc001rip.1_Missense_Mutation_p.E294D|CCDC91_uc001rir.2_Missense_Mutation_p.E132D|CCDC91_uc009zjl.2_Missense_Mutation_p.E96D	NM_018318	NP_060788	Q7Z6B0	CCD91_HUMAN	GGA binding partner	294	Potential.|Homodimerization.				protein transport	Golgi apparatus|membrane				central_nervous_system(1)	1	Acute lymphoblastic leukemia(23;0.00718)|all_hematologic(23;0.0113)|Lung SC(9;0.184)					GTTTGGAGGAAGAAAGGCAAA	0.328													14	46					0	0	0.004007	0	0		C	28603309	C	C	28603309	3	2	202	1	0	0	0	0	1	0	0	0	2873	69	3	5	916	5	CCDC91	12	28603309	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	486732	28603309	105248586	464	99352											
BICD1	636	broad.mit.edu	37	chr12	32480566	32480566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctcaaggctgagctggacGgggagaagggccgggactca	10	4	18	9	2	2	2	2	1	0	1	2	5	2	4	1	6	2	3	1	6	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:32480566G>A	uc001rku.2	+	5	1258	c.1177G>A	c.(1177-1179)GGG>AGG	p.G393R	BICD1_uc001rkv.2_Missense_Mutation_p.G393R|BICD1_uc010skd.1_RNA	NM_001714	NP_001705	Q96G01	BICD1_HUMAN	bicaudal D homolog 1 isoform 1	393	Potential.				anatomical structure morphogenesis|intracellular mRNA localization|microtubule anchoring at microtubule organizing center|minus-end-directed organelle transport along microtubule|positive regulation of receptor-mediated endocytosis|protein localization to organelle|RNA processing|stress granule assembly|viral reproduction	cytoplasmic vesicle|cytoskeleton|cytosol|host cell viral assembly compartment|membrane|perinuclear region of cytoplasm|trans-Golgi network	cytoskeletal adaptor activity|dynactin binding|dynein binding|proteinase activated receptor binding|Rab GTPase binding|structural constituent of cytoskeleton			large_intestine(1)|central_nervous_system(1)	2	all_cancers(9;5.13e-11)|all_epithelial(9;2.71e-11)|all_lung(12;6.66e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0213)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0201)			TGAGCTGGACGGGGAGAAGGG	0.582													8	28					0	0	0.006214	0	0		A	32480566	A	A	32480566	3	1	202	1	0	0	0	0	1	0	0	0	1429	1116	39	1	1195	1	BICD1	12	32480566	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3877257	32480566	101371329	465	99353											
HDAC7	51564	broad.mit.edu	37	chr12	48189159	48189159	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagggcaagggcccaagcccGggcactggaaagaatcgggg	12	2	17	10	2	0	1	0	0	0	1	1	2	0	2	2	6	1	2	2	6	5	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:48189159G>A	uc010slo.1	-	11	1287	c.1092C>T	c.(1090-1092)CCC>CCT	p.P364P	HDAC7_uc001rqe.2_5'Flank|HDAC7_uc001rqj.3_Silent_p.P327P|HDAC7_uc001rqk.3_Silent_p.P347P	NM_015401	NP_056216	Q8WUI4	HDAC7_HUMAN	histone deacetylase 7 isoform a	325	Transcription repression 2 (By similarity).				negative regulation of interleukin-2 production|negative regulation of osteoblast differentiation|positive regulation of cell migration involved in sprouting angiogenesis|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			lung(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.137)		GCCCAAGCCCGGGCACTGGAA	0.632													2	2					0	0	0.004672	0	0		A	48189159	A	A	48189159	2	1	202	1	0	0	0	0	0	0	0	1	7028	1103	39	1		1	HDAC7	12	48189159	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	15708593	48189159	85662736	466	99354											
COL2A1	1280	broad.mit.edu	37	chr12	48379540	48379540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggaaggccaggttctccagGacggccagggtcaccgttgg	8	6	16	11	2	2	0	1	0	1	0	3	2	2	2	4	7	0	2	4	7	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:48379540G>A	uc001rqu.2	-	25	1832	c.1651C>T	c.(1651-1653)CCT>TCT	p.P551S	COL2A1_uc009zkw.2_RNA|COL2A1_uc001rqv.2_Missense_Mutation_p.P482S	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	551	Triple-helical region.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	GGTTCTCCAGGACGGCCAGGG	0.647													3	18					0	0	0.009096	0	0		A	48379540	A	A	48379540	3	1	202	1	0	0	0	0	1	0	0	0	3690	1174	41	4	2932	4	COL2A1	12	48379540	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	190381	48379540	85472355	467	99355											
FKBP11	51303	broad.mit.edu	37	chr12	49318420	49318420	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgtcaataatacgtccatcTaccaagcttccctgggggga	10	10	10	11	1	2	0	1	0	1	0	4	1	4	1	3	3	3	1	3	3	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:49318420T>C	uc001rsp.2	-	3	326	c.207A>G	c.(205-207)GTA>GTG	p.V69V	FKBP11_uc010sma.1_5'UTR|FKBP11_uc001rsq.3_Silent_p.V69V|FKBP11_uc010smb.1_Silent_p.V69V	NM_016594	NP_057678	Q9NYL4	FKB11_HUMAN	FK506 binding protein 11 isoform 1 precursor	69	PPIase FKBP-type.				protein folding	integral to membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0						TACGTCCATCTACCAAGCTTC	0.572											OREG0021773	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	41					0	0	0.00499	0	0		C	49318420	C	C	49318420	2	2	202	1	0	0	0	0	0	0	0	1	5917	1509	53	3		3	FKBP11	12	49318420	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	938880	49318420	84533475	468	99356											
NCKAP5L	57701	broad.mit.edu	37	chr12	50196893	50196893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagacctcgtccagacagCgctcataagtctcccgctgg	9	7	9	16	3	2	2	1	0	1	2	5	2	3	2	3	1	1	2	3	1	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:50196893C>T	uc009zlk.2	-	4	381	c.179G>A	c.(178-180)CGC>CAC	p.R60H		NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	56	Potential.									central_nervous_system(1)	1						GTCCAGACAGCGCTCATAAGT	0.612													26	84					0	0	0.008361	0	0		T	50196893	T	T	50196893	3	4	202	1	0	0	0	0	1	0	0	0	10243	768	27	1	3865	1	NCKAP5L	12	50196893	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	878473	50196893	83655002	469	99357											
KRT85	3891	broad.mit.edu	37	chr12	52754649	52754649	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgactctactaggcaaagcgGaccgaccggctactcccgca	10	6	10	15	4	1	1	0	1	1	0	2	3	2	2	3	3	3	3	3	3	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:52754649G>C	uc001sag.2	-	9	1632	c.1512C>G	c.(1510-1512)GTC>GTG	p.V504V		NM_002283	NP_002274	P78386	KRT85_HUMAN	keratin 85	504	Tail.				epidermis development	keratin filament	protein binding|structural molecule activity			ovary(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		AGGCAAAGCGGACCGACCGGC	0.612													14	71					0	0	0.003163	0	0		C	52754649	C	C	52754649	2	2	202	1	0	0	0	0	0	0	0	1	8515	1161	41	5		5	KRT85	12	52754649	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2557756	52754649	81097246	470	99358											
KRT76	51350	broad.mit.edu	37	chr12	53170983	53170983	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccagagcgggccacacaGctcatcctgctgctgccgga	7	5	11	18	2	1	1	1	0	0	1	2	2	2	2	5	2	5	3	5	2	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:53170983G>A	uc001sax.2	-	1	147	c.93C>T	c.(91-93)AGC>AGT	p.S31S		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	31	Head.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						GGGCCACACAGCTCATCCTGC	0.607													20	47					0	0	0.010504	0	0		A	53170983	A	A	53170983	2	1	202	1	0	0	0	0	0	0	0	1	8505	962	34	2		2	KRT76	12	53170983	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	416334	53170983	80680912	471	99359											
KRT8	3856	broad.mit.edu	37	chr12	53292586	53292586	+	Missense_Mutation	SNP	A	G	G	1	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	tgtcctgcttggcccgctgcAgggcggcctccagctcggac	3	8	14	16	3	0	0	0	0	0	0	3	1	2	1	4	4	3	4	4	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:53292586A>G	uc001sbd.2	-	6	1182	c.1079T>C	c.(1078-1080)CTG>CCG	p.L360P	KRT8_uc009zmj.2_Intron|KRT8_uc009zmk.1_Missense_Mutation_p.L388P|KRT8_uc009zml.1_Missense_Mutation_p.L360P|KRT8_uc009zmm.1_Missense_Mutation_p.L360P	NM_002273	NP_002264	P05787	K2C8_HUMAN	keratin 8	360	Necessary for interaction with PNN.|Rod.|Coil 2.				cytoskeleton organization|interspecies interaction between organisms	cytoplasm|keratin filament|nuclear matrix|nucleoplasm	protein binding|structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.108)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGCCCGCTGCAGGGCGGCCTC	0.637													14	106					0	0	0.004007	0	0		G	53292586	G	G	53292586	3	3	202	1	0	0	0	0	1	0	0	0	8509	188	7	3	384	3	KRT8	12	53292586	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	121603	53292586	80559309	472	99360											
DNAJC14	85406	broad.mit.edu	37	chr12	56216886	56216886	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcatcggctacacatcatAgtattcattgcctccttgag	9	13	8	11	1	2	1	2	1	0	0	4	1	3	1	2	2	2	3	2	2	3	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:56216886A>G	uc001shx.1	-	4	1806	c.1602T>C	c.(1600-1602)ACT>ACC	p.T534T	DNAJC14_uc001shu.1_Silent_p.T534T|DNAJC14_uc009zob.1_Silent_p.T534T	NM_032364	NP_115740	Q6Y2X3	DJC14_HUMAN	dopamine receptor interacting protein	534					protein folding|protein transport	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|unfolded protein binding			ovary(3)|large_intestine(1)	4						TACACATCATAGTATTCATTG	0.438													34	41					0	0	0.004878	0	0		G	56216886	G	G	56216886	2	3	202	1	0	0	0	0	0	0	0	1	4639	407	15	3		3	DNAJC14	12	56216886	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2924300	56216886	77635009	473	99361											
LRP1	4035	broad.mit.edu	37	chr12	57556275	57556275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccccccatctttgagatccGaatgtatgatgcccagcagc	9	9	9	14	1	1	2	0	2	1	1	2	4	2	2	5	0	3	2	5	0	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:57556275G>A	uc001snd.2	+	14	2844	c.2378G>A	c.(2377-2379)CGA>CAA	p.R793Q		NM_002332	NP_002323	Q07954	LRP1_HUMAN	low density lipoprotein-related protein 1	793	Extracellular (Potential).				aorta morphogenesis|apoptotic cell clearance|negative regulation of platelet-derived growth factor receptor-beta signaling pathway|negative regulation of smooth muscle cell migration|negative regulation of Wnt receptor signaling pathway|positive regulation of cholesterol efflux|regulation of actin cytoskeleton organization|regulation of phospholipase A2 activity	coated pit|integral to plasma membrane|nucleus	apolipoprotein E binding|calcium ion binding|lipoprotein transporter activity|protein complex binding|receptor activity	p.R793*(1)		ovary(8)|lung(3)|breast(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(2)	22				BRCA - Breast invasive adenocarcinoma(357;0.0103)	Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Becaplermin(DB00102)|Coagulation Factor IX(DB00100)|Tenecteplase(DB00031)	TTTGAGATCCGAATGTATGAT	0.607													16	48					0	0	0.007413	0	0		A	57556275	A	A	57556275	3	1	202	1	0	0	0	0	1	0	0	0	8969	1058	37	1	2432	1	LRP1	12	57556275	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1339389	57556275	76295620	474	99362											
KIF5A	3798	broad.mit.edu	37	chr12	57963882	57963882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatcgtggtgcgcatcgcGcccgaggagcggcagaaata	9	6	14	12	6	0	1	0	0	0	1	3	3	1	2	2	3	2	2	2	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:57963882G>A	uc001sor.1	+	12	1438	c.1230G>A	c.(1228-1230)GCG>GCA	p.A410A	KIF5A_uc010srr.1_Silent_p.A321A	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	410					blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						TGCGCATCGCGCCCGAGGAGC	0.642													11	16					0	0	0.008291	0	0		A	57963882	A	A	57963882	2	1	202	1	0	0	0	0	0	0	0	1	8321	1074	38	1		1	KIF5A	12	57963882	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	407607	57963882	75888013	475	99363											
CTDSP2	10106	broad.mit.edu	37	chr12	58220861	58220861	+	Missense_Mutation	SNP	A	C	C	1	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	cttcctctgtcacctctgggAgcaggcaggtccctgggatc	5	10	12	14	0	3	0	1	0	2	0	6	2	5	2	3	4	1	2	3	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:58220861A>C	uc001sqm.2	-	4	801	c.272T>G	c.(271-273)CTC>CGC	p.L91R	CTDSP2_uc010ssg.1_5'Flank|CTDSP2_uc009zqf.2_5'UTR|CTDSP2_uc009zqg.2_Intron|uc001sqn.2_5'Flank|MIR26A2_hsa-mir-26a-2|MI0000750_5'Flank	NM_005730	NP_005721	O14595	CTDS2_HUMAN	nuclear LIM interactor-interacting factor 2	91					protein dephosphorylation	nucleus|soluble fraction	CTD phosphatase activity|metal ion binding			central_nervous_system(1)	1	all_neural(12;0.00559)|Glioma(12;0.0143)|Melanoma(17;0.122)					CACCTCTGGGAGCAGGCAGGT	0.493													24	34					0	0	0.007291	0	0		C	58220861	C	C	58220861	3	2	202	1	0	0	0	0	1	0	0	0	4007	304	11	5	563	5	CTDSP2	12	58220861	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	256979	58220861	75631034	476	99364											
BEST3	144453	broad.mit.edu	37	chr12	70091427	70091427	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agacatgtaaagaaaagtacCtgtataccaaacttattgct	17	11	6	7	0	0	2	0	0	0	2	0	2	0	2	2	0	4	4	2	0	9	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:70091427C>A	uc001svg.2	-	2	379	c.152G>T	c.(151-153)AGA>ATA	p.R51I	BEST3_uc001svd.1_Missense_Mutation_p.R51I|BEST3_uc001sve.1_Intron|BEST3_uc010stm.1_Intron|BEST3_uc001svh.2_Intron|BEST3_uc001svi.1_Intron	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	51	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			AGAAAAGTACCTGTATACCAA	0.368													7	15					0.000157383	0.000162421	0.00308	1	0		A	70091427	A	A	70091427	3	1	202	1	0	0	0	0	1	0	0	0	1407	695	24	5	1890	5	BEST3	12	70091427	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	11870566	70091427	63760468	477	99365											
EPYC	1833	broad.mit.edu	37	chr12	91357958	91357958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaggctcccaacaggcagaCgaggtagacacatgtatgct	13	6	11	11	1	0	2	0	0	0	2	1	3	1	2	1	3	2	5	1	3	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:91357958C>T	uc001tbk.2	-	7	1037	c.944G>A	c.(943-945)CGT>CAT	p.R315H		NM_004950	NP_004941	Q99645	EPYC_HUMAN	dermatan sulfate proteoglycan 3 precursor	315					female pregnancy	proteinaceous extracellular matrix	glycosaminoglycan binding			skin(1)	1						AACAGGCAGACGAGGTAGACA	0.383													15	46					0	0	0.007413	0	0		T	91357958	T	T	91357958	3	4	202	1	0	0	0	0	1	0	0	0	5209	536	19	1	28	1	EPYC	12	91357958	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	21266531	91357958	42493937	478	99366											
UHRF1BP1L	23074	broad.mit.edu	37	chr12	100452511	100452512	+	Frame_Shift_Ins	INS	-	A	A																															gactagcaggactgccagttINSacagcttctacatctttcct																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:100452511_100452512insA	uc001tgq.2	-	14	2772_2773	c.2543_2544insT	c.(2542-2544)GTAfs	p.V848fs	UHRF1BP1L_uc001tgp.2_Frame_Shift_Ins_p.V498fs	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	848										ovary(2)	2						GACTGCCAGTTACAGCTTCTAC	0.411													9	15	---	---	---	---						.	A	100452512	A	A	100452511	7	5	202	1	0	1	1	0	0	0	0	0	16995	1741	61	0	1882	0	UHRF1BP1L	12	100452511	Frame_Shift_Ins	INS	-	TCGA-HJ-7597-01A-21D-2201-08	9094553	100452511	33399384	479	99367											
DRAM1	55332	broad.mit.edu	37	chr12	102302024	102302024	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcctttgtctgtggtgtcGtgtacacgctcctacagtcc	4	14	11	12	2	1	0	0	0	1	0	4	0	3	0	3	2	2	2	3	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:102302024G>A	uc001tix.2	+	4	866	c.403G>A	c.(403-405)GTG>ATG	p.V135M	DRAM1_uc010svv.1_Intron	NM_018370	NP_060840	Q8N682	DRAM1_HUMAN	DNA-damage regulated autophagy modulator 1	135	Helical; (Potential).				apoptosis|autophagy	integral to membrane|lysosomal membrane				ovary(1)	1						CTGTGGTGTCGTGTACACGCT	0.502													29	88					0	0	0.002445	0	0		A	102302024	A	A	102302024	3	1	202	1	0	0	0	0	1	0	0	0	4759	1145	40	1	417	1	DRAM1	12	102302024	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1849513	102302024	31549871	480	99368											
HSP90B1	7184	broad.mit.edu	37	chr12	104337021	104337021	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatgaaagtgagaaaactaAggagagtcgtgaagcagttg	16	7	14	4	2	0	4	0	3	0	2	1	7	0	4	0	1	2	2	0	1	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:104337021A>C	uc001tkb.1	+	13	1919	c.1814A>C	c.(1813-1815)AAG>ACG	p.K605T	HSP90B1_uc010swg.1_Missense_Mutation_p.K270T|HSP90B1_uc009zui.1_Intron	NM_003299	NP_003290	P14625	ENPL_HUMAN	heat shock protein 90kDa beta, member 1	605					actin rod assembly|anti-apoptosis|cellular response to ATP|ER-associated protein catabolic process|protein folding|protein transport|regulation of phosphoprotein phosphatase activity|response to hypoxia|sequestering of calcium ion	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|melanosome|microsome|midbody|perinuclear region of cytoplasm	ATP binding|calcium ion binding|low-density lipoprotein particle receptor binding|protein phosphatase binding|RNA binding|unfolded protein binding|virion binding			ovary(2)|skin(1)	3					Rifabutin(DB00615)	GAGAAAACTAAGGAGAGTCGT	0.423													3	23					0	0	0.009096	0	0		C	104337021	C	C	104337021	3	2	202	1	0	0	0	0	1	0	0	0	7419	72	3	5	1864	5	HSP90B1	12	104337021	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2034997	104337021	29514874	481	99369											
KIAA1033	23325	broad.mit.edu	37	chr12	105514941	105514941	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accctggatgaaattattgaTaatcatatcacactgaaaga	17	11	6	7	0	2	4	2	3	0	1	2	5	2	5	1	1	0	0	1	1	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:105514941T>C	uc001tld.2	+	9	711	c.624T>C	c.(622-624)GAT>GAC	p.D208D	KIAA1033_uc010swr.1_Silent_p.D208D|KIAA1033_uc010sws.1_Silent_p.D20D	NM_015275	NP_056090	Q2M389	WAHS7_HUMAN	hypothetical protein LOC23325	208					endosome transport	WASH complex				kidney(1)|central_nervous_system(1)	2						AAATTATTGATAATCATATCA	0.313													4	26					0	0	0.001168	0	0		C	105514941	C	C	105514941	2	2	202	1	0	0	0	0	0	0	0	1	8222	1403	49	3		3	KIAA1033	12	105514941	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1177920	105514941	28336954	482	99370											
SART3	9733	broad.mit.edu	37	chr12	108926011	108926011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccaccttctgtcctctcCatggtgagtaacacttcgca	7	12	7	15	1	2	1	0	1	2	0	6	1	4	1	4	1	1	2	4	1	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:108926011C>T	uc001tmz.1	-	13	1891	c.1656G>A	c.(1654-1656)ATG>ATA	p.M552I	SART3_uc001tmy.1_Missense_Mutation_p.M78I|SART3_uc009zux.1_Missense_Mutation_p.M164I|SART3_uc010swx.1_Missense_Mutation_p.M516I|SART3_uc010swy.1_Missense_Mutation_p.M438I|SART3_uc010swz.1_Missense_Mutation_p.M552I|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	552					RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						CTGTCCTCTCCATGGTGAGTA	0.582									Porokeratosis				5	49					0	0	0.001168	0	0		T	108926011	T	T	108926011	3	4	202	1	0	0	0	0	1	0	0	0	13872	594	21	4	1263	4	SART3	12	108926011	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3411070	108926011	24925884	483	99371											
ANKRD13A	88455	broad.mit.edu	37	chr12	110475232	110475232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccctgagcgagacaagccGttttgataatgacttgcagc	10	9	11	11	3	0	4	0	3	0	1	0	5	0	4	2	0	4	2	2	0	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:110475232G>A	uc001tpx.2	+	15	1905	c.1646G>A	c.(1645-1647)CGT>CAT	p.R549H	ANKRD13A_uc010sxw.1_Missense_Mutation_p.R548H|ANKRD13A_uc001tpy.2_Missense_Mutation_p.R149H|ANKRD13A_uc001tpz.2_Missense_Mutation_p.R187H|ANKRD13A_uc001tqa.2_3'UTR	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13	549	UIM 2.										0						GAGACAAGCCGTTTTGATAAT	0.577													23	52					0	0	0.004656	0	0		A	110475232	A	A	110475232	3	1	202	1	0	0	0	0	1	0	0	0	641	1145	40	1	1704	1	ANKRD13A	12	110475232	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1549221	110475232	23376663	484	99372											
SIRT4	23409	broad.mit.edu	37	chr12	120741725	120741725	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaattctcctcccaccagCctaaccctgcacactgggct	8	9	5	19	0	2	0	1	0	1	0	4	0	3	0	5	1	3	2	5	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:120741725C>T	uc001tyc.2	+	2	381	c.361C>T	c.(361-363)CCT>TCT	p.P121S		NM_012240	NP_036372	Q9Y6E7	SIRT4_HUMAN	sirtuin 4	121	Deacetylase sirtuin-type.				chromatin silencing|negative regulation of insulin secretion|protein ADP-ribosylation|protein deacetylation	mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|protein binding|zinc ion binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTCCCACCAGCCTAACCCTGC	0.577													15	19					0	0	0.006122	0	0		T	120741725	T	T	120741725	3	4	202	1	0	0	0	0	1	0	0	0	14365	739	26	2	363	2	SIRT4	12	120741725	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	10266493	120741725	13110170	485	99373											
MLXIP	22877	broad.mit.edu	37	chr12	122613694	122613694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctgtcctaggccatcaccaCggaagggaagtactggaaga	12	6	12	11	1	1	1	1	0	0	1	2	4	2	4	4	4	1	1	4	4	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:122613694C>T	uc001ubq.2	+	4	617	c.617C>T	c.(616-618)ACG>ATG	p.T206M	MLXIP_uc001ubr.2_Translation_Start_Site|MLXIP_uc001ubs.1_5'Flank	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	206	Required for cytoplasmic localization.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		GCCATCACCACGGAAGGGAAG	0.507													6	14					0	0	0.001984	0	0		T	122613694	T	T	122613694	3	4	202	1	0	0	0	0	1	0	0	0	9654	536	19	1	631	1	MLXIP	12	122613694	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1871969	122613694	11238201	486	99374											
ARL6IP4	51329	broad.mit.edu	37	chr12	123466124	123466126	+	In_Frame_Del	DEL	CTT	-	-																															tcctggccttccagcctcacCttctccctgcatcacagaga																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:123466124_123466126delCTT	uc001ued.2	+	3	591_593	c.536_538delCTT	c.(535-540)CCTTCT>CCT	p.S180del	ARL6IP4_uc001uec.2_Intron|ARL6IP4_uc001uee.2_Intron|ARL6IP4_uc001uef.2_Intron|ARL6IP4_uc001ueg.2_Intron|ARL6IP4_uc009zxt.2_In_Frame_Del_p.S46del|ARL6IP4_uc001ueh.2_Intron|ARL6IP4_uc001uei.2_Intron	NM_018694	NP_061164	Q66PJ3	AR6P4_HUMAN	SRp25 nuclear protein isoform 1	180	Ser-rich.				RNA splicing	nucleus					0	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)		CCAGCCTCACCTTCTCCCTGCAT	0.483													6	5	---	---	---	---						.	-	123466126	-	-	123466124	7	5	202	1	0	1	0	1	0	0	0	0	944	681	24	0	546	0	ARL6IP4	12	123466124	In_Frame_Del	DEL	CTT	TCGA-HJ-7597-01A-21D-2201-08	852430	123466124	10385771	487	99375											
PITPNM2	57605	broad.mit.edu	37	chr12	123497265	123497265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgatggagaatttctccaCgaaaggacaggtgaacctgt	12	9	12	8	2	1	2	0	1	1	1	3	6	1	3	2	3	1	0	2	3	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:123497265C>T	uc001uej.1	-	4	449	c.310G>A	c.(310-312)GTG>ATG	p.V104M	PITPNM2_uc001uek.1_Missense_Mutation_p.V104M|PITPNM2_uc009zxu.1_Missense_Mutation_p.V104M|hsa-mir-4304|MI0015832_5'Flank	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	104					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	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)		AATTTCTCCACGAAAGGACAG	0.517													9	114					0	0	0.008291	0	0		T	123497265	T	T	123497265	3	4	202	1	0	0	0	0	1	0	0	0	11970	536	19	1	3827	1	PITPNM2	12	123497265	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	31141	123497265	10354630	488	99376											
RILPL1	353116	broad.mit.edu	37	chr12	123970232	123970232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaacaccttggacttgagctCgttcctctcgtgcagcacgt	7	11	10	13	3	1	1	0	1	1	0	4	3	2	2	2	1	4	4	2	1	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:123970232C>T	uc001ufe.2	-	5	1158	c.922G>A	c.(922-924)GAG>AAG	p.E308K	RILPL1_uc001ufd.2_Missense_Mutation_p.E157K|RILPL1_uc010tas.1_Missense_Mutation_p.E308K	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1	308	RILP-like.				neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		GACTTGAGCTCGTTCCTCTCG	0.612													12	29					0	0	0.001855	0	0		T	123970232	T	T	123970232	3	4	202	1	0	0	0	0	1	0	0	0	13386	893	31	1	301	1	RILPL1	12	123970232	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	472967	123970232	9881663	489	99377											
DNAH10	196385	broad.mit.edu	37	chr12	124358132	124358132	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatggtcaacttctcctccCgcaccacgtccatggatatc	9	11	6	15	2	2	0	1	0	1	0	6	1	4	1	4	2	1	1	4	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:124358132C>A	uc001uft.3	+	45	7484	c.7459C>A	c.(7459-7461)CGC>AGC	p.R2487S		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2487	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		CTTCTCCTCCCGCACCACGTC	0.448													3	19					0.00909568	0.00923394	0.009096	1	0		A	124358132	A	A	124358132	3	1	202	1	0	0	0	0	1	0	0	0	4604	652	23	5	7637	5	DNAH10	12	124358132	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	387900	124358132	9493763	490	99378											
DNAH10	196385	broad.mit.edu	37	chr12	124413925	124413925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcaccctgccttcaagcCgctggtctacgtgctggcgt	4	9	11	17	4	2	0	1	0	1	0	2	0	2	0	4	2	4	3	4	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:124413925C>T	uc001uft.3	+	70	12081	c.12056C>T	c.(12055-12057)CCG>CTG	p.P4019L	DNAH10_uc001ufu.3_5'UTR	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	4019	AAA 6 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GCCTTCAAGCCGCTGGTCTAC	0.527													4	10					0	0	0.009096	0	0		T	124413925	T	T	124413925	3	4	202	1	0	0	0	0	1	0	0	0	4604	652	23	1	12334	1	DNAH10	12	124413925	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	55793	124413925	9437970	491	99379											
DNAH10	196385	broad.mit.edu	37	chr12	124414289	124414289	+	Missense_Mutation	SNP	A	G	G	1	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	ggatcccgtggggcagcctcAagtacctaattggagaggta	10	8	14	9	1	1	1	1	0	0	1	2	3	2	2	3	5	2	3	3	5	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:124414289A>G	uc001uft.3	+	71	12266	c.12241A>G	c.(12241-12243)AAG>GAG	p.K4081E	DNAH10_uc001ufu.3_5'UTR	NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	4081	TPR 5.				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GGGCAGCCTCAAGTACCTAAT	0.562													8	13					0	0	0.006214	0	0		G	124414289	G	G	124414289	3	3	202	1	0	0	0	0	1	0	0	0	4604	131	5	3	12523	3	DNAH10	12	124414289	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	364	124414289	9437606	492	99380											
NCOR2	9612	broad.mit.edu	37	chr12	124862900	124862900	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggccgccgccggcgctttctTcttcttcctccgcgcgttcc	0	12	10	19	7	3	0	0	0	3	0	6	0	6	0	6	2	0	2	6	2	0	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:124862900T>C	uc010tba.1	-	18	2167	c.2050A>G	c.(2050-2052)AAG>GAG	p.K684E	NCOR2_uc010tay.1_Missense_Mutation_p.K684E|NCOR2_uc010taz.1_Missense_Mutation_p.K684E|NCOR2_uc010tbb.1_Missense_Mutation_p.K684E|NCOR2_uc010tbc.1_Missense_Mutation_p.K683E|NCOR2_uc001ugj.1_Missense_Mutation_p.K684E	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	684	Poly-Lys.				cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GGCGCTTTCTTCTTCTTCCTC	0.662													6	16					0	0	0.00308	0	0		C	124862900	C	C	124862900	3	2	202	1	0	0	0	0	1	0	0	0	10255	1792	62	3	5638	3	NCOR2	12	124862900	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	448611	124862900	8988995	493	99381											
NCOR2	9612	broad.mit.edu	37	chr12	124911228	124911228	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcatgacctggcggtctttgTacaccttcatggggtcggcc	5	12	12	12	2	3	1	2	1	1	0	4	1	3	1	3	5	1	1	3	5	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:124911228T>C	uc010tba.1	-	11	1385	c.1268A>G	c.(1267-1269)TAC>TGC	p.Y423C	NCOR2_uc010tay.1_Missense_Mutation_p.Y423C|NCOR2_uc010taz.1_Missense_Mutation_p.Y423C|NCOR2_uc010tbb.1_Missense_Mutation_p.Y423C|NCOR2_uc010tbc.1_Missense_Mutation_p.Y422C|NCOR2_uc001ugj.1_Missense_Mutation_p.Y423C|NCOR2_uc001ugk.1_Missense_Mutation_p.Y423C	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	423					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GCGGTCTTTGTACACCTTCAT	0.607													13	40					0	0	0.001855	0	0		C	124911228	C	C	124911228	3	2	202	1	0	0	0	0	1	0	0	0	10255	1638	57	3	6448	3	NCOR2	12	124911228	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	48328	124911228	8940667	494	99382											
EP400	57634	broad.mit.edu	37	chr12	132514266	132514266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtggcctttgtgattcctcCggtggtggcagcacccccgt	3	11	14	13	2	0	1	0	1	0	0	2	1	2	1	5	5	1	2	5	5	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr12:132514266C>T	uc001ujn.2	+	27	5437	c.5402C>T	c.(5401-5403)CCG>CTG	p.P1801L	EP400_uc001ujl.2_Missense_Mutation_p.P1800L|EP400_uc001ujm.2_Missense_Mutation_p.P1720L|SNORA49_uc001ujo.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1837					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		GTGATTCCTCCGGTGGTGGCA	0.632													22	52					0	0	0.005443	0	0		T	132514266	T	T	132514266	3	4	202	1	0	0	0	0	1	0	0	0	5157	652	23	1	5505	1	EP400	12	132514266	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7603038	132514266	1337629	495	99383											
TPTE2	93492	broad.mit.edu	37	chr13	20056687	20056687	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaaagtcgttctaacatActttagccaccaaaaaaaaa	18	10	5	8	1	1	0	0	0	1	0	2	1	1	1	2	1	3	1	2	1	8	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:20056687A>T	uc001umd.2	-	5	331	c.120T>A	c.(118-120)AGT>AGA	p.S40R	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.S40R|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	40						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		GTTCTAACATACTTTAGCCAC	0.313													3	20					0	0	0.004672	0	0		T	20056687	T	T	20056687	3	4	202	1	0	0	0	0	1	0	0	0	16457	405	14	5	1516	5	TPTE2	13	20056687	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08		20056687	95113191	496	99384											
FLT1	2321	broad.mit.edu	37	chr13	28877424	28877424	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgcttgccttcgctgacGtgcccacagctggaatggca	6	9	12	14	3	0	1	0	1	0	0	1	2	0	2	2	2	4	4	2	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:28877424G>A	uc001usb.3	-	30	4182	c.3897C>T	c.(3895-3897)CAC>CAT	p.H1299H	FLT1_uc010aap.2_Silent_p.H304H|FLT1_uc010aaq.2_Silent_p.H424H|FLT1_uc001usa.3_Silent_p.H517H	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	1299	Cytoplasmic (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	CTTCGCTGACGTGCCCACAGC	0.552													26	68					0	0	0.002096	0	0		A	28877424	A	A	28877424	2	1	202	1	0	0	0	0	0	0	0	1	5955	1136	40	1		1	FLT1	13	28877424	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8820737	28877424	86292454	497	99385											
KBTBD6	89890	broad.mit.edu	37	chr13	41705366	41705366	+	Missense_Mutation	SNP	T	C	C	0	1	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	attgagatatgccacatccaTgccctcacgacacagcaagc	13	7	7	14	1	1	1	1	1	0	1	2	3	2	1	3	0	4	1	3	0	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:41705366T>C	uc001uxu.1	-	1	1571	c.1282A>G	c.(1282-1284)ATG>GTG	p.M428V	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.M362V|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	428	Kelch 1.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		GCCACATCCATGCCCTCACGA	0.478													10	105					0	0	0.008291	0	0		C	41705366	C	C	41705366	3	2	202	1	0	0	0	0	1	0	0	0	8013	1464	51	3	746	3	KBTBD6	13	41705366	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	12827942	41705366	73464512	498	99386											
RCBTB2	1102	broad.mit.edu	37	chr13	49089783	49089783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccaaagacacaagcctgaCgaattaactgtagttcttct	13	11	7	10	1	2	2	0	1	2	1	2	3	2	2	2	0	3	2	2	0	5	4	rs146429069		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:49089783C>T	uc001vch.2	-	5	508	c.137G>A	c.(136-138)CGT>CAT	p.R46H	RCBTB2_uc010tgg.1_Missense_Mutation_p.R51H|RCBTB2_uc001vci.2_Missense_Mutation_p.R22H|RCBTB2_uc010tgh.1_5'UTR|RCBTB2_uc001vcj.2_Missense_Mutation_p.R50H|RCBTB2_uc010acv.1_RNA|RCBTB2_uc010tgi.1_Missense_Mutation_p.R22H	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	46							Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		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)		ACAAGCCTGACGAATTAACTG	0.368													11	38					0	0	0.001368	0	0		T	49089783	T	T	49089783	3	4	202	1	0	0	0	0	1	0	0	0	13197	536	19	1	1562	1	RCBTB2	13	49089783	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7384417	49089783	66080095	499	99387											
LMO7	4008	broad.mit.edu	37	chr13	76397791	76397791	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccctgcaccaagcccggacGcaagccaactggcttcaagc	10	4	9	18	2	1	0	1	0	0	0	1	1	1	1	5	2	5	3	5	2	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:76397791G>A	uc001vjv.2	+	12	2792	c.2032G>A	c.(2032-2034)GCA>ACA	p.A678T	LMO7_uc010thv.1_Missense_Mutation_p.A629T|LMO7_uc001vjt.1_Missense_Mutation_p.A577T|LMO7_uc010thw.1_Missense_Mutation_p.A528T|LMO7_uc001vjw.1_Missense_Mutation_p.A584T	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	963						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		AAGCCCGGACGCAAGCCAACT	0.473													21	65					0	0	0.00278	0	0		A	76397791	A	A	76397791	3	1	202	1	0	0	0	0	1	0	0	0	8872	1087	38	1	2949	1	LMO7	13	76397791	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	27308008	76397791	38772087	500	99388											
FBXL3	26224	broad.mit.edu	37	chr13	77581488	77581488	+	Frame_Shift_Del	DEL	T	-	-																															ctagtccaatagctgacaaaTttttgcaacgttctgcaatg																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:77581488delT	uc001vkd.2	-	5	1450	c.1079delA	c.(1078-1080)AATfs	p.N360fs		NM_012158	NP_036290	Q9UKT7	FBXL3_HUMAN	F-box and leucine-rich repeat protein 3	360	LRR 6.				regulation of circadian rhythm|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.218)		GBM - Glioblastoma multiforme(99;0.0521)		AGCTGACAAATTTTTGCAACG	0.433													16	32	---	---	---	---						.	-	77581488	-	-	77581488	7	5	202	1	0	1	0	1	0	0	0	0	5734	1493	52	0	211	0	FBXL3	13	77581488	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08	1183697	77581488	37588390	501	99389											
ERCC5	2073	broad.mit.edu	37	chr13	103459886	103459886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaactccaaatccatcccGctctccttgcctccctgata	10	11	3	17	1	1	1	0	1	1	0	6	1	5	1	6	0	2	1	6	0	4	3	rs145982160		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:103459886G>A	uc001vpu.1	+	1	391	c.269G>A	c.(268-270)CGC>CAC	p.R90H	BIVM_uc001vps.2_Missense_Mutation_p.R90H|BIVM_uc010agc.2_Intron|BIVM_uc001vpt.2_Missense_Mutation_p.R90H	NM_000123	NP_000114	P28715	ERCC5_HUMAN	XPG-complementing protein	127					negative regulation of apoptosis|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|response to UV-C|transcription-coupled nucleotide-excision repair|UV protection	nucleoplasm	bubble DNA binding|double-stranded DNA binding|endodeoxyribonuclease activity|metal ion binding|protein homodimerization activity|protein N-terminus binding|single-stranded DNA binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					AATCCATCCCGCTCTCCTTGC	0.418			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				19	48					0	0	0.010504	0	0		A	103459886	A	A	103459886	3	1	202	1	0	0	0	0	1	0	0	0	5224	1087	38	1		1	ERCC5	13	103459886	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	25878398	103459886	11709992	502	99390											
LIG4	3981	broad.mit.edu	37	chr13	108862197	108862197	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcattccaccccgtgatcCtttaccccaatatcctccaa	10	11	2	18	1	1	1	1	1	0	0	5	1	5	1	8	0	1	0	8	0	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:108862197C>A	uc001vqn.2	-	2	1693	c.1420G>T	c.(1420-1422)GGA>TGA	p.G474*	LIG4_uc001vqo.2_Nonsense_Mutation_p.G474*|LIG4_uc010agg.1_Nonsense_Mutation_p.G407*|LIG4_uc010agf.2_Nonsense_Mutation_p.G474*|LIG4_uc001vqp.2_Nonsense_Mutation_p.G474*	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	474					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CCCCGTGATCCTTTACCCCAA	0.438								NHEJ					42	127					1.6237e-14	1.75509e-14	0.003214	1	0		A	108862197	A	A	108862197	4	1	202	1	0	0	0	0	0	1	0	0	8799	690	24	5	1319	5	LIG4	13	108862197	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5402311	108862197	6307681	503	99391											
SOX1	6656	broad.mit.edu	37	chr13	112722294	112722294	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgacgaggccaagcggctgCgcgcgctgcacatgaaggag	9	4	16	12	6	0	1	0	1	0	0	1	4	0	2	1	3	3	3	1	3	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:112722294C>T	uc001vsb.1	+	1	382	c.322C>T	c.(322-324)CGC>TGC	p.R108C		NM_005986	NP_005977	O00570	SOX1_HUMAN	SRY (sex determining region Y)-box 1	108	HMG box.				chromatin organization	nucleus	core promoter sequence-specific DNA binding|protein binding|sequence-specific DNA binding transcription factor activity				0	all_lung(23;0.000652)|Lung NSC(43;0.017)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	all_cancers(25;0.000331)|Lung NSC(25;0.0496)|all_lung(25;0.0831)|all_epithelial(44;0.0868)|Breast(118;0.231)		OV - Ovarian serous cystadenocarcinoma(48;0.132)		CAAGCGGCTGCGCGCGCTGCA	0.587													8	25					0	0	0.004482	0	0		T	112722294	T	T	112722294	3	4	202	1	0	0	0	0	1	0	0	0	14965	768	27	1	324	1	SOX1	13	112722294	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3860097	112722294	2447584	504	99392											
GAS6	2621	broad.mit.edu	37	chr13	114535425	114535425	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagaggaggatgccctcGgggtcaaaggtccggaagtc	11	5	16	9	2	1	1	1	0	0	1	4	4	2	4	2	6	1	1	2	6	3	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr13:114535425G>A	uc001vud.2	-	10	1143	c.990C>T	c.(988-990)CCC>CCT	p.P330P	GAS6_uc001vug.2_Silent_p.P31P|GAS6_uc001vuf.2_Silent_p.P57P	NM_000820	NP_000811	Q14393	GAS6_HUMAN	growth arrest-specific 6 isoform 1 precursor	373	Laminin G-like 1.				cell proliferation|leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|post-translational protein modification|proteolysis|regulation of growth	endoplasmic reticulum lumen|extracellular space|Golgi lumen|platelet alpha granule lumen	calcium ion binding|receptor agonist activity			central_nervous_system(4)	4	Lung NSC(43;0.00976)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0176)|all_epithelial(44;0.0104)|all_lung(25;0.0249)|Lung NSC(25;0.0908)|Breast(118;0.188)				GGATGCCCTCGGGGTCAAAGG	0.652													13	56					0	0	0.00245	0	0		A	114535425	A	A	114535425	2	1	202	1	0	0	0	0	0	0	0	1	6264	1103	39	1		1	GAS6	13	114535425	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1813131	114535425	634453	505	99393											
RNASE10	338879	broad.mit.edu	37	chr14	20978638	20978638	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctctccaggcaaaatgaagcTgaatctggtgcagatctttt	11	12	9	9	0	3	3	0	2	3	1	4	3	3	3	1	2	2	3	1	2	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:20978638T>C	uc010tlj.1	+	1	8	c.8T>C	c.(7-9)CTG>CCG	p.L3P	RNASE10_uc001vxp.2_Missense_Mutation_p.L31P	NM_001012975	NP_001012993	Q5GAN6	RNS10_HUMAN	ribonuclease, RNase A family, 10 (non-active)	3						extracellular region	nucleic acid binding|pancreatic ribonuclease activity				0	all_cancers(95;0.00123)		Epithelial(56;1.81e-07)|all cancers(55;1.86e-06)	GBM - Glioblastoma multiforme(265;0.022)|READ - Rectum adenocarcinoma(17;0.191)		AAAATGAAGCTGAATCTGGTG	0.343													5	73					0	0	0.001168	0	0		C	20978638	C	C	20978638	3	2	202	1	0	0	0	0	1	0	0	0	13425	1580	55	3	10	3	RNASE10	14	20978638	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08		20978638	86370902	506	99394											
FLJ10357	55701	broad.mit.edu	37	chr14	21542131	21542131	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttccatgaggggtggcCgctctgcctgcatgaacagg	6	10	13	12	1	2	2	0	2	2	0	3	2	3	2	3	4	3	2	3	4	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:21542131C>T	uc001vzp.2	+	3	271	c.242C>T	c.(241-243)CCG>CTG	p.P81L	FLJ10357_uc001vzn.1_Missense_Mutation_p.P81L|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_5'UTR	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	81					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		GAGGGGTGGCCGCTCTGCCTG	0.617													22	79					0	0	0.005443	0	0		T	21542131	T	T	21542131	3	4	202	1	0	0	0	0	1	0	0	0	5940	652	23	1	252	1	FLJ10357	14	21542131	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	563493	21542131	85807409	507	99395											
CHD8	57680	broad.mit.edu	37	chr14	21897334	21897334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctggatagttactaccttgGcaggctgcccttgggcattc	6	12	12	11	0	0	0	0	0	0	0	1	1	0	1	2	4	3	5	2	4	3	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:21897334G>A	uc001was.1	-	3	261	c.167C>T	c.(166-168)GCC>GTC	p.A56V	CHD8_uc001war.1_5'UTR	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	335	Gln-rich.				ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TACTACCTTGGCAGGCTGCCC	0.562													4	60					0	0	0.001168	0	0		A	21897334	A	A	21897334	3	1	202	1	0	0	0	0	1	0	0	0	3334	1203	42	2	6885	2	CHD8	14	21897334	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	355203	21897334	85452206	508	99396											
TGM1	7051	broad.mit.edu	37	chr14	24730998	24730998	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggcgcactatcagctcGtcgtactcatactcgtctgt	6	11	9	15	6	3	0	2	0	1	0	6	0	3	0	1	1	3	3	1	1	3	3	rs145002586	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:24730998G>A	uc001wod.2	-	3	535	c.411C>T	c.(409-411)GAC>GAT	p.D137D	TGM1_uc010tog.1_Intron	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	137					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	CTATCAGCTCGTCGTACTCAT	0.577													46	91					0	0	0.00361	0	0		A	24730998	A	A	24730998	2	1	202	1	0	0	0	0	0	0	0	1	15854	1136	40	1		1	TGM1	14	24730998	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2833664	24730998	82618542	509	99397											
DHRS1	115817	broad.mit.edu	37	chr14	24760357	24760357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctcaccgtccacatcccGaaggccatagcgtcgagcaa	10	6	9	16	4	1	0	1	0	0	0	5	2	4	0	5	1	2	1	5	1	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:24760357G>A	uc001woj.1	-	8	1062	c.793C>T	c.(793-795)CGG>TGG	p.R265W	DHRS1_uc010aln.1_RNA|DHRS1_uc001wok.2_Missense_Mutation_p.R265W	NM_138452	NP_612461	Q96LJ7	DHRS1_HUMAN	dehydrogenase/reductase (SDR family) member 1	265						endoplasmic reticulum	binding|oxidoreductase activity				0				GBM - Glioblastoma multiforme(265;2.81e-08)|OV - Ovarian serous cystadenocarcinoma(311;0.0442)		TCCACATCCCGAAGGCCATAG	0.607													16	45					0	0	0.006122	0	0		A	24760357	A	A	24760357	3	1	202	1	0	0	0	0	1	0	0	0	4492	1057	37	1	156	1	DHRS1	14	24760357	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	29359	24760357	82589183	510	99398											
ARHGAP5	394	broad.mit.edu	37	chr14	32560445	32560445	+	Frame_Shift_Del	DEL	A	-	-																															tttgtccagttatcaaaatcAaaaaaacctgtaataatagc																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:32560445delA	uc001wrl.2	+	2	809	c.570delA	c.(568-570)TCAfs	p.S190fs	ARHGAP5_uc001wrm.2_Frame_Shift_Del_p.S190fs|ARHGAP5_uc001wrn.2_Frame_Shift_Del_p.S190fs|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	190					cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		TATCAAAATCAAAAAAACCTG	0.308													7	10	---	---	---	---						.	-	32560445	-	-	32560445	7	5	202	1	0	1	0	1	0	0	0	0	886	117	5	0	572	0	ARHGAP5	14	32560445	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	7800088	32560445	74789095	511	99399											
BAZ1A	11177	broad.mit.edu	37	chr14	35272177	35272177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgttctgctattttataCgttgaaagagatgatgcctt	9	18	8	6	1	2	3	0	2	2	1	2	4	2	3	1	0	3	3	1	0	4	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:35272177C>T	uc001wsk.2	-	7	1312	c.744G>A	c.(742-744)ACG>ACA	p.T248T	BAZ1A_uc001wsl.2_Silent_p.T248T|BAZ1A_uc001wsm.1_Silent_p.T248T	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	248					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		CTATTTTATACGTTGAAAGAG	0.373													11	21					0	0	0.001368	0	0		T	35272177	T	T	35272177	2	4	202	1	0	0	0	0	0	0	0	1	1330	523	19	1		1	BAZ1A	14	35272177	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2711732	35272177	72077363	512	99400											
RPL10L	140801	broad.mit.edu	37	chr14	47120831	47120831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacttttgccttctttctacCcaggtcaaagatgcggatct	8	14	7	12	1	4	1	1	0	3	1	4	2	4	2	2	2	3	0	2	2	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:47120831C>T	uc001wwg.2	-	1	198	c.109G>A	c.(109-111)GGT>AGT	p.G37S		NM_080746	NP_542784	Q96L21	RL10L_HUMAN	ribosomal protein L10-like protein	37					spermatogenesis|translation	cytosolic large ribosomal subunit|nucleus	structural constituent of ribosome			ovary(1)	1						TTCTTTCTACCCAGGTCAAAG	0.532													28	61					0	0	0.002096	0	0		T	47120831	T	T	47120831	3	4	202	1	0	0	0	0	1	0	0	0	13581	623	22	4	539	4	RPL10L	14	47120831	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	11848654	47120831	60228709	513	99401											
TRMT5	57570	broad.mit.edu	37	chr14	61446529	61446529	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccaagctactggaatcaaCgattttgattcagttatgct	11	14	8	8	1	2	1	2	1	0	0	3	3	3	2	1	1	4	3	1	1	5	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:61446529C>T	uc001xff.3	-	2	178	c.87G>A	c.(85-87)TCG>TCA	p.S29S	SLC38A6_uc001xfg.1_5'Flank|SLC38A6_uc001xfh.1_5'Flank|SLC38A6_uc001xfi.2_5'Flank|SLC38A6_uc001xfj.1_5'Flank|SLC38A6_uc001xfk.2_5'Flank|SLC38A6_uc010trz.1_5'Flank	NM_020810	NP_065861	Q32P41	TRMT5_HUMAN	tRNA methyltransferase 5	29						cytoplasm	tRNA (guanine-N1-)-methyltransferase activity			central_nervous_system(2)|large_intestine(1)	3				OV - Ovarian serous cystadenocarcinoma(108;0.0873)		CTGGAATCAACGATTTTGATT	0.363													4	36					0	0	0.001168	0	0		T	61446529	T	T	61446529	2	4	202	1	0	0	0	0	0	0	0	1	16593	523	19	1		1	TRMT5	14	61446529	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	14325698	61446529	45903011	514	99402											
SYT16	83851	broad.mit.edu	37	chr14	62551036	62551036	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctcgtacaatgccacaacGgggcgattatctgtggaaat	11	10	10	10	3	2	0	0	0	2	0	3	2	2	1	1	3	3	1	1	3	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:62551036G>A	uc001xfu.1	+	5	1754	c.1557G>A	c.(1555-1557)ACG>ACA	p.T519T	SYT16_uc010tse.1_Silent_p.T77T	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	519	C2 2.									central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		ATGCCACAACGGGGCGATTAT	0.537													14	41					0	0	0.004007	0	0		A	62551036	A	A	62551036	2	1	202	1	0	0	0	0	0	0	0	1	15497	1103	39	1		1	SYT16	14	62551036	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1104507	62551036	44798504	515	99403											
SYNE2	23224	broad.mit.edu	37	chr14	64688370	64688370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaggcagaaggctcatgtcaCcgatccaaaggcagaccccc	12	4	11	14	1	2	2	2	0	0	2	3	4	3	2	4	3	0	3	4	3	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:64688370C>T	uc001xgm.2	+	111	20299	c.20069C>T	c.(20068-20070)ACC>ATC	p.T6690I	SYNE2_uc001xgl.2_Missense_Mutation_p.T6713I|SYNE2_uc010apy.2_Missense_Mutation_p.T3075I|SYNE2_uc001xgn.2_Missense_Mutation_p.T1652I|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.T660I|SYNE2_uc001xgq.2_Missense_Mutation_p.T1069I|SYNE2_uc001xgr.2_Missense_Mutation_p.T473I|SYNE2_uc010tsi.1_Missense_Mutation_p.T347I|SYNE2_uc001xgs.2_Missense_Mutation_p.T361I|SYNE2_uc001xgt.2_Missense_Mutation_p.T235I	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6690	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		GCTCATGTCACCGATCCAAAG	0.542													18	98					0	0	0.001882	0	0		T	64688370	T	T	64688370	3	4	202	1	0	0	0	0	1	0	0	0	15471	507	18	4	20622	4	SYNE2	14	64688370	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2137334	64688370	42661170	516	99404											
ESR2	2100	broad.mit.edu	37	chr14	64727249	64727249	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatcatcatggaggcctcGgtgaagggcgcactggggcg	8	6	17	10	3	2	1	2	1	0	0	3	3	2	2	1	6	0	1	1	6	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:64727249G>A	uc001xha.1	-	5	1338	c.870C>T	c.(868-870)ACC>ACT	p.T290T	ESR2_uc001xgu.2_Silent_p.T290T|ESR2_uc001xgv.2_Silent_p.T290T|ESR2_uc001xgw.2_RNA|ESR2_uc001xgx.2_Silent_p.T290T|ESR2_uc001xgy.1_Silent_p.T290T|ESR2_uc001xgz.1_Silent_p.T290T|ESR2_uc010aqb.1_RNA|ESR2_uc010aqc.1_Silent_p.T290T|ESR2_uc010aqd.1_RNA	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1	290	Steroid-binding.				cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	TGGAGGCCTCGGTGAAGGGCG	0.617													34	76					0	0	0.005524	0	0		A	64727249	A	A	64727249	2	1	202	1	0	0	0	0	0	0	0	1	5265	1103	39	1		1	ESR2	14	64727249	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	38879	64727249	42622291	517	99405											
RDH11	51109	broad.mit.edu	37	chr14	68157059	68157059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccttcccaggtgatgtgcGagggaagacacatttactat	11	11	10	9	1	0	2	0	1	0	1	2	4	2	3	2	2	2	0	2	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:68157059G>A	uc001xjv.3	-	5	624	c.534C>T	c.(532-534)CTC>CTT	p.L178L	RDH11_uc001xjw.3_Silent_p.L165L|RDH11_uc001xjx.3_Intron	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	178	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	GGTGATGTGCGAGGGAAGACA	0.478													10	71					0	0	0.008291	0	0		A	68157059	A	A	68157059	2	1	202	1	0	0	0	0	0	0	0	1	13215	1045	37	1		1	RDH11	14	68157059	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3429810	68157059	39192481	518	99406											
DCAF5	8816	broad.mit.edu	37	chr14	69522046	69522046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagtcagtgtagcctgagcGctcgctgaccccagcgtgca	7	8	13	13	3	1	3	1	3	0	0	2	3	1	3	3	0	4	4	3	0	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:69522046G>A	uc001xkp.2	-	9	1576	c.1357C>T	c.(1357-1359)CGC>TGC	p.R453C	DCAF5_uc001xkq.2_Missense_Mutation_p.R452C	NM_003861	NP_003852	Q96JK2	DCAF5_HUMAN	WD repeat domain 22	453						CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)	2						TAGCCTGAGCGCTCGCTGACC	0.607													9	31					0	0	0.008291	0	0		A	69522046	A	A	69522046	3	1	202	1	0	0	0	0	1	0	0	0	4276	1087	38	1	1475	1	DCAF5	14	69522046	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1364987	69522046	37827494	519	99407											
EXD2	55218	broad.mit.edu	37	chr14	69704633	69704633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggagatgcttcaagaggctgCcagcctggagaccaggtaca	11	6	14	10	0	1	3	1	0	0	3	1	5	1	3	3	4	4	3	3	4	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:69704633C>T	uc001xkt.2	+	10	1918	c.1259C>T	c.(1258-1260)GCC>GTC	p.A420V	EXD2_uc001xku.2_Missense_Mutation_p.A290V|EXD2_uc001xkv.2_Missense_Mutation_p.A545V|EXD2_uc001xkw.2_Missense_Mutation_p.A420V|EXD2_uc010aqt.2_Missense_Mutation_p.A545V|EXD2_uc010tte.1_Missense_Mutation_p.A545V|EXD2_uc001xky.2_Missense_Mutation_p.A420V	NM_018199	NP_060669	Q9NVH0	EXD2_HUMAN	exonuclease 3'-5' domain containing 2	420					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						CAAGAGGCTGCCAGCCTGGAG	0.527													5	24					0	0	0.000602	0	0		T	69704633	T	T	69704633	3	4	202	1	0	0	0	0	1	0	0	0	5306	739	26	2	1281	2	EXD2	14	69704633	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	182587	69704633	37644907	520	99408											
GALNTL1	57452	broad.mit.edu	37	chr14	69795188	69795188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgatccggtcccgagtgcGtggggcggacgtggctgcag	4	7	19	11	5	0	1	0	1	0	0	2	3	2	2	2	5	2	3	2	5	0	0	rs61748871	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:69795188G>A	uc010aqu.1	+	6	683	c.590G>A	c.(589-591)CGT>CAT	p.R197H	GALNTL1_uc001xla.1_Missense_Mutation_p.R197H|GALNTL1_uc001xlb.1_Missense_Mutation_p.R197H	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	197	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		TCCCGAGTGCGTGGGGCGGAC	0.632													24	131					0	0	0.009535	0	0		A	69795188	A	A	69795188	3	1	202	1	0	0	0	0	1	0	0	0	6236	1145	40	1	612	1	GALNTL1	14	69795188	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	90555	69795188	37554352	521	99409											
PCNX	22990	broad.mit.edu	37	chr14	71500186	71500186	+	Frame_Shift_Del	DEL	T	-	-																															tattccagtacttttctccaTtttttgtggtttattagtgg																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:71500186delT	uc001xmo.2	+	17	4045	c.3599delT	c.(3598-3600)ATTfs	p.I1200fs	PCNX_uc010are.1_Frame_Shift_Del_p.I1089fs|PCNX_uc010arf.1_Frame_Shift_Del_p.I60fs	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1200	Helical; (Potential).					integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		CTTTTCTCCATTTTTTGTGGT	0.338													16	36	---	---	---	---						.	-	71500186	-	-	71500186	7	5	202	1	0	1	0	1	0	0	0	0	11610	1493	52	0	3665	0	PCNX	14	71500186	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08	1704998	71500186	35849354	522	99410											
PAPLN	89932	broad.mit.edu	37	chr14	73717688	73717688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcggtgtgggggtgacggcaCgacctgctaccccgtcgcag	5	6	17	13	5	0	1	0	1	0	0	1	2	0	1	3	4	2	3	3	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:73717688C>T	uc010ttx.1	+	6	702	c.539C>T	c.(538-540)ACG>ATG	p.T180M	PAPLN_uc001xnw.3_Missense_Mutation_p.T180M|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.T180M	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	180						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		GGTGACGGCACGACCTGCTAC	0.642													12	84					0	0	0.00245	0	0		T	73717688	T	T	73717688	3	4	202	1	0	0	0	0	1	0	0	0	11447	536	19	1	561	1	PAPLN	14	73717688	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2217502	73717688	33631852	523	99411											
C14orf43	91748	broad.mit.edu	37	chr14	74189532	74189532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtagaactccacgcactgggCcacggtcttggtctggatct	7	10	12	12	2	3	1	0	0	3	1	4	2	4	2	2	4	1	2	2	4	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:74189532C>T	uc001xot.2	-	10	3376	c.2593G>A	c.(2593-2595)GCC>ACC	p.A865T	C14orf43_uc001xos.2_Missense_Mutation_p.A130T|C14orf43_uc001xou.2_Missense_Mutation_p.A865T|C14orf43_uc010tud.1_Missense_Mutation_p.A865T|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	865	SANT.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		ACGCACTGGGCCACGGTCTTG	0.527													18	127					0	0	0.001882	0	0		T	74189532	T	T	74189532	3	4	202	1	0	0	0	0	1	0	0	0	1777	739	26	2	556	2	C14orf43	14	74189532	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	471844	74189532	33160008	524	99412											
ABCD4	5826	broad.mit.edu	37	chr14	74756786	74756786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggcaggaatagcacccCatggggcccaaagtccgtca	10	7	12	12	1	1	0	1	0	0	0	2	1	2	1	4	4	1	2	4	4	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:74756786C>T	uc001xpr.2	-	13	1515	c.1363G>A	c.(1363-1365)GGG>AGG	p.G455R	ABCD4_uc001xps.2_Missense_Mutation_p.G296R|ABCD4_uc001xpt.2_Missense_Mutation_p.G296R|ABCD4_uc010tur.1_Missense_Mutation_p.G351R	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	455	ABC transporter.					ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		AATAGCACCCCATGGGGCCCA	0.587											OREG0022800	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	51					0	0	0.001984	0	0		T	74756786	T	T	74756786	3	4	202	1	0	0	0	0	1	0	0	0	63	594	21	4	485	4	ABCD4	14	74756786	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	567254	74756786	32592754	525	99413											
NGB	58157	broad.mit.edu	37	chr14	77737252	77737252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgcccgccagctctgcCggatcagctcgggctccggg	4	7	13	17	4	3	0	2	0	1	0	5	1	4	1	4	3	4	3	4	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:77737252C>T	uc001xtg.1	-	1	404	c.29G>A	c.(28-30)CGG>CAG	p.R10Q		NM_021257	NP_067080	Q9NPG2	NGB_HUMAN	neuroglobin	10	Globin.					hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0273)		CCAGCTCTGCCGGATCAGCTC	0.751													5	12					0	0	0.001984	0	0		T	77737252	T	T	77737252	3	4	202	1	0	0	0	0	1	0	0	0	10411	652	23	1	442	1	NGB	14	77737252	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2980466	77737252	29612288	526	99414											
TSHR	7253	broad.mit.edu	37	chr14	81610125	81610125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctgcctgcccatggacaccGagacccctcttgctctggca	6	9	9	17	1	3	1	0	0	3	1	3	3	3	2	5	2	3	2	5	2	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:81610125G>A	uc001xvd.1	+	10	1879	c.1723G>A	c.(1723-1725)GAG>AAG	p.E575K		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	575	Extracellular (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	CATGGACACCGAGACCCCTCT	0.498			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						52	106					0	0	0.00361	0	0		A	81610125	A	A	81610125	3	1	202	1	0	0	0	0	1	0	0	0	16648	1059	37	1	1898	1	TSHR	14	81610125	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3872873	81610125	25739415	527	99415											
SLC24A4	123041	broad.mit.edu	37	chr14	92909751	92909751	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgctggcaggtggtccGtctgacgtggtgggccgtgt	2	11	18	10	3	2	1	0	1	2	0	3	1	3	1	2	5	1	3	2	5	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:92909751G>A	uc001yak.2	+	7	563	c.539G>A	c.(538-540)CGT>CAT	p.R180H	SLC24A4_uc001yai.2_Missense_Mutation_p.R133H|SLC24A4_uc010twm.1_Missense_Mutation_p.R197H|SLC24A4_uc001yaj.2_Missense_Mutation_p.R180H|SLC24A4_uc010auj.2_Missense_Mutation_p.R88H|SLC24A4_uc010twn.1_5'UTR	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	197	Extracellular (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		CAGGTGGTCCGTCTGACGTGG	0.657													13	32					0	0	0.003163	0	0		A	92909751	A	A	92909751	3	1	202	1	0	0	0	0	1	0	0	0	14493	1145	40	1	565	1	SLC24A4	14	92909751	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	11299626	92909751	14439789	528	99416											
BTBD7	55727	broad.mit.edu	37	chr14	93717896	93717896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgtgacaacactgtggcaCggcattattgaccatgtaga	12	10	10	9	1	0	3	0	2	0	1	0	3	0	3	1	2	1	3	1	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:93717896C>T	uc001ybo.2	-	8	2181	c.1855G>A	c.(1855-1857)GTG>ATG	p.V619M	BTBD7_uc010aur.2_Missense_Mutation_p.V144M|BTBD7_uc010two.1_Missense_Mutation_p.V439M|BTBD7_uc001ybp.2_Missense_Mutation_p.V268M	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	619										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		CACTGTGGCACGGCATTATTG	0.493													64	101					0	0	0.00361	0	0		T	93717896	T	T	93717896	3	4	202	1	0	0	0	0	1	0	0	0	1549	536	19	1	1559	1	BTBD7	14	93717896	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	808145	93717896	13631644	529	99417											
DICER1	23405	broad.mit.edu	37	chr14	95562462	95562462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggcacagggccttttcccGatcagtccttttaattaccg	8	12	9	12	2	1	0	1	0	0	0	3	1	3	0	4	2	1	1	4	2	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:95562462G>A	uc001ydw.2	-	24	4977	c.4795C>T	c.(4795-4797)CGG>TGG	p.R1599W	DICER1_uc010avh.1_Missense_Mutation_p.R497W|DICER1_uc001ydv.2_Missense_Mutation_p.R1589W|DICER1_uc001ydx.2_Missense_Mutation_p.R1599W|DICER1_uc001ydy.1_Missense_Mutation_p.R451W	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1599					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		GCCTTTTCCCGATCAGTCCTT	0.537			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				54	103					0	0	0.00361	0	0		A	95562462	A	A	95562462	3	1	202	1	0	0	0	0	1	0	0	0	4527	1057	37	1	993	1	DICER1	14	95562462	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1844566	95562462	11787078	530	99418											
BCL11B	64919	broad.mit.edu	37	chr14	99641154	99641154	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggggctgggcagcggcgcGggcttgcgcgggaagagccc	4	3	21	13	6	0	1	0	0	0	1	0	2	0	2	2	6	3	3	2	6	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:99641154G>A	uc001yga.2	-	4	2286	c.2019C>T	c.(2017-2019)CCC>CCT	p.P673P	BCL11B_uc001ygb.2_Silent_p.P602P	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	673						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		GCAGCGGCGCGGGCTTGCGCG	0.547			T	TLX3	T-ALL								4	13					0	0	0.000602	0	0		A	99641154	A	A	99641154	2	1	202	1	0	0	0	0	0	0	0	1	1365	1103	39	1		1	BCL11B	14	99641154	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4078692	99641154	7708386	531	99419											
DYNC1H1	1778	broad.mit.edu	37	chr14	102452109	102452109	+	Missense_Mutation	SNP	A	G	G	1	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	ggttctctttgatgctgcagAtgcaaatgccattgaggaag	10	12	12	7	0	1	3	0	2	1	1	2	4	1	4	1	2	4	4	1	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:102452109A>G	uc001yks.2	+	8	1711	c.1547A>G	c.(1546-1548)GAT>GGT	p.D516G		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	516	Interaction with DYNC1I2 (By similarity).|Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GATGCTGCAGATGCAAATGCC	0.488													5	21					0	0	0.000602	0	0		G	102452109	G	G	102452109	3	3	202	1	0	0	0	0	1	0	0	0	4847	333	12	3	1577	3	DYNC1H1	14	102452109	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2810955	102452109	4897431	532	99420											
TRAF3	7187	broad.mit.edu	37	chr14	103372037	103372038	+	Frame_Shift_Del	DEL	TG	-	-																															ccagtctttgtggcccaaacTgttctagaaaatgggacata																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:103372037_103372038delTG	uc001ymc.1	+	12	1976_1977	c.1623_1624delTG	c.(1621-1626)ACTGTTfs	p.T541fs	TRAF3_uc001yme.1_Frame_Shift_Del_p.T516fs|TRAF3_uc001ymd.1_Frame_Shift_Del_p.T541fs|TRAF3_uc010txy.1_Frame_Shift_Del_p.T458fs	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	541_542	MATH.				apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		TGGCCCAAACTGTTCTAGAAAA	0.465													25	56	---	---	---	---						.	-	103372038	-	-	103372037	7	5	202	1	0	1	0	1	0	0	0	0	16465	1567	55	0	1661	0	TRAF3	14	103372037	Frame_Shift_Del	DEL	TG	TCGA-HJ-7597-01A-21D-2201-08	919928	103372037	3977503	533	99421											
CDC42BPB	9578	broad.mit.edu	37	chr14	103430911	103430911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttggcccggatctccGcctccagggccgactgcagc	4	7	13	17	3	1	0	0	0	1	0	3	2	2	1	5	3	3	3	5	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:103430911G>A	uc001ymi.1	-	19	2886	c.2654C>T	c.(2653-2655)GCG>GTG	p.A885V	CDC42BPB_uc001ymj.1_Missense_Mutation_p.A13V	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	885	Potential.				actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		CCGGATCTCCGCCTCCAGGGC	0.632													13	32					0	0	0.001368	0	0		A	103430911	A	A	103430911	3	1	202	1	0	0	0	0	1	0	0	0	3076	1087	38	1	2557	1	CDC42BPB	14	103430911	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	58874	103430911	3918629	534	99422											
INF2	64423	broad.mit.edu	37	chr14	105174184	105174185	+	Frame_Shift_Ins	INS	-	C	C																															ctactgccctgcacctgcagINScccccccgtggcgggaggca																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:105174184_105174185insC	uc001ypb.2	+	8	1723_1724	c.1580_1581insC	c.(1579-1581)AGCfs	p.S527fs	INF2_uc010tyi.1_Frame_Shift_Ins_p.S527fs|INF2_uc001ypc.2_Frame_Shift_Ins_p.S527fs|INF2_uc010awz.1_RNA	NM_022489	NP_071934	Q27J81	INF2_HUMAN	inverted formin 2 isoform 1	527					actin cytoskeleton organization	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm	actin binding|Rho GTPase binding				0		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00188)|OV - Ovarian serous cystadenocarcinoma(23;0.0191)|Epithelial(46;0.047)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.176)		TGCACCTGCAGCCCCCCCGTGG	0.559													4	6	---	---	---	---						.	C	105174185	C	C	105174184	7	5	202	1	0	1	1	0	0	0	0	0	7750	971	34	0	1610	0	INF2	14	105174184	Frame_Shift_Ins	INS	-	TCGA-HJ-7597-01A-21D-2201-08	1743273	105174184	2175356	535	99423											
CRIP2	1397	broad.mit.edu	37	chr14	105945820	105945820	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccctgctatggaatcctcttCggacccaagggtgagtgtag	8	10	12	11	1	1	1	0	1	1	0	3	3	2	3	3	3	1	2	3	3	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr14:105945820C>T	uc001yrd.1	+	7	618	c.549C>T	c.(547-549)TTC>TTT	p.F183F	CRIP2_uc010tyr.1_Silent_p.F257F|CRIP2_uc001yre.1_Silent_p.F255F|CRIP2_uc001yrf.1_RNA|CRIP2_uc001yrg.2_RNA|CRIP2_uc001yrh.1_RNA	NM_001312	NP_001303	P52943	CRIP2_HUMAN	cysteine-rich protein 2	183	Gly-rich.						zinc ion binding				0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00897)|Epithelial(46;0.026)	Epithelial(152;0.235)		GAATCCTCTTCGGACCCAAGG	0.657													31	101					0	0	0.004878	0	0		T	105945820	T	T	105945820	2	4	202	1	0	0	0	0	0	0	0	1	3878	883	31	1		1	CRIP2	14	105945820	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	771636	105945820	1403720	536	99424											
ATP10A	57194	broad.mit.edu	37	chr15	25958953	25958953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaatcgaaacccagtgtgtGcaggagctcgaaggtgagcc	11	6	15	9	2	0	1	0	1	0	0	2	5	0	3	2	3	4	2	2	3	3	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:25958953G>A	uc010ayu.2	-	10	2318	c.2212C>T	c.(2212-2214)CAC>TAC	p.H738Y		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	738	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CCCAGTGTGTGCAGGAGCTCG	0.607													17	55					0	0	0.00278	0	0		A	25958953	A	A	25958953	3	1	202	1	0	0	0	0	1	0	0	0	1117	1319	46	2	2335	2	ATP10A	15	25958953	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		25958953	76572439	537	99425											
RYR3	6263	broad.mit.edu	37	chr15	33835850	33835850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttggtgggcatgtagtacGtcttttccatggtcatgatg	7	15	12	7	1	2	1	1	1	1	0	3	1	3	1	1	3	1	3	1	3	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:33835850G>A	uc001zhi.2	+	8	744	c.674G>A	c.(673-675)CGT>CAT	p.R225H	RYR3_uc010bar.2_Missense_Mutation_p.R225H	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	225	MIR 3.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CATGTAGTACGTCTTTTCCAT	0.393													14	62					0	0	0.006122	0	0		A	33835850	A	A	33835850	3	1	202	1	0	0	0	0	1	0	0	0	13795	1145	40	1	704	1	RYR3	15	33835850	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7876897	33835850	68695542	538	99426											
CHRM5	1133	broad.mit.edu	37	chr15	34355212	34355212	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatgggacgctgggctctCgggagtctggcttgtgacct	4	11	15	11	2	3	1	1	1	2	0	4	3	3	3	1	4	0	3	1	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:34355212C>T	uc001zhk.1	+	3	964	c.294C>T	c.(292-294)CTC>CTT	p.L98L	CHRM5_uc001zhl.1_Silent_p.L98L	NM_012125	NP_036257	P08912	ACM5_HUMAN	cholinergic receptor, muscarinic 5	98	Extracellular (By similarity).				cell proliferation|inhibition of adenylate cyclase activity by muscarinic acetylcholine receptor signaling pathway	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;1.76e-08)		all cancers(64;4.82e-17)|GBM - Glioblastoma multiforme(113;2.58e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0262)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)	GCTGGGCTCTCGGGAGTCTGG	0.502													10	11					0	0	0.006214	0	0		T	34355212	T	T	34355212	2	4	202	1	0	0	0	0	0	0	0	1	3383	871	31	1		1	CHRM5	15	34355212	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	519362	34355212	68176180	539	99427											
AQR	9716	broad.mit.edu	37	chr15	35166929	35166929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacagtcggaactccaacgCgaacaaagcgagtgaagaga	17	3	11	10	4	0	2	0	1	0	1	2	6	1	3	1	1	5	0	1	1	6	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:35166929C>T	uc001ziv.2	-	29	3555	c.3374G>A	c.(3373-3375)CGC>CAC	p.R1125H		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1125						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		AACTCCAACGCGAACAAAGCG	0.428													12	36					0	0	0.001368	0	0		T	35166929	T	T	35166929	3	4	202	1	0	0	0	0	1	0	0	0	835	768	27	1	1111	1	AQR	15	35166929	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	811717	35166929	67364463	540	99428											
BMF	90427	broad.mit.edu	37	chr15	40384006	40384006	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcacctagggcctgccccGttcctgttctcttctccatt	3	14	6	18	1	3	0	1	0	2	0	6	0	4	0	7	1	1	2	7	1	1	5	rs139019487	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:40384006G>A	uc001zkv.2	-	4	623	c.537C>T	c.(535-537)AAC>AAT	p.N179N	BMF_uc001zkt.2_Silent_p.N158N|BMF_uc001zku.2_Missense_Mutation_p.R126W|BMF_uc001zkw.2_Silent_p.N179N	NM_033503	NP_277038	Q96LC9	BMF_HUMAN	Bcl2 modifying factor isoform bmf-1	179					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria	cytosol|mitochondrial outer membrane|myosin complex|plasma membrane	protein binding			ovary(1)	1		all_cancers(109;4.18e-18)|all_epithelial(112;6.15e-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;1.29e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0516)		GGCCTGCCCCGTTCCTGTTCT	0.552													5	6					0	0	0.001984	0	0		A	40384006	A	A	40384006	2	1	202	1	0	0	0	0	0	0	0	1	1455	1145	40	1		1	BMF	15	40384006	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5217077	40384006	62147386	541	99429											
BAHD1	22893	broad.mit.edu	37	chr15	40750958	40750958	+	Frame_Shift_Del	DEL	C	-	-																															taccgcctgacctgcccaagCcccccagcccggccccatcc																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:40750958delC	uc001zlu.2	+	2	366	c.295delC	c.(295-297)CCCfs	p.P99fs	BAHD1_uc001zlt.2_Frame_Shift_Del_p.P99fs|BAHD1_uc010bbp.1_Frame_Shift_Del_p.P99fs|BAHD1_uc001zlv.2_Frame_Shift_Del_p.P99fs	NM_014952	NP_055767	Q8TBE0	BAHD1_HUMAN	bromo adjacent homology domain containing 1	99					heterochromatin formation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin silencing complex|chromosome	chromatin binding|DNA binding|protein binding				0		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)		CCTGCCCAAGCCCCCCAGCCC	0.652													26	58	---	---	---	---						.	-	40750958	-	-	40750958	7	5	202	1	0	1	0	1	0	0	0	0	1298	739	26	0	297	0	BAHD1	15	40750958	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	366952	40750958	61780434	542	99430											
CASC5	57082	broad.mit.edu	37	chr15	40915354	40915354	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catactgttttcattgactaCcaagaaaaggaaagaacaga	18	9	7	7	0	1	4	1	1	0	3	1	5	1	5	1	1	3	1	1	1	7	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:40915354C>T	uc010bbs.1	+	11	3131	c.2970C>T	c.(2968-2970)TAC>TAT	p.Y990Y	CASC5_uc010ucq.1_Silent_p.Y814Y|CASC5_uc001zme.2_Silent_p.Y964Y|CASC5_uc010bbt.1_Silent_p.Y964Y	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	990	2 X 104 AA approximate repeats.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		TCATTGACTACCAAGAAAAGG	0.383													8	11					0	0	0.00308	0	0		T	40915354	T	T	40915354	2	4	202	1	0	0	0	0	0	0	0	1	2666	518	18	4		4	CASC5	15	40915354	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	164396	40915354	61616038	543	99431											
VPS39	23339	broad.mit.edu	37	chr15	42476844	42476844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccagaggtgcaactaaggGctccagctgttttcctgttg	7	12	12	10	0	0	1	0	0	0	1	2	1	2	1	3	2	4	5	3	2	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:42476844G>A	uc001zpd.2	-	9	773	c.622C>T	c.(622-624)CCC>TCC	p.P208S	VPS39_uc001zpc.2_Missense_Mutation_p.P197S	NM_015289	NP_056104	Q96JC1	VPS39_HUMAN	vacuolar protein sorting 39	208	CNH.				protein transport	HOPS complex|late endosome membrane|lysosomal membrane	small GTPase regulator activity	p.A208T(1)		ovary(1)|pancreas(1)|skin(1)	3		all_cancers(109;6.78e-16)|all_epithelial(112;1.81e-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;3.05e-06)		GCAACTAAGGGCTCCAGCTGT	0.517													45	81					0	0	0.00361	0	0		A	42476844	A	A	42476844	3	1	202	1	0	0	0	0	1	0	0	0	17235	1203	42	2	2110	2	VPS39	15	42476844	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1561490	42476844	60054548	544	99432											
TGM7	116179	broad.mit.edu	37	chr15	43568714	43568714	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctttgatctccttgacctcgTtgctgctgatgagaacctgg	6	14	10	11	1	1	4	0	4	1	1	3	5	1	4	3	1	3	3	3	1	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:43568714T>C	uc001zrf.1	-	13	2077	c.2072A>G	c.(2071-2073)AAC>AGC	p.N691S		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	691					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	CTTGACCTCGTTGCTGCTGAT	0.622													28	129					0	0	0.005443	0	0		C	43568714	C	C	43568714	3	2	202	1	0	0	0	0	1	0	0	0	15860	1725	60	3	64	3	TGM7	15	43568714	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1091870	43568714	58962678	545	99433											
MYO5C	55930	broad.mit.edu	37	chr15	52553183	52553183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttggccagtgcatccctggCgttgacagcctgaggcctgg	5	10	14	12	1	0	2	0	2	0	0	1	2	1	2	4	4	2	2	4	4	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:52553183C>T	uc010bff.2	-	10	1326	c.1189G>A	c.(1189-1191)GCC>ACC	p.A397T	MYO5C_uc010uga.1_RNA|MYO5C_uc010ugb.1_RNA|MYO5C_uc010ugc.1_3'UTR	NM_018728	NP_061198	Q9NQX4	MYO5C_HUMAN	myosin VC	397	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(7)|central_nervous_system(3)|large_intestine(2)|skin(2)	14				all cancers(107;0.0137)		GCATCCCTGGCGTTGACAGCC	0.512													8	56					0	0	0.004482	0	0		T	52553183	T	T	52553183	3	4	202	1	0	0	0	0	1	0	0	0	10098	768	27	1	4167	1	MYO5C	15	52553183	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8984469	52553183	49978209	546	99434											
NARG2	79664	broad.mit.edu	37	chr15	60741590	60741590	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatagtcatatcatttttatTagaagtttcaatttcctgag	12	19	5	5	0	3	2	3	1	0	1	4	2	4	2	1	0	0	1	1	0	7	9			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:60741590T>C	uc002agp.2	-	10	1811	c.1576A>G	c.(1576-1578)AAT>GAT	p.N526D	NARG2_uc002ago.2_Missense_Mutation_p.N389D|NARG2_uc002agq.3_Missense_Mutation_p.N194D	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	526						nucleus				ovary(1)|lung(1)	2						TCATTTTTATTAGAAGTTTCA	0.323													6	14					0	0	0.001168	0	0		C	60741590	C	C	60741590	3	2	202	1	0	0	0	0	1	0	0	0	10187	1754	61	3	1400	3	NARG2	15	60741590	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	8188407	60741590	41789802	547	99435											
VPS13C	54832	broad.mit.edu	37	chr15	62165447	62165447	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcagcaaagaacttactcGcagaaagccctttcctcctc	12	10	5	14	1	1	2	1	0	0	2	5	2	3	2	3	0	4	2	3	0	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:62165447G>A	uc002agz.2	-	78	10650	c.10576C>T	c.(10576-10578)CGA>TGA	p.R3526*	VPS13C_uc002aha.2_Nonsense_Mutation_p.R3483*|VPS13C_uc002ahb.1_Nonsense_Mutation_p.R3526*|VPS13C_uc002ahc.1_Nonsense_Mutation_p.R3483*	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	3526					protein localization					ovary(2)	2						GAACTTACTCGCAGAAAGCCC	0.413													20	59					0	0	0.00278	0	0		A	62165447	A	A	62165447	4	1	202	1	0	0	0	0	0	1	0	0	17217	1095	38	1	745	1	VPS13C	15	62165447	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1423857	62165447	40365945	548	99436											
HERC1	8925	broad.mit.edu	37	chr15	63944642	63944642	+	Silent	SNP	T	C	C	0	1	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	aacacacaggtctgttgcagTgaatattgcttcttggtaac	11	13	9	8	0	2	1	0	1	2	0	2	1	2	1	0	2	4	4	0	2	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:63944642T>C	uc002amp.2	-	52	10537	c.10389A>G	c.(10387-10389)TCA>TCG	p.S3463S		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	3463	WD 4.				protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						TCTGTTGCAGTGAATATTGCT	0.393													3	11					0	0	0.004672	0	0		C	63944642	C	C	63944642	2	2	202	1	0	0	0	0	0	0	0	1	7073	1683	59	3		3	HERC1	15	63944642	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1779195	63944642	38586750	549	99437											
ZNF609	23060	broad.mit.edu	37	chr15	64967943	64967943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccctcggtcatccagcagCgtcccaatatgtacatgcag	10	8	9	14	2	1	0	1	0	0	0	4	0	3	0	3	1	5	3	3	1	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:64967943C>T	uc002ann.2	+	4	2890	c.2890C>T	c.(2890-2892)CGT>TGT	p.R964C		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	964						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CATCCAGCAGCGTCCCAATAT	0.522													7	132					0	0	0.004482	0	0		T	64967943	T	T	64967943	3	4	202	1	0	0	0	0	1	0	0	0	18060	768	27	1	2904	1	ZNF609	15	64967943	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1023301	64967943	37563449	550	99438											
IGDCC4	57722	broad.mit.edu	37	chr15	65684597	65684597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctcagcccccacctccCgccaatatagtttgtagcca	8	9	5	19	1	1	0	1	0	0	0	3	0	3	0	8	0	2	2	8	0	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:65684597C>T	uc002aou.1	-	11	2207	c.1997G>A	c.(1996-1998)CGG>CAG	p.R666Q	IGDCC4_uc002aot.1_Missense_Mutation_p.R254Q	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	666	Extracellular (Potential).|Fibronectin type-III 3.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						CCCCACCTCCCGCCAATATAG	0.622													8	44					0	0	0.004482	0	0		T	65684597	T	T	65684597	3	4	202	1	0	0	0	0	1	0	0	0	7585	652	23	1	1795	1	IGDCC4	15	65684597	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	716654	65684597	36846795	551	99439											
MAP2K5	5607	broad.mit.edu	37	chr15	67938762	67938762	+	Frame_Shift_Del	DEL	T	-	-																															tcattggattttatggagcaTtttttgtagaaaacaggatt																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:67938762delT	uc002aqu.2	+	11	1344	c.691delT	c.(691-693)TTTfs	p.F231fs	MAP2K5_uc002aqt.1_Frame_Shift_Del_p.F231fs|MAP2K5_uc002aqv.2_Frame_Shift_Del_p.F231fs|MAP2K5_uc002aqw.2_Frame_Shift_Del_p.F71fs|MAP2K5_uc002aqx.2_Frame_Shift_Del_p.F41fs	NM_145160	NP_660143	Q13163	MP2K5_HUMAN	mitogen-activated protein kinase kinase 5	231	Protein kinase.				nerve growth factor receptor signaling pathway		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)	2						TTATGGAGCATTTTTTGTAGA	0.294													10	16	---	---	---	---						.	-	67938762	-	-	67938762	7	5	202	1	0	1	0	1	0	0	0	0	9258	1493	52	0	733	0	MAP2K5	15	67938762	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08	2254165	67938762	34592630	552	99440											
TMEM202	338949	broad.mit.edu	37	chr15	72691047	72691047	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgatgtcatgccaaaggcaGcagcagcttatggatcaggc	11	8	12	10	1	2	0	2	0	0	0	3	2	2	1	1	3	4	4	1	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:72691047G>A	uc002auq.2	+	2	135	c.135G>A	c.(133-135)CAG>CAA	p.Q45Q	TMEM202_uc002aur.2_Intron	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	45						integral to membrane				central_nervous_system(1)|skin(1)	2						GCCAAAGGCAGCAGCAGCTTA	0.512													5	39					0	0	0.000602	0	0		A	72691047	A	A	72691047	2	1	202	1	0	0	0	0	0	0	0	1	16152	962	34	2		2	TMEM202	15	72691047	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4752285	72691047	29840345	553	99441											
STRA6	64220	broad.mit.edu	37	chr15	74481567	74481567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gacatccgtggtgacccctgCcctcaccttctggatagtgg	6	10	11	14	1	2	1	1	1	1	0	3	3	3	2	5	3	1	0	5	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:74481567C>T	uc002axk.2	-	12	1161	c.979G>A	c.(979-981)GCA>ACA	p.A327T	STRA6_uc002axi.2_Missense_Mutation_p.A136T|STRA6_uc010ulh.1_Missense_Mutation_p.A365T|STRA6_uc002axj.2_Missense_Mutation_p.A366T|STRA6_uc010bji.2_Missense_Mutation_p.A327T|STRA6_uc002axl.2_Missense_Mutation_p.A259T|STRA6_uc002axm.2_Missense_Mutation_p.A327T|STRA6_uc002axn.2_Missense_Mutation_p.A318T|STRA6_uc010uli.1_Missense_Mutation_p.A364T|STRA6_uc010bjj.1_RNA	NM_022369	NP_071764	Q9BX79	STRA6_HUMAN	stimulated by retinoic acid gene 6 homolog	327	Helical; (Potential).				adrenal gland development|alveolar primary septum development|developmental growth|diaphragm development|digestive tract morphogenesis|ear development|embryonic camera-type eye formation|embryonic digestive tract development|eyelid development in camera-type eye|face morphogenesis|feeding behavior|female genitalia development|kidney development|lung vasculature development|neuromuscular process|nose morphogenesis|paramesonephric duct development|positive regulation of behavior|pulmonary artery morphogenesis|pulmonary valve morphogenesis|smooth muscle tissue development|transport|uterus morphogenesis|ventricular septum development|vocal learning	integral to membrane|plasma membrane|protein complex	receptor activity			central_nervous_system(1)	1						GTGACCCCTGCCCTCACCTTC	0.617													5	14					0	0	0.001168	0	0		T	74481567	T	T	74481567	3	4	202	1	0	0	0	0	1	0	0	0	15347	739	26	2	1056	2	STRA6	15	74481567	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1790520	74481567	28049825	554	99442											
CYP11A1	1583	broad.mit.edu	37	chr15	74636145	74636145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcacctttactgaaaatcaCgtcccatgcagccacatggt	11	10	6	14	1	2	1	2	1	0	0	3	1	3	1	3	1	3	1	3	1	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:74636145C>T	uc002axt.2	-	4	969	c.814G>A	c.(814-816)GTG>ATG	p.V272M	CYP11A1_uc002axs.2_Missense_Mutation_p.V114M|CYP11A1_uc010bjm.1_Missense_Mutation_p.V114M|CYP11A1_uc010bjn.1_Intron|CYP11A1_uc010bjo.1_Missense_Mutation_p.V272M|CYP11A1_uc010bjp.1_RNA|CYP11A1_uc010ulj.1_Missense_Mutation_p.V52M	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	272					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	CTGAAAATCACGTCCCATGCA	0.592													47	103					0	0	0.00361	0	0		T	74636145	T	T	74636145	3	4	202	1	0	0	0	0	1	0	0	0	4147	536	19	1	775	1	CYP11A1	15	74636145	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	154578	74636145	27895247	555	99443											
CYP1A1	1543	broad.mit.edu	37	chr15	75014057	75014057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtgatgtcccggatgtggCccttaggtagggaaagtcca	8	10	14	9	1	0	1	0	1	0	0	2	3	2	3	3	4	0	1	3	4	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:75014057C>T	uc002ayp.3	-	3	949	c.827G>A	c.(826-828)GGC>GAC	p.G276D	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.G12D|CYP1A1_uc010bjx.2_Missense_Mutation_p.G12D|CYP1A1_uc002ayq.3_Missense_Mutation_p.G276D|CYP1A1_uc010bjy.2_Missense_Mutation_p.G276D|CYP1A1_uc010bjz.1_Missense_Mutation_p.G12D	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	276					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	CCGGATGTGGCCCTTAGGTAG	0.507									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				4	65					0	0	0.001168	0	0		T	75014057	T	T	75014057	3	4	202	1	0	0	0	0	1	0	0	0	4152	753	26	2	731	2	CYP1A1	15	75014057	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	377912	75014057	27517335	556	99444											
CSK	1445	broad.mit.edu	37	chr15	75094810	75094810	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccctccttcctacagctcCgagagcagcttgagcacatc	8	8	9	16	1	0	2	0	1	0	1	4	3	3	2	4	1	5	4	4	1	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:75094810C>T	uc010bkb.1	+	14	1492	c.1309C>T	c.(1309-1311)CGA>TGA	p.R437*	CSK_uc002ays.2_Nonsense_Mutation_p.R437*|CSK_uc010bkc.1_Nonsense_Mutation_p.R246*	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	437	Protein kinase.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						CCTACAGCTCCGAGAGCAGCT	0.627													13	88					0	0	0.00499	0	0		T	75094810	T	T	75094810	4	4	202	1	0	0	0	0	0	1	0	0	3946	644	23	1	1355	1	CSK	15	75094810	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	80753	75094810	27436582	557	99445											
ADAMTS7	11173	broad.mit.edu	37	chr15	79069818	79069818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaggcagagtaggcccCgtactggaggcggcactggt	9	5	17	10	2	0	2	0	0	0	2	0	3	0	3	2	6	1	5	2	6	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:79069818C>T	uc002bej.3	-	9	1646	c.1435G>A	c.(1435-1437)GGG>AGG	p.G479R	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_Missense_Mutation_p.G479R	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	479	Disintegrin.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						GAGTAGGCCCCGTACTGGAGG	0.652													4	20					0	0	0.009096	0	0		T	79069818	T	T	79069818	3	4	202	1	0	0	0	0	1	0	0	0	271	652	23	1	3689	1	ADAMTS7	15	79069818	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3975008	79069818	23461574	558	99446											
ADAMTS7	11173	broad.mit.edu	37	chr15	79083560	79083560	+	Silent	SNP	A	G	G	1	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	ctggggtcatgaaacaggccAgccacctgcccaagagatgg	11	5	13	12	0	1	2	1	1	0	1	1	3	1	2	4	4	3	0	4	4	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:79083560A>G	uc002bej.3	-	5	1036	c.825T>C	c.(823-825)GCT>GCC	p.A275A	ADAMTS7_uc010und.1_Silent_p.A275A|ADAMTS7_uc002bek.1_Silent_p.A275A	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	275	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						GAAACAGGCCAGCCACCTGCC	0.602													7	61					0	0	0.00308	0	0		G	79083560	G	G	79083560	2	3	202	1	0	0	0	0	0	0	0	1	271	175	7	3		3	ADAMTS7	15	79083560	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	13742	79083560	23447832	559	99447											
KIAA1024	23251	broad.mit.edu	37	chr15	79749949	79749949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgctggagcccaagaaatGcagagacctgtgcacctctg	10	7	12	12	1	1	2	0	0	1	2	1	4	1	3	3	1	4	3	3	1	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:79749949G>A	uc002bew.1	+	2	1535	c.1460G>A	c.(1459-1461)TGC>TAC	p.C487Y	KIAA1024_uc010unk.1_Missense_Mutation_p.C487Y	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	487						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						CCCAAGAAATGCAGAGACCTG	0.532													7	13					0	0	0.004482	0	0		A	79749949	A	A	79749949	3	1	202	1	0	0	0	0	1	0	0	0	8221	1319	46	2	1462	2	KIAA1024	15	79749949	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	666389	79749949	22781443	560	99448											
ARNT2	9915	broad.mit.edu	37	chr15	80800575	80800575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggatgtgcatgggctcgcGgcggtctttcatctgcagga	6	10	16	9	3	3	0	1	0	2	0	4	3	3	2	0	5	2	3	0	5	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:80800575G>A	uc002bfr.2	+	6	867	c.701G>A	c.(700-702)CGG>CAG	p.R234Q	ARNT2_uc010unm.1_Missense_Mutation_p.R223Q|ARNT2_uc002bfs.2_Missense_Mutation_p.R223Q	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	234					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			ATGGGCTCGCGGCGGTCTTTC	0.542													23	39					0	0	0.005443	0	0		A	80800575	A	A	80800575	3	1	202	1	0	0	0	0	1	0	0	0	967	1116	39	1	723	1	ARNT2	15	80800575	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1050626	80800575	21730817	561	99449											
AP3B2	8120	broad.mit.edu	37	chr15	83332368	83332368	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggagcacttttgctgctgGgaggctgaaagagaaaaatg	13	8	14	6	0	0	2	0	1	0	1	0	5	0	4	0	3	3	4	0	3	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:83332368G>A	uc010uoh.1	-	20	2561	c.2384C>T	c.(2383-2385)CCC>CTC	p.P795L	AP3B2_uc010uoi.1_Missense_Mutation_p.P814L|AP3B2_uc010uoj.1_Missense_Mutation_p.P763L|AP3B2_uc010bmp.2_5'Flank|AP3B2_uc010uog.1_Missense_Mutation_p.P431L|AP3B2_uc002biy.1_5'Flank	NM_004644	NP_004635	Q13367	AP3B2_HUMAN	adaptor-related protein complex 3, beta 2	795	Glu/Ser-rich.				endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport	clathrin coated vesicle membrane|COPI-coated vesicle|membrane coat	binding|protein transporter activity			ovary(3)|breast(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.229)			TTTGCTGCTGGGAGGCTGAAA	0.522													11	33					0	0	0.00245	0	0		A	83332368	A	A	83332368	3	1	202	1	0	0	0	0	1	0	0	0	745	1232	43	4	892	4	AP3B2	15	83332368	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2531793	83332368	19199024	562	99450											
WHAMM	123720	broad.mit.edu	37	chr15	83478511	83478511	+	Silent	SNP	C	T	T	0	0	0	1	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	cagcctgacagcctggagggCtgggtgccggtccgggaggg	5	5	20	11	2	0	1	0	1	0	0	1	3	1	3	4	6	3	1	4	6	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:83478511C>T	uc002bje.2	+	1	539	c.33C>T	c.(31-33)GGC>GGT	p.G11G		NM_001080435	NP_001073904	Q8TF30	WHAMM_HUMAN	WAS protein homolog associated with actin, golgi	11						cytoplasmic vesicle membrane|ER-Golgi intermediate compartment|Golgi apparatus	actin binding				0						GCCTGGAGGGCTGGGTGCCGG	0.731													3	11					0	0	0.009096	0	0		T	83478511	T	T	83478511	2	4	202	1	0	0	0	0	0	0	0	1	17387	784	28	2		2	WHAMM	15	83478511	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	146143	83478511	19052881	563	99451											
ZSCAN2	54993	broad.mit.edu	37	chr15	85147391	85147391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggaccacagggtgcactcgGccgcctccgagagctctgcc	6	5	14	16	3	1	1	0	0	1	1	3	3	2	2	5	3	3	2	5	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:85147391G>A	uc002bkr.2	+	2	459	c.233G>A	c.(232-234)GGC>GAC	p.G78D	ZSCAN2_uc002bkp.2_Missense_Mutation_p.G78D|ZSCAN2_uc002bkq.2_Missense_Mutation_p.G78D|ZSCAN2_uc010bmz.1_Missense_Mutation_p.G77D|ZSCAN2_uc010bna.2_Intron|ZSCAN2_uc010uox.1_Missense_Mutation_p.G77D|ZSCAN2_uc010uoy.1_Missense_Mutation_p.G77D|ZSCAN2_uc010uoz.1_Missense_Mutation_p.G77D	NM_181877	NP_870992	Q7Z7L9	ZSCA2_HUMAN	zinc finger protein 29 isoform 1	78	SCAN box.				cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		GGTGCACTCGGCCGCCTCCGA	0.632													7	12					0	0	0.008291	0	0		A	85147391	A	A	85147391	3	1	202	1	0	0	0	0	1	0	0	0	18256	1203	42	2	235	2	ZSCAN2	15	85147391	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1668880	85147391	17384001	564	99452											
HAPLN3	145864	broad.mit.edu	37	chr15	89422314	89422314	+	Missense_Mutation	SNP	A	G	G	1	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	cgcagggctgccggggcaacAtgatggggtactgcaccgtg	7	6	17	11	3	0	1	0	1	0	0	0	1	0	1	2	5	4	5	2	5	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:89422314A>G	uc002bnc.2	-	4	808	c.680T>C	c.(679-681)ATG>ACG	p.M227T	HAPLN3_uc002bne.2_RNA|HAPLN3_uc002bnd.2_Missense_Mutation_p.M289T	NM_178232	NP_839946	Q96S86	HPLN3_HUMAN	hyaluronan and proteoglycan link protein 3	227	Link 1.				cell adhesion	proteinaceous extracellular matrix	hyaluronic acid binding				0	Lung NSC(78;0.0392)|all_lung(78;0.077)					CCGGGGCAACATGATGGGGTA	0.692											OREG0023445	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	12					0	0	0.001168	0	0		G	89422314	G	G	89422314	3	3	202	1	0	0	0	0	1	0	0	0	6972	217	8	3	410	3	HAPLN3	15	89422314	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	4274923	89422314	13109078	565	99453											
RHCG	51458	broad.mit.edu	37	chr15	90023598	90023598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgagcccaaagtaggcGccaaatgtgtggatggtcat	11	9	13	8	1	1	1	1	1	0	0	1	2	1	2	2	3	1	1	2	3	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:90023598G>A	uc002bnz.2	-	4	588	c.564C>T	c.(562-564)GGC>GGT	p.G188G	RHCG_uc002bny.2_5'Flank|RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_Silent_p.G72G	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	188	Helical; (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					CAAAGTAGGCGCCAAATGTGT	0.577													26	75					0	0	0.002445	0	0		A	90023598	A	A	90023598	2	1	202	1	0	0	0	0	0	0	0	1	13351	1074	38	1		1	RHCG	15	90023598	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	601284	90023598	12507794	566	99454											
IQGAP1	8826	broad.mit.edu	37	chr15	91027453	91027453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcctgtgcttatttcagaCggtttttccaaactgcttgt	6	17	7	11	1	1	1	1	0	0	1	3	1	3	1	3	1	3	3	3	1	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:91027453C>T	uc002bpl.1	+	30	3891	c.3790C>T	c.(3790-3792)CGG>TGG	p.R1264W		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1264	C1.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			TTATTTCAGACGGTTTTTCCA	0.428													14	47					0	0	0.007413	0	0		T	91027453	T	T	91027453	3	4	202	1	0	0	0	0	1	0	0	0	7830	550	19	1	3908	1	IQGAP1	15	91027453	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1003855	91027453	11503939	567	99455											
MAN2A2	4122	broad.mit.edu	37	chr15	91462927	91462927	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagccaacctccttgacGttactgtaccctctggcctc	6	12	6	17	1	2	1	1	1	1	0	4	1	3	1	5	1	4	2	5	1	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:91462927G>A	uc010bnz.2	+	23	3478	c.3363G>A	c.(3361-3363)ACG>ACA	p.T1121T	MAN2A2_uc002bqc.2_Silent_p.T1121T|MAN2A2_uc010uql.1_Silent_p.T783T|MAN2A2_uc010uqm.1_Silent_p.T700T|MAN2A2_uc010uqn.1_RNA	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	1121					mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			CCTCCTTGACGTTACTGTACC	0.567													52	119					0	0	0.00361	0	0		A	91462927	A	A	91462927	2	1	202	1	0	0	0	0	0	0	0	1	9233	1132	40	1		1	MAN2A2	15	91462927	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	435474	91462927	11068465	568	99456											
CHD2	1106	broad.mit.edu	37	chr15	93489371	93489371	+	Silent	SNP	A	G	G	1	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	gaagatgaagccctcattggAaagaaattccagaattgcat	16	9	9	7	0	1	4	1	1	0	3	2	6	2	5	2	1	2	1	2	1	5	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:93489371A>G	uc002bsp.2	+	12	1877	c.1302A>G	c.(1300-1302)GGA>GGG	p.G434G	CHD2_uc002bsn.2_Silent_p.G434G|CHD2_uc002bso.1_Silent_p.G434G|CHD2_uc010urb.1_Silent_p.G447G|CHD2_uc010bof.1_RNA	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	434	Chromo 2.				regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			CCCTCATTGGAAAGAAATTCC	0.448													10	30					0	0	0.000978	0	0		G	93489371	G	G	93489371	2	3	202	1	0	0	0	0	0	0	0	1	3328	233	9	3		3	CHD2	15	93489371	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2026444	93489371	9042021	569	99457											
NR2F2	7026	broad.mit.edu	37	chr15	96877812	96877812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgagtacagctgcctcaaggCcatagtcctgttcacctcag	9	9	9	14	1	3	0	3	0	0	0	4	1	4	0	4	1	3	3	4	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr15:96877812C>T	uc010uri.1	+	2	2174	c.950C>T	c.(949-951)GCC>GTC	p.A317V	NR2F2_uc002btp.2_Missense_Mutation_p.A184V|NR2F2_uc010urj.1_Missense_Mutation_p.A164V|NR2F2_uc010urk.1_Missense_Mutation_p.A164V	NM_021005	NP_066285	P24468	COT2_HUMAN	nuclear receptor subfamily 2, group F, member 2	317	Interaction with ZFPM2 (By similarity).|Ligand-binding (By similarity).				lipid metabolic process|negative regulation of cyclin-dependent protein kinase activity|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment	nucleus	ligand-regulated transcription factor activity|protein homodimerization activity|retinoic acid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity|zinc ion binding			ovary(2)|breast(1)	3	Lung NSC(78;0.0186)|Melanoma(26;0.0195)|all_lung(78;0.0297)		OV - Ovarian serous cystadenocarcinoma(32;0.0856)			TGCCTCAAGGCCATAGTCCTG	0.602													3	31					0	0	0.000602	0	0		T	96877812	T	T	96877812	3	4	202	1	0	0	0	0	1	0	0	0	10647	739	26	2	1003	2	NR2F2	15	96877812	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3388441	96877812	5653580	570	99458											
TMEM8A	58986	broad.mit.edu	37	chr16	424092	424092	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagtcgcagtactgcagCgtgtcgtagctgaggatgca	11	8	14	8	3	0	2	0	1	0	1	2	3	0	3	0	1	5	6	0	1	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:424092C>T	uc002cgu.3	-	11	1944	c.1815G>A	c.(1813-1815)ACG>ACA	p.T605T	TMEM8A_uc002cgv.3_Silent_p.T412T	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	605	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						AGTACTGCAGCGTGTCGTAGC	0.652											OREG0003702	type=REGULATORY REGION|Gene=TMEM8|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	15	48					0	0	0.00499	0	0		T	424092	T	T	424092	2	4	202	1	0	0	0	0	0	0	0	1	16239	755	27	1		1	TMEM8A	16	424092	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08		424092	89930661	571	99459											
C16orf11	146325	broad.mit.edu	37	chr16	615240	615240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctggggcacctgtgttgCgacgaggagttcccagaccc	6	8	15	12	2	0	1	0	0	0	1	1	4	1	2	3	4	1	4	3	4	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:615240C>T	uc002chk.2	+	3	1928	c.1649C>T	c.(1648-1650)GCG>GTG	p.A550V	NHLRC4_uc002chl.2_5'Flank|PIGQ_uc010bqw.2_5'Flank	NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	550										central_nervous_system(1)	1						ACCTGTGTTGCGACGAGGAGT	0.672													4	12					0	0	0.009096	0	0		T	615240	T	T	615240	3	4	202	1	0	0	0	0	1	0	0	0	1813	768	27	1	1655	1	C16orf11	16	615240	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	191148	615240	89739513	572	99460											
RAB40C	57799	broad.mit.edu	37	chr16	668205	668205	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccccgtatgtttcagggacaCgtcgggccagggccggttct	5	9	14	13	4	2	0	1	0	1	0	3	1	2	1	4	4	0	3	4	4	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:668205C>T	uc002chr.2	+	3	325	c.209C>T	c.(208-210)ACG>ATG	p.T70M	RAB40C_uc002chq.2_Missense_Mutation_p.T70M	NM_021168	NP_066991	Q96S21	RB40C_HUMAN	RAB40C, member RAS oncogene family	70	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0		Hepatocellular(780;0.0218)				TTCAGGGACACGTCGGGCCAG	0.612													17	31					0	0	0.007413	0	0		T	668205	T	T	668205	3	4	202	1	0	0	0	0	1	0	0	0	12967	536	19	1	219	1	RAB40C	16	668205	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	52965	668205	89686548	573	99461											
NARFL	64428	broad.mit.edu	37	chr16	784277	784277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggagcccatgacctgctgCggggaccgggcggtgctgat	6	6	18	11	3	0	2	0	2	0	0	0	4	0	4	3	5	4	2	3	5	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:784277C>T	uc002cjr.2	-	6	657	c.645G>A	c.(643-645)CCG>CCA	p.P215P	NARFL_uc002cjp.2_Silent_p.P113P|NARFL_uc002cjq.2_Silent_p.P113P|NARFL_uc002cjs.2_5'UTR|NARFL_uc010brc.1_3'UTR|NARFL_uc010uur.1_Missense_Mutation_p.R171H|NARFL_uc010uuq.1_5'Flank	NM_022493	NP_071938	Q9H6Q4	NARFL_HUMAN	nuclear prelamin A recognition factor-like	215					iron-sulfur cluster assembly|oxygen homeostasis|regulation of transcription, DNA-dependent|response to hypoxia		4 iron, 4 sulfur cluster binding|metal ion binding				0		Hepatocellular(780;0.0218)				TGACCTGCTGCGGGGACCGGG	0.662													16	43					0	0	0.006122	0	0		T	784277	T	T	784277	2	4	202	1	0	0	0	0	0	0	0	1	10186	755	27	1		1	NARFL	16	784277	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	116072	784277	89570476	574	99462											
PRR25	388199	broad.mit.edu	37	chr16	857626	857626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggatggcaaagggacccGccagcggatccctcttacag	9	5	15	12	2	1	0	0	0	1	0	2	3	2	3	3	5	2	1	3	5	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:857626G>A	uc010uut.1	+	2	623	c.623G>A	c.(622-624)CGC>CAC	p.R208H		NM_001013638	NP_001013660	Q96S07	PRR25_HUMAN	proline rich 25	208										large_intestine(1)	1						AAAGGGACCCGCCAGCGGATC	0.711													19	41					0	0	0.008871	0	0		A	857626	A	A	857626	3	1	202	1	0	0	0	0	1	0	0	0	12619	1087	38	1	629	1	PRR25	16	857626	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	73349	857626	89497127	575	99463											
CACNA1H	8912	broad.mit.edu	37	chr16	1262003	1262003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctccttcctgctcatcGtcagcttcttcgtgctcaac	5	15	5	16	2	6	0	4	0	2	0	10	0	7	0	2	0	4	3	2	0	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:1262003G>A	uc002cks.2	+	25	4872	c.4624G>A	c.(4624-4626)GTC>ATC	p.V1542I	CACNA1H_uc002ckt.2_Missense_Mutation_p.V1542I|CACNA1H_uc002cku.2_Missense_Mutation_p.V248I|CACNA1H_uc010brj.2_Missense_Mutation_p.V248I|CACNA1H_uc002ckv.2_Missense_Mutation_p.V248I	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1542	Helical; Name=S6 of repeat III; (Potential).|III.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CCTGCTCATCGTCAGCTTCTT	0.647													66	211					0	0	0.00361	0	0		A	1262003	A	A	1262003	3	1	202	1	0	0	0	0	1	0	0	0	2548	1145	40	1	4718	1	CACNA1H	16	1262003	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	404377	1262003	89092750	576	99464											
PTX4	390667	broad.mit.edu	37	chr16	1537330	1537330	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tacttactctctcctggcacCtggggggaccatgcctgctg	5	11	11	14	0	1	0	0	0	1	0	3	1	2	1	4	4	4	2	4	4	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:1537330C>A	uc010uvf.1	-	2	768	c.768G>T	c.(766-768)CAG>CAT	p.Q256H		NM_001013658	NP_001013680	Q96A99	PTX4_HUMAN	neuronal pentraxin II-like	261						extracellular region	metal ion binding				0						CTCCTGGCACCTGGGGGGACC	0.607													13	44					2.32078e-09	2.46303e-09	0.003163	1	0		A	1537330	A	A	1537330	3	1	202	1	0	0	0	0	1	0	0	0	12848	680	24	5	660	5	PTX4	16	1537330	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	275327	1537330	88817423	577	99465											
MAPK8IP3	23162	broad.mit.edu	37	chr16	1810417	1810417	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagaatgacctgattgcCaaggtcgaccagctgtccgg	10	8	13	10	2	0	4	0	3	0	1	2	5	1	4	4	2	2	1	4	2	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:1810417C>A	uc002cmk.2	+	12	1458	c.1338C>A	c.(1336-1338)GCC>GCA	p.A446A	MAPK8IP3_uc002cml.2_Silent_p.A440A|MAPK8IP3_uc010uvl.1_Silent_p.A447A	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	446	Potential.				vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						ACCTGATTGCCAAGGTCGACC	0.562													16	83					3.10358e-05	3.23146e-05	0.002299	1	0		A	1810417	A	A	1810417	2	1	202	1	0	0	0	0	0	0	0	1	9304	581	21	5		5	MAPK8IP3	16	1810417	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	273087	1810417	88544336	578	99466											
ZNF598	90850	broad.mit.edu	37	chr16	2049537	2049537	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgggcaggggccgccgagCgctgggaagtcctcctgtgg	4	6	20	11	3	0	0	0	0	0	0	2	2	2	1	4	6	1	2	4	6	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:2049537C>T	uc002cof.1	-	11	2028	c.2013G>A	c.(2011-2013)GCG>GCA	p.A671A	ZNF598_uc002coe.1_Silent_p.A35A	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598	671	Pro-rich.					intracellular	zinc ion binding			lung(1)|breast(1)	2						GGCCGCCGAGCGCTGGGAAGT	0.761													3	11					0	0	0.000602	0	0		T	2049537	T	T	2049537	2	4	202	1	0	0	0	0	0	0	0	1	18053	755	27	1		1	ZNF598	16	2049537	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	239120	2049537	88305216	579	99467											
CREBBP	1387	broad.mit.edu	37	chr16	3843416	3843416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttcccagcctgacaatgcGtcatgtgattcaaaacgttt	10	13	7	11	2	2	2	2	2	0	0	3	2	3	2	2	0	3	1	2	0	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:3843416G>A	uc002cvv.2	-	4	1391	c.1187C>T	c.(1186-1188)ACG>ATG	p.T396M	CREBBP_uc002cvw.2_Missense_Mutation_p.T396M	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	396	TAZ-type 1.|Interaction with SRCAP.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CTGACAATGCGTCATGTGATT	0.488			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				26	94					0	0	0.00632	0	0		A	3843416	A	A	3843416	3	1	202	1	0	0	0	0	1	0	0	0	3864	1145	40	1	6253	1	CREBBP	16	3843416	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1793879	3843416	86511337	580	99468											
HMOX2	3163	broad.mit.edu	37	chr16	4559660	4559660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcagcagctgtcccttccGaacagctatggctgtgctga	7	9	13	12	1	0	1	0	1	0	0	2	2	2	1	2	2	5	6	2	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:4559660G>A	uc010bts.2	+	6	1025	c.854G>A	c.(853-855)CGA>CAA	p.R285Q	HMOX2_uc002cwr.3_Missense_Mutation_p.R285Q|HMOX2_uc002cwq.3_Missense_Mutation_p.R285Q|HMOX2_uc002cws.3_Missense_Mutation_p.R339Q|HMOX2_uc010btt.2_Missense_Mutation_p.R285Q|HMOX2_uc002cwt.2_Missense_Mutation_p.R285Q	NM_001127206	NP_001120678	P30519	HMOX2_HUMAN	heme oxygenase (decyclizing) 2	285	HRM 2.			SCPFRTAM -> LSLPTSY (in Ref. 2; AAB22110).	cellular iron ion homeostasis|heme catabolic process|heme oxidation|response to hypoxia|transmembrane transport	endoplasmic reticulum membrane|microsome|plasma membrane	electron carrier activity|heme oxygenase (decyclizing) activity|metal ion binding|protein binding				0					NADH(DB00157)	TGTCCCTTCCGAACAGCTATG	0.612													13	45					0	0	0.003163	0	0		A	4559660	A	A	4559660	3	1	202	1	0	0	0	0	1	0	0	0	7260	1058	37	1	872	1	HMOX2	16	4559660	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	716244	4559660	85795093	581	99469											
GRIN2A	2903	broad.mit.edu	37	chr16	9858738	9858738	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acatgttgctctgggatcccGtcagattgaagtctggagac	9	11	12	9	1	3	3	1	1	2	2	4	5	4	4	1	2	1	2	1	2	1	2	rs149698593		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:9858738G>A	uc002czo.3	-	13	3211	c.2663C>T	c.(2662-2664)ACG>ATG	p.T888M	GRIN2A_uc010uym.1_Missense_Mutation_p.T888M|GRIN2A_uc010uyn.1_Missense_Mutation_p.T731M|GRIN2A_uc002czr.3_Missense_Mutation_p.T888M	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	888	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CTGGGATCCCGTCAGATTGAA	0.468													23	42					0	0	0.005443	0	0		A	9858738	A	A	9858738	3	1	202	1	0	0	0	0	1	0	0	0	6795	1145	40	1	1735	1	GRIN2A	16	9858738	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5299078	9858738	80496015	582	99470											
RUNDC2A	84127	broad.mit.edu	37	chr16	12145844	12145844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagctcagaggacaactccGaccgctcctctgtcaatatc	11	8	8	14	2	3	2	2	0	1	2	6	4	5	3	3	1	2	2	3	1	3	1	rs149490127		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:12145844G>A	uc002dbw.1	+	8	951	c.889G>A	c.(889-891)GAC>AAC	p.D297N	SNX29_uc002dby.3_5'Flank	NM_032167	NP_115543	Q9HA26	RUN2A_HUMAN	RUN domain containing 2A	297										ovary(1)	1						GGACAACTCCGACCGCTCCTC	0.498			T	CIITA	PMBL|Hodgkin Lymphona|								14	53					0	0	0.00245	0	0		A	12145844	A	A	12145844	3	1	202	1	0	0	0	0	1	0	0	0	13768	1058	37	1	919	1	RUNDC2A	16	12145844	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2287106	12145844	78208909	583	99471											
SNX29	92017	broad.mit.edu	37	chr16	12662399	12662399	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggagagcctgtgaacagccgGcccaaagcagcttcccgctt	9	6	12	14	2	0	2	0	1	0	1	1	3	1	2	4	2	5	3	4	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:12662399G>A	uc002dby.3	+	14	1256	c.1200G>A	c.(1198-1200)CGG>CGA	p.R400R		NM_001080530	NP_001073999	Q8TEQ0	SNX29_HUMAN	sorting nexin 29	400					cell communication		phosphatidylinositol binding			ovary(1)	1						TGAACAGCCGGCCCAAAGCAG	0.622													17	34					0	0	0.008871	0	0		A	12662399	A	A	12662399	2	1	202	1	0	0	0	0	0	0	0	1	14923	1190	42	2		2	SNX29	16	12662399	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	516555	12662399	77692354	584	99472											
DNAH3	55567	broad.mit.edu	37	chr16	20994156	20994156	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgtacagcaattgatcagCgaagggaacatccgcaggcg	13	6	12	10	4	1	1	1	1	0	0	3	3	2	2	1	2	4	3	1	2	4	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:20994156C>T	uc010vbe.1	-	49	7746	c.7746G>A	c.(7744-7746)TCG>TCA	p.S2582S	DNAH3_uc010vbd.1_Silent_p.S17S	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	2582	AAA 4 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		AATTGATCAGCGAAGGGAACA	0.483													24	54					0	0	0.004656	0	0		T	20994156	T	T	20994156	2	4	202	1	0	0	0	0	0	0	0	1	4609	755	27	1		1	DNAH3	16	20994156	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8331757	20994156	69360597	585	99473											
OTOA	146183	broad.mit.edu	37	chr16	21698928	21698928	+	Silent	SNP	G	A	A	0	0	1	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	ctccagccagacatcacagaGcggctccctcgggacctgcg	8	5	11	17	3	1	2	1	0	0	2	4	3	3	3	4	2	3	1	4	2	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:21698928G>A	uc002djh.2	+	7	595	c.594G>A	c.(592-594)GAG>GAA	p.E198E	uc002diq.3_Intron|OTOA_uc010vbj.1_Silent_p.E119E	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	198					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		ACATCACAGAGCGGCTCCCTC	0.473													8	26					0	0	0.008291	0	0		A	21698928	A	A	21698928	2	1	202	1	0	0	0	0	0	0	0	1	11321	962	34	2		2	OTOA	16	21698928	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	704772	21698928	68655825	586	99474											
USP31	57478	broad.mit.edu	37	chr16	23080178	23080178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggatgaatgccgtccactgCccctggaagaagaatctgct	10	8	12	11	1	1	3	0	1	1	2	2	5	2	5	4	2	3	1	4	2	4	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:23080178C>T	uc002dll.2	-	16	3248	c.3248G>A	c.(3247-3249)GGC>GAC	p.G1083D	USP31_uc002dlk.2_Missense_Mutation_p.G355D|USP31_uc010vca.1_Missense_Mutation_p.G386D|USP31_uc010bxm.2_Missense_Mutation_p.G371D	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	1083	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		CCGTCCACTGCCCCTGGAAGA	0.542													22	56					0	0	0.00333	0	0		T	23080178	T	T	23080178	3	4	202	1	0	0	0	0	1	0	0	0	17088	739	26	2	814	2	USP31	16	23080178	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1381250	23080178	67274575	587	99475											
TNRC6A	27327	broad.mit.edu	37	chr16	24806025	24806025	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattggccaccatatacaaaGaaaatgtcatcgaaggtaaa	19	8	7	7	1	1	1	1	0	0	1	2	2	1	1	2	2	1	1	2	2	9	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:24806025G>T	uc002dmm.2	+	8	3627	c.3513G>T	c.(3511-3513)AAG>AAT	p.K1171N	TNRC6A_uc010bxs.2_Missense_Mutation_p.K918N|TNRC6A_uc010vcc.1_Missense_Mutation_p.K918N|TNRC6A_uc002dmn.2_Missense_Mutation_p.K918N|TNRC6A_uc002dmo.2_Missense_Mutation_p.K859N	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1171	Sufficient for interaction with EIF2C1 and EIF2C4.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		CATATACAAAGAAAATGTCAT	0.393													4	14					0.00024832	0.000255423	0.009096	1	0		T	24806025	T	T	24806025	3	4	202	1	0	0	0	0	1	0	0	0	16365	933	33	5	3543	5	TNRC6A	16	24806025	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1725847	24806025	65548728	588	99476											
AQP8	343	broad.mit.edu	37	chr16	25228757	25228757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gctcgtgattgccacgctggGgaatatcaggtgagaccagc	9	8	14	10	2	1	2	1	2	0	1	2	4	1	3	2	3	2	2	2	3	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:25228757G>A	uc002doc.2	+	2	333	c.251G>A	c.(250-252)GGG>GAG	p.G84E		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	84	Extracellular (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		GCCACGCTGGGGAATATCAGG	0.617													38	87					0	0	0.006999	0	0		A	25228757	A	A	25228757	3	1	202	1	0	0	0	0	1	0	0	0	832	1232	43	4	257	4	AQP8	16	25228757	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	422732	25228757	65125996	589	99477											
GTF3C1	2975	broad.mit.edu	37	chr16	27473769	27473769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcaggtggccatccacgacaCgccacggccggccgatgaag	9	4	13	15	5	1	1	1	1	0	0	2	3	2	1	5	4	0	0	5	4	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:27473769C>T	uc002dov.1	-	36	6003	c.5963G>A	c.(5962-5964)CGT>CAT	p.R1988H	GTF3C1_uc002dou.2_Missense_Mutation_p.R1963H	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	1988						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						ATCCACGACACGCCACGGCCG	0.622													7	21					0	0	0.00308	0	0		T	27473769	T	T	27473769	3	4	202	1	0	0	0	0	1	0	0	0	6888	536	19	1	374	1	GTF3C1	16	27473769	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2245012	27473769	62880984	590	99478											
MAZ	4150	broad.mit.edu	37	chr16	29819074	29819074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagcgcaaggaccgcatgaGctaccacgtgcgctcacatg	11	5	11	14	4	1	1	1	1	0	0	1	2	1	2	2	1	4	4	2	1	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:29819074G>A	uc002dty.2	+	2	1136	c.968G>A	c.(967-969)AGC>AAC	p.S323N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Missense_Mutation_p.S300N|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Missense_Mutation_p.S323N|MAZ_uc010bzg.2_Intron|MAZ_uc002dtz.1_Missense_Mutation_p.S41N|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	323	C2H2-type 3.				regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						GACCGCATGAGCTACCACGTG	0.647													21	61					0	0	0.001882	0	0		A	29819074	A	A	29819074	3	1	202	1	0	0	0	0	1	0	0	0	9358	971	34	2	974	2	MAZ	16	29819074	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2345305	29819074	60535679	591	99479											
MVP	9961	broad.mit.edu	37	chr16	29853161	29853161	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaccgagagaagcgagcccGgtgagtgctggcagcgcagg	9	4	17	11	4	0	2	0	1	0	1	0	5	0	2	2	3	5	3	2	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:29853161G>T	uc002dui.2	+	9	1520	c.1436G>T	c.(1435-1437)CGC>CTC	p.R479L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010vdz.1_RNA|MVP_uc002duj.2_Missense_Mutation_p.R479L|MVP_uc010vea.1_Missense_Mutation_p.R73L	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	479	MVP 9.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AAGCGAGCCCGGTGAGTGCTG	0.667													4	56					0.00116845	0.00119791	0.001168	1	0		T	29853161	T	T	29853161	3	4	202	1	0	0	0	0	1	0	0	0	10014	1130	39	5	1466	5	MVP	16	29853161	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	34087	29853161	60501592	592	99480											
TAOK2	9344	broad.mit.edu	37	chr16	30002182	30002182	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggagctggagctgctcaaCgcttaccagagcaagatcaa	13	6	11	11	1	2	2	2	0	0	2	2	4	2	4	1	2	6	5	1	2	4	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:30002182C>T	uc002dvc.1	+	18	3306	c.2523C>T	c.(2521-2523)AAC>AAT	p.N841N	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron	NM_004783	NP_004774	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						AGCTGCTCAACGCTTACCAGA	0.622													5	89					0	0	0.001168	0	0		T	30002182	T	T	30002182	2	4	202	1	0	0	0	0	0	0	0	1	15573	535	19	1		1	TAOK2	16	30002182	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	149021	30002182	60352571	593	99481											
C16orf58	64755	broad.mit.edu	37	chr16	31504963	31504963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgattggctgcagttgggtCgagtacctctcccctctgaa	6	11	12	12	2	2	1	0	1	2	0	4	3	2	1	3	2	2	4	3	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:31504963C>T	uc002eci.1	-	8	931	c.919G>A	c.(919-921)GAC>AAC	p.D307N	C16orf58_uc002ech.1_5'UTR|C16orf58_uc010vfq.1_Missense_Mutation_p.D165N	NM_022744	NP_073581	Q96GQ5	CP058_HUMAN	hypothetical protein LOC64755	307						integral to membrane				ovary(1)|breast(1)	2						GCAGTTGGGTCGAGTACCTCT	0.637													7	38					0	0	0.004482	0	0		T	31504963	T	T	31504963	3	4	202	1	0	0	0	0	1	0	0	0	1825	884	31	1	511	1	C16orf58	16	31504963	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1502781	31504963	58849790	594	99482											
ADCY7	113	broad.mit.edu	37	chr16	50338359	50338359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcgtcagtgcgcatgacccGgtacctcgagtcctgggggg	5	7	17	12	4	1	1	1	1	0	0	3	2	2	1	3	5	2	2	3	5	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:50338359G>A	uc002egd.1	+	10	1725	c.1457G>A	c.(1456-1458)CGG>CAG	p.R486Q	ADCY7_uc002egb.1_Missense_Mutation_p.R486Q|ADCY7_uc002egc.1_Missense_Mutation_p.R486Q	NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	486	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	CGCATGACCCGGTACCTCGAG	0.701													8	63					0	0	0.008291	0	0		A	50338359	A	A	50338359	3	1	202	1	0	0	0	0	1	0	0	0	299	1116	39	1	1495	1	ADCY7	16	50338359	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	18833396	50338359	40016394	595	99483											
RBL2	5934	broad.mit.edu	37	chr16	53513902	53513905	+	Splice_Site	DEL	AAGT	-	-																															acagaactaaacaaagatagAagtaagtgggatctttgtga																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:53513902_53513905delAAGT	uc002ehi.3	+	19	2999	c.2881_splice	c.e19+1	p.T961_splice	RBL2_uc002ehj.2_Splice_Site_p.T671_splice|RBL2_uc010vgw.1_Intron	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)						cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						ACAAAGATAGAAGTAAGTGGGATC	0.328													5	11	---	---	---	---						.	-	53513905	-	-	53513902	8	5	202	1	0	1	0	1	0	0	1	0	13135	260	9	0	2954	0	RBL2	16	53513902	Splice_Site	DEL	AAGT	TCGA-HJ-7597-01A-21D-2201-08	3175543	53513902	36840851	596	99484											
IRX6	79190	broad.mit.edu	37	chr16	55362691	55362691	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaggaggaggaggaggaGgaagctgaagacgaggaggt	15	2	22	2	1	0	3	0	1	0	2	0	12	0	10	0	8	1	1	0	8	3	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:55362691G>T	uc002ehy.2	+	5	1334	c.801G>T	c.(799-801)GAG>GAT	p.E267D	IRX6_uc002ehx.2_Missense_Mutation_p.E267D	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	267						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						aggaggaggaggaagctgaag	0.502													12	34					4.93089e-13	5.28714e-13	0.00245	1	0		T	55362691	T	T	55362691	3	4	202	1	0	0	0	0	1	0	0	0	7864	991	35	5	819	5	IRX6	16	55362691	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1848789	55362691	34992062	597	99485											
NUP93	9688	broad.mit.edu	37	chr16	56782290	56782290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggcgggagagcgcctgcGttcccgtaccctaacacgca	8	5	13	15	5	0	1	0	0	0	1	1	2	1	1	3	2	4	4	3	2	2	3	rs146068835		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:56782290G>A	uc002eka.2	+	2	252	c.131G>A	c.(130-132)CGT>CAT	p.R44H		NM_014669	NP_055484	Q8N1F7	NUP93_HUMAN	nucleoporin 93kDa	44					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(1)|lung(1)	2						GAGCGCCTGCGTTCCCGTACC	0.587													8	15					0	0	0.00308	0	0		A	56782290	A	A	56782290	3	1	202	1	0	0	0	0	1	0	0	0	10791	1145	40	1	133	1	NUP93	16	56782290	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1419599	56782290	33572463	598	99486											
CDH16	1014	broad.mit.edu	37	chr16	66946576	66946576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcacttaccaccctctgCgcctgccaggtccatggcca	7	7	10	17	1	1	0	0	0	1	0	2	0	2	0	6	3	3	1	6	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:66946576C>T	uc002eql.2	-	10	1346	c.1273G>A	c.(1273-1275)GCA>ACA	p.A425T	CDH16_uc010cdy.2_Missense_Mutation_p.A425T|CDH16_uc002eqm.2_Missense_Mutation_p.A328T	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	425	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		CCACCCTCTGCGCCTGCCAGG	0.642													10	26					0	0	0.006214	0	0		T	66946576	T	T	66946576	3	4	202	1	0	0	0	0	1	0	0	0	3104	768	27	1	1252	1	CDH16	16	66946576	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	10164286	66946576	23408177	599	99487											
CES8	283848	broad.mit.edu	37	chr16	67029732	67029732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgctaccacctacccgcctgGgtaagagtcagaggcctgtc	8	8	11	14	1	1	2	1	0	0	2	2	2	1	2	5	2	3	2	5	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:67029732G>A	uc002eqv.2	+	2	303	c.260G>A	c.(259-261)GGG>GAG	p.G87E	CES8_uc010vix.1_Missense_Mutation_p.G87E|CES8_uc002eqw.2_Missense_Mutation_p.G47E	NM_173815	NP_776176	Q5XG92	EST4A_HUMAN	carboxylesterase 8 (putative)	87						extracellular region	carboxylesterase activity				0						TACCCGCCTGGGTAAGAGTCA	0.552													4	43					0	0	0.000602	0	0		A	67029732	A	A	67029732	3	1	202	1	0	0	0	0	1	0	0	0	3276	1246	43	4	335	4	CES8	16	67029732	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	83156	67029732	23325021	600	99488											
FHOD1	29109	broad.mit.edu	37	chr16	67271561	67271561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagggacagtctctgaccGgtggtgctggccacagagtt	9	8	15	9	1	1	2	0	1	1	1	2	4	1	3	2	4	1	2	2	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:67271561G>A	uc002esl.2	-	7	865	c.753C>T	c.(751-753)ACC>ACT	p.T251T	FHOD1_uc010ced.2_Silent_p.T58T|FHOD1_uc010vjh.1_5'UTR	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	251	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		GTCTCTGACCGGTGGTGCTGG	0.572													4	63					0	0	0.000602	0	0		A	67271561	A	A	67271561	2	1	202	1	0	0	0	0	0	0	0	1	5896	1130	39	1		1	FHOD1	16	67271561	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	241829	67271561	23083192	601	99489											
FAM65A	79567	broad.mit.edu	37	chr16	67575405	67575405	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gtgagaccaaggacctgtttGccgccctgccccaggttgtg	6	9	13	13	1	0	1	0	1	0	1	0	3	0	2	6	2	2	2	6	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:67575405G>A	uc010vjp.1	+	11	1030	c.934G>A	c.(934-936)GCC>ACC	p.A312T	FAM65A_uc010cei.1_Missense_Mutation_p.A134T|FAM65A_uc002eth.2_Missense_Mutation_p.A292T|FAM65A_uc010cej.2_Missense_Mutation_p.A295T|FAM65A_uc002eti.1_Missense_Mutation_p.A255T|FAM65A_uc010vjq.1_Missense_Mutation_p.A306T|FAM65A_uc002etj.1_Missense_Mutation_p.A291T|FAM65A_uc002etk.2_Missense_Mutation_p.A291T	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	296						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		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)		GGACCTGTTTGCCGCCCTGCC	0.567													6	132					0	0	0.001168	0	0		A	67575405	A	A	67575405	3	1	202	1	0	0	0	0	1	0	0	0	5613	1319	46	2	912	2	FAM65A	16	67575405	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	303844	67575405	22779348	602	99490											
RLTPR	146206	broad.mit.edu	37	chr16	67683831	67683831	+	Missense_Mutation	SNP	A	G	G	1	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	gaacgacgtggcccaggcgcAgcgcagccgcccggaactga	9	2	15	15	6	0	1	0	1	0	0	0	4	0	2	3	3	4	2	3	3	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:67683831A>G	uc002etn.2	+	21	2162	c.2042A>G	c.(2041-2043)CAG>CGG	p.Q681R	RLTPR_uc010cel.1_Missense_Mutation_p.Q674R|RLTPR_uc010vjr.1_Missense_Mutation_p.Q645R	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	681	LRR 16.									breast(1)	1		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)		GCCCAGGCGCAGCGCAGCCGC	0.647													6	17					0	0	0.001984	0	0		G	67683831	G	G	67683831	3	3	202	1	0	0	0	0	1	0	0	0	13419	188	7	3	2124	3	RLTPR	16	67683831	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	108426	67683831	22670922	603	99491											
CDH1	999	broad.mit.edu	37	chr16	68844111	68844111	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttctttcagctcttctctcaCgctgtgtcatccaacgggaa	7	14	7	13	2	6	0	3	0	3	0	8	1	7	1	1	1	2	2	1	1	2	3	rs115494727	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:68844111C>T	uc002ewg.1	+	6	823	c.699C>T	c.(697-699)CAC>CAT	p.H233H	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Silent_p.H233H	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	233	Cadherin 1.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding	p.?(2)|p.H233Q(1)		breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		TCTTCTCTCACGCTGTGTCAT	0.527			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				29	82					0	0	0.002096	0	0		T	68844111	T	T	68844111	2	4	202	1	0	0	0	0	0	0	0	1	3098	535	19	1		1	CDH1	16	68844111	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1160280	68844111	21510642	604	99492											
COG8	84342	broad.mit.edu	37	chr16	69368569	69368569	+	Missense_Mutation	SNP	A	G	G	1	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	ggagcaccatgggtggctgcAgcgtccccggctgggtggct	4	7	18	12	2	0	0	0	0	0	0	1	1	1	1	3	6	3	5	3	6	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:69368569A>G	uc002ewy.2	-	3	1339	c.1268T>C	c.(1267-1269)CTG>CCG	p.L423P	COG8_uc002ewz.3_Missense_Mutation_p.L423P	NM_032382	NP_115758	Q96MW5	COG8_HUMAN	component of oligomeric golgi complex 8	423					protein transport	Golgi membrane|Golgi transport complex				ovary(1)	1						GGGTGGCTGCAGCGTCCCCGG	0.582													11	64					0	0	0.00245	0	0		G	69368569	G	G	69368569	3	3	202	1	0	0	0	0	1	0	0	0	3667	188	7	3	582	3	COG8	16	69368569	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	524458	69368569	20986184	605	99493											
TERF2	7014	broad.mit.edu	37	chr16	69400708	69400708	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctacaaagaaggtcttcatActtgggattcttctctccag	10	14	7	10	0	5	1	1	0	4	1	7	2	6	2	1	2	2	0	1	2	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:69400708A>G	uc002exd.2	-	7	1339	c.1214_splice	c.e7+1	p.K405_splice		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2						age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				AGGTCTTCATACTTGGGATTC	0.537													6	28					0	0	0.001168	0	0		G	69400708	G	G	69400708	5	3	202	1	0	0	0	0	0	0	1	0	15787	405	14	3	302	3	TERF2	16	69400708	Splice_Site	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	32139	69400708	20954045	606	99494											
NFAT5	10725	broad.mit.edu	37	chr16	69726958	69726958	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgtcacttcaatctggaaAttttttgcagcagtcttctc	9	16	7	9	0	5	0	2	0	3	0	6	2	5	1	0	1	2	2	0	1	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:69726958A>T	uc002exm.1	+	12	4384	c.3176A>T	c.(3175-3177)AAT>ATT	p.N1059I	NFAT5_uc002exi.2_Missense_Mutation_p.N983I|NFAT5_uc002exj.1_Missense_Mutation_p.N983I|NFAT5_uc002exk.1_Missense_Mutation_p.N983I|NFAT5_uc002exl.1_Missense_Mutation_p.N1077I|NFAT5_uc002exn.1_Missense_Mutation_p.N1076I|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1059					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						CAATCTGGAAATTTTTTGCAG	0.413													13	61					0	0	0.003163	0	0		T	69726958	T	T	69726958	3	4	202	1	0	0	0	0	1	0	0	0	10379	101	4	5	3280	5	NFAT5	16	69726958	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	326250	69726958	20627795	607	99495											
GAN	8139	broad.mit.edu	37	chr16	81390507	81390507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcaaagagtgtagcaatAtaccgctcagccagccgcag	12	8	10	11	2	2	1	2	0	0	1	2	1	2	1	3	0	4	4	3	0	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:81390507A>G	uc002fgo.2	+	4	899	c.751A>G	c.(751-753)ATA>GTA	p.I251V		NM_022041	NP_071324	Q9H2C0	GAN_HUMAN	gigaxonin	251					cell death	cytoplasm|neurofilament	protein binding			ovary(2)	2		Colorectal(91;0.153)				GTGTAGCAATATACCGCTCAG	0.507													18	112					0	0	0.008871	0	0		G	81390507	G	G	81390507	3	3	202	1	0	0	0	0	1	0	0	0	6247	449	16	3	765	3	GAN	16	81390507	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	11663549	81390507	8964246	608	99496											
CMIP	80790	broad.mit.edu	37	chr16	81712153	81712153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgcctcatggtcagcccCgcctgcagcaccatgagcat	8	7	10	16	1	2	1	2	1	0	0	2	2	2	1	5	1	5	3	5	1	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:81712153C>T	uc002fgp.2	+	10	1380	c.1308C>T	c.(1306-1308)CCC>CCT	p.P436P	CMIP_uc002fgq.1_Silent_p.P342P|CMIP_uc010vnq.1_Silent_p.P249P|CMIP_uc002fgr.1_Silent_p.P283P	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	402						cytoplasm|nucleus					0						TGGTCAGCCCCGCCTGCAGCA	0.617													5	15					0	0	0.00308	0	0		T	81712153	T	T	81712153	2	4	202	1	0	0	0	0	0	0	0	1	3581	639	23	1		1	CMIP	16	81712153	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	321646	81712153	8642600	609	99497											
SLC38A8	146167	broad.mit.edu	37	chr16	84050849	84050849	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggtaggacatcaagacGtcagcagaaacttctgtccc	11	8	10	12	1	3	2	2	0	1	2	4	3	4	3	2	2	2	2	2	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:84050849G>A	uc002fhg.1	-	7	849	c.849C>T	c.(847-849)GAC>GAT	p.D283D		NM_001080442	NP_001073911	A6NNN8	S38A8_HUMAN	solute carrier family 38, member 8	283					amino acid transport|sodium ion transport	integral to membrane					0						ACATCAAGACGTCAGCAGAAA	0.517													11	43					0	0	0.001855	0	0		A	84050849	A	A	84050849	2	1	202	1	0	0	0	0	0	0	0	1	14635	1136	40	1		1	SLC38A8	16	84050849	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2338696	84050849	6303904	610	99498											
C16orf74	404550	broad.mit.edu	37	chr16	85743813	85743813	+	Frame_Shift_Del	DEL	G	-	-																															agcatcatgcccgtgggggtGgggggcgtgatgatgatgtc																								rs112376688		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:85743813delG	uc002fjc.3	-	3	305	c.129delC	c.(127-129)CCCfs	p.P43fs		NM_206967	NP_996850	Q96GX8	CP074_HUMAN	MGC17624 protein	43											0						CCGTGGGGGTGGGGGGCGTGA	0.672													5	8	---	---	---	---						.	-	85743813	-	-	85743813	7	5	202	1	0	1	0	1	0	0	0	0	1836	1335	47	0	109	0	C16orf74	16	85743813	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	1692964	85743813	4610940	611	99499											
ANKRD11	29123	broad.mit.edu	37	chr16	89337294	89337294	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcgggcgttgaaacggtcGcgcactgacttgttctcgtc	5	11	14	11	6	1	2	0	2	1	0	4	2	1	2	0	3	1	3	0	3	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr16:89337294G>A	uc002fmx.1	-	12	8198	c.7737C>T	c.(7735-7737)CGC>CGT	p.R2579R	ANKRD11_uc002fmy.1_Silent_p.R2579R|uc002fmz.1_RNA	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2579						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TGAAACGGTCGCGCACTGACT	0.597													4	49					0	0	0.009096	0	0		A	89337294	A	A	89337294	2	1	202	1	0	0	0	0	0	0	0	1	639	1074	38	1		1	ANKRD11	16	89337294	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	3593481	89337294	1017459	612	99500											
TSR1	55720	broad.mit.edu	37	chr17	2237832	2237832	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaaagggaaagggtctccGggggcatctatctgtttcat	9	13	12	7	1	4	0	1	0	3	0	5	1	4	1	1	4	0	2	1	4	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:2237832G>A	uc002fuj.2	-	5	1872	c.915C>T	c.(913-915)CCC>CCT	p.P305P	SGSM2_uc002fum.3_5'Flank|SGSM2_uc010vqw.1_5'Flank|SGSM2_uc002fun.3_5'Flank	NM_018128	NP_060598	Q2NL82	TSR1_HUMAN	TSR1, 20S rRNA accumulation	305					ribosome assembly	nucleolus	protein binding			ovary(1)	1						AAGGGTCTCCGGGGGCATCTA	0.418													34	47					0	0	0.007835	0	0		A	2237832	A	A	2237832	2	1	202	1	0	0	0	0	0	0	0	1	16690	1103	39	1		1	TSR1	17	2237832	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		2237832	78957378	613	99501											
MYBBP1A	10514	broad.mit.edu	37	chr17	4453567	4453567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactagcacggccagctgccGctcagggtcatcctggcacc	7	6	11	17	2	2	0	2	0	0	0	3	0	3	0	4	3	3	4	4	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:4453567G>A	uc002fyb.3	-	9	1167	c.1105C>T	c.(1105-1107)CGG>TGG	p.R369W	MYBBP1A_uc002fxz.3_Missense_Mutation_p.R369W	NM_014520	NP_055335	Q9BQG0	MBB1A_HUMAN	MYB binding protein 1a isoform 2	369	Interaction with MYB (By similarity).				nucleocytoplasmic transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NLS-dependent protein nuclear import complex|nucleolus	DNA binding|DNA-directed DNA polymerase activity|transcription factor binding			ovary(1)|skin(1)	2						GCCAGCTGCCGCTCAGGGTCA	0.607													76	92					0	0	0.00361	0	0		A	4453567	A	A	4453567	3	1	202	1	0	0	0	0	1	0	0	0	10026	1086	38	1	2993	1	MYBBP1A	17	4453567	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2215735	4453567	76741643	614	99502											
GPR172B	55065	broad.mit.edu	37	chr17	4936399	4936399	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggccgacccccaccatgCagcagggagcttgcagccac	8	3	12	18	2	0	0	0	0	0	0	0	2	0	1	6	2	5	4	6	2	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:4936399C>T	uc002gap.3	-	5	1913	c.1200G>A	c.(1198-1200)CTG>CTA	p.L400L	GPR172B_uc002gao.3_Silent_p.L400L|GPR172B_uc010ckw.2_Silent_p.L278L|GPR172B_uc010ckx.2_3'UTR	NM_001104577	NP_001098047	Q9NWF4	RFT_HUMAN	G protein-coupled receptor 172B precursor	400						integral to plasma membrane	receptor activity|riboflavin transporter activity				0						CCCCACCATGCAGCAGGGAGC	0.617													17	37					0	0	0.010504	0	0		T	4936399	T	T	4936399	2	4	202	1	0	0	0	0	0	0	0	1	6685	697	25	2		2	GPR172B	17	4936399	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	482832	4936399	76258811	615	99503											
NUP88	4927	broad.mit.edu	37	chr17	5322735	5322737	+	In_Frame_Del	DEL	AAG	-	-																															ggccccgaaggcgaacgactAagaaggagctgtcttctccg																								rs146275519		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:5322735_5322737delAAG	uc002gbo.1	-	1	260_262	c.234_236delCTT	c.(232-237)TTCTTA>TTA	p.F78del	NUP88_uc010vsx.1_In_Frame_Del_p.F78del|NUP88_uc010cle.1_In_Frame_Del_p.F78del|NUP88_uc010vsy.1_In_Frame_Del_p.F78del|RPAIN_uc010vsz.1_5'Flank|RPAIN_uc002gbp.1_5'Flank|RPAIN_uc010vta.1_5'Flank|RPAIN_uc002gbq.2_5'Flank|RPAIN_uc010vtb.1_5'Flank|RPAIN_uc002gbs.2_5'Flank|RPAIN_uc002gbt.2_5'Flank|RPAIN_uc002gbu.2_5'Flank|RPAIN_uc002gbv.2_5'Flank|RPAIN_uc002gbr.2_5'Flank|RPAIN_uc002gbw.2_5'Flank	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	78					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						GCGAACGACTAAGAAGGAGCTGT	0.645													18	20	---	---	---	---						.	-	5322737	-	-	5322735	7	5	202	1	0	1	0	1	0	0	0	0	10790	372	13	0	2057	0	NUP88	17	5322735	In_Frame_Del	DEL	AAG	TCGA-HJ-7597-01A-21D-2201-08	386336	5322735	75872475	616	99504											
NLRP1	22861	broad.mit.edu	37	chr17	5442750	5442750	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttaccccaggcgtatgagtTtgcaggcaggatgcctgagc	8	9	13	11	1	0	2	0	2	0	0	0	3	0	3	3	3	4	4	3	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:5442750T>C	uc002gci.2	-	7	3410	c.2855A>G	c.(2854-2856)AAA>AGA	p.K952R	NLRP1_uc002gcg.1_Missense_Mutation_p.K952R|NLRP1_uc002gck.2_Missense_Mutation_p.K952R|NLRP1_uc002gcj.2_Missense_Mutation_p.K952R|NLRP1_uc002gcl.2_Missense_Mutation_p.K952R|NLRP1_uc002gch.3_Missense_Mutation_p.K952R|NLRP1_uc010clh.2_Missense_Mutation_p.K952R	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	952	LRR 6.				defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GCGTATGAGTTTGCAGGCAGG	0.557													5	42					0	0	0.001984	0	0		C	5442750	C	C	5442750	3	2	202	1	0	0	0	0	1	0	0	0	10490	1841	64	3	1685	3	NLRP1	17	5442750	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	120015	5442750	75752460	617	99505											
WSCD1	23302	broad.mit.edu	37	chr17	6023723	6023723	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggctgctggtggtgcactaCgaggagctgcggcgcagcct	5	7	17	12	4	0	0	0	0	0	0	0	2	0	1	1	5	6	5	1	5	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:6023723C>T	uc010cli.2	+	9	1849	c.1470C>T	c.(1468-1470)TAC>TAT	p.Y490Y	WSCD1_uc002gcn.2_Silent_p.Y490Y|WSCD1_uc002gco.2_Silent_p.Y490Y|WSCD1_uc010clj.2_Silent_p.Y181Y	NM_015253	NP_056068	Q658N2	WSCD1_HUMAN	WSC domain containing 1	490						integral to membrane	sulfotransferase activity				0						TGGTGCACTACGAGGAGCTGC	0.627													47	64					0	0	0.00361	0	0		T	6023723	T	T	6023723	2	4	202	1	0	0	0	0	0	0	0	1	17432	547	19	1		1	WSCD1	17	6023723	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	580973	6023723	75171487	618	99506											
CLEC10A	10462	broad.mit.edu	37	chr17	6978442	6978442	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtagggcctctggcagacGtcgtcattccacctgccgtc	5	10	12	14	3	2	1	1	0	1	1	5	1	3	1	4	3	1	2	4	3	1	2	rs139844327	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:6978442G>A	uc002gek.2	-	9	1185	c.882C>T	c.(880-882)GAC>GAT	p.D294D	CLEC10A_uc002gej.2_Silent_p.D270D|CLEC10A_uc002gel.2_Silent_p.D267D|CLEC10A_uc010clv.1_3'UTR	NM_182906	NP_878910	Q8IUN9	CLC10_HUMAN	C-type lectin, superfamily member 14 isoform 1	294	C-type lectin.|Extracellular (Potential).				endocytosis|innate immune response	integral to membrane|plasma membrane	sugar binding				0						TCTGGCAGACGTCGTCATTCC	0.657													32	50					0	0	0.003755	0	0		A	6978442	A	A	6978442	2	1	202	1	0	0	0	0	0	0	0	1	3498	1136	40	1		1	CLEC10A	17	6978442	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	954719	6978442	74216768	619	99507											
TP53	7157	broad.mit.edu	37	chr17	7578475	7578475	+	Frame_Shift_Del	DEL	G	-	-																															cgcggacgcgggtgccgggcGggggtgtggaatcaacccac																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:7578475delG	uc002gim.2	-	5	649	c.455delC	c.(454-456)CCGfs	p.P152fs	TP53_uc002gig.1_Frame_Shift_Del_p.P152fs|TP53_uc002gih.2_Frame_Shift_Del_p.P152fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.P20fs|TP53_uc010cng.1_Frame_Shift_Del_p.P20fs|TP53_uc002gii.1_Frame_Shift_Del_p.P20fs|TP53_uc010cnh.1_Frame_Shift_Del_p.P152fs|TP53_uc010cni.1_Frame_Shift_Del_p.P152fs|TP53_uc002gij.2_Frame_Shift_Del_p.P152fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.P59fs|TP53_uc002gio.2_Frame_Shift_Del_p.P20fs|TP53_uc010vug.1_Frame_Shift_Del_p.P113fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	152	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> R (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).|P -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> Q (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P152L(57)|p.P152S(21)|p.P152fs*18(17)|p.P152T(7)|p.0?(7)|p.P152fs*29(5)|p.P152P(5)|p.P152Q(4)|p.P153fs*28(4)|p.P152fs*14(4)|p.P152fs*28(3)|p.P152R(3)|p.T150fs*16(3)|p.P152A(2)|p.P153fs*16(1)|p.P151_V173del23(1)|p.P152_P153del(1)|p.D148_T155delDSTPPPGT(1)|p.T150_P153delTPPP(1)|p.D148fs*23(1)|p.P152del(1)|p.S149fs*72(1)|p.S149fs*17(1)|p.Q144_G154del11(1)|p.P152_P153insXXX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGTGCCGGGCGGGGGTGTGGA	0.612		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			38	57	---	---	---	---						.	-	7578475	-	-	7578475	7	5	202	1	0	1	0	1	0	0	0	0	16407	1116	39	0	843	0	TP53	17	7578475	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	600033	7578475	73616735	620	99508											
KDM6B	23135	broad.mit.edu	37	chr17	7753244	7753244	+	Frame_Shift_Del	DEL	C	-	-																															ctgccccgggaaaaactcaaCccccctacacccagcatcta																								rs147319715		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:7753244delC	uc002giw.1	+	12	3922	c.3546delC	c.(3544-3546)AACfs	p.N1182fs	KDM6B_uc002gix.2_Frame_Shift_Del_p.N484fs	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	1182					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						AAAAACTCAACCCCCCTACAC	0.552													93	172	---	---	---	---						.	-	7753244	-	-	7753244	7	5	202	1	0	1	0	1	0	0	0	0	8154	506	18	0	3580	0	KDM6B	17	7753244	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	174769	7753244	73441966	621	99509											
MYH10	4628	broad.mit.edu	37	chr17	8380246	8380246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcaggccctcgttggcctCggtggcatcatccagttccc	4	10	11	16	2	2	0	2	0	0	0	6	0	4	0	4	4	0	4	4	4	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:8380246C>T	uc002gll.2	-	40	5830	c.5734G>A	c.(5734-5736)GAG>AAG	p.E1912K	MYH10_uc002glm.2_Missense_Mutation_p.E1943K|MYH10_uc010cnx.2_Missense_Mutation_p.E1921K	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	1912	Potential.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TCGTTGGCCTCGGTGGCATCA	0.617													13	19					0	0	0.00245	0	0		T	8380246	T	T	8380246	3	4	202	1	0	0	0	0	1	0	0	0	10048	893	31	1	204	1	MYH10	17	8380246	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	627002	8380246	72814964	622	99510											
MYH2	4620	broad.mit.edu	37	chr17	10429940	10429940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcctccagctcctctgtgCgctggatggcgtccgtctcg	2	11	11	17	4	2	0	0	0	2	0	7	1	6	1	5	2	2	2	5	2	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:10429940C>T	uc010coi.2	-	30	4291	c.4163G>A	c.(4162-4164)CGC>CAC	p.R1388H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R1388H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1388	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle	p.R1388H(1)		ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CTCCTCTGTGCGCTGGATGGC	0.512													50	79					0	0	0.00361	0	0		T	10429940	T	T	10429940	3	4	202	1	0	0	0	0	1	0	0	0	10053	768	27	1	1706	1	MYH2	17	10429940	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2049694	10429940	70765270	623	99511											
NCOR1	9611	broad.mit.edu	37	chr17	16024467	16024467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcatggacctggtgatcCggcccttacggcggccctga	5	10	13	13	3	1	2	1	2	0	0	2	3	2	3	4	5	1	0	4	5	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:16024467C>T	uc002gpo.2	-	16	1991	c.1751G>A	c.(1750-1752)CGG>CAG	p.R584Q	NCOR1_uc002gpn.2_Missense_Mutation_p.R584Q|NCOR1_uc002gpp.1_Missense_Mutation_p.R475Q|NCOR1_uc002gpr.2_Missense_Mutation_p.R475Q	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	584					cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CCTGGTGATCCGGCCCTTACG	0.607													46	80					0	0	0.00361	0	0		T	16024467	T	T	16024467	3	4	202	1	0	0	0	0	1	0	0	0	10254	652	23	1	5695	1	NCOR1	17	16024467	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5594527	16024467	65170743	624	99512											
RAI1	10743	broad.mit.edu	37	chr17	17701303	17701303	+	Missense_Mutation	SNP	A	G	G	1	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	ctgtggtttccaaggccctgAgtacctcttgccttgtttgc	4	15	10	12	0	1	1	0	1	1	0	2	1	2	1	4	2	3	3	4	2	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:17701303A>G	uc002grm.2	+	3	5510	c.5041A>G	c.(5041-5043)AGT>GGT	p.S1681G	RAI1_uc002grn.1_Missense_Mutation_p.S1681G	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	1681						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		CAAGGCCCTGAGTACCTCTTG	0.627													7	78					0	0	0.004482	0	0		G	17701303	G	G	17701303	3	3	202	1	0	0	0	0	1	0	0	0	13032	304	11	3	5043	3	RAI1	17	17701303	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1676836	17701303	63493907	625	99513											
SREBF1	6720	broad.mit.edu	37	chr17	17722871	17722871	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgggacctgctggatctgcGaggtcacagtggtcgttaca	7	9	14	11	3	2	0	1	0	1	0	3	3	2	2	2	4	3	2	2	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:17722871G>A	uc002gru.1	-	3	886	c.692C>T	c.(691-693)TCG>TTG	p.S231L	SREBF1_uc002grp.1_5'Flank|SREBF1_uc002grq.1_5'UTR|SREBF1_uc002grr.1_5'UTR|SREBF1_uc002grs.1_Missense_Mutation_p.S207L|SREBF1_uc002grt.1_Missense_Mutation_p.S261L|SREBF1_uc010cpp.1_Missense_Mutation_p.S207L|SREBF1_uc010cpq.1_Missense_Mutation_p.S231L	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	231	Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						CTGGATCTGCGAGGTCACAGT	0.667													12	26					0	0	0.001368	0	0		A	17722871	A	A	17722871	3	1	202	1	0	0	0	0	1	0	0	0	15166	1059	37	1	2819	1	SREBF1	17	17722871	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	21568	17722871	63472339	626	99514											
MYO15A	51168	broad.mit.edu	37	chr17	18023440	18023440	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggaaccagaggacgcgggCgtagagcgtcaggggacctc	10	3	18	10	4	1	2	1	0	0	2	2	6	1	5	2	5	2	1	2	5	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:18023440C>T	uc010vxh.1	+	2	1664	c.1326C>T	c.(1324-1326)GGC>GGT	p.G442G		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	442	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					AGGACGCGGGCGTAGAGCGTC	0.657													17	50					0	0	0.008871	0	0		T	18023440	T	T	18023440	2	4	202	1	0	0	0	0	0	0	0	1	10081	755	27	1		1	MYO15A	17	18023440	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	300569	18023440	63171770	627	99515											
FBXW10	10517	broad.mit.edu	37	chr17	18673378	18673378	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggtgatcctgtgctgtcCttctttattcagggcaacag	8	13	11	9	0	2	2	1	1	1	1	4	2	4	2	2	2	2	2	2	2	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:18673378C>T	uc002guk.2	+	11	2218	c.1986C>T	c.(1984-1986)TCC>TCT	p.S662S	FBXW10_uc002guj.2_Silent_p.S662S|FBXW10_uc002gul.2_Silent_p.S691S|FBXW10_uc010cqh.1_Intron	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	662										ovary(1)	1						CTGTGCTGTCCTTCTTTATTC	0.473													70	181					0	0	0.00361	0	0		T	18673378	T	T	18673378	2	4	202	1	0	0	0	0	0	0	0	1	5777	668	24	4		4	FBXW10	17	18673378	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	649938	18673378	62521832	628	99516											
EPN2	22905	broad.mit.edu	37	chr17	19186802	19186802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaccagggcatcaatgtgCgtgagaagtcaaagcaactg	14	6	13	8	1	2	1	2	1	0	1	2	3	2	2	1	2	3	2	1	2	4	0	rs139687943		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:19186802C>T	uc002gvd.3	+	3	818	c.370C>T	c.(370-372)CGT>TGT	p.R124C	EPN2_uc002gvc.2_Missense_Mutation_p.R124C|EPN2_uc010vyn.1_Missense_Mutation_p.R124C|EPN2_uc010cql.1_Intron|EPN2_uc002gve.3_Missense_Mutation_p.R124C|EPN2_uc002gvf.3_Intron|EPN2_uc010vyo.1_Intron|EPN2_uc002gvg.1_Missense_Mutation_p.R124C|EPN2_uc010vyp.1_Missense_Mutation_p.R124C|EPN2_uc010vyq.1_Missense_Mutation_p.R124C|EPN2_uc002gvh.1_Missense_Mutation_p.R124C	NM_014964	NP_055779	O95208	EPN2_HUMAN	epsin 2 isoform b	124	ENTH.				endocytosis		lipid binding			skin(1)	1	all_cancers(12;3.11e-05)|all_epithelial(12;0.00121)|Hepatocellular(7;0.00345)|Breast(13;0.143)					CATCAATGTGCGTGAGAAGTC	0.572													21	29					0	0	0.004656	0	0		T	19186802	T	T	19186802	3	4	202	1	0	0	0	0	1	0	0	0	5194	768	27	1	372	1	EPN2	17	19186802	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	513424	19186802	62008408	629	99517											
WSB1	26118	broad.mit.edu	37	chr17	25630636	25630636	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagggttgaacaatgggcgTatcaaaatatgggatgtata	15	10	12	4	1	1	1	1	1	0	0	1	2	1	2	0	3	1	3	0	3	8	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:25630636T>A	uc002gzd.1	+	3	769	c.453T>A	c.(451-453)CGT>CGA	p.R151R	WSB1_uc010vzy.1_Silent_p.R151R|WSB1_uc010vzz.1_Silent_p.R120R|WSB1_uc010crf.1_Intron|WSB1_uc002gze.1_Intron|WSB1_uc002gzf.1_RNA	NM_015626	NP_056441	Q9Y6I7	WSB1_HUMAN	WD repeat and SOCS box-containing 1 isoform 1	151	WD 2.				intracellular signal transduction	intracellular	protein binding				0	all_cancers(1;2e-13)|all_epithelial(1;4.8e-15)|Lung NSC(42;0.00152)		BRCA - Breast invasive adenocarcinoma(3;0.0152)	UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		ACAATGGGCGTATCAAAATAT	0.388													29	69					0	0	0.004878	0	0		A	25630636	A	A	25630636	2	1	202	1	0	0	0	0	0	0	0	1	17430	1625	57	5		5	WSB1	17	25630636	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	6443834	25630636	55564574	630	99518											
PIGS	94005	broad.mit.edu	37	chr17	26881438	26881438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtcacagcttcctggctggCgacaaaggcagatgccaggt	9	8	13	11	1	1	1	1	0	0	1	2	2	2	1	2	4	2	3	2	4	1	1	rs61755367	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:26881438C>T	uc002hbo.2	-	12	1841	c.1468G>A	c.(1468-1470)GCC>ACC	p.A490T	UNC119_uc002hbk.2_5'Flank|UNC119_uc002hbm.2_5'Flank|PIGS_uc002hbn.2_Missense_Mutation_p.A482T|PIGS_uc010wap.1_Missense_Mutation_p.A429T	NM_033198	NP_149975	Q96S52	PIGS_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	490	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation	GPI-anchor transamidase complex	protein binding			breast(2)|urinary_tract(1)|kidney(1)	4	Lung NSC(42;0.00431)					TCCTGGCTGGCGACAAAGGCA	0.547													32	98					0	0	0.002445	0	0		T	26881438	T	T	26881438	3	4	202	1	0	0	0	0	1	0	0	0	11917	768	27	1	203	1	PIGS	17	26881438	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1250802	26881438	54313772	631	99519											
NEK8	284086	broad.mit.edu	37	chr17	27067956	27067956	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacccctggaccaggagcCtctgctgagtatagacctgg	8	8	12	13	0	1	2	0	1	1	1	1	4	1	4	5	3	3	3	5	3	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:27067956C>A	uc002hcp.2	+	12	1685	c.1685C>A	c.(1684-1686)CCT>CAT	p.P562H		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	562						cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					GACCAGGAGCCTCTGCTGAGT	0.627													3	31					0.00024832	0.000255423	0.009096	1	0		A	27067956	A	A	27067956	3	1	202	1	0	0	0	0	1	0	0	0	10349	681	24	5	1731	5	NEK8	17	27067956	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	186518	27067956	54127254	632	99520											
SLC6A4	6532	broad.mit.edu	37	chr17	28536212	28536212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgcgacagtgagcactgCgggccccgtggcatactcct	7	6	13	15	4	0	1	0	1	0	0	1	2	1	1	3	2	4	2	3	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:28536212C>T	uc002hey.3	-	12	2042	c.1498G>A	c.(1498-1500)GCA>ACA	p.A500T	SLC6A4_uc010csg.2_Intron	NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	500	Helical; Name=10; (Potential).				response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	GTGAGCACTGCGGGCCCCGTG	0.632													28	72					0	0	0.003755	0	0		T	28536212	T	T	28536212	3	4	202	1	0	0	0	0	1	0	0	0	14711	768	27	1	410	1	SLC6A4	17	28536212	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1468256	28536212	52658998	633	99521											
EVI2A	2123	broad.mit.edu	37	chr17	29645465	29645465	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caagtgtctgattcagcgggCcatagaccgcttgccagaaa	11	8	11	11	2	2	3	1	1	1	2	2	3	2	3	3	1	2	1	3	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:29645465C>T	uc002hgm.2	-	2	782	c.567G>A	c.(565-567)TGG>TGA	p.W189*	NF1_uc002hgg.2_Intron|NF1_uc002hgh.2_Intron|NF1_uc002hgi.1_Intron|NF1_uc010cso.2_Intron|EVI2A_uc002hgl.2_Nonsense_Mutation_p.W212*	NM_014210	NP_055025	P22794	EVI2A_HUMAN	ecotropic viral integration site 2A isoform 2	189	Cytoplasmic (Potential).					integral to membrane	transmembrane receptor activity			ovary(1)|breast(1)	2		all_cancers(10;6.97e-11)|all_epithelial(10;0.0051)|all_hematologic(16;0.0149)|Breast(31;0.0155)|Myeloproliferative disorder(56;0.0255)|Acute lymphoblastic leukemia(14;0.0257)|all_lung(9;0.0468)|Lung NSC(157;0.094)		UCEC - Uterine corpus endometrioid carcinoma (4;6.64e-05)|all cancers(4;5.94e-13)|Epithelial(4;7.98e-12)|OV - Ovarian serous cystadenocarcinoma(4;9.4e-12)|GBM - Glioblastoma multiforme(4;0.18)		ATTCAGCGGGCCATAGACCGC	0.473													6	12					0	0	0.001984	0	0		T	29645465	T	T	29645465	4	4	202	1	0	0	0	0	0	1	0	0	5295	740	26	2	147	2	EVI2A	17	29645465	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1109253	29645465	51549745	634	99522											
RASL10B	91608	broad.mit.edu	37	chr17	34068069	34068069	+	Silent	SNP	A	G	G	1	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	cacagggtgatcggaacctcAgagacgcccatcatcatcgt	11	7	10	13	3	3	2	3	1	0	1	5	4	3	3	2	2	1	0	2	2	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:34068069A>G	uc002hju.2	+	4	723	c.357A>G	c.(355-357)TCA>TCG	p.S119S		NM_033315	NP_201572	Q96S79	RSLAB_HUMAN	RAS-like, family 10, member B precursor	119	Small GTPase-like.				small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			lung(2)|breast(2)	4				UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TCGGAACCTCAGAGACGCCCA	0.637													4	43					0	0	0.009096	0	0		G	34068069	G	G	34068069	2	3	202	1	0	0	0	0	0	0	0	1	13105	175	7	3		3	RASL10B	17	34068069	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	4422604	34068069	47127141	635	99523											
GPR179	440435	broad.mit.edu	37	chr17	36489178	36489178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgctcactccaggctgaggCgatgctgctgccaaggtagg	7	8	15	11	1	1	1	1	1	0	0	2	2	2	1	2	4	4	5	2	4	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:36489178C>T	uc002hpz.2	-	10	2014	c.1993G>A	c.(1993-1995)GCC>ACC	p.A665T		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	665	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CAGGCTGAGGCGATGCTGCTG	0.612													10	31					0	0	0.008291	0	0		T	36489178	T	T	36489178	3	4	202	1	0	0	0	0	1	0	0	0	6689	768	27	1	5118	1	GPR179	17	36489178	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2421109	36489178	44706032	636	99524											
CDK12	51755	broad.mit.edu	37	chr17	37646922	37646922	+	Frame_Shift_Del	DEL	C	-	-																															tccctggtggagatctgtctCccccagactctccagaacca																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:37646922delC	uc010cvv.2	+	3	2630	c.2044delC	c.(2044-2046)CCCfs	p.P682fs	CDK12_uc010wef.1_Frame_Shift_Del_p.P681fs|CDK12_uc002hrw.3_Frame_Shift_Del_p.P682fs	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	682					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						AGATCTGTCTCCCCCAGACTC	0.468										TCGA Ovarian(9;0.13)			21	38	---	---	---	---						.	-	37646922	-	-	37646922	7	5	202	1	0	1	0	1	0	0	0	0	3131	855	30	0	2054	0	CDK12	17	37646922	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	1157744	37646922	43548288	637	99525											
KRT24	192666	broad.mit.edu	37	chr17	38855782	38855782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcaattgcttgtactctgcGttctggcatttagtctcacc	7	15	8	11	1	3	0	1	0	3	0	4	0	3	0	1	1	4	5	1	1	3	6	rs139679856		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:38855782G>A	uc002hvd.2	-	6	1332	c.1275C>T	c.(1273-1275)AAC>AAT	p.N425N		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	425	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				TGTACTCTGCGTTCTGGCATT	0.547													59	160					0	0	0.00361	0	0		A	38855782	A	A	38855782	2	1	202	1	0	0	0	0	0	0	0	1	8477	1136	40	1		1	KRT24	17	38855782	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1208860	38855782	42339428	638	99526											
KRT23	25984	broad.mit.edu	37	chr17	39092491	39092491	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgtgtgatgttttcctcaTactgggaataatctttctta	8	18	9	6	0	3	1	1	1	2	0	4	2	4	2	1	2	1	1	1	2	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:39092491T>C	uc002hvm.1	-	2	954	c.365A>G	c.(364-366)TAT>TGT	p.Y122C	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.Y122C|KRT23_uc002hvn.1_Missense_Mutation_p.Y122C	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	122	Rod.|Linker 1.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				GTTTTCCTCATACTGGGAATA	0.542													26	66					0	0	0.008361	0	0		C	39092491	C	C	39092491	3	2	202	1	0	0	0	0	1	0	0	0	8476	1406	49	3	935	3	KRT23	17	39092491	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	236709	39092491	42102719	639	99527											
KRT23	25984	broad.mit.edu	37	chr17	39092616	39092616	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtaggaggccaggcggtcGttgagattctgcatggtggc	7	9	18	7	2	1	1	0	1	1	1	2	3	1	2	1	7	1	3	1	7	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:39092616G>A	uc002hvm.1	-	2	829	c.240C>T	c.(238-240)AAC>AAT	p.N80N	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Silent_p.N80N|KRT23_uc002hvn.1_Silent_p.N80N	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	80	Rod.|Coil 1A.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				CCAGGCGGTCGTTGAGATTCT	0.612													51	98					0	0	0.00361	0	0		A	39092616	A	A	39092616	2	1	202	1	0	0	0	0	0	0	0	1	8476	1136	40	1		1	KRT23	17	39092616	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	125	39092616	42102594	640	99528											
KRT32	3882	broad.mit.edu	37	chr17	39622145	39622145	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaggccattgatgtcggcCtccaccagctgccgcatggc	6	7	12	16	3	0	1	0	1	0	0	2	1	1	1	5	3	2	3	5	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:39622145C>T	uc002hwr.2	-	3	649	c.588G>A	c.(586-588)GAG>GAA	p.E196E		NM_002278	NP_002269	Q14532	K1H2_HUMAN	keratin 32	196	Rod.|Coil 1B.				epidermis development	intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000812)				TGATGTCGGCCTCCACCAGCT	0.587													7	81					0	0	0.001984	0	0		T	39622145	T	T	39622145	2	4	202	1	0	0	0	0	0	0	0	1	8484	680	24	4		4	KRT32	17	39622145	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	529529	39622145	41573065	641	99529											
KRT14	3861	broad.mit.edu	37	chr17	39740077	39740077	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcttctcatactggtcacGcatctcgttcagaatgcggc	8	12	8	13	3	5	1	3	0	3	1	7	1	5	1	0	2	2	2	0	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:39740077G>A	uc002hxf.1	-	4	923	c.862C>T	c.(862-864)CGT>TGT	p.R288C	JUP_uc010wfs.1_Intron|KRT14_uc010cxp.1_Missense_Mutation_p.R288C	NM_000526	NP_000517	P02533	K1C14_HUMAN	keratin 14	288	Rod.|Coil 2.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.000307)				TACTGGTCACGCATCTCGTTC	0.557													41	125					0	0	0.002522	0	0		A	39740077	A	A	39740077	3	1	202	1	0	0	0	0	1	0	0	0	8467	1087	38	1	576	1	KRT14	17	39740077	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	117932	39740077	41455133	642	99530											
HSD17B1	3292	broad.mit.edu	37	chr17	40705214	40705214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccctggcatgccctcCgggatccctggagacgttgc	4	7	14	16	3	0	1	0	0	0	1	2	3	2	2	5	4	2	2	5	4	0	1	rs61738807		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:40705214C>T	uc002hzw.2	+	2	1138	c.170C>T	c.(169-171)CCG>CTG	p.P57L	HSD17B1_uc002hzx.2_Missense_Mutation_p.P57L|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_Missense_Mutation_p.G123R|HSD17B1_uc010cyi.2_Missense_Mutation_p.P88L	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	57					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	GCATGCCCTCCGGGATCCCTG	0.652													10	66					0	0	0.000978	0	0		T	40705214	T	T	40705214	3	4	202	1	0	0	0	0	1	0	0	0	7394	652	23	1	176	1	HSD17B1	17	40705214	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	965137	40705214	40489996	643	99531											
AOC2	314	broad.mit.edu	37	chr17	40997145	40997145	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctatcaccgtcgcccggtgCtgagagctgagtttacacag	8	9	11	13	3	1	2	1	2	0	1	2	3	1	2	3	1	3	3	3	1	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:40997145C>A	uc002ibu.2	+	1	537	c.502C>A	c.(502-504)CTG>ATG	p.L168M	AOC2_uc002ibt.2_Missense_Mutation_p.L168M	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	168					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		TCGCCCGGTGCTGAGAGCTGA	0.607													19	49					8.10497e-08	8.53395e-08	0.010504	1	0		A	40997145	A	A	40997145	3	1	202	1	0	0	0	0	1	0	0	0	727	796	28	5	504	5	AOC2	17	40997145	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	291931	40997145	40198065	644	99532											
ETV4	2118	broad.mit.edu	37	chr17	41606543	41606543	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataatagtatcggagcgagCggctcagcttgtcgtaattc	10	11	11	9	4	1	0	1	0	0	0	4	2	1	1	0	2	3	4	0	2	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:41606543C>T	uc002idw.2	-	12	1318	c.1190G>A	c.(1189-1191)CGC>CAC	p.R397H	ETV4_uc002idv.2_Missense_Mutation_p.R120H|ETV4_uc010wih.1_Missense_Mutation_p.R343H|ETV4_uc010czh.2_Missense_Mutation_p.R396H|ETV4_uc010wii.1_Missense_Mutation_p.R358H|ETV4_uc002idx.2_Missense_Mutation_p.R397H|ETV4_uc010wij.1_Missense_Mutation_p.R358H	NM_001986	NP_001977	P43268	ETV4_HUMAN	ets variant gene 4 (E1A enhancer binding	397	ETS.				positive regulation of transcription, DNA-dependent	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/ETV4(6)	bone(4)|soft_tissue(2)|ovary(1)	7		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0798)		TCGGAGCGAGCGGCTCAGCTT	0.562			T	EWSR1|TMPRSS2|DDX5|KLK2|CANT1	Ewing sarcoma|Prostate carcinoma								68	142					0	0	0.00361	0	0		T	41606543	T	T	41606543	3	4	202	1	0	0	0	0	1	0	0	0	5289	768	27	1	272	1	ETV4	17	41606543	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	609398	41606543	39588667	645	99533											
GPATCH8	23131	broad.mit.edu	37	chr17	42475981	42475981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacacttcttattgggctttCgggtagctgggagcttccct	5	14	11	11	1	1	0	0	0	1	0	3	1	2	1	1	3	2	4	1	3	2	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:42475981C>T	uc002igw.1	-	8	3528	c.3464G>A	c.(3463-3465)CGA>CAA	p.R1155Q	GPATCH8_uc002igv.1_Missense_Mutation_p.R1077Q|GPATCH8_uc010wiz.1_Missense_Mutation_p.R1077Q	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	1155						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		ATTGGGCTTTCGGGTAGCTGG	0.552													35	90					0	0	0.006999	0	0		T	42475981	T	T	42475981	3	4	202	1	0	0	0	0	1	0	0	0	6609	884	31	1	1048	1	GPATCH8	17	42475981	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	869438	42475981	38719229	646	99534											
ARHGAP27	201176	broad.mit.edu	37	chr17	43475388	43475388	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgagtcgtgctggatcaggTactcagagccatctcggctc	7	9	12	13	3	3	1	2	0	1	1	6	3	3	2	2	3	3	3	2	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:43475388T>C	uc002iix.2	-	10	1195	c.746A>G	c.(745-747)TAC>TGC	p.Y249C	ARHGAP27_uc010dak.2_Missense_Mutation_p.Y222C|ARHGAP27_uc010wjl.1_Missense_Mutation_p.Y368C	NM_199282	NP_954976	Q6ZUM4	RHG27_HUMAN	Rho GTPase activating protein 27 isoform a	590	PH.				positive regulation of Cdc42 GTPase activity|receptor-mediated endocytosis|signal transduction	cytoplasm|membrane	Rac GTPase activator activity|SH3 domain binding				0	Renal(3;0.0405)					CTGGATCAGGTACTCAGAGCC	0.612													17	63					0	0	0.00499	0	0		C	43475388	C	C	43475388	3	2	202	1	0	0	0	0	1	0	0	0	876	1638	57	3	932	3	ARHGAP27	17	43475388	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	999407	43475388	37719822	647	99535											
CRHR1	1394	broad.mit.edu	37	chr17	43907538	43907538	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcaacgccacctggttcgtGgtccagctaaccatgagccc	8	7	10	16	3	0	1	0	1	0	0	2	1	1	1	5	2	4	3	5	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:43907538G>A	uc010dap.2	+	7	865	c.600G>A	c.(598-600)GTG>GTA	p.V200V	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_Silent_p.V70V|CRHR1_uc002ijm.2_Silent_p.V171V|CRHR1_uc002ijn.2_Silent_p.V131V|CRHR1_uc010dar.2_Silent_p.V171V|CRHR1_uc010dao.2_Silent_p.V70V|CRHR1_uc010daq.2_Intron|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_RNA	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	200	Helical; Name=2; (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CCTGGTTCGTGGTCCAGCTAA	0.642													15	45					0	0	0.00499	0	0		A	43907538	A	A	43907538	2	1	202	1	0	0	0	0	0	0	0	1	3874	1335	47	4		4	CRHR1	17	43907538	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	432150	43907538	37287672	648	99536											
CRHR1	1394	broad.mit.edu	37	chr17	43912090	43912090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccccacctccccaacccGtgtcagctttcacagcatca	9	8	4	20	1	3	0	3	0	0	0	5	0	5	0	6	0	3	2	6	0	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:43912090G>A	uc010dap.2	+	14	1560	c.1295G>A	c.(1294-1296)CGT>CAT	p.R432H	CRHR1_uc010wjx.1_Missense_Mutation_p.R228H|CRHR1_uc002ijp.2_Missense_Mutation_p.V257M|CRHR1_uc002ijm.2_Missense_Mutation_p.R403H|CRHR1_uc002ijn.2_Missense_Mutation_p.R363H|CRHR1_uc010dar.2_Missense_Mutation_p.R389H|CRHR1_uc010dao.2_Missense_Mutation_p.R302H|CRHR1_uc010daq.2_Missense_Mutation_p.R228H	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	432	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		TCCCCAACCCGTGTCAGCTTT	0.642													34	80					0	0	0.009718	0	0		A	43912090	A	A	43912090	3	1	202	1	0	0	0	0	1	0	0	0	3874	1145	40	1	1349	1	CRHR1	17	43912090	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4552	43912090	37283120	649	99537											
HOXB3	3213	broad.mit.edu	37	chr17	46627995	46627995	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccccgttggcttggaggaCgtgcggctcatactcgggcg	4	8	16	13	5	1	0	1	0	0	0	2	2	1	2	2	5	2	3	2	5	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:46627995C>T	uc002inn.2	-	2	1397	c.997G>A	c.(997-999)GTC>ATC	p.V333I	HOXB3_uc010wlm.1_Missense_Mutation_p.V260I|HOXB3_uc010dbf.2_Missense_Mutation_p.V333I|HOXB3_uc010dbg.2_Missense_Mutation_p.V333I|HOXB3_uc002ino.2_Missense_Mutation_p.V333I|HOXB3_uc010wlk.1_Missense_Mutation_p.V201I|HOXB3_uc010wll.1_Missense_Mutation_p.V260I	NM_002146	NP_002137	P14651	HXB3_HUMAN	homeobox B3	333					angiogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCTTGGAGGACGTGCGGCTCA	0.721											OREG0024516	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	43					0	0	0.006122	0	0		T	46627995	T	T	46627995	3	4	202	1	0	0	0	0	1	0	0	0	7318	536	19	1	302	1	HOXB3	17	46627995	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2715905	46627995	34567215	650	99538											
FAM117A	81558	broad.mit.edu	37	chr17	47788852	47788852	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagaaggctgagccagtcGggttgaaatggactttgttc	9	10	15	7	1	0	3	0	2	0	1	2	4	0	4	1	4	1	4	1	4	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:47788852G>T	uc002ipk.2	-	8	1196	c.1127C>A	c.(1126-1128)CCG>CAG	p.P376Q	FAM117A_uc010wlz.1_Missense_Mutation_p.P104Q	NM_030802	NP_110429	Q9C073	F117A_HUMAN	family with sequence similarity 117, member A	376										ovary(1)	1						TGAGCCAGTCGGGTTGAAATG	0.562													13	38					0.000151284	0.000156299	0.001855	1	0		T	47788852	T	T	47788852	3	4	202	1	0	0	0	0	1	0	0	0	5420	1116	39	5	238	5	FAM117A	17	47788852	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1160857	47788852	33406358	651	99539											
KIF2B	84643	broad.mit.edu	37	chr17	51900882	51900882	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggagcagcgggaaaagcGcaggcggctgcagcaggaga	12	1	19	9	3	0	1	0	0	0	1	0	4	0	3	0	5	5	6	0	5	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:51900882G>A	uc002iua.2	+	1	644	c.488G>A	c.(487-489)CGC>CAC	p.R163H	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	163	Potential.				blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CGGGAAAAGCGCAGGCGGCTG	0.547													24	58					0	0	0.005443	0	0		A	51900882	A	A	51900882	3	1	202	1	0	0	0	0	1	0	0	0	8314	1087	38	1	490	1	KIF2B	17	51900882	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4112030	51900882	29294328	652	99540											
RNF43	54894	broad.mit.edu	37	chr17	56439936	56439936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgggggcggcaccggatgCgcagcaccgaagccaggatg	8	2	19	12	5	0	0	0	0	0	0	0	3	0	2	3	6	3	3	3	6	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:56439936C>T	uc002iwf.2	-	5	2612	c.656G>A	c.(655-657)CGC>CAC	p.R219H	RNF43_uc010wnv.1_Missense_Mutation_p.R178H|RNF43_uc002iwh.3_Missense_Mutation_p.R219H|RNF43_uc002iwg.3_Missense_Mutation_p.R219H|RNF43_uc010dcw.2_Missense_Mutation_p.R92H	NM_017763	NP_060233	Q68DV7	RNF43_HUMAN	ring finger protein 43 precursor	219	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	ligase activity|protein binding|zinc ion binding			ovary(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					GCACCGGATGCGCAGCACCGA	0.612													45	89					0	0	0.00361	0	0		T	56439936	T	T	56439936	3	4	202	1	0	0	0	0	1	0	0	0	13520	768	27	1	1715	1	RNF43	17	56439936	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4539054	56439936	24755274	653	99541											
CCDC45	90799	broad.mit.edu	37	chr17	62528036	62528036	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacagaggagaagctgttcGtaaaggaactccagaatgta	16	8	11	6	1	0	3	0	0	0	3	2	5	1	4	1	2	3	4	1	2	7	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:62528036G>A	uc002jem.2	+	14	1626	c.1568G>A	c.(1567-1569)CGT>CAT	p.R523H	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.R359H|CCDC45_uc002jeo.1_5'Flank	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	523						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			GAAGCTGTTCGTAAAGGAACT	0.358													3	7					0	0	0.004672	0	0		A	62528036	A	A	62528036	3	1	202	1	0	0	0	0	1	0	0	0	2819	1145	40	1	1622	1	CCDC45	17	62528036	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6088100	62528036	18667174	654	99542											
CACNG5	27091	broad.mit.edu	37	chr17	64881181	64881181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccaccctggcttctacCgccctcggctgagcaactgc	5	7	10	19	2	1	1	0	1	1	0	2	1	1	1	5	3	4	3	5	3	2	2	rs141669982		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:64881181C>T	uc010wqi.1	+	6	889	c.652C>T	c.(652-654)CGC>TGC	p.R218C	CACNG5_uc010wqj.1_Missense_Mutation_p.R218C	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	218				SAGVMSVYLFMKRYTAEDMYRPHPGFYRPRLSNCSDYSGQF LHPDAWVRGRSPSDISSEASLQMNSNYPALLKCPDYDQMSS SPC -> VKPVTLSMDRLGLGTAPLSRGEWGWGRRDIPQPF WTPDHPLYFPSSSQNVSLSYLSGSPPARMSPGPCSCPHVHF PPHSSCVLCRPQPREMRQAPAASPSSAVFSL (in Ref. 1; AAF03089).	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			TGGCTTCTACCGCCCTCGGCT	0.622													10	38					0	0	0.006214	0	0		T	64881181	T	T	64881181	3	4	202	1	0	0	0	0	1	0	0	0	2563	652	23	1	987	1	CACNG5	17	64881181	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2353145	64881181	16314029	655	99543											
NOL11	25926	broad.mit.edu	37	chr17	65718702	65718703	+	Frame_Shift_Del	DEL	AA	-	-																															ttctttttttgtagatggacAaagtttttcgtagtattcag																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:65718702_65718703delAA	uc002jgd.1	+	5	471_472	c.468_469delAA	c.(466-471)ACAAAGfs	p.T156fs	NOL11_uc010wql.1_Intron|NOL11_uc010deu.1_5'UTR	NM_015462	NP_056277	Q9H8H0	NOL11_HUMAN	nucleolar protein 11	156_157						nucleolus					0	all_cancers(12;1.54e-10)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0518)|COAD - Colon adenocarcinoma(4;0.0977)|LUSC - Lung squamous cell carcinoma(166;0.24)			GTAGATGGACAAAGTTTTTCGT	0.267													4	7	---	---	---	---						.	-	65718703	-	-	65718702	7	5	202	1	0	1	0	1	0	0	0	0	10540	117	5	0	486	0	NOL11	17	65718702	Frame_Shift_Del	DEL	AA	TCGA-HJ-7597-01A-21D-2201-08	837521	65718702	15476508	656	99544											
ABCA5	23461	broad.mit.edu	37	chr17	67298996	67298996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aacaaaaaattcaactattcCcacatgttttgattttttaa	16	16	2	7	0	1	1	1	1	0	0	2	1	2	1	1	0	2	1	1	0	7	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:67298996C>T	uc002jif.2	-	7	2200	c.982G>A	c.(982-984)GGA>AGA	p.G328R	ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.G328R|ABCA5_uc002jih.2_Missense_Mutation_p.G328R|ABCA5_uc010dfe.2_Missense_Mutation_p.G328R	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	328	Helical; (Potential).				cholesterol efflux|high-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation	Golgi membrane|integral to membrane|late endosome membrane|lysosomal membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;3.72e-11)					TCAACTATTCCCACATGTTTT	0.308													4	8					0	0	0.000602	0	0		T	67298996	T	T	67298996	3	4	202	1	0	0	0	0	1	0	0	0	35	632	22	4	4074	4	ABCA5	17	67298996	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1580294	67298996	13896214	657	99545											
DNAI2	64446	broad.mit.edu	37	chr17	72301522	72301522	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagaacttcctgacggttggCgactggacagcccgcatttg	9	9	12	11	3	0	2	0	1	0	1	1	4	1	3	2	3	2	2	2	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:72301522C>T	uc002jkf.2	+	9	1251	c.1152C>T	c.(1150-1152)GGC>GGT	p.G384G	DNAI2_uc002jkg.2_RNA|DNAI2_uc010dfp.2_RNA|uc002jkh.1_3'UTR|DNAI2_uc002jki.2_RNA	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2	384	WD 4.				cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						TGACGGTTGGCGACTGGACAG	0.577									Kartagener_syndrome				12	38					0	0	0.001855	0	0		T	72301522	T	T	72301522	2	4	202	1	0	0	0	0	0	0	0	1	4616	755	27	1		1	DNAI2	17	72301522	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5002526	72301522	8893688	658	99546											
KIAA0195	9772	broad.mit.edu	37	chr17	73482483	73482483	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaggtagagcggaggctgCgagggatcattgaccaaatc	11	6	17	7	2	1	2	1	1	0	1	2	6	1	5	1	5	2	2	1	5	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:73482483C>T	uc002jnz.3	+	5	660	c.385C>T	c.(385-387)CGA>TGA	p.R129*	KIAA0195_uc010wsa.1_Nonsense_Mutation_p.R139*	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	129					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	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)			GCGGAGGCTGCGAGGGATCAT	0.582													43	95					0	0	0.003214	0	0		T	73482483	T	T	73482483	4	4	202	1	0	0	0	0	0	1	0	0	8176	760	27	1	399	1	KIAA0195	17	73482483	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1180961	73482483	7712727	659	99547											
TRIM65	201292	broad.mit.edu	37	chr17	73888549	73888549	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaggctgctgaacttgccGgagacccaggaggccaagat	11	5	14	11	1	0	3	0	1	0	2	0	5	0	4	3	4	4	3	3	4	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:73888549G>A	uc002jpx.2	-	3	579	c.543C>T	c.(541-543)TCC>TCT	p.S181S		NM_173547	NP_775818	Q6PJ69	TRI65_HUMAN	tripartite motif-containing 65	181	Potential.					intracellular	zinc ion binding				0			Epithelial(20;7.53e-06)|all cancers(21;9.11e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			TGAACTTGCCGGAGACCCAGG	0.647													9	35					0	0	0.001855	0	0		A	73888549	A	A	73888549	2	1	202	1	0	0	0	0	0	0	0	1	16565	1103	39	1		1	TRIM65	17	73888549	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	406066	73888549	7306661	660	99548											
FBF1	85302	broad.mit.edu	37	chr17	73910251	73910251	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggagcttgacacgcagggcGgtggcgttgatcctctcctt	5	10	14	12	4	1	2	0	2	1	0	3	3	2	3	2	4	1	3	2	4	0	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:73910251G>A	uc002jqc.2	-	25	3172	c.2898C>T	c.(2896-2898)ACC>ACT	p.T966T	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Silent_p.T957T|FBF1_uc002jqb.2_RNA|FBF1_uc010dgr.1_Silent_p.T276T	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	966											0						CACGCAGGGCGGTGGCGTTGA	0.692													8	14					0	0	0.006214	0	0		A	73910251	A	A	73910251	2	1	202	1	0	0	0	0	0	0	0	1	5709	1103	39	1		1	FBF1	17	73910251	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	21702	73910251	7284959	661	99549											
FBF1	85302	broad.mit.edu	37	chr17	73915794	73915794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcctggtccttctcctgcGctatggccgccaagcgccgc	3	11	10	17	4	1	0	0	0	1	0	4	0	3	0	6	2	2	1	6	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:73915794G>A	uc002jqc.2	-	19	2322	c.2048C>T	c.(2047-2049)GCG>GTG	p.A683V	FBF1_uc002jqa.1_RNA|FBF1_uc010wsp.1_Missense_Mutation_p.A674V|FBF1_uc002jqd.1_Missense_Mutation_p.A684V|FBF1_uc002jqb.2_RNA|FBF1_uc010dgr.1_5'UTR	NM_001080542	NP_001074011	Q8TES7	FBF1_HUMAN	Fas (TNFRSF6) binding factor 1	683											0						CTTCTCCTGCGCTATGGCCGC	0.657													5	15					0	0	0.000602	0	0		A	73915794	A	A	73915794	3	1	202	1	0	0	0	0	1	0	0	0	5709	1087	38	1	1397	1	FBF1	17	73915794	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5543	73915794	7279416	662	99550											
EVPL	2125	broad.mit.edu	37	chr17	74018596	74018596	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctccgccatgcccggcccGtactggcctgcgcagacctg	5	6	12	18	4	0	1	0	0	0	1	1	1	1	1	6	2	4	3	6	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:74018596G>A	uc002jqi.2	-	5	732	c.504C>T	c.(502-504)TAC>TAT	p.Y168Y	EVPL_uc010wss.1_Silent_p.Y168Y|EVPL_uc010wst.1_Translation_Start_Site	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	168	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						TGCCCGGCCCGTACTGGCCTG	0.682													8	12					0	0	0.004482	0	0		A	74018596	A	A	74018596	2	1	202	1	0	0	0	0	0	0	0	1	5300	1140	40	1		1	EVPL	17	74018596	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	102802	74018596	7176614	663	99551											
TNRC6C	57690	broad.mit.edu	37	chr17	76075622	76075622	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcagtttctatcccctcaGgtcagacccacatccaagca	10	9	5	17	0	4	1	3	0	1	1	6	1	6	1	5	1	1	2	5	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:76075622G>T	uc002jud.2	+	11	3957	c.3357G>T	c.(3355-3357)CAG>CAT	p.Q1119H	TNRC6C_uc002juf.2_Missense_Mutation_p.Q1116H	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1119					gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			TATCCCCTCAGGTCAGACCCA	0.537													43	109					6.4308e-24	7.00793e-24	0.00361	1	0		T	76075622	T	T	76075622	3	4	202	1	0	0	0	0	1	0	0	0	16367	1014	35	5	3387	5	TNRC6C	17	76075622	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2057026	76075622	5119588	664	99552											
ENPP7	339221	broad.mit.edu	37	chr17	77709045	77709045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcggggagccggactccacGggccacaggtacggccccga	7	4	15	15	5	0	0	0	0	0	0	2	3	1	2	5	6	2	1	5	6	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:77709045G>A	uc002jxa.2	+	3	623	c.603G>A	c.(601-603)ACG>ACA	p.T201T		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	201					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CGGACTCCACGGGCCACAGGT	0.652													8	45					0	0	0.006214	0	0		A	77709045	A	A	77709045	2	1	202	1	0	0	0	0	0	0	0	1	5143	1103	39	1		1	ENPP7	17	77709045	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1633423	77709045	3486165	665	99553											
RNF213	57674	broad.mit.edu	37	chr17	78363631	78363631	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctattccttctgcaggccTtaaacagatgccagttaaaa	12	13	6	10	0	2	1	0	0	2	1	3	1	3	1	3	1	3	2	3	1	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:78363631T>C	uc002jyh.1	+	41	9641	c.9418T>C	c.(9418-9420)TTA>CTA	p.L3140L	uc002jyi.1_Intron|RNF213_uc010dhx.1_Silent_p.L84L	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TCTGCAGGCCTTAAACAGATG	0.537													14	50					0	0	0.004007	0	0		C	78363631	C	C	78363631	2	2	202	1	0	0	0	0	0	0	0	1	13502	1606	56	3		3	RNF213	17	78363631	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	654586	78363631	2831579	666	99554											
ARL16	339231	broad.mit.edu	37	chr17	79648877	79648877	+	Missense_Mutation	SNP	A	G	G	1	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	gaagcctgattaatgacttcAtctcctccgtggacatgtaa	11	12	8	10	1	2	2	1	2	1	0	4	4	3	3	3	1	1	1	3	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr17:79648877A>G	uc002kbf.2	-	5	554	c.455T>C	c.(454-456)ATG>ACG	p.M152T	ARL16_uc002kbe.2_Missense_Mutation_p.M81T|HGS_uc010wus.1_5'Flank|HGS_uc002kbg.2_5'Flank	NM_001040025	NP_001035114	Q0P5N6	ARL16_HUMAN	ADP-ribosylation factor-like 16	152							GTP binding				0	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			TAATGACTTCATCTCCTCCGT	0.577													6	22					0	0	0.001168	0	0		G	79648877	G	G	79648877	3	3	202	1	0	0	0	0	1	0	0	0	932	217	8	3	142	3	ARL16	17	79648877	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1285246	79648877	1546333	667	99555											
YES1	7525	broad.mit.edu	37	chr18	732849	732849	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttacctggatatggcactcGgccctttgttactagttctg	6	15	9	11	1	1	0	0	0	1	0	2	1	1	1	2	3	2	3	2	3	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:732849G>T	uc002kky.2	-	11	1629	c.1408C>A	c.(1408-1410)CGA>AGA	p.R470R	YES1_uc002kkz.2_Silent_p.R470R	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	470	Protein kinase.				blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	TATGGCACTCGGCCCTTTGTT	0.418													32	72					1.67305e-13	1.80427e-13	0.00623	1	0		T	732849	T	T	732849	2	4	202	1	0	0	0	0	0	0	0	1	17500	1124	39	5		5	YES1	18	732849	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		732849	77344399	668	99556											
LAMA1	284217	broad.mit.edu	37	chr18	7023203	7023203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcgtccccatagaacccGtcagcacacctttcacagtg	11	7	7	16	2	2	1	2	0	0	1	3	1	3	1	4	0	3	1	4	0	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:7023203G>A	uc002knm.2	-	19	2755	c.2661C>T	c.(2659-2661)GAC>GAT	p.D887D	LAMA1_uc010wzj.1_Silent_p.D363D	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	887	Laminin EGF-like 8.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CATAGAACCCGTCAGCACACC	0.587													16	37					0	0	0.007413	0	0		A	7023203	A	A	7023203	2	1	202	1	0	0	0	0	0	0	0	1	8621	1136	40	1		1	LAMA1	18	7023203	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6290354	7023203	71054045	669	99557											
KIAA0802	23255	broad.mit.edu	37	chr18	8813106	8813106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagcctggtcatggacctgCgctggcagatccatcacagc	9	7	11	14	1	2	1	2	0	0	1	3	2	3	2	3	3	3	2	3	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:8813106C>T	uc002knr.2	+	12	2876	c.2734C>T	c.(2734-2736)CGC>TGC	p.R912C	KIAA0802_uc002knq.2_Missense_Mutation_p.R871C|KIAA0802_uc002kns.2_Missense_Mutation_p.R280C	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1222											0						CATGGACCTGCGCTGGCAGAT	0.592													7	25					0	0	0.00308	0	0		T	8813106	T	T	8813106	3	4	202	1	0	0	0	0	1	0	0	0	8210	768	27	1	2772	1	KIAA0802	18	8813106	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1789903	8813106	69264142	670	99558											
C18orf10	25941	broad.mit.edu	37	chr18	34408646	34408646	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgtgccccctttcctcacCtaggatgcgcgtgatgccca	6	9	9	17	3	1	1	1	1	0	0	2	2	2	2	6	1	3	0	6	1	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:34408646C>A	uc002kzw.1	-	1	513	c.85G>T	c.(85-87)GAA>TAA	p.E29*	KIAA1328_uc002kzz.2_5'Flank|C18orf10_uc002kzv.1_Nonsense_Mutation_p.E29*|C18orf10_uc010xci.1_Nonsense_Mutation_p.E29*|C18orf10_uc002kzx.1_Nonsense_Mutation_p.E29*|C18orf10_uc002kzy.3_Nonsense_Mutation_p.E29*	NM_015476	NP_056291	Q68CL5	TPGS2_HUMAN	tubulin polyglutamylase complex subunit 2	29						cytoplasm|microtubule				skin(1)	1						CTTTCCTCACCTAGGATGCGC	0.682													11	98					1.5842e-08	1.6737e-08	0.001855	1	0		A	34408646	A	A	34408646	4	1	202	1	0	0	0	0	0	1	0	0	1898	695	24	5	845	5	C18orf10	18	34408646	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	25595540	34408646	43668602	671	99559											
ATP5A1	498	broad.mit.edu	37	chr18	43666116	43666116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaactcagttagacgcacGccacgactcaaaagttgttg	13	8	9	11	3	2	1	2	0	0	1	2	2	2	1	1	0	2	5	1	0	4	3	rs143320751		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:43666116G>A	uc002lbr.1	-	10	1482	c.1392C>T	c.(1390-1392)GGC>GGT	p.G464G	ATP5A1_uc010dnl.1_Silent_p.G414G|ATP5A1_uc002lbs.1_Silent_p.G414G|ATP5A1_uc002lbt.1_Silent_p.G464G	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	464					ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						TTAGACGCACGCCACGACTCA	0.478													10	27					0	0	0.008291	0	0		A	43666116	A	A	43666116	2	1	202	1	0	0	0	0	0	0	0	1	1148	1074	38	1		1	ATP5A1	18	43666116	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	9257470	43666116	34411132	672	99560											
MBD1	4152	broad.mit.edu	37	chr18	47800666	47800666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggccacagtccatccgccGtaggcaggctgcacaggccc	7	4	13	17	3	0	0	0	0	0	0	2	0	2	0	5	4	1	4	5	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:47800666G>A	uc010dow.1	-	11	1473	c.1036C>T	c.(1036-1038)CGG>TGG	p.R346W	MBD1_uc002lef.2_Intron|MBD1_uc002leg.2_Missense_Mutation_p.R296W|MBD1_uc010xdi.1_Missense_Mutation_p.R397W|MBD1_uc002leh.3_Intron|MBD1_uc002len.2_Missense_Mutation_p.R346W|MBD1_uc002lei.3_Missense_Mutation_p.R346W|MBD1_uc002lej.3_Intron|MBD1_uc002lek.3_Missense_Mutation_p.R297W|MBD1_uc002lel.3_Missense_Mutation_p.R323W|MBD1_uc002lem.3_Missense_Mutation_p.R346W|MBD1_uc010xdj.1_Intron|MBD1_uc010xdk.1_Missense_Mutation_p.R371W|MBD1_uc010dox.1_Missense_Mutation_p.R323W|MBD1_uc002leo.2_Missense_Mutation_p.R346W	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	346	CXXC-type 3.				negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TCCATCCGCCGTAGGCAGGCT	0.642													10	41					0	0	0.006214	0	0		A	47800666	A	A	47800666	3	1	202	1	0	0	0	0	1	0	0	0	9360	1144	40	1	999	1	MBD1	18	47800666	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4134550	47800666	30276582	673	99561											
C18orf54	162681	broad.mit.edu	37	chr18	51888230	51888230	+	Missense_Mutation	SNP	T	A	A	0	1	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	tcattggacattgagaagaaTccacattttcaaggacccta	14	11	7	9	0	2	2	2	1	0	2	3	5	3	4	2	2	0	0	2	2	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:51888230T>A	uc002lfn.3	+	3	617	c.501T>A	c.(499-501)AAT>AAA	p.N167K	C18orf54_uc002lfo.3_Missense_Mutation_p.N167K	NM_173529	NP_775800	Q8IYD9	CR054_HUMAN	hypothetical protein LOC162681 precursor	167						extracellular region				ovary(1)|skin(1)	2				Colorectal(16;0.0206)|READ - Rectum adenocarcinoma(59;0.186)		TTGAGAAGAATCCACATTTTC	0.403													4	21					0	0	0.009096	0	0		A	51888230	A	A	51888230	3	1	202	1	0	0	0	0	1	0	0	0	1907	1432	50	5	507	5	C18orf54	18	51888230	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	4087564	51888230	26189018	674	99562											
ALPK2	115701	broad.mit.edu	37	chr18	56171292	56171292	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcccatccctgatggaatActtcacaaattctccaatca	12	13	3	13	0	3	1	2	1	1	0	6	2	5	2	3	1	1	0	3	1	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:56171292A>G	uc002lhj.3	-	11	6332	c.6118T>C	c.(6118-6120)TAT>CAT	p.Y2040H		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	2040	Alpha-type protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						CTGATGGAATACTTCACAAAT	0.443													6	118					0	0	0.004482	0	0		G	56171292	G	G	56171292	3	3	202	1	0	0	0	0	1	0	0	0	545	391	14	3	406	3	ALPK2	18	56171292	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	4283062	56171292	21905956	675	99563											
FBXO15	201456	broad.mit.edu	37	chr18	71740947	71740947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttcatccaaaagagttaCgtccatcatggaacaactct	14	11	6	10	1	3	1	2	0	1	1	5	2	5	2	2	1	3	2	2	1	5	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:71740947C>T	uc002lle.2	-	10	1390	c.1054G>A	c.(1054-1056)GTA>ATA	p.V352I	FBXO15_uc002lld.2_RNA|FBXO15_uc002llf.2_Missense_Mutation_p.V428I	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	352										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)		AAAAGAGTTACGTCCATCATG	0.453													24	68					0	0	0.003954	0	0		T	71740947	T	T	71740947	3	4	202	1	0	0	0	0	1	0	0	0	5742	536	19	1	254	1	FBXO15	18	71740947	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	15569655	71740947	6336301	676	99564											
NFATC1	4772	broad.mit.edu	37	chr18	77246762	77246762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcagcccagcgtgcccGcccgccacgggccgcccgca	4	2	12	23	6	0	0	0	0	0	0	0	0	0	0	7	1	4	2	7	1	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr18:77246762G>A	uc010xfg.1	+	9	3060	c.2607G>A	c.(2605-2607)CCG>CCA	p.P869P	NFATC1_uc002lnd.2_Intron|NFATC1_uc002lne.2_Intron|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Silent_p.P397P|NFATC1_uc002lnf.2_Silent_p.P856P|NFATC1_uc002lng.2_Intron|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	869	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CAGCGTGCCCGCCCGCCACGG	0.726													10	35					0	0	0.00245	0	0		A	77246762	A	A	77246762	2	1	202	1	0	0	0	0	0	0	0	1	10380	1074	38	1		1	NFATC1	18	77246762	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5505815	77246762	830486	677	99565											
ODF3L2	284451	broad.mit.edu	37	chr19	474683	474683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccggaatctggccctccGtcactcgccggccaaggggg	5	7	13	16	4	3	0	1	0	2	0	6	1	4	1	5	5	0	0	5	5	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:474683G>A	uc002lor.2	-	1	301	c.65C>T	c.(64-66)ACG>ATG	p.T22M	ODF3L2_uc010drp.2_Missense_Mutation_p.T22M	NM_182577	NP_872383	Q3SX64	OD3L2_HUMAN	outer dense fiber of sperm tails 3-like 2	22											0						CTGGCCCTCCGTCACTCGCCG	0.711													3	16					0	0	0.009096	0	0		A	474683	A	A	474683	3	1	202	1	0	0	0	0	1	0	0	0	10851	1145	40	1	820	1	ODF3L2	19	474683	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		474683	58654300	678	99566											
HCN2	610	broad.mit.edu	37	chr19	605121	605121	+	Missense_Mutation	SNP	A	G	G	1	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	ggatctgcaatctcatcagcAtgatgctgctgctctgccac	8	11	9	13	0	4	1	2	1	3	0	5	2	4	2	1	1	6	5	1	1	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:605121A>G	uc002lpe.2	+	3	1170	c.1117A>G	c.(1117-1119)ATG>GTG	p.M373V		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	373	Helical; Name=Segment S5; (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTCATCAGCATGATGCTGCT	0.607													37	90					0	0	0.005524	0	0		G	605121	G	G	605121	3	3	202	1	0	0	0	0	1	0	0	0	7013	217	8	3	1127	3	HCN2	19	605121	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	130438	605121	58523862	679	99567											
HCN2	610	broad.mit.edu	37	chr19	613949	613949	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggacaacttcaacgaggtGctggaggagtaccccatgat	11	8	13	9	1	1	1	1	1	0	0	1	5	1	4	2	4	4	2	2	4	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:613949G>A	uc002lpe.2	+	7	1976	c.1923G>A	c.(1921-1923)GTG>GTA	p.V641V		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	641	cAMP.|Cytoplasmic (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCAACGAGGTGCTGGAGGAGT	0.706													7	69					0	0	0.001984	0	0		A	613949	A	A	613949	2	1	202	1	0	0	0	0	0	0	0	1	7013	1306	46	2		2	HCN2	19	613949	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8828	613949	58515034	680	99568											
GRIN3B	116444	broad.mit.edu	37	chr19	1003296	1003296	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acaagccgggctggccggccCccacagctggtcctggacct	6	5	13	17	2	0	0	0	0	0	0	1	1	1	1	6	5	2	2	6	5	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:1003296C>T	uc002lqo.1	+	2	594	c.594C>T	c.(592-594)CCC>CCT	p.P198P		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	198	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|protein insertion into membrane|regulation of calcium ion transport	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|ionotropic glutamate receptor activity|neurotransmitter receptor activity				0		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000226)|all_lung(49;0.000353)|Breast(49;0.00066)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Glycine(DB00145)|L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	CTGGCCGGCCCCCACAGCTGG	0.746													3	12					0	0	0.009096	0	0		T	1003296	T	T	1003296	2	4	202	1	0	0	0	0	0	0	0	1	6800	610	22	4		4	GRIN3B	19	1003296	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	389347	1003296	58125687	681	99569											
CNN2	1265	broad.mit.edu	37	chr19	1036231	1036231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaaggctggccagtgcGtcatcgggctgcaggtgggc	6	7	17	11	2	1	1	1	1	0	0	2	1	1	1	2	5	2	3	2	5	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:1036231G>A	uc002lqu.2	+	5	856	c.493G>A	c.(493-495)GTC>ATC	p.V165I	CNN2_uc002lqt.1_Intron|CNN2_uc010drz.1_Intron|CNN2_uc002lqv.2_Intron|CNN2_uc010xgb.1_Missense_Mutation_p.V154I|CNN2_uc010xgc.1_Missense_Mutation_p.V186I	NM_004368	NP_004359	Q99439	CNN2_HUMAN	calponin 2 isoform a	165				V -> G (in Ref. 4; BAA20887).	actomyosin structure organization|cellular response to mechanical stimulus|regulation of actin filament-based process	cell-cell junction|stress fiber	actin binding|calmodulin binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGCCAGTGCGTCATCGGGCT	0.642													17	27					0	0	0.007413	0	0		A	1036231	A	A	1036231	3	1	202	1	0	0	0	0	1	0	0	0	3613	1145	40	1	511	1	CNN2	19	1036231	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	32935	1036231	58092752	682	99570											
PCSK4	54760	broad.mit.edu	37	chr19	1486876	1486876	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgggggtcggtggccacgccGctgctgtaggtggtggtgag	3	9	21	8	3	0	1	0	1	0	0	1	1	0	1	2	7	1	3	2	7	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:1486876G>A	uc002ltb.1	-	8	1106	c.1044C>T	c.(1042-1044)AGC>AGT	p.S348S	PCSK4_uc002lsz.2_5'Flank|PCSK4_uc002lta.2_Silent_p.S160S	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	348	Catalytic (By similarity).				proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TGGCCACGCCGCTGCTGTAGG	0.701													9	8					0	0	0.006214	0	0		A	1486876	A	A	1486876	2	1	202	1	0	0	0	0	0	0	0	1	11621	1078	38	1		1	PCSK4	19	1486876	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	450645	1486876	57642107	683	99571											
MKNK2	2872	broad.mit.edu	37	chr19	2046391	2046391	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacctgcccgagaagctgtcGgtggcccggccgcgcttctt	5	8	13	15	5	1	1	0	0	1	1	2	2	1	1	4	3	3	2	4	3	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:2046391G>A	uc002lus.2	-	4	461	c.216C>T	c.(214-216)ACC>ACT	p.T72T	MKNK2_uc010xgu.1_5'UTR|MKNK2_uc010xgv.1_5'UTR|MKNK2_uc002lur.2_Silent_p.T72T	NM_199054	NP_951009	Q9HBH9	MKNK2_HUMAN	MAP kinase-interacting serine/threonine kinase 2	72					cell surface receptor linked signaling pathway|intracellular protein kinase cascade|regulation of translation		ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(1)|breast(1)	2		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)		AGAAGCTGTCGGTGGCCCGGC	0.687													15	42					0	0	0.008871	0	0		A	2046391	A	A	2046391	2	1	202	1	0	0	0	0	0	0	0	1	9623	1103	39	1		1	MKNK2	19	2046391	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	559515	2046391	57082592	684	99572											
GNA15	2769	broad.mit.edu	37	chr19	3151745	3151745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaccgaggagggctacGtccccacagctcaggacgtg	9	5	13	14	3	2	0	2	0	0	0	3	3	3	2	3	3	2	3	3	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:3151745G>A	uc002lxf.2	+	4	784	c.526G>A	c.(526-528)GTC>ATC	p.V176I		NM_002068	NP_002059	P30679	GNA15_HUMAN	guanine nucleotide binding protein (G protein),	176					activation of phospholipase C activity by dopamine receptor signaling pathway|activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|protein ADP-ribosylation	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activity|signal transducer activity			skin(2)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;7.04e-05)|OV - Ovarian serous cystadenocarcinoma(105;5.08e-113)|Epithelial(107;6.19e-111)|all cancers(105;6.19e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00145)|STAD - Stomach adenocarcinoma(1328;0.184)		GGAGGGCTACGTCCCCACAGC	0.632													62	133					0	0	0.00361	0	0		A	3151745	A	A	3151745	3	1	202	1	0	0	0	0	1	0	0	0	6518	1145	40	1	540	1	GNA15	19	3151745	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1105354	3151745	55977238	685	99573											
ZFR2	23217	broad.mit.edu	37	chr19	3821382	3821382	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgctccagccgctcctcCgccaggtgccgctgcttcct	3	9	10	19	3	0	0	0	0	0	0	4	0	4	0	7	1	5	5	7	1	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:3821382C>T	uc002lyw.2	-	10	1599	c.1587G>A	c.(1585-1587)GCG>GCA	p.A529A	ZFR2_uc010xhx.1_RNA	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	529	Potential.					intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		GCCGCTCCTCCGCCAGGTGCC	0.697													7	6					0	0	0.001984	0	0		T	3821382	T	T	3821382	2	4	202	1	0	0	0	0	0	0	0	1	17685	639	23	1		1	ZFR2	19	3821382	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	669637	3821382	55307601	686	99574											
SH3GL1	6455	broad.mit.edu	37	chr19	4365576	4365576	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggggttcttcacctggccCcggatcttggacaccgtgtt	4	11	12	14	3	3	0	1	0	2	0	3	2	3	2	5	5	0	2	5	5	0	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:4365576C>A	uc002maj.2	-	4	340	c.234G>T	c.(232-234)CGG>CGT	p.R78R	SH3GL1_uc002mak.2_Silent_p.R78R|SH3GL1_uc010xig.1_Intron	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	78	Required for dimerization upon membrane association (By similarity).|BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		TCACCTGGCCCCGGATCTTGG	0.657			T	MLL	AL								14	122					2.37509e-13	2.55842e-13	0.010504	1	0		A	4365576	A	A	4365576	2	1	202	1	0	0	0	0	0	0	0	1	14275	610	22	5		5	SH3GL1	19	4365576	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	544194	4365576	54763407	687	99575											
C19orf10	56005	broad.mit.edu	37	chr19	4658063	4658063	+	Missense_Mutation	SNP	A	C	C	1	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	ccacaatcaccagcttggacAgctcagctttgaatgccccg	10	8	8	15	1	2	1	2	1	0	0	2	2	2	2	4	1	4	3	4	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:4658063A>C	uc002may.2	-	6	545	c.476T>G	c.(475-477)CTG>CGG	p.L159R		NM_019107	NP_061980	Q969H8	CS010_HUMAN	hypothetical protein LOC56005 precursor	159						ER-Golgi intermediate compartment|extracellular region					0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.015)		CAGCTTGGACAGCTCAGCTTT	0.567													12	23					0	0	0.004007	0	0		C	4658063	C	C	4658063	3	2	202	1	0	0	0	0	1	0	0	0	1911	188	7	5	49	5	C19orf10	19	4658063	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	292487	4658063	54470920	688	99576											
PTPRS	5802	broad.mit.edu	37	chr19	5212381	5212381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatggggccggcatctggcGggttgcaggtcttgactctc	4	10	16	11	3	3	1	0	1	3	0	4	2	3	1	1	6	1	3	1	6	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:5212381G>A	uc002mbv.2	-	31	4970	c.4736C>T	c.(4735-4737)CCG>CTG	p.P1579L	PTPRS_uc002mbu.1_Missense_Mutation_p.P1148L|PTPRS_uc010xin.1_Missense_Mutation_p.P1121L|PTPRS_uc002mbw.2_Missense_Mutation_p.P1541L|PTPRS_uc002mbx.2_Missense_Mutation_p.P1136L|PTPRS_uc002mby.2_Missense_Mutation_p.P1132L	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1579	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GGCATCTGGCGGGTTGCAGGT	0.672													9	11					0	0	0.008291	0	0		A	5212381	A	A	5212381	3	1	202	1	0	0	0	0	1	0	0	0	12836	1116	39	1	1142	1	PTPRS	19	5212381	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	554318	5212381	53916602	689	99577											
ARHGEF18	23370	broad.mit.edu	37	chr19	7531811	7531811	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcctcttcccaggtggaggCgccaggcacggaatccgatc	7	7	13	14	3	1	0	0	0	1	0	5	3	4	2	4	5	0	1	4	5	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:7531811C>T	uc002mgi.2	+	14	2601	c.2348C>T	c.(2347-2349)GCG>GTG	p.A783V	ARHGEF18_uc010xjm.1_Missense_Mutation_p.A625V|ARHGEF18_uc002mgh.2_Missense_Mutation_p.A625V|ARHGEF18_uc002mgj.1_Missense_Mutation_p.A426V	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	783					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				CAGGTGGAGGCGCCAGGCACG	0.587													31	80					0	0	0.002445	0	0		T	7531811	T	T	7531811	3	4	202	1	0	0	0	0	1	0	0	0	901	768	27	1	2402	1	ARHGEF18	19	7531811	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2319430	7531811	51597172	690	99578											
FBN3	84467	broad.mit.edu	37	chr19	8203327	8203327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggacacagctcagggacCgggccagctgcccagcacct	9	3	14	15	1	1	0	1	0	0	0	1	3	1	3	4	4	4	3	4	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:8203327C>T	uc002mjf.2	-	8	1008	c.987G>A	c.(985-987)CCG>CCA	p.P329P		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	329	TB 2.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GCTCAGGGACCGGGCCAGCTG	0.682													20	37					0	0	0.001882	0	0		T	8203327	T	T	8203327	2	4	202	1	0	0	0	0	0	0	0	1	5718	639	23	1		1	FBN3	19	8203327	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	671516	8203327	50925656	691	99579											
KEAP1	9817	broad.mit.edu	37	chr19	10610266	10610266	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtggaggacacacttctcGcccatggagatggaggccgt	9	7	14	11	3	1	1	0	0	1	1	2	5	1	4	2	5	0	0	2	5	0	1	rs11545828		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:10610266G>A	uc002moq.1	-	2	600	c.444C>T	c.(442-444)GGC>GGT	p.G148G	KEAP1_uc002mor.1_Silent_p.G148G	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	148	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			lung(12)|breast(3)|ovary(1)|pancreas(1)	17			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)			CACACTTCTCGCCCATGGAGA	0.592													12	53					0	0	0.001368	0	0		A	10610266	A	A	10610266	2	1	202	1	0	0	0	0	0	0	0	1	8157	1074	38	1		1	KEAP1	19	10610266	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2406939	10610266	48518717	692	99580											
RAB3D	9545	broad.mit.edu	37	chr19	11446214	11446214	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccaccaggatgacctgggcGttgtcccaggagtaggtctt	7	9	13	12	1	1	1	0	1	1	0	2	3	2	3	4	4	0	2	4	4	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:11446214G>A	uc002mqy.2	-	4	619	c.381C>T	c.(379-381)AAC>AAT	p.N127N		NM_004283	NP_004274	O95716	RAB3D_HUMAN	RAB3D, member RAS oncogene family	127					exocytosis|protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			ovary(2)	2						TGACCTGGGCGTTGTCCCAGG	0.607													23	31					0	0	0.003954	0	0		A	11446214	A	A	11446214	2	1	202	1	0	0	0	0	0	0	0	1	12959	1136	40	1		1	RAB3D	19	11446214	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	835948	11446214	47682769	693	99581											
PRKCSH	5589	broad.mit.edu	37	chr19	11552108	11552108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagatggccgaggtcacccGcgaagggttccgtctgaaga	9	6	15	11	4	2	3	1	1	1	2	3	5	3	3	3	3	0	2	3	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:11552108G>A	uc002mrt.2	+	6	740	c.404G>A	c.(403-405)CGC>CAC	p.R135H	PRKCSH_uc002mru.2_Missense_Mutation_p.R135H|PRKCSH_uc010xlz.1_Missense_Mutation_p.R135H|PRKCSH_uc010dya.2_Missense_Mutation_p.A104T|PRKCSH_uc002mrv.1_Missense_Mutation_p.R135H|PRKCSH_uc010dyb.2_Missense_Mutation_p.R135H	NM_002743	NP_002734	P14314	GLU2B_HUMAN	protein kinase C substrate 80K-H isoform 1	135					innate immune response|intracellular protein kinase cascade|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen	calcium ion binding|protein kinase C binding				0						GAGGTCACCCGCGAAGGGTTC	0.612													9	154					0	0	0.004482	0	0		A	11552108	A	A	11552108	3	1	202	1	0	0	0	0	1	0	0	0	12538	1087	38	1	422	1	PRKCSH	19	11552108	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	105894	11552108	47576875	694	99582											
ZNF439	90594	broad.mit.edu	37	chr19	11978875	11978875	+	Missense_Mutation	SNP	T	C	C	0	1	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	aactttatgaatgtaagcagTgtgggaaagcattatcctct	13	13	9	6	0	1	1	0	1	1	0	2	2	2	2	1	1	3	3	1	1	6	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:11978875T>C	uc002mss.2	+	3	1119	c.991T>C	c.(991-993)TGT>CGT	p.C331R	ZNF439_uc002msr.2_Missense_Mutation_p.C195R	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	331	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						ATGTAAGCAGTGTGGGAAAGC	0.378													19	34					0	0	0.002299	0	0		C	11978875	C	C	11978875	3	2	202	1	0	0	0	0	1	0	0	0	17936	1696	59	3	1001	3	ZNF439	19	11978875	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	426767	11978875	47150108	695	99583											
BEST2	54831	broad.mit.edu	37	chr19	12864133	12864133	+	Missense_Mutation	SNP	A	G	G	1	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	gcttgtgatttattgtgaccAgtatgccagcctcatccctg	7	14	9	11	0	1	2	1	2	0	0	2	2	2	2	4	0	2	2	4	0	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:12864133A>G	uc002mux.2	+	2	212	c.212A>G	c.(211-213)CAG>CGG	p.Q71R		NM_017682	NP_060152	Q8NFU1	BEST2_HUMAN	vitelliform macular dystrophy 2-like 1	71	Helical; (Potential).				membrane depolarization|sensory perception of smell	chloride channel complex|cilium|plasma membrane	chloride channel activity			ovary(1)|pancreas(1)	2						TATTGTGACCAGTATGCCAGC	0.542													14	56					0	0	0.010504	0	0		G	12864133	G	G	12864133	3	3	202	1	0	0	0	0	1	0	0	0	1406	188	7	3	218	3	BEST2	19	12864133	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	885258	12864133	46264850	696	99584											
MAST1	22983	broad.mit.edu	37	chr19	12969483	12969483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcaccttcgccgagaacccGtttgtggtcggcatgttctg	5	12	11	13	4	2	1	1	0	1	1	4	2	2	1	3	2	1	3	3	2	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:12969483G>A	uc002mvm.2	+	12	1424	c.1296G>A	c.(1294-1296)CCG>CCA	p.P432P	MAST1_uc002mvk.2_Silent_p.P428P	NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	432	Protein kinase.				cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CCGAGAACCCGTTTGTGGTCG	0.557													20	44					0	0	0.00278	0	0		A	12969483	A	A	12969483	2	1	202	1	0	0	0	0	0	0	0	1	9342	1132	40	1		1	MAST1	19	12969483	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	105350	12969483	46159500	697	99585											
GCDH	2639	broad.mit.edu	37	chr19	13007752	13007752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggctgcctgaacaacgcccGgtacggcatcgcgtggggcg	6	5	16	14	7	0	1	0	1	0	0	1	1	0	1	2	5	4	3	2	5	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:13007752G>A	uc002mvq.2	+	9	958	c.881G>A	c.(880-882)CGG>CAG	p.R294Q	GCDH_uc010xms.1_Missense_Mutation_p.R261Q|GCDH_uc002mvp.2_Missense_Mutation_p.R294Q|GCDH_uc010xmt.1_Missense_Mutation_p.R128Q|GCDH_uc010xmu.1_Missense_Mutation_p.R250Q	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	294	Substrate binding.		R -> W (in GA1).		lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						AACAACGCCCGGTACGGCATC	0.617													26	43					0	0	0.009535	0	0		A	13007752	A	A	13007752	3	1	202	1	0	0	0	0	1	0	0	0	6302	1116	39	1	911	1	GCDH	19	13007752	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	38269	13007752	46121231	698	99586											
NANOS3	342977	broad.mit.edu	37	chr19	13988458	13988458	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcttctgcccacttactggCcagggctacacctccgtcta	6	10	8	17	2	2	0	0	0	2	0	3	0	3	0	4	2	3	2	4	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:13988458C>T	uc002mxj.3	+	1	509	c.396C>T	c.(394-396)GGC>GGT	p.G132G		NM_001098622	NP_001092092	P60323	NANO3_HUMAN	nanos homolog 3	113					anti-apoptosis|germ cell development|multicellular organismal development|oogenesis|regulation of cell cycle|regulation of translation|spermatogenesis	cytoplasmic mRNA processing body|nucleus|stress granule	RNA binding|zinc ion binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			CACTTACTGGCCAGGGCTACA	0.662													8	24					0	0	0.00308	0	0		T	13988458	T	T	13988458	2	4	202	1	0	0	0	0	0	0	0	1	10171	726	26	2		2	NANOS3	19	13988458	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	980706	13988458	45140525	699	99587											
SLC1A6	6511	broad.mit.edu	37	chr19	15083604	15083604	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagggtcatggtctgcaggCgcaggcgcgtgcgcagtgct	5	7	18	11	5	2	0	1	0	1	0	2	1	2	0	0	4	3	4	0	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:15083604C>T	uc002naa.1	-	1	127	c.119G>A	c.(118-120)CGC>CAC	p.R40H	SLC1A6_uc010dzu.1_Missense_Mutation_p.R40H|SLC1A6_uc010xod.1_Silent_p.A44A|SLC1A6_uc002nab.2_Missense_Mutation_p.R40H|SLC1A6_uc002nac.2_Missense_Mutation_p.R40H|SLC1A6_uc002nad.1_Missense_Mutation_p.R40H	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	40	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	GGTCTGCAGGCGCAGGCGCGT	0.682													10	18					0	0	0.001368	0	0		T	15083604	T	T	15083604	3	4	202	1	0	0	0	0	1	0	0	0	14461	768	27	1	1611	1	SLC1A6	19	15083604	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1095146	15083604	44045379	700	99588											
SYDE1	85360	broad.mit.edu	37	chr19	15224598	15224598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccagactacgaccacGtgacgggcagtgacagcgag	10	3	15	13	5	0	3	0	2	0	1	0	5	0	3	3	2	2	1	3	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:15224598G>A	uc002nah.1	+	8	2063	c.2032G>A	c.(2032-2034)GTG>ATG	p.V678M	SYDE1_uc002nai.1_Missense_Mutation_p.V611M|SYDE1_uc002naj.1_Missense_Mutation_p.V335M	NM_033025	NP_149014	Q6ZW31	SYDE1_HUMAN	synapse defective 1, Rho GTPase, homolog 1	678					activation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	Rho GTPase activator activity			ovary(1)|pancreas(1)	2						CTACGACCACGTGACGGGCAG	0.672													14	185					0	0	0.006122	0	0		A	15224598	A	A	15224598	3	1	202	1	0	0	0	0	1	0	0	0	15460	1145	40	1	2062	1	SYDE1	19	15224598	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	140994	15224598	43904385	701	99589											
EPHX3	79852	broad.mit.edu	37	chr19	15342858	15342858	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgctccgacggcgcccgcaGcagccgcgccggggccggca	4	1	17	19	9	0	0	0	0	0	0	1	1	1	0	5	4	2	4	5	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:15342858G>A	uc002nap.2	-	1	374	c.165C>T	c.(163-165)TGC>TGT	p.C55C	EPHX3_uc002naq.2_Silent_p.C55C	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	55						extracellular region	hydrolase activity				0						GGCGCCCGCAGCAGCCGCGCC	0.716													7	7					0	0	0.00308	0	0		A	15342858	A	A	15342858	2	1	202	1	0	0	0	0	0	0	0	1	5189	963	34	2		2	EPHX3	19	15342858	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	118260	15342858	43786125	702	99590											
BRD4	23476	broad.mit.edu	37	chr19	15354055	15354055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacggaagggagtagcggcGtagggggctgcaccttctgc	7	7	17	10	3	2	0	1	0	1	0	2	2	2	2	1	5	3	4	1	5	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:15354055G>A	uc002nar.2	-	14	3047	c.2825C>T	c.(2824-2826)ACG>ATG	p.T942M		NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	942					interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			GAGTAGCGGCGTAGGGGGCTG	0.398			T	NUT|C15orf55	lethal midline carcinoma of young people								6	20					0	0	0.00308	0	0		A	15354055	A	A	15354055	3	1	202	1	0	0	0	0	1	0	0	0	1507	1145	40	1	1291	1	BRD4	19	15354055	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	11197	15354055	43774928	703	99591											
CYP4F22	126410	broad.mit.edu	37	chr19	15651270	15651270	+	Silent	SNP	T	C	C	0	1	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	ctccttggcaggaagatgagTgattatatctccgctatcat	10	13	9	9	1	2	3	1	2	1	1	4	4	3	4	2	2	0	2	2	2	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:15651270T>C	uc002nbh.3	+	8	848	c.681T>C	c.(679-681)AGT>AGC	p.S227S		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	227						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						GGAAGATGAGTGATTATATCT	0.542													13	78					0	0	0.001368	0	0		C	15651270	C	C	15651270	2	2	202	1	0	0	0	0	0	0	0	1	4192	1693	59	3		3	CYP4F22	19	15651270	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	297215	15651270	43477713	704	99592											
TPM4	7171	broad.mit.edu	37	chr19	16192753	16192753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgtggccgccctcaaccgaCgcatccagctcgttgaggag	8	7	12	14	4	1	1	1	1	0	0	3	3	2	2	4	2	2	3	4	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:16192753C>T	uc002ndj.2	+	2	404	c.163C>T	c.(163-165)CGC>TGC	p.R55C	TPM4_uc002ndi.2_Missense_Mutation_p.R91C|TPM4_uc002ndk.1_Translation_Start_Site	NM_003290	NP_003281	P67936	TPM4_HUMAN	tropomyosin 4 isoform 2	55	By similarity.				cellular component movement|muscle filament sliding|response to oxidative stress	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding|calcium ion binding|structural constituent of muscle		TPM4/ALK(12)	soft_tissue(10)|haematopoietic_and_lymphoid_tissue(2)|breast(1)	13						CCTCAACCGACGCATCCAGCT	0.607			T	ALK	ALCL								20	63					0	0	0.00333	0	0		T	16192753	T	T	16192753	3	4	202	1	0	0	0	0	1	0	0	0	16434	536	19	1	417	1	TPM4	19	16192753	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	541483	16192753	42936230	705	99593											
USE1	55850	broad.mit.edu	37	chr19	17330519	17330519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agagcgtctggagcagcacaCgcagaagtcagtcaactggc	12	5	13	11	2	3	2	2	0	1	2	3	3	3	3	0	2	4	3	0	2	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:17330519C>T	uc002nfo.2	+	8	737	c.677C>T	c.(676-678)ACG>ATG	p.T226M	USE1_uc010eal.1_3'UTR	NM_018467	NP_060937	Q9NZ43	USE1_HUMAN	unconventional SNARE in the ER 1 homolog	226	Cytoplasmic (Potential).|Potential.				lysosomal transport|protein catabolic process|protein transport|secretion by cell|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	protein binding				0						GAGCAGCACACGCAGAAGTCA	0.507													22	58					0	0	0.002299	0	0		T	17330519	T	T	17330519	3	4	202	1	0	0	0	0	1	0	0	0	17057	536	19	1	707	1	USE1	19	17330519	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1137766	17330519	41798464	706	99594											
USHBP1	83878	broad.mit.edu	37	chr19	17369181	17369181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagcagaaccctgtatgcctCttcacagtgttcactgtggg	9	11	10	11	0	3	1	2	0	1	1	3	1	3	1	2	1	3	3	2	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:17369181C>T	uc002nfs.1	-	8	1173	c.1060G>A	c.(1060-1062)GAG>AAG	p.E354K	USHBP1_uc002nfr.1_5'UTR|USHBP1_uc002nft.1_RNA|USHBP1_uc010xpk.1_Missense_Mutation_p.E290K	NM_031941	NP_114147	Q8N6Y0	USBP1_HUMAN	Usher syndrome 1C binding protein 1	354							PDZ domain binding			ovary(1)	1						CTGTATGCCTCTTCACAGTGT	0.438													18	51					0	0	0.010504	0	0		T	17369181	T	T	17369181	3	4	202	1	0	0	0	0	1	0	0	0	17063	922	32	4	1075	4	USHBP1	19	17369181	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	38662	17369181	41759802	707	99595											
FAM129C	199786	broad.mit.edu	37	chr19	17643096	17643096	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccccgagtccgtgagcacCgaggacccctgacccagctt	7	6	11	17	3	0	2	0	2	0	0	1	5	1	3	7	1	3	2	7	1	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:17643096C>T	uc010xpr.1	+	4	442	c.304C>T	c.(304-306)CGA>TGA	p.R102*	FAM129C_uc010xpq.1_Nonsense_Mutation_p.R102*|FAM129C_uc010xps.1_Nonsense_Mutation_p.R71*|FAM129C_uc010xpt.1_RNA	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	102											0						CCGTGAGCACCGAGGACCCCT	0.672													13	41					0	0	0.003163	0	0		T	17643096	T	T	17643096	4	4	202	1	0	0	0	0	0	1	0	0	5449	644	23	1	318	1	FAM129C	19	17643096	Nonsense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	273915	17643096	41485887	708	99596											
TMEM59L	25789	broad.mit.edu	37	chr19	18726894	18726894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	atttgtctcctccacctggaCatactacttgcagactgaca	10	12	6	13	0	1	2	0	1	1	1	3	3	2	3	3	1	3	1	3	1	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:18726894C>T	uc002njy.3	+	4	605	c.518C>T	c.(517-519)ACA>ATA	p.T173I	TMEM59L_uc010ebu.1_Missense_Mutation_p.T173I	NM_012109	NP_036241	Q9UK28	TM59L_HUMAN	brain-specific membrane-anchored protein	173						Golgi membrane|integral to membrane|membrane fraction				ovary(2)|skin(2)	4						TCCACCTGGACATACTACTTG	0.562													26	73					0	0	0.007291	0	0		T	18726894	T	T	18726894	3	4	202	1	0	0	0	0	1	0	0	0	16211	478	17	4	532	4	TMEM59L	19	18726894	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1083798	18726894	40402089	709	99597											
KLHL26	55295	broad.mit.edu	37	chr19	18779982	18779982	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgacgagtgggagcgggaccTgcacttcccggagtccttcg	6	7	15	13	5	0	0	0	0	0	0	3	5	2	3	3	3	2	1	3	3	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:18779982T>C	uc002njz.1	+	3	1802	c.1775T>C	c.(1774-1776)CTG>CCG	p.L592P		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	592	Kelch 6.									ovary(1)	1						GAGCGGGACCTGCACTTCCCG	0.662													5	47					0	0	0.000602	0	0		C	18779982	C	C	18779982	3	2	202	1	0	0	0	0	1	0	0	0	8397	1580	55	3	1785	3	KLHL26	19	18779982	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	53088	18779982	40349001	710	99598											
ATP13A1	57130	broad.mit.edu	37	chr19	19764812	19764812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttcgggggcccccttcacgGccgcgatgtagcagaggtcg	5	8	15	13	5	1	1	1	0	0	1	3	2	1	1	3	4	1	2	3	4	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:19764812G>A	uc002nnh.3	-	14	1983	c.1955C>T	c.(1954-1956)GCC>GTC	p.A652V	ATP13A1_uc002nne.2_5'Flank|ATP13A1_uc002nnf.3_Missense_Mutation_p.A20V|ATP13A1_uc002nng.2_Missense_Mutation_p.A534V	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	652	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						CCCCTTCACGGCCGCGATGTA	0.632													7	15					0	0	0.001984	0	0		A	19764812	A	A	19764812	3	1	202	1	0	0	0	0	1	0	0	0	1124	1203	42	2	1711	2	ATP13A1	19	19764812	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	984830	19764812	39364171	711	99599											
ZNF254	9534	broad.mit.edu	37	chr19	24310333	24310333	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccttactacacataagataAttcatactggagagaaaccc	16	9	5	11	0	1	2	1	0	0	2	1	4	1	3	2	1	4	0	2	1	6	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:24310333A>T	uc002nru.2	+	4	1665	c.1531A>T	c.(1531-1533)ATT>TTT	p.I511F	ZNF254_uc010xrk.1_Missense_Mutation_p.I426F	NM_203282	NP_975011	O75437	ZN254_HUMAN	zinc finger protein 254	511	C2H2-type 11.				negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(12;0.086)|all_lung(12;0.00528)|Lung NSC(12;0.00731)|all_epithelial(12;0.0186)				ACATAAGATAATTCATACTGG	0.373													16	41					0	0	0.00499	0	0		T	24310333	T	T	24310333	3	4	202	1	0	0	0	0	1	0	0	0	17823	101	4	5	1545	5	ZNF254	19	24310333	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	4545521	24310333	34818650	712	99600											
UQCRFS1	7386	broad.mit.edu	37	chr19	29698557	29698557	+	Silent	SNP	T	C	C	0	1	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	ctgccagatgcatcatagtgTgacccatggcaagggcagta	11	8	12	10	0	1	2	1	1	0	1	1	2	1	2	2	2	2	4	2	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:29698557T>C	uc002nsd.2	-	2	834	c.723A>G	c.(721-723)TCA>TCG	p.S241S		NM_006003	NP_005994	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske	241	Rieske.				respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex III	2 iron, 2 sulfur cluster binding|metal ion binding|ubiquinol-cytochrome-c reductase activity				0	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			CATCATAGTGTGACCCATGGC	0.478													9	23					0	0	0.004482	0	0		C	29698557	C	C	29698557	2	2	202	1	0	0	0	0	0	0	0	1	17047	1683	59	3		3	UQCRFS1	19	29698557	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	5388224	29698557	29430426	713	99601											
PLEKHF1	79156	broad.mit.edu	37	chr19	30165483	30165483	+	Missense_Mutation	SNP	A	G	G	1	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	cggagcgtccagtggagatgAcgatgactccgacgaggaca	11	5	15	10	5	0	3	0	2	0	1	2	9	2	5	2	3	1	0	2	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:30165483A>G	uc002nsh.3	+	2	839	c.737A>G	c.(736-738)GAC>GGC	p.D246G	PLEKHF1_uc002nsi.3_Missense_Mutation_p.D331G	NM_024310	NP_077286	Q96S99	PKHF1_HUMAN	apoptosis-inducing protein D	246					apoptosis	lysosome|nucleus|perinuclear region of cytoplasm	metal ion binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			AGTGGAGATGACGATGACTCC	0.716													5	11					0	0	0.001984	0	0		G	30165483	G	G	30165483	3	3	202	1	0	0	0	0	1	0	0	0	12085	275	10	3	739	3	PLEKHF1	19	30165483	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	466926	30165483	28963500	714	99602											
C19orf2	8725	broad.mit.edu	37	chr19	30496293	30496293	+	Frame_Shift_Del	DEL	A	-	-																															agaaaaacaatagatgacttAaaaaaagtgatgaaaaattt																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:30496293delA	uc002nsr.2	+	5	423	c.393delA	c.(391-393)TTAfs	p.L131fs	C19orf2_uc002nsq.2_Frame_Shift_Del_p.L113fs|C19orf2_uc002nss.2_Frame_Shift_Del_p.L91fs|C19orf2_uc002nst.2_Frame_Shift_Del_p.L55fs	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	131					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		TAGATGACTTAAAAAAAGTGA	0.299													5	3	---	---	---	---						.	-	30496293	-	-	30496293	7	5	202	1	0	1	0	1	0	0	0	0	1914	359	13	0	411	0	C19orf2	19	30496293	Frame_Shift_Del	DEL	A	TCGA-HJ-7597-01A-21D-2201-08	330810	30496293	28632690	715	99603											
ZNF536	9745	broad.mit.edu	37	chr19	31040129	31040129	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgccctcagcaaagacagCagcagcgatggcggggacag	11	4	14	12	2	2	1	1	0	1	1	2	3	2	2	1	3	5	3	1	3	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:31040129C>T	uc002nsu.1	+	4	3741	c.3603C>T	c.(3601-3603)AGC>AGT	p.S1201S	ZNF536_uc010edd.1_Silent_p.S1201S	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	1201					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GCAAAGACAGCAGCAGCGATG	0.587													5	70					0	0	0.000602	0	0		T	31040129	T	T	31040129	2	4	202	1	0	0	0	0	0	0	0	1	17999	709	25	2		2	ZNF536	19	31040129	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	543836	31040129	28088854	716	99604											
WDR88	126248	broad.mit.edu	37	chr19	33623132	33623132	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagggaatgcaagttgccGccaccctccgcccccgccag	8	4	11	18	3	0	0	0	0	0	0	1	2	1	1	7	1	2	2	7	1	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:33623132G>A	uc002nui.2	+	1	135	c.57G>A	c.(55-57)CCG>CCA	p.P19P		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	19										ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					GCAAGTTGCCGCCACCCTCCG	0.701													19	54					0	0	0.00278	0	0		A	33623132	A	A	33623132	2	1	202	1	0	0	0	0	0	0	0	1	17361	1074	38	1		1	WDR88	19	33623132	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2583003	33623132	25505851	717	99605											
ARHGAP33	115703	broad.mit.edu	37	chr19	36276311	36276311	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacctctccctctcctgcagGcagcagacccgacaccgtca	8	7	7	19	2	3	1	1	0	2	1	5	2	3	1	5	1	3	3	5	1	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:36276311G>T	uc002obr.1	+	19	1953	c.1868G>T	c.(1867-1869)GGC>GTC	p.G623V	ARHGAP33_uc002obs.1_Missense_Mutation_p.G623V|ARHGAP33_uc002obt.1_Missense_Mutation_p.G487V|ARHGAP33_uc010eel.2_Missense_Mutation_p.G211V|ARHGAP33_uc002obv.1_Missense_Mutation_p.G211V	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	623					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						TCTCCTGCAGGCAGCAGACCC	0.667													30	69					4.62619e-21	5.02964e-21	0.004289	1	0		T	36276311	T	T	36276311	3	4	202	1	0	0	0	0	1	0	0	0	882	1217	42	5	1942	5	ARHGAP33	19	36276311	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2653179	36276311	22852672	718	99606											
CLIP3	25999	broad.mit.edu	37	chr19	36517493	36517493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctctcctcctcacctcgcGgcctcgcacccttcagcagc	4	8	8	21	3	3	0	2	0	1	0	7	0	4	0	5	2	2	3	5	2	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:36517493G>A	uc010eeq.1	-	4	839	c.557C>T	c.(556-558)CCG>CTG	p.P186L	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.P186L	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	186	ANK 2.				chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CTCACCTCGCGGCCTCGCACC	0.672													13	38					0	0	0.00499	0	0		A	36517493	A	A	36517493	3	1	202	1	0	0	0	0	1	0	0	0	3537	1116	39	1	1126	1	CLIP3	19	36517493	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	241182	36517493	22611490	719	99607											
ZNF585B	92285	broad.mit.edu	37	chr19	37678131	37678131	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttttctatgttgattatggTcccataatttctctcctgtt	6	22	5	8	0	2	1	0	1	2	0	5	1	4	1	2	1	0	2	2	1	3	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:37678131T>C	uc002ofq.2	-	5	562	c.308A>G	c.(307-309)GAC>GGC	p.D103G	ZNF585B_uc002ofr.1_5'UTR	NM_152279	NP_689492	Q52M93	Z585B_HUMAN	zinc finger protein 585B	103					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TTGATTATGGTCCCATAATTT	0.338													5	18					0	0	0.001168	0	0		C	37678131	C	C	37678131	3	2	202	1	0	0	0	0	1	0	0	0	18043	1667	58	3	2005	3	ZNF585B	19	37678131	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1160638	37678131	21450852	720	99608											
EIF3K	27335	broad.mit.edu	37	chr19	39116703	39116703	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atccgacagattttgtacctCggggacctgctggagacctg	8	10	12	11	2	0	2	0	0	0	2	2	5	1	3	4	3	2	2	4	3	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:39116703C>T	uc002oiz.1	+	4	502	c.315C>T	c.(313-315)CTC>CTT	p.L105L	EIF3K_uc010xuh.1_Silent_p.L105L|EIF3K_uc010xui.1_Silent_p.L18L	NM_013234	NP_037366	Q9UBQ5	EIF3K_HUMAN	eukaryotic translation initiation factor 3,	105					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex|nucleus	protein binding|ribosome binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TTTTGTACCTCGGGGACCTGC	0.582													47	133					0	0	0.00361	0	0		T	39116703	T	T	39116703	2	4	202	1	0	0	0	0	0	0	0	1	5029	871	31	1		1	EIF3K	19	39116703	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1438572	39116703	20012280	721	99609											
ACTN4	81	broad.mit.edu	37	chr19	39207831	39207831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggacttccgcgactaccggCgtgtgcacaagccgcccaag	9	5	12	15	5	0	0	0	0	0	0	1	2	1	1	4	2	3	1	4	2	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:39207831C>T	uc002oja.1	+	10	1077	c.1018C>T	c.(1018-1020)CGT>TGT	p.R340C	ACTN4_uc010egc.1_Missense_Mutation_p.R340C	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	340	Spectrin 1.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGACTACCGGCGTGTGCACAA	0.622													15	33					0	0	0.007413	0	0		T	39207831	T	T	39207831	3	4	202	1	0	0	0	0	1	0	0	0	207	768	27	1	1056	1	ACTN4	19	39207831	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	91128	39207831	19921152	722	99610											
FBXO27	126433	broad.mit.edu	37	chr19	39517602	39517602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttggcgtctagaagttggaCgaggagtctgtacatacagc	10	10	14	7	2	2	1	0	0	2	1	2	4	2	3	0	3	3	3	0	3	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:39517602C>T	uc002okh.2	-	5	698	c.616G>A	c.(616-618)GTC>ATC	p.V206I		NM_178820	NP_849142	Q8NI29	FBX27_HUMAN	F-box protein 27	206	FBA.				protein catabolic process	SCF ubiquitin ligase complex	glycoprotein binding			ovary(1)	1	all_cancers(60;3.79e-07)|all_lung(34;1.26e-07)|Lung NSC(34;1.46e-07)|all_epithelial(25;4.69e-07)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			AGAAGTTGGACGAGGAGTCTG	0.557													34	100					0	0	0.005524	0	0		T	39517602	T	T	39517602	3	4	202	1	0	0	0	0	1	0	0	0	5751	536	19	1	243	1	FBXO27	19	39517602	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	309771	39517602	19611381	723	99611											
FCGBP	8857	broad.mit.edu	37	chr19	40368737	40368737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatagctgctggggagcGtcacgtctacccgccagttc	7	9	12	13	3	2	1	1	1	1	0	3	2	2	2	2	2	4	3	2	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:40368737G>A	uc002omp.3	-	28	12619	c.12611C>T	c.(12610-12612)ACG>ATG	p.T4204M		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4204	VWFD 10.					extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			GCTGGGGAGCGTCACGTCTAC	0.602													16	511					0	0	0.008871	0	0		A	40368737	A	A	40368737	3	1	202	1	0	0	0	0	1	0	0	0	5792	1145	40	1	3642	1	FCGBP	19	40368737	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	851135	40368737	18760246	724	99612											
LTBP4	8425	broad.mit.edu	37	chr19	41132959	41132959	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggctttggactcccctaCgagtacggcccagacttagg	7	9	13	12	2	0	1	0	0	0	1	1	3	1	2	3	5	2	2	3	5	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:41132959C>T	uc002ooh.1	+	32	4266	c.4266C>T	c.(4264-4266)TAC>TAT	p.Y1422Y	LTBP4_uc002oog.1_Silent_p.Y1385Y|LTBP4_uc002ooi.1_Silent_p.Y1355Y|LTBP4_uc002ooj.1_Silent_p.Y295Y|LTBP4_uc002ook.1_Silent_p.Y556Y|LTBP4_uc002ool.1_Silent_p.Y434Y|LTBP4_uc010xvp.1_Silent_p.Y182Y	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1422	Pro-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GACTCCCCTACGAGTACGGCC	0.632													10	26					0	0	0.008291	0	0		T	41132959	T	T	41132959	2	4	202	1	0	0	0	0	0	0	0	1	9094	547	19	1		1	LTBP4	19	41132959	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	764222	41132959	17996024	725	99613											
CYP2B6	1555	broad.mit.edu	37	chr19	41509957	41509957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacacctgggaccgaggcccGtggtcatgctgtgtggagta	7	9	15	10	2	1	0	1	0	0	0	1	3	1	2	3	4	2	2	3	4	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:41509957G>A	uc002opr.1	+	2	230	c.223G>A	c.(223-225)GTG>ATG	p.V75M	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Missense_Mutation_p.V35M	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	75					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	ACCGAGGCCCGTGGTCATGCT	0.532													15	58					0	0	0.007413	0	0		A	41509957	A	A	41509957	3	1	202	1	0	0	0	0	1	0	0	0	4167	1145	40	1	229	1	CYP2B6	19	41509957	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	376998	41509957	17619026	726	99614											
BCKDHA	593	broad.mit.edu	37	chr19	41928113	41928113	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcgggccaatgccaacaggGtcgtcatctgttacttcggc	8	9	12	12	3	2	0	1	0	1	0	4	0	2	0	2	3	4	1	2	3	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:41928113G>A	uc002oqq.2	+	6	720	c.691G>A	c.(691-693)GTC>ATC	p.V231I	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Missense_Mutation_p.V265I|BCKDHA_uc002oqp.1_Missense_Mutation_p.V123I|BCKDHA_uc002oqr.2_Missense_Mutation_p.V231I|BCKDHA_uc010xvz.1_Missense_Mutation_p.V209I	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	231					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						TGCCAACAGGGTCGTCATCTG	0.637													15	29					0	0	0.003163	0	0		A	41928113	A	A	41928113	3	1	202	1	0	0	0	0	1	0	0	0	1360	1261	44	4	713	4	BCKDHA	19	41928113	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	418156	41928113	17200870	727	99615											
CEACAM7	1087	broad.mit.edu	37	chr19	42187807	42187807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctatgtcattctttgtggcGctgagtagaacgagggtcct	7	13	12	9	2	2	2	1	1	1	1	3	3	3	2	2	2	1	2	2	2	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:42187807G>A	uc002ori.1	-	3	617	c.615C>T	c.(613-615)AGC>AGT	p.S205S	CEACAM7_uc010ehx.2_Silent_p.S205S|CEACAM7_uc010ehy.1_Intron	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	205	Ig-like C2-type.					anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		TCTTTGTGGCGCTGAGTAGAA	0.537													30	93					0	0	0.007291	0	0		A	42187807	A	A	42187807	2	1	202	1	0	0	0	0	0	0	0	1	3200	1078	38	1		1	CEACAM7	19	42187807	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	259694	42187807	16941176	728	99616											
CEACAM5	1048	broad.mit.edu	37	chr19	42224051	42224051	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcaatgtcacaagaaatgaCgcaagagcctatgtatgtgg	14	10	10	7	1	2	3	2	1	0	2	2	3	2	3	1	1	1	2	1	1	6	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:42224051C>T	uc002ork.2	+	7	1816	c.1695C>T	c.(1693-1695)GAC>GAT	p.D565D	CEACAM5_uc002orj.1_Silent_p.D564D|CEACAM5_uc002orl.2_Silent_p.D565D	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion	565	Ig-like 6.					anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CAAGAAATGACGCAAGAGCCT	0.517													42	109					0	0	0.009718	0	0		T	42224051	T	T	42224051	2	4	202	1	0	0	0	0	0	0	0	1	3198	535	19	1		1	CEACAM5	19	42224051	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	36244	42224051	16904932	729	99617											
LYPD4	147719	broad.mit.edu	37	chr19	42343292	42343292	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccagccccacaggacataCgaggcagagtggagatggcc	12	4	13	12	1	0	2	0	0	0	2	1	5	1	3	4	4	2	1	4	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:42343292C>T	uc002orp.1	-	2	1051	c.67_splice	c.e2+1	p.R23_splice	LYPD4_uc002orq.1_Missense_Mutation_p.R23H	NM_173506	NP_775777	Q6UWN0	LYPD4_HUMAN	LY6/PLAUR domain containing 4 precursor							anchored to membrane|plasma membrane				ovary(1)	1						ACAGGACATACGAGGCAGAGT	0.577													34	102					0	0	0.005524	0	0		T	42343292	T	T	42343292	5	4	202	1	0	0	0	0	0	0	1	0	9130	550	19	1	688	1	LYPD4	19	42343292	Splice_Site	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	119241	42343292	16785691	730	99618											
GRIK5	2901	broad.mit.edu	37	chr19	42509992	42509992	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgagcaggaaggcgtagcGggagttgaggacgcgggcaa	10	4	19	8	5	0	1	0	1	0	0	1	5	0	4	0	5	2	4	0	5	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:42509992G>A	uc002osj.1	-	16	2181	c.2146C>T	c.(2146-2148)CGC>TGC	p.R716C	GRIK5_uc002osi.1_Missense_Mutation_p.R288C	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	716	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	AAGGCGTAGCGGGAGTTGAGG	0.597													13	23					0	0	0.004007	0	0		A	42509992	A	A	42509992	3	1	202	1	0	0	0	0	1	0	0	0	6793	1116	39	1	812	1	GRIK5	19	42509992	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	166700	42509992	16618991	731	99619											
CIC	23152	broad.mit.edu	37	chr19	42791309	42791309	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggaatctggtaagggtccGcctcccaccacggaggagga	9	6	15	11	2	1	0	0	0	1	0	3	4	3	4	4	6	0	1	4	6	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:42791309G>A	uc002otf.1	+	3	409	c.369G>A	c.(367-369)CCG>CCA	p.P123P		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	123	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				GTAAGGGTCCGCCTCCCACCA	0.677			T	DUX4	soft tissue sarcoma								8	15					0	0	0.006214	0	0		A	42791309	A	A	42791309	2	1	202	1	0	0	0	0	0	0	0	1	3427	1074	38	1		1	CIC	19	42791309	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	281317	42791309	16337674	732	99620											
CIC	23152	broad.mit.edu	37	chr19	42795157	42795157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	accagccccacacttggtggCtggacccctgctgggcactg	6	7	12	16	0	0	0	0	0	0	0	0	1	0	1	5	4	2	3	5	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:42795157C>T	uc002otf.1	+	10	2277	c.2237C>T	c.(2236-2238)GCT>GTT	p.A746V		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	746	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CACTTGGTGGCTGGACCCCTG	0.672			T	DUX4	soft tissue sarcoma								6	49					0	0	0.001168	0	0		T	42795157	T	T	42795157	3	4	202	1	0	0	0	0	1	0	0	0	3427	797	28	2	2275	2	CIC	19	42795157	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3848	42795157	16333826	733	99621											
CEACAM1	634	broad.mit.edu	37	chr19	43026288	43026288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcaggttcacaggtgaagGccacagcatccttgtcctcc	8	10	9	14	0	2	1	2	1	1	0	6	1	5	1	4	3	1	2	4	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:43026288G>A	uc002otv.2	-	3	604	c.491C>T	c.(490-492)GCC>GTC	p.A164V	uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron|CEACAM1_uc010eii.2_5'Flank|CEACAM1_uc002otw.2_Missense_Mutation_p.A164V|CEACAM1_uc010eij.2_Missense_Mutation_p.A164V|CEACAM1_uc002otx.2_Missense_Mutation_p.A164V|CEACAM1_uc002oty.2_Missense_Mutation_p.A164V|CEACAM1_uc002otz.2_Missense_Mutation_p.A164V|CEACAM1_uc010eik.2_Intron|CEACAM1_uc002oua.2_Missense_Mutation_p.A164V|CEACAM1_uc002oub.2_Missense_Mutation_p.A164V|CEACAM1_uc002ouc.2_Missense_Mutation_p.A164V	NM_001712	NP_001703	P13688	CEAM1_HUMAN	carcinoembryonic antigen-related cell adhesion	164	Ig-like C2-type 1.|Extracellular (Potential).				angiogenesis|cell migration|homophilic cell adhesion|integrin-mediated signaling pathway	extracellular region|integral to plasma membrane|membrane fraction				ovary(1)|central_nervous_system(1)	2		Prostate(69;0.00682)		GBM - Glioblastoma multiforme(486;0.00148)	Arcitumomab(DB00113)	ACAGGTGAAGGCCACAGCATC	0.552													43	137					0	0	0.00361	0	0		A	43026288	A	A	43026288	3	1	202	1	0	0	0	0	1	0	0	0	3190	1203	42	2	1214	2	CEACAM1	19	43026288	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	231131	43026288	16102695	734	99622											
CEACAM8	1088	broad.mit.edu	37	chr19	43098935	43098935	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	acctgtgagcaggagcccctGccaggggatgcgccatctgc	7	6	14	14	1	1	1	0	1	1	0	1	3	1	3	5	3	5	1	5	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:43098935G>A	uc002oud.2	-	1	148	c.46C>T	c.(46-48)CAG>TAG	p.Q16*	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	16					immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				AGGAGCCCCTGCCAGGGGATG	0.627													8	121					0	0	0.000978	0	0		A	43098935	A	A	43098935	4	1	202	1	0	0	0	0	0	1	0	0	3201	1328	46	2	1023	2	CEACAM8	19	43098935	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	72647	43098935	16030048	735	99623											
ZNF180	7733	broad.mit.edu	37	chr19	44980971	44980971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacactgattacattcatacGgtttttccccagtgtgaatt	10	15	6	10	1	1	2	1	2	0	0	2	2	2	2	2	1	2	1	2	1	3	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:44980971G>A	uc002ozf.3	-	5	2009	c.1727C>T	c.(1726-1728)CCG>CTG	p.P576L	ZNF180_uc002ozh.3_Missense_Mutation_p.P233L|ZNF180_uc002ozi.3_Missense_Mutation_p.P549L|ZNF180_uc002ozg.3_Missense_Mutation_p.P575L|ZNF180_uc010ejm.2_Missense_Mutation_p.P551L	NM_013256	NP_037388	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	576					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	p.P576L(1)		ovary(2)	2		Prostate(69;0.0435)				ACATTCATACGGTTTTTCCCC	0.408													16	40					0	0	0.00499	0	0		A	44980971	A	A	44980971	3	1	202	1	0	0	0	0	1	0	0	0	17773	1116	39	1	355	1	ZNF180	19	44980971	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1882036	44980971	14148012	736	99624											
QPCTL	54814	broad.mit.edu	37	chr19	46206170	46206170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcacttcaggggtacccGtgctccatctcatctccacg	6	11	8	16	2	4	0	3	0	2	0	7	0	5	0	3	2	2	2	3	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:46206170G>A	uc010xxr.1	+	7	1233	c.1012G>A	c.(1012-1014)GTG>ATG	p.V338M	QPCTL_uc010ekn.2_Missense_Mutation_p.V244M	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	338					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		AGGGGTACCCGTGCTCCATCT	0.602													45	139					0	0	0.00361	0	0		A	46206170	A	A	46206170	3	1	202	1	0	0	0	0	1	0	0	0	12900	1145	40	1	1038	1	QPCTL	19	46206170	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1225199	46206170	12922813	737	99625											
DMPK	1760	broad.mit.edu	37	chr19	46280705	46280705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccggagaccatcccagtcGaggccaaagaagaagggatg	13	4	13	11	2	0	3	0	0	0	3	3	6	2	4	4	3	0	0	4	3	3	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:46280705G>A	uc002pdd.1	-	7	1600	c.1056C>T	c.(1054-1056)CTC>CTT	p.L352L	DMPK_uc010xxs.1_Silent_p.L253L|DMPK_uc002pde.1_Silent_p.L352L|DMPK_uc002pdf.1_Silent_p.L342L|DMPK_uc002pdg.1_Silent_p.L342L|DMPK_uc002pdh.1_Silent_p.L342L|DMPK_uc002pdi.1_Silent_p.L368L|DMPK_uc010xxt.1_Silent_p.L342L	NM_001081563	NP_001075032	Q09013	DMPK_HUMAN	myotonic dystrophy protein kinase isoform 1	352	AGC-kinase C-terminal.				regulation of heart contraction		ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)	3		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)		CATCCCAGTCGAGGCCAAAGA	0.622													20	42					0	0	0.002299	0	0		A	46280705	A	A	46280705	2	1	202	1	0	0	0	0	0	0	0	1	4590	1045	37	1		1	DMPK	19	46280705	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	74535	46280705	12848278	738	99626											
DMWD	1762	broad.mit.edu	37	chr19	46289222	46289222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtgtgccaggctctgccGccacacccgggccgcccgcc	4	5	13	19	4	1	0	0	0	1	0	1	0	1	0	7	3	2	1	7	3	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:46289222G>A	uc002pdj.1	-	3	1578	c.1532C>T	c.(1531-1533)GCG>GTG	p.A511V	DMWD_uc002pdk.1_Missense_Mutation_p.A511V|DMWD_uc010eko.1_Missense_Mutation_p.A196V	NM_004943	NP_004934	Q09019	DMWD_HUMAN	dystrophia myotonica-containing WD repeat motif	511					meiosis						0		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)		AGGCTCTGCCGCCACACCCGG	0.726													17	31					0	0	0.004007	0	0		A	46289222	A	A	46289222	3	1	202	1	0	0	0	0	1	0	0	0	4599	1087	38	1	504	1	DMWD	19	46289222	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	8517	46289222	12839761	739	99627											
IGFL2	147920	broad.mit.edu	37	chr19	46663963	46663963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtgctgttacaatgacGccatcgtgtccctgagcgag	9	9	12	11	3	0	2	0	2	0	0	2	3	1	2	2	0	4	3	2	0	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:46663963G>A	uc010xxv.1	+	3	202	c.166G>A	c.(166-168)GCC>ACC	p.A56T	IGFL2_uc002peb.2_Missense_Mutation_p.A67T	NM_001135113	NP_001128585	Q6UWQ7	IGFL2_HUMAN	IGF-like family member 2 isoform b	56						extracellular region	protein binding				0		Ovarian(192;0.0908)|all_neural(266;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(486;0.031)|Epithelial(262;0.247)		TTACAATGACGCCATCGTGTC	0.592													94	248					0	0	0.00361	0	0		A	46663963	A	A	46663963	3	1	202	1	0	0	0	0	1	0	0	0	7603	1087	38	1	232	1	IGFL2	19	46663963	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	374741	46663963	12465020	740	99628											
STRN4	29888	broad.mit.edu	37	chr19	47225520	47225520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtccgattgtccaggaagcGgatgcccctgtcgtcgtggg	5	10	15	11	4	0	0	0	0	0	0	4	3	2	2	4	3	2	0	4	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:47225520G>A	uc002pfl.2	-	15	2017	c.1984C>T	c.(1984-1986)CGC>TGC	p.R662C	STRN4_uc002pfm.2_Missense_Mutation_p.R669C|STRN4_uc010xyf.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	662	WD 5.					cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		TCCAGGAAGCGGATGCCCCTG	0.607													15	35					0	0	0.006122	0	0		A	47225520	A	A	47225520	3	1	202	1	0	0	0	0	1	0	0	0	15356	1116	39	1	289	1	STRN4	19	47225520	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	561557	47225520	11903463	741	99629											
SYNGR4	23546	broad.mit.edu	37	chr19	48876813	48876813	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcctccctgctgaccgacGgctaccagaacaagatggag	10	7	10	14	2	1	3	0	1	1	2	3	5	2	4	4	2	3	2	4	2	3	1	rs139662043		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:48876813G>A	uc002piz.2	+	3	378	c.133G>A	c.(133-135)GGC>AGC	p.G45S		NM_012451	NP_036583	O95473	SNG4_HUMAN	synaptogyrin 4	45	MARVEL.|Helical; (Potential).					integral to membrane					0		all_epithelial(76;5.08e-07)|all_lung(116;5.76e-06)|Lung NSC(112;1.18e-05)|Prostate(7;0.0143)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000138)|all cancers(93;0.00017)|Epithelial(262;0.0138)|GBM - Glioblastoma multiforme(486;0.0146)		GCTGACCGACGGCTACCAGAA	0.592													4	85					0	0	0.009096	0	0		A	48876813	A	A	48876813	3	1	202	1	0	0	0	0	1	0	0	0	15476	1116	39	1	139	1	SYNGR4	19	48876813	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1651293	48876813	10252170	742	99630											
LMTK3	114783	broad.mit.edu	37	chr19	49012113	49012113	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaaccctcagtacctgtaCggctgtgcttccgagatgaa	11	9	10	11	2	1	3	1	1	0	2	2	4	2	3	3	1	4	4	3	1	4	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:49012113C>T	uc002pjk.2	-	6	639	c.639G>A	c.(637-639)CCG>CCA	p.P213P		NM_001080434	NP_001073903			lemur tyrosine kinase 3											lung(5)|central_nervous_system(1)	6		all_lung(116;0.000147)|Lung NSC(112;0.000251)|all_epithelial(76;0.000326)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000114)|all cancers(93;0.000141)|Epithelial(262;0.00854)|GBM - Glioblastoma multiforme(486;0.0231)		AGTACCTGTACGGCTGTGCTT	0.463													20	84					0	0	0.010504	0	0		T	49012113	T	T	49012113	2	4	202	1	0	0	0	0	0	0	0	1	8877	523	19	1		1	LMTK3	19	49012113	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	135300	49012113	10116870	743	99631											
HSD17B14	51171	broad.mit.edu	37	chr19	49316486	49316486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccgactggccttgcacccGtaccccagctctgcaccccc	5	7	7	22	2	1	0	0	0	1	0	2	1	2	0	7	1	4	4	7	1	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:49316486G>A	uc002pkv.1	-	9	1025	c.759C>T	c.(757-759)TAC>TAT	p.Y253Y	BCAT2_uc002pkq.3_5'Flank|BCAT2_uc002pkr.2_5'Flank|BCAT2_uc002pks.2_5'Flank|BCAT2_uc002pkt.2_5'Flank|BCAT2_uc010emh.1_5'Flank|BCAT2_uc010emi.1_5'Flank|BCAT2_uc010emj.1_5'Flank|HSD17B14_uc010emk.1_3'UTR	NM_016246	NP_057330	Q9BPX1	DHB14_HUMAN	dehydrogenase/reductase (SDR family) member 10	253					steroid catabolic process	centrosome|cytosol	estradiol 17-beta-dehydrogenase activity|protein binding|testosterone 17-beta-dehydrogenase (NADP+) activity				0		all_epithelial(76;7e-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;0.000341)|all cancers(93;0.000764)|GBM - Glioblastoma multiforme(486;0.0233)|Epithelial(262;0.0346)		CCTTGCACCCGTACCCCAGCT	0.642													6	11					0	0	0.00308	0	0		A	49316486	A	A	49316486	2	1	202	1	0	0	0	0	0	0	0	1	7399	1140	40	1		1	HSD17B14	19	49316486	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	304373	49316486	9812497	744	99632											
TULP2	7288	broad.mit.edu	37	chr19	49391390	49391390	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggattgccaaggaggcttcGtgcctcatatggtcgctgtc	6	11	13	11	3	1	0	1	0	0	0	4	2	1	2	2	4	2	2	2	4	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:49391390G>A	uc002pkz.2	-	8	916	c.765C>T	c.(763-765)CAC>CAT	p.H255H		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	255					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		all_epithelial(76;5.29e-07)|all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		AGGAGGCTTCGTGCCTCATAT	0.627													7	30					0	0	0.00308	0	0		A	49391390	A	A	49391390	2	1	202	1	0	0	0	0	0	0	0	1	16800	1136	40	1		1	TULP2	19	49391390	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	74904	49391390	9737593	745	99633											
PRR12	57479	broad.mit.edu	37	chr19	50105065	50105065	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggccaaaaagcaggagacgGcggcagtgtgtggggagacg	11	4	19	7	3	0	2	0	0	0	2	0	4	0	2	1	6	1	2	1	6	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:50105065G>A	uc002poo.3	+	6	4663	c.4663G>A	c.(4663-4665)GCG>ACG	p.A1555T		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	734							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GCAGGAGACGGCGGCAGTGTG	0.692													8	40					0	0	0.000978	0	0		A	50105065	A	A	50105065	3	1	202	1	0	0	0	0	1	0	0	0	12606	1203	42	2	4685	2	PRR12	19	50105065	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	713675	50105065	9023918	746	99634											
SCAF1	58506	broad.mit.edu	37	chr19	50155694	50155694	+	Frame_Shift_Del	DEL	G	-	-																															tgaccgcgacagccgccgccGgggggccgtgccaccctcca																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:50155694delG	uc002poq.2	+	7	2172	c.2048delG	c.(2047-2049)CGGfs	p.R683fs		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	683	Ser-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		AGCCGCCGCCGGGGGGCCGTG	0.602													11	19	---	---	---	---						.	-	50155694	-	-	50155694	7	5	202	1	0	1	0	1	0	0	0	0	13893	1116	39	0	2070	0	SCAF1	19	50155694	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	50629	50155694	8973289	747	99635											
SCAF1	58506	broad.mit.edu	37	chr19	50156708	50156708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggctggggtccgaggtggggCggaggaggaggaggaggaag	8	3	26	4	2	0	0	0	0	0	0	1	7	1	6	1	12	0	1	1	12	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:50156708C>T	uc002poq.2	+	7	3186	c.3062C>T	c.(3061-3063)GCG>GTG	p.A1021V		NM_021228	NP_067051	Q9H7N4	SFR19_HUMAN	SR-related CTD-associated factor 1	1021	Glu-rich.				mRNA processing|RNA splicing	nucleus	RNA binding				0		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00113)|GBM - Glioblastoma multiforme(134;0.0204)		CGAGGTGGGGCggaggaggag	0.498													5	12					0	0	0.001984	0	0		T	50156708	T	T	50156708	3	4	202	1	0	0	0	0	1	0	0	0	13893	768	27	1	3084	1	SCAF1	19	50156708	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1014	50156708	8972275	748	99636											
IRF3	3661	broad.mit.edu	37	chr19	50165476	50165476	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgactggccatccaggcagCgtcctgtctcccacttcgga	6	9	11	15	2	1	1	0	1	1	0	5	2	3	2	4	3	1	1	4	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:50165476C>T	uc010end.1	-	6	1093	c.711G>A	c.(709-711)ACG>ACA	p.T237T	IRF3_uc002pos.1_5'Flank|IRF3_uc002pot.1_Intron|IRF3_uc002pox.1_Silent_p.T237T|IRF3_uc002poy.1_Silent_p.T237T|IRF3_uc002pou.2_Silent_p.T237T|IRF3_uc002pov.2_Silent_p.T91T|IRF3_uc002pow.2_Silent_p.T237T|IRF3_uc002poz.1_Silent_p.T237T|BCL2L12_uc002ppa.2_5'Flank|BCL2L12_uc002ppb.2_5'Flank	NM_001571	NP_001562	Q14653	IRF3_HUMAN	interferon regulatory factor 3	237	Involved in HERC5 binding.				interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytosol|endosome membrane|nucleoplasm|plasma membrane	DNA binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.02)		ATCCAGGCAGCGTCCTGTCTC	0.652													16	40					0	0	0.00499	0	0		T	50165476	T	T	50165476	2	4	202	1	0	0	0	0	0	0	0	1	7847	755	27	1		1	IRF3	19	50165476	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	8768	50165476	8963507	749	99637											
POLD1	5424	broad.mit.edu	37	chr19	50916998	50916998	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacatccccaccgcccgcaGgtggtgtatggtgacactga	9	7	11	14	2	0	2	0	2	0	0	1	2	1	2	4	3	0	2	4	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:50916998G>T	uc002psb.3	+	19	2307	c.2251_splice	c.e19-1	p.V751_splice	POLD1_uc002psc.3_Splice_Site_p.V751_splice|POLD1_uc010enx.2_Splice_Site|POLD1_uc010eny.2_Splice_Site_p.V777_splice	NM_002691	NP_002682	P28340	DPOD1_HUMAN	DNA-directed DNA polymerase delta 1						base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		all_neural(266;0.0571)		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)		ACCGCCCGCAGGTGGTGTATG	0.642								DNA_polymerases_(catalytic_subunits)					37	97					4.17593e-13	4.48278e-13	0.007835	1	0		T	50916998	T	T	50916998	5	4	202	1	0	0	0	0	0	0	1	0	12209	1014	35	5	2320	5	POLD1	19	50916998	Splice_Site	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	751522	50916998	8211985	750	99638											
FPR1	2357	broad.mit.edu	37	chr19	52249833	52249833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccttcttggccaggctcaCggtgcggtggttctgggtcc	3	11	14	13	2	3	0	1	0	2	0	4	0	4	0	3	6	1	2	3	6	0	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:52249833C>T	uc002pxq.2	-	2	510	c.415G>A	c.(415-417)GTG>ATG	p.V139M		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	139	Cytoplasmic (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	GCCAGGCTCACGGTGCGGTGG	0.552													15	55					0	0	0.003163	0	0		T	52249833	T	T	52249833	3	4	202	1	0	0	0	0	1	0	0	0	6052	536	19	1	641	1	FPR1	19	52249833	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1332835	52249833	6879150	751	99639											
MYADM	91663	broad.mit.edu	37	chr19	54377407	54377407	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccctggagtggtgcgtggcGgtgtacgccatctgcttcat	4	11	15	11	3	2	0	1	0	1	0	2	1	2	1	2	4	3	2	2	4	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:54377407G>T	uc002qcl.2	+	3	772	c.624G>T	c.(622-624)GCG>GCT	p.A208A	MYADM_uc002qcm.2_Silent_p.A208A|MYADM_uc002qcn.2_Silent_p.A208A|MYADM_uc002qco.2_Silent_p.A208A|MYADM_uc002qcp.2_Silent_p.A208A	NM_001020820	NP_001018656	Q96S97	MYADM_HUMAN	myeloid-associated differentiation marker	208	MARVEL 2.|Helical; (Potential).					integral to membrane				ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.0488)		GGTGCGTGGCGGTGTACGCCA	0.622													10	188					7.93312e-07	8.31555e-07	0.00245	1	0		T	54377407	T	T	54377407	2	4	202	1	0	0	0	0	0	0	0	1	10024	1103	39	5		5	MYADM	19	54377407	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2127574	54377407	4751576	752	99640											
PRKCG	5582	broad.mit.edu	37	chr19	54395051	54395051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacccgaacggtgaaagccaCgctaaaccctgtgtggaatg	12	6	12	11	3	0	1	0	1	0	0	0	4	0	2	3	2	3	1	3	2	5	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:54395051C>T	uc002qcq.1	+	6	935	c.653C>T	c.(652-654)ACG>ATG	p.T218M	PRKCG_uc010eqz.1_Missense_Mutation_p.T218M|PRKCG_uc010yef.1_Missense_Mutation_p.T218M|PRKCG_uc010yeg.1_Missense_Mutation_p.T218M|PRKCG_uc010yeh.1_Missense_Mutation_p.T105M	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	218	C2.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GTGAAAGCCACGCTAAACCCT	0.537													17	33					0	0	0.008871	0	0		T	54395051	T	T	54395051	3	4	202	1	0	0	0	0	1	0	0	0	12534	536	19	1	675	1	PRKCG	19	54395051	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	17644	54395051	4733932	753	99641											
LILRB2	10288	broad.mit.edu	37	chr19	54783647	54783647	+	Silent	SNP	T	G	G	0	1	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	tccctgagtgtcctctcaccTgtcatcaccagcaccagggg	7	9	9	16	0	3	1	3	1	1	0	6	1	5	1	5	2	1	1	5	2	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:54783647T>G	uc002qfb.2	-	4	620	c.354A>C	c.(352-354)ACA>ACC	p.T118T	LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Silent_p.T118T|LILRB2_uc010erj.2_RNA|LILRB2_uc002qfc.2_Silent_p.T118T|LILRB2_uc010yet.1_Silent_p.T2T|LILRB2_uc010yeu.1_RNA	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,	118	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TCCTCTCACCTGTCATCACCA	0.617													6	85					0	0	0.00308	0	0		G	54783647	G	G	54783647	2	3	202	1	0	0	0	0	0	0	0	1	8807	1594	55	5		5	LILRB2	19	54783647	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	388596	54783647	4345336	754	99642											
NLRP7	199713	broad.mit.edu	37	chr19	55449463	55449463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttacgtggtcacaaagaatcCgcacagaagagtcactcagg	14	7	10	10	2	3	3	3	0	0	3	4	3	4	3	1	2	1	1	1	2	4	1	rs104895502		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:55449463C>T	uc002qih.3	-	5	2154	c.2078G>A	c.(2077-2079)CGG>CAG	p.R693Q	NLRP7_uc002qig.3_Missense_Mutation_p.R665Q|NLRP7_uc002qii.3_Missense_Mutation_p.R693Q|NLRP7_uc010esk.2_Missense_Mutation_p.R693Q|NLRP7_uc010esl.2_Missense_Mutation_p.R721Q	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	693	LRR 2.		R -> W (in HYDM).|R -> P (in HYDM).|R -> Q (in HYDM).				ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		ACAAAGAATCCGCACAGAAGA	0.468													47	129					0	0	0.00361	0	0		T	55449463	T	T	55449463	3	4	202	1	0	0	0	0	1	0	0	0	10501	652	23	1	1063	1	NLRP7	19	55449463	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	665816	55449463	3679520	755	99643											
NLRP11	204801	broad.mit.edu	37	chr19	56321602	56321602	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtatgtagaacacatctgacGaaacgtcacgaaaaaattta	18	9	7	7	3	2	2	1	1	1	1	2	4	2	2	0	0	2	2	0	0	8	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:56321602G>A	uc010ygf.1	-	5	1085	c.374C>T	c.(373-375)TCG>TTG	p.S125L	NLRP11_uc002qlz.2_Missense_Mutation_p.S26L|NLRP11_uc002qmb.2_Missense_Mutation_p.S26L|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	125							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		CACATCTGACGAAACGTCACG	0.383													11	22					0	0	0.000978	0	0		A	56321602	A	A	56321602	3	1	202	1	0	0	0	0	1	0	0	0	10492	1059	37	1	2759	1	NLRP11	19	56321602	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	872139	56321602	2807381	756	99644											
ZNF460	10794	broad.mit.edu	37	chr19	57803241	57803241	+	Silent	SNP	A	G	G	1	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	caccagtggattcatactggAgagaagccgtatgtatgcat	12	10	11	8	1	1	1	1	0	0	1	1	4	1	3	2	2	3	3	2	2	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:57803241A>G	uc002qog.2	+	3	1654	c.1332A>G	c.(1330-1332)GGA>GGG	p.G444G	ZNF460_uc010ygv.1_Silent_p.G403G	NM_006635	NP_006626	Q14592	ZN460_HUMAN	zinc finger protein 460	444					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		TTCATACTGGAGAGAAGCCGT	0.483													12	45					0	0	0.001855	0	0		G	57803241	G	G	57803241	2	3	202	1	0	0	0	0	0	0	0	1	17949	291	11	3		3	ZNF460	19	57803241	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1481639	57803241	1325742	757	99645											
ZNF772	400720	broad.mit.edu	37	chr19	57986509	57986509	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgtgggacatgaaagatgTatgtcctaagggaaagatag	15	10	13	3	0	0	3	0	1	0	2	1	5	1	5	1	2	0	1	1	2	6	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:57986509T>C	uc002qot.2	-	4	466	c.205A>G	c.(205-207)ACA>GCA	p.T69A	ZNF547_uc002qpm.3_Intron|ZNF772_uc010ygy.1_Intron|ZNF772_uc010ygz.1_Intron|ZNF772_uc010yha.1_Intron|ZNF772_uc002qou.2_Intron	NM_001024596	NP_001019767	Q68DY9	ZN772_HUMAN	zinc finger protein 772 isoform 1	69	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)|Lung(386;0.174)		ATGAAAGATGTATGTCCTAAG	0.448													28	66					0	0	0.009535	0	0		C	57986509	C	C	57986509	3	2	202	1	0	0	0	0	1	0	0	0	18170	1638	57	3	1272	3	ZNF772	19	57986509	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	183268	57986509	1142474	758	99646											
ZNF587	84914	broad.mit.edu	37	chr19	58370824	58370824	+	Silent	SNP	A	G	G	1	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	catcagcaaggtcacactggAgagagagcttatcactgtgg	12	8	12	9	0	3	2	3	0	0	2	3	4	3	2	0	3	2	2	0	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:58370824A>G	uc002qql.2	+	3	1182	c.1044A>G	c.(1042-1044)GGA>GGG	p.G348G	ZNF587_uc002qqb.2_Silent_p.G305G|ZNF587_uc010yhh.1_Silent_p.G305G|ZNF587_uc002qqi.1_Silent_p.G305G|ZNF587_uc002qqj.1_RNA|ZNF814_uc002qqk.2_Intron|ZNF587_uc010yhk.1_Silent_p.G347G	NM_032828	NP_116217	Q96SQ5	ZN587_HUMAN	zinc finger protein 587	348					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		GTCACACTGGAGAGAGAGCTT	0.443													26	72					0	0	0.002096	0	0		G	58370824	G	G	58370824	2	3	202	1	0	0	0	0	0	0	0	1	18045	291	11	3		3	ZNF587	19	58370824	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	384315	58370824	758159	759	99647											
ZNF417	147687	broad.mit.edu	37	chr19	58420602	58420602	+	Silent	SNP	T	C	C	0	1	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	ccacagtgataagctctctcTccagtgtgaccttgctgatg	8	12	9	12	0	2	3	0	3	2	0	4	3	2	3	3	0	2	2	3	0	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:58420602T>C	uc002qqq.2	-	3	1243	c.1044A>G	c.(1042-1044)GGA>GGG	p.G348G	ZNF417_uc010yhm.1_Silent_p.G305G|ZNF417_uc002qqr.2_Silent_p.G347G	NM_152475	NP_689688	Q8TAU3	ZN417_HUMAN	zinc finger protein 417	348					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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;0.0151)		AAGCTCTCTCTCCAGTGTGAC	0.438													5	97					0	0	0.008291	0	0		C	58420602	C	C	58420602	2	2	202	1	0	0	0	0	0	0	0	1	17919	1538	54	3		3	ZNF417	19	58420602	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	49778	58420602	708381	760	99648											
ZNF497	162968	broad.mit.edu	37	chr19	58868276	58868276	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaggcgtgcggccgcgcGcccgtgtgcacgcgccggtg	2	4	19	16	10	0	0	0	0	0	0	0	0	0	0	3	4	2	2	3	4	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr19:58868276G>A	uc002qsh.1	-	3	915	c.726C>T	c.(724-726)GGC>GGT	p.G242G	A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Silent_p.G242G|uc002qsj.1_5'UTR|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	242					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		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)		GCGGCCGCGCGCCCGTGTGCA	0.697													4	9					0	0	0.009096	0	0		A	58868276	A	A	58868276	2	1	202	1	0	0	0	0	0	0	0	1	17971	1074	38	1		1	ZNF497	19	58868276	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	447674	58868276	260707	761	99649											
DEFB125	245938	broad.mit.edu	37	chr20	76838	76838	+	Missense_Mutation	SNP	A	G	G	1	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	tataacattggattatagtgAtgtggactcttttactggtt	10	18	9	4	0	1	1	0	1	1	0	1	3	1	3	0	3	2	1	0	3	5	8			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:76838A>G	uc002wcw.2	+	2	251	c.251A>G	c.(250-252)GAT>GGT	p.D84G		NM_153325	NP_697020	Q8N687	DB125_HUMAN	defensin, beta 125 preproprotein	84					defense response to bacterium	extracellular region				ovary(1)|central_nervous_system(1)|skin(1)	3		all_cancers(10;7.65e-05)|Lung NSC(37;0.0417)|all_epithelial(17;0.0676)|all_lung(30;0.0713)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.156)			GATTATAGTGATGTGGACTCT	0.368													10	60					0	0	0.001368	0	0		G	76838	G	G	76838	3	3	202	1	0	0	0	0	1	0	0	0	4416	333	12	3	257	3	DEFB125	20	76838	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08		76838	62948682	762	99650											
FASTKD5	60493	broad.mit.edu	37	chr20	3129630	3129630	+	Silent	SNP	T	C	C	0	1	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	gtgctgctcacattccagtaTgacacacttcggactgcacc	9	10	8	14	1	1	1	1	1	0	0	3	2	2	2	2	1	3	4	2	1	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:3129630T>C	uc002whz.2	-	2	398	c.87A>G	c.(85-87)TCA>TCG	p.S29S	uc002whv.1_Intron|UBOX5_uc002whw.2_Intron|UBOX5_uc002whx.2_Intron|UBOX5_uc002why.1_Intron	NM_021826	NP_068598	Q7L8L6	FAKD5_HUMAN	FAST kinase domains 5	29					apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity				0						CATTCCAGTATGACACACTTC	0.463													24	52					0	0	0.003954	0	0		C	3129630	C	C	3129630	2	2	202	1	0	0	0	0	0	0	0	1	5702	1451	51	3		3	FASTKD5	20	3129630	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	3052792	3129630	59895890	763	99651											
SIGLEC1	6614	broad.mit.edu	37	chr20	3678776	3678776	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgaatgttggttgtcgaggGgggtctgcagggaggaagaa	9	9	20	3	1	1	2	0	1	1	1	2	5	1	4	0	6	1	3	0	6	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:3678776G>T	uc002wja.2	-	8	1791	c.1791C>A	c.(1789-1791)CCC>CCA	p.P597P	SIGLEC1_uc002wiz.3_Silent_p.P597P	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	597	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|endocytosis|inflammatory response	extracellular region|integral to membrane|plasma membrane	sugar binding			pancreas(4)|ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	10						GTTGTCGAGGGGGGTCTGCAG	0.637													6	4					1.06961e-07	1.12369e-07	0.00308	1	0		T	3678776	T	T	3678776	2	4	202	1	0	0	0	0	0	0	0	1	14330	1219	43	5		5	SIGLEC1	20	3678776	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	549146	3678776	59346744	764	99652											
HAO1	54363	broad.mit.edu	37	chr20	7866403	7866403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccccacaaacacagccttggCgccaagagccagagctttca	12	5	8	16	1	1	2	1	0	0	2	1	2	1	2	5	1	4	1	5	1	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:7866403C>T	uc002wmw.1	-	6	946	c.922G>A	c.(922-924)GCC>ACC	p.A308T	HAO1_uc010gbu.2_Missense_Mutation_p.A308T	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1	308	FMN hydroxy acid dehydrogenase.|FMN (By similarity).				cellular nitrogen compound metabolic process|fatty acid alpha-oxidation|glycolate catabolic process|glyoxylate metabolic process	peroxisomal matrix	FMN binding|glycolate oxidase activity|glyoxylate oxidase activity			ovary(3)	3						ACAGCCTTGGCGCCAAGAGCC	0.483													33	74					0	0	0.004878	0	0		T	7866403	T	T	7866403	3	4	202	1	0	0	0	0	1	0	0	0	6967	768	27	1	202	1	HAO1	20	7866403	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4187627	7866403	55159117	765	99653											
SPTLC3	55304	broad.mit.edu	37	chr20	13053052	13053052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcagacgactataactggaCgtttaggtgagagaacttct	13	11	10	7	2	2	3	1	1	1	2	2	6	2	4	0	2	2	1	0	2	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:13053052C>T	uc002wod.1	+	3	741	c.452C>T	c.(451-453)ACG>ATG	p.T151M		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	151					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TATAACTGGACGTTTAGGTGA	0.463													45	94					0	0	0.00361	0	0		T	13053052	T	T	13053052	3	4	202	1	0	0	0	0	1	0	0	0	15150	536	19	1	462	1	SPTLC3	20	13053052	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5186649	13053052	49972468	766	99654											
RRBP1	6238	broad.mit.edu	37	chr20	17617341	17617341	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttttcactttggcctcccCggctgctgctttggcctttt	1	18	8	14	1	1	0	1	0	0	0	2	0	2	0	4	3	2	3	4	3	0	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:17617341C>T	uc002wpv.1	-	7	1273	c.919G>A	c.(919-921)GGG>AGG	p.G307R	RRBP1_uc002wpu.2_Missense_Mutation_p.G81R|RRBP1_uc002wpw.1_Missense_Mutation_p.G307R|RRBP1_uc010gcl.1_Missense_Mutation_p.G81R|RRBP1_uc010gcm.1_5'UTR	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	740	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						TTGGCCTCCCCGGCTGCTGCT	0.622													44	74					0	0	0.00361	0	0		T	17617341	T	T	17617341	3	4	202	1	0	0	0	0	1	0	0	0	13703	652	23	1	2094	1	RRBP1	20	17617341	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4564289	17617341	45408179	767	99655											
PAX1	5075	broad.mit.edu	37	chr20	21687400	21687400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgaccggctgctggccgacgGcgtctgtgacaagtacaatg	8	7	14	12	5	1	1	0	1	1	0	1	3	1	1	2	3	2	3	2	3	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:21687400G>A	uc002wsj.2	+	2	665	c.611G>A	c.(610-612)GGC>GAC	p.G204D	PAX1_uc010zsl.1_Missense_Mutation_p.G204D|PAX1_uc010zsm.1_Missense_Mutation_p.G180D	NM_006192	NP_006183	P15863	PAX1_HUMAN	paired box 1	204	Paired.				regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			upper_aerodigestive_tract(1)|kidney(1)	2						CTGGCCGACGGCGTCTGTGAC	0.627													9	102					0	0	0.006214	0	0		A	21687400	A	A	21687400	3	1	202	1	0	0	0	0	1	0	0	0	11497	1203	42	2	617	2	PAX1	20	21687400	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4070059	21687400	41338120	768	99656											
MYH7B	57644	broad.mit.edu	37	chr20	33572917	33572917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctgggaagctggcatccGcggatattgacagctgtgag	8	9	14	10	2	1	2	0	2	1	0	2	4	2	4	2	3	2	3	2	3	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:33572917G>A	uc002xbi.1	+	11	1008	c.916G>A	c.(916-918)GCG>ACG	p.A306T		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	264	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			GCTGGCATCCGCGGATATTGA	0.642													25	86					0	0	0.00632	0	0		A	33572917	A	A	33572917	3	1	202	1	0	0	0	0	1	0	0	0	10058	1087	38	1	958	1	MYH7B	20	33572917	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	11885517	33572917	29452603	769	99657											
FAM83C	128876	broad.mit.edu	37	chr20	33876355	33876355	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcggccagccttgctgcagtAtgtgtccccacacgtgctcc	5	9	11	16	2	0	0	0	0	0	0	2	0	2	0	5	1	4	4	5	1	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:33876355A>G	uc010zux.1	-	3	833	c.715T>C	c.(715-717)TAC>CAC	p.Y239H	FAM83C_uc002xcb.1_Missense_Mutation_p.Y63H	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	239										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TTGCTGCAGTATGTGTCCCCA	0.607													12	53					0	0	0.001855	0	0		G	33876355	G	G	33876355	3	3	202	1	0	0	0	0	1	0	0	0	5649	449	16	3	1536	3	FAM83C	20	33876355	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	303438	33876355	29149165	770	99658											
SPAG4	6676	broad.mit.edu	37	chr20	34206915	34206915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcccgactatgctttgagctCtgtgggtaagacccggagac	8	9	13	11	2	1	3	0	1	1	2	1	5	1	3	2	2	2	3	2	2	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:34206915C>T	uc002xdb.1	+	8	905	c.788C>T	c.(787-789)TCT>TTT	p.S263F	SPAG4_uc010zvi.1_Missense_Mutation_p.S186F	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4	263					spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			GCTTTGAGCTCTGTGGGTAAG	0.458													17	55					0	0	0.007413	0	0		T	34206915	T	T	34206915	3	4	202	1	0	0	0	0	1	0	0	0	15005	913	32	4	818	4	SPAG4	20	34206915	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	330560	34206915	28818605	771	99659											
BPI	671	broad.mit.edu	37	chr20	36962864	36962864	+	Silent	SNP	T	C	C	0	1	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	caggatatcatgaactacatTgtacccattcttgtgctgcc	10	13	7	11	0	2	1	1	1	1	0	2	2	2	2	2	1	5	2	2	1	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:36962864T>C	uc002xib.2	+	13	1379	c.1317T>C	c.(1315-1317)ATT>ATC	p.I439I		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	439					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				TGAACTACATTGTACCCATTC	0.512													60	175					0	0	0.00361	0	0		C	36962864	C	C	36962864	2	2	202	1	0	0	0	0	0	0	0	1	1493	1800	63	3		3	BPI	20	36962864	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	2755949	36962864	26062656	772	99660											
JPH2	57158	broad.mit.edu	37	chr20	42788504	42788504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtagcggaggccactggagCgttcgctcacgccgaagccc	7	5	14	15	6	1	0	1	0	0	0	2	3	1	2	3	3	3	3	3	3	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:42788504C>T	uc002xli.1	-	2	1796	c.923G>A	c.(922-924)CGC>CAC	p.R308H		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	308	MORN 7.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GCCACTGGAGCGTTCGCTCAC	0.672													14	24					0	0	0.004007	0	0		T	42788504	T	T	42788504	3	4	202	1	0	0	0	0	1	0	0	0	7977	768	27	1	1183	1	JPH2	20	42788504	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	5825640	42788504	20237016	773	99661											
R3HDML	140902	broad.mit.edu	37	chr20	42973914	42973914	+	Silent	SNP	A	G	G	1	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	cttcaccagatggtgtgggcAtcctccaatcggctgggctg	6	10	13	12	1	1	1	1	0	0	1	4	1	3	1	3	4	0	3	3	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:42973914A>G	uc002xls.1	+	4	697	c.525A>G	c.(523-525)GCA>GCG	p.A175A		NM_178491	NP_848586	Q9H3Y0	CRSPL_HUMAN	R3H domain containing-like precursor	175						extracellular region	peptidase inhibitor activity				0		Myeloproliferative disorder(115;0.028)	COAD - Colon adenocarcinoma(18;0.00189)			TGGTGTGGGCATCCTCCAATC	0.587													15	193					0	0	0.00245	0	0		G	42973914	G	G	42973914	2	3	202	1	0	0	0	0	0	0	0	1	12914	204	8	3		3	R3HDML	20	42973914	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	185410	42973914	20051606	774	99662											
PABPC1L	80336	broad.mit.edu	37	chr20	43545420	43545420	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtgtgacgagcatggctcCcggggtttcggctttgtcca	4	11	15	11	4	0	1	0	1	0	0	3	2	2	1	2	4	1	4	2	4	0	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:43545420C>T	uc010ggv.1	+	3	493	c.411C>T	c.(409-411)TCC>TCT	p.S137S	PABPC1L_uc010zwq.1_RNA	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	137	RRM 2.						nucleotide binding|RNA binding			ovary(1)	1						AGCATGGCTCCCGGGGTTTCG	0.557													5	175					0	0	0.001984	0	0		T	43545420	T	T	43545420	2	4	202	1	0	0	0	0	0	0	0	1	11383	610	22	4		4	PABPC1L	20	43545420	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	571506	43545420	19480100	775	99663											
PREX1	57580	broad.mit.edu	37	chr20	47269921	47269921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcttcgcgccgactcCggaatgcctggaagtgctcc	5	8	13	15	4	1	0	0	0	1	0	4	3	3	2	5	3	2	1	5	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:47269921C>T	uc002xtw.1	-	20	2347	c.2324G>A	c.(2323-2325)CGG>CAG	p.R775Q	PREX1_uc002xtv.1_Missense_Mutation_p.R72Q	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	775					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GCGCCGACTCCGGAATGCCTG	0.592													27	108					0	0	0.004656	0	0		T	47269921	T	T	47269921	3	4	202	1	0	0	0	0	1	0	0	0	12498	652	23	1	2739	1	PREX1	20	47269921	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3724501	47269921	15755599	776	99664											
CSE1L	1434	broad.mit.edu	37	chr20	47688929	47688929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attccagcgatacctgcctcGttttgttacagccatctgga	8	13	8	12	2	1	0	0	0	1	0	3	2	2	1	4	1	5	2	4	1	2	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:47688929G>A	uc002xty.2	+	9	1009	c.875G>A	c.(874-876)CGT>CAT	p.R292H	CSE1L_uc010zyg.1_Missense_Mutation_p.R75H|CSE1L_uc010ghx.2_Intron|CSE1L_uc010ghy.2_5'UTR|CSE1L_uc010zyh.1_5'Flank	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	292					apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			TACCTGCCTCGTTTTGTTACA	0.398													21	39					0	0	0.00278	0	0		A	47688929	A	A	47688929	3	1	202	1	0	0	0	0	1	0	0	0	3933	1145	40	1	905	1	CSE1L	20	47688929	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	419008	47688929	15336591	777	99665											
KCNB1	3745	broad.mit.edu	37	chr20	47991257	47991257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcacgctcttgttggattcGgtgaggaaaatggtgacata	11	11	13	6	2	1	2	0	2	1	0	2	4	1	4	0	4	1	3	0	4	3	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:47991257G>A	uc002xur.1	-	2	1004	c.840C>T	c.(838-840)ACC>ACT	p.T280T	KCNB1_uc002xus.1_Silent_p.T280T	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	280	Helical; Name=Segment S3; (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			TGTTGGATTCGGTGAGGAAAA	0.522													21	82					0	0	0.00278	0	0		A	47991257	A	A	47991257	2	1	202	1	0	0	0	0	0	0	0	1	8028	1103	39	1		1	KCNB1	20	47991257	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	302328	47991257	15034263	778	99666											
MC3R	4159	broad.mit.edu	37	chr20	54824454	54824454	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatcgtctactcggagagCaaaatggtcattgtgtgcct	9	13	10	9	2	3	1	2	0	1	1	5	2	3	1	1	2	3	1	1	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:54824454C>T	uc002xxb.2	+	1	667	c.555C>T	c.(553-555)AGC>AGT	p.S185S		NM_019888	NP_063941	P41968	MC3R_HUMAN	melanocortin 3 receptor	222	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|protein binding			ovary(2)|breast(2)	4			Colorectal(105;0.202)			ACTCGGAGAGCAAAATGGTCA	0.567													40	96					0	0	0.009718	0	0		T	54824454	T	T	54824454	2	4	202	1	0	0	0	0	0	0	0	1	9383	709	25	2		2	MC3R	20	54824454	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	6833197	54824454	8201066	779	99667											
AURKA	6790	broad.mit.edu	37	chr20	54956591	54956591	+	Silent	SNP	A	G	G	1	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	aggtagactctggtagcatcAtggaaataaccatacagtct	14	10	9	8	0	3	1	1	0	2	1	3	2	3	2	1	3	3	3	1	3	5	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:54956591A>G	uc002xxd.1	-	8	1169	c.603T>C	c.(601-603)CAT>CAC	p.H201H	AURKA_uc002xxe.1_Silent_p.H201H|AURKA_uc002xxf.1_Silent_p.H201H|AURKA_uc002xxg.1_Silent_p.H201H|AURKA_uc002xxh.1_Silent_p.H201H|AURKA_uc002xxi.1_Silent_p.H201H|AURKA_uc002xxj.1_Silent_p.H201H|AURKA_uc002xxk.1_Silent_p.H201H|AURKA_uc010zzd.1_RNA	NM_198433	NP_940835	O14965	AURKA_HUMAN	serine/threonine protein kinase 6	201	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|phosphatidylinositol-mediated signaling|regulation of protein stability|spindle organization	cytosol|nucleus|perinuclear region of cytoplasm|spindle microtubule|spindle pole centrosome	ATP binding|protein kinase binding|protein serine/threonine kinase activity			lung(3)|ovary(2)|breast(1)|large_intestine(1)|skin(1)	8			Colorectal(105;0.202)			TGGTAGCATCATGGAAATAAC	0.373													3	30					0	0	0.009096	0	0		G	54956591	G	G	54956591	2	3	202	1	0	0	0	0	0	0	0	1	1222	214	8	3		3	AURKA	20	54956591	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	132137	54956591	8068929	780	99668											
C20orf43	51507	broad.mit.edu	37	chr20	55059239	55059239	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gagataaaagcggaagtttgCcacacggtgagttcctgaca	13	8	12	8	2	0	3	0	2	0	1	1	5	1	4	2	2	2	2	2	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:55059239C>T	uc002xxt.2	+	5	578	c.471C>T	c.(469-471)TGC>TGT	p.C157C	C20orf43_uc010zzf.1_Silent_p.C187C|C20orf43_uc002xxu.2_Silent_p.C157C|C20orf43_uc002xxv.2_Silent_p.C157C	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507	157										ovary(1)	1			Colorectal(105;0.202)			CGGAAGTTTGCCACACGGTGA	0.478													18	57					0	0	0.002299	0	0		T	55059239	T	T	55059239	2	4	202	1	0	0	0	0	0	0	0	1	2115	747	26	2		2	C20orf43	20	55059239	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	102648	55059239	7966281	781	99669											
CTSZ	1522	broad.mit.edu	37	chr20	57576650	57576650	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgatgacgttctgcacGgacaggagggtggagggcca	9	6	17	9	3	1	1	0	1	1	0	2	5	1	4	1	5	1	2	1	5	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:57576650G>A	uc002yai.2	-	3	483	c.357C>T	c.(355-357)TCC>TCT	p.S119S	CTSZ_uc002yaj.3_Silent_p.S119S	NM_001336	NP_001327	Q9UBR2	CATZ_HUMAN	cathepsin Z preproprotein	119					proteolysis	endoplasmic reticulum|extracellular space|lysosome	cysteine-type endopeptidase activity			kidney(1)	1	all_lung(29;0.00711)		Colorectal(105;0.109)			CGTTCTGCACGGACAGGAGGG	0.602													19	77					0	0	0.007413	0	0		A	57576650	A	A	57576650	2	1	202	1	0	0	0	0	0	0	0	1	4046	1103	39	1		1	CTSZ	20	57576650	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2517411	57576650	5448870	782	99670											
ZBTB46	140685	broad.mit.edu	37	chr20	62421541	62421541	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtagctgctccctccgtcGtgacagctggcgatggccga	5	8	13	15	5	0	1	0	1	0	0	3	3	2	1	4	2	3	4	4	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:62421541G>A	uc002ygv.1	-	2	771	c.570C>T	c.(568-570)CAC>CAT	p.H190H	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	190					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					TCCCTCCGTCGTGACAGCTGG	0.622													5	21					0	0	0.000602	0	0		A	62421541	A	A	62421541	2	1	202	1	0	0	0	0	0	0	0	1	17572	1136	40	1		1	ZBTB46	20	62421541	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4844891	62421541	603979	783	99671											
UCKL1	54963	broad.mit.edu	37	chr20	62572046	62572046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctccatggtttcaccggcGcgcagaatggacacaccggt	8	7	13	13	4	1	1	1	0	0	1	2	2	2	2	3	5	0	3	3	5	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr20:62572046G>A	uc010gkn.2	-	12	1246	c.1203C>T	c.(1201-1203)CGC>CGT	p.R401R	UCKL1_uc002yhj.2_Silent_p.R44R|UCKL1_uc011abm.1_Silent_p.R386R|UCKL1_uc011abn.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	401					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					TTTCACCGGCGCGCAGAATGG	0.682													7	11					0	0	0.001984	0	0		A	62572046	A	A	62572046	2	1	202	1	0	0	0	0	0	0	0	1	16951	1074	38	1		1	UCKL1	20	62572046	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	150505	62572046	453474	784	99672											
KRTAP8-1	337879	broad.mit.edu	37	chr21	32185383	32185383	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcgagtatctcctgtagccGaaagccccacagccgttgta	9	8	11	13	3	1	0	0	0	1	0	2	2	1	0	5	1	3	4	5	1	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:32185383G>A	uc002you.2	-	1	188	c.156C>T	c.(154-156)TTC>TTT	p.F52F		NM_175857	NP_787053	Q8IUC2	KRA81_HUMAN	keratin associated protein 8-1	52	12 X 2 AA repeats of G-[YCGS].					intermediate filament					0						TCCTGTAGCCGAAAGCCCCAC	0.562													22	82					0	0	0.003954	0	0		A	32185383	A	A	32185383	2	1	202	1	0	0	0	0	0	0	0	1	8588	1049	37	1		1	KRTAP8-1	21	32185383	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08		32185383	15944512	785	99673											
SFRS15	57466	broad.mit.edu	37	chr21	33073415	33073415	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatagcctgaacctgagccaTcacagcattgtcaagggcag	12	7	11	11	0	2	2	2	2	0	0	2	3	2	2	3	1	4	2	3	1	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:33073415T>C	uc002ypd.2	-	7	1096	c.670A>G	c.(670-672)ATG>GTG	p.M224V	SFRS15_uc002ype.2_Missense_Mutation_p.M224V|SFRS15_uc010glu.2_Missense_Mutation_p.M209V|SFRS15_uc002ypf.1_5'UTR|SFRS15_uc002ypg.2_Missense_Mutation_p.M224V	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	224						nucleus	nucleotide binding|RNA binding				0						ACCTGAGCCATCACAGCATTG	0.448													6	32					0	0	0.001984	0	0		C	33073415	C	C	33073415	3	2	202	1	0	0	0	0	1	0	0	0	14196	1435	50	3	2829	3	SFRS15	21	33073415	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	888032	33073415	15056480	786	99674											
MRAP	56246	broad.mit.edu	37	chr21	33684248	33684248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcaatgggggtcccctcGtcaggagcaagcccagcgag	8	5	13	15	2	2	0	2	0	0	0	4	2	3	1	4	3	3	1	4	3	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:33684248G>A	uc002ypj.2	+	5	647	c.460G>A	c.(460-462)GTC>ATC	p.V154I	MRAP_uc002ypk.2_Intron|URB1_uc002ypn.2_3'UTR|MRAP_uc011ado.1_Missense_Mutation_p.V95I|MRAP_uc002ypl.2_Missense_Mutation_p.V154I	NM_178817	NP_848932	Q8TCY5	MRAP_HUMAN	melanocortin 2 receptor accessory protein	154	Extracellular (Potential).				positive regulation of cAMP biosynthetic process|protein localization at cell surface	endoplasmic reticulum|integral to membrane|perinuclear region of cytoplasm|plasma membrane	corticotropin hormone receptor binding|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding|type 5 melanocortin receptor binding				0						GGGTCCCCTCGTCAGGAGCAA	0.602													19	49					0	0	0.001882	0	0		A	33684248	A	A	33684248	3	1	202	1	0	0	0	0	1	0	0	0	9771	1145	40	1	470	1	MRAP	21	33684248	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	610833	33684248	14445647	787	99675											
GART	2618	broad.mit.edu	37	chr21	34907049	34907049	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actcctgcagacctcaggttCccaacaatccctattgatga	11	10	6	14	0	1	3	1	2	0	1	4	3	4	3	4	1	2	2	4	1	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:34907049C>T	uc002yrx.2	-	4	387	c.252G>A	c.(250-252)GGG>GGA	p.G84G	GART_uc002yrz.2_Silent_p.G84G|GART_uc010gmd.2_5'UTR|GART_uc002yry.2_Silent_p.G84G|GART_uc002ysa.2_Silent_p.G84G	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	84					'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	ACCTCAGGTTCCCAACAATCC	0.473													7	20					0	0	0.006214	0	0		T	34907049	T	T	34907049	2	4	202	1	0	0	0	0	0	0	0	1	6258	842	30	4		4	GART	21	34907049	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1222801	34907049	13222846	788	99676											
TTC3	7267	broad.mit.edu	37	chr21	38497038	38497038	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacggtggtaatcagaatcTaaaggtaagctccattgaaa	16	9	9	7	1	2	2	1	1	1	1	3	2	3	2	1	3	2	3	1	3	7	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:38497038T>C	uc002yvz.2	+	14	1334	c.1229T>C	c.(1228-1230)CTA>CCA	p.L410P	TTC3_uc011aee.1_Missense_Mutation_p.L100P|TTC3_uc002ywa.2_Missense_Mutation_p.L410P|TTC3_uc002ywb.2_Missense_Mutation_p.L410P|TTC3_uc010gnf.2_Missense_Mutation_p.L175P|TTC3_uc002ywc.2_Missense_Mutation_p.L100P|TTC3_uc011aed.1_Missense_Mutation_p.L100P|TTC3_uc010gne.1_Missense_Mutation_p.L410P	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	410					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				AATCAGAATCTAAAGGTAAGC	0.323													6	9					0	0	0.00308	0	0		C	38497038	C	C	38497038	3	2	202	1	0	0	0	0	1	0	0	0	16723	1522	53	3	1279	3	TTC3	21	38497038	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	3589989	38497038	9632857	789	99677											
TTC3	7267	broad.mit.edu	37	chr21	38529174	38529174	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagacaagttcccagcattGcatagtgctttagatgaatt	13	12	9	7	0	0	3	0	1	0	2	1	4	1	3	1	0	3	4	1	0	4	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:38529174G>A	uc002yvz.2	+	28	3063	c.2958G>A	c.(2956-2958)TTG>TTA	p.L986L	TTC3_uc011aee.1_Silent_p.L676L|TTC3_uc002ywa.2_Silent_p.L986L|TTC3_uc002ywb.2_Silent_p.L986L|TTC3_uc010gnf.2_Silent_p.L751L|TTC3_uc002ywc.2_Silent_p.L676L|TTC3_uc002ywd.1_Silent_p.L50L	NM_001001894	NP_001001894	P53804	TTC3_HUMAN	tetratricopeptide repeat domain 3	986					protein K48-linked ubiquitination|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(3)|ovary(2)|lung(2)|breast(2)	9		Myeloproliferative disorder(46;0.0412)				TCCCAGCATTGCATAGTGCTT	0.378													11	32					0	0	0.000978	0	0		A	38529174	A	A	38529174	2	1	202	1	0	0	0	0	0	0	0	1	16723	1310	46	2		2	TTC3	21	38529174	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	32136	38529174	9600721	790	99678											
PLAC4	191585	broad.mit.edu	37	chr21	42551149	42551149	+	Missense_Mutation	SNP	A	G	G	1	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	gttgagtgagggtgtccaggAtgaggagtgagggtgtccag	8	9	20	4	0	0	4	0	4	0	0	2	6	2	6	2	4	0	1	2	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:42551149A>G	uc002yyz.2	-	1	6018	c.407T>C	c.(406-408)ATC>ACC	p.I136T	BACE2_uc002yyw.2_Intron|BACE2_uc002yyx.2_Intron|BACE2_uc002yyy.2_Intron	NM_182832	NP_878252	Q8WY50	PLAC4_HUMAN	placenta-specific 4	136											0		Prostate(19;2.29e-06)				GGTGTCCAGGATGAGGAGTGA	0.274													3	8					0	0	0.004672	0	0		G	42551149	G	G	42551149	3	3	202	1	0	0	0	0	1	0	0	0	12033	333	12	3	49	3	PLAC4	21	42551149	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	4021975	42551149	5578746	791	99679											
UMODL1	89766	broad.mit.edu	37	chr21	43519199	43519199	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagccaggcactggcagtGgctgggctggaggctggagt	7	6	19	9	0	0	1	0	0	0	1	0	3	0	3	1	7	1	5	1	7	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:43519199G>T	uc002zaf.1	+	7	1095	c.1095G>T	c.(1093-1095)GTG>GTT	p.V365V	UMODL1_uc002zad.1_Silent_p.V293V|UMODL1_uc002zae.1_Silent_p.V293V|UMODL1_uc002zag.1_Silent_p.V365V|UMODL1_uc010gow.1_Silent_p.V157V|UMODL1_uc002zai.1_Silent_p.V16V|UMODL1_uc010gox.1_RNA|UMODL1_uc010goy.1_Silent_p.V16V|UMODL1_uc002zaj.1_RNA|UMODL1_uc010goz.1_Silent_p.V110V	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	365	Extracellular (Potential).|Fibronectin type-III 1.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						CACTGGCAGTGGCTGGGCTGG	0.597													16	42					5.03518e-11	5.36818e-11	0.007413	1	0		T	43519199	T	T	43519199	2	4	202	1	0	0	0	0	0	0	0	1	17006	1335	47	5		5	UMODL1	21	43519199	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	968050	43519199	4610696	792	99680											
KRTAP12-2	353323	broad.mit.edu	37	chr21	46086745	46086745	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcacacaacaggctggctggCaggggctgggcgcgcagcag	8	3	18	12	2	0	0	0	0	0	0	0	0	0	0	0	6	2	7	0	6	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:46086745C>T	uc002zfu.2	-	1	100	c.59G>A	c.(58-60)TGC>TAC	p.C20Y	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_181684	NP_859012	P59991	KR122_HUMAN	keratin associated protein 12-2	20	3.|23 X 5 AA approximate repeats.					keratin filament					0						GGCTGGCTGGCAGGGGCTGGG	0.662													3	27					0	0	0.001168	0	0		T	46086745	T	T	46086745	3	4	202	1	0	0	0	0	1	0	0	0	8535	710	25	2	385	2	KRTAP12-2	21	46086745	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2567546	46086745	2043150	793	99681											
COL6A2	1292	broad.mit.edu	37	chr21	47536294	47536294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctcctgcccccagggcGttcctggcttcaaaggagag	6	9	11	15	1	2	1	1	0	1	1	5	2	4	1	5	3	1	2	5	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:47536294G>A	uc002zia.1	+	8	986	c.904G>A	c.(904-906)GTT>ATT	p.V302I	COL6A2_uc002zhy.1_Missense_Mutation_p.V302I|COL6A2_uc002zhz.1_Missense_Mutation_p.V302I|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	302	Triple-helical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		CCCCCAGGGCGTTCCTGGCTT	0.667													13	24					0	0	0.00499	0	0		A	47536294	A	A	47536294	3	1	202	1	0	0	0	0	1	0	0	0	3703	1145	40	1	930	1	COL6A2	21	47536294	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1449549	47536294	593601	794	99682											
COL6A2	1292	broad.mit.edu	37	chr21	47546072	47546072	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcgcctgcgacaagccacaGcaggtgcgcaacatgacgct	11	5	11	14	4	0	1	0	1	0	0	1	2	0	1	2	1	5	3	2	1	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr21:47546072G>A	uc002zia.1	+	26	2425	c.2343G>A	c.(2341-2343)CAG>CAA	p.Q781Q	COL6A2_uc002zhy.1_Silent_p.Q781Q|COL6A2_uc002zhz.1_Silent_p.Q781Q|COL6A2_uc002zib.1_Silent_p.Q187Q|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	781	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		ACAAGCCACAGCAGGTGCGCA	0.622													56	285					0	0	0.00361	0	0		A	47546072	A	A	47546072	2	1	202	1	0	0	0	0	0	0	0	1	3703	962	34	2		2	COL6A2	21	47546072	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	9778	47546072	583823	795	99683											
UFD1L	7353	broad.mit.edu	37	chr22	19438229	19438229	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttacgcaatgactgtccTtctccagagaaagcgacgaa	12	11	8	10	3	1	2	0	1	1	1	3	5	2	2	2	0	2	1	2	0	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:19438229T>C	uc002zpm.2	-	12	1018	c.888A>G	c.(886-888)GAA>GAG	p.E296E	UFD1L_uc002zpo.2_3'UTR|UFD1L_uc011agy.1_3'UTR|UFD1L_uc002zpp.2_3'UTR	NM_005659	NP_005650	Q92890	UFD1_HUMAN	ubiquitin fusion degradation 1-like isoform A	296					skeletal system development|ubiquitin-dependent protein catabolic process	cytosol|nucleus	protein binding|ubiquitin-specific protease activity				0	Colorectal(54;0.0993)					ATGACTGTCCTTCTCCAGAGA	0.398													23	56					0	0	0.007291	0	0		C	19438229	C	C	19438229	2	2	202	1	0	0	0	0	0	0	0	1	16961	1606	56	3		3	UFD1L	22	19438229	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08		19438229	31866337	796	99684											
CLDN5	7122	broad.mit.edu	37	chr22	19511360	19511360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actcgcggacgacaatgttgGcgaaccagcagagtggcacg	11	5	14	11	5	0	1	0	0	0	1	1	4	0	2	1	3	2	3	1	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:19511360G>A	uc002zpu.2	-	2	889	c.674C>T	c.(673-675)GCC>GTC	p.A225V	CLDN5_uc010grr.2_Missense_Mutation_p.A225V	NM_003277	NP_003268	O00501	CLD5_HUMAN	claudin 5	140	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0	Colorectal(54;0.0993)					GACAATGTTGGCGAACCAGCA	0.687													11	13					0	0	0.00245	0	0		A	19511360	A	A	19511360	3	1	202	1	0	0	0	0	1	0	0	0	3491	1203	42	2	241	2	CLDN5	22	19511360	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	73131	19511360	31793206	797	99685											
RTN4R	65078	broad.mit.edu	37	chr22	20230610	20230610	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccaggcctgcagccacaGcacccatgccagcagccggc	8	3	11	19	1	0	0	0	0	0	0	0	0	0	0	6	2	7	3	6	2	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:20230610G>A	uc002zrv.2	-	2	247	c.46C>T	c.(46-48)CTG>TTG	p.L16L	RTN4R_uc002zru.2_5'UTR	NM_023004	NP_075380	Q9BZR6	RTN4R_HUMAN	reticulon 4 receptor precursor	16					axonogenesis|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	anchored to membrane|cell surface|endoplasmic reticulum|plasma membrane	protein binding|receptor activity				0	Colorectal(54;0.0993)					TGCAGCCACAGCACCCATGCC	0.637													7	24					0	0	0.006214	0	0		A	20230610	A	A	20230610	2	1	202	1	0	0	0	0	0	0	0	1	13755	962	34	2		2	RTN4R	22	20230610	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	719250	20230610	31073956	798	99686											
CCDC116	164592	broad.mit.edu	37	chr22	21988981	21988981	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctctttctgcagaaaggccTcagtcagtcctgctcccaga	8	10	8	15	0	4	2	2	0	2	2	6	2	6	2	4	1	2	2	4	1	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:21988981T>C	uc002zve.2	+	4	722	c.629T>C	c.(628-630)CTC>CCC	p.L210P	CCDC116_uc011aih.1_Missense_Mutation_p.L210P	NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	210										ovary(1)|skin(1)	2	Colorectal(54;0.105)					CAGAAAGGCCTCAGTCAGTCC	0.607													71	172					0	0	0.00361	0	0		C	21988981	C	C	21988981	3	2	202	1	0	0	0	0	1	0	0	0	2756	1551	54	3	639	3	CCDC116	22	21988981	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1758371	21988981	29315585	799	99687											
CABIN1	23523	broad.mit.edu	37	chr22	24560426	24560426	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggcagctttgcctggcacaTgaaccgctccatcgtgctgc	6	9	12	14	2	0	1	0	1	0	0	2	1	1	1	3	2	5	5	3	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:24560426T>C	uc002zzi.1	+	30	4932	c.4805T>C	c.(4804-4806)ATG>ACG	p.M1602T	CABIN1_uc002zzj.1_Missense_Mutation_p.M1523T|CABIN1_uc002zzl.1_Missense_Mutation_p.M1602T|CABIN1_uc002zzm.1_Missense_Mutation_p.M27T	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1602					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GCCTGGCACATGAACCGCTCC	0.647													30	76					0	0	0.003755	0	0		C	24560426	C	C	24560426	3	2	202	1	0	0	0	0	1	0	0	0	2531	1464	51	3	4919	3	CABIN1	22	24560426	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	2571445	24560426	26744140	800	99688											
HPS4	89781	broad.mit.edu	37	chr22	26860141	26860141	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatccaggccttgttccccCgtgggaagcttgtttcctct	4	14	9	14	1	2	0	1	0	1	0	5	1	5	1	5	2	1	3	5	2	1	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:26860141C>T	uc003acl.2	-	11	2114	c.1455G>A	c.(1453-1455)ACG>ACA	p.T485T	HPS4_uc003aci.2_Silent_p.T480T|HPS4_uc003acj.2_Silent_p.T349T|HPS4_uc003ack.2_Silent_p.T276T|HPS4_uc003acn.2_Silent_p.T331T|HPS4_uc010gvd.1_Silent_p.T503T|HPS4_uc003ach.2_Silent_p.T220T	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	485					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						CTTGTTCCCCCGTGGGAAGCT	0.582									Hermansky-Pudlak_syndrome				23	145					0	0	0.004656	0	0		T	26860141	T	T	26860141	2	4	202	1	0	0	0	0	0	0	0	1	7357	639	23	1		1	HPS4	22	26860141	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2299715	26860141	24444425	801	99689											
TFIP11	24144	broad.mit.edu	37	chr22	26890185	26890185	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagatggatgtgccagcactTggtctgagaacatcgacttc	10	10	11	10	1	1	2	0	1	1	2	3	5	1	3	1	2	3	1	1	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:26890185T>C	uc003acr.2	-	13	2452	c.2078A>G	c.(2077-2079)CAA>CGA	p.Q693R	TFIP11_uc003acq.2_Missense_Mutation_p.Q52R|TFIP11_uc003acs.2_Missense_Mutation_p.Q693R|TFIP11_uc003act.2_Missense_Mutation_p.Q693R|uc003acu.1_RNA	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	693					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						TGCCAGCACTTGGTCTGAGAA	0.473													21	37					0	0	0.004656	0	0		C	26890185	C	C	26890185	3	2	202	1	0	0	0	0	1	0	0	0	15832	1812	63	3	443	3	TFIP11	22	26890185	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	30044	26890185	24414381	802	99690											
CHEK2	11200	broad.mit.edu	37	chr22	29090060	29090060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggcttcttctgtcgtaaaaCgtgcctttggatccactacc	8	13	8	12	2	2	0	0	0	2	0	4	1	3	1	3	2	3	2	3	2	3	5	rs121908706		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:29090060C>T	uc003adu.1	-	13	1493	c.1421G>A	c.(1420-1422)CGT>CAT	p.R474H	CHEK2_uc003ads.1_Missense_Mutation_p.R253H|CHEK2_uc010gvh.1_Missense_Mutation_p.R383H|CHEK2_uc010gvi.1_Intron|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.R517H|CHEK2_uc003adv.1_Missense_Mutation_p.R445H|CHEK2_uc003adw.1_Missense_Mutation_p.R474H|CHEK2_uc003adx.1_Missense_Mutation_p.R253H|CHEK2_uc003ady.1_Missense_Mutation_p.R463H|CHEK2_uc003adz.1_Missense_Mutation_p.R278H	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	474	Protein kinase.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						TGTCGTAAAACGTGCCTTTGG	0.458			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				32	86					0	0	0.00623	0	0		T	29090060	T	T	29090060	3	4	202	1	0	0	0	0	1	0	0	0	3338	536	19	1	222	1	CHEK2	22	29090060	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	2199875	29090060	22214506	803	99691											
EMID1	129080	broad.mit.edu	37	chr22	29621174	29621174	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtcgggcagtaccatgcgGcggatggcgcttcggcccac	5	7	16	13	5	0	0	0	0	0	0	2	1	0	1	2	6	2	3	2	6	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:29621174G>A	uc003aen.2	+	4	441	c.366G>A	c.(364-366)CGG>CGA	p.R122R	EMID1_uc003aem.2_Silent_p.R124R|EMID1_uc003aeo.2_Silent_p.R124R|EMID1_uc003aep.2_Silent_p.R124R	NM_133455	NP_597712	Q96A84	EMID1_HUMAN	EMI domain containing 1	122						collagen					0						GTACCATGCGGCGGATGGCGC	0.642													18	65					0	0	0.00333	0	0		A	29621174	A	A	29621174	2	1	202	1	0	0	0	0	0	0	0	1	5099	1190	42	2		2	EMID1	22	29621174	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	531114	29621174	21683392	804	99692											
PATZ1	23598	broad.mit.edu	37	chr22	31723054	31723054	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agggggcccccgagagcccgGacatgcaccttctggatgtg	7	6	15	13	2	1	1	0	0	1	1	1	4	1	3	4	4	2	1	4	4	0	1	rs139600326	by1000genomes	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:31723054G>A	uc003akq.2	-	5	2548	c.1887C>T	c.(1885-1887)GTC>GTT	p.V629V	PATZ1_uc003akp.2_3'UTR|PATZ1_uc003akr.2_Silent_p.V583V	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	629					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						CGAGAGCCCGGACATGCACCT	0.562													24	93					0	0	0.00278	0	0		A	31723054	A	A	31723054	2	1	202	1	0	0	0	0	0	0	0	1	11495	1161	41	4		4	PATZ1	22	31723054	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2101880	31723054	19581512	805	99693											
SLC5A4	6527	broad.mit.edu	37	chr22	32616985	32616985	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgctcctctgtactgttccGaagaacccagcacaggcggt	8	9	10	14	3	1	1	0	0	1	1	4	2	3	1	3	2	3	4	3	2	3	2	rs139861447	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:32616985G>A	uc003ami.2	-	14	1692	c.1690C>T	c.(1690-1692)CGG>TGG	p.R564W		NM_014227	NP_055042	Q9NY91	SC5A4_HUMAN	solute carrier family 5 (low affinity glucose	564	Cytoplasmic (Potential).				carbohydrate transport|sodium ion transport	integral to membrane	symporter activity				0						GTACTGTTCCGAAGAACCCAG	0.398													8	46					0	0	0.006214	0	0		A	32616985	A	A	32616985	3	1	202	1	0	0	0	0	1	0	0	0	14692	1057	37	1	297	1	SLC5A4	22	32616985	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	893931	32616985	18687581	806	99694											
RFPL3	10738	broad.mit.edu	37	chr22	32754283	32754283	+	Silent	SNP	T	C	C	0	1	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	aaggagccccatggggaggaTctgctttgctgttgctgttc	6	12	14	9	0	1	0	0	0	1	0	2	3	1	3	2	4	4	5	2	4	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:32754283T>C	uc003amj.2	+	1	430	c.225T>C	c.(223-225)GAT>GAC	p.D75D	RFPL3_uc010gwn.2_Silent_p.D46D	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1	75	RING-type.						zinc ion binding			ovary(1)	1						ATGGGGAGGATCTGCTTTGCT	0.532													19	39					0	0	0.00278	0	0		C	32754283	C	C	32754283	2	2	202	1	0	0	0	0	0	0	0	1	13280	1432	50	3		3	RFPL3	22	32754283	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	137298	32754283	18550283	807	99695											
IL2RB	3560	broad.mit.edu	37	chr22	37531453	37531453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcccacgaggaggtggcCgagccacggaatggtgtcct	8	5	17	11	3	0	0	0	0	0	0	1	5	1	2	4	6	1	0	4	6	1	0	rs141482021		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:37531453C>T	uc003aqv.1	-	8	864	c.733G>A	c.(733-735)GGC>AGC	p.G245S		NM_000878	NP_000869	P14784	IL2RB_HUMAN	interleukin 2 receptor beta precursor	245	Helical; (Potential).				interspecies interaction between organisms|positive regulation of survival gene product expression|protein complex assembly	external side of plasma membrane|integral to plasma membrane	interleukin-2 receptor activity				0					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	AGGAGGTGGCCGAGCCACGGA	0.592													19	62					0	0	0.001882	0	0		T	37531453	T	T	37531453	3	4	202	1	0	0	0	0	1	0	0	0	7703	652	23	1	934	1	IL2RB	22	37531453	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4777170	37531453	13773113	808	99696											
MICALL1	85377	broad.mit.edu	37	chr22	38322025	38322025	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaagaagcgccctgccccGcgcgcacccagcgcgtcccc	8	2	10	21	6	0	1	0	0	0	1	1	1	1	1	6	0	3	1	6	0	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:38322025G>A	uc003aui.2	+	8	1524	c.1440G>A	c.(1438-1440)CCG>CCA	p.P480P		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13	480	Pro-rich.					cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					GCCCTGCCCCGCGCGCACCCA	0.706													7	35					0	0	0.004482	0	0		A	38322025	A	A	38322025	2	1	202	1	0	0	0	0	0	0	0	1	9591	1074	38	1		1	MICALL1	22	38322025	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	790572	38322025	12982541	809	99697											
KCNJ4	3761	broad.mit.edu	37	chr22	38823343	38823343	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taaagcgggctgtcctcgtcGatctcgtggacaatgatgat	9	11	12	9	4	1	2	0	2	1	0	5	4	2	3	1	2	1	1	1	2	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:38823343G>A	uc003avs.1	-	2	892	c.795C>T	c.(793-795)ATC>ATT	p.I265I	KCNJ4_uc003avt.1_Silent_p.I265I	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	265	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TGTCCTCGTCGATCTCGTGGA	0.617													23	41					0	0	0.004656	0	0		A	38823343	A	A	38823343	2	1	202	1	0	0	0	0	0	0	0	1	8069	1048	37	1		1	KCNJ4	22	38823343	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	501318	38823343	12481223	810	99698											
PDGFB	5155	broad.mit.edu	37	chr22	39627801	39627801	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcgcgtcttgcactcggcGatcatggccggctcagcaat	6	9	13	13	5	3	0	2	0	1	0	4	1	3	0	1	3	3	3	1	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:39627801G>A	uc003axf.2	-	4	1271	c.282C>T	c.(280-282)ATC>ATT	p.I94I	PDGFB_uc003axe.2_Silent_p.I79I	NM_002608	NP_002599	P01127	PDGFB_HUMAN	platelet-derived growth factor beta isoform 1	94					activation of protein kinase B activity|cellular response to mycophenolic acid|embryonic placenta development|heart development|hemopoiesis|metanephric glomerular mesangial cell development|monocyte chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|negative regulation of transcription, DNA-dependent|paracrine signaling|peptidyl-serine phosphorylation|peptidyl-tyrosine phosphorylation|platelet activation|platelet degranulation|positive regulation of blood vessel endothelial cell migration|positive regulation of calcium ion import|positive regulation of cell division|positive regulation of chemotaxis|positive regulation of cyclin-dependent protein kinase activity|positive regulation of DNA biosynthetic process|positive regulation of DNA replication|positive regulation of endothelial cell proliferation|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of glomerular filtration|positive regulation of glomerular mesangial cell proliferation|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent|reactive oxygen species metabolic process|transforming growth factor beta receptor signaling pathway	basolateral plasma membrane|cell surface|endoplasmic reticulum lumen|extracellular region|Golgi membrane|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity|superoxide-generating NADPH oxidase activator activity		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(1)	373	Melanoma(58;0.04)				Becaplermin(DB00102)	TGCACTCGGCGATCATGGCCG	0.647			T	COL1A1	DFSP								7	28					0	0	0.006214	0	0		A	39627801	A	A	39627801	2	1	202	1	0	0	0	0	0	0	0	1	11677	1048	37	1		1	PDGFB	22	39627801	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	804458	39627801	11676765	811	99699											
MCHR1	2847	broad.mit.edu	37	chr22	41077613	41077613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcctcccagcgcagcatccGgctgcggacaaagagggtga	9	4	14	14	4	0	2	0	1	0	1	2	3	2	3	3	3	3	3	3	3	1	0	rs45439291	byFrequency	TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:41077613G>A	uc003ayz.2	+	2	1218	c.950G>A	c.(949-951)CGG>CAG	p.R317Q	MCHR1_uc003aza.2_Missense_Mutation_p.R206Q|uc003azb.1_RNA	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	317	Cytoplasmic (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						CGCAGCATCCGGCTGCGGACA	0.612													17	42					0	0	0.007413	0	0		A	41077613	A	A	41077613	3	1	202	1	0	0	0	0	1	0	0	0	9400	1116	39	1	956	1	MCHR1	22	41077613	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1449812	41077613	10226953	812	99700											
ZC3H7B	23264	broad.mit.edu	37	chr22	41753226	41753226	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggggacaagtgccgctgCgcccatggacaggaggagct	9	5	17	10	2	0	0	0	0	0	0	0	5	0	4	2	5	3	2	2	5	1	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:41753226C>T	uc003azw.2	+	23	2943	c.2727C>T	c.(2725-2727)TGC>TGT	p.C909C	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	925	C3H1-type 4.|Potential.				interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						AGTGCCGCTGCGCCCATGGAC	0.662													15	32					0	0	0.004007	0	0		T	41753226	T	T	41753226	2	4	202	1	0	0	0	0	0	0	0	1	17598	776	27	1		1	ZC3H7B	22	41753226	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	675613	41753226	9551340	813	99701											
SCUBE1	80274	broad.mit.edu	37	chr22	43623396	43623396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctacccacgcaatccttcccGttccagtggagccgcctccc	6	8	7	20	3	0	0	0	0	0	0	4	1	4	1	7	1	2	2	7	1	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:43623396G>A	uc003bdt.1	-	10	1279	c.1191C>T	c.(1189-1191)AAC>AAT	p.N397N		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	397	EGF-like 9; calcium-binding (Potential).				adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				AATCCTTCCCGTTCCAGTGGA	0.662													5	14					0	0	0.000602	0	0		A	43623396	A	A	43623396	2	1	202	1	0	0	0	0	0	0	0	1	13969	1136	40	1		1	SCUBE1	22	43623396	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1870170	43623396	7681170	814	99702											
EFCAB6	64800	broad.mit.edu	37	chr22	44063056	44063056	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaatcgttttttgaatgcCgggtcctgctgctgtataca	9	14	10	8	2	0	2	0	1	0	1	2	2	1	2	2	1	4	4	2	1	4	5	rs150612043		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:44063056C>T	uc003bdy.1	-	17	2126	c.1911G>A	c.(1909-1911)CCG>CCA	p.P637P	EFCAB6_uc003bdz.1_Silent_p.P485P|EFCAB6_uc010gzi.1_Silent_p.P485P|EFCAB6_uc010gzj.1_5'UTR|EFCAB6_uc010gzk.1_RNA	NM_022785	NP_073622	Q5THR3	EFCB6_HUMAN	CAP-binding protein complex interacting protein	637	EF-hand 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	calcium ion binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	7		Ovarian(80;0.0247)|all_neural(38;0.025)				TTTTGAATGCCGGGTCCTGCT	0.403													8	49					0	0	0.006214	0	0		T	44063056	T	T	44063056	2	4	202	1	0	0	0	0	0	0	0	1	4945	639	23	1		1	EFCAB6	22	44063056	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	439660	44063056	7241510	815	99703											
CELSR1	9620	broad.mit.edu	37	chr22	46932131	46932131	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgtctccttggtctcgcGgtccagtacgctgtccgtgc	2	12	13	14	5	2	0	0	0	2	0	6	0	4	0	3	2	3	2	3	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:46932131G>A	uc003bhw.1	-	1	937	c.937C>T	c.(937-939)CGC>TGC	p.R313C		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	313	Extracellular (Potential).|Cadherin 1.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TTGGTCTCGCGGTCCAGTACG	0.627													19	71					0	0	0.006122	0	0		A	46932131	A	A	46932131	3	1	202	1	0	0	0	0	1	0	0	0	3224	1116	39	1	8247	1	CELSR1	22	46932131	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2869075	46932131	4372435	816	99704											
BRD1	23774	broad.mit.edu	37	chr22	50192691	50192691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcgatcagcaggcgagcgCgctccaggtcgtgccgcagc	6	5	15	15	6	1	0	1	0	0	0	4	2	2	0	2	2	4	4	2	2	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:50192691C>T	uc003biv.2	-	3	2088	c.1601G>A	c.(1600-1602)CGC>CAC	p.R534H	BRD1_uc011arf.1_Missense_Mutation_p.R129H|BRD1_uc011arg.1_Missense_Mutation_p.R588H|BRD1_uc011arh.1_Missense_Mutation_p.R534H|BRD1_uc003biu.3_Missense_Mutation_p.R534H	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	534					histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CAGGCGAGCGCGCTCCAGGTC	0.622													13	36					0	0	0.001855	0	0		T	50192691	T	T	50192691	3	4	202	1	0	0	0	0	1	0	0	0	1504	768	27	1	1615	1	BRD1	22	50192691	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3260560	50192691	1111875	817	99705											
SAPS2	9701	broad.mit.edu	37	chr22	50882340	50882340	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaagccctgcctgccccgcGccaaaggaagtgactgctgc	8	7	11	15	2	0	1	0	1	0	0	0	2	0	2	5	1	5	1	5	1	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:50882340G>A	uc003blb.1	+	24	3068	c.2646G>A	c.(2644-2646)GCG>GCA	p.A882A	SAPS2_uc003bky.1_Silent_p.A849A|SAPS2_uc003bkz.1_Silent_p.A848A|SAPS2_uc003blc.2_Silent_p.A875A|SAPS2_uc003bla.1_Silent_p.A849A|SAPS2_uc003bld.1_Silent_p.A408A	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	882						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		CCTGCCCCGCGCCAAAGGAAG	0.677													6	3					0	0	0.00308	0	0		A	50882340	A	A	50882340	2	1	202	1	0	0	0	0	0	0	0	1	13862	1074	38	1		1	SAPS2	22	50882340	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	689649	50882340	422226	818	99706											
CPT1B	1375	broad.mit.edu	37	chr22	51012809	51012809	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggtgttgaacatcctctccaTctggtaggagcacataggca	10	10	11	10	0	2	1	0	1	2	0	4	2	3	2	2	4	2	4	2	4	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:51012809T>G	uc003bmk.3	-	8	1087	c.925A>C	c.(925-927)ATG>CTG	p.M309L	CPT1B_uc003bml.2_Missense_Mutation_p.M309L|CPT1B_uc003bmm.2_Missense_Mutation_p.M309L|CPT1B_uc003bmo.2_Missense_Mutation_p.M309L|CPT1B_uc011asa.1_Missense_Mutation_p.M275L|CPT1B_uc003bmn.2_Missense_Mutation_p.M309L|CPT1B_uc011asb.1_Missense_Mutation_p.M309L|CHKB-CPT1B_uc003bmp.2_Missense_Mutation_p.M106L	NM_001145137	NP_001138609	Q92523	CPT1B_HUMAN	carnitine palmitoyltransferase 1B isoform a	309	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		all cancers(3;3.56e-77)|OV - Ovarian serous cystadenocarcinoma(4;5.39e-74)|Epithelial(4;5.58e-70)|GBM - Glioblastoma multiforme(4;5.59e-08)|LUAD - Lung adenocarcinoma(64;0.0016)|Lung(4;0.00942)|BRCA - Breast invasive adenocarcinoma(115;0.207)		ATCCTCTCCATCTGGTAGGAG	0.612													9	26					0	0	0.000978	0	0		G	51012809	G	G	51012809	3	3	202	1	0	0	0	0	1	0	0	0	3835	1435	50	5	1437	5	CPT1B	22	51012809	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	130469	51012809	291757	819	99707											
SHANK3	85358	broad.mit.edu	37	chr22	51160556	51160556	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggtgaccttcagggaccCgctgctgaagcagtcctcgg	6	7	14	14	3	1	2	1	2	0	0	3	3	2	3	4	3	2	3	4	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chr22:51160556C>T	uc003bne.1	+	22	4343	c.4343C>T	c.(4342-4344)CCG>CTG	p.P1448L	SHANK3_uc003bnf.1_Missense_Mutation_p.P895L|SHANK3_uc010hbg.1_Missense_Mutation_p.P630L	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1448										central_nervous_system(1)	1		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)		TTCAGGGACCCGCTGCTGAAG	0.682													5	6					0	0	0.001168	0	0		T	51160556	T	T	51160556	3	4	202	1	0	0	0	0	1	0	0	0	14291	652	23	1	4429	1	SHANK3	22	51160556	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	147747	51160556	144010	820	99708											
MXRA5	25878	broad.mit.edu	37	chrX	3227803	3227803	+	Frame_Shift_Del	DEL	T	-	-																															tggagtcactgccgagaatgTtttttgccatgcacttgtag																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:3227803delT	uc004crg.3	-	7	8598	c.8441delA	c.(8440-8442)AACfs	p.N2814fs		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2814	Ig-like C2-type 12.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GCCGAGAATGTTTTTTGCCAT	0.468													8	14	---	---	---	---						.	-	3227803	-	-	3227803	7	5	202	1	0	1	0	1	0	0	0	0	10021	1725	60	0	49	0	MXRA5	23	3227803	Frame_Shift_Del	DEL	T	TCGA-HJ-7597-01A-21D-2201-08		3227803	152042757	821	99709											
MXRA5	25878	broad.mit.edu	37	chrX	3235466	3235466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggggcggatctgggtacCgtccccgagcacccagcgca	7	4	15	15	5	1	0	0	0	1	0	2	3	2	1	4	4	3	3	4	4	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:3235466C>T	uc004crg.3	-	6	6413	c.6256G>A	c.(6256-6258)GGT>AGT	p.G2086S		NM_015419	NP_056234	Q9NR99	MXRA5_HUMAN	adlican precursor	2086	Ig-like C2-type 5.					extracellular region				ovary(5)|lung(1)|central_nervous_system(1)|skin(1)	8		all_lung(23;0.00031)|Lung NSC(23;0.000946)				ATCTGGGTACCGTCCCCGAGC	0.652													9	9					0	0	0.008291	0	0		T	3235466	T	T	3235466	3	4	202	1	0	0	0	0	1	0	0	0	10021	652	23	1	2238	1	MXRA5	23	3235466	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7663	3235466	152035094	822	99710											
TBL1X	6907	broad.mit.edu	37	chrX	9677345	9677345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgttgctggcatcctgctcgGatgacatgacattgaaggta	9	12	12	8	1	0	3	0	3	0	0	2	4	1	4	1	3	2	5	1	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:9677345G>A	uc010ndq.2	+	14	1662	c.1294G>A	c.(1294-1296)GAT>AAT	p.D432N	TBL1X_uc004csq.3_Missense_Mutation_p.D381N|TBL1X_uc010ndr.2_Missense_Mutation_p.D381N|TBL1X_uc004csr.2_Missense_Mutation_p.D432N|TBL1X_uc004css.2_Missense_Mutation_p.D383N	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	432	WD 5.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)				ATCCTGCTCGGATGACATGAC	0.517											OREG0019658	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	33					0	0	0.001368	0	0		A	9677345	A	A	9677345	3	1	202	1	0	0	0	0	1	0	0	0	15664	1174	41	4	1336	4	TBL1X	23	9677345	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6441879	9677345	145593215	823	99711											
CLCN4	1183	broad.mit.edu	37	chrX	10180666	10180666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtcacgccagggctgtacGcaatggtgggagctgcggcc	6	7	17	11	3	1	0	1	0	0	0	1	1	1	1	2	4	3	4	2	4	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:10180666G>A	uc004csy.3	+	10	1979	c.1549G>A	c.(1549-1551)GCA>ACA	p.A517T	CLCN4_uc011mid.1_Missense_Mutation_p.A423T	NM_001830	NP_001821	P51793	CLCN4_HUMAN	chloride channel 4	517						early endosome membrane|integral to membrane|late endosome membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						AGGGCTGTACGCAATGGTGGG	0.612													13	38					0	0	0.00245	0	0		A	10180666	A	A	10180666	3	1	202	1	0	0	0	0	1	0	0	0	3468	1087	38	1	1579	1	CLCN4	23	10180666	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	503321	10180666	145089894	824	99712											
MID1	4281	broad.mit.edu	37	chrX	10427780	10427780	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtgccgctctgcagaccGtgcaccgtgtagtggttctg	4	12	14	11	3	2	1	0	0	2	1	2	1	2	1	3	2	3	5	3	2	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:10427780G>A	uc004cte.3	-	8	1544	c.1353C>T	c.(1351-1353)CAC>CAT	p.H451H	MID1_uc004ctd.3_Silent_p.H162H|MID1_uc004ctg.3_Silent_p.H451H|MID1_uc004cth.3_Silent_p.H413H|MID1_uc004ctk.3_Silent_p.H451H|MID1_uc004cti.3_Silent_p.H451H|MID1_uc004ctj.3_Silent_p.H451H|MID1_uc011mie.1_RNA|MID1_uc004csz.3_Silent_p.H123H|MID1_uc004cta.3_Silent_p.H207H|MID1_uc004ctb.3_Silent_p.H111H|MID1_uc004ctc.3_Silent_p.H218H	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	451	Fibronectin type-III.				microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						TCTGCAGACCGTGCACCGTGT	0.517													53	187					0	0	0.00361	0	0		A	10427780	A	A	10427780	2	1	202	1	0	0	0	0	0	0	0	1	9594	1136	40	1		1	MID1	23	10427780	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	247114	10427780	144842780	825	99713											
FRMPD4	9758	broad.mit.edu	37	chrX	12734822	12734822	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaaaacactgatgacgcGgaggacgaggacgaggtgag	14	3	17	7	4	0	4	0	3	0	1	0	9	0	7	0	4	1	1	0	4	2	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:12734822G>A	uc004cuz.1	+	15	2750	c.2244G>A	c.(2242-2244)GCG>GCA	p.A748A	FRMPD4_uc011mij.1_Silent_p.A740A	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	748					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						CTGATGACGCGGAGGACGAGG	0.562													36	102					0	0	0.005524	0	0		A	12734822	A	A	12734822	2	1	202	1	0	0	0	0	0	0	0	1	6073	1103	39	1		1	FRMPD4	23	12734822	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	2307042	12734822	142535738	826	99714											
OFD1	8481	broad.mit.edu	37	chrX	13778670	13778670	+	Silent	SNP	T	C	C	0	1	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	atttttggagaggacagagtTgtctctgagcagcctcaagt	10	12	12	7	0	2	3	1	1	1	2	3	5	2	4	1	2	2	2	1	2	1	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:13778670T>C	uc004cvp.3	+	16	2450	c.2091T>C	c.(2089-2091)GTT>GTC	p.V697V	OFD1_uc004cvr.3_Silent_p.V264V|OFD1_uc011mil.1_Silent_p.V264V|OFD1_uc004cvq.3_Silent_p.V557V|OFD1_uc010nen.2_Silent_p.V696V|OFD1_uc004cvs.3_RNA|OFD1_uc004cvu.3_Silent_p.V656V|OFD1_uc004cvv.3_Silent_p.V656V	NM_003611	NP_003602	O75665	OFD1_HUMAN	oral-facial-digital syndrome 1	697	Mediates the interaction with SDCCAG8.				cilium movement involved in determination of left/right asymmetry|G2/M transition of mitotic cell cycle	centriole|cilium|cytosol|microtubule basal body|nuclear membrane	alpha-tubulin binding|gamma-tubulin binding				0						AGGACAGAGTTGTCTCTGAGC	0.532													24	101					0	0	0.008361	0	0		C	13778670	C	C	13778670	2	2	202	1	0	0	0	0	0	0	0	1	10857	1799	63	3		3	OFD1	23	13778670	Silent	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1043848	13778670	141491890	827	99715											
ASB9	140462	broad.mit.edu	37	chrX	15287958	15287958	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaaagtcccttggccccgcGggcttgctcccatccatgcc	5	8	11	17	2	0	0	0	0	0	0	3	1	3	1	6	3	2	2	6	3	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:15287958G>A	uc004cwl.2	-	1	286	c.39C>T	c.(37-39)CCC>CCT	p.P13P	ASB9_uc004cwk.2_Silent_p.P13P|ASB9_uc004cwm.2_Silent_p.P13P|ASB9_uc010ner.2_Silent_p.P13P|ASB9_uc004cwn.2_Silent_p.P13P	NM_001031739	NP_001026909	Q96DX5	ASB9_HUMAN	ankyrin repeat and SOCS box-containing 9 isoform	13					intracellular signal transduction						0	Hepatocellular(33;0.183)					TTGGCCCCGCGGGCTTGCTCC	0.567													18	67					0	0	0.00278	0	0		A	15287958	A	A	15287958	2	1	202	1	0	0	0	0	0	0	0	1	1031	1103	39	1		1	ASB9	23	15287958	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1509288	15287958	139982602	828	99716											
POLA1	5422	broad.mit.edu	37	chrX	24734570	24734570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttctctgtgcacaccgccaCggtaaagtgtgtagagatac	10	11	10	10	2	1	1	0	0	1	1	2	2	1	1	2	1	2	3	2	1	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:24734570C>T	uc004dbl.2	+	7	622	c.599C>T	c.(598-600)ACG>ATG	p.T200M	POLA1_uc004dbm.2_Missense_Mutation_p.T206M|POLA1_uc004dbn.2_Missense_Mutation_p.T64M	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	200					cell proliferation|DNA replication checkpoint|DNA replication, synthesis of RNA primer|DNA-dependent DNA replication initiation|double-strand break repair via nonhomologous end joining|interspecies interaction between organisms|lagging strand elongation|leading strand elongation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|cytoplasm|nuclear envelope|nuclear matrix|nucleolus|nucleoplasm	chromatin binding|DNA-directed DNA polymerase activity|metal ion binding|nucleoside binding			ovary(2)|skin(1)	3					Clofarabine(DB00631)|Fludarabine(DB01073)	CACACCGCCACGGTAAAGTGT	0.368													10	21					0	0	0.006214	0	0		T	24734570	T	T	24734570	3	4	202	1	0	0	0	0	1	0	0	0	12206	550	19	1	625	1	POLA1	23	24734570	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	9446612	24734570	130535990	829	99717											
LANCL3	347404	broad.mit.edu	37	chrX	37515027	37515027	+	Frame_Shift_Del	DEL	C	-	-																															ataaagaagaggaaaccattCcccctgatgtattcttacta																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:37515027delC	uc011mkd.1	+	2	962	c.660delC	c.(658-660)TTCfs	p.F220fs	LANCL3_uc004ddp.1_Frame_Shift_Del_p.F220fs	NM_198511	NP_940913	Q6ZV70	LANC3_HUMAN	LanC lantibiotic synthetase component C-like 3	220							catalytic activity				0						GGAAACCATTCCCCCTGATGT	0.428													19	36	---	---	---	---						.	-	37515027	-	-	37515027	7	5	202	1	0	1	0	1	0	0	0	0	8638	854	30	0	666	0	LANCL3	23	37515027	Frame_Shift_Del	DEL	C	TCGA-HJ-7597-01A-21D-2201-08	12780457	37515027	117755533	830	99718											
DDX3X	1654	broad.mit.edu	37	chrX	41205860	41205860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcgtattggtcgtacgggaCgtgtaggaaaccttggtaag	10	11	14	6	4	0	0	0	0	0	0	2	2	0	2	1	4	2	4	1	4	5	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:41205860C>T	uc004dfe.2	+	14	2455	c.1600C>T	c.(1600-1602)CGT>TGT	p.R534C	DDX3X_uc004dff.2_Missense_Mutation_p.R534C|DDX3X_uc011mkq.1_Missense_Mutation_p.R518C|DDX3X_uc011mkr.1_Intron|DDX3X_uc011mks.1_Intron|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	534	Helicase C-terminal.				interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						TCGTACGGGACGTGTAGGAAA	0.363										HNSCC(61;0.18)			16	55					0	0	0.001882	0	0		T	41205860	T	T	41205860	3	4	202	1	0	0	0	0	1	0	0	0	4361	536	19	1	1654	1	DDX3X	23	41205860	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3690833	41205860	114064700	831	99719											
CDK16	5127	broad.mit.edu	37	chrX	47085981	47085981	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctttctctgatttccaGgcctggcccgagccaagtca	6	12	9	14	1	2	1	1	1	1	0	5	2	4	1	5	2	1	0	5	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:47085981G>T	uc004dho.2	+	10	1313	c.917_splice	c.e10-1	p.G306_splice	CDK16_uc011mli.1_Splice_Site_p.G312_splice|CDK16_uc011mlj.1_3'UTR|CDK16_uc011mlk.1_Splice_Site_p.G306_splice|CDK16_uc011mll.1_Splice_Site_p.G380_splice	NM_006201	NP_006192	Q00536	CDK16_HUMAN	PCTAIRE protein kinase 1 isoform 1								ATP binding|cyclin-dependent protein kinase activity|protein binding			lung(1)	1						CTGATTTCCAGGCCTGGCCCG	0.547													5	134					0.00198382	0.0020294	0.001984	1	0		T	47085981	T	T	47085981	5	4	202	1	0	0	0	0	0	0	1	0	3135	1014	35	5	1192	5	CDK16	23	47085981	Splice_Site	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	5880121	47085981	108184579	832	99720											
USP11	8237	broad.mit.edu	37	chrX	47100030	47100030	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagatggcacttggcccagCgcacagctgcatgtcatgtg	10	8	12	11	1	1	1	1	0	0	1	1	1	1	1	1	2	3	4	1	2	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:47100030C>T	uc004dhp.2	+	6	855	c.855C>T	c.(853-855)AGC>AGT	p.S285S	USP11_uc004dhq.2_Silent_p.S12S	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	285					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CTTGGCCCAGCGCACAGCTGC	0.527													18	47					0	0	0.002299	0	0		T	47100030	T	T	47100030	2	4	202	1	0	0	0	0	0	0	0	1	17068	767	27	1		1	USP11	23	47100030	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	14049	47100030	108170530	833	99721											
USP11	8237	broad.mit.edu	37	chrX	47101688	47101688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctttatccccatggatccgCgccgcaagccagagcaggtg	8	8	11	14	3	1	1	0	0	1	1	3	2	3	2	5	2	2	2	5	2	2	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:47101688C>T	uc004dhp.2	+	10	1516	c.1516C>T	c.(1516-1518)CGC>TGC	p.R506C	USP11_uc004dhq.2_Missense_Mutation_p.R233C	NM_004651	NP_004642	P51784	UBP11_HUMAN	ubiquitin specific peptidase 11	506					protein deubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CATGGATCCGCGCCGCAAGCC	0.537													6	32					0	0	0.001168	0	0		T	47101688	T	T	47101688	3	4	202	1	0	0	0	0	1	0	0	0	17068	768	27	1	1554	1	USP11	23	47101688	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1658	47101688	108168872	834	99722											
WDR13	64743	broad.mit.edu	37	chrX	48457775	48457775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgggccctgggggcccGtgggcaccgtcgttctgtca	2	9	15	15	4	2	0	1	0	1	0	5	0	3	0	4	4	0	2	4	4	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:48457775G>A	uc004dkh.1	+	4	464	c.317G>A	c.(316-318)CGT>CAT	p.R106H	WDR13_uc010nif.1_Translation_Start_Site|WDR13_uc004dki.1_Missense_Mutation_p.R14H|WDR13_uc004dkj.1_Missense_Mutation_p.R106H|WDR13_uc004dkk.1_Missense_Mutation_p.R14H|WDR13_uc004dkl.3_Missense_Mutation_p.R14H|WDR13_uc011mme.1_Translation_Start_Site	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein	106						cytoplasm|nucleus				ovary(2)	2						CTGGGGGCCCGTGGGCACCGT	0.607													4	11					0	0	0.000602	0	0		A	48457775	A	A	48457775	3	1	202	1	0	0	0	0	1	0	0	0	17301	1145	40	1	327	1	WDR13	23	48457775	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1356087	48457775	106812785	835	99723											
HDAC6	10013	broad.mit.edu	37	chrX	48674585	48674585	+	Missense_Mutation	SNP	A	G	G	1	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	cccagcgcatcttgcggatcAtgtgccgtctggaggagctg	6	9	14	12	3	3	0	1	0	2	0	3	3	3	3	2	3	4	2	2	3	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:48674585A>G	uc011mmi.1	+	18	1626	c.1531A>G	c.(1531-1533)ATG>GTG	p.M511V	HDAC6_uc004dks.1_Missense_Mutation_p.M511V|HDAC6_uc010nig.1_Missense_Mutation_p.M359V|HDAC6_uc004dkt.1_Missense_Mutation_p.M511V|HDAC6_uc011mmk.1_Missense_Mutation_p.M492V|HDAC6_uc004dkv.1_Missense_Mutation_p.M159V|HDAC6_uc004dkw.1_Missense_Mutation_p.M159V	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	511	Histone deacetylase 2.				aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	CTTGCGGATCATGTGCCGTCT	0.652													29	79					0	0	0.002096	0	0		G	48674585	G	G	48674585	3	3	202	1	0	0	0	0	1	0	0	0	7027	217	8	3	1597	3	HDAC6	23	48674585	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	216810	48674585	106595975	836	99724											
KCND1	3750	broad.mit.edu	37	chrX	48826158	48826158	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggattctcgaaggccCgccagagccgctgccgcagg	6	7	15	13	4	1	1	0	0	1	1	2	3	1	2	4	3	2	2	4	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:48826158C>T	uc004dlx.1	-	1	2094	c.521G>A	c.(520-522)CGG>CAG	p.R174Q	KCND1_uc004dlw.1_5'Flank	NM_004979	NP_004970	Q9NSA2	KCND1_HUMAN	potassium voltage-gated channel, Shal-related	174	Cytoplasmic (Potential).					voltage-gated potassium channel complex	metal ion binding|voltage-gated potassium channel activity			ovary(2)|lung(1)	3						CTCGAAGGCCCGCCAGAGCCG	0.652													4	12					0	0	0.000602	0	0		T	48826158	T	T	48826158	3	4	202	1	0	0	0	0	1	0	0	0	8034	652	23	1	1446	1	KCND1	23	48826158	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	151573	48826158	106444402	837	99725											
DGKK	139189	broad.mit.edu	37	chrX	50129458	50129458	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatgtggtctatttgaggaaTgaagggcttcctatctgcct	8	15	11	7	0	2	2	0	2	2	0	3	3	3	3	2	3	1	1	2	3	5	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:50129458T>C	uc010njr.1	-	15	2305	c.2245A>G	c.(2245-2247)ATT>GTT	p.I749V		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	749					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					ATTTGAGGAATGAAGGGCTTC	0.468													4	27					0	0	0.009096	0	0		C	50129458	C	C	50129458	3	2	202	1	0	0	0	0	1	0	0	0	4478	1464	51	3	1625	3	DGKK	23	50129458	Missense_Mutation	SNP	T	TCGA-HJ-7597-01A-21D-2201-08	1303300	50129458	105141102	838	99726											
TSPYL2	64061	broad.mit.edu	37	chrX	53111923	53111923	+	Frame_Shift_Del	DEL	G	-	-																															ccctatgtcattctcgaggaGggggggatccgcgcatactt																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:53111923delG	uc004drw.2	+	1	375	c.243delG	c.(241-243)GAGfs	p.E81fs	TSPYL2_uc004drv.2_Frame_Shift_Del_p.E81fs|TSPYL2_uc004drx.1_5'Flank	NM_022117	NP_071400	Q9H2G4	TSYL2_HUMAN	TSPY-like 2	81					cell cycle|chromatin modification|negative regulation of cell cycle|negative regulation of cell growth|negative regulation of DNA replication|nucleosome assembly|regulation of protein kinase activity|regulation of signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|rDNA binding				0						TTCTCGAGGAGGGGGGGATCC	0.692													6	11	---	---	---	---						.	-	53111923	-	-	53111923	7	5	202	1	0	1	0	1	0	0	0	0	16686	991	35	0	245	0	TSPYL2	23	53111923	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	2982465	53111923	102158637	839	99727											
HUWE1	10075	broad.mit.edu	37	chrX	53562434	53562434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccccattgggtttgaggtcaCgaacttcacaaactccaaac	12	9	7	13	1	2	1	2	1	0	0	3	2	3	1	3	2	3	1	3	2	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:53562434C>T	uc004dsp.2	-	81	12962	c.12560G>A	c.(12559-12561)CGT>CAT	p.R4187H	HUWE1_uc004dsn.2_Missense_Mutation_p.R2995H	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	4187	HECT.		R -> C (in MRXS-Turner).		base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						TTTGAGGTCACGAACTTCACA	0.433													10	33					0	0	0.008291	0	0		T	53562434	T	T	53562434	3	4	202	1	0	0	0	0	1	0	0	0	7477	536	19	1	580	1	HUWE1	23	53562434	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	450511	53562434	101708126	840	99728											
PHF8	23133	broad.mit.edu	37	chrX	54028591	54028591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcaaagggctccataccgcGaaagatgtccaggatgtgct	11	7	13	10	2	0	1	0	0	0	1	2	3	2	2	3	3	2	3	3	3	3	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:54028591G>A	uc004dsu.2	-	10	1319	c.1246C>T	c.(1246-1248)CGC>TGC	p.R416C	PHF8_uc004dst.2_Missense_Mutation_p.R380C|PHF8_uc004dsv.2_Missense_Mutation_p.R246C|PHF8_uc004dsw.2_Missense_Mutation_p.R380C|PHF8_uc004dsx.2_Missense_Mutation_p.R144C|PHF8_uc004dsy.2_Missense_Mutation_p.R380C	NM_015107	NP_055922	Q9UPP1	PHF8_HUMAN	PHD finger protein 8	416					brain development|G1/S transition of mitotic cell cycle|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase I promoter|transcription, DNA-dependent	nucleolus	chromatin binding|histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(3)	3						TCCATACCGCGAAAGATGTCC	0.478													11	33					0	0	0.001368	0	0		A	54028591	A	A	54028591	3	1	202	1	0	0	0	0	1	0	0	0	11859	1058	37	1	2158	1	PHF8	23	54028591	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	466157	54028591	101241969	841	99729											
STARD8	9754	broad.mit.edu	37	chrX	67940852	67940852	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgcctgacaatgtctgctaCgagggccagtcagcctacga	9	8	11	13	3	2	1	1	1	1	0	3	3	2	1	3	1	4	1	3	1	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:67940852C>T	uc004dxa.2	+	8	2268	c.1896C>T	c.(1894-1896)TAC>TAT	p.Y632Y	STARD8_uc004dxb.2_Silent_p.Y712Y|STARD8_uc004dxc.3_Silent_p.Y632Y	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	632	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						ATGTCTGCTACGAGGGCCAGT	0.562													11	39					0	0	0.000978	0	0		T	67940852	T	T	67940852	2	4	202	1	0	0	0	0	0	0	0	1	15288	547	19	1		1	STARD8	23	67940852	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	13912261	67940852	87329708	842	99730											
PJA1	64219	broad.mit.edu	37	chrX	68382735	68382735	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccccataagagtcaatatgtCcataggccattcctcttctg	10	12	6	13	0	3	1	1	0	2	1	5	1	5	1	5	1	0	0	5	1	4	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:68382735C>A	uc004dxh.2	-	2	633	c.347G>T	c.(346-348)GGA>GTA	p.G116V	PJA1_uc011mpi.1_5'UTR|PJA1_uc004dxg.2_Intron|PJA1_uc004dxi.2_Missense_Mutation_p.G61V	NM_145119	NP_660095	Q8NG27	PJA1_HUMAN	praja 1 isoform a	116							zinc ion binding				0						GTCAATATGTCCATAGGCCAT	0.498													22	45					7.87624e-14	8.5038e-14	0.00278	1	0		A	68382735	A	A	68382735	3	1	202	1	0	0	0	0	1	0	0	0	11980	855	30	5	1588	5	PJA1	23	68382735	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	441883	68382735	86887825	843	99731											
FOXO4	4303	broad.mit.edu	37	chrX	70321310	70321310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctccagtaagctggccacGggcgtcggcctgtgtcccaa	6	8	12	15	3	0	0	0	0	0	0	4	0	3	0	5	3	1	2	5	3	2	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:70321310G>A	uc004dys.1	+	2	1583	c.1230G>A	c.(1228-1230)ACG>ACA	p.T410T	FOXO4_uc010nkz.2_Intron|FOXO4_uc004dyt.1_Silent_p.T355T	NM_005938	NP_005929	P98177	FOXO4_HUMAN	forkhead box O4	410					cell cycle arrest|cell differentiation|embryo development|G1 phase of mitotic cell cycle|insulin receptor signaling pathway|mitotic cell cycle G2/M transition DNA damage checkpoint|muscle organ development|negative regulation of angiogenesis|negative regulation of cell proliferation|negative regulation of smooth muscle cell differentiation|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			central_nervous_system(2)|prostate(1)	3	Renal(35;0.156)					AGCTGGCCACGGGCGTCGGCC	0.622													6	21					0	0	0.001168	0	0		A	70321310	A	A	70321310	2	1	202	1	0	0	0	0	0	0	0	1	6039	1103	39	1		1	FOXO4	23	70321310	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	1938575	70321310	84949250	844	99732											
UPRT	139596	broad.mit.edu	37	chrX	74520740	74520740	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaagctgtaaaggttcttAtagaacatggagttcaaccc	13	12	9	7	0	2	2	1	1	1	1	2	3	2	3	1	2	3	4	1	2	7	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:74520740A>G	uc004ecb.1	+	6	892	c.763A>G	c.(763-765)ATA>GTA	p.I255V	UPRT_uc004ecc.1_RNA|UPRT_uc004ecd.1_Missense_Mutation_p.I255V|UPRT_uc004ece.1_Missense_Mutation_p.I119V	NM_145052	NP_659489	Q96BW1	UPP_HUMAN	uracil phosphoribosyltransferase (FUR1) homolog	255					nucleoside metabolic process	cytoplasm|nucleus					0						AAAGGTTCTTATAGAACATGG	0.373													17	43					0	0	0.008871	0	0		G	74520740	G	G	74520740	3	3	202	1	0	0	0	0	1	0	0	0	17040	449	16	3	785	3	UPRT	23	74520740	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	4199430	74520740	80749820	845	99733											
XKRX	402415	broad.mit.edu	37	chrX	100183206	100183206	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctaaatggaaaagtaaatcGggggttggctccacggatga	13	8	14	6	2	0	1	0	1	0	0	2	3	1	3	1	5	0	4	1	5	6	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:100183206G>A	uc004egn.2	-	1	693	c.88C>T	c.(88-90)CGA>TGA	p.R30*	XKRX_uc011mre.1_5'UTR	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	30						integral to membrane|plasma membrane				breast(1)	1						AAAGTAAATCGGGGGTTGGCT	0.443													26	93					0	0	0.005443	0	0		A	100183206	A	A	100183206	4	1	202	1	0	0	0	0	0	1	0	0	17465	1124	39	1	1273	1	XKRX	23	100183206	Nonsense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	25662466	100183206	55087354	846	99734											
ARMCX5	64860	broad.mit.edu	37	chrX	101858244	101858244	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	accaaaatcaggggagtcatAtatacatcaagtttgtaaag	17	10	8	6	0	3	0	3	0	0	0	3	1	3	1	1	2	1	2	1	2	8	5			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:101858244A>T	uc004ejg.2	+	6	2056	c.1175A>T	c.(1174-1176)TAT>TTT	p.Y392F	ARMCX5_uc004ejh.2_Missense_Mutation_p.Y392F	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	392							binding			ovary(1)	1						GGGGAGTCATATATACATCAA	0.418													13	32					0	0	0.001855	0	0		T	101858244	T	T	101858244	3	4	202	1	0	0	0	0	1	0	0	0	963	449	16	5	1177	5	ARMCX5	23	101858244	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	1675038	101858244	53412316	847	99735											
BEX1	55859	broad.mit.edu	37	chrX	102317840	102317840	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggattcagggcataaggcaAaactcatcatgatggtcatg	14	9	11	7	0	4	1	4	1	0	0	4	2	4	2	0	4	1	2	0	4	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:102317840A>G	uc004ejt.1	-	3	603	c.363T>C	c.(361-363)TTT>TTC	p.F121F		NM_018476	NP_060946	Q9HBH7	BEX1_HUMAN	brain expressed, X-linked 1	121					cell differentiation|nervous system development	cytoplasm|nucleus				ovary(1)	1						GCATAAGGCAAAACTCATCAT	0.473													21	97					0	0	0.00333	0	0		G	102317840	G	G	102317840	2	3	202	1	0	0	0	0	0	0	0	1	1411	11	1	3		3	BEX1	23	102317840	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	459596	102317840	52952720	848	99736											
NXF3	56000	broad.mit.edu	37	chrX	102334165	102334165	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaccttccttgaacaccccGttgacagaaaagcagagcat	13	8	7	13	1	1	4	1	2	0	2	2	4	2	4	4	0	3	3	4	0	3	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:102334165G>A	uc004eju.2	-	16	1433	c.1362C>T	c.(1360-1362)AAC>AAT	p.N454N	NXF3_uc010noi.1_Silent_p.N304N	NM_022052	NP_071335	Q9H4D5	NXF3_HUMAN	nuclear RNA export factor 3	454	NTF2.					cytoplasm|nuclear RNA export factor complex	nucleocytoplasmic transporter activity|nucleotide binding|protein binding			ovary(1)|lung(1)|central_nervous_system(1)	3						TGAACACCCCGTTGACAGAAA	0.582													95	169					0	0	0.00361	0	0		A	102334165	A	A	102334165	2	1	202	1	0	0	0	0	0	0	0	1	10804	1136	40	1		1	NXF3	23	102334165	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	16325	102334165	52936395	849	99737											
TBC1D8B	54885	broad.mit.edu	37	chrX	106109220	106109220	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcagattgttagatgaaaaCtctgattgccttataaactt	13	16	6	6	0	2	4	1	2	1	2	2	4	2	4	1	0	3	1	1	0	6	7			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:106109220C>T	uc004emo.2	+	16	2784	c.2619C>T	c.(2617-2619)AAC>AAT	p.N873N	MORC4_uc004emp.3_Intron	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	TBC1 domain family, member 8B (with GRAM domain)	873	EF-hand.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TAGATGAAAACTCTGATTGCC	0.373													6	29					0	0	0.001168	0	0		T	106109220	T	T	106109220	2	4	202	1	0	0	0	0	0	0	0	1	15651	564	20	4		4	TBC1D8B	23	106109220	Silent	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	3775055	106109220	49161340	850	99738											
ALG13	79868	broad.mit.edu	37	chrX	110951472	110951472	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctccctcttacccccaccCtgtacaaaatgcataaagga	12	9	4	16	0	2	0	0	0	2	0	3	1	2	1	4	1	3	2	4	1	6	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:110951472C>A	uc011msy.1	+	4	635	c.601C>A	c.(601-603)CTG>ATG	p.L201M	ALG13_uc011msw.1_Missense_Mutation_p.L123M|ALG13_uc011msx.1_Missense_Mutation_p.L97M|ALG13_uc011msz.1_Missense_Mutation_p.L123M|ALG13_uc011mta.1_Missense_Mutation_p.L97M|ALG13_uc011mtb.1_Missense_Mutation_p.L97M			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	201					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						TACCCCCACCCTGTACAAAAT	0.458													10	21					3.86212e-05	4.00786e-05	0.008291	1	0		A	110951472	A	A	110951472	3	1	202	1	0	0	0	0	1	0	0	0	515	680	24	5	757	5	ALG13	23	110951472	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4842252	110951472	44319088	851	99739											
LONRF3	79836	broad.mit.edu	37	chrX	118109314	118109314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgggcgggccgccgaccggCgctgtgcgctgtgcggggtc	1	6	21	13	7	0	0	0	0	0	0	1	1	0	0	3	5	2	2	3	5	0	0			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:118109314C>T	uc004eqw.2	+	1	602	c.571C>T	c.(571-573)CGC>TGC	p.R191C	LONRF3_uc004eqx.2_Missense_Mutation_p.R191C|LONRF3_uc004eqy.2_RNA|LONRF3_uc004eqz.2_5'Flank	NM_001031855	NP_001027026	Q496Y0	LONF3_HUMAN	LON peptidase N-terminal domain and ring finger	191	RING-type 1.				proteolysis		ATP-dependent peptidase activity|protein binding|zinc ion binding			breast(1)|central_nervous_system(1)	2						CGCCGACCGGCGCTGTGCGCT	0.692													12	38					0	0	0.001855	0	0		T	118109314	T	T	118109314	3	4	202	1	0	0	0	0	1	0	0	0	8914	768	27	1	573	1	LONRF3	23	118109314	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	7157842	118109314	37161246	852	99740											
CT47B1	643311	broad.mit.edu	37	chrX	120007854	120007854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggcctcttcatcccacttttCgggctgagatttagtgactt	6	15	9	11	1	2	2	1	2	1	1	4	3	3	2	2	2	0	1	2	2	1	6			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:120007854C>T	uc011muc.1	-	2	1051	c.796G>A	c.(796-798)GAA>AAA	p.E266K		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	cancer/testis antigen family 147, member B1	266											0						TCCCACTTTTCGGGCTGAGAT	0.438													70	117					0	0	0.00361	0	0		T	120007854	T	T	120007854	3	4	202	1	0	0	0	0	1	0	0	0	3992	893	31	1	107	1	CT47B1	23	120007854	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1898540	120007854	35262706	853	99741											
BCORL1	63035	broad.mit.edu	37	chrX	129149422	129149422	+	Frame_Shift_Del	DEL	G	-	-																															ctgaggggcaaccacggcctGggggctccttcgttccagag																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:129149422delG	uc004evb.1	+	4	2788	c.2674delG	c.(2674-2676)GGGfs	p.G892fs	BCORL1_uc010nrd.1_Frame_Shift_Del_p.G794fs	NM_021946	NP_068765	Q5H9F3	BCORL_HUMAN	BCL6 co-repressor-like 1	892					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(4)|breast(2)|lung(1)	7						ACCACGGCCTGGGGGCTCCTT	0.562													16	35	---	---	---	---						.	-	129149422	-	-	129149422	7	5	202	1	0	1	0	1	0	0	0	0	1388	1348	47	0	2684	0	BCORL1	23	129149422	Frame_Shift_Del	DEL	G	TCGA-HJ-7597-01A-21D-2201-08	9141568	129149422	26121138	854	99742											
MAGEC1	9947	broad.mit.edu	37	chrX	140994583	140994583	+	Nonsense_Mutation	SNP	A	T	T																															ttttccagagttcccctgagAgaactcacagtacttttgag																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:140994583A>T	uc004fbt.2	+	4	1679	c.1393A>T	c.(1393-1395)AGA>TGA	p.R465*	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	465							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCCCTGAGAGAACTCACAG	0.478										HNSCC(15;0.026)			4	80					0	0	0.009096	0	0		T	140994583	T	T	140994583	4	4	202	1	0	0	0	0	0	1	0	0	9198	296	11	5	1399	5	MAGEC1	23	140994583	Nonsense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	11845161	140994583	14275977	855	99743	188	2									
MAGEC1	9947	broad.mit.edu	37	chrX	140994585	140994585	+	Missense_Mutation	SNP	A	T	T																															ttccagagttcccctgagagAactcacagtacttttgaggg																										TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:140994585A>T	uc004fbt.2	+	4	1681	c.1395A>T	c.(1393-1395)AGA>AGT	p.R465S	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	465							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					CCCCTGAGAGAACTCACAGTA	0.483										HNSCC(15;0.026)			4	85					0	0	0.009096	0	0		T	140994585	T	T	140994585	3	4	202	1	0	0	0	0	1	0	0	0	9198	243	9	5	1401	5	MAGEC1	23	140994585	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	2	140994585	14275975	856	99744	188	2									
FMR1	2332	broad.mit.edu	37	chrX	147030286	147030286	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaggtagtcggctgcgcacGggtaaagatcgtaaccagaa	13	6	14	8	4	0	2	0	0	0	2	2	3	0	2	1	3	2	5	1	3	6	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:147030286G>A	uc010nst.2	+	17	2010	c.1821G>A	c.(1819-1821)ACG>ACA	p.T607T	FMR1_uc004fcj.2_Silent_p.T567T|FMR1_uc004fck.3_Silent_p.T561T|FMR1_uc004fcl.3_Silent_p.T447T|FMR1_uc011mxa.1_Silent_p.T237T	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	607	Interaction with RANBP9.				mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGCTGCGCACGGGTAAAGATC	0.428									Fragile_X_syndrome				24	62					0	0	0.00333	0	0		A	147030286	A	A	147030286	2	1	202	1	0	0	0	0	0	0	0	1	5974	1116	39	1		1	FMR1	23	147030286	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	6035701	147030286	8240274	857	99745											
MAGEA4	4103	broad.mit.edu	37	chrX	151092867	151092867	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgtctatggggagcccaGgaaactgctcacccaagatt	11	8	10	12	0	2	1	1	0	1	1	2	3	2	3	2	3	3	1	2	3	3	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:151092867G>T	uc004fez.2	+	3	887	c.731G>T	c.(730-732)AGG>ATG	p.R244M	MAGEA4_uc004ffa.2_Missense_Mutation_p.R244M|MAGEA4_uc004ffb.2_Missense_Mutation_p.R244M|MAGEA4_uc004ffc.2_Missense_Mutation_p.R244M|MAGEA4_uc004ffd.2_Missense_Mutation_p.R244M	NM_002362	NP_002353	P43358	MAGA4_HUMAN	melanoma antigen family A, 4	244	MAGE.						protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GGGGAGCCCAGGAAACTGCTC	0.592													11	120					7.03913e-09	7.45366e-09	0.001368	1	0		T	151092867	T	T	151092867	3	4	202	1	0	0	0	0	1	0	0	0	9186	1000	35	5	733	5	MAGEA4	23	151092867	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	4062581	151092867	4177693	858	99746											
MAGEA3	4102	broad.mit.edu	37	chrX	151935285	151935285	+	Silent	SNP	A	G	G	1	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	taggaaatgtgaggtcctccActgatctttaccatatggtg	10	13	10	8	0	1	2	0	2	1	0	3	3	3	3	3	3	1	0	3	3	4	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:151935285A>G	uc004fgp.2	-	3	1091	c.882T>C	c.(880-882)AGT>AGC	p.S294S		NM_005362	NP_005353	P43357	MAGA3_HUMAN	melanoma antigen family A, 3	294	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GAGGTCCTCCACTGATCTTTA	0.552													65	123					0	0	0.00361	0	0		G	151935285	G	G	151935285	2	3	202	1	0	0	0	0	0	0	0	1	9185	156	6	3		3	MAGEA3	23	151935285	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	842418	151935285	3335275	859	99747											
PLXNB3	5365	broad.mit.edu	37	chrX	153040418	153040418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actaccgcacctacgccgagCgcgccttcttccctggccat	6	8	8	19	5	1	0	0	0	1	0	2	1	2	0	6	1	3	1	6	1	2	4			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153040418C>T	uc004fii.2	+	24	4189	c.4015C>T	c.(4015-4017)CGC>TGC	p.R1339C	PLXNB3_uc010nuk.2_Missense_Mutation_p.R1362C|PLXNB3_uc011mzd.1_Missense_Mutation_p.R978C|PLXNB3_uc004fij.1_RNA|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1339	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	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)					CTACGCCGAGCGCGCCTTCTT	0.701													28	69					0	0	0.00632	0	0		T	153040418	T	T	153040418	3	4	202	1	0	0	0	0	1	0	0	0	12144	768	27	1	4223	1	PLXNB3	23	153040418	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	1105133	153040418	2230142	860	99748											
L1CAM	3897	broad.mit.edu	37	chrX	153128280	153128280	+	Silent	SNP	A	G	G	1	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	taatcggccaggctgtcgtcActgcccaggggcttgatgtc	6	10	13	12	2	1	1	1	1	0	0	4	1	1	1	2	4	1	2	2	4	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153128280A>G	uc004fjb.2	-	28	3720	c.3612T>C	c.(3610-3612)AGT>AGC	p.S1204S	L1CAM_uc004fjc.2_Silent_p.S1200S|L1CAM_uc010nuo.2_Silent_p.S1195S	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1204	Cytoplasmic (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	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)					GGCTGTCGTCACTGCCCAGGG	0.597													24	44					0	0	0.004656	0	0		G	153128280	G	G	153128280	2	3	202	1	0	0	0	0	0	0	0	1	8604	156	6	3		3	L1CAM	23	153128280	Silent	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	87862	153128280	2142280	861	99749											
L1CAM	3897	broad.mit.edu	37	chrX	153135593	153135593	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcgccatcatcctcctcGcccactttcagcagctgcag	7	10	6	18	2	2	0	2	0	0	0	6	0	4	0	4	0	4	3	4	0	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153135593G>A	uc004fjb.2	-	8	1017	c.909C>T	c.(907-909)GGC>GGT	p.G303G	L1CAM_uc004fjc.2_Silent_p.G303G|L1CAM_uc010nuo.2_Silent_p.G298G|L1CAM_uc004fjd.1_Silent_p.G117G|L1CAM_uc004fje.1_Silent_p.G298G	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	303	Extracellular (Potential).|Ig-like C2-type 3.				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	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)					CATCCTCCTCGCCCACTTTCA	0.632													113	239					0	0	0.00361	0	0		A	153135593	A	A	153135593	2	1	202	1	0	0	0	0	0	0	0	1	8604	1074	38	1		1	L1CAM	23	153135593	Silent	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	7313	153135593	2134967	862	99750											
AVPR2	554	broad.mit.edu	37	chrX	153171222	153171222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcctggccgacctggccGtggctctgttccaagtgctg	3	11	14	13	2	1	0	0	0	1	0	2	1	2	0	5	3	2	3	5	3	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153171222G>A	uc004fjh.3	+	2	333	c.262G>A	c.(262-264)GTG>ATG	p.V88M	AVPR2_uc004fjg.3_Intron|AVPR2_uc004fji.2_Missense_Mutation_p.V88M	NM_000054	NP_000045	P30518	V2R_HUMAN	arginine vasopressin receptor 2 isoform 1	88	Helical; Name=2; (Potential).		V -> M (in XNDI).		activation of adenylate cyclase activity|excretion|G-protein signaling, coupled to cAMP nucleotide second messenger|hemostasis|positive regulation of gene expression|transmembrane transport|water transport	endoplasmic reticulum|endosome|Golgi apparatus|integral to plasma membrane	vasopressin receptor activity			breast(1)	1	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)|Terlipressin(DB02638)|Vasopressin(DB00067)	CGACCTGGCCGTGGCTCTGTT	0.677													29	60					0	0	0.005524	0	0		A	153171222	A	A	153171222	3	1	202	1	0	0	0	0	1	0	0	0	1234	1145	40	1	268	1	AVPR2	23	153171222	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	35629	153171222	2099338	863	99751											
ARHGAP4	393	broad.mit.edu	37	chrX	153175255	153175255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgccgttgtgctcccccCgccaccagtcgctcgaggcc	4	7	11	19	4	0	0	0	0	0	0	3	1	1	0	7	1	2	4	7	1	0	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153175255C>T	uc004fjk.1	-	19	2396	c.2354G>A	c.(2353-2355)CGG>CAG	p.R785Q	ARHGAP4_uc004fjj.1_Missense_Mutation_p.R136Q|ARHGAP4_uc011mzf.1_Missense_Mutation_p.R762Q|ARHGAP4_uc004fjl.1_Missense_Mutation_p.R825Q|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	785	SH3.				apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	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)					GTGCTCCCCCCGCCACCAGTC	0.711													7	18					0	0	0.001984	0	0		T	153175255	T	T	153175255	3	4	202	1	0	0	0	0	1	0	0	0	885	652	23	1	502	1	ARHGAP4	23	153175255	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	4033	153175255	2095305	864	99752											
HCFC1	3054	broad.mit.edu	37	chrX	153227068	153227068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cactttgacgtcatccatgaCgagaggcacccagccaccaa	12	6	8	15	2	1	3	1	2	0	1	2	4	2	3	4	1	1	1	4	1	1	1			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153227068C>T	uc004fjp.2	-	6	1357	c.829G>A	c.(829-831)GTC>ATC	p.V277I		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	277	Kelch 5.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	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)					TCATCCATGACGAGAGGCACC	0.562													5	21					0	0	0.001168	0	0		T	153227068	T	T	153227068	3	4	202	1	0	0	0	0	1	0	0	0	7007	536	19	1	5362	1	HCFC1	23	153227068	Missense_Mutation	SNP	C	TCGA-HJ-7597-01A-21D-2201-08	51813	153227068	2043492	865	99753											
IRAK1	3654	broad.mit.edu	37	chrX	153282398	153282398	+	Splice_Site	SNP	A	G	G	1	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	gttctcaagggcccctcctcAcctcttgatgtctccatgga	6	12	8	15	0	4	1	2	1	3	0	7	2	5	2	5	2	0	1	5	2	1	2			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153282398A>G	uc004fjs.1	-	8	1107	c.1028_splice	c.e8+1	p.S343_splice	IRAK1_uc004fjr.1_Splice_Site_p.S343_splice|IRAK1_uc004fjt.1_Splice_Site_p.S343_splice|IRAK1_uc010nur.2_Intron|IRAK1_uc004fju.2_Splice_Site_p.S369_splice	NM_001569	NP_001560	P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1						activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			lung(5)|ovary(2)|breast(1)|central_nervous_system(1)	9	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCCCCTCCTCACCTCTTGATG	0.622													11	60					0	0	0.001855	0	0		G	153282398	G	G	153282398	5	3	202	1	0	0	0	0	0	0	1	0	7837	173	6	3	1136	3	IRAK1	23	153282398	Splice_Site	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	55330	153282398	1988162	866	99754											
RPL10	6134	broad.mit.edu	37	chrX	153628866	153628866	+	Missense_Mutation	SNP	A	G	G	1	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	gcactgtggccagggttcacAttggccaagttatcatgtcc	8	11	11	11	0	2	0	2	0	0	0	3	0	3	0	3	3	0	3	3	3	2	3			TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153628866A>G	uc004fkm.2	+	6	579	c.391A>G	c.(391-393)ATT>GTT	p.I131V	uc010nuv.1_5'Flank|RPL10_uc004fko.2_Intron|RPL10_uc004fkn.1_Missense_Mutation_p.I131V|RPL10_uc004fkp.1_3'UTR|RPL10_uc004fkq.1_Intron|RPL10_uc004fkr.1_Missense_Mutation_p.I56V	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	131					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CAGGGTTCACATTGGCCAAGT	0.552													4	86					0	0	0.001168	0	0		G	153628866	G	G	153628866	3	3	202	1	0	0	0	0	1	0	0	0	13579	217	8	3	409	3	RPL10	23	153628866	Missense_Mutation	SNP	A	TCGA-HJ-7597-01A-21D-2201-08	346468	153628866	1641694	867	99755											
PLXNA3	55558	broad.mit.edu	37	chrX	153691782	153691782	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtatgagacagtccccGtggtggatggcagccccatc	8	8	12	13	1	0	1	0	1	0	1	2	3	1	2	5	3	1	2	5	3	1	1	rs143738443		TCGA-HJ-7597-01A-21D-2201-08	TCGA-HJ-7597-10A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4ee062d-fdb6-4be6-8b39-9bf71779e3a0	bb03ccca-057f-49ae-8ca9-2aad7a5082b1	g.chrX:153691782G>A	uc004flm.2	+	5	1539	c.1366G>A	c.(1366-1368)GTG>ATG	p.V456M		NM_017514	NP_059984	P51805	PLXA3_HUMAN	plexin A3 precursor	456	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(53;5.05e-16)|all_epithelial(53;1.87e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					GACAGTCCCCGTGGTGGATGG	0.637													11	154					0	0	0.008291	0	0		A	153691782	A	A	153691782	3	1	202	1	0	0	0	0	1	0	0	0	12140	1145	40	1	1380	1	PLXNA3	23	153691782	Missense_Mutation	SNP	G	TCGA-HJ-7597-01A-21D-2201-08	62916	153691782	1578778	868	99756											
SRRM1	10250	broad.mit.edu	37	chr1	24996743	24996743	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcagtcaccgtctacaaaCtggtcaccagctgtaccggt	9	10	8	14	2	4	0	3	0	2	0	5	0	4	0	3	2	4	2	3	2	3	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:24996743C>A	uc001bjm.2	+	15	2561	c.2337C>A	c.(2335-2337)AAC>AAA	p.N779K	SRRM1_uc010oel.1_Missense_Mutation_p.N791K|SRRM1_uc009vri.1_Missense_Mutation_p.N708K	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	779	Pro-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		CGTCTACAAACTGGTCACCAG	0.547													41	47					1.61004e-24	1.79945e-24	0.01441	1	0		A	24996743	A	A	24996743	3	1	203	1	0	0	0	0	1	0	0	0	15193	564	20	5	2395	5	SRRM1	1	24996743	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		24996743	224253878	1	99757											
C1orf113	79729	broad.mit.edu	37	chr1	36785295	36785295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggaagagcacagcagccCggtaaaggccccctctgtga	11	4	14	12	1	1	2	0	1	1	1	1	4	1	4	3	4	3	3	3	4	3	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:36785295C>T	uc010oia.1	+	14	1059	c.1031C>T	c.(1030-1032)CCG>CTG	p.P344L	C1orf113_uc010oib.1_Missense_Mutation_p.P233L|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_5'UTR	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	228											0		Myeloproliferative disorder(586;0.0393)				CACAGCAGCCCGGTAAAGGCC	0.622													6	14					0	0	0.001984	0	0		T	36785295	T	T	36785295	3	4	203	1	0	0	0	0	1	0	0	0	1989	652	23	1	1085	1	C1orf113	1	36785295	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	11788552	36785295	212465326	2	99758											
GRIK3	2899	broad.mit.edu	37	chr1	37346293	37346293	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgaggtactggaccaggtcGaggatggcatggctgagcga	9	8	17	7	2	0	2	0	2	0	0	1	6	0	4	1	6	2	3	1	6	1	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:37346293G>A	uc001caz.2	-	3	627	c.492C>T	c.(490-492)CTC>CTT	p.L164L	GRIK3_uc001cba.1_Silent_p.L164L	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3	164	Extracellular (Potential).				negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	GGACCAGGTCGAGGATGGCAT	0.622													89	140					0	0	0.01441	0	0		A	37346293	A	A	37346293	2	1	203	1	0	0	0	0	0	0	0	1	6791	1045	37	1		1	GRIK3	1	37346293	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	560998	37346293	211904328	3	99759											
MFSD2A	84879	broad.mit.edu	37	chr1	40433537	40433537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taacctcatcattacatatgCggtagctgtggcagctggca	10	11	10	10	1	2	0	2	0	0	0	2	0	2	0	1	3	5	5	1	3	4	4	rs139973362		TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:40433537C>T	uc001cev.2	+	11	1377	c.1196C>T	c.(1195-1197)GCG>GTG	p.A399V	MFSD2A_uc010ojb.1_Missense_Mutation_p.A347V|MFSD2A_uc001ceu.2_Missense_Mutation_p.A386V|MFSD2A_uc010ojc.1_Missense_Mutation_p.A230V|MFSD2A_uc009vvy.2_Intron|MFSD2A_uc001cex.2_Missense_Mutation_p.A50V	NM_001136493	NP_001129965	Q8NA29	MFS2A_HUMAN	major facilitator superfamily domain containing	399	Helical; (Potential).				transmembrane transport	endoplasmic reticulum membrane|integral to membrane				ovary(1)|pancreas(1)	2						ATTACATATGCGGTAGCTGTG	0.557													15	46					0	0	0.003163	0	0		T	40433537	T	T	40433537	3	4	203	1	0	0	0	0	1	0	0	0	9548	768	27	1	1238	1	MFSD2A	1	40433537	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	3087244	40433537	208817084	4	99760											
TMEM61	199964	broad.mit.edu	37	chr1	55457702	55457702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagccttgctcttgatgccGtttctgcggagacgacaccg	6	11	11	13	4	3	2	1	1	2	1	3	4	3	2	3	1	4	2	3	1	0	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:55457702G>A	uc001cyd.2	+	3	833	c.559G>A	c.(559-561)GTT>ATT	p.V187I		NM_182532	NP_872338	Q8N0U2	TMM61_HUMAN	transmembrane protein 61	187						integral to membrane					0						TCTTGATGCCGTTTCTGCGGA	0.617													55	65					0	0	0.01441	0	0		A	55457702	A	A	55457702	3	1	203	1	0	0	0	0	1	0	0	0	16213	1145	40	1	569	1	TMEM61	1	55457702	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	15024165	55457702	193792919	5	99761											
TACSTD2	4070	broad.mit.edu	37	chr1	59042367	59042367	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggtggcgcaggtcaatgagGatgtggtgggtgcgcaccag	7	7	19	8	3	1	1	1	1	0	0	1	2	1	2	1	6	1	2	1	6	1	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:59042367G>A	uc001cyz.3	-	1	800	c.462C>T	c.(460-462)ATC>ATT	p.I154I		NM_002353	NP_002344	P09758	TACD2_HUMAN	tumor-associated calcium signal transducer 2	154	Extracellular (Potential).				cell proliferation|cell surface receptor linked signaling pathway|visual perception	cytosol|integral to plasma membrane	receptor activity				0	all_cancers(7;6.54e-05)					GGTCAATGAGGATGTGGTGGG	0.687													3	12					0	0	0.009096	0	0		A	59042367	A	A	59042367	2	1	203	1	0	0	0	0	0	0	0	1	15533	1164	41	4		4	TACSTD2	1	59042367	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	3584665	59042367	190208254	6	99762											
GSTM2	2946	broad.mit.edu	37	chr1	110211979	110211979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcctgcggtacattgcccGcaagcacaacctgtgtgagt	9	9	10	13	2	0	1	0	1	0	0	1	1	1	1	3	1	5	3	3	1	3	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:110211979G>A	uc001dyi.2	+	4	559	c.245G>A	c.(244-246)CGC>CAC	p.R82H	GSTM2_uc001dyj.2_Missense_Mutation_p.R82H|GSTM2_uc010ovt.1_Missense_Mutation_p.R82H|GSTM2_uc009wfk.2_RNA	NM_000848	NP_000839	P28161	GSTM2_HUMAN	glutathione S-transferase mu 2 isoform 1	82	GST N-terminal.				glutathione metabolic process|xenobiotic catabolic process	cytoplasm	glutathione transferase activity				0		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)	TACATTGCCCGCAAGCACAAC	0.572													64	111					0	0	0.01441	0	0		A	110211979	A	A	110211979	3	1	203	1	0	0	0	0	1	0	0	0	6854	1087	38	1	259	1	GSTM2	1	110211979	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	51169612	110211979	139038642	7	99763											
IL6R	3570	broad.mit.edu	37	chr1	154407589	154407589	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctacagactacggtttgagcTcagatatcgggctgaacggt	10	10	12	9	3	1	4	1	2	0	2	2	4	1	4	0	3	4	3	0	3	4	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:154407589T>G	uc001fez.1	+	5	1201	c.764T>G	c.(763-765)CTC>CGC	p.L255R	IL6R_uc001ffa.1_Missense_Mutation_p.L255R	NM_000565	NP_000556	P08887	IL6RA_HUMAN	interleukin 6 receptor isoform 1 precursor	255	Fibronectin type-III.|Extracellular (Potential).				acute-phase response|ciliary neurotrophic factor-mediated signaling pathway|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|endocrine pancreas development|hepatic immune response|negative regulation of collagen biosynthetic process|negative regulation of interleukin-8 production|positive regulation of activation of Janus kinase activity|positive regulation of anti-apoptosis|positive regulation of chemokine production|positive regulation of chemokine production|positive regulation of interleukin-6 production|positive regulation of leukocyte chemotaxis|positive regulation of MAPKKK cascade|positive regulation of osteoblast differentiation|positive regulation of smooth muscle cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of apoptosis	apical plasma membrane|basolateral plasma membrane|extracellular space|interleukin-6 receptor complex	ciliary neurotrophic factor binding|enzyme binding|protein homodimerization activity			ovary(3)|breast(1)	4	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CGGTTTGAGCTCAGATATCGG	0.483													7	50					0	0	0.00308	0	0		G	154407589	G	G	154407589	3	3	203	1	0	0	0	0	1	0	0	0	7718	1551	54	5	782	5	IL6R	1	154407589	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	44195610	154407589	94843032	8	99764											
KIRREL	55243	broad.mit.edu	37	chr1	158064879	158064879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcactcggactacggccagcGattccagcagcgcatgcaga	10	5	12	14	4	0	1	0	0	0	1	2	3	1	2	2	2	5	4	2	2	1	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:158064879G>A	uc001frn.3	+	15	2647	c.2243G>A	c.(2242-2244)CGA>CAA	p.R748Q	KIRREL_uc010pib.1_Missense_Mutation_p.R648Q|KIRREL_uc009wsq.2_Missense_Mutation_p.R584Q|KIRREL_uc001fro.3_Missense_Mutation_p.R562Q|uc001frp.2_5'Flank	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	748	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					TACGGCCAGCGATTCCAGCAG	0.607													8	12					0	0	0.004482	0	0		A	158064879	A	A	158064879	3	1	203	1	0	0	0	0	1	0	0	0	8340	1058	37	1	2301	1	KIRREL	1	158064879	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	3657290	158064879	91185742	9	99765											
OR6K6	128371	broad.mit.edu	37	chr1	158724691	158724691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcacagatgacacagttgaCggccagtgggaatcagacaa	14	7	11	9	1	2	4	2	2	0	2	2	5	2	5	1	2	0	1	1	2	2	2	rs142721506		TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:158724691C>T	uc001fsw.1	+	1	86	c.86C>T	c.(85-87)ACG>ATG	p.T29M		NM_001005184	NP_001005184	Q8NGW6	OR6K6_HUMAN	olfactory receptor, family 6, subfamily K,	29	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_hematologic(112;0.0378)					ACACAGTTGACGGCCAGTGGG	0.433													47	71					0	0	0.011902	0	0		T	158724691	T	T	158724691	3	4	203	1	0	0	0	0	1	0	0	0	11223	536	19	1	88	1	OR6K6	1	158724691	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	659812	158724691	90525930	10	99766											
ATP1A4	480	broad.mit.edu	37	chr1	160146308	160146308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttatgagtcagctgaaagcGacatcatgaagaggcttcca	13	9	10	9	1	2	4	2	3	0	1	3	5	3	4	1	1	2	2	1	1	3	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:160146308G>A	uc001fve.3	+	17	2985	c.2506G>A	c.(2506-2508)GAC>AAC	p.D836N	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Missense_Mutation_p.D339N|ATP1A4_uc001fvh.2_5'Flank	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	836	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGCTGAAAGCGACATCATGAA	0.527													34	26					0	0	0.017118	0	0		A	160146308	A	A	160146308	3	1	203	1	0	0	0	0	1	0	0	0	1132	1058	37	1	2572	1	ATP1A4	1	160146308	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	1421617	160146308	89104313	11	99767											
GPR161	23432	broad.mit.edu	37	chr1	168074014	168074014	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaactgggtgatgatgacGcccccttcgccaccctcctc	7	9	9	16	2	0	4	0	4	0	0	3	4	1	4	5	1	1	0	5	1	1	1	rs115455892	byFrequency	TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:168074014G>T	uc001gfc.2	-	4	389	c.75C>A	c.(73-75)GGC>GGA	p.G25G	GPR161_uc001gfb.2_Intron|GPR161_uc010pll.1_Intron|GPR161_uc010plm.1_Intron|GPR161_uc009wvo.2_Silent_p.G42G|GPR161_uc001gfd.2_Silent_p.G25G|GPR161_uc010pln.1_Silent_p.G45G|GPR161_uc001gfe.1_Silent_p.G25G	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2	25	Extracellular (Potential).				multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					TGATGATGACGCCCCCTTCGC	0.562													40	44					8.16277e-20	9.06386e-20	0.006999	1	0		T	168074014	T	T	168074014	2	4	203	1	0	0	0	0	0	0	0	1	6680	1074	38	5		5	GPR161	1	168074014	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	7927706	168074014	81176607	12	99768											
CFHR2	3080	broad.mit.edu	37	chr1	196920153	196920153	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cactcctcccaaatgcaggtCcactagtaagtgcaatgttg	11	10	8	12	0	0	0	0	0	0	0	3	0	3	0	3	1	2	4	3	1	4	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr1:196920153C>G	uc001gtq.1	+	3	502	c.425C>G	c.(424-426)TCC>TGC	p.S142C	CFHR2_uc001gtr.1_Intron	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	142	Sushi 2.					extracellular region				skin(2)|ovary(1)	3						AAATGCAGGTCCACTAGTAAG	0.338													11	63					0	0	0.013537	0	0		G	196920153	G	G	196920153	3	3	203	1	0	0	0	0	1	0	0	0	3288	855	30	5	435	5	CFHR2	1	196920153	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	28846139	196920153	52330468	13	99769											
GREB1	9687	broad.mit.edu	37	chr2	11774338	11774338	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccccgacatcatgcactaCgccctgctgggcctgcggaa	7	6	11	17	3	1	0	1	0	0	0	1	2	1	1	4	2	4	2	4	2	2	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:11774338C>T	uc002rbk.1	+	29	5373	c.5073C>T	c.(5071-5073)TAC>TAT	p.Y1691Y	GREB1_uc002rbp.1_Silent_p.Y689Y	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1691						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TCATGCACTACGCCCTGCTGG	0.612													9	69					0	0	0.008291	0	0		T	11774338	T	T	11774338	2	4	203	1	0	0	0	0	0	0	0	1	6776	547	19	1		1	GREB1	2	11774338	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08		11774338	231425035	14	99770											
DHX57	90957	broad.mit.edu	37	chr2	39040977	39040977	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgttacctgcactacatttgGatacaaagcagcacacagca	14	9	7	11	0	0	0	0	0	0	0	0	1	0	1	1	1	7	5	1	1	4	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:39040977G>C	uc002rrf.2	-	21	3766	c.3667C>G	c.(3667-3669)CCA>GCA	p.P1223A	DHX57_uc002rrd.3_Missense_Mutation_p.P607A|DHX57_uc002rre.2_Missense_Mutation_p.P656A	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	1223							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				ACTACATTTGGATACAAAGCA	0.363													22	63					0	0	0.014323	0	0		C	39040977	C	C	39040977	3	2	203	1	0	0	0	0	1	0	0	0	4519	1174	41	5	509	5	DHX57	2	39040977	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	27266639	39040977	204158396	15	99771											
CTNNA2	1496	broad.mit.edu	37	chr2	80835419	80835419	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggcagaagtgcagaatctGggaggagagctcattgtgtc	12	8	15	6	0	2	3	1	0	1	3	3	5	2	4	0	3	2	3	0	3	3	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:80835419G>T	uc010ysh.1	+	16	2411	c.2406G>T	c.(2404-2406)CTG>CTT	p.L802L	CTNNA2_uc010yse.1_Silent_p.L802L|CTNNA2_uc010ysf.1_Silent_p.L802L|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Silent_p.L434L|CTNNA2_uc010ysj.1_Silent_p.L131L	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	802					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TGCAGAATCTGGGAGGAGAGC	0.468													25	26					5.35356e-11	5.7576e-11	0.016522	1	0		T	80835419	T	T	80835419	2	4	203	1	0	0	0	0	0	0	0	1	4016	1335	47	5		5	CTNNA2	2	80835419	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	41794442	80835419	162363954	16	99772											
CNTNAP5	129684	broad.mit.edu	37	chr2	125405450	125405450	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacgggggcagcatggaacaGctggaggccgtgatcgacgg	9	5	18	9	4	0	1	0	1	0	0	1	4	0	3	1	6	4	3	1	6	2	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:125405450G>C	uc002tno.2	+	13	2353	c.1989G>C	c.(1987-1989)CAG>CAC	p.Q663H	CNTNAP5_uc010flu.2_Missense_Mutation_p.Q664H	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	663	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GCATGGAACAGCTGGAGGCCG	0.622													3	15					0	0	0.009096	0	0		C	125405450	C	C	125405450	3	2	203	1	0	0	0	0	1	0	0	0	3653	962	34	5	2039	5	CNTNAP5	2	125405450	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	44570031	125405450	117793923	17	99773											
TBR1	10716	broad.mit.edu	37	chr2	162274733	162274733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcgggtctatatgcatcCggattcccccaacactgggg	10	9	10	12	2	1	0	0	0	1	0	4	1	3	1	3	4	2	1	3	4	4	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:162274733C>T	uc002ubw.1	+	3	1171	c.869C>T	c.(868-870)CCG>CTG	p.P290L	TBR1_uc010foy.2_Missense_Mutation_p.P3L	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	290	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						TATATGCATCCGGATTCCCCC	0.443													10	35					0	0	0.006214	0	0		T	162274733	T	T	162274733	3	4	203	1	0	0	0	0	1	0	0	0	15672	652	23	1	879	1	TBR1	2	162274733	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	36869283	162274733	80924640	18	99774											
KCNH7	90134	broad.mit.edu	37	chr2	163302875	163302875	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgccttgaaagggctgtAgtgcaatatcgtaaacttgt	11	12	11	7	1	0	1	0	1	0	0	1	2	0	1	1	1	3	4	1	1	6	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:163302875A>G	uc002uch.1	-	7	1419	c.1207T>C	c.(1207-1209)TAC>CAC	p.Y403H	KCNH7_uc002uci.2_Missense_Mutation_p.Y396H	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	403	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	AAAGGGCTGTAGTGCAATATC	0.448													8	45					0	0	0.004482	0	0		G	163302875	G	G	163302875	3	3	203	1	0	0	0	0	1	0	0	0	8053	420	15	3	2489	3	KCNH7	2	163302875	Missense_Mutation	SNP	A	TCGA-HU-8243-01A-11D-2340-08	1028142	163302875	79896498	19	99775											
KCTD18	130535	broad.mit.edu	37	chr2	201357899	201357899	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacagcatagataacctctTtcgaattggagccatgtgac	13	10	8	10	1	1	2	0	1	1	1	2	4	1	3	2	1	3	1	2	1	3	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:201357899T>C	uc002uvs.2	-	6	1277	c.760A>G	c.(760-762)AAG>GAG	p.K254E	KCTD18_uc002uvt.2_Missense_Mutation_p.K254E	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	254						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						GATAACCTCTTTCGAATTGGA	0.408													19	28					0	0	0.010504	0	0		C	201357899	C	C	201357899	3	2	203	1	0	0	0	0	1	0	0	0	8121	1850	64	3	528	3	KCTD18	2	201357899	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	38055024	201357899	41841474	20	99776											
CXCR7	57007	broad.mit.edu	37	chr2	237489189	237489189	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcaacagcagcgactgcatCgtggtggacacggtgatgtg	9	8	15	9	3	0	1	0	1	0	0	1	3	0	2	0	3	5	3	0	3	1	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr2:237489189C>T	uc010fyq.2	+	3	311	c.81C>T	c.(79-81)ATC>ATT	p.I27I	CXCR7_uc002vwd.2_Silent_p.I27I	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	27	Extracellular (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		GCGACTGCATCGTGGTGGACA	0.522													7	19					0	0	0.001984	0	0		T	237489189	T	T	237489189	2	4	203	1	0	0	0	0	0	0	0	1	4099	874	31	1		1	CXCR7	2	237489189	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	36131290	237489189	5710184	21	99777											
GRM7	2917	broad.mit.edu	37	chr3	6903381	6903381	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgcccaacgtgacgctgggCgcgcggatcctggacacttg	6	7	14	14	5	0	1	0	1	0	0	1	3	1	3	2	3	2	1	2	3	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr3:6903381C>T	uc003bqm.2	+	1	580	c.306C>T	c.(304-306)GGC>GGT	p.G102G	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Silent_p.G102G|GRM7_uc003bql.2_Silent_p.G102G	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	102	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	TGACGCTGGGCGCGCGGATCC	0.587													12	23					0	0	0.010729	0	0		T	6903381	T	T	6903381	2	4	203	1	0	0	0	0	0	0	0	1	6818	755	27	1		1	GRM7	3	6903381	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08		6903381	191119049	22	99778											
ROBO2	6092	broad.mit.edu	37	chr3	77607240	77607240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggagggatttacttttccGggtagagatccaagagcaac	13	9	12	7	1	0	2	0	0	0	2	2	5	2	4	2	3	3	2	2	3	5	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr3:77607240G>A	uc003dpy.3	+	9	2020	c.1377G>A	c.(1375-1377)CCG>CCA	p.P459P	ROBO2_uc003dpz.2_Silent_p.P463P|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Silent_p.P463P	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	459	Ig-like C2-type 5.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		TTACTTTTCCGGGTAGAGATC	0.418													24	74					0	0	0.021523	0	0		A	77607240	A	A	77607240	2	1	203	1	0	0	0	0	0	0	0	1	13539	1103	39	1		1	ROBO2	3	77607240	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	70703859	77607240	120415190	23	99779											
PLXNA1	5361	broad.mit.edu	37	chr3	126707595	126707595	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcgactggggcctcacccaCctagtggtgcatgagcagac	9	6	13	13	1	1	2	1	1	0	1	1	3	1	2	3	3	3	2	3	3	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr3:126707595C>G	uc003ejg.2	+	1	94	c.90C>G	c.(88-90)CAC>CAG	p.H30Q		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	53	Sema.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GCCTCACCCACCTAGTGGTGC	0.647													10	42					0	0	0.006214	0	0		G	126707595	G	G	126707595	3	3	203	1	0	0	0	0	1	0	0	0	12138	506	18	5	161	5	PLXNA1	3	126707595	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	49100355	126707595	71314835	24	99780											
NMD3	51068	broad.mit.edu	37	chr3	160964220	160964220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggacatcttctaaatcccGgagacctggtgttagggttt	8	13	12	8	1	2	1	0	0	2	1	3	3	3	2	2	4	0	2	2	4	3	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr3:160964220G>A	uc003feb.1	+	12	1233	c.1114G>A	c.(1114-1116)GGA>AGA	p.G372R	NMD3_uc003fec.2_Missense_Mutation_p.G372R|NMD3_uc003fed.1_Missense_Mutation_p.G372R|NMD3_uc010hwh.2_Missense_Mutation_p.G192R	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	372					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			TCTAAATCCCGGAGACCTGGT	0.368													11	56					0	0	0.013537	0	0		A	160964220	A	A	160964220	3	1	203	1	0	0	0	0	1	0	0	0	10507	1117	39	1	1156	1	NMD3	3	160964220	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	34256625	160964220	37058210	25	99781											
CHRD	8646	broad.mit.edu	37	chr3	184101158	184101158	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtccagacgggtgctgcCggctcagccagcctcacgct	6	6	12	17	3	2	1	2	0	0	1	3	1	3	1	5	2	4	3	5	2	0	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr3:184101158C>T	uc003fov.2	+	11	1518	c.1272C>T	c.(1270-1272)GCC>GCT	p.A424A	CHRD_uc003fow.2_Silent_p.A54A|CHRD_uc003fox.2_Silent_p.A424A|CHRD_uc003foy.2_Silent_p.A54A|CHRD_uc010hyc.2_Silent_p.A54A|CHRD_uc011brr.1_Silent_p.A54A	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	424	CHRD 3.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CGGGTGCTGCCGGCTCAGCCA	0.627													15	81					0	0	0.00499	0	0		T	184101158	T	T	184101158	2	4	203	1	0	0	0	0	0	0	0	1	3375	639	23	1		1	CHRD	3	184101158	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	23136938	184101158	13921272	26	99782											
KCTD8	386617	broad.mit.edu	37	chr4	44450414	44450414	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttcagctccactacttcagGgaagggcgagggtgcgcagg	8	7	16	10	2	2	0	2	0	0	0	3	2	3	1	1	4	3	3	1	4	2	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr4:44450414G>C	uc003gwu.2	-	1	411	c.127C>G	c.(127-129)CCT>GCT	p.P43A		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	43						cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity	p.P43L(1)		central_nervous_system(2)|ovary(1)	3						ACTACTTCAGGGAAGGGCGAG	0.498										HNSCC(17;0.042)			3	13					0	0	0.004672	0	0		C	44450414	C	C	44450414	3	2	203	1	0	0	0	0	1	0	0	0	8131	1232	43	5	1302	5	KCTD8	4	44450414	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08		44450414	146703862	27	99783											
ANKRD17	26057	broad.mit.edu	37	chr4	74005554	74005554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccacttgctgtaaccgtgCatagtctccctcagaaagct	10	11	7	13	1	2	1	1	0	1	1	4	1	3	1	3	0	4	4	3	0	3	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr4:74005554C>T	uc003hgp.2	-	15	2896	c.2779G>A	c.(2779-2781)GCA>ACA	p.A927T	ANKRD17_uc003hgo.2_Missense_Mutation_p.A814T|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Missense_Mutation_p.A927T|ANKRD17_uc011cbd.1_Missense_Mutation_p.A492T	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	927	Gln-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGTAACCGTGCATAGTCTCCC	0.493													30	75					0	0	0.007291	0	0		T	74005554	T	T	74005554	3	4	203	1	0	0	0	0	1	0	0	0	646	710	25	2	5112	2	ANKRD17	4	74005554	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	29555140	74005554	117148722	28	99784											
PCDH10	57575	broad.mit.edu	37	chr4	134073626	134073626	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggccgccaagcccgggcGcgcaagaagaaactcagcaa	12	3	13	13	4	1	2	1	0	0	2	1	2	1	2	3	2	3	2	3	2	5	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr4:134073626G>A	uc003iha.2	+	1	3157	c.2331G>A	c.(2329-2331)GCG>GCA	p.A777A	PCDH10_uc003igz.2_Silent_p.A777A	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	777	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AAGCCCGGGCGCGCAAGAAGA	0.602													7	24					0	0	0.001984	0	0		A	134073626	A	A	134073626	2	1	203	1	0	0	0	0	0	0	0	1	11526	1074	38	1		1	PCDH10	4	134073626	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	60068072	134073626	57080650	29	99785											
DCHS2	54798	broad.mit.edu	37	chr4	155156232	155156232	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccaggatgctctcttttgccTctctcttctgaactgtctgg	4	16	8	13	0	5	1	0	1	5	0	7	2	5	2	2	2	3	1	2	2	1	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr4:155156232T>A	uc003inw.2	-	25	8207	c.8207A>T	c.(8206-8208)GAG>GTG	p.E2736V		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2736					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTCTTTTGCCTCTCTCTTCTG	0.483													17	46					0	0	0.00499	0	0		A	155156232	A	A	155156232	3	1	203	1	0	0	0	0	1	0	0	0	4291	1551	54	5	547	5	DCHS2	4	155156232	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	21082606	155156232	35998044	30	99786											
FBXL7	23194	broad.mit.edu	37	chr5	15928122	15928122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcctccatcaccggggagaCggtggccatggtgcactccc	6	7	13	15	2	1	1	1	0	0	1	4	2	4	1	5	5	1	1	5	5	0	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:15928122C>T	uc003jfn.1	+	3	732	c.251C>T	c.(250-252)ACG>ATG	p.T84M		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	84					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						ACCGGGGAGACGGTGGCCATG	0.662													7	27					0	0	0.001984	0	0		T	15928122	T	T	15928122	3	4	203	1	0	0	0	0	1	0	0	0	5738	536	19	1	261	1	FBXL7	5	15928122	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		15928122	164987138	31	99787											
DMGDH	29958	broad.mit.edu	37	chr5	78329126	78329126	+	Silent	SNP	G	T	T	0	0	1	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	tactgggttgttgtccatttGccatagcgattaggatccaa	9	14	10	8	1	0	0	0	0	0	0	2	2	2	1	3	2	3	2	3	2	4	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:78329126G>T	uc003kfs.2	-	8	1305	c.1299C>A	c.(1297-1299)GGC>GGA	p.G433G	DMGDH_uc011cte.1_Silent_p.G283G|DMGDH_uc011ctf.1_Silent_p.G232G|DMGDH_uc011ctg.1_Silent_p.G53G	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	433					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		TTGTCCATTTGCCATAGCGAT	0.428													24	57					6.44725e-10	6.8905e-10	0.014323	1	0		T	78329126	T	T	78329126	2	4	203	1	0	0	0	0	0	0	0	1	4587	1306	46	5		5	DMGDH	5	78329126	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	62401004	78329126	102586134	32	99788											
APC	324	broad.mit.edu	37	chr5	112179441	112179441	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgttcccatgcgtaccgtggGtttggaaaatcgcctgaact	8	12	11	10	3	0	1	0	1	0	0	2	2	1	2	3	2	3	3	3	2	4	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:112179441G>C	uc010jby.2	+	16	8530	c.8150G>C	c.(8149-8151)GGT>GCT	p.G2717A	APC_uc011cvt.1_Missense_Mutation_p.G2699A|APC_uc003kpz.3_Missense_Mutation_p.G2717A|APC_uc003kpy.3_Missense_Mutation_p.G2717A|APC_uc010jbz.2_Missense_Mutation_p.G2434A|APC_uc010jca.2_Missense_Mutation_p.G2017A	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	2717	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		CGTACCGTGGGTTTGGAAAAT	0.418		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			26	64					0	0	0.005443	0	0		C	112179441	C	C	112179441	3	2	203	1	0	0	0	0	1	0	0	0	763	1261	44	5	8208	5	APC	5	112179441	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	33850315	112179441	68735819	33	99789											
PCDHA4	56144	broad.mit.edu	37	chr5	140188818	140188818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaaggcctcctcacgggcGttggtgggcgctgtgggtcc	4	8	16	13	3	1	0	1	0	0	0	3	0	3	0	4	5	0	2	4	5	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:140188818G>A	uc003lhi.2	+	1	2147	c.2046G>A	c.(2044-2046)GCG>GCA	p.A682A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.A682A|PCDHA4_uc011daa.1_Silent_p.A682A	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	682	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCACGGGCGTTGGTGGGCG	0.637													17	35					0	0	0.006122	0	0		A	140188818	A	A	140188818	2	1	203	1	0	0	0	0	0	0	0	1	11545	1132	40	1		1	PCDHA4	5	140188818	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	28009377	140188818	40726442	34	99790											
PCDHGB1	56104	broad.mit.edu	37	chr5	140731844	140731844	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtattgccagacctcagcGaccgccctgagccctctgac	8	7	10	16	2	2	3	1	2	1	1	2	4	2	3	5	1	3	1	5	1	1	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:140731844G>A	uc003ljo.1	+	1	2017	c.2017G>A	c.(2017-2019)GAC>AAC	p.D673N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGA4_uc003ljq.1_5'Flank|PCDHGB1_uc011daq.1_Missense_Mutation_p.D673N|PCDHGA4_uc003ljp.1_5'Flank	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	673	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGACCTCAGCGACCGCCCTGA	0.607													22	87					0	0	0.014323	0	0		A	140731844	A	A	140731844	3	1	203	1	0	0	0	0	1	0	0	0	11581	1058	37	1	2019	1	PCDHGB1	5	140731844	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	543026	140731844	40183416	35	99791											
SCGB3A2	117156	broad.mit.edu	37	chr5	147261134	147261134	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaactctgggcatttctgttGagcaccttgtggaggggcta	8	12	13	8	0	2	1	0	1	2	0	2	2	2	2	1	4	2	4	1	4	2	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:147261134G>C	uc003lot.1	+	2	274	c.181G>C	c.(181-183)GAG>CAG	p.E61Q		NM_054023	NP_473364	Q96PL1	SG3A2_HUMAN	secretoglobin, family 3A, member 2 precursor	61						extracellular region	binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CATTTCTGTTGAGCACCTTGT	0.483													18	48					0	0	0.00499	0	0		C	147261134	C	C	147261134	3	2	203	1	0	0	0	0	1	0	0	0	13926	1291	45	5	187	5	SCGB3A2	5	147261134	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	6529290	147261134	33654126	36	99792											
KIF4B	285643	broad.mit.edu	37	chr5	154395374	154395374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgggtacagttaatgcGtcaaatgaaagaggatgctg	13	8	13	7	2	1	2	1	1	0	1	1	3	1	3	1	2	4	3	1	2	4	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:154395374G>A	uc010jih.1	+	1	2115	c.1955G>A	c.(1954-1956)CGT>CAT	p.R652H		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	652	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CAGTTAATGCGTCAAATGAAA	0.408													29	81					0	0	0.010818	0	0		A	154395374	A	A	154395374	3	1	203	1	0	0	0	0	1	0	0	0	8320	1145	40	1	1957	1	KIF4B	5	154395374	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	7134240	154395374	26519886	37	99793											
EBF1	1879	broad.mit.edu	37	chr5	158250212	158250212	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agataagagggcgtaccttcCgaggggtcaagcctccgagc	10	6	14	11	3	1	2	1	0	0	2	3	4	3	2	4	3	3	1	4	3	3	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:158250212C>T	uc010jip.2	-	8	1052	c.750G>A	c.(748-750)TCG>TCA	p.S250S	EBF1_uc011ddw.1_Silent_p.S117S|EBF1_uc011ddx.1_Silent_p.S250S|EBF1_uc003lxl.3_Silent_p.S227S	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	250					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCGTACCTTCCGAGGGGTCAA	0.468			T	HMGA2	lipoma								13	28					0	0	0.013537	0	0		T	158250212	T	T	158250212	2	4	203	1	0	0	0	0	0	0	0	1	4886	639	23	1		1	EBF1	5	158250212	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	3854838	158250212	22665048	38	99794											
HMP19	51617	broad.mit.edu	37	chr5	173534384	173534384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaccccaattccagaagccGcttctacacagtcatcagcc	11	7	7	16	1	3	1	2	0	1	1	4	2	4	2	5	1	3	1	5	1	3	3	rs147555850		TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr5:173534384G>A	uc003mcx.2	+	5	537	c.392G>A	c.(391-393)CGC>CAC	p.R131H	HMP19_uc011dfh.1_Missense_Mutation_p.A35T	NM_015980	NP_057064	Q9Y328	NSG2_HUMAN	HMP19 protein	131	Lumenal (Potential).				dopamine receptor signaling pathway	cytoplasmic vesicle membrane|Golgi cisterna membrane|integral to membrane|multivesicular body membrane	dopamine receptor binding			central_nervous_system(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00925)|all_lung(126;0.0148)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TCCAGAAGCCGCTTCTACACA	0.592													24	44					0	0	0.00632	0	0		A	173534384	A	A	173534384	3	1	203	1	0	0	0	0	1	0	0	0	7261	1087	38	1	406	1	HMP19	5	173534384	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	15284172	173534384	7380876	39	99795											
RNF182	221687	broad.mit.edu	37	chr6	13977677	13977677	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaaccctactgagctgctGctcacccccaagaggctggc	9	6	11	15	0	1	3	1	1	0	2	1	4	1	3	3	2	5	4	3	2	3	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr6:13977677G>T	uc003nbe.2	+	3	745	c.327G>T	c.(325-327)CTG>CTT	p.L109L	RNF182_uc003nbf.2_Silent_p.L109L|RNF182_uc003nbg.2_Silent_p.L109L	NM_152737	NP_689950	Q8N6D2	RN182_HUMAN	ring finger protein 182	109						cytoplasm|integral to membrane|intracellular membrane-bounded organelle	protein binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Breast(50;0.00405)|Ovarian(93;0.0964)	all_hematologic(90;0.135)	Epithelial(50;0.195)			CTGAGCTGCTGCTCACCCCCA	0.542													32	28					5.77227e-19	6.3273e-19	0.008361	1	0		T	13977677	T	T	13977677	2	4	203	1	0	0	0	0	0	0	0	1	13491	1306	46	5		5	RNF182	6	13977677	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08		13977677	157137390	40	99796											
C6orf81	221481	broad.mit.edu	37	chr6	35705833	35705833	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcgagcgagagcggcacgggCgggactcaggtgagctccgg	7	4	19	11	6	1	2	1	1	0	1	3	5	2	3	1	5	3	2	1	5	0	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr6:35705833C>T	uc003ola.2	+	2	301	c.274C>T	c.(274-276)CGG>TGG	p.R92W	LOC285847_uc010jvy.1_5'Flank|C6orf81_uc003olb.1_Missense_Mutation_p.R65W	NM_145028	NP_659465	Q5T9G4	CF081_HUMAN	hypothetical protein LOC221481	65							binding			ovary(1)	1						GCGGCACGGGCGGGACTCAGG	0.572											OREG0017379	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	48	27					0	0	0.01441	0	0		T	35705833	T	T	35705833	3	4	203	1	0	0	0	0	1	0	0	0	2375	759	27	1	280	1	C6orf81	6	35705833	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	21728156	35705833	135409234	41	99797											
EFHC1	114327	broad.mit.edu	37	chr6	52288904	52288904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaccagtcttaacttatgGccaacctaaacaagccccac	13	7	6	15	0	1	0	0	0	1	0	1	0	1	0	5	2	4	1	5	2	6	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr6:52288904G>A	uc003pap.3	+	2	439	c.224G>A	c.(223-225)GGC>GAC	p.G75D	EFHC1_uc011dwv.1_Intron|EFHC1_uc011dww.1_Missense_Mutation_p.G56D	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	75						axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TTAACTTATGGCCAACCTAAA	0.512													9	70					0	0	0.006214	0	0		A	52288904	A	A	52288904	3	1	203	1	0	0	0	0	1	0	0	0	4952	1203	42	2	240	2	EFHC1	6	52288904	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	16583071	52288904	118826163	42	99798											
BMP5	653	broad.mit.edu	37	chr6	55638913	55638913	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attgcggttttgattttttcGtttgttggctgctctcacgg	3	20	11	7	3	1	1	1	1	1	0	3	1	1	1	0	3	2	5	0	3	0	8			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr6:55638913G>A	uc003pcq.2	-	4	1673	c.961C>T	c.(961-963)CGA>TGA	p.R321*	BMP5_uc011dxf.1_Nonsense_Mutation_p.R321*	NM_021073	NP_066551	P22003	BMP5_HUMAN	bone morphogenetic protein 5 preproprotein	321					cartilage development|cell differentiation|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(2)	2	Lung NSC(77;0.0462)		LUSC - Lung squamous cell carcinoma(124;0.181)			TGATTTTTTCGTTTGTTGGCT	0.473													25	74					0	0	0.005443	0	0		A	55638913	A	A	55638913	4	1	203	1	0	0	0	0	0	1	0	0	1464	1153	40	1	419	1	BMP5	6	55638913	Nonsense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	3350009	55638913	115476154	43	99799											
ZNF292	23036	broad.mit.edu	37	chr6	87971420	87971420	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggaaatgaaacctacCgtcagtctgaaaaaacttga	16	9	7	9	1	3	3	2	3	1	0	3	4	3	4	2	1	3	0	2	1	6	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr6:87971420C>T	uc003plm.3	+	8	8114	c.8073C>T	c.(8071-8073)ACC>ACT	p.T2691T		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	2691					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		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)		TGAAACCTACCGTCAGTCTGA	0.363													8	18					0	0	0.00308	0	0		T	87971420	T	T	87971420	2	4	203	1	0	0	0	0	0	0	0	1	17851	639	23	1		1	ZNF292	6	87971420	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	32332507	87971420	83143647	44	99800											
NMBR	4829	broad.mit.edu	37	chr6	142409655	142409655	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgatgagcaggtagagggaCgggatcacacagcggatcac	13	5	15	8	2	2	3	2	2	0	1	2	6	2	6	0	4	2	2	0	4	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr6:142409655C>T	uc003qiu.2	-	1	282	c.141G>A	c.(139-141)CCG>CCA	p.P47P		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	47	Helical; Name=1; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)|breast(1)	4	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		GGTAGAGGGACGGGATCACAC	0.602													11	43					0	0	0.008291	0	0		T	142409655	T	T	142409655	2	4	203	1	0	0	0	0	0	0	0	1	10506	523	19	1		1	NMBR	6	142409655	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	54438235	142409655	28705412	45	99801											
SDK1	221935	broad.mit.edu	37	chr7	4007048	4007048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtccggggctcccaaacccGccatcacctggaaaagaggt	10	6	11	14	2	1	1	1	0	0	1	3	2	3	2	5	4	1	1	5	4	3	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr7:4007048G>A	uc003smx.2	+	10	1667	c.1528G>A	c.(1528-1530)GCC>ACC	p.A510T		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	510	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TCCCAAACCCGCCATCACCTG	0.547													26	48					0	0	0.005443	0	0		A	4007048	A	A	4007048	3	1	203	1	0	0	0	0	1	0	0	0	13993	1087	38	1	1566	1	SDK1	7	4007048	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08		4007048	155131615	46	99802											
THSD7A	221981	broad.mit.edu	37	chr7	11581178	11581178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcttcacagggaatggcttCcagtaagtgagggcagtttc	9	11	12	9	0	2	1	1	1	1	0	4	2	3	2	1	3	0	4	1	3	2	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr7:11581178C>T	uc003ssf.3	-	6	1942	c.1690G>A	c.(1690-1692)GAA>AAA	p.E564K		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	564	TSP type-1 5.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		GGAATGGCTTCCAGTAAGTGA	0.542										HNSCC(18;0.044)			8	34					0	0	0.004482	0	0		T	11581178	T	T	11581178	3	4	203	1	0	0	0	0	1	0	0	0	15904	864	30	4	3371	4	THSD7A	7	11581178	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	7574130	11581178	147557485	47	99803											
ITGB8	3696	broad.mit.edu	37	chr7	20371449	20371450	+	Frame_Shift_Ins	INS	-	T	T																															atgtgcggctcggccctggcINStttttttaccgctgcatttg																										TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr7:20371449_20371450insT	uc003suu.2	+	1	725_726	c.20_21insT	c.(19-21)GCTfs	p.A7fs	ITGB8_uc011jyh.1_Intron|ITGB8_uc003sut.2_Frame_Shift_Ins_p.A7fs	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	7					cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						TCGGCCCTGGCTTTTTTTACCG	0.564													18	30	---	---	---	---						.	T	20371450	T	T	20371449	7	5	203	1	0	1	1	0	0	0	0	0	7917	797	28	0	22	0	ITGB8	7	20371449	Frame_Shift_Ins	INS	-	TCGA-HU-8243-01A-11D-2340-08	8790271	20371449	138767214	48	99804											
GLI3	2737	broad.mit.edu	37	chr7	42004061	42004061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acgcccgaggcgtggtgaggCgggaggagctatgggaaagg	9	4	21	7	4	0	1	0	1	0	0	0	5	0	4	1	7	1	1	1	7	2	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr7:42004061C>T	uc011kbh.1	-	15	4701	c.4610G>A	c.(4609-4611)CGC>CAC	p.R1537H	GLI3_uc011kbg.1_Missense_Mutation_p.R1478H	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1537					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CGTGGTGAGGCGGGAGGAGCT	0.587									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				15	31					0	0	0.020292	0	0		T	42004061	T	T	42004061	3	4	203	1	0	0	0	0	1	0	0	0	6454	768	27	1	136	1	GLI3	7	42004061	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	21632612	42004061	117134602	49	99805											
PPP1R3A	5506	broad.mit.edu	37	chr7	113558904	113558904	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtatccaggtatatgtcttCagaagaatcagaacctcgtc	12	11	9	9	1	3	3	2	0	1	3	6	3	4	3	2	2	1	2	2	2	6	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr7:113558904C>T	uc010ljy.1	-	1	179	c.148G>A	c.(148-150)GAA>AAA	p.E50K		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	50					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TATATGTCTTCAGAAGAATCA	0.388													13	94					0	0	0.013537	0	0		T	113558904	T	T	113558904	3	4	203	1	0	0	0	0	1	0	0	0	12393	835	29	4	3236	4	PPP1R3A	7	113558904	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	71554843	113558904	45579759	50	99806											
DLC1	10395	broad.mit.edu	37	chr8	12957582	12957582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgtaacagggctgggcGtgctgaccgcgctgctggtc	4	9	15	13	4	0	1	0	1	0	0	3	1	1	1	2	3	3	5	2	3	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr8:12957582G>A	uc003wwm.2	-	9	2708	c.2264C>T	c.(2263-2265)ACG>ATG	p.T755M	DLC1_uc003wwk.1_Missense_Mutation_p.T318M|DLC1_uc003wwl.1_Missense_Mutation_p.T352M|DLC1_uc011kxx.1_Missense_Mutation_p.T244M	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	755					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						AGGGCTGGGCGTGCTGACCGC	0.582													22	19					0	0	0.014323	0	0		A	12957582	A	A	12957582	3	1	203	1	0	0	0	0	1	0	0	0	4556	1145	40	1	2362	1	DLC1	8	12957582	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08		12957582	133406440	51	99807											
TUSC3	7991	broad.mit.edu	37	chr8	15517142	15517142	+	Missense_Mutation	SNP	A	G	G	1	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	tagcaaagtggattgctgacAgaacggatgttcatgtatgt	12	12	12	5	1	1	2	1	1	0	1	1	4	1	4	0	2	3	4	0	2	4	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr8:15517142A>G	uc003wwt.2	+	4	763	c.553A>G	c.(553-555)AGA>GGA	p.R185G	TUSC3_uc003wwr.2_Missense_Mutation_p.R185G|TUSC3_uc003wws.2_Missense_Mutation_p.R185G|TUSC3_uc003wwu.2_Missense_Mutation_p.R185G|TUSC3_uc003wwv.2_Missense_Mutation_p.R185G|TUSC3_uc003www.2_Missense_Mutation_p.R185G|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Missense_Mutation_p.R185G	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	185					cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		GATTGCTGACAGAACGGATGT	0.373													51	59					0	0	0.01441	0	0		G	15517142	G	G	15517142	3	3	203	1	0	0	0	0	1	0	0	0	16804	180	7	3	567	3	TUSC3	8	15517142	Missense_Mutation	SNP	A	TCGA-HU-8243-01A-11D-2340-08	2559560	15517142	130846880	52	99808											
CHD7	55636	broad.mit.edu	37	chr8	61655066	61655066	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gattcccatcaaacagtggtCaaggactaatgcaccagcag	14	7	9	11	0	2	0	2	0	0	0	3	2	3	1	2	2	3	2	2	2	3	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr8:61655066C>G	uc003xue.2	+	2	1552	c.1075C>G	c.(1075-1077)CAA>GAA	p.Q359E		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	359					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AAACAGTGGTCAAGGACTAAT	0.453													20	54					0	0	0.008871	0	0		G	61655066	G	G	61655066	3	3	203	1	0	0	0	0	1	0	0	0	3333	827	29	5	1077	5	CHD7	8	61655066	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	46137924	61655066	84708956	53	99809											
LRP12	29967	broad.mit.edu	37	chr8	105521183	105521183	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaccttatagtaatgatttCgcctgggtttgcccttatga	8	17	8	8	1	0	2	0	2	0	0	1	2	0	2	3	1	2	2	3	1	5	7			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr8:105521183C>T	uc003yma.2	-	3	351	c.256G>A	c.(256-258)GAA>AAA	p.E86K	LRP12_uc003ymb.2_Missense_Mutation_p.E67K|LRP12_uc003ymc.3_Missense_Mutation_p.E67K	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	86	Extracellular (Potential).|CUB 1.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			GTAATGATTTCGCCTGGGTTT	0.348													32	70					0	0	0.019004	0	0		T	105521183	T	T	105521183	3	4	203	1	0	0	0	0	1	0	0	0	8972	893	31	1	2343	1	LRP12	8	105521183	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	43866117	105521183	40842839	54	99810											
ADCY8	114	broad.mit.edu	37	chr8	132052325	132052325	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagaggggcagcgccgagtcGcctgacagctgcggcgcgtg	6	5	18	12	6	0	2	0	1	0	1	1	3	0	2	2	3	3	2	2	3	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr8:132052325G>A	uc003ytd.3	-	1	511	c.255C>T	c.(253-255)GGC>GGT	p.G85G	ADCY8_uc010mds.2_Silent_p.G85G	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	85	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GCGCCGAGTCGCCTGACAGCT	0.741										HNSCC(32;0.087)			3	1					0	0	0.004672	0	0		A	132052325	A	A	132052325	2	1	203	1	0	0	0	0	0	0	0	1	300	1074	38	1		1	ADCY8	8	132052325	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	26531142	132052325	14311697	55	99811											
RANBP6	26953	broad.mit.edu	37	chr9	6015555	6015555	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcttcagaagctggtaaaacTcttgcttttctgacacggtc	9	14	8	10	1	4	2	1	1	3	1	5	2	4	2	0	2	3	3	0	2	3	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr9:6015555T>G	uc003zjr.2	-	1	64	c.53A>C	c.(52-54)GAG>GCG	p.E18A	RANBP6_uc011lmf.1_Missense_Mutation_p.E18A|RANBP6_uc003zjs.2_5'UTR	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	18					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		CTGGTAAAACTCTTGCTTTTC	0.552													37	24					0	0	0.017118	0	0		G	6015555	G	G	6015555	3	3	203	1	0	0	0	0	1	0	0	0	13056	1551	54	5	3268	5	RANBP6	9	6015555	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08		6015555	135197876	56	99812											
WDR31	114987	broad.mit.edu	37	chr9	116093383	116093383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaattctctcttctataaTttcatcaggcctgctaaaaa	12	16	4	9	0	5	1	2	1	3	0	6	1	5	1	1	1	1	1	1	1	6	7			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr9:116093383T>C	uc004bhe.2	-	4	382	c.130A>G	c.(130-132)ATT>GTT	p.I44V	WDR31_uc004bhc.2_Missense_Mutation_p.I43V|WDR31_uc004bhd.2_Intron|WDR31_uc004bhf.2_RNA	NM_001012361	NP_001012361	Q8NA23	WDR31_HUMAN	WD repeat domain 31 isoform 1	44											0						TCTTCTATAATTTCATCAGGC	0.373													6	33					0	0	0.021553	0	0		C	116093383	C	C	116093383	3	2	203	1	0	0	0	0	1	0	0	0	17312	1493	52	3	1005	3	WDR31	9	116093383	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	110077828	116093383	25120048	57	99813											
LAMC3	10319	broad.mit.edu	37	chr9	133952593	133952593	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtaccaggaggtccaggcgGcccagaaagcactgaggacg	11	3	16	11	2	0	2	0	1	0	1	1	4	1	4	3	6	2	2	3	6	2	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr9:133952593G>T	uc004caa.1	+	22	3747	c.3649G>T	c.(3649-3651)GCC>TCC	p.A1217S	LAMC3_uc010mze.1_5'Flank	NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1217	Domain II and I.|Potential.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GGTCCAGGCGGCCCAGAAAGC	0.652													25	14					4.26978e-12	4.62109e-12	0.01892	1	0		T	133952593	T	T	133952593	3	4	203	1	0	0	0	0	1	0	0	0	8632	1203	42	5	3735	5	LAMC3	9	133952593	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	17859210	133952593	7260838	58	99814											
NOTCH1	4851	broad.mit.edu	37	chr9	139397647	139397647	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttactctgcacggcctcGatcttgtaggggatgttgag	7	12	12	10	2	2	1	0	1	2	0	3	3	2	2	1	3	2	3	1	3	2	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr9:139397647G>A	uc004chz.2	-	27	5154	c.5154C>T	c.(5152-5154)ATC>ATT	p.I1718I	NOTCH1_uc004cia.1_Silent_p.I948I	NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	1718	Extracellular (Potential).				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity	p.1719_1720>QKGPLAAFLGALASLGSLTIPYLI(1)		haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCACGGCCTCGATCTTGTAGG	0.667			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			6	14					0	0	0.021553	0	0		A	139397647	A	A	139397647	2	1	203	1	0	0	0	0	0	0	0	1	10566	1048	37	1		1	NOTCH1	9	139397647	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	5445054	139397647	1815784	59	99815											
UCMA	221044	broad.mit.edu	37	chr10	13275754	13275754	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcactcgcctcttctccCgccatctgcatggtgcccac	4	11	6	20	2	4	0	1	0	3	0	6	0	4	0	5	1	2	1	5	1	0	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr10:13275754C>T	uc001imd.2	-	2	178	c.105G>A	c.(103-105)GCG>GCA	p.A35A		NM_145314	NP_660357	Q8WVF2	UCMA_HUMAN	upper zone of growth plate and cartilage matrix	35						proteinaceous extracellular matrix					0						CCTCTTCTCCCGCCATCTGCA	0.652													45	101					0	0	0.013114	0	0		T	13275754	T	T	13275754	2	4	203	1	0	0	0	0	0	0	0	1	16952	639	23	1		1	UCMA	10	13275754	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08		13275754	122258993	60	99816											
GBF1	8729	broad.mit.edu	37	chr10	104142019	104142019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcaaccctgcgctcatcGaggccacctcaccagtgccc	7	7	7	20	2	3	0	3	0	0	0	5	1	4	0	6	1	3	1	6	1	1	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr10:104142019G>A	uc001kux.1	+	40	5746	c.5506G>A	c.(5506-5508)GAG>AAG	p.E1836K	GBF1_uc001kuy.1_Missense_Mutation_p.E1832K|GBF1_uc001kuz.1_Missense_Mutation_p.E1833K	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1836	Pro-rich.				COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		TGCGCTCATCGAGGCCACCTC	0.632													26	78					0	0	0.01892	0	0		A	104142019	A	A	104142019	3	1	203	1	0	0	0	0	1	0	0	0	6286	1059	37	1	5660	1	GBF1	10	104142019	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	90866265	104142019	31392728	61	99817											
C10orf26	54838	broad.mit.edu	37	chr10	104569654	104569654	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttgcccaccccccagggttCtggctggtgtggaccatcat	5	10	11	15	0	2	0	1	0	1	0	2	1	2	1	5	4	1	2	5	4	0	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr10:104569654C>G	uc001kwe.3	+	3	395	c.135C>G	c.(133-135)TTC>TTG	p.F45L	C10orf26_uc001kwf.3_Missense_Mutation_p.F66L|C10orf26_uc009xxg.1_RNA	NM_017787	NP_060257	Q9NX94	OPA1L_HUMAN	hypothetical protein LOC54838 isoform 2	45	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1		Colorectal(252;0.122)|all_hematologic(284;0.152)		Epithelial(162;6.14e-09)|all cancers(201;1.66e-07)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CCCCAGGGTTCTGGCTGGTGT	0.627													37	86					0	0	0.009718	0	0		G	104569654	G	G	104569654	3	3	203	1	0	0	0	0	1	0	0	0	1602	912	32	5	239	5	C10orf26	10	104569654	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	427635	104569654	30965093	62	99818											
C10orf120	399814	broad.mit.edu	37	chr10	124457437	124457437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttaggcctgcgatggaccGttccggtttctttgcgggga	4	13	15	9	4	1	0	0	0	1	0	2	3	2	2	3	5	2	3	3	5	1	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr10:124457437G>A	uc001lgn.2	-	3	852	c.820C>T	c.(820-822)CGG>TGG	p.R274W		NM_001010912	NP_001010912	Q5SQS8	CJ120_HUMAN	hypothetical protein LOC399814	274										kidney(1)	1		all_neural(114;0.169)|Glioma(114;0.222)				GCGATGGACCGTTCCGGTTTC	0.378													21	98					0	0	0.012319	0	0		A	124457437	A	A	124457437	3	1	203	1	0	0	0	0	1	0	0	0	1593	1144	40	1	191	1	C10orf120	10	124457437	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	19887783	124457437	11077310	63	99819											
TRIM6-TRIM34	445372	broad.mit.edu	37	chr11	5653909	5653909	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggataggaaagtcatttgCtggctttgtgagcggtctca	9	12	14	6	1	2	1	2	1	1	0	3	4	2	3	0	4	2	2	0	4	2	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:5653909C>A	uc001mbf.2	+	8	1654	c.1410C>A	c.(1408-1410)TGC>TGA	p.C470*	HBG2_uc001mak.1_Intron|TRIM34_uc001mbh.2_Nonsense_Mutation_p.C116*|TRIM34_uc009yeq.2_Intron|TRIM34_uc001mbi.2_Nonsense_Mutation_p.C116*|TRIM34_uc001mbj.2_Nonsense_Mutation_p.C116*	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	470						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		AAGTCATTTGCTGGCTTTGTG	0.502													13	57					2.27111e-07	2.39728e-07	0.013537	1	0		A	5653909	A	A	5653909	4	1	203	1	0	0	0	0	0	1	0	0	16560	805	28	5	1440	5	TRIM6-TRIM34	11	5653909	Nonsense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		5653909	129352607	64	99820											
OR52E8	390079	broad.mit.edu	37	chr11	5878346	5878346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taatgttgactttgatgctgGcacaggccagacgggcaatg	10	10	13	8	1	0	3	0	2	0	1	0	3	0	3	1	3	1	4	1	3	2	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:5878346G>A	uc010qzr.1	-	1	587	c.587C>T	c.(586-588)GCC>GTC	p.A196V	TRIM5_uc001mbq.1_Intron	NM_001005168	NP_001005168	Q6IFG1	O52E8_HUMAN	olfactory receptor, family 52, subfamily E,	196	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.114)		Epithelial(150;2.37e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTTGATGCTGGCACAGGCCAG	0.473													16	179					0	0	0.004007	0	0		A	5878346	A	A	5878346	3	1	203	1	0	0	0	0	1	0	0	0	11137	1203	42	2	368	2	OR52E8	11	5878346	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	224437	5878346	129128170	65	99821											
CCKBR	887	broad.mit.edu	37	chr11	6291352	6291352	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtccacgctaagcctcgtGgccatcgcactggagcggta	7	8	13	13	4	0	0	0	0	0	0	3	1	1	1	3	3	2	3	3	3	2	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:6291352G>A	uc001mcp.2	+	3	631	c.438G>A	c.(436-438)GTG>GTA	p.V146V	CCKBR_uc001mcq.2_Silent_p.V74V|CCKBR_uc001mcr.2_Silent_p.V146V|CCKBR_uc001mcs.2_Silent_p.V146V	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	146	Helical; Name=3; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	TAAGCCTCGTGGCCATCGCAC	0.597													64	44					0	0	0.01441	0	0		A	6291352	A	A	6291352	2	1	203	1	0	0	0	0	0	0	0	1	2884	1335	47	4		4	CCKBR	11	6291352	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	413006	6291352	128715164	66	99822											
OR2AG2	338755	broad.mit.edu	37	chr11	6789246	6789246	+	Missense_Mutation	SNP	T	C	C	0	1	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	catgatccttccctagagcgTggaatgtgccagcagtatgt	9	11	11	10	1	0	2	0	1	0	1	2	3	2	3	3	1	3	2	3	1	3	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:6789246T>C	uc001meq.1	-	1	943	c.943A>G	c.(943-945)ACG>GCG	p.T315A		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	315	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CCCTAGAGCGTGGAATGTGCC	0.493													24	46					0	0	0.016522	0	0		C	6789246	C	C	6789246	3	2	203	1	0	0	0	0	1	0	0	0	11004	1696	59	3	11	3	OR2AG2	11	6789246	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	497894	6789246	128217270	67	99823											
SPTY2D1	144108	broad.mit.edu	37	chr11	18637552	18637552	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtaaccatggaaattatccTttgtcctcttggccatagct	9	15	7	10	0	1	0	0	0	1	0	3	1	3	1	4	2	2	2	4	2	4	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:18637552T>C	uc001moy.2	-	3	485	c.269A>G	c.(268-270)AAG>AGG	p.K90R	SPTY2D1_uc010rdi.1_Missense_Mutation_p.K90R	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	90										breast(1)	1						GAAATTATCCTTTGTCCTCTT	0.428													47	92					0	0	0.01441	0	0		C	18637552	C	C	18637552	3	2	203	1	0	0	0	0	1	0	0	0	15151	1609	56	3	1804	3	SPTY2D1	11	18637552	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	11848306	18637552	116368964	68	99824											
DCDC1	341019	broad.mit.edu	37	chr11	31327862	31327862	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactttaatcactcttggttGaagtttgtgtctttgagaca	9	18	8	6	0	3	2	1	2	2	1	3	3	3	2	0	1	1	2	0	1	3	7			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:31327862G>T	uc001msv.2	-	5	710	c.508C>A	c.(508-510)CAA>AAA	p.Q170K	DCDC1_uc001msu.1_5'UTR	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	170	Doublecortin.				intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					ACTCTTGGTTGAAGTTTGTGT	0.368													18	61					7.07596e-05	7.28909e-05	0.006122	1	0		T	31327862	T	T	31327862	3	4	203	1	0	0	0	0	1	0	0	0	4287	1299	45	5	576	5	DCDC1	11	31327862	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	12690310	31327862	103678654	69	99825											
OR9G4	283189	broad.mit.edu	37	chr11	56510534	56510534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggaagcacaggtggagaatgCcttgtgtcttcctgaagctg	9	10	14	8	0	1	2	0	1	1	1	2	4	2	3	2	3	3	2	2	3	3	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:56510534C>T	uc010rjo.1	-	1	754	c.754G>A	c.(754-756)GCA>ACA	p.A252T		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	252	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GTGGAGAATGCCTTGTGTCTT	0.473													22	75					0	0	0.01892	0	0		T	56510534	T	T	56510534	3	4	203	1	0	0	0	0	1	0	0	0	11270	739	26	2	232	2	OR9G4	11	56510534	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	25182672	56510534	78495982	70	99826											
OSBP	5007	broad.mit.edu	37	chr11	59376145	59376145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tactttgctagagagggtccGaagggtattctgcagctcag	9	11	13	8	1	2	1	1	0	1	1	3	3	3	1	1	2	4	4	1	2	4	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:59376145G>A	uc001noc.1	-	3	1114	c.634C>T	c.(634-636)CGG>TGG	p.R212W		NM_002556	NP_002547	P22059	OSBP1_HUMAN	oxysterol binding protein	212					lipid transport	Golgi membrane	oxysterol binding			large_intestine(1)	1		all_epithelial(135;0.000236)		BRCA - Breast invasive adenocarcinoma(625;0.00607)|LUSC - Lung squamous cell carcinoma(625;0.207)		GAGAGGGTCCGAAGGGTATTC	0.468													42	53					0	0	0.006999	0	0		A	59376145	A	A	59376145	3	1	203	1	0	0	0	0	1	0	0	0	11292	1057	37	1	1837	1	OSBP	11	59376145	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	2865611	59376145	75630371	71	99827											
MS4A10	341116	broad.mit.edu	37	chr11	60559761	60559761	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcatttcagggatcttggcGataacaatgaagaccttttc	11	13	8	9	1	3	2	2	1	1	1	4	4	3	3	1	2	1	0	1	2	3	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:60559761G>A	uc001npz.1	+	4	423	c.327G>A	c.(325-327)GCG>GCA	p.A109A		NM_206893	NP_996776	Q96PG2	M4A10_HUMAN	membrane-spanning 4-domains, subfamily A, member	109	Helical; (Potential).					integral to membrane	receptor activity			ovary(1)|skin(1)	2						GGATCTTGGCGATAACAATGA	0.453													24	101					0	0	0.00632	0	0		A	60559761	A	A	60559761	2	1	203	1	0	0	0	0	0	0	0	1	9873	1045	37	1		1	MS4A10	11	60559761	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	1183616	60559761	74446755	72	99828											
SCGB1D1	10648	broad.mit.edu	37	chr11	61960896	61960896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatagcagagaaatgtgatcGctgagatgtaaaaagttttt	16	12	10	3	1	0	3	0	2	0	2	1	5	0	3	0	0	1	4	0	0	6	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:61960896G>A	uc001nsz.1	+	3	316	c.269G>A	c.(268-270)CGC>CAC	p.R90H		NM_006552	NP_006543	O95968	SG1D1_HUMAN	lipophilin A precursor	90						extracellular space	binding			skin(1)	1						AAATGTGATCGCTGAGATGTA	0.393													18	35					0	0	0.010504	0	0		A	61960896	A	A	61960896	3	1	203	1	0	0	0	0	1	0	0	0	13921	1087	38	1	279	1	SCGB1D1	11	61960896	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	1401135	61960896	73045620	73	99829											
NRXN2	9379	broad.mit.edu	37	chr11	64410011	64410011	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatctacagtgccacttacCgtggccgccgcgggtgagga	7	7	14	13	4	1	1	0	1	1	0	1	2	1	2	4	3	3	1	4	3	2	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:64410011C>T	uc001oap.2	-	2	776	c.265G>A	c.(265-267)GCC>ACC	p.A89T	NRXN2_uc001oar.2_Intron|NRXN2_uc001oas.2_Intron|NRXN2_uc001oaq.2_Intron	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	89	Extracellular (Potential).				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TGCCACTTACCGTGGCCGCCG	0.726													3	16					0	0	0.009096	0	0		T	64410011	T	T	64410011	3	4	203	1	0	0	0	0	1	0	0	0	10685	666	23	1	1763	1	NRXN2	11	64410011	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	2449115	64410011	70596505	74	99830											
INTS4	92105	broad.mit.edu	37	chr11	77690106	77690106	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtagcttagtgccaattGcaagcaaagtatccagcagt	12	10	10	9	0	0	0	0	0	0	0	1	0	1	0	2	1	5	6	2	1	6	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:77690106G>A	uc001oys.2	-	4	435	c.407C>T	c.(406-408)GCA>GTA	p.A136V	INTS4_uc001oyt.2_Intron|INTS4_uc001oyu.1_Missense_Mutation_p.A136V|INTS4_uc001oyv.1_RNA	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	136					snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			AGTGCCAATTGCAAGCAAAGT	0.403													63	93					0	0	0.01441	0	0		A	77690106	A	A	77690106	3	1	203	1	0	0	0	0	1	0	0	0	7796	1319	46	2	2564	2	INTS4	11	77690106	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	13280095	77690106	57316410	75	99831											
KDELC2	143888	broad.mit.edu	37	chr11	108361830	108361830	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcctgtccaaaggtttaggGacatgtatccggaccaactc	10	11	9	11	1	0	0	0	0	0	0	4	2	3	2	4	3	1	2	4	3	4	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:108361830G>A	uc001pkj.2	-	2	333	c.267C>T	c.(265-267)GTC>GTT	p.V89V	KDELC2_uc001pki.2_Silent_p.V33V	NM_153705	NP_714916	Q7Z4H8	KDEL2_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 2 precursor	89	Filamin.					endoplasmic reticulum lumen				ovary(1)	1		all_cancers(61;1.38e-11)|all_epithelial(67;3.16e-07)|Melanoma(852;2.55e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		Epithelial(105;6.93e-06)|BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|all cancers(92;0.00016)|OV - Ovarian serous cystadenocarcinoma(223;0.132)|Colorectal(284;0.14)		AAGGTTTAGGGACATGTATCC	0.383													19	68					0	0	0.006122	0	0		A	108361830	A	A	108361830	2	1	203	1	0	0	0	0	0	0	0	1	8134	1161	41	4		4	KDELC2	11	108361830	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	30671724	108361830	26644686	76	99832											
C2CD2L	9854	broad.mit.edu	37	chr11	118983467	118983467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcccacctcctccactccaCgccccagcatcacacctacc	8	6	2	25	1	1	0	1	0	0	0	5	0	5	0	9	0	2	1	9	0	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:118983467C>T	uc001pvo.2	+	10	1629	c.1270C>T	c.(1270-1272)CGC>TGC	p.R424C	C2CD2L_uc001pvn.2_Missense_Mutation_p.R424C	NM_014807	NP_055622	O14523	C2C2L_HUMAN	transmembrane protein 24	424						integral to membrane					0						CTCCACTCCACGCCCCAGCAT	0.612													21	49					0	0	0.014323	0	0		T	118983467	T	T	118983467	3	4	203	1	0	0	0	0	1	0	0	0	2156	536	19	1	1308	1	C2CD2L	11	118983467	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	10621637	118983467	16023049	77	99833											
CDON	50937	broad.mit.edu	37	chr11	125875734	125875734	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caccaggttgtacgtgtctgGtgtgtgggtctgtggggggc	3	12	19	7	1	2	0	0	0	2	0	2	0	2	0	1	6	1	2	1	6	1	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr11:125875734G>T	uc009zbw.2	-	9	1899	c.1771C>A	c.(1771-1773)CCA>ACA	p.P591T	CDON_uc001qdb.3_5'Flank|CDON_uc001qdc.3_Missense_Mutation_p.P591T|CDON_uc001qdd.3_RNA	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	591	Extracellular (Potential).|Fibronectin type-III 1.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TACGTGTCTGGTGTGTGGGTC	0.537													39	64					5.43694e-19	5.99817e-19	0.023175	1	0		T	125875734	T	T	125875734	3	4	203	1	0	0	0	0	1	0	0	0	3173	1261	44	5	2071	5	CDON	11	125875734	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	6892267	125875734	9130782	78	99834											
WNK1	65125	broad.mit.edu	37	chr12	1005523	1005523	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagcaaacaaagtgggtcGtttctctgtatcaaaaactg	14	11	8	8	1	2	0	1	0	1	0	4	0	2	0	0	1	4	3	0	1	6	3	rs36083875		TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr12:1005523G>A	uc001qio.3	+	24	6377	c.5870G>A	c.(5869-5871)CGT>CAT	p.R1957H	WNK1_uc001qip.3_Missense_Mutation_p.R1709H|WNK1_uc001qir.3_Missense_Mutation_p.R1130H	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1957					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			AAAGTGGGTCGTTTCTCTGTA	0.463													53	58					0	0	0.01441	0	0		A	1005523	A	A	1005523	3	1	203	1	0	0	0	0	1	0	0	0	17403	1145	40	1	7466	1	WNK1	12	1005523	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08		1005523	132846372	79	99835											
PLEKHG6	55200	broad.mit.edu	37	chr12	6436699	6436699	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgaagcgcccccgaactgccGgaaggaatcctaaaaggagg	13	3	13	12	4	0	0	0	0	0	0	1	5	1	3	4	4	3	0	4	4	6	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr12:6436699G>A	uc001qnr.2	+	15	2098	c.1950G>A	c.(1948-1950)CCG>CCA	p.P650P	PLEKHG6_uc010sew.1_Silent_p.P650P|PLEKHG6_uc010sex.1_Silent_p.P618P	NM_018173	NP_060643	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain-containing family G	650					regulation of Rho protein signal transduction	cleavage furrow|cytoplasm|spindle pole	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|skin(1)	2						CCGAACTGCCGGAAGGAATCC	0.627													12	16					0	0	0.016723	0	0		A	6436699	A	A	6436699	2	1	203	1	0	0	0	0	0	0	0	1	12093	1103	39	1		1	PLEKHG6	12	6436699	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	5431176	6436699	127415196	80	99836											
OSBPL8	114882	broad.mit.edu	37	chr12	76780411	76780411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttcactactttcttcaaaCggaaataaggattttcttca	13	16	4	8	1	5	0	3	0	2	0	5	2	5	2	0	2	2	0	0	2	4	8			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr12:76780411C>T	uc001sye.1	-	13	1862	c.1382G>A	c.(1381-1383)CGT>CAT	p.R461H	OSBPL8_uc001syf.1_Missense_Mutation_p.R419H|OSBPL8_uc001syg.1_Missense_Mutation_p.R419H|OSBPL8_uc001syh.1_Missense_Mutation_p.R436H	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	461					lipid transport		lipid binding			ovary(1)	1						TTTCTTCAAACGGAAATAAGG	0.279													13	72					0	0	0.016723	0	0		T	76780411	T	T	76780411	3	4	203	1	0	0	0	0	1	0	0	0	11302	536	19	1	1335	1	OSBPL8	12	76780411	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	70343712	76780411	57071484	81	99837											
TRIAP1	51499	broad.mit.edu	37	chr12	120882752	120882752	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaatctctttctcctttaTtgctttctggtaggaggaga	8	16	10	7	0	3	1	0	0	3	1	5	4	3	3	1	4	1	2	1	4	3	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr12:120882752T>C	uc001tyg.2	-	2	194	c.154A>G	c.(154-156)ATA>GTA	p.I52V	GATC_uc010szi.1_5'Flank	NM_016399	NP_057483	O43715	TRIA1_HUMAN	p53-inducible cell-survival factor	52					anti-apoptosis|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	mitochondrion|perinuclear region of cytoplasm	caspase inhibitor activity|protein binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TTCTCCTTTATTGCTTTCTGG	0.368													34	128					0	0	0.012213	0	0		C	120882752	C	C	120882752	3	2	203	1	0	0	0	0	1	0	0	0	16507	1493	52	3	80	3	TRIAP1	12	120882752	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	44102341	120882752	12969143	82	99838											
RIMBP2	23504	broad.mit.edu	37	chr12	130897281	130897281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaggaataaggccaagccGggcacaggtttccccacggt	12	5	12	12	2	0	0	0	0	0	0	1	1	1	1	4	5	1	2	4	5	4	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr12:130897281G>A	uc001uil.2	-	15	2868	c.2704C>T	c.(2704-2706)CGG>TGG	p.R902W		NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	902	SH3 2.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		AGGCCAAGCCGGGCACAGGTT	0.458													29	27					0	0	0.007291	0	0		A	130897281	A	A	130897281	3	1	203	1	0	0	0	0	1	0	0	0	13388	1115	39	1	474	1	RIMBP2	12	130897281	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	10014529	130897281	2954614	83	99839											
TPTE2	93492	broad.mit.edu	37	chr13	20056686	20056686	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttggaaagtcgttctaacaTactttagccaccaaaaaaaa	17	10	5	9	1	1	0	0	0	1	0	2	1	1	1	2	1	3	1	2	1	8	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr13:20056686T>C	uc001umd.2	-	5	332	c.121A>G	c.(121-123)ATG>GTG	p.M41V	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Missense_Mutation_p.M41V|TPTE2_uc001ume.2_Intron|TPTE2_uc009zzm.2_Intron|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	41						endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		CGTTCTAACATACTTTAGCCA	0.313													6	42					0	0	0.004482	0	0		C	20056686	C	C	20056686	3	2	203	1	0	0	0	0	1	0	0	0	16457	1420	49	3	1515	3	TPTE2	13	20056686	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08		20056686	95113192	84	99840											
FREM2	341640	broad.mit.edu	37	chr13	39262114	39262114	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggagttcgccttccagccCgagacagaggagtgccgcgt	7	7	14	13	4	0	2	0	0	0	2	2	5	1	4	4	2	2	1	4	2	0	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr13:39262114C>T	uc001uwv.2	+	1	942	c.633C>T	c.(631-633)CCC>CCT	p.P211P		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	211	Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		CCTTCCAGCCCGAGACAGAGG	0.657													5	23					0	0	0.021553	0	0		T	39262114	T	T	39262114	2	4	203	1	0	0	0	0	0	0	0	1	6059	639	23	1		1	FREM2	13	39262114	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	19205428	39262114	75907764	85	99841											
COG6	57511	broad.mit.edu	37	chr13	40297472	40297472	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctttgtgttttattttagatCgaagcacatttggacacact	10	17	7	7	1	0	1	0	0	0	1	1	3	0	2	0	1	1	2	0	1	3	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr13:40297472C>G	uc001uxh.2	+	16	1687	c.1587C>G	c.(1585-1587)ATC>ATG	p.I529M	COG6_uc001uxi.2_Missense_Mutation_p.I477M|COG6_uc010acb.2_Missense_Mutation_p.I529M	NM_020751	NP_065802	Q9Y2V7	COG6_HUMAN	component of oligomeric golgi complex 6 isoform	529					protein transport	Golgi membrane|Golgi transport complex				kidney(1)|skin(1)	2		Lung NSC(96;0.000124)|Breast(139;0.0199)|Prostate(109;0.0233)|Lung SC(185;0.0367)		all cancers(112;6.03e-09)|Epithelial(112;7e-07)|OV - Ovarian serous cystadenocarcinoma(117;0.00015)|BRCA - Breast invasive adenocarcinoma(63;0.00438)|GBM - Glioblastoma multiforme(144;0.0168)		TATTTTAGATCGAAGCACATT	0.378													6	46					0	0	0.021553	0	0		G	40297472	G	G	40297472	3	3	203	1	0	0	0	0	1	0	0	0	3665	874	31	5	1649	5	COG6	13	40297472	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	1035358	40297472	74872406	86	99842											
SLITRK5	26050	broad.mit.edu	37	chr13	88329187	88329187	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctattcttgaataacaAcctcctgcaggccatgccct	9	11	7	14	0	1	1	0	1	1	0	2	1	2	1	4	1	5	3	4	1	4	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr13:88329187A>G	uc001vln.2	+	2	1763	c.1544A>G	c.(1543-1545)AAC>AGC	p.N515S	SLITRK5_uc010tic.1_Missense_Mutation_p.N274S	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	515	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TTGAATAACAACCTCCTGCAG	0.527													8	68					0	0	0.00308	0	0		G	88329187	G	G	88329187	3	3	203	1	0	0	0	0	1	0	0	0	14771	43	2	3	1546	3	SLITRK5	13	88329187	Missense_Mutation	SNP	A	TCGA-HU-8243-01A-11D-2340-08	48031715	88329187	26840691	87	99843											
GPC5	2262	broad.mit.edu	37	chr13	92560278	92560278	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggaattgatcctgtgataaaTcagattattgataaactgaa	16	13	8	4	0	1	5	1	4	0	1	2	6	2	6	1	1	1	0	1	1	7	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr13:92560278T>A	uc010tif.1	+	6	1734	c.1368T>A	c.(1366-1368)AAT>AAA	p.N456K		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	456						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CTGTGATAAATCAGATTATTG	0.348													33	22					0	0	0.010818	0	0		A	92560278	A	A	92560278	3	1	203	1	0	0	0	0	1	0	0	0	6616	1432	50	5	1390	5	GPC5	13	92560278	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	4231091	92560278	22609600	88	99844											
FRMD6	122786	broad.mit.edu	37	chr14	52171626	52171626	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcactatggaaaatacttCgagccagaggcttacttccc	13	9	8	11	1	0	1	0	0	0	1	2	3	1	2	2	2	4	2	2	2	6	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr14:52171626C>A	uc001wzd.2	+	6	816	c.531C>A	c.(529-531)TTC>TTA	p.F177L	FRMD6_uc001wzb.2_Missense_Mutation_p.F169L|FRMD6_uc001wzc.2_Missense_Mutation_p.F169L|FRMD6_uc001wze.2_Missense_Mutation_p.F100L	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	177	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GAAAATACTTCGAGCCAGAGG	0.473													10	36					1.76689e-08	1.87664e-08	0.006214	1	0		A	52171626	A	A	52171626	3	1	203	1	0	0	0	0	1	0	0	0	6068	883	31	5	525	5	FRMD6	14	52171626	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		52171626	55177914	89	99845											
PLEKHG3	26030	broad.mit.edu	37	chr14	65207906	65207906	+	Silent	SNP	A	G	G	1	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	cttctggggatggaccccccAggtgacatggtggacttcgt	6	10	14	11	1	1	1	0	1	1	0	2	4	1	4	3	6	0	0	3	6	0	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr14:65207906A>G	uc001xho.1	+	16	1940	c.1671A>G	c.(1669-1671)CCA>CCG	p.P557P	PLEKHG3_uc001xhn.1_Silent_p.P501P|PLEKHG3_uc001xhp.2_Silent_p.P678P|PLEKHG3_uc010aqh.1_Silent_p.P99P|PLEKHG3_uc001xhq.1_Silent_p.P62P	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	557					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		TGGACCCCCCAGGTGACATGG	0.612													15	89					0	0	0.007413	0	0		G	65207906	G	G	65207906	2	3	203	1	0	0	0	0	0	0	0	1	12089	175	7	3		3	PLEKHG3	14	65207906	Silent	SNP	A	TCGA-HU-8243-01A-11D-2340-08	13036280	65207906	42141634	90	99846											
C14orf159	80017	broad.mit.edu	37	chr14	91642287	91642287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tccatctgcagaactgttggGaatcaaagagctttccaaac	13	10	8	10	0	2	2	1	0	1	2	4	3	4	3	2	1	4	3	2	1	4	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr14:91642287G>A	uc001xzb.2	+	9	1370	c.602G>A	c.(601-603)GGA>GAA	p.G201E	C14orf159_uc010atv.1_RNA|C14orf159_uc001xyy.2_Missense_Mutation_p.G206E|C14orf159_uc001xyx.2_Missense_Mutation_p.G189E|C14orf159_uc001xyw.2_Missense_Mutation_p.G206E|C14orf159_uc001xzc.2_Missense_Mutation_p.G201E|C14orf159_uc001xza.2_Missense_Mutation_p.G206E|C14orf159_uc001xyv.2_Missense_Mutation_p.G206E|C14orf159_uc001xyz.2_Missense_Mutation_p.G77E|C14orf159_uc001xze.2_Missense_Mutation_p.G201E	NM_001102366	NP_001095836	Q7Z3D6	CN159_HUMAN	hypothetical protein LOC80017 isoform a	201						mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		GAACTGTTGGGAATCAAAGAG	0.488													23	52					0	0	0.016522	0	0		A	91642287	A	A	91642287	3	1	203	1	0	0	0	0	1	0	0	0	1758	1174	41	4	635	4	C14orf159	14	91642287	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	26434381	91642287	15707253	91	99847											
BDKRB2	624	broad.mit.edu	37	chr14	96706782	96706782	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgcaagggcccactcttaaCgggacctttgcccagagcaa	10	8	10	13	1	1	1	0	0	1	1	1	2	1	2	3	2	4	2	3	2	3	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr14:96706782C>T	uc010avm.1	+	3	313	c.117C>T	c.(115-117)AAC>AAT	p.N39N	BDKRB2_uc010avl.1_3'UTR|BDKRB2_uc010twu.1_Silent_p.N12N|BDKRB2_uc001yfg.2_Silent_p.N39N	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2	39	Extracellular (Potential).				arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		CCACTCTTAACGGGACCTTTG	0.577													123	185					0	0	0.01441	0	0		T	96706782	T	T	96706782	2	4	203	1	0	0	0	0	0	0	0	1	1394	535	19	1		1	BDKRB2	14	96706782	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	5064495	96706782	10642758	92	99848											
AKT1	207	broad.mit.edu	37	chr14	105237106	105237106	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcaggtggtgtgatggtgaTcatctgggccgtgaactcct	6	12	15	8	1	3	3	2	3	1	0	4	3	4	3	2	4	1	0	2	4	1	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr14:105237106T>C	uc001ypk.2	-	13	1893	c.1339A>G	c.(1339-1341)ATC>GTC	p.I447V	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Missense_Mutation_p.I447V|AKT1_uc010axa.2_Missense_Mutation_p.I447V|AKT1_uc001ypm.2_Missense_Mutation_p.I447V|AKT1_uc001ypn.2_Missense_Mutation_p.I447V|AKT1_uc001ypj.2_RNA|AKT1_uc010tyk.1_Missense_Mutation_p.I385V	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	447	AGC-kinase C-terminal.				activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity			breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	GTGATGGTGATCATCTGGGCC	0.592		1	Mis		breast|colorectal|ovarian|NSCLC						OREG0022961	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	24					0	0	0.008291	0	0		C	105237106	C	C	105237106	3	2	203	1	0	0	0	0	1	0	0	0	478	1435	50	3	111	3	AKT1	14	105237106	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	8530324	105237106	2112434	93	99849											
C15orf2	23742	broad.mit.edu	37	chr15	24921489	24921489	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcccaagaagggcccagaAgagtgaagaaggatgaggat	15	3	17	6	0	0	6	0	2	0	4	0	8	0	8	2	4	0	0	2	4	5	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr15:24921489A>G	uc001ywo.2	+	1	949	c.475A>G	c.(475-477)AGA>GGA	p.R159G		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	159					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		AGGGCCCAGAAGAGTGAAGAA	0.617													9	40					0	0	0.004482	0	0		G	24921489	G	G	24921489	3	3	203	1	0	0	0	0	1	0	0	0	1787	64	3	3	477	3	C15orf2	15	24921489	Missense_Mutation	SNP	A	TCGA-HU-8243-01A-11D-2340-08		24921489	77609903	94	99850											
EIF2AK4	440275	broad.mit.edu	37	chr15	40284379	40284379	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cttacttatatttttaggctGacagcaaacaagacgatcag	14	12	7	8	1	1	2	1	1	0	1	1	3	1	2	0	1	3	2	0	1	6	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr15:40284379G>C	uc001zkm.1	+	17	2685	c.2635G>C	c.(2635-2637)GAC>CAC	p.D879H	EIF2AK4_uc010bbj.1_Missense_Mutation_p.D580H|EIF2AK4_uc001zkn.1_5'UTR	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	879	Protein kinase 2.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		TTTTTAGGCTGACAGCAAACA	0.353													13	60					0	0	0.016723	0	0		C	40284379	C	C	40284379	3	2	203	1	0	0	0	0	1	0	0	0	5005	1290	45	5	2701	5	EIF2AK4	15	40284379	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	15362890	40284379	62247013	95	99851											
SLC12A1	6557	broad.mit.edu	37	chr15	48536975	48536975	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtggtccgagatgccacCgggaacatgaatgacaccat	11	8	12	10	2	0	3	0	2	0	1	1	5	1	4	4	2	2	0	4	2	2	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr15:48536975C>T	uc001zwn.3	+	11	1542	c.1326C>T	c.(1324-1326)ACC>ACT	p.T442T	SLC12A1_uc010uew.1_Silent_p.T248T|SLC12A1_uc010bem.2_Silent_p.T442T|SLC12A1_uc001zwq.3_Silent_p.T213T|SLC12A1_uc001zwr.3_Silent_p.T169T	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	442					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	GAGATGCCACCGGGAACATGA	0.468													13	17					0	0	0.020292	0	0		T	48536975	T	T	48536975	2	4	203	1	0	0	0	0	0	0	0	1	14407	639	23	1		1	SLC12A1	15	48536975	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	8252596	48536975	53994417	96	99852											
DMXL2	23312	broad.mit.edu	37	chr15	51742428	51742428	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcctggaacgtgtgaatgagCtgcctttgcctgatgtcaaa	9	11	12	9	1	1	3	1	3	0	0	1	4	1	4	3	1	4	1	3	1	3	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr15:51742428C>T	uc002abf.2	-	42	9024	c.8799G>A	c.(8797-8799)CAG>CAA	p.Q2933Q	DMXL2_uc002abd.2_Silent_p.Q1025Q|DMXL2_uc010ufy.1_Silent_p.Q2934Q|DMXL2_uc010bfa.2_Silent_p.Q2297Q|DMXL2_uc002abc.2_RNA	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	2933	WD 14.					cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TGTGAATGAGCTGCCTTTGCC	0.488													17	66					0	0	0.007413	0	0		T	51742428	T	T	51742428	2	4	203	1	0	0	0	0	0	0	0	1	4601	796	28	2		2	DMXL2	15	51742428	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	3205453	51742428	50788964	97	99853											
WDR72	256764	broad.mit.edu	37	chr15	53889438	53889438	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cttcatgtgttgttgaacttCcgccaagagaacagcttgta	10	13	9	9	1	1	2	1	1	0	1	2	3	2	2	2	0	3	4	2	0	4	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr15:53889438C>T	uc002acj.2	-	18	3028	c.2986G>A	c.(2986-2988)GAA>AAA	p.E996K		NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	996										lung(1)|skin(1)	2				all cancers(107;0.0511)		TGTTGAACTTCCGCCAAGAGA	0.383													36	141					0	0	0.006999	0	0		T	53889438	T	T	53889438	3	4	203	1	0	0	0	0	1	0	0	0	17348	864	30	4	334	4	WDR72	15	53889438	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	2147010	53889438	48641954	98	99854											
ERN2	10595	broad.mit.edu	37	chr16	23713854	23713854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgggggccagggtcagtccaCgaggctatggcagaagatgg	9	5	18	9	2	1	2	1	0	0	2	2	3	2	2	2	6	0	2	2	6	2	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr16:23713854C>T	uc002dma.3	-	10	1251	c.1082G>A	c.(1081-1083)CGT>CAT	p.R361H	ERN2_uc010bxp.2_Missense_Mutation_p.R361H|ERN2_uc010bxq.1_Missense_Mutation_p.R169H	NM_033266	NP_150296	Q76MJ5	ERN2_HUMAN	endoplasmic reticulum to nucleus signalling 2	313	Lumenal (Potential).				apoptosis|induction of apoptosis|mRNA processing|negative regulation of transcription, DNA-dependent|rRNA catabolic process|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein serine/threonine kinase activity			large_intestine(2)|lung(2)|ovary(2)	6				GBM - Glioblastoma multiforme(48;0.0156)		GGTCAGTCCACGAGGCTATGG	0.587													19	120					0	0	0.010504	0	0		T	23713854	T	T	23713854	3	4	203	1	0	0	0	0	1	0	0	0	5246	536	19	1	1894	1	ERN2	16	23713854	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		23713854	66640899	99	99855											
CDH8	1006	broad.mit.edu	37	chr16	62055135	62055135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacccagcctcttttggagCggttcaaaattcgctgttct	9	13	8	11	2	3	0	1	0	2	0	4	1	3	1	2	2	3	3	2	2	3	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr16:62055135C>T	uc002eog.1	-	2	425	c.173G>A	c.(172-174)CGC>CAC	p.R58H		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	58					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TCTTTTGGAGCGGTTCAAAAT	0.438													27	31					0	0	0.021523	0	0		T	62055135	T	T	62055135	3	4	203	1	0	0	0	0	1	0	0	0	3119	768	27	1	2270	1	CDH8	16	62055135	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	38341281	62055135	28299618	100	99856											
DDX19B	11269	broad.mit.edu	37	chr16	70359577	70359579	+	In_Frame_Del	DEL	TTC	-	-																															actgaagctagcttatgctgTtcgaggcaataaatgtgagt																										TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr16:70359577_70359579delTTC	uc002eyo.2	+	7	722_724	c.593_595delTTC	c.(592-597)GTTCGA>GGA	p.198_199VR>G	DDX19B_uc010vly.1_In_Frame_Del_p.198_199VR>G|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_In_Frame_Del_p.172_173VR>G|DDX19B_uc010vlw.1_In_Frame_Del_p.89_90VR>G|DDX19B_uc002eyp.2_In_Frame_Del_p.167_168VR>G|DDX19B_uc002eyq.2_In_Frame_Del_p.89_90VR>G|DDX19B_uc002eyr.2_In_Frame_Del_p.47_48VR>G|DDX19B_uc010vlx.1_In_Frame_Del_p.47_48VR>G|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	198_199	Helicase ATP-binding.				mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				GCTTATGCTGTTCGAGGCAATAA	0.315													64	75	---	---	---	---						.	-	70359579	-	-	70359577	7	5	203	1	0	1	0	1	0	0	0	0	4350	1725	60	0	619	0	DDX19B	16	70359577	In_Frame_Del	DEL	TTC	TCGA-HU-8243-01A-11D-2340-08	8304442	70359577	19995176	101	99857											
PHLPP2	23035	broad.mit.edu	37	chr16	71712742	71712742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatttcctgccataaccactCtatctaacatagtgagtttc	12	14	4	11	0	2	1	0	1	2	0	4	1	3	1	3	0	3	1	3	0	5	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr16:71712742C>T	uc002fax.2	-	7	1190	c.1184G>A	c.(1183-1185)AGA>AAA	p.R395K	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.R395K|PHLPP2_uc002fay.1_Missense_Mutation_p.R395K	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	395	LRR 7.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						CATAACCACTCTATCTAACAT	0.388													16	61					0	0	0.003163	0	0		T	71712742	T	T	71712742	3	4	203	1	0	0	0	0	1	0	0	0	11874	913	32	4	2835	4	PHLPP2	16	71712742	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	1353165	71712742	18642011	102	99858											
ZC3H18	124245	broad.mit.edu	37	chr16	88689644	88689644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtcgtcttcgcggtcatCgtcctactctggctccggct	3	12	11	15	5	3	0	1	0	2	0	8	0	5	0	2	4	1	2	2	4	1	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr16:88689644C>T	uc002fky.2	+	10	1885	c.1685C>T	c.(1684-1686)TCG>TTG	p.S562L	ZC3H18_uc010voz.1_Missense_Mutation_p.S586L|ZC3H18_uc010chw.2_RNA	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	562	Ser-rich.					nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		TCGCGGTCATCGTCCTACTCT	0.562													5	16					0	0	0.021553	0	0		T	88689644	T	T	88689644	3	4	203	1	0	0	0	0	1	0	0	0	17593	893	31	1	1719	1	ZC3H18	16	88689644	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	16976902	88689644	1665109	103	99859											
TP53	7157	broad.mit.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	6	9	15	11	2	1	2	1	2	0	0	2	3	2	3	4	4	2	2	4	4	0	1	rs11540652		TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr17:7577538C>T	uc002gim.2	-	7	937	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	TP53_uc002gig.1_Missense_Mutation_p.R248Q|TP53_uc002gih.2_Missense_Mutation_p.R248Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116Q|TP53_uc010cng.1_Missense_Mutation_p.R116Q|TP53_uc002gii.1_Missense_Mutation_p.R116Q|TP53_uc010cnh.1_Missense_Mutation_p.R248Q|TP53_uc010cni.1_Missense_Mutation_p.R248Q|TP53_uc002gij.2_Missense_Mutation_p.R248Q|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155Q|TP53_uc002gio.2_Missense_Mutation_p.R116Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			23	17					0	0	0.016522	0	0		T	7577538	T	T	7577538	3	4	203	1	0	0	0	0	1	0	0	0	16407	652	23	1	547	1	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		7577538	73617672	104	99860											
KCNJ12	3768	broad.mit.edu	37	chr17	21319795	21319795	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccttctgctacgagaacgagCtggccttcctgagccgtgac	7	9	11	14	3	1	3	0	2	1	1	2	5	2	3	4	1	5	2	4	1	2	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr17:21319795C>T	uc002gyv.1	+	3	1846	c.1141C>T	c.(1141-1143)CTG>TTG	p.L381L		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	381	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	CGAGAACGAGCTGGCCTTCCT	0.637										Prostate(3;0.18)			6	44					0	0	0.006214	0	0		T	21319795	T	T	21319795	2	4	203	1	0	0	0	0	0	0	0	1	8062	796	28	2		2	KCNJ12	17	21319795	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	13742257	21319795	59875415	105	99861											
BRCA1	672	broad.mit.edu	37	chr17	41209095	41209095	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctgggattctcttgctcGctttggaccttggtggtttc	2	17	12	10	1	1	0	0	0	1	0	5	2	2	2	2	4	1	3	2	4	0	5	rs80357123		TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr17:41209095G>A	uc002icq.2	-	19	5483	c.5251C>T	c.(5251-5253)CGA>TGA	p.R1751*	BRCA1_uc010whp.1_Nonsense_Mutation_p.R600*|BRCA1_uc010whl.1_Nonsense_Mutation_p.R647*|BRCA1_uc010whm.1_Nonsense_Mutation_p.R61*|BRCA1_uc002icp.3_Nonsense_Mutation_p.R1680*|BRCA1_uc002icu.2_Nonsense_Mutation_p.R647*|BRCA1_uc010cyx.2_Nonsense_Mutation_p.R1704*|BRCA1_uc002ict.2_Nonsense_Mutation_p.R1772*|BRCA1_uc010whn.1_Nonsense_Mutation_p.R242*|BRCA1_uc010who.1_Intron	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1751					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding	p.R1751*(1)		ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		TCTCTTGCTCGCTTTGGACCT	0.463			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			43	146					0	0	0.01441	0	0		A	41209095	A	A	41209095	4	1	203	1	0	0	0	0	0	1	0	0	1501	1095	38	1	360	1	BRCA1	17	41209095	Nonsense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	19889300	41209095	39986115	106	99862											
GPATCH8	23131	broad.mit.edu	37	chr17	42478511	42478511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactgatgctattgattcgaGtttgacaggagcctttttgg	9	15	11	6	1	0	3	0	3	0	0	1	5	0	4	1	2	3	2	1	2	2	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr17:42478511G>A	uc002igw.1	-	8	998	c.934C>T	c.(934-936)CTC>TTC	p.L312F	GPATCH8_uc002igv.1_Missense_Mutation_p.L234F|GPATCH8_uc010wiz.1_Missense_Mutation_p.L234F	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	312						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		ATTGATTCGAGTTTGACAGGA	0.458											OREG0024461	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	52	158					0	0	0.01441	0	0		A	42478511	A	A	42478511	3	1	203	1	0	0	0	0	1	0	0	0	6609	1029	36	4	3578	4	GPATCH8	17	42478511	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	1269416	42478511	38716699	107	99863											
RGS9	8787	broad.mit.edu	37	chr17	63200383	63200383	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccaccgctatgtgctggaCgccgcacaaacccacattta	10	7	7	17	3	0	0	0	0	0	0	0	1	0	1	5	1	2	3	5	1	3	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr17:63200383C>T	uc002jfe.2	+	15	1277	c.1167C>T	c.(1165-1167)GAC>GAT	p.D389D	RGS9_uc010dem.2_Silent_p.D386D|RGS9_uc002jfd.2_Silent_p.D386D|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Silent_p.D160D	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	389	RGS.				intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						ATGTGCTGGACGCCGCACAAA	0.562													17	32					0	0	0.004007	0	0		T	63200383	T	T	63200383	2	4	203	1	0	0	0	0	0	0	0	1	13338	535	19	1		1	RGS9	17	63200383	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	20721872	63200383	17994827	108	99864											
ABCA10	10349	broad.mit.edu	37	chr17	67151160	67151161	+	Frame_Shift_Ins	INS	-	T	T																															aaggaacaattgttcaaaccINSttttttaacacaaaaggaaa																										TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr17:67151160_67151161insT	uc010dfa.1	-	31	4572_4573	c.3693_3694insA	c.(3691-3696)AAAGGTfs	p.K1231fs	ABCA10_uc010wqs.1_Frame_Shift_Ins_p.K223fs|ABCA10_uc010wqt.1_RNA	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	1231_1232	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TTGTTCAAACCTTTTTTAACAC	0.282													19	16	---	---	---	---						.	T	67151161	T	T	67151160	7	5	203	1	0	1	1	0	0	0	0	0	29	695	24	0	977	0	ABCA10	17	67151160	Frame_Shift_Ins	INS	-	TCGA-HU-8243-01A-11D-2340-08	3950777	67151160	14044050	109	99865											
ANKRD12	23253	broad.mit.edu	37	chr18	9211713	9211713	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctttacacatggctgctattCgaggagatgtgaaacaagtt	12	12	10	7	1	0	2	0	1	0	1	1	4	0	2	0	2	3	3	0	2	4	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr18:9211713C>G	uc002knv.2	+	6	840	c.583C>G	c.(583-585)CGA>GGA	p.R195G	ANKRD12_uc010wzn.1_Missense_Mutation_p.R195G|ANKRD12_uc002knw.2_Missense_Mutation_p.R172G|ANKRD12_uc002knx.2_Missense_Mutation_p.R172G	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	195	ANK 1.					nucleus				ovary(2)|central_nervous_system(1)	3						GGCTGCTATTCGAGGAGATGT	0.358													10	87					0	0	0.006214	0	0		G	9211713	G	G	9211713	3	3	203	1	0	0	0	0	1	0	0	0	640	876	31	5	601	5	ANKRD12	18	9211713	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		9211713	68865535	110	99866											
SLC14A1	6563	broad.mit.edu	37	chr18	43316452	43316452	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagtgcattgaattccatgCtcagcaaatgggacctcccc	11	9	8	13	0	1	1	1	1	0	0	3	2	3	2	4	1	3	3	4	1	3	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr18:43316452C>A	uc010xcn.1	+	7	821	c.502C>A	c.(502-504)CTC>ATC	p.L168I	SLC14A1_uc010dnk.2_Missense_Mutation_p.L224I|SLC14A1_uc002lbf.3_Missense_Mutation_p.L168I|SLC14A1_uc002lbg.3_Intron|SLC14A1_uc010xco.1_Missense_Mutation_p.L63I|SLC14A1_uc002lbh.3_Missense_Mutation_p.L60I|SLC14A1_uc002lbi.3_Missense_Mutation_p.L36I|SLC14A1_uc002lbj.3_Missense_Mutation_p.L224I|SLC14A1_uc002lbk.3_Missense_Mutation_p.L168I	NM_001146036	NP_001139508	Q13336	UT1_HUMAN	solute carrier family 14 (urea transporter),	168						integral to plasma membrane	urea transmembrane transporter activity			central_nervous_system(1)|pancreas(1)	2						GAATTCCATGCTCAGCAAATG	0.453													15	72					0.000219431	0.000224687	0.020292	1	0		A	43316452	A	A	43316452	3	1	203	1	0	0	0	0	1	0	0	0	14421	797	28	5	688	5	SLC14A1	18	43316452	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	34104739	43316452	34760796	111	99867											
SMAD4	4089	broad.mit.edu	37	chr18	48591888	48591888	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgccctattgttactgttGatggatacgtggacccttct	6	15	10	10	1	1	1	0	1	1	0	1	3	1	3	2	2	3	3	2	2	3	6			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr18:48591888G>T	uc010xdp.1	+	9	1589	c.1051G>T	c.(1051-1053)GAT>TAT	p.D351Y	SMAD4_uc002lfb.3_Missense_Mutation_p.D196Y	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	351	MH2.		D -> N (in a colorectal cancer sample; somatic mutation).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.D351H(7)|p.?(2)|p.V350_D351>DN(1)|p.D351N(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TGTTACTGTTGATGGATACGT	0.438									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				32	46					8.16721e-17	8.89549e-17	0.010818	1	0		T	48591888	T	T	48591888	3	4	203	1	0	0	0	0	1	0	0	0	14785	1290	45	5	1081	5	SMAD4	18	48591888	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	5275436	48591888	29485360	112	99868											
TBXA2R	6915	broad.mit.edu	37	chr19	3595741	3595741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggacagcgacctgggcCgggtgctgaggcgaggctgg	6	4	22	9	3	0	1	0	1	0	0	0	5	0	3	2	7	2	2	2	7	0	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:3595741C>T	uc002lyg.1	-	3	1191	c.977G>A	c.(976-978)CGG>CAG	p.R326Q	TBXA2R_uc002lye.1_Silent_p.P196P	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	326	Cytoplasmic (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CGACCTGGGCCGGGTGCTGAG	0.697													9	2					0	0	0.004482	0	0		T	3595741	T	T	3595741	3	4	203	1	0	0	0	0	1	0	0	0	15688	652	23	1	303	1	TBXA2R	19	3595741	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		3595741	55533242	113	99869											
UNC13A	23025	broad.mit.edu	37	chr19	17746834	17746834	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacagatacacaactcactGgttgaggcagggagtgtagg	13	7	13	8	0	1	2	1	1	0	1	1	3	1	3	0	4	2	3	0	4	3	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:17746834G>T	uc002nhd.2	-	26	3478	c.3478C>A	c.(3478-3480)CAG>AAG	p.Q1160K		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	1072					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						ACAACTCACTGGTTGAGGCAG	0.433													3	20					0.004672	0.00472729	0.004672	1	0		T	17746834	T	T	17746834	3	4	203	1	0	0	0	0	1	0	0	0	17010	1362	47	5	1969	5	UNC13A	19	17746834	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	14151093	17746834	41382149	114	99870											
KIAA1683	80726	broad.mit.edu	37	chr19	18376067	18376067	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctgctgagatcagcagcCtggtgcgctgggatgaggca	7	9	16	9	1	1	2	1	2	0	1	1	4	1	3	1	3	5	5	1	3	0	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:18376067C>T	uc002nin.2	-	3	2499	c.2283G>A	c.(2281-2283)CAG>CAA	p.Q761Q	KIAA1683_uc010ebn.2_Silent_p.Q761Q|KIAA1683_uc010xqe.1_Silent_p.Q715Q	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b	761						mitochondrion				ovary(2)	2						GATCAGCAGCCTGGTGCGCTG	0.647													11	106					0	0	0.010729	0	0		T	18376067	T	T	18376067	2	4	203	1	0	0	0	0	0	0	0	1	8267	680	24	4		4	KIAA1683	19	18376067	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	629233	18376067	40752916	115	99871											
ZNF208	7757	broad.mit.edu	37	chr19	22157559	22157559	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatcactttttggaaagaatCttctatgccctgctctggcc	8	15	7	11	0	4	1	1	0	3	1	4	2	4	2	2	2	2	1	2	2	4	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:22157559C>T	uc002nqp.2	-	4	426	c.277G>A	c.(277-279)GAT>AAT	p.D93N	ZNF208_uc002nqo.1_Missense_Mutation_p.D93N|ZNF208_uc010ecw.1_5'Flank	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TGGAAAGAATCTTCTATGCCC	0.328													6	48					0	0	0.021553	0	0		T	22157559	T	T	22157559	3	4	203	1	0	0	0	0	1	0	0	0	17791	913	32	4	3569	4	ZNF208	19	22157559	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	3781492	22157559	36971424	116	99872											
ZNF571	51276	broad.mit.edu	37	chr19	38056530	38056530	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgaattctctgatgaagaGtatattgtgaacaataacta	16	14	7	4	0	1	5	0	4	1	1	2	5	1	5	0	0	2	1	0	0	9	7			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:38056530G>C	uc002ogt.2	-	4	901	c.800C>G	c.(799-801)ACT>AGT	p.T267S	uc002ogm.2_Intron|uc002ogn.2_Intron|ZNF540_uc002ogo.2_Intron|ZNF540_uc002ogp.2_Intron|ZNF540_uc002ogq.2_Intron|ZNF571_uc002ogr.1_Intron|uc002ogs.1_5'Flank|ZNF571_uc010efp.2_Missense_Mutation_p.T267S	NM_016536	NP_057620	Q7Z3V5	ZN571_HUMAN	zinc finger protein 571	267	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTGATGAAGAGTATATTGTGA	0.378													16	37					0	0	0.003163	0	0		C	38056530	C	C	38056530	3	2	203	1	0	0	0	0	1	0	0	0	18028	1029	36	5	1033	5	ZNF571	19	38056530	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	15898971	38056530	21072453	117	99873											
DLL3	10683	broad.mit.edu	37	chr19	39995913	39995913	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgcccgcgtgggttctaCgggctgcggtgtgaggtgag	4	9	18	10	4	1	2	0	2	1	0	1	2	1	2	2	4	3	2	2	4	1	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:39995913C>T	uc002olx.2	+	6	973	c.915C>T	c.(913-915)TAC>TAT	p.Y305Y	DLL3_uc010egq.2_Silent_p.Y305Y|DLL3_uc002olw.2_Silent_p.Y305Y	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	305	EGF-like 2.|Extracellular (Potential).				Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(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;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GTGGGTTCTACGGGCTGCGGT	0.587													18	65					0	0	0.00499	0	0		T	39995913	T	T	39995913	2	4	203	1	0	0	0	0	0	0	0	1	4573	547	19	1		1	DLL3	19	39995913	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	1939383	39995913	19133070	118	99874											
CYP2A6	1548	broad.mit.edu	37	chr19	41352824	41352824	+	Missense_Mutation	SNP	A	T	T	1	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	gtcaatgaagtcccgtggggAattgggatccagcgtgcgct	8	9	15	9	3	1	1	1	1	0	0	3	3	3	3	2	3	2	1	2	3	3	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:41352824A>T	uc002opl.3	-	5	808	c.787T>A	c.(787-789)TCC>ACC	p.S263T	CYP2A6_uc010ehe.1_Missense_Mutation_p.S59T|CYP2A6_uc010ehf.1_RNA	NM_000762	NP_000753	P11509	CP2A6_HUMAN	cytochrome P450, family 2, subfamily A,	263					coumarin catabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|coumarin 7-hydroxylase activity|electron carrier activity|enzyme binding|heme binding			ovary(2)	2			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)		Chlorzoxazone(DB00356)|Diethylstilbestrol(DB00255)|Estradiol(DB00783)|Ethinyl Estradiol(DB00977)|Formoterol(DB00983)|Halothane(DB01159)|Letrozole(DB01006)|Methoxsalen(DB00553)|Metyrapone(DB01011)|Nicotine(DB00184)|Pilocarpine(DB01085)|Tolbutamide(DB01124)|Tranylcypromine(DB00752)	TCCCGTGGGGAATTGGGATCC	0.582													16	39					0	0	0.004007	0	0		T	41352824	T	T	41352824	3	4	203	1	0	0	0	0	1	0	0	0	4165	246	9	5	717	5	CYP2A6	19	41352824	Missense_Mutation	SNP	A	TCGA-HU-8243-01A-11D-2340-08	1356911	41352824	17776159	119	99875											
CYP2A7	1549	broad.mit.edu	37	chr19	41388043	41388043	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ccccctgctcttcctctgctGccagacagacatcaagacca	9	8	6	18	0	3	3	1	0	2	3	4	3	4	3	5	0	3	2	5	0	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:41388043G>T	uc002opm.2	-	1	615	c.73C>A	c.(73-75)CAG>AAG	p.Q25K	CYP2A7_uc002opo.2_Intron|CYP2A7_uc002opn.2_Missense_Mutation_p.Q25K	NM_000764	NP_000755	P20853	CP2A7_HUMAN	cytochrome P450, family 2, subfamily A,	25						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TTCCTCTGCTGCCAGACAGAC	0.572													11	38					3.86212e-05	4.00256e-05	0.008291	1	0		T	41388043	T	T	41388043	3	4	203	1	0	0	0	0	1	0	0	0	4166	1328	46	5	1457	5	CYP2A7	19	41388043	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	35219	41388043	17740940	120	99876											
CEACAM8	1088	broad.mit.edu	37	chr19	43093141	43093141	+	Silent	SNP	T	C	C	0	1	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	gagaggttgagatttaccccTgcatggtaataggtgtctga	10	12	13	6	0	1	3	0	2	1	2	1	5	1	3	2	3	2	3	2	3	3	5			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:43093141T>C	uc002oud.2	-	4	855	c.753A>G	c.(751-753)GCA>GCG	p.A251A	uc010eif.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron	NM_001816	NP_001807	P31997	CEAM8_HUMAN	carcinoembryonic antigen-related cell adhesion	251	Ig-like C2-type 2.				immune response	anchored to membrane|extracellular space|integral to plasma membrane				ovary(1)	1		Prostate(69;0.00899)				GATTTACCCCTGCATGGTAAT	0.493													21	56					0	0	0.010504	0	0		C	43093141	C	C	43093141	2	2	203	1	0	0	0	0	0	0	0	1	3201	1567	55	3		3	CEACAM8	19	43093141	Silent	SNP	T	TCGA-HU-8243-01A-11D-2340-08	1705098	43093141	16035842	121	99877											
PNMAL2	57469	broad.mit.edu	37	chr19	46997202	46997202	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctcggactgttcgtcCgaagcctcctccgacccctc	4	10	7	20	4	0	0	0	0	0	0	8	3	5	1	8	1	1	1	8	1	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:46997202C>T	uc002pes.2	-	1	1968	c.1521G>A	c.(1519-1521)TCG>TCA	p.S507S	uc002peu.1_5'Flank	NM_020709	NP_065760	Q9ULN7	PNML2_HUMAN	PNMA-like 2	507										central_nervous_system(1)	1		Ovarian(192;0.00965)|all_neural(266;0.0459)		OV - Ovarian serous cystadenocarcinoma(262;0.000322)|all cancers(93;0.00233)|GBM - Glioblastoma multiforme(486;0.0421)|Epithelial(262;0.0427)		ACTGTTCGTCCGAAGCCTCCT	0.672													16	36					0	0	0.00499	0	0		T	46997202	T	T	46997202	2	4	203	1	0	0	0	0	0	0	0	1	12177	639	23	1		1	PNMAL2	19	46997202	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	3904061	46997202	12131781	122	99878											
ZSCAN18	65982	broad.mit.edu	37	chr19	58596563	58596563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggcagagtcggactccGcgtcctgggggtcctgcggg	3	7	19	12	5	0	1	0	0	0	1	4	2	3	2	3	6	1	1	3	6	0	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr19:58596563G>A	uc002qri.2	-	7	1331	c.1022C>T	c.(1021-1023)GCG>GTG	p.A341V	ZSCAN18_uc002qrj.3_Missense_Mutation_p.A340V|ZSCAN18_uc010yhs.1_Missense_Mutation_p.A205V|ZSCAN18_uc002qrh.2_Missense_Mutation_p.A341V|ZSCAN18_uc010yht.1_Missense_Mutation_p.A397V|ZSCAN18_uc002qrk.1_3'UTR|ZSCAN18_uc002qrl.2_3'UTR	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	341					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		GTCGGACTCCGCGTCCTGGGG	0.721													5	11					0	0	0.014758	0	0		A	58596563	A	A	58596563	3	1	203	1	0	0	0	0	1	0	0	0	18255	1087	38	1	514	1	ZSCAN18	19	58596563	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	11599361	58596563	532420	123	99879											
XKR7	343702	broad.mit.edu	37	chr20	30584668	30584668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagggccgcagccgccgccGcatgaccctctaccactgca	7	4	12	18	4	1	1	0	1	1	0	1	2	1	2	6	2	3	3	6	2	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr20:30584668G>A	uc002wxe.2	+	3	1322	c.1148G>A	c.(1147-1149)CGC>CAC	p.R383H		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	383						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AGCCGCCGCCGCATGACCCTC	0.577													13	42					0	0	0.013537	0	0		A	30584668	A	A	30584668	3	1	203	1	0	0	0	0	1	0	0	0	17462	1087	38	1	1158	1	XKR7	20	30584668	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08		30584668	32440852	124	99880											
C20orf185	359710	broad.mit.edu	37	chr20	31644485	31644485	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacggaggggtttttggcGttgtcgaggagctctctggg	4	11	18	8	3	1	0	0	0	1	0	3	3	1	2	1	6	1	3	1	6	0	3			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr20:31644485G>A	uc002wym.1	+	2	262	c.262G>A	c.(262-264)GTT>ATT	p.V88I		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	88	Leu-rich.				innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						GGTTTTTGGCGTTGTCGAGGA	0.577													8	45					0	0	0.004482	0	0		A	31644485	A	A	31644485	3	1	203	1	0	0	0	0	1	0	0	0	2100	1145	40	1	268	1	C20orf185	20	31644485	Missense_Mutation	SNP	G	TCGA-HU-8243-01A-11D-2340-08	1059817	31644485	31381035	125	99881											
RBL1	5933	broad.mit.edu	37	chr20	35632270	35632270	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gagagtggtggagcatccatCtaaaataacccaaaagtcag	16	7	10	8	0	2	1	1	0	1	1	3	3	3	2	2	2	2	1	2	2	5	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr20:35632270C>G	uc002xgi.2	-	21	2951	c.2872_splice	c.e21-1	p.M958_splice	RBL1_uc010zvt.1_Splice_Site|RBL1_uc002xgj.1_Intron	NM_002895	NP_002886	P28749	RBL1_HUMAN	retinoblastoma-like protein 1 isoform a						cell cycle|chromatin modification|interspecies interaction between organisms|regulation of cell cycle|regulation of lipid kinase activity|transcription, DNA-dependent		transcription factor binding			lung(5)|skin(3)|ovary(2)	10		Myeloproliferative disorder(115;0.00878)				GAGCATCCATCTAAAATAACC	0.368													8	69					0	0	0.004482	0	0		G	35632270	G	G	35632270	5	3	203	1	0	0	0	0	0	0	1	0	13134	927	32	5	352	5	RBL1	20	35632270	Splice_Site	SNP	C	TCGA-HU-8243-01A-11D-2340-08	3987785	35632270	27393250	126	99882											
SLC35C2	51006	broad.mit.edu	37	chr20	44987061	44987061	+	Missense_Mutation	SNP	T	A	A	0	1	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	gttgtagaaggtgatgccgaTggagaagcagtagtagagaa	14	8	16	3	1	0	4	0	1	0	3	0	7	0	4	1	2	2	5	1	2	6	4	rs147781798		TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr20:44987061T>A	uc002xro.2	-	2	626	c.85A>T	c.(85-87)ATC>TTC	p.I29F	SLC35C2_uc002xrp.2_Missense_Mutation_p.I29F|SLC35C2_uc002xrq.2_Missense_Mutation_p.I29F|SLC35C2_uc002xrr.2_Missense_Mutation_p.I29F|SLC35C2_uc010zxn.1_5'UTR|SLC35C2_uc010zxo.1_5'UTR|SLC35C2_uc010zxp.1_Missense_Mutation_p.I58F	NM_173179	NP_775271	Q9NQQ7	S35C2_HUMAN	solute carrier family 35, member C2 isoform a	29	Helical; (Potential).				transport	integral to membrane				ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GTGATGCCGATGGAGAAGCAG	0.612													18	79					0	0	0.008871	0	0		A	44987061	A	A	44987061	3	1	203	1	0	0	0	0	1	0	0	0	14605	1464	51	5	1048	5	SLC35C2	20	44987061	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	9354791	44987061	18038459	127	99883											
SYCP2	10388	broad.mit.edu	37	chr20	58495501	58495501	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatcttccaacagaaacCaaaatggctgaaacattgtg	16	8	6	11	0	1	2	0	1	1	1	2	2	2	2	3	1	3	1	3	1	5	2			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr20:58495501C>T	uc002yaz.2	-	4	349	c.210G>A	c.(208-210)TTG>TTA	p.L70L	SYCP2_uc010gju.1_5'Flank	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	70					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			CAACAGAAACCAAAATGGCTG	0.303													11	36					0	0	0.008291	0	0		T	58495501	T	T	58495501	2	4	203	1	0	0	0	0	0	0	0	1	15457	593	21	4		4	SYCP2	20	58495501	Silent	SNP	C	TCGA-HU-8243-01A-11D-2340-08	13508440	58495501	4530019	128	99884											
TMPRSS15	5651	broad.mit.edu	37	chr21	19653455	19653455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacaatttcatctattaatCgagggactgtttgaggagag	12	13	11	5	1	2	3	1	2	1	1	3	6	2	4	0	2	0	1	0	2	3	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr21:19653455C>T	uc002ykw.2	-	22	2601	c.2570G>A	c.(2569-2571)CGA>CAA	p.R857Q		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	857	Extracellular (Potential).|Peptidase S1.				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						ATCTATTAATCGAGGGACTGT	0.393													70	93					0	0	0.01441	0	0		T	19653455	T	T	19653455	3	4	203	1	0	0	0	0	1	0	0	0	16271	884	31	1	505	1	TMPRSS15	21	19653455	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		19653455	28476440	129	99885											
GRIK1	2897	broad.mit.edu	37	chr21	31066220	31066220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaaaatagttacctctcCgcgaggcttcaaaactatca	13	10	8	10	2	3	0	2	0	1	0	4	2	3	1	2	2	2	2	2	2	7	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr21:31066220C>T	uc002yno.1	-	2	745	c.281G>A	c.(280-282)CGG>CAG	p.R94Q	GRIK1_uc002ynn.2_Missense_Mutation_p.R94Q|GRIK1_uc011acs.1_Missense_Mutation_p.R94Q|GRIK1_uc011act.1_Intron|GRIK1_uc010glq.1_Intron|GRIK1_uc002ynr.2_Missense_Mutation_p.R94Q	NM_000830	NP_000821	P39086	GRIK1_HUMAN	glutamate receptor, ionotropic, kainate 1	94	Extracellular (Potential).				central nervous system development|synaptic transmission	cell junction|postsynaptic membrane	kainate selective glutamate receptor activity			large_intestine(1)|ovary(1)|skin(1)	3					L-Glutamic Acid(DB00142)|Topiramate(DB00273)	GTTACCTCTCCGCGAGGCTTC	0.433													29	87					0	0	0.010818	0	0		T	31066220	T	T	31066220	3	4	203	1	0	0	0	0	1	0	0	0	6789	652	23	1	2699	1	GRIK1	21	31066220	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08	11412765	31066220	17063675	130	99886											
GART	2618	broad.mit.edu	37	chr21	34889792	34889792	+	Missense_Mutation	SNP	T	A	A	0	1	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	aagctattccaacaacaacaTcaccctcagtgattctttcc	13	11	3	14	0	3	1	2	1	1	0	5	1	5	1	3	0	4	1	3	0	5	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr21:34889792T>A	uc002yrx.2	-	15	1961	c.1826A>T	c.(1825-1827)GAT>GTT	p.D609V	GART_uc002yrz.2_Missense_Mutation_p.D609V|GART_uc010gmd.2_Missense_Mutation_p.D271V|GART_uc002yry.2_Missense_Mutation_p.D609V	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	609	AIRS.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	AACAACAACATCACCCTCAGT	0.488													23	184					0	0	0.012319	0	0		A	34889792	A	A	34889792	3	1	203	1	0	0	0	0	1	0	0	0	6258	1435	50	5	1238	5	GART	21	34889792	Missense_Mutation	SNP	T	TCGA-HU-8243-01A-11D-2340-08	3823572	34889792	13240103	131	99887											
DGCR8	54487	broad.mit.edu	37	chr22	20079078	20079078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaaatgaagcggaagcaggCggagtccgagaggcccatct	12	4	16	9	3	1	2	0	1	1	1	2	6	2	5	2	5	2	1	2	5	3	0			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chr22:20079078C>T	uc002zri.2	+	6	1777	c.1427C>T	c.(1426-1428)GCG>GTG	p.A476V	DGCR8_uc010grz.2_Missense_Mutation_p.A476V|DGCR8_uc002zrj.2_Missense_Mutation_p.A119V	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	476	Necessary for heme-binding and pri-miRNA processing.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					CGGAAGCAGGCGGAGTCCGAG	0.473													84	207					0	0	0.01441	0	0		T	20079078	T	T	20079078	3	4	203	1	0	0	0	0	1	0	0	0	4470	768	27	1	1445	1	DGCR8	22	20079078	Missense_Mutation	SNP	C	TCGA-HU-8243-01A-11D-2340-08		20079078	31225488	132	99888											
CCDC22	28952	broad.mit.edu	37	chrX	49099415	49099415	+	Frame_Shift_Del	DEL	G	-	-																															ggaccagctggcactgccttGggtcccgccccaccttcgca																										TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chrX:49099415delG	uc004dnd.1	+	4	581	c.425delG	c.(424-426)TGGfs	p.W142fs	CCDC22_uc011mna.1_Frame_Shift_Del_p.W142fs|CCDC22_uc004dnc.1_RNA	NM_014008	NP_054727	O60826	CCD22_HUMAN	coiled-coil domain containing 22	142										central_nervous_system(1)	1						GCACTGCCTTGGGTCCCGCCC	0.592													2	4	---	---	---	---						.	-	49099415	-	-	49099415	7	5	203	1	0	1	0	1	0	0	0	0	2800	1357	47	0	439	0	CCDC22	23	49099415	Frame_Shift_Del	DEL	G	TCGA-HU-8243-01A-11D-2340-08		49099415	106171145	133	99889											
MAGEE1	57692	broad.mit.edu	37	chrX	75650189	75650189	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggaggctttccatttttggGaacccaaagagacttctgtc	10	12	10	9	0	1	1	0	0	1	1	3	4	2	3	2	3	1	1	2	3	2	4			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chrX:75650189G>A	uc004ecm.1	+	1	2073	c.1866G>A	c.(1864-1866)GGG>GGA	p.G622G		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	622	MAGE 1.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						CCATTTTTGGGAACCCAAAGA	0.488													8	22					0	0	0.004482	0	0		A	75650189	A	A	75650189	2	1	203	1	0	0	0	0	0	0	0	1	9203	1161	41	4		4	MAGEE1	23	75650189	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	26550774	75650189	79620371	134	99890											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299671	125299671	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctcgggcagcctctggacGgcgtagccccgcagctcgcc	5	5	14	17	5	1	0	0	0	1	0	3	1	1	1	4	3	4	5	4	3	1	1			TCGA-HU-8243-01A-11D-2340-08	TCGA-HU-8243-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	9635cfd4-3d26-4fc6-846c-fd74d5b60098	a711abd1-f1c2-4e42-8b66-79b4514ac1c4	g.chrX:125299671G>C	uc004euk.1	-	1	264	c.237C>G	c.(235-237)GCC>GCG	p.A79A		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	79										lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GCCTCTGGACGGCGTAGCCCC	0.701													11	8					0	0	0.010729	0	0		C	125299671	C	C	125299671	2	2	203	1	0	0	0	0	0	0	0	1	4268	1103	39	5		5	DCAF12L2	23	125299671	Silent	SNP	G	TCGA-HU-8243-01A-11D-2340-08	49649482	125299671	29970889	135	99891											
CAMTA1	23261	broad.mit.edu	37	chr1	7725097	7725097	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtagcccccagcagggtagCctgcagctgagcagctcgga	8	6	14	13	1	0	1	0	1	0	0	1	2	0	2	3	2	7	7	3	2	2	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:7725097C>T	uc001aoi.2	+	9	2697	c.2490C>T	c.(2488-2490)AGC>AGT	p.S830S		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	830					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		AGCAGGGTAGCCTGCAGCTGA	0.716													35	100					0	0	0.017118	0	0		T	7725097	T	T	7725097	2	4	204	1	0	0	0	0	0	0	0	1	2616	738	26	2		2	CAMTA1	1	7725097	Silent	SNP	C	TCGA-HU-8245-01A-11D-2340-08		7725097	241525524	1	99892											
RSPO1	284654	broad.mit.edu	37	chr1	38082187	38082187	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatgtcggggttgcgggcGtcgaagtatccaggtgggca	6	10	17	8	4	1	0	1	0	0	0	4	1	2	0	1	5	1	3	1	5	2	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:38082187G>A	uc001cbl.1	-	5	1043	c.255C>T	c.(253-255)GAC>GAT	p.D85D	RSPO1_uc001cbm.1_Silent_p.D85D|RSPO1_uc009vvf.1_Silent_p.D58D|RSPO1_uc009vvg.1_Silent_p.D85D	NM_001038633	NP_001033722	Q2MKA7	RSPO1_HUMAN	R-spondin1 precursor	85	FU 1.				positive regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization		heparin binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GGTTGCGGGCGTCGAAGTATC	0.612													22	56					0	0	0.014323	0	0		A	38082187	A	A	38082187	2	1	204	1	0	0	0	0	0	0	0	1	13734	1136	40	1		1	RSPO1	1	38082187	Silent	SNP	G	TCGA-HU-8245-01A-11D-2340-08	30357090	38082187	211168434	2	99893											
SLC2A1	6513	broad.mit.edu	37	chr1	43396861	43396861	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggacccatgtctggttgTagaactcctcgatcacctgc	7	11	11	12	1	2	1	1	0	1	1	4	3	3	2	3	3	2	2	3	3	2	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:43396861T>C	uc001cik.2	-	3	656	c.131A>G	c.(130-132)TAC>TGC	p.Y44C		NM_006516	NP_006507	P11166	GTR1_HUMAN	solute carrier family 2 (facilitated glucose	44	Extracellular (Potential).				carbohydrate metabolic process|energy reserve metabolic process|regulation of insulin secretion|water-soluble vitamin metabolic process	integral to membrane|melanosome|membrane fraction|midbody	D-glucose transmembrane transporter activity|dehydroascorbic acid transporter activity			central_nervous_system(2)|pancreas(2)|ovary(1)	5	Ovarian(52;0.00579)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0122)			Etomidate(DB00292)	TGTCTGGTTGTAGAACTCCTC	0.607											OREG0013425	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	28					0	0	0.049695	0	0		C	43396861	C	C	43396861	3	2	204	1	0	0	0	0	1	0	0	0	14563	1638	57	3	1379	3	SLC2A1	1	43396861	Missense_Mutation	SNP	T	TCGA-HU-8245-01A-11D-2340-08	5314674	43396861	205853760	3	99894											
LRRC7	57554	broad.mit.edu	37	chr1	70504365	70504365	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttctcaaatccactgccGcccggaatcttctaaaggtg	9	12	7	13	2	3	0	1	0	3	0	5	1	4	1	3	2	1	0	3	2	4	4	rs141932871		TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:70504365G>A	uc001dep.2	+	19	2774	c.2744G>A	c.(2743-2745)CGC>CAC	p.R915H	LRRC7_uc009wbg.2_Missense_Mutation_p.R199H|LRRC7_uc001deq.2_Missense_Mutation_p.R156H	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	915						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						ATCCACTGCCGCCCGGAATCT	0.403													29	72					0	0	0.030593	0	0		A	70504365	A	A	70504365	3	1	204	1	0	0	0	0	1	0	0	0	9038	1087	38	1	2818	1	LRRC7	1	70504365	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08	27107504	70504365	178746256	4	99895											
COL11A1	1301	broad.mit.edu	37	chr1	103484413	103484413	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtggtccttcgacaagcatAccctataacaggaaaagaga	15	7	10	9	1	0	1	0	0	0	1	2	4	1	2	2	3	3	1	2	3	6	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:103484413A>T	uc001dul.2	-	10	1629	c.1311T>A	c.(1309-1311)GGT>GGA	p.G437G	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.G449G|COL11A1_uc001dun.2_Silent_p.G398G|COL11A1_uc009weh.2_Silent_p.G321G	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	437	Triple-helical region (interrupted).				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CGACAAGCATACCCTATAACA	0.328													11	57					0	0	0.013537	0	0		T	103484413	T	T	103484413	2	4	204	1	0	0	0	0	0	0	0	1	3670	378	14	5		5	COL11A1	1	103484413	Silent	SNP	A	TCGA-HU-8245-01A-11D-2340-08	32980048	103484413	145766208	5	99896											
HRNR	388697	broad.mit.edu	37	chr1	152187663	152187663	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgagctagatccgtgtcGttcacccctagatgactgtc	8	11	9	13	2	1	4	1	2	0	2	4	4	2	4	4	0	1	2	4	0	2	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:152187663G>A	uc001ezt.1	-	3	6518	c.6442C>T	c.(6442-6444)CGA>TGA	p.R2148*		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	2148					keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATCCGTGTCGTTCACCCCTA	0.587													37	745					0	0	0.023175	0	0		A	152187663	A	A	152187663	4	1	204	1	0	0	0	0	0	1	0	0	7375	1153	40	1	2114	1	HRNR	1	152187663	Nonsense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08	48703250	152187663	97062958	6	99897											
IGSF9	57549	broad.mit.edu	37	chr1	159912835	159912835	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aatccaaagcgcagccactcGatgacatgcagggggggccg	11	4	14	12	3	0	1	0	1	0	0	2	2	1	1	3	3	3	2	3	3	2	0	rs143816509		TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:159912835G>A	uc001fur.2	-	3	363	c.165C>T	c.(163-165)ATC>ATT	p.I55I	IGSF9_uc001fuq.2_Silent_p.I55I	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	55	Ig-like 1.|Extracellular (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			GCAGCCACTCGATGACATGCA	0.517													10	34					0	0	0.010729	0	0		A	159912835	A	A	159912835	2	1	204	1	0	0	0	0	0	0	0	1	7621	1048	37	1		1	IGSF9	1	159912835	Silent	SNP	G	TCGA-HU-8245-01A-11D-2340-08	7725172	159912835	89337786	7	99898											
CACNA1E	777	broad.mit.edu	37	chr1	181767666	181767666	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaccgagtcttccaactCtccgcacccccagcagagcc	8	6	7	20	2	2	2	0	1	2	1	4	3	3	2	7	0	3	2	7	0	1	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:181767666C>A	uc001gow.2	+	47	6674	c.6509C>A	c.(6508-6510)TCT>TAT	p.S2170Y	CACNA1E_uc009wxs.2_Missense_Mutation_p.S2058Y|CACNA1E_uc009wxt.2_Missense_Mutation_p.S1439Y	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2213	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6						TCTTCCAACTCTCCGCACCCC	0.622													17	47					6.49762e-13	6.94064e-13	0.038395	1	0		A	181767666	A	A	181767666	3	1	204	1	0	0	0	0	1	0	0	0	2545	913	32	5	6695	5	CACNA1E	1	181767666	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	21854831	181767666	67482955	8	99899											
HMCN1	83872	broad.mit.edu	37	chr1	185946997	185946997	+	Missense_Mutation	SNP	A	G	G	1	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	gacattaccttgttatgttcAgggttatccagaaccaacaa	13	12	7	9	0	1	1	1	0	0	1	2	2	2	1	3	1	3	3	3	1	6	5			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:185946997A>G	uc001grq.1	+	16	2679	c.2450A>G	c.(2449-2451)CAG>CGG	p.Q817R	HMCN1_uc001grr.1_Missense_Mutation_p.Q158R	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	817	Ig-like C2-type 5.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TGTTATGTTCAGGGTTATCCA	0.393													10	106					0	0	0.006214	0	0		G	185946997	G	G	185946997	3	3	204	1	0	0	0	0	1	0	0	0	7236	188	7	3	2512	3	HMCN1	1	185946997	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08	4179331	185946997	63303624	9	99900											
KCNH1	3756	broad.mit.edu	37	chr1	211093223	211093223	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggattgtcttggtgtcctcGtcaaagatctcatagtcccc	7	13	9	12	2	3	1	2	0	2	1	7	2	5	2	3	2	0	0	3	2	2	3	rs138866428		TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr1:211093223G>A	uc001hib.2	-	7	1391	c.1221C>T	c.(1219-1221)GAC>GAT	p.D407D	KCNH1_uc001hic.2_Silent_p.D380D	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	407	Extracellular (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGGTGTCCTCGTCAAAGATCT	0.547													27	111					0	0	0.021523	0	0		A	211093223	A	A	211093223	2	1	204	1	0	0	0	0	0	0	0	1	8047	1136	40	1		1	KCNH1	1	211093223	Silent	SNP	G	TCGA-HU-8245-01A-11D-2340-08	25146226	211093223	38157398	10	99901											
KCNF1	3754	broad.mit.edu	37	chr2	11053671	11053671	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accatgaccaccgtcggctaCggcgacatctaccccaagac	11	5	8	17	4	1	2	0	1	1	1	2	3	1	2	5	2	2	1	5	2	3	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr2:11053671C>T	uc002rax.2	+	1	1609	c.1119C>T	c.(1117-1119)TAC>TAT	p.Y373Y		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	373	Selectivity filter (By similarity).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		CCGTCGGCTACGGCGACATCT	0.602													35	40					0	0	0.021022	0	0		T	11053671	T	T	11053671	2	4	204	1	0	0	0	0	0	0	0	1	8042	547	19	1		1	KCNF1	2	11053671	Silent	SNP	C	TCGA-HU-8245-01A-11D-2340-08		11053671	232145702	11	99902											
QPCT	25797	broad.mit.edu	37	chr2	37586990	37586990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccttagacaagaaactcCtttccttaaaggtatctgtt	11	14	7	9	0	1	2	0	0	1	2	3	2	3	2	3	1	2	2	3	1	6	5			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr2:37586990C>T	uc002rqg.2	+	3	657	c.535C>T	c.(535-537)CTT>TTT	p.L179F	QPCT_uc002rqh.2_Missense_Mutation_p.L130F	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	179					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)				CAAGAAACTCCTTTCCTTAAA	0.413													93	83					0	0	0.048971	0	0		T	37586990	T	T	37586990	3	4	204	1	0	0	0	0	1	0	0	0	12899	681	24	4	545	4	QPCT	2	37586990	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	26533319	37586990	205612383	12	99903											
NEB	4703	broad.mit.edu	37	chr2	152404896	152404896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccaagtgtatacccatatgCcttggtgtgttcataggctt	8	14	10	9	0	1	0	1	0	0	0	1	0	1	0	3	2	2	3	3	2	5	7			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr2:152404896C>T	uc010fnx.2	-	103	15171	c.14980G>A	c.(14980-14982)GCA>ACA	p.A4994T	NEB_uc002txr.2_Missense_Mutation_p.A1417T	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	4994					muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TACCCATATGCCTTGGTGTGT	0.433													12	54					0	0	0.013537	0	0		T	152404896	T	T	152404896	3	4	204	1	0	0	0	0	1	0	0	0	10321	739	26	2	5811	2	NEB	2	152404896	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	114817906	152404896	90794477	13	99904											
TTN	7273	broad.mit.edu	37	chr2	179622343	179622343	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgctttgcaagagtactgcCcagcatgctctgagtaagca	10	10	10	11	0	1	2	0	1	1	1	1	2	1	2	1	0	7	7	1	0	3	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr2:179622343C>A	uc010zfi.1	-	44	10690	c.10466G>T	c.(10465-10467)GGG>GTG	p.G3489V	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133432	NP_597676	Q8WZ42	TITIN_HUMAN	titin isoform novex-1	3571							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAGTACTGCCCAGCATGCTC	0.458													61	50					6.3091e-27	6.81673e-27	0.048971	1	0		A	179622343	A	A	179622343	3	1	204	1	0	0	0	0	1	0	0	0	16761	623	22	5	100656	5	TTN	2	179622343	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	27217447	179622343	63577030	14	99905											
CELSR3	1951	broad.mit.edu	37	chr3	48668088	48668088	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accaggctccgagacatagaGcaactcacggggaagcactg	13	4	12	12	2	1	2	1	0	0	2	2	4	2	3	2	3	3	3	2	3	3	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr3:48668088G>T	uc003cuf.1	-	46	11415	c.11415C>A	c.(11413-11415)TGC>TGA	p.C3805*	SLC26A6_uc003cug.2_Nonsense_Mutation_p.C379*|SLC26A6_uc003cuh.2_Nonsense_Mutation_p.C400*|SLC26A6_uc010hke.2_Nonsense_Mutation_p.C251*|SLC26A6_uc003cuk.2_Nonsense_Mutation_p.C293*|SLC26A6_uc003cui.2_Nonsense_Mutation_p.C400*|SLC26A6_uc003cuj.2_Nonsense_Mutation_p.C400*|SLC26A6_uc011bbp.1_Nonsense_Mutation_p.C364*	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GAGACATAGAGCAACTCACGG	0.527													3	8					0.004672	0.00472224	0.004672	1	0		T	48668088	T	T	48668088	4	4	204	1	0	0	0	0	0	1	0	0	3226	963	34	5		5	CELSR3	3	48668088	Nonsense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		48668088	149354342	15	99906											
MINA	84864	broad.mit.edu	37	chr3	97686239	97686239	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtgcagggtcatctctctGaatgagaaggggcttctgct	8	11	13	9	0	4	2	1	2	3	1	5	3	4	2	0	3	2	3	0	3	2	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr3:97686239G>A	uc003drz.1	-	2	705	c.199C>T	c.(199-201)CAG>TAG	p.Q67*	MINA_uc003dsa.1_Nonsense_Mutation_p.Q67*|MINA_uc003dsb.1_Nonsense_Mutation_p.Q67*|MINA_uc003dsc.1_Nonsense_Mutation_p.Q67*|MINA_uc010hpa.1_RNA|MINA_uc010hpb.1_Intron	NM_001042533	NP_001035998	Q8IUF8	MINA_HUMAN	MYC induced nuclear antigen isoform a	67					ribosome biogenesis	cytoplasm|nucleolus				ovary(1)	1						TCATCTCTCTGAATGAGAAGG	0.468													44	163					0	0	0.033182	0	0		A	97686239	A	A	97686239	4	1	204	1	0	0	0	0	0	1	0	0	9604	1299	45	4	1234	4	MINA	3	97686239	Nonsense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08	49018151	97686239	100336191	16	99907											
MYH15	22989	broad.mit.edu	37	chr3	108129642	108129642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcctggctgctgcagagCggaccttcccgaggtcagac	7	6	13	15	2	1	2	1	0	0	2	2	4	2	3	4	3	4	3	4	3	0	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr3:108129642C>T	uc003dxa.1	-	32	4400	c.4343G>A	c.(4342-4344)CGC>CAC	p.R1448H		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1448	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						TGCTGCAGAGCGGACCTTCCC	0.652													14	49					0	0	0.016723	0	0		T	108129642	T	T	108129642	3	4	204	1	0	0	0	0	1	0	0	0	10052	768	27	1	1541	1	MYH15	3	108129642	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	10443403	108129642	89892788	17	99908											
EPHA5	2044	broad.mit.edu	37	chr4	66467874	66467874	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgcagtcccgcagggtaAatttgagttctatgaagatt	10	14	11	6	1	1	3	0	2	1	1	2	3	2	3	1	1	1	5	1	1	4	6			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr4:66467874A>C	uc003hcy.2	-	3	588	c.395T>G	c.(394-396)TTT>TGT	p.F132C	EPHA5_uc003hcx.2_Missense_Mutation_p.F63C|EPHA5_uc003hcz.2_Missense_Mutation_p.F132C|EPHA5_uc011cah.1_Missense_Mutation_p.F132C|EPHA5_uc011cai.1_Missense_Mutation_p.F132C|EPHA5_uc003hda.2_Missense_Mutation_p.F132C	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	132	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CCGCAGGGTAAATTTGAGTTC	0.428										TSP Lung(17;0.13)			20	79					0	0	0.043863	0	0		C	66467874	C	C	66467874	3	2	204	1	0	0	0	0	1	0	0	0	5178	14	1	5	2782	5	EPHA5	4	66467874	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08		66467874	124686402	18	99909											
HNRPDL	9987	broad.mit.edu	37	chr4	83348624	83348625	+	Frame_Shift_Ins	INS	-	T	T																															tggtatctgctttctaacaaINStttttttactggctcttcat																										TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr4:83348624_83348625insT	uc003hmr.2	-	4	1402_1403	c.867_868insA	c.(865-870)AAATTGfs	p.K289fs	HNRPDL_uc003hmq.2_RNA|HNRPDL_uc003hms.2_RNA|HNRPDL_uc003hmt.2_Frame_Shift_Ins_p.K289fs	NM_031372	NP_112740	O14979	HNRDL_HUMAN	heterogeneous nuclear ribonucleoprotein D-like	289_290	RRM 2.				regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	cytoplasm|heterogeneous nuclear ribonucleoprotein complex	double-stranded DNA binding|nucleotide binding|poly(A) RNA binding|protein binding|single-stranded DNA binding			skin(1)	1		Hepatocellular(203;0.114)				CTTTCTAACAATTTTTTTACTG	0.287													20	30	---	---	---	---						.	T	83348625	T	T	83348624	7	5	204	1	0	1	1	0	0	0	0	0	7292	98	4	0	410	0	HNRPDL	4	83348624	Frame_Shift_Ins	INS	-	TCGA-HU-8245-01A-11D-2340-08	16880750	83348624	107805652	19	99910											
UNC5C	8633	broad.mit.edu	37	chr4	96127865	96127865	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagtgatgcatagtgaggaCgactgggcgggtgagcagag	10	6	19	6	2	0	4	0	3	0	1	0	6	0	5	0	3	2	3	0	3	1	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr4:96127865C>T	uc003htp.1	-	11	1970	c.1816G>A	c.(1816-1818)GTC>ATC	p.V606I	UNC5C_uc010ilc.1_Missense_Mutation_p.V625I	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	606	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ATAGTGAGGACGACTGGGCGG	0.592													23	25					0	0	0.016522	0	0		T	96127865	T	T	96127865	3	4	204	1	0	0	0	0	1	0	0	0	17019	536	19	1	1003	1	UNC5C	4	96127865	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	12779241	96127865	95026411	20	99911											
PRMT10	90826	broad.mit.edu	37	chr4	148575375	148575375	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctcattctgacagtgagtaTccatggtctgatacagtttc	9	15	8	9	0	3	3	1	3	3	0	6	3	4	3	1	1	1	2	1	1	2	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr4:148575375T>C	uc003ilc.2	-	9	1815	c.1673A>G	c.(1672-1674)GAT>GGT	p.D558G	PRMT10_uc003ilb.2_Missense_Mutation_p.D202G|PRMT10_uc003ild.2_Missense_Mutation_p.D445G	NM_138364	NP_612373	Q6P2P2	ANM10_HUMAN	protein arginine methyltransferase 10	558						cytoplasm	binding|protein methyltransferase activity			ovary(1)|central_nervous_system(1)	2						ACAGTGAGTATCCATGGTCTG	0.413													53	41					0	0	0.048971	0	0		C	148575375	C	C	148575375	3	2	204	1	0	0	0	0	1	0	0	0	12558	1435	50	3	880	3	PRMT10	4	148575375	Missense_Mutation	SNP	T	TCGA-HU-8245-01A-11D-2340-08	52447510	148575375	42578901	21	99912											
WDR17	116966	broad.mit.edu	37	chr4	177095813	177095813	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtggttacattggtgcattActggctatcagaagacagta	11	13	11	6	0	1	2	1	0	0	2	1	2	1	2	0	3	3	4	0	3	5	5			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr4:177095813A>C	uc003iuj.2	+	28	3666	c.3510A>C	c.(3508-3510)TTA>TTC	p.L1170F	WDR17_uc003iuk.2_Missense_Mutation_p.L1146F|WDR17_uc003ium.3_Missense_Mutation_p.L1131F|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.L381F	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	1170										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		TTGGTGCATTACTGGCTATCA	0.333													42	34					0	0	0.048971	0	0		C	177095813	C	C	177095813	3	2	204	1	0	0	0	0	1	0	0	0	17303	388	14	5	3616	5	WDR17	4	177095813	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08	28520438	177095813	14058463	22	99913											
IRF2	3660	broad.mit.edu	37	chr4	185339369	185339369	+	Splice_Site	SNP	T	A	A	0	1	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	tctgtctttggtttctttccTgtggcaacaaaaatgtagtt	8	18	8	7	0	3	0	0	0	3	0	4	0	4	0	1	2	1	4	1	2	4	5			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr4:185339369T>A	uc003iwf.3	-	5	565	c.365_splice	c.e5-1	p.G122_splice		NM_002199	NP_002190	P14316	IRF2_HUMAN	interferon regulatory factor 2						blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		GTTTCTTTCCTGTGGCAACAA	0.373													34	58					0	0	0.050027	0	0		A	185339369	A	A	185339369	5	1	204	1	0	0	0	0	0	0	1	0	7844	1594	55	5	706	5	IRF2	4	185339369	Splice_Site	SNP	T	TCGA-HU-8245-01A-11D-2340-08	8243556	185339369	5814907	23	99914											
CDH12	1010	broad.mit.edu	37	chr5	21854857	21854857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcactgtttccataggtcGggtcatctgcatctgtggcc	5	13	12	11	1	3	0	1	0	2	0	5	0	4	0	2	4	1	3	2	4	1	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr5:21854857G>A	uc010iuc.2	-	4	1027	c.569C>T	c.(568-570)CCG>CTG	p.P190L	CDH12_uc011cno.1_Intron|CDH12_uc003jgk.2_Missense_Mutation_p.P190L	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	190	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						TCCATAGGTCGGGTCATCTGC	0.403										HNSCC(59;0.17)			26	47					0	0	0.021523	0	0		A	21854857	A	A	21854857	3	1	204	1	0	0	0	0	1	0	0	0	3101	1116	39	1	1851	1	CDH12	5	21854857	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		21854857	159060403	24	99915											
APC	324	broad.mit.edu	37	chr5	112174471	112174471	+	Frame_Shift_Del	DEL	A	-	-																															cacataatagaagatgaaatAaaacaaagtgagcaaagaca																										TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr5:112174471delA	uc010jby.2	+	16	3560	c.3180delA	c.(3178-3180)ATAfs	p.I1060fs	APC_uc011cvt.1_Frame_Shift_Del_p.I1042fs|APC_uc003kpz.3_Frame_Shift_Del_p.I1060fs|APC_uc003kpy.3_Frame_Shift_Del_p.I1060fs|APC_uc010jbz.2_Frame_Shift_Del_p.I777fs|APC_uc010jca.2_Frame_Shift_Del_p.I360fs	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1060	Ser-rich.|Responsible for down-regulation through a process mediated by direct ubiquitination.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.Q1062fs*1(2)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		AAGATGAAATAAAACAAAGTG	0.363		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			19	28	---	---	---	---						.	-	112174471	-	-	112174471	7	5	204	1	0	1	0	1	0	0	0	0	763	352	13	0	3238	0	APC	5	112174471	Frame_Shift_Del	DEL	A	TCGA-HU-8245-01A-11D-2340-08	90319614	112174471	68740789	25	99916											
PCDH1	5097	broad.mit.edu	37	chr5	141243873	141243873	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gtaggtgctttgttgctctcGatcaaagctcaggctggata	8	13	12	8	1	3	0	2	0	1	0	4	2	3	1	0	3	3	6	0	3	3	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr5:141243873G>C	uc003llq.2	-	3	2140	c.2023C>G	c.(2023-2025)CGA>GGA	p.R675G	PCDH1_uc003llp.2_Missense_Mutation_p.R675G|PCDH1_uc011dbf.1_Missense_Mutation_p.R653G	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	675	Extracellular (Potential).|Cadherin 6.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		TGTTGCTCTCGATCAAAGCTC	0.557													27	40					0	0	0.027356	0	0		C	141243873	C	C	141243873	3	2	204	1	0	0	0	0	1	0	0	0	11525	1066	37	5	1786	5	PCDH1	5	141243873	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08	29069402	141243873	39671387	26	99917											
PDE6A	5145	broad.mit.edu	37	chr5	149276316	149276316	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacactcccatggctcCttcccatacacctctctggt	6	12	4	19	0	2	0	1	0	1	0	7	0	6	0	5	2	1	1	5	2	1	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr5:149276316C>T	uc003lrg.3	-	11	1551	c.1431G>A	c.(1429-1431)AAG>AAA	p.K477K		NM_000440	NP_000431	P16499	PDE6A_HUMAN	phosphodiesterase 6A	477					cytosolic calcium ion homeostasis|GMP metabolic process|platelet activation|signal transduction|visual perception	cytosol|plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			CCCATGGCTCCTTCCCATACA	0.522													49	105					0	0	0.048971	0	0		T	149276316	T	T	149276316	2	4	204	1	0	0	0	0	0	0	0	1	11664	680	24	4		4	PDE6A	5	149276316	Silent	SNP	C	TCGA-HU-8245-01A-11D-2340-08	8032443	149276316	31638944	27	99918											
DDR1	780	broad.mit.edu	37	chr6	30856549	30856549	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctttactgctgctgctcttgGtggcaagtggagatgctgac	6	13	13	9	0	1	2	0	1	1	1	1	3	1	2	0	3	5	5	0	3	2	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr6:30856549G>T	uc003nrr.2	+	3	302	c.43G>T	c.(43-45)GTG>TTG	p.V15L	DDR1_uc010jse.2_Missense_Mutation_p.V15L|DDR1_uc003nrq.2_Missense_Mutation_p.V15L|DDR1_uc003nrs.2_Missense_Mutation_p.V15L|DDR1_uc003nrt.2_Missense_Mutation_p.V15L|DDR1_uc011dms.1_Missense_Mutation_p.V33L|DDR1_uc011dmt.1_Missense_Mutation_p.V41L|DDR1_uc003nru.2_Missense_Mutation_p.V15L|DDR1_uc011dmu.1_Missense_Mutation_p.V15L|DDR1_uc003nrv.2_Missense_Mutation_p.V15L|DDR1_uc003nrw.1_5'Flank	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	15					cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	GCTGCTCTTGGTGGCAAGTGG	0.567													8	35					0.000157383	0.000162572	0.038147	1	0		T	30856549	T	T	30856549	3	4	204	1	0	0	0	0	1	0	0	0	4339	1261	44	5	45	5	DDR1	6	30856549	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		30856549	140258518	28	99919											
ITPR3	3710	broad.mit.edu	37	chr6	33638163	33638163	+	Missense_Mutation	SNP	A	C	C	1	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	agtacttggccatcgacgagAtctcccagcagctgggcgtg	8	8	13	12	3	1	1	0	0	1	1	3	3	1	1	2	2	3	3	2	2	1	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr6:33638163A>C	uc011drk.1	+	19	2470	c.2251A>C	c.(2251-2253)ATC>CTC	p.I751L		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	751	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CATCGACGAGATCTCCCAGCA	0.607													22	78					0	0	0.014323	0	0		C	33638163	C	C	33638163	3	2	204	1	0	0	0	0	1	0	0	0	7938	333	12	5	2325	5	ITPR3	6	33638163	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08	2781614	33638163	137476904	29	99920											
ZNF318	24149	broad.mit.edu	37	chr6	43333179	43333179	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cacagaccaggagagcgtctCtacaaaagtaaaggataata	18	6	9	8	1	1	2	0	0	1	2	2	4	1	3	1	2	2	1	1	2	7	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr6:43333179C>G	uc003oux.2	-	2	478	c.400_splice	c.e2-1	p.R134_splice	ZNF318_uc003ouw.2_Splice_Site	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318						meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			GAGAGCGTCTCTACAAAAGTA	0.408													8	52					0	0	0.038147	0	0		G	43333179	G	G	43333179	5	3	204	1	0	0	0	0	0	0	1	0	17861	927	32	5	6476	5	ZNF318	6	43333179	Splice_Site	SNP	C	TCGA-HU-8245-01A-11D-2340-08	9695016	43333179	127781888	30	99921											
PSMB1	5689	broad.mit.edu	37	chr6	170862307	170862307	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtctctgccaggagccgaAtacatggctgtagaggacaa	13	7	12	9	1	1	1	0	0	1	1	2	4	1	3	2	3	3	2	2	3	5	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr6:170862307A>T	uc011ehe.1	-	1	111	c.24T>A	c.(22-24)TAT>TAA	p.Y8*	PSMB1_uc003qxq.2_RNA|PSMB1_uc003qxr.2_5'Flank|TBP_uc003qxt.2_5'Flank|TBP_uc003qxu.2_5'Flank|TBP_uc011ehf.1_5'Flank	NM_002793	NP_002784	P20618	PSB1_HUMAN	proteasome beta 1 subunit precursor	8					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cell junction|cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity			ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.0563)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;7.5e-23)|BRCA - Breast invasive adenocarcinoma(81;4.88e-06)|GBM - Glioblastoma multiforme(31;0.00643)	Bortezomib(DB00188)	CAGGAGCCGAATACATGGCTG	0.597													3	15					0	0	0.004672	0	0		T	170862307	T	T	170862307	4	4	204	1	0	0	0	0	0	1	0	0	12696	108	4	5	725	5	PSMB1	6	170862307	Nonsense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08	127529128	170862307	252760	31	99922											
GIMAP5	55340	broad.mit.edu	37	chr7	150439921	150439921	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggatgcccagctgctccaaAgaactggagctggggcctgc	8	7	14	12	0	0	1	0	0	0	1	1	3	1	3	3	4	6	3	3	4	2	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr7:150439921A>C	uc003whr.1	+	3	1046	c.694A>C	c.(694-696)AGA>CGA	p.R232R	GIMAP5_uc010lpu.2_Silent_p.R90R	NM_018384	NP_060854	Q96F15	GIMA5_HUMAN	GTPase, IMAP family member 5	232	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane	GTP binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCTGCTCCAAAGAACTGGAGC	0.592													15	63					0	0	0.024245	0	0		C	150439921	C	C	150439921	2	2	204	1	0	0	0	0	0	0	0	1	6397	64	3	5		5	GIMAP5	7	150439921	Silent	SNP	A	TCGA-HU-8245-01A-11D-2340-08		150439921	8698742	32	99923											
OPRK1	4986	broad.mit.edu	37	chr8	54142312	54142312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacgaaggcaaagatgaagaCgcagatcttcatgaagaggt	16	6	12	7	2	2	6	1	2	1	4	2	7	2	6	0	2	0	2	0	2	4	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr8:54142312C>T	uc003xrh.1	-	3	1063	c.688G>A	c.(688-690)GTC>ATC	p.V230I	OPRK1_uc003xri.1_Missense_Mutation_p.V230I|OPRK1_uc010lyc.1_Missense_Mutation_p.V141I	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	230	Helical; Name=5; (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	AAGATGAAGACGCAGATCTTC	0.527													25	55					0	0	0.027356	0	0		T	54142312	T	T	54142312	3	4	204	1	0	0	0	0	1	0	0	0	10904	536	19	1	458	1	OPRK1	8	54142312	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08		54142312	92221710	33	99924											
TRHR	7201	broad.mit.edu	37	chr8	110100010	110100010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacagacagtatctacggttCctgggtctatggctatgttg	9	13	11	8	1	2	1	0	0	2	1	3	1	3	1	1	3	2	4	1	3	5	6			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr8:110100010C>T	uc003ymz.3	+	1	285	c.269C>T	c.(268-270)TCC>TTC	p.S90F		NM_003301	NP_003292	P34981	TRFR_HUMAN	thyrotropin-releasing hormone receptor	90	Extracellular (Potential).					integral to plasma membrane	thyrotropin-releasing hormone receptor activity			skin(2)|lung(1)	3			OV - Ovarian serous cystadenocarcinoma(57;2.3e-11)			ATCTACGGTTCCTGGGTCTAT	0.498													42	119					0	0	0.036044	0	0		T	110100010	T	T	110100010	3	4	204	1	0	0	0	0	1	0	0	0	16506	855	30	4	271	4	TRHR	8	110100010	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	55957698	110100010	36264012	34	99925											
RG9MTD3	158234	broad.mit.edu	37	chr9	37762114	37762114	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagtacggcatggtgctcGgtgagtgcgtgaattgcctg	6	10	17	8	3	0	2	0	2	0	0	1	2	0	2	1	4	4	4	1	4	2	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr9:37762114G>A	uc004aai.2	+	2	263	c.186G>A	c.(184-186)TCG>TCA	p.S62S	RG9MTD3_uc011lqo.1_Silent_p.S62S|RG9MTD3_uc011lqp.1_Silent_p.S62S|RG9MTD3_uc011lqq.1_Missense_Mutation_p.R33Q|RG9MTD3_uc004aaj.2_RNA|RG9MTD3_uc004aak.2_Missense_Mutation_p.G4S	NM_144964	NP_659401	Q6PF06	RG9D3_HUMAN	RNA (guanine-9-) methyltransferase domain	62							methyltransferase activity				0				GBM - Glioblastoma multiforme(29;0.00817)|Lung(182;0.226)		CATGGTGCTCGGTGAGTGCGT	0.527													4	20					0	0	0.009096	0	0		A	37762114	A	A	37762114	2	1	204	1	0	0	0	0	0	0	0	1	13298	1130	39	1		1	RG9MTD3	9	37762114	Silent	SNP	G	TCGA-HU-8245-01A-11D-2340-08		37762114	103451317	35	99926											
GRIN3A	116443	broad.mit.edu	37	chr9	104433226	104433226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ccatattccatagtccatgaCaatctttcccccctgccagc	9	11	4	17	0	1	1	0	1	1	0	4	1	4	1	7	0	2	0	7	0	3	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr9:104433226C>A	uc004bbp.1	-	3	2069	c.1468G>T	c.(1468-1470)GTC>TTC	p.V490F	GRIN3A_uc004bbq.1_Missense_Mutation_p.V490F	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	490	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	TAGTCCATGACAATCTTTCCC	0.498													65	139					7.59065e-32	8.29675e-32	0.048971	1	0		A	104433226	A	A	104433226	3	1	204	1	0	0	0	0	1	0	0	0	6799	478	17	5	1907	5	GRIN3A	9	104433226	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	66671112	104433226	36780205	36	99927											
DFNB31	25861	broad.mit.edu	37	chr9	117186780	117186780	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ctcgtgtctggttccccaggCtgctcagggtcacctgggag	4	10	14	13	1	3	0	2	0	1	0	5	1	4	1	3	4	1	3	3	4	0	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr9:117186780C>A	uc004biz.3	-	6	1899	c.1250G>T	c.(1249-1251)AGC>ATC	p.S417I	DFNB31_uc004bix.2_Missense_Mutation_p.S66I|DFNB31_uc004biy.3_Missense_Mutation_p.S34I|DFNB31_uc004bja.3_Missense_Mutation_p.S417I	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	417					inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						GTTCCCCAGGCTGCTCAGGGT	0.582													9	19					2.74318e-10	2.89729e-10	0.006214	1	0		A	117186780	A	A	117186780	3	1	204	1	0	0	0	0	1	0	0	0	4461	797	28	5	1501	5	DFNB31	9	117186780	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	12753554	117186780	24026651	37	99928											
FRMD4A	55691	broad.mit.edu	37	chr10	13698676	13698676	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggcatcctggtgaccctGctgtgcgccacgaaggtgct	5	9	15	12	2	0	1	0	1	0	0	1	2	1	1	3	4	3	3	3	4	1	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr10:13698676G>A	uc001ims.2	-	22	3265	c.2913C>T	c.(2911-2913)AGC>AGT	p.S971S	FRMD4A_uc009xjf.1_Silent_p.S971S	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	971	Ser-rich.					cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						TGGTGACCCTGCTGTGCGCCA	0.672													8	4					0	0	0.038147	0	0		A	13698676	A	A	13698676	2	1	204	1	0	0	0	0	0	0	0	1	6065	1310	46	2		2	FRMD4A	10	13698676	Silent	SNP	G	TCGA-HU-8245-01A-11D-2340-08		13698676	121836071	38	99929											
OR9Q2	219957	broad.mit.edu	37	chr11	57958374	57958374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatgtcaccatcataaccGagaaggcccgctggggccta	10	9	10	12	2	2	1	2	0	0	1	2	2	2	1	4	3	1	1	4	3	4	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr11:57958374G>A	uc010rka.1	+	1	412	c.412G>A	c.(412-414)GAG>AAG	p.E138K		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				CATCATAACCGAGAAGGCCCG	0.547													22	84					0	0	0.055883	0	0		A	57958374	A	A	57958374	3	1	204	1	0	0	0	0	1	0	0	0	11275	1059	37	1	414	1	OR9Q2	11	57958374	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		57958374	77048142	39	99930											
TMEM138	51524	broad.mit.edu	37	chr11	61133663	61133663	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgtgtactttgccctcaGcatctcccttcatgtctggg	5	14	9	13	0	4	0	2	0	2	0	5	0	4	0	2	1	4	3	2	1	1	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr11:61133663G>A	uc001nrl.1	+	3	451	c.275G>A	c.(274-276)AGC>AAC	p.S92N	TMEM138_uc010rli.1_Missense_Mutation_p.S92N|TMEM138_uc001nrm.2_Missense_Mutation_p.S92N	NM_016464	NP_057548	Q9NPI0	TM138_HUMAN	transmembrane protein 138	92	Helical; (Potential).					integral to membrane					0						TTTGCCCTCAGCATCTCCCTT	0.363													30	105					0	0	0.050027	0	0		A	61133663	A	A	61133663	3	1	204	1	0	0	0	0	1	0	0	0	16078	971	34	2	281	2	TMEM138	11	61133663	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08	3175289	61133663	73872853	40	99931											
MAP3K11	4296	broad.mit.edu	37	chr11	65375465	65375465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcttgttaacagctacgcCataggccacagcaaggcagt	12	7	11	11	1	0	0	0	0	0	0	0	1	0	0	2	2	5	5	2	2	4	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr11:65375465C>T	uc001oew.2	-	3	1490	c.997G>A	c.(997-999)GGC>AGC	p.G333S	MAP3K11_uc001oev.2_5'Flank|MAP3K11_uc010rol.1_Missense_Mutation_p.G76S|MAP3K11_uc001oex.1_5'UTR	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	333	Protein kinase.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						ACAGCTACGCCATAGGCCACA	0.607													11	45					0	0	0.008291	0	0		T	65375465	T	T	65375465	3	4	204	1	0	0	0	0	1	0	0	0	9263	594	21	4	1578	4	MAP3K11	11	65375465	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	4241802	65375465	69631051	41	99932											
MMP10	4319	broad.mit.edu	37	chr11	102643648	102643648	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaaacagctgcatcaatttTccttatggttggaggaaaac	14	11	9	7	0	1	1	1	0	0	1	2	3	2	3	1	3	4	3	1	3	5	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr11:102643648T>C	uc001phg.1	-	8	1178	c.1156A>G	c.(1156-1158)AAA>GAA	p.K386E		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein	386					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)		GCATCAATTTTCCTTATGGTT	0.413													49	132					0	0	0.048971	0	0		C	102643648	C	C	102643648	3	2	204	1	0	0	0	0	1	0	0	0	9667	1792	62	3	286	3	MMP10	11	102643648	Missense_Mutation	SNP	T	TCGA-HU-8245-01A-11D-2340-08	37268183	102643648	32362868	42	99933											
KIAA1826	84437	broad.mit.edu	37	chr11	105880559	105880559	+	Missense_Mutation	SNP	A	C	C	1	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	ttctctagctgaagccgctcAtgttccatgtctaaatgccg	8	13	8	12	2	3	1	1	1	2	0	5	1	4	1	3	0	3	3	3	0	4	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr11:105880559A>C	uc001piy.2	-	3	914	c.741T>G	c.(739-741)CAT>CAG	p.H247Q	KIAA1826_uc001piz.2_Missense_Mutation_p.H247Q	NM_032424	NP_115800	Q8NCY6	K1826_HUMAN	hypothetical protein LOC84437	247	Potential.					nucleus				breast(1)	1		Melanoma(852;0.000878)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0321)		BRCA - Breast invasive adenocarcinoma(274;5.56e-05)|Epithelial(105;0.00432)|all cancers(92;0.0309)		GAAGCCGCTCATGTTCCATGT	0.468													40	90					0	0	0.030466	0	0		C	105880559	C	C	105880559	3	2	204	1	0	0	0	0	1	0	0	0	8276	214	8	5	300	5	KIAA1826	11	105880559	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08	3236911	105880559	29125957	43	99934											
KRT2	3849	broad.mit.edu	37	chr12	53045826	53045826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagctggaagttgatctcCggcttccaccagacaccaca	12	7	9	13	1	1	3	0	1	1	2	3	4	2	4	4	2	1	3	4	2	2	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr12:53045826C>T	uc001sat.2	-	1	134	c.101G>A	c.(100-102)CGG>CAG	p.R34Q		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	34	Head.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		AGTTGATCTCCGGCTTCCACC	0.517													10	18					0	0	0.006214	0	0		T	53045826	T	T	53045826	3	4	204	1	0	0	0	0	1	0	0	0	8473	652	23	1	1854	1	KRT2	12	53045826	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08		53045826	80806069	44	99935											
ANKS1B	56899	broad.mit.edu	37	chr12	100200338	100200338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaccactctaagccgtccGtagagtgccgccaagtccaa	10	9	8	14	3	1	1	0	0	1	1	3	1	3	1	6	0	3	1	6	0	5	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr12:100200338G>A	uc001tge.1	-	4	930	c.513C>T	c.(511-513)TAC>TAT	p.Y171Y	ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Silent_p.Y171Y	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	171	ANK 5.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TAAGCCGTCCGTAGAGTGCCG	0.488													19	52					0	0	0.043863	0	0		A	100200338	A	A	100200338	2	1	204	1	0	0	0	0	0	0	0	1	689	1140	40	1		1	ANKS1B	12	100200338	Silent	SNP	G	TCGA-HU-8245-01A-11D-2340-08	47154512	100200338	33651557	45	99936											
FZD10	11211	broad.mit.edu	37	chr12	130647618	130647618	+	Missense_Mutation	SNP	A	G	G	1	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	cgagatcccgatgtgcaaggAcatcggctacaacatgactc	12	7	10	12	3	0	2	0	1	0	1	3	5	1	3	1	2	3	2	1	2	3	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr12:130647618A>G	uc001uii.2	+	1	587	c.131A>G	c.(130-132)GAC>GGC	p.D44G	uc001uig.1_5'Flank|uc001uih.1_5'Flank	NM_007197	NP_009128	Q9ULW2	FZD10_HUMAN	frizzled 10 precursor	44	FZ.|Extracellular (Potential).				brain development|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|gonad development|negative regulation of Rho GTPase activity|neuron differentiation|non-canonical Wnt receptor signaling pathway|positive regulation of JUN kinase activity|positive regulation of Rac GTPase activity|regulation of actin cytoskeleton organization|vasculature development	cell projection|cell surface|cytoplasm|integral to plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			lung(3)|breast(1)|central_nervous_system(1)	5	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.3e-06)|Epithelial(86;1.66e-05)|all cancers(50;5.18e-05)		ATGTGCAAGGACATCGGCTAC	0.632													5	40					0	0	0.014758	0	0		G	130647618	G	G	130647618	3	3	204	1	0	0	0	0	1	0	0	0	6143	275	10	3	133	3	FZD10	12	130647618	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08	30447280	130647618	3204277	46	99937											
CCNA1	8900	broad.mit.edu	37	chr13	37006834	37006834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gagaagagtatctcagctggGaaggaccggggctcccagat	11	6	15	9	1	1	3	1	0	1	3	3	6	2	5	2	4	1	3	2	4	3	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr13:37006834G>A	uc001uvr.3	+	1	426	c.76G>A	c.(76-78)GAA>AAA	p.E26K	CCNA1_uc010teo.1_Intron|CCNA1_uc010abq.2_Intron|CCNA1_uc010abp.2_Intron|CCNA1_uc001uvs.3_Missense_Mutation_p.E26K|CCNA1_uc010abr.2_RNA	NM_003914	NP_003905	P78396	CCNA1_HUMAN	cyclin A1 isoform a	26					cell division|G2/M transition of mitotic cell cycle|male meiosis I|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|spermatogenesis	cytosol|microtubule cytoskeleton|nucleoplasm	protein kinase binding			lung(2)|skin(2)|ovary(1)	5		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.91e-07)|Epithelial(112;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0119)|GBM - Glioblastoma multiforme(144;0.0242)		TCTCAGCTGGGAAGGACCGGG	0.552													5	14					0	0	0.021553	0	0		A	37006834	A	A	37006834	3	1	204	1	0	0	0	0	1	0	0	0	2912	1175	41	4	78	4	CCNA1	13	37006834	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		37006834	78163044	47	99938											
OXGR1	27199	broad.mit.edu	37	chr13	97639925	97639925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggtagtgcatcttgagtGggatgttttcatcagtgcaa	9	13	14	5	0	3	1	2	1	1	0	3	3	3	3	0	3	2	4	0	3	2	4			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr13:97639925G>A	uc001vmx.1	-	4	333	c.89C>T	c.(88-90)CCA>CTA	p.P30L	OXGR1_uc010afr.1_Missense_Mutation_p.P30L	NM_080818	NP_543008	Q96P68	OXGR1_HUMAN	oxoglutarate (alpha-ketoglutarate) receptor 1	30	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.186)			CATCTTGAGTGGGATGTTTTC	0.408													16	64					0	0	0.024245	0	0		A	97639925	A	A	97639925	3	1	204	1	0	0	0	0	1	0	0	0	11351	1348	47	4	928	4	OXGR1	13	97639925	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08	60633091	97639925	17529953	48	99939											
CCDC102A	92922	broad.mit.edu	37	chr16	57552022	57552022	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctggctggccctcaggtcGcagtccagtgcgctggctgt	3	9	15	14	2	1	0	1	0	0	0	3	0	2	0	3	4	1	4	3	4	0	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr16:57552022G>A	uc002elw.2	-	6	1419	c.1206C>T	c.(1204-1206)TGC>TGT	p.C402C		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	402										ovary(1)	1						CCCTCAGGTCGCAGTCCAGTG	0.687													18	112					0	0	0.038395	0	0		A	57552022	A	A	57552022	2	1	204	1	0	0	0	0	0	0	0	1	2739	1079	38	1		1	CCDC102A	16	57552022	Silent	SNP	G	TCGA-HU-8245-01A-11D-2340-08		57552022	32802731	49	99940											
COX4NB	10328	broad.mit.edu	37	chr16	85813362	85813362	+	Silent	SNP	A	G	G	1	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	atctctgggtttgtccagtcAttccgaatgtcatccaggtg	7	14	10	10	1	3	0	2	0	1	0	7	1	6	0	3	2	0	1	3	2	1	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr16:85813362A>G	uc002fjd.2	-	5	832	c.585T>C	c.(583-585)AAT>AAC	p.N195N	COX4NB_uc010vol.1_3'UTR	NM_006067	NP_006058	O43402	CX4NB_HUMAN	COX4 neighbor isoform 1	195						mitochondrion|nucleus					0						TTGTCCAGTCATTCCGAATGT	0.547													10	58					0	0	0.006214	0	0		G	85813362	G	G	85813362	2	3	204	1	0	0	0	0	0	0	0	1	3774	214	8	3		3	COX4NB	16	85813362	Silent	SNP	A	TCGA-HU-8245-01A-11D-2340-08	28261340	85813362	4541391	50	99941											
MAP2K4	6416	broad.mit.edu	37	chr17	11984671	11984671	+	Splice_Site	SNP	A	G	G	1	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	ttgcttcccaatattttaacAgagagagactgagaacacac	15	10	7	9	0	0	3	0	1	0	3	1	6	1	3	1	0	3	1	1	0	4	5			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr17:11984671A>G	uc002gnj.2	+	3	288	c.219_splice	c.e3-2	p.I73_splice	MAP2K4_uc002gnk.2_Splice_Site_p.I84_splice|MAP2K4_uc010vvi.1_Splice_Site|MAP2K4_uc010vvj.1_Intron|MIR744_hsa-mir-744|MI0005559_5'Flank	NM_003010	NP_003001	P45985	MP2K4_HUMAN	mitogen-activated protein kinase kinase 4						cellular response to mechanical stimulus|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|JUN kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(14)|breast(12)|lung(8)|ovary(8)|pancreas(8)|stomach(2)|central_nervous_system(1)|biliary_tract(1)|testis(1)|endometrium(1)|urinary_tract(1)|skin(1)	58		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)		ATATTTTAACAGAGAGAGACT	0.353			D|Mis|N		pancreatic|breast|colorectal								16	41					0	0	0.028581	0	0		G	11984671	G	G	11984671	5	3	204	1	0	0	0	0	0	0	1	0	9257	202	7	3	227	3	MAP2K4	17	11984671	Splice_Site	SNP	A	TCGA-HU-8245-01A-11D-2340-08		11984671	69210539	51	99942											
TBC1D26	353149	broad.mit.edu	37	chr17	15641610	15641610	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagctgtctcaaagagtatAcaaagtcattcccctggcgg	11	10	10	10	1	2	1	2	0	1	1	4	1	3	1	2	2	2	3	2	2	5	4	rs146288175	by1000genomes	TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr17:15641610A>G	uc010cov.2	+	7	546	c.296A>G	c.(295-297)TAC>TGC	p.Y99C	TBC1D26_uc010cou.1_Missense_Mutation_p.Y99C|TBC1D26_uc002gpb.3_RNA	NM_178571	NP_848666	Q86UD7	TBC26_HUMAN	TBC1 domain family, member 26	99						intracellular	Rab GTPase activator activity				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0822)|READ - Rectum adenocarcinoma(1115;0.0222)|BRCA - Breast invasive adenocarcinoma(8;0.078)		CAAAGAGTATACAAAGTCATT	0.527													4	29					0	0	0.008291	0	0		G	15641610	G	G	15641610	3	3	204	1	0	0	0	0	1	0	0	0	15641	391	14	3	314	3	TBC1D26	17	15641610	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08	3656939	15641610	65553600	52	99943											
KRT28	162605	broad.mit.edu	37	chr17	38953169	38953169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccttcgctgtcacctaccGtggccatcagggactgcagc	7	8	11	15	2	2	0	2	0	0	0	3	2	2	1	4	2	3	2	4	2	1	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr17:38953169G>A	uc002hvh.1	-	5	1043	c.977C>T	c.(976-978)ACG>ATG	p.T326M		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	326	Rod.|Coil 2.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				GTCACCTACCGTGGCCATCAG	0.572													20	66					0	0	0.012319	0	0		A	38953169	A	A	38953169	3	1	204	1	0	0	0	0	1	0	0	0	8481	1159	40	1	433	1	KRT28	17	38953169	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08	23311559	38953169	42242041	53	99944											
LPO	4025	broad.mit.edu	37	chr17	56326514	56326514	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgtgcagcccttaccgcaCcattacgggagactgcaata	10	7	9	15	3	0	1	0	0	0	1	0	2	0	1	4	1	5	3	4	1	4	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr17:56326514C>G	uc002ivt.2	+	5	735	c.419C>G	c.(418-420)ACC>AGC	p.T140S	LPO_uc010dco.2_Missense_Mutation_p.T140S|LPO_uc010wnr.1_Missense_Mutation_p.T57S|LPO_uc010wns.1_Missense_Mutation_p.T81S|LPO_uc010dcp.2_Missense_Mutation_p.T57S|LPO_uc010dcq.2_5'UTR	NM_006151	NP_006142	P22079	PERL_HUMAN	lactoperoxidase isoform 1 preproprotein	140					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|breast(1)	2						CCTTACCGCACCATTACGGGA	0.637													39	41					0	0	0.019004	0	0		G	56326514	G	G	56326514	3	3	204	1	0	0	0	0	1	0	0	0	8940	507	18	5	433	5	LPO	17	56326514	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	17373345	56326514	24868696	54	99945											
C17orf71	55181	broad.mit.edu	37	chr17	57290373	57290373	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcaagtagaagtgaaaaCtgagaagaggccaaacttcg	16	7	12	6	1	1	4	1	2	0	3	2	5	1	4	1	2	2	1	1	2	7	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr17:57290373C>A	uc002ixi.2	+	3	2231	c.2189C>A	c.(2188-2190)ACT>AAT	p.T730N		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	730					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					GAAGTGAAAACTGAGAAGAGG	0.458													91	167					9.35349e-44	1.03439e-43	0.048971	1	0		A	57290373	A	A	57290373	3	1	204	1	0	0	0	0	1	0	0	0	1881	565	20	5	2199	5	C17orf71	17	57290373	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	963859	57290373	23904837	55	99946											
DLGAP1	9229	broad.mit.edu	37	chr18	3729181	3729181	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggtggtggtgcgcggcggCgaggacgacctcagggacac	6	5	20	10	5	1	0	1	0	0	0	1	4	1	2	1	7	1	0	1	7	0	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr18:3729181C>T	uc002kmf.2	-	4	1612	c.1545G>A	c.(1543-1545)TCG>TCA	p.S515S	DLGAP1_uc010wyz.1_Silent_p.S515S|DLGAP1_uc002kme.1_Silent_p.S213S|DLGAP1_uc010dkn.2_Silent_p.S213S|DLGAP1_uc010wyw.1_Silent_p.S221S|DLGAP1_uc010wyx.1_Silent_p.S227S|DLGAP1_uc010wyy.1_Silent_p.S227S|DLGAP1_uc002kmg.2_Silent_p.S213S|DLGAP1_uc002kmk.2_Silent_p.S515S	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	515					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TGCGCGGCGGCGAGGACGACC	0.677													13	19					0	0	0.016723	0	0		T	3729181	T	T	3729181	2	4	204	1	0	0	0	0	0	0	0	1	4565	755	27	1		1	DLGAP1	18	3729181	Silent	SNP	C	TCGA-HU-8245-01A-11D-2340-08		3729181	74348067	56	99947											
APC2	10297	broad.mit.edu	37	chr19	1466023	1466023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgagaggcaggaagccGggcgcacccgctgctgcggc	6	2	19	14	6	0	1	0	0	0	1	0	3	0	2	2	5	3	4	2	5	1	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr19:1466023G>A	uc002lsr.1	+	15	2931	c.2723G>A	c.(2722-2724)CGG>CAG	p.R908Q	APC2_uc002lss.1_Missense_Mutation_p.R490Q|APC2_uc002lst.1_Missense_Mutation_p.R908Q|APC2_uc002lsu.1_Missense_Mutation_p.R907Q|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	908					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GCAGGAAGCCGGGCGCACCCG	0.741													3	3					0	0	0.004672	0	0		A	1466023	A	A	1466023	3	1	204	1	0	0	0	0	1	0	0	0	764	1116	39	1	2777	1	APC2	19	1466023	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		1466023	57662960	57	99948											
CACNA1A	773	broad.mit.edu	37	chr19	13409734	13409734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctccaggctgccctcccgggCgtggtggtccgactcgcggc	2	7	15	17	5	0	0	0	0	0	0	4	1	3	0	4	5	1	1	4	5	0	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr19:13409734C>T	uc010dze.2	-	19	2952	c.2716G>A	c.(2716-2718)GCC>ACC	p.A906T	CACNA1A_uc010dzc.2_Missense_Mutation_p.A431T|CACNA1A_uc002mwy.3_Missense_Mutation_p.A905T|CACNA1A_uc010xne.1_Missense_Mutation_p.A434T	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	906	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	CCCTCCCGGGCGTGGTGGTCC	0.776													5	7					0	0	0.014758	0	0		T	13409734	T	T	13409734	3	4	204	1	0	0	0	0	1	0	0	0	2541	768	27	1	5025	1	CACNA1A	19	13409734	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	11943711	13409734	45719249	58	99949											
YIF1B	90522	broad.mit.edu	37	chr19	38799964	38799964	+	Missense_Mutation	SNP	T	A	A	0	1	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	tggtgatggggatgaagcggTcgatctggggaggcagagct	8	8	20	5	2	1	3	0	2	1	1	2	6	1	5	0	7	2	2	0	7	1	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr19:38799964T>A	uc002ohz.2	-	3	351	c.302A>T	c.(301-303)GAC>GTC	p.D101V	YIF1B_uc002ohw.2_Missense_Mutation_p.D70V|YIF1B_uc002ohx.2_Missense_Mutation_p.D86V|YIF1B_uc010xtx.1_Missense_Mutation_p.D84V|YIF1B_uc010xty.1_Missense_Mutation_p.D70V|YIF1B_uc002oia.2_Missense_Mutation_p.D98V|YIF1B_uc002ohy.2_Missense_Mutation_p.D98V|YIF1B_uc002oib.2_Missense_Mutation_p.D98V	NM_001039672	NP_001034761	Q5BJH7	YIF1B_HUMAN	Yip1 interacting factor homolog B isoform 5	101	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(60;1.07e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GATGAAGCGGTCGATCTGGGG	0.587													33	115					0	0	0.041601	0	0		A	38799964	A	A	38799964	3	1	204	1	0	0	0	0	1	0	0	0	17502	1667	58	5	747	5	YIF1B	19	38799964	Missense_Mutation	SNP	T	TCGA-HU-8245-01A-11D-2340-08	25390230	38799964	20329019	59	99950											
CPXM1	56265	broad.mit.edu	37	chr20	2774876	2774876	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgctccaggcgcctgcgaAggtccgggggcaccttggcc	4	5	16	16	4	0	0	0	0	0	0	2	1	2	0	6	5	1	2	6	5	1	1			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr20:2774876A>C	uc002wgu.2	-	14	2229	c.2165T>G	c.(2164-2166)CTT>CGT	p.L722R	CPXM1_uc010gas.2_Missense_Mutation_p.L648R	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	722					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						GCGCCTGCGAAGGTCCGGGGG	0.617													20	86					0	0	0.049695	0	0		C	2774876	C	C	2774876	3	2	204	1	0	0	0	0	1	0	0	0	3840	72	3	5	43	5	CPXM1	20	2774876	Missense_Mutation	SNP	A	TCGA-HU-8245-01A-11D-2340-08		2774876	60250644	60	99951											
NAA20	51126	broad.mit.edu	37	chr20	20013784	20013784	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccagggatactgagaagaaaTccatcataccattacctcat	15	9	6	11	0	2	2	2	1	0	2	3	4	3	3	4	1	3	0	4	1	5	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr20:20013784T>C	uc002wrp.2	+	6	594	c.490T>C	c.(490-492)TCC>CCC	p.S164P	NAA20_uc002wrq.2_3'UTR|NAA20_uc002wrr.2_Missense_Mutation_p.S152P	NM_016100	NP_057184	P61599	NAA20_HUMAN	N-acetyltransferase 5 isoform a	164						cytoplasm|nucleus	peptide alpha-N-acetyltransferase activity				0						TGAGAAGAAATCCATCATACC	0.363													27	95					0	0	0.027356	0	0		C	20013784	C	C	20013784	3	2	204	1	0	0	0	0	1	0	0	0	10138	1435	50	3	533	3	NAA20	20	20013784	Missense_Mutation	SNP	T	TCGA-HU-8245-01A-11D-2340-08	17238908	20013784	43011736	61	99952											
NDRG3	57446	broad.mit.edu	37	chr20	35317165	35317165	+	Missense_Mutation	SNP	T	C	C	0	1	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	tagtgacgtggaccacaccaTgagttgtttctatatcatgt	10	14	9	8	1	2	2	1	2	1	0	2	3	2	3	2	1	0	2	2	1	3	5			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr20:35317165T>C	uc002xfw.2	-	4	198	c.116A>G	c.(115-117)CAT>CGT	p.H39R	NDRG3_uc002xfx.2_Missense_Mutation_p.H27R|NDRG3_uc010zvq.1_Intron|NDRG3_uc010zvr.1_Intron	NM_032013	NP_114402	Q9UGV2	NDRG3_HUMAN	N-myc downstream regulated gene 3 isoform a	39					cell differentiation|negative regulation of cell growth|spermatogenesis	cytoplasm				ovary(1)	1		Myeloproliferative disorder(115;0.00878)				GACCACACCATGAGTTGTTTC	0.378													11	151					0	0	0.013537	0	0		C	35317165	C	C	35317165	3	2	204	1	0	0	0	0	1	0	0	0	10272	1464	51	3	1063	3	NDRG3	20	35317165	Missense_Mutation	SNP	T	TCGA-HU-8245-01A-11D-2340-08	15303381	35317165	27708355	62	99953											
WISP2	8839	broad.mit.edu	37	chr20	43355838	43355838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggctgggcatggccaccCgggtgtccaaccagaaccgc	7	5	15	14	2	0	1	0	0	0	1	1	1	1	1	5	4	2	2	5	4	2	0			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr20:43355838C>T	uc002xmn.2	+	5	996	c.643C>T	c.(643-645)CGG>TGG	p.R215W	uc002xml.1_Intron|uc002xmm.1_Intron|WISP2_uc002xmp.2_Missense_Mutation_p.R215W|WISP2_uc002xmq.2_Silent_p.P132P	NM_003881	NP_003872	O76076	WISP2_HUMAN	WNT1 inducible signaling pathway protein 2	215	TSP type-1.				cell adhesion|cell-cell signaling|signal transduction	extracellular region|soluble fraction	insulin-like growth factor binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CATGGCCACCCGGGTGTCCAA	0.677													29	69					0	0	0.030593	0	0		T	43355838	T	T	43355838	3	4	204	1	0	0	0	0	1	0	0	0	17399	643	23	1	657	1	WISP2	20	43355838	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	8038673	43355838	19669682	63	99954											
SAMSN1	64092	broad.mit.edu	37	chr21	15893509	15893509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttttgataaagaattattccGaaaacgatcgaaattcccaa	17	12	5	7	3	0	2	0	1	0	1	3	5	2	2	2	0	1	0	2	0	8	6			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr21:15893509G>A	uc002yju.1	-	2	173	c.91C>T	c.(91-93)CGG>TGG	p.R31W	SAMSN1_uc010gky.1_Intron|SAMSN1_uc002yjv.1_Missense_Mutation_p.R99W	NM_022136	NP_071419	Q9NSI8	SAMN1_HUMAN	SAM domain, SH3 domain and nuclear localization	31					negative regulation of adaptive immune response|negative regulation of B cell activation|negative regulation of peptidyl-tyrosine phosphorylation	cytoplasm|nucleus|ruffle	phosphotyrosine binding			ovary(3)|pancreas(1)	4				Epithelial(23;0.000155)|COAD - Colon adenocarcinoma(22;0.00118)|Colorectal(24;0.00961)|Lung(58;0.164)		GAATTATTCCGAAAACGATCG	0.299													12	27					0	0	0.016723	0	0		A	15893509	A	A	15893509	3	1	204	1	0	0	0	0	1	0	0	0	13855	1057	37	1	1058	1	SAMSN1	21	15893509	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		15893509	32236386	64	99955											
SMARCB1	6598	broad.mit.edu	37	chr22	24167535	24167535	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctggggttgggcggggagTttgtcaccaccatcgcatac	7	9	15	10	2	1	0	1	0	0	0	2	1	1	1	2	5	2	4	2	5	1	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr22:24167535T>G	uc002zyb.2	+	7	1126	c.919T>G	c.(919-921)TTT>GTT	p.F307V	SMARCB1_uc002zya.2_Intron|SMARCB1_uc002zyc.2_Missense_Mutation_p.F298V|SMARCB1_uc002zyd.2_Missense_Mutation_p.F316V	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	307	Interaction with PPP1R15A.|2.|2 X approximate tandem repeats.				cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.?(6)|p.L266_*386del(1)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				GGGCGGGGAGTTTGTCACCAC	0.562			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				19	42					0	0	0.038395	0	0		G	24167535	G	G	24167535	3	3	204	1	0	0	0	0	1	0	0	0	14799	1725	60	5	945	5	SMARCB1	22	24167535	Missense_Mutation	SNP	T	TCGA-HU-8245-01A-11D-2340-08		24167535	27137031	65	99956											
CACNA1I	8911	broad.mit.edu	37	chr22	40037114	40037114	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttactacaatgtgtgccgcaCgggcagcgccaacccccaca	10	6	9	16	3	0	0	0	0	0	0	0	0	0	0	4	1	5	2	4	1	4	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr22:40037114C>T	uc003ayc.2	+	6	983	c.983C>T	c.(982-984)ACG>ATG	p.T328M	CACNA1I_uc003ayd.2_Missense_Mutation_p.T328M|CACNA1I_uc003aye.2_Missense_Mutation_p.T243M|CACNA1I_uc003ayf.2_Missense_Mutation_p.T243M	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	328	I.|Extracellular (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GTGTGCCGCACGGGCAGCGCC	0.592													14	61					0	0	0.016723	0	0		T	40037114	T	T	40037114	3	4	204	1	0	0	0	0	1	0	0	0	2549	536	19	1	1005	1	CACNA1I	22	40037114	Missense_Mutation	SNP	C	TCGA-HU-8245-01A-11D-2340-08	15869579	40037114	11267452	66	99957											
ZC3H7B	23264	broad.mit.edu	37	chr22	41739432	41739432	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccataggcccccgggctggCgactacacctaccgtgaggg	7	5	13	16	3	0	1	0	1	0	0	0	2	0	1	5	4	2	1	5	4	3	3			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr22:41739432C>T	uc003azw.2	+	13	1527	c.1311C>T	c.(1309-1311)GGC>GGT	p.G437G	ZC3H7B_uc010gyl.1_Intron	NM_017590	NP_060060	Q9UGR2	Z3H7B_HUMAN	zinc finger CCCH-type containing 7B	453					interspecies interaction between organisms	nucleus	nucleic acid binding|protein binding|zinc ion binding			central_nervous_system(1)	1						CCCGGGCTGGCGACTACACCT	0.632													10	65					0	0	0.008291	0	0		T	41739432	T	T	41739432	2	4	204	1	0	0	0	0	0	0	0	1	17598	755	27	1		1	ZC3H7B	22	41739432	Silent	SNP	C	TCGA-HU-8245-01A-11D-2340-08	1702318	41739432	9565134	67	99958											
KLHDC7B	113730	broad.mit.edu	37	chr22	50987858	50987858	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgtacagcatggagtgctaCgacccgcgaacagacgcctg	10	6	12	13	4	0	1	0	0	0	1	0	4	0	2	2	1	5	3	2	1	3	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chr22:50987858C>T	uc003bmi.2	+	1	1397	c.1263C>T	c.(1261-1263)TAC>TAT	p.Y421Y		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	421	Kelch 3.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|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)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		TGGAGTGCTACGACCCGCGAA	0.677													36	73					0	0	0.021022	0	0		T	50987858	T	T	50987858	2	4	204	1	0	0	0	0	0	0	0	1	8377	547	19	1		1	KLHDC7B	22	50987858	Silent	SNP	C	TCGA-HU-8245-01A-11D-2340-08	9248426	50987858	316708	68	99959											
GUCY2F	2986	broad.mit.edu	37	chrX	108718759	108718759	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cccagctgtttcccaggagcGaggctgcctcgcagtagcca	7	7	12	15	2	0	0	0	0	0	0	2	2	1	1	4	2	4	5	4	2	1	2			TCGA-HU-8245-01A-11D-2340-08	TCGA-HU-8245-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	61cad26a-cbc6-4977-83b9-dc61e49f2861	143533c9-e5de-40a3-967c-a410d9e18e0f	g.chrX:108718759G>C	uc004eod.3	-	2	683	c.407C>G	c.(406-408)TCG>TGG	p.S136W	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	136	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TCCCAGGAGCGAGGCTGCCTC	0.498											OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	60	145					0	0	0.048971	0	0		C	108718759	C	C	108718759	3	2	204	1	0	0	0	0	1	0	0	0	6914	1059	37	5	2991	5	GUCY2F	23	108718759	Missense_Mutation	SNP	G	TCGA-HU-8245-01A-11D-2340-08		108718759	46551801	69	99960											
HSPG2	3339	broad.mit.edu	37	chr1	22165524	22165524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcactggagctgcaccGtctcccctgcctgcaccgaa	7	6	10	18	2	1	0	0	0	1	0	2	2	1	1	6	2	4	4	6	2	1	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:22165524G>A	uc001bfj.2	-	74	9984	c.9944C>T	c.(9943-9945)ACG>ATG	p.T3315M	HSPG2_uc009vqd.2_Missense_Mutation_p.T3316M	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3315	Ig-like C2-type 19.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GAGCTGCACCGTCTCCCCTGC	0.672													4	44					0	0	0.009096	0	0		A	22165524	A	A	22165524	3	1	205	1	0	0	0	0	1	0	0	0	7446	1145	40	1	3327	1	HSPG2	1	22165524	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		22165524	227085097	1	99961											
EIF3I	8668	broad.mit.edu	37	chr1	32689716	32689716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgtgtggtgtgtggacGctgactgtatccttattttg	5	16	14	6	1	0	1	0	1	0	0	1	3	1	2	1	2	1	3	1	2	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:32689716G>A	uc001bur.3	+	4	711	c.178G>A	c.(178-180)GCT>ACT	p.A60T	C1orf91_uc001buo.3_5'Flank|C1orf91_uc001bup.3_5'Flank|C1orf91_uc009vub.1_5'Flank|C1orf91_uc010oha.1_5'Flank|C1orf91_uc001buq.3_5'Flank|EIF3I_uc009vuc.2_Missense_Mutation_p.A60T|EIF3I_uc001bus.2_Missense_Mutation_p.A12T	NM_003757	NP_003748	Q13347	EIF3I_HUMAN	eukaryotic translation initiation factor 3,	60	WD 2.					cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.212)				GTGTGTGGACGCTGACTGTAT	0.537													13	63					0	0	0.11911	0	0		A	32689716	A	A	32689716	3	1	205	1	0	0	0	0	1	0	0	0	5027	1087	38	1	188	1	EIF3I	1	32689716	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	10524192	32689716	216560905	2	99962											
CSMD2	114784	broad.mit.edu	37	chr1	34158580	34158580	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gtccagatgcagttgagattGtgttcatagggagctggata	10	12	14	5	0	1	2	1	1	0	2	2	5	2	4	1	2	2	4	1	2	2	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:34158580G>T	uc001bxn.1	-	25	3911	c.3882C>A	c.(3880-3882)CAC>CAA	p.H1294Q	CSMD2_uc001bxm.1_Missense_Mutation_p.H1334Q|CSMD2_uc001bxo.1_Missense_Mutation_p.H207Q	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	1294	CUB 8.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				AGTTGAGATTGTGTTCATAGG	0.552													13	127					0.00010058	0.000104587	0.09319	1	0		T	34158580	T	T	34158580	3	4	205	1	0	0	0	0	1	0	0	0	3948	1368	48	5	6761	5	CSMD2	1	34158580	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	1468864	34158580	215092041	3	99963											
PDE4B	5142	broad.mit.edu	37	chr1	66827323	66827323	+	Silent	SNP	A	C	C	1	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	cagaatgatgtggagatcccAtctcctacccagaaagacag	14	7	9	11	0	1	5	0	1	1	4	3	6	2	5	3	1	1	0	3	1	3	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:66827323A>C	uc001dcn.2	+	10	1058	c.867A>C	c.(865-867)CCA>CCC	p.P289P	PDE4B_uc009war.2_Silent_p.P197P|PDE4B_uc001dco.2_Silent_p.P289P|PDE4B_uc001dcp.2_Silent_p.P274P|PDE4B_uc001dcq.2_Silent_p.P117P|PDE4B_uc009was.2_Silent_p.P56P	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	289					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	TGGAGATCCCATCTCCTACCC	0.393													8	58					0	0	0.038147	0	0		C	66827323	C	C	66827323	2	2	205	1	0	0	0	0	0	0	0	1	11659	204	8	5		5	PDE4B	1	66827323	Silent	SNP	A	TCGA-HU-8604-01A-11D-2394-08	32668743	66827323	182423298	4	99964											
LRRC7	57554	broad.mit.edu	37	chr1	70488966	70488966	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacagctggcatggggttGtataagtggcctccagcagg	8	8	14	11	0	0	0	0	0	0	0	1	0	1	0	3	5	2	5	3	5	2	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:70488966G>C	uc001dep.2	+	15	1619	c.1589G>C	c.(1588-1590)TGT>TCT	p.C530S	LRRC7_uc009wbg.2_Intron	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	530						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GCATGGGGTTGTATAAGTGGC	0.557													13	84					0	0	0.11911	0	0		C	70488966	C	C	70488966	3	2	205	1	0	0	0	0	1	0	0	0	9038	1377	48	5	1647	5	LRRC7	1	70488966	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	3661643	70488966	178761655	5	99965											
IFI44L	10964	broad.mit.edu	37	chr1	79093853	79093853	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccaaatgattccctatggTtttcacttcaaaagaaaaat	16	12	5	8	0	2	2	2	1	0	1	3	2	3	2	2	1	1	1	2	1	6	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:79093853T>C	uc010oro.1	+	2	432	c.253T>C	c.(253-255)TTT>CTT	p.F85L	IFI44L_uc010orp.1_Intron|IFI44L_uc010orq.1_Intron	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	85						cytoplasm					0						TTCCCTATGGTTTTCACTTCA	0.313													4	31					0	0	0.009096	0	0		C	79093853	C	C	79093853	3	2	205	1	0	0	0	0	1	0	0	0	7534	1725	60	3	255	3	IFI44L	1	79093853	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	8604887	79093853	170156768	6	99966											
BARHL2	343472	broad.mit.edu	37	chr1	91180275	91180275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcacagggggactctcacGgctactcgtaatctcccggt	7	10	10	14	3	3	0	2	0	3	0	7	1	3	1	1	4	1	2	1	4	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:91180275G>A	uc001dns.2	-	2	706	c.664C>T	c.(664-666)CGT>TGT	p.R222C		NM_020063	NP_064447	Q9NY43	BARH2_HUMAN	BarH-like homeobox 2	222						nucleus	sequence-specific DNA binding			ovary(1)	1		all_lung(203;0.0263)|Lung SC(238;0.128)		all cancers(265;0.000897)|Epithelial(280;0.00516)|OV - Ovarian serous cystadenocarcinoma(397;0.211)		GGACTCTCACGGCTACTCGTA	0.542													15	117					0	0	0.132662	0	0		A	91180275	A	A	91180275	3	1	205	1	0	0	0	0	1	0	0	0	1315	1116	39	1	507	1	BARHL2	1	91180275	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	12086422	91180275	158070346	7	99967											
GFI1	2672	broad.mit.edu	37	chr1	92946367	92946367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagccctaggccagggccagCggtggcaccggcccctgcgc	5	3	16	17	3	0	0	0	0	0	0	0	1	0	0	6	5	3	1	6	5	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:92946367C>T	uc001dou.3	-	4	741	c.577G>A	c.(577-579)GCT>ACT	p.A193T	GFI1_uc001dov.3_Missense_Mutation_p.A193T|GFI1_uc001dow.3_Missense_Mutation_p.A193T	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	193	Ala/Gly-rich.				negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		CCAGGGCCAGCGGTGGCACCG	0.652													3	5					0	0	0.115264	0	0		T	92946367	T	T	92946367	3	4	205	1	0	0	0	0	1	0	0	0	6354	768	27	1	707	1	GFI1	1	92946367	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1766092	92946367	156304254	8	99968											
AMY2B	280	broad.mit.edu	37	chr1	104122108	104122108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catttattgcaattcatgctGaatctaaattataaaattta	16	17	3	5	0	2	1	1	1	1	0	2	1	2	1	0	0	2	2	0	0	9	9			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:104122108G>A	uc001duq.2	+	12	2138	c.1522G>A	c.(1522-1524)GAA>AAA	p.E508K	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.E508K|AMY2B_uc001dus.1_Intron	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	508					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		AATTCATGCTGAATCtaaatt	0.294													12	125					0	0	0.080935	0	0		A	104122108	A	A	104122108	3	1	205	1	0	0	0	0	1	0	0	0	595	1291	45	4	1560	4	AMY2B	1	104122108	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	11175741	104122108	145128513	9	99969											
CA14	23632	broad.mit.edu	37	chr1	150230572	150230572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgatttggatcctggctgcaGatgggggtaggtacaactaa	10	11	14	6	0	0	2	0	1	0	1	1	3	1	3	1	5	3	4	1	5	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:150230572G>A	uc001etx.2	+	1	358	c.49G>A	c.(49-51)GAT>AAT	p.D17N	CA14_uc009wln.2_Missense_Mutation_p.D17N	NM_012113	NP_036245	Q9ULX7	CAH14_HUMAN	carbonic anhydrase XIV precursor	17	Extracellular (Potential).					integral to membrane	carbonate dehydratase activity|metal ion binding			ovary(1)	1	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)			CCTGGCTGCAGATGGGGGTAG	0.532													4	15					0	0	0.009096	0	0		A	150230572	A	A	150230572	3	1	205	1	0	0	0	0	1	0	0	0	2518	942	33	4	51	4	CA14	1	150230572	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	46108464	150230572	99020049	10	99970											
FLG	2312	broad.mit.edu	37	chr1	152276266	152276266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccagaccttcctgctgacCggccacgtgtggactcttgg	5	10	12	14	2	1	2	0	1	1	1	3	3	3	3	5	3	1	1	5	3	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:152276266C>T	uc001ezu.1	-	3	11132	c.11096G>A	c.(11095-11097)CGG>CAG	p.R3699Q		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3699	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTGCTGACCGGCCACGTGT	0.592									Ichthyosis				25	171					0	0	0.074837	0	0		T	152276266	T	T	152276266	3	4	205	1	0	0	0	0	1	0	0	0	5936	652	23	1	1093	1	FLG	1	152276266	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	2045694	152276266	96974355	11	99971											
FLG	2312	broad.mit.edu	37	chr1	152277297	152277297	+	Silent	SNP	C	A	A	0	0	0	1	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	ccagcctgtccatggcctgaCactgactgtgtgtctgactc	6	11	10	14	0	1	3	0	3	1	0	3	3	2	3	4	1	1	0	4	1	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:152277297C>A	uc001ezu.1	-	3	10101	c.10065G>T	c.(10063-10065)GTG>GTT	p.V3355V		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3355	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CATGGCCTGACACTGACTGTG	0.572									Ichthyosis				68	422					3.28615e-30	3.88093e-30	0.139131	1	0		A	152277297	A	A	152277297	2	1	205	1	0	0	0	0	0	0	0	1	5936	465	17	5		5	FLG	1	152277297	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1031	152277297	96973324	12	99972											
OR6K3	391114	broad.mit.edu	37	chr1	158687131	158687131	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataagtgtcgctgaaacgcaAgtacatgagtgatacactgc	14	9	10	8	2	0	3	0	3	0	0	1	3	0	3	0	0	4	3	0	0	5	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:158687131A>C	uc010pip.1	-	1	823	c.823T>G	c.(823-825)TTG>GTG	p.L275V		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	275	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					CTGAAACGCAAGTACATGAGT	0.463													9	74					0	0	0.069234	0	0		C	158687131	C	C	158687131	3	2	205	1	0	0	0	0	1	0	0	0	11222	69	3	5	174	5	OR6K3	1	158687131	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	6409834	158687131	90563490	13	99973											
FCER1A	2205	broad.mit.edu	37	chr1	159272174	159272174	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gatggctcctgccatggaatCccctactctactgtgtgtag	7	12	10	12	0	1	0	0	0	1	0	3	2	3	1	4	2	3	2	4	2	4	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:159272174C>T	uc001ftq.2	+	2	119	c.20C>T	c.(19-21)TCC>TTC	p.S7F		NM_002001	NP_001992	P12319	FCERA_HUMAN	Fc fragment of IgE, high affinity I, receptor	7						integral to plasma membrane				lung(2)|skin(2)|prostate(1)	5	all_hematologic(112;0.0429)				Benzylpenicilloyl Polylysine(DB00895)|Omalizumab(DB00043)	GCCATGGAATCCCCTACTCTA	0.483													10	126					0	0	0.105934	0	0		T	159272174	T	T	159272174	3	4	205	1	0	0	0	0	1	0	0	0	5788	855	30	4	22	4	FCER1A	1	159272174	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	585043	159272174	89978447	14	99974											
C1orf129	80133	broad.mit.edu	37	chr1	170965696	170965696	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaattgttctggactgcaAcaggtggatattactctaat	11	14	9	7	0	2	1	0	1	2	0	2	3	2	3	0	3	3	2	0	3	5	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:170965696A>C	uc001ghg.2	+	14	1516	c.1386A>C	c.(1384-1386)CAA>CAC	p.Q462H	C1orf129_uc009wvy.2_Missense_Mutation_p.Q269H|C1orf129_uc010plz.1_Missense_Mutation_p.Q462H	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	462							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					CTGGACTGCAACAGGTGGATA	0.423													11	93					0	0	0.069234	0	0		C	170965696	C	C	170965696	3	2	205	1	0	0	0	0	1	0	0	0	1999	40	2	5	1436	5	C1orf129	1	170965696	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	11693522	170965696	78284925	15	99975											
DNM3	26052	broad.mit.edu	37	chr1	171810859	171810859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtctgcaggacgcgttttcGgcgctgggacagagctgcct	5	9	15	12	5	1	1	0	0	1	1	2	3	1	3	1	3	3	4	1	3	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:171810859G>A	uc001gie.2	+	1	239	c.63G>A	c.(61-63)TCG>TCA	p.S21S	DNM3_uc001gid.3_Silent_p.S21S|DNM3_uc009wwb.2_Silent_p.S21S|DNM3_uc001gif.2_Silent_p.S21S	NM_015569	NP_056384	Q9UQ16	DYN3_HUMAN	dynamin 3 isoform a	21					endocytosis|filopodium assembly|synapse assembly	dendritic spine|microtubule|perinuclear region of cytoplasm|postsynaptic density	GTP binding|GTPase activity|protein binding			breast(1)	1						ACGCGTTTTCGGCGCTGGGAC	0.687													4	11					0	0	0.009096	0	0		A	171810859	A	A	171810859	2	1	205	1	0	0	0	0	0	0	0	1	4679	1103	39	1		1	DNM3	1	171810859	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	845163	171810859	77439762	16	99976											
CFH	3075	broad.mit.edu	37	chr1	196716354	196716354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttgaatttgtgtgtaaaCggggatatcgtctttcatca	10	15	10	6	2	3	1	2	1	1	0	4	2	3	2	0	2	1	2	0	2	4	5	rs145347741	byFrequency	TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:196716354C>T	uc001gtj.3	+	22	3847	c.3607C>T	c.(3607-3609)CGG>TGG	p.R1203W		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	1203	Sushi 20.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						TGTGTGTAAACGGGGATATCG	0.383													10	82					0	0	0.09319	0	0		T	196716354	T	T	196716354	3	4	205	1	0	0	0	0	1	0	0	0	3286	527	19	1	3711	1	CFH	1	196716354	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	24905495	196716354	52534267	17	99977											
WNT3A	89780	broad.mit.edu	37	chr1	228246694	228246694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtgccccgcaggccatcgCcagccacatgcacctcaagt	8	5	10	18	3	1	0	1	0	0	0	2	0	1	0	6	1	3	2	6	1	1	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:228246694C>T	uc001hrq.1	+	4	665	c.587C>T	c.(586-588)GCC>GTC	p.A196V	WNT3A_uc001hrp.1_Missense_Mutation_p.A196V	NM_033131	NP_149122	P56704	WNT3A_HUMAN	wingless-type MMTV integration site family,	196					axis specification|cell proliferation in forebrain|cell-cell signaling|cellular response to retinoic acid|convergent extension|dermatome development|dorsal/ventral neural tube patterning|embryonic pattern specification|extracellular matrix organization|hemopoietic stem cell proliferation|hippocampus development|inner ear morphogenesis|mammary gland development|midbrain-hindbrain boundary development|negative regulation of fat cell differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of neuron projection development|notochord development|palate development|paraxial mesodermal cell fate commitment|positive regulation of catenin import into nucleus|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of receptor internalization|positive regulation of transcription from RNA polymerase II promoter|signalosome assembly|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuroblast division|Wnt receptor signaling pathway, calcium modulating pathway	cell surface|early endosome|extracellular space|late endosome|membrane raft|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled-2 binding|receptor agonist activity|signal transducer activity|transcription coactivator activity			ovary(1)	1		Prostate(94;0.0405)				CAGGCCATCGCCAGCCACATG	0.667													3	13					0	0	0.115264	0	0		T	228246694	T	T	228246694	3	4	205	1	0	0	0	0	1	0	0	0	17415	739	26	2	601	2	WNT3A	1	228246694	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	31530340	228246694	21003927	18	99978											
OR2W5	441932	broad.mit.edu	37	chr1	247654765	247654765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgctgggctccaccgagtgCgtcctcctggttgtcatgtc	4	12	12	13	2	1	0	1	0	0	0	5	1	4	0	4	2	2	3	4	2	0	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:247654765C>T	uc001icz.1	+	1	336	c.336C>T	c.(334-336)TGC>TGT	p.C112C		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			CCACCGAGTGCGTCCTCCTGG	0.602													10	65					0	0	0.058154	0	0		T	247654765	T	T	247654765	2	4	205	1	0	0	0	0	0	0	0	1	11053	776	27	1		1	OR2W5	1	247654765	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	19408071	247654765	1595856	19	99979											
OR2T12	127064	broad.mit.edu	37	chr1	248458139	248458139	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aatgccagctccataaaagaGtcccaccacagccacatgtg	14	6	7	14	0	0	1	0	0	0	1	2	1	2	1	5	0	3	1	5	0	3	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr1:248458139G>T	uc010pzj.1	-	1	742	c.742C>A	c.(742-744)CTC>ATC	p.L248I		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			CCATAAAAGAGTCCCACCACA	0.507													14	75					4.3838e-07	4.84819e-07	0.105934	1	0		T	248458139	T	T	248458139	3	4	205	1	0	0	0	0	1	0	0	0	11038	1029	36	5	223	5	OR2T12	1	248458139	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	803374	248458139	792482	20	99980											
PXDN	7837	broad.mit.edu	37	chr2	1643130	1643130	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtcctcctggtagctgaaCtcaagagaccgtctgcctcg	7	11	10	13	2	2	2	1	1	1	1	5	3	4	2	4	1	3	2	4	1	3	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:1643130C>A	uc002qxa.2	-	20	4081	c.4017G>T	c.(4015-4017)GAG>GAT	p.E1339D		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1339					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GGTAGCTGAACTCAAGAGACC	0.507													7	24					0.000274275	0.000284071	0.047766	1	0		A	1643130	A	A	1643130	3	1	205	1	0	0	0	0	1	0	0	0	12872	564	20	5	438	5	PXDN	2	1643130	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		1643130	241556243	21	99981											
BIRC6	57448	broad.mit.edu	37	chr2	32707635	32707635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggatcacagacagttagcGtttcagtctctcagggtaag	11	10	11	9	2	4	1	3	0	1	1	5	2	4	2	0	2	1	3	0	2	2	3	rs144411884		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:32707635G>A	uc010ezu.2	+	39	7815	c.7681G>A	c.(7681-7683)GTT>ATT	p.V2561I		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	2561					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					GACAGTTAGCGTTTCAGTCTC	0.393													8	60					0	0	0.047766	0	0		A	32707635	A	A	32707635	3	1	205	1	0	0	0	0	1	0	0	0	1439	1145	40	1	7835	1	BIRC6	2	32707635	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	31064505	32707635	210491738	22	99982											
RASGRP3	25780	broad.mit.edu	37	chr2	33752219	33752220	+	Missense_Mutation	DNP	AC	CA	CA																															cccagaactggaatgaaatgAcagagttggtctcctccaac																										TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:33752219_33752220AC>CA	uc002rox.2	+	11	1450_1451	c.823_824AC>CA	c.(823-825)ACA>CAA	p.T275Q	RASGRP3_uc010ync.1_Missense_Mutation_p.T275Q|RASGRP3_uc002roy.2_Missense_Mutation_p.T275Q	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	RAS guanyl releasing protein 3 (calcium and	275	Ras-GEF.				MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity|protein binding|Rap GTPase activator activity|signal transducer activity			lung(3)|ovary(1)|pancreas(1)	5	all_hematologic(175;0.115)					GAATGAAATGACAGAGTTGGTC	0.485													10	28					0	0	0.115264	0	0		CA	33752220	CA	CA	33752219	3	2	205	1	0	0	0	0	1	0	0	0	13101	275	10	5	853	5	RASGRP3	2	33752219	Missense_Mutation	DNP	AC	TCGA-HU-8604-01A-11D-2394-08	1044584	33752219	209447154	23	99983											
NRXN1	9378	broad.mit.edu	37	chr2	50780014	50780014	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccatttaggcaaagagatGaaagactctggggtttcaaa	14	11	10	6	0	2	3	1	1	1	2	3	4	3	3	1	3	0	2	1	3	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:50780014G>T	uc010fbq.2	-	9	3067	c.1590C>A	c.(1588-1590)TTC>TTA	p.F530L	NRXN1_uc002rxb.3_Missense_Mutation_p.F162L|NRXN1_uc002rxe.3_Missense_Mutation_p.F490L|NRXN1_uc002rxc.1_RNA	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GCAAAGAGATGAAAGACTCTG	0.418													15	67					3.35478e-16	3.90891e-16	0.132662	1	0		T	50780014	T	T	50780014	3	4	205	1	0	0	0	0	1	0	0	0	10684	1281	45	5	3376	5	NRXN1	2	50780014	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	17027795	50780014	192419359	24	99984											
CCDC85A	114800	broad.mit.edu	37	chr2	56570051	56570051	+	Silent	SNP	A	G	G	1	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	gttaggcagctggaggcaagAgtaagacagctggaggaaga	14	5	17	5	0	0	3	0	0	0	3	0	6	0	6	0	5	2	6	0	5	4	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:56570051A>G	uc002rzn.2	+	3	1780	c.1278A>G	c.(1276-1278)AGA>AGG	p.R426R		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	426	Potential.									breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TGGAGGCAAGAGTAAGACAGC	0.418													3	8					0	0	0.014758	0	0		G	56570051	G	G	56570051	2	3	205	1	0	0	0	0	0	0	0	1	2862	301	11	3		3	CCDC85A	2	56570051	Silent	SNP	A	TCGA-HU-8604-01A-11D-2394-08	5790037	56570051	186629322	25	99985											
EIF2AK3	9451	broad.mit.edu	37	chr2	88890523	88890523	+	Missense_Mutation	SNP	A	G	G	1	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	taaatccggctctcgtttccAtgtctggaatataccgaagt	10	13	8	10	3	2	0	0	0	2	0	5	2	4	1	3	2	1	2	3	2	6	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:88890523A>G	uc002stc.3	-	5	1017	c.815T>C	c.(814-816)ATG>ACG	p.M272T		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	272	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						TCTCGTTTCCATGTCTGGAAT	0.368													15	57					0	0	0.146539	0	0		G	88890523	G	G	88890523	3	3	205	1	0	0	0	0	1	0	0	0	5004	217	8	3	2587	3	EIF2AK3	2	88890523	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	32320472	88890523	154308850	26	99986											
MGAT4A	11320	broad.mit.edu	37	chr2	99260500	99260500	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acaatcagagtaagatccggCgcttgaaacattttacctga	14	10	8	9	2	1	4	1	2	0	2	2	4	2	4	2	1	2	2	2	1	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:99260500C>T	uc002sze.2	-	10	1220	c.906G>A	c.(904-906)GCG>GCA	p.A302A	C2orf64_uc002sza.2_RNA|MGAT4A_uc010yvm.1_Silent_p.A174A|MGAT4A_uc010fil.2_Silent_p.A56A	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	alpha-1,3-mannosyl-glycoprotein	302	Lumenal (Potential).				N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1						TAAGATCCGGCGCTTGAAACA	0.408													6	63					0	0	0.02938	0	0		T	99260500	T	T	99260500	2	4	205	1	0	0	0	0	0	0	0	1	9563	755	27	1		1	MGAT4A	2	99260500	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	10369977	99260500	143938873	27	99987											
LRP1B	53353	broad.mit.edu	37	chr2	140990805	140990805	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttctttggaagcagttCtttcctttcatcaacacttc	8	19	4	10	0	4	0	2	0	2	0	6	1	5	1	1	1	2	2	1	1	3	8			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:140990805C>A	uc002tvj.1	-	91	14722	c.13750G>T	c.(13750-13752)GAA>TAA	p.E4584*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4584	Cytoplasmic (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGAAGCAGTTCTTTCCTTTCA	0.333										TSP Lung(27;0.18)			13	38					5.50884e-06	5.89265e-06	0.09319	1	0		A	140990805	A	A	140990805	4	1	205	1	0	0	0	0	0	1	0	0	8973	922	32	5	53	5	LRP1B	2	140990805	Nonsense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	41730305	140990805	102208568	28	99988											
LRP1B	53353	broad.mit.edu	37	chr2	141215210	141215210	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaatcacccctggaatatcTtgattagggactgtaatagg	12	11	10	8	0	2	1	1	1	1	0	2	3	2	3	2	3	0	2	2	3	6	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:141215210T>G	uc002tvj.1	-	61	10608	c.9636A>C	c.(9634-9636)CAA>CAC	p.Q3212H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3212	Extracellular (Potential).|LDL-receptor class B 31.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CTGGAATATCTTGATTAGGGA	0.418										TSP Lung(27;0.18)			27	82					0	0	0.134883	0	0		G	141215210	G	G	141215210	3	3	205	1	0	0	0	0	1	0	0	0	8973	1606	56	5	4287	5	LRP1B	2	141215210	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	224405	141215210	101984163	29	99989											
LRP1B	53353	broad.mit.edu	37	chr2	141751631	141751631	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatcacatttccaccgagcTtggatacagtgtctgttttt	8	15	7	11	1	2	0	1	0	1	0	3	2	3	1	3	1	2	2	3	1	1	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:141751631T>G	uc002tvj.1	-	16	3549	c.2577A>C	c.(2575-2577)CAA>CAC	p.Q859H	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	859	Extracellular (Potential).|LDL-receptor class A 3.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCCACCGAGCTTGGATACAGT	0.423										TSP Lung(27;0.18)			19	78					0	0	0.055883	0	0		G	141751631	G	G	141751631	3	3	205	1	0	0	0	0	1	0	0	0	8973	1606	56	5	11526	5	LRP1B	2	141751631	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	536421	141751631	101447742	30	99990											
LRP2	4036	broad.mit.edu	37	chr2	170063434	170063434	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaatcacttcagagttctCtccattgatacgaatccttg	11	13	6	11	2	3	2	2	1	1	1	6	4	5	2	2	0	1	1	2	0	3	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:170063434C>A	uc002ues.2	-	39	7009	c.6796G>T	c.(6796-6798)GAG>TAG	p.E2266*		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2266	LDL-receptor class B 23.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	TCAGAGTTCTCTCCATTGATA	0.403													16	117					1.3612e-06	1.4865e-06	0.132662	1	0		A	170063434	A	A	170063434	4	1	205	1	0	0	0	0	0	1	0	0	8974	922	32	5	7335	5	LRP2	2	170063434	Nonsense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	28311803	170063434	73135939	31	99991											
TTN	7273	broad.mit.edu	37	chr2	179439346	179439346	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtcattgaatccttggtaActgcagttacctgaggggta	9	14	11	7	0	1	2	1	2	0	0	2	2	2	2	2	3	3	4	2	3	4	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:179439346A>C	uc010zfg.1	-	275	64033	c.63809T>G	c.(63808-63810)GTT>GGT	p.V21270G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.V14965G|TTN_uc010zfi.1_Missense_Mutation_p.V14898G|TTN_uc010zfj.1_Missense_Mutation_p.V14773G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22197							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATCCTTGGTAACTGCAGTTAC	0.433													7	59					0	0	0.02938	0	0		C	179439346	C	C	179439346	3	2	205	1	0	0	0	0	1	0	0	0	16761	43	2	5	36614	5	TTN	2	179439346	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	9375912	179439346	63760027	32	99992											
TTN	7273	broad.mit.edu	37	chr2	179669304	179669304	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgtgagcctcaaaggttgcGgtactaccctccagtaccac	10	9	9	13	1	1	1	1	1	0	0	2	1	2	1	4	2	5	3	4	2	4	4	rs143623862		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:179669304G>A	uc002und.2	-	2	291	c.66C>T	c.(64-66)ACC>ACT	p.T22T	TTN_uc010zfg.1_Silent_p.T22T|TTN_uc010zfh.1_Silent_p.T22T|TTN_uc010zfi.1_Silent_p.T22T|TTN_uc010zfj.1_Silent_p.T22T|TTN_uc002unb.2_Silent_p.T22T			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	22							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAAAGGTTGCGGTACTACCCT	0.438													6	41					0	0	0.02938	0	0		A	179669304	A	A	179669304	2	1	205	1	0	0	0	0	0	0	0	1	16761	1103	39	1		1	TTN	2	179669304	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	229958	179669304	63530069	33	99993											
ZNF804A	91752	broad.mit.edu	37	chr2	185802547	185802547	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagttgctccctgcaagccTaaaaagaaacggaggcgaaa	15	6	10	10	2	1	1	1	0	0	1	2	3	2	2	2	2	4	3	2	2	6	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:185802547T>G	uc002uph.2	+	4	3018	c.2424T>G	c.(2422-2424)CCT>CCG	p.P808P		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	808						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						CCTGCAAGCCTAAAAAGAAAC	0.383													5	49					0	0	0.021553	0	0		G	185802547	G	G	185802547	2	3	205	1	0	0	0	0	0	0	0	1	18195	1509	53	5		5	ZNF804A	2	185802547	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	6133243	185802547	57396826	34	99994											
SLC11A1	6556	broad.mit.edu	37	chr2	219258851	219258851	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctctccccagctcccgttCgccgtgctgcccatcctcac	3	10	7	21	3	2	0	1	0	1	0	6	0	4	0	6	0	4	4	6	0	0	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:219258851C>T	uc002vhv.2	+	13	1663	c.1323C>T	c.(1321-1323)TTC>TTT	p.F441F	SLC11A1_uc010zkc.1_Silent_p.F374F|SLC11A1_uc002vhu.1_Silent_p.F236F|SLC11A1_uc002vhw.2_Silent_p.F323F|SLC11A1_uc010fvr.2_Silent_p.F236F	NM_000578	NP_000569	P49279	NRAM1_HUMAN	natural resistance-associated macrophage protein	441	Helical; (Potential).			F -> V (in Ref. 5; CAA57541).	activation of protein kinase activity|antigen processing and presentation of peptide antigen|cadmium ion transmembrane transport|cellular cadmium ion homeostasis|cellular iron ion homeostasis|defense response to Gram-negative bacterium|defense response to protozoan|divalent metal ion export|inflammatory response|interleukin-2 production|interleukin-3 production|iron ion transport|L-arginine import|macrophage activation|MHC class II biosynthetic process|mRNA stabilization|multicellular organismal iron ion homeostasis|negative regulation of cytokine production|nitrite transport|phagocytosis|positive regulation of dendritic cell antigen processing and presentation|positive regulation of interferon-gamma production|positive regulation of phagocytosis|positive regulation of T-helper 1 type immune response|positive regulation of transcription from RNA polymerase II promoter|respiratory burst|response to interferon-gamma|response to lipopolysaccharide|T cell cytokine production|T cell proliferation involved in immune response|vacuolar acidification|wound healing	integral to plasma membrane|late endosome membrane|lysosome|phagocytic vesicle membrane|tertiary granule membrane	manganese ion transmembrane transporter activity|metal ion:hydrogen antiporter activity|protein homodimerization activity			ovary(3)|central_nervous_system(1)	4		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000195)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AGCTCCCGTTCGCCGTGCTGC	0.537													6	56					0	0	0.021553	0	0		T	219258851	T	T	219258851	2	4	205	1	0	0	0	0	0	0	0	1	14405	883	31	1		1	SLC11A1	2	219258851	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	33456304	219258851	23940522	35	99995											
DGKD	8527	broad.mit.edu	37	chr2	234299087	234299087	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggatctgacagatgccagCgtagctgaatccagtaccaa	12	8	11	10	1	1	3	0	2	1	1	2	4	2	4	3	1	4	3	3	1	4	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:234299087C>T	uc002vui.1	+	3	318	c.306C>T	c.(304-306)AGC>AGT	p.S102S	DGKD_uc002vuj.1_Silent_p.S58S	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	102	PH.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		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)	CAGATGCCAGCGTAGCTGAAT	0.423													7	52					0	0	0.02938	0	0		T	234299087	T	T	234299087	2	4	205	1	0	0	0	0	0	0	0	1	4473	767	27	1		1	DGKD	2	234299087	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	15040236	234299087	8900286	36	99996											
HDLBP	3069	broad.mit.edu	37	chr2	242181952	242181952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccctgataacaacggtgtCgcttcctgaaccttccacgg	8	9	9	15	3	0	2	0	2	0	0	3	2	2	2	5	2	3	1	5	2	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:242181952C>T	uc002waz.2	-	17	2320	c.2092G>A	c.(2092-2094)GAC>AAC	p.D698N	HDLBP_uc002wba.2_Missense_Mutation_p.D698N|HDLBP_uc002wbb.2_Missense_Mutation_p.D650N	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	698	KH 8.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		ACAACGGTGTCGCTTCCTGAA	0.602													4	42					0	0	0.009096	0	0		T	242181952	T	T	242181952	3	4	205	1	0	0	0	0	1	0	0	0	7041	884	31	1	1762	1	HDLBP	2	242181952	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	7882865	242181952	1017421	37	99997											
D2HGDH	728294	broad.mit.edu	37	chr2	242695360	242695360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccctgtggagcggctctacGacatcgtgactgacctgcgc	6	9	12	14	4	1	2	0	2	1	0	3	4	2	3	2	2	3	1	2	2	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr2:242695360G>A	uc002wce.1	+	9	1410	c.1237G>A	c.(1237-1239)GAC>AAC	p.D413N	D2HGDH_uc010zpc.1_RNA|D2HGDH_uc010fzq.1_Missense_Mutation_p.D279N|D2HGDH_uc002wcg.1_RNA|D2HGDH_uc002wch.2_RNA|D2HGDH_uc002wci.2_Missense_Mutation_p.D112N	NM_152783	NP_689996	Q8N465	D2HDH_HUMAN	D-2-hydroxyglutarate dehydrogenase precursor	413					2-oxoglutarate metabolic process|cellular protein metabolic process|response to cobalt ion|response to manganese ion|response to zinc ion	mitochondrial matrix	(R)-2-hydroxyglutarate dehydrogenase activity|flavin adenine dinucleotide binding|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		GCGGCTCTACGACATCGTGAC	0.567													9	79					0	0	0.047766	0	0		A	242695360	A	A	242695360	3	1	205	1	0	0	0	0	1	0	0	0	4216	1058	37	1	1267	1	D2HGDH	2	242695360	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	513408	242695360	504013	38	99998											
GRM7	2917	broad.mit.edu	37	chr3	6903385	6903385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaacgtgacgctgggcgcgCggatcctggacacttgttcc	6	8	13	14	5	0	1	0	1	0	0	2	3	2	3	3	3	1	2	3	3	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:6903385C>T	uc003bqm.2	+	1	584	c.310C>T	c.(310-312)CGG>TGG	p.R104W	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.R104W|GRM7_uc003bql.2_Missense_Mutation_p.R104W	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	104	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GCTGGGCGCGCGGATCCTGGA	0.597													8	42					0	0	0.047766	0	0		T	6903385	T	T	6903385	3	4	205	1	0	0	0	0	1	0	0	0	6818	759	27	1	312	1	GRM7	3	6903385	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		6903385	191119045	39	99999											
HDAC11	79885	broad.mit.edu	37	chr3	13538326	13538326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaggtgctgaggccccttCggacccagacaggaggaacc	10	4	15	12	1	0	2	0	1	0	1	1	6	0	6	4	6	2	1	4	6	2	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:13538326C>T	uc003bxy.2	+	4	476	c.343C>T	c.(343-345)CGG>TGG	p.R115W	HDAC11_uc010heb.2_Missense_Mutation_p.R87W|HDAC11_uc011aux.1_Intron|HDAC11_uc003bxz.2_Missense_Mutation_p.R87W|HDAC11_uc011auy.1_Missense_Mutation_p.R64W	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	115	Histone deacetylase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding			ovary(2)	2						GAGGCCCCTTCGGACCCAGAC	0.572											OREG0015411	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	31					0	0	0.069234	0	0		T	13538326	T	T	13538326	3	4	205	1	0	0	0	0	1	0	0	0	7022	875	31	1	357	1	HDAC11	3	13538326	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	6634941	13538326	184484104	40	1e+05											
SETD2	29072	broad.mit.edu	37	chr3	47098880	47098880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttgtttctgagcctcccGttgagccacctcttgctcaa	5	14	8	14	1	3	2	1	2	2	0	4	2	4	2	4	0	3	4	4	0	1	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:47098880G>A	uc003cqs.2	-	15	6447	c.6394C>T	c.(6394-6396)CGG>TGG	p.R2132W	SETD2_uc003cqv.2_Missense_Mutation_p.R2199W|SETD2_uc003cqt.1_RNA	NM_014159	NP_054878	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2132	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding	p.R1629fs*15(1)		kidney(24)|ovary(5)|skin(1)|central_nervous_system(1)|breast(1)	32		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)		TGAGCCTCCCGTTGAGCCACC	0.453			N|F|S|Mis		clear cell renal carcinoma								16	115					0	0	0.0333	0	0		A	47098880	A	A	47098880	3	1	205	1	0	0	0	0	1	0	0	0	14156	1144	40	1	1328	1	SETD2	3	47098880	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	33560554	47098880	150923550	41	100001											
STAB1	23166	broad.mit.edu	37	chr3	52556844	52556844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccaatggctccactgcccaCcctgtggttttccctgtggc	4	11	10	16	0	0	0	0	0	0	0	2	0	2	0	5	3	1	2	5	3	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:52556844C>A	uc003dej.2	+	62	6872	c.6798C>A	c.(6796-6798)CAC>CAA	p.H2266Q	STAB1_uc003dek.1_Missense_Mutation_p.H281Q|STAB1_uc003del.2_Missense_Mutation_p.H153Q	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2266	Extracellular (Potential).|Link.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CCACTGCCCACCCTGTGGTTT	0.612													21	119					7.41877e-09	8.41869e-09	0.062417	1	0		A	52556844	A	A	52556844	3	1	205	1	0	0	0	0	1	0	0	0	15262	506	18	5	7044	5	STAB1	3	52556844	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	5457964	52556844	145465586	42	100002											
ROBO2	6092	broad.mit.edu	37	chr3	77684060	77684060	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tcaaagacctcgacctaccaGcccattttctactgacagta	12	10	5	14	1	2	2	1	1	1	1	3	3	2	2	4	0	3	1	4	0	4	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:77684060G>T	uc003dpy.3	+	24	4443	c.3800G>T	c.(3799-3801)AGC>ATC	p.S1267I	ROBO2_uc003dpz.2_Missense_Mutation_p.S1332I|ROBO2_uc011bgj.1_RNA|ROBO2_uc011bgk.1_Missense_Mutation_p.S1271I	NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	1267	Cytoplasmic (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)		CGACCTACCAGCCCATTTTCT	0.468													11	121					0.00010058	0.000104587	0.09319	1	0		T	77684060	T	T	77684060	3	4	205	1	0	0	0	0	1	0	0	0	13539	971	34	5	3896	5	ROBO2	3	77684060	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	25127216	77684060	120338370	43	100003											
ARL13B	200894	broad.mit.edu	37	chr3	93758768	93758768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaactcgatggaaccagtgGtctggctgagttggacccag	9	9	14	9	1	1	2	0	2	1	0	2	5	1	4	2	4	2	2	2	4	2	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:93758768G>A	uc003drc.2	+	6	1020	c.734G>A	c.(733-735)GGT>GAT	p.G245D	ARL13B_uc010hop.2_Missense_Mutation_p.G96D|ARL13B_uc003drd.2_Missense_Mutation_p.G138D|ARL13B_uc003dre.2_Missense_Mutation_p.G230D|ARL13B_uc003drf.2_Missense_Mutation_p.G245D|ARL13B_uc003drg.2_Missense_Mutation_p.G142D	NM_182896	NP_878899	Q3SXY8	AR13B_HUMAN	ADP-ribosylation factor-like 2-like 1 isoform 1	245	Potential.						GTP binding				0						GGAACCAGTGGTCTGGCTGAG	0.388													4	27					0	0	0.014758	0	0		A	93758768	A	A	93758768	3	1	205	1	0	0	0	0	1	0	0	0	929	1261	44	4	756	4	ARL13B	3	93758768	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	16074708	93758768	104263662	44	100004											
COPB2	9276	broad.mit.edu	37	chr3	139078162	139078162	+	Silent	SNP	C	A	A	0	0	0	1	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	gccaagaaggcagcttctggCagccgtccagttctaattaa	11	9	10	11	1	2	1	0	0	2	1	3	1	3	1	3	2	2	4	3	2	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:139078162C>A	uc003etf.3	-	18	2383	c.2253G>T	c.(2251-2253)CTG>CTT	p.L751L	COPB2_uc011bmv.1_Silent_p.L722L|COPB2_uc010hui.2_Silent_p.L722L	NM_004766	NP_004757	P35606	COPB2_HUMAN	coatomer protein complex, subunit beta 2 (beta	751	WD 9.				COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(2)	2						CAGCTTCTGGCAGCCGTCCAG	0.403													10	86					4.68919e-08	5.27534e-08	0.069234	1	0		A	139078162	A	A	139078162	2	1	205	1	0	0	0	0	0	0	0	1	3732	697	25	5		5	COPB2	3	139078162	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	45319394	139078162	58944268	45	100005											
CLSTN2	64084	broad.mit.edu	37	chr3	140282887	140282887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgggtgtgtaccgggtccGgatcgcccaccagcacttca	7	8	12	14	3	1	0	1	0	0	0	3	1	2	1	4	3	2	2	4	3	1	2	rs140778211		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:140282887G>A	uc003etn.2	+	16	2757	c.2567G>A	c.(2566-2568)CGG>CAG	p.R856Q		NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	856	Cytoplasmic (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						TACCGGGTCCGGATCGCCCAC	0.547										HNSCC(16;0.037)			24	95					0	0	0.076483	0	0		A	140282887	A	A	140282887	3	1	205	1	0	0	0	0	1	0	0	0	3565	1116	39	1	2629	1	CLSTN2	3	140282887	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	1204725	140282887	57739543	46	100006											
CCNL1	57018	broad.mit.edu	37	chr3	156866355	156866355	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctcgagctgtatgttccaGatcgactccgcctattatta	9	14	7	11	3	1	1	0	0	1	1	5	3	3	1	3	0	1	3	3	0	4	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:156866355G>T	uc003fbf.2	-	11	1855	c.1256C>A	c.(1255-1257)TCT>TAT	p.S419Y	CCNL1_uc003fbd.1_Intron|CCNL1_uc003fbe.2_Missense_Mutation_p.S213Y|CCNL1_uc003fbg.2_RNA|CCNL1_uc011bor.1_RNA	NM_020307	NP_064703	Q9UK58	CCNL1_HUMAN	cyclin L1	419	RS.				regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			lung(3)|breast(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(72;0.0295)|Lung(72;0.0308)			GTATGTTCCAGATCGACTCCG	0.428													10	59					0.000978159	0.000993383	0.080935	1	0		T	156866355	T	T	156866355	3	4	205	1	0	0	0	0	1	0	0	0	2934	942	33	5	328	5	CCNL1	3	156866355	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	16583468	156866355	41156075	47	100007											
SI	6476	broad.mit.edu	37	chr3	164785157	164785157	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgttgcttttcctaataacTtggatgctaaatgggttttg	8	17	9	7	1	0	0	0	0	0	0	1	1	1	1	2	2	3	4	2	2	4	9			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr3:164785157T>G	uc003fei.2	-	6	668	c.606A>C	c.(604-606)CAA>CAC	p.Q202H		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	202	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TCCTAATAACTTGGATGCTAA	0.308										HNSCC(35;0.089)			9	73					0	0	0.047766	0	0		G	164785157	G	G	164785157	3	3	205	1	0	0	0	0	1	0	0	0	14322	1606	56	5	5049	5	SI	3	164785157	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	7918802	164785157	33237273	48	100008											
PIGG	54872	broad.mit.edu	37	chr4	515701	515701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtctgttctgaccaacGtgctcgtgggtggaaacacc	7	12	12	10	2	2	1	0	1	2	0	3	2	2	2	2	2	3	2	2	2	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr4:515701G>A	uc003gak.3	+	8	1721	c.1585G>A	c.(1585-1587)GTG>ATG	p.V529M	PIGG_uc003gaj.3_Missense_Mutation_p.V521M|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.V396M|PIGG_uc003gal.3_Missense_Mutation_p.V440M|PIGG_uc003gai.2_Intron|PIGG_uc011buw.1_3'UTR|PIGG_uc003gam.2_3'UTR|PIGG_uc003gan.2_Missense_Mutation_p.V440M	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	529					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity			central_nervous_system(2)|ovary(1)|skin(1)	4						TCTGACCAACGTGCTCGTGGG	0.572													11	29					0	0	0.069234	0	0		A	515701	A	A	515701	3	1	205	1	0	0	0	0	1	0	0	0	11907	1145	40	1	1615	1	PIGG	4	515701	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		515701	190638575	49	100009											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984183	41984183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaacctctacgtccccaaccGgaaggtgaagtccctgtgct	10	8	9	14	2	1	1	0	1	1	0	3	2	3	2	5	2	4	1	5	2	5	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr4:41984183G>A	uc003gwk.2	+	1	471	c.374G>A	c.(373-375)CGG>CAG	p.R125Q		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	125										skin(1)	1						GTCCCCAACCGGAAGGTGAAG	0.562													16	83					0	0	0.146539	0	0		A	41984183	A	A	41984183	3	1	205	1	0	0	0	0	1	0	0	0	4274	1116	39	1	376	1	DCAF4L1	4	41984183	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	41468482	41984183	149170093	50	100010											
UNC5C	8633	broad.mit.edu	37	chr4	96256683	96256683	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaggttcacgggcttattcTtcacaatataagcttcttca	11	14	6	10	1	5	0	3	0	2	0	5	0	5	0	0	2	1	3	0	2	4	8			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr4:96256683T>A	uc003htp.1	-	2	378	c.224A>T	c.(223-225)AAG>ATG	p.K75M	UNC5C_uc010ilc.1_Missense_Mutation_p.K75M|UNC5C_uc003htq.2_Missense_Mutation_p.K75M	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	75	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		GGGCTTATTCTTCACAATATA	0.423													12	38					0	0	0.132662	0	0		A	96256683	A	A	96256683	3	1	205	1	0	0	0	0	1	0	0	0	17019	1609	56	5	2631	5	UNC5C	4	96256683	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	54272500	96256683	94897593	51	100011											
TACR3	6870	broad.mit.edu	37	chr4	104511023	104511023	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgactgtcatggactccattCtggtcacggtgtacatactg	8	12	10	11	2	3	0	2	0	1	0	4	2	4	1	1	3	2	1	1	3	2	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr4:104511023C>A	uc003hxe.1	-	5	1357	c.1214G>T	c.(1213-1215)AGA>ATA	p.R405I		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	405	Cytoplasmic (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)		GGACTCCATTCTGGTCACGGT	0.507													41	110					1.07121e-22	1.25939e-22	0.092188	1	0		A	104511023	A	A	104511023	3	1	205	1	0	0	0	0	1	0	0	0	15532	913	32	5	187	5	TACR3	4	104511023	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	8254340	104511023	86643253	52	100012											
GYPA	2993	broad.mit.edu	37	chr4	144918764	144918764	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagccatcacacacaaaaTaatgagtattatcactacag	18	8	4	11	0	2	1	2	1	0	0	2	1	2	1	2	0	2	1	2	0	6	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr4:144918764T>G	uc003ijn.2	-	5	411	c.295A>C	c.(295-297)ATT>CTT	p.I99L	GYPB_uc011chs.1_Intron|GYPB_uc011cht.1_RNA|GYPB_uc011chu.1_RNA|GYPB_uc010ioo.1_Intron|GYPB_uc010iop.2_RNA|GYPB_uc011chv.1_RNA|GYPB_uc011chw.1_Intron|GYPB_uc011chx.1_RNA|GYPB_uc003ijm.1_Missense_Mutation_p.I67L|GYPB_uc011chy.1_RNA|GYPB_uc011chz.1_Intron			P02724	GLPA_HUMAN	SubName: Full=Glycophorin MiX; Flags: Fragment;	96	Helical.				interspecies interaction between organisms	membrane fraction	receptor activity			central_nervous_system(2)	2	all_hematologic(180;0.15)					ACACACAAAATAATGAGTATT	0.328													7	28					0	0	0.02938	0	0		G	144918764	G	G	144918764	3	3	205	1	0	0	0	0	1	0	0	0	6924	1406	49	5		5	GYPA	4	144918764	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	40407741	144918764	46235512	53	100013											
KLKB1	3818	broad.mit.edu	37	chr4	187158094	187158094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atttcacaaggcagagtaccGgtgagtacaattcaaggtgt	13	10	11	7	1	2	2	2	1	0	1	2	2	2	2	1	3	2	3	1	3	5	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr4:187158094G>A	uc003iyy.2	+	5	559	c.488G>A	c.(487-489)CGG>CAG	p.R163Q	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.R125Q	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	163	Apple 2.				blood coagulation, intrinsic pathway|Factor XII activation|fibrinolysis|plasminogen activation|positive regulation of fibrinolysis	cytoplasm|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(1)	1		all_cancers(14;1.55e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00664)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.29e-10)|BRCA - Breast invasive adenocarcinoma(30;3.8e-05)|GBM - Glioblastoma multiforme(59;0.000131)|STAD - Stomach adenocarcinoma(60;0.000292)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.168)		GCAGAGTACCGGTGAGTACAA	0.413													7	34					0	0	0.038147	0	0		A	187158094	A	A	187158094	3	1	205	1	0	0	0	0	1	0	0	0	8428	1130	39	1	502	1	KLKB1	4	187158094	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	42239330	187158094	3996182	54	100014											
TTC23L	153657	broad.mit.edu	37	chr5	34850318	34850318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaacaaggagctgattcGatgtgtcatcctttctcgga	11	11	10	9	2	2	1	1	1	1	0	5	4	3	3	1	2	3	2	1	2	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:34850318G>T	uc003jiu.2	+	4	387	c.284G>T	c.(283-285)CGA>CTA	p.R95L		NM_144725	NP_653326	Q6PF05	TT23L_HUMAN	tetratricopeptide repeat domain 23-like	95	Potential.						binding			central_nervous_system(1)	1						GAGCTGATTCGATGTGTCATC	0.438													15	174					5.35267e-07	5.89471e-07	0.043863	1	0		T	34850318	T	T	34850318	3	4	205	1	0	0	0	0	1	0	0	0	16717	1058	37	5	294	5	TTC23L	5	34850318	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		34850318	146064942	55	100015											
MRPS30	10884	broad.mit.edu	37	chr5	44809103	44809103	+	Silent	SNP	T	G	G	0	1	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	tggaggcctttgctacgcggTccgaggctttcattgcacac	6	11	12	12	3	1	0	1	0	0	0	2	2	2	1	2	4	3	3	2	4	1	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:44809103T>G	uc003joh.2	+	1	77	c.39T>G	c.(37-39)GGT>GGG	p.G13G	MRPS30_uc003joi.1_5'Flank	NM_016640	NP_057724	Q9NP92	RT30_HUMAN	mitochondrial ribosomal protein S30	13					apoptosis|translation	mitochondrion|ribosome	structural constituent of ribosome				0	Lung NSC(6;8.08e-07)					TGCTACGCGGTCCGAGGCTTT	0.637													3	12					0	0	0.115264	0	0		G	44809103	G	G	44809103	2	3	205	1	0	0	0	0	0	0	0	1	9858	1654	58	5		5	MRPS30	5	44809103	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	9958785	44809103	136106157	56	100016											
HCN1	348980	broad.mit.edu	37	chr5	45262804	45262804	+	Missense_Mutation	SNP	T	G	G	0	1	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	gagcgattgcctgcaccatcTccctgtcatgtttcacaatc	8	12	7	14	1	3	0	2	0	1	0	5	2	3	0	3	0	3	2	3	0	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:45262804T>G	uc003jok.2	-	8	1917	c.1892A>C	c.(1891-1893)GAG>GCG	p.E631A		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	631	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CTGCACCATCTCCCTGTCATG	0.453													31	58					0	0	0.134883	0	0		G	45262804	G	G	45262804	3	3	205	1	0	0	0	0	1	0	0	0	7012	1551	54	5	784	5	HCN1	5	45262804	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	453701	45262804	135652456	57	100017											
HCN1	348980	broad.mit.edu	37	chr5	45645310	45645310	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcccattgatgtatgtatcTaattaaccttgaaagtcgta	12	16	6	7	1	1	2	0	2	1	0	3	2	2	2	2	0	1	3	2	0	6	8			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:45645310T>C	uc003jok.2	-	2	851	c.826A>G	c.(826-828)AGA>GGA	p.R276G		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	276	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						TGTATGTATCTAATTAACCTT	0.333													4	32					0	0	0.009096	0	0		C	45645310	C	C	45645310	3	2	205	1	0	0	0	0	1	0	0	0	7012	1530	53	3	1874	3	HCN1	5	45645310	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	382506	45645310	135269950	58	100018											
ADAMTS19	171019	broad.mit.edu	37	chr5	128984623	128984623	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatagtgttagaacttcctcCccaaagcatatacttcagtg	12	13	6	10	0	1	1	1	0	0	1	3	1	3	1	3	0	3	2	3	0	7	7			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:128984623C>A	uc003kvb.1	+	13	2118	c.2118C>A	c.(2116-2118)TCC>TCA	p.S706S	ADAMTS19_uc010jdh.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	706	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|breast(2)|lung(1)|skin(1)	9		all_cancers(142;0.0148)|Prostate(80;0.0494)|Breast(839;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.222)		GAACTTCCTCCCCAAAGCATA	0.438													24	109					5.35356e-11	6.18265e-11	0.076483	1	0		A	128984623	A	A	128984623	2	1	205	1	0	0	0	0	0	0	0	1	264	610	22	5		5	ADAMTS19	5	128984623	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	83339313	128984623	51930637	59	100019											
PCDHA9	9752	broad.mit.edu	37	chr5	140229433	140229433	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggccgacgtgaacgacaaCgcaccagcgttcgcgcagtc	9	5	13	14	7	0	1	0	1	0	0	2	3	0	1	2	1	3	3	2	1	2	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:140229433C>T	uc003lhu.2	+	1	2077	c.1353C>T	c.(1351-1353)AAC>AAT	p.N451N	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.N451N	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	451	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAACGACAACGCACCAGCGT	0.672													18	127					0	0	0.049695	0	0		T	140229433	T	T	140229433	2	4	205	1	0	0	0	0	0	0	0	1	11550	535	19	1		1	PCDHA9	5	140229433	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	11244810	140229433	40685827	60	100020											
PCDHA13	56136	broad.mit.edu	37	chr5	140261977	140261977	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccgaggaagcaaaacacGgcaccttcgtgggccgcatc	10	5	11	15	4	0	0	0	0	0	0	3	2	1	1	4	3	2	3	4	3	3	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:140261977G>A	uc003lif.2	+	1	124	c.124G>A	c.(124-126)GGC>AGC	p.G42S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.G42S|PCDHA13_uc003lid.2_Missense_Mutation_p.G42S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	42	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCAAAACACGGCACCTTCGT	0.657													37	116					0	0	0.080422	0	0		A	140261977	A	A	140261977	3	1	205	1	0	0	0	0	1	0	0	0	11542	1116	39	1	126	1	PCDHA13	5	140261977	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	32544	140261977	40653283	61	100021											
PCDHB4	56131	broad.mit.edu	37	chr5	140503532	140503532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacaatggcgagcctccgcGctcggccaccgccacgctgc	6	4	13	18	6	0	0	0	0	0	0	2	2	1	1	5	3	2	2	5	3	1	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:140503532G>A	uc003lip.1	+	1	1952	c.1952G>A	c.(1951-1953)CGC>CAC	p.R651H		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	651	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAGCCTCCGCGCTCGGCCACC	0.706													8	86					0	0	0.038147	0	0		A	140503532	A	A	140503532	3	1	205	1	0	0	0	0	1	0	0	0	11563	1087	38	1	1954	1	PCDHB4	5	140503532	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	241555	140503532	40411728	62	100022											
PCDHGB2	56103	broad.mit.edu	37	chr5	140741307	140741307	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagctcacactgcaggcccgCgaccagggctcgcccgcgct	6	4	13	18	5	1	0	1	0	0	0	2	2	1	0	3	2	2	4	3	2	0	0	rs1860252		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:140741307C>T	uc003ljs.1	+	1	1605	c.1605C>T	c.(1603-1605)CGC>CGT	p.R535R	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Silent_p.R535R|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	535	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGGCCCGCGACCAGGGCT	0.687													6	49					0	0	0.02938	0	0		T	140741307	T	T	140741307	2	4	205	1	0	0	0	0	0	0	0	1	11582	755	27	1		1	PCDHGB2	5	140741307	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	237775	140741307	40173953	63	100023											
PCDHGB3	56102	broad.mit.edu	37	chr5	140752045	140752045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagtttcacctagtagtggCgttggccttgatctcagtgc	7	13	11	10	1	2	1	2	1	1	0	3	1	2	1	2	2	1	3	2	2	2	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:140752045C>T	uc003ljw.1	+	1	2084	c.2084C>T	c.(2083-2085)GCG>GTG	p.A695V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.A695V|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	695	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTAGTAGTGGCGTTGGCCTTG	0.572													11	89					0	0	0.069234	0	0		T	140752045	T	T	140752045	3	4	205	1	0	0	0	0	1	0	0	0	11583	768	27	1	2086	1	PCDHGB3	5	140752045	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	10738	140752045	40163215	64	100024											
PCDHGB4	8641	broad.mit.edu	37	chr5	140768837	140768837	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atagtccacgtggccgagaaCaacccgcctggagcctctat	10	7	10	14	3	1	1	0	0	1	1	2	3	2	2	5	2	3	0	5	2	4	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:140768837C>A	uc003lkc.1	+	1	1386	c.1386C>A	c.(1384-1386)AAC>AAA	p.N462K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.N462K	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	462	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGCCGAGAACAACCCGCCTG	0.547													21	104					8.34094e-07	9.14699e-07	0.049695	1	0		A	140768837	A	A	140768837	3	1	205	1	0	0	0	0	1	0	0	0	11584	477	17	5	1388	5	PCDHGB4	5	140768837	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	16792	140768837	40146423	65	100025											
ARAP3	64411	broad.mit.edu	37	chr5	141052170	141052170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcttcgactcttggtctccCggacgctgcagccctgcagt	5	10	11	15	3	2	0	0	0	2	0	4	2	2	1	2	2	4	4	2	2	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:141052170C>T	uc003llm.2	-	9	1412	c.1334G>A	c.(1333-1335)CGG>CAG	p.R445Q	ARAP3_uc011dbe.1_Missense_Mutation_p.R107Q|ARAP3_uc003lln.2_Missense_Mutation_p.R367Q|ARAP3_uc003llo.1_Missense_Mutation_p.R445Q	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	445	PH 2.				cytoskeleton organization|negative regulation of cell migration|negative regulation of Rho protein signal transduction|regulation of ARF GTPase activity|regulation of cell shape|small GTPase mediated signal transduction|vesicle-mediated transport	cytoskeleton|cytosol|lamellipodium|plasma membrane|ruffle	ARF GTPase activator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|Rho GTPase activator activity|zinc ion binding			breast(5)|ovary(1)|large_intestine(1)	7						CTTGGTCTCCCGGACGCTGCA	0.637													5	38					0	0	0.014758	0	0		T	141052170	T	T	141052170	3	4	205	1	0	0	0	0	1	0	0	0	840	652	23	1	3400	1	ARAP3	5	141052170	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	283333	141052170	39863090	66	100026											
ZNF454	285676	broad.mit.edu	37	chr5	178391973	178391973	+	Missense_Mutation	SNP	A	G	G	1	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	gtggaaaagtcttctctaagAgttcaactcttaataaacat	15	13	6	7	0	4	1	1	0	3	1	5	2	4	2	0	1	2	1	0	1	7	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr5:178391973A>G	uc003mjo.1	+	5	839	c.568A>G	c.(568-570)AGT>GGT	p.S190G	ZNF454_uc010jkz.1_Missense_Mutation_p.S190G	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	190	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		CTTCTCTAAGAGTTCAACTCT	0.338													8	34					0	0	0.047766	0	0		G	178391973	G	G	178391973	3	3	205	1	0	0	0	0	1	0	0	0	17948	304	11	3	582	3	ZNF454	5	178391973	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	37339803	178391973	2523287	67	100027											
ATXN1	6310	broad.mit.edu	37	chr6	16326864	16326864	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agccgccgccggggaggccaCggactgcaccacaggcaggt	8	2	16	15	4	0	0	0	0	0	0	0	2	0	2	5	6	2	2	5	6	0	0	rs139918586		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:16326864C>T	uc003nbt.2	-	8	2649	c.1678G>A	c.(1678-1680)GTG>ATG	p.V560M	ATXN1_uc010jpi.2_Missense_Mutation_p.V560M|ATXN1_uc010jpj.1_Intron	NM_000332	NP_000323	P54253	ATX1_HUMAN	ataxin 1	560	Self-association.|Interaction with USP7.|RNA-binding.				cell death|negative regulation of transcription, DNA-dependent|nuclear export|RNA processing	cytoplasm|nuclear inclusion body|nuclear matrix|nucleoplasm	identical protein binding|poly(G) RNA binding|poly(U) RNA binding|protein binding|protein C-terminus binding|protein self-association			skin(3)|central_nervous_system(1)	4	Breast(50;0.063)|Ovarian(93;0.0733)	all_hematologic(90;0.000682)|Ovarian(999;0.00973)				GGGGAGGCCACGGACTGCACC	0.632													8	50					0	0	0.047766	0	0		T	16326864	T	T	16326864	3	4	205	1	0	0	0	0	1	0	0	0	1210	536	19	1	777	1	ATXN1	6	16326864	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		16326864	154788203	68	100028											
NUP153	9972	broad.mit.edu	37	chr6	17629497	17629497	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtccaaacttaaaattatcaTtcttactatcttttttaact	13	19	1	8	0	3	0	1	0	2	0	4	0	4	0	1	0	3	0	1	0	7	8			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:17629497T>C	uc003ncd.1	-	18	3133	c.2933A>G	c.(2932-2934)AAT>AGT	p.N978S	NUP153_uc011dje.1_Missense_Mutation_p.N1009S|NUP153_uc010jpl.1_Missense_Mutation_p.N936S	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	978					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			AAAATTATCATTCTTACTATC	0.323													8	52					0	0	0.058154	0	0		C	17629497	C	C	17629497	3	2	205	1	0	0	0	0	1	0	0	0	10774	1493	52	3	1514	3	NUP153	6	17629497	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	1302633	17629497	153485570	69	100029											
SLC44A4	80736	broad.mit.edu	37	chr6	31833651	31833651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgccccatccttaccGgagtgtgcggatgaaggcag	7	7	13	14	2	0	1	0	1	0	0	1	3	1	3	6	3	3	1	6	3	2	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:31833651G>A	uc010jti.2	-	14	1552	c.1486C>T	c.(1486-1488)CGT>TGT	p.R496C	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	496	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	CATCCTTACCGGAGTGTGCGG	0.602													9	84					0	0	0.058154	0	0		A	31833651	A	A	31833651	3	1	205	1	0	0	0	0	1	0	0	0	14663	1130	39	1	678	1	SLC44A4	6	31833651	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	14204154	31833651	139281416	70	100030											
SCUBE3	222663	broad.mit.edu	37	chr6	35210049	35210049	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccaaatgccgtttgcacCtgcgaaacaaaggcaaaaca	16	6	8	11	2	0	0	0	0	0	0	0	1	0	0	3	1	6	3	3	1	5	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:35210049C>T	uc003okf.1	+	13	1492	c.1486C>T	c.(1486-1488)CTG>TTG	p.L496L	SCUBE3_uc003okg.1_Silent_p.L495L|SCUBE3_uc003okh.1_Silent_p.L383L	NM_152753	NP_689966	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	496					protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			skin(1)	1						CCGTTTGCACCTGCGAAACAA	0.527													12	88					0	0	0.09319	0	0		T	35210049	T	T	35210049	2	4	205	1	0	0	0	0	0	0	0	1	13971	680	24	4		4	SCUBE3	6	35210049	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	3376398	35210049	135905018	71	100031											
ABCC10	89845	broad.mit.edu	37	chr6	43415571	43415571	+	Silent	SNP	C	G	G	0	0	0	1	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	gtgggccgcacaggctccggCaagtcttccctgttgttggt	4	11	14	12	2	1	0	0	0	1	0	3	0	3	0	3	4	0	5	3	4	1	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:43415571C>G	uc003ouy.1	+	18	4070	c.3855C>G	c.(3853-3855)GGC>GGG	p.G1285G	ABCC10_uc003ouz.1_Silent_p.G1257G|ABCC10_uc010jyo.1_Silent_p.G391G	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	1285	ABC transporter 2.|ATP 2 (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			CAGGCTCCGGCAAGTCTTCCC	0.652													22	111					0	0	0.055883	0	0		G	43415571	G	G	43415571	2	3	205	1	0	0	0	0	0	0	0	1	50	697	25	5		5	ABCC10	6	43415571	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	8205522	43415571	127699496	72	100032											
TDRD6	221400	broad.mit.edu	37	chr6	46660186	46660186	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatgcattacttttcccaaCggaccagcgaggctgcaata	11	10	9	11	2	0	1	0	1	0	0	1	3	1	2	2	2	5	3	2	2	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:46660186C>A	uc003oyj.2	+	1	4321	c.4321C>A	c.(4321-4323)CGG>AGG	p.R1441R	TDRD6_uc010jze.2_Silent_p.R1435R	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1441					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CTTTTCCCAACGGACCAGCGA	0.388													33	109					8.16721e-17	9.55893e-17	0.045705	1	0		A	46660186	A	A	46660186	2	1	205	1	0	0	0	0	0	0	0	1	15759	527	19	5		5	TDRD6	6	46660186	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	3244615	46660186	124454881	73	100033											
IMPG1	3617	broad.mit.edu	37	chr6	76751766	76751766	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacattttgtacattttttCagtactttcagttgtttcat	8	22	5	6	0	3	1	3	1	0	0	3	1	3	1	0	0	2	4	0	0	2	10			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:76751766C>A	uc003pik.1	-	2	275	c.145G>T	c.(145-147)GAA>TAA	p.E49*		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	49					visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				TACATTTTTTCAGTACTTTCA	0.353													8	79					3.09899e-07	3.44185e-07	0.047766	1	0		A	76751766	A	A	76751766	4	1	205	1	0	0	0	0	0	1	0	0	7744	835	29	5	2312	5	IMPG1	6	76751766	Nonsense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	30091580	76751766	94363301	74	100034											
UBE2CBP	90025	broad.mit.edu	37	chr6	83748171	83748171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcccaacattaccttgcaacGcttacaaattactttggtat	12	14	4	11	1	0	0	0	0	0	0	1	0	1	0	2	1	6	3	2	1	7	6	rs147405452	byFrequency	TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:83748171G>A	uc003pjp.2	-	5	739	c.631C>T	c.(631-633)CGT>TGT	p.R211C	UBE2CBP_uc011dyx.1_RNA|UBE2CBP_uc003pjr.2_Missense_Mutation_p.R179C	NM_198920	NP_944602	Q7Z6J8	UB2CB_HUMAN	ubiquitin-conjugating enzyme E2C binding	211						cytoplasm	ligase activity			ovary(1)	1		all_cancers(76;0.000374)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0548)		BRCA - Breast invasive adenocarcinoma(397;0.0944)		ACCTTGCAACGCTTACAAATT	0.328													7	73					0	0	0.038147	0	0		A	83748171	A	A	83748171	3	1	205	1	0	0	0	0	1	0	0	0	16873	1087	38	1	562	1	UBE2CBP	6	83748171	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	6996405	83748171	87366896	75	100035											
PRDM13	59336	broad.mit.edu	37	chr6	100060991	100060991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcacacctgcgtttccactgCgtgttcagcggcggtggagg	5	9	15	12	4	1	0	1	0	0	0	2	1	2	1	2	4	3	3	2	4	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:100060991C>T	uc003pqg.1	+	4	741	c.480C>T	c.(478-480)TGC>TGT	p.C160C		NM_021620	NP_067633	Q9H4Q3	PRD13_HUMAN	PR domain containing 13	160					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(76;1.64e-05)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0128)|Colorectal(196;0.069)|Lung NSC(302;0.186)		BRCA - Breast invasive adenocarcinoma(108;0.0598)		GTTTCCACTGCGTGTTCAGCG	0.627													6	38					0	0	0.021553	0	0		T	100060991	T	T	100060991	2	4	205	1	0	0	0	0	0	0	0	1	12476	776	27	1		1	PRDM13	6	100060991	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	16312820	100060991	71054076	76	100036											
FOXO3	2309	broad.mit.edu	37	chr6	108985242	108985242	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccgccatcccagccatcGcccactgggggactcatgca	7	6	9	19	2	1	0	1	0	0	0	4	1	3	1	5	2	2	1	5	2	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:108985242G>A	uc003psk.2	+	3	1522	c.1206G>A	c.(1204-1206)TCG>TCA	p.S402S	FOXO3_uc003psn.2_Intron|FOXO3_uc003psm.2_Silent_p.S402S|FOXO3_uc011ean.1_Silent_p.S182S|FOXO3_uc010kdj.1_Silent_p.S182S	NM_201559	NP_963853	O43524	FOXO3_HUMAN	forkhead box O3A	402					antral ovarian follicle growth|apoptosis|embryo development|glucose homeostasis|induction of apoptosis|initiation of primordial ovarian follicle growth|insulin receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|oocyte maturation|ovulation from ovarian follicle|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			central_nervous_system(4)|lung(2)	6		all_cancers(87;1.78e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;3.88e-05)|Colorectal(196;0.0294)|all_lung(197;0.0487)|Lung SC(18;0.152)		Epithelial(106;0.000759)|all cancers(137;0.00121)|BRCA - Breast invasive adenocarcinoma(108;0.00163)|OV - Ovarian serous cystadenocarcinoma(136;0.00718)		CCCAGCCATCGCCCACTGGGG	0.582													17	50					0	0	0.038395	0	0		A	108985242	A	A	108985242	2	1	205	1	0	0	0	0	0	0	0	1	6038	1074	38	1		1	FOXO3	6	108985242	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	8924251	108985242	62129825	77	100037											
TRDN	10345	broad.mit.edu	37	chr6	123892170	123892170	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaggctgcaggggagctgaAcgtcgtcactatgtcttctg	7	10	13	11	2	3	1	1	1	2	0	4	2	3	2	1	3	3	3	1	3	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:123892170A>C	uc003pzj.1	-	2	152	c.130T>G	c.(130-132)TTC>GTC	p.F44V	TRDN_uc003pzk.1_Missense_Mutation_p.F44V|TRDN_uc003pzl.1_Missense_Mutation_p.F44V|TRDN_uc010ken.2_Missense_Mutation_p.F44V|TRDN_uc010keo.1_Missense_Mutation_p.F44V	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	44	Cytoplasmic.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		GGGGAGCTGAACGTCGTCACT	0.463													34	65					0	0	0.054565	0	0		C	123892170	C	C	123892170	3	2	205	1	0	0	0	0	1	0	0	0	16494	43	2	5	2219	5	TRDN	6	123892170	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	14906928	123892170	47222897	78	100038											
C6orf174	387104	broad.mit.edu	37	chr6	127837188	127837188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgccagcccctgggcggcGgcggctgcggagcgcccccc	2	3	16	20	6	0	0	0	0	0	0	1	1	0	1	6	5	3	1	6	5	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:127837188G>A	uc003qbd.2	-	2	1437	c.572C>T	c.(571-573)CCG>CTG	p.P191L		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	191	Gly-rich.					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CCTGGGCGGCGGCGGCTGCGG	0.637													3	11					0	0	0.115264	0	0		A	127837188	A	A	127837188	3	1	205	1	0	0	0	0	1	0	0	0	2348	1116	39	1	2295	1	C6orf174	6	127837188	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	3945018	127837188	43277879	79	100039											
BCLAF1	9774	broad.mit.edu	37	chr6	136599126	136599126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgtctttgcaggacttcttCgtgaagggatgtgatgaatt	8	16	12	5	1	2	3	0	3	2	0	3	5	2	5	0	2	1	1	0	2	2	5	rs140335385	byFrequency	TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:136599126C>T	uc003qgx.1	-	4	1146	c.893G>A	c.(892-894)CGA>CAA	p.R298Q	BCLAF1_uc003qgw.1_Missense_Mutation_p.R298Q|BCLAF1_uc003qgy.1_Missense_Mutation_p.R296Q|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.R296Q	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	298					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		AGGACTTCTTCGTGAAGGGAT	0.468													15	55					0	0	0.11911	0	0		T	136599126	T	T	136599126	3	4	205	1	0	0	0	0	1	0	0	0	1384	884	31	1	1909	1	BCLAF1	6	136599126	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	8761938	136599126	34515941	80	100040											
SHPRH	257218	broad.mit.edu	37	chr6	146244889	146244889	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aattctattgctctgtggatCacatttagccaccaaggaga	12	12	8	9	0	3	1	1	0	2	1	3	3	3	2	2	2	2	1	2	2	4	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:146244889C>G	uc003qlf.2	-	18	3834	c.3435G>C	c.(3433-3435)GTG>GTC	p.V1145V	SHPRH_uc003qld.2_Silent_p.V1154V|SHPRH_uc003qle.2_Silent_p.V1154V|SHPRH_uc003qlg.1_Silent_p.V701V|SHPRH_uc003qlh.2_Silent_p.V70V|SHPRH_uc003qli.1_Silent_p.V70V	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	1145					DNA repair|nucleosome assembly	nucleosome|nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding			ovary(1)|kidney(1)|central_nervous_system(1)	3		Ovarian(120;0.0365)		OV - Ovarian serous cystadenocarcinoma(155;1.47e-07)|GBM - Glioblastoma multiforme(68;0.0124)		CTCTGTGGATCACATTTAGCC	0.363													4	38					0	0	0.009096	0	0		G	146244889	G	G	146244889	2	3	205	1	0	0	0	0	0	0	0	1	14316	813	29	5		5	SHPRH	6	146244889	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	9645763	146244889	24870178	81	100041											
GRM1	2911	broad.mit.edu	37	chr6	146720447	146720447	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgggtgtggtggcccctttgGgctacaatggactcctcatc	5	12	13	11	0	1	0	1	0	0	0	3	1	2	1	3	5	1	1	3	5	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:146720447G>A	uc010khw.1	+	8	2742	c.2272G>A	c.(2272-2274)GGC>AGC	p.G758S	GRM1_uc010khv.1_Missense_Mutation_p.G758S|GRM1_uc003qll.2_Missense_Mutation_p.G758S|GRM1_uc011edz.1_Missense_Mutation_p.G758S|GRM1_uc011eea.1_Missense_Mutation_p.G758S	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	758	Helical; Name=5; (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	GGCCCCTTTGGGCTACAATGG	0.512													11	110					0	0	0.09319	0	0		A	146720447	A	A	146720447	3	1	205	1	0	0	0	0	1	0	0	0	6812	1232	43	4	2298	4	GRM1	6	146720447	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	475558	146720447	24394620	82	100042											
PARK2	5071	broad.mit.edu	37	chr6	162206908	162206908	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	agtctaagcaaatcacgtggCgggagttgcactggaaaacc	13	7	12	9	2	2	0	1	0	1	0	2	2	2	2	1	3	3	3	1	3	4	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr6:162206908C>A	uc003qtx.3	-	7	901	c.767G>T	c.(766-768)CGC>CTC	p.R256L	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Missense_Mutation_p.R65L|PARK2_uc003qtw.3_Missense_Mutation_p.R65L|PARK2_uc003qty.3_Missense_Mutation_p.R228L|PARK2_uc003qtz.3_Missense_Mutation_p.R107L|PARK2_uc010kke.1_Missense_Mutation_p.R256L|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	256	RING-type 1; atypical.				aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		AATCACGTGGCGGGAGTTGCA	0.502													3	19					0.004672	0.00470808	0.115264	1	0		A	162206908	A	A	162206908	3	1	205	1	0	0	0	0	1	0	0	0	11468	768	27	5	654	5	PARK2	6	162206908	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	15486461	162206908	8908159	83	100043											
MMD2	221938	broad.mit.edu	37	chr7	4949553	4949553	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggaagaagcccattacgaCgtagcagagaagctccacaa	15	4	12	10	2	0	2	0	0	0	2	1	5	1	3	2	2	4	3	2	2	6	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:4949553C>T	uc003sno.3	-	6	764	c.568G>A	c.(568-570)GTC>ATC	p.V190I	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Missense_Mutation_p.V166I|MMD2_uc010ksq.2_Missense_Mutation_p.V166I	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	190	Helical; (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		CCCATTACGACGTAGCAGAGA	0.532													6	41					0	0	0.021553	0	0		T	4949553	T	T	4949553	3	4	205	1	0	0	0	0	1	0	0	0	9662	536	19	1	252	1	MMD2	7	4949553	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		4949553	154189110	84	100044											
KDELR2	11014	broad.mit.edu	37	chr7	6509271	6509271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aactaaaaatgagaggcctcCcacagggaccaccagaaact	17	4	8	12	0	0	2	0	1	0	2	1	4	1	3	4	2	2	0	4	2	5	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:6509271C>T	uc003sqe.3	-	3	468	c.307G>A	c.(307-309)GGA>AGA	p.G103R	DAGLB_uc003sqd.3_Intron|KDELR2_uc003sqf.3_Missense_Mutation_p.G103R	NM_006854	NP_006845	P33947	ERD22_HUMAN	KDEL receptor 2 isoform 1	103	Helical; (Potential).				intracellular protein transport|protein retention in ER lumen|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane	KDEL sequence binding|protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0776)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		GAGAGGCCTCCCACAGGGACC	0.363													6	83					0	0	0.02938	0	0		T	6509271	T	T	6509271	3	4	205	1	0	0	0	0	1	0	0	0	8136	632	22	4	518	4	KDELR2	7	6509271	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1559718	6509271	152629392	85	100045											
OSBPL3	26031	broad.mit.edu	37	chr7	24892212	24892212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgcttcagtttctctctctCcgctgacatgatattaaaag	9	15	6	11	1	3	2	1	2	2	0	6	2	4	2	1	0	1	3	1	0	3	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:24892212C>T	uc003sxf.2	-	11	1474	c.1069G>A	c.(1069-1071)GAG>AAG	p.E357K	OSBPL3_uc003sxd.2_RNA|OSBPL3_uc003sxe.2_RNA|OSBPL3_uc003sxg.2_Missense_Mutation_p.E357K|OSBPL3_uc003sxh.2_Missense_Mutation_p.E326K|OSBPL3_uc003sxi.2_Missense_Mutation_p.E326K|OSBPL3_uc003sxj.1_Missense_Mutation_p.E122K|OSBPL3_uc003sxk.1_Missense_Mutation_p.E91K	NM_015550	NP_056365	Q9H4L5	OSBL3_HUMAN	oxysterol-binding protein-like protein 3 isoform	357					lipid transport		lipid binding|protein binding			skin(1)	1						TTCTCTCTCTCCGCTGACATG	0.408													13	30					0	0	0.105934	0	0		T	24892212	T	T	24892212	3	4	205	1	0	0	0	0	1	0	0	0	11298	864	30	4	1646	4	OSBPL3	7	24892212	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	18382941	24892212	134246451	86	100046											
PCLO	27445	broad.mit.edu	37	chr7	82544081	82544081	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcctcgagtccgtgattcTtccctcatgtgttgctgaac	6	14	9	12	2	2	2	1	2	1	0	5	3	4	2	3	0	3	2	3	0	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:82544081T>G	uc003uhx.2	-	7	13510	c.13221A>C	c.(13219-13221)GAA>GAC	p.E4407D	PCLO_uc003uhv.2_Missense_Mutation_p.E4407D|PCLO_uc010lec.2_Missense_Mutation_p.E1372D	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4338					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCCGTGATTCTTCCCTCATGT	0.507													11	19					0	0	0.080935	0	0		G	82544081	G	G	82544081	3	3	205	1	0	0	0	0	1	0	0	0	11602	1606	56	5	2300	5	PCLO	7	82544081	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	57651869	82544081	76594582	87	100047											
SAMD9L	219285	broad.mit.edu	37	chr7	92763852	92763852	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatcttctcccacatgttaGttgtcttgtcttcatattga	9	18	5	9	0	5	1	1	1	4	0	6	1	5	1	1	0	0	2	1	0	3	7			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:92763852G>T	uc003umh.1	-	5	2649	c.1433C>A	c.(1432-1434)ACT>AAT	p.T478N	SAMD9L_uc003umj.1_Missense_Mutation_p.T478N|SAMD9L_uc003umi.1_Missense_Mutation_p.T478N|SAMD9L_uc010lfb.1_Missense_Mutation_p.T478N|SAMD9L_uc003umk.1_Missense_Mutation_p.T478N|SAMD9L_uc010lfc.1_Missense_Mutation_p.T478N|SAMD9L_uc010lfd.1_Missense_Mutation_p.T478N|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	478										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			CCACATGTTAGTTGTCTTGTC	0.408													9	80					1.12685e-05	1.20044e-05	0.047766	1	0		T	92763852	T	T	92763852	3	4	205	1	0	0	0	0	1	0	0	0	13852	1029	36	5	3325	5	SAMD9L	7	92763852	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	10219771	92763852	66374811	88	100048											
DENND2A	27147	broad.mit.edu	37	chr7	140285420	140285420	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcagggatggaagaggtgGgagaagcaggaaaattcaag	15	6	17	3	0	2	2	2	0	0	2	2	6	2	5	0	5	1	1	0	5	5	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:140285420G>A	uc010lnj.2	-	3	1359	c.1214C>T	c.(1213-1215)CCC>CTC	p.P405L	DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_Missense_Mutation_p.P405L|DENND2A_uc003vvw.2_Missense_Mutation_p.P405L|DENND2A_uc003vvx.2_Missense_Mutation_p.P405L	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A	405										ovary(3)|breast(1)	4	Melanoma(164;0.00956)					GGAAGAGGTGGGAGAAGCAGG	0.527													14	94					0	0	0.132662	0	0		A	140285420	A	A	140285420	3	1	205	1	0	0	0	0	1	0	0	0	4435	1232	43	4	1879	4	DENND2A	7	140285420	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	47521568	140285420	18853243	89	100049											
OR9A2	135924	broad.mit.edu	37	chr7	142723354	142723354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctttgactttgtcattcCgaagagtaaagatgaaagga	13	12	9	7	1	2	4	1	2	1	2	3	6	3	5	2	1	0	1	2	1	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:142723354C>T	uc003wcc.1	-	1	866	c.866G>A	c.(865-867)CGG>CAG	p.R289Q		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	289	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					TTTGTCATTCCGAAGAGTAAA	0.448													8	72					0	0	0.069234	0	0		T	142723354	T	T	142723354	3	4	205	1	0	0	0	0	1	0	0	0	11267	652	23	1	70	1	OR9A2	7	142723354	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	2437934	142723354	16415309	90	100050											
CASP2	835	broad.mit.edu	37	chr7	143001810	143001810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacgaggttcctggtacatCgaggctcttgctcaagtgtt	9	12	11	9	2	2	0	1	0	1	0	4	2	3	0	1	3	3	5	1	3	3	4	rs142190608	byFrequency	TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr7:143001810C>T	uc003wco.2	+	10	1308	c.1161C>T	c.(1159-1161)ATC>ATT	p.I387I	CASP2_uc003wcp.2_3'UTR|CASP2_uc011kta.1_Silent_p.I271I|CASP2_uc003wcq.2_RNA|CASP2_uc011ktb.1_Silent_p.I137I	NM_032982	NP_116764	P42575	CASP2_HUMAN	caspase 2 isoform 1 preproprotein	387					apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|protein maturation by peptide bond cleavage	cytosol	cysteine-type endopeptidase activity|enzyme binding|protein binding|protein domain specific binding			lung(2)|ovary(1)	3	Melanoma(164;0.059)					CCTGGTACATCGAGGCTCTTG	0.557													14	94					0	0	0.11911	0	0		T	143001810	T	T	143001810	2	4	205	1	0	0	0	0	0	0	0	1	2674	874	31	1		1	CASP2	7	143001810	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	278456	143001810	16136853	91	100051											
CSMD1	64478	broad.mit.edu	37	chr8	2967856	2967856	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gttacgttgtacccacaaggGgctgcaaaggaaaccaagaa	15	6	11	9	1	0	1	0	0	0	1	0	2	0	2	2	3	4	5	2	3	7	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:2967856G>A	uc011kwk.1	-	43	6825	c.6435C>T	c.(6433-6435)GCC>GCT	p.A2145A	CSMD1_uc011kwj.1_Silent_p.A1537A|CSMD1_uc010lrg.2_Silent_p.A213A	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2145	Extracellular (Potential).|Sushi 12.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		ACCCACAAGGGGCTGCAAAGG	0.453													4	12					0	0	0.014758	0	0		A	2967856	A	A	2967856	2	1	205	1	0	0	0	0	0	0	0	1	3947	1246	43	4		4	CSMD1	8	2967856	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08		2967856	143396166	92	100052											
GATA4	2626	broad.mit.edu	37	chr8	11614478	11614478	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagccttcctcccgccagCggtgcttccagcaactccag	7	7	10	17	2	0	1	0	0	0	1	4	2	4	1	6	1	5	2	6	1	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:11614478C>T	uc003wuc.2	+	6	1586	c.1032C>T	c.(1030-1032)AGC>AGT	p.S344S	GATA4_uc003wub.1_Silent_p.S138S|GATA4_uc011kxc.1_Silent_p.S345S	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	344					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		CTCCCGCCAGCGGTGCTTCCA	0.617													18	94					0	0	0.043863	0	0		T	11614478	T	T	11614478	2	4	205	1	0	0	0	0	0	0	0	1	6271	767	27	1		1	GATA4	8	11614478	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	8646622	11614478	134749544	93	100053											
KCNU1	157855	broad.mit.edu	37	chr8	36763262	36763262	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagaacaagattctgaccaGcttgatagcagtgggatgtt	12	11	12	6	0	1	4	0	2	1	2	1	5	1	5	1	1	3	4	1	1	4	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:36763262G>T	uc010lvw.2	+	20	2133	c.2046G>T	c.(2044-2046)CAG>CAT	p.Q682H	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	682	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		ATTCTGACCAGCTTGATAGCA	0.413													18	82					2.4624e-09	2.8188e-09	0.049695	1	0		T	36763262	T	T	36763262	3	4	205	1	0	0	0	0	1	0	0	0	8109	962	34	5	2124	5	KCNU1	8	36763262	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	25148784	36763262	109600760	94	100054											
PLAT	5327	broad.mit.edu	37	chr8	42036423	42036423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actcctggttacctggcaggCgtcgtgcaagtttgcctggg	5	11	14	11	2	0	0	0	0	0	0	2	0	1	0	3	4	3	4	3	4	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:42036423C>T	uc003xos.2	-	13	1731	c.1522G>A	c.(1522-1524)GCC>ACC	p.A508T	PLAT_uc010lxf.1_Missense_Mutation_p.A425T|PLAT_uc010lxg.1_Missense_Mutation_p.A333T|PLAT_uc003xot.2_Missense_Mutation_p.A462T|PLAT_uc011lcm.1_Missense_Mutation_p.A419T|PLAT_uc011lcn.1_Missense_Mutation_p.A382T	NM_000930	NP_000921	P00750	TPA_HUMAN	plasminogen activator, tissue isoform 1	508	Peptidase S1.				blood coagulation|fibrinolysis|negative regulation of proteolysis|protein modification process|proteolysis	cell surface|cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			breast(1)|skin(1)	2	all_cancers(6;3.84e-26)|all_epithelial(6;9.61e-28)|all_lung(13;7.2e-13)|Lung NSC(13;1.18e-11)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000378)|Lung NSC(58;0.00145)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00135)|Colorectal(10;0.00165)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)		Alteplase(DB00009)|Aminocaproic Acid(DB00513)|Anistreplase(DB00029)|Iloprost(DB01088)|Reteplase(DB00015)|Tenecteplase(DB00031)|Tranexamic Acid(DB00302)|Urokinase(DB00013)	ACCTGGCAGGCGTCGTGCAAG	0.567													10	72					0	0	0.058154	0	0		T	42036423	T	T	42036423	3	4	205	1	0	0	0	0	1	0	0	0	12040	768	27	1	174	1	PLAT	8	42036423	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	5273161	42036423	104327599	95	100055											
ZFHX4	79776	broad.mit.edu	37	chr8	77767332	77767332	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgggggagaaagcccacaGaaatacatctattttgatta	15	10	10	6	0	1	3	0	1	1	2	1	5	1	3	1	2	2	0	1	2	5	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:77767332G>T	uc003yav.2	+	10	8427	c.8040G>T	c.(8038-8040)CAG>CAT	p.Q2680H	ZFHX4_uc003yau.1_Missense_Mutation_p.Q2725H|ZFHX4_uc003yaw.1_Missense_Mutation_p.Q2680H	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2680						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AAAGCCCACAGAAATACATCT	0.428										HNSCC(33;0.089)			7	28					0.00198382	0.00200689	0.02938	1	0		T	77767332	T	T	77767332	3	4	205	1	0	0	0	0	1	0	0	0	17660	933	33	5	8209	5	ZFHX4	8	77767332	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	35730909	77767332	68596690	96	100056											
INTS8	55656	broad.mit.edu	37	chr8	95839622	95839622	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccatggctgtacttctctAtaatagatggtaaatgtttt	10	17	8	6	0	1	1	0	0	1	1	2	1	1	1	1	2	2	4	1	2	6	8			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:95839622A>G	uc003yhb.2	+	3	563	c.437A>G	c.(436-438)TAT>TGT	p.Y146C	INTS8_uc003yha.1_Missense_Mutation_p.Y146C|INTS8_uc011lgq.1_RNA|INTS8_uc011lgr.1_RNA|INTS8_uc010mba.2_5'Flank	NM_017864	NP_060334	Q75QN2	INT8_HUMAN	integrator complex subunit 8	146					snRNA processing	integrator complex	protein binding				0	Breast(36;1.05e-06)					GTACTTCTCTATAATAGATGG	0.423													37	115					0	0	0.09836	0	0		G	95839622	G	G	95839622	3	3	205	1	0	0	0	0	1	0	0	0	7800	449	16	3	447	3	INTS8	8	95839622	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	18072290	95839622	50524400	97	100057											
RIMS2	9699	broad.mit.edu	37	chr8	104987701	104987701	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgttataggaaggactaGatcatggtcacccagtgtcc	12	10	11	8	0	2	2	2	0	0	2	3	4	3	4	2	3	0	1	2	3	4	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:104987701G>T	uc003yls.2	+	14	2469	c.2228G>T	c.(2227-2229)AGA>ATA	p.R743I	RIMS2_uc003ylp.2_Missense_Mutation_p.R965I|RIMS2_uc003ylw.2_Missense_Mutation_p.R757I|RIMS2_uc003ylq.2_Missense_Mutation_p.R757I|RIMS2_uc003ylr.2_Missense_Mutation_p.R804I|RIMS2_uc003ylt.2_Missense_Mutation_p.R350I	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1027					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GGAAGGACTAGATCATGGTCA	0.363										HNSCC(12;0.0054)			13	38					2.27111e-07	2.53316e-07	0.09319	1	0		T	104987701	T	T	104987701	3	4	205	1	0	0	0	0	1	0	0	0	13393	942	33	5	3082	5	RIMS2	8	104987701	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	9148079	104987701	41376321	98	100058											
DPYS	1807	broad.mit.edu	37	chr8	105436539	105436539	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagctattcttccttttcTtggatagagattaaaaattt	12	18	5	6	0	2	1	0	0	2	1	3	3	3	2	1	1	2	1	1	1	6	10			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:105436539T>G	uc003yly.3	-	7	1300	c.1171A>C	c.(1171-1173)AGA>CGA	p.R391R		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	391					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTTCCTTTTCTTGGATAGAGA	0.373													10	77					0	0	0.069234	0	0		G	105436539	G	G	105436539	2	3	205	1	0	0	0	0	0	0	0	1	4752	1617	56	5		5	DPYS	8	105436539	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	448838	105436539	40927483	99	100059											
LRP12	29967	broad.mit.edu	37	chr8	105509626	105509626	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcagtataacacccccagTtacctccacagggtatttcc	10	10	6	15	0	1	0	1	0	0	0	3	0	3	0	5	1	2	4	5	1	4	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:105509626T>G	uc003yma.2	-	5	1249	c.1154A>C	c.(1153-1155)AAC>ACC	p.N385T	LRP12_uc003ymb.2_Missense_Mutation_p.N366T|LRP12_uc003ylz.2_5'Flank	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	385	Extracellular (Potential).|LDL-receptor class A 3.				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			ACACCCCCAGTTACCTCCACA	0.443													13	62					0	0	0.09319	0	0		G	105509626	G	G	105509626	3	3	205	1	0	0	0	0	1	0	0	0	8972	1725	60	5	1437	5	LRP12	8	105509626	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	73087	105509626	40854396	100	100060											
EXT1	2131	broad.mit.edu	37	chr8	118819534	118819534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtatccccaccgctccttaGagttatcccagaagtggctg	8	11	9	13	1	0	2	0	0	0	2	3	2	3	2	5	1	0	4	5	1	4	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:118819534G>A	uc003yok.1	-	9	2578	c.1805C>T	c.(1804-1806)TCT>TTT	p.S602F		NM_000127	NP_000118	Q16394	EXT1_HUMAN	exostosin 1	602	Lumenal (Potential).				glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction|skeletal system development	Golgi membrane|integral to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)|lung(2)	4	all_cancers(13;2.36e-26)|Lung NSC(37;5.02e-07)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.012)			CCGCTCCTTAGAGTTATCCCA	0.537			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses|Langer-Giedion_syndrome				16	67					0	0	0.132662	0	0		A	118819534	A	A	118819534	3	1	205	1	0	0	0	0	1	0	0	0	5331	942	33	4	447	4	EXT1	8	118819534	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	13309908	118819534	27544488	101	100061											
TG	7038	broad.mit.edu	37	chr8	134107329	134107329	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgtcatcagccatgaGagggctcagcagcaggcaat	10	5	13	13	2	3	1	3	1	0	1	3	2	3	1	3	2	3	4	3	2	1	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr8:134107329G>T	uc003ytw.2	+	42	7322	c.7281G>T	c.(7279-7281)GAG>GAT	p.E2427D	TG_uc010mdw.2_Missense_Mutation_p.E1186D|TG_uc011ljb.1_Missense_Mutation_p.E796D|TG_uc011ljc.1_Missense_Mutation_p.E560D|SLA_uc003ytz.2_Intron|SLA_uc011lje.1_Intron|SLA_uc011ljf.1_Intron|SLA_uc011ljg.1_Intron|SLA_uc010mea.2_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2427					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCAGCCATGAGAGGGCTCAGC	0.602													17	157					0.000422831	0.000436202	0.146539	1	0		T	134107329	T	T	134107329	3	4	205	1	0	0	0	0	1	0	0	0	15838	933	33	5	7447	5	TG	8	134107329	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	15287795	134107329	12256693	102	100062											
GLIS3	169792	broad.mit.edu	37	chr9	4286252	4286252	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctgagggcatcttgagatgGaggttgttagcaaggcttgc	8	11	15	7	0	1	2	0	2	1	1	1	4	1	3	1	4	2	5	1	4	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr9:4286252G>A	uc003zhx.1	-	2	887	c.174C>T	c.(172-174)CTC>CTT	p.L58L	GLIS3_uc003zic.1_Silent_p.L58L|GLIS3_uc003zie.1_Silent_p.L58L|GLIS3_uc010mhh.1_Intron|GLIS3_uc003zid.1_5'UTR|GLIS3_uc010mhi.1_Intron|GLIS3_uc003zif.1_5'UTR|GLIS3_uc003zig.1_Intron|GLIS3_uc003zih.1_Intron|GLIS3_uc003zii.1_Silent_p.L58L	NM_001042413	NP_001035878	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		TCTTGAGATGGAGGTTGTTAG	0.592													6	59					0	0	0.021553	0	0		A	4286252	A	A	4286252	2	1	205	1	0	0	0	0	0	0	0	1	6462	1161	41	4		4	GLIS3	9	4286252	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08		4286252	136927179	103	100063											
RANBP6	26953	broad.mit.edu	37	chr9	6014769	6014769	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagctggcgctgcagattaCtaagcctagagtctccacat	10	9	9	13	1	1	2	0	0	1	2	2	2	1	2	3	1	4	3	3	1	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr9:6014769C>G	uc003zjr.2	-	1	850	c.839G>C	c.(838-840)AGT>ACT	p.S280T	RANBP6_uc011lmf.1_Intron|RANBP6_uc003zjs.2_Intron	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	280					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)		CTGCAGATTACTAAGCCTAGA	0.423													619	56					0	0	0.139131	0	0		G	6014769	G	G	6014769	3	3	205	1	0	0	0	0	1	0	0	0	13056	565	20	5	2482	5	RANBP6	9	6014769	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1728517	6014769	135198662	104	100064											
DNM1	1759	broad.mit.edu	37	chr9	131010944	131010944	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggcaagtggagaccatccGgaatcttgtggactcataca	12	8	11	10	2	2	1	1	0	1	1	3	4	3	3	2	4	1	1	2	4	3	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr9:131010944G>A	uc011mau.1	+	19	2075	c.1988G>A	c.(1987-1989)CGG>CAG	p.R663Q	DNM1_uc011mat.1_Missense_Mutation_p.R663Q|DNM1_uc004bub.1_Missense_Mutation_p.R36Q|DNM1_uc004buc.1_Missense_Mutation_p.R130Q|DNM1_uc004bud.3_RNA	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	663	GED.				receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						GAGACCATCCGGAATCTTGTG	0.537													41	110					0	0	0.092188	0	0		A	131010944	A	A	131010944	3	1	205	1	0	0	0	0	1	0	0	0	4676	1116	39	1	2057	1	DNM1	9	131010944	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	124996175	131010944	10202487	105	100065											
DIP2C	22982	broad.mit.edu	37	chr10	428632	428632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctggcgagctggcacaaggaCagatgacctcctgtcgaagg	10	6	14	11	2	0	2	0	1	0	1	2	5	1	3	2	4	1	2	2	4	2	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:428632C>T	uc001ifp.2	-	17	2036	c.1946G>A	c.(1945-1947)TGT>TAT	p.C649Y	DIP2C_uc009xhj.1_Missense_Mutation_p.C345Y	NM_014974	NP_055789	Q9Y2E4	DIP2C_HUMAN	DIP2 disco-interacting protein 2 homolog C	649						nucleus	catalytic activity|transcription factor binding			breast(4)|ovary(2)|large_intestine(1)	7		all_cancers(4;0.00336)|all_lung(4;0.00732)|Lung NSC(4;0.00785)|all_epithelial(10;0.0159)|Colorectal(49;0.235)	OV - Ovarian serous cystadenocarcinoma(33;0.136)	Epithelial(11;0.0123)|all cancers(11;0.0467)|Lung(33;0.0864)|OV - Ovarian serous cystadenocarcinoma(14;0.106)		GGCACAAGGACAGATGACCTC	0.488													5	19					0	0	0.021553	0	0		T	428632	T	T	428632	3	4	205	1	0	0	0	0	1	0	0	0	4535	478	17	4	2808	4	DIP2C	10	428632	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		428632	135106115	106	100066											
ITIH5	80760	broad.mit.edu	37	chr10	7679382	7679382	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctcataactcaggaaaaagGcggctttgtccttgctggga	10	10	11	10	1	2	0	2	0	0	0	3	2	3	2	2	4	2	2	2	4	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:7679382G>A	uc001ijq.2	-	5	540	c.461C>T	c.(460-462)GCC>GTC	p.A154V	ITIH5_uc001ijr.1_Missense_Mutation_p.A154V	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	154	VIT.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						CAGGAAAAAGGCGGCTTTGTC	0.567													10	54					0	0	0.058154	0	0		A	7679382	A	A	7679382	3	1	205	1	0	0	0	0	1	0	0	0	7923	1203	42	2	2544	2	ITIH5	10	7679382	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	7250750	7679382	127855365	107	100067											
MAP3K8	1326	broad.mit.edu	37	chr10	30749642	30749642	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttccttttcagattcttcGtgcacaggaagcaccgagga	9	13	9	10	2	2	1	1	0	1	1	4	4	3	3	2	2	2	2	2	2	1	6	rs150841663		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:30749642G>A	uc001ivi.1	+	9	1977	c.1281G>A	c.(1279-1281)TCG>TCA	p.S427S	MAP3K8_uc009xlf.1_Silent_p.S427S|MAP3K8_uc001ivj.1_Silent_p.S427S	NM_005204	NP_005195	P41279	M3K8_HUMAN	mitogen-activated protein kinase kinase kinase	427			Missing (in oncogenic form).		cell cycle|T cell costimulation	cytosol	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			breast(3)|central_nervous_system(1)	4		Prostate(175;0.151)				CAGATTCTTCGTGCACAGGAA	0.453													4	36					0	0	0.014758	0	0		A	30749642	A	A	30749642	2	1	205	1	0	0	0	0	0	0	0	1	9274	1132	40	1		1	MAP3K8	10	30749642	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	23070260	30749642	104785105	108	100068											
PCDH15	65217	broad.mit.edu	37	chr10	55955568	55955568	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataactgggcattgtaaaatAtggactttgattgttttcat	12	17	8	4	0	1	1	1	1	0	0	1	2	1	2	0	2	1	3	0	2	4	8			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:55955568A>G	uc001jju.1	-	11	1575	c.1180T>C	c.(1180-1182)TAT>CAT	p.Y394H	PCDH15_uc010qhq.1_Missense_Mutation_p.Y399H|PCDH15_uc010qhr.1_Missense_Mutation_p.Y394H|PCDH15_uc010qhs.1_Missense_Mutation_p.Y399H|PCDH15_uc010qht.1_Missense_Mutation_p.Y394H|PCDH15_uc010qhu.1_Missense_Mutation_p.Y394H|PCDH15_uc001jjv.1_Missense_Mutation_p.Y372H|PCDH15_uc010qhv.1_Missense_Mutation_p.Y394H|PCDH15_uc010qhw.1_Missense_Mutation_p.Y357H|PCDH15_uc010qhx.1_Missense_Mutation_p.Y394H|PCDH15_uc010qhy.1_Missense_Mutation_p.Y399H|PCDH15_uc010qhz.1_Missense_Mutation_p.Y394H|PCDH15_uc010qia.1_Missense_Mutation_p.Y372H|PCDH15_uc010qib.1_Missense_Mutation_p.Y372H|PCDH15_uc001jjw.2_Missense_Mutation_p.Y394H	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	394	Cadherin 3.|Extracellular (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				ATTGTAAAATATGGACTTTGA	0.403										HNSCC(58;0.16)			5	45					0	0	0.014758	0	0		G	55955568	G	G	55955568	3	3	205	1	0	0	0	0	1	0	0	0	11530	449	16	3	6423	3	PCDH15	10	55955568	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	25205926	55955568	79579179	109	100069											
TET1	80312	broad.mit.edu	37	chr10	70450715	70450715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaggcttctcctggtcccCgaagactgcttcagccacac	7	9	8	17	1	2	1	1	0	1	1	5	2	4	1	5	2	2	2	5	2	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:70450715C>T	uc001jok.3	+	12	6060	c.5555C>T	c.(5554-5556)CCG>CTG	p.P1852L		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1852					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TCCTGGTCCCCGAAGACTGCT	0.502													11	88					0	0	0.080935	0	0		T	70450715	T	T	70450715	3	4	205	1	0	0	0	0	1	0	0	0	15794	652	23	1	5597	1	TET1	10	70450715	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	14495147	70450715	65084032	110	100070											
CRTAC1	55118	broad.mit.edu	37	chr10	99770980	99770980	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgggtgggattactgtcatAgtcaggaggcagaactgagt	10	10	15	6	0	2	2	2	1	0	1	2	4	2	4	0	4	2	1	0	4	3	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:99770980A>G	uc001kou.1	-	2	495	c.139T>C	c.(139-141)TAT>CAT	p.Y47H	CRTAC1_uc001kov.2_Missense_Mutation_p.Y36H	NM_018058	NP_060528	Q9NQ79	CRAC1_HUMAN	cartilage acidic protein 1 precursor	47	FG-GAP 1; atypical.					proteinaceous extracellular matrix	calcium ion binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.24)		Epithelial(162;2.18e-10)|all cancers(201;3.27e-09)		TTACTGTCATAGTCAGGAGGC	0.562													13	90					0	0	0.105934	0	0		G	99770980	G	G	99770980	3	3	205	1	0	0	0	0	1	0	0	0	3899	420	15	3	1902	3	CRTAC1	10	99770980	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	29320265	99770980	35763767	111	100071											
NOLC1	9221	broad.mit.edu	37	chr10	103919306	103919306	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggaagaggagcaaaaaaaAcccatgaaaaataaaccagg	23	2	10	6	0	0	2	0	1	0	1	0	5	0	4	2	3	3	1	2	3	9	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:103919306A>C	uc001kuo.2	+	7	1075	c.840A>C	c.(838-840)AAA>AAC	p.K280N	NOLC1_uc001kup.2_Missense_Mutation_p.K290N|NOLC1_uc001kuq.2_Missense_Mutation_p.K281N|NOLC1_uc009xxb.1_5'UTR|NOLC1_uc001kur.2_5'UTR	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	280	11 X 12 AA approximate repeats of an acidic serine cluster.|Interacts with RPA194.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		AGCAAAAAAAACCCATGAAAA	0.323													6	33					0	0	0.021553	0	0		C	103919306	C	C	103919306	3	2	205	1	0	0	0	0	1	0	0	0	10548	40	2	5	866	5	NOLC1	10	103919306	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	4148326	103919306	31615441	112	100072											
C10orf96	374355	broad.mit.edu	37	chr10	118084562	118084562	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcagcacatcatcttcacCgagcatcaggcggaggagag	11	8	11	11	2	5	1	4	0	1	1	5	4	5	2	1	3	2	2	1	3	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr10:118084562C>T	uc001lck.2	+	2	290	c.39C>T	c.(37-39)ACC>ACT	p.T13T		NM_198515	NP_940917	P0C7W6	CJ096_HUMAN	hypothetical protein LOC374355	13	Potential.									ovary(2)	2		Lung NSC(174;0.204)|all_lung(145;0.248)		all cancers(201;0.014)		TCATCTTCACCGAGCATCAGG	0.522													4	32					0	0	0.021553	0	0		T	118084562	T	T	118084562	2	4	205	1	0	0	0	0	0	0	0	1	1630	639	23	1		1	C10orf96	10	118084562	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	14165256	118084562	17450185	113	100073											
TH	7054	broad.mit.edu	37	chr11	2185600	2185600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaacttcacggagaaggggcGctggatgcgtgaggcatagc	10	6	17	8	3	1	2	1	1	0	1	1	5	1	3	0	5	3	2	0	5	3	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:2185600G>A	uc001lvq.2	-	14	1469	c.1450C>T	c.(1450-1452)CGC>TGC	p.R484C	TH_uc001lvp.2_Missense_Mutation_p.R480C|TH_uc001lvr.2_Missense_Mutation_p.R453C|TH_uc010qxj.1_Missense_Mutation_p.R457C|TH_uc001lvs.2_Missense_Mutation_p.R359C|TH_uc001lvt.2_Missense_Mutation_p.R363C	NM_199292	NP_954986	P07101	TY3H_HUMAN	tyrosine hydroxylase isoform a	484					dopamine biosynthetic process from tyrosine|embryonic camera-type eye morphogenesis|epinephrine biosynthetic process|eye photoreceptor cell development|heart morphogenesis|hormone biosynthetic process|learning|locomotory behavior|memory|neurotransmitter biosynthetic process|neurotransmitter secretion|norepinephrine biosynthetic process|pigmentation|regulation of heart contraction|response to ethanol|response to hypoxia|synaptic transmission, dopaminergic|visual perception	cytosol|internal side of plasma membrane|melanosome membrane|nucleus|perikaryon|smooth endoplasmic reticulum	protein binding|tyrosine 3-monooxygenase activity				0		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)	GAGAAGGGGCGCTGGATGCGT	0.687													14	37					0	0	0.0333	0	0		A	2185600	A	A	2185600	3	1	205	1	0	0	0	0	1	0	0	0	15863	1087	38	1	140	1	TH	11	2185600	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		2185600	132820916	114	100074											
UBQLN3	50613	broad.mit.edu	37	chr11	5530452	5530452	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgagggagtgatccaggacTtgggccctgggtagggacag	8	7	18	8	0	0	2	0	2	0	0	1	5	1	5	2	5	0	1	2	5	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:5530452T>C	uc001may.1	-	2	423	c.337A>G	c.(337-339)AGT>GGT	p.S113G	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	113										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GATCCAGGACTTGGGCCCTGG	0.612													11	36					0	0	0.069234	0	0		C	5530452	C	C	5530452	3	2	205	1	0	0	0	0	1	0	0	0	16924	1609	56	3	1634	3	UBQLN3	11	5530452	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	3344852	5530452	129476064	115	100075											
UBQLNL	143630	broad.mit.edu	37	chr11	5537480	5537480	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actagttggtccatctggcaTtggaagtgagccaatagcat	11	11	11	8	0	1	1	0	1	1	0	2	2	2	2	2	3	2	3	2	3	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:5537480T>C	uc001maz.3	-	1	477	c.192A>G	c.(190-192)CAA>CAG	p.Q64Q	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	64	Ubiquitin-like.									large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		CCATCTGGCATTGGAAGTGAG	0.498													6	68					0	0	0.021553	0	0		C	5537480	C	C	5537480	2	2	205	1	0	0	0	0	0	0	0	1	16926	1490	52	3		3	UBQLNL	11	5537480	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	7028	5537480	129469036	116	100076											
ANO3	63982	broad.mit.edu	37	chr11	26581277	26581277	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctactcaggtgacatatttGttcgataatggagggacagt	11	13	11	6	1	2	1	1	1	1	0	3	4	2	3	0	3	1	1	0	3	3	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:26581277G>A	uc001mqt.3	+	14	1543	c.1398G>A	c.(1396-1398)TTG>TTA	p.L466L	ANO3_uc010rdr.1_Silent_p.L450L|ANO3_uc010rds.1_Silent_p.L305L|ANO3_uc010rdt.1_Silent_p.L320L|MUC15_uc001mqw.2_3'UTR|MUC15_uc001mqx.2_3'UTR|MUC15_uc001mqy.2_3'UTR	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	466	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGACATATTTGTTCGATAATG	0.328													19	132					0	0	0.049695	0	0		A	26581277	A	A	26581277	2	1	205	1	0	0	0	0	0	0	0	1	698	1368	48	4		4	ANO3	11	26581277	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	21043797	26581277	108425239	117	100077											
OR4C16	219428	broad.mit.edu	37	chr11	55340006	55340006	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcactacatgaccatcataAgccagtgggtctgtggtgtt	9	12	11	9	0	2	1	1	1	1	0	2	1	2	1	2	2	3	2	2	2	2	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:55340006A>C	uc010rih.1	+	1	403	c.403A>C	c.(403-405)AGC>CGC	p.S135R		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				GACCATCATAAGCCAGTGGGT	0.507													24	144					0	0	0.076483	0	0		C	55340006	C	C	55340006	3	2	205	1	0	0	0	0	1	0	0	0	11068	72	3	5	405	5	OR4C16	11	55340006	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	28758729	55340006	79666510	118	100078											
OR4P4	81300	broad.mit.edu	37	chr11	55406228	55406228	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagcccctgcactacaccaTtattatgagcaggcaaaagt	14	8	7	12	0	0	1	0	1	0	0	0	1	0	1	3	1	4	3	3	1	6	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:55406228T>G	uc010rij.1	+	1	395	c.395T>G	c.(394-396)ATT>AGT	p.I132S		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	132	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						CACTACACCATTATTATGAGC	0.433													10	73					0	0	0.069234	0	0		G	55406228	G	G	55406228	3	3	205	1	0	0	0	0	1	0	0	0	11099	1493	52	5	397	5	OR4P4	11	55406228	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	66222	55406228	79600288	119	100079											
OR5T2	219464	broad.mit.edu	37	chr11	55999981	55999981	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgtgtgagtgtcagaataAgaaatagcaaggagaggagg	15	9	15	2	0	1	4	1	1	0	3	1	6	1	5	0	3	1	1	0	3	5	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:55999981A>C	uc010rjc.1	-	1	681	c.681T>G	c.(679-681)TCT>TCG	p.S227S		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	227	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TGTCAGAATAAGAAATAGCAA	0.423													28	108					0	0	0.108266	0	0		C	55999981	C	C	55999981	2	2	205	1	0	0	0	0	0	0	0	1	11201	59	3	5		5	OR5T2	11	55999981	Silent	SNP	A	TCGA-HU-8604-01A-11D-2394-08	593753	55999981	79006535	120	100080											
MS4A14	84689	broad.mit.edu	37	chr11	60184378	60184378	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttatgccaagattcagaatCccaaatacagcaataccaat	17	9	5	10	0	1	2	1	0	0	2	2	2	2	2	3	0	4	2	3	0	8	4	rs145801550		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:60184378C>A	uc001npj.2	+	5	2502	c.1937C>A	c.(1936-1938)TCC>TAC	p.S646Y	MS4A14_uc001npi.2_Missense_Mutation_p.S534Y|MS4A14_uc001npn.2_Missense_Mutation_p.S384Y|MS4A14_uc001npk.2_Missense_Mutation_p.S629Y|MS4A14_uc001npl.2_Missense_Mutation_p.S384Y|MS4A14_uc001npm.2_Missense_Mutation_p.S384Y	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	646	Gln-rich.					integral to membrane	receptor activity			breast(1)	1						GATTCAGAATCCCAAATACAG	0.463													11	62					5.50884e-06	5.89265e-06	0.09319	1	0		A	60184378	A	A	60184378	3	1	205	1	0	0	0	0	1	0	0	0	9876	855	30	5	1955	5	MS4A14	11	60184378	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	4184397	60184378	74822138	121	100081											
DDB1	1642	broad.mit.edu	37	chr11	61079287	61079287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgggcctcaaggctgtcGtgcccccactcgtgtcttgg	3	10	13	15	3	2	0	1	0	1	0	4	0	2	0	3	3	1	2	3	3	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:61079287G>A	uc001nrc.3	-	18	2472	c.2246C>T	c.(2245-2247)ACG>ATG	p.T749M	DDB1_uc010rle.1_Intron|DDB1_uc010rlf.1_Missense_Mutation_p.T749M	NM_001923	NP_001914	Q16531	DDB1_HUMAN	damage-specific DNA binding protein 1	749	Interaction with CDT1.				cell cycle checkpoint|interspecies interaction between organisms|nucleotide-excision repair, DNA damage removal|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex|Cul4B-RING ubiquitin ligase complex|cytoplasm|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|lung(1)|central_nervous_system(1)	4						CAAGGCTGTCGTGCCCCCACT	0.463								NER					20	72					0	0	0.062417	0	0		A	61079287	A	A	61079287	3	1	205	1	0	0	0	0	1	0	0	0	4326	1145	40	1	1216	1	DDB1	11	61079287	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	894909	61079287	73927229	122	100082											
PCNXL3	399909	broad.mit.edu	37	chr11	65387389	65387389	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgagggtgctgtgcactattTctacgatgagagcggtgagc	8	11	15	7	2	1	3	0	3	1	1	1	5	1	3	0	2	5	2	0	2	2	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:65387389T>G	uc001oey.2	+	8	1994	c.1994T>G	c.(1993-1995)TTC>TGC	p.F665C		NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	665						integral to membrane					0						GTGCACTATTTCTACGATGAG	0.617													5	18					0	0	0.021553	0	0		G	65387389	G	G	65387389	3	3	205	1	0	0	0	0	1	0	0	0	11612	1783	62	5	2024	5	PCNXL3	11	65387389	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	4308102	65387389	69619127	123	100083											
P2RY6	5031	broad.mit.edu	37	chr11	73008084	73008084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaggcatccagcgtaaccGcactgtctgctatgacctca	10	8	8	15	2	2	1	1	1	1	0	3	1	3	1	3	1	3	4	3	1	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:73008084G>A	uc001otm.2	+	4	926	c.521G>A	c.(520-522)CGC>CAC	p.R174H	P2RY6_uc001otn.2_Missense_Mutation_p.R174H|P2RY6_uc001oto.2_Missense_Mutation_p.R174H|P2RY6_uc001otp.2_Missense_Mutation_p.R174H|P2RY6_uc001otq.2_Missense_Mutation_p.R174H|P2RY6_uc001otr.2_Missense_Mutation_p.R174H|P2RY6_uc001ots.2_Missense_Mutation_p.R174H	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	174	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						CAGCGTAACCGCACTGTCTGC	0.637													11	110					0	0	0.080935	0	0		A	73008084	A	A	73008084	3	1	205	1	0	0	0	0	1	0	0	0	11373	1087	38	1	523	1	P2RY6	11	73008084	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	7620695	73008084	61998432	124	100084											
FUT4	2526	broad.mit.edu	37	chr11	94278700	94278700	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacttcccaagtgcctcctcCctggcctcgtacctgctttt	4	13	7	17	1	0	0	0	0	0	0	4	1	3	0	6	1	3	2	6	1	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:94278700C>A	uc001pez.2	+	1	1684	c.1401C>A	c.(1399-1401)TCC>TCA	p.S467S	PIWIL4_uc010rue.1_Intron|PIWIL4_uc009ywk.1_5'Flank	NM_002033	NP_002024	P22083	FUT4_HUMAN	fucosyltransferase 4	467	Lumenal (Potential).				L-fucose catabolic process|protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	alpha(1,3)-fucosyltransferase activity			skin(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				GTGCCTCCTCCCTGGCCTCGT	0.667													10	53					0.000978159	0.000993383	0.080935	1	0		A	94278700	A	A	94278700	2	1	205	1	0	0	0	0	0	0	0	1	6120	610	22	5		5	FUT4	11	94278700	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	21270616	94278700	40727816	125	100085											
PGR	5241	broad.mit.edu	37	chr11	100933339	100933339	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaggttgatcagtggtggaAtcaactgtatgtcttgacct	10	13	11	7	0	3	2	2	2	1	0	3	3	3	3	1	3	1	2	1	3	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:100933339A>T	uc001pgh.2	-	4	2794	c.2051T>A	c.(2050-2052)ATT>AAT	p.I684N	PGR_uc001pgg.2_Missense_Mutation_p.I65N|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	684	Steroid-binding.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	CAGTGGTGGAATCAACTGTAT	0.468													25	194					0	0	0.0918	0	0		T	100933339	T	T	100933339	3	4	205	1	0	0	0	0	1	0	0	0	11824	101	4	5	770	5	PGR	11	100933339	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	6654639	100933339	34073177	126	100086											
GUCY1A2	2977	broad.mit.edu	37	chr11	106810753	106810753	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtggcctgttttccaaaAgaagttctaatgtgttccaa	12	13	9	7	0	1	2	0	0	1	2	3	2	3	2	3	1	0	3	3	1	5	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:106810753A>G	uc001pjg.1	-	4	1029	c.639T>C	c.(637-639)TCT>TCC	p.S213S	GUCY1A2_uc010rvo.1_Silent_p.S213S|GUCY1A2_uc009yxn.1_Silent_p.S213S	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	213					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		GTTTTCCAAAAGAAGTTCTAA	0.453													14	92					0	0	0.105934	0	0		G	106810753	G	G	106810753	2	3	205	1	0	0	0	0	0	0	0	1	6909	59	3	3		3	GUCY1A2	11	106810753	Silent	SNP	A	TCGA-HU-8604-01A-11D-2394-08	5877414	106810753	28195763	127	100087											
IL10RA	3587	broad.mit.edu	37	chr11	117866365	117866365	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgctgctctccggagccctCgcctactgcctggccctcca	3	9	9	20	2	1	0	0	0	1	0	4	1	2	1	6	2	5	2	6	2	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:117866365C>T	uc001prv.2	+	6	827	c.750C>T	c.(748-750)CTC>CTT	p.L250L	IL10RA_uc010rxl.1_Silent_p.L230L|IL10RA_uc010rxm.1_Silent_p.L230L|IL10RA_uc010rxn.1_Silent_p.L101L|IL10RA_uc001prw.2_Silent_p.L101L	NM_001558	NP_001549	Q13651	I10R1_HUMAN	interleukin 10 receptor, alpha precursor	250	Helical; (Potential).					integral to membrane|plasma membrane	interleukin-10 receptor activity			ovary(1)	1	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.07e-05)|Epithelial(105;0.00108)		CCGGAGCCCTCGCCTACTGCC	0.587													12	51					0	0	0.09319	0	0		T	117866365	T	T	117866365	2	4	205	1	0	0	0	0	0	0	0	1	7636	871	31	1		1	IL10RA	11	117866365	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	11055612	117866365	17140151	128	100088											
CXCR5	643	broad.mit.edu	37	chr11	118765000	118765000	+	Silent	SNP	G	A	A	0	0	1	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	cacaggttgcgccaggcccaGcggcgccctcagcggcagaa	8	3	14	16	4	1	1	1	0	0	1	1	1	1	1	3	4	3	2	3	4	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:118765000G>A	uc001pue.3	+	2	857	c.747G>A	c.(745-747)CAG>CAA	p.Q249Q	CXCR5_uc001puf.2_Silent_p.Q204Q	NM_001716	NP_001707	P32302	CXCR5_HUMAN	Burkitt lymphoma receptor 1 isoform 1	249	Cytoplasmic (Potential).				B cell activation|cellular component movement	integral to plasma membrane	C-X-C chemokine receptor activity			breast(1)	1	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.62e-05)		GCCAGGCCCAGCGGCGCCCTC	0.617													5	32					0	0	0.014758	0	0		A	118765000	A	A	118765000	2	1	205	1	0	0	0	0	0	0	0	1	4097	962	34	2		2	CXCR5	11	118765000	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	898635	118765000	16241516	129	100089											
TECTA	7007	broad.mit.edu	37	chr11	120998532	120998532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgccccgacacatgctccGacctgacggcctcgcggaac	7	5	11	18	5	0	1	0	1	0	0	2	4	1	2	5	2	3	2	5	2	1	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:120998532G>A	uc010rzo.1	+	8	1846	c.1846G>A	c.(1846-1848)GAC>AAC	p.D616N		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	616	TIL 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CACATGCTCCGACCTGACGGC	0.642													16	65					0	0	0.146539	0	0		A	120998532	A	A	120998532	3	1	205	1	0	0	0	0	1	0	0	0	15772	1058	37	1	1876	1	TECTA	11	120998532	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	2233532	120998532	14007984	130	100090											
OR8D4	338662	broad.mit.edu	37	chr11	123778075	123778075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaagaaaaatatctttatctCcaggataaatatgctcttta	16	14	5	6	0	3	1	0	0	3	1	4	3	3	2	1	1	1	1	1	1	9	7			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr11:123778075C>T	uc010saa.1	+	1	937	c.937C>T	c.(937-939)CCA>TCA	p.P313S		NM_001005197	NP_001005197	Q8NGM9	OR8D4_HUMAN	olfactory receptor, family 8, subfamily D,	313	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.93e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0409)		ATCTTTATCTCCAGGATAAAT	0.269													4	18					0	0	0.009096	0	0		T	123778075	T	T	123778075	3	4	205	1	0	0	0	0	1	0	0	0	11252	855	30	4	939	4	OR8D4	11	123778075	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	2779543	123778075	11228441	131	100091											
CACNA1C	775	broad.mit.edu	37	chr12	2622033	2622033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggagatttccagaagctgCgggagaagcagcagctagaa	13	5	16	7	1	0	4	0	0	0	4	1	6	1	4	1	3	5	4	1	3	4	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:2622033C>T	uc009zdu.1	+	9	1586	c.1273C>T	c.(1273-1275)CGG>TGG	p.R425W	CACNA1C_uc009zdv.1_Missense_Mutation_p.R422W|CACNA1C_uc001qkb.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkc.2_Missense_Mutation_p.R425W|CACNA1C_uc001qke.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkf.2_Missense_Mutation_p.R425W|CACNA1C_uc001qjz.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkd.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkg.2_Missense_Mutation_p.R425W|CACNA1C_uc009zdw.1_Missense_Mutation_p.R425W|CACNA1C_uc001qkh.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkl.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkn.2_Missense_Mutation_p.R425W|CACNA1C_uc001qko.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkp.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkr.2_Missense_Mutation_p.R425W|CACNA1C_uc001qku.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkq.2_Missense_Mutation_p.R425W|CACNA1C_uc001qks.2_Missense_Mutation_p.R425W|CACNA1C_uc001qkt.2_Missense_Mutation_p.R425W|CACNA1C_uc001qka.1_Intron|CACNA1C_uc001qki.1_Missense_Mutation_p.R161W|CACNA1C_uc001qkj.1_Missense_Mutation_p.R161W|CACNA1C_uc001qkk.1_Missense_Mutation_p.R161W|CACNA1C_uc001qkm.1_Missense_Mutation_p.R161W|CACNA1C_uc009zdy.1_Missense_Mutation_p.R50W|CACNA1C_uc001qkv.1_5'UTR	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	425	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CCAGAAGCTGCGGGAGAAGCA	0.552													5	16					0	0	0.021553	0	0		T	2622033	T	T	2622033	3	4	205	1	0	0	0	0	1	0	0	0	2543	759	27	1	1415	1	CACNA1C	12	2622033	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		2622033	131229862	132	100092											
TAS2R13	50838	broad.mit.edu	37	chr12	11061719	11061719	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacttactaatatttccCagatcagcccaattctggag	13	11	5	12	0	2	1	1	0	1	1	3	2	3	2	3	1	3	0	3	1	5	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:11061719C>A	uc001qzg.1	-	1	443	c.179G>T	c.(178-180)TGG>TTG	p.W60L	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron	NM_023920	NP_076409	Q9NYV9	T2R13_HUMAN	taste receptor, type 2, member 13	60	Helical; Name=2; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			breast(1)|skin(1)	2						TAATATTTCCCAGATCAGCCC	0.373													10	58					1.58986e-06	1.72898e-06	0.069234	1	0		A	11061719	A	A	11061719	3	1	205	1	0	0	0	0	1	0	0	0	15592	595	21	5	736	5	TAS2R13	12	11061719	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	8439686	11061719	122790176	133	100093											
PDE3A	5139	broad.mit.edu	37	chr12	20766614	20766614	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctgaagagagctctgaaaaaGacaagcttgctattccaaag	16	8	9	8	0	1	4	0	2	1	2	2	5	2	4	1	0	3	3	1	0	6	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:20766614G>C	uc001reh.1	+	3	1271	c.1249G>C	c.(1249-1251)GAC>CAC	p.D417H		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	417					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	CTCTGAAAAAGACAAGCTTGC	0.428													6	67					0	0	0.02938	0	0		C	20766614	C	C	20766614	3	2	205	1	0	0	0	0	1	0	0	0	11656	942	33	5	1259	5	PDE3A	12	20766614	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	9704895	20766614	113085281	134	100094											
SLCO1B3	28234	broad.mit.edu	37	chr12	21011495	21011495	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacatctttaccacatttcTtcatgggatagtaagtgtta	11	16	7	7	0	3	1	1	1	2	0	3	2	3	2	1	1	1	2	1	1	4	7			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:21011495T>G	uc001rek.2	+	4	475	c.349T>G	c.(349-351)TTC>GTC	p.F117V	SLCO1B3_uc001rel.2_Missense_Mutation_p.F117V|SLCO1B3_uc010sil.1_Missense_Mutation_p.F117V|LST-3TM12_uc010sim.1_Missense_Mutation_p.F117V	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	117	Helical; Name=3; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					ACCACATTTCTTCATGGGATA	0.338													18	82					0	0	0.049695	0	0		G	21011495	G	G	21011495	3	3	205	1	0	0	0	0	1	0	0	0	14749	1609	56	5	359	5	SLCO1B3	12	21011495	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	244881	21011495	112840400	135	100095											
PYROXD1	79912	broad.mit.edu	37	chr12	21602575	21602575	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagctaaaccaaagttgataTgtgaaggaaatccttatgta	16	11	9	5	0	0	2	0	2	0	0	1	4	1	3	2	1	2	3	2	1	8	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:21602575T>C	uc001rew.2	+	4	491	c.364T>C	c.(364-366)TGT>CGT	p.C122R	PYROXD1_uc009ziq.2_5'UTR|PYROXD1_uc009zir.2_Intron	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	122							oxidoreductase activity			ovary(1)	1						aaagttgatatgtgaaggaaa	0.259													7	31					0	0	0.02938	0	0		C	21602575	C	C	21602575	3	2	205	1	0	0	0	0	1	0	0	0	12891	1464	51	3	378	3	PYROXD1	12	21602575	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	591080	21602575	112249320	136	100096											
LRRK2	120892	broad.mit.edu	37	chr12	40714877	40714877	+	Missense_Mutation	SNP	A	T	T	1	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	gatagagcttccccattgtgAgaactctgaaattatcatcc	12	12	7	10	0	2	3	1	2	1	2	4	5	4	3	3	0	2	1	3	0	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:40714877A>T	uc001rmg.3	+	35	5178	c.5057A>T	c.(5056-5058)GAG>GTG	p.E1686V	LRRK2_uc009zjw.2_Missense_Mutation_p.E524V|LRRK2_uc001rmi.2_Missense_Mutation_p.E519V	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1686					activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CCCCATTGTGAGAACTCTGAA	0.398													11	148					0	0	0.069234	0	0		T	40714877	T	T	40714877	3	4	205	1	0	0	0	0	1	0	0	0	9051	304	11	5	5195	5	LRRK2	12	40714877	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	19112302	40714877	93137018	137	100097											
NR4A1	3164	broad.mit.edu	37	chr12	52448549	52448549	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtcgccctccacgcccagctTccagccgccccagctctctc	4	7	7	23	3	1	0	0	0	1	0	6	0	3	0	7	0	3	2	7	0	0	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:52448549T>G	uc001rzs.2	+	3	751	c.437T>G	c.(436-438)TTC>TGC	p.F146C	NR4A1_uc010sno.1_Missense_Mutation_p.F159C|NR4A1_uc001rzr.2_Missense_Mutation_p.F146C|NR4A1_uc009zmb.1_Missense_Mutation_p.F146C|NR4A1_uc001rzt.2_Missense_Mutation_p.F146C|NR4A1_uc009zmc.2_5'Flank	NM_002135	NP_002126	P22736	NR4A1_HUMAN	nuclear receptor subfamily 4, group A, member 1	146					nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(357;0.0967)		ACGCCCAGCTTCCAGCCGCCC	0.687													10	42					0	0	0.080935	0	0		G	52448549	G	G	52448549	3	3	205	1	0	0	0	0	1	0	0	0	10651	1783	62	5	439	5	NR4A1	12	52448549	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	11733672	52448549	81403346	138	100098											
KRT3	3850	broad.mit.edu	37	chr12	53186067	53186067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcggccttgcttctctgagCgatatcctcatactgtgcac	6	14	8	13	2	2	1	1	1	1	0	5	2	3	1	2	1	4	2	2	1	2	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:53186067C>T	uc001say.2	-	5	1210	c.1144G>A	c.(1144-1146)GCT>ACT	p.A382T		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	382	Rod.|Coil 2.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						CTTCTCTGAGCGATATCCTCA	0.547													7	19					0	0	0.038147	0	0		T	53186067	T	T	53186067	3	4	205	1	0	0	0	0	1	0	0	0	8482	768	27	1	762	1	KRT3	12	53186067	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	737518	53186067	80665828	139	100099											
OR6C6	283365	broad.mit.edu	37	chr12	55688654	55688654	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggtttgcagatggcaacGtagcggtcataggacatggc	10	9	15	7	2	1	1	1	0	0	1	1	2	1	2	0	5	3	4	0	5	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:55688654G>A	uc010sph.1	-	1	363	c.363C>T	c.(361-363)TAC>TAT	p.Y121Y		NM_001005493	NP_001005493	A6NF89	OR6C6_HUMAN	olfactory receptor, family 6, subfamily C,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|skin(1)	2						AGATGGCAACGTAGCGGTCAT	0.388													12	46					0	0	0.080935	0	0		A	55688654	A	A	55688654	2	1	205	1	0	0	0	0	0	0	0	1	11213	1140	40	1		1	OR6C6	12	55688654	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	2502587	55688654	78163241	140	100100											
KCNC2	3747	broad.mit.edu	37	chr12	75601257	75601257	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaatgaggtcgggggtctcGaagatgtccagcgcctcctc	7	8	13	13	3	1	2	0	1	1	1	6	3	3	2	4	3	1	0	4	3	2	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:75601257G>A	uc001sxg.1	-	2	1051	c.507C>T	c.(505-507)TTC>TTT	p.F169F	KCNC2_uc009zry.2_Silent_p.F169F|KCNC2_uc001sxe.2_Silent_p.F169F|KCNC2_uc001sxf.2_Silent_p.F169F|KCNC2_uc010stw.1_Silent_p.F169F	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	169	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						CGGGGGTCTCGAAGATGTCCA	0.721													5	26					0	0	0.014758	0	0		A	75601257	A	A	75601257	2	1	205	1	0	0	0	0	0	0	0	1	8031	1049	37	1		1	KCNC2	12	75601257	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	19912603	75601257	58250638	141	100101											
ACSS3	79611	broad.mit.edu	37	chr12	81532956	81532956	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcattgaacctggaaggaGggtagagtacgtaccacttg	11	9	14	7	1	0	2	0	1	0	1	0	4	0	4	2	4	3	4	2	4	5	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:81532956G>T	uc001szl.1	+	4	783	c.692G>T	c.(691-693)AGG>ATG	p.R231M	ACSS3_uc001szm.1_Missense_Mutation_p.R230M	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	231						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						CCTGGAAGGAGGGTAGAGTAC	0.348													12	45					0.00010058	0.000104587	0.09319	1	0		T	81532956	T	T	81532956	3	4	205	1	0	0	0	0	1	0	0	0	190	1000	35	5	706	5	ACSS3	12	81532956	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	5931699	81532956	52318939	142	100102											
USP44	84101	broad.mit.edu	37	chr12	95927656	95927656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaagaaataagaatcatcaCctgtacccatggaccgtaaa	17	8	7	9	1	2	2	2	0	0	2	2	3	2	3	3	1	1	3	3	1	7	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:95927656C>T	uc001teg.2	-	2	521	c.377G>A	c.(376-378)GGT>GAT	p.G126D	USP44_uc001teh.2_Missense_Mutation_p.G126D|USP44_uc009zte.2_Missense_Mutation_p.G123D	NM_001042403	NP_001035862	Q9H0E7	UBP44_HUMAN	ubiquitin thiolesterase 44	126					anaphase|cell division|mitosis|negative regulation of mitotic anaphase-promoting complex activity|protein deubiquitination|regulation of spindle checkpoint|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(1)|breast(1)|central_nervous_system(1)	3						AGAATCATCACCTGTACCCAT	0.428													9	73					0	0	0.058154	0	0		T	95927656	T	T	95927656	3	4	205	1	0	0	0	0	1	0	0	0	17101	507	18	4	1781	4	USP44	12	95927656	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	14394700	95927656	37924239	143	100103											
BTBD11	121551	broad.mit.edu	37	chr12	108013802	108013802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgtggctggagtctttgcGgatcgccttccagcagcacc	6	9	12	14	3	1	0	0	0	1	0	3	2	2	2	3	3	3	3	3	3	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:108013802G>A	uc001tmk.1	+	11	3013	c.2492G>A	c.(2491-2493)CGG>CAG	p.R831Q	BTBD11_uc009zut.1_Missense_Mutation_p.R712Q|BTBD11_uc001tmj.2_Missense_Mutation_p.R831Q|BTBD11_uc001tml.1_Missense_Mutation_p.R368Q	NM_001018072	NP_001018082	A6QL63	BTBDB_HUMAN	BTB (POZ) domain containing 11 isoform a	831	ANK 5.					integral to membrane	DNA binding			skin(2)|ovary(1)	3						GAGTCTTTGCGGATCGCCTTC	0.428													7	17					0	0	0.02938	0	0		A	108013802	A	A	108013802	3	1	205	1	0	0	0	0	1	0	0	0	1542	1116	39	1	2639	1	BTBD11	12	108013802	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	12086146	108013802	25838093	144	100104											
ZCCHC8	55596	broad.mit.edu	37	chr12	122975087	122975087	+	Missense_Mutation	SNP	A	T	T	1	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	ctttttactaaatttgatacAaattcctctatttcttgatg	11	20	3	7	0	2	2	0	2	2	0	3	2	3	2	1	0	2	0	1	0	6	10			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:122975087A>T	uc001ucn.2	-	4	476	c.345T>A	c.(343-345)TTT>TTA	p.F115L	ZCCHC8_uc009zxp.2_5'UTR|ZCCHC8_uc009zxq.2_5'UTR	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	115						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	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)		AATTTGATACAAATTCCTCTA	0.333													5	12					0	0	0.014758	0	0		T	122975087	T	T	122975087	3	4	205	1	0	0	0	0	1	0	0	0	17619	127	5	5	1822	5	ZCCHC8	12	122975087	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	14961285	122975087	10876808	145	100105											
TMEM132B	114795	broad.mit.edu	37	chr12	126139127	126139127	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accaccatcctcccagaggaCggcggcccatacaccaactc	11	4	7	19	2	0	1	0	0	0	1	3	2	2	2	6	3	2	0	6	3	2	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr12:126139127C>T	uc001uhe.1	+	9	3116	c.3108C>T	c.(3106-3108)GAC>GAT	p.D1036D	TMEM132B_uc001uhf.1_Silent_p.D548D	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	1036	Cytoplasmic (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		TCCCAGAGGACGGCGGCCCAT	0.473													13	60					0	0	0.132662	0	0		T	126139127	T	T	126139127	2	4	205	1	0	0	0	0	0	0	0	1	16071	535	19	1		1	TMEM132B	12	126139127	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	3164040	126139127	7712768	146	100106											
IFT88	8100	broad.mit.edu	37	chr13	21217687	21217689	+	In_Frame_Del	DEL	AGG	-	-																															cctcaagttttatctaagctAggagaattatatgatcgtga																										TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:21217687_21217689delAGG	uc001unh.2	+	21	2199_2201	c.1803_1805delAGG	c.(1801-1806)CTAGGA>CTA	p.G602del	IFT88_uc001uni.2_In_Frame_Del_p.G593del|IFT88_uc001unj.2_In_Frame_Del_p.G592del|IFT88_uc010tcq.1_In_Frame_Del_p.G573del	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	602	TPR 10.				cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		TATCTAAGCTAGGAGAATTATAT	0.345													28	64	---	---	---	---						.	-	21217689	-	-	21217687	7	5	205	1	0	1	0	1	0	0	0	0	7582	407	15	0	1877	0	IFT88	13	21217687	In_Frame_Del	DEL	AGG	TCGA-HU-8604-01A-11D-2394-08		21217687	93952191	147	100107											
EFHA1	221154	broad.mit.edu	37	chr13	22095431	22095431	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcattaccatctgtatccaGcattttaaaagcaacatgaa	15	12	4	10	0	2	1	1	1	1	0	3	1	3	1	2	0	4	3	2	0	6	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:22095431G>C	uc001uof.2	-	6	572	c.550C>G	c.(550-552)CTG>GTG	p.L184V		NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1	184	EF-hand 1.						calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		TCTGTATCCAGCATTTTAAAA	0.308													7	27					0	0	0.047766	0	0		C	22095431	C	C	22095431	3	2	205	1	0	0	0	0	1	0	0	0	4949	962	34	5	782	5	EFHA1	13	22095431	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	877744	22095431	93074447	148	100108											
TNFRSF19	55504	broad.mit.edu	37	chr13	24190051	24190051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcacagtgtgtgacgtgcCggctgcacaggttcaaggag	9	8	15	9	2	1	1	1	1	0	0	1	2	1	2	1	3	3	4	1	3	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:24190051C>T	uc001uov.1	+	4	290	c.226C>T	c.(226-228)CGG>TGG	p.R76W	TNFRSF19_uc001uot.2_Missense_Mutation_p.R76W|TNFRSF19_uc010tcu.1_5'UTR|TNFRSF19_uc001uow.2_Missense_Mutation_p.R76W	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	tumor necrosis factor receptor superfamily,	76	TNFR-Cys 2.|Extracellular (Potential).				apoptosis|induction of apoptosis|JNK cascade	integral to membrane|mitochondrion	tumor necrosis factor receptor activity			kidney(1)|skin(1)	2		all_cancers(29;3.4e-22)|all_epithelial(30;8.75e-19)|all_lung(29;5.09e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00193)|Epithelial(112;0.0137)|OV - Ovarian serous cystadenocarcinoma(117;0.0465)|GBM - Glioblastoma multiforme(144;0.184)|Lung(94;0.19)		TGTGACGTGCCGGCTGCACAG	0.537													37	72					0	0	0.086207	0	0		T	24190051	T	T	24190051	3	4	205	1	0	0	0	0	1	0	0	0	16317	643	23	1	236	1	TNFRSF19	13	24190051	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	2094620	24190051	90979827	149	100109											
RXFP2	122042	broad.mit.edu	37	chr13	32365959	32365959	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagttatttcaaaaactttCgatactgctcctatgctccc	10	16	4	11	1	1	0	1	0	0	0	4	1	3	0	2	0	4	3	2	0	6	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:32365959C>T	uc001utt.2	+	15	1233	c.1162C>T	c.(1162-1164)CGA>TGA	p.R388*	RXFP2_uc010aba.2_Nonsense_Mutation_p.R347*	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	388	Extracellular (Potential).					integral to membrane|plasma membrane					0		Lung SC(185;0.0262)		all cancers(112;0.000559)|Epithelial(112;0.0017)|OV - Ovarian serous cystadenocarcinoma(117;0.0145)|BRCA - Breast invasive adenocarcinoma(63;0.0535)		CAAAAACTTTCGATACTGCTC	0.423													21	64					0	0	0.0918	0	0		T	32365959	T	T	32365959	4	4	205	1	0	0	0	0	0	1	0	0	13785	876	31	1	1220	1	RXFP2	13	32365959	Nonsense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	8175908	32365959	82803919	150	100110											
ZC3H13	23091	broad.mit.edu	37	chr13	46541793	46541793	+	Silent	SNP	G	A	A	0	0	1	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	ccttccagttttgcttcacaGcgtttcacagactctatttg	7	16	6	12	1	3	1	2	0	1	1	4	1	4	1	2	0	2	3	2	0	1	7			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:46541793G>A	uc010tfw.1	-	14	4173	c.4167C>T	c.(4165-4167)CGC>CGT	p.R1389R	ZC3H13_uc001vaq.2_5'UTR|ZC3H13_uc001vas.1_Silent_p.R1389R	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	1389							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TTGCTTCACAGCGTTTCACAG	0.313													12	104					0	0	0.080935	0	0		A	46541793	A	A	46541793	2	1	205	1	0	0	0	0	0	0	0	1	17590	958	34	2		2	ZC3H13	13	46541793	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	14175834	46541793	68628085	151	100111											
LRCH1	23143	broad.mit.edu	37	chr13	47224395	47224395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgccattttgtatcactgGaaattcttaatctgtatcac	10	17	6	8	0	4	0	2	0	2	0	4	1	4	1	1	1	1	2	1	1	4	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:47224395G>A	uc001vbj.2	+	2	603	c.367G>A	c.(367-369)GAA>AAA	p.E123K	LRCH1_uc010acp.2_Missense_Mutation_p.E123K|LRCH1_uc001vbk.2_Missense_Mutation_p.E123K|LRCH1_uc001vbl.3_Missense_Mutation_p.E123K	NM_015116	NP_055931	Q9Y2L9	LRCH1_HUMAN	leucine-rich repeats and calponin homology (CH)	123	LRR 2.									ovary(1)|central_nervous_system(1)	2		all_lung(13;5.61e-07)|Lung NSC(96;0.000117)|Breast(56;0.000141)|Prostate(109;0.0029)|Lung SC(185;0.0367)|Myeloproliferative disorder(33;0.0505)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000123)		TGTATCACTGGAAATTCTTAA	0.348													6	25					0	0	0.02938	0	0		A	47224395	A	A	47224395	3	1	205	1	0	0	0	0	1	0	0	0	8950	1175	41	4	373	4	LRCH1	13	47224395	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	682602	47224395	67945483	152	100112											
PCDH17	27253	broad.mit.edu	37	chr13	58207414	58207414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacagcccggtcttcgaggCgccatcctacttggtggaac	8	8	11	14	3	1	0	0	0	1	0	3	2	2	1	3	4	4	0	3	4	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:58207414C>T	uc001vhq.1	+	1	1626	c.734C>T	c.(733-735)GCG>GTG	p.A245V	PCDH17_uc010aec.1_Missense_Mutation_p.A245V	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	245	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		GTCTTCGAGGCGCCATCCTAC	0.602													11	73					0	0	0.080935	0	0		T	58207414	T	T	58207414	3	4	205	1	0	0	0	0	1	0	0	0	11531	768	27	1	736	1	PCDH17	13	58207414	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	10983019	58207414	56962464	153	100113											
PCDH17	27253	broad.mit.edu	37	chr13	58299127	58299127	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggatggctgtgaagcaaAaccaggagccctggctgaag	11	6	14	10	0	0	2	0	2	0	0	0	4	0	4	3	4	3	3	3	4	4	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:58299127A>C	uc001vhq.1	+	4	4071	c.3179A>C	c.(3178-3180)AAA>ACA	p.K1060T	PCDH17_uc010aec.1_Missense_Mutation_p.K1059T|PCDH17_uc001vhr.1_Missense_Mutation_p.K149T	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	1060	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		TGTGAAGCAAAACCAGGAGCC	0.552													12	105					0	0	0.080935	0	0		C	58299127	C	C	58299127	3	2	205	1	0	0	0	0	1	0	0	0	11531	14	1	5	3193	5	PCDH17	13	58299127	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	91713	58299127	56870751	154	100114											
PCDH20	64881	broad.mit.edu	37	chr13	61985660	61985660	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attaatctctggttcttttcTtaaaagactctcaatgtaac	12	17	4	8	0	4	1	1	0	4	1	6	1	4	1	0	1	1	2	0	1	5	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:61985660T>C	uc001vid.3	-	2	2936	c.2572A>G	c.(2572-2574)AGA>GGA	p.R858G	PCDH20_uc010thj.1_Missense_Mutation_p.R858G	NM_022843	NP_073754	Q8N6Y1	PCD20_HUMAN	protocadherin 20	831	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|breast(1)|central_nervous_system(1)	6		Breast(118;0.195)|Prostate(109;0.229)		GBM - Glioblastoma multiforme(99;0.000118)		GGTTCTTTTCTTAAAAGACTC	0.408													28	47					0	0	0.099896	0	0		C	61985660	C	C	61985660	3	2	205	1	0	0	0	0	1	0	0	0	11534	1617	56	3	287	3	PCDH20	13	61985660	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	3686533	61985660	53184218	155	100115											
GPC5	2262	broad.mit.edu	37	chr13	92408651	92408651	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcagatggacttccctgctgGaatggagaagatatagtaaa	14	9	12	6	0	0	3	0	0	0	3	1	6	1	5	1	3	1	3	1	3	6	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr13:92408651G>T	uc010tif.1	+	5	1623	c.1257G>T	c.(1255-1257)TGG>TGT	p.W419C		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	419						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				TTCCCTGCTGGAATGGAGAAG	0.383													11	103					1.08611e-07	1.21663e-07	0.080935	1	0		T	92408651	T	T	92408651	3	4	205	1	0	0	0	0	1	0	0	0	6616	1183	41	5	1275	5	GPC5	13	92408651	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	30422991	92408651	22761227	156	100116											
OR10G2	26534	broad.mit.edu	37	chr14	22102698	22102698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atacagttgagccacacagcCaccaaacgggatagccttga	14	6	9	12	1	0	2	0	2	0	0	0	3	0	3	4	1	5	1	4	1	3	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr14:22102698C>T	uc010tmc.1	-	1	301	c.301G>A	c.(301-303)GGC>AGC	p.G101S		NM_001005466	NP_001005466	Q8NGC3	O10G2_HUMAN	olfactory receptor, family 10, subfamily G,	101	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(95;0.00113)	Acute lymphoblastic leukemia(2;0.0279)		GBM - Glioblastoma multiforme(265;0.0142)		GCCACACAGCCACCAAACGGG	0.507													4	40					0	0	0.009096	0	0		T	22102698	T	T	22102698	3	4	205	1	0	0	0	0	1	0	0	0	10918	594	21	4	634	4	OR10G2	14	22102698	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		22102698	85246842	157	100117											
FOXG1	2290	broad.mit.edu	37	chr14	29237297	29237297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttcatcggcggcaccacggGcaagctgcggcgccgctcca	6	5	14	16	6	1	0	1	0	0	0	3	0	2	0	3	4	2	5	3	4	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr14:29237297G>A	uc001wqe.2	+	1	1011	c.812G>A	c.(811-813)GGC>GAC	p.G271D		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	271	Fork-head.				axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		GGCACCACGGGCAAGCTGCGG	0.701													16	37					0	0	0.132662	0	0		A	29237297	A	A	29237297	3	1	205	1	0	0	0	0	1	0	0	0	6021	1203	42	2	814	2	FOXG1	14	29237297	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	7134599	29237297	78112243	158	100118											
SYT16	83851	broad.mit.edu	37	chr14	62463155	62463155	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccacatgtgctttcttctAttgcggaggaagagcatcac	10	12	9	10	1	3	1	1	0	2	1	3	3	3	3	1	2	4	2	1	2	3	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr14:62463155A>G	uc001xfu.1	+	1	615	c.418A>G	c.(418-420)ATT>GTT	p.I140V	SYT16_uc010tsd.1_Missense_Mutation_p.I140V	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	140										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		GCTTTCTTCTATTGCGGAGGA	0.473													10	131					0	0	0.069234	0	0		G	62463155	G	G	62463155	3	3	205	1	0	0	0	0	1	0	0	0	15497	449	16	3	420	3	SYT16	14	62463155	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	33225858	62463155	44886385	159	100119											
NIPA2	81614	broad.mit.edu	37	chr15	23021278	23021278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttcctccaatgaaaatgctgGagctcatagccaatcccaga	13	9	7	12	0	1	2	1	1	0	1	4	3	4	3	4	1	3	2	4	1	5	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:23021278G>A	uc001yux.2	-	4	672	c.59C>T	c.(58-60)TCC>TTC	p.S20F	NIPA2_uc001yuy.2_Missense_Mutation_p.S20F|NIPA2_uc001yuz.2_Missense_Mutation_p.S20F|NIPA2_uc001yva.2_Missense_Mutation_p.S20F|NIPA2_uc001yvb.2_Missense_Mutation_p.S20F|NIPA2_uc010ayb.2_Missense_Mutation_p.S20F	NM_030922	NP_112184	Q8N8Q9	NIPA2_HUMAN	non imprinted in Prader-Willi/Angelman syndrome	20	Helical; (Potential).					early endosome|integral to membrane|plasma membrane				haematopoietic_and_lymphoid_tissue(1)	1		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)		GAAAATGCTGGAGCTCATAGC	0.428													10	73					0	0	0.069234	0	0		A	23021278	A	A	23021278	3	1	205	1	0	0	0	0	1	0	0	0	10442	1174	41	4	1043	4	NIPA2	15	23021278	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		23021278	79510114	160	100120											
SNRPN	6638	broad.mit.edu	37	chr15	25222082	25222082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	aggccctggggttggtagggCagctggtagaggagtaccag	8	7	19	7	0	0	1	0	0	0	1	0	2	0	2	2	7	2	6	2	7	3	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:25222082C>A	uc001ywp.1	+	10	1216	c.326C>A	c.(325-327)GCA>GAA	p.A109E	SNRPN_uc001ywq.1_Missense_Mutation_p.A109E|SNRPN_uc001ywr.1_Missense_Mutation_p.A109E|SNRPN_uc001yws.1_Missense_Mutation_p.A109E|SNRPN_uc001ywt.1_Missense_Mutation_p.A109E|SNRPN_uc001ywv.1_Missense_Mutation_p.A112E|SNRPN_uc001yww.1_Missense_Mutation_p.A109E|SNRPN_uc001ywx.1_Missense_Mutation_p.A109E|SNRPN_uc001ywz.1_Intron|PAR-SN_uc001yxa.1_Intron|SNRPN_uc001ywy.1_3'UTR	NM_022807	NP_073718	P63162	RSMN_HUMAN	small nuclear ribonucleoprotein polypeptide N	109					RNA splicing	small nuclear ribonucleoprotein complex|spliceosomal complex	identical protein binding|RNA binding			ovary(1)	1		all_cancers(20;9.33e-22)|Breast(32;0.000625)		all cancers(64;3.38e-08)|Epithelial(43;3.45e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000207)|GBM - Glioblastoma multiforme(186;0.125)		GTTGGTAGGGCAGCTGGTAGA	0.562									Prader-Willi_syndrome				15	55					1.5739e-10	1.80963e-10	0.146539	1	0		A	25222082	A	A	25222082	3	1	205	1	0	0	0	0	1	0	0	0	14895	710	25	5	340	5	SNRPN	15	25222082	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	2200804	25222082	77309310	161	100121											
GABRG3	2567	broad.mit.edu	37	chr15	27271960	27271960	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcattggtcctgtgtcatcaAtaaacatggtaagaagctcc	12	11	9	9	0	2	1	2	0	0	1	4	1	4	1	2	2	2	3	2	2	5	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:27271960A>G	uc001zbg.1	+	3	428	c.262A>G	c.(262-264)ATA>GTA	p.I88V	GABRG3_uc001zbf.2_Missense_Mutation_p.I88V	NM_033223	NP_150092	Q99928	GBRG3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, gamma	88	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity				0		all_lung(180;4.58e-12)|Breast(32;0.000625)|Colorectal(260;0.235)		all cancers(64;3.15e-07)|Epithelial(43;1.17e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0261)		TGTGTCATCAATAAACATGGT	0.378													8	8					0	0	0.038147	0	0		G	27271960	G	G	27271960	3	3	205	1	0	0	0	0	1	0	0	0	6187	101	4	3	272	3	GABRG3	15	27271960	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	2049878	27271960	75259432	162	100122											
TTBK2	146057	broad.mit.edu	37	chr15	43067607	43067607	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcatcagaaggacttccaGttgttttatgtcctacagcc	9	13	7	12	0	2	1	2	0	0	1	4	2	4	2	4	1	2	2	4	1	3	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:43067607G>C	uc001zqo.2	-	13	2163	c.1724C>G	c.(1723-1725)ACT>AGT	p.T575S	TTBK2_uc010bcy.2_Missense_Mutation_p.T506S	NM_173500	NP_775771	Q6IQ55	TTBK2_HUMAN	tau tubulin kinase 2	575					cell death		ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|stomach(1)|pancreas(1)|skin(1)	7		all_cancers(109;6.11e-16)|all_epithelial(112;5.5e-14)|Lung NSC(122;1.76e-08)|all_lung(180;6.04e-08)|Melanoma(134;0.0179)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;3.23e-07)		AGGACTTCCAGTTGTTTTATG	0.443													19	52					0	0	0.049695	0	0		C	43067607	C	C	43067607	3	2	205	1	0	0	0	0	1	0	0	0	16703	1029	36	5	2022	5	TTBK2	15	43067607	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	15795647	43067607	59463785	163	100123											
MFAP1	4236	broad.mit.edu	37	chr15	44105482	44105482	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcctttcctcagccatgcGttttgcttcctgctccagct	3	14	8	16	2	1	0	1	0	0	0	4	0	4	0	5	0	5	4	5	0	0	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:44105482G>A	uc001zth.1	-	5	875	c.691C>T	c.(691-693)CGC>TGC	p.R231C		NM_005926	NP_005917	P55081	MFAP1_HUMAN	microfibrillar-associated protein 1	231						microfibril				skin(1)	1		all_cancers(109;7.57e-15)|all_epithelial(112;3.51e-12)|Lung NSC(122;4.72e-08)|all_lung(180;4.9e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;4.33e-07)		TCAGCCATGCGTTTTGCTTCC	0.483													27	168					0	0	0.125774	0	0		A	44105482	A	A	44105482	3	1	205	1	0	0	0	0	1	0	0	0	9531	1145	40	1	648	1	MFAP1	15	44105482	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	1037875	44105482	58425910	164	100124											
ANPEP	290	broad.mit.edu	37	chr15	90349397	90349397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggagcctcccacaccacGcaggaccaccctgtgcccct	7	5	9	20	1	0	0	0	0	0	0	1	2	1	2	7	2	2	1	7	2	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:90349397G>A	uc002bop.3	-	2	710	c.418C>T	c.(418-420)CGT>TGT	p.R140C		NM_001150	NP_001141	P15144	AMPN_HUMAN	membrane alanine aminopeptidase precursor	140	Extracellular.|Metalloprotease.				angiogenesis|cell differentiation|interspecies interaction between organisms	cytosol|ER-Golgi intermediate compartment|integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|receptor activity|zinc ion binding			ovary(3)|skin(1)	4	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)	CCCACACCACGCAGGACCACC	0.617													25	36					0	0	0.083992	0	0		A	90349397	A	A	90349397	3	1	205	1	0	0	0	0	1	0	0	0	710	1087	38	1	2565	1	ANPEP	15	90349397	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	46243915	90349397	12181995	165	100125											
SLCO3A1	28232	broad.mit.edu	37	chr15	92706046	92706046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccacctgcctgttctggaGcacgttctgtggggagcaag	6	10	13	12	1	2	0	0	0	2	0	3	2	3	2	3	3	3	4	3	3	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:92706046G>A	uc002bqx.2	+	10	2015	c.1814G>A	c.(1813-1815)AGC>AAC	p.S605N	SLCO3A1_uc002bqy.2_Missense_Mutation_p.S605N|SLCO3A1_uc002bqz.1_Missense_Mutation_p.S547N	NM_013272	NP_037404	Q9UIG8	SO3A1_HUMAN	solute carrier organic anion transporter family,	605	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane|plasma membrane	sodium-independent organic anion transmembrane transporter activity			skin(1)	1	Lung NSC(78;0.0158)|all_lung(78;0.0255)		BRCA - Breast invasive adenocarcinoma(143;0.0841)			CTGTTCTGGAGCACGTTCTGT	0.562													13	56					0	0	0.09319	0	0		A	92706046	A	A	92706046	3	1	205	1	0	0	0	0	1	0	0	0	14753	971	34	2	1852	2	SLCO3A1	15	92706046	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	2356649	92706046	9825346	166	100126											
LASS3	204219	broad.mit.edu	37	chr15	100942975	100942975	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcagccctgaggccgttcttTaaacaatccatctctttgcc	8	13	6	14	1	3	1	1	1	2	0	5	1	4	1	4	1	3	1	4	1	3	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr15:100942975T>C	uc002bvz.2	-	13	1597	c.1095A>G	c.(1093-1095)TTA>TTG	p.L365L	LASS3_uc002bwa.2_Silent_p.L376L|LASS3_uc002bwb.2_Silent_p.L365L	NM_178842	NP_849164	Q8IU89	CERS3_HUMAN	LAG1 longevity assurance homolog 3	365						endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(2)|pancreas(1)|skin(1)	4	Lung NSC(78;0.0018)|all_lung(78;0.00278)|Melanoma(26;0.00852)		OV - Ovarian serous cystadenocarcinoma(32;0.000867)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)			GGCCGTTCTTTAAACAATCCA	0.433													4	28					0	0	0.009096	0	0		C	100942975	C	C	100942975	2	2	205	1	0	0	0	0	0	0	0	1	8656	1751	61	3		3	LASS3	15	100942975	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	8236929	100942975	1588417	167	100127											
SEC14L5	9717	broad.mit.edu	37	chr16	5064923	5064923	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctcagcgccgccacctcGtcctcctcctccggccagtc	4	7	8	22	4	1	0	1	0	0	0	7	0	5	0	8	1	2	1	8	1	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr16:5064923G>A	uc002cye.2	+	16	2223	c.2043G>A	c.(2041-2043)TCG>TCA	p.S681S		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	681	Ser-rich.					integral to membrane|intracellular	transporter activity				0						CCGCCACCTCGTCCTCCTCCT	0.657													6	50					0	0	0.021553	0	0		A	5064923	A	A	5064923	2	1	205	1	0	0	0	0	0	0	0	1	14010	1132	40	1		1	SEC14L5	16	5064923	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08		5064923	85289830	168	100128											
A2BP1	54715	broad.mit.edu	37	chr16	7568266	7568266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcccctcatccccaccccGcgccagagtacacaggccag	8	3	9	21	3	1	1	1	0	0	1	2	1	2	1	8	2	1	1	8	2	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr16:7568266G>A	uc002cys.2	+	5	1133	c.145G>A	c.(145-147)GCG>ACG	p.A49T	A2BP1_uc010buf.1_Missense_Mutation_p.A49T|A2BP1_uc002cyr.1_Missense_Mutation_p.A49T|A2BP1_uc002cyt.2_Missense_Mutation_p.A49T|A2BP1_uc010uxz.1_Missense_Mutation_p.A92T|A2BP1_uc010uya.1_Missense_Mutation_p.A85T|A2BP1_uc002cyv.1_Missense_Mutation_p.A49T|A2BP1_uc010uyb.1_Missense_Mutation_p.A49T|A2BP1_uc002cyw.2_Missense_Mutation_p.A69T|A2BP1_uc002cyy.2_Missense_Mutation_p.A69T|A2BP1_uc002cyx.2_Missense_Mutation_p.A69T|A2BP1_uc010uyc.1_Missense_Mutation_p.A69T	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	49					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		TCCCCACCCCGCGCCAGAGTA	0.662													19	115					0	0	0.069288	0	0		A	7568266	A	A	7568266	3	1	205	1	0	0	0	0	1	0	0	0	3	1087	38	1	242	1	A2BP1	16	7568266	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	2503343	7568266	82786487	169	100129											
PMM2	5373	broad.mit.edu	37	chr16	8941586	8941586	+	Silent	SNP	C	T	T	0	0	0	1	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	ttcgtgtctttccagggtggCaatgaccatgagatcttcac	8	13	10	10	1	3	2	1	2	2	1	5	3	4	2	2	2	0	1	2	2	1	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr16:8941586C>T	uc002czf.3	+	8	715	c.645C>T	c.(643-645)GGC>GGT	p.G215G	PMM2_uc010uyf.1_RNA|PMM2_uc010uyg.1_Silent_p.G132G|PMM2_uc010uyh.1_Silent_p.G90G|PMM2_uc010buj.2_RNA|PMM2_uc010uyi.1_Silent_p.G68G|PMM2_uc002czg.1_5'Flank	NM_000303	NP_000294	O15305	PMM2_HUMAN	phosphomannomutase 2	215					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	phosphomannomutase activity			ovary(1)	1						TCCAGGGTGGCAATGACCATG	0.547													8	45					0	0	0.038147	0	0		T	8941586	T	T	8941586	2	4	205	1	0	0	0	0	0	0	0	1	12156	697	25	2		2	PMM2	16	8941586	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1373320	8941586	81413167	170	100130											
TEPP	374739	broad.mit.edu	37	chr16	58019442	58019442	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacagaagcccctgcctttCgactccctgtaagtgacgcc	8	8	10	15	2	0	2	0	1	0	1	2	4	1	3	5	1	2	1	5	1	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr16:58019442C>A	uc002emw.3	+	6	781	c.744C>A	c.(742-744)TTC>TTA	p.F248L	TEPP_uc002emv.3_Missense_Mutation_p.F275L	NM_199456	NP_955535	Q6URK8	TEPP_HUMAN	testis/prostate/placenta-expressed protein	248						extracellular region				kidney(1)|central_nervous_system(1)|skin(1)	3						CCCTGCCTTTCGACTCCCTGT	0.627													4	39					0.00909568	0.00913066	0.009096	1	0		A	58019442	A	A	58019442	3	1	205	1	0	0	0	0	1	0	0	0	15785	883	31	5	847	5	TEPP	16	58019442	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	49077856	58019442	32335311	171	100131											
CENPN	55839	broad.mit.edu	37	chr16	81061840	81061840	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgagagggaagaacccctccGatgcctaataaagttctcta	13	9	9	10	1	1	2	0	1	1	2	3	5	2	3	4	1	2	1	4	1	6	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr16:81061840G>A	uc002ffx.2	+	10	1665	c.875G>A	c.(874-876)CGA>CAA	p.R292Q	CENPN_uc010vnl.1_Missense_Mutation_p.R258Q|CENPN_uc010vnm.1_Missense_Mutation_p.R272Q|CENPN_uc002ffy.3_Missense_Mutation_p.R292Q	NM_001100624	NP_001094094	Q96H22	CENPN_HUMAN	centromere protein N isoform 2	292					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleoplasm					0						GAACCCCTCCGATGCCTAATA	0.393													9	48					0	0	0.047766	0	0		A	81061840	A	A	81061840	3	1	205	1	0	0	0	0	1	0	0	0	3241	1058	37	1	997	1	CENPN	16	81061840	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	23042398	81061840	9292913	172	100132											
KLHL36	79786	broad.mit.edu	37	chr16	84690914	84690914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagcggcttgatgccttcatCgatggcttcatcctgaacca	9	11	9	12	2	2	2	2	2	0	0	4	3	3	2	3	2	3	2	3	2	2	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr16:84690914C>T	uc002fig.2	+	3	642	c.501C>T	c.(499-501)ATC>ATT	p.I167I	KLHL36_uc010chl.2_Silent_p.I166I	NM_024731	NP_079007	Q8N4N3	KLH36_HUMAN	kelch-like 36	167	BACK.									skin(2)	2						ATGCCTTCATCGATGGCTTCA	0.572													7	69					0	0	0.02938	0	0		T	84690914	T	T	84690914	2	4	205	1	0	0	0	0	0	0	0	1	8405	874	31	1		1	KLHL36	16	84690914	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	3629074	84690914	5663839	173	100133											
TUBB3	10381	broad.mit.edu	37	chr16	90002028	90002028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagttcacggccatgttccGgcgcaaggccttcctgcact	6	9	11	15	3	1	0	1	0	0	0	3	0	3	0	4	3	1	5	4	3	1	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr16:90002028G>A	uc002fph.1	+	4	1234	c.1169G>A	c.(1168-1170)CGG>CAG	p.R390Q	TUBB3_uc002fpf.2_Missense_Mutation_p.R737Q|TUBB3_uc010ciz.1_Missense_Mutation_p.R318Q|TUBB3_uc002fpg.1_Missense_Mutation_p.R244Q|TUBB3_uc002fpi.1_Missense_Mutation_p.R318Q|TUBB3_uc002fpj.1_Missense_Mutation_p.R318Q|TUBB3_uc010cjb.1_Missense_Mutation_p.R244Q|TUBB3_uc002fpk.1_Missense_Mutation_p.R244Q	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	390					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		GCCATGTTCCGGCGCAAGGCC	0.627													25	167					0	0	0.099896	0	0		A	90002028	A	A	90002028	3	1	205	1	0	0	0	0	1	0	0	0	16783	1116	39	1	1183	1	TUBB3	16	90002028	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	5311114	90002028	352725	174	100134											
SERPINF2	5345	broad.mit.edu	37	chr17	1657612	1657612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccttcctcttcttcatcttCgaggacaccacaggccttcc	6	12	5	18	1	4	0	1	0	3	0	7	2	6	1	5	2	0	0	5	2	0	5	rs147941157		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:1657612C>T	uc002ftk.1	+	10	1337	c.1260C>T	c.(1258-1260)TTC>TTT	p.F420F	SERPINF2_uc010vqr.1_Silent_p.F356F	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	420					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	TCTTCATCTTCGAGGACACCA	0.652													42	95					0	0	0.117977	0	0		T	1657612	T	T	1657612	2	4	205	1	0	0	0	0	0	0	0	1	14140	883	31	1		1	SERPINF2	17	1657612	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08		1657612	79537598	175	100135											
POLR2A	5430	broad.mit.edu	37	chr17	7416898	7416898	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcacccagctattcacctaCtagtcccaactacacaccta	13	9	2	17	0	2	0	2	0	0	0	3	0	3	0	4	0	4	1	4	0	6	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:7416898C>T	uc002ghf.3	+	29	5549	c.5315C>T	c.(5314-5316)ACT>ATT	p.T1772I		NM_000937	NP_000928	P24928	RPB1_HUMAN	DNA-directed RNA polymerase II A	1772	26.|52 X 7 AA approximate tandem repeats of Y-[ST]-P-[STQ]-[ST]-P-[SRTEVKGN].				mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			pancreas(1)	1		Prostate(122;0.173)				TATTCACCTACTAGTCCCAAC	0.463													56	299					0	0	0.139131	0	0		T	7416898	T	T	7416898	3	4	205	1	0	0	0	0	1	0	0	0	12233	565	20	4	5429	4	POLR2A	17	7416898	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	5759286	7416898	73778312	176	100136											
GAS7	8522	broad.mit.edu	37	chr17	9820567	9820567	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	agatctccatgtccacagggCggatgttgcccgtcttgtgc	6	11	12	12	2	2	1	0	0	2	1	4	2	3	2	3	2	2	1	3	2	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:9820567C>A	uc002gmg.1	-	14	1570	c.1409G>T	c.(1408-1410)CGC>CTC	p.R470L	GAS7_uc010vvc.1_Missense_Mutation_p.R284L|GAS7_uc002gmh.1_Missense_Mutation_p.R330L|GAS7_uc010vvd.1_Missense_Mutation_p.R422L|GAS7_uc002gmi.2_Missense_Mutation_p.R406L|GAS7_uc002gmj.1_Missense_Mutation_p.R410L|GAS7_uc010coh.1_Missense_Mutation_p.R410L	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	470					cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						GTCCACAGGGCGGATGTTGCC	0.637			T	MLL	AML*								12	45					3.07112e-06	3.31224e-06	0.080935	1	0		A	9820567	A	A	9820567	3	1	205	1	0	0	0	0	1	0	0	0	6265	768	27	5	25	5	GAS7	17	9820567	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	2403669	9820567	71374643	177	100137											
MYO1D	4642	broad.mit.edu	37	chr17	30986210	30986210	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccacttcacgtgcttcccGtagtctcgcatggtcttgac	5	12	10	14	3	3	1	1	1	2	0	5	1	4	1	2	2	1	3	2	2	1	4	rs150683059		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:30986210G>A	uc002hho.1	-	17	2280	c.2268C>T	c.(2266-2268)TAC>TAT	p.Y756Y	MYO1D_uc002hhp.1_Silent_p.Y756Y	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	756						myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CGTGCTTCCCGTAGTCTCGCA	0.532											OREG0024311	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	104					0	0	0.069234	0	0		A	30986210	A	A	30986210	2	1	205	1	0	0	0	0	0	0	0	1	10089	1140	40	1		1	MYO1D	17	30986210	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	21165643	30986210	50209000	178	100138											
AMAC1	146861	broad.mit.edu	37	chr17	33521011	33521011	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgttgagcagggcacagaAgaaggcccggcttcggatgt	10	7	16	8	2	0	3	0	1	0	2	1	5	0	4	1	4	1	4	1	4	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:33521011A>C	uc002hjd.2	-	1	402	c.316T>G	c.(316-318)TTC>GTC	p.F106V		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	106	DUF6 1.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		AGGGCACAGAAGAAGGCCCGG	0.587													21	163					0	0	0.049695	0	0		C	33521011	C	C	33521011	3	2	205	1	0	0	0	0	1	0	0	0	559	72	3	5	704	5	AMAC1	17	33521011	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	2534801	33521011	47674199	179	100139											
KRT39	390792	broad.mit.edu	37	chr17	39114929	39114929	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaccttcccatccttaatcTccttggtgatggtgcaaatt	8	15	7	11	0	1	2	0	2	1	0	4	2	3	2	4	2	1	1	4	2	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:39114929T>C	uc002hvo.1	-	7	1436	c.1400A>G	c.(1399-1401)GAG>GGG	p.E467G	KRT39_uc010wfm.1_Missense_Mutation_p.E200G	NM_213656	NP_998821	Q6A163	K1C39_HUMAN	type I hair keratin KA35	467	Tail.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)|Ovarian(249;0.15)				ATCCTTAATCTCCTTGGTGAT	0.498													25	76					0	0	0.083992	0	0		C	39114929	C	C	39114929	3	2	205	1	0	0	0	0	1	0	0	0	8492	1551	54	3	79	3	KRT39	17	39114929	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	5593918	39114929	42080281	180	100140											
KRT35	3886	broad.mit.edu	37	chr17	39635168	39635168	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctcatctcctccagaactCggttcaggtcaacaggtggg	9	9	10	13	1	4	1	3	0	1	1	7	1	5	1	3	4	2	1	3	4	2	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:39635168C>T	uc002hws.2	-	4	834	c.791G>A	c.(790-792)CGA>CAA	p.R264Q		NM_002280	NP_002271	Q92764	KRT35_HUMAN	keratin 35	264	Rod.|Coil 2.				anatomical structure morphogenesis	intermediate filament	protein binding|structural molecule activity			ovary(1)|skin(1)	2		Breast(137;0.000286)				CTCCAGAACTCGGTTCAGGTC	0.552													19	44					0	0	0.038395	0	0		T	39635168	T	T	39635168	3	4	205	1	0	0	0	0	1	0	0	0	8488	884	31	1	592	1	KRT35	17	39635168	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	520239	39635168	41560042	181	100141											
STAT3	6774	broad.mit.edu	37	chr17	40476996	40476996	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctaaccttgggattgttggtCagcatgttgtaccacaggat	9	13	11	8	0	1	0	1	0	0	0	1	2	1	2	2	3	3	4	2	3	2	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:40476996C>T	uc002hzl.1	-	16	1689	c.1449G>A	c.(1447-1449)CTG>CTA	p.L483L	STAT3_uc002hzk.1_Silent_p.L483L|STAT3_uc002hzm.1_Silent_p.L483L|STAT3_uc010wgh.1_Silent_p.L385L|STAT3_uc002hzn.1_Silent_p.L483L	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	483					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		GATTGTTGGTCAGCATGTTGT	0.547									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				19	74					0	0	0.055883	0	0		T	40476996	T	T	40476996	2	4	205	1	0	0	0	0	0	0	0	1	15291	813	29	4		4	STAT3	17	40476996	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	841828	40476996	40718214	182	100142											
SLC35B1	10237	broad.mit.edu	37	chr17	47782507	47782507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagagtagctctccatagccGactgtgtgttcttctatccc	8	13	8	12	1	3	1	0	0	3	1	5	2	4	1	3	0	2	3	3	0	4	5	rs150721486	byFrequency	TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:47782507G>A	uc002iph.1	-	5	594	c.507C>T	c.(505-507)GTC>GTT	p.V169V	SLC35B1_uc002ipi.1_Silent_p.V102V|SLC35B1_uc002ipj.1_Silent_p.V45V|SLC35B1_uc010wly.1_Silent_p.V169V	NM_005827	NP_005818	P78383	S35B1_HUMAN	solute carrier family 35, member B1	169	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	UDP-galactose transmembrane transporter activity				0						CTCCATAGCCGACTGTGTGTT	0.488													22	88					0	0	0.069288	0	0		A	47782507	A	A	47782507	2	1	205	1	0	0	0	0	0	0	0	1	14600	1045	37	1		1	SLC35B1	17	47782507	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	7305511	47782507	33412703	183	100143											
ABCA8	10351	broad.mit.edu	37	chr17	66902186	66902186	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcatgcattttatttaccCgattcattaattgtagattt	10	21	4	6	1	2	1	2	0	0	1	2	2	2	1	1	0	2	2	1	0	4	10			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:66902186C>T	uc002jhp.2	-	17	2456	c.2277G>A	c.(2275-2277)TCG>TCA	p.S759S	ABCA8_uc002jhq.2_Silent_p.S799S|ABCA8_uc010wqq.1_Silent_p.S799S|ABCA8_uc010wqr.1_Silent_p.S738S|ABCA8_uc002jhr.2_Silent_p.S799S	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	759						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					TTTATTTACCCGATTCATTAA	0.328													14	88					0	0	0.105934	0	0		T	66902186	T	T	66902186	2	4	205	1	0	0	0	0	0	0	0	1	38	666	23	1		1	ABCA8	17	66902186	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	19119679	66902186	14293024	184	100144											
FADS6	283985	broad.mit.edu	37	chr17	72889611	72889611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccagcacctccagctccCgcagcagcgcctcgccccca	7	3	8	23	3	0	0	0	0	0	0	3	0	2	0	7	0	4	5	7	0	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:72889611C>T	uc002jmd.1	-	1	95	c.83G>A	c.(82-84)CGG>CAG	p.R28Q		NM_178128	NP_835229	Q8N9I5	FADS6_HUMAN	fatty acid desaturase domain family, member 6	34					fatty acid biosynthetic process	integral to membrane	oxidoreductase activity				0	all_lung(278;0.172)|Lung NSC(278;0.207)					CTCCAGCTCCCGCAGCAGCGC	0.706													4	9					0	0	0.021553	0	0		T	72889611	T	T	72889611	3	4	205	1	0	0	0	0	1	0	0	0	5379	652	23	1	993	1	FADS6	17	72889611	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	5987425	72889611	8305599	185	100145											
TNRC6C	57690	broad.mit.edu	37	chr17	76089149	76089149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccccatagctggtcacGtgccaaatctgacagtgata	10	11	9	11	1	2	2	1	2	1	0	3	2	3	2	3	1	2	2	3	1	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:76089149G>A	uc002jud.2	+	16	4706	c.4106G>A	c.(4105-4107)CGT>CAT	p.R1369H	TNRC6C_uc002juf.2_Missense_Mutation_p.R1366H	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2	1369					gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			AGCTGGTCACGTGCCAAATCT	0.502													9	39					0	0	0.047766	0	0		A	76089149	A	A	76089149	3	1	205	1	0	0	0	0	1	0	0	0	16367	1145	40	1	4156	1	TNRC6C	17	76089149	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	3199538	76089149	5106061	186	100146											
BAHCC1	57597	broad.mit.edu	37	chr17	79410252	79410252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccaggaactgcctgcgcCgccggacgaggtctcagcca	7	4	13	17	4	1	0	1	0	1	0	2	3	1	2	6	3	4	0	6	3	1	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr17:79410252C>T	uc002kaf.2	+	3	1877	c.1877C>T	c.(1876-1878)CCG>CTG	p.P626L	BAHCC1_uc002kae.2_5'Flank	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	626							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			CTGCCTGCGCCGCCGGACGAG	0.662													5	34					0	0	0.014758	0	0		T	79410252	T	T	79410252	3	4	205	1	0	0	0	0	1	0	0	0	1297	652	23	1	1726	1	BAHCC1	17	79410252	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	3321103	79410252	1784958	187	100147											
LAMA1	284217	broad.mit.edu	37	chr18	7036008	7036008	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taatgatgacgtcagcatgcGacatgaggttactgtctacc	11	11	10	9	2	2	3	1	3	1	0	2	4	2	3	1	1	4	2	1	1	3	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr18:7036008G>A	uc002knm.2	-	13	1911	c.1817C>T	c.(1816-1818)TCG>TTG	p.S606L	LAMA1_uc010wzj.1_Missense_Mutation_p.S82L	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	606	Laminin IV type A 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTCAGCATGCGACATGAGGTT	0.433													10	21					0	0	0.080935	0	0		A	7036008	A	A	7036008	3	1	205	1	0	0	0	0	1	0	0	0	8621	1059	37	1	7614	1	LAMA1	18	7036008	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		7036008	71041240	188	100148											
CDH2	1000	broad.mit.edu	37	chr18	25727656	25727656	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccattgagaagaggctgtccTtcatgcacatccttcgataa	11	11	8	11	1	1	2	1	1	0	2	4	4	3	2	3	1	1	2	3	1	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr18:25727656T>G	uc002kwg.2	-	2	612	c.153A>C	c.(151-153)GAA>GAC	p.E51D		NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	51					adherens junction organization|cell junction assembly|positive regulation of muscle cell differentiation	catenin complex|integral to membrane	alpha-catenin binding|beta-catenin binding|calcium ion binding|gamma-catenin binding			ovary(3)|lung(1)	4						GAGGCTGTCCTTCATGCACAT	0.398													11	31					0	0	0.080935	0	0		G	25727656	G	G	25727656	3	3	205	1	0	0	0	0	1	0	0	0	3108	1606	56	5	2627	5	CDH2	18	25727656	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	18691648	25727656	52349592	189	100149											
SMAD2	4087	broad.mit.edu	37	chr18	45395639	45395639	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtctcaactctctgatagtgGtaagggtttacacatacttc	10	14	8	9	0	2	1	1	1	2	0	5	1	2	1	0	2	3	2	0	2	5	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr18:45395639G>C	uc002lcy.2	-	4	743	c.495C>G	c.(493-495)TAC>TAG	p.Y165*	SMAD2_uc002lcz.2_Nonsense_Mutation_p.Y165*|SMAD2_uc010xdc.1_Nonsense_Mutation_p.Y135*|SMAD2_uc010xdd.1_Nonsense_Mutation_p.Y135*	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	165	MH1.				anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						TCTGATAGTGGTAAGGGTTTA	0.368													4	14					0	0	0.009096	0	0		C	45395639	C	C	45395639	4	2	205	1	0	0	0	0	0	1	0	0	14783	1256	44	5	940	5	SMAD2	18	45395639	Nonsense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	19667983	45395639	32681609	190	100150											
ZNF516	9658	broad.mit.edu	37	chr18	74154275	74154275	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcgcacgggaactcccCggggctcagctcgggcttgc	5	6	13	17	4	1	0	1	0	0	0	4	1	2	1	3	4	3	4	3	4	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr18:74154275C>T	uc010dqx.1	-	2	971	c.736G>A	c.(736-738)GGG>AGG	p.G246R	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	246					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		GGGAACTCCCCGGGGCTCAGC	0.687													3	10					0	0	0.115264	0	0		T	74154275	T	T	74154275	3	4	205	1	0	0	0	0	1	0	0	0	17985	652	23	1	2776	1	ZNF516	18	74154275	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	28758636	74154275	3922973	191	100151											
ZNF236	7776	broad.mit.edu	37	chr18	74622027	74622027	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttacatctcatcctcagatgGgtttgtggctccacaggacc	8	12	9	12	0	2	1	2	0	1	1	5	2	4	2	3	3	1	2	3	3	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr18:74622027G>T	uc002lmi.2	+	15	2747	c.2549G>T	c.(2548-2550)GGG>GTG	p.G850V	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	850					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		TCCTCAGATGGGTTTGTGGCT	0.498													10	49					2.80697e-09	3.19922e-09	0.080935	1	0		T	74622027	T	T	74622027	3	4	205	1	0	0	0	0	1	0	0	0	17814	1232	43	5	2607	5	ZNF236	18	74622027	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	467752	74622027	3455221	192	100152											
EMR1	2015	broad.mit.edu	37	chr19	6897451	6897451	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cttctcagatatcaatgagtGcctcaccagcagcgtctgcc	9	10	8	14	1	4	2	3	1	2	1	5	2	4	2	3	0	4	1	3	0	2	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:6897451G>A	uc002mfw.2	+	5	445	c.407G>A	c.(406-408)TGC>TAC	p.C136Y	EMR1_uc010dvc.2_Missense_Mutation_p.C136Y|EMR1_uc010dvb.2_Missense_Mutation_p.C84Y|EMR1_uc010xji.1_Intron|EMR1_uc010xjj.1_Missense_Mutation_p.C136Y	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	136	Extracellular (Potential).|EGF-like 3; calcium-binding (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					ATCAATGAGTGCCTCACCAGC	0.478													8	53					0	0	0.038147	0	0		A	6897451	A	A	6897451	3	1	205	1	0	0	0	0	1	0	0	0	5112	1319	46	2	425	2	EMR1	19	6897451	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		6897451	52231532	193	100153											
MAN2B1	4125	broad.mit.edu	37	chr19	12760024	12760024	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcacagtcagctgcatgtTtccatcctgggagttgaagg	9	10	12	10	0	1	1	1	1	0	0	3	2	3	2	2	2	3	5	2	2	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:12760024T>A	uc002mub.2	-	20	2438	c.2362A>T	c.(2362-2364)AAC>TAC	p.N788Y	MAN2B1_uc010dyv.1_Missense_Mutation_p.N787Y	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	788					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						AGCTGCATGTTTCCATCCTGG	0.582													8	35					0	0	0.058154	0	0		A	12760024	A	A	12760024	3	1	205	1	0	0	0	0	1	0	0	0	9234	1841	64	5	693	5	MAN2B1	19	12760024	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	5862573	12760024	46368959	194	100154											
RAD23A	5886	broad.mit.edu	37	chr19	13059627	13059627	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccgtggagtatctgctcacGgtgaggtggggcttccgcct	4	10	16	11	3	2	1	1	1	1	0	3	2	3	2	3	5	1	3	3	5	1	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:13059627G>A	uc002mvw.1	+	5	709	c.600G>A	c.(598-600)ACG>ACA	p.T200T	RAD23A_uc002mvx.1_Silent_p.T200T|RAD23A_uc002mvz.1_Silent_p.T200T|RAD23A_uc002mwa.1_Silent_p.T200T|RAD23A_uc002mvy.1_Silent_p.T35T|RAD23A_uc010xmw.1_Silent_p.T35T	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	200	UBA 1.				interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						ATCTGCTCACGGTGAGGTGGG	0.647								NER					40	76					0	0	0.104719	0	0		A	13059627	A	A	13059627	2	1	205	1	0	0	0	0	0	0	0	1	13007	1130	39	1		1	RAD23A	19	13059627	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	299603	13059627	46069356	195	100155											
OR10H2	26538	broad.mit.edu	37	chr19	15839276	15839276	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcatgagcccacggggctgCgcctgcctggtgggctgctc	3	8	15	15	2	1	1	1	1	0	0	2	1	1	1	3	4	4	3	3	4	0	0	rs147373947	byFrequency	TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:15839276C>T	uc002nbm.2	+	1	443	c.423C>T	c.(421-423)TGC>TGT	p.C141C		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	141	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					CACGGGGCTGCGCCTGCCTGG	0.632													21	38					0	0	0.055883	0	0		T	15839276	T	T	15839276	2	4	205	1	0	0	0	0	0	0	0	1	10925	776	27	1		1	OR10H2	19	15839276	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	2779649	15839276	43289707	196	100156											
ZNF253	56242	broad.mit.edu	37	chr19	20003046	20003046	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctctaaccttactatacaTaagagaattcatacaggaga	16	11	6	8	0	2	2	1	0	1	2	2	4	2	2	1	1	5	1	1	1	7	7			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:20003046T>C	uc002noj.2	+	4	1082	c.990T>C	c.(988-990)CAT>CAC	p.H330H	ZNF253_uc002nok.2_Silent_p.H254H|ZNF253_uc002nol.2_RNA	NM_021047	NP_066385	O75346	ZN253_HUMAN	zinc finger protein 253	330	C2H2-type 6.			Missing (in Ref. 1; AAC26844).	negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTACTATACATAAGAGAATTC	0.388													8	34					0	0	0.038147	0	0		C	20003046	C	C	20003046	2	2	205	1	0	0	0	0	0	0	0	1	17822	1403	49	3		3	ZNF253	19	20003046	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	4163770	20003046	39125937	197	100157											
ZNF737	100129842	broad.mit.edu	37	chr19	20728762	20728762	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctctggccaaagatctcGggcaaaatgagaacacgtaa	14	7	10	10	2	2	2	0	1	2	2	3	3	2	2	1	2	2	3	1	2	5	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:20728762G>A	uc002npa.2	-	4	427	c.247C>T	c.(247-249)CGA>TGA	p.R83*		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	83					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						CAAAGATCTCGGGCAAAATGA	0.328													7	42					0	0	0.038147	0	0		A	20728762	A	A	20728762	4	1	205	1	0	0	0	0	0	1	0	0	18151	1124	39	1	1367	1	ZNF737	19	20728762	Nonsense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	725716	20728762	38400221	198	100158											
ZNF431	170959	broad.mit.edu	37	chr19	21365865	21365865	+	Silent	SNP	T	A	A	0	1	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	cttactagacacaagagaatTcatactggagagaaaccctt	16	9	7	9	0	1	3	1	0	0	3	1	6	1	4	1	1	3	0	1	1	6	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:21365865T>A	uc002npp.2	+	5	906	c.759T>A	c.(757-759)ATT>ATA	p.I253I	ZNF431_uc010ecq.2_Silent_p.I162I|ZNF431_uc010ecr.2_Silent_p.I254I	NM_133473	NP_597730	Q8TF32	ZN431_HUMAN	zinc finger protein 431	253	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2						ACAAGAGAATTCATACTGGAG	0.363													6	59					0	0	0.021553	0	0		A	21365865	A	A	21365865	2	1	205	1	0	0	0	0	0	0	0	1	17930	1771	62	5		5	ZNF431	19	21365865	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	637103	21365865	37763118	199	100159											
ZNF99	7652	broad.mit.edu	37	chr19	22940707	22940707	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcttcagtatgaattacTttatgtctagtaaggtgtga	10	18	8	5	0	3	2	1	2	2	0	4	2	3	2	0	1	1	2	0	1	6	8			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:22940707T>G	uc010xrh.1	-	5	1731	c.1731A>C	c.(1729-1731)AAA>AAC	p.K577N		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				TATGAATTACTTTATGTCTAG	0.363													12	37					0	0	0.080935	0	0		G	22940707	G	G	22940707	3	3	205	1	0	0	0	0	1	0	0	0	18229	1606	56	5	1393	5	ZNF99	19	22940707	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	1574842	22940707	36188276	200	100160											
TSHZ3	57616	broad.mit.edu	37	chr19	31768677	31768677	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccatccttgcacccatcccgCggggggctggggctgttctc	3	9	13	16	2	1	0	0	0	1	0	4	0	3	0	4	5	1	4	4	5	0	2	rs151270303		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:31768677C>T	uc002nsy.3	-	2	2087	c.2022G>A	c.(2020-2022)CCG>CCA	p.P674P		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	674					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					ACCCATCCCGCGGGGGGCTGG	0.657													10	44					0	0	0.058154	0	0		T	31768677	T	T	31768677	2	4	205	1	0	0	0	0	0	0	0	1	16651	755	27	1		1	TSHZ3	19	31768677	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	8827970	31768677	27360306	201	100161											
ACTN4	81	broad.mit.edu	37	chr19	39215080	39215080	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctctgccaggtgcagcagCtggtgccaaaacgggaccat	9	7	12	13	1	1	0	0	0	1	0	2	1	2	1	4	3	6	3	4	3	2	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:39215080C>T	uc002oja.1	+	16	1944	c.1885C>T	c.(1885-1887)CTG>TTG	p.L629L	ACTN4_uc002ojb.1_5'Flank	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	629	Spectrin 3.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GGTGCAGCAGCTGGTGCCAAA	0.701													6	37					0	0	0.021553	0	0		T	39215080	T	T	39215080	2	4	205	1	0	0	0	0	0	0	0	1	207	796	28	2		2	ACTN4	19	39215080	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	7446403	39215080	19913903	202	100162											
RTN2	6253	broad.mit.edu	37	chr19	45998025	45998025	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggatgctctccaagctgtcGcccaggctgggctgagggtg	5	8	17	11	1	1	1	0	1	1	0	3	2	1	2	2	4	2	4	2	4	1	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:45998025G>T	uc002pcb.2	-	3	546	c.318C>A	c.(316-318)GGC>GGA	p.G106G	RTN2_uc002pcc.2_Silent_p.G106G|RTN2_uc002pcd.2_RNA	NM_005619	NP_005610	O75298	RTN2_HUMAN	reticulon 2 isoform A	106						integral to endoplasmic reticulum membrane	signal transducer activity			ovary(3)	3		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)		CCAAGCTGTCGCCCAGGCTGG	0.711													10	68					6.40141e-05	6.73697e-05	0.080935	1	0		T	45998025	T	T	45998025	2	4	205	1	0	0	0	0	0	0	0	1	13751	1074	38	5		5	RTN2	19	45998025	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	6782945	45998025	13130958	203	100163											
ZC3H4	23211	broad.mit.edu	37	chr19	47588354	47588354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttcgtcatcgttcattcCgcccttgttcatccctcctc	3	16	5	17	3	4	0	3	0	1	0	10	0	7	0	4	0	0	2	4	0	0	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:47588354C>T	uc002pga.3	-	8	1104	c.1066G>A	c.(1066-1068)GGA>AGA	p.G356R	ZC3H4_uc002pgb.1_Intron	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	356	Gly-rich.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		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)		TCGTTCATTCCGCCCTTGTTC	0.587													46	163					0	0	0.139131	0	0		T	47588354	T	T	47588354	3	4	205	1	0	0	0	0	1	0	0	0	17595	661	23	1	2877	1	ZC3H4	19	47588354	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1590329	47588354	11540629	204	100164											
KLK13	26085	broad.mit.edu	37	chr19	51559890	51559890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgctgggtttcatattttCggattgtttcacggatccac	6	16	10	9	2	2	0	2	0	0	0	4	2	3	2	1	3	1	4	1	3	1	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:51559890C>T	uc002pvn.2	-	5	831	c.788G>A	c.(787-789)CGA>CAA	p.R263Q	KLK13_uc002pvl.2_RNA|KLK13_uc002pvm.2_RNA|KLK13_uc002pvo.2_RNA|KLK13_uc002pvp.2_RNA|KLK13_uc010eon.2_Missense_Mutation_p.R190Q|KLK13_uc002pvq.2_RNA|KLK13_uc010eoo.2_Missense_Mutation_p.R111Q	NM_015596	NP_056411	Q9UKR3	KLK13_HUMAN	kallikrein 13 precursor	263	Peptidase S1.				proteolysis		protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00224)|GBM - Glioblastoma multiforme(134;0.00432)		TTCATATTTTCGGATTGTTTC	0.512													56	183					0	0	0.139131	0	0		T	51559890	T	T	51559890	3	4	205	1	0	0	0	0	1	0	0	0	8417	884	31	1	49	1	KLK13	19	51559890	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	3971536	51559890	7569093	205	100165											
ZNF347	84671	broad.mit.edu	37	chr19	53645344	53645344	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgcccctgtgtgagtaatAaagaagagataaaatctttg	14	13	9	5	0	1	3	0	1	1	2	1	4	1	3	2	0	1	1	2	0	6	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:53645344A>G	uc002qbb.1	-	5	806	c.737T>C	c.(736-738)TTA>TCA	p.L246S	ZNF347_uc010eql.1_Missense_Mutation_p.L247S|ZNF347_uc002qbc.1_Missense_Mutation_p.L247S	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	246					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		TGTGAGTAATAAAGAAGAGAT	0.358													24	102					0	0	0.069288	0	0		G	53645344	G	G	53645344	3	3	205	1	0	0	0	0	1	0	0	0	17886	372	13	3	1786	3	ZNF347	19	53645344	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	2085454	53645344	5483639	206	100166											
LENG9	94059	broad.mit.edu	37	chr19	54974143	54974143	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	agcggccttgtgctccctcgCttgggggcagcctgggcctc	2	9	15	15	2	0	0	0	0	0	0	3	0	1	0	4	4	3	3	4	4	0	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:54974143C>G	uc010yez.1	-	1	752	c.633G>C	c.(631-633)AAG>AAC	p.K211N		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	211					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		TGCTCCCTCGCTTGGGGGCAG	0.716													4	32					0	0	0.009096	0	0		G	54974143	G	G	54974143	3	3	205	1	0	0	0	0	1	0	0	0	8741	796	28	5	876	5	LENG9	19	54974143	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1328799	54974143	4154840	207	100167											
NLRP11	204801	broad.mit.edu	37	chr19	56307512	56307512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgttcatcccgtcgctcCtcagcggattgctggataag	7	12	11	11	3	2	0	2	0	0	0	5	2	4	2	2	2	2	4	2	2	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:56307512C>T	uc010ygf.1	-	8	2987	c.2276G>A	c.(2275-2277)AGG>AAG	p.R759K	NLRP11_uc002qlz.2_Missense_Mutation_p.R606K|NLRP11_uc002qmb.2_Missense_Mutation_p.R660K|NLRP11_uc002qmc.2_RNA|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	759	LRR 3.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		CCCGTCGCTCCTCAGCGGATT	0.493													52	162					0	0	0.139131	0	0		T	56307512	T	T	56307512	3	4	205	1	0	0	0	0	1	0	0	0	10492	681	24	4	845	4	NLRP11	19	56307512	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1333369	56307512	2821471	208	100168											
ZNF583	147949	broad.mit.edu	37	chr19	56935080	56935080	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcatacaggagagaaaccTtatgtgtgtaatgtgtgtgg	12	13	12	4	0	1	1	1	0	0	1	1	3	1	2	1	2	2	1	1	2	4	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:56935080T>C	uc010ygl.1	+	5	1218	c.1053T>C	c.(1051-1053)CCT>CCC	p.P351P	ZNF583_uc002qnc.2_Silent_p.P351P|ZNF583_uc010ygm.1_Silent_p.P351P	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	351				P -> R (in Ref. 3; AAB81088).	regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		GAGAGAAACCTTATGTGTGTA	0.403													26	71					0	0	0.099896	0	0		C	56935080	C	C	56935080	2	2	205	1	0	0	0	0	0	0	0	1	18040	1596	56	3		3	ZNF583	19	56935080	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	627568	56935080	2193903	209	100169											
PEG3	5178	broad.mit.edu	37	chr19	57335747	57335747	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agggatgatggtcaggtactGctcaaggaccaagagctcga	12	7	14	8	1	2	2	2	1	0	1	3	5	2	4	1	4	3	3	1	4	3	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:57335747G>T	uc002qnu.2	-	1	628	c.277C>A	c.(277-279)CAG>AAG	p.Q93K	ZIM2_uc010ygq.1_5'UTR|ZIM2_uc010ygr.1_5'UTR|ZIM2_uc002qnr.2_5'UTR|ZIM2_uc002qnq.2_5'UTR|ZIM2_uc010etp.2_5'UTR|ZIM2_uc010ygs.1_5'UTR|PEG3_uc002qnt.2_Missense_Mutation_p.Q93K|PEG3_uc002qnv.2_Missense_Mutation_p.Q93K|PEG3_uc002qnw.2_5'UTR|PEG3_uc002qnx.2_5'UTR|PEG3_uc010etr.2_Missense_Mutation_p.Q93K	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	93	SCAN box.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		GTCAGGTACTGCTCAAGGACC	0.542													33	85					9.65021e-13	1.11942e-12	0.045705	1	0		T	57335747	T	T	57335747	3	4	205	1	0	0	0	0	1	0	0	0	11739	1328	46	5		5	PEG3	19	57335747	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	400667	57335747	1793236	210	100170											
ZNF134	7693	broad.mit.edu	37	chr19	58132192	58132192	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaggccttatgaatgcagCgaatgtggaaaaaccttcag	15	8	11	7	1	1	1	1	1	0	0	1	4	1	2	2	2	3	1	2	2	6	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr19:58132192C>T	uc002qpn.2	+	3	804	c.705C>T	c.(703-705)AGC>AGT	p.S235S	ZNF134_uc002qpo.2_Silent_p.S62S|ZNF211_uc010yhb.1_5'UTR	NM_003435	NP_003426	P52741	ZN134_HUMAN	zinc finger protein 134	235	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0265)		ATGAATGCAGCGAATGTGGAA	0.443													13	40					0	0	0.105934	0	0		T	58132192	T	T	58132192	2	4	205	1	0	0	0	0	0	0	0	1	17749	767	27	1		1	ZNF134	19	58132192	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	796445	58132192	996791	211	100171											
VPS16	64601	broad.mit.edu	37	chr20	2847197	2847197	+	Missense_Mutation	SNP	A	G	G	1	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	ctgacaagattcaacgggccAgggcacaagcccagaagaag	15	3	12	11	1	1	4	1	1	0	3	1	4	1	4	2	2	2	1	2	2	5	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr20:2847197A>G	uc002whe.2	+	24	2545	c.2497A>G	c.(2497-2499)AGG>GGG	p.R833G	VPS16_uc002whh.2_Intron|PTPRA_uc002whj.2_Intron|VPS16_uc002whf.2_Missense_Mutation_p.R689G|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.R519G|VPS16_uc002whi.2_Missense_Mutation_p.R317G	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	833					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						TCAACGGGCCAGGGCACAAGC	0.582													28	92					0	0	0.134883	0	0		G	2847197	G	G	2847197	3	3	205	1	0	0	0	0	1	0	0	0	17219	179	7	3	2591	3	VPS16	20	2847197	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08		2847197	60178323	212	100172											
PLCB1	23236	broad.mit.edu	37	chr20	8665634	8665634	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtggagaagaaaacggagtCgtttcacctgagaaactgga	15	7	13	6	2	1	3	1	1	0	3	2	7	1	5	1	3	2	1	1	3	4	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr20:8665634C>T	uc002wnb.2	+	10	921	c.918C>T	c.(916-918)GTC>GTT	p.V306V	PLCB1_uc010zrb.1_Silent_p.V205V|PLCB1_uc002wna.2_Silent_p.V306V|PLCB1_uc002wnc.1_Silent_p.V205V	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	306					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						AAAACGGAGTCGTTTCACCTG	0.413													16	134					0	0	0.132662	0	0		T	8665634	T	T	8665634	2	4	205	1	0	0	0	0	0	0	0	1	12046	871	31	1		1	PLCB1	20	8665634	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	5818437	8665634	54359886	213	100173											
SEMG1	6406	broad.mit.edu	37	chr20	43837052	43837052	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagaaagatgtatcccaaCgcagtatttatagccaaact	15	10	7	9	1	0	2	0	0	0	2	1	2	1	2	2	0	4	4	2	0	7	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr20:43837052C>T	uc002xni.2	+	2	1171	c.1114C>T	c.(1114-1116)CGC>TGC	p.R372C	SEMG1_uc002xnj.2_Missense_Mutation_p.R312C|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Intron	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	372	58 AA repeat 2.				insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				TGTATCCCAACGCAGTATTTA	0.418													19	53					0	0	0.038395	0	0		T	43837052	T	T	43837052	3	4	205	1	0	0	0	0	1	0	0	0	14069	536	19	1	1120	1	SEMG1	20	43837052	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	35171418	43837052	19188468	214	100174											
TFAP2C	7022	broad.mit.edu	37	chr20	55206365	55206365	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccctctcccacactggagtCgccgaatatcagccgccacc	8	6	7	20	3	2	0	1	0	1	0	4	2	2	1	7	1	1	0	7	1	2	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr20:55206365C>T	uc002xya.2	+	2	396	c.153C>T	c.(151-153)GTC>GTT	p.V51V	TFAP2C_uc010zzi.1_5'UTR	NM_003222	NP_003213	Q92754	AP2C_HUMAN	transcription factor AP-2 gamma	51	Gln/Pro-rich (transactivation domain).				cell-cell signaling|male gonad development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1			Colorectal(105;0.229)			ACACTGGAGTCGCCGAATATC	0.687													9	67					0	0	0.069234	0	0		T	55206365	T	T	55206365	2	4	205	1	0	0	0	0	0	0	0	1	15814	871	31	1		1	TFAP2C	20	55206365	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	11369313	55206365	7819155	215	100175											
RIPK4	54101	broad.mit.edu	37	chr21	43161417	43161417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agtgctcgtgtgccccgtctCcgcggccacgtgcaggggtg	3	8	16	14	5	1	0	0	0	1	0	3	0	1	0	4	3	3	2	4	3	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr21:43161417C>T	uc002yzn.1	-	8	1984	c.1936G>A	c.(1936-1938)GAG>AAG	p.E646K		NM_020639	NP_065690	P57078	RIPK4_HUMAN	ankyrin repeat domain 3	646						cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	7						TGCCCCGTCTCCGCGGCCACG	0.692													17	51					0	0	0.043863	0	0		T	43161417	T	T	43161417	3	4	205	1	0	0	0	0	1	0	0	0	13408	864	30	4	422	4	RIPK4	21	43161417	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08		43161417	4968478	216	100176											
LARGE	9215	broad.mit.edu	37	chr22	34046630	34046630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgcctgggactccagcGgtgacagagacacgggcttt	7	9	15	10	2	0	2	0	1	0	1	1	4	1	3	2	3	2	1	2	3	0	1	rs143437080	byFrequency	TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr22:34046630G>A	uc003and.3	-	4	710	c.131C>T	c.(130-132)CCG>CTG	p.P44L	LARGE_uc003ane.3_Missense_Mutation_p.P44L|LARGE_uc010gwp.2_Missense_Mutation_p.P44L|LARGE_uc011ame.1_5'UTR|LARGE_uc011amf.1_Missense_Mutation_p.P44L	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	44	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				GGACTCCAGCGGTGACAGAGA	0.632													4	45					0	0	0.009096	0	0		A	34046630	A	A	34046630	3	1	205	1	0	0	0	0	1	0	0	0	8643	1116	39	1	2191	1	LARGE	22	34046630	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08		34046630	17257936	217	100177											
TEF	7008	broad.mit.edu	37	chr22	41791804	41791804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtggcagctaaacggtcacGggatgcccggcgcctgaaag	9	5	15	12	5	1	1	1	1	0	0	1	2	1	2	2	4	3	2	2	4	3	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr22:41791804G>A	uc003azy.2	+	4	838	c.752G>A	c.(751-753)CGG>CAG	p.R251Q	TEF_uc003azx.2_Missense_Mutation_p.R221Q|TEF_uc011apa.1_Missense_Mutation_p.R256Q	NM_003216	NP_003207	Q10587	TEF_HUMAN	thyrotrophic embryonic factor isoform 1	251	Basic motif.				rhythmic process	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AAACGGTCACGGGATGCCCGG	0.582													24	49					0	0	0.083992	0	0		A	41791804	A	A	41791804	3	1	205	1	0	0	0	0	1	0	0	0	15775	1116	39	1	837	1	TEF	22	41791804	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	7745174	41791804	9512762	218	100178											
PKDREJ	10343	broad.mit.edu	37	chr22	46653338	46653338	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaagtagatttctgctgaaGcttttctgtcaaaatcagca	13	13	7	8	0	4	2	2	1	2	1	4	2	4	2	0	0	3	4	0	0	5	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr22:46653338G>C	uc003bhh.2	-	1	5882	c.5882C>G	c.(5881-5883)GCT>GGT	p.A1961G		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1961	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TTCTGCTGAAGCTTTTCTGTC	0.388													7	41					0	0	0.02938	0	0		C	46653338	C	C	46653338	3	2	205	1	0	0	0	0	1	0	0	0	11989	971	34	5	883	5	PKDREJ	22	46653338	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	4861534	46653338	4651228	219	100179											
CELSR1	9620	broad.mit.edu	37	chr22	46929691	46929691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggggtcatgggccgggatgCagccgatcacgccggtgggg	5	5	20	11	5	2	0	2	0	0	0	2	2	2	1	3	7	2	1	3	7	0	0			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chr22:46929691C>T	uc003bhw.1	-	1	3377	c.3377G>A	c.(3376-3378)TGC>TAC	p.C1126Y		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1126	Extracellular (Potential).|Cadherin 9.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GGCCGGGATGCAGCCGATCAC	0.607													13	78					0	0	0.09319	0	0		T	46929691	T	T	46929691	3	4	205	1	0	0	0	0	1	0	0	0	3224	710	25	2	5807	2	CELSR1	22	46929691	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	276353	46929691	4374875	220	100180											
NLGN4X	57502	broad.mit.edu	37	chrX	5811502	5811502	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgttgaaacatactggaataTctcgttcaagttgtgcaaat	13	14	8	6	1	2	1	1	1	1	0	3	2	2	2	0	1	3	4	0	1	6	5			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:5811502T>C	uc010ndh.2	-	6	2308	c.1807A>G	c.(1807-1809)ATA>GTA	p.I603V	NLGN4X_uc004crp.2_Missense_Mutation_p.I623V|NLGN4X_uc004crq.2_Missense_Mutation_p.I603V|NLGN4X_uc010ndi.2_Missense_Mutation_p.I640V|NLGN4X_uc004crr.2_Missense_Mutation_p.I603V|NLGN4X_uc010ndj.2_Missense_Mutation_p.I603V	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	603	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TACTGGAATATCTCGTTCAAG	0.488													20	150					0	0	0.043863	0	0		C	5811502	C	C	5811502	3	2	205	1	0	0	0	0	1	0	0	0	10483	1435	50	3	647	3	NLGN4X	23	5811502	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08		5811502	149459058	221	100181											
MAP3K15	389840	broad.mit.edu	37	chrX	19431478	19431478	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatttttcctccttaccatTtctgtgggtgagacatgcca	7	16	8	10	0	1	2	0	2	1	1	3	3	3	2	4	1	2	0	4	1	1	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:19431478T>C	uc004czk.1	-	11	1659	c.22A>G	c.(22-24)AAT>GAT	p.N8D	MAP3K15_uc004czj.1_5'UTR	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	Error:Variant_position_missing_in_Q6ZN16_after_alignment							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					TCCTTACCATTTCTGTGGGTG	0.393													56	197					0	0	0.139131	0	0		C	19431478	C	C	19431478	3	2	205	1	0	0	0	0	1	0	0	0	9267	1838	64	3	2322	3	MAP3K15	23	19431478	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	13619976	19431478	135839082	222	100182											
MAGEB18	286514	broad.mit.edu	37	chrX	26157428	26157428	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaagaagatcctttaaacaAgaaagtagtgtcgctggtgc	15	9	11	6	1	0	3	0	0	0	3	2	4	1	3	1	1	2	2	1	1	7	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:26157428A>G	uc004dbq.1	+	2	513	c.326A>G	c.(325-327)AAG>AGG	p.K109R		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	109	MAGE.						protein binding			central_nervous_system(1)	1						CCTTTAAACAAGAAAGTAGTG	0.418													12	20					0	0	0.080935	0	0		G	26157428	G	G	26157428	3	3	205	1	0	0	0	0	1	0	0	0	9193	72	3	3	328	3	MAGEB18	23	26157428	Missense_Mutation	SNP	A	TCGA-HU-8604-01A-11D-2394-08	6725950	26157428	129113132	223	100183											
MAGEB6	158809	broad.mit.edu	37	chrX	26212528	26212528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaagccatcatttttaagCgcttaagcaaagatgctgta	15	11	8	7	1	1	2	1	0	0	2	1	2	1	2	1	0	4	4	1	0	5	5	rs142927857		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:26212528C>T	uc004dbr.2	+	2	714	c.565C>T	c.(565-567)CGC>TGC	p.R189C	MAGEB6_uc010ngc.1_5'UTR	NM_173523	NP_775794	Q8N7X4	MAGB6_HUMAN	melanoma antigen family B, 6	189										ovary(3)	3						CATTTTTAAGCGCTTAAGCAA	0.468													19	79					0	0	0.043863	0	0		T	26212528	T	T	26212528	3	4	205	1	0	0	0	0	1	0	0	0	9197	768	27	1	567	1	MAGEB6	23	26212528	Missense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	55100	26212528	129058032	224	100184											
DCAF8L1	139425	broad.mit.edu	37	chrX	27998645	27998645	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatatgatgcattaattagTtctgctacccgtacctgtcc	10	14	6	11	1	1	1	0	1	1	0	2	1	2	1	3	0	4	4	3	0	6	6			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:27998645T>C	uc004dbx.1	-	1	922	c.807A>G	c.(805-807)GAA>GAG	p.E269E		NM_001017930	NP_001017930	A6NGE4	DC8L1_HUMAN	DDB1 and CUL4 associated factor 8-like 1	269	WD 2.									ovary(3)|skin(1)	4						CATTAATTAGTTCTGCTACCC	0.493													18	78					0	0	0.038395	0	0		C	27998645	C	C	27998645	2	2	205	1	0	0	0	0	0	0	0	1	4280	1722	60	3		3	DCAF8L1	23	27998645	Silent	SNP	T	TCGA-HU-8604-01A-11D-2394-08	1786117	27998645	127271915	225	100185											
MAGEB2	4113	broad.mit.edu	37	chrX	30237209	30237209	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggccttgagctgaataaagTcaaccccaacggccacactt	12	8	8	13	1	1	2	1	2	0	0	1	2	1	2	4	2	3	1	4	2	5	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:30237209T>G	uc004dbz.2	+	2	615	c.512T>G	c.(511-513)GTC>GGC	p.V171G		NM_002364	NP_002355	O15479	MAGB2_HUMAN	melanoma antigen family B, 2	171	MAGE.						protein binding			ovary(1)	1						CTGAATAAAGTCAACCCCAAC	0.502													8	23					0	0	0.038147	0	0		G	30237209	G	G	30237209	3	3	205	1	0	0	0	0	1	0	0	0	9194	1667	58	5	514	5	MAGEB2	23	30237209	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	2238564	30237209	125033351	226	100186											
DMD	1756	broad.mit.edu	37	chrX	31893328	31893328	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgtcaaatggtccttcttGgtttggttggttataaattt	9	18	9	5	1	2	0	1	0	1	0	3	0	3	0	1	4	1	3	1	4	5	7			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:31893328G>T	uc004dda.1	-	48	7319	c.7075C>A	c.(7075-7077)CAA>AAA	p.Q2359K	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.Q1015K|DMD_uc004dcx.2_Missense_Mutation_p.Q1018K|DMD_uc004dcz.2_Missense_Mutation_p.Q2236K|DMD_uc004dcy.1_Missense_Mutation_p.Q2355K|DMD_uc004ddb.1_Missense_Mutation_p.Q2351K|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2359			Missing (in DMD).		muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				GGTCCTTCTTGGTTTGGTTGG	0.333													3	22					2.56e-06	2.77245e-06	0.009096	1	0		T	31893328	T	T	31893328	3	4	205	1	0	0	0	0	1	0	0	0	4586	1357	47	5	4258	5	DMD	23	31893328	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	1656119	31893328	123377232	227	100187											
MAGEB16	139604	broad.mit.edu	37	chrX	35820607	35820607	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagatagtccaagctcCtcagaggatacatcagaccc	14	6	10	11	0	2	3	2	0	0	3	4	6	4	5	3	2	2	1	3	2	4	2			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:35820607C>T	uc010ngt.1	+	2	573	c.294C>T	c.(292-294)TCC>TCT	p.S98S		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	98										lung(3)|ovary(2)|breast(1)|skin(1)	7						GTCCAAGCTCCTCAGAGGATA	0.478													11	28					0	0	0.069234	0	0		T	35820607	T	T	35820607	2	4	205	1	0	0	0	0	0	0	0	1	9192	668	24	4		4	MAGEB16	23	35820607	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	3927279	35820607	119449953	228	100188											
BCOR	54880	broad.mit.edu	37	chrX	39933151	39933151	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagatagtgtttctttcGgaatctcacttccggagagc	9	12	12	8	2	2	2	1	0	2	2	5	6	3	3	1	3	1	1	1	3	2	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:39933151G>A	uc004den.3	-	4	1740	c.1448C>T	c.(1447-1449)CCG>CTG	p.P483L	BCOR_uc004dep.3_Missense_Mutation_p.P483L|BCOR_uc004deo.3_Missense_Mutation_p.P483L|BCOR_uc004dem.3_Missense_Mutation_p.P483L|BCOR_uc004deq.3_Missense_Mutation_p.P483L	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	483					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TGTTTCTTTCGGAATCTCACT	0.517													15	47					0	0	0.11911	0	0		A	39933151	A	A	39933151	3	1	205	1	0	0	0	0	1	0	0	0	1387	1116	39	1	3867	1	BCOR	23	39933151	Missense_Mutation	SNP	G	TCGA-HU-8604-01A-11D-2394-08	4112544	39933151	115337409	229	100189											
CHST7	56548	broad.mit.edu	37	chrX	46433819	46433819	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacgccgagagcttgcagggCgcgctgcgcgacatgctgcg	6	5	17	13	7	0	1	0	0	0	1	0	4	0	1	1	1	5	4	1	1	0	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:46433819C>T	uc004dgt.2	+	1	628	c.453C>T	c.(451-453)GGC>GGT	p.G151G		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	151	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						GCTTGCAGGGCGCGCTGCGCG	0.507													18	69					0	0	0.0333	0	0		T	46433819	T	T	46433819	2	4	205	1	0	0	0	0	0	0	0	1	3412	755	27	1		1	CHST7	23	46433819	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	6500668	46433819	108836741	230	100190											
EBP	10682	broad.mit.edu	37	chrX	48386665	48386665	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tacttcctgacagagcaccgCgacggattccagcacggaga	11	6	11	13	4	0	3	0	1	0	2	2	6	2	4	3	2	3	2	3	2	1	3	rs147786080		TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:48386665C>T	uc004djx.3	+	5	718	c.513C>T	c.(511-513)CGC>CGT	p.R171R	EBP_uc004djy.3_Silent_p.R171R|EBP_uc004djz.2_Silent_p.R171R	NM_006579	NP_006570	Q15125	EBP_HUMAN	emopamil binding protein (sterol isomerase)	171					cholesterol biosynthetic process|skeletal system development	endoplasmic reticulum membrane|integral to plasma membrane	cholestenol delta-isomerase activity|drug transmembrane transporter activity|steroid delta-isomerase activity|transmembrane receptor activity			ovary(1)	1						CAGAGCACCGCGACGGATTCC	0.582													6	30					0	0	0.038147	0	0		T	48386665	T	T	48386665	2	4	205	1	0	0	0	0	0	0	0	1	4892	755	27	1		1	EBP	23	48386665	Silent	SNP	C	TCGA-HU-8604-01A-11D-2394-08	1952846	48386665	106883895	231	100191											
PRICKLE3	4007	broad.mit.edu	37	chrX	49032238	49032238	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggagggcgagctggagcaAgattccgagtctgaccctga	9	7	15	10	2	1	3	0	2	1	1	2	7	2	5	2	3	2	2	2	3	1	1			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:49032238A>C	uc004dmy.1	-	9	1658	c.1632T>G	c.(1630-1632)TCT>TCG	p.S544S	PRICKLE3_uc011mmv.1_Silent_p.S476S|PRICKLE3_uc011mmw.1_Silent_p.S463S|PRICKLE3_uc011mmx.1_Silent_p.S506S	NM_006150	NP_006141	O43900	PRIC3_HUMAN	LIM domain only 6	544	Poly-Ser.						protein binding|zinc ion binding			breast(1)	1						AGCTGGAGCAAGATTCCGAGT	0.502													14	142					0	0	0.11911	0	0		C	49032238	C	C	49032238	2	2	205	1	0	0	0	0	0	0	0	1	12510	59	3	5		5	PRICKLE3	23	49032238	Silent	SNP	A	TCGA-HU-8604-01A-11D-2394-08	645573	49032238	106238322	232	100192											
ITIH5L	347365	broad.mit.edu	37	chrX	54785377	54785377	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcccctcccaggctcctggTtgctatggttcagcactgaa	6	10	11	14	0	1	1	1	1	0	0	3	1	3	1	4	4	2	5	4	4	2	3			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:54785377T>G	uc004dtj.2	-	8	1160	c.1130A>C	c.(1129-1131)AAC>ACC	p.N377T		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	377	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						AGGCTCCTGGTTGCTATGGTT	0.577													3	13					0	0	0.115264	0	0		G	54785377	G	G	54785377	3	3	205	1	0	0	0	0	1	0	0	0	7924	1725	60	5	2835	5	ITIH5L	23	54785377	Missense_Mutation	SNP	T	TCGA-HU-8604-01A-11D-2394-08	5753139	54785377	100485183	233	100193											
OGT	8473	broad.mit.edu	37	chrX	70767789	70767789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagcaattgagacgcaaccGaactttgcagtagcttggag	14	8	11	8	2	0	1	0	1	0	1	0	4	0	2	1	1	5	5	1	1	5	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:70767789G>A	uc004eaa.1	+	5	781	c.564G>A	c.(562-564)CCG>CCA	p.P188P	BCYRN1_uc011mpt.1_Intron|OGT_uc004eab.1_Silent_p.P178P|OGT_uc004eac.2_Silent_p.P49P|OGT_uc004ead.2_5'UTR	NM_181672	NP_858058	O15294	OGT1_HUMAN	O-linked GlcNAc transferase isoform 1	188	TPR 4.				cellular response to retinoic acid|positive regulation of granulocyte differentiation|positive regulation of histone H3-K4 methylation|positive regulation of proteolysis|protein O-linked glycosylation|signal transduction	cytosol|MLL5-L complex	enzyme activator activity|protein binding|protein N-acetylglucosaminyltransferase activity			ovary(3)|kidney(1)|pancreas(1)	5	Renal(35;0.156)					AGACGCAACCGAACTTTGCAG	0.393													26	123					0	0	0.116897	0	0		A	70767789	A	A	70767789	2	1	205	1	0	0	0	0	0	0	0	1	10866	1045	37	1		1	OGT	23	70767789	Silent	SNP	G	TCGA-HU-8604-01A-11D-2394-08	15982412	70767789	84502771	234	100194											
IL1RAPL2	26280	broad.mit.edu	37	chrX	104478507	104478507	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctgttcctacagaaactCaacatattgcatgaaggtgt	12	13	7	9	0	2	2	1	1	1	1	4	2	3	2	1	1	4	2	1	1	5	4			TCGA-HU-8604-01A-11D-2394-08	TCGA-HU-8604-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2ffbf151-e573-440e-8950-6f3404f84402	212b32a6-4117-4619-b0b8-90d7c6bb1900	g.chrX:104478507C>A	uc004elz.1	+	4	1118	c.362C>A	c.(361-363)TCA>TAA	p.S121*		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	121	Ig-like C2-type 1.|Extracellular (Potential).				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						TACAGAAACTCAACATATTGC	0.373													11	162					3.86212e-05	4.08103e-05	0.069234	1	0		A	104478507	A	A	104478507	4	1	205	1	0	0	0	0	0	1	0	0	7678	838	29	5	372	5	IL1RAPL2	23	104478507	Nonsense_Mutation	SNP	C	TCGA-HU-8604-01A-11D-2394-08	33710718	104478507	50792053	235	100195											
FBXO44	93611	broad.mit.edu	37	chr1	11716012	11716012	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcctctggcgggacctCatcgacctcgtgaccctctg	5	9	11	16	3	3	1	1	1	2	0	5	3	3	2	4	2	2	1	4	2	0	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:11716012C>A	uc001asm.2	+	2	246	c.120C>A	c.(118-120)CTC>CTA	p.L40L	FBXO2_uc001asj.2_5'Flank|FBXO2_uc009vna.2_5'Flank|FBXO2_uc009vnb.1_5'Flank|FBXO44_uc001ask.2_Silent_p.L40L|FBXO44_uc010oaq.1_Silent_p.L40L|FBXO44_uc001asl.2_Silent_p.L40L|FBXO44_uc001asn.2_Silent_p.L40L|FBXO44_uc010oar.1_Silent_p.L40L|FBXO44_uc010oas.1_5'UTR	NM_033182	NP_149438	Q9H4M3	FBX44_HUMAN	F-box protein 44 isoform 1	40	F-box.				protein catabolic process	SCF ubiquitin ligase complex	protein binding			ovary(1)	1	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;5.41e-06)|COAD - Colon adenocarcinoma(227;0.000255)|BRCA - Breast invasive adenocarcinoma(304;0.0003)|Kidney(185;0.000758)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0649)		GGCGGGACCTCATCGACCTCG	0.632													15	96					6.72482e-11	7.2659e-11	1	1	0		A	11716012	A	A	11716012	2	1	206	1	0	0	0	0	0	0	0	1	5767	813	29	5		5	FBXO44	1	11716012	Silent	SNP	C	TCGA-HU-8610-01A-22D-2394-08		11716012	237534609	1	100196											
PRAMEF12	390999	broad.mit.edu	37	chr1	12836227	12836227	+	Missense_Mutation	SNP	T	A	A	0	1	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	agctttacatgcactctgtcTctttcctcgaaggccacctg	7	13	7	14	1	2	0	0	0	2	0	5	1	3	0	3	1	3	2	3	1	2	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:12836227T>A	uc001aui.2	+	2	856	c.829T>A	c.(829-831)TCT>ACT	p.S277T		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	277										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCACTCTGTCTCTTTCCTCGA	0.498													19	181					0	0	1	0	0		A	12836227	A	A	12836227	3	1	206	1	0	0	0	0	1	0	0	0	12450	1551	54	5	835	5	PRAMEF12	1	12836227	Missense_Mutation	SNP	T	TCGA-HU-8610-01A-22D-2394-08	1120215	12836227	236414394	2	100197											
YIPF1	54432	broad.mit.edu	37	chr1	54348919	54348919	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtggtggcatctgggtttGctgtcagagaagtggctgca	6	12	16	7	0	2	1	1	0	1	1	2	2	2	1	0	4	2	5	0	4	1	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:54348919G>T	uc001cvu.2	-	4	399	c.62C>A	c.(61-63)GCA>GAA	p.A21E	YIPF1_uc001cvv.2_RNA|YIPF1_uc001cvw.2_RNA|YIPF1_uc001cvx.2_RNA|YIPF1_uc001cvy.2_RNA	NM_018982	NP_061855	Q9Y548	YIPF1_HUMAN	Yip1 domain family, member 1	21	Cytoplasmic (Potential).					integral to membrane|transport vesicle				large_intestine(1)|ovary(1)	2						ATCTGGGTTTGCTGTCAGAGA	0.453													11	61					3.86212e-05	4.03377e-05	1	1	0		T	54348919	T	T	54348919	3	4	206	1	0	0	0	0	1	0	0	0	17503	1319	46	5	886	5	YIPF1	1	54348919	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	41512692	54348919	194901702	3	100198											
KCNA3	3738	broad.mit.edu	37	chr1	111217025	111217025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggtcgaagtacctcatgCgccgcttggggtcgcccagc	5	7	15	14	5	1	0	1	0	0	0	3	1	1	0	3	3	3	2	3	3	2	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:111217025C>T	uc001dzv.1	-	1	631	c.407G>A	c.(406-408)CGC>CAC	p.R136H		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	136						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTACCTCATGCGCCGCTTGGG	0.642													23	142					0	0	1	0	0		T	111217025	T	T	111217025	3	4	206	1	0	0	0	0	1	0	0	0	8020	768	27	1	1324	1	KCNA3	1	111217025	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	56868106	111217025	138033596	4	100199											
SPAG17	200162	broad.mit.edu	37	chr1	118616478	118616478	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatcacagtccataaataccTgaagcagtactttcggttta	14	12	6	9	1	1	1	1	1	0	0	3	1	2	1	2	1	3	3	2	1	7	6			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:118616478T>C	uc001ehk.2	-	17	2452	c.2384A>G	c.(2383-2385)CAG>CGG	p.Q795R		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	795						cilium|flagellar axoneme|microtubule				upper_aerodigestive_tract(2)|ovary(2)|large_intestine(1)|skin(1)	6	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)		CATAAATACCTGAAGCAGTAC	0.239													10	67					0	0	1	0	0		C	118616478	C	C	118616478	3	2	206	1	0	0	0	0	1	0	0	0	15004	1594	55	3	4415	3	SPAG17	1	118616478	Missense_Mutation	SNP	T	TCGA-HU-8610-01A-22D-2394-08	7399453	118616478	130634143	5	100200											
FLG	2312	broad.mit.edu	37	chr1	152282723	152282723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gccgtctcctgattgttcctCatttcttgtttgcctgcttg	2	19	8	12	1	3	1	1	1	2	0	5	1	4	1	4	0	2	3	4	0	0	6			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:152282723C>T	uc001ezu.1	-	3	4675	c.4639G>A	c.(4639-4641)GAG>AAG	p.E1547K		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1547	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GATTGTTCCTCATTTCTTGTT	0.587									Ichthyosis				61	459					0	0	1	0	0		T	152282723	T	T	152282723	3	4	206	1	0	0	0	0	1	0	0	0	5936	835	29	4	7550	4	FLG	1	152282723	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	33666245	152282723	96967898	6	100201											
PIK3C2B	5287	broad.mit.edu	37	chr1	204433201	204433201	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcacccacgtccacattccTcaggtcatcatgggtgtagc	8	10	9	14	1	4	0	4	0	0	0	6	0	6	0	3	2	1	1	3	2	1	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:204433201T>C	uc001haw.2	-	6	1728	c.1249A>G	c.(1249-1251)AGG>GGG	p.R417G	PIK3C2B_uc010pqv.1_Missense_Mutation_p.R417G|PIK3C2B_uc001hax.1_Missense_Mutation_p.R417G|PIK3C2B_uc009xbd.1_RNA	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	417					cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TCCACATTCCTCAGGTCATCA	0.547													18	169					0	0	1	0	0		C	204433201	C	C	204433201	3	2	206	1	0	0	0	0	1	0	0	0	11929	1550	54	3	3771	3	PIK3C2B	1	204433201	Missense_Mutation	SNP	T	TCGA-HU-8610-01A-22D-2394-08	52150478	204433201	44817420	7	100202											
OBSCN	84033	broad.mit.edu	37	chr1	228399516	228399516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagttcagcggggcgccccGctttctcacccggcccaagg	6	6	12	17	4	2	0	2	0	1	0	3	0	2	0	4	4	1	2	4	4	1	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr1:228399516G>A	uc009xez.1	+	2	76	c.32G>A	c.(31-33)CGC>CAC	p.R11H	OBSCN_uc001hsn.2_Missense_Mutation_p.R11H|uc001hsm.1_Intron	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	11	Ig-like 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGGCGCCCCGCTTTCTCACC	0.662													6	21					0	0	1	0	0		A	228399516	A	A	228399516	3	1	206	1	0	0	0	0	1	0	0	0	10831	1087	38	1	34	1	OBSCN	1	228399516	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	23966315	228399516	20851105	8	100203											
LTBP1	4052	broad.mit.edu	37	chr2	33246091	33246091	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atagctgcccaggacacctcGtcaccagtctttggagggca	9	8	11	13	1	2	0	1	0	1	0	3	2	2	2	3	3	2	2	3	3	1	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:33246091G>A	uc002ros.2	+	3	681	c.681G>A	c.(679-681)TCG>TCA	p.S227S		NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	227					negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				AGGACACCTCGTCACCAGTCT	0.552													36	292					0	0	1	0	0		A	33246091	A	A	33246091	2	1	206	1	0	0	0	0	0	0	0	1	9091	1132	40	1		1	LTBP1	2	33246091	Silent	SNP	G	TCGA-HU-8610-01A-22D-2394-08		33246091	209953282	9	100204											
EIF2AK2	5610	broad.mit.edu	37	chr2	37365428	37365428	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gataccataagcaacgaagaActgtttaaactgtcactgtt	15	11	7	8	1	1	1	1	0	0	1	1	3	1	1	1	0	5	3	1	0	7	5			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:37365428A>C	uc010ynh.1	-	8	1229	c.672T>G	c.(670-672)AGT>AGG	p.S224R	EIF2AK2_uc010fab.1_Missense_Mutation_p.S224R|EIF2AK2_uc010yng.1_Missense_Mutation_p.S224R|EIF2AK2_uc010fac.2_Missense_Mutation_p.S224R|EIF2AK2_uc010fad.2_Missense_Mutation_p.S224R	NM_002759	NP_002750	P19525	E2AK2_HUMAN	eukaryotic translation initiation factor 2-alpha	224					evasion by virus of host immune response|modulation by virus of host cellular process|negative regulation of osteoblast proliferation|protein autophosphorylation|response to virus|viral infectious cycle	cytosol	ATP binding|double-stranded RNA binding|eukaryotic translation initiation factor 2alpha kinase activity|protein binding|protein phosphatase type 2A regulator activity			ovary(2)|lung(2)|pancreas(1)	5		all_hematologic(82;0.248)				GCAACGAAGAACTGTTTAAAC	0.363													9	47					0	0	1	0	0		C	37365428	C	C	37365428	3	2	206	1	0	0	0	0	1	0	0	0	5003	40	2	5	1023	5	EIF2AK2	2	37365428	Missense_Mutation	SNP	A	TCGA-HU-8610-01A-22D-2394-08	4119337	37365428	205833945	10	100205											
GPR75	10936	broad.mit.edu	37	chr2	54080761	54080761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcagccctgcactgttcCgagaatatataaaagggttt	11	13	8	9	1	1	1	1	0	1	1	3	2	2	1	2	1	2	3	2	1	5	6			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:54080761C>T	uc002rxo.3	-	2	1404	c.1133G>A	c.(1132-1134)CGG>CAG	p.R378Q	ASB3_uc002rxi.3_Intron	NM_006794	NP_006785	O95800	GPR75_HUMAN	G protein-coupled receptor 75	378	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|skin(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TGCACTGTTCCGAGAATATAT	0.423													18	111					0	0	1	0	0		T	54080761	T	T	54080761	3	4	206	1	0	0	0	0	1	0	0	0	6723	652	23	1	493	1	GPR75	2	54080761	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	16715333	54080761	189118612	11	100206											
COBLL1	22837	broad.mit.edu	37	chr2	165584554	165584554	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	tgtcaagtcaagaggctcctGcgattgataatctttcaaca	12	12	8	9	1	4	2	3	1	1	1	5	3	5	2	1	1	2	1	1	1	4	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:165584554G>A	uc010zcw.1	-	6	869	c.745C>T	c.(745-747)CAG>TAG	p.Q249*	COBLL1_uc002ucp.2_Nonsense_Mutation_p.Q196*|COBLL1_uc002ucq.2_Nonsense_Mutation_p.Q196*|COBLL1_uc010zcx.1_Nonsense_Mutation_p.Q242*|COBLL1_uc002ucs.1_RNA	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	234										ovary(2)|pancreas(1)	3						AGAGGCTCCTGCGATTGATAA	0.378													12	61					0	0	1	0	0		A	165584554	A	A	165584554	4	1	206	1	0	0	0	0	0	1	0	0	3657	1328	46	2	2958	2	COBLL1	2	165584554	Nonsense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	111503793	165584554	77614819	12	100207											
TTN	7273	broad.mit.edu	37	chr2	179418418	179418418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcctctccttgtcttatctCgacaacatacccagtaacag	10	13	4	14	1	3	0	0	0	3	0	6	1	4	0	3	0	3	1	3	0	4	5			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:179418418C>T	uc010zfg.1	-	283	81834	c.81610G>A	c.(81610-81612)GAG>AAG	p.E27204K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E20899K|TTN_uc010zfi.1_Missense_Mutation_p.E20832K|TTN_uc010zfj.1_Missense_Mutation_p.E20707K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28131							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTCTTATCTCGACAACATAC	0.463													6	59					0	0	1	0	0		T	179418418	T	T	179418418	3	4	206	1	0	0	0	0	1	0	0	0	16761	893	31	1	18781	1	TTN	2	179418418	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	13833864	179418418	63780955	13	100208											
TTN	7273	broad.mit.edu	37	chr2	179659907	179659907	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccacggtggatgcctgagtCttacgcatgagcaatggaga	10	8	14	9	2	1	3	0	2	1	1	1	5	1	4	2	3	3	2	2	3	2	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:179659907C>G	uc010zfg.1	-	7	1211	c.987G>C	c.(985-987)AAG>AAC	p.K329N	TTN_uc010zfh.1_Missense_Mutation_p.K329N|TTN_uc010zfi.1_Missense_Mutation_p.K329N|TTN_uc010zfj.1_Missense_Mutation_p.K329N|TTN_uc002unb.2_Missense_Mutation_p.K329N|TTN_uc010frg.1_Missense_Mutation_p.K3N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	329							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGCCTGAGTCTTACGCATGA	0.547													22	70					0	0	1	0	0		G	179659907	G	G	179659907	3	3	206	1	0	0	0	0	1	0	0	0	16761	912	32	5	110425	5	TTN	2	179659907	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	241489	179659907	63539466	14	100209											
DYTN	391475	broad.mit.edu	37	chr2	207528029	207528029	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatctgcaaataatcccctcCctttggaaccttttcagttg	9	14	6	12	0	2	0	1	0	1	0	4	2	4	1	4	1	2	2	4	1	3	5			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:207528029C>A	uc002vbr.1	-	11	1348	c.1231G>T	c.(1231-1233)GGA>TGA	p.G411*		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	411						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		TAATCCCCTCCCTTTGGAACC	0.473													9	61					0.00621372	0.00621372	1	1	0		A	207528029	A	A	207528029	4	1	206	1	0	0	0	0	0	1	0	0	4867	632	22	5	513	5	DYTN	2	207528029	Nonsense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	27868122	207528029	35671344	15	100210											
SPEG	10290	broad.mit.edu	37	chr2	220353344	220353344	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgagtgctcggccaccaaCgtactgggcagcatcaccag	10	7	11	13	2	1	1	1	1	0	0	2	1	1	1	3	2	4	4	3	2	3	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:220353344C>T	uc010fwg.2	+	33	7983	c.7983C>T	c.(7981-7983)AAC>AAT	p.N2661N		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2661	Ig-like 9.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		CGGCCACCAACGTACTGGGCA	0.667													17	72					0	0	1	0	0		T	220353344	T	T	220353344	2	4	206	1	0	0	0	0	0	0	0	1	15061	535	19	1		1	SPEG	2	220353344	Silent	SNP	C	TCGA-HU-8610-01A-22D-2394-08	12825315	220353344	22846029	16	100211											
KIAA1486	57624	broad.mit.edu	37	chr2	226447619	226447619	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgccgcggtgaacacctacGgggcagccccgggtggctcc	6	4	15	16	5	0	1	0	1	0	0	1	1	1	1	5	5	3	2	5	5	2	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:226447619G>A	uc002voe.2	+	4	1661	c.1486G>A	c.(1486-1488)GGG>AGG	p.G496R	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.G266R	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	496										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GAACACCTACGGGGCAGCCCC	0.687													10	52					0	0	1	0	0		A	226447619	A	A	226447619	3	1	206	1	0	0	0	0	1	0	0	0	8253	1116	39	1	1496	1	KIAA1486	2	226447619	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	6094275	226447619	16751754	17	100212											
COL4A3	1285	broad.mit.edu	37	chr2	228124582	228124582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagggcccagaggagctcGtggcccacaaggtaagaata	13	4	13	11	1	0	2	0	0	0	2	1	3	0	3	3	4	1	2	3	4	4	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:228124582G>A	uc002vom.1	+	19	1265	c.1103G>A	c.(1102-1104)CGT>CAT	p.R368H	COL4A3_uc002von.1_Missense_Mutation_p.R368H|COL4A3_uc002voo.1_Missense_Mutation_p.R368H|COL4A3_uc002vop.1_Missense_Mutation_p.R368H|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	368	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		AGAGGAGCTCGTGGCCCACAA	0.418													16	109					0	0	1	0	0		A	228124582	A	A	228124582	3	1	206	1	0	0	0	0	1	0	0	0	3694	1145	40	1	1177	1	COL4A3	2	228124582	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	1676963	228124582	15074791	18	100213											
ARMC9	80210	broad.mit.edu	37	chr2	232100085	232100085	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctagaggccacagtcagCggcaagatggtaaggaagat	13	7	13	8	1	2	3	1	0	1	3	3	4	2	4	1	4	1	2	1	4	4	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr2:232100085C>T	uc002vrq.3	+	8	883	c.771C>T	c.(769-771)AGC>AGT	p.S257S	ARMC9_uc002vrp.3_Silent_p.S257S	NM_025139	NP_079415	Q7Z3E5	ARMC9_HUMAN	armadillo repeat containing 9	257							binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)		CCACAGTCAGCGGCAAGATGG	0.483													4	61					0	0	1	0	0		T	232100085	T	T	232100085	2	4	206	1	0	0	0	0	0	0	0	1	959	767	27	1		1	ARMC9	2	232100085	Silent	SNP	C	TCGA-HU-8610-01A-22D-2394-08	3975503	232100085	11099288	19	100214											
BSN	8927	broad.mit.edu	37	chr3	49680049	49680049	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggagaggccccggccaaaAgtgccaccgcagtgcccgct	9	3	13	16	3	0	1	0	0	0	1	0	2	0	1	6	3	2	2	6	3	2	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr3:49680049A>C	uc003cxe.3	+	3	1096	c.982A>C	c.(982-984)AGT>CGT	p.S328R		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	328					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		CCCGGCCAAAAGTGCCACCGC	0.672													4	44					0	0	1	0	0		C	49680049	C	C	49680049	3	2	206	1	0	0	0	0	1	0	0	0	1533	72	3	5	992	5	BSN	3	49680049	Missense_Mutation	SNP	A	TCGA-HU-8610-01A-22D-2394-08		49680049	148342381	20	100215											
ERC2	26059	broad.mit.edu	37	chr3	56207483	56207483	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagttcctaccttcatttcGatgacagtctggagagcctt	9	13	8	11	1	2	2	1	1	1	1	4	4	3	2	3	1	2	1	3	1	1	5			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr3:56207483G>A	uc003dhr.1	-	4	1396	c.1140C>T	c.(1138-1140)ATC>ATT	p.I380I		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	380	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		CCTTCATTTCGATGACAGTCT	0.468													11	41					0	0	1	0	0		A	56207483	A	A	56207483	2	1	206	1	0	0	0	0	0	0	0	1	5219	1048	37	1		1	ERC2	3	56207483	Silent	SNP	G	TCGA-HU-8610-01A-22D-2394-08	6527434	56207483	141814947	21	100216											
ANK2	287	broad.mit.edu	37	chr4	114264209	114264209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatctacgttgattgtttcGgcaacttggtaccattaact	9	15	7	10	2	1	1	0	1	1	0	2	1	1	1	2	2	4	4	2	2	4	7			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr4:114264209G>A	uc003ibe.3	+	34	4259	c.4159G>A	c.(4159-4161)GGC>AGC	p.G1387S	ANK2_uc003ibd.3_Missense_Mutation_p.G1378S|ANK2_uc003ibf.3_Missense_Mutation_p.G1387S|ANK2_uc011cgc.1_Missense_Mutation_p.G563S|ANK2_uc003ibg.3_Missense_Mutation_p.G382S|ANK2_uc003ibh.3_Missense_Mutation_p.G61S|ANK2_uc011cgb.1_Missense_Mutation_p.G1402S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1354					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TGATTGTTTCGGCAACTTGGT	0.338													12	58					0	0	1	0	0		A	114264209	A	A	114264209	3	1	206	1	0	0	0	0	1	0	0	0	621	1116	39	1	4358	1	ANK2	4	114264209	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08		114264209	76890067	22	100217											
PCDHA7	56141	broad.mit.edu	37	chr5	140215213	140215213	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggacagcgctctggaccgCgagagtgtgtccgcctatga	7	8	14	12	4	1	2	0	1	1	1	2	5	2	4	3	2	1	1	3	2	1	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr5:140215213C>T	uc003lhq.2	+	1	1245	c.1245C>T	c.(1243-1245)CGC>CGT	p.R415R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.R415R	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	415	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTGGACCGCGAGAGTGTGT	0.617													38	206					0	0	1	0	0		T	140215213	T	T	140215213	2	4	206	1	0	0	0	0	0	0	0	1	11548	755	27	1		1	PCDHA7	5	140215213	Silent	SNP	C	TCGA-HU-8610-01A-22D-2394-08		140215213	40700047	23	100218											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769318	140769318	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctggggctgcgcacgggcGaagtgcgcacagcgcgtgcc	5	4	18	14	6	0	0	0	0	0	0	0	1	0	0	2	3	4	3	2	3	1	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr5:140769318G>A	uc003lkc.1	+	1	1867	c.1867G>A	c.(1867-1869)GAA>AAA	p.E623K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.E623K	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	623	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGCACGGGCGAAGTGCGCAC	0.697													10	68					0	0	1	0	0		A	140769318	A	A	140769318	3	1	206	1	0	0	0	0	1	0	0	0	11584	1059	37	1	1869	1	PCDHGB4	5	140769318	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	554105	140769318	40145942	24	100219											
GRIA1	2890	broad.mit.edu	37	chr5	153077664	153077664	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaccgatgcccaagctgggGgcgataattcaagtgttcag	10	8	12	11	2	2	0	2	0	0	0	2	2	2	0	3	2	2	2	3	2	3	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr5:153077664G>A	uc003lva.3	+	9	1560	c.1195G>A	c.(1195-1197)GGC>AGC	p.G399S	GRIA1_uc003luy.3_Missense_Mutation_p.G399S|GRIA1_uc003luz.3_Missense_Mutation_p.G304S|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.G319S|GRIA1_uc011dcx.1_Missense_Mutation_p.G330S|GRIA1_uc011dcy.1_Missense_Mutation_p.G409S|GRIA1_uc011dcz.1_Missense_Mutation_p.G409S|GRIA1_uc010jia.1_Missense_Mutation_p.G379S	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	399	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	CCAAGCTGGGGGCGATAATTC	0.478													8	53					0	0	1	0	0		A	153077664	A	A	153077664	3	1	206	1	0	0	0	0	1	0	0	0	6783	1232	43	4	1229	4	GRIA1	5	153077664	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	12308346	153077664	27837596	25	100220											
DOCK2	1794	broad.mit.edu	37	chr5	169435708	169435708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctaggtatggggacatgagaCggctaattggcttctccatc	9	11	12	9	1	1	1	0	1	1	1	3	3	1	2	1	5	0	3	1	5	3	5			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr5:169435708C>T	uc003maf.2	+	32	3270	c.3190C>T	c.(3190-3192)CGG>TGG	p.R1064W	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Missense_Mutation_p.R556W	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	1064	Interaction with CRKL.				actin cytoskeleton organization|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|endomembrane system|membrane	electron carrier activity|GTP binding|GTPase binding|heme binding|Rac guanyl-nucleotide exchange factor activity|T cell receptor binding			ovary(5)|pancreas(2)	7	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGACATGAGACGGCTAATTGG	0.483													18	89					0	0	1	0	0		T	169435708	T	T	169435708	3	4	206	1	0	0	0	0	1	0	0	0	4693	527	19	1	3316	1	DOCK2	5	169435708	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	16358044	169435708	11479552	26	100221											
ABCC10	89845	broad.mit.edu	37	chr6	43406375	43406375	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tctgcaggctgcgtgggcatGtggcagtgcgggggctgtcc	3	9	19	10	2	1	0	0	0	1	0	2	0	2	0	1	5	3	5	1	5	0	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr6:43406375G>A	uc003ouy.1	+	8	2184	c.1969G>A	c.(1969-1971)GTG>ATG	p.V657M	ABCC10_uc003ouz.1_Missense_Mutation_p.V629M|ABCC10_uc010jyo.1_Translation_Start_Site	NM_033450	NP_258261	Q5T3U5	MRP7_HUMAN	ATP-binding cassette, sub-family C, member 10	657	ABC transporter 1.					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(6)|central_nervous_system(1)	7	all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0152)|OV - Ovarian serous cystadenocarcinoma(102;0.0804)			GCGTGGGCATGTGGCAGTGCG	0.612													12	87					0	0	1	0	0		A	43406375	A	A	43406375	3	1	206	1	0	0	0	0	1	0	0	0	50	1377	48	4	1907	4	ABCC10	6	43406375	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08		43406375	127708692	27	100222											
STYXL1	51657	broad.mit.edu	37	chr7	75643121	75643121	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgtgcctgagaagcgctcaTagccccctttcaggatgtag	9	9	11	12	2	2	1	2	1	0	1	2	3	2	2	3	1	3	2	3	1	3	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr7:75643121T>C	uc003uej.3	-	5	565	c.392A>G	c.(391-393)TAT>TGT	p.Y131C	STYXL1_uc011kgf.1_Intron|STYXL1_uc011kgg.1_5'UTR|STYXL1_uc003ueh.2_Intron|STYXL1_uc003uek.3_Intron|STYXL1_uc003uel.2_Missense_Mutation_p.Y131C|STYXL1_uc003uem.2_Missense_Mutation_p.Y131C|STYXL1_uc010ldg.1_Intron|STYXL1_uc010ldh.1_Missense_Mutation_p.Y131C|STYXL1_uc003uen.1_Missense_Mutation_p.Y131C	NM_016086	NP_057170	Q9Y6J8	STYL1_HUMAN	map kinase phosphatase-like protein MK-STYX	131	Rhodanese.				intracellular signal transduction|protein dephosphorylation	intracellular	protein binding|protein tyrosine/serine/threonine phosphatase activity				0						GAAGCGCTCATAGCCCCCTTT	0.582													61	272					0	0	1	0	0		C	75643121	C	C	75643121	3	2	206	1	0	0	0	0	1	0	0	0	15386	1406	49	3	569	3	STYXL1	7	75643121	Missense_Mutation	SNP	T	TCGA-HU-8610-01A-22D-2394-08		75643121	83495542	28	100223											
LRRN3	54674	broad.mit.edu	37	chr7	110764041	110764041	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acccacctgaattccaaggtCagaatgttcggcaagtgcat	12	9	9	11	1	1	2	1	1	0	1	3	2	2	2	3	2	1	3	3	2	4	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr7:110764041C>T	uc003vft.3	+	4	2259	c.1213C>T	c.(1213-1215)CAG>TAG	p.Q405*	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Nonsense_Mutation_p.Q405*|LRRN3_uc003vfs.3_Nonsense_Mutation_p.Q405*	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	405	Extracellular (Potential).|LRRCT.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		ATTCCAAGGTCAGAATGTTCG	0.448													12	62					0	0	1	0	0		T	110764041	T	T	110764041	4	4	206	1	0	0	0	0	0	1	0	0	9054	827	29	4	1215	4	LRRN3	7	110764041	Nonsense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	35120920	110764041	48374622	29	100224											
SLC13A1	6561	broad.mit.edu	37	chr7	122765622	122765622	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaattataaatgatactcaaCcaatttctcctgtaggtgta	14	14	6	7	0	2	1	1	1	1	0	3	2	2	1	2	1	2	2	2	1	9	6			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr7:122765622C>A	uc003vkm.2	-	11	1265	c.1240_splice	c.e11+1	p.V414_splice	SLC13A1_uc010lks.2_Splice_Site_p.V290_splice	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate							integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	TGATACTCAACCAATTTCTCC	0.358													5	59					0.000602214	0.000615306	1	1	0		A	122765622	A	A	122765622	5	1	206	1	0	0	0	0	0	0	1	0	14416	521	18	5	566	5	SLC13A1	7	122765622	Splice_Site	SNP	C	TCGA-HU-8610-01A-22D-2394-08	12001581	122765622	36373041	30	100225											
BLK	640	broad.mit.edu	37	chr8	11400775	11400775	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccggacaaggaaaagccGatcaaagagaaggacaaggg	19	1	14	7	2	1	1	1	0	0	1	1	6	1	4	2	4	2	0	2	4	7	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr8:11400775G>A	uc003wty.2	+	2	623	c.42G>A	c.(40-42)CCG>CCA	p.P14P	BLK_uc003wtz.2_Intron	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase	14					intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		AGGAAAAGCCGATCAAAGAGA	0.607													13	69					0	0	1	0	0		A	11400775	A	A	11400775	2	1	206	1	0	0	0	0	0	0	0	1	1445	1045	37	1		1	BLK	8	11400775	Silent	SNP	G	TCGA-HU-8610-01A-22D-2394-08		11400775	134963247	31	100226											
PXDNL	137902	broad.mit.edu	37	chr8	52322023	52322023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacttcgcatggaaacaccGgttggagcagtttggcagag	10	9	14	8	2	0	1	0	0	0	1	1	3	0	3	1	4	3	6	1	4	2	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr8:52322023G>A	uc003xqu.3	-	17	2262	c.2161C>T	c.(2161-2163)CGG>TGG	p.R721W	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	721					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				TGGAAACACCGGTTGGAGCAG	0.632													10	48					0	0	1	0	0		A	52322023	A	A	52322023	3	1	206	1	0	0	0	0	1	0	0	0	12873	1115	39	1	2258	1	PXDNL	8	52322023	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	40921248	52322023	94041999	32	100227											
RGS20	8601	broad.mit.edu	37	chr8	54871000	54871000	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcttcagtccttatcggaGaaatctattgaagcatagga	12	13	9	7	1	2	2	1	1	1	1	4	4	3	3	1	2	2	2	1	2	5	6			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr8:54871000G>T	uc003xrp.2	+	6	1241	c.1149G>T	c.(1147-1149)GAG>GAT	p.E383D	RGS20_uc003xrq.2_Missense_Mutation_p.E268D|RGS20_uc010lye.2_Missense_Mutation_p.E175D|RGS20_uc010lyf.2_Missense_Mutation_p.E147D|RGS20_uc003xrs.2_Missense_Mutation_p.E236D|RGS20_uc003xrt.2_Missense_Mutation_p.E117D	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	383					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			CCTTATCGGAGAAATCTATTG	0.343													5	17					1.23904e-05	1.30865e-05	1	1	0		T	54871000	T	T	54871000	3	4	206	1	0	0	0	0	1	0	0	0	13328	933	33	5	1244	5	RGS20	8	54871000	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	2548977	54871000	91493022	33	100228											
TG	7038	broad.mit.edu	37	chr8	133925324	133925324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggcaaggatctccttgggCgcttcacagatctgatccag	8	10	12	11	1	3	2	1	1	2	1	5	3	4	3	2	3	0	2	2	3	1	2	rs140482581	byFrequency	TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr8:133925324C>T	uc003ytw.2	+	20	4233	c.4192C>T	c.(4192-4194)CGC>TGC	p.R1398C	TG_uc010mdw.2_Missense_Mutation_p.R157C	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1398					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCTCCTTGGGCGCTTCACAGA	0.552													14	59					0	0	1	0	0		T	133925324	T	T	133925324	3	4	206	1	0	0	0	0	1	0	0	0	15838	768	27	1	4270	1	TG	8	133925324	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	79054324	133925324	12438698	34	100229											
CER1	9350	broad.mit.edu	37	chr9	14720143	14720143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agccagcatgtaggatgtgtCcatcttcatgctccgtcttc	7	13	9	12	1	3	0	1	0	2	0	6	1	5	1	3	1	3	3	3	1	1	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr9:14720143C>T	uc003zlj.2	-	2	794	c.749G>A	c.(748-750)GGA>GAA	p.G250E		NM_005454	NP_005445	O95813	CER1_HUMAN	cerberus 1 precursor	250					BMP signaling pathway	extracellular space	cytokine activity				0				GBM - Glioblastoma multiforme(50;3.16e-06)		TAGGATGTGTCCATCTTCATG	0.493													20	84					0	0	1	0	0		T	14720143	T	T	14720143	3	4	206	1	0	0	0	0	1	0	0	0	3268	855	30	4	58	4	CER1	9	14720143	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08		14720143	126493288	35	100230											
TRIM32	22954	broad.mit.edu	37	chr9	119461675	119461675	+	Missense_Mutation	SNP	A	T	T	1	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	acctggagggtggcttttccAttggctctgtaggccctgat	5	13	13	10	0	1	1	0	1	1	0	2	2	2	2	3	5	0	3	3	5	1	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr9:119461675A>T	uc004bjx.2	+	2	1812	c.1654A>T	c.(1654-1656)ATT>TTT	p.I552F	ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjs.1_Intron|ASTN2_uc004bjt.1_Intron|TRIM32_uc004bjw.2_Missense_Mutation_p.I552F	NM_001099679	NP_001093149	Q13049	TRI32_HUMAN	tripartite motif-containing 32	552					fat cell differentiation|innate immune response|negative regulation of apoptosis|negative regulation of fibroblast proliferation|positive regulation of cell cycle|positive regulation of cell growth|positive regulation of cell migration|positive regulation of neurogenesis|positive regulation of neuron differentiation|positive regulation of NF-kappaB transcription factor activity|positive regulation of protein catabolic process|positive regulation of proteolysis|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to tumor necrosis factor|response to UV	nucleus	myosin binding|protein self-association|RNA binding|Tat protein binding|transcription coactivator activity|translation initiation factor binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(2)|kidney(1)	3						TGGCTTTTCCATTGGCTCTGT	0.562									Bardet-Biedl_syndrome				5	61					0	0	1	0	0		T	119461675	T	T	119461675	3	4	206	1	0	0	0	0	1	0	0	0	16532	217	8	5	1656	5	TRIM32	9	119461675	Missense_Mutation	SNP	A	TCGA-HU-8610-01A-22D-2394-08	104741532	119461675	21751756	36	100231											
CACNA1B	774	broad.mit.edu	37	chr9	140773594	140773594	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctgatggggacaaaacgCccatgtccgagcggctggtg	8	7	14	12	3	0	1	0	1	0	0	2	3	2	2	3	4	2	1	3	4	2	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr9:140773594C>T	uc004cog.2	+	2	518	c.373C>T	c.(373-375)CCC>TCC	p.P125S	uc004cof.1_Intron	NM_000718	NP_000709	Q00975	CAC1B_HUMAN	calcium channel, voltage-dependent, N type,	125	I.|Extracellular (Potential).				membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	ATP binding|protein C-terminus binding|voltage-gated calcium channel activity			breast(3)|large_intestine(2)|ovary(1)	6	all_cancers(76;0.166)			OV - Ovarian serous cystadenocarcinoma(145;1.16e-05)|Epithelial(140;0.000476)	Amlodipine(DB00381)|Gabapentin(DB00996)	GGACAAAACGCCCATGTCCGA	0.612													9	44					0	0	1	0	0		T	140773594	T	T	140773594	3	4	206	1	0	0	0	0	1	0	0	0	2542	739	26	2	379	2	CACNA1B	9	140773594	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	21311919	140773594	439837	37	100232											
NSUN6	221078	broad.mit.edu	37	chr10	18835004	18835004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacagccgatggatcaaatCgctgcagctgtttcaactgt	10	10	10	11	2	2	0	2	0	0	0	3	2	2	1	1	1	4	5	1	1	2	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr10:18835004C>T	uc010qcp.1	-	11	1686	c.1268G>A	c.(1267-1269)CGA>CAA	p.R423Q	NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	423							methyltransferase activity|RNA binding			ovary(2)	2						TGGATCAAATCGCTGCAGCTG	0.488													29	249					0	0	1	0	0		T	18835004	T	T	18835004	3	4	206	1	0	0	0	0	1	0	0	0	10701	884	31	1	145	1	NSUN6	10	18835004	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08		18835004	116699743	38	100233											
ZNF488	118738	broad.mit.edu	37	chr10	48371149	48371149	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agacctcgcttgttggggtcGactttcaactcccaagcttt	7	13	9	12	2	1	1	1	0	0	1	4	2	2	1	2	2	2	3	2	2	2	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr10:48371149G>A	uc001jex.2	+	2	779	c.617G>A	c.(616-618)CGA>CAA	p.R206Q	ZNF488_uc001jey.2_Missense_Mutation_p.R99Q	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	206					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TGTTGGGGTCGACTTTCAACT	0.537													14	132					0	0	1	0	0		A	48371149	A	A	48371149	3	1	206	1	0	0	0	0	1	0	0	0	17965	1058	37	1	619	1	ZNF488	10	48371149	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	29536145	48371149	87163598	39	100234											
CDH23	64072	broad.mit.edu	37	chr10	73270759	73270759	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtcagcgaccaccaggggGtgagtgttccctggggccct	5	8	15	13	1	1	1	1	1	0	0	2	2	2	1	4	4	1	1	4	4	0	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr10:73270759G>A	uc001jrx.3	+	5	713	c.336_splice	c.e5+1	p.G112_splice	CDH23_uc001jrw.3_Splice_Site_p.G112_splice|CDH23_uc001jrv.2_Splice_Site_p.G107_splice|CDH23_uc009xql.2_Splice_Site_p.G157_splice	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor						calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCACCAGGGGGTGAGTGTTCC	0.602													14	104					0	0	1	0	0		A	73270759	A	A	73270759	5	1	206	1	0	0	0	0	0	0	1	0	3111	1275	44	4	351	4	CDH23	10	73270759	Splice_Site	SNP	G	TCGA-HU-8610-01A-22D-2394-08	24899610	73270759	62263988	40	100235											
ZNF511	118472	broad.mit.edu	37	chr10	135123307	135123307	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtttgcctgccaggtggcCggctgctgccaggtgttcga	3	10	16	12	3	0	0	0	0	0	0	1	1	0	0	4	4	4	4	4	4	0	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr10:135123307C>G	uc001lml.1	+	3	280	c.255C>G	c.(253-255)GCC>GCG	p.A85A	TUBGCP2_uc001lmg.1_5'Flank|TUBGCP2_uc010qvc.1_5'Flank|TUBGCP2_uc009ybk.1_5'Flank|TUBGCP2_uc010qvd.1_5'Flank|TUBGCP2_uc001lmh.1_Intron|ZNF511_uc001lmj.1_Silent_p.A85A|ZNF511_uc001lmk.1_Silent_p.A85A|ZNF511_uc001lmm.1_RNA			Q8NB15	ZN511_HUMAN	SubName: Full=cDNA FLJ78327; SubName: Full=Zinc finger protein 511, isoform CRA_d;	85	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		all cancers(32;7.56e-06)|OV - Ovarian serous cystadenocarcinoma(35;8.15e-06)|Epithelial(32;9.99e-06)		GCCAGGTGGCCGGCTGCTGCC	0.617													12	107					0	0	1	0	0		G	135123307	G	G	135123307	2	3	206	1	0	0	0	0	0	0	0	1	17980	639	23	5		5	ZNF511	10	135123307	Silent	SNP	C	TCGA-HU-8610-01A-22D-2394-08	61852548	135123307	411440	41	100236											
PRB3	5544	broad.mit.edu	37	chr12	11420535	11420535	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccggacgaggtgggggaccTtgggactggtttcctccttg	4	10	16	11	2	0	0	0	0	0	0	2	4	2	3	4	6	0	1	4	6	0	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr12:11420535T>G	uc001qzs.2	-	3	686	c.648A>C	c.(646-648)CAA>CAC	p.Q216H	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	216	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.|8.|Pro-rich.		Missing (in allele S).			extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			GTGGGGGACCTTGGGACTGGT	0.622													21	300					0	0	1	0	0		G	11420535	G	G	11420535	3	3	206	1	0	0	0	0	1	0	0	0	12466	1606	56	5	289	5	PRB3	12	11420535	Missense_Mutation	SNP	T	TCGA-HU-8610-01A-22D-2394-08		11420535	122431360	42	100237											
NAV3	89795	broad.mit.edu	37	chr12	78444643	78444643	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccccatgacctggaggttGggccaggcatgtccgcgact	7	7	13	14	2	0	1	0	1	0	0	1	3	1	2	5	4	0	2	5	4	0	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr12:78444643G>T	uc001syp.2	+	11	2405	c.2232G>T	c.(2230-2232)TTG>TTT	p.L744F	NAV3_uc001syo.2_Missense_Mutation_p.L744F|NAV3_uc010sub.1_Missense_Mutation_p.L244F	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	744						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CCTGGAGGTTGGGCCAGGCAT	0.572										HNSCC(70;0.22)			8	72					0.00621372	0.00621372	1	1	0		T	78444643	T	T	78444643	3	4	206	1	0	0	0	0	1	0	0	0	10203	1339	47	5	2274	5	NAV3	12	78444643	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	67024108	78444643	55407252	43	100238											
SOS2	6655	broad.mit.edu	37	chr14	50666457	50666457	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgctgagatatttcataAtgccggatattaaaaacata	15	13	6	7	1	1	1	1	1	0	1	2	3	2	2	2	1	3	1	2	1	7	6			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr14:50666457A>T	uc001wxs.3	-	4	560	c.462T>A	c.(460-462)CAT>CAA	p.H154Q	SOS2_uc010tql.1_Missense_Mutation_p.H154Q	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	154					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					ATATTTCATAATGCCGGATAT	0.318													6	54					0	0	1	0	0		T	50666457	T	T	50666457	3	4	206	1	0	0	0	0	1	0	0	0	14962	98	4	5	3616	5	SOS2	14	50666457	Missense_Mutation	SNP	A	TCGA-HU-8610-01A-22D-2394-08		50666457	56683083	44	100239											
PTGDR	5729	broad.mit.edu	37	chr14	52734889	52734889	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccttctttgggctctcctcGacactgcaactcctggccat	5	13	7	16	1	2	0	0	0	2	0	6	1	4	0	4	2	2	2	4	2	1	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr14:52734889G>A	uc001wzq.2	+	1	459	c.357G>A	c.(355-357)TCG>TCA	p.S119S		NM_000953	NP_000944	Q13258	PD2R_HUMAN	prostaglandin D2 receptor	119	Helical; Name=3; (Potential).					integral to membrane|plasma membrane	prostaglandin D receptor activity|protein binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4	Breast(41;0.0639)|all_epithelial(31;0.0887)				Nedocromil(DB00716)	GGCTCTCCTCGACACTGCAAC	0.617													22	214					0	0	1	0	0		A	52734889	A	A	52734889	2	1	206	1	0	0	0	0	0	0	0	1	12763	1045	37	1		1	PTGDR	14	52734889	Silent	SNP	G	TCGA-HU-8610-01A-22D-2394-08	2068432	52734889	54614651	45	100240											
TP53BP1	7158	broad.mit.edu	37	chr15	43748491	43748491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttcacaagaaacatcaactCtgggagatggctctttcaca	13	10	8	10	0	5	2	3	0	2	2	5	3	5	2	0	2	2	2	0	2	3	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr15:43748491C>T	uc001zrs.2	-	12	2448	c.2300G>A	c.(2299-2301)AGA>AAA	p.R767K	TP53BP1_uc010udp.1_Missense_Mutation_p.R767K|TP53BP1_uc001zrq.3_Missense_Mutation_p.R772K|TP53BP1_uc001zrr.3_Missense_Mutation_p.R772K|TP53BP1_uc010udq.1_Missense_Mutation_p.R772K	NM_005657	NP_005648	Q12888	TP53B_HUMAN	tumor protein p53 binding protein 1 isoform 3	767					double-strand break repair via homologous recombination|positive regulation of transcription from RNA polymerase II promoter	condensed chromosome kinetochore|cytoplasm|nucleoplasm	p53 binding|RNA polymerase II activating transcription factor binding|RNA polymerase II transcription cofactor activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)|kidney(1)	7		all_cancers(109;6.94e-11)|all_epithelial(112;2.69e-09)|Lung NSC(122;7.86e-07)|all_lung(180;7.84e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;1.59e-06)		AACATCAACTCTGGGAGATGG	0.453								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					26	60					0	0	1	0	0		T	43748491	T	T	43748491	3	4	206	1	0	0	0	0	1	0	0	0	16409	913	32	4	3686	4	TP53BP1	15	43748491	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08		43748491	58782901	46	100241											
SLC24A5	283652	broad.mit.edu	37	chr15	48429089	48429089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaatcaagaactgatagtgGaatattttatgaagattctg	15	13	9	4	0	2	4	1	2	1	2	2	5	2	5	0	1	1	1	0	1	8	5			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr15:48429089G>A	uc001zwe.2	+	6	873	c.800G>A	c.(799-801)GGA>GAA	p.G267E	SLC24A5_uc010bel.2_Missense_Mutation_p.G207E|uc001zwf.1_5'Flank	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	267	Cytoplasmic (Potential).				response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		ACTGATAGTGGAATATTTTAT	0.413													10	54					0	0	1	0	0		A	48429089	A	A	48429089	3	1	206	1	0	0	0	0	1	0	0	0	14494	1174	41	4	822	4	SLC24A5	15	48429089	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	4680598	48429089	54102303	47	100242											
PIGW	284098	broad.mit.edu	37	chr17	34893858	34893858	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtctattaaatgccaaccGcgaaggaataatctctaccc	13	10	7	11	2	2	0	0	0	2	0	3	2	2	1	3	2	3	0	3	2	8	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr17:34893858G>T	uc002hmy.1	+	2	951	c.908G>T	c.(907-909)CGC>CTC	p.R303L	MYO19_uc010cuu.2_5'Flank|MYO19_uc010wcy.1_5'Flank|MYO19_uc010wcz.1_5'Flank|MYO19_uc010wda.1_5'Flank|MYO19_uc002hmx.2_5'Flank|PIGW_uc002hmz.1_Missense_Mutation_p.R303L	NM_178517	NP_848612	Q7Z7B1	PIGW_HUMAN	phosphatidylinositol glycan, class W	303					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	O-acyltransferase activity				0		Breast(25;0.00957)|Ovarian(249;0.17)	Kidney(155;0.104)	UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AATGCCAACCGCGAAGGAATA	0.433													10	85					5.16669e-11	5.64731e-11	1	1	0		T	34893858	T	T	34893858	3	4	206	1	0	0	0	0	1	0	0	0	11921	1087	38	5	910	5	PIGW	17	34893858	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08		34893858	46301352	48	100243											
KRT31	3881	broad.mit.edu	37	chr17	39553526	39553526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgctgagaccgctccCggatgaggttctccagctcc	5	9	11	16	2	1	2	0	2	1	1	4	4	3	3	5	2	3	5	5	2	0	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr17:39553526C>T	uc002hwn.2	-	1	319	c.266G>A	c.(265-267)CGG>CAG	p.R89Q	KRT31_uc010cxn.2_Missense_Mutation_p.R89Q	NM_002277	NP_002268	Q15323	K1H1_HUMAN	keratin 31	89	Coil 1A.|Rod.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000496)				AGACCGCTCCCGGATGAGGTT	0.587													30	91					0	0	1	0	0		T	39553526	T	T	39553526	3	4	206	1	0	0	0	0	1	0	0	0	8483	652	23	1	1012	1	KRT31	17	39553526	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	4659668	39553526	41641684	49	100244											
LAMA1	284217	broad.mit.edu	37	chr18	7011407	7011407	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgggggcctggtagtaaacCccctcggtcgtgcccctcaa	6	8	12	15	3	1	0	1	0	0	0	4	0	1	0	5	4	2	2	5	4	4	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr18:7011407C>G	uc002knm.2	-	25	3673	c.3579G>C	c.(3577-3579)GGG>GGC	p.G1193G	LAMA1_uc010wzj.1_Silent_p.G669G	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	1193	Laminin IV type A 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTAGTAAACCCCCTCGGTCG	0.607													8	9					0	0	1	0	0		G	7011407	G	G	7011407	2	3	206	1	0	0	0	0	0	0	0	1	8621	610	22	5		5	LAMA1	18	7011407	Silent	SNP	C	TCGA-HU-8610-01A-22D-2394-08		7011407	71065841	50	100245											
ANKRD12	23253	broad.mit.edu	37	chr18	9204526	9204526	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggagagacttatatcttcTtacaggacatactcaggtaa	13	11	10	7	0	3	1	1	0	2	1	3	4	3	3	0	4	2	1	0	4	5	6			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr18:9204526T>G	uc002knv.2	+	4	545	c.288T>G	c.(286-288)TCT>TCG	p.S96S	ANKRD12_uc010wzn.1_Silent_p.S96S|ANKRD12_uc002knw.2_Intron|ANKRD12_uc002knx.2_Intron	NM_015208	NP_056023	Q6UB98	ANR12_HUMAN	ankyrin repeat domain 12 isoform 1	96						nucleus				ovary(2)|central_nervous_system(1)	3						TTATATCTTCTTACAGGACAT	0.373													6	46					0	0	1	0	0		G	9204526	G	G	9204526	2	3	206	1	0	0	0	0	0	0	0	1	640	1596	56	5		5	ANKRD12	18	9204526	Silent	SNP	T	TCGA-HU-8610-01A-22D-2394-08	2193119	9204526	68872722	51	100246											
RNF165	494470	broad.mit.edu	37	chr18	44013236	44013236	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccgcagccgcagcagctcGctcccgacttcccgctggcc	4	5	10	22	5	0	0	0	0	0	0	3	1	2	0	6	1	3	6	6	1	0	1			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr18:44013236G>A	uc002lcb.1	+	2	196	c.145G>A	c.(145-147)GCT>ACT	p.A49T	RNF165_uc002lby.1_5'UTR|RNF165_uc010dnn.1_Intron	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165	49							zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)		GCAGCAGCTCGCTCCCGACTT	0.706													7	23					0	0	1	0	0		A	44013236	A	A	44013236	3	1	206	1	0	0	0	0	1	0	0	0	13481	1087	38	1	151	1	RNF165	18	44013236	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	34808710	44013236	34064012	52	100247											
CCBE1	147372	broad.mit.edu	37	chr18	57107014	57107014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaggagggcctggcataccGgggaagcctgggcttccctt	6	7	15	13	1	0	0	0	0	0	0	1	2	1	2	5	6	2	2	5	6	2	3	rs151243930		TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr18:57107014G>A	uc002lib.2	-	8	880	c.810C>T	c.(808-810)CCC>CCT	p.P270P	CCBE1_uc010dpq.2_Intron|CCBE1_uc002lia.2_Silent_p.P123P	NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	collagen and calcium binding EGF domains 1	270	Collagen-like 1.				lymphangiogenesis|sprouting angiogenesis|venous blood vessel morphogenesis	collagen	calcium ion binding			skin(2)|ovary(1)	3		Colorectal(73;0.175)				CTGGCATACCGGGGAAGCCTG	0.602													18	84					0	0	1	0	0		A	57107014	A	A	57107014	2	1	206	1	0	0	0	0	0	0	0	1	2734	1103	39	1		1	CCBE1	18	57107014	Silent	SNP	G	TCGA-HU-8610-01A-22D-2394-08	13093778	57107014	20970234	53	100248											
MAP2K7	5609	broad.mit.edu	37	chr19	7977041	7977041	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctcttgctctagccttactAaagatcacaggaagagacca	13	10	7	11	0	3	2	1	0	2	2	4	4	3	3	2	1	3	1	2	1	5	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr19:7977041A>G	uc002mit.2	+	10	1152	c.1087A>G	c.(1087-1089)AAA>GAA	p.K363E	MAP2K7_uc002miv.2_Missense_Mutation_p.K370E|MAP2K7_uc010xka.1_RNA|MAP2K7_uc010xkb.1_Missense_Mutation_p.K370E|MAP2K7_uc010dvv.2_Missense_Mutation_p.K238E	NM_145185	NP_660186	O14733	MP2K7_HUMAN	mitogen-activated protein kinase kinase 7	363	Protein kinase.				activation of JUN kinase activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus	ATP binding|JUN kinase kinase activity|magnesium ion binding|protein binding|protein kinase binding|protein phosphatase binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			large_intestine(7)|central_nervous_system(2)|ovary(1)|lung(1)	11					Etoposide(DB00773)	TAGCCTTACTAAAGATCACAG	0.602													36	76					0	0	1	0	0		G	7977041	G	G	7977041	3	3	206	1	0	0	0	0	1	0	0	0	9260	363	13	3	1125	3	MAP2K7	19	7977041	Missense_Mutation	SNP	A	TCGA-HU-8610-01A-22D-2394-08		7977041	51151942	54	100249											
FBXL12	54850	broad.mit.edu	37	chr19	9922033	9922033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcgcaaggcccggaagcGcgtcaggccctgcaggtgct	7	4	16	14	5	1	0	1	0	0	0	1	2	1	1	2	4	4	3	2	4	2	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr19:9922033G>A	uc002mme.2	-	3	762	c.520C>T	c.(520-522)CGC>TGC	p.R174C	FBXL12_uc002mmd.2_Missense_Mutation_p.R121C|FBXL12_uc002mmf.2_Missense_Mutation_p.R121C|FBXL12_uc002mmg.2_Missense_Mutation_p.R121C|FBXL12_uc002mmh.2_Missense_Mutation_p.R121C	NM_017703	NP_060173	Q9NXK8	FXL12_HUMAN	F-box and leucine-rich repeat protein 12	174	LRR 4.						protein binding			lung(1)|kidney(1)	2						GCCCGGAAGCGCGTCAGGCCC	0.667													19	87					0	0	1	0	0		A	9922033	A	A	9922033	3	1	206	1	0	0	0	0	1	0	0	0	5722	1087	38	1	464	1	FBXL12	19	9922033	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	1944992	9922033	49206950	55	100250											
TSHZ3	57616	broad.mit.edu	37	chr19	31769921	31769921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccatttccagcaaggagcGtttgcgaggcttggaccagc	8	10	12	11	2	0	0	0	0	0	0	2	3	2	2	3	3	4	3	3	3	1	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr19:31769921G>A	uc002nsy.3	-	2	843	c.778C>T	c.(778-780)CGC>TGC	p.R260C		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	260					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					AGCAAGGAGCGTTTGCGAGGC	0.557													39	267					0	0	1	0	0		A	31769921	A	A	31769921	3	1	206	1	0	0	0	0	1	0	0	0	16651	1145	40	1	2471	1	TSHZ3	19	31769921	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	21847888	31769921	27359062	56	100251											
LRFN3	79414	broad.mit.edu	37	chr19	36431169	36431169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccacctgctctgggcggccGctacttctgggcggtgggcg	2	8	16	15	4	2	0	0	0	2	0	2	0	2	0	3	5	2	2	3	5	1	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr19:36431169G>A	uc002oco.2	+	2	1294	c.842G>A	c.(841-843)CGC>CAC	p.R281H		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	281	LRRCT.|Extracellular (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CTGGGCGGCCGCTACTTCTGG	0.721													4	24					0	0	1	0	0		A	36431169	A	A	36431169	3	1	206	1	0	0	0	0	1	0	0	0	8957	1087	38	1	844	1	LRFN3	19	36431169	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	4661248	36431169	22697814	57	100252											
SIGLEC10	89790	broad.mit.edu	37	chr19	51920084	51920084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggagagggcagcccccGtccaggagaaagaagggggt	11	2	20	8	1	0	3	0	0	0	3	1	6	1	4	3	6	1	1	3	6	2	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr19:51920084G>A	uc002pwo.2	-	3	1158	c.542C>T	c.(541-543)ACG>ATG	p.T181M	SIGLEC10_uc002pwp.2_Intron|SIGLEC10_uc002pwq.2_Intron|SIGLEC10_uc002pwr.2_Missense_Mutation_p.T181M|SIGLEC10_uc010ycy.1_Missense_Mutation_p.T181M|SIGLEC10_uc010ycz.1_Intron|SIGLEC10_uc010eow.2_Translation_Start_Site|SIGLEC10_uc002pws.1_Intron	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor	181	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		GGCAGCCCCCGTCCAGGAGAA	0.612													12	69					0	0	1	0	0		A	51920084	A	A	51920084	3	1	206	1	0	0	0	0	1	0	0	0	14331	1145	40	1	1587	1	SIGLEC10	19	51920084	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	15488915	51920084	7208899	58	100253											
ZNF835	90485	broad.mit.edu	37	chr19	57175776	57175776	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcgctggtggcggatgagcGctgaggagaagcggaaggcc	8	5	20	8	4	0	3	0	2	0	1	0	6	0	5	1	6	3	2	1	6	2	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr19:57175776G>A	uc010ygo.1	-	2	857	c.857C>T	c.(856-858)GCG>GTG	p.A286V	ZNF835_uc010ygn.1_Missense_Mutation_p.A264V	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GCGGATGAGCGCTGAGGAGAA	0.672													4	24					0	0	1	0	0		A	57175776	A	A	57175776	3	1	206	1	0	0	0	0	1	0	0	0	18211	1087	38	1	824	1	ZNF835	19	57175776	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08	5255692	57175776	1953207	59	100254											
ZNF418	147686	broad.mit.edu	37	chr19	58438782	58438782	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctccacattcataaggtCttttcccagtgtgaactctc	9	15	5	12	0	4	1	1	1	3	0	7	1	5	1	2	1	1	0	2	1	2	5			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr19:58438782C>A	uc002qqs.1	-	4	1059	c.767G>T	c.(766-768)AGA>ATA	p.R256I	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_Missense_Mutation_p.R171I	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	256					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		TTCATAAGGTCTTTTCCCAGT	0.423													18	108					3.52763e-06	3.76815e-06	1	1	0		A	58438782	A	A	58438782	3	1	206	1	0	0	0	0	1	0	0	0	17920	913	32	5	1267	5	ZNF418	19	58438782	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	1263006	58438782	690201	60	100255											
STK4	6789	broad.mit.edu	37	chr20	43625835	43625835	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatgattcctacaaatcCtcctcccacattccgaaaac	12	11	2	16	1	1	1	1	1	0	0	6	2	6	1	5	0	2	0	5	0	4	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr20:43625835C>G	uc002xnb.2	+	7	809	c.719C>G	c.(718-720)CCT>CGT	p.P240R	STK4_uc010ggx.2_Missense_Mutation_p.P240R|STK4_uc010ggy.2_Missense_Mutation_p.P185R|STK4_uc010ggw.1_Missense_Mutation_p.P240R	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4	240	Protein kinase.				apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				CCTACAAATCCTCCTCCCACA	0.388													11	116					0	0	1	0	0		G	43625835	G	G	43625835	3	3	206	1	0	0	0	0	1	0	0	0	15331	681	24	5	745	5	STK4	20	43625835	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08		43625835	19399685	61	100256											
TH1L	51497	broad.mit.edu	37	chr20	57561860	57561860	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttatccagctcttatctgaAaactacaccgctgtggccca	10	11	7	13	1	2	1	0	1	2	0	3	1	3	1	3	1	3	3	3	1	5	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr20:57561860A>C	uc002yag.2	+	3	282	c.255A>C	c.(253-255)GAA>GAC	p.E85D	TH1L_uc010zzu.1_Missense_Mutation_p.E85D|TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.E85D	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	85					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			TCTTATCTGAAAACTACACCG	0.507													31	213					0	0	1	0	0		C	57561860	C	C	57561860	3	2	206	1	0	0	0	0	1	0	0	0	15864	11	1	5	265	5	TH1L	20	57561860	Missense_Mutation	SNP	A	TCGA-HU-8610-01A-22D-2394-08	13936025	57561860	5463660	62	100257											
PRPF6	24148	broad.mit.edu	37	chr20	62657327	62657327	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggagatctggctggcagcCgtgaagctggagtccgagaa	10	6	17	8	2	1	3	0	1	1	2	2	7	2	4	2	4	2	3	2	4	2	0	rs151332876	by1000genomes	TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr20:62657327C>T	uc002yho.2	+	15	2112	c.1944C>T	c.(1942-1944)GCC>GCT	p.A648A	PRPF6_uc002yhp.2_Intron	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	648	HAT 6.				assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					GGCTGGCAGCCGTGAAGCTGG	0.647													48	396					0	0	1	0	0		T	62657327	T	T	62657327	2	4	206	1	0	0	0	0	0	0	0	1	12596	639	23	1		1	PRPF6	20	62657327	Silent	SNP	C	TCGA-HU-8610-01A-22D-2394-08	5095467	62657327	368193	63	100258											
CECR2	27443	broad.mit.edu	37	chr22	17983950	17983950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaatggagacaggtcaccGagagttttcgcgagaggacc	12	6	15	8	3	1	3	1	0	0	3	2	8	1	5	2	4	0	1	2	4	1	2			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chr22:17983950G>A	uc010gqw.1	+	6	772	c.646G>A	c.(646-648)GAG>AAG	p.E216K	CECR2_uc010gqv.1_Missense_Mutation_p.E95K|CECR2_uc002zml.2_Missense_Mutation_p.E95K|CECR2_uc002zmm.1_Missense_Mutation_p.E95K	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	258					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		ACAGGTCACCGAGAGTTTTCG	0.542													23	77					0	0	1	0	0		A	17983950	A	A	17983950	3	1	206	1	0	0	0	0	1	0	0	0	3209	1059	37	1	670	1	CECR2	22	17983950	Missense_Mutation	SNP	G	TCGA-HU-8610-01A-22D-2394-08		17983950	33320616	64	100259											
MAGEB1	4112	broad.mit.edu	37	chrX	30269612	30269612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgccacgacttttagagcGcgttctagagccccattcag	9	10	9	13	3	2	2	1	0	1	2	2	3	2	2	3	0	3	1	3	0	2	5	rs148758545	byFrequency	TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chrX:30269612G>A	uc004dcc.2	+	4	1322	c.1002G>A	c.(1000-1002)GCG>GCA	p.A334A	MAGEB1_uc004dcd.2_Silent_p.A334A|MAGEB1_uc004dce.2_Silent_p.A334A	NM_002363	NP_002354	P43366	MAGB1_HUMAN	melanoma antigen family B, 1	334											0						CTTTTAGAGCGCGTTCTAGAG	0.507													4	54					0	0	1	0	0		A	30269612	A	A	30269612	2	1	206	1	0	0	0	0	0	0	0	1	9190	1074	38	1		1	MAGEB1	23	30269612	Silent	SNP	G	TCGA-HU-8610-01A-22D-2394-08		30269612	125000948	65	100260											
PCDH11X	27328	broad.mit.edu	37	chrX	91132884	91132884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caaaagataacggggtaccaCccttaaccagcaatgtcaca	16	6	7	12	1	1	1	1	0	0	1	1	1	1	1	3	2	4	2	3	2	6	3			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chrX:91132884C>T	uc004efk.1	+	2	2490	c.1645C>T	c.(1645-1647)CCC>TCC	p.P549S	PCDH11X_uc004efl.1_Missense_Mutation_p.P549S|PCDH11X_uc004efo.1_Missense_Mutation_p.P549S|PCDH11X_uc010nmv.1_Missense_Mutation_p.P549S|PCDH11X_uc004efm.1_Missense_Mutation_p.P549S|PCDH11X_uc004efn.1_Missense_Mutation_p.P549S|PCDH11X_uc004efh.1_Missense_Mutation_p.P549S|PCDH11X_uc004efj.1_Missense_Mutation_p.P549S	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	549	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CGGGGTACCACCCTTAACCAG	0.378													5	63					0	0	1	0	0		T	91132884	T	T	91132884	3	4	206	1	0	0	0	0	1	0	0	0	11527	507	18	4	1651	4	PCDH11X	23	91132884	Missense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	60863272	91132884	64137676	66	100261											
ATG4A	115201	broad.mit.edu	37	chrX	107381208	107381208	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaaatcaatcctgtctatgTtgatgcattcaaagtaagtc	13	13	6	9	0	3	1	2	1	1	0	5	1	4	1	2	0	1	3	2	0	5	4			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chrX:107381208T>C	uc004enr.2	+	8	845	c.722T>C	c.(721-723)GTT>GCT	p.V241A	ATG4A_uc004ent.2_Intron|ATG4A_uc004ens.2_Missense_Mutation_p.V157A|ATG4A_uc011msl.1_Intron|ATG4A_uc010npi.2_RNA|ATG4A_uc004enu.2_Missense_Mutation_p.V157A	NM_052936	NP_443168	Q8WYN0	ATG4A_HUMAN	autophagy-related cysteine endopeptidase 2	241					autophagy|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity			pancreas(1)	1						CCTGTCTATGTTGATGCATTC	0.532													8	177					0	0	1	0	0		C	107381208	C	C	107381208	3	2	206	1	0	0	0	0	1	0	0	0	1097	1725	60	3	752	3	ATG4A	23	107381208	Missense_Mutation	SNP	T	TCGA-HU-8610-01A-22D-2394-08	16248324	107381208	47889352	67	100262											
SLITRK2	84631	broad.mit.edu	37	chrX	144904988	144904988	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagctgtgtctgcacctctCagagctcagacaatggtctg	8	10	11	12	0	4	2	2	0	3	2	5	2	4	2	1	1	3	4	1	1	1	0			TCGA-HU-8610-01A-22D-2394-08	TCGA-HU-8610-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	1469c2ef-0b9a-4029-baae-b234b857894b	f5fbb139-b67f-4d85-807e-df6adb0af6c0	g.chrX:144904988C>T	uc004fcd.2	+	5	2035	c.1045C>T	c.(1045-1047)CAG>TAG	p.Q349*	SLITRK2_uc010nsp.2_Nonsense_Mutation_p.Q349*|SLITRK2_uc010nso.2_Nonsense_Mutation_p.Q349*|SLITRK2_uc011mwq.1_Nonsense_Mutation_p.Q349*|SLITRK2_uc011mwr.1_Nonsense_Mutation_p.Q349*|SLITRK2_uc011mws.1_Nonsense_Mutation_p.Q349*|SLITRK2_uc004fcg.2_Nonsense_Mutation_p.Q349*|SLITRK2_uc011mwt.1_Nonsense_Mutation_p.Q349*	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	349	Extracellular (Potential).|LRRNT.					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CTGCACCTCTCAGAGCTCAGA	0.498													10	29					0	0	1	0	0		T	144904988	T	T	144904988	4	4	206	1	0	0	0	0	0	1	0	0	14768	827	29	4	1047	4	SLITRK2	23	144904988	Nonsense_Mutation	SNP	C	TCGA-HU-8610-01A-22D-2394-08	37523780	144904988	10365572	68	100263											
ZNF642	339559	broad.mit.edu	37	chr1	40947451	40947451	+	Silent	SNP	T	C	C	0	1	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	ccagctctgctgtctcaggaTgctgaggacgtaaagaccca	10	8	11	12	1	2	2	1	1	2	1	3	4	2	4	2	2	3	4	2	2	2	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr1:40947451T>C	uc001cfo.2	+	3	438	c.144T>C	c.(142-144)GAT>GAC	p.D48D	ZNF642_uc009vwb.2_Silent_p.D48D|ZNF642_uc010ojk.1_Silent_p.D48D	NM_198494	NP_940896	Q49AA0	ZN642_HUMAN	zinc finger protein 642	48					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.81e-19)			TGTCTCAGGATGCTGAGGACG	0.498													31	55					0	0	1	0	0		C	40947451	C	C	40947451	2	2	207	1	0	0	0	0	0	0	0	1	18083	1461	51	3		3	ZNF642	1	40947451	Silent	SNP	T	TCGA-HU-A4G2-01A-11D-A25D-08		40947451	208303170	1	100264											
CPT2	1376	broad.mit.edu	37	chr1	53676469	53676469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccactttgagcactcttggGgtgatggtgtggcagtgctc	5	13	14	9	0	1	2	0	2	1	0	3	2	2	2	1	4	2	3	1	4	0	2			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr1:53676469G>A	uc001cvb.3	+	4	1638	c.1123G>A	c.(1123-1125)GGT>AGT	p.G375S		NM_000098	NP_000089	P23786	CPT2_HUMAN	carnitine O-palmitoyltransferase precursor	375	Mitochondrial matrix (By similarity).				carnitine shuttle|fatty acid beta-oxidation|regulation of fatty acid oxidation	mitochondrial inner membrane	carnitine O-palmitoyltransferase activity				0					L-Carnitine(DB00583)|Perhexiline(DB01074)	GCACTCTTGGGGTGATGGTGT	0.498													9	29					0	0	1	0	0		A	53676469	A	A	53676469	3	1	207	1	0	0	0	0	1	0	0	0	3837	1232	43	4	1137	4	CPT2	1	53676469	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	12729018	53676469	195574152	2	100265											
DPYD	1806	broad.mit.edu	37	chr1	97981294	97981294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttaccttatcaagagaGaaagttttggtgagggcaaa	13	13	10	5	0	2	3	1	1	1	2	2	4	2	3	1	2	1	2	1	2	5	5			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr1:97981294G>T	uc001drv.2	-	13	1865	c.1728C>A	c.(1726-1728)TTC>TTA	p.F576L		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	576					'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	TATCAAGAGAGAAAGTTTTGG	0.333													9	40					0.000442599	0.000472106	1	1	0		T	97981294	T	T	97981294	3	4	207	1	0	0	0	0	1	0	0	0	4751	933	33	5	1393	5	DPYD	1	97981294	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	44304825	97981294	151269327	3	100266											
NFASC	23114	broad.mit.edu	37	chr1	204951139	204951139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtccgtcatcggttactccGgagaagattgtgagtagtct	9	12	12	8	3	2	3	1	1	1	2	5	4	4	3	2	2	1	2	2	2	3	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr1:204951139G>A	uc001hbj.2	+	21	2789	c.2461G>A	c.(2461-2463)GGA>AGA	p.G821R	NFASC_uc010pra.1_Missense_Mutation_p.G817R|NFASC_uc001hbi.2_Missense_Mutation_p.G817R|NFASC_uc010prb.1_Missense_Mutation_p.G832R|NFASC_uc010prc.1_Missense_Mutation_p.G388R|NFASC_uc001hbk.1_Missense_Mutation_p.G627R|NFASC_uc001hbl.1_Missense_Mutation_p.G71R	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	821	Extracellular (Potential).				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	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)			CGGTTACTCCGGAGAAGATTG	0.612													4	16					0	0	1	0	0		A	204951139	A	A	204951139	3	1	207	1	0	0	0	0	1	0	0	0	10378	1117	39	1	2619	1	NFASC	1	204951139	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	106969845	204951139	44299482	4	100267											
OBSCN	84033	broad.mit.edu	37	chr1	228474547	228474547	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggacttgaccctggtgtgCgagaccagcacctgcgacat	9	7	13	12	2	0	2	0	1	0	1	0	6	0	3	3	2	3	1	3	2	0	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr1:228474547C>T	uc009xez.1	+	35	9395	c.9351C>T	c.(9349-9351)TGC>TGT	p.C3117C	OBSCN_uc001hsn.2_Silent_p.C3117C|OBSCN_uc001hsq.1_Silent_p.C373C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3117	Ig-like 31.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCCTGGTGTGCGAGACCAGCA	0.642													15	54					0	0	1	0	0		T	228474547	T	T	228474547	2	4	207	1	0	0	0	0	0	0	0	1	10831	776	27	1		1	OBSCN	1	228474547	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	23523408	228474547	20776074	5	100268											
PNPT1	87178	broad.mit.edu	37	chr2	55907854	55907854	+	Silent	SNP	T	C	C	0	1	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	aatcctaacttaccaacaggTccattccaaggaatatctga	15	10	5	11	0	1	1	0	1	1	0	4	2	4	2	4	2	3	0	4	2	7	4			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr2:55907854T>C	uc002rzf.2	-	7	611	c.558A>G	c.(556-558)GGA>GGG	p.G186G	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	186					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TACCAACAGGTCCATTCCAAG	0.323													18	36					0	0	1	0	0		C	55907854	C	C	55907854	2	2	207	1	0	0	0	0	0	0	0	1	12192	1654	58	3		3	PNPT1	2	55907854	Silent	SNP	T	TCGA-HU-A4G2-01A-11D-A25D-08		55907854	187291519	6	100269											
GPR45	11250	broad.mit.edu	37	chr2	105858363	105858363	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcttacacatacctgctgctGaacaccagcaacgcctcaga	12	7	7	15	1	1	2	1	1	0	1	1	2	1	2	3	0	7	4	3	0	4	2			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr2:105858363G>A	uc002tco.1	+	1	164	c.48G>A	c.(46-48)CTG>CTA	p.L16L		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	16	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						ACCTGCTGCTGAACACCAGCA	0.617													42	64					0	0	1	0	0		A	105858363	A	A	105858363	2	1	207	1	0	0	0	0	0	0	0	1	6711	1277	45	4		4	GPR45	2	105858363	Silent	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	49950509	105858363	137341010	7	100270											
ACVR1	90	broad.mit.edu	37	chr2	158594066	158594066	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagtcagttttcaatttgtCgagggaattatcaattttgg	11	16	9	5	1	3	0	3	0	0	0	4	2	3	1	0	2	0	1	0	2	4	6			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr2:158594066C>T	uc002tzm.3	-	12	1846	c.1507G>A	c.(1507-1509)GAC>AAC	p.D503N	ACVR1_uc002tzn.3_Missense_Mutation_p.D503N|ACVR1_uc010fog.2_Missense_Mutation_p.D503N	NM_001111067	NP_001104537	Q04771	ACVR1_HUMAN	activin A receptor, type I precursor	503	Cytoplasmic (Potential).				BMP signaling pathway|G1/S transition of mitotic cell cycle|negative regulation of activin receptor signaling pathway|negative regulation of apoptosis|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	activin receptor complex	activin binding|ATP binding|follistatin binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta binding			ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.104)	Adenosine triphosphate(DB00171)	TTCAATTTGTCGAGGGAATTA	0.418													18	38					0	0	1	0	0		T	158594066	T	T	158594066	3	4	207	1	0	0	0	0	1	0	0	0	220	884	31	1	26	1	ACVR1	2	158594066	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	52735703	158594066	84605307	8	100271											
COL3A1	1281	broad.mit.edu	37	chr2	189856394	189856394	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatttcaattttactctgtaGggtccaagaggggctcctgg	8	14	11	8	0	2	1	1	0	1	1	4	1	4	1	2	4	1	2	2	4	5	5			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr2:189856394G>T	uc002uqj.1	+	13	1015	c.898_splice	c.e13-1	p.G300_splice	COL3A1_uc010frw.1_5'Flank	NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein						axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding			central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	TTACTCTGTAGGGTCCAAGAG	0.458													34	126					1.36161e-19	1.58442e-19	1	1	0		T	189856394	T	T	189856394	5	4	207	1	0	0	0	0	0	0	1	0	3691	1014	35	5	947	5	COL3A1	2	189856394	Splice_Site	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	31262328	189856394	53342979	9	100272											
UGT1A1	54658	broad.mit.edu	37	chr2	234669132	234669132	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcacctgacgcctcgttgTacatcagagacggagcattt	10	10	10	11	3	1	2	1	1	0	1	2	4	1	3	2	1	3	4	2	1	2	4			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr2:234669132T>C	uc002vvb.2	+	1	214	c.199T>C	c.(199-201)TAC>CAC	p.Y67H	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron|UGT1A9_uc002vva.2_Intron|UGT1A1_uc010znc.1_Missense_Mutation_p.Y67H	NM_000463	NP_000454	P22309	UD11_HUMAN	UDP glycosyltransferase 1 family, polypeptide A1	67					bilirubin conjugation|digestion|estrogen metabolic process|flavone metabolic process|heme catabolic process	endoplasmic reticulum membrane|microsome	enzyme binding|enzyme inhibitor activity|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|retinoic acid binding|steroid binding			central_nervous_system(1)|skin(1)	2		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)|Adenine(DB00173)|Diclofenac(DB00586)|Estradiol(DB00783)|Ezetimibe(DB00973)|Irinotecan(DB00762)|Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|Propofol(DB00818)|Rifampin(DB01045)|Troglitazone(DB00197)	CGCCTCGTTGTACATCAGAGA	0.517													21	112					0	0	1	0	0		C	234669132	C	C	234669132	3	2	207	1	0	0	0	0	1	0	0	0	16970	1638	57	3	201	3	UGT1A1	2	234669132	Missense_Mutation	SNP	T	TCGA-HU-A4G2-01A-11D-A25D-08	44812738	234669132	8530241	10	100273											
SCN5A	6331	broad.mit.edu	37	chr3	38592950	38592950	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcggatccccttggcccctCggatcagtctgaggatgcgg	5	9	14	13	3	2	1	1	1	1	0	4	4	3	4	4	5	2	0	4	5	0	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr3:38592950C>T	uc003cio.2	-	28	5107	c.4913G>A	c.(4912-4914)CGA>CAA	p.R1638Q	SCN5A_uc003cin.2_Missense_Mutation_p.R1637Q|SCN5A_uc003cil.3_Missense_Mutation_p.R1638Q|SCN5A_uc010hhi.2_Missense_Mutation_p.R1620Q|SCN5A_uc010hhk.2_Missense_Mutation_p.R1605Q|SCN5A_uc011ayr.1_Missense_Mutation_p.R1584Q	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1638	Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	CTTGGCCCCTCGGATCAGTCT	0.592													34	104					0	0	1	0	0		T	38592950	T	T	38592950	3	4	207	1	0	0	0	0	1	0	0	0	13947	884	31	1	1141	1	SCN5A	3	38592950	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08		38592950	159429480	11	100274											
KLHL18	23276	broad.mit.edu	37	chr3	47378131	47378131	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttggcgtggctgtggtgaaCgggcttctctatgccatcgg	4	12	16	9	3	1	1	0	1	1	0	3	1	1	1	1	5	2	3	1	5	2	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr3:47378131C>T	uc003crd.2	+	7	1131	c.1005C>T	c.(1003-1005)AAC>AAT	p.N335N	KLHL18_uc003crc.2_Silent_p.N335N|KLHL18_uc011bav.1_Silent_p.N223N|KLHL18_uc010hjq.1_Silent_p.N191N	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	335	Kelch 1.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		CTGTGGTGAACGGGCTTCTCT	0.602													19	49					0	0	1	0	0		T	47378131	T	T	47378131	2	4	207	1	0	0	0	0	0	0	0	1	8389	535	19	1		1	KLHL18	3	47378131	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	8785181	47378131	150644299	12	100275											
DALRD3	55152	broad.mit.edu	37	chr3	49053945	49053945	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gatctctgtccaggctgggtCtgagggagtatagggttggt	6	12	17	6	0	2	1	0	1	2	0	4	3	3	2	1	5	0	3	1	5	2	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr3:49053945C>T	uc003cvk.1	-	8	1084	c.1064_splice	c.e8-1	p.D355_splice	DALRD3_uc003cvl.1_Splice_Site_p.D355_splice|DALRD3_uc003cvm.1_Splice_Site_p.D188_splice|DALRD3_uc010hko.1_Splice_Site_p.D188_splice|DALRD3_uc011bca.1_Splice_Site_p.D355_splice	NM_001009996	NP_001009996	Q5D0E6	DALD3_HUMAN	DALR anticodon binding domain containing 3						arginyl-tRNA aminoacylation	cytoplasm	arginine-tRNA ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CAGGCTGGGTCTGAGGGAGTA	0.567													7	25					0	0	1	0	0		T	49053945	T	T	49053945	5	4	207	1	0	0	0	0	0	0	1	0	4232	927	32	4	588	4	DALRD3	3	49053945	Splice_Site	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	1675814	49053945	148968485	13	100276											
RHO	6010	broad.mit.edu	37	chr3	129251585	129251585	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aagagcgccgccatctacaaCcctgtcatctatatcatgat	12	10	6	13	2	4	2	2	1	2	1	4	2	4	2	3	0	3	0	3	0	5	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr3:129251585C>A	uc003emt.2	+	4	1001	c.906C>A	c.(904-906)AAC>AAA	p.N302K		NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin	302	Helical; Name=7; (Potential).				protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	CCATCTACAACCCTGTCATCT	0.582													19	49					1.01871e-10	1.14382e-10	1	1	0		A	129251585	A	A	129251585	3	1	207	1	0	0	0	0	1	0	0	0	13355	506	18	5	920	5	RHO	3	129251585	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	80197640	129251585	68770845	14	100277											
PIK3CA	5290	broad.mit.edu	37	chr3	178916726	178916726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgactttagaatgcctccGtgaggctacattaataacca	13	11	8	9	1	0	3	0	2	0	1	1	3	1	3	3	1	3	1	3	1	5	5			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr3:178916726G>A	uc003fjk.2	+	2	270	c.113G>A	c.(112-114)CGT>CAT	p.R38H		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	38	PI3K-ABD.		R -> H (in cancer; shows an increase in lipid kinase activity; may disrupt the interaction between the PI3K-ABD domain and the N-terminal lobe of PI3K/PI4K kinase domain possibly affecting the conformation of the kinase domain).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R38H(4)|p.R38S(1)|p.R38G(1)|p.R38C(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			GAATGCCTCCGTGAGGCTACA	0.393		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			12	80					0	0	1	0	0		A	178916726	A	A	178916726	3	1	207	1	0	0	0	0	1	0	0	0	11932	1145	40	1	115	1	PIK3CA	3	178916726	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	49665141	178916726	19105704	15	100278											
RNF175	285533	broad.mit.edu	37	chr4	154633709	154633709	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaacgatacaccaacctcGgatgcagaattcatgaaagc	15	6	7	13	2	1	2	1	1	0	1	2	4	1	3	3	1	5	1	3	1	5	2			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr4:154633709G>A	uc003int.2	-	8	1157	c.784C>T	c.(784-786)CGA>TGA	p.R262*		NM_173662	NP_775933	Q8N4F7	RN175_HUMAN	ring finger protein 175	262	RING-type; atypical.					integral to membrane	zinc ion binding			ovary(1)|pancreas(1)	2	all_hematologic(180;0.093)	Renal(120;0.118)				CACCAACCTCGGATGCAGAAT	0.408													4	16					0	0	1	0	0		A	154633709	A	A	154633709	4	1	207	1	0	0	0	0	0	1	0	0	13488	1124	39	1	210	1	RNF175	4	154633709	Nonsense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		154633709	36520567	16	100279											
GALNTL6	442117	broad.mit.edu	37	chr4	173269789	173269789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acagtataattaaccgaaccCcagggagtctgatagcagaa	16	7	9	9	1	1	2	0	1	1	1	1	4	1	3	3	1	3	2	3	1	6	4			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr4:173269789C>T	uc003isv.2	+	5	1238	c.502C>T	c.(502-504)CCA>TCA	p.P168S		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6	168	Catalytic subdomain A.|Lumenal (Potential).					Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						TAACCGAACCCCAGGGAGTCT	0.408													34	70					0	0	1	0	0		T	173269789	T	T	173269789	3	4	207	1	0	0	0	0	1	0	0	0	6240	623	22	4	516	4	GALNTL6	4	173269789	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	18636080	173269789	17884487	17	100280											
WWC2	80014	broad.mit.edu	37	chr4	184182161	184182161	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccagcagagggtcactcaActccctcagttccaccgaac	10	7	7	17	1	3	1	3	0	0	1	6	2	6	1	4	1	3	2	4	1	2	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr4:184182161A>G	uc010irx.2	+	11	1567	c.1385A>G	c.(1384-1386)AAC>AGC	p.N462S	WWC2_uc003ivk.3_Missense_Mutation_p.N257S|WWC2_uc003ivl.3_RNA|WWC2_uc010iry.2_Missense_Mutation_p.N144S|WWC2_uc003ivn.3_Missense_Mutation_p.N26S	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	WW and C2 domain containing 2	462	Ser-rich.									ovary(2)|lung(1)	3		all_lung(41;5.28e-14)|Lung NSC(41;1.35e-13)|Colorectal(36;0.00681)|Hepatocellular(41;0.00886)|Renal(120;0.00992)|Prostate(90;0.0237)|all_hematologic(60;0.0592)|Esophageal squamous(56;0.179)|all_neural(102;0.202)		all cancers(43;3.38e-24)|Epithelial(43;1.4e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.09e-09)|GBM - Glioblastoma multiforme(59;3.33e-05)|Colorectal(24;3.58e-05)|STAD - Stomach adenocarcinoma(60;4.21e-05)|COAD - Colon adenocarcinoma(29;0.000171)|LUSC - Lung squamous cell carcinoma(40;0.0145)|READ - Rectum adenocarcinoma(43;0.242)		GGGTCACTCAACTCCCTCAGT	0.522													8	24					0	0	1	0	0		G	184182161	G	G	184182161	3	3	207	1	0	0	0	0	1	0	0	0	17438	43	2	3	1427	3	WWC2	4	184182161	Missense_Mutation	SNP	A	TCGA-HU-A4G2-01A-11D-A25D-08	10912372	184182161	6972115	18	100281											
FBXL7	23194	broad.mit.edu	37	chr5	15936847	15936847	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcagcgacttcggcctgcGggagatcgccaagctggagt	7	7	15	12	5	1	1	1	0	0	1	3	4	1	2	2	3	3	1	2	3	1	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr5:15936847G>A	uc003jfn.1	+	4	1509	c.1028G>A	c.(1027-1029)CGG>CAG	p.R343Q		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	343	LRR 7.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						TTCGGCCTGCGGGAGATCGCC	0.667													6	26					0	0	1	0	0		A	15936847	A	A	15936847	3	1	207	1	0	0	0	0	1	0	0	0	5738	1116	39	1	1042	1	FBXL7	5	15936847	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		15936847	164978413	19	100282											
FBN2	2201	broad.mit.edu	37	chr5	127693009	127693009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgagtttgctgccgggcGaacattcacaattgaaagat	12	10	11	8	2	1	3	1	2	0	1	1	4	1	3	1	1	4	3	1	1	3	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr5:127693009G>A	uc003kuu.2	-	20	3072	c.2633C>T	c.(2632-2634)TCG>TTG	p.S878L	FBN2_uc003kuv.2_Missense_Mutation_p.S845L	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	878	EGF-like 13; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GCTGCCGGGCGAACATTCACA	0.413													20	41					0	0	1	0	0		A	127693009	A	A	127693009	3	1	207	1	0	0	0	0	1	0	0	0	5717	1059	37	1	6289	1	FBN2	5	127693009	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	111756162	127693009	53222251	20	100283											
ELOVL2	54898	broad.mit.edu	37	chr6	10990028	10990028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggaagccacacggtttcaCgacggcgctcatggtgtgcg	7	7	16	11	5	2	0	2	0	0	0	2	2	2	1	1	5	2	2	1	5	1	1	rs6919726	byFrequency	TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr6:10990028C>T	uc003mzp.3	-	7	834	c.673G>A	c.(673-675)GTG>ATG	p.V225M		NM_017770	NP_060240	Q9NXB9	ELOV2_HUMAN	elongation of very long chain fatty acids-like	225	Helical; (Potential).				fatty acid elongation, polyunsaturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	fatty acid elongase activity|protein binding				0	Breast(50;0.0418)|Ovarian(93;0.0919)	all_hematologic(90;0.117)	Epithelial(50;0.176)			CACGGTTTCACGACGGCGCTC	0.532													27	69					0	0	1	0	0		T	10990028	T	T	10990028	3	4	207	1	0	0	0	0	1	0	0	0	5082	536	19	1	225	1	ELOVL2	6	10990028	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08		10990028	160125039	21	100284											
RTN4IP1	84816	broad.mit.edu	37	chr6	107070695	107070695	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcattccctaactcacctCatctccaggcttgaagtatt	9	13	6	13	0	3	1	2	1	1	0	5	1	4	1	3	2	1	3	3	2	3	5			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr6:107070695C>A	uc003prj.2	-	2	901	c.424G>T	c.(424-426)GAG>TAG	p.E142*	RTN4IP1_uc010kdd.2_Nonsense_Mutation_p.E142*|RTN4IP1_uc003prk.2_Nonsense_Mutation_p.E42*	NM_032730	NP_116119	Q8WWV3	RT4I1_HUMAN	reticulon 4 interacting protein 1 precursor	142						mitochondrion	oxidoreductase activity|zinc ion binding				0	Breast(9;0.0107)|all_epithelial(6;0.14)	all_cancers(87;9.45e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.0144)	Epithelial(6;0.000873)|all cancers(7;0.00363)|BRCA - Breast invasive adenocarcinoma(8;0.00721)|OV - Ovarian serous cystadenocarcinoma(5;0.0394)	all cancers(137;0.113)|BRCA - Breast invasive adenocarcinoma(108;0.127)|Epithelial(106;0.144)		TAACTCACCTCATCTCCAGGC	0.323													7	11					0.00198382	0.00201531	1	1	0		A	107070695	A	A	107070695	4	1	207	1	0	0	0	0	0	1	0	0	13754	835	29	5	798	5	RTN4IP1	6	107070695	Nonsense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	96080667	107070695	64044372	22	100285											
STK31	56164	broad.mit.edu	37	chr7	23749944	23749944	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctagagcttccgcaacgGaaagtgtgaggtcagtagta	11	10	12	8	2	2	2	1	1	1	1	3	3	3	3	1	2	2	4	1	2	5	5			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr7:23749944G>T	uc003sws.3	+	1	107	c.40G>T	c.(40-42)GAA>TAA	p.E14*	STK31_uc003swt.3_5'UTR|STK31_uc011jze.1_Nonsense_Mutation_p.E14*|STK31_uc010kuq.2_5'Flank	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	14							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TTCCGCAACGGAAAGTGTGAG	0.557													7	34					0.00307968	0.00307968	1	1	0		T	23749944	T	T	23749944	4	4	207	1	0	0	0	0	0	1	0	0	15321	1175	41	5	42	5	STK31	7	23749944	Nonsense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		23749944	135388719	23	100286											
VWC2	375567	broad.mit.edu	37	chr7	49815107	49815107	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgcctgatggtggctCtgtgcagtccgagcatcccg	4	10	13	14	2	1	1	0	1	1	0	3	2	3	1	4	2	4	4	4	2	0	0			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr7:49815107C>A	uc003tot.1	+	2	632	c.76C>A	c.(76-78)CTG>ATG	p.L26M		NM_198570	NP_940972	Q2TAL6	VWC2_HUMAN	von Willebrand factor C domain containing 2	26					negative regulation of BMP signaling pathway|positive regulation of neuron differentiation	basement membrane|extracellular space					0						GATGGTGGCTCTGTGCAGTCC	0.642													5	10					0.000157383	0.000170721	1	1	0		A	49815107	A	A	49815107	3	1	207	1	0	0	0	0	1	0	0	0	17269	912	32	5	78	5	VWC2	7	49815107	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	26065163	49815107	109323556	24	100287											
ZNF425	155054	broad.mit.edu	37	chr7	148800964	148800964	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcacactccggacactGgaagggcttctccccgctgt	6	10	10	15	2	2	0	1	0	1	0	4	2	3	2	3	3	0	2	3	3	1	2			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr7:148800964G>T	uc003wfj.2	-	4	2072	c.1999C>A	c.(1999-2001)CAG>AAG	p.Q667K		NM_001001661	NP_001001661	Q6IV72	ZN425_HUMAN	zinc finger protein 425	667	C2H2-type 17.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)	3	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TCCGGACACTGGAAGGGCTTC	0.542													44	143					9.57592e-29	1.13492e-28	1	1	0		T	148800964	T	T	148800964	3	4	207	1	0	0	0	0	1	0	0	0	17924	1357	47	5	263	5	ZNF425	7	148800964	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	98985857	148800964	10337699	25	100288											
VENTX	27287	broad.mit.edu	37	chr10	135053262	135053262	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caggtccgcaccttggagggCgtcttccagcaccaccagta	8	7	11	15	2	1	0	0	0	1	0	3	1	3	1	5	3	1	3	5	3	1	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr10:135053262C>T	uc010quy.1	+	2	335	c.324C>T	c.(322-324)GGC>GGT	p.G108G		NM_014468	NP_055283	O95231	VENTX_HUMAN	VENT homeobox	108	Homeobox.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		CCTTGGAGGGCGTCTTCCAGC	0.557													16	43					0	0	1	0	0		T	135053262	T	T	135053262	2	4	207	1	0	0	0	0	0	0	0	1	17179	755	27	1		1	VENTX	10	135053262	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08		135053262	481485	26	100289											
MUC6	4588	broad.mit.edu	37	chr11	1019329	1019329	+	Frame_Shift_Del	DEL	G	-	-																															tggtagtgtcattgtggtccGtgttgtggactgagctgtgg																										TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr11:1019329delG	uc001lsw.2	-	30	4027	c.3976delC	c.(3976-3978)CGGfs	p.R1326fs		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1326	Pro-rich.|Thr-rich.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		ATTGTGGTCCGTGTTGTGGAC	0.637													43	59	---	---	---	---						.	-	1019329	-	-	1019329	7	5	207	1	0	1	0	1	0	0	0	0	9998	1144	40	0	3359	0	MUC6	11	1019329	Frame_Shift_Del	DEL	G	TCGA-HU-A4G2-01A-11D-A25D-08		1019329	133987187	27	100290											
IGF2	3481	broad.mit.edu	37	chr11	2154854	2154854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggaaacagcactcctcaaCgatgccacggctgcgacggc	10	4	12	15	5	1	0	1	0	0	0	2	3	2	1	2	3	5	2	2	3	2	0			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr11:2154854C>T	uc009yde.2	-	3	302	c.199G>A	c.(199-201)GTT>ATT	p.V67I	IGF2_uc001lvf.2_RNA|IGF2_uc001lvg.2_Missense_Mutation_p.V67I|IGF2_uc009ydf.2_Missense_Mutation_p.V123I|IGF2_uc001lvh.2_Missense_Mutation_p.V67I|INS-IGF2_uc001lvi.2_RNA	NM_001007139	NP_001007140	P01344	IGF2_HUMAN	insulin-like growth factor 2 isoform 1	67	A.				glucose metabolic process|ossification|phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling|positive regulation of activated T cell proliferation|positive regulation of cell division|positive regulation of glycogen (starch) synthase activity|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|skeletal system development	extracellular space	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|protein serine/threonine kinase activator activity|receptor activator activity			central_nervous_system(1)	1		all_epithelial(84;5.04e-06)|Breast(177;0.000777)|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;0.0179)|COAD - Colon adenocarcinoma(6;0.029)	BRCA - Breast invasive adenocarcinoma(625;1.09e-05)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		CACTCCTCAACGATGCCACGG	0.667													14	53					0	0	1	0	0		T	2154854	T	T	2154854	3	4	207	1	0	0	0	0	1	0	0	0	7588	536	19	1	351	1	IGF2	11	2154854	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	1135525	2154854	132851662	28	100291											
B3GAT3	26229	broad.mit.edu	37	chr11	62384806	62384806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggacagtcgtaccagctctgCcttctgtaccagcctgcagg	7	9	11	14	1	2	0	0	0	2	0	3	1	2	1	4	2	6	4	4	2	2	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr11:62384806C>T	uc001ntw.2	-	3	300	c.271G>A	c.(271-273)GCA>ACA	p.A91T	B3GAT3_uc009ynz.2_Missense_Mutation_p.A84T|B3GAT3_uc001ntx.2_RNA|B3GAT3_uc010rlz.1_Missense_Mutation_p.A91T	NM_012200	NP_036332	O94766	B3GA3_HUMAN	beta-1,3-glucuronyltransferase 3	91	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|manganese ion binding				0						ACCAGCTCTGCCTTCTGTACC	0.637													5	50					0	0	1	0	0		T	62384806	T	T	62384806	3	4	207	1	0	0	0	0	1	0	0	0	1256	739	26	2	748	2	B3GAT3	11	62384806	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	60229952	62384806	72621710	29	100292											
C12orf63	374467	broad.mit.edu	37	chr12	97082748	97082748	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gactgttgcattttgtctgcGttactctttcaggtaacact	7	17	8	9	1	3	0	1	0	2	0	3	1	3	0	0	1	4	4	0	1	2	6			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr12:97082748G>A	uc001tet.1	+	10	1422	c.1344G>A	c.(1342-1344)GCG>GCA	p.A448A		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	448										skin(6)|ovary(1)	7						TTTTGTCTGCGTTACTCTTTC	0.279													15	74					0	0	1	0	0		A	97082748	A	A	97082748	2	1	207	1	0	0	0	0	0	0	0	1	1709	1132	40	1		1	C12orf63	12	97082748	Silent	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		97082748	36769147	30	100293											
SPG20	23111	broad.mit.edu	37	chr13	36909408	36909408	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actccccagaatctgttccaTaggatacagtgtagtgacct	11	11	8	11	0	1	2	0	1	1	1	3	3	3	3	4	1	1	2	4	1	4	4			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr13:36909408T>C	uc001uvn.2	-	3	830	c.560A>G	c.(559-561)TAT>TGT	p.Y187C	SPG20_uc010ten.1_Missense_Mutation_p.Y187C|SPG20_uc001uvm.2_Missense_Mutation_p.Y187C|SPG20_uc001uvo.2_Missense_Mutation_p.Y187C|SPG20_uc001uvq.2_Missense_Mutation_p.Y187C|SPG20_uc001uvp.2_Missense_Mutation_p.Y187C	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	187					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		ATCTGTTCCATAGGATACAGT	0.478													55	23					0	0	1	0	0		C	36909408	C	C	36909408	3	2	207	1	0	0	0	0	1	0	0	0	15067	1406	49	3	1472	3	SPG20	13	36909408	Missense_Mutation	SNP	T	TCGA-HU-A4G2-01A-11D-A25D-08		36909408	78260470	31	100294											
MDGA2	161357	broad.mit.edu	37	chr14	47389321	47389321	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtctgttctgccatactGgattgtaggtatcataatag	9	15	11	6	0	3	0	1	0	2	0	3	1	3	1	1	3	2	3	1	3	5	7			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr14:47389321G>T	uc001wwj.3	-	10	2121	c.1925C>A	c.(1924-1926)CCA>CAA	p.P642Q	MDGA2_uc001wwi.3_Missense_Mutation_p.P413Q|MDGA2_uc010ani.2_Missense_Mutation_p.P202Q	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	642					spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CTGCCATACTGGATTGTAGGT	0.408													30	50					1.75199e-13	2.00227e-13	1	1	0		T	47389321	T	T	47389321	3	4	207	1	0	0	0	0	1	0	0	0	9425	1348	47	5	977	5	MDGA2	14	47389321	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		47389321	59960219	32	100295											
SERPINA9	327657	broad.mit.edu	37	chr14	94936109	94936109	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgcactgggggcattggcCggggacacacagtagattgg	9	8	16	8	1	0	1	0	0	0	1	0	2	0	2	1	6	1	3	1	6	2	4			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr14:94936109C>T	uc001ydf.2	-	2	284	c.123G>A	c.(121-123)CCG>CCA	p.P41P	SERPINA9_uc001yde.2_Silent_p.P41P|SERPINA9_uc010avc.2_Intron|SERPINA9_uc001ydg.2_Intron|SERPINA9_uc001ydh.1_Silent_p.P41P|SERPINA9_uc001ydi.1_Intron	NM_175739	NP_783866	Q86WD7	SPA9_HUMAN	serine (or cysteine) proteinase inhibitor, clade	23				P -> L (in Ref. 1; AAO65242/AAO65243 and 3; AAQ89063).	regulation of proteolysis	cytoplasm|extracellular region|membrane	serine-type endopeptidase inhibitor activity			lung(1)|central_nervous_system(1)	2		all_cancers(154;0.0691)|all_epithelial(191;0.233)		Epithelial(152;0.144)|COAD - Colon adenocarcinoma(157;0.224)|all cancers(159;0.24)		GGGCATTGGCCGGGGACACAC	0.517													29	50					0	0	1	0	0		T	94936109	T	T	94936109	2	4	207	1	0	0	0	0	0	0	0	1	14120	639	23	1		1	SERPINA9	14	94936109	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	47546788	94936109	12413431	33	100296											
KLC1	3831	broad.mit.edu	37	chr14	104142035	104142035	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttataatttagggaaagcaaAaggatgggacatcttttgga	15	12	11	3	0	1	0	0	0	1	0	1	4	1	4	0	4	1	1	0	4	6	6			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr14:104142035A>G	uc001yno.2	+	11	1629	c.1321A>G	c.(1321-1323)AAG>GAG	p.K441E	KLC1_uc010tyd.1_Missense_Mutation_p.K600E|KLC1_uc010tye.1_Missense_Mutation_p.K437E|KLC1_uc001ynm.1_Missense_Mutation_p.K441E|KLC1_uc001ynn.1_Missense_Mutation_p.K435E|KLC1_uc010tyf.1_Missense_Mutation_p.K441E|KLC1_uc001ynp.1_RNA|KLC1_uc001ynr.1_5'UTR|KLC1_uc010awu.1_RNA|KLC1_uc001ynq.1_5'UTR|KLC1_uc001yns.2_RNA	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2	441					blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				GGGAAAGCAAAAGGATGGGAC	0.328													25	73					0	0	1	0	0		G	104142035	G	G	104142035	3	3	207	1	0	0	0	0	1	0	0	0	8349	15	1	3	1359	3	KLC1	14	104142035	Missense_Mutation	SNP	A	TCGA-HU-A4G2-01A-11D-A25D-08	9205926	104142035	3207505	34	100297											
JAG2	3714	broad.mit.edu	37	chr14	105615648	105615648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggcttggctcacaaaggtCgacatccacctgcagggtgg	8	7	15	11	1	1	0	1	0	0	0	3	1	2	0	2	6	1	3	2	6	1	1	rs9972231	byFrequency	TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr14:105615648C>T	uc001yqg.2	-	13	2016	c.1612G>A	c.(1612-1614)GAC>AAC	p.D538N	JAG2_uc010axf.2_5'Flank|JAG2_uc001yqf.2_5'UTR|JAG2_uc001yqh.2_Missense_Mutation_p.D500N	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	538	EGF-like 9.|Extracellular (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding	p.D538N(1)		lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		TCACAAAGGTCGACATCCACC	0.622													7	109					0	0	1	0	0		T	105615648	T	T	105615648	3	4	207	1	0	0	0	0	1	0	0	0	7951	884	31	1	2160	1	JAG2	14	105615648	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	1473613	105615648	1733892	35	100298											
TCF12	6938	broad.mit.edu	37	chr15	57545542	57545543	+	Frame_Shift_Ins	INS	-	T	T																															gctgtgggaccttccaccagINStttgcctgctggtcacagtg																										TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr15:57545542_57545543insT	uc002aec.2	+	15	1555_1556	c.1271_1272insT	c.(1270-1272)AGTfs	p.S424fs	TCF12_uc010ugm.1_Frame_Shift_Ins_p.S476fs|TCF12_uc010ugn.1_Frame_Shift_Ins_p.S444fs|TCF12_uc002aea.2_Frame_Shift_Ins_p.S448fs|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Frame_Shift_Ins_p.S448fs|TCF12_uc002aed.2_Frame_Shift_Ins_p.S424fs|TCF12_uc002aee.2_Frame_Shift_Ins_p.S254fs|TCF12_uc010bft.2_Frame_Shift_Ins_p.S278fs|TCF12_uc010ugo.1_Frame_Shift_Ins_p.S188fs|TCF12_uc010ugp.1_Frame_Shift_Ins_p.S82fs|TCF12_uc010ugq.1_Frame_Shift_Ins_p.S58fs|TCF12_uc010ugr.1_Frame_Shift_Ins_p.S37fs	NM_207038	NP_996921	Q99081	HTF4_HUMAN	transcription factor 12 isoform b	424					immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)		CCTTCCACCAGTTTGCCTGCTG	0.45			T	TEC	extraskeletal myxoid chondrosarcoma								30	59	---	---	---	---						.	T	57545543	T	T	57545542	7	5	207	1	0	1	1	0	0	0	0	0	15712	1029	36	0	1474	0	TCF12	15	57545542	Frame_Shift_Ins	INS	-	TCGA-HU-A4G2-01A-11D-A25D-08		57545542	44985850	36	100299											
VPS13C	54832	broad.mit.edu	37	chr15	62204164	62204164	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagtcagggtaactattcGtgaaaggttgaaactgctca	12	10	13	6	1	2	2	2	2	0	0	3	3	2	3	0	3	3	3	0	3	4	4			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr15:62204164G>A	uc002agz.2	-	63	8664	c.8590C>T	c.(8590-8592)CGA>TGA	p.R2864*	VPS13C_uc002aha.2_Nonsense_Mutation_p.R2821*|VPS13C_uc002ahb.1_Nonsense_Mutation_p.R2864*|VPS13C_uc002ahc.1_Nonsense_Mutation_p.R2821*|VPS13C_uc002ahd.1_Nonsense_Mutation_p.R241*	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	2864					protein localization					ovary(2)	2						GTAACTATTCGTGAAAGGTTG	0.363													24	50					0	0	1	0	0		A	62204164	A	A	62204164	4	1	207	1	0	0	0	0	0	1	0	0	17217	1153	40	1	2791	1	VPS13C	15	62204164	Nonsense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	4658622	62204164	40327228	37	100300											
IRF8	3394	broad.mit.edu	37	chr16	85948095	85948095	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggcgtgccgctggtgacGgggtacaccacctacgacgc	7	5	15	14	5	0	1	0	1	0	0	0	2	0	1	3	4	3	3	3	4	2	2			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr16:85948095G>A	uc002fjh.2	+	6	627	c.570G>A	c.(568-570)ACG>ACA	p.T190T	IRF8_uc010chp.2_Intron	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	190					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			breast(2)|ovary(1)	3		Prostate(104;0.0771)				CGCTGGTGACGGGGTACACCA	0.587													15	41					0	0	1	0	0		A	85948095	A	A	85948095	2	1	207	1	0	0	0	0	0	0	0	1	7852	1103	39	1		1	IRF8	16	85948095	Silent	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		85948095	4406658	38	100301											
SMYD4	114826	broad.mit.edu	37	chr17	1690239	1690239	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagcttctgctgcctttcGgcaacccccatccggctctt	4	12	7	18	2	3	0	1	0	2	0	5	0	4	0	4	2	4	4	4	2	1	3	rs140685899		TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr17:1690239G>A	uc002ftm.3	-	7	1917	c.1749C>T	c.(1747-1749)GCC>GCT	p.A583A	SMYD4_uc002ftn.1_Silent_p.A438A	NM_052928	NP_443160	Q8IYR2	SMYD4_HUMAN	SET and MYND domain containing 4	583							zinc ion binding			skin(3)|kidney(2)	5						GCTGCCTTTCGGCAACCCCCA	0.537													12	35					0	0	1	0	0		A	1690239	A	A	1690239	2	1	207	1	0	0	0	0	0	0	0	1	14849	1103	39	1		1	SMYD4	17	1690239	Silent	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		1690239	79504971	39	100302											
TANC2	26115	broad.mit.edu	37	chr17	61417589	61417589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatcgggagcagcttcttcGggaacctcacctgcagagca	9	8	11	13	2	2	1	1	0	1	1	4	3	2	3	2	2	5	4	2	2	2	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr17:61417589G>A	uc002jal.3	+	10	1504	c.1481G>A	c.(1480-1482)CGG>CAG	p.R494Q	TANC2_uc010wpe.1_Missense_Mutation_p.R404Q	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	494							binding			ovary(2)	2						CAGCTTCTTCGGGAACCTCAC	0.547													11	96					0	0	1	0	0		A	61417589	A	A	61417589	3	1	207	1	0	0	0	0	1	0	0	0	15570	1116	39	1	1519	1	TANC2	17	61417589	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	59727350	61417589	19777621	40	100303											
SMAD4	4089	broad.mit.edu	37	chr18	48593397	48593397	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttcctaaggttgcacaTaggcaaaggtgtgcagttgg	9	13	12	7	0	1	0	0	0	1	0	2	0	2	0	1	4	2	5	1	4	3	6			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr18:48593397T>G	uc010xdp.1	+	10	1686	c.1148T>G	c.(1147-1149)ATA>AGA	p.I383R	SMAD4_uc002lfb.3_Missense_Mutation_p.I228R	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	383	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)|p.I383K(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		AGGTTGCACATAGGCAAAGGT	0.343									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				24	45					0	0	1	0	0		G	48593397	G	G	48593397	3	3	207	1	0	0	0	0	1	0	0	0	14785	1406	49	5	1182	5	SMAD4	18	48593397	Missense_Mutation	SNP	T	TCGA-HU-A4G2-01A-11D-A25D-08		48593397	29483851	41	100304											
CDH7	1005	broad.mit.edu	37	chr18	63477134	63477134	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaacaaacccgtggagccCgagtcggagtttgtcatcaa	12	7	10	12	3	2	0	2	0	0	0	3	3	2	2	3	2	3	1	3	2	3	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr18:63477134C>T	uc002ljz.2	+	3	730	c.405C>T	c.(403-405)CCC>CCT	p.P135P	CDH7_uc002lka.2_Silent_p.P135P|CDH7_uc002lkb.2_Silent_p.P135P	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	135	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4		Esophageal squamous(42;0.129)				CCGTGGAGCCCGAGTCGGAGT	0.527													25	79					0	0	1	0	0		T	63477134	T	T	63477134	2	4	207	1	0	0	0	0	0	0	0	1	3118	639	23	1		1	CDH7	18	63477134	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	14883737	63477134	14600114	42	100305											
CDH19	28513	broad.mit.edu	37	chr18	64172357	64172357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagcgcttgtggttttccGagtcttgcgttcccgcatta	4	15	10	12	4	2	0	1	0	1	0	4	1	4	0	2	1	2	4	2	1	1	6			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr18:64172357G>A	uc002lkc.1	-	12	2149	c.2011C>T	c.(2011-2013)CGG>TGG	p.R671W	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_3'UTR	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	671	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				GTGGTTTTCCGAGTCTTGCGT	0.468													40	140					0	0	1	0	0		A	64172357	A	A	64172357	3	1	207	1	0	0	0	0	1	0	0	0	3107	1057	37	1	311	1	CDH19	18	64172357	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	695223	64172357	13904891	43	100306											
MUC16	94025	broad.mit.edu	37	chr19	9086045	9086045	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgtttccaggagtggaagTcaaagtggtctctgctccag	8	11	12	10	0	2	0	1	0	1	0	5	2	4	2	3	3	1	2	3	3	2	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:9086045T>C	uc002mkp.2	-	1	5974	c.5770A>G	c.(5770-5772)ACT>GCT	p.T1924A		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1924	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GGAGTGGAAGTCAAAGTGGTC	0.478													5	36					0	0	1	0	0		C	9086045	C	C	9086045	3	2	207	1	0	0	0	0	1	0	0	0	9991	1667	58	3	38089	3	MUC16	19	9086045	Missense_Mutation	SNP	T	TCGA-HU-A4G2-01A-11D-A25D-08		9086045	50042938	44	100307											
COL5A3	50509	broad.mit.edu	37	chr19	10097410	10097410	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttctcgcctttctccccctGgaggccccggttgcctgaag	3	11	10	17	2	2	1	0	1	2	0	4	2	2	2	6	3	1	1	6	3	1	3			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:10097410G>A	uc002mmq.1	-	28	2256	c.2170C>T	c.(2170-2172)CAG>TAG	p.Q724*		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	724	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			TTCTCCCCCTGGAGGCCCCGG	0.547													68	112					0	0	1	0	0		A	10097410	A	A	10097410	4	1	207	1	0	0	0	0	0	1	0	0	3701	1357	47	4	3227	4	COL5A3	19	10097410	Nonsense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08	1011365	10097410	49031573	45	100308											
GCDH	2639	broad.mit.edu	37	chr19	13008171	13008171	+	Silent	SNP	A	G	G	1	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	ctgattcagaagaagctggcAgacatgctcactgagattac	13	9	10	9	0	2	5	2	2	0	4	2	6	2	5	0	1	3	3	0	1	3	2	rs2229460	byFrequency	TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:13008171A>G	uc002mvq.2	+	10	1088	c.1011A>G	c.(1009-1011)GCA>GCG	p.A337A	GCDH_uc010xms.1_Silent_p.A304A|GCDH_uc002mvp.2_Silent_p.A337A|GCDH_uc010xmt.1_Silent_p.A171A|GCDH_uc010xmu.1_Silent_p.A293A	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a	337					lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						AGAAGCTGGCAGACATGCTCA	0.617													4	45					0	0	1	0	0		G	13008171	G	G	13008171	2	3	207	1	0	0	0	0	0	0	0	1	6302	175	7	3		3	GCDH	19	13008171	Silent	SNP	A	TCGA-HU-A4G2-01A-11D-A25D-08	2910761	13008171	46120812	46	100309											
EMR3	84658	broad.mit.edu	37	chr19	14749084	14749084	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagaggtgcacaccctcCagcagcatccaggtgaaggc	12	4	13	12	0	0	2	0	1	0	1	2	3	2	3	3	4	3	3	3	4	2	0			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:14749084C>T	uc002mzi.3	-	11	1465	c.1317G>A	c.(1315-1317)CTG>CTA	p.L439L	EMR3_uc010dzp.2_Silent_p.L387L|EMR3_uc010xnv.1_Silent_p.L313L	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	439	Cytoplasmic (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						GCACACCCTCCAGCAGCATCC	0.557													22	77					0	0	1	0	0		T	14749084	T	T	14749084	2	4	207	1	0	0	0	0	0	0	0	1	5114	581	21	4		4	EMR3	19	14749084	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	1740913	14749084	44379899	47	100310											
UNC13A	23025	broad.mit.edu	37	chr19	17760371	17760371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcggatgtctggcatgctgtCgatgatgatgagaccgcccc	7	9	14	11	3	1	3	0	3	1	1	2	6	1	4	3	2	1	2	3	2	0	0			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:17760371C>T	uc002nhd.2	-	14	1729	c.1729G>A	c.(1729-1731)GAC>AAC	p.D577N		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	489					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GGCATGCTGTCGATGATGATG	0.507													37	104					0	0	1	0	0		T	17760371	T	T	17760371	3	4	207	1	0	0	0	0	1	0	0	0	17010	884	31	1	3766	1	UNC13A	19	17760371	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	3011287	17760371	41368612	48	100311											
ZNF257	113835	broad.mit.edu	37	chr19	22271562	22271562	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttactcgacataagatgaTtcatactggagagaaaccct	14	10	7	10	1	1	3	1	1	0	2	2	6	1	4	2	1	3	0	2	1	4	4			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:22271562T>C	uc010ecx.2	+	4	1179	c.1010T>C	c.(1009-1011)ATT>ACT	p.I337T	ZNF257_uc010ecy.2_Missense_Mutation_p.I305T	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	337	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				CATAAGATGATTCATACTGGA	0.398													4	44					0	0	1	0	0		C	22271562	C	C	22271562	3	2	207	1	0	0	0	0	1	0	0	0	17825	1493	52	3	1024	3	ZNF257	19	22271562	Missense_Mutation	SNP	T	TCGA-HU-A4G2-01A-11D-A25D-08	4511191	22271562	36857421	49	100312											
DLL3	10683	broad.mit.edu	37	chr19	39998562	39998562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctacgctcgggaggtagcgaCgccccttttccccccgctac	5	8	10	18	5	0	0	0	0	0	0	2	2	1	1	5	2	3	3	5	2	3	5			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:39998562C>T	uc002olx.2	+	8	1824	c.1766C>T	c.(1765-1767)ACG>ATG	p.T589M	DLL3_uc002olw.2_Intron	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	589	Cytoplasmic (Potential).				Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(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;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			GAGGTAGCGACGCCCCTTTTC	0.557													11	50					0	0	1	0	0		T	39998562	T	T	39998562	3	4	207	1	0	0	0	0	1	0	0	0	4573	536	19	1	1796	1	DLL3	19	39998562	Missense_Mutation	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	17727000	39998562	19130421	50	100313											
NLRP7	199713	broad.mit.edu	37	chr19	55451629	55451629	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatacactttttggccagCgtggttttccccacgcctgc	6	12	9	14	2	0	0	0	0	0	0	1	0	1	0	4	2	4	2	4	2	1	5			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:55451629C>T	uc002qih.3	-	4	634	c.558G>A	c.(556-558)ACG>ACA	p.T186T	NLRP7_uc002qig.3_Silent_p.T186T|NLRP7_uc002qii.3_Silent_p.T186T|NLRP7_uc010esk.2_Silent_p.T186T|NLRP7_uc010esl.2_Silent_p.T214T	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	186	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		TTTTGGCCAGCGTGGTTTTCC	0.577													31	88					0	0	1	0	0		T	55451629	T	T	55451629	2	4	207	1	0	0	0	0	0	0	0	1	10501	755	27	1		1	NLRP7	19	55451629	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	15453067	55451629	3677354	51	100314											
ZNF667	63934	broad.mit.edu	37	chr19	56953317	56953317	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctctgaagtgtgaattctCtggtgaagcatcaggggtga	9	13	13	6	0	3	4	1	4	2	0	5	4	3	4	0	3	1	1	0	3	3	2			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr19:56953317C>T	uc002qnd.2	-	5	1209	c.1047G>A	c.(1045-1047)CAG>CAA	p.Q349Q	ZNF667_uc010etl.2_Silent_p.Q131Q|ZNF667_uc002qne.2_Silent_p.Q349Q|ZNF667_uc010etm.2_Silent_p.Q292Q	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	349	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		TGTGAATTCTCTGGTGAAGCA	0.378													8	134					0	0	1	0	0		T	56953317	T	T	56953317	2	4	207	1	0	0	0	0	0	0	0	1	18099	912	32	4		4	ZNF667	19	56953317	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08	1501688	56953317	2175666	52	100315											
CHRNA4	1137	broad.mit.edu	37	chr20	61981063	61981063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtactggacgccctccaccGcccgggtcagggccggcgac	5	5	14	17	5	1	0	1	0	0	0	2	2	2	1	5	4	1	1	5	4	1	1	rs76895198		TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr20:61981063G>A	uc002yes.2	-	5	1878	c.1700C>T	c.(1699-1701)GCG>GTG	p.A567V	CHRNA4_uc002yet.1_Missense_Mutation_p.A391V|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.A496V|CHRNA4_uc002yev.1_Missense_Mutation_p.A391V|CHRNA4_uc010gkf.1_Missense_Mutation_p.A391V	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	567	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GCCCTCCACCGCCCGGGTCAG	0.672													35	84					0	0	1	0	0		A	61981063	A	A	61981063	3	1	207	1	0	0	0	0	1	0	0	0	3388	1087	38	1	191	1	CHRNA4	20	61981063	Missense_Mutation	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		61981063	1044457	53	100316											
APP	351	broad.mit.edu	37	chr21	27264121	27264121	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtcgctatgacaacaccGcccaccatgagtccaatgat	12	8	7	14	2	0	3	0	3	0	0	2	3	1	3	4	0	1	1	4	0	3	1	rs148888161	byFrequency	TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr21:27264121G>A	uc002ylz.2	-	17	2324	c.2124C>T	c.(2122-2124)GGC>GGT	p.G708G	APP_uc011acg.1_Silent_p.G216G|APP_uc010glk.2_Silent_p.G684G|APP_uc002yma.2_Silent_p.G689G|APP_uc011ach.1_Silent_p.G652G|APP_uc002ymb.2_Silent_p.G633G|APP_uc010glj.2_Silent_p.G577G|APP_uc011aci.1_Silent_p.G598G	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	708	Helical; (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				TGACAACACCGCCCACCATGA	0.403													19	43					0	0	1	0	0		A	27264121	A	A	27264121	2	1	207	1	0	0	0	0	0	0	0	1	815	1074	38	1		1	APP	21	27264121	Silent	SNP	G	TCGA-HU-A4G2-01A-11D-A25D-08		27264121	20865774	54	100317											
IL17RA	23765	broad.mit.edu	37	chr22	17589441	17589441	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagagcaactctaagatcatCgtcctgtgctcccgcggcac	9	8	10	14	3	2	2	1	0	1	2	5	3	4	2	2	1	3	3	2	1	2	1			TCGA-HU-A4G2-01A-11D-A25D-08	TCGA-HU-A4G2-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	081af5fd-49ba-4fe3-bebb-a190369fcf46	288dfcd7-431b-47e5-b7ed-9ef1e3eb46ba	g.chr22:17589441C>T	uc002zly.2	+	13	1465	c.1332C>T	c.(1330-1332)ATC>ATT	p.I444I	IL17RA_uc010gqt.2_Silent_p.I392I	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	444	Cytoplasmic (Potential).|SEFIR.				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CTAAGATCATCGTCCTGTGCT	0.687													20	49					0	0	1	0	0		T	17589441	T	T	17589441	2	4	207	1	0	0	0	0	0	0	0	1	7655	874	31	1		1	IL17RA	22	17589441	Silent	SNP	C	TCGA-HU-A4G2-01A-11D-A25D-08		17589441	33715125	55	100318											
FBLIM1	54751	broad.mit.edu	37	chr1	16101285	16101285	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggtgtactgcctggacgactTctacaggtacgagaagggtt	9	10	14	8	2	1	1	0	0	1	1	1	4	1	2	1	4	4	3	1	4	4	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:16101285T>G	uc001axd.1	+	8	1327	c.884T>G	c.(883-885)TTC>TGC	p.F295C	FBLIM1_uc001axe.1_Missense_Mutation_p.F295C|FBLIM1_uc001axf.2_RNA|FBLIM1_uc001axg.1_Missense_Mutation_p.F295C|FBLIM1_uc001axh.1_Missense_Mutation_p.F198C|FBLIM1_uc001axi.1_Missense_Mutation_p.F198C	NM_017556	NP_060026	Q8WUP2	FBLI1_HUMAN	filamin-binding LIM protein-1 isoform a	295	PLEKHC1-binding.|LIM zinc-binding 2.				cell adhesion|cell junction assembly|regulation of cell shape	cell cortex|cytoskeleton|cytosol|focal adhesion|intracellular membrane-bounded organelle	zinc ion binding			skin(1)	1		Colorectal(325;0.000257)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.56e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|READ - Rectum adenocarcinoma(331;0.0649)|STAD - Stomach adenocarcinoma(313;0.138)		CTGGACGACTTCTACAGGTAC	0.622													7	81					0	0	0.02938	0	0		G	16101285	G	G	16101285	3	3	208	1	0	0	0	0	1	0	0	0	5711	1783	62	5	902	5	FBLIM1	1	16101285	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08		16101285	233149336	1	100319											
MRTO4	51154	broad.mit.edu	37	chr1	19583562	19583562	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttctcttgcttggtaggatgTtctttggcaaaaacaaggtg	9	15	11	6	0	2	0	0	0	2	0	3	1	2	1	0	4	2	4	0	4	4	6			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:19583562T>A	uc001bbs.2	+	4	451	c.196T>A	c.(196-198)TTC>ATC	p.F66I		NM_016183	NP_057267	Q9UKD2	MRT4_HUMAN	mRNA turnover 4 homolog	66					ribosome biogenesis	nuclear membrane|nucleolus					0		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;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.87e-05)|Kidney(64;0.000171)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|GBM - Glioblastoma multiforme(114;0.00301)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TGGTAGGATGTTCTTTGGCAA	0.537													120	102					0	0	0.048971	0	0		A	19583562	A	A	19583562	3	1	208	1	0	0	0	0	1	0	0	0	9870	1725	60	5	210	5	MRTO4	1	19583562	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	3482277	19583562	229667059	2	100320											
PPIE	10450	broad.mit.edu	37	chr1	40208945	40208945	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttggccaaaccaatgagaAttaaggaaggctcttccagg	14	9	10	8	0	1	1	0	1	1	1	2	3	2	2	3	4	1	1	3	4	5	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:40208945A>G	uc001cds.1	+	5	302	c.259A>G	c.(259-261)ATT>GTT	p.I87V	PPIE_uc001cdt.1_Missense_Mutation_p.I21V|PPIE_uc010oiy.1_Missense_Mutation_p.I21V|PPIE_uc001cdu.1_RNA|PPIE_uc001cdv.2_Missense_Mutation_p.I87V|PPIE_uc001cdw.2_Missense_Mutation_p.I87V|PPIE_uc001cdx.1_Missense_Mutation_p.I3V	NM_006112	NP_006103	Q9UNP9	PPIE_HUMAN	peptidylprolyl isomerase E isoform 1	87					protein folding|regulation of transcription, DNA-dependent	catalytic step 2 spliceosome	cyclosporin A binding|nucleotide binding|peptidyl-prolyl cis-trans isomerase activity|protein binding|RNA binding				0	all_cancers(7;1.63e-13)|all_lung(5;2.27e-16)|all_epithelial(6;1.35e-15)|Lung NSC(20;1.49e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;2.7e-17)|all cancers(16;5.5e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			ACCAATGAGAATTAAGGAAGG	0.408													5	49					0	0	0.021553	0	0		G	40208945	G	G	40208945	3	3	208	1	0	0	0	0	1	0	0	0	12344	101	4	3	277	3	PPIE	1	40208945	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	20625383	40208945	209041676	3	100321											
RBMXL1	494115	broad.mit.edu	37	chr1	89448701	89448701	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttggatgatctgaatagtcaCgatcacgaccatatccatct	12	12	7	10	2	4	2	2	2	2	0	5	5	5	3	2	1	0	0	2	1	3	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:89448701C>T	uc009wcx.2	-	3	1525	c.809G>A	c.(808-810)CGT>CAT	p.R270H	CCBL2_uc001dmp.2_Intron|CCBL2_uc001dmq.2_Intron|CCBL2_uc001dmr.2_Intron|RBMXL1_uc001dms.2_Missense_Mutation_p.R270H	NM_001162536	NP_001156008	Q96E39	RBMXL_HUMAN	RNA binding motif protein, X-linked-like 1	270							nucleotide binding|RNA binding				0						TGAATAGTCACGATCACGACC	0.468													53	125					0	0	0.048971	0	0		T	89448701	T	T	89448701	3	4	208	1	0	0	0	0	1	0	0	0	13178	536	19	1	367	1	RBMXL1	1	89448701	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	49239756	89448701	159801920	4	100322											
NBPF9	400818	broad.mit.edu	37	chr1	144619399	144619399	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgaggaggatgagaaagtGcagaaatcatctgcccccag	13	7	13	8	0	2	3	1	2	1	2	2	6	2	5	2	2	2	2	2	2	2	1	rs4067645	by1000genomes	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:144619399G>A	uc009wig.1	+	7	622	c.546G>A	c.(544-546)GTG>GTA	p.V182V	NBPF9_uc010oxn.1_Intron|NBPF9_uc010oxo.1_Silent_p.V182V|NBPF9_uc010oxr.1_Intron|NBPF9_uc010oxt.1_Intron|NBPF9_uc001ekg.1_Intron|NBPF9_uc001ekk.1_Intron|NBPF10_uc009wir.2_Intron|NBPF9_uc010oyd.1_Intron|NBPF9_uc010oye.1_Silent_p.V113V|NBPF9_uc001eli.3_RNA|NBPF9_uc010oyf.1_Silent_p.V113V|NBPF9_uc010oyg.1_Silent_p.V147V|NBPF9_uc009wii.1_Intron	NM_001037675	NP_001032764	Q3BBV1	NBPFK_HUMAN	hypothetical protein LOC400818	182	NBPF 1.					cytoplasm					0						ATGAGAAAGTGCAGAAATCAT	0.413													9	154					0	0	0.069234	0	0		A	144619399	A	A	144619399	2	1	208	1	0	0	0	0	0	0	0	1	10218	1306	46	2		2	NBPF9	1	144619399	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	55170698	144619399	104631222	5	100323											
ECM1	1893	broad.mit.edu	37	chr1	150483401	150483401	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	catccagaacctgagtcctgGaatgcagcccagcactgcca	11	6	9	15	0	0	2	0	1	0	1	2	3	2	3	5	1	5	2	5	1	2	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:150483401G>A	uc001eus.2	+	6	634	c.435G>A	c.(433-435)TGG>TGA	p.W145*	ECM1_uc010pce.1_Nonsense_Mutation_p.W74*|ECM1_uc010pcf.1_Nonsense_Mutation_p.W67*|ECM1_uc001eut.2_Nonsense_Mutation_p.W145*|ECM1_uc001euu.2_Nonsense_Mutation_p.W174*|ECM1_uc001euv.2_Nonsense_Mutation_p.W172*|ECM1_uc009wlu.2_5'UTR	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	145					angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	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;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CTGAGTCCTGGAATGCAGCCC	0.617													61	296					0	0	0.048971	0	0		A	150483401	A	A	150483401	4	1	208	1	0	0	0	0	0	1	0	0	4903	1183	41	4	457	4	ECM1	1	150483401	Nonsense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	5864002	150483401	98767220	6	100324			1	45		6	6	901	G		1.466436e-15
ECM1	1893	broad.mit.edu	37	chr1	150483459	150483459	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ggggctggggccaccggctgGatggcttcccccctgggcgg	2	6	19	14	2	0	0	0	0	0	0	1	1	1	1	5	9	0	3	5	9	0	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:150483459G>C	uc001eus.2	+	6	692	c.493G>C	c.(493-495)GAT>CAT	p.D165H	ECM1_uc010pce.1_Missense_Mutation_p.D94H|ECM1_uc010pcf.1_Missense_Mutation_p.D87H|ECM1_uc001eut.2_Missense_Mutation_p.D165H|ECM1_uc001euu.2_Missense_Mutation_p.D194H|ECM1_uc001euv.2_Missense_Mutation_p.D192H|ECM1_uc009wlu.2_5'UTR	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	165	2 X approximate repeats.|1.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	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;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CCACCGGCTGGATGGCTTCCC	0.602													79	409					0	0	0.048971	0	0		C	150483459	C	C	150483459	3	2	208	1	0	0	0	0	1	0	0	0	4903	1174	41	5	515	5	ECM1	1	150483459	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	58	150483459	98767162	7	100325			1	45		6	6	901	G		1.466436e-15
ECM1	1893	broad.mit.edu	37	chr1	150483497	150483497	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggccttctccagacaatctGaaccaaatctgccttcctaa	11	10	5	15	1	3	2	0	1	3	1	5	2	4	2	5	1	2	0	5	1	4	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:150483497G>A	uc001eus.2	+	6	730	c.531G>A	c.(529-531)CTG>CTA	p.L177L	ECM1_uc010pce.1_Silent_p.L106L|ECM1_uc010pcf.1_Silent_p.L99L|ECM1_uc001eut.2_Silent_p.L177L|ECM1_uc001euu.2_Silent_p.L206L|ECM1_uc001euv.2_Silent_p.L204L|ECM1_uc009wlu.2_5'UTR	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	177	2 X approximate repeats.|1.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	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;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CAGACAATCTGAACCAAATCT	0.617													79	434					0	0	0.048971	0	0		A	150483497	A	A	150483497	2	1	208	1	0	0	0	0	0	0	0	1	4903	1277	45	4		4	ECM1	1	150483497	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	38	150483497	98767124	8	100326			1	45		6	6	901	G		1.466436e-15
ECM1	1893	broad.mit.edu	37	chr1	150483588	150483588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccacctcactcgccagggtGagaccctcaatttcctggag	8	8	9	16	1	2	1	2	1	0	1	4	3	3	2	5	2	0	0	5	2	1	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:150483588G>A	uc001eus.2	+	6	821	c.622G>A	c.(622-624)GAG>AAG	p.E208K	ECM1_uc010pce.1_Missense_Mutation_p.E137K|ECM1_uc010pcf.1_Missense_Mutation_p.E130K|ECM1_uc001eut.2_Missense_Mutation_p.E208K|ECM1_uc001euu.2_Missense_Mutation_p.E237K|ECM1_uc001euv.2_Missense_Mutation_p.E235K|ECM1_uc009wlu.2_5'UTR	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	208	2 X approximate repeats.|1.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	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;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TCGCCAGGGTGAGACCCTCAA	0.537													85	418					0	0	0.048971	0	0		A	150483588	A	A	150483588	3	1	208	1	0	0	0	0	1	0	0	0	4903	1291	45	4	644	4	ECM1	1	150483588	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	91	150483588	98767033	9	100327			1	45		6	6	901	G		1.466436e-15
ECM1	1893	broad.mit.edu	37	chr1	150484238	150484238	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaagggagctgctggcactGatccagctggagagggagtt	10	7	16	8	0	0	2	0	1	0	1	1	5	1	4	1	4	3	5	1	4	1	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:150484238G>A	uc001eus.2	+	7	1213	c.1014G>A	c.(1012-1014)CTG>CTA	p.L338L	ECM1_uc001eut.2_Intron|ECM1_uc001euu.2_Silent_p.L367L|ECM1_uc001euv.2_Silent_p.L365L|ECM1_uc009wlu.2_Silent_p.L98L	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	338	2 X approximate repeats.|2.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	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;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			TGCTGGCACTGATCCAGCTGG	0.602													30	109					0	0	0.034045	0	0		A	150484238	A	A	150484238	2	1	208	1	0	0	0	0	0	0	0	1	4903	1277	45	4		4	ECM1	1	150484238	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	650	150484238	98766383	10	100328			1	45		6	6	901	G		1.466436e-15
ECM1	1893	broad.mit.edu	37	chr1	150484301	150484301	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacaatcacacctgtacatgGaaggccgtaagtgggcgtcc	12	7	11	11	2	1	0	1	0	0	0	2	1	2	1	3	3	2	2	3	3	5	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:150484301G>T	uc001eus.2	+	7	1276	c.1077G>T	c.(1075-1077)TGG>TGT	p.W359C	ECM1_uc001eut.2_Intron|ECM1_uc001euu.2_Missense_Mutation_p.W388C|ECM1_uc001euv.2_Missense_Mutation_p.W386C|ECM1_uc009wlu.2_Missense_Mutation_p.W119C	NM_004425	NP_004416	Q16610	ECM1_HUMAN	extracellular matrix protein 1 isoform 1	359	2 X approximate repeats.|2.				angiogenesis|biomineral tissue development|negative regulation of bone mineralization|negative regulation of peptidase activity|ossification|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade	proteinaceous extracellular matrix	laminin binding|protease binding|protein C-terminus binding|signal transducer activity			ovary(2)|central_nervous_system(1)	3	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;0.0757)|all cancers(9;1.29e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)			CCTGTACATGGAAGGCCGTAA	0.612													28	101					4.87955e-14	5.23835e-14	0.108266	1	0		T	150484301	T	T	150484301	3	4	208	1	0	0	0	0	1	0	0	0	4903	1183	41	5	1103	5	ECM1	1	150484301	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	63	150484301	98766320	11	100329			1	45		6	6	901	G		1.466436e-15
ATP8B2	57198	broad.mit.edu	37	chr1	154316453	154316453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acgaggagtgggctgagcgaCgcctccaggccagcctggcc	7	4	16	14	3	0	1	0	1	0	0	1	4	1	2	5	4	2	1	5	4	0	0	rs140373193	byFrequency	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:154316453C>T	uc001fex.2	+	18	1942	c.1942C>T	c.(1942-1944)CGC>TGC	p.R648C		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	634	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GGCTGAGCGACGCCTCCAGGC	0.627													37	8					0	0	0.064281	0	0		T	154316453	T	T	154316453	3	4	208	1	0	0	0	0	1	0	0	0	1196	536	19	1	2142	1	ATP8B2	1	154316453	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	3832152	154316453	94934168	12	100330											
SH2D2A	9047	broad.mit.edu	37	chr1	156777073	156777073	+	Missense_Mutation	SNP	T	G	G	0	1	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	tccaggcgggtgggggctggTggggcaggggagggccttgc	3	6	24	8	1	0	0	0	0	0	0	1	1	1	1	2	10	1	2	2	10	0	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:156777073T>G	uc001fqd.2	-	8	1207	c.1067A>C	c.(1066-1068)CAC>CCC	p.H356P	SH2D2A_uc001fqc.1_Missense_Mutation_p.H328P|SH2D2A_uc009wsh.2_Missense_Mutation_p.H366P|SH2D2A_uc001fqe.2_Missense_Mutation_p.H338P|SH2D2A_uc010phs.1_Missense_Mutation_p.H356P	NM_003975	NP_003966	Q9NP31	SH22A_HUMAN	SH2 domain protein 2A isoform 2	356	Pro-rich.				angiogenesis|cell differentiation|signal transduction	cytoplasm|soluble fraction	SH3 domain binding|SH3/SH2 adaptor activity				0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TGGGGGCTGGTGGGGCAGGGG	0.597													3	14					0	0	0.047766	0	0		G	156777073	G	G	156777073	3	3	208	1	0	0	0	0	1	0	0	0	14257	1696	59	5	106	5	SH2D2A	1	156777073	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	2460620	156777073	92473548	13	100331											
QSOX1	5768	broad.mit.edu	37	chr1	180158716	180158716	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccggcccttagtccagaaCttcctgcactccgtgaatga	8	9	10	14	2	0	3	0	2	0	1	3	3	3	3	5	2	2	1	5	2	3	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr1:180158716C>G	uc001gnz.2	+	9	1122	c.1047C>G	c.(1045-1047)AAC>AAG	p.N349K	QSOX1_uc001gny.2_Missense_Mutation_p.N349K|QSOX1_uc001goa.2_Missense_Mutation_p.N349K	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	349					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						TAGTCCAGAACTTCCTGCACT	0.502													71	18					0	0	0.048971	0	0		G	180158716	G	G	180158716	3	3	208	1	0	0	0	0	1	0	0	0	12908	564	20	5	1081	5	QSOX1	1	180158716	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	23381643	180158716	69091905	14	100332											
NBAS	51594	broad.mit.edu	37	chr2	15607529	15607529	+	Missense_Mutation	SNP	A	G	G	1	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	gttccttttgttccagtgtcAacctgttttgaataactatg	8	18	7	8	0	1	1	1	1	0	0	3	1	3	1	3	0	2	3	3	0	4	8			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:15607529A>G	uc002rcc.1	-	19	2047	c.2021T>C	c.(2020-2022)TTG>TCG	p.L674S	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	674										ovary(2)|liver(1)|skin(1)	4						TTCCAGTGTCAACCTGTTTTG	0.333													8	39					0	0	0.047766	0	0		G	15607529	G	G	15607529	3	3	208	1	0	0	0	0	1	0	0	0	10204	131	5	3	5230	3	NBAS	2	15607529	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08		15607529	227591844	15	100333											
GDF7	151449	broad.mit.edu	37	chr2	20870856	20870856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggcgcgggccggggccacGggcgcaggggccggagccgc	3	0	24	14	7	0	0	0	0	0	0	0	1	0	1	4	9	1	1	4	9	0	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:20870856G>A	uc002rdz.1	+	2	1600	c.1024G>A	c.(1024-1026)GGG>AGG	p.G342R		NM_182828	NP_878248	Q7Z4P5	GDF7_HUMAN	growth differentiation factor 7 preproprotein	342					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ccggggccacgggcgcagggg	0.552													4	10					0	0	0.009096	0	0		A	20870856	A	A	20870856	3	1	208	1	0	0	0	0	1	0	0	0	6333	1116	39	1	1030	1	GDF7	2	20870856	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	5263327	20870856	222328517	16	100334											
DNAJC5G	285126	broad.mit.edu	37	chr2	27500827	27500827	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggaatatatctgtatgatCactttggtgaagaaggcgtc	11	13	12	5	1	2	3	1	2	1	1	3	4	2	4	0	3	0	1	0	3	6	4			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:27500827C>T	uc002rjl.1	+	4	737	c.319C>T	c.(319-321)CAC>TAC	p.H107Y	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Intron|DNAJC5G_uc002rjm.1_Missense_Mutation_p.H107Y	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	107					protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCTGTATGATCACTTTGGTGA	0.398													26	62					0	0	0.0918	0	0		T	27500827	T	T	27500827	3	4	208	1	0	0	0	0	1	0	0	0	4658	826	29	4	325	4	DNAJC5G	2	27500827	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	6629971	27500827	215698546	17	100335											
ACTR1B	10120	broad.mit.edu	37	chr2	98275089	98275089	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtctagaaccactcctgtcGtgcgtcctgttgcgtacctg	6	12	10	13	3	1	1	0	0	1	1	4	1	3	1	4	0	4	2	4	0	3	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:98275089G>A	uc002syb.2	-	6	666	c.458C>T	c.(457-459)ACG>ATG	p.T153M		NM_005735	NP_005726	P42025	ACTY_HUMAN	ARP1 actin-related protein 1 homolog B,	153						centrosome|dynactin complex	ATP binding|protein binding			skin(1)	1						CACTCCTGTCGTGCGTCCTGT	0.612													28	115					0	0	0.099896	0	0		A	98275089	A	A	98275089	3	1	208	1	0	0	0	0	1	0	0	0	210	1145	40	1	696	1	ACTR1B	2	98275089	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	70774262	98275089	144924284	18	100336											
NCK2	8440	broad.mit.edu	37	chr2	106497824	106497824	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccagcgcgcgggatgcGtcccccacgcccagcacgga	9	2	13	17	6	0	1	0	0	0	1	1	3	1	3	4	2	3	1	4	2	1	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:106497824G>A	uc002tdg.2	+	4	709	c.267G>A	c.(265-267)GCG>GCA	p.A89A	NCK2_uc002tdh.2_Intron|NCK2_uc002tdi.2_Silent_p.A89A	NM_003581	NP_003572	O43639	NCK2_HUMAN	NCK adaptor protein 2 isoform A	89					axon guidance|epidermal growth factor receptor signaling pathway|negative regulation of cell proliferation|positive regulation of actin filament polymerization|positive regulation of T cell proliferation|regulation of epidermal growth factor receptor activity|regulation of translation|signal complex assembly|T cell activation	cytosol|endoplasmic reticulum	cytoskeletal adaptor activity|receptor signaling complex scaffold activity	p.D89Y(1)		ovary(1)|lung(1)	2						CGCGGGATGCGTCCCCCACGC	0.672													68	28					0	0	0.048971	0	0		A	106497824	A	A	106497824	2	1	208	1	0	0	0	0	0	0	0	1	10239	1132	40	1		1	NCK2	2	106497824	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	8222735	106497824	136701549	19	100337											
ST6GAL2	84620	broad.mit.edu	37	chr2	107460276	107460276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgctgcttcccctgcaccGgcaggagcctcctggtctcc	3	8	10	20	2	1	0	0	0	1	0	4	1	3	1	7	3	3	4	7	3	0	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:107460276G>A	uc002tdq.2	-	2	277	c.158C>T	c.(157-159)CCG>CTG	p.P53L	ST6GAL2_uc002tdr.2_Missense_Mutation_p.P53L|ST6GAL2_uc002tds.3_Missense_Mutation_p.P53L	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	53	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						CCCCTGCACCGGCAGGAGCCT	0.682													7	70					0	0	0.02938	0	0		A	107460276	A	A	107460276	3	1	208	1	0	0	0	0	1	0	0	0	15247	1116	39	1	1538	1	ST6GAL2	2	107460276	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	962452	107460276	135739097	20	100338											
TTN	7273	broad.mit.edu	37	chr2	179408680	179408680	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ttagcaatgagtagctctcaGtggtgtcaataattgcccgg	10	12	11	8	1	2	1	2	1	1	0	3	1	2	1	1	2	3	3	1	2	5	4			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:179408680G>C	uc010zfg.1	-	295	88711	c.88487C>G	c.(88486-88488)ACT>AGT	p.T29496S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.T23191S|TTN_uc010zfi.1_Missense_Mutation_p.T23124S|TTN_uc010zfj.1_Missense_Mutation_p.T22999S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30423							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTAGCTCTCAGTGGTGTCAAT	0.458													39	55					0	0	0.074837	0	0		C	179408680	C	C	179408680	3	2	208	1	0	0	0	0	1	0	0	0	16761	1029	36	5	11856	5	TTN	2	179408680	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	71948404	179408680	63790693	21	100339											
ANKAR	150709	broad.mit.edu	37	chr2	190584318	190584326	+	In_Frame_Del	DEL	AATCTATTA	-	-																															gcaccattcctgccttaatcAatctattaaaaagttccaaa																										TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:190584318_190584326delAATCTATTA	uc002uqw.1	+	10	2032_2040	c.2032_2040delAATCTATTA	c.(2032-2040)AATCTATTAdel	p.NLL678del	ANKAR_uc002uqu.2_RNA|ANKAR_uc002uqx.1_RNA	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing	749_751	ARM 1.					integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			TGCCTTAATCAATCTATTAAAAAGTTCCA	0.349													10	10	---	---	---	---						.	-	190584326	-	-	190584318	7	5	208	1	0	1	0	1	0	0	0	0	623	130	5	0	2283	0	ANKAR	2	190584318	In_Frame_Del	DEL	AATCTATTA	TCGA-HU-A4GD-01A-11D-A25D-08	11175638	190584318	52615055	22	100340											
SMARCAL1	50485	broad.mit.edu	37	chr2	217285091	217285091	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcctatggcagcagcgagtCaccctccaccagcagtgagg	9	5	13	14	1	1	1	1	1	0	0	2	2	2	1	4	3	3	3	4	3	1	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:217285091C>A	uc002vgc.3	+	5	1262	c.932C>A	c.(931-933)TCA>TAA	p.S311*	SMARCAL1_uc010fvf.2_RNA|SMARCAL1_uc002vgd.3_Nonsense_Mutation_p.S311*|SMARCAL1_uc010fvg.2_Nonsense_Mutation_p.S311*	NM_014140	NP_054859	Q9NZC9	SMAL1_HUMAN	SWI/SNF-related matrix-associated	311					chromatin modification|DNA metabolic process|regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity			ovary(3)|breast(3)|skin(1)	7		Renal(323;0.0458)		Epithelial(149;9.48e-06)|all cancers(144;0.000621)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0111)		AGCAGCGAGTCACCCTCCACC	0.572									Schimke_Immuno-Osseous_Dysplasia				17	24					8.60227e-14	9.16739e-14	0.028581	1	0		A	217285091	A	A	217285091	4	1	208	1	0	0	0	0	0	1	0	0	14798	838	29	5	942	5	SMARCAL1	2	217285091	Nonsense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	26700773	217285091	25914282	23	100341											
COL6A3	1293	broad.mit.edu	37	chr2	238303696	238303696	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	tgtgggtttccgttgaactgGaccagagcaaaatggaaatc	12	10	12	7	1	0	2	0	1	0	1	2	4	1	4	2	3	2	3	2	3	4	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr2:238303696G>C	uc002vwl.2	-	3	528	c.243C>G	c.(241-243)GTC>GTG	p.V81V	COL6A3_uc002vwo.2_Intron|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Intron|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Silent_p.V81V	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	81	VWFA 1.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CGTTGAACTGGACCAGAGCAA	0.393													10	49					0	0	0.069234	0	0		C	238303696	C	C	238303696	2	2	208	1	0	0	0	0	0	0	0	1	3704	1161	41	5		5	COL6A3	2	238303696	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	21018605	238303696	4895677	24	100342											
RRP9	9136	broad.mit.edu	37	chr3	51969657	51969657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attccacaccttcacggagcGatcgtgggatgtgctgtaga	9	10	12	10	3	1	1	1	0	0	1	3	4	2	3	2	2	2	2	2	2	1	3	rs140029162	byFrequency	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr3:51969657G>A	uc003dbw.1	-	9	826	c.787C>T	c.(787-789)CGC>TGC	p.R263C		NM_004704	NP_004695	O43818	U3IP2_HUMAN	RNA, U3 small nucleolar interacting protein 2	263	WD 3.				rRNA processing	nucleolus|small nuclear ribonucleoprotein complex|small nucleolar ribonucleoprotein complex	RNA binding			breast(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;8.04e-05)|Kidney(197;0.000553)|KIRC - Kidney renal clear cell carcinoma(197;0.000724)		TTCACGGAGCGATCGTGGGAT	0.602													4	39					0	0	0.009096	0	0		A	51969657	A	A	51969657	3	1	208	1	0	0	0	0	1	0	0	0	13716	1058	37	1	668	1	RRP9	3	51969657	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08		51969657	146052773	25	100343											
DNAH1	25981	broad.mit.edu	37	chr3	52426963	52426963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtccgacctggccaacGtggaccccatgtaccagtac	8	8	11	14	2	0	0	0	0	0	0	1	2	1	1	6	2	3	2	6	2	3	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr3:52426963G>A	uc011bef.1	+	65	10657	c.10396G>A	c.(10396-10398)GTG>ATG	p.V3466M	DNAH1_uc003ddv.2_Missense_Mutation_p.V324M	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	3531					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CCTGGCCAACGTGGACCCCAT	0.582													13	102					0	0	0.105934	0	0		A	52426963	A	A	52426963	3	1	208	1	0	0	0	0	1	0	0	0	4603	1145	40	1	10650	1	DNAH1	3	52426963	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	457306	52426963	145595467	26	100344											
RG9MTD1	54931	broad.mit.edu	37	chr3	101283802	101283802	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagagtacacccccttctgaAgagctagagttggataagtg	12	9	12	8	0	1	4	0	1	1	3	1	6	1	5	2	1	2	3	2	1	4	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr3:101283802A>G	uc003duz.2	+	2	325	c.177A>G	c.(175-177)GAA>GAG	p.E59E		NM_017819	NP_060289	Q7L0Y3	MRRP1_HUMAN	RNA (guanine-9-) methyltransferase domain	59					tRNA processing	mitochondrion	methyltransferase activity|protein binding			ovary(1)	1						CCCCTTCTGAAGAGCTAGAGT	0.373													17	185					0	0	0.028581	0	0		G	101283802	G	G	101283802	2	3	208	1	0	0	0	0	0	0	0	1	13296	69	3	3		3	RG9MTD1	3	101283802	Silent	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	48856839	101283802	96738628	27	100345											
PARP14	54625	broad.mit.edu	37	chr3	122419782	122419782	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgctgggcagaagtgcttctCtcggacagtcttggcccctg	5	10	13	13	2	2	1	0	0	2	1	4	2	2	2	2	3	1	3	2	3	1	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr3:122419782C>T	uc003efq.3	+	6	2440	c.2381C>T	c.(2380-2382)TCT>TTT	p.S794F	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Missense_Mutation_p.S511F|PARP14_uc003efs.1_Missense_Mutation_p.S511F	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	794	Macro 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		AAGTGCTTCTCTCGGACAGTC	0.512													6	92					0	0	0.021553	0	0		T	122419782	T	T	122419782	3	4	208	1	0	0	0	0	1	0	0	0	11477	913	32	4	2403	4	PARP14	3	122419782	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	21135980	122419782	75602648	28	100346											
DGKG	1608	broad.mit.edu	37	chr3	185997678	185997678	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaggaccagcaatgggatggTggtcatccctccatggaccc	9	7	13	12	0	1	0	1	0	0	0	3	4	3	3	4	5	1	1	4	5	1	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr3:185997678T>C	uc003fqa.2	-	9	1291	c.754A>G	c.(754-756)ACC>GCC	p.T252A	DGKG_uc003fqb.2_Missense_Mutation_p.T252A|DGKG_uc003fqc.2_Missense_Mutation_p.T252A|DGKG_uc011brx.1_Missense_Mutation_p.T252A	NM_001346	NP_001337	P49619	DGKG_HUMAN	diacylglycerol kinase gamma isoform 1	252	EF-hand 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity			breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	5	all_cancers(143;3.26e-12)|Ovarian(172;0.0315)|Breast(254;0.247)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)	GBM - Glioblastoma multiforme(93;0.0657)	Phosphatidylserine(DB00144)	AATGGGATGGTGGTCATCCCT	0.502													26	111					0	0	0.099896	0	0		C	185997678	C	C	185997678	3	2	208	1	0	0	0	0	1	0	0	0	4475	1696	59	3	1689	3	DGKG	3	185997678	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	63577896	185997678	12024752	29	100347											
NDST3	9348	broad.mit.edu	37	chr4	118975431	118975431	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gatctcccagtgcttatagaCaaaatgaaaggcaaatacat	17	9	7	8	0	1	2	0	1	1	1	2	3	1	2	1	1	2	2	1	1	7	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr4:118975431C>G	uc003ibx.2	+	2	769	c.366C>G	c.(364-366)GAC>GAG	p.D122E	NDST3_uc011cgf.1_Missense_Mutation_p.D122E|NDST3_uc003ibw.2_Missense_Mutation_p.D122E	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	122	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TGCTTATAGACAAAATGAAAG	0.338													5	34					0	0	0.014758	0	0		G	118975431	G	G	118975431	3	3	208	1	0	0	0	0	1	0	0	0	10276	477	17	5	368	5	NDST3	4	118975431	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		118975431	72178845	30	100348											
TNIP3	79931	broad.mit.edu	37	chr4	122071373	122071373	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tattcaaggcatcctgaagaGcctacgtaataagataagta	16	10	8	7	1	1	3	1	1	0	2	2	3	2	3	2	1	2	3	2	1	8	7			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr4:122071373G>A	uc010ing.2	-	6	690	c.494C>T	c.(493-495)GCT>GTT	p.A165V	TNIP3_uc010inh.2_Missense_Mutation_p.A165V|TNIP3_uc011cgj.1_Missense_Mutation_p.A223V	NM_024873	NP_079149	Q96KP6	TNIP3_HUMAN	TNFAIP3 interacting protein 3	165	Potential.									ovary(1)	1						ATCCTGAAGAGCCTACGTAAT	0.373													14	12					0	0	0.105934	0	0		A	122071373	A	A	122071373	3	1	208	1	0	0	0	0	1	0	0	0	16341	985	34	2	507	2	TNIP3	4	122071373	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	3095942	122071373	69082903	31	100349											
VEGFC	7424	broad.mit.edu	37	chr4	177713378	177713378	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagtccggactcgaaggcggCggcggcggcgggcgcctcgc	4	3	20	14	9	0	0	0	0	0	0	3	3	1	1	2	7	0	0	2	7	1	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr4:177713378C>T	uc003ius.1	-	1	518	c.88G>A	c.(88-90)GCC>ACC	p.A30T		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	30					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		TCGAAggcggcggcggcggcg	0.577													11	6					0	0	0.080935	0	0		T	177713378	T	T	177713378	3	4	208	1	0	0	0	0	1	0	0	0	17178	768	27	1	1202	1	VEGFC	4	177713378	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	55642005	177713378	13440898	32	100350											
NSUN2	54888	broad.mit.edu	37	chr5	6620357	6620357	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgctcagcctcttggcttgaTggacgagcaggtagcagcgc	7	9	14	11	2	2	1	1	1	1	0	2	3	2	2	1	3	5	5	1	3	1	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr5:6620357T>C	uc003jdu.2	-	7	742	c.677A>G	c.(676-678)CAT>CGT	p.H226R	NSUN2_uc003jdt.2_5'UTR|NSUN2_uc011cmk.1_Missense_Mutation_p.H191R|NSUN2_uc003jdv.2_5'UTR	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	226						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						CTTGGCTTGATGGACGAGCAG	0.527													27	90					0	0	0.099896	0	0		C	6620357	C	C	6620357	3	2	208	1	0	0	0	0	1	0	0	0	10697	1464	51	3	1678	3	NSUN2	5	6620357	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08		6620357	174294903	33	100351											
SLCO4C1	353189	broad.mit.edu	37	chr5	101572693	101572693	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagattgcaaatccattgaAgaacatggtgataactttac	17	11	7	6	0	0	4	0	2	0	2	1	4	1	4	1	1	4	1	1	1	6	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr5:101572693A>C	uc003knm.2	-	13	2331	c.2044T>G	c.(2044-2046)TTC>GTC	p.F682V		NM_180991	NP_851322	Q6ZQN7	SO4C1_HUMAN	solute carrier organic anion transporter family,	682	Helical; Name=12; (Potential).				cell differentiation|multicellular organismal development|sodium-independent organic anion transport|spermatogenesis	basolateral plasma membrane|integral to membrane	sodium-independent organic anion transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|pancreas(1)	4		all_cancers(142;1.86e-08)|all_epithelial(76;5.24e-12)|Prostate(80;0.00124)|Colorectal(57;0.00332)|Ovarian(225;0.024)|Lung NSC(167;0.0402)|all_lung(232;0.0486)		Epithelial(69;4.07e-14)|COAD - Colon adenocarcinoma(37;0.00986)		AATCCATTGAAGAACATGGTG	0.299													14	32					0	0	0.105934	0	0		C	101572693	C	C	101572693	3	2	208	1	0	0	0	0	1	0	0	0	14755	72	3	5	134	5	SLCO4C1	5	101572693	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	94952336	101572693	79342567	34	100352											
SPOCK1	6695	broad.mit.edu	37	chr5	136328253	136328253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaaaccaatccttcagcCgggaggcaaggttccgcaac	11	6	9	15	2	1	0	1	0	0	0	4	1	4	1	5	3	3	3	5	3	4	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr5:136328253C>T	uc003lbo.2	-	6	817	c.626G>A	c.(625-627)CGG>CAG	p.R209Q	SPOCK1_uc003lbp.2_Missense_Mutation_p.R209Q	NM_004598	NP_004589	Q08629	TICN1_HUMAN	sparc/osteonectin, cwcv and kazal-like domains	209					cell adhesion|cell proliferation|cellular component movement|nervous system development|signal transduction	proteinaceous extracellular matrix	calcium ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATCCTTCAGCCGGGAGGCAAG	0.532													19	47					0	0	0.043863	0	0		T	136328253	T	T	136328253	3	4	208	1	0	0	0	0	1	0	0	0	15104	652	23	1	713	1	SPOCK1	5	136328253	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	34755560	136328253	44587007	35	100353											
C1QTNF2	114898	broad.mit.edu	37	chr5	159781800	159781800	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgctgtccccccggtcGccgtcgtgtccatcttggcc	1	11	10	19	5	2	0	0	0	2	0	7	0	4	0	7	2	0	1	7	2	0	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr5:159781800G>A	uc003lyd.2	-	2	358	c.354C>T	c.(352-354)GGC>GGT	p.G118G		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	73	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCCCCCGGTCGCCGTCGTGTC	0.652													9	8					0	0	0.069234	0	0		A	159781800	A	A	159781800	2	1	208	1	0	0	0	0	0	0	0	1	1966	1074	38	1		1	C1QTNF2	5	159781800	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	23453547	159781800	21133460	36	100354											
ERGIC1	57222	broad.mit.edu	37	chr5	172315710	172315710	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgctctccacaggtttgacaTctacaggaaggtgcccaagg	10	9	11	11	0	2	1	0	1	2	0	3	2	2	2	2	4	3	2	2	4	3	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr5:172315710T>G	uc003mbw.3	+	2	223	c.29T>G	c.(28-30)ATC>AGC	p.I10S		NM_001031711	NP_001026881	Q969X5	ERGI1_HUMAN	endoplasmic reticulum-golgi intermediate	10	Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	protein binding			skin(2)|ovary(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AGGTTTGACATCTACAGGAAG	0.577													19	38					0	0	0.049695	0	0		G	172315710	G	G	172315710	3	3	208	1	0	0	0	0	1	0	0	0	5231	1435	50	5	35	5	ERGIC1	5	172315710	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	12533910	172315710	8599550	37	100355											
CYP21A2	1589	broad.mit.edu	37	chr6	31974830	31974830	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggaggctgaagcaggccaTagagaagagggaccacaacg	14	2	15	10	2	0	3	0	1	0	2	0	6	0	5	3	4	2	2	3	4	4	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr6:31974830T>C	uc010jtp.2	+	7	810	c.692T>C	c.(691-693)ATA>ACA	p.I231T	CYP21A2_uc011dpb.1_Missense_Mutation_p.I201T			P08686	CP21A_HUMAN	SubName: Full=Cytochrome P450, family 21, subfamily A, polypeptide 2; SubName: Full=Cytochrome P450 21-hydroxylase; SubName: Full=Cytochrome P450, family 21, subfamily A, polypeptide 2, isoform CRA_b; SubName: Full=DJ34F7.3 (Cytochrome P450, subfamily XXIA (Steroid 21-hydroxylase, congenital adrenal hyperplasia), polypeptide 2 (CYP21, P450c21B)); SubName: Full=cDNA, FLJ95495, Homo sapiens cytochrome P450, family 21, subfamily A, polypeptide 2(CYP21A2), mRNA;	230			I -> T (in AH3).		glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						AAGCAGGCCATAGAGAAGAGG	0.622													2	0					0	0	0.004672	0	0		C	31974830	C	C	31974830	3	2	208	1	0	0	0	0	1	0	0	0	4156	1406	49	3	706	3	CYP21A2	6	31974830	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08		31974830	139140237	38	100356											
ITPR3	3710	broad.mit.edu	37	chr6	33638124	33638124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagctgaagctctttgccCgcatgtgcttggaccgccag	7	9	11	14	2	1	1	0	1	1	0	1	2	1	2	4	1	4	4	4	1	1	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr6:33638124C>T	uc011drk.1	+	19	2431	c.2212C>T	c.(2212-2214)CGC>TGC	p.R738C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	738	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GCTCTTTGCCCGCATGTGCTT	0.607													10	68					0	0	0.058154	0	0		T	33638124	T	T	33638124	3	4	208	1	0	0	0	0	1	0	0	0	7938	652	23	1	2286	1	ITPR3	6	33638124	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	1663294	33638124	137476943	39	100357											
DNAH8	1769	broad.mit.edu	37	chr6	38950205	38950205	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcagccagtgttcagtttatTcagaatcaccttgatgaatg	11	14	8	8	0	4	3	4	2	0	1	4	3	4	3	2	0	1	2	2	0	3	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr6:38950205T>G	uc003ooe.1	+	84	12867	c.12267T>G	c.(12265-12267)ATT>ATG	p.I4089M	DNAH8_uc003oog.1_Missense_Mutation_p.I538M	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TTCAGTTTATTCAGAATCACC	0.363													81	45					0	0	0.048971	0	0		G	38950205	G	G	38950205	3	3	208	1	0	0	0	0	1	0	0	0	4613	1771	62	5	12593	5	DNAH8	6	38950205	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	5312081	38950205	132164862	40	100358											
GUCA1A	2978	broad.mit.edu	37	chr6	42146128	42146128	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctatgatgtagatggcaaCggctgcattgaccgcgatga	10	10	12	9	3	1	4	0	3	1	1	1	5	1	4	1	2	2	4	1	2	3	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr6:42146128C>T	uc003orx.2	+	4	957	c.312C>T	c.(310-312)AAC>AAT	p.N104N	GUCA1A_uc011duo.1_RNA|GUCA1A_uc010jxt.2_Silent_p.N104N	NM_000409	NP_000400	P43080	GUC1A_HUMAN	guanylate cyclase activator 1A (retina)	104	EF-hand 3.|2 (Potential).				signal transduction|visual perception	membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity				0	Colorectal(47;0.196)		STAD - Stomach adenocarcinoma(11;5.54e-05)|Epithelial(12;0.000167)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			TAGATGGCAACGGCTGCATTG	0.602													64	27					0	0	0.048971	0	0		T	42146128	T	T	42146128	2	4	208	1	0	0	0	0	0	0	0	1	6904	535	19	1		1	GUCA1A	6	42146128	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	3195923	42146128	128968939	41	100359											
PHF3	23469	broad.mit.edu	37	chr6	64394077	64394077	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctattgccaagcgttcaaatGcagcaccattaagtaacaca	15	9	6	11	1	1	0	1	0	0	0	1	0	1	0	2	0	5	4	2	0	5	5	rs34188763	byFrequency	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr6:64394077G>T	uc003pep.1	+	3	480	c.454G>T	c.(454-456)GCA>TCA	p.A152S	PHF3_uc010kaf.1_Missense_Mutation_p.A152S|PHF3_uc003pem.2_Missense_Mutation_p.A105S|PHF3_uc010kag.1_Missense_Mutation_p.A64S|PHF3_uc010kah.1_5'UTR|PHF3_uc003pen.2_Missense_Mutation_p.A64S|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.A152S	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	152					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			GCGTTCAAATGCAGCACCATT	0.378													6	124					2.7689e-08	2.86708e-08	0.02938	1	0		T	64394077	T	T	64394077	3	4	208	1	0	0	0	0	1	0	0	0	11855	1319	46	5	464	5	PHF3	6	64394077	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	22247949	64394077	106720990	42	100360											
AKAP12	9590	broad.mit.edu	37	chr6	151672866	151672866	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cacaagggaaggtggtggggCagaccaccccagaaagcttt	12	5	14	10	0	0	2	0	0	0	2	0	3	0	3	3	5	1	2	3	5	3	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr6:151672866C>A	uc011eep.1	+	4	3580	c.3340C>A	c.(3340-3342)CAG>AAG	p.Q1114K	AKAP12_uc003qoe.2_Missense_Mutation_p.Q1114K|AKAP12_uc003qof.2_Missense_Mutation_p.Q1016K|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.Q1009K	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	1114					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GGTGGTGGGGCAGACCACCCC	0.502													40	79					7.04047e-22	7.72864e-22	0.080422	1	0		A	151672866	A	A	151672866	3	1	208	1	0	0	0	0	1	0	0	0	448	711	25	5	3379	5	AKAP12	6	151672866	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	87278789	151672866	19442201	43	100361											
NCF1	653361	broad.mit.edu	37	chr7	74197927	74197927	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccagcgtccttcctcgagCccctggacagtcctgacgag	6	8	10	17	3	0	1	0	1	0	0	5	4	4	2	6	1	2	0	6	1	0	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr7:74197927C>A	uc003ubb.2	+	7	704	c.634C>A	c.(634-636)CCC>ACC	p.P212T	NCF1_uc010lbs.1_3'UTR|NCF1_uc011kfh.1_3'UTR	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	212	Asp/Glu-rich (highly acidic).|SH3 1.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						CTTCCTCGAGCCCCTGGACAG	0.637													26	19					9.39395e-14	9.93852e-14	0.030593	1	0		A	74197927	A	A	74197927	3	1	208	1	0	0	0	0	1	0	0	0	10235	739	26	5	660	5	NCF1	7	74197927	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		74197927	84940736	44	100362											
PCLO	27445	broad.mit.edu	37	chr7	82387999	82387999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcaccaatcaaggtctttttCataaacttccctccattgga	11	14	4	12	0	4	0	3	0	1	0	6	1	6	1	3	2	1	0	3	2	4	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr7:82387999C>T	uc003uhx.2	-	25	15610	c.15321G>A	c.(15319-15321)ATG>ATA	p.M5107I		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	5030	C2 2.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGGTCTTTTTCATAAACTTCC	0.328													56	33					0	0	0.048971	0	0		T	82387999	T	T	82387999	3	4	208	1	0	0	0	0	1	0	0	0	11602	826	29	4	111	4	PCLO	7	82387999	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	8190072	82387999	76750664	45	100363											
GIMAP6	474344	broad.mit.edu	37	chr7	150324850	150324850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcatctgtgggcttcctcaGattccttctggatctgggac	5	13	12	11	0	4	1	1	0	3	1	6	3	6	3	2	4	0	2	2	4	0	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr7:150324850G>A	uc003whn.2	-	3	1260	c.836C>T	c.(835-837)TCT>TTT	p.S279F	GIMAP6_uc003whm.2_Missense_Mutation_p.S199F	NM_024711	NP_078987	Q6P9H5	GIMA6_HUMAN	GTPase, IMAP family member 6	279							GTP binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GGCTTCCTCAGATTCCTTCTG	0.572													8	77					0	0	0.038147	0	0		A	150324850	A	A	150324850	3	1	208	1	0	0	0	0	1	0	0	0	6398	942	33	4	46	4	GIMAP6	7	150324850	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	67936851	150324850	8813813	46	100364											
RP1L1	94137	broad.mit.edu	37	chr8	10473978	10473978	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttttgtttcttgaagtcagCccagataaagtttcagcctc	9	16	7	9	0	3	2	2	1	1	1	4	2	3	2	2	0	2	2	2	0	3	6			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr8:10473978C>T	uc003wtc.2	-	3	958	c.729G>A	c.(727-729)GGG>GGA	p.G243G		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	243					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TTGAAGTCAGCCCAGATAAAG	0.527													33	15					0	0	0.054565	0	0		T	10473978	T	T	10473978	2	4	208	1	0	0	0	0	0	0	0	1	13558	726	26	2		2	RP1L1	8	10473978	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		10473978	135890044	47	100365											
UBXN2B	137886	broad.mit.edu	37	chr8	59359985	59359985	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	actttattgtacagtctcgtCctgaatttgcggctcttgac	7	16	8	10	2	2	2	0	2	2	0	4	2	3	2	1	1	2	2	1	1	3	6			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr8:59359985C>G	uc003xtl.2	+	8	993	c.871C>G	c.(871-873)CCT>GCT	p.P291A		NM_001077619	NP_001071087	Q14CS0	UBX2B_HUMAN	UBX domain protein 2B	291	UBX.					cytosol|endoplasmic reticulum|Golgi apparatus|nucleus				ovary(2)	2						ACAGTCTCGTCCTGAATTTGC	0.333													28	146					0	0	0.030593	0	0		G	59359985	G	G	59359985	3	3	208	1	0	0	0	0	1	0	0	0	16941	855	30	5	901	5	UBXN2B	8	59359985	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	48886007	59359985	87004037	48	100366											
PKIA	5569	broad.mit.edu	37	chr8	79510755	79510755	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccttgaaattagcaggtcttGatatcaacaagacaggtaag	15	10	9	7	0	2	3	1	2	1	1	2	3	2	3	1	2	2	2	1	2	6	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr8:79510755G>C	uc003yba.2	+	3	660	c.136G>C	c.(136-138)GAT>CAT	p.D46H	PKIA_uc003ybb.2_Missense_Mutation_p.D46H|PKIA_uc010lzo.2_Missense_Mutation_p.D46H	NM_006823	NP_006814	P61925	IPKA_HUMAN	cAMP-dependent protein kinase inhibitor alpha	46							cAMP-dependent protein kinase inhibitor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGCAGGTCTTGATATCAACAA	0.413													13	223					0	0	0.105934	0	0		C	79510755	C	C	79510755	3	2	208	1	0	0	0	0	1	0	0	0	11992	1290	45	5	138	5	PKIA	8	79510755	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	20150770	79510755	66853267	49	100367											
PKHD1L1	93035	broad.mit.edu	37	chr8	110448585	110448585	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtggtactctactgacttTatctggatttggctttaatg	8	17	10	6	0	2	1	0	1	2	0	2	2	2	2	0	4	2	2	0	4	4	7			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr8:110448585T>C	uc003yne.2	+	30	3628	c.3524T>C	c.(3523-3525)TTA>TCA	p.L1175S		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1175	Extracellular (Potential).|IPT/TIG 5.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CTACTGACTTTATCTGGATTT	0.323										HNSCC(38;0.096)			25	71					0	0	0.083992	0	0		C	110448585	C	C	110448585	3	2	208	1	0	0	0	0	1	0	0	0	11991	1764	61	3	3642	3	PKHD1L1	8	110448585	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	30937830	110448585	35915437	50	100368											
SLC30A8	169026	broad.mit.edu	37	chr8	118183401	118183401	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taattctctcagctcatgttGctacaggtcagtgagttttg	8	16	9	8	0	4	1	3	1	1	0	5	1	4	1	0	1	3	4	0	1	2	6			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr8:118183401G>T	uc003yoh.2	+	7	1188	c.958G>T	c.(958-960)GCT>TCT	p.A320S	SLC30A8_uc010mcz.2_Missense_Mutation_p.A271S|SLC30A8_uc011lia.1_Missense_Mutation_p.A271S|SLC30A8_uc003yog.2_Missense_Mutation_p.A271S	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	320	Cytoplasmic (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			AGCTCATGTTGCTACAGGTCA	0.428													39	161					1.36161e-19	1.48355e-19	0.069456	1	0		T	118183401	T	T	118183401	3	4	208	1	0	0	0	0	1	0	0	0	14586	1319	46	5	984	5	SLC30A8	8	118183401	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	7734816	118183401	28180621	51	100369											
TOP1MT	116447	broad.mit.edu	37	chr8	144399936	144399936	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgcagagtgatggaggcGttgtaggtccggaacacctt	8	10	14	9	2	0	2	0	1	0	1	2	4	2	4	3	4	2	3	3	4	2	3	rs143974988	by1000genomes	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr8:144399936G>A	uc003yxz.2	-	10	1306	c.1287C>T	c.(1285-1287)AAC>AAT	p.N429N	TOP1MT_uc011lkd.1_Silent_p.N331N|TOP1MT_uc011lke.1_Silent_p.N331N|TOP1MT_uc010mfb.2_Silent_p.N331N|TOP1MT_uc011lkf.1_Silent_p.N224N	NM_052963	NP_443195	Q969P6	TOP1M_HUMAN	mitochondrial topoisomerase I precursor	429					DNA topological change	chromosome|mitochondrial nucleoid	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity			ovary(1)	1	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)		Irinotecan(DB00762)|Topotecan(DB01030)	TGATGGAGGCGTTGTAGGTCC	0.647													10	70					0	0	0.080935	0	0		A	144399936	A	A	144399936	2	1	208	1	0	0	0	0	0	0	0	1	16390	1136	40	1		1	TOP1MT	8	144399936	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	26216535	144399936	1964086	52	100370											
CNTLN	54875	broad.mit.edu	37	chr9	17236494	17236494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaacaagaaattaagtaccCgctgcactgacctgctaaat	17	8	6	10	1	0	2	0	1	0	1	0	2	0	2	2	0	4	4	2	0	8	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr9:17236494C>T	uc003zmz.2	+	5	783	c.757C>T	c.(757-759)CGC>TGC	p.R253C	CNTLN_uc003zmx.3_Missense_Mutation_p.R253C|CNTLN_uc003zmy.2_Missense_Mutation_p.R253C|CNTLN_uc010mio.2_5'UTR	NM_017738	NP_060208	Q9NXG0	CNTLN_HUMAN	centlein isoform 1	253						centriole|membrane	two-component sensor activity			pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.14e-10)		ATTAAGTACCCGCTGCACTGA	0.373													42	52					0	0	0.086207	0	0		T	17236494	T	T	17236494	3	4	208	1	0	0	0	0	1	0	0	0	3642	652	23	1	775	1	CNTLN	9	17236494	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		17236494	123976937	53	100371											
TRPM3	80036	broad.mit.edu	37	chr9	73442845	73442845	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatattttccagtggtcccGttgtcagccagaatgaagtg	9	12	10	10	1	1	2	1	1	0	1	3	2	3	2	4	1	1	1	4	1	3	4			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr9:73442845G>A	uc004aid.2	-	6	1135	c.891C>T	c.(889-891)AAC>AAT	p.N297N	TRPM3_uc004ahu.2_Silent_p.N127N|TRPM3_uc004ahv.2_Silent_p.N127N|TRPM3_uc004ahw.2_Silent_p.N144N|TRPM3_uc004ahx.2_Silent_p.N144N|TRPM3_uc004ahy.2_Silent_p.N144N|TRPM3_uc004ahz.2_Silent_p.N144N|TRPM3_uc004aia.2_Silent_p.N144N|TRPM3_uc004aib.2_Silent_p.N144N|TRPM3_uc004aic.2_Silent_p.N297N|TRPM3_uc010mor.2_Silent_p.N297N|TRPM3_uc004aie.2_Silent_p.N144N|TRPM3_uc004aif.2_Silent_p.N144N|TRPM3_uc004aig.2_Silent_p.N144N|TRPM3_uc004aii.2_Silent_p.N299N	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	297	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CAGTGGTCCCGTTGTCAGCCA	0.473													33	103					0	0	0.054565	0	0		A	73442845	A	A	73442845	2	1	208	1	0	0	0	0	0	0	0	1	16613	1136	40	1		1	TRPM3	9	73442845	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	56206351	73442845	67770586	54	100372											
INVS	27130	broad.mit.edu	37	chr9	102988399	102988399	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagagcaaactggatgcaaaAggatctggaagagatgactc	16	6	12	7	0	1	3	0	1	1	2	2	7	1	6	0	3	3	2	0	3	4	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr9:102988399A>G	uc004bap.1	+	4	541	c.329A>G	c.(328-330)AAG>AGG	p.K110R	INVS_uc010mta.1_Missense_Mutation_p.K14R|INVS_uc011lve.1_Missense_Mutation_p.K14R|INVS_uc004bao.1_Missense_Mutation_p.K110R|INVS_uc004baq.1_Missense_Mutation_p.K14R|INVS_uc004bar.1_Missense_Mutation_p.K14R|INVS_uc010mtb.1_5'UTR	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	110	ANK 3.				negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				TGGATGCAAAAGGATCTGGAA	0.423													12	17					0	0	0.080935	0	0		G	102988399	G	G	102988399	3	3	208	1	0	0	0	0	1	0	0	0	7803	72	3	3	339	3	INVS	9	102988399	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	29545554	102988399	38225032	55	100373											
FCN1	2219	broad.mit.edu	37	chr9	137801728	137801728	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagttgataccattggcataGctctcatggggtcccatgag	9	11	11	10	0	1	2	1	2	1	0	3	2	2	2	2	3	2	3	2	3	2	4			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr9:137801728G>T	uc004cfi.2	-	9	989	c.897C>A	c.(895-897)AGC>AGA	p.S299R		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	299	Fibrinogen C-terminal.				opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		CATTGGCATAGCTCTCATGGG	0.542													42	76					2.26627e-22	2.50664e-22	0.09836	1	0		T	137801728	T	T	137801728	3	4	208	1	0	0	0	0	1	0	0	0	5805	962	34	5	87	5	FCN1	9	137801728	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	34813329	137801728	3411703	56	100374											
ZNF33B	7582	broad.mit.edu	37	chr10	43127820	43127820	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactagggtccaggtgctgcCactcctcctgggtgaagccc	6	8	13	14	0	0	1	0	1	0	0	3	2	3	1	5	3	3	1	5	3	2	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr10:43127820C>G	uc001jaf.1	-	3	192	c.77G>C	c.(76-78)TGG>TCG	p.W26S	ZNF33B_uc009xmg.1_Missense_Mutation_p.W26S|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_5'UTR	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	26	KRAB.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CAGGTGCTGCCACTCCTCCTG	0.468													19	29					0	0	0.038395	0	0		G	43127820	G	G	43127820	3	3	208	1	0	0	0	0	1	0	0	0	17880	595	21	5	2271	5	ZNF33B	10	43127820	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		43127820	92406927	57	100375											
FRG2B	441581	broad.mit.edu	37	chr10	135440184	135440184	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gagatctgttggaaagggggCtggtcagtggagcactggat	9	9	18	5	0	2	1	1	0	1	1	2	5	2	4	0	6	1	3	0	6	1	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr10:135440184C>A	uc010qvg.1	-	1	116	c.63G>T	c.(61-63)CAG>CAT	p.Q21H		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	21						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		GGAAAGGGGGCTGGTCAGTGG	0.507													13	194					2.61681e-11	2.7486e-11	0.020292	1	0		A	135440184	A	A	135440184	3	1	208	1	0	0	0	0	1	0	0	0	6061	796	28	5	788	5	FRG2B	10	135440184	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	92312364	135440184	94563	58	100376											
ARFIP2	23647	broad.mit.edu	37	chr11	6499103	6499103	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctcctctaagtctgttcGgtaggcatcatattccagcc	8	12	8	13	1	3	0	1	0	2	0	6	0	5	0	3	2	2	4	3	2	3	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr11:6499103G>A	uc001mdk.2	-	7	852	c.715C>T	c.(715-717)CGA>TGA	p.R239*	ARFIP2_uc001mdl.2_Nonsense_Mutation_p.R239*|ARFIP2_uc010ral.1_Nonsense_Mutation_p.R201*|ARFIP2_uc010ram.1_Nonsense_Mutation_p.R145*|ARFIP2_uc010ran.1_Nonsense_Mutation_p.R272*|ARFIP2_uc001mdm.2_RNA	NM_012402	NP_036534	P53365	ARFP2_HUMAN	ADP-ribosylation factor interacting protein 2	239	AH.				actin cytoskeleton organization|cellular component movement|lamellipodium assembly|ruffle organization|small GTPase mediated signal transduction	cell cortex|plasma membrane|ruffle	GTP binding|GTP-dependent protein binding|Rac GTPase binding				0		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;3.41e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		AAGTCTGTTCGGTAGGCATCA	0.547													44	18					0	0	0.042209	0	0		A	6499103	A	A	6499103	4	1	208	1	0	0	0	0	0	1	0	0	855	1124	39	1	318	1	ARFIP2	11	6499103	Nonsense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08		6499103	128507413	59	100377											
OR2AG2	338755	broad.mit.edu	37	chr11	6789325	6789325	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttattcctcaggctgtagatGagtggattcagggctggagt	8	13	14	6	0	2	2	2	1	0	1	3	4	3	4	1	4	0	3	1	4	2	4			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr11:6789325G>A	uc001meq.1	-	1	864	c.864C>T	c.(862-864)CTC>CTT	p.L288L		NM_001004490	NP_001004490	A6NM03	O2AG2_HUMAN	olfactory receptor, family 2, subfamily AG,	288	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)		Epithelial(150;2.15e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		GGCTGTAGATGAGTGGATTCA	0.498													29	41					0	0	0.037714	0	0		A	6789325	A	A	6789325	2	1	208	1	0	0	0	0	0	0	0	1	11004	1277	45	4		4	OR2AG2	11	6789325	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	290222	6789325	128217191	60	100378											
IMMP1L	196294	broad.mit.edu	37	chr11	31484782	31484782	+	Silent	SNP	G	C	C	0	0	1	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	cagccatattgaatagtataGccaacaagtcgaaaggtttt	15	11	8	7	1	0	1	0	1	0	0	1	2	0	1	2	1	3	2	2	1	8	7	rs150556583	byFrequency	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr11:31484782G>C	uc001msy.1	-	3	238	c.42C>G	c.(40-42)GGC>GGG	p.G14G	IMMP1L_uc001msz.1_Silent_p.G14G|IMMP1L_uc009yjo.2_Silent_p.G14G|IMMP1L_uc009yjp.2_Intron	NM_144981	NP_659418	Q96LU5	IMP1L_HUMAN	IMP1 inner mitochondrial membrane	14					proteolysis	mitochondrial inner membrane	serine-type peptidase activity				0	Lung SC(675;0.225)					GAATAGTATAGCCAACAAGTC	0.363													4	50					0	0	0.009096	0	0		C	31484782	C	C	31484782	2	2	208	1	0	0	0	0	0	0	0	1	7732	958	34	5		5	IMMP1L	11	31484782	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	24695457	31484782	103521734	61	100379											
OR4C15	81309	broad.mit.edu	37	chr11	55322167	55322167	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	tggatgcgtgcttctcatctGtcatcaccccaaagatgatt	9	13	8	11	1	4	2	3	1	2	1	5	3	4	3	2	1	2	1	2	1	1	2	rs137989357	byFrequency	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr11:55322167G>C	uc010rig.1	+	1	385	c.385G>C	c.(385-387)GTC>CTC	p.V129L		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTTCTCATCTGTCATCACCCC	0.468										HNSCC(20;0.049)			7	120					0	0	0.047766	0	0		C	55322167	C	C	55322167	3	2	208	1	0	0	0	0	1	0	0	0	11067	1377	48	5	387	5	OR4C15	11	55322167	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	23837385	55322167	79684349	62	100380											
RDX	5962	broad.mit.edu	37	chr11	110106915	110106915	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgaattcagcaagttctgctGcctaaagtaaacaatataat	16	12	6	7	0	2	1	1	1	1	0	2	1	2	1	1	0	4	4	1	0	9	6			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr11:110106915G>A	uc001pku.2	-	12	1563	c.1253C>T	c.(1252-1254)GCA>GTA	p.A418V	RDX_uc009yxx.1_RNA|RDX_uc009yxy.2_Missense_Mutation_p.A418V|RDX_uc009yxz.2_Missense_Mutation_p.A71V|RDX_uc009yya.2_Intron|RDX_uc001pks.2_5'UTR|RDX_uc001pkt.2_Missense_Mutation_p.A72V|RDX_uc010rwe.1_Missense_Mutation_p.A282V	NM_002906	NP_002897	P35241	RADI_HUMAN	radixin	418	Glu-rich.				actin filament capping	cleavage furrow|cytoskeleton|extrinsic to membrane|Golgi apparatus|nucleolus|plasma membrane	actin binding				0		all_cancers(61;7.18e-13)|all_epithelial(67;2.61e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.13e-06)|BRCA - Breast invasive adenocarcinoma(274;9.75e-06)|all cancers(92;5.9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0248)		AAGTTCTGCTGCCTAAAGTAA	0.328													14	39					0	0	0.024245	0	0		A	110106915	A	A	110106915	3	1	208	1	0	0	0	0	1	0	0	0	13223	1333	46	2	510	2	RDX	11	110106915	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	54784748	110106915	24899601	63	100381											
APLP2	334	broad.mit.edu	37	chr11	130011397	130011397	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcatgactgtttcaggtcaTtgacgagactctggatgtta	9	14	10	8	1	4	3	3	2	1	1	4	5	4	4	0	2	0	2	0	2	1	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr11:130011397T>C	uc010sby.1	+	16	2121	c.1964T>C	c.(1963-1965)ATT>ACT	p.I655T	APLP2_uc001qfp.2_Missense_Mutation_p.I643T|APLP2_uc001qfq.2_Missense_Mutation_p.I587T|APLP2_uc010sbz.1_Missense_Mutation_p.I443T|APLP2_uc001qfr.2_Missense_Mutation_p.I409T|APLP2_uc001qfs.2_Missense_Mutation_p.I414T|APLP2_uc001qfv.2_Missense_Mutation_p.I546T|APLP2_uc009zcv.2_Missense_Mutation_p.I3T	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	655	Extracellular (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)		TTTCAGGTCATTGACGAGACT	0.493													15	21					0	0	0.024245	0	0		C	130011397	C	C	130011397	3	2	208	1	0	0	0	0	1	0	0	0	779	1493	52	3	2026	3	APLP2	11	130011397	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	19904482	130011397	4995119	64	100382											
OPCML	4978	broad.mit.edu	37	chr11	133402211	133402211	+	Missense_Mutation	SNP	A	T	T	1	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	aagacgacccagtaggcaggAtggtacatctcgacgctgcg	11	6	13	11	4	1	1	0	0	1	1	2	4	1	2	1	3	2	4	1	3	3	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr11:133402211A>T	uc001qgu.2	-	1	193	c.9T>A	c.(7-9)CAT>CAA	p.H3Q		NM_001012393	NP_001012393	Q14982	OPCM_HUMAN	opioid binding protein/cell adhesion	Error:Variant_position_missing_in_Q14982_after_alignment					cell adhesion|neuron recognition	anchored to membrane|integral to plasma membrane	opioid receptor activity			ovary(2)|skin(1)	3	all_hematologic(175;0.019)	all_cancers(12;5.86e-24)|all_epithelial(12;2.65e-17)|all_lung(97;2.89e-05)|Lung NSC(97;6.16e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0269)|all_neural(223;0.0326)|Esophageal squamous(93;0.129)		all cancers(11;4.61e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.012)		AGTAGGCAGGATGGTACATCT	0.488													9	8					0	0	0.047766	0	0		T	133402211	T	T	133402211	3	4	208	1	0	0	0	0	1	0	0	0	10893	330	12	5	1121	5	OPCML	11	133402211	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	3390814	133402211	1604305	65	100383											
UNG	7374	broad.mit.edu	37	chr12	109536374	109536374	+	Silent	SNP	G	C	C	0	0	1	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	agactcgcggcccgcaacgtGcccgtgggctttggagagag	7	6	16	12	5	0	2	0	0	0	2	1	4	0	3	2	3	2	2	2	3	1	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr12:109536374G>C	uc001tnz.1	+	2	340	c.270G>C	c.(268-270)GTG>GTC	p.V90V	UNG_uc001toa.1_Silent_p.V81V	NM_080911	NP_550433	P13051	UNG_HUMAN	uracil-DNA glycosylase isoform UNG2	90					base-excision repair|interspecies interaction between organisms	mitochondrion|nucleus	protein binding|uracil DNA N-glycosylase activity			lung(1)|central_nervous_system(1)	2						CCCGCAACGTGCCCGTGGGCT	0.607								BER_DNA_glycosylases	Immune_Deficiency_with_Hyper-IgM				38	35					0	0	0.074837	0	0		C	109536374	C	C	109536374	2	2	208	1	0	0	0	0	0	0	0	1	17025	1306	46	5		5	UNG	12	109536374	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08		109536374	24315521	66	100384											
GCN1L1	10985	broad.mit.edu	37	chr12	120572458	120572458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccttcaggcgcaccccccGgttggagtcctgcagggctt	4	8	14	15	2	1	0	1	0	0	0	2	1	2	1	5	5	1	4	5	5	0	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr12:120572458G>A	uc001txo.2	-	52	7094	c.7081C>T	c.(7081-7083)CGG>TGG	p.R2361W		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	2361	HEAT 21.				regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CGCACCCCCCGGTTGGAGTCC	0.597													50	46					0	0	0.048971	0	0		A	120572458	A	A	120572458	3	1	208	1	0	0	0	0	1	0	0	0	6314	1115	39	1	962	1	GCN1L1	12	120572458	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	11036084	120572458	13279437	67	100385											
EIF2B1	1967	broad.mit.edu	37	chr12	124107237	124107237	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaaagagccggacaaacttGaaactttctgcaaccacata	16	7	8	10	1	1	2	0	1	1	1	1	4	1	4	2	2	5	1	2	2	5	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr12:124107237G>A	uc001ufm.2	-	8	842	c.699C>T	c.(697-699)TTC>TTT	p.F233F	EIF2B1_uc001ufn.2_Silent_p.F231F	NM_001414	NP_001405	Q14232	EI2BA_HUMAN	eukaryotic translation initiation factor 2B,	233					cellular response to stimulus|oligodendrocyte development|regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex|membrane fraction|plasma membrane	protein binding|translation initiation factor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;6.67e-05)|Epithelial(86;0.000353)|all cancers(50;0.00489)		GGACAAACTTGAAACTTTCTG	0.423													10	99					0	0	0.069234	0	0		A	124107237	A	A	124107237	2	1	208	1	0	0	0	0	0	0	0	1	5006	1281	45	4		4	EIF2B1	12	124107237	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	3534779	124107237	9744658	68	100386											
F10	2159	broad.mit.edu	37	chr13	113783898	113783898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcatacgaagaggcccGcgaggtctttgaggacagcg	9	7	14	11	4	2	2	1	1	1	1	2	5	2	3	1	3	3	1	1	3	2	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr13:113783898G>A	uc001vsx.2	+	2	260	c.203G>A	c.(202-204)CGC>CAC	p.R68H	F10_uc010agq.1_RNA|F10_uc001vsy.2_Missense_Mutation_p.R68H|F10_uc001vsz.2_Missense_Mutation_p.R68H	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	68	Gla.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAAGAGGCCCGCGAGGTCTTT	0.592													37	78					0	0	0.064281	0	0		A	113783898	A	A	113783898	3	1	208	1	0	0	0	0	1	0	0	0	5344	1087	38	1	209	1	F10	13	113783898	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08		113783898	1385980	69	100387											
GPHN	10243	broad.mit.edu	37	chr14	67610161	67610161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagggggtgtatccatggggGaaaaggtatgaaagataggg	13	7	18	3	0	0	2	0	1	0	1	1	3	1	3	1	6	0	2	1	6	6	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr14:67610161G>A	uc001xiy.2	+	17	2853	c.1732G>A	c.(1732-1734)GAA>AAA	p.E578K	GPHN_uc001xix.2_Missense_Mutation_p.E611K|GPHN_uc010tss.1_Missense_Mutation_p.E624K|GPHN_uc010tst.1_Missense_Mutation_p.E547K|GPHN_uc010tsu.1_Missense_Mutation_p.E501K	NM_001024218	NP_001019389	Q9NQX3	GEPH_HUMAN	gephyrin isoform 2	578	MPT adenylyltransferase.				Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cell junction|cytoplasm|cytoskeleton|postsynaptic membrane	ATP binding|metal ion binding|nucleotidyltransferase activity			ovary(2)	2		all_cancers(7;0.0476)|all_hematologic(31;0.0116)		Epithelial(1;1.73e-08)|all cancers(60;3.15e-07)|OV - Ovarian serous cystadenocarcinoma(108;0.000275)|BRCA - Breast invasive adenocarcinoma(234;0.00323)|Colorectal(3;0.0938)|KIRC - Kidney renal clear cell carcinoma(182;0.184)		ATCCATGGGGGAAAAGGTATG	0.428			T	MLL	AL								42	46					0	0	0.039052	0	0		A	67610161	A	A	67610161	3	1	208	1	0	0	0	0	1	0	0	0	6625	1175	41	4	1901	4	GPHN	14	67610161	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08		67610161	39739379	70	100388											
SIVA1	10572	broad.mit.edu	37	chr14	105223068	105223068	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgctggggctgcggctcCgtggcctgtaccctgtgtgg	2	10	16	13	2	0	0	0	0	0	0	1	0	1	0	4	5	3	4	4	5	1	1	rs139604480		TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr14:105223068C>T	uc001yph.2	+	3	510	c.441C>T	c.(439-441)TCC>TCT	p.S147S	INF2_uc010tyi.1_Intron|SIVA1_uc010tyj.1_Silent_p.S147S|SIVA1_uc001ypg.1_3'UTR|SIVA1_uc001ypi.2_Silent_p.S82S	NM_006427	NP_006418	O15304	SIVA_HUMAN	CD27-binding (Siva) protein isoform 1	147					activation of caspase activity by cytochrome c|activation-induced cell death of T cells|apoptosis|induction of apoptosis|interspecies interaction between organisms|negative regulation of anti-apoptosis|negative regulation of NF-kappaB transcription factor activity	cytoplasm|mitochondrion|nucleoplasm|nucleus	caspase activator activity|CD27 receptor binding|metal ion binding|viral receptor activity|zinc ion binding				0		all_cancers(154;0.14)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.173)		GCTGCGGCTCCGTGGCCTGTA	0.657													9	34					0	0	0.058154	0	0		T	105223068	T	T	105223068	2	4	208	1	0	0	0	0	0	0	0	1	14370	639	23	1		1	SIVA1	14	105223068	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	37612907	105223068	2126472	71	100389											
PGBD4	161779	broad.mit.edu	37	chr15	34394921	34394921	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttagaatctgatggaaagagCtctacatcaagtgactcagg	14	10	10	7	0	4	4	2	2	2	2	4	5	4	5	0	2	2	1	0	2	5	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr15:34394921C>G	uc001zho.2	+	1	648	c.189C>G	c.(187-189)AGC>AGG	p.S63R	C15orf24_uc001zhm.2_5'Flank|C15orf24_uc001zhn.2_5'Flank	NM_152595	NP_689808	Q96DM1	PGBD4_HUMAN	piggyBac transposable element derived 4	63											0		all_lung(180;1.76e-08)		all cancers(64;1.22e-17)|GBM - Glioblastoma multiforme(113;1.78e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0242)		ATGGAAAGAGCTCTACATCAA	0.398													42	19					0	0	0.039052	0	0		G	34394921	G	G	34394921	3	3	208	1	0	0	0	0	1	0	0	0	11802	796	28	5	191	5	PGBD4	15	34394921	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		34394921	68136471	72	100390											
PDP2	57546	broad.mit.edu	37	chr16	66919617	66919617	+	Missense_Mutation	SNP	A	G	G	1	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	agccacgcggctgatcagacAtgccatcgggaacaatgagt	12	6	12	11	3	1	3	1	2	0	1	2	4	1	4	2	2	3	1	2	2	2	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr16:66919617A>G	uc002eqk.1	+	2	1592	c.1430A>G	c.(1429-1431)CAT>CGT	p.H477R		NM_020786	NP_065837	Q9P2J9	PDP2_HUMAN	pyruvate dehydrogenase phosphatase isoenzyme 2	477					pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix|protein serine/threonine phosphatase complex	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|metal ion binding			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		CTGATCAGACATGCCATCGGG	0.597													13	44					0	0	0.105934	0	0		G	66919617	G	G	66919617	3	3	208	1	0	0	0	0	1	0	0	0	11705	217	8	3	1432	3	PDP2	16	66919617	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08		66919617	23435136	73	100391											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445923	87445923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtttattattgcagggggcaCacttatttgcacattattag	10	16	9	6	0	0	0	0	0	0	0	0	0	0	0	0	2	2	4	0	2	5	8			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr16:87445923C>T	uc002fjz.1	-	12	2020	c.1993G>A	c.(1993-1995)GTG>ATG	p.V665M	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Missense_Mutation_p.V441M	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	665					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GCAGGGGGCACACTTATTTGC	0.537													70	48					0	0	0.048971	0	0		T	87445923	T	T	87445923	3	4	208	1	0	0	0	0	1	0	0	0	17608	478	17	4	864	4	ZCCHC14	16	87445923	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	20526306	87445923	2908830	74	100392											
SCARF1	8578	broad.mit.edu	37	chr17	1542118	1542118	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acctgtccttgaggtctgatCggggggcccagcagcagcag	7	7	15	12	1	1	2	0	2	1	0	3	2	2	2	3	4	3	3	3	4	0	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:1542118C>T	uc002fsz.1	-	8	1396	c.1346G>A	c.(1345-1347)CGA>CAA	p.R449Q	SCARF1_uc002fsy.1_Missense_Mutation_p.R449Q|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.R363Q	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	449	Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GAGGTCTGATCGGGGGGCCCA	0.667													12	4					0	0	0.080935	0	0		T	1542118	T	T	1542118	3	4	208	1	0	0	0	0	1	0	0	0	13908	884	31	1	1162	1	SCARF1	17	1542118	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		1542118	79653092	75	100393											
TP53	7157	broad.mit.edu	37	chr17	7578265	7578265	+	Missense_Mutation	SNP	A	T	T	1	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	gcaaatttccttccactcggAtaagatgctgaggaggggcc	10	9	12	10	1	0	2	0	1	0	1	3	4	2	4	3	4	1	2	3	4	2	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:7578265A>T	uc002gim.2	-	6	778	c.584T>A	c.(583-585)ATC>AAC	p.I195N	TP53_uc002gig.1_Missense_Mutation_p.I195N|TP53_uc002gih.2_Missense_Mutation_p.I195N|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.I63N|TP53_uc010cng.1_Missense_Mutation_p.I63N|TP53_uc002gii.1_Missense_Mutation_p.I63N|TP53_uc010cnh.1_Missense_Mutation_p.I195N|TP53_uc010cni.1_Missense_Mutation_p.I195N|TP53_uc002gij.2_Missense_Mutation_p.I195N|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.I102N|TP53_uc002gio.2_Missense_Mutation_p.I63N|TP53_uc010vug.1_Missense_Mutation_p.I156N	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	195	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		I -> F (in sporadic cancers; somatic mutation).|I -> L (in a sporadic cancer; somatic mutation).|I -> S (in sporadic cancers; somatic mutation).|I -> T (in sporadic cancers; somatic mutation).|I -> V (in a sporadic cancer; somatic mutation).|I -> Y (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|I -> N (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.I195T(61)|p.I195F(16)|p.I195N(12)|p.0?(7)|p.I195S(4)|p.A189_V197delAPPQHLIRV(4)|p.I195fs*14(3)|p.I195fs*52(3)|p.K164_P219del(1)|p.I195L(1)|p.I195fs*50(1)|p.P191fs*6(1)|p.I195_G199delIRVEG(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.I195fs*12(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCCACTCGGATAAGATGCTG	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			20	15					0	0	0.062417	0	0		T	7578265	T	T	7578265	3	4	208	1	0	0	0	0	1	0	0	0	16407	333	12	5	710	5	TP53	17	7578265	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	6036147	7578265	73616945	76	100394											
SEBOX	645832	broad.mit.edu	37	chr17	26692243	26692243	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caggctgtgcccacaccagaCccccccatttgggttttatc	7	10	8	16	0	0	1	0	0	0	1	1	1	0	1	5	2	1	2	5	2	1	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:26692243C>G	uc010wai.1	-	1	23	c.9G>C	c.(7-9)GGG>GGC	p.G3G	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_Intron|SARM1_uc010waj.1_Intron	NM_001080837	NP_001074306	Q9HB31	SEBOX_HUMAN	SEBOX homeobox isoform 1	3					cell differentiation|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		CCACACCAGACCCCCCCATTT	0.617													5	21					0	0	0.021553	0	0		G	26692243	G	G	26692243	2	3	208	1	0	0	0	0	0	0	0	1	14002	494	18	5		5	SEBOX	17	26692243	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	19113978	26692243	54502967	77	100395											
KIAA0100	9703	broad.mit.edu	37	chr17	26970287	26970287	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaaactttctgtaggtcCgttctgatacgcacttctcc	8	14	7	12	2	4	2	1	1	3	1	6	2	5	2	2	1	2	3	2	1	3	5	rs139655833		TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:26970287C>T	uc002hbu.2	-	4	390	c.291G>A	c.(289-291)ACG>ACA	p.T97T	KIAA0100_uc002hbv.2_Silent_p.T97T|KIAA0100_uc010crr.1_5'UTR	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	97						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					TCTGTAGGTCCGTTCTGATAC	0.502													6	93					0	0	0.02938	0	0		T	26970287	T	T	26970287	2	4	208	1	0	0	0	0	0	0	0	1	8170	639	23	1		1	KIAA0100	17	26970287	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	278044	26970287	54224923	78	100396											
SUPT6H	6830	broad.mit.edu	37	chr17	27014416	27014416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgatgtcaaccgtgccattgCccacccttacagccaggcct	8	8	8	17	2	1	0	1	0	0	0	1	1	1	0	6	1	5	0	6	1	2	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:27014416C>T	uc002hby.2	+	23	3023	c.2933C>T	c.(2932-2934)GCC>GTC	p.A978V	SUPT6H_uc010crt.2_Missense_Mutation_p.A978V|SUPT6H_uc002hbz.1_5'Flank	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	978					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CGTGCCATTGCCCACCCTTAC	0.522													30	48					0	0	0.034045	0	0		T	27014416	T	T	27014416	3	4	208	1	0	0	0	0	1	0	0	0	15425	739	26	2	3019	2	SUPT6H	17	27014416	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	44129	27014416	54180794	79	100397											
KRTAP4-2	85291	broad.mit.edu	37	chr17	39334187	39334187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggacacacagcagctgggaCggcagcaggtggtcctgcag	9	5	16	11	1	0	0	0	0	0	0	1	2	1	2	1	5	4	5	1	5	0	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:39334187C>T	uc002hwd.2	-	1	274	c.230G>A	c.(229-231)CGT>CAT	p.R77H		NM_033062	NP_149051	Q9BYR5	KRA42_HUMAN	keratin associated protein 4-2	77	20 X 5 AA repeats OF C-C-[GRQVS]-[SPT]- [VSTQ].|13.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			GCAGCTGGGACGGCAGCAGGT	0.667													73	72					0	0	0.048971	0	0		T	39334187	T	T	39334187	3	4	208	1	0	0	0	0	1	0	0	0	8567	536	19	1	184	1	KRTAP4-2	17	39334187	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	12319771	39334187	41861023	80	100398											
FMNL1	752	broad.mit.edu	37	chr17	43320550	43320550	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggccccagcctggacctCagcgctctcaagagtaaggc	10	5	11	15	1	2	1	2	0	1	1	3	2	2	2	4	3	2	2	4	3	3	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:43320550C>A	uc002iin.2	+	17	2276	c.2076C>A	c.(2074-2076)CTC>CTA	p.L692L	FMNL1_uc002iiq.2_Silent_p.L270L|FMNL1_uc010dag.2_RNA	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	692	FH2.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GCCTGGACCTCAGCGCTCTCA	0.597													39	95					1.90571e-15	2.06099e-15	0.069456	1	0		A	43320550	A	A	43320550	2	1	208	1	0	0	0	0	0	0	0	1	5965	813	29	5		5	FMNL1	17	43320550	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	3986363	43320550	37874660	81	100399											
TMEM92	162461	broad.mit.edu	37	chr17	48356643	48356644	+	Frame_Shift_Ins	INS	-	GG	GG																															agaatataccggggatcagaINSggggcattgacaacccggcc																										TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr17:48356643_48356644insGG	uc002iqn.1	+	5	484_485	c.454_455insGG	c.(454-456)AGGfs	p.R152fs		NM_153229	NP_694961	Q6UXU6	TMM92_HUMAN	transmembrane protein 92 precursor	152	Cytoplasmic (Potential).					integral to membrane					0						CGGGGATCAGAGGGGCATTGAC	0.589													81	82	---	---	---	---						.	GG	48356644	GG	GG	48356643	7	5	208	1	0	1	1	0	0	0	0	0	16246	295	11	0	472	0	TMEM92	17	48356643	Frame_Shift_Ins	INS	-	TCGA-HU-A4GD-01A-11D-A25D-08	5036093	48356643	32838567	82	100400											
YES1	7525	broad.mit.edu	37	chr18	736827	736827	+	Silent	SNP	A	G	G	1	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	ccttgtcttgctgtgtattcAttgtcttcaattaaccttgc	6	19	6	10	0	4	0	2	0	2	0	4	0	4	0	2	0	3	2	2	0	3	8			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr18:736827A>G	uc002kky.2	-	10	1493	c.1272T>C	c.(1270-1272)AAT>AAC	p.N424N	YES1_uc002kkz.2_Silent_p.N424N	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	424	Protein kinase.				blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	CTGTGTATTCATTGTCTTCAA	0.348													16	39					0	0	0.028581	0	0		G	736827	G	G	736827	2	3	208	1	0	0	0	0	0	0	0	1	17500	214	8	3		3	YES1	18	736827	Silent	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08		736827	77340421	83	100401											
ANKRD30B	374860	broad.mit.edu	37	chr18	14851958	14851958	+	Missense_Mutation	SNP	A	T	T	1	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	gaataatgaatgttgatgtgAgtaatacaatatataacaat	19	13	7	2	0	0	3	0	3	0	0	0	4	0	3	0	0	2	2	0	0	10	7			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr18:14851958A>T	uc010dlo.2	+	36	3838	c.3658A>T	c.(3658-3660)AGT>TGT	p.S1220C	ANKRD30B_uc010xal.1_Missense_Mutation_p.S362C	NM_001145029	NP_001138501	Q9BXX2	AN30B_HUMAN	ankyrin repeat domain 30B	1305										ovary(1)|skin(1)	2						TGTTGATGTGAGTAATACAAT	0.368													6	21					0	0	0.02938	0	0		T	14851958	T	T	14851958	3	4	208	1	0	0	0	0	1	0	0	0	659	304	11	5	3800	5	ANKRD30B	18	14851958	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	14115131	14851958	63225290	84	100402											
SIPA1L3	23094	broad.mit.edu	37	chr19	38573204	38573204	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggaagccagcaggccGtgggtgtgtcagaagagctt	8	6	15	12	2	1	2	1	0	0	2	1	3	1	3	4	3	3	2	4	3	2	1	rs149728646	byFrequency	TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr19:38573204G>A	uc002ohk.2	+	3	1508	c.999G>A	c.(997-999)CCG>CCA	p.P333P		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	333					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CCAGCAGGCCGTGGGTGTGTC	0.682													7	47					0	0	0.02938	0	0		A	38573204	A	A	38573204	2	1	208	1	0	0	0	0	0	0	0	1	14356	1132	40	1		1	SIPA1L3	19	38573204	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08		38573204	20555779	85	100403											
SARS2	54938	broad.mit.edu	37	chr19	39412044	39412044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccacctggcttgtctcCgaccatgtggagcactcgag	6	9	12	14	2	1	0	0	0	1	0	3	3	1	1	4	3	1	2	4	3	0	1	rs141084630		TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr19:39412044C>T	uc002oka.2	-	5	737	c.577G>A	c.(577-579)GGA>AGA	p.G193R	SARS2_uc002ojz.2_Missense_Mutation_p.G3R|SARS2_uc010xup.1_Missense_Mutation_p.G195R|SARS2_uc002okb.2_Missense_Mutation_p.G193R|SARS2_uc010xuq.1_Missense_Mutation_p.G193R|SARS2_uc010xur.1_RNA	NM_017827	NP_060297	Q9NP81	SYSM_HUMAN	seryl-tRNA synthetase 2 isoform b precursor	193					seryl-tRNA aminoacylation	mitochondrial matrix	ATP binding|protein binding|serine-tRNA ligase activity			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(60;2.74e-06)|all_epithelial(25;4.36e-06)|Ovarian(47;0.0454)		Lung(45;0.000419)|LUSC - Lung squamous cell carcinoma(53;0.000554)			GGCTTGTCTCCGACCATGTGG	0.692													8	36					0	0	0.038147	0	0		T	39412044	T	T	39412044	3	4	208	1	0	0	0	0	1	0	0	0	13870	661	23	1	1027	1	SARS2	19	39412044	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	838840	39412044	19716939	86	100404											
ZNF222	7673	broad.mit.edu	37	chr19	44537105	44537105	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtggagaaaacccatccaaAtgtgaggactgtgggaagcg	14	6	14	7	1	0	2	0	1	0	1	1	5	1	4	2	3	2	0	2	3	4	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr19:44537105A>C	uc002oyc.2	+	4	1461	c.1278A>C	c.(1276-1278)AAA>AAC	p.K426N	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Missense_Mutation_p.K466N|ZNF222_uc002oyd.2_Missense_Mutation_p.K372N	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	426					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				ACCCATCCAAATGTGAGGACT	0.338													15	96					0	0	0.024245	0	0		C	44537105	C	C	44537105	3	2	208	1	0	0	0	0	1	0	0	0	17801	98	4	5	1431	5	ZNF222	19	44537105	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08	5125061	44537105	14591878	87	100405											
ZNF229	7772	broad.mit.edu	37	chr19	44933480	44933480	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ctgaaacctttgccacacttGtcacactggtagggcctctc	8	11	8	14	0	2	1	1	1	1	0	3	1	2	1	3	2	2	1	3	2	2	3			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr19:44933480G>C	uc002oze.1	-	6	1910	c.1476C>G	c.(1474-1476)GAC>GAG	p.D492E	ZNF229_uc010ejk.1_Missense_Mutation_p.D146E|ZNF229_uc010ejl.1_Missense_Mutation_p.D486E	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	492	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TGCCACACTTGTCACACTGGT	0.527													15	120					0	0	0.024245	0	0		C	44933480	C	C	44933480	3	2	208	1	0	0	0	0	1	0	0	0	17807	1368	48	5	1005	5	ZNF229	19	44933480	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	396375	44933480	14195503	88	100406											
ZNF611	81856	broad.mit.edu	37	chr19	53208636	53208636	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttctctccactatgaattcTagtatgttttgccagatagg	9	17	7	8	0	2	2	0	1	2	1	4	2	3	2	2	1	1	2	2	1	5	8			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr19:53208636T>C	uc002pzz.2	-	7	1989	c.1672A>G	c.(1672-1674)AGA>GGA	p.R558G	ZNF611_uc010eqc.2_Missense_Mutation_p.R488G|ZNF611_uc010ydo.1_Missense_Mutation_p.R488G|ZNF611_uc010ydr.1_Missense_Mutation_p.R489G|ZNF611_uc010ydp.1_Missense_Mutation_p.R558G|ZNF611_uc010ydq.1_Missense_Mutation_p.R558G|ZNF611_uc002qaa.3_Missense_Mutation_p.R488G	NM_030972	NP_112234	Q8N823	ZN611_HUMAN	zinc finger protein 611 isoform a	558	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(262;0.0233)|GBM - Glioblastoma multiforme(134;0.04)		CTATGAATTCTAGTATGTTTT	0.408													48	220					0	0	0.045515	0	0		C	53208636	C	C	53208636	3	2	208	1	0	0	0	0	1	0	0	0	18062	1530	53	3	449	3	ZNF611	19	53208636	Missense_Mutation	SNP	T	TCGA-HU-A4GD-01A-11D-A25D-08	8275156	53208636	5920347	89	100407											
INSM1	3642	broad.mit.edu	37	chr20	20349829	20349829	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgccaaggtcttcagctgCccggccaacctggcctcgca	6	7	11	17	3	2	0	1	0	1	0	3	0	2	0	5	3	4	2	5	3	2	1			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr20:20349829C>T	uc002wrx.2	+	1	1065	c.918C>T	c.(916-918)TGC>TGT	p.C306C		NM_002196	NP_002187	Q01101	INSM1_HUMAN	insulinoma-associated 1	306	C2H2-type 2.				endocrine pancreas development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0649)		TCTTCAGCTGCCCGGCCAACC	0.562													4	13					0	0	0.021553	0	0		T	20349829	T	T	20349829	2	4	208	1	0	0	0	0	0	0	0	1	7787	747	26	2		2	INSM1	20	20349829	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08		20349829	42675691	90	100408											
RAE1	8480	broad.mit.edu	37	chr20	55949845	55949845	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgcatacgcttccagctaCgactggtcaaaggtgagaac	11	10	10	10	2	1	1	1	1	0	1	2	3	2	1	1	2	5	3	1	2	4	4			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr20:55949845C>T	uc002xyg.2	+	11	1349	c.1008C>T	c.(1006-1008)TAC>TAT	p.Y336Y	RAE1_uc010gis.1_Silent_p.Y289Y|RAE1_uc010git.1_Silent_p.Y336Y|RAE1_uc002xyh.2_Silent_p.Y336Y|RAE1_uc002xyi.2_Silent_p.Y336Y	NM_003610	NP_003601	P78406	RAE1L_HUMAN	RAE1 (RNA export 1, S.pombe) homolog	336					carbohydrate metabolic process|glucose transport|mRNA export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|cytoskeleton|nuclear outer membrane|nuclear pore	microtubule binding|RNA binding				0	Lung NSC(12;0.00263)|all_lung(29;0.00828)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;3.7e-14)|Epithelial(14;1.07e-09)|all cancers(14;1.11e-08)			CTTCCAGCTACGACTGGTCAA	0.368													6	67					0	0	0.021553	0	0		T	55949845	T	T	55949845	2	4	208	1	0	0	0	0	0	0	0	1	13023	547	19	1		1	RAE1	20	55949845	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	35600016	55949845	7075675	91	100409											
DSCAM	1826	broad.mit.edu	37	chr21	42080394	42080394	+	Missense_Mutation	SNP	A	G	G	1	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	actcaccagccttgatgtggAcatcctgacttctaattttc	9	14	6	12	0	2	2	1	2	1	0	4	3	3	3	3	1	1	0	3	1	1	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr21:42080394A>G	uc002yyq.1	-	2	799	c.347T>C	c.(346-348)GTC>GCC	p.V116A	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	116	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CTTGATGTGGACATCCTGACT	0.423													6	107					0	0	0.02938	0	0		G	42080394	G	G	42080394	3	3	208	1	0	0	0	0	1	0	0	0	4774	275	10	3	5819	3	DSCAM	21	42080394	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08		42080394	6049501	92	100410											
ARVCF	421	broad.mit.edu	37	chr22	19967629	19967629	+	Missense_Mutation	SNP	A	T	T	1	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	cttgcgggcgctatccactgAgggcgagcgccgcaccagcc	6	5	14	16	5	0	1	0	1	0	0	1	2	1	1	4	2	3	2	4	2	1	2			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr22:19967629A>T	uc002zqz.2	-	6	1304	c.1033T>A	c.(1033-1035)TCA>ACA	p.S345T	ARVCF_uc002zqy.2_5'Flank|ARVCF_uc002zra.2_3'UTR	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	345					cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CTATCCACTGAGGGCGAGCGC	0.731													7	7					0	0	0.02938	0	0		T	19967629	T	T	19967629	3	4	208	1	0	0	0	0	1	0	0	0	1004	304	11	5	1911	5	ARVCF	22	19967629	Missense_Mutation	SNP	A	TCGA-HU-A4GD-01A-11D-A25D-08		19967629	31336937	93	100411											
KCNJ4	3761	broad.mit.edu	37	chr22	38823654	38823654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aatcatgaaggagtcgatgaCgcagcccacgatggactgga	13	6	13	9	3	1	2	1	2	0	0	2	7	1	5	1	3	1	1	1	3	2	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chr22:38823654C>T	uc003avs.1	-	2	581	c.484G>A	c.(484-486)GTC>ATC	p.V162I	KCNJ4_uc003avt.1_Missense_Mutation_p.V162I	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	162	Helical; Name=M2; (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					GAGTCGATGACGCAGCCCACG	0.622													18	23					0	0	0.0333	0	0		T	38823654	T	T	38823654	3	4	208	1	0	0	0	0	1	0	0	0	8069	536	19	1	857	1	KCNJ4	22	38823654	Missense_Mutation	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	18856025	38823654	12480912	94	100412											
HEPH	9843	broad.mit.edu	37	chrX	65476078	65476078	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttgatgaaaataagtcttgGtatttggaggaaaatgtggc	13	14	12	2	0	1	2	0	2	1	0	1	4	1	4	0	4	0	1	0	4	6	5			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chrX:65476078G>C	uc011moz.1	+	17	2871	c.2811G>C	c.(2809-2811)TGG>TGC	p.W937C	HEPH_uc004dwn.2_Missense_Mutation_p.W937C|HEPH_uc004dwo.2_Missense_Mutation_p.W667C|HEPH_uc010nkr.2_Missense_Mutation_p.W745C|HEPH_uc011mpa.1_Missense_Mutation_p.W937C|HEPH_uc010nks.2_Missense_Mutation_p.W226C	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	934	Extracellular (Potential).|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						ATAAGTCTTGGTATTTGGAGG	0.448													25	35					0	0	0.083992	0	0		C	65476078	C	C	65476078	3	2	208	1	0	0	0	0	1	0	0	0	7070	1270	44	5	3030	5	HEPH	23	65476078	Missense_Mutation	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08		65476078	89794482	95	100413											
IGSF1	3547	broad.mit.edu	37	chrX	130409205	130409205	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaagagtcatattttcGccaggggccaccatgggacc	10	8	11	12	1	1	2	1	1	0	1	2	3	1	3	4	3	0	0	4	3	2	3	rs7879617		TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chrX:130409205G>A	uc004ewd.2	-	17	3478	c.3240C>T	c.(3238-3240)GGC>GGT	p.G1080G	IGSF1_uc004ewe.3_Silent_p.G1074G|IGSF1_uc004ewf.2_Silent_p.G1060G	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	1080	Extracellular (Potential).|Ig-like C2-type 11.				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						TCATATTTTCGCCAGGGGCCA	0.527													103	22					0	0	0.048971	0	0		A	130409205	A	A	130409205	2	1	208	1	0	0	0	0	0	0	0	1	7612	1074	38	1		1	IGSF1	23	130409205	Silent	SNP	G	TCGA-HU-A4GD-01A-11D-A25D-08	64933127	130409205	24861355	96	100414											
PLXNB3	5365	broad.mit.edu	37	chrX	153040483	153040483	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cctgaggggccaggggaggaCggccactgtgccactgtgcg	6	5	18	12	2	0	1	0	1	0	0	0	3	0	3	4	6	2	0	4	6	0	0			TCGA-HU-A4GD-01A-11D-A25D-08	TCGA-HU-A4GD-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	3980b1e2-d2d8-465d-b17f-840abcfc76f7	bf189546-e18b-4a55-8d8e-200019850a6e	g.chrX:153040483C>T	uc004fii.2	+	24	4254	c.4080C>T	c.(4078-4080)GAC>GAT	p.D1360D	PLXNB3_uc010nuk.2_Silent_p.D1383D|PLXNB3_uc011mzd.1_Silent_p.D999D|PLXNB3_uc004fij.1_RNA|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1360	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	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)					CAGGGGAGGACGGCCACTGTG	0.687													36	7					0	0	0.069456	0	0		T	153040483	T	T	153040483	2	4	208	1	0	0	0	0	0	0	0	1	12144	535	19	1		1	PLXNB3	23	153040483	Silent	SNP	C	TCGA-HU-A4GD-01A-11D-A25D-08	22631278	153040483	2230077	97	100415											
TTLL10	254173	broad.mit.edu	37	chr1	1120454	1120454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acacgttctggaaggcccggGgcctcgccaaggactgggtc	7	6	15	13	3	1	0	0	0	1	0	3	2	1	2	3	6	0	1	3	6	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:1120454G>A	uc001acy.2	+	13	1517	c.1366G>A	c.(1366-1368)GGC>AGC	p.G456S	TTLL10_uc010nyg.1_Missense_Mutation_p.G456S|TTLL10_uc001acz.1_Missense_Mutation_p.G383S	NM_001130045	NP_001123517	Q6ZVT0	TTL10_HUMAN	tubulin tyrosine ligase-like family, member 10	456	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			large_intestine(1)	1	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;4.75e-36)|OV - Ovarian serous cystadenocarcinoma(86;5.82e-22)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|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;0.199)		GAAGGCCCGGGGCCTCGCCAA	0.617													14	36					0	0	0.001855	0	0		A	1120454	A	A	1120454	3	1	209	1	0	0	0	0	1	0	0	0	16749	1232	43	4	1404	4	TTLL10	1	1120454	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		1120454	248130167	1	100416											
SDF4	51150	broad.mit.edu	37	chr1	1152973	1152973	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtacttgagcacctcctcGggctccaggtggtggttctg	4	12	13	12	1	1	1	0	1	1	0	4	1	3	1	3	4	2	4	3	4	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:1152973G>A	uc001adh.3	-	7	1337	c.1008C>T	c.(1006-1008)CCC>CCT	p.P336P	SDF4_uc001adg.2_RNA|SDF4_uc001adi.3_3'UTR|SDF4_uc009vjv.2_Silent_p.P214P|SDF4_uc009vjw.2_RNA	NM_016176	NP_057260	Q9BRK5	CAB45_HUMAN	stromal cell derived factor 4 isoform 2	336	6 (Potential).|Necessary for intracellular retention in Golgi apparatus lumen (By similarity).|EF-hand 6.				cerebellum development|fat cell differentiation|response to ethanol|UV protection|zymogen granule exocytosis	bleb|Golgi lumen|late endosome|soluble fraction	calcium ion binding|calcium ion binding|identical protein binding|protein binding			upper_aerodigestive_tract(1)|large_intestine(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;7.85e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.42e-21)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;4.83e-05)|Kidney(185;0.00252)|BRCA - Breast invasive adenocarcinoma(365;0.00263)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0368)|Lung(427;0.204)		GCACCTCCTCGGGCTCCAGGT	0.547													14	60					0	0	0.00245	0	0		A	1152973	A	A	1152973	2	1	209	1	0	0	0	0	0	0	0	1	13987	1103	39	1		1	SDF4	1	1152973	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	32519	1152973	248097648	2	100417											
CPSF3L	54973	broad.mit.edu	37	chr1	1250257	1250257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggaagtctcgctcccGgcagcgcttggagtcacgga	7	8	13	13	4	3	0	2	0	1	0	5	3	4	3	1	4	1	3	1	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:1250257G>A	uc001aee.1	-	7	707	c.649C>T	c.(649-651)CGG>TGG	p.R217W	CPSF3L_uc009vjy.1_RNA|CPSF3L_uc001aef.1_Missense_Mutation_p.R223W|CPSF3L_uc009vjz.1_Missense_Mutation_p.R195W|CPSF3L_uc010nyj.1_Missense_Mutation_p.R188W|CPSF3L_uc001aeg.1_Missense_Mutation_p.R93W|CPSF3L_uc001aeh.1_Missense_Mutation_p.R116W|CPSF3L_uc001aei.1_Missense_Mutation_p.R119W|CPSF3L_uc001aej.1_Missense_Mutation_p.R44W|CPSF3L_uc001aek.1_5'UTR	NM_017871	NP_060341	Q5TA45	INT11_HUMAN	cleavage and polyadenylation specific factor	217						Golgi apparatus|nucleus	hydrolase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;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)		TCTCGCTCCCGGCAGCGCTTG	0.637													6	66					0	0	0.001168	0	0		A	1250257	A	A	1250257	3	1	209	1	0	0	0	0	1	0	0	0	3830	1115	39	1	1197	1	CPSF3L	1	1250257	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	97284	1250257	248000364	3	100418											
MXRA8	54587	broad.mit.edu	37	chr1	1290256	1290256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tacgcagtgagaagtcaccgCgctcaaaggcatccgcgccc	10	5	11	15	5	2	1	2	1	0	1	3	2	3	1	3	1	1	3	3	1	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:1290256C>T	uc001aew.2	-	5	786	c.755G>A	c.(754-756)CGC>CAC	p.R252H	MXRA8_uc001aex.3_Missense_Mutation_p.R252H|MXRA8_uc001aey.3_Missense_Mutation_p.R252H|MXRA8_uc010nyl.1_Missense_Mutation_p.R252H|MXRA8_uc001aez.2_Missense_Mutation_p.R151H|MXRA8_uc001afa.2_Missense_Mutation_p.R243H	NM_032348	NP_115724	Q9BRK3	MXRA8_HUMAN	matrix-remodelling associated 8 precursor	252	Ig-like V-type 2.|Extracellular (Potential).					integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;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)		GAAGTCACCGCGCTCAAAGGC	0.692													3	39					0	0	0.004672	0	0		T	1290256	T	T	1290256	3	4	209	1	0	0	0	0	1	0	0	0	10023	768	27	1	597	1	MXRA8	1	1290256	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	39999	1290256	247960365	4	100419											
PIK3CD	5293	broad.mit.edu	37	chr1	9781280	9781280	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattgccacgtaggctccttCgccatcaagtcgctgcggaa	8	9	11	13	4	1	0	1	0	0	0	4	2	2	1	3	2	2	3	3	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:9781280C>T	uc001aqb.3	+	14	1993	c.1785C>T	c.(1783-1785)TTC>TTT	p.F595F	PIK3CD_uc010oaf.1_Silent_p.F594F|PIK3CD_uc001aqe.3_Silent_p.F619F	NM_005026	NP_005017	O00329	PK3CD_HUMAN	catalytic phosphatidylinositol 3-kinase delta	595					phosphatidylinositol-mediated signaling|protein phosphorylation	phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(4)|skin(2)|central_nervous_system(1)	7	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)		TAGGCTCCTTCGCCATCAAGT	0.652													23	88					0	0	0.00278	0	0		T	9781280	T	T	9781280	2	4	209	1	0	0	0	0	0	0	0	1	11934	883	31	1		1	PIK3CD	1	9781280	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	8491024	9781280	239469341	5	100420											
CLSTN1	22883	broad.mit.edu	37	chr1	9791937	9791937	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgttccatggggttggcCgtgtggattacattcaccta	6	13	13	9	2	1	0	1	0	0	0	2	1	2	1	3	4	1	2	3	4	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:9791937C>A	uc001aqh.2	-	17	3204	c.2445G>T	c.(2443-2445)ACG>ACT	p.T815T	CLSTN1_uc001aqi.2_Silent_p.T805T|CLSTN1_uc010oag.1_Silent_p.T796T|CLSTN1_uc001aqf.2_Silent_p.T51T	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	815	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		TGGGGTTGGCCGTGTGGATTA	0.582													19	55					1.87028e-06	2.01596e-06	0.012319	1	0		A	9791937	A	A	9791937	2	1	209	1	0	0	0	0	0	0	0	1	3564	639	23	5		5	CLSTN1	1	9791937	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10657	9791937	239458684	6	100421											
KIF1B	23095	broad.mit.edu	37	chr1	10386200	10386200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacggctgtgtgaacgagCgccttgccgaccgcacaccc	7	6	11	17	5	0	1	0	1	0	0	1	3	1	1	5	1	3	2	5	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:10386200C>T	uc001aqx.3	+	27	2909	c.2707C>T	c.(2707-2709)CGC>TGC	p.R903C	KIF1B_uc001aqw.3_Missense_Mutation_p.R857C|KIF1B_uc001aqy.2_Missense_Mutation_p.R877C|KIF1B_uc001aqz.2_Missense_Mutation_p.R903C|KIF1B_uc001ara.2_Missense_Mutation_p.R863C|KIF1B_uc001arb.2_Missense_Mutation_p.R889C	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	903					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		TGTGAACGAGCGCCTTGCCGA	0.537													44	197					0	0	0.01441	0	0		T	10386200	T	T	10386200	3	4	209	1	0	0	0	0	1	0	0	0	8300	768	27	1	4152	1	KIF1B	1	10386200	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	594263	10386200	238864421	7	100422											
PGD	5226	broad.mit.edu	37	chr1	10479510	10479510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtcagcactggggtccagGctggcattcccatgccctgt	6	9	12	14	0	1	0	1	0	0	0	3	0	3	0	3	4	2	3	3	4	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:10479510G>A	uc001arc.2	+	12	1336	c.1246G>A	c.(1246-1248)GCT>ACT	p.A416T	PGD_uc001ard.2_Missense_Mutation_p.A336T|PGD_uc010oak.1_Missense_Mutation_p.A394T|PGD_uc010oal.1_Missense_Mutation_p.A403T	NM_002631	NP_002622	P52209	6PGD_HUMAN	phosphogluconate dehydrogenase	416					pentose-phosphate shunt, oxidative branch	cytosol	NADP binding|phosphogluconate dehydrogenase (decarboxylating) activity|protein binding			ovary(1)	1	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;3.14e-07)|COAD - Colon adenocarcinoma(227;7.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000294)|Kidney(185;0.000728)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(132;0.00832)|READ - Rectum adenocarcinoma(331;0.0487)		TGGGGTCCAGGCTGGCATTCC	0.572													26	114					0	0	0.005443	0	0		A	10479510	A	A	10479510	3	1	209	1	0	0	0	0	1	0	0	0	11806	1203	42	2	1292	2	PGD	1	10479510	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	93310	10479510	238771111	8	100423											
UBIAD1	29914	broad.mit.edu	37	chr1	11333902	11333902	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatttggtcaacacttactAtgacttttccaagggcattg	11	15	7	8	0	1	1	1	1	0	0	2	1	2	1	1	2	2	1	1	2	5	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:11333902A>G	uc001asg.2	+	1	648	c.314A>G	c.(313-315)TAT>TGT	p.Y105C		NM_013319	NP_037451	Q9Y5Z9	UBIA1_HUMAN	UbiA prenyltransferase domain containing 1	105					menaquinone biosynthetic process	endoplasmic reticulum membrane|integral to membrane|mitochondrion|nucleus	prenyltransferase activity				0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.000818)|all_lung(284;0.00105)|Colorectal(325;0.0062)|Breast(348;0.012)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;1.52e-06)|COAD - Colon adenocarcinoma(227;0.000254)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00727)|READ - Rectum adenocarcinoma(331;0.0487)		AACACTTACTATGACTTTTCC	0.557													25	124					0	0	0.004656	0	0		G	11333902	G	G	11333902	3	3	209	1	0	0	0	0	1	0	0	0	16911	449	16	3	316	3	UBIAD1	1	11333902	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	854392	11333902	237916719	9	100424											
C1orf187	374946	broad.mit.edu	37	chr1	11779718	11779718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgtgtggagcccgagacgGccaacggcgaccagggatcc	8	4	16	13	4	0	1	0	0	0	1	1	5	1	3	4	4	2	1	4	4	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:11779718G>A	uc001asr.1	+	7	1155	c.1015G>A	c.(1015-1017)GCC>ACC	p.A339T	uc001ass.1_5'Flank	NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	339					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		GCCCGAGACGGCCAACGGCGA	0.637											OREG0013102	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	37					0	0	0.000602	0	0		A	11779718	A	A	11779718	3	1	209	1	0	0	0	0	1	0	0	0	2024	1203	42	2	1037	2	C1orf187	1	11779718	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	445816	11779718	237470903	10	100425											
VPS13D	55187	broad.mit.edu	37	chr1	12387745	12387745	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttggttgtttaagaatgcGgaacctctgaagtctctttc	9	15	10	7	1	2	2	0	1	2	1	4	3	2	3	1	2	2	3	1	2	4	5	rs147189508		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:12387745G>A	uc001atv.2	+	36	8172	c.8031G>A	c.(8029-8031)GCG>GCA	p.A2677A	VPS13D_uc001atw.2_Silent_p.A2677A|VPS13D_uc001atx.2_Silent_p.A1865A|VPS13D_uc001aty.1_Silent_p.A415A	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2677					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTAAGAATGCGGAACCTCTGA	0.502													54	211					0	0	0.01441	0	0		A	12387745	A	A	12387745	2	1	209	1	0	0	0	0	0	0	0	1	17218	1103	39	1		1	VPS13D	1	12387745	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	608027	12387745	236862876	11	100426											
VPS13D	55187	broad.mit.edu	37	chr1	12433859	12433859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaaggccattacctgtgcGgagctcgttttggatgtctc	8	12	11	10	2	1	0	0	0	1	0	3	2	1	2	2	3	4	2	2	3	3	3	rs151287134	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:12433859G>A	uc001atv.2	+	55	11004	c.10863G>A	c.(10861-10863)GCG>GCA	p.A3621A	VPS13D_uc001atw.2_Silent_p.A3596A|VPS13D_uc001atx.2_Silent_p.A2808A|VPS13D_uc009vnl.2_RNA	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	3620					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TTACCTGTGCGGAGCTCGTTT	0.323													5	70					0	0	0.000602	0	0		A	12433859	A	A	12433859	2	1	209	1	0	0	0	0	0	0	0	1	17218	1103	39	1		1	VPS13D	1	12433859	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	46114	12433859	236816762	12	100427											
PRAMEF12	390999	broad.mit.edu	37	chr1	12835827	12835827	+	Silent	SNP	G	A	A	0	0	1	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	ccaaggccgggtgggcagcaGcccttgatggtgatcctaga	8	7	15	11	1	0	3	0	2	0	1	1	3	1	3	4	4	2	2	4	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:12835827G>A	uc001aui.2	+	2	456	c.429G>A	c.(427-429)CAG>CAA	p.Q143Q		NM_001080830	NP_001074299	O95522	PRA12_HUMAN	PRAME family member 12	143										ovary(3)	3	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00818)|Colorectal(212;5.04e-06)|Kidney(185;4.99e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000198)|COAD - Colon adenocarcinoma(227;0.000245)|BRCA - Breast invasive adenocarcinoma(304;0.000295)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GTGGGCAGCAGCCCTTGATGG	0.547													10	126					0	0	0.008291	0	0		A	12835827	A	A	12835827	2	1	209	1	0	0	0	0	0	0	0	1	12450	962	34	2		2	PRAMEF12	1	12835827	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	401968	12835827	236414794	13	100428											
PDPN	10630	broad.mit.edu	37	chr1	13910346	13910346	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgcaaagtttgctgtcCggctgcctagggtctgggaa	8	10	13	10	1	1	0	0	0	1	0	2	1	2	1	2	3	4	4	2	3	4	2	rs113350533	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:13910346C>T	uc001avd.2	+	1	95	c.46C>T	c.(46-48)CGG>TGG	p.R16W	PDPN_uc001avc.2_Missense_Mutation_p.R16W|PDPN_uc009vob.2_5'Flank|PDPN_uc009voc.2_5'Flank|PDPN_uc001ave.2_5'Flank|PDPN_uc001avf.2_5'Flank	NM_006474	NP_006465	Q86YL7	PDPN_HUMAN	lung type-I cell membrane-associated	Error:Variant_position_missing_in_Q86YL7_after_alignment					cell morphogenesis|lymphangiogenesis|regulation of cell shape	filopodium membrane|integral to plasma membrane|lamellipodium membrane|microvillus membrane|ruffle membrane				ovary(2)	2	Ovarian(185;0.249)	all_lung(284;2.29e-05)|Lung NSC(185;4.37e-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;0.00969)|Colorectal(212;4.48e-06)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000347)|Kidney(185;0.00087)|KIRC - Kidney renal clear cell carcinoma(229;0.0027)|STAD - Stomach adenocarcinoma(313;0.00802)|READ - Rectum adenocarcinoma(331;0.0678)		GTTTGCTGTCCGGCTGCCTAG	0.687													5	52					0	0	0.000602	0	0		T	13910346	T	T	13910346	3	4	209	1	0	0	0	0	1	0	0	0	11707	643	23	1	48	1	PDPN	1	13910346	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1074519	13910346	235340275	14	100429											
CELA2A	63036	broad.mit.edu	37	chr1	15788097	15788097	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggcaagtggtaccacacCtgcggagggtccctgatagc	10	7	13	11	1	0	1	0	1	0	0	1	2	1	2	3	4	3	2	3	4	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:15788097C>A	uc001awk.2	+	3	197	c.171C>A	c.(169-171)ACC>ACA	p.T57T		NM_033440	NP_254275	P08217	CEL2A_HUMAN	elastase 2A preproprotein	57	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						GGTACCACACCTGCGGAGGGT	0.607													7	123					2.17888e-05	2.31595e-05	0.006214	1	0		A	15788097	A	A	15788097	2	1	209	1	0	0	0	0	0	0	0	1	3214	668	24	5		5	CELA2A	1	15788097	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1877751	15788097	233462524	15	100430											
EPHA2	1969	broad.mit.edu	37	chr1	16459797	16459797	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggctttcagcgtcttgatgGccaccggcacctccttcttc	4	12	9	16	3	3	1	1	1	2	0	5	1	4	1	4	3	1	2	4	3	0	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:16459797G>A	uc001aya.1	-	11	2068	c.1931C>T	c.(1930-1932)GCC>GTC	p.A644V		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	644	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	CGTCTTGATGGCCACCGGCAC	0.612													16	88					0	0	0.006122	0	0		A	16459797	A	A	16459797	3	1	209	1	0	0	0	0	1	0	0	0	5175	1203	42	2	1027	2	EPHA2	1	16459797	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	671700	16459797	232790824	16	100431											
ARHGEF19	128272	broad.mit.edu	37	chr1	16532039	16532039	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccctcgaggtacctccacCaacatcttgaggcgggtgat	8	9	10	14	2	1	2	0	2	1	0	4	3	3	2	5	3	2	1	5	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:16532039C>A	uc001ayc.1	-	9	1712	c.1575G>T	c.(1573-1575)TTG>TTT	p.L525F	ARHGEF19_uc009voo.1_5'UTR|ARHGEF19_uc001ayb.1_Missense_Mutation_p.L2F	NM_153213	NP_694945	Q8IW93	ARHGJ_HUMAN	Rho guanine nucleotide exchange factor (GEF) 19	525	DH.				regulation of actin cytoskeleton organization	intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		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)		GTACCTCCACCAACATCTTGA	0.627													4	27					0.00909568	0.0092679	0.009096	1	0		A	16532039	A	A	16532039	3	1	209	1	0	0	0	0	1	0	0	0	902	593	21	5	865	5	ARHGEF19	1	16532039	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	72242	16532039	232718582	17	100432											
IGSF21	84966	broad.mit.edu	37	chr1	18661448	18661448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtgggcatctacgaccGcgccaccagggagaaggtgg	9	5	15	12	3	1	1	0	0	1	1	1	3	1	1	4	4	1	1	4	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:18661448G>A	uc001bau.1	+	4	751	c.368G>A	c.(367-369)CGC>CAC	p.R123H		NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	123	Ig-like 1.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		ATCTACGACCGCGCCACCAGG	0.622													5	57					0	0	0.000602	0	0		A	18661448	A	A	18661448	3	1	209	1	0	0	0	0	1	0	0	0	7615	1087	38	1	382	1	IGSF21	1	18661448	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2129409	18661448	230589173	18	100433											
UBR4	23352	broad.mit.edu	37	chr1	19426940	19426940	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcttgttctttatatccCtcatcagcggcccgatgcct	8	14	6	13	2	4	0	2	0	2	0	5	1	5	0	3	1	2	1	3	1	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:19426940C>A	uc001bbi.2	-	89	13155	c.13151G>T	c.(13150-13152)AGG>ATG	p.R4384M	UBR4_uc010ocv.1_5'Flank|UBR4_uc009vph.2_Missense_Mutation_p.R18M|UBR4_uc010ocw.1_Missense_Mutation_p.R75M|UBR4_uc001bbg.2_Missense_Mutation_p.R95M|UBR4_uc001bbh.2_Missense_Mutation_p.R93M	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	4384					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CTTTATATCCCTCATCAGCGG	0.537													17	127					4.14922e-12	4.63042e-12	0.004007	1	0		A	19426940	A	A	19426940	3	1	209	1	0	0	0	0	1	0	0	0	16930	681	24	5	2472	5	UBR4	1	19426940	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	765492	19426940	229823681	19	100434											
UBR4	23352	broad.mit.edu	37	chr1	19472403	19472403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccttccaactgcttctgcGgttccttcccttcatccatt	4	16	4	17	1	2	0	1	0	1	0	7	0	7	0	5	1	3	2	5	1	1	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:19472403G>A	uc001bbi.2	-	53	7833	c.7829C>T	c.(7828-7830)CCG>CTG	p.P2610L	UBR4_uc001bbk.1_Missense_Mutation_p.P292L	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	2610					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		CTGCTTCTGCGGTTCCTTCCC	0.418													18	57					0	0	0.008871	0	0		A	19472403	A	A	19472403	3	1	209	1	0	0	0	0	1	0	0	0	16930	1116	39	1	7938	1	UBR4	1	19472403	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	45463	19472403	229778218	20	100435											
UBR4	23352	broad.mit.edu	37	chr1	19482887	19482887	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtgatccgaaacagagcCtgagctactaaaggtgagca	15	6	11	9	1	0	4	0	3	0	1	1	5	1	4	2	1	5	2	2	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:19482887C>A	uc001bbi.2	-	42	5954	c.5950G>T	c.(5950-5952)GGC>TGC	p.G1984C	UBR4_uc001bbl.1_Translation_Start_Site|UBR4_uc001bbm.1_Missense_Mutation_p.G1195C	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1984					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		GAAACAGAGCCTGAGCTACTA	0.438													11	60					0.00829132	0.008484	0.008291	1	0		A	19482887	A	A	19482887	3	1	209	1	0	0	0	0	1	0	0	0	16930	681	24	5	9861	5	UBR4	1	19482887	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10484	19482887	229767734	21	100436											
KIF17	57576	broad.mit.edu	37	chr1	20992758	20992758	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggctggcccgcttagatcGgaagtagttgctggcaatgt	7	11	14	9	2	0	1	0	0	0	1	1	2	0	2	1	4	1	6	1	4	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:20992758G>A	uc001bdr.3	-	14	2978	c.2860C>T	c.(2860-2862)CGA>TGA	p.R954*	KIF17_uc001bdp.3_Nonsense_Mutation_p.R231*|KIF17_uc001bdq.3_Nonsense_Mutation_p.R232*|KIF17_uc009vpx.2_Nonsense_Mutation_p.R324*|KIF17_uc001bds.3_Nonsense_Mutation_p.R953*	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	954					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CGCTTAGATCGGAAGTAGTTG	0.607													11	151					0	0	0.008291	0	0		A	20992758	A	A	20992758	4	1	209	1	0	0	0	0	0	1	0	0	8295	1124	39	1	237	1	KIF17	1	20992758	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1509871	20992758	228257863	22	100437											
RAP1GAP	5909	broad.mit.edu	37	chr1	21938056	21938056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtctgcccgtgggtcacGtccaggcctcctcggaacct	4	8	11	18	4	2	0	1	0	1	0	5	1	4	1	6	3	2	0	6	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:21938056G>A	uc001bex.2	-	13	990	c.732C>T	c.(730-732)GAC>GAT	p.D244D	RAP1GAP_uc001bev.2_Silent_p.D244D|RAP1GAP_uc001bew.2_Silent_p.D308D|RAP1GAP_uc001bey.2_Silent_p.D244D	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	244	Rap-GAP.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		CGTGGGTCACGTCCAGGCCTC	0.662													21	58					0	0	0.012319	0	0		A	21938056	A	A	21938056	2	1	209	1	0	0	0	0	0	0	0	1	13062	1136	40	1		1	RAP1GAP	1	21938056	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	945298	21938056	227312565	23	100438											
HSPG2	3339	broad.mit.edu	37	chr1	22160083	22160083	+	Missense_Mutation	SNP	T	C	C	0	1	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	catgttgttctccaggcggcTgtcaggtggcaggctgccat	5	11	14	11	1	2	0	1	0	1	0	3	0	2	0	2	5	1	5	2	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:22160083T>C	uc001bfj.2	-	79	10895	c.10855A>G	c.(10855-10857)AGC>GGC	p.S3619G	HSPG2_uc001bfi.2_5'Flank|HSPG2_uc009vqd.2_Missense_Mutation_p.S3620G	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3619	Ig-like C2-type 22.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	TCCAGGCGGCTGTCAGGTGGC	0.647													10	60					0	0	0.001855	0	0		C	22160083	C	C	22160083	3	2	209	1	0	0	0	0	1	0	0	0	7446	1580	55	3	2396	3	HSPG2	1	22160083	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	222027	22160083	227090538	24	100439											
HSPG2	3339	broad.mit.edu	37	chr1	22205552	22205552	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggccgtggccttcatggcGtccccaaagaagccagcctt	7	8	12	14	2	1	1	1	0	0	1	2	1	2	1	6	3	2	0	6	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:22205552G>A	uc001bfj.2	-	18	2446	c.2406C>T	c.(2404-2406)GAC>GAT	p.D802D	HSPG2_uc009vqd.2_Silent_p.D803D	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	802	Laminin EGF-like 2.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCTTCATGGCGTCCCCAAAGA	0.617													8	53					0	0	0.006214	0	0		A	22205552	A	A	22205552	2	1	209	1	0	0	0	0	0	0	0	1	7446	1136	40	1		1	HSPG2	1	22205552	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	45469	22205552	227045069	25	100440											
GRHL3	57822	broad.mit.edu	37	chr1	24669391	24669391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcccatcaggcgtcaaggGctgcctgctgtcgggcttca	5	10	12	14	2	4	0	3	0	1	0	6	0	4	0	2	3	2	3	2	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:24669391G>A	uc001biy.2	+	11	1356	c.1310G>A	c.(1309-1311)GGC>GAC	p.G437D	GRHL3_uc001bix.2_Missense_Mutation_p.G432D|GRHL3_uc001biz.2_Missense_Mutation_p.G339D	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	432					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		GGCGTCAAGGGCTGCCTGCTG	0.622													8	166					0	0	0.00308	0	0		A	24669391	A	A	24669391	3	1	209	1	0	0	0	0	1	0	0	0	6781	1203	42	2	1373	2	GRHL3	1	24669391	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2463839	24669391	224581230	26	100441											
ARID1A	8289	broad.mit.edu	37	chr1	27097630	27097630	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtcaacaagaacaaaaaatgGcgggaacttgcaaccaacct	18	5	8	10	1	1	1	1	0	0	1	1	2	1	2	2	2	6	1	2	2	9	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:27097630G>A	uc001bmv.1	+	12	3592	c.3219G>A	c.(3217-3219)TGG>TGA	p.W1073*	ARID1A_uc001bmt.1_Nonsense_Mutation_p.W1073*|ARID1A_uc001bmu.1_Nonsense_Mutation_p.W1073*|ARID1A_uc001bmw.1_Nonsense_Mutation_p.W690*|ARID1A_uc001bmx.1_5'UTR|ARID1A_uc009vsm.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1073	ARID.			W->A: Partial loss of DNA-binding activity. Complete loss of activity; when associated with A-1096.	androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding			ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		ACAAAAAATGGCGGGAACTTG	0.488			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								4	45					0	0	0.000602	0	0		A	27097630	A	A	27097630	4	1	209	1	0	0	0	0	0	1	0	0	913	1212	42	2	3265	2	ARID1A	1	27097630	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2428239	27097630	222152991	27	100442											
SYTL1	84958	broad.mit.edu	37	chr1	27673938	27673938	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcctcagtggcagaccCtgggcagctgaagatcctga	8	6	14	13	1	1	4	1	2	0	2	2	4	2	4	4	3	1	3	4	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:27673938C>A	uc001bnw.1	+	3	385	c.218C>A	c.(217-219)CCT>CAT	p.P73H	SYTL1_uc001bnv.1_Missense_Mutation_p.P73H|SYTL1_uc009vsu.1_Missense_Mutation_p.P73H|SYTL1_uc001bnx.2_Missense_Mutation_p.P73H|SYTL1_uc009vsv.1_Missense_Mutation_p.P73H	NM_032872	NP_116261	Q8IYJ3	SYTL1_HUMAN	synaptotagmin-like 1	73	RabBD.				exocytosis|intracellular protein transport	extrinsic to plasma membrane|melanosome|soluble fraction	neurexin binding|Rab GTPase binding			ovary(1)	1		Colorectal(325;0.000147)|all_lung(284;0.000366)|Lung NSC(340;0.000548)|Renal(390;0.00211)|Breast(348;0.0115)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0908)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.5e-28)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.0013)|KIRC - Kidney renal clear cell carcinoma(1967;0.00158)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		GTGGCAGACCCTGGGCAGCTG	0.498													10	57					5.16669e-11	5.73506e-11	0.010729	1	0		A	27673938	A	A	27673938	3	1	209	1	0	0	0	0	1	0	0	0	15507	681	24	5	224	5	SYTL1	1	27673938	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	576308	27673938	221576683	28	100443											
AHDC1	27245	broad.mit.edu	37	chr1	27876334	27876334	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccccggcccactcagcacCtgcctccccaaagcctgggc	7	5	8	21	1	1	0	1	0	0	0	3	0	3	0	8	2	3	1	8	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:27876334C>A	uc009vsy.2	-	6	3262	c.2293G>T	c.(2293-2295)GGT>TGT	p.G765C	AHDC1_uc009vsz.1_Missense_Mutation_p.G765C	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1	765	Gly-rich.						DNA binding			central_nervous_system(1)	1		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)		CACTCAGCACCTGCCTCCCCA	0.652													7	82					0.000274275	0.000287326	0.004482	1	0		A	27876334	A	A	27876334	3	1	209	1	0	0	0	0	1	0	0	0	412	681	24	5	2522	5	AHDC1	1	27876334	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	202396	27876334	221374287	29	100444											
HCRTR1	3061	broad.mit.edu	37	chr1	32090630	32090630	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccgccaagccagtgaccGcgaagctgtctacgcctgct	7	8	11	15	4	1	1	0	1	1	0	2	2	2	1	5	0	4	3	5	0	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:32090630G>A	uc009vtx.2	+	8	1383	c.998G>A	c.(997-999)CGC>CAC	p.R333H	HCRTR1_uc001btb.2_Missense_Mutation_p.R158H|HCRTR1_uc001btc.3_Missense_Mutation_p.R247H|HCRTR1_uc001btd.2_Missense_Mutation_p.R333H|HCRTR1_uc010ogl.1_Missense_Mutation_p.R333H	NM_001525	NP_001516	O43613	OX1R_HUMAN	orexin receptor 1	333	Extracellular (Potential).				feeding behavior|neuropeptide signaling pathway|synaptic transmission	integral to plasma membrane				ovary(1)	1		Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.053)		GCCAGTGACCGCGAAGCTGTC	0.597													18	78					0	0	0.006122	0	0		A	32090630	A	A	32090630	3	1	209	1	0	0	0	0	1	0	0	0	7017	1087	38	1	1020	1	HCRTR1	1	32090630	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4214296	32090630	217159991	30	100445											
RBBP4	5928	broad.mit.edu	37	chr1	33134427	33134427	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttggaacccaaatctcagtgGgcacttacttagtgcttcag	10	12	9	10	0	2	0	2	0	1	0	3	1	2	1	1	2	3	2	1	2	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:33134427G>T	uc001bvr.2	+	5	731	c.572G>T	c.(571-573)GGG>GTG	p.G191V	RBBP4_uc001bvs.2_Missense_Mutation_p.G190V|RBBP4_uc010ohj.1_5'UTR|RBBP4_uc010ohk.1_Missense_Mutation_p.G156V	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	191	WD 2.				cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				AATCTCAGTGGGCACTTACTT	0.483													13	86					1.61879e-10	1.79003e-10	0.013537	1	0		T	33134427	T	T	33134427	3	4	209	1	0	0	0	0	1	0	0	0	13126	1232	43	5	590	5	RBBP4	1	33134427	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1043797	33134427	216116194	31	100446											
KIAA1522	57648	broad.mit.edu	37	chr1	33237694	33237694	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctgcctcaacggccagtTtcatcttctccaagggctct	6	11	7	17	1	5	0	2	0	3	0	6	0	5	0	5	2	2	2	5	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:33237694T>C	uc001bvv.2	+	6	2873	c.2737T>C	c.(2737-2739)TTC>CTC	p.F913L	KIAA1522_uc001bvu.1_Missense_Mutation_p.F972L|KIAA1522_uc010ohm.1_Missense_Mutation_p.F924L|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	913	Pro-rich.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				AACGGCCAGTTTCATCTTCTC	0.657													5	24					0	0	0.000602	0	0		C	33237694	C	C	33237694	3	2	209	1	0	0	0	0	1	0	0	0	8254	1841	64	3	2936	3	KIAA1522	1	33237694	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	103267	33237694	216012927	32	100447											
DLGAP3	58512	broad.mit.edu	37	chr1	35334674	35334674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgtcacactattggagcGcttgaaccttgctcgcctgg	7	10	11	13	3	1	1	1	1	0	0	2	2	1	2	3	2	4	2	3	2	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:35334674G>A	uc001byc.2	-	7	2017	c.2017C>T	c.(2017-2019)CGC>TGC	p.R673C		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	673					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				CTATTGGAGCGCTTGAACCTT	0.632													6	16					0	0	0.001984	0	0		A	35334674	A	A	35334674	3	1	209	1	0	0	0	0	1	0	0	0	4567	1087	38	1	938	1	DLGAP3	1	35334674	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2096980	35334674	213915947	33	100448											
MACF1	23499	broad.mit.edu	37	chr1	39797522	39797522	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attttccgtgcagttcaggaAgggctaatagataggcaggt	11	11	13	6	1	1	1	1	0	0	1	2	2	2	2	1	4	1	4	1	4	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:39797522A>T	uc010oiu.1	+	1	713	c.582A>T	c.(580-582)GAA>GAT	p.E194D	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1759					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CAGTTCAGGAAGGGCTAATAG	0.488													16	48					0	0	0.004007	0	0		T	39797522	T	T	39797522	3	4	209	1	0	0	0	0	1	0	0	0	9162	69	3	5	5353	5	MACF1	1	39797522	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	4462848	39797522	209453099	34	100449											
NT5C1A	84618	broad.mit.edu	37	chr1	40131256	40131256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atggttgttagtcatgaggaCgatgtcgaagacgtcctcac	10	11	12	8	3	2	2	2	1	0	1	4	5	3	3	1	2	0	2	1	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:40131256C>T	uc001cdq.1	-	3	370	c.370G>A	c.(370-372)GTC>ATC	p.V124I		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	124					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GTCATGAGGACGATGTCGAAG	0.582													7	39					0	0	0.001984	0	0		T	40131256	T	T	40131256	3	4	209	1	0	0	0	0	1	0	0	0	10704	536	19	1	752	1	NT5C1A	1	40131256	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	333734	40131256	209119365	35	100450											
OXCT2	64064	broad.mit.edu	37	chr1	40236095	40236095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatcgttaagcgctcaattCgtttctcgtatttctgcccc	6	15	8	12	4	3	0	1	0	2	0	6	1	3	1	2	1	2	4	2	1	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:40236095C>T	uc001ceb.1	-	1	926	c.833G>A	c.(832-834)CGA>CAA	p.R278Q	BMP8B_uc001cdz.1_Intron|BMP8B_uc001cea.1_Intron|OXCT2_uc009vvu.1_Missense_Mutation_p.R272Q	NM_022120	NP_071403	Q9BYC2	SCOT2_HUMAN	3-oxoacid CoA transferase 2 precursor	278					ketone body catabolic process	microtubule-based flagellum|mitochondrion	3-oxoacid CoA-transferase activity			pancreas(1)	1	all_cancers(7;5.56e-14)|all_lung(5;3.88e-17)|all_epithelial(6;3.78e-16)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;1.92e-17)|all cancers(16;4.03e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)		Succinic acid(DB00139)	GCGCTCAATTCGTTTCTCGTA	0.517											OREG0013400	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	109					0	0	0.008871	0	0		T	40236095	T	T	40236095	3	4	209	1	0	0	0	0	1	0	0	0	11349	884	31	1	724	1	OXCT2	1	40236095	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	104839	40236095	209014526	36	100451											
SLFNL1	200172	broad.mit.edu	37	chr1	41486228	41486228	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgaggtcagagtactcCgtcagggactgctctgcggg	6	9	14	12	3	3	1	2	0	1	1	6	3	5	2	2	3	3	2	2	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:41486228C>T	uc001cgm.1	-	2	325	c.105G>A	c.(103-105)ACG>ACA	p.T35T	SLFNL1_uc009vwf.1_Silent_p.T35T|SLFNL1_uc001cgn.1_Silent_p.T35T|SLFNL1_uc009vwg.1_Silent_p.T35T	NM_144990	NP_659427	Q499Z3	SLNL1_HUMAN	schlafen-like 1	35							ATP binding			skin(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Breast(333;0.1)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0393)				CAGAGTACTCCGTCAGGGACT	0.622													18	98					0	0	0.007413	0	0		T	41486228	T	T	41486228	2	4	209	1	0	0	0	0	0	0	0	1	14763	639	23	1		1	SLFNL1	1	41486228	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1250133	41486228	207764393	37	100452											
HIVEP3	59269	broad.mit.edu	37	chr1	42049025	42049025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgccttggcttcacgctgtCgatctcgctggtgtccacca	4	11	10	16	4	2	0	1	0	1	0	5	1	3	0	4	2	0	3	4	2	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:42049025C>T	uc001cgz.3	-	4	2657	c.1444G>A	c.(1444-1446)GAC>AAC	p.D482N	HIVEP3_uc001cha.3_Missense_Mutation_p.D482N|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	482	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TTCACGCTGTCGATCTCGCTG	0.612													8	107					0	0	0.004482	0	0		T	42049025	T	T	42049025	3	4	209	1	0	0	0	0	1	0	0	0	7204	884	31	1	5800	1	HIVEP3	1	42049025	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	562797	42049025	207201596	38	100453											
CCDC30	728621	broad.mit.edu	37	chr1	43032075	43032075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaactcagctgaaaatgagCttcgatatgaacgagggcag	14	7	12	8	2	1	3	1	3	0	0	2	5	1	3	0	1	4	4	0	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:43032075C>T	uc009vwk.1	+	6	894	c.784C>T	c.(784-786)CTT>TTT	p.L262F	CCDC30_uc001chm.2_5'UTR|CCDC30_uc001chn.2_Missense_Mutation_p.L51F|CCDC30_uc010oju.1_RNA|CCDC30_uc001chp.2_Missense_Mutation_p.L76F	NM_001080850	NP_001074319	Q5VVM6	CCD30_HUMAN	coiled-coil domain containing 30	262	Potential.										0						TGAAAATGAGCTTCGATATGA	0.403													15	82					0	0	0.00499	0	0		T	43032075	T	T	43032075	3	4	209	1	0	0	0	0	1	0	0	0	2808	797	28	2	802	2	CCDC30	1	43032075	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	983050	43032075	206218546	39	100454											
CLDN19	149461	broad.mit.edu	37	chr1	43204116	43204116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggatgaagagggctccccCggcgatggcaacacggccct	9	4	14	14	3	0	2	0	1	0	1	1	4	1	3	3	5	1	2	3	5	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:43204116C>T	uc001cht.1	-	2	555	c.364G>A	c.(364-366)GGG>AGG	p.G122R	CLDN19_uc001chu.2_Missense_Mutation_p.G122R|CLDN19_uc010ojv.1_Missense_Mutation_p.G122R	NM_148960	NP_683763	Q8N6F1	CLD19_HUMAN	claudin 19 isoform a	122	Helical; (Potential).				calcium-independent cell-cell adhesion|response to stimulus|visual perception	basolateral plasma membrane|integral to membrane|tight junction	identical protein binding				0	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				AGGGCTCCCCCGGCGATGGCA	0.657													6	56					0	0	0.001984	0	0		T	43204116	T	T	43204116	3	4	209	1	0	0	0	0	1	0	0	0	3483	652	23	1	442	1	CLDN19	1	43204116	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	172041	43204116	206046505	40	100455											
TIE1	7075	broad.mit.edu	37	chr1	43774660	43774660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtcctttctccccagaccGgatcccccagatcctcaaca	8	9	6	18	1	2	2	1	0	1	2	6	3	5	3	7	1	1	0	7	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:43774660G>A	uc001ciu.2	+	8	1125	c.1046G>A	c.(1045-1047)CGG>CAG	p.R349Q	TIE1_uc010okd.1_Missense_Mutation_p.R349Q|TIE1_uc010oke.1_Missense_Mutation_p.R304Q|TIE1_uc009vwq.2_Missense_Mutation_p.R305Q|TIE1_uc010okf.1_5'UTR|TIE1_uc010okg.1_5'UTR|TIE1_uc010okc.1_Intron	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	349	Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCCCCAGACCGGATCCCCCAG	0.587													17	53					0	0	0.006122	0	0		A	43774660	A	A	43774660	3	1	209	1	0	0	0	0	1	0	0	0	15918	1116	39	1	1076	1	TIE1	1	43774660	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	570544	43774660	205475961	41	100456											
KIAA0467	23334	broad.mit.edu	37	chr1	43896975	43896975	+	Silent	SNP	A	G	G	1	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	gcttcatttccacgatccccAgggcagccatcatctttaag	9	11	7	14	1	3	0	2	0	1	0	5	1	5	0	4	1	1	2	4	1	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:43896975A>G	uc001cjk.1	+	19	2721	c.2259A>G	c.(2257-2259)CCA>CCG	p.P753P		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1652						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CACGATCCCCAGGGCAGCCAT	0.522													32	200					0	0	0.004289	0	0		G	43896975	G	G	43896975	2	3	209	1	0	0	0	0	0	0	0	1	8194	175	7	3		3	KIAA0467	1	43896975	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	122315	43896975	205353646	42	100457											
KIAA0467	23334	broad.mit.edu	37	chr1	43908165	43908165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgggggcagcattgggccGagcgctggttcgcctggtgc	3	8	18	12	3	0	0	0	0	0	0	1	1	0	0	3	5	3	4	3	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:43908165G>A	uc001cjk.1	+	43	5792	c.5330G>A	c.(5329-5331)CGA>CAA	p.R1777Q		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	2676						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCATTGGGCCGAGCGCTGGTT	0.602													11	67					0	0	0.008291	0	0		A	43908165	A	A	43908165	3	1	209	1	0	0	0	0	1	0	0	0	8194	1058	37	1	5492	1	KIAA0467	1	43908165	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	11190	43908165	205342456	43	100458											
SLC6A9	6536	broad.mit.edu	37	chr1	44467245	44467245	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgaggatggagaagatgacGaagccagcatagacgctggt	13	5	15	8	3	0	4	0	1	0	3	0	8	0	5	2	3	2	2	2	3	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:44467245G>A	uc001cll.2	-	9	1428	c.1236C>T	c.(1234-1236)TTC>TTT	p.F412F	SLC6A9_uc009vxe.2_Silent_p.F268F|SLC6A9_uc010okm.1_Silent_p.F339F|SLC6A9_uc001clm.2_Silent_p.F358F|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Silent_p.F343F|SLC6A9_uc001cln.2_Silent_p.F339F|SLC6A9_uc010oko.1_Silent_p.F228F|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	412	Helical; Name=7; (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	AGAAGATGACGAAGCCAGCAT	0.587													41	146					0	0	0.01441	0	0		A	44467245	A	A	44467245	2	1	209	1	0	0	0	0	0	0	0	1	14716	1049	37	1		1	SLC6A9	1	44467245	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	559080	44467245	204783376	44	100459											
TESK2	10420	broad.mit.edu	37	chr1	45811603	45811603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcttcttcctgtaggcGgctcagaatttcctccaggg	5	13	10	13	1	3	1	1	0	2	1	6	1	6	1	3	3	1	3	3	3	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:45811603G>A	uc001cns.1	-	10	1346	c.943C>T	c.(943-945)CGC>TGC	p.R315C	TESK2_uc009vxr.1_Missense_Mutation_p.R286C|TESK2_uc010olo.1_Missense_Mutation_p.R232C|TESK2_uc009vxs.1_Missense_Mutation_p.R107C	NM_007170	NP_009101	Q96S53	TESK2_HUMAN	testis-specific protein kinase 2	315					actin cytoskeleton organization|focal adhesion assembly|spermatogenesis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(2)|pancreas(1)	5	Acute lymphoblastic leukemia(166;0.155)					TCCTGTAGGCGGCTCAGAATT	0.547													5	94					0	0	0.000602	0	0		A	45811603	A	A	45811603	3	1	209	1	0	0	0	0	1	0	0	0	15793	1116	39	1	780	1	TESK2	1	45811603	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1344358	45811603	203439018	45	100460											
MOBKL2C	148932	broad.mit.edu	37	chr1	47078943	47078943	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccggctcaaagcgcttccgCggccggaacgtcttgtcctt	5	9	11	16	6	2	0	1	0	1	0	4	1	4	1	4	3	2	2	4	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:47078943C>T	uc001cqf.3	-	2	282	c.51G>A	c.(49-51)CCG>CCA	p.P17P	MKNK1_uc010omf.1_Intron|MOBKL2C_uc001cqe.3_Silent_p.P69P	NM_201403	NP_958805	Q70IA8	MOL2C_HUMAN	MOB1, Mps One Binder kinase activator-like 2C	17							metal ion binding			pancreas(1)	1	Acute lymphoblastic leukemia(166;0.155)					AGCGCTTCCGCGGCCGGAACG	0.647													30	103					0	0	0.013726	0	0		T	47078943	T	T	47078943	2	4	209	1	0	0	0	0	0	0	0	1	9704	755	27	1		1	MOBKL2C	1	47078943	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1267340	47078943	202171678	46	100461											
FOXD2	2306	broad.mit.edu	37	chr1	47904538	47904538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccggagctgctgctgcGtggcggggccgcggcggcgg	2	5	20	14	7	1	0	1	0	0	0	1	1	1	1	2	7	4	3	2	7	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:47904538G>A	uc001crm.2	+	1	2850	c.731G>A	c.(730-732)CGT>CAT	p.R244H		NM_004474	NP_004465	O60548	FOXD2_HUMAN	forkhead box D2	244	Pro-rich.				axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0				READ - Rectum adenocarcinoma(2;0.0908)		CTGCTGCTGCGTggcggggcc	0.637													7	16					0	0	0.001984	0	0		A	47904538	A	A	47904538	3	1	209	1	0	0	0	0	1	0	0	0	6011	1145	40	1	733	1	FOXD2	1	47904538	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	825595	47904538	201346083	47	100462											
BEND5	79656	broad.mit.edu	37	chr1	49224924	49224924	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgcctcgatgctcttgtgCgccacttcgctcggcttccg	3	12	10	16	5	1	0	0	0	1	0	5	1	2	0	3	1	3	3	3	1	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:49224924C>T	uc001crx.3	-	3	437	c.393G>A	c.(391-393)GCG>GCA	p.A131A	AGBL4_uc001cru.2_Intron|AGBL4_uc010omw.1_Intron|AGBL4_uc010omx.1_Intron|AGBL4_uc001crv.1_Intron|AGBL4_uc010omy.1_Intron|BEND5_uc001crw.3_5'UTR	NM_024603	NP_078879	Q7L4P6	BEND5_HUMAN	BEN domain containing 5	131										skin(1)	1						TGCTCTTGTGCGCCACTTCGC	0.587													3	9					0	0	0.004672	0	0		T	49224924	T	T	49224924	2	4	209	1	0	0	0	0	0	0	0	1	1402	755	27	1		1	BEND5	1	49224924	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1320386	49224924	200025697	48	100463											
DMRTA2	63950	broad.mit.edu	37	chr1	50884936	50884936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacctgctcgatggcctgcaCcacgtcgccgccgcagccct	5	6	10	20	5	0	0	0	0	0	0	2	1	0	0	6	1	3	3	6	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:50884936C>T	uc010ona.1	-	2	1126	c.1030G>A	c.(1030-1032)GTG>ATG	p.V344M	DMRTA2_uc010onb.1_Missense_Mutation_p.V344M	NM_032110	NP_115486	Q96SC8	DMTA2_HUMAN	DMRT-like family A2	344	Gly-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						ATGGCCTGCACCACGTCGCCG	0.726													4	28					0	0	0.009096	0	0		T	50884936	T	T	50884936	3	4	209	1	0	0	0	0	1	0	0	0	4595	507	18	4	602	4	DMRTA2	1	50884936	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1660012	50884936	198365685	49	100464											
FAF1	11124	broad.mit.edu	37	chr1	50941230	50941230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caatctggagcttgttgctgGccaggaaacgccgctccaag	9	8	12	12	2	1	0	0	0	1	0	2	2	2	2	3	3	3	4	3	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:50941230G>A	uc009vyx.1	-	19	1838	c.1775C>T	c.(1774-1776)GCC>GTC	p.A592V	FAF1_uc009vyw.1_RNA|FAF1_uc001cse.1_Missense_Mutation_p.A592V|FAF1_uc010onc.1_Missense_Mutation_p.A350V	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	592	UBX.				apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		CTTGTTGCTGGCCAGGAAACG	0.517													23	64					0	0	0.00278	0	0		A	50941230	A	A	50941230	3	1	209	1	0	0	0	0	1	0	0	0	5380	1203	42	2	185	2	FAF1	1	50941230	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	56294	50941230	198309391	50	100465											
CYB5RL	606495	broad.mit.edu	37	chr1	54661202	54661202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acagggtgagcagccactgcCgcagcactgggaaggcaagg	11	3	16	11	1	0	1	0	1	0	0	0	2	0	2	2	4	4	4	2	4	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:54661202C>T	uc009vzo.2	-	3	408	c.88G>A	c.(88-90)GGC>AGC	p.G30S	CYB5RL_uc001cww.2_5'UTR|CYB5RL_uc001cwx.3_RNA|CYB5RL_uc001cwy.3_5'UTR	NM_001031672	NP_001026842	Q6IPT4	NB5R5_HUMAN	cytochrome b5 reductase-like	30							cytochrome-b5 reductase activity				0						CAGCCACTGCCGCAGCACTGG	0.622													4	99					0	0	0.009096	0	0		T	54661202	T	T	54661202	3	4	209	1	0	0	0	0	1	0	0	0	4133	652	23	1	883	1	CYB5RL	1	54661202	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3719972	54661202	194589419	51	100466											
LEPR	3953	broad.mit.edu	37	chr1	66102159	66102159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaccctttgttaaatacGccacgctgatcagcaactct	12	10	6	13	2	2	1	1	1	1	0	2	2	2	1	2	0	4	3	2	0	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:66102159G>A	uc001dci.2	+	20	3161	c.2959G>A	c.(2959-2961)GCC>ACC	p.A987T	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	987	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TGTTAAATACGCCACGCTGAT	0.428													23	56					0	0	0.014323	0	0		A	66102159	A	A	66102159	3	1	209	1	0	0	0	0	1	0	0	0	8744	1087	38	1	3259	1	LEPR	1	66102159	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	11440957	66102159	183148462	52	100467											
PTGER3	5733	broad.mit.edu	37	chr1	71512649	71512649	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgaagcaccacgtcccGggccactggacggtgtactg	8	7	13	13	3	0	2	0	2	0	0	1	3	1	3	3	3	2	2	3	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:71512649G>A	uc001dfg.1	-	1	843	c.612C>T	c.(610-612)CCC>CCT	p.P204P	PTGER3_uc001dfh.1_RNA|PTGER3_uc001dfi.1_RNA|PTGER3_uc001dfj.1_RNA|PTGER3_uc001dfk.1_Silent_p.P204P|PTGER3_uc001dfl.1_Silent_p.P204P|PTGER3_uc009wbm.1_Silent_p.P204P|PTGER3_uc001dfm.1_RNA|PTGER3_uc001dfn.2_Silent_p.P204P|PTGER3_uc009wbn.1_Silent_p.P204P|PTGER3_uc009wbo.2_Silent_p.P204P|PTGER3_uc001dfo.2_Silent_p.P204P|PTGER3_uc001dfp.1_Silent_p.P204P|PTGER3_uc001dfq.2_Silent_p.P204P|uc001dfr.2_RNA	NM_198714	NP_942007	P43115	PE2R3_HUMAN	prostaglandin E receptor 3, subtype EP3 isoform	204	Extracellular (Potential).				cell death|positive regulation of fever generation|transcription, DNA-dependent	integral to plasma membrane|nuclear envelope	ligand-dependent nuclear receptor activity|prostaglandin E receptor activity			pancreas(1)|lung(1)|skin(1)	3					Bimatoprost(DB00905)	ACCACGTCCCGGGCCACTGGA	0.682													9	70					0	0	0.013537	0	0		A	71512649	A	A	71512649	2	1	209	1	0	0	0	0	0	0	0	1	12767	1103	39	1		1	PTGER3	1	71512649	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5410490	71512649	177737972	53	100468											
TNNI3K	51086	broad.mit.edu	37	chr1	74834918	74834918	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgggaaagtatataaaggacGatgcagaaataaaatagtgg	19	8	12	2	1	0	1	0	0	0	1	0	4	0	3	0	3	1	2	0	3	9	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:74834918G>A	uc001dgf.1	+	15	1493	c.1442G>A	c.(1441-1443)CGA>CAA	p.R481Q	TNNI3K_uc001dgc.1_Missense_Mutation_p.R582Q|TNNI3K_uc001dgd.2_Missense_Mutation_p.R582Q|TNNI3K_uc001dge.1_Missense_Mutation_p.R582Q	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	481	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						TATAAAGGACGATGCAGAAAT	0.313													4	39					0	0	0.009096	0	0		A	74834918	A	A	74834918	3	1	209	1	0	0	0	0	1	0	0	0	16354	1058	37	1	1855	1	TNNI3K	1	74834918	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3322269	74834918	174415703	54	100469											
SLC44A5	204962	broad.mit.edu	37	chr1	75679471	75679471	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgaagaataggaaggcCagaacacctacattgaaaag	17	7	11	6	0	0	4	0	2	0	2	0	5	0	5	2	2	2	0	2	2	8	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:75679471C>A	uc001dgu.2	-	22	2025	c.1881G>T	c.(1879-1881)CTG>CTT	p.L627L	SLC44A5_uc001dgt.2_Silent_p.L627L|SLC44A5_uc001dgs.2_Silent_p.L585L|SLC44A5_uc001dgr.2_Silent_p.L585L|SLC44A5_uc010oqz.1_Silent_p.L666L|SLC44A5_uc010ora.1_Silent_p.L621L|SLC44A5_uc010orb.1_Silent_p.L497L	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	627	Helical; (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						ATAGGAAGGCCAGAACACCTA	0.348													19	64					8.34094e-07	9.004e-07	0.008871	1	0		A	75679471	A	A	75679471	2	1	209	1	0	0	0	0	0	0	0	1	14664	581	21	5		5	SLC44A5	1	75679471	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	844553	75679471	173571150	55	100470											
LRRC8B	23507	broad.mit.edu	37	chr1	90049769	90049769	+	Silent	SNP	T	C	C	0	1	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	gaactttatctttcgggctgTgttctccctgaacagttgag	7	15	10	9	1	2	2	0	2	2	0	4	3	2	2	1	1	2	3	1	1	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:90049769T>C	uc001dni.2	+	7	2067	c.1560T>C	c.(1558-1560)TGT>TGC	p.C520C	LRRC8B_uc001dnh.2_Silent_p.C520C|LRRC8B_uc001dnj.2_Silent_p.C520C	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	520	LRR 3.					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		TTTCGGGCTGTGTTCTCCCTG	0.443													18	69					0	0	0.008871	0	0		C	90049769	C	C	90049769	2	2	209	1	0	0	0	0	0	0	0	1	9040	1702	59	3		3	LRRC8B	1	90049769	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	14370298	90049769	159200852	56	100471											
ABCA4	24	broad.mit.edu	37	chr1	94528700	94528700	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttattggttttctccaccacGtctatgtccattcggatctt	6	18	6	11	2	3	0	0	0	3	0	6	1	4	1	3	2	0	1	3	2	2	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:94528700G>A	uc001dqh.2	-	12	1832	c.1728C>T	c.(1726-1728)GAC>GAT	p.D576D	ABCA4_uc010otn.1_Silent_p.D576D	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4	576	Extracellular.				phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TCTCCACCACGTCTATGTCCA	0.463													44	140					0	0	0.013114	0	0		A	94528700	A	A	94528700	2	1	209	1	0	0	0	0	0	0	0	1	34	1136	40	1		1	ABCA4	1	94528700	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4478931	94528700	154721921	57	100472											
FNDC7	163479	broad.mit.edu	37	chr1	109270660	109270660	+	Missense_Mutation	SNP	T	C	C	0	1	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	aagtccgaggcagcaatatgTcatgtactccccagttcata	12	10	8	11	1	2	0	2	0	0	0	4	1	4	0	3	1	2	4	3	1	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:109270660T>C	uc001dvx.2	+	7	1342	c.1342T>C	c.(1342-1344)TCA>CCA	p.S448P	FNDC7_uc010ova.1_Missense_Mutation_p.S215P	NM_001144937	NP_001138409	Q5VTL7	FNDC7_HUMAN	fibronectin type III domain containing 7	449	Fibronectin type-III 5.					extracellular region				ovary(1)|skin(1)	2		all_lung(203;0.00439)|Lung NSC(277;0.00683)|all_epithelial(167;0.00728)		Colorectal(144;0.0314)|Lung(183;0.0924)|COAD - Colon adenocarcinoma(174;0.119)|Epithelial(280;0.173)|all cancers(265;0.244)		CAGCAATATGTCATGTACTCC	0.488													9	185					0	0	0.013537	0	0		C	109270660	C	C	109270660	3	2	209	1	0	0	0	0	1	0	0	0	5987	1667	58	3	1368	3	FNDC7	1	109270660	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	14741960	109270660	139979961	58	100473											
CELSR2	1952	broad.mit.edu	37	chr1	109794458	109794458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtagaagctcgagaccatgGcactccagcactcactgcct	10	7	10	14	1	1	2	1	0	0	2	3	3	2	2	3	2	3	4	3	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:109794458G>A	uc001dxa.3	+	1	1818	c.1757G>A	c.(1756-1758)GGC>GAC	p.G586D		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	586	Cadherin 4.|Extracellular (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		CGAGACCATGGCACTCCAGCA	0.542													5	60					0	0	0.000602	0	0		A	109794458	A	A	109794458	3	1	209	1	0	0	0	0	1	0	0	0	3225	1203	42	2	1759	2	CELSR2	1	109794458	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	523798	109794458	139456163	59	100474											
GNAT2	2780	broad.mit.edu	37	chr1	110155418	110155418	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggcttccttatcagcatcCtcctgcagcttcttttctag	5	17	6	13	0	3	0	1	0	2	0	6	0	6	0	3	1	3	4	3	1	2	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:110155418C>A	uc001dya.2	-	1	288	c.75G>T	c.(73-75)GAG>GAT	p.E25D		NM_005272	NP_005263	P19087	GNAT2_HUMAN	guanine nucleotide binding protein, alpha	25					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	G-protein beta/gamma-subunit complex binding|G-protein coupled photoreceptor activity|G-protein-coupled receptor binding|GTP binding|GTPase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0422)|Colorectal(144;0.108)|Epithelial(280;0.125)|all cancers(265;0.129)|LUSC - Lung squamous cell carcinoma(189;0.227)		TATCAGCATCCTCCTGCAGCT	0.512													23	96					1.28384e-07	1.39418e-07	0.012319	1	0		A	110155418	A	A	110155418	3	1	209	1	0	0	0	0	1	0	0	0	6527	680	24	5	1021	5	GNAT2	1	110155418	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	360960	110155418	139095203	60	100475											
GNAT2	2780	broad.mit.edu	37	chr1	110155446	110155446	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttcttttctagctccttgGacctcttggccagttctttg	3	18	8	12	0	4	0	0	0	4	0	5	1	5	1	3	2	1	3	3	2	1	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:110155446G>T	uc001dya.2	-	1	260	c.47C>A	c.(46-48)TCC>TAC	p.S16Y		NM_005272	NP_005263	P19087	GNAT2_HUMAN	guanine nucleotide binding protein, alpha	16					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|rhodopsin mediated phototransduction	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	G-protein beta/gamma-subunit complex binding|G-protein coupled photoreceptor activity|G-protein-coupled receptor binding|GTP binding|GTPase activity				0		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Lung(183;0.0422)|Colorectal(144;0.108)|Epithelial(280;0.125)|all cancers(265;0.129)|LUSC - Lung squamous cell carcinoma(189;0.227)		TAGCTCCTTGGACCTCTTGGC	0.512													6	152					0.00116845	0.00121268	0.001168	1	0		T	110155446	T	T	110155446	3	4	209	1	0	0	0	0	1	0	0	0	6527	1174	41	5	1049	5	GNAT2	1	110155446	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	28	110155446	139095175	61	100476											
EPS8L3	79574	broad.mit.edu	37	chr1	110293322	110293322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccagccgggacaggattCgtggggcctcctgtggacat	6	8	14	13	2	0	0	0	0	0	0	3	3	2	3	5	5	1	0	5	5	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:110293322C>T	uc001dyr.1	-	18	1875	c.1730G>A	c.(1729-1731)CGA>CAA	p.R577Q	EPS8L3_uc001dys.1_Missense_Mutation_p.R547Q|EPS8L3_uc001dyq.1_Missense_Mutation_p.R578Q|EPS8L3_uc009wfm.1_Missense_Mutation_p.R514Q	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	577						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		GGACAGGATTCGTGGGGCCTC	0.607													13	45					0	0	0.013537	0	0		T	110293322	T	T	110293322	3	4	209	1	0	0	0	0	1	0	0	0	5205	884	31	1	59	1	EPS8L3	1	110293322	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	137876	110293322	138957299	62	100477											
EPS8L3	79574	broad.mit.edu	37	chr1	110300972	110300972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcctcgggggaagaggacCgccttggaggaggcagagta	9	5	19	8	2	0	2	0	0	0	2	2	6	1	6	3	7	0	2	3	7	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:110300972C>T	uc001dyr.1	-	8	828	c.683G>A	c.(682-684)CGG>CAG	p.R228Q	EPS8L3_uc001dys.1_Missense_Mutation_p.R228Q|EPS8L3_uc001dyq.1_Missense_Mutation_p.R229Q|EPS8L3_uc009wfm.1_Missense_Mutation_p.R195Q|EPS8L3_uc009wfn.1_Missense_Mutation_p.R203Q|EPS8L3_uc009wfo.1_Missense_Mutation_p.R175Q	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	228	Pro-rich.					cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		GGAAGAGGACCGCCTTGGAGG	0.617													34	235					0	0	0.00874	0	0		T	110300972	T	T	110300972	3	4	209	1	0	0	0	0	1	0	0	0	5205	652	23	1	1146	1	EPS8L3	1	110300972	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7650	110300972	138949649	63	100478											
KCNC4	3749	broad.mit.edu	37	chr1	110765712	110765712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagggaacatcaccagcGtgcacttccggcgggaggta	9	6	15	11	4	1	0	1	0	0	0	2	2	2	2	2	4	3	3	2	4	3	3	rs144762287	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:110765712G>A	uc001dzh.2	+	2	862	c.805G>A	c.(805-807)GTG>ATG	p.V269M	KCNC4_uc001dzf.2_Missense_Mutation_p.V269M|KCNC4_uc009wfr.2_Missense_Mutation_p.V269M|KCNC4_uc001dzg.2_Missense_Mutation_p.V269M|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	269					synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		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)		CATCACCAGCGTGCACTTCCG	0.572													17	170					0	0	0.007413	0	0		A	110765712	A	A	110765712	3	1	209	1	0	0	0	0	1	0	0	0	8033	1145	40	1	811	1	KCNC4	1	110765712	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	464740	110765712	138484909	64	100479											
HBXIP	10542	broad.mit.edu	37	chr1	110946654	110946654	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcatctgacagggtcccGcggcctggaaaatagagatg	10	8	13	10	2	2	2	1	1	1	1	3	4	3	3	2	3	1	1	2	3	3	1	rs149410124		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:110946654G>A	uc001dzr.2	-	3	406	c.348C>T	c.(346-348)CGC>CGT	p.R116R		NM_006402	NP_006393	O43504	HBXIP_HUMAN	hepatitis B virus x-interacting protein	34					anti-apoptosis|negative regulation of caspase activity|response to virus|viral genome replication	cytosol	protein binding			large_intestine(1)|ovary(1)|pancreas(1)	3		all_cancers(81;4.08e-06)|all_epithelial(167;4.38e-06)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0237)|all cancers(265;0.0675)|Epithelial(280;0.0732)|Colorectal(144;0.102)|LUSC - Lung squamous cell carcinoma(189;0.134)		ACAGGGTCCCGCGGCCTGGAA	0.448													11	90					0	0	0.010729	0	0		A	110946654	A	A	110946654	2	1	209	1	0	0	0	0	0	0	0	1	7004	1074	38	1		1	HBXIP	1	110946654	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	180942	110946654	138303967	65	100480											
KCNA3	3738	broad.mit.edu	37	chr1	111216557	111216557	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	ccaccacgaagaagggatcgGagaagctggaggctcctgcg	11	4	15	11	3	0	2	0	0	0	2	2	6	1	4	3	4	2	2	3	4	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:111216557G>C	uc001dzv.1	-	1	1099	c.875C>G	c.(874-876)TCC>TGC	p.S292C		NM_002232	NP_002223	P22001	KCNA3_HUMAN	potassium voltage-gated channel, shaker-related	292						voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(4)|pancreas(1)	5		all_cancers(81;3.92e-06)|all_epithelial(167;1.28e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0235)|Colorectal(144;0.0306)|all cancers(265;0.0752)|Epithelial(280;0.0821)|COAD - Colon adenocarcinoma(174;0.132)|LUSC - Lung squamous cell carcinoma(189;0.133)		GAAGGGATCGGAGAAGCTGGA	0.612													8	118					0	0	0.00308	0	0		C	111216557	C	C	111216557	3	2	209	1	0	0	0	0	1	0	0	0	8020	1174	41	5	856	5	KCNA3	1	111216557	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	269903	111216557	138034064	66	100481											
ST7L	54879	broad.mit.edu	37	chr1	113093294	113093294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atagatgtcctttctctaacGggtatggaatcattctaaaa	13	14	7	7	1	3	1	1	0	2	1	5	2	4	2	1	2	1	1	1	2	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:113093294G>A	uc001ecd.2	-	13	1723	c.1418C>T	c.(1417-1419)CCG>CTG	p.P473L	ST7L_uc009wgh.2_RNA|ST7L_uc001ecc.2_Missense_Mutation_p.P290L|ST7L_uc010owg.1_Missense_Mutation_p.P408L|ST7L_uc010owh.1_Missense_Mutation_p.P267L|ST7L_uc001ece.2_Intron|ST7L_uc001ecf.2_Missense_Mutation_p.P456L|ST7L_uc001ecg.2_RNA|ST7L_uc010owi.1_Missense_Mutation_p.P408L|ST7L_uc001ech.2_Missense_Mutation_p.P456L|ST7L_uc001eci.2_Missense_Mutation_p.P473L|ST7L_uc009wgi.1_Intron|ST7L_uc010owj.1_3'UTR	NM_017744	NP_060214	Q8TDW4	ST7L_HUMAN	suppression of tumorigenicity 7-like isoform 1	473					negative regulation of cell growth	integral to membrane	binding				0	Lung SC(450;0.246)	all_cancers(81;1.44e-07)|all_epithelial(167;7.64e-07)|all_lung(203;2.16e-05)|Lung NSC(69;3.86e-05)		Lung(183;0.0234)|all cancers(265;0.0246)|Epithelial(280;0.0342)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTTCTCTAACGGGTATGGAAT	0.338													5	61					0	0	0.000602	0	0		A	113093294	A	A	113093294	3	1	209	1	0	0	0	0	1	0	0	0	15255	1116	39	1	360	1	ST7L	1	113093294	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1876737	113093294	136157327	67	100482											
PHTF1	10745	broad.mit.edu	37	chr1	114254420	114254420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagactatctgaatccCgcacaatatgacaccacctt	13	8	5	15	1	1	3	0	2	1	1	2	3	2	3	4	0	1	1	4	0	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:114254420C>T	uc009wgp.1	-	9	1447	c.995G>A	c.(994-996)CGG>CAG	p.R332Q	PHTF1_uc001edn.2_Missense_Mutation_p.R332Q|PHTF1_uc001edm.2_Missense_Mutation_p.R89Q|PHTF1_uc001edo.1_Missense_Mutation_p.R89Q	NM_006608	NP_006599	Q9UMS5	PHTF1_HUMAN	putative homeodomain transcription factor 1	332						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1	Lung SC(450;0.184)	all_cancers(81;3.78e-08)|all_epithelial(167;5.56e-08)|all_lung(203;6.97e-06)|Lung NSC(69;1.18e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATCTGAATCCCGCACAATATG	0.368													5	53					0	0	0.000602	0	0		T	114254420	T	T	114254420	3	4	209	1	0	0	0	0	1	0	0	0	11881	652	23	1	1333	1	PHTF1	1	114254420	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1161126	114254420	134996201	68	100483											
AMPD1	270	broad.mit.edu	37	chr1	115229524	115229524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcttccgtccttggaaacGcttttttctgggttcgaaat	7	16	9	9	3	2	0	0	0	2	0	5	2	4	1	2	2	1	2	2	2	2	6	rs12566550		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:115229524G>A	uc001efe.1	-	4	307	c.223C>T	c.(223-225)CGT>TGT	p.R75C	AMPD1_uc001eff.1_Missense_Mutation_p.R71C	NM_000036	NP_000027	P23109	AMPD1_HUMAN	adenosine monophosphate deaminase 1 (isoform M)	75					purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			ovary(2)|large_intestine(1)|skin(1)	4	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)	CCTTGGAAACGCTTTTTTCTG	0.353													13	57					0	0	0.003163	0	0		A	115229524	A	A	115229524	3	1	209	1	0	0	0	0	1	0	0	0	585	1087	38	1	2072	1	AMPD1	1	115229524	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	975104	115229524	134021097	69	100484											
IGSF3	3321	broad.mit.edu	37	chr1	117150810	117150810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgttaggacccatggtggCgatgagcgagctgttgaagg	9	8	17	7	3	0	2	0	2	0	0	0	5	0	3	1	4	3	3	1	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:117150810C>T	uc001egr.1	-	5	1681	c.976G>A	c.(976-978)GCC>ACC	p.A326T	IGSF3_uc001egq.1_Missense_Mutation_p.A326T|IGSF3_uc001egs.1_5'UTR	NM_001007237	NP_001007238	O75054	IGSF3_HUMAN	immunoglobulin superfamily, member 3 isoform 2	326	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)	2	Lung SC(450;0.225)	all_cancers(81;1.24e-06)|all_epithelial(167;4.85e-07)|all_lung(203;1.66e-06)|Lung NSC(69;1.11e-05)		Lung(183;0.0142)|Colorectal(144;0.0929)|LUSC - Lung squamous cell carcinoma(189;0.108)|COAD - Colon adenocarcinoma(174;0.139)|all cancers(265;0.159)|Epithelial(280;0.166)		CCCATGGTGGCGATGAGCGAG	0.582													7	25					0	0	0.004482	0	0		T	117150810	T	T	117150810	3	4	209	1	0	0	0	0	1	0	0	0	7617	768	27	1	2700	1	IGSF3	1	117150810	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1921286	117150810	132099811	70	100485											
WARS2	10352	broad.mit.edu	37	chr1	119575732	119575732	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcgagcagtgttcatgccCgcgctgcggcgcaccacttc	6	8	12	15	5	1	0	1	0	0	0	2	1	1	0	2	1	4	4	2	1	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:119575732C>T	uc001ehn.2	-	6	913	c.885G>A	c.(883-885)GCG>GCA	p.A295A	WARS2_uc010oxf.1_Silent_p.A201A|WARS2_uc001ehm.2_3'UTR|WARS2_uc010oxg.1_Silent_p.A238A|WARS2_uc010oxh.1_3'UTR	NM_015836	NP_056651	Q9UGM6	SYWM_HUMAN	mitochondrial tryptophanyl tRNA synthetase 2	295					tryptophanyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|tryptophan-tRNA ligase activity				0	all_neural(166;0.187)	all_lung(203;2.48e-06)|Lung NSC(69;1.74e-05)|all_epithelial(167;0.000564)		Lung(183;0.0629)	L-Tryptophan(DB00150)	TGTTCATGCCCGCGCTGCGGC	0.597													9	125					0	0	0.006214	0	0		T	119575732	T	T	119575732	2	4	209	1	0	0	0	0	0	0	0	1	17276	639	23	1		1	WARS2	1	119575732	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2424922	119575732	129674889	71	100486											
PDE4DIP	9659	broad.mit.edu	37	chr1	144915560	144915560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgcagcatcctttcctttCgctgtagacgctggcacagc	6	11	9	15	2	0	1	0	0	0	1	3	1	2	1	3	1	3	6	3	1	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:144915560C>T	uc001elw.3	-	14	2156	c.1865G>A	c.(1864-1866)CGA>CAA	p.R622Q	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.R688Q|PDE4DIP_uc001emc.1_Missense_Mutation_p.R622Q|PDE4DIP_uc001emd.1_Missense_Mutation_p.R622Q|PDE4DIP_uc001emb.1_Missense_Mutation_p.R785Q|PDE4DIP_uc001eme.1_Missense_Mutation_p.R151Q|PDE4DIP_uc001emf.1_Missense_Mutation_p.R407Q	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	622	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CCTTTCCTTTCGCTGTAGACG	0.493			T	PDGFRB	MPD								12	180					0	0	0.013537	0	0		T	144915560	T	T	144915560	3	4	209	1	0	0	0	0	1	0	0	0	11662	884	31	1	5309	1	PDE4DIP	1	144915560	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	25339828	144915560	104335061	72	100487											
TARS2	80222	broad.mit.edu	37	chr1	150463092	150463092	+	Missense_Mutation	SNP	A	G	G	1	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	cccaggtgttctggcactccAgcacccatgtcctgggggca	6	8	12	15	0	1	0	0	0	1	0	3	0	3	0	4	4	1	4	4	4	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:150463092A>G	uc001euq.2	+	4	410	c.403A>G	c.(403-405)AGC>GGC	p.S135G	TARS2_uc010pcd.1_Intron|TARS2_uc001eur.2_Missense_Mutation_p.S135G|TARS2_uc009wlt.2_Intron|TARS2_uc009wls.2_Missense_Mutation_p.S135G	NM_025150	NP_079426	Q9BW92	SYTM_HUMAN	threonyl-tRNA synthetase 2, mitochondrial	135					threonyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|threonine-tRNA ligase activity			ovary(1)	1	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;0.0757)|all cancers(9;1.51e-21)|BRCA - Breast invasive adenocarcinoma(12;0.000734)|LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.206)		L-Threonine(DB00156)	CTGGCACTCCAGCACCCATGT	0.488													17	93					0	0	0.006122	0	0		G	150463092	G	G	150463092	3	3	209	1	0	0	0	0	1	0	0	0	15585	188	7	3	417	3	TARS2	1	150463092	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	5547532	150463092	98787529	73	100488											
CTSK	1513	broad.mit.edu	37	chr1	150769275	150769275	+	Nonstop_Mutation	SNP	T	C	C	0	1	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	atggatttggctggctggagTcacatcttggggaagctggc	7	11	16	7	0	2	0	1	0	1	0	2	3	2	3	0	7	1	3	0	7	1	2	rs74315301		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:150769275T>C	uc001evp.1	-	8	1114	c.990A>G	c.(988-990)TGA>TGG	p.*330W	CTSK_uc001evq.1_Nonstop_Mutation_p.*241W	NM_000396	NP_000387	P43235	CATK_HUMAN	cathepsin K preproprotein	330					proteolysis	lysosome	cysteine-type endopeptidase activity|protein binding			skin(1)	1	all_cancers(9;2.32e-51)|all_epithelial(9;3.89e-42)|all_lung(15;4.59e-35)|Lung NSC(24;1.7e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Colorectal(459;0.171)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|BRCA - Breast invasive adenocarcinoma(12;0.00606)|LUSC - Lung squamous cell carcinoma(543;0.211)			CTGGCTGGAGTCACATCTTGG	0.498													16	187					0	0	0.012319	0	0		C	150769275	C	C	150769275	4	2	209	1	0	0	0	0	0	0	0	0	4040	1680	58	3	3	3	CTSK	1	150769275	Nonstop_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	306183	150769275	98481346	74	100489											
BNIPL	149428	broad.mit.edu	37	chr1	151011319	151011319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtggccagcgccccatgCgcaagcgtctttctgcccca	5	9	11	16	3	2	0	0	0	2	0	2	0	2	0	5	1	4	1	5	1	1	1	rs138679997		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:151011319C>T	uc001ewl.2	+	4	423	c.250C>T	c.(250-252)CGC>TGC	p.R84C	BNIPL_uc009wmi.2_Missense_Mutation_p.R2C|BNIPL_uc009wmj.2_RNA	NM_138278	NP_612122	Q7Z465	BNIPL_HUMAN	BCL2/adenovirus E1B 19kD interacting protein	84					apoptosis|induction of apoptosis|negative regulation of cell proliferation|regulation of growth rate	cytosol|nucleus	identical protein binding				0	Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			GCGCCCCATGCGCAAGCGTCT	0.587													6	94					0	0	0.001984	0	0		T	151011319	T	T	151011319	3	4	209	1	0	0	0	0	1	0	0	0	1481	768	27	1	264	1	BNIPL	1	151011319	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	242044	151011319	98239302	75	100490											
POGZ	23126	broad.mit.edu	37	chr1	151378412	151378412	+	Silent	SNP	C	T	T	0	0	0	1	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	tcgcgctgggttagcacccaCtcagccagtttctcttctgc	5	12	9	15	2	3	0	1	0	2	0	5	0	3	0	2	1	3	4	2	1	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:151378412C>T	uc001eyd.1	-	19	3405	c.3099G>A	c.(3097-3099)GAG>GAA	p.E1033E	POGZ_uc001eye.1_Silent_p.E980E|POGZ_uc010pdb.1_Silent_p.E1024E|POGZ_uc001eyf.1_Silent_p.E989E|POGZ_uc010pdc.1_Silent_p.E971E|POGZ_uc009wmv.1_Silent_p.E938E|POGZ_uc010pdd.1_Silent_p.E524E	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1033	HTH CENPB-type.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	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)			TTAGCACCCACTCAGCCAGTT	0.522													11	130					0	0	0.008291	0	0		T	151378412	T	T	151378412	2	4	209	1	0	0	0	0	0	0	0	1	12205	564	20	4		4	POGZ	1	151378412	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	367093	151378412	97872209	76	100491											
CGN	57530	broad.mit.edu	37	chr1	151502489	151502489	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaaatgacgaattccgccgGcgcatcctgggtttggagca	10	8	13	10	4	0	1	0	1	0	0	2	4	2	2	3	3	1	3	3	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:151502489G>A	uc009wmw.2	+	12	2355	c.2211G>A	c.(2209-2211)CGG>CGA	p.R737R		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	731	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			AATTCCGCCGGCGCATCCTGG	0.652													11	122					0	0	0.008291	0	0		A	151502489	A	A	151502489	2	1	209	1	0	0	0	0	0	0	0	1	3306	1190	42	2		2	CGN	1	151502489	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	124077	151502489	97748132	77	100492											
CGN	57530	broad.mit.edu	37	chr1	151509232	151509232	+	Silent	SNP	G	A	A	0	0	1	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	ctgagggtgaaggctttgaaGcgtcaggtggatgaagcaga	11	8	17	5	1	1	5	1	4	0	1	1	6	1	6	0	4	2	2	0	4	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:151509232G>A	uc009wmw.2	+	20	3477	c.3333G>A	c.(3331-3333)AAG>AAA	p.K1111K	CGN_uc010pde.1_Silent_p.K105K	NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	1105	Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			AGGCTTTGAAGCGTCAGGTGG	0.547													14	69					0	0	0.00245	0	0		A	151509232	A	A	151509232	2	1	209	1	0	0	0	0	0	0	0	1	3306	962	34	2		2	CGN	1	151509232	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6743	151509232	97741389	78	100493											
FLG	2312	broad.mit.edu	37	chr1	152280936	152280936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcctcctctgcttggcccCgggtgtccacgaatggtgtc	3	12	11	15	2	1	0	0	0	1	0	5	1	4	0	5	3	1	1	5	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:152280936C>T	uc001ezu.1	-	3	6462	c.6426G>A	c.(6424-6426)CCG>CCA	p.P2142P		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2142	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCTTGGCCCCGGGTGTCCAC	0.572									Ichthyosis				95	758					0	0	0.01441	0	0		T	152280936	T	T	152280936	2	4	209	1	0	0	0	0	0	0	0	1	5936	639	23	1		1	FLG	1	152280936	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	771704	152280936	96969685	79	100494											
SMCP	4184	broad.mit.edu	37	chr1	152857143	152857143	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccaagcctgaagtctcacCccttaacatggagtctgagc	11	8	9	13	0	2	2	1	2	2	0	3	4	2	3	4	1	3	0	4	1	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:152857143C>T	uc001fat.2	+	2	390	c.245C>T	c.(244-246)CCC>CTC	p.P82L		NM_030663	NP_109588	P49901	MCSP_HUMAN	sperm mitochondria-associated cysteine-rich	82					penetration of zona pellucida|sperm motility	mitochondrial membrane					0	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)			GAAGTCTCACCCCTTAACATG	0.557													27	128					0	0	0.005443	0	0		T	152857143	T	T	152857143	3	4	209	1	0	0	0	0	1	0	0	0	14814	623	22	4	247	4	SMCP	1	152857143	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	576207	152857143	96393478	80	100495											
ADAM15	8751	broad.mit.edu	37	chr1	155030118	155030118	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctcctgcccacaggactgCgtcgatccctgctgtgattc	5	11	10	15	2	0	1	0	1	0	0	4	3	2	2	3	1	4	2	3	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:155030118C>T	uc001fgr.1	+	13	1430	c.1329C>T	c.(1327-1329)TGC>TGT	p.C443C	ADAM15_uc001fgq.1_Silent_p.C128C|ADAM15_uc010pet.1_Silent_p.C427C|ADAM15_uc010peu.1_Silent_p.C460C|ADAM15_uc001fgt.1_Silent_p.C443C|ADAM15_uc010pev.1_Silent_p.C453C|ADAM15_uc001fgs.1_Silent_p.C443C|ADAM15_uc001fgu.1_Silent_p.C443C|ADAM15_uc001fgw.1_Silent_p.C443C|ADAM15_uc001fgv.1_Silent_p.C443C|ADAM15_uc001fgx.1_Silent_p.C443C|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	443	Disintegrin.|Extracellular (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			CACAGGACTGCGTCGATCCCT	0.612													16	66					0	0	0.008871	0	0		T	155030118	T	T	155030118	2	4	209	1	0	0	0	0	0	0	0	1	237	776	27	1		1	ADAM15	1	155030118	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2172975	155030118	94220503	81	100496											
FDPS	2224	broad.mit.edu	37	chr1	155287769	155287769	+	Missense_Mutation	SNP	A	C	C	1	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	ggtggcagatgacatcatggAttcatcccttacccgccggg	8	9	12	12	2	2	2	2	1	0	1	3	3	3	3	3	4	1	1	3	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:155287769A>C	uc001fkc.2	+	5	737	c.518A>C	c.(517-519)GAT>GCT	p.D173A	RAG1AP1_uc010pey.1_Intron|FDPS_uc001fkd.2_Missense_Mutation_p.D107A|FDPS_uc001fke.2_Missense_Mutation_p.D173A|FDPS_uc001fkf.2_Missense_Mutation_p.D107A|C1orf104_uc001fkh.1_RNA|RUSC1_uc001fkj.2_5'Flank|RUSC1_uc001fkk.2_5'Flank	NM_002004	NP_001995	P14324	FPPS_HUMAN	farnesyl diphosphate synthase isoform a	173		Magnesium 1.|Magnesium 2.			cholesterol biosynthetic process|interspecies interaction between organisms|isoprenoid biosynthetic process	cytosol|nucleus	dimethylallyltranstransferase activity|geranyltranstransferase activity|metal ion binding				0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;2.03e-10)|all cancers(21;5.23e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)		Alendronate(DB00630)|Ibandronate(DB00710)|Pamidronate(DB00282)|Risedronate(DB00884)|Zoledronate(DB00399)	GACATCATGGATTCATCCCTT	0.512													11	44					0	0	0.001855	0	0		C	155287769	C	C	155287769	3	2	209	1	0	0	0	0	1	0	0	0	5817	333	12	5	532	5	FDPS	1	155287769	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	257651	155287769	93962852	82	100497											
ARHGEF2	9181	broad.mit.edu	37	chr1	155931599	155931599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgtagatctcctgcagacGggcccctttctccagctgat	6	12	10	13	1	2	3	0	1	2	2	4	3	2	3	4	1	2	4	4	1	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:155931599G>A	uc001fmt.2	-	11	1439	c.1321C>T	c.(1321-1323)CGT>TGT	p.R441C	ARHGEF2_uc001fmr.2_Missense_Mutation_p.R413C|ARHGEF2_uc001fms.2_Missense_Mutation_p.R440C|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R485C|ARHGEF2_uc010pgt.1_Missense_Mutation_p.R414C|ARHGEF2_uc010pgu.1_Missense_Mutation_p.R486C	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	441					actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCCTGCAGACGGGCCCCTTTC	0.602													14	75					0	0	0.001855	0	0		A	155931599	A	A	155931599	3	1	209	1	0	0	0	0	1	0	0	0	903	1116	39	1	1687	1	ARHGEF2	1	155931599	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	643830	155931599	93319022	83	100498											
MEX3A	92312	broad.mit.edu	37	chr1	156047381	156047381	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgtggccacgtcctcccGtcgccctgtcaccatgaaca	6	8	10	17	3	1	1	1	1	0	0	4	1	3	1	5	2	1	1	5	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:156047381G>A	uc001fnd.3	-	2	547	c.547C>T	c.(547-549)CGG>TGG	p.R183W		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	183	KH 1.					cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					ACGTCCTCCCGTCGCCCTGTC	0.602													5	16					0	0	0.000602	0	0		A	156047381	A	A	156047381	3	1	209	1	0	0	0	0	1	0	0	0	9527	1144	40	1	1019	1	MEX3A	1	156047381	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	115782	156047381	93203240	84	100499											
GPATCH4	54865	broad.mit.edu	37	chr1	156568099	156568099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtttgtgaactccttggcagGgtcatgtcctacctgccagg	6	12	12	11	0	1	1	1	1	0	0	3	1	3	1	4	3	3	2	4	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:156568099G>A	uc001fpm.2	-	4	220	c.181C>T	c.(181-183)CCT>TCT	p.P61S	GPATCH4_uc001fpl.2_Missense_Mutation_p.P56S	NM_015590	NP_056405	Q5T3I0	GPTC4_HUMAN	G patch domain containing 4 isoform 1	56	G-patch.					intracellular	nucleic acid binding			ovary(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCCTTGGCAGGGTCATGTCCT	0.532													28	149					0	0	0.005443	0	0		A	156568099	A	A	156568099	3	1	209	1	0	0	0	0	1	0	0	0	6608	1232	43	4	966	4	GPATCH4	1	156568099	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	520718	156568099	92682522	85	100500											
INSRR	3645	broad.mit.edu	37	chr1	156819054	156819054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacaggcggcgcggtctccGttggtgcgggggttgatctc	3	10	17	11	5	3	1	1	1	2	0	5	1	3	1	1	6	1	2	1	6	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:156819054G>A	uc010pht.1	-	6	1682	c.1428C>T	c.(1426-1428)AAC>AAT	p.N476N	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	476					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CGCGGTCTCCGTTGGTGCGGG	0.657													13	79					0	0	0.00245	0	0		A	156819054	A	A	156819054	2	1	209	1	0	0	0	0	0	0	0	1	7790	1136	40	1		1	INSRR	1	156819054	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	250955	156819054	92431567	86	100501											
C1orf92	149499	broad.mit.edu	37	chr1	156902758	156902758	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggccatggcattcttcccCtagccccctcccacctgctt	5	10	7	19	0	1	0	0	0	1	0	3	1	3	0	7	2	2	2	7	2	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:156902758C>A	uc001fqm.2	+	15	1849	c.1677C>A	c.(1675-1677)CCC>CCA	p.P559P	C1orf92_uc001fql.2_3'UTR	NM_144702	NP_653303	Q8N4P6	LRC71_HUMAN	hypothetical protein LOC149499	559											0	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CATTCTTCCCCTAGCCCCCTC	0.582													4	3					0.00909568	0.0092679	0.009096	1	0		A	156902758	A	A	156902758	2	1	209	1	0	0	0	0	0	0	0	1	2072	668	24	5		5	C1orf92	1	156902758	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	83704	156902758	92347863	87	100502											
OR10K2	391107	broad.mit.edu	37	chr1	158389904	158389904	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ataaaggaggcacagccataGtggacagtgacaataatgag	17	6	12	6	0	0	2	0	2	0	0	0	4	0	4	1	3	1	1	1	3	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:158389904G>T	uc010pii.1	-	1	753	c.753C>A	c.(751-753)CAC>CAA	p.H251Q		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	251	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					CACAGCCATAGTGGACAGTGA	0.433													20	76					8.28177e-16	9.32823e-16	0.007413	1	0		T	158389904	T	T	158389904	3	4	209	1	0	0	0	0	1	0	0	0	10933	1020	36	5	187	5	OR10K2	1	158389904	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1487146	158389904	90860717	88	100503											
OR6Y1	391112	broad.mit.edu	37	chr1	158517023	158517023	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcagacagtaaatgatgggGttgaggagtggaacaatgac	14	8	14	5	0	1	4	1	3	0	1	1	6	1	6	0	4	1	2	0	4	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:158517023G>T	uc010pil.1	-	1	873	c.873C>A	c.(871-873)AAC>AAA	p.N291K		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	291	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					AAATGATGGGGTTGAGGAGTG	0.473													30	107					8.16721e-17	9.22063e-17	0.010818	1	0		T	158517023	T	T	158517023	3	4	209	1	0	0	0	0	1	0	0	0	11232	1252	44	5	106	5	OR6Y1	1	158517023	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	127119	158517023	90733598	89	100504											
SPTA1	6708	broad.mit.edu	37	chr1	158647587	158647587	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctcagaggtgagtacaggttCcttctccttgatccactgga	8	12	10	11	0	2	3	1	2	1	1	5	4	4	4	3	3	1	2	3	3	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:158647587C>T	uc001fst.1	-	7	1049	c.850G>A	c.(850-852)GAA>AAA	p.E284K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	284	Spectrin 4.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGTACAGGTTCCTTCTCCTTG	0.478													20	69					0	0	0.010504	0	0		T	158647587	T	T	158647587	3	4	209	1	0	0	0	0	1	0	0	0	15141	864	30	4	6593	4	SPTA1	1	158647587	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	130564	158647587	90603034	90	100505											
IFI16	3428	broad.mit.edu	37	chr1	159021772	159021772	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgatgtgaatgctgacCgaaacatggagatcccaaaa	14	8	11	8	1	0	4	0	3	0	1	1	6	1	4	2	2	2	2	2	2	4	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:159021772C>T	uc001ftg.2	+	9	2091	c.1801C>T	c.(1801-1803)CGA>TGA	p.R601*	IFI16_uc010pis.1_Nonsense_Mutation_p.R601*|IFI16_uc001fth.2_Nonsense_Mutation_p.R144*|IFI16_uc010pit.1_Nonsense_Mutation_p.R200*	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	657	HIN-200 2.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					GAATGCTGACCGAAACATGGA	0.428													7	79					0	0	0.00308	0	0		T	159021772	T	T	159021772	4	4	209	1	0	0	0	0	0	1	0	0	7527	644	23	1	1831	1	IFI16	1	159021772	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	374185	159021772	90228849	91	100506											
KCNJ10	3766	broad.mit.edu	37	chr1	160011276	160011276	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgagcttttcagggtctccGtagcgtacagtgctgtcacg	6	13	12	10	3	3	1	2	1	1	0	4	1	3	1	1	1	4	4	1	1	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:160011276G>A	uc001fuw.1	-	2	1197	c.1047C>T	c.(1045-1047)TAC>TAT	p.Y349Y		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	349	Cytoplasmic (By similarity).					integral to plasma membrane	ATP binding|ATP-activated inward rectifier potassium channel activity			ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CAGGGTCTCCGTAGCGTACAG	0.512													8	32					0	0	0.00308	0	0		A	160011276	A	A	160011276	2	1	209	1	0	0	0	0	0	0	0	1	8060	1140	40	1		1	KCNJ10	1	160011276	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	989504	160011276	89239345	92	100507											
PPOX	5498	broad.mit.edu	37	chr1	161136994	161136994	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcggggaattaggccagcGggagccctaggggcccggac	7	4	17	13	3	0	0	0	0	0	0	1	3	0	3	4	7	2	0	4	7	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:161136994G>A	uc001fyj.2	+	3	482	c.192G>A	c.(190-192)GCG>GCA	p.A64A	PPOX_uc001fyn.2_Silent_p.A64A|PPOX_uc001fyg.2_Silent_p.A64A|PPOX_uc001fyl.2_5'UTR|PPOX_uc001fym.2_RNA|PPOX_uc001fyk.2_5'UTR|PPOX_uc001fyh.2_5'UTR|PPOX_uc010pkg.1_5'UTR|PPOX_uc009wuc.1_5'UTR|PPOX_uc010pkh.1_Silent_p.A64A|PPOX_uc001fyi.2_5'UTR	NM_001122764	NP_001116236	P50336	PPOX_HUMAN	protoporphyrinogen oxidase	64					heme biosynthetic process	intrinsic to mitochondrial inner membrane|mitochondrial intermembrane space	flavin adenine dinucleotide binding|oxygen-dependent protoporphyrinogen oxidase activity			ovary(1)	1	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			TTAGGCCAGCGGGAGCCCTAG	0.592									Porphyria_Variegata				48	244					0	0	0.01441	0	0		A	161136994	A	A	161136994	2	1	209	1	0	0	0	0	0	0	0	1	12370	1103	39	1		1	PPOX	1	161136994	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1125718	161136994	88113627	93	100508											
B4GALT3	8703	broad.mit.edu	37	chr1	161141683	161141683	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgggggccggcgttgcagcaTctcttgacggaaggcttggg	5	9	18	9	3	1	1	0	1	1	0	2	2	1	2	1	6	2	4	1	6	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:161141683T>C	uc001fyq.1	-	8	1367	c.1105A>G	c.(1105-1107)ATG>GTG	p.M369V	PPOX_uc010pkh.1_Intron|PPOX_uc001fyi.2_Intron|B4GALT3_uc001fyo.1_Missense_Mutation_p.M149V|B4GALT3_uc001fyp.1_RNA|B4GALT3_uc001fyr.1_Missense_Mutation_p.M369V|B4GALT3_uc001fys.1_Missense_Mutation_p.M369V	NM_003779	NP_003770	O60512	B4GT3_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	369	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity|metal ion binding|N-acetyllactosamine synthase activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)		N-Acetyl-D-glucosamine(DB00141)	CGTTGCAGCATCTCTTGACGG	0.602													5	97					0	0	0.001168	0	0		C	161141683	C	C	161141683	3	2	209	1	0	0	0	0	1	0	0	0	1273	1435	50	3	80	3	B4GALT3	1	161141683	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4689	161141683	88108938	94	100509											
UAP1	6675	broad.mit.edu	37	chr1	162549390	162549390	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agaacaaagtttctatggctCcaggtttgtaatcatcctta	12	14	7	8	0	2	1	1	0	1	1	4	1	4	1	2	2	1	4	2	2	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:162549390C>T	uc001gce.3	+	4	987	c.658C>T	c.(658-660)CCA>TCA	p.P220S		NM_003115	NP_003106	Q16222	UAP1_HUMAN	UDP-N-acetylglucosamine pyrophosphorylase 1	220					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|nucleus|plasma membrane	UDP-N-acetylglucosamine diphosphorylase activity			ovary(2)|skin(2)|kidney(1)	5	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.126)			TTCTATGGCTCCAGGTTTGTA	0.308													11	67					0	0	0.008291	0	0		T	162549390	T	T	162549390	3	4	209	1	0	0	0	0	1	0	0	0	16851	855	30	4	668	4	UAP1	1	162549390	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1407707	162549390	86701231	95	100510											
RGS5	8490	broad.mit.edu	37	chr1	163131737	163131737	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagtttgtccagggaatcaCgccactgcagggcctcgtcc	7	8	13	13	2	1	0	1	0	0	0	4	2	3	2	4	3	1	2	4	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:163131737C>T	uc001gcn.2	-	3	432	c.185G>A	c.(184-186)CGT>CAT	p.R62H	RGS5_uc009wvb.2_Intron	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	62					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			CAGGGAATCACGCCACTGCAG	0.418													12	48					0	0	0.013537	0	0		T	163131737	T	T	163131737	3	4	209	1	0	0	0	0	1	0	0	0	13333	536	19	1	372	1	RGS5	1	163131737	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	582347	163131737	86118884	96	100511											
LRRC52	440699	broad.mit.edu	37	chr1	165513722	165513722	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggctgttcctgaacgagaaCagaatcactagtttgccagc	12	9	10	10	1	1	3	1	1	0	2	2	4	2	3	2	1	4	3	2	1	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:165513722C>T	uc001gde.2	+	1	245	c.189C>T	c.(187-189)AAC>AAT	p.N63N	LOC400794_uc001gdc.2_Intron|LOC400794_uc001gdd.2_Intron|LOC400794_uc009wvd.2_Intron	NM_001005214	NP_001005214	Q8N7C0	LRC52_HUMAN	leucine rich repeat containing 52 precursor	63	LRR 1.|Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(923;0.0773)|Acute lymphoblastic leukemia(8;0.155)					TGAACGAGAACAGAATCACTA	0.483													47	133					0	0	0.013114	0	0		T	165513722	T	T	165513722	2	4	209	1	0	0	0	0	0	0	0	1	9028	477	17	4		4	LRRC52	1	165513722	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2381985	165513722	83736899	97	100512											
TMCO1	54499	broad.mit.edu	37	chr1	165712524	165712524	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaagaggggtaaaaggaagCtttgccaccactctaccatc	14	7	10	10	0	1	1	0	0	1	1	2	3	1	2	3	3	3	2	3	3	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:165712524C>T	uc001gdj.3	-	6	497	c.348G>A	c.(346-348)AAG>AAA	p.K116K	TMCO1_uc001gdl.3_Silent_p.K32K|TMCO1_uc001gdm.3_Silent_p.K32K|TMCO1_uc001gdk.3_Silent_p.K104K|TMCO1_uc001gdn.3_RNA	NM_019026	NP_061899	Q9UM00	TMCO1_HUMAN	transmembrane and coiled-coil domains 1	116						endoplasmic reticulum membrane|Golgi membrane|integral to membrane				central_nervous_system(1)	1	all_hematologic(923;0.048)|Acute lymphoblastic leukemia(8;0.155)					TAAAAGGAAGCTTTGCCACCA	0.373													12	71					0	0	0.001855	0	0		T	165712524	T	T	165712524	2	4	209	1	0	0	0	0	0	0	0	1	16020	796	28	2		2	TMCO1	1	165712524	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	198802	165712524	83538097	98	100513											
BAT2L2	23215	broad.mit.edu	37	chr1	171504671	171504671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagggtctcaacctcggccgGctgtattatctggctatttc	6	13	10	12	2	2	0	1	0	2	0	5	0	2	0	2	4	1	3	2	4	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:171504671G>A	uc010pmg.1	+	13	2238	c.1972G>A	c.(1972-1974)GCT>ACT	p.A658T		NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	658							protein C-terminus binding				0						ACCTCGGCCGGCTGTATTATC	0.443													14	135					0	0	0.00245	0	0		A	171504671	A	A	171504671	3	1	209	1	0	0	0	0	1	0	0	0	1322	1203	42	2	2018	2	BAT2L2	1	171504671	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5792147	171504671	77745950	99	100514											
RASAL2	9462	broad.mit.edu	37	chr1	178411822	178411822	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctttataggacaattgcaggCgagctgaaaatgttcttcgt	11	13	10	7	2	1	1	0	1	1	0	2	3	1	2	0	2	2	3	0	2	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:178411822C>T	uc001glr.2	+	6	621	c.496C>T	c.(496-498)CGA>TGA	p.R166*	RASAL2_uc001glq.2_Nonsense_Mutation_p.R314*	NM_004841	NP_004832	Q9UJF2	NGAP_HUMAN	RAS protein activator like 2 isoform 1	166					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity			ovary(2)|breast(2)|large_intestine(1)	5						CAATTGCAGGCGAGCTGAAAA	0.383													8	58					0	0	0.008291	0	0		T	178411822	T	T	178411822	4	4	209	1	0	0	0	0	0	1	0	0	13089	760	27	1	987	1	RASAL2	1	178411822	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6907151	178411822	70838799	100	100515											
ZNF648	127665	broad.mit.edu	37	chr1	182026325	182026325	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acgcgtagcgcttggcggcgCcgccgcgcgtctccgcgggg	2	5	18	16	11	1	0	0	0	1	0	2	0	1	0	3	4	1	2	3	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:182026325C>G	uc001goz.2	-	2	1029	c.821G>C	c.(820-822)GGC>GCC	p.G274A		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	274					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTGGCGGCGCCGCCGCGCGT	0.741													3	13					0	0	0.009096	0	0		G	182026325	G	G	182026325	3	3	209	1	0	0	0	0	1	0	0	0	18088	739	26	5	889	5	ZNF648	1	182026325	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3614503	182026325	67224296	101	100516											
LHX9	56956	broad.mit.edu	37	chr1	197898270	197898270	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctctcactccacccggcactGcgaccactttaacagacctg	9	8	6	18	2	1	1	1	0	1	1	3	2	2	1	4	1	2	1	4	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:197898270G>A	uc001guk.1	+	5	1512	c.1075G>A	c.(1075-1077)GCG>ACG	p.A359T	LHX9_uc001gui.1_Missense_Mutation_p.A350T|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	LIM homeobox 9 isoform 1	359					motor axon guidance|negative regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						ACCCGGCACTGCGACCACTTT	0.577													19	73					0	0	0.010504	0	0		A	197898270	A	A	197898270	3	1	209	1	0	0	0	0	1	0	0	0	8793	1319	46	2	1125	2	LHX9	1	197898270	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	15871945	197898270	51352351	102	100517											
NAV1	89796	broad.mit.edu	37	chr1	201687819	201687819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaggtggacctcaagtccGgctacatgagcgacagtgac	11	7	13	10	2	1	3	1	3	0	0	2	5	2	4	2	3	2	1	2	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:201687819G>A	uc001gwu.2	+	3	1509	c.1162G>A	c.(1162-1164)GGC>AGC	p.G388S		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	388					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CCTCAAGTCCGGCTACATGAG	0.607													8	154					0	0	0.008291	0	0		A	201687819	A	A	201687819	3	1	209	1	0	0	0	0	1	0	0	0	10201	1116	39	1	1172	1	NAV1	1	201687819	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3789549	201687819	47562802	103	100518											
DSTYK	25778	broad.mit.edu	37	chr1	205128707	205128707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagagatcccggtgtagccGctccataatgaggagcacag	11	7	13	10	2	0	2	0	1	0	1	2	4	2	3	3	2	2	4	3	2	3	3	rs150778354	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:205128707G>A	uc001hbw.2	-	9	2270	c.2206C>T	c.(2206-2208)CGG>TGG	p.R736W	DSTYK_uc001hbx.2_Missense_Mutation_p.R736W	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1	736	Protein kinase.					cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						CGGTGTAGCCGCTCCATAATG	0.542													6	18					0	0	0.001984	0	0		A	205128707	A	A	205128707	3	1	209	1	0	0	0	0	1	0	0	0	4791	1086	38	1	603	1	DSTYK	1	205128707	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3440888	205128707	44121914	104	100519											
CENPF	1063	broad.mit.edu	37	chr1	214794185	214794185	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggaacaagaggtgactcCaagtcgatcaactttgcaaa	14	8	11	8	1	1	2	1	1	0	1	3	4	2	3	1	3	3	1	1	3	5	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:214794185C>A	uc001hkm.2	+	6	935	c.761C>A	c.(760-762)CCA>CAA	p.P254Q		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	254	Interaction with SNAP25 and required for localization to the cytoplasm (By similarity).				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		GAGGTGACTCCAAGTCGATCA	0.388													19	77					8.00594e-06	8.566e-06	0.007413	1	0		A	214794185	A	A	214794185	3	1	209	1	0	0	0	0	1	0	0	0	3234	594	21	5	779	5	CENPF	1	214794185	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	9665478	214794185	34456436	105	100520											
USH2A	7399	broad.mit.edu	37	chr1	215824087	215824087	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccttctggtggggctggcccGgttctgcaccatgtccagct	3	11	13	14	1	2	0	0	0	2	0	3	0	3	0	4	5	2	4	4	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:215824087G>A	uc001hku.1	-	65	14577	c.14190C>T	c.(14188-14190)ACC>ACT	p.T4730T		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4730	Fibronectin type-III 32.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		GGGCTGGCCCGGTTCTGCACC	0.547										HNSCC(13;0.011)			48	176					0	0	0.01441	0	0		A	215824087	A	A	215824087	2	1	209	1	0	0	0	0	0	0	0	1	17062	1103	39	1		1	USH2A	1	215824087	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1029902	215824087	33426534	106	100521											
MARK1	4139	broad.mit.edu	37	chr1	220826691	220826691	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcacatccaaatttgttcGcaggtcagtaccaatgtact	13	12	6	10	1	2	0	2	0	0	0	4	0	3	0	2	1	2	4	2	1	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:220826691G>A	uc001hmn.3	+	16	2582	c.1985G>A	c.(1984-1986)CGC>CAC	p.R662H	MARK1_uc009xdw.2_Missense_Mutation_p.R663H|MARK1_uc010pun.1_Missense_Mutation_p.R662H|MARK1_uc001hmm.3_Missense_Mutation_p.R640H	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	662					intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		AAATTTGTTCGCAGGTCAGTA	0.368													15	50					0	0	0.003163	0	0		A	220826691	A	A	220826691	3	1	209	1	0	0	0	0	1	0	0	0	9330	1087	38	1	2047	1	MARK1	1	220826691	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5002604	220826691	28423930	107	100522											
HLX	3142	broad.mit.edu	37	chr1	221057717	221057717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggctgagagcgagagcagcGactccgagtccctggacatg	10	5	15	11	3	0	2	0	1	0	2	2	7	2	3	2	2	3	2	2	2	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:221057717G>A	uc001hmv.3	+	4	1595	c.1138G>A	c.(1138-1140)GAC>AAC	p.D380N		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	380	Ser-rich.				cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)		CGAGAGCAGCGACTCCGAGTC	0.652													11	36					0	0	0.008291	0	0		A	221057717	A	A	221057717	3	1	209	1	0	0	0	0	1	0	0	0	7232	1058	37	1	1152	1	HLX	1	221057717	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	231026	221057717	28192904	108	100523											
ITPKB	3707	broad.mit.edu	37	chr1	226829622	226829622	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcactcgccggcctcacCttgattccctcgatcctgaa	6	10	6	19	3	2	2	2	2	0	0	6	3	4	2	6	1	0	0	6	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:226829622C>A	uc010pvo.1	-	5	2791	c.2451G>T	c.(2449-2451)AAG>AAT	p.K817N		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	817		ATP (By similarity).					ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				CCGGCCTCACCTTGATTCCCT	0.642													10	123					9.70103e-10	1.06947e-09	0.008291	1	0		A	226829622	A	A	226829622	3	1	209	1	0	0	0	0	1	0	0	0	7934	695	24	5	405	5	ITPKB	1	226829622	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5771905	226829622	22420999	109	100524											
ARF1	375	broad.mit.edu	37	chr1	228285343	228285343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgtgtgaacgaggcccGtgaggagctcatgaggatgc	10	6	17	8	3	1	4	1	3	0	1	1	7	1	6	1	3	4	1	1	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:228285343G>A	uc001hrr.2	+	4	539	c.311G>A	c.(310-312)CGT>CAT	p.R104H	ARF1_uc001hrs.2_Missense_Mutation_p.R104H|ARF1_uc001hrt.2_Intron|ARF1_uc009xev.2_Intron|ARF1_uc001hru.2_Missense_Mutation_p.R104H|ARF1_uc001hrv.2_Missense_Mutation_p.R104H|ARF1_uc001hrw.2_Missense_Mutation_p.R104H	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	104					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				AACGAGGCCCGTGAGGAGCTC	0.637													21	102					0	0	0.014323	0	0		A	228285343	A	A	228285343	3	1	209	1	0	0	0	0	1	0	0	0	844	1145	40	1	321	1	ARF1	1	228285343	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1455721	228285343	20965278	110	100525											
OBSCN	84033	broad.mit.edu	37	chr1	228400308	228400308	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacggtgtggaagaaggacgGccagctggtgaccgagggcc	9	4	19	9	3	0	2	0	1	0	1	0	6	0	4	3	6	1	1	3	6	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:228400308G>A	uc009xez.1	+	2	868	c.824G>A	c.(823-825)GGC>GAC	p.G275D	OBSCN_uc001hsn.2_Missense_Mutation_p.G275D|uc001hsm.1_RNA	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	275	Ig-like 3.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AAGAAGGACGGCCAGCTGGTG	0.672													6	95					0	0	0.001168	0	0		A	228400308	A	A	228400308	3	1	209	1	0	0	0	0	1	0	0	0	10831	1203	42	2	826	2	OBSCN	1	228400308	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	114965	228400308	20850313	111	100526											
OBSCN	84033	broad.mit.edu	37	chr1	228412242	228412242	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccagtgccacactgagctgCgaggtggcccaggcccagac	8	4	14	15	1	0	2	0	1	0	1	0	3	0	2	4	3	3	1	4	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:228412242C>T	uc009xez.1	+	9	2780	c.2736C>T	c.(2734-2736)TGC>TGT	p.C912C	OBSCN_uc001hsn.2_Silent_p.C912C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	912	Ig-like 9.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CACTGAGCTGCGAGGTGGCCC	0.627													7	61					0	0	0.00308	0	0		T	228412242	T	T	228412242	2	4	209	1	0	0	0	0	0	0	0	1	10831	776	27	1		1	OBSCN	1	228412242	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	11934	228412242	20838379	112	100527											
OBSCN	84033	broad.mit.edu	37	chr1	228433175	228433175	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggtgcaggctgaggcgggGaccactgccatgctgagctg	7	6	18	10	1	0	2	0	2	0	0	0	4	0	3	2	5	4	4	2	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:228433175G>T	uc009xez.1	+	12	3587	c.3543G>T	c.(3541-3543)GGG>GGT	p.G1181G	OBSCN_uc001hsn.2_Silent_p.G1181G	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1181	Ig-like 12.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTGAGGCGGGGACCACTGCCA	0.587													12	66					2.27111e-07	2.46447e-07	0.013537	1	0		T	228433175	T	T	228433175	2	4	209	1	0	0	0	0	0	0	0	1	10831	1161	41	5		5	OBSCN	1	228433175	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	20933	228433175	20817446	113	100528											
LYST	1130	broad.mit.edu	37	chr1	235916502	235916502	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgtcatatagagaggtctcTattagtcccagaataggaat	13	13	9	6	0	2	2	1	0	1	2	4	4	3	3	1	2	0	0	1	2	7	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:235916502T>C	uc001hxj.2	-	26	7477	c.7302A>G	c.(7300-7302)ATA>ATG	p.I2434M	LYST_uc009xga.1_Missense_Mutation_p.I16M	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2434					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GAGAGGTCTCTATTAGTCCCA	0.343									Chediak-Higashi_syndrome				24	103					0	0	0.007291	0	0		C	235916502	C	C	235916502	3	2	209	1	0	0	0	0	1	0	0	0	9146	1512	53	3	4215	3	LYST	1	235916502	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	7483327	235916502	13334119	114	100529											
LYST	1130	broad.mit.edu	37	chr1	235920596	235920596	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttactttaataacaccttgTtgtatagctggtgatgggtg	9	16	10	6	0	0	1	0	1	0	0	0	1	0	1	1	2	3	3	1	2	5	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:235920596T>C	uc001hxj.2	-	24	7219	c.7044A>G	c.(7042-7044)CAA>CAG	p.Q2348Q		NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	2348					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TAACACCTTGTTGTATAGCTG	0.299									Chediak-Higashi_syndrome				11	44					0	0	0.013537	0	0		C	235920596	C	C	235920596	2	2	209	1	0	0	0	0	0	0	0	1	9146	1722	60	3		3	LYST	1	235920596	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4094	235920596	13330025	115	100530											
EXO1	9156	broad.mit.edu	37	chr1	242042157	242042157	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agaacaatctgcatgaatcaGagtatggagaccaagaaggc	17	6	11	7	0	2	5	1	1	1	4	2	6	2	5	1	2	2	2	1	2	6	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:242042157G>A	uc001hzh.2	+	13	2161	c.1621G>A	c.(1621-1623)GAG>AAG	p.E541K	EXO1_uc001hzi.2_Missense_Mutation_p.E541K|EXO1_uc001hzj.2_Missense_Mutation_p.E541K|EXO1_uc009xgq.2_Missense_Mutation_p.E540K	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	541					meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			GCATGAATCAGAGTATGGAGA	0.413								Direct_reversal_of_damage|Editing_and_processing_nucleases					14	55					0	0	0.001855	0	0		A	242042157	A	A	242042157	3	1	209	1	0	0	0	0	1	0	0	0	5308	943	33	4	1659	4	EXO1	1	242042157	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6121561	242042157	7208464	116	100531											
ZNF238	10472	broad.mit.edu	37	chr1	244218334	244218334	+	Missense_Mutation	SNP	A	G	G	1	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	ccgccgatgtcaacgtgcccAcgtgctcgctgtgtgggaag	6	8	14	13	5	1	0	1	0	0	0	2	2	1	1	3	1	3	2	3	1	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:244218334A>G	uc001iae.2	+	1	1753	c.1231A>G	c.(1231-1233)ACG>GCG	p.T411A	ZNF238_uc001iad.3_Missense_Mutation_p.T420A|ZNF238_uc001iaf.1_3'UTR	NM_006352	NP_006343	Q99592	ZN238_HUMAN	zinc finger protein 238 isoform 2	411	C2H2-type 2.|Interaction with DNMT3A.				negative regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|pancreas(2)	5	all_cancers(71;6.42e-05)|all_epithelial(71;7e-05)|Breast(184;0.0333)|Ovarian(71;0.0619)|all_lung(81;0.089)|all_neural(11;0.101)|Lung NSC(105;0.123)		all cancers(7;1.35e-08)|GBM - Glioblastoma multiforme(7;1e-06)|OV - Ovarian serous cystadenocarcinoma(106;0.00223)			CAACGTGCCCACGTGCTCGCT	0.637													8	76					0	0	0.00308	0	0		G	244218334	G	G	244218334	3	3	209	1	0	0	0	0	1	0	0	0	17815	159	6	3	1264	3	ZNF238	1	244218334	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2176177	244218334	5032287	117	100532											
KIF26B	55083	broad.mit.edu	37	chr1	245849800	245849800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaaggagatcctgagcaccaCgatggtgacggtgcagcagc	11	5	15	10	2	0	3	0	2	0	1	1	6	1	3	2	3	4	3	2	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:245849800C>T	uc001ibf.1	+	12	3955	c.3515C>T	c.(3514-3516)ACG>ATG	p.T1172M	KIF26B_uc001ibg.1_Missense_Mutation_p.T790M|KIF26B_uc001ibh.1_Missense_Mutation_p.T414M	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1172					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CTGAGCACCACGATGGTGACG	0.607													15	46					0	0	0.00245	0	0		T	245849800	T	T	245849800	3	4	209	1	0	0	0	0	1	0	0	0	8311	536	19	1	3561	1	KIF26B	1	245849800	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1631466	245849800	3400821	118	100533											
SCCPDH	51097	broad.mit.edu	37	chr1	246921560	246921560	+	Silent	SNP	A	G	G	1	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	catgatggtacctggaagtcAgcaatttatggttttggaga	11	13	12	5	0	1	2	1	1	0	1	1	4	1	3	1	4	2	3	1	4	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr1:246921560A>G	uc001ibr.2	+	6	944	c.597A>G	c.(595-597)TCA>TCG	p.S199S		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	199						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		CCTGGAAGTCAGCAATTTATG	0.348													5	54					0	0	0.001168	0	0		G	246921560	G	G	246921560	2	3	209	1	0	0	0	0	0	0	0	1	13910	175	7	3		3	SCCPDH	1	246921560	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1071760	246921560	2329061	119	100534											
TAF1B	9014	broad.mit.edu	37	chr2	9985364	9985364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cataggaagagtttaaagaaCgctgtactcagtgtgctgct	12	11	11	7	1	1	2	1	0	0	2	1	3	1	3	0	1	4	5	0	1	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:9985364C>T	uc002qzz.2	+	2	134	c.34C>T	c.(34-36)CGC>TGC	p.R12C	TAF1B_uc010exc.2_Missense_Mutation_p.R12C|TAF1B_uc002qzy.3_Missense_Mutation_p.R12C|TAF1B_uc010yja.1_Translation_Start_Site|TAF1B_uc010exd.2_Translation_Start_Site	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	12					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GTTTAAAGAACGCTGTACTCA	0.408													19	67					0	0	0.010504	0	0		T	9985364	T	T	9985364	3	4	209	1	0	0	0	0	1	0	0	0	15545	536	19	1	40	1	TAF1B	2	9985364	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		9985364	233214009	120	100535											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10912017	10912017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgagcaaagaggacttcGtgctggattctgaatatctc	10	13	11	7	1	2	3	0	2	2	1	4	5	2	5	0	2	2	2	0	2	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:10912017G>A	uc002ras.2	+	7	632	c.523G>A	c.(523-525)GTG>ATG	p.V175M	ATP6V1C2_uc002rat.2_Missense_Mutation_p.V175M	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	175					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		AGAGGACTTCGTGCTGGATTC	0.532													37	128					0	0	0.00874	0	0		A	10912017	A	A	10912017	3	1	209	1	0	0	0	0	1	0	0	0	1182	1145	40	1	545	1	ATP6V1C2	2	10912017	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	926653	10912017	232287356	121	100536											
E2F6	1876	broad.mit.edu	37	chr2	11590210	11590210	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgacgatctgttcatggaaGgcctgaatgctatgaatgtc	11	12	11	7	1	2	3	1	3	1	0	3	5	2	4	1	2	1	2	1	2	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:11590210G>A	uc002rbh.2	-	5	871	c.579C>T	c.(577-579)GCC>GCT	p.A193A	E2F6_uc002rbe.2_Silent_p.A118A|E2F6_uc002rbf.2_Silent_p.A161A|E2F6_uc002rbg.2_Silent_p.A118A|E2F6_uc002rbi.2_Silent_p.A118A|E2F6_uc010yjl.1_Intron	NM_198256	NP_937987	O75461	E2F6_HUMAN	E2F transcription factor 6	193	Transcription repression.|Dimerization (Potential).				negative regulation of transcription from RNA polymerase II promoter	MLL1 complex|transcription factor complex	DNA binding|transcription corepressor activity			skin(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.114)|OV - Ovarian serous cystadenocarcinoma(76;0.168)		GTTCATGGAAGGCCTGAATGC	0.413													25	115					0	0	0.003954	0	0		A	11590210	A	A	11590210	2	1	209	1	0	0	0	0	0	0	0	1	4877	987	35	4		4	E2F6	2	11590210	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	678193	11590210	231609163	122	100537											
NTSR2	23620	broad.mit.edu	37	chr2	11798844	11798844	+	Silent	SNP	G	A	A	0	0	1	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	gtagtggtagaaattgtacaGtgggctgcaagagaaacccg	13	8	14	6	1	0	2	0	0	0	2	0	3	0	2	1	2	3	5	1	2	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:11798844G>A	uc002rbq.3	-	4	1068	c.994C>T	c.(994-996)CTG>TTG	p.L332L		NM_012344	NP_036476	O95665	NTR2_HUMAN	neurotensin receptor 2	332	Extracellular (Potential).				sensory perception	integral to plasma membrane					0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.129)|OV - Ovarian serous cystadenocarcinoma(76;0.24)	Levocabastine(DB01106)	AAATTGTACAGTGGGCTGCAA	0.527													15	70					0	0	0.00499	0	0		A	11798844	A	A	11798844	2	1	209	1	0	0	0	0	0	0	0	1	10730	1020	36	4		4	NTSR2	2	11798844	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	208634	11798844	231400529	123	100538											
APOB	338	broad.mit.edu	37	chr2	21232913	21232913	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctaggtgctggatgtctAtattctgtatgtgtctctta	7	17	10	7	0	3	0	0	0	3	0	4	1	3	1	0	2	2	3	0	2	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:21232913A>G	uc002red.2	-	26	6955	c.6827T>C	c.(6826-6828)ATA>ACA	p.I2276T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2276					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CTGGATGTCTATATTCTGTAT	0.363													26	97					0	0	0.005443	0	0		G	21232913	G	G	21232913	3	3	209	1	0	0	0	0	1	0	0	0	785	449	16	3	6880	3	APOB	2	21232913	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	9434069	21232913	221966460	124	100539											
ASXL2	55252	broad.mit.edu	37	chr2	25966041	25966041	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgctttacttagtccttcGtggtattggtgtgtgtcaat	5	19	11	6	1	1	0	1	0	0	0	3	0	2	0	1	2	2	3	1	2	4	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:25966041G>A	uc002rgs.2	-	12	3386	c.3165C>T	c.(3163-3165)CAC>CAT	p.H1055H	ASXL2_uc002rgt.1_Intron	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	1055					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTAGTCCTTCGTGGTATTGGT	0.507													3	32					0	0	0.004672	0	0		A	25966041	A	A	25966041	2	1	209	1	0	0	0	0	0	0	0	1	1068	1136	40	1		1	ASXL2	2	25966041	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4733128	25966041	217233332	125	100540											
ASXL2	55252	broad.mit.edu	37	chr2	25966749	25966749	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctactgggcccttgtggatgGctgacagaggccactgtggc	6	9	15	11	0	0	2	0	1	0	1	0	3	0	3	2	5	1	1	2	5	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:25966749G>A	uc002rgs.2	-	12	2678	c.2457C>T	c.(2455-2457)AGC>AGT	p.S819S	ASXL2_uc002rgt.1_Silent_p.S559S	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	819					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTGTGGATGGCTGACAGAGG	0.522													11	234					0	0	0.013537	0	0		A	25966749	A	A	25966749	2	1	209	1	0	0	0	0	0	0	0	1	1068	1194	42	2		2	ASXL2	2	25966749	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	708	25966749	217232624	126	100541											
CENPA	1058	broad.mit.edu	37	chr2	27016109	27016109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcccaaaggatgtgcaactgGcccggaggatccggggcctt	8	7	14	12	2	0	0	0	0	0	0	2	3	2	3	4	6	2	1	4	6	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:27016109G>A	uc002rhr.2	+	4	568	c.385G>A	c.(385-387)GCC>ACC	p.A129T	CENPA_uc002rht.2_RNA|CENPA_uc002rhs.2_Missense_Mutation_p.A103T	NM_001809	NP_001800	P49450	CENPA_HUMAN	centromere protein A isoform a	129	H3-like.				CenH3-containing nucleosome assembly at centromere|establishment of mitotic spindle orientation|interspecies interaction between organisms|kinetochore assembly|mitotic prometaphase|protein localization to chromosome, centromeric region	condensed nuclear chromosome kinetochore|cytosol|nucleoplasm|nucleosome	chromatin binding|DNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGTGCAACTGGCCCGGAGGAT	0.562													8	256					0	0	0.004482	0	0		A	27016109	A	A	27016109	3	1	209	1	0	0	0	0	1	0	0	0	3229	1203	42	2	399	2	CENPA	2	27016109	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1049360	27016109	216183264	127	100542											
PREB	10113	broad.mit.edu	37	chr2	27357254	27357254	+	Silent	SNP	A	G	G	1	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	agcgcgtacaacgggaacggAgcccggtacagctctggcgc	9	4	15	13	6	1	0	0	0	1	0	1	2	1	2	1	4	7	3	1	4	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:27357254A>G	uc002rix.1	-	1	289	c.36T>C	c.(34-36)GCT>GCC	p.A12A	PREB_uc002riy.1_5'UTR|PREB_uc002riz.1_RNA|PREB_uc002rja.1_Silent_p.A12A	NM_013388	NP_037520	Q9HCU5	PREB_HUMAN	prolactin regulatory element binding protein	12	Cytoplasmic (Potential).				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|nucleus	DNA binding|guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ACGGGAACGGAGCCCGGTACA	0.562													3	22					0	0	0.009096	0	0		G	27357254	G	G	27357254	2	3	209	1	0	0	0	0	0	0	0	1	12492	291	11	3		3	PREB	2	27357254	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	341145	27357254	215842119	128	100543											
SLC5A6	8884	broad.mit.edu	37	chr2	27430357	27430357	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcagcagctcaccaacagtAtgccggccccagccacgaca	12	4	8	17	2	2	0	2	0	0	0	2	1	2	0	5	1	5	3	5	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:27430357A>G	uc002rjd.2	-	3	553	c.162T>C	c.(160-162)CAT>CAC	p.H54H	SLC5A6_uc010eyv.1_Silent_p.H54H|SLC5A6_uc002rje.1_Silent_p.H54H	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	54					biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	CACCAACAGTATGCCGGCCCC	0.597													9	51					0	0	0.013537	0	0		G	27430357	G	G	27430357	2	3	209	1	0	0	0	0	0	0	0	1	14694	446	16	3		3	SLC5A6	2	27430357	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	73103	27430357	215769016	129	100544											
PLB1	151056	broad.mit.edu	37	chr2	28841220	28841220	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccctagtccaccagctccGaccagcagacatcaaagtgg	11	6	8	16	1	1	1	1	0	0	1	4	2	4	1	6	1	2	2	6	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:28841220G>A	uc002rmb.1	+	46	3269	c.3269G>A	c.(3268-3270)CGA>CAA	p.R1090Q	PLB1_uc010ezj.1_Missense_Mutation_p.R1079Q|PLB1_uc002rme.1_Missense_Mutation_p.R55Q|PLB1_uc002rmf.1_RNA	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	1090	4 X 308-326 AA approximate repeats.|Extracellular (Potential).|4.				lipid catabolic process|retinoid metabolic process|steroid metabolic process	apical plasma membrane|integral to membrane	lysophospholipase activity|phospholipase A2 activity|retinyl-palmitate esterase activity			ovary(4)|large_intestine(2)|skin(2)|breast(1)	9	Acute lymphoblastic leukemia(172;0.155)					CACCAGCTCCGACCAGCAGAC	0.552													37	80					0	0	0.006999	0	0		A	28841220	A	A	28841220	3	1	209	1	0	0	0	0	1	0	0	0	12043	1058	37	1	3484	1	PLB1	2	28841220	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1410863	28841220	214358153	130	100545											
ALK	238	broad.mit.edu	37	chr2	29917828	29917828	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctggttcctgaggtcatgCagtggaggggaatactccag	8	10	14	9	0	2	1	1	1	1	0	4	3	4	3	2	5	2	2	2	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:29917828C>T	uc002rmy.2	-	3	1747	c.840G>A	c.(838-840)CTG>CTA	p.L280L		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	280	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	TGAGGTCATGCAGTGGAGGGG	0.572			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				20	104					0	0	0.012319	0	0		T	29917828	T	T	29917828	2	4	209	1	0	0	0	0	0	0	0	1	525	697	25	2		2	ALK	2	29917828	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1076608	29917828	213281545	131	100546											
SRD5A2	6716	broad.mit.edu	37	chr2	31805915	31805915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaggccagtgccccaagggCgaccaaagtggcgctgcctg	9	4	14	14	2	0	0	0	0	0	0	0	1	0	0	5	3	2	1	5	3	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:31805915C>T	uc002rnw.1	-	1	126	c.55G>A	c.(55-57)GCC>ACC	p.A19T		NM_000348	NP_000339	P31213	S5A2_HUMAN	3-oxo-5 alpha-steroid 4-dehydrogenase 2	19	Helical; (Potential).				androgen biosynthetic process|cell differentiation|cell-cell signaling|male gonad development	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|sterol 5-alpha reductase activity				0	Acute lymphoblastic leukemia(172;0.155)				Azelaic Acid(DB00548)|Dutasteride(DB01126)	GCCCCAAGGGCGACCAAAGTG	0.706													10	33					0	0	0.001855	0	0		T	31805915	T	T	31805915	3	4	209	1	0	0	0	0	1	0	0	0	15164	768	27	1	728	1	SRD5A2	2	31805915	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1888087	31805915	211393458	132	100547											
BIRC6	57448	broad.mit.edu	37	chr2	32693612	32693612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tttacgaaaaccagataaggCagttgaggaagacagtaggg	16	7	13	5	1	0	3	0	1	0	2	0	5	0	4	1	3	2	3	1	3	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:32693612C>T	uc010ezu.2	+	29	6022	c.5888C>T	c.(5887-5889)GCA>GTA	p.A1963V		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1963					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CCAGATAAGGCAGTTGAGGAA	0.403													16	66					0	0	0.00499	0	0		T	32693612	T	T	32693612	3	4	209	1	0	0	0	0	1	0	0	0	1439	710	25	2	6002	2	BIRC6	2	32693612	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	887697	32693612	210505761	133	100548											
CEBPZ	10153	broad.mit.edu	37	chr2	37458564	37458564	+	Silent	SNP	T	C	C	0	1	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	gcggccgttaccttggtgccTccgagccgtaacacttcctc	5	10	10	16	4	0	0	0	0	0	0	3	1	2	0	6	2	4	2	6	2	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:37458564T>C	uc002rpz.2	-	1	177	c.147A>G	c.(145-147)GGA>GGG	p.G49G	C2orf56_uc010ynj.1_5'Flank|C2orf56_uc002rqa.3_5'Flank|C2orf56_uc002rqc.3_5'Flank|C2orf56_uc010ynk.1_5'Flank|C2orf56_uc010ynl.1_5'Flank	NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	49					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				CCTTGGTGCCTCCGAGCCGTA	0.637													10	37					0	0	0.00245	0	0		C	37458564	C	C	37458564	2	2	209	1	0	0	0	0	0	0	0	1	3207	1538	54	3		3	CEBPZ	2	37458564	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4764952	37458564	205740809	134	100549											
PIGF	5281	broad.mit.edu	37	chr2	46808671	46808671	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagtatatccagagtggtgaAataacaaggccagccacgta	15	7	10	9	1	0	2	0	1	0	1	1	2	1	2	3	2	2	2	3	2	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:46808671A>G	uc002rvd.2	-	6	770	c.606T>C	c.(604-606)ATT>ATC	p.I202I	RHOQ_uc002rva.2_3'UTR|uc002rvb.2_5'Flank|PIGF_uc002rvc.2_3'UTR	NM_002643	NP_002634	Q07326	PIGF_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	202	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	ethanolaminephosphotransferase activity				0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.114)			AGAGTGGTGAAATAACAAGGC	0.423													3	26					0	0	0.004482	0	0		G	46808671	G	G	46808671	2	3	209	1	0	0	0	0	0	0	0	1	11906	10	1	3		3	PIGF	2	46808671	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	9350107	46808671	196390702	135	100550											
TTC7A	57217	broad.mit.edu	37	chr2	47177502	47177502	+	Missense_Mutation	SNP	A	T	T	1	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	acccctactttgcttttcagAtgactttgggaaattgctgc	8	15	8	10	0	1	2	1	1	0	1	1	3	1	3	2	1	4	2	2	1	2	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:47177502A>T	uc002rvo.2	+	2	553	c.185A>T	c.(184-186)GAT>GTT	p.D62V	TTC7A_uc002rvm.2_Missense_Mutation_p.D28V|TTC7A_uc002rvn.1_5'UTR|TTC7A_uc010fbb.2_Missense_Mutation_p.D62V|TTC7A_uc010fbc.2_5'UTR|TTC7A_uc002rvp.2_5'UTR	NM_020458	NP_065191	Q9ULT0	TTC7A_HUMAN	tetratricopeptide repeat domain 7A	62							binding			breast(1)|skin(1)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.18)	Lung(47;0.0792)|LUSC - Lung squamous cell carcinoma(58;0.114)			TGCTTTTCAGATGACTTTGGG	0.512													22	235					0	0	0.010504	0	0		T	47177502	T	T	47177502	3	4	209	1	0	0	0	0	1	0	0	0	16738	347	12	5	191	5	TTC7A	2	47177502	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	368831	47177502	196021871	136	100551											
KLRAQ1	129285	broad.mit.edu	37	chr2	48725735	48725735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctagagaaagaaaaccagcGaattgcagataagctgaaga	19	5	11	6	1	0	5	0	1	0	4	0	7	0	5	1	0	4	3	1	0	7	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:48725735G>A	uc002rwm.2	+	17	1981	c.1796G>A	c.(1795-1797)CGA>CAA	p.R599Q	KLRAQ1_uc002rwl.2_Missense_Mutation_p.R553Q|KLRAQ1_uc002rwk.2_Missense_Mutation_p.R599Q|KLRAQ1_uc010yok.1_Missense_Mutation_p.R568Q	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	599	Potential.									ovary(1)	1						GAAAACCAGCGAATTGCAGAT	0.448													4	52					0	0	0.001168	0	0		A	48725735	A	A	48725735	3	1	209	1	0	0	0	0	1	0	0	0	8429	1058	37	1	1862	1	KLRAQ1	2	48725735	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1548233	48725735	194473638	137	100552											
LHCGR	3973	broad.mit.edu	37	chr2	48915561	48915561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccatctttctagagtgatgaCggtgagggtgtagacagaaa	12	10	13	6	1	2	6	0	3	2	3	2	6	2	6	1	2	0	1	1	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:48915561C>T	uc002rwu.3	-	11	1445	c.1375G>A	c.(1375-1377)GTC>ATC	p.V459I	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	459	Helical; Name=3; (Potential).				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	AGAGTGATGACGGTGAGGGTG	0.478									Familial_Male-Limited_Precocious_Puberty				5	54					0	0	0.000602	0	0		T	48915561	T	T	48915561	3	4	209	1	0	0	0	0	1	0	0	0	8778	536	19	1	728	1	LHCGR	2	48915561	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	189826	48915561	194283812	138	100553											
NRXN1	9378	broad.mit.edu	37	chr2	50573840	50573840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagacccaccgtgtccgcctCgcaaggatgccggtgacctg	7	6	12	16	4	0	2	0	1	0	1	2	3	1	3	6	2	1	1	6	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:50573840C>T	uc010fbp.2	-	1	1055	c.248G>A	c.(247-249)CGA>CAA	p.R83Q	NRXN1_uc002rxb.3_Intron|NRXN1_uc010fbq.2_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	83	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			GTGTCCGCCTCGCAAGGATGC	0.592													13	47					0	0	0.001855	0	0		T	50573840	T	T	50573840	3	4	209	1	0	0	0	0	1	0	0	0	10684	884	31	1	1198	1	NRXN1	2	50573840	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1658279	50573840	192625533	139	100554											
USP34	9736	broad.mit.edu	37	chr2	61439037	61439037	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctgagctataaacagctGcatcaggttaaacagttctt	12	12	7	10	0	3	1	1	1	2	0	3	1	3	1	1	1	5	5	1	1	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:61439037G>A	uc002sbe.2	-	69	8732	c.8710C>T	c.(8710-8712)CAG>TAG	p.Q2904*		NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2904					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			ATAAACAGCTGCATCAGGTTA	0.348													4	46					0	0	0.009096	0	0		A	61439037	A	A	61439037	4	1	209	1	0	0	0	0	0	1	0	0	17091	1328	46	2	1978	2	USP34	2	61439037	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	10865197	61439037	181760336	140	100555											
CEP68	23177	broad.mit.edu	37	chr2	65298937	65298937	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggtcgtcccccaggaacCttcctctgtggtggggctag	4	9	14	14	2	1	0	0	0	1	0	4	1	3	1	5	5	1	1	5	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:65298937C>A	uc002sdl.3	+	3	921	c.707C>A	c.(706-708)CCT>CAT	p.P236H	CEP68_uc002sdj.2_Missense_Mutation_p.P236H|CEP68_uc010yqb.1_Missense_Mutation_p.P236H|CEP68_uc002sdk.3_Missense_Mutation_p.P236H|CEP68_uc010yqc.1_Missense_Mutation_p.P236H|CEP68_uc010yqd.1_Missense_Mutation_p.P236H	NM_015147	NP_055962	Q76N32	CEP68_HUMAN	centrosomal protein 68kDa	236					centrosome organization	centrosome				skin(1)	1						CCCCAGGAACCTTCCTCTGTG	0.652													27	104					2.48779e-11	2.76781e-11	0.005443	1	0		A	65298937	A	A	65298937	3	1	209	1	0	0	0	0	1	0	0	0	3261	681	24	5	713	5	CEP68	2	65298937	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3859900	65298937	177900436	141	100556											
ANTXR1	84168	broad.mit.edu	37	chr2	69420482	69420482	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcagggaaaactcgatgccTtgtgggtcctactgaggaaa	11	10	12	8	1	1	1	1	1	0	0	3	4	2	3	2	3	3	0	2	3	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:69420482T>C	uc002sfg.2	+	17	1725	c.1369T>C	c.(1369-1371)TTG>CTG	p.L457L		NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	457	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						ACTCGATGCCTTGTGGGTCCT	0.478									Familial_Infantile_Hemangioma				8	145					0	0	0.006214	0	0		C	69420482	C	C	69420482	2	2	209	1	0	0	0	0	0	0	0	1	711	1606	56	3		3	ANTXR1	2	69420482	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4121545	69420482	173778891	142	100557											
TEX261	113419	broad.mit.edu	37	chr2	71218969	71218969	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctctcaccacacgacaGgatgaagttaggcgaggtca	11	7	10	13	2	2	1	2	1	1	0	4	4	3	2	3	3	0	1	3	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:71218969G>A	uc002shn.2	-	3	409	c.295C>T	c.(295-297)CTG>TTG	p.L99L	TEX261_uc010fdy.2_Silent_p.L52L	NM_144582	NP_653183	Q6UWH6	TX261_HUMAN	testis expressed sequence 261	99	Helical; (Potential).					integral to membrane					0						CCACACGACAGGATGAAGTTA	0.557													8	20					0	0	0.004482	0	0		A	71218969	A	A	71218969	2	1	209	1	0	0	0	0	0	0	0	1	15807	991	35	4		4	TEX261	2	71218969	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1798487	71218969	171980404	143	100558											
SMYD5	10322	broad.mit.edu	37	chr2	73448971	73448971	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggcgaaggacaaggaccgTtggatcagactcttttccca	11	8	11	11	2	2	1	1	0	1	1	3	5	3	4	2	4	0	1	2	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:73448971T>C	uc002siw.2	+	6	584	c.555T>C	c.(553-555)CGT>CGC	p.R185R	SMYD5_uc010yre.1_Silent_p.R69R|SMYD5_uc002six.1_5'Flank	NM_006062	NP_006053	Q6GMV2	SMYD5_HUMAN	SMYD family member 5	185							metal ion binding				0						ACAAGGACCGTTGGATCAGAC	0.453													5	117					0	0	0.001168	0	0		C	73448971	C	C	73448971	2	2	209	1	0	0	0	0	0	0	0	1	14850	1712	60	3		3	SMYD5	2	73448971	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2230002	73448971	169750402	144	100559											
SLC4A5	57835	broad.mit.edu	37	chr2	74474271	74474271	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatcatcttcttgatggcatCgtagatgaagatgaagctga	12	12	11	6	1	3	6	1	4	2	2	4	7	3	6	0	1	1	3	0	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:74474271C>T	uc002sko.1	-	14	1953	c.1951G>A	c.(1951-1953)GAT>AAT	p.D651N	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.D651N|SLC4A5_uc010ffc.1_Missense_Mutation_p.D651N|SLC4A5_uc002skp.1_Missense_Mutation_p.D587N|SLC4A5_uc002sks.1_Missense_Mutation_p.D651N	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	651	Helical; (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						TTGATGGCATCGTAGATGAAG	0.478													38	202					0	0	0.00623	0	0		T	74474271	T	T	74474271	3	4	209	1	0	0	0	0	1	0	0	0	14682	884	31	1	1514	1	SLC4A5	2	74474271	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1025300	74474271	168725102	145	100560											
C2orf65	130951	broad.mit.edu	37	chr2	74867329	74867329	+	Missense_Mutation	SNP	A	T	T	1	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	gtagagcaatgtgcacaatgAgaagccgtggaggttgctgg	11	8	16	6	1	0	2	0	1	0	2	0	4	0	3	1	3	4	5	1	3	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:74867329A>T	uc002smy.2	-	2	191	c.74T>A	c.(73-75)CTC>CAC	p.L25H	C2orf65_uc010ysa.1_Missense_Mutation_p.L25H|C2orf65_uc002smz.2_Missense_Mutation_p.L25H	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	25					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						GTGCACAATGAGAAGCCGTGG	0.552													8	51					0	0	0.00308	0	0		T	74867329	T	T	74867329	3	4	209	1	0	0	0	0	1	0	0	0	2187	304	11	5	1558	5	C2orf65	2	74867329	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	393058	74867329	168332044	146	100561											
POLR1A	25885	broad.mit.edu	37	chr2	86267634	86267634	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggcccacagcctcgccCggctcacacagtgagcgctg	8	4	12	17	3	1	1	1	1	0	0	2	1	1	1	3	2	3	3	3	2	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:86267634C>T	uc002sqs.2	-	25	4000	c.3621G>A	c.(3619-3621)CCG>CCA	p.P1207P	POLR1A_uc010ytb.1_Silent_p.P573P|POLR1A_uc002sqt.1_Silent_p.P230P	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1207					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						CAGCCTCGCCCGGCTCACACA	0.647													15	39					0	0	0.004007	0	0		T	86267634	T	T	86267634	2	4	209	1	0	0	0	0	0	0	0	1	12228	639	23	1		1	POLR1A	2	86267634	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	11400305	86267634	156931739	147	100562											
THNSL2	55258	broad.mit.edu	37	chr2	88485550	88485550	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agacacgctgcaccctgatgCggagaggtgacaactggatg	11	6	14	10	2	0	4	0	2	0	2	0	6	0	5	1	3	3	2	1	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:88485550C>T	uc002ssz.3	+	9	1516	c.1363C>T	c.(1363-1365)CGG>TGG	p.R455W	THNSL2_uc002ssv.2_RNA|THNSL2_uc002ssw.3_3'UTR|THNSL2_uc002ssx.3_3'UTR|THNSL2_uc002sta.3_3'UTR|THNSL2_uc002ssy.3_Missense_Mutation_p.R455W|THNSL2_uc010fhe.2_3'UTR	NM_018271	NP_060741	Q86YJ6	THNS2_HUMAN	threonine synthase-like 2	455					threonine biosynthetic process		threonine synthase activity			ovary(1)	1						CACCCTGATGCGGAGAGGTGA	0.612													3	9					0	0	0.004672	0	0		T	88485550	T	T	88485550	3	4	209	1	0	0	0	0	1	0	0	0	15888	759	27	1	1393	1	THNSL2	2	88485550	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2217916	88485550	154713823	148	100563											
TEKT4	150483	broad.mit.edu	37	chr2	95540642	95540642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatccttcgcgacacctccGaggacctgcggctccagtgc	6	7	11	17	4	0	0	0	0	0	0	4	3	3	1	5	2	2	2	5	2	0	1	rs146551570		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:95540642G>A	uc002stw.1	+	4	928	c.835G>A	c.(835-837)GAG>AAG	p.E279K	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	279					cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						CGACACCTCCGAGGACCTGCG	0.677													3	19					0	0	0.004672	0	0		A	95540642	A	A	95540642	3	1	209	1	0	0	0	0	1	0	0	0	15780	1059	37	1	849	1	TEKT4	2	95540642	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7055092	95540642	147658731	149	100564											
PROM2	150696	broad.mit.edu	37	chr2	95944487	95944487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagaacagcaccttcaacGcccttccagccctggctgcc	9	6	9	17	1	1	1	1	0	0	1	2	2	2	1	5	2	5	2	5	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:95944487G>A	uc002suh.1	+	9	1202	c.1069G>A	c.(1069-1071)GCC>ACC	p.A357T	PROM2_uc002sui.2_Missense_Mutation_p.A357T|PROM2_uc002suj.2_Missense_Mutation_p.A11T|PROM2_uc002suk.2_Missense_Mutation_p.A357T|PROM2_uc002sul.2_5'UTR	NM_144707	NP_653308	Q8N271	PROM2_HUMAN	prominin 2 precursor	357	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|cilium membrane|integral to membrane|microvillus membrane				ovary(1)	1						CACCTTCAACGCCCTTCCAGC	0.627													6	83					0	0	0.001984	0	0		A	95944487	A	A	95944487	3	1	209	1	0	0	0	0	1	0	0	0	12578	1087	38	1	1103	1	PROM2	2	95944487	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	403845	95944487	147254886	150	100565											
SNRNP200	23020	broad.mit.edu	37	chr2	96948969	96948969	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctgctccaccaggcgtcGctccatggggctgagcccct	5	7	13	16	2	0	1	0	1	0	0	3	2	2	1	5	3	3	4	5	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:96948969G>A	uc002svu.2	-	34	4971	c.4885C>T	c.(4885-4887)CGA>TGA	p.R1629*	SNRNP200_uc002svt.2_Nonsense_Mutation_p.R239*|SNRNP200_uc010yuj.1_RNA|SNRNP200_uc002svv.1_Nonsense_Mutation_p.R156*	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1629	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						ACCAGGCGTCGCTCCATGGGG	0.572													16	106					0	0	0.006122	0	0		A	96948969	A	A	96948969	4	1	209	1	0	0	0	0	0	1	0	0	14877	1095	38	1	1573	1	SNRNP200	2	96948969	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1004482	96948969	146250404	151	100566											
KIAA1310	55683	broad.mit.edu	37	chr2	97274280	97274280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtcagcacagcttctgtcCgctgcacatgtctcttcagc	6	11	10	14	1	4	0	2	0	2	0	6	0	5	0	1	1	4	4	1	1	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:97274280C>T	uc002swn.3	-	14	1852	c.1706G>A	c.(1705-1707)CGG>CAG	p.R569Q	KIAA1310_uc002swh.3_Missense_Mutation_p.R457Q|KIAA1310_uc002swi.3_Missense_Mutation_p.R470Q|KIAA1310_uc002swj.3_RNA|KIAA1310_uc002swk.3_Missense_Mutation_p.R482Q|KIAA1310_uc010fhz.2_Missense_Mutation_p.R363Q|KIAA1310_uc002swl.3_Missense_Mutation_p.R470Q|KIAA1310_uc002swm.3_RNA|KIAA1310_uc010yur.1_Missense_Mutation_p.R363Q|KIAA1310_uc002swp.1_Missense_Mutation_p.R470Q	NM_001115016	NP_001108488	Q9P2N6	K1310_HUMAN	hypothetical protein LOC55683 isoform a	569											0						AGCTTCTGTCCGCTGCACATG	0.532													8	88					0	0	0.004482	0	0		T	97274280	T	T	97274280	3	4	209	1	0	0	0	0	1	0	0	0	8238	652	23	1	962	1	KIAA1310	2	97274280	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	325311	97274280	145925093	152	100567											
CNNM4	26504	broad.mit.edu	37	chr2	97427929	97427929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggacttcaacaccatgtCggagataatggaaagcggct	12	8	11	10	2	1	1	1	0	0	1	2	4	1	3	2	4	2	1	2	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:97427929C>T	uc002swx.2	+	1	1291	c.1193C>T	c.(1192-1194)TCG>TTG	p.S398L		NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	398	CBS 1.				biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						AACACCATGTCGGAGATAATG	0.502													4	83					0	0	0.009096	0	0		T	97427929	T	T	97427929	3	4	209	1	0	0	0	0	1	0	0	0	3618	893	31	1	1195	1	CNNM4	2	97427929	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	153649	97427929	145771444	153	100568											
POU3F3	5455	broad.mit.edu	37	chr2	105473365	105473365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaggagaagcgcatgacgcCgcccgggatccaacagcaga	14	2	13	12	4	0	3	0	1	0	2	1	5	1	4	3	2	3	2	3	2	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:105473365C>T	uc010ywg.1	+	1	1397	c.1397C>T	c.(1396-1398)CCG>CTG	p.P466L		NM_006236	NP_006227	P20264	PO3F3_HUMAN	POU class 3 homeobox 3	466					metanephric ascending thin limb development|metanephric DCT cell differentiation|metanephric macula densa development|metanephric thick ascending limb development|negative regulation of apoptosis|positive regulation of cell proliferation	nucleus	sequence-specific DNA binding			ovary(1)	1						CGCATGACGCCGCCCGGGATC	0.672													9	45					0	0	0.004482	0	0		T	105473365	T	T	105473365	3	4	209	1	0	0	0	0	1	0	0	0	12295	652	23	1	1399	1	POU3F3	2	105473365	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	8045436	105473365	137726008	154	100569											
ST6GAL2	84620	broad.mit.edu	37	chr2	107459638	107459638	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaagggcgcctcggtgcCgtccagcgtccgcacgcgcg	7	4	15	15	8	0	1	0	0	0	1	3	1	2	1	4	2	2	1	4	2	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:107459638C>T	uc002tdq.2	-	2	915	c.796G>A	c.(796-798)GGC>AGC	p.G266S	ST6GAL2_uc002tdr.2_Missense_Mutation_p.G266S|ST6GAL2_uc002tds.3_Missense_Mutation_p.G266S	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	266	Lumenal (Potential).				growth|multicellular organismal development|oligosaccharide metabolic process|protein glycosylation	Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,6-sialyltransferase activity			pancreas(6)|ovary(4)|skin(1)	11						GCCTCGGTGCCGTCCAGCGTC	0.766													3	5					0	0	0.009096	0	0		T	107459638	T	T	107459638	3	4	209	1	0	0	0	0	1	0	0	0	15247	652	23	1	900	1	ST6GAL2	2	107459638	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1986273	107459638	135739735	155	100570											
RANBP2	5903	broad.mit.edu	37	chr2	109352109	109352109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggctagtggaggtgtatcGctcaactaaaagattgaagg	12	9	13	7	2	1	2	1	1	0	1	2	3	1	3	1	4	1	3	1	4	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:109352109G>A	uc002tem.3	+	5	653	c.527G>A	c.(526-528)CGC>CAC	p.R176H		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	176					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						GAGGTGTATCGCTCAACTAAA	0.438													99	343					0	0	0.01441	0	0		A	109352109	A	A	109352109	3	1	209	1	0	0	0	0	1	0	0	0	13053	1087	38	1	545	1	RANBP2	2	109352109	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1892471	109352109	133847264	156	100571											
GLI2	2736	broad.mit.edu	37	chr2	121728104	121728104	+	Silent	SNP	G	A	A	0	0	1	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	cccaccttcctggcccagcaGcccatggccctcacctccat	6	7	6	22	0	1	0	1	0	0	0	3	0	3	0	8	2	2	1	8	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:121728104G>A	uc010flp.2	+	6	1011	c.981G>A	c.(979-981)CAG>CAA	p.Q327Q	GLI2_uc002tmq.1_5'UTR|GLI2_uc002tmr.1_5'UTR|GLI2_uc002tmt.3_5'UTR|GLI2_uc002tmu.3_5'UTR|GLI2_uc002tmv.1_Missense_Mutation_p.A198T|GLI2_uc010flo.1_Silent_p.Q202Q|GLI2_uc002tmw.1_Silent_p.Q327Q	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	327					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				TGGCCCAGCAGCCCATGGCCC	0.637													20	59					0	0	0.010504	0	0		A	121728104	A	A	121728104	2	1	209	1	0	0	0	0	0	0	0	1	6453	962	34	2		2	GLI2	2	121728104	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	12375995	121728104	121471269	157	100572											
CNTNAP5	129684	broad.mit.edu	37	chr2	125261894	125261894	+	Missense_Mutation	SNP	A	T	T	1	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	tgtcactttttcctgctccgAaccacagattgtgcccatca	8	13	6	14	1	2	1	2	0	0	1	4	2	4	1	4	0	3	1	4	0	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:125261894A>T	uc002tno.2	+	8	1449	c.1085A>T	c.(1084-1086)GAA>GTA	p.E362V	CNTNAP5_uc010flu.2_Missense_Mutation_p.E363V	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	362	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TCCTGCTCCGAACCACAGATT	0.448													10	66					0	0	0.010729	0	0		T	125261894	T	T	125261894	3	4	209	1	0	0	0	0	1	0	0	0	3653	246	9	5	1115	5	CNTNAP5	2	125261894	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	3533790	125261894	117937479	158	100573											
CNTNAP5	129684	broad.mit.edu	37	chr2	125504945	125504945	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagcacttttgcaattgcgaCgctgacaaggatgaatggta	12	10	11	8	2	0	2	0	2	0	0	0	4	0	3	0	2	3	4	0	2	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:125504945C>T	uc002tno.2	+	14	2578	c.2214C>T	c.(2212-2214)GAC>GAT	p.D738D	CNTNAP5_uc010flu.2_Silent_p.D739D	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	738	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		GCAATTGCGACGCTGACAAGG	0.483													13	99					0	0	0.00499	0	0		T	125504945	T	T	125504945	2	4	209	1	0	0	0	0	0	0	0	1	3653	535	19	1		1	CNTNAP5	2	125504945	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	243051	125504945	117694428	159	100574											
ERCC3	2071	broad.mit.edu	37	chr2	128030517	128030517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatcctttccccctgagacGtaggtccgtagatatagggt	8	11	11	11	2	0	2	0	1	0	2	3	3	3	2	4	2	0	3	4	2	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:128030517G>A	uc002toh.1	-	11	1846	c.1751C>T	c.(1750-1752)ACG>ATG	p.T584M	ERCC3_uc002toe.1_Missense_Mutation_p.T339M|ERCC3_uc002tof.1_Missense_Mutation_p.T520M|ERCC3_uc002tog.1_Missense_Mutation_p.T520M	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	584	Helicase C-terminal.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		CCCCTGAGACGTAGGTCCGTA	0.433			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	62					0	0	0.001168	0	0		A	128030517	A	A	128030517	3	1	209	1	0	0	0	0	1	0	0	0	5222	1145	40	1	617	1	ERCC3	2	128030517	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2525572	128030517	115168856	160	100575											
PROC	5624	broad.mit.edu	37	chr2	128184716	128184716	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaagaagaagctggcctgCggggcagtgctcatccaccc	10	6	12	13	1	2	2	2	0	0	2	3	2	3	2	3	3	3	3	3	3	3	0	rs141249033		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:128184716C>T	uc002tok.2	+	8	787	c.714C>T	c.(712-714)TGC>TGT	p.C238C	PROC_uc002tol.2_Silent_p.C259C|PROC_uc010yzi.1_Silent_p.C294C|PROC_uc010yzj.1_Silent_p.C133C|PROC_uc010yzk.1_Silent_p.C293C|PROC_uc002tom.2_Silent_p.C272C	NM_000312	NP_000303	P04070	PROC_HUMAN	protein C	238	Peptidase S1.				blood coagulation|leukocyte migration|negative regulation of apoptosis|negative regulation of blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|Golgi lumen|plasma membrane	calcium ion binding|protein binding|serine-type endopeptidase activity				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0673)	Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)|Sodium Tetradecyl Sulfate(DB00464)	AGCTGGCCTGCGGGGCAGTGC	0.617													8	152					0	0	0.00308	0	0		T	128184716	T	T	128184716	2	4	209	1	0	0	0	0	0	0	0	1	12567	776	27	1		1	PROC	2	128184716	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	154199	128184716	115014657	161	100576											
PLEKHB2	55041	broad.mit.edu	37	chr2	131890540	131890540	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacctccaccatacacGgcctatgctgcaccggcccc	7	7	6	21	2	1	0	1	0	0	0	3	0	3	0	8	2	3	2	8	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:131890540G>A	uc002tsg.3	+	6	959	c.399G>A	c.(397-399)ACG>ACA	p.T133T	PLEKHB2_uc002tsh.2_Silent_p.T133T|PLEKHB2_uc002tsj.3_Silent_p.T133T|PLEKHB2_uc002tsf.3_Silent_p.T133T|PLEKHB2_uc010zao.1_Silent_p.T83T|PLEKHB2_uc010zap.1_Silent_p.T133T|PLEKHB2_uc010zaq.1_Intron|PLEKHB2_uc002tsi.3_Silent_p.T174T	NM_001100623	NP_001094093	Q96CS7	PKHB2_HUMAN	pleckstrin homology domain containing, family B	133						membrane	protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.0828)		CACCATACACGGCCTATGCTG	0.572													29	74					0	0	0.003755	0	0		A	131890540	A	A	131890540	2	1	209	1	0	0	0	0	0	0	0	1	12084	1103	39	1		1	PLEKHB2	2	131890540	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3705824	131890540	111308833	162	100577											
LRP1B	53353	broad.mit.edu	37	chr2	141143560	141143560	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttacactggaattcatgaGgtccacaagtctttttatct	10	17	6	8	0	3	1	1	1	2	0	4	2	4	2	1	2	1	0	1	2	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:141143560G>T	uc002tvj.1	-	67	11405	c.10433C>A	c.(10432-10434)CCT>CAT	p.P3478H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3478	Extracellular (Potential).|LDL-receptor class A 25.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GAATTCATGAGGTCCACAAGT	0.413										TSP Lung(27;0.18)			29	114					2.4375e-19	2.76047e-19	0.007291	1	0		T	141143560	T	T	141143560	3	4	209	1	0	0	0	0	1	0	0	0	8973	1000	35	5	3466	5	LRP1B	2	141143560	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	9253020	141143560	102055813	163	100578											
LRP1B	53353	broad.mit.edu	37	chr2	141598627	141598627	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtataaattacgtgacacCcaatccactgctagccctct	12	10	5	14	1	1	1	0	1	1	0	2	1	2	1	3	0	3	2	3	0	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:141598627C>T	uc002tvj.1	-	30	5946	c.4974G>A	c.(4972-4974)TGG>TGA	p.W1658*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1658	Extracellular (Potential).|LDL-receptor class B 14.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TACGTGACACCCAATCCACTG	0.373										TSP Lung(27;0.18)			7	66					0	0	0.001984	0	0		T	141598627	T	T	141598627	4	4	209	1	0	0	0	0	0	1	0	0	8973	624	22	4	9073	4	LRP1B	2	141598627	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	455067	141598627	101600746	164	100579											
TNFAIP6	7130	broad.mit.edu	37	chr2	152220529	152220529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacctacgcagaagctaaggCggtgtgtgaatttgaaggcg	11	8	14	8	3	0	3	0	2	0	1	0	3	0	3	1	3	2	2	1	3	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:152220529C>T	uc002txk.2	+	2	243	c.167C>T	c.(166-168)GCG>GTG	p.A56V		NM_007115	NP_009046	P98066	TSG6_HUMAN	tumor necrosis factor, alpha-induced protein 6	56	Link.				cell adhesion|cell-cell signaling|inflammatory response|signal transduction		hyaluronic acid binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		GAAGCTAAGGCGGTGTGTGAA	0.448													7	63					0	0	0.001984	0	0		T	152220529	T	T	152220529	3	4	209	1	0	0	0	0	1	0	0	0	16300	768	27	1	173	1	TNFAIP6	2	152220529	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10621902	152220529	90978844	165	100580											
NEB	4703	broad.mit.edu	37	chr2	152342437	152342437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccatatagtcatacatggcaCggaagattttctattcgtgg	11	13	9	8	2	2	1	1	0	1	1	3	2	2	2	1	3	1	1	1	3	5	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:152342437C>T	uc010fnx.2	-	149	20038	c.19847G>A	c.(19846-19848)CGT>CAT	p.R6616H	NEB_uc002txr.2_Missense_Mutation_p.R2946H|RIF1_uc002txp.2_Intron|NEB_uc010zbz.1_Missense_Mutation_p.R385H|NEB_uc002txq.2_Missense_Mutation_p.R495H|NEB_uc010zca.1_Missense_Mutation_p.R447H|NEB_uc010zcb.1_Missense_Mutation_p.R385H	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	6616	SH3.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		ATACATGGCACGGAAGATTTT	0.398													14	41					0	0	0.001855	0	0		T	152342437	T	T	152342437	3	4	209	1	0	0	0	0	1	0	0	0	10321	536	19	1	166	1	NEB	2	152342437	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	121908	152342437	90856936	166	100581											
KCNJ3	3760	broad.mit.edu	37	chr2	155566239	155566239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aatttgccacgtgatcgatgCcaaaagccccttttatgacc	11	11	7	12	2	0	2	0	2	0	0	1	3	0	2	5	0	3	0	5	0	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:155566239C>T	uc002tyv.1	+	2	1022	c.827C>T	c.(826-828)GCC>GTC	p.A276V	KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	276	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	GTGATCGATGCCAAAAGCCCC	0.463													16	75					0	0	0.006122	0	0		T	155566239	T	T	155566239	3	4	209	1	0	0	0	0	1	0	0	0	8068	739	26	2	833	2	KCNJ3	2	155566239	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3223802	155566239	87633134	167	100582											
GPD2	2820	broad.mit.edu	37	chr2	157407179	157407179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctttcacggactctgtgCgcaaaatggatgataaagac	13	9	10	9	2	2	2	1	1	1	1	2	5	2	4	1	2	1	1	1	2	4	2	rs141792291	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:157407179C>T	uc002tzf.3	+	8	1252	c.892C>T	c.(892-894)CGC>TGC	p.R298C	GPD2_uc010zch.1_Missense_Mutation_p.R71C|GPD2_uc002tzd.3_Missense_Mutation_p.R298C|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	298					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						GGACTCTGTGCGCAAAATGGA	0.473													19	54					0	0	0.008871	0	0		T	157407179	T	T	157407179	3	4	209	1	0	0	0	0	1	0	0	0	6621	768	27	1	918	1	GPD2	2	157407179	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1840940	157407179	85792194	168	100583											
CYTIP	9595	broad.mit.edu	37	chr2	158272437	158272437	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcactcatcatctgtactcgTctgccgactgaaggcacccc	8	9	8	16	2	4	1	2	1	2	0	5	2	4	1	3	1	2	3	3	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:158272437T>C	uc002tzj.1	-	8	904	c.832A>G	c.(832-834)ACG>GCG	p.T278A	CYTIP_uc010zcl.1_Missense_Mutation_p.T172A	NM_004288	NP_004279	O60759	CYTIP_HUMAN	cytohesin 1 interacting protein	278	Ser-rich.			T -> Q (in Ref. 5; AAA16575).	regulation of cell adhesion	cell cortex|early endosome	protein binding			ovary(1)|kidney(1)|skin(1)	3						TCTGTACTCGTCTGCCGACTG	0.547													19	65					0	0	0.006122	0	0		C	158272437	C	C	158272437	3	2	209	1	0	0	0	0	1	0	0	0	4210	1667	58	3	251	3	CYTIP	2	158272437	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	865258	158272437	84926936	169	100584											
PKP4	8502	broad.mit.edu	37	chr2	159523059	159523059	+	Silent	SNP	C	T	T	0	0	0	1	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	aatatggcactagatgttcgCaacaaggagctcataggtat	14	10	10	7	1	1	1	1	0	0	1	2	2	1	2	0	3	2	5	0	3	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:159523059C>T	uc002tzv.2	+	16	2972	c.2712C>T	c.(2710-2712)CGC>CGT	p.R904R	PKP4_uc002tzu.2_Silent_p.R904R|PKP4_uc002tzw.2_Silent_p.R904R|PKP4_uc002tzx.2_Silent_p.R561R|PKP4_uc002uaa.2_Silent_p.R756R|uc002uab.1_Intron|PKP4_uc002uac.2_Silent_p.R85R|PKP4_uc002uad.2_RNA|PKP4_uc002uae.1_5'Flank	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	904					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TAGATGTTCGCAACAAGGAGC	0.413										HNSCC(62;0.18)			7	103					0	0	0.001984	0	0		T	159523059	T	T	159523059	2	4	209	1	0	0	0	0	0	0	0	1	12006	697	25	2		2	PKP4	2	159523059	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1250622	159523059	83676314	170	100585											
PKP4	8502	broad.mit.edu	37	chr2	159530257	159530257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggcaatatcgggacctccGgagcatttataaaaaggtaa	15	9	10	7	2	0	0	0	0	0	0	2	2	1	2	2	4	1	3	2	4	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:159530257G>A	uc002tzv.2	+	18	3253	c.2993G>A	c.(2992-2994)CGG>CAG	p.R998Q	PKP4_uc002tzw.2_Missense_Mutation_p.R998Q|PKP4_uc002tzx.2_Missense_Mutation_p.R655Q|PKP4_uc002uaa.2_Missense_Mutation_p.R850Q|uc002uab.1_Intron|PKP4_uc002uac.2_Missense_Mutation_p.R179Q|PKP4_uc002uad.2_RNA|PKP4_uc002uae.1_Missense_Mutation_p.R85Q	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	998					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						CGGGACCTCCGGAGCATTTAT	0.383										HNSCC(62;0.18)			9	40					0	0	0.006214	0	0		A	159530257	A	A	159530257	3	1	209	1	0	0	0	0	1	0	0	0	12006	1116	39	1	3059	1	PKP4	2	159530257	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7198	159530257	83669116	171	100586											
SCN1A	6323	broad.mit.edu	37	chr2	166894493	166894493	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acacaatctttgtagcttttAccaaagagctgcatgccgac	12	11	7	11	1	1	1	0	0	1	1	1	2	1	1	2	0	5	4	2	0	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:166894493A>G	uc010zcz.1	-	15	2724	c.2706T>C	c.(2704-2706)GGT>GGC	p.G902G	SCN1A_uc002udo.3_Silent_p.G782G|SCN1A_uc010fpk.2_Silent_p.G754G	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	913	II.|Helical; Name=S5 of repeat II; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TGTAGCTTTTACCAAAGAGCT	0.493													23	80					0	0	0.00278	0	0		G	166894493	G	G	166894493	2	3	209	1	0	0	0	0	0	0	0	1	13939	378	14	3		3	SCN1A	2	166894493	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	7364236	166894493	76304880	172	100587											
LRP2	4036	broad.mit.edu	37	chr2	169989169	169989169	+	Missense_Mutation	SNP	T	A	A	0	1	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	gacttccataattcttattaTccacattttcagatacagtc	12	16	3	10	0	2	1	1	0	1	1	5	2	4	1	2	0	1	0	2	0	4	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:169989169T>A	uc002ues.2	-	77	13856	c.13643A>T	c.(13642-13644)GAT>GTT	p.D4548V		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4548	Cytoplasmic (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ATTCTTATTATCCACATTTTC	0.383													22	68					0	0	0.014323	0	0		A	169989169	A	A	169989169	3	1	209	1	0	0	0	0	1	0	0	0	8974	1435	50	5	336	5	LRP2	2	169989169	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	3094676	169989169	73210204	173	100588											
LRP2	4036	broad.mit.edu	37	chr2	170101377	170101377	+	Missense_Mutation	SNP	A	G	G	1	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	acagtcgttgcgtttgtcacAgcgccagtgtgcaggaatgc	8	10	13	10	3	1	0	1	0	0	0	2	1	1	1	1	1	4	3	1	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:170101377A>G	uc002ues.2	-	22	3469	c.3256T>C	c.(3256-3258)TGT>CGT	p.C1086R	LRP2_uc010zdf.1_Missense_Mutation_p.C949R	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	1086	LDL-receptor class A 9.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CGTTTGTCACAGCGCCAGTGT	0.507													36	105					0	0	0.004878	0	0		G	170101377	G	G	170101377	3	3	209	1	0	0	0	0	1	0	0	0	8974	188	7	3	10943	3	LRP2	2	170101377	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	112208	170101377	73097996	174	100589											
RAPGEF4	11069	broad.mit.edu	37	chr2	173850209	173850209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttttgagtctcacgccaaaGgagggactgtgtgtaagtga	10	12	13	6	1	1	2	1	2	1	0	2	4	1	4	1	2	0	1	1	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:173850209G>A	uc002uhv.3	+	12	1325	c.1138G>A	c.(1138-1140)GGA>AGA	p.G380R	RAPGEF4_uc002uhu.2_Missense_Mutation_p.G380R|RAPGEF4_uc002uhw.3_Missense_Mutation_p.G236R|RAPGEF4_uc010zec.1_Missense_Mutation_p.G227R|RAPGEF4_uc010zed.1_Missense_Mutation_p.G209R|RAPGEF4_uc010zee.1_Missense_Mutation_p.G227R|RAPGEF4_uc010fqo.2_Missense_Mutation_p.G209R|RAPGEF4_uc010zef.1_Missense_Mutation_p.G160R|RAPGEF4_uc010zeg.1_Missense_Mutation_p.G207R|RAPGEF4_uc010fqp.1_Missense_Mutation_p.G160R|RAPGEF4_uc010zeh.1_Missense_Mutation_p.G160R	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	380	cAMP 2.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TCACGCCAAAGGAGGGACTGT	0.512													29	146					0	0	0.003271	0	0		A	173850209	A	A	173850209	3	1	209	1	0	0	0	0	1	0	0	0	13071	1001	35	4	1200	4	RAPGEF4	2	173850209	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3748832	173850209	69349164	175	100590											
RAPGEF4	11069	broad.mit.edu	37	chr2	173885388	173885388	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgatgtttcagtatttacgaCgctcaccattaatggacgcc	10	13	8	10	3	2	1	2	1	0	0	2	3	2	2	2	1	1	3	2	1	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:173885388C>T	uc002uhv.3	+	23	2385	c.2198C>T	c.(2197-2199)ACG>ATG	p.T733M	RAPGEF4_uc002uhw.3_Missense_Mutation_p.T589M	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	733					blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			GTATTTACGACGCTCACCATT	0.438													33	168					0	0	0.003271	0	0		T	173885388	T	T	173885388	3	4	209	1	0	0	0	0	1	0	0	0	13071	536	19	1	2304	1	RAPGEF4	2	173885388	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	35179	173885388	69313985	176	100591											
TTC30A	92104	broad.mit.edu	37	chr2	178483202	178483202	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcggtactgctccagttcCgggtgcagctggcccagctg	5	8	15	13	2	0	0	0	0	0	0	2	0	2	0	3	4	5	6	3	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:178483202C>T	uc002ulo.2	-	1	493	c.228G>A	c.(226-228)CCG>CCA	p.P76P		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	76	TPR 2.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			GCTCCAGTTCCGGGTGCAGCT	0.662													3	15					0	0	0.004672	0	0		T	178483202	T	T	178483202	2	4	209	1	0	0	0	0	0	0	0	1	16724	639	23	1		1	TTC30A	2	178483202	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4597814	178483202	64716171	177	100592											
PRKRA	8575	broad.mit.edu	37	chr2	179309177	179309177	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccaataggattaagctggTtctttggttgcttggaaggg	10	13	13	5	0	1	0	0	0	1	0	1	2	1	2	1	5	3	4	1	5	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179309177T>C	uc002umf.2	-	4	569	c.368A>G	c.(367-369)AAC>AGC	p.N123S	PRKRA_uc002umc.2_5'Flank|PRKRA_uc002umd.2_Missense_Mutation_p.N98S|PRKRA_uc002ume.2_Missense_Mutation_p.N112S|PRKRA_uc002umg.2_Missense_Mutation_p.N10S	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	123	Sufficient for self-association and interaction with TARBP2.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			ATTAAGCTGGTTCTTTGGTTG	0.353													10	92					0	0	0.013537	0	0		C	179309177	C	C	179309177	3	2	209	1	0	0	0	0	1	0	0	0	12546	1725	60	3	593	3	PRKRA	2	179309177	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	825975	179309177	63890196	178	100593											
TTN	7273	broad.mit.edu	37	chr2	179395781	179395781	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcctggactgaagagatCtcaaaggttgatttgtactt	12	12	11	6	0	1	3	1	2	1	1	2	6	1	4	1	2	2	2	1	2	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179395781C>A	uc010zfg.1	-	307	98081	c.97857G>T	c.(97855-97857)GAG>GAT	p.E32619D	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E26314D|TTN_uc010zfi.1_Missense_Mutation_p.E26247D|TTN_uc010zfj.1_Missense_Mutation_p.E26122D|TTN_uc002umq.2_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33546							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGAAGAGATCTCAAAGGTTG	0.488													77	266					2.1672e-28	2.47753e-28	0.01441	1	0		A	179395781	A	A	179395781	3	1	209	1	0	0	0	0	1	0	0	0	16761	912	32	5	2438	5	TTN	2	179395781	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	86604	179395781	63803592	179	100594											
TTN	7273	broad.mit.edu	37	chr2	179401935	179401935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagttcttcaatagagcttCgatcacaattggtcctgtag	10	13	10	8	1	3	1	2	0	1	1	5	3	4	2	1	2	1	3	1	2	4	6	rs72648278		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179401935C>T	uc010zfg.1	-	305	92421	c.92197G>A	c.(92197-92199)GAA>AAA	p.E30733K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E24428K|TTN_uc010zfi.1_Missense_Mutation_p.E24361K|TTN_uc010zfj.1_Missense_Mutation_p.E24236K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31660							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AATAGAGCTTCGATCACAATT	0.428													3	27					0	0	0.004672	0	0		T	179401935	T	T	179401935	3	4	209	1	0	0	0	0	1	0	0	0	16761	893	31	1	8106	1	TTN	2	179401935	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6154	179401935	63797438	180	100595											
TTN	7273	broad.mit.edu	37	chr2	179402474	179402474	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tactgtaagagtgtgtgtgcGtccatctgaagacattttgt	9	15	11	6	1	1	3	0	1	1	2	2	3	2	3	1	0	2	1	1	0	3	4	rs143556947	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179402474G>A	uc010zfg.1	-	304	91980	c.91756C>T	c.(91756-91758)CGC>TGC	p.R30586C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R24281C|TTN_uc010zfi.1_Missense_Mutation_p.R24214C|TTN_uc010zfj.1_Missense_Mutation_p.R24089C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	31513							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTGTGTGTGCGTCCATCTGAA	0.423													3	32					0	0	0.004672	0	0		A	179402474	A	A	179402474	3	1	209	1	0	0	0	0	1	0	0	0	16761	1145	40	1	8551	1	TTN	2	179402474	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	539	179402474	63796899	181	100596											
TTN	7273	broad.mit.edu	37	chr2	179424199	179424199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agacccatgctttcttgctgGcctcacgtttttctatgtgg	5	16	9	11	1	3	1	1	0	2	1	3	1	3	1	2	2	2	3	2	2	1	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179424199G>A	uc010zfg.1	-	275	79180	c.78956C>T	c.(78955-78957)GCC>GTC	p.A26319V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A20014V|TTN_uc010zfi.1_Missense_Mutation_p.A19947V|TTN_uc010zfj.1_Missense_Mutation_p.A19822V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	27246							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCTTGCTGGCCTCACGTTT	0.443													18	53					0	0	0.006122	0	0		A	179424199	A	A	179424199	3	1	209	1	0	0	0	0	1	0	0	0	16761	1203	42	2	21467	2	TTN	2	179424199	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	21725	179424199	63775174	182	100597											
TTN	7273	broad.mit.edu	37	chr2	179605033	179605033	+	Silent	SNP	A	G	G	1	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	tgccctgcattttccagtggAtttgcactttctatcaaaat	9	16	6	10	0	2	0	1	0	1	0	3	1	3	1	2	1	3	2	2	1	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179605033A>G	uc010zfh.1	-	46	12638	c.12414T>C	c.(12412-12414)AAT>AAC	p.N4138N	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Silent_p.N4071N|TTN_uc010zfj.1_Silent_p.N3946N|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTCCAGTGGATTTGCACTTT	0.438													13	54					0	0	0.013537	0	0		G	179605033	G	G	179605033	2	3	209	1	0	0	0	0	0	0	0	1	16761	330	12	3		3	TTN	2	179605033	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	180834	179605033	63594340	183	100598											
TTN	7273	broad.mit.edu	37	chr2	179621192	179621192	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccgtgtcaccgcactttaCagtgacgtcctgaagatgca	10	9	10	12	3	1	3	1	2	0	1	2	3	2	3	3	0	3	2	3	0	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179621192C>A	uc010zfh.1	-	44	10722	c.10498G>T	c.(10498-10500)GTA>TTA	p.V3500L	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCGCACTTTACAGTGACGTCC	0.453													9	46					0.000274275	0.000287326	0.004482	1	0		A	179621192	A	A	179621192	3	1	209	1	0	0	0	0	1	0	0	0	16761	478	17	5	100245	5	TTN	2	179621192	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	16159	179621192	63578181	184	100599											
TTN	7273	broad.mit.edu	37	chr2	179640696	179640696	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcagtggtgtcaacaggtctAtccactttttgtacttcaaa	10	15	7	9	0	4	0	3	0	1	0	5	0	5	0	1	2	2	1	1	2	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:179640696A>G	uc010zfg.1	-	28	6119	c.5895T>C	c.(5893-5895)GAT>GAC	p.D1965D	TTN_uc010zfh.1_Silent_p.D1919D|TTN_uc010zfi.1_Silent_p.D1919D|TTN_uc010zfj.1_Silent_p.D1919D|TTN_uc002unb.2_Silent_p.D1965D|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1965							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAACAGGTCTATCCACTTTTT	0.448													14	176					0	0	0.00245	0	0		G	179640696	G	G	179640696	2	3	209	1	0	0	0	0	0	0	0	1	16761	446	16	3		3	TTN	2	179640696	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	19504	179640696	63558677	185	100600											
NAB1	4664	broad.mit.edu	37	chr2	191524446	191524446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagacctgggctcccccGcgtccccaaaggagagcagt	9	4	12	16	2	0	2	0	0	0	2	2	3	2	2	5	2	2	3	5	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:191524446G>A	uc002usb.2	+	4	1116	c.544G>A	c.(544-546)GCG>ACG	p.A182T	NAB1_uc010fsc.2_Missense_Mutation_p.A182T|NAB1_uc010fsd.2_Missense_Mutation_p.A182T|NAB1_uc002usc.2_Missense_Mutation_p.A182T|NAB1_uc010zgh.1_Missense_Mutation_p.A182T	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	182					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			GGGCTCCCCCGCGTCCCCAAA	0.627													7	28					0	0	0.00308	0	0		A	191524446	A	A	191524446	3	1	209	1	0	0	0	0	1	0	0	0	10149	1087	38	1	546	1	NAB1	2	191524446	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	11883750	191524446	51674927	186	100601											
SF3B1	23451	broad.mit.edu	37	chr2	198265472	198265472	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttggaaagcataaagaatAccatcaatcagttgttcttc	14	13	6	8	0	4	1	2	0	2	1	5	2	4	2	1	1	2	3	1	1	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:198265472A>G	uc002uue.2	-	18	2733	c.2685T>C	c.(2683-2685)GGT>GGC	p.G895G		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	895					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			CATAAAGAATACCATCAATCA	0.323													4	75					0	0	0.000602	0	0		G	198265472	G	G	198265472	2	3	209	1	0	0	0	0	0	0	0	1	14174	378	14	3		3	SF3B1	2	198265472	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	6741026	198265472	44933901	187	100602											
KCTD18	130535	broad.mit.edu	37	chr2	201354988	201354988	+	Silent	SNP	T	A	A	0	1	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	agctttatcacccgctggggTgtaggcttcttgtcggagag	6	12	14	9	2	2	1	1	0	1	1	3	2	2	1	1	4	1	4	1	4	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:201354988T>A	uc002uvs.2	-	7	1633	c.1116A>T	c.(1114-1116)ACA>ACT	p.T372T	KCTD18_uc002uvt.2_Silent_p.T372T	NM_152387	NP_689600	Q6PI47	KCD18_HUMAN	potassium channel tetramerization domain	372						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1						CCCGCTGGGGTGTAGGCTTCT	0.647													15	78					0	0	0.00245	0	0		A	201354988	A	A	201354988	2	1	209	1	0	0	0	0	0	0	0	1	8121	1683	59	5		5	KCTD18	2	201354988	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	3089516	201354988	41844385	188	100603											
STRADB	55437	broad.mit.edu	37	chr2	202323572	202323572	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaaaacagtctgaaaccagTatccatcaatacttggtaag	17	9	7	8	0	2	1	1	1	1	0	3	2	3	1	2	1	3	2	2	1	7	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:202323572T>C	uc002uyd.3	+	3	443	c.78T>C	c.(76-78)AGT>AGC	p.S26S		NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta	26					activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			skin(2)|stomach(1)|lung(1)	4						CTGAAACCAGTATCCATCAAT	0.229													14	58					0	0	0.003163	0	0		C	202323572	C	C	202323572	2	2	209	1	0	0	0	0	0	0	0	1	15350	1635	57	3		3	STRADB	2	202323572	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	968584	202323572	40875801	189	100604											
ALS2CR8	79800	broad.mit.edu	37	chr2	203807539	203807539	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttttgcccatcactactcGtgaagcaaataattcactca	13	12	5	11	1	3	1	3	1	0	0	4	1	3	1	1	0	3	2	1	0	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:203807539G>A	uc002uzo.2	+	4	435	c.155G>A	c.(154-156)CGT>CAT	p.R52H	ALS2CR8_uc002uzn.2_Intron|ALS2CR8_uc002uzm.2_Missense_Mutation_p.R52H|ALS2CR8_uc010zhy.1_Missense_Mutation_p.R52H|ALS2CR8_uc010zhz.1_RNA|ALS2CR8_uc010ftu.1_RNA|ALS2CR8_uc010zia.1_Intron|ALS2CR8_uc010zib.1_Intron|ALS2CR8_uc010zic.1_Intron|ALS2CR8_uc002uzp.2_Missense_Mutation_p.R52H	NM_001104586	NP_001098056	Q8N187	AL2S8_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	52										large_intestine(1)|ovary(1)	2						ATCACTACTCGTGAAGCAAAT	0.408													7	66					0	0	0.001984	0	0		A	203807539	A	A	203807539	3	1	209	1	0	0	0	0	1	0	0	0	555	1145	40	1	161	1	ALS2CR8	2	203807539	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1483967	203807539	39391834	190	100605											
NDUFS1	4719	broad.mit.edu	37	chr2	207009720	207009720	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaatattacttccaacCgcatccattacatcaatgga	15	10	3	13	1	1	0	1	0	0	0	3	1	3	1	4	1	3	1	4	1	6	4	rs148726142		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:207009720C>T	uc002vbe.2	-	9	895	c.768G>A	c.(766-768)GCG>GCA	p.A256A	NDUFS1_uc010ziq.1_Silent_p.A270A|NDUFS1_uc010zir.1_Silent_p.A220A|NDUFS1_uc010zis.1_Silent_p.A199A|NDUFS1_uc010zit.1_Silent_p.A145A|NDUFS1_uc010ziu.1_Silent_p.A140A	NM_005006	NP_004997	P28331	NDUS1_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 1,	256					apoptosis|ATP metabolic process|mitochondrial electron transport, NADH to ubiquinone|reactive oxygen species metabolic process|regulation of mitochondrial membrane potential|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	2 iron, 2 sulfur cluster binding|4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding			ovary(1)	1					NADH(DB00157)	TACTTCCAACCGCATCCATTA	0.393													12	53					0	0	0.001855	0	0		T	207009720	T	T	207009720	2	4	209	1	0	0	0	0	0	0	0	1	10310	639	23	1		1	NDUFS1	2	207009720	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3202181	207009720	36189653	191	100606											
SPAG16	79582	broad.mit.edu	37	chr2	214160816	214160816	+	Silent	SNP	T	C	C	0	1	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	ataactgaagcatctgaagaTgactatgaatatgaagaggt	17	10	10	4	0	1	7	0	5	1	2	1	7	1	7	0	1	2	1	0	1	7	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:214160816T>C	uc002veq.2	+	2	257	c.165T>C	c.(163-165)GAT>GAC	p.D55D	SPAG16_uc010fuz.1_5'UTR|SPAG16_uc002ver.2_5'UTR|SPAG16_uc010zjk.1_Missense_Mutation_p.M1T|SPAG16_uc002veo.2_Silent_p.D55D|SPAG16_uc002vep.1_Silent_p.D55D|SPAG16_uc002ves.1_Intron	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	55					cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		CATCTGAAGATGACTATGAAT	0.274													23	68					0	0	0.003954	0	0		C	214160816	C	C	214160816	2	2	209	1	0	0	0	0	0	0	0	1	15003	1461	51	3		3	SPAG16	2	214160816	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	7151096	214160816	29038557	192	100607											
ABCA12	26154	broad.mit.edu	37	chr2	215876269	215876269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctctgggaagagggcagCatggcagttaaatattcagt	11	9	14	7	0	2	1	1	0	1	1	2	2	2	2	1	4	1	4	1	4	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:215876269C>T	uc002vew.2	-	17	2446	c.2226G>A	c.(2224-2226)ATG>ATA	p.M742I	ABCA12_uc002vev.2_Missense_Mutation_p.M424I|ABCA12_uc010zjn.1_5'UTR	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	742					cellular homeostasis|lipid transport	integral to membrane	ATP binding|ATPase activity			ovary(6)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	11		Renal(323;0.127)		Epithelial(149;1.01e-05)|all cancers(144;0.00112)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		AAGAGGGCAGCATGGCAGTTA	0.393													22	98					0	0	0.00278	0	0		T	215876269	T	T	215876269	3	4	209	1	0	0	0	0	1	0	0	0	30	710	25	2	5709	2	ABCA12	2	215876269	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1715453	215876269	27323104	193	100608											
ATIC	471	broad.mit.edu	37	chr2	216191614	216191614	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaacagtacagcaaaggcGtatctcagatgcccttgaga	14	7	11	9	1	1	2	1	1	1	2	2	4	1	3	1	2	4	3	1	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:216191614G>A	uc002vex.3	+	7	775	c.601G>A	c.(601-603)GTA>ATA	p.V201I	ATIC_uc010zjo.1_Missense_Mutation_p.V142I|ATIC_uc002vey.3_Missense_Mutation_p.V200I	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	201					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	CAGCAAAGGCGTATCTCAGAT	0.468			T	ALK	ALCL								44	127					0	0	0.010771	0	0		A	216191614	A	A	216191614	3	1	209	1	0	0	0	0	1	0	0	0	1106	1145	40	1	627	1	ATIC	2	216191614	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	315345	216191614	27007759	194	100609											
TNS1	7145	broad.mit.edu	37	chr2	218700748	218700748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggactcacctctttgggcCgccctccaggattgagagcg	8	8	12	13	2	2	1	1	1	1	1	3	4	3	3	4	3	1	0	4	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:218700748C>T	uc002vgt.2	-	18	3217	c.2819G>A	c.(2818-2820)CGG>CAG	p.R940Q	TNS1_uc002vgr.2_Missense_Mutation_p.R940Q|TNS1_uc002vgs.2_Missense_Mutation_p.R940Q|TNS1_uc010zjv.1_Missense_Mutation_p.R940Q	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	940						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		CTCTTTGGGCCGCCCTCCAGG	0.562													13	64					0	0	0.013537	0	0		T	218700748	T	T	218700748	3	4	209	1	0	0	0	0	1	0	0	0	16368	652	23	1	2452	1	TNS1	2	218700748	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2509134	218700748	24498625	195	100610											
USP37	57695	broad.mit.edu	37	chr2	219410943	219410943	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggcccttaaagtaacttaCgatgatgaatcattttcctt	13	14	6	8	1	1	2	1	2	0	0	2	3	2	2	2	1	2	1	2	1	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:219410943C>T	uc002vie.2	-	8	1133	c.680_splice	c.e8+1	p.S227_splice	USP37_uc010fvs.1_Splice_Site_p.S227_splice|USP37_uc010zkf.1_Splice_Site_p.S227_splice|USP37_uc002vif.2_Splice_Site_p.S227_splice|USP37_uc002vig.2_Splice_Site_p.S155_splice|USP37_uc010zkg.1_Splice_Site_p.S227_splice	NM_020935	NP_065986	Q86T82	UBP37_HUMAN	ubiquitin specific peptidase 37						ubiquitin-dependent protein catabolic process	nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			skin(3)|ovary(1)|prostate(1)	5		Renal(207;0.0915)		Epithelial(149;1.08e-06)|all cancers(144;0.000197)|LUSC - Lung squamous cell carcinoma(224;0.00375)|Lung(261;0.00487)		AAGTAACTTACGATGATGAAT	0.343													4	31					0	0	0.000602	0	0		T	219410943	T	T	219410943	5	4	209	1	0	0	0	0	0	0	1	0	17094	550	19	1	2334	1	USP37	2	219410943	Splice_Site	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	710195	219410943	23788430	196	100611											
TUBA4A	7277	broad.mit.edu	37	chr2	220115630	220115630	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccagggggaagtggatgCgagggtagggcaccaggttg	8	6	21	6	1	0	0	0	0	0	0	0	3	0	2	2	7	1	3	2	7	2	2	rs141069951		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:220115630C>T	uc002vkt.1	-	4	849	c.791G>A	c.(790-792)CGC>CAC	p.R264H	TUBA4A_uc010zkz.1_Missense_Mutation_p.R249H|TUBA4B_uc002vku.2_5'Flank|TUBA4B_uc002vkv.1_5'Flank	NM_006000	NP_005991	P68366	TBA4A_HUMAN	tubulin, alpha 4a	264					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|platelet activation|platelet degranulation|protein polymerization	cytosol|extracellular region|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)	3		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)		GAAGTGGATGCGAGGGTAGGG	0.557													14	97					0	0	0.00245	0	0		T	220115630	T	T	220115630	3	4	209	1	0	0	0	0	1	0	0	0	16775	768	27	1	559	1	TUBA4A	2	220115630	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	704687	220115630	23083743	197	100612											
SPEG	10290	broad.mit.edu	37	chr2	220354421	220354421	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcctcaaggggttaaaccagTgtcttcctctactcctgtgt	7	14	8	12	0	3	0	1	0	2	0	6	0	6	0	4	2	2	1	4	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:220354421T>G	uc010fwg.2	+	36	8681	c.8681T>G	c.(8680-8682)GTG>GGG	p.V2894G		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2894	Pro-rich.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		GTTAAACCAGTGTCTTCCTCT	0.602													36	192					0	0	0.007835	0	0		G	220354421	G	G	220354421	3	3	209	1	0	0	0	0	1	0	0	0	15061	1696	59	5	8835	5	SPEG	2	220354421	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	238791	220354421	22844952	198	100613											
TMEM198	130612	broad.mit.edu	37	chr2	220413898	220413898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagccggcagcgccgacGcgtgcaactgatgcggattc	8	6	13	14	6	1	1	1	1	0	0	2	3	1	2	2	2	5	2	2	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:220413898G>A	uc002vme.2	+	5	1352	c.767G>A	c.(766-768)CGC>CAC	p.R256H	TMEM198_uc002vmf.2_Missense_Mutation_p.R256H|hsa-mir-3132|MI0014152_5'Flank	NM_001005209	NP_001005209	Q66K66	TM198_HUMAN	transmembrane protein 198	256	Arg-rich.					integral to membrane				ovary(1)	1		Renal(207;0.0376)		Epithelial(149;6.49e-08)|all cancers(144;6.45e-06)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00802)		CAGCGCCGACGCGTGCAACTG	0.627													44	122					0	0	0.01441	0	0		A	220413898	A	A	220413898	3	1	209	1	0	0	0	0	1	0	0	0	16144	1087	38	1	777	1	TMEM198	2	220413898	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	59477	220413898	22785475	199	100614											
OBSL1	23363	broad.mit.edu	37	chr2	220421178	220421178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcctcatcaggacctaacctCgaacatggagccgggcactt	10	8	9	14	2	2	0	2	0	0	0	4	3	3	2	4	3	3	1	4	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:220421178C>T	uc010fwk.2	-	13	4391	c.4334G>A	c.(4333-4335)CGA>CAA	p.R1445Q	OBSL1_uc002vmh.1_Missense_Mutation_p.R344Q|OBSL1_uc010zli.1_Missense_Mutation_p.R252Q|OBSL1_uc010fwl.1_Missense_Mutation_p.R920Q	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	1445	Ig-like 12.				cardiac myofibril assembly	intercalated disc|M band|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity				0		Renal(207;0.0376)		Epithelial(149;2.02e-07)|all cancers(144;1.68e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00834)		GACCTAACCTCGAACATGGAG	0.597													32	152					0	0	0.013726	0	0		T	220421178	T	T	220421178	3	4	209	1	0	0	0	0	1	0	0	0	10832	884	31	1	1415	1	OBSL1	2	220421178	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7280	220421178	22778195	200	100615											
EPHA4	2043	broad.mit.edu	37	chr2	222433479	222433479	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatccacccaagttctccctGaacagatctggaatccaata	13	10	5	13	0	2	2	0	1	2	1	5	3	4	3	4	1	1	1	4	1	6	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:222433479G>A	uc002vmq.2	-	2	160	c.118C>T	c.(118-120)CAG>TAG	p.Q40*	EPHA4_uc002vmr.2_Nonsense_Mutation_p.Q40*|EPHA4_uc010zlm.1_Intron|EPHA4_uc010zln.1_Nonsense_Mutation_p.Q40*	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	40	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		AGTTCTCCCTGAACAGATCTG	0.403													7	30					0	0	0.001984	0	0		A	222433479	A	A	222433479	4	1	209	1	0	0	0	0	0	1	0	0	5177	1299	45	4	2906	4	EPHA4	2	222433479	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2012301	222433479	20765894	201	100616											
IRS1	3667	broad.mit.edu	37	chr2	227660213	227660213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcactttggcactctggttgCggttaggactgaggttcacc	6	13	12	10	1	3	1	2	1	1	0	3	2	3	2	1	5	1	4	1	5	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:227660213C>T	uc002voh.3	-	1	3294	c.3242G>A	c.(3241-3243)CGC>CAC	p.R1081H		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	1081					fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		ACTCTGGTTGCGGTTAGGACT	0.657													14	129					0	0	0.003163	0	0		T	227660213	T	T	227660213	3	4	209	1	0	0	0	0	1	0	0	0	7856	768	27	1	490	1	IRS1	2	227660213	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5226734	227660213	15539160	202	100617											
IRS1	3667	broad.mit.edu	37	chr2	227662740	227662740	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccacagagtcatccacctGcatccagaactccccgggcc	10	5	7	19	1	1	2	1	0	0	2	4	2	4	2	7	1	2	1	7	1	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:227662740G>A	uc002voh.3	-	1	767	c.715C>T	c.(715-717)CAG>TAG	p.Q239*		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	239	IRS-type PTB.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TCATCCACCTGCATCCAGAAC	0.612											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	89					0	0	0.004656	0	0		A	227662740	A	A	227662740	4	1	209	1	0	0	0	0	0	1	0	0	7856	1328	46	2	3017	2	IRS1	2	227662740	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2527	227662740	15536633	203	100618											
IRS1	3667	broad.mit.edu	37	chr2	227663331	227663331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgtagtactcgaggcgcgCcgggcccccagcctcgctgg	4	6	14	17	6	0	0	0	0	0	0	3	1	0	0	4	3	2	3	4	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:227663331C>T	uc002voh.3	-	1	176	c.124G>A	c.(124-126)GCG>ACG	p.A42T		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	42	PH.|Mediates interaction with PHIP (By similarity).				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		TCGAGGCGCGCCGGGCCCCCA	0.627													26	125					0	0	0.005443	0	0		T	227663331	T	T	227663331	3	4	209	1	0	0	0	0	1	0	0	0	7856	739	26	2	3608	2	IRS1	2	227663331	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	591	227663331	15536042	204	100619											
SPHKAP	80309	broad.mit.edu	37	chr2	228883949	228883949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggttccttgagtccttgggGtgcttgagtttgcagtgcac	5	14	14	8	0	0	2	0	2	0	0	2	2	2	2	2	3	3	5	2	3	0	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:228883949G>A	uc002vpq.2	-	7	1668	c.1621C>T	c.(1621-1623)CCC>TCC	p.P541S	SPHKAP_uc002vpp.2_Missense_Mutation_p.P541S|SPHKAP_uc010zlx.1_Missense_Mutation_p.P541S	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	541						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		AGTCCTTGGGGTGCTTGAGTT	0.532													30	101					0	0	0.009535	0	0		A	228883949	A	A	228883949	3	1	209	1	0	0	0	0	1	0	0	0	15073	1261	44	4	3505	4	SPHKAP	2	228883949	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1220618	228883949	14315424	205	100620											
SLC16A14	151473	broad.mit.edu	37	chr2	230911163	230911163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagtgcgctggcaggccacGcacatctttctctcctgggt	5	10	13	13	2	2	0	0	0	2	0	4	1	3	1	2	4	1	3	2	4	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:230911163G>A	uc002vqd.1	-	4	1042	c.679C>T	c.(679-681)CGT>TGT	p.R227C	FBXO36_uc010fxi.1_Intron|SLC16A14_uc002vqe.2_Missense_Mutation_p.R227C|SLC16A14_uc002vqf.2_Missense_Mutation_p.R227C	NM_152527	NP_689740	Q7RTX9	MOT14_HUMAN	solute carrier family 16 (monocarboxylic acid	227	Extracellular (Potential).					integral to membrane|plasma membrane	symporter activity			ovary(4)|skin(2)	6		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.149)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;7.31e-13)|all cancers(144;5.1e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00948)		GGCAGGCCACGCACATCTTTC	0.562													9	117					0	0	0.004482	0	0		A	230911163	A	A	230911163	3	1	209	1	0	0	0	0	1	0	0	0	14432	1087	38	1	861	1	SLC16A14	2	230911163	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2027214	230911163	12288210	206	100621											
ARMC9	80210	broad.mit.edu	37	chr2	232079591	232079591	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggagaccagaaggtgttcttCgatctgtgggaggagcacat	10	9	15	7	1	2	2	0	0	2	2	3	6	2	4	1	4	1	2	1	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:232079591C>T	uc002vrq.3	+	4	337	c.225C>T	c.(223-225)TTC>TTT	p.F75F	ARMC9_uc002vrp.3_Silent_p.F75F	NM_025139	NP_079415	Q7Z3E5	ARMC9_HUMAN	armadillo repeat containing 9	75							binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)		AGGTGTTCTTCGATCTGTGGG	0.453													9	60					0	0	0.004482	0	0		T	232079591	T	T	232079591	2	4	209	1	0	0	0	0	0	0	0	1	959	883	31	1		1	ARMC9	2	232079591	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1168428	232079591	11119782	207	100622											
CHRNG	1146	broad.mit.edu	37	chr2	233410403	233410403	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cattccctggagatccacgcCcctacctgccctcaccagac	8	7	6	20	1	1	2	1	0	0	2	3	3	3	2	7	1	2	0	7	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:233410403C>A	uc002vsx.1	+	12	1552	c.1531C>A	c.(1531-1533)CCC>ACC	p.P511T	CHRNG_uc010fye.1_Missense_Mutation_p.P459T	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	511					muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		AGATCCACGCCCCTACCTGCC	0.602													14	94					0.00498961	0.00511276	0.00499	1	0		A	233410403	A	A	233410403	3	1	209	1	0	0	0	0	1	0	0	0	3399	623	22	5	1577	5	CHRNG	2	233410403	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1330812	233410403	9788970	208	100623											
UGT1A8	54576	broad.mit.edu	37	chr2	234526809	234526809	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgatccttttgatgcCtgtggcttaattgttgccaa	6	19	8	8	0	1	2	0	2	1	0	2	2	2	2	3	1	2	2	3	1	2	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:234526809C>A	uc002vup.2	+	1	519	c.456C>A	c.(454-456)GCC>GCA	p.A152A	UGT1A8_uc010zmv.1_Silent_p.A152A	NM_019076	NP_061949	Q9HAW9	UD18_HUMAN	UDP glycosyltransferase 1 family, polypeptide A8	152					drug metabolic process|fatty acid metabolic process|flavone metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme inhibitor activity|fatty acid binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity|steroid binding			ovary(2)	2		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;2.56e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000482)|Lung(119;0.00404)|LUSC - Lung squamous cell carcinoma(224;0.008)		CTTTTGATGCCTGTGGCTTAA	0.428													8	187					0.00448238	0.00461254	0.004482	1	0		A	234526809	A	A	234526809	2	1	209	1	0	0	0	0	0	0	0	1	16977	668	24	5		5	UGT1A8	2	234526809	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1116406	234526809	8672564	209	100624											
HJURP	55355	broad.mit.edu	37	chr2	234750011	234750011	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgaaggccaccaggactcGcaggaccccctctgtacatg	9	6	10	16	1	1	1	0	1	1	0	2	3	1	3	5	3	1	2	5	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:234750011G>A	uc002vvg.2	-	8	1481	c.1415C>T	c.(1414-1416)GCG>GTG	p.A472V	HJURP_uc010znd.1_Missense_Mutation_p.A411V|HJURP_uc010zne.1_Missense_Mutation_p.A380V	NM_018410	NP_060880	Q8NCD3	HJURP_HUMAN	Holliday junction recognition protein	472					cell cycle|CenH3-containing nucleosome assembly at centromere|centromeric core chromatin assembly|chromosome segregation|regulation of DNA binding|regulation of protein complex assembly	condensed chromosome kinetochore|cytoplasm|nucleolus|nucleoplasm	DNA binding|histone binding			ovary(1)	1		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)		ACCAGGACTCGCAGGACCCCC	0.542													5	87					0	0	0.000602	0	0		A	234750011	A	A	234750011	3	1	209	1	0	0	0	0	1	0	0	0	7205	1087	38	1	839	1	HJURP	2	234750011	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	223202	234750011	8449362	210	100625											
AGAP1	116987	broad.mit.edu	37	chr2	236708038	236708038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggaggtgggagtttaagcGactattcctcctccgttcca	8	12	11	10	2	0	0	0	0	0	0	4	3	4	2	4	3	1	2	4	3	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:236708038G>A	uc002vvs.2	+	8	1424	c.829G>A	c.(829-831)GAC>AAC	p.D277N	AGAP1_uc002vvt.2_Missense_Mutation_p.D277N	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	277					protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						GAGTTTAAGCGACTATTCCTC	0.507													4	67					0	0	0.000602	0	0		A	236708038	A	A	236708038	3	1	209	1	0	0	0	0	1	0	0	0	366	1058	37	1	859	1	AGAP1	2	236708038	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1958027	236708038	6491335	211	100626											
COL6A3	1293	broad.mit.edu	37	chr2	238280583	238280583	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggggccacgccaaactgcttGagctccaccgccgggtcgtc	6	6	13	16	4	0	1	0	1	0	0	3	1	1	1	5	3	3	2	5	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:238280583G>C	uc002vwl.2	-	9	4362	c.4077C>G	c.(4075-4077)CTC>CTG	p.L1359L	COL6A3_uc002vwo.2_Silent_p.L1153L|COL6A3_uc010znj.1_Silent_p.L752L|COL6A3_uc002vwq.2_Silent_p.L1153L|COL6A3_uc002vwr.2_Silent_p.L952L	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1359	VWFA 7.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CAAACTGCTTGAGCTCCACCG	0.617													13	47					0	0	0.001855	0	0		C	238280583	C	C	238280583	2	2	209	1	0	0	0	0	0	0	0	1	3704	1277	45	5		5	COL6A3	2	238280583	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1572545	238280583	4918790	212	100627											
OR6B2	389090	broad.mit.edu	37	chr2	240969565	240969565	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctgcgtcatgcacccgacGaaagagatgcgtttctgctg	9	9	12	11	4	2	1	1	0	1	1	2	4	2	1	1	0	5	4	1	0	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:240969565G>A	uc002vyr.2	-	2	328	c.282C>T	c.(280-282)TTC>TTT	p.F94F	OR6B2_uc010zoc.1_Silent_p.F94F	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		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)		TGCACCCGACGAAAGAGATGC	0.572													9	87					0	0	0.008291	0	0		A	240969565	A	A	240969565	2	1	209	1	0	0	0	0	0	0	0	1	11207	1049	37	1		1	OR6B2	2	240969565	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2688982	240969565	2229808	213	100628											
OR6B2	389090	broad.mit.edu	37	chr2	240969841	240969841	+	Silent	SNP	A	G	G	1	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	accttggtgacattctccccActcatgcctctgtgcttggg	5	13	9	14	0	3	1	1	1	2	0	4	1	3	1	4	2	2	1	4	2	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:240969841A>G	uc002vyr.2	-	2	52	c.6T>C	c.(4-6)AGT>AGC	p.S2S	OR6B2_uc010zoc.1_Silent_p.S2S	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		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)		CATTCTCCCCACTCATGCCTC	0.597													10	30					0	0	0.006214	0	0		G	240969841	G	G	240969841	2	3	209	1	0	0	0	0	0	0	0	1	11207	156	6	3		3	OR6B2	2	240969841	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	276	240969841	2229532	214	100629											
KIF1A	547	broad.mit.edu	37	chr2	241706349	241706349	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taccttcgctgcctcccctgGagtcgctccggaagacgcag	6	8	11	16	4	0	1	0	0	0	1	4	3	2	3	5	2	2	3	5	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:241706349G>T	uc002vzy.2	-	18	1786	c.1640C>A	c.(1639-1641)TCC>TAC	p.S547Y	KIF1A_uc010fzk.2_Missense_Mutation_p.S556Y|KIF1A_uc002vzz.1_Missense_Mutation_p.S556Y	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	547	FHA.				anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		GCCTCCCCTGGAGTCGCTCCG	0.637													3	15					6.4e-05	6.75472e-05	0.004672	1	0		T	241706349	T	T	241706349	3	4	209	1	0	0	0	0	1	0	0	0	8299	1174	41	5	3552	5	KIF1A	2	241706349	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	736508	241706349	1493024	215	100630											
ANO7	50636	broad.mit.edu	37	chr2	242154253	242154253	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	gctgcctgatcgagctggcaCaggagctcctggtcatcatg	7	9	13	12	1	2	1	2	1	0	0	4	3	3	2	2	3	3	4	2	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:242154253C>T	uc002wax.2	+	18	2027	c.1924C>T	c.(1924-1926)CAG>TAG	p.Q642*		NM_001001891	NP_001001891	Q6IWH7	ANO7_HUMAN	transmembrane protein 16G isoform NGEP long	642	Extracellular (Potential).					cell junction|chloride channel complex|cytosol	chloride channel activity			pancreas(2)|central_nervous_system(1)	3						CGAGCTGGCACAGGAGCTCCT	0.632													5	66					0	0	0.004482	0	0		T	242154253	T	T	242154253	4	4	209	1	0	0	0	0	0	1	0	0	702	479	17	4	2066	4	ANO7	2	242154253	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	447904	242154253	1045120	216	100631											
HDLBP	3069	broad.mit.edu	37	chr2	242176046	242176046	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atacctccagagcttccttgGcagcctcacacttttctttc	7	14	5	15	0	2	1	1	0	1	1	5	1	4	1	4	1	3	2	4	1	1	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:242176046G>A	uc002waz.2	-	21	3116	c.2888C>T	c.(2887-2889)GCC>GTC	p.A963V	HDLBP_uc002wba.2_Missense_Mutation_p.A963V|HDLBP_uc002wbb.2_Missense_Mutation_p.A915V	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	963	KH 11.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		AGCTTCCTTGGCAGCCTCACA	0.612													24	74					0	0	0.00333	0	0		A	242176046	A	A	242176046	3	1	209	1	0	0	0	0	1	0	0	0	7041	1203	42	2	950	2	HDLBP	2	242176046	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	21793	242176046	1023327	217	100632											
HDLBP	3069	broad.mit.edu	37	chr2	242179429	242179429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccgcagggaagatgacacGtgctccagtgctgtcgcgca	9	6	14	12	4	0	2	0	1	0	1	2	3	1	3	2	1	3	4	2	1	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr2:242179429G>A	uc002waz.2	-	18	2506	c.2278C>T	c.(2278-2280)CGT>TGT	p.R760C	HDLBP_uc002wba.2_Missense_Mutation_p.R760C|HDLBP_uc002wbb.2_Missense_Mutation_p.R712C	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	760	KH 9.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		AAGATGACACGTGCTCCAGTG	0.577													11	102					0	0	0.013537	0	0		A	242179429	A	A	242179429	3	1	209	1	0	0	0	0	1	0	0	0	7041	1145	40	1	1572	1	HDLBP	2	242179429	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3383	242179429	1019944	218	100633											
SRGAP3	9901	broad.mit.edu	37	chr3	9097969	9097969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggactgcagctggtgataaCgcatgagcagttctgtctgg	8	11	14	8	1	2	2	0	2	2	0	2	3	2	3	0	3	4	5	0	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:9097969C>T	uc003brf.1	-	8	1749	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H	SRGAP3_uc003brg.1_Missense_Mutation_p.R358H|SRGAP3_uc003bri.1_RNA|SRGAP3_uc003brj.1_Missense_Mutation_p.R218H	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	358	Potential.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		CTGGTGATAACGCATGAGCAG	0.557			T	RAF1	pilocytic astrocytoma								6	106					0	0	0.004482	0	0		T	9097969	T	T	9097969	3	4	209	1	0	0	0	0	1	0	0	0	15172	536	19	1	2321	1	SRGAP3	3	9097969	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		9097969	188924461	219	100634											
SETD5	55209	broad.mit.edu	37	chr3	9483391	9483391	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	gtgggaaagtcatgttacgaCagcaatttgaggtcaatggg	12	10	14	5	1	2	1	2	1	0	0	2	3	2	2	0	3	2	2	0	3	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:9483391C>T	uc003brt.2	+	9	1360	c.925C>T	c.(925-927)CAG>TAG	p.Q309*	SETD5_uc003brs.1_Nonsense_Mutation_p.Q290*|SETD5_uc003bru.2_Nonsense_Mutation_p.Q211*|SETD5_uc003brv.2_Nonsense_Mutation_p.Q198*|SETD5_uc010hck.2_5'Flank|SETD5_uc003brw.1_5'Flank|SETD5_uc003brx.2_5'Flank	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	309	SET.									ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		CATGTTACGACAGCAATTTGA	0.438													18	106					0	0	0.008871	0	0		T	9483391	T	T	9483391	4	4	209	1	0	0	0	0	0	1	0	0	14159	479	17	4	951	4	SETD5	3	9483391	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	385422	9483391	188539039	220	100635											
KCNH8	131096	broad.mit.edu	37	chr3	19559535	19559535	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcatcaaagcagaggagaCcaagcagcagataaacaaac	19	4	8	10	0	2	3	2	0	0	3	2	4	2	3	1	1	5	3	1	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:19559535C>G	uc003cbk.1	+	15	2783	c.2588C>G	c.(2587-2589)ACC>AGC	p.T863S	KCNH8_uc010hex.1_Missense_Mutation_p.T324S	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	863	Cytoplasmic (Potential).					integral to membrane	two-component sensor activity			lung(4)|ovary(1)	5						GCAGAGGAGACCAAGCAGCAG	0.403													16	27					0	0	0.00499	0	0		G	19559535	G	G	19559535	3	3	209	1	0	0	0	0	1	0	0	0	8054	507	18	5	2646	5	KCNH8	3	19559535	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10076144	19559535	178462895	221	100636											
NKIRAS1	28512	broad.mit.edu	37	chr3	23942333	23942333	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaacttatcgatttctttcTtcagaagctccactctttga	9	17	5	10	1	4	3	1	2	3	1	6	4	5	3	1	0	2	1	1	0	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:23942333T>C	uc003ccj.2	-	4	704	c.302A>G	c.(301-303)AAG>AGG	p.K101R	NKIRAS1_uc003cck.2_Missense_Mutation_p.K101R|NKIRAS1_uc003ccl.2_Missense_Mutation_p.K101R|NKIRAS1_uc003ccm.2_Missense_Mutation_p.K101R	NM_020345	NP_065078	Q9NYS0	KBRS1_HUMAN	kappa B-ras 1	101					I-kappaB kinase/NF-kappaB cascade|small GTPase mediated signal transduction	cytoplasm	GTP binding|GTPase activity				0						GATTTCTTTCTTCAGAAGCTC	0.353													10	47					0	0	0.006214	0	0		C	23942333	C	C	23942333	3	2	209	1	0	0	0	0	1	0	0	0	10463	1609	56	3	284	3	NKIRAS1	3	23942333	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4382798	23942333	174080097	222	100637											
SCN5A	6331	broad.mit.edu	37	chr3	38622836	38622836	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgcactgaaggagctgagCagcaaggccaggaagagatt	13	6	14	8	0	1	3	0	2	1	1	1	6	1	5	1	3	4	4	1	3	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:38622836C>T	uc003cio.2	-	17	3008	c.2814G>A	c.(2812-2814)CTG>CTA	p.L938L	SCN5A_uc003cin.2_Silent_p.L938L|SCN5A_uc003cil.3_Silent_p.L938L|SCN5A_uc010hhi.2_Silent_p.L938L|SCN5A_uc010hhk.2_Silent_p.L938L|SCN5A_uc011ayr.1_Silent_p.L938L|SCN5A_uc010hhj.1_Silent_p.L549L	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	938	Helical; Name=S6 of repeat II; (Potential).				blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	AGGAGCTGAGCAGCAAGGCCA	0.522													4	15					0	0	0.000602	0	0		T	38622836	T	T	38622836	2	4	209	1	0	0	0	0	0	0	0	1	13947	697	25	2		2	SCN5A	3	38622836	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	14680503	38622836	159399594	223	100638											
SCN10A	6336	broad.mit.edu	37	chr3	38739984	38739984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcggccaattcgggccaggCggatgactctgaagagcgtt	8	8	15	10	4	1	3	0	2	1	1	2	4	1	4	2	4	2	1	2	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:38739984C>T	uc003ciq.2	-	27	4727	c.4727G>A	c.(4726-4728)CGC>CAC	p.R1576H		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1576	IV.|Helical; Voltage-sensor; Name=S4 of repeat IV; (Potential).				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TCGGGCCAGGCGGATGACTCT	0.493													16	78					0	0	0.00499	0	0		T	38739984	T	T	38739984	3	4	209	1	0	0	0	0	1	0	0	0	13937	768	27	1	1147	1	SCN10A	3	38739984	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	117148	38739984	159282446	224	100639											
SCN10A	6336	broad.mit.edu	37	chr3	38768416	38768416	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaaagagcctgtttggtaCgatggccaaagacctggatc	11	9	12	9	1	0	2	0	0	0	2	1	4	0	3	3	3	3	3	3	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:38768416C>T	uc003ciq.2	-	16	2768	c.2768G>A	c.(2767-2769)CGT>CAT	p.R923H		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	923					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	CTGTTTGGTACGATGGCCAAA	0.592													11	144					0	0	0.013537	0	0		T	38768416	T	T	38768416	3	4	209	1	0	0	0	0	1	0	0	0	13937	536	19	1	3150	1	SCN10A	3	38768416	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	28432	38768416	159254014	225	100640											
SCN11A	11280	broad.mit.edu	37	chr3	38950583	38950583	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttgttctgctcctcatatgCcatggtaacaacagccaggg	9	11	9	12	0	2	0	1	0	1	0	3	0	3	0	3	2	5	3	3	2	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:38950583C>G	uc011ays.1	-	9	1403	c.1204G>C	c.(1204-1206)GCA>CCA	p.A402P		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	402	I.|Helical; Name=S6 of repeat I; (By similarity).				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TCCTCATATGCCATGGTAACA	0.473													14	150					0	0	0.00245	0	0		G	38950583	G	G	38950583	3	3	209	1	0	0	0	0	1	0	0	0	13938	739	26	5	4243	5	SCN11A	3	38950583	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	182167	38950583	159071847	226	100641											
SCN11A	11280	broad.mit.edu	37	chr3	38950604	38950604	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggtaacaacagccagggTtaagttaatcaggtagaagg	15	8	12	6	0	1	1	1	0	0	1	1	1	1	1	1	4	3	4	1	4	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:38950604T>G	uc011ays.1	-	9	1382	c.1183A>C	c.(1183-1185)ACC>CCC	p.T395P		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	395	I.|Helical; Name=S6 of repeat I; (By similarity).				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	ACAGCCAGGGTTAAGTTAATC	0.478													10	133					0	0	0.010729	0	0		G	38950604	G	G	38950604	3	3	209	1	0	0	0	0	1	0	0	0	13938	1725	60	5	4264	5	SCN11A	3	38950604	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	21	38950604	159071826	227	100642											
ANO10	55129	broad.mit.edu	37	chr3	43596770	43596770	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttttctcaaacaattacCtgccacacaccaatattggc	12	14	3	12	0	1	0	1	0	1	0	2	0	1	0	3	1	3	0	3	1	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:43596770C>A	uc003cmv.2	-	10	1839	c.1668G>T	c.(1666-1668)CAG>CAT	p.Q556H	ANO10_uc011azs.1_Missense_Mutation_p.Q556H|ANO10_uc003cmw.2_Missense_Mutation_p.Q490H|ANO10_uc010hil.2_Missense_Mutation_p.Q366H|ANO10_uc011azt.1_Missense_Mutation_p.Q445H	NM_018075	NP_060545	Q9NW15	ANO10_HUMAN	transmembrane protein 16K	556	Helical; (Potential).				cell death	chloride channel complex	chloride channel activity			ovary(2)	2						AAACAATTACCTGCCACACAC	0.303													9	67					2.80697e-09	3.07814e-09	0.010729	1	0		A	43596770	A	A	43596770	3	1	209	1	0	0	0	0	1	0	0	0	696	695	24	5	330	5	ANO10	3	43596770	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4646166	43596770	154425660	228	100643											
ZNF445	353274	broad.mit.edu	37	chr3	44490207	44490207	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgatttaagatgaatttgTttgttttactctggaggtca	9	18	9	5	0	2	3	1	2	1	1	2	4	2	4	1	2	1	2	1	2	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:44490207T>C	uc003cnf.2	-	8	1304	c.956A>G	c.(955-957)AAC>AGC	p.N319S	ZNF445_uc011azv.1_Missense_Mutation_p.N307S|ZNF445_uc011azw.1_Missense_Mutation_p.N319S	NM_181489	NP_852466	P59923	ZN445_HUMAN	zinc finger protein 445	319					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(197;0.0514)|Kidney(197;0.0646)		GATGAATTTGTTTGTTTTACT	0.408													6	20					0	0	0.001168	0	0		C	44490207	C	C	44490207	3	2	209	1	0	0	0	0	1	0	0	0	17943	1725	60	3	2143	3	ZNF445	3	44490207	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	893437	44490207	153532223	229	100644											
ZNF35	7584	broad.mit.edu	37	chr3	44700257	44700257	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atatgtgaggaagctgaaaaAcccctcatcatatcagaaag	17	8	8	8	0	3	3	3	2	0	1	3	4	3	4	2	1	2	1	2	1	6	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:44700257A>C	uc003cnq.2	+	4	623	c.402A>C	c.(400-402)AAA>AAC	p.K134N	ZNF35_uc003cnr.2_5'UTR	NM_003420	NP_003411	P13682	ZNF35_HUMAN	zinc finger protein 35	134	Globular domain.				cellular response to retinoic acid|spermatogenesis	nucleus|perinuclear region of cytoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		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)		AAGCTGAAAAACCCCTCATCA	0.393													4	56					0	0	0.009096	0	0		C	44700257	C	C	44700257	3	2	209	1	0	0	0	0	1	0	0	0	17887	40	2	5	412	5	ZNF35	3	44700257	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	210050	44700257	153322173	230	100645											
CLEC3B	7123	broad.mit.edu	37	chr3	45077258	45077258	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggacatgaccggcgccCgcatcgcctacaagaactgg	9	5	14	13	4	0	2	0	1	0	1	1	3	0	3	3	4	2	1	3	4	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:45077258C>T	uc003cok.3	+	3	547	c.451C>T	c.(451-453)CGC>TGC	p.R151C	CLEC3B_uc003col.2_Missense_Mutation_p.R109C	NM_003278	NP_003269	P05452	TETN_HUMAN	C-type lectin domain family 3, member B	151	C-type lectin.				skeletal system development	extracellular space	protein binding|sugar binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00863)|KIRC - Kidney renal clear cell carcinoma(197;0.0475)|Kidney(197;0.0595)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACCGGCGCCCGCATCGCCTA	0.662													10	57					0	0	0.010729	0	0		T	45077258	T	T	45077258	3	4	209	1	0	0	0	0	1	0	0	0	3514	652	23	1	461	1	CLEC3B	3	45077258	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	377001	45077258	152945172	231	100646											
XCR1	2829	broad.mit.edu	37	chr3	46062922	46062922	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcggaataatcacagcccGaagaaagcaccttgtggaag	14	7	11	9	2	1	1	1	0	0	1	2	4	1	3	2	2	2	2	2	2	5	3	rs78405233	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:46062922G>A	uc003cpe.2	-	3	742	c.518C>T	c.(517-519)TCG>TTG	p.S173L	uc003cpd.1_5'Flank|XCR1_uc003cpf.2_Missense_Mutation_p.S173L	NM_005283	NP_005274	P46094	XCR1_HUMAN	XC chemokine receptor 1	173	Extracellular (Potential).				chemotaxis|G-protein signaling, coupled to cyclic nucleotide second messenger|inflammatory response	integral to plasma membrane	chemokine receptor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00113)|KIRC - Kidney renal clear cell carcinoma(197;0.0172)|Kidney(197;0.0203)		ATCACAGCCCGAAGAAAGCAC	0.577													5	41					0	0	0.000602	0	0		A	46062922	A	A	46062922	3	1	209	1	0	0	0	0	1	0	0	0	17451	1059	37	1	487	1	XCR1	3	46062922	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	985664	46062922	151959508	232	100647											
CCR3	1232	broad.mit.edu	37	chr3	46307587	46307587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggttccggaagtacctgcGccacttcttccacaggcact	8	9	10	14	2	1	0	0	0	1	0	3	2	3	1	4	3	2	3	4	3	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:46307587G>A	uc003cpg.1	+	4	1481	c.938G>A	c.(937-939)CGC>CAC	p.R313H	CCR3_uc003cpi.1_Missense_Mutation_p.R313H|CCR3_uc003cpj.1_Missense_Mutation_p.R313H|CCR3_uc003cpk.1_Missense_Mutation_p.R334H|CCR3_uc010hjb.1_Missense_Mutation_p.R331H|CCR3_uc003cpl.1_Missense_Mutation_p.R346H	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	313	Cytoplasmic (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		AAGTACCTGCGCCACTTCTTC	0.547													11	65					0	0	0.008291	0	0		A	46307587	A	A	46307587	3	1	209	1	0	0	0	0	1	0	0	0	2945	1087	38	1	1007	1	CCR3	3	46307587	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	244665	46307587	151714843	233	100648											
LRRC2	79442	broad.mit.edu	37	chr3	46560523	46560523	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcaaagttgaaggctaaaaGacactttggtggtatagctg	14	11	11	5	0	1	2	1	1	0	1	1	2	1	2	0	3	1	4	0	3	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:46560523G>T	uc010hji.2	-	9	1461	c.1097C>A	c.(1096-1098)TCT>TAT	p.S366Y	LRRC2_uc003cpu.3_Missense_Mutation_p.S366Y	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	366										ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		AAGGCTAAAAGACACTTTGGT	0.338													40	134					1.00001e-27	1.14141e-27	0.009718	1	0		T	46560523	T	T	46560523	3	4	209	1	0	0	0	0	1	0	0	0	8994	942	33	5	22	5	LRRC2	3	46560523	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	252936	46560523	151461907	234	100649											
NBEAL2	23218	broad.mit.edu	37	chr3	47037022	47037022	+	Silent	SNP	A	G	G	1	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	ccccctgtacagcgatggccAgggcctggcttcacctttca	6	9	10	16	1	2	0	2	0	0	0	2	1	2	0	5	3	2	2	5	3	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:47037022A>G	uc003cqp.2	+	13	1976	c.1797A>G	c.(1795-1797)CCA>CCG	p.P599P	NBEAL2_uc003cqq.1_Silent_p.P565P|NBEAL2_uc010hjm.1_Silent_p.P160P	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	599							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		AGCGATGGCCAGGGCCTGGCT	0.627													14	106					0	0	0.00499	0	0		G	47037022	G	G	47037022	2	3	209	1	0	0	0	0	0	0	0	1	10207	175	7	3		3	NBEAL2	3	47037022	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	476499	47037022	150985408	235	100650											
CELSR3	1951	broad.mit.edu	37	chr3	48696844	48696844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgctattctctttcaccCgcacctcaaactcctcagct	9	12	3	17	1	4	0	3	0	1	0	6	0	5	0	3	0	3	3	3	0	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:48696844C>A	uc003cul.2	-	1	3505	c.3224G>T	c.(3223-3225)CGG>CTG	p.R1075L	CELSR3_uc003cuf.1_Missense_Mutation_p.R1145L	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1075	Extracellular (Potential).|Cadherin 8.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding	p.R1075R(1)		ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CTCTTTCACCCGCACCTCAAA	0.557													40	145					1.57019e-19	1.78102e-19	0.007835	1	0		A	48696844	A	A	48696844	3	1	209	1	0	0	0	0	1	0	0	0	3226	652	23	5	6854	5	CELSR3	3	48696844	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1659822	48696844	149325586	236	100651											
LAMB2	3913	broad.mit.edu	37	chr3	49160752	49160752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagggctgaggtattggcaCgacgttctgcctctgcagac	7	9	13	12	2	2	2	0	1	2	1	2	3	2	2	2	3	2	5	2	3	1	3	rs149144377		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:49160752C>T	uc003cwe.2	-	26	4336	c.4037G>A	c.(4036-4038)CGT>CAT	p.R1346H	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1346	Domain II.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGTATTGGCACGACGTTCTGC	0.577													28	104					0	0	0.008361	0	0		T	49160752	T	T	49160752	3	4	209	1	0	0	0	0	1	0	0	0	8627	536	19	1	1387	1	LAMB2	3	49160752	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	463908	49160752	148861678	237	100652											
APEH	327	broad.mit.edu	37	chr3	49716378	49716378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgactcggctcagcgcagccGgcaggtgagggacgctgatt	7	7	16	11	4	1	3	1	3	0	0	2	4	1	4	1	4	2	4	1	4	0	1	rs145125345		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:49716378G>A	uc003cxf.2	+	12	1554	c.1154G>A	c.(1153-1155)CGG>CAG	p.R385Q	APEH_uc010hkw.1_Missense_Mutation_p.R385Q	NM_001640	NP_001631	P13798	ACPH_HUMAN	N-acylaminoacyl-peptide hydrolase	385					proteolysis	cytoplasm|nuclear membrane	serine-type endopeptidase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.53e-05)|Kidney(197;0.00218)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		CAGCGCAGCCGGCAGGTGAGG	0.607													15	48					0	0	0.00245	0	0		A	49716378	A	A	49716378	3	1	209	1	0	0	0	0	1	0	0	0	768	1116	39	1	1200	1	APEH	3	49716378	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	555626	49716378	148306052	238	100653											
HEMK1	51409	broad.mit.edu	37	chr3	50617831	50617831	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccccggttcctgcatatcCggaggtctgggccatagcat	6	9	13	13	2	1	0	0	0	1	0	3	1	3	1	5	5	2	3	5	5	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:50617831C>T	uc003dau.2	+	11	1296	c.1000C>T	c.(1000-1002)CGG>TGG	p.R334W	HEMK1_uc003dav.2_Missense_Mutation_p.R334W|HEMK1_uc003daw.2_Missense_Mutation_p.R334W	NM_016173	NP_057257	Q9Y5R4	HEMK1_HUMAN	HemK methyltransferase family member 1	334					DNA methylation		DNA binding|N-methyltransferase activity|protein methyltransferase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000283)|KIRC - Kidney renal clear cell carcinoma(197;0.0179)|Kidney(197;0.0212)		CCTGCATATCCGGAGGTCTGG	0.617													7	60					0	0	0.004482	0	0		T	50617831	T	T	50617831	3	4	209	1	0	0	0	0	1	0	0	0	7067	643	23	1	1038	1	HEMK1	3	50617831	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	901453	50617831	147404599	239	100654											
PPM1M	132160	broad.mit.edu	37	chr3	52282240	52282240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagagactgagcggcagcGgatccagcagctggtaggtg	9	5	16	11	2	0	2	0	1	0	1	1	4	1	3	2	4	4	4	2	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:52282240G>A	uc003ddf.3	+	5	664	c.299G>A	c.(298-300)CGG>CAG	p.R100Q	PPM1M_uc011bed.1_Missense_Mutation_p.R261Q|PPM1M_uc010hmd.2_Missense_Mutation_p.R100Q|PPM1M_uc003ddg.3_Missense_Mutation_p.R49Q|PPM1M_uc003ddh.3_5'Flank			Q96MI6	PPM1M_HUMAN	RecName: Full=Protein phosphatase 1M;          EC=3.1.3.16; AltName: Full=Protein phosphatase 2C isoform eta;          Short=PP2C-eta;          Short=PP2CE;	100	PP2C-like.				protein dephosphorylation	nucleus	CTD phosphatase activity|manganese ion binding				0				BRCA - Breast invasive adenocarcinoma(193;2.4e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)		GAGCGGCAGCGGATCCAGCAG	0.592													3	16					0	0	0.009096	0	0		A	52282240	A	A	52282240	3	1	209	1	0	0	0	0	1	0	0	0	12367	1116	39	1	309	1	PPM1M	3	52282240	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1664409	52282240	145740190	240	100655											
GLT8D1	55830	broad.mit.edu	37	chr3	52730630	52730630	+	Missense_Mutation	SNP	A	C	C	1	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	agtttagggtcaaaattgacAattttgtatctgatgctttt	11	18	8	4	0	2	2	1	2	1	0	2	2	2	2	0	1	1	3	0	1	5	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:52730630A>C	uc003dfi.3	-	5	514	c.375T>G	c.(373-375)ATT>ATG	p.I125M	GLT8D1_uc003dfj.2_Missense_Mutation_p.I125M|GLT8D1_uc003dfk.2_Missense_Mutation_p.I125M|GLT8D1_uc003dfl.2_Missense_Mutation_p.I125M|GLT8D1_uc003dfm.2_Missense_Mutation_p.I125M|GLT8D1_uc003dfn.2_Missense_Mutation_p.I125M|GLT8D1_uc003dfo.1_Missense_Mutation_p.I125M	NM_152932	NP_690909	Q68CQ7	GL8D1_HUMAN	glycosyltransferase 8 domain containing 1	125	Lumenal (Potential).					integral to membrane|mitochondrion	transferase activity, transferring glycosyl groups				0				BRCA - Breast invasive adenocarcinoma(193;6.78e-05)|Kidney(197;0.000618)|KIRC - Kidney renal clear cell carcinoma(197;0.000779)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CAAAATTGACAATTTTGTATC	0.393													4	69					0	0	0.009096	0	0		C	52730630	C	C	52730630	3	2	209	1	0	0	0	0	1	0	0	0	6484	126	5	5	764	5	GLT8D1	3	52730630	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	448390	52730630	145291800	241	100656											
ITIH4	3700	broad.mit.edu	37	chr3	52860835	52860835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgaccagctgctggggcCgcactttcagcagcagctcg	6	8	13	14	2	1	1	1	1	0	0	2	1	1	1	2	2	5	7	2	2	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:52860835C>T	uc003dfz.2	-	4	527	c.491G>A	c.(490-492)CGG>CAG	p.R164Q	ITIH4_uc011bel.1_5'Flank|ITIH4_uc003dfy.2_Missense_Mutation_p.R40Q|ITIH4_uc011bem.1_Missense_Mutation_p.R164Q|ITIH4_uc011ben.1_Missense_Mutation_p.R164Q	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	164					acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CTGCTGGGGCCGCACTTTCAG	0.612													8	55					0	0	0.004482	0	0		T	52860835	T	T	52860835	3	4	209	1	0	0	0	0	1	0	0	0	7922	652	23	1	2385	1	ITIH4	3	52860835	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	130205	52860835	145161595	242	100657											
PRKCD	5580	broad.mit.edu	37	chr3	53212511	53212511	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggccgaggacgaggcgaacCagcccttctgtgccgtgaag	9	5	15	12	4	1	1	0	1	1	0	1	5	1	2	4	3	3	0	4	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:53212511C>T	uc003dgl.2	+	3	426	c.73C>T	c.(73-75)CAG>TAG	p.Q25*	PRKCD_uc003dgm.2_Nonsense_Mutation_p.Q25*|PRKCD_uc003dgn.2_Nonsense_Mutation_p.Q25*	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	25	C2.				activation of phospholipase C activity|cellular component disassembly involved in apoptosis|cellular senescence|interferon-gamma-mediated signaling pathway|intracellular signal transduction|mRNA metabolic process|negative regulation of insulin receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of protein binding|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of ceramide biosynthetic process|positive regulation of glucosylceramide catabolic process|positive regulation of protein dephosphorylation|positive regulation of sphingomyelin catabolic process|protein stabilization|regulation of receptor activity|termination of signal transduction	cytosol|endoplasmic reticulum|nucleoplasm	ATP binding|calcium-independent protein kinase C activity|enzyme activator activity|enzyme binding|insulin receptor substrate binding|metal ion binding|protein C-terminus binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9		Ovarian(412;0.0728)		OV - Ovarian serous cystadenocarcinoma(275;3.58e-08)|BRCA - Breast invasive adenocarcinoma(193;0.000142)|Kidney(197;0.00153)|KIRC - Kidney renal clear cell carcinoma(197;0.00173)		CGAGGCGAACCAGCCCTTCTG	0.657													13	34					0	0	0.013537	0	0		T	53212511	T	T	53212511	4	4	209	1	0	0	0	0	0	1	0	0	12531	595	21	4	75	4	PRKCD	3	53212511	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	351676	53212511	144809919	243	100658											
CACNA1D	776	broad.mit.edu	37	chr3	53783318	53783318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtataaagccatcgactCgaatggagagaacatcggcc	13	7	11	10	3	0	1	0	0	0	1	3	5	0	2	2	2	2	2	2	2	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:53783318C>T	uc003dgv.3	+	27	3501	c.3338C>T	c.(3337-3339)TCG>TTG	p.S1113L	CACNA1D_uc003dgu.3_Missense_Mutation_p.S1133L|CACNA1D_uc003dgy.3_Missense_Mutation_p.S1113L|CACNA1D_uc003dgw.3_Missense_Mutation_p.S780L|CACNA1D_uc003dgx.1_Missense_Mutation_p.S261L	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1113	Extracellular (Potential).|Dihydropyridine binding (By similarity).|III.				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	GCCATCGACTCGAATGGAGAG	0.522													7	35					0	0	0.00308	0	0		T	53783318	T	T	53783318	3	4	209	1	0	0	0	0	1	0	0	0	2544	893	31	1	3616	1	CACNA1D	3	53783318	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	570807	53783318	144239112	244	100659											
ERC2	26059	broad.mit.edu	37	chr3	56468581	56468581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctgcagttctttcagctggGcctgaagatctaacattgtg	8	14	10	9	0	4	2	1	1	3	1	4	2	4	2	1	1	3	3	1	1	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:56468581G>A	uc003dhr.1	-	2	711	c.455C>T	c.(454-456)GCC>GTC	p.A152V		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	152	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		TTTCAGCTGGGCCTGAAGATC	0.493													36	184					0	0	0.003271	0	0		A	56468581	A	A	56468581	3	1	209	1	0	0	0	0	1	0	0	0	5219	1203	42	2	2472	2	ERC2	3	56468581	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2685263	56468581	141553849	245	100660											
PDE12	201626	broad.mit.edu	37	chr3	57545470	57545470	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcatgaagactgggcttcCaatggggaggaggaaagatg	13	7	16	5	0	1	3	1	1	0	2	2	7	2	6	1	5	0	1	1	5	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:57545470C>T	uc003diw.3	+	3	1695	c.1569C>T	c.(1567-1569)TCC>TCT	p.S523S	PDE12_uc003div.2_3'UTR	NM_177966	NP_808881	Q6L8Q7	PDE12_HUMAN	phosphodiesterase 12	523							hydrolase activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.011)|Kidney(284;0.0127)		ACTGGGCTTCCAATGGGGAGG	0.408													24	99					0	0	0.00333	0	0		T	57545470	T	T	57545470	2	4	209	1	0	0	0	0	0	0	0	1	11651	581	21	4		4	PDE12	3	57545470	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1076889	57545470	140476960	246	100661											
FLNB	2317	broad.mit.edu	37	chr3	58089736	58089736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttctggatggggtctacGcattcgagtattaccccagc	8	12	10	11	2	2	0	0	0	2	0	3	2	2	1	2	3	3	2	2	3	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:58089736G>A	uc003djj.2	+	10	1699	c.1534G>A	c.(1534-1536)GCA>ACA	p.A512T	FLNB_uc010hne.2_Missense_Mutation_p.A512T|FLNB_uc003djk.2_Missense_Mutation_p.A512T|FLNB_uc010hnf.2_Missense_Mutation_p.A512T|FLNB_uc003djl.2_Missense_Mutation_p.A343T|FLNB_uc003djm.2_Missense_Mutation_p.A343T	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	512	Filamin 3.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		TGGGGTCTACGCATTCGAGTA	0.537													26	86					0	0	0.003954	0	0		A	58089736	A	A	58089736	3	1	209	1	0	0	0	0	1	0	0	0	5948	1087	38	1	1572	1	FLNB	3	58089736	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	544266	58089736	139932694	247	100662											
FAM107A	11170	broad.mit.edu	37	chr3	58552332	58552332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccctacagctctctctcttCgctggtcagtgtggcaattc	5	13	9	14	1	3	0	1	0	2	0	7	0	3	0	1	2	2	3	1	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:58552332C>T	uc003dkm.2	-	5	977	c.418G>A	c.(418-420)GAA>AAA	p.E140K	FAM107A_uc003dko.2_Missense_Mutation_p.E171K|FAM107A_uc003dkn.2_Missense_Mutation_p.E140K|FAM107A_uc010hnm.2_Missense_Mutation_p.E168K|FAM107A_uc003dkp.1_3'UTR	NM_007177	NP_009108	O95990	F107A_HUMAN	downregulated in renal cell carcinoma	140					regulation of cell growth	nucleus	protein binding				0				BRCA - Breast invasive adenocarcinoma(55;0.000189)|Kidney(10;0.000536)|KIRC - Kidney renal clear cell carcinoma(10;0.000716)|OV - Ovarian serous cystadenocarcinoma(275;0.154)		TCTCTCTCTTCGCTGGTCAGT	0.602													11	94					0	0	0.008291	0	0		T	58552332	T	T	58552332	3	4	209	1	0	0	0	0	1	0	0	0	5400	893	31	1	20	1	FAM107A	3	58552332	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	462596	58552332	139470098	248	100663											
C3orf67	200844	broad.mit.edu	37	chr3	58792166	58792166	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcatttctttctgatagtggCgaccctggttgacaggctgg	6	14	12	9	1	3	2	1	2	2	0	3	3	3	2	1	4	0	2	1	4	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:58792166C>T	uc003dkt.1	-	14	1848	c.1439G>A	c.(1438-1440)CGC>CAC	p.R480H	C3orf67_uc003dkr.1_RNA|C3orf67_uc003dks.1_Missense_Mutation_p.R421H	NM_198463	NP_940865	Q6ZVT6	CC067_HUMAN	hypothetical protein LOC200844	485											0		all_cancers(2;0.000156)|all_epithelial(2;0.000493)|Breast(2;0.00446)|all_lung(2;0.074)|Lung NSC(2;0.248)		BRCA - Breast invasive adenocarcinoma(55;5.93e-06)|Kidney(10;0.00155)|KIRC - Kidney renal clear cell carcinoma(10;0.00172)|OV - Ovarian serous cystadenocarcinoma(275;0.23)		CTGATAGTGGCGACCCTGGTT	0.358													9	58					0	0	0.008291	0	0		T	58792166	T	T	58792166	3	4	209	1	0	0	0	0	1	0	0	0	2244	768	27	1	264	1	C3orf67	3	58792166	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	239834	58792166	139230264	249	100664											
ADAMTS9	56999	broad.mit.edu	37	chr3	64580089	64580089	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caccagtcttgttcttatgcCtccaccacacagcttagtgc	8	12	6	15	0	2	0	0	0	2	0	3	0	3	0	4	0	3	2	4	0	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:64580089C>A	uc003dmg.2	-	28	4233	c.4201G>T	c.(4201-4203)GGC>TGC	p.G1401C	ADAMTS9_uc011bfo.1_Missense_Mutation_p.G1373C|ADAMTS9_uc003dmh.1_Missense_Mutation_p.G1230C|ADAMTS9_uc011bfp.1_Missense_Mutation_p.G312C	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1401	TSP type-1 10.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		GTTCTTATGCCTCCACCACAC	0.458													12	181					4.3838e-07	4.7464e-07	0.001855	1	0		A	64580089	A	A	64580089	3	1	209	1	0	0	0	0	1	0	0	0	273	681	24	5	1654	5	ADAMTS9	3	64580089	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5787923	64580089	133442341	250	100665											
LRIG1	26018	broad.mit.edu	37	chr3	66467568	66467568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttacagctcctttataggcGgtccgtgtggaaagcaggtg	8	11	13	9	2	0	0	0	0	0	0	2	1	2	1	2	4	3	2	2	4	4	4	rs146856805	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:66467568G>A	uc003dmx.2	-	4	502	c.488C>T	c.(487-489)CCG>CTG	p.P163L	LRIG1_uc010hnz.2_5'UTR|LRIG1_uc010hoa.2_Missense_Mutation_p.P163L	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	163	Extracellular (Potential).					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		CTTTATAGGCGGTCCGTGTGG	0.557													35	245					0	0	0.004878	0	0		A	66467568	A	A	66467568	3	1	209	1	0	0	0	0	1	0	0	0	8962	1116	39	1	2857	1	LRIG1	3	66467568	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1887479	66467568	131554862	251	100666											
FOXP1	27086	broad.mit.edu	37	chr3	71247446	71247446	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcccctcccgaagaccgccGcactctagtaagtggttgct	7	8	10	16	4	1	1	0	0	1	1	2	2	2	1	5	1	1	4	5	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:71247446G>A	uc003dol.2	-	2	410	c.87C>T	c.(85-87)TGC>TGT	p.C29C	FOXP1_uc003dom.2_Silent_p.C29C|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Silent_p.C29C|FOXP1_uc003dop.2_Silent_p.C29C|FOXP1_uc003doq.1_Silent_p.C29C|FOXP1_uc003dos.2_Silent_p.C29C	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	29					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		GAAGACCGCCGCACTCTAGTA	0.602			T	PAX5	ALL								63	170					0	0	0.01441	0	0		A	71247446	A	A	71247446	2	1	209	1	0	0	0	0	0	0	0	1	6040	1079	38	1		1	FOXP1	3	71247446	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4779878	71247446	126774984	252	100667											
VGLL3	389136	broad.mit.edu	37	chr3	87027842	87027842	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttaaggtactccatctcGgcaggctggtctttctcctc	6	13	10	12	1	3	0	0	0	3	0	7	1	4	0	2	4	1	4	2	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:87027842G>A	uc003dqn.2	-	2	601	c.237C>T	c.(235-237)GCC>GCT	p.A79A		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	79					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		ACTCCATCTCGGCAGGCTGGt	0.408													16	35					0	0	0.003163	0	0		A	87027842	A	A	87027842	2	1	209	1	0	0	0	0	0	0	0	1	17186	1103	39	1		1	VGLL3	3	87027842	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	15780396	87027842	110994588	253	100668											
COL8A1	1295	broad.mit.edu	37	chr3	99514689	99514689	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagacagaactacaacccGcagacaggcatcttcacctg	13	5	9	14	1	2	3	1	0	1	3	2	3	2	3	2	2	3	3	2	2	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:99514689G>A	uc003dtg.1	+	5	2189	c.1944G>A	c.(1942-1944)CCG>CCA	p.P648P	COL8A1_uc003dth.1_Silent_p.P648P|COL8A1_uc003dti.1_Silent_p.P649P	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	648	C1q.|Nonhelical region (NC1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						ACTACAACCCGCAGACAGGCA	0.537													11	66					0	0	0.010729	0	0		A	99514689	A	A	99514689	2	1	209	1	0	0	0	0	0	0	0	1	3708	1074	38	1		1	COL8A1	3	99514689	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	12486847	99514689	98507741	254	100669											
FAM55C	91775	broad.mit.edu	37	chr3	101504476	101504476	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcaaactacggcttttctgCtgtctgcttgcagtgttgat	6	17	9	9	1	3	1	1	1	2	0	3	1	3	1	0	1	5	5	0	1	2	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:101504476C>T	uc003dvn.2	+	4	673	c.36C>T	c.(34-36)TGC>TGT	p.C12C	FAM55C_uc010hpn.2_Silent_p.C12C	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	12						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						GGCTTTTCTGCTGTCTGCTTG	0.473													11	145					0	0	0.010729	0	0		T	101504476	T	T	101504476	2	4	209	1	0	0	0	0	0	0	0	1	5600	805	28	2		2	FAM55C	3	101504476	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1989787	101504476	96517954	255	100670											
KIAA1524	57650	broad.mit.edu	37	chr3	108295157	108295157	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctttccattaagaagaccTaatacttggtgaagacatga	14	12	7	8	0	0	5	0	2	0	3	2	5	2	5	3	1	1	0	3	1	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:108295157T>C	uc003dxb.3	-	8	1124	c.855A>G	c.(853-855)TTA>TTG	p.L285L	KIAA1524_uc003dxc.1_Silent_p.L126L|KIAA1524_uc010hpw.1_Silent_p.L126L	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	285						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						TAAGAAGACCTAATACTTGGT	0.279													18	85					0	0	0.008871	0	0		C	108295157	C	C	108295157	2	2	209	1	0	0	0	0	0	0	0	1	8255	1519	53	3		3	KIAA1524	3	108295157	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	6790681	108295157	89727273	256	100671											
CCDC80	151887	broad.mit.edu	37	chr3	112357212	112357212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgagaggcagtaggcCggctgaggtcatacttctcc	8	8	13	12	1	2	2	1	2	1	1	3	3	2	2	3	4	2	4	3	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:112357212C>T	uc003dzf.2	-	2	1759	c.1541G>A	c.(1540-1542)CGG>CAG	p.R514Q	CCDC80_uc011bhv.1_Missense_Mutation_p.R514Q|CCDC80_uc003dzg.2_Missense_Mutation_p.R514Q|CCDC80_uc003dzh.1_Missense_Mutation_p.R514Q	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	514	Lys-rich.									ovary(2)	2						GGCAGTAGGCCGGCTGAGGTC	0.488													25	83					0	0	0.007291	0	0		T	112357212	T	T	112357212	3	4	209	1	0	0	0	0	1	0	0	0	2857	652	23	1	1339	1	CCDC80	3	112357212	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4062055	112357212	85665218	257	100672											
KIAA2018	205717	broad.mit.edu	37	chr3	113376015	113376015	+	Missense_Mutation	SNP	T	C	C	0	1	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	gttggtggacattatggggcTgagagtggacagagctctct	8	11	16	6	0	1	2	0	1	1	2	2	5	1	4	0	5	1	3	0	5	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:113376015T>C	uc003eam.2	-	7	4925	c.4514A>G	c.(4513-4515)CAG>CGG	p.Q1505R	KIAA2018_uc003eal.2_Missense_Mutation_p.Q1449R	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1505	Gln-rich.				regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						ATTATGGGGCTGAGAGTGGAC	0.433													9	97					0	0	0.004482	0	0		C	113376015	C	C	113376015	3	2	209	1	0	0	0	0	1	0	0	0	8284	1580	55	3	2227	3	KIAA2018	3	113376015	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1018803	113376015	84646415	258	100673											
KIAA2018	205717	broad.mit.edu	37	chr3	113376613	113376613	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatctgtgaatttggtatggTactagtcatagtatttagct	11	17	9	4	0	2	1	1	1	1	0	2	1	2	1	0	2	2	4	0	2	8	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:113376613T>C	uc003eam.2	-	7	4327	c.3916A>G	c.(3916-3918)ACC>GCC	p.T1306A	KIAA2018_uc003eal.2_Missense_Mutation_p.T1250A	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1306					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						TTTGGTATGGTACTAGTCATA	0.438													30	120					0	0	0.007291	0	0		C	113376613	C	C	113376613	3	2	209	1	0	0	0	0	1	0	0	0	8284	1638	57	3	2825	3	KIAA2018	3	113376613	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	598	113376613	84645817	259	100674											
SEMA5B	54437	broad.mit.edu	37	chr3	122647874	122647874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctttgctttggcaggagcggCgcgtgtcctcactggaggcc	4	10	15	12	3	1	0	1	0	0	0	2	2	2	2	2	5	2	2	2	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:122647874C>T	uc003efz.1	-	6	810	c.506G>A	c.(505-507)CGC>CAC	p.R169H	SEMA5B_uc011bju.1_Missense_Mutation_p.R111H|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.R169H|SEMA5B_uc010hro.1_Missense_Mutation_p.R111H|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	169	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GCAGGAGCGGCGCGTGTCCTC	0.617													15	40					0	0	0.008871	0	0		T	122647874	T	T	122647874	3	4	209	1	0	0	0	0	1	0	0	0	14063	768	27	1	3021	1	SEMA5B	3	122647874	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	9271261	122647874	75374556	260	100675											
KALRN	8997	broad.mit.edu	37	chr3	124377290	124377290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttcaggagcggaagctgCacatctacgtgtggtattgt	8	13	12	8	2	3	0	1	0	2	0	3	2	3	2	0	3	4	3	0	3	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:124377290C>T	uc003ehg.2	+	42	6173	c.6046C>T	c.(6046-6048)CAC>TAC	p.H2016Y	KALRN_uc003ehi.2_Missense_Mutation_p.H357Y|KALRN_uc003ehk.2_Missense_Mutation_p.H319Y|KALRN_uc011bjz.1_Missense_Mutation_p.H108Y	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	2015	DH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						GCGGAAGCTGCACATCTACGT	0.512													9	67					0	0	0.008291	0	0		T	124377290	T	T	124377290	3	4	209	1	0	0	0	0	1	0	0	0	7991	710	25	2	6368	2	KALRN	3	124377290	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1729416	124377290	73645140	261	100676											
KLF15	28999	broad.mit.edu	37	chr3	126071347	126071347	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actcttcaatctcctccaggGtaggctggaagggccgtggg	7	9	14	11	1	3	0	1	0	2	0	5	1	4	1	3	5	0	2	3	5	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:126071347G>A	uc011bkk.1	-	2	601	c.419C>T	c.(418-420)ACC>ATC	p.T140I		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	140						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		CTCCTCCAGGGTAGGCTGGAA	0.602													11	27					0	0	0.008291	0	0		A	126071347	A	A	126071347	3	1	209	1	0	0	0	0	1	0	0	0	8359	1261	44	4	839	4	KLF15	3	126071347	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1694057	126071347	71951083	262	100677											
MCM2	4171	broad.mit.edu	37	chr3	127323460	127323460	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgctccctcagggactaccgCgccatcccagagctggacgc	7	6	11	17	3	1	1	1	0	0	1	3	3	3	3	4	2	3	2	4	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:127323460C>T	uc003ejp.2	+	3	303	c.246C>T	c.(244-246)CGC>CGT	p.R82R	MCM2_uc011bkm.1_5'UTR|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_5'UTR	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	82	Interaction with MYST2 (By similarity).				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						GGGACTACCGCGCCATCCCAG	0.592													21	61					0	0	0.014323	0	0		T	127323460	T	T	127323460	2	4	209	1	0	0	0	0	0	0	0	1	9404	755	27	1		1	MCM2	3	127323460	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1252113	127323460	70698970	263	100678											
COL6A6	131873	broad.mit.edu	37	chr3	130289784	130289784	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagtgaaaaaagctgatgtgGgcaagaatcaggtccggttt	13	10	13	5	1	1	3	1	2	0	1	2	3	2	3	1	3	1	3	1	3	6	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:130289784G>A	uc010htl.2	+	6	2555	c.2524G>A	c.(2524-2526)GGC>AGC	p.G842S		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	842	VWFA 5.|Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						AGCTGATGTGGGCAAGAATCA	0.413													12	35					0	0	0.010729	0	0		A	130289784	A	A	130289784	3	1	209	1	0	0	0	0	1	0	0	0	3706	1232	43	4	2546	4	COL6A6	3	130289784	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2966324	130289784	67732646	264	100679											
DBR1	51163	broad.mit.edu	37	chr3	137886142	137886142	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaatatatctataggctgCttcagctttcaaaagagaaa	17	11	7	6	0	3	2	2	0	1	2	3	3	3	2	0	1	2	3	0	1	9	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:137886142C>T	uc003erv.2	-	5	631	c.495G>A	c.(493-495)AAG>AAA	p.K165K	DBR1_uc003eru.2_Silent_p.K114K	NM_016216	NP_057300	Q9UK59	DBR1_HUMAN	debranching enzyme homolog 1	165						nucleus	metal ion binding|RNA lariat debranching enzyme activity				0						CTATAGGCTGCTTCAGCTTTC	0.343													3	36					0	0	0.004672	0	0		T	137886142	T	T	137886142	2	4	209	1	0	0	0	0	0	0	0	1	4260	796	28	2		2	DBR1	3	137886142	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7596358	137886142	60136288	265	100680											
ATP1B3	483	broad.mit.edu	37	chr3	141626091	141626091	+	Silent	SNP	T	C	C	0	1	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	acttcgtatgcagggtacatTgaagaccttaagaagtttct	12	13	9	7	1	1	3	0	1	1	2	2	3	1	3	1	1	2	4	1	1	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:141626091T>C	uc003eug.1	+	3	495	c.321T>C	c.(319-321)ATT>ATC	p.I107I	ATP1B3_uc011bne.1_RNA|ATP1B3_uc003euh.1_Silent_p.I93I	NM_001679	NP_001670	P54709	AT1B3_HUMAN	Na+/K+ -ATPase beta 3 subunit	107	Extracellular (Potential).				ATP biosynthetic process|blood coagulation|leukocyte migration	melanosome|sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity				0						CAGGGTACATTGAAGACCTTA	0.333													15	46					0	0	0.004007	0	0		C	141626091	C	C	141626091	2	2	209	1	0	0	0	0	0	0	0	1	1135	1800	63	3		3	ATP1B3	3	141626091	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	3739949	141626091	56396339	266	100681											
PAQR9	344838	broad.mit.edu	37	chr3	142681357	142681357	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcggcggtagaagtgcacGaagagtgtggggttctcccc	8	8	16	9	3	1	2	0	0	1	2	2	3	1	2	2	4	2	3	2	4	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:142681357G>T	uc003evg.2	-	1	822	c.822C>A	c.(820-822)TTC>TTA	p.F274L	PAQR9_uc003evf.1_RNA	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	274	Extracellular (Potential).					integral to membrane	receptor activity				0						AGAAGTGCACGAAGAGTGTGG	0.607													22	108					2.70639e-06	2.90428e-06	0.014323	1	0		T	142681357	T	T	142681357	3	4	209	1	0	0	0	0	1	0	0	0	11461	1049	37	5	315	5	PAQR9	3	142681357	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1055266	142681357	55341073	267	100682											
SR140	23350	broad.mit.edu	37	chr3	142735133	142735133	+	Missense_Mutation	SNP	A	G	G	1	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	agctgctgagatttatgaggAgtttcttgctgcttttgaag	8	16	12	5	0	1	3	0	3	1	1	1	5	1	4	0	1	4	5	0	1	2	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:142735133A>G	uc003evh.1	+	5	455	c.356A>G	c.(355-357)GAG>GGG	p.E119G	SR140_uc003evi.1_5'UTR|SR140_uc011bnj.1_Missense_Mutation_p.E119G|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Missense_Mutation_p.E119G	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	119	Potential.				RNA processing	nucleus	nucleotide binding|RNA binding				0						ATTTATGAGGAGTTTCTTGCT	0.328													33	102					0	0	0.003271	0	0		G	142735133	G	G	142735133	3	3	209	1	0	0	0	0	1	0	0	0	15156	304	11	3	374	3	SR140	3	142735133	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	53776	142735133	55287297	268	100683											
CHST2	9435	broad.mit.edu	37	chr3	142840509	142840509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcgtgtgcaagaagtgccCgccacagcgcctggcgcgtt	6	6	14	15	6	0	1	0	0	0	1	0	1	0	1	4	1	3	2	4	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:142840509C>T	uc003evm.2	+	2	1740	c.851C>T	c.(850-852)CCG>CTG	p.P284L		NM_004267	NP_004258	Q9Y4C5	CHST2_HUMAN	carbohydrate (N-acetylglucosamine-6-O)	284	Lumenal (Potential).				inflammatory response|multicellular organismal development|N-acetylglucosamine metabolic process|sulfur compound metabolic process	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity			ovary(3)	3						AAGAAGTGCCCGCCACAGCGC	0.652													3	5					0	0	0.004672	0	0		T	142840509	T	T	142840509	3	4	209	1	0	0	0	0	1	0	0	0	3407	652	23	1	853	1	CHST2	3	142840509	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	105376	142840509	55181921	269	100684											
P2RY13	53829	broad.mit.edu	37	chr3	151046205	151046205	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acagtccagaaaataaactgGcatatgttatttaccatttg	15	13	6	7	0	0	1	0	0	0	1	1	1	1	1	2	1	2	2	2	1	7	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:151046205G>A	uc003eyv.2	-	2	660	c.639C>T	c.(637-639)TGC>TGT	p.C213C	MED12L_uc011bnz.1_Intron|MED12L_uc003eyp.2_Intron	NM_176894	NP_795713	Q9BPV8	P2Y13_HUMAN	purinergic receptor P2Y, G-protein coupled, 13	213	Helical; Name=5; (Potential).					integral to membrane|plasma membrane				ovary(3)|lung(1)	4			LUSC - Lung squamous cell carcinoma(72;0.0189)|Lung(72;0.0278)			AAATAAACTGGCATATGTTAT	0.368													10	48					0	0	0.006214	0	0		A	151046205	A	A	151046205	2	1	209	1	0	0	0	0	0	0	0	1	11369	1195	42	2		2	P2RY13	3	151046205	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	8205696	151046205	46976225	270	100685											
IGSF10	285313	broad.mit.edu	37	chr3	151164416	151164416	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgggtgttgttttctctacaCtgggtttgttctcaagtagt	5	19	11	6	0	2	0	1	0	2	0	4	0	2	0	0	2	1	5	0	2	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:151164416C>A	uc011bod.1	-	4	3353	c.3353G>T	c.(3352-3354)AGT>ATT	p.S1118I		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1118					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			TTTCTCTACACTGGGTTTGTT	0.438													46	139					2.35958e-20	2.68479e-20	0.009718	1	0		A	151164416	A	A	151164416	3	1	209	1	0	0	0	0	1	0	0	0	7613	565	20	5	4578	5	IGSF10	3	151164416	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	118211	151164416	46858014	271	100686											
DHX36	170506	broad.mit.edu	37	chr3	154002773	154002773	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttcttgtttatccaaagCgttctgtaaaggaagagtgt	10	16	9	6	1	3	1	0	0	3	1	4	2	4	2	1	1	1	3	1	1	5	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:154002773C>T	uc003ezy.3	-	18	2116	c.2035G>A	c.(2035-2037)GCT>ACT	p.A679T	DHX36_uc010hvq.2_Missense_Mutation_p.A665T|DHX36_uc003ezz.3_Missense_Mutation_p.A679T	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	679						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TTATCCAAAGCGTTCTGTAAA	0.368													14	73					0	0	0.00245	0	0		T	154002773	T	T	154002773	3	4	209	1	0	0	0	0	1	0	0	0	4515	768	27	1	1023	1	DHX36	3	154002773	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2838357	154002773	44019657	272	100687											
DHX36	170506	broad.mit.edu	37	chr3	154010350	154010350	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaccttaccttccagctcGaccttttctctgtttggcat	5	15	5	16	1	1	0	0	0	1	0	4	1	2	0	5	1	2	3	5	1	1	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:154010350G>A	uc003ezy.3	-	15	1885	c.1804C>T	c.(1804-1806)CGA>TGA	p.R602*	DHX36_uc010hvq.2_Nonsense_Mutation_p.R588*|DHX36_uc003ezz.3_Nonsense_Mutation_p.R602*	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	602	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			CTTCCAGCTCGACCTTTTCTC	0.358													50	190					0	0	0.01441	0	0		A	154010350	A	A	154010350	4	1	209	1	0	0	0	0	0	1	0	0	4515	1066	37	1	1266	1	DHX36	3	154010350	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7577	154010350	44012080	273	100688											
CCNL1	57018	broad.mit.edu	37	chr3	156867109	156867109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatgtgatctagaacgtgatCgtgttcttgacctcgatcga	9	14	10	8	4	2	4	0	3	2	1	5	6	2	4	1	0	1	1	1	0	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:156867109C>T	uc003fbf.2	-	10	1798	c.1199G>A	c.(1198-1200)CGA>CAA	p.R400Q	CCNL1_uc003fbd.1_Missense_Mutation_p.R400Q|CCNL1_uc003fbe.2_Missense_Mutation_p.R194Q|CCNL1_uc003fbg.2_RNA|CCNL1_uc011bor.1_RNA|CCNL1_uc003fbi.1_Missense_Mutation_p.R245Q	NM_020307	NP_064703	Q9UK58	CCNL1_HUMAN	cyclin L1	400	RS.				regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nuclear speck	protein kinase binding			lung(3)|breast(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(72;0.0295)|Lung(72;0.0308)			AGAACGTGATCGTGTTCTTGA	0.338													10	86					0	0	0.008291	0	0		T	156867109	T	T	156867109	3	4	209	1	0	0	0	0	1	0	0	0	2934	884	31	1	389	1	CCNL1	3	156867109	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2856759	156867109	41155321	274	100689											
SI	6476	broad.mit.edu	37	chr3	164739135	164739135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttggaatgtttaacggtaCtggtacttcatatctcttct	8	17	9	7	1	3	0	1	0	2	0	4	1	3	1	0	4	3	4	0	4	5	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:164739135C>T	uc003fei.2	-	27	3198	c.3136G>A	c.(3136-3138)GTA>ATA	p.V1046I		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1046	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTTAACGGTACTGGTACTTCA	0.358										HNSCC(35;0.089)			8	201					0	0	0.004482	0	0		T	164739135	T	T	164739135	3	4	209	1	0	0	0	0	1	0	0	0	14322	565	20	4	2435	4	SI	3	164739135	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7872026	164739135	33283295	275	100690											
LRRIQ4	344657	broad.mit.edu	37	chr3	169548401	169548401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcttaagcaacttccagatgCcatttgccaagcacaaggtg	12	9	9	11	0	0	1	0	0	0	1	1	1	1	1	3	1	5	3	3	1	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:169548401C>T	uc003fgb.2	+	3	1316	c.1316C>T	c.(1315-1317)GCC>GTC	p.A439V		NM_001080460	NP_001073929	A6NIV6	LRIQ4_HUMAN	leucine-rich repeats and IQ motif containing 4	439	LRR 18.										0						CTTCCAGATGCCATTTGCCAA	0.463													8	16					0	0	0.006214	0	0		T	169548401	T	T	169548401	3	4	209	1	0	0	0	0	1	0	0	0	9049	739	26	2	1326	2	LRRIQ4	3	169548401	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4809266	169548401	28474029	276	100691											
TNIK	23043	broad.mit.edu	37	chr3	170801980	170801980	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtatttctgagttgaatcGtttcttgtattttctgattt	8	22	7	4	1	3	3	0	3	3	0	4	3	3	3	0	0	0	4	0	0	4	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:170801980G>A	uc003fhh.2	-	26	3478	c.3133C>T	c.(3133-3135)CGA>TGA	p.R1045*	TNIK_uc003fhi.2_Nonsense_Mutation_p.R990*|TNIK_uc003fhj.2_Nonsense_Mutation_p.R1016*|TNIK_uc003fhk.2_Nonsense_Mutation_p.R1037*|TNIK_uc003fhl.2_Nonsense_Mutation_p.R961*|TNIK_uc003fhm.2_Nonsense_Mutation_p.R982*|TNIK_uc003fhn.2_Nonsense_Mutation_p.R1008*|TNIK_uc003fho.2_Nonsense_Mutation_p.R953*|TNIK_uc003fhg.2_Nonsense_Mutation_p.R223*|TNIK_uc003fhp.2_5'Flank	NM_015028	NP_055843	Q9UKE5	TNIK_HUMAN	TRAF2 and NCK interacting kinase isoform 1	1045	Mediates interaction with NEDD4.				actin cytoskeleton reorganization|activation of JNKK activity|protein autophosphorylation|regulation of dendrite morphogenesis|Wnt receptor signaling pathway	cytoskeleton|nucleus|recycling endosome	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(4)|large_intestine(1)	5	all_cancers(22;2.55e-19)|all_lung(20;2.22e-14)|Ovarian(172;0.00197)|Breast(254;0.122)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)			GAGTTGAATCGTTTCTTGTAT	0.373													5	35					0	0	0.000602	0	0		A	170801980	A	A	170801980	4	1	209	1	0	0	0	0	0	1	0	0	16338	1153	40	1	981	1	TNIK	3	170801980	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1253579	170801980	27220450	277	100692											
HTR3E	285242	broad.mit.edu	37	chr3	183824060	183824060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgctccactgcaacagccCggggagatgctgtcccactg	7	7	12	15	1	0	1	0	0	0	1	2	2	2	1	3	2	5	4	3	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:183824060C>T	uc010hxq.2	+	8	1536	c.1070C>T	c.(1069-1071)CCG>CTG	p.P357L	HTR3E_uc003fml.3_Missense_Mutation_p.P342L|HTR3E_uc003fmm.2_Missense_Mutation_p.P372L|HTR3E_uc010hxr.2_Missense_Mutation_p.P383L|HTR3E_uc003fmn.2_Missense_Mutation_p.P357L	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	357	Cytoplasmic (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			TGCAACAGCCCGGGGAGATGC	0.617													17	36					0	0	0.004007	0	0		T	183824060	T	T	183824060	3	4	209	1	0	0	0	0	1	0	0	0	7464	652	23	1	1141	1	HTR3E	3	183824060	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	13022080	183824060	14198370	278	100693											
ABCF3	55324	broad.mit.edu	37	chr3	183908909	183908909	+	Splice_Site	SNP	A	G	G	1	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	tcctcacccctacctcctgcAggttccctgatgggtttgag	5	12	9	15	0	1	2	1	2	0	0	4	2	4	2	6	2	2	3	6	2	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:183908909A>G	uc003fmz.2	+	16	1570	c.1437_splice	c.e16-2	p.K479_splice	ABCF3_uc003fna.2_Splice_Site_p.K473_splice|ABCF3_uc003fnb.2_Splice_Site_p.K160_splice	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),								ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TACCTCCTGCAGGTTCCCTGA	0.547													34	72					0	0	0.005524	0	0		G	183908909	G	G	183908909	5	3	209	1	0	0	0	0	0	0	1	0	67	202	7	3	1497	3	ABCF3	3	183908909	Splice_Site	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	84849	183908909	14113521	279	100694											
CLCN2	1181	broad.mit.edu	37	chr3	184073564	184073564	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagagccgggaagagcaggCgtctagagtcgtaggtttca	10	7	15	9	3	2	3	1	0	1	3	3	4	2	4	2	3	2	3	2	3	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:184073564C>T	uc003foi.2	-	11	1212	c.1088G>A	c.(1087-1089)CGC>CAC	p.R363H	CLCN2_uc003foh.2_5'UTR|CLCN2_uc010hya.1_Missense_Mutation_p.R363H|CLCN2_uc011brl.1_Missense_Mutation_p.R363H|CLCN2_uc011brm.1_Missense_Mutation_p.R319H|CLCN2_uc011brn.1_Missense_Mutation_p.R363H	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	363	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	GAAGAGCAGGCGTCTAGAGTC	0.587													4	22					0	0	0.009096	0	0		T	184073564	T	T	184073564	3	4	209	1	0	0	0	0	1	0	0	0	3466	768	27	1	1664	1	CLCN2	3	184073564	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	164655	184073564	13948866	280	100695											
VPS8	23355	broad.mit.edu	37	chr3	184550540	184550540	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgttaaacattgatactattGattctcactcctatgatact	12	17	4	8	0	1	3	1	3	1	0	3	3	2	3	1	0	3	1	1	0	6	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:184550540G>A	uc003fpb.1	+	4	457	c.286G>A	c.(286-288)GAT>AAT	p.D96N	VPS8_uc010hyd.1_Missense_Mutation_p.D96N|VPS8_uc003fpc.1_Missense_Mutation_p.D96N	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	96							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			TGATACTATTGATTCTCACTC	0.343													5	18					0	0	0.001984	0	0		A	184550540	A	A	184550540	3	1	209	1	0	0	0	0	1	0	0	0	17244	1290	45	4	296	4	VPS8	3	184550540	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	476976	184550540	13471890	281	100696											
MAP3K13	9175	broad.mit.edu	37	chr3	185183551	185183551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaggcatgcgctggatattCgtgaacactatgagcggaag	12	8	13	8	3	0	2	0	2	0	0	1	4	0	4	0	3	3	2	0	3	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:185183551C>T	uc010hyf.2	+	10	1671	c.1405C>T	c.(1405-1407)CGT>TGT	p.R469C	MAP3K13_uc011brt.1_Missense_Mutation_p.R262C|MAP3K13_uc011bru.1_Missense_Mutation_p.R325C|MAP3K13_uc003fpi.2_Missense_Mutation_p.R469C|MAP3K13_uc010hyg.2_Missense_Mutation_p.R159C	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	469					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			GCTGGATATTCGTGAACACTA	0.463													34	130					0	0	0.00623	0	0		T	185183551	T	T	185183551	3	4	209	1	0	0	0	0	1	0	0	0	9265	884	31	1	1435	1	MAP3K13	3	185183551	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	633011	185183551	12838879	282	100697											
ADIPOQ	9370	broad.mit.edu	37	chr3	186571971	186571971	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaggtcttctcattccttAggtcttattggtcctaaggg	6	16	10	9	0	3	1	1	1	3	0	6	1	5	1	2	4	0	0	2	4	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:186571971A>G	uc003fra.2	+	3	299	c.215_splice	c.e3-2	p.G72_splice	ADIPOQ_uc010hyy.2_Splice_Site_p.G72_splice	NM_004797	NP_004788	Q15848	ADIPO_HUMAN	adiponectin precursor						brown fat cell differentiation|cellular response to drug|cellular response to insulin stimulus|detection of oxidative stress|fatty acid beta-oxidation|generation of precursor metabolites and energy|glucose homeostasis|glucose metabolic process|low-density lipoprotein particle clearance|negative regulation of blood pressure|negative regulation of DNA biosynthetic process|negative regulation of ERK1 and ERK2 cascade|negative regulation of eukaryotic cell surface binding|negative regulation of fat cell differentiation|negative regulation of gluconeogenesis|negative regulation of granulocyte differentiation|negative regulation of heterotypic cell-cell adhesion|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of intracellular protein transport|negative regulation of low-density lipoprotein particle receptor biosynthetic process|negative regulation of macrophage derived foam cell differentiation|negative regulation of macrophage differentiation|negative regulation of MAP kinase activity|negative regulation of phagocytosis|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein autophosphorylation|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|negative regulation of synaptic transmission|negative regulation of transcription, DNA-dependent|negative regulation of tumor necrosis factor production|negative regulation of tumor necrosis factor-mediated signaling pathway|positive regulation of cAMP-dependent protein kinase activity|positive regulation of cholesterol efflux|positive regulation of fatty acid metabolic process|positive regulation of glucose import|positive regulation of glycogen (starch) synthase activity|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-8 production|positive regulation of metanephric glomerular visceral epithelial cell development|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myeloid cell apoptosis|positive regulation of protein kinase A signaling cascade|positive regulation of renal albumin absorption|protein homooligomerization|protein localization in plasma membrane|response to glucose stimulus|response to tumor necrosis factor	collagen|endoplasmic reticulum|extracellular space	cytokine activity|eukaryotic cell surface binding|hormone activity|protein homodimerization activity			ovary(1)	1	all_cancers(143;1.2e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.47e-19)	GBM - Glioblastoma multiforme(93;0.0776)		CTCATTCCTTAGGTCTTATTG	0.522													8	42					0	0	0.00308	0	0		G	186571971	G	G	186571971	5	3	209	1	0	0	0	0	0	0	1	0	317	434	15	3	219	3	ADIPOQ	3	186571971	Splice_Site	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1388420	186571971	11450459	283	100698											
RTP1	132112	broad.mit.edu	37	chr3	186917577	186917577	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgctacggcgagcgtggcGgccagtaccgcatccacgtg	7	6	15	13	6	0	0	0	0	0	0	1	1	1	0	3	3	4	3	3	3	2	2	rs141818025	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:186917577G>A	uc003frg.2	+	2	541	c.511G>A	c.(511-513)GGC>AGC	p.G171S		NM_153708	NP_714919	P59025	RTP1_HUMAN	receptor transporting protein 1	171	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding			ovary(2)|breast(1)	3	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.56e-18)	GBM - Glioblastoma multiforme(93;0.0269)		CGAGCGTGGCGGCCAGTACCG	0.687													3	40					0	0	0.004672	0	0		A	186917577	A	A	186917577	3	1	209	1	0	0	0	0	1	0	0	0	13758	1116	39	1	517	1	RTP1	3	186917577	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	345606	186917577	11104853	284	100699											
TFRC	7037	broad.mit.edu	37	chr3	195789785	195789785	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactccaactggcaaagatAatgcttctgctgggctgaaa	12	9	10	10	0	1	2	0	1	1	1	2	2	2	2	1	2	3	5	1	2	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:195789785A>G	uc003fvz.3	-	12	1627	c.1344T>C	c.(1342-1344)ATT>ATC	p.I448I	TFRC_uc003fwa.3_Silent_p.I448I|TFRC_uc010hzy.2_Silent_p.I367I|TFRC_uc011btr.1_Silent_p.I166I	NM_003234	NP_003225	P02786	TFR1_HUMAN	transferrin receptor	448	Extracellular (Potential).				cellular iron ion homeostasis|endocytosis|interspecies interaction between organisms|proteolysis|transferrin transport|transmembrane transport	coated pit|endosome|integral to plasma membrane|melanosome	peptidase activity|transferrin receptor activity			ovary(3)	3	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)		TGGCAAAGATAATGCTTCTGC	0.448			T	BCL6	NHL								11	62					0	0	0.010729	0	0		G	195789785	G	G	195789785	2	3	209	1	0	0	0	0	0	0	0	1	15837	358	13	3		3	TFRC	3	195789785	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	8872208	195789785	2232645	285	100700											
TM4SF19	116211	broad.mit.edu	37	chr3	196054330	196054330	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggcccctcaacaggtaGgtgacatcccagttaggaag	12	6	13	10	0	1	1	1	1	0	0	2	3	2	3	3	5	1	2	3	5	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:196054330G>A	uc003fwl.1	-	2	257	c.132C>T	c.(130-132)ACC>ACT	p.T44T	TM4SF19_uc003fwj.2_RNA|TM4SF19_uc010iad.1_Silent_p.T44T|TM4SF19_uc011btv.1_Silent_p.T44T	NM_138461	NP_612470	Q96DZ7	T4S19_HUMAN	transmembrane 4 L six family member 19	44	Extracellular (Potential).					integral to membrane					0	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;4.34e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TCAACAGGTAGGTGACATCCC	0.612													18	106					0	0	0.007413	0	0		A	196054330	A	A	196054330	2	1	209	1	0	0	0	0	0	0	0	1	15993	987	35	4		4	TM4SF19	3	196054330	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	264545	196054330	1968100	286	100701											
BDH1	622	broad.mit.edu	37	chr3	197241135	197241135	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctccctttcccactcacCtttggcccttcggatgaggg	5	11	10	15	1	1	1	1	1	0	0	4	3	3	2	4	3	1	1	4	3	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr3:197241135C>A	uc003fxr.2	-	7	964	c.562G>T	c.(562-564)GGC>TGC	p.G188C	BDH1_uc003fxs.2_Missense_Mutation_p.G188C|BDH1_uc003fxt.2_Missense_Mutation_p.G101C|BDH1_uc003fxu.2_Missense_Mutation_p.G188C	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	188					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	TCCCACTCACCTTTGGCCCTT	0.562													5	30					0.000602214	0.000628153	0.000602	1	0		A	197241135	A	A	197241135	3	1	209	1	0	0	0	0	1	0	0	0	1391	695	24	5	477	5	BDH1	3	197241135	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1186805	197241135	781295	287	100702											
ZNF721	170960	broad.mit.edu	37	chr4	438000	438000	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttactaaaaactttgacacGtgcattacattgaaatattt	15	16	4	6	1	0	2	0	2	0	0	0	2	0	2	0	0	4	1	0	0	7	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:438000G>A	uc003gag.2	-	3	947	c.256C>T	c.(256-258)CGT>TGT	p.R86C	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Missense_Mutation_p.R118C|ZNF721_uc010ibe.2_Missense_Mutation_p.R74C	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	86						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						ACTTTGACACGTGCATTACAT	0.313													4	39					0	0	0.009096	0	0		A	438000	A	A	438000	3	1	209	1	0	0	0	0	1	0	0	0	18147	1145	40	1	2519	1	ZNF721	4	438000	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		438000	190716276	288	100703											
DOK7	285489	broad.mit.edu	37	chr4	3495067	3495067	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggctgggcacgagacggCggggcctggtgatggaggcc	5	5	21	10	3	0	2	0	1	0	1	0	4	0	3	2	8	0	3	2	8	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:3495067C>T	uc003ghd.2	+	7	1424	c.1354C>T	c.(1354-1356)CGG>TGG	p.R452W	DOK7_uc003ghe.2_Missense_Mutation_p.R314W|DOK7_uc003ghf.2_Silent_p.G193G|DOK7_uc003ghg.1_Missense_Mutation_p.R142W	NM_173660	NP_775931	Q18PE1	DOK7_HUMAN	downstream of tyrosine kinase 7 isoform 1	452					positive regulation of protein tyrosine kinase activity	cell junction|synapse	insulin receptor binding|protein kinase binding			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		CACGAGACGGCGGGGCCTGGT	0.771													3	8					0	0	0.004672	0	0		T	3495067	T	T	3495067	3	4	209	1	0	0	0	0	1	0	0	0	4708	759	27	1	1380	1	DOK7	4	3495067	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3057067	3495067	187659209	289	100704											
LRPAP1	4043	broad.mit.edu	37	chr4	3526677	3526677	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttccttctccccatcttcGtccaagccgtcaagctttag	6	13	6	16	2	3	0	1	0	2	0	7	0	5	0	5	0	2	2	5	0	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:3526677G>A	uc003ghi.2	-	2	391	c.306C>T	c.(304-306)GAC>GAT	p.D102D		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	102					negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		CCCCATCTTCGTCCAAGCCGT	0.433													84	266					0	0	0.01441	0	0		A	3526677	A	A	3526677	2	1	209	1	0	0	0	0	0	0	0	1	8982	1136	40	1		1	LRPAP1	4	3526677	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	31610	3526677	187627599	290	100705											
ZBTB49	166793	broad.mit.edu	37	chr4	4322409	4322409	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacctccgcaggcatgtccGcactcacactggggagaagc	9	6	12	14	2	1	2	1	1	0	1	3	3	3	2	3	3	1	3	3	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:4322409G>A	uc003ghu.2	+	8	1839	c.1664G>A	c.(1663-1665)CGC>CAC	p.R555H	uc003ghw.2_5'Flank|ZBTB49_uc003ghv.2_Missense_Mutation_p.R38H|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Missense_Mutation_p.R133H	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	555	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						AGGCATGTCCGCACTCACACT	0.428													5	56					0	0	0.000602	0	0		A	4322409	A	A	4322409	3	1	209	1	0	0	0	0	1	0	0	0	17575	1087	38	1	1690	1	ZBTB49	4	4322409	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	795732	4322409	186831867	291	100706											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107625	6107625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgagctccgaaatgtaggCcgtgtgccgtcgctgctcct	5	11	12	13	4	0	1	0	1	0	0	3	2	2	1	4	1	3	4	4	1	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:6107625C>T	uc003giu.3	-	3	475	c.199G>A	c.(199-201)GCC>ACC	p.A67T	JAKMIP1_uc010idb.1_Missense_Mutation_p.A67T|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.A67T|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Missense_Mutation_p.A67T|JAKMIP1_uc010ide.2_Missense_Mutation_p.A67T	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	67	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GAAATGTAGGCCGTGTGCCGT	0.662													18	48					0	0	0.006122	0	0		T	6107625	T	T	6107625	3	4	209	1	0	0	0	0	1	0	0	0	7956	739	26	2	2447	2	JAKMIP1	4	6107625	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1785216	6107625	185046651	292	100707											
WFS1	7466	broad.mit.edu	37	chr4	6296830	6296830	+	Missense_Mutation	SNP	A	G	G	1	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	agaagtacgccaagggcgtcAtccccagcagcctgttcctg	9	7	11	14	2	1	1	1	0	0	1	3	1	3	1	5	1	3	3	5	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:6296830A>G	uc003giy.2	+	7	941	c.775A>G	c.(775-777)ATC>GTC	p.I259V	WFS1_uc003gix.2_Missense_Mutation_p.I259V|WFS1_uc003giz.2_Missense_Mutation_p.I77V	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	259					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CAAGGGCGTCATCCCCAGCAG	0.567													17	85					0	0	0.007413	0	0		G	6296830	G	G	6296830	3	3	209	1	0	0	0	0	1	0	0	0	17386	217	8	3	797	3	WFS1	4	6296830	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	189205	6296830	184857446	293	100708											
PPP2R2C	5522	broad.mit.edu	37	chr4	6380228	6380228	+	Silent	SNP	A	G	G	1	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	tccaggctcttgagatagtcAaactccggctcgtggctctg	7	11	11	12	2	3	1	1	1	2	1	6	2	5	1	2	3	1	3	2	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:6380228A>G	uc003gjc.2	-	3	610	c.240T>C	c.(238-240)TTT>TTC	p.F80F	PPP2R2C_uc003gjb.2_Silent_p.F63F|PPP2R2C_uc011bwd.1_Silent_p.F73F|PPP2R2C_uc011bwe.1_Silent_p.F73F|PPP2R2C_uc003gja.2_Silent_p.F80F|PPP2R2C_uc003gjd.1_Silent_p.F168F	NM_020416	NP_065149	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein	80					signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TGAGATAGTCAAACTCCGGCT	0.567													42	100					0	0	0.00874	0	0		G	6380228	G	G	6380228	2	3	209	1	0	0	0	0	0	0	0	1	12408	127	5	3		3	PPP2R2C	4	6380228	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	83398	6380228	184774048	294	100709											
TADA2B	93624	broad.mit.edu	37	chr4	7055912	7055912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgacaccatccccaaccgcGtgacagaccacacctgtccc	10	4	6	21	3	0	2	0	1	0	1	2	3	2	2	8	0	1	0	8	0	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:7055912G>A	uc003gjw.3	+	2	545	c.394G>A	c.(394-396)GTG>ATG	p.V132M	TADA2B_uc010idi.2_Missense_Mutation_p.V57M	NM_152293	NP_689506	Q86TJ2	TAD2B_HUMAN	transcriptional adaptor 2 (ADA2 homolog,	132					regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|zinc ion binding				0						CCCCAACCGCGTGACAGACCA	0.652													6	15					0	0	0.001168	0	0		A	7055912	A	A	7055912	3	1	209	1	0	0	0	0	1	0	0	0	15536	1145	40	1	400	1	TADA2B	4	7055912	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	675684	7055912	184098364	295	100710											
ACOX3	8310	broad.mit.edu	37	chr4	8390919	8390919	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagagtccaagcagtcGgcaacactggagacctcaaa	13	5	10	13	1	1	2	1	0	0	2	3	3	2	2	3	2	3	3	3	2	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:8390919G>A	uc010idk.2	-	13	1663	c.1518C>T	c.(1516-1518)GCC>GCT	p.A506A	ACOX3_uc003glc.3_Silent_p.A506A|ACOX3_uc003gld.3_Silent_p.A506A|ACOX3_uc003gle.1_Silent_p.A411A	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	506					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						CCAAGCAGTCGGCAACACTGG	0.577													3	34					0	0	0.004672	0	0		A	8390919	A	A	8390919	2	1	209	1	0	0	0	0	0	0	0	1	160	1103	39	1		1	ACOX3	4	8390919	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1335007	8390919	182763357	296	100711											
BST1	683	broad.mit.edu	37	chr4	15733442	15733442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttatcattcccctctttctgGtgctggcttccaggactcaa	6	15	7	13	0	4	0	2	0	2	0	6	1	6	1	3	3	1	2	3	3	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:15733442G>A	uc003goh.3	+	9	1126	c.931G>A	c.(931-933)GTG>ATG	p.V311M	BST1_uc003goi.2_Intron	NM_004334	NP_004325	Q10588	BST1_HUMAN	bone marrow stromal cell antigen 1 precursor	311					humoral immune response|multicellular organismal development	anchored to membrane|extrinsic to membrane|plasma membrane	binding|NAD+ nucleosidase activity			central_nervous_system(1)	1						CCTCTTTCTGGTGCTGGCTTC	0.493													3	20					0	0	0.004672	0	0		A	15733442	A	A	15733442	3	1	209	1	0	0	0	0	1	0	0	0	1536	1261	44	4	965	4	BST1	4	15733442	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7342523	15733442	175420834	297	100712											
KLF3	51274	broad.mit.edu	37	chr4	38682250	38682250	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggtttaactaaaagaatgCtcatgtttgacccagttcct	13	13	7	8	0	1	2	1	1	0	1	2	2	2	2	2	1	2	4	2	1	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:38682250C>A	uc003gth.3	+	2	336	c.4C>A	c.(4-6)CTC>ATC	p.L2I	KLF3_uc003gtg.2_Missense_Mutation_p.L2I	NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	2	Repressor domain.|Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						TAAAAGAATGCTCATGTTTGA	0.408													23	233					5.45024e-15	6.13416e-15	0.00333	1	0		A	38682250	A	A	38682250	3	1	209	1	0	0	0	0	1	0	0	0	8363	797	28	5	6	5	KLF3	4	38682250	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	22948808	38682250	152472026	298	100713											
RBM47	54502	broad.mit.edu	37	chr4	40438542	40438542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttttcttgctgctttcCtttcccttcatgatatcggc	3	20	5	13	1	2	1	1	1	1	0	6	1	5	1	3	1	2	2	3	1	1	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:40438542C>T	uc003gvc.2	-	5	1956	c.1246G>A	c.(1246-1248)GGA>AGA	p.G416R	RBM47_uc003gvd.2_Intron|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.G378R	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	416						nucleus	nucleotide binding|RNA binding			breast(3)	3						TGCTGCTTTCCTTTCCCTTCA	0.507													31	179					0	0	0.007291	0	0		T	40438542	T	T	40438542	3	4	209	1	0	0	0	0	1	0	0	0	13166	690	24	4	547	4	RBM47	4	40438542	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1756292	40438542	150715734	299	100714											
CNGA1	1259	broad.mit.edu	37	chr4	47938530	47938530	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttcagaaatttctcaacctTggttaatctttgtttcagtt	9	20	5	7	0	4	1	3	0	2	1	5	1	4	1	1	1	1	3	1	1	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:47938530T>C	uc003gxt.3	-	11	2247	c.1981A>G	c.(1981-1983)AAG>GAG	p.K661E	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.K730E	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	661	Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						TTCTCAACCTTGGTTAATCTT	0.458													16	77					0	0	0.00499	0	0		C	47938530	C	C	47938530	3	2	209	1	0	0	0	0	1	0	0	0	3599	1821	63	3	95	3	CNGA1	4	47938530	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	7499988	47938530	143215746	300	100715											
EXOC1	55763	broad.mit.edu	37	chr4	56726616	56726616	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcaggttaaggtggtcaaagTcaagaaatccgataagggag	15	7	14	5	1	2	1	2	0	0	1	3	3	3	2	1	4	0	2	1	4	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:56726616T>C	uc003hbe.1	+	3	322	c.164T>C	c.(163-165)GTC>GCC	p.V55A	EXOC1_uc003hbf.1_Missense_Mutation_p.V55A|EXOC1_uc003hbg.1_Missense_Mutation_p.V55A	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	55					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					GTGGTCAAAGTCAAGAAATCC	0.413													12	79					0	0	0.001855	0	0		C	56726616	C	C	56726616	3	2	209	1	0	0	0	0	1	0	0	0	5309	1667	58	3	170	3	EXOC1	4	56726616	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	8788086	56726616	134427660	301	100716											
WDFY3	23001	broad.mit.edu	37	chr4	85708634	85708634	+	Splice_Site	SNP	C	T	T	0	0	0	1	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	aactaaaaataagttactcaCatggcatacatacagcctga	18	9	5	9	0	1	1	1	1	0	0	1	1	1	1	1	1	5	2	1	1	8	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:85708634C>T	uc003hpd.2	-	23	4309	c.3901_splice	c.e23+1	p.C1301_splice		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform							cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AAGTTACTCACATGGCATACA	0.328													4	46					0	0	0.009096	0	0		T	85708634	T	T	85708634	5	4	209	1	0	0	0	0	0	0	1	0	17296	492	17	4	6862	4	WDFY3	4	85708634	Splice_Site	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	28982018	85708634	105445642	302	100717											
NAP1L5	266812	broad.mit.edu	37	chr4	89618768	89618768	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagccatctgaccagccgcGctgtcagggtcaccagccgc	7	6	11	17	3	4	1	3	1	1	0	4	1	4	1	5	1	3	1	5	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:89618768G>A	uc003hrx.2	-	1	256	c.138C>T	c.(136-138)AGC>AGT	p.S46S	HERC3_uc003hrw.1_Intron|HERC3_uc011cdn.1_Intron|HERC3_uc011cdo.1_Intron	NM_153757	NP_715638	Q96NT1	NP1L5_HUMAN	nucleosome assembly protein 1-like 5	46					nucleosome assembly	nucleus	protein binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000181)		GACCAGCCGCGCTGTCAGGGT	0.343													8	114					0	0	0.006214	0	0		A	89618768	A	A	89618768	2	1	209	1	0	0	0	0	0	0	0	1	10178	1078	38	1		1	NAP1L5	4	89618768	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3910134	89618768	101535508	303	100718											
MMRN1	22915	broad.mit.edu	37	chr4	90816212	90816212	+	Silent	SNP	T	C	C	0	1	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	aagcattcttggactataccTgaggatgggaactctcagaa	13	10	10	8	0	2	2	1	1	2	1	3	5	2	5	1	3	3	1	1	3	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:90816212T>C	uc003hst.2	+	1	161	c.90T>C	c.(88-90)CCT>CCC	p.P30P	MMRN1_uc010iku.2_Silent_p.P30P	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	30					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GGACTATACCTGAGGATGGGA	0.443													17	119					0	0	0.008871	0	0		C	90816212	C	C	90816212	2	2	209	1	0	0	0	0	0	0	0	1	9688	1567	55	3		3	MMRN1	4	90816212	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1197444	90816212	100338064	304	100719											
DAPP1	27071	broad.mit.edu	37	chr4	100789327	100789327	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacgatccgatctcggtcGttcatctttaaatagatctt	9	14	8	10	4	4	1	1	0	3	1	7	3	5	1	1	2	0	2	1	2	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:100789327G>A	uc003hvf.3	+	9	918	c.828G>A	c.(826-828)TCG>TCA	p.S276S	DAPP1_uc010ilh.2_3'UTR	NM_014395	NP_055210	Q9UN19	DAPP1_HUMAN	dual adaptor of phosphotyrosine and	276					signal transduction	cytoplasm|plasma membrane	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein tyrosine phosphatase activity				0				OV - Ovarian serous cystadenocarcinoma(123;7.04e-09)		GATCTCGGTCGTTCATCTTTA	0.438													9	46					0	0	0.004482	0	0		A	100789327	A	A	100789327	2	1	209	1	0	0	0	0	0	0	0	1	4242	1132	40	1		1	DAPP1	4	100789327	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	9973115	100789327	90364949	305	100720											
CENPE	1062	broad.mit.edu	37	chr4	104103997	104103997	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctttgcatttcctcccaaGgaattctggagaattcgtgt	8	15	9	9	1	2	1	0	0	2	1	5	3	4	2	2	2	1	1	2	2	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:104103997G>A	uc003hxb.1	-	11	975	c.885C>T	c.(883-885)TCC>TCT	p.S295S	CENPE_uc003hxc.1_Silent_p.S295S	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	295	Kinesin-motor.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TTCCTCCCAAGGAATTCTGGA	0.353													28	76					0	0	0.007291	0	0		A	104103997	A	A	104103997	2	1	209	1	0	0	0	0	0	0	0	1	3233	987	35	4		4	CENPE	4	104103997	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3314670	104103997	87050279	306	100721											
CAMK2D	817	broad.mit.edu	37	chr4	114436226	114436226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttggagaagttttacttacaCagatccatgggtgcttcagt	10	14	10	7	0	1	2	1	0	0	2	2	3	2	2	1	2	3	2	1	2	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:114436226C>T	uc003ibi.2	-	10	1677	c.818G>A	c.(817-819)TGT>TAT	p.C273Y	CAMK2D_uc003ibj.2_Missense_Mutation_p.C273Y|CAMK2D_uc003ibk.2_Missense_Mutation_p.C273Y|CAMK2D_uc003ibo.3_Missense_Mutation_p.C273Y|CAMK2D_uc003ibm.2_Missense_Mutation_p.C273Y|CAMK2D_uc003ibn.2_Missense_Mutation_p.C273Y|CAMK2D_uc003ibl.2_Missense_Mutation_p.C273Y	NM_001221	NP_001212	Q13557	KCC2D_HUMAN	calcium/calmodulin-dependent protein kinase II	273					interferon-gamma-mediated signaling pathway|regulation of cell growth|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1		Ovarian(17;0.00369)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000271)		TTTACTTACACAGATCCATGG	0.368													25	117					0	0	0.00632	0	0		T	114436226	T	T	114436226	3	4	209	1	0	0	0	0	1	0	0	0	2604	492	17	4	812	4	CAMK2D	4	114436226	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10332229	114436226	76718050	307	100722											
TRAM1L1	133022	broad.mit.edu	37	chr4	118005620	118005620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaattaagttccatgttacGtaggcttggatcgtgcaact	10	14	10	7	2	0	0	0	0	0	0	2	1	1	1	1	2	3	6	1	2	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:118005620G>A	uc003ibv.3	-	1	1117	c.930C>T	c.(928-930)TAC>TAT	p.Y310Y		NM_152402	NP_689615	Q8N609	TR1L1_HUMAN	translocation associated membrane protein 1-like	310	Helical; (Potential).|TLC.				protein transport|transmembrane transport	endoplasmic reticulum membrane|integral to membrane				central_nervous_system(1)	1						TCCATGTTACGTAGGCTTGGA	0.428													10	114					0	0	0.006214	0	0		A	118005620	A	A	118005620	2	1	209	1	0	0	0	0	0	0	0	1	16478	1140	40	1		1	TRAM1L1	4	118005620	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3569394	118005620	73148656	308	100723											
TRPC3	7222	broad.mit.edu	37	chr4	122853626	122853626	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcacttgcagaaatagtcgtGcggccgctcgatcctggcac	8	8	12	13	4	0	1	0	0	0	1	3	2	1	1	2	2	2	4	2	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:122853626G>A	uc003ieg.2	-	2	861	c.787C>T	c.(787-789)CAC>TAC	p.H263Y	TRPC3_uc010inr.2_Missense_Mutation_p.H190Y|TRPC3_uc003ief.2_Missense_Mutation_p.H190Y|TRPC3_uc011cgl.1_5'UTR	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	178	Cytoplasmic (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AAATAGTCGTGCGGCCGCTCG	0.602													7	44					0	0	0.001984	0	0		A	122853626	A	A	122853626	3	1	209	1	0	0	0	0	1	0	0	0	16605	1319	46	2	2022	2	TRPC3	4	122853626	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4848006	122853626	68300650	309	100724											
ANKRD50	57182	broad.mit.edu	37	chr4	125590320	125590320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccaagaaaaacctggttgCtctgaagatgataatttgga	15	11	9	6	0	1	4	0	2	1	2	1	5	1	5	2	2	3	2	2	2	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:125590320C>T	uc003ifg.3	-	3	4378	c.4112G>A	c.(4111-4113)AGC>AAC	p.S1371N	ANKRD50_uc011cgo.1_Missense_Mutation_p.S1192N|ANKRD50_uc010inw.2_Missense_Mutation_p.S1371N	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1371										central_nervous_system(1)	1						AACCTGGTTGCTCTGAAGATG	0.418													22	88					0	0	0.014323	0	0		T	125590320	T	T	125590320	3	4	209	1	0	0	0	0	1	0	0	0	677	797	28	2	181	2	ANKRD50	4	125590320	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2736694	125590320	65563956	310	100725											
FAT4	79633	broad.mit.edu	37	chr4	126239735	126239735	+	Silent	SNP	T	G	G	0	1	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	gacttgggtaccaatggtacTgtcaaatatagcatatctgc	12	12	9	8	0	2	0	1	0	1	0	2	1	2	0	1	2	4	3	1	2	7	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:126239735T>G	uc003ifj.3	+	1	2169	c.2169T>G	c.(2167-2169)ACT>ACG	p.T723T		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	723	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCAATGGTACTGTCAAATATA	0.473													18	52					0	0	0.006122	0	0		G	126239735	G	G	126239735	2	3	209	1	0	0	0	0	0	0	0	1	5706	1567	55	5		5	FAT4	4	126239735	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	649415	126239735	64914541	311	100726											
FAT4	79633	broad.mit.edu	37	chr4	126372007	126372007	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtccccgatgaggaaaggtGtagctttgccactgttaata	10	12	11	8	1	0	1	0	1	0	0	1	3	1	2	3	2	2	3	3	2	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:126372007G>T	uc003ifj.3	+	9	9836	c.9836G>T	c.(9835-9837)TGT>TTT	p.C3279F	FAT4_uc011cgp.1_Missense_Mutation_p.C1577F|FAT4_uc003ifi.1_Missense_Mutation_p.C757F	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3279	Cadherin 31.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GAGGAAAGGTGTAGCTTTGCC	0.403													16	49					2.32078e-09	2.54883e-09	0.003163	1	0		T	126372007	T	T	126372007	3	4	209	1	0	0	0	0	1	0	0	0	5706	1377	48	5	9870	5	FAT4	4	126372007	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	132272	126372007	64782269	312	100727											
FAT4	79633	broad.mit.edu	37	chr4	126373015	126373015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacaatccttcacagtctcGgacggtggagatatttgtta	10	13	10	8	2	2	2	1	1	1	1	4	4	3	3	1	3	0	1	1	3	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:126373015G>A	uc003ifj.3	+	9	10844	c.10844G>A	c.(10843-10845)CGG>CAG	p.R3615Q	FAT4_uc011cgp.1_Missense_Mutation_p.R1913Q|FAT4_uc003ifi.1_Missense_Mutation_p.R1093Q	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3615	Cadherin 34.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TCACAGTCTCGGACGGTGGAG	0.438													17	92					0	0	0.006122	0	0		A	126373015	A	A	126373015	3	1	209	1	0	0	0	0	1	0	0	0	5706	1116	39	1	10878	1	FAT4	4	126373015	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1008	126373015	64781261	313	100728											
FAT4	79633	broad.mit.edu	37	chr4	126373581	126373581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtggaatctgtggatcatGactcctgtgtgcatggccca	8	11	13	9	0	2	1	1	1	1	0	3	3	3	3	2	4	1	1	2	4	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:126373581G>A	uc003ifj.3	+	9	11410	c.11410G>A	c.(11410-11412)GAC>AAC	p.D3804N	FAT4_uc011cgp.1_Missense_Mutation_p.D2102N|FAT4_uc003ifi.1_Missense_Mutation_p.D1282N	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	3804	Extracellular (Potential).|EGF-like 1.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TGTGGATCATGACTCCTGTGT	0.483													21	58					0	0	0.012319	0	0		A	126373581	A	A	126373581	3	1	209	1	0	0	0	0	1	0	0	0	5706	1290	45	4	11444	4	FAT4	4	126373581	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	566	126373581	64780695	314	100729											
TBC1D9	23158	broad.mit.edu	37	chr4	141583179	141583179	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatccctctcaatctcctcCgtggcgagattatacttccc	9	12	5	15	2	2	1	1	0	2	1	7	2	5	1	4	1	1	0	4	1	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:141583179C>T	uc010ioj.2	-	10	1943	c.1671G>A	c.(1669-1671)ACG>ACA	p.T557T		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	557	Rab-GAP TBC.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				CAATCTCCTCCGTGGCGAGAT	0.478													15	134					0	0	0.004007	0	0		T	141583179	T	T	141583179	2	4	209	1	0	0	0	0	0	0	0	1	15652	639	23	1		1	TBC1D9	4	141583179	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	15209598	141583179	49571097	315	100730											
OTUD4	54726	broad.mit.edu	37	chr4	146064586	146064586	+	Silent	SNP	A	G	G	1	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	gaaactgttgcatatttatcAtcagtaatattctttggaag	13	16	7	5	0	3	0	2	0	1	0	3	2	3	1	0	1	2	3	0	1	6	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:146064586A>G	uc003ika.3	-	17	1557	c.1419T>C	c.(1417-1419)GAT>GAC	p.D473D	OTUD4_uc003ijz.3_Silent_p.D472D	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	537							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					CATATTTATCATCAGTAATAT	0.343													4	32					0	0	0.001168	0	0		G	146064586	G	G	146064586	2	3	209	1	0	0	0	0	0	0	0	1	11333	214	8	3		3	OTUD4	4	146064586	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	4481407	146064586	45089690	316	100731											
FBXW7	55294	broad.mit.edu	37	chr4	153247366	153247366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaccctaagagtggcatctCgagaaccgctaacaactctg	14	7	8	12	2	2	2	0	0	2	2	3	3	2	2	2	1	4	2	2	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:153247366C>T	uc003ims.2	-	10	1585	c.1436G>A	c.(1435-1437)CGA>CAA	p.R479Q	FBXW7_uc011cii.1_Missense_Mutation_p.R479Q|FBXW7_uc003imt.2_Missense_Mutation_p.R479Q|FBXW7_uc011cih.1_Missense_Mutation_p.R303Q|FBXW7_uc003imq.2_Missense_Mutation_p.R399Q|FBXW7_uc003imr.2_Missense_Mutation_p.R361Q	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	479	WD 3.				interspecies interaction between organisms|lipid homeostasis|negative regulation of DNA endoreduplication|negative regulation of hepatocyte proliferation|negative regulation of Notch signaling pathway|negative regulation of triglyceride biosynthetic process|positive regulation of epidermal growth factor receptor activity|positive regulation of ERK1 and ERK2 cascade|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein stabilization|protein ubiquitination|regulation of lipid storage|regulation of protein localization|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|sister chromatid cohesion|vasculature development	nucleolus|nucleolus|nucleoplasm|nucleoplasm|SCF ubiquitin ligase complex	protein binding|protein binding	p.R479Q(31)|p.R479L(7)|p.R479G(3)|p.R399Q(2)|p.R240L(1)|p.R399L(1)		haematopoietic_and_lymphoid_tissue(125)|large_intestine(99)|stomach(16)|lung(14)|endometrium(13)|ovary(9)|biliary_tract(8)|upper_aerodigestive_tract(5)|central_nervous_system(3)|kidney(3)|skin(3)|pancreas(3)|breast(2)|prostate(2)|cervix(1)|NS(1)|bone(1)	308	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.000629)|all_hematologic(8;0.067)				AGTGGCATCTCGAGAACCGCT	0.403			Mis|N|D|F		colorectal|endometrial|T-ALL								9	58					0	0	0.008291	0	0		T	153247366	T	T	153247366	3	4	209	1	0	0	0	0	1	0	0	0	5783	884	31	1	699	1	FBXW7	4	153247366	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7182780	153247366	37906910	317	100732											
DCHS2	54798	broad.mit.edu	37	chr4	155156861	155156861	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaagggtgttccttcagaGgagaaagacacattcacaaa	15	7	10	9	0	2	3	2	0	0	3	3	4	3	3	2	2	0	1	2	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:155156861G>T	uc003inw.2	-	25	7578	c.7578C>A	c.(7576-7578)TCC>TCA	p.S2526S		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2526	Cadherin 22.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		TTCCTTCAGAGGAGAAAGACA	0.408													10	66					2.17888e-05	2.31595e-05	0.006214	1	0		T	155156861	T	T	155156861	2	4	209	1	0	0	0	0	0	0	0	1	4291	987	35	5		5	DCHS2	4	155156861	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1909495	155156861	35997415	318	100733											
GUCY1B3	2983	broad.mit.edu	37	chr4	156710914	156710914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaccatctacccaggaatgCgtgcaccttcctttaggtgc	8	11	8	14	1	1	0	0	0	1	0	2	1	2	1	4	2	5	1	4	2	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:156710914C>T	uc003ipc.2	+	5	513	c.346C>T	c.(346-348)CGT>TGT	p.R116C	GUCY1B3_uc011cio.1_Missense_Mutation_p.R138C|GUCY1B3_uc011cip.1_Missense_Mutation_p.R96C|GUCY1B3_uc003ipd.2_Missense_Mutation_p.R44C|GUCY1B3_uc010iqf.2_Missense_Mutation_p.R116C|GUCY1B3_uc010iqg.2_Missense_Mutation_p.R44C|GUCY1B3_uc011ciq.1_Missense_Mutation_p.R44C	NM_000857	NP_000848	Q02153	GCYB1_HUMAN	guanylate cyclase 1, soluble, beta 3	116					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble|intracellular membrane-bounded organelle	GTP binding|guanylate cyclase activity|receptor activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.148)		CCCAGGAATGCGTGCACCTTC	0.463													29	77					0	0	0.008361	0	0		T	156710914	T	T	156710914	3	4	209	1	0	0	0	0	1	0	0	0	6911	768	27	1	364	1	GUCY1B3	4	156710914	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1554053	156710914	34443362	319	100734											
CPE	1363	broad.mit.edu	37	chr4	166403505	166403505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attatccatatgatgagacgCggagtggtaggtattctttc	10	14	11	6	2	1	2	0	2	1	1	3	4	2	3	1	3	0	2	1	3	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:166403505C>T	uc003irg.3	+	4	1061	c.784C>T	c.(784-786)CGG>TGG	p.R262W		NM_001873	NP_001864	P16870	CBPE_HUMAN	carboxypeptidase E preproprotein	262					cardiac left ventricle morphogenesis|neuropeptide signaling pathway|protein modification process	extracellular region|nucleus|plasma membrane	metallocarboxypeptidase activity|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0962)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.137)	Glucagon recombinant(DB00040)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TGATGAGACGCGGAGTGGTAG	0.378													15	83					0	0	0.003163	0	0		T	166403505	T	T	166403505	3	4	209	1	0	0	0	0	1	0	0	0	3802	759	27	1	798	1	CPE	4	166403505	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	9692591	166403505	24750771	320	100735											
ODZ3	55714	broad.mit.edu	37	chr4	183721292	183721292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgcggcagcgcgcgctcGcccgggcctgggcgcgcgag	3	2	20	16	10	0	0	0	0	0	0	1	1	0	0	2	4	1	2	2	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:183721292G>A	uc003ivd.1	+	27	7925	c.7888G>A	c.(7888-7890)GCC>ACC	p.A2630T		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2630	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		GCGCGCGCTCGCCCGGGCCTG	0.756													4	2					0	0	0.009096	0	0		A	183721292	A	A	183721292	3	1	209	1	0	0	0	0	1	0	0	0	10855	1087	38	1	7994	1	ODZ3	4	183721292	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	17317787	183721292	7432984	321	100736											
MLF1IP	79682	broad.mit.edu	37	chr4	185618812	185618812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagttaccgtttcctttaCgtttggttcttgagcttgaa	6	18	10	7	2	1	2	0	2	1	0	2	3	2	3	2	2	3	5	2	2	3	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:185618812C>T	uc003iwq.2	-	12	1202	c.1132G>A	c.(1132-1134)GTA>ATA	p.V378I	MLF1IP_uc003iwp.2_RNA|MLF1IP_uc003iwr.1_3'UTR	NM_024629	NP_078905	Q71F23	CENPU_HUMAN	MLF1 interacting protein	378					CenH3-containing nucleosome assembly at centromere|interspecies interaction between organisms|mitotic prometaphase|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|condensed chromosome kinetochore|cytosol|nucleoplasm					0		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Hepatocellular(41;0.000519)|Colorectal(36;0.00172)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.0299)|all_hematologic(60;0.0592)|Medulloblastoma(177;0.146)		all cancers(43;7.83e-28)|Epithelial(43;2.56e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.5e-11)|Colorectal(24;3.27e-06)|STAD - Stomach adenocarcinoma(60;2.66e-05)|GBM - Glioblastoma multiforme(59;3.16e-05)|BRCA - Breast invasive adenocarcinoma(30;0.000252)|COAD - Colon adenocarcinoma(29;0.000512)|LUSC - Lung squamous cell carcinoma(40;0.01)|READ - Rectum adenocarcinoma(43;0.0419)		GTTTCCTTTACGTTTGGTTCT	0.358													11	30					0	0	0.010729	0	0		T	185618812	T	T	185618812	3	4	209	1	0	0	0	0	1	0	0	0	9633	536	19	1	132	1	MLF1IP	4	185618812	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1897520	185618812	5535464	322	100737											
LRP2BP	55805	broad.mit.edu	37	chr4	186291916	186291916	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaactccgggagacagtCtgtgacctgggcgatcatgg	9	8	15	9	2	2	3	1	2	1	1	3	6	3	3	2	3	1	0	2	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:186291916C>A	uc003ixj.1	-	7	1668	c.856G>T	c.(856-858)GAC>TAC	p.D286Y	LRP2BP_uc003ixk.1_Missense_Mutation_p.D260Y|LRP2BP_uc011ckr.1_Missense_Mutation_p.D286Y	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	286						cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		GGGAGACAGTCTGTGACCTGG	0.507													5	102					0.00198382	0.00204868	0.001984	1	0		A	186291916	A	A	186291916	3	1	209	1	0	0	0	0	1	0	0	0	8975	913	32	5	195	5	LRP2BP	4	186291916	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	673104	186291916	4862360	323	100738											
FAT1	2195	broad.mit.edu	37	chr4	187519257	187519257	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgggtccctatgtacaaGgcactgcatttgcagtaata	11	11	10	9	0	0	0	0	0	0	0	1	0	1	0	1	2	3	5	1	2	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:187519257G>T	uc003izf.2	-	23	12314	c.12126C>A	c.(12124-12126)GCC>GCA	p.A4042A	FAT1_uc010isn.2_5'Flank|FAT1_uc003ize.2_5'Flank	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4042	Extracellular (Potential).|EGF-like 2.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTATGTACAAGGCACTGCATT	0.433										HNSCC(5;0.00058)			3	48					2.56e-06	2.75124e-06	0.009096	1	0		T	187519257	T	T	187519257	2	4	209	1	0	0	0	0	0	0	0	1	5703	987	35	5		5	FAT1	4	187519257	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1227341	187519257	3635019	324	100739											
FAT1	2195	broad.mit.edu	37	chr4	187540947	187540947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgtccacaaatacttcagCatgagcgcccgtcaaggagt	12	8	10	11	2	2	1	2	1	0	0	3	3	3	2	2	1	3	1	2	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:187540947C>T	uc003izf.2	-	10	6981	c.6793G>A	c.(6793-6795)GCT>ACT	p.A2265T		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2265	Extracellular (Potential).|Cadherin 20.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						AATACTTCAGCATGAGCGCCC	0.488										HNSCC(5;0.00058)			37	108					0	0	0.00623	0	0		T	187540947	T	T	187540947	3	4	209	1	0	0	0	0	1	0	0	0	5703	710	25	2	7045	2	FAT1	4	187540947	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	21690	187540947	3613329	325	100740											
TUBB4Q	56604	broad.mit.edu	37	chr4	190904370	190904370	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatatgtcatatagcgcttCgttatctatgcagaaggtct	11	14	8	8	2	3	1	1	0	2	1	4	1	3	1	0	1	2	3	0	1	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:190904370C>T	uc011clg.1	-	4	613	c.610G>A	c.(610-612)GAA>AAA	p.E204K		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	205					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		TATAGCGCTTCGTTATCTATG	0.537													5	69					0	0	0.00308	0	0		T	190904370	T	T	190904370	3	4	209	1	0	0	0	0	1	0	0	0	16785	893	31	1	694	1	TUBB4Q	4	190904370	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3363423	190904370	249906	326	100741											
TUBB4Q	56604	broad.mit.edu	37	chr4	190905650	190905650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctccagctgcaggtggctgtCcccgtggtaggtgccagcgg	4	8	16	13	2	0	0	0	0	0	0	2	0	2	0	4	5	4	4	4	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr4:190905650C>T	uc011clg.1	-	2	115	c.112G>A	c.(112-114)GAC>AAC	p.D38N		NM_020040	NP_064424	Q99867	TBB4Q_HUMAN	tubulin, beta polypeptide 4, member Q	39					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;4.1e-31)|Epithelial(3;1.44e-30)|OV - Ovarian serous cystadenocarcinoma(60;2.03e-15)|BRCA - Breast invasive adenocarcinoma(30;8.54e-06)|Lung(3;3.23e-05)|STAD - Stomach adenocarcinoma(60;8.24e-05)|LUSC - Lung squamous cell carcinoma(40;0.000184)|GBM - Glioblastoma multiforme(59;0.00839)|READ - Rectum adenocarcinoma(43;0.155)		AGGTGGCTGTCCCCGTGGTAG	0.687													2	1					0	0	0.009096	0	0		T	190905650	T	T	190905650	3	4	209	1	0	0	0	0	1	0	0	0	16785	855	30	4	1200	4	TUBB4Q	4	190905650	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1280	190905650	248626	327	100742											
SLC9A3	6550	broad.mit.edu	37	chr5	483524	483524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcatcttcatggtgtagcGcacggtggtggccgactgct	6	10	14	11	3	2	0	1	0	1	0	2	1	2	0	1	4	3	4	1	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:483524G>A	uc003jbe.2	-	6	1118	c.1006C>T	c.(1006-1008)CGC>TGC	p.R336C	SLC9A3_uc011clx.1_Missense_Mutation_p.R336C	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	336	Extracellular (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			ATGGTGTAGCGCACGGTGGTG	0.587													5	6					0	0	0.001168	0	0		A	483524	A	A	483524	3	1	209	1	0	0	0	0	1	0	0	0	14738	1087	38	1	1546	1	SLC9A3	5	483524	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		483524	180431736	328	100743											
BRD9	65980	broad.mit.edu	37	chr5	865542	865542	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atctcacccaggtggtgctgGtccctctcggaggcgttgga	5	10	14	12	2	2	0	1	0	2	0	5	2	3	2	2	6	1	2	2	6	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:865542G>A	uc003jbq.2	-	15	1847	c.1680C>T	c.(1678-1680)GAC>GAT	p.D560D	BRD9_uc003jbl.2_Silent_p.D444D|BRD9_uc003jbm.2_RNA|BRD9_uc003jbn.2_RNA|BRD9_uc011cmb.1_Silent_p.D507D|BRD9_uc003jbo.2_Silent_p.D464D	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	560							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)			GGTGGTGCTGGTCCCTCTCGG	0.657													17	78					0	0	0.00499	0	0		A	865542	A	A	865542	2	1	209	1	0	0	0	0	0	0	0	1	1510	1252	44	4		4	BRD9	5	865542	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	382018	865542	180049718	329	100744											
SLC12A7	10723	broad.mit.edu	37	chr5	1078842	1078842	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtaagaccacgccttcaatGcaggccccaaacagcacaat	14	5	7	15	2	1	1	1	0	0	1	1	1	1	1	4	1	3	3	4	1	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:1078842G>A	uc003jbu.2	-	11	1494	c.1428C>T	c.(1426-1428)TGC>TGT	p.C476C		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	476	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	CGCCTTCAATGCAGGCCCCAA	0.498													5	35					0	0	0.001168	0	0		A	1078842	A	A	1078842	2	1	209	1	0	0	0	0	0	0	0	1	14413	1311	46	2		2	SLC12A7	5	1078842	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	213300	1078842	179836418	330	100745											
CLPTM1L	81037	broad.mit.edu	37	chr5	1339036	1339036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcaaagacaaagttgtccgCcatcacgttcagcgccagcc	11	7	9	14	3	3	1	3	0	0	1	4	1	4	1	4	0	2	2	4	0	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:1339036C>T	uc003jch.2	-	4	584	c.538G>A	c.(538-540)GCG>ACG	p.A180T	CLPTM1L_uc003jcg.2_Missense_Mutation_p.A47T	NM_030782	NP_110409	Q96KA5	CLP1L_HUMAN	CLPTM1-like	180	Extracellular (Potential).				apoptosis	integral to membrane				breast(1)|central_nervous_system(1)	2	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)		AAGTTGTCCGCCATCACGTTC	0.617													18	72					0	0	0.006122	0	0		T	1339036	T	T	1339036	3	4	209	1	0	0	0	0	1	0	0	0	3558	739	26	2	1134	2	CLPTM1L	5	1339036	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	260194	1339036	179576224	331	100746											
NDUFS6	4726	broad.mit.edu	37	chr5	1814469	1814469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccaggtgaatgaaaactttgCcattgatttgatagcagagc	13	11	10	7	0	0	5	0	4	0	1	0	5	0	5	2	1	4	1	2	1	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:1814469C>T	uc003jcy.2	+	3	226	c.203C>T	c.(202-204)GCC>GTC	p.A68V		NM_004553	NP_004544	O75380	NDUS6_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 6,	68					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial respiratory chain complex I	electron carrier activity|NADH dehydrogenase (ubiquinone) activity			central_nervous_system(1)	1					NADH(DB00157)	GAAAACTTTGCCATTGATTTG	0.458													7	101					0	0	0.001984	0	0		T	1814469	T	T	1814469	3	4	209	1	0	0	0	0	1	0	0	0	10315	739	26	2	213	2	NDUFS6	5	1814469	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	475433	1814469	179100791	332	100747											
IRX2	153572	broad.mit.edu	37	chr5	2748668	2748668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgccgtagaagggcgacGtgtagtagagggggcggccc	8	6	19	8	4	0	2	0	0	0	2	0	3	0	2	2	4	1	4	2	4	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:2748668G>A	uc003jda.2	-	3	1396	c.1154C>T	c.(1153-1155)ACG>ATG	p.T385M	IRX2_uc003jdb.2_Missense_Mutation_p.T385M	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	385						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		GAAGGGCGACGTGTAGTAGAG	0.592													11	54					0	0	0.003163	0	0		A	2748668	A	A	2748668	3	1	209	1	0	0	0	0	1	0	0	0	7860	1145	40	1	269	1	IRX2	5	2748668	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	934199	2748668	178166592	333	100748											
SEMA5A	9037	broad.mit.edu	37	chr5	9224864	9224864	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggtaaatggcaggatcacGtcctggaaaatccatggctg	11	9	12	9	2	1	0	1	0	0	0	4	2	3	2	2	5	0	3	2	5	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:9224864G>A	uc003jek.2	-	8	1280	c.568C>T	c.(568-570)CGT>TGT	p.R190C		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	190	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GCAGGATCACGTCCTGGAAAA	0.567													4	40					0	0	0.009096	0	0		A	9224864	A	A	9224864	3	1	209	1	0	0	0	0	1	0	0	0	14062	1145	40	1	2720	1	SEMA5A	5	9224864	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6476196	9224864	171690396	334	100749											
CTNND2	1501	broad.mit.edu	37	chr5	11384809	11384809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcctctggagggtggccGtggcatacagctcctgcgag	5	7	16	13	3	1	0	0	0	1	0	2	2	2	1	4	5	3	2	4	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:11384809G>A	uc003jfa.1	-	7	1290	c.1145C>T	c.(1144-1146)ACG>ATG	p.T382M	CTNND2_uc010itt.2_Missense_Mutation_p.T291M|CTNND2_uc011cmy.1_Intron|CTNND2_uc011cmz.1_Intron|CTNND2_uc010itu.1_Intron|CTNND2_uc011cmx.1_Translation_Start_Site	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	382					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			large_intestine(2)|ovary(2)|skin(2)|pancreas(1)|lung(1)	8						GAGGGTGGCCGTGGCATACAG	0.701													7	28					0	0	0.00308	0	0		A	11384809	A	A	11384809	3	1	209	1	0	0	0	0	1	0	0	0	4023	1145	40	1	2596	1	CTNND2	5	11384809	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2159945	11384809	169530451	335	100750											
ADAMTS12	81792	broad.mit.edu	37	chr5	33624406	33624406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatctcccaggcacacaccGcagcgatcctcggtggcatt	8	7	9	17	3	1	0	0	0	1	0	4	1	2	0	4	3	1	3	4	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:33624406G>A	uc003jia.1	-	14	2236	c.2073C>T	c.(2071-2073)TGC>TGT	p.C691C	ADAMTS12_uc010iuq.1_Intron	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	691	Cys-rich.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGCACACACCGCAGCGATCCT	0.507										HNSCC(64;0.19)			13	35					0	0	0.001855	0	0		A	33624406	A	A	33624406	2	1	209	1	0	0	0	0	0	0	0	1	257	1079	38	1		1	ADAMTS12	5	33624406	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	22239597	33624406	147290854	336	100751											
SLC45A2	51151	broad.mit.edu	37	chr5	33947392	33947392	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacattcgggaagagcccaAtaaatcccgtccccaggcca	13	5	9	14	2	0	2	0	0	0	2	3	3	2	3	5	2	1	0	5	2	4	2	rs112249076		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:33947392A>C	uc003jid.2	-	6	1336	c.1244T>G	c.(1243-1245)ATT>AGT	p.I415S	SLC45A2_uc003jie.2_Missense_Mutation_p.I415S	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	415	Helical; Name=9; (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAAGAGCCCAATAAATCCCGT	0.478													31	136					0	0	0.010818	0	0		C	33947392	C	C	33947392	3	2	209	1	0	0	0	0	1	0	0	0	14666	101	4	5	371	5	SLC45A2	5	33947392	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	322986	33947392	146967868	337	100752											
NIPBL	25836	broad.mit.edu	37	chr5	37022491	37022491	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatgctgattgaaagaatatTggtatgtttgtcatttttat	11	20	8	2	0	1	3	1	2	0	1	1	3	1	3	0	1	1	3	0	1	6	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:37022491T>C	uc003jkl.3	+	29	6072	c.5573T>C	c.(5572-5574)TTG>TCG	p.L1858S	NIPBL_uc003jkk.3_Missense_Mutation_p.L1858S	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	1858	HEAT 2.				brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			GAAAGAATATTGGTATGTTTG	0.323													6	25					0	0	0.001168	0	0		C	37022491	C	C	37022491	3	2	209	1	0	0	0	0	1	0	0	0	10447	1826	63	3	5683	3	NIPBL	5	37022491	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	3075099	37022491	143892769	338	100753											
DAB2	1601	broad.mit.edu	37	chr5	39383287	39383287	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agagaacaggaggtgatgccGtttgttaagaatggattttc	12	12	13	4	1	0	3	0	1	0	2	1	6	0	5	1	3	2	2	1	3	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:39383287G>A	uc003jlx.2	-	10	1305	c.774C>T	c.(772-774)AAC>AAT	p.N258N	DAB2_uc003jlw.2_Silent_p.N237N	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	258					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			AGGTGATGCCGTTTGTTAAGA	0.423													9	115					0	0	0.006214	0	0		A	39383287	A	A	39383287	2	1	209	1	0	0	0	0	0	0	0	1	4221	1136	40	1		1	DAB2	5	39383287	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2360796	39383287	141531973	339	100754											
PRKAA1	5562	broad.mit.edu	37	chr5	40767586	40767586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctgatatctttgattgtgGccctcttcatgggatccacc	7	14	8	12	0	3	2	1	2	2	0	4	3	4	3	4	2	0	0	4	2	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:40767586G>A	uc003jmc.2	-	6	809	c.803C>T	c.(802-804)GCC>GTC	p.A268V	PRKAA1_uc003jmb.2_Missense_Mutation_p.A283V	NM_006251	NP_006242	Q13131	AAPK1_HUMAN	protein kinase, AMP-activated, alpha 1 catalytic	268	Protein kinase.				activation of MAPK activity|cell cycle arrest|cholesterol biosynthetic process|fatty acid biosynthetic process|insulin receptor signaling pathway|negative regulation of glucosylceramide biosynthetic process|positive regulation of anti-apoptosis|positive regulation of cholesterol biosynthetic process|regulation of fatty acid oxidation|response to hypoxia	cytosol	ATP binding|cAMP-dependent protein kinase activity|metal ion binding|protein binding			breast(1)	1					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)|Phenformin(DB00914)	TTTGATTGTGGCCCTCTTCAT	0.284													15	49					0	0	0.004007	0	0		A	40767586	A	A	40767586	3	1	209	1	0	0	0	0	1	0	0	0	12515	1203	42	2	892	2	PRKAA1	5	40767586	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1384299	40767586	140147674	340	100755											
DHX29	54505	broad.mit.edu	37	chr5	54552344	54552344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctgtttttatcaattccGtaatgatctgcagaatcttg	9	18	6	8	1	4	2	1	1	3	1	6	2	5	2	1	0	1	3	1	0	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:54552344G>A	uc003jpx.2	-	27	4202	c.4082C>T	c.(4081-4083)ACG>ATG	p.T1361M	DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	1361							ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				TATCAATTCCGTAATGATCTG	0.313													10	44					0	0	0.006214	0	0		A	54552344	A	A	54552344	3	1	209	1	0	0	0	0	1	0	0	0	4509	1145	40	1	31	1	DHX29	5	54552344	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	13784758	54552344	126362916	341	100756											
IL6ST	3572	broad.mit.edu	37	chr5	55236979	55236979	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaggcatgccttcatcagtCgcagcctccatgccaactgt	8	11	8	14	1	2	0	2	0	0	0	4	0	3	0	4	1	4	2	4	1	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:55236979C>T	uc003jqq.2	-	17	2943	c.2688G>A	c.(2686-2688)GCG>GCA	p.A896A	uc003jqp.2_5'Flank|IL6ST_uc010iwb.2_Silent_p.A835A|IL6ST_uc010iwc.2_3'UTR|IL6ST_uc010iwd.2_Silent_p.A215A|IL6ST_uc011cqk.1_Silent_p.A607A|IL6ST_uc003jqr.2_3'UTR	NM_002184	NP_002175	P40189	IL6RB_HUMAN	interleukin 6 signal transducer isoform 1	896	Cytoplasmic (Potential).				interleukin-6-mediated signaling pathway|leukemia inhibitory factor signaling pathway|negative regulation of interleukin-6-mediated signaling pathway|positive regulation of anti-apoptosis|positive regulation of cardiac muscle hypertrophy|positive regulation of osteoblast differentiation|positive regulation of T cell proliferation|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation vascular endothelial growth factor production	ciliary neurotrophic factor receptor complex|extracellular region|extracellular space|interleukin-6 receptor complex|oncostatin-M receptor complex	ciliary neurotrophic factor receptor activity|ciliary neurotrophic factor receptor binding|growth factor binding|protein homodimerization activity			large_intestine(1)|ovary(1)	2		Lung NSC(810;8.69e-05)|Prostate(74;0.00308)|Breast(144;0.0544)|Ovarian(174;0.223)				CTTCATCAGTCGCAGCCTCCA	0.468			O		hepatocellular ca								24	85					0	0	0.00278	0	0		T	55236979	T	T	55236979	2	4	209	1	0	0	0	0	0	0	0	1	7719	871	31	1		1	IL6ST	5	55236979	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	684635	55236979	125678281	342	100757											
HTR1A	3350	broad.mit.edu	37	chr5	63256583	63256583	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgcgctcatttttcctctCgaaagaggcgggggcacaag	8	10	13	10	3	2	1	1	0	1	1	4	2	3	1	1	3	1	3	1	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:63256583C>A	uc011cqt.1	-	1	964	c.964G>T	c.(964-966)GAG>TAG	p.E322*		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	322	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TTTTTCCTCTCGAAAGAGGCG	0.617													10	60					2.17888e-05	2.31595e-05	0.006214	1	0		A	63256583	A	A	63256583	4	1	209	1	0	0	0	0	0	1	0	0	7452	893	31	5	307	5	HTR1A	5	63256583	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	8019604	63256583	117658677	343	100758											
PIK3R1	5295	broad.mit.edu	37	chr5	67591106	67591106	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acaaacgtatgaacagcattAaaccagaccttatccagctg	16	8	6	11	1	0	2	0	1	0	1	1	2	1	2	3	0	5	3	3	0	6	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:67591106A>G	uc003jva.2	+	13	2259	c.1699A>G	c.(1699-1701)AAA>GAA	p.K567E	PIK3R1_uc003jvb.2_Missense_Mutation_p.K567E|PIK3R1_uc003jvc.2_Missense_Mutation_p.K267E|PIK3R1_uc003jvd.2_Missense_Mutation_p.K297E|PIK3R1_uc003jve.2_Missense_Mutation_p.K246E|PIK3R1_uc011crb.1_Missense_Mutation_p.K237E	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	567					epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		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)	Isoproterenol(DB01064)	GAACAGCATTAAACCAGACCT	0.368			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			12	82					0	0	0.00245	0	0		G	67591106	G	G	67591106	3	3	209	1	0	0	0	0	1	0	0	0	11937	363	13	3	1875	3	PIK3R1	5	67591106	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	4334523	67591106	113324154	344	100759											
SV2C	22987	broad.mit.edu	37	chr5	75428050	75428050	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggcccttttcttcgtcctgGgcatggctcttatggcagac	4	13	12	12	1	2	1	0	0	2	1	4	1	3	1	2	4	0	3	2	4	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:75428050G>T	uc003kei.1	+	2	609	c.475G>T	c.(475-477)GGC>TGC	p.G159C		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	159	Helical; (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		CTTCGTCCTGGGCATGGCTCT	0.512													15	112					6.72482e-11	7.45322e-11	0.003163	1	0		T	75428050	T	T	75428050	3	4	209	1	0	0	0	0	1	0	0	0	15444	1232	43	5	477	5	SV2C	5	75428050	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7836944	75428050	105487210	345	100760											
CMYA5	202333	broad.mit.edu	37	chr5	79025669	79025669	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	gaatacagctcaggcattcaCagtcagtgccacaacagcca	14	6	8	13	0	3	0	3	0	0	0	3	1	3	0	2	1	5	2	2	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:79025669C>T	uc003kgc.2	+	2	1153	c.1081C>T	c.(1081-1083)CAG>TAG	p.Q361*		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	361						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		CAGGCATTCACAGTCAGTGCC	0.483													3	12					0	0	0.004672	0	0		T	79025669	T	T	79025669	4	4	209	1	0	0	0	0	0	1	0	0	3593	479	17	4	1087	4	CMYA5	5	79025669	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3597619	79025669	101889591	346	100761											
THBS4	7060	broad.mit.edu	37	chr5	79366538	79366538	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcattggcgacgcttgtgacGaggatgctgacggagatggg	8	8	18	7	4	0	3	0	2	0	1	0	7	0	4	0	4	1	3	0	4	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:79366538G>A	uc003kgh.2	+	13	1848	c.1525G>A	c.(1525-1527)GAG>AAG	p.E509K	uc003kgi.3_Intron	NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	509	TSP type-3 2.				endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		CGCTTGTGACGAGGATGCTGA	0.532													25	67					0	0	0.004656	0	0		A	79366538	A	A	79366538	3	1	209	1	0	0	0	0	1	0	0	0	15881	1059	37	1	1571	1	THBS4	5	79366538	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	340869	79366538	101548722	347	100762											
GPR98	84059	broad.mit.edu	37	chr5	90159637	90159637	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctccatgtttgcagctaaacTtctgactcacatgatggcag	10	12	8	11	0	2	2	1	2	1	0	3	2	3	2	1	1	3	4	1	1	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:90159637T>G	uc003kju.2	+	83	17915	c.17819T>G	c.(17818-17820)CTT>CGT	p.L5940R	GPR98_uc003kjt.2_Missense_Mutation_p.L3646R|GPR98_uc003kjw.2_Missense_Mutation_p.L1601R	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5940	Helical; (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GCAGCTAAACTTCTGACTCAC	0.418													28	108					0	0	0.010818	0	0		G	90159637	G	G	90159637	3	3	209	1	0	0	0	0	1	0	0	0	6737	1609	56	5	18149	5	GPR98	5	90159637	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	10793099	90159637	90755623	348	100763											
TTC37	9652	broad.mit.edu	37	chr5	94852270	94852270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgatgaaacagtgctgagCaagggcataatttccaatac	14	11	9	7	0	0	3	0	3	0	0	1	3	1	3	1	1	4	3	1	1	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:94852270C>T	uc003klb.2	-	24	2806	c.2536G>A	c.(2536-2538)GCT>ACT	p.A846T		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	846	TPR 14.						binding			ovary(3)|pancreas(1)	4						CAGTGCTGAGCAAGGGCATAA	0.294													12	66					0	0	0.00245	0	0		T	94852270	T	T	94852270	3	4	209	1	0	0	0	0	1	0	0	0	16731	710	25	2	2238	2	TTC37	5	94852270	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4692633	94852270	86062990	349	100764											
ERAP1	51752	broad.mit.edu	37	chr5	96130807	96130807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaattctagaagagtcaccGcagcatccagtgcataatct	15	9	7	10	1	3	2	1	0	2	2	4	2	4	2	2	0	2	3	2	0	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:96130807G>A	uc003kmm.2	-	5	1204	c.857C>T	c.(856-858)GCG>GTG	p.A286V	ERAP1_uc003kml.2_Missense_Mutation_p.A286V|ERAP1_uc010jbm.1_Missense_Mutation_p.A98V|ERAP1_uc003kmn.2_Missense_Mutation_p.A286V	NM_001040458	NP_001035548	Q9NZ08	ERAP1_HUMAN	type 1 tumor necrosis factor receptor shedding	286	Lumenal (Potential).				angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)		AAGAGTCACCGCAGCATCCAG	0.378													5	37					0	0	0.000602	0	0		A	96130807	A	A	96130807	3	1	209	1	0	0	0	0	1	0	0	0	5211	1087	38	1	2061	1	ERAP1	5	96130807	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1278537	96130807	84784453	350	100765											
PAM	5066	broad.mit.edu	37	chr5	102285672	102285672	+	Missense_Mutation	SNP	A	C	C	1	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	gattggacggcagagccctcAgctgccacaggtgggtaaaa	11	6	14	10	1	1	1	1	0	0	1	1	3	1	2	2	4	3	3	2	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:102285672A>C	uc003knw.2	+	10	1164	c.791A>C	c.(790-792)CAG>CCG	p.Q264P	PAM_uc003kns.2_Missense_Mutation_p.Q264P|PAM_uc003knt.2_Missense_Mutation_p.Q264P|PAM_uc003knu.2_Missense_Mutation_p.Q264P|PAM_uc003knv.2_Missense_Mutation_p.Q264P|PAM_uc011cuz.1_Missense_Mutation_p.Q167P	NM_000919	NP_000910	P19021	AMD_HUMAN	peptidylglycine alpha-amidating monooxygenase	264	Peptidylglycine alpha-hydroxylating monooxygenase (By similarity).|Intragranular (Potential).				peptide metabolic process|protein modification process	extracellular region|integral to membrane|stored secretory granule	L-ascorbic acid binding|peptidylamidoglycolate lyase activity|peptidylglycine monooxygenase activity|protein binding				0		all_cancers(142;3.12e-07)|all_epithelial(76;3.48e-10)|Prostate(80;0.00914)|Lung NSC(167;0.0213)|Ovarian(225;0.024)|Colorectal(57;0.0251)|all_lung(232;0.0284)		Epithelial(69;1.1e-13)|COAD - Colon adenocarcinoma(37;0.0127)	Vitamin C(DB00126)	CAGAGCCCTCAGCTGCCACAG	0.323													8	39					0	0	0.008291	0	0		C	102285672	C	C	102285672	3	2	209	1	0	0	0	0	1	0	0	0	11431	188	7	5	829	5	PAM	5	102285672	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	6154865	102285672	78629588	351	100766											
RAD50	10111	broad.mit.edu	37	chr5	131931471	131931471	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taaaaaaaaaggaaaagcggCgtgatgaaatgctgggactt	18	7	12	4	2	0	2	0	2	0	0	0	4	0	4	0	3	2	1	0	3	8	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:131931471C>T	uc003kxi.2	+	13	2563	c.2176C>T	c.(2176-2178)CGT>TGT	p.R726C	RAD50_uc003kxh.2_Missense_Mutation_p.R587C	NM_005732	NP_005723	Q92878	RAD50_HUMAN	RAD50 homolog isoform 1	726	Zinc-hook.|Potential.				DNA duplex unwinding|double-strand break repair via homologous recombination|positive regulation of kinase activity|positive regulation of protein autophosphorylation|reciprocal meiotic recombination|regulation of mitotic recombination|telomere maintenance via telomerase	Mre11 complex|nuclear chromosome, telomeric region|nucleoplasm	ATP binding|DNA binding|nuclease activity|protein binding, bridging|zinc ion binding			lung(2)|ovary(1)|skin(1)	4		all_cancers(142;0.0368)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			GGAAAAGCGGCGTGATGAAAT	0.428								Homologous_recombination					21	61					0	0	0.010504	0	0		T	131931471	T	T	131931471	3	4	209	1	0	0	0	0	1	0	0	0	13009	768	27	1	2226	1	RAD50	5	131931471	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	29645799	131931471	48983789	352	100767											
C5orf20	140947	broad.mit.edu	37	chr5	134782702	134782702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccctgggaactctggggtttCcccaccagctcctctctcca	5	10	8	18	0	2	0	0	0	2	0	6	1	5	1	6	3	2	2	6	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:134782702C>T	uc003lav.2	-	1	337	c.97G>A	c.(97-99)GAA>AAA	p.E33K		NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1	33						nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			TCTGGGGTTTCCCCACCAGCT	0.592													3	15					0	0	0.009096	0	0		T	134782702	T	T	134782702	3	4	209	1	0	0	0	0	1	0	0	0	2287	864	30	4	641	4	C5orf20	5	134782702	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2851231	134782702	46132558	353	100768											
TGFBI	7045	broad.mit.edu	37	chr5	135391437	135391437	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtacgggaccctgttcacGatggaccgggtgctgacccc	7	7	14	13	3	1	1	1	1	0	0	1	4	1	3	4	4	2	3	4	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:135391437G>A	uc003lbf.3	+	11	1640	c.1479G>A	c.(1477-1479)ACG>ACA	p.T493T	TGFBI_uc003lbg.3_Silent_p.T226T|TGFBI_uc003lbh.3_Silent_p.T319T|TGFBI_uc011cyb.1_Silent_p.T319T|TGFBI_uc010jed.2_Silent_p.T226T	NM_000358	NP_000349	Q15582	BGH3_HUMAN	transforming growth factor, beta-induced, 68kDa	493	FAS1 3.				angiogenesis|cell adhesion|cell proliferation|negative regulation of cell adhesion|response to stimulus|visual perception	extracellular space|proteinaceous extracellular matrix	integrin binding			breast(3)|ovary(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CCCTGTTCACGATGGACCGGG	0.572													4	25					0	0	0.009096	0	0		A	135391437	A	A	135391437	2	1	209	1	0	0	0	0	0	0	0	1	15845	1045	37	1		1	TGFBI	5	135391437	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	608735	135391437	45523823	354	100769											
BRD8	10902	broad.mit.edu	37	chr5	137476521	137476521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggaattgggccatggtgCgaatccgacccttagagaga	11	7	14	9	2	0	2	0	0	0	2	1	6	1	3	3	3	1	1	3	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:137476521C>T	uc003lcf.1	-	26	3543	c.3488G>A	c.(3487-3489)CGC>CAC	p.R1163H	BRD8_uc003lcc.1_Intron|NME5_uc003lce.2_5'Flank	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	1163	Bromo 2.				cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GGCCATGGTGCGAATCCGACC	0.443													61	266					0	0	0.01441	0	0		T	137476521	T	T	137476521	3	4	209	1	0	0	0	0	1	0	0	0	1509	768	27	1	227	1	BRD8	5	137476521	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2085084	137476521	43438739	355	100770											
CDC25C	995	broad.mit.edu	37	chr5	137661709	137661709	+	Splice_Site	SNP	C	T	T	0	0	0	1	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	aaaaaaagagaggctactcaCtgggctacatttcattaggt	15	10	9	7	0	2	1	2	0	0	1	2	2	2	1	0	3	2	2	0	3	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:137661709C>T	uc003lcp.1	-	5	640	c.369_splice	c.e5+1	p.P123_splice	CDC25C_uc003lcq.1_Intron|CDC25C_uc003lcr.1_Splice_Site_p.P123_splice|CDC25C_uc011cyp.1_Splice_Site_p.P140_splice|CDC25C_uc003lcs.1_Splice_Site_p.P201_splice|CDC25C_uc010jet.1_Splice_Site_p.P123_splice|CDC25C_uc003lct.1_Intron|CDC25C_uc003lcu.1_Intron	NM_001790	NP_001781	P30307	MPIP3_HUMAN	cell division cycle 25C isoform a						cell cycle checkpoint|cell division|cell proliferation|DNA replication|G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of mitosis|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm	protein tyrosine phosphatase activity|WW domain binding			lung(3)	3			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			AGGCTACTCACTGGGCTACAT	0.448													8	89					0	0	0.00308	0	0		T	137661709	T	T	137661709	5	4	209	1	0	0	0	0	0	0	1	0	3067	579	20	4	1091	4	CDC25C	5	137661709	Splice_Site	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	185188	137661709	43253551	356	100771											
EGR1	1958	broad.mit.edu	37	chr5	137802862	137802862	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acccgcctcctgcctaccctGccgccaagggtggcttccag	5	7	10	19	2	0	0	0	0	0	0	2	0	2	0	8	2	3	1	8	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:137802862G>A	uc003ldb.1	+	2	994	c.724G>A	c.(724-726)GCC>ACC	p.A242T	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	242					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TGCCTACCCTGCCGCCAAGGG	0.647													18	82					0	0	0.00499	0	0		A	137802862	A	A	137802862	3	1	209	1	0	0	0	0	1	0	0	0	4977	1319	46	2	730	2	EGR1	5	137802862	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	141153	137802862	43112398	357	100772											
SLC4A9	83697	broad.mit.edu	37	chr5	139739839	139739839	+	Silent	SNP	A	C	C	1	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	ctcatggaaatgaagctgccAggccaggaagggtttgaagc	12	7	14	8	0	1	2	1	2	0	0	1	4	1	4	2	4	3	2	2	4	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:139739839A>C	uc003lfm.2	+	1	53	c.18A>C	c.(16-18)CCA>CCC	p.P6P	SLC4A9_uc003lfj.2_Silent_p.P6P|SLC4A9_uc011czg.1_Silent_p.P6P|SLC4A9_uc003lfl.2_Silent_p.P6P|SLC4A9_uc003lfk.2_Silent_p.P6P	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	6	Cytoplasmic (Potential).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGCTGCCAGGCCAGGAAG	0.557													5	23					0	0	0.001984	0	0		C	139739839	C	C	139739839	2	2	209	1	0	0	0	0	0	0	0	1	14685	175	7	5		5	SLC4A9	5	139739839	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1936977	139739839	41175421	358	100773											
PCDHA2	56146	broad.mit.edu	37	chr5	140174689	140174689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacggcaccttcgtgggccGcatcgcgcaggacctggggc	6	5	15	15	5	0	0	0	0	0	0	2	1	0	1	3	5	0	3	3	5	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140174689G>A	uc003lhd.2	+	1	246	c.140G>A	c.(139-141)CGC>CAC	p.R47H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.R47H|PCDHA2_uc011czy.1_Missense_Mutation_p.R47H	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	47	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTCGTGGGCCGCATCGCGCAG	0.682													29	105					0	0	0.00632	0	0		A	140174689	A	A	140174689	3	1	209	1	0	0	0	0	1	0	0	0	11543	1087	38	1	142	1	PCDHA2	5	140174689	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	434850	140174689	40740571	359	100774											
PCDHA2	56146	broad.mit.edu	37	chr5	140176040	140176040	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcctactcgctggtggagcgGcgggtgggcgagcgcgcgtt	3	8	19	11	7	0	0	0	0	0	0	2	2	1	1	1	5	3	2	1	5	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140176040G>A	uc003lhd.2	+	1	1597	c.1491G>A	c.(1489-1491)CGG>CGA	p.R497R	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Silent_p.R497R|PCDHA2_uc011czy.1_Silent_p.R497R	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	497	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGAGCGGCGGGTGGGCG	0.672													14	103					0	0	0.003163	0	0		A	140176040	A	A	140176040	2	1	209	1	0	0	0	0	0	0	0	1	11543	1190	42	2		2	PCDHA2	5	140176040	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1351	140176040	40739220	360	100775											
PCDHA3	56145	broad.mit.edu	37	chr5	140182244	140182244	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcggacgcgcaggagaacGccctggtgtcctactcgctg	7	6	14	14	6	0	1	0	0	0	1	2	3	1	2	2	3	2	2	2	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140182244G>A	uc003lhf.2	+	1	1462	c.1462G>A	c.(1462-1464)GCC>ACC	p.A488T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.A488T	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	488	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGGAGAACGCCCTGGTGTC	0.662													12	151					0	0	0.004007	0	0		A	140182244	A	A	140182244	3	1	209	1	0	0	0	0	1	0	0	0	11544	1087	38	1	1464	1	PCDHA3	5	140182244	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6204	140182244	40733016	361	100776											
PCDHA5	56143	broad.mit.edu	37	chr5	140203136	140203136	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgggccacgtggtggcgaaGgtgcgcgcagtggaccctga	6	5	19	11	5	0	1	0	1	0	0	0	3	0	2	2	5	1	1	2	5	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140203136G>A	uc003lhl.2	+	1	1776	c.1776G>A	c.(1774-1776)AAG>AAA	p.K592K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Silent_p.K592K|PCDHA5_uc003lhj.1_Silent_p.K592K	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	592	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGTGGCGAAGGTGCGCGCAG	0.697													28	76					0	0	0.013726	0	0		A	140203136	A	A	140203136	2	1	209	1	0	0	0	0	0	0	0	1	11546	991	35	4		4	PCDHA5	5	140203136	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	20892	140203136	40712124	362	100777											
PCDHA6	56142	broad.mit.edu	37	chr5	140208845	140208845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcaggtgaactgctcgctgaCgcctcacgtccctttcaagc	7	9	10	15	3	2	2	2	2	0	0	4	2	3	2	2	1	3	3	2	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140208845C>T	uc003lho.2	+	1	1196	c.1169C>T	c.(1168-1170)ACG>ATG	p.T390M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Missense_Mutation_p.T390M|PCDHA6_uc011dab.1_Missense_Mutation_p.T390M	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	390	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTCGCTGACGCCTCACGTC	0.552													56	187					0	0	0.01441	0	0		T	140208845	T	T	140208845	3	4	209	1	0	0	0	0	1	0	0	0	11547	536	19	1	1171	1	PCDHA6	5	140208845	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5709	140208845	40706415	363	100778											
PCDHA8	56140	broad.mit.edu	37	chr5	140223022	140223022	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgatcatcgccatctgcGcggtatccagcctgctggtg	6	10	11	14	3	2	1	1	1	1	0	4	1	3	1	4	2	3	2	4	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140223022G>A	uc003lhs.2	+	1	2116	c.2116G>A	c.(2116-2118)GCG>ACG	p.A706T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Missense_Mutation_p.A706T	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	706	Helical; (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCCATCTGCGCGGTATCCAG	0.657													24	92					0	0	0.003954	0	0		A	140223022	A	A	140223022	3	1	209	1	0	0	0	0	1	0	0	0	11549	1087	38	1	2118	1	PCDHA8	5	140223022	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	14177	140223022	40692238	364	100779											
PCDHA10	56139	broad.mit.edu	37	chr5	140237301	140237301	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgcaggtgttcgtgctggaCgagaacgacaacgctcccgc	8	7	13	13	5	0	1	0	0	0	1	2	4	1	2	1	2	4	4	1	2	2	1	rs139533789	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140237301C>T	uc003lhx.2	+	1	1668	c.1668C>T	c.(1666-1668)GAC>GAT	p.D556D	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc011dad.1_Silent_p.D556D	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	556	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCGTGCTGGACGAGAACGACA	0.687													15	93					0	0	0.004007	0	0		T	140237301	T	T	140237301	2	4	209	1	0	0	0	0	0	0	0	1	11539	535	19	1		1	PCDHA10	5	140237301	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	14279	140237301	40677959	365	100780											
PCDHA13	56136	broad.mit.edu	37	chr5	140263462	140263462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttgcagttccaggtgagcGcgcgcgactctggcgtgccg	4	9	16	12	6	1	1	0	1	1	0	2	2	2	1	2	2	3	3	2	2	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140263462G>A	uc003lif.2	+	1	1609	c.1609G>A	c.(1609-1611)GCG>ACG	p.A537T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A537T|PCDHA13_uc003lid.2_Missense_Mutation_p.A537T	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	537	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGGTGAGCGCGCGCGACTC	0.682													33	185					0	0	0.005524	0	0		A	140263462	A	A	140263462	3	1	209	1	0	0	0	0	1	0	0	0	11542	1087	38	1	1611	1	PCDHA13	5	140263462	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	26161	140263462	40651798	366	100781											
PCDHA13	56136	broad.mit.edu	37	chr5	140263782	140263782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggacgaggtggacgcgccGcaccaccgccttctggtgct	5	7	14	15	5	1	0	0	0	1	0	1	3	1	2	4	4	1	2	4	4	0	1	rs146010500		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140263782G>A	uc003lif.2	+	1	1929	c.1929G>A	c.(1927-1929)CCG>CCA	p.P643P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.P643P|PCDHA13_uc003lid.2_Silent_p.P643P	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	643	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGACGCGCCGCACCACCGCC	0.701													19	96					0	0	0.012319	0	0		A	140263782	A	A	140263782	2	1	209	1	0	0	0	0	0	0	0	1	11542	1074	38	1		1	PCDHA13	5	140263782	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	320	140263782	40651478	367	100782											
PCDHB3	56132	broad.mit.edu	37	chr5	140481823	140481823	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgcaggcgttcgagttccgCgtgggcgccacagaccgtgg	5	7	16	13	6	0	1	0	0	0	1	2	2	1	1	3	3	1	3	3	3	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140481823C>T	uc003lio.2	+	1	1590	c.1590C>T	c.(1588-1590)CGC>CGT	p.R530R	uc003lin.2_5'Flank	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	530	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGAGTTCCGCGTGGGCGCCA	0.667													11	118					0	0	0.001855	0	0		T	140481823	T	T	140481823	2	4	209	1	0	0	0	0	0	0	0	1	11562	755	27	1		1	PCDHB3	5	140481823	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	218041	140481823	40433437	368	100783											
PCDHB6	56130	broad.mit.edu	37	chr5	140530412	140530412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcgaaggcaggaagttcccgGagctggtgctagacaaaccg	11	5	15	10	3	0	1	0	0	0	1	1	4	1	3	2	4	3	4	2	4	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140530412G>A	uc003lir.2	+	1	574	c.574G>A	c.(574-576)GAG>AAG	p.E192K	PCDHB6_uc011dah.1_Missense_Mutation_p.E56K	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	192	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAAGTTCCCGGAGCTGGTGCT	0.617													29	154					0	0	0.007291	0	0		A	140530412	A	A	140530412	3	1	209	1	0	0	0	0	1	0	0	0	11565	1175	41	4	576	4	PCDHB6	5	140530412	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	48589	140530412	40384848	369	100784											
PCDHB6	56130	broad.mit.edu	37	chr5	140531180	140531180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgtcaatgacaacgtccccGccttcacccaaacctcctac	11	7	4	19	3	2	1	2	1	0	0	4	1	4	1	6	0	3	0	6	0	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140531180G>A	uc003lir.2	+	1	1342	c.1342G>A	c.(1342-1344)GCC>ACC	p.A448T	PCDHB6_uc011dah.1_Missense_Mutation_p.A312T	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	448	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAACGTCCCCGCCTTCACCCA	0.567													47	181					0	0	0.01441	0	0		A	140531180	A	A	140531180	3	1	209	1	0	0	0	0	1	0	0	0	11565	1087	38	1	1344	1	PCDHB6	5	140531180	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	768	140531180	40384080	370	100785											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712198	140712198	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggtggccgtccaggaccaCggccagcccccgctctccgc	4	5	13	19	4	1	0	0	0	1	0	3	1	2	1	7	4	1	1	7	4	0	0	rs138362456		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140712198C>T	uc003lji.1	+	1	1947	c.1947C>T	c.(1945-1947)CAC>CAT	p.H649H	PCDHGA1_uc011dan.1_Silent_p.H649H	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	649	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCCAGGACCACGGCCAGCCCC	0.706													24	83					0	0	0.00333	0	0		T	140712198	T	T	140712198	2	4	209	1	0	0	0	0	0	0	0	1	11569	535	19	1		1	PCDHGA1	5	140712198	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	181018	140712198	40203062	371	100786											
PCDHGA1	56114	broad.mit.edu	37	chr5	140712241	140712241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcacgctcaccgtggccGtggccgacaggatctccgac	6	7	12	16	5	3	0	2	0	1	0	4	3	3	1	4	3	0	1	4	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140712241G>A	uc003lji.1	+	1	1990	c.1990G>A	c.(1990-1992)GTG>ATG	p.V664M	PCDHGA1_uc011dan.1_Missense_Mutation_p.V664M	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	664	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CACCGTGGCCGTGGCCGACAG	0.682													20	76					0	0	0.010504	0	0		A	140712241	A	A	140712241	3	1	209	1	0	0	0	0	1	0	0	0	11569	1145	40	1	1992	1	PCDHGA1	5	140712241	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	43	140712241	40203019	372	100787											
PCDHGA2	56113	broad.mit.edu	37	chr5	140719675	140719675	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatagagactctgggcagaaCgcattcaccacctgttcact	11	9	9	12	1	3	2	2	0	1	2	3	4	3	2	2	1	1	3	2	1	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140719675C>T	uc003ljk.1	+	1	1322	c.1137C>T	c.(1135-1137)AAC>AAT	p.N379N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Silent_p.N379N	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	379	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGGCAGAACGCATTCACCA	0.433													29	77					0	0	0.005443	0	0		T	140719675	T	T	140719675	2	4	209	1	0	0	0	0	0	0	0	1	11573	535	19	1		1	PCDHGA2	5	140719675	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7434	140719675	40195585	373	100788											
PCDHGB3	56102	broad.mit.edu	37	chr5	140751770	140751770	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gactcgggatacaacgcctgGctgtcctaccacattgtgca	9	9	10	13	2	0	0	0	0	0	0	2	2	1	1	3	2	4	2	3	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140751770G>A	uc003ljw.1	+	1	1809	c.1809G>A	c.(1807-1809)TGG>TGA	p.W603*	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Nonsense_Mutation_p.W603*|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	603	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAACGCCTGGCTGTCCTACC	0.667													19	100					0	0	0.008871	0	0		A	140751770	A	A	140751770	4	1	209	1	0	0	0	0	0	1	0	0	11583	1212	42	2	1811	2	PCDHGB3	5	140751770	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	32095	140751770	40163490	374	100789											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763761	140763761	+	Missense_Mutation	SNP	T	C	C	0	1	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	agatggtggaactcctccctTgtccagggaaactcacatat	11	10	9	11	0	1	1	1	0	0	1	4	3	4	3	3	3	2	0	3	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140763761T>C	uc003lka.1	+	1	1295	c.1295T>C	c.(1294-1296)TTG>TCG	p.L432S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.L432S	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	432	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACTCCTCCCTTGTCCAGGGAA	0.463													6	38					0	0	0.001168	0	0		C	140763761	C	C	140763761	3	2	209	1	0	0	0	0	1	0	0	0	11578	1821	63	3	1297	3	PCDHGA7	5	140763761	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	11991	140763761	40151499	375	100790											
PCDHGA7	56108	broad.mit.edu	37	chr5	140764588	140764588	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgtcttcctagccttcGtcctcgtactgctggcgctc	2	13	9	17	4	1	0	0	0	1	0	6	0	3	0	4	1	4	3	4	1	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140764588G>A	uc003lka.1	+	1	2122	c.2122G>A	c.(2122-2124)GTC>ATC	p.V708I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGB4_uc003lkc.1_5'Flank|PCDHGA7_uc003ljz.1_Missense_Mutation_p.V708I|PCDHGB4_uc011dav.1_5'Flank	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	708	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTAGCCTTCGTCCTCGTACT	0.627													22	58					0	0	0.010504	0	0		A	140764588	A	A	140764588	3	1	209	1	0	0	0	0	1	0	0	0	11578	1145	40	1	2124	1	PCDHGA7	5	140764588	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	827	140764588	40150672	376	100791											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769384	140769384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcgccttctggtcgccgtgCgtgacggtggacagccacca	6	7	14	14	5	1	1	0	1	1	0	2	2	1	2	4	3	3	0	4	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140769384C>T	uc003lkc.1	+	1	1933	c.1933C>T	c.(1933-1935)CGT>TGT	p.R645C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.R645C	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	645	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTCGCCGTGCGTGACGGTGG	0.697													13	51					0	0	0.001855	0	0		T	140769384	T	T	140769384	3	4	209	1	0	0	0	0	1	0	0	0	11584	768	27	1	1935	1	PCDHGB4	5	140769384	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4796	140769384	40145876	377	100792											
PCDHGC4	56098	broad.mit.edu	37	chr5	140866576	140866576	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtttcctatcagctcctggaGgccccagatcccagcctgtt	6	11	9	15	0	1	1	1	0	0	1	4	2	4	2	6	2	2	3	6	2	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:140866576G>T	uc003lky.1	+	1	1836	c.1836G>T	c.(1834-1836)GAG>GAT	p.E612D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.E612D|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	612	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTCCTGGAGGCCCCAGATC	0.557													5	50					0.00116845	0.00121268	0.001168	1	0		T	140866576	T	T	140866576	3	4	209	1	0	0	0	0	1	0	0	0	11589	991	35	5	1838	5	PCDHGC4	5	140866576	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	97192	140866576	40048684	378	100793											
JAKMIP2	9832	broad.mit.edu	37	chr5	147024421	147024421	+	Missense_Mutation	SNP	A	T	T	1	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	tgtgatacacaccatttctgAattttccttggtaacggctt	9	16	7	9	1	1	2	0	2	1	0	2	2	2	2	2	2	2	2	2	2	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:147024421A>T	uc003loq.1	-	6	1457	c.1075T>A	c.(1075-1077)TCA>ACA	p.S359T	JAKMIP2_uc011dbx.1_Missense_Mutation_p.S317T|JAKMIP2_uc003lor.1_Missense_Mutation_p.S359T|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.S359T	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	359	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCATTTCTGAATTTTCCTTG	0.398													18	110					0	0	0.007413	0	0		T	147024421	T	T	147024421	3	4	209	1	0	0	0	0	1	0	0	0	7957	246	9	5	1421	5	JAKMIP2	5	147024421	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	6157845	147024421	33890839	379	100794											
FBXO38	81545	broad.mit.edu	37	chr5	147781951	147781951	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagttggtagaatccatttGgacatatatgccccatgttc	10	13	10	8	0	0	1	0	0	0	1	2	3	1	3	3	3	1	3	3	3	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:147781951G>A	uc003lpf.1	+	5	587	c.467G>A	c.(466-468)TGG>TAG	p.W156*	FBXO38_uc003lpg.1_Nonsense_Mutation_p.W156*|FBXO38_uc003lph.2_Nonsense_Mutation_p.W156*	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	156						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAATCCATTTGGACATATATG	0.363													16	83					0	0	0.004007	0	0		A	147781951	A	A	147781951	4	1	209	1	0	0	0	0	0	1	0	0	5760	1357	47	4	481	4	FBXO38	5	147781951	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	757530	147781951	33133309	380	100795											
FBXO38	81545	broad.mit.edu	37	chr5	147807059	147807059	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtaaggacggtgaacagcggCggctcttccgagcctagccc	8	6	14	13	4	1	1	0	1	1	0	2	3	2	2	3	4	4	2	3	4	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:147807059C>T	uc003lpf.1	+	15	2322	c.2202C>T	c.(2200-2202)GGC>GGT	p.G734G	FBXO38_uc003lpg.1_Silent_p.G734G|FBXO38_uc003lph.2_Intron	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	734						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAACAGCGGCGGCTCTTCCG	0.607													10	65					0	0	0.006214	0	0		T	147807059	T	T	147807059	2	4	209	1	0	0	0	0	0	0	0	1	5760	755	27	1		1	FBXO38	5	147807059	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	25108	147807059	33108201	381	100796											
TNIP1	10318	broad.mit.edu	37	chr5	150436492	150436492	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgcagcatcaggttgccGtcctcacggggcagggggcc	6	6	17	12	2	2	0	2	0	0	0	3	0	3	0	3	6	3	4	3	6	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:150436492G>A	uc003ltf.2	-	6	1051	c.462C>T	c.(460-462)GAC>GAT	p.D154D	TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Silent_p.D154D|TNIP1_uc010jhn.2_Silent_p.D154D|TNIP1_uc011dco.1_Silent_p.D154D|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Silent_p.D154D|TNIP1_uc003ltg.2_Silent_p.D101D|TNIP1_uc003ltj.2_Silent_p.D154D|TNIP1_uc010jho.1_RNA|TNIP1_uc010jhq.1_Silent_p.D101D|TNIP1_uc010jhp.1_Silent_p.D101D|TNIP1_uc010jhr.1_Silent_p.D154D|TNIP1_uc003ltk.2_Silent_p.D154D	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	154	Interacts with Nef.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCAGGTTGCCGTCCTCACGGG	0.682													6	34					0	0	0.001168	0	0		A	150436492	A	A	150436492	2	1	209	1	0	0	0	0	0	0	0	1	16339	1136	40	1		1	TNIP1	5	150436492	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2629433	150436492	30478768	382	100797											
GRIA1	2890	broad.mit.edu	37	chr5	153078486	153078486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgagggcaatgaccgttaCgagggctactgtgtagagct	9	11	14	7	2	0	3	0	2	0	1	0	4	0	3	1	2	3	5	1	2	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:153078486C>T	uc003lva.3	+	10	1670	c.1305C>T	c.(1303-1305)TAC>TAT	p.Y435Y	GRIA1_uc003luy.3_Silent_p.Y435Y|GRIA1_uc003luz.3_Silent_p.Y340Y|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Silent_p.Y355Y|GRIA1_uc011dcx.1_Silent_p.Y366Y|GRIA1_uc011dcy.1_Silent_p.Y445Y|GRIA1_uc011dcz.1_Silent_p.Y445Y|GRIA1_uc010jia.1_Silent_p.Y415Y	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	435	Extracellular (Potential).				synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	ATGACCGTTACGAGGGCTACT	0.517													22	71					0	0	0.014323	0	0		T	153078486	T	T	153078486	2	4	209	1	0	0	0	0	0	0	0	1	6783	547	19	1		1	GRIA1	5	153078486	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2641994	153078486	27836774	383	100798											
CYFIP2	26999	broad.mit.edu	37	chr5	156816266	156816266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtggcctgtccatgttcGaggtcatcctgacccgcatt	5	12	11	13	2	1	1	1	1	0	0	4	2	3	1	4	2	0	3	4	2	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:156816266G>A	uc003lwq.2	+	31	3415	c.3277G>A	c.(3277-3279)GAG>AAG	p.E1093K	CYFIP2_uc011ddn.1_Missense_Mutation_p.E1067K|CYFIP2_uc011ddo.1_Missense_Mutation_p.E897K|CYFIP2_uc003lwr.2_Missense_Mutation_p.E1093K|CYFIP2_uc003lws.2_Missense_Mutation_p.E1093K|CYFIP2_uc003lwt.2_Missense_Mutation_p.E996K|CYFIP2_uc011ddp.1_Missense_Mutation_p.E827K|CYFIP2_uc003lwv.2_Missense_Mutation_p.E48K	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1118					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTCCATGTTCGAGGTCATCCT	0.597													14	68					0	0	0.00499	0	0		A	156816266	A	A	156816266	3	1	209	1	0	0	0	0	1	0	0	0	4141	1059	37	1	3387	1	CYFIP2	5	156816266	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3737780	156816266	24098994	384	100799											
ADAM19	8728	broad.mit.edu	37	chr5	156915311	156915311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgcggggggaattggccGgcttggaggaggcctcctgg	4	8	21	8	2	0	0	0	0	0	0	1	3	1	3	3	10	1	1	3	10	1	2	rs146453088	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:156915311G>A	uc003lwz.2	-	21	2576	c.2512C>T	c.(2512-2514)CGG>TGG	p.R838W	ADAM19_uc003lww.1_Missense_Mutation_p.R571W|ADAM19_uc003lwy.2_Missense_Mutation_p.R437W|ADAM19_uc011ddr.1_Missense_Mutation_p.R769W	NM_033274	NP_150377	Q9H013	ADA19_HUMAN	ADAM metallopeptidase domain 19 preproprotein	838	Cytoplasmic (Potential).|SH3-binding (Potential).|SH3-binding (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			ovary(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8	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)			GGAATTGGCCGGCTTGGAGGA	0.572													55	155					0	0	0.01441	0	0		A	156915311	A	A	156915311	3	1	209	1	0	0	0	0	1	0	0	0	240	1115	39	1	256	1	ADAM19	5	156915311	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	99045	156915311	23999949	385	100800											
ATP10B	23120	broad.mit.edu	37	chr5	160042879	160042879	+	Silent	SNP	A	G	G	1	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	tgattctccagatgctgtgcAgtttccatgagaagctcatc	9	13	9	10	0	2	3	1	2	1	2	5	4	3	3	2	0	3	4	2	0	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:160042879A>G	uc003lym.1	-	17	3466	c.2619T>C	c.(2617-2619)ACT>ACC	p.T873T	ATP10B_uc010jit.1_Silent_p.T190T|ATP10B_uc003lyn.2_Silent_p.T431T	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	873	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GATGCTGTGCAGTTTCCATGA	0.483													23	79					0	0	0.014323	0	0		G	160042879	G	G	160042879	2	3	209	1	0	0	0	0	0	0	0	1	1118	175	7	3		3	ATP10B	5	160042879	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	3127568	160042879	20872381	386	100801											
ODZ2	57451	broad.mit.edu	37	chr5	167420177	167420177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcttggctattttgctggcGtatttcataggtaagtcagg	7	16	11	7	1	3	0	2	0	1	0	3	0	3	0	0	4	1	4	0	4	4	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:167420177G>A	uc010jjd.2	+	5	1176	c.1176G>A	c.(1174-1176)GCG>GCA	p.A392A	ODZ2_uc003lzq.2_Silent_p.A271A|ODZ2_uc003lzr.3_Silent_p.A201A	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		TTTTGCTGGCGTATTTCATAG	0.537													9	49					0	0	0.004482	0	0		A	167420177	A	A	167420177	2	1	209	1	0	0	0	0	0	0	0	1	10854	1132	40	1		1	ODZ2	5	167420177	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7377298	167420177	13495083	387	100802											
FBXW11	23291	broad.mit.edu	37	chr5	171305054	171305054	+	Missense_Mutation	SNP	T	A	A	0	1	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	agccagttacaatgacacgcTcatcatactgcagacagagg	14	7	9	11	1	2	3	2	1	0	2	2	3	2	3	1	1	4	3	1	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:171305054T>A	uc003mbm.1	-	7	1240	c.869A>T	c.(868-870)GAG>GTG	p.E290V	FBXW11_uc011dey.1_Missense_Mutation_p.E258V|FBXW11_uc003mbl.1_Missense_Mutation_p.E277V|FBXW11_uc003mbn.1_Missense_Mutation_p.E256V	NM_012300	NP_036432	Q9UKB1	FBW1B_HUMAN	F-box and WD repeat domain containing 11 isoform	290	WD 2.				cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of circadian rhythm|positive regulation of proteolysis|positive regulation of transcription, DNA-dependent|protein dephosphorylation|protein destabilization|protein polyubiquitination|rhythmic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	centrosome|cytosol|nucleus|SCF ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)|breast(1)	2	Renal(175;0.000159)|Lung NSC(126;0.00384)|all_lung(126;0.00659)	Medulloblastoma(196;0.00853)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AATGACACGCTCATCATACTG	0.438													14	45					0	0	0.001855	0	0		A	171305054	A	A	171305054	3	1	209	1	0	0	0	0	1	0	0	0	5778	1551	54	5	783	5	FBXW11	5	171305054	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	3884877	171305054	9610206	388	100803											
CPEB4	80315	broad.mit.edu	37	chr5	173378931	173378931	+	Silent	SNP	A	G	G	1	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	gttggtggtgttcctcgaccAttacgagctggtatgattaa	8	14	12	7	2	0	1	0	1	0	0	2	3	1	1	2	3	2	4	2	3	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:173378931A>G	uc003mcs.3	+	8	3176	c.1770A>G	c.(1768-1770)CCA>CCG	p.P590P	CPEB4_uc010jju.1_Silent_p.P565P|CPEB4_uc010jjv.2_Silent_p.P573P|CPEB4_uc011dfg.1_Silent_p.P565P|CPEB4_uc003mct.3_Silent_p.P200P|CPEB4_uc003mcu.3_Silent_p.P183P	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	590	RRM 2.						nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			TTCCTCGACCATTACGAGCTG	0.403													5	44					0	0	0.000602	0	0		G	173378931	G	G	173378931	2	3	209	1	0	0	0	0	0	0	0	1	3806	204	8	3		3	CPEB4	5	173378931	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2073877	173378931	7536329	389	100804											
N4BP3	23138	broad.mit.edu	37	chr5	177546741	177546741	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccggaagggcttgggccagCgtgagttcctcagctacctg	6	9	14	12	2	1	1	1	1	0	0	3	2	3	2	4	3	3	3	4	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:177546741C>T	uc003mik.1	+	2	404	c.157C>T	c.(157-159)CGT>TGT	p.R53C	N4BP3_uc003mil.1_5'Flank	NM_015111	NP_055926	O15049	N4BP3_HUMAN	Nedd4 binding protein 3	53						cytoplasmic vesicle membrane					0	all_cancers(89;0.00294)|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)			CTTGGGCCAGCGTGAGTTCCT	0.662													19	127					0	0	0.008871	0	0		T	177546741	T	T	177546741	3	4	209	1	0	0	0	0	1	0	0	0	10131	768	27	1	159	1	N4BP3	5	177546741	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4167810	177546741	3368519	390	100805											
ZNF354C	30832	broad.mit.edu	37	chr5	178505905	178505905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaccatcagtgaagatGgaaaccatacaagtcttgaa	19	7	8	7	0	2	4	1	2	1	2	2	5	2	5	2	1	3	0	2	1	7	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:178505905G>A	uc003mju.2	+	5	587	c.472G>A	c.(472-474)GGA>AGA	p.G158R		NM_014594	NP_055409	Q86Y25	Z354C_HUMAN	zinc finger protein 354C	158					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	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)		CAGTGAAGATGGAAACCATAC	0.373													16	71					0	0	0.00499	0	0		A	178505905	A	A	178505905	3	1	209	1	0	0	0	0	1	0	0	0	17891	1349	47	4	486	4	ZNF354C	5	178505905	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	959164	178505905	2409355	391	100806											
GFPT2	9945	broad.mit.edu	37	chr5	179739447	179739447	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	taccaggtaaagatctcaagCcacggatgatctcttgcctc	11	10	8	12	1	2	2	1	1	2	1	5	3	2	3	3	2	3	1	3	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr5:179739447C>A	uc003mlw.1	-	15	1627	c.1529G>T	c.(1528-1530)GGC>GTC	p.G510V		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	510					dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	AGATCTCAAGCCACGGATGAT	0.438													13	51					1.05317e-09	1.15841e-09	0.00245	1	0		A	179739447	A	A	179739447	3	1	209	1	0	0	0	0	1	0	0	0	6361	739	26	5	539	5	GFPT2	5	179739447	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1233542	179739447	1175813	392	100807											
WRNIP1	56897	broad.mit.edu	37	chr6	2783645	2783645	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctttgtgatgtcaggtgagGagcattacaactgcatctcc	9	13	10	9	0	3	2	1	2	2	0	4	3	3	3	1	2	4	2	1	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:2783645G>A	uc003mtz.2	+	5	1683	c.1492G>A	c.(1492-1494)GAG>AAG	p.E498K	WRNIP1_uc003mua.2_Missense_Mutation_p.E473K	NM_020135	NP_064520	Q96S55	WRIP1_HUMAN	Werner helicase interacting protein isoform 1	498					DNA replication|DNA synthesis involved in DNA repair|regulation of DNA-dependent DNA replication initiation	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|DNA binding|metal ion binding|protein binding			ovary(1)|pancreas(1)	2	Ovarian(93;0.0412)	all_hematologic(90;0.0895)				GTCAGGTGAGGAGCATTACAA	0.597													9	23					0	0	0.006214	0	0		A	2783645	A	A	2783645	3	1	209	1	0	0	0	0	1	0	0	0	17429	1175	41	4	1510	4	WRNIP1	6	2783645	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		2783645	168331422	393	100808											
DSP	1832	broad.mit.edu	37	chr6	7565702	7565702	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggaggaggagctgctgtaCgactggagcgacaagaacac	13	4	16	8	2	0	1	0	0	0	1	0	8	0	5	0	4	5	3	0	4	3	1	rs149701627		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:7565702C>T	uc003mxp.1	+	7	1167	c.888C>T	c.(886-888)TAC>TAT	p.Y296Y	DSP_uc003mxq.1_Silent_p.Y296Y	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	296	Globular 1.|Interacts with plakophilin 1 and junction plakoglobin.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AGCTGCTGTACGACTGGAGCG	0.547													19	65					0	0	0.007413	0	0		T	7565702	T	T	7565702	2	4	209	1	0	0	0	0	0	0	0	1	4787	547	19	1		1	DSP	6	7565702	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4782057	7565702	163549365	394	100809											
DSP	1832	broad.mit.edu	37	chr6	7569492	7569492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtggtacgtgacgggccCgggaggcgttgacatgcttg	7	8	17	9	4	0	2	0	2	0	0	0	3	0	3	1	4	2	3	1	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:7569492C>T	uc003mxp.1	+	12	1772	c.1493C>T	c.(1492-1494)CCG>CTG	p.P498L	DSP_uc003mxq.1_Missense_Mutation_p.P498L	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	498	Globular 1.|Interacts with plakophilin 1 and junction plakoglobin.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GTGACGGGCCCGGGAGGCGTT	0.562													33	73					0	0	0.010818	0	0		T	7569492	T	T	7569492	3	4	209	1	0	0	0	0	1	0	0	0	4787	652	23	1	1539	1	DSP	6	7569492	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3790	7569492	163545575	395	100810											
NHLRC1	378884	broad.mit.edu	37	chr6	18122100	18122100	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgaaggaccccttccgcGaagtcgacgtccaggaggtg	8	6	13	14	5	0	0	0	0	0	0	4	5	3	2	5	3	0	0	5	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:18122100G>A	uc003ncl.1	-	1	752	c.738C>T	c.(736-738)TTC>TTT	p.F246F		NM_198586	NP_940988	Q6VVB1	NHLC1_HUMAN	NHL repeat containing 1	246					proteasomal ubiquitin-dependent protein catabolic process|protein polyubiquitination	endoplasmic reticulum|nucleus	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0	Ovarian(93;0.016)|Breast(50;0.0245)	all_hematologic(90;0.165)	all cancers(50;0.0451)|Epithelial(50;0.0493)			CCCCTTCCGCGAAGTCGACGT	0.602													14	57					0	0	0.00245	0	0		A	18122100	A	A	18122100	2	1	209	1	0	0	0	0	0	0	0	1	10424	1049	37	1		1	NHLRC1	6	18122100	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	10552608	18122100	152992967	396	100811											
ZNF391	346157	broad.mit.edu	37	chr6	27368577	27368577	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttttgaatgcaacaaatgtgGgaaatctttcagccgaagta	14	12	9	6	1	2	1	1	1	1	0	2	3	2	2	1	1	3	2	1	1	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:27368577G>T	uc003njf.1	+	3	946	c.428G>T	c.(427-429)GGG>GTG	p.G143V		NM_001076781	NP_001070249	Q9UJN7	ZN391_HUMAN	zinc finger protein 391	143	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(2)|skin(1)	3						AACAAATGTGGGAAATCTTTC	0.383													13	112					7.93312e-07	8.57013e-07	0.00245	1	0		T	27368577	T	T	27368577	3	4	209	1	0	0	0	0	1	0	0	0	17904	1232	43	5	430	5	ZNF391	6	27368577	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	9246477	27368577	143746490	397	100812											
ZNF165	7718	broad.mit.edu	37	chr6	28053571	28053571	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaccatcctgccaggagatTtgcaggcctgggtacatgaa	10	9	12	10	0	0	3	0	2	0	1	1	4	1	3	4	3	3	2	4	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:28053571T>C	uc003nkg.2	+	3	1397	c.313T>C	c.(313-315)TTG>CTG	p.L105L	ZNF165_uc003nkh.2_Silent_p.L105L|ZNF165_uc003nki.3_Silent_p.L105L	NM_003447	NP_003438	P49910	ZN165_HUMAN	zinc finger protein 165	105	SCAN box.				viral reproduction	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCCAGGAGATTTGCAGGCCTG	0.522													9	45					0	0	0.004482	0	0		C	28053571	C	C	28053571	2	2	209	1	0	0	0	0	0	0	0	1	17765	1838	64	3		3	ZNF165	6	28053571	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	684994	28053571	143061496	398	100813											
GABBR1	2550	broad.mit.edu	37	chr6	29595419	29595419	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccccgatgtacactgcgcgCcgttctgaggaggggtgcgg	5	7	17	12	5	1	1	0	1	1	0	1	3	1	2	3	4	3	2	3	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:29595419C>T	uc003nmt.3	-	6	837	c.501G>A	c.(499-501)CGG>CGA	p.R167R	GABBR1_uc003nmp.3_Silent_p.R50R|GABBR1_uc003nms.3_Silent_p.R50R|GABBR1_uc003nmu.3_Silent_p.R105R|GABBR1_uc011dlr.1_5'UTR|GABBR1_uc011dls.1_Silent_p.R167R	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	167	Extracellular (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	ACACTGCGCGCCGTTCTGAGG	0.711													3	4					0	0	0.009096	0	0		T	29595419	T	T	29595419	2	4	209	1	0	0	0	0	0	0	0	1	6169	726	26	2		2	GABBR1	6	29595419	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1541848	29595419	141519648	399	100814											
TRIM10	10107	broad.mit.edu	37	chr6	30122079	30122079	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccccatgggccaggtcTatactcaccacccacgtgtg	7	8	9	17	1	2	0	1	0	1	0	2	0	2	0	5	2	2	0	5	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:30122079T>C	uc003npo.3	-	7	1189	c.1113A>G	c.(1111-1113)ATA>ATG	p.I371M	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	tripartite motif-containing 10 isoform 1	371	B30.2/SPRY.					cytoplasm	zinc ion binding				0						GGGCCAGGTCTATACTCACCA	0.657													3	37					0	0	0.004672	0	0		C	30122079	C	C	30122079	3	2	209	1	0	0	0	0	1	0	0	0	16512	1512	53	3	424	3	TRIM10	6	30122079	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	526660	30122079	140992988	400	100815											
TRIM39	56658	broad.mit.edu	37	chr6	30309680	30309680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgggaggtggaggtgggcGacaagacccactgggcagtg	9	5	19	8	1	0	1	0	0	0	1	0	4	0	3	1	6	0	1	1	6	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:30309680G>A	uc010jrz.2	+	9	1513	c.1201G>A	c.(1201-1203)GAC>AAC	p.D401N	TRIM39_uc003npz.2_Missense_Mutation_p.D371N|TRIM39_uc003nqb.2_Missense_Mutation_p.D371N|TRIM39_uc003nqc.2_Missense_Mutation_p.D371N|TRIM39_uc010jsa.1_Intron	NM_021253	NP_067076	Q9HCM9	TRI39_HUMAN	tripartite motif-containing 39 isoform 1	401	B30.2/SPRY.				apoptosis	cytosol|mitochondrion	identical protein binding|zinc ion binding			ovary(3)	3						GGAGGTGGGCGACAAGACCCA	0.612													10	49					0	0	0.008291	0	0		A	30309680	A	A	30309680	3	1	209	1	0	0	0	0	1	0	0	0	16539	1058	37	1	1227	1	TRIM39	6	30309680	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	187601	30309680	140805387	401	100816											
C6orf136	221545	broad.mit.edu	37	chr6	30617508	30617508	+	Silent	SNP	A	G	G	1	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	atccaggccctcagctcagcAtgggtggttctccctccagg	6	9	11	15	0	3	0	2	0	1	0	6	0	5	0	4	4	2	3	4	4	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:30617508A>G	uc003nqw.3	+	2	439	c.246A>G	c.(244-246)GCA>GCG	p.A82A	C6orf136_uc003nqx.3_Silent_p.A263A|C6orf136_uc011dmn.1_Intron	NM_001109938	NP_001103408	Q5SQH8	CF136_HUMAN	hypothetical protein LOC221545 isoform 1	82											0						TCAGCTCAGCATGGGTGGTTC	0.622													9	227					0	0	0.008291	0	0		G	30617508	G	G	30617508	2	3	209	1	0	0	0	0	0	0	0	1	2334	204	8	3		3	C6orf136	6	30617508	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	307828	30617508	140497559	402	100817											
MDC1	9656	broad.mit.edu	37	chr6	30672977	30672977	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aaatctggagctcaggggctGtggggacaactgtttcaggg	9	9	16	7	0	3	0	2	0	1	0	3	2	3	2	0	6	2	3	0	6	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:30672977G>A	uc003nrg.3	-	10	4423	c.3983C>T	c.(3982-3984)ACA>ATA	p.T1328I	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Missense_Mutation_p.T935I	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1328	Pro-rich.|Interaction with the PRKDC complex.				cell cycle|double-strand break repair via homologous recombination|intra-S DNA damage checkpoint	focal adhesion|nucleoplasm	FHA domain binding|protein C-terminus binding			breast(2)|ovary(1)|kidney(1)	4						CTCAGGGGCTGTGGGGACAAC	0.557								Other_conserved_DNA_damage_response_genes					52	238					0	0	0.01441	0	0		A	30672977	A	A	30672977	3	1	209	1	0	0	0	0	1	0	0	0	9421	1377	48	4	2310	4	MDC1	6	30672977	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	55469	30672977	140442090	403	100818											
DDR1	780	broad.mit.edu	37	chr6	30861185	30861185	+	Silent	SNP	C	T	T	0	0	0	1	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	ctctggcggctgcactggcgCaggctcctcagcaaggtggg	5	7	16	13	2	2	0	1	0	1	0	3	0	3	0	1	6	2	5	1	6	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:30861185C>T	uc003nrr.2	+	11	1591	c.1332C>T	c.(1330-1332)CGC>CGT	p.R444R	DDR1_uc010jse.2_Silent_p.R444R|DDR1_uc003nrq.2_Silent_p.R444R|DDR1_uc003nrs.2_Silent_p.R444R|DDR1_uc003nrt.2_Silent_p.R444R|DDR1_uc011dms.1_Silent_p.R462R|DDR1_uc003nru.2_Silent_p.R444R|DDR1_uc003nrv.2_Silent_p.R444R|DDR1_uc003nrw.1_Silent_p.R243R|DDR1_uc003nry.1_RNA|DDR1_uc003nrx.1_RNA	NM_013993	NP_054699	Q08345	DDR1_HUMAN	discoidin domain receptor family, member 1	444	Cytoplasmic (Potential).				cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane	ATP binding|protein binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|central_nervous_system(3)|large_intestine(1)|ovary(1)	9					Imatinib(DB00619)	TGCACTGGCGCAGGCTCCTCA	0.692													5	18					0	0	0.001168	0	0		T	30861185	T	T	30861185	2	4	209	1	0	0	0	0	0	0	0	1	4339	697	25	2		2	DDR1	6	30861185	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	188208	30861185	140253882	404	100819											
CDSN	1041	broad.mit.edu	37	chr6	31084004	31084004	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccccagtcagtgtcaaggagGagacagacatgcaagggtga	13	5	14	9	0	2	3	2	1	0	2	2	5	2	4	2	3	1	1	2	3	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:31084004G>A	uc003nsm.1	-	2	1415	c.1388C>T	c.(1387-1389)TCC>TTC	p.S463F	PSORS1C1_uc003nsl.1_Intron|PSORS1C1_uc010jsj.1_Intron	NM_001264	NP_001255	Q15517	CDSN_HUMAN	corneodesmosin precursor	463	Ser-rich.				cell-cell adhesion|keratinocyte differentiation|skin morphogenesis	cornified envelope|desmosome|extracellular region	protein homodimerization activity			ovary(1)|pancreas(1)	2						TGTCAAGGAGGAGACAGACAT	0.592													17	38					0	0	0.006122	0	0		A	31084004	A	A	31084004	3	1	209	1	0	0	0	0	1	0	0	0	3182	1174	41	4	205	4	CDSN	6	31084004	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	222819	31084004	140031063	405	100820											
NFKBIL1	4795	broad.mit.edu	37	chr6	31525862	31525862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcagatcgcctggcccGggaacatgcccagaagtgcc	8	6	13	14	2	1	2	1	0	0	2	2	3	1	3	4	3	3	0	4	3	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:31525862G>A	uc003nub.2	+	4	739	c.620G>A	c.(619-621)CGG>CAG	p.R207Q	NFKBIL1_uc011dnr.1_Missense_Mutation_p.R169Q|NFKBIL1_uc011dns.1_Missense_Mutation_p.R184Q|NFKBIL1_uc011dnt.1_RNA|NFKBIL1_uc003nuc.2_Missense_Mutation_p.R192Q	NM_005007	NP_004998	Q9UBC1	IKBL1_HUMAN	nuclear factor of kappa light polypeptide gene	207					cytoplasmic sequestering of transcription factor		protein binding				0						CGCCTGGCCCGGGAACATGCC	0.632													9	18					0	0	0.010729	0	0		A	31525862	A	A	31525862	3	1	209	1	0	0	0	0	1	0	0	0	10400	1116	39	1	634	1	NFKBIL1	6	31525862	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	441858	31525862	139589205	406	100821											
BAT2	7916	broad.mit.edu	37	chr6	31595588	31595588	+	Missense_Mutation	SNP	A	G	G	1	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	cccagcacctgaagatgaggAtgaggcatggcggcagcgac	11	4	15	11	2	0	4	0	3	0	1	0	6	0	5	2	4	2	3	2	4	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:31595588A>G	uc003nvb.3	+	12	1586	c.1337A>G	c.(1336-1338)GAT>GGT	p.D446G	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Missense_Mutation_p.D446G	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	446	4 X 57 AA type A repeats.|2 X type B repeats.					cytoplasm|nucleus	protein binding				0						GAAGATGAGGATGAGGCATGG	0.602													15	67					0	0	0.006122	0	0		G	31595588	G	G	31595588	3	3	209	1	0	0	0	0	1	0	0	0	1320	333	12	3	1379	3	BAT2	6	31595588	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	69726	31595588	139519479	407	100822											
HSPA1L	3305	broad.mit.edu	37	chr6	31778571	31778571	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagccacgtccagcagcagCaggtcctgtaccttctcaga	9	7	11	14	1	1	1	1	0	1	1	4	2	3	2	4	2	5	4	4	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:31778571C>T	uc003nxh.2	-	2	1362	c.1179G>A	c.(1177-1179)CTG>CTA	p.L393L	HSPA1L_uc010jte.2_Silent_p.L393L	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	393					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						CCAGCAGCAGCAGGTCCTGTA	0.597													18	72					0	0	0.007413	0	0		T	31778571	T	T	31778571	2	4	209	1	0	0	0	0	0	0	0	1	7426	697	25	2		2	HSPA1L	6	31778571	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	182983	31778571	139336496	408	100823											
SKIV2L	6499	broad.mit.edu	37	chr6	31933609	31933609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggagtaaacatgcctgctcGtacagtagtgtttgactcca	10	11	11	9	1	0	1	0	1	0	0	2	2	1	2	2	1	4	5	2	1	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:31933609G>A	uc003nyn.1	+	18	2410	c.2021G>A	c.(2020-2022)CGT>CAT	p.R674H	SKIV2L_uc011dou.1_Missense_Mutation_p.R516H|SKIV2L_uc011dov.1_Missense_Mutation_p.R481H	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	674	Helicase C-terminal.					nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						ATGCCTGCTCGTACAGTAGTG	0.562													17	54					0	0	0.006122	0	0		A	31933609	A	A	31933609	3	1	209	1	0	0	0	0	1	0	0	0	14384	1145	40	1	2091	1	SKIV2L	6	31933609	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	155038	31933609	139181458	409	100824											
FKBPL	63943	broad.mit.edu	37	chr6	32096525	32096525	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatcagccaaacatcttgcGcagaccctgagccagccctg	11	7	8	15	1	2	2	1	1	1	1	2	2	2	2	4	0	5	1	4	0	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:32096525G>A	uc003nzr.2	-	2	1303	c.1033C>T	c.(1033-1035)CGC>TGC	p.R345C	ATF6B_uc003nzo.2_5'Flank|ATF6B_uc003nzn.2_5'Flank|ATF6B_uc011dpg.1_5'Flank|ATF6B_uc011dph.1_5'Flank	NM_022110	NP_071393	Q9UIM3	FKBPL_HUMAN	WAF-1/CIP1 stabilizing protein 39	345					response to radiation	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0						AACATCTTGCGCAGACCCTGA	0.537													53	305					0	0	0.01441	0	0		A	32096525	A	A	32096525	3	1	209	1	0	0	0	0	1	0	0	0	5930	1087	38	1	20	1	FKBPL	6	32096525	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	162916	32096525	139018542	410	100825											
COL11A2	1302	broad.mit.edu	37	chr6	33157112	33157112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catacctgggaaaagctggcGagtgggtgcactgagctggg	9	7	17	8	1	0	1	0	1	0	0	0	3	0	2	1	4	4	3	1	4	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:33157112G>A	uc003ocx.1	-	2	445	c.217C>T	c.(217-219)CGC>TGC	p.R73C	COL11A2_uc003ocy.1_Missense_Mutation_p.R73C|COL11A2_uc003ocz.1_Missense_Mutation_p.R73C|COL11A2_uc003oda.2_Missense_Mutation_p.R73C	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	73	TSP N-terminal.				cartilage development|cell adhesion|collagen fibril organization|sensory perception of sound|soft palate development	collagen type XI	extracellular matrix structural constituent conferring tensile strength|protein binding, bridging			ovary(3)|skin(2)	5						AAAAGCTGGCGAGTGGGTGCA	0.622													18	44					0	0	0.00499	0	0		A	33157112	A	A	33157112	3	1	209	1	0	0	0	0	1	0	0	0	3671	1058	37	1	5328	1	COL11A2	6	33157112	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1060587	33157112	137957955	411	100826											
DAXX	1616	broad.mit.edu	37	chr6	33287900	33287900	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctcctcttcttcttcCtcctcctcctcctcttcctc	0	17	1	23	0	4	0	0	0	4	0	13	0	12	0	9	0	0	0	9	0	0	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:33287900C>T	uc003oec.2	-	5	1557	c.1353G>A	c.(1351-1353)GAG>GAA	p.E451E	ZBTB22_uc003oeb.2_5'Flank|ZBTB22_uc010juu.2_5'Flank|DAXX_uc011drd.1_Silent_p.E376E|DAXX_uc011dre.1_Silent_p.E463E|DAXX_uc003oed.2_Silent_p.E451E	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	451	Asp/Glu-rich (acidic).|Potential.|Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						cttcttcttcctcctcctcct	0.254			Mis|F|N		Pancreatic neuroendocrine tumors								11	38					0	0	0.013537	0	0		T	33287900	T	T	33287900	2	4	209	1	0	0	0	0	0	0	0	1	4246	680	24	4		4	DAXX	6	33287900	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	130788	33287900	137827167	412	100827											
SYNGAP1	8831	broad.mit.edu	37	chr6	33391326	33391326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgtcctggttggaaccctcGgttctgcatcatctcgggga	5	12	12	12	3	3	0	1	0	2	0	7	2	4	2	2	5	2	3	2	5	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:33391326G>A	uc011dri.1	+	2	335	c.140G>A	c.(139-141)CGG>CAG	p.R47Q	SYNGAP1_uc003oeo.1_Missense_Mutation_p.R32Q|SYNGAP1_uc010juy.2_Missense_Mutation_p.R32Q	NM_006772	NP_006763	Q96PV0	SYGP1_HUMAN	synaptic Ras GTPase activating protein 1	47					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity|SH3 domain binding			ovary(4)	4						TGGAACCCTCGGTTCTGCATC	0.542													29	105					0	0	0.00632	0	0		A	33391326	A	A	33391326	3	1	209	1	0	0	0	0	1	0	0	0	15472	1116	39	1	146	1	SYNGAP1	6	33391326	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	103426	33391326	137723741	413	100828											
IP6K3	117283	broad.mit.edu	37	chr6	33694648	33694648	+	Missense_Mutation	SNP	A	C	C	1	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	gcgagaaggctggagtgttgAggtggggctcggacctcaga	8	7	19	7	2	1	3	1	1	0	2	2	6	1	5	1	6	0	3	1	6	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:33694648A>C	uc010jvf.2	-	5	985	c.449T>G	c.(448-450)CTC>CGC	p.L150R	IP6K3_uc003ofb.2_Missense_Mutation_p.L150R	NM_001142883	NP_001136355	Q96PC2	IP6K3_HUMAN	inositol hexakisphosphate kinase 3	150					inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|protein phosphorylation	cytoplasm	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol hexakisphosphate 6-kinase activity|inositol trisphosphate 3-kinase activity				0						TGGAGTGTTGAGGTGGGGCTC	0.652													7	139					0	0	0.001984	0	0		C	33694648	C	C	33694648	3	2	209	1	0	0	0	0	1	0	0	0	7806	304	11	5	795	5	IP6K3	6	33694648	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	303322	33694648	137420419	414	100829											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34824084	34824084	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggccagtgggcccagaagCtggtgatggaatttcagagc	10	7	16	8	0	1	3	1	1	0	2	1	5	1	4	2	4	2	1	2	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:34824084C>T	uc003oju.3	+	10	1423	c.1189C>T	c.(1189-1191)CTG>TTG	p.L397L	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_5'Flank	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	397										ovary(3)	3						GGCCCAGAAGCTGGTGATGGA	0.517													13	179					0	0	0.001855	0	0		T	34824084	T	T	34824084	2	4	209	1	0	0	0	0	0	0	0	1	16994	796	28	2		2	UHRF1BP1	6	34824084	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1129436	34824084	136290983	415	100830											
BRPF3	27154	broad.mit.edu	37	chr6	36179264	36179264	+	Silent	SNP	A	C	C	1	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	gtatccaatggggagctgccAgcagggccccagggggatgc	8	5	17	11	0	0	0	0	0	0	0	1	2	1	2	4	5	4	3	4	5	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:36179264A>C	uc003olv.3	+	7	2633	c.2409A>C	c.(2407-2409)CCA>CCC	p.P803P	BRPF3_uc010jwb.2_Intron|BRPF3_uc011dtj.1_Intron|BRPF3_uc010jwc.2_RNA|BRPF3_uc011dtk.1_Intron	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3	803					histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						GGGAGCTGCCAGCAGGGCCCC	0.617													3	11					0	0	0.009096	0	0		C	36179264	C	C	36179264	2	2	209	1	0	0	0	0	0	0	0	1	1524	175	7	5		5	BRPF3	6	36179264	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1355180	36179264	134935803	416	100831											
FGD2	221472	broad.mit.edu	37	chr6	36995778	36995778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctaccaggtgactgttgggCcccagggggaccctcgggtc	5	7	16	13	1	0	1	0	1	0	0	2	2	0	2	4	5	1	2	4	5	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:36995778C>T	uc010jwp.1	+	16	1978	c.1807C>T	c.(1807-1809)CCC>TCC	p.P603S	FGD2_uc003ong.2_Missense_Mutation_p.P325S|FGD2_uc011dtv.1_Missense_Mutation_p.P231S|FGD2_uc003onj.1_3'UTR	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	603	PH 2.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						GACTGTTGGGCCCCAGGGGGA	0.647													11	32					0	0	0.010729	0	0		T	36995778	T	T	36995778	3	4	209	1	0	0	0	0	1	0	0	0	5847	739	26	2	1869	2	FGD2	6	36995778	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	816514	36995778	134119289	417	100832											
CUL7	9820	broad.mit.edu	37	chr6	43019075	43019075	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagctccagttgacccctCtccccactcaactcctcagg	7	9	5	20	0	3	1	2	1	1	0	7	1	6	1	7	1	2	2	7	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:43019075C>A	uc003otq.2	-	4	1167	c.864G>T	c.(862-864)GAG>GAT	p.E288D	CUL7_uc011dvb.1_Missense_Mutation_p.E372D|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	288					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			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)			GTTGACCCCTCTCCCCACTCA	0.602													19	48					1.00905e-13	1.13303e-13	0.008871	1	0		A	43019075	A	A	43019075	3	1	209	1	0	0	0	0	1	0	0	0	4063	912	32	5	4324	5	CUL7	6	43019075	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6023297	43019075	128095992	418	100833											
CUL9	23113	broad.mit.edu	37	chr6	43152294	43152294	+	Silent	SNP	G	A	A	0	0	1	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	tgccctgggctgttaggtgaGcgggcactatctaagggact	7	10	15	9	1	1	1	0	1	1	0	1	2	1	2	1	4	2	3	1	4	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:43152294G>A	uc003ouk.2	+	2	321	c.246G>A	c.(244-246)GAG>GAA	p.E82E	CUL9_uc003ouj.1_Silent_p.E82E|CUL9_uc003oul.2_Silent_p.E82E|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	82					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TGTTAGGTGAGCGGGCACTAT	0.567													23	126					0	0	0.00278	0	0		A	43152294	A	A	43152294	2	1	209	1	0	0	0	0	0	0	0	1	4064	962	34	2		2	CUL9	6	43152294	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	133219	43152294	127962773	419	100834											
TJAP1	93643	broad.mit.edu	37	chr6	43472983	43472983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caactgcacttacgctacccGccaggccatttccctgagcc	8	8	7	18	2	0	1	0	1	0	0	1	1	1	1	5	1	5	2	5	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:43472983G>A	uc003ovd.2	+	11	1440	c.1064G>A	c.(1063-1065)CGC>CAC	p.R355H	TJAP1_uc003ovf.2_Missense_Mutation_p.R345H|TJAP1_uc003ove.2_Missense_Mutation_p.R345H|TJAP1_uc003ovc.2_Missense_Mutation_p.R345H|TJAP1_uc010jyp.2_Missense_Mutation_p.R314H|TJAP1_uc011dvh.1_Missense_Mutation_p.R345H|TJAP1_uc003ovg.2_Missense_Mutation_p.R221H|TJAP1_uc011dvi.1_Missense_Mutation_p.R355H|TJAP1_uc011dvj.1_Missense_Mutation_p.R155H|TJAP1_uc003ovi.2_Missense_Mutation_p.R221H	NM_001146016	NP_001139488	Q5JTD0	TJAP1_HUMAN	tight junction associated protein 1 isoform a	355						Golgi apparatus|tight junction	protein binding				0	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)			TACGCTACCCGCCAGGCCATT	0.438													23	58					0	0	0.00278	0	0		A	43472983	A	A	43472983	3	1	209	1	0	0	0	0	1	0	0	0	15953	1087	38	1	1094	1	TJAP1	6	43472983	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	320689	43472983	127642084	420	100835											
POLH	5429	broad.mit.edu	37	chr6	43565480	43565480	+	Missense_Mutation	SNP	A	T	T	1	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	aatggctcgattctcttcagAttgataacctcacctctcca	10	13	5	13	1	4	2	2	1	2	1	7	3	4	2	3	1	1	1	3	1	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:43565480A>T	uc003ovq.3	+	5	842	c.538A>T	c.(538-540)ATT>TTT	p.I180F	POLH_uc010jyu.2_Missense_Mutation_p.I56F|POLH_uc011dvl.1_RNA|POLH_uc003ovr.3_Missense_Mutation_p.I81F	NM_006502	NP_006493	Q9Y253	POLH_HUMAN	DNA-directed DNA polymerase eta	180	UmuC.				DNA replication|DNA synthesis involved in DNA repair|regulation of DNA repair|response to UV-C	cytoplasm|nucleoplasm	damaged DNA binding|DNA-directed DNA polymerase activity|metal ion binding			breast(2)	2	all_cancers(18;1.89e-05)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000753)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			TTCTCTTCAGATTGATAACCT	0.408								DNA_polymerases_(catalytic_subunits)	Xeroderma_Pigmentosum				19	66					0	0	0.008871	0	0		T	43565480	T	T	43565480	3	4	209	1	0	0	0	0	1	0	0	0	12221	333	12	5	552	5	POLH	6	43565480	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	92497	43565480	127549587	421	100836											
TDRD6	221400	broad.mit.edu	37	chr6	46658575	46658575	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgggatgtaaaggcaataCaagctttcaatgaatttata	15	14	8	4	0	1	1	1	1	0	0	1	2	1	2	0	2	2	3	0	2	9	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:46658575C>T	uc003oyj.2	+	1	2710	c.2710C>T	c.(2710-2712)CAA>TAA	p.Q904*	TDRD6_uc010jze.2_Nonsense_Mutation_p.Q898*	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	904					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			AAAGGCAATACAAGCTTTCAA	0.323													21	80					0	0	0.012319	0	0		T	46658575	T	T	46658575	4	4	209	1	0	0	0	0	0	1	0	0	15759	479	17	4	2712	4	TDRD6	6	46658575	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3093095	46658575	124456492	422	100837											
TFAP2B	7021	broad.mit.edu	37	chr6	50807909	50807909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggattttgggtacatttgCgaaacggagtttcccgccaa	10	11	12	8	3	0	0	0	0	0	0	1	3	1	2	2	3	3	2	2	3	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:50807909C>T	uc003pag.2	+	6	1147	c.981C>T	c.(979-981)TGC>TGT	p.C327C		NM_003221	NP_003212	Q92481	AP2B_HUMAN	transcription factor AP-2 beta	327					nervous system development|positive regulation of transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0	Lung NSC(77;0.156)					GGTACATTTGCGAAACGGAGT	0.507													30	153					0	0	0.009535	0	0		T	50807909	T	T	50807909	2	4	209	1	0	0	0	0	0	0	0	1	15813	776	27	1		1	TFAP2B	6	50807909	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4149334	50807909	120307158	423	100838											
EFHC1	114327	broad.mit.edu	37	chr6	52329708	52329708	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	attagagaacttccctcagtGtgtgctagaaatctctgacc	11	12	8	10	0	2	3	1	1	1	2	4	4	3	3	2	0	2	1	2	0	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:52329708G>A	uc003pap.3	+	6	1147	c.932G>A	c.(931-933)TGT>TAT	p.C311Y	EFHC1_uc011dwv.1_Missense_Mutation_p.C220Y|EFHC1_uc011dww.1_Missense_Mutation_p.C292Y	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	311	DM10 2.					axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					TTCCCTCAGTGTGTGCTAGAA	0.398													7	48					0	0	0.00308	0	0		A	52329708	A	A	52329708	3	1	209	1	0	0	0	0	1	0	0	0	4952	1377	48	4	964	4	EFHC1	6	52329708	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1521799	52329708	118785359	424	100839											
BAI3	577	broad.mit.edu	37	chr6	69666043	69666043	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccgaatgcagagggccatgGgcagaaagcagagagtgcta	13	5	15	8	1	0	3	0	0	0	3	1	5	1	3	2	2	3	4	2	2	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:69666043G>T	uc003pev.3	+	7	1771	c.1323G>T	c.(1321-1323)TGG>TGT	p.W441C	BAI3_uc010kak.2_Missense_Mutation_p.W441C	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	441	TSP type-1 3.|Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				GAGGGCCATGGGCAGAAAGCA	0.532													3	42					0.004672	0.00479408	0.004672	1	0		T	69666043	T	T	69666043	3	4	209	1	0	0	0	0	1	0	0	0	1301	1241	43	5	1341	5	BAI3	6	69666043	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	17336335	69666043	101449024	425	100840											
RIMS1	22999	broad.mit.edu	37	chr6	73017019	73017019	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaaagtgcatcgatttaaGcagacaacagggtctggttc	13	10	11	7	1	1	2	0	1	1	1	3	3	1	2	0	2	3	3	0	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:73017019G>A	uc003pga.2	+	27	3986	c.3909G>A	c.(3907-3909)AAG>AAA	p.K1303K	RIMS1_uc011dyb.1_Silent_p.K700K|RIMS1_uc003pgc.2_Silent_p.K752K|RIMS1_uc010kaq.2_Silent_p.K623K|RIMS1_uc011dyc.1_Intron|RIMS1_uc010kar.2_Intron|RIMS1_uc011dyd.1_Intron|RIMS1_uc003pgf.2_Silent_p.K312K|RIMS1_uc003pgg.2_Intron|RIMS1_uc003pgi.2_Intron|RIMS1_uc003pgh.2_Intron|RIMS1_uc003pgd.2_Silent_p.K369K|RIMS1_uc003pge.2_Silent_p.K343K|RIMS1_uc011dye.1_Silent_p.K109K|RIMS1_uc011dyf.1_Intron	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1303					calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				ATCGATTTAAGCAGACAACAG	0.373													3	17					0	0	0.009096	0	0		A	73017019	A	A	73017019	2	1	209	1	0	0	0	0	0	0	0	1	13392	962	34	2		2	RIMS1	6	73017019	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3350976	73017019	98098048	426	100841											
KCNQ5	56479	broad.mit.edu	37	chr6	73843172	73843172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taagttttaaggagcgagtgCgcatggctagccccaggggc	9	8	15	9	2	0	0	0	0	0	0	0	2	0	1	2	4	3	3	2	4	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:73843172C>T	uc003pgk.2	+	10	1623	c.1276C>T	c.(1276-1278)CGC>TGC	p.R426C	KCNQ5_uc011dyh.1_Missense_Mutation_p.R445C|KCNQ5_uc011dyi.1_Missense_Mutation_p.R436C|KCNQ5_uc010kat.2_Missense_Mutation_p.R417C|KCNQ5_uc011dyj.1_Intron|KCNQ5_uc011dyk.1_Missense_Mutation_p.R176C	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	426					protein complex assembly|synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(4)|large_intestine(2)|skin(1)	7		all_epithelial(107;0.116)|Lung NSC(302;0.219)		COAD - Colon adenocarcinoma(1;0.0107)|Colorectal(1;0.0583)		GGAGCGAGTGCGCATGGCTAG	0.507													16	77					0	0	0.004007	0	0		T	73843172	T	T	73843172	3	4	209	1	0	0	0	0	1	0	0	0	8102	768	27	1	1375	1	KCNQ5	6	73843172	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	826153	73843172	97271895	427	100842											
COL12A1	1303	broad.mit.edu	37	chr6	75812406	75812406	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctccacgaggaccagggggCccctaaaatacacaagagag	14	4	11	12	1	1	1	0	0	1	1	2	4	1	2	4	3	1	0	4	3	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:75812406C>T	uc003phs.2	-	56	8488	c.8322G>A	c.(8320-8322)GGG>GGA	p.G2774G	COL12A1_uc003pht.2_Silent_p.G1610G	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2774	Triple-helical region (COL2) with 1 imperfection.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						GACCAGGGGGCCCCTAAAATA	0.498													11	42					0	0	0.008291	0	0		T	75812406	T	T	75812406	2	4	209	1	0	0	0	0	0	0	0	1	3672	726	26	2		2	COL12A1	6	75812406	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1969234	75812406	95302661	428	100843											
COL12A1	1303	broad.mit.edu	37	chr6	75828810	75828810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacctcatcctgggaccgacCgtccgtgaccacaaccaaca	11	5	8	17	3	1	1	1	1	0	0	3	4	3	2	7	1	2	0	7	1	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:75828810C>T	uc003phs.2	-	46	7469	c.7303G>A	c.(7303-7305)GGT>AGT	p.G2435S	COL12A1_uc003pht.2_Missense_Mutation_p.G1271S	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2435	VWFA 4.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						TGGGACCGACCGTCCGTGACC	0.473													17	84					0	0	0.004007	0	0		T	75828810	T	T	75828810	3	4	209	1	0	0	0	0	1	0	0	0	3672	652	23	1	1972	1	COL12A1	6	75828810	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	16404	75828810	95286257	429	100844											
COL12A1	1303	broad.mit.edu	37	chr6	75841699	75841699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacaggagaatacacaacgCgatattgcagcacaggtcct	14	6	9	12	2	0	1	0	0	0	1	1	3	1	1	2	2	4	2	2	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:75841699C>T	uc003phs.2	-	35	6060	c.5894G>A	c.(5893-5895)CGC>CAC	p.R1965H	COL12A1_uc003pht.2_Missense_Mutation_p.R801H	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1965	Fibronectin type-III 15.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						ATACACAACGCGATATTGCAG	0.468													22	54					0	0	0.010504	0	0		T	75841699	T	T	75841699	3	4	209	1	0	0	0	0	1	0	0	0	3672	768	27	1	3425	1	COL12A1	6	75841699	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	12889	75841699	95273368	430	100845											
FILIP1	27145	broad.mit.edu	37	chr6	76024548	76024548	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttgggttaagccaaccagctTgagtctaagttgcctattgt	9	14	10	8	0	1	1	0	1	1	0	1	1	1	1	3	1	4	3	3	1	4	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:76024548T>C	uc003pia.2	-	5	1373	c.1000A>G	c.(1000-1002)AAG>GAG	p.K334E	FILIP1_uc003phy.1_Missense_Mutation_p.K334E|FILIP1_uc003phz.2_Missense_Mutation_p.K235E|FILIP1_uc010kbe.2_Missense_Mutation_p.K337E|FILIP1_uc003pib.1_Missense_Mutation_p.K86E	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	334	Potential.									skin(3)|ovary(1)	4						CCAACCAGCTTGAGTCTAAGT	0.418													19	103					0	0	0.008871	0	0		C	76024548	C	C	76024548	3	2	209	1	0	0	0	0	1	0	0	0	5908	1821	63	3	2649	3	FILIP1	6	76024548	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	182849	76024548	95090519	431	100846											
HTR1B	3351	broad.mit.edu	37	chr6	78172722	78172722	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtgcaggatggaggcagtGcaacaagtgatgtccgacga	12	6	16	7	2	0	1	0	1	0	0	1	5	1	3	1	4	3	3	1	4	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:78172722G>A	uc003pil.1	-	1	399	c.399C>T	c.(397-399)TGC>TGT	p.C133C		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	133	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	TGGAGGCAGTGCAACAAGTGA	0.607													6	89					0	0	0.001984	0	0		A	78172722	A	A	78172722	2	1	209	1	0	0	0	0	0	0	0	1	7453	1311	46	2		2	HTR1B	6	78172722	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2148174	78172722	92942345	432	100847											
IRAK1BP1	134728	broad.mit.edu	37	chr6	79607819	79607819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctgttgagaatgcgtggcGcaaagctcaagaagtctgta	11	10	13	7	2	2	2	1	1	1	2	2	3	2	2	0	1	3	5	0	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:79607819G>A	uc003pim.2	+	4	656	c.551G>A	c.(550-552)CGC>CAC	p.R184H	IRAK1BP1_uc010kbg.1_Intron|IRAK1BP1_uc003pin.2_Missense_Mutation_p.R97H	NM_001010844	NP_001010844	Q5VVH5	IKBP1_HUMAN	interleukin-1 receptor-associated kinase 1	184					I-kappaB kinase/NF-kappaB cascade|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0		all_cancers(76;0.0398)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)		BRCA - Breast invasive adenocarcinoma(397;0.21)		AATGCGTGGCGCAAAGCTCAA	0.388													6	64					0	0	0.004482	0	0		A	79607819	A	A	79607819	3	1	209	1	0	0	0	0	1	0	0	0	7838	1087	38	1	565	1	IRAK1BP1	6	79607819	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1435097	79607819	91507248	433	100848											
PRSS35	167681	broad.mit.edu	37	chr6	84233542	84233542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagacaggtgtatggcaccGacagcaggttcagcatcttg	11	8	13	9	1	2	1	1	0	1	1	2	3	2	1	1	3	2	5	1	3	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:84233542G>A	uc003pjz.2	+	2	545	c.382G>A	c.(382-384)GAC>AAC	p.D128N	PRSS35_uc010kbm.2_Missense_Mutation_p.D128N	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	128	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		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)		GTATGGCACCGACAGCAGGTT	0.463													7	111					0	0	0.001984	0	0		A	84233542	A	A	84233542	3	1	209	1	0	0	0	0	1	0	0	0	12646	1058	37	1	384	1	PRSS35	6	84233542	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4625723	84233542	86881525	434	100849											
TBX18	9096	broad.mit.edu	37	chr6	85446891	85446891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggggcaaaggtctcacCagcctggttggtgagcctgt	6	8	17	10	1	1	1	1	1	1	0	2	1	1	1	3	6	2	2	3	6	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:85446891C>T	uc003pkl.1	-	8	1336	c.1336G>A	c.(1336-1338)GGT>AGT	p.G446S	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	446					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		AAGGTCTCACCAGCCTGGTTG	0.607													6	88					0	0	0.001984	0	0		T	85446891	T	T	85446891	3	4	209	1	0	0	0	0	1	0	0	0	15678	594	21	4	491	4	TBX18	6	85446891	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1213349	85446891	85668176	435	100850											
MAP3K7	6885	broad.mit.edu	37	chr6	91254334	91254334	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcagttttacggtggccccGtttaggcttggaataggctg	7	12	14	8	2	0	0	0	0	0	0	0	1	0	1	2	5	2	5	2	5	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:91254334G>A	uc003pnz.1	-	12	1390	c.1228C>T	c.(1228-1230)CGG>TGG	p.R410W	MAP3K7_uc003poa.1_Missense_Mutation_p.R410W|MAP3K7_uc003pob.1_Intron|MAP3K7_uc003poc.1_Intron	NM_145331	NP_663304	O43318	M3K7_HUMAN	mitogen-activated protein kinase kinase kinase 7	410					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|histone H3 acetylation|I-kappaB phosphorylation|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of T cell cytokine production|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytosol|endosome membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)|stomach(1)	6		all_cancers(76;6.4e-08)|Acute lymphoblastic leukemia(125;1.43e-09)|Prostate(29;9.32e-09)|all_hematologic(105;3.69e-06)|all_epithelial(107;0.000187)|Ovarian(999;0.0164)		OV - Ovarian serous cystadenocarcinoma(136;2.05e-11)|all cancers(137;3.25e-11)|GBM - Glioblastoma multiforme(226;0.0416)|BRCA - Breast invasive adenocarcinoma(108;0.0429)		CGGTGGCCCCGTTTAGGCTTG	0.408													11	61					0	0	0.008291	0	0		A	91254334	A	A	91254334	3	1	209	1	0	0	0	0	1	0	0	0	9273	1144	40	1	616	1	MAP3K7	6	91254334	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5807443	91254334	79860733	436	100851											
MANEA	79694	broad.mit.edu	37	chr6	96034845	96034845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactcacatgagacaaatgcGctcagcttcaattggtaatt	14	11	7	9	1	3	1	3	1	0	1	3	2	3	1	0	1	3	3	0	1	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:96034845G>A	uc003poo.1	+	2	670	c.530G>A	c.(529-531)CGC>CAC	p.R177H	MANEA_uc003pon.2_Missense_Mutation_p.R177H	NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	177	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AGACAAATGCGCTCAGCTTCA	0.294													6	87					0	0	0.001168	0	0		A	96034845	A	A	96034845	3	1	209	1	0	0	0	0	1	0	0	0	9239	1087	38	1	532	1	MANEA	6	96034845	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4780511	96034845	75080222	437	100852											
FIG4	9896	broad.mit.edu	37	chr6	110146440	110146440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaggactcctccatgtaccGagagtacatcaggaaccgct	12	7	10	12	2	1	2	1	0	0	2	3	5	3	4	4	2	3	3	4	2	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:110146440G>A	uc003ptt.2	+	23	2911	c.2696G>A	c.(2695-2697)CGA>CAA	p.R899Q	FIG4_uc011eau.1_Missense_Mutation_p.R593Q	NM_014845	NP_055660	Q92562	FIG4_HUMAN	Sac domain-containing inositol phosphatase 3	899					cell death	endosome membrane	protein binding			ovary(1)	1		all_cancers(87;8.63e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.000124)|all_lung(197;0.0187)|Colorectal(196;0.0492)|Lung SC(18;0.0548)		OV - Ovarian serous cystadenocarcinoma(136;0.0355)|Epithelial(106;0.038)|all cancers(137;0.0425)|BRCA - Breast invasive adenocarcinoma(108;0.079)		TCCATGTACCGAGAGTACATC	0.498													6	69					0	0	0.001168	0	0		A	110146440	A	A	110146440	3	1	209	1	0	0	0	0	1	0	0	0	5902	1058	37	1	2786	1	FIG4	6	110146440	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	14111595	110146440	60968627	438	100853											
SLC22A16	85413	broad.mit.edu	37	chr6	110752462	110752462	+	Missense_Mutation	SNP	A	G	G	1	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	acaccatgctgccgcttcccAcagccagcgatctggaaaca	11	6	8	16	2	1	0	0	0	1	0	2	2	2	1	4	1	5	2	4	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:110752462A>G	uc003puf.2	-	7	1500	c.1433T>C	c.(1432-1434)GTG>GCG	p.V478A	SLC22A16_uc003pue.2_Missense_Mutation_p.V459A	NM_033125	NP_149116	Q86VW1	S22AG_HUMAN	solute carrier family 22, member 16	478	Helical; (Potential).				acid secretion|cell differentiation|multicellular organismal development|single fertilization|sperm motility|spermatogenesis	integral to membrane	carnitine transporter activity			ovary(1)	1		all_cancers(87;0.00221)|Acute lymphoblastic leukemia(125;2.27e-07)|all_hematologic(75;1.38e-05)|all_epithelial(87;0.0485)|Colorectal(196;0.101)		OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.0921)|all cancers(137;0.115)		GCCGCTTCCCACAGCCAGCGA	0.577													27	57					0	0	0.004656	0	0		G	110752462	G	G	110752462	3	3	209	1	0	0	0	0	1	0	0	0	14472	159	6	3	308	3	SLC22A16	6	110752462	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	606022	110752462	60362605	439	100854											
REV3L	5980	broad.mit.edu	37	chr6	111650820	111650820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttaagtcccaactgacgcGcatcaagcattcgtgacagg	11	8	10	12	3	1	2	1	2	0	0	3	2	2	2	1	1	2	3	1	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:111650820G>A	uc003puy.3	-	25	8479	c.8156C>T	c.(8155-8157)GCG>GTG	p.A2719V	REV3L_uc003pux.3_Missense_Mutation_p.A2641V|REV3L_uc003puz.3_Missense_Mutation_p.A2641V|REV3L_uc003pva.1_RNA	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	2719					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		CAACTGACGCGCATCAAGCAT	0.408								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					30	142					0	0	0.003755	0	0		A	111650820	A	A	111650820	3	1	209	1	0	0	0	0	1	0	0	0	13265	1087	38	1	1268	1	REV3L	6	111650820	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	898358	111650820	59464247	440	100855											
FAM26E	254228	broad.mit.edu	37	chr6	116836936	116836936	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactatgccaacaagctgagCgagaggaacctgaaatgttt	14	8	11	8	1	0	3	0	2	0	1	0	6	0	4	2	1	5	2	2	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:116836936C>T	uc003pwy.2	+	2	766	c.714C>T	c.(712-714)AGC>AGT	p.S238S	BET3L_uc011ebh.1_Intron	NM_153711	NP_714922	Q8N5C1	FA26E_HUMAN	hypothetical protein LOC254228	238						integral to membrane					0		all_cancers(87;0.0608)|all_epithelial(87;0.05)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0242)|all cancers(137;0.0419)|OV - Ovarian serous cystadenocarcinoma(136;0.0671)|Epithelial(106;0.212)		ACAAGCTGAGCGAGAGGAACC	0.448													21	79					0	0	0.008871	0	0		T	116836936	T	T	116836936	2	4	209	1	0	0	0	0	0	0	0	1	5564	767	27	1		1	FAM26E	6	116836936	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5186116	116836936	54278131	441	100856											
RWDD1	51389	broad.mit.edu	37	chr6	116912077	116912077	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aactatttgaaacagatcatAatcttgacacatctgatatc	16	13	4	8	0	3	4	1	3	2	1	4	4	3	4	0	0	2	0	0	0	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:116912077A>G	uc003pxd.2	+	6	737	c.574A>G	c.(574-576)AAT>GAT	p.N192D	RWDD1_uc003pxb.2_Missense_Mutation_p.N96D|RWDD1_uc003pxc.2_Missense_Mutation_p.N96D	NM_015952	NP_057036	Q9H446	RWDD1_HUMAN	RWD domain containing 1 isoform a	192	Interaction with DRG2 (By similarity).						protein binding			ovary(2)|central_nervous_system(1)	3		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.0312)|OV - Ovarian serous cystadenocarcinoma(136;0.0689)|Epithelial(106;0.161)		AACAGATCATAATCTTGACAC	0.244													4	43					0	0	0.009096	0	0		G	116912077	G	G	116912077	3	3	209	1	0	0	0	0	1	0	0	0	13779	362	13	3	596	3	RWDD1	6	116912077	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	75141	116912077	54202990	442	100857											
KPNA5	3841	broad.mit.edu	37	chr6	117023264	117023264	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gattgaaactggggctgttcCgatttttatcaaacttctta	10	16	8	7	1	2	1	1	1	1	0	3	3	3	1	1	2	2	2	1	2	4	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:117023264C>T	uc003pxh.2	+	6	649	c.518C>T	c.(517-519)CCG>CTG	p.P173L		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5	170	ARM 3.|NLS binding site (major) (By similarity).				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		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)		GGGGCTGTTCCGATTTTTATC	0.333													19	76					0	0	0.007413	0	0		T	117023264	T	T	117023264	3	4	209	1	0	0	0	0	1	0	0	0	8449	652	23	1	540	1	KPNA5	6	117023264	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	111187	117023264	54091803	443	100858											
C6orf174	387104	broad.mit.edu	37	chr6	127796917	127796917	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcccgcgtcgctctcggcgtCgctgtcgcgggggctgccgc	0	7	17	17	9	1	0	0	0	1	0	5	0	1	0	2	3	1	3	2	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:127796917C>T	uc003qbd.2	-	6	3119	c.2254G>A	c.(2254-2256)GAC>AAC	p.D752N	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	752						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CTCTCGGCGTCGCTGTCGCGG	0.692													12	126					0	0	0.00245	0	0		T	127796917	T	T	127796917	3	4	209	1	0	0	0	0	1	0	0	0	2348	884	31	1	597	1	C6orf174	6	127796917	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10773653	127796917	43318150	444	100859											
PTPRK	5796	broad.mit.edu	37	chr6	128505668	128505668	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaactcggatctcatattcGgtatctggatctaaatgcca	12	12	8	9	2	3	1	1	0	3	1	6	3	3	3	1	3	2	1	1	3	5	4	rs61757809	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:128505668G>A	uc003qbk.2	-	7	1438	c.1071C>T	c.(1069-1071)ACC>ACT	p.T357T	PTPRK_uc003qbj.2_Silent_p.T357T|PTPRK_uc010kfc.2_Silent_p.T357T|PTPRK_uc011ebu.1_Silent_p.T357T|PTPRK_uc003qbl.1_Silent_p.T227T|PTPRK_uc011ebv.1_Silent_p.T357T	NM_002844	NP_002835	Q15262	PTPRK_HUMAN	protein tyrosine phosphatase, receptor type, K	357	Fibronectin type-III 1.|Extracellular (Potential).				cell migration|cellular response to reactive oxygen species|cellular response to UV|focal adhesion assembly|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of keratinocyte proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transforming growth factor beta receptor signaling pathway	adherens junction|cell surface|cell-cell junction|integral to plasma membrane|leading edge membrane	beta-catenin binding|gamma-catenin binding|protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(3)|skin(2)|pancreas(1)|kidney(1)|central_nervous_system(1)	8				all cancers(137;0.0118)|GBM - Glioblastoma multiforme(226;0.0372)|OV - Ovarian serous cystadenocarcinoma(136;0.24)		TCTCATATTCGGTATCTGGAT	0.458													16	138					0	0	0.007413	0	0		A	128505668	A	A	128505668	2	1	209	1	0	0	0	0	0	0	0	1	12830	1103	39	1		1	PTPRK	6	128505668	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	708751	128505668	42609399	445	100860											
TAAR2	9287	broad.mit.edu	37	chr6	132938520	132938520	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	attgtgaagaaacaaggaaaCcaacataataagaaaactcc	22	6	6	7	0	0	3	0	1	0	2	1	4	1	4	2	1	4	0	2	1	9	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:132938520C>T	uc003qdl.1	-	2	825	c.825G>A	c.(823-825)TGG>TGA	p.W275*	TAAR2_uc010kfr.1_Nonsense_Mutation_p.W230*	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	275	Helical; Name=6; (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		AACAAGGAAACCAACATAATA	0.333													7	29					0	0	0.001984	0	0		T	132938520	T	T	132938520	4	4	209	1	0	0	0	0	0	1	0	0	15515	508	18	4	234	4	TAAR2	6	132938520	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4432852	132938520	38176547	446	100861											
TAAR2	9287	broad.mit.edu	37	chr6	132938576	132938576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	agttttggcagcttttttgtCtttcttcacttgattatttt	5	24	6	6	0	3	1	1	1	2	0	3	1	3	1	0	1	1	3	0	1	1	11			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:132938576C>T	uc003qdl.1	-	2	769	c.769G>A	c.(769-771)GAC>AAC	p.D257N	TAAR2_uc010kfr.1_Missense_Mutation_p.D212N	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	257	Cytoplasmic (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		GCTTTTTTGTCTTTCTTCACT	0.328													13	36					0	0	0.001855	0	0		T	132938576	T	T	132938576	3	4	209	1	0	0	0	0	1	0	0	0	15515	913	32	4	290	4	TAAR2	6	132938576	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	56	132938576	38176491	447	100862											
EYA4	2070	broad.mit.edu	37	chr6	133849878	133849878	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacagcacaacatgcccttcTggaggatatccagtcactca	12	8	7	14	0	3	0	2	0	1	0	4	2	4	2	2	2	3	1	2	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:133849878T>C	uc003qec.3	+	20	2313	c.1855T>C	c.(1855-1857)TGG>CGG	p.W619R	EYA4_uc011ecq.1_Missense_Mutation_p.W565R|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Missense_Mutation_p.W619R|EYA4_uc003qee.3_Missense_Mutation_p.W596R|EYA4_uc011ecs.1_Missense_Mutation_p.W625R|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	619					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		CATGCCCTTCTGGAGGATATC	0.323													27	205					0	0	0.009535	0	0		C	133849878	C	C	133849878	3	2	209	1	0	0	0	0	1	0	0	0	5339	1580	55	3	2034	3	EYA4	6	133849878	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	911302	133849878	37265189	448	100863											
TNFAIP3	7128	broad.mit.edu	37	chr6	138200310	138200310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgtccggagcccctccccGcattcttgccacagagctgg	5	8	10	18	3	1	1	0	0	1	1	4	2	3	2	6	2	3	2	6	2	0	2	rs140120540		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:138200310G>A	uc003qhr.2	+	7	1794	c.1728G>A	c.(1726-1728)CCG>CCA	p.P576P	TNFAIP3_uc003qhs.2_Silent_p.P576P	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	576	Interaction with NAF1 (By similarity).				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		GCCCCTCCCCGCATTCTTGCC	0.642			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								8	106					0	0	0.004482	0	0		A	138200310	A	A	138200310	2	1	209	1	0	0	0	0	0	0	0	1	16299	1074	38	1		1	TNFAIP3	6	138200310	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4350432	138200310	32914757	449	100864											
HIVEP2	3097	broad.mit.edu	37	chr6	143091172	143091172	+	Silent	SNP	T	C	C																															gccgtctcatcgatatctaaTtcatctgaagattctttgct																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:143091172T>C	uc003qjd.2	-	5	5447	c.4704A>G	c.(4702-4704)GAA>GAG	p.E1568E		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1568	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CGATATCTAATTCATCTGAAG	0.537													26	113					0	0	0.00632	0	0		C	143091172	C	C	143091172	2	2	209	1	0	0	0	0	0	0	0	1	7203	1490	52	3		3	HIVEP2	6	143091172	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4890862	143091172	28023895	450	100865	189	2									
HIVEP2	3097	broad.mit.edu	37	chr6	143091178	143091178	+	Silent	SNP	T	C	C																															tcatcgatatctaattcatcTgaagattctttgctttcaga																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:143091178T>C	uc003qjd.2	-	5	5441	c.4698A>G	c.(4696-4698)TCA>TCG	p.S1566S		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1566	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		CTAATTCATCTGAAGATTCTT	0.542													14	120					0	0	0.004007	0	0		C	143091178	C	C	143091178	2	2	209	1	0	0	0	0	0	0	0	1	7203	1567	55	3		3	HIVEP2	6	143091178	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	6	143091178	28023889	451	100866	189	2									
RAET1E	135250	broad.mit.edu	37	chr6	150210638	150210638	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatgattaattactgtccaGgtcatgttcattgcgtcaaa	11	15	7	8	1	4	1	4	1	0	0	5	1	5	1	1	1	2	1	1	1	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:150210638G>T	uc003qnl.1	-	3	528	c.468C>A	c.(466-468)ACC>ACA	p.T156T	uc003qni.1_Intron|RAET1E_uc003qnj.2_Silent_p.T156T|RAET1E_uc003qnk.1_Silent_p.T120T|RAET1E_uc010kih.1_RNA	NM_139165	NP_631904	Q8TD07	N2DL4_HUMAN	retinoic acid early transcript 1E precursor	156	Extracellular (Potential).|MHC class I alpha-2 like.				antigen processing and presentation|immune response|regulation of immune response	integral to membrane|MHC class I protein complex	protein binding				0		Ovarian(120;0.0907)	BRCA - Breast invasive adenocarcinoma(37;0.193)	OV - Ovarian serous cystadenocarcinoma(155;2.58e-12)		TTACTGTCCAGGTCATGTTCA	0.473													21	123					3.08376e-08	3.36642e-08	0.00333	1	0		T	150210638	T	T	150210638	2	4	209	1	0	0	0	0	0	0	0	1	13024	987	35	5		5	RAET1E	6	150210638	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7119460	150210638	20904429	452	100867											
PLEKHG1	57480	broad.mit.edu	37	chr6	151153326	151153326	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttggaagagaagaagcaaGgagggcccgccattggtatg	12	7	15	7	1	1	2	0	0	1	2	1	5	1	4	2	4	1	2	2	4	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:151153326G>T	uc003qny.1	+	16	3391	c.3079G>T	c.(3079-3081)GGA>TGA	p.G1027*	PLEKHG1_uc011eel.1_Nonsense_Mutation_p.G1067*|PLEKHG1_uc011eem.1_Nonsense_Mutation_p.G1086*|PLEKHG1_uc003qnz.2_Nonsense_Mutation_p.G1027*	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	1027					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(37;0.0923)	OV - Ovarian serous cystadenocarcinoma(155;6.69e-13)		GAAGAAGCAAGGAGGGCCCGC	0.512													24	89					1.75199e-13	1.96271e-13	0.007291	1	0		T	151153326	T	T	151153326	4	4	209	1	0	0	0	0	0	1	0	0	12087	1001	35	5	3133	5	PLEKHG1	6	151153326	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	942688	151153326	19961741	453	100868											
AKAP12	9590	broad.mit.edu	37	chr6	151669964	151669964	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggagacacccgaaataatCgaacagattccttcttcaga	15	8	8	10	2	2	3	1	0	1	3	4	7	3	3	2	1	1	0	2	1	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:151669964C>T	uc011eep.1	+	4	678	c.438C>T	c.(436-438)ATC>ATT	p.I146I	AKAP12_uc003qoe.2_Silent_p.I146I|AKAP12_uc003qof.2_Silent_p.I48I|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.I41I	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	146					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		CCGAAATAATCGAACAGATTC	0.423													22	77					0	0	0.014323	0	0		T	151669964	T	T	151669964	2	4	209	1	0	0	0	0	0	0	0	1	448	874	31	1		1	AKAP12	6	151669964	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	516638	151669964	19445103	454	100869											
SYNE1	23345	broad.mit.edu	37	chr6	152540258	152540258	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacttgttgcttcagttgCtctcccagctcatggagaaa	8	13	8	12	0	3	1	2	0	1	1	5	2	4	1	2	1	3	5	2	1	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:152540258C>T	uc010kiw.2	-	120	22526	c.21924G>A	c.(21922-21924)GAG>GAA	p.E7308E	SYNE1_uc010kiv.2_Silent_p.E1832E|SYNE1_uc003qos.3_Silent_p.E1832E|SYNE1_uc003qot.3_Silent_p.E7237E|SYNE1_uc003qou.3_Silent_p.E7308E|SYNE1_uc003qor.3_Silent_p.E208E	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7308	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GCTTCAGTTGCTCTCCCAGCT	0.478										HNSCC(10;0.0054)			15	79					0	0	0.003163	0	0		T	152540258	T	T	152540258	2	4	209	1	0	0	0	0	0	0	0	1	15470	796	28	2		2	SYNE1	6	152540258	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	870294	152540258	18574809	455	100870											
RGS17	26575	broad.mit.edu	37	chr6	153347651	153347651	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggtcttcccgcattttcCcctctttcttcattcctcac	3	17	5	16	1	5	0	2	0	3	0	8	0	8	0	4	1	0	1	4	1	0	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:153347651C>A	uc003qpm.2	-	3	303	c.147G>T	c.(145-147)GGG>GGT	p.G49G		NM_012419	NP_036551	Q9UGC6	RGS17_HUMAN	regulator of G-protein signalling 17	49					negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			pancreas(1)	1		Ovarian(120;0.126)		OV - Ovarian serous cystadenocarcinoma(155;1.09e-09)|BRCA - Breast invasive adenocarcinoma(81;0.0429)		CCGCATTTTCCCCTCTTTCTT	0.388									Lung_Cancer_Familial_Clustering_of				24	90					3.28513e-13	3.67459e-13	0.003954	1	0		A	153347651	A	A	153347651	2	1	209	1	0	0	0	0	0	0	0	1	13324	610	22	5		5	RGS17	6	153347651	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	807393	153347651	17767416	456	100871											
OPRM1	4988	broad.mit.edu	37	chr6	154412320	154412320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtggctgtgttcatcGtctgctggactcccattcac	4	14	12	11	1	3	0	2	0	1	0	5	1	4	1	1	4	1	3	1	4	0	2	rs11575856		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:154412320G>A	uc003qpr.2	+	3	1114	c.877G>A	c.(877-879)GTC>ATC	p.V293I	OPRM1_uc011efc.1_Missense_Mutation_p.V212I|OPRM1_uc011efd.1_Missense_Mutation_p.V193I|OPRM1_uc011efe.1_Missense_Mutation_p.V386I|OPRM1_uc003qpn.2_Missense_Mutation_p.V293I|OPRM1_uc003qpo.1_Missense_Mutation_p.V293I|OPRM1_uc011eff.1_Missense_Mutation_p.V293I|OPRM1_uc011efg.1_Missense_Mutation_p.V293I|OPRM1_uc011efh.1_Missense_Mutation_p.V293I|OPRM1_uc003qpq.1_Missense_Mutation_p.V293I|OPRM1_uc003qpt.1_Missense_Mutation_p.V293I|OPRM1_uc011efi.1_Missense_Mutation_p.V293I|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA|OPRM1_uc010kjg.2_Missense_Mutation_p.V193I|OPRM1_uc003qpu.2_Missense_Mutation_p.V193I	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	293	Helical; Name=6; (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	TGTGTTCATCGTCTGCTGGAC	0.498													13	80					0	0	0.013537	0	0		A	154412320	A	A	154412320	3	1	209	1	0	0	0	0	1	0	0	0	10906	1145	40	1	1221	1	OPRM1	6	154412320	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1064669	154412320	16702747	457	100872											
CNKSR3	154043	broad.mit.edu	37	chr6	154771281	154771281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagctcctggtgtccaatcCgtgtgacccccagctcctcc	6	9	8	18	1	0	1	0	1	0	0	5	1	5	1	7	1	2	2	7	1	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:154771281C>T	uc003qpy.2	-	2	669	c.164G>A	c.(163-165)CGG>CAG	p.R55Q		NM_173515	NP_775786	Q6P9H4	CNKR3_HUMAN	CNKSR family member 3	55	SAM.				negative regulation of ERK1 and ERK2 cascade|negative regulation of peptidyl-serine phosphorylation|positive regulation of sodium ion transport	cytoplasm|membrane				ovary(2)|breast(1)|skin(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;5.03e-11)|BRCA - Breast invasive adenocarcinoma(81;0.00627)		GTGTCCAATCCGTGTGACCCC	0.527													9	90					0	0	0.008291	0	0		T	154771281	T	T	154771281	3	4	209	1	0	0	0	0	1	0	0	0	3611	652	23	1	1551	1	CNKSR3	6	154771281	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	358961	154771281	16343786	458	100873											
TIAM2	26230	broad.mit.edu	37	chr6	155561732	155561732	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacggcatggaaggaccGcgggagaatcaggatcctcc	11	4	14	12	3	1	1	1	0	0	1	3	5	3	4	4	5	1	1	4	5	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:155561732G>A	uc003qqb.2	+	18	4510	c.3237G>A	c.(3235-3237)CCG>CCA	p.P1079P	TIAM2_uc003qqe.2_Silent_p.P1079P|TIAM2_uc010kjj.2_Silent_p.P612P|TIAM2_uc003qqf.2_Silent_p.P455P|TIAM2_uc011efl.1_Silent_p.P415P|TIAM2_uc003qqg.2_Silent_p.P391P|TIAM2_uc003qqh.2_Silent_p.P4P	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1079					apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		TGGAAGGACCGCGGGAGAATC	0.557													13	70					0	0	0.00245	0	0		A	155561732	A	A	155561732	2	1	209	1	0	0	0	0	0	0	0	1	15916	1074	38	1		1	TIAM2	6	155561732	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	790451	155561732	15553335	459	100874											
SYNJ2	8871	broad.mit.edu	37	chr6	158497676	158497676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agatttttaaggactttcacGaaggagccattaactttgga	13	13	9	6	1	1	1	1	0	0	1	1	5	1	4	1	3	2	0	1	3	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:158497676G>A	uc003qqx.1	+	17	2386	c.2311G>A	c.(2311-2313)GAA>AAA	p.E771K	SYNJ2_uc003qqw.1_Missense_Mutation_p.E771K|SYNJ2_uc003qqy.1_Missense_Mutation_p.E484K|SYNJ2_uc003qqz.1_Missense_Mutation_p.E388K|SYNJ2_uc003qra.1_Missense_Mutation_p.E114K	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	synaptojanin 2	771	Catalytic (By similarity).						nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(65;4.42e-18)|BRCA - Breast invasive adenocarcinoma(81;4.23e-05)		GGACTTTCACGAAGGAGCCAT	0.463													5	73					0	0	0.001168	0	0		A	158497676	A	A	158497676	3	1	209	1	0	0	0	0	1	0	0	0	15478	1059	37	1	2377	1	SYNJ2	6	158497676	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2935944	158497676	12617391	460	100875											
KIF25	3834	broad.mit.edu	37	chr6	168439243	168439243	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttcccgcaggctcattttgGaaaatacctcaagaagccca	12	10	7	12	1	2	1	2	0	0	1	3	2	3	2	3	2	2	2	3	2	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:168439243G>A	uc003qwk.1	+	5	590	c.328G>A	c.(328-330)GAA>AAA	p.E110K	KIF25_uc003qwl.1_Missense_Mutation_p.E110K	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	110	Kinesin-motor.				microtubule-based movement|mitotic sister chromatid segregation	cytoplasm|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(1)|pancreas(1)	2		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		GCTCATTTTGGAAAATACCTC	0.438													4	74					0	0	0.001168	0	0		A	168439243	A	A	168439243	3	1	209	1	0	0	0	0	1	0	0	0	8309	1175	41	4	342	4	KIF25	6	168439243	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	9941567	168439243	2675824	461	100876											
FAM120B	84498	broad.mit.edu	37	chr6	170632250	170632250	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagattgaatgcagcaacacCctagaagatgagcttgacca	15	7	10	9	0	0	6	0	3	0	3	0	7	0	6	2	0	4	3	2	0	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr6:170632250C>A	uc003qxp.2	+	3	1926	c.1818C>A	c.(1816-1818)ACC>ACA	p.T606T	FAM120B_uc003qxo.1_Silent_p.T606T|FAM120B_uc011ehd.1_Intron	NM_032448	NP_115824	Q96EK7	F120B_HUMAN	family with sequence similarity 120B	606					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1		Breast(66;0.000338)|Esophageal squamous(34;0.241)		OV - Ovarian serous cystadenocarcinoma(33;3.94e-22)|BRCA - Breast invasive adenocarcinoma(81;6.47e-06)|GBM - Glioblastoma multiforme(31;0.0899)		GCAGCAACACCCTAGAAGATG	0.483													19	54					1.96292e-10	2.16892e-10	0.010504	1	0		A	170632250	A	A	170632250	2	1	209	1	0	0	0	0	0	0	0	1	5428	610	22	5		5	FAM120B	6	170632250	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2193007	170632250	482817	462	100877											
KIAA0415	9907	broad.mit.edu	37	chr7	4821204	4821204	+	Missense_Mutation	SNP	A	G	G	1	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	catctcgccttccaggctggAgaagacatgcgtagacctgc	9	8	11	13	2	1	3	0	0	1	3	3	4	2	3	3	2	2	2	3	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:4821204A>G	uc003sne.2	+	3	268	c.185A>G	c.(184-186)GAG>GGG	p.E62G	KIAA0415_uc010ksp.2_RNA	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	62					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		TCCAGGCTGGAGAAGACATGC	0.692													8	26					0	0	0.00308	0	0		G	4821204	G	G	4821204	3	3	209	1	0	0	0	0	1	0	0	0	8191	304	11	3	195	3	KIAA0415	7	4821204	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08		4821204	154317459	463	100878											
KIAA0415	9907	broad.mit.edu	37	chr7	4830319	4830319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctaggtgtgggccatcggcGagtacctgtcggtgacctac	6	9	14	12	3	0	1	0	1	0	0	2	2	0	1	4	4	2	1	4	4	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:4830319G>A	uc003sne.2	+	16	2037	c.1954G>A	c.(1954-1956)GAG>AAG	p.E652K	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_Missense_Mutation_p.E129K	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	652					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		GGCCATCGGCGAGTACCTGTC	0.652													5	22					0	0	0.000602	0	0		A	4830319	A	A	4830319	3	1	209	1	0	0	0	0	1	0	0	0	8191	1059	37	1	2016	1	KIAA0415	7	4830319	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	9115	4830319	154308344	464	100879											
WIPI2	26100	broad.mit.edu	37	chr7	5257644	5257644	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttgccacggcttcggagaAggtgagtctgcttttccccg	6	11	12	12	3	1	2	0	1	1	1	3	3	2	2	3	3	2	2	3	3	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:5257644A>C	uc003snv.2	+	7	884	c.668A>C	c.(667-669)AAG>ACG	p.K223T	WIPI2_uc003snw.2_Missense_Mutation_p.K223T|WIPI2_uc003snx.2_Missense_Mutation_p.K205T|WIPI2_uc003sny.2_Missense_Mutation_p.K205T|WIPI2_uc010ksv.2_Missense_Mutation_p.K79T|WIPI2_uc003snz.2_3'UTR|WIPI2_uc003soa.2_Missense_Mutation_p.K164T	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	223	WD 1.				autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		GCTTCGGAGAAGGTGAGTCTG	0.527													18	117					0	0	0.00499	0	0		C	5257644	C	C	5257644	3	2	209	1	0	0	0	0	1	0	0	0	17397	86	3	5	728	5	WIPI2	7	5257644	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	427325	5257644	153881019	465	100880											
TNRC18	84629	broad.mit.edu	37	chr7	5415855	5415855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcccgctccatcagctccGctgcagggacagagacagtg	8	6	13	14	2	1	1	1	0	0	1	3	3	3	2	3	2	2	4	3	2	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:5415855G>A	uc003soi.3	-	9	2958	c.2609C>T	c.(2608-2610)GCG>GTG	p.A870V		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	870							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CATCAGCTCCGCTGCAGGGAC	0.692													3	8					0	0	0.009096	0	0		A	5415855	A	A	5415855	3	1	209	1	0	0	0	0	1	0	0	0	16364	1101	38	1	6385	1	TNRC18	7	5415855	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	158211	5415855	153722808	466	100881											
IGF2BP3	10643	broad.mit.edu	37	chr7	23385595	23385596	+	Frame_Shift_Ins	INS	-	T	T																															agtgtctgtgtcttgctcaaINStttttttaagatttcttcct																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:23385595_23385596insT	uc003swg.2	-	8	1170_1171	c.904_905insA	c.(904-906)ATTfs	p.I302fs	IGF2BP3_uc003swf.2_5'UTR	NM_006547	NP_006538	O00425	IF2B3_HUMAN	insulin-like growth factor 2 mRNA binding	302	KH 2.				anatomical structure morphogenesis|negative regulation of translation|translation	cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			ovary(2)	2						GTCTTGCTCAATTTTTTTAAGA	0.351													24	49	---	---	---	---						.	T	23385596	T	T	23385595	7	5	209	1	0	1	1	0	0	0	0	0	7591	101	4	0	866	0	IGF2BP3	7	23385595	Frame_Shift_Ins	INS	-	TCGA-HU-A4GN-01A-11D-A25D-08	17969740	23385595	135753068	467	100882											
GHRHR	2692	broad.mit.edu	37	chr7	31013693	31013693	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctacctgaactgcctcCtggcctccacctcccccagc	5	8	6	22	1	1	1	0	1	1	0	4	1	4	1	9	1	4	0	9	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:31013693C>A	uc003tbx.2	+	7	739	c.691C>A	c.(691-693)CTG>ATG	p.L231M	GHRHR_uc003tbw.1_Missense_Mutation_p.L231M|GHRHR_uc003tby.2_Missense_Mutation_p.L167M|GHRHR_uc003tbz.2_Intron	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	231	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	GAACTGCCTCCTGGCCTCCAC	0.622													15	106					2.62699e-14	2.95434e-14	0.003163	1	0		A	31013693	A	A	31013693	3	1	209	1	0	0	0	0	1	0	0	0	6388	680	24	5	717	5	GHRHR	7	31013693	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7628098	31013693	128124970	468	100883											
PDE1C	5137	broad.mit.edu	37	chr7	31887708	31887708	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tatacagaatagctggatcaGacctgaacagaaagccaagc	17	6	9	9	0	1	4	1	1	0	3	1	5	1	5	2	1	5	1	2	1	7	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:31887708G>A	uc003tcm.1	-	9	1323	c.854C>T	c.(853-855)TCT>TTT	p.S285F	PDE1C_uc003tcn.1_Missense_Mutation_p.S285F|PDE1C_uc003tco.1_Missense_Mutation_p.S345F|PDE1C_uc003tcr.2_Missense_Mutation_p.S285F|PDE1C_uc003tcs.2_Missense_Mutation_p.S285F	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	285	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			AGCTGGATCAGACCTGAACAG	0.388													5	76					0	0	0.000602	0	0		A	31887708	A	A	31887708	3	1	209	1	0	0	0	0	1	0	0	0	11654	942	33	4	1086	4	PDE1C	7	31887708	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	874015	31887708	127250955	469	100884											
FKBP9	11328	broad.mit.edu	37	chr7	33014897	33014897	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacacctatttcaagcccccGagttgccctcggaccatcca	9	8	6	18	2	1	0	1	0	0	0	3	2	2	1	6	1	2	1	6	1	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:33014897G>A	uc003tdh.2	+	3	652	c.471G>A	c.(469-471)CCG>CCA	p.P157P	AVL9_uc011kai.1_Intron|FKBP9_uc011kak.1_RNA|FKBP9_uc011kal.1_Silent_p.P210P|FKBP9_uc003tdg.2_Silent_p.P157P|FKBP9_uc010kwm.2_Silent_p.P64P	NM_007270	NP_009201	O95302	FKBP9_HUMAN	FK506 binding protein 9 precursor	157					protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|ovary(1)	14			GBM - Glioblastoma multiforme(11;0.0156)			TCAAGCCCCCGAGTTGCCCTC	0.483													14	61					0	0	0.003163	0	0		A	33014897	A	A	33014897	2	1	209	1	0	0	0	0	0	0	0	1	5929	1045	37	1		1	FKBP9	7	33014897	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1127189	33014897	126123766	470	100885											
GLI3	2737	broad.mit.edu	37	chr7	42005111	42005111	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaacccaaaggcgcgagtcTgcggcacagcgggccgcggc	9	2	16	14	6	1	1	0	0	1	1	1	2	1	1	2	4	3	1	2	4	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:42005111T>C	uc011kbh.1	-	15	3651	c.3560A>G	c.(3559-3561)CAG>CGG	p.Q1187R	GLI3_uc011kbg.1_Missense_Mutation_p.Q1128R	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	1187					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						GGCGCGAGTCTGCGGCACAGC	0.652									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				9	155					0	0	0.008291	0	0		C	42005111	C	C	42005111	3	2	209	1	0	0	0	0	1	0	0	0	6454	1580	55	3	1186	3	GLI3	7	42005111	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	8990214	42005111	117133552	471	100886											
CAMK2B	816	broad.mit.edu	37	chr7	44302628	44302628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttggaatgcttcagaaggcGgcagatccgagcctctctct	8	10	12	11	2	3	2	1	0	2	2	5	4	4	3	2	3	2	3	2	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:44302628G>A	uc003tkq.2	-	3	406	c.196C>T	c.(196-198)CGC>TGC	p.R66C	CAMK2B_uc003tkp.2_Missense_Mutation_p.R66C|CAMK2B_uc003tkx.2_Missense_Mutation_p.R66C|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Missense_Mutation_p.R66C|CAMK2B_uc003tks.2_Missense_Mutation_p.R66C|CAMK2B_uc003tku.2_Missense_Mutation_p.R66C|CAMK2B_uc003tkv.2_Missense_Mutation_p.R66C|CAMK2B_uc003tkt.2_Missense_Mutation_p.R66C|CAMK2B_uc003tkw.2_Missense_Mutation_p.R66C|CAMK2B_uc010kyc.2_Missense_Mutation_p.R66C	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	66	Protein kinase.				interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						TTCAGAAGGCGGCAGATCCGA	0.612													15	61					0	0	0.004007	0	0		A	44302628	A	A	44302628	3	1	209	1	0	0	0	0	1	0	0	0	2603	1116	39	1	1891	1	CAMK2B	7	44302628	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2297517	44302628	114836035	472	100887											
IKZF1	10320	broad.mit.edu	37	chr7	50367275	50367275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgatactccagatgagggcGatgagcccatgccgatcccc	9	6	12	14	3	0	3	0	2	0	1	2	6	2	3	5	1	3	0	5	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:50367275G>A	uc003tow.3	+	4	250	c.82G>A	c.(82-84)GAT>AAT	p.D28N	IKZF1_uc003tox.3_Missense_Mutation_p.D28N|IKZF1_uc003toy.3_Missense_Mutation_p.D28N|IKZF1_uc011kck.1_Missense_Mutation_p.D28N|IKZF1_uc003toz.3_5'UTR|IKZF1_uc010kyx.2_5'UTR|IKZF1_uc003tov.1_Missense_Mutation_p.D28N	NM_006060	NP_006051	Q13422	IKZF1_HUMAN	zinc finger protein, subfamily 1A, 1 (Ikaros)	28					cell cycle|chromatin modification|mesoderm development	cytoplasm|nucleus	zinc ion binding	p.?(17)		haematopoietic_and_lymphoid_tissue(147)|lung(1)	148	Glioma(55;0.08)|all_neural(89;0.245)	Acute lymphoblastic leukemia(4;7.29e-10)|all_hematologic(4;4.8e-07)				AGATGAGGGCGATGAGCCCAT	0.597			D		ALL								6	25					0	0	0.001168	0	0		A	50367275	A	A	50367275	3	1	209	1	0	0	0	0	1	0	0	0	7630	1058	37	1	88	1	IKZF1	7	50367275	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6064647	50367275	108771388	473	100888											
NCF1	653361	broad.mit.edu	37	chr7	74197385	74197385	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgggggacgtggtggaggtCgtagagaagagcgagagcgg	10	4	22	5	5	0	3	0	0	0	3	1	7	0	5	0	6	2	1	0	6	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:74197385C>T	uc003ubb.2	+	6	625	c.555C>T	c.(553-555)GTC>GTT	p.V185V	NCF1_uc010lbs.1_Silent_p.V185V|NCF1_uc011kfh.1_Missense_Mutation_p.R105C	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	185	SH3 1.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						TGGTGGAGGTCGTAGAGAAGA	0.642													14	57					0	0	0.003163	0	0		T	74197385	T	T	74197385	2	4	209	1	0	0	0	0	0	0	0	1	10235	871	31	1		1	NCF1	7	74197385	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	23830110	74197385	84941278	474	100889											
WBSCR16	81554	broad.mit.edu	37	chr7	74486480	74486480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctttccggctcctgtgaaatCcaagctgagaatctttgttg	8	14	9	10	1	1	2	0	2	1	1	4	3	4	2	3	1	1	3	3	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:74486480C>T	uc003ubr.2	-	2	554	c.428G>A	c.(427-429)GGA>GAA	p.G143E	WBSCR16_uc010lcb.1_Missense_Mutation_p.G143E	NM_030798	NP_110425	Q96I51	WBS16_HUMAN	Williams-Beuren syndrome chromosome region 16	143	RCC1 1.										0						CCTGTGAAATCCAAGCTGAGA	0.438													7	100					0	0	0.001984	0	0		T	74486480	T	T	74486480	3	4	209	1	0	0	0	0	1	0	0	0	17289	855	30	4	1006	4	WBSCR16	7	74486480	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	289095	74486480	84652183	475	100890											
HIP1	3092	broad.mit.edu	37	chr7	75167506	75167506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tttggctctattctttttcgGttaccacttcttgcagtgta	5	20	7	9	1	3	0	0	0	3	0	4	0	3	0	1	2	2	4	1	2	3	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:75167506G>A	uc003uds.1	-	31	3142	c.3101C>T	c.(3100-3102)ACC>ATC	p.T1034I	HIP1_uc011kfz.1_Missense_Mutation_p.T860I	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	1034					activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						TTCTTTTTCGGTTACCACTTC	0.418			T	PDGFRB	CMML								21	132					0	0	0.00278	0	0		A	75167506	A	A	75167506	3	1	209	1	0	0	0	0	1	0	0	0	7130	1261	44	4	16	4	HIP1	7	75167506	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	681026	75167506	83971157	476	100891											
RSBN1L	222194	broad.mit.edu	37	chr7	77325880	77325880	+	Missense_Mutation	SNP	T	G	G	0	1	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	cgtttggcaagctgcaactcTcctcccgggaccctccgggt	5	9	11	16	3	1	0	0	0	1	0	4	1	3	1	4	3	3	4	4	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:77325880T>G	uc010ldt.1	+	1	138	c.94T>G	c.(94-96)TCC>GCC	p.S32A	RSBN1L_uc003ugm.2_5'Flank|uc003ugj.1_RNA	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	32						nucleus				ovary(1)	1						GCTGCAACTCTCCTCCCGGGA	0.667													17	100					0	0	0.00499	0	0		G	77325880	G	G	77325880	3	3	209	1	0	0	0	0	1	0	0	0	13722	1551	54	5	96	5	RSBN1L	7	77325880	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2158374	77325880	81812783	477	100892											
SEMA3C	10512	broad.mit.edu	37	chr7	80430101	80430101	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tgtaaaaatgccatacactaGtgttgtcctcgggttatcag	11	13	9	8	1	1	0	1	0	0	0	3	0	2	0	2	1	2	3	2	1	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:80430101G>T	uc003uhj.2	-	10	1520	c.958C>A	c.(958-960)CTA>ATA	p.L320I	SEMA3C_uc011kgw.1_Missense_Mutation_p.L338I|SEMA3C_uc011kgx.1_Missense_Mutation_p.L172I	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	320	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						CCATACACTAGTGTTGTCCTC	0.274													6	79					0.00307968	0.0031736	0.00308	1	0		T	80430101	T	T	80430101	3	4	209	1	0	0	0	0	1	0	0	0	14051	1020	36	5	1333	5	SEMA3C	7	80430101	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3104221	80430101	78708562	478	100893											
DMTF1	9988	broad.mit.edu	37	chr7	86824094	86824094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	accacatggctttatccaggCatctgatgttatagatactg	11	13	8	9	0	1	2	0	1	1	1	2	2	2	2	2	2	1	3	2	2	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:86824094C>T	uc003uih.2	+	17	2449	c.2123C>T	c.(2122-2124)GCA>GTA	p.A708V	DMTF1_uc003uii.2_Missense_Mutation_p.A442V|DMTF1_uc003uij.2_Missense_Mutation_p.A442V|DMTF1_uc011khb.1_Missense_Mutation_p.A620V|DMTF1_uc003uik.2_RNA|DMTF1_uc003uil.2_Missense_Mutation_p.A708V|DMTF1_uc003uin.2_Missense_Mutation_p.A442V	NM_001142327	NP_001135799	Q9Y222	DMTF1_HUMAN	cyclin D binding myb-like transcription factor 1	708	Interaction with CCND1, CCND2 and CCND3 (By similarity).|Required for transcriptional activation (By similarity).				cell cycle	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Esophageal squamous(14;0.0058)					TTTATCCAGGCATCTGATGTT	0.343													15	44					0	0	0.003163	0	0		T	86824094	T	T	86824094	3	4	209	1	0	0	0	0	1	0	0	0	4598	710	25	2	2181	2	DMTF1	7	86824094	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6393993	86824094	72314569	479	100894											
ADAM22	53616	broad.mit.edu	37	chr7	87762257	87762257	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcgttgctgaaaggaggaggCgtgaatgaagtaggtgtgaa	12	9	17	3	2	0	4	0	4	0	0	1	6	0	6	0	4	1	3	0	4	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:87762257C>T	uc003ujn.2	+	12	1147	c.1068C>T	c.(1066-1068)GGC>GGT	p.G356G	ADAM22_uc003ujk.1_Silent_p.G356G|ADAM22_uc003ujl.1_Silent_p.G356G|ADAM22_uc003ujm.2_Silent_p.G356G|ADAM22_uc003ujo.2_Silent_p.G356G|ADAM22_uc003ujp.1_Silent_p.G408G	NM_021723	NP_068369	Q9P0K1	ADA22_HUMAN	ADAM metallopeptidase domain 22 isoform 1	356	Peptidase M12B.|Extracellular (Potential).				cell adhesion|central nervous system development|negative regulation of cell adhesion|proteolysis	integral to membrane	integrin binding|metalloendopeptidase activity|protein binding|receptor activity|zinc ion binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Esophageal squamous(14;0.00202)		STAD - Stomach adenocarcinoma(171;0.215)			AAGGAGGAGGCGTGAATGAAG	0.403													9	107					0	0	0.004482	0	0		T	87762257	T	T	87762257	2	4	209	1	0	0	0	0	0	0	0	1	244	755	27	1		1	ADAM22	7	87762257	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	938163	87762257	71376406	480	100895											
CYP51A1	1595	broad.mit.edu	37	chr7	91763674	91763674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcatcccagccgccgccGccattcactccgtcggaaac	8	5	9	19	5	1	0	1	0	0	0	4	1	3	1	6	1	3	2	6	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:91763674G>A	uc003ulm.3	-	1	167	c.5C>T	c.(4-6)GCG>GTG	p.A2V	CYP51A1_uc011khn.1_Intron|CYP51A1_uc003uln.3_Intron|uc003ulo.1_5'Flank	NM_000786	NP_000777	Q16850	CP51A_HUMAN	cytochrome P450, family 51, subfamily A,	Error:Variant_position_missing_in_Q16850_after_alignment					cholesterol biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|sterol 14-demethylase activity				0	all_cancers(62;2.16e-09)|all_epithelial(64;3.86e-08)|Breast(17;0.00206)|all_lung(186;0.169)|all_hematologic(106;0.215)|Lung NSC(181;0.227)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)		Fluconazole(DB00196)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Miconazole(DB01110)|Terconazole(DB00251)	AGCCGCCGCCGCCATTCACTC	0.657											OREG0018160	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	22					0	0	0.009096	0	0		A	91763674	A	A	91763674	3	1	209	1	0	0	0	0	1	0	0	0	4198	1087	38	1	1564	1	CYP51A1	7	91763674	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4001417	91763674	67374989	481	100896											
TFPI2	7980	broad.mit.edu	37	chr7	93519522	93519522	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgttgccctcgcagcccccGtacaggaactggcggcagct	6	6	13	16	4	0	0	0	0	0	0	1	1	0	1	3	3	5	5	3	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:93519522G>A	uc003umy.1	-	2	273	c.198C>T	c.(196-198)TAC>TAT	p.Y66Y	GNGT1_uc003umx.1_Intron|TFPI2_uc003umz.1_Silent_p.Y66Y|TFPI2_uc003una.1_Silent_p.Y55Y|TFPI2_uc003unb.1_Silent_p.Y66Y|TFPI2_uc010lfg.1_Intron	NM_006528	NP_006519	P48307	TFPI2_HUMAN	tissue factor pathway inhibitor 2 precursor	66	BPTI/Kunitz inhibitor 1.				blood coagulation	proteinaceous extracellular matrix	extracellular matrix structural constituent|serine-type endopeptidase inhibitor activity			pancreas(1)	1	all_cancers(62;4.45e-10)|all_epithelial(64;2.92e-09)|Lung NSC(181;0.218)		STAD - Stomach adenocarcinoma(171;0.000967)			CGCAGCCCCCGTACAGGAACT	0.602													5	90					0	0	0.001168	0	0		A	93519522	A	A	93519522	2	1	209	1	0	0	0	0	0	0	0	1	15834	1140	40	1		1	TFPI2	7	93519522	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1755848	93519522	65619141	482	100897											
DLX5	1749	broad.mit.edu	37	chr7	96651532	96651532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcccagcgaggcggccagctCggcgcgttccggcaaggcga	6	4	16	15	7	0	0	0	0	0	0	3	2	2	0	3	5	2	3	3	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:96651532C>T	uc003uon.2	-	2	713	c.505G>A	c.(505-507)GAG>AAG	p.E169K	DLX5_uc011kim.1_Missense_Mutation_p.E169K	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	169	Homeobox.				cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	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)					GCGGCCAGCTCGGCGCGTTCC	0.562													16	127					0	0	0.007413	0	0		T	96651532	T	T	96651532	3	4	209	1	0	0	0	0	1	0	0	0	4580	893	31	1	372	1	DLX5	7	96651532	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3132010	96651532	62487131	483	100898											
NPTX2	4885	broad.mit.edu	37	chr7	98249051	98249051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctggagaggcagcttctgCgcaaggtggcagagctggag	9	6	18	8	1	1	2	0	0	1	2	1	4	1	3	0	5	4	6	0	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:98249051C>T	uc003upl.2	+	2	700	c.523C>T	c.(523-525)CGC>TGC	p.R175C		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	175					synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			GCAGCTTCTGCGCAAGGTGGC	0.642													10	58					0	0	0.008291	0	0		T	98249051	T	T	98249051	3	4	209	1	0	0	0	0	1	0	0	0	10622	768	27	1	529	1	NPTX2	7	98249051	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1597519	98249051	60889612	484	100899											
TRRAP	8295	broad.mit.edu	37	chr7	98519385	98519385	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgattttcaggctctgtggCgcaccttacgcaaccctgct	6	12	9	14	2	2	1	1	1	1	0	2	1	2	1	2	2	3	4	2	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:98519385C>T	uc003upp.2	+	21	2841	c.2632C>T	c.(2632-2634)CGC>TGC	p.R878C	TRRAP_uc011kis.1_Missense_Mutation_p.R878C|TRRAP_uc003upr.2_Missense_Mutation_p.R570C	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	878					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GGCTCTGTGGCGCACCTTACG	0.483													13	70					0	0	0.00245	0	0		T	98519385	T	T	98519385	3	4	209	1	0	0	0	0	1	0	0	0	16627	768	27	1	2710	1	TRRAP	7	98519385	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	270334	98519385	60619278	485	100900											
TRRAP	8295	broad.mit.edu	37	chr7	98606058	98606058	+	Silent	SNP	A	G	G	1	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	gtggaggacaacccctcttcActttcccttgtggagatcta	8	12	9	12	0	3	1	1	0	2	1	4	4	4	3	3	3	1	0	3	3	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:98606058A>G	uc003upp.2	+	69	10979	c.10770A>G	c.(10768-10770)TCA>TCG	p.S3590S	TRRAP_uc011kis.1_Silent_p.S3561S|TRRAP_uc003upr.2_Silent_p.S3296S	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3590	PI3K/PI4K.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			ACCCCTCTTCACTTTCCCTTG	0.607													45	166					0	0	0.01441	0	0		G	98606058	G	G	98606058	2	3	209	1	0	0	0	0	0	0	0	1	16627	146	6	3		3	TRRAP	7	98606058	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	86673	98606058	60532605	486	100901											
ZNF498	221785	broad.mit.edu	37	chr7	99217366	99217366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttttcggctgaggtttcGgcagttccgctaccaggagg	6	11	14	10	3	0	1	0	1	0	0	3	3	1	2	2	5	1	5	2	5	1	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:99217366G>A	uc003url.1	+	4	464	c.137G>A	c.(136-138)CGG>CAG	p.R46Q	ZNF498_uc003urm.1_5'UTR|ZNF498_uc010lge.1_5'UTR|ZNF498_uc003urn.2_RNA|ZNF498_uc010lgf.1_Missense_Mutation_p.R46Q|ZNF498_uc003uro.1_5'Flank	NM_145115	NP_660090	Q6NSZ9	ZN498_HUMAN	zinc finger and SCAN domain containing 25	46	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_epithelial(64;1.95e-08)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					CTGAGGTTTCGGCAGTTCCGC	0.592													50	168					0	0	0.01441	0	0		A	99217366	A	A	99217366	3	1	209	1	0	0	0	0	1	0	0	0	17972	1116	39	1	139	1	ZNF498	7	99217366	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	611308	99217366	59921297	487	100902											
SRRT	51593	broad.mit.edu	37	chr7	100482596	100482596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgacgacagctttgacgaggGcagcgtgtcagagtctgagt	9	9	15	8	3	2	4	1	3	1	1	2	6	2	4	0	1	2	2	0	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:100482596G>A	uc003uwy.2	+	10	1362	c.1094G>A	c.(1093-1095)GGC>GAC	p.G365D	SRRT_uc010lhl.1_Missense_Mutation_p.G365D|SRRT_uc003uxa.2_Missense_Mutation_p.G365D|SRRT_uc003uwz.2_Missense_Mutation_p.G365D	NM_015908	NP_056992	Q9BXP5	SRRT_HUMAN	arsenate resistance protein 2 isoform a	365	Glu-rich.				cell proliferation|primary miRNA processing|response to arsenic-containing substance	cytoplasm|nucleoplasm	protein binding			ovary(2)	2						TTTGACGAGGGCAGCGTGTCA	0.582													36	240					0	0	0.00623	0	0		A	100482596	A	A	100482596	3	1	209	1	0	0	0	0	1	0	0	0	15197	1203	42	2	1124	2	SRRT	7	100482596	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1265230	100482596	58656067	488	100903											
MUC17	140453	broad.mit.edu	37	chr7	100674455	100674455	+	Missense_Mutation	SNP	A	G	G	1	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	agggtgcatctcccaaggggAcgtcttgaaccgtcagtgcc	8	8	13	12	2	3	1	1	1	2	0	4	2	3	2	3	3	3	1	3	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:100674455A>G	uc003uxp.1	+	2	190	c.137A>G	c.(136-138)GAC>GGC	p.D46G	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	46	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					TCCCAAGGGGACGTCTTGAAC	0.547													21	136					0	0	0.014323	0	0		G	100674455	G	G	100674455	3	3	209	1	0	0	0	0	1	0	0	0	9992	275	10	3	143	3	MUC17	7	100674455	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	191859	100674455	58464208	489	100904											
RELN	5649	broad.mit.edu	37	chr7	103143664	103143664	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caattttttcagacaccttaCatccaactgagatctaataa	15	13	3	10	0	2	2	1	1	1	2	3	3	3	2	2	0	2	0	2	0	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:103143664C>T	uc003vca.2	-	52	8448	c.8288G>A	c.(8287-8289)TGT>TAT	p.C2763Y	RELN_uc010liz.2_Missense_Mutation_p.C2763Y	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2763					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		AGACACCTTACATCCAACTGA	0.388													18	67					0	0	0.007413	0	0		T	103143664	T	T	103143664	3	4	209	1	0	0	0	0	1	0	0	0	13245	478	17	4	2150	4	RELN	7	103143664	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2469209	103143664	55994999	490	100905											
LHFPL3	375612	broad.mit.edu	37	chr7	103969413	103969413	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atccagccctactggataggCgacggcgtggacaccccgca	9	5	12	15	4	0	0	0	0	0	0	1	3	1	2	4	4	2	1	4	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:103969413C>T	uc003vce.2	+	1	310	c.186C>T	c.(184-186)GGC>GGT	p.G62G	LHFPL3_uc003vcf.2_Silent_p.G62G	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	48						integral to membrane					0						ACTGGATAGGCGACGGCGTGG	0.627													13	58					0	0	0.001855	0	0		T	103969413	T	T	103969413	2	4	209	1	0	0	0	0	0	0	0	1	8782	755	27	1		1	LHFPL3	7	103969413	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	825749	103969413	55169250	491	100906											
PIK3CG	5294	broad.mit.edu	37	chr7	106508673	106508673	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaactgcatcttcatcGtcattcaccgcagcaccacc	11	8	4	18	2	4	0	3	0	1	0	5	0	4	0	4	0	4	3	4	0	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:106508673G>A	uc003vdv.3	+	2	752	c.667G>A	c.(667-669)GTC>ATC	p.V223I	PIK3CG_uc003vdu.2_Missense_Mutation_p.V223I|PIK3CG_uc003vdw.2_Missense_Mutation_p.V223I	NM_002649	NP_002640	P48736	PK3CG_HUMAN	phosphoinositide-3-kinase, catalytic, gamma	223					G-protein coupled receptor protein signaling pathway|phosphatidylinositol-mediated signaling|platelet activation	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity|protein binding			lung(16)|central_nervous_system(8)|breast(5)|pancreas(3)|stomach(2)|ovary(2)|upper_aerodigestive_tract(1)|skin(1)	38						CATCTTCATCGTCATTCACCG	0.592													29	116					0	0	0.009535	0	0		A	106508673	A	A	106508673	3	1	209	1	0	0	0	0	1	0	0	0	11935	1145	40	1	669	1	PIK3CG	7	106508673	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2539260	106508673	52629990	492	100907											
LAMB1	3912	broad.mit.edu	37	chr7	107580735	107580735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaccctcaacaccctcaaCgcagacacactggcccgtgg	10	5	9	17	2	2	1	2	0	0	1	2	2	2	2	3	3	2	1	3	3	2	0	rs146247883		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:107580735C>T	uc003vew.2	-	25	3795	c.3460G>A	c.(3460-3462)GTT>ATT	p.V1154I	LAMB1_uc003vev.2_Missense_Mutation_p.V1178I	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1154	Laminin EGF-like 13.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACACCCTCAACGCAGACACAC	0.587													19	55					0	0	0.006122	0	0		T	107580735	T	T	107580735	3	4	209	1	0	0	0	0	1	0	0	0	8626	536	19	1	1940	1	LAMB1	7	107580735	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1072062	107580735	51557928	493	100908											
NRCAM	4897	broad.mit.edu	37	chr7	107824976	107824976	+	Silent	SNP	T	G	G	0	1	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	ggagacagcttcagctgggcTgtggtctgtgttccagaaac	8	10	14	9	0	2	2	1	0	1	2	3	3	3	2	1	3	3	4	1	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:107824976T>G	uc003vfb.2	-	21	2589	c.2118A>C	c.(2116-2118)ACA>ACC	p.T706T	NRCAM_uc003vfc.2_Silent_p.T690T|NRCAM_uc011kmk.1_Silent_p.T701T|NRCAM_uc003vfd.2_Silent_p.T682T|NRCAM_uc003vfe.2_Silent_p.T682T	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	706	Fibronectin type-III 1.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						TCAGCTGGGCTGTGGTCTGTG	0.517													8	41					0	0	0.00308	0	0		G	107824976	G	G	107824976	2	3	209	1	0	0	0	0	0	0	0	1	10663	1567	55	5		5	NRCAM	7	107824976	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	244241	107824976	51313687	494	100909											
DOCK4	9732	broad.mit.edu	37	chr7	111644152	111644152	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctccaatttccaatgacagGccatatggaacggttcctcg	10	11	8	12	2	1	1	0	1	1	0	5	2	3	2	4	3	1	1	4	3	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:111644152G>A	uc003vfx.2	-	2	341	c.72C>T	c.(70-72)GGC>GGT	p.G24G	DOCK4_uc003vfy.2_Silent_p.G24G|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Silent_p.G24G|DOCK4_uc003vgb.1_5'UTR	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	24	SH3.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				CCAATGACAGGCCATATGGAA	0.378													5	9					0	0	0.001168	0	0		A	111644152	A	A	111644152	2	1	209	1	0	0	0	0	0	0	0	1	4695	1190	42	2		2	DOCK4	7	111644152	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3819176	111644152	47494511	495	100910											
WNT16	51384	broad.mit.edu	37	chr7	120971947	120971947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttcctagatttccccatcGgaaacaccacgggcaaagaa	14	7	8	12	2	0	2	0	0	0	2	3	3	2	3	4	2	1	2	4	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:120971947G>A	uc003vjw.2	+	3	819	c.562G>A	c.(562-564)GGA>AGA	p.G188R	WNT16_uc003vjv.2_Missense_Mutation_p.G178R|WNT16_uc010lkl.2_Intron	NM_057168	NP_476509	Q9UBV4	WNT16_HUMAN	wingless-type MMTV integration site family,	188					anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|keratinocyte differentiation|keratinocyte proliferation|negative regulation of cell death|optic cup formation involved in camera-type eye development|oxidative stress-induced premature senescence|positive regulation of gene expression|positive regulation of JNK cascade|positive regulation of phosphatidylinositol 3-kinase cascade|replicative senescence|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			lung(2)|ovary(2)|large_intestine(1)	5	all_neural(327;0.117)					TTTCCCCATCGGAAACACCAC	0.463													5	74					0	0	0.000602	0	0		A	120971947	A	A	120971947	3	1	209	1	0	0	0	0	1	0	0	0	17411	1117	39	1	641	1	WNT16	7	120971947	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	9327795	120971947	38166716	496	100911											
GPR37	2861	broad.mit.edu	37	chr7	124404756	124404756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagccgggtcacggcccGgggccgccggcaggtcccag	4	3	17	17	5	1	0	1	0	0	0	2	0	2	0	5	6	2	2	5	6	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:124404756G>A	uc003vli.2	-	1	926	c.275C>T	c.(274-276)CCG>CTG	p.P92L		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	92	Extracellular (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						GTCACGGCCCGGGGCCGCCGG	0.721													4	29					0	0	0.000602	0	0		A	124404756	A	A	124404756	3	1	209	1	0	0	0	0	1	0	0	0	6706	1116	39	1	1574	1	GPR37	7	124404756	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3432809	124404756	34733907	497	100912											
SND1	27044	broad.mit.edu	37	chr7	127714599	127714599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaggccggcaactttatcGgctggctgcacatcgacggt	9	8	12	12	4	0	0	0	0	0	0	2	1	0	0	1	5	2	4	1	5	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:127714599G>A	uc003vmi.2	+	17	2051	c.1825G>A	c.(1825-1827)GGC>AGC	p.G609S	SND1_uc010lle.2_Missense_Mutation_p.G262S	NM_014390	NP_055205	Q7KZF4	SND1_HUMAN	staphylococcal nuclease domain containing 1	609	TNase-like 4.				gene silencing by RNA|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	melanosome|nucleus|RNA-induced silencing complex	nuclease activity|nucleic acid binding|protein binding|transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						CAACTTTATCGGCTGGCTGCA	0.632													9	31					0	0	0.004482	0	0		A	127714599	A	A	127714599	3	1	209	1	0	0	0	0	1	0	0	0	14869	1116	39	1	1891	1	SND1	7	127714599	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3309843	127714599	31424064	498	100913											
FLNC	2318	broad.mit.edu	37	chr7	128482407	128482407	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctcctggggaggcgtaaaCgtgcccaagagccccttccg	8	7	12	14	3	1	1	0	0	1	1	3	2	2	2	5	3	3	1	5	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:128482407C>T	uc003vnz.3	+	14	2453	c.2244C>T	c.(2242-2244)AAC>AAT	p.N748N	FLNC_uc003voa.3_Silent_p.N748N	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	748	Filamin 5.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GAGGCGTAAACGTGCCCAAGA	0.657											OREG0018297	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	68					0	0	0.000602	0	0		T	128482407	T	T	128482407	2	4	209	1	0	0	0	0	0	0	0	1	5949	535	19	1		1	FLNC	7	128482407	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	767808	128482407	30656256	499	100914											
FLNC	2318	broad.mit.edu	37	chr7	128494150	128494150	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcggggcggggagacaaagCgcgaggtgcgggtggaggag	8	2	24	7	6	0	1	0	0	0	1	0	5	0	3	0	8	2	0	0	8	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:128494150C>T	uc003vnz.3	+	40	6816	c.6607C>T	c.(6607-6609)CGC>TGC	p.R2203C	FLNC_uc003voa.3_Missense_Mutation_p.R2170C	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2203	Intradomain insert.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GGAGACAAAGCGCGAGGTGCG	0.692													4	34					0	0	0.009096	0	0		T	128494150	T	T	128494150	3	4	209	1	0	0	0	0	1	0	0	0	5949	768	27	1	6765	1	FLNC	7	128494150	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	11743	128494150	30644513	500	100915											
PLXNA4	91584	broad.mit.edu	37	chr7	131853208	131853208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccacgttgccacggtcgcGcatggagaagctacgctggg	7	6	16	12	5	0	1	0	0	0	1	1	2	0	1	2	4	3	4	2	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:131853208G>A	uc003vra.3	-	22	4370	c.4141C>T	c.(4141-4143)CGC>TGC	p.R1381C		NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1381	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1						CCACGGTCGCGCATGGAGAAG	0.577													16	51					0	0	0.007413	0	0		A	131853208	A	A	131853208	3	1	209	1	0	0	0	0	1	0	0	0	12141	1087	38	1	1587	1	PLXNA4	7	131853208	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3359058	131853208	27285455	501	100916											
SLC13A4	26266	broad.mit.edu	37	chr7	135366416	135366416	+	Silent	SNP	T	C	C	0	1	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	gccaccattactatcaccagTccaataacgttgactcccag	12	9	5	15	1	1	1	1	1	0	0	3	1	3	1	5	0	2	1	5	0	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:135366416T>C	uc003vta.2	-	16	2465	c.1776A>G	c.(1774-1776)GGA>GGG	p.G592G	SLC13A4_uc003vtb.2_Silent_p.G593G|PL-5283_uc003vsz.3_Intron	NM_012450	NP_036582	Q9UKG4	S13A4_HUMAN	solute carrier family 13 (sodium/sulfate	592	Helical; (Potential).					integral to plasma membrane	sodium:sulfate symporter activity				0						CTATCACCAGTCCAATAACGT	0.552													15	68					0	0	0.00245	0	0		C	135366416	C	C	135366416	2	2	209	1	0	0	0	0	0	0	0	1	14419	1654	58	3		3	SLC13A4	7	135366416	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	3513208	135366416	23772247	502	100917											
CHRM2	1129	broad.mit.edu	37	chr7	136700605	136700605	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atcagaattggcaccaagacCccaaaaagtgactcatgtac	16	7	7	11	0	2	3	2	1	0	2	2	3	2	3	3	1	1	2	3	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:136700605C>G	uc003vtf.1	+	4	1616	c.993C>G	c.(991-993)ACC>ACG	p.T331T	CHRM2_uc003vtg.1_Silent_p.T331T|CHRM2_uc003vtj.1_Silent_p.T331T|CHRM2_uc003vtk.1_Silent_p.T331T|CHRM2_uc003vtl.1_Silent_p.T331T|CHRM2_uc003vtm.1_Silent_p.T331T|CHRM2_uc003vti.1_Silent_p.T331T|CHRM2_uc003vto.1_Silent_p.T331T|CHRM2_uc003vtn.1_Silent_p.T331T|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	331	Cytoplasmic (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GCACCAAGACCCCAAAAAGTG	0.453													19	74					0	0	0.010504	0	0		G	136700605	G	G	136700605	2	3	209	1	0	0	0	0	0	0	0	1	3380	610	22	5		5	CHRM2	7	136700605	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1334189	136700605	22438058	503	100918											
KIAA1549	57670	broad.mit.edu	37	chr7	138601880	138601880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acaccgtaccagtgggaatgGctttggagaaagaggccagg	12	6	15	8	1	0	2	0	0	0	2	0	4	0	3	3	5	1	2	3	5	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:138601880G>A	uc011kql.1	-	2	2541	c.2492C>T	c.(2491-2493)GCC>GTC	p.A831V	KIAA1549_uc003vuk.3_Missense_Mutation_p.A781V|KIAA1549_uc011kqj.1_Missense_Mutation_p.A831V	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	831						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AGTGGGAATGGCTTTGGAGAA	0.517			O	BRAF	pilocytic astrocytoma								7	25					0	0	0.006214	0	0		A	138601880	A	A	138601880	3	1	209	1	0	0	0	0	1	0	0	0	8260	1203	42	2	3436	2	KIAA1549	7	138601880	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1901275	138601880	20536783	504	100919											
TAS2R5	54429	broad.mit.edu	37	chr7	141490993	141490993	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tattgatcatggggattcctAgggtgaagcagacttgtcag	10	12	13	6	0	2	3	2	2	0	1	3	4	3	4	1	3	1	1	1	3	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:141490993A>G	uc003vwr.1	+	1	977	c.832A>G	c.(832-834)AGG>GGG	p.R278G		NM_018980	NP_061853	Q9NYW4	TA2R5_HUMAN	taste receptor T2R5	278	Cytoplasmic (Potential).				chemosensory behavior|sensory perception of taste		taste receptor activity				0	Melanoma(164;0.0171)					GGGGATTCCTAGGGTGAAGCA	0.493													7	155					0	0	0.00308	0	0		G	141490993	G	G	141490993	3	3	209	1	0	0	0	0	1	0	0	0	15608	411	15	3	834	3	TAS2R5	7	141490993	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2889113	141490993	17647670	505	100920											
TAS2R38	5726	broad.mit.edu	37	chr7	141673410	141673410	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattggtcagaaaccccactGcaaactccaggactgaaatg	14	7	8	12	0	1	2	1	1	0	1	2	3	2	3	3	2	3	1	3	2	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:141673410G>T	uc003vwx.1	-	1	164	c.80C>A	c.(79-81)GCA>GAA	p.A27E		NM_176817	NP_789787	P59533	T2R38_HUMAN	taste receptor, type 2, member 38	27	Helical; Name=1; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity			kidney(1)|skin(1)	2	Melanoma(164;0.0171)					AAACCCCACTGCAAACTCCAG	0.463													20	73					2.08468e-23	2.37571e-23	0.012319	1	0		T	141673410	T	T	141673410	3	4	209	1	0	0	0	0	1	0	0	0	15600	1319	46	5	925	5	TAS2R38	7	141673410	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	182417	141673410	17465253	506	100921											
TRPV6	55503	broad.mit.edu	37	chr7	142575711	142575711	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccttgcaatcctcatacTtgagcaacttgttcagggcc	9	11	8	13	0	2	1	2	1	0	0	3	1	3	1	3	1	4	4	3	1	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:142575711T>C	uc003wbx.1	-	2	413	c.197A>G	c.(196-198)AAG>AGG	p.K66R	TRPV6_uc003wbw.1_5'Flank|TRPV6_uc010lou.1_5'UTR	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	66	ANK 1.|Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					ATCCTCATACTTGAGCAACTT	0.517													11	63					0	0	0.013537	0	0		C	142575711	C	C	142575711	3	2	209	1	0	0	0	0	1	0	0	0	16626	1609	56	3	2036	3	TRPV6	7	142575711	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	902301	142575711	16562952	507	100922											
TRPV5	56302	broad.mit.edu	37	chr7	142609851	142609851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcaaaggtggtgaacagtgCcatggggtagtcatagaatt	12	10	13	6	0	2	2	2	1	0	1	2	2	2	2	1	4	2	1	1	4	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:142609851C>T	uc003wby.1	-	13	1849	c.1585G>A	c.(1585-1587)GCA>ACA	p.A529T		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	529					protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					GTGAACAGTGCCATGGGGTAG	0.498													5	98					0	0	0.000602	0	0		T	142609851	T	T	142609851	3	4	209	1	0	0	0	0	1	0	0	0	16625	739	26	2	616	2	TRPV5	7	142609851	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	34140	142609851	16528812	508	100923											
ZYX	7791	broad.mit.edu	37	chr7	143085633	143085633	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcgcagccagccgtccGcgctctagggcagctgttcc	4	6	14	17	5	1	0	0	0	1	0	3	0	3	0	5	2	3	5	5	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:143085633G>A	uc003wcw.2	+	7	1351	c.1196G>A	c.(1195-1197)CGC>CAC	p.R399H	ZYX_uc011ktd.1_Missense_Mutation_p.R242H|ZYX_uc003wcx.2_Missense_Mutation_p.R399H|ZYX_uc011kte.1_Missense_Mutation_p.R368H|ZYX_uc011ktf.1_Missense_Mutation_p.R242H	NM_001010972	NP_001010972	Q15942	ZYX_HUMAN	zyxin	399	LIM zinc-binding 1.				cell adhesion|cell-cell signaling|interspecies interaction between organisms|signal transduction	cell-cell adherens junction|cytoplasm|focal adhesion|integral to plasma membrane|nucleus|stress fiber	protein binding|zinc ion binding				0	Melanoma(164;0.205)					CCAGCCGTCCGCGCTCTAGGG	0.627													14	90					0	0	0.004007	0	0		A	143085633	A	A	143085633	3	1	209	1	0	0	0	0	1	0	0	0	18279	1087	38	1	1218	1	ZYX	7	143085633	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	475782	143085633	16053030	509	100924											
CNTNAP2	26047	broad.mit.edu	37	chr7	146825928	146825928	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaattagagccctcaaatgtGgtaaggattttcacccgcaa	14	10	8	9	1	2	1	2	0	0	1	2	2	2	2	2	2	1	2	2	2	5	4	rs139180845	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:146825928G>A	uc003weu.1	+	7	1599	c.1083G>A	c.(1081-1083)GTG>GTA	p.V361V		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	361	Laminin G-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCTCAAATGTGGTAAGGATTT	0.343										HNSCC(39;0.1)			4	102					0	0	0.009096	0	0		A	146825928	A	A	146825928	2	1	209	1	0	0	0	0	0	0	0	1	3650	1362	47	4		4	CNTNAP2	7	146825928	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3740295	146825928	12312735	510	100925											
CNTNAP2	26047	broad.mit.edu	37	chr7	147815286	147815286	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttccaaggggaaactagCgctgacatttctttctactt	10	14	7	10	1	2	1	0	1	2	0	3	2	3	2	1	2	3	1	1	2	4	6	rs144496909		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:147815286C>T	uc003weu.1	+	16	2976	c.2460C>T	c.(2458-2460)AGC>AGT	p.S820S		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	820	Laminin G-like 3.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GGGAAACTAGCGCTGACATTT	0.433										HNSCC(39;0.1)			11	97					0	0	0.013537	0	0		T	147815286	T	T	147815286	2	4	209	1	0	0	0	0	0	0	0	1	3650	767	27	1		1	CNTNAP2	7	147815286	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	989358	147815286	11323377	511	100926											
C7orf33	202865	broad.mit.edu	37	chr7	148311382	148311382	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggacagtgacaagttcataCctaaacgtaagctccgaagt	15	8	9	9	2	1	1	1	1	0	0	2	3	2	2	2	1	3	3	2	1	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:148311382C>T	uc003wew.2	+	2	814	c.453C>T	c.(451-453)TAC>TAT	p.Y151Y		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	151										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			CAAGTTCATACCTAAACGTAA	0.473													8	79					0	0	0.004482	0	0		T	148311382	T	T	148311382	2	4	209	1	0	0	0	0	0	0	0	1	2391	518	18	4		4	C7orf33	7	148311382	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	496096	148311382	10827281	512	100927											
CUL1	8454	broad.mit.edu	37	chr7	148489851	148489851	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatggctatcctgcttcagTacaacacggaagatgcctac	12	9	9	11	1	1	2	1	0	0	2	2	3	2	3	2	2	5	3	2	2	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:148489851T>C	uc010lpg.2	+	17	2366	c.1840T>C	c.(1840-1842)TAC>CAC	p.Y614H	CUL1_uc003wey.2_Missense_Mutation_p.Y614H|CUL1_uc003wez.2_Missense_Mutation_p.Y504H|CUL1_uc003wfa.2_Missense_Mutation_p.Y275H	NM_003592	NP_003583	Q13616	CUL1_HUMAN	cullin 1	614					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell cycle arrest|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein ubiquitination|S phase of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|nucleoplasm|SCF ubiquitin ligase complex	ubiquitin protein ligase binding			lung(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			CCTGCTTCAGTACAACACGGA	0.453													3	27					0	0	0.004672	0	0		C	148489851	C	C	148489851	3	2	209	1	0	0	0	0	1	0	0	0	4057	1638	57	3	1902	3	CUL1	7	148489851	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	178469	148489851	10648812	513	100928											
PDIA4	9601	broad.mit.edu	37	chr7	148709400	148709400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggaggagaacgcttgctgaGctccttggcggccttctcat	6	11	13	11	2	1	2	1	1	1	1	3	4	2	3	2	4	3	3	2	4	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:148709400G>A	uc003wff.2	-	5	949	c.667C>T	c.(667-669)CTC>TTC	p.L223F		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	223	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			CGCTTGCTGAGCTCCTTGGCG	0.557													8	66					0	0	0.006214	0	0		A	148709400	A	A	148709400	3	1	209	1	0	0	0	0	1	0	0	0	11689	971	34	2	1294	2	PDIA4	7	148709400	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	219549	148709400	10429263	514	100929											
SSPO	23145	broad.mit.edu	37	chr7	149515750	149515750	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccctcccccaggtggctgggGcccatggtcctcctggtccc	2	8	12	19	0	0	0	0	0	0	0	4	0	4	0	7	6	0	1	7	6	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:149515750G>C	uc010lpk.2	+	84	11651	c.11651G>C	c.(11650-11652)GGC>GCC	p.G3884A		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3884	TSP type-1 16.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GGTGGCTGGGGCCCATGGTCC	0.697													5	31					0	0	0.001984	0	0		C	149515750	C	C	149515750	3	2	209	1	0	0	0	0	1	0	0	0	15214	1203	42	5	11975	5	SSPO	7	149515750	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	806350	149515750	9622913	515	100930											
DPP6	1804	broad.mit.edu	37	chr7	154585835	154585835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccaccagcaccaaggtcGccgtgacctggctgaaccgg	8	4	14	15	3	0	2	0	2	0	0	1	2	0	2	6	4	2	2	6	4	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:154585835G>A	uc003wlk.2	+	11	1312	c.1183G>A	c.(1183-1185)GCC>ACC	p.A395T	DPP6_uc003wli.2_Missense_Mutation_p.A331T|DPP6_uc003wlm.2_Missense_Mutation_p.A333T|DPP6_uc011kvq.1_Missense_Mutation_p.A288T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	395	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			CACCAAGGTCGCCGTGACCTG	0.637													9	34					0	0	0.004482	0	0		A	154585835	A	A	154585835	3	1	209	1	0	0	0	0	1	0	0	0	4736	1087	38	1	1341	1	DPP6	7	154585835	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5070085	154585835	4552828	516	100931											
NCAPG2	54892	broad.mit.edu	37	chr7	158472698	158472698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcactatccatttcaataGcatgaaggtttggatcccta	11	15	6	9	0	2	1	2	1	0	0	4	2	4	2	2	2	1	2	2	2	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:158472698G>A	uc003wnv.1	-	11	1245	c.1100C>T	c.(1099-1101)GCT>GTT	p.A367V	NCAPG2_uc010lqu.1_Missense_Mutation_p.A159V|NCAPG2_uc003wnw.1_RNA|NCAPG2_uc003wnx.1_Missense_Mutation_p.A367V|NCAPG2_uc011kwe.1_Missense_Mutation_p.A367V	NM_017760	NP_060230	Q86XI2	CNDG2_HUMAN	leucine zipper protein 5	367					cell division|chromosome condensation|mitosis	nucleus	methylated histone residue binding			ovary(1)|breast(1)|kidney(1)	3	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)		CATTTCAATAGCATGAAGGTT	0.383													36	73					0	0	0.003271	0	0		A	158472698	A	A	158472698	3	1	209	1	0	0	0	0	1	0	0	0	10227	971	34	2	2403	2	NCAPG2	7	158472698	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3886863	158472698	665965	517	100932											
ESYT2	57488	broad.mit.edu	37	chr7	158534291	158534291	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgaggcgatgctgggggtCggctccttgactgagatgtg	5	10	17	9	3	0	2	0	2	0	1	3	5	2	2	2	4	1	2	2	4	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr7:158534291C>T	uc003wob.1	-	17	2238	c.2172G>A	c.(2170-2172)CCG>CCA	p.P724P	ESYT2_uc003woc.1_Silent_p.P548P|ESYT2_uc003wny.1_RNA|ESYT2_uc003wnz.1_Silent_p.P163P|ESYT2_uc003woa.1_Silent_p.P301P	NM_020728	NP_065779	A0FGR8	ESYT2_HUMAN	family with sequence similarity 62 (C2 domain	752						integral to membrane|plasma membrane				central_nervous_system(2)|kidney(1)	3						TGCTGGGGGTCGGCTCCTTGA	0.657													9	59					0	0	0.006214	0	0		T	158534291	T	T	158534291	2	4	209	1	0	0	0	0	0	0	0	1	5273	871	31	1		1	ESYT2	7	158534291	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	61593	158534291	604372	518	100933											
ARHGEF10	9639	broad.mit.edu	37	chr8	1842672	1842672	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccactcgctatttcagatCgcgctggccagccgcgtttc	5	11	10	15	5	1	1	1	0	0	1	4	1	1	1	3	1	2	3	3	1	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:1842672C>T	uc003wpr.2	+	13	1552	c.1374C>T	c.(1372-1374)ATC>ATT	p.I458I	ARHGEF10_uc003wpq.1_Silent_p.I483I|ARHGEF10_uc003wps.2_Silent_p.I420I|ARHGEF10_uc003wpt.2_Silent_p.I334I|ARHGEF10_uc003wpv.2_Silent_p.I191I|ARHGEF10_uc010lre.2_Silent_p.I138I	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	483	DH.				centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		TATTTCAGATCGCGCTGGCCA	0.552													6	64					0	0	0.00308	0	0		T	1842672	T	T	1842672	2	4	209	1	0	0	0	0	0	0	0	1	894	874	31	1		1	ARHGEF10	8	1842672	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		1842672	144521350	519	100934											
CSMD1	64478	broad.mit.edu	37	chr8	3057289	3057289	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccgctctttgcactgaatCggagcagaatttgatttgac	10	12	9	10	2	1	4	0	3	1	1	2	5	1	5	1	1	2	3	1	1	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:3057289C>T	uc011kwk.1	-	33	5534	c.5144G>A	c.(5143-5145)CGA>CAA	p.R1715Q	CSMD1_uc011kwj.1_Missense_Mutation_p.R1107Q|CSMD1_uc003wqe.2_Missense_Mutation_p.R871Q	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1715	Extracellular (Potential).|CUB 10.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		TGCACTGAATCGGAGCAGAAT	0.512													4	7					0	0	0.000602	0	0		T	3057289	T	T	3057289	3	4	209	1	0	0	0	0	1	0	0	0	3947	884	31	1	5705	1	CSMD1	8	3057289	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1214617	3057289	143306733	520	100935											
CSMD1	64478	broad.mit.edu	37	chr8	3224726	3224726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgatcagtaaatagtcGtgggaactctcaagatgaaa	14	11	10	6	1	3	3	2	2	2	1	5	4	3	4	0	1	1	1	0	1	6	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:3224726G>A	uc011kwk.1	-	20	3336	c.2946C>T	c.(2944-2946)CAC>CAT	p.H982H	CSMD1_uc011kwj.1_Silent_p.H374H|CSMD1_uc003wqe.2_Silent_p.H138H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	982	Extracellular (Potential).|CUB 6.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GTAAATAGTCGTGGGAACTCT	0.468													3	22					0	0	0.004672	0	0		A	3224726	A	A	3224726	2	1	209	1	0	0	0	0	0	0	0	1	3947	1136	40	1		1	CSMD1	8	3224726	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	167437	3224726	143139296	521	100936											
ANGPT2	285	broad.mit.edu	37	chr8	6371335	6371335	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	cgaaacaaactcatttcccaGccaatattctcctgaagggt	13	10	6	12	1	2	1	1	1	1	0	4	2	3	1	3	1	3	0	3	1	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:6371335G>C	uc003wqj.3	-	7	1392	c.1063C>G	c.(1063-1065)CTG>GTG	p.L355V	MCPH1_uc003wqi.2_Intron|ANGPT2_uc003wqk.3_Missense_Mutation_p.L354V|ANGPT2_uc010lri.2_Missense_Mutation_p.L303V|ANGPT2_uc003wql.3_Missense_Mutation_p.L354V	NM_001147	NP_001138	O15123	ANGP2_HUMAN	angiopoietin 2 isoform a precursor	355	Fibrinogen C-terminal.				angiogenesis|blood coagulation|leukocyte migration|negative regulation of blood vessel endothelial cell migration|negative regulation of positive chemotaxis|Tie receptor signaling pathway	extracellular space	metal ion binding|receptor tyrosine kinase binding			upper_aerodigestive_tract(1)	1		Hepatocellular(245;0.0663)		Colorectal(4;0.0142)|READ - Rectum adenocarcinoma(4;0.19)|COAD - Colon adenocarcinoma(4;0.226)		TCATTTCCCAGCCAATATTCT	0.358													16	69					0	0	0.006122	0	0		C	6371335	C	C	6371335	3	2	209	1	0	0	0	0	1	0	0	0	611	962	34	5	439	5	ANGPT2	8	6371335	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3146609	6371335	139992687	522	100937											
EFHA2	286097	broad.mit.edu	37	chr8	16884802	16884802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctccgctatggctgcgctgcGaaggctcttgtggccgccac	4	9	13	15	4	1	0	0	0	1	0	2	1	2	0	3	3	2	4	3	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:16884802G>A	uc003wxd.2	+	1	56	c.14G>A	c.(13-15)CGA>CAA	p.R5Q		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	5						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		GCTGCGCTGCGAAGGCTCTTG	0.622													4	44					0	0	0.001168	0	0		A	16884802	A	A	16884802	3	1	209	1	0	0	0	0	1	0	0	0	4950	1058	37	1	16	1	EFHA2	8	16884802	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	10513467	16884802	129479220	523	100938											
EFHA2	286097	broad.mit.edu	37	chr8	16884830	16884830	+	Silent	SNP	G	A	A	0	0	1	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	ttgtggccgccaccccgggtGtctcctccactctgcgctca	3	10	10	18	3	3	0	1	0	2	0	5	0	4	0	6	2	1	1	6	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:16884830G>A	uc003wxd.2	+	1	84	c.42G>A	c.(40-42)GTG>GTA	p.V14V		NM_181723	NP_859074	Q86XE3	EFHA2_HUMAN	EF-hand domain family, member A2	14						integral to membrane	calcium ion binding			skin(1)	1				Colorectal(111;0.0686)|COAD - Colon adenocarcinoma(73;0.239)		CACCCCGGGTGTCTCCTCCAC	0.672													8	33					0	0	0.006214	0	0		A	16884830	A	A	16884830	2	1	209	1	0	0	0	0	0	0	0	1	4950	1364	48	4		4	EFHA2	8	16884830	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	28	16884830	129479192	524	100939											
PSD3	23362	broad.mit.edu	37	chr8	18729874	18729874	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccagctctttttccacctgcTgaactgaaaaactagaaaca	14	10	5	12	0	1	3	0	2	1	1	2	3	2	3	3	0	5	2	3	0	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:18729874T>C	uc003wza.2	-	3	603	c.500A>G	c.(499-501)CAG>CGG	p.Q167R		NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	167					regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		TTCCACCTGCTGAACTGAAAA	0.433													6	110					0	0	0.00308	0	0		C	18729874	C	C	18729874	3	2	209	1	0	0	0	0	1	0	0	0	12670	1580	55	3	2735	3	PSD3	8	18729874	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1845044	18729874	127634148	525	100940											
INTS10	55174	broad.mit.edu	37	chr8	19680854	19680854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattaacaaccatgatgttcGattacctgccaatttattgt	13	15	5	8	1	0	1	0	1	0	0	1	2	0	1	3	0	4	1	3	0	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:19680854G>A	uc003wzj.2	+	6	697	c.566G>A	c.(565-567)CGA>CAA	p.R189Q		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	189					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		CATGATGTTCGATTACCTGCC	0.333													15	105					0	0	0.003163	0	0		A	19680854	A	A	19680854	3	1	209	1	0	0	0	0	1	0	0	0	7792	1058	37	1	588	1	INTS10	8	19680854	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	950980	19680854	126683168	526	100941											
NPM2	10361	broad.mit.edu	37	chr8	21892019	21892019	+	Splice_Site	SNP	A	G	G	1	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	tacactgttttttggttcccAgaaaaaaaagctggaaaaag	16	11	8	6	0	0	1	0	0	0	1	1	2	1	2	1	2	2	3	1	2	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:21892019A>G	uc003xab.2	+	7	1190	c.532_splice	c.e7-2	p.K178_splice	NPM2_uc003xac.2_Splice_Site_p.K178_splice|NPM2_uc003xad.2_Splice_Site_p.K178_splice|NPM2_uc003xae.2_Splice_Site_p.K178_splice|NPM2_uc003xaf.2_Splice_Site_p.E122_splice	NM_182795	NP_877724	Q86SE8	NPM2_HUMAN	nucleoplasmin 2						chromatin remodeling|embryo development|oocyte differentiation|positive regulation of meiosis|regulation of exit from mitosis|single fertilization	cytoplasmic chromatin|nuclear chromatin	histone binding|nucleic acid binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		TTTGGTTCCCAGAAAAAAAAG	0.299													7	126					0	0	0.00308	0	0		G	21892019	G	G	21892019	5	3	209	1	0	0	0	0	0	0	1	0	10607	202	7	3	552	3	NPM2	8	21892019	Splice_Site	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2211165	21892019	124472003	527	100942											
PPP3CC	5533	broad.mit.edu	37	chr8	22368626	22368626	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatattcggaacaggtgtAtgatgcctgtatggagacat	13	11	11	6	1	0	2	0	1	0	1	1	4	0	3	1	3	2	2	1	3	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:22368626A>G	uc003xbs.2	+	5	839	c.512A>G	c.(511-513)TAT>TGT	p.Y171C	PPP3CC_uc003xbr.1_Missense_Mutation_p.Y171C|PPP3CC_uc011kzi.1_Missense_Mutation_p.Y171C|PPP3CC_uc003xbt.2_Missense_Mutation_p.Y171C	NM_005605	NP_005596	P48454	PP2BC_HUMAN	protein phosphatase 3, catalytic subunit, gamma	171					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals	cytosol	calmodulin binding|metal ion binding|phosphoprotein phosphatase activity			ovary(1)	1		Prostate(55;0.104)		BRCA - Breast invasive adenocarcinoma(99;0.00756)|Colorectal(74;0.0238)|COAD - Colon adenocarcinoma(73;0.0835)		GAACAGGTGTATGATGCCTGT	0.403													6	97					0	0	0.00308	0	0		G	22368626	G	G	22368626	3	3	209	1	0	0	0	0	1	0	0	0	12421	449	16	3	530	3	PPP3CC	8	22368626	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	476607	22368626	123995396	528	100943											
KIAA1967	57805	broad.mit.edu	37	chr8	22472983	22472983	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgcagccgggacccccccgGcggcttcagacagtggtggt	5	6	15	15	3	1	1	1	0	0	1	1	2	1	2	4	5	2	2	4	5	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:22472983G>A	uc003xch.2	+	12	1388	c.1251G>A	c.(1249-1251)CGG>CGA	p.R417R	KIAA1967_uc003xci.2_Silent_p.R417R|KIAA1967_uc003xcj.1_Silent_p.R86R	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	417					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		GACCCCCCCGGCGGCTTCAGA	0.587													9	186					0	0	0.010729	0	0		A	22472983	A	A	22472983	2	1	209	1	0	0	0	0	0	0	0	1	8281	1190	42	2		2	KIAA1967	8	22472983	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	104357	22472983	123891039	529	100944											
NEFM	4741	broad.mit.edu	37	chr8	24771944	24771944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgcaaagacatcgaggaggCgtcgctggtcaaggtggagc	10	5	17	9	4	1	1	1	0	0	1	3	4	1	3	0	5	1	2	0	5	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:24771944C>T	uc003xed.3	+	1	671	c.638C>T	c.(637-639)GCG>GTG	p.A213V	NEFM_uc011lac.1_Missense_Mutation_p.A213V|NEFM_uc010lue.2_5'Flank|uc010luc.1_Missense_Mutation_p.A42T	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	213	Rod.|Coil 1B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		ATCGAGGAGGCGTCGCTGGTC	0.647													6	44					0	0	0.001168	0	0		T	24771944	T	T	24771944	3	4	209	1	0	0	0	0	1	0	0	0	10335	768	27	1	640	1	NEFM	8	24771944	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2298961	24771944	121592078	530	100945											
DOCK5	80005	broad.mit.edu	37	chr8	25257429	25257429	+	Frame_Shift_Del	DEL	T	-	-																															gcatatgcttttttttaggcTttttttacagaaaagtactt																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:25257429delT	uc003xeg.2	+	46	4844	c.4707delT	c.(4705-4707)GCTfs	p.A1569fs	PPP2R2A_uc003xek.2_Intron|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1569	DHR-2.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		TTTTTTAGGCTTTTTTTACAG	0.433													9	16	---	---	---	---						.	-	25257429	-	-	25257429	7	5	209	1	0	1	0	1	0	0	0	0	4696	1596	56	0	4889	0	DOCK5	8	25257429	Frame_Shift_Del	DEL	T	TCGA-HU-A4GN-01A-11D-A25D-08	485485	25257429	121106593	531	100946											
PNMA2	10687	broad.mit.edu	37	chr8	26366267	26366267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcctctaacagtgccagcGccattgtcctaagaattgac	11	10	8	12	1	1	2	0	1	1	1	3	2	3	2	4	0	3	0	4	0	3	4	rs147059463		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:26366267G>A	uc003xez.2	-	3	775	c.5C>T	c.(4-6)GCG>GTG	p.A2V		NM_007257	NP_009188	Q9UL42	PNMA2_HUMAN	paraneoplastic antigen MA2	2					apoptosis	nucleolus	protein binding				0		all_cancers(63;0.109)|Ovarian(32;2.61e-05)|all_epithelial(46;0.105)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0196)|Epithelial(17;3.13e-11)|Colorectal(74;0.123)		cagtgccagcgccattgtcct	0													17	178					0	0	0.007413	0	0		A	26366267	A	A	26366267	3	1	209	1	0	0	0	0	1	0	0	0	12173	1087	38	1	1093	1	PNMA2	8	26366267	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1108838	26366267	119997755	532	100947											
EPHX2	2053	broad.mit.edu	37	chr8	27396184	27396184	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttccttcagagtgttttAtccatgcataaagtctgtga	9	17	7	8	0	3	2	1	1	2	1	5	2	5	2	2	0	1	2	2	0	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:27396184A>G	uc003xfu.2	+	14	1332	c.1251A>G	c.(1249-1251)TTA>TTG	p.L417L	EPHX2_uc010lut.1_Silent_p.L417L|EPHX2_uc010luu.2_Silent_p.L385L|EPHX2_uc010luv.2_Silent_p.L351L|EPHX2_uc003xfv.2_Silent_p.L364L|EPHX2_uc010luw.2_Silent_p.L351L	NM_001979	NP_001970	P34913	HYES_HUMAN	epoxide hydrolase 2, cytoplasmic	417	Epoxide hydrolase.				aromatic compound catabolic process|cellular calcium ion homeostasis|drug metabolic process|inflammatory response|positive regulation of vasodilation|reactive oxygen species metabolic process|regulation of blood pressure|response to toxin|xenobiotic metabolic process	cytosol|focal adhesion|Golgi apparatus|nucleolus|peroxisome|soluble fraction	epoxide hydrolase activity|metal ion binding|protein homodimerization activity			ovary(1)	1		Ovarian(32;2.61e-05)|all_epithelial(46;0.207)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0226)|Epithelial(17;1.12e-09)|Colorectal(74;0.157)	Tamoxifen(DB00675)	AGAGTGTTTTATCCATGCATA	0.403													9	49					0	0	0.008291	0	0		G	27396184	G	G	27396184	2	3	209	1	0	0	0	0	0	0	0	1	5188	446	16	3		3	EPHX2	8	27396184	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1029917	27396184	118967838	533	100948											
EXTL3	2137	broad.mit.edu	37	chr8	28575348	28575348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctcacccagatacctccGcaatttcactctgactgtca	9	10	5	17	2	4	2	3	1	1	1	5	2	5	2	4	0	1	1	4	0	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:28575348G>A	uc003xgz.1	+	3	2365	c.1772G>A	c.(1771-1773)CGC>CAC	p.R591H		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	591	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		AGATACCTCCGCAATTTCACT	0.602													18	56					0	0	0.00499	0	0		A	28575348	A	A	28575348	3	1	209	1	0	0	0	0	1	0	0	0	5335	1087	38	1	1774	1	EXTL3	8	28575348	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1179164	28575348	117788674	534	100949											
EXTL3	2137	broad.mit.edu	37	chr8	28575431	28575431	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttttcccccacactcccTttgaccctgtgttgccctca	5	14	4	18	0	2	1	1	1	1	0	4	1	4	1	5	0	1	1	5	0	0	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:28575431T>G	uc003xgz.1	+	3	2448	c.1855T>G	c.(1855-1857)TTT>GTT	p.F619V		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	619	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		CCACACTCCCTTTGACCCTGT	0.552													6	131					0	0	0.001984	0	0		G	28575431	G	G	28575431	3	3	209	1	0	0	0	0	1	0	0	0	5335	1609	56	5	1857	5	EXTL3	8	28575431	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	83	28575431	117788591	535	100950											
KIF13B	23303	broad.mit.edu	37	chr8	28974382	28974382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cattgacacagattctcttgCgtaacaccagttgcatgtca	11	12	7	11	1	2	2	1	1	1	1	3	2	2	2	1	0	3	3	1	0	1	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:28974382C>T	uc003xhh.3	-	31	3862	c.3803G>A	c.(3802-3804)CGC>CAC	p.R1268H	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	1268					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		GATTCTCTTGCGTAACACCAG	0.592													13	80					0	0	0.004007	0	0		T	28974382	T	T	28974382	3	4	209	1	0	0	0	0	1	0	0	0	8291	768	27	1	1717	1	KIF13B	8	28974382	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	398951	28974382	117389640	536	100951											
KIF13B	23303	broad.mit.edu	37	chr8	29006250	29006250	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcctggtcctcatcctctcGttctgctttctttttctttt	2	22	4	13	1	5	0	1	0	4	0	9	0	8	0	3	1	1	2	3	1	0	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:29006250G>A	uc003xhh.3	-	16	1716	c.1657C>T	c.(1657-1659)CGA>TGA	p.R553*	KIF13B_uc003xhj.2_Nonsense_Mutation_p.R450*|KIF13B_uc010lvf.1_Nonsense_Mutation_p.R489*	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	553					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		TCATCCTCTCGTTCTGCTTTC	0.393													27	107					0	0	0.009535	0	0		A	29006250	A	A	29006250	4	1	209	1	0	0	0	0	0	1	0	0	8291	1153	40	1	3923	1	KIF13B	8	29006250	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	31868	29006250	117357772	537	100952											
FUT10	84750	broad.mit.edu	37	chr8	33310939	33310939	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttaagaaatgaattaagatgCgtaggtgcttcctccatttt	12	15	8	6	1	0	3	0	1	0	2	2	3	2	3	2	1	2	2	2	1	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:33310939C>T	uc003xje.2	-	3	527	c.171G>A	c.(169-171)ACG>ACA	p.T57T	FUT10_uc003xjc.2_Silent_p.T64T|FUT10_uc003xjd.2_Silent_p.T29T|FUT10_uc011lbi.1_Silent_p.T107T|FUT10_uc003xjf.2_5'UTR|FUT10_uc003xjg.2_Silent_p.T29T|FUT10_uc003xjh.2_Silent_p.T57T|FUT10_uc003xji.1_Silent_p.T57T	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	57	Lumenal (Potential).				embryo development|fertilization|hemopoiesis|L-fucose catabolic process|nervous system development|protein folding|protein glycosylation|protein targeting|wound healing	Golgi cisterna membrane|integral to membrane	alpha(1,3)-fucosyltransferase activity			ovary(1)|pancreas(1)	2				KIRC - Kidney renal clear cell carcinoma(67;0.129)|Kidney(114;0.154)		AATTAAGATGCGTAGGTGCTT	0.418													6	79					0	0	0.001168	0	0		T	33310939	T	T	33310939	2	4	209	1	0	0	0	0	0	0	0	1	6116	755	27	1		1	FUT10	8	33310939	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4304689	33310939	113053083	538	100953											
PROSC	11212	broad.mit.edu	37	chr8	37633536	37633536	+	Splice_Site	SNP	T	C	C	0	1	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	cgcggatttccagcatgcggTgagtgtcctgccagtgccct	5	10	13	13	3	0	1	0	1	0	0	2	2	2	2	4	2	4	1	4	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:37633536T>C	uc003xkh.2	+	7	773	c.696_splice	c.e7+2	p.A232_splice		NM_007198	NP_009129	O94903	PROSC_HUMAN	proline synthetase co-transcribed homolog								pyridoxal phosphate binding			central_nervous_system(1)	1		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)|Pyridoxal Phosphate(DB00114)	CAGCATGCGGTGAGTGTCCTG	0.572													25	103					0	0	0.00278	0	0		C	37633536	C	C	37633536	5	2	209	1	0	0	0	0	0	0	1	0	12581	1710	59	3	724	3	PROSC	8	37633536	Splice_Site	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4322597	37633536	108730486	539	100954											
WHSC1L1	54904	broad.mit.edu	37	chr8	38133883	38133883	+	Missense_Mutation	SNP	T	C	C	0	1	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	acagtcttttttgtcacacaTgaccagctctccaccatctc	9	13	4	15	0	4	1	1	1	3	0	6	1	4	1	3	0	1	1	3	0	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:38133883T>C	uc003xli.2	-	23	4521	c.4003A>G	c.(4003-4005)ATG>GTG	p.M1335V	WHSC1L1_uc011lbm.1_Missense_Mutation_p.M1324V|WHSC1L1_uc010lwe.2_Missense_Mutation_p.M1286V|WHSC1L1_uc003xlh.2_Missense_Mutation_p.M114V	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	1335	PHD-type 4; atypical.				cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	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)			TTGTCACACATGACCAGCTCT	0.433			T	NUP98	AML								14	32					0	0	0.001855	0	0		C	38133883	C	C	38133883	3	2	209	1	0	0	0	0	1	0	0	0	17389	1464	51	3	318	3	WHSC1L1	8	38133883	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	500347	38133883	108230139	540	100955											
WHSC1L1	54904	broad.mit.edu	37	chr8	38205365	38205365	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctgaatgataatagtcagTggggctaaagtttctaactg	12	14	10	5	0	3	2	1	2	2	0	3	2	3	2	0	2	1	2	0	2	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:38205365T>C	uc003xli.2	-	2	843	c.325A>G	c.(325-327)ACT>GCT	p.T109A	WHSC1L1_uc011lbm.1_Missense_Mutation_p.T109A|WHSC1L1_uc010lwe.2_Missense_Mutation_p.T109A|WHSC1L1_uc003xlj.2_Missense_Mutation_p.T109A	NM_023034	NP_075447	Q9BZ95	NSD3_HUMAN	WHSC1L1 protein isoform long	109					cell differentiation|cell growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome	histone-lysine N-methyltransferase activity|zinc ion binding			breast(1)	1	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)			TAATAGTCAGTGGGGCTAAAG	0.423			T	NUP98	AML								11	151					0	0	0.010729	0	0		C	38205365	C	C	38205365	3	2	209	1	0	0	0	0	1	0	0	0	17389	1696	59	3	4167	3	WHSC1L1	8	38205365	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	71482	38205365	108158657	541	100956											
MCM4	4173	broad.mit.edu	37	chr8	48878898	48878898	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attgcagagcccagtgtgtgCgggcgctgccacaccaccca	8	6	12	15	2	0	1	0	0	0	1	0	1	0	1	4	1	4	2	4	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:48878898C>T	uc003xqk.1	+	9	1079	c.984C>T	c.(982-984)TGC>TGT	p.C328C	MCM4_uc003xql.1_Silent_p.C328C|MCM4_uc011ldi.1_Silent_p.C315C	NM_182746	NP_877423	P33991	MCM4_HUMAN	minichromosome maintenance complex component 4	328					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	MCM complex	ATP binding|DNA binding|helicase activity|protein binding			ovary(2)|skin(2)	4		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00327)|all_lung(136;0.00354)				CCAGTGTGTGCGGGCGCTGCC	0.642													9	48					0	0	0.006214	0	0		T	48878898	T	T	48878898	2	4	209	1	0	0	0	0	0	0	0	1	9407	776	27	1		1	MCM4	8	48878898	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10673533	48878898	97485124	542	100957											
SNAI2	6591	broad.mit.edu	37	chr8	49832848	49832848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaagatgaggagtatcCggaaagaggagagaggccat	15	4	14	8	1	0	4	0	1	0	3	1	8	1	7	4	4	0	1	4	4	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:49832848C>T	uc003xqp.2	-	2	396	c.232G>A	c.(232-234)GGA>AGA	p.G78R		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	78					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				GAGGAGTATCCGGAAAGAGGA	0.567													32	110					0	0	0.009535	0	0		T	49832848	T	T	49832848	3	4	209	1	0	0	0	0	1	0	0	0	14852	661	23	1	582	1	SNAI2	8	49832848	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	953950	49832848	96531174	543	100958											
SNTG1	54212	broad.mit.edu	37	chr8	51465608	51465608	+	Splice_Site	SNP	A	G	G	1	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	gatttgttctgaacatctgcAggcagaatgcctttcaagtc	10	13	9	9	0	3	2	1	1	2	1	4	3	3	2	1	1	3	3	1	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:51465608A>G	uc010lxy.1	+	13	1052	c.681_splice	c.e13-2	p.R227_splice	SNTG1_uc003xqs.1_Splice_Site_p.R227_splice|SNTG1_uc010lxz.1_Splice_Site_p.R227_splice|SNTG1_uc011ldl.1_Splice_Site	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1						cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)				GAACATCTGCAGGCAGAATGC	0.413													16	65					0	0	0.007413	0	0		G	51465608	G	G	51465608	5	3	209	1	0	0	0	0	0	0	1	0	14899	202	7	3	717	3	SNTG1	8	51465608	Splice_Site	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1632760	51465608	94898414	544	100959											
RP1	6101	broad.mit.edu	37	chr8	55533898	55533898	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacaaagcccgtcggcgcccGcggccctggctcagcagccg	6	3	14	18	6	1	0	1	0	0	0	2	1	1	0	4	3	3	2	4	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:55533898G>C	uc003xsd.1	+	2	520	c.372G>C	c.(370-372)CCG>CCC	p.P124P	RP1_uc011ldy.1_Silent_p.P124P	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	124					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			GTCGGCGCCCGCGGCCCTGGC	0.711													30	94					0	0	0.013726	0	0		C	55533898	C	C	55533898	2	2	209	1	0	0	0	0	0	0	0	1	13557	1074	38	5		5	RP1	8	55533898	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4068290	55533898	90830124	545	100960											
RP1	6101	broad.mit.edu	37	chr8	55540617	55540617	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacattggtgtcacatcaaaAtgtcagtaatttaagctcct	13	14	6	8	0	3	0	3	0	0	0	4	0	4	0	1	1	2	2	1	1	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:55540617A>G	uc003xsd.1	+	4	4323	c.4175A>G	c.(4174-4176)AAT>AGT	p.N1392S	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1392					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			TCACATCAAAATGTCAGTAAT	0.323													8	58					0	0	0.004482	0	0		G	55540617	G	G	55540617	3	3	209	1	0	0	0	0	1	0	0	0	13557	101	4	3	4185	3	RP1	8	55540617	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	6719	55540617	90823405	546	100961											
XKR4	114786	broad.mit.edu	37	chr8	56015703	56015703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcaaaggcaagcatctaacGccagcaagagcaacatcgcc	15	3	9	14	3	1	1	0	0	1	1	2	1	1	1	2	1	5	5	2	1	5	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:56015703G>A	uc003xsf.2	+	1	687	c.655G>A	c.(655-657)GCC>ACC	p.A219T		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	219						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			AGCATCTAACGCCAGCAAGAG	0.667													13	47					0	0	0.00245	0	0		A	56015703	A	A	56015703	3	1	209	1	0	0	0	0	1	0	0	0	17459	1087	38	1	657	1	XKR4	8	56015703	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	475086	56015703	90348319	547	100962											
TMEM68	137695	broad.mit.edu	37	chr8	56675290	56675290	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcttctttcaatacattctTtctcttataaatgtgtaaga	11	18	5	7	0	4	1	1	0	3	1	5	1	4	1	0	1	1	2	0	1	6	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:56675290T>C	uc003xsg.1	-	1	298	c.229A>G	c.(229-231)AAG>GAG	p.K77E	TMEM68_uc003xsh.1_Missense_Mutation_p.K77E|TMEM68_uc003xsi.1_Missense_Mutation_p.K77E	NM_152417	NP_689630	Q96MH6	TMM68_HUMAN	transmembrane protein 68	77						integral to membrane	acyltransferase activity			skin(1)	1			Epithelial(17;0.000361)|all cancers(17;0.00326)			AATACATTCTTTCTCTTATAA	0.358													13	117					0	0	0.013537	0	0		C	56675290	C	C	56675290	3	2	209	1	0	0	0	0	1	0	0	0	16222	1850	64	3	560	3	TMEM68	8	56675290	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	659587	56675290	89688732	548	100963											
CHD7	55636	broad.mit.edu	37	chr8	61654851	61654851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacaaggggctgttaggcCgcaaacccttaactttagtt	11	10	9	11	1	0	0	0	0	0	0	0	0	0	0	3	3	3	4	3	3	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:61654851C>T	uc003xue.2	+	2	1337	c.860C>T	c.(859-861)CCG>CTG	p.P287L		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	287					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GCTGTTAGGCCGCAAACCCTT	0.512													28	156					0	0	0.008361	0	0		T	61654851	T	T	61654851	3	4	209	1	0	0	0	0	1	0	0	0	3333	652	23	1	862	1	CHD7	8	61654851	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4979561	61654851	84709171	549	100964											
MYBL1	4603	broad.mit.edu	37	chr8	67488263	67488263	+	Silent	SNP	T	C	C	0	1	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	tgtgaaggagaaaatggtagTgttttcagtggtgtatgttt	10	16	14	1	0	1	2	1	1	0	1	1	3	1	2	0	3	0	4	0	3	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:67488263T>C	uc003xwj.2	-	10	1856	c.1449A>G	c.(1447-1449)ACA>ACG	p.T483T	MYBL1_uc003xwl.2_Silent_p.T483T|MYBL1_uc003xwk.2_Silent_p.T482T	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	483	Negative regulatory domain (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			AAAATGGTAGTGTTTTCAGTG	0.393													7	27					0	0	0.001984	0	0		C	67488263	C	C	67488263	2	2	209	1	0	0	0	0	0	0	0	1	10027	1683	59	3		3	MYBL1	8	67488263	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	5833412	67488263	78875759	550	100965											
MYBL1	4603	broad.mit.edu	37	chr8	67488564	67488564	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttgataggagaagcagcaGcatcagaaatatcaaaactg	18	8	9	6	0	2	3	2	1	0	2	2	4	2	3	0	1	4	3	0	1	6	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:67488564G>T	uc003xwj.2	-	10	1555	c.1148C>A	c.(1147-1149)GCT>GAT	p.A383D	MYBL1_uc003xwl.2_Missense_Mutation_p.A383D|MYBL1_uc003xwk.2_Missense_Mutation_p.A382D	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	383	Negative regulatory domain (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			AGAAGCAGCAGCATCAGAAAT	0.373													17	143					3.52763e-06	3.78277e-06	0.00499	1	0		T	67488564	T	T	67488564	3	4	209	1	0	0	0	0	1	0	0	0	10027	971	34	5	1138	5	MYBL1	8	67488564	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	301	67488564	78875458	551	100966											
PREX2	80243	broad.mit.edu	37	chr8	68992720	68992720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgaacccctacttttccGttttttttcggatgaggaaa	10	15	8	8	2	0	3	0	2	0	1	2	5	1	5	3	2	2	1	3	2	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:68992720G>A	uc003xxv.1	+	16	1712	c.1685G>A	c.(1684-1686)CGT>CAT	p.R562H	PREX2_uc003xxu.1_Missense_Mutation_p.R562H|PREX2_uc011lez.1_Missense_Mutation_p.R497H	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	562	DEP 2.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CTACTTTTCCGTTTTTTTTCG	0.328													6	57					0	0	0.00308	0	0		A	68992720	A	A	68992720	3	1	209	1	0	0	0	0	1	0	0	0	12499	1145	40	1	1747	1	PREX2	8	68992720	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1504156	68992720	77371302	552	100967											
CRISPLD1	83690	broad.mit.edu	37	chr8	75898439	75898439	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaccttcataataaattaCgaagtcaggtgtatccaaca	15	11	7	8	1	2	0	2	0	0	0	3	2	3	1	2	2	2	1	2	2	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:75898439C>T	uc003yan.2	+	2	592	c.217C>T	c.(217-219)CGA>TGA	p.R73*		NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	73						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			TAATAAATTACGAAGTCAGGT	0.398													12	96					0	0	0.013537	0	0		T	75898439	T	T	75898439	4	4	209	1	0	0	0	0	0	1	0	0	3885	528	19	1	219	1	CRISPLD1	8	75898439	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6905719	75898439	70465583	553	100968											
KIAA1429	25962	broad.mit.edu	37	chr8	95539493	95539493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgaagctaagtcttcagCagtgtattcaacatcaaagt	15	11	7	8	0	4	1	3	1	1	0	4	1	4	1	0	0	4	3	0	0	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:95539493C>T	uc003ygo.1	-	8	992	c.979G>A	c.(979-981)GCT>ACT	p.A327T	KIAA1429_uc003ygp.2_Missense_Mutation_p.A327T|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	327					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AAGTCTTCAGCAGTGTATTCA	0.383													7	66					0	0	0.001984	0	0		T	95539493	T	T	95539493	3	4	209	1	0	0	0	0	1	0	0	0	8247	710	25	2	4581	2	KIAA1429	8	95539493	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	19641054	95539493	50824529	554	100969											
CCNE2	9134	broad.mit.edu	37	chr8	95902778	95902778	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcttttgaacatccccaGctatggaaagagaggaaaaa	16	9	8	8	0	1	2	0	1	1	1	2	5	2	4	2	2	2	1	2	2	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:95902778G>T	uc003yhc.2	-	6	427	c.318C>A	c.(316-318)AGC>AGA	p.S106R	CCNE2_uc003yhd.2_Missense_Mutation_p.S106R	NM_057749	NP_477097	O96020	CCNE2_HUMAN	cyclin E2	106					cell cycle checkpoint|cell division|G1/S transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity	cytosol|nucleoplasm	protein kinase binding				0	Breast(36;8.75e-07)					AACATCCCCAGCTATGGAAAG	0.239													17	146					1.5739e-10	1.74304e-10	0.004007	1	0		T	95902778	T	T	95902778	3	4	209	1	0	0	0	0	1	0	0	0	2924	985	34	5	924	5	CCNE2	8	95902778	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	363285	95902778	50461244	555	100970											
MATN2	4147	broad.mit.edu	37	chr8	99030292	99030292	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagtgatgactcatacacGtgcgagtgcttggagggatt	11	10	13	7	2	1	2	1	2	0	0	1	5	1	4	0	2	4	1	0	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:99030292G>A	uc003yic.2	+	12	1998	c.1767G>A	c.(1765-1767)ACG>ACA	p.T589T	MATN2_uc010mbh.1_Silent_p.T548T|MATN2_uc003yid.2_Silent_p.T589T|MATN2_uc003yie.1_Silent_p.T589T|MATN2_uc010mbi.1_Silent_p.T422T|MATN2_uc010mbj.1_Silent_p.T88T	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	589	EGF-like 9.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			ACTCATACACGTGCGAGTGCT	0.498													13	225					0	0	0.013537	0	0		A	99030292	A	A	99030292	2	1	209	1	0	0	0	0	0	0	0	1	9352	1132	40	1		1	MATN2	8	99030292	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3127514	99030292	47333730	556	100971											
MATN2	4147	broad.mit.edu	37	chr8	99033533	99033533	+	Silent	SNP	T	G	G	0	1	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	tcagagggatttgttctagcTgaggacggaagacggtgcaa	11	9	15	6	2	2	3	1	1	1	2	2	6	2	6	0	4	2	3	0	4	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:99033533T>G	uc003yic.2	+	13	2151	c.1920T>G	c.(1918-1920)GCT>GCG	p.A640A	MATN2_uc010mbh.1_Silent_p.A599A|MATN2_uc003yid.2_Silent_p.A640A|MATN2_uc003yie.1_Silent_p.A640A|MATN2_uc010mbi.1_Silent_p.A473A|MATN2_uc010mbj.1_Silent_p.A139A	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	640	EGF-like 10.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			TTGTTCTAGCTGAGGACGGAA	0.428													8	94					0	0	0.00308	0	0		G	99033533	G	G	99033533	2	3	209	1	0	0	0	0	0	0	0	1	9352	1567	55	5		5	MATN2	8	99033533	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	3241	99033533	47330489	557	100972											
POP1	10940	broad.mit.edu	37	chr8	99146739	99146739	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgcttgtctggaaagcGccaagggagccttgtgcttt	7	12	12	10	1	2	0	1	0	1	0	2	2	2	2	2	2	4	2	2	2	2	3	rs144135573		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:99146739G>A	uc003yij.3	+	7	963	c.863G>A	c.(862-864)CGC>CAC	p.R288H	POP1_uc011lgv.1_Missense_Mutation_p.R288H|POP1_uc003yik.2_Missense_Mutation_p.R288H	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	288					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TCTGGAAAGCGCCAAGGGAGC	0.493													23	83					0	0	0.003954	0	0		A	99146739	A	A	99146739	3	1	209	1	0	0	0	0	1	0	0	0	12270	1087	38	1	885	1	POP1	8	99146739	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	113206	99146739	47217283	558	100973											
SNX31	169166	broad.mit.edu	37	chr8	101648123	101648123	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaaaccctgcaaatacatAccattttgcaaatattgttc	17	12	3	9	0	0	0	0	0	0	0	1	0	0	0	2	0	5	3	2	0	8	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:101648123A>G	uc003yjr.2	-	3	407	c.256_splice	c.e3+1	p.V86_splice		NM_152628	NP_689841	Q8N9S9	SNX31_HUMAN	sorting nexin 31						cell communication|protein transport		phosphatidylinositol binding				0	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)			GCAAATACATACCATTTTGCA	0.269													10	44					0	0	0.006214	0	0		G	101648123	G	G	101648123	5	3	209	1	0	0	0	0	0	0	1	0	14926	405	14	3	1112	3	SNX31	8	101648123	Splice_Site	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2501384	101648123	44715899	559	100974											
ZFPM2	23414	broad.mit.edu	37	chr8	106811058	106811058	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcaaagagaagctgctccGgtgtcagaggaaaatgaaga	16	5	14	6	1	1	4	1	1	0	3	2	6	2	5	1	3	2	3	1	3	5	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:106811058G>A	uc003ymd.2	+	7	869	c.846G>A	c.(844-846)CCG>CCA	p.P282P	ZFPM2_uc011lhs.1_Silent_p.P13P|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	282					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AAGCTGCTCCGGTGTCAGAGG	0.517													7	112					0	0	0.001984	0	0		A	106811058	A	A	106811058	2	1	209	1	0	0	0	0	0	0	0	1	17683	1103	39	1		1	ZFPM2	8	106811058	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5162935	106811058	39552964	560	100975											
TRPS1	7227	broad.mit.edu	37	chr8	116427046	116427046	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgaccaggactggctgCtgagcagaatggcttttagt	8	11	14	8	0	0	3	0	2	0	1	0	4	0	4	1	4	2	5	1	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:116427046C>T	uc003ynz.2	-	6	3510	c.3051G>A	c.(3049-3051)CAG>CAA	p.Q1017Q	TRPS1_uc011lhy.1_Silent_p.Q1021Q|TRPS1_uc003yny.2_Silent_p.Q1030Q|TRPS1_uc010mcy.2_Silent_p.Q1017Q	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1017	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GGACTGGCTGCTGAGCAGAAT	0.448									Langer-Giedion_syndrome				8	133					0	0	0.00308	0	0		T	116427046	T	T	116427046	2	4	209	1	0	0	0	0	0	0	0	1	16619	796	28	2		2	TRPS1	8	116427046	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	9615988	116427046	29936976	561	100976											
RAD21	5885	broad.mit.edu	37	chr8	117861199	117861199	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatacctgaagaccatgaaGcatctgctgagtccttttgt	11	12	8	10	0	1	4	0	3	1	1	2	4	2	4	3	0	3	2	3	0	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:117861199G>A	uc003yod.2	-	13	1978	c.1690C>T	c.(1690-1692)CTT>TTT	p.L564F		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	564					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					AGACCATGAAGCATCTGCTGA	0.423													26	138					0	0	0.004656	0	0		A	117861199	A	A	117861199	3	1	209	1	0	0	0	0	1	0	0	0	13006	971	34	2	213	2	RAD21	8	117861199	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1434153	117861199	28502823	562	100977											
MTSS1	9788	broad.mit.edu	37	chr8	125565703	125565703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctccaatggttccccggcGgacagaaggcttggtggaag	9	7	15	10	2	0	1	0	0	0	1	2	3	2	3	3	6	1	3	3	6	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:125565703G>A	uc003yrk.2	-	14	2332	c.1798C>T	c.(1798-1800)CGC>TGC	p.R600C	NDUFB9_uc011lim.1_Intron|MTSS1_uc003yrh.2_Missense_Mutation_p.R249C|MTSS1_uc011lin.1_Missense_Mutation_p.R374C|MTSS1_uc011lio.1_Missense_Mutation_p.R490C|MTSS1_uc003yri.2_Missense_Mutation_p.R318C|MTSS1_uc003yrj.2_Missense_Mutation_p.R575C|MTSS1_uc003yrl.2_Missense_Mutation_p.R604C	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	600					actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GTTCCCCGGCGGACAGAAGGC	0.637													8	36					0	0	0.00308	0	0		A	125565703	A	A	125565703	3	1	209	1	0	0	0	0	1	0	0	0	9980	1116	39	1	473	1	MTSS1	8	125565703	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7704504	125565703	20798319	563	100978											
POU5F1B	5462	broad.mit.edu	37	chr8	128428447	128428447	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aactccaatggggcctccccGgaaccctgcaccgtcccccc	7	5	8	21	2	0	0	0	0	0	0	3	1	3	1	9	3	3	1	9	3	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:128428447G>A	uc003ysf.2	+	1	591	c.336G>A	c.(334-336)CCG>CCA	p.P112P	uc003ysc.1_Intron|uc003ysd.1_Intron|LOC727677_uc003yse.1_Intron|uc011liu.1_RNA	NM_001159542	NP_001153014	Q06416	P5F1B_HUMAN	POU class 5 homeobox 1B	112						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGCCTCCCCGGAACCCTGCA	0.612													9	35					0	0	0.006214	0	0		A	128428447	A	A	128428447	2	1	209	1	0	0	0	0	0	0	0	1	12301	1103	39	1		1	POU5F1B	8	128428447	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2862744	128428447	17935575	564	100979											
ADCY8	114	broad.mit.edu	37	chr8	131916225	131916225	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcattcctctctttaccatgGccctcttccacgttatagtc	6	16	4	15	1	3	0	1	0	2	0	7	0	5	0	4	1	1	1	4	1	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:131916225G>A	uc003ytd.3	-	7	1960	c.1704C>T	c.(1702-1704)GGC>GGT	p.G568G	ADCY8_uc010mds.2_Silent_p.G568G	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	568	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CTTTACCATGGCCCTCTTCCA	0.458										HNSCC(32;0.087)			33	145					0	0	0.012213	0	0		A	131916225	A	A	131916225	2	1	209	1	0	0	0	0	0	0	0	1	300	1190	42	2		2	ADCY8	8	131916225	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3487778	131916225	14447797	565	100980											
ADCY8	114	broad.mit.edu	37	chr8	132002688	132002688	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggcctccacacacctcCgagtctccaggaaagcttgg	8	7	10	16	1	1	0	0	0	1	0	4	2	3	1	6	3	1	1	6	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:132002688C>A	uc003ytd.3	-	2	1317	c.1061G>T	c.(1060-1062)CGG>CTG	p.R354L	ADCY8_uc010mds.2_Missense_Mutation_p.R354L	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	354	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			CACACACCTCCGAGTCTCCAG	0.532										HNSCC(32;0.087)			13	189					0.00136819	0.00141898	0.013537	1	0		A	132002688	A	A	132002688	3	1	209	1	0	0	0	0	1	0	0	0	300	652	23	5	2762	5	ADCY8	8	132002688	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	86463	132002688	14361334	566	100981											
PHF20L1	51105	broad.mit.edu	37	chr8	133854799	133854799	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcatctctgggcttgttcCgggaagcgaaaagaccaaga	11	9	11	10	2	2	2	1	0	1	2	4	4	3	3	2	2	1	2	2	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:133854799C>T	uc003ytt.2	+	19	2752	c.2427C>T	c.(2425-2427)TCC>TCT	p.S809S	PHF20L1_uc011lja.1_Silent_p.S783S	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	809							nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			GGGCTTGTTCCGGGAAGCGAA	0.353													8	47					0	0	0.008291	0	0		T	133854799	T	T	133854799	2	4	209	1	0	0	0	0	0	0	0	1	11851	639	23	1		1	PHF20L1	8	133854799	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1852111	133854799	12509223	567	100982											
ZFAT	57623	broad.mit.edu	37	chr8	135614475	135614475	+	Missense_Mutation	SNP	T	A	A	0	1	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	gttccaggaggcagaagctcTggttgatggaactggtgaag	10	9	16	6	0	1	3	0	2	1	1	2	5	2	5	1	5	2	4	1	5	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:135614475T>A	uc003yup.2	-	6	1662	c.1487A>T	c.(1486-1488)CAG>CTG	p.Q496L	ZFAT_uc003yun.2_Missense_Mutation_p.Q484L|ZFAT_uc003yuo.2_Missense_Mutation_p.Q484L|ZFAT_uc010meh.2_Missense_Mutation_p.Q484L|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.Q484L|ZFAT_uc010mej.2_Missense_Mutation_p.Q434L|ZFAT_uc003yur.2_Missense_Mutation_p.Q484L	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	496					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			GCAGAAGCTCTGGTTGATGGA	0.597													3	36					0	0	0.004672	0	0		A	135614475	A	A	135614475	3	1	209	1	0	0	0	0	1	0	0	0	17657	1580	55	5	2288	5	ZFAT	8	135614475	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1759676	135614475	10749547	568	100983											
EIF2C2	27161	broad.mit.edu	37	chr8	141561427	141561427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggacttccgtgcactggcGctggggggcgaagcacgcaa	8	6	16	11	4	0	0	0	0	0	0	1	2	1	1	1	5	2	4	1	5	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:141561427G>A	uc003yvn.2	-	11	1418	c.1378C>T	c.(1378-1380)CGC>TGC	p.R460C	EIF2C2_uc010men.2_Missense_Mutation_p.R383C|EIF2C2_uc010meo.2_Missense_Mutation_p.R460C	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	460					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			GTGCACTGGCGCTGGGGGGCG	0.642													10	148					0	0	0.008291	0	0		A	141561427	A	A	141561427	3	1	209	1	0	0	0	0	1	0	0	0	5012	1087	38	1	1237	1	EIF2C2	8	141561427	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5946952	141561427	4802595	569	100984											
SLC45A4	57210	broad.mit.edu	37	chr8	142221613	142221613	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggtcgctgcccaaggacaGggctgccctgggcacaatgt	7	6	15	13	2	0	0	0	0	0	0	1	1	0	1	2	4	2	3	2	4	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:142221613G>T	uc003ywd.1	-	8	2633	c.2325C>A	c.(2323-2325)CCC>CCA	p.P775P	SLC45A4_uc003ywc.1_3'UTR|SLC45A4_uc010meq.1_3'UTR	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	Error:Variant_position_missing_in_Q5BKX6_after_alignment					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CCCAAGGACAGGGCTGCCCTG	0.532													24	150					1.75199e-13	1.96271e-13	0.007291	1	0		T	142221613	T	T	142221613	2	4	209	1	0	0	0	0	0	0	0	1	14668	987	35	5		5	SLC45A4	8	142221613	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	660186	142221613	4142409	570	100985											
LY6D	8581	broad.mit.edu	37	chr8	143866642	143866642	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctggggggaaggtcacaGgctgggggctaagatgacgg	8	6	19	8	1	1	2	1	1	0	1	2	3	2	3	1	8	0	2	1	8	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:143866642G>T	uc003yxf.1	-	3	458	c.382C>A	c.(382-384)CTG>ATG	p.L128M		NM_003695	NP_003686	Q14210	LY6D_HUMAN	lymphocyte antigen 6 complex, locus D precursor	128					cell adhesion	anchored to membrane|membrane fraction|plasma membrane	protein binding				0	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)					GAAGGTCACAGGCTGGGGGCT	0.677													4	23					0.000602214	0.000628153	0.000602	1	0		T	143866642	T	T	143866642	3	4	209	1	0	0	0	0	1	0	0	0	9108	991	35	5	8	5	LY6D	8	143866642	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1645029	143866642	2497380	571	100986											
GLI4	2738	broad.mit.edu	37	chr8	144351661	144351661	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaacccagcaccacgagcCtcagcttcacctccatgggc	9	6	9	17	1	2	0	2	0	0	0	3	2	3	1	5	2	4	2	5	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:144351661C>A	uc003yxx.2	+	2	180	c.95C>A	c.(94-96)CCT>CAT	p.P32H	ZFP41_uc003yxv.2_Intron	NM_138465	NP_612474	P10075	GLI4_HUMAN	GLI-Kruppel family member GLI4	32						nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.01e-10)|all_epithelial(106;4.86e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000459)|Ovarian(258;0.0212)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.156)|Colorectal(110;0.173)			CACCACGAGCCTCAGCTTCAC	0.637													28	207					1.75199e-13	1.96271e-13	0.007291	1	0		A	144351661	A	A	144351661	3	1	209	1	0	0	0	0	1	0	0	0	6455	681	24	5	97	5	GLI4	8	144351661	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	485019	144351661	2012361	572	100987											
TSTA3	7264	broad.mit.edu	37	chr8	144695702	144695702	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gccagaggatacggtgacttCcccatggaagtccatggcct	9	8	12	12	1	0	2	0	1	0	1	2	4	2	4	5	4	1	0	5	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr8:144695702C>A	uc003yza.2	-	9	838	c.802G>T	c.(802-804)GAA>TAA	p.E268*	TSTA3_uc003yzb.2_Nonsense_Mutation_p.E268*	NM_003313	NP_003304	Q13630	FCL_HUMAN	tissue specific transplantation antigen P35B	268					'de novo' GDP-L-fucose biosynthetic process|leukocyte cell-cell adhesion		coenzyme binding|electron carrier activity|GDP-4-dehydro-D-rhamnose reductase activity|GDP-L-fucose synthase activity|isomerase activity			pancreas(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)		NADH(DB00157)	ACGGTGACTTCCCCATGGAAG	0.687													5	21					0.000602214	0.000628153	0.000602	1	0		A	144695702	A	A	144695702	4	1	209	1	0	0	0	0	0	1	0	0	16700	864	30	5	175	5	TSTA3	8	144695702	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	344041	144695702	1668320	573	100988											
DMRT3	58524	broad.mit.edu	37	chr9	990661	990661	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcccttggctgggcctctgCagccccctttcccccagcca	3	9	9	20	0	1	0	0	0	1	0	3	0	3	0	7	2	3	2	7	2	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:990661C>T	uc003zgw.1	+	2	1113	c.1075C>T	c.(1075-1077)CAG>TAG	p.Q359*		NM_021240	NP_067063	Q9NQL9	DMRT3_HUMAN	doublesex and mab-3 related transcription factor	359					cell differentiation|multicellular organismal development|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(2)|central_nervous_system(1)	3		all_lung(10;1.39e-08)|Lung NSC(10;1.42e-08)		Lung(218;0.0196)		TGGGCCTCTGCAGCCCCCTTT	0.582													13	89					0	0	0.00245	0	0		T	990661	T	T	990661	4	4	209	1	0	0	0	0	0	1	0	0	4593	711	25	2	1081	2	DMRT3	9	990661	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		990661	140222770	574	100989											
ELAVL2	1993	broad.mit.edu	37	chr9	23762085	23762085	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttagttcctcctgtgtcaTgttctgaggaaggtagttga	7	16	11	7	0	2	2	1	2	1	0	4	3	4	3	2	2	0	4	2	2	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:23762085T>C	uc003zpu.2	-	2	423	c.148A>G	c.(148-150)ATG>GTG	p.M50V	ELAVL2_uc003zps.2_Missense_Mutation_p.M50V|ELAVL2_uc003zpt.2_Missense_Mutation_p.M50V|ELAVL2_uc003zpv.2_Missense_Mutation_p.M50V|ELAVL2_uc003zpw.2_Missense_Mutation_p.M50V	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	50	RRM 1.				regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		TCCTGTGTCATGTTCTGAGGA	0.418													8	133					0	0	0.00308	0	0		C	23762085	C	C	23762085	3	2	209	1	0	0	0	0	1	0	0	0	5058	1464	51	3	955	3	ELAVL2	9	23762085	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	22771424	23762085	117451346	575	100990											
TOPORS	10210	broad.mit.edu	37	chr9	32544006	32544006	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcgaaatcgtcgatcaggggTgacaaaagaaccattatacg	15	7	11	8	4	1	2	1	1	0	1	3	4	1	2	1	2	2	0	1	2	6	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:32544006T>C	uc003zrb.2	-	3	684	c.517A>G	c.(517-519)ACC>GCC	p.T173A	TOPORS_uc003zrc.2_Missense_Mutation_p.T106A	NM_005802	NP_005793	Q9NS56	TOPRS_HUMAN	topoisomerase I binding, arginine/serine-rich	173	E3 ubiquitin-protein ligase activity.|Required for DNA-binding.				DNA damage response, signal transduction resulting in induction of apoptosis|maintenance of protein location in nucleus|proteasomal ubiquitin-dependent protein catabolic process|protein sumoylation|transcription, DNA-dependent	nuclear speck|PML body	antigen binding|DNA binding|DNA topoisomerase I binding|SUMO ligase activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.0018)		CGATCAGGGGTGACAAAAGAA	0.438													18	81					0	0	0.007413	0	0		C	32544006	C	C	32544006	3	2	209	1	0	0	0	0	1	0	0	0	16396	1696	59	3	2624	3	TOPORS	9	32544006	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	8781921	32544006	108669425	576	100991											
FANCG	2189	broad.mit.edu	37	chr9	35077266	35077266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggttgctagctgaccttggCggtaggcaaatgctgtcagg	8	10	15	8	1	1	1	1	1	0	0	1	1	1	1	1	5	3	6	1	5	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:35077266C>T	uc003zwb.1	-	5	1133	c.641G>A	c.(640-642)CGC>CAC	p.R214H	FANCG_uc003zwa.1_5'Flank|FANCG_uc010mkj.1_5'UTR|FANCG_uc011lot.1_Missense_Mutation_p.R214H	NM_004629	NP_004620	O15287	FANCG_HUMAN	Fanconi anemia, complementation group G	214					cell cycle checkpoint|DNA repair|mitochondrion organization	mitochondrion|nucleoplasm	damaged DNA binding|protein binding			ovary(2)|large_intestine(1)|lung(1)	4			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CTGACCTTGGCGGTAGGCAAA	0.517			Mis|N|F|S			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				23	114					0	0	0.00278	0	0		T	35077266	T	T	35077266	3	4	209	1	0	0	0	0	1	0	0	0	5682	768	27	1	1267	1	FANCG	9	35077266	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2533260	35077266	106136165	577	100992											
RUSC2	9853	broad.mit.edu	37	chr9	35547551	35547551	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaccctgaaagtggaggaAgggaagggggctatggttgc	11	7	17	6	0	1	1	1	1	0	0	1	4	1	4	1	6	1	2	1	6	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:35547551A>C	uc003zww.2	+	2	1288	c.1033A>C	c.(1033-1035)AGG>CGG	p.R345R	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Silent_p.R345R	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	345						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			AAGTGGAGGAAGGGAAGGGGG	0.572													9	119					0	0	0.004482	0	0		C	35547551	C	C	35547551	2	2	209	1	0	0	0	0	0	0	0	1	13776	63	3	5		5	RUSC2	9	35547551	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	470285	35547551	105665880	578	100993											
CA9	768	broad.mit.edu	37	chr9	35676071	35676071	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctacgcagtgcaactgacCctgcctcctgggctagagat	8	8	10	15	1	0	2	0	1	0	1	1	3	1	2	4	1	4	3	4	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:35676071C>A	uc003zxo.3	+	4	657	c.615C>A	c.(613-615)ACC>ACA	p.T205T	C9orf100_uc003zxl.2_5'Flank|CA9_uc003zxp.3_Silent_p.T205T	NM_001216	NP_001207	Q16790	CAH9_HUMAN	carbonic anhydrase IX precursor	205	Extracellular.|Catalytic.				one-carbon metabolic process	integral to membrane|microvillus membrane|nucleolus	carbonate dehydratase activity|zinc ion binding			ovary(4)|skin(1)	5	all_epithelial(49;0.217)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TGCAACTGACCCTGCCTCCTG	0.716													7	25					0.00198382	0.00204868	0.001984	1	0		A	35676071	A	A	35676071	2	1	209	1	0	0	0	0	0	0	0	1	2527	610	22	5		5	CA9	9	35676071	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	128520	35676071	105537360	579	100994											
GNE	10020	broad.mit.edu	37	chr9	36217375	36217375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggaggtctagtagatcctgCgtgttgtgtagtccagaacc	8	12	13	8	1	1	2	0	0	1	2	3	3	3	3	3	2	2	3	3	2	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:36217375C>T	uc010mlh.2	-	12	2371	c.2156G>A	c.(2155-2157)CGC>CAC	p.R719H	CLTA_uc003zzf.1_Intron|GNE_uc010mlg.2_Missense_Mutation_p.R645H|GNE_uc011lpl.1_Missense_Mutation_p.R609H|GNE_uc010mli.2_Missense_Mutation_p.R750H|GNE_uc010mlj.2_Missense_Mutation_p.R714H	NM_005476	NP_005467	Q9Y223	GLCNE_HUMAN	UDP-N-acetylglucosamine-2-epimerase/N-	719	UDP-N-acetylglucosamine 2-epimerase.|N-acetylmannosamine kinase.				cell adhesion|lipopolysaccharide biosynthetic process|N-acetylneuraminate metabolic process|UDP-N-acetylglucosamine metabolic process		ATP binding|N-acylmannosamine kinase activity|UDP-N-acetylglucosamine 2-epimerase activity				0			STAD - Stomach adenocarcinoma(86;0.228)			GTAGATCCTGCGTGTTGTGTA	0.532													8	29					0	0	0.004482	0	0		T	36217375	T	T	36217375	3	4	209	1	0	0	0	0	1	0	0	0	6537	768	27	1	16	1	GNE	9	36217375	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	541304	36217375	104996056	580	100995											
POLR1E	64425	broad.mit.edu	37	chr9	37489339	37489339	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggaattttgaacaagacCtctggccaaatggaagtata	14	10	11	6	0	1	2	0	1	1	1	1	4	1	4	2	3	1	1	2	3	7	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:37489339C>A	uc003zzz.1	+	3	759	c.471C>A	c.(469-471)ACC>ACA	p.T157T	POLR1E_uc011lqj.1_Silent_p.T95T|POLR1E_uc003zzy.1_Silent_p.T95T|POLR1E_uc011lqk.1_5'UTR	NM_022490	NP_071935	Q9GZS1	RPA49_HUMAN	RNA polymerase I associated factor 53	157					rRNA transcription	cell junction|cytoplasm|nucleolus	DNA binding|DNA-directed RNA polymerase activity|protein binding				0				GBM - Glioblastoma multiforme(29;0.00851)|Lung(182;0.229)		TGAACAAGACCTCTGGCCAAA	0.333													23	69					2.41591e-17	2.72964e-17	0.004656	1	0		A	37489339	A	A	37489339	2	1	209	1	0	0	0	0	0	0	0	1	12232	668	24	5		5	POLR1E	9	37489339	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1271964	37489339	103724092	581	100996											
C9orf71	169693	broad.mit.edu	37	chr9	71155631	71155631	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggctcccctgacagtcgaAtatggagccccaggaaatga	12	6	11	12	1	0	2	0	2	0	0	2	5	1	4	4	3	1	1	4	3	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:71155631A>G	uc004agt.2	-	1	153	c.100T>C	c.(100-102)TTC>CTC	p.F34L		NM_153237	NP_694969	Q8N6L7	CI071_HUMAN	hypothetical protein LOC169693	34						integral to membrane					0						TGACAGTCGAATATGGAGCCC	0.537													8	41					0	0	0.00308	0	0		G	71155631	G	G	71155631	3	3	209	1	0	0	0	0	1	0	0	0	2497	101	4	3	420	3	C9orf71	9	71155631	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	33666292	71155631	70057800	582	100997											
APBA1	320	broad.mit.edu	37	chr9	72067197	72067197	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgctaaatgcctgtccgatGgactgtgcaatcagctgagc	10	9	11	11	2	1	1	1	1	0	0	2	3	2	2	2	1	4	3	2	1	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:72067197G>T	uc004ahh.2	-	9	2085	c.1809C>A	c.(1807-1809)TCC>TCA	p.S603S		NM_001163	NP_001154	Q02410	APBA1_HUMAN	amyloid beta A4 precursor protein-binding,	603	PID.				axon cargo transport|cell adhesion|intracellular protein transport|nervous system development|protein complex assembly|synaptic transmission	synaptic vesicle				lung(1)	1						CCTGTCCGATGGACTGTGCAA	0.557													13	56					1.05317e-09	1.15841e-09	0.00245	1	0		T	72067197	T	T	72067197	2	4	209	1	0	0	0	0	0	0	0	1	756	1335	47	5		5	APBA1	9	72067197	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	911566	72067197	69146234	583	100998											
KLF9	687	broad.mit.edu	37	chr9	73002896	73002896	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aactttttaaggcagtctggCcacgtgcagggaaagggccg	10	8	14	9	2	1	0	0	0	1	0	1	1	1	1	2	4	2	2	2	4	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:73002896C>T	uc004aht.2	-	2	1825	c.531G>A	c.(529-531)TGG>TGA	p.W177*		NM_001206	NP_001197	Q13886	KLF9_HUMAN	Kruppel-like factor 9	177	C2H2-type 2.				regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GGCAGTCTGGCCACGTGCAGG	0.527													6	37					0	0	0.001168	0	0		T	73002896	T	T	73002896	4	4	209	1	0	0	0	0	0	1	0	0	8369	740	26	2	207	2	KLF9	9	73002896	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	935699	73002896	68210535	584	100999											
PRUNE2	158471	broad.mit.edu	37	chr9	79325430	79325430	+	Missense_Mutation	SNP	A	G	G	1	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	catctcccacaaaatctgtcAggctcaaatttctttcagag	12	12	5	12	0	6	1	3	0	3	1	7	1	6	1	1	1	0	1	1	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:79325430A>G	uc010mpk.2	-	8	1884	c.1760T>C	c.(1759-1761)CTG>CCG	p.L587P		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	587					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						AAAATCTGTCAGGCTCAAATT	0.448													5	42					0	0	0.000602	0	0		G	79325430	G	G	79325430	3	3	209	1	0	0	0	0	1	0	0	0	12663	188	7	3	7554	3	PRUNE2	9	79325430	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	6322534	79325430	61888001	585	101000											
VPS13A	23230	broad.mit.edu	37	chr9	79853105	79853105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttagaaatcatatatgatGcagtaagcatttttttaaat	15	17	5	4	0	1	2	1	1	0	1	1	2	1	2	0	0	2	3	0	0	7	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:79853105G>A	uc004akr.2	+	18	2043	c.1783G>A	c.(1783-1785)GCA>ACA	p.A595T	VPS13A_uc004akp.3_Missense_Mutation_p.A595T|VPS13A_uc004akq.3_Missense_Mutation_p.A595T|VPS13A_uc004aks.2_Missense_Mutation_p.A595T	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	595					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						CATATATGATGCAGTAAGCAT	0.269													7	69					0	0	0.001984	0	0		A	79853105	A	A	79853105	3	1	209	1	0	0	0	0	1	0	0	0	17215	1319	46	2	1853	2	VPS13A	9	79853105	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	527675	79853105	61360326	586	101001											
DAPK1	1612	broad.mit.edu	37	chr9	90321730	90321730	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcgggagcaccatgagccCgtcatgatctaccagccacg	9	6	11	15	3	2	2	1	2	1	0	2	3	2	3	4	1	5	1	4	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:90321730C>T	uc004apc.2	+	26	3882	c.3744C>T	c.(3742-3744)CCC>CCT	p.P1248P	DAPK1_uc004apd.2_Silent_p.P1248P|DAPK1_uc011ltg.1_Silent_p.P1182P|DAPK1_uc011lth.1_Silent_p.P985P|DAPK1_uc004apg.2_Silent_p.P225P	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1248					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						ACCATGAGCCCGTCATGATCT	0.592									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				12	36					0	0	0.010729	0	0		T	90321730	T	T	90321730	2	4	209	1	0	0	0	0	0	0	0	1	4238	639	23	1		1	DAPK1	9	90321730	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10468625	90321730	50891701	587	101002											
SEMA4D	10507	broad.mit.edu	37	chr9	92003641	92003641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgctctgcatgtacttcccGtgggagaagacctcctcggc	6	10	12	13	2	1	2	0	0	1	2	4	3	3	2	3	2	3	3	3	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:92003641G>A	uc004aqo.1	-	13	1589	c.1017C>T	c.(1015-1017)CAC>CAT	p.H339H	SEMA4D_uc011ltm.1_Silent_p.H339H|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Silent_p.H337H	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	339	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						TGTACTTCCCGTGGGAGAAGA	0.642													10	41					0	0	0.006214	0	0		A	92003641	A	A	92003641	2	1	209	1	0	0	0	0	0	0	0	1	14059	1136	40	1		1	SEMA4D	9	92003641	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1681911	92003641	49209790	588	101003											
ROR2	4920	broad.mit.edu	37	chr9	94493365	94493365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gctgcagggcccacggctggCactggtggcctgacttggtg	4	8	17	12	1	0	1	0	1	0	0	0	1	0	1	2	6	1	4	2	6	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:94493365C>T	uc004arj.1	-	7	1209	c.1010G>A	c.(1009-1011)TGC>TAC	p.C337Y	ROR2_uc004ari.1_Missense_Mutation_p.C197Y|ROR2_uc004ark.2_Missense_Mutation_p.C337Y	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	337	Extracellular (Potential).|Kringle.				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						CCACGGCTGGCACTGGTGGCC	0.607													13	60					0	0	0.013537	0	0		T	94493365	T	T	94493365	3	4	209	1	0	0	0	0	1	0	0	0	13552	710	25	2	1833	2	ROR2	9	94493365	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2489724	94493365	46720066	589	101004											
CDC14B	8555	broad.mit.edu	37	chr9	99284796	99284796	+	Silent	SNP	A	G	G	1	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	acccagactcacgtgagaggAatagcgtttgttttggattg	10	12	12	7	2	1	2	1	1	0	2	1	5	1	4	1	2	1	2	1	2	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:99284796A>G	uc004awj.2	-	12	1787	c.1335T>C	c.(1333-1335)ATT>ATC	p.I445I	CDC14B_uc004awk.2_Silent_p.I445I|CDC14B_uc004awl.2_RNA|CDC14B_uc004awi.2_Silent_p.I408I	NM_033331	NP_201588	O60729	CC14B_HUMAN	CDC14 homolog B isoform 2	445					activation of anaphase-promoting complex activity|DNA repair|G2/M transition DNA damage checkpoint	nucleolus|nucleoplasm	protein binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				ACGTGAGAGGAATAGCGTTTG	0.428													17	55					0	0	0.007413	0	0		G	99284796	G	G	99284796	2	3	209	1	0	0	0	0	0	0	0	1	3060	242	9	3		3	CDC14B	9	99284796	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	4791431	99284796	41928635	590	101005											
KIAA1529	57653	broad.mit.edu	37	chr9	100057269	100057269	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactggtgcctaaatcaatcGgcaggtaacggctcctgttt	9	12	10	10	2	1	0	1	0	0	0	3	0	2	0	2	4	3	4	2	4	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:100057269G>A	uc011lut.1	+	12	1166	c.393G>A	c.(391-393)TCG>TCA	p.S131S	KIAA1529_uc011lur.1_RNA|KIAA1529_uc004axe.1_Silent_p.S131S|KIAA1529_uc011lus.1_Intron|KIAA1529_uc010msm.1_RNA	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				taaatcaatcggcaggtaacg	0.358													9	33					0	0	0.006214	0	0		A	100057269	A	A	100057269	2	1	209	1	0	0	0	0	0	0	0	1	8256	1103	39	1		1	KIAA1529	9	100057269	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	772473	100057269	41156162	591	101006											
KIAA1529	57653	broad.mit.edu	37	chr9	100105645	100105645	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagacaaggaagagggtctAgaggagatatactatgagga	17	6	15	3	0	1	5	0	1	1	4	1	9	1	7	0	4	1	0	0	4	7	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:100105645A>G	uc011lut.1	+	31	3620	c.2847A>G	c.(2845-2847)CTA>CTG	p.L949L	KIAA1529_uc004axe.1_Silent_p.L949L|KIAA1529_uc004axg.1_Silent_p.L810L|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Silent_p.L134L|KIAA1529_uc004axf.2_Silent_p.L810L	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				AAGAGGGTCTAGAGGAGATAT	0.428													27	56					0	0	0.009535	0	0		G	100105645	G	G	100105645	2	3	209	1	0	0	0	0	0	0	0	1	8256	407	15	3		3	KIAA1529	9	100105645	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	48376	100105645	41107786	592	101007											
ACTL7B	10880	broad.mit.edu	37	chr9	111617947	111617947	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacttgcgggtgtcgccagcGtcggccgcctcggggcagcg	3	6	17	15	7	0	0	0	0	0	0	3	0	0	0	3	4	3	1	3	4	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:111617947G>A	uc004bdi.2	-	1	329	c.264C>T	c.(262-264)GAC>GAT	p.D88D		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	88						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						TGTCGCCAGCGTCGGCCGCCT	0.657													40	101					0	0	0.007835	0	0		A	111617947	A	A	111617947	2	1	209	1	0	0	0	0	0	0	0	1	201	1136	40	1		1	ACTL7B	9	111617947	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	11512302	111617947	29595484	593	101008											
SVEP1	79987	broad.mit.edu	37	chr9	113190032	113190032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cattcaataatggaagggccCtgtaagctgcgggaaagaat	14	8	12	7	1	1	1	1	0	0	1	1	3	1	3	1	3	2	2	1	3	6	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:113190032C>A	uc010mtz.2	-	36	6151	c.5814G>T	c.(5812-5814)CAG>CAT	p.Q1938H	SVEP1_uc010mty.2_Translation_Start_Site	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	1938	Sushi 9.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TGGAAGGGCCCTGTAAGCTGC	0.478											OREG0019389	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	61					1.2476e-16	1.40742e-16	0.00632	1	0		A	113190032	A	A	113190032	3	1	209	1	0	0	0	0	1	0	0	0	15445	680	24	5	4953	5	SVEP1	9	113190032	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1572085	113190032	28023399	594	101009											
PTGR1	22949	broad.mit.edu	37	chr9	114332454	114332454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacgacaaaagcttccatgcGaagctcctgatagataacaa	16	7	8	10	2	0	2	0	1	0	1	2	5	2	2	2	0	4	2	2	0	6	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:114332454G>A	uc004bfh.2	-	9	899	c.796C>T	c.(796-798)CGC>TGC	p.R266C	ZNF483_uc004bfg.2_Intron|PTGR1_uc011lwr.1_Missense_Mutation_p.R266C|PTGR1_uc004bfi.3_Missense_Mutation_p.R266C|PTGR1_uc004bfj.3_Missense_Mutation_p.R143C|PTGR1_uc010mue.2_Missense_Mutation_p.R266C	NM_012212	NP_036344	Q14914	PTGR1_HUMAN	prostaglandin reductase 1 isoform 1	266					leukotriene metabolic process	cytoplasm	15-oxoprostaglandin 13-oxidase activity|2-alkenal reductase activity|alcohol dehydrogenase (NAD) activity|zinc ion binding				0						GCTTCCATGCGAAGCTCCTGA	0.532													10	34					0	0	0.008291	0	0		A	114332454	A	A	114332454	3	1	209	1	0	0	0	0	1	0	0	0	12776	1058	37	1	232	1	PTGR1	9	114332454	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1142422	114332454	26880977	595	101010											
C9orf43	257169	broad.mit.edu	37	chr9	116187657	116187657	+	Missense_Mutation	SNP	A	G	G	1	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	gcagcagcggcagcagcagcAgcagcagcaacagaagaagg	15	0	15	11	1	0	2	0	0	0	2	0	2	0	2	0	2	9	9	0	2	3	0	rs140460592		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:116187657A>G	uc004bho.3	+	10	1295	c.899A>G	c.(898-900)CAG>CGG	p.Q300R	C9orf43_uc004bhp.2_Missense_Mutation_p.Q300R	NM_152786	NP_689999	Q8TAL5	CI043_HUMAN	hypothetical protein LOC257169	300	Gln-rich.										0						cagcagcagcagcagcagcaa	0.438													4	67					0	0	0.000602	0	0		G	116187657	G	G	116187657	3	3	209	1	0	0	0	0	1	0	0	0	2486	188	7	3	933	3	C9orf43	9	116187657	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1855203	116187657	25025774	596	101011											
ASTN2	23245	broad.mit.edu	37	chr9	119413907	119413907	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgctccttgcctggccggCggcaaaggtgacaggtagat	7	8	15	11	2	0	2	0	1	0	1	1	2	1	2	3	5	2	4	3	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:119413907C>T	uc004bjs.1	-	17	3073	c.2972G>A	c.(2971-2973)CGC>CAC	p.R991H	ASTN2_uc004bjr.1_Missense_Mutation_p.R987H|ASTN2_uc004bjt.1_Missense_Mutation_p.R940H|ASTN2_uc004bjp.1_Missense_Mutation_p.R84H|ASTN2_uc004bjq.1_Missense_Mutation_p.R43H|ASTN2_uc011lxr.1_Missense_Mutation_p.R43H|ASTN2_uc011lxs.1_Missense_Mutation_p.R43H|ASTN2_uc011lxt.1_Missense_Mutation_p.R43H|ASTN2_uc004bjv.1_Missense_Mutation_p.R43H	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	991	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GCCTGGCCGGCGGCAAAGGTG	0.562													10	83					0	0	0.010729	0	0		T	119413907	T	T	119413907	3	4	209	1	0	0	0	0	1	0	0	0	1066	768	27	1	1194	1	ASTN2	9	119413907	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3226250	119413907	21799524	597	101012											
CDK5RAP2	55755	broad.mit.edu	37	chr9	123165314	123165314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	actgtcgcaggagagggagtCcgtgtcattcccagagagtg	9	8	15	9	2	1	2	1	0	0	2	4	5	3	3	2	2	0	1	2	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:123165314C>T	uc004bkf.2	-	34	5258	c.5077G>A	c.(5077-5079)GAC>AAC	p.D1693N	CDK5RAP2_uc010mvi.2_Missense_Mutation_p.D702N|CDK5RAP2_uc004bke.2_Missense_Mutation_p.D978N|CDK5RAP2_uc004bkg.2_Missense_Mutation_p.D1614N|CDK5RAP2_uc011lxw.1_Missense_Mutation_p.D958N|CDK5RAP2_uc011lxx.1_RNA|CDK5RAP2_uc011lxy.1_RNA|CDK5RAP2_uc011lxz.1_Missense_Mutation_p.D958N|CDK5RAP2_uc011lya.1_Missense_Mutation_p.D958N|CDK5RAP2_uc004bkh.1_Missense_Mutation_p.D1463N	NM_018249	NP_060719	Q96SN8	CK5P2_HUMAN	CDK5 regulatory subunit associated protein 2	1693					brain development|centrosome organization|chromosome segregation|G2/M transition of mitotic cell cycle|microtubule bundle formation|negative regulation of centriole replication|positive regulation of transcription, DNA-dependent|regulation of neuron differentiation|regulation of spindle checkpoint	cytosol|Golgi apparatus|microtubule|pericentriolar material|perinuclear region of cytoplasm|spindle pole	calmodulin binding|microtubule binding|neuronal Cdc2-like kinase binding|transcription regulatory region DNA binding			ovary(2)|lung(1)|skin(1)	4						GAGAGGGAGTCCGTGTCATTC	0.537													20	91					0	0	0.014323	0	0		T	123165314	T	T	123165314	3	4	209	1	0	0	0	0	1	0	0	0	3149	855	30	4	624	4	CDK5RAP2	9	123165314	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3751407	123165314	18048117	598	101013											
MEGF9	1955	broad.mit.edu	37	chr9	123370165	123370165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttaactgggtccacatggCcgtgacattggcactttcta	8	14	9	10	1	1	1	0	1	1	0	2	1	2	1	2	3	1	1	2	3	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:123370165C>T	uc004bkj.1	-	7	1322	c.1322G>A	c.(1321-1323)GGC>GAC	p.G441D	MEGF9_uc011lyb.1_Missense_Mutation_p.G396D	NM_001080497	NP_001073966	Q9H1U4	MEGF9_HUMAN	multiple EGF-like-domains 9	404	Laminin EGF-like 5.|Extracellular (Potential).					integral to membrane	calcium ion binding				0						GTCCACATGGCCGTGACATTG	0.448													58	173					0	0	0.01441	0	0		T	123370165	T	T	123370165	3	4	209	1	0	0	0	0	1	0	0	0	9482	739	26	2	605	2	MEGF9	9	123370165	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	204851	123370165	17843266	599	101014											
NDUFA8	4702	broad.mit.edu	37	chr9	124906542	124906542	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttggtccagaaataaaagCggctgccatgtgtggcaggc	11	8	13	9	1	0	1	0	0	0	1	1	1	1	1	2	4	2	2	2	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:124906542C>T	uc004blv.2	-	4	639	c.497G>A	c.(496-498)CGC>CAC	p.R166H		NM_014222	NP_055037	P51970	NDUA8_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	166					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1					NADH(DB00157)	GAAATAAAAGCGGCTGCCATG	0.542													7	75					0	0	0.001984	0	0		T	124906542	T	T	124906542	3	4	209	1	0	0	0	0	1	0	0	0	10290	768	27	1	25	1	NDUFA8	9	124906542	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1536377	124906542	16306889	600	101015											
OR1Q1	158131	broad.mit.edu	37	chr9	125377119	125377119	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccttgttttctcactcatgTacgcaatcaatatttctggc	8	17	5	11	1	4	0	3	0	2	0	6	0	5	0	1	1	1	3	1	1	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:125377119T>C	uc011lyy.1	+	1	103	c.103T>C	c.(103-105)TAC>CAC	p.Y35H		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	35	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						CTCACTCATGTACGCAATCAA	0.483													44	163					0	0	0.00874	0	0		C	125377119	C	C	125377119	3	2	209	1	0	0	0	0	1	0	0	0	10990	1638	57	3	105	3	OR1Q1	9	125377119	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	470577	125377119	15836312	601	101016											
RC3H2	54542	broad.mit.edu	37	chr9	125618021	125618021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatcataccattaacacaGcatttgaattagcaatgaca	19	10	4	8	0	1	2	1	2	0	0	1	2	1	2	1	0	4	2	1	0	7	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:125618021G>A	uc010mwc.1	-	14	2832	c.2591C>T	c.(2590-2592)GCT>GTT	p.A864V	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Missense_Mutation_p.A864V|RC3H2_uc004bne.3_Missense_Mutation_p.A864V	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	864						cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						CATTAACACAGCATTTGAATT	0.408													19	87					0	0	0.010504	0	0		A	125618021	A	A	125618021	3	1	209	1	0	0	0	0	1	0	0	0	13192	971	34	2	1094	2	RC3H2	9	125618021	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	240902	125618021	15595410	602	101017											
RABGAP1	23637	broad.mit.edu	37	chr9	125758824	125758824	+	Silent	SNP	T	C	C	0	1	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	ttctttttttgtaggtgtttTggtcttctccttagtccagg	3	22	9	7	0	3	0	0	0	3	0	5	0	4	0	2	3	0	2	2	3	2	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:125758824T>C	uc011lzh.1	+	8	1175	c.1041T>C	c.(1039-1041)TTT>TTC	p.F347F	RABGAP1_uc004bnl.3_RNA	NM_012197	NP_036329	Q9Y3P9	RBGP1_HUMAN	RAB GTPase activating protein 1	347					cell cycle	centrosome|cytosol|microtubule associated complex	Rab GTPase activator activity|tubulin binding			ovary(3)|kidney(2)	5						GTAGGTGTTTTGGTCTTCTCC	0.284													8	61					0	0	0.004482	0	0		C	125758824	C	C	125758824	2	2	209	1	0	0	0	0	0	0	0	1	12989	1809	63	3		3	RABGAP1	9	125758824	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	140803	125758824	15454607	603	101018											
DENND1A	57706	broad.mit.edu	37	chr9	126319911	126319911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agcctgggccttgaggaacgCtctggccacaccatccccag	8	6	11	16	1	1	1	0	1	1	0	2	2	2	2	6	3	2	1	6	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:126319911C>T	uc004bnz.1	-	13	1164	c.931G>A	c.(931-933)GCG>ACG	p.A311T	DENND1A_uc011lzl.1_Intron|DENND1A_uc004bny.1_Missense_Mutation_p.A128T|DENND1A_uc011lzm.1_Missense_Mutation_p.A279T|DENND1A_uc004boa.1_Missense_Mutation_p.A311T|DENND1A_uc004bob.1_Missense_Mutation_p.A281T|DENND1A_uc004boc.2_Missense_Mutation_p.A279T	NM_020946	NP_065997	Q8TEH3	DEN1A_HUMAN	DENN/MADD domain containing 1A isoform 1	311	dDENN.					cell junction|clathrin coated vesicle membrane|presynaptic membrane	guanyl-nucleotide exchange factor activity			ovary(2)	2						TTGAGGAACGCTCTGGCCACA	0.532													6	35					0	0	0.00308	0	0		T	126319911	T	T	126319911	3	4	209	1	0	0	0	0	1	0	0	0	4432	797	28	2	2245	2	DENND1A	9	126319911	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	561087	126319911	14893520	604	101019											
GARNL3	84253	broad.mit.edu	37	chr9	130111247	130111247	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtaatttccctcatgaagcCgtgtgtgcagatccctgggg	8	11	12	10	1	1	2	1	1	0	1	3	2	3	2	3	2	2	2	3	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:130111247C>T	uc011mae.1	+	17	1877	c.1476C>T	c.(1474-1476)GCC>GCT	p.A492A	GARNL3_uc011mad.1_Silent_p.A470A	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	492	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CTCATGAAGCCGTGTGTGCAG	0.512													13	52					0	0	0.00245	0	0		T	130111247	T	T	130111247	2	4	209	1	0	0	0	0	0	0	0	1	6256	639	23	1		1	GARNL3	9	130111247	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3791336	130111247	11102184	605	101020											
SH2D3C	10044	broad.mit.edu	37	chr9	130507072	130507072	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttctgacagttcctttagcCtctccccatagctcctggcc	5	14	6	16	0	2	1	0	1	2	0	5	1	4	1	6	1	2	2	6	1	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:130507072C>A	uc004bsc.2	-	7	1713	c.1571G>T	c.(1570-1572)AGG>ATG	p.R524M	SH2D3C_uc010mxo.2_Missense_Mutation_p.R364M|SH2D3C_uc004bry.2_Missense_Mutation_p.R366M|SH2D3C_uc004brz.3_Missense_Mutation_p.R170M|SH2D3C_uc011mak.1_Missense_Mutation_p.R170M|SH2D3C_uc004bsa.2_Missense_Mutation_p.R367M|SH2D3C_uc004bsb.2_Missense_Mutation_p.R456M	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	524					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						TTCCTTTAGCCTCTCCCCATA	0.622													13	274					1.5842e-08	1.73071e-08	0.001855	1	0		A	130507072	A	A	130507072	3	1	209	1	0	0	0	0	1	0	0	0	14259	681	24	5	1035	5	SH2D3C	9	130507072	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	395825	130507072	10706359	606	101021											
C9orf119	375757	broad.mit.edu	37	chr9	131038511	131038511	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcccacctcgggagaggggCggggccggctttccttgggt	3	7	18	13	4	0	1	0	0	0	1	2	2	1	1	4	7	0	1	4	7	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:131038511C>T	uc004bup.2	+	1	87	c.87C>T	c.(85-87)GGC>GGT	p.G29G	GOLGA2_uc011maw.1_5'Flank|GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_Silent_p.G29G	NM_001040011	NP_001035100	Q1ZZU3	SWI5_HUMAN	hypothetical protein LOC375757	29					double-strand break repair via homologous recombination	Swi5-Sfr1 complex	protein binding				0						GGGAGAGGGGCGGGGCCGGCT	0.682													8	43					0	0	0.00308	0	0		T	131038511	T	T	131038511	2	4	209	1	0	0	0	0	0	0	0	1	2455	755	27	1		1	C9orf119	9	131038511	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	531439	131038511	10174920	607	101022											
SPTAN1	6709	broad.mit.edu	37	chr9	131351145	131351145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctggtcttggctctctacGactatcaggagaagagtccc	9	10	11	11	1	3	2	1	0	2	2	5	4	4	2	1	3	2	2	1	3	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:131351145G>A	uc004bvl.3	+	21	3042	c.2929G>A	c.(2929-2931)GAC>AAC	p.D977N	SPTAN1_uc011mbg.1_Missense_Mutation_p.D977N|SPTAN1_uc011mbh.1_Missense_Mutation_p.D989N|SPTAN1_uc004bvm.3_Missense_Mutation_p.D977N|SPTAN1_uc004bvn.3_Missense_Mutation_p.D977N	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	977	SH3.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						GGCTCTCTACGACTATCAGGA	0.512													11	75					0	0	0.010729	0	0		A	131351145	A	A	131351145	3	1	209	1	0	0	0	0	1	0	0	0	15142	1058	37	1	3007	1	SPTAN1	9	131351145	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	312634	131351145	9862286	608	101023											
LRRC8A	56262	broad.mit.edu	37	chr9	131670898	131670898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcggccaagattgaagcGcccgcgctggccttcctgcg	7	6	13	15	5	0	2	0	1	0	1	1	2	1	2	4	2	3	1	4	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:131670898G>A	uc004bwl.3	+	3	1709	c.1455G>A	c.(1453-1455)GCG>GCA	p.A485A	LRRC8A_uc010myp.2_Silent_p.A485A|LRRC8A_uc010myq.2_Silent_p.A485A	NM_019594	NP_062540	Q8IWT6	LRC8A_HUMAN	leucine rich repeat containing 8 family, member	485	LRR 5.				pre-B cell differentiation	integral to membrane					0						AGATTGAAGCGCCCGCGCTGG	0.617													5	24					0	0	0.000602	0	0		A	131670898	A	A	131670898	2	1	209	1	0	0	0	0	0	0	0	1	9039	1074	38	1		1	LRRC8A	9	131670898	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	319753	131670898	9542533	609	101024											
ASS1	445	broad.mit.edu	37	chr9	133355118	133355118	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctaggggtccctgtgaaggTgaccaacgtcaaggatggca	10	7	14	10	1	1	2	1	2	0	0	2	3	2	3	3	5	1	1	3	5	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:133355118T>C	uc004bzm.2	+	11	1060	c.704T>C	c.(703-705)GTG>GCG	p.V235A	ASS1_uc004bzn.2_Missense_Mutation_p.V235A|ASS1_uc010mza.2_Missense_Mutation_p.V311A|ASS1_uc004bzo.2_Missense_Mutation_p.V216A|ASS1_uc010mzb.2_Missense_Mutation_p.V273A|ASS1_uc004bzp.2_Missense_Mutation_p.V235A|ASS1_uc010mzc.2_Missense_Mutation_p.V235A	NM_000050	NP_000041	P00966	ASSY_HUMAN	argininosuccinate synthetase 1	235					arginine biosynthetic process|urea cycle	cytosol	argininosuccinate synthase activity|ATP binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;0.000514)	Adenosine triphosphate(DB00171)|L-Arginine(DB00125)|L-Aspartic Acid(DB00128)|L-Citrulline(DB00155)	CCTGTGAAGGTGACCAACGTC	0.647													23	99					0	0	0.005443	0	0		C	133355118	C	C	133355118	3	2	209	1	0	0	0	0	1	0	0	0	1062	1696	59	3	738	3	ASS1	9	133355118	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1684220	133355118	7858313	610	101025											
POMT1	10585	broad.mit.edu	37	chr9	134397509	134397509	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaactacctcccgttcttccTgatggagaagacactcttcc	9	11	7	14	1	2	3	0	1	2	2	5	5	5	3	4	1	2	1	4	1	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:134397509T>C	uc004cav.2	+	19	2169	c.1967T>C	c.(1966-1968)CTG>CCG	p.L656P	POMT1_uc004cax.2_Missense_Mutation_p.L634P|POMT1_uc011mcj.1_Missense_Mutation_p.L374P|POMT1_uc004cau.2_Missense_Mutation_p.L634P|POMT1_uc004caw.2_Missense_Mutation_p.L580P|POMT1_uc011mck.1_Missense_Mutation_p.L517P|POMT1_uc011mcl.1_Missense_Mutation_p.L482P|POMT1_uc011mcm.1_Missense_Mutation_p.L604P	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	656	Helical; (Potential).				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		CCGTTCTTCCTGATGGAGAAG	0.602													6	136					0	0	0.001984	0	0		C	134397509	C	C	134397509	3	2	209	1	0	0	0	0	1	0	0	0	12264	1580	55	3	2037	3	POMT1	9	134397509	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1042391	134397509	6815922	611	101026											
TSC1	7248	broad.mit.edu	37	chr9	135786042	135786042	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggggctggaggaggagaGgttgctggggttcccagagg	7	7	22	5	0	0	2	0	0	0	2	1	5	1	4	1	9	1	4	1	9	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:135786042G>T	uc004cca.2	-	12	1413	c.1179C>A	c.(1177-1179)ACC>ACA	p.T393T	TSC1_uc004ccb.3_Silent_p.T392T|TSC1_uc011mcq.1_Silent_p.T342T|TSC1_uc011mcr.1_Intron|TSC1_uc011mcs.1_Silent_p.T272T|TSC1_uc004ccc.1_Silent_p.T393T	NM_000368	NP_000359	Q92574	TSC1_HUMAN	tuberous sclerosis 1 protein isoform 1	393					activation of Rho GTPase activity|cell cycle arrest|cell-matrix adhesion|insulin receptor signaling pathway|negative regulation of cell proliferation|negative regulation of protein ubiquitination|negative regulation of TOR signaling cascade|negative regulation of translation|positive regulation of focal adhesion assembly|regulation of phosphoprotein phosphatase activity|regulation of stress fiber assembly|rRNA export from nucleus	cell cortex|lamellipodium|membrane|TSC1-TSC2 complex	chaperone binding|protein N-terminus binding	p.?(1)		lung(4)|central_nervous_system(3)|breast(2)|haematopoietic_and_lymphoid_tissue(1)|urinary_tract(1)|skin(1)|ovary(1)|bone(1)	14				OV - Ovarian serous cystadenocarcinoma(145;4.32e-08)|Epithelial(140;2.72e-06)		GAGGAGGAGAGGTTGCTGGGG	0.532			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				17	244					4.7546e-09	5.20214e-09	0.004007	1	0		T	135786042	T	T	135786042	2	4	209	1	0	0	0	0	0	0	0	1	16631	987	35	5		5	TSC1	9	135786042	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1388533	135786042	5427389	612	101027											
COL5A1	1289	broad.mit.edu	37	chr9	137591908	137591908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcctctacgaggaccacaCggggaagcctggcccggaag	9	5	13	14	3	1	0	0	0	1	0	2	4	2	3	4	5	2	0	4	5	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:137591908C>T	uc004cfe.2	+	3	813	c.431C>T	c.(430-432)ACG>ATG	p.T144M		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	144	TSP N-terminal.|Laminin G-like.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GAGGACCACACGGGGAAGCCT	0.627													22	68					0	0	0.012319	0	0		T	137591908	T	T	137591908	3	4	209	1	0	0	0	0	1	0	0	0	3699	536	19	1	441	1	COL5A1	9	137591908	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1805866	137591908	3621523	613	101028											
COL5A1	1289	broad.mit.edu	37	chr9	137657580	137657580	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtcctcccggacctccCgtaagtcccattaccgccct	6	8	7	20	3	0	0	0	0	0	0	4	1	4	1	8	2	1	1	8	2	2	2	rs146757272		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:137657580C>T	uc004cfe.2	+	21	2470	c.2088C>T	c.(2086-2088)CCC>CCT	p.P696P		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	696	Triple-helical region.			PPGPPGVT -> VTGEPGAP (in Ref. 4; AA sequence).	axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCGGACCTCCCGTAAGTCCCA	0.632													21	73					0	0	0.012319	0	0		T	137657580	T	T	137657580	2	4	209	1	0	0	0	0	0	0	0	1	3699	666	23	1		1	COL5A1	9	137657580	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	65672	137657580	3555851	614	101029											
SOHLH1	402381	broad.mit.edu	37	chr9	138588520	138588520	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagtgcctcacacttgtccGtgcccagggacgtgcagctc	7	8	11	15	2	1	0	1	0	0	0	3	1	2	1	3	1	4	2	3	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:138588520G>T	uc004cgl.2	-	5	660	c.599C>A	c.(598-600)ACG>AAG	p.T200K	SOHLH1_uc010nbe.2_Missense_Mutation_p.T200K	NM_001012415	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic	200					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			breast(1)|central_nervous_system(1)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		ACACTTGTCCGTGCCCAGGGA	0.682													13	40					1.61879e-10	1.79003e-10	0.013537	1	0		T	138588520	T	T	138588520	3	4	209	1	0	0	0	0	1	0	0	0	14948	1145	40	5	621	5	SOHLH1	9	138588520	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	930940	138588520	2624911	615	101030											
UAP1L1	91373	broad.mit.edu	37	chr9	139975224	139975224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccgacagggacagtccccGcaccgctcgccaggccctgc	7	3	12	19	4	0	0	0	0	0	0	2	2	1	1	6	2	2	2	6	2	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:139975224G>A	uc010ncb.2	+	7	1294	c.1262G>A	c.(1261-1263)CGC>CAC	p.R421H	UAP1L1_uc004cla.3_Missense_Mutation_p.R298H	NM_207309	NP_997192	Q3KQV9	UAP1L_HUMAN	UDP-N-acteylglucosamine pyrophosphorylase 1-like	421							nucleotidyltransferase activity			ovary(1)	1	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)		GACAGTCCCCGCACCGCTCGC	0.677													22	85					0	0	0.014323	0	0		A	139975224	A	A	139975224	3	1	209	1	0	0	0	0	1	0	0	0	16852	1087	38	1	1288	1	UAP1L1	9	139975224	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1386704	139975224	1238207	616	101031											
PNPLA7	375775	broad.mit.edu	37	chr9	140361857	140361857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgaaggccccgatggacgtgCctcccaccatgtccacaggg	8	5	12	16	3	0	0	0	0	0	0	2	3	2	1	6	3	1	0	6	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr9:140361857C>T	uc004cnf.2	-	25	3213	c.2876G>A	c.(2875-2877)GGC>GAC	p.G959D	C9orf167_uc011mew.1_Intron|PNPLA7_uc004cnd.1_Missense_Mutation_p.G225D|PNPLA7_uc004cne.1_Missense_Mutation_p.G225D|PNPLA7_uc011mfa.1_Missense_Mutation_p.G367D|PNPLA7_uc010ncj.1_Missense_Mutation_p.G984D	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	959	Patatin.|GXSXG.				lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		GATGGACGTGCCTCCCACCAT	0.647													22	67					0	0	0.00278	0	0		T	140361857	T	T	140361857	3	4	209	1	0	0	0	0	1	0	0	0	12189	739	26	2	1117	2	PNPLA7	9	140361857	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	386633	140361857	851574	617	101032											
PFKP	5214	broad.mit.edu	37	chr10	3151612	3151612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accccggacaccccagcttgCgtcgtgtcactgaacgggaa	9	6	11	15	4	1	1	1	1	0	0	2	3	1	3	4	2	3	1	4	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:3151612C>T	uc001igp.2	+	10	1065	c.1029C>T	c.(1027-1029)TGC>TGT	p.C343C	PFKP_uc001igq.2_Silent_p.C335C|PFKP_uc009xhr.2_Silent_p.C305C|PFKP_uc009xhs.1_Silent_p.C127C|PFKP_uc009xht.2_Silent_p.C81C	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	343					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		CCCCAGCTTGCGTCGTGTCAC	0.672													6	26					0	0	0.001168	0	0		T	3151612	T	T	3151612	2	4	209	1	0	0	0	0	0	0	0	1	11785	776	27	1		1	PFKP	10	3151612	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		3151612	132383135	618	101033											
AKR1C4	1109	broad.mit.edu	37	chr10	5255081	5255081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcgtggggttgtggtcctgGccaagagctacaatgagcag	9	8	16	8	1	0	2	0	1	0	1	1	2	1	2	2	4	4	3	2	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:5255081G>A	uc001ihw.2	+	7	838	c.805G>A	c.(805-807)GCC>ACC	p.A269T		NM_001818	NP_001809	P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4	269	NADP.				androgen metabolic process|bile acid biosynthetic process	cytosol	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid transmembrane transporter activity|chlordecone reductase activity|electron carrier activity			ovary(1)	1					NADH(DB00157)	TGTGGTCCTGGCCAAGAGCTA	0.552													6	56					0	0	0.00308	0	0		A	5255081	A	A	5255081	3	1	209	1	0	0	0	0	1	0	0	0	472	1203	42	2	831	2	AKR1C4	10	5255081	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2103469	5255081	130279666	619	101034											
TUBAL3	79861	broad.mit.edu	37	chr10	5436175	5436175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acgatggcatatatcatagaCggcctcgttgtccaccatga	11	10	9	11	3	1	2	1	1	0	1	3	3	2	2	3	2	0	2	3	2	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:5436175C>T	uc001ihy.2	-	4	686	c.646G>A	c.(646-648)GTC>ATC	p.V216I	TUBAL3_uc001ihz.2_Missense_Mutation_p.V176I	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	216					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						ATATCATAGACGGCCTCGTTG	0.517													11	61					0	0	0.008291	0	0		T	5436175	T	T	5436175	3	4	209	1	0	0	0	0	1	0	0	0	16777	536	19	1	698	1	TUBAL3	10	5436175	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	181094	5436175	130098572	620	101035											
GATA3	2625	broad.mit.edu	37	chr10	8106092	8106092	+	Silent	SNP	G	A	A	0	0	1	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	cggcccctcattaagcccaaGcgaaggctggtaagttctcg	9	8	11	13	3	2	0	1	0	1	0	3	1	2	0	3	3	2	3	3	3	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:8106092G>A	uc001ika.2	+	4	1469	c.912G>A	c.(910-912)AAG>AAA	p.K304K	GATA3_uc001ijz.2_Silent_p.K305K	NM_002051	NP_002042	P23771	GATA3_HUMAN	GATA binding protein 3 isoform 2	304					aortic valve morphogenesis|blood coagulation|canonical Wnt receptor signaling pathway involved in metanephric kidney development|cardiac right ventricle morphogenesis|cell fate determination|cellular response to interferon-alpha|cellular response to interleukin-4|cellular response to tumor necrosis factor|defense response|ear development|lymphocyte migration|male gonad development|mesenchymal to epithelial transition|mesonephros development|negative regulation of cell cycle|negative regulation of cell motility|negative regulation of cell proliferation involved in mesonephros development|negative regulation of endothelial cell apoptosis|negative regulation of fat cell differentiation|negative regulation of fibroblast growth factor receptor signaling pathway involved in ureteric bud formation|negative regulation of glial cell-derived neurotrophic factor receptor signaling pathway involved in ureteric bud formation|negative regulation of inflammatory response|negative regulation of mammary gland epithelial cell proliferation|nephric duct formation|norepinephrine biosynthetic process|pharyngeal system development|phosphatidylinositol 3-kinase cascade|positive regulation of endothelial cell migration|positive regulation of interleukin-13 secretion|positive regulation of interleukin-4 production|positive regulation of interleukin-5 secretion|positive regulation of protein kinase B signaling cascade|positive regulation of T cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription regulatory region DNA binding|positive regulation of ureteric bud formation|regulation of cellular response to X-ray|regulation of cytokine biosynthetic process|regulation of nephron tubule epithelial cell differentiation|response to estrogen stimulus|response to virus|sympathetic nervous system development|T cell receptor signaling pathway|TOR signaling cascade|ureteric bud formation|uterus development|ventricular septum development	nuclear chromatin|nucleolus|nucleoplasm	core promoter proximal region sequence-specific DNA binding|core promoter sequence-specific DNA binding|E-box binding|HMG box domain binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription coactivator activity|transcription factor binding|zinc ion binding			breast(17)|ovary(3)|central_nervous_system(2)	22						TTAAGCCCAAGCGAAGGCTGG	0.552			F|N|S		breast		HDR syndrome (HYPOPARATHYROIDISM|SENSORINEURAL DEAFNESS|AND RENAL DISEASE)						16	104					0	0	0.004007	0	0		A	8106092	A	A	8106092	2	1	209	1	0	0	0	0	0	0	0	1	6270	962	34	2		2	GATA3	10	8106092	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2669917	8106092	127428655	621	101036											
DHTKD1	55526	broad.mit.edu	37	chr10	12148275	12148275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccactgtcagaagaggccGtcctgggatttgaatatggg	9	9	14	9	1	1	3	1	1	0	2	2	4	2	4	3	3	0	0	3	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:12148275G>A	uc001ild.3	+	11	2026	c.1927G>A	c.(1927-1929)GTC>ATC	p.V643I		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	643					glycolysis	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding	p.V643I(1)		ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)			AGAAGAGGCCGTCCTGGGATT	0.537													24	82					0	0	0.003271	0	0		A	12148275	A	A	12148275	3	1	209	1	0	0	0	0	1	0	0	0	4506	1145	40	1	1969	1	DHTKD1	10	12148275	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4042183	12148275	123386472	622	101037											
MCM10	55388	broad.mit.edu	37	chr10	13213034	13213034	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgggaaaatggcgagcccgaCgcatttgatgagctctttga	10	9	13	9	4	1	3	0	3	1	0	1	6	1	4	1	2	2	2	1	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:13213034C>T	uc001ima.2	+	3	221	c.120C>T	c.(118-120)GAC>GAT	p.D40D	MCM10_uc001imb.2_Silent_p.D40D|MCM10_uc001imc.2_Silent_p.D40D	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	40					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						GCGAGCCCGACGCATTTGATG	0.468													31	196					0	0	0.010818	0	0		T	13213034	T	T	13213034	2	4	209	1	0	0	0	0	0	0	0	1	9403	535	19	1		1	MCM10	10	13213034	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1064759	13213034	122321713	623	101038											
MCM10	55388	broad.mit.edu	37	chr10	13222486	13222486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatgaacaagaaaatgaccgGccgaaaactgatcagactgt	18	6	9	8	2	1	5	1	3	0	2	1	6	1	5	2	1	2	0	2	1	7	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:13222486G>A	uc001ima.2	+	7	913	c.812G>A	c.(811-813)GGC>GAC	p.G271D	MCM10_uc001imb.2_Missense_Mutation_p.G270D|MCM10_uc001imc.2_Missense_Mutation_p.G270D	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	271					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						AAAATGACCGGCCGAAAACTG	0.418													26	64					0	0	0.00333	0	0		A	13222486	A	A	13222486	3	1	209	1	0	0	0	0	1	0	0	0	9403	1203	42	2	834	2	MCM10	10	13222486	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	9452	13222486	122312261	624	101039											
FRMD4A	55691	broad.mit.edu	37	chr10	13824973	13824973	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagctcaatggtagcattAtccttcaggtatgaaatgct	14	12	8	7	0	2	1	2	1	0	0	3	1	3	1	1	2	3	5	1	2	7	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:13824973A>G	uc001ims.2	-	6	685	c.333T>C	c.(331-333)GAT>GAC	p.D111D	FRMD4A_uc009xjf.1_Silent_p.D111D|FRMD4A_uc001imt.1_Silent_p.D144D|FRMD4A_uc001imu.1_Silent_p.D127D	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	111	FERM.					cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						TGGTAGCATTATCCTTCAGGT	0.418													41	142					0	0	0.009718	0	0		G	13824973	G	G	13824973	2	3	209	1	0	0	0	0	0	0	0	1	6065	446	16	3		3	FRMD4A	10	13824973	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	602487	13824973	121709774	625	101040											
ST8SIA6	338596	broad.mit.edu	37	chr10	17495589	17495589	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgcggtaccgcggtcgccgGgctccggagcgtcctcagcg	3	5	17	16	9	1	0	1	0	0	0	4	1	3	1	4	4	3	2	4	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:17495589G>T	uc001ipd.2	-	2	169	c.169C>A	c.(169-171)CCG>ACG	p.P57T	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	57	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						GCGGTCGCCGGGCTCCGGAGC	0.711													3	8					0.004672	0.00479408	0.004672	1	0		T	17495589	T	T	17495589	3	4	209	1	0	0	0	0	1	0	0	0	15261	1232	43	5	1055	5	ST8SIA6	10	17495589	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3670616	17495589	118039158	626	101041											
NEBL	10529	broad.mit.edu	37	chr10	21157652	21157652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctggtcttccaattacagCgggctctttattcattattc	8	17	6	10	1	4	0	1	0	3	0	6	0	5	0	1	2	2	1	1	2	4	7	rs142138590		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:21157652C>T	uc001iqi.2	-	7	1022	c.625G>A	c.(625-627)GCT>ACT	p.A209T	NEBL_uc001iqj.2_RNA|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform	209	Nebulin 6.				regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CCAATTACAGCGGGCTCTTTA	0.343													24	105					0	0	0.00632	0	0		T	21157652	T	T	21157652	3	4	209	1	0	0	0	0	1	0	0	0	10322	768	27	1	2507	1	NEBL	10	21157652	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3662063	21157652	114377095	627	101042											
ARMC4	55130	broad.mit.edu	37	chr10	28283978	28283978	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	cacaaacacaataatttcttTcaatatcgcttcatttagag	15	14	3	9	1	3	1	2	0	1	1	4	1	3	1	0	0	1	1	0	0	6	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:28283978T>A	uc009xky.2	-	2	192	c.94A>T	c.(94-96)AAA>TAA	p.K32*	ARMC4_uc001itz.2_Nonsense_Mutation_p.K32*	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	32							binding			ovary(4)|skin(2)	6						ATAATTTCTTTCAATATCGCT	0.438													5	58					0	0	0.000602	0	0		A	28283978	A	A	28283978	4	1	209	1	0	0	0	0	0	1	0	0	954	1792	62	5	3116	5	ARMC4	10	28283978	Nonsense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	7126326	28283978	107250769	628	101043											
SVIL	6840	broad.mit.edu	37	chr10	29813608	29813608	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccctcatttgtctggtcCttggctaaggccttttggtg	3	17	11	10	0	2	0	1	0	1	0	3	0	3	0	3	4	1	1	3	4	1	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:29813608C>A	uc001iut.1	-	14	3132	c.2379G>T	c.(2377-2379)AAG>AAT	p.K793N	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Missense_Mutation_p.K367N	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	793					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TTGTCTGGTCCTTGGCTAAGG	0.443													49	145					8.44121e-28	9.64236e-28	0.01441	1	0		A	29813608	A	A	29813608	3	1	209	1	0	0	0	0	1	0	0	0	15446	680	24	5	4365	5	SVIL	10	29813608	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1529630	29813608	105721139	629	101044											
SVIL	6840	broad.mit.edu	37	chr10	29821018	29821018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcaccaggagaaaaatagCgtcttggtttccgggaccct	10	11	10	10	2	2	1	1	0	1	1	3	3	3	2	3	3	1	1	3	3	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:29821018C>T	uc001iut.1	-	9	2675	c.1922G>A	c.(1921-1923)CGC>CAC	p.R641H	SVIL_uc001iuu.1_Intron	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	641					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				AGAAAAATAGCGTCTTGGTTT	0.502													7	95					0	0	0.001984	0	0		T	29821018	T	T	29821018	3	4	209	1	0	0	0	0	1	0	0	0	15446	768	27	1	4842	1	SVIL	10	29821018	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7410	29821018	105713729	630	101045											
HNRNPF	3185	broad.mit.edu	37	chr10	43882892	43882892	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccctgtaatcttgccttcGgggtccacaggcaatgtgat	7	12	10	12	1	1	1	0	1	1	0	4	1	3	1	4	3	1	2	4	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:43882892G>A	uc009xmh.1	-	3	928	c.441C>T	c.(439-441)CCC>CCT	p.P147P	HNRNPF_uc001jar.2_Silent_p.P147P|HNRNPF_uc001jas.2_Silent_p.P147P|HNRNPF_uc001jat.2_Silent_p.P147P|HNRNPF_uc001jav.2_Silent_p.P147P|HNRNPF_uc001jau.2_Silent_p.P147P|uc010qfa.1_3'UTR	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	147	RRM 2.				regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						TCTTGCCTTCGGGGTCCACAG	0.512													29	113					0	0	0.005443	0	0		A	43882892	A	A	43882892	2	1	209	1	0	0	0	0	0	0	0	1	7281	1103	39	1		1	HNRNPF	10	43882892	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	14061874	43882892	91651855	631	101046											
RBP3	5949	broad.mit.edu	37	chr10	48389461	48389461	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcaggtccatgatgaggtGctccgtgtcctgtagcggct	5	10	15	11	3	0	2	0	2	0	0	3	2	3	2	3	3	2	4	3	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:48389461G>T	uc001jez.2	-	1	1531	c.1417C>A	c.(1417-1419)CAC>AAC	p.H473N		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	473	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	ATGATGAGGTGCTCCGTGTCC	0.652													7	34					0.00198382	0.00204868	0.001984	1	0		T	48389461	T	T	48389461	3	4	209	1	0	0	0	0	1	0	0	0	13182	1319	46	5	2342	5	RBP3	10	48389461	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4506569	48389461	87145286	632	101047											
ERCC6	2074	broad.mit.edu	37	chr10	50740814	50740814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagggctggccctctcctcGgagctgctgatgcgcacccc	4	7	13	17	2	1	1	0	1	1	0	3	2	1	2	4	3	3	5	4	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:50740814G>A	uc001jhs.3	-	2	351	c.197C>T	c.(196-198)CCG>CTG	p.P66L	PGBD3_uc009xoe.2_Missense_Mutation_p.P66L|PGBD3_uc001jhu.2_Missense_Mutation_p.P66L	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	66					base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						CCCTCTCCTCGGAGCTGCTGA	0.622								Direct_reversal_of_damage|NER					17	69					0	0	0.007413	0	0		A	50740814	A	A	50740814	3	1	209	1	0	0	0	0	1	0	0	0	5225	1116	39	1	4364	1	ERCC6	10	50740814	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2351353	50740814	84793933	633	101048											
PCDH15	65217	broad.mit.edu	37	chr10	55581693	55581693	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcaaactccccttgttttgTtcagatgtgatttccatatt	8	19	5	9	0	2	2	2	1	0	1	4	2	4	2	3	0	1	2	3	0	2	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:55581693T>G	uc001jju.1	-	33	6188	c.5793A>C	c.(5791-5793)GAA>GAC	p.E1931D	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Missense_Mutation_p.E785D|PCDH15_uc010qhv.1_Missense_Mutation_p.E1928D|PCDH15_uc010qhw.1_Missense_Mutation_p.E1891D|PCDH15_uc010qhx.1_Missense_Mutation_p.E1862D|PCDH15_uc010qhy.1_Missense_Mutation_p.E1938D|PCDH15_uc010qhz.1_Missense_Mutation_p.E1933D|PCDH15_uc010qia.1_Missense_Mutation_p.E1911D|PCDH15_uc010qib.1_Missense_Mutation_p.E1908D	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1931	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				CCTTGTTTTGTTCAGATGTGA	0.348										HNSCC(58;0.16)			20	84					0	0	0.007413	0	0		G	55581693	G	G	55581693	3	3	209	1	0	0	0	0	1	0	0	0	11530	1722	60	5	1684	5	PCDH15	10	55581693	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4840879	55581693	79953054	634	101049											
CCDC6	8030	broad.mit.edu	37	chr10	61665922	61665922	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcgcggttctcctcctgCagtgccttgcacttcagttt	4	14	10	13	2	2	0	1	0	1	0	5	0	3	0	3	2	3	4	3	2	0	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:61665922C>T	uc001jks.3	-	1	897	c.261G>A	c.(259-261)CTG>CTA	p.L87L		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	87	Potential.					cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		TCTCCTCCTGCAGTGCCTTGC	0.667													19	81					0	0	0.008871	0	0		T	61665922	T	T	61665922	2	4	209	1	0	0	0	0	0	0	0	1	2833	697	25	2		2	CCDC6	10	61665922	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6084229	61665922	73868825	635	101050											
SLC25A16	8034	broad.mit.edu	37	chr10	70263442	70263442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctgaaattcccagcttcGtagtaattaactagaaaaca	16	10	6	9	1	0	2	0	1	0	1	2	3	1	2	2	0	3	3	2	0	7	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:70263442G>A	uc001joi.2	-	4	820	c.368C>T	c.(367-369)ACG>ATG	p.T123M	SLC25A16_uc010qix.1_Translation_Start_Site|SLC25A16_uc010qiy.1_Missense_Mutation_p.T25M|SLC25A16_uc001joj.2_Missense_Mutation_p.T25M	NM_152707	NP_689920	P16260	GDC_HUMAN	solute carrier family 25, member 16	123					coenzyme biosynthetic process|pantothenate metabolic process	integral to membrane|mitochondrial inner membrane	binding|solute:solute antiporter activity				0						TCCCAGCTTCGTAGTAATTAA	0.308													26	92					0	0	0.010818	0	0		A	70263442	A	A	70263442	3	1	209	1	0	0	0	0	1	0	0	0	14503	1145	40	1	654	1	SLC25A16	10	70263442	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	8597520	70263442	65271305	636	101051											
KIAA1279	26128	broad.mit.edu	37	chr10	70748821	70748821	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccacgccctggggctgccggCtgaggtggtggagcccgagg	4	5	19	13	3	0	1	0	1	0	0	0	3	0	2	4	7	2	2	4	7	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:70748821C>T	uc001joy.2	+	1	329	c.233C>T	c.(232-234)GCT>GTT	p.A78V		NM_015634	NP_056449	Q96EK5	KBP_HUMAN	KIF1 binding protein	78					cell differentiation|mitochondrial transport|nervous system development	mitochondrion	kinesin binding			ovary(1)	1						GGGCTGCCGGCTGAGGTGGTG	0.721													10	57					0	0	0.006214	0	0		T	70748821	T	T	70748821	3	4	209	1	0	0	0	0	1	0	0	0	8237	797	28	2	235	2	KIAA1279	10	70748821	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	485379	70748821	64785926	637	101052											
NEUROG3	50674	broad.mit.edu	37	chr10	71332693	71332693	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgcgagtggggctgggcGgggcggacgtggggcaggtc	3	6	25	7	4	0	0	0	0	0	0	1	2	0	1	0	9	1	2	0	9	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:71332693G>T	uc001jpp.2	-	2	265	c.107C>A	c.(106-108)CCG>CAG	p.P36Q		NM_020999	NP_066279	Q9Y4Z2	NGN3_HUMAN	neurogenin 3	36					central nervous system development|endocrine pancreas development|peripheral nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	transcription coactivator activity				0						GGGGCTGGGCGGGGCGGACGT	0.726													16	38					6.72482e-11	7.45322e-11	0.003163	1	0		T	71332693	T	T	71332693	3	4	209	1	0	0	0	0	1	0	0	0	10373	1116	39	5	541	5	NEUROG3	10	71332693	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	583872	71332693	64202054	638	101053											
ADAMTS14	140766	broad.mit.edu	37	chr10	72511376	72511376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggcgctcaagagctgggCcccctgcagcaaggcctgtg	6	6	16	13	1	1	1	1	0	0	1	1	1	1	1	3	3	3	4	3	3	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:72511376C>T	uc001jrh.2	+	17	2570	c.2570C>T	c.(2569-2571)GCC>GTC	p.A857V	ADAMTS14_uc001jrg.2_Missense_Mutation_p.A860V	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	857	TSP type-1 2.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						AAGAGCTGGGCCCCCTGCAGC	0.617													6	62					0	0	0.001984	0	0		T	72511376	T	T	72511376	3	4	209	1	0	0	0	0	1	0	0	0	259	739	26	2	2645	2	ADAMTS14	10	72511376	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1178683	72511376	63023371	639	101054											
PCBD1	5092	broad.mit.edu	37	chr10	72645663	72645663	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggtccctctcctcagcGctcagcctgtgtgctttgcc	3	12	10	16	1	3	0	2	0	1	0	5	0	4	0	4	1	5	3	4	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:72645663G>A	uc001jrn.1	-	2	278	c.27C>T	c.(25-27)AGC>AGT	p.S9S		NM_000281	NP_000272	P61457	PHS_HUMAN	pterin-4 alpha-carbinolamine	9					L-phenylalanine catabolic process|regulation of transcription, DNA-dependent|tetrahydrobiopterin biosynthetic process|transcription, DNA-dependent	cytosol|nucleus	4-alpha-hydroxytetrahydrobiopterin dehydratase activity|identical protein binding|transcription coactivator activity				0						TCTCCTCAGCGCTCAGCCTGT	0.527													5	32					0	0	0.000602	0	0		A	72645663	A	A	72645663	2	1	209	1	0	0	0	0	0	0	0	1	11517	1078	38	1		1	PCBD1	10	72645663	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	134287	72645663	62889084	640	101055											
SLC29A3	55315	broad.mit.edu	37	chr10	73082600	73082600	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tctccgagctgaccaggaggCactgcttgagaagctgctgg	8	8	14	11	1	1	2	0	2	1	1	2	5	1	3	2	3	4	5	2	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:73082600C>T	uc001jrr.3	+	2	146	c.89C>T	c.(88-90)GCA>GTA	p.A30V	SLC29A3_uc001jrs.3_Missense_Mutation_p.A30V|SLC29A3_uc010qjq.1_5'UTR|SLC29A3_uc001jrt.3_5'UTR|SLC29A3_uc001jru.3_Intron	NM_018344	NP_060814	Q9BZD2	S29A3_HUMAN	solute carrier family 29 (nucleoside	30	Cytoplasmic (Potential).				nucleobase, nucleoside and nucleotide metabolic process	integral to membrane|late endosome membrane|lysosomal membrane	nucleoside transmembrane transporter activity				0						GACCAGGAGGCACTGCTTGAG	0.587													17	126					0	0	0.00499	0	0		T	73082600	T	T	73082600	3	4	209	1	0	0	0	0	1	0	0	0	14561	710	25	2	95	2	SLC29A3	10	73082600	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	436937	73082600	62452147	641	101056											
ZNF503	84858	broad.mit.edu	37	chr10	77158710	77158710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtcccagggctgcccggtgCgcccgaggtggggatgtgca	4	6	18	13	4	0	0	0	0	0	0	1	2	1	1	3	5	3	2	3	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:77158710C>T	uc001jxg.2	-	2	2074	c.1738G>A	c.(1738-1740)GCA>ACA	p.A580T	C10orf41_uc010qlf.1_5'Flank	NM_032772	NP_116161	Q96F45	ZN503_HUMAN	zinc finger protein 503	580					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1	all_cancers(46;0.105)|all_epithelial(25;0.00449)|Prostate(51;0.0112)|Ovarian(15;0.088)					CTGCCCGGTGCGCCCGAGGTG	0.716													3	15					0	0	0.004672	0	0		T	77158710	T	T	77158710	3	4	209	1	0	0	0	0	1	0	0	0	17976	768	27	1	206	1	ZNF503	10	77158710	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4076110	77158710	58376037	642	101057											
ZNF503	84858	broad.mit.edu	37	chr10	77159254	77159254	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagcccagagacccggcCgcggccgccgccagctgcgc	5	2	14	20	6	0	1	0	0	0	1	0	2	0	1	6	2	4	2	6	2	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:77159254C>T	uc001jxg.2	-	2	1530	c.1194G>A	c.(1192-1194)GCG>GCA	p.A398A	C10orf41_uc010qlf.1_5'Flank	NM_032772	NP_116161	Q96F45	ZN503_HUMAN	zinc finger protein 503	398	Ala-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1	all_cancers(46;0.105)|all_epithelial(25;0.00449)|Prostate(51;0.0112)|Ovarian(15;0.088)					GAGACCCGGCCGCGGCCGCCG	0.726													3	10					0	0	0.004672	0	0		T	77159254	T	T	77159254	2	4	209	1	0	0	0	0	0	0	0	1	17976	639	23	1		1	ZNF503	10	77159254	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	544	77159254	58375493	643	101058											
KCNMA1	3778	broad.mit.edu	37	chr10	78651415	78651415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaatcagagcctccagctcCggcgtggctcctccggtcac	6	7	11	17	3	2	1	2	0	0	1	6	1	6	1	5	3	2	3	5	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:78651415C>T	uc001jxn.2	-	26	3387	c.3210G>A	c.(3208-3210)CCG>CCA	p.P1070P	KCNMA1_uc001jxj.2_Silent_p.P1016P|KCNMA1_uc001jxk.1_Silent_p.P688P|KCNMA1_uc009xrt.1_Silent_p.P861P|KCNMA1_uc001jxl.1_Silent_p.P695P|KCNMA1_uc001jxo.2_Silent_p.P1053P|KCNMA1_uc001jxm.2_Silent_p.P1012P|KCNMA1_uc001jxq.2_Silent_p.P1042P|uc001jxp.2_Intron	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	1070	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	CCTCCAGCTCCGGCGTGGCTC	0.577													15	70					0	0	0.00499	0	0		T	78651415	T	T	78651415	2	4	209	1	0	0	0	0	0	0	0	1	8089	639	23	1		1	KCNMA1	10	78651415	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1492161	78651415	56883332	644	101059											
LRIT1	26103	broad.mit.edu	37	chr10	85997212	85997212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccaggggaaggcggccaggCggttcccgggcagccgcagc	6	2	18	15	4	0	0	0	0	0	0	1	1	1	1	4	7	2	3	4	7	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:85997212C>T	uc001kcz.1	-	2	375	c.353G>A	c.(352-354)CGC>CAC	p.R118H		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	118	LRR 3.|Lumenal (Potential).					integral to endoplasmic reticulum membrane					0						GGCGGCCAGGCGGTTCCCGGG	0.741													5	8					0	0	0.001168	0	0		T	85997212	T	T	85997212	3	4	209	1	0	0	0	0	1	0	0	0	8965	768	27	1	1530	1	LRIT1	10	85997212	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7345797	85997212	49537535	645	101060											
MMRN2	79812	broad.mit.edu	37	chr10	88702910	88702910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgcgcgtccacggccagcGacacggcgtccacggcgttc	5	6	14	16	8	0	0	0	0	0	0	3	1	2	0	3	3	2	1	3	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:88702910G>A	uc001kea.2	-	6	1758	c.1631C>T	c.(1630-1632)TCG>TTG	p.S544L	MMRN2_uc010qmn.1_Missense_Mutation_p.S187L|MMRN2_uc009xtb.2_Missense_Mutation_p.S501L	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	544						extracellular space				large_intestine(1)	1						CACGGCCAGCGACACGGCGTC	0.751													4	21					0	0	0.009096	0	0		A	88702910	A	A	88702910	3	1	209	1	0	0	0	0	1	0	0	0	9689	1059	37	1	1226	1	MMRN2	10	88702910	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2705698	88702910	46831837	646	101061											
CYP26A1	1592	broad.mit.edu	37	chr10	94834065	94834065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccgccttcctcccacagCggaggaagttcctgcagatg	7	8	10	16	2	0	1	0	0	0	1	4	3	4	3	6	2	2	2	6	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:94834065C>T	uc001kil.2	+	2	235	c.190C>T	c.(190-192)CGG>TGG	p.R64W	CYP26A1_uc001kik.1_5'UTR|CYP26A1_uc001kim.1_5'UTR	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	64					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				CCTCCCACAGCGGAGGAAGTT	0.652													10	32					0	0	0.008291	0	0		T	94834065	T	T	94834065	3	4	209	1	0	0	0	0	1	0	0	0	4158	782	27	1	196	1	CYP26A1	10	94834065	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6131155	94834065	40700682	647	101062											
CYP26A1	1592	broad.mit.edu	37	chr10	94834777	94834777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttcgaggaaatgacccGcaatctcttctcgctgccca	8	9	9	15	3	2	1	0	1	2	0	5	3	2	2	3	2	1	2	3	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:94834777G>A	uc001kil.2	+	3	701	c.656G>A	c.(655-657)CGC>CAC	p.R219H	CYP26A1_uc001kik.1_Missense_Mutation_p.R150H|CYP26A1_uc001kim.1_Missense_Mutation_p.R117H	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	219					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				GAAATGACCCGCAATCTCTTC	0.662													7	77					0	0	0.00308	0	0		A	94834777	A	A	94834777	3	1	209	1	0	0	0	0	1	0	0	0	4158	1087	38	1	666	1	CYP26A1	10	94834777	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	712	94834777	40699970	648	101063											
PLCE1	51196	broad.mit.edu	37	chr10	96005982	96005982	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaaagcccacaactgcctcCccagccagcagtaaagcaaa	15	4	7	15	0	0	0	0	0	0	0	1	0	1	0	5	0	6	4	5	0	6	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:96005982C>T	uc001kjk.2	+	8	3334	c.2700C>T	c.(2698-2700)TCC>TCT	p.S900S	PLCE1_uc010qnx.1_Silent_p.S900S|PLCE1_uc001kjm.2_Silent_p.S592S	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	900					activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				CAACTGCCTCCCCAGCCAGCA	0.522													11	39					0	0	0.010729	0	0		T	96005982	T	T	96005982	2	4	209	1	0	0	0	0	0	0	0	1	12053	610	22	4		4	PLCE1	10	96005982	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1171205	96005982	39528765	649	101064											
PKD2L1	9033	broad.mit.edu	37	chr10	102054765	102054765	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggtagccgagttgggcaTaggcgaagaaaacaatgaag	15	5	15	6	2	0	2	0	1	0	1	0	4	0	2	1	3	2	4	1	3	7	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:102054765T>C	uc001kqx.1	-	8	1855	c.1472A>G	c.(1471-1473)TAT>TGT	p.Y491C	PKD2L1_uc009xwm.1_Missense_Mutation_p.Y444C	NM_016112	NP_057196	Q9P0L9	PK2L1_HUMAN	polycystic kidney disease 2-like 1	491	Helical; (Potential).				signal transduction	integral to membrane	calcium activated cation channel activity|calcium ion binding|cytoskeletal protein binding			ovary(4)	4		Colorectal(252;0.117)		Epithelial(162;6.15e-10)|all cancers(201;5.14e-08)		GAGTTGGGCATAGGCGAAGAA	0.542													5	73					0	0	0.001168	0	0		C	102054765	C	C	102054765	3	2	209	1	0	0	0	0	1	0	0	0	11986	1406	49	3	981	3	PKD2L1	10	102054765	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	6048783	102054765	33479982	650	101065											
SEC31B	25956	broad.mit.edu	37	chr10	102267696	102267696	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcactgactttgatgataGgttcattcttcctgagatcc	9	15	8	9	0	3	4	2	4	1	1	5	6	5	4	2	1	0	1	2	1	1	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:102267696G>T	uc001krc.1	-	6	710	c.608C>A	c.(607-609)CCT>CAT	p.P203H	SEC31B_uc010qpo.1_Missense_Mutation_p.P202H|SEC31B_uc001krd.1_5'UTR|SEC31B_uc001krf.1_5'UTR|SEC31B_uc001kre.1_5'UTR|SEC31B_uc001krg.1_5'UTR|SEC31B_uc010qpp.1_Missense_Mutation_p.P206H|SEC31B_uc009xwn.1_Missense_Mutation_p.P203H|SEC31B_uc009xwo.1_Missense_Mutation_p.P203H|SEC31B_uc010qpq.1_Missense_Mutation_p.P46H|SEC31B_uc010qpr.1_RNA	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	203	WD 3.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		TTTGATGATAGGTTCATTCTT	0.527													9	121					3.09899e-07	3.35781e-07	0.004482	1	0		T	102267696	T	T	102267696	3	4	209	1	0	0	0	0	1	0	0	0	14024	1000	35	5	3015	5	SEC31B	10	102267696	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	212931	102267696	33267051	651	101066											
PDCD11	22984	broad.mit.edu	37	chr10	105200581	105200581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atcgggagggaaaagaggagGcagaagagacgaatgtgctg	15	4	18	4	2	0	3	0	0	0	3	1	8	0	6	0	4	1	2	0	4	4	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:105200581G>A	uc001kwy.1	+	30	4618	c.4531G>A	c.(4531-4533)GCA>ACA	p.A1511T		NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11	1511					mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		AAAAGAGGAGGCAGAAGAGAC	0.597													18	50					0	0	0.00499	0	0		A	105200581	A	A	105200581	3	1	209	1	0	0	0	0	1	0	0	0	11636	1203	42	2	4645	2	PDCD11	10	105200581	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2932885	105200581	30334166	652	101067											
PDCD4	27250	broad.mit.edu	37	chr10	112647591	112647591	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtggaaaaatcatttgatAaattgttgaaagatctacct	16	14	7	4	0	2	3	1	2	1	1	2	4	2	4	1	1	1	1	1	1	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:112647591A>G	uc001kzh.2	+	6	967	c.724A>G	c.(724-726)AAA>GAA	p.K242E	PDCD4_uc001kzg.2_Missense_Mutation_p.K231E|PDCD4_uc010qre.1_Missense_Mutation_p.K228E	NM_014456	NP_055271	Q53EL6	PDCD4_HUMAN	programmed cell death 4 isoform 1	242	Nuclear localization signal (Potential).|MI 1.				apoptosis|cell aging|negative regulation of cell cycle|negative regulation of JUN kinase activity|negative regulation of transcription, DNA-dependent	cytosol|nucleus	protein binding|RNA binding			ovary(1)|breast(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.000526)|all cancers(201;0.00794)|BRCA - Breast invasive adenocarcinoma(275;0.125)		ATCATTTGATAAATTGTTGAA	0.393													19	108					0	0	0.007413	0	0		G	112647591	G	G	112647591	3	3	209	1	0	0	0	0	1	0	0	0	11640	363	13	3	756	3	PDCD4	10	112647591	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	7447010	112647591	22887156	653	101068											
GPAM	57678	broad.mit.edu	37	chr10	113917103	113917103	+	Silent	SNP	C	T	T	0	0	0	1	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	tctggaagcttcttgtcccaCtgctgctcagcaagactagg	8	11	10	12	0	3	1	1	0	2	1	4	2	4	2	1	2	4	4	1	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:113917103C>T	uc009xxy.1	-	19	2223	c.2025G>A	c.(2023-2025)CAG>CAA	p.Q675Q	GPAM_uc001kzp.2_Silent_p.Q675Q|GPAM_uc001kzq.1_Silent_p.Q675Q	NM_020918	NP_065969	Q9HCL2	GPAT1_HUMAN	mitochondrial glycerol 3-phosphate	675	Mitochondrial intermembrane (Potential).|Mitochondrial intermembrane (Potential).				phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity			ovary(1)|skin(1)	2				Epithelial(162;0.0306)|all cancers(201;0.123)		TCTTGTCCCACTGCTGCTCAG	0.463													6	58					0	0	0.001984	0	0		T	113917103	T	T	113917103	2	4	209	1	0	0	0	0	0	0	0	1	6603	564	20	4		4	GPAM	10	113917103	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1269512	113917103	21617644	654	101069											
CPXM2	119587	broad.mit.edu	37	chr10	125528203	125528203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggcccagcacctcattgcCgtgggcccccgcgatgtagt	5	7	12	17	4	1	0	1	0	0	0	1	1	1	0	6	2	2	2	6	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:125528203C>T	uc001lhk.1	-	9	1463	c.1138G>A	c.(1138-1140)GGC>AGC	p.G380S	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	380					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		ACCTCATTGCCGTGGGCCCCC	0.592													16	109					0	0	0.00499	0	0		T	125528203	T	T	125528203	3	4	209	1	0	0	0	0	1	0	0	0	3841	652	23	1	1156	1	CPXM2	10	125528203	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	11611100	125528203	10006544	655	101070											
LHPP	64077	broad.mit.edu	37	chr10	126186676	126186676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaagtctgccctgcaagcGataggagtggaagcccacca	11	7	11	12	1	2	0	1	0	1	0	2	3	2	2	3	2	4	1	3	2	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:126186676G>A	uc001lhs.1	+	5	623	c.603G>A	c.(601-603)GCG>GCA	p.A201A	LHPP_uc001lht.1_Silent_p.A201A|LHPP_uc009yai.1_Intron	NM_022126	NP_071409	Q9H008	LHPP_HUMAN	phospholysine phosphohistidine inorganic	201					protein dephosphorylation	cytosol|nucleus	inorganic diphosphatase activity|magnesium ion binding|phosphohistidine phosphatase activity|protein homodimerization activity				0		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.163)|Colorectal(40;0.187)		CCCTGCAAGCGATAGGAGTGG	0.572													14	81					0	0	0.003163	0	0		A	126186676	A	A	126186676	2	1	209	1	0	0	0	0	0	0	0	1	8785	1045	37	1		1	LHPP	10	126186676	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	658473	126186676	9348071	656	101071											
C10orf137	26098	broad.mit.edu	37	chr10	127414391	127414391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcttcagtttctgaagatcCcagtgcttccagtcaggtta	8	15	8	10	0	4	2	2	1	2	1	6	2	6	2	2	1	1	3	2	1	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:127414391C>T	uc001liq.1	+	6	1069	c.776C>T	c.(775-777)CCC>CTC	p.P259L	C10orf137_uc001lin.2_Missense_Mutation_p.P259L|C10orf137_uc001lio.1_Missense_Mutation_p.P259L|C10orf137_uc001lip.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	259					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				TCTGAAGATCCCAGTGCTTCC	0.403													8	61					0	0	0.004482	0	0		T	127414391	T	T	127414391	3	4	209	1	0	0	0	0	1	0	0	0	1597	623	22	4	798	4	C10orf137	10	127414391	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1227715	127414391	8120356	657	101072											
PTPRE	5791	broad.mit.edu	37	chr10	129881123	129881123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgaattctgctacaaagtgGtacaagattttattgatata	15	15	7	4	0	1	3	0	2	1	1	1	3	1	3	0	1	3	2	0	1	8	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr10:129881123G>A	uc001lkb.2	+	21	2335	c.2056G>A	c.(2056-2058)GTA>ATA	p.V686I	PTPRE_uc009yat.2_Missense_Mutation_p.V697I|PTPRE_uc009yau.2_Missense_Mutation_p.V686I|PTPRE_uc001lkd.2_Missense_Mutation_p.V628I|PTPRE_uc010quq.1_Nonsense_Mutation_p.W541*	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E	686	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				CTACAAAGTGGTACAAGATTT	0.254													11	31					0	0	0.008291	0	0		A	129881123	A	A	129881123	3	1	209	1	0	0	0	0	1	0	0	0	12825	1261	44	4	2169	4	PTPRE	10	129881123	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2466732	129881123	5653624	658	101073											
MUC6	4588	broad.mit.edu	37	chr11	1017296	1017296	+	Silent	SNP	T	C	C	0	1	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	gatggaacgtgagtgggaagTgtggtgtgagggtgtgatgg	8	10	22	1	1	0	3	0	3	0	0	0	6	0	5	0	5	1	0	0	5	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:1017296T>C	uc001lsw.2	-	31	5556	c.5505A>G	c.(5503-5505)ACA>ACG	p.T1835T		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1835	Thr-rich.|2.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GAGTGGGAAGTGTGGTGTGAG	0.547													45	652					0	0	0.01441	0	0		C	1017296	C	C	1017296	2	2	209	1	0	0	0	0	0	0	0	1	9998	1683	59	3		3	MUC6	11	1017296	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08		1017296	133989220	659	101074											
MUC2	4583	broad.mit.edu	37	chr11	1086062	1086062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtccagcacgggcatcatcGtcatctgggacaagaggacc	11	6	12	12	2	3	1	2	0	1	1	5	3	4	3	2	3	1	2	2	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:1086062G>A	uc001lsx.1	+	22	2929	c.2902G>A	c.(2902-2904)GTC>ATC	p.V968I		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	968	VWFD 3.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	GGGCATCATCGTCATCTGGGA	0.657													3	33					0	0	0.004672	0	0		A	1086062	A	A	1086062	3	1	209	1	0	0	0	0	1	0	0	0	9993	1145	40	1	2988	1	MUC2	11	1086062	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	68766	1086062	133920454	660	101075											
MUC5B	727897	broad.mit.edu	37	chr11	1271490	1271490	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcactacagccaccgtgacGgtgcccaccggatccacggc	9	4	11	17	4	0	1	0	1	0	0	1	2	1	2	5	3	4	1	5	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:1271490G>A	uc009ycr.1	+	51	14925	c.14799G>A	c.(14797-14799)ACG>ACA	p.T4933T	MUC5B_uc001ltb.2_Silent_p.T4463T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4460	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCACCGTGACGGTGCCCACCG	0.672													17	114					0	0	0.003954	0	0		A	1271490	A	A	1271490	2	1	209	1	0	0	0	0	0	0	0	1	9997	1103	39	1		1	MUC5B	11	1271490	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	185428	1271490	133735026	661	101076											
CTSD	1509	broad.mit.edu	37	chr11	1778684	1778684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgccatcgaacttggctgCgatgaaggtgatgcctggct	8	10	14	9	2	0	2	0	2	0	0	1	5	0	2	2	3	4	2	2	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:1778684C>T	uc001luc.1	-	5	707	c.574G>A	c.(574-576)GCA>ACA	p.A192T	CTSD_uc009yda.1_RNA	NM_001909	NP_001900	P07339	CATD_HUMAN	cathepsin D preproprotein	192					cell death|proteolysis	extracellular space|lysosome|melanosome	aspartic-type endopeptidase activity				0		all_epithelial(84;0.00018)|Ovarian(85;0.0014)|Breast(177;0.00147)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00136)|Lung(200;0.0684)|LUSC - Lung squamous cell carcinoma(625;0.0822)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	AACTTGGCTGCGATGAAGGTG	0.622											OREG0003774	type=REGULATORY REGION|Gene=CTSD|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	40					0	0	0.000602	0	0		T	1778684	T	T	1778684	3	4	209	1	0	0	0	0	1	0	0	0	4035	768	27	1	684	1	CTSD	11	1778684	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	507194	1778684	133227832	662	101077											
IGF2	3481	broad.mit.edu	37	chr11	2156625	2156625	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccgcggtccccacagacGaactggagggtgtccaccag	10	4	13	14	3	0	1	0	0	0	1	2	3	2	2	5	3	2	0	5	3	2	0	rs140032633		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:2156625G>A	uc009yde.2	-	2	232	c.129C>T	c.(127-129)TTC>TTT	p.F43F	IGF2_uc001lvf.2_5'Flank|IGF2_uc001lvg.2_Silent_p.F43F|IGF2_uc009ydf.2_Silent_p.F99F|IGF2_uc001lvh.2_Silent_p.F43F|INS-IGF2_uc001lvi.2_RNA|MIR483_hsa-mir-483|MI0002467_5'Flank|INS-IGF2_uc001lvj.1_RNA	NM_001007139	NP_001007140	P01344	IGF2_HUMAN	insulin-like growth factor 2 isoform 1	43	B.				glucose metabolic process|ossification|phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling|positive regulation of activated T cell proliferation|positive regulation of cell division|positive regulation of glycogen (starch) synthase activity|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|skeletal system development	extracellular space	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|protein serine/threonine kinase activator activity|receptor activator activity			central_nervous_system(1)	1		all_epithelial(84;5.04e-06)|Breast(177;0.000777)|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;0.0179)|COAD - Colon adenocarcinoma(6;0.029)	BRCA - Breast invasive adenocarcinoma(625;1.09e-05)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		CCCCACAGACGAACTGGAGGG	0.627													7	25					0	0	0.001984	0	0		A	2156625	A	A	2156625	2	1	209	1	0	0	0	0	0	0	0	1	7588	1049	37	1		1	IGF2	11	2156625	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	377941	2156625	132849891	663	101078											
OR52K2	119774	broad.mit.edu	37	chr11	4471014	4471014	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcatcaccaagattggcatgGctgctgtggcccgggctgtg	6	10	14	11	1	2	1	2	0	0	1	2	1	2	1	2	4	1	4	2	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:4471014G>A	uc001lyz.1	+	1	445	c.445G>A	c.(445-447)GCT>ACT	p.A149T		NM_001005172	NP_001005172	Q8NGK3	O52K2_HUMAN	olfactory receptor, family 52, subfamily K,	149	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;1.48e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0821)|LUSC - Lung squamous cell carcinoma(625;0.19)		GATTGGCATGGCTGCTGTGGC	0.572													23	88					0	0	0.00632	0	0		A	4471014	A	A	4471014	3	1	209	1	0	0	0	0	1	0	0	0	11143	1203	42	2	447	2	OR52K2	11	4471014	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2314389	4471014	130535502	664	101079											
OR51B5	282763	broad.mit.edu	37	chr11	5364477	5364477	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcctgggaaaagcaggccGcacttccaatctccctgtga	10	7	11	13	1	1	1	0	1	1	0	3	2	2	2	4	3	1	2	4	3	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:5364477G>A	uc001map.1	-	1	278	c.278C>T	c.(277-279)GCG>GTG	p.A93V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.A93V	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	93	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AAAGCAGGCCGCACTTCCAAT	0.557													4	61					0	0	0.000602	0	0		A	5364477	A	A	5364477	3	1	209	1	0	0	0	0	1	0	0	0	11110	1087	38	1	664	1	OR51B5	11	5364477	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	893463	5364477	129642039	665	101080											
OR52B6	340980	broad.mit.edu	37	chr11	5602471	5602471	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggctgcctcactcagatgtTcttcattcacttcctcttca	6	16	5	14	0	7	1	5	0	2	1	8	1	8	1	2	1	1	2	2	1	0	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:5602471T>G	uc010qzi.1	+	1	365	c.365T>G	c.(364-366)TTC>TGC	p.F122C	HBG2_uc001mak.1_Intron	NM_001005162	NP_001005162	Q8NGF0	O52B6_HUMAN	olfactory receptor, family 52, subfamily B,	122	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;3.56e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTCAGATGTTCTTCATTCAC	0.522													18	76					0	0	0.00499	0	0		G	5602471	G	G	5602471	3	3	209	1	0	0	0	0	1	0	0	0	11132	1783	62	5	367	5	OR52B6	11	5602471	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	237994	5602471	129404045	666	101081											
CNGA4	1262	broad.mit.edu	37	chr11	6265356	6265356	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacaagttggacgtgaatgCtgaggcagctgagatcgccc	11	7	14	9	2	0	3	0	3	0	1	1	6	0	4	1	2	3	4	1	2	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:6265356C>G	uc001mco.2	+	6	1552	c.1445C>G	c.(1444-1446)GCT>GGT	p.A482G	CNGA4_uc010raa.1_3'UTR|CNGA4_uc001mcn.2_3'UTR	NM_001037329	NP_001032406	Q8IV77	CNGA4_HUMAN	cyclic nucleotide gated channel alpha 4	482	Cytoplasmic (Potential).				response to stimulus|sensory perception of smell		cAMP binding			skin(1)	1		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.04e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GACGTGAATGCTGAGGCAGCT	0.567													18	50					0	0	0.007413	0	0		G	6265356	G	G	6265356	3	3	209	1	0	0	0	0	1	0	0	0	3602	797	28	5	1467	5	CNGA4	11	6265356	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	662885	6265356	128741160	667	101082											
OR10A4	283297	broad.mit.edu	37	chr11	6898745	6898745	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actcccatgttgaaccccatCatctacagctcaaggaataa	14	9	5	13	0	3	1	2	1	1	0	4	2	4	2	3	1	3	2	3	1	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:6898745C>T	uc010rat.1	+	1	867	c.867C>T	c.(865-867)ATC>ATT	p.I289I		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	289	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		TGAACCCCATCATCTACAGCT	0.502													19	112					0	0	0.012319	0	0		T	6898745	T	T	6898745	2	4	209	1	0	0	0	0	0	0	0	1	10911	816	29	4		4	OR10A4	11	6898745	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	633389	6898745	128107771	668	101083											
OR5P3	120066	broad.mit.edu	37	chr11	7847470	7847470	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaactgtagtatcctcagatAaccccaaaagagtaaactct	17	9	5	10	0	2	2	1	0	1	2	3	2	3	2	3	0	3	3	3	0	8	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:7847470A>G	uc010rbg.1	-	1	50	c.50T>C	c.(49-51)TTA>TCA	p.L17S		NM_153445	NP_703146	Q8WZ94	OR5P3_HUMAN	olfactory receptor, family 5, subfamily P,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		ATCCTCAGATAACCCCAAAAG	0.343													7	47					0	0	0.013537	0	0		G	7847470	G	G	7847470	3	3	209	1	0	0	0	0	1	0	0	0	11198	372	13	3	888	3	OR5P3	11	7847470	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	948725	7847470	127159046	669	101084											
ST5	6764	broad.mit.edu	37	chr11	8752324	8752324	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gacgcctctcggcgaccttcCcatgctgatatcttctcccg	5	11	8	17	4	3	1	0	1	3	0	6	3	4	1	4	1	1	1	4	1	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:8752324C>T	uc001mgt.2	-	3	699	c.513G>A	c.(511-513)TGG>TGA	p.W171*	ST5_uc009yfr.2_Intron|ST5_uc001mgu.2_Intron|ST5_uc001mgv.2_Nonsense_Mutation_p.W171*|ST5_uc010rbq.1_Intron|ST5_uc001mgw.1_Nonsense_Mutation_p.W171*	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	171					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GGCGACCTTCCCATGCTGATA	0.701													9	51					0	0	0.008291	0	0		T	8752324	T	T	8752324	4	4	209	1	0	0	0	0	0	1	0	0	15245	624	22	4	2972	4	ST5	11	8752324	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	904854	8752324	126254192	670	101085											
ST5	6764	broad.mit.edu	37	chr11	8752514	8752514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgggcgtctctcttgcacGccgaagggcttctgtccaaa	6	12	11	12	3	3	0	0	0	3	0	5	1	4	0	2	2	1	2	2	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:8752514G>A	uc001mgt.2	-	3	509	c.323C>T	c.(322-324)GCG>GTG	p.A108V	ST5_uc009yfr.2_Intron|ST5_uc001mgu.2_Intron|ST5_uc001mgv.2_Missense_Mutation_p.A108V|ST5_uc010rbq.1_Intron|ST5_uc001mgw.1_Missense_Mutation_p.A108V	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	108					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		TCTCTTGCACGCCGAAGGGCT	0.607													10	106					0	0	0.006214	0	0		A	8752514	A	A	8752514	3	1	209	1	0	0	0	0	1	0	0	0	15245	1087	38	1	3162	1	ST5	11	8752514	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	190	8752514	126254002	671	101086											
ASCL3	56676	broad.mit.edu	37	chr11	8959358	8959358	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tactcctctggcagatgatgGcggagctgggcgtagccttc	6	10	14	11	2	1	2	0	1	1	1	3	3	2	3	2	4	3	3	2	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:8959358G>T	uc001mhd.1	-	2	411	c.351C>A	c.(349-351)CGC>CGA	p.R117R		NM_020646	NP_065697	Q9NQ33	ASCL3_HUMAN	ASCL3	116	Helix-loop-helix motif.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleolus	DNA binding				0				Epithelial(150;1.48e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0228)		GCAGATGATGGCGGAGCTGGG	0.542													16	81					6.94344e-10	7.66628e-10	0.006122	1	0		T	8959358	T	T	8959358	2	4	209	1	0	0	0	0	0	0	0	1	1036	1190	42	5		5	ASCL3	11	8959358	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	206844	8959358	126047158	672	101087											
SPON1	10418	broad.mit.edu	37	chr11	14156978	14156978	+	Missense_Mutation	SNP	A	G	G	1	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	tttcccaggtcgggccaaccActggtctgcgatcatcggag	7	9	12	13	3	2	0	1	0	1	0	5	2	3	1	3	4	2	0	3	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:14156978A>G	uc001mle.2	+	7	1227	c.689A>G	c.(688-690)CAC>CGC	p.H230R		NM_006108	NP_006099	Q9HCB6	SPON1_HUMAN	spondin 1, extracellular matrix protein	230	Spondin.				cell adhesion	extracellular space|proteinaceous extracellular matrix	protein binding				0				Epithelial(150;0.00898)		CGGGCCAACCACTGGTCTGCG	0.512													8	96					0	0	0.004482	0	0		G	14156978	G	G	14156978	3	3	209	1	0	0	0	0	1	0	0	0	15107	159	6	3	710	3	SPON1	11	14156978	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	5197620	14156978	120849538	673	101088											
RRAS2	22800	broad.mit.edu	37	chr11	14316397	14316397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaaactcttcttgtcctgCtgtatccaaaactaaagaaa	14	12	4	11	0	2	1	0	0	2	1	5	1	5	1	3	0	3	2	3	0	7	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:14316397C>T	uc001mlf.3	-	3	521	c.208G>A	c.(208-210)GCA>ACA	p.A70T	RRAS2_uc009ygq.2_5'UTR|RRAS2_uc010rco.1_Missense_Mutation_p.A76T	NM_012250	NP_036382	P62070	RRAS2_HUMAN	related RAS viral (r-ras) oncogene homolog 2	70	GTP (By similarity).					endoplasmic reticulum|plasma membrane	GTP binding|GTPase activity|protein binding			breast(1)	1				Epithelial(150;0.203)		TCTTGTCCTGCTGTATCCAAA	0.403													21	93					0	0	0.014323	0	0		T	14316397	T	T	14316397	3	4	209	1	0	0	0	0	1	0	0	0	13702	797	28	2	422	2	RRAS2	11	14316397	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	159419	14316397	120690119	674	101089											
PDE3B	5140	broad.mit.edu	37	chr11	14665715	14665715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagtctgaggaacggctacGtgaagagctgcgtgagcccc	10	6	15	10	3	1	5	0	3	1	2	1	6	1	6	2	2	5	2	2	2	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:14665715G>A	uc001mln.2	+	1	447	c.94G>A	c.(94-96)GTG>ATG	p.V32M	PDE3B_uc001mlm.2_Missense_Mutation_p.V32M|PDE3B_uc010rcr.1_Missense_Mutation_p.V32M|PSMA1_uc001mll.2_5'Flank	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	32					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						GAACGGCTACGTGAAGAGCTG	0.706													3	19					0	0	0.009096	0	0		A	14665715	A	A	14665715	3	1	209	1	0	0	0	0	1	0	0	0	11657	1145	40	1	96	1	PDE3B	11	14665715	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	349318	14665715	120340801	675	101090											
PDE3B	5140	broad.mit.edu	37	chr11	14880640	14880640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaatcatcatgctgcgtcaGcttggaatctatatctttct	11	15	6	9	1	6	0	3	0	3	0	6	1	6	1	0	1	3	2	0	1	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:14880640G>A	uc001mln.2	+	13	2925	c.2572G>A	c.(2572-2574)GCT>ACT	p.A858T	PDE3B_uc010rcr.1_Missense_Mutation_p.A807T	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	858	Catalytic (By similarity).				cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						TGCTGCGTCAGCTTGGAATCT	0.363													7	85					0	0	0.00308	0	0		A	14880640	A	A	14880640	3	1	209	1	0	0	0	0	1	0	0	0	11657	971	34	2	2622	2	PDE3B	11	14880640	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	214925	14880640	120125876	676	101091											
PIK3C2A	5286	broad.mit.edu	37	chr11	17115867	17115867	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgaagttcctgaaattcGtcaaatgttcggaagacaaa	14	12	9	6	2	1	3	1	2	0	1	4	4	2	4	1	1	0	2	1	1	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:17115867G>A	uc001mmq.3	-	27	4458	c.4392C>T	c.(4390-4392)GAC>GAT	p.D1464D	PIK3C2A_uc009ygu.1_Intron|PIK3C2A_uc010rcw.1_Silent_p.D1084D|PIK3C2A_uc001mmr.3_Intron	NM_002645	NP_002636	O00443	P3C2A_HUMAN	phosphoinositide-3-kinase, class 2 alpha	1464	PX.			D -> V (in Ref. 1; CAA73797).	cell communication|phosphatidylinositol biosynthetic process|phosphatidylinositol-mediated signaling	clathrin-coated vesicle|Golgi apparatus|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity			lung(4)|central_nervous_system(4)|stomach(1)|ovary(1)	10					Phosphatidylserine(DB00144)	CCTGAAATTCGTCAAATGTTC	0.338													8	30					0	0	0.00308	0	0		A	17115867	A	A	17115867	2	1	209	1	0	0	0	0	0	0	0	1	11928	1136	40	1		1	PIK3C2A	11	17115867	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2235227	17115867	117890649	677	101092											
SPTY2D1	144108	broad.mit.edu	37	chr11	18633956	18633956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatcttccatttcagagtcGtattcatcatcatcgtcatc	11	15	4	11	2	6	1	5	0	1	1	10	1	7	1	1	0	0	1	1	0	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:18633956G>A	uc001moy.2	-	4	2007	c.1791C>T	c.(1789-1791)TAC>TAT	p.Y597Y	SPTY2D1_uc010rdi.1_Silent_p.Y597Y	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	597										breast(1)	1						TTTCAGAGTCGTATTCATCAT	0.378													9	56					0	0	0.004482	0	0		A	18633956	A	A	18633956	2	1	209	1	0	0	0	0	0	0	0	1	15151	1140	40	1		1	SPTY2D1	11	18633956	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1518089	18633956	116372560	678	101093											
E2F8	79733	broad.mit.edu	37	chr11	19247354	19247354	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttaccagacaaaatggactCtgcccccagggatgagcact	12	8	9	12	0	1	2	0	1	1	1	1	4	1	4	3	2	3	1	3	2	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:19247354C>A	uc001mpm.2	-	11	2473	c.1951G>T	c.(1951-1953)GAG>TAG	p.E651*	E2F8_uc009yhv.2_Intron|E2F8_uc001mpn.3_Nonsense_Mutation_p.E651*	NM_024680	NP_078956	A0AVK6	E2F8_HUMAN	E2F family member 8	651					cell cycle	transcription factor complex	DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						AAAATGGACTCTGCCCCCAGG	0.453													36	196					5.73237e-09	6.26722e-09	0.00623	1	0		A	19247354	A	A	19247354	4	1	209	1	0	0	0	0	0	1	0	0	4879	922	32	5	664	5	E2F8	11	19247354	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	613398	19247354	115759162	679	101094											
NAV2	89797	broad.mit.edu	37	chr11	19955143	19955143	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagtcgcatgctcaccacCgtgggccctgcttccagcag	6	7	11	17	2	1	0	1	0	0	0	3	0	2	0	5	1	3	4	5	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:19955143C>T	uc010rdm.1	+	8	1783	c.1422C>T	c.(1420-1422)ACC>ACT	p.T474T	NAV2_uc001mpp.2_Silent_p.T387T|NAV2_uc001mpr.3_Silent_p.T451T	NM_145117	NP_660093	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 2	474						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						TGCTCACCACCGTGGGCCCTG	0.602													5	78					0	0	0.000602	0	0		T	19955143	T	T	19955143	2	4	209	1	0	0	0	0	0	0	0	1	10202	639	23	1		1	NAV2	11	19955143	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	707789	19955143	115051373	680	101095											
SLC5A12	159963	broad.mit.edu	37	chr11	26743064	26743064	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaaggggtccccaggacCgtgacagctgacatgaagct	11	6	13	11	1	1	4	1	3	0	1	2	5	2	5	3	3	2	2	3	3	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:26743064C>A	uc001mra.2	-	1	511	c.198G>T	c.(196-198)ACG>ACT	p.T66T	SLC5A12_uc001mrb.2_Intron|SLC5A12_uc001mrc.3_Silent_p.T66T	NM_178498	NP_848593	Q1EHB4	SC5AC_HUMAN	solute carrier family 5 (sodium/glucose	66	Helical; (Potential).				sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(1)|skin(1)	2						TCCCCAGGACCGTGACAGCTG	0.512													14	49					7.93312e-07	8.57013e-07	0.00245	1	0		A	26743064	A	A	26743064	2	1	209	1	0	0	0	0	0	0	0	1	14689	639	23	5		5	SLC5A12	11	26743064	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6787921	26743064	108263452	681	101096											
NAT10	55226	broad.mit.edu	37	chr11	34165024	34165024	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggggacgatgaagagtggaAtgaagttttgaacaaagctg	14	9	15	3	1	0	4	0	3	0	1	0	7	0	6	0	3	2	2	0	3	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:34165024A>G	uc001mvk.2	+	28	3162	c.2918A>G	c.(2917-2919)AAT>AGT	p.N973S	NAT10_uc010ren.1_Missense_Mutation_p.N901S	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	973	Required for localization to the nucleolus and midbody.					nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				GAAGAGTGGAATGAAGTTTTG	0.483													9	23					0	0	0.004482	0	0		G	34165024	G	G	34165024	3	3	209	1	0	0	0	0	1	0	0	0	10192	101	4	3	3024	3	NAT10	11	34165024	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	7421960	34165024	100841492	682	101097											
FJX1	24147	broad.mit.edu	37	chr11	35641134	35641134	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcctgcagtgggacccgcGcgtcatgcagcgtgccacca	7	5	13	16	4	1	0	1	0	0	0	1	1	1	1	4	1	5	2	4	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:35641134G>A	uc001mwh.2	+	1	1400	c.950G>A	c.(949-951)CGC>CAC	p.R317H		NM_014344	NP_055159	Q86VR8	FJX1_HUMAN	four jointed box 1 precursor	317						extracellular space					0	all_cancers(35;0.177)|all_lung(20;0.0238)|Lung NSC(22;0.0494)|all_epithelial(35;0.0739)	all_hematologic(20;0.107)				TGGGACCCGCGCGTCATGCAG	0.622													6	46					0	0	0.001984	0	0		A	35641134	A	A	35641134	3	1	209	1	0	0	0	0	1	0	0	0	5915	1087	38	1	952	1	FJX1	11	35641134	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1476110	35641134	99365382	683	101098											
TRAF6	7189	broad.mit.edu	37	chr11	36511400	36511400	+	Silent	SNP	A	G	G	1	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	agggcaagctatacccctgcAtcagtacttcgtggctgaaa	11	9	10	11	1	1	1	1	1	0	0	2	1	1	1	2	2	4	5	2	2	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:36511400A>G	uc001mwr.1	-	8	1897	c.1557T>C	c.(1555-1557)GAT>GAC	p.D519D	uc001mwq.1_5'Flank|TRAF6_uc001mws.1_Silent_p.D519D	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	519					activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				ATACCCCTGCATCAGTACTTC	0.478													30	149					0	0	0.003755	0	0		G	36511400	G	G	36511400	2	3	209	1	0	0	0	0	0	0	0	1	16471	214	8	3		3	TRAF6	11	36511400	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	870266	36511400	98495116	684	101099											
F2	2147	broad.mit.edu	37	chr11	46744794	46744794	+	Silent	SNP	T	C	C	0	1	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	aacatcacccggtcaggcatTgagtgccagctatggaggag	11	7	13	10	1	2	1	2	1	0	0	2	3	2	3	2	4	3	2	2	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:46744794T>C	uc001ndf.3	+	5	424	c.381T>C	c.(379-381)ATT>ATC	p.I127I	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	127	Kringle 1.				activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	GGTCAGGCATTGAGTGCCAGC	0.607													8	170					0	0	0.006214	0	0		C	46744794	C	C	46744794	2	2	209	1	0	0	0	0	0	0	0	1	5350	1800	63	3		3	F2	11	46744794	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	10233394	46744794	88261722	685	101100											
F2	2147	broad.mit.edu	37	chr11	46747450	46747450	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgatgactccacgctccgaaGgctccagtgtgaatctgtca	9	9	10	13	3	2	2	1	2	1	0	5	4	5	2	3	1	0	2	3	1	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:46747450G>T	uc001ndf.3	+	7	644	c.601G>T	c.(601-603)GGC>TGC	p.G201C	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	201					activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	ACGCTCCGAAGGCTCCAGTGT	0.493													22	127					7.92952e-12	8.84236e-12	0.003954	1	0		T	46747450	T	T	46747450	3	4	209	1	0	0	0	0	1	0	0	0	5350	1000	35	5	627	5	F2	11	46747450	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2656	46747450	88259066	686	101101											
MADD	8567	broad.mit.edu	37	chr11	47311500	47311500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctcaacatgaaaaaggtgCgccggctgctggagagcgag	11	5	16	9	3	1	2	1	1	0	1	1	4	1	2	1	4	4	3	1	4	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:47311500C>T	uc001ner.1	+	18	3090	c.2899C>T	c.(2899-2901)CGC>TGC	p.R967C	MADD_uc001neq.2_Missense_Mutation_p.R947C|MADD_uc001nev.1_Missense_Mutation_p.R904C|MADD_uc001nes.1_Missense_Mutation_p.R924C|MADD_uc001net.1_Missense_Mutation_p.R967C|MADD_uc009yln.1_Missense_Mutation_p.R904C|MADD_uc001neu.1_Missense_Mutation_p.R904C|MADD_uc001nex.2_Missense_Mutation_p.R967C|MADD_uc001nez.2_Missense_Mutation_p.R904C|MADD_uc001new.2_Missense_Mutation_p.R947C|MADD_uc009ylo.2_5'Flank	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	967					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		GAAAAAGGTGCGCCGGCTGCT	0.607													9	40					0	0	0.006214	0	0		T	47311500	T	T	47311500	3	4	209	1	0	0	0	0	1	0	0	0	9170	768	27	1	2965	1	MADD	11	47311500	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	564050	47311500	87695016	687	101102											
PTPRJ	5795	broad.mit.edu	37	chr11	48166268	48166268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tcctgaaatacacgtatgagGatttcaaaaagggagcctca	15	9	9	8	1	2	2	2	2	0	0	3	4	3	4	2	2	2	1	2	2	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:48166268G>A	uc001ngp.3	+	13	2972	c.2617G>A	c.(2617-2619)GAT>AAT	p.D873N		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	873	Extracellular (Potential).|Fibronectin type-III 9.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CACGTATGAGGATTTCAAAAA	0.398													11	45					0	0	0.010729	0	0		A	48166268	A	A	48166268	3	1	209	1	0	0	0	0	1	0	0	0	12829	1174	41	4	2676	4	PTPRJ	11	48166268	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	854768	48166268	86840248	688	101103											
OR4C12	283093	broad.mit.edu	37	chr11	50003327	50003327	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actatgatgtgagaaatacaGgtggagagggctttacacct	13	10	12	6	0	0	3	0	2	0	2	0	5	0	3	1	3	2	1	1	3	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:50003327G>T	uc010ria.1	-	1	711	c.711C>A	c.(709-711)ACC>ACA	p.T237T		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	237	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						GAGAAATACAGGTGGAGAGGG	0.413													14	52					3.27435e-08	3.56644e-08	0.00245	1	0		T	50003327	T	T	50003327	2	4	209	1	0	0	0	0	0	0	0	1	11065	987	35	5		5	OR4C12	11	50003327	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1837059	50003327	85003189	689	101104											
OR4C16	219428	broad.mit.edu	37	chr11	55339694	55339694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagtgtttgttatttttttgCgtctctacttgggaacactg	6	20	9	6	1	1	0	0	0	1	0	2	1	1	1	0	1	3	2	0	1	4	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:55339694C>T	uc010rih.1	+	1	91	c.91C>T	c.(91-93)CGT>TGT	p.R31C		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TATTTTTTTGCGTCTCTACTT	0.373													16	87					0	0	0.004007	0	0		T	55339694	T	T	55339694	3	4	209	1	0	0	0	0	1	0	0	0	11068	768	27	1	93	1	OR4C16	11	55339694	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5336367	55339694	79666822	690	101105											
OR8I2	120586	broad.mit.edu	37	chr11	55860792	55860792	+	Silent	SNP	C	T	T	0	0	0	1	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	gagttgatgtaaatggctggCaacaatttcactgaggttac	12	12	11	6	0	1	2	1	2	0	0	1	3	1	2	0	3	2	5	0	3	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:55860792C>T	uc010rix.1	+	1	9	c.9C>T	c.(7-9)GGC>GGT	p.G3G		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	3	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					AAATGGCTGGCAACAATTTCA	0.368													7	88					0	0	0.00308	0	0		T	55860792	T	T	55860792	2	4	209	1	0	0	0	0	0	0	0	1	11259	697	25	2		2	OR8I2	11	55860792	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	521098	55860792	79145724	691	101106											
OR8J1	219477	broad.mit.edu	37	chr11	56128400	56128400	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatattgttttgtctattttAaaaatatgttcatcagaagg	14	18	6	3	0	3	1	2	0	1	1	3	1	3	1	0	1	0	2	0	1	8	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:56128400A>G	uc010rjh.1	+	1	678	c.678A>G	c.(676-678)TTA>TTG	p.L226L		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	226	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TGTCTATTTTAAAAATATGTT	0.323													12	47					0	0	0.001855	0	0		G	56128400	G	G	56128400	2	3	209	1	0	0	0	0	0	0	0	1	11260	359	13	3		3	OR8J1	11	56128400	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	267608	56128400	78878116	692	101107											
OR5AR1	219493	broad.mit.edu	37	chr11	56431207	56431207	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgactgagtttatcttcatgGgcatcacccaggaccctcag	9	11	9	12	0	4	2	3	2	1	0	4	3	4	3	2	2	0	2	2	2	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:56431207G>T	uc010rjm.1	+	1	46	c.46G>T	c.(46-48)GGC>TGC	p.G16C		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TATCTTCATGGGCATCACCCA	0.373													32	144					6.53348e-20	7.42232e-20	0.003755	1	0		T	56431207	T	T	56431207	3	4	209	1	0	0	0	0	1	0	0	0	11164	1232	43	5	48	5	OR5AR1	11	56431207	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	302807	56431207	78575309	693	101108											
OR5AR1	219493	broad.mit.edu	37	chr11	56431861	56431861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgcgttcagctgaaggcCgccttaaggctttctccacc	8	10	10	13	2	2	1	1	1	1	0	3	2	2	1	4	2	2	3	4	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:56431861C>T	uc010rjm.1	+	1	700	c.700C>T	c.(700-702)CGC>TGC	p.R234C		NM_001004730	NP_001004730	Q8NGP9	O5AR1_HUMAN	olfactory receptor, family 5, subfamily AR,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCTGAAGGCCGCCTTAAGGC	0.483													21	88					0	0	0.008871	0	0		T	56431861	T	T	56431861	3	4	209	1	0	0	0	0	1	0	0	0	11164	652	23	1	702	1	OR5AR1	11	56431861	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	654	56431861	78574655	694	101109											
P2RX3	5024	broad.mit.edu	37	chr11	57135559	57135559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttggcatccgcttcgacGtgctggtatacgggaatgtg	6	13	13	9	4	0	0	0	0	0	0	2	2	1	1	1	3	2	4	1	3	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:57135559G>A	uc001nju.2	+	9	995	c.919G>A	c.(919-921)GTG>ATG	p.V307M		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	307	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CCGCTTCGACGTGCTGGTATA	0.572													19	46					0	0	0.014323	0	0		A	57135559	A	A	57135559	3	1	209	1	0	0	0	0	1	0	0	0	11360	1145	40	1	953	1	P2RX3	11	57135559	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	703698	57135559	77870957	695	101110											
RTN4RL2	349667	broad.mit.edu	37	chr11	57243698	57243698	+	Silent	SNP	C	T	T	0	0	0	1	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	tccacgggaaccgcctgcggCtgctcacagagcacgtgttt	7	8	12	14	4	1	1	1	0	0	1	2	2	2	2	3	2	4	4	3	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:57243698C>T	uc010rjt.1	+	3	577	c.577C>T	c.(577-579)CTG>TTG	p.L193L		NM_178570	NP_848665	Q86UN3	R4RL2_HUMAN	reticulon 4 receptor-like 2 precursor	193	LRR 6.				axon regeneration	anchored to plasma membrane	receptor activity				0						CCGCCTGCGGCTGCTCACAGA	0.682													11	98					0	0	0.008291	0	0		T	57243698	T	T	57243698	2	4	209	1	0	0	0	0	0	0	0	1	13757	796	28	2		2	RTN4RL2	11	57243698	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	108139	57243698	77762818	696	101111											
OR5B21	219968	broad.mit.edu	37	chr11	58275342	58275342	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgaccgcaatgcagccacCgttttgggggctacagctga	8	8	12	13	2	0	2	0	2	0	0	0	2	0	2	4	2	4	5	4	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:58275342C>T	uc010rki.1	-	1	237	c.237G>A	c.(235-237)ACG>ACA	p.T79T		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	79	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.T79M(1)		ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ATGCAGCCACCGTTTTGGGGG	0.517													8	37					0	0	0.004482	0	0		T	58275342	T	T	58275342	2	4	209	1	0	0	0	0	0	0	0	1	11170	639	23	1		1	OR5B21	11	58275342	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1031644	58275342	76731174	697	101112											
TMEM109	79073	broad.mit.edu	37	chr11	60689494	60689494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccttgctgatcctctacGccctgctgagccggctcact	4	11	10	16	2	2	2	1	2	1	0	3	2	3	2	4	2	4	3	4	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:60689494G>A	uc001nqg.2	+	4	967	c.589G>A	c.(589-591)GCC>ACC	p.A197T	TMEM109_uc001nqh.2_Missense_Mutation_p.A197T|TMEM132A_uc001nqi.2_5'Flank|TMEM132A_uc001nqj.2_5'Flank	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	197	Helical; (Potential).					integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						GATCCTCTACGCCCTGCTGAG	0.677													12	55					0	0	0.00499	0	0		A	60689494	A	A	60689494	3	1	209	1	0	0	0	0	1	0	0	0	16050	1087	38	1	599	1	TMEM109	11	60689494	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2414152	60689494	74317022	698	101113											
DAGLA	747	broad.mit.edu	37	chr11	61498870	61498870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtggcccatgtacctgatgCggaagcccgcctgcggcctc	5	7	14	15	3	0	1	0	1	0	0	1	2	0	2	5	4	4	1	5	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:61498870C>T	uc001nsa.2	+	9	1042	c.931C>T	c.(931-933)CGG>TGG	p.R311W		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	311	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		GTACCTGATGCGGAAGCCCGC	0.617													7	147					0	0	0.00308	0	0		T	61498870	T	T	61498870	3	4	209	1	0	0	0	0	1	0	0	0	4229	759	27	1	961	1	DAGLA	11	61498870	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	809376	61498870	73507646	699	101114											
INCENP	3619	broad.mit.edu	37	chr11	61916012	61916012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agctgcagagggaactggagGagaagaagaagaaggtgagg	16	3	19	3	0	0	6	0	1	0	5	0	9	0	8	0	5	3	2	0	5	5	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:61916012G>A	uc001nsw.1	+	16	2471	c.2269G>A	c.(2269-2271)GAG>AAG	p.E757K	INCENP_uc009ynw.1_Missense_Mutation_p.E761K|INCENP_uc001nsx.1_Missense_Mutation_p.E753K|INCENP_uc001nsy.1_Missense_Mutation_p.E171K	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa	757	Potential.				chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						GGAACTGGAGGAGAAGAAGAA	0.637													3	19					0	0	0.009096	0	0		A	61916012	A	A	61916012	3	1	209	1	0	0	0	0	1	0	0	0	7749	1175	41	4	2327	4	INCENP	11	61916012	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	417142	61916012	73090504	700	101115											
AHNAK	79026	broad.mit.edu	37	chr11	62290571	62290571	+	Missense_Mutation	SNP	T	C	C	0	1	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	caacttcaggacccttgaggTcaccttccattttgggcaga	9	11	9	12	0	2	2	2	1	0	1	3	3	3	3	3	3	1	1	3	3	1	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:62290571T>C	uc001ntl.2	-	5	11618	c.11318A>G	c.(11317-11319)GAC>GGC	p.D3773G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3773					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				ACCCTTGAGGTCACCTTCCAT	0.498													20	202					0	0	0.012319	0	0		C	62290571	C	C	62290571	3	2	209	1	0	0	0	0	1	0	0	0	414	1667	58	3	6474	3	AHNAK	11	62290571	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	374559	62290571	72715945	701	101116											
AHNAK	79026	broad.mit.edu	37	chr11	62290971	62290971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attcacgtctggaacatcaaCgtctacattgggaccagaaa	14	9	8	10	2	4	1	2	0	2	1	4	3	4	3	1	2	3	0	1	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:62290971C>T	uc001ntl.2	-	5	11218	c.10918G>A	c.(10918-10920)GTT>ATT	p.V3640I	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3640					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GGAACATCAACGTCTACATTG	0.483													14	254					0	0	0.001855	0	0		T	62290971	T	T	62290971	3	4	209	1	0	0	0	0	1	0	0	0	414	536	19	1	6874	1	AHNAK	11	62290971	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	400	62290971	72715545	702	101117											
EEF1G	1937	broad.mit.edu	37	chr11	62327804	62327804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgagttcttcagggaagCgatactctgagtaccacagg	11	9	13	8	1	3	2	1	2	2	0	3	5	3	3	1	2	3	2	1	2	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:62327804C>T	uc001ntm.1	-	8	1126	c.980G>A	c.(979-981)CGC>CAC	p.R327H	EEF1G_uc010rlw.1_Missense_Mutation_p.R377H|EEF1G_uc001ntn.1_Missense_Mutation_p.R207H	NM_001404	NP_001395	P26641	EF1G_HUMAN	eukaryotic translation elongation factor 1	327	EF-1-gamma C-terminal.				response to virus	cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						TTCAGGGAAGCGATACTCTGA	0.502													8	14					0	0	0.00308	0	0		T	62327804	T	T	62327804	3	4	209	1	0	0	0	0	1	0	0	0	4934	768	27	1	345	1	EEF1G	11	62327804	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	36833	62327804	72678712	703	101118											
ROM1	6094	broad.mit.edu	37	chr11	62381147	62381147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcctgggagtctggatgagGcgctggaggagggcctggtg	5	8	21	7	1	1	1	0	1	1	0	1	5	1	5	2	7	1	1	2	7	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:62381147G>A	uc001ntv.2	+	1	935	c.394G>A	c.(394-396)GCG>ACG	p.A132T	EML3_uc001ntr.1_5'Flank|EML3_uc001nts.1_5'Flank|EML3_uc001ntt.1_5'Flank|EML3_uc001ntu.1_5'Flank|EML3_uc010rly.1_5'Flank|EML3_uc009yny.1_5'Flank	NM_000327	NP_000318	Q03395	ROM1_HUMAN	retinal outer segment membrane protein 1	132	Lumenal (Potential).				cell adhesion|visual perception	integral to plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3						TCTGGATGAGGCGCTGGAGGA	0.672													13	47					0	0	0.013537	0	0		A	62381147	A	A	62381147	3	1	209	1	0	0	0	0	1	0	0	0	13546	1203	42	2	396	2	ROM1	11	62381147	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	53343	62381147	72625369	704	101119											
PYGM	5837	broad.mit.edu	37	chr11	64522266	64522266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggagggtggcagccaccaCgaaatactcctgcttcagcc	9	7	11	14	1	1	0	1	0	0	0	2	2	2	1	4	3	4	2	4	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:64522266C>T	uc001oax.3	-	8	1715	c.898G>A	c.(898-900)GTG>ATG	p.V300M	PYGM_uc001oay.3_Missense_Mutation_p.V212M	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	300					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	GCAGCCACCACGAAATACTCC	0.597													11	27					0	0	0.013537	0	0		T	64522266	T	T	64522266	3	4	209	1	0	0	0	0	1	0	0	0	12887	536	19	1	1682	1	PYGM	11	64522266	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2141119	64522266	70484250	705	101120											
SPDYC	387778	broad.mit.edu	37	chr11	64940678	64940678	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaaagcctccggcacgccCtgggcactgaagctctgcag	8	5	11	17	2	1	1	0	1	1	0	2	1	2	1	4	2	3	4	4	2	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:64940678C>A	uc010rnz.1	+	7	872	c.872C>A	c.(871-873)CCT>CAT	p.P291H		NM_001008778	NP_001008778	Q5MJ68	SPDYC_HUMAN	speedy C	291					cell cycle	nucleus	protein kinase binding				0						CCGGCACGCCCTGGGCACTGA	0.637													9	61					6.40141e-05	6.75472e-05	0.010729	1	0		A	64940678	A	A	64940678	3	1	209	1	0	0	0	0	1	0	0	0	15053	681	24	5	898	5	SPDYC	11	64940678	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	418412	64940678	70065838	706	101121											
TIGD3	220359	broad.mit.edu	37	chr11	65124594	65124594	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgatgccctccgggccctgGgcaccttgaggaggtggttt	4	10	15	12	1	0	2	0	2	0	0	1	3	1	3	4	5	1	2	4	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:65124594G>T	uc001odo.3	+	2	1478	c.1315G>T	c.(1315-1317)GGC>TGC	p.G439C		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	439					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						CCGGGCCCTGGGCACCTTGAG	0.557													8	82					0.00307968	0.0031736	0.00308	1	0		T	65124594	T	T	65124594	3	4	209	1	0	0	0	0	1	0	0	0	15922	1232	43	5	1317	5	TIGD3	11	65124594	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	183916	65124594	69881922	707	101122											
DKFZp761E198	91056	broad.mit.edu	37	chr11	65547054	65547054	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggcttgaagagtgccggtgGctgtccctgcagaccccgca	6	7	14	14	3	0	3	0	1	0	2	1	3	1	3	4	3	2	4	4	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:65547054G>A	uc001ofo.3	-	1	769	c.739C>T	c.(739-741)CCA>TCA	p.P247S		NM_138368	NP_612377	Q2VPB7	YK046_HUMAN	hypothetical protein LOC91056	247	Leu-rich.						protein binding				0				READ - Rectum adenocarcinoma(159;0.167)		AGTGCCGGTGGCTGTCCCTGC	0.652													4	15					0	0	0.009096	0	0		A	65547054	A	A	65547054	3	1	209	1	0	0	0	0	1	0	0	0	4549	1203	42	2	1730	2	DKFZp761E198	11	65547054	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	422460	65547054	69459462	708	101123											
SF3B2	10992	broad.mit.edu	37	chr11	65826406	65826406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaagactcaacccggtccCgtggctctgattccccagca	10	7	9	15	2	2	3	1	1	1	2	4	3	4	3	4	2	2	2	4	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:65826406C>T	uc001ogy.1	+	10	1112	c.1072C>T	c.(1072-1074)CGT>TGT	p.R358C		NM_006842	NP_006833	Q13435	SF3B2_HUMAN	splicing factor 3B subunit 2	358					interspecies interaction between organisms	catalytic step 2 spliceosome|nucleoplasm|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(2)|breast(1)	3						AACCCGGTCCCGTGGCTCTGA	0.517													12	70					0	0	0.010729	0	0		T	65826406	T	T	65826406	3	4	209	1	0	0	0	0	1	0	0	0	14176	652	23	1	1110	1	SF3B2	11	65826406	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	279352	65826406	69180110	709	101124											
CD248	57124	broad.mit.edu	37	chr11	66082358	66082358	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttgttgggtgcatgggggCcacagcgggtgcagtacacg	6	8	18	9	2	0	0	0	0	0	0	0	0	0	0	1	4	4	5	1	4	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:66082358C>G	uc001ohm.1	-	1	2158	c.2141G>C	c.(2140-2142)GGC>GCC	p.G714A		NM_020404	NP_065137	Q9HCU0	CD248_HUMAN	tumor endothelial marker 1 precursor	714	Cytoplasmic (Potential).					integral to membrane|proteinaceous extracellular matrix	calcium ion binding|sugar binding			large_intestine(3)	3					Cefalotin(DB00456)	TGCATGGGGGCCACAGCGGGT	0.622													3	12					0	0	0.004672	0	0		G	66082358	G	G	66082358	3	3	209	1	0	0	0	0	1	0	0	0	2992	739	26	5	136	5	CD248	11	66082358	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	255952	66082358	68924158	710	101125											
RBM4	5936	broad.mit.edu	37	chr11	66410970	66410970	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccggcttaggactgcgccCgggatgggagaccagagcgg	8	4	18	11	4	0	2	0	0	0	2	0	5	0	4	3	5	3	1	3	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:66410970C>T	uc009yrj.2	+	3	950	c.462C>T	c.(460-462)CCC>CCT	p.P154P	RBM4_uc009yrk.2_Silent_p.P129P|RBM4_uc001oiw.1_Silent_p.P154P|RBM4_uc001oix.1_Intron|RBM4_uc010rpj.1_Intron|RBM4_uc001oiy.1_Silent_p.P154P|RBM4_uc001oiz.1_Silent_p.P154P	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	154					circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		GGACTGCGCCCGGGATGGGAG	0.582													10	65					0	0	0.008291	0	0		T	66410970	T	T	66410970	2	4	209	1	0	0	0	0	0	0	0	1	13159	639	23	1		1	RBM4	11	66410970	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	328612	66410970	68595546	711	101126											
ANKRD13D	338692	broad.mit.edu	37	chr11	67059639	67059639	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacctggacactcgtaatgTggcctttgagaggtcggtcg	7	10	13	11	3	0	1	0	1	0	1	3	3	0	2	3	4	0	1	3	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:67059639T>C	uc001okc.1	+	7	969	c.458T>C	c.(457-459)GTG>GCG	p.V153A	ANKRD13D_uc001okd.1_Missense_Mutation_p.V240A|ANKRD13D_uc001oke.1_Missense_Mutation_p.V153A	NM_207354	NP_997237	Q6ZTN6	AN13D_HUMAN	ankyrin repeat domain 13 family, member D	153										ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			ACTCGTAATGTGGCCTTTGAG	0.622													15	67					0	0	0.003163	0	0		C	67059639	C	C	67059639	3	2	209	1	0	0	0	0	1	0	0	0	644	1696	59	3	741	3	ANKRD13D	11	67059639	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	648669	67059639	67946877	712	101127											
IGHMBP2	3508	broad.mit.edu	37	chr11	68675625	68675625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttgcaggtgatatcgtggGcctgtacgatgctgctaatg	7	14	13	7	2	0	1	0	1	0	0	1	2	0	1	1	2	4	4	1	2	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:68675625G>A	uc001ook.1	+	3	371	c.269G>A	c.(268-270)GGC>GAC	p.G90D	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	90					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			GATATCGTGGGCCTGTACGAT	0.473													19	171					0	0	0.010504	0	0		A	68675625	A	A	68675625	3	1	209	1	0	0	0	0	1	0	0	0	7607	1203	42	2	279	2	IGHMBP2	11	68675625	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1615986	68675625	66330891	713	101128											
IGHMBP2	3508	broad.mit.edu	37	chr11	68679004	68679004	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttgccatcatccatggacCtcctggcactgggaaaacca	11	8	8	14	0	1	0	1	0	0	0	3	2	3	2	5	3	2	1	5	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:68679004C>A	uc001ook.1	+	5	746	c.644C>A	c.(643-645)CCT>CAT	p.P215H	IGHMBP2_uc001ooj.1_RNA	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	215	ATP (By similarity).				cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			ATCCATGGACCTCCTGGCACT	0.512													7	69					0.00198382	0.00204868	0.001984	1	0		A	68679004	A	A	68679004	3	1	209	1	0	0	0	0	1	0	0	0	7607	681	24	5	662	5	IGHMBP2	11	68679004	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3379	68679004	66327512	714	101129											
TPCN2	219931	broad.mit.edu	37	chr11	68854605	68854605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcacaagtgggacccccGcagccacctgcagccccttg	7	6	9	19	1	1	0	1	0	0	0	1	1	1	1	7	1	3	2	7	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:68854605G>A	uc001oos.2	+	24	2227	c.2111G>A	c.(2110-2112)CGC>CAC	p.R704H	TPCN2_uc010rqg.1_Missense_Mutation_p.R522H|TPCN2_uc001oot.2_RNA	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	704	Cytoplasmic (Potential).				cellular calcium ion homeostasis|smooth muscle contraction	endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated calcium channel activity				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TGGGACCCCCGCAGCCACCTG	0.642													5	47					0	0	0.001168	0	0		A	68854605	A	A	68854605	3	1	209	1	0	0	0	0	1	0	0	0	16422	1087	38	1	2205	1	TPCN2	11	68854605	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	175601	68854605	66151911	715	101130											
ANO1	55107	broad.mit.edu	37	chr11	70007369	70007369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctccgtgcggtccaacatcCgggtcacagtcacagccacc	8	6	9	18	3	2	0	2	0	0	0	5	0	5	0	6	2	3	0	6	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:70007369C>T	uc001opj.2	+	17	1986	c.1681C>T	c.(1681-1683)CGG>TGG	p.R561W	ANO1_uc001opk.1_Missense_Mutation_p.R503W|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.R270W	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	561	Extracellular (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						GTCCAACATCCGGGTCACAGT	0.587													8	75					0	0	0.006214	0	0		T	70007369	T	T	70007369	3	4	209	1	0	0	0	0	1	0	0	0	695	643	23	1	1747	1	ANO1	11	70007369	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1152764	70007369	64999147	716	101131											
SHANK2	22941	broad.mit.edu	37	chr11	70319246	70319246	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggatggcgacctactgcGtcccgctgggttcaagccaa	7	7	15	12	3	1	0	1	0	0	0	2	2	2	1	3	4	3	2	3	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:70319246G>A	uc001oqc.2	-	22	5356	c.5278C>T	c.(5278-5280)CGC>TGC	p.R1760C	SHANK2_uc010rqn.1_Missense_Mutation_p.R1172C|SHANK2_uc001opz.2_Missense_Mutation_p.R1165C|uc009ysn.1_Missense_Mutation_p.R49H|SHANK2_uc001opy.2_Missense_Mutation_p.R96C	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1381					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			GACCTACTGCGTCCCGCTGGG	0.547													24	89					0	0	0.00333	0	0		A	70319246	A	A	70319246	3	1	209	1	0	0	0	0	1	0	0	0	14290	1145	40	1	275	1	SHANK2	11	70319246	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	311877	70319246	64687270	717	101132											
KRTAP5-8	57830	broad.mit.edu	37	chr11	71249434	71249434	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccagtccagctgctgcaaAccctgctgttcccagtccag	7	9	9	16	0	0	0	0	0	0	0	3	0	3	0	5	0	6	5	5	0	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:71249434A>G	uc001oqr.1	+	1	364	c.333A>G	c.(331-333)AAA>AAG	p.K111K		NM_021046	NP_066384	O75690	KRA58_HUMAN	keratin associated protein 5-8	111	9 X 4 AA repeats of C-C-X-P.|4.					extracellular region|keratin filament	structural constituent of epidermis				0						GCTGCTGCAAACCCTGCTGTT	0.607													17	238					0	0	0.007413	0	0		G	71249434	G	G	71249434	2	3	209	1	0	0	0	0	0	0	0	1	8583	40	2	3		3	KRTAP5-8	11	71249434	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	930188	71249434	63757082	718	101133											
ARHGEF17	9828	broad.mit.edu	37	chr11	73068356	73068356	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tggaagctgccgctggaagaCgcagacatcatcaaaggtgg	12	6	14	9	2	2	2	2	0	0	2	2	4	2	4	1	4	2	3	1	4	3	0	rs144162252		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:73068356C>T	uc001otu.2	+	9	4092	c.4071C>T	c.(4069-4071)GAC>GAT	p.D1357D		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1357					actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity				0						CGCTGGAAGACGCAGACATCA	0.592													4	18					0	0	0.000602	0	0		T	73068356	T	T	73068356	2	4	209	1	0	0	0	0	0	0	0	1	900	535	19	1		1	ARHGEF17	11	73068356	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1818922	73068356	61938160	719	101134											
SYTL2	54843	broad.mit.edu	37	chr11	85445200	85445200	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggttgattgatgaaaaagcGaaggctttctgtattgagaa	14	12	12	3	1	1	4	0	4	1	1	1	6	1	4	0	2	1	3	0	2	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:85445200G>A	uc010rth.1	-	6	1445	c.1169C>T	c.(1168-1170)TCG>TTG	p.S390L	SYTL2_uc010rtg.1_Missense_Mutation_p.S391L|SYTL2_uc010rti.1_Missense_Mutation_p.S390L|SYTL2_uc010rtj.1_Missense_Mutation_p.S342L|SYTL2_uc001pbf.3_Missense_Mutation_p.S390L|SYTL2_uc010rtf.1_Missense_Mutation_p.S248L	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	390					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		ATGAAAAAGCGAAGGCTTTCT	0.398													17	105					0	0	0.006122	0	0		A	85445200	A	A	85445200	3	1	209	1	0	0	0	0	1	0	0	0	15508	1059	37	1	4168	1	SYTL2	11	85445200	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	12376844	85445200	49561316	720	101135											
GRM5	2915	broad.mit.edu	37	chr11	88386441	88386441	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagggtttcggtggtttgTttctggccggagcttcagat	5	14	14	8	2	2	1	1	0	1	1	3	2	2	2	2	5	1	4	2	5	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:88386441T>G	uc001pcq.2	-	3	1242	c.1042A>C	c.(1042-1044)ACA>CCA	p.T348P	GRM5_uc009yvm.2_Missense_Mutation_p.T348P	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	348	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	CGGTGGTTTGTTTCTGGCCGG	0.458													11	69					0	0	0.008291	0	0		G	88386441	G	G	88386441	3	3	209	1	0	0	0	0	1	0	0	0	6816	1725	60	5	2624	5	GRM5	11	88386441	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2941241	88386441	46620075	721	101136											
MAML2	84441	broad.mit.edu	37	chr11	95712334	95712334	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggtgaaggaaaattgctgggCgtcagggatggtggctggtt	8	10	19	4	1	1	1	1	1	0	0	1	3	1	3	0	7	1	3	0	7	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:95712334C>T	uc001pfw.1	-	5	4534	c.3249G>A	c.(3247-3249)ACG>ACA	p.T1083T		NM_032427	NP_115803	Q8IZL2	MAML2_HUMAN	mastermind-like 2	1083					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity		CRTC1/MAML2(516)|CRTC3/MAML2(26)	salivary_gland(500)|lung(36)|thyroid(4)|breast(3)|skin(2)|ovary(1)	546		Acute lymphoblastic leukemia(157;2.63e-05)|all_hematologic(158;0.00837)				AATTGCTGGGCGTCAGGGATG	0.478			T	MECT1|CRTC3	salivary gland mucoepidermoid								9	59					0	0	0.004482	0	0		T	95712334	T	T	95712334	2	4	209	1	0	0	0	0	0	0	0	1	9224	755	27	1		1	MAML2	11	95712334	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7325893	95712334	39294182	722	101137											
CNTN5	53942	broad.mit.edu	37	chr11	99827584	99827584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttcccttcctttgtggcGgaagacagccggcggttcat	6	11	13	11	3	1	1	1	0	0	1	3	3	3	2	3	4	1	2	3	4	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:99827584G>A	uc001pga.2	+	8	1059	c.720G>A	c.(718-720)GCG>GCA	p.A240A	CNTN5_uc009ywv.1_Silent_p.A240A|CNTN5_uc001pfz.2_Silent_p.A240A|CNTN5_uc001pgb.2_Silent_p.A166A	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	240	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CCTTTGTGGCGGAAGACAGCC	0.393													16	61					0	0	0.008871	0	0		A	99827584	A	A	99827584	2	1	209	1	0	0	0	0	0	0	0	1	3647	1103	39	1		1	CNTN5	11	99827584	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4115250	99827584	35178932	723	101138											
CUL5	8065	broad.mit.edu	37	chr11	107920713	107920713	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatattttaccaaaacctTtttgtcaactagagattact	13	16	5	7	0	1	2	1	1	0	1	1	3	1	2	2	0	4	0	2	0	7	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:107920713T>C	uc001pjv.2	+	4	998	c.331T>C	c.(331-333)TTT>CTT	p.F111L	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	111					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		ACCAAAACCTTTTTGTCAACT	0.348													12	81					0	0	0.010729	0	0		C	107920713	C	C	107920713	3	2	209	1	0	0	0	0	1	0	0	0	4062	1841	64	3	345	3	CUL5	11	107920713	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	8093129	107920713	27085803	724	101139											
ACAT1	38	broad.mit.edu	37	chr11	108017007	108017007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttagtctggttgtactaGcaaacattaaaatgttggag	12	14	9	6	0	1	0	0	0	1	0	1	1	1	1	1	2	3	4	1	2	6	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:108017007G>A	uc001pjy.2	+	11	1160	c.1084G>A	c.(1084-1086)GCA>ACA	p.A362T		NM_000019	NP_000010	P24752	THIL_HUMAN	acetyl-Coenzyme A acetyltransferase 1 precursor	362					acetoacetic acid biosynthetic process|branched chain family amino acid catabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	acetyl-CoA C-acetyltransferase activity|metal ion binding			ovary(3)	3		all_cancers(61;6.41e-10)|all_epithelial(67;2.83e-06)|Melanoma(852;1.46e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;2.96e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.00108)|OV - Ovarian serous cystadenocarcinoma(223;0.192)	Sulfasalazine(DB00795)	GGTTGTACTAGCAAACATTAA	0.333													14	115					0	0	0.003163	0	0		A	108017007	A	A	108017007	3	1	209	1	0	0	0	0	1	0	0	0	121	971	34	2	1126	2	ACAT1	11	108017007	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	96294	108017007	26989509	725	101140											
ZC3H12C	85463	broad.mit.edu	37	chr11	110035243	110035243	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtagcaccaaggctgataGcacttctgatgtcaaacgag	12	10	10	9	1	2	2	1	2	1	0	2	3	2	2	1	1	3	4	1	1	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:110035243G>T	uc009yxw.2	+	6	1484	c.1433G>T	c.(1432-1434)AGC>ATC	p.S478I	ZC3H12C_uc010rwc.1_Missense_Mutation_p.S479I|ZC3H12C_uc010rwd.1_Missense_Mutation_p.S479I|ZC3H12C_uc001pkr.3_Missense_Mutation_p.S447I	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	478							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		AAGGCTGATAGCACTTCTGAT	0.468													4	53					0.00024832	0.000261077	0.009096	1	0		T	110035243	T	T	110035243	3	4	209	1	0	0	0	0	1	0	0	0	17588	971	34	5	1455	5	ZC3H12C	11	110035243	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2018236	110035243	24971273	726	101141											
ANKK1	255239	broad.mit.edu	37	chr11	113268037	113268037	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggccaggaaggtgtcctgCaagctgtcgctgcgccagcc	6	7	14	14	2	0	0	0	0	0	0	2	1	1	1	4	3	4	3	4	3	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:113268037C>T	uc001pny.2	+	6	1024	c.930C>T	c.(928-930)TGC>TGT	p.C310C		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	310							ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		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)		AGGTGTCCTGCAAGCTGTCGC	0.592													8	36					0	0	0.010729	0	0		T	113268037	T	T	113268037	2	4	209	1	0	0	0	0	0	0	0	1	631	718	25	2		2	ANKK1	11	113268037	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3232794	113268037	21738479	727	101142											
ANKK1	255239	broad.mit.edu	37	chr11	113270600	113270600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcacctagctgcacgccacGgggaggaggcggtggtgtca	7	6	17	11	3	1	0	1	0	0	0	1	2	1	2	2	6	3	3	2	6	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:113270600G>A	uc001pny.2	+	8	2003	c.1909G>A	c.(1909-1911)GGG>AGG	p.G637R		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	637	ANK 9.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		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)		TGCACGCCACGGGGAGGAGGC	0.642													3	24					0	0	0.004672	0	0		A	113270600	A	A	113270600	3	1	209	1	0	0	0	0	1	0	0	0	631	1116	39	1	1939	1	ANKK1	11	113270600	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2563	113270600	21735916	728	101143											
VPS11	55823	broad.mit.edu	37	chr11	118941055	118941055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtaactggattggcctttcGccaagcaggaaagaccactc	11	9	10	11	1	0	1	0	0	0	1	2	3	0	3	3	3	2	2	3	3	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:118941055G>A	uc010ryx.1	+	5	626	c.584G>A	c.(583-585)CGC>CAC	p.R195H	VPS11_uc010ryy.1_Missense_Mutation_p.R41H	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	195					protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		TTGGCCTTTCGCCAAGCAGGA	0.522													11	14					0	0	0.008291	0	0		A	118941055	A	A	118941055	3	1	209	1	0	0	0	0	1	0	0	0	17214	1087	38	1	597	1	VPS11	11	118941055	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5670455	118941055	16065461	729	101144											
THY1	7070	broad.mit.edu	37	chr11	119291018	119291018	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aactgctggtattctcatggCggcagtccagacgaaggctc	9	9	12	11	2	1	1	1	0	1	1	4	2	2	1	1	4	2	4	1	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:119291018C>T	uc001pwq.2	-	2	150	c.116G>A	c.(115-117)CGC>CAC	p.R39H	uc001pwo.2_Intron|uc001pwp.1_Intron|THY1_uc001pwr.2_Missense_Mutation_p.R39H|THY1_uc001pws.2_RNA	NM_006288	NP_006279	P04216	THY1_HUMAN	Thy-1 cell surface antigen preproprotein	39	Ig-like V-type.				angiogenesis|cell-cell adhesion|cytoskeleton organization|focal adhesion assembly|negative regulation of axonogenesis|negative regulation of cell migration|negative regulation of protein kinase activity|negative regulation of T cell receptor signaling pathway|positive regulation of release of sequestered calcium ion into cytosol|positive regulation of T cell activation|retinal cone cell development|T cell receptor signaling pathway	endoplasmic reticulum|growth cone|integral to plasma membrane|membrane raft	GPI anchor binding|integrin binding|Rho GTPase activator activity				0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.83e-05)		ATTCTCATGGCGGCAGTCCAG	0.597													27	84					0	0	0.005443	0	0		T	119291018	T	T	119291018	3	4	209	1	0	0	0	0	1	0	0	0	15910	768	27	1	377	1	THY1	11	119291018	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	349963	119291018	15715498	730	101145											
TECTA	7007	broad.mit.edu	37	chr11	121016689	121016689	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaagttaaccccaccttcttCtataagaactgcctgtttga	12	13	5	11	0	2	2	0	1	2	1	2	2	2	2	4	0	3	2	4	0	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:121016689C>T	uc010rzo.1	+	11	3969	c.3969C>T	c.(3967-3969)TTC>TTT	p.F1323F		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1323					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CCACCTTCTTCTATAAGAACT	0.567													18	162					0	0	0.008871	0	0		T	121016689	T	T	121016689	2	4	209	1	0	0	0	0	0	0	0	1	15772	912	32	4		4	TECTA	11	121016689	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1725671	121016689	13989827	731	101146											
TECTA	7007	broad.mit.edu	37	chr11	121037313	121037313	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgacattatcgatgcagagGtgacctgcaaagcagcccaa	14	7	10	10	1	0	3	0	2	0	1	1	4	0	3	2	1	4	3	2	1	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:121037313G>T	uc010rzo.1	+	17	5410	c.5410G>T	c.(5410-5412)GTG>TTG	p.V1804L		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1804					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CGATGCAGAGGTGACCTGCAA	0.502													25	79					6.12954e-19	6.9363e-19	0.004656	1	0		T	121037313	T	T	121037313	3	4	209	1	0	0	0	0	1	0	0	0	15772	1261	44	5	5476	5	TECTA	11	121037313	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	20624	121037313	13969203	732	101147											
SORL1	6653	broad.mit.edu	37	chr11	121403215	121403215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacatggggagaccacggcGgaatcatcacggctattgcc	11	6	12	12	3	2	1	2	0	0	1	2	3	2	2	2	5	1	1	2	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:121403215G>A	uc001pxx.2	+	12	1719	c.1639G>A	c.(1639-1641)GGA>AGA	p.G547R		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	547	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		AGACCACGGCGGAATCATCAC	0.483													5	52					0	0	0.001984	0	0		A	121403215	A	A	121403215	3	1	209	1	0	0	0	0	1	0	0	0	14959	1117	39	1	1685	1	SORL1	11	121403215	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	365902	121403215	13603301	733	101148											
SORL1	6653	broad.mit.edu	37	chr11	121477994	121477994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaacactctatacaccGtcagagtgagtgtcgtcatc	10	11	9	11	2	4	2	3	1	1	1	6	2	4	2	1	1	2	0	1	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:121477994G>A	uc001pxx.2	+	37	5241	c.5161G>A	c.(5161-5163)GTC>ATC	p.V1721I	SORL1_uc010rzp.1_Missense_Mutation_p.V567I|SORL1_uc010rzq.1_Missense_Mutation_p.V336I	NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	1721	Extracellular (Potential).|Fibronectin type-III 2.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		TCTATACACCGTCAGAGTGAG	0.463													7	20					0	0	0.00308	0	0		A	121477994	A	A	121477994	3	1	209	1	0	0	0	0	1	0	0	0	14959	1145	40	1	5307	1	SORL1	11	121477994	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	74779	121477994	13528522	734	101149											
CDON	50937	broad.mit.edu	37	chr11	125873845	125873845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggttggccttcacctgctgCgcttcttgctaccatcaaga	7	12	9	13	1	3	1	2	0	1	1	3	1	3	1	3	2	4	4	3	2	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:125873845C>T	uc009zbw.2	-	10	2106	c.1978G>A	c.(1978-1980)GCA>ACA	p.A660T	CDON_uc001qdb.3_Missense_Mutation_p.A37T|CDON_uc001qdc.3_Missense_Mutation_p.A660T	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	660	Extracellular (Potential).|Fibronectin type-III 1.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		TCACCTGCTGCGCTTCTTGCT	0.512													5	63					0	0	0.000602	0	0		T	125873845	T	T	125873845	3	4	209	1	0	0	0	0	1	0	0	0	3173	768	27	1	1860	1	CDON	11	125873845	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4395851	125873845	9132671	735	101150											
SRPR	6734	broad.mit.edu	37	chr11	126135224	126135224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agaaggtgacgacataagggCgctggcgacgctgggcatcc	10	5	16	10	4	0	2	0	1	0	1	1	4	1	2	1	4	0	3	1	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:126135224C>T	uc001qdh.2	-	10	1301	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H	SRPR_uc010sbm.1_Missense_Mutation_p.R389H	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	417					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		GACATAAGGGCGCTGGCGACG	0.542													16	40					0	0	0.00499	0	0		T	126135224	T	T	126135224	3	4	209	1	0	0	0	0	1	0	0	0	15187	768	27	1	686	1	SRPR	11	126135224	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	261379	126135224	8871292	736	101151											
NTM	50863	broad.mit.edu	37	chr11	132180070	132180070	+	Silent	SNP	G	A	A	0	0	1	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	ggacaaaaggggacactgcaGtgtgaagcctcagcagtccc	12	5	13	11	0	1	1	1	1	0	0	2	3	2	3	2	3	3	2	2	3	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr11:132180070G>A	uc001qgp.2	+	5	1390	c.726G>A	c.(724-726)CAG>CAA	p.Q242Q	NTM_uc001qgm.2_Silent_p.Q242Q|NTM_uc010sch.1_Silent_p.Q233Q|NTM_uc010sci.1_Silent_p.Q242Q|NTM_uc010scj.1_Silent_p.Q201Q|NTM_uc001qgo.2_Silent_p.Q242Q|NTM_uc001qgq.2_Silent_p.Q242Q|NTM_uc001qgr.2_Translation_Start_Site	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	242	Ig-like C2-type 3.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GGACACTGCAGTGTGAAGCCT	0.527													49	146					0	0	0.01441	0	0		A	132180070	A	A	132180070	2	1	209	1	0	0	0	0	0	0	0	1	10718	1020	36	4		4	NTM	11	132180070	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6044846	132180070	2826446	737	101152											
C12orf4	57102	broad.mit.edu	37	chr12	4627343	4627343	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaagtttcacaccacttcgaTgatttcttttatgcttacag	10	16	6	9	1	2	1	1	1	1	0	3	3	2	1	1	0	2	2	1	0	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:4627343T>C	uc001qms.2	-	8	1002	c.914A>G	c.(913-915)CAT>CGT	p.H305R	C12orf4_uc001qmt.2_Missense_Mutation_p.H305R	NM_020374	NP_065107	Q9NQ89	CL004_HUMAN	hypothetical protein LOC57102	305											0			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)	BRCA - Breast invasive adenocarcinoma(232;0.0281)		ACCACTTCGATGATTTCTTTT	0.423													9	99					0	0	0.004482	0	0		C	4627343	C	C	4627343	3	2	209	1	0	0	0	0	1	0	0	0	1688	1464	51	3	772	3	C12orf4	12	4627343	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08		4627343	129224552	738	101153											
GALNT8	26290	broad.mit.edu	37	chr12	4855350	4855350	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggctgctaacaggcacTtcctgggagagatcgggtct	7	10	13	11	1	1	1	0	0	1	1	4	3	3	2	2	4	2	3	2	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:4855350T>C	uc001qne.1	+	6	1191	c.1099T>C	c.(1099-1101)TTC>CTC	p.F367L		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	367	Lumenal (Potential).|Catalytic subdomain B.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(1)|skin(1)	4						TAACAGGCACTTCCTGGGAGA	0.532													18	80					0	0	0.007413	0	0		C	4855350	C	C	4855350	3	2	209	1	0	0	0	0	1	0	0	0	6234	1609	56	3	1121	3	GALNT8	12	4855350	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	228007	4855350	128996545	739	101154											
KCNA5	3741	broad.mit.edu	37	chr12	5154557	5154557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcatcttcaagctctcccGccactccaaggggctgcaga	8	7	9	17	2	3	1	1	0	2	1	5	1	4	1	4	2	2	4	4	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:5154557G>A	uc001qni.2	+	1	1473	c.1244G>A	c.(1243-1245)CGC>CAC	p.R415H		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	415	Helical; Voltage-sensor; Name=Segment S4; (Potential).					Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						AAGCTCTCCCGCCACTCCAAG	0.637													3	27					0	0	0.004672	0	0		A	5154557	A	A	5154557	3	1	209	1	0	0	0	0	1	0	0	0	8022	1087	38	1	1246	1	KCNA5	12	5154557	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	299207	5154557	128697338	740	101155											
VWF	7450	broad.mit.edu	37	chr12	6167034	6167034	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatgcgcgggttgagggcGcagggatcgctgtgctgctt	4	10	17	10	4	1	1	1	1	0	0	2	2	1	2	0	3	3	5	0	3	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:6167034G>A	uc001qnn.1	-	14	1960	c.1710C>T	c.(1708-1710)TGC>TGT	p.C570C	VWF_uc010set.1_Silent_p.C570C	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	570	VWFD 2.				blood coagulation, intrinsic pathway|cell-substrate adhesion|platelet activation|platelet degranulation|protein homooligomerization	endoplasmic reticulum|platelet alpha granule lumen|proteinaceous extracellular matrix|Weibel-Palade body	chaperone binding|collagen binding|glycoprotein binding|immunoglobulin binding|integrin binding|protease binding|protein homodimerization activity|protein N-terminus binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)	12					Antihemophilic Factor(DB00025)	GGTTGAGGGCGCAGGGATCGC	0.662													7	139					0	0	0.004482	0	0		A	6167034	A	A	6167034	2	1	209	1	0	0	0	0	0	0	0	1	17272	1079	38	1		1	VWF	12	6167034	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1012477	6167034	127684861	741	101156											
GPR162	27239	broad.mit.edu	37	chr12	6936019	6936019	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggacgaggaagaggctgaaGgtggggggctggccagcctt	9	5	20	7	1	0	2	0	1	0	1	0	5	0	4	2	8	1	2	2	8	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:6936019G>T	uc001qqw.1	+	5	1952	c.1417G>T	c.(1417-1419)GGT>TGT	p.G473C	LEPREL2_uc001qqz.1_5'Flank|LEPREL2_uc001qra.1_5'Flank|LEPREL2_uc001qrb.1_5'Flank|GPR162_uc001qqx.1_Missense_Mutation_p.G189C|GPR162_uc009zfd.1_Missense_Mutation_p.G169C|GPR162_uc001qqy.1_Intron	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	473	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						AGAGGCTGAAGGTGGGGGGCT	0.667													25	82					2.41591e-17	2.72964e-17	0.004656	1	0		T	6936019	T	T	6936019	3	4	209	1	0	0	0	0	1	0	0	0	6681	1000	35	5	1450	5	GPR162	12	6936019	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	768985	6936019	126915876	742	101157											
TPI1	7167	broad.mit.edu	37	chr12	6979535	6979535	+	Silent	SNP	T	C	C	0	1	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	gaattcgtggacatcatcaaTgccaaacaatgagccccatc	14	8	7	12	1	2	1	2	1	0	0	4	3	2	2	3	1	3	0	3	1	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:6979535T>C	uc001qrk.2	+	7	776	c.738T>C	c.(736-738)AAT>AAC	p.N246N	TPI1_uc010sfo.1_Silent_p.N164N	NM_000365	NP_000356	P60174	TPIS_HUMAN	triosephosphate isomerase 1 isoform 1	246					fatty acid biosynthetic process|gluconeogenesis|glycolysis|pentose-phosphate shunt	cytosol	triose-phosphate isomerase activity				0						ACATCATCAATGCCAAACAAT	0.567											OREG0021638	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	50					0	0	0.000602	0	0		C	6979535	C	C	6979535	2	2	209	1	0	0	0	0	0	0	0	1	16429	1461	51	3		3	TPI1	12	6979535	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	43516	6979535	126872360	743	101158											
CD163L1	283316	broad.mit.edu	37	chr12	7548698	7548698	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgggtatcttaccagaacaGatcactccaacatcttcact	12	12	5	12	0	4	2	2	0	2	2	5	2	5	2	2	1	3	1	2	1	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:7548698G>A	uc001qsy.2	-	8	2069	c.2043C>T	c.(2041-2043)ATC>ATT	p.I681I	CD163L1_uc010sge.1_Silent_p.I691I	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	681	SRCR 6.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						TACCAGAACAGATCACTCCAA	0.438													4	39					0	0	0.009096	0	0		A	7548698	A	A	7548698	2	1	209	1	0	0	0	0	0	0	0	1	2971	932	33	4		4	CD163L1	12	7548698	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	569163	7548698	126303197	744	101159											
CD163L1	283316	broad.mit.edu	37	chr12	7556301	7556301	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactgccaaagacgctgaacGgacatcctagctgcttacaa	13	7	9	12	2	0	2	0	1	0	1	1	4	1	3	2	1	5	3	2	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:7556301G>A	uc001qsy.2	-	6	1264	c.1238C>T	c.(1237-1239)CCG>CTG	p.P413L	CD163L1_uc010sge.1_Missense_Mutation_p.P423L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	413	SRCR 4.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GACGCTGAACGGACATCCTAG	0.463													18	142					0	0	0.012319	0	0		A	7556301	A	A	7556301	3	1	209	1	0	0	0	0	1	0	0	0	2971	1116	39	1	3179	1	CD163L1	12	7556301	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7603	7556301	126295594	745	101160											
A2M	2	broad.mit.edu	37	chr12	9266084	9266084	+	Missense_Mutation	SNP	A	G	G	1	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	caggtagctcagaaggacacAgcccttctcagtggtctcag	10	8	11	12	0	3	1	3	0	2	1	5	2	3	2	1	3	2	2	1	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:9266084A>G	uc001qvk.1	-	2	255	c.142T>C	c.(142-144)TGT>CGT	p.C48R	A2M_uc009zgk.1_5'UTR	NM_000014	NP_000005	P01023	A2MG_HUMAN	alpha-2-macroglobulin precursor	48					blood coagulation, intrinsic pathway|negative regulation of complement activation, lectin pathway|platelet activation|platelet degranulation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|extracellular space|platelet alpha granule lumen	enzyme binding|GTPase activator activity|interleukin-1 binding|interleukin-8 binding|serine-type endopeptidase inhibitor activity|tumor necrosis factor binding			central_nervous_system(4)|skin(1)	5					Bacitracin(DB00626)|Becaplermin(DB00102)	AGAAGGACACAGCCCTTCTCA	0.532													23	113					0	0	0.003954	0	0		G	9266084	G	G	9266084	3	3	209	1	0	0	0	0	1	0	0	0	4	188	7	3	4422	3	A2M	12	9266084	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1709783	9266084	124585811	746	101161											
CLEC12A	160364	broad.mit.edu	37	chr12	10137481	10137481	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttcagggttataagaaaCgcacctgacttaaataacat	15	12	6	8	1	2	2	1	1	1	1	2	2	2	2	1	1	2	2	1	1	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:10137481C>T	uc001qwr.3	+	6	842	c.654C>T	c.(652-654)AAC>AAT	p.N218N	CLEC12A_uc001qwq.2_Silent_p.N228N|CLEC12A_uc001qws.3_Silent_p.N185N|CLEC12A_uc001qwt.2_Silent_p.N147N	NM_138337	NP_612210	Q5QGZ9	CL12A_HUMAN	myeloid inhibitory C-type lectin-like receptor	218	Extracellular (Potential).|C-type lectin.					integral to membrane|plasma membrane	receptor activity|sugar binding			skin(1)	1						TTATAAGAAACGCACCTGACT	0.249													4	16					0	0	0.009096	0	0		T	10137481	T	T	10137481	2	4	209	1	0	0	0	0	0	0	0	1	3500	535	19	1		1	CLEC12A	12	10137481	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	871397	10137481	123714414	747	101162											
PLEKHA5	54477	broad.mit.edu	37	chr12	19522684	19522684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagttccatccactcagcCgcagctcacagaaggatcac	11	6	8	16	1	3	1	3	0	0	1	5	2	5	2	4	1	2	3	4	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:19522684C>T	uc001reb.2	+	25	3400	c.3314C>T	c.(3313-3315)CCG>CTG	p.P1105L	PLEKHA5_uc001rea.2_Missense_Mutation_p.P1163L|PLEKHA5_uc009zin.2_Missense_Mutation_p.P863L|PLEKHA5_uc010sif.1_Missense_Mutation_p.P1094L|PLEKHA5_uc010sig.1_Missense_Mutation_p.P1087L|PLEKHA5_uc009zio.2_Missense_Mutation_p.P371L	NM_019012	NP_061885	Q9HAU0	PKHA5_HUMAN	pleckstrin homology domain containing, family A	1105							1-phosphatidylinositol binding|protein binding			ovary(1)|kidney(1)|skin(1)	3	Acute lymphoblastic leukemia(4;0.000455)|all_hematologic(4;0.00804)					TCCACTCAGCCGCAGCTCACA	0.403													12	69					0	0	0.001855	0	0		T	19522684	T	T	19522684	3	4	209	1	0	0	0	0	1	0	0	0	12078	652	23	1	3730	1	PLEKHA5	12	19522684	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	9385203	19522684	114329211	748	101163											
SLCO1B1	10599	broad.mit.edu	37	chr12	21325632	21325632	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttattgctaagacactaggtGcaattattatgaaaagttcc	14	14	7	6	0	0	2	0	1	0	1	1	2	1	2	1	1	2	3	1	1	8	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:21325632G>A	uc001req.3	+	3	237	c.133G>A	c.(133-135)GCA>ACA	p.A45T		NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	solute carrier organic anion transporter family,	45	Helical; Name=1; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|integral to plasma membrane|membrane fraction	bile acid transmembrane transporter activity|sodium-independent organic anion transmembrane transporter activity|thyroid hormone transmembrane transporter activity			ovary(3)|skin(3)|pancreas(1)|central_nervous_system(1)	8					Digoxin(DB00390)|Gemfibrozil(DB01241)|Pravastatin(DB00175)	GACACTAGGTGCAATTATTAT	0.358													21	58					0	0	0.012319	0	0		A	21325632	A	A	21325632	3	1	209	1	0	0	0	0	1	0	0	0	14748	1319	46	2	139	2	SLCO1B1	12	21325632	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1802948	21325632	112526263	749	101164											
PYROXD1	79912	broad.mit.edu	37	chr12	21602582	21602582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	accaaagttgatatgtgaagGaaatccttatgtattaggaa	16	12	9	4	0	0	2	0	2	0	0	1	4	1	4	2	2	0	2	2	2	8	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:21602582G>A	uc001rew.2	+	4	498	c.371G>A	c.(370-372)GGA>GAA	p.G124E	PYROXD1_uc009ziq.2_5'UTR|PYROXD1_uc009zir.2_Intron	NM_024854	NP_079130	Q8WU10	PYRD1_HUMAN	pyridine nucleotide-disulphide oxidoreductase	124							oxidoreductase activity			ovary(1)	1						atatgtgaaggaaatcctTAT	0.254													7	34					0	0	0.001984	0	0		A	21602582	A	A	21602582	3	1	209	1	0	0	0	0	1	0	0	0	12891	1174	41	4	385	4	PYROXD1	12	21602582	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	276950	21602582	112249313	750	101165											
ETNK1	55500	broad.mit.edu	37	chr12	22796816	22796816	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttattagtcgatcgagatgaGgaagtaaagagttttcgagt	13	13	12	3	3	0	3	0	1	0	2	3	7	0	4	0	1	0	2	0	1	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:22796816G>A	uc001rft.2	+	2	565	c.543G>A	c.(541-543)GAG>GAA	p.E181E	ETNK1_uc009ziz.2_Silent_p.E181E|ETNK1_uc001rfs.2_Silent_p.E181E	NM_018638	NP_061108	Q9HBU6	EKI1_HUMAN	ethanolamine kinase 1 isoform A	181					phosphatidylethanolamine biosynthetic process	cytoplasm	ATP binding|ethanolamine kinase activity				0						ATCGAGATGAGGAAGTAAAGA	0.408													18	139					0	0	0.007413	0	0		A	22796816	A	A	22796816	2	1	209	1	0	0	0	0	0	0	0	1	5281	991	35	4		4	ETNK1	12	22796816	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1194234	22796816	111055079	751	101166											
C12orf11	55726	broad.mit.edu	37	chr12	27075620	27075620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cataattggcagatgtgttaGcatgctgttcttccttgaag	9	15	10	7	0	1	2	0	1	1	1	2	2	2	2	1	1	2	5	1	1	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:27075620G>A	uc001rhk.3	-	8	1355	c.818C>T	c.(817-819)GCT>GTT	p.A273V	C12orf11_uc010sjk.1_Missense_Mutation_p.A172V	NM_018164	NP_060634	Q9NVM9	M89BB_HUMAN	hypothetical protein LOC55726	273					cell division|mitosis|regulation of mitotic cell cycle		protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3	Colorectal(261;0.0847)					AGATGTGTTAGCATGCTGTTC	0.279													7	41					0	0	0.00308	0	0		A	27075620	A	A	27075620	3	1	209	1	0	0	0	0	1	0	0	0	1678	971	34	2	1342	2	C12orf11	12	27075620	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4278804	27075620	106776275	752	101167											
CNTN1	1272	broad.mit.edu	37	chr12	41327522	41327522	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttccggatatccgatggcGgaaggttctagaaccaatgc	10	10	12	9	3	1	1	0	0	1	1	3	4	3	3	3	4	2	2	3	4	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:41327522G>A	uc001rmm.1	+	9	940	c.827G>A	c.(826-828)CGG>CAG	p.R276Q	CNTN1_uc009zjy.1_Missense_Mutation_p.R276Q|CNTN1_uc001rmn.1_Missense_Mutation_p.R265Q|CNTN1_uc001rmo.2_Missense_Mutation_p.R276Q	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	276	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				ATCCGATGGCGGAAGGTTCTA	0.378													7	90					0	0	0.001984	0	0		A	41327522	A	A	41327522	3	1	209	1	0	0	0	0	1	0	0	0	3643	1116	39	1	857	1	CNTN1	12	41327522	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	14251902	41327522	92524373	753	101168											
PDZRN4	29951	broad.mit.edu	37	chr12	41961668	41961668	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttggaagaagagcataatgaAgcaatgcagcccactgccaa	16	6	10	9	0	0	3	0	1	0	2	0	4	0	4	2	1	5	3	2	1	6	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:41961668A>C	uc010skn.1	+	9	1022	c.954A>C	c.(952-954)GAA>GAC	p.E318D	PDZRN4_uc001rmq.3_Missense_Mutation_p.E259D|PDZRN4_uc009zjz.2_Missense_Mutation_p.E257D|PDZRN4_uc001rmr.2_Missense_Mutation_p.E144D	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	517							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				AGCATAATGAAGCAATGCAGC	0.398													5	71					0	0	0.001168	0	0		C	41961668	C	C	41961668	3	2	209	1	0	0	0	0	1	0	0	0	11729	69	3	5	1658	5	PDZRN4	12	41961668	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	634146	41961668	91890227	754	101169											
ADAMTS20	80070	broad.mit.edu	37	chr12	43777488	43777488	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgatttggttatctgtgcacTccattcgttgatgtgaatct	7	18	9	7	1	2	3	0	3	2	0	4	3	3	3	1	1	1	3	1	1	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:43777488T>G	uc010skx.1	-	31	4670	c.4670A>C	c.(4669-4671)GAG>GCG	p.E1557A		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	1557	TSP type-1 13.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		ATCTGTGCACTCCATTCGTTG	0.343													4	35					0	0	0.009096	0	0		G	43777488	G	G	43777488	3	3	209	1	0	0	0	0	1	0	0	0	266	1551	54	5	1097	5	ADAMTS20	12	43777488	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1815820	43777488	90074407	755	101170											
ANO6	196527	broad.mit.edu	37	chr12	45822891	45822891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttctcttccccagcacGtcatctactctgtgaaattt	7	16	4	14	1	5	1	1	1	4	0	7	1	6	1	2	0	2	1	2	0	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:45822891G>A	uc001roo.2	+	20	2865	c.2530G>A	c.(2530-2532)GTC>ATC	p.V844I	ANO6_uc010sld.1_Intron|ANO6_uc010sle.1_Intron|ANO6_uc010slf.1_Missense_Mutation_p.V865I|ANO6_uc010slg.1_Missense_Mutation_p.V826I	NM_001025356	NP_001020527	Q4KMQ2	ANO6_HUMAN	anoctamin 6 isoform a	844	Helical; (Potential).				activation of blood coagulation via clotting cascade|phosphatidylserine exposure on blood platelet	chloride channel complex|plasma membrane	chloride channel activity			ovary(1)|kidney(1)	2						TCCCCAGCACGTCATCTACTC	0.393													5	32					0	0	0.001984	0	0		A	45822891	A	A	45822891	3	1	209	1	0	0	0	0	1	0	0	0	701	1145	40	1	2628	1	ANO6	12	45822891	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2045403	45822891	88029004	756	101171											
MLL2	8085	broad.mit.edu	37	chr12	49420273	49420273	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgatttgcttcacctcgtccCgctcaatgtagacccgccgg	6	10	9	16	5	2	1	2	0	0	1	4	2	3	1	4	1	1	3	4	1	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:49420273C>T	uc001rta.3	-	48	15476	c.15476G>A	c.(15475-15477)CGG>CAG	p.R5159Q		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5159					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						CACCTCGTCCCGCTCAATGTA	0.562			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			13	49					0	0	0.001855	0	0		T	49420273	T	T	49420273	3	4	209	1	0	0	0	0	1	0	0	0	9639	652	23	1	1165	1	MLL2	12	49420273	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3597382	49420273	84431622	757	101172											
MLL2	8085	broad.mit.edu	37	chr12	49440450	49440450	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggggggtccaggcagtatgTgtggtagctaatatcacagt	9	11	15	6	0	1	0	1	0	0	0	2	0	2	0	1	5	1	4	1	5	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:49440450T>C	uc001rta.3	-	15	4360	c.4360A>G	c.(4360-4362)ACA>GCA	p.T1454A		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	1454	Cys-rich.|PHD-type 4.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGGCAGTATGTGTGGTAGCTA	0.602			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			37	82					0	0	0.007835	0	0		C	49440450	C	C	49440450	3	2	209	1	0	0	0	0	1	0	0	0	9639	1696	59	3	12413	3	MLL2	12	49440450	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	20177	49440450	84411445	758	101173											
TUBA1A	7846	broad.mit.edu	37	chr12	49579153	49579153	+	Silent	SNP	A	G	G	1	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	cgcttggtcttgatggtggcAatggcagcattgacatcttt	7	14	12	8	1	2	2	0	2	2	0	2	2	2	2	0	4	1	4	0	4	1	4	rs148479477		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:49579153A>G	uc009zlf.2	-	4	1268	c.996T>C	c.(994-996)ATT>ATC	p.I332I	TUBA1B_uc001rto.2_Intron|TUBA1A_uc001rtp.2_Silent_p.I332I|TUBA1A_uc001rtq.2_Silent_p.I179I|TUBA1A_uc001rtr.2_Silent_p.I179I|TUBA1A_uc009zlg.2_Silent_p.I179I	NM_006009	NP_006000	Q71U36	TBA1A_HUMAN	tubulin, alpha 1a	332					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|structural molecule activity				0						TGATGGTGGCAATGGCAGCAT	0.537													22	86					0	0	0.00278	0	0		G	49579153	G	G	49579153	2	3	209	1	0	0	0	0	0	0	0	1	16769	126	5	3		3	TUBA1A	12	49579153	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	138703	49579153	84272742	759	101174											
TROAP	10024	broad.mit.edu	37	chr12	49719360	49719360	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggtgagggtgtgaagagCtgtcacctggggcgccagcc	7	7	17	10	1	2	3	2	2	0	1	2	3	2	3	3	4	2	1	3	4	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:49719360C>A	uc001rtx.3	+	4	581	c.414C>A	c.(412-414)AGC>AGA	p.S138R	TROAP_uc009zlh.2_Missense_Mutation_p.S138R|TROAP_uc001rty.2_5'Flank	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	138					cell adhesion	cytoplasm				ovary(1)	1						GTGTGAAGAGCTGTCACCTGG	0.567													7	76					0.000274275	0.000287326	0.004482	1	0		A	49719360	A	A	49719360	3	1	209	1	0	0	0	0	1	0	0	0	16601	796	28	5	526	5	TROAP	12	49719360	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	140207	49719360	84132535	760	101175											
MCRS1	10445	broad.mit.edu	37	chr12	49953241	49953241	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgggcctgcctcacctcacGcgagcgcatcaggtaccgca	8	6	11	16	4	3	0	3	0	0	0	3	1	3	0	4	2	3	3	4	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:49953241G>A	uc001ruk.1	-	12	1272	c.1081C>T	c.(1081-1083)CGT>TGT	p.R361C	MCRS1_uc001rui.1_Missense_Mutation_p.R374C|MCRS1_uc001ruj.1_Missense_Mutation_p.R348C|MCRS1_uc001rul.1_Missense_Mutation_p.R361C|MCRS1_uc009zlj.1_Missense_Mutation_p.R170C|MCRS1_uc001rum.1_Missense_Mutation_p.R348C	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1	361					DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						CTCACCTCACGCGAGCGCATC	0.602													13	58					0	0	0.013537	0	0		A	49953241	A	A	49953241	3	1	209	1	0	0	0	0	1	0	0	0	9417	1087	38	1	323	1	MCRS1	12	49953241	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	233881	49953241	83898654	761	101176											
PRPF40B	25766	broad.mit.edu	37	chr12	50029242	50029242	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgatgtcctcttcttcctgGccaagaaggagaaggtaatg	11	11	11	8	0	2	3	0	1	2	2	4	4	4	3	3	3	0	1	3	3	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:50029242G>A	uc001rur.1	+	13	1259	c.1195G>A	c.(1195-1197)GCC>ACC	p.A399T	PRPF40B_uc001rup.1_Missense_Mutation_p.A421T|PRPF40B_uc001ruq.1_Missense_Mutation_p.A393T|PRPF40B_uc001rus.1_Missense_Mutation_p.A342T	NM_001031698	NP_001026868	Q6NWY9	PR40B_HUMAN	Huntingtin interacting protein C isoform 1	399					mRNA processing|RNA splicing	nuclear speck				skin(2)|ovary(1)|pancreas(1)|kidney(1)	5						CTTCTTCCTGGCCAAGAAGGA	0.527													19	91					0	0	0.007413	0	0		A	50029242	A	A	50029242	3	1	209	1	0	0	0	0	1	0	0	0	12594	1203	42	2	1245	2	PRPF40B	12	50029242	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	76001	50029242	83822653	762	101177											
CELA1	1990	broad.mit.edu	37	chr12	51723605	51723605	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caccaagcaatggagggggcCcccagagtcaccctgcaggg	10	3	14	14	0	1	1	1	0	0	1	1	2	1	2	4	4	2	2	4	4	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:51723605C>T	uc001ryi.1	-	7	663	c.622G>A	c.(622-624)GGC>AGC	p.G208S		NM_001971	NP_001962	Q9UNI1	CELA1_HUMAN	chymotrypsin-like elastase family, member 1	208	Peptidase S1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity			breast(1)	1						TGGAGGGGGCCCCCAGAGTCA	0.547													32	106					0	0	0.012213	0	0		T	51723605	T	T	51723605	3	4	209	1	0	0	0	0	1	0	0	0	3213	623	22	4	162	4	CELA1	12	51723605	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1694363	51723605	82128290	763	101178											
KRT86	3892	broad.mit.edu	37	chr12	52695706	52695706	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccccaaaaagcaccatgacTtgtggatcttactgtggtgg	10	11	10	10	0	1	1	0	1	1	0	2	2	2	2	3	3	2	1	3	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:52695706T>C	uc010snq.1	+	2	139	c.6T>C	c.(4-6)ACT>ACC	p.T2T	KRT86_uc009zmg.2_Silent_p.T2T|KRT81_uc001sac.2_Intron|KRT86_uc001sad.2_Silent_p.T2T	NM_002284	NP_002275	O43790	KRT86_HUMAN	keratin 86	2	Head.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(357;0.189)		GCACCATGACTTGTGGATCTT	0.637													11	158					0	0	0.013537	0	0		C	52695706	C	C	52695706	2	2	209	1	0	0	0	0	0	0	0	1	8516	1596	56	3		3	KRT86	12	52695706	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	972101	52695706	81156189	764	101179											
KRT6A	3853	broad.mit.edu	37	chr12	52885416	52885416	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaggttgttgatgtactgCtcgaacaacggctccaggtt	8	12	12	9	2	0	2	0	2	0	0	2	3	1	2	1	3	4	6	1	3	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:52885416C>A	uc001sam.2	-	2	854	c.645G>T	c.(643-645)GAG>GAT	p.E215D		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	215	Rod.|Linker 1.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		TGATGTACTGCTCGAACAACG	0.592													35	95					3.21399e-22	3.65982e-22	0.004878	1	0		A	52885416	A	A	52885416	3	1	209	1	0	0	0	0	1	0	0	0	8496	796	28	5	1081	5	KRT6A	12	52885416	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	189710	52885416	80966479	765	101180											
CSAD	51380	broad.mit.edu	37	chr12	53554091	53554091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctgggacccatggcagcGcttgagcaggttctgtgtgg	5	9	17	10	1	1	1	0	1	1	0	1	2	1	2	2	5	2	4	2	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:53554091G>A	uc001sby.2	-	13	1105	c.979C>T	c.(979-981)CGC>TGC	p.R327C	CSAD_uc001sbw.2_Missense_Mutation_p.R180C|CSAD_uc009zmt.2_Missense_Mutation_p.R109C|CSAD_uc010snx.1_Missense_Mutation_p.R354C|CSAD_uc001sbz.2_Missense_Mutation_p.R327C|CSAD_uc009zmu.2_Missense_Mutation_p.R180C|CSAD_uc001sca.3_RNA	NM_015989	NP_057073	Q9Y600	CSAD_HUMAN	cysteine sulfinic acid decarboxylase	327					carboxylic acid metabolic process		pyridoxal phosphate binding|sulfinoalanine decarboxylase activity			ovary(1)	1					L-Cysteine(DB00151)|Pyridoxal Phosphate(DB00114)	CCATGGCAGCGCTTGAGCAGG	0.602									Hereditary_Prostate_Cancer				7	71					0	0	0.001984	0	0		A	53554091	A	A	53554091	3	1	209	1	0	0	0	0	1	0	0	0	3928	1087	38	1	518	1	CSAD	12	53554091	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	668675	53554091	80297804	766	101181											
ESPL1	9700	broad.mit.edu	37	chr12	53677280	53677280	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaagccaaggccttttgctTggaggccctaaaacttacaa	12	10	9	10	0	0	1	0	1	0	0	0	2	0	2	3	3	4	1	3	3	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:53677280T>C	uc001sck.2	+	16	3126	c.3035T>C	c.(3034-3036)TTG>TCG	p.L1012S	ESPL1_uc001scj.2_Missense_Mutation_p.L687S|ESPL1_uc010soe.1_Missense_Mutation_p.L223S	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1012					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						GCCTTTTGCTTGGAGGCCCTA	0.532													10	164					0	0	0.010729	0	0		C	53677280	C	C	53677280	3	2	209	1	0	0	0	0	1	0	0	0	5261	1821	63	3	3093	3	ESPL1	12	53677280	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	123189	53677280	80174615	767	101182											
HNRNPA1	3178	broad.mit.edu	37	chr12	54676226	54676226	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caactgtgaagttagaaaagCcctgtcaaagcaagagatgg	16	7	11	7	0	1	3	1	1	0	2	1	4	1	3	1	1	3	2	1	1	7	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:54676226C>A	uc001sfl.2	+	5	643	c.539C>A	c.(538-540)GCC>GAC	p.A180D	CBX5_uc001sfk.3_5'Flank|CBX5_uc001sfi.3_5'Flank|HNRNPA1_uc001sfm.2_Missense_Mutation_p.A180D|HNRNPA1_uc009zng.2_Missense_Mutation_p.A180D|HNRNPA1_uc009znh.2_Missense_Mutation_p.A180D|HNRNPA1_uc009zni.2_Missense_Mutation_p.A180D|HNRNPA1_uc001sfn.2_Missense_Mutation_p.A180D|HNRNPA1_uc001sfo.3_RNA|HNRNPA1_uc001sfp.1_Missense_Mutation_p.A135D|HNRNPA1_uc009znj.1_Missense_Mutation_p.A135D	NM_031157	NP_112420	P09651	ROA1_HUMAN	heterogeneous nuclear ribonucleoprotein A1	180	Globular B domain.|RRM 2.				interspecies interaction between organisms|mRNA transport|nuclear import	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleolus|nucleoplasm	nucleotide binding|protein binding|single-stranded DNA binding			skin(2)|ovary(1)	3						GTTAGAAAAGCCCTGTCAAAG	0.373													16	46					4.7546e-09	5.20214e-09	0.004007	1	0		A	54676226	A	A	54676226	3	1	209	1	0	0	0	0	1	0	0	0	7273	739	26	5	557	5	HNRNPA1	12	54676226	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	998946	54676226	79175669	768	101183											
SLC39A5	283375	broad.mit.edu	37	chr12	56630453	56630453	+	Missense_Mutation	SNP	A	G	G	1	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	ccaaggccacagtcatgggcAccagggtggcactgatatca	11	6	12	12	0	2	1	2	1	0	0	2	1	2	1	3	4	0	2	3	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:56630453A>G	uc010sqj.1	+	10	1387	c.1130A>G	c.(1129-1131)CAC>CGC	p.H377R	SLC39A5_uc010sqk.1_Missense_Mutation_p.H377R	NM_173596	NP_775867	Q6ZMH5	S39A5_HUMAN	solute carrier family 39 (metal ion	377	Cytoplasmic (Potential).				zinc ion transport	basolateral plasma membrane|integral to membrane	metal ion transmembrane transporter activity			ovary(1)|skin(1)	2						AGTCATGGGCACCAGGGTGGC	0.632													17	105					0	0	0.004007	0	0		G	56630453	G	G	56630453	3	3	209	1	0	0	0	0	1	0	0	0	14646	159	6	3	1156	3	SLC39A5	12	56630453	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1954227	56630453	77221442	769	101184											
BAZ2A	11176	broad.mit.edu	37	chr12	56994066	56994066	+	Missense_Mutation	SNP	A	G	G	1	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	caacctcatgagttggccagAggggctcccgcaggtaccgc	8	6	13	14	2	1	2	1	1	0	1	2	2	2	2	4	4	2	4	4	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:56994066A>G	uc001slq.1	-	24	5011	c.4817T>C	c.(4816-4818)CTC>CCC	p.L1606P	BAZ2A_uc001slp.1_Missense_Mutation_p.L1604P|BAZ2A_uc001slo.1_Missense_Mutation_p.L412P|BAZ2A_uc009zov.1_Missense_Mutation_p.L572P|BAZ2A_uc009zow.1_Missense_Mutation_p.L1574P	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	1606					chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						AGTTGGCCAGAGGGGCTCCCG	0.592													7	43					0	0	0.001984	0	0		G	56994066	G	G	56994066	3	3	209	1	0	0	0	0	1	0	0	0	1332	304	11	3	924	3	BAZ2A	12	56994066	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	363613	56994066	76857829	770	101185											
GLI1	2735	broad.mit.edu	37	chr12	57864329	57864329	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagagggggtggtacttcGcccactgcagcatccagcct	7	7	13	14	1	0	1	0	0	0	1	2	1	1	1	4	3	4	3	4	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:57864329G>A	uc001snx.2	+	12	1884	c.1806G>A	c.(1804-1806)TCG>TCA	p.S602S	GLI1_uc009zpq.2_Silent_p.S474S	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	602					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			GTGGTACTTCGCCCACTGCAG	0.597													21	57					0	0	0.010504	0	0		A	57864329	A	A	57864329	2	1	209	1	0	0	0	0	0	0	0	1	6452	1074	38	1		1	GLI1	12	57864329	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	870263	57864329	75987566	771	101186											
AGAP2	116986	broad.mit.edu	37	chr12	58124620	58124620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcatgtccttgacgagcccGttaatgctggctgaggggcc	6	10	13	12	2	1	2	1	2	0	0	2	3	2	2	3	3	2	3	3	3	1	2	rs147633851	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:58124620G>A	uc001spq.2	-	11	2262	c.2262C>T	c.(2260-2262)AAC>AAT	p.N754N	AGAP2_uc001spp.2_Silent_p.N754N|AGAP2_uc001spr.2_Silent_p.N418N	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	754	PH.				axon guidance|negative regulation of neuron apoptosis|negative regulation of protein catabolic process|protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	mitochondrion|nucleolus	ARF GTPase activator activity|GTP binding|zinc ion binding			central_nervous_system(3)|breast(2)	5						TGACGAGCCCGTTAATGCTGG	0.592													4	24					0	0	0.000602	0	0		A	58124620	A	A	58124620	2	1	209	1	0	0	0	0	0	0	0	1	368	1136	40	1		1	AGAP2	12	58124620	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	260291	58124620	75727275	772	101187											
AVIL	10677	broad.mit.edu	37	chr12	58201268	58201268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcatcctgtgaggcgtggCggccctgcaatggtgagagg	6	8	17	10	2	1	2	1	2	0	1	2	3	2	2	2	5	1	2	2	5	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:58201268C>T	uc001sqj.1	-	12	1366	c.1337G>A	c.(1336-1338)CGC>CAC	p.R446H	AVIL_uc009zqe.1_Missense_Mutation_p.R439H|AVIL_uc001sqk.1_Missense_Mutation_p.R24H|AVIL_uc001sql.3_Missense_Mutation_p.R423H	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	446	Gelsolin-like 4.|Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					TGAGGCGTGGCGGCCCTGCAA	0.627													7	93					0	0	0.00308	0	0		T	58201268	T	T	58201268	3	4	209	1	0	0	0	0	1	0	0	0	1228	768	27	1	1154	1	AVIL	12	58201268	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	76648	58201268	75650627	773	101188											
AVPR1A	552	broad.mit.edu	37	chr12	63543909	63543909	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgttgtagcagatgaagccGtagcaggtacccaagatgac	13	8	12	8	1	0	4	0	2	0	2	0	4	0	4	2	1	4	6	2	1	5	4	rs149088415		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:63543909G>A	uc001sro.1	-	1	2682	c.708C>T	c.(706-708)TAC>TAT	p.Y236Y		NM_000706	NP_000697	P37288	V1AR_HUMAN	arginine vasopressin receptor 1A	236	Helical; Name=5; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration|generation of precursor metabolites and energy	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity				0			BRCA - Breast invasive adenocarcinoma(9;0.193)	GBM - Glioblastoma multiforme(28;0.0569)	Conivaptan(DB00872)|Desmopressin(DB00035)|Felypressin(DB00093)|Terlipressin(DB02638)|Vasopressin(DB00067)	AGATGAAGCCGTAGCAGGTAC	0.627													22	143					0	0	0.014323	0	0		A	63543909	A	A	63543909	2	1	209	1	0	0	0	0	0	0	0	1	1232	1140	40	1		1	AVPR1A	12	63543909	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5342641	63543909	70307986	774	101189											
TBK1	29110	broad.mit.edu	37	chr12	64854020	64854020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaataacataagcttccttCgtccagtggatgttcaaatg	12	14	7	8	1	1	0	1	0	0	0	4	1	3	1	2	1	2	2	2	1	4	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:64854020C>T	uc001ssc.1	+	3	201	c.139C>T	c.(139-141)CGT>TGT	p.R47C		NM_013254	NP_037386	Q9UHD2	TBK1_HUMAN	TANK-binding kinase 1	47	Protein kinase.				I-kappaB kinase/NF-kappaB cascade|innate immune response|interspecies interaction between organisms|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription from RNA polymerase II promoter|response to virus|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(2)|ovary(1)|large_intestine(1)|breast(1)	5				GBM - Glioblastoma multiforme(28;0.0386)		AAGCTTCCTTCGTCCAGTGGA	0.269													4	67					0	0	0.000602	0	0		T	64854020	T	T	64854020	3	4	209	1	0	0	0	0	1	0	0	0	15662	884	31	1	145	1	TBK1	12	64854020	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1310111	64854020	68997875	775	101190											
HELB	92797	broad.mit.edu	37	chr12	66725241	66725241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgtagtcacagaccacgCcatgacaaatgatgtcacct	12	8	7	14	1	2	3	2	2	0	1	2	3	2	3	4	0	0	1	4	0	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:66725241C>T	uc001sti.2	+	12	3006	c.2978C>T	c.(2977-2979)GCC>GTC	p.A993V	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	993					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		ACAGACCACGCCATGACAAAT	0.542													10	69					0	0	0.008291	0	0		T	66725241	T	T	66725241	3	4	209	1	0	0	0	0	1	0	0	0	7061	739	26	2	3024	2	HELB	12	66725241	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1871221	66725241	67126654	776	101191											
RAP1B	5908	broad.mit.edu	37	chr12	69042518	69042518	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgcatcatgcgtgagtataAgctagtcgttcttggctcag	8	14	11	8	2	3	1	2	1	1	0	4	1	3	1	0	1	3	5	0	1	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:69042518A>G	uc001sub.2	+	2	177	c.14A>G	c.(13-15)AAG>AGG	p.K5R	RAP1B_uc010ste.1_Intron|RAP1B_uc001suc.2_Missense_Mutation_p.K5R|RAP1B_uc010stf.1_Missense_Mutation_p.K5R|RAP1B_uc010stg.1_Missense_Mutation_p.K5R|RAP1B_uc010sth.1_Missense_Mutation_p.K5R|RAP1B_uc010sti.1_Missense_Mutation_p.K5R	NM_001089704	NP_001083173	P61224	RAP1B_HUMAN	SubName: Full=Ras-related protein Rap-1A; SubName: Full=cDNA FLJ75985, highly similar to Homo sapiens RAP1A, member of RAS oncogene family (RAP1A), transcript variant 2, mRNA; SubName: Full=RAP1A, member of RAS oncogene family;	5					blood coagulation|energy reserve metabolic process|regulation of establishment of cell polarity|regulation of insulin secretion	cell-cell junction|cytosol	GDP binding|GTP binding|GTPase activity|protein binding				0	Breast(13;1.24e-05)		Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.00694)	GBM - Glioblastoma multiforme(7;0.000306)		CGTGAGTATAAGCTAGTCGTT	0.373													5	19					0	0	0.000602	0	0		G	69042518	G	G	69042518	3	3	209	1	0	0	0	0	1	0	0	0	13061	72	3	3	16	3	RAP1B	12	69042518	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2317277	69042518	64809377	777	101192											
ZFC3H1	196441	broad.mit.edu	37	chr12	72026000	72026000	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttcgctctctgcttgaacCagacaaaatttcatcatcaa	12	13	4	12	1	5	2	3	1	2	1	7	2	5	2	1	0	2	2	1	0	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:72026000C>A	uc001swo.2	-	15	3471	c.3112G>T	c.(3112-3114)GGT>TGT	p.G1038C		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	1038					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						CTGCTTGAACCAGACAAAATT	0.348													23	150					1.50039e-11	1.67055e-11	0.012319	1	0		A	72026000	A	A	72026000	3	1	209	1	0	0	0	0	1	0	0	0	17658	594	21	5	2941	5	ZFC3H1	12	72026000	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2983482	72026000	61825895	778	101193											
E2F7	144455	broad.mit.edu	37	chr12	77444367	77444367	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatacataccaagactgacaGcaacttcatctagggagatg	15	8	9	9	0	2	3	1	1	1	2	2	5	2	3	1	1	4	1	1	1	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:77444367G>T	uc001sym.3	-	4	763	c.527C>A	c.(526-528)GCT>GAT	p.A176D	E2F7_uc001syn.2_Missense_Mutation_p.A176D	NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	176	Potential.				cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						AAGACTGACAGCAACTTCATC	0.453													20	119					2.37509e-13	2.65871e-13	0.010504	1	0		T	77444367	T	T	77444367	3	4	209	1	0	0	0	0	1	0	0	0	4878	971	34	5	2248	5	E2F7	12	77444367	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5418367	77444367	56407528	779	101194											
SYT1	6857	broad.mit.edu	37	chr12	79685798	79685798	+	Missense_Mutation	SNP	A	G	G	1	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	ctatacataggccctcaaggAtgatgatgctgaaactggat	13	10	10	8	0	1	3	1	3	0	0	1	5	1	5	1	3	3	1	1	3	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:79685798A>G	uc001sys.2	+	7	1033	c.362A>G	c.(361-363)GAT>GGT	p.D121G	SYT1_uc001syt.2_Missense_Mutation_p.D121G|SYT1_uc001syu.2_Missense_Mutation_p.D118G|SYT1_uc001syv.2_Missense_Mutation_p.D121G	NM_001135805	NP_001129277	P21579	SYT1_HUMAN	synaptotagmin I	121	Cytoplasmic (Potential).				detection of calcium ion|glutamate secretion|neurotransmitter secretion|protein homooligomerization	cell junction|chromaffin granule membrane|clathrin sculpted acetylcholine transport vesicle membrane|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to membrane|synaptic vesicle membrane	1-phosphatidylinositol binding|low-density lipoprotein particle receptor binding|metal ion binding|syntaxin-1 binding|transporter activity			skin(3)|pancreas(2)|ovary(1)	6						GCCCTCAAGGATGATGATGCT	0.388													5	39					0	0	0.000602	0	0		G	79685798	G	G	79685798	3	3	209	1	0	0	0	0	1	0	0	0	15490	333	12	3	372	3	SYT1	12	79685798	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2241431	79685798	54166097	780	101195											
MYF6	4618	broad.mit.edu	37	chr12	81102325	81102325	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgagggtgcggatttcctgcGcacctgcagctcccagtggc	5	9	14	13	2	0	1	0	1	0	0	2	2	2	2	3	3	4	3	3	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:81102325G>A	uc001szf.1	+	2	595	c.542G>A	c.(541-543)CGC>CAC	p.R181H		NM_002469	NP_002460	P23409	MYF6_HUMAN	myogenic factor 6	181					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						GATTTCCTGCGCACCTGCAGC	0.592													8	101					0	0	0.00308	0	0		A	81102325	A	A	81102325	3	1	209	1	0	0	0	0	1	0	0	0	10046	1087	38	1	548	1	MYF6	12	81102325	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1416527	81102325	52749570	781	101196											
CRADD	8738	broad.mit.edu	37	chr12	94243943	94243943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtggaggccttcatcCgttggcggcagcgcttcggg	4	9	18	10	4	1	0	1	0	0	0	3	1	2	1	2	7	1	3	2	7	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:94243943C>T	uc001tda.2	+	3	600	c.496C>T	c.(496-498)CGT>TGT	p.R166C	CRADD_uc010sur.1_Intron|CRADD_uc010sus.1_Intron	NM_003805	NP_003796	P78560	CRADD_HUMAN	CASP2 and RIPK1 domain containing adaptor with	166	Death.				apoptosis|cellular response to mechanical stimulus|induction of apoptosis via death domain receptors|signal transduction	intracellular	death domain binding|protease binding|protein binding, bridging			ovary(1)	1						GGCCTTCATCCGTTGGCGGCA	0.642													13	90					0	0	0.00245	0	0		T	94243943	T	T	94243943	3	4	209	1	0	0	0	0	1	0	0	0	3848	652	23	1	502	1	CRADD	12	94243943	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	13141618	94243943	39607952	782	101197											
PLXNC1	10154	broad.mit.edu	37	chr12	94676091	94676091	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagagcttcaaatgggcacaCgacagaaagaacttctggac	15	6	10	10	1	2	3	1	0	1	3	2	5	2	4	0	2	2	2	0	2	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:94676091C>T	uc001tdc.2	+	23	4042	c.3793C>T	c.(3793-3795)CGA>TGA	p.R1265*	PLXNC1_uc010sut.1_Nonsense_Mutation_p.R312*|PLXNC1_uc009zsv.2_Nonsense_Mutation_p.R4*	NM_005761	NP_005752	O60486	PLXC1_HUMAN	plexin C1 precursor	1265	Cytoplasmic (Potential).				axon guidance|cell adhesion	integral to membrane|intracellular|plasma membrane	receptor activity|receptor binding			ovary(2)|central_nervous_system(1)	3						AATGGGCACACGACAGAAAGA	0.388													17	85					0	0	0.007413	0	0		T	94676091	T	T	94676091	4	4	209	1	0	0	0	0	0	1	0	0	12145	528	19	1	3883	1	PLXNC1	12	94676091	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	432148	94676091	39175804	783	101198											
SLC5A8	160728	broad.mit.edu	37	chr12	101581230	101581230	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggtacctggaatatagggcGagcccacaaaacactgagca	14	6	11	10	1	0	1	0	1	0	0	0	3	0	2	2	3	4	2	2	3	6	3	rs147034851	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:101581230G>A	uc001thz.3	-	7	1287	c.897C>T	c.(895-897)CTC>CTT	p.L299L		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	299	Helical; (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						AATATAGGGCGAGCCCACAAA	0.453													5	63					0	0	0.000602	0	0		A	101581230	A	A	101581230	2	1	209	1	0	0	0	0	0	0	0	1	14696	1045	37	1		1	SLC5A8	12	101581230	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6905139	101581230	32270665	784	101199											
IGF1	3479	broad.mit.edu	37	chr12	102811676	102811676	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttcttctttcctctgatctGcagacttgcttctgtcccct	3	19	5	14	0	5	2	0	1	5	1	7	2	7	2	3	0	2	2	3	0	0	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:102811676G>T	uc001tjp.3	-	4	727	c.508C>A	c.(508-510)CAG>AAG	p.Q170K	IGF1_uc001tjn.2_Intron|IGF1_uc001tjm.2_Intron|IGF1_uc001tjo.2_Intron	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	170					anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						CCTCTGATCTGCAGACTTGCT	0.478													37	319					9.45814e-24	1.0787e-23	0.004878	1	0		T	102811676	T	T	102811676	3	4	209	1	0	0	0	0	1	0	0	0	7586	1328	46	5	147	5	IGF1	12	102811676	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1230446	102811676	31040219	785	101200											
STAB2	55576	broad.mit.edu	37	chr12	104049047	104049047	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaaaccataatgacaatgCtacaaccaaggtacagcaag	19	5	7	10	0	0	1	0	1	0	0	0	1	0	1	2	1	7	4	2	1	8	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:104049047C>T	uc001tjw.2	+	14	1756	c.1570C>T	c.(1570-1572)CTA>TTA	p.L524L		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	524	Extracellular (Potential).|FAS1 2.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						AATGACAATGCTACAACCAAG	0.284													13	82					0	0	0.00245	0	0		T	104049047	T	T	104049047	2	4	209	1	0	0	0	0	0	0	0	1	15263	796	28	2		2	STAB2	12	104049047	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1237371	104049047	29802848	786	101201											
EID3	493861	broad.mit.edu	37	chr12	104698101	104698101	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttctgttcgtgggtctgaAttggatggaaggcgatcctg	6	14	15	6	2	2	1	0	1	2	0	4	4	3	3	1	4	0	2	1	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:104698101A>T	uc001tkw.2	+	1	553	c.389A>T	c.(388-390)AAT>ATT	p.N130I	TXNRD1_uc010swk.1_Intron|TXNRD1_uc010swl.1_Intron|TXNRD1_uc010swm.1_Intron|TXNRD1_uc010swn.1_Intron|TXNRD1_uc010swo.1_Intron|TXNRD1_uc010swp.1_Intron|TXNRD1_uc010swq.1_Intron|TXNRD1_uc001tku.2_Intron|TXNRD1_uc001tko.1_Intron|TXNRD1_uc001tkp.1_Intron|TXNRD1_uc001tkv.1_Intron	NM_001008394	NP_001008395	Q8N140	EID3_HUMAN	EP300 interacting inhibitor of differentiation	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus					0						GTGGGTCTGAATTGGATGGAA	0.398													38	210					0	0	0.00623	0	0		T	104698101	T	T	104698101	3	4	209	1	0	0	0	0	1	0	0	0	4995	101	4	5	391	5	EID3	12	104698101	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	649054	104698101	29153794	787	101202											
CRY1	1407	broad.mit.edu	37	chr12	107393779	107393779	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acatgacaaacaaccaaatcGgagataaggactaagtccag	19	5	8	9	1	0	2	0	1	0	1	2	4	1	3	2	2	2	0	2	2	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:107393779G>A	uc001tmi.3	-	6	1625	c.766C>T	c.(766-768)CGA>TGA	p.R256*		NM_004075	NP_004066	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	256	FAD-binding.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			ovary(3)	3						CAACCAAATCGGAGATAAGGA	0.363													7	42					0	0	0.001984	0	0		A	107393779	A	A	107393779	4	1	209	1	0	0	0	0	0	1	0	0	3906	1124	39	1	1022	1	CRY1	12	107393779	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2695678	107393779	26458116	788	101203											
SSH1	54434	broad.mit.edu	37	chr12	109210869	109210869	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attctcctcggtgtcctggcGcccgctgctgtacaccacca	5	10	9	17	3	1	0	0	0	1	0	4	0	2	0	5	2	2	3	5	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:109210869G>A	uc001tnm.2	-	5	433	c.346C>T	c.(346-348)CGC>TGC	p.R116C	SSH1_uc010sxg.1_Missense_Mutation_p.R127C|SSH1_uc001tnn.3_Missense_Mutation_p.R116C|SSH1_uc001tno.1_Missense_Mutation_p.R43C	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	116					actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4						GTGTCCTGGCGCCCGCTGCTG	0.597													34	114					0	0	0.013726	0	0		A	109210869	A	A	109210869	3	1	209	1	0	0	0	0	1	0	0	0	15209	1087	38	1	3033	1	SSH1	12	109210869	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1817090	109210869	24641026	789	101204											
ACACB	32	broad.mit.edu	37	chr12	109704119	109704119	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcagcccagctgagcgggcGcaggtcgttcacctgctgtc	6	8	13	14	3	2	1	2	1	0	0	4	1	2	1	2	2	4	4	2	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:109704119G>A	uc001tob.2	+	53	7448	c.7329G>A	c.(7327-7329)GCG>GCA	p.A2443A	ACACB_uc001toc.2_Silent_p.A2443A|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Silent_p.A1109A	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2443					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	CTGAGCGGGCGCAGGTCGTTC	0.647													21	45					0	0	0.010504	0	0		A	109704119	A	A	109704119	2	1	209	1	0	0	0	0	0	0	0	1	107	1074	38	1		1	ACACB	12	109704119	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	493250	109704119	24147776	790	101205											
UBE3B	89910	broad.mit.edu	37	chr12	109948193	109948193	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctgttccagtctgtccacGggtggcttatggtgctgtac	5	13	13	10	1	1	0	0	0	1	0	3	0	3	0	2	3	3	5	2	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:109948193G>A	uc001top.2	+	17	2389	c.1786G>A	c.(1786-1788)GGG>AGG	p.G596R	UBE3B_uc001toq.2_Missense_Mutation_p.G596R|UBE3B_uc001tos.2_Missense_Mutation_p.G23R|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.G596R	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	596					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						GTCTGTCCACGGGTGGCTTAT	0.612													10	24					0	0	0.001855	0	0		A	109948193	A	A	109948193	3	1	209	1	0	0	0	0	1	0	0	0	16906	1116	39	1	1844	1	UBE3B	12	109948193	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	244074	109948193	23903702	791	101206											
ATP2A2	488	broad.mit.edu	37	chr12	110770466	110770466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgagtttaccataactggatCaacttatgcacctattggag	12	13	8	8	0	1	1	1	1	0	0	1	3	1	3	2	2	4	2	2	2	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:110770466C>T	uc001tqk.3	+	9	1723	c.1160C>T	c.(1159-1161)TCA>TTA	p.S387L	ATP2A2_uc001tql.3_Missense_Mutation_p.S387L|ATP2A2_uc010sxy.1_Missense_Mutation_p.S360L	NM_170665	NP_733765	P16615	AT2A2_HUMAN	ATPase, Ca++ transporting, slow twitch 2 isoform	387	Cytoplasmic (By similarity).|Interacts with phospholamban 1 (By similarity).				ATP biosynthetic process|cell adhesion|epidermis development|platelet activation|sarcoplasmic reticulum calcium ion transport	integral to plasma membrane|microsome|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|protein C-terminus binding|S100 alpha binding			ovary(3)|skin(1)	4						ATAACTGGATCAACTTATGCA	0.418													39	155					0	0	0.00623	0	0		T	110770466	T	T	110770466	3	4	209	1	0	0	0	0	1	0	0	0	1138	838	29	4	1194	4	ATP2A2	12	110770466	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	822273	110770466	23081429	792	101207											
PPP1CC	5501	broad.mit.edu	37	chr12	111168366	111168366	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccataaattctgttgatgCtggcacattcatggttccct	9	15	7	10	0	2	1	1	1	1	0	4	1	4	1	2	2	1	4	2	2	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:111168366C>T	uc001tru.2	-	3	631	c.386G>A	c.(385-387)AGC>AAC	p.S129N		NM_002710	NP_002701	P36873	PP1G_HUMAN	protein phosphatase 1, catalytic subunit, gamma	129					cell division|glycogen metabolic process|mitotic prometaphase|triglyceride catabolic process	cleavage furrow|condensed chromosome kinetochore|cytosol|midbody|MLL5-L complex|nuclear speck|nucleolus|PTW/PP1 phosphatase complex	metal ion binding|protein binding|protein kinase binding|protein serine/threonine phosphatase activity			lung(2)|central_nervous_system(1)	3						TCTGTTGATGCTGGCACATTC	0.328													5	89					0	0	0.001984	0	0		T	111168366	T	T	111168366	3	4	209	1	0	0	0	0	1	0	0	0	12373	797	28	2	605	2	PPP1CC	12	111168366	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	397900	111168366	22683529	793	101208											
CUX2	23316	broad.mit.edu	37	chr12	111758403	111758403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgacggccgaggcgggcgcgCggctgccctactacccggcc	4	3	16	18	8	0	0	0	0	0	0	0	2	0	0	4	5	3	1	4	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:111758403C>T	uc001tsa.1	+	17	2743	c.2590C>T	c.(2590-2592)CGG>TGG	p.R864W		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	864						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GGCGGGCGCGCGGCTGCCCTA	0.736													4	3					0	0	0.009096	0	0		T	111758403	T	T	111758403	3	4	209	1	0	0	0	0	1	0	0	0	4068	759	27	1	2656	1	CUX2	12	111758403	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	590037	111758403	22093492	794	101209											
CUX2	23316	broad.mit.edu	37	chr12	111785628	111785628	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagccccaggactcaggggaGctggacaaaggccaaggtcc	11	3	14	13	0	1	0	1	0	0	0	2	3	2	3	4	6	2	1	4	6	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:111785628G>A	uc001tsa.1	+	22	4113	c.3960G>A	c.(3958-3960)GAG>GAA	p.E1320E		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1320						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						ACTCAGGGGAGCTGGACAAAG	0.622													18	76					0	0	0.006122	0	0		A	111785628	A	A	111785628	2	1	209	1	0	0	0	0	0	0	0	1	4068	962	34	2		2	CUX2	12	111785628	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	27225	111785628	22066267	795	101210											
ATXN2	6311	broad.mit.edu	37	chr12	111923112	111923112	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcttgattcactggcatgggCgtcataggtattgggtataa	9	13	13	6	1	2	1	2	1	0	0	2	1	2	1	0	4	0	4	0	4	4	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:111923112C>T	uc001tsj.2	-	18	3123	c.2961G>A	c.(2959-2961)ACG>ACA	p.T987T	ATXN2_uc001tsh.2_Silent_p.T722T|ATXN2_uc001tsi.2_Silent_p.T698T|ATXN2_uc001tsk.2_Intron|ATXN2_uc001tsg.2_Silent_p.T173T	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	987	Pro-rich.				cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						CTGGCATGGGCGTCATAGGTA	0.363													26	165					0	0	0.007291	0	0		T	111923112	T	T	111923112	2	4	209	1	0	0	0	0	0	0	0	1	1212	755	27	1		1	ATXN2	12	111923112	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	137484	111923112	21928783	796	101211											
CCDC60	160777	broad.mit.edu	37	chr12	119773055	119773055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtccggcccttttatgcctCggagaacctaaggcaggtaa	9	10	11	11	2	0	1	0	0	0	1	2	2	1	1	4	4	2	2	4	4	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:119773055C>T	uc001txe.2	+	1	539	c.74C>T	c.(73-75)TCG>TTG	p.S25L		NM_178499	NP_848594	Q8IWA6	CCD60_HUMAN	coiled-coil domain containing 60	25										ovary(2)|upper_aerodigestive_tract(1)	3	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.207)		TTTTATGCCTCGGAGAACCTA	0.413													8	116					0	0	0.008291	0	0		T	119773055	T	T	119773055	3	4	209	1	0	0	0	0	1	0	0	0	2834	893	31	1	76	1	CCDC60	12	119773055	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7849943	119773055	14078840	797	101212											
RAB35	11021	broad.mit.edu	37	chr12	120546244	120546244	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaagtgttgtctgcaaaaCgcaacagtaaactgctcttg	14	10	9	8	1	2	1	0	0	2	1	2	1	2	1	0	0	5	5	0	0	6	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:120546244C>T	uc001txm.1	-	2	225	c.80G>A	c.(79-81)CGT>CAT	p.R27H	RAB35_uc009zww.1_5'UTR|RAB35_uc010szh.1_Missense_Mutation_p.R27H	NM_006861	NP_006852	Q15286	RAB35_HUMAN	RAB35, member RAS oncogene family	27					cytokinesis|endosome transport|protein transport|small GTPase mediated signal transduction	cell projection membrane|clathrin-coated endocytic vesicle|coated pit|endosome|intercellular bridge|melanosome	GTP binding|GTPase activity|phosphatidylinositol-4,5-bisphosphate binding				0	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.248)		GTCTGCAAAACGCAACAGTAA	0.577													10	45					0	0	0.010729	0	0		T	120546244	T	T	120546244	3	4	209	1	0	0	0	0	1	0	0	0	12950	536	19	1	545	1	RAB35	12	120546244	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	773189	120546244	13305651	798	101213											
MORN3	283385	broad.mit.edu	37	chr12	122107269	122107269	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcacgttgtccttccactCgcccacatagtagtcgccat	7	13	6	15	3	1	0	1	0	0	0	5	0	3	0	4	0	0	2	4	0	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:122107269C>T	uc001uax.2	-	1	292	c.121G>A	c.(121-123)GAG>AAG	p.E41K	MORN3_uc001uay.2_RNA	NM_173855	NP_776254	Q6PF18	MORN3_HUMAN	MORN repeat containing 3	41	MORN 1.										0	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000409)|Epithelial(86;0.00145)		TCCTTCCACTCGCCCACATAG	0.627											OREG0022205	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	113					0	0	0.005443	0	0		T	122107269	T	T	122107269	3	4	209	1	0	0	0	0	1	0	0	0	9727	893	31	1	621	1	MORN3	12	122107269	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1561025	122107269	11744626	799	101214											
GLT1D1	144423	broad.mit.edu	37	chr12	129442187	129442187	+	Missense_Mutation	SNP	A	G	G	1	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	gctactgttttccaatcctcAggtaaagaaaagttctttcc	11	14	6	10	0	2	1	1	0	1	1	5	1	5	1	3	1	1	4	3	1	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:129442187A>G	uc010tbh.1	+	12	902	c.893A>G	c.(892-894)CAG>CGG	p.Q298R	GLT1D1_uc001uhx.1_Missense_Mutation_p.Q213R|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	293					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		TCCAATCCTCAGGTAAAGAAA	0.443													12	30					0	0	0.001855	0	0		G	129442187	G	G	129442187	3	3	209	1	0	0	0	0	1	0	0	0	6480	202	7	3	664	3	GLT1D1	12	129442187	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	7334918	129442187	4409708	800	101215											
PUS1	80324	broad.mit.edu	37	chr12	132426054	132426054	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcacctcgcagaaggggccGcaggatcccagtgcctgccg	7	6	13	15	3	1	1	1	0	0	1	3	2	2	2	5	3	2	2	5	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:132426054G>A	uc001ujf.2	+	5	1241	c.762G>A	c.(760-762)CCG>CCA	p.P254P	PUS1_uc001ujg.2_Silent_p.P226P|PUS1_uc001ujh.2_Silent_p.P226P|PUS1_uc001uji.2_Silent_p.P201P	NM_025215	NP_079491	Q9Y606	TRUA_HUMAN	pseudouridine synthase 1 isoform 1	254						mitochondrion	pseudouridine synthase activity|pseudouridylate synthase activity|RNA binding			breast(1)|central_nervous_system(1)	2	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.05e-08)|Epithelial(86;2.51e-07)|all cancers(50;2.94e-07)		AGAAGGGGCCGCAGGATCCCA	0.622													20	52					0	0	0.007413	0	0		A	132426054	A	A	132426054	2	1	209	1	0	0	0	0	0	0	0	1	12855	1074	38	1		1	PUS1	12	132426054	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2983867	132426054	1425841	801	101216											
NOC4L	79050	broad.mit.edu	37	chr12	132632289	132632289	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacaccatgcaggcagccGtggatgccgtggcccgggtc	7	5	14	15	3	0	0	0	0	0	0	1	1	0	1	5	4	3	2	5	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr12:132632289G>A	uc001ujz.1	+	5	606	c.565G>A	c.(565-567)GTG>ATG	p.V189M		NM_024078	NP_076983	Q9BVI4	NOC4L_HUMAN	nucleolar complex associated 4 homolog	189					rRNA processing	integral to membrane|nuclear membrane|nucleolus	protein binding				0	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)		GCAGGCAGCCGTGGATGCCGT	0.667													9	95					0	0	0.006214	0	0		A	132632289	A	A	132632289	3	1	209	1	0	0	0	0	1	0	0	0	10534	1145	40	1	583	1	NOC4L	12	132632289	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	206235	132632289	1219606	802	101217											
EFHA1	221154	broad.mit.edu	37	chr13	22095413	22095413	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcccttttttcaatcatctCattaccatctgtatccagca	9	17	2	13	0	4	0	3	0	2	0	7	0	6	0	3	0	2	2	3	0	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:22095413C>A	uc001uof.2	-	6	590	c.568G>T	c.(568-570)GAG>TAG	p.E190*		NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1	190	EF-hand 1.						calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		TCAATCATCTCATTACCATCT	0.308													7	34					1.26484e-09	1.39018e-09	0.00308	1	0		A	22095413	A	A	22095413	4	1	209	1	0	0	0	0	0	1	0	0	4949	835	29	5	764	5	EFHA1	13	22095413	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		22095413	93074465	803	101218											
SACS	26278	broad.mit.edu	37	chr13	23906308	23906308	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaggtaaagcgcaaggtctcGtacattctcgagatcactcc	11	9	10	11	3	3	1	1	0	2	1	6	3	4	1	1	2	2	3	1	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:23906308G>A	uc001uon.2	-	10	12296	c.11707C>T	c.(11707-11709)CGA>TGA	p.R3903*	SACS_uc001uoo.2_Nonsense_Mutation_p.R3756*|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3903					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GCAAGGTCTCGTACATTCTCG	0.438													32	136					0	0	0.012213	0	0		A	23906308	A	A	23906308	4	1	209	1	0	0	0	0	0	1	0	0	13829	1153	40	1	2036	1	SACS	13	23906308	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1810895	23906308	91263570	804	101219											
MIPEP	4285	broad.mit.edu	37	chr13	24330693	24330693	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttttgttttaccttcaaccaTgagcatgggctccctgcctc	6	15	7	13	0	1	1	1	1	0	0	3	1	2	1	4	1	4	3	4	1	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:24330693T>C	uc001uox.3	-	18	2135	c.2035A>G	c.(2035-2037)ATG>GTG	p.M679V		NM_005932	NP_005923	Q99797	MIPEP_HUMAN	mitochondrial intermediate peptidase precursor	679					protein processing involved in protein targeting to mitochondrion|proteolysis	mitochondrial matrix	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		all_cancers(29;1.83e-22)|all_epithelial(30;8.75e-19)|all_lung(29;9.17e-18)|Lung SC(185;0.0225)|Breast(139;0.14)		all cancers(112;0.00389)|Epithelial(112;0.0266)|OV - Ovarian serous cystadenocarcinoma(117;0.0717)|Lung(94;0.207)|GBM - Glioblastoma multiforme(144;0.232)		CCTTCAACCATGAGCATGGGC	0.453													8	61					0	0	0.006214	0	0		C	24330693	C	C	24330693	3	2	209	1	0	0	0	0	1	0	0	0	9610	1464	51	3	114	3	MIPEP	13	24330693	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	424385	24330693	90839185	805	101220											
CENPJ	55835	broad.mit.edu	37	chr13	25480097	25480097	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatttggaacaccttcatcGtcacgtgcattccattcagt	9	14	6	12	2	3	0	3	0	0	0	5	1	4	1	2	1	2	1	2	1	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:25480097G>A	uc001upt.3	-	7	2332	c.2079C>T	c.(2077-2079)GAC>GAT	p.D693D	CENPJ_uc010tdf.1_RNA|CENPJ_uc010aae.2_RNA|CENPJ_uc010aaf.2_RNA|CENPJ_uc001upu.2_5'Flank	NM_018451	NP_060921	Q9HC77	CENPJ_HUMAN	centromere protein J	693					cell division|centriole replication|G2/M transition of mitotic cell cycle|microtubule nucleation|microtubule polymerization	centriole|cytosol|gamma-tubulin small complex|microtubule	protein domain specific binding|tubulin binding			ovary(2)	2		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.00793)|Epithelial(112;0.0411)|OV - Ovarian serous cystadenocarcinoma(117;0.139)		CACCTTCATCGTCACGTGCAT	0.453													12	43					0	0	0.010729	0	0		A	25480097	A	A	25480097	2	1	209	1	0	0	0	0	0	0	0	1	3237	1136	40	1		1	CENPJ	13	25480097	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1149404	25480097	89689781	806	101221											
GSX1	219409	broad.mit.edu	37	chr13	28367140	28367140	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcactctgctgtgtcgcccGgggtcgctcacggcccggcc	3	7	14	17	5	2	0	1	0	1	0	4	0	2	0	3	4	2	3	3	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:28367140G>A	uc001urr.1	+	1	361	c.313G>A	c.(313-315)GGG>AGG	p.G105R		NM_145657	NP_663632	Q9H4S2	GSX1_HUMAN	GS homeobox 1	105					positive regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung SC(185;0.0161)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	GBM - Glioblastoma multiforme(144;0.0402)|all cancers(112;0.0404)|OV - Ovarian serous cystadenocarcinoma(117;0.197)		TGTGTCGCCCGGGGTCGCTCA	0.652													3	10					0	0	0.009096	0	0		A	28367140	A	A	28367140	3	1	209	1	0	0	0	0	1	0	0	0	6865	1116	39	1	315	1	GSX1	13	28367140	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2887043	28367140	86802738	807	101222											
MTUS2	23281	broad.mit.edu	37	chr13	29599560	29599560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagagggaaagagtgtgcGtcatcctaaaccatctacct	12	9	9	11	1	3	2	2	0	1	2	4	3	4	3	3	1	3	0	3	1	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:29599560G>A	uc001usl.3	+	1	813	c.755G>A	c.(754-756)CGT>CAT	p.R252H		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	242						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						AAGAGTGTGCGTCATCCTAAA	0.562													8	31					0	0	0.00308	0	0		A	29599560	A	A	29599560	3	1	209	1	0	0	0	0	1	0	0	0	9984	1145	40	1	757	1	MTUS2	13	29599560	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1232420	29599560	85570318	808	101223											
HSPH1	10808	broad.mit.edu	37	chr13	31725098	31725098	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacacctgttcatctttccGgaaacatctttatcattcat	11	15	3	12	1	5	0	3	0	2	0	6	1	6	1	2	1	1	1	2	1	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:31725098G>A	uc001utj.2	-	7	1292	c.894C>T	c.(892-894)TCC>TCT	p.S298S	HSPH1_uc001utk.2_Silent_p.S298S|HSPH1_uc010aaw.2_Silent_p.S257S|HSPH1_uc001utl.2_Silent_p.S300S|HSPH1_uc010tds.1_Silent_p.S222S|HSPH1_uc010tdt.1_RNA	NM_006644	NP_006635	Q92598	HS105_HUMAN	heat shock 105kD	298					positive regulation of MHC class I biosynthetic process|positive regulation of NK T cell activation|response to unfolded protein	cytoplasm|extracellular region	ATP binding				0		Lung SC(185;0.0257)		all cancers(112;0.00385)|Epithelial(112;0.0328)|OV - Ovarian serous cystadenocarcinoma(117;0.0375)|GBM - Glioblastoma multiforme(144;0.125)		TCATCTTTCCGGAAACATCTT	0.388													5	37					0	0	0.000602	0	0		A	31725098	A	A	31725098	2	1	209	1	0	0	0	0	0	0	0	1	7447	1103	39	1		1	HSPH1	13	31725098	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2125538	31725098	83444780	809	101224											
BRCA2	675	broad.mit.edu	37	chr13	32912670	32912670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaacttttttggaagttgCgaaagctcaagaagcatgtc	12	14	9	6	1	1	1	1	0	0	1	2	3	1	2	0	1	4	3	0	1	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:32912670C>T	uc001uub.1	+	11	4405	c.4178C>T	c.(4177-4179)GCG>GTG	p.A1393V		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	1393					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TTGGAAGTTGCGAAAGCTCAA	0.333			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			5	54					0	0	0.001168	0	0		T	32912670	T	T	32912670	3	4	209	1	0	0	0	0	1	0	0	0	1502	768	27	1	4216	1	BRCA2	13	32912670	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1187572	32912670	82257208	810	101225											
BRCA2	675	broad.mit.edu	37	chr13	32915239	32915239	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaaactgccaagtcatgcCacacattctctttttacatg	11	14	4	12	0	3	0	1	0	2	0	4	0	3	0	2	0	4	0	2	0	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:32915239C>T	uc001uub.1	+	11	6974	c.6747C>T	c.(6745-6747)GCC>GCT	p.A2249A		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2249					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CAAGTCATGCCACACATTCTC	0.368			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			33	171					0	0	0.009535	0	0		T	32915239	T	T	32915239	2	4	209	1	0	0	0	0	0	0	0	1	1502	581	21	4		4	BRCA2	13	32915239	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2569	32915239	82254639	811	101226											
BRCA2	675	broad.mit.edu	37	chr13	32972773	32972773	+	Missense_Mutation	SNP	A	G	G	1	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	ccactaggactgctcccaccAgttcagaagattatctcaga	12	9	7	13	0	2	3	2	0	1	3	4	4	3	4	3	1	1	2	3	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:32972773A>G	uc001uub.1	+	27	10350	c.10123A>G	c.(10123-10125)AGT>GGT	p.S3375G		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	3375					cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		TGCTCCCACCAGTTCAGAAGA	0.408			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			7	77					0	0	0.001984	0	0		G	32972773	G	G	32972773	3	3	209	1	0	0	0	0	1	0	0	0	1502	188	7	3	10225	3	BRCA2	13	32972773	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	57534	32972773	82197105	812	101227											
SOHLH2	54937	broad.mit.edu	37	chr13	36767799	36767799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagtattttaccacattaCtcattttttccattgtcagt	9	19	3	10	0	2	0	2	0	0	0	4	0	4	0	3	0	2	1	3	0	3	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:36767799C>T	uc001uvj.2	-	4	478	c.389G>A	c.(388-390)AGT>AAT	p.S130N	SOHLH2_uc010tei.1_Missense_Mutation_p.S207N	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	130					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		TACCACATTACTCATTTTTTC	0.308													6	90					0	0	0.001984	0	0		T	36767799	T	T	36767799	3	4	209	1	0	0	0	0	1	0	0	0	14949	565	20	4	920	4	SOHLH2	13	36767799	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3795026	36767799	78402079	813	101228											
SPG20	23111	broad.mit.edu	37	chr13	36905566	36905566	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtcagacatttgccttaaCagatcctcaaagagctctct	12	11	7	11	0	3	3	2	0	1	3	5	3	4	3	2	1	3	1	2	1	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:36905566C>A	uc001uvn.2	-	4	1248	c.978G>T	c.(976-978)CTG>CTT	p.L326L	SPG20_uc010ten.1_Silent_p.L326L|SPG20_uc001uvm.2_Silent_p.L326L|SPG20_uc001uvo.2_Silent_p.L326L|SPG20_uc001uvq.2_Silent_p.L326L|SPG20_uc001uvp.2_Silent_p.L326L	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	326					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TTTGCCTTAACAGATCCTCAA	0.428													21	73					2.70639e-06	2.90428e-06	0.014323	1	0		A	36905566	A	A	36905566	2	1	209	1	0	0	0	0	0	0	0	1	15067	465	17	5		5	SPG20	13	36905566	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	137767	36905566	78264312	814	101229											
WBP4	11193	broad.mit.edu	37	chr13	41645700	41645700	+	Silent	SNP	C	T	T	0	0	0	1	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	cctgaaggatttcaaggagaCttaaaaaaggtaattgaagc	17	9	10	5	0	1	3	1	2	0	1	1	5	1	4	1	3	1	1	1	3	7	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:41645700C>T	uc001uxt.2	+	6	590	c.477C>T	c.(475-477)GAC>GAT	p.D159D	WBP4_uc010tfd.1_Silent_p.D138D	NM_007187	NP_009118	O75554	WBP4_HUMAN	WW domain-containing binding protein 4	159					nuclear mRNA cis splicing, via spliceosome	nuclear speck|spliceosomal complex	nucleic acid binding|proline-rich region binding|zinc ion binding			breast(2)|kidney(1)	3		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)		TTCAAGGAGACTTAAAAAAGG	0.269													15	61					0	0	0.00499	0	0		T	41645700	T	T	41645700	2	4	209	1	0	0	0	0	0	0	0	1	17287	564	20	4		4	WBP4	13	41645700	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4740134	41645700	73524178	815	101230											
ENOX1	55068	broad.mit.edu	37	chr13	43934138	43934138	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcattttctggtaatcctccGacaaacacggtcttacaccc	10	11	6	14	2	2	0	0	0	2	0	4	1	4	0	3	2	2	2	3	2	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:43934138G>A	uc001uza.3	-	7	738	c.438C>T	c.(436-438)GTC>GTT	p.V146V	ENOX1_uc001uzb.3_Silent_p.V146V|ENOX1_uc001uzc.3_Silent_p.V146V|ENOX1_uc010tfm.1_5'UTR	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	146	RRM.				electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		GTAATCCTCCGACAAACACGG	0.378													6	62					0	0	0.001168	0	0		A	43934138	A	A	43934138	2	1	209	1	0	0	0	0	0	0	0	1	5134	1045	37	1		1	ENOX1	13	43934138	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2288438	43934138	71235740	816	101231											
TSC22D1	8848	broad.mit.edu	37	chr13	45149730	45149730	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcccctaagtcagtagcccTggaaagtgacacatcaagga	13	7	9	12	0	2	1	2	1	0	0	3	3	3	3	3	2	1	1	3	2	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:45149730T>C	uc001uzn.3	-	1	972	c.481A>G	c.(481-483)AGG>GGG	p.R161G	TSC22D1_uc001uzo.1_Missense_Mutation_p.R161G	NM_183422	NP_904358	Q15714	T22D1_HUMAN	TSC22 domain family, member 1 isoform 1	161					transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity				0		all_hematologic(4;8.74e-08)|Acute lymphoblastic leukemia(4;1.78e-07)|Lung NSC(96;2.21e-05)|Breast(139;0.000625)|Prostate(109;0.000947)|Hepatocellular(98;0.0202)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;0.000522)|BRCA - Breast invasive adenocarcinoma(63;0.118)		TCAGTAGCCCTGGAAAGTGAC	0.512													12	46					0	0	0.013537	0	0		C	45149730	C	C	45149730	3	2	209	1	0	0	0	0	1	0	0	0	16633	1579	55	3	2881	3	TSC22D1	13	45149730	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1215592	45149730	70020148	817	101232											
NUFIP1	26747	broad.mit.edu	37	chr13	45563443	45563443	+	Silent	SNP	C	T	T	0	0	0	1	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	agtggtggtggcggtggcggCagcattgcccagaacatcca	8	7	16	10	2	0	1	0	0	0	1	1	1	1	1	2	6	3	2	2	6	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:45563443C>T	uc001uzp.2	-	1	171	c.129G>A	c.(127-129)CTG>CTA	p.L43L	KIAA1704_uc010tfo.1_5'Flank|KIAA1704_uc001uzq.2_5'Flank|KIAA1704_uc001uzr.1_5'Flank|KIAA1704_uc001uzs.2_5'Flank	NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	43	Pro-rich.				box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		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)		GCGGTGGCGGCAGCATTGCCC	0.682													4	19					0	0	0.000602	0	0		T	45563443	T	T	45563443	2	4	209	1	0	0	0	0	0	0	0	1	10767	697	25	2		2	NUFIP1	13	45563443	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	413713	45563443	69606435	818	101233											
ZC3H13	23091	broad.mit.edu	37	chr13	46559623	46559623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgagtatctcgaccttcaCggtccctgtagtcatgggca	8	11	11	11	2	3	1	2	1	1	0	5	3	4	1	2	2	0	3	2	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:46559623C>T	uc010tfw.1	-	9	1535	c.1529G>A	c.(1528-1530)CGT>CAT	p.R510H	ZC3H13_uc001vas.1_Missense_Mutation_p.R510H|ZC3H13_uc001vat.1_Missense_Mutation_p.R510H	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	510	Arg/Ser-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TCGACCTTCACGGTCCCTGTA	0.483													32	90					0	0	0.009535	0	0		T	46559623	T	T	46559623	3	4	209	1	0	0	0	0	1	0	0	0	17590	536	19	1	3197	1	ZC3H13	13	46559623	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	996180	46559623	68610255	819	101234											
HTR2A	3356	broad.mit.edu	37	chr13	47409176	47409176	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actaaaattaactgcaatggTtttttgttttccttgtactg	10	19	6	6	0	0	0	0	0	0	0	1	0	1	0	1	1	3	4	1	1	5	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:47409176T>G	uc001vbq.2	-	3	1346	c.1212A>C	c.(1210-1212)AAA>AAC	p.K404N	HTR2A_uc001vbr.2_Missense_Mutation_p.K304N|HTR2A_uc010acr.2_Missense_Mutation_p.K404N	NM_000621	NP_000612	P28223	5HT2A_HUMAN	5-hydroxytryptamine receptor 2A isoform 1	404	Cytoplasmic (By similarity).				ERK1 and ERK2 cascade|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	integral to plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|serotonin binding|serotonin receptor activity			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		all_lung(13;7.2e-10)|Lung NSC(96;3.77e-07)|Breast(56;2.06e-05)|Prostate(109;0.00116)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)|Myeloproliferative disorder(33;0.0333)		GBM - Glioblastoma multiforme(144;4.67e-05)|COAD - Colon adenocarcinoma(199;0.224)	Aripiprazole(DB01238)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cisapride(DB00604)|Clomipramine(DB01242)|Clozapine(DB00363)|Cyclobenzaprine(DB00924)|Cyproheptadine(DB00434)|Dihydroergotamine(DB00320)|Donepezil(DB00843)|Epinastine(DB00751)|Ergotamine(DB00696)|Fluvoxamine(DB00176)|Mesoridazine(DB00933)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Nefazodone(DB01149)|Olanzapine(DB00334)|Paliperidone(DB01267)|Paroxetine(DB00715)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	ACTGCAATGGTTTTTTGTTTT	0.398													23	83					0	0	0.012319	0	0		G	47409176	G	G	47409176	3	3	209	1	0	0	0	0	1	0	0	0	7457	1722	60	5	207	5	HTR2A	13	47409176	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	849553	47409176	67760702	820	101235											
ATP7B	540	broad.mit.edu	37	chr13	52524252	52524252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtgcatttatagaccccGcaattacagtgcttccgggt	9	12	9	11	2	0	1	0	0	0	1	1	1	1	1	3	1	3	3	3	1	4	5	rs121907994		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:52524252G>A	uc001vfw.2	-	11	2778	c.2621C>T	c.(2620-2622)GCG>GTG	p.A874V	ATP7B_uc010adv.2_Missense_Mutation_p.A444V|ATP7B_uc001vfx.2_Missense_Mutation_p.A712V|ATP7B_uc001vfy.2_Missense_Mutation_p.A763V|ATP7B_uc010tgt.1_Missense_Mutation_p.A874V|ATP7B_uc010tgu.1_Missense_Mutation_p.A826V|ATP7B_uc010tgv.1_Missense_Mutation_p.A796V|ATP7B_uc001vfv.2_Missense_Mutation_p.A146V|ATP7B_uc010tgs.1_Missense_Mutation_p.A146V	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	874	Cytoplasmic (Potential).		A -> V (in WD).		ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		TATAGACCCCGCAATTACAGT	0.502									Wilson_disease				16	53					0	0	0.004007	0	0		A	52524252	A	A	52524252	3	1	209	1	0	0	0	0	1	0	0	0	1192	1087	38	1	1820	1	ATP7B	13	52524252	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5115076	52524252	62645626	821	101236											
PCDH8	5100	broad.mit.edu	37	chr13	53420573	53420573	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcagtatctcccccgtgcGgcggccgatggcgaaggctt	6	7	15	13	5	1	0	0	0	1	0	2	3	1	0	3	4	2	3	3	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:53420573G>T	uc001vhi.2	-	1	2202	c.1999C>A	c.(1999-2001)CGC>AGC	p.R667S	PCDH8_uc001vhj.2_Missense_Mutation_p.R667S	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	667	Extracellular (Potential).|Cadherin 6.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		TCCCCCGTGCGGCGGCCGATG	0.721													6	27					5.18039e-06	5.54687e-06	0.00308	1	0		T	53420573	T	T	53420573	3	4	209	1	0	0	0	0	1	0	0	0	11536	1116	39	5	1225	5	PCDH8	13	53420573	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	896321	53420573	61749305	822	101237											
PCDH17	27253	broad.mit.edu	37	chr13	58207209	58207209	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcacgcgcgacgatcacGgcctctttggactggacgtt	6	10	12	13	6	3	0	2	0	1	0	3	4	3	2	1	3	1	2	1	3	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:58207209G>A	uc001vhq.1	+	1	1421	c.529G>A	c.(529-531)GGC>AGC	p.G177S	PCDH17_uc010aec.1_Missense_Mutation_p.G177S	NM_001040429	NP_001035519	O14917	PCD17_HUMAN	protocadherin 17 precursor	177	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			ovary(3)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	7		Lung NSC(96;0.027)|Prostate(109;0.0453)|Breast(118;0.128)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;1.06e-05)		CGACGATCACGGCCTCTTTGG	0.642													8	33					0	0	0.004482	0	0		A	58207209	A	A	58207209	3	1	209	1	0	0	0	0	1	0	0	0	11531	1116	39	1	531	1	PCDH17	13	58207209	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4786636	58207209	56962669	823	101238											
TDRD3	81550	broad.mit.edu	37	chr13	61068589	61068589	+	Silent	SNP	T	A	A	0	1	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	accaagacatttggaggaggTggtggtggtgctagaagtaa	12	9	16	4	0	0	2	0	0	0	2	0	4	0	4	1	6	1	2	1	6	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:61068589T>A	uc001via.2	+	8	1247	c.459T>A	c.(457-459)GGT>GGA	p.G153G	TDRD3_uc010aef.2_5'UTR|TDRD3_uc001vhz.3_Silent_p.G153G|TDRD3_uc010aeg.2_Silent_p.G246G|TDRD3_uc001vib.3_Silent_p.G152G	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	153					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TTGGAGGAGGTGGTGGTGGTG	0.353													6	68					0	0	0.001168	0	0		A	61068589	A	A	61068589	2	1	209	1	0	0	0	0	0	0	0	1	15757	1683	59	5		5	TDRD3	13	61068589	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2861380	61068589	54101289	824	101239											
FARP1	10160	broad.mit.edu	37	chr13	99030142	99030142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacgtgtaatgacaccagcGcagctctcttgatttcacac	10	11	8	12	2	2	3	1	3	1	0	3	3	2	3	1	0	2	3	1	0	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:99030142G>A	uc001vnj.2	+	6	802	c.466G>A	c.(466-468)GCA>ACA	p.A156T	FARP1_uc001vnh.2_Missense_Mutation_p.A156T	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	156	FERM.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TGACACCAGCGCAGCTCTCTT	0.453													11	65					0	0	0.013537	0	0		A	99030142	A	A	99030142	3	1	209	1	0	0	0	0	1	0	0	0	5690	1087	38	1	707	1	FARP1	13	99030142	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	37961553	99030142	16139736	825	101240											
DOCK9	23348	broad.mit.edu	37	chr13	99515694	99515694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcacactgatggcgatcagaCggacctcccggaactcctgg	9	6	12	14	3	1	2	1	1	0	1	3	5	3	4	3	4	1	1	3	4	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:99515694C>T	uc001vnt.2	-	31	3453	c.3398G>A	c.(3397-3399)CGT>CAT	p.R1133H	DOCK9_uc001vnw.2_Missense_Mutation_p.R1132H|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.R1133H|DOCK9_uc010tis.1_Missense_Mutation_p.R1132H|DOCK9_uc010tit.1_Missense_Mutation_p.R1133H|DOCK9_uc010tiq.1_Missense_Mutation_p.R111H|DOCK9_uc010afu.1_Missense_Mutation_p.R979H	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	1133					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GGCGATCAGACGGACCTCCCG	0.502													19	82					0	0	0.010504	0	0		T	99515694	T	T	99515694	3	4	209	1	0	0	0	0	1	0	0	0	4700	536	19	1	2976	1	DOCK9	13	99515694	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	485552	99515694	15654184	826	101241											
ZIC2	7546	broad.mit.edu	37	chr13	100634887	100634887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccggcgaggtgttcgggcGctcggagcaataccgccagg	6	5	17	13	6	0	0	0	0	0	0	2	2	0	1	3	5	2	3	3	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:100634887G>A	uc001von.2	+	1	569	c.569G>A	c.(568-570)CGC>CAC	p.R190H		NM_007129	NP_009060	O95409	ZIC2_HUMAN	zinc finger protein of the cerebellum 2	190	Necessary for interaction with MDFIC and transcriptional activation or repression (By similarity).				brain development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|visual perception	cytoplasm|nucleus	chromatin DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GTGTTCGGGCGCTCGGAGCAA	0.677													5	9					0	0	0.001168	0	0		A	100634887	A	A	100634887	3	1	209	1	0	0	0	0	1	0	0	0	17704	1087	38	1	571	1	ZIC2	13	100634887	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1119193	100634887	14534991	827	101242											
NALCN	259232	broad.mit.edu	37	chr13	101881812	101881812	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcaaactaattgctgacaTaacaatcaagaggctggcag	15	8	9	9	0	1	2	1	1	0	1	1	2	1	2	0	2	4	4	0	2	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:101881812T>C	uc001vox.1	-	13	1747	c.1558A>G	c.(1558-1560)ATG>GTG	p.M520V	NALCN_uc001voy.2_Missense_Mutation_p.M235V|NALCN_uc001voz.2_Missense_Mutation_p.M520V|NALCN_uc001vpa.2_Missense_Mutation_p.M520V	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	520	Helical; Name=S5 of repeat II; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					ATTGCTGACATAACAATCAAG	0.368													9	118					0	0	0.006214	0	0		C	101881812	C	C	101881812	3	2	209	1	0	0	0	0	1	0	0	0	10166	1406	49	3	3786	3	NALCN	13	101881812	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1246925	101881812	13288066	828	101243											
NALCN	259232	broad.mit.edu	37	chr13	102029355	102029355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatcagtggccgtggaatcCgcaacatgccccaaggtgac	11	7	11	12	2	1	1	1	1	0	0	2	2	2	2	4	3	2	1	4	3	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:102029355C>T	uc001vox.1	-	5	617	c.428G>A	c.(427-429)CGG>CAG	p.R143Q	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.2_Missense_Mutation_p.R143Q|NALCN_uc001vpa.2_Missense_Mutation_p.R143Q	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	143	Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCGTGGAATCCGCAACATGCC	0.403													5	39					0	0	0.000602	0	0		T	102029355	T	T	102029355	3	4	209	1	0	0	0	0	1	0	0	0	10166	652	23	1	4948	1	NALCN	13	102029355	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	147543	102029355	13140523	829	101244											
MYO16	23026	broad.mit.edu	37	chr13	109792877	109792877	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgtacatcgagatgctgggGcacgcggccaggcccgatag	8	6	16	11	4	0	1	0	0	0	1	1	3	0	1	2	4	2	3	2	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:109792877G>A	uc001vqt.1	+	32	4377	c.4251G>A	c.(4249-4251)GGG>GGA	p.G1417G	MYO16_uc010agk.1_Silent_p.G1439G	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1417	Pro-rich.				cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			AGATGCTGGGGCACGCGGCCA	0.736													4	6					0	0	0.009096	0	0		A	109792877	A	A	109792877	2	1	209	1	0	0	0	0	0	0	0	1	10082	1190	42	2		2	MYO16	13	109792877	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7763522	109792877	5377001	830	101245											
IRS2	8660	broad.mit.edu	37	chr13	110434417	110434417	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atggtggcctccttcaagtgGtgggacaagaagtcaatgct	10	10	13	8	0	2	1	2	0	0	1	3	2	3	2	2	4	1	1	2	4	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:110434417G>A	uc001vqv.2	-	1	4498	c.3984C>T	c.(3982-3984)CAC>CAT	p.H1328H		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	1328				LPPANTYASIDFLSHHLKEATIVKE -> PAPCPTTYAQH (in Ref. 1; BAA24500).	fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	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)			CCTTCAAGTGGTGGGACAAGA	0.692													4	27					0	0	0.000602	0	0		A	110434417	A	A	110434417	2	1	209	1	0	0	0	0	0	0	0	1	7857	1252	44	4		4	IRS2	13	110434417	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	641540	110434417	4735461	831	101246											
IRS2	8660	broad.mit.edu	37	chr13	110436712	110436712	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcggtccaggtcctgggcCgcgtcccccgagacccggcg	3	5	14	19	6	0	1	0	0	0	1	4	2	3	1	7	4	0	0	7	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:110436712C>T	uc001vqv.2	-	1	2203	c.1689G>A	c.(1687-1689)GCG>GCA	p.A563A		NM_003749	NP_003740	Q9Y4H2	IRS2_HUMAN	insulin receptor substrate 2	563					fibroblast growth factor receptor signaling pathway|glucose metabolic process|insulin receptor signaling pathway|lipid homeostasis|negative regulation of B cell apoptosis|negative regulation of kinase activity|negative regulation of plasma membrane long-chain fatty acid transport|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of B cell proliferation|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|response to glucose stimulus	cytosol|plasma membrane	insulin receptor binding|signal transducer activity			large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)|skin(1)|ovary(1)|kidney(1)	8	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)			GGTCCTGGGCCGCGTCCCCCG	0.726													5	36					0	0	0.001168	0	0		T	110436712	T	T	110436712	2	4	209	1	0	0	0	0	0	0	0	1	7857	639	23	1		1	IRS2	13	110436712	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2295	110436712	4733166	832	101247											
COL4A1	1282	broad.mit.edu	37	chr13	110814631	110814631	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgtagagcaaagagtaccCgtggtaaagaattttggtcc	13	9	11	8	2	0	3	0	0	0	3	1	3	1	3	2	2	2	4	2	2	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:110814631C>T	uc001vqw.3	-	48	4530	c.4408G>A	c.(4408-4410)GGG>AGG	p.G1470R	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1470	Collagen IV NC1.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			AAAGAGTACCCGTGGTAAAGA	0.512													70	276					0	0	0.01441	0	0		T	110814631	T	T	110814631	3	4	209	1	0	0	0	0	1	0	0	0	3692	652	23	1	621	1	COL4A1	13	110814631	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	377919	110814631	4355247	833	101248											
COL4A1	1282	broad.mit.edu	37	chr13	110835356	110835356	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttacctttggggccggggggCcctggaaatccaatgcctgg	6	9	15	11	1	0	0	0	0	0	0	1	1	1	1	5	7	2	0	5	7	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr13:110835356C>G	uc001vqw.3	-	28	2201	c.2079G>C	c.(2077-2079)GGG>GGC	p.G693G	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	693	Triple-helical region.				angiogenesis|axon guidance		extracellular matrix structural constituent|platelet-derived growth factor binding			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6	all_cancers(4;9.8e-13)|all_epithelial(4;9.66e-08)|all_lung(23;3.75e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00178)|all_neural(89;0.00459)|Medulloblastoma(90;0.00596)|Lung SC(71;0.0604)	Breast(118;0.2)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.145)			GGCCGGGGGGCCCTGGAAATC	0.612													7	21					0	0	0.00308	0	0		G	110835356	G	G	110835356	2	3	209	1	0	0	0	0	0	0	0	1	3692	726	26	5		5	COL4A1	13	110835356	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	20725	110835356	4334522	834	101249											
FLJ10357	55701	broad.mit.edu	37	chr14	21542925	21542925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggctgtgggagaagcctccGgatcttgccccctgaggcca	7	7	14	13	1	1	2	0	1	1	1	2	4	2	3	5	4	2	1	5	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:21542925G>A	uc001vzp.2	+	3	1065	c.1036G>A	c.(1036-1038)GGA>AGA	p.G346R	FLJ10357_uc001vzn.1_Missense_Mutation_p.G346R|FLJ10357_uc001vzo.1_Intron|FLJ10357_uc010aij.2_RNA|FLJ10357_uc010tln.1_5'UTR	NM_018071	NP_060541	Q8TER5	ARH40_HUMAN	hypothetical protein LOC55701	346	Gly-rich.				regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity				0	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;5.79e-11)|Epithelial(56;8.35e-09)|all cancers(55;4.23e-08)	GBM - Glioblastoma multiforme(265;0.0197)		AGAAGCCTCCGGATCTTGCCC	0.652													3	21					0	0	0.004672	0	0		A	21542925	A	A	21542925	3	1	209	1	0	0	0	0	1	0	0	0	5940	1117	39	1	1046	1	FLJ10357	14	21542925	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		21542925	85806615	835	101250											
LRP10	26020	broad.mit.edu	37	chr14	23345071	23345071	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatgccacctaccatgtgcGgggctattgcttgccttggg	6	11	12	12	1	0	0	0	0	0	0	0	0	0	0	4	3	5	2	4	3	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:23345071G>A	uc001whd.2	+	5	1467	c.914G>A	c.(913-915)CGG>CAG	p.R305Q	LRP10_uc001whe.2_Missense_Mutation_p.R181Q	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	305	CUB 2.|Extracellular (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		TACCATGTGCGGGGCTATTGC	0.592													5	97					0	0	0.000602	0	0		A	23345071	A	A	23345071	3	1	209	1	0	0	0	0	1	0	0	0	8970	1116	39	1	932	1	LRP10	14	23345071	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1802146	23345071	84004469	836	101251											
JPH4	84502	broad.mit.edu	37	chr14	24041061	24041061	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggctatcagtttggccattCgagctgcctccacggccttc	5	11	11	14	2	1	0	1	0	0	0	4	1	2	0	4	3	2	3	4	3	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:24041061C>T	uc001wkq.2	-	5	2138	c.1220G>A	c.(1219-1221)CGA>CAA	p.R407Q	JPH4_uc010tnr.1_Missense_Mutation_p.R72Q|JPH4_uc001wkr.2_Missense_Mutation_p.R407Q	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	407	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		TTTGGCCATTCGAGCTGCCTC	0.632													18	106					0	0	0.006122	0	0		T	24041061	T	T	24041061	3	4	209	1	0	0	0	0	1	0	0	0	7979	884	31	1	678	1	JPH4	14	24041061	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	695990	24041061	83308479	837	101252											
PRKD1	5587	broad.mit.edu	37	chr14	30100065	30100065	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaacgccactggtgagaaCactgttatttggtgatgggc	10	10	12	9	1	0	2	0	2	0	1	0	3	0	2	2	3	2	1	2	3	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:30100065C>T	uc001wqh.2	-	10	1736	c.1555G>A	c.(1555-1557)GTT>ATT	p.V519I		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	519	PH.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CTGGTGAGAACACTGTTATTT	0.512													26	106					0	0	0.00632	0	0		T	30100065	T	T	30100065	3	4	209	1	0	0	0	0	1	0	0	0	12540	478	17	4	1219	4	PRKD1	14	30100065	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6059004	30100065	77249475	838	101253											
ARHGAP5	394	broad.mit.edu	37	chr14	32561268	32561268	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggaggatgaagcctacaaaTatatcactgaggctgatagc	14	9	11	7	0	1	3	1	3	0	0	1	5	1	5	1	3	3	1	1	3	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:32561268T>C	uc001wrl.2	+	2	1632	c.1393T>C	c.(1393-1395)TAT>CAT	p.Y465H	ARHGAP5_uc001wrm.2_Missense_Mutation_p.Y465H|ARHGAP5_uc001wrn.2_Missense_Mutation_p.Y465H|ARHGAP5_uc001wro.2_Intron|ARHGAP5_uc001wrp.2_Intron	NM_001173	NP_001025226	Q13017	RHG05_HUMAN	Rho GTPase activating protein 5 isoform b	465	FF 3.				cell adhesion|Rho protein signal transduction	cytosol|membrane	GTP binding|GTPase activity|Rho GTPase activator activity|SH2 domain binding			ovary(4)|central_nervous_system(1)	5	Hepatocellular(127;0.0604)|Prostate(35;0.15)|Breast(36;0.186)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.00714)|BRCA - Breast invasive adenocarcinoma(188;0.0952)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.00566)		AGCCTACAAATATATCACTGA	0.378													16	104					0	0	0.006122	0	0		C	32561268	C	C	32561268	3	2	209	1	0	0	0	0	1	0	0	0	886	1406	49	3	1395	3	ARHGAP5	14	32561268	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2461203	32561268	74788272	839	101254											
AKAP6	9472	broad.mit.edu	37	chr14	33291546	33291546	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tattttgataaaaaatcatgCaaatctaaacatcagactac	19	12	3	7	0	3	2	2	1	1	1	3	2	3	2	0	0	3	1	0	0	8	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:33291546C>T	uc001wrq.2	+	13	4697	c.4527C>T	c.(4525-4527)TGC>TGT	p.C1509C		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1509					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		AAAAATCATGCAAATCTAAAC	0.368													13	68					0	0	0.001855	0	0		T	33291546	T	T	33291546	2	4	209	1	0	0	0	0	0	0	0	1	455	718	25	2		2	AKAP6	14	33291546	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	730278	33291546	74057994	840	101255											
NPAS3	64067	broad.mit.edu	37	chr14	34269096	34269096	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	taacccggacagccgcgacaGcgacgacagcttcgagcact	11	4	11	15	6	0	0	0	0	0	0	1	5	0	1	2	1	5	2	2	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:34269096G>A	uc001wru.2	+	12	1647	c.1583G>A	c.(1582-1584)AGC>AAC	p.S528N	NPAS3_uc001wrs.2_Missense_Mutation_p.S515N|NPAS3_uc001wrt.2_Missense_Mutation_p.S496N|NPAS3_uc001wrv.2_Missense_Mutation_p.S498N	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	528					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		AGCCGCGACAGCGACGACAGC	0.642													11	34					0	0	0.013537	0	0		A	34269096	A	A	34269096	3	1	209	1	0	0	0	0	1	0	0	0	10583	971	34	2	1684	2	NPAS3	14	34269096	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	977550	34269096	73080444	841	101256											
BAZ1A	11177	broad.mit.edu	37	chr14	35245412	35245412	+	Missense_Mutation	SNP	T	C	C	0	1	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	atacctgaggatcttgagacTgtacattattctgaaatgat	13	14	8	6	0	2	4	0	4	2	1	2	6	2	5	1	1	2	1	1	1	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:35245412T>C	uc001wsk.2	-	18	3114	c.2546A>G	c.(2545-2547)CAG>CGG	p.Q849R	BAZ1A_uc001wsl.2_Missense_Mutation_p.Q817R	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	849	Interaction with SMARCA5.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		ATCTTGAGACTGTACATTATT	0.423													14	91					0	0	0.003163	0	0		C	35245412	C	C	35245412	3	2	209	1	0	0	0	0	1	0	0	0	1330	1580	55	3	2164	3	BAZ1A	14	35245412	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	976316	35245412	72104128	842	101257											
RALGAPA1	253959	broad.mit.edu	37	chr14	36074845	36074845	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgcttgacttcctcctgtatTggtgagaatggagtgtttgt	6	17	12	6	0	0	2	0	2	0	1	2	4	2	3	2	2	1	3	2	2	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:36074845T>C	uc001wti.2	-	35	5873	c.5482A>G	c.(5482-5484)AAT>GAT	p.N1828D	RALGAPA1_uc010amp.2_RNA|RALGAPA1_uc001wtj.2_Missense_Mutation_p.N1828D|RALGAPA1_uc010tpv.1_Missense_Mutation_p.N1841D|RALGAPA1_uc010tpw.1_Missense_Mutation_p.N1875D	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	1828	Minimal domain that binds to TCF3/E12 (By similarity).|Rap-GAP.				activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						CCTCCTGTATTGGTGAGAATG	0.338													14	86					0	0	0.003163	0	0		C	36074845	C	C	36074845	3	2	209	1	0	0	0	0	1	0	0	0	13038	1812	63	3	805	3	RALGAPA1	14	36074845	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	829433	36074845	71274695	843	101258											
POLE2	5427	broad.mit.edu	37	chr14	50140860	50140860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctggtgcaaaatggtatatCgctcacgaaacatctctgct	11	11	8	11	2	2	0	1	0	1	0	4	1	2	0	1	2	3	4	1	2	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:50140860C>T	uc001wwu.2	-	5	412	c.398G>A	c.(397-399)CGA>CAA	p.R133Q	SDCCAG1_uc010anj.1_Intron|POLE2_uc001wwv.2_RNA	NM_002692	NP_002683	P56282	DPOE2_HUMAN	DNA-directed DNA polymerase epsilon 2	133					DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	DNA binding|DNA-directed DNA polymerase activity	p.R133Q(1)		ovary(1)|skin(1)	2	all_epithelial(31;0.0021)|Breast(41;0.0124)					AATGGTATATCGCTCACGAAA	0.423													67	220					0	0	0.01441	0	0		T	50140860	T	T	50140860	3	4	209	1	0	0	0	0	1	0	0	0	12216	884	31	1	1245	1	POLE2	14	50140860	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	14066015	50140860	57208680	844	101259											
NID2	22795	broad.mit.edu	37	chr14	52478332	52478332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accagcacggctgattgtccGtccagcaacatctgtccagt	9	9	9	14	2	1	1	0	1	1	0	4	1	4	1	4	1	3	3	4	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:52478332G>A	uc001wzo.2	-	17	3724	c.3490C>T	c.(3490-3492)CGG>TGG	p.R1164W	NID2_uc010tqs.1_Missense_Mutation_p.R1116W|NID2_uc010tqt.1_Missense_Mutation_p.R1164W	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	1164	LDL-receptor class B 1.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CTGATTGTCCGTCCAGCAACA	0.488													38	138					0	0	0.007835	0	0		A	52478332	A	A	52478332	3	1	209	1	0	0	0	0	1	0	0	0	10434	1144	40	1	661	1	NID2	14	52478332	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2337472	52478332	54871208	845	101260											
PPM1A	5494	broad.mit.edu	37	chr14	60758133	60758133	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggaatgttattgaagcCgtttacaatagactgaatcc	14	11	10	6	1	0	3	0	2	0	1	1	5	1	5	2	2	2	2	2	2	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:60758133C>T	uc010apn.2	+	6	1482	c.1080C>T	c.(1078-1080)GCC>GCT	p.A360A	PPM1A_uc001xew.3_Silent_p.A433A|PPM1A_uc001xey.3_Silent_p.A360A	NM_021003	NP_066283	P35813	PPM1A_HUMAN	protein phosphatase 1A isoform 1	360					cell cycle arrest|insulin receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway|protein dephosphorylation|Wnt receptor signaling pathway	cytosol|nucleus|protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein serine/threonine phosphatase activity|signal transducer activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.046)		TTATTGAAGCCGTTTACAATA	0.358													12	56					0	0	0.001855	0	0		T	60758133	T	T	60758133	2	4	209	1	0	0	0	0	0	0	0	1	12357	639	23	1		1	PPM1A	14	60758133	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	8279801	60758133	46591407	846	101261											
TMEM30B	161291	broad.mit.edu	37	chr14	61747056	61747056	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccggccgagtagttgccctgGcggatgcgcgcgtacagttt	5	9	15	12	6	0	0	0	0	0	0	0	2	0	1	3	3	3	4	3	3	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:61747056G>A	uc001xfl.2	-	1	1475	c.810C>T	c.(808-810)CGC>CGT	p.R270R	PRKCH_uc010tsa.1_Intron|TMEM30B_uc010apr.1_RNA	NM_001017970	NP_001017970	Q3MIR4	CC50B_HUMAN	transmembrane protein 30B	270						integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(108;0.107)|BRCA - Breast invasive adenocarcinoma(234;0.181)		AGTTGCCCTGGCGGATGCGCG	0.667													13	55					0	0	0.001855	0	0		A	61747056	A	A	61747056	2	1	209	1	0	0	0	0	0	0	0	1	16179	1190	42	2		2	TMEM30B	14	61747056	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	988923	61747056	45602484	847	101262											
SYNE2	23224	broad.mit.edu	37	chr14	64519599	64519599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcttaaagacagactcaccGctattaagtgttgcatctta	13	13	6	9	1	3	2	1	0	2	2	3	2	3	2	1	0	1	3	1	0	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:64519599G>A	uc001xgm.2	+	48	9198	c.8968G>A	c.(8968-8970)GCT>ACT	p.A2990T	SYNE2_uc001xgl.2_Missense_Mutation_p.A2990T	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2990	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CAGACTCACCGCTATTAAGTG	0.348													8	58					0	0	0.006214	0	0		A	64519599	A	A	64519599	3	1	209	1	0	0	0	0	1	0	0	0	15471	1087	38	1	9154	1	SYNE2	14	64519599	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2772543	64519599	42829941	848	101263											
AKAP5	9495	broad.mit.edu	37	chr14	64935359	64935359	+	Missense_Mutation	SNP	A	G	G	1	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	ggggggcctgggcctcactcAaacgtcttgtaacacgcagg	8	7	14	12	2	3	0	2	0	1	0	3	0	3	0	2	5	2	2	2	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:64935359A>G	uc001xhd.3	+	2	625	c.247A>G	c.(247-249)AAA>GAA	p.K83E	ZBTB25_uc001xhc.2_Intron	NM_004857	NP_004848	P24588	AKAP5_HUMAN	A-kinase anchor protein 5	83	Essential to the intracellular anchoring function (By similarity).|AKAP.				energy reserve metabolic process|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting|regulation of insulin secretion|signal transduction|synaptic transmission	cytosol	adenylate cyclase binding|calmodulin binding				0				all cancers(60;0.00749)|OV - Ovarian serous cystadenocarcinoma(108;0.0095)|BRCA - Breast invasive adenocarcinoma(234;0.0449)		GGCCTCACTCAAACGTCTTGT	0.522													11	114					0	0	0.010729	0	0		G	64935359	G	G	64935359	3	3	209	1	0	0	0	0	1	0	0	0	454	131	5	3	249	3	AKAP5	14	64935359	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	415760	64935359	42414181	849	101264											
RGS6	9628	broad.mit.edu	37	chr14	72818835	72818835	+	Silent	SNP	C	T	T	0	0	0	1	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	attacaaagatgcaagatgaCaagacagggggtgtgcccat	15	7	12	7	0	0	4	0	1	0	3	0	4	0	4	1	2	3	1	1	2	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:72818835C>T	uc001xna.3	+	3	640	c.117C>T	c.(115-117)GAC>GAT	p.D39D	RGS6_uc010ttn.1_Silent_p.D39D|RGS6_uc001xmx.3_Silent_p.D39D|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Silent_p.D39D	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	39					G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		TGCAAGATGACAAGACAGGGG	0.398													8	29					0	0	0.00308	0	0		T	72818835	T	T	72818835	2	4	209	1	0	0	0	0	0	0	0	1	13334	477	17	4		4	RGS6	14	72818835	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7883476	72818835	34530705	850	101265											
ACOT1	641371	broad.mit.edu	37	chr14	74009913	74009913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acaagggcgagaccctgcccCctgtgggcgtcaacagaaat	11	5	12	13	2	1	2	1	0	0	2	1	3	1	2	3	2	2	0	3	2	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:74009913C>T	uc001xol.1	+	3	1018	c.820C>T	c.(820-822)CCT>TCT	p.P274S	HEATR4_uc010tua.1_Intron|ACOT1_uc010tuc.1_Intron	NM_001037161	NP_001032238	Q86TX2	ACOT1_HUMAN	acyl-CoA thioesterase 1	274					acyl-CoA metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process	cytosol	carboxylesterase activity|palmitoyl-CoA hydrolase activity				0				OV - Ovarian serous cystadenocarcinoma(108;1.37e-45)|BRCA - Breast invasive adenocarcinoma(234;0.0033)		GACCCTGCCCCCTGTGGGCGT	0.557													6	119					0	0	0.00308	0	0		T	74009913	T	T	74009913	3	4	209	1	0	0	0	0	1	0	0	0	148	623	22	4	830	4	ACOT1	14	74009913	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1191078	74009913	33339627	851	101266											
C14orf43	91748	broad.mit.edu	37	chr14	74205578	74205578	+	Missense_Mutation	SNP	A	C	C	1	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	ggctgctgcaggggccagtgAtgtaggaacaggttgccagt	8	8	17	8	0	0	1	0	1	0	0	0	2	0	2	2	5	4	5	2	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:74205578A>C	uc001xot.2	-	2	1917	c.1134T>G	c.(1132-1134)CAT>CAG	p.H378Q	C14orf43_uc001xou.2_Missense_Mutation_p.H378Q|C14orf43_uc010tud.1_Missense_Mutation_p.H378Q|C14orf43_uc010arw.2_RNA	NM_194278	NP_919254	Q6PJG2	CN043_HUMAN	hypothetical protein LOC91748	378	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(4)|central_nervous_system(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00358)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)|OV - Ovarian serous cystadenocarcinoma(108;0.115)		GGGGCCAGTGATGTAGGAACA	0.682													10	35					0	0	0.006214	0	0		C	74205578	C	C	74205578	3	2	209	1	0	0	0	0	1	0	0	0	1777	330	12	5	2047	5	C14orf43	14	74205578	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	195665	74205578	33143962	852	101267											
ALDH6A1	4329	broad.mit.edu	37	chr14	74534179	74534179	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttgaaagagccatgcagcGctgaccagcagctccaaatg	12	7	11	11	1	0	3	0	2	0	1	1	3	1	3	3	0	5	5	3	0	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:74534179G>A	uc001xpo.2	-	8	1045	c.946C>T	c.(946-948)CGC>TGC	p.R316C	C14orf45_uc001xpm.1_Intron|ALDH6A1_uc010asa.2_Missense_Mutation_p.R161C|ALDH6A1_uc010tuq.1_Missense_Mutation_p.R303C	NM_005589	NP_005580	Q02252	MMSA_HUMAN	aldehyde dehydrogenase 6A1 precursor	316						mitochondrial matrix|nucleus	fatty-acyl-CoA binding|malonate-semialdehyde dehydrogenase (acetylating) activity|methylmalonate-semialdehyde dehydrogenase (acylating) activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00354)	NADH(DB00157)	GCCATGCAGCGCTGACCAGCA	0.522													28	62					0	0	0.004656	0	0		A	74534179	A	A	74534179	3	1	209	1	0	0	0	0	1	0	0	0	503	1087	38	1	681	1	ALDH6A1	14	74534179	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	328601	74534179	32815361	853	101268											
MLH3	27030	broad.mit.edu	37	chr14	75513915	75513915	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttgctggttgacaactactaTctgaatcactatgctccata	11	14	6	10	0	2	2	1	2	1	0	3	2	3	2	1	1	4	3	1	1	6	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:75513915T>C	uc001xrd.1	-	2	2660	c.2444A>G	c.(2443-2445)GAT>GGT	p.D815G	MLH3_uc001xre.1_Missense_Mutation_p.D815G|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	815					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		ACAACTACTATCTGAATCACT	0.403								MMR					8	127					0	0	0.004482	0	0		C	75513915	C	C	75513915	3	2	209	1	0	0	0	0	1	0	0	0	9636	1435	50	3	1965	3	MLH3	14	75513915	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	979736	75513915	31835625	854	101269											
TGFB3	7043	broad.mit.edu	37	chr14	76429726	76429726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcccgggttgtcgagccGgtgtgggggaatcatcatga	6	9	17	9	3	2	1	2	1	0	0	3	3	2	2	2	5	1	1	2	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:76429726G>A	uc001xsc.2	-	5	1715	c.859C>T	c.(859-861)CGG>TGG	p.R287W	TGFB3_uc001xsd.2_Missense_Mutation_p.R285W	NM_003239	NP_003230	P10600	TGFB3_HUMAN	transforming growth factor, beta 3 precursor	287					cell growth|cell-cell junction organization|detection of hypoxia|face morphogenesis|in utero embryonic development|induction of apoptosis|lung alveolus development|mammary gland development|menstrual cycle phase|negative regulation of cell proliferation|negative regulation of DNA replication|negative regulation of macrophage cytokine production|negative regulation of neuron apoptosis|odontogenesis|ossification involved in bone remodeling|palate development|platelet activation|platelet degranulation|positive regulation of bone mineralization|positive regulation of cell division|positive regulation of collagen biosynthetic process|positive regulation of DNA replication|positive regulation of epithelial to mesenchymal transition|positive regulation of filopodium assembly|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of protein secretion|positive regulation of SMAD protein import into nucleus|positive regulation of transcription from RNA polymerase II promoter|response to progesterone stimulus|salivary gland morphogenesis|transforming growth factor beta receptor signaling pathway	extracellular matrix|platelet alpha granule lumen	growth factor activity|identical protein binding|transforming growth factor beta binding|type I transforming growth factor beta receptor binding|type II transforming growth factor beta receptor binding			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.0169)		TTGTCGAGCCGGTGTGGGGGA	0.572													23	74					0	0	0.00278	0	0		A	76429726	A	A	76429726	3	1	209	1	0	0	0	0	1	0	0	0	15844	1115	39	1	391	1	TGFB3	14	76429726	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	915811	76429726	30919814	855	101270											
C14orf4	64207	broad.mit.edu	37	chr14	77492017	77492017	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaggggtccgctgttggccaTgggggaatccggaatgtttt	6	11	17	7	2	0	0	0	0	0	0	2	3	2	2	3	6	0	3	3	6	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:77492017T>C	uc001xsy.2	-	1	3018	c.2119A>G	c.(2119-2121)ATG>GTG	p.M707V		NM_024496	NP_078772	Q9H1B7	I2BPL_HUMAN	chromosome 14 open reading frame 4	707						nucleus					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.00347)|KIRC - Kidney renal clear cell carcinoma(182;0.0878)		CTGTTGGCCATGGGGGAATCC	0.592													8	38					0	0	0.004482	0	0		C	77492017	C	C	77492017	3	2	209	1	0	0	0	0	1	0	0	0	1776	1464	51	3	275	3	C14orf4	14	77492017	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1062291	77492017	29857523	856	101271											
TMEM63C	57156	broad.mit.edu	37	chr14	77712359	77712359	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tagtcattctgccctctatgGgactgaccaggtacctcact	8	12	8	13	0	4	1	2	1	2	0	4	2	4	2	3	2	2	1	3	2	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:77712359G>T	uc001xtf.2	+	17	1737	c.1525G>T	c.(1525-1527)GGA>TGA	p.G509*	TMEM63C_uc010asq.1_Nonsense_Mutation_p.G509*	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	509	Helical; (Potential).					integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		GCCCTCTATGGGACTGACCAG	0.453													10	98					6.40141e-05	6.75472e-05	0.010729	1	0		T	77712359	T	T	77712359	4	4	209	1	0	0	0	0	0	1	0	0	16217	1233	43	5	1583	5	TMEM63C	14	77712359	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	220342	77712359	29637181	857	101272											
TMEM63C	57156	broad.mit.edu	37	chr14	77715752	77715752	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctcccaggccatctttgcGccactcttgggtctgttctg	3	14	10	14	1	5	0	0	0	5	0	6	0	5	0	3	2	1	1	3	2	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:77715752G>A	uc001xtf.2	+	21	2201	c.1989G>A	c.(1987-1989)GCG>GCA	p.A663A	TMEM63C_uc010asq.1_Silent_p.A663A	NM_020431	NP_065164	Q9P1W3	TM63C_HUMAN	transmembrane protein 63C	663	Helical; (Potential).					integral to membrane					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0342)		CCATCTTTGCGCCACTCTTGG	0.557													20	54					0	0	0.008871	0	0		A	77715752	A	A	77715752	2	1	209	1	0	0	0	0	0	0	0	1	16217	1074	38	1		1	TMEM63C	14	77715752	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3393	77715752	29633788	858	101273											
NRXN3	9369	broad.mit.edu	37	chr14	80328022	80328022	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagcaaaccccacggagccGggaatcagacgggttccggg	11	3	14	13	4	1	1	1	0	0	1	2	3	2	3	4	4	3	2	4	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:80328022G>T	uc001xun.2	+	17	3392	c.2901G>T	c.(2899-2901)CCG>CCT	p.P967P	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Silent_p.P543P|NRXN3_uc010asw.2_Silent_p.P365P|NRXN3_uc001xur.3_Silent_p.P338P	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1549	Extracellular (Potential).				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CCACGGAGCCGGGAATCAGAC	0.597													10	41					1.08611e-07	1.18034e-07	0.010729	1	0		T	80328022	T	T	80328022	2	4	209	1	0	0	0	0	0	0	0	1	10686	1103	39	5		5	NRXN3	14	80328022	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2612270	80328022	27021518	859	101274											
BTBD7	55727	broad.mit.edu	37	chr14	93723553	93723553	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acacttactgcatcacttaaGacttcactgtttataggtaa	13	14	5	9	0	2	1	2	0	0	1	2	1	2	1	0	1	2	3	0	1	5	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:93723553G>A	uc001ybo.2	-	6	1922	c.1596C>T	c.(1594-1596)GTC>GTT	p.V532V	BTBD7_uc010aur.2_Silent_p.V57V|BTBD7_uc010two.1_Silent_p.V352V|BTBD7_uc001ybp.2_Silent_p.V181V|BTBD7_uc001ybq.3_Silent_p.V447V	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	532										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		CATCACTTAAGACTTCACTGT	0.353													13	59					0	0	0.001855	0	0		A	93723553	A	A	93723553	2	1	209	1	0	0	0	0	0	0	0	1	1549	929	33	4		4	BTBD7	14	93723553	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	13395531	93723553	13625987	860	101275											
KIAA1409	57578	broad.mit.edu	37	chr14	94007040	94007040	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgagttccatgctgagcagCgagaacatgagctgaaccgg	11	6	13	11	3	0	4	0	3	0	1	1	6	1	4	3	1	6	4	3	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:94007040C>T	uc001ybv.1	+	10	939	c.856C>T	c.(856-858)CGA>TGA	p.R286*	KIAA1409_uc001ybs.1_Nonsense_Mutation_p.R286*|KIAA1409_uc001ybu.1_Nonsense_Mutation_p.R224*	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	463						integral to membrane				ovary(10)|skin(4)|large_intestine(3)	17		all_cancers(154;0.0354)|all_epithelial(191;0.216)		Epithelial(152;0.188)		TGCTGAGCAGCGAGAACATGA	0.483													6	98					0	0	0.001984	0	0		T	94007040	T	T	94007040	4	4	209	1	0	0	0	0	0	1	0	0	8246	760	27	1	894	1	KIAA1409	14	94007040	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	283487	94007040	13342500	861	101276											
SERPINA4	5267	broad.mit.edu	37	chr14	95033573	95033573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaggtggaacaacttgttgCggaagaggtaatcagtgtgc	11	10	15	5	1	1	2	1	1	0	1	1	4	1	4	0	4	4	2	0	4	4	3	rs143608450	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:95033573C>T	uc001ydk.2	+	3	982	c.916C>T	c.(916-918)CGG>TGG	p.R306W	SERPINA4_uc010avd.2_Missense_Mutation_p.R343W|SERPINA4_uc001ydl.2_Missense_Mutation_p.R306W	NM_006215	NP_006206	P29622	KAIN_HUMAN	serine (or cysteine) proteinase inhibitor, clade	306					regulation of proteolysis	extracellular space	serine-type endopeptidase inhibitor activity			ovary(3)|skin(1)	4				COAD - Colon adenocarcinoma(157;0.211)		CAACTTGTTGCGGAAGAGGTA	0.433													15	59					0	0	0.004007	0	0		T	95033573	T	T	95033573	3	4	209	1	0	0	0	0	1	0	0	0	14116	759	27	1	922	1	SERPINA4	14	95033573	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1026533	95033573	12315967	862	101277											
KLC1	3831	broad.mit.edu	37	chr14	104145810	104145810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggagccgtgagagcctcaaCgtggacgtggtcaagtacga	11	6	15	9	4	2	1	2	1	0	1	2	5	2	3	2	3	4	1	2	3	3	1	rs149675489		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:104145810C>T	uc001yno.2	+	13	1886	c.1578C>T	c.(1576-1578)AAC>AAT	p.N526N	KLC1_uc010tyd.1_Silent_p.N685N|KLC1_uc010tye.1_Silent_p.N547N|KLC1_uc001ynm.1_Silent_p.N526N|KLC1_uc001ynn.1_Silent_p.N520N|KLC1_uc010tyf.1_Silent_p.N526N|KLC1_uc001ynp.1_RNA|KLC1_uc001ynr.1_Silent_p.N36N|KLC1_uc010awu.1_RNA|KLC1_uc001ynq.1_Silent_p.N36N|KLC1_uc001yns.2_RNA	NM_182923	NP_891553	Q07866	KLC1_HUMAN	kinesin light chain 1 isoform 2	526					blood coagulation|microtubule-based movement|stress granule disassembly	cytosol|kinesin complex|microtubule	microtubule motor activity|protein binding				0		Melanoma(154;0.155)|all_epithelial(191;0.19)				AGAGCCTCAACGTGGACGTGG	0.567													9	107					0	0	0.006214	0	0		T	104145810	T	T	104145810	2	4	209	1	0	0	0	0	0	0	0	1	8349	535	19	1		1	KLC1	14	104145810	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	9112237	104145810	3203730	863	101278											
XRCC3	7517	broad.mit.edu	37	chr14	104165791	104165791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatgcctggccctgggggcGgaggcctggctgtcaaattc	6	8	16	11	1	1	1	1	0	0	1	2	2	1	2	3	6	1	1	3	6	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:104165791G>A	uc001yny.3	-	8	1064	c.684C>T	c.(682-684)TCC>TCT	p.S228S	KLC1_uc010tyf.1_Intron|KLC1_uc001yno.2_Intron|KLC1_uc001yns.2_Intron|XRCC3_uc001ynx.3_Silent_p.S228S|XRCC3_uc001ynz.3_Silent_p.S228S|XRCC3_uc001yoa.3_Silent_p.S228S	NM_005432	NP_005423	O43542	XRCC3_HUMAN	X-ray repair cross complementing protein 3	228					DNA recombination|DNA repair	mitochondrion|nucleus|perinuclear region of cytoplasm	ATP binding|DNA binding|DNA-dependent ATPase activity				0		Melanoma(154;0.155)|all_epithelial(191;0.19)		Epithelial(152;0.239)		CCCTGGGGGCGGAGGCCTGGC	0.642								Direct_reversal_of_damage|Homologous_recombination					12	46					0	0	0.013537	0	0		A	104165791	A	A	104165791	2	1	209	1	0	0	0	0	0	0	0	1	17480	1103	39	1		1	XRCC3	14	104165791	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	19981	104165791	3183749	864	101279											
AHNAK2	113146	broad.mit.edu	37	chr14	105407964	105407964	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacaggtccccctcaagccgCgcaccatccagcatggatcc	9	5	9	18	2	1	0	1	0	0	0	4	2	4	1	6	2	2	2	6	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:105407964C>T	uc010axc.1	-	7	13944	c.13824G>A	c.(13822-13824)GCG>GCA	p.A4608A	AHNAK2_uc001ypx.2_Silent_p.A4508A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4608						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCTCAAGCCGCGCACCATCCA	0.587													5	110					0	0	0.001168	0	0		T	105407964	T	T	105407964	2	4	209	1	0	0	0	0	0	0	0	1	415	755	27	1		1	AHNAK2	14	105407964	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1242173	105407964	1941576	865	101280											
AHNAK2	113146	broad.mit.edu	37	chr14	105410343	105410343	+	Silent	SNP	C	T	T	0	0	0	1	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	atggacttgcctggggcagaCaccccaaatgacggcatctt	10	8	11	12	1	1	2	0	1	1	1	1	3	1	3	3	4	1	2	3	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:105410343C>T	uc010axc.1	-	7	11565	c.11445G>A	c.(11443-11445)GTG>GTA	p.V3815V	AHNAK2_uc001ypx.2_Silent_p.V3715V	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3815						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CTGGGGCAGACACCCCAAATG	0.587													24	345					0	0	0.003954	0	0		T	105410343	T	T	105410343	2	4	209	1	0	0	0	0	0	0	0	1	415	465	17	4		4	AHNAK2	14	105410343	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2379	105410343	1939197	866	101281											
JAG2	3714	broad.mit.edu	37	chr14	105618041	105618041	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcatggcaagagccccCgttggcacacgggttggagg	8	6	14	13	2	1	1	1	0	0	1	1	2	1	2	3	5	1	4	3	5	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:105618041C>T	uc001yqg.2	-	8	1479	c.1075G>A	c.(1075-1077)GGG>AGG	p.G359R	JAG2_uc001yqf.2_5'Flank|JAG2_uc001yqh.2_Missense_Mutation_p.G359R	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	359	EGF-like 4.|Extracellular (Potential).				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		CAAGAGCCCCCGTTGGCACAC	0.667													4	12					0	0	0.009096	0	0		T	105618041	T	T	105618041	3	4	209	1	0	0	0	0	1	0	0	0	7951	652	23	1	2717	1	JAG2	14	105618041	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	207698	105618041	1731499	867	101282											
BRF1	2972	broad.mit.edu	37	chr14	105683991	105683991	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgtgcatcctccctgtgCggactgcccccgccggcgct	2	8	13	18	4	0	0	0	0	0	0	2	1	2	1	5	3	3	3	5	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr14:105683991C>T	uc001yqp.2	-	15	2025	c.1662G>A	c.(1660-1662)CCG>CCA	p.P554P	BRF1_uc010tyo.1_Silent_p.P439P|BRF1_uc010typ.1_Silent_p.P461P|BRF1_uc001yqk.2_Silent_p.P80P|BRF1_uc001yql.2_Silent_p.P350P|BRF1_uc001yqo.2_Silent_p.P316P|BRF1_uc010axg.1_Silent_p.P527P|BRF1_uc001yqn.2_Intron|BRF1_uc010axh.1_Intron|BRF1_uc010axi.1_Silent_p.P80P	NM_001519	NP_001510	Q92994	TF3B_HUMAN	transcription initiation factor IIIB isoform 1	554					positive regulation of transcription, DNA-dependent|rRNA transcription|transcription initiation from RNA polymerase III promoter|tRNA transcription	transcription factor TFIIIB complex	translation initiation factor activity|zinc ion binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		all_cancers(154;0.0231)|all_epithelial(191;0.0694)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00753)|all cancers(16;0.00925)|Epithelial(46;0.0221)	Epithelial(152;0.14)		CCTCCCTGTGCGGACTGCCCC	0.637													15	35					0	0	0.00245	0	0		T	105683991	T	T	105683991	2	4	209	1	0	0	0	0	0	0	0	1	1513	755	27	1		1	BRF1	14	105683991	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	65950	105683991	1665549	868	101283											
MKRN3	7681	broad.mit.edu	37	chr15	23812238	23812238	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcctgggccaggtggtgggTcattcagcgcatactggcat	6	10	14	11	1	2	0	2	0	0	0	3	0	3	0	2	5	2	2	2	5	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:23812238T>C	uc001ywh.3	+	1	1785	c.1309T>C	c.(1309-1311)TCA>CCA	p.S437P	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Intron	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	437						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGGTGGTGGGTCATTCAGCGC	0.537													16	65					0	0	0.004007	0	0		C	23812238	C	C	23812238	3	2	209	1	0	0	0	0	1	0	0	0	9626	1667	58	3	1311	3	MKRN3	15	23812238	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08		23812238	78719154	869	101284											
RYR3	6263	broad.mit.edu	37	chr15	33928729	33928729	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaaggctctgaacttgccttCgctgactacgagattgagaa	12	10	10	9	2	1	4	0	3	1	2	2	6	1	4	1	1	3	2	1	1	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:33928729C>T	uc001zhi.2	+	27	3604	c.3534C>T	c.(3532-3534)TTC>TTT	p.F1178F	RYR3_uc010bar.2_Silent_p.F1178F	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	1178	B30.2/SPRY 2.|Cytoplasmic (By similarity).|4 X approximate repeats.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AACTTGCCTTCGCTGACTACG	0.493													8	98					0	0	0.004482	0	0		T	33928729	T	T	33928729	2	4	209	1	0	0	0	0	0	0	0	1	13795	883	31	1		1	RYR3	15	33928729	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10116491	33928729	68602663	870	101285											
SPRED1	161742	broad.mit.edu	37	chr15	38632012	38632012	+	Silent	SNP	G	A	A	0	0	1	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	gagacagttgttaccagtgaGccttatagaagctcaaatat	14	11	9	7	0	1	3	1	1	0	2	1	4	1	3	2	0	3	3	2	0	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:38632012G>A	uc001zka.3	+	5	833	c.498G>A	c.(496-498)GAG>GAA	p.E166E		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	166					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		TTACCAGTGAGCCTTATAGAA	0.403									Legius_syndrome				16	39					0	0	0.004007	0	0		A	38632012	A	A	38632012	2	1	209	1	0	0	0	0	0	0	0	1	15117	962	34	2		2	SPRED1	15	38632012	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4703283	38632012	63899380	871	101286											
C15orf54	400360	broad.mit.edu	37	chr15	39544753	39544753	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttcaacaaagcgtgtgtgCactatattggctgactcttg	10	13	10	8	1	2	1	1	1	1	0	2	1	2	1	0	1	3	3	0	1	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:39544753C>T	uc001zkg.2	+	2	785	c.417C>T	c.(415-417)TGC>TGT	p.C139C		NM_207445	NP_997328	Q8N8G6	CO054_HUMAN	hypothetical protein LOC400360	139											0		all_cancers(109;5.39e-14)|all_epithelial(112;3.14e-12)|Lung NSC(122;9.74e-10)|all_lung(180;2.23e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)		GBM - Glioblastoma multiforme(113;1.19e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0706)		AGCGTGTGTGCACTATATTGG	0.473													15	123					0	0	0.003163	0	0		T	39544753	T	T	39544753	2	4	209	1	0	0	0	0	0	0	0	1	1805	718	25	2		2	C15orf54	15	39544753	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	912741	39544753	62986639	872	101287											
THBS1	7057	broad.mit.edu	37	chr15	39885727	39885727	+	Missense_Mutation	SNP	A	G	G	1	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	ttatgttgtgatgtggaagcAagtcacccagtcctactggg	9	12	12	8	0	1	1	1	1	0	0	2	2	2	2	2	2	2	2	2	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:39885727A>G	uc001zkh.2	+	19	3304	c.3125A>G	c.(3124-3126)CAA>CGA	p.Q1042R	THBS1_uc010bbi.2_Missense_Mutation_p.Q514R	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	1042	TSP C-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	ATGTGGAAGCAAGTCACCCAG	0.537													15	141					0	0	0.00245	0	0		G	39885727	G	G	39885727	3	3	209	1	0	0	0	0	1	0	0	0	15878	130	5	3	3195	3	THBS1	15	39885727	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	340974	39885727	62645665	873	101288											
EIF2AK4	440275	broad.mit.edu	37	chr15	40318214	40318214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaaggcagacagagaagCgtgtgctggagactgaactt	14	6	15	6	1	0	4	0	1	0	3	0	7	0	5	0	3	3	2	0	3	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:40318214C>T	uc001zkm.1	+	33	4476	c.4426C>T	c.(4426-4428)CGT>TGT	p.R1476C	EIF2AK4_uc010bbj.1_Missense_Mutation_p.R1177C|EIF2AK4_uc001zkn.1_Missense_Mutation_p.R576C|EIF2AK4_uc001zko.1_Missense_Mutation_p.R357C|EIF2AK4_uc010bbk.1_Intron	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	1476	Histidyl-tRNA synthetase-like.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GACAGAGAAGCGTGTGCTGGA	0.443													7	60					0	0	0.001984	0	0		T	40318214	T	T	40318214	3	4	209	1	0	0	0	0	1	0	0	0	5005	768	27	1	4556	1	EIF2AK4	15	40318214	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	432487	40318214	62213178	874	101289											
RPUSD2	27079	broad.mit.edu	37	chr15	40865952	40865952	+	Missense_Mutation	SNP	A	G	G	1	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	ccagattcgagtccaccttcAgttcttgggccatcccattc	7	12	7	15	1	2	1	1	0	1	1	6	2	4	1	5	1	0	1	5	1	0	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:40865952A>G	uc001zmd.1	+	3	1130	c.1130A>G	c.(1129-1131)CAG>CGG	p.Q377R		NM_152260	NP_689473	Q8IZ73	RUSD2_HUMAN	RNA pseudouridylate synthase domain containing	377					pseudouridine synthesis		protein binding|pseudouridine synthase activity|RNA binding			skin(1)	1		all_cancers(109;2.74e-14)|all_epithelial(112;1.64e-11)|Lung NSC(122;6.69e-09)|all_lung(180;1.22e-07)|Melanoma(134;0.091)|Colorectal(260;0.175)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.1e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0786)		GTCCACCTTCAGTTCTTGGGC	0.577													10	51					0	0	0.006214	0	0		G	40865952	G	G	40865952	3	3	209	1	0	0	0	0	1	0	0	0	13692	188	7	3	1140	3	RPUSD2	15	40865952	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	547738	40865952	61665440	875	101290											
VPS18	57617	broad.mit.edu	37	chr15	41188187	41188187	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccatcttcacaaagcagcGcattgacttcaccccttccg	9	9	6	17	2	3	1	2	1	1	0	4	1	4	1	4	0	2	2	4	0	1	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:41188187G>A	uc001zne.2	+	2	482	c.143G>A	c.(142-144)CGC>CAC	p.R48H		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	48					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		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)		ACAAAGCAGCGCATTGACTTC	0.507													17	159					0	0	0.004007	0	0		A	41188187	A	A	41188187	3	1	209	1	0	0	0	0	1	0	0	0	17220	1087	38	1	149	1	VPS18	15	41188187	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	322235	41188187	61343205	876	101291											
SPTBN5	51332	broad.mit.edu	37	chr15	42151169	42151169	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcccggcttgcctgaagagCgcctccttcctgccaggagg	5	8	13	15	2	0	2	0	1	0	1	3	3	3	3	6	3	3	1	6	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:42151169C>T	uc001zos.2	-	48	8226	c.7893G>A	c.(7891-7893)GCG>GCA	p.A2631A		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	2666	Spectrin 23.				actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		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)		GCCTGAAGAGCGCCTCCTTCC	0.677													3	8					0	0	0.004672	0	0		T	42151169	T	T	42151169	2	4	209	1	0	0	0	0	0	0	0	1	15147	755	27	1		1	SPTBN5	15	42151169	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	962982	42151169	60380223	877	101292											
GANC	2595	broad.mit.edu	37	chr15	42602614	42602614	+	Missense_Mutation	SNP	A	G	G	1	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	ctataggtattttctggctgAatgcctcggaaacactggtg	9	13	11	8	1	1	1	0	1	1	0	2	2	1	2	1	4	2	2	1	4	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:42602614A>G	uc001zpi.2	+	9	1170	c.856A>G	c.(856-858)AAT>GAT	p.N286D	GANC_uc001zph.2_Missense_Mutation_p.N286D|GANC_uc001zpj.1_Missense_Mutation_p.N25D	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	286					carbohydrate metabolic process		carbohydrate binding|maltose alpha-glucosidase activity			central_nervous_system(2)	2		all_cancers(109;3.08e-16)|all_epithelial(112;7.48e-15)|Lung NSC(122;3.08e-09)|all_lung(180;1.48e-08)|Melanoma(134;0.0574)|Colorectal(260;0.153)		GBM - Glioblastoma multiforme(94;1.06e-06)		TTTCTGGCTGAATGCCTCGGA	0.408													8	41					0	0	0.00308	0	0		G	42602614	G	G	42602614	3	3	209	1	0	0	0	0	1	0	0	0	6249	246	9	3	890	3	GANC	15	42602614	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	451445	42602614	59928778	878	101293											
ADAL	161823	broad.mit.edu	37	chr15	43627977	43627977	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagccagatcttaaaatccaCgatcagatgactgtgattga	15	10	8	8	1	2	5	1	3	1	2	3	6	3	5	2	0	1	0	2	0	3	2	rs146713520		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:43627977C>T	uc010udo.1	+	5	721	c.147C>T	c.(145-147)CAC>CAT	p.H49H	ADAL_uc001zrh.2_Silent_p.H49H	NM_001159280	NP_001152752	Q6DHV7	ADAL_HUMAN	adenosine deaminase-like isoform 1	49					adenosine catabolic process|inosine biosynthetic process|purine ribonucleoside monophosphate biosynthetic process		adenosine deaminase activity|metal ion binding				0		all_cancers(109;7.96e-11)|all_epithelial(112;2.96e-09)|Lung NSC(122;8.91e-07)|all_lung(180;8.8e-06)|Melanoma(134;0.0728)		GBM - Glioblastoma multiforme(94;9.31e-07)		TTAAAATCCACGATCAGATGA	0.393													17	93					0	0	0.004007	0	0		T	43627977	T	T	43627977	2	4	209	1	0	0	0	0	0	0	0	1	233	535	19	1		1	ADAL	15	43627977	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1025363	43627977	58903415	879	101294											
ZSCAN29	146050	broad.mit.edu	37	chr15	43654005	43654005	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcttcctgatctacagtcacTctcattgcctttaccctgat	7	16	4	14	0	4	2	2	2	3	0	6	2	5	2	3	0	3	0	3	0	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:43654005T>G	uc001zrk.1	-	5	1972	c.1825A>C	c.(1825-1827)AGT>CGT	p.S609R	ZSCAN29_uc001zrj.1_Missense_Mutation_p.S489R|ZSCAN29_uc010bdf.1_Missense_Mutation_p.R537S|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Missense_Mutation_p.S219R	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	609					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		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;8.97e-07)		CTACAGTCACTCTCATTGCCT	0.443													13	156					0	0	0.00245	0	0		G	43654005	G	G	43654005	3	3	209	1	0	0	0	0	1	0	0	0	18261	1551	54	5	737	5	ZSCAN29	15	43654005	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	26028	43654005	58877387	880	101295											
WDR76	79968	broad.mit.edu	37	chr15	44143344	44143344	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccatagtcagccagttagCtgtctttacttctcacccgc	7	12	6	16	1	3	0	2	0	2	0	4	0	3	0	4	0	3	2	4	0	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:44143344C>T	uc001zti.1	+	9	1115	c.1092C>T	c.(1090-1092)AGC>AGT	p.S364S		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	364	WD 2.										0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		AGCCAGTTAGCTGTCTTTACT	0.473													35	115					0	0	0.004878	0	0		T	44143344	T	T	44143344	2	4	209	1	0	0	0	0	0	0	0	1	17352	796	28	2		2	WDR76	15	44143344	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	489339	44143344	58388048	881	101296											
C15orf43	145645	broad.mit.edu	37	chr15	45250696	45250696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatttcattcttcctcctgCgtgcctgcaaaaaggttagc	8	14	7	12	1	3	0	2	0	1	0	5	0	5	0	3	1	4	2	3	1	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:45250696C>T	uc001zuk.2	+	3	289	c.272C>T	c.(271-273)GCG>GTG	p.A91V		NM_152448	NP_689661	Q8NHR7	CO043_HUMAN	hypothetical protein LOC145645	91											0		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)		CTTCCTCCTGCGTGCCTGCAA	0.413													5	16					0	0	0.000602	0	0		T	45250696	T	T	45250696	3	4	209	1	0	0	0	0	1	0	0	0	1800	768	27	1	282	1	C15orf43	15	45250696	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1107352	45250696	57280696	882	101297											
DUOX1	53905	broad.mit.edu	37	chr15	45444607	45444607	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcttgctcaccatgtgccGcaacctcatcaccttcctgc	7	11	5	18	1	4	0	3	0	1	0	5	0	5	0	5	0	4	2	5	0	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:45444607G>A	uc001zus.1	+	26	3663	c.3317G>A	c.(3316-3318)CGC>CAC	p.R1106H	DUOX1_uc001zut.1_Missense_Mutation_p.R1106H|DUOX1_uc010bee.1_Missense_Mutation_p.R486H|DUOX1_uc001zuu.2_Missense_Mutation_p.R248H	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1106	Ferric oxidoreductase.|Interaction with TXNDC11 (By similarity).|Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		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)		ACCATGTGCCGCAACCTCATC	0.597													10	67					0	0	0.006214	0	0		A	45444607	A	A	45444607	3	1	209	1	0	0	0	0	1	0	0	0	4806	1087	38	1	3411	1	DUOX1	15	45444607	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	193911	45444607	57086785	883	101298											
SECISBP2L	9728	broad.mit.edu	37	chr15	49327620	49327620	+	Missense_Mutation	SNP	A	G	G	1	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	ctgacttggacgctcagtgcAttctgtggtgatagcattta	8	14	11	8	1	2	2	1	2	1	0	2	3	2	3	0	2	2	3	0	2	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:49327620A>G	uc001zxe.1	-	3	573	c.439T>C	c.(439-441)TGC>CGC	p.C147R	SECISBP2L_uc001zxd.1_Missense_Mutation_p.C147R|SECISBP2L_uc010bep.1_5'UTR|SECISBP2L_uc010beq.1_Missense_Mutation_p.C147R	NM_014701	NP_055516	Q93073	SBP2L_HUMAN	SECIS binding protein 2-like	147										breast(1)|skin(1)	2						CGCTCAGTGCATTCTGTGGTG	0.473													31	96					0	0	0.009535	0	0		G	49327620	G	G	49327620	3	3	209	1	0	0	0	0	1	0	0	0	14032	217	8	3	2791	3	SECISBP2L	15	49327620	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	3883013	49327620	53203772	884	101299											
ATP8B4	79895	broad.mit.edu	37	chr15	50168644	50168644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acacgcaaatgaaaaatttaCgcttgttaaaaagcagattc	18	10	6	7	2	0	2	0	1	0	1	1	2	0	2	0	0	2	4	0	0	7	5	rs139968118	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:50168644C>T	uc001zxu.2	-	25	3000	c.2858G>A	c.(2857-2859)CGT>CAT	p.R953H	ATP8B4_uc010ber.2_Missense_Mutation_p.R826H|ATP8B4_uc010ufd.1_Missense_Mutation_p.R763H|ATP8B4_uc010ufe.1_RNA|ATP8B4_uc001zxt.2_5'UTR	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	953	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		GAAAAATTTACGCTTGTTAAA	0.448													14	68					0	0	0.00245	0	0		T	50168644	T	T	50168644	3	4	209	1	0	0	0	0	1	0	0	0	1198	536	19	1	736	1	ATP8B4	15	50168644	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	841024	50168644	52362748	885	101300											
AP4E1	23431	broad.mit.edu	37	chr15	51217295	51217295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttgcttaatgttgtgccagGatctgcagagcactaaccta	10	13	9	9	0	1	1	0	0	1	1	1	2	1	2	2	1	5	4	2	1	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:51217295G>A	uc001zyx.1	+	5	451	c.421G>A	c.(421-423)GAT>AAT	p.D141N	AP4E1_uc010ufi.1_Missense_Mutation_p.D141N|AP4E1_uc010ufj.1_RNA|AP4E1_uc010ufk.1_RNA	NM_007347	NP_031373	Q9UPM8	AP4E1_HUMAN	adaptor-related protein complex 4, epsilon 1	141					intracellular protein transport|vesicle-mediated transport	COPI vesicle coat	binding|structural molecule activity				0				all cancers(107;0.000893)|GBM - Glioblastoma multiforme(94;0.00364)		GTTGTGCCAGGATCTGCAGAG	0.378													10	50					0	0	0.006214	0	0		A	51217295	A	A	51217295	3	1	209	1	0	0	0	0	1	0	0	0	752	1188	41	4	439	4	AP4E1	15	51217295	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1048651	51217295	51314097	886	101301											
UNC13C	440279	broad.mit.edu	37	chr15	54306982	54306982	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacagaaactgtggatagtGgaatgagtaatggcatggtg	14	9	14	4	0	0	2	0	1	0	1	0	4	0	4	0	4	1	2	0	4	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:54306982G>T	uc002ack.2	+	1	1882	c.1882G>T	c.(1882-1884)GGA>TGA	p.G628*		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	628					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TGTGGATAGTGGAATGAGTAA	0.468													11	84					4.68919e-08	5.10366e-08	0.008291	1	0		T	54306982	T	T	54306982	4	4	209	1	0	0	0	0	0	1	0	0	17012	1349	47	5	1884	5	UNC13C	15	54306982	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3089687	54306982	48224410	887	101302											
DYX1C1	161582	broad.mit.edu	37	chr15	55790442	55790442	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcagaacacgtccgtgtctCtgacgcacacgcctttgagg	8	9	11	13	4	1	3	0	2	1	1	3	3	2	3	2	1	2	2	2	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:55790442C>T	uc002adc.2	-	2	454	c.86G>A	c.(85-87)AGA>AAA	p.R29K	CCPG1_uc002acy.2_5'UTR|DYX1C1_uc010ugh.1_RNA|DYX1C1_uc010ugi.1_RNA|DYX1C1_uc002adb.2_Missense_Mutation_p.R29K|DYX1C1_uc002add.2_Missense_Mutation_p.R29K	NM_130810	NP_570722	Q8WXU2	DYXC1_HUMAN	dyslexia susceptibility 1 candidate 1 isoform a	29	CS.|Mediates interaction with ESR1 and STUB1.				neuron migration|regulation of estrogen receptor signaling pathway|regulation of proteasomal protein catabolic process	cytoplasm|nucleus	estrogen receptor binding			skin(1)	1				all cancers(107;0.0118)|GBM - Glioblastoma multiforme(80;0.171)		GTCCGTGTCTCTGACGCACAC	0.567													4	37					0	0	0.009096	0	0		T	55790442	T	T	55790442	3	4	209	1	0	0	0	0	1	0	0	0	4868	913	32	4	1315	4	DYX1C1	15	55790442	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1483460	55790442	46740950	888	101303											
PYGO1	26108	broad.mit.edu	37	chr15	55841142	55841142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgcgctttttcttatctgggCttcctagttgtacacctggt	4	18	9	10	1	2	0	0	0	2	0	3	0	3	0	2	2	2	4	2	2	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:55841142C>T	uc010bfl.1	-	2	157	c.101G>A	c.(100-102)AGC>AAC	p.S34N	PYGO1_uc002adf.1_Missense_Mutation_p.S34N	NM_015617	NP_056432	Q9Y3Y4	PYGO1_HUMAN	pygopus homolog 1	34					Wnt receptor signaling pathway	nucleus	zinc ion binding			ovary(1)|skin(1)	2				all cancers(107;0.0131)|GBM - Glioblastoma multiforme(80;0.18)		CTTATCTGGGCTTCCTAGTTG	0.368													15	58					0	0	0.003163	0	0		T	55841142	T	T	55841142	3	4	209	1	0	0	0	0	1	0	0	0	12888	797	28	2	1166	2	PYGO1	15	55841142	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	50700	55841142	46690250	889	101304											
FOXB1	27023	broad.mit.edu	37	chr15	60297960	60297960	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgtgcccattaagcccacGccggccgccgtgcccgcgct	4	5	11	21	7	0	0	0	0	0	0	0	0	0	0	7	1	3	1	7	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:60297960G>A	uc002agj.1	+	2	1277	c.798G>A	c.(796-798)ACG>ACA	p.T266T	FOXB1_uc010bgh.1_Intron	NM_012182	NP_036314	Q99853	FOXB1_HUMAN	forkhead box B1	266					axon target recognition|cell migration in diencephalon|epithelial cell differentiation involved in mammary gland alveolus development|floor plate development|hypothalamus cell migration|inferior colliculus development|lactation|mammillothalamic axonal tract development|negative regulation of neuron apoptosis|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|telencephalon cell migration|visual learning	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(1)|central_nervous_system(1)	2						TTAAGCCCACGCCGGCCGCCG	0.721													6	18					0	0	0.001168	0	0		A	60297960	A	A	60297960	2	1	209	1	0	0	0	0	0	0	0	1	6006	1074	38	1		1	FOXB1	15	60297960	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4456818	60297960	42233432	890	101305											
TLN2	83660	broad.mit.edu	37	chr15	63089583	63089583	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcagccagcctgggctcCgacgaccccgagacccaggt	7	3	15	16	3	0	1	0	0	0	1	1	4	1	1	6	4	2	2	6	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:63089583C>T	uc002alb.3	+	45	6216	c.6216C>T	c.(6214-6216)TCC>TCT	p.S2072S	TLN2_uc002alc.3_Silent_p.S465S	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	2072					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GCCTGGGCTCCGACGACCCCG	0.677													3	37					0	0	0.004672	0	0		T	63089583	T	T	63089583	2	4	209	1	0	0	0	0	0	0	0	1	15973	639	23	1		1	TLN2	15	63089583	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2791623	63089583	39441809	891	101306											
ZWILCH	55055	broad.mit.edu	37	chr15	66819666	66819666	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggactggtgtcactgaatgGctcgagcccctggaagcaaa	11	7	13	10	1	1	1	1	1	0	0	2	4	1	3	2	4	2	2	2	4	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:66819666G>A	uc002aqb.2	+	9	1104	c.858G>A	c.(856-858)TGG>TGA	p.W286*	RPL4_uc002apx.2_5'Flank|ZWILCH_uc010bhu.1_Nonsense_Mutation_p.W172*|ZWILCH_uc002aqa.2_Nonsense_Mutation_p.W172*|ZWILCH_uc010bhv.2_Nonsense_Mutation_p.W172*	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch	286					cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						TCACTGAATGGCTCGAGCCCC	0.368													20	43					0	0	0.010504	0	0		A	66819666	A	A	66819666	4	1	209	1	0	0	0	0	0	1	0	0	18273	1212	42	2	892	2	ZWILCH	15	66819666	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3730083	66819666	35711726	892	101307											
LCTL	197021	broad.mit.edu	37	chr15	66857094	66857094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcccactgtgtgtgaagaCgtcccagatgctaggccctt	7	11	10	13	1	0	3	0	1	0	2	2	3	2	3	3	1	1	1	3	1	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:66857094C>T	uc002aqc.2	-	2	334	c.202G>A	c.(202-204)GTC>ATC	p.V68I	LCTL_uc002aqd.3_Intron|LCTL_uc010bhw.2_5'UTR	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	68	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						TGTGTGAAGACGTCCCAGATG	0.627													15	114					0	0	0.00245	0	0		T	66857094	T	T	66857094	3	4	209	1	0	0	0	0	1	0	0	0	8710	536	19	1	1549	1	LCTL	15	66857094	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	37428	66857094	35674298	893	101308											
IQCH	64799	broad.mit.edu	37	chr15	67757528	67757528	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgactcaactcaccttaTacctgacaaacggccatctg	11	9	5	16	1	3	2	2	2	1	0	3	2	3	2	4	1	3	0	4	1	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:67757528T>C	uc002aqo.1	+	17	2616	c.2569T>C	c.(2569-2571)TAC>CAC	p.Y857H	IQCH_uc002aqq.1_Missense_Mutation_p.Y514H|IQCH_uc002aqp.1_Missense_Mutation_p.Y518H|uc002aqr.1_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1	857										skin(3)|ovary(1)	4				Colorectal(3;0.0856)		ACTCACCTTATACCTGACAAA	0.507													12	76					0	0	0.010729	0	0		C	67757528	C	C	67757528	3	2	209	1	0	0	0	0	1	0	0	0	7827	1406	49	3	2763	3	IQCH	15	67757528	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	900434	67757528	34773864	894	101309											
PIAS1	8554	broad.mit.edu	37	chr15	68445963	68445963	+	Silent	SNP	G	A	A	0	0	1	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	gtatatcttgtaaaacagttGtcctcaacagttcttcttca	11	16	5	9	0	5	0	2	0	3	0	6	0	6	0	1	0	2	4	1	0	5	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:68445963G>A	uc002aqz.2	+	7	960	c.864G>A	c.(862-864)TTG>TTA	p.L288L	PIAS1_uc010ujx.1_Silent_p.L288L	NM_016166	NP_057250	O75925	PIAS1_HUMAN	protein inhibitor of activated STAT, 1	288	PINIT.				androgen receptor signaling pathway|interferon-gamma-mediated signaling pathway|JAK-STAT cascade|positive regulation of protein sumoylation|positive regulation of transcription, DNA-dependent|regulation of interferon-gamma-mediated signaling pathway|transcription, DNA-dependent	nuclear speck	androgen receptor binding|DNA binding|enzyme binding|SUMO ligase activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)	2						TAAAACAGTTGTCCTCAACAG	0.318													8	37					0	0	0.00308	0	0		A	68445963	A	A	68445963	2	1	209	1	0	0	0	0	0	0	0	1	11894	1368	48	4		4	PIAS1	15	68445963	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	688435	68445963	34085429	895	101310											
THSD4	79875	broad.mit.edu	37	chr15	71535237	71535237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgctctggactgcaggctgcGgaggcccccatctaccagct	6	7	12	16	2	2	0	0	0	2	0	2	2	2	2	3	4	4	4	3	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:71535237G>A	uc002atb.1	+	4	793	c.714G>A	c.(712-714)GCG>GCA	p.A238A	THSD4_uc002atd.1_5'UTR	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	238	TSP type-1 1.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						TGCAGGCTGCGGAGGCCCCCA	0.572													23	59					0	0	0.003954	0	0		A	71535237	A	A	71535237	2	1	209	1	0	0	0	0	0	0	0	1	15903	1103	39	1		1	THSD4	15	71535237	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3089274	71535237	30996155	896	101311											
HCN4	10021	broad.mit.edu	37	chr15	73617395	73617395	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtacatcttcttgccaatggTgccttcccggatgatgtagt	7	14	10	10	1	2	1	0	1	2	0	3	2	3	2	3	2	3	2	3	2	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:73617395T>C	uc002avp.2	-	6	2873	c.1879A>G	c.(1879-1881)ACC>GCC	p.T627A		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	627	Cytoplasmic (Potential).|cAMP.				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		TTGCCAATGGTGCCTTCCCGG	0.577													9	80					0	0	0.006214	0	0		C	73617395	C	C	73617395	3	2	209	1	0	0	0	0	1	0	0	0	7015	1696	59	3	1744	3	HCN4	15	73617395	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2082158	73617395	28913997	897	101312											
CLK3	1198	broad.mit.edu	37	chr15	74912475	74912475	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgttctcgtcatcgtcGgcgatcgcgggagagggggc	5	9	16	11	7	3	1	2	0	1	1	7	3	3	1	0	4	0	1	0	4	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:74912475G>A	uc010uln.1	+	3	1183	c.722G>A	c.(721-723)CGG>CAG	p.R241Q	CLK3_uc002ayg.3_Missense_Mutation_p.R93Q|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Missense_Mutation_p.R241Q|CLK3_uc002ayj.3_Missense_Mutation_p.R93Q|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	241	Arg-rich.					acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						CGTCATCGTCGGCGATCGCGG	0.622													23	213					0	0	0.004656	0	0		A	74912475	A	A	74912475	3	1	209	1	0	0	0	0	1	0	0	0	3541	1116	39	1	732	1	CLK3	15	74912475	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1295080	74912475	27618917	898	101313											
CSK	1445	broad.mit.edu	37	chr15	75091041	75091041	+	Missense_Mutation	SNP	A	G	G	1	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	cctgcccttctgcaaaggagAcgtgctcaccattgtggccg	7	9	11	14	2	2	1	1	0	1	1	2	2	2	1	4	2	3	2	4	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:75091041A>G	uc010bkb.1	+	4	284	c.101A>G	c.(100-102)GAC>GGC	p.D34G	CSK_uc010bka.2_Silent_p.R104R|CSK_uc002ays.2_Missense_Mutation_p.D34G|CSK_uc010bkc.1_5'Flank	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	34	Interaction with PTPN8 (By similarity).|SH3.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						TGCAAAGGAGACGTGCTCACC	0.617													6	32					0	0	0.001168	0	0		G	75091041	G	G	75091041	3	3	209	1	0	0	0	0	1	0	0	0	3946	275	10	3	107	3	CSK	15	75091041	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	178566	75091041	27440351	899	101314											
MAN2C1	4123	broad.mit.edu	37	chr15	75648732	75648732	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgggggctggcagagcCaacagggggaagtttaggct	8	6	20	7	0	0	1	0	0	0	1	0	2	0	2	1	7	2	5	1	7	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:75648732C>A	uc002baf.2	-	24	2813	c.2796G>T	c.(2794-2796)TTG>TTT	p.L932F	MIR631_hsa-mir-631|MI0003645_5'Flank|MAN2C1_uc002bag.2_Intron|MAN2C1_uc002bah.2_Missense_Mutation_p.L949F|MAN2C1_uc010bkk.2_Missense_Mutation_p.L833F	NM_006715	NP_006706	Q9NTJ4	MA2C1_HUMAN	mannosidase, alpha, class 2C, member 1	932					mannose metabolic process		alpha-mannosidase activity|carbohydrate binding|protein binding|zinc ion binding				0						CTGGCAGAGCCAACAGGGGGA	0.617													7	17					0.00307968	0.0031736	0.00308	1	0		A	75648732	A	A	75648732	3	1	209	1	0	0	0	0	1	0	0	0	9236	593	21	5	338	5	MAN2C1	15	75648732	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	557691	75648732	26882660	900	101315											
SIN3A	25942	broad.mit.edu	37	chr15	75676749	75676749	+	Silent	SNP	A	G	G	1	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	taaaggtcagtcacctgcacAcagatctcatcactcacgat	13	9	6	13	1	5	1	5	0	1	1	6	2	5	1	1	1	1	1	1	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:75676749A>G	uc002bai.2	-	17	3310	c.3051T>C	c.(3049-3051)TGT>TGC	p.C1017C	SIN3A_uc002baj.2_Silent_p.C1017C|SIN3A_uc010uml.1_Silent_p.C1017C	NM_015477	NP_056292	Q96ST3	SIN3A_HUMAN	transcriptional co-repressor Sin3A	1017					blood coagulation|cellular lipid metabolic process|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|Sin3 complex	protein binding			skin(3)|ovary(1)|lung(1)	5						TCACCTGCACACAGATCTCAT	0.468													20	58					0	0	0.008871	0	0		G	75676749	G	G	75676749	2	3	209	1	0	0	0	0	0	0	0	1	14350	157	6	3		3	SIN3A	15	75676749	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	28017	75676749	26854643	901	101316											
IL16	3603	broad.mit.edu	37	chr15	81592247	81592247	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcctgacaaaggagcccaGagactgagcctccagccctc	10	5	10	16	0	0	3	0	2	0	1	2	5	1	4	5	1	4	0	5	1	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:81592247G>T	uc002bgh.3	+	14	2956	c.2580G>T	c.(2578-2580)CAG>CAT	p.Q860H	IL16_uc010blq.1_Missense_Mutation_p.Q814H|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.Q902H|IL16_uc002bgg.2_Missense_Mutation_p.Q860H|IL16_uc002bgi.1_Missense_Mutation_p.Q250H|IL16_uc002bgj.2_Missense_Mutation_p.Q354H|IL16_uc002bgk.2_Missense_Mutation_p.Q159H|IL16_uc002bgl.1_Missense_Mutation_p.Q159H|IL16_uc010unq.1_Missense_Mutation_p.Q159H	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	860					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						AAGGAGCCCAGAGACTGAGCC	0.517													14	49					3.27435e-08	3.56644e-08	0.00245	1	0		T	81592247	T	T	81592247	3	4	209	1	0	0	0	0	1	0	0	0	7649	933	33	5	2630	5	IL16	15	81592247	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5915498	81592247	20939145	902	101317											
ALPK3	57538	broad.mit.edu	37	chr15	85406054	85406054	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacccatcttcgagtcgggcCgcacgtgcatcatcaaggtg	9	8	11	13	4	3	0	2	0	1	0	5	1	3	0	2	2	2	2	2	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:85406054C>A	uc002ble.2	+	10	5091	c.4924C>A	c.(4924-4926)CGC>AGC	p.R1642S	ALPK3_uc010upc.1_5'Flank	NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1642	Alpha-type protein kinase.				heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			CGAGTCGGGCCGCACGTGCAT	0.592													9	71					0.000274275	0.000287326	0.004482	1	0		A	85406054	A	A	85406054	3	1	209	1	0	0	0	0	1	0	0	0	546	652	23	5	4962	5	ALPK3	15	85406054	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3813807	85406054	17125338	903	101318											
KLHL25	64410	broad.mit.edu	37	chr15	86312936	86312936	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttgcgaagcgtgttgaGgtgggccagcacacagtccg	7	8	16	10	3	0	1	0	1	0	0	1	2	1	1	2	2	4	3	2	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:86312936G>T	uc002bly.2	-	2	309	c.106C>A	c.(106-108)CTC>ATC	p.L36I		NM_022480	NP_071925	Q9H0H3	ENC2_HUMAN	BTB/POZ KELCH domain protein	36						cytoplasm				ovary(2)	2						AGCGTGTTGAGGTGGGCCAGC	0.657													5	67					3.59834e-05	3.81355e-05	0.001168	1	0		T	86312936	T	T	86312936	3	4	209	1	0	0	0	0	1	0	0	0	8396	1000	35	5	1667	5	KLHL25	15	86312936	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	906882	86312936	16218456	904	101319											
MAN2A2	4122	broad.mit.edu	37	chr15	91450046	91450046	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttacctgctgcgccgtgcCaacctcaccagcatgctgat	7	9	8	17	2	1	1	1	1	0	0	1	1	1	1	6	0	7	3	6	0	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:91450046C>T	uc010bnz.2	+	7	1027	c.912C>T	c.(910-912)GCC>GCT	p.A304A	MAN2A2_uc010boa.2_Silent_p.A346A|MAN2A2_uc002bqc.2_Silent_p.A304A|MAN2A2_uc010uql.1_Silent_p.A8A|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	304	Lumenal (Potential).				mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			TGCGCCGTGCCAACCTCACCA	0.592													8	71					0	0	0.00308	0	0		T	91450046	T	T	91450046	2	4	209	1	0	0	0	0	0	0	0	1	9233	581	21	4		4	MAN2A2	15	91450046	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5137110	91450046	11081346	905	101320											
ADAMTS17	170691	broad.mit.edu	37	chr15	100802556	100802556	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggtgcctgtggggacttaCgggacgttgtcgtagcagga	8	9	17	7	3	0	0	0	0	0	0	1	3	0	3	1	5	3	3	1	5	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:100802556C>T	uc002bvv.1	-	5	952	c.873_splice	c.e5+1	p.P291_splice	ADAMTS17_uc002bvx.1_Splice_Site_p.P48_splice	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1						proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TGGGGACTTACGGGACGTTGT	0.488													18	108					0	0	0.010504	0	0		T	100802556	T	T	100802556	5	4	209	1	0	0	0	0	0	0	1	0	262	550	19	1	2485	1	ADAMTS17	15	100802556	Splice_Site	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	9352510	100802556	1728836	906	101321											
LRRK1	79705	broad.mit.edu	37	chr15	101605617	101605617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgtgtttcccgtggtgCggggcaccccaaaggacagc	6	8	15	12	2	0	0	0	0	0	0	1	1	1	1	3	5	2	3	3	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr15:101605617C>T	uc002bwr.2	+	32	5294	c.4975C>T	c.(4975-4977)CGG>TGG	p.R1659W	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bws.2_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	1659					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TCCCGTGGTGCGGGGCACCCC	0.582													27	108					0	0	0.00632	0	0		T	101605617	T	T	101605617	3	4	209	1	0	0	0	0	1	0	0	0	9050	759	27	1	5097	1	LRRK1	15	101605617	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	803061	101605617	925775	907	101322											
RHBDF1	64285	broad.mit.edu	37	chr16	108438	108438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacagcggacaggatagacGtagaagaggaccaccaggcc	14	3	13	11	2	1	3	1	0	0	3	1	6	1	6	3	4	1	1	3	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:108438G>A	uc002cfl.3	-	21	2617	c.2469C>T	c.(2467-2469)TAC>TAT	p.Y823Y		NM_022450	NP_071895	Q96CC6	RHDF1_HUMAN	rhomboid family 1	823	Helical; (Potential).				cell migration|cell proliferation|negative regulation of protein secretion|protein transport|proteolysis|regulation of epidermal growth factor receptor signaling pathway|regulation of proteasomal protein catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity			ovary(1)|pancreas(1)	2		all_cancers(16;2.56e-05)|all_epithelial(16;0.000116)|Hepatocellular(780;0.0068)|Lung NSC(18;0.0795)|all_lung(18;0.159)				CAGGATAGACGTAGAAGAGGA	0.552													9	169					0	0	0.004482	0	0		A	108438	A	A	108438	2	1	209	1	0	0	0	0	0	0	0	1	13344	1140	40	1		1	RHBDF1	16	108438	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		108438	90246315	908	101323											
TMEM8A	58986	broad.mit.edu	37	chr16	425384	425384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtattgaagccaaggaaggGcgaggcagcattcacgcagg	13	5	15	8	2	1	1	1	1	0	0	1	3	1	2	1	4	2	4	1	4	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:425384G>A	uc002cgu.3	-	7	1405	c.1276C>T	c.(1276-1278)CCC>TCC	p.P426S	TMEM8A_uc002cgv.3_Missense_Mutation_p.P233S	NM_021259	NP_067082	Q9HCN3	TMM8A_HUMAN	transmembrane protein 8 (five membrane-spanning	426	Extracellular (Potential).				cell adhesion	integral to plasma membrane				central_nervous_system(2)|pancreas(1)	3						CCAAGGAAGGGCGAGGCAGCA	0.672													10	91					0	0	0.001855	0	0		A	425384	A	A	425384	3	1	209	1	0	0	0	0	1	0	0	0	16239	1203	42	2	1067	2	TMEM8A	16	425384	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	316946	425384	89929369	909	101324											
MSLN	10232	broad.mit.edu	37	chr16	816414	816414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgagccctgaggacattcGcaagtggaatgtgacgtccc	10	8	13	10	2	0	3	0	3	0	0	2	6	1	5	2	2	1	1	2	2	2	1	rs150147307		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:816414G>A	uc002cjw.1	+	12	1205	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H	MSLN_uc002cjt.1_Missense_Mutation_p.R385H|MSLN_uc002cju.1_Missense_Mutation_p.R385H|MSLN_uc010brd.1_Missense_Mutation_p.R384H|MSLN_uc002cjv.1_Missense_Mutation_p.R385H|MSLN_uc002cjx.1_Missense_Mutation_p.R385H|MSLN_uc002cjy.1_Missense_Mutation_p.R50H	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	385					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				GAGGACATTCGCAAGTGGAAT	0.567													29	84					0	0	0.005443	0	0		A	816414	A	A	816414	3	1	209	1	0	0	0	0	1	0	0	0	9899	1087	38	1	1196	1	MSLN	16	816414	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	391030	816414	89538339	910	101325											
TPSD1	23430	broad.mit.edu	37	chr16	1306823	1306823	+	Missense_Mutation	SNP	A	G	G	1	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	tcaaggatctggccgccctcAgggtgcaactgcgggagcag	8	6	15	12	2	3	0	2	0	1	0	3	2	3	2	2	4	4	2	2	4	2	0	rs143852280		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:1306823A>G	uc002clb.1	+	3	289	c.280A>G	c.(280-282)AGG>GGG	p.R94G	TPSD1_uc010brm.1_Splice_Site_p.P23_splice	NM_012217	NP_036349	Q9BZJ3	TRYD_HUMAN	tryptase delta 1 precursor	94	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		Hepatocellular(780;0.00369)				GGCCGCCCTCAGGGTGCAACT	0.662													4	26					0	0	0.000602	0	0		G	1306823	G	G	1306823	3	3	209	1	0	0	0	0	1	0	0	0	16451	179	7	3	290	3	TPSD1	16	1306823	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	490409	1306823	89047930	911	101326											
CLCN7	1186	broad.mit.edu	37	chr16	1502845	1502845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcaactgtggccgtgacggCggccaccagcacggcctcaa	8	4	14	15	4	1	1	1	1	0	0	1	1	1	1	4	5	2	2	4	5	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:1502845C>T	uc002clv.2	-	15	1374	c.1264G>A	c.(1264-1266)GCC>ACC	p.A422T	CLCN7_uc002clw.2_Missense_Mutation_p.A398T	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	422	Helical; (By similarity).					integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			central_nervous_system(2)|ovary(1)|skin(1)	4		Hepatocellular(780;0.0893)				GCCGTGACGGCGGCCACCAGC	0.672													4	12					0	0	0.009096	0	0		T	1502845	T	T	1502845	3	4	209	1	0	0	0	0	1	0	0	0	3471	768	27	1	1197	1	CLCN7	16	1502845	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	196022	1502845	88851908	912	101327											
TSC2	7249	broad.mit.edu	37	chr16	2122296	2122296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggctgcctgagtccctgCgctataaagtgctcatcttt	7	12	10	12	1	2	1	1	1	1	0	3	1	3	1	2	1	3	4	2	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:2122296C>T	uc002con.2	+	20	2258	c.2152C>T	c.(2152-2154)CGC>TGC	p.R718C	TSC2_uc010bsd.2_Missense_Mutation_p.R718C|TSC2_uc002coo.2_Missense_Mutation_p.R718C|TSC2_uc010uvv.1_Missense_Mutation_p.R681C|TSC2_uc010uvw.1_Missense_Mutation_p.R669C|TSC2_uc002cop.2_Missense_Mutation_p.R518C	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	718					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				TGAGTCCCTGCGCTATAAAGT	0.612			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				23	97					0	0	0.00278	0	0		T	2122296	T	T	2122296	3	4	209	1	0	0	0	0	1	0	0	0	16632	768	27	1	2226	1	TSC2	16	2122296	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	619451	2122296	88232457	913	101328											
TRAF7	84231	broad.mit.edu	37	chr16	2218083	2218083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcttgccttgcagctgacGggaccagcacctacaagcag	9	7	10	15	1	1	1	0	1	1	0	1	2	1	2	4	1	6	4	4	1	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:2218083G>A	uc002cow.2	+	4	244	c.145G>A	c.(145-147)GGG>AGG	p.G49R		NM_032271	NP_115647	Q6Q0C0	TRAF7_HUMAN	TNF receptor-associated factor 7	49					activation of MAPKKK activity|apoptosis|regulation of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic membrane-bounded vesicle|ubiquitin ligase complex	identical protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						TGCAGCTGACGGGACCAGCAC	0.667													11	24					0	0	0.00245	0	0		A	2218083	A	A	2218083	3	1	209	1	0	0	0	0	1	0	0	0	16472	1116	39	1	155	1	TRAF7	16	2218083	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	95787	2218083	88136670	914	101329											
MLST8	64223	broad.mit.edu	37	chr16	2258236	2258236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgctatgtctggaatctgaCggggggcattggtgacgagg	7	10	17	7	2	2	2	0	2	2	0	2	4	2	3	0	6	1	2	0	6	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:2258236C>T	uc002coz.2	+	7	718	c.599C>T	c.(598-600)ACG>ATG	p.T200M	MLST8_uc002coy.2_Missense_Mutation_p.T200M|MLST8_uc002cpa.2_Missense_Mutation_p.T16M|MLST8_uc002cpb.2_Missense_Mutation_p.T199M|MLST8_uc010uvx.1_Missense_Mutation_p.T134M|MLST8_uc002cpc.2_Missense_Mutation_p.T200M|MLST8_uc002cpd.2_Missense_Mutation_p.T134M|MLST8_uc002cpe.2_Missense_Mutation_p.T200M|MLST8_uc002cpg.2_Missense_Mutation_p.T219M|MLST8_uc002cph.2_Intron|MLST8_uc002cpf.2_Missense_Mutation_p.T200M	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	200	WD 5.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						TGGAATCTGACGGGGGGCATT	0.632													13	161					0	0	0.001855	0	0		T	2258236	T	T	2258236	3	4	209	1	0	0	0	0	1	0	0	0	9652	536	19	1	621	1	MLST8	16	2258236	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	40153	2258236	88096517	915	101330											
ABCA3	21	broad.mit.edu	37	chr16	2333309	2333309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccatggaggccacaaaccGgccgacccccggggcgctcc	7	2	14	18	4	0	0	0	0	0	0	1	2	1	1	7	6	1	1	7	6	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:2333309G>A	uc002cpy.1	-	26	4625	c.3913C>T	c.(3913-3915)CGG>TGG	p.R1305W	ABCA3_uc010bsk.1_Missense_Mutation_p.R1247W	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1305					response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				GCCACAAACCGGCCGACCCCC	0.657													13	51					0	0	0.013537	0	0		A	2333309	A	A	2333309	3	1	209	1	0	0	0	0	1	0	0	0	33	1115	39	1	1233	1	ABCA3	16	2333309	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	75073	2333309	88021444	916	101331											
NTN3	4917	broad.mit.edu	37	chr16	2522140	2522140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catggccgcagctgggccccGctgggcttcttctcctccca	3	9	11	18	2	2	0	0	0	2	0	4	0	3	0	5	3	1	4	5	3	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:2522140G>A	uc002cqj.2	+	1	641	c.438G>A	c.(436-438)CCG>CCA	p.P146P		NM_006181	NP_006172	O00634	NET3_HUMAN	netrin 3 precursor	146	Laminin N-terminal.				axon guidance|muscle cell differentiation|positive regulation of muscle cell differentiation	proteinaceous extracellular matrix				central_nervous_system(1)	1						GCTGGGCCCCGCTGGGCTTCT	0.672													8	39					0	0	0.004482	0	0		A	2522140	A	A	2522140	2	1	209	1	0	0	0	0	0	0	0	1	10720	1074	38	1		1	NTN3	16	2522140	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	188831	2522140	87832613	917	101332											
FLYWCH1	84256	broad.mit.edu	37	chr16	2987367	2987367	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggagcacttccccaacctgGcgcagtgggacagcccaggt	8	5	14	14	1	0	0	0	0	0	0	1	2	1	2	4	4	3	2	4	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:2987367G>A	uc002csd.2	+	7	2122	c.1759G>A	c.(1759-1761)GCG>ACG	p.A587T	FLYWCH1_uc002csb.2_Missense_Mutation_p.A586T|FLYWCH1_uc002csc.2_Missense_Mutation_p.A586T|FLYWCH1_uc010bsv.2_Missense_Mutation_p.A311T|FLYWCH1_uc002cse.2_Missense_Mutation_p.A42T	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	587						nucleus	DNA binding|metal ion binding				0						CCCCAACCTGGCGCAGTGGGA	0.731													3	20					0	0	0.000602	0	0		A	2987367	A	A	2987367	3	1	209	1	0	0	0	0	1	0	0	0	5961	1203	42	2	1774	2	FLYWCH1	16	2987367	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	465227	2987367	87367386	918	101333											
MEFV	4210	broad.mit.edu	37	chr16	3304219	3304219	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgcagatgcccctccatcCggagtgggccttgcccgggg	4	7	14	16	3	0	1	0	0	0	1	3	2	3	2	7	4	2	1	7	4	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:3304219C>T	uc002cun.1	-	2	889	c.849G>A	c.(847-849)CCG>CCA	p.P283P		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	283					inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	CCCCTCCATCCGGAGTGGGCC	0.448													26	92					0	0	0.005443	0	0		T	3304219	T	T	3304219	2	4	209	1	0	0	0	0	0	0	0	1	9477	639	23	1		1	MEFV	16	3304219	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	316852	3304219	87050534	919	101334											
ZNF174	7727	broad.mit.edu	37	chr16	3458468	3458468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaatatgagtgaacctcGgttgtcacggaggcaggtca	11	8	14	8	2	2	2	2	2	0	0	3	3	2	3	1	5	1	3	1	5	3	2	rs144498218	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:3458468G>A	uc002cvc.2	+	3	1588	c.773G>A	c.(772-774)CGG>CAG	p.R258Q		NM_003450	NP_003441	Q15697	ZN174_HUMAN	zinc finger protein 174 isoform a	258					negative regulation of transcription from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|cytoplasm|nucleus	protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding				0						AGTGAACCTCGGTTGTCACGG	0.522													13	123					0	0	0.00499	0	0		A	3458468	A	A	3458468	3	1	209	1	0	0	0	0	1	0	0	0	17769	1116	39	1	867	1	ZNF174	16	3458468	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	154249	3458468	86896285	920	101335											
CREBBP	1387	broad.mit.edu	37	chr16	3781384	3781384	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaggcgtcgcgcccatccaTgaggtcacagctgagcaggg	9	5	15	12	3	1	2	1	2	0	0	3	3	2	2	2	3	2	2	2	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:3781384T>C	uc002cvv.2	-	30	5185	c.4981A>G	c.(4981-4983)ATG>GTG	p.M1661V	CREBBP_uc002cvw.2_Missense_Mutation_p.M1623V	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1661	Interaction with TRERF1.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CGCCCATCCATGAGGTCACAG	0.637			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				4	18					0	0	0.009096	0	0		C	3781384	C	C	3781384	3	2	209	1	0	0	0	0	1	0	0	0	3864	1464	51	3	2355	3	CREBBP	16	3781384	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	322916	3781384	86573369	921	101336											
CORO7	79585	broad.mit.edu	37	chr16	4390324	4390324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggggagccgagcagtcacGtatggggcatctgccctttt	6	9	16	10	2	2	0	1	0	1	0	2	2	2	1	2	5	3	3	2	5	1	3	rs148571756		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:4390324G>A	uc002cwf.2	-	31	3586	c.3143C>T	c.(3142-3144)ACG>ATG	p.T1048M	CORO7_uc002cwe.2_RNA|TIMM16_uc002cwd.2_Missense_Mutation_p.T125M	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	Error:Variant_position_missing_in_P57737_after_alignment						cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						GAGCAGTCACGTATGGGGCAT	0.532													24	87					0	0	0.007291	0	0		A	4390324	A	A	4390324	3	1	209	1	0	0	0	0	1	0	0	0	3762	1145	40	1		1	CORO7	16	4390324	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	608940	4390324	85964429	922	101337											
UBN1	29855	broad.mit.edu	37	chr16	4911085	4911085	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccagcacccctggagaagcgCgttaaggagctggctcaggt	9	6	14	12	2	1	1	1	0	0	1	1	3	1	2	3	4	3	4	3	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:4911085C>T	uc002cyb.2	+	7	1431	c.1092C>T	c.(1090-1092)CGC>CGT	p.R364R	UBN1_uc010uxw.1_Silent_p.R364R|UBN1_uc002cyc.2_Silent_p.R364R	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	364					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						TGGAGAAGCGCGTTAAGGAGC	0.577													3	36					0	0	0.004672	0	0		T	4911085	T	T	4911085	2	4	209	1	0	0	0	0	0	0	0	1	16918	755	27	1		1	UBN1	16	4911085	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	520761	4911085	85443668	923	101338											
GRIN2A	2903	broad.mit.edu	37	chr16	9858518	9858518	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacaaatgtttggagttcGttcatgttgtctccaaaaat	11	14	8	8	1	2	0	1	0	1	0	4	1	2	1	2	1	0	4	2	1	3	4	rs77705198	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:9858518G>A	uc002czo.3	-	13	3431	c.2883C>T	c.(2881-2883)AAC>AAT	p.N961N	GRIN2A_uc010uym.1_Silent_p.N961N|GRIN2A_uc010uyn.1_Silent_p.N804N|GRIN2A_uc002czr.3_Silent_p.N961N	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	961	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			skin(32)|NS(5)|ovary(4)|large_intestine(1)|lung(1)|breast(1)|kidney(1)	45					Felbamate(DB00949)|Glycine(DB00145)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	TTTGGAGTTCGTTCATGTTGT	0.438													13	122					0	0	0.00245	0	0		A	9858518	A	A	9858518	2	1	209	1	0	0	0	0	0	0	0	1	6795	1136	40	1		1	GRIN2A	16	9858518	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4947433	9858518	80496235	924	101339											
MKL2	57496	broad.mit.edu	37	chr16	14341272	14341272	+	Missense_Mutation	SNP	A	G	G	1	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	ctcagccccaggctttactgAccacgcagactgctcagctg	8	8	9	16	1	2	2	2	1	0	1	2	2	2	2	3	1	4	4	3	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:14341272A>G	uc010uza.1	+	12	2310	c.2155A>G	c.(2155-2157)ACC>GCC	p.T719A	MKL2_uc002dcg.2_Intron|MKL2_uc002dcj.2_5'UTR	NM_014048	NP_054767	Q9ULH7	MKL2_HUMAN	megakaryoblastic leukemia 2 protein	708	Gln-rich.				cell differentiation|muscle organ development|positive regulation of striated muscle tissue development|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		identical protein binding|nucleic acid binding|transcription coactivator activity			ovary(3)|kidney(1)|pancreas(1)	5						GGCTTTACTGACCACGCAGAC	0.592													3	40					0	0	0.004672	0	0		G	14341272	G	G	14341272	3	3	209	1	0	0	0	0	1	0	0	0	9620	290	10	3		3	MKL2	16	14341272	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	4482754	14341272	76013481	925	101340											
GPRC5B	51704	broad.mit.edu	37	chr16	19883215	19883215	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgtcctcctcgaaggccGtctcccgcatcctgggctgc	4	8	11	18	4	1	0	0	0	1	0	6	1	4	0	5	2	1	3	5	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:19883215G>A	uc002dgt.2	-	2	1061	c.953C>T	c.(952-954)ACG>ATG	p.T318M	GPRC5B_uc010vav.1_Missense_Mutation_p.T344M	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	318	Cytoplasmic (Potential).									lung(1)|breast(1)|skin(1)	3						CTCGAAGGCCGTCTCCCGCAT	0.607													9	80					0	0	0.004482	0	0		A	19883215	A	A	19883215	3	1	209	1	0	0	0	0	1	0	0	0	6741	1145	40	1	270	1	GPRC5B	16	19883215	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5541943	19883215	70471538	926	101341											
GPRC5B	51704	broad.mit.edu	37	chr16	19883779	19883779	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agcagagcgcaaagaggacgCcccagaggaagcggcggaca	14	0	16	11	4	0	3	0	0	0	3	0	6	0	6	2	4	3	2	2	4	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:19883779C>T	uc002dgt.2	-	2	497	c.389G>A	c.(388-390)GGC>GAC	p.G130D	GPRC5B_uc010vav.1_Missense_Mutation_p.G156D	NM_016235	NP_057319	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, family C, group 5,	130	Helical; Name=3; (Potential).									lung(1)|breast(1)|skin(1)	3						AAAGAGGACGCCCCAGAGGAA	0.662													3	25					0	0	0.004672	0	0		T	19883779	T	T	19883779	3	4	209	1	0	0	0	0	1	0	0	0	6741	739	26	2	834	2	GPRC5B	16	19883779	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	564	19883779	70470974	927	101342											
ANKS4B	257629	broad.mit.edu	37	chr16	21261128	21261128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatggccatgcccactgcGtctcattcctggtcaacttt	7	12	7	15	1	2	0	2	0	1	0	4	0	3	0	4	2	3	0	4	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:21261128G>A	uc010bwp.1	+	2	284	c.241G>A	c.(241-243)GTC>ATC	p.V81I	CRYM_uc010bwq.1_Intron	NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing	81	ANK 2.									ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		TGCCCACTGCGTCTCATTCCT	0.498													5	60					0	0	0.001168	0	0		A	21261128	A	A	21261128	3	1	209	1	0	0	0	0	1	0	0	0	691	1145	40	1	247	1	ANKS4B	16	21261128	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1377349	21261128	69093625	928	101343											
OTOA	146183	broad.mit.edu	37	chr16	21702982	21702982	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctattcctggatgactggaaTactgcagacatcctccaatg	11	11	8	11	0	0	2	0	1	0	1	3	4	3	4	3	2	2	1	3	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:21702982T>C	uc002djh.2	+	8	714	c.713T>C	c.(712-714)ATA>ACA	p.I238T	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.I159T	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	238					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		ATGACTGGAATACTGCAGACA	0.463													3	35					0	0	0.004672	0	0		C	21702982	C	C	21702982	3	2	209	1	0	0	0	0	1	0	0	0	11321	1406	49	3	777	3	OTOA	16	21702982	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	441854	21702982	68651771	929	101344											
COG7	91949	broad.mit.edu	37	chr16	23430031	23430031	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgactttaccagaggcacaGcactcatctggatgaggagg	11	7	13	10	1	2	2	1	1	1	1	2	5	2	4	1	4	2	2	1	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:23430031G>A	uc002dlo.2	-	8	1315	c.1127C>T	c.(1126-1128)GCT>GTT	p.A376V		NM_153603	NP_705831	P83436	COG7_HUMAN	component of oligomeric golgi complex 7	376					intracellular protein transport|protein glycosylation|protein localization in Golgi apparatus|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0				GBM - Glioblastoma multiforme(48;0.0401)		CAGAGGCACAGCACTCATCTG	0.557													4	52					0	0	0.009096	0	0		A	23430031	A	A	23430031	3	1	209	1	0	0	0	0	1	0	0	0	3666	971	34	2	1225	2	COG7	16	23430031	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1727049	23430031	66924722	930	101345											
TNRC6A	27327	broad.mit.edu	37	chr16	24834864	24834864	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcccggctggcagtctctCgggtccagccagagccggct	4	8	13	16	3	2	1	0	0	2	1	6	1	3	1	4	4	2	3	4	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:24834864C>T	uc002dmm.2	+	25	5739	c.5625C>T	c.(5623-5625)CTC>CTT	p.L1875L	TNRC6A_uc010bxs.2_Silent_p.L1622L|TNRC6A_uc002dmn.2_Silent_p.L1573L|TNRC6A_uc002dmo.2_Silent_p.L1514L|TNRC6A_uc002dmr.2_Silent_p.L74L	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1875	Sufficient for interaction with EIF2C2.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0394)		GGCAGTCTCTCGGGTCCAGCC	0.567													40	148					0	0	0.006999	0	0		T	24834864	T	T	24834864	2	4	209	1	0	0	0	0	0	0	0	1	16365	871	31	1		1	TNRC6A	16	24834864	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1404833	24834864	65519889	931	101346											
ZKSCAN2	342357	broad.mit.edu	37	chr16	25268437	25268437	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgtcgatctgagagtcgagGgcgacagccatgctgcagcc	8	6	15	12	4	1	1	0	1	1	1	3	5	1	1	2	1	4	2	2	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:25268437G>A	uc002dod.3	-	1	419	c.12C>T	c.(10-12)GCC>GCT	p.A4A	ZKSCAN2_uc010vcl.1_5'UTR|ZKSCAN2_uc002doe.2_Silent_p.A4A	NM_001012981	NP_001012999	Q63HK3	ZKSC2_HUMAN	zinc finger with KRAB and SCAN domains 2	4					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|breast(1)	4				GBM - Glioblastoma multiforme(48;0.0378)		GAGAGTCGAGGGCGACAGCCA	0.567											OREG0023690	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	36	117					0	0	0.004289	0	0		A	25268437	A	A	25268437	2	1	209	1	0	0	0	0	0	0	0	1	17712	1219	43	4		4	ZKSCAN2	16	25268437	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	433573	25268437	65086316	932	101347											
IL21R	50615	broad.mit.edu	37	chr16	27455956	27455956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagctatgagctgcaggtgCgggcagggcccatgcctggc	6	6	17	12	2	0	1	0	1	0	0	0	2	0	1	2	4	5	4	2	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:27455956C>T	uc002doq.1	+	6	834	c.601C>T	c.(601-603)CGG>TGG	p.R201W	IL21R_uc002dor.1_Missense_Mutation_p.R201W|IL21R_uc002dos.1_Missense_Mutation_p.R201W	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	201	Extracellular (Potential).|Fibronectin type-III.				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						GCTGCAGGTGCGGGCAGGGCC	0.597			T	BCL6	NHL								18	66					0	0	0.008871	0	0		T	27455956	T	T	27455956	3	4	209	1	0	0	0	0	1	0	0	0	7687	759	27	1	619	1	IL21R	16	27455956	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2187519	27455956	62898797	933	101348											
APOB48R	55911	broad.mit.edu	37	chr16	28507089	28507089	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggagcctggggccgaaGgggctgggaaaggagaagag	11	3	21	6	1	0	3	0	1	0	2	0	7	0	5	2	7	1	1	2	7	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:28507089G>T	uc002dqb.1	+	2	737	c.727G>T	c.(727-729)GGG>TGG	p.G243W	uc010vct.1_Intron|APOB48R_uc010byg.1_Intron	NM_018690	NP_061160	Q0VD83	APOBR_HUMAN	apolipoprotein B48 receptor	243	Glu-rich.				cholesterol metabolic process|lipid transport	chylomicron|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle					0						TGGGGCCGAAGGGGCTGGGAA	0.662													3	4					6.4e-05	6.75472e-05	0.004672	1	0		T	28507089	T	T	28507089	3	4	209	1	0	0	0	0	1	0	0	0	786	1000	35	5	733	5	APOB48R	16	28507089	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1051133	28507089	61847664	934	101349											
ATXN2L	11273	broad.mit.edu	37	chr16	28844506	28844506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagcccatggggtctcccGtctcctccaagacagagtcc	8	7	10	16	1	2	3	0	0	2	3	6	3	4	3	5	2	1	0	5	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:28844506G>A	uc002drc.2	+	14	1954	c.1786G>A	c.(1786-1788)GTC>ATC	p.V596I	uc010vct.1_Intron|ATXN2L_uc010byl.1_Missense_Mutation_p.V572I|ATXN2L_uc002drb.2_Missense_Mutation_p.V596I|ATXN2L_uc002dqy.2_Missense_Mutation_p.V596I|ATXN2L_uc002dra.2_Missense_Mutation_p.V596I|ATXN2L_uc002dqz.2_Missense_Mutation_p.V596I|ATXN2L_uc010vdb.1_Missense_Mutation_p.V602I|ATXN2L_uc002dre.2_Missense_Mutation_p.V596I|ATXN2L_uc002drf.2_Missense_Mutation_p.V5I|ATXN2L_uc002drg.2_5'Flank	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	596						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						GGGGTCTCCCGTCTCCTCCAA	0.577													17	131					0	0	0.00499	0	0		A	28844506	A	A	28844506	3	1	209	1	0	0	0	0	1	0	0	0	1213	1145	40	1	1840	1	ATXN2L	16	28844506	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	337417	28844506	61510247	935	101350											
QPRT	23475	broad.mit.edu	37	chr16	29708624	29708624	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcccccagttctgcgggccGcacatagacgtcatctccat	7	9	8	17	3	3	1	1	0	2	1	5	1	4	1	4	1	1	2	4	1	1	2	rs113611997		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:29708624G>A	uc002dto.2	+	4	864	c.786G>A	c.(784-786)CCG>CCA	p.P262P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|QPRT_uc010vdu.1_RNA	NM_014298	NP_055113	Q15274	NADC_HUMAN	quinolinate phosphoribosyltransferase	262					protein oligomerization|quinolinate catabolic process|water-soluble vitamin metabolic process	cytosol	nicotinate-nucleotide diphosphorylase (carboxylating) activity|protein homodimerization activity				0					Niacin(DB00627)	TCTGCGGGCCGCACATAGACG	0.627													4	60					0	0	0.001168	0	0		A	29708624	A	A	29708624	2	1	209	1	0	0	0	0	0	0	0	1	12901	1074	38	1		1	QPRT	16	29708624	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	864118	29708624	60646129	936	101351											
ASPHD1	253982	broad.mit.edu	37	chr16	29912905	29912905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccctttgtgccgcgggacGcccagcggcacgacgtggag	5	5	15	16	6	0	0	0	0	0	0	0	3	0	2	4	3	2	1	4	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:29912905G>A	uc002dut.2	+	1	759	c.613G>A	c.(613-615)GCC>ACC	p.A205T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_5'Flank|SEZ6L2_uc002dur.3_5'Flank|SEZ6L2_uc002duq.3_5'Flank|SEZ6L2_uc002dus.3_5'Flank|SEZ6L2_uc010vec.1_5'Flank|SEZ6L2_uc010ved.1_5'Flank|ASPHD1_uc002duu.3_RNA|ASPHD1_uc010bzi.2_RNA	NM_181718	NP_859069	Q5U4P2	ASPH1_HUMAN	aspartate beta-hydroxylase domain containing 1	205	Lumenal (Potential).				peptidyl-amino acid modification	integral to endoplasmic reticulum membrane	oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity				0						GCCGCGGGACGCCCAGCGGCA	0.667													11	116					0	0	0.001855	0	0		A	29912905	A	A	29912905	3	1	209	1	0	0	0	0	1	0	0	0	1055	1087	38	1	615	1	ASPHD1	16	29912905	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	204281	29912905	60441848	937	101352											
TAOK2	9344	broad.mit.edu	37	chr16	29997869	29997869	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccttccactccccattcCtggggctctgggcccaccca	4	8	10	19	0	1	0	0	0	1	0	4	0	4	0	7	4	0	1	7	4	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:29997869C>A	uc002dva.1	+	16	3059	c.2276C>A	c.(2275-2277)CCT>CAT	p.P759H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.P766H|TAOK2_uc002dvd.1_Missense_Mutation_p.P586H	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	759					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CTCCCCATTCCTGGGGCTCTG	0.647													16	102					5.03518e-11	5.59764e-11	0.007413	1	0		A	29997869	A	A	29997869	3	1	209	1	0	0	0	0	1	0	0	0	15573	681	24	5	2334	5	TAOK2	16	29997869	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	84964	29997869	60356884	938	101353											
PPP4C	5531	broad.mit.edu	37	chr16	30096043	30096043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctacctatttggcagtgacGtggtggcccagttcaacgca	8	10	12	11	2	1	1	1	1	0	0	1	1	1	1	2	3	2	4	2	3	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:30096043G>A	uc002dwe.2	+	8	805	c.661G>A	c.(661-663)GTG>ATG	p.V221M	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Missense_Mutation_p.V221M|PPP4C_uc002dwg.2_RNA|PPP4C_uc002dwh.2_Missense_Mutation_p.V142M	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	221					microtubule cytoskeleton organization|regulation of double-strand break repair via homologous recombination	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1						TGGCAGTGACGTGGTGGCCCA	0.582													25	143					0	0	0.003954	0	0		A	30096043	A	A	30096043	3	1	209	1	0	0	0	0	1	0	0	0	12424	1145	40	1	687	1	PPP4C	16	30096043	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	98174	30096043	60258710	939	101354											
TBX6	6911	broad.mit.edu	37	chr16	30097591	30097591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccagatagcccccaggcgcGgtgtatggtagagggaaggg	9	6	17	9	2	0	2	0	0	0	2	1	3	1	3	3	5	1	2	3	5	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:30097591G>A	uc010veh.1	-	9	1326	c.1266C>T	c.(1264-1266)ACC>ACT	p.T422T	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron	NM_004608	NP_004599	O95947	TBX6_HUMAN	T-box 6	422					anatomical structure morphogenesis|mesoderm development|multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2						CCCCAGGCGCGGTGTATGGTA	0.667													25	82					0	0	0.009535	0	0		A	30097591	A	A	30097591	2	1	209	1	0	0	0	0	0	0	0	1	15687	1103	39	1		1	TBX6	16	30097591	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1548	30097591	60257162	940	101355											
PHKG2	5261	broad.mit.edu	37	chr16	30762576	30762576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagagacacacatccttcGccaggtcgccggccaccccc	8	4	10	19	4	0	1	0	0	0	1	3	3	1	1	6	2	0	0	6	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:30762576G>A	uc002dzk.1	+	3	338	c.245G>A	c.(244-246)CGC>CAC	p.R82H	PHKG2_uc002dzi.1_Missense_Mutation_p.R82H|PHKG2_uc002dzj.1_5'UTR|PHKG2_uc002dzl.1_Missense_Mutation_p.R82H	NM_000294	NP_000285	P15735	PHKG2_HUMAN	phosphorylase kinase, gamma 2 (testis)	82	Protein kinase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	ATP binding|calmodulin binding|phosphorylase kinase activity			ovary(1)	1			Colorectal(24;0.198)			CACATCCTTCGCCAGGTCGCC	0.622													8	59					0	0	0.00308	0	0		A	30762576	A	A	30762576	3	1	209	1	0	0	0	0	1	0	0	0	11866	1087	38	1	251	1	PHKG2	16	30762576	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	664985	30762576	59592177	941	101356											
SETD1A	9739	broad.mit.edu	37	chr16	30977128	30977128	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagacctgatgggccgccGccccctgagtaccccccacc	6	4	9	22	2	0	3	0	2	0	1	0	3	0	3	10	1	1	1	10	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:30977128G>A	uc002ead.1	+	8	2612	c.1926G>A	c.(1924-1926)CCG>CCA	p.P642P		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	642	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						ATGGGCCGCCGCCCCCTGAGT	0.557													5	30					0	0	0.00308	0	0		A	30977128	A	A	30977128	2	1	209	1	0	0	0	0	0	0	0	1	14155	1074	38	1		1	SETD1A	16	30977128	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	214552	30977128	59377625	942	101357											
PYDC1	260434	broad.mit.edu	37	chr16	31228252	31228252	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggatgcgctcaaagccctcgCgcagcggcaccgtccccagc	7	4	12	18	5	1	0	1	0	0	0	3	1	2	1	4	2	4	3	4	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:31228252C>T	uc002ebo.2	-	1	147	c.98G>A	c.(97-99)CGC>CAC	p.R33H	TRIM72_uc002ebn.1_Intron	NM_152901	NP_690865	Q8WXC3	PYDC1_HUMAN	pyrin domain containing 1	33	DAPIN.				innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|positive regulation of interleukin-1 beta secretion|proteolysis|tumor necrosis factor-mediated signaling pathway	IkappaB kinase complex|nucleus	cysteine-type endopeptidase activity|protein binding				0						AAAGCCCTCGCGCAGCGGCAC	0.637													7	45					0	0	0.00308	0	0		T	31228252	T	T	31228252	3	4	209	1	0	0	0	0	1	0	0	0	12883	768	27	1	175	1	PYDC1	16	31228252	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	251124	31228252	59126501	943	101358											
ITGAM	3684	broad.mit.edu	37	chr16	31342529	31342529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggtccccaaccccctgcCgctcatcgtgggcagctctg	5	7	11	18	3	2	0	1	0	1	0	4	1	3	0	5	2	3	3	5	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:31342529C>T	uc002ebq.2	+	29	3418	c.3320C>T	c.(3319-3321)CCG>CTG	p.P1107L	ITGAM_uc002ebr.2_Missense_Mutation_p.P1108L|ITGAM_uc010can.2_Missense_Mutation_p.P513L	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	1107	Helical; (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						AACCCCCTGCCGCTCATCGTG	0.682													10	43					0	0	0.00245	0	0		T	31342529	T	T	31342529	3	4	209	1	0	0	0	0	1	0	0	0	7903	652	23	1	3437	1	ITGAM	16	31342529	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	114277	31342529	59012224	944	101359											
PHKB	5257	broad.mit.edu	37	chr16	47674948	47674948	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttattctgcattacagggCccactggaaaatgacttggt	10	12	9	10	0	1	1	0	1	1	0	1	2	1	2	2	3	2	1	2	3	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:47674948C>T	uc002eev.3	+	15	1513	c.1461C>T	c.(1459-1461)GGC>GGT	p.G487G	PHKB_uc002eeu.3_Silent_p.G480G	NM_000293	NP_000284	Q93100	KPBB_HUMAN	phosphorylase kinase, beta isoform a	487					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity			ovary(1)|large_intestine(1)|breast(1)	3		all_cancers(37;0.00447)|all_lung(18;0.00616)|Lung NSC(13;0.0418)|Breast(268;0.203)				CATTACAGGGCCCACTGGAAA	0.378													11	51					0	0	0.008291	0	0		T	47674948	T	T	47674948	2	4	209	1	0	0	0	0	0	0	0	1	11864	726	26	2		2	PHKB	16	47674948	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	16332419	47674948	42679805	945	101360											
CBLN1	869	broad.mit.edu	37	chr16	49315263	49315263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggacgtggggttggagtcGcacaccaccaggcacttgcc	7	7	14	13	3	0	0	0	0	0	0	2	2	0	2	3	5	1	3	3	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:49315263G>A	uc002efq.2	-	1	453	c.114C>T	c.(112-114)TGC>TGT	p.C38C		NM_004352	NP_004343	P23435	CBLN1_HUMAN	cerebellin 1 precursor	38					nervous system development|synaptic transmission	cell junction|extracellular region|synapse					0		all_cancers(37;0.0766)|all_lung(18;0.24)				GGTTGGAGTCGCACACCACCA	0.692													4	32					0	0	0.009096	0	0		A	49315263	A	A	49315263	2	1	209	1	0	0	0	0	0	0	0	1	2707	1079	38	1		1	CBLN1	16	49315263	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1640315	49315263	41039490	946	101361											
SALL1	6299	broad.mit.edu	37	chr16	51173541	51173541	+	Silent	SNP	A	G	G	1	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	ttcatctgattttccaaagcAgcgatgctcgacatctcgag	10	12	8	11	3	3	1	1	1	2	0	6	4	4	1	1	0	3	2	1	0	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:51173541A>G	uc010vgs.1	-	2	2623	c.2592T>C	c.(2590-2592)GCT>GCC	p.A864A	SALL1_uc010vgr.1_Silent_p.A767A|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	864					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TTTCCAAAGCAGCGATGCTCG	0.552													13	71					0	0	0.001855	0	0		G	51173541	G	G	51173541	2	3	209	1	0	0	0	0	0	0	0	1	13835	175	7	3		3	SALL1	16	51173541	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1858278	51173541	39181212	947	101362											
KIFC3	3801	broad.mit.edu	37	chr16	57794956	57794956	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcctgccactctcacccGtggtgcggaggcctgtgctg	3	9	14	15	2	1	0	1	0	1	0	2	1	1	1	4	3	4	2	4	3	0	0	rs150459486	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:57794956G>A	uc002emp.2	-	15	2197	c.2000C>T	c.(1999-2001)ACG>ATG	p.T667M	KIFC3_uc010vhw.1_Missense_Mutation_p.T565M|KIFC3_uc002emn.2_RNA|KIFC3_uc002emm.2_Missense_Mutation_p.T528M|KIFC3_uc010vhx.1_Missense_Mutation_p.T525M|KIFC3_uc010cdf.2_Missense_Mutation_p.T528M|KIFC3_uc002emo.3_Missense_Mutation_p.T528M|KIFC3_uc010vhy.1_Missense_Mutation_p.T609M|KIFC3_uc002emq.2_Missense_Mutation_p.T667M|KIFC3_uc010vhz.1_Missense_Mutation_p.T689M	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	667	Kinesin-motor.				epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)				ACTCTCACCCGTGGTGCGGAG	0.667													5	42					0	0	0.000602	0	0		A	57794956	A	A	57794956	3	1	209	1	0	0	0	0	1	0	0	0	8330	1145	40	1	530	1	KIFC3	16	57794956	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6621415	57794956	32559797	948	101363											
KIFC3	3801	broad.mit.edu	37	chr16	57828936	57828936	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gggtcaggtagagcccgtggGggcttccggggccagcccag	5	5	19	12	2	1	1	1	0	0	1	2	1	2	1	4	6	2	2	4	6	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:57828936G>A	uc002emp.2	-	3	487	c.290C>T	c.(289-291)CCC>CTC	p.P97L	KIFC3_uc010cdf.2_5'UTR|KIFC3_uc002emo.3_5'UTR|KIFC3_uc010vhy.1_5'UTR|KIFC3_uc002emq.2_Missense_Mutation_p.P97L|KIFC3_uc010vhz.1_Missense_Mutation_p.P119L|KIFC3_uc002emr.1_Intron|KIFC3_uc010cdg.1_Intron	NM_005550	NP_005541	Q9BVG8	KIFC3_HUMAN	kinesin family member C3 isoform 1	97					epithelial cell-cell adhesion|microtubule-based movement|visual perception|zonula adherens maintenance	centrosome|cytoplasmic vesicle membrane|kinesin complex|microtubule|zonula adherens	ATP binding|microtubule motor activity			central_nervous_system(2)|ovary(1)	3		all_neural(199;0.224)				GAGCCCGTGGGGGCTTCCGGG	0.667													6	26					0	0	0.001168	0	0		A	57828936	A	A	57828936	3	1	209	1	0	0	0	0	1	0	0	0	8330	1232	43	4	2288	4	KIFC3	16	57828936	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	33980	57828936	32525817	949	101364											
CDH11	1009	broad.mit.edu	37	chr16	64984700	64984700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacgatgcaggcgaggatggCgatcagggcgcctgtgctca	8	6	17	10	4	2	0	2	0	0	0	2	5	2	1	1	4	2	2	1	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:64984700C>T	uc002eoi.2	-	12	2298	c.1864G>A	c.(1864-1866)GCC>ACC	p.A622T	CDH11_uc010cdn.2_RNA|CDH11_uc002eoj.2_Missense_Mutation_p.A622T|CDH11_uc010vin.1_Missense_Mutation_p.A496T	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	622	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GCGAGGATGGCGATCAGGGCG	0.622			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			8	56					0	0	0.00308	0	0		T	64984700	T	T	64984700	3	4	209	1	0	0	0	0	1	0	0	0	3100	768	27	1	534	1	CDH11	16	64984700	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7155764	64984700	25370053	950	101365											
CES8	283848	broad.mit.edu	37	chr16	67037006	67037006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tagcctcgggtctcttccatCgggccatttcccagagtggc	5	11	11	14	2	1	1	0	0	1	1	6	1	3	1	4	3	1	0	4	3	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:67037006C>T	uc002eqv.2	+	6	767	c.724C>T	c.(724-726)CGG>TGG	p.R242W	CES8_uc010vix.1_Missense_Mutation_p.R242W|CES8_uc002eqw.2_Missense_Mutation_p.R242W|CES8_uc002eqy.2_Missense_Mutation_p.R144W|CES8_uc002eqx.2_Missense_Mutation_p.R48W|CES8_uc010viy.1_Missense_Mutation_p.R148W|CES8_uc010viz.1_Missense_Mutation_p.R144W|CES8_uc002eqz.2_5'Flank	NM_173815	NP_776176	Q5XG92	EST4A_HUMAN	carboxylesterase 8 (putative)	242						extracellular region	carboxylesterase activity				0						TCTCTTCCATCGGGCCATTTC	0.552													18	93					0	0	0.00278	0	0		T	67037006	T	T	67037006	3	4	209	1	0	0	0	0	1	0	0	0	3276	875	31	1	827	1	CES8	16	67037006	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2052306	67037006	23317747	951	101366											
EXOC3L	283849	broad.mit.edu	37	chr16	67222722	67222722	+	Missense_Mutation	SNP	A	G	G	1	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	gagtctgtaaggcctgggacAtgccctggagcaacccacgg	9	6	14	12	1	1	0	0	0	1	0	1	3	1	2	3	4	3	2	3	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:67222722A>G	uc002erx.1	-	4	570	c.329T>C	c.(328-330)ATG>ACG	p.M110T	EXOC3L_uc002erv.1_RNA|EXOC3L_uc002erw.1_Intron|EXOC3L_uc002ery.1_Intron|EXOC3L_uc010vje.1_Intron	NM_178516	NP_848611	Q86VI1	EX3L1_HUMAN	exocyst complex component 3-like	110	Mediates interaction with EXOC2, EXOC4 and EXOC5 (By similarity).				exocytosis|peptide hormone secretion	exocyst|stored secretory granule|transport vesicle					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0021)|Epithelial(162;0.0073)|all cancers(182;0.0616)		GGCCTGGGACATGCCCTGGAG	0.672													11	63					0	0	0.008291	0	0		G	67222722	G	G	67222722	3	3	209	1	0	0	0	0	1	0	0	0	5312	217	8	3	1955	3	EXOC3L	16	67222722	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	185716	67222722	23132031	952	101367											
TMEM208	29100	broad.mit.edu	37	chr16	67262891	67262891	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcttgtaggctccaggccggGccctttacctcctgtgggtg	3	12	13	13	1	1	0	0	0	1	0	3	0	3	0	5	4	1	2	5	4	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:67262891G>A	uc002esi.2	+	6	503	c.397G>A	c.(397-399)GCC>ACC	p.A133T	LRRC29_uc002ese.2_5'Flank|LRRC29_uc002esf.2_5'Flank|LRRC29_uc002esg.2_5'Flank|LRRC29_uc010vjg.1_5'Flank|TMEM208_uc002esj.2_RNA	NM_014187	NP_054906	Q9BTX3	TM208_HUMAN	HSPC171 protein	133						integral to membrane					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00067)|Epithelial(162;0.00442)|all cancers(182;0.0417)		TCCAGGCCGGGCCCTTTACCT	0.592													6	103					0	0	0.001168	0	0		A	67262891	A	A	67262891	3	1	209	1	0	0	0	0	1	0	0	0	16158	1203	42	2	419	2	TMEM208	16	67262891	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	40169	67262891	23091862	953	101368											
SLC9A5	6553	broad.mit.edu	37	chr16	67293845	67293845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcctctacaagccgcgccGtagggtgagagcaggcaggc	9	4	16	12	3	1	1	0	1	1	1	1	2	1	1	3	4	3	3	3	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:67293845G>A	uc002esm.2	+	12	1901	c.1838G>A	c.(1837-1839)CGT>CAT	p.R613H	SLC9A5_uc010cee.2_Missense_Mutation_p.R318H|SLC9A5_uc010vji.1_Missense_Mutation_p.R117H|uc002esn.1_5'Flank	NM_004594	NP_004585	Q14940	SL9A5_HUMAN	solute carrier family 9 (sodium/hydrogen	613					regulation of pH	integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			ovary(1)|pancreas(1)	2		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00376)|Epithelial(162;0.0173)|all cancers(182;0.116)		AAGCCGCGCCGTAGGGTGAGA	0.587													7	31					0	0	0.001984	0	0		A	67293845	A	A	67293845	3	1	209	1	0	0	0	0	1	0	0	0	14742	1145	40	1	1884	1	SLC9A5	16	67293845	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	30954	67293845	23060908	954	101369											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67477083	67477083	+	Splice_Site	SNP	T	G	G	0	1	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	cagtcctggaaaaaagccgcTggggaggaaacatggtttga	13	7	14	7	1	0	1	0	1	0	0	1	4	1	4	2	5	2	2	2	5	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:67477083T>G	uc002ete.1	-	4	582	c.482_splice	c.e4-1	p.A161_splice	ATP6V0D1_uc010vjo.1_Splice_Site_p.A202_splice|ATP6V0D1_uc010vjn.1_Splice_Site_p.A84_splice	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit						ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		AAAAAGCCGCTGGGGAGGAAA	0.557													9	66					0	0	0.004482	0	0		G	67477083	G	G	67477083	5	3	209	1	0	0	0	0	0	0	1	0	1174	1594	55	5	595	5	ATP6V0D1	16	67477083	Splice_Site	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	183238	67477083	22877670	955	101370											
ATP6V0D1	9114	broad.mit.edu	37	chr16	67478439	67478439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagcggctcaccaagaggcGtgtccaccagaatggcattg	11	6	12	12	2	1	2	1	0	0	2	2	2	2	2	3	3	1	2	3	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:67478439G>A	uc002ete.1	-	3	573	c.473C>T	c.(472-474)ACG>ATG	p.T158M	ATP6V0D1_uc010vjo.1_Missense_Mutation_p.T199M|ATP6V0D1_uc010vjn.1_Missense_Mutation_p.T81M	NM_004691	NP_004682	P61421	VA0D1_HUMAN	ATPase, H+ transporting, lysosomal, V0 subunit	158					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	endosome membrane|proton-transporting V-type ATPase, V0 domain|vacuolar proton-transporting V-type ATPase complex					0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0439)|Epithelial(162;0.101)		ACCAAGAGGCGTGTCCACCAG	0.622													15	45					0	0	0.004007	0	0		A	67478439	A	A	67478439	3	1	209	1	0	0	0	0	1	0	0	0	1174	1145	40	1	606	1	ATP6V0D1	16	67478439	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1356	67478439	22876314	956	101371											
HAS3	3038	broad.mit.edu	37	chr16	69148385	69148385	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	cttgggcatgtaccgcaacaGcctcctccagcagttcctgg	7	9	10	15	1	0	0	0	0	0	0	3	0	3	0	5	2	4	5	5	2	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:69148385G>C	uc010cfh.2	+	4	1102	c.878G>C	c.(877-879)AGC>ACC	p.S293T	HAS3_uc002ewk.2_Intron|HAS3_uc002ewl.2_Missense_Mutation_p.S293T	NM_005329	NP_005320	O00219	HAS3_HUMAN	hyaluronan synthase 3 isoform a	293	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	hyaluronan synthase activity				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		TACCGCAACAGCCTCCTCCAG	0.597													17	84					0	0	0.004007	0	0		C	69148385	C	C	69148385	3	2	209	1	0	0	0	0	1	0	0	0	6979	971	34	5	888	5	HAS3	16	69148385	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1669946	69148385	21206368	957	101372											
NFAT5	10725	broad.mit.edu	37	chr16	69727392	69727392	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaagaacaggcacaacccCcgcagcagggtttatttcag	12	6	9	14	1	1	1	1	0	0	1	1	1	1	1	3	2	3	4	3	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:69727392C>T	uc002exm.1	+	12	4818	c.3610C>T	c.(3610-3612)CCG>TCG	p.P1204S	NFAT5_uc002exi.2_Missense_Mutation_p.P1128S|NFAT5_uc002exj.1_Missense_Mutation_p.P1128S|NFAT5_uc002exk.1_Missense_Mutation_p.P1128S|NFAT5_uc002exl.1_Missense_Mutation_p.P1222S|NFAT5_uc002exn.1_Missense_Mutation_p.P1221S|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1204					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GGCACAACCCCCGCAGCAGGG	0.507													18	85					0	0	0.006122	0	0		T	69727392	T	T	69727392	3	4	209	1	0	0	0	0	1	0	0	0	10379	623	22	4	3714	4	NFAT5	16	69727392	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	579007	69727392	20627361	958	101373											
CLEC18A	348174	broad.mit.edu	37	chr16	69996959	69996959	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaaacccgaaaccgttacaTctgccagtttggtgagggac	12	8	10	11	2	1	1	0	1	1	0	1	3	1	2	3	2	4	2	3	2	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:69996959T>C	uc010vlo.1	+	12	1412	c.1292T>C	c.(1291-1293)ATC>ACC	p.I431T	CLEC18C_uc002exy.2_Intron|CLEC18A_uc002exz.2_Missense_Mutation_p.I431T|CLEC18A_uc002eya.2_Missense_Mutation_p.I431T	NM_001136214	NP_001129686	A5D8T8	CL18A_HUMAN	secretory protein LOC348174 precursor	431	C-type lectin.					extracellular region	sugar binding				0						AACCGTTACATCTGCCAGTTT	0.602													4	99					0	0	0.006214	0	0		C	69996959	C	C	69996959	3	2	209	1	0	0	0	0	1	0	0	0	3505	1435	50	3	1334	3	CLEC18A	16	69996959	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	269567	69996959	20357794	959	101374											
DDX19B	11269	broad.mit.edu	37	chr16	70359496	70359496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtctatgtctctccccaaCgtatgagctcgccctccaaa	8	11	7	15	2	2	1	0	1	2	0	6	1	4	1	4	0	2	2	4	0	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:70359496C>T	uc002eyo.2	+	7	641	c.512C>T	c.(511-513)ACG>ATG	p.T171M	DDX19B_uc010vly.1_Missense_Mutation_p.T171M|DDX19A_uc002eys.2_Intron|DDX19B_uc010vlv.1_Missense_Mutation_p.T145M|DDX19B_uc010vlw.1_Missense_Mutation_p.T62M|DDX19B_uc002eyp.2_Missense_Mutation_p.T140M|DDX19B_uc002eyq.2_Missense_Mutation_p.T62M|DDX19B_uc002eyr.2_Missense_Mutation_p.T20M|DDX19B_uc010vlx.1_Missense_Mutation_p.T20M|uc002eyt.2_Intron	NM_007242	NP_009173	Q9UMR2	DD19B_HUMAN	DEAD (Asp-Glu-Ala-As) box polypeptide 19 isoform	171	Helicase ATP-binding.				mRNA export from nucleus|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			kidney(1)	1		Ovarian(137;0.0694)				CTCTCCCCAACGTATGAGCTC	0.428													32	135					0	0	0.012213	0	0		T	70359496	T	T	70359496	3	4	209	1	0	0	0	0	1	0	0	0	4350	536	19	1	538	1	DDX19B	16	70359496	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	362537	70359496	19995257	960	101375											
VAC14	55697	broad.mit.edu	37	chr16	70765531	70765531	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acattctaagcctttggtacCtgtagagaaagggatagagc	13	10	11	7	0	1	2	0	0	1	2	1	4	1	3	2	2	3	2	2	2	5	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:70765531C>A	uc002ezm.2	-	14	1787	c.1529_splice	c.e14-1	p.G510_splice	VAC14_uc010cfw.2_Splice_Site_p.G276_splice|VAC14_uc002ezn.2_Splice_Site_p.G75_splice|VAC14_uc002ezl.2_5'Flank|VAC14_uc010cfx.1_Splice_Site	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog						interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				CCTTTGGTACCTGTAGAGAAA	0.388													10	138					5.16669e-11	5.73506e-11	0.010729	1	0		A	70765531	A	A	70765531	5	1	209	1	0	0	0	0	0	0	1	0	17137	695	24	5	844	5	VAC14	16	70765531	Splice_Site	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	406035	70765531	19589222	961	101376											
CLEC18B	497190	broad.mit.edu	37	chr16	74443459	74443459	+	Missense_Mutation	SNP	A	G	G	1	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	gtccctcaccaaactggcagAtgtaacggtttcgggttttg	8	12	11	10	2	1	1	1	0	0	1	3	1	2	1	2	3	2	4	2	3	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:74443459A>G	uc002fct.2	-	12	1519	c.1319T>C	c.(1318-1320)ATC>ACC	p.I440T	CLEC18B_uc002fcu.2_Missense_Mutation_p.I431T	NM_001011880	NP_001011880	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	440	C-type lectin.					extracellular region	sugar binding				0						AAACTGGCAGATGTAACGGTT	0.602													7	192					0	0	0.00308	0	0		G	74443459	G	G	74443459	3	3	209	1	0	0	0	0	1	0	0	0	3506	333	12	3	56	3	CLEC18B	16	74443459	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	3677928	74443459	15911294	962	101377											
WDR59	79726	broad.mit.edu	37	chr16	74908338	74908338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtggctgcagtacacgccGaactctggaaatgggcaggg	10	6	15	10	2	1	0	0	0	1	0	1	2	1	1	1	4	3	4	1	4	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:74908338G>A	uc002fdh.1	-	26	2796	c.2694C>T	c.(2692-2694)TTC>TTT	p.F898F	WDR59_uc002fdf.1_Silent_p.F343F|WDR59_uc002fdg.1_Silent_p.F490F	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	898										ovary(1)|breast(1)	2						AGTACACGCCGAACTCTGGAA	0.557													5	49					0	0	0.001168	0	0		A	74908338	A	A	74908338	2	1	209	1	0	0	0	0	0	0	0	1	17334	1049	37	1		1	WDR59	16	74908338	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	464879	74908338	15446415	963	101378											
MAF	4094	broad.mit.edu	37	chr16	79632973	79632973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgaccccgcgcagctgcCggttcagctcgcgcacagac	6	6	12	17	5	1	2	1	1	0	1	2	2	1	2	3	1	4	6	3	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:79632973C>T	uc002ffn.2	-	1	1650	c.827G>A	c.(826-828)CGG>CAG	p.R276Q	MAF_uc002ffm.2_Missense_Mutation_p.R276Q	NM_001031804	NP_001026974	O75444	MAF_HUMAN	v-maf musculoaponeurotic fibrosarcoma oncogene	276	Represses ARE-mediated transcription.				transcription from RNA polymerase II promoter	chromatin|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_epithelial(2;0.139)|Lung NSC(2;0.186)|Melanoma(2;0.211)		UCEC - Uterine corpus endometrioid carcinoma (2;0.0178)		GCGCAGCTGCCGGTTCAGCTC	0.657			T	IGH@	MM								3	21					0	0	0.004672	0	0		T	79632973	T	T	79632973	3	4	209	1	0	0	0	0	1	0	0	0	9173	652	23	1	396	1	MAF	16	79632973	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4724635	79632973	10721780	964	101379											
CMIP	80790	broad.mit.edu	37	chr16	81641248	81641248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtcctgggagaatgcccCgaagtactgtttacagctca	9	10	11	11	1	1	1	1	0	0	1	2	3	2	1	3	1	4	4	3	1	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:81641248C>T	uc002fgp.2	+	2	449	c.377C>T	c.(376-378)CCG>CTG	p.P126L	CMIP_uc002fgq.1_Missense_Mutation_p.P32L|CMIP_uc010vnq.1_5'Flank	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	92	PH.					cytoplasm|nucleus					0						GAGAATGCCCCGAAGTACTGT	0.463													18	66					0	0	0.008871	0	0		T	81641248	T	T	81641248	3	4	209	1	0	0	0	0	1	0	0	0	3581	652	23	1	405	1	CMIP	16	81641248	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2008275	81641248	8713505	965	101380											
ATP2C2	9914	broad.mit.edu	37	chr16	84494363	84494363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgaagatcctcatgtccGcggccatcatcatcagcggg	8	9	10	14	3	4	2	4	1	0	1	7	2	7	2	4	2	1	0	4	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:84494363G>A	uc002fhx.2	+	24	2526	c.2437G>A	c.(2437-2439)GCG>ACG	p.A813T	ATP2C2_uc010chj.2_Missense_Mutation_p.A842T|ATP2C2_uc002fhy.2_Missense_Mutation_p.A830T|ATP2C2_uc002fhz.2_Missense_Mutation_p.A662T|ATP2C2_uc002fia.2_Missense_Mutation_p.A124T	NM_014861	NP_055676	O75185	AT2C2_HUMAN	ATPase, Ca++ transporting, type 2C, member 2	813	Helical; Name=7; (Potential).				ATP biosynthetic process	Golgi membrane|integral to membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			breast(1)|central_nervous_system(1)	2						CCTCATGTCCGCGGCCATCAT	0.622													6	154					0	0	0.001168	0	0		A	84494363	A	A	84494363	3	1	209	1	0	0	0	0	1	0	0	0	1145	1087	38	1	2531	1	ATP2C2	16	84494363	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2853115	84494363	5860390	966	101381											
KIAA1609	57707	broad.mit.edu	37	chr16	84520283	84520283	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcaagaggcaaacccaccGaacacatgcttgtcatggtc	13	6	10	12	1	1	1	1	0	0	1	2	3	1	1	2	2	4	3	2	2	3	1	rs145452661	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:84520283G>A	uc002fib.2	-	5	1019	c.912C>T	c.(910-912)TTC>TTT	p.F304F	KIAA1609_uc010vod.1_Silent_p.F277F|KIAA1609_uc002fic.2_RNA	NM_020947	NP_065998	Q6P9B6	K1609_HUMAN	hypothetical protein LOC57707	304	TLD.						protein binding			ovary(2)	2						CAAACCCACCGAACACATGCT	0.572													21	55					0	0	0.012319	0	0		A	84520283	A	A	84520283	2	1	209	1	0	0	0	0	0	0	0	1	8263	1049	37	1		1	KIAA1609	16	84520283	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	25920	84520283	5834470	967	101382											
KIAA0182	23199	broad.mit.edu	37	chr16	85701857	85701857	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctccaccccagcacaatgGgcagcaggagccccccactg	9	3	9	20	0	0	0	0	0	0	0	1	1	1	1	7	2	3	3	7	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:85701857G>T	uc002fix.2	+	14	3316	c.3242G>T	c.(3241-3243)GGG>GTG	p.G1081V	KIAA0182_uc002fiw.2_Missense_Mutation_p.G977V|KIAA0182_uc002fiy.2_Missense_Mutation_p.G1008V|KIAA0182_uc002fiz.2_Missense_Mutation_p.G223V|KIAA0182_uc010cho.2_Missense_Mutation_p.G261V	NM_014615	NP_055430	Q14687	GSE1_HUMAN	genetic suppressor element 1 isoform 1	1081							protein binding			large_intestine(3)|ovary(1)|skin(1)	5						CAGCACAATGGGCAGCAGGAG	0.512													12	92					9.05144e-12	1.00857e-11	0.001855	1	0		T	85701857	T	T	85701857	3	4	209	1	0	0	0	0	1	0	0	0	8175	1232	43	5	3296	5	KIAA0182	16	85701857	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1181574	85701857	4652896	968	101383											
ZC3H18	124245	broad.mit.edu	37	chr16	88666260	88666260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttgaagagaaaaggtttaCggtgaccattggcgaagacg	13	10	13	5	3	0	4	0	2	0	2	0	6	0	4	1	3	1	1	1	3	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:88666260C>T	uc002fky.2	+	6	1192	c.992C>T	c.(991-993)ACG>ATG	p.T331M	ZC3H18_uc010voy.1_Missense_Mutation_p.T214M|ZC3H18_uc010voz.1_Missense_Mutation_p.T355M	NM_144604	NP_653205	Q86VM9	ZCH18_HUMAN	zinc finger CCCH-type containing 18	331						nucleus	nucleic acid binding|zinc ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0542)		AAAAGGTTTACGGTGACCATT	0.388													36	130					0	0	0.00623	0	0		T	88666260	T	T	88666260	3	4	209	1	0	0	0	0	1	0	0	0	17593	536	19	1	1010	1	ZC3H18	16	88666260	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2964403	88666260	1688493	969	101384											
CTU2	348180	broad.mit.edu	37	chr16	88781638	88781638	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgtctgattgaggacagtgaCgacgaggcgggccagagctg	9	7	17	8	3	1	4	0	3	1	1	1	7	1	5	1	3	1	1	1	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:88781638C>T	uc002flm.2	+	15	1575	c.1527C>T	c.(1525-1527)GAC>GAT	p.D509D	CTU2_uc002fln.2_3'UTR|CTU2_uc010chz.2_Silent_p.D580D|CTU2_uc010cia.2_Silent_p.D422D|FAM38A_uc002flo.3_3'UTR|FAM38A_uc002flp.3_3'UTR|FAM38A_uc002flq.3_3'UTR|FAM38A_uc002flr.3_3'UTR|FAM38A_uc010cib.2_3'UTR|FAM38A_uc010vpb.1_3'UTR	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	509					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						AGGACAGTGACGACGAGGCGG	0.667													4	53					0	0	0.000602	0	0		T	88781638	T	T	88781638	2	4	209	1	0	0	0	0	0	0	0	1	4051	535	19	1		1	CTU2	16	88781638	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	115378	88781638	1573115	970	101385											
CDT1	81620	broad.mit.edu	37	chr16	88872228	88872228	+	Silent	SNP	C	T	T	0	0	0	1	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	gtccccaccttcaaggatggCaccaggaggtcagattacca	11	7	10	13	0	2	1	2	0	0	1	3	3	3	3	5	4	1	1	5	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:88872228C>T	uc002flu.2	+	5	837	c.783C>T	c.(781-783)GGC>GGT	p.G261G		NM_030928	NP_112190	Q9H211	CDT1_HUMAN	chromatin licensing and DNA replication factor	261					DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|regulation of DNA-dependent DNA replication initiation|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nucleoplasm	DNA binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0476)		TCAAGGATGGCACCAGGAGGT	0.597													6	23					0	0	0.001168	0	0		T	88872228	T	T	88872228	2	4	209	1	0	0	0	0	0	0	0	1	3183	697	25	2		2	CDT1	16	88872228	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	90590	88872228	1482525	971	101386											
CDH15	1013	broad.mit.edu	37	chr16	89245841	89245841	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagcctctgcctgtctttGggggttcctggatggaggag	5	11	16	9	0	2	1	0	0	2	1	3	4	3	4	3	5	2	1	3	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:89245841G>T	uc002fmt.2	+	2	137	c.60G>T	c.(58-60)TTG>TTT	p.L20F	CDH15_uc010cij.1_Missense_Mutation_p.L20F	NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	20					adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		GCCTGTCTTTGGGGGTTCCTG	0.687													16	90					2.23348e-06	2.40211e-06	0.004007	1	0		T	89245841	T	T	89245841	3	4	209	1	0	0	0	0	1	0	0	0	3103	1339	47	5	66	5	CDH15	16	89245841	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	373613	89245841	1108912	972	101387											
CDH15	1013	broad.mit.edu	37	chr16	89254627	89254627	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcaccatcctggaaggcgaCcccgatgggcagttcaccat	9	8	10	14	2	2	0	2	0	0	0	3	3	3	1	5	3	0	2	5	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:89254627C>T	uc002fmt.2	+	7	989	c.912C>T	c.(910-912)GAC>GAT	p.D304D		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	304	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		TGGAAGGCGACCCCGATGGGC	0.652													4	28					0	0	0.009096	0	0		T	89254627	T	T	89254627	2	4	209	1	0	0	0	0	0	0	0	1	3103	506	18	4		4	CDH15	16	89254627	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	8786	89254627	1100126	973	101388											
RPL13	6137	broad.mit.edu	37	chr16	89629420	89629420	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaaaagagccaaggaagcCgcagaacaggatgttgaaaa	19	3	12	7	1	0	3	0	1	0	2	0	5	0	5	2	2	3	3	2	2	7	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:89629420C>T	uc002fnm.1	+	6	657	c.606C>T	c.(604-606)GCC>GCT	p.A202A	RPL13_uc010vpj.1_Silent_p.A155A|RPL13_uc002fnn.1_Silent_p.A202A|RPL13_uc002fno.1_3'UTR	NM_000977	NP_000968	P26373	RL13_HUMAN	ribosomal protein L13	202					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic ribosome	protein binding|RNA binding|structural constituent of ribosome				0		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)		CCAAGGAAGCCGCAGAACAGG	0.527													3	40					0	0	0.004672	0	0		T	89629420	T	T	89629420	2	4	209	1	0	0	0	0	0	0	0	1	13584	639	23	1		1	RPL13	16	89629420	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	374793	89629420	725333	974	101389											
CPNE7	27132	broad.mit.edu	37	chr16	89661933	89661933	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caggtcctggacggcgacgaCggcgtcctgcgctccccacg	5	5	14	17	7	0	0	0	0	0	0	3	3	3	1	4	4	1	1	4	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr16:89661933C>T	uc002fnp.2	+	16	1816	c.1686C>T	c.(1684-1686)GAC>GAT	p.D562D	CPNE7_uc002fnq.2_Silent_p.D487D	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	562	VWFA.				lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		ACGGCGACGACGGCGTCCTGC	0.672													21	52					0	0	0.010504	0	0		T	89661933	T	T	89661933	2	4	209	1	0	0	0	0	0	0	0	1	3820	535	19	1		1	CPNE7	16	89661933	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	32513	89661933	692820	975	101390											
ABR	29	broad.mit.edu	37	chr17	910465	910465	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggtgtgctttgctctcCacttctgagggtctcagtaa	6	14	12	9	0	3	2	1	2	3	0	5	2	3	2	1	2	2	3	1	2	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:910465C>A	uc002fsd.2	-	22	2540	c.2430G>T	c.(2428-2430)GTG>GTT	p.V810V	ABR_uc002fse.2_Silent_p.V764V|ABR_uc010vqf.1_Silent_p.V261V|ABR_uc010vqg.1_Silent_p.V592V|ABR_uc002fsg.2_Silent_p.V773V|ABR_uc002fsf.2_Silent_p.V347V	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related	810	Rho-GAP.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		CTTTGCTCTCCACTTCTGAGG	0.597													8	62					0.00621372	0.0063626	0.006214	1	0		A	910465	A	A	910465	2	1	209	1	0	0	0	0	0	0	0	1	99	581	21	5		5	ABR	17	910465	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		910465	80284745	976	101391											
INPP5K	51763	broad.mit.edu	37	chr17	1410361	1410361	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggaactcccggagcagcgggTcatgtttcttggcaatgctg	7	10	14	10	2	2	0	1	0	1	0	3	2	3	2	1	4	4	4	1	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:1410361T>C	uc002fsr.2	-	7	1078	c.689A>G	c.(688-690)GAC>GGC	p.D230G	INPP5K_uc002fss.2_Missense_Mutation_p.D154G|INPP5K_uc002fsq.2_Missense_Mutation_p.D154G|INPP5K_uc010cjr.2_Missense_Mutation_p.D154G|INPP5K_uc010vql.1_Missense_Mutation_p.D138G|INPP5K_uc010vqm.1_Missense_Mutation_p.D134G	NM_016532	NP_057616	Q9BT40	INP5K_HUMAN	inositol polyphosphate-5-phosphatase K isoform	230	Catalytic (Potential).				actin cytoskeleton organization	cytosol|endoplasmic reticulum|membrane fraction|neuron projection|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol bisphosphate phosphatase activity|inositol bisphosphate phosphatase activity|inositol trisphosphate phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|lipid phosphatase activity|protein binding				0						GAGCAGCGGGTCATGTTTCTT	0.562													8	36					0	0	0.004482	0	0		C	1410361	C	C	1410361	3	2	209	1	0	0	0	0	1	0	0	0	7776	1667	58	3	681	3	INPP5K	17	1410361	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	499896	1410361	79784849	977	101392											
PRPF8	10594	broad.mit.edu	37	chr17	1579520	1579520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctataagcttccttgagccGctccaatgccaagatgagca	11	9	8	13	1	0	3	0	2	0	1	2	3	2	3	5	0	4	3	5	0	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:1579520G>A	uc002fte.2	-	17	2647	c.2533C>T	c.(2533-2535)CGG>TGG	p.R845W		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	845						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		TCCTTGAGCCGCTCCAATGCC	0.517													19	129					0	0	0.006122	0	0		A	1579520	A	A	1579520	3	1	209	1	0	0	0	0	1	0	0	0	12597	1086	38	1	4582	1	PRPF8	17	1579520	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	169159	1579520	79615690	978	101393											
RTN4RL1	146760	broad.mit.edu	37	chr17	1840254	1840254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcaggtcctggccgtgccGcagcccaggggacacacagg	7	5	14	15	2	1	0	1	0	0	0	2	1	2	1	4	5	2	1	4	5	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:1840254G>A	uc002ftp.2	-	2	881	c.862C>T	c.(862-864)CGG>TGG	p.R288W		NM_178568	NP_848663	Q86UN2	R4RL1_HUMAN	reticulon 4 receptor-like 1 precursor	288	LRRCT.				axon regeneration	anchored to plasma membrane	receptor activity				0						TGGCCGTGCCGCAGCCCAGGG	0.677													3	9					0	0	0.004672	0	0		A	1840254	A	A	1840254	3	1	209	1	0	0	0	0	1	0	0	0	13756	1086	38	1	467	1	RTN4RL1	17	1840254	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	260734	1840254	79354956	979	101394											
ITGAE	3682	broad.mit.edu	37	chr17	3651342	3651342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcaggcgaaccacaggccGggagctaaacaagacagcaa	15	3	11	12	2	1	1	1	0	0	1	1	3	1	2	2	3	4	2	2	3	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:3651342G>A	uc002fwo.3	-	17	2128	c.2029C>T	c.(2029-2031)CGG>TGG	p.R677W		NM_002208	NP_002199	P38570	ITAE_HUMAN	integrin, alpha E precursor	677	FG-GAP 7.|Extracellular (Potential).				cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			large_intestine(2)|breast(1)|pancreas(1)	4				UCEC - Uterine corpus endometrioid carcinoma (3;0.0813)		ACCACAGGCCGGGAGCTAAAC	0.493													7	68					0	0	0.00308	0	0		A	3651342	A	A	3651342	3	1	209	1	0	0	0	0	1	0	0	0	7901	1115	39	1	1570	1	ITGAE	17	3651342	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1811088	3651342	77543868	980	101395											
SMTNL2	342527	broad.mit.edu	37	chr17	4510676	4510676	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatctggccaactgtgagcGcctcatcgaagtggaggaca	11	7	13	10	2	2	1	1	1	1	0	3	5	2	3	2	3	2	0	2	3	3	0	rs141427435		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:4510676G>A	uc002fyf.1	+	8	1347	c.1280G>A	c.(1279-1281)CGC>CAC	p.R427H	SMTNL2_uc002fye.2_Missense_Mutation_p.R283H	NM_001114974	NP_001108446	Q2TAL5	SMTL2_HUMAN	smoothelin-like 2 isoform 1	427	CH.										0				READ - Rectum adenocarcinoma(115;0.0325)		AACTGTGAGCGCCTCATCGAA	0.617													49	237					0	0	0.01441	0	0		A	4510676	A	A	4510676	3	1	209	1	0	0	0	0	1	0	0	0	14841	1087	38	1	1310	1	SMTNL2	17	4510676	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	859334	4510676	76684534	981	101396											
PELP1	27043	broad.mit.edu	37	chr17	4594216	4594216	+	Silent	SNP	C	T	T	0	0	0	1	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	tgaatgctccgaagccaagaCacacagtgctgctggaatag	13	7	11	10	1	0	2	0	1	0	1	1	4	1	3	2	1	4	3	2	1	5	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:4594216C>T	uc002fyi.3	-	3	613	c.387G>A	c.(385-387)GTG>GTA	p.V129V	PELP1_uc010vsf.1_5'UTR	NM_014389	NP_055204	Q8IZL8	PELP1_HUMAN	proline, glutamic acid and leucine rich protein	129					transcription, DNA-dependent	cytoplasm|MLL1 complex	protein binding			ovary(1)|central_nervous_system(1)	2						GAAGCCAAGACACACAGTGCT	0.532													17	55					0	0	0.004007	0	0		T	4594216	T	T	4594216	2	4	209	1	0	0	0	0	0	0	0	1	11744	465	17	4		4	PELP1	17	4594216	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	83540	4594216	76600994	982	101397											
ZNF594	84622	broad.mit.edu	37	chr17	5085407	5085407	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgtgtgccacatgaagagTttcccacattccttacattc	9	12	7	13	1	0	2	0	1	0	1	3	2	2	2	4	0	2	1	4	0	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:5085407T>C	uc010cla.1	-	2	2301	c.2145A>G	c.(2143-2145)AAA>AAG	p.K715K		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	715	C2H2-type 22.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						ACATGAAGAGTTTCCCACATT	0.468													39	108					0	0	0.00623	0	0		C	5085407	C	C	5085407	2	2	209	1	0	0	0	0	0	0	0	1	18049	1722	60	3		3	ZNF594	17	5085407	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	491191	5085407	76109803	983	101398											
BCL6B	255877	broad.mit.edu	37	chr17	6927490	6927490	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccgaagcgagaggcttcGcccctctattggacttcatg	7	10	11	13	3	2	1	1	0	1	1	4	4	3	2	3	2	1	1	3	2	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:6927490G>A	uc002geg.2	+	3	325	c.268G>A	c.(268-270)GCC>ACC	p.A90T	BCL6B_uc010clt.1_Missense_Mutation_p.A90T	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	90	BTB.					nucleus	zinc ion binding			skin(1)	1						GAGAGGCTTCGCCCCTCTATT	0.612													17	162					0	0	0.00499	0	0		A	6927490	A	A	6927490	3	1	209	1	0	0	0	0	1	0	0	0	1378	1087	38	1	274	1	BCL6B	17	6927490	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1842083	6927490	74267720	984	101399											
NEURL4	84461	broad.mit.edu	37	chr17	7227488	7227488	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcgacgacagcatagacGcccgggggcacgttccaggc	10	4	14	13	5	0	2	0	0	0	2	2	4	1	2	2	3	1	3	2	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:7227488G>A	uc002gga.1	-	11	2008	c.2001C>T	c.(1999-2001)GGC>GGT	p.G667G	NEURL4_uc002ggb.1_Silent_p.G667G|NEURL4_uc002ggc.1_Silent_p.G13G	NM_032442	NP_115818	Q96JN8	NEUL4_HUMAN	neuralized homolog 4 isoform 1	667	NHR 3.						protein binding			upper_aerodigestive_tract(1)|ovary(1)	2						CAGCATAGACGCCCGGGGGCA	0.677											OREG0024134	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	128					0	0	0.001855	0	0		A	7227488	A	A	7227488	2	1	209	1	0	0	0	0	0	0	0	1	10366	1074	38	1		1	NEURL4	17	7227488	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	299998	7227488	73967722	985	101400											
TP53	7157	broad.mit.edu	37	chr17	7579313	7579313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcagggcaactgaccGtgcaagtcacagacttggct	9	7	11	14	1	2	2	2	1	0	1	2	2	2	2	3	2	2	3	3	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:7579313G>A	uc002gim.2	-	4	568	c.374C>T	c.(373-375)ACG>ATG	p.T125M	TP53_uc002gig.1_Missense_Mutation_p.T125M|TP53_uc002gih.2_Missense_Mutation_p.T125M|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_5'Flank|TP53_uc010cng.1_5'Flank|TP53_uc002gii.1_5'Flank|TP53_uc010cnh.1_Missense_Mutation_p.T125M|TP53_uc010cni.1_Missense_Mutation_p.T125M|TP53_uc002gij.2_Missense_Mutation_p.T125M|TP53_uc010cnj.1_5'Flank|TP53_uc002gin.2_Intron|TP53_uc002gio.2_Intron|TP53_uc010vug.1_Missense_Mutation_p.T86M|TP53_uc010cnk.1_Missense_Mutation_p.T140M	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	125	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		T -> A (in a sporadic cancer; somatic mutation).|T -> M (in sporadic cancers; somatic mutation).|T -> R (in sporadic cancers; somatic mutation).|T -> P (in a sporadic cancer; somatic mutation).|T -> K (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.T125T(15)|p.0?(7)|p.T125M(7)|p.T125R(3)|p.T125K(3)|p.G59fs*23(3)|p.V73fs*9(1)|p.T125P(1)|p.T125fs*45(1)|p.G105_T125del21(1)|p.Y126fs*11(1)|p.Y107fs*44(1)|p.T125fs*24(1)|p.T125A(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.T125_Y126insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GCAACTGACCGTGCAAGTCAC	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			17	93					0	0	0.010504	0	0		A	7579313	A	A	7579313	3	1	209	1	0	0	0	0	1	0	0	0	16407	1159	40	1	928	1	TP53	17	7579313	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	351825	7579313	73615897	986	101401											
ALOX15B	247	broad.mit.edu	37	chr17	7942761	7942761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgagtgctgctgctgcgcGtgcacaaggcgcccccagtg	5	6	15	15	4	0	0	0	0	0	0	0	1	0	0	3	1	5	4	3	1	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:7942761G>A	uc002gju.2	+	2	321	c.205G>A	c.(205-207)GTG>ATG	p.V69M	ALOX15B_uc002gjv.2_Missense_Mutation_p.V69M|ALOX15B_uc002gjw.2_Missense_Mutation_p.V69M|ALOX15B_uc010vun.1_Missense_Mutation_p.V69M|ALOX15B_uc010cnp.2_Translation_Start_Site	NM_001141	NP_001132	O15296	LX15B_HUMAN	arachidonate 15-lipoxygenase, second type	69	PLAT.				induction of apoptosis|leukotriene biosynthetic process|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of growth|prostate gland development|regulation of epithelial cell differentiation	cytoplasm	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			ovary(1)	1						GCTGCTGCGCGTGCACAAGGC	0.706													6	15					0	0	0.001168	0	0		A	7942761	A	A	7942761	3	1	209	1	0	0	0	0	1	0	0	0	539	1145	40	1	211	1	ALOX15B	17	7942761	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	363448	7942761	73252449	987	101402											
ALOX12B	242	broad.mit.edu	37	chr17	7976517	7976517	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcaccagcagcgtgatgcaCgtggtcttcacatccggcaa	10	7	11	13	3	2	1	1	1	1	0	3	1	3	1	2	2	4	4	2	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:7976517C>T	uc002gjy.1	-	14	2136	c.1875G>A	c.(1873-1875)ACG>ACA	p.T625T		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	625	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						GCGTGATGCACGTGGTCTTCA	0.617										Multiple Myeloma(8;0.094)			33	198					0	0	0.012213	0	0		T	7976517	T	T	7976517	2	4	209	1	0	0	0	0	0	0	0	1	537	523	19	1		1	ALOX12B	17	7976517	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	33756	7976517	73218693	988	101403											
ARHGEF15	22899	broad.mit.edu	37	chr17	8221898	8221898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttacctagatcatcgagcGttgcagcgctgaggtggggc	7	9	14	11	3	1	2	1	1	0	1	2	3	1	2	2	3	4	3	2	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:8221898G>A	uc002glc.2	+	11	1911	c.1790G>A	c.(1789-1791)CGT>CAT	p.R597H	ARHGEF15_uc002gld.2_Missense_Mutation_p.R597H|ARHGEF15_uc010vuw.1_Missense_Mutation_p.R486H	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	597	DH.				negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ATCATCGAGCGTTGCAGCGCT	0.607													10	41					0	0	0.006214	0	0		A	8221898	A	A	8221898	3	1	209	1	0	0	0	0	1	0	0	0	898	1145	40	1	1828	1	ARHGEF15	17	8221898	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	245381	8221898	72973312	989	101404											
ARHGEF15	22899	broad.mit.edu	37	chr17	8222917	8222917	+	Silent	SNP	T	C	C	0	1	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	aaacacctgcacaagaccccTgaaggtgagaaagtctttca	15	7	8	11	0	2	3	1	2	1	2	2	4	2	3	3	1	2	1	3	1	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:8222917T>C	uc002glc.2	+	15	2491	c.2370T>C	c.(2368-2370)CCT>CCC	p.P790P	ARHGEF15_uc002gld.2_Silent_p.P790P|ARHGEF15_uc010vuw.1_Silent_p.P679P	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	790					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ACAAGACCCCTGAAGGTGAGA	0.333													8	108					0	0	0.00308	0	0		C	8222917	C	C	8222917	2	2	209	1	0	0	0	0	0	0	0	1	898	1567	55	3		3	ARHGEF15	17	8222917	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1019	8222917	72972293	990	101405											
GAS7	8522	broad.mit.edu	37	chr17	9873070	9873070	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggggtccctgatgcgtggTatccattcactgcagggaca	7	10	13	11	1	1	1	1	1	0	0	3	2	3	2	2	4	2	2	2	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:9873070T>C	uc002gmg.1	-	4	556	c.395A>G	c.(394-396)TAC>TGC	p.Y132C	GAS7_uc010vvd.1_Missense_Mutation_p.Y84C|GAS7_uc002gmi.2_Missense_Mutation_p.Y68C|GAS7_uc002gmj.1_Missense_Mutation_p.Y72C|GAS7_uc010coh.1_Missense_Mutation_p.Y72C	NM_201433	NP_958839	O60861	GAS7_HUMAN	growth arrest-specific 7 isoform c	132					cell cycle arrest	cytoplasm	sequence-specific DNA binding transcription factor activity			lung(1)|pancreas(1)	2						TGATGCGTGGTATCCATTCAC	0.607			T	MLL	AML*								21	93					0	0	0.00278	0	0		C	9873070	C	C	9873070	3	2	209	1	0	0	0	0	1	0	0	0	6265	1638	57	3	1130	3	GAS7	17	9873070	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	1650153	9873070	71322140	991	101406											
DNAH9	1770	broad.mit.edu	37	chr17	11840771	11840771	+	Missense_Mutation	SNP	A	G	G	1	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	cctcagaaaagctcttccgcActgtgctggagctgcagcct	8	9	10	14	1	2	1	1	0	1	1	3	2	3	2	3	1	5	5	3	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:11840771A>G	uc002gne.2	+	66	12660	c.12592A>G	c.(12592-12594)ACT>GCT	p.T4198A	DNAH9_uc010coo.2_Missense_Mutation_p.T3416A|DNAH9_uc002gnf.2_Missense_Mutation_p.T510A	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	4198					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		GCTCTTCCGCACTGTGCTGGA	0.607													24	63					0	0	0.014323	0	0		G	11840771	G	G	11840771	3	3	209	1	0	0	0	0	1	0	0	0	4614	159	6	3	12854	3	DNAH9	17	11840771	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1967701	11840771	69354439	992	101407											
SREBF1	6720	broad.mit.edu	37	chr17	17720296	17720296	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggtccaggtcagcctgCttgcgatgcctccagaagta	8	8	12	13	1	1	1	1	0	0	1	3	2	3	1	5	2	4	2	5	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:17720296C>G	uc002gru.1	-	9	1955	c.1761G>C	c.(1759-1761)AAG>AAC	p.K587N	SREBF1_uc002grp.1_Missense_Mutation_p.K206N|SREBF1_uc002grq.1_Missense_Mutation_p.K106N|SREBF1_uc002grr.1_Missense_Mutation_p.K333N|SREBF1_uc002grs.1_Missense_Mutation_p.K563N|SREBF1_uc002grt.1_Missense_Mutation_p.K617N	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	587	Cytoplasmic (Potential).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						GGTCAGCCTGCTTGCGATGCC	0.652													9	94					0	0	0.006214	0	0		G	17720296	G	G	17720296	3	3	209	1	0	0	0	0	1	0	0	0	15166	796	28	5	1726	5	SREBF1	17	17720296	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5879525	17720296	63474914	993	101408											
TOM1L2	146691	broad.mit.edu	37	chr17	17754260	17754260	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgacagatggctgcgcaaCggggatctatggaggcggca	10	6	16	9	3	1	2	0	1	1	1	1	4	1	4	0	6	2	3	0	6	2	1	rs150784633	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:17754260C>T	uc002grz.3	-	13	1442	c.1285G>A	c.(1285-1287)GTT>ATT	p.V429I	TOM1L2_uc002gry.3_Missense_Mutation_p.V379I|TOM1L2_uc010vwy.1_Missense_Mutation_p.V405I|TOM1L2_uc010cpr.2_Missense_Mutation_p.V384I|TOM1L2_uc010vwz.1_Missense_Mutation_p.V310I|TOM1L2_uc010vxa.1_Intron|TOM1L2_uc002grv.3_Missense_Mutation_p.V162I	NM_001082968	NP_001076437	Q6ZVM7	TM1L2_HUMAN	target of myb1-like 2 isoform 3	429					intracellular protein transport	intracellular					0	all_neural(463;0.228)					GGCTGCGCAACGGGGATCTAT	0.587													14	93					0	0	0.00245	0	0		T	17754260	T	T	17754260	3	4	209	1	0	0	0	0	1	0	0	0	16378	536	19	1	250	1	TOM1L2	17	17754260	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	33964	17754260	63440950	994	101409											
MYO15A	51168	broad.mit.edu	37	chr17	18054563	18054563	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gctccccatcaagcctgtggCtgcccctgttctagctcagg	5	10	10	16	0	3	0	2	0	1	0	4	0	4	0	5	2	3	4	5	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:18054563C>T	uc010vxh.1	+	38	7951	c.7613C>T	c.(7612-7614)GCT>GTT	p.A2538V	MYO15A_uc010vxi.1_5'Flank|MYO15A_uc010vxj.1_5'Flank|MYO15A_uc010vxk.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2538	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					AAGCCTGTGGCTGCCCCTGTT	0.642													12	106					0	0	0.013537	0	0		T	18054563	T	T	18054563	3	4	209	1	0	0	0	0	1	0	0	0	10081	797	28	2	7759	2	MYO15A	17	18054563	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	300303	18054563	63140647	995	101410											
LLGL1	3996	broad.mit.edu	37	chr17	18145266	18145266	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcccggaacatcacagagccGctctgctctctggacattaa	10	8	9	14	2	3	1	1	0	2	1	4	3	3	3	2	2	3	2	2	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:18145266G>T	uc002gsp.2	+	19	2896	c.2835G>T	c.(2833-2835)CCG>CCT	p.P945P		NM_004140	NP_004131	Q15334	L2GL1_HUMAN	lethal giant larvae homolog 1	945				P -> G (in Ref. 1; CAA60130).	cortical actin cytoskeleton organization|exocytosis|protein complex assembly	cortical actin cytoskeleton	protein kinase binding|structural molecule activity			breast(2)|skin(2)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)	6	all_neural(463;0.228)					TCACAGAGCCGCTCTGCTCTC	0.592													24	79					9.39395e-14	1.05564e-13	0.00632	1	0		T	18145266	T	T	18145266	2	4	209	1	0	0	0	0	0	0	0	1	8850	1074	38	5		5	LLGL1	17	18145266	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	90703	18145266	63049944	996	101411											
MFAP4	4239	broad.mit.edu	37	chr17	19287914	19287914	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttggcaaagtggcagctgCggaaccagaaggctcctgag	10	6	16	9	1	0	2	0	1	0	1	1	3	1	3	2	5	3	5	2	5	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:19287914C>T	uc002gvt.2	-	6	654	c.629G>A	c.(628-630)CGC>CAC	p.R210H	uc010vyt.1_5'Flank|MFAP4_uc002gvr.2_RNA|MFAP4_uc002gvs.2_Missense_Mutation_p.R234H	NM_002404	NP_002395	P55083	MFAP4_HUMAN	microfibrillar-associated protein 4 precursor	210	Fibrinogen C-terminal.				cell adhesion|signal transduction	microfibril	receptor binding				0	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					GTGGCAGCTGCGGAACCAGAA	0.567													12	56					0	0	0.013537	0	0		T	19287914	T	T	19287914	3	4	209	1	0	0	0	0	1	0	0	0	9535	768	27	1	142	1	MFAP4	17	19287914	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1142648	19287914	61907296	997	101412											
KCNJ12	3768	broad.mit.edu	37	chr17	21319768	21319768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaagttcctgctgcccagcGccaactccttctgctacgag	8	9	8	16	2	1	0	0	0	1	0	3	1	3	0	4	0	6	3	4	0	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:21319768G>A	uc002gyv.1	+	3	1819	c.1114G>A	c.(1114-1116)GCC>ACC	p.A372T		NM_021012	NP_066292	Q14500	IRK12_HUMAN	potassium inwardly-rectifying channel, subfamily	372	Cytoplasmic (By similarity).				blood circulation|muscle contraction|regulation of heart contraction|synaptic transmission	integral to membrane	inward rectifier potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(3)|skin(1)	4				Colorectal(15;0.0183)|COAD - Colon adenocarcinoma(3;0.0732)	Dofetilide(DB00204)	GCTGCCCAGCGCCAACTCCTT	0.612										Prostate(3;0.18)			13	94					0	0	0.001855	0	0		A	21319768	A	A	21319768	3	1	209	1	0	0	0	0	1	0	0	0	8062	1087	38	1	1116	1	KCNJ12	17	21319768	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2031854	21319768	59875442	998	101413											
NOS2	4843	broad.mit.edu	37	chr17	26106007	26106007	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caccctgggaactccaggccGcccacctcaagcagcatgtt	9	6	9	17	1	1	0	1	0	0	0	2	1	2	1	5	2	3	3	5	2	2	1	rs140983392	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:26106007G>A	uc002gzu.2	-	10	1344	c.1080C>T	c.(1078-1080)GGC>GGT	p.G360G	NOS2_uc010crh.1_Silent_p.G360G|NOS2_uc010wab.1_Silent_p.G360G	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	360					arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	ACTCCAGGCCGCCCACCTCAA	0.567													10	92					0	0	0.010729	0	0		A	26106007	A	A	26106007	2	1	209	1	0	0	0	0	0	0	0	1	10562	1074	38	1		1	NOS2	17	26106007	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4786239	26106007	55089203	999	101414											
SLC46A1	113235	broad.mit.edu	37	chr17	26731940	26731940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttcctggacttctctggggCgggagccacatagagctgga	7	10	14	10	1	1	1	0	0	1	1	3	4	2	4	2	5	2	1	2	5	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:26731940C>T	uc002hbf.1	-	2	871	c.775G>A	c.(775-777)GCC>ACC	p.A259T	SLC46A1_uc002hbg.1_Missense_Mutation_p.A259T|SLC46A1_uc010wak.1_Missense_Mutation_p.A259T	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	259					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	TTCTCTGGGGCGGGAGCCACA	0.532													10	130					0	0	0.010729	0	0		T	26731940	T	T	26731940	3	4	209	1	0	0	0	0	1	0	0	0	14669	768	27	1	621	1	SLC46A1	17	26731940	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	625933	26731940	54463270	1000	101415											
SEZ6	124925	broad.mit.edu	37	chr17	27284384	27284384	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acggagacatttaggggcccGgtcactccacttggggctgc	7	8	14	12	2	1	1	1	0	0	1	2	2	2	1	2	6	1	1	2	6	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:27284384G>A	uc002hdp.2	-	12	2670	c.2476C>T	c.(2476-2478)CGG>TGG	p.R826W	SEZ6_uc010crx.1_Missense_Mutation_p.R21W|SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.R826W|SEZ6_uc002hdq.1_Missense_Mutation_p.R701W	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	826	Extracellular (Potential).|Sushi 4.					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			TTAGGGGCCCGGTCACTCCAC	0.562													11	210					0	0	0.008291	0	0		A	27284384	A	A	27284384	3	1	209	1	0	0	0	0	1	0	0	0	14167	1115	39	1	545	1	SEZ6	17	27284384	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	552444	27284384	53910826	1001	101416											
TAOK1	57551	broad.mit.edu	37	chr17	27837956	27837956	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagaagaaagaactgaatagTtttctcgagtcccagaaaag	17	8	9	7	1	1	5	0	1	1	4	3	6	2	5	1	0	1	1	1	0	7	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:27837956T>C	uc002hdz.1	+	15	1844	c.1650T>C	c.(1648-1650)AGT>AGC	p.S550S	TAOK1_uc010wbe.1_Silent_p.S550S|TAOK1_uc010wbf.1_Silent_p.S550S|TAOK1_uc002heb.1_Silent_p.S376S	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	550	Potential.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			AACTGAATAGTTTTCTCGAGT	0.323													4	104					0	0	0.000602	0	0		C	27837956	C	C	27837956	2	2	209	1	0	0	0	0	0	0	0	1	15572	1722	60	3		3	TAOK1	17	27837956	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	553572	27837956	53357254	1002	101417											
NF1	4763	broad.mit.edu	37	chr17	29552151	29552151	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcactttctccttttttaCggggtaggatgtgatattcc	6	18	9	8	1	2	1	1	1	1	0	4	2	3	2	2	3	1	1	2	3	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:29552151C>T	uc002hgg.2	+	17	2217	c.1884C>T	c.(1882-1884)TAC>TAT	p.Y628Y	NF1_uc002hgh.2_Silent_p.Y628Y|NF1_uc010csn.1_Silent_p.Y488Y|NF1_uc002hgi.1_Translation_Start_Site	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	628					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)|p.G629fs*5(1)|p.Y628fs*3(1)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TCCTTTTTTACGGGGTAGGAT	0.398			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)			26	129					0	0	0.007291	0	0		T	29552151	T	T	29552151	2	4	209	1	0	0	0	0	0	0	0	1	10375	547	19	1		1	NF1	17	29552151	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1714195	29552151	51643059	1003	101418											
SUZ12	23512	broad.mit.edu	37	chr17	30322710	30322710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatacctgcttacctctcCgtccacaagaaatggaagta	12	10	8	11	1	1	2	0	1	1	1	3	3	2	3	4	1	3	2	4	1	6	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:30322710C>T	uc002hgs.2	+	14	1945	c.1723C>T	c.(1723-1725)CGT>TGT	p.R575C	SUZ12_uc002hgt.2_Missense_Mutation_p.R552C	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1	575	VEFS-box.				negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				CTTACCTCTCCGTCCACAAGA	0.358			T	JAZF1	endometrial stromal tumours								5	46					0	0	0.001168	0	0		T	30322710	T	T	30322710	3	4	209	1	0	0	0	0	1	0	0	0	15441	652	23	1	1777	1	SUZ12	17	30322710	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	770559	30322710	50872500	1004	101419											
GGNBP2	79893	broad.mit.edu	37	chr17	34934411	34934411	+	Splice_Site	SNP	A	G	G	1	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	ttaaggtttttcttttcaacAggttttgcactgattgcaaa	10	18	7	6	0	2	1	1	1	1	0	2	1	2	1	0	2	3	4	0	2	3	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:34934411A>G	uc002hnb.2	+	7	891	c.642_splice	c.e7-2	p.R214_splice	GGNBP2_uc002hna.2_Splice_Site_p.R214_splice|GGNBP2_uc002hnc.1_Missense_Mutation_p.R43G	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403						cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		TCTTTTCAACAGGTTTTGCAC	0.383													8	65					0	0	0.006214	0	0		G	34934411	G	G	34934411	5	3	209	1	0	0	0	0	0	0	1	0	6374	202	7	3	662	3	GGNBP2	17	34934411	Splice_Site	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	4611701	34934411	46260799	1005	101420											
HNF1B	6928	broad.mit.edu	37	chr17	36099531	36099531	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgagatgctgggagaggtgCgactggttcaggccggtgac	7	9	18	7	2	1	3	1	2	0	2	1	6	1	3	1	5	2	2	1	5	0	2	rs147218489		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:36099531C>T	uc002hok.3	-	2	665	c.444G>A	c.(442-444)TCG>TCA	p.S148S	HNF1B_uc010wdi.1_Silent_p.S148S	NM_000458	NP_000449	P35680	HNF1B_HUMAN	hepatocyte nuclear factor 1-beta isoform 1	148			S -> W (in RCAD).|S -> L (in RCAD).		endocrine pancreas development|genitalia development|kidney development|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric nephron tubule development|regulation of pronephros size	nucleus	DNA binding|protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)	3		Breast(25;0.00765)|Ovarian(249;0.15)	STAD - Stomach adenocarcinoma(1;0.0142)			GGGAGAGGTGCGACTGGTTCA	0.567									Hereditary_Prostate_Cancer				17	64					0	0	0.004007	0	0		T	36099531	T	T	36099531	2	4	209	1	0	0	0	0	0	0	0	1	7268	755	27	1		1	HNF1B	17	36099531	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1165120	36099531	45095679	1006	101421											
MLLT6	4302	broad.mit.edu	37	chr17	36872882	36872882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tataagtctccccacgtcacGgggtctggggcctcggcagg	6	8	14	13	3	3	0	1	0	2	0	5	0	3	0	3	6	0	1	3	6	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:36872882G>A	uc002hqi.3	+	10	1312	c.1299G>A	c.(1297-1299)ACG>ACA	p.T433T	MLLT6_uc002hqj.2_Intron|MLLT6_uc002hqk.3_5'Flank	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	433					regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					CCCACGTCACGGGGTCTGGGG	0.662			T	MLL	AL								6	34					0	0	0.001984	0	0		A	36872882	A	A	36872882	2	1	209	1	0	0	0	0	0	0	0	1	9648	1103	39	1		1	MLLT6	17	36872882	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	773351	36872882	44322328	1007	101422											
KRTAP4-8	728224	broad.mit.edu	37	chr17	39253886	39253886	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggccacagactggacgcaGgcagcagcaggggcggcagc	9	2	17	13	3	0	1	0	0	0	1	1	2	0	2	1	6	3	5	1	6	0	0	rs78550130	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:39253886G>C	uc010wfo.1	-	1	490	c.451C>G	c.(451-453)CTG>GTG	p.L151V		NM_031960	NP_114166	Q9BYQ9	KRA48_HUMAN	keratin associated protein 4.8	151	25 X 5 AA repeats of C-C-[IKRQVHEC]- [SPRT]-[STCVQPR].|25.			L -> V (in Ref. 2; CAC27579).		keratin filament					0						ACTGGACGCAGgcagcagcag	0.333													3	8					0	0	0.004672	0	0		C	39253886	C	C	39253886	3	2	209	1	0	0	0	0	1	0	0	0	8572	991	35	5	110	5	KRTAP4-8	17	39253886	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2381004	39253886	41941324	1008	101423											
KRT16	3868	broad.mit.edu	37	chr17	39767710	39767710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacccggcgcaggccattgaCgtcggcctccacagtctgcc	6	6	11	18	4	1	1	0	1	1	0	3	1	2	1	5	3	1	1	5	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:39767710C>T	uc002hxg.3	-	3	797	c.658G>A	c.(658-660)GTC>ATC	p.V220I	JUP_uc010wfs.1_Intron	NM_005557	NP_005548	P08779	K1C16_HUMAN	keratin 16	220	Coil 1B.|Rod.				cell proliferation|epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton			skin(1)	1		Breast(137;0.000307)				AGGCCATTGACGTCGGCCTCC	0.627													27	84					0	0	0.007291	0	0		T	39767710	T	T	39767710	3	4	209	1	0	0	0	0	1	0	0	0	8469	536	19	1	787	1	KRT16	17	39767710	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	513824	39767710	41427500	1009	101424											
KRT17	3872	broad.mit.edu	37	chr17	39777909	39777909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccatcttctcatactggtcaCgcatctcgttgaggatgcgg	7	12	10	12	3	4	1	2	1	3	0	6	2	4	2	1	3	2	2	1	3	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:39777909C>T	uc002hxh.2	-	4	891	c.770G>A	c.(769-771)CGT>CAT	p.R257H	JUP_uc010wfs.1_Intron	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	257	Coil 2.|Rod.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				ATACTGGTCACGCATCTCGTT	0.597									Steatocystoma_Multiplex				22	81					0	0	0.012319	0	0		T	39777909	T	T	39777909	3	4	209	1	0	0	0	0	1	0	0	0	8470	536	19	1	548	1	KRT17	17	39777909	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	10199	39777909	41417301	1010	101425											
KAT2A	2648	broad.mit.edu	37	chr17	40272728	40272728	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgcctgccttacccaaGgggtgctcacaactgcggca	7	7	12	15	2	1	0	1	0	0	0	1	0	1	0	3	3	6	3	3	3	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:40272728G>T	uc002hyx.2	-	2	519	c.459C>A	c.(457-459)CCC>CCA	p.P153P	HSPB9_uc002hyy.2_5'Flank	NM_021078	NP_066564	Q92830	KAT2A_HUMAN	general control of amino acid synthesis 5-like	153					chromatin remodeling|histone deubiquitination|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	H3 histone acetyltransferase activity|histone deacetylase binding|protein binding|transcription coactivator activity			upper_aerodigestive_tract(1)|lung(1)	2						CCTTACCCAAGGGGTGCTCAC	0.592													19	163					4.35082e-09	4.76752e-09	0.010504	1	0		T	40272728	T	T	40272728	2	4	209	1	0	0	0	0	0	0	0	1	7997	987	35	5		5	KAT2A	17	40272728	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	494819	40272728	40922482	1011	101426											
BRCA1	672	broad.mit.edu	37	chr17	41244889	41244889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctttaaggacccagagtgggCagagaatgttgcacattcct	11	10	11	9	0	0	2	0	0	0	2	1	4	1	3	2	2	1	3	2	2	2	4	rs80357541		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:41244889C>T	uc002icq.2	-	10	2891	c.2659G>A	c.(2659-2661)GCC>ACC	p.A887T	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.A816T|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.A840T|BRCA1_uc002ict.2_Missense_Mutation_p.A887T|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.A887T|BRCA1_uc002ide.1_Missense_Mutation_p.A718T|BRCA1_uc010cyy.1_Missense_Mutation_p.A887T|BRCA1_uc010whs.1_Missense_Mutation_p.A887T|BRCA1_uc010cyz.2_Missense_Mutation_p.A840T|BRCA1_uc010cza.2_Missense_Mutation_p.A861T|BRCA1_uc010wht.1_Missense_Mutation_p.A591T	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	887					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		CCAGAGTGGGCAGAGAATGTT	0.393			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			17	85					0	0	0.00499	0	0		T	41244889	T	T	41244889	3	4	209	1	0	0	0	0	1	0	0	0	1501	710	25	2	3058	2	BRCA1	17	41244889	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	972161	41244889	39950321	1012	101427											
ATXN7L3	56970	broad.mit.edu	37	chr17	42272803	42272803	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaccgtggttagcaggctgCgaagctcctccggccccagg	6	7	13	15	3	1	0	1	0	0	0	3	1	3	0	5	4	3	4	5	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:42272803C>T	uc002iga.2	-	8	696	c.605G>A	c.(604-606)CGC>CAC	p.R202H	ATXN7L3_uc010wiv.1_5'UTR|ATXN7L3_uc002ifz.2_Missense_Mutation_p.R209H	NM_001098833	NP_001092303	Q14CW9	AT7L3_HUMAN	ataxin 7-like 3 isoform b	202	SCA7.				histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|metal ion binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		TAGCAGGCTGCGAAGCTCCTC	0.577													6	56					0	0	0.001984	0	0		T	42272803	T	T	42272803	3	4	209	1	0	0	0	0	1	0	0	0	1219	768	27	1	458	1	ATXN7L3	17	42272803	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1027914	42272803	38922407	1013	101428											
C1QL1	10882	broad.mit.edu	37	chr17	43037709	43037709	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtcgtagttctggtccgcGtcctgggcaatagcactggc	6	11	13	11	3	1	0	0	0	1	0	4	0	3	0	2	3	1	4	2	3	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:43037709G>A	uc002ihv.2	-	2	852	c.624C>T	c.(622-624)GAC>GAT	p.D208D		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	208	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				TCTGGTCCGCGTCCTGGGCAA	0.483													9	46					0	0	0.006214	0	0		A	43037709	A	A	43037709	2	1	209	1	0	0	0	0	0	0	0	1	1961	1136	40	1		1	C1QL1	17	43037709	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	764906	43037709	38157501	1014	101429											
CRHR1	1394	broad.mit.edu	37	chr17	43907907	43907907	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctactccactgaccggctgcGcaaatggatgttcatctgca	9	10	9	13	2	2	1	1	1	1	0	3	2	3	2	2	2	3	4	2	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:43907907G>A	uc010dap.2	+	8	1032	c.767G>A	c.(766-768)CGC>CAC	p.R256H	CRHR1_uc010wjx.1_Missense_Mutation_p.R52H|CRHR1_uc002ijp.2_Missense_Mutation_p.R126H|CRHR1_uc002ijm.2_Missense_Mutation_p.R227H|CRHR1_uc002ijn.2_Missense_Mutation_p.R187H|CRHR1_uc010dar.2_Missense_Mutation_p.R227H|CRHR1_uc010dao.2_Missense_Mutation_p.R126H|CRHR1_uc010daq.2_Missense_Mutation_p.R52H	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	256	Cytoplasmic (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		GACCGGCTGCGCAAATGGATG	0.622													10	132					0	0	0.006214	0	0		A	43907907	A	A	43907907	3	1	209	1	0	0	0	0	1	0	0	0	3874	1087	38	1	797	1	CRHR1	17	43907907	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	870198	43907907	37287303	1015	101430											
NFE2L1	4779	broad.mit.edu	37	chr17	46136685	46136685	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggggcaagaacaagatggcGgcgcagaactgccgcaagcg	12	2	16	11	5	0	3	0	0	0	3	0	3	0	3	1	4	4	3	1	4	5	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:46136685G>A	uc002imz.3	+	6	2652	c.2001G>A	c.(1999-2001)GCG>GCA	p.A667A	NFE2L1_uc002ina.3_Silent_p.A637A|NFE2L1_uc002inb.3_Silent_p.A637A|NFE2L1_uc010wle.1_Silent_p.A479A|NFE2L1_uc010wlf.1_Silent_p.A511A	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	667	Basic motif.				anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						ACAAGATGGCGGCGCAGAACT	0.592													12	71					0	0	0.013537	0	0		A	46136685	A	A	46136685	2	1	209	1	0	0	0	0	0	0	0	1	10386	1103	39	1		1	NFE2L1	17	46136685	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2228778	46136685	35058525	1016	101431											
HOXB5	3215	broad.mit.edu	37	chr17	46670721	46670721	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcagagggcttggcgccGtggctgtcgccgttggtgca	5	8	18	10	4	0	1	0	0	0	1	1	2	0	1	2	4	2	5	2	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:46670721G>A	uc002inr.2	-	1	383	c.324C>T	c.(322-324)CAC>CAT	p.H108H		NM_002147	NP_002138	P09067	HXB5_HUMAN	homeobox B5	108						nucleus	sequence-specific DNA binding				0						GCTTGGCGCCGTGGCTGTCGC	0.701													9	31					0	0	0.010729	0	0		A	46670721	A	A	46670721	2	1	209	1	0	0	0	0	0	0	0	1	7320	1136	40	1		1	HOXB5	17	46670721	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	534036	46670721	34524489	1017	101432											
HOXB6	3216	broad.mit.edu	37	chr17	46673804	46673804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtttttcttcctcctcctCggcactgagctgagacgcgc	4	13	9	15	3	1	2	0	2	1	1	5	3	4	2	3	1	1	3	3	1	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:46673804C>T	uc002ins.1	-	4	971	c.646G>A	c.(646-648)GAG>AAG	p.E216K	HOXB5_uc002inr.2_5'Flank|HOXB6_uc010dbh.1_Missense_Mutation_p.E216K|HOXB6_uc002int.1_3'UTR	NM_018952	NP_061825	P17509	HXB6_HUMAN	homeobox B6	216	Poly-Glu.				anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCCTCCTCCTCGGCACTGAGC	0.597													75	174					0	0	0.01441	0	0		T	46673804	T	T	46673804	3	4	209	1	0	0	0	0	1	0	0	0	7321	893	31	1	32	1	HOXB6	17	46673804	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3083	46673804	34521406	1018	101433											
NGFR	4804	broad.mit.edu	37	chr17	47583740	47583740	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggggctccagagcatgtcGgcgccgtgcgtggaggccga	5	6	19	11	5	0	1	0	0	0	1	2	3	1	2	3	5	2	2	3	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:47583740G>A	uc002ioz.3	+	3	413	c.288G>A	c.(286-288)TCG>TCA	p.S96S		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	96	Extracellular (Potential).|TNFR-Cys 2.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					AGAGCATGTCGGCGCCGTGCG	0.706													5	28					0	0	0.000602	0	0		A	47583740	A	A	47583740	2	1	209	1	0	0	0	0	0	0	0	1	10415	1103	39	1		1	NGFR	17	47583740	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	909936	47583740	33611470	1019	101434											
EPN3	55040	broad.mit.edu	37	chr17	48613990	48613990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaggcagaaatcaaggtgCgcgaggccaccagcaatgac	13	3	13	12	3	1	2	1	1	0	1	1	4	1	2	3	3	2	2	3	3	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:48613990C>T	uc002ira.3	+	2	508	c.73C>T	c.(73-75)CGC>TGC	p.R25C	EPN3_uc010wms.1_Intron|EPN3_uc010wmt.1_Intron|EPN3_uc010wmu.1_Missense_Mutation_p.R25C	NM_017957	NP_060427	Q9H201	EPN3_HUMAN	epsin 3	25	ENTH.	Phosphatidylinositol lipid headgroup (By similarity).				clathrin-coated vesicle|nucleus|perinuclear region of cytoplasm	lipid binding			ovary(1)	1	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;2.88e-09)			AATCAAGGTGCGCGAGGCCAC	0.612													20	67					0	0	0.008871	0	0		T	48613990	T	T	48613990	3	4	209	1	0	0	0	0	1	0	0	0	5195	768	27	1	75	1	EPN3	17	48613990	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1030250	48613990	32581220	1020	101435											
ABCC3	8714	broad.mit.edu	37	chr17	48742598	48742598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggccgtgaagatgcgcGccttccaggtaggtgctgtc	5	10	15	11	3	0	2	0	1	0	1	2	2	1	2	3	3	2	2	3	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:48742598G>A	uc002isl.2	+	11	1503	c.1423G>A	c.(1423-1425)GCC>ACC	p.A475T	ABCC3_uc002isk.3_Missense_Mutation_p.A475T	NM_003786	NP_003777	O15438	MRP3_HUMAN	ATP-binding cassette, sub-family C, member 3	475	ABC transmembrane type-1 1.|Cytoplasmic (By similarity).				bile acid metabolic process	integral to plasma membrane|membrane fraction	ATP binding|bile acid-exporting ATPase activity|organic anion transmembrane transporter activity			skin(3)|central_nervous_system(1)	4			BRCA - Breast invasive adenocarcinoma(22;3.05e-09)		Glibenclamide(DB01016)	GAAGATGCGCGCCTTCCAGGT	0.622													12	37					0	0	0.010729	0	0		A	48742598	A	A	48742598	3	1	209	1	0	0	0	0	1	0	0	0	54	1087	38	1	1465	1	ABCC3	17	48742598	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	128608	48742598	32452612	1021	101436											
MRC2	9902	broad.mit.edu	37	chr17	60768086	60768086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagctatgagggccagagtCggggcgcctggctgggcatg	7	6	19	9	2	0	3	0	1	0	2	1	3	0	3	2	5	1	3	2	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:60768086C>T	uc002jad.2	+	27	4378	c.3976C>T	c.(3976-3978)CGG>TGG	p.R1326W	MRC2_uc002jae.2_Missense_Mutation_p.R397W|MRC2_uc002jaf.2_Missense_Mutation_p.R192W	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	1326	Extracellular (Potential).|C-type lectin 8.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GGGCCAGAGTCGGGGCGCCTG	0.607													11	46					0	0	0.010729	0	0		T	60768086	T	T	60768086	3	4	209	1	0	0	0	0	1	0	0	0	9776	875	31	1	4082	1	MRC2	17	60768086	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	12025488	60768086	20427124	1022	101437											
MAP3K3	4215	broad.mit.edu	37	chr17	61744392	61744392	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatactatctaccagcccccCgagcccagaagcaggcacct	12	5	7	17	1	1	1	0	0	1	1	1	2	1	1	6	1	5	2	6	1	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:61744392C>T	uc002jbg.2	+	6	793	c.474C>T	c.(472-474)CCC>CCT	p.P158P	MAP3K3_uc002jbe.2_Silent_p.P189P|MAP3K3_uc002jbf.2_Silent_p.P189P|MAP3K3_uc002jbh.2_Silent_p.P189P|MAP3K3_uc010wpo.1_Silent_p.P73P|MAP3K3_uc010wpp.1_Silent_p.P158P	NM_002401	NP_002392	Q99759	M3K3_HUMAN	mitogen-activated protein kinase kinase kinase 3	158					MAPKKK cascade|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autophosphorylation	cytosol	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein binding			lung(3)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)	6						ACCAGCCCCCCGAGCCCAGAA	0.483													14	59					0	0	0.003163	0	0		T	61744392	T	T	61744392	2	4	209	1	0	0	0	0	0	0	0	1	9269	639	23	1		1	MAP3K3	17	61744392	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	976306	61744392	19450818	1023	101438											
KPNA2	3838	broad.mit.edu	37	chr17	66033572	66033572	+	Silent	SNP	T	C	C	0	1	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	aatgtaagctcatttcctgaTgatgctacttctccgctgca	9	14	7	11	1	2	2	1	2	1	0	4	2	3	2	2	0	4	5	2	0	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:66033572T>C	uc002jgk.2	+	3	306	c.174T>C	c.(172-174)GAT>GAC	p.D58D	KPNA2_uc002jgl.2_Silent_p.D58D	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2	58	IBB.				DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			CATTTCCTGATGATGCTACTT	0.423													8	97					0	0	0.006214	0	0		C	66033572	C	C	66033572	2	2	209	1	0	0	0	0	0	0	0	1	8446	1461	51	3		3	KPNA2	17	66033572	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4289180	66033572	15161638	1024	101439											
PRKAR1A	5573	broad.mit.edu	37	chr17	66511558	66511558	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatggagtctggcagtacCgccgccagtgaggaggcacg	9	5	15	12	3	1	1	0	1	1	0	1	3	1	3	4	4	1	3	4	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:66511558C>T	uc002jhg.2	+	2	198	c.18C>T	c.(16-18)ACC>ACT	p.T6T	PRKAR1A_uc002jhh.2_Silent_p.T6T|PRKAR1A_uc002jhi.2_Silent_p.T6T|PRKAR1A_uc002jhj.2_Silent_p.T6T|PRKAR1A_uc002jhk.2_5'UTR|PRKAR1A_uc002jhl.2_Silent_p.T6T|PRKAR1A_uc002jhm.2_Silent_p.T6T	NM_212471	NP_997636	P10644	KAP0_HUMAN	cAMP-dependent protein kinase, regulatory	6	Dimerization and phosphorylation.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter|transmembrane transport|water transport	cAMP-dependent protein kinase complex|cytosol	cAMP binding|cAMP-dependent protein kinase regulator activity|protein binding			adrenal_gland(4)|lung(3)|thyroid(2)|soft_tissue(2)|breast(1)	12	Breast(10;1.64e-13)					CTGGCAGTACCGCCGCCAGTG	0.448			T|Mis|N|F|S	RET	papillary thyroid	myxoma|endocrine|papillary thyroid			Carney_Complex|Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial|Cardiac_Myxomas_Familial_Clustering_of				15	46					0	0	0.003163	0	0		T	66511558	T	T	66511558	2	4	209	1	0	0	0	0	0	0	0	1	12525	639	23	1		1	PRKAR1A	17	66511558	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	477986	66511558	14683652	1025	101440											
KCNJ16	3773	broad.mit.edu	37	chr17	68128882	68128882	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtagaaggaacagttagagcCcaacttctccgctatacaga	14	8	9	10	1	1	3	0	0	1	3	2	4	1	4	2	1	4	3	2	1	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:68128882C>T	uc002jin.2	+	5	1140	c.654C>T	c.(652-654)GCC>GCT	p.A218A	KCNJ16_uc002jio.2_Silent_p.A218A|KCNJ16_uc002jip.2_Silent_p.A218A|KCNJ16_uc002jiq.2_Silent_p.A250A	NM_018658	NP_061128	Q9NPI9	IRK16_HUMAN	potassium inwardly-rectifying channel J16	218	Cytoplasmic (By similarity).				synaptic transmission	voltage-gated potassium channel complex	inward rectifier potassium channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3	Breast(10;2.96e-09)					CAGTTAGAGCCCAACTTCTCC	0.473													19	68					0	0	0.007413	0	0		T	68128882	T	T	68128882	2	4	209	1	0	0	0	0	0	0	0	1	8066	610	22	4		4	KCNJ16	17	68128882	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1617324	68128882	13066328	1026	101441											
HN1	51155	broad.mit.edu	37	chr17	73144758	73144758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatccaccacctggaggcCgcaaaactctgcaaataatg	13	7	9	12	1	1	0	0	0	1	0	2	2	2	2	4	3	2	2	4	3	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:73144758C>T	uc002jna.1	-	2	348	c.65G>A	c.(64-66)CGG>CAG	p.R22Q	HN1_uc002jmz.1_5'UTR|HN1_uc002jnb.1_Missense_Mutation_p.R22Q|HN1_uc010dgc.1_RNA|HN1_uc002jnc.2_RNA|HN1_uc002jnd.2_Missense_Mutation_p.R22Q	NM_016185	NP_057269	Q9UK76	HN1_HUMAN	hematological and neurological expressed 1	22						nucleus					0	all_lung(278;0.14)|Lung NSC(278;0.168)					ACCTGGAGGCCGCAAAACTCT	0.388													5	40					0	0	0.000602	0	0		T	73144758	T	T	73144758	3	4	209	1	0	0	0	0	1	0	0	0	7265	652	23	1	515	1	HN1	17	73144758	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5015876	73144758	8050452	1027	101442											
LLGL2	3993	broad.mit.edu	37	chr17	73565191	73565191	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcagtgcccagggcgaggaCgagtggcccccactccgcaa	8	5	13	15	3	1	0	1	0	0	0	2	3	2	1	4	3	1	1	4	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:73565191C>T	uc002joh.2	+	13	1609	c.1455C>T	c.(1453-1455)GAC>GAT	p.D485D	LLGL2_uc002joi.2_Silent_p.D485D|LLGL2_uc010dgg.1_Silent_p.D485D|LLGL2_uc002joj.2_Silent_p.D474D|LLGL2_uc010wsd.1_Silent_p.D112D	NM_001031803	NP_001026973	Q6P1M3	L2GL2_HUMAN	lethal giant larvae homolog 2 isoform c	485					cell cycle|cell division|exocytosis|regulation of establishment or maintenance of cell polarity	cytoplasm|intracellular membrane-bounded organelle	PDZ domain binding			ovary(2)	2	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;1.8e-07)|Epithelial(20;1.38e-06)|Lung(188;0.0696)|LUSC - Lung squamous cell carcinoma(166;0.112)			AGGGCGAGGACGAGTGGCCCC	0.677													8	18					0	0	0.00308	0	0		T	73565191	T	T	73565191	2	4	209	1	0	0	0	0	0	0	0	1	8851	535	19	1		1	LLGL2	17	73565191	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	420433	73565191	7630019	1028	101443											
ACOX1	51	broad.mit.edu	37	chr17	73945316	73945316	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctgaaggaaatcccccgcGttctgactgattccatacag	11	9	8	13	2	1	3	0	3	1	0	3	4	3	4	4	1	1	1	4	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:73945316G>A	uc002jqf.2	-	12	2000	c.1710C>T	c.(1708-1710)AAC>AAT	p.N570N	ACOX1_uc010wsq.1_Silent_p.N532N|ACOX1_uc002jqe.2_Silent_p.N570N|ACOX1_uc010wsr.1_Silent_p.N502N	NM_007292	NP_009223	Q15067	ACOX1_HUMAN	acyl-Coenzyme A oxidase 1 isoform b	570					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|prostaglandin metabolic process|very long-chain fatty acid metabolic process	peroxisomal matrix	acyl-CoA dehydrogenase activity|acyl-CoA oxidase activity|flavin adenine dinucleotide binding|protein N-terminus binding			ovary(1)	1						AATCCCCCGCGTTCTGACTGA	0.299													9	99					0	0	0.004482	0	0		A	73945316	A	A	73945316	2	1	209	1	0	0	0	0	0	0	0	1	158	1136	40	1		1	ACOX1	17	73945316	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	380125	73945316	7249894	1029	101444											
ST6GALNAC2	10610	broad.mit.edu	37	chr17	74562348	74562348	+	Silent	SNP	A	G	G	1	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	cttgtgatgaatccataggcActgacctgggcaaggatagt	11	10	12	8	0	0	3	0	3	0	0	1	4	1	4	2	3	0	2	2	3	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:74562348A>G	uc002jsg.3	-	9	1218	c.963T>C	c.(961-963)AGT>AGC	p.S321S		NM_006456	NP_006447	Q9UJ37	SIA7B_HUMAN	sialyltransferase 7B	321	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity				0						ATCCATAGGCACTGACCTGGG	0.433													37	107					0	0	0.007835	0	0		G	74562348	G	G	74562348	2	3	209	1	0	0	0	0	0	0	0	1	15249	156	6	3		3	ST6GALNAC2	17	74562348	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	617032	74562348	6632862	1030	101445											
TBC1D16	125058	broad.mit.edu	37	chr17	77926601	77926601	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgggaaccgcaggccggcgtCggagctggacggggggctgg	5	3	22	11	6	0	0	0	0	0	0	1	3	0	3	2	9	2	3	2	9	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:77926601C>T	uc002jxj.2	-	4	912	c.796G>A	c.(796-798)GAC>AAC	p.D266N	TBC1D16_uc002jxh.2_5'Flank|TBC1D16_uc002jxi.2_5'Flank|TBC1D16_uc002jxk.1_5'Flank	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	266						intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			AGGCCGGCGTCGGAGCTGGAC	0.672													13	67					0	0	0.00499	0	0		T	77926601	T	T	77926601	3	4	209	1	0	0	0	0	1	0	0	0	15630	884	31	1	1543	1	TBC1D16	17	77926601	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3364253	77926601	3268609	1031	101446											
RPTOR	57521	broad.mit.edu	37	chr17	78865536	78865536	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcaggagctggtggtggctcTgagtcatcttgtggttcagt	5	13	16	7	0	4	1	2	1	2	0	4	2	4	2	0	5	1	4	0	5	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:78865536T>C	uc002jyt.1	+	18	2805	c.2000T>C	c.(1999-2001)CTG>CCG	p.L667P	RPTOR_uc010wug.1_Missense_Mutation_p.L509P	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	raptor isoform 1	667					cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of protein serine/threonine kinase activity|positive regulation of TOR signaling cascade|TOR signaling cascade	cytosol|lysosome|TORC1 complex	protein complex binding			lung(4)|urinary_tract(1)|ovary(1)	6						GTGGTGGCTCTGAGTCATCTT	0.512													24	176					0	0	0.00278	0	0		C	78865536	C	C	78865536	3	2	209	1	0	0	0	0	1	0	0	0	13690	1580	55	3	2070	3	RPTOR	17	78865536	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	938935	78865536	2329674	1032	101447											
CHMP6	79643	broad.mit.edu	37	chr17	78971112	78971112	+	Missense_Mutation	SNP	A	G	G	1	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	ctcaggaggatgaagacgccAtcctggaggagctgagcgca	11	5	15	10	2	1	3	1	2	0	1	2	7	2	7	2	4	2	2	2	4	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:78971112A>G	uc002jyw.3	+	6	544	c.466A>G	c.(466-468)ATC>GTC	p.I156V		NM_024591	NP_078867	Q96FZ7	CHMP6_HUMAN	chromatin modifying protein 6	156					cellular membrane organization|endosome transport|protein transport	cytosol|endomembrane system|late endosome membrane	protein N-terminus binding			ovary(1)	1	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0175)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TGAAGACGCCATCCTGGAGGA	0.632													16	42					0	0	0.003163	0	0		G	78971112	G	G	78971112	3	3	209	1	0	0	0	0	1	0	0	0	3363	217	8	3	488	3	CHMP6	17	78971112	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	105576	78971112	2224098	1033	101448											
CCDC137	339230	broad.mit.edu	37	chr17	79637353	79637353	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggaagggggagtctgacGgggcctatatccaccgcatg	10	6	16	9	2	1	2	0	1	1	1	2	4	2	4	3	5	0	1	3	5	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:79637353G>A	uc002kbc.3	+	3	403	c.367G>A	c.(367-369)GGG>AGG	p.G123R	CCDC137_uc002kbd.2_RNA	NM_199287	NP_954981	Q6PK04	CC137_HUMAN	coiled-coil domain containing 137	123										central_nervous_system(1)	1	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)			GGAGTCTGACGGGGCCTATAT	0.587													5	52					0	0	0.000602	0	0		A	79637353	A	A	79637353	3	1	209	1	0	0	0	0	1	0	0	0	2774	1116	39	1	377	1	CCDC137	17	79637353	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	666241	79637353	1557857	1034	101449											
DYSFIP1	116729	broad.mit.edu	37	chr17	79792774	79792774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgcgatcagccagcatcCgccgccgccgctgccgtggg	4	5	14	18	7	1	0	1	0	0	0	2	1	2	0	6	1	4	3	6	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr17:79792774C>T	uc002kbj.1	-	1	153	c.56G>A	c.(55-57)CGG>CAG	p.R19Q	FAM195B_uc010wuy.1_5'Flank|FAM195B_uc010wuz.1_5'Flank|FAM195B_uc002kjd.2_5'Flank|DYSFIP1_uc002kbk.1_Missense_Mutation_p.R19Q	NM_001007533	NP_001007534	Q86WC6	DYSI1_HUMAN	dysferlin-interacting protein 1	19	Poly-Arg.										0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.00858)|OV - Ovarian serous cystadenocarcinoma(97;0.0509)			AGCCAGCATCCGCCGCCGCCG	0.652													3	32					0	0	0.004672	0	0		T	79792774	T	T	79792774	3	4	209	1	0	0	0	0	1	0	0	0	4866	652	23	1	420	1	DYSFIP1	17	79792774	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	155421	79792774	1402436	1035	101450											
EPB41L3	23136	broad.mit.edu	37	chr18	5419778	5419778	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctccgtttgtcctcttcctCgtcccgctcctcctcagcct	1	14	5	21	3	2	0	1	0	1	0	9	0	8	0	8	0	1	2	8	0	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:5419778C>T	uc002kmt.1	-	12	1524	c.1438G>A	c.(1438-1440)GAG>AAG	p.E480K	EPB41L3_uc010wzh.1_Missense_Mutation_p.E498K|EPB41L3_uc002kmu.1_Missense_Mutation_p.E498K|EPB41L3_uc010dkq.1_Missense_Mutation_p.E389K|EPB41L3_uc002kms.1_5'UTR|EPB41L3_uc010wze.1_5'UTR|EPB41L3_uc010wzf.1_5'UTR|EPB41L3_uc010wzg.1_5'UTR|EPB41L3_uc010dkr.2_Missense_Mutation_p.E59K	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	480	Hydrophilic.				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						tcctcttcctcgtcccgctcc	0.388													15	45					0	0	0.003163	0	0		T	5419778	T	T	5419778	3	4	209	1	0	0	0	0	1	0	0	0	5162	893	31	1	1869	1	EPB41L3	18	5419778	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		5419778	72657470	1036	101451											
TMEM200C	645369	broad.mit.edu	37	chr18	5891517	5891517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtggaggaccgcgtttgcGcagatgaagaggaagatgcc	10	7	16	8	4	0	4	0	1	0	3	1	7	0	7	2	3	2	2	2	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:5891517G>A	uc002kmx.1	-	1	587	c.546C>T	c.(544-546)TGC>TGT	p.C182C		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	182	Helical; (Potential).					integral to membrane					0						CCGCGTTTGCGCAGATGAAGA	0.577													3	26					0	0	0.009096	0	0		A	5891517	A	A	5891517	2	1	209	1	0	0	0	0	0	0	0	1	16150	1079	38	1		1	TMEM200C	18	5891517	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	471739	5891517	72185731	1037	101452											
KIAA0802	23255	broad.mit.edu	37	chr18	8825914	8825914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggctgcgggccggcagtcGgtctcgctcagcagagcccc	4	5	17	15	4	2	1	1	0	1	1	4	1	2	1	3	5	3	4	3	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:8825914G>A	uc002knr.2	+	15	4548	c.4406G>A	c.(4405-4407)CGG>CAG	p.R1469Q	KIAA0802_uc002knq.2_Missense_Mutation_p.R1428Q|KIAA0802_uc002kns.2_Missense_Mutation_p.R809Q	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1779											0						GCCGGCAGTCGGTCTCGCTCA	0.637													11	48					0	0	0.013537	0	0		A	8825914	A	A	8825914	3	1	209	1	0	0	0	0	1	0	0	0	8210	1116	39	1	4456	1	KIAA0802	18	8825914	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2934397	8825914	69251334	1038	101453											
OSBPL1A	114876	broad.mit.edu	37	chr18	21759794	21759794	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagatacagcaaacgcagcTacacactgtgggacagagca	15	4	11	11	1	0	2	0	0	0	2	0	3	0	3	0	1	6	5	0	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:21759794T>G	uc002kve.2	-	20	1992	c.1818A>C	c.(1816-1818)GTA>GTC	p.V606V	OSBPL1A_uc002kvd.2_Silent_p.V93V|OSBPL1A_uc010xbc.1_Silent_p.V224V	NM_080597	NP_542164	Q9BXW6	OSBL1_HUMAN	oxysterol-binding protein-like 1A isoform B	606					cholesterol metabolic process|lipid transport|vesicle-mediated transport		phospholipid binding			ovary(4)	4	all_cancers(21;0.000396)|all_epithelial(16;4.36e-06)|Lung NSC(20;0.00171)|all_lung(20;0.0055)|Colorectal(14;0.0505)|Ovarian(20;0.17)					CAAACGCAGCTACACACTGTG	0.468													3	35					0	0	0.004672	0	0		G	21759794	G	G	21759794	2	3	209	1	0	0	0	0	0	0	0	1	11296	1509	53	5		5	OSBPL1A	18	21759794	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	12933880	21759794	56317454	1039	101454											
TAF4B	6875	broad.mit.edu	37	chr18	23866046	23866046	+	Silent	SNP	G	A	A	0	0	1	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	gcaacagcacccagaactgtGtcagtgcaaactttgaaccc	13	7	8	13	0	1	2	1	1	0	1	1	2	1	2	2	0	6	3	2	0	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:23866046G>A	uc002kvu.3	+	7	1662	c.1173G>A	c.(1171-1173)GTG>GTA	p.V391V	TAF4B_uc002kvs.3_RNA|TAF4B_uc002kvt.3_Silent_p.V391V	NM_005640	NP_005631	Q92750	TAF4B_HUMAN	TAF4b RNA polymerase II, TATA box binding	391					transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleolus|transcription factor TFIID complex	DNA binding|NF-kappaB binding|sequence-specific DNA binding transcription factor activity			lung(1)|central_nervous_system(1)|skin(1)	3	all_cancers(21;0.00151)|Lung NSC(5;0.000401)|all_lung(6;0.00115)|Ovarian(20;0.124)		Epithelial(2;9.57e-07)|all cancers(3;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(3;1.96e-05)|LUSC - Lung squamous cell carcinoma(2;0.00594)|Lung(2;0.0267)			CCAGAACTGTGTCAGTGCAAA	0.478													20	93					0	0	0.012319	0	0		A	23866046	A	A	23866046	2	1	209	1	0	0	0	0	0	0	0	1	15552	1364	48	4		4	TAF4B	18	23866046	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2106252	23866046	54211202	1040	101455											
FAM59A	64762	broad.mit.edu	37	chr18	29867794	29867794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggtcgtatgggtttctcgGtggagggcttggcacagtca	6	11	17	7	2	2	0	1	0	1	0	4	2	2	1	0	6	0	4	0	6	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:29867794G>A	uc002kxl.2	-	4	822	c.766C>T	c.(766-768)CCG>TCG	p.P256S	FAM59A_uc002kxk.1_Missense_Mutation_p.P256S	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	256	CABIT.									ovary(1)|skin(1)	2						GGGTTTCTCGGTGGAGGGCTT	0.537													17	110					0	0	0.007413	0	0		A	29867794	A	A	29867794	3	1	209	1	0	0	0	0	1	0	0	0	5606	1261	44	4	1873	4	FAM59A	18	29867794	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	6001748	29867794	48209454	1041	101456											
SETBP1	26040	broad.mit.edu	37	chr18	42643610	42643610	+	Frame_Shift_Del	DEL	A	-	-																															ttccccaggaagaggaggtgAaagccaaaaggcagaggaag																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:42643610delA	uc010dni.2	+	6	5034	c.4738delA	c.(4738-4740)AAAfs	p.K1580fs		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1580						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AGAGGAGGTGAAAGCCAAAAG	0.667									Schinzel-Giedion_syndrome				9	16	---	---	---	---						.	-	42643610	-	-	42643610	7	5	209	1	0	1	0	1	0	0	0	0	14154	247	9	0	4949	0	SETBP1	18	42643610	Frame_Shift_Del	DEL	A	TCGA-HU-A4GN-01A-11D-A25D-08	12775816	42643610	35433638	1042	101457											
ALPK2	115701	broad.mit.edu	37	chr18	56149219	56149219	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgttacactggtgtagtgCtttaaactgatcaatgaagg	11	14	10	6	0	1	2	1	2	0	0	1	2	1	2	0	2	3	3	0	2	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:56149219C>A	uc002lhj.3	-	13	6563	c.6349G>T	c.(6349-6351)GCA>TCA	p.A2117S		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	2117	Alpha-type protein kinase.						ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TGGTGTAGTGCTTTAAACTGA	0.408													13	127					0.000151284	0.000159287	0.001855	1	0		A	56149219	A	A	56149219	3	1	209	1	0	0	0	0	1	0	0	0	545	797	28	5	167	5	ALPK2	18	56149219	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	13505609	56149219	21928029	1043	101458											
NETO1	81832	broad.mit.edu	37	chr18	70534535	70534535	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccatggatcatgtctgtgcGttacaccagaggctccgggc	7	9	12	13	2	2	1	1	0	1	1	3	2	3	2	3	3	2	2	3	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:70534535G>A	uc002lkw.2	-	1	276	c.-8C>T	c.(-10--6)AACGC>AATGC		NETO1_uc002lkx.1_5'Flank|NETO1_uc002lky.1_Translation_Start_Site|NETO1_uc002lkz.2_5'Flank	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3						memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		ATGTCTGTGCGTTACACCAGA	0.642													6	14					0	0	0.001984	0	0		A	70534535	A	A	70534535	1	1	209	1	0	0	0	0	0	0	0	0	10358	1160	40	1		1	NETO1	18	70534535	Translation_Start_Site	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	14385316	70534535	7542713	1044	101459											
ZNF516	9658	broad.mit.edu	37	chr18	74153912	74153912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgccccctcctcggccggggCgcgcgtgcggctggcctcga	1	5	16	19	8	0	0	0	0	0	0	3	1	1	0	5	5	1	1	5	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:74153912C>T	uc010dqx.1	-	2	1334	c.1099G>A	c.(1099-1101)GCC>ACC	p.A367T	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	367					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		TCGGCCGGGGCGCGCGTGCGG	0.682													6	21					0	0	0.001168	0	0		T	74153912	T	T	74153912	3	4	209	1	0	0	0	0	1	0	0	0	17985	768	27	1	2413	1	ZNF516	18	74153912	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3619377	74153912	3923336	1045	101460											
SALL3	27164	broad.mit.edu	37	chr18	76754898	76754898	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcctgctgttcctgagcagGgagcggggtaagtgtcccag	7	8	16	10	1	0	1	0	1	0	0	2	2	2	2	3	3	4	4	3	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:76754898G>T	uc002lmt.2	+	2	2907	c.2907G>T	c.(2905-2907)AGG>AGT	p.R969S	SALL3_uc010dra.2_Missense_Mutation_p.R576S	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	969					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		TCCTGAGCAGGGAGCGGGGTA	0.468													4	15					0.00909568	0.0092679	0.009096	1	0		T	76754898	T	T	76754898	3	4	209	1	0	0	0	0	1	0	0	0	13837	1223	43	5	2913	5	SALL3	18	76754898	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2600986	76754898	1322350	1046	101461											
KCNG2	26251	broad.mit.edu	37	chr18	77623823	77623823	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgcgcgcctgccgcggccaCgacgacctgctgcgcgtgtg	3	6	15	17	8	0	0	0	0	0	0	0	2	0	0	4	1	4	1	4	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr18:77623823C>T	uc010xfl.1	+	1	156	c.156C>T	c.(154-156)CAC>CAT	p.H52H		NM_012283	NP_036415	Q9UJ96	KCNG2_HUMAN	potassium voltage-gated channel, subfamily G,	52	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of heart contraction|regulation of insulin secretion	voltage-gated potassium channel complex	delayed rectifier potassium channel activity				0		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;6.92e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0244)		GCCGCGGCCACGACGACCTGC	0.721													4	12					0	0	0.000602	0	0		T	77623823	T	T	77623823	2	4	209	1	0	0	0	0	0	0	0	1	8044	535	19	1		1	KCNG2	18	77623823	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	868925	77623823	453425	1047	101462											
POLRMT	5442	broad.mit.edu	37	chr19	629547	629547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggctgcactcacctgccgcGcccagccaagcatcacggcg	7	4	11	19	5	2	0	2	0	0	0	2	0	2	0	4	2	4	3	4	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:629547G>A	uc002lpf.1	-	3	871	c.815C>T	c.(814-816)GCG>GTG	p.A272V		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	272					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			ovary(1)|pancreas(1)	2		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACCTGCCGCGCCCAGCCAAG	0.647													34	178					0	0	0.003755	0	0		A	629547	A	A	629547	3	1	209	1	0	0	0	0	1	0	0	0	12257	1087	38	1	2953	1	POLRMT	19	629547	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		629547	58499436	1048	101463											
FGF22	27006	broad.mit.edu	37	chr19	643437	643437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccgtggactgcaggttcCgggagcgcatcgaagagaac	11	5	14	11	4	0	1	0	0	0	1	2	5	1	3	2	3	3	3	2	3	2	1	rs141882459		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:643437C>T	uc010xfq.1	+	3	346	c.346C>T	c.(346-348)CGG>TGG	p.R116W	FGF22_uc010xfr.1_Missense_Mutation_p.P108L	NM_020637	NP_065688	Q9HCT0	FGF22_HUMAN	fibroblast growth factor 22 precursor	116					cell differentiation|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular space	growth factor activity				0		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCAGGTTCCGGGAGCGCAT	0.697													3	42					0	0	0.009096	0	0		T	643437	T	T	643437	3	4	209	1	0	0	0	0	1	0	0	0	5865	643	23	1	356	1	FGF22	19	643437	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	13890	643437	58485546	1049	101464											
ARID3A	1820	broad.mit.edu	37	chr19	966745	966745	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaagctggagtctgcagagCctccggagaagaagatggcc	12	5	15	9	1	1	5	0	0	1	5	2	7	2	6	3	3	3	2	3	3	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:966745C>A	uc002lql.2	+	7	1662	c.1372C>A	c.(1372-1374)CCT>ACT	p.P458T		NM_005224	NP_005215	Q99856	ARI3A_HUMAN	AT rich interactive domain 3A (BRIGHT- like)	458	Important for nuclear localization (By similarity).|REKLES.					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTCTGCAGAGCCTCCGGAGAA	0.652													4	23					0.000602214	0.000628153	0.000602	1	0		A	966745	A	A	966745	3	1	209	1	0	0	0	0	1	0	0	0	916	739	26	5	1394	5	ARID3A	19	966745	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	323308	966745	58162238	1050	101465											
SBNO2	22904	broad.mit.edu	37	chr19	1147381	1147381	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catagctggtgtctgggcagGgctggctgccgaggaaggag	7	7	19	8	1	1	0	0	0	1	0	1	3	1	2	1	6	2	4	1	6	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:1147381G>T	uc002lrk.3	-	4	444	c.206C>A	c.(205-207)CCC>CAC	p.P69H	SBNO2_uc010dse.2_Missense_Mutation_p.P62H	NM_014963	NP_055778	Q9Y2G9	SBNO2_HUMAN	strawberry notch homolog 2 isoform 1	69					macrophage activation involved in immune response|negative regulation of transcription, DNA-dependent|regulation of inflammatory response|transcription, DNA-dependent						0		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)		GTCTGGGCAGGGCTGGCTGCC	0.667													15	63					1.05317e-09	1.15841e-09	0.00245	1	0		T	1147381	T	T	1147381	3	4	209	1	0	0	0	0	1	0	0	0	13888	1232	43	5	4122	5	SBNO2	19	1147381	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	180636	1147381	57981602	1051	101466											
MIDN	90007	broad.mit.edu	37	chr19	1255002	1255002	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccgctcccgaaaacccggCgccgtcatcgagagctttgt	7	7	10	17	6	1	1	1	0	0	1	3	3	2	1	5	1	2	2	5	1	2	1	rs146446826	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:1255002C>T	uc002lrp.2	+	6	1313	c.798C>T	c.(796-798)GGC>GGT	p.G266G		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	266						nucleolus					0		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)		GAAAACCCGGCGCCGTCATCG	0.652													6	89					0	0	0.001168	0	0		T	1255002	T	T	1255002	2	4	209	1	0	0	0	0	0	0	0	1	9597	755	27	1		1	MIDN	19	1255002	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	107621	1255002	57873981	1052	101467											
ATP8B3	148229	broad.mit.edu	37	chr19	1796868	1796868	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggcgaacttgttccagaggTaggggttctcctgggggtgg	5	10	18	8	2	1	1	0	0	1	1	3	2	2	1	2	7	1	3	2	7	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:1796868T>C	uc002ltw.2	-	16	1829	c.1595A>G	c.(1594-1596)TAC>TGC	p.Y532C	ATP8B3_uc002ltv.2_Missense_Mutation_p.Y485C|ATP8B3_uc002ltx.2_RNA	NM_138813	NP_620168	O60423	AT8B3_HUMAN	ATPase, class I, type 8B, member 3	532	Cytoplasmic (Potential).				ATP biosynthetic process		ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTTCCAGAGGTAGGGGTTCTC	0.721													3	28					0	0	0.001168	0	0		C	1796868	C	C	1796868	3	2	209	1	0	0	0	0	1	0	0	0	1197	1638	57	3	2393	3	ATP8B3	19	1796868	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	541866	1796868	57332115	1053	101468											
CSNK1G2	1455	broad.mit.edu	37	chr19	1969862	1969862	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggagcagccacggcatcCggagctcggggaccagctcg	7	3	16	15	5	0	0	0	0	0	0	3	3	1	3	4	5	4	4	4	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:1969862C>T	uc002lul.3	+	3	614	c.91C>T	c.(91-93)CGG>TGG	p.R31W	CSNK1G2_uc010dsu.2_5'UTR	NM_001319	NP_001310	P78368	KC1G2_HUMAN	casein kinase 1, gamma 2	31					sphingolipid metabolic process|Wnt receptor signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity			stomach(1)	1		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)		CCACGGCATCCGGAGCTCGGG	0.642													4	29					0	0	0.000602	0	0		T	1969862	T	T	1969862	3	4	209	1	0	0	0	0	1	0	0	0	3958	643	23	1	93	1	CSNK1G2	19	1969862	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	172994	1969862	57159121	1054	101469											
CSNK1G2	1455	broad.mit.edu	37	chr19	1979021	1979021	+	Missense_Mutation	SNP	T	C	C																															ccccgagaccaagaagcacaTcccgtaccgcgagcacaaga																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:1979021T>C	uc002lul.3	+	7	1134	c.611T>C	c.(610-612)ATC>ACC	p.I204T	CSNK1G2_uc010dsu.2_Missense_Mutation_p.I156T	NM_001319	NP_001310	P78368	KC1G2_HUMAN	casein kinase 1, gamma 2	204	Protein kinase.				sphingolipid metabolic process|Wnt receptor signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity			stomach(1)	1		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)		AAGAAGCACATCCCGTACCGC	0.567													3	48					0	0	0.009096	0	0		C	1979021	C	C	1979021	3	2	209	1	0	0	0	0	1	0	0	0	3958	1435	50	3	629	3	CSNK1G2	19	1979021	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	9159	1979021	57149962	1055	101470	190	2									
CSNK1G2	1455	broad.mit.edu	37	chr19	1979024	1979024	+	Missense_Mutation	SNP	C	T	T																															cgagaccaagaagcacatccCgtaccgcgagcacaagagcc																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:1979024C>T	uc002lul.3	+	7	1137	c.614C>T	c.(613-615)CCG>CTG	p.P205L	CSNK1G2_uc010dsu.2_Missense_Mutation_p.P157L	NM_001319	NP_001310	P78368	KC1G2_HUMAN	casein kinase 1, gamma 2	205	Protein kinase.				sphingolipid metabolic process|Wnt receptor signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity			stomach(1)	1		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)		AAGCACATCCCGTACCGCGAG	0.562													13	39					0	0	0.00245	0	0		T	1979024	T	T	1979024	3	4	209	1	0	0	0	0	1	0	0	0	3958	652	23	1	632	1	CSNK1G2	19	1979024	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3	1979024	57149959	1056	101471	190	2									
AP3D1	8943	broad.mit.edu	37	chr19	2132534	2132534	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgaagcaggacagacccGtcagtgcaacacctgtgtcg	11	6	12	12	3	1	2	1	1	0	1	2	4	1	3	2	1	3	2	2	1	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:2132534G>A	uc002luz.2	-	5	621	c.398C>T	c.(397-399)ACG>ATG	p.T133M	AP3D1_uc002luy.2_Missense_Mutation_p.T133M|AP3D1_uc002lva.2_Missense_Mutation_p.T133M	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	133					eye pigment biosynthetic process|intracellular protein transport|regulation of sequestering of zinc ion|vesicle-mediated transport	endosome membrane|Golgi membrane|membrane coat	binding|protein transporter activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGACAGACCCGTCAGTGCAAC	0.597													27	122					0	0	0.00632	0	0		A	2132534	A	A	2132534	3	1	209	1	0	0	0	0	1	0	0	0	746	1145	40	1	3325	1	AP3D1	19	2132534	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	153510	2132534	56996449	1057	101472											
AMH	268	broad.mit.edu	37	chr19	2249534	2249534	+	Frame_Shift_Del	DEL	C	-	-																															ggacagcaatggcagcagctCccccctgcgggtggtggggg																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:2249534delC	uc002lvh.2	+	1	422	c.203delC	c.(202-204)TCCfs	p.S68fs	hsa-mir-4321|MI0015852_5'Flank	NM_000479	NP_000470	P03971	MIS_HUMAN	anti-Mullerian hormone precursor	68					cell differentiation|cell-cell signaling|gonadal mesoderm development|Mullerian duct regression|positive regulation of gene expression|sex determination	extracellular space	growth factor activity|hormone activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGCAGCAGCTCCCCCCTGCGG	0.692									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				6	11	---	---	---	---						.	-	2249534	-	-	2249534	7	5	209	1	0	1	0	1	0	0	0	0	572	855	30	0	205	0	AMH	19	2249534	Frame_Shift_Del	DEL	C	TCGA-HU-A4GN-01A-11D-A25D-08	117000	2249534	56879449	1058	101473											
ZFR2	23217	broad.mit.edu	37	chr19	3819148	3819148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggacacggccctctgcacgGccaggagctcctgctccgtg	5	6	14	16	3	1	0	0	0	1	0	3	2	3	2	4	4	3	3	4	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:3819148G>A	uc002lyw.2	-	12	1838	c.1826C>T	c.(1825-1827)GCC>GTC	p.A609V		NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1	609						intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		CCTCTGCACGGCCAGGAGCTC	0.716													9	36					0	0	0.008291	0	0		A	3819148	A	A	3819148	3	1	209	1	0	0	0	0	1	0	0	0	17685	1203	42	2	1025	2	ZFR2	19	3819148	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1569614	3819148	55309835	1059	101474											
MAP2K2	5605	broad.mit.edu	37	chr19	4099243	4099243	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcggccgaggcgagatgctgTgaggctctccttcttccccg	4	10	13	14	4	2	2	0	1	2	1	5	4	3	2	4	3	1	2	4	3	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:4099243T>C	uc002lzk.2	-	7	1129	c.875A>G	c.(874-876)CAC>CGC	p.H292R	MAP2K2_uc002lzj.2_Missense_Mutation_p.H102R	NM_030662	NP_109587	P36507	MP2K2_HUMAN	mitogen-activated protein kinase kinase 2	292	Protein kinase.|Pro-rich.				activation of MAPK activity|activation of MAPKK activity|axon guidance|epidermal growth factor receptor signaling pathway|ERK1 and ERK2 cascade|innate immune response|insulin receptor signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|Ras protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|extracellular region	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0149)|STAD - Stomach adenocarcinoma(1328;0.18)		CGAGATGCTGTGAGGCTCTCC	0.711									Cardiofaciocutaneous_syndrome				3	8					0	0	0.004672	0	0		C	4099243	C	C	4099243	3	2	209	1	0	0	0	0	1	0	0	0	9255	1696	59	3	347	3	MAP2K2	19	4099243	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	280095	4099243	55029740	1060	101475											
CHAF1A	10036	broad.mit.edu	37	chr19	4409665	4409665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccattcgtccctgagctctcCctcttccaccagctcgcccg	4	10	6	21	3	2	1	0	1	2	0	7	1	4	1	6	0	2	2	6	0	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:4409665C>T	uc002mal.2	+	3	969	c.869C>T	c.(868-870)CCC>CTC	p.P290L		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	290	Binds to CBX1 chromo shadow domain.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGAGCTCTCCCTCTTCCACC	0.617								Chromatin_Structure					32	74					0	0	0.012213	0	0		T	4409665	T	T	4409665	3	4	209	1	0	0	0	0	1	0	0	0	3314	623	22	4	879	4	CHAF1A	19	4409665	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	310422	4409665	54719318	1061	101476											
UBXN6	80700	broad.mit.edu	37	chr19	4446179	4446179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccgcccccagccgctccCgagcgtagaaagtgcctggg	8	4	12	17	4	0	1	0	0	0	1	1	2	1	1	6	1	3	2	6	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:4446179C>T	uc002man.1	-	10	1163	c.1067G>A	c.(1066-1068)CGG>CAG	p.R356Q	UBXN6_uc010dty.1_Missense_Mutation_p.R260Q|UBXN6_uc002mam.1_Missense_Mutation_p.R303Q	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	356	UBX.					microtubule organizing center|nucleus	protein binding				0						CAGCCGCTCCCGAGCGTAGAA	0.706													6	19					0	0	0.00308	0	0		T	4446179	T	T	4446179	3	4	209	1	0	0	0	0	1	0	0	0	16943	652	23	1	266	1	UBXN6	19	4446179	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	36514	4446179	54682804	1062	101477											
DPP9	91039	broad.mit.edu	37	chr19	4690888	4690888	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctgcaaggagaccctggtAccttggagccgtgcctcgcc	6	7	14	14	2	0	1	0	0	0	1	1	3	0	2	5	4	4	3	5	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:4690888A>G	uc002mba.2	-	14	1854	c.1596_splice	c.e14+1	p.K532_splice		NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9						proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		AGACCCTGGTACCTTGGAGCC	0.373													3	31					0	0	0.004672	0	0		G	4690888	G	G	4690888	5	3	209	1	0	0	0	0	0	0	1	0	4739	405	14	3	1116	3	DPP9	19	4690888	Splice_Site	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	244709	4690888	54438095	1063	101478											
UHRF1	29128	broad.mit.edu	37	chr19	4944449	4944449	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccgtgggcaccatgtggcGgttccgagtccaggtacctg	5	8	14	14	3	0	0	0	0	0	0	2	1	2	0	6	4	1	3	6	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:4944449G>A	uc002mbo.2	+	9	1460	c.1292G>A	c.(1291-1293)CGG>CAG	p.R431Q	UHRF1_uc010xik.1_RNA|UHRF1_uc010duf.2_RNA|UHRF1_uc002mbp.2_Missense_Mutation_p.R444Q	NM_001048201	NP_001041666	Q96T88	UHRF1_HUMAN	ubiquitin-like with PHD and ring finger domains	431	YDG.|Methyl-CpG binding and interaction with HDAC1.				cell cycle|cell proliferation|DNA repair|regulation of transcription from RNA polymerase II promoter	nucleus	acid-amino acid ligase activity|methyl-CpG binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0276)		ACCATGTGGCGGTTCCGAGTC	0.667													10	59					0	0	0.013537	0	0		A	4944449	A	A	4944449	3	1	209	1	0	0	0	0	1	0	0	0	16993	1116	39	1	1361	1	UHRF1	19	4944449	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	253561	4944449	54184534	1064	101479											
KDM4B	23030	broad.mit.edu	37	chr19	5144079	5144079	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttccacgtgacctgcgcccaCgccgcaggcgtgctcatgga	6	7	12	16	5	1	1	1	1	0	0	2	2	2	2	4	2	2	2	4	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:5144079C>T	uc002mbq.3	+	19	2878	c.2652C>T	c.(2650-2652)CAC>CAT	p.H884H	KDM4B_uc010xim.1_Silent_p.H918H|KDM4B_uc002mbr.3_Silent_p.H642H	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	884	PHD-type 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						CCTGCGCCCACGCCGCAGGCG	0.632													8	98					0	0	0.006214	0	0		T	5144079	T	T	5144079	2	4	209	1	0	0	0	0	0	0	0	1	8145	535	19	1		1	KDM4B	19	5144079	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	199630	5144079	53984904	1065	101480											
ZNRF4	148066	broad.mit.edu	37	chr19	5456241	5456241	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acccaccgtgccacgacctgGgctgtcaccccgtgctgacc	6	6	10	19	3	1	1	1	1	0	0	1	2	1	1	7	1	2	2	7	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:5456241G>T	uc002mca.3	+	1	816	c.739G>T	c.(739-741)GGC>TGC	p.G247C		NM_181710	NP_859061	Q8WWF5	ZNRF4_HUMAN	zinc and ring finger 4 precursor	247	Extracellular (Potential).					integral to membrane	zinc ion binding			large_intestine(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;0.0002)		CCACGACCTGGGCTGTCACCC	0.682													9	88					3.09899e-07	3.35781e-07	0.004482	1	0		T	5456241	T	T	5456241	3	4	209	1	0	0	0	0	1	0	0	0	18239	1232	43	5	741	5	ZNRF4	19	5456241	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	312162	5456241	53672742	1066	101481											
HSD11B1L	374875	broad.mit.edu	37	chr19	5687962	5687962	+	Frame_Shift_Del	DEL	G	-	-																															gccgcggcagcctgagcaccGgggggtgcccctccagtccc																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:5687962delG	uc002mck.2	+	8	954	c.704delG	c.(703-705)CGGfs	p.R235fs	HSD11B1L_uc002mcu.2_3'UTR|HSD11B1L_uc002mcl.2_Frame_Shift_Del_p.R154fs|HSD11B1L_uc002mcm.2_3'UTR|HSD11B1L_uc002mcq.2_Frame_Shift_Del_p.R101fs|HSD11B1L_uc002mcr.2_3'UTR|HSD11B1L_uc002mcs.2_3'UTR|HSD11B1L_uc010dug.2_3'UTR|HSD11B1L_uc002mct.2_3'UTR|HSD11B1L_uc002mco.2_3'UTR|HSD11B1L_uc002mcn.2_3'UTR|HSD11B1L_uc002mcp.2_3'UTR|RPL36_uc002mcv.2_5'Flank|RPL36_uc002mcw.2_5'Flank	NM_198533	NP_940935	Q7Z5J1	DHI1L_HUMAN	short-chain dehydrogenase/reductase 10 isoform	235						extracellular region	binding|oxidoreductase activity				0						CCTGAGCACCGGGGGGTGCCC	0.682													3	6	---	---	---	---						.	-	5687962	-	-	5687962	7	5	209	1	0	1	0	1	0	0	0	0	7392	1116	39	0	893	0	HSD11B1L	19	5687962	Frame_Shift_Del	DEL	G	TCGA-HU-A4GN-01A-11D-A25D-08	231721	5687962	53441021	1067	101482											
PRR22	163154	broad.mit.edu	37	chr19	5784080	5784080	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaacctgtgggcggcaggcGggtgccctgagagcagctgc	7	5	18	11	2	0	1	0	1	0	1	0	3	0	1	2	4	5	3	2	4	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:5784080G>A	uc002mdb.1	-	1	531	c.172C>T	c.(172-174)CGC>TGC	p.R58C	PRR22_uc010xiv.1_Intron	NM_153359	NP_699190	Q8IZ63	PRR22_HUMAN	proline rich 22 isoform 2	58											0						GGCGGCAGGCGGGTGCCCTGA	0.672													35	107					0	0	0.013726	0	0		A	5784080	A	A	5784080	3	1	209	1	0	0	0	0	1	0	0	0	12615	1131	39	1		1	PRR22	19	5784080	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	96118	5784080	53344903	1068	101483											
GTF2F1	2962	broad.mit.edu	37	chr19	6380339	6380339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcgttgatcatcttgcgctCggggttgagtcgcttgagga	5	13	15	8	4	2	3	1	3	1	0	5	4	2	4	0	3	1	4	0	3	0	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:6380339C>T	uc002meq.2	-	13	1792	c.1507G>A	c.(1507-1509)GAG>AAG	p.E503K	GTF2F1_uc010xjb.1_Missense_Mutation_p.E324K|GTF2F1_uc010xjc.1_Missense_Mutation_p.E418K	NM_002096	NP_002087	P35269	T2FA_HUMAN	general transcription factor IIF, polypeptide 1,	503					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|response to virus|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cell junction|transcription factor TFIIF complex	catalytic activity|DNA binding|phosphatase activator activity|transcription coactivator activity|transcription factor binding				0						ATCTTGCGCTCGGGGTTGAGT	0.542													12	212					0	0	0.001855	0	0		T	6380339	T	T	6380339	3	4	209	1	0	0	0	0	1	0	0	0	6874	893	31	1	50	1	GTF2F1	19	6380339	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	596259	6380339	52748644	1069	101484											
SNAPC2	6618	broad.mit.edu	37	chr19	7987602	7987602	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtcccctgaacccgttcCtggtgcccctggagcttctg	3	12	10	16	1	2	1	0	1	2	0	4	2	4	2	6	2	3	2	6	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:7987602C>A	uc002miw.1	+	5	981	c.958C>A	c.(958-960)CTG>ATG	p.L320M	SNAPC2_uc002mix.1_RNA	NM_003083	NP_003074	Q13487	SNPC2_HUMAN	small nuclear RNA activating complex,	320					snRNA transcription|transcription from RNA polymerase II promoter|transcription from RNA polymerase III promoter	nucleoplasm	sequence-specific DNA binding transcription factor activity				0						GAACCCGTTCCTGGTGCCCCT	0.692													7	149					1.12685e-05	1.20391e-05	0.004482	1	0		A	7987602	A	A	7987602	3	1	209	1	0	0	0	0	1	0	0	0	14860	680	24	5	976	5	SNAPC2	19	7987602	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1607263	7987602	51141381	1070	101485											
CD320	51293	broad.mit.edu	37	chr19	8367418	8367418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccagtaaccccagtgggcGgaggcgctcctgggctcgga	7	5	15	14	3	0	0	0	0	0	0	2	2	1	2	4	5	1	3	4	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:8367418G>A	uc002mjj.1	-	5	843	c.778C>T	c.(778-780)CGC>TGC	p.R260C	CD320_uc002mjk.1_RNA|CD320_uc002mjl.1_Missense_Mutation_p.R218C	NM_016579	NP_057663	Q9NPF0	CD320_HUMAN	8D6 antigen isoform 1 precursor	260	Cytoplasmic (Potential).				regulation of cell growth	endoplasmic reticulum|integral to membrane	growth factor activity				0						CCCAGTGGGCGGAGGCGCTCC	0.617													25	76					0	0	0.00333	0	0		A	8367418	A	A	8367418	3	1	209	1	0	0	0	0	1	0	0	0	3007	1116	39	1	74	1	CD320	19	8367418	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	379816	8367418	50761565	1071	101486											
ACTL9	284382	broad.mit.edu	37	chr19	8808575	8808575	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacctccactagcttctcGcggttggtggccgggctgaa	5	9	13	14	3	1	1	0	1	1	0	3	1	2	1	4	4	1	3	4	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:8808575G>A	uc002mkl.2	-	1	598	c.477C>T	c.(475-477)CGC>CGT	p.R159R		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	159						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CTAGCTTCTCGCGGTTGGTGG	0.667													19	73					0	0	0.010504	0	0		A	8808575	A	A	8808575	2	1	209	1	0	0	0	0	0	0	0	1	203	1074	38	1		1	ACTL9	19	8808575	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	441157	8808575	50320408	1072	101487											
MUC16	94025	broad.mit.edu	37	chr19	8999422	8999422	+	Missense_Mutation	SNP	T	C	C	0	1	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	gagactgtccctgtccagggTgtaggggcccagctcagtga	7	8	15	11	0	1	2	1	1	0	1	3	3	3	2	3	3	1	2	3	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:8999422T>C	uc002mkp.2	-	56	40957	c.40753A>G	c.(40753-40755)ACC>GCC	p.T13585A	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.T402A|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						CTGTCCAGGGTGTAGGGGCCC	0.572													44	262					0	0	0.01441	0	0		C	8999422	C	C	8999422	3	2	209	1	0	0	0	0	1	0	0	0	9991	1696	59	3	2886	3	MUC16	19	8999422	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	190847	8999422	50129561	1073	101488											
MUC16	94025	broad.mit.edu	37	chr19	9062137	9062137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accactgggcacttcagaaaGgacagtgcttccctctgtgg	9	9	11	12	0	2	1	1	0	1	1	3	2	3	2	2	3	1	2	2	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:9062137G>A	uc002mkp.2	-	3	25513	c.25309C>T	c.(25309-25311)CTT>TTT	p.L8437F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8439	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						ACTTCAGAAAGGACAGTGCTT	0.522													6	97					0	0	0.001984	0	0		A	9062137	A	A	9062137	3	1	209	1	0	0	0	0	1	0	0	0	9991	1000	35	4	18542	4	MUC16	19	9062137	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	62715	9062137	50066846	1074	101489											
ZNF562	54811	broad.mit.edu	37	chr19	9763880	9763880	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattccttacattcatagggTtttattccagtgtgagttct	8	18	7	8	0	2	1	1	1	1	0	4	1	4	1	2	1	1	2	2	1	3	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:9763880T>C	uc010xks.1	-	6	1189	c.1026A>G	c.(1024-1026)AAA>AAG	p.K342K	ZNF562_uc002mly.2_Silent_p.K342K|ZNF562_uc002mlx.2_Silent_p.K270K|ZNF562_uc010xkt.1_Silent_p.K305K|ZNF562_uc010xku.1_Silent_p.K273K|ZNF562_uc010xkv.1_Silent_p.K341K|ZNF562_uc010xkw.1_Silent_p.K226K	NM_001130032	NP_001123504	Q6V9R5	ZN562_HUMAN	zinc finger protein 562 isoform a	342					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATTCATAGGGTTTTATTCCAG	0.428													35	102					0	0	0.003271	0	0		C	9763880	C	C	9763880	2	2	209	1	0	0	0	0	0	0	0	1	18018	1722	60	3		3	ZNF562	19	9763880	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	701743	9763880	49365103	1075	101490											
PPAN-P2RY11	692312	broad.mit.edu	37	chr19	10220919	10220919	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagtgcagtgcggctcacCgaggtgaggcccagggcagg	8	4	18	11	2	1	2	1	1	0	1	1	3	1	2	2	5	2	3	2	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:10220919C>T	uc002mna.2	+	8	819	c.819C>T	c.(817-819)ACC>ACT	p.T273T	PPAN-P2RY11_uc010xla.1_Silent_p.T273T|P2RY11_uc002mnc.2_5'Flank|PPAN_uc002mmz.1_Silent_p.T273T|PPAN_uc002mnb.1_Silent_p.T220T	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	273	Brix.				RNA splicing	nucleolus	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(20;2.19e-08)|Epithelial(33;1.76e-05)|all cancers(31;3.54e-05)			TGCGGCTCACCGAGGTGAGGC	0.687													3	18					0	0	0.004672	0	0		T	10220919	T	T	10220919	2	4	209	1	0	0	0	0	0	0	0	1	12308	639	23	1		1	PPAN-P2RY11	19	10220919	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	457039	10220919	48908064	1076	101491											
DNM2	1785	broad.mit.edu	37	chr19	10906072	10906072	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttgacgagaaggacttaCgacgggagatcagctatgcc	12	8	13	8	3	1	3	1	1	0	2	1	7	1	4	1	2	3	2	1	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:10906072C>T	uc002mps.1	+	9	1317	c.1153C>T	c.(1153-1155)CGA>TGA	p.R385*	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Nonsense_Mutation_p.R385*|DNM2_uc002mpv.1_Nonsense_Mutation_p.R385*|DNM2_uc002mpu.1_Nonsense_Mutation_p.R385*|DNM2_uc010dxl.1_Nonsense_Mutation_p.R385*|DNM2_uc002mpw.2_Nonsense_Mutation_p.R118*	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	385					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			GAAGGACTTACGACGGGAGAT	0.577													14	123					0	0	0.00245	0	0		T	10906072	T	T	10906072	4	4	209	1	0	0	0	0	0	1	0	0	4678	528	19	1	1187	1	DNM2	19	10906072	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	685153	10906072	48222911	1077	101492											
CCDC151	115948	broad.mit.edu	37	chr19	11531506	11531506	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggtgtcaggacgagtctaGgacctccgagagcgacggtg	8	7	17	9	4	2	1	1	0	1	1	3	6	3	3	2	4	1	0	2	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:11531506G>T	uc002mrs.2	-	13	1928	c.1785C>A	c.(1783-1785)TCC>TCA	p.S595S	CCDC151_uc002mrr.2_Silent_p.S530S|CCDC151_uc010dxz.2_Silent_p.S535S|RGL3_uc002mrn.2_5'Flank|RGL3_uc002mrm.2_5'Flank|RGL3_uc002mro.2_5'Flank|RGL3_uc002mrp.2_5'Flank|RGL3_uc002mrq.2_5'Flank	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	595										ovary(1)	1						GACGAGTCTAGGACCTCCGAG	0.637													16	42					2.31682e-05	2.45898e-05	0.003163	1	0		T	11531506	T	T	11531506	2	4	209	1	0	0	0	0	0	0	0	1	2789	987	35	5		5	CCDC151	19	11531506	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	625434	11531506	47597477	1078	101493											
TNPO2	30000	broad.mit.edu	37	chr19	12812592	12812592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgccccccgggttgacacCgatcatcatgcagatgccgc	9	6	10	16	4	2	2	2	1	0	1	2	3	2	2	5	1	3	2	5	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:12812592C>T	uc002muo.2	-	22	2670	c.2485G>A	c.(2485-2487)GGT>AGT	p.G829S	TNPO2_uc002mup.2_Missense_Mutation_p.G911S|TNPO2_uc002muq.2_Missense_Mutation_p.G819S|TNPO2_uc002mur.2_Missense_Mutation_p.G819S	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	829					intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						GGGTTGACACCGATCATCATG	0.667													10	99					0	0	0.008291	0	0		T	12812592	T	T	12812592	3	4	209	1	0	0	0	0	1	0	0	0	16361	652	23	1	220	1	TNPO2	19	12812592	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1281086	12812592	46316391	1079	101494											
JUNB	3726	broad.mit.edu	37	chr19	12902925	12902925	+	Frame_Shift_Del	DEL	G	-	-																															gacagtacttttacccccgcGggggtggcagcggtggaggt																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:12902925delG	uc002mvc.2	+	1	616	c.340delG	c.(340-342)GGGfs	p.G114fs	JUNB_uc002mvb.2_RNA	NM_002229	NP_002220	P17275	JUNB_HUMAN	jun B proto-oncogene	114						chromatin|nucleus	protein dimerization activity|transcription coactivator activity|transcription corepressor activity			lung(2)|central_nervous_system(1)	3						TTACCCCCGCGGGGGTGGCAG	0.667													6	11	---	---	---	---						.	-	12902925	-	-	12902925	7	5	209	1	0	1	0	1	0	0	0	0	7986	1116	39	0	342	0	JUNB	19	12902925	Frame_Shift_Del	DEL	G	TCGA-HU-A4GN-01A-11D-A25D-08	90333	12902925	46226058	1080	101495											
MAST1	22983	broad.mit.edu	37	chr19	12985260	12985260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagcagctctggcgaggcggGcacacccctggtacccattg	7	6	13	15	2	1	0	0	0	1	0	1	1	1	0	3	4	3	4	3	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:12985260G>A	uc002mvm.2	+	26	4417	c.4289G>A	c.(4288-4290)GGC>GAC	p.G1430D		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1430					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						GGCGAGGCGGGCACACCCCTG	0.706													6	49					0	0	0.001168	0	0		A	12985260	A	A	12985260	3	1	209	1	0	0	0	0	1	0	0	0	9342	1203	42	2	4391	2	MAST1	19	12985260	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	82335	12985260	46143723	1081	101496											
NACC1	112939	broad.mit.edu	37	chr19	13249068	13249068	+	Missense_Mutation	SNP	A	G	G	1	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	tgcgcaagagctggatgcccAaggtcaaggtgctcaaggct	10	7	14	10	1	2	1	2	0	0	1	2	2	2	2	1	4	4	4	1	4	4	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:13249068A>G	uc002mwm.2	+	6	1600	c.1432A>G	c.(1432-1434)AAG>GAG	p.K478E		NM_052876	NP_443108	Q96RE7	NACC1_HUMAN	transcriptional repressor NAC1	478					negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization|transcription, DNA-dependent	cytoplasm|nuclear body					0						CTGGATGCCCAAGGTCAAGGT	0.597													37	133					0	0	0.005524	0	0		G	13249068	G	G	13249068	3	3	209	1	0	0	0	0	1	0	0	0	10153	131	5	3	1450	3	NACC1	19	13249068	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	263808	13249068	45879915	1082	101497											
ZSWIM4	65249	broad.mit.edu	37	chr19	13941204	13941204	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaaggaccctcagaactgCgccttgcctgccctgaccct	8	8	9	16	1	1	3	1	2	0	1	1	4	1	4	5	1	4	0	5	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:13941204C>T	uc002mxh.1	+	13	2499	c.2310C>T	c.(2308-2310)TGC>TGT	p.C770C	ZSWIM4_uc010xng.1_Silent_p.C693C	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	770							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			CTCAGAACTGCGCCTTGCCTG	0.701													27	136					0	0	0.012213	0	0		T	13941204	T	T	13941204	2	4	209	1	0	0	0	0	0	0	0	1	18268	776	27	1		1	ZSWIM4	19	13941204	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	692136	13941204	45187779	1083	101498											
ILVBL	10994	broad.mit.edu	37	chr19	15226969	15226969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcccttccttaccaggatCgagccagcgcagggggccgc	6	5	15	15	3	0	0	0	0	0	0	2	2	1	1	5	4	3	1	5	4	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:15226969C>T	uc002nam.2	-	12	1586	c.1465G>A	c.(1465-1467)GAT>AAT	p.D489N	ILVBL_uc010xof.1_Missense_Mutation_p.D130N|ILVBL_uc010dzw.2_Missense_Mutation_p.D382N	NM_006844	NP_006835	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	489	Thiamine pyrophosphate binding (By similarity).					integral to membrane	magnesium ion binding|thiamine pyrophosphate binding|transferase activity			ovary(2)	2						TTACCAGGATCGAGCCAGCGC	0.642													14	51					0	0	0.001855	0	0		T	15226969	T	T	15226969	3	4	209	1	0	0	0	0	1	0	0	0	7731	884	31	1	453	1	ILVBL	19	15226969	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1285765	15226969	43902014	1084	101499											
NOTCH3	4854	broad.mit.edu	37	chr19	15281358	15281358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggttctggaggctccagcGgctcccctaagagcaggaag	8	7	15	11	1	1	1	0	0	1	1	3	3	3	3	3	5	2	4	3	5	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:15281358G>A	uc002nan.2	-	27	4974	c.4898C>T	c.(4897-4899)CCG>CTG	p.P1633L		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1633	Extracellular (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AGGCTCCAGCGGCTCCCCTAA	0.716													5	13					0	0	0.001168	0	0		A	15281358	A	A	15281358	3	1	209	1	0	0	0	0	1	0	0	0	10569	1116	39	1	2095	1	NOTCH3	19	15281358	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	54389	15281358	43847625	1085	101500											
WIZ	58525	broad.mit.edu	37	chr19	15533994	15533994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgtgccgctgtaagtgccGcacccactcttcctggatgg	6	10	12	13	2	1	0	0	0	1	0	2	2	2	1	4	2	2	3	4	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:15533994G>A	uc002nbc.2	-	8	2823	c.2800C>T	c.(2800-2802)CGG>TGG	p.R934W	WIZ_uc002nba.3_Missense_Mutation_p.R801W|WIZ_uc002nbb.3_Missense_Mutation_p.R760W	NM_021241	NP_067064	O95785	WIZ_HUMAN	widely-interspaced zinc finger motifs	1617	C2H2-type 11.					nucleus	zinc ion binding				0						TGTAAGTGCCGCACCCACTCT	0.637													7	36					0	0	0.00308	0	0		A	15533994	A	A	15533994	3	1	209	1	0	0	0	0	1	0	0	0	17401	1086	38	1	110	1	WIZ	19	15533994	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	252636	15533994	43594989	1086	101501											
PGLYRP2	114770	broad.mit.edu	37	chr19	15586525	15586525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagcagcaccgttctgccgtCggaagttgctgcggaaccct	7	8	13	13	4	1	0	0	0	1	0	2	3	1	2	3	2	6	5	3	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:15586525C>T	uc002nbf.3	-	2	1089	c.956G>A	c.(955-957)CGA>CAA	p.R319Q	PGLYRP2_uc002nbg.3_Missense_Mutation_p.R319Q	NM_052890	NP_443122	Q96PD5	PGRP2_HUMAN	peptidoglycan recognition protein 2 precursor	319					defense response to Gram-positive bacterium|detection of bacterium|innate immune response|peptide amidation|peptidoglycan catabolic process	extracellular region|intracellular|membrane	N-acetylmuramoyl-L-alanine amidase activity|peptidoglycan receptor activity|zinc ion binding			ovary(3)	3						GTTCTGCCGTCGGAAGTTGCT	0.637													14	37					0	0	0.001855	0	0		T	15586525	T	T	15586525	3	4	209	1	0	0	0	0	1	0	0	0	11813	884	31	1	790	1	PGLYRP2	19	15586525	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	52531	15586525	43542458	1087	101502											
CYP4F22	126410	broad.mit.edu	37	chr19	15661545	15661545	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agcgctctccactggcctatGtgcccttctctgcaggaccc	5	10	9	17	1	2	0	0	0	2	0	4	1	2	1	4	2	3	2	4	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:15661545G>A	uc002nbh.3	+	13	1563	c.1396G>A	c.(1396-1398)GTG>ATG	p.V466M		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	466						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						ACTGGCCTATGTGCCCTTCTC	0.587													10	124					0	0	0.008291	0	0		A	15661545	A	A	15661545	3	1	209	1	0	0	0	0	1	0	0	0	4192	1377	48	4	1438	4	CYP4F22	19	15661545	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	75020	15661545	43467438	1088	101503											
ANO8	57719	broad.mit.edu	37	chr19	17442127	17442127	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggctggttttcacacacgGcctgcacccatgacttcatg	8	10	10	13	1	2	1	2	1	0	0	2	2	2	1	2	3	1	3	2	3	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:17442127G>A	uc002ngf.2	-	6	839	c.680C>T	c.(679-681)GCC>GTC	p.A227V	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	227	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						TTCACACACGGCCTGCACCCA	0.632													6	69					0	0	0.001168	0	0		A	17442127	A	A	17442127	3	1	209	1	0	0	0	0	1	0	0	0	703	1203	42	2	3070	2	ANO8	19	17442127	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1780582	17442127	41686856	1089	101504											
FAM129C	199786	broad.mit.edu	37	chr19	17664122	17664122	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttgggtttgtttcctagCtccaaatcttaacttggtgt	6	19	8	8	0	1	0	0	0	1	0	3	0	3	0	2	2	2	3	2	2	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:17664122C>T	uc010xpr.1	+	16	1982	c.1844C>T	c.(1843-1845)GCT>GTT	p.A615V	GLT25D1_uc002nhc.1_5'Flank	NM_173544	NP_775815	Q86XR2	NIBL2_HUMAN	B-cell novel protein 1 isoform a	615											0						TGTTTCCTAGCTCCAAATCTT	0.398													33	146					0	0	0.006999	0	0		T	17664122	T	T	17664122	3	4	209	1	0	0	0	0	1	0	0	0	5449	811	28	2	2023	2	FAM129C	19	17664122	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	221995	17664122	41464861	1090	101505											
PIK3R2	5296	broad.mit.edu	37	chr19	18278091	18278091	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agccggacctcatgcagctgCgcaagatccgagaccagtac	11	5	11	14	3	1	2	1	0	0	2	2	4	2	3	4	1	5	4	4	1	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:18278091C>T	uc002nia.1	+	13	2223	c.1711C>T	c.(1711-1713)CGC>TGC	p.R571C	PIK3R2_uc002nib.1_RNA|PIK3R2_uc010ebi.1_RNA	NM_005027	NP_005018	O00459	P85B_HUMAN	phosphoinositide-3-kinase, regulatory subunit 2	571					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|negative regulation of anti-apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|T cell costimulation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	GTPase activator activity|phosphatidylinositol 3-kinase regulator activity|protein binding			lung(2)|stomach(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)	6						CATGCAGCTGCGCAAGATCCG	0.622													12	77					0	0	0.00245	0	0		T	18278091	T	T	18278091	3	4	209	1	0	0	0	0	1	0	0	0	11938	768	27	1	1757	1	PIK3R2	19	18278091	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	613969	18278091	40850892	1091	101506											
UPF1	5976	broad.mit.edu	37	chr19	18967816	18967816	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtgcatggttcccgtggtccTcggggccaagcaggtgggct	4	9	17	11	2	0	0	0	0	0	0	3	0	2	0	3	6	2	4	3	6	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:18967816T>C	uc002nkg.2	+	14	2263	c.1988T>C	c.(1987-1989)CTC>CCC	p.L663P	UPF1_uc002nkf.2_Missense_Mutation_p.L652P|UPF1_uc002nkh.2_5'Flank	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	663					cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						CCCGTGGTCCTCGGGGCCAAG	0.577													31	114					0	0	0.004289	0	0		C	18967816	C	C	18967816	3	2	209	1	0	0	0	0	1	0	0	0	17029	1551	54	3	2009	3	UPF1	19	18967816	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	689725	18967816	40161167	1092	101507											
GMIP	51291	broad.mit.edu	37	chr19	19744697	19744697	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgaggctaggactgggggcTgggagtctgggtcaaggtgc	6	8	20	7	0	2	1	1	1	1	0	2	3	2	3	0	7	1	2	0	7	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:19744697T>C	uc002nnd.2	-	19	2504	c.2387A>G	c.(2386-2388)CAG>CGG	p.Q796R	GMIP_uc010xrb.1_Missense_Mutation_p.Q770R|GMIP_uc010xrc.1_Missense_Mutation_p.Q767R	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	796	Pro-rich.				negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						gactgggggctgggagtctgg	0.219													3	8					0	0	0.004672	0	0		C	19744697	C	C	19744697	3	2	209	1	0	0	0	0	1	0	0	0	6506	1580	55	3	537	3	GMIP	19	19744697	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	776881	19744697	39384286	1093	101508											
ATP13A1	57130	broad.mit.edu	37	chr19	19765378	19765378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcgtccagtccacggccGtcagcatggccttctctaga	7	9	10	15	3	3	1	2	0	1	1	6	1	5	1	4	2	2	1	4	2	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:19765378G>A	uc002nnh.3	-	13	1815	c.1787C>T	c.(1786-1788)ACG>ATG	p.T596M	ATP13A1_uc002nne.2_5'Flank|ATP13A1_uc002nnf.3_Translation_Start_Site|ATP13A1_uc002nng.2_Missense_Mutation_p.T478M	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	596	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(3)|large_intestine(2)|central_nervous_system(1)	6						GTCCACGGCCGTCAGCATGGC	0.667													11	43					0	0	0.013537	0	0		A	19765378	A	A	19765378	3	1	209	1	0	0	0	0	1	0	0	0	1124	1145	40	1	1883	1	ATP13A1	19	19765378	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	20681	19765378	39363605	1094	101509											
ZNF90	7643	broad.mit.edu	37	chr19	20235986	20235986	+	RNA	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggagatgactgagccgcGcatgctacaatacgagctgc	10	7	12	12	3	0	3	0	2	0	1	0	5	0	3	2	1	6	3	2	1	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:20235986G>A	uc002nos.1	+	5		c.662G>A			ZNF90_uc002not.1_RNA			Q03938	ZNF90_HUMAN	Synthetic construct DNA, clone: pF1KB9685, Homo sapiens ZNF90 gene for zinc finger protein 90, without stop codon, in Flexi system.							Golgi apparatus|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						ACTGAGCCGCGCATGCTACAA	0.587													9	18					0	0	0.006214	0	0		A	20235986	A	A	20235986	1	1	209	0	1	0	0	0	0	0	0	0	18224	1102	38	1		1	ZNF90	19	20235986	RNA	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	470608	20235986	38892997	1095	101510											
ZNF714	148206	broad.mit.edu	37	chr19	21300088	21300088	+	Silent	SNP	C	T	T	0	0	0	1	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	ttcaaatgtgaagaatgtggCaaagcttttaagcactcctc	13	12	8	8	0	1	2	1	1	0	1	3	2	2	2	1	1	2	3	1	1	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:21300088C>T	uc002npo.3	+	6	981	c.621C>T	c.(619-621)GGC>GGT	p.G207G	ZNF714_uc002npl.2_Silent_p.G52G|ZNF714_uc010ecp.1_Silent_p.G158G|ZNF714_uc002npn.2_RNA	NM_182515	NP_872321	Q96N38	ZN714_HUMAN	zinc finger protein 714	207	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAGAATGTGGCAAAGCTTTTA	0.403													4	45					0	0	0.009096	0	0		T	21300088	T	T	21300088	2	4	209	1	0	0	0	0	0	0	0	1	18143	697	25	2		2	ZNF714	19	21300088	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1064102	21300088	37828895	1096	101511											
ZNF257	113835	broad.mit.edu	37	chr19	22255611	22255611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtgtttgtgtgtttttcagGgaccactgacaattagggat	8	16	12	5	0	1	1	1	1	0	0	1	3	1	3	1	2	0	2	1	2	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:22255611G>A	uc010ecx.2	+	2	173	c.4G>A	c.(4-6)GGA>AGA	p.G2R	ZNF257_uc010ecy.2_5'UTR	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	2					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				TGTTTTTCAGGGACCACTGAC	0.413													9	66					0	0	0.008291	0	0		A	22255611	A	A	22255611	3	1	209	1	0	0	0	0	1	0	0	0	17825	1246	43	4	10	4	ZNF257	19	22255611	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	955523	22255611	36873372	1097	101512											
ZNF676	163223	broad.mit.edu	37	chr19	22363522	22363522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatttgtagggtttctctcCagcatgaattctcttgtgtt	7	18	8	8	0	2	1	0	1	2	0	5	1	3	1	1	1	1	4	1	1	2	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:22363522C>T	uc002nqs.1	-	3	1315	c.997G>A	c.(997-999)GGA>AGA	p.G333R		NM_001001411	NP_001001411	Q8N7Q3	ZN676_HUMAN	zinc finger protein 676	333					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.114)				GGTTTCTCTCCAGCATGAATT	0.403													14	80					0	0	0.00245	0	0		T	22363522	T	T	22363522	3	4	209	1	0	0	0	0	1	0	0	0	18108	603	21	4	773	4	ZNF676	19	22363522	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	107911	22363522	36765461	1098	101513											
POP4	10775	broad.mit.edu	37	chr19	30106265	30106265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctgcgaagaagttcaaagCgaagggaacgattgacctgt	13	8	13	7	3	2	2	1	1	1	1	2	6	2	3	1	1	3	1	1	1	5	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:30106265C>T	uc002nsf.2	+	7	697	c.641C>T	c.(640-642)GCG>GTG	p.A214V	POP4_uc002nsg.2_Missense_Mutation_p.A133V	NM_006627	NP_006618	O95707	RPP29_HUMAN	processing of precursor 4	214					mRNA cleavage|rRNA processing|tRNA processing	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease P activity|RNA binding				0	Ovarian(5;0.000567)|Breast(6;0.0602)|Esophageal squamous(110;0.239)		UCEC - Uterine corpus endometrioid carcinoma (4;2.65e-06)|STAD - Stomach adenocarcinoma(5;1.7e-06)|Lung(7;0.0623)|LUAD - Lung adenocarcinoma(5;0.0989)|BRCA - Breast invasive adenocarcinoma(6;0.225)			AAGTTCAAAGCGAAGGGAACG	0.323													9	59					0	0	0.006214	0	0		T	30106265	T	T	30106265	3	4	209	1	0	0	0	0	1	0	0	0	12271	768	27	1	667	1	POP4	19	30106265	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7742743	30106265	29022718	1099	101514											
MAG	4099	broad.mit.edu	37	chr19	35786696	35786696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccccggtggtcttcaagtCgcgcacccaagtagtccacg	7	7	10	17	4	2	0	1	0	1	0	4	0	3	0	5	2	0	2	5	2	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:35786696C>T	uc002nyy.1	+	4	376	c.227C>T	c.(226-228)TCG>TTG	p.S76L	MAG_uc002nyx.1_Missense_Mutation_p.S76L|MAG_uc010eds.1_Missense_Mutation_p.S51L|MAG_uc002nyz.1_Missense_Mutation_p.S76L	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	76	Ig-like V-type.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			GTCTTCAAGTCGCGCACCCAA	0.642													16	156					0	0	0.006122	0	0		T	35786696	T	T	35786696	3	4	209	1	0	0	0	0	1	0	0	0	9180	893	31	1	233	1	MAG	19	35786696	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5680431	35786696	23342287	1100	101515											
ATP4A	495	broad.mit.edu	37	chr19	36053496	36053496	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggccgcagtgcgttgggCccatcccgcagcagcagctc	5	6	15	15	3	0	0	0	0	0	0	2	0	1	0	3	3	4	6	3	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:36053496C>A	uc002oal.1	-	4	290	c.261G>T	c.(259-261)GGG>GGT	p.G87G		NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	87	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GTGCGTTGGGCCCATCCCGCA	0.706													4	16					0.00909568	0.0092679	0.009096	1	0		A	36053496	A	A	36053496	2	1	209	1	0	0	0	0	0	0	0	1	1146	726	26	5		5	ATP4A	19	36053496	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	266800	36053496	23075487	1101	101516											
APLP1	333	broad.mit.edu	37	chr19	36370038	36370038	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgctgatcatgggagcgggCggaggctccctcatcgtcct	5	9	14	13	3	2	1	2	1	0	0	5	3	4	3	2	4	2	2	2	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:36370038C>T	uc002oce.2	+	16	1911	c.1773C>T	c.(1771-1773)GGC>GGT	p.G591G	APLP1_uc010xsz.1_Silent_p.G552G|APLP1_uc002ocf.2_Silent_p.G592G|APLP1_uc002ocg.2_Silent_p.G495G|APLP1_uc010xta.1_Silent_p.G585G	NM_005166	NP_005157	P51693	APLP1_HUMAN	amyloid precursor-like protein 1 isoform 2	591	Helical; (Potential).				apoptosis|cell adhesion|cellular response to norepinephrine stimulus|endocytosis|negative regulation of cAMP biosynthetic process|nervous system development|organ morphogenesis	basement membrane|integral to membrane|perinuclear region of cytoplasm|plasma membrane	alpha-2A adrenergic receptor binding|alpha-2B adrenergic receptor binding|alpha-2C adrenergic receptor binding|heparin binding|identical protein binding|metal ion binding			ovary(2)	2	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)			TGGGAGCGGGCGGAGGCTCCC	0.642													6	72					0	0	0.001168	0	0		T	36370038	T	T	36370038	2	4	209	1	0	0	0	0	0	0	0	1	778	755	27	1		1	APLP1	19	36370038	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	316542	36370038	22758945	1102	101517											
HCST	10870	broad.mit.edu	37	chr19	36394742	36394742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgtggctgctgatgcggtgGcatcgctgctcatcgtgggg	3	11	17	10	4	1	1	1	1	0	0	4	1	1	1	0	5	3	5	0	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:36394742G>A	uc002ocl.1	+	3	292	c.178G>A	c.(178-180)GCA>ACA	p.A60T	HCST_uc002ock.1_Missense_Mutation_p.A60T	NM_014266	NP_055081	Q9UBK5	HCST_HUMAN	hematopoietic cell signal transducer isoform 1	60	Helical; (Potential).				regulation of immune response	integral to membrane|plasma membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGATGCGGTGGCATCGCTGCT	0.682													5	41					0	0	0.001168	0	0		A	36394742	A	A	36394742	3	1	209	1	0	0	0	0	1	0	0	0	7019	1203	42	2	188	2	HCST	19	36394742	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	24704	36394742	22734241	1103	101518											
ZNF260	339324	broad.mit.edu	37	chr19	37006132	37006132	+	Silent	SNP	G	A	A	0	0	1	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	tgctgaagactttccaacatGcctatcatgcatgtgaattt	11	14	7	9	0	1	3	1	2	0	1	2	3	2	3	2	0	4	2	2	0	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:37006132G>A	uc002oee.1	-	4	853	c.9C>T	c.(7-9)GGC>GGT	p.G3G	ZNF260_uc002oed.1_5'UTR|ZNF260_uc010eey.1_5'UTR|ZNF260_uc002oef.1_5'UTR	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	3					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					TTTCCAACATGCCTATCATGC	0.333													5	20					0	0	0.000602	0	0		A	37006132	A	A	37006132	2	1	209	1	0	0	0	0	0	0	0	1	17827	1306	46	2		2	ZNF260	19	37006132	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	611390	37006132	22122851	1104	101519											
ZNF790	388536	broad.mit.edu	37	chr19	37310583	37310583	+	Silent	SNP	A	G	G	1	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	cattcatatgttttcttaacAgtgtgaactgtctgatattg	10	18	7	6	0	3	2	1	2	2	0	3	2	3	2	0	0	2	1	0	0	4	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:37310583A>G	uc002oew.2	-	5	782	c.663T>C	c.(661-663)ACT>ACC	p.T221T	uc002oev.1_Intron	NM_206894	NP_996777	Q6PG37	ZN790_HUMAN	zinc finger protein 790	221					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|skin(1)	2	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			TTTTCTTAACAGTGTGAACTG	0.343													13	37					0	0	0.013537	0	0		G	37310583	G	G	37310583	2	3	209	1	0	0	0	0	0	0	0	1	18187	175	7	3		3	ZNF790	19	37310583	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	304451	37310583	21818400	1105	101520											
DPF1	8193	broad.mit.edu	37	chr19	38704286	38704286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggcgggcggcactcacgtCgttctcggaggttccgcaca	5	7	16	13	6	2	0	1	0	1	0	5	1	3	1	1	6	0	4	1	6	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:38704286C>T	uc002ohl.2	-	9	985	c.958G>A	c.(958-960)GAC>AAC	p.D320N	DPF1_uc002ohm.2_Missense_Mutation_p.D364N|DPF1_uc002ohn.2_Missense_Mutation_p.D282N|DPF1_uc010xtu.1_Missense_Mutation_p.D338N|DPF1_uc010xtv.1_Missense_Mutation_p.D338N	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	320	PHD-type 2.				induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)		Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCACTCACGTCGTTCTCGGAG	0.652													27	79					0	0	0.009535	0	0		T	38704286	T	T	38704286	3	4	209	1	0	0	0	0	1	0	0	0	4722	884	31	1	196	1	DPF1	19	38704286	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1393703	38704286	20424697	1106	101521											
RYR1	6261	broad.mit.edu	37	chr19	38987106	38987106	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcctctgctatttctgcCgaatcagccggcagaaccag	8	10	9	14	2	3	1	1	0	2	1	4	2	4	1	4	1	4	3	4	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:38987106C>T	uc002oit.2	+	41	6851	c.6721C>T	c.(6721-6723)CGA>TGA	p.R2241*	RYR1_uc002oiu.2_Nonsense_Mutation_p.R2241*|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2241	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTATTTCTGCCGAATCAGCCG	0.632													4	74					0	0	0.009096	0	0		T	38987106	T	T	38987106	4	4	209	1	0	0	0	0	0	1	0	0	13793	644	23	1	6883	1	RYR1	19	38987106	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	282820	38987106	20141877	1107	101522											
CAPN12	147968	broad.mit.edu	37	chr19	39221758	39221758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggtactcacagaagatgcagGtgaggtgggccacacaggac	12	5	15	9	0	1	3	1	1	0	2	1	4	1	4	1	5	2	2	1	5	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:39221758G>A	uc002ojd.1	-	19	2372	c.2063C>T	c.(2062-2064)ACC>ATC	p.T688I	CAPN12_uc010egd.1_Missense_Mutation_p.T49I|CAPN12_uc002ojc.1_Missense_Mutation_p.T142I	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	688	Domain IV.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GAAGATGCAGGTGAGGTGGGC	0.647													8	22					0	0	0.004482	0	0		A	39221758	A	A	39221758	3	1	209	1	0	0	0	0	1	0	0	0	2628	1261	44	4	108	4	CAPN12	19	39221758	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	234652	39221758	19907225	1108	101523											
CAPN12	147968	broad.mit.edu	37	chr19	39229238	39229238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgtgcccgtgatggaataCgcgtgtccctttaccaggcc	6	11	12	12	3	0	1	0	1	0	0	1	2	1	2	4	2	3	0	4	2	3	3	rs148191501	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:39229238C>T	uc002ojd.1	-	6	1089	c.780G>A	c.(778-780)GCG>GCA	p.A260A	CAPN12_uc002ojc.1_5'Flank	NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	260	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			TGATGGAATACGCGTGTCCCT	0.627													15	51					0	0	0.004007	0	0		T	39229238	T	T	39229238	2	4	209	1	0	0	0	0	0	0	0	1	2628	523	19	1		1	CAPN12	19	39229238	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	7480	39229238	19899745	1109	101524											
PSMC4	5704	broad.mit.edu	37	chr19	40485978	40485978	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgctgtgcactctcagcCgacagggaggttcagaggat	8	9	14	10	1	2	1	2	0	1	1	3	4	2	3	1	3	3	3	1	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:40485978C>T	uc002omq.2	+	8	880	c.843C>T	c.(841-843)GCC>GCT	p.A281A	PSMC4_uc002omr.2_Silent_p.A250A	NM_006503	NP_006494	P43686	PRS6B_HUMAN	proteasome 26S ATPase subunit 4 isoform 1	281					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding			ovary(1)	1	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					CACTCTCAGCCGACAGGGAGG	0.547													9	49					0	0	0.004482	0	0		T	40485978	T	T	40485978	2	4	209	1	0	0	0	0	0	0	0	1	12711	666	23	1		1	PSMC4	19	40485978	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1256740	40485978	18643005	1110	101525											
AKT2	208	broad.mit.edu	37	chr19	40743902	40743902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcgcggtataccacgtcccGcgagtgcaagtactcaagag	10	7	12	12	5	1	1	1	0	0	1	3	2	2	1	2	1	3	3	2	1	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:40743902G>A	uc002onf.2	-	9	1067	c.805C>T	c.(805-807)CGG>TGG	p.R269W	AKT2_uc010egs.2_Missense_Mutation_p.R269W|AKT2_uc010egt.2_Missense_Mutation_p.R207W|AKT2_uc010xvj.1_Missense_Mutation_p.R207W|AKT2_uc010egu.1_Missense_Mutation_p.R207W|AKT2_uc002one.2_Missense_Mutation_p.R165W	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	269	Protein kinase.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			ACCACGTCCCGCGAGTGCAAG	0.597			A		ovarian|pancreatic 								3	30					0	0	0.000602	0	0		A	40743902	A	A	40743902	3	1	209	1	0	0	0	0	1	0	0	0	480	1086	38	1	664	1	AKT2	19	40743902	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	257924	40743902	18385081	1111	101526											
C19orf54	284325	broad.mit.edu	37	chr19	41249853	41249853	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgtggcccttcctctgacaCggctcatggttgaagtcctc	5	13	10	13	1	2	2	1	2	1	0	5	2	4	2	3	3	0	2	3	3	1	3	rs3745217	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:41249853C>T	uc002oou.1	-	5	795	c.675G>A	c.(673-675)CCG>CCA	p.P225P	C19orf54_uc002oow.1_Silent_p.P53P|C19orf54_uc002oox.1_RNA|C19orf54_uc002ooy.1_Missense_Mutation_p.R46H|C19orf54_uc010xvs.1_RNA	NM_198476	NP_940878	Q5BKX5	CS054_HUMAN	hypothetical protein LOC284325	225											0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TCCTCTGACACGGCTCATGGT	0.612													21	92					0	0	0.00278	0	0		T	41249853	T	T	41249853	2	4	209	1	0	0	0	0	0	0	0	1	1939	523	19	1		1	C19orf54	19	41249853	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	505951	41249853	17879130	1112	101527											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41798223	41798223	+	Missense_Mutation	SNP	T	A	A	0	1	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	gatgggcattgctttccgaaTccagaaggaagccttggggg	9	9	15	8	1	0	1	0	0	0	1	2	4	2	2	3	4	2	2	3	4	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:41798223T>A	uc002oqb.3	+	8	1362	c.1073T>A	c.(1072-1074)ATC>AAC	p.I358N	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Missense_Mutation_p.I258N|HNRNPUL1_uc002oqa.3_Missense_Mutation_p.I258N|HNRNPUL1_uc010ehm.2_Missense_Mutation_p.I358N|HNRNPUL1_uc002oqc.3_Missense_Mutation_p.I244N|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Missense_Mutation_p.I258N|HNRNPUL1_uc010ehn.2_Missense_Mutation_p.I258N|HNRNPUL1_uc010eho.2_Missense_Mutation_p.I258N|HNRNPUL1_uc010xvy.1_Missense_Mutation_p.I258N|HNRNPUL1_uc010ehp.2_Missense_Mutation_p.I214N|HNRNPUL1_uc010ehl.1_Missense_Mutation_p.I258N	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	358	B30.2/SPRY.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						GCTTTCCGAATCCAGAAGGAA	0.478													58	137					0	0	0.01441	0	0		A	41798223	A	A	41798223	3	1	209	1	0	0	0	0	1	0	0	0	7290	1435	50	5	1103	5	HNRNPUL1	19	41798223	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	548370	41798223	17330760	1113	101528											
CEACAM4	1089	broad.mit.edu	37	chr19	42132059	42132059	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaggatcctgcgtcctccaGggtgatgttttggaacagca	8	11	13	9	1	0	1	0	1	0	0	3	3	3	3	3	3	3	3	3	3	2	3	rs142356987	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:42132059G>T	uc002orh.1	-	2	451	c.340C>A	c.(340-342)CTG>ATG	p.L114M	CEACAM4_uc010xwd.1_Missense_Mutation_p.L114M	NM_001817	NP_001808	O75871	CEAM4_HUMAN	carcinoembryonic antigen-related cell adhesion	114	Extracellular (Potential).|Ig-like V-type.					integral to plasma membrane|membrane fraction					0						GCGTCCTCCAGGGTGATGTTT	0.512													13	179					9.31168e-06	9.95575e-06	0.001855	1	0		T	42132059	T	T	42132059	3	4	209	1	0	0	0	0	1	0	0	0	3197	991	35	5	418	5	CEACAM4	19	42132059	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	333836	42132059	16996924	1114	101529											
GRIK5	2901	broad.mit.edu	37	chr19	42546801	42546801	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accgcaggcggtagcggaagCgcagcagctcggccagctcc	8	3	15	15	5	0	0	0	0	0	0	2	1	1	1	3	4	5	6	3	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:42546801C>T	uc002osj.1	-	11	1411	c.1376G>A	c.(1375-1377)CGC>CAC	p.R459H	GRIK5_uc002osi.1_Missense_Mutation_p.R31H|GRIK5_uc010eib.1_Missense_Mutation_p.R378H	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	459	Extracellular (Potential).			RFR -> PFP (in Ref. 1; AAB22591).		cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	GTAGCGGAAGCGCAGCAGCTC	0.677													15	66					0	0	0.003163	0	0		T	42546801	T	T	42546801	3	4	209	1	0	0	0	0	1	0	0	0	6793	768	27	1	1602	1	GRIK5	19	42546801	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	414742	42546801	16582182	1115	101530											
ZNF526	116115	broad.mit.edu	37	chr19	42729088	42729088	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagtgccacctcctttgcCtcccccaacaccactgcctc	7	8	4	22	0	0	0	0	0	0	0	3	0	2	0	9	0	4	0	9	0	1	1	rs148307171		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:42729088C>A	uc002osz.1	+	3	689	c.533C>A	c.(532-534)CCT>CAT	p.P178H		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	178					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CCTCCTTTGCCTCCCCCAACA	0.622													27	117					1.32003e-05	1.40719e-05	0.005443	1	0		A	42729088	A	A	42729088	3	1	209	1	0	0	0	0	1	0	0	0	17992	681	24	5	535	5	ZNF526	19	42729088	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	182287	42729088	16399895	1116	101531											
ZNF575	284346	broad.mit.edu	37	chr19	44039443	44039443	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcccaccgcctcacgcacagCggcgcccgcccgcacccgtg	5	2	11	23	7	1	0	1	0	0	0	1	0	1	0	6	1	1	2	6	1	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:44039443C>T	uc002ows.2	+	4	870	c.342C>T	c.(340-342)AGC>AGT	p.S114S	ZNF575_uc002owq.2_Silent_p.S213S	NM_174945	NP_777605	Q86XF7	ZN575_HUMAN	zinc finger protein 575	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0199)				TCACGCACAGCGGCGCCCGCC	0.716													4	51					0	0	0.009096	0	0		T	44039443	T	T	44039443	2	4	209	1	0	0	0	0	0	0	0	1	18032	767	27	1		1	ZNF575	19	44039443	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1310355	44039443	15089540	1117	101532											
ZNF227	7770	broad.mit.edu	37	chr19	44740799	44740799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agtccacctgggtgttcacaCcagggaaaaactctttaaat	13	10	8	10	0	2	0	1	0	1	0	3	1	3	1	3	2	1	1	3	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:44740799C>T	uc002oyu.2	+	6	2421	c.2216C>T	c.(2215-2217)ACC>ATC	p.T739I	ZNF227_uc010xwu.1_Missense_Mutation_p.T688I|ZNF227_uc002oyv.2_Missense_Mutation_p.T739I|ZNF227_uc010xwv.1_Missense_Mutation_p.T688I|ZNF227_uc010xww.1_Missense_Mutation_p.T660I|ZNF227_uc002oyw.2_Missense_Mutation_p.T711I|ZNF227_uc010ejh.2_Missense_Mutation_p.T732I|ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_3'UTR	NM_182490	NP_872296	Q86WZ6	ZN227_HUMAN	zinc finger protein 227	739					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(69;0.0435)				GGTGTTCACACCAGGGAAAAA	0.493													26	83					0	0	0.009535	0	0		T	44740799	T	T	44740799	3	4	209	1	0	0	0	0	1	0	0	0	17806	507	18	4	2230	4	ZNF227	19	44740799	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	701356	44740799	14388184	1118	101533											
ZNF233	353355	broad.mit.edu	37	chr19	44778460	44778460	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggctttagtcagagttcGcatctccaagaccatcagca	12	9	9	11	1	3	2	2	0	1	2	5	2	3	2	2	1	1	4	2	1	3	3	rs146745646	by1000genomes	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:44778460G>A	uc002oyz.1	+	5	1774	c.1647G>A	c.(1645-1647)TCG>TCA	p.S549S	ZNF235_uc002oyx.1_Intron|ZNF235_uc010eji.2_Intron|ZNF233_uc002oyy.1_Silent_p.S364S	NM_181756	NP_861421	A6NK53	ZN233_HUMAN	zinc finger protein 233	549	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2		Prostate(69;0.0435)|all_neural(266;0.226)				GTCAGAGTTCGCATCTCCAAG	0.468													18	51					0	0	0.006122	0	0		A	44778460	A	A	44778460	2	1	209	1	0	0	0	0	0	0	0	1	17811	1074	38	1		1	ZNF233	19	44778460	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	37661	44778460	14350523	1119	101534											
SFRS16	11129	broad.mit.edu	37	chr19	45573816	45573816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgagaatacagctcttctcGaaggtaaggaagcccatgac	13	8	10	10	2	2	2	0	1	2	1	4	5	2	3	1	2	3	2	1	2	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:45573816G>A	uc002pak.2	+	20	2077	c.1979G>A	c.(1978-1980)CGA>CAA	p.R660Q	SFRS16_uc002pal.2_RNA|SFRS16_uc010xxh.1_Missense_Mutation_p.R598Q|SFRS16_uc002pam.2_Missense_Mutation_p.R641Q	NM_007056	NP_008987	Q8N2M8	CLASR_HUMAN	splicing factor, arginine/serine-rich 16	660	Arg-rich.				mRNA processing|RNA splicing	nucleus					0		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		AGCTCTTCTCGAAGGTAAGGA	0.537													65	207					0	0	0.01441	0	0		A	45573816	A	A	45573816	3	1	209	1	0	0	0	0	1	0	0	0	14197	1058	37	1	2053	1	SFRS16	19	45573816	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	795356	45573816	13555167	1120	101535											
ERCC2	2068	broad.mit.edu	37	chr19	45856015	45856015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctactcaccttgagaatgcGgctctgtgtgtagacgtagg	8	11	13	9	2	2	2	1	1	1	2	2	3	2	2	1	2	2	4	1	2	4	4	rs144511865		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:45856015G>A	uc002pbj.2	-	20	1938	c.1891C>T	c.(1891-1893)CGC>TGC	p.R631C	ERCC2_uc002pbh.2_Missense_Mutation_p.R194C|ERCC2_uc002pbi.2_Missense_Mutation_p.R324C|ERCC2_uc010ejz.2_Missense_Mutation_p.R553C|ERCC2_uc002pbk.2_Missense_Mutation_p.R607C	NM_000400	NP_000391	P18074	ERCC2_HUMAN	excision repair cross-complementing rodent	631	Mediates interaction with MMS19.				cell cycle checkpoint|chromosome segregation|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|UV protection|viral reproduction	cytoplasm|holo TFIIH complex|MMXD complex	5'-3' DNA helicase activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|iron-sulfur cluster binding|metal ion binding|protein C-terminus binding|protein N-terminus binding			lung(2)|pancreas(1)	3		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0226)		TTGAGAATGCGGCTCTGTGTG	0.607			Mis|N|F|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				10	83					0	0	0.013537	0	0		A	45856015	A	A	45856015	3	1	209	1	0	0	0	0	1	0	0	0	5221	1116	39	1	407	1	ERCC2	19	45856015	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	282199	45856015	13272968	1121	101536											
SIX5	147912	broad.mit.edu	37	chr19	46269033	46269033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcccctctggtgggggcGccgggaagttgggcaggagg	5	6	20	10	2	2	0	1	0	1	0	2	2	2	2	3	7	1	2	3	7	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:46269033G>A	uc002pdb.2	-	3	2341	c.1946C>T	c.(1945-1947)GCG>GTG	p.A649V	SIX5_uc002pdc.2_3'UTR	NM_175875	NP_787071	Q8N196	SIX5_HUMAN	SIX homeobox 5	649						cytoplasm|nucleus	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Ovarian(192;0.0308)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00783)|GBM - Glioblastoma multiforme(486;0.0802)|Epithelial(262;0.235)		TGGTGGGGGCGCCGGGAAGTT	0.682													15	46					0	0	0.003163	0	0		A	46269033	A	A	46269033	3	1	209	1	0	0	0	0	1	0	0	0	14375	1087	38	1	277	1	SIX5	19	46269033	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	413018	46269033	12859950	1122	101537											
RSPH6A	81492	broad.mit.edu	37	chr19	46299296	46299296	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcttgttgaatgggggctGgcagggccgggttgaagctc	6	10	17	8	1	1	2	0	2	1	0	2	2	1	2	1	5	1	5	1	5	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:46299296G>T	uc002pdm.2	-	6	2128	c.1985C>A	c.(1984-1986)CCA>CAA	p.P662Q	RSPH6A_uc002pdl.2_Missense_Mutation_p.P398Q	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	662	Glu-rich.					intracellular				ovary(1)|central_nervous_system(1)	2						AATGGGGGCTGGCAGGGCCGG	0.547													42	204					8.20599e-20	9.31508e-20	0.011902	1	0		T	46299296	T	T	46299296	3	4	209	1	0	0	0	0	1	0	0	0	13732	1348	47	5	172	5	RSPH6A	19	46299296	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	30263	46299296	12829687	1123	101538											
NOVA2	4858	broad.mit.edu	37	chr19	46444150	46444150	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcacggctttcaccgtggcGcctcccttgccgatgatcag	6	10	10	15	4	3	1	3	1	0	0	4	2	4	1	4	2	1	1	4	2	0	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:46444150G>A	uc002pdv.2	-	4	498	c.450C>T	c.(448-450)GGC>GGT	p.G150G		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	150	KH 2.					nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		TCACCGTGGCGCCTCCCTTGC	0.582													6	47					0	0	0.001984	0	0		A	46444150	A	A	46444150	2	1	209	1	0	0	0	0	0	0	0	1	10574	1074	38	1		1	NOVA2	19	46444150	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	144854	46444150	12684833	1124	101539											
PRKD2	25865	broad.mit.edu	37	chr19	47177801	47177801	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagagaacactgatgcgctcCgccagcccctgcatgtcgtg	8	7	11	15	3	0	2	0	1	0	1	2	3	1	2	4	0	4	2	4	0	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:47177801C>T	uc002pfh.2	-	19	2958	c.2616G>A	c.(2614-2616)GCG>GCA	p.A872A	PRKD2_uc002pfd.2_Silent_p.A246A|PRKD2_uc010eks.2_Silent_p.A275A|PRKD2_uc010ekt.2_Silent_p.A139A|PRKD2_uc002pfe.2_Silent_p.A402A|PRKD2_uc002pff.2_Silent_p.A392A|PRKD2_uc002pfg.2_Silent_p.A715A|PRKD2_uc002pfi.2_Silent_p.A872A|PRKD2_uc002pfj.2_Silent_p.A872A|PRKD2_uc010xye.1_Silent_p.A882A|PRKD2_uc002pfk.2_Silent_p.A715A	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	872					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		TGATGCGCTCCGCCAGCCCCT	0.622													3	28					0	0	0.004672	0	0		T	47177801	T	T	47177801	2	4	209	1	0	0	0	0	0	0	0	1	12541	639	23	1		1	PRKD2	19	47177801	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	733651	47177801	11951182	1125	101540											
SAE1	10055	broad.mit.edu	37	chr19	47700504	47700504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccagtgctcttaaagttcCgtacagataaaggaagagat	14	10	9	8	1	1	2	0	0	1	2	3	4	3	3	2	1	2	3	2	1	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:47700504C>T	uc002pgc.2	+	7	804	c.748C>T	c.(748-750)CGT>TGT	p.R250C	SAE1_uc002pgd.2_Intron|SAE1_uc010ekx.2_Intron|SAE1_uc010ekw.2_RNA|SAE1_uc010xyk.1_Missense_Mutation_p.R76C|SAE1_uc002pge.2_Missense_Mutation_p.R186C	NM_016402	NP_057486	Q9UBE0	SAE1_HUMAN	SubName: Full=SUMO-1 activating enzyme subunit 1, isoform CRA_b; SubName: Full=cDNA, FLJ96708, Homo sapiens SUMO-1 activating enzyme subunit 1 (SAE1), mRNA;	250					protein sumoylation|protein ubiquitination	nucleus	ATP-dependent protein binding|enzyme activator activity|ligase activity|protein C-terminus binding|protein heterodimerization activity|ubiquitin activating enzyme activity			ovary(1)	1		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.00013)|OV - Ovarian serous cystadenocarcinoma(262;0.000146)|Epithelial(262;0.00697)|GBM - Glioblastoma multiforme(486;0.0278)		CTTAAAGTTCCGTACAGATAA	0.308													16	96					0	0	0.006122	0	0		T	47700504	T	T	47700504	3	4	209	1	0	0	0	0	1	0	0	0	13830	652	23	1	774	1	SAE1	19	47700504	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	522703	47700504	11428479	1126	101541											
SAE1	10055	broad.mit.edu	37	chr19	47712468	47712468	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttcttcttcttcgatggcaTgaaggggaatgggattgtgg	7	14	14	6	1	3	1	0	1	3	0	4	4	3	3	0	5	0	1	0	5	2	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:47712468T>C	uc002pgc.2	+	9	1057	c.1001T>C	c.(1000-1002)ATG>ACG	p.M334T	SAE1_uc002pgd.2_3'UTR|SAE1_uc010ekx.2_Silent_p.H262H|SAE1_uc010ekw.2_RNA|SAE1_uc010xyk.1_Missense_Mutation_p.M160T|SAE1_uc002pge.2_Missense_Mutation_p.M270T	NM_016402	NP_057486	Q9UBE0	SAE1_HUMAN	SubName: Full=SUMO-1 activating enzyme subunit 1, isoform CRA_b; SubName: Full=cDNA, FLJ96708, Homo sapiens SUMO-1 activating enzyme subunit 1 (SAE1), mRNA;	334					protein sumoylation|protein ubiquitination	nucleus	ATP-dependent protein binding|enzyme activator activity|ligase activity|protein C-terminus binding|protein heterodimerization activity|ubiquitin activating enzyme activity			ovary(1)	1		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.00013)|OV - Ovarian serous cystadenocarcinoma(262;0.000146)|Epithelial(262;0.00697)|GBM - Glioblastoma multiforme(486;0.0278)		TTCGATGGCATGAAGGGGAAT	0.522													10	102					0	0	0.010729	0	0		C	47712468	C	C	47712468	3	2	209	1	0	0	0	0	1	0	0	0	13830	1464	51	3	1035	3	SAE1	19	47712468	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	11964	47712468	11416515	1127	101542											
GPR77	27202	broad.mit.edu	37	chr19	47844468	47844468	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctctgcttcctggctctcGggcctgcctggtggtctacg	2	12	12	15	2	3	0	0	0	3	0	5	0	4	0	4	4	3	2	4	4	1	2	rs147418161		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:47844468G>A	uc010ela.1	+	2	630	c.412G>A	c.(412-414)GGG>AGG	p.G138R	GPR77_uc002pgk.1_Missense_Mutation_p.G138R	NM_018485	NP_060955	Q9P296	C5ARL_HUMAN	G protein-coupled receptor 77	138	Cytoplasmic (Potential).				chemotaxis	integral to membrane|plasma membrane	C5a anaphylatoxin receptor activity			ovary(1)	1		all_cancers(25;1.72e-06)|all_lung(116;2.15e-05)|all_epithelial(76;3.44e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.0652)|Ovarian(192;0.086)		all cancers(93;0.000129)|OV - Ovarian serous cystadenocarcinoma(262;0.000415)|Epithelial(262;0.0109)|GBM - Glioblastoma multiforme(486;0.0138)		CCTGGCTCTCGGGCCTGCCTG	0.677													11	155					0	0	0.008291	0	0		A	47844468	A	A	47844468	3	1	209	1	0	0	0	0	1	0	0	0	6724	1116	39	1	414	1	GPR77	19	47844468	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	132000	47844468	11284515	1128	101543											
DHX34	9704	broad.mit.edu	37	chr19	47858495	47858495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgcctgttgcccacgcGgcctgacctcaaggtcatcc	6	7	10	18	3	2	1	2	1	0	0	3	1	3	1	6	2	2	1	6	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:47858495G>A	uc010xyn.1	+	3	1246	c.905G>A	c.(904-906)CGG>CAG	p.R302Q	DHX34_uc010elc.1_Missense_Mutation_p.R302Q	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34	302	Helicase ATP-binding.					intracellular	ATP binding|ATP-dependent helicase activity|RNA binding|zinc ion binding			ovary(4)|upper_aerodigestive_tract(1)	5		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;7.16e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000489)|GBM - Glioblastoma multiforme(486;0.00413)|Epithelial(262;0.0132)		TTGCCCACGCGGCCTGACCTC	0.587													32	128					0	0	0.008361	0	0		A	47858495	A	A	47858495	3	1	209	1	0	0	0	0	1	0	0	0	4513	1116	39	1	911	1	DHX34	19	47858495	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	14027	47858495	11270488	1129	101544											
GRIN2D	2906	broad.mit.edu	37	chr19	48918247	48918247	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggtcaccaatggcaagcaCggaaagaagatcgatggcgt	13	6	13	9	3	1	2	1	0	0	2	2	4	1	3	1	4	1	2	1	4	4	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:48918247C>T	uc002pjc.3	+	6	1627	c.1539C>T	c.(1537-1539)CAC>CAT	p.H513H		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	513	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		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)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	ATGGCAAGCACGGAAAGAAGA	0.607													25	60					0	0	0.00333	0	0		T	48918247	T	T	48918247	2	4	209	1	0	0	0	0	0	0	0	1	6798	535	19	1		1	GRIN2D	19	48918247	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1059752	48918247	10210736	1130	101545											
RPL13A	23521	broad.mit.edu	37	chr19	49994304	49994304	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttctctaacagaaaaagcGgatggtggttcctgctgccc	9	11	10	11	1	1	1	0	0	1	1	3	2	2	2	2	3	4	2	2	3	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:49994304G>A	uc002pny.2	+	6	372	c.350G>A	c.(349-351)CGG>CAG	p.R117Q	RPL13A_uc002pnz.2_Missense_Mutation_p.R56Q|RPL13A_uc002poa.2_Missense_Mutation_p.R107Q|SNORD35A_uc010enb.1_5'Flank	NM_012423	NP_036555	P40429	RL13A_HUMAN	ribosomal protein L13a	117					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome				0		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00154)|GBM - Glioblastoma multiforme(486;0.0246)		CAGAAAAAGCGGATGGTGGTT	0.562													4	69					0	0	0.009096	0	0		A	49994304	A	A	49994304	3	1	209	1	0	0	0	0	1	0	0	0	13585	1116	39	1	372	1	RPL13A	19	49994304	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1076057	49994304	9134679	1131	101546											
CPT1C	126129	broad.mit.edu	37	chr19	50208537	50208537	+	Missense_Mutation	SNP	A	G	G	1	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	agatcttcaacaccacgcggAttccaggggtccaaaaaggt	13	7	10	11	2	2	1	1	0	1	1	4	2	4	2	3	4	1	0	3	4	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:50208537A>G	uc002ppj.2	+	9	1151	c.946A>G	c.(946-948)ATT>GTT	p.I316V	CPT1C_uc002ppl.3_Missense_Mutation_p.I282V|CPT1C_uc002ppi.2_Missense_Mutation_p.I233V|CPT1C_uc002ppk.2_Missense_Mutation_p.I305V|CPT1C_uc010eng.2_Missense_Mutation_p.I316V|CPT1C_uc010enh.2_Missense_Mutation_p.I316V|CPT1C_uc010ybc.1_Missense_Mutation_p.I187V|CPT1C_uc010eni.1_5'Flank	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	316	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		CACCACGCGGATTCCAGGGGT	0.428													10	117					0	0	0.013537	0	0		G	50208537	G	G	50208537	3	3	209	1	0	0	0	0	1	0	0	0	3836	333	12	3	976	3	CPT1C	19	50208537	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	214233	50208537	8920446	1132	101547											
CPT1C	126129	broad.mit.edu	37	chr19	50210827	50210827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctaacgggaagctgggcCtcagcgtggagcactcctgg	7	8	14	12	2	2	0	1	0	1	0	4	2	3	2	2	4	4	2	2	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:50210827C>A	uc002ppj.2	+	12	1601	c.1396C>A	c.(1396-1398)CTC>ATC	p.L466I	CPT1C_uc002ppl.3_Missense_Mutation_p.L432I|CPT1C_uc002ppi.2_Missense_Mutation_p.L383I|CPT1C_uc002ppk.2_Missense_Mutation_p.L455I|CPT1C_uc010eng.2_Missense_Mutation_p.L466I|CPT1C_uc010enh.2_Missense_Mutation_p.L466I|CPT1C_uc010ybc.1_Missense_Mutation_p.L337I|CPT1C_uc010eni.1_Missense_Mutation_p.L123I	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	466	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		GAAGCTGGGCCTCAGCGTGGA	0.622													5	56					0.00116845	0.00121268	0.001168	1	0		A	50210827	A	A	50210827	3	1	209	1	0	0	0	0	1	0	0	0	3836	681	24	5	1438	5	CPT1C	19	50210827	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2290	50210827	8918156	1133	101548											
ZNF473	25888	broad.mit.edu	37	chr19	50549303	50549303	+	Missense_Mutation	SNP	A	T	T	1	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	caaccctgaagtgccacgagAgtgttcacgccagagaaaaa	15	5	10	11	2	1	3	1	1	0	2	1	5	1	3	3	0	2	1	3	0	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:50549303A>T	uc002prn.2	+	5	1840	c.1603A>T	c.(1603-1605)AGT>TGT	p.S535C	ZNF473_uc002prm.2_Missense_Mutation_p.S535C|ZNF473_uc010ybo.1_Missense_Mutation_p.S523C	NM_001006656	NP_001006657	Q8WTR7	ZN473_HUMAN	zinc finger protein 473	535	C2H2-type 10.|Interaction with SLBP/pre-mRNA complex.				histone mRNA 3'-end processing|regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription	Cajal body	DNA binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0728)		GBM - Glioblastoma multiforme(134;0.00111)|OV - Ovarian serous cystadenocarcinoma(262;0.0058)		GTGCCACGAGAGTGTTCACGC	0.453													7	81					0	0	0.004482	0	0		T	50549303	T	T	50549303	3	4	209	1	0	0	0	0	1	0	0	0	17956	304	11	5	1617	5	ZNF473	19	50549303	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	338476	50549303	8579680	1134	101549											
MYH14	79784	broad.mit.edu	37	chr19	50720966	50720966	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtaccggggcaagaagcGccacgaggtgccaccccacg	10	3	14	14	4	0	1	0	0	0	1	0	3	0	1	5	3	3	2	5	3	3	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:50720966G>A	uc002prr.1	+	3	547	c.500G>A	c.(499-501)CGC>CAC	p.R167H	MYH14_uc010enu.1_Missense_Mutation_p.R167H|MYH14_uc002prq.1_Missense_Mutation_p.R167H	NM_024729	NP_079005	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 2	167	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GGCAAGAAGCGCCACGAGGTG	0.617													12	104					0	0	0.010729	0	0		A	50720966	A	A	50720966	3	1	209	1	0	0	0	0	1	0	0	0	10051	1087	38	1	506	1	MYH14	19	50720966	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	171663	50720966	8408017	1135	101550											
SHANK1	50944	broad.mit.edu	37	chr19	51169816	51169816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggggtcctgaacaagcacGcagggccagcagcccatcgg	9	3	16	13	2	0	1	0	1	0	0	2	1	1	1	3	5	4	3	3	5	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:51169816G>A	uc002psx.1	-	22	5420	c.5401C>T	c.(5401-5403)CGT>TGT	p.R1801C	SHANK1_uc002psw.1_Missense_Mutation_p.R1185C	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1801					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		GAACAAGCACGCAGGGCCAGC	0.721													4	9					0	0	0.009096	0	0		A	51169816	A	A	51169816	3	1	209	1	0	0	0	0	1	0	0	0	14289	1087	38	1	1092	1	SHANK1	19	51169816	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	448850	51169816	7959167	1136	101551											
GPR32	2854	broad.mit.edu	37	chr19	51274069	51274069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtggatgactgtcttccGtatggcacgcacggtctcca	6	11	12	12	3	2	1	0	1	2	0	4	2	3	2	2	3	0	4	2	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:51274069G>A	uc010ycf.1	+	1	212	c.212G>A	c.(211-213)CGT>CAT	p.R71H		NM_001506	NP_001497	O75388	GPR32_HUMAN	G protein-coupled receptor 32	71	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		ACTGTCTTCCGTATGGCACGC	0.577													13	58					0	0	0.013537	0	0		A	51274069	A	A	51274069	3	1	209	1	0	0	0	0	1	0	0	0	6703	1145	40	1	214	1	GPR32	19	51274069	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	104253	51274069	7854914	1137	101552											
SIGLEC8	27181	broad.mit.edu	37	chr19	51961534	51961534	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacacaggccctcctgcacCgtcaccagctcctgcacttg	8	7	7	19	1	1	0	1	0	0	0	3	0	3	0	5	1	3	3	5	1	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:51961534C>T	uc002pwt.2	-	1	175	c.108G>A	c.(106-108)ACG>ACA	p.T36T	SIGLEC8_uc010yda.1_Silent_p.T36T|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Silent_p.T36T	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	36	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CCTCCTGCACCGTCACCAGCT	0.522													26	111					0	0	0.00632	0	0		T	51961534	T	T	51961534	2	4	209	1	0	0	0	0	0	0	0	1	14339	639	23	1		1	SIGLEC8	19	51961534	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	687465	51961534	7167449	1138	101553											
SIGLEC12	89858	broad.mit.edu	37	chr19	52003521	52003521	+	Missense_Mutation	SNP	T	G	G	0	1	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	cagtcaccgactctggcaccTccagcctgtatcttgacagt	8	10	8	15	1	3	1	1	1	2	0	4	2	4	1	4	1	1	2	4	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:52003521T>G	uc002pwx.1	-	2	517	c.461A>C	c.(460-462)GAG>GCG	p.E154A	SIGLEC12_uc002pww.1_Missense_Mutation_p.E36A|SIGLEC12_uc010eoy.1_Intron	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	154	Ig-like V-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CTCTGGCACCTCCAGCCTGTA	0.577													19	100					0	0	0.014323	0	0		G	52003521	G	G	52003521	3	3	209	1	0	0	0	0	1	0	0	0	14333	1551	54	5	1354	5	SIGLEC12	19	52003521	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	41987	52003521	7125462	1139	101554											
ZNF468	90333	broad.mit.edu	37	chr19	53344433	53344433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtatgaagtctatgatggcGtgcaagggttgatagtcgat	11	12	14	4	2	1	3	0	3	1	0	2	4	1	3	0	2	1	3	0	2	5	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:53344433G>A	uc002qaf.2	-	4	1265	c.1114C>T	c.(1114-1116)CGC>TGC	p.R372C	ZNF468_uc002qae.2_Missense_Mutation_p.R319C	NM_001008801	NP_001008801	Q5VIY5	ZN468_HUMAN	zinc finger protein ZNF468 isoform 2	372	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.0358)		CTATGATGGCGTGCAAGGGTT	0.378													24	104					0	0	0.00333	0	0		A	53344433	A	A	53344433	3	1	209	1	0	0	0	0	1	0	0	0	17953	1145	40	1	458	1	ZNF468	19	53344433	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1340912	53344433	5784550	1140	101555											
ZNF761	388561	broad.mit.edu	37	chr19	53957990	53957990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcagggacattgcaaataCatgaaagtcatcacaatgga	17	8	9	7	0	2	1	2	1	0	0	2	3	2	3	0	2	3	2	0	2	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:53957990C>T	uc010eqp.2	+	7	687	c.229C>T	c.(229-231)CAT>TAT	p.H77Y	ZNF761_uc010ydy.1_Missense_Mutation_p.H23Y|ZNF761_uc002qbt.1_Missense_Mutation_p.H23Y	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	77	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		ATTGCAAATACATGAAAGTCA	0.378													16	63					0	0	0.003163	0	0		T	53957990	T	T	53957990	3	4	209	1	0	0	0	0	1	0	0	0	18161	478	17	4	240	4	ZNF761	19	53957990	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	613557	53957990	5170993	1141	101556											
CACNG8	59283	broad.mit.edu	37	chr19	54481413	54481413	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cctccagggttgaaaagaggCgtctgcgtgaagatcaatca	12	8	12	9	2	3	4	2	2	1	2	4	4	4	4	2	2	1	1	2	2	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:54481413C>T	uc002qcs.1	+	2	400	c.294C>T	c.(292-294)GGC>GGT	p.G98G		NM_031895	NP_114101	Q8WXS5	CCG8_HUMAN	voltage-dependent calcium channel gamma-8	99					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|endocytic vesicle membrane|postsynaptic density|postsynaptic membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(19;0.0385)|all_epithelial(19;0.0207)|all_lung(19;0.145)|Lung NSC(19;0.168)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.162)		TGAAAAGAGGCGTCTGCGTGA	0.632													4	32					0	0	0.009096	0	0		T	54481413	T	T	54481413	2	4	209	1	0	0	0	0	0	0	0	1	2566	755	27	1		1	CACNG8	19	54481413	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	523423	54481413	4647570	1142	101557											
CNOT3	4849	broad.mit.edu	37	chr19	54653309	54653309	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctccaggaaggaacccagtgCggcagccccaacgggggctg	9	3	15	14	2	0	0	0	0	0	0	1	2	1	2	4	5	4	2	4	5	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:54653309C>T	uc002qdj.1	+	13	1732	c.1421C>T	c.(1420-1422)GCG>GTG	p.A474V	CNOT3_uc010yel.1_Missense_Mutation_p.A474V|CNOT3_uc002qdi.2_Missense_Mutation_p.A387V|CNOT3_uc002qdk.1_Missense_Mutation_p.A474V|CNOT3_uc010ere.1_RNA|CNOT3_uc002qdl.2_5'UTR	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	474	Pro-rich.				nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GAACCCAGTGCGGCAGCCCCA	0.672													9	15					0	0	0.008291	0	0		T	54653309	T	T	54653309	3	4	209	1	0	0	0	0	1	0	0	0	3623	768	27	1	1467	1	CNOT3	19	54653309	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	171896	54653309	4475674	1143	101558											
C19orf51	352909	broad.mit.edu	37	chr19	55672519	55672519	+	Frame_Shift_Del	DEL	C	-	-																															gaagggccccgtggcgatgtCcccccagtacccgcgcgctg																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:55672519delC	uc002qji.1	-	8	860	c.826delG	c.(826-828)GACfs	p.D276fs	C19orf51_uc002qjh.1_Frame_Shift_Del_p.D91fs|C19orf51_uc002qjj.1_Frame_Shift_Del_p.D323fs|C19orf51_uc002qjk.1_Frame_Shift_Del_p.D222fs|C19orf51_uc002qjl.1_Frame_Shift_Del_p.D344fs			Q8N9W5	CS051_HUMAN	RecName: Full=UPF0470 protein C19orf51;	276											0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GTGGCGATGTCCCCCCAGTAC	0.657													4	3	---	---	---	---						.	-	55672519	-	-	55672519	7	5	209	1	0	1	0	1	0	0	0	0	1936	855	30	0	819	0	C19orf51	19	55672519	Frame_Shift_Del	DEL	C	TCGA-HU-A4GN-01A-11D-A25D-08	1019210	55672519	3456464	1144	101559											
ZNF628	89887	broad.mit.edu	37	chr19	55995311	55995311	+	Silent	SNP	T	C	C	0	1	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	gatggcgaggccagcactggTgtggtccaggatgtcctctt	6	10	15	10	1	1	0	0	0	1	0	3	3	3	1	3	5	1	1	3	5	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:55995311T>C	uc002qld.2	+	3	3304	c.2739T>C	c.(2737-2739)GGT>GGC	p.G913G	NAT14_uc002qle.1_5'Flank	NM_033113	NP_149104	Q5EBL2	ZN628_HUMAN	zinc finger protein 628	913						nucleus	DNA binding|zinc ion binding				0	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)		CCAGCACTGGTGTGGTCCAGG	0.667													5	10					0	0	0.000602	0	0		C	55995311	C	C	55995311	2	2	209	1	0	0	0	0	0	0	0	1	18077	1683	59	3		3	ZNF628	19	55995311	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	322792	55995311	3133672	1145	101560											
NLRP4	147945	broad.mit.edu	37	chr19	56370010	56370010	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acatttgagttttgtgaagaCgacctccggagaaatggggt	11	11	13	6	2	0	4	0	2	0	2	1	6	1	4	2	3	0	1	2	3	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:56370010C>T	uc002qmd.3	+	3	1673	c.1251C>T	c.(1249-1251)GAC>GAT	p.D417D	NLRP4_uc002qmf.2_Silent_p.D342D|NLRP4_uc010etf.2_Silent_p.D248D	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	417	NACHT.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		TTTGTGAAGACGACCTCCGGA	0.587													21	111					0	0	0.010504	0	0		T	56370010	T	T	56370010	2	4	209	1	0	0	0	0	0	0	0	1	10498	535	19	1		1	NLRP4	19	56370010	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	374699	56370010	2758973	1146	101561											
ZNF71	58491	broad.mit.edu	37	chr19	57133306	57133306	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagaagccgtatgtgtgcgaCgtgtgtggcaaggccttccg	7	9	16	9	4	0	1	0	0	0	1	1	3	1	1	3	2	2	2	3	2	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:57133306C>T	uc002qnm.3	+	3	889	c.651C>T	c.(649-651)GAC>GAT	p.D217D		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	217	C2H2-type 4.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		ATGTGTGCGACGTGTGTGGCA	0.657													11	48					0	0	0.008291	0	0		T	57133306	T	T	57133306	2	4	209	1	0	0	0	0	0	0	0	1	18139	535	19	1		1	ZNF71	19	57133306	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	763296	57133306	1995677	1147	101562											
ZNF324B	388569	broad.mit.edu	37	chr19	58967762	58967762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagaagcccttcgtgtgcaCgcagtgtggccgcgccttcc	5	8	13	15	5	0	1	0	0	0	1	2	2	1	1	4	1	2	2	4	1	1	2	rs143809080		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:58967762C>T	uc002qsv.1	+	4	1558	c.1451C>T	c.(1450-1452)ACG>ATG	p.T484M	ZNF324B_uc002qsu.1_Missense_Mutation_p.T474M|ZNF324B_uc010euq.1_Missense_Mutation_p.T484M	NM_207395	NP_997278	Q6AW86	Z324B_HUMAN	zinc finger protein 324B	484	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		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)		TTCGTGTGCACGCAGTGTGGC	0.672													26	83					0	0	0.00333	0	0		T	58967762	T	T	58967762	3	4	209	1	0	0	0	0	1	0	0	0	17870	536	19	1	1461	1	ZNF324B	19	58967762	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1834456	58967762	161221	1148	101563											
ZNF324	25799	broad.mit.edu	37	chr19	58983109	58983109	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgctctttaagcaccagcGcgtgcacacaggcgagaagc	10	6	11	14	4	1	1	0	0	1	1	2	2	1	1	1	1	4	3	1	1	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr19:58983109G>A	uc002qsw.1	+	4	1344	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H	ZNF324_uc002qsx.1_Missense_Mutation_p.R194H	NM_014347	NP_055162	O75467	Z324A_HUMAN	zinc finger protein 324	417	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		AAGCACCAGCGCGTGCACACA	0.662													19	59					0	0	0.006122	0	0		A	58983109	A	A	58983109	3	1	209	1	0	0	0	0	1	0	0	0	17869	1087	38	1	1260	1	ZNF324	19	58983109	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	15347	58983109	145874	1149	101564											
TGM3	7053	broad.mit.edu	37	chr20	2315907	2315907	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatcctggacaaccccacCttgaccctggaggtaatggg	10	8	10	13	0	1	1	1	1	0	0	2	3	2	3	5	4	1	1	5	4	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:2315907C>A	uc002wfx.3	+	11	1885	c.1788C>A	c.(1786-1788)ACC>ACA	p.T596T		NM_003245	NP_003236	Q08188	TGM3_HUMAN	transglutaminase 3 precursor	596					cell envelope organization|hair follicle morphogenesis|keratinization|peptide cross-linking|protein tetramerization	cytoplasm|extrinsic to internal side of plasma membrane	acyltransferase activity|calcium ion binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding|protein-glutamine gamma-glutamyltransferase activity			large_intestine(4)|ovary(3)|breast(1)|skin(1)	9					L-Glutamine(DB00130)	ACAACCCCACCTTGACCCTGG	0.617													10	78					9.70103e-10	1.06947e-09	0.008291	1	0		A	2315907	A	A	2315907	2	1	209	1	0	0	0	0	0	0	0	1	15856	668	24	5		5	TGM3	20	2315907	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		2315907	60709613	1150	101565											
TGM6	343641	broad.mit.edu	37	chr20	2384451	2384451	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgcgtggacatcactgacCtctacaagtatccggaaggt	10	8	10	13	3	2	1	1	1	1	0	3	3	3	3	3	3	1	1	3	3	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:2384451C>A	uc002wfy.1	+	9	1379	c.1318C>A	c.(1318-1320)CTC>ATC	p.L440I	TGM6_uc010gal.1_Missense_Mutation_p.L440I	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	440					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	CATCACTGACCTCTACAAGTA	0.592													7	97					2.0095e-06	2.16281e-06	0.001984	1	0		A	2384451	A	A	2384451	3	1	209	1	0	0	0	0	1	0	0	0	15859	681	24	5	1352	5	TGM6	20	2384451	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	68544	2384451	60641069	1151	101566											
TMX4	56255	broad.mit.edu	37	chr20	7980488	7980488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgggccacgataacggcGgaatatcccatcctttgcac	9	9	9	14	3	0	0	0	0	0	0	3	2	3	1	4	3	2	1	4	3	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:7980488G>A	uc002wmx.1	-	4	491	c.358C>T	c.(358-360)CGC>TGC	p.R120C		NM_021156	NP_066979	Q9H1E5	TMX4_HUMAN	thioredoxin-related transmembrane protein 4	120	Thioredoxin.				cell redox homeostasis|electron transport chain|transport	integral to membrane					0						CGATAACGGCGGAATATCCCA	0.393													4	44					0	0	0.009096	0	0		A	7980488	A	A	7980488	3	1	209	1	0	0	0	0	1	0	0	0	16294	1116	39	1	711	1	TMX4	20	7980488	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5596037	7980488	55045032	1152	101567											
ESF1	51575	broad.mit.edu	37	chr20	13763492	13763492	+	Frame_Shift_Del	DEL	T	-	-																															gatttcttttttagtctgggTttttttcttctttattttct																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:13763492delT	uc002woj.2	-	2	403	c.295delA	c.(295-297)ACCfs	p.T99fs	ESF1_uc002wok.1_Frame_Shift_Del_p.T99fs|C20orf7_uc002wol.1_5'Flank|C20orf7_uc002wom.2_5'Flank|C20orf7_uc002won.2_5'Flank|C20orf7_uc002woo.2_5'Flank	NM_016649	NP_057733	Q9H501	ESF1_HUMAN	ABT1-associated protein	99	Lys-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus|nucleoplasm				ovary(1)	1						TTAGTCTGGGTTTTTTTCTTC	0.323													13	19	---	---	---	---						.	-	13763492	-	-	13763492	7	5	209	1	0	1	0	1	0	0	0	0	5259	1725	60	0	2312	0	ESF1	20	13763492	Frame_Shift_Del	DEL	T	TCGA-HU-A4GN-01A-11D-A25D-08	5783004	13763492	49262028	1153	101568											
FLRT3	23767	broad.mit.edu	37	chr20	14307986	14307986	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagttgtagcatcctctggtAttcctgttggaatggatgtc	7	15	12	7	0	1	0	0	0	1	0	4	3	3	2	2	3	1	5	2	3	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:14307986A>G	uc002wov.1	-	3	634	c.167T>C	c.(166-168)ATA>ACA	p.I56T	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Missense_Mutation_p.I56T	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	56	Extracellular (Potential).|LRRNT.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		ATCCTCTGGTATTCCTGTTGG	0.403													23	102					0	0	0.00278	0	0		G	14307986	G	G	14307986	3	3	209	1	0	0	0	0	1	0	0	0	5954	449	16	3	1786	3	FLRT3	20	14307986	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	544494	14307986	48717534	1154	101569											
RRBP1	6238	broad.mit.edu	37	chr20	17602500	17602500	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccaccctcccctcctacCtgttgtgccaagacagagag	10	7	8	16	0	0	2	0	0	0	2	2	4	2	2	7	0	3	1	7	0	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:17602500C>A	uc002wpv.1	-	15	2295	c.1941G>T	c.(1939-1941)CAG>CAT	p.Q647H	RRBP1_uc010zrp.1_5'Flank|RRBP1_uc002wpt.1_Missense_Mutation_p.Q17H|RRBP1_uc002wpu.2_Missense_Mutation_p.Q421H|RRBP1_uc002wpw.1_Missense_Mutation_p.Q647H|RRBP1_uc010gcl.1_Missense_Mutation_p.Q421H|RRBP1_uc010gcm.1_Missense_Mutation_p.Q100H	NM_001042576	NP_001036041	Q9P2E9	RRBP1_HUMAN	ribosome binding protein 1	1080	Cytoplasmic (Potential).				protein transport|translation|transmembrane transport	integral to endoplasmic reticulum membrane|ribosome	receptor activity			ovary(1)	1						CCCCTCCTACCTGTTGTGCCA	0.592													7	129					0.00448238	0.00461254	0.004482	1	0		A	17602500	A	A	17602500	3	1	209	1	0	0	0	0	1	0	0	0	13703	695	24	5	1040	5	RRBP1	20	17602500	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3294514	17602500	45423020	1155	101570											
RALGAPA2	57186	broad.mit.edu	37	chr20	20453516	20453516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcacttcacagccctgctggCgttgatgcacgtggcacata	8	9	11	13	2	1	1	1	1	0	0	1	1	1	1	1	2	3	5	1	2	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:20453516C>T	uc002wrz.2	-	37	5595	c.5452G>A	c.(5452-5454)GCC>ACC	p.A1818T	RALGAPA2_uc010gcx.2_Missense_Mutation_p.A1522T|RALGAPA2_uc010zsg.1_Missense_Mutation_p.A1266T|RALGAPA2_uc002wsa.1_Missense_Mutation_p.A590T	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1818	Rap-GAP.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						GCCCTGCTGGCGTTGATGCAC	0.468													5	45					0	0	0.001168	0	0		T	20453516	T	T	20453516	3	4	209	1	0	0	0	0	1	0	0	0	13039	768	27	1	181	1	RALGAPA2	20	20453516	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2851016	20453516	42572004	1156	101571											
SSTR4	6754	broad.mit.edu	37	chr20	23016874	23016874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctggctggcagcagcgcaggCgctcggagaagaaaatcacc	11	4	14	12	3	1	2	1	0	0	2	2	3	1	2	1	4	2	5	1	4	3	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:23016874C>T	uc002wsr.2	+	1	818	c.754C>T	c.(754-756)CGC>TGC	p.R252C		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	252	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GCAGCGCAGGCGCTCGGAGAA	0.632													13	63					0	0	0.013537	0	0		T	23016874	T	T	23016874	3	4	209	1	0	0	0	0	1	0	0	0	15225	768	27	1	756	1	SSTR4	20	23016874	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2563358	23016874	40008646	1157	101572											
PYGB	5834	broad.mit.edu	37	chr20	25261746	25261746	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggagatcgtgaaacagtcGgtgtgagtggggcgcttgcc	7	9	17	8	4	0	3	0	2	0	1	3	4	0	3	1	4	2	1	1	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:25261746G>T	uc002wup.2	+	11	1510	c.1401G>T	c.(1399-1401)TCG>TCT	p.S467S		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	467					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TGAAACAGTCGGTGTGAGTGG	0.592													23	86					2.27731e-05	2.41881e-05	0.012319	1	0		T	25261746	T	T	25261746	2	4	209	1	0	0	0	0	0	0	0	1	12885	1103	39	5		5	PYGB	20	25261746	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2244872	25261746	37763774	1158	101573											
PYGB	5834	broad.mit.edu	37	chr20	25277133	25277133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctccgacctgcagatccCgccccccaacatcccccggg	6	4	8	23	3	0	1	0	0	0	1	3	2	3	1	9	1	2	1	9	1	1	0	rs116595887	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:25277133C>T	uc002wup.2	+	20	2616	c.2507C>T	c.(2506-2508)CCG>CTG	p.P836L	ABHD12_uc002wuq.2_Intron|ABHD12_uc002wur.2_Intron	NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	836				IPPPNIPRD -> LQHLPHPEWESGGATCWAPPELCTHLAM Y (in Ref. 1; AAA59597).	glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	CTGCAGATCCCGCCCCCCAAC	0.602													37	60					0	0	0.00623	0	0		T	25277133	T	T	25277133	3	4	209	1	0	0	0	0	1	0	0	0	12885	652	23	1	2585	1	PYGB	20	25277133	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	15387	25277133	37748387	1159	101574											
NINL	22981	broad.mit.edu	37	chr20	25434182	25434182	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctttgtttctcggcgcctcGctgcttctcctcggtggcct	0	15	11	15	4	2	0	0	0	2	0	6	0	2	0	3	3	1	4	3	3	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:25434182G>A	uc002wux.1	-	24	4128	c.4054C>T	c.(4054-4056)CGA>TGA	p.R1352*	NINL_uc010gdn.1_Nonsense_Mutation_p.R1003*|NINL_uc002wuw.1_Nonsense_Mutation_p.R143*	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	1352	Potential.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						TCGGCGCCTCGCTGCTTCTCC	0.552													8	85					0	0	0.00308	0	0		A	25434182	A	A	25434182	4	1	209	1	0	0	0	0	0	1	0	0	10439	1095	38	1	98	1	NINL	20	25434182	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	157049	25434182	37591338	1160	101575											
C20orf112	140688	broad.mit.edu	37	chr20	31040126	31040126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggtaactgtagttgaggcCgccgttggcgtacacagggt	7	9	16	9	4	0	1	0	1	0	0	0	1	0	1	2	4	2	5	2	4	3	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:31040126C>T	uc002wxu.3	-	7	1160	c.1003G>A	c.(1003-1005)GGC>AGC	p.G335S	C20orf112_uc010gec.2_Missense_Mutation_p.G160S	NM_080616	NP_542183	Q96MY1	CT112_HUMAN	hypothetical protein LOC140688	335											0						TAGTTGAGGCCGCCGTTGGCG	0.632													18	112					0	0	0.007413	0	0		T	31040126	T	T	31040126	3	4	209	1	0	0	0	0	1	0	0	0	2084	652	23	1	315	1	C20orf112	20	31040126	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	5605944	31040126	31985394	1161	101576											
AHCY	191	broad.mit.edu	37	chr20	32883312	32883312	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttggaggccgagtaccgctcCcgcatacgcatcaggcccgg	7	6	13	15	5	1	0	1	0	0	0	2	2	2	1	4	4	2	4	4	4	2	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:32883312C>T	uc002xai.2	-	2	247	c.108G>A	c.(106-108)CGG>CGA	p.R36R	AHCY_uc002xaj.2_Silent_p.R8R|AHCY_uc010get.2_Silent_p.R36R	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	36					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						AGTACCGCTCCCGCATACGCA	0.662													4	29					0	0	0.000602	0	0		T	32883312	T	T	32883312	2	4	209	1	0	0	0	0	0	0	0	1	409	610	22	4		4	AHCY	20	32883312	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1843186	32883312	30142208	1162	101577											
DYNLRB1	83658	broad.mit.edu	37	chr20	33122488	33122488	+	Missense_Mutation	SNP	A	G	G	1	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	ccacccagtatgccagcctcAtgcacagcttcatcctgaag	10	8	7	16	0	2	1	2	1	0	0	3	1	3	1	5	0	4	3	5	0	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:33122488A>G	uc002xal.2	+	3	196	c.136A>G	c.(136-138)ATG>GTG	p.M46V	DYNLRB1_uc010zuk.1_Missense_Mutation_p.M46V|DYNLRB1_uc002xam.2_RNA|DYNLRB1_uc002xan.2_RNA	NM_014183	NP_054902	Q9NP97	DLRB1_HUMAN	Roadblock-1	46					microtubule-based movement|transport|visual behavior	centrosome|cytoplasmic dynein complex|microtubule	microtubule motor activity				0						TGCCAGCCTCATGCACAGCTT	0.547													17	84					0	0	0.006122	0	0		G	33122488	G	G	33122488	3	3	209	1	0	0	0	0	1	0	0	0	4856	217	8	3	146	3	DYNLRB1	20	33122488	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	239176	33122488	29903032	1163	101578											
NCOA6	23054	broad.mit.edu	37	chr20	33364108	33364108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaagaccttcaatctgaaCggagagaatccctaaatccc	16	8	6	11	1	2	3	1	1	1	2	4	5	4	4	3	1	1	0	3	1	7	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:33364108C>T	uc002xav.2	-	5	2950	c.379G>A	c.(379-381)GTT>ATT	p.V127I	NCOA6_uc002xaw.2_Missense_Mutation_p.V127I|NCOA6_uc010gew.1_Missense_Mutation_p.V127I	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	127	TBP/GTF2A-binding region.|NCOA1-binding region.|CREBBP-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						TCAATCTGAACGGAGAGAATC	0.488													18	62					0	0	0.008871	0	0		T	33364108	T	T	33364108	3	4	209	1	0	0	0	0	1	0	0	0	10252	536	19	1	5860	1	NCOA6	20	33364108	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	241620	33364108	29661412	1164	101579											
KIAA0406	9675	broad.mit.edu	37	chr20	36640099	36640099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaggatgcagagccagatgaCgcagatttaaagagatccca	15	6	12	8	1	0	5	0	1	0	4	1	8	1	6	2	1	2	2	2	1	2	2	rs141770247	byFrequency	TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:36640099C>T	uc002xhl.2	-	3	2329	c.2120G>A	c.(2119-2121)CGT>CAT	p.R707H	KIAA0406_uc002xhm.2_Missense_Mutation_p.R707H	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	707							binding				0		Myeloproliferative disorder(115;0.00874)				AGCCAGATGACGCAGATTTAA	0.483													7	52					0	0	0.001984	0	0		T	36640099	T	T	36640099	3	4	209	1	0	0	0	0	1	0	0	0	8189	536	19	1	1177	1	KIAA0406	20	36640099	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3275991	36640099	26385421	1165	101580											
ZNF335	63925	broad.mit.edu	37	chr20	44594330	44594330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccggccaggtctccttcgggGccttggggtactgggggtgg	2	9	19	11	2	1	0	0	0	1	0	3	0	1	0	4	9	1	1	4	9	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:44594330G>A	uc002xqw.2	-	7	1162	c.1039C>T	c.(1039-1041)CCC>TCC	p.P347S	ZNF335_uc010zxk.1_Missense_Mutation_p.P192S|ZNF335_uc002xqx.1_Missense_Mutation_p.P315S	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	347					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				CTCCTTCGGGGCCTTGGGGTA	0.662													17	66					0	0	0.007413	0	0		A	44594330	A	A	44594330	3	1	209	1	0	0	0	0	1	0	0	0	17877	1203	42	2	3077	2	ZNF335	20	44594330	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7954231	44594330	18431190	1166	101581											
MMP9	4318	broad.mit.edu	37	chr20	44639874	44639874	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actctgcctgcaccaccgacGgtcgctccgacggcttgccc	5	7	10	19	5	1	0	0	0	1	0	3	2	2	0	5	2	3	3	5	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:44639874G>A	uc002xqz.2	+	5	761	c.742G>A	c.(742-744)GGT>AGT	p.G248S		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	248	Fibronectin type-II 1.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CACCACCGACGGTCGCTCCGA	0.647													33	180					0	0	0.010818	0	0		A	44639874	A	A	44639874	3	1	209	1	0	0	0	0	1	0	0	0	9687	1116	39	1	760	1	MMP9	20	44639874	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	45544	44639874	18385646	1167	101582											
MMP9	4318	broad.mit.edu	37	chr20	44642136	44642136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaacatcttcgacgccatcGcggagattgggaaccagctg	10	8	12	11	4	1	2	0	1	1	1	3	5	1	3	2	2	3	1	2	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:44642136G>A	uc002xqz.2	+	9	1592	c.1573G>A	c.(1573-1575)GCG>ACG	p.A525T		NM_004994	NP_004985	P14780	MMP9_HUMAN	matrix metalloproteinase 9 preproprotein	525	Hemopexin-like 1.				collagen catabolic process|macrophage differentiation|positive regulation of keratinocyte migration|proteolysis	extracellular space|proteinaceous extracellular matrix	collagen binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)			Glucosamine(DB01296)|Marimastat(DB00786)|Minocycline(DB01017)|Simvastatin(DB00641)	CGACGCCATCGCGGAGATTGG	0.512											OREG0025990	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	27					0	0	0.001168	0	0		A	44642136	A	A	44642136	3	1	209	1	0	0	0	0	1	0	0	0	9687	1087	38	1	1607	1	MMP9	20	44642136	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2262	44642136	18383384	1168	101583											
EYA2	2139	broad.mit.edu	37	chr20	45725724	45725724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcctctctttcatcacagCgtgtgttcgtgtgggacttg	4	16	10	11	2	3	0	2	0	1	0	6	1	4	1	1	1	1	1	1	1	0	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:45725724C>T	uc002xsm.2	+	9	1179	c.805C>T	c.(805-807)CGT>TGT	p.R269C	EYA2_uc010ghp.2_Missense_Mutation_p.R269C|EYA2_uc002xsn.2_Missense_Mutation_p.R274C|EYA2_uc002xso.2_Missense_Mutation_p.R269C|EYA2_uc002xsp.2_Missense_Mutation_p.R269C|EYA2_uc002xsq.2_Missense_Mutation_p.R269C	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	269					DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				TTCATCACAGCGTGTGTTCGT	0.423													10	137					0	0	0.006214	0	0		T	45725724	T	T	45725724	3	4	209	1	0	0	0	0	1	0	0	0	5337	782	27	1	835	1	EYA2	20	45725724	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1083588	45725724	17299796	1169	101584											
ZMYND8	23613	broad.mit.edu	37	chr20	45853116	45853116	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcttggtctcatccaccgccTgctgcttctccaactccagc	5	12	6	18	1	3	0	1	0	3	0	7	0	5	0	5	1	4	2	5	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:45853116T>C	uc002xta.1	-	19	3304	c.3050A>G	c.(3049-3051)CAG>CGG	p.Q1017R	ZMYND8_uc010ghq.1_Missense_Mutation_p.Q648R|ZMYND8_uc010ghr.1_Missense_Mutation_p.Q919R|ZMYND8_uc002xst.1_Missense_Mutation_p.Q899R|ZMYND8_uc002xsu.1_Missense_Mutation_p.Q890R|ZMYND8_uc002xsv.1_Missense_Mutation_p.Q945R|ZMYND8_uc002xsw.1_Missense_Mutation_p.Q723R|ZMYND8_uc002xsx.1_Missense_Mutation_p.Q723R|ZMYND8_uc002xsy.1_Missense_Mutation_p.Q946R|ZMYND8_uc002xsz.1_Missense_Mutation_p.Q908R|ZMYND8_uc010zxy.1_Missense_Mutation_p.Q1044R|ZMYND8_uc002xtb.1_Missense_Mutation_p.Q991R|ZMYND8_uc002xss.2_Missense_Mutation_p.Q1017R|ZMYND8_uc010zxz.1_Missense_Mutation_p.Q885R|ZMYND8_uc002xtc.1_Missense_Mutation_p.Q991R|ZMYND8_uc002xtd.1_Missense_Mutation_p.Q966R|ZMYND8_uc002xte.1_Missense_Mutation_p.Q971R|ZMYND8_uc010zya.1_Missense_Mutation_p.Q1017R|ZMYND8_uc002xtf.1_Missense_Mutation_p.Q1037R|ZMYND8_uc002xsr.1_Missense_Mutation_p.Q116R	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	1017							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			ATCCACCGCCTGCTGCTTCTC	0.592													36	171					0	0	0.004289	0	0		C	45853116	C	C	45853116	3	2	209	1	0	0	0	0	1	0	0	0	17736	1580	55	3	614	3	ZMYND8	20	45853116	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	127392	45853116	17172404	1170	101585											
SLC9A8	23315	broad.mit.edu	37	chr20	48504378	48504378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgacccaggacctgcaccacGggcgcatccagatgaaaact	12	4	10	15	3	0	2	0	1	0	1	1	4	1	3	4	2	2	2	4	2	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:48504378G>A	uc002xuv.1	+	16	1861	c.1651G>A	c.(1651-1653)GGG>AGG	p.G551R	SLC9A8_uc010zym.1_Missense_Mutation_p.G251R|SLC9A8_uc010gid.2_Missense_Mutation_p.G175R	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	551						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			CCTGCACCACGGGCGCATCCA	0.632													31	76					0	0	0.012213	0	0		A	48504378	A	A	48504378	3	1	209	1	0	0	0	0	1	0	0	0	14745	1116	39	1	1713	1	SLC9A8	20	48504378	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2651262	48504378	14521142	1171	101586											
NFATC2	4773	broad.mit.edu	37	chr20	50051813	50051813	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttacaggtgtgcggatatgCttgttccgatattcagggat	8	15	12	6	2	1	0	1	0	0	0	2	3	2	2	1	3	3	2	1	3	3	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:50051813C>A	uc002xwd.2	-	8	2164	c.1944G>T	c.(1942-1944)AAG>AAT	p.K648N	NFATC2_uc002xwc.2_Missense_Mutation_p.K648N|NFATC2_uc010zyv.1_Missense_Mutation_p.K429N|NFATC2_uc010zyw.1_Missense_Mutation_p.K429N|NFATC2_uc010zyx.1_Missense_Mutation_p.K628N|NFATC2_uc010zyy.1_Missense_Mutation_p.K429N|NFATC2_uc010zyz.1_Missense_Mutation_p.K429N|NFATC2_uc002xwe.2_Missense_Mutation_p.K628N	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	648					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TGCGGATATGCTTGTTCCGAT	0.438													9	170					2.17888e-05	2.31595e-05	0.006214	1	0		A	50051813	A	A	50051813	3	1	209	1	0	0	0	0	1	0	0	0	10381	796	28	5	893	5	NFATC2	20	50051813	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1547435	50051813	12973707	1172	101587											
NFATC2	4773	broad.mit.edu	37	chr20	50090640	50090640	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatgtccgtctcgcctttccGcagctcaatgtcggcgtttc	5	13	9	14	5	2	0	1	0	1	0	7	0	4	0	3	1	1	3	3	1	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:50090640G>A	uc002xwd.2	-	5	1805	c.1585C>T	c.(1585-1587)CGG>TGG	p.R529W	NFATC2_uc002xwc.2_Missense_Mutation_p.R529W|NFATC2_uc010zyv.1_Missense_Mutation_p.R310W|NFATC2_uc010zyw.1_Missense_Mutation_p.R310W|NFATC2_uc010zyx.1_Missense_Mutation_p.R509W|NFATC2_uc010zyy.1_Missense_Mutation_p.R310W|NFATC2_uc010zyz.1_Missense_Mutation_p.R310W|NFATC2_uc002xwe.2_Missense_Mutation_p.R509W	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	529	RHD.				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					TCGCCTTTCCGCAGCTCAATG	0.522													17	88					0	0	0.010504	0	0		A	50090640	A	A	50090640	3	1	209	1	0	0	0	0	1	0	0	0	10381	1086	38	1	1264	1	NFATC2	20	50090640	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	38827	50090640	12934880	1173	101588											
ATP9A	10079	broad.mit.edu	37	chr20	50287727	50287727	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggagcgaaccacggtcccGgggattttcgagtcccttcg	6	9	13	13	5	0	0	0	0	0	0	4	4	2	2	3	4	2	0	3	4	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:50287727G>A	uc002xwg.1	-	12	1107	c.1107C>T	c.(1105-1107)CCC>CCT	p.P369P	ATP9A_uc010gih.1_Silent_p.P233P|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	369	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CCACGGTCCCGGGGATTTTCG	0.547													11	61					0	0	0.013537	0	0		A	50287727	A	A	50287727	2	1	209	1	0	0	0	0	0	0	0	1	1199	1103	39	1		1	ATP9A	20	50287727	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	197087	50287727	12737793	1174	101589											
BCAS1	8537	broad.mit.edu	37	chr20	52612451	52612451	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagagttttaaagaaactcaTgatggaattattattctctg	14	15	7	5	0	2	3	1	1	1	2	3	4	2	4	0	1	1	1	0	1	6	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:52612451T>C	uc002xws.2	-	5	1200	c.862A>G	c.(862-864)ATG>GTG	p.M288V	BCAS1_uc010zza.1_Missense_Mutation_p.M1V|BCAS1_uc010zzb.1_Missense_Mutation_p.M191V|BCAS1_uc010gim.2_Missense_Mutation_p.M191V|BCAS1_uc002xwt.2_Missense_Mutation_p.M288V|BCAS1_uc010gil.1_Missense_Mutation_p.M288V	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	288						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	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)			AAGAAACTCATGATGGAATTA	0.423													20	66					0	0	0.012319	0	0		C	52612451	C	C	52612451	3	2	209	1	0	0	0	0	1	0	0	0	1351	1464	51	3	924	3	BCAS1	20	52612451	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2324724	52612451	10413069	1175	101590											
C20orf43	51507	broad.mit.edu	37	chr20	55048423	55048423	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taagtcaggaaatattaagaCgaccaatagttgcctgtgaa	16	10	9	6	1	1	2	1	1	0	1	1	4	1	3	2	1	1	1	2	1	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:55048423C>T	uc002xxt.2	+	2	243	c.136C>T	c.(136-138)CGA>TGA	p.R46*	C20orf43_uc010zzf.1_Nonsense_Mutation_p.R76*|C20orf43_uc002xxu.2_Nonsense_Mutation_p.R46*|C20orf43_uc002xxv.2_Nonsense_Mutation_p.R46*	NM_016407	NP_057491	Q9BY42	CT043_HUMAN	hypothetical protein LOC51507	46										ovary(1)	1			Colorectal(105;0.202)			AATATTAAGACGACCAATAGT	0.318													10	68					0	0	0.008291	0	0		T	55048423	T	T	55048423	4	4	209	1	0	0	0	0	0	1	0	0	2115	528	19	1	142	1	C20orf43	20	55048423	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2435972	55048423	7977097	1176	101591											
GNAS	2778	broad.mit.edu	37	chr20	57415433	57415433	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgaccacgagcacgaggaggCagaccttgagctgtccctcc	9	6	12	14	2	0	3	0	2	0	1	2	6	2	4	4	2	2	3	4	2	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:57415433C>T	uc002xzt.2	+	1	639	c.272C>T	c.(271-273)GCA>GTA	p.A91V	GNASAS_uc002xzs.1_Intron|GNAS_uc002xzu.3_5'Flank|GNAS_uc010gjq.2_5'Flank	NM_016592	NP_057676	P63092	GNAS2_HUMAN	GNAS complex locus NESP55	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			CACGAGGAGGCAGACCTTGAG	0.627			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			28	94					0	0	0.00632	0	0		T	57415433	T	T	57415433	3	4	209	1	0	0	0	0	1	0	0	0	6525	710	25	2	274	2	GNAS	20	57415433	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2367010	57415433	5610087	1177	101592											
GNAS	2778	broad.mit.edu	37	chr20	57429608	57429608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gggcattcgcagccgatcccGactccggggcagcccctgcc	5	5	13	18	4	0	0	0	0	0	0	3	2	2	0	6	3	3	3	6	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:57429608G>A	uc002xzw.2	+	1	1573	c.1288G>A	c.(1288-1290)GAC>AAC	p.D430N	GNAS_uc002xzt.2_Intron|GNAS_uc002xzu.3_Intron|GNAS_uc010gjq.2_Intron|GNAS_uc002xzv.2_RNA	NM_080425	NP_536350	P63092	GNAS2_HUMAN	GNAS complex locus XLas	Error:Variant_position_missing_in_P63092_after_alignment					activation of adenylate cyclase activity|cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|intracellular transport|platelet activation|regulation of insulin secretion|sensory perception of smell|transmembrane transport|water transport	heterotrimeric G-protein complex|intrinsic to membrane|trans-Golgi network membrane	adenylate cyclase activity|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|identical protein binding|signal transducer activity			pituitary(201)|thyroid(35)|ovary(15)|adrenal_gland(9)|liver(7)|large_intestine(5)|parathyroid(5)|kidney(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|testis(1)|stomach(1)|small_intestine(1)|autonomic_ganglia(1)|pancreas(1)	292	all_lung(29;0.0104)		BRCA - Breast invasive adenocarcinoma(13;2.19e-08)|Colorectal(105;0.109)			AGCCGATCCCGACTCCGGGGC	0.746			Mis		pituitary adenoma		McCune-Albright syndrome; pseudohypoparathyroidism|type IA		3-Methylglutaconic_Aciduria_and_Myelodysplasia|McCune-Albright_syndrome|Mazabraud_syndrome	TSP Lung(22;0.16)			3	15					0	0	0.004672	0	0		A	57429608	A	A	57429608	3	1	209	1	0	0	0	0	1	0	0	0	6525	1058	37	1	2032	1	GNAS	20	57429608	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	14175	57429608	5595912	1178	101593											
TH1L	51497	broad.mit.edu	37	chr20	57566041	57566041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcctgccaggctctcgggGccatgctgtccaaaggagcc	6	6	15	14	1	1	0	0	0	1	0	3	1	2	1	5	5	3	2	5	5	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:57566041G>A	uc002yag.2	+	8	919	c.892G>A	c.(892-894)GCC>ACC	p.A298T	TH1L_uc002yaf.1_RNA|TH1L_uc002yah.2_Missense_Mutation_p.A298T	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein	298					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			GGCTCTCGGGGCCATGCTGTC	0.557													17	126					0	0	0.007413	0	0		A	57566041	A	A	57566041	3	1	209	1	0	0	0	0	1	0	0	0	15864	1203	42	2	922	2	TH1L	20	57566041	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	136433	57566041	5459479	1179	101594											
SYCP2	10388	broad.mit.edu	37	chr20	58457217	58457217	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtagctttttttctgaacttTttcctgaaaagagggttata	10	18	8	5	0	1	3	0	2	1	1	2	3	2	3	1	1	2	3	1	1	6	8			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:58457217T>C	uc002yaz.2	-	26	2672	c.2533A>G	c.(2533-2535)AAA>GAA	p.K845E		NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	845					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			TTCTGAACTTTTTcctgaaaa	0.139													6	30					0	0	0.001168	0	0		C	58457217	C	C	58457217	3	2	209	1	0	0	0	0	1	0	0	0	15457	1850	64	3	2135	3	SYCP2	20	58457217	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	891176	58457217	4568303	1180	101595											
CDH4	1002	broad.mit.edu	37	chr20	60485530	60485530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccgtggtcgcaaacctcaCggtgatggaccgagatcagc	10	6	13	12	4	2	2	2	1	0	1	3	5	2	3	3	3	2	1	3	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:60485530C>T	uc002ybn.1	+	9	1255	c.1241C>T	c.(1240-1242)ACG>ATG	p.T414M	CDH4_uc002ybp.1_Missense_Mutation_p.T340M	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	414	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GCAAACCTCACGGTGATGGAC	0.542													7	60					0	0	0.001984	0	0		T	60485530	T	T	60485530	3	4	209	1	0	0	0	0	1	0	0	0	3115	536	19	1	1275	1	CDH4	20	60485530	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2028313	60485530	2539990	1181	101596											
TAF4	6874	broad.mit.edu	37	chr20	60581702	60581702	+	Missense_Mutation	SNP	A	G	G	1	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	ggaccgagctactcagcaccAcggccgtgagcgcagtggtg	8	5	15	13	4	1	1	1	1	0	0	1	3	1	2	3	3	4	3	3	3	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:60581702A>G	uc002ybs.2	-	7	2087	c.2087T>C	c.(2086-2088)GTG>GCG	p.V696A		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	696					interspecies interaction between organisms|positive regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)		BRCA - Breast invasive adenocarcinoma(19;3.1e-07)			ACTCAGCACCACGGCCGTGAG	0.716													6	30					0	0	0.001984	0	0		G	60581702	G	G	60581702	3	3	209	1	0	0	0	0	1	0	0	0	15551	159	6	3	1206	3	TAF4	20	60581702	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	96172	60581702	2443818	1182	101597											
LSM14B	149986	broad.mit.edu	37	chr20	60704864	60704864	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctggttttccatccatcccaGtcggcaagagccccatggtg	7	10	10	14	1	0	1	0	0	0	1	4	1	3	1	5	3	1	2	5	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:60704864G>A	uc010gjy.1	+	4	657	c.451G>A	c.(451-453)GTC>ATC	p.V151I	LSM14B_uc010gjx.1_Missense_Mutation_p.V177I|LSM14B_uc002ybv.2_Missense_Mutation_p.V151I|LSM14B_uc010gjz.1_Missense_Mutation_p.V107I|LSM14B_uc010zzz.1_Missense_Mutation_p.V71I	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	151					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			ATCCATCCCAGTCGGCAAGAG	0.512													8	15					0	0	0.004482	0	0		A	60704864	A	A	60704864	3	1	209	1	0	0	0	0	1	0	0	0	9073	1029	36	4	465	4	LSM14B	20	60704864	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	123162	60704864	2320656	1183	101598											
C20orf135	140701	broad.mit.edu	37	chr20	62493610	62493610	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcctgcacttcccgcccgcGcacctggtggtctacggctg	3	8	12	18	5	1	0	0	0	1	0	2	0	2	0	4	3	2	3	4	3	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:62493610G>A	uc002ygx.1	+	1	1045	c.717G>A	c.(715-717)GCG>GCA	p.A239A	TPD52L2_uc002ygy.2_5'Flank|TPD52L2_uc002ygz.2_5'Flank|TPD52L2_uc002yha.2_5'Flank|TPD52L2_uc002yhb.2_5'Flank|TPD52L2_uc002yhc.2_5'Flank|TPD52L2_uc002yhd.2_5'Flank|TPD52L2_uc011abk.1_5'Flank|TPD52L2_uc011abl.1_5'Flank	NM_080622	NP_542189	Q9H3Z7	ABHGB_HUMAN	hypothetical protein LOC140701	239							hydrolase activity				0	all_cancers(38;1.77e-12)|all_epithelial(29;3.12e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)					TCCCGCCCGCGCACCTGGTGG	0.682													3	32					0	0	0.004672	0	0		A	62493610	A	A	62493610	2	1	209	1	0	0	0	0	0	0	0	1	2091	1074	38	1		1	C20orf135	20	62493610	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1788746	62493610	531910	1184	101599											
RGS19	10287	broad.mit.edu	37	chr20	62707974	62707974	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gactggacattgaagggggcCggtccgcctcctctggccct	5	8	14	14	2	1	1	0	1	1	0	3	3	3	2	5	5	0	0	5	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:62707974C>T	uc002yhy.2	-	3	323	c.56G>A	c.(55-57)CGG>CAG	p.R19Q	RGS19_uc002yhz.2_5'UTR|RGS19_uc002yia.2_Missense_Mutation_p.R19Q|RGS19_uc002yib.2_Missense_Mutation_p.R19Q	NM_005873	NP_005864	P49795	RGS19_HUMAN	G protein signalling regulator 19	19					autophagy|G-protein coupled receptor protein signaling pathway|negative regulation of signal transduction|small GTPase mediated signal transduction	Golgi apparatus|membrane fraction|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			skin(1)	1	all_cancers(38;3.45e-11)|all_epithelial(29;9.12e-13)|Lung NSC(23;2e-09)|all_lung(23;6.77e-09)					TGAAGGGGGCCGGTCCGCCTC	0.627													10	162					0	0	0.013537	0	0		T	62707974	T	T	62707974	3	4	209	1	0	0	0	0	1	0	0	0	13326	652	23	1	613	1	RGS19	20	62707974	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	214364	62707974	317546	1185	101600											
OPRL1	4987	broad.mit.edu	37	chr20	62724254	62724254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggggctctacctggccGtgtgtgtcggagggctcctg	2	11	17	11	3	1	0	0	0	1	0	4	1	2	1	3	5	1	2	3	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr20:62724254G>A	uc002yic.2	+	3	583	c.181G>A	c.(181-183)GTG>ATG	p.V61M	OPRL1_uc002yid.2_Missense_Mutation_p.V61M|OPRL1_uc002yif.3_Missense_Mutation_p.V61M	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	61	Helical; Name=1; (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					CTACCTGGCCGTGTGTGTCGG	0.642													8	53					0	0	0.004482	0	0		A	62724254	A	A	62724254	3	1	209	1	0	0	0	0	1	0	0	0	10905	1145	40	1	183	1	OPRL1	20	62724254	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	16280	62724254	301266	1186	101601											
APP	351	broad.mit.edu	37	chr21	27423391	27423391	+	Missense_Mutation	SNP	A	G	G	1	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	cctccgcatcagcagaatccAcattgtcactttcttcagcc	9	11	5	16	1	4	1	3	0	1	1	6	1	6	1	4	0	2	2	4	0	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr21:27423391A>G	uc002ylz.2	-	5	787	c.587T>C	c.(586-588)GTG>GCG	p.V196A	APP_uc010glk.2_Missense_Mutation_p.V191A|APP_uc002yma.2_Missense_Mutation_p.V196A|APP_uc011ach.1_Missense_Mutation_p.V140A|APP_uc002ymb.2_Missense_Mutation_p.V196A|APP_uc010glj.2_Missense_Mutation_p.V140A|APP_uc011aci.1_Missense_Mutation_p.V161A|APP_uc011acj.1_Missense_Mutation_p.V196A	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	196	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				AGCAGAATCCACATTGTCACT	0.537													15	63					0	0	0.006122	0	0		G	27423391	G	G	27423391	3	3	209	1	0	0	0	0	1	0	0	0	815	159	6	3	1781	3	APP	21	27423391	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08		27423391	20706504	1187	101602											
DONSON	29980	broad.mit.edu	37	chr21	34958406	34958406	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaagaggtgaaaaggagtcGcgttttaatactccagtcca	14	9	11	7	2	0	3	0	1	0	2	3	4	2	4	2	2	1	1	2	2	5	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr21:34958406G>A	uc002ysk.2	-	3	551	c.484C>T	c.(484-486)CGA>TGA	p.R162*	DONSON_uc002ysn.1_Nonsense_Mutation_p.R45*|DONSON_uc002ysi.1_5'UTR|DONSON_uc002ysj.2_5'UTR|DONSON_uc002ysl.2_Intron|DONSON_uc010gme.2_Nonsense_Mutation_p.R135*|DONSON_uc002ysm.2_Nonsense_Mutation_p.R162*	NM_017613	NP_060083	Q9NYP3	DONS_HUMAN	downstream neighbor of SON	162					multicellular organismal development	nucleus				ovary(1)|central_nervous_system(1)	2						AAAAGGAGTCGCGTTTTAATA	0.433											OREG0003565	type=REGULATORY REGION|Gene=DONSON|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	10	63					0	0	0.001855	0	0		A	34958406	A	A	34958406	4	1	209	1	0	0	0	0	0	1	0	0	4712	1095	38	1	1248	1	DONSON	21	34958406	Nonsense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	7535015	34958406	13171489	1188	101603											
ITSN1	6453	broad.mit.edu	37	chr21	35195929	35195929	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaggccggagtcttcccttCtaactatgtgaggcttaaag	10	11	10	10	1	2	1	0	1	2	0	3	2	3	2	2	3	1	1	2	3	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr21:35195929C>T	uc002yta.1	+	25	3423	c.3155C>T	c.(3154-3156)TCT>TTT	p.S1052F	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_Intron|ITSN1_uc002ysz.2_Intron|ITSN1_uc010gmg.2_Intron|ITSN1_uc010gmh.2_Intron|ITSN1_uc002ysw.2_Missense_Mutation_p.S1052F|ITSN1_uc010gmi.2_Missense_Mutation_p.S1015F|ITSN1_uc010gmj.2_Missense_Mutation_p.S931F|ITSN1_uc002ysy.2_Missense_Mutation_p.S1047F|ITSN1_uc002ysx.2_Missense_Mutation_p.S1010F|ITSN1_uc002ytb.1_Missense_Mutation_p.S1047F|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Intron|ITSN1_uc010gml.2_Intron|ITSN1_uc002ytj.2_Missense_Mutation_p.S1047F|ITSN1_uc010gmm.1_Intron|ITSN1_uc002yte.2_Intron|ITSN1_uc002ytg.1_Intron	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	1052	SH3 3.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						GTCTTCCCTTCTAACTATGTG	0.468													25	64					0	0	0.007291	0	0		T	35195929	T	T	35195929	3	4	209	1	0	0	0	0	1	0	0	0	7942	913	32	4	3249	4	ITSN1	21	35195929	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	237523	35195929	12933966	1189	101604											
SETD4	54093	broad.mit.edu	37	chr21	37417922	37417922	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaggtccaggtacggagcGagtgcacaggtgtccggctc	8	6	16	11	3	0	0	0	0	0	0	3	2	2	1	2	5	4	4	2	5	1	1	rs145056271		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr21:37417922G>A	uc002yuw.1	-	5	2057	c.684C>T	c.(682-684)CTC>CTT	p.L228L	SETD4_uc002yux.1_Silent_p.L204L|SETD4_uc002yuu.2_RNA|SETD4_uc002yuv.2_Silent_p.L228L|SETD4_uc002yuy.2_Silent_p.L228L|SETD4_uc002yuz.2_Silent_p.L204L|SETD4_uc002yva.2_Silent_p.L204L	NM_017438	NP_059134	Q9NVD3	SETD4_HUMAN	SET domain containing 4 isoform a	228	SET.									large_intestine(1)|ovary(1)	2						GGTACGGAGCGAGTGCACAGG	0.592													13	64					0	0	0.013537	0	0		A	37417922	A	A	37417922	2	1	209	1	0	0	0	0	0	0	0	1	14158	1045	37	1		1	SETD4	21	37417922	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2221993	37417922	10711973	1190	101605											
KCNJ6	3763	broad.mit.edu	37	chr21	39087018	39087018	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accaatggtggtttctgtctCtattgagaataaaaaagcag	14	12	9	6	0	2	1	0	1	2	1	3	2	2	1	1	2	1	2	1	2	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr21:39087018C>G	uc011aej.1	-	3	495	c.442G>C	c.(442-444)GAG>CAG	p.E148Q	KCNJ6_uc002ywo.2_Missense_Mutation_p.E148Q	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	148					synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	GTTTCTGTCTCTATTGAGAAT	0.468													24	75					0	0	0.003954	0	0		G	39087018	G	G	39087018	3	3	209	1	0	0	0	0	1	0	0	0	8071	922	32	5	837	5	KCNJ6	21	39087018	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1669096	39087018	9042877	1191	101606											
KCNJ15	3772	broad.mit.edu	37	chr21	39671474	39671474	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatggggacttagaaccCggtgagcccatttcaaatca	12	10	9	10	1	3	2	3	1	0	1	3	3	3	3	2	3	2	0	2	3	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr21:39671474C>T	uc002ywv.2	+	4	593	c.291C>T	c.(289-291)CCC>CCT	p.P97P	KCNJ15_uc002yww.2_Silent_p.P97P|KCNJ15_uc002ywx.2_Silent_p.P97P	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	97	Extracellular (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						ACTTAGAACCCGGTGAGCCCA	0.483													19	94					0	0	0.012319	0	0		T	39671474	T	T	39671474	2	4	209	1	0	0	0	0	0	0	0	1	8065	639	23	1		1	KCNJ15	21	39671474	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	584456	39671474	8458421	1192	101607											
BRWD1	54014	broad.mit.edu	37	chr21	40627652	40627652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctgtagcaatctgactgCgtggagcgttttgatgcatc	7	14	12	8	2	2	2	0	2	2	0	3	3	2	3	0	1	4	5	0	1	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr21:40627652C>T	uc002yxk.1	-	19	2313	c.2174G>A	c.(2173-2175)CGC>CAC	p.R725H	BRWD1_uc010goc.1_5'UTR|BRWD1_uc002yxl.2_Missense_Mutation_p.R725H|BRWD1_uc010goe.1_RNA|BRWD1_uc010gof.1_Missense_Mutation_p.R178H|BRWD1_uc010gog.1_RNA|BRWD1_uc010goh.1_Intron|BRWD1_uc010goi.1_Missense_Mutation_p.R445H	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	725					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				AATCTGACTGCGTGGAGCGTT	0.458													6	90					0	0	0.001168	0	0		T	40627652	T	T	40627652	3	4	209	1	0	0	0	0	1	0	0	0	1528	768	27	1	5123	1	BRWD1	21	40627652	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	956178	40627652	7502243	1193	101608											
IL17RA	23765	broad.mit.edu	37	chr22	17578808	17578808	+	Silent	SNP	C	T	T	0	0	0	1	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	gacctgttccccgtggctcaCatcgaatggacactgcagac	9	8	10	14	2	1	1	1	0	0	1	3	4	2	2	3	2	1	3	3	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:17578808C>T	uc002zly.2	+	3	418	c.285C>T	c.(283-285)CAC>CAT	p.H95H	IL17RA_uc010gqt.2_Silent_p.H95H	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	95	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CCGTGGCTCACATCGAATGGA	0.607													8	41					0	0	0.00308	0	0		T	17578808	T	T	17578808	2	4	209	1	0	0	0	0	0	0	0	1	7655	477	17	4		4	IL17RA	22	17578808	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		17578808	33725758	1194	101609											
SEPT5	5413	broad.mit.edu	37	chr22	19707904	19707904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtacttccgtgatgagagcGgcctcaaccgaaagaacatc	13	7	10	11	3	1	3	1	2	0	2	3	5	2	3	3	1	4	1	3	1	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:19707904G>A	uc002zpv.1	+	6	549	c.424G>A	c.(424-426)GGC>AGC	p.G142S	SEPT5_uc002zpw.1_RNA|SEPT5_uc002zpx.1_RNA|SEPT5_uc002zpy.1_5'Flank	NM_002688	NP_002679	Q99719	SEPT5_HUMAN	septin 5	142					cell cycle|cytokinesis|regulation of exocytosis|synaptic vesicle targeting	plasma membrane|septin complex|synaptic vesicle	GTP binding|GTPase activity|protein binding|structural molecule activity			lung(1)	1	Colorectal(54;0.0993)					TGATGAGAGCGGCCTCAACCG	0.597													4	55					0	0	0.000602	0	0		A	19707904	A	A	19707904	3	1	209	1	0	0	0	0	1	0	0	0	14092	1116	39	1	446	1	SEPT5	22	19707904	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2129096	19707904	31596662	1195	101610											
KLHL22	84861	broad.mit.edu	37	chr22	20796677	20796677	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctcaccgtgcccagcagggaGtgggcagacagatgaccact	10	5	13	13	1	1	3	1	1	0	2	1	4	1	4	3	2	2	2	3	2	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:20796677G>A	uc002zsl.1	-	7	1697	c.1588C>T	c.(1588-1590)CTC>TTC	p.L530F	KLHL22_uc011ahr.1_Missense_Mutation_p.L387F	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	530	Kelch 5.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CCAGCAGGGAGTGGGCAGACA	0.612													5	71					0	0	0.000602	0	0		A	20796677	A	A	20796677	3	1	209	1	0	0	0	0	1	0	0	0	8393	1029	36	4	320	4	KLHL22	22	20796677	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1088773	20796677	30507889	1196	101611											
PRAME	23532	broad.mit.edu	37	chr22	22893468	22893468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gctccacaagtctccgtgggCttgtccacacactcatgctg	7	10	9	15	1	2	0	1	0	1	0	5	0	4	0	3	1	1	3	3	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:22893468C>T	uc002zwf.2	-	3	221	c.65G>A	c.(64-66)AGC>AAC	p.S22N	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Missense_Mutation_p.S6N|PRAME_uc010gtr.2_Missense_Mutation_p.S22N|PRAME_uc002zwg.2_Missense_Mutation_p.S22N|PRAME_uc002zwh.2_Missense_Mutation_p.S22N|PRAME_uc002zwi.2_Missense_Mutation_p.S22N|PRAME_uc002zwj.2_Missense_Mutation_p.S22N|PRAME_uc002zwk.2_Missense_Mutation_p.S22N	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	22					apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		TCTCCGTGGGCTTGTCCACAC	0.577													36	151					0	0	0.003755	0	0		T	22893468	T	T	22893468	3	4	209	1	0	0	0	0	1	0	0	0	12446	797	28	2	1476	2	PRAME	22	22893468	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	2096791	22893468	28411098	1197	101612											
BCR	613	broad.mit.edu	37	chr22	23596021	23596021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccacctggatacggctgcGctgcagaccgggcagaggag	9	4	15	13	3	0	2	0	0	0	2	0	4	0	4	3	4	3	4	3	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:23596021G>A	uc002zww.2	+	2	1911	c.1315G>A	c.(1315-1317)GCT>ACT	p.A439T	BCR_uc002zwx.2_Missense_Mutation_p.A439T|BCR_uc011aiy.1_Missense_Mutation_p.A28T|BCR_uc010gtx.1_5'UTR	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	439					regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	ATP binding|GTPase activator activity|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity		BCR/JAK2(6)	haematopoietic_and_lymphoid_tissue(6)|central_nervous_system(3)|urinary_tract(1)|lung(1)|skin(1)	12						ATACGGCTGCGCTGCAGACCG	0.602			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								5	77					0	0	0.001984	0	0		A	23596021	A	A	23596021	3	1	209	1	0	0	0	0	1	0	0	0	1389	1087	38	1	1321	1	BCR	22	23596021	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	702553	23596021	27708545	1198	101613											
CYTSA	23384	broad.mit.edu	37	chr22	24810529	24810529	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaaatggtacggactgaaCgacccgactggcagaacgtg	13	6	13	9	4	0	3	0	2	0	1	0	6	0	4	1	3	3	2	1	3	4	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:24810529C>T	uc002zzw.2	+	17	3599	c.3292C>T	c.(3292-3294)CGA>TGA	p.R1098*	CYTSA_uc002zzv.3_Nonsense_Mutation_p.R1098*|CYTSA_uc011ajq.1_Nonsense_Mutation_p.R1059*	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	1098	CH.				cell cycle|cell division						0						ACGGACTGAACGACCCGACTG	0.557													6	38					0	0	0.001168	0	0		T	24810529	T	T	24810529	4	4	209	1	0	0	0	0	0	1	0	0	4212	528	19	1	3350	1	CYTSA	22	24810529	Nonsense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1214508	24810529	26494037	1199	101614											
TFIP11	24144	broad.mit.edu	37	chr22	26895170	26895170	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgtactcctcatagtacTtgtcctgcagggtttcgaag	7	14	9	11	1	1	0	1	0	0	0	5	1	4	0	3	1	3	4	3	1	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:26895170T>G	uc003acr.2	-	8	1603	c.1229A>C	c.(1228-1230)AAG>ACG	p.K410T	TFIP11_uc003acs.2_Missense_Mutation_p.K410T|TFIP11_uc003act.2_Missense_Mutation_p.K410T	NM_012143	NP_036275	Q9UBB9	TFP11_HUMAN	tuftelin interacting protein 11	410					biomineral tissue development	catalytic step 2 spliceosome|cytoplasm|nuclear speck	DNA binding|sequence-specific DNA binding transcription factor activity				0						CTCATAGTACTTGTCCTGCAG	0.582													19	73					0	0	0.008871	0	0		G	26895170	G	G	26895170	3	3	209	1	0	0	0	0	1	0	0	0	15832	1609	56	5	1312	5	TFIP11	22	26895170	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2084641	26895170	24409396	1200	101615											
ASCC2	84164	broad.mit.edu	37	chr22	30188437	30188437	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaccttgggagcctcctcGtcagcatcgtcttcctcatc	5	12	9	15	2	3	0	2	0	1	0	8	1	5	1	4	2	3	2	4	2	1	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:30188437G>A	uc003agr.2	-	18	2112	c.2007C>T	c.(2005-2007)GAC>GAT	p.D669D	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Silent_p.D669D|ASCC2_uc011akr.1_Silent_p.D593D	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	669					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			GAGCCTCCTCGTCAGCATCGT	0.582													96	420					0	0	0.01441	0	0		A	30188437	A	A	30188437	2	1	209	1	0	0	0	0	0	0	0	1	1033	1136	40	1		1	ASCC2	22	30188437	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	3293267	30188437	21116129	1201	101616											
CCDC157	550631	broad.mit.edu	37	chr22	30771488	30771488	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaggcagatccagcagcgtgGaatcccagataacatgtccc	12	6	11	12	1	0	2	0	0	0	2	3	4	3	3	3	2	3	2	3	2	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:30771488G>A	uc011aku.1	+	10	2353	c.1693G>A	c.(1693-1695)GAA>AAA	p.E565K	CCDC157_uc011akv.1_Missense_Mutation_p.E565K|uc003aho.1_5'Flank	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	565										central_nervous_system(1)	1						CAGCAGCGTGGAATCCCAGAT	0.577													4	93					0	0	0.000602	0	0		A	30771488	A	A	30771488	3	1	209	1	0	0	0	0	1	0	0	0	2792	1175	41	4	1723	4	CCDC157	22	30771488	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	583051	30771488	20533078	1202	101617											
MORC2	22880	broad.mit.edu	37	chr22	31333609	31333609	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttccatagctctccggcGtttgtaacgcagctcactgg	7	12	10	12	3	2	0	1	0	1	0	4	1	3	0	2	2	3	5	2	2	2	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:31333609G>A	uc003aje.1	-	16	2637	c.1273C>T	c.(1273-1275)CGC>TGC	p.R425C		NM_014941	NP_055756	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	487							ATP binding|zinc ion binding			ovary(1)|pancreas(1)	2						GCTCTCCGGCGTTTGTAACGC	0.557													14	58					0	0	0.001855	0	0		A	31333609	A	A	31333609	3	1	209	1	0	0	0	0	1	0	0	0	9720	1145	40	1	1687	1	MORC2	22	31333609	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	562121	31333609	19970957	1203	101618											
LIMK2	3985	broad.mit.edu	37	chr22	31658139	31658139	+	Missense_Mutation	SNP	A	G	G	1	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	gggtcaaccggatgcacatcAgtcccaacaatcgaaacgcc	13	5	9	14	3	2	0	2	0	0	0	4	2	3	1	3	2	4	1	3	2	4	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:31658139A>G	uc003akh.2	+	6	716	c.571A>G	c.(571-573)AGT>GGT	p.S191G	LIMK2_uc003akg.2_Missense_Mutation_p.S108G|LIMK2_uc003aki.2_Intron|LIMK2_uc003akj.2_Missense_Mutation_p.S170G|LIMK2_uc003akk.2_Missense_Mutation_p.S170G|LIMK2_uc011aln.1_Missense_Mutation_p.S108G	NM_005569	NP_005560	P53671	LIMK2_HUMAN	LIM domain kinase 2 isoform 2a	191	PDZ.					mitochondrion|nucleus	ATP binding|protein serine/threonine kinase activity|zinc ion binding			ovary(2)	2						GATGCACATCAGTCCCAACAA	0.547													19	149					0	0	0.010504	0	0		G	31658139	G	G	31658139	3	3	209	1	0	0	0	0	1	0	0	0	8818	188	7	3	650	3	LIMK2	22	31658139	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	324530	31658139	19646427	1204	101619											
APOL6	80830	broad.mit.edu	37	chr22	36054849	36054849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aattcaccaaggctaacatgGtggccacctctactgctgtc	10	10	8	13	0	2	0	1	0	1	0	3	0	2	0	3	3	3	2	3	3	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:36054849G>A	uc003aoe.2	+	3	532	c.238G>A	c.(238-240)GTG>ATG	p.V80M	APOL6_uc003aod.2_RNA	NM_030641	NP_085144	Q9BWW8	APOL6_HUMAN	apolipoprotein L6	80					lipoprotein metabolic process	cytoplasm|extracellular region	lipid binding|lipid transporter activity				0						GGCTAACATGGTGGCCACCTC	0.532													6	39					0	0	0.001984	0	0		A	36054849	A	A	36054849	3	1	209	1	0	0	0	0	1	0	0	0	810	1261	44	4	244	4	APOL6	22	36054849	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4396710	36054849	15249717	1205	101620											
APOL5	80831	broad.mit.edu	37	chr22	36122584	36122584	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcatgaacatcctgggtttgGccctagcacctgtgacagca	9	10	10	12	0	1	2	1	2	0	0	2	2	2	2	3	2	3	3	3	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:36122584G>A	uc003aof.2	+	3	469	c.469G>A	c.(469-471)GCC>ACC	p.A157T		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	157					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						CCTGGGTTTGGCCCTAGCACC	0.562													28	94					0	0	0.00632	0	0		A	36122584	A	A	36122584	3	1	209	1	0	0	0	0	1	0	0	0	809	1203	42	2	479	2	APOL5	22	36122584	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	67735	36122584	15181982	1206	101621											
FOXRED2	80020	broad.mit.edu	37	chr22	36897391	36897391	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccggcttcctttggattcGtagctagctcgaatcagcgg	6	11	11	13	4	1	0	1	0	0	0	4	2	2	1	3	3	3	4	3	3	3	5	rs144879175		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:36897391G>A	uc003apn.3	-	4	1221	c.1113C>T	c.(1111-1113)TAC>TAT	p.Y371Y	FOXRED2_uc003apm.3_5'Flank|FOXRED2_uc003apo.3_Silent_p.Y371Y|FOXRED2_uc003app.3_Silent_p.Y371Y	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	371					ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						CTTTGGATTCGTAGCTAGCTC	0.527													10	63					0	0	0.006214	0	0		A	36897391	A	A	36897391	2	1	209	1	0	0	0	0	0	0	0	1	6048	1140	40	1		1	FOXRED2	22	36897391	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	774807	36897391	14407175	1207	101622											
FOXRED2	80020	broad.mit.edu	37	chr22	36902129	36902129	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggggaagtaggcacgcgagTagtgtctgaagagcagccgg	10	5	18	8	4	1	2	0	1	1	1	1	4	1	3	1	4	2	4	1	4	4	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:36902129T>C	uc003apn.3	-	1	449	c.341A>G	c.(340-342)TAC>TGC	p.Y114C	FOXRED2_uc003apo.3_Missense_Mutation_p.Y114C|FOXRED2_uc003app.3_Missense_Mutation_p.Y114C	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2	114					ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						GGCACGCGAGTAGTGTCTGAA	0.632													7	81					0	0	0.001984	0	0		C	36902129	C	C	36902129	3	2	209	1	0	0	0	0	1	0	0	0	6048	1638	57	3	1745	3	FOXRED2	22	36902129	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	4738	36902129	14402437	1208	101623											
CYTH4	27128	broad.mit.edu	37	chr22	37699442	37699442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccgaggaccagctgcGggtgagagaggcgcagccca	8	3	16	14	3	0	2	0	1	0	1	0	5	0	3	4	3	4	2	4	3	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:37699442G>A	uc003arf.2	+	8	811	c.695G>A	c.(694-696)CGG>CAG	p.R232Q	CYTH4_uc003are.2_Missense_Mutation_p.R232Q|CYTH4_uc011amw.1_Missense_Mutation_p.R175Q|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	232	SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						GACCAGCTGCGGGTGAGAGAG	0.642													9	24					0	0	0.008291	0	0		A	37699442	A	A	37699442	3	1	209	1	0	0	0	0	1	0	0	0	4209	1130	39	1	725	1	CYTH4	22	37699442	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	797313	37699442	13605124	1209	101624											
TRIOBP	11078	broad.mit.edu	37	chr22	38120705	38120705	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcctctcctaacagaacCacccaacaagagaaccccag	14	4	5	18	0	1	2	0	0	1	2	3	3	2	2	7	0	4	0	7	0	5	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:38120705C>A	uc003atr.2	+	7	2413	c.2142C>A	c.(2140-2142)ACC>ACA	p.T714T	TRIOBP_uc003atu.2_Silent_p.T542T|TRIOBP_uc003atq.1_Silent_p.T714T|TRIOBP_uc003ats.1_Silent_p.T542T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	714				RTTQQEN -> KSTFGCL (in Ref. 7; BAB33332).	actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					CTAACAGAACCACCCAACAAG	0.572													19	98					0.000958276	0.000998118	0.007413	1	0		A	38120705	A	A	38120705	2	1	209	1	0	0	0	0	0	0	0	1	16579	581	21	5		5	TRIOBP	22	38120705	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	421263	38120705	13183861	1210	101625											
TRIOBP	11078	broad.mit.edu	37	chr22	38121668	38121668	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccctcgctatttgcagcaCgaccccttccccttcttccc	4	11	4	22	2	1	0	0	0	1	0	4	1	3	0	7	0	2	3	7	0	1	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:38121668C>T	uc003atr.2	+	7	3376	c.3105C>T	c.(3103-3105)CAC>CAT	p.H1035H	TRIOBP_uc003atu.2_Silent_p.H863H|TRIOBP_uc003atq.1_Silent_p.H1035H|TRIOBP_uc003ats.1_Silent_p.H863H	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1035					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ATTTGCAGCACGACCCCTTCC	0.647													27	159					0	0	0.005443	0	0		T	38121668	T	T	38121668	2	4	209	1	0	0	0	0	0	0	0	1	16579	535	19	1		1	TRIOBP	22	38121668	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	963	38121668	13182898	1211	101626											
SLC16A8	23539	broad.mit.edu	37	chr22	38476857	38476857	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cggggcgcaccggcagagggCggtccgatgagcacagccgc	7	2	18	14	6	0	2	0	1	0	1	1	3	1	2	3	5	2	3	3	5	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:38476857C>T	uc003auu.2	-	4	1318	c.1188G>A	c.(1186-1188)CCG>CCA	p.P396P		NM_013356	NP_037488	O95907	MOT3_HUMAN	solute carrier family 16, member 8	396	Helical; (Potential).				blood coagulation|leukocyte migration|pyruvate metabolic process	integral to plasma membrane|membrane fraction	lactate transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity				0	Melanoma(58;0.045)				Pyruvic acid(DB00119)	CGGCAGAGGGCGGTCCGATGA	0.687													3	4					0	0	0.004672	0	0		T	38476857	T	T	38476857	2	4	209	1	0	0	0	0	0	0	0	1	14439	755	27	1		1	SLC16A8	22	38476857	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	355189	38476857	12827709	1212	101627											
KCNJ4	3761	broad.mit.edu	37	chr22	38824062	38824062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtacacgttgcattggcCgttcttcttgacgaagcggt	8	12	12	9	4	2	1	0	1	2	0	2	3	2	1	1	2	3	4	1	2	3	6			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:38824062C>T	uc003avs.1	-	2	173	c.76G>A	c.(76-78)GGC>AGC	p.G26S	KCNJ4_uc003avt.1_Missense_Mutation_p.G26S	NM_004981	NP_004972	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4	26	Cytoplasmic (By similarity).				synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					TTGCATTGGCCGTTCTTCTTG	0.637													84	302					0	0	0.01441	0	0		T	38824062	T	T	38824062	3	4	209	1	0	0	0	0	1	0	0	0	8069	652	23	1	1265	1	KCNJ4	22	38824062	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	347205	38824062	12480504	1213	101628											
SUN2	25777	broad.mit.edu	37	chr22	39146312	39146312	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggaactctgctggtcCacatccgagtagcctgcggg	7	8	14	12	2	1	0	0	0	1	0	3	3	3	1	3	3	5	3	3	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:39146312C>A	uc003awh.1	-	6	722	c.438G>T	c.(436-438)GTG>GTT	p.V146V	SUN2_uc011anz.1_Silent_p.V181V|SUN2_uc011aoa.1_Silent_p.V135V|SUN2_uc003awi.1_Silent_p.V146V|SUN2_uc010gxq.1_Silent_p.V167V|SUN2_uc010gxr.1_Silent_p.V146V|SUN2_uc010gxs.1_Silent_p.V146V	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	146	Nuclear.|Ser-rich.				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						TCTGCTGGTCCACATCCGAGT	0.617													4	38					0.00909568	0.0092679	0.009096	1	0		A	39146312	A	A	39146312	2	1	209	1	0	0	0	0	0	0	0	1	15417	581	21	5		5	SUN2	22	39146312	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	322250	39146312	12158254	1214	101629											
TAB1	10454	broad.mit.edu	37	chr22	39813774	39813774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatccttgagagactcaagaCgttagagagggaaatttcgg	13	9	13	6	2	1	4	1	1	0	3	3	8	2	5	1	2	0	1	1	2	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:39813774C>T	uc003axt.2	+	5	519	c.470C>T	c.(469-471)ACG>ATG	p.T157M	TAB1_uc003axr.2_Missense_Mutation_p.T233M|TAB1_uc011aok.1_Translation_Start_Site|TAB1_uc003axu.1_Missense_Mutation_p.T157M	NM_006116	NP_006107	Q15750	TAB1_HUMAN	mitogen-activated protein kinase kinase kinase 7	157	PP2C-like.				activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1						AGACTCAAGACGTTAGAGAGG	0.567													16	60					0	0	0.004007	0	0		T	39813774	T	T	39813774	3	4	209	1	0	0	0	0	1	0	0	0	15520	536	19	1	488	1	TAB1	22	39813774	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	667462	39813774	11490792	1215	101630											
TNRC6B	23112	broad.mit.edu	37	chr22	40711509	40711509	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaggactcacggctcgcctCgggtgaggaggatctgccta	8	7	14	12	3	2	1	1	1	1	0	4	4	2	4	2	5	1	1	2	5	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:40711509C>T	uc011aor.1	+	20	5112	c.4901C>T	c.(4900-4902)TCG>TTG	p.S1634L	TNRC6B_uc003aym.2_Missense_Mutation_p.S830L|TNRC6B_uc003ayn.3_Missense_Mutation_p.S1524L|TNRC6B_uc003ayo.2_Missense_Mutation_p.S1381L	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	1634					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CGGCTCGCCTCGGGTGAGGAG	0.562													11	34					0	0	0.001855	0	0		T	40711509	T	T	40711509	3	4	209	1	0	0	0	0	1	0	0	0	16366	893	31	1	5100	1	TNRC6B	22	40711509	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	897735	40711509	10593057	1216	101631											
EP300	2033	broad.mit.edu	37	chr22	41527551	41527551	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcaagtaaatcagatgcCgacacaaccccaggtgcaag	15	6	8	12	1	2	1	2	0	0	1	2	2	2	1	3	1	3	2	3	1	6	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:41527551C>T	uc003azl.3	+	6	1837	c.1442C>T	c.(1441-1443)CCG>CTG	p.P481L		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	481					apoptosis|cell cycle|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|histone H4 acetylation|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of androgen receptor signaling pathway|response to estrogen stimulus|response to hypoxia	centrosome|histone acetyltransferase complex	androgen receptor binding|beta-catenin binding|DNA binding|histone acetyltransferase activity|RNA polymerase II activating transcription factor binding|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(22)|large_intestine(13)|breast(9)|central_nervous_system(5)|upper_aerodigestive_tract(4)|pancreas(4)|lung(3)|ovary(2)|stomach(1)|skin(1)	64						AATCAGATGCCGACACAACCC	0.517			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				7	78					0	0	0.00308	0	0		T	41527551	T	T	41527551	3	4	209	1	0	0	0	0	1	0	0	0	5156	652	23	1	1464	1	EP300	22	41527551	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	816042	41527551	9777015	1217	101632											
POLDIP3	84271	broad.mit.edu	37	chr22	42981828	42981828	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgaattctgtgggctgcGtggtcacagaggcccctgag	6	12	14	9	1	2	3	1	2	1	1	2	3	2	3	2	3	1	1	2	3	1	3	rs113566870		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:42981828G>A	uc003bcu.2	-	9	1334	c.1235C>T	c.(1234-1236)ACG>ATG	p.T412M	POLDIP3_uc011app.1_3'UTR|POLDIP3_uc003bcv.2_Missense_Mutation_p.T383M|POLDIP3_uc011apq.1_Missense_Mutation_p.T429M|POLDIP3_uc010gza.2_RNA|POLDIP3_uc011apr.1_RNA|POLDIP3_uc010gzb.1_Intron	NM_032311	NP_115687	Q9BY77	PDIP3_HUMAN	DNA polymerase delta interacting protein 3	412					positive regulation of translation	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding				0						TGTGGGCTGCGTGGTCACAGA	0.587													38	158					0	0	0.00874	0	0		A	42981828	A	A	42981828	3	1	209	1	0	0	0	0	1	0	0	0	12214	1145	40	1	34	1	POLDIP3	22	42981828	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1454277	42981828	8322738	1218	101633											
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45128176	45128176	+	Missense_Mutation	SNP	A	G	G	1	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	tggccctgctgcacttccggAatgccatcaccctcagtgtg	6	10	10	15	1	2	0	2	0	0	0	3	1	3	1	4	2	3	2	4	2	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:45128176A>G	uc003bfd.2	+	6	732	c.460A>G	c.(460-462)AAT>GAT	p.N154D	PRR5_uc003bew.1_Missense_Mutation_p.N145D|PRR5_uc003bex.1_Missense_Mutation_p.N59D|PRR5_uc010gzt.1_Missense_Mutation_p.N177D|PRR5_uc010gzu.1_Missense_Mutation_p.N118D|PRR5_uc003bey.1_Missense_Mutation_p.N145D|PRR5_uc003bez.1_Missense_Mutation_p.N59D|PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|PRR5_uc003bfa.1_Missense_Mutation_p.N47D|PRR5_uc003bfb.1_Missense_Mutation_p.N154D|PRR5_uc003bfe.1_RNA|PRR5-ARHGAP8_uc003bfg.1_Intron|PRR5_uc003bfh.1_Missense_Mutation_p.N53D	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						GCACTTCCGGAATGCCATCAC	0.667													5	69					0	0	0.000602	0	0		G	45128176	G	G	45128176	3	3	209	1	0	0	0	0	1	0	0	0	12623	246	9	3		3	PRR5-ARHGAP8	22	45128176	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2146348	45128176	6176390	1219	101634											
ATXN10	25814	broad.mit.edu	37	chr22	46096163	46096163	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacttttatatattcttagcTtttcgctgtggcctgcagtt	7	19	7	8	1	1	0	0	0	1	0	2	0	1	0	1	1	3	4	1	1	5	9			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:46096163T>C	uc003bgm.1	+	4	650	c.393T>C	c.(391-393)GCT>GCC	p.A131A	ATXN10_uc011aqt.1_Silent_p.A67A|ATXN10_uc003bgn.1_5'UTR	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	131					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		TATTCTTAGCTTTTCGCTGTG	0.303													7	35					0	0	0.001984	0	0		C	46096163	C	C	46096163	2	2	209	1	0	0	0	0	0	0	0	1	1211	1623	56	3		3	ATXN10	22	46096163	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	967987	46096163	5208403	1220	101635											
BRD1	23774	broad.mit.edu	37	chr22	50217190	50217190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccgcgactgcaggcagtggCggcagagccactggccctcg	6	4	15	16	4	0	1	0	0	0	1	1	2	0	1	3	4	2	3	3	4	0	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:50217190C>T	uc003biv.2	-	1	1263	c.776G>A	c.(775-777)CGC>CAC	p.R259H	BRD1_uc011arf.1_5'UTR|BRD1_uc011arg.1_Missense_Mutation_p.R259H|BRD1_uc011arh.1_Missense_Mutation_p.R259H|BRD1_uc003biu.3_Missense_Mutation_p.R259H	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1	259	PHD-type.				histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CAGGCAGTGGCGGCAGAGCCA	0.647													7	26					0	0	0.004482	0	0		T	50217190	T	T	50217190	3	4	209	1	0	0	0	0	1	0	0	0	1504	768	27	1	2448	1	BRD1	22	50217190	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4121027	50217190	1087376	1221	101636											
SBF1	6305	broad.mit.edu	37	chr22	50900529	50900529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctctccgtgtcatagctctCggccacactgccagccatgc	6	9	9	17	2	3	0	1	0	2	0	5	0	3	0	4	1	4	2	4	1	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:50900529C>T	uc003blh.2	-	20	2611	c.2416G>A	c.(2416-2418)GAG>AAG	p.E806K	SBF1_uc011arx.1_Missense_Mutation_p.E470K|SBF1_uc003bli.2_Missense_Mutation_p.E807K	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	806					protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		TCATAGCTCTCGGCCACACTG	0.652													43	108					0	0	0.009718	0	0		T	50900529	T	T	50900529	3	4	209	1	0	0	0	0	1	0	0	0	13883	893	31	1	3353	1	SBF1	22	50900529	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	683339	50900529	404037	1222	101637											
SHANK3	85358	broad.mit.edu	37	chr22	51160646	51160646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgccgccgggcctgcccGccctcgctacctcttccaga	3	8	9	21	4	2	1	0	0	2	1	4	1	3	1	7	1	3	1	7	1	1	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:51160646G>A	uc003bne.1	+	22	4433	c.4433G>A	c.(4432-4434)CGC>CAC	p.R1478H	SHANK3_uc003bnf.1_Missense_Mutation_p.R925H|SHANK3_uc010hbg.1_Missense_Mutation_p.R660H	NM_001080420	NP_001073889	F2Z3L0	F2Z3L0_HUMAN	SH3 and multiple ankyrin repeat domains 3	1478										central_nervous_system(1)	1		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)		GGGCCTGCCCGCCCTCGCTAC	0.677													5	19					0	0	0.000602	0	0		A	51160646	A	A	51160646	3	1	209	1	0	0	0	0	1	0	0	0	14291	1087	38	1	4519	1	SHANK3	22	51160646	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	260117	51160646	143920	1223	101638											
RABL2B	11158	broad.mit.edu	37	chr22	51208372	51208372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacgatgcatgggatctctgGcctgaactcccgaagctctg	8	9	11	13	2	2	1	0	1	2	0	4	4	3	2	2	2	3	2	2	2	2	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chr22:51208372G>A	uc003bno.1	-	6	586	c.370C>T	c.(370-372)CCA>TCA	p.P124S	RPL23AP82_uc011asd.1_Intron|RPL23AP82_uc003bni.2_Intron|RABL2B_uc011ase.1_Intron|RABL2B_uc003bnm.1_Missense_Mutation_p.P124S|RABL2B_uc011asf.1_Missense_Mutation_p.P124S|RABL2B_uc003bnn.1_Missense_Mutation_p.P124S|RABL2B_uc003bnk.1_Missense_Mutation_p.P124S|RABL2B_uc011asg.1_Missense_Mutation_p.P124S|RABL2B_uc003bnl.1_Missense_Mutation_p.P124S|RABL2B_uc011ash.1_Intron	NM_001130922	NP_001124394	Q9UNT1	RBL2B_HUMAN	RAB, member of RAS oncogene family-like 2B	124					small GTPase mediated signal transduction		GTP binding|GTPase activity				0		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;0.0539)|LUAD - Lung adenocarcinoma(64;0.247)		GGGATCTCTGGCCTGAACTCC	0.512													17	50					0	0	0.00278	0	0		A	51208372	A	A	51208372	3	1	209	1	0	0	0	0	1	0	0	0	12996	1203	42	2	365	2	RABL2B	22	51208372	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	47726	51208372	96194	1224	101639											
PLCXD1	55344	broad.mit.edu	37	chrX	215824	215824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagtacgttctggcgcaccCgtccgagtccctggagaaga	8	7	13	13	4	1	2	0	0	1	2	3	4	3	2	3	2	1	4	3	2	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:215824C>T	uc004cpc.2	+	7	1106	c.794C>T	c.(793-795)CCG>CTG	p.P265L	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	265					intracellular signal transduction|lipid metabolic process		phospholipase C activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTGGCGCACCCGTCCGAGTCC	0.657													11	69					0	0	0.013537	0	0		T	215824	T	T	215824	3	4	209	1	0	0	0	0	1	0	0	0	12060	652	23	1	816	1	PLCXD1	23	215824	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08		215824	155054736	1225	101640											
CSF2RA	1438	broad.mit.edu	37	chrX	1413263	1413263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtcaccgtacgttgcaacaCgacgcactgcctcgtacggt	8	9	10	14	6	1	0	1	0	0	0	2	1	1	0	2	1	5	5	2	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:1413263C>T	uc010nct.2	+	9	1011	c.689C>T	c.(688-690)ACG>ATG	p.T230M	CSF2RA_uc011mhb.1_Missense_Mutation_p.T230M|CSF2RA_uc004cpq.2_Intron|CSF2RA_uc004cpn.2_Missense_Mutation_p.T230M|CSF2RA_uc004cpo.2_Missense_Mutation_p.T230M|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_Missense_Mutation_p.T97M|CSF2RA_uc004cpp.2_Missense_Mutation_p.T230M|CSF2RA_uc010ncv.2_Missense_Mutation_p.T230M|CSF2RA_uc004cpr.2_Missense_Mutation_p.T230M	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	230	Extracellular (Potential).					extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	CGTTGCAACACGACGCACTGC	0.572													29	203					0	0	0.012213	0	0		T	1413263	T	T	1413263	3	4	209	1	0	0	0	0	1	0	0	0	3937	536	19	1	711	1	CSF2RA	23	1413263	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1197439	1413263	153857297	1226	101641											
SLC25A6	293	broad.mit.edu	37	chrX	1506203	1506203	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccggactgcatcatcatgcgCcgccgcaccgtgtcgaaggg	7	6	13	15	6	2	0	2	0	0	0	3	2	2	1	4	2	2	2	4	2	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:1506203C>T	uc004cpt.2	-	3	804	c.708G>A	c.(706-708)CGG>CGA	p.R236R	SLC25A6_uc004cpu.2_RNA	NM_001636	NP_001627	P12236	ADT3_HUMAN	adenine nucleotide translocator 3	236	Helical; Name=5; (By similarity).|Substrate recognition (By similarity).|Solcar 3.				active induction of host immune response by virus|apoptosis|energy reserve metabolic process|regulation of insulin secretion|viral infectious cycle	integral to membrane|mitochondrial inner membrane presequence translocase complex	ATP:ADP antiporter activity|protein binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Clodronate(DB00720)	TCATCATGCGCCGCCGCACCG	0.687													35	96					0	0	0.005524	0	0		T	1506203	T	T	1506203	2	4	209	1	0	0	0	0	0	0	0	1	14538	726	26	2		2	SLC25A6	23	1506203	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	92940	1506203	153764357	1227	101642											
ASMT	438	broad.mit.edu	37	chrX	1734120	1734120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcagaggaccaggcctatCgcctccttaatgactacgcc	9	8	8	16	2	1	2	1	1	0	1	3	3	2	3	6	2	1	0	6	2	3	3	rs143703303		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:1734120C>T	uc004cqd.2	+	2	173	c.28C>T	c.(28-30)CGC>TGC	p.R10C	ASMT_uc010ncy.2_Missense_Mutation_p.R10C|ASMT_uc004cqe.2_Missense_Mutation_p.R10C	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase	10					melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCAGGCCTATCGCCTCCTTAA	0.572													3	11					0	0	0.004672	0	0		T	1734120	T	T	1734120	3	4	209	1	0	0	0	0	1	0	0	0	1046	884	31	1	30	1	ASMT	23	1734120	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	227917	1734120	153536440	1228	101643											
ARSF	416	broad.mit.edu	37	chrX	2998955	2998955	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggtttctagtggtaatagaCgtgtcatccaaaatcttgca	11	14	9	7	1	3	1	1	0	2	1	4	1	4	1	1	2	1	3	1	2	5	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:2998955C>T	uc004cre.1	+	5	528	c.307C>T	c.(307-309)CGT>TGT	p.R103C	ARSF_uc004crf.1_Missense_Mutation_p.R103C	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	103						extracellular region	arylsulfatase activity|metal ion binding			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TGGTAATAGACGTGTCATCCA	0.398													21	17					0	0	0.008871	0	0		T	2998955	T	T	2998955	3	4	209	1	0	0	0	0	1	0	0	0	992	536	19	1	321	1	ARSF	23	2998955	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	1264835	2998955	152271605	1229	101644											
NLGN4X	57502	broad.mit.edu	37	chrX	5821684	5821684	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtctgggatgacgtcgccGtcgatcaccggcccgaaggc	6	7	14	14	7	2	1	1	1	1	0	5	4	2	2	3	3	0	0	3	3	1	0			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:5821684G>A	uc010ndh.2	-	5	1536	c.1035C>T	c.(1033-1035)GAC>GAT	p.D345D	NLGN4X_uc004crp.2_Silent_p.D365D|NLGN4X_uc004crq.2_Silent_p.D345D|NLGN4X_uc010ndi.2_Silent_p.D382D|NLGN4X_uc004crr.2_Silent_p.D345D|NLGN4X_uc010ndj.2_Silent_p.D345D	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	345	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TGACGTCGCCGTCGATCACCG	0.587													6	43					0	0	0.00308	0	0		A	5821684	A	A	5821684	2	1	209	1	0	0	0	0	0	0	0	1	10483	1136	40	1		1	NLGN4X	23	5821684	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	2822729	5821684	149448876	1230	101645											
PCYT1B	9468	broad.mit.edu	37	chrX	24593350	24593350	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcttttcttccactctgTtcacaaattcctttgatctt	6	19	4	12	0	5	1	1	1	4	0	7	1	7	1	2	1	0	2	2	1	1	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:24593350T>C	uc004dbi.2	-	7	1027	c.794A>G	c.(793-795)AAC>AGC	p.N265S	PCYT1B_uc004dbk.3_Missense_Mutation_p.N265S|PCYT1B_uc004dbj.2_Missense_Mutation_p.N247S	NM_004845	NP_004836	Q9Y5K3	PCY1B_HUMAN	choline phosphate cytidylyltransferase 1 beta	265						endoplasmic reticulum	choline-phosphate cytidylyltransferase activity				0					Choline(DB00122)	TTCCACTCTGTTCACAAATTC	0.413													10	29					0	0	0.006214	0	0		C	24593350	C	C	24593350	3	2	209	1	0	0	0	0	1	0	0	0	11630	1725	60	3	360	3	PCYT1B	23	24593350	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	18771666	24593350	130677210	1231	101646											
MAGEB10	139422	broad.mit.edu	37	chrX	27839447	27839447	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcgaggtcagaagagtaaActccgtgccagggaaaaacg	14	5	12	10	3	1	2	1	0	0	2	3	4	2	3	3	2	3	1	3	2	5	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:27839447A>G	uc004dbw.2	+	3	251	c.24A>G	c.(22-24)AAA>AAG	p.K8K		NM_182506	NP_872312	Q96LZ2	MAGBA_HUMAN	melanoma antigen family B, 10	8										lung(1)|breast(1)|central_nervous_system(1)	3						AGAAGAGTAAACTCCGTGCCA	0.527													5	33					0	0	0.001168	0	0		G	27839447	G	G	27839447	2	3	209	1	0	0	0	0	0	0	0	1	9191	40	2	3		3	MAGEB10	23	27839447	Silent	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	3246097	27839447	127431113	1232	101647											
FGD1	2245	broad.mit.edu	37	chrX	54491964	54491964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagctcatagcgggggatgCgctgcacaggctccagcatg	9	6	15	11	2	1	0	1	0	0	0	2	2	2	1	1	3	5	5	1	3	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:54491964C>T	uc004dtg.2	-	8	2290	c.1556G>A	c.(1555-1557)CGC>CAC	p.R519H	FGD1_uc011moi.1_Missense_Mutation_p.R277H	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	519	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GCGGGGGATGCGCTGCACAGG	0.582													4	6					0	0	0.009096	0	0		T	54491964	T	T	54491964	3	4	209	1	0	0	0	0	1	0	0	0	5846	768	27	1	1373	1	FGD1	23	54491964	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	26652517	54491964	100778596	1233	101648											
PFKFB1	5207	broad.mit.edu	37	chrX	54964064	54964064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaataggccaggaggcaccGcatgacagcctggtggcaga	12	4	15	10	1	0	2	0	1	0	1	0	4	0	3	3	5	1	3	3	5	2	1	rs140853589		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:54964064G>A	uc004dty.1	-	11	1263	c.1192C>T	c.(1192-1194)CGG>TGG	p.R398W	PFKFB1_uc010nkd.1_Missense_Mutation_p.R206W|PFKFB1_uc011mol.1_Missense_Mutation_p.R333W	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	398	Fructose-2,6-bisphosphatase.			MR -> HA (in Ref. 5; AAA35818).	energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						AGGAGGCACCGCATGACAGCC	0.478													12	13					0	0	0.013537	0	0		A	54964064	A	A	54964064	3	1	209	1	0	0	0	0	1	0	0	0	11779	1086	38	1	239	1	PFKFB1	23	54964064	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	472100	54964064	100306496	1234	101649											
ZXDB	158586	broad.mit.edu	37	chrX	57620221	57620221	+	Silent	SNP	T	G	G	0	1	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	gtgggccaggatctcttagcTcagctagaagcagcaaattc	11	9	11	10	0	2	1	1	0	1	1	4	2	2	2	1	2	4	4	1	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:57620221T>G	uc004dvd.2	+	1	1953	c.1740T>G	c.(1738-1740)GCT>GCG	p.A580A		NM_007157	NP_009088	P98169	ZXDB_HUMAN	zinc finger, X-linked, duplicated B	580	Required for transcriptional activation (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						ATCTCTTAGCTCAGCTAGAAG	0.478													5	64					0	0	0.000602	0	0		G	57620221	G	G	57620221	2	3	209	1	0	0	0	0	0	0	0	1	18276	1538	54	5		5	ZXDB	23	57620221	Silent	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	2656157	57620221	97650339	1235	101650											
SPIN4	139886	broad.mit.edu	37	chrX	62570234	62570234	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaacaggatctttctcgtaGgtgatgtaaaaccaagtatc	14	11	9	7	1	2	2	0	1	2	1	4	3	2	3	1	2	2	3	1	2	6	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:62570234G>T	uc004dvf.2	-	1	985	c.465C>A	c.(463-465)ACC>ACA	p.T155T		NM_001012968	NP_001012986	Q56A73	SPIN4_HUMAN	spindlin family, member 4	155					gamete generation					ovary(1)|lung(1)	2						CTTTCTCGTAGGTGATGTAAA	0.448													38	28					1.71269e-34	1.96103e-34	0.004289	1	0		T	62570234	T	T	62570234	2	4	209	1	0	0	0	0	0	0	0	1	15081	987	35	5		5	SPIN4	23	62570234	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	4950013	62570234	92700326	1236	101651											
ARHGEF9	23229	broad.mit.edu	37	chrX	62893974	62893974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgtcaatattctctaaacGtcgcttgcgttcgttgatct	7	17	7	10	4	3	1	1	1	2	0	6	1	3	1	0	0	2	3	0	0	4	7			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:62893974G>A	uc004dvl.2	-	6	1707	c.868C>T	c.(868-870)CGT>TGT	p.R290C	ARHGEF9_uc004dvj.1_Missense_Mutation_p.R179C|ARHGEF9_uc004dvk.1_Missense_Mutation_p.R152C|ARHGEF9_uc011mos.1_Missense_Mutation_p.R269C|ARHGEF9_uc004dvm.1_Missense_Mutation_p.R269C|ARHGEF9_uc011mot.1_Missense_Mutation_p.R237C|ARHGEF9_uc004dvn.2_Missense_Mutation_p.R297C	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	290					apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						TTCTCTAAACGTCGCTTGCGT	0.453													4	37					0	0	0.009096	0	0		A	62893974	A	A	62893974	3	1	209	1	0	0	0	0	1	0	0	0	912	1145	40	1	702	1	ARHGEF9	23	62893974	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	323740	62893974	92376586	1237	101652											
EDA2R	60401	broad.mit.edu	37	chrX	65822496	65822496	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acgctggcaatgtctgttgaAgaactgcttgcagtagagga	11	10	13	7	1	1	3	0	1	1	2	1	4	1	4	0	2	3	6	0	2	4	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:65822496A>C	uc004dwq.2	-	4	507	c.496T>G	c.(496-498)TTC>GTC	p.F166V	EDA2R_uc004dwr.2_Missense_Mutation_p.F166V|EDA2R_uc004dws.2_Missense_Mutation_p.F166V|EDA2R_uc011mpb.1_Intron|EDA2R_uc011mpc.1_Intron|EDA2R_uc010nkt.1_Missense_Mutation_p.F166V|EDA2R_uc004dwt.1_Missense_Mutation_p.F166V	NM_021783	NP_068555	Q9HAV5	TNR27_HUMAN	X-linked ectodysplasin receptor	166	Cytoplasmic (Potential).				cell differentiation|embryo development|epidermis development|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity	integral to plasma membrane	tumor necrosis factor receptor activity			upper_aerodigestive_tract(1)	1						TGTCTGTTGAAGAACTGCTTG	0.532													6	7					0	0	0.001168	0	0		C	65822496	C	C	65822496	3	2	209	1	0	0	0	0	1	0	0	0	4910	72	3	5	405	5	EDA2R	23	65822496	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	2928522	65822496	89448064	1238	101653											
AR	367	broad.mit.edu	37	chrX	66765161	66765161	+	Missense_Mutation	SNP	A	T	T	1	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	cgccagtttgctgctgctgcAgcagcagcagcagcagcagc	8	6	13	14	1	0	0	0	0	0	0	0	0	0	0	1	0	11	11	1	0	0	1	rs5902610		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:66765161A>T	uc004dwu.1	+	1	1288	c.173A>T	c.(172-174)CAG>CTG	p.Q58L	AR_uc011mpd.1_Missense_Mutation_p.Q58L|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.Q58L	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	58	Modulating.|Poly-Gln.|Gln-rich.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	CTGCTGCTgcagcagcagcag	0.328									Androgen_Insensitivity_Syndrome				7	17					0	0	0.001984	0	0		T	66765161	T	T	66765161	3	4	209	1	0	0	0	0	1	0	0	0	836	188	7	5	175	5	AR	23	66765161	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	942665	66765161	88505399	1239	101654											
EFNB1	1947	broad.mit.edu	37	chrX	68059551	68059551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggaaaaccgggagggcGgtgtgtgccgcacacgcacc	8	4	17	12	4	0	0	0	0	0	0	0	2	0	2	3	5	2	3	3	5	2	0	rs28936069		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:68059551G>A	uc004dxd.3	+	3	1231	c.451G>A	c.(451-453)GGT>AGT	p.G151S	EFNB1_uc004dxe.2_Missense_Mutation_p.G151S	NM_004429	NP_004420	P98172	EFNB1_HUMAN	ephrin-B1 precursor	151	Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to plasma membrane|soluble fraction|synapse	ephrin receptor binding				0						CCGGGAGGGCGGTGTGTGCCG	0.562													5	12					0	0	0.001984	0	0		A	68059551	A	A	68059551	3	1	209	1	0	0	0	0	1	0	0	0	4961	1116	39	1	461	1	EFNB1	23	68059551	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1294390	68059551	87211009	1240	101655											
CDX4	1046	broad.mit.edu	37	chrX	72667577	72667577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctatgcatggatgcgcaagaCggtgcaggtgacgggtgagt	9	8	17	7	3	0	3	0	2	0	1	0	4	0	4	0	4	3	3	0	4	2	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:72667577C>T	uc011mqk.1	+	1	488	c.488C>T	c.(487-489)ACG>ATG	p.T163M		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	163						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					ATGCGCAAGACGGTGCAGGTG	0.627													11	26					0	0	0.00245	0	0		T	72667577	T	T	72667577	3	4	209	1	0	0	0	0	1	0	0	0	3187	536	19	1	490	1	CDX4	23	72667577	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	4608026	72667577	82602983	1241	101656											
TRMT2B	79979	broad.mit.edu	37	chrX	100277016	100277016	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaggacctctgatgaaaaaTtcctttacaatctccttctg	11	13	5	12	0	3	2	0	2	3	0	5	3	4	3	4	1	1	0	4	1	4	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:100277016T>A	uc004egq.2	-	8	1091	c.792A>T	c.(790-792)GAA>GAT	p.E264D	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Missense_Mutation_p.E264D|TRMT2B_uc004egs.2_Missense_Mutation_p.E264D|TRMT2B_uc004egt.2_Missense_Mutation_p.E264D|TRMT2B_uc004egu.2_Missense_Mutation_p.E145D|TRMT2B_uc004egv.2_Missense_Mutation_p.E219D	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	264							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TGATGAAAAATTCCTTTACAA	0.458													12	25					0	0	0.001855	0	0		A	100277016	A	A	100277016	3	1	209	1	0	0	0	0	1	0	0	0	16592	1490	52	5	746	5	TRMT2B	23	100277016	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	27609439	100277016	54993544	1242	101657											
HNRNPH2	3188	broad.mit.edu	37	chrX	100667763	100667763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggtctgatagatttggaagaGacctcaattactgtttttca	11	15	9	6	0	3	3	2	1	1	2	3	5	3	4	1	2	1	1	1	2	4	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:100667763G>A	uc004ehm.2	+	2	957	c.787G>A	c.(787-789)GAC>AAC	p.D263N	HNRNPH2_uc004ehn.2_Missense_Mutation_p.D263N	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	263	2 X 16 AA Gly-rich approximate repeats.				nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						ATTTGGAAGAGACCTCAATTA	0.478													27	27					0	0	0.004656	0	0		A	100667763	A	A	100667763	3	1	209	1	0	0	0	0	1	0	0	0	7283	942	33	4	789	4	HNRNPH2	23	100667763	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	390747	100667763	54602797	1243	101658											
RAB40AL	282808	broad.mit.edu	37	chrX	102192725	102192725	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaggtcagccctctgtgcaAtttcaacatcatagagtctt	10	13	8	10	0	5	2	3	1	2	1	5	2	5	2	1	1	3	1	1	1	3	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:102192725A>T	uc004ejs.2	+	1	526	c.479A>T	c.(478-480)AAT>ATT	p.N160I		NM_001031834	NP_001027004	P0C0E4	RB40L_HUMAN	RAB40A, member RAS oncogene family-like	160					protein transport|small GTPase mediated signal transduction	mitochondrion|plasma membrane	GTP binding			ovary(2)	2						CCTCTGTGCAATTTCAACATC	0.597													16	19					0	0	0.003163	0	0		T	102192725	T	T	102192725	3	4	209	1	0	0	0	0	1	0	0	0	12965	101	4	5	481	5	RAB40AL	23	102192725	Missense_Mutation	SNP	A	TCGA-HU-A4GN-01A-11D-A25D-08	1524962	102192725	53077835	1244	101659											
NGFRAP1	27018	broad.mit.edu	37	chrX	102632690	102632690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcagttgaggaattgtctgCgtatccttatgggggagctc	7	13	14	7	1	1	1	0	1	1	0	3	3	2	3	1	3	3	4	1	3	3	4			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:102632690C>T	uc004eki.2	+	3	653	c.271C>T	c.(271-273)CGT>TGT	p.R91C	NGFRAP1_uc004ekh.2_Missense_Mutation_p.R81C|NGFRAP1_uc004ekj.1_Missense_Mutation_p.R91C	NM_206915	NP_996798	Q00994	BEX3_HUMAN	nerve growth factor receptor (TNFRSF16)	91	Interaction with 14-3-3 epsilon (By similarity).|Interaction with p75NTR/NGFR (By similarity).				apoptosis|multicellular organismal development|nerve growth factor receptor signaling pathway	cytosol|nucleus	caspase regulator activity|metal ion binding				0						GAATTGTCTGCGTATCCTTAT	0.418													16	47					0	0	0.003163	0	0		T	102632690	T	T	102632690	3	4	209	1	0	0	0	0	1	0	0	0	10416	768	27	1	273	1	NGFRAP1	23	102632690	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	439965	102632690	52637870	1245	101660											
COL4A5	1287	broad.mit.edu	37	chrX	107867547	107867547	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggactgagtggacaacctgGattaccaggaccaccaggta	12	7	12	10	0	0	1	0	1	0	0	0	5	0	5	4	5	2	1	4	5	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:107867547G>A	uc004enz.1	+	34	3201	c.2999G>A	c.(2998-3000)GGA>GAA	p.G1000E	COL4A5_uc011mso.1_Missense_Mutation_p.G1000E|COL4A5_uc004eob.1_Missense_Mutation_p.G608E	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1000	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						GGACAACCTGGATTACCAGGA	0.448									Alport_syndrome_with_Diffuse_Leiomyomatosis				3	13					0	0	0.009096	0	0		A	107867547	A	A	107867547	3	1	209	1	0	0	0	0	1	0	0	0	3697	1174	41	4	3133	4	COL4A5	23	107867547	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	5234857	107867547	47403013	1246	101661											
SMARCA1	6594	broad.mit.edu	37	chrX	128615070	128615070	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctttggaatctttggctcGctgacacgcaaagcctctct	8	12	8	13	2	2	1	0	1	2	0	4	2	2	2	2	2	1	3	2	2	2	2	rs140963740		TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:128615070G>A	uc004eun.3	-	18	2423	c.2310C>T	c.(2308-2310)AGC>AGT	p.S770S	SMARCA1_uc004eup.3_Silent_p.S758S|SMARCA1_uc011muk.1_Silent_p.S770S|SMARCA1_uc011mul.1_Silent_p.S758S	NM_003069	NP_003060	P28370	SMCA1_HUMAN	SWI/SNF-related matrix-associated	770					ATP-dependent chromatin remodeling|brain development|neuron differentiation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	NURF complex	ATP binding|DNA binding|helicase activity|nucleosome binding|protein binding			ovary(3)|skin(1)	4						TCTTTGGCTCGCTGACACGCA	0.428													4	26					0	0	0.001168	0	0		A	128615070	A	A	128615070	2	1	209	1	0	0	0	0	0	0	0	1	14793	1078	38	1		1	SMARCA1	23	128615070	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	20747523	128615070	26655490	1247	101662											
ZDHHC9	51114	broad.mit.edu	37	chrX	128975838	128975838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgccgggccatcatgacGcggccatcacagcaaaaggt	10	8	11	12	3	2	1	2	1	0	0	2	1	2	1	3	3	2	1	3	3	2	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:128975838G>A	uc004euv.2	-	2	453	c.84C>T	c.(82-84)CGC>CGT	p.R28R	ZDHHC9_uc004euw.2_Silent_p.R28R|ZDHHC9_uc004eux.1_Silent_p.R28R|ZDHHC9_uc004euy.1_Intron	NM_001008222	NP_001008223	Q9Y397	ZDHC9_HUMAN	zinc finger, DHHC domain containing 9	28	Cytoplasmic (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1						CCATCATGACGCGGCCATCAC	0.507													28	58					0	0	0.004656	0	0		A	128975838	A	A	128975838	2	1	209	1	0	0	0	0	0	0	0	1	17647	1074	38	1		1	ZDHHC9	23	128975838	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	360768	128975838	26294722	1248	101663											
VGLL1	51442	broad.mit.edu	37	chrX	135631047	135631047	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgagcctctcctaagtctcCtccagcaagacagatgccta	10	9	8	14	0	2	3	0	1	2	2	5	3	3	3	5	0	3	1	5	0	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:135631047C>A	uc004ezy.2	+	3	684	c.514C>A	c.(514-516)CTC>ATC	p.L172I	MIR934_hsa-mir-934|MI0005756_5'Flank	NM_016267	NP_057351	Q99990	VGLL1_HUMAN	vestigial like 1	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	transcription coactivator activity				0	Acute lymphoblastic leukemia(192;0.000127)					CCTAAGTCTCCTCCAGCAAGA	0.597													41	42					4.14481e-20	4.71237e-20	0.00623	1	0		A	135631047	A	A	135631047	3	1	209	1	0	0	0	0	1	0	0	0	17184	681	24	5	520	5	VGLL1	23	135631047	Missense_Mutation	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	6655209	135631047	19639513	1249	101664											
F9	2158	broad.mit.edu	37	chrX	138643010	138643010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtgttaaaattacagttgtCgcaggtaaatacacagaaag	16	10	10	5	1	0	1	0	0	0	1	1	1	0	1	0	2	2	4	0	2	7	5			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:138643010C>T	uc004fas.1	+	7	863	c.834C>T	c.(832-834)GTC>GTT	p.V278V	F9_uc004fat.1_Silent_p.V240V	NM_000133	NP_000124	P00740	FA9_HUMAN	coagulation factor IX preproprotein	278	Peptidase S1.				blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen|plasma membrane	calcium ion binding|serine-type endopeptidase activity			lung(2)|ovary(1)	3	Acute lymphoblastic leukemia(192;0.000127)				Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Heparin(DB01109)|Menadione(DB00170)	TTACAGTTGTCGCAGGTAAAT	0.353													12	31					0	0	0.010729	0	0		T	138643010	T	T	138643010	2	4	209	1	0	0	0	0	0	0	0	1	5362	871	31	1		1	F9	23	138643010	Silent	SNP	C	TCGA-HU-A4GN-01A-11D-A25D-08	3011963	138643010	16627550	1250	101665											
MCF2	4168	broad.mit.edu	37	chrX	138678778	138678779	+	Frame_Shift_Ins	INS	-	A	A																															actttcaacacgccttttgcINSaaaaaacaatggctttttca																										TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:138678778_138678779insA	uc004fau.2	-	19	2500_2501	c.2206_2207insT	c.(2206-2208)TGCfs	p.C736fs	MCF2_uc004fav.2_Frame_Shift_Ins_p.C752fs|MCF2_uc011mwl.1_Frame_Shift_Ins_p.C713fs|MCF2_uc010nsh.1_Frame_Shift_Ins_p.C736fs|MCF2_uc011mwm.1_Frame_Shift_Ins_p.C697fs|MCF2_uc011mwn.1_Frame_Shift_Ins_p.C881fs|MCF2_uc004faw.2_Frame_Shift_Ins_p.C796fs|MCF2_uc011mwo.1_Frame_Shift_Ins_p.C812fs	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	736	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ACGCCTTTTGCAAAAAACAATG	0.391													23	26	---	---	---	---						.	A	138678779	A	A	138678778	7	5	209	1	0	1	1	0	0	0	0	0	9396	710	25	0	626	0	MCF2	23	138678778	Frame_Shift_Ins	INS	-	TCGA-HU-A4GN-01A-11D-A25D-08	35768	138678778	16591782	1251	101666											
MAGEA5	4104	broad.mit.edu	37	chrX	151283727	151283727	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctgggtcaggggaggtgcTtggcccctcctcttcttggt	2	13	14	12	0	4	0	1	0	3	0	5	1	5	1	3	6	1	1	3	6	0	3			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:151283727T>C	uc004ffj.2	-	3	491	c.286A>G	c.(286-288)AGC>GGC	p.S96G		NM_021049	NP_066387	P43359	MAGA5_HUMAN	melanoma antigen family A, 5	96	MAGE.										0	Acute lymphoblastic leukemia(192;6.56e-05)					GGGGAGGTGCTTGGCCCCTCC	0.537													22	45					0	0	0.014323	0	0		C	151283727	C	C	151283727	3	2	209	1	0	0	0	0	1	0	0	0	9187	1609	56	3	92	3	MAGEA5	23	151283727	Missense_Mutation	SNP	T	TCGA-HU-A4GN-01A-11D-A25D-08	12604949	151283727	3986833	1252	101667											
FAM58A	92002	broad.mit.edu	37	chrX	152858040	152858040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggccaggtagagcaccGccacggcgatgtgctgggcc	7	4	17	13	3	0	1	0	0	0	1	0	2	0	1	4	4	2	4	4	4	1	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:152858040G>A	uc010nug.2	-	3	498	c.395C>T	c.(394-396)GCG>GTG	p.A132V				Q8N1B3	FA58A_HUMAN	RecName: Full=Cyclin-related protein FAM58B;	194					regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent		protein kinase binding				0	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GTAGAGCACCGCCACGGCGAT	0.692													15	15					0	0	0.004007	0	0		A	152858040	A	A	152858040	3	1	209	1	0	0	0	0	1	0	0	0	5604	1087	38	1	173	1	FAM58A	23	152858040	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	1574313	152858040	2412520	1253	101668											
HCFC1	3054	broad.mit.edu	37	chrX	153220523	153220523	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcccgtctcgtgggtctcGcagggtgggtttgagcagcc	3	10	17	11	3	2	1	0	1	2	0	4	1	2	1	2	3	3	3	2	3	0	1			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrX:153220523G>A	uc004fjp.2	-	17	3855	c.3327C>T	c.(3325-3327)TGC>TGT	p.C1109C		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1109	HCF repeat 3.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	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)					CGTGGGTCTCGCAGGGTGGGT	0.572													3	7					0	0	0.004672	0	0		A	153220523	A	A	153220523	2	1	209	1	0	0	0	0	0	0	0	1	7007	1079	38	1		1	HCFC1	23	153220523	Silent	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08	362483	153220523	2050037	1254	101669											
PCDH11Y	83259	broad.mit.edu	37	chrY	4967202	4967202	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcaacggatgcagacagtgGgcctaatgctgagatcaatt	12	9	12	8	1	1	2	1	1	0	2	1	4	1	3	1	2	4	3	1	2	3	2			TCGA-HU-A4GN-01A-11D-A25D-08	TCGA-HU-A4GN-11A-12D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	bd0249c5-ed73-4e8d-9b9e-96104b90255a	e3517554-28f1-493e-aee3-84b27d3ce456	g.chrY:4967202G>T	uc004fqo.2	+	2	2317	c.1583G>T	c.(1582-1584)GGG>GTG	p.G528V	PCDH11Y_uc010nwg.1_Missense_Mutation_p.G517V|PCDH11Y_uc004fql.1_Missense_Mutation_p.G517V|PCDH11Y_uc004fqm.1_Missense_Mutation_p.G517V|PCDH11Y_uc004fqn.1_Missense_Mutation_p.G528V|PCDH11Y_uc004fqp.1_Missense_Mutation_p.G299V	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	protocadherin 11 Y-linked isoform c	528	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						GCAGACAGTGGGCCTAATGCT	0.473													9	36					0.000274275	0.000287326	0.004482	1	0		T	4967202	T	T	4967202	3	4	209	1	0	0	0	0	1	0	0	0	11528	1232	43	5	1625	5	PCDH11Y	24	4967202	Missense_Mutation	SNP	G	TCGA-HU-A4GN-01A-11D-A25D-08		4967202	54406364	1255	101670											
AGRN	375790	broad.mit.edu	37	chr1	978821	978821	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgggagatccaggtggcGcgcaaaggaccctgtggtca	8	5	18	10	3	1	1	1	0	0	1	2	3	2	2	2	6	0	1	2	6	1	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:978821G>A	uc001ack.1	+	8	1637	c.1587G>A	c.(1585-1587)GCG>GCA	p.A529A		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	529	Kazal-like 5.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	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)		TCCAGGTGGCGCGCAAAGGAC	0.687													7	10					0	0	0.004482	0	0		A	978821	A	A	978821	2	1	210	1	0	0	0	0	0	0	0	1	397	1074	38	1		1	AGRN	1	978821	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		978821	248271800	1	101671											
ACAP3	116983	broad.mit.edu	37	chr1	1235945	1235945	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcctggtgagggtgagggCcccggtggcttcctccacct	3	10	14	14	1	0	2	0	2	0	0	3	2	3	2	6	5	0	1	6	5	0	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:1235945C>A	uc001aeb.2	-	6	540	c.466G>T	c.(466-468)GCC>TCC	p.A156S	ACAP3_uc001ady.2_5'Flank|ACAP3_uc001aea.2_Missense_Mutation_p.A114S|ACAP3_uc001aec.1_Missense_Mutation_p.A114S	NM_030649	NP_085152	Q96P50	ACAP3_HUMAN	ArfGAP with coiled-coil, ankyrin repeat and PH	156					filopodium assembly|regulation of ARF GTPase activity|signal transduction		ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding				0						AGGGTGAGGGCCCCGGTGGCT	0.677													13	29					0.00136819	0.00142404	0.013537	1	0		A	1235945	A	A	1235945	3	1	210	1	0	0	0	0	1	0	0	0	120	739	26	5	2114	5	ACAP3	1	1235945	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	257124	1235945	248014676	2	101672											
PRAMEF1	65121	broad.mit.edu	37	chr1	12853478	12853478	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggaggagctgcccagggtGctctatctcccactcttcat	7	11	10	13	0	4	0	1	0	3	0	5	2	4	2	2	3	3	2	2	3	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:12853478G>T	uc001auj.1	+	2	205	c.102G>T	c.(100-102)GTG>GTT	p.V34V		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	34											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGCCCAGGGTGCTCTATCTCC	0.612													78	108					1.58458e-29	1.95202e-29	0.01441	1	0		T	12853478	T	T	12853478	2	4	210	1	0	0	0	0	0	0	0	1	12447	1306	46	5		5	PRAMEF1	1	12853478	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	11617533	12853478	236397143	3	101673											
PRAMEF2	65122	broad.mit.edu	37	chr1	12920109	12920109	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcaccttcttcagtgggcaCctggaacagctgatcaggtg	9	10	11	11	0	4	1	3	1	1	0	4	2	4	2	2	3	2	2	2	3	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:12920109C>T	uc001aum.1	+	3	936	c.849C>T	c.(847-849)CAC>CAT	p.H283H		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	283											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;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)		TCAGTGGGCACCTGGAACAGC	0.463													10	106					0	0	0.006214	0	0		T	12920109	T	T	12920109	2	4	210	1	0	0	0	0	0	0	0	1	12457	506	18	4		4	PRAMEF2	1	12920109	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	66631	12920109	236330512	4	101674											
PRAMEF2	65122	broad.mit.edu	37	chr1	12920128	12920128	+	Splice_Site	SNP	T	C	C	0	1	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	acctggaacagctgatcaggTgagaaaggattgtgcacttt	12	10	12	7	0	1	2	1	2	0	1	1	5	1	4	1	3	3	2	1	3	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:12920128T>C	uc001aum.1	+	3	953	c.866_splice	c.e3+2	p.R289_splice		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2												0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;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)		GCTGATCAGGTGAGAAAGGAT	0.478													8	99					0	0	0.00308	0	0		C	12920128	C	C	12920128	5	2	210	1	0	0	0	0	0	0	1	0	12457	1710	59	3	874	3	PRAMEF2	1	12920128	Splice_Site	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	19	12920128	236330493	5	101675											
ZMYM1	79830	broad.mit.edu	37	chr1	35563024	35563025	+	Frame_Shift_Ins	INS	-	A	A																															aggtttcctgtgctggttgtINSaaaaaaattctccagaaggg																										TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:35563024_35563025insA	uc001bym.2	+	5	424_425	c.276_277insA	c.(274-279)TGTAAAfs	p.C92fs	ZMYM1_uc001byl.1_Frame_Shift_Ins_p.C92fs|ZMYM1_uc009vus.1_RNA|ZMYM1_uc001byn.2_Frame_Shift_Ins_p.C92fs|ZMYM1_uc010ohu.1_Frame_Shift_Ins_p.C92fs|ZMYM1_uc001byo.2_5'UTR|ZMYM1_uc009vut.2_Frame_Shift_Ins_p.C17fs	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	92_93						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GTGCTGGTTGTAAAAAAATTCT	0.436													62	109	---	---	---	---						.	A	35563025	A	A	35563024	7	5	210	1	0	1	1	0	0	0	0	0	17724	1644	57	0	286	0	ZMYM1	1	35563024	Frame_Shift_Ins	INS	-	TCGA-HU-A4GP-01A-11D-A25D-08	22642896	35563024	213687597	6	101676											
ELAVL4	1996	broad.mit.edu	37	chr1	50659454	50659454	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taggtctcatatgcccgtccGagctctgcctcaatcaggga	8	10	10	13	2	4	0	3	0	2	0	6	2	5	1	3	2	3	1	3	2	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:50659454G>A	uc001csb.2	+	4	640	c.372G>A	c.(370-372)CCG>CCA	p.P124P	ELAVL4_uc001cry.3_Silent_p.P127P|ELAVL4_uc001crz.3_Silent_p.P124P|ELAVL4_uc001csa.3_Silent_p.P141P|ELAVL4_uc001csc.3_Silent_p.P124P|ELAVL4_uc009vyu.2_Silent_p.P129P|ELAVL4_uc010omz.1_Silent_p.P129P	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	124	RRM 1.				mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2						ATGCCCGTCCGAGCTCTGCCT	0.502													37	60					0	0	0.004289	0	0		A	50659454	A	A	50659454	2	1	210	1	0	0	0	0	0	0	0	1	5060	1045	37	1		1	ELAVL4	1	50659454	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	15096430	50659454	198591167	7	101677											
PODN	127435	broad.mit.edu	37	chr1	53544373	53544373	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagatcacaggcattggccgCgaagactttgccaccaccta	11	7	9	14	2	1	2	1	0	0	2	1	3	1	2	4	2	1	1	4	2	2	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:53544373C>T	uc001cuv.2	+	8	1342	c.1335C>T	c.(1333-1335)CGC>CGT	p.R445R	PODN_uc001cuw.2_Silent_p.R426R|PODN_uc010onr.1_Silent_p.R426R|PODN_uc010ons.1_Silent_p.R303R	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	397	LRR 13.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding	p.R445H(1)		ovary(1)|pancreas(1)	2						GCATTGGCCGCGAAGACTTTG	0.642													52	73					0	0	0.01441	0	0		T	53544373	T	T	53544373	2	4	210	1	0	0	0	0	0	0	0	1	12197	755	27	1		1	PODN	1	53544373	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	2884919	53544373	195706248	8	101678											
LEPR	3953	broad.mit.edu	37	chr1	66085680	66085680	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatggaaggagtgggaaaacCaaagataattaatagtttca	18	10	10	3	0	1	1	1	0	0	1	1	4	1	4	1	3	1	1	1	3	8	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:66085680C>A	uc001dci.2	+	17	2667	c.2465C>A	c.(2464-2466)CCA>CAA	p.P822Q	LEPR_uc001dcg.2_Missense_Mutation_p.P822Q|LEPR_uc001dch.2_Missense_Mutation_p.P822Q|LEPR_uc009waq.2_Intron|LEPR_uc001dcj.2_Missense_Mutation_p.P822Q|LEPR_uc001dck.2_Missense_Mutation_p.P822Q	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	822	Extracellular (Potential).|Fibronectin type-III 4.				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		GTGGGAAAACCAAAGATAATT	0.328													6	40					0.00116845	0.00122112	0.001168	1	0		A	66085680	A	A	66085680	3	1	210	1	0	0	0	0	1	0	0	0	8744	594	21	5	2523	5	LEPR	1	66085680	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	12541307	66085680	183164941	9	101679											
GBP1	2633	broad.mit.edu	37	chr1	89523769	89523769	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctacttgttgcacaaattcGgggtccagctcttcatcttg	7	14	9	11	1	3	0	1	0	2	0	5	0	4	0	1	2	3	4	1	2	2	6	rs1048410		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:89523769G>T	uc001dmx.2	-	6	1000	c.780C>A	c.(778-780)CCC>CCA	p.P260P		NM_002053	NP_002044	P32455	GBP1_HUMAN	guanylate binding protein 1,	260					interferon-gamma-mediated signaling pathway	plasma membrane	GTP binding|GTPase activity			ovary(1)|skin(1)	2		Lung NSC(277;0.123)		all cancers(265;0.0156)|Epithelial(280;0.0291)		GCACAAATTCGGGGTCCAGCT	0.458													25	218					5.35356e-11	6.12178e-11	0.016522	1	0		T	89523769	T	T	89523769	2	4	210	1	0	0	0	0	0	0	0	1	6288	1103	39	5		5	GBP1	1	89523769	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	23438089	89523769	159726852	10	101680											
GFI1	2672	broad.mit.edu	37	chr1	92949026	92949026	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgagccttcttgcttttgaCgagaaatgagcgcggcatgg	8	11	14	8	3	1	4	0	3	1	1	1	5	1	4	1	2	3	2	1	2	1	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:92949026C>T	uc001dou.3	-	2	183	c.19G>A	c.(19-21)GTC>ATC	p.V7I	GFI1_uc001dov.3_Missense_Mutation_p.V7I|GFI1_uc001dow.3_Missense_Mutation_p.V7I	NM_001127215	NP_001120687	Q99684	GFI1_HUMAN	growth factor independent 1	7					negative regulation of calcidiol 1-monooxygenase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription involved in G1/S phase of mitotic cell cycle|transcription, DNA-dependent|viral reproduction	nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(1)	1		all_lung(203;0.00292)|Lung NSC(277;0.0115)|all_neural(321;0.185)|Glioma(108;0.203)		OV - Ovarian serous cystadenocarcinoma(397;9.04e-07)|Epithelial(280;1.17e-05)|all cancers(265;5.61e-05)|GBM - Glioblastoma multiforme(16;0.0191)		TTGCTTTTGACGAGAAATGAG	0.627													8	16					0	0	0.004482	0	0		T	92949026	T	T	92949026	3	4	210	1	0	0	0	0	1	0	0	0	6354	536	19	1	1273	1	GFI1	1	92949026	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	3425257	92949026	156301595	11	101681											
LCE3A	353142	broad.mit.edu	37	chr1	152595412	152595412	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggcaacggcaacggtgagaCctgcggcatctgtggtgact	8	8	15	10	3	1	2	0	2	1	1	1	3	1	2	1	5	3	3	1	5	2	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:152595412C>T	uc010pdt.1	-	1	168	c.168G>A	c.(166-168)AGG>AGA	p.R56R		NM_178431	NP_848518	Q5TA76	LCE3A_HUMAN	late cornified envelope 3A	56					keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			AACGGTGAGACCTGCGGCATC	0.652													46	51					0	0	0.01441	0	0		T	152595412	T	T	152595412	2	4	210	1	0	0	0	0	0	0	0	1	8685	506	18	4		4	LCE3A	1	152595412	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	59646386	152595412	96655209	12	101682											
IL6R	3570	broad.mit.edu	37	chr1	154437709	154437709	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccggagaggcctcgaccCaccccagtgcttgttcctct	5	9	10	17	2	1	1	0	0	1	1	4	3	3	1	6	2	1	2	6	2	0	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:154437709C>T	uc001fez.1	+	10	1697	c.1260C>T	c.(1258-1260)CCC>CCT	p.P420P	IL6R_uc001ffa.1_3'UTR	NM_000565	NP_000556	P08887	IL6RA_HUMAN	interleukin 6 receptor isoform 1 precursor	420	Cytoplasmic (Potential).				acute-phase response|ciliary neurotrophic factor-mediated signaling pathway|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|endocrine pancreas development|hepatic immune response|negative regulation of collagen biosynthetic process|negative regulation of interleukin-8 production|positive regulation of activation of Janus kinase activity|positive regulation of anti-apoptosis|positive regulation of chemokine production|positive regulation of chemokine production|positive regulation of interleukin-6 production|positive regulation of leukocyte chemotaxis|positive regulation of MAPKKK cascade|positive regulation of osteoblast differentiation|positive regulation of smooth muscle cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of apoptosis	apical plasma membrane|basolateral plasma membrane|extracellular space|interleukin-6 receptor complex	ciliary neurotrophic factor binding|enzyme binding|protein homodimerization activity			ovary(3)|breast(1)	4	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			GGCCTCGACCCACCCCAGTGC	0.622													36	71					0	0	0.015359	0	0		T	154437709	T	T	154437709	2	4	210	1	0	0	0	0	0	0	0	1	7718	581	21	4		4	IL6R	1	154437709	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	1842297	154437709	94812912	13	101683											
CD5L	922	broad.mit.edu	37	chr1	157803062	157803062	+	Missense_Mutation	SNP	T	A	A	0	1	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	gctggcactgctccagggacTgctcctcccctgagcaacga	7	7	11	16	1	0	1	0	1	0	0	3	3	3	2	4	2	4	5	4	2	1	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:157803062T>A	uc001frk.3	-	5	1102	c.959A>T	c.(958-960)CAG>CTG	p.Q320L		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	320	SRCR 3.				apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CTCCAGGGACTGCTCCTCCCC	0.572													41	85					0	0	0.006999	0	0		A	157803062	A	A	157803062	3	1	210	1	0	0	0	0	1	0	0	0	3030	1580	55	5	92	5	CD5L	1	157803062	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	3365353	157803062	91447559	14	101684											
ATP1B1	481	broad.mit.edu	37	chr1	169096600	169096600	+	RNA	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctacaaagagggcaaacCgtgcattattataaagctca	15	9	9	8	1	1	1	1	0	0	1	1	1	1	1	1	2	4	4	1	2	7	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:169096600C>T	uc001gfs.1	+	4		c.642C>T			uc010plp.1_5'Flank			P05026	AT1B1_HUMAN	Synthetic construct DNA, clone: pF1KB8186, Homo sapiens ATP1B1 gene for ATPase, Na+/K+ transporting, beta 1 polypeptide, without stop codon, in Flexi system.						ATP biosynthetic process|blood coagulation|leukocyte migration	sodium:potassium-exchanging ATPase complex	protein binding|sodium:potassium-exchanging ATPase activity			ovary(1)	1	all_hematologic(923;0.208)					GAGGGCAAACCGTGCATTATT	0.378													38	50					0	0	0.004878	0	0		T	169096600	T	T	169096600	1	4	210	0	1	0	0	0	0	0	0	0	1133	652	23	1		1	ATP1B1	1	169096600	RNA	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	11293538	169096600	80154021	15	101685											
KIF14	9928	broad.mit.edu	37	chr1	200567489	200567489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catctcagatagttgtggatCttcattcagattaacaaggt	12	14	8	7	0	4	2	3	0	2	2	5	3	4	3	0	2	1	1	0	2	3	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:200567489C>T	uc010ppk.1	-	14	2864	c.2425G>A	c.(2425-2427)GAT>AAT	p.D809N	KIF14_uc010ppj.1_Missense_Mutation_p.D318N	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	809					microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						AGTTGTGGATCTTCATTCAGA	0.328													33	39					0	0	0.013726	0	0		T	200567489	T	T	200567489	3	4	210	1	0	0	0	0	1	0	0	0	8292	913	32	4	2589	4	KIF14	1	200567489	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	31470889	200567489	48683132	16	101686											
ADORA1	134	broad.mit.edu	37	chr1	203134855	203134855	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccacaagcccagcatccttAcctacattgccatcttcctc	9	10	4	18	0	1	0	0	0	1	0	4	0	3	0	6	0	5	1	6	0	3	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:203134855A>C	uc001gze.1	+	4	1241	c.808A>C	c.(808-810)ACC>CCC	p.T270P	FMOD_uc010pqi.1_Intron|ADORA1_uc001gzf.1_Missense_Mutation_p.T270P|ADORA1_uc010pqg.1_Missense_Mutation_p.T202P|ADORA1_uc009xak.1_Missense_Mutation_p.Y195S|ADORA1_uc010pqh.1_Missense_Mutation_p.T303P	NM_000674	NP_000665	P30542	AA1R_HUMAN	adenosine A1 receptor	270	Helical; Name=7; (Potential).				induction of apoptosis by extracellular signals|inflammatory response|nervous system development|phagocytosis	integral to plasma membrane				large_intestine(1)	1					Aminophylline(DB01223)|Caffeine(DB00201)|Defibrotide(DB04932)|Gabapentin(DB00996)|Imipramine(DB00458)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CAGCATCCTTACCTACATTGC	0.557													40	73					0	0	0.007835	0	0		C	203134855	C	C	203134855	3	2	210	1	0	0	0	0	1	0	0	0	326	391	14	5	814	5	ADORA1	1	203134855	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	2567366	203134855	46115766	17	101687											
MARK1	4139	broad.mit.edu	37	chr1	220835358	220835358	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cttttctgtgtccatggagaCgctagacaggatagcctcgt	8	12	11	10	2	1	2	0	0	1	2	3	4	2	3	2	2	1	1	2	2	2	4	rs141632214		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:220835358C>T	uc001hmn.3	+	18	2835	c.2238C>T	c.(2236-2238)GAC>GAT	p.D746D	MARK1_uc009xdw.2_Silent_p.D747D|MARK1_uc010pun.1_Silent_p.D731D|MARK1_uc001hmm.3_Silent_p.D709D	NM_018650	NP_061120	Q9P0L2	MARK1_HUMAN	MAP/microtubule affinity-regulating kinase 1	746	KA1.				intracellular protein kinase cascade	cytoplasm|microtubule cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(4)|central_nervous_system(2)|skin(2)|stomach(1)|lung(1)	10				GBM - Glioblastoma multiforme(131;0.0407)		TCCATGGAGACGCTAGACAGG	0.438													50	26					0	0	0.01441	0	0		T	220835358	T	T	220835358	2	4	210	1	0	0	0	0	0	0	0	1	9330	535	19	1		1	MARK1	1	220835358	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	17700503	220835358	28415263	18	101688											
OBSCN	84033	broad.mit.edu	37	chr1	228432152	228432152	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgagctccagctcaaaagtgGgcatggaggtcaaagggtgc	11	7	15	8	0	2	1	2	1	0	0	3	2	3	2	1	4	3	3	1	4	3	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:228432152G>T	uc009xez.1	+	11	3405	c.3361G>T	c.(3361-3363)GGC>TGC	p.G1121C	OBSCN_uc001hsn.2_Missense_Mutation_p.G1121C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1121	Ig-like 11.		G -> R.		apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CTCAAAAGTGGGCATGGAGGT	0.637													12	73					2.27111e-07	2.48555e-07	0.013537	1	0		T	228432152	T	T	228432152	3	4	210	1	0	0	0	0	1	0	0	0	10831	1232	43	5	3399	5	OBSCN	1	228432152	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	7596794	228432152	20818469	19	101689											
LYST	1130	broad.mit.edu	37	chr1	235973152	235973152	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaaagagcatcctttgaatCaaagccaccggttcttcggt	11	10	9	11	3	2	2	1	1	1	1	4	3	3	2	3	2	2	2	3	2	3	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:235973152C>A	uc001hxj.2	-	5	1141	c.966G>T	c.(964-966)TTG>TTT	p.L322F	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.L322F	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	322					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TCCTTTGAATCAAAGCCACCG	0.443									Chediak-Higashi_syndrome				4	40					0.00024832	0.00026384	0.009096	1	0		A	235973152	A	A	235973152	3	1	210	1	0	0	0	0	1	0	0	0	9146	825	29	5	10635	5	LYST	1	235973152	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	7541000	235973152	13277469	20	101690											
RYR2	6262	broad.mit.edu	37	chr1	237947996	237947996	+	Silent	SNP	A	G	G	1	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	gctaaaaagatcaaagttgcAgaactgttagccaacatgcc	16	8	8	9	0	1	2	1	0	0	2	1	2	1	2	2	0	5	4	2	0	7	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr1:237947996A>G	uc001hyl.1	+	90	13104	c.12984A>G	c.(12982-12984)GCA>GCG	p.A4328A	RYR2_uc010pya.1_Silent_p.A743A	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4328					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			TCAAAGTTGCAGAACTGTTAG	0.562													5	54					0	0	0.014758	0	0		G	237947996	G	G	237947996	2	3	210	1	0	0	0	0	0	0	0	1	13794	175	7	3		3	RYR2	1	237947996	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	1974844	237947996	11302625	21	101691											
COLEC11	78989	broad.mit.edu	37	chr2	3691470	3691470	+	Missense_Mutation	SNP	T	A	A	0	1	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	tggcctgatggccgcataccTggcgcaagccggcctggccc	5	6	14	16	3	0	1	0	1	0	0	0	1	0	1	6	5	2	2	6	5	2	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:3691470T>A	uc002qya.2	+	7	726	c.578T>A	c.(577-579)CTG>CAG	p.L193Q	COLEC11_uc002qxz.2_Missense_Mutation_p.L190Q|COLEC11_uc002qyb.2_Missense_Mutation_p.L169Q|COLEC11_uc002qyc.2_Missense_Mutation_p.L169Q|COLEC11_uc010ewo.2_Missense_Mutation_p.L145Q|COLEC11_uc010ewp.2_Missense_Mutation_p.L167Q|COLEC11_uc010ewq.2_Missense_Mutation_p.L143Q|COLEC11_uc010ewr.2_Missense_Mutation_p.L143Q|COLEC11_uc010ews.2_Missense_Mutation_p.L119Q	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	193	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		GCCGCATACCTGGCGCAAGCC	0.667													6	75					0	0	0.001168	0	0		A	3691470	A	A	3691470	3	1	210	1	0	0	0	0	1	0	0	0	3714	1580	55	5	683	5	COLEC11	2	3691470	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08		3691470	239507903	22	101692											
CCDC85A	114800	broad.mit.edu	37	chr2	56419955	56419955	+	Missense_Mutation	SNP	T	A	A	0	1	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	cgcaccctacgtgcgggatgTgggtgacggcagcagcacct	7	6	15	13	4	0	1	0	1	0	0	0	2	0	2	2	3	4	4	2	3	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:56419955T>A	uc002rzn.2	+	2	1122	c.620T>A	c.(619-621)GTG>GAG	p.V207E		NM_001080433	NP_001073902	Q96PX6	CC85A_HUMAN	coiled-coil domain containing 85A	207										breast(3)|ovary(2)	5			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			GTGCGGGATGTGGGTGACGGC	0.682													10	78					0	0	0.008291	0	0		A	56419955	A	A	56419955	3	1	210	1	0	0	0	0	1	0	0	0	2862	1696	59	5	626	5	CCDC85A	2	56419955	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	52728485	56419955	186779418	23	101693											
SLC35F5	80255	broad.mit.edu	37	chr2	114500332	114500332	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gtaagtttccccacagttttCagtatggattcttgttcttt	7	19	7	8	0	3	0	1	0	2	0	4	1	4	1	2	1	0	5	2	1	2	9			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:114500332C>G	uc002tku.1	-	7	1111	c.687G>C	c.(685-687)CTG>CTC	p.L229L	SLC35F5_uc002tkt.2_RNA|SLC35F5_uc002tkv.2_Silent_p.L223L|SLC35F5_uc002tkw.2_Silent_p.L229L	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	229					transport	integral to membrane					0						CCACAGTTTTCAGTATGGATT	0.373													10	131					0	0	0.008291	0	0		G	114500332	G	G	114500332	2	3	210	1	0	0	0	0	0	0	0	1	14617	813	29	5		5	SLC35F5	2	114500332	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	58080377	114500332	128699041	24	101694											
ACTR3	10096	broad.mit.edu	37	chr2	114699799	114699799	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcccagatttagtaaaaGaatttaacaagtatgataca	17	12	6	6	0	1	3	0	1	1	2	1	3	1	3	1	0	3	2	1	0	8	7			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:114699799G>T	uc002tkx.1	+	8	1041	c.721G>T	c.(721-723)GAA>TAA	p.E241*	ACTR3_uc010yyc.1_Nonsense_Mutation_p.E179*|ACTR3_uc010yyd.1_Nonsense_Mutation_p.E190*	NM_005721	NP_005712	P61158	ARP3_HUMAN	ARP3 actin-related protein 3 homolog	241					cellular component movement|cilium morphogenesis	Arp2/3 protein complex	actin binding|ATP binding			skin(1)	1						TTTAGTAAAAGAATTTAACAA	0.318													24	48					2.39556e-15	2.80215e-15	0.016522	1	0		T	114699799	T	T	114699799	4	4	210	1	0	0	0	0	0	1	0	0	212	943	33	5	751	5	ACTR3	2	114699799	Nonsense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	199467	114699799	128499574	25	101695											
ERCC3	2071	broad.mit.edu	37	chr2	128044384	128044384	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttttggtggtgtggcccaGcatggagtaggtgctaatgg	6	12	16	7	0	0	0	0	0	0	0	0	1	0	1	2	6	2	3	2	6	2	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:128044384G>T	uc002toh.1	-	8	1332	c.1237C>A	c.(1237-1239)CTG>ATG	p.L413M	ERCC3_uc002toe.1_Missense_Mutation_p.L168M|ERCC3_uc002tof.1_Missense_Mutation_p.L349M|ERCC3_uc002tog.1_Missense_Mutation_p.L349M|ERCC3_uc010flx.1_Missense_Mutation_p.L168M	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	413	Helicase ATP-binding.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		GTGTGGCCCAGCATGGAGTAG	0.592			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				35	69					2.42023e-17	2.88392e-17	0.015359	1	0		T	128044384	T	T	128044384	3	4	210	1	0	0	0	0	1	0	0	0	5222	962	34	5	1143	5	ERCC3	2	128044384	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	13344585	128044384	115154989	26	101696											
TBR1	10716	broad.mit.edu	37	chr2	162274729	162274729	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taggaaatcgggtctatatgCatccggattcccccaacact	11	10	8	12	2	1	0	0	0	1	0	4	2	3	2	3	3	2	1	3	3	5	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:162274729C>A	uc002ubw.1	+	3	1167	c.865C>A	c.(865-867)CAT>AAT	p.H289N	TBR1_uc010foy.2_Missense_Mutation_p.H2N	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	289	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						GGTCTATATGCATCCGGATTC	0.428													5	46					1.23904e-05	1.33879e-05	0.014758	1	0		A	162274729	A	A	162274729	3	1	210	1	0	0	0	0	1	0	0	0	15672	710	25	5	875	5	TBR1	2	162274729	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	34230345	162274729	80924644	27	101697											
XIRP2	129446	broad.mit.edu	37	chr2	168104063	168104063	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taattcacaccataaatctaAtgttttggaatcaggagaca	16	12	6	7	0	3	1	2	0	1	1	3	3	3	2	1	2	0	1	1	2	5	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:168104063A>C	uc002udx.2	+	8	6179	c.6161A>C	c.(6160-6162)AAT>ACT	p.N2054T	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.N1879T|XIRP2_uc010fpq.2_Missense_Mutation_p.N1832T|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1879					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CATAAATCTAATGTTTTGGAA	0.393													12	30					0	0	0.010729	0	0		C	168104063	C	C	168104063	3	2	210	1	0	0	0	0	1	0	0	0	17456	101	4	5	6191	5	XIRP2	2	168104063	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	5829334	168104063	75095310	28	101698											
KBTBD10	10324	broad.mit.edu	37	chr2	170366712	170366712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctagccatcctaagattaGgacttcttcttgactgcccg	8	13	8	12	1	3	2	0	1	3	1	4	3	4	3	3	1	2	0	3	1	3	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:170366712G>A	uc002ueu.1	+	1	501	c.424G>A	c.(424-426)GGA>AGA	p.G142R	KBTBD10_uc010zdh.1_Intron	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	142					striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						CCTAAGATTAGGACTTCTTCT	0.458													12	189					0	0	0.010729	0	0		A	170366712	A	A	170366712	3	1	210	1	0	0	0	0	1	0	0	0	8006	1001	35	4	426	4	KBTBD10	2	170366712	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	2262649	170366712	72832661	29	101699											
SF3B1	23451	broad.mit.edu	37	chr2	198263275	198263275	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggtgagtctaggcagcagaTctttaattggtggagtcatc	9	12	14	6	0	3	2	1	1	2	1	4	3	3	3	0	4	1	2	0	4	2	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:198263275T>C	uc002uue.2	-	21	3092	c.3044A>G	c.(3043-3045)GAT>GGT	p.D1015G		NM_012433	NP_036565	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1 isoform 1	1015	HEAT 8.				nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding			pancreas(3)|ovary(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.246)			AGGCAGCAGATCTTTAATTGG	0.353													7	97					0	0	0.00308	0	0		C	198263275	C	C	198263275	3	2	210	1	0	0	0	0	1	0	0	0	14174	1435	50	3	890	3	SF3B1	2	198263275	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	27896563	198263275	44936098	30	101700											
TMEM169	92691	broad.mit.edu	37	chr2	216964986	216964986	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accttctggcacaagatctcGtattgcccttgcctcgttct	6	14	7	14	2	3	1	0	0	3	1	5	1	3	1	3	1	2	3	3	1	2	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:216964986G>A	uc010zjr.1	+	4	941	c.615G>A	c.(613-615)TCG>TCA	p.S205S	TMEM169_uc010zjs.1_Silent_p.S205S|TMEM169_uc002vfw.2_Silent_p.S205S|TMEM169_uc002vfv.3_Silent_p.S205S	NM_001142310	NP_001135782	Q96HH4	TM169_HUMAN	transmembrane protein 169	205	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1		Renal(323;0.0651)		Epithelial(149;6.44e-06)|all cancers(144;0.000398)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		ACAAGATCTCGTATTGCCCTT	0.507													52	107					0	0	0.01441	0	0		A	216964986	A	A	216964986	2	1	210	1	0	0	0	0	0	0	0	1	16109	1132	40	1		1	TMEM169	2	216964986	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	18701711	216964986	26234387	31	101701											
COL4A4	1286	broad.mit.edu	37	chr2	227886829	227886829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtcctctcatgcctggcGccccaggaaggcctgggatt	5	9	13	14	1	1	0	1	0	1	0	3	2	2	2	5	5	1	0	5	5	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:227886829G>A	uc010zlt.1	-	43	4805	c.4151C>T	c.(4150-4152)GCG>GTG	p.A1384V		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	1384	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CATGCCTGGCGCCCCAGGAAG	0.567													10	160					0	0	0.006214	0	0		A	227886829	A	A	227886829	3	1	210	1	0	0	0	0	1	0	0	0	3696	1087	38	1	941	1	COL4A4	2	227886829	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	10921843	227886829	15312544	32	101702											
COL6A3	1293	broad.mit.edu	37	chr2	238287440	238287440	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gctctgccttattcgcctggCtagctcccacacaaaaagtc	9	10	7	15	1	1	0	0	0	1	0	4	0	2	0	3	1	2	3	3	1	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr2:238287440C>A	uc002vwl.2	-	6	2621	c.2336G>T	c.(2335-2337)AGC>ATC	p.S779I	COL6A3_uc002vwo.2_Missense_Mutation_p.S573I|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Missense_Mutation_p.S573I|COL6A3_uc002vwr.2_Missense_Mutation_p.S372I|COL6A3_uc010znk.1_Intron	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	779	VWFA 4.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ATTCGCCTGGCTAGCTCCCAC	0.547													6	45					3.59834e-05	3.87163e-05	0.001168	1	0		A	238287440	A	A	238287440	3	1	210	1	0	0	0	0	1	0	0	0	3704	797	28	5	7400	5	COL6A3	2	238287440	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	10400611	238287440	4911933	33	101703											
GRM7	2917	broad.mit.edu	37	chr3	7456772	7456772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaagaaatgtatggtttgccGaatactgggaggaaaacttc	14	10	12	5	1	0	1	0	0	0	1	1	5	0	3	1	3	3	2	1	3	7	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:7456772G>A	uc003bqm.2	+	5	1370	c.1096G>A	c.(1096-1098)GAA>AAA	p.E366K	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.E366K|GRM7_uc003bql.2_Missense_Mutation_p.E366K|GRM7_uc003bqn.1_5'UTR	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	366	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	ATGGTTTGCCGAATACTGGGA	0.408													22	22					0	0	0.012319	0	0		A	7456772	A	A	7456772	3	1	210	1	0	0	0	0	1	0	0	0	6818	1059	37	1	1114	1	GRM7	3	7456772	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		7456772	190565658	34	101704											
WDR6	11180	broad.mit.edu	37	chr3	49049539	49049539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggtctggtacccagcaaCtgccttagcagacaacaaac	12	8	8	13	0	1	1	0	0	1	1	1	1	1	1	2	2	7	3	2	2	5	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:49049539C>T	uc003cvj.2	+	2	800	c.662C>T	c.(661-663)ACT>ATT	p.T221I	WDR6_uc011bbx.1_Missense_Mutation_p.T92I|WDR6_uc011bby.1_Intron|WDR6_uc010hkn.2_Missense_Mutation_p.T165I|WDR6_uc011bbz.1_Missense_Mutation_p.T140I	NM_018031	NP_060501	Q9NNW5	WDR6_HUMAN	WD repeat domain 6 protein	191	WD 2.				cell cycle arrest|negative regulation of cell proliferation	cytoplasm				central_nervous_system(1)	1				Kidney(197;9.12e-07)|KIRC - Kidney renal clear cell carcinoma(197;1.32e-05)|BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000155)		TACCCAGCAACTGCCTTAGCA	0.542													31	57					0	0	0.008361	0	0		T	49049539	T	T	49049539	3	4	210	1	0	0	0	0	1	0	0	0	17336	565	20	4	668	4	WDR6	3	49049539	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	41592767	49049539	148972891	35	101705											
GRM2	2912	broad.mit.edu	37	chr3	51749890	51749890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tggtcgcctggctggtggtgGaggcaccgggcacaggcaag	6	6	19	10	2	0	0	0	0	0	0	1	1	0	1	2	8	0	4	2	8	1	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:51749890G>A	uc010hlv.2	+	4	2340	c.2101G>A	c.(2101-2103)GAG>AAG	p.E701K	GRM2_uc003dbo.3_Missense_Mutation_p.E83K|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	701	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GCTGGTGGTGGAGGCACCGGG	0.657													13	29					0	0	0.00245	0	0		A	51749890	A	A	51749890	3	1	210	1	0	0	0	0	1	0	0	0	6813	1175	41	4	2111	4	GRM2	3	51749890	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	2700351	51749890	146272540	36	101706											
TLR9	54106	broad.mit.edu	37	chr3	52257833	52257833	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaataggaagcgcagggcatGcaggccggcgaggctggcag	10	3	19	9	3	0	0	0	0	0	0	0	3	0	1	1	6	2	5	1	6	3	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:52257833G>T	uc003dda.1	-	2	1133	c.499C>A	c.(499-501)CAT>AAT	p.H167N	TLR9_uc003ddb.2_Missense_Mutation_p.H264N	NM_017442	NP_059138	Q9NR96	TLR9_HUMAN	toll-like receptor 9 isoform A precursor	167	LRR 5.|Extracellular (Potential).				defense response to bacterium|fibroblast growth factor receptor signaling pathway|I-kappaB phosphorylation|inflammatory response|innate immune response|insulin receptor signaling pathway|maintenance of gastrointestinal epithelium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-beta production|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-10 production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|response to molecule of bacterial origin	apical plasma membrane|basolateral plasma membrane|early phagosome|endoplasmic reticulum membrane|endosome membrane|extracellular region|integral to membrane|lysosome	interleukin-1 receptor binding|siRNA binding|transmembrane receptor activity			large_intestine(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;2.41e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Chloroquine(DB00608)	CGCAGGGCATGCAGGCCGGCG	0.597													23	142					5.35356e-11	6.12178e-11	0.016522	1	0		T	52257833	T	T	52257833	3	4	210	1	0	0	0	0	1	0	0	0	15983	1319	46	5	2603	5	TLR9	3	52257833	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	507943	52257833	145764597	37	101707											
CNTN3	5067	broad.mit.edu	37	chr3	74344358	74344358	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaggaagataggctatttgCagagacttgagatggggcca	12	9	15	5	0	0	4	0	2	0	3	0	7	0	5	1	4	1	2	1	4	3	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:74344358C>A	uc003dpm.1	-	18	2511	c.2431G>T	c.(2431-2433)GCA>TCA	p.A811S		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	811	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AGGCTATTTGCAGAGACTTGA	0.383													12	37					1.08611e-07	1.19895e-07	0.010729	1	0		A	74344358	A	A	74344358	3	1	210	1	0	0	0	0	1	0	0	0	3645	710	25	5	675	5	CNTN3	3	74344358	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	22086525	74344358	123678072	38	101708											
IMPG2	50939	broad.mit.edu	37	chr3	100972610	100972610	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctagatcttcagtttggtgaCgcaaaactcctctcactgag	10	12	8	11	1	3	3	2	2	2	1	5	3	4	3	1	1	1	2	1	1	3	3	rs139255481	byFrequency	TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:100972610C>T	uc003duq.1	-	11	1372	c.1169G>A	c.(1168-1170)CGT>CAT	p.R390H	IMPG2_uc011bhe.1_Missense_Mutation_p.R253H	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	390	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AGTTTGGTGACGCAAAACTCC	0.393													5	18					0	0	0.014758	0	0		T	100972610	T	T	100972610	3	4	210	1	0	0	0	0	1	0	0	0	7745	536	19	1	2592	1	IMPG2	3	100972610	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	26628252	100972610	97049820	39	101709											
ZIC1	7545	broad.mit.edu	37	chr3	147128842	147128842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgtggcaaggtcttcgcgCgctccgagaatttaaagatc	9	10	12	10	4	1	2	0	0	1	2	4	3	2	2	1	2	0	3	1	2	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:147128842C>T	uc003ewe.2	+	1	1662	c.943C>T	c.(943-945)CGC>TGC	p.R315C		NM_003412	NP_003403	Q15915	ZIC1_HUMAN	zinc finger protein of the cerebellum 1	315	C2H2-type 3.				behavior|brain development|cell differentiation|inner ear morphogenesis|pattern specification process|positive regulation of protein import into nucleus|positive regulation of transcription, DNA-dependent|regulation of smoothened signaling pathway	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGTCTTCGCGCGCTCCGAGAA	0.562													24	47					0	0	0.014323	0	0		T	147128842	T	T	147128842	3	4	210	1	0	0	0	0	1	0	0	0	17703	768	27	1	945	1	ZIC1	3	147128842	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	46156232	147128842	50893588	40	101710											
KCNMB2	10242	broad.mit.edu	37	chr3	178560462	178560462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcctatatacctaaatgtGgaaaaaattttgaagaatcc	16	12	6	7	0	0	2	0	1	0	1	2	3	2	3	3	1	1	1	3	1	10	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:178560462G>A	uc003fjd.2	+	5	788	c.445G>A	c.(445-447)GGA>AGA	p.G149R	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Missense_Mutation_p.G149R|KCNMB2_uc003fjf.2_Missense_Mutation_p.G149R|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_RNA	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	149	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			ACCTAAATGTGGAAAAAATTT	0.403													32	46					0	0	0.009535	0	0		A	178560462	A	A	178560462	3	1	210	1	0	0	0	0	1	0	0	0	8091	1349	47	4	459	4	KCNMB2	3	178560462	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	31431620	178560462	19461968	41	101711											
ABCC5	10057	broad.mit.edu	37	chr3	183660618	183660618	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcggtacctcatctctgcGttctcaaaggtcacctctcc	6	13	6	16	2	6	0	3	0	4	0	10	0	6	0	3	2	2	2	3	2	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:183660618G>A	uc003fmg.2	-	25	3756	c.3591C>T	c.(3589-3591)AAC>AAT	p.N1197N	ABCC5_uc011bqt.1_Silent_p.N725N|ABCC5_uc010hxl.2_Silent_p.N1154N	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1197	ABC transporter 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			TCATCTCTGCGTTCTCAAAGG	0.527													28	43					0	0	0.004656	0	0		A	183660618	A	A	183660618	2	1	210	1	0	0	0	0	0	0	0	1	56	1136	40	1		1	ABCC5	3	183660618	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	5100156	183660618	14361812	42	101712											
MAP3K13	9175	broad.mit.edu	37	chr3	185195129	185195129	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcagagtggagatgactccTcagaagaggaagaaggggaa	15	5	15	6	0	2	6	2	1	0	5	3	9	3	8	1	4	0	0	1	4	4	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:185195129T>A	uc010hyf.2	+	13	2712	c.2446T>A	c.(2446-2448)TCA>ACA	p.S816T	MAP3K13_uc011brt.1_Missense_Mutation_p.S609T|MAP3K13_uc011bru.1_Missense_Mutation_p.S672T|MAP3K13_uc003fpi.2_Missense_Mutation_p.S816T|MAP3K13_uc010hyg.2_Missense_Mutation_p.S506T	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	816	Acidic.				activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			AGATGACTCCTCAGAAGAGGA	0.408													13	24					0	0	0.013537	0	0		A	185195129	A	A	185195129	3	1	210	1	0	0	0	0	1	0	0	0	9265	1551	54	5	2488	5	MAP3K13	3	185195129	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	1534511	185195129	12827301	43	101713											
MUC4	4585	broad.mit.edu	37	chr3	195492218	195492218	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagacctggttccagcccCagctgggccaccgaggctgg	7	5	15	14	1	0	1	0	0	0	1	1	3	1	1	6	5	2	3	6	5	0	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr3:195492218C>G	uc011bto.1	-	10	13797	c.13337G>C	c.(13336-13338)TGG>TCG	p.W4446S	MUC4_uc003fuz.2_Missense_Mutation_p.W172S|MUC4_uc003fva.2_Missense_Mutation_p.W54S|MUC4_uc003fvb.2_Missense_Mutation_p.W90S|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.W90S|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.W54S|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.W138S|MUC4_uc011bti.1_Missense_Mutation_p.W138S|MUC4_uc011btj.1_Missense_Mutation_p.W315S|MUC4_uc011btk.1_Missense_Mutation_p.W54S|MUC4_uc011btl.1_Missense_Mutation_p.W83S|MUC4_uc011btm.1_Missense_Mutation_p.W263S|MUC4_uc011btn.1_Missense_Mutation_p.W54S|MUC4_uc003fvo.2_Missense_Mutation_p.W338S|MUC4_uc003fvp.2_Missense_Mutation_p.W287S|MUC4_uc010hzu.1_Missense_Mutation_p.W1186S	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1331	AMOP.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GTTCCAGCCCCAGCTGGGCCA	0.632													16	33					0	0	0.003163	0	0		G	195492218	G	G	195492218	3	3	210	1	0	0	0	0	1	0	0	0	9996	595	21	5	2585	5	MUC4	3	195492218	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	10297089	195492218	2530212	44	101714											
HTT	3064	broad.mit.edu	37	chr4	3240697	3240697	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtccaccagcccgtgggtCgcggcgatgtatcctctctg	4	9	13	15	5	1	0	0	0	1	0	5	1	3	0	4	2	1	1	4	2	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:3240697C>T	uc011bvq.1	+	67	9358	c.9213C>T	c.(9211-9213)GTC>GTT	p.V3071V		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	3069					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GCCCGTGGGTCGCGGCGATGT	0.592													6	7					0	0	0.001168	0	0		T	3240697	T	T	3240697	2	4	210	1	0	0	0	0	0	0	0	1	7473	871	31	1		1	HTT	4	3240697	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		3240697	187913579	45	101715											
GABRB1	2560	broad.mit.edu	37	chr4	47405587	47405587	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcaactcaggagcgtatccaCgactgtcactaagttttcgt	10	12	8	11	3	3	0	3	0	0	0	5	2	4	1	1	1	2	2	1	1	3	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:47405587C>T	uc003gxh.2	+	7	1068	c.694C>T	c.(694-696)CGA>TGA	p.R232*	GABRB1_uc011bze.1_Nonsense_Mutation_p.R162*	NM_000812	NP_000803	P18505	GBRB1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	232	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)	2					Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	AGCGTATCCACGACTGTCACT	0.403													6	67					0	0	0.001168	0	0		T	47405587	T	T	47405587	4	4	210	1	0	0	0	0	0	1	0	0	6180	528	19	1	720	1	GABRB1	4	47405587	Nonsense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	44164890	47405587	143748689	46	101716											
FAT4	79633	broad.mit.edu	37	chr4	126237908	126237908	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtggtcctttccagcgcGcccacctaccccaccgaagt	6	8	9	18	3	0	0	0	0	0	0	2	1	2	0	7	2	2	0	7	2	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:126237908G>A	uc003ifj.3	+	1	342	c.342G>A	c.(340-342)GCG>GCA	p.A114A		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	114	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						TTTCCAGCGCGCCCACCTACC	0.607											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	24					0	0	0.001855	0	0		A	126237908	A	A	126237908	2	1	210	1	0	0	0	0	0	0	0	1	5706	1074	38	1		1	FAT4	4	126237908	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	78832321	126237908	64916368	47	101717											
ELF2	1998	broad.mit.edu	37	chr4	139994712	139994712	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgcattactgctgtgaactGatgcttccactggaggaaaa	11	11	11	8	0	0	2	0	2	0	0	1	4	1	4	1	2	5	3	1	2	4	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:139994712G>A	uc003ihp.1	-	4	454	c.248C>T	c.(247-249)TCA>TTA	p.S83L	ELF2_uc003ihm.1_Missense_Mutation_p.S23L|ELF2_uc003ihn.1_Missense_Mutation_p.S23L|ELF2_uc003iho.1_Missense_Mutation_p.S23L|ELF2_uc010ioh.2_Missense_Mutation_p.S23L	NM_201999	NP_973728	Q15723	ELF2_HUMAN	E74-like factor 2 (ets domain transcription	83					negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2	all_hematologic(180;0.162)					GCTGTGAACTGATGCTTCCAC	0.363													18	20					0	0	0.007413	0	0		A	139994712	A	A	139994712	3	1	210	1	0	0	0	0	1	0	0	0	5062	1294	45	4	1557	4	ELF2	4	139994712	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	13756804	139994712	51159564	48	101718											
RBM46	166863	broad.mit.edu	37	chr4	155719267	155719267	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagctattcccaaggaaaaGaagaaagaagaaattttaga	20	7	10	4	0	0	5	0	0	0	5	1	7	1	7	1	2	1	1	1	2	9	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:155719267G>T	uc003ioo.2	+	3	629	c.456G>T	c.(454-456)AAG>AAT	p.K152N	RBM46_uc011cim.1_Missense_Mutation_p.K152N|RBM46_uc003iop.1_Missense_Mutation_p.K152N	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	152	RRM 2.						nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				CCAAGGAAAAGAAGAAAGAAG	0.328													12	43					2.80697e-09	3.13938e-09	0.010729	1	0		T	155719267	T	T	155719267	3	4	210	1	0	0	0	0	1	0	0	0	13165	933	33	5	462	5	RBM46	4	155719267	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	15724555	155719267	35435009	49	101719											
FSTL5	56884	broad.mit.edu	37	chr4	162307121	162307121	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctttatcatcttgaccttCccagaagagagctccacaaa	12	11	5	13	0	3	3	1	1	2	2	5	4	5	3	3	0	1	1	3	0	3	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:162307121C>A	uc003iqh.2	-	16	2758	c.2322G>T	c.(2320-2322)GGG>GGT	p.G774G	FSTL5_uc003iqi.2_Silent_p.G773G|FSTL5_uc010iqv.2_Silent_p.G764G|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	774						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TCTTGACCTTCCCAGAAGAGA	0.458													26	71					1.66031e-10	1.88168e-10	0.003954	1	0		A	162307121	A	A	162307121	2	1	210	1	0	0	0	0	0	0	0	1	6094	842	30	5		5	FSTL5	4	162307121	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	6587854	162307121	28847155	50	101720											
TMEM192	201931	broad.mit.edu	37	chr4	166021837	166021837	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttgttgatcggtagatcaAgttatagcctcggtttctga	8	15	10	8	2	2	3	1	2	1	1	4	3	2	3	2	2	1	4	2	2	4	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:166021837A>G	uc003iqz.3	-	3	481	c.382T>C	c.(382-384)TTG>CTG	p.L128L		NM_001100389	NP_001093859	Q8IY95	TM192_HUMAN	transmembrane protein 192	128	Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|late endosome|lysosomal membrane|nucleus				skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.0959)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.0926)		CGGTAGATCAAGTTATAGCCT	0.423													11	21					0	0	0.008291	0	0		G	166021837	G	G	166021837	2	3	210	1	0	0	0	0	0	0	0	1	16140	69	3	3		3	TMEM192	4	166021837	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	3714716	166021837	25132439	51	101721											
FAT1	2195	broad.mit.edu	37	chr4	187541092	187541092	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtctccgtctgtgatgctGtagaacactttcaggccttc	6	13	11	11	1	3	2	1	1	2	1	5	2	3	2	2	2	2	2	2	2	2	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr4:187541092G>T	uc003izf.2	-	10	6836	c.6648C>A	c.(6646-6648)TAC>TAA	p.Y2216*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2216	Extracellular (Potential).|Cadherin 20.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTGTGATGCTGTAGAACACTT	0.507										HNSCC(5;0.00058)			40	64					1.07637e-12	1.24761e-12	0.004878	1	0		T	187541092	T	T	187541092	4	4	210	1	0	0	0	0	0	1	0	0	5703	1372	48	5	7190	5	FAT1	4	187541092	Nonsense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	21519255	187541092	3613184	52	101722											
CDH18	1016	broad.mit.edu	37	chr5	19838884	19838884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttacctttccaacatactgaGgatctggtcccatatgttct	9	15	6	11	0	2	1	0	1	2	0	4	2	4	2	3	2	3	1	3	2	4	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:19838884G>A	uc003jgc.2	-	2	589	c.212C>T	c.(211-213)CCT>CTT	p.P71L	CDH18_uc003jgd.2_Missense_Mutation_p.P71L|CDH18_uc011cnm.1_Missense_Mutation_p.P71L	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	71	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					AACATACTGAGGATCTGGTCC	0.383													9	40					0	0	0.004482	0	0		A	19838884	A	A	19838884	3	1	210	1	0	0	0	0	1	0	0	0	3106	1000	35	4	2204	4	CDH18	5	19838884	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		19838884	161076376	53	101723											
ATG10	83734	broad.mit.edu	37	chr5	81474361	81474361	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaggagttcatgagtgctaTaagatgcgactgctacaggg	12	9	14	6	1	1	2	1	1	0	1	1	5	1	3	0	2	4	3	0	2	4	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:81474361T>A	uc003khs.2	+	6	837	c.408T>A	c.(406-408)TAT>TAA	p.Y136*	ATG10_uc003khr.2_Nonsense_Mutation_p.Y136*|ATG10_uc010jas.2_Nonsense_Mutation_p.Y100*	NM_001131028	NP_001124500	Q9H0Y0	ATG10_HUMAN	APG10 autophagy 10-like	136					autophagy in response to ER overload|positive regulation of protein modification process|protein lipidation|protein modification by small protein conjugation|protein transport	cytoplasm	Atg12 ligase activity|protein binding				0		Lung NSC(167;0.0258)|all_lung(232;0.0294)|Ovarian(174;0.135)		OV - Ovarian serous cystadenocarcinoma(54;9.94e-41)|Epithelial(54;6.3e-36)|all cancers(79;2.31e-30)		ATGAGTGCTATAAGATGCGAC	0.378													17	55					0	0	0.004007	0	0		A	81474361	A	A	81474361	4	1	210	1	0	0	0	0	0	1	0	0	1090	1413	49	5	422	5	ATG10	5	81474361	Nonsense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	61635477	81474361	99440899	54	101724											
VCAN	1462	broad.mit.edu	37	chr5	82835937	82835937	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagaagaaatccagactaGtagaccacaaaccataactg	18	5	8	10	0	0	4	0	0	0	4	1	4	1	4	3	1	2	2	3	1	6	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:82835937G>T	uc003kii.3	+	8	7471	c.7115G>T	c.(7114-7116)AGT>ATT	p.S2372I	VCAN_uc003kij.3_Missense_Mutation_p.S1385I|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.S1036I	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2372	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		ATCCAGACTAGTAGACCACAA	0.458													33	41					2.2171e-23	2.70508e-23	0.009535	1	0		T	82835937	T	T	82835937	3	4	210	1	0	0	0	0	1	0	0	0	17164	1029	36	5	7141	5	VCAN	5	82835937	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1361576	82835937	98079323	55	101725											
VCAN	1462	broad.mit.edu	37	chr5	82837419	82837419	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtccccacaggattcttttaAggaaattcatgtaaatattg	13	14	7	7	0	2	0	1	0	1	0	3	2	3	2	2	2	0	1	2	2	5	7			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:82837419A>T	uc003kii.3	+	8	8953	c.8597A>T	c.(8596-8598)AAG>ATG	p.K2866M	VCAN_uc003kij.3_Missense_Mutation_p.K1879M|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.K1530M	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	2866	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GATTCTTTTAAGGAAATTCAT	0.453													8	87					0	0	0.00308	0	0		T	82837419	T	T	82837419	3	4	210	1	0	0	0	0	1	0	0	0	17164	72	3	5	8623	5	VCAN	5	82837419	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	1482	82837419	98077841	56	101726											
TTC37	9652	broad.mit.edu	37	chr5	94857966	94857966	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tatgcttctcctaacgattcCcaacaattgaagtcctttgg	10	14	6	11	1	1	1	0	1	1	0	4	2	3	1	3	1	3	1	3	1	5	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:94857966C>A	uc003klb.2	-	19	2073	c.1803G>T	c.(1801-1803)TGG>TGT	p.W601C	TTC37_uc010jbf.1_Missense_Mutation_p.W553C	NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	601	TPR 10.						binding			ovary(3)|pancreas(1)	4						CTAACGATTCCCAACAATTGA	0.408													19	51					1.67942e-08	1.87009e-08	0.006122	1	0		A	94857966	A	A	94857966	3	1	210	1	0	0	0	0	1	0	0	0	16731	624	22	5	2991	5	TTC37	5	94857966	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	12020547	94857966	86057294	57	101727											
TRIM36	55521	broad.mit.edu	37	chr5	114473223	114473223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcttagaggagtcaattgCtttcaaaacagatgatttcc	12	15	7	7	0	3	3	2	1	1	2	4	4	4	4	1	1	2	1	1	1	4	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:114473223C>T	uc003kqs.2	-	6	1467	c.958G>A	c.(958-960)GCA>ACA	p.A320T	TRIM36_uc011cwc.1_Missense_Mutation_p.A308T|TRIM36_uc003kqt.2_Missense_Mutation_p.A165T	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	320	Potential.					acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding			ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		GAGTCAATTGCTTTCAAAACA	0.368													21	75					0	0	0.008871	0	0		T	114473223	T	T	114473223	3	4	210	1	0	0	0	0	1	0	0	0	16536	797	28	2	1248	2	TRIM36	5	114473223	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	19615257	114473223	66442037	58	101728											
TIFAB	497189	broad.mit.edu	37	chr5	134785360	134785360	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgctccaggtacctcagCgtcagcccattgacccacac	9	7	7	18	1	2	1	2	1	0	0	3	1	3	1	5	1	4	2	5	1	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:134785360C>T	uc003law.3	-	2	471	c.270G>A	c.(268-270)ACG>ACA	p.T90T	C5orf20_uc003lav.2_5'Flank	NM_001099221	NP_001092691	Q6ZNK6	TIFAB_HUMAN	TIFA-related protein TIFAB	90	FHA.										0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGTACCTCAGCGTCAGCCCAT	0.622													13	101					0	0	0.001855	0	0		T	134785360	T	T	134785360	2	4	210	1	0	0	0	0	0	0	0	1	15920	755	27	1		1	TIFAB	5	134785360	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	20312137	134785360	46129900	59	101729											
PCDHA11	56138	broad.mit.edu	37	chr5	140249772	140249772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcccagtacgagaggacGctcagcccagcacggtcatt	9	6	10	16	3	2	1	2	0	0	1	3	3	3	2	3	2	3	3	3	2	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:140249772G>A	uc003lia.2	+	1	1942	c.1084G>A	c.(1084-1086)GCT>ACT	p.A362T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A362T	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	362	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGAGAGGACGCTCAGCCCAG	0.572													35	24					0	0	0.013726	0	0		A	140249772	A	A	140249772	3	1	210	1	0	0	0	0	1	0	0	0	11540	1087	38	1	1086	1	PCDHA11	5	140249772	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	5464412	140249772	40665488	60	101730											
PCDHA11	56138	broad.mit.edu	37	chr5	140249918	140249918	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tactcgttggtgctggacagCgccctggaccgcgagaacgt	7	8	14	12	5	0	1	0	0	0	1	1	4	0	3	2	3	4	2	2	3	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:140249918C>T	uc003lia.2	+	1	2088	c.1230C>T	c.(1228-1230)AGC>AGT	p.S410S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.S410S	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	410	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTGGACAGCGCCCTGGACC	0.617													69	40					0	0	0.01441	0	0		T	140249918	T	T	140249918	2	4	210	1	0	0	0	0	0	0	0	1	11540	767	27	1		1	PCDHA11	5	140249918	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	146	140249918	40665342	61	101731											
PCDHGA2	56113	broad.mit.edu	37	chr5	140720422	140720422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacgggcgaggtgcgcacGgcgcgagccctgctggacag	7	3	17	14	6	0	0	0	0	0	0	0	3	0	1	1	4	3	2	1	4	0	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:140720422G>A	uc003ljk.1	+	1	2069	c.1884G>A	c.(1882-1884)ACG>ACA	p.T628T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc011dao.1_Silent_p.T628T	NM_018915	NP_061738	Q9Y5H1	PCDG2_HUMAN	protocadherin gamma subfamily A, 2 isoform 1	628	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGGTGCGCACGGCGCGAGCCC	0.682													56	71					0	0	0.01441	0	0		A	140720422	A	A	140720422	2	1	210	1	0	0	0	0	0	0	0	1	11573	1103	39	1		1	PCDHGA2	5	140720422	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	470504	140720422	40194838	62	101732											
PCDHGA12	26025	broad.mit.edu	37	chr5	140811189	140811189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccggtatgtggacgacaaggCggcccaagttttcaaactag	11	8	12	10	3	1	0	1	0	0	0	1	2	1	1	2	4	1	2	2	4	5	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:140811189C>T	uc003lkt.1	+	1	1032	c.863C>T	c.(862-864)GCG>GTG	p.A288V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Missense_Mutation_p.A288V	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	288	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GACGACAAGGCGGCCCAAGTT	0.512													9	119					0	0	0.004482	0	0		T	140811189	T	T	140811189	3	4	210	1	0	0	0	0	1	0	0	0	11572	768	27	1	865	1	PCDHGA12	5	140811189	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	90767	140811189	40104071	63	101733											
SH3TC2	79628	broad.mit.edu	37	chr5	148411175	148411175	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gtgtggaggaagctggaacaCtcagtctgcttatcacttcc	9	11	11	10	0	3	0	2	0	1	0	4	3	4	3	1	3	3	2	1	3	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:148411175C>A	uc003lpu.2	-	9	1229	c.1077G>T	c.(1075-1077)GAG>GAT	p.E359D	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc010jgw.2_5'UTR|SH3TC2_uc003lps.2_RNA|SH3TC2_uc003lpt.2_5'UTR|SH3TC2_uc010jgx.2_Missense_Mutation_p.E352D|SH3TC2_uc003lpv.1_5'UTR|SH3TC2_uc011dbz.1_Missense_Mutation_p.E244D	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	359							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCTGGAACACTCAGTCTGCT	0.537													11	27					3.86212e-05	4.13799e-05	0.008291	1	0		A	148411175	A	A	148411175	3	1	210	1	0	0	0	0	1	0	0	0	14287	564	20	5	2825	5	SH3TC2	5	148411175	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	7599986	148411175	32504085	64	101734											
GRIA1	2890	broad.mit.edu	37	chr5	152870498	152870498	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cggtttcctaggcgcggtagTaggtgccaatttccccaaca	8	10	11	12	3	0	0	0	0	0	0	2	0	2	0	4	4	2	3	4	4	5	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:152870498T>C	uc003lva.3	+	1	415	c.50T>C	c.(49-51)GTA>GCA	p.V17A	GRIA1_uc003luy.3_Missense_Mutation_p.V17A|GRIA1_uc003luz.3_5'UTR|GRIA1_uc011dcv.1_RNA|GRIA1_uc011dcw.1_Missense_Mutation_p.V17A|GRIA1_uc011dcx.1_5'Flank|GRIA1_uc011dcy.1_5'Flank|GRIA1_uc011dcz.1_5'Flank|GRIA1_uc010jia.1_Intron	NM_001114183	NP_001107655	P42261	GRIA1_HUMAN	glutamate receptor, ionotropic, AMPA 1 isoform	17					synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|dendritic spine|endocytic vesicle membrane|endoplasmic reticulum membrane|neuronal cell body|postsynaptic density|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity|PDZ domain binding			ovary(4)|skin(2)	6		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)|Halothane(DB01159)|Isoflurane(DB00753)|L-Glutamic Acid(DB00142)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	GGCGCGGTAGTAGGTGCCAAT	0.512													17	92					0	0	0.00499	0	0		C	152870498	C	C	152870498	3	2	210	1	0	0	0	0	1	0	0	0	6783	1638	57	3	52	3	GRIA1	5	152870498	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	4459323	152870498	28044762	65	101735											
EBF1	1879	broad.mit.edu	37	chr5	158223440	158223440	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcacagtcgcacctcccgtCgtccatccttcactcgggct	6	10	7	18	4	2	0	2	0	0	0	8	0	5	0	4	1	0	2	4	1	0	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:158223440C>T	uc010jip.2	-	9	1124	c.822G>A	c.(820-822)ACG>ACA	p.T274T	EBF1_uc011ddw.1_Silent_p.T142T|EBF1_uc011ddx.1_Silent_p.T275T|EBF1_uc003lxl.3_Silent_p.T243T	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	274	IPT/TIG.				multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CACCTCCCGTCGTCCATCCTT	0.468			T	HMGA2	lipoma								3	18					0	0	0.004672	0	0		T	158223440	T	T	158223440	2	4	210	1	0	0	0	0	0	0	0	1	4886	871	31	1		1	EBF1	5	158223440	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	5352942	158223440	22691820	66	101736											
GABRA1	2554	broad.mit.edu	37	chr5	161324161	161324161	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaagaaaaacaacacttaCgctccaacagcaaccagcta	19	6	4	12	1	0	1	0	0	0	1	1	1	1	1	2	0	7	3	2	0	8	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr5:161324161C>T	uc010jiw.2	+	11	1572	c.1104C>T	c.(1102-1104)TAC>TAT	p.Y368Y	GABRA1_uc010jix.2_Silent_p.Y368Y|GABRA1_uc010jiy.2_Silent_p.Y368Y|GABRA1_uc003lyx.3_Silent_p.Y368Y|GABRA1_uc010jiz.2_Silent_p.Y368Y|GABRA1_uc010jja.2_Silent_p.Y368Y|GABRA1_uc010jjb.2_Silent_p.Y368Y	NM_000806	NP_000797	P14867	GBRA1_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha	368	Cytoplasmic (Probable).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|pancreas(1)	3	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.228)	Alprazolam(DB00404)|Butabarbital(DB00237)|Butalbital(DB00241)|Butethal(DB01353)|Chlordiazepoxide(DB00475)|Clobazam(DB00349)|Clonazepam(DB01068)|Clorazepate(DB00628)|Desflurane(DB01189)|Diazepam(DB00829)|Enflurane(DB00228)|Ethanol(DB00898)|Ethchlorvynol(DB00189)|Etomidate(DB00292)|Flumazenil(DB01205)|Flurazepam(DB00690)|Halazepam(DB00801)|Halothane(DB01159)|Hexobarbital(DB01355)|Isoflurane(DB00753)|Lorazepam(DB00186)|Meprobamate(DB00371)|Metharbital(DB00463)|Methohexital(DB00474)|Methoxyflurane(DB01028)|Methylphenobarbital(DB00849)|Methyprylon(DB01107)|Midazolam(DB00683)|Nitrazepam(DB01595)|Oxazepam(DB00842)|Pentobarbital(DB00312)|Phenobarbital(DB01174)|Picrotoxin(DB00466)|Prazepam(DB01588)|Primidone(DB00794)|Progabide(DB00837)|Propofol(DB00818)|Quazepam(DB01589)|Secobarbital(DB00418)|Sevoflurane(DB01236)|Talbutal(DB00306)|Thiamylal(DB01154)|Thiopental(DB00599)|Topiramate(DB00273)|Zaleplon(DB00962)|Zolpidem(DB00425)	ACAACACTTACGCTCCAACAG	0.423													46	59					0	0	0.010771	0	0		T	161324161	T	T	161324161	2	4	210	1	0	0	0	0	0	0	0	1	6174	547	19	1		1	GABRA1	5	161324161	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	3100721	161324161	19591099	67	101737											
RREB1	6239	broad.mit.edu	37	chr6	7182219	7182219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	accatgatgtcggcggtcatGagtgtagggaaggtcacaga	11	8	15	7	2	2	3	2	2	0	1	3	4	2	4	1	4	0	1	1	4	2	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:7182219G>A	uc003mxc.2	+	4	465	c.75G>A	c.(73-75)ATG>ATA	p.M25I	RREB1_uc010jnw.2_Missense_Mutation_p.M25I|RREB1_uc003mxb.2_Missense_Mutation_p.M25I|RREB1_uc010jnx.2_Missense_Mutation_p.M25I|RREB1_uc003mxd.2_Missense_Mutation_p.M25I	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	25					multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				CGGCGGTCATGAGTGTAGGGA	0.547													18	98					0	0	0.00499	0	0		A	7182219	A	A	7182219	3	1	210	1	0	0	0	0	1	0	0	0	13704	1290	45	4	77	4	RREB1	6	7182219	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		7182219	163932848	68	101738											
ZNF192	7745	broad.mit.edu	37	chr6	28121579	28121579	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaagtcaggccttattgaAcatcagagaatccacactgg	14	8	9	10	0	2	3	2	1	0	2	3	4	3	3	2	2	1	0	2	2	4	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:28121579A>G	uc003nkn.1	+	6	1705	c.1521A>G	c.(1519-1521)GAA>GAG	p.E507E	ZNF192_uc010jqx.1_Silent_p.E507E|ZNF192_uc010jqy.1_Silent_p.E320E|ZNF192_uc011dkz.1_Silent_p.E320E	NM_006298	NP_006289	Q15776	ZN192_HUMAN	zinc finger protein 192	507	C2H2-type 7.				viral reproduction	cytoplasm|nucleolus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						GCCTTATTGAACATCAGAGAA	0.453													7	52					0	0	0.001984	0	0		G	28121579	G	G	28121579	2	3	210	1	0	0	0	0	0	0	0	1	17781	40	2	3		3	ZNF192	6	28121579	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	20939360	28121579	142993488	69	101739											
OR12D2	26529	broad.mit.edu	37	chr6	29365024	29365024	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgtgatattaagccattgcTaaagctggcctgtgggaaca	11	11	11	8	0	0	1	0	1	0	0	0	2	0	2	2	2	4	2	2	2	5	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:29365024T>C	uc003nmf.3	+	1	609	c.548T>C	c.(547-549)CTA>CCA	p.L183P		NM_013936	NP_039224	P58182	O12D2_HUMAN	olfactory receptor, family 12, subfamily D,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AAGCCATTGCTAAAGCTGGCC	0.478													19	123					0	0	0.006122	0	0		C	29365024	C	C	29365024	3	2	210	1	0	0	0	0	1	0	0	0	10950	1522	53	3	550	3	OR12D2	6	29365024	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	1243445	29365024	141750043	70	101740											
GPSM3	63940	broad.mit.edu	37	chr6	32159232	32159232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caactccaggagctcttgccCccctggagggaggggaggct	7	6	15	13	0	1	0	0	0	1	0	2	4	2	4	4	6	3	2	4	6	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:32159232C>T	uc003oay.3	-	4	787	c.394G>A	c.(394-396)GGG>AGG	p.G132R	PBX2_uc003oav.1_5'Flank|PBX2_uc003oaw.2_5'Flank|GPSM3_uc003oax.3_Missense_Mutation_p.G109R|GPSM3_uc003oaz.2_Missense_Mutation_p.G132R	NM_022107	NP_071390	Q9Y4H4	GPSM3_HUMAN	G-protein signaling modulator 3 (AGS3-like, C.	132	GoLoco 3.				signal transduction	cytoplasm	GTPase activator activity|protein binding				0						AGCTCTTGCCCCCCTGGAGGG	0.647													29	68					0	0	0.007291	0	0		T	32159232	T	T	32159232	3	4	210	1	0	0	0	0	1	0	0	0	6752	623	22	4	92	4	GPSM3	6	32159232	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	2794208	32159232	138955835	71	101741											
KIFC1	3833	broad.mit.edu	37	chr6	33374045	33374045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccagaatgaacggtcatcaCgcagccacagtgtattccag	12	7	9	13	2	2	2	2	1	0	1	3	2	3	2	3	1	2	2	3	1	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:33374045C>T	uc003oef.3	+	8	2059	c.1609C>T	c.(1609-1611)CGC>TGC	p.R537C	KIFC1_uc011drf.1_Missense_Mutation_p.R529C	NM_002263	NP_002254	Q9BW19	KIFC1_HUMAN	kinesin family member C1	537	Kinesin-motor.				blood coagulation|cell division|microtubule-based movement|mitotic sister chromatid segregation	early endosome|microtubule|microtubule associated complex|microtubule organizing center|nucleus|spindle	ATP binding|microtubule motor activity				0						ACGGTCATCACGCAGCCACAG	0.627													16	117					0	0	0.003163	0	0		T	33374045	T	T	33374045	3	4	210	1	0	0	0	0	1	0	0	0	8328	536	19	1	1639	1	KIFC1	6	33374045	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	1214813	33374045	137741022	72	101742											
DNAH8	1769	broad.mit.edu	37	chr6	38899592	38899592	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgaatttatgtaggtgaaAgtcggtgataaggaatgtga	13	13	14	1	1	0	4	0	4	0	0	1	5	0	5	0	3	0	1	0	3	6	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:38899592A>G	uc003ooe.1	+	74	11229	c.10629A>G	c.(10627-10629)AAA>AAG	p.K3543K	DNAH8_uc003oog.1_5'UTR|uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TGTAGGTGAAAGTCGGTGATA	0.214													43	67					0	0	0.00874	0	0		G	38899592	G	G	38899592	2	3	210	1	0	0	0	0	0	0	0	1	4613	69	3	3		3	DNAH8	6	38899592	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	5525547	38899592	132215475	73	101743											
DAAM2	23500	broad.mit.edu	37	chr6	39869752	39869752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctcaagcgcagccgcaagcGatcagggagccaggccctgg	9	3	15	14	3	2	0	2	0	0	0	2	2	2	1	3	3	4	3	3	3	2	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:39869752G>A	uc003oow.2	+	25	3302	c.3146G>A	c.(3145-3147)CGA>CAA	p.R1049Q	DAAM2_uc003oox.2_Missense_Mutation_p.R1048Q	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	1049					actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					AGCCGCAAGCGATCAGGGAGC	0.607													4	28					0	0	0.009096	0	0		A	39869752	A	A	39869752	3	1	210	1	0	0	0	0	1	0	0	0	4219	1058	37	1	3237	1	DAAM2	6	39869752	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	970160	39869752	131245315	74	101744											
PEX6	5190	broad.mit.edu	37	chr6	42941748	42941748	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagctgcatacctgggcaGtttctctggacttccttcca	6	12	10	13	0	1	0	0	0	1	0	4	1	3	1	3	3	3	5	3	3	1	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:42941748G>A	uc003otf.2	-	3	1216	c.1123C>T	c.(1123-1125)CTG>TTG	p.L375L	PEX6_uc010jya.2_RNA	NM_000287	NP_000278	Q13608	PEX6_HUMAN	peroxisomal biogenesis factor 6	375					protein import into peroxisome matrix, translocation|protein stabilization	cytosol|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)	1			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)			TACCTGGGCAGTTTCTCTGGA	0.512													13	25					0	0	0.013537	0	0		A	42941748	A	A	42941748	2	1	210	1	0	0	0	0	0	0	0	1	11769	1020	36	4		4	PEX6	6	42941748	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	3071996	42941748	128173319	75	101745											
ORC3L	23595	broad.mit.edu	37	chr6	88376828	88376828	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatgtggcaagactaacatGgggaggctgctagaaagcaa	14	6	13	8	0	0	2	0	0	0	2	0	3	0	3	1	4	3	4	1	4	5	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:88376828G>A	uc003pmh.2	+	20	2167	c.2123G>A	c.(2122-2124)TGG>TAG	p.W708*	ORC3L_uc003pmg.2_Nonsense_Mutation_p.W709*|ORC3L_uc003pmi.2_Nonsense_Mutation_p.W671*|ORC3L_uc011dzo.1_Nonsense_Mutation_p.W565*|ORC3L_uc011dzp.1_Nonsense_Mutation_p.W565*|ORC3L_uc003pmj.1_RNA	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	708					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		AGACTAACATGGGGAGGCTGC	0.398													17	16					0	0	0.004007	0	0		A	88376828	A	A	88376828	4	1	210	1	0	0	0	0	0	1	0	0	11282	1357	47	4	2204	4	ORC3L	6	88376828	Nonsense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	45435080	88376828	82738239	76	101746											
UTRN	7402	broad.mit.edu	37	chr6	145124231	145124231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagttgtttcttttcgggtcGaacagcaaaaggtcacaaat	12	12	10	7	2	2	0	1	0	1	0	4	2	2	0	0	2	2	3	0	2	4	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr6:145124231G>A	uc003qkt.2	+	64	9397	c.9305G>A	c.(9304-9306)CGA>CAA	p.R3102Q		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3102	Interaction with SYNM.|ZZ-type.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TTTTCGGGTCGAACAGCAAAA	0.338													8	32					0	0	0.00308	0	0		A	145124231	A	A	145124231	3	1	210	1	0	0	0	0	1	0	0	0	17129	1058	37	1	9559	1	UTRN	6	145124231	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	56747403	145124231	25990836	77	101747											
ZFAND2A	90637	broad.mit.edu	37	chr7	1197307	1197307	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attaccttctggaatgcaaaCggacacttatgtgcagcgta	12	11	9	9	2	1	0	0	0	1	0	1	2	1	2	1	2	5	3	1	2	5	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:1197307C>T	uc003skc.2	-	3	436	c.135G>A	c.(133-135)CCG>CCA	p.P45P	ZFAND2A_uc003skd.3_Silent_p.P45P|uc003skf.1_5'Flank	NM_182491	NP_872297	Q8N6M9	ZFN2A_HUMAN	zinc finger, AN1-type domain 2A	45	AN1-type 1.					cytoplasm|nucleus	zinc ion binding			ovary(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.82e-15)		GGAATGCAAACGGACACTTAT	0.284													78	142					0	0	0.01441	0	0		T	1197307	T	T	1197307	2	4	210	1	0	0	0	0	0	0	0	1	17652	523	19	1		1	ZFAND2A	7	1197307	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		1197307	157941356	78	101748											
SDK1	221935	broad.mit.edu	37	chr7	4008964	4008964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcggggggtctacagatcgCgcccgtcttcatccaggatg	7	9	13	12	4	3	1	1	0	2	1	6	2	4	2	2	4	1	0	2	4	1	2	rs146705640	by1000genomes	TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:4008964C>T	uc003smx.2	+	11	1761	c.1622C>T	c.(1621-1623)GCG>GTG	p.A541V		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	541	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CTACAGATCGCGCCCGTCTTC	0.552													74	182					0	0	0.01441	0	0		T	4008964	T	T	4008964	3	4	210	1	0	0	0	0	1	0	0	0	13993	768	27	1	1664	1	SDK1	7	4008964	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	2811657	4008964	155129699	79	101749											
FBXL18	80028	broad.mit.edu	37	chr7	5521433	5521433	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaggttcggcggttcctcGgccactctgctcttaaataa	8	11	9	13	3	2	0	0	0	2	0	5	0	3	0	2	4	1	3	2	4	3	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:5521433G>A	uc003son.3	-	5	2224	c.2130C>T	c.(2128-2130)GCC>GCT	p.A710A		NM_024963	NP_079239	Q96ME1	FXL18_HUMAN	F-box and leucine-rich repeat protein 18	Error:Variant_position_missing_in_Q96ME1_after_alignment										central_nervous_system(2)|ovary(1)	3		Ovarian(82;0.0607)		UCEC - Uterine corpus endometrioid carcinoma (126;0.181)|OV - Ovarian serous cystadenocarcinoma(56;3.64e-13)		GCGGTTCCTCGGCCACTCTGC	0.637													9	161					0	0	0.004482	0	0		A	5521433	A	A	5521433	2	1	210	1	0	0	0	0	0	0	0	1	5728	1103	39	1		1	FBXL18	7	5521433	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1512469	5521433	153617230	80	101750											
C7orf28A	51622	broad.mit.edu	37	chr7	5949682	5949682	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcaggagtggattagaacaaGatgacatgagaattttatac	16	10	11	4	0	0	4	0	2	0	3	0	7	0	6	0	2	2	1	0	2	6	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:5949682G>A	uc003spf.2	+	8	805	c.715G>A	c.(715-717)GAT>AAT	p.D239N		NM_015622	NP_056437	P86791	CCZ1_HUMAN	hypothetical protein LOC51622	239						lysosomal membrane					0		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0974)|OV - Ovarian serous cystadenocarcinoma(56;7.91e-15)		ATTAGAACAAGATGACATGAG	0.408													19	20					0	0	0.016522	0	0		A	5949682	A	A	5949682	3	1	210	1	0	0	0	0	1	0	0	0	2386	942	33	4	745	4	C7orf28A	7	5949682	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	428249	5949682	153188981	81	101751											
C7orf28B	221960	broad.mit.edu	37	chr7	6854460	6854460	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtataaaattctcatgtcatCttgttctaatccactcctgc	10	16	4	11	0	4	0	2	0	3	0	7	0	6	0	2	0	1	2	2	0	4	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:6854460C>T	uc003sqx.1	-	8	748	c.715G>A	c.(715-717)GAT>AAT	p.D239N	C7orf28B_uc011jxd.1_Missense_Mutation_p.D96N	NM_198097	NP_932765	P86791	CCZ1_HUMAN	hypothetical protein LOC221960	239						lysosomal membrane					0		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)		CTCATGTCATCTTGTTCTAAT	0.408													9	107					0	0	0.013537	0	0		T	6854460	T	T	6854460	3	4	210	1	0	0	0	0	1	0	0	0	2387	913	32	4	765	4	C7orf28B	7	6854460	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	904778	6854460	152284203	82	101752											
FERD3L	222894	broad.mit.edu	37	chr7	19184535	19184535	+	Missense_Mutation	SNP	A	G	G	1	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	caagagctcggtcatgaaggAgatatagacgatggccaggc	13	6	14	8	2	1	4	1	1	0	3	2	6	1	4	1	4	1	1	1	4	4	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:19184535A>G	uc003suo.1	-	1	510	c.451T>C	c.(451-453)TCC>CCC	p.S151P	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	151	Helix-loop-helix motif.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						GTCATGAAGGAGATATAGACG	0.582													4	40					0	0	0.009096	0	0		G	19184535	G	G	19184535	3	3	210	1	0	0	0	0	1	0	0	0	5830	304	11	3	53	3	FERD3L	7	19184535	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	12330075	19184535	139954128	83	101753											
ABCB5	340273	broad.mit.edu	37	chr7	20698214	20698214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aattgctcgtgccttagttcGaaaccccaagattctgattt	10	14	7	10	2	1	2	0	1	1	1	3	3	1	2	3	0	3	2	3	0	4	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:20698214G>A	uc003suw.3	+	5	833	c.287G>A	c.(286-288)CGA>CAA	p.R96Q	ABCB5_uc010kuh.2_Missense_Mutation_p.R541Q|ABCB5_uc003suv.3_Missense_Mutation_p.R96Q|ABCB5_uc011jyi.1_Missense_Mutation_p.R96Q	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	96	ABC transporter 1.|Extracellular (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						GCCTTAGTTCGAAACCCCAAG	0.438													8	56					0	0	0.00308	0	0		A	20698214	A	A	20698214	3	1	210	1	0	0	0	0	1	0	0	0	44	1058	37	1	1672	1	ABCB5	7	20698214	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1513679	20698214	138440449	84	101754											
TRA2A	29896	broad.mit.edu	37	chr7	23556109	23556109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtgagagtgggatctggatCgagtgtaacgtctatgagaa	12	10	15	4	2	2	2	0	2	2	2	3	7	2	4	0	2	1	1	0	2	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:23556109C>T	uc003swi.2	-	3	423	c.209G>A	c.(208-210)CGA>CAA	p.R70Q	TRA2A_uc011jzb.1_RNA|TRA2A_uc011jzc.1_5'UTR|TRA2A_uc011jzd.1_5'UTR|TRA2A_uc010kuo.1_RNA	NM_013293	NP_037425	Q13595	TRA2A_HUMAN	transformer-2 alpha	70	Arg/Ser-rich (RS1 domain).				nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GGATCTGGATCGAGTGTAACG	0.443													9	68					0	0	0.004482	0	0		T	23556109	T	T	23556109	3	4	210	1	0	0	0	0	1	0	0	0	16459	884	31	1	663	1	TRA2A	7	23556109	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	2857895	23556109	135582554	85	101755											
BMPER	168667	broad.mit.edu	37	chr7	34182863	34182863	+	Silent	SNP	T	C	C	0	1	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	tcctgtgtgacagacatgtgTgaatgtccagtccataaaaa	13	11	9	8	0	0	3	0	2	0	1	3	3	3	3	3	0	0	0	3	0	4	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:34182863T>C	uc011kap.1	+	14	1881	c.1767T>C	c.(1765-1767)TGT>TGC	p.C589C		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	589					blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CAGACATGTGTGAATGTCCAG	0.428													7	111					0	0	0.00308	0	0		C	34182863	C	C	34182863	2	2	210	1	0	0	0	0	0	0	0	1	1469	1702	59	3		3	BMPER	7	34182863	Silent	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	10626754	34182863	124955800	86	101756											
ELMO1	9844	broad.mit.edu	37	chr7	36934570	36934570	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgaactggtccagggagCtaggcttggttgtaagtgct	7	13	14	7	0	1	1	0	1	1	0	2	2	2	2	1	4	3	5	1	4	3	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:36934570C>G	uc003tfk.1	-	17	1797	c.1490G>C	c.(1489-1491)AGC>ACC	p.S497T	ELMO1_uc003tfi.1_Missense_Mutation_p.S17T|ELMO1_uc003tfj.1_Missense_Mutation_p.S17T|ELMO1_uc011kbb.1_RNA|ELMO1_uc011kbc.1_Missense_Mutation_p.S401T|ELMO1_uc010kxg.1_Missense_Mutation_p.S497T	NM_014800	NP_055615	Q92556	ELMO1_HUMAN	engulfment and cell motility 1 isoform 1	497					actin cytoskeleton organization|apoptosis|cellular component movement|phagocytosis, engulfment|Rac protein signal transduction|regulation of defense response to virus by virus|viral reproduction	cytoskeleton|cytosol|plasma membrane	SH3 domain binding			ovary(3)|skin(2)|upper_aerodigestive_tract(1)	6						GTCCAGGGAGCTAGGCTTGGT	0.507													10	62					0	0	0.006214	0	0		G	36934570	G	G	36934570	3	3	210	1	0	0	0	0	1	0	0	0	5073	797	28	5	717	5	ELMO1	7	36934570	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	2751707	36934570	122204093	87	101757											
GLI3	2737	broad.mit.edu	37	chr7	42007505	42007506	+	Missense_Mutation	DNP	GG	CT	CT																															tgcatgaagactgaccaccaGggcttggctgagatgtctgt																								rs121917716	byFrequency	TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:42007505_42007506GG>CT	uc011kbh.1	-	14	2210_2211	c.2119_2120CC>AG	c.(2119-2121)CCT>AGT	p.P707S	GLI3_uc011kbg.1_Missense_Mutation_p.P648S	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	707			P -> S (in GCPS).		negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						CTGACCACCAGGGCTTGGCTGA	0.52									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				10	95					0	0	0.004672	0	0		CT	42007506	CT	CT	42007505	3	2	210	1	0	0	0	0	1	0	0	0	6454	1000	35	5	2630	5	GLI3	7	42007505	Missense_Mutation	DNP	GG	TCGA-HU-A4GP-01A-11D-A25D-08	5072935	42007505	117131158	88	101758											
CAMK2B	816	broad.mit.edu	37	chr7	44323802	44323802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcagagcttgacacagcGtcggaccacagagaaagccc	12	4	13	12	2	0	3	0	1	0	2	1	5	0	4	2	2	4	2	2	2	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:44323802G>A	uc003tkq.2	-	2	298	c.88C>T	c.(88-90)CGC>TGC	p.R30C	CAMK2B_uc003tkp.2_Missense_Mutation_p.R30C|CAMK2B_uc003tkx.2_Missense_Mutation_p.R30C|CAMK2B_uc010kyd.2_RNA|CAMK2B_uc003tkr.2_Missense_Mutation_p.R30C|CAMK2B_uc003tks.2_Missense_Mutation_p.R30C|CAMK2B_uc003tku.2_Missense_Mutation_p.R30C|CAMK2B_uc003tkv.2_Missense_Mutation_p.R30C|CAMK2B_uc003tkt.2_Missense_Mutation_p.R30C|CAMK2B_uc003tkw.2_Missense_Mutation_p.R30C|CAMK2B_uc010kyc.2_Missense_Mutation_p.R30C	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	30	Protein kinase.				interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						TTGACACAGCGTCGGACCACA	0.478													7	15					0	0	0.001984	0	0		A	44323802	A	A	44323802	3	1	210	1	0	0	0	0	1	0	0	0	2603	1145	40	1	2003	1	CAMK2B	7	44323802	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	2316297	44323802	114814861	89	101759											
CLIP2	7461	broad.mit.edu	37	chr7	73790905	73790905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggaggcccaggaccagcGccgggatgccgagctgcgtg	7	3	18	13	4	0	0	0	0	0	0	0	4	0	3	4	4	4	2	4	4	0	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:73790905G>A	uc003uam.2	+	10	2501	c.2174G>A	c.(2173-2175)CGC>CAC	p.R725H	CLIP2_uc003uan.2_Missense_Mutation_p.R690H|CLIP2_uc003uao.2_Missense_Mutation_p.R119H	NM_003388	NP_003379	Q9UDT6	CLIP2_HUMAN	CAP-GLY domain containing linker protein 2	725	Potential.					microtubule associated complex				skin(3)	3						CAGGACCAGCGCCGGGATGCC	0.687													15	16					0	0	0.00245	0	0		A	73790905	A	A	73790905	3	1	210	1	0	0	0	0	1	0	0	0	3536	1087	38	1	2208	1	CLIP2	7	73790905	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	29467103	73790905	85347758	90	101760											
MAGI2	9863	broad.mit.edu	37	chr7	77762312	77762312	+	Frame_Shift_Del	DEL	G	-	-																															caggggactctgctgtgccaGgggactctgctgcgccatgg																										TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:77762312delG	uc003ugx.2	-	18	3351	c.3097delC	c.(3097-3099)CTGfs	p.L1033fs	MAGI2_uc003ugy.2_Frame_Shift_Del_p.L1019fs|MAGI2_uc010ldx.1_Frame_Shift_Del_p.L626fs	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	1033	Pro-rich.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TGCTGTGCCAGGGGACTCTGC	0.642													74	127	---	---	---	---						.	-	77762312	-	-	77762312	7	5	210	1	0	1	0	1	0	0	0	0	9209	991	35	0	1290	0	MAGI2	7	77762312	Frame_Shift_Del	DEL	G	TCGA-HU-A4GP-01A-11D-A25D-08	3971407	77762312	81376351	91	101761											
PCLO	27445	broad.mit.edu	37	chr7	82764700	82764700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	aaagaatctgcctcagggggCtgcttggccttggctgaagg	8	9	15	9	0	2	2	1	1	1	1	2	2	2	2	2	5	2	3	2	5	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:82764700C>A	uc003uhx.2	-	3	2455	c.2166G>T	c.(2164-2166)CAG>CAT	p.Q722H	PCLO_uc003uhv.2_Missense_Mutation_p.Q722H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	668	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCTCAGGGGGCTGCTTGGCCT	0.537													7	53					0.00198382	0.0020564	0.001984	1	0		A	82764700	A	A	82764700	3	1	210	1	0	0	0	0	1	0	0	0	11602	796	28	5	13371	5	PCLO	7	82764700	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	5002388	82764700	76373963	92	101762											
PCLO	27445	broad.mit.edu	37	chr7	82784197	82784197	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tattgcaaagaggacagatgGttttagggaggccttgtgaa	12	11	14	4	0	0	3	0	1	0	2	0	5	0	5	1	4	1	2	1	4	4	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:82784197G>C	uc003uhx.2	-	2	2049	c.1760C>G	c.(1759-1761)ACC>AGC	p.T587S	PCLO_uc003uhv.2_Missense_Mutation_p.T587S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	533	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGGACAGATGGTTTTAGGGAG	0.458													23	279					0	0	0.012319	0	0		C	82784197	C	C	82784197	3	2	210	1	0	0	0	0	1	0	0	0	11602	1261	44	5	13781	5	PCLO	7	82784197	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	19497	82784197	76354466	93	101763											
MGC26647	219557	broad.mit.edu	37	chr7	88424067	88424067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcatagtagtcagcaacatCttttctttctacatttgctt	9	19	4	9	0	5	0	2	0	3	0	5	0	5	0	0	0	4	3	0	0	4	9			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:88424067C>A	uc003ujv.2	-	2	372	c.190G>T	c.(190-192)GAT>TAT	p.D64Y	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	64											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			TCAGCAACATCTTTTCTTTCT	0.393													24	80					2.21704e-12	2.55812e-12	0.016522	1	0		A	88424067	A	A	88424067	3	1	210	1	0	0	0	0	1	0	0	0	9568	913	32	5	575	5	MGC26647	7	88424067	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	5639870	88424067	70714596	94	101764											
C7orf52	375607	broad.mit.edu	37	chr7	100816771	100816771	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	caccagcaccgtctccccggCgtcgatcacgttcaccgact	7	7	8	19	6	3	0	2	0	1	0	5	2	3	0	5	1	1	2	5	1	0	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:100816771C>G	uc003uxy.1	-	3	582	c.343G>C	c.(343-345)GCC>CCC	p.A115P	C7orf52_uc003uxz.1_Missense_Mutation_p.A115P	NM_198571	NP_940973	Q8N8M0	CG052_HUMAN	hypothetical protein LOC375607	115	N-acetyltransferase.						N-acetyltransferase activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					GTCTCCCCGGCGTCGATCACG	0.736													9	18					0	0	0.004482	0	0		G	100816771	G	G	100816771	3	3	210	1	0	0	0	0	1	0	0	0	2404	768	27	5	774	5	C7orf52	7	100816771	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	12392704	100816771	58321892	95	101765											
SRPK2	6733	broad.mit.edu	37	chr7	104909363	104909363	+	Translation_Start_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagattgcctgcccttgcTttcaagccttatatcaagag	10	12	7	12	0	2	2	2	0	0	2	2	2	2	2	4	0	4	1	4	0	5	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:104909363T>A	uc003vct.2	-	1	115	c.-72A>T	c.(-74--70)AAAGC>AATGC		SRPK2_uc003vcu.2_Intron|SRPK2_uc003vcv.2_Intron|SRPK2_uc003vcw.1_Intron	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2						angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CTGCCCTTGCTTTCAAGCCTT	0.403													5	14					0	0	0.014758	0	0		A	104909363	A	A	104909363	1	1	210	1	0	0	0	0	0	0	0	0	15185	1624	56	5		5	SRPK2	7	104909363	Translation_Start_Site	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	4092592	104909363	54229300	96	101766											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519479	113519479	+	Silent	SNP	T	C	C	0	1	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	gccaggtctctgttactagcTccaatccctgccacacttat	8	12	6	15	0	1	0	0	0	1	0	4	0	3	0	4	1	3	2	4	1	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:113519479T>C	uc010ljy.1	-	4	1699	c.1668A>G	c.(1666-1668)GGA>GGG	p.G556G		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	556					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TGTTACTAGCTCCAATCCCTG	0.418													26	63					0	0	0.004656	0	0		C	113519479	C	C	113519479	2	2	210	1	0	0	0	0	0	0	0	1	12393	1538	54	3		3	PPP1R3A	7	113519479	Silent	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	8610116	113519479	45619184	97	101767											
TMEM139	135932	broad.mit.edu	37	chr7	142983557	142983557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccagtctatgaagaggccGtggtgggactagaatcccag	10	8	14	9	1	1	3	0	1	1	2	2	4	2	4	3	3	1	0	3	3	4	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:142983557G>A	uc010lov.2	+	4	425	c.286G>A	c.(286-288)GTG>ATG	p.V96M	CASP2_uc003wco.2_5'Flank|CASP2_uc003wcp.2_5'Flank|CASP2_uc011kta.1_5'Flank|TMEM139_uc003wck.3_Missense_Mutation_p.V96M|TMEM139_uc003wcl.2_Missense_Mutation_p.V96M|TMEM139_uc003wcm.2_Missense_Mutation_p.V96M|TMEM139_uc003wcn.2_RNA	NM_153345	NP_699176	Q8IV31	TM139_HUMAN	transmembrane protein 139 precursor	96	Cytoplasmic (Potential).					integral to membrane					0	Melanoma(164;0.059)					TGAAGAGGCCGTGGTGGGACT	0.532													8	90					0	0	0.004482	0	0		A	142983557	A	A	142983557	3	1	210	1	0	0	0	0	1	0	0	0	16079	1145	40	1	292	1	TMEM139	7	142983557	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	29464078	142983557	16155106	98	101768											
MLL3	58508	broad.mit.edu	37	chr7	151835972	151835972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagccacacaattaggtgcaCacgaatggttgatatacctg	13	9	9	10	1	0	1	0	1	0	0	0	2	0	1	2	2	3	2	2	2	5	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr7:151835972C>T	uc003wla.2	-	58	14771	c.14552G>A	c.(14551-14553)TGT>TAT	p.C4851Y	MLL3_uc003wkz.2_Missense_Mutation_p.C3965Y|MLL3_uc003wkx.2_Missense_Mutation_p.C1009Y|MLL3_uc003wky.2_Missense_Mutation_p.C2411Y	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	4851	SET.	Zinc (By similarity).			intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		ATTAGGTGCACACGAATGGTT	0.408			N		medulloblastoma								7	85					0	0	0.001984	0	0		T	151835972	T	T	151835972	3	4	210	1	0	0	0	0	1	0	0	0	9640	478	17	4	191	4	MLL3	7	151835972	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	8852415	151835972	7302691	99	101769											
UBXN8	7993	broad.mit.edu	37	chr8	30623815	30623815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttctacttcctttcccagaCggcctctggcagtggaggga	6	12	11	12	1	2	1	0	0	2	1	4	3	4	3	3	4	1	1	3	4	1	4	rs34990535		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:30623815C>T	uc003xii.2	+	10	735	c.718C>T	c.(718-720)CGG>TGG	p.R240W	UBXN8_uc010lvi.2_3'UTR|UBXN8_uc011lbb.1_RNA|UBXN8_uc003xij.2_RNA	NM_005671	NP_005662	O00124	UBXN8_HUMAN	reproduction 8	240	UBX.				single fertilization						0						CTTTCCCAGACGGCCTCTGGC	0.488													4	34					0	0	0.009096	0	0		T	30623815	T	T	30623815	3	4	210	1	0	0	0	0	1	0	0	0	16945	527	19	1	747	1	UBXN8	8	30623815	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		30623815	115740207	100	101770											
TERF1	7013	broad.mit.edu	37	chr8	73951418	73951418	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtttcaaagagtcagccGgtaactcctgaaaaacatcg	13	9	8	11	2	2	2	2	1	0	1	4	2	3	2	3	1	3	2	3	1	4	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:73951418G>A	uc003xzd.2	+	9	1132	c.1107G>A	c.(1105-1107)CCG>CCA	p.P369P	TERF1_uc003xze.2_Silent_p.P349P	NM_017489	NP_059523	P54274	TERF1_HUMAN	telomeric repeat binding factor 1 isoform 1	369	Interaction with RLIM.				age-dependent telomere shortening|cell division|G2/M transition of mitotic cell cycle|induction of apoptosis|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of telomere maintenance via semi-conservative replication|negative regulation of telomere maintenance via telomerase|positive regulation of microtubule polymerization|positive regulation of mitosis|positive regulation of mitotic cell cycle|protein homooligomerization|regulation of transcription, DNA-dependent|telomere maintenance via telomerase|telomere maintenance via telomerase|telomere maintenance via telomere shortening	chromosome, telomeric region|cytoplasm|nuclear telomere cap complex|nucleoplasm|nucleus|spindle	caspase activator activity|DNA bending activity|double-stranded telomeric DNA binding|identical protein binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|telomerase inhibitor activity|telomeric DNA binding			ovary(1)|lung(1)|skin(1)	3	Breast(64;0.218)		Epithelial(68;0.0984)			AGAGTCAGCCGGTAACTCCTG	0.308													8	22					0	0	0.00308	0	0		A	73951418	A	A	73951418	2	1	210	1	0	0	0	0	0	0	0	1	15786	1103	39	1		1	TERF1	8	73951418	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	43327603	73951418	72412604	101	101771											
ZFHX4	79776	broad.mit.edu	37	chr8	77766219	77766219	+	Missense_Mutation	SNP	T	A	A	0	1	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	caaacagaagactccatggaTgccactgatcaagtggtata	15	8	9	9	0	1	3	1	1	0	2	2	4	2	4	2	2	2	1	2	2	5	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:77766219T>A	uc003yav.2	+	10	7314	c.6927T>A	c.(6925-6927)GAT>GAA	p.D2309E	ZFHX4_uc003yau.1_Missense_Mutation_p.D2354E|ZFHX4_uc003yaw.1_Missense_Mutation_p.D2309E	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2309						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			ACTCCATGGATGCCACTGATC	0.483										HNSCC(33;0.089)			46	152					0	0	0.01441	0	0		A	77766219	A	A	77766219	3	1	210	1	0	0	0	0	1	0	0	0	17660	1461	51	5	7096	5	ZFHX4	8	77766219	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	3814801	77766219	68597803	102	101772											
ZFHX4	79776	broad.mit.edu	37	chr8	77766560	77766560	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctccctcggcctctcaaaCaccggtcccttccagtccac	7	8	5	21	2	1	0	1	0	1	0	7	0	5	0	7	2	1	0	7	2	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:77766560C>A	uc003yav.2	+	10	7655	c.7268C>A	c.(7267-7269)ACA>AAA	p.T2423K	ZFHX4_uc003yau.1_Missense_Mutation_p.T2468K|ZFHX4_uc003yaw.1_Missense_Mutation_p.T2423K	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2423	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			GCCTCTCAAACACCGGTCCCT	0.428										HNSCC(33;0.089)			19	48					2.5808e-16	3.06095e-16	0.006122	1	0		A	77766560	A	A	77766560	3	1	210	1	0	0	0	0	1	0	0	0	17660	478	17	5	7437	5	ZFHX4	8	77766560	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	341	77766560	68597462	103	101773											
RIMS2	9699	broad.mit.edu	37	chr8	104898052	104898052	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgccatggaaaatcagcgaTcttattcaatggaaagaact	15	10	8	8	1	3	1	2	0	1	1	3	4	3	3	1	2	3	0	1	2	6	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:104898052T>C	uc003yls.2	+	2	800	c.559T>C	c.(559-561)TCT>CCT	p.S187P	RIMS2_uc003ylp.2_Missense_Mutation_p.S409P|RIMS2_uc003ylw.2_Missense_Mutation_p.S217P|RIMS2_uc003ylq.2_Missense_Mutation_p.S217P|RIMS2_uc003ylr.2_Missense_Mutation_p.S217P	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	440					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AAATCAGCGATCTTATTCAAT	0.468										HNSCC(12;0.0054)			28	88					0	0	0.007291	0	0		C	104898052	C	C	104898052	3	2	210	1	0	0	0	0	1	0	0	0	13393	1435	50	3	1365	3	RIMS2	8	104898052	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	27131492	104898052	41465970	104	101774											
TRPS1	7227	broad.mit.edu	37	chr8	116599582	116599582	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcccgtccttctcttccagCttctctctcttcaccacact	5	14	3	19	1	4	0	1	0	3	0	9	0	6	0	4	0	2	1	4	0	0	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:116599582C>T	uc003ynz.2	-	4	2766	c.2307G>A	c.(2305-2307)AAG>AAA	p.K769K	TRPS1_uc011lhy.1_Silent_p.K773K|TRPS1_uc003yny.2_Silent_p.K782K|TRPS1_uc010mcy.2_Silent_p.K769K	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	769	Mediates interaction with GLI3.				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TCTCTTCCAGCTTCTCTCTCT	0.502									Langer-Giedion_syndrome				42	390					0	0	0.00874	0	0		T	116599582	T	T	116599582	2	4	210	1	0	0	0	0	0	0	0	1	16619	796	28	2		2	TRPS1	8	116599582	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	11701530	116599582	29764440	105	101775											
ADCY8	114	broad.mit.edu	37	chr8	132052235	132052235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgctgccgctggcactgccGctcccgctgcgttccgggaa	3	7	13	18	6	0	0	0	0	0	0	2	1	2	1	5	2	3	6	5	2	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:132052235G>A	uc003ytd.3	-	1	601	c.345C>T	c.(343-345)AGC>AGT	p.S115S	ADCY8_uc010mds.2_Silent_p.S115S	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	115	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			TGGCACTGCCGCTCCCGCTGC	0.662										HNSCC(32;0.087)			6	10					0	0	0.001168	0	0		A	132052235	A	A	132052235	2	1	210	1	0	0	0	0	0	0	0	1	300	1078	38	1		1	ADCY8	8	132052235	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	15452653	132052235	14311787	106	101776											
TG	7038	broad.mit.edu	37	chr8	133925324	133925324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggcaaggatctccttgggCgcttcacagatctgatccag	8	10	12	11	1	3	2	1	1	2	1	5	3	4	3	2	3	0	2	2	3	1	2	rs140482581	byFrequency	TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:133925324C>T	uc003ytw.2	+	20	4233	c.4192C>T	c.(4192-4194)CGC>TGC	p.R1398C	TG_uc010mdw.2_Missense_Mutation_p.R157C	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1398					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TCTCCTTGGGCGCTTCACAGA	0.552													35	27					0	0	0.012213	0	0		T	133925324	T	T	133925324	3	4	210	1	0	0	0	0	1	0	0	0	15838	768	27	1	4270	1	TG	8	133925324	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	1873089	133925324	12438698	107	101777											
TG	7038	broad.mit.edu	37	chr8	134042161	134042161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggatttggcggggaccctCggcgcgtgtccctggcagca	5	7	17	12	4	0	0	0	0	0	0	2	3	1	2	2	6	1	2	2	6	0	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:134042161C>T	uc003ytw.2	+	41	7173	c.7132C>T	c.(7132-7134)CGG>TGG	p.R2378W	TG_uc010mdw.2_Missense_Mutation_p.R1137W|TG_uc011ljb.1_Missense_Mutation_p.R747W|TG_uc011ljc.1_Missense_Mutation_p.R511W	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2378					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		CGGGGACCCTCGGCGCGTGTC	0.662													19	46					0	0	0.016522	0	0		T	134042161	T	T	134042161	3	4	210	1	0	0	0	0	1	0	0	0	15838	875	31	1	7294	1	TG	8	134042161	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	116837	134042161	12321861	108	101778											
CYP11B1	1584	broad.mit.edu	37	chr8	143961216	143961216	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ccatgcacacctctgcctttGccctgagtgccattccaatg	7	11	7	16	0	1	1	0	1	1	0	2	1	2	1	6	0	4	1	6	0	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr8:143961216G>T	uc003yxi.2	-	1	21	c.14C>A	c.(13-15)GCA>GAA	p.A5E	CYP11B1_uc003yxj.2_Missense_Mutation_p.A5E|CYP11B1_uc010mey.2_Missense_Mutation_p.A5E	NM_000497	NP_000488	P15538	C11B1_HUMAN	cytochrome P450, family 11, subfamily B,	5					aldosterone biosynthetic process|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|glucose homeostasis|immune response|regulation of blood pressure|response to stress|xenobiotic metabolic process	mitochondrial inner membrane	electron carrier activity|steroid 11-beta-monooxygenase activity			ovary(3)	3	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)				Mitotane(DB00648)	CTCTGCCTTTGCCCTGAGTGC	0.607									Familial_Hyperaldosteronism_type_I				42	124					1.00953e-15	1.18631e-15	0.013114	1	0		T	143961216	T	T	143961216	3	4	210	1	0	0	0	0	1	0	0	0	4148	1319	46	5	1533	5	CYP11B1	8	143961216	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	9919055	143961216	2402806	109	101779											
IFNB1	3456	broad.mit.edu	37	chr9	21077644	21077644	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagatggtcaatgcggcGtcctccttctggaactgctg	7	12	11	11	2	3	1	2	0	1	1	5	2	5	2	2	3	3	1	2	3	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr9:21077644G>A	uc003zok.2	-	1	300	c.225C>T	c.(223-225)GAC>GAT	p.D75D		NM_002176	NP_002167	P01574	IFNB_HUMAN	interferon, beta 1, fibroblast precursor	75					activation of caspase activity|B cell proliferation|blood coagulation|cellular response to exogenous dsRNA|defense response to virus|induction of apoptosis|natural killer cell activation|negative regulation of cell proliferation|negative regulation of T cell differentiation|negative regulation of T-helper 2 cell cytokine production|negative regulation of viral genome replication|negative regulation of viral transcription|negative regulation of virion penetration into host cell|positive regulation of innate immune response|positive regulation of transcription from RNA polymerase II promoter|regulation of MHC class I biosynthetic process|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding|transcription corepressor activity			ovary(1)|breast(1)|kidney(1)	3				GBM - Glioblastoma multiforme(5;7.45e-142)|Lung(24;2.42e-17)|LUSC - Lung squamous cell carcinoma(38;7.17e-11)	Interferon beta-1a(DB00060)|Interferon beta-1b(DB00068)	TCAATGCGGCGTCCTCCTTCT	0.468													60	77					0	0	0.01441	0	0		A	21077644	A	A	21077644	2	1	210	1	0	0	0	0	0	0	0	1	7562	1136	40	1		1	IFNB1	9	21077644	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		21077644	120135787	110	101780											
DAPK1	1612	broad.mit.edu	37	chr9	90312111	90312111	+	Frame_Shift_Del	DEL	A	-	-																															gtcccttgtcccagttgaagAacccataggtgagctaagtc																										TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr9:90312111delA	uc004apc.2	+	22	2741	c.2603delA	c.(2602-2604)GAAfs	p.E868fs	DAPK1_uc004apd.2_Frame_Shift_Del_p.E868fs|DAPK1_uc011ltg.1_Intron|DAPK1_uc011lth.1_Frame_Shift_Del_p.E605fs	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	868					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						CCAGTTGAAGAACCCATAGGT	0.522									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				31	30	---	---	---	---						.	-	90312111	-	-	90312111	7	5	210	1	0	1	0	1	0	0	0	0	4238	246	9	0	2685	0	DAPK1	9	90312111	Frame_Shift_Del	DEL	A	TCGA-HU-A4GP-01A-11D-A25D-08	69234467	90312111	50901320	111	101781											
GABBR2	9568	broad.mit.edu	37	chr9	101304173	101304173	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctcagagaacctctgaacGtcttgcgtcagcgtgcccac	9	8	9	15	3	4	2	2	1	2	1	4	3	4	2	3	0	5	0	3	0	2	1	rs142025089		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr9:101304173G>A	uc004ays.2	-	3	768	c.612C>T	c.(610-612)GAC>GAT	p.D204D		NM_005458	NP_005449	O75899	GABR2_HUMAN	G protein-coupled receptor 51 precursor	204	Extracellular (Potential).				negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(2)|skin(2)	4		Acute lymphoblastic leukemia(62;0.0527)			Baclofen(DB00181)	ACCTCTGAACGTCTTGCGTCA	0.537													5	38					0	0	0.014758	0	0		A	101304173	A	A	101304173	2	1	210	1	0	0	0	0	0	0	0	1	6170	1136	40	1		1	GABBR2	9	101304173	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	10992062	101304173	39909258	112	101782											
USP20	10868	broad.mit.edu	37	chr9	132637006	132637006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccacctacgacctcctctCggtcatctgccaccacggca	8	7	6	20	3	3	0	1	0	2	0	5	1	4	0	6	2	2	1	6	2	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr9:132637006C>T	uc004bys.2	+	18	2103	c.1892C>T	c.(1891-1893)TCG>TTG	p.S631L	USP20_uc004byr.2_Missense_Mutation_p.S631L|USP20_uc004byt.1_Missense_Mutation_p.S631L	NM_001110303	NP_001103773	Q9Y2K6	UBP20_HUMAN	ubiquitin specific protease 20	631					endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|ubiquitin thiolesterase activity|zinc ion binding			lung(1)|breast(1)	2		Ovarian(14;0.00556)				GACCTCCTCTCGGTCATCTGC	0.647													6	90					0	0	0.001984	0	0		T	132637006	T	T	132637006	3	4	210	1	0	0	0	0	1	0	0	0	17078	893	31	1	1954	1	USP20	9	132637006	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	31332833	132637006	8576425	113	101783											
SEC16A	9919	broad.mit.edu	37	chr9	139358985	139358985	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagacatgaggcactgaaaAtttttcaggagaagttggtc	14	10	11	6	0	1	4	1	2	0	2	2	5	1	4	0	3	0	2	0	3	3	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr9:139358985A>T	uc004chx.2	-	9	4642	c.4333T>A	c.(4333-4335)TTT>ATT	p.F1445I	SEC16A_uc004chv.3_Missense_Mutation_p.F835I|SEC16A_uc004chw.2_Missense_Mutation_p.F1445I|SEC16A_uc010nbn.2_Missense_Mutation_p.F1445I	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1267					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GGCACTGAAAATTTTTCAGGA	0.438													13	79					0	0	0.001855	0	0		T	139358985	T	T	139358985	3	4	210	1	0	0	0	0	1	0	0	0	14011	101	4	5	2836	5	SEC16A	9	139358985	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	6721979	139358985	1854446	114	101784											
PNPLA7	375775	broad.mit.edu	37	chr9	140373543	140373543	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctggagaagacgcggcGcgggcagcagaggtgcaggt	8	4	18	11	4	0	3	0	0	0	3	1	4	1	3	2	5	2	3	2	5	1	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr9:140373543G>A	uc004cnf.2	-	23	2990	c.2653C>T	c.(2653-2655)CGC>TGC	p.R885C	C9orf167_uc011mew.1_Intron|PNPLA7_uc004cnd.1_Missense_Mutation_p.R151C|PNPLA7_uc004cne.1_Missense_Mutation_p.R151C|PNPLA7_uc011mfa.1_Missense_Mutation_p.R293C|PNPLA7_uc010ncj.1_Missense_Mutation_p.R910C	NM_152286	NP_689499	Q6ZV29	PLPL7_HUMAN	patatin-like phospholipase domain containing 7	885					lipid metabolic process	endoplasmic reticulum|integral to membrane|lysosomal membrane|microsome|mitochondrial membrane|nuclear membrane	hydrolase activity			skin(1)	1	all_cancers(76;0.126)			OV - Ovarian serous cystadenocarcinoma(145;0.000268)|Epithelial(140;0.000839)		AAGACGCGGCGCGGGCAGCAG	0.692													3	3					0	0	0.009096	0	0		A	140373543	A	A	140373543	3	1	210	1	0	0	0	0	1	0	0	0	12189	1087	38	1	1348	1	PNPLA7	9	140373543	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1014558	140373543	839888	115	101785											
USP6NL	9712	broad.mit.edu	37	chr10	11505340	11505340	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccttcatctttggccgcacGtttgacacccgcacctcggc	5	10	9	17	4	2	1	1	1	1	0	3	1	2	1	4	2	0	3	4	2	0	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:11505340G>A	uc001ikt.3	-	15	1908	c.1587C>T	c.(1585-1587)AAC>AAT	p.N529N	USP6NL_uc001iks.1_Silent_p.N546N	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	529						intracellular	Rab GTPase activator activity				0						TTGGCCGCACGTTTGACACCC	0.642													43	117					0	0	0.00874	0	0		A	11505340	A	A	11505340	2	1	210	1	0	0	0	0	0	0	0	1	17113	1136	40	1		1	USP6NL	10	11505340	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		11505340	124029407	116	101786											
MPP7	143098	broad.mit.edu	37	chr10	28347495	28347495	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aactgagtctatacttgtgcCgtagtagttgtttttatatt	9	19	8	5	1	1	1	0	1	1	0	1	1	1	1	1	0	3	4	1	0	7	11			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:28347495C>T	uc001iua.1	-	17	1740	c.1336G>A	c.(1336-1338)GGC>AGC	p.G446S	MPP7_uc009xkz.1_RNA|MPP7_uc001iub.1_Missense_Mutation_p.G446S|MPP7_uc009xla.2_Missense_Mutation_p.G446S|MPP7_uc010qdv.1_RNA	NM_173496	NP_775767	Q5T2T1	MPP7_HUMAN	palmitoylated membrane protein 7	446	Guanylate kinase-like.				establishment of cell polarity|positive regulation of protein complex assembly|protein localization to adherens junction|tight junction assembly	MPP7-DLG1-LIN7 complex|tight junction	protein complex scaffold|protein domain specific binding|protein heterodimerization activity|signaling adaptor activity			ovary(1)	1						ATACTTGTGCCGTAGTAGTTG	0.323													59	108					0	0	0.01441	0	0		T	28347495	T	T	28347495	3	4	210	1	0	0	0	0	1	0	0	0	9757	652	23	1	406	1	MPP7	10	28347495	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	16842155	28347495	107187252	117	101787											
RBP3	5949	broad.mit.edu	37	chr10	48389994	48389994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccccgctgccctcccacGtctggctgcctccaccaagg	5	6	9	21	2	1	0	0	0	1	0	3	0	3	0	7	2	2	3	7	2	1	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:48389994G>A	uc001jez.2	-	1	998	c.884C>T	c.(883-885)ACG>ATG	p.T295M		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	295	4 X approximate tandem repeats.|1.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	GCCCTCCCACGTCTGGCTGCC	0.692													30	22					0	0	0.007291	0	0		A	48389994	A	A	48389994	3	1	210	1	0	0	0	0	1	0	0	0	13182	1145	40	1	2875	1	RBP3	10	48389994	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	20042499	48389994	87144753	118	101788											
DKK1	22943	broad.mit.edu	37	chr10	54074279	54074279	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gcggccaccctctgctgggaGtgagcgccaccttgaactcg	6	7	13	15	3	1	2	0	2	1	0	2	3	1	3	4	2	3	1	4	2	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:54074279G>T	uc001jjr.2	+	1	239	c.85G>T	c.(85-87)GTG>TTG	p.V29L	uc001jjq.1_5'Flank|uc009xox.1_5'Flank	NM_012242	NP_036374	O94907	DKK1_HUMAN	dickkopf homolog 1 precursor	29					negative regulation of peptidyl-serine phosphorylation|negative regulation of protein complex assembly|negative regulation of transcription from RNA polymerase II promoter|positive regulation of heart induction by negative regulation of canonical Wnt receptor signaling pathway|regulation of receptor internalization	extracellular space|plasma membrane	growth factor activity|low-density lipoprotein particle receptor binding|receptor antagonist activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						TCTGCTGGGAGTGAGCGCCAC	0.657											OREG0020191	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	105					5.18039e-06	5.62128e-06	0.00308	1	0		T	54074279	T	T	54074279	3	4	210	1	0	0	0	0	1	0	0	0	4550	1029	36	5	87	5	DKK1	10	54074279	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	5684285	54074279	81460468	119	101789											
SORCS1	114815	broad.mit.edu	37	chr10	108923844	108923844	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagcgggtggctttgtcCgggtcccgctcccgagtccc	3	8	15	15	5	0	0	0	0	0	0	4	2	4	1	4	4	1	2	4	4	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:108923844C>T	uc001kym.2	-	1	449	c.441G>A	c.(439-441)CCG>CCA	p.P147P	SORCS1_uc001kyl.2_Silent_p.P147P|SORCS1_uc009xxs.2_Silent_p.P147P|SORCS1_uc001kyn.1_Silent_p.P147P|SORCS1_uc001kyo.2_Silent_p.P147P	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	147	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TGGCTTTGTCCGGGTCCCGCT	0.647													28	26					0	0	0.007291	0	0		T	108923844	T	T	108923844	2	4	210	1	0	0	0	0	0	0	0	1	14955	639	23	1		1	SORCS1	10	108923844	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	54849565	108923844	26610903	120	101790											
ATRNL1	26033	broad.mit.edu	37	chr10	117075045	117075045	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagctcaaaattgttctggaTtgagaacctgtggacagtgt	11	12	11	7	0	2	1	1	1	1	1	2	4	2	3	1	2	2	2	1	2	3	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:117075045T>C	uc001lcg.2	+	18	3222	c.2836T>C	c.(2836-2838)TTG>CTG	p.L946L	ATRNL1_uc010qsm.1_Silent_p.L121L|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	946	PSI 5.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		TTGTTCTGGATTGAGAACCTG	0.383													21	54					0	0	0.008871	0	0		C	117075045	C	C	117075045	2	2	210	1	0	0	0	0	0	0	0	1	1208	1490	52	3		3	ATRNL1	10	117075045	Silent	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	8151201	117075045	18459702	121	101791											
PNLIPRP3	119548	broad.mit.edu	37	chr10	118196292	118196292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atggaccaggactttctcaaCagagttggtaggtttaccct	10	12	10	9	0	1	1	1	0	1	1	2	3	1	3	2	4	2	3	2	4	3	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:118196292C>T	uc001lcl.3	+	2	220	c.119C>T	c.(118-120)ACA>ATA	p.T40I		NM_001011709	NP_001011709	Q17RR3	LIPR3_HUMAN	pancreatic lipase-related protein 3 precursor	40					lipid catabolic process	extracellular region	triglyceride lipase activity			ovary(1)	1				all cancers(201;0.0131)		ACTTTCTCAACAGAGTTGGTA	0.433													35	66					0	0	0.013726	0	0		T	118196292	T	T	118196292	3	4	210	1	0	0	0	0	1	0	0	0	12171	478	17	4	125	4	PNLIPRP3	10	118196292	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	1121247	118196292	17338455	122	101792											
SEC23IP	11196	broad.mit.edu	37	chr10	121652327	121652327	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaacctaacggtggcagcggCggcgcctccacttcctcatc	8	7	10	16	4	1	0	1	0	0	0	4	0	3	0	4	4	3	1	4	4	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:121652327C>T	uc001leu.1	+	1	105	c.33C>T	c.(31-33)GGC>GGT	p.G11G	SEC23IP_uc010qtc.1_5'UTR	NM_007190	NP_009121	Q9Y6Y8	S23IP_HUMAN	Sec23-interacting protein p125	11	Interaction with SEC23A.				Golgi organization|intracellular protein transport	endoplasmic reticulum|ER to Golgi transport vesicle membrane|ER-Golgi intermediate compartment	metal ion binding			ovary(3)	3		Lung NSC(174;0.109)|all_lung(145;0.142)|all_neural(114;0.234)		all cancers(201;0.00515)		GTGGCAGCGGCGGCGCCTCCA	0.617													4	24					0	0	0.009096	0	0		T	121652327	T	T	121652327	2	4	210	1	0	0	0	0	0	0	0	1	14018	755	27	1		1	SEC23IP	10	121652327	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	3456035	121652327	13882420	123	101793											
DMBT1	1755	broad.mit.edu	37	chr10	124390531	124390531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatggtctatgtgccgggcGtgtagaaatttaccatggtg	8	13	13	7	2	1	1	0	0	1	1	1	1	1	1	2	3	2	1	2	3	5	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:124390531G>A	uc001lgk.1	+	46	5799	c.5693G>A	c.(5692-5694)CGT>CAT	p.R1898H	DMBT1_uc001lgl.1_Missense_Mutation_p.R1888H|DMBT1_uc001lgm.1_Missense_Mutation_p.R1270H|DMBT1_uc009xzz.1_Missense_Mutation_p.R1898H|DMBT1_uc010qtx.1_Missense_Mutation_p.R618H|DMBT1_uc009yab.1_Missense_Mutation_p.R601H|DMBT1_uc009yac.1_Missense_Mutation_p.R192H	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	1898	SRCR 14.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TGTGCCGGGCGTGTAGAAATT	0.493													16	27					0	0	0.004007	0	0		A	124390531	A	A	124390531	3	1	210	1	0	0	0	0	1	0	0	0	4583	1145	40	1	5875	1	DMBT1	10	124390531	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	2738204	124390531	11144216	124	101794											
FOXI2	399823	broad.mit.edu	37	chr10	129536928	129536928	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggaggggccgaggcgccagCgctggagcccccgagcgcgg	5	1	21	14	6	0	0	0	0	0	0	0	4	0	2	4	6	3	1	4	6	0	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr10:129536928C>T	uc009yas.2	+	2	656	c.656C>T	c.(655-657)GCG>GTG	p.A219V	uc009yar.1_5'Flank	NM_207426	NP_997309	Q6ZQN5	FOXI2_HUMAN	forkhead box I2	219					epidermal cell fate specification|otic placode formation|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_epithelial(44;0.0021)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)				GAGGCGCCAGCGCTGGAGCCC	0.687													6	6					0	0	0.001168	0	0		T	129536928	T	T	129536928	3	4	210	1	0	0	0	0	1	0	0	0	6024	768	27	1	662	1	FOXI2	10	129536928	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	5146397	129536928	5997819	125	101795											
OR51S1	119692	broad.mit.edu	37	chr11	4870119	4870119	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catggataaaaaccatctgtAgaaggcaggctgaggcaggg	14	6	14	7	0	1	2	0	1	1	1	1	3	1	3	1	5	1	4	1	5	5	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:4870119A>T	uc010qyo.1	-	1	320	c.320T>A	c.(319-321)CTA>CAA	p.L107Q		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	107	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		AACCATCTGTAGAAGGCAGGC	0.542													8	94					0	0	0.00308	0	0		T	4870119	T	T	4870119	3	4	210	1	0	0	0	0	1	0	0	0	11124	420	15	5	654	5	OR51S1	11	4870119	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08		4870119	130136397	126	101796											
UBQLNL	143630	broad.mit.edu	37	chr11	5537086	5537086	+	Missense_Mutation	SNP	A	G	G	1	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	ttgcgtgtctagatgttctgAaatgaactgccacatgaact	11	13	9	8	1	2	4	0	3	2	1	2	4	2	4	1	0	4	1	1	0	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:5537086A>G	uc001maz.3	-	1	871	c.586T>C	c.(586-588)TCA>CCA	p.S196P	HBG2_uc001mak.1_Intron	NM_145053	NP_659490	Q8IYU4	UBQLN_HUMAN	ubiquilin-like	196										large_intestine(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.92e-09)|BRCA - Breast invasive adenocarcinoma(625;0.136)		AGATGTTCTGAAATGAACTGC	0.483													30	82					0	0	0.009535	0	0		G	5537086	G	G	5537086	3	3	210	1	0	0	0	0	1	0	0	0	16926	246	9	3	845	3	UBQLNL	11	5537086	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	666967	5537086	129469430	127	101797											
OR52L1	338751	broad.mit.edu	37	chr11	6007738	6007738	+	Silent	SNP	A	G	G	1	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	aaggggtgacaaatggctacAtagcaatccagagccatggc	14	6	12	9	0	0	2	0	1	0	1	1	2	1	2	2	4	3	2	2	4	5	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:6007738A>G	uc001mcd.2	-	1	478	c.423T>C	c.(421-423)TAT>TAC	p.Y141Y		NM_001005173	NP_001005173	Q8NGH7	O52L1_HUMAN	olfactory receptor, family 52, subfamily L,	141	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2		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)		AAATGGCTACATAGCAATCCA	0.517													4	41					0	0	0.009096	0	0		G	6007738	G	G	6007738	2	3	210	1	0	0	0	0	0	0	0	1	11144	224	8	3		3	OR52L1	11	6007738	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	470652	6007738	128998778	128	101798											
LUZP2	338645	broad.mit.edu	37	chr11	24518846	24518846	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcctgcgctggtcctcagCaccaggtgagtccaggagcg	6	7	14	14	2	1	1	1	1	0	0	3	2	3	2	4	3	4	2	4	3	0	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:24518846C>T	uc001mqs.2	+	1	291	c.57C>T	c.(55-57)AGC>AGT	p.S19S	LUZP2_uc009yif.2_5'UTR|LUZP2_uc009yig.2_Silent_p.S19S	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor	19	Potential.					extracellular region				ovary(1)|skin(1)	2						TGGTCCTCAGCACCAGGTGAG	0.657													7	12					0	0	0.001984	0	0		T	24518846	T	T	24518846	2	4	210	1	0	0	0	0	0	0	0	1	9105	709	25	2		2	LUZP2	11	24518846	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	18511108	24518846	110487670	129	101799											
CHST1	8534	broad.mit.edu	37	chr11	45671632	45671632	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggccggtggacacggagTtggagaagtcctcgcacacc	9	6	15	11	3	0	2	0	1	0	1	2	5	1	4	3	5	0	2	3	5	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:45671632T>G	uc001mys.1	-	4	1513	c.842A>C	c.(841-843)AAC>ACC	p.N281T		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	281	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		GGACACGGAGTTGGAGAAGTC	0.637													7	86					0	0	0.00308	0	0		G	45671632	G	G	45671632	3	3	210	1	0	0	0	0	1	0	0	0	3400	1725	60	5	397	5	CHST1	11	45671632	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	21152786	45671632	89334884	130	101800											
OR4C11	219429	broad.mit.edu	37	chr11	55371655	55371655	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagcaagaatctgcaaaGgacaaataaaatagaaagaa	25	4	8	4	0	1	3	0	0	1	3	1	5	1	4	0	1	2	2	0	1	11	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:55371655G>C	uc010rii.1	-	1	195	c.195C>G	c.(193-195)TCC>TCG	p.S65S		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AATCTGCAAAGGACAAATAAA	0.408													33	15					0	0	0.012213	0	0		C	55371655	C	C	55371655	2	2	210	1	0	0	0	0	0	0	0	1	11064	987	35	5		5	OR4C11	11	55371655	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	9700023	55371655	79634861	131	101801											
OR5D14	219436	broad.mit.edu	37	chr11	55563243	55563243	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttagtcacctctcttttgTtgatttttgttactcttcca	5	21	4	11	0	3	1	1	1	2	0	5	1	4	1	3	0	1	2	3	0	2	8			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:55563243T>G	uc010rim.1	+	1	212	c.212T>G	c.(211-213)GTT>GGT	p.V71G		NM_001004735	NP_001004735	Q8NGL3	OR5DE_HUMAN	olfactory receptor, family 5, subfamily D,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3		all_epithelial(135;0.196)				CTCTCTTTTGTTGATTTTTGT	0.383													29	56					0	0	0.005443	0	0		G	55563243	G	G	55563243	3	3	210	1	0	0	0	0	1	0	0	0	11174	1725	60	5	214	5	OR5D14	11	55563243	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	191588	55563243	79443273	132	101802											
OR8K3	219473	broad.mit.edu	37	chr11	56086292	56086292	+	Silent	SNP	C	A	A	0	0	0	1	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	tttactttatccttctgtggCtacaacgtcattagtcattt	8	19	5	9	1	3	0	2	0	1	0	4	0	4	0	1	1	3	1	1	1	5	8			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:56086292C>A	uc010rjf.1	+	1	510	c.510C>A	c.(508-510)GGC>GGA	p.G170G		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					CCTTCTGTGGCTACAACGTCA	0.378													6	75					2.7689e-08	3.06986e-08	0.001984	1	0		A	56086292	A	A	56086292	2	1	210	1	0	0	0	0	0	0	0	1	11263	784	28	5		5	OR8K3	11	56086292	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	523049	56086292	78920224	133	101803											
OR8K3	219473	broad.mit.edu	37	chr11	56086642	56086642	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatccccatgttgaatccctTgatctatagtttacgaaaca	12	14	5	10	1	1	2	0	2	1	0	3	3	3	2	3	0	2	2	3	0	6	7			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:56086642T>C	uc010rjf.1	+	1	860	c.860T>C	c.(859-861)TTG>TCG	p.L287S		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	287	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					TTGAATCCCTTGATCTATAGT	0.353													25	29					0	0	0.016522	0	0		C	56086642	C	C	56086642	3	2	210	1	0	0	0	0	1	0	0	0	11263	1821	63	3	862	3	OR8K3	11	56086642	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	350	56086642	78919874	134	101804											
OR10Q1	219960	broad.mit.edu	37	chr11	57995417	57995417	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcagaggctgctttacggaTaatggcactcctcagagcac	10	9	11	11	1	2	2	2	0	0	2	3	3	3	3	1	3	3	4	1	3	2	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:57995417T>A	uc010rkd.1	-	1	931	c.931A>T	c.(931-933)ATC>TTC	p.I311F		NM_001004471	NP_001004471	Q8NGQ4	O10Q1_HUMAN	olfactory receptor, family 10, subfamily Q,	311	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Breast(21;0.0589)				GCTTTACGGATAATGGCACTC	0.498													24	178					0	0	0.016522	0	0		A	57995417	A	A	57995417	3	1	210	1	0	0	0	0	1	0	0	0	10935	1406	49	5	32	5	OR10Q1	11	57995417	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	1908775	57995417	77011099	135	101805											
TCN1	6947	broad.mit.edu	37	chr11	59622291	59622291	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagttataggctcatcagCggagatgttgaagttacctg	11	11	11	8	1	2	2	2	1	0	1	2	3	2	2	1	2	2	4	1	2	4	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:59622291C>T	uc001noj.2	-	7	1053	c.955G>A	c.(955-957)GCT>ACT	p.A319T		NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor	319					cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GGCTCATCAGCGGAGATGTTG	0.398													5	71					0	0	0.014758	0	0		T	59622291	T	T	59622291	3	4	210	1	0	0	0	0	1	0	0	0	15731	768	27	1	358	1	TCN1	11	59622291	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	1626874	59622291	75384225	136	101806											
SCGB1D2	10647	broad.mit.edu	37	chr11	62010904	62010904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taggagtgaagagatgcacgGatcagatgtcccttcagaaa	14	8	12	7	1	2	4	2	1	0	3	3	7	3	6	1	2	1	1	1	2	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:62010904G>A	uc001ntb.2	+	2	255	c.199G>A	c.(199-201)GAT>AAT	p.D67N		NM_006551	NP_006542	O95969	SG1D2_HUMAN	lipophilin B precursor	67						extracellular space	binding				0						GAGATGCACGGATCAGATGTC	0.453													31	63					0	0	0.010818	0	0		A	62010904	A	A	62010904	3	1	210	1	0	0	0	0	1	0	0	0	13922	1174	41	4	205	4	SCGB1D2	11	62010904	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	2388613	62010904	72995612	137	101807											
CASP4	837	broad.mit.edu	37	chr11	104825729	104825729	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cttttttctgtggttgccttCtgttagaaatagaaagattc	9	18	8	6	0	2	3	0	0	2	3	3	3	2	3	1	1	1	2	1	1	4	8			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:104825729C>T	uc001pid.1	-	2	81	c.8_splice	c.e2-1	p.E3_splice	CASP4_uc001pib.1_Splice_Site|CASP4_uc009yxg.1_Splice_Site|CASP4_uc010rux.1_Splice_Site_p.E3_splice|CASP4_uc010ruy.1_Splice_Site_p.E3_splice	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor						apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		TGGTTGCCTTCTGTTAGAAAT	0.368													9	69					0	0	0.004482	0	0		T	104825729	T	T	104825729	5	4	210	1	0	0	0	0	0	0	1	0	2676	927	32	4	1154	4	CASP4	11	104825729	Splice_Site	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	42814825	104825729	30180787	138	101808											
DIXDC1	85458	broad.mit.edu	37	chr11	111835363	111835363	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacctgcgacaagatctcCgggatggggtgatcctggca	9	7	15	10	2	1	2	0	1	1	1	3	5	2	4	3	5	1	1	3	5	1	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:111835363C>T	uc001pml.2	+	2	448	c.151C>T	c.(151-153)CGG>TGG	p.R51W	DIXDC1_uc001pmj.2_Missense_Mutation_p.R44W|DIXDC1_uc001pmk.2_Missense_Mutation_p.R51W	NM_001037954	NP_001033043	Q155Q3	DIXC1_HUMAN	DIX domain containing 1 isoform a	51	CH.				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytosol|focal adhesion	actin binding|gamma-tubulin binding|signal transducer activity			ovary(1)	1		all_cancers(61;7.58e-15)|all_epithelial(67;5.42e-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;2.99e-07)|BRCA - Breast invasive adenocarcinoma(274;6.72e-07)|all cancers(92;6.25e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.0548)		ACAAGATCTCCGGGATGGGGT	0.517													6	5					0	0	0.001168	0	0		T	111835363	T	T	111835363	3	4	210	1	0	0	0	0	1	0	0	0	4547	643	23	1	157	1	DIXDC1	11	111835363	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	7009634	111835363	23171153	139	101809											
ANKK1	255239	broad.mit.edu	37	chr11	113270344	113270344	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacctgctgaagagtggagcGgtccctgatgcccttgacca	8	8	12	13	1	0	4	0	3	0	1	1	5	1	5	4	2	3	1	4	2	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:113270344G>C	uc001pny.2	+	8	1747	c.1653G>C	c.(1651-1653)GCG>GCC	p.A551A		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	551	ANK 6.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		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)		AGAGTGGAGCGGTCCCTGATG	0.592													5	6					0	0	0.014758	0	0		C	113270344	C	C	113270344	2	2	210	1	0	0	0	0	0	0	0	1	631	1103	39	5		5	ANKK1	11	113270344	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1434981	113270344	21736172	140	101810											
ANKK1	255239	broad.mit.edu	37	chr11	113270418	113270418	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggggcaaatacctgatctGcaagatgctgctcaggtacg	11	8	12	10	1	2	2	1	1	1	1	2	2	2	2	1	3	5	5	1	3	4	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:113270418G>T	uc001pny.2	+	8	1821	c.1727G>T	c.(1726-1728)TGC>TTC	p.C576F		NM_178510	NP_848605	Q8NFD2	ANKK1_HUMAN	ankyrin repeat and kinase domain containing 1	576	ANK 7.						ATP binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|ovary(1)|breast(1)	8		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)		TACCTGATCTGCAAGATGCTG	0.612													4	10					0.000602214	0.000631953	0.014758	1	0		T	113270418	T	T	113270418	3	4	210	1	0	0	0	0	1	0	0	0	631	1319	46	5	1757	5	ANKK1	11	113270418	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	74	113270418	21736098	141	101811											
MFRP	83552	broad.mit.edu	37	chr11	119216153	119216153	+	Silent	SNP	A	T	T	1	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	aggagggggccttcaggctcAggggagagttccaagcgatc	9	6	17	9	1	2	1	2	0	0	1	4	4	3	2	2	6	1	2	2	6	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:119216153A>T	uc001pwj.2	-	5	778	c.618T>A	c.(616-618)CCT>CCA	p.P206P	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Silent_p.P206P	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	Error:Variant_position_missing_in_Q9BXJ0_after_alignment						collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		CTTCAGGCTCAGGGGAGAGTT	0.507													11	27					0	0	0.010729	0	0		T	119216153	T	T	119216153	2	4	210	1	0	0	0	0	0	0	0	1	9544	175	7	5		5	MFRP	11	119216153	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	5945735	119216153	15790363	142	101812											
OR6M1	390261	broad.mit.edu	37	chr11	123676313	123676313	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacaaagatgttgctcccgtGggcaatggagacaacagtga	13	7	12	9	1	0	3	0	1	0	2	1	4	1	3	1	2	2	3	1	2	3	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:123676313G>T	uc010rzz.1	-	1	745	c.745C>A	c.(745-747)CAC>AAC	p.H249N		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	249	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		TTGCTCCCGTGGGCAATGGAG	0.512													10	68					0.000442599	0.000466375	0.006214	1	0		T	123676313	T	T	123676313	3	4	210	1	0	0	0	0	1	0	0	0	11224	1348	47	5	199	5	OR6M1	11	123676313	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	4460160	123676313	11330203	143	101813											
ST3GAL4	6484	broad.mit.edu	37	chr11	126277484	126277484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtagaggatctgctcctccGggtgctagccatcaccagct	7	10	11	13	1	2	1	1	0	1	1	4	2	4	2	4	2	4	4	4	2	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:126277484G>A	uc001qds.2	+	6	515	c.296G>A	c.(295-297)CGG>CAG	p.R99Q	ST3GAL4_uc001qdt.2_Missense_Mutation_p.R95Q|ST3GAL4_uc009zcc.2_Intron|ST3GAL4_uc009zcd.2_Missense_Mutation_p.R88Q|ST3GAL4_uc001qdu.2_Missense_Mutation_p.R95Q|ST3GAL4_uc001qdv.2_Missense_Mutation_p.R99Q|ST3GAL4_uc009zce.2_Missense_Mutation_p.R95Q|ST3GAL4_uc001qdw.2_Missense_Mutation_p.R88Q|ST3GAL4_uc001qdx.1_Missense_Mutation_p.R88Q|ST3GAL4_uc001qdy.2_5'UTR|ST3GAL4_uc001qdz.2_5'UTR	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	99	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		CTGCTCCTCCGGGTGCTAGCC	0.587													39	94					0	0	0.00623	0	0		A	126277484	A	A	126277484	3	1	210	1	0	0	0	0	1	0	0	0	15242	1116	39	1	302	1	ST3GAL4	11	126277484	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	2601171	126277484	8729032	144	101814											
ARHGAP32	9743	broad.mit.edu	37	chr11	128840133	128840133	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctatacctgtagtggacccGgccattctcaaagtaaggct	10	10	10	11	1	1	0	1	0	1	0	2	1	1	1	3	3	1	4	3	3	5	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:128840133G>A	uc009zcp.2	-	22	4933	c.4933C>T	c.(4933-4935)CGG>TGG	p.R1645W	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.R604W|ARHGAP32_uc001qez.2_Missense_Mutation_p.R1296W	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1645	Interaction with GAB2.				cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TAGTGGACCCGGCCATTCTCA	0.498													5	60					0	0	0.001168	0	0		A	128840133	A	A	128840133	3	1	210	1	0	0	0	0	1	0	0	0	881	1115	39	1	1334	1	ARHGAP32	11	128840133	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	2562649	128840133	6166383	145	101815											
NTM	50863	broad.mit.edu	37	chr11	132177584	132177584	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttaccggttttcccgcagcGgttggctttgtgagtgaaga	6	13	14	8	3	0	3	0	2	0	1	1	3	1	3	2	3	2	5	2	3	2	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr11:132177584G>A	uc001qgp.2	+	4	1192	c.528G>A	c.(526-528)GCG>GCA	p.A176A	NTM_uc001qgm.2_Silent_p.A176A|NTM_uc010sch.1_Silent_p.A167A|NTM_uc010sci.1_Silent_p.A176A|NTM_uc010scj.1_Silent_p.A135A|NTM_uc001qgo.2_Silent_p.A176A|NTM_uc001qgq.2_Silent_p.A176A|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	176	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						TTCCCGCAGCGGTTGGCTTTG	0.468													20	21					0	0	0.007413	0	0		A	132177584	A	A	132177584	2	1	210	1	0	0	0	0	0	0	0	1	10718	1130	39	1		1	NTM	11	132177584	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	3337451	132177584	2828932	146	101816											
CD163L1	283316	broad.mit.edu	37	chr12	7531675	7531675	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcccctccagtgcagccaGaattcgacattaagatgtgt	10	11	8	12	1	0	2	0	0	0	2	3	3	2	2	4	0	2	1	4	0	2	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr12:7531675G>T	uc001qsy.2	-	9	2296	c.2270C>A	c.(2269-2271)TCT>TAT	p.S757Y	CD163L1_uc010sge.1_Missense_Mutation_p.S767Y	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	757	SRCR 7.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						AGTGCAGCCAGAATTCGACAT	0.458													42	50					1.47244e-24	1.80516e-24	0.00623	1	0		T	7531675	T	T	7531675	3	4	210	1	0	0	0	0	1	0	0	0	2971	942	33	5	2135	5	CD163L1	12	7531675	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		7531675	126320220	147	101817											
KCNJ8	3764	broad.mit.edu	37	chr12	21919302	21919302	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcctcaggtcacccactcgGaacatgaagcacagcttgcc	10	8	8	15	1	2	1	2	1	0	0	4	2	3	2	3	2	4	2	3	2	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr12:21919302G>T	uc001rff.2	-	3	968	c.630C>A	c.(628-630)TTC>TTA	p.F210L		NM_004982	NP_004973	Q15842	IRK8_HUMAN	potassium inwardly-rectifying channel J8	210	Cytoplasmic (By similarity).					voltage-gated potassium channel complex					0					Levosimendan(DB00922)	CACCCACTCGGAACATGAAGC	0.493													40	63					1.96642e-18	2.38779e-18	0.006999	1	0		T	21919302	T	T	21919302	3	4	210	1	0	0	0	0	1	0	0	0	8072	1165	41	5	648	5	KCNJ8	12	21919302	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	14387627	21919302	111932593	148	101818											
ITPR2	3709	broad.mit.edu	37	chr12	26868257	26868257	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcccagagtgctttagaaCtagtagcagaagtagctgat	12	12	10	7	0	0	4	0	1	0	3	1	4	1	4	1	0	4	5	1	0	6	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr12:26868257C>A	uc001rhg.2	-	8	1247	c.830G>T	c.(829-831)AGT>ATT	p.S277I		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	277	Cytoplasmic (Potential).|MIR 3.				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					TGCTTTAGAACTAGTAGCAGA	0.358													10	86					0.000442599	0.000466375	0.006214	1	0		A	26868257	A	A	26868257	3	1	210	1	0	0	0	0	1	0	0	0	7937	565	20	5	7475	5	ITPR2	12	26868257	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	4948955	26868257	106983638	149	101819											
CAPRIN2	65981	broad.mit.edu	37	chr12	30867934	30867934	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gataggaattggttattaatCtcccaccacgagtacatcct	12	12	7	10	1	1	0	0	0	1	0	3	3	2	1	3	2	1	2	3	2	5	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr12:30867934C>G	uc001rji.1	-	15	3360	c.2609G>C	c.(2608-2610)AGA>ACA	p.R870T	CAPRIN2_uc001rjf.1_Missense_Mutation_p.R666T|CAPRIN2_uc001rjg.1_Missense_Mutation_p.R537T|CAPRIN2_uc001rjh.1_Missense_Mutation_p.R820T|CAPRIN2_uc001rjj.1_Missense_Mutation_p.R536T|CAPRIN2_uc001rjk.3_Missense_Mutation_p.R869T|CAPRIN2_uc001rjl.3_Missense_Mutation_p.R814T|CAPRIN2_uc001rjm.1_3'UTR	NM_001002259	NP_001002259	Q6IMN6	CAPR2_HUMAN	C1q domain containing 1 isoform 1	870					negative regulation of cell growth|negative regulation of translation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of dendrite morphogenesis|positive regulation of dendritic spine morphogenesis|positive regulation of peptidyl-serine phosphorylation|positive regulation of protein binding|positive regulation of transcription from RNA polymerase II promoter	mitochondrion|receptor complex	receptor binding|RNA binding			ovary(1)|central_nervous_system(1)	2	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)					GGTTATTAATCTCCCACCACG	0.423													31	79					0	0	0.009535	0	0		G	30867934	G	G	30867934	3	3	210	1	0	0	0	0	1	0	0	0	2639	913	32	5	790	5	CAPRIN2	12	30867934	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	3999677	30867934	102983961	150	101820											
GPD1	2819	broad.mit.edu	37	chr12	50498370	50498370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaggggctcagccatcGccaagatcgtgggtggcaat	9	6	13	13	2	1	1	1	0	0	1	3	1	1	1	4	4	1	2	4	4	2	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr12:50498370G>A	uc001rvz.2	+	2	88	c.55G>A	c.(55-57)GCC>ACC	p.A19T	GPD1_uc010smp.1_Missense_Mutation_p.A19T|GPD1_uc001rwa.2_Missense_Mutation_p.A19T	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	19					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	CTCAGCCATCGCCAAGATCGT	0.592													8	69					0	0	0.00308	0	0		A	50498370	A	A	50498370	3	1	210	1	0	0	0	0	1	0	0	0	6619	1087	38	1	61	1	GPD1	12	50498370	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	19630436	50498370	83353525	151	101821											
TRHDE	29953	broad.mit.edu	37	chr12	72866849	72866849	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttaattttgttactgcagtgGtttggtgaccttgtgacgcc	6	17	11	7	1	0	2	0	2	0	0	0	2	0	2	2	2	2	3	2	2	2	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr12:72866849G>T	uc001sxa.2	+	5	1368	c.1338G>T	c.(1336-1338)TGG>TGT	p.W446C		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	446	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TACTGCAGTGGTTTGGTGACC	0.363													8	113					0.00448238	0.0046089	0.004482	1	0		T	72866849	T	T	72866849	3	4	210	1	0	0	0	0	1	0	0	0	16505	1270	44	5	1356	5	TRHDE	12	72866849	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	22368479	72866849	60985046	152	101822											
TBX3	6926	broad.mit.edu	37	chr12	115112484	115112484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctgtcccggggccgctcaGcagcgaaaaggtgagccttg	7	6	15	13	4	1	1	1	1	0	0	2	2	2	1	3	3	3	3	3	3	2	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr12:115112484G>A	uc001tvt.1	-	7	2220	c.1256C>T	c.(1255-1257)GCT>GTT	p.A419V	TBX3_uc001tvu.1_Missense_Mutation_p.A399V	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	419					anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		GGGCCGCTCAGCAGCGAAAAG	0.721													3	14					0	0	0.004672	0	0		A	115112484	A	A	115112484	3	1	210	1	0	0	0	0	1	0	0	0	15684	971	34	2	983	2	TBX3	12	115112484	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	42245635	115112484	18739411	153	101823											
MAB21L1	4081	broad.mit.edu	37	chr13	36049843	36049843	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctttaccacatcccggtAgctacatttgtctaccgctt	8	14	5	14	2	2	0	0	0	2	0	3	0	3	0	3	1	4	3	3	1	4	7			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr13:36049843A>T	uc001uvc.2	-	1	990	c.433T>A	c.(433-435)TAC>AAC	p.Y145N	NBEA_uc001uvb.2_Intron|NBEA_uc010abi.2_Intron|NBEA_uc010tee.1_Intron|NBEA_uc010tef.1_5'Flank|NBEA_uc010teg.1_5'Flank	NM_005584	NP_005575	Q13394	MB211_HUMAN	mab-21-like protein 1	145					anatomical structure morphogenesis	nucleus				ovary(2)	2		Breast(139;0.014)|Lung SC(185;0.051)|Prostate(109;0.202)		all cancers(112;9.63e-08)|Epithelial(112;1.37e-06)|BRCA - Breast invasive adenocarcinoma(63;0.000659)|OV - Ovarian serous cystadenocarcinoma(117;0.00372)|GBM - Glioblastoma multiforme(144;0.115)		ACATCCCGGTAGCTACATTTG	0.557													24	35					0	0	0.016522	0	0		T	36049843	T	T	36049843	3	4	210	1	0	0	0	0	1	0	0	0	9159	420	15	5	650	5	MAB21L1	13	36049843	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08		36049843	79120035	154	101824											
NKX2-1	7080	broad.mit.edu	37	chr14	36987124	36987124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccggcgcttcctgcgcggcgCgcttggcagcggggccatgt	2	7	17	15	7	0	0	0	0	0	0	1	0	1	0	3	5	2	3	3	5	0	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr14:36987124C>T	uc001wtt.2	-	2	816	c.475G>A	c.(475-477)GCG>ACG	p.A159T	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Missense_Mutation_p.A189T|NKX2-1_uc001wtv.2_Missense_Mutation_p.A159T|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	159					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		CTGCGCGGCGCGCTTGGCAGC	0.692			A		NSCLC								5	10					0	0	0.014758	0	0		T	36987124	T	T	36987124	3	4	210	1	0	0	0	0	1	0	0	0	10468	768	27	1	644	1	NKX2-1	14	36987124	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		36987124	70362416	155	101825											
NRXN3	9369	broad.mit.edu	37	chr14	80164096	80164096	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttgaaagtactgaacatggCggctgagaacaaccccaata	15	8	9	9	1	0	3	0	3	0	1	0	4	0	3	2	2	4	2	2	2	7	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr14:80164096C>T	uc001xun.2	+	15	3112	c.2621C>T	c.(2620-2622)GCG>GTG	p.A874V	NRXN3_uc001xum.1_RNA|NRXN3_uc001xup.2_RNA|NRXN3_uc001xuq.2_Missense_Mutation_p.A242V|NRXN3_uc010asw.2_Missense_Mutation_p.A272V|NRXN3_uc001xur.3_Missense_Mutation_p.A242V	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	1247	Extracellular (Potential).|Laminin G-like 6.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		CTGAACATGGCGGCTGAGAAC	0.478													7	40					0	0	0.001984	0	0		T	80164096	T	T	80164096	3	4	210	1	0	0	0	0	1	0	0	0	10686	768	27	1	3016	1	NRXN3	14	80164096	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	43176972	80164096	27185444	156	101826											
SERPINA10	51156	broad.mit.edu	37	chr14	94754794	94754794	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcaaaggtggaggcaaacTtgcctgcaccgtacatcatg	11	9	11	10	1	2	0	2	0	0	0	2	1	2	1	2	3	4	3	2	3	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr14:94754794T>G	uc001yct.2	-	3	1287	c.821A>C	c.(820-822)AAG>ACG	p.K274T	SERPINA10_uc001ycu.3_Missense_Mutation_p.K274T	NM_016186	NP_057270	Q9UK55	ZPI_HUMAN	serine (or cysteine) proteinase inhibitor, clade	274					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3		all_cancers(154;0.105)		Epithelial(152;0.135)|COAD - Colon adenocarcinoma(157;0.207)|all cancers(159;0.221)		GGAGGCAAACTTGCCTGCACC	0.488													20	44					0	0	0.010504	0	0		G	94754794	G	G	94754794	3	3	210	1	0	0	0	0	1	0	0	0	14112	1609	56	5	525	5	SERPINA10	14	94754794	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	14590698	94754794	12594746	157	101827											
MKRN3	7681	broad.mit.edu	37	chr15	23811299	23811299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attcgcacgacctttctggtCggaagatggccactgagggt	8	10	13	10	3	1	2	0	1	1	1	3	4	1	3	2	4	0	1	2	4	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr15:23811299C>T	uc001ywh.3	+	1	846	c.370C>T	c.(370-372)CGG>TGG	p.R124W	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.R124W	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	124						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		CCTTTCTGGTCGGAAGATGGC	0.597													24	45					0	0	0.016522	0	0		T	23811299	T	T	23811299	3	4	210	1	0	0	0	0	1	0	0	0	9626	875	31	1	372	1	MKRN3	15	23811299	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		23811299	78720093	158	101828											
HAUS2	55142	broad.mit.edu	37	chr15	42855984	42855984	+	Missense_Mutation	SNP	A	G	G	1	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	tggagttggctgtgactttcAttgagagattagaaacccac	11	12	11	7	0	1	4	1	2	0	2	1	6	1	5	1	2	1	2	1	2	2	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr15:42855984A>G	uc001zqe.2	+	5	487	c.427A>G	c.(427-429)ATT>GTT	p.I143V	HAUS2_uc010udi.1_Missense_Mutation_p.I112V|HAUS2_uc001zqf.2_Missense_Mutation_p.I49V	NM_018097	NP_060567	Q9NVX0	HAUS2_HUMAN	centrosomal protein 27kDa isoform 1	143					cell division|centrosome organization|G2/M transition of mitotic cell cycle|mitosis|spindle assembly	centrosome|cytosol|HAUS complex|microtubule|spindle					0						TGTGACTTTCATTGAGAGATT	0.303													12	117					0	0	0.013537	0	0		G	42855984	G	G	42855984	3	3	210	1	0	0	0	0	1	0	0	0	6982	217	8	3	445	3	HAUS2	15	42855984	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	19044685	42855984	59675408	159	101829											
CDAN1	146059	broad.mit.edu	37	chr15	43018353	43018353	+	Silent	SNP	C	A	A	0	0	0	1	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	tgctgctcagcaggtgggcaCaggaactgcggttggggtgg	6	8	19	8	1	1	0	1	0	0	0	1	1	1	1	0	7	5	5	0	7	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr15:43018353C>A	uc001zql.2	-	25	3327	c.3210G>T	c.(3208-3210)CTG>CTT	p.L1070L	CDAN1_uc001zqj.2_RNA|CDAN1_uc001zqk.2_Silent_p.L396L	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	1070						integral to membrane	protein binding			ovary(2)	2		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)		CAGGTGGGCACAGGAACTGCG	0.562													7	53					2.0095e-06	2.18984e-06	0.001984	1	0		A	43018353	A	A	43018353	2	1	210	1	0	0	0	0	0	0	0	1	3057	465	17	5		5	CDAN1	15	43018353	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	162369	43018353	59513039	160	101830											
SERF2	10169	broad.mit.edu	37	chr15	44085229	44085229	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgaaaaagcagagcgactcgGttaagggaaagcgccgagat	15	5	14	7	4	0	3	0	1	0	2	1	6	0	4	1	2	3	2	1	2	4	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr15:44085229G>C	uc001zsz.3	+	2	162	c.64G>C	c.(64-66)GTT>CTT	p.V22L	ELL3_uc001zsx.1_Intron|SERF2_uc010bdq.2_Missense_Mutation_p.V22L|SERF2_uc010uee.1_5'UTR|C15orf63_uc001ztb.2_5'UTR	NM_001018108	NP_001018118	P84101	SERF2_HUMAN	small EDRK-rich factor 2	22						cytosol|nucleus					0		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)		GAGCGACTCGGTTAAGGGAAA	0.597													5	15					0	0	0.001168	0	0		C	44085229	C	C	44085229	3	2	210	1	0	0	0	0	1	0	0	0	14101	1261	44	5	70	5	SERF2	15	44085229	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1066876	44085229	58446163	161	101831											
TNFAIP8L3	388121	broad.mit.edu	37	chr15	51350609	51350609	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttcttctgggcttgaagCgcaagactctttgaactaaa	11	13	8	9	1	4	3	0	2	4	1	4	3	4	3	0	1	2	2	0	1	5	5	rs140282835		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr15:51350609C>T	uc001zyy.2	-	3	448	c.348G>A	c.(346-348)GCG>GCA	p.A116A		NM_207381	NP_997264	Q5GJ75	TP8L3_HUMAN	tumor necrosis factor, alpha-induced protein	116											0				all cancers(107;0.000389)|GBM - Glioblastoma multiforme(94;0.00338)		GGGCTTGAAGCGCAAGACTCT	0.353													31	30					0	0	0.007291	0	0		T	51350609	T	T	51350609	2	4	210	1	0	0	0	0	0	0	0	1	16304	755	27	1		1	TNFAIP8L3	15	51350609	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	7265380	51350609	51180783	162	101832											
DMXL2	23312	broad.mit.edu	37	chr15	51773769	51773769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaatgagcaaaggatgagttCgaaggtagttataaaaacta	18	9	11	3	1	0	2	0	2	0	0	1	5	0	3	0	2	2	4	0	2	9	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr15:51773769C>T	uc002abf.2	-	24	5759	c.5534G>A	c.(5533-5535)CGA>CAA	p.R1845Q	DMXL2_uc002abd.2_5'UTR|DMXL2_uc010ufy.1_Missense_Mutation_p.R1845Q|DMXL2_uc010bfa.2_Missense_Mutation_p.R1209Q	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	1845						cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		AGGATGAGTTCGAAGGTAGTT	0.348													15	57					0	0	0.00245	0	0		T	51773769	T	T	51773769	3	4	210	1	0	0	0	0	1	0	0	0	4601	884	31	1	3659	1	DMXL2	15	51773769	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	423160	51773769	50757623	163	101833											
UNC13C	440279	broad.mit.edu	37	chr15	54307481	54307481	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctgataagactttcagctTcccaaaatttggatctacac	12	14	5	10	0	3	2	1	1	2	1	4	3	4	3	1	1	2	1	1	1	4	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr15:54307481T>C	uc002ack.2	+	1	2381	c.2381T>C	c.(2380-2382)TTC>TCC	p.F794S		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	794					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		ACTTTCAGCTTCCCAAAATTT	0.443													7	14					0	0	0.001984	0	0		C	54307481	C	C	54307481	3	2	210	1	0	0	0	0	1	0	0	0	17012	1783	62	3	2383	3	UNC13C	15	54307481	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	2533712	54307481	48223911	164	101834											
MSLNL	401827	broad.mit.edu	37	chr16	824881	824881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtgagttaagggcaatgCgctgggcagcggtcagccgg	8	6	18	9	3	1	1	1	1	0	0	1	1	1	1	1	4	3	5	1	4	2	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr16:824881C>T	uc002cjz.1	-	7	1691	c.1691G>A	c.(1690-1692)CGC>CAC	p.R564H		NM_001025190	NP_001020361	Q96KJ4	MSLNL_HUMAN	mesothelin-like	213	Extracellular (Potential).				cell adhesion	integral to membrane				breast(3)|ovary(1)	4						AAGGGCAATGCGCTGGGCAGC	0.706													13	24					0	0	0.001855	0	0		T	824881	T	T	824881	3	4	210	1	0	0	0	0	1	0	0	0	9900	768	27	1	1510	1	MSLNL	16	824881	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		824881	89529872	165	101835											
CACNA1H	8912	broad.mit.edu	37	chr16	1270395	1270395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgggcagacgagcagtggCggccctcggcggagctgggc	5	3	20	13	5	0	1	0	0	0	1	1	3	0	2	2	6	2	3	2	6	0	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr16:1270395C>T	uc002cks.2	+	35	6711	c.6463C>T	c.(6463-6465)CGG>TGG	p.R2155W	CACNA1H_uc002ckt.2_Missense_Mutation_p.R2149W|CACNA1H_uc002cku.2_Missense_Mutation_p.R850W|CACNA1H_uc010brj.2_Missense_Mutation_p.R866W|CACNA1H_uc002ckv.2_Missense_Mutation_p.R844W	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	2155	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CGAGCAGTGGCGGCCCTCGGC	0.726													13	28					0	0	0.013537	0	0		T	1270395	T	T	1270395	3	4	210	1	0	0	0	0	1	0	0	0	2548	759	27	1	6597	1	CACNA1H	16	1270395	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	445514	1270395	89084358	166	101836											
EARS2	124454	broad.mit.edu	37	chr16	23546255	23546255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgatgtccaacaaggaatcGggcaggaagccatcagcagc	14	5	12	10	1	1	1	1	1	0	0	3	3	2	3	2	3	4	2	2	3	4	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr16:23546255G>A	uc002dlt.3	-	4	944	c.912C>T	c.(910-912)CCC>CCT	p.P304P	EARS2_uc002dlr.3_RNA|EARS2_uc002dls.3_RNA|EARS2_uc002dlu.2_Silent_p.P304P	NM_001083614	NP_001077083	Q5JPH6	SYEM_HUMAN	glutamyl-tRNA synthetase 2 precursor	304					glutamyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|glutamate-tRNA ligase activity|RNA binding				0				GBM - Glioblastoma multiforme(48;0.0353)	L-Glutamic Acid(DB00142)	ACAAGGAATCGGGCAGGAAGC	0.483													13	27					0	0	0.013537	0	0		A	23546255	A	A	23546255	2	1	210	1	0	0	0	0	0	0	0	1	4884	1103	39	1		1	EARS2	16	23546255	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	22275860	23546255	66808498	167	101837											
CACNG3	10368	broad.mit.edu	37	chr16	24372925	24372925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcccaccctacaggtatcGattccggaggcggtcaagtt	8	9	10	14	3	1	0	1	0	0	0	4	2	3	1	4	4	1	2	4	4	3	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr16:24372925G>A	uc002dmf.2	+	4	1889	c.689G>A	c.(688-690)CGA>CAA	p.R230Q		NM_006539	NP_006530	O60359	CCG3_HUMAN	voltage-dependent calcium channel gamma-3	230					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0				GBM - Glioblastoma multiforme(48;0.0809)		TACAGGTATCGATTCCGGAGG	0.537													37	112					0	0	0.015359	0	0		A	24372925	A	A	24372925	3	1	210	1	0	0	0	0	1	0	0	0	2561	1058	37	1	703	1	CACNG3	16	24372925	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	826670	24372925	65981828	168	101838											
TMEM219	124446	broad.mit.edu	37	chr16	29982737	29982737	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acccctccctaggaggagctGgctctgtgtggctccaggct	5	9	13	14	0	1	0	0	0	1	0	3	2	3	2	4	5	1	4	4	5	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr16:29982737G>T	uc002duw.2	+	5	761	c.594G>T	c.(592-594)CTG>CTT	p.L198L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TMEM219_uc002duy.2_Silent_p.L198L|TMEM219_uc010bzk.1_Silent_p.L198L|TMEM219_uc002duz.2_Silent_p.L198L|TMEM219_uc010bzl.1_RNA|TAOK2_uc002dva.1_5'Flank|TAOK2_uc002dvb.1_5'Flank|TAOK2_uc002dvc.1_5'Flank	NM_194280	NP_919256	Q86XT9	TM219_HUMAN	transmembrane protein 219	198						integral to membrane					0						AGGAGGAGCTGGCTCTGTGTG	0.602													21	124					2.37509e-13	2.76552e-13	0.010504	1	0		T	29982737	T	T	29982737	2	4	210	1	0	0	0	0	0	0	0	1	16167	1335	47	5		5	TMEM219	16	29982737	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	5609812	29982737	60372016	169	101839											
SALL1	6299	broad.mit.edu	37	chr16	51174933	51174933	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaaagggctggggaaaacCgagttagcggaggcttgctg	10	6	18	7	2	0	0	0	0	0	0	0	3	0	2	1	6	3	5	1	6	4	2	rs79302764		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr16:51174933C>T	uc010vgs.1	-	2	1231	c.1200G>A	c.(1198-1200)TCG>TCA	p.S400S	SALL1_uc010vgr.1_Silent_p.S303S|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	400					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			TGGGGAAAACCGAGTTAGCGG	0.493													49	30					0	0	0.01441	0	0		T	51174933	T	T	51174933	2	4	210	1	0	0	0	0	0	0	0	1	13835	639	23	1		1	SALL1	16	51174933	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	21192196	51174933	39179820	170	101840											
CDH15	1013	broad.mit.edu	37	chr16	89254540	89254540	+	Silent	SNP	A	G	G	1	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	gccatagaggccgtcagcggAgtggatgtgggacgcctgga	8	6	18	9	3	1	1	1	0	0	1	1	5	1	5	3	5	1	0	3	5	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr16:89254540A>G	uc002fmt.2	+	7	902	c.825A>G	c.(823-825)GGA>GGG	p.G275G		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	275	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0261)		CCGTCAGCGGAGTGGATGTGG	0.662													7	4					0	0	0.001984	0	0		G	89254540	G	G	89254540	2	3	210	1	0	0	0	0	0	0	0	1	3103	291	11	3		3	CDH15	16	89254540	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	38079607	89254540	1100213	171	101841											
XAF1	54739	broad.mit.edu	37	chr17	6674284	6674284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcatcctgcttcccctgcCgatcctaaatcaacatcagg	9	10	7	15	1	2	0	2	0	0	0	5	1	5	0	5	2	3	2	5	2	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:6674284C>T	uc002gdn.2	+	6	1072	c.830C>T	c.(829-831)CCG>CTG	p.P277L	XAF1_uc002gdm.1_Missense_Mutation_p.P217L|XAF1_uc002gdo.2_Missense_Mutation_p.P258L|XAF1_uc002gdp.2_Missense_Mutation_p.P226L|XAF1_uc002gdq.2_Missense_Mutation_p.P109L|XAF1_uc002gdr.2_Missense_Mutation_p.P207L	NM_017523	NP_059993	Q6GPH4	XAF1_HUMAN	XIAP associated factor 1 isoform 1	277					apoptosis|type I interferon-mediated signaling pathway	mitochondrion|nucleus	zinc ion binding				0						CTTCCCCTGCCGATCCTAAAT	0.493													7	41					0	0	0.001984	0	0		T	6674284	T	T	6674284	3	4	210	1	0	0	0	0	1	0	0	0	17445	652	23	1	852	1	XAF1	17	6674284	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		6674284	74520926	172	101842											
TP53	7157	broad.mit.edu	37	chr17	7577082	7577082	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tttcttgcggagattctcttCctctgtgcgccggtctctcc	2	16	9	14	3	4	1	0	0	4	1	8	2	6	1	3	2	2	0	3	2	0	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:7577082C>T	uc002gim.2	-	8	1050	c.856G>A	c.(856-858)GAA>AAA	p.E286K	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.E286K|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.E154K|TP53_uc010cng.1_Missense_Mutation_p.E154K|TP53_uc002gii.1_Missense_Mutation_p.E154K|TP53_uc010cnh.1_Missense_Mutation_p.E286K|TP53_uc010cni.1_Missense_Mutation_p.E286K|TP53_uc002gij.2_Missense_Mutation_p.E286K	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	286	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		E -> V (in sporadic cancers; somatic mutation).|E -> K (in sporadic cancers; somatic mutation).|E -> D (in sporadic cancers; somatic mutation).|E -> L (in a sporadic cancer; somatic mutation; requires 2 nucleotide substitutions).|E -> G (in sporadic cancers; somatic mutation).|E -> Q (in sporadic cancers; somatic mutation).|E -> A (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.E286K(52)|p.E286*(14)|p.E286G(14)|p.0?(7)|p.E286V(6)|p.E286Q(5)|p.?(2)|p.E286D(2)|p.E286E(2)|p.R283fs*16(2)|p.E286fs*59(2)|p.E286fs*17(2)|p.E285_N288delEEEN(1)|p.R282_E287delRRTEEE(1)|p.T284_G293del10(1)|p.G279fs*59(1)|p.E285fs*13(1)|p.L265_K305del41(1)|p.T284fs*57(1)|p.R283fs*56(1)|p.E286A(1)|p.V272_K292del21(1)|p.R283fs*59(1)|p.E285_L289delEEENL(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGATTCTCTTCCTCTGTGCGC	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			14	12					0	0	0.00245	0	0		T	7577082	T	T	7577082	3	4	210	1	0	0	0	0	1	0	0	0	16407	864	30	4	430	4	TP53	17	7577082	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	902798	7577082	73618128	173	101843											
SLFN11	91607	broad.mit.edu	37	chr17	33690124	33690124	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtgtttgcaaatgcagggaCgtattctggaattgtccttt	9	15	11	6	1	1	0	0	0	1	0	2	2	2	2	1	2	2	4	1	2	3	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:33690124C>T	uc010ctp.2	-	4	1145	c.703G>A	c.(703-705)GTC>ATC	p.V235I	SLFN11_uc010ctq.2_Missense_Mutation_p.V235I|SLFN11_uc002hjh.3_Missense_Mutation_p.V235I|SLFN11_uc002hjg.3_Missense_Mutation_p.V235I|SLFN11_uc010ctr.2_Missense_Mutation_p.V235I	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	235						nucleus	ATP binding			large_intestine(1)|ovary(1)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		AATGCAGGGACGTATTCTGGA	0.403													44	88					0	0	0.007835	0	0		T	33690124	T	T	33690124	3	4	210	1	0	0	0	0	1	0	0	0	14758	536	19	1	2018	1	SLFN11	17	33690124	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	26113042	33690124	47505086	174	101844											
GPATCH8	23131	broad.mit.edu	37	chr17	42478621	42478622	+	Frame_Shift_Del	DEL	GC	-	-																															cttgggaggctaacccaggaGcctgggccagtccagtggta																										TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:42478621_42478622delGC	uc002igw.1	-	8	887_888	c.823_824delGC	c.(823-825)GCTfs	p.A275fs	GPATCH8_uc002igv.1_Frame_Shift_Del_p.A197fs|GPATCH8_uc010wiz.1_Frame_Shift_Del_p.A197fs	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	275						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		TAACCCAGGAGCCTGGGCCAGT	0.485													50	95	---	---	---	---						.	-	42478622	-	-	42478621	7	5	210	1	0	1	0	1	0	0	0	0	6609	971	34	0	3688	0	GPATCH8	17	42478621	Frame_Shift_Del	DEL	GC	TCGA-HU-A4GP-01A-11D-A25D-08	8788497	42478621	38716589	175	101845											
FZD2	2535	broad.mit.edu	37	chr17	42636253	42636253	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgacggcgacctgctgagCggcgtgtgcttcgtaggcct	5	9	15	12	6	0	1	0	1	0	0	2	3	0	1	2	3	3	3	2	3	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:42636253C>T	uc002igx.1	+	1	1329	c.1197C>T	c.(1195-1197)AGC>AGT	p.S399S		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	399	Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		ACCTGCTGAGCGGCGTGTGCT	0.657													37	61					0	0	0.004289	0	0		T	42636253	T	T	42636253	2	4	210	1	0	0	0	0	0	0	0	1	6144	767	27	1		1	FZD2	17	42636253	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	157632	42636253	38558957	176	101846											
SP6	80320	broad.mit.edu	37	chr17	45924989	45924989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcaggtgcgccttcaggtgCgacgtcttggcgtaggcttt	4	11	15	11	5	2	0	1	0	1	0	2	1	2	0	1	4	2	3	1	4	1	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:45924989C>T	uc002img.1	-	2	1139	c.807G>A	c.(805-807)TCG>TCA	p.S269S	SP6_uc002imh.1_Silent_p.S269S	NM_199262	NP_954871	Q3SY56	SP6_HUMAN	Sp6 transcription factor	269	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						CCTTCAGGTGCGACGTCTTGG	0.662													7	43					0	0	0.001984	0	0		T	45924989	T	T	45924989	2	4	210	1	0	0	0	0	0	0	0	1	14993	755	27	1		1	SP6	17	45924989	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	3288736	45924989	35270221	177	101847											
MTMR4	9110	broad.mit.edu	37	chr17	56589814	56589814	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagatggcaatgagggcatcGgctgcccggcccaggaactc	9	5	15	12	2	0	2	0	1	0	1	2	4	0	3	2	5	2	3	2	5	2	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:56589814G>A	uc002iwj.2	-	4	257	c.147C>T	c.(145-147)GCC>GCT	p.A49A	MTMR4_uc010dcx.1_Silent_p.A63A	NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	49						cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGAGGGCATCGGCTGCCCGGC	0.527													21	42					0	0	0.012319	0	0		A	56589814	A	A	56589814	2	1	210	1	0	0	0	0	0	0	0	1	9964	1103	39	1		1	MTMR4	17	56589814	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	10664825	56589814	24605396	178	101848											
TEX14	56155	broad.mit.edu	37	chr17	56700326	56700326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgctaaggatccactgattgCccgaaaatgctgctgcatgg	10	10	11	10	1	0	1	0	1	0	0	1	3	1	2	2	2	5	4	2	2	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr17:56700326C>T	uc010dcz.1	-	4	417	c.299G>A	c.(298-300)GGC>GAC	p.G100D	TEX14_uc002iwr.1_Missense_Mutation_p.G100D|TEX14_uc002iws.1_Missense_Mutation_p.G100D|TEX14_uc010dda.1_5'UTR	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	100	ANK 3.					cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CCACTGATTGCCCGAAAATGC	0.547													7	34					0	0	0.001984	0	0		T	56700326	T	T	56700326	3	4	210	1	0	0	0	0	1	0	0	0	15803	739	26	2	4296	2	TEX14	17	56700326	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	110512	56700326	24494884	179	101849											
C19orf21	126353	broad.mit.edu	37	chr19	758149	758149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagattccatcctcagcccGgccccagatgcccgtgcggc	6	7	10	18	3	2	2	2	0	0	2	4	2	4	2	6	2	3	0	6	2	0	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:758149G>A	uc002lpo.2	+	2	1286	c.1203G>A	c.(1201-1203)CCG>CCA	p.P401P		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	401										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCTCAGCCCGGCCCCAGATG	0.701													11	9					0	0	0.010729	0	0		A	758149	A	A	758149	2	1	210	1	0	0	0	0	0	0	0	1	1916	1103	39	1		1	C19orf21	19	758149	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		758149	58370834	180	101850											
REXO1	57455	broad.mit.edu	37	chr19	1820356	1820356	+	Silent	SNP	G	T	T	0	0	1	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	cggatgacggtggggactttGcccccaaactctttggggat	7	10	14	10	2	1	1	0	1	1	0	1	4	1	4	2	6	2	0	2	6	1	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:1820356G>T	uc002lua.3	-	6	2528	c.2433C>A	c.(2431-2433)GGC>GGA	p.G811G	REXO1_uc010dsq.2_Silent_p.G120G|REXO1_uc010xgs.1_5'UTR|REXO1_uc010dsp.1_5'Flank|uc002lub.1_5'Flank	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3	811						nucleus	exonuclease activity|nucleic acid binding				0		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)		TGGGGACTTTGCCCCCAAACT	0.552													29	60					5.45727e-16	6.44261e-16	0.008361	1	0		T	1820356	T	T	1820356	2	4	210	1	0	0	0	0	0	0	0	1	13266	1306	46	5		5	REXO1	19	1820356	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1062207	1820356	57308627	181	101851											
ZNF57	126295	broad.mit.edu	37	chr19	2918038	2918038	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttgaggatgcacactggagaGaagccttatgagtgtaaaca	14	9	12	6	0	0	3	0	2	0	1	0	6	0	5	1	2	3	2	1	2	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:2918038G>C	uc002lwr.2	+	4	1567	c.1419G>C	c.(1417-1419)GAG>GAC	p.E473D	ZNF57_uc010xha.1_Missense_Mutation_p.E441D	NM_173480	NP_775751	Q68EA5	ZNF57_HUMAN	zinc finger protein 57	473					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|GBM - Glioblastoma multiforme(1328;0.00161)|STAD - Stomach adenocarcinoma(1328;0.18)		ACACTGGAGAGAAGCCTTATG	0.443													9	58					0	0	0.004482	0	0		C	2918038	C	C	2918038	3	2	210	1	0	0	0	0	1	0	0	0	18026	933	33	5	1433	5	ZNF57	19	2918038	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1097682	2918038	56210945	182	101852											
INSR	3643	broad.mit.edu	37	chr19	7132175	7132175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccatggagacttacaatagtCtgtcacgtagaaataggtgg	13	10	11	7	1	2	2	1	0	1	2	2	3	2	2	1	3	1	1	1	3	6	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:7132175C>T	uc002mgd.1	-	14	2945	c.2836G>A	c.(2836-2838)GAC>AAC	p.D946N	INSR_uc002mge.1_Missense_Mutation_p.D934N	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	946	Fibronectin type-III 3.|Extracellular (Potential).				activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	TTACAATAGTCTGTCACGTAG	0.602													10	42					0	0	0.010729	0	0		T	7132175	T	T	7132175	3	4	210	1	0	0	0	0	1	0	0	0	7789	913	32	4	1348	4	INSR	19	7132175	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	4214137	7132175	51996808	183	101853											
MUC16	94025	broad.mit.edu	37	chr19	9071717	9071717	+	Silent	SNP	C	T	T	0	0	0	1	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	cctgtgaaggtgtcaggtggCactgtggacttatcatggtc	7	12	14	8	0	2	1	2	1	0	0	3	2	2	2	1	5	0	1	1	5	2	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:9071717C>T	uc002mkp.2	-	3	15933	c.15729G>A	c.(15727-15729)GTG>GTA	p.V5243V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	5245	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGTCAGGTGGCACTGTGGACT	0.488													22	85					0	0	0.014323	0	0		T	9071717	T	T	9071717	2	4	210	1	0	0	0	0	0	0	0	1	9991	697	25	2		2	MUC16	19	9071717	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	1939542	9071717	50057266	184	101854											
ZNF443	10224	broad.mit.edu	37	chr19	12542658	12542658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgaatgacccatgactttttCtcctctcatactgctttcac	8	16	4	13	0	3	3	2	3	2	0	5	3	3	3	2	0	2	1	2	0	2	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:12542658C>T	uc002mtu.2	-	4	526	c.328G>A	c.(328-330)GAA>AAA	p.E110K		NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443	110					induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						ATGACTTTTTCTCCTCTCATA	0.433													12	54					0	0	0.001855	0	0		T	12542658	T	T	12542658	3	4	210	1	0	0	0	0	1	0	0	0	17941	922	32	4	1691	4	ZNF443	19	12542658	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	3470941	12542658	46586325	185	101855											
NDUFB7	4713	broad.mit.edu	37	chr19	14677059	14677059	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgctcccgctcaaactcCttcatgcgcatcacatagct	8	10	5	18	3	3	0	3	0	0	0	6	0	6	0	3	0	3	4	3	0	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:14677059C>T	uc002mzg.2	-	3	374	c.300G>A	c.(298-300)AAG>AAA	p.K100K		NM_004146	NP_004137	P17568	NDUB7_HUMAN	NADH dehydrogenase (ubiquinone) 1 beta	100					mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			ovary(1)	1					NADH(DB00157)	GCTCAAACTCCTTCATGCGCA	0.672													6	46					0	0	0.001168	0	0		T	14677059	T	T	14677059	2	4	210	1	0	0	0	0	0	0	0	1	10305	680	24	4		4	NDUFB7	19	14677059	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	2134401	14677059	44451924	186	101856											
ZNF675	171392	broad.mit.edu	37	chr19	23836362	23836362	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggattggataaaagctttgCcacattcttcacatttgtag	12	14	8	7	0	2	0	1	0	1	0	2	2	2	2	1	2	2	2	1	2	3	7	rs150723446		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:23836362C>T	uc002nri.2	-	4	1555	c.1373G>A	c.(1372-1374)GGC>GAC	p.G458D		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	458	C2H2-type 12.				bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				AAAAGCTTTGCCACATTCTTC	0.353													18	25					0	0	0.00499	0	0		T	23836362	T	T	23836362	3	4	210	1	0	0	0	0	1	0	0	0	18107	739	26	2	337	2	ZNF675	19	23836362	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	9159303	23836362	35292621	187	101857											
WTIP	126374	broad.mit.edu	37	chr19	34991055	34991055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgcgggctgcagctgagcGgggaggagggacgccgttgc	6	5	20	10	4	0	1	0	1	0	0	0	4	0	4	1	5	5	4	1	5	0	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:34991055G>A	uc002nvm.2	+	8	1174	c.1174G>A	c.(1174-1176)GGG>AGG	p.G392R		NM_001080436	NP_001073905			Wilms tumor 1 interacting protein												0	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)			GCAGCTGAGCGGGGAGGAGGG	0.672													3	17					0	0	0.004672	0	0		A	34991055	A	A	34991055	3	1	210	1	0	0	0	0	1	0	0	0	17436	1116	39	1	1204	1	WTIP	19	34991055	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	11154693	34991055	24137928	188	101858											
ZNF599	148103	broad.mit.edu	37	chr19	35250996	35250996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaatgacatcagccatataaCgacaggctttcccacactca	14	8	6	13	1	2	1	2	1	0	0	3	3	3	1	2	1	2	1	2	1	3	3	rs149040820	byFrequency	TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:35250996C>T	uc010edn.1	-	4	1098	c.710G>A	c.(709-711)CGT>CAT	p.R237H	ZNF599_uc010edm.1_Missense_Mutation_p.R200H	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	237	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			AGCCATATAACGACAGGCTTT	0.473													50	87					0	0	0.01441	0	0		T	35250996	T	T	35250996	3	4	210	1	0	0	0	0	1	0	0	0	18054	536	19	1	1060	1	ZNF599	19	35250996	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	259941	35250996	23877987	189	101859											
ARHGAP33	115703	broad.mit.edu	37	chr19	36276129	36276129	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagaagcagcggaagccagGgggcagcagctggaagacgt	12	2	19	8	2	0	2	0	0	0	2	0	5	0	4	1	5	5	4	1	5	3	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:36276129G>C	uc002obr.1	+	18	1845	c.1760G>C	c.(1759-1761)GGG>GCG	p.G587A	ARHGAP33_uc002obs.1_Missense_Mutation_p.G587A|ARHGAP33_uc002obt.1_Missense_Mutation_p.G451A|ARHGAP33_uc010eel.2_Missense_Mutation_p.G175A|ARHGAP33_uc002obv.1_Missense_Mutation_p.G175A	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	587					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CGGAAGCCAGGGGGCAGCAGC	0.687													6	29					0	0	0.001168	0	0		C	36276129	C	C	36276129	3	2	210	1	0	0	0	0	1	0	0	0	882	1232	43	5	1830	5	ARHGAP33	19	36276129	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	1025133	36276129	22852854	190	101860											
ZNF570	148268	broad.mit.edu	37	chr19	37975729	37975729	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tagccagaattcacaccttgCtcaacatcagagaattcata	15	10	5	11	0	4	2	4	0	0	2	4	3	4	2	2	0	3	1	2	0	5	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:37975729C>A	uc002ogk.1	+	5	1734	c.1205C>A	c.(1204-1206)GCT>GAT	p.A402D	ZNF570_uc010efl.1_Missense_Mutation_p.A458D|ZNF570_uc010xtr.1_Missense_Mutation_p.A199D	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	402	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			TCACACCTTGCTCAACATCAG	0.423													30	37					8.58068e-18	1.03211e-17	0.007291	1	0		A	37975729	A	A	37975729	3	1	210	1	0	0	0	0	1	0	0	0	18027	797	28	5	1219	5	ZNF570	19	37975729	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	1699600	37975729	21153254	191	101861											
PNKP	11284	broad.mit.edu	37	chr19	50370408	50370408	+	Silent	SNP	T	C	C	0	1	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	ggcaggaagatggggggcgcTcccccaggggggctctcgag	6	4	20	11	2	1	1	0	0	1	1	3	3	2	2	2	8	0	3	2	8	1	0			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:50370408T>C	uc002pqh.2	-	1	106	c.54A>G	c.(52-54)GGA>GGG	p.G18G	PNKP_uc002pqg.2_5'Flank|PNKP_uc002pqi.2_5'UTR|PNKP_uc002pqj.2_Silent_p.G18G|PNKP_uc010enm.2_Silent_p.G18G|PNKP_uc002pqk.2_Silent_p.G18G	NM_007254	NP_009185	Q96T60	PNKP_HUMAN	polynucleotide kinase 3' phosphatase	18				G -> E (in Ref. 1; AAD51135).	DNA damage response, detection of DNA damage|DNA-dependent DNA replication|nucleotide-excision repair, DNA damage removal|response to oxidative stress|response to radiation	nucleolus	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|damaged DNA binding|double-stranded DNA binding|endonuclease activity|nucleotide kinase activity|polynucleotide 3'-phosphatase activity|protein binding			ovary(1)|kidney(1)	2		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0118)|OV - Ovarian serous cystadenocarcinoma(262;0.0134)		TGGGGGGCGCTCCCCCAGGGG	0.711								Other_BER_factors					12	32					0	0	0.001855	0	0		C	50370408	C	C	50370408	2	2	210	1	0	0	0	0	0	0	0	1	12166	1538	54	3		3	PNKP	19	50370408	Silent	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	12394679	50370408	8758575	192	101862											
PEG3	5178	broad.mit.edu	37	chr19	57326846	57326846	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctccctatcatgaatcttCtggtgctcagtgaggtcaga	8	14	9	10	0	6	3	3	2	3	1	7	3	6	3	1	2	1	1	1	2	2	3	rs145274958	byFrequency	TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:57326846C>A	uc002qnu.2	-	7	3315	c.2964G>T	c.(2962-2964)CAG>CAT	p.Q988H	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Missense_Mutation_p.Q959H|PEG3_uc002qnv.2_Missense_Mutation_p.Q988H|PEG3_uc002qnw.2_Missense_Mutation_p.Q864H|PEG3_uc002qnx.2_Missense_Mutation_p.Q862H|PEG3_uc010etr.2_Missense_Mutation_p.Q988H	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	988	C2H2-type 5.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CATGAATCTTCTGGTGCTCAG	0.502													24	90					9.57634e-11	1.09016e-10	0.00333	1	0		A	57326846	A	A	57326846	3	1	210	1	0	0	0	0	1	0	0	0	11739	912	32	5	1806	5	PEG3	19	57326846	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	6956438	57326846	1802137	193	101863											
ZNF749	388567	broad.mit.edu	37	chr19	57955724	57955724	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actcaatatgcaccagagagTtcatgctggcaaaaggcttt	13	10	9	9	0	2	1	2	0	0	1	2	2	2	1	1	2	2	5	1	2	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr19:57955724T>A	uc002qoq.2	+	3	1462	c.1208T>A	c.(1207-1209)GTT>GAT	p.V403D	ZNF547_uc002qpm.3_Intron	NM_001023561	NP_001018855	O43361	ZN749_HUMAN	zinc finger protein 749	403	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0264)|Lung(386;0.177)		CACCAGAGAGTTCATGCTGGC	0.423													9	119					0	0	0.006214	0	0		A	57955724	A	A	57955724	3	1	210	1	0	0	0	0	1	0	0	0	18156	1725	60	5	1218	5	ZNF749	19	57955724	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	628878	57955724	1173259	194	101864											
SIRPB1	10326	broad.mit.edu	37	chr20	1558984	1558984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcccacgctgtactcacCgcgcacagacagctcagtgc	9	5	11	16	3	2	1	2	0	0	1	2	2	2	1	2	1	3	4	2	1	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr20:1558984C>T	uc010gai.2	-	2	532	c.433G>A	c.(433-435)GCC>ACC	p.A145T	SIRPB1_uc002wfk.3_Missense_Mutation_p.E145K	NM_006065	NP_006056	O00241	SIRB1_HUMAN	signal-regulatory protein beta 1 isoform 1	145	Extracellular (Potential).				cell junction assembly|cell surface receptor linked signaling pathway	integral to plasma membrane	protein binding			ovary(1)	1						CTGTACTCACCGCGCACAGAC	0.552													24	134					0	0	0.014323	0	0		T	1558984	T	T	1558984	3	4	210	1	0	0	0	0	1	0	0	0	14358	666	23	1	779	1	SIRPB1	20	1558984	Missense_Mutation	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08		1558984	61466536	195	101865											
PTPRT	11122	broad.mit.edu	37	chr20	41101196	41101196	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacgttctgtgggccatgtAccggatctgcaaaacatgca	10	9	10	12	2	2	0	0	0	2	0	2	1	2	1	3	2	4	4	3	2	3	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr20:41101196A>C	uc002xkg.2	-	8	1344	c.1160T>G	c.(1159-1161)GTA>GGA	p.V387G	PTPRT_uc010ggj.2_Missense_Mutation_p.V387G	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	387	Extracellular (Potential).|Fibronectin type-III 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TGGGCCATGTACCGGATCTGC	0.547													26	14					0	0	0.003954	0	0		C	41101196	C	C	41101196	3	2	210	1	0	0	0	0	1	0	0	0	12837	391	14	5	3322	5	PTPRT	20	41101196	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	39542212	41101196	21924324	196	101866											
SLC12A5	57468	broad.mit.edu	37	chr20	44665965	44665965	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgccgtgggcctctgcttcTacctgggcactacctttgca	4	12	11	14	1	2	0	0	0	2	0	2	0	2	0	4	2	5	3	4	2	2	4			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr20:44665965T>A	uc010zxl.1	+	6	698	c.622T>A	c.(622-624)TAC>AAC	p.Y208N	SLC12A5_uc002xra.2_Missense_Mutation_p.Y185N|SLC12A5_uc010zxm.1_Intron|SLC12A5_uc002xrb.2_Missense_Mutation_p.Y185N	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	solute carrier family 12 (potassium-chloride	208	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to membrane	potassium:chloride symporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5		Myeloproliferative disorder(115;0.0122)			Bumetanide(DB00887)|Potassium Chloride(DB00761)	CCTCTGCTTCTACCTGGGCAC	0.572													14	28					0	0	0.00245	0	0		A	44665965	A	A	44665965	3	1	210	1	0	0	0	0	1	0	0	0	14411	1522	53	5	700	5	SLC12A5	20	44665965	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	3564769	44665965	18359555	197	101867											
RAB22A	57403	broad.mit.edu	37	chr20	56886153	56886153	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtttgtggaagacagttttGatccaaacatcaacccaaca	14	10	8	9	0	1	2	1	1	0	1	2	3	2	3	2	2	3	2	2	2	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr20:56886153G>T	uc002xyz.2	+	2	353	c.91G>T	c.(91-93)GAT>TAT	p.D31Y		NM_020673	NP_065724	Q9UL26	RB22A_HUMAN	RAS-related protein RAB-22A	31					endocytosis|endosome organization|protein transport|small GTPase mediated signal transduction	early endosome|endosome membrane|plasma membrane	GTP binding|GTPase activity|protein binding				0	all_epithelial(3;5.09e-14)|Lung NSC(12;0.000122)|all_lung(29;0.00042)		BRCA - Breast invasive adenocarcinoma(13;6.2e-12)|Epithelial(14;4.73e-08)|all cancers(14;4.83e-07)			AGACAGTTTTGATCCAAACAT	0.388													50	70					1.47857e-17	1.77012e-17	0.01441	1	0		T	56886153	T	T	56886153	3	4	210	1	0	0	0	0	1	0	0	0	12934	1290	45	5	97	5	RAB22A	20	56886153	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	12220188	56886153	6139367	198	101868											
TPTE	7179	broad.mit.edu	37	chr21	10941929	10941929	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgattggatttctatagaaAgactgccttccagaagatgg	12	13	10	6	0	1	5	0	1	1	4	2	6	2	6	2	2	1	0	2	2	4	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr21:10941929A>C	uc002yip.1	-	14	1142	c.774T>G	c.(772-774)TCT>TCG	p.S258S	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Silent_p.S240S|TPTE_uc002yir.1_Silent_p.S220S|TPTE_uc010gkv.1_Silent_p.S120S	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	258	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTCTATAGAAAGACTGCCTTC	0.313													26	160					0	0	0.004656	0	0		C	10941929	C	C	10941929	2	2	210	1	0	0	0	0	0	0	0	1	16456	59	3	5		5	TPTE	21	10941929	Silent	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08		10941929	37187966	199	101869											
TPTE	7179	broad.mit.edu	37	chr21	10941963	10941963	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagatggaaatgacatagcaAtaatacgttctaaaagtcaa	20	9	7	5	1	2	2	1	1	1	1	2	3	2	3	0	1	2	2	0	1	9	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr21:10941963A>C	uc002yip.1	-	14	1108	c.740T>G	c.(739-741)ATT>AGT	p.I247S	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.I229S|TPTE_uc002yir.1_Missense_Mutation_p.I209S|TPTE_uc010gkv.1_Missense_Mutation_p.I109S	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	247	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TGACATAGCAATAATACGTTC	0.284													20	161					0	0	0.008871	0	0		C	10941963	C	C	10941963	3	2	210	1	0	0	0	0	1	0	0	0	16456	101	4	5	959	5	TPTE	21	10941963	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	34	10941963	37187932	200	101870											
COL6A2	1292	broad.mit.edu	37	chr21	47545973	47545973	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaacttgcgggcgctgtgCgaccgcgacgtcacagtgac	7	7	13	14	6	2	1	2	1	0	0	2	3	2	1	1	1	3	1	1	1	1	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr21:47545973C>T	uc002zia.1	+	26	2326	c.2244C>T	c.(2242-2244)TGC>TGT	p.C748C	COL6A2_uc002zhy.1_Silent_p.C748C|COL6A2_uc002zhz.1_Silent_p.C748C|COL6A2_uc002zib.1_Silent_p.C154C|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	748	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGGCGCTGTGCGACCGCGACG	0.627													11	121					0	0	0.008291	0	0		T	47545973	T	T	47545973	2	4	210	1	0	0	0	0	0	0	0	1	3703	776	27	1		1	COL6A2	21	47545973	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	36604010	47545973	583922	201	101871											
COL6A2	1292	broad.mit.edu	37	chr21	47552310	47552310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactccatgcgcaagcagaaCgtggtacccaccgtgctggc	9	6	11	15	3	0	1	0	0	0	1	1	1	1	1	3	2	5	4	3	2	3	1	rs143569686		TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr21:47552310C>T	uc002zia.1	+	28	2986	c.2904C>T	c.(2902-2904)AAC>AAT	p.N968N	COL6A2_uc002zib.1_Silent_p.N374N|COL6A2_uc002zic.1_Missense_Mutation_p.T43M|COL6A2_uc010gqe.1_RNA	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	968	Nonhelical region.|VWFA 3.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GCAAGCAGAACGTGGTACCCA	0.667													17	15					0	0	0.00499	0	0		T	47552310	T	T	47552310	2	4	210	1	0	0	0	0	0	0	0	1	3703	535	19	1		1	COL6A2	21	47552310	Silent	SNP	C	TCGA-HU-A4GP-01A-11D-A25D-08	6337	47552310	577585	202	101872											
FAM83F	113828	broad.mit.edu	37	chr22	40417654	40417654	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgaaagacctggttacGgtggagcaggtgctgccccc	7	9	13	12	1	0	2	0	1	0	1	1	3	1	3	4	4	4	3	4	4	2	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr22:40417654G>A	uc003ayk.1	+	4	1234	c.1140G>A	c.(1138-1140)ACG>ACA	p.T380T		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	380										breast(1)	1						ACCTGGTTACGGTGGAGCAGG	0.672													8	27					0	0	0.004482	0	0		A	40417654	A	A	40417654	2	1	210	1	0	0	0	0	0	0	0	1	5652	1103	39	1		1	FAM83F	22	40417654	Silent	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		40417654	10886912	203	101873											
TBC1D22A	25771	broad.mit.edu	37	chr22	47274558	47274558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatcaacagaggaattacGgaggttgagctggtccggaa	12	9	13	7	2	2	2	2	1	0	1	3	5	3	5	1	5	3	2	1	5	4	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chr22:47274558G>A	uc003bib.2	+	5	782	c.647G>A	c.(646-648)CGG>CAG	p.R216Q	TBC1D22A_uc010haf.2_Missense_Mutation_p.R186Q|TBC1D22A_uc003bic.2_Missense_Mutation_p.R157Q|TBC1D22A_uc003bie.2_Missense_Mutation_p.R138Q|TBC1D22A_uc003bid.2_Intron|TBC1D22A_uc010hag.2_RNA|TBC1D22A_uc003bif.2_Missense_Mutation_p.R169Q	NM_014346	NP_055161	Q8WUA7	TB22A_HUMAN	TBC1 domain family, member 22A	216						intracellular	protein homodimerization activity|Rab GTPase activator activity			ovary(1)	1		all_cancers(38;4.44e-05)|all_epithelial(38;0.000507)|Breast(42;0.0488)|all_lung(38;0.0682)|Ovarian(80;0.0731)|all_neural(38;0.0966)|Glioma(61;0.222)|Lung SC(80;0.236)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0347)|BRCA - Breast invasive adenocarcinoma(115;0.231)		GAGGAATTACGGAGGTTGAGC	0.488													5	67					0	0	0.001168	0	0		A	47274558	A	A	47274558	3	1	210	1	0	0	0	0	1	0	0	0	15636	1116	39	1	665	1	TBC1D22A	22	47274558	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08	6856904	47274558	4030008	204	101874											
GPRASP1	9737	broad.mit.edu	37	chrX	101912116	101912116	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acccaggaacatggtacttaGcccagaaggggaagatcagg	14	5	13	9	0	1	2	1	0	0	2	1	4	1	4	2	5	3	1	2	5	5	2			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chrX:101912116G>A	uc004ejj.3	+	5	4076	c.3275G>A	c.(3274-3276)AGC>AAC	p.S1092N	GPRASP1_uc004eji.3_Missense_Mutation_p.S1092N|GPRASP1_uc010nod.2_Missense_Mutation_p.S1092N	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	1092	OPRD1-binding.					cytoplasm	protein binding			ovary(1)|lung(1)	2						ATGGTACTTAGCCCAGAAGGG	0.473													78	59					0	0	0.01441	0	0		A	101912116	A	A	101912116	3	1	210	1	0	0	0	0	1	0	0	0	6738	971	34	2	3277	2	GPRASP1	23	101912116	Missense_Mutation	SNP	G	TCGA-HU-A4GP-01A-11D-A25D-08		101912116	53358444	205	101875											
IRS4	8471	broad.mit.edu	37	chrX	107975886	107975886	+	Missense_Mutation	SNP	T	A	A	0	1	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	tgtcgtcgtcgttgtcagaaTcttctctctccgggggtctt	3	16	11	11	4	5	1	1	0	4	1	10	1	5	1	1	2	0	1	1	2	1	3			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chrX:107975886T>A	uc004eoc.2	-	1	3722	c.3689A>T	c.(3688-3690)GAT>GTT	p.D1230V		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	1230						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						GTTGTCAGAATCTTCTCTCTC	0.552													13	142					0	0	0.00245	0	0		A	107975886	A	A	107975886	3	1	210	1	0	0	0	0	1	0	0	0	7858	1435	50	5	88	5	IRS4	23	107975886	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	6063770	107975886	47294674	206	101876											
IRS4	8471	broad.mit.edu	37	chrX	107978368	107978368	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggagtgggccacaggctcgcTgggtgttacgaagcgcctgg	6	7	18	10	3	0	0	0	0	0	0	1	2	0	1	2	5	2	3	2	5	2	1			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chrX:107978368T>A	uc004eoc.2	-	1	1240	c.1207A>T	c.(1207-1209)AGC>TGC	p.S403C		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	403						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						ACAGGCTCGCTGGGTGTTACG	0.622													10	72					0	0	0.006214	0	0		A	107978368	A	A	107978368	3	1	210	1	0	0	0	0	1	0	0	0	7858	1580	55	5	2570	5	IRS4	23	107978368	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	2482	107978368	47292192	207	101877											
DDX26B	203522	broad.mit.edu	37	chrX	134681170	134681170	+	Missense_Mutation	SNP	A	G	G	1	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	ttttgaaaaaacaggaccagAtccacttcctattggagaag	15	10	8	8	0	0	3	0	1	0	2	2	5	2	4	3	2	1	0	3	2	5	5			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chrX:134681170A>G	uc004eyw.3	+	6	1085	c.722A>G	c.(721-723)GAT>GGT	p.D241G		NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	241											0	Acute lymphoblastic leukemia(192;6.56e-05)					ACAGGACCAGATCCACTTCCT	0.308													69	50					0	0	0.01441	0	0		G	134681170	G	G	134681170	3	3	210	1	0	0	0	0	1	0	0	0	4356	333	12	3	744	3	DDX26B	23	134681170	Missense_Mutation	SNP	A	TCGA-HU-A4GP-01A-11D-A25D-08	26702802	134681170	20589390	208	101878											
MCF2	4168	broad.mit.edu	37	chrX	138699694	138699694	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgtaggagtttatgcattTtgaaggtcctgctgagttgt	7	16	13	5	0	0	2	0	2	0	0	1	3	1	3	1	2	2	6	1	2	3	6			TCGA-HU-A4GP-01A-11D-A25D-08	TCGA-HU-A4GP-11A-21D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	6c332efb-4379-400e-8210-632c08500d5d	bbe91945-306a-4ca7-96cb-474c26bad844	g.chrX:138699694T>A	uc004fau.2	-	8	1271	c.977A>T	c.(976-978)AAA>ATA	p.K326I	MCF2_uc004fav.2_Missense_Mutation_p.K326I|MCF2_uc011mwl.1_Missense_Mutation_p.K287I|MCF2_uc010nsh.1_Missense_Mutation_p.K326I|MCF2_uc011mwm.1_Missense_Mutation_p.K287I|MCF2_uc011mwn.1_Missense_Mutation_p.K471I|MCF2_uc004faw.2_Missense_Mutation_p.K386I|MCF2_uc011mwo.1_Missense_Mutation_p.K386I	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	326					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TTTATGCATTTTGAAGGTCCT	0.403													67	31					0	0	0.01441	0	0		A	138699694	A	A	138699694	3	1	210	1	0	0	0	0	1	0	0	0	9396	1841	64	5	1952	5	MCF2	23	138699694	Missense_Mutation	SNP	T	TCGA-HU-A4GP-01A-11D-A25D-08	4018524	138699694	16570866	209	101879											
KLHL17	339451	broad.mit.edu	37	chr1	898826	898826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctgcctgggtgtggccGccttgcatggactcctgtac	5	10	14	12	1	0	0	0	0	0	0	1	2	1	1	4	3	4	3	4	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:898826G>A	uc001aca.1	+	8	1404	c.1297G>A	c.(1297-1299)GCC>ACC	p.A433T	KLHL17_uc001acc.1_RNA|KLHL17_uc010nyb.1_3'UTR	NM_198317	NP_938073	Q6TDP4	KLH17_HUMAN	kelch-like 17	433	Interaction with F-actin (By similarity).|Kelch 2.				actin cytoskeleton organization	actin cytoskeleton|cell junction|postsynaptic density|postsynaptic membrane	protein complex scaffold				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.52e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.59e-23)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000469)|Kidney(185;0.00227)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)		GGGTGTGGCCGCCTTGCATGG	0.637													11	34					0	0	1	0	0		A	898826	A	A	898826	3	1	211	1	0	0	0	0	1	0	0	0	8388	1087	38	1	1327	1	KLHL17	1	898826	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08		898826	248351795	1	101880											
GLTPD1	80772	broad.mit.edu	37	chr1	1262961	1262961	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctaccacccctgggtcgtgCgccgcgccgtcaccgtggcc	3	6	12	20	6	1	0	1	0	0	0	2	0	1	0	8	2	2	0	8	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:1262961C>T	uc001aeo.2	+	3	878	c.463C>T	c.(463-465)CGC>TGC	p.R155C	CPSF3L_uc001aee.1_5'Flank|CPSF3L_uc001aef.1_5'Flank|CPSF3L_uc009vjz.1_5'Flank|CPSF3L_uc010nyj.1_5'Flank|CPSF3L_uc001aeg.1_5'Flank|CPSF3L_uc001aeh.1_5'Flank|CPSF3L_uc001aei.1_5'Flank|CPSF3L_uc001aej.1_5'Flank|CPSF3L_uc001aek.1_5'Flank|CPSF3L_uc001aem.1_5'Flank|CPSF3L_uc001ael.1_5'Flank|CPSF3L_uc001aen.1_5'Flank	NM_001029885	NP_001025056	Q5TA50	GLTD1_HUMAN	glycolipid transfer protein domain containing 1	155						cytoplasm	glycolipid binding|glycolipid transporter activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;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;4.95e-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;0.199)		CTGGGTCGTGCGCCGCGCCGT	0.721													5	12					0	0	1	0	0		T	1262961	T	T	1262961	3	4	211	1	0	0	0	0	1	0	0	0	6487	768	27	1	469	1	GLTPD1	1	1262961	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	364135	1262961	247987660	2	101881											
ATAD3B	83858	broad.mit.edu	37	chr1	1424619	1424619	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacctcagagccacactgaaCgccttcctgtaccacatggg	10	7	9	15	1	1	2	1	1	0	1	2	3	2	2	5	1	3	1	5	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:1424619C>T	uc001afv.2	+	13	1403	c.1302C>T	c.(1300-1302)AAC>AAT	p.N434N	ATAD3B_uc001afx.2_Silent_p.N388N|ATAD3B_uc001afy.2_5'Flank	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3	434							ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		CCACACTGAACGCCTTCCTGT	0.592													26	109					0	0	1	0	0		T	1424619	T	T	1424619	2	4	211	1	0	0	0	0	0	0	0	1	1075	535	19	1		1	ATAD3B	1	1424619	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	161658	1424619	247826002	3	101882											
SSU72	29101	broad.mit.edu	37	chr1	1480327	1480327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttctggaatctttctggccGgggcttgattctcttatttc	4	18	10	9	1	4	1	0	1	4	0	6	2	4	2	1	4	0	2	1	4	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:1480327G>A	uc001agd.2	-	3	605	c.280C>T	c.(280-282)CGG>TGG	p.R94W	SSU72_uc009vkg.1_Missense_Mutation_p.R94W	NM_014188	NP_054907	Q9NP77	SSU72_HUMAN	Ssu72 RNA polymerase II CTD phosphatase homolog	94					mRNA processing	cytoplasm|nucleus	phosphoprotein phosphatase activity				0	all_cancers(77;0.00125)|all_epithelial(69;0.000703)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.03e-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;5.04e-37)|OV - Ovarian serous cystadenocarcinoma(86;3.72e-23)|GBM - Glioblastoma multiforme(42;1.2e-07)|Colorectal(212;0.000188)|COAD - Colon adenocarcinoma(227;0.000214)|Kidney(185;0.00254)|STAD - Stomach adenocarcinoma(132;0.00645)|BRCA - Breast invasive adenocarcinoma(365;0.00837)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CTTTCTGGCCGGGGCTTGATT	0.473													48	139					0	0	1	0	0		A	1480327	A	A	1480327	3	1	211	1	0	0	0	0	1	0	0	0	15227	1115	39	1	316	1	SSU72	1	1480327	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	55708	1480327	247770294	4	101883											
NADK	65220	broad.mit.edu	37	chr1	1685037	1685037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggatctcttgtctcttccGtccatcaaaggacacccatg	8	11	8	14	2	3	0	1	0	2	0	7	2	5	2	3	2	0	0	3	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:1685037G>A	uc009vkw.2	-	11	1274	c.1153C>T	c.(1153-1155)CGG>TGG	p.R385W	NADK_uc001aic.2_Missense_Mutation_p.R385W|NADK_uc001aid.3_Missense_Mutation_p.R385W|NADK_uc001aie.2_Missense_Mutation_p.R530W|NADK_uc010nyv.1_Missense_Mutation_p.R353W	NM_023018	NP_075394	O95544	NADK_HUMAN	NAD kinase	385					ATP metabolic process|NAD metabolic process|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|NAD+ kinase activity|protein binding				0	all_cancers(77;0.000708)|all_epithelial(69;0.000943)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;5.61e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;8.75e-37)|OV - Ovarian serous cystadenocarcinoma(86;2.33e-23)|GBM - Glioblastoma multiforme(42;1.35e-07)|Colorectal(212;0.000203)|COAD - Colon adenocarcinoma(227;0.000225)|Kidney(185;0.00265)|STAD - Stomach adenocarcinoma(132;0.00655)|BRCA - Breast invasive adenocarcinoma(365;0.00855)|KIRC - Kidney renal clear cell carcinoma(229;0.0382)|Lung(427;0.207)		TGTCTCTTCCGTCCATCAAAG	0.647													11	18					0	0	1	0	0		A	1685037	A	A	1685037	3	1	211	1	0	0	0	0	1	0	0	0	10155	1144	40	1	195	1	NADK	1	1685037	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	204710	1685037	247565584	5	101884											
SKI	6497	broad.mit.edu	37	chr1	2234746	2234746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgggctgtgttcaccctcGccagcgcctctctgctttcc	2	12	9	18	2	2	0	1	0	1	0	5	0	3	0	5	1	2	3	5	1	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:2234746G>A	uc001aja.3	+	3	1190	c.1118G>A	c.(1117-1119)CGC>CAC	p.R373H		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	373					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	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)		GTTCACCCTCGCCAGCGCCTC	0.612													92	225					0	0	1	0	0		A	2234746	A	A	2234746	3	1	211	1	0	0	0	0	1	0	0	0	14382	1087	38	1	1128	1	SKI	1	2234746	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	549709	2234746	247015875	6	101885											
CHD5	26038	broad.mit.edu	37	chr1	6204126	6204126	+	Missense_Mutation	SNP	A	G	G	1	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	tgaggttgtcgtagtaggggAtgtcgatgtcatcgatctcc	7	13	14	7	3	2	1	1	1	1	0	6	4	2	2	1	3	0	3	1	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:6204126A>G	uc001amb.1	-	12	1992	c.1892T>C	c.(1891-1893)ATC>ACC	p.I631T	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	631	Chromo 2.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GTAGTAGGGGATGTCGATGTC	0.602													41	105					0	0	1	0	0		G	6204126	G	G	6204126	3	3	211	1	0	0	0	0	1	0	0	0	3331	333	12	3	4092	3	CHD5	1	6204126	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3969380	6204126	243046495	7	101886											
TNFRSF25	8718	broad.mit.edu	37	chr1	6525249	6525249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caaggcaggtggagttgccgCagggctccgtgcaaggggcc	7	5	18	11	2	0	0	0	0	0	0	1	1	1	1	3	6	2	5	3	6	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:6525249C>T	uc001ane.2	-	3	282	c.194G>A	c.(193-195)TGC>TAC	p.C65Y	TNFRSF25_uc001ana.2_Intron|TNFRSF25_uc001anb.2_RNA|TNFRSF25_uc001anc.2_RNA|TNFRSF25_uc001and.2_Intron|TNFRSF25_uc009vlz.2_Intron|TNFRSF25_uc001anf.2_Missense_Mutation_p.C65Y|TNFRSF25_uc001ang.2_Intron|TNFRSF25_uc001anh.2_Missense_Mutation_p.C65Y|TNFRSF25_uc001ani.1_Missense_Mutation_p.C65Y	NM_003790	NP_003781	Q93038	TNR25_HUMAN	tumor necrosis factor receptor superfamily,	65	TNFR-Cys 1.|Extracellular (Potential).				apoptosis|induction of apoptosis by extracellular signals	cytosol|extracellular region|integral to plasma membrane	tumor necrosis factor receptor activity			central_nervous_system(2)|breast(1)	3	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)		GGAGTTGCCGCAGGGCTCCGT	0.592													7	28					0	0	1	0	0		T	6525249	T	T	6525249	3	4	211	1	0	0	0	0	1	0	0	0	16321	710	25	2	1122	2	TNFRSF25	1	6525249	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	321123	6525249	242725372	8	101887											
RERE	473	broad.mit.edu	37	chr1	8424212	8424212	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataaacggtggcgggtccacGggcttctcaatgggcgggag	8	7	17	9	4	1	0	1	0	1	0	3	1	2	1	1	6	1	1	1	6	3	2	rs146907591		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:8424212G>A	uc001ape.2	-	16	2454	c.1644C>T	c.(1642-1644)CCC>CCT	p.P548P	RERE_uc001apf.2_Silent_p.P548P|RERE_uc010nzx.1_Silent_p.P280P|RERE_uc001apd.2_5'UTR	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	548					multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		GCGGGTCCACGGGCTTCTCAA	0.582													23	71					0	0	1	0	0		A	8424212	A	A	8424212	2	1	211	1	0	0	0	0	0	0	0	1	13256	1103	39	1		1	RERE	1	8424212	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1898963	8424212	240826409	9	101888											
UBE4B	10277	broad.mit.edu	37	chr1	10163014	10163014	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcttcaccaggagccttcCtcgggccctgaagtgtctga	6	11	10	14	1	3	2	1	2	2	0	5	3	4	3	4	2	1	0	4	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:10163014C>A	uc001aqs.3	+	5	1157	c.444C>A	c.(442-444)TCC>TCA	p.S148S	UBE4B_uc001aqr.3_Silent_p.S148S|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	148					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		AGGAGCCTTCCTCGGGCCCTG	0.423													18	39					1.01871e-10	1.08317e-10	1	1	0		A	10163014	A	A	10163014	2	1	211	1	0	0	0	0	0	0	0	1	16909	668	24	5		5	UBE4B	1	10163014	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1738802	10163014	239087607	10	101889											
CASZ1	54897	broad.mit.edu	37	chr1	10699617	10699617	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgggcacggcgcagtcggcGctggagctgaactggcagaa	8	5	17	11	5	0	2	0	1	0	1	2	3	0	3	0	5	2	5	0	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:10699617G>A	uc001aro.2	-	21	4982	c.4662C>T	c.(4660-4662)AGC>AGT	p.S1554S		NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CGCAGTCGGCGCTGGAGCTGA	0.657													16	37					0	0	1	0	0		A	10699617	A	A	10699617	2	1	211	1	0	0	0	0	0	0	0	1	2688	1078	38	1		1	CASZ1	1	10699617	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	536603	10699617	238551004	11	101890											
CASZ1	54897	broad.mit.edu	37	chr1	10708013	10708013	+	Frame_Shift_Del	DEL	G	-	-																															tgcttccaggcgagcagggtGggggtggagggcacggaggc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:10708013delG	uc001aro.2	-	16	3662	c.3342delC	c.(3340-3342)CCCfs	p.P1114fs	CASZ1_uc001arp.1_Frame_Shift_Del_p.P1114fs	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	1114	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		CGAGCAGGGTGGGGGTGGAGG	0.701													20	39	---	---	---	---						.	-	10708013	-	-	10708013	7	5	211	1	0	1	0	1	0	0	0	0	2688	1335	47	0	1965	0	CASZ1	1	10708013	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	8396	10708013	238542608	12	101891											
TARDBP	23435	broad.mit.edu	37	chr1	11082567	11082567	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggagccaaaccaggccttCggttctggaaataactctta	12	9	10	10	1	2	0	0	0	2	0	3	2	2	2	3	4	3	1	3	4	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:11082567C>T	uc001art.2	+	6	1235	c.1101C>T	c.(1099-1101)TTC>TTT	p.F367F	TARDBP_uc010oap.1_Silent_p.F251F	NM_007375	NP_031401	Q13148	TADBP_HUMAN	TAR DNA binding protein	367	Gly-rich.				3'-UTR-mediated mRNA stabilization|cell death|mRNA processing|negative regulation by host of viral transcription|RNA splicing|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;1.04e-05)|all_lung(284;1.31e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00262)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0578)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.37e-07)|COAD - Colon adenocarcinoma(227;7.38e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000299)|Kidney(185;0.000754)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|READ - Rectum adenocarcinoma(331;0.0487)		ACCAGGCCTTCGGTTCTGGAA	0.517													20	58					0	0	1	0	0		T	11082567	T	T	11082567	2	4	211	1	0	0	0	0	0	0	0	1	15582	883	31	1		1	TARDBP	1	11082567	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	374554	11082567	238168054	13	101892											
MTOR	2475	broad.mit.edu	37	chr1	11291032	11291032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgacagcagaggcatccCgggactggtctatcatgcca	9	7	13	12	1	2	2	1	1	1	1	3	3	3	3	2	4	2	3	2	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:11291032C>T	uc001asd.2	-	18	2850	c.2729G>A	c.(2728-2730)CGG>CAG	p.R910Q		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	910					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						AGAGGCATCCCGGGACTGGTC	0.522													28	102					0	0	1	0	0		T	11291032	T	T	11291032	3	4	211	1	0	0	0	0	1	0	0	0	9972	652	23	1	5084	1	MTOR	1	11291032	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	208465	11291032	237959589	14	101893											
KIAA2013	90231	broad.mit.edu	37	chr1	11983333	11983333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgctggacggaggacagcCgccccggccacaggttctcg	6	6	14	15	4	2	0	0	0	2	0	3	3	2	3	4	5	2	2	4	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:11983333C>T	uc001atk.2	-	2	1441	c.1247G>A	c.(1246-1248)CGG>CAG	p.R416Q	KIAA2013_uc001atl.1_Missense_Mutation_p.R416Q	NM_138346	NP_612355	Q8IYS2	K2013_HUMAN	hypothetical protein LOC90231 precursor	416	Extracellular (Potential).					integral to membrane				ovary(1)	1	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)		GGAGGACAGCCGCCCCGGCCA	0.647													8	25					0	0	1	0	0		T	11983333	T	T	11983333	3	4	211	1	0	0	0	0	1	0	0	0	8283	652	23	1	665	1	KIAA2013	1	11983333	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	692301	11983333	237267288	15	101894											
PRAMEF2	65122	broad.mit.edu	37	chr1	12921076	12921076	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taacttcttgatctccacagGtgcctccagaaccccttgga	9	11	7	14	0	2	2	0	1	2	1	4	3	3	3	5	2	3	0	5	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:12921076G>A	uc001aum.1	+	4	954	c.867G>A	c.(865-867)AGG>AGA	p.R289R		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	289											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;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)		ATCTCCACAGGTGCCTCCAGA	0.458													21	152					0	0	1	0	0		A	12921076	A	A	12921076	2	1	211	1	0	0	0	0	0	0	0	1	12457	1275	44	4		4	PRAMEF2	1	12921076	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	937743	12921076	236329545	16	101895											
PRAMEF14	729528	broad.mit.edu	37	chr1	13668962	13668962	+	Frame_Shift_Del	DEL	G	-	-																															gatgagccacaggaagggcaGggggtgggaccaatgaagat																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:13668962delG	uc009vnw.1	-	4	1407	c.1224delC	c.(1222-1224)CCCfs	p.P408fs		NM_001099854	NP_001093324	Q5SWL7	PRA14_HUMAN	PRAME family member 14	408											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		AGGAAGGGCAGGGGGTGGGAC	0.557													5	3	---	---	---	---						.	-	13668962	-	-	13668962	7	5	211	1	0	1	0	1	0	0	0	0	12452	987	35	0	1353	0	PRAMEF14	1	13668962	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	747886	13668962	235581659	17	101896											
PLEKHM2	23207	broad.mit.edu	37	chr1	16053856	16053856	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcacctggtgctcccgtgCtgagcccccagaccagtcct	6	7	10	18	1	0	2	0	1	0	1	2	2	2	2	6	1	4	3	6	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:16053856C>A	uc010obo.1	+	9	1516	c.1289C>A	c.(1288-1290)GCT>GAT	p.A430D		NM_015164	NP_055979	Q8IWE5	PKHM2_HUMAN	pleckstrin homology domain containing, family M	430					Golgi organization	cytoplasm	kinesin binding			ovary(1)	1		Colorectal(325;0.000259)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00057)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)		TGCTCCCGTGCTGAGCCCCCA	0.652													4	13					0.00909568	0.00920264	1	1	0		A	16053856	A	A	16053856	3	1	211	1	0	0	0	0	1	0	0	0	12100	797	28	5	1323	5	PLEKHM2	1	16053856	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2384894	16053856	233196765	18	101897											
EPHA2	1969	broad.mit.edu	37	chr1	16455930	16455930	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaaaggggcctgacttactCgttggtcatctgcaccacct	8	10	11	12	1	2	1	1	1	1	0	3	2	2	2	3	4	2	2	3	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:16455930C>T	uc001aya.1	-	16	2961	c.2824G>A	c.(2824-2826)GAC>AAC	p.D942N		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	942	SAM.|Cytoplasmic (Potential).|Negatively regulates interaction with ARHGEF16.				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	CTGACTTACTCGTTGGTCATC	0.637													25	67					0	0	1	0	0		T	16455930	T	T	16455930	3	4	211	1	0	0	0	0	1	0	0	0	5175	898	31	1	114	1	EPHA2	1	16455930	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	402074	16455930	232794691	19	101898											
PADI1	29943	broad.mit.edu	37	chr1	17565179	17565179	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagagaagaaagaagagggTtatggggaggcagcccagtt	15	5	16	5	0	0	4	0	0	0	4	0	6	0	5	1	4	1	3	1	4	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:17565179T>G	uc001bah.1	+	13	1619	c.1527T>G	c.(1525-1527)GGT>GGG	p.G509G	PADI1_uc010oco.1_Silent_p.G66G|PADI1_uc010ocp.1_Silent_p.G66G|PADI1_uc010ocq.1_5'UTR|PADI1_uc009vpb.1_5'Flank	NM_013358	NP_037490	Q9ULC6	PADI1_HUMAN	peptidylarginine deiminase type I	509					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity				0		Colorectal(325;3.46e-05)|Breast(348;0.000162)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.00054)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00522)|BRCA - Breast invasive adenocarcinoma(304;1.3e-05)|COAD - Colon adenocarcinoma(227;1.31e-05)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(196;0.0069)|READ - Rectum adenocarcinoma(331;0.0681)|Lung(427;0.197)	L-Citrulline(DB00155)	AAGAAGAGGGTTATGGGGAGG	0.612													3	13					0	0	1	0	0		G	17565179	G	G	17565179	2	3	211	1	0	0	0	0	0	0	0	1	11396	1712	60	5		5	PADI1	1	17565179	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1109249	17565179	231685442	20	101899											
ARHGEF10L	55160	broad.mit.edu	37	chr1	17975138	17975138	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgatcctggcctgctgcatcCctgccttctcctcccgggca	3	10	9	19	2	1	0	0	0	1	0	5	1	4	0	6	2	3	3	6	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:17975138C>A	uc001ban.2	+	22	2521	c.2362C>A	c.(2362-2364)CCT>ACT	p.P788T	ARHGEF10L_uc009vpe.1_Missense_Mutation_p.P749T|ARHGEF10L_uc001bao.2_Missense_Mutation_p.P749T|ARHGEF10L_uc001bap.2_Missense_Mutation_p.P744T|ARHGEF10L_uc001baq.2_Missense_Mutation_p.P549T|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.P561T|ARHGEF10L_uc001bar.2_Missense_Mutation_p.P491T|ARHGEF10L_uc009vpf.2_RNA	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	788					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		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)		CTGCTGCATCCCTGCCTTCTC	0.642													13	61					4.7546e-09	4.99129e-09	1	1	0		A	17975138	A	A	17975138	3	1	211	1	0	0	0	0	1	0	0	0	895	623	22	5	2444	5	ARHGEF10L	1	17975138	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	409959	17975138	231275483	21	101900											
KLHDC7A	127707	broad.mit.edu	37	chr1	18809182	18809182	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aacccgctcacggggatctgGagcgaggtgtgcccgctgaa	8	6	15	12	4	2	1	1	1	1	0	2	4	2	3	2	4	3	2	2	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:18809182G>A	uc001bax.2	+	1	1759	c.1707G>A	c.(1705-1707)TGG>TGA	p.W569*	KLHDC7A_uc009vpg.2_Nonsense_Mutation_p.W351*	NM_152375	NP_689588	Q5VTJ3	KLD7A_HUMAN	kelch domain containing 7A	569	Kelch 3.					integral to membrane				ovary(2)|upper_aerodigestive_tract(1)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000152)|Lung NSC(340;0.000185)|Breast(348;0.00046)|Renal(390;0.000518)|Ovarian(437;0.0014)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00462)|BRCA - Breast invasive adenocarcinoma(304;1.41e-05)|Kidney(64;0.00017)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		CGGGGATCTGGAGCGAGGTGT	0.672													6	14					0	0	1	0	0		A	18809182	A	A	18809182	4	1	211	1	0	0	0	0	0	1	0	0	8376	1183	41	4	1709	4	KLHDC7A	1	18809182	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	834044	18809182	230441439	22	101901											
TAS1R2	80834	broad.mit.edu	37	chr1	19180947	19180947	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcctgtgggccccactcGcggaactcactgaagcccgg	7	5	12	17	3	1	1	1	1	0	0	2	2	1	2	5	3	3	0	5	3	2	0	rs142043699		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:19180947G>A	uc001bba.1	-	3	1018	c.1017C>T	c.(1015-1017)CGC>CGT	p.R339R		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	339	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		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)	GGCCCCACTCGCGGAACTCAC	0.652													5	25					0	0	1	0	0		A	19180947	A	A	19180947	2	1	211	1	0	0	0	0	0	0	0	1	15588	1074	38	1		1	TAS1R2	1	19180947	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	371765	19180947	230069674	23	101902											
UBR4	23352	broad.mit.edu	37	chr1	19488089	19488089	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggtcctctcaccaaacaGctgccatcttccttggctcc	7	10	8	16	0	2	0	1	0	2	0	6	1	5	0	5	2	3	2	5	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:19488089G>A	uc001bbi.2	-	37	5173	c.5169C>T	c.(5167-5169)AGC>AGT	p.S1723S	UBR4_uc001bbm.1_Silent_p.S934S	NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	1723	UBR-type.				interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		TCACCAAACAGCTGCCATCTT	0.493													25	74					0	0	1	0	0		A	19488089	A	A	19488089	2	1	211	1	0	0	0	0	0	0	0	1	16930	962	34	2		2	UBR4	1	19488089	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	307142	19488089	229762532	24	101903											
KIF17	57576	broad.mit.edu	37	chr1	21031055	21031055	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcattgatgcgcggcttgttCctgatgttcttggcccggtt	3	16	12	10	3	2	2	1	2	1	0	3	2	3	2	2	3	1	4	2	3	0	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:21031055C>T	uc001bdr.3	-	5	1126	c.1008G>A	c.(1006-1008)AGG>AGA	p.R336R	KIF17_uc001bds.3_Silent_p.R336R	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	336					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		GCGGCTTGTTCCTGATGTTCT	0.587													22	59					0	0	1	0	0		T	21031055	T	T	21031055	2	4	211	1	0	0	0	0	0	0	0	1	8295	854	30	4		4	KIF17	1	21031055	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1542966	21031055	228219566	25	101904											
ECE1	1889	broad.mit.edu	37	chr1	21582577	21582577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggatggcctcctcgtcccCgccgcccagcagcttcccca	4	6	9	22	4	0	0	0	0	0	0	4	1	3	1	9	2	2	2	9	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:21582577C>T	uc001bek.2	-	8	958	c.883G>A	c.(883-885)GGG>AGG	p.G295R	ECE1_uc001bem.2_Missense_Mutation_p.G279R|ECE1_uc001bej.2_Missense_Mutation_p.G283R|ECE1_uc001bei.2_Missense_Mutation_p.G292R|ECE1_uc010odl.1_Missense_Mutation_p.G295R|ECE1_uc009vqa.1_Missense_Mutation_p.G295R	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	295	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		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)		TCCTCGTCCCCGCCGCCCAGC	0.617													30	75					0	0	1	0	0		T	21582577	T	T	21582577	3	4	211	1	0	0	0	0	1	0	0	0	4895	652	23	1	1477	1	ECE1	1	21582577	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	551522	21582577	227668044	26	101905											
ECE1	1889	broad.mit.edu	37	chr1	21585263	21585263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggtgaggtgcggtagtgggCggtgaccacctgcagggtgt	5	8	21	7	2	0	2	0	2	0	0	0	2	0	2	2	6	2	2	2	6	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:21585263C>T	uc001bek.2	-	6	760	c.685G>A	c.(685-687)GCC>ACC	p.A229T	ECE1_uc001bem.2_Missense_Mutation_p.A213T|ECE1_uc001bej.2_Missense_Mutation_p.A217T|ECE1_uc001bei.2_Missense_Mutation_p.A226T|ECE1_uc010odl.1_Missense_Mutation_p.A229T|ECE1_uc009vqa.1_Missense_Mutation_p.A229T	NM_001397	NP_001388	P42892	ECE1_HUMAN	endothelin converting enzyme 1 isoform 1	229	Extracellular (Potential).				bradykinin catabolic process|calcitonin catabolic process|ear development|embryonic digit morphogenesis|endothelin maturation|heart development|positive regulation of receptor recycling|substance P catabolic process	early endosome|external side of plasma membrane|integral to membrane|intrinsic to endosome membrane|membrane fraction|perinuclear region of cytoplasm|plasma membrane|Weibel-Palade body	metal ion binding|metalloendopeptidase activity|protein homodimerization activity			ovary(2)|skin(1)	3		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)		CGGTAGTGGGCGGTGACCACC	0.597													20	32					0	0	1	0	0		T	21585263	T	T	21585263	3	4	211	1	0	0	0	0	1	0	0	0	4895	768	27	1	1683	1	ECE1	1	21585263	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2686	21585263	227665358	27	101906											
HSPG2	3339	broad.mit.edu	37	chr1	22166330	22166330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacacctgtggctgagcagcGcaaggtggccgtgtgtccag	7	7	15	12	2	0	1	0	1	0	0	1	1	1	1	3	3	2	3	3	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:22166330G>A	uc001bfj.2	-	72	9734	c.9694C>T	c.(9694-9696)CGC>TGC	p.R3232C	HSPG2_uc009vqd.2_Missense_Mutation_p.R3233C	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	3232	Ig-like C2-type 18.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GCTGAGCAGCGCAAGGTGGCC	0.617													11	39					0	0	1	0	0		A	22166330	A	A	22166330	3	1	211	1	0	0	0	0	1	0	0	0	7446	1087	38	1	3585	1	HSPG2	1	22166330	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	581067	22166330	227084291	28	101907											
HSPG2	3339	broad.mit.edu	37	chr1	22178284	22178284	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctggtggccccactcacGgtaggctaagttggccccct	6	8	12	15	1	1	0	1	0	0	0	1	0	1	0	5	5	1	3	5	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:22178284G>T	uc001bfj.2	-	54	7046	c.7006C>A	c.(7006-7008)CCT>ACT	p.P2336T	HSPG2_uc009vqd.2_Missense_Mutation_p.P2337T	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2336	Ig-like C2-type 8.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCCCACTCACGGTAGGCTAAG	0.632													12	93					5.50884e-06	5.72164e-06	1	1	0		T	22178284	T	T	22178284	3	4	211	1	0	0	0	0	1	0	0	0	7446	1130	39	5	6345	5	HSPG2	1	22178284	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	11954	22178284	227072337	29	101908											
LUZP1	7798	broad.mit.edu	37	chr1	23418797	23418797	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgagtctggcttctctctgCcactggatttgatgactcga	6	14	10	11	1	3	3	0	3	3	0	5	5	3	4	1	2	1	1	1	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:23418797C>T	uc001bgk.2	-	4	2342	c.1958G>A	c.(1957-1959)GGC>GAC	p.G653D	LUZP1_uc010odv.1_Missense_Mutation_p.G653D|LUZP1_uc001bgl.2_Missense_Mutation_p.G653D|LUZP1_uc001bgm.1_Missense_Mutation_p.G653D	NM_033631	NP_361013	Q86V48	LUZP1_HUMAN	leucine zipper protein 1	653						nucleus					0		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Ovarian(437;0.00373)|Breast(348;0.00815)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.88e-27)|Colorectal(126;8.36e-08)|COAD - Colon adenocarcinoma(152;4.31e-06)|GBM - Glioblastoma multiforme(114;8.64e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00112)|KIRC - Kidney renal clear cell carcinoma(1967;0.00176)|STAD - Stomach adenocarcinoma(196;0.0146)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.0967)|LUSC - Lung squamous cell carcinoma(448;0.199)		CTTCTCTCTGCCACTGGATTT	0.478													41	122					0	0	1	0	0		T	23418797	T	T	23418797	3	4	211	1	0	0	0	0	1	0	0	0	9104	739	26	2	1280	2	LUZP1	1	23418797	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1240513	23418797	225831824	30	101909											
HTR1D	3352	broad.mit.edu	37	chr1	23519758	23519758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggggaggaccagagacaccaCgaagaagggcagccagcaga	15	0	16	10	1	0	3	0	0	0	3	0	7	0	5	3	4	2	2	3	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:23519758C>T	uc001bgn.2	-	1	1465	c.955G>A	c.(955-957)GTG>ATG	p.V319M		NM_000864	NP_000855	P28221	5HT1D_HUMAN	5-hydroxytryptamine (serotonin) receptor 1D	319	Helical; Name=6; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|intestine smooth muscle contraction|synaptic transmission	integral to plasma membrane	serotonin receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000779)|all_lung(284;0.00135)|Breast(348;0.0385)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0561)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;4.69e-27)|Colorectal(126;4.86e-08)|COAD - Colon adenocarcinoma(152;2.86e-06)|GBM - Glioblastoma multiforme(114;0.00012)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(1967;0.00122)|STAD - Stomach adenocarcinoma(196;0.0123)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.083)|LUSC - Lung squamous cell carcinoma(448;0.185)	Almotriptan(DB00918)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Ziprasidone(DB00246)|Zolmitriptan(DB00315)	AGAGACACCACGAAGAAGGGC	0.542													26	75					0	0	1	0	0		T	23519758	T	T	23519758	3	4	211	1	0	0	0	0	1	0	0	0	7454	536	19	1	182	1	HTR1D	1	23519758	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	100961	23519758	225730863	31	101910											
TCEB3	6924	broad.mit.edu	37	chr1	24080896	24080896	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatactctgttcttgaaccCgttttggagaggtgtacacc	8	13	9	11	1	2	2	0	1	2	1	2	3	2	2	3	2	3	3	3	2	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:24080896C>T	uc001bho.2	+	7	1875	c.1815C>T	c.(1813-1815)CCC>CCT	p.P605P		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	605	Activation domain (By similarity).|F-box.				positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		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)		TTCTTGAACCCGTTTTGGAGA	0.473													25	53					0	0	1	0	0		T	24080896	T	T	24080896	2	4	211	1	0	0	0	0	0	0	0	1	15706	639	23	1		1	TCEB3	1	24080896	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	561138	24080896	225169725	32	101911											
MYOM3	127294	broad.mit.edu	37	chr1	24385441	24385441	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccatgatagtggccacatcCggcagacctctcaccacttt	9	10	7	15	1	1	2	1	1	1	1	4	2	3	2	5	2	0	1	5	2	1	2	rs140240337	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:24385441C>T	uc001bin.3	-	36	4186	c.4023G>A	c.(4021-4023)CCG>CCA	p.P1341P	MYOM3_uc001bil.3_Silent_p.P234P|MYOM3_uc001bim.3_Silent_p.P998P	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	1341	Ig-like C2-type 4.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		TGGCCACATCCGGCAGACCTC	0.532													7	14					0	0	1	0	0		T	24385441	T	T	24385441	2	4	211	1	0	0	0	0	0	0	0	1	10111	639	23	1		1	MYOM3	1	24385441	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	304545	24385441	224865180	33	101912											
MYOM3	127294	broad.mit.edu	37	chr1	24417383	24417383	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgctgatggctctcacccGgaaccgatagctctgacctt	7	10	9	15	2	2	2	1	2	2	0	3	4	2	3	4	2	3	3	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:24417383G>A	uc001bin.3	-	12	1499	c.1336C>T	c.(1336-1338)CGG>TGG	p.R446W	MYOM3_uc001bim.3_Missense_Mutation_p.R103W|MYOM3_uc001bio.2_Missense_Mutation_p.R446W|MYOM3_uc001bip.1_Missense_Mutation_p.R103W	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	446	Fibronectin type-III 1.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GCTCTCACCCGGAACCGATAG	0.632													38	103					0	0	1	0	0		A	24417383	A	A	24417383	3	1	211	1	0	0	0	0	1	0	0	0	10111	1115	39	1	3081	1	MYOM3	1	24417383	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	31942	24417383	224833238	34	101913											
RCC1	1104	broad.mit.edu	37	chr1	28856393	28856393	+	Silent	SNP	C	T	T	0	0	0	1	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	aggaagatgtcacccaagcgCatagctaaaagaaggtcccc	15	5	10	11	1	1	2	1	0	0	2	2	3	2	3	3	2	2	2	3	2	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:28856393C>T	uc001bqg.1	+	2	100	c.15C>T	c.(13-15)CGC>CGT	p.R5R	SNHG3-RCC1_uc001bqa.1_Silent_p.R5R|SNHG3-RCC1_uc001bqb.1_Silent_p.R5R|SNHG3-RCC1_uc001bqc.1_Silent_p.R5R|RCC1_uc001bqe.1_Silent_p.R5R|RCC1_uc001bqf.1_Silent_p.R5R	NM_001269	NP_001260	P18754	RCC1_HUMAN	regulator of chromosome condensation 1 isoform	5					cell division|chromosome segregation|G1/S transition of mitotic cell cycle|mitosis|mitotic spindle organization|regulation of mitosis|regulation of S phase of mitotic cell cycle|spindle assembly|viral reproduction	condensed nuclear chromosome|cytoplasm|nuclear chromatin|nuclear membrane|nucleoplasm	histone binding|nucleosomal DNA binding|Ran guanyl-nucleotide exchange factor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000318)|all_lung(284;0.000434)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.00989)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)|Medulloblastoma(700;0.123)		Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|KIRC - Kidney renal clear cell carcinoma(1967;0.0101)|BRCA - Breast invasive adenocarcinoma(304;0.022)|READ - Rectum adenocarcinoma(331;0.0649)		CACCCAAGCGCATAGCTAAAA	0.408													7	28					0	0	1	0	0		T	28856393	T	T	28856393	2	4	211	1	0	0	0	0	0	0	0	1	13198	697	25	2		2	RCC1	1	28856393	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4439010	28856393	220394228	35	101914											
HCRTR1	3061	broad.mit.edu	37	chr1	32084721	32084721	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgaagggagtgggctgaGggctggcccaagctccctcc	6	6	15	14	0	0	2	0	2	0	0	2	3	2	3	4	4	1	3	4	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:32084721G>T	uc009vtx.2	+	3	313	c.-72G>T	c.(-74--70)GAGGG>GATGG		HCRTR1_uc001btb.2_Intron|HCRTR1_uc001btc.3_Translation_Start_Site|HCRTR1_uc001btd.2_Translation_Start_Site|HCRTR1_uc010ogl.1_Translation_Start_Site	NM_001525	NP_001516	O43613	OX1R_HUMAN	orexin receptor 1						feeding behavior|neuropeptide signaling pathway|synaptic transmission	integral to plasma membrane				ovary(1)	1		Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.053)		AGTGGGCTGAGGGCTGGCCCA	0.557													3	8					0.004672	0.00474255	1	1	0		T	32084721	T	T	32084721	1	4	211	1	0	0	0	0	0	0	0	0	7017	1015	35	5		5	HCRTR1	1	32084721	Translation_Start_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3228328	32084721	217165900	36	101915											
BAI2	576	broad.mit.edu	37	chr1	32222255	32222255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtccaggagcagcccgaggcGatggtaggaaagaggtcctg	10	5	17	9	2	0	1	0	0	0	1	2	5	2	3	3	5	2	2	3	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:32222255G>A	uc001btn.2	-	4	537	c.183C>T	c.(181-183)ATC>ATT	p.I61I	BAI2_uc010ogp.1_Silent_p.I49I|BAI2_uc010ogq.1_Silent_p.I61I|BAI2_uc001bto.2_Silent_p.I61I|BAI2_uc001btq.1_Silent_p.I49I|BAI2_uc010ogr.1_Silent_p.I49I	NM_001703	NP_001694	O60241	BAI2_HUMAN	brain-specific angiogenesis inhibitor 2	61	Extracellular (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(5)|breast(4)|ovary(2)|central_nervous_system(1)|skin(1)	13		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0606)|all_neural(195;0.0837)|Breast(348;0.174)		STAD - Stomach adenocarcinoma(196;0.0557)		AGCCCGAGGCGATGGTAGGAA	0.672													4	21					0	0	1	0	0		A	32222255	A	A	32222255	2	1	211	1	0	0	0	0	0	0	0	1	1300	1048	37	1		1	BAI2	1	32222255	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	137534	32222255	217028366	37	101916											
ZNF362	149076	broad.mit.edu	37	chr1	33747277	33747277	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaagccccacaagtgccCgcactgctccaagtcctttg	8	7	9	17	1	0	0	0	0	0	0	2	0	2	0	6	1	3	2	6	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:33747277C>A	uc001bxc.1	+	6	943	c.773C>A	c.(772-774)CCG>CAG	p.P258Q		NM_152493	NP_689706	Q5T0B9	ZN362_HUMAN	zinc finger protein 362	258	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				CACAAGTGCCCGCACTGCTCC	0.582													43	149					7.05121e-23	7.75417e-23	1	1	0		A	33747277	A	A	33747277	3	1	211	1	0	0	0	0	1	0	0	0	17893	652	23	5	791	5	ZNF362	1	33747277	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1525022	33747277	215503344	38	101917											
ZMYM4	9202	broad.mit.edu	37	chr1	35855667	35855667	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gatgttctgtaatcagcaaaGtgtatgtgacccgccttcac	10	12	9	10	1	3	1	2	1	1	0	3	2	3	1	2	0	1	4	2	0	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:35855667G>T	uc001byt.2	+	15	2635	c.2555G>T	c.(2554-2556)AGT>ATT	p.S852I	ZMYM4_uc009vuu.2_Missense_Mutation_p.S820I|ZMYM4_uc001byu.2_Missense_Mutation_p.S528I|ZMYM4_uc009vuv.2_Missense_Mutation_p.S591I	NM_005095	NP_005086	Q5VZL5	ZMYM4_HUMAN	zinc finger protein 262	852					multicellular organismal development		DNA binding|zinc ion binding			large_intestine(2)|ovary(1)|kidney(1)|skin(1)	5		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AATCAGCAAAGTGTATGTGAC	0.393													8	31					7.48243e-07	7.7865e-07	1	1	0		T	35855667	T	T	35855667	3	4	211	1	0	0	0	0	1	0	0	0	17727	1029	36	5	2613	5	ZMYM4	1	35855667	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2108390	35855667	213394954	39	101918											
NCDN	23154	broad.mit.edu	37	chr1	36026083	36026083	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctttgggtgtggccctgCtggcctgcttctgcagtgac	2	12	16	11	0	1	1	0	1	1	0	1	1	1	1	2	4	3	4	2	4	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:36026083C>T	uc001bza.2	+	4	458	c.331C>T	c.(331-333)CTG>TTG	p.L111L	KIAA0319L_uc010ohw.1_5'Flank|NCDN_uc001bzb.2_Silent_p.L111L|NCDN_uc001bzc.2_Silent_p.L94L	NM_001014839	NP_001014839	Q9UBB6	NCDN_HUMAN	neurochondrin isoform 1	111					neuron projection development	cytosol|dendrite|neuronal cell body				large_intestine(2)|pancreas(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGTGGCCCTGCTGGCCTGCTT	0.627													42	128					0	0	1	0	0		T	36026083	T	T	36026083	2	4	211	1	0	0	0	0	0	0	0	1	10233	796	28	2		2	NCDN	1	36026083	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	170416	36026083	213224538	40	101919											
PSMB2	5690	broad.mit.edu	37	chr1	36107026	36107026	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccttggataccgatgaggTactccatggtggcggaaggc	8	8	16	9	2	0	1	0	1	0	0	1	4	1	3	3	7	2	1	3	7	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:36107026T>C	uc001bzf.1	-	1	118	c.8A>G	c.(7-9)TAC>TGC	p.Y3C	PSMB2_uc001bzd.1_Missense_Mutation_p.Y3C|PSMB2_uc010ohz.1_Missense_Mutation_p.Y3C|PSMB2_uc001bzg.1_Missense_Mutation_p.Y3C	NM_002794	NP_002785	P49721	PSB2_HUMAN	proteasome beta 2 subunit	3					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)			Bortezomib(DB00188)	ACCGATGAGGTACTCCATGGT	0.617													13	49					0	0	1	0	0		C	36107026	C	C	36107026	3	2	211	1	0	0	0	0	1	0	0	0	12699	1638	57	3	621	3	PSMB2	1	36107026	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	80943	36107026	213143595	41	101920											
EIF2C3	192669	broad.mit.edu	37	chr1	36520649	36520649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctctgccacacttacgtaCgctgtacacgatctgtttct	8	13	7	13	3	3	0	0	0	3	0	3	1	3	0	1	0	5	5	1	0	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:36520649C>T	uc001bzp.2	+	18	2633	c.2377C>T	c.(2377-2379)CGC>TGC	p.R793C	EIF2C3_uc001bzq.2_Missense_Mutation_p.R559C	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	793	Piwi.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CACTTACGTACGCTGTACACG	0.438													13	37					0	0	1	0	0		T	36520649	T	T	36520649	3	4	211	1	0	0	0	0	1	0	0	0	5013	536	19	1	2447	1	EIF2C3	1	36520649	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	413623	36520649	212729972	42	101921											
MACF1	23499	broad.mit.edu	37	chr1	39929341	39929341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtttcaggtggagcagatcGgagagaataaataccgggta	13	8	15	5	2	1	2	1	0	0	2	2	5	1	4	1	5	2	3	1	5	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:39929341G>A	uc010oiu.1	+	59	17196	c.17065G>A	c.(17065-17067)GGA>AGA	p.G5689R	MACF1_uc010ois.1_Missense_Mutation_p.G5187R|MACF1_uc001cde.1_Missense_Mutation_p.G64R|MACF1_uc001cdf.1_Missense_Mutation_p.G64R	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7145	C-terminal tail (By similarity).|GAR.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			GGAGCAGATCGGAGAGAATAA	0.443													16	69					0	0	1	0	0		A	39929341	A	A	39929341	3	1	211	1	0	0	0	0	1	0	0	0	9162	1117	39	1	22068	1	MACF1	1	39929341	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3408692	39929341	209321280	43	101922											
PPT1	5538	broad.mit.edu	37	chr1	40557001	40557001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcaaagaggcaaagttacCttgatgttgtcccccaaccg	13	8	9	11	1	0	2	0	1	0	1	1	2	1	2	4	1	3	4	4	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:40557001C>T	uc001cfb.2	-	4	665	c.433G>A	c.(433-435)GGT>AGT	p.G145S	PPT1_uc010ojf.1_Missense_Mutation_p.G95S|PPT1_uc010ojg.1_Intron|PPT1_uc009vwa.2_RNA	NM_000310	NP_000301	P50897	PPT1_HUMAN	palmitoyl-protein thioesterase 1 isoform 1	145					brain development|cofactor metabolic process|cofactor transport|DNA fragmentation involved in apoptotic nuclear change|lysosomal lumen acidification|membrane raft organization|negative regulation of cell growth|negative regulation of neuron apoptosis|neuron development|pinocytosis|positive regulation of pinocytosis|positive regulation of receptor-mediated endocytosis|protein depalmitoylation|protein transport|receptor-mediated endocytosis|regulation of synapse structure and activity|sphingolipid catabolic process|visual perception	axon|cytosol|Golgi apparatus|lysosome|membrane fraction|membrane raft|nucleus|synaptic vesicle	palmitoyl-(protein) hydrolase activity|palmitoyl-CoA hydrolase activity			ovary(1)	1	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)			GCAAAGTTACCTTGATGTTGT	0.433													7	20					0	0	1	0	0		T	40557001	T	T	40557001	3	4	211	1	0	0	0	0	1	0	0	0	12433	695	24	4	511	4	PPT1	1	40557001	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	627660	40557001	208693620	44	101923											
COL9A2	1298	broad.mit.edu	37	chr1	40769739	40769739	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggtgctggaactcaccacTttgccgcggggcccggtctt	4	9	15	13	3	2	0	1	0	1	0	2	1	2	1	3	6	3	1	3	6	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:40769739T>G	uc001cfh.1	-	25	1390	c.1320A>C	c.(1318-1320)AAA>AAC	p.K440N	COL9A2_uc001cfi.1_Missense_Mutation_p.K259N	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	440	Triple-helical region 3 (COL3).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	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;2.08e-17)			AACTCACCACTTTGCCGCGGG	0.692													3	5					0	0	1	0	0		G	40769739	G	G	40769739	3	3	211	1	0	0	0	0	1	0	0	0	3711	1606	56	5	781	5	COL9A2	1	40769739	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	212738	40769739	208480882	45	101924											
HIVEP3	59269	broad.mit.edu	37	chr1	42041238	42041238	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccttcgaagattttgatcctCgccggctcccctctctggga	5	12	9	15	3	1	2	0	1	1	1	6	4	3	3	5	2	0	1	5	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:42041238C>T	uc001cgz.3	-	5	6397	c.5184G>A	c.(5182-5184)GCG>GCA	p.A1728A	HIVEP3_uc001cha.3_Silent_p.A1728A|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1728					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				TTTTGATCCTCGCCGGCTCCC	0.567													61	138					0	0	1	0	0		T	42041238	T	T	42041238	2	4	211	1	0	0	0	0	0	0	0	1	7204	871	31	1		1	HIVEP3	1	42041238	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1271499	42041238	207209383	46	101925											
TMEM125	128218	broad.mit.edu	37	chr1	43738510	43738510	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgctcggcgctctgcttcgtCgtggccgtgggcctcgtggc	0	10	16	15	7	1	0	0	0	1	0	5	0	1	0	2	4	1	3	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:43738510C>T	uc001cir.2	+	4	687	c.117C>T	c.(115-117)GTC>GTT	p.V39V	EBNA1BP2_uc001cio.2_5'Flank|TMEM125_uc001cis.2_Silent_p.V39V	NM_144626	NP_653227	Q96AQ2	TM125_HUMAN	transmembrane protein 125	39	Helical; (Potential).					integral to membrane				breast(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCTGCTTCGTCGTGGCCGTGG	0.726													3	2					0	0	1	0	0		T	43738510	T	T	43738510	2	4	211	1	0	0	0	0	0	0	0	1	16062	871	31	1		1	TMEM125	1	43738510	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1697272	43738510	205512111	47	101926											
CDC20	991	broad.mit.edu	37	chr1	43824946	43824946	+	Frame_Shift_Del	DEL	C	-	-																															cttcagctggatgcacccatCcccaatgcaccccctgcgcg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:43824946delC	uc001cix.2	+	2	161	c.60delC	c.(58-60)ATCfs	p.I20fs	CDC20_uc001ciy.2_Frame_Shift_Del_p.I20fs	NM_001255	NP_001246	Q12834	CDC20_HUMAN	cell division cycle 20	20					activation of anaphase-promoting complex activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of synapse maturation|positive regulation of synaptic plasticity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	cytosol|nucleoplasm|spindle	enzyme binding|protein C-terminus binding				0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ATGCACCCATCCCCAATGCAC	0.692													43	96	---	---	---	---						.	-	43824946	-	-	43824946	7	5	211	1	0	1	0	1	0	0	0	0	3062	845	30	0	62	0	CDC20	1	43824946	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	86436	43824946	205425675	48	101927											
KIAA0467	23334	broad.mit.edu	37	chr1	43913908	43913908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctcagggcttattctagCgcctggaccggctcctctgt	4	11	12	14	2	3	0	1	0	2	0	4	1	4	1	4	4	1	2	4	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:43913908C>T	uc001cjk.1	+	54	7487	c.7025C>T	c.(7024-7026)GCG>GTG	p.A2342V	KIAA0467_uc001cjl.1_Missense_Mutation_p.A330V	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3241						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTTATTCTAGCGCCTGGACCG	0.682													4	10					0	0	1	0	0		T	43913908	T	T	43913908	3	4	211	1	0	0	0	0	1	0	0	0	8194	768	27	1	7231	1	KIAA0467	1	43913908	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	88962	43913908	205336713	49	101928											
PTPRF	5792	broad.mit.edu	37	chr1	44063426	44063426	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcttccccagccccctcCgcccctccccagaaggtgat	5	9	7	20	1	1	2	0	1	1	1	4	2	4	2	9	1	1	0	9	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:44063426C>T	uc001cjr.2	+	12	2161	c.1821C>T	c.(1819-1821)TCC>TCT	p.S607S	PTPRF_uc001cjs.2_Silent_p.S607S|PTPRF_uc001cju.2_Silent_p.S178S|PTPRF_uc009vwt.2_Silent_p.S178S|PTPRF_uc001cjv.2_Intron|PTPRF_uc001cjw.2_5'Flank	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	607	Extracellular (Potential).|Fibronectin type-III 4.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CAGCCCCCTCCGCCCCTCCCC	0.642													7	9					0	0	1	0	0		T	44063426	T	T	44063426	2	4	211	1	0	0	0	0	0	0	0	1	12826	639	23	1		1	PTPRF	1	44063426	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	149518	44063426	205187195	50	101929											
KDM4A	9682	broad.mit.edu	37	chr1	44157236	44157236	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcggtgttcagccaatgcccTagaggaggtgagtgatccca	9	9	13	10	1	1	3	1	2	0	1	3	4	2	4	3	3	2	1	3	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:44157236T>C	uc001cjx.2	+	15	2478	c.2312T>C	c.(2311-2313)CTA>CCA	p.L771P	KDM4A_uc010oki.1_Intron	NM_014663	NP_055478	O75164	KDM4A_HUMAN	jumonji domain containing 2A	771					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleolus	histone demethylase activity (H3-K36 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			skin(1)	1						GCCAATGCCCTAGAGGAGGTG	0.498													20	64					0	0	1	0	0		C	44157236	C	C	44157236	3	2	211	1	0	0	0	0	1	0	0	0	8144	1522	53	3	2366	3	KDM4A	1	44157236	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	93810	44157236	205093385	51	101930											
IPO13	9670	broad.mit.edu	37	chr1	44424484	44424484	+	Silent	SNP	C	T	T	0	0	0	1	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	tctccaacctcttcaccacaCtggacatcagtcatcatgag	11	10	5	15	0	6	1	4	1	2	0	7	2	6	2	3	1	1	0	3	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:44424484C>T	uc001ckx.2	+	11	2746	c.1951C>T	c.(1951-1953)CTG>TTG	p.L651L		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	651	HEAT 11.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				CTTCACCACACTGGACATCAG	0.562													19	94					0	0	1	0	0		T	44424484	T	T	44424484	2	4	211	1	0	0	0	0	0	0	0	1	7810	564	20	4		4	IPO13	1	44424484	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	267248	44424484	204826137	52	101931											
CCDC24	149473	broad.mit.edu	37	chr1	44457978	44457978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttctcttctggcaccacCgcctctcctaaaggacctct	6	12	5	18	1	5	0	0	0	5	0	7	1	5	1	5	2	0	1	5	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:44457978C>T	uc001clj.2	+	3	392	c.221C>T	c.(220-222)CCG>CTG	p.P74L	SLC6A9_uc009vxe.2_Intron|SLC6A9_uc010okm.1_Intron|CCDC24_uc001clk.2_Missense_Mutation_p.P30L|CCDC24_uc009vxc.2_Intron	NM_152499	NP_689712	Q8N4L8	CCD24_HUMAN	coiled-coil domain containing 24	74											0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				CTGGCACCACCGCCTCTCCTA	0.637													51	147					0	0	1	0	0		T	44457978	T	T	44457978	3	4	211	1	0	0	0	0	1	0	0	0	2802	652	23	1	227	1	CCDC24	1	44457978	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	33494	44457978	204792643	53	101932											
RPS8	6202	broad.mit.edu	37	chr1	45243749	45243749	+	Silent	SNP	T	C	C	0	1	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	tatgatgaaaggaaaaagaaTgccaaaatcagcagtctcct	18	8	8	7	0	2	3	1	2	1	1	3	4	2	4	2	1	2	1	2	1	7	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:45243749T>C	uc001cmi.2	+	5	488	c.465T>C	c.(463-465)AAT>AAC	p.N155N	SNORD38B_uc001cml.2_5'Flank	NM_001012	NP_001003	P62241	RS8_HUMAN	ribosomal protein S8	155					endocrine pancreas development|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GGAAAAAGAATGCCAAAATCA	0.413													7	15					0	0	1	0	0		C	45243749	C	C	45243749	2	2	211	1	0	0	0	0	0	0	0	1	13686	1461	51	3		3	RPS8	1	45243749	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	785771	45243749	204006872	54	101933											
RAD54L	8438	broad.mit.edu	37	chr1	46743801	46743801	+	Silent	SNP	T	C	C	0	1	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	cggccaccccctgatggttcTgactgcacttcagacctggc	6	9	10	16	1	2	3	1	2	1	1	2	3	2	3	4	3	1	2	4	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:46743801T>C	uc009vye.2	+	19	2205	c.2091T>C	c.(2089-2091)TCT>TCC	p.S697S	RAD54L_uc001cpl.2_Silent_p.S697S|RAD54L_uc001cpm.1_Silent_p.S480S	NM_001142548	NP_001136020	Q92698	RAD54_HUMAN	RAD54-like protein	697					meiosis	nucleus	ATP binding|DNA binding|helicase activity			ovary(2)|skin(1)	3	Acute lymphoblastic leukemia(166;0.155)	Breast(1374;0.0634)		KIRC - Kidney renal clear cell carcinoma(1967;0.000896)		CTGATGGTTCTGACTGCACTT	0.592								Direct_reversal_of_damage|Homologous_recombination					7	17					0	0	1	0	0		C	46743801	C	C	46743801	2	2	211	1	0	0	0	0	0	0	0	1	13018	1567	55	3		3	RAD54L	1	46743801	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1500052	46743801	202506820	55	101934											
LRRC41	10489	broad.mit.edu	37	chr1	46751402	46751402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgagctagctggtgccCgtttgtatgaggatgtagaa	8	11	16	6	1	0	3	0	2	0	1	0	4	0	4	1	3	3	6	1	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:46751402C>T	uc001cpn.2	-	4	1171	c.1127G>A	c.(1126-1128)CGG>CAG	p.R376Q	LRRC41_uc010omb.1_Missense_Mutation_p.R376Q|LRRC41_uc001cpo.1_Missense_Mutation_p.R376Q	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	376										ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					AGCTGGTGCCCGTTTGTATGA	0.622													34	102					0	0	1	0	0		T	46751402	T	T	46751402	3	4	211	1	0	0	0	0	1	0	0	0	9017	652	23	1	1339	1	LRRC41	1	46751402	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7601	46751402	202499219	56	101935											
DMRTA2	63950	broad.mit.edu	37	chr1	50884409	50884409	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taggtcggctccttgtgcacCgccgcagcagcggcggccga	5	6	15	15	6	0	0	0	0	0	0	2	1	1	0	4	4	3	4	4	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:50884409C>T	uc010ona.1	-	2	1653	c.1557G>A	c.(1555-1557)GCG>GCA	p.A519A	DMRTA2_uc010onb.1_Silent_p.A519A	NM_032110	NP_115486	Q96SC8	DMTA2_HUMAN	DMRT-like family A2	519	Ala-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						CCTTGTGCACCGCCGCAGCAG	0.706													5	5					0	0	1	0	0		T	50884409	T	T	50884409	2	4	211	1	0	0	0	0	0	0	0	1	4595	639	23	1		1	DMRTA2	1	50884409	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4133007	50884409	198366212	57	101936											
ZCCHC11	23318	broad.mit.edu	37	chr1	52891130	52891130	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acaagggggaaatggggacgCggtgcatgttcccaaggaat	12	6	16	7	2	0	0	0	0	0	0	1	3	1	3	1	6	1	2	1	6	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:52891130C>T	uc001ctx.2	-	29	4992	c.4758G>A	c.(4756-4758)CCG>CCA	p.P1586P	ZCCHC11_uc001cty.2_Silent_p.P1587P|ZCCHC11_uc001ctz.2_Silent_p.P1582P	NM_015269	NP_056084	Q5TAX3	TUT4_HUMAN	zinc finger, CCHC domain containing 11 isoform	1586	Pro-rich.				miRNA catabolic process|pre-miRNA processing|RNA 3'-end processing|stem cell maintenance	cytoplasm|nucleolus	nucleic acid binding|protein binding|protein binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)|skin(1)	3						AATGGGGACGCGGTGCATGTT	0.468													11	32					0	0	1	0	0		T	52891130	T	T	52891130	2	4	211	1	0	0	0	0	0	0	0	1	17605	755	27	1		1	ZCCHC11	1	52891130	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2006721	52891130	196359491	58	101937											
GLIS1	148979	broad.mit.edu	37	chr1	53990523	53990523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagctggggtctgtgtagCgcttggagcagccagggatc	6	8	19	8	1	1	0	0	0	1	0	2	3	1	3	1	5	4	4	1	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:53990523C>T	uc001cvr.1	-	5	1562	c.995G>A	c.(994-996)CGC>CAC	p.R332H		NM_147193	NP_671726	Q8NBF1	GLIS1_HUMAN	GLIS family zinc finger 1	332	C2H2-type 5.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			skin(1)	1						GTCTGTGTAGCGCTTGGAGCA	0.637													44	125					0	0	1	0	0		T	53990523	T	T	53990523	3	4	211	1	0	0	0	0	1	0	0	0	6460	768	27	1	891	1	GLIS1	1	53990523	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1099393	53990523	195260098	59	101938											
DHCR24	1718	broad.mit.edu	37	chr1	55319710	55319710	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccctgccccactcacGtggatgtcgttttggaaggt	5	11	11	14	2	1	0	1	0	0	0	2	2	1	2	4	3	2	1	4	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:55319710G>A	uc001cyc.1	-	7	1347	c.1218C>T	c.(1216-1218)CAC>CAT	p.H406H	DHCR24_uc010ooi.1_Silent_p.H49H|DHCR24_uc010ooj.1_Silent_p.H220H|DHCR24_uc010ook.1_Silent_p.H365H	NM_014762	NP_055577	Q15392	DHC24_HUMAN	24-dehydrocholesterol reductase precursor	406					anti-apoptosis|apoptosis|cell cycle arrest|cholesterol biosynthetic process|negative regulation of caspase activity|neuroprotection|response to oxidative stress|skin development	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus	delta24-sterol reductase activity|enzyme binding|flavin adenine dinucleotide binding|peptide antigen binding			pancreas(1)	1						CCCCACTCACGTGGATGTCGT	0.562													4	7					0	0	1	0	0		A	55319710	A	A	55319710	2	1	211	1	0	0	0	0	0	0	0	1	4482	1159	40	1		1	DHCR24	1	55319710	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1329187	55319710	193930911	60	101939											
USP24	23358	broad.mit.edu	37	chr1	55562769	55562769	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatccacacttcgcccatttTccccaacttcagaagaagaa	13	9	5	14	1	1	3	1	0	0	3	4	4	3	3	4	0	1	0	4	0	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:55562769T>C	uc001cyg.3	-	46	5312	c.5312A>G	c.(5311-5313)GAA>GGA	p.E1771G		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	1931					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TCGCCCATTTTCCCCAACTTC	0.478													19	41					0	0	1	0	0		C	55562769	C	C	55562769	3	2	211	1	0	0	0	0	1	0	0	0	17081	1783	62	3	2150	3	USP24	1	55562769	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	243059	55562769	193687852	61	101940											
USP24	23358	broad.mit.edu	37	chr1	55613380	55613380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacttaagcctccaggcccgGccacagcagctgcaagccga	10	4	10	17	2	0	0	0	0	0	0	1	1	1	0	5	2	5	3	5	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:55613380G>A	uc001cyg.3	-	15	1580	c.1580C>T	c.(1579-1581)GCC>GTC	p.A527V		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	687					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TCCAGGCCCGGCCACAGCAGC	0.463													6	10					0	0	1	0	0		A	55613380	A	A	55613380	3	1	211	1	0	0	0	0	1	0	0	0	17081	1203	42	2	6006	2	USP24	1	55613380	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	50611	55613380	193637241	62	101941											
PDE4B	5142	broad.mit.edu	37	chr1	66829177	66829177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaccattaccattctgacGtggcatatcacaacagcctg	13	9	7	12	1	2	2	1	1	1	1	2	2	2	2	3	1	3	1	3	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:66829177G>A	uc001dcn.2	+	12	1398	c.1207G>A	c.(1207-1209)GTG>ATG	p.V403M	PDE4B_uc009war.2_Missense_Mutation_p.V311M|PDE4B_uc001dco.2_Missense_Mutation_p.V403M|PDE4B_uc001dcp.2_Missense_Mutation_p.V388M|PDE4B_uc001dcq.2_Missense_Mutation_p.V231M|PDE4B_uc009was.2_Missense_Mutation_p.V170M	NM_001037341	NP_001032418	Q07343	PDE4B_HUMAN	phosphodiesterase 4B isoform 1	403					signal transduction	cytosol|insoluble fraction|soluble fraction	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding			ovary(2)|central_nervous_system(1)	3					Adenosine monophosphate(DB00131)|Amrinone(DB01427)|Caffeine(DB00201)|Cilostazol(DB01166)|Dyphylline(DB00651)|Enprofylline(DB00824)|Papaverine(DB01113)|Pentoxifylline(DB00806)|Theophylline(DB00277)	CCATTCTGACGTGGCATATCA	0.423													13	35					0	0	1	0	0		A	66829177	A	A	66829177	3	1	211	1	0	0	0	0	1	0	0	0	11659	1145	40	1	1607	1	PDE4B	1	66829177	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	11215797	66829177	182421444	63	101942											
IL23R	149233	broad.mit.edu	37	chr1	67724741	67724741	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgaatgaggagttgccatCtattaatacttattttccac	11	15	7	8	1	1	2	0	2	1	0	2	3	2	3	2	1	2	1	2	1	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:67724741C>A	uc001ddo.2	+	11	1905	c.1820C>A	c.(1819-1821)TCT>TAT	p.S607Y	IL23R_uc009waz.2_Missense_Mutation_p.S404Y|IL23R_uc010opi.1_RNA|IL23R_uc010opj.1_Missense_Mutation_p.S205Y|IL23R_uc010opk.1_3'UTR|IL23R_uc010opl.1_Missense_Mutation_p.S189Y|IL23R_uc010opm.1_RNA|IL23R_uc001ddq.2_Missense_Mutation_p.S353Y|IL23R_uc010opn.1_Missense_Mutation_p.S452Y|IL23R_uc001ddr.2_RNA|IL23R_uc010ops.1_Missense_Mutation_p.S404Y|IL23R_uc010opt.1_Missense_Mutation_p.S248Y|IL23R_uc010opu.1_Missense_Mutation_p.S303Y|IL23R_uc010opv.1_Missense_Mutation_p.S365Y|IL23R_uc010opw.1_Missense_Mutation_p.S242Y|IL23R_uc010opx.1_Missense_Mutation_p.S248Y|IL23R_uc010opy.1_Missense_Mutation_p.S374Y|IL23R_uc010opz.1_Missense_Mutation_p.S248Y|IL23R_uc010oqa.1_Missense_Mutation_p.S248Y|IL23R_uc010oqb.1_Missense_Mutation_p.S436Y|IL23R_uc010oqc.1_Missense_Mutation_p.S323Y|IL23R_uc010oqd.1_Missense_Mutation_p.S242Y|IL23R_uc010oqe.1_Missense_Mutation_p.S205Y|IL23R_uc010oqf.1_Missense_Mutation_p.S205Y|IL23R_uc010oqg.1_Missense_Mutation_p.S205Y|IL23R_uc010oqh.1_Missense_Mutation_p.S248Y|IL23R_uc001dds.2_Missense_Mutation_p.S352Y|IL23R_uc001ddt.2_Missense_Mutation_p.S205Y	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor	607	Cytoplasmic (Potential).				inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						GAGTTGCCATCTATTAATACT	0.378													26	41					9.57634e-11	1.01923e-10	1	1	0		A	67724741	A	A	67724741	3	1	211	1	0	0	0	0	1	0	0	0	7692	913	32	5	1858	5	IL23R	1	67724741	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	895564	67724741	181525880	64	101943											
LRRC7	57554	broad.mit.edu	37	chr1	70501850	70501850	+	Missense_Mutation	SNP	A	G	G	1	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	aatgaggattggggaacttcAcccttcattagctgagaccc	11	10	10	10	0	2	2	2	2	0	1	2	5	2	4	2	3	2	1	2	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:70501850A>G	uc001dep.2	+	17	1958	c.1928A>G	c.(1927-1929)CAC>CGC	p.H643R	LRRC7_uc009wbg.2_Intron|LRRC7_uc001deq.2_5'Flank	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	643						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GGGGAACTTCACCCTTCATTA	0.393													5	59					0	0	1	0	0		G	70501850	G	G	70501850	3	3	211	1	0	0	0	0	1	0	0	0	9038	159	6	3	1994	3	LRRC7	1	70501850	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2777109	70501850	178748771	65	101944											
LRRC7	57554	broad.mit.edu	37	chr1	70505412	70505412	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagggagaggagagctgtgGtaaaatgcctgcagactgga	13	6	17	5	0	0	3	0	0	0	3	0	7	0	4	1	4	3	3	1	4	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:70505412G>T	uc001dep.2	+	19	3821	c.3791G>T	c.(3790-3792)GGT>GTT	p.G1264V	LRRC7_uc009wbg.2_Missense_Mutation_p.G548V|LRRC7_uc001deq.2_Missense_Mutation_p.G505V	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1264						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						GAGAGCTGTGGTAAAATGCCT	0.448													28	85					1.80694e-10	1.91843e-10	1	1	0		T	70505412	T	T	70505412	3	4	211	1	0	0	0	0	1	0	0	0	9038	1261	44	5	3865	5	LRRC7	1	70505412	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3562	70505412	178745209	66	101945											
AK5	26289	broad.mit.edu	37	chr1	77759520	77759520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatatcggcggtatgaccGgctccctccaatccatcaat	9	10	7	15	3	1	1	1	1	0	0	6	1	5	1	5	3	0	2	5	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:77759520G>A	uc001dhn.2	+	3	547	c.290G>A	c.(289-291)CGG>CAG	p.R97Q	AK5_uc001dho.2_Missense_Mutation_p.R71Q|AK5_uc001dhm.1_Intron	NM_174858	NP_777283	Q9Y6K8	KAD5_HUMAN	adenylate kinase 5 isoform 1	97					ADP biosynthetic process|ATP metabolic process|dADP biosynthetic process|nucleobase, nucleoside and nucleotide interconversion|pyrimidine ribonucleotide biosynthetic process|signal transduction	centrosome|cytosol	adenylate kinase activity|ATP binding|cAMP-dependent protein kinase regulator activity|nucleoside kinase activity			skin(1)	1						CGGTATGACCGGCTCCCTCCA	0.408													18	43					0	0	1	0	0		A	77759520	A	A	77759520	3	1	211	1	0	0	0	0	1	0	0	0	443	1116	39	1	300	1	AK5	1	77759520	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7254108	77759520	171491101	67	101946											
USP33	23032	broad.mit.edu	37	chr1	78163101	78163101	+	Silent	SNP	A	G	G	1	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	aggataacttcaggccctccAccataaatagactgcagaaa	16	7	7	11	0	1	2	1	0	0	2	2	3	2	3	3	2	2	1	3	2	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:78163101A>G	uc001dht.2	-	25	3077	c.2730T>C	c.(2728-2730)GGT>GGC	p.G910G	USP33_uc009wca.1_RNA|USP33_uc001dhs.2_3'UTR|USP33_uc001dhu.2_Silent_p.G879G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	910	DUSP 2.				axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						CAGGCCCTCCACCATAAATAG	0.368													33	76					0	0	1	0	0		G	78163101	G	G	78163101	2	3	211	1	0	0	0	0	0	0	0	1	17090	146	6	3		3	USP33	1	78163101	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	403581	78163101	171087520	68	101947											
FUBP1	8880	broad.mit.edu	37	chr1	78430612	78430612	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtcagcaccagtgttctgCggcccgtcttgaatcataac	8	12	9	12	2	4	1	2	1	2	0	4	1	4	1	2	1	3	2	2	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:78430612C>T	uc001dii.2	-	9	767	c.678G>A	c.(676-678)CCG>CCA	p.P226P	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Silent_p.P247P	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	226	KH 2.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						CAGTGTTCTGCGGCCCGTCTT	0.358													34	94					0	0	1	0	0		T	78430612	T	T	78430612	2	4	211	1	0	0	0	0	0	0	0	1	6106	755	27	1		1	FUBP1	1	78430612	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	267511	78430612	170820009	69	101948											
WDR63	126820	broad.mit.edu	37	chr1	85550270	85550270	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caagaagaatataaagaacaTattcctgaagatgtgtatat	19	11	7	4	0	0	5	0	1	0	4	1	5	1	5	1	0	1	1	1	0	11	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:85550270T>C	uc001dkt.2	+	6	623	c.432T>C	c.(430-432)CAT>CAC	p.H144H	WDR63_uc009wcl.2_Silent_p.H144H	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	144										upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)		ATAAAGAACATATTCCTGAAG	0.338													25	54					0	0	1	0	0		C	85550270	C	C	85550270	2	2	211	1	0	0	0	0	0	0	0	1	17340	1403	49	3		3	WDR63	1	85550270	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	7119658	85550270	163700351	70	101949											
CYR61	3491	broad.mit.edu	37	chr1	86048117	86048117	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtttttggaatggagcctcGcatcctatacaaccctttac	10	13	7	11	1	0	0	0	0	0	0	2	2	1	2	3	2	4	2	3	2	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:86048117G>A	uc001dle.2	+	4	877	c.653G>A	c.(652-654)CGC>CAC	p.R218H	CYR61_uc001dlg.2_Missense_Mutation_p.R47H|CYR61_uc009wcp.1_5'Flank	NM_001554	NP_001545	O00622	CYR61_HUMAN	cysteine-rich, angiogenic inducer, 61 precursor	218					cell proliferation|chemotaxis|positive regulation of BMP signaling pathway|positive regulation of cell migration|positive regulation of osteoblast differentiation|positive regulation of osteoblast proliferation|positive regulation of protein kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription from RNA polymerase II promoter|regulation of cell growth|regulation of ERK1 and ERK2 cascade|wound healing, spreading of cells	extracellular region	heparin binding|insulin-like growth factor binding			central_nervous_system(1)	1				all cancers(265;0.0216)|Epithelial(280;0.0441)		ATGGAGCCTCGCATCCTATAC	0.433											OREG0013583	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	49					0	0	1	0	0		A	86048117	A	A	86048117	3	1	211	1	0	0	0	0	1	0	0	0	4202	1087	38	1	667	1	CYR61	1	86048117	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	497847	86048117	163202504	71	101950											
F3	2152	broad.mit.edu	37	chr1	94998030	94998030	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctcattagtgtttgttttggCtgttttctgtaaaaagatag	9	19	9	4	0	2	1	1	0	1	1	2	1	2	1	0	1	0	5	0	1	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:94998030C>T	uc001dqr.2	-	5	777	c.598G>A	c.(598-600)GCC>ACC	p.A200T	F3_uc001dqp.2_RNA|F3_uc001dqq.2_Intron|F3_uc001dqs.2_Intron	NM_001993	NP_001984	P13726	TF_HUMAN	coagulation factor III precursor	200	Extracellular (Potential).				activation of caspase activity|activation of plasma proteins involved in acute inflammatory response|anti-apoptosis|blood coagulation, extrinsic pathway|positive regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of platelet-derived growth factor receptor signaling pathway|positive regulation of protein kinase B signaling cascade	extracellular matrix|extracellular space|integral to membrane	cell surface binding|phospholipid binding|protease binding			central_nervous_system(1)	1		all_lung(203;0.00106)|Lung NSC(277;0.00475)		all cancers(265;0.0232)|Epithelial(280;0.121)	Coagulation factor VIIa(DB00036)	TTTGTTTTGGCTGTTTTCTGT	0.373													12	47					0	0	1	0	0		T	94998030	T	T	94998030	3	4	211	1	0	0	0	0	1	0	0	0	5355	797	28	2	297	2	F3	1	94998030	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8949913	94998030	154252591	72	101951											
LPPR5	163404	broad.mit.edu	37	chr1	99418625	99418625	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaatttataatccttacttaCggtcagatacatagctgcat	14	14	5	8	1	1	1	1	0	0	1	2	1	2	1	1	1	5	2	1	1	7	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:99418625C>T	uc001dsb.2	-	3	843	c.621_splice	c.e3+1	p.T207_splice	LPPR5_uc001dsc.2_Splice_Site_p.T207_splice	NM_001037317	NP_001032394	Q32ZL2	LPPR5_HUMAN	phosphatidic acid phosphatase type 2d isoform 1							integral to membrane	hydrolase activity				0						TCCTTACTTACGGTCAGATAC	0.378													12	43					0	0	1	0	0		T	99418625	T	T	99418625	5	4	211	1	0	0	0	0	0	0	1	0	8946	550	19	1	359	1	LPPR5	1	99418625	Splice_Site	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4420595	99418625	149831996	73	101952											
CCDC76	54482	broad.mit.edu	37	chr1	100606543	100606543	+	Missense_Mutation	SNP	A	G	G	1	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	atgctgaaaaagttcacttcAtcctagtggaaaaggtgacc	14	10	9	8	0	2	2	2	2	0	0	3	3	3	3	2	2	1	2	2	2	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:100606543A>G	uc001dsv.2	+	7	656	c.637A>G	c.(637-639)ATC>GTC	p.I213V	CCDC76_uc010ouf.1_RNA|CCDC76_uc009wea.2_Missense_Mutation_p.I213V	NM_019083	NP_061956	Q9NUP7	TRM13_HUMAN	coiled-coil domain containing 76	213					tRNA processing		metal ion binding|methyltransferase activity			ovary(1)	1		all_epithelial(167;0.000542)|all_lung(203;0.0154)|Lung NSC(277;0.0155)		Epithelial(280;0.0814)|all cancers(265;0.133)|COAD - Colon adenocarcinoma(174;0.146)|Lung(183;0.194)		AGTTCACTTCATCCTAGTGGA	0.368													16	53					0	0	1	0	0		G	100606543	G	G	100606543	3	3	211	1	0	0	0	0	1	0	0	0	2853	217	8	3	663	3	CCDC76	1	100606543	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1187918	100606543	148644078	74	101953											
COL11A1	1301	broad.mit.edu	37	chr1	103444434	103444434	+	Silent	SNP	A	G	G	1	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	acctttggcccaggtttcccAgtgggacctcttgcacctct	5	12	9	15	0	2	0	0	0	2	0	3	1	3	1	5	3	1	2	5	3	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:103444434A>G	uc001dul.2	-	34	3009	c.2691T>C	c.(2689-2691)ACT>ACC	p.T897T	COL11A1_uc001duk.2_Silent_p.T93T|COL11A1_uc001dum.2_Silent_p.T909T|COL11A1_uc001dun.2_Silent_p.T858T|COL11A1_uc009weh.2_Silent_p.T781T	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	897	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CAGGTTTCCCAGTGGGACCTC	0.418													19	62					0	0	1	0	0		G	103444434	G	G	103444434	2	3	211	1	0	0	0	0	0	0	0	1	3670	175	7	3		3	COL11A1	1	103444434	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2837891	103444434	145806187	75	101954											
COL11A1	1301	broad.mit.edu	37	chr1	103471836	103471836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctttttccaggttttccCgttggaccagggggaccctg	5	12	11	13	1	0	0	0	0	0	0	2	2	2	2	5	4	0	2	5	4	0	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:103471836C>T	uc001dul.2	-	16	2037	c.1719G>A	c.(1717-1719)ACG>ACA	p.T573T	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.T585T|COL11A1_uc001dun.2_Silent_p.T534T|COL11A1_uc009weh.2_Silent_p.T457T	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	573	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CAGGTTTTCCCGTTGGACCAG	0.348													21	64					0	0	1	0	0		T	103471836	T	T	103471836	2	4	211	1	0	0	0	0	0	0	0	1	3670	639	23	1		1	COL11A1	1	103471836	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	27402	103471836	145778785	76	101955											
NTNG1	22854	broad.mit.edu	37	chr1	107691418	107691418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtgaaactcgatcctcCggatattacctgtggagacc	12	9	10	10	2	0	2	0	1	0	1	3	6	2	3	4	2	2	0	4	2	4	2	rs142686945		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:107691418C>T	uc001dvh.3	+	2	921	c.203C>T	c.(202-204)CCG>CTG	p.P68L	NTNG1_uc001dvf.3_Missense_Mutation_p.P68L|NTNG1_uc010out.1_Missense_Mutation_p.P68L|NTNG1_uc001dvc.3_Missense_Mutation_p.P68L|NTNG1_uc001dvd.1_Missense_Mutation_p.P68L	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1	68	Laminin N-terminal.				axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		CTCGATCCTCCGGATATTACC	0.438													34	96					0	0	1	0	0		T	107691418	T	T	107691418	3	4	211	1	0	0	0	0	1	0	0	0	10723	652	23	1	205	1	NTNG1	1	107691418	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4219582	107691418	141559203	77	101956											
SLC25A24	29957	broad.mit.edu	37	chr1	108690905	108690905	+	Missense_Mutation	SNP	A	G	G	1	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	tgacaatggtactcacctccAttggatatataaaagtctgt	13	13	7	8	0	2	1	1	1	1	0	3	2	3	2	2	2	1	1	2	2	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:108690905A>G	uc001dvn.3	-	7	1140	c.926T>C	c.(925-927)ATG>ACG	p.M309T	SLC25A24_uc001dvm.2_Missense_Mutation_p.M290T	NM_013386	NP_037518	Q6NUK1	SCMC1_HUMAN	solute carrier family 25 member 24 isoform 1	309	Solcar 2.|Helical; Name=3; (Potential).				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)	1		all_epithelial(167;3.72e-05)|all_lung(203;0.000567)|Lung NSC(277;0.0011)|Melanoma(281;0.211)		Colorectal(144;0.0345)|Lung(183;0.0971)|COAD - Colon adenocarcinoma(174;0.127)|Epithelial(280;0.134)		ACTCACCTCCATTGGATATAT	0.279													26	61					0	0	1	0	0		G	108690905	G	G	108690905	3	3	211	1	0	0	0	0	1	0	0	0	14512	217	8	3	523	3	SLC25A24	1	108690905	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	999487	108690905	140559716	78	101957											
C1orf59	113802	broad.mit.edu	37	chr1	109191326	109191326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcggttcaacttgggataCgcaaggagtctctgcagagg	11	8	14	8	2	2	1	1	0	1	1	3	3	2	3	0	4	4	3	0	4	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:109191326C>T	uc001dvt.3	-	8	1282	c.1044G>A	c.(1042-1044)GCG>GCA	p.A348A	C1orf59_uc001dvu.3_Silent_p.A348A|C1orf59_uc009wer.2_3'UTR	NM_001102592	NP_001096062	Q5T8I9	HENMT_HUMAN	hypothetical protein LOC113802	348					gene silencing by RNA|piRNA metabolic process	P granule	metal ion binding|O-methyltransferase activity|RNA binding|RNA methyltransferase activity				0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0152)|Lung(183;0.0895)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.163)		ACTTGGGATACGCAAGGAGTC	0.473													12	52					0	0	1	0	0		T	109191326	T	T	109191326	2	4	211	1	0	0	0	0	0	0	0	1	2054	523	19	1		1	C1orf59	1	109191326	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	500421	109191326	140059295	79	101958											
WDR47	22911	broad.mit.edu	37	chr1	109560159	109560159	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cctttttttgtcaaatttttCcatacattctagaggctgaa	10	18	5	8	0	2	2	1	1	1	1	3	2	3	2	2	1	1	1	2	1	4	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:109560159C>T	uc001dwj.2	-	3	599	c.223G>A	c.(223-225)GAA>AAA	p.E75K	WDR47_uc001dwl.2_Missense_Mutation_p.E75K|WDR47_uc001dwi.2_Missense_Mutation_p.E75K|WDR47_uc001dwk.2_Intron|WDR47_uc010ovf.1_Missense_Mutation_p.E2K	NM_001142551	NP_001136023	O94967	WDR47_HUMAN	WD repeat domain 47 isoform 3	75	CTLH.									ovary(1)	1		all_lung(203;0.00519)|all_epithelial(167;0.00611)|Lung NSC(277;0.00822)		Colorectal(144;0.0165)|Lung(183;0.0484)|COAD - Colon adenocarcinoma(174;0.128)|Epithelial(280;0.168)|all cancers(265;0.201)|LUSC - Lung squamous cell carcinoma(189;0.244)		TCAAATTTTTCCATACATTCT	0.299													9	39					0	0	1	0	0		T	109560159	T	T	109560159	3	4	211	1	0	0	0	0	1	0	0	0	17326	864	30	4	2612	4	WDR47	1	109560159	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	368833	109560159	139690462	80	101959											
KCND3	3752	broad.mit.edu	37	chr1	112524251	112524251	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgctgacttaccccagtgtGgtcatggtgacaatggtgta	8	11	13	9	1	1	2	1	2	0	0	1	2	1	2	2	3	1	2	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:112524251G>T	uc001ebu.1	-	2	1578	c.1098C>A	c.(1096-1098)ACC>ACA	p.T366T	KCND3_uc001ebv.1_Silent_p.T366T	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	366						sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		ACCCCAGTGTGGTCATGGTGA	0.542													14	41					0.000422831	0.0004331	1	1	0		T	112524251	T	T	112524251	2	4	211	1	0	0	0	0	0	0	0	1	8036	1335	47	5		5	KCND3	1	112524251	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2964092	112524251	136726370	81	101960											
MOV10	4343	broad.mit.edu	37	chr1	113238801	113238801	+	Missense_Mutation	SNP	A	G	G	1	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	ctgggacgcaaagaagggggAgtatgtatttcccgccaaga	12	7	14	8	2	0	2	0	0	0	2	1	4	1	4	2	3	0	3	2	3	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:113238801A>G	uc001eck.2	+	12	2081	c.1811A>G	c.(1810-1812)GAG>GGG	p.E604G	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Missense_Mutation_p.E604G|MOV10_uc001ecm.2_Missense_Mutation_p.E544G|MOV10_uc009wgj.1_Missense_Mutation_p.E544G	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	604					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		AAGAAGGGGGAGTATGTATTT	0.557													9	21					0	0	1	0	0		G	113238801	G	G	113238801	3	3	211	1	0	0	0	0	1	0	0	0	9736	304	11	3	1853	3	MOV10	1	113238801	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	714550	113238801	136011820	82	101961											
CASQ2	845	broad.mit.edu	37	chr1	116243928	116243928	+	Missense_Mutation	SNP	A	T	T	1	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	gaattatcatcatcatcatcAtcttcatcatcatcttcagt	12	16	2	11	0	11	0	9	0	2	0	11	1	11	0	0	0	0	0	0	0	2	3	rs77062555		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:116243928A>T	uc001efx.3	-	11	1398	c.1134T>A	c.(1132-1134)GAT>GAA	p.D378E	CASQ2_uc010owu.1_Missense_Mutation_p.D307E	NM_001232	NP_001223	O14958	CASQ2_HUMAN	cardiac calsequestrin 2 precursor	378	Asp/Glu-rich (acidic).				heart development|striated muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;1.25e-06)|all_epithelial(167;1.02e-06)|all_lung(203;8.03e-06)|Lung NSC(69;5.01e-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)		catcatcatcatcttcatcat	0.254													16	32					0	0	1	0	0		T	116243928	T	T	116243928	3	4	211	1	0	0	0	0	1	0	0	0	2684	214	8	5	69	5	CASQ2	1	116243928	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3005127	116243928	133006693	83	101962											
PDE4DIP	9659	broad.mit.edu	37	chr1	145075752	145075752	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgtggggactgaggggttcgCgtcgcgtccccggaccggta	4	7	18	12	7	0	1	0	1	0	0	3	3	1	3	3	6	0	2	3	6	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:145075752C>T	uc001emh.2	-	1	328	c.111G>A	c.(109-111)ACG>ACA	p.T37T	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Silent_p.T37T|PDE4DIP_uc001emk.2_Silent_p.T37T	NM_022359	NP_071754	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		GAGGGGTTCGCGTCGCGTCCC	0.726			T	PDGFRB	MPD								7	127					0	0	1	0	0		T	145075752	T	T	145075752	2	4	211	1	0	0	0	0	0	0	0	1	11662	755	27	1		1	PDE4DIP	1	145075752	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	28831824	145075752	104174869	84	101963											
ANKRD34A	284615	broad.mit.edu	37	chr1	145473629	145473629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcgctgctccttgcccacGgcgcagacccctcagtccga	5	7	9	20	4	1	1	1	0	0	1	4	2	3	1	6	1	2	3	6	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:145473629G>A	uc001enq.1	+	4	1594	c.301G>A	c.(301-303)GGC>AGC	p.G101S	NBPF10_uc001emp.3_Intron	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	101	ANK 3.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CCTTGCCCACGGCGCAGACCC	0.726													15	44					0	0	1	0	0		A	145473629	A	A	145473629	3	1	211	1	0	0	0	0	1	0	0	0	662	1116	39	1	303	1	ANKRD34A	1	145473629	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	397877	145473629	103776992	85	101964											
PRKAB2	5565	broad.mit.edu	37	chr1	146639440	146639440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagcggataacagtgggccGggcctgctgtgtgggcttta	6	9	16	10	2	0	0	0	0	0	0	0	1	0	1	3	4	3	2	3	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:146639440G>A	uc001epe.2	-	3	374	c.229C>T	c.(229-231)CGG>TGG	p.R77W	PRKAB2_uc010ozm.1_Intron|PRKAB2_uc010ozn.1_Intron|PRKAB2_uc009wjf.1_Missense_Mutation_p.R77W	NM_005399	NP_005390	O43741	AAKB2_HUMAN	AMP-activated protein kinase beta 2	77					carnitine shuttle|cell cycle arrest|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm				lung(2)|skin(1)	3	all_hematologic(923;0.0487)				Adenosine monophosphate(DB00131)	ACAGTGGGCCGGGCCTGCTGT	0.522													68	245					0	0	1	0	0		A	146639440	A	A	146639440	3	1	211	1	0	0	0	0	1	0	0	0	12518	1115	39	1	613	1	PRKAB2	1	146639440	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1165811	146639440	102611181	86	101965											
GJA8	2703	broad.mit.edu	37	chr1	147380280	147380280	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcgagaacgtctgctaCgacgaggcctttcccatctc	7	9	11	14	4	2	1	0	0	2	1	4	4	3	1	2	2	4	2	2	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:147380280C>T	uc001epu.1	+	2	261	c.198C>T	c.(196-198)TAC>TAT	p.Y66Y		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	66	Extracellular (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					ACGTCTGCTACGACGAGGCCT	0.617													21	53					0	0	1	0	0		T	147380280	T	T	147380280	2	4	211	1	0	0	0	0	0	0	0	1	6420	547	19	1		1	GJA8	1	147380280	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	740840	147380280	101870341	87	101966											
RPRD2	23248	broad.mit.edu	37	chr1	150444621	150444621	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactaccgcatagaaacccGcgtctcctcctcctgcttag	8	9	7	17	3	1	1	0	0	1	1	4	1	3	1	5	0	3	3	5	0	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:150444621G>A	uc009wlr.2	+	11	3398	c.3197G>A	c.(3196-3198)CGC>CAC	p.R1066H	RPRD2_uc010pcc.1_3'UTR|RPRD2_uc001eup.3_Missense_Mutation_p.R1040H	NM_015203	NP_056018	Q5VT52	RPRD2_HUMAN	Regulation of nuclear pre-mRNA domain containing	1066							protein binding			ovary(1)	1						ATAGAAACCCGCGTCTCCTCC	0.522													31	62					0	0	1	0	0		A	150444621	A	A	150444621	3	1	211	1	0	0	0	0	1	0	0	0	13642	1087	38	1	3239	1	RPRD2	1	150444621	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3064341	150444621	98806000	88	101967											
SETDB1	9869	broad.mit.edu	37	chr1	150923182	150923182	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttactatatgacttccggcGgatgacagcccggcgtcgag	8	9	13	11	5	0	2	0	2	0	0	2	4	1	3	2	3	2	1	2	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:150923182G>A	uc001evu.2	+	13	2019	c.1829G>A	c.(1828-1830)CGG>CAG	p.R610Q	SETDB1_uc009wmf.2_Missense_Mutation_p.R611Q|SETDB1_uc001evv.2_Missense_Mutation_p.R610Q|SETDB1_uc009wmg.1_Missense_Mutation_p.R610Q	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1	610	MBD.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	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)			GACTTCCGGCGGATGACAGCC	0.527													23	84					0	0	1	0	0		A	150923182	A	A	150923182	3	1	211	1	0	0	0	0	1	0	0	0	14163	1116	39	1	1875	1	SETDB1	1	150923182	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	478561	150923182	98327439	89	101968											
TNFAIP8L2	79626	broad.mit.edu	37	chr1	151131319	151131319	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaccgtgtgtccaaggagtAcacgcacagccggccccagg	9	5	12	15	3	0	0	0	0	0	0	1	1	1	1	5	3	3	2	5	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:151131319A>G	uc001ewx.2	+	2	272	c.146A>G	c.(145-147)TAC>TGC	p.Y49C		NM_024575	NP_078851	Q6P589	TP8L2_HUMAN	tumor necrosis factor, alpha-induced protein	49					innate immune response						0	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)			TCCAAGGAGTACACGCACAGC	0.572													18	51					0	0	1	0	0		G	151131319	G	G	151131319	3	3	211	1	0	0	0	0	1	0	0	0	16303	391	14	3	148	3	TNFAIP8L2	1	151131319	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	208137	151131319	98119302	90	101969											
ZNF687	57592	broad.mit.edu	37	chr1	151262662	151262662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcccccagcctgaggcGccatgtcagagttaatcacg	8	7	10	16	3	2	2	2	1	0	1	3	2	3	2	5	1	1	1	5	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:151262662G>A	uc001exq.2	+	7	3127	c.3029G>A	c.(3028-3030)CGC>CAC	p.R1010H	ZNF687_uc009wmo.2_Missense_Mutation_p.R1010H|ZNF687_uc009wmp.2_Missense_Mutation_p.R1010H	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	1010	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			AGCCTGAGGCGCCATGTCAGA	0.592													32	76					0	0	1	0	0		A	151262662	A	A	151262662	3	1	211	1	0	0	0	0	1	0	0	0	18117	1087	38	1	3051	1	ZNF687	1	151262662	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	131343	151262662	97987959	91	101970											
ZNF687	57592	broad.mit.edu	37	chr1	151263646	151263646	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccgcacgcatggcatggcGttcatcagggctcggcaggg	6	8	15	12	4	2	0	2	0	0	0	4	0	3	0	1	5	0	6	1	5	0	2	rs137887486		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:151263646G>A	uc001exq.2	+	9	3773	c.3675G>A	c.(3673-3675)GCG>GCA	p.A1225A	ZNF687_uc009wmo.2_Silent_p.A1225A|ZNF687_uc009wmp.2_3'UTR	NM_020832	NP_065883	Q8N1G0	ZN687_HUMAN	zinc finger protein 687	1225					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding			central_nervous_system(3)|ovary(1)	4	Lung SC(34;0.00471)|Ovarian(49;0.0147)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.112)|LUSC - Lung squamous cell carcinoma(543;0.181)			ATGGCATGGCGTTCATCAGGG	0.612													31	69					0	0	1	0	0		A	151263646	A	A	151263646	2	1	211	1	0	0	0	0	0	0	0	1	18117	1132	40	1		1	ZNF687	1	151263646	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	984	151263646	97986975	92	101971											
PSMB4	5692	broad.mit.edu	37	chr1	151372478	151372478	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccatggtgaccgggacCtcagtcctcggcgttaagtt	8	9	11	13	3	1	1	1	1	0	0	3	2	2	2	5	3	1	2	5	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:151372478C>A	uc001eyc.1	+	2	185	c.162C>A	c.(160-162)ACC>ACA	p.T54T	PSMB4_uc010pda.1_Silent_p.T54T|PSMB4_uc001eyb.1_Silent_p.T54T	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	54					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	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)			TGACCGGGACCTCAGTCCTCG	0.592													28	93					2.68265e-12	2.88663e-12	1	1	0		A	151372478	A	A	151372478	2	1	211	1	0	0	0	0	0	0	0	1	12701	668	24	5		5	PSMB4	1	151372478	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	108832	151372478	97878143	93	101972											
CGN	57530	broad.mit.edu	37	chr1	151509788	151509788	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcgtccattgcatcactgcTtacggagagcaacctacaga	11	9	8	13	2	1	2	1	0	0	2	3	3	2	2	2	1	6	3	2	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:151509788T>G	uc009wmw.2	+	21	3722	c.3578T>G	c.(3577-3579)CTT>CGT	p.L1193R	TUFT1_uc001eyl.2_5'Flank|TUFT1_uc001eym.2_5'Flank|TUFT1_uc010pdf.1_5'Flank|TUFT1_uc010pdg.1_5'Flank|CGN_uc010pde.1_Missense_Mutation_p.L187R	NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	1187	Tail.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)			GCATCACTGCTTACGGAGAGC	0.552													15	35					0	0	1	0	0		G	151509788	G	G	151509788	3	3	211	1	0	0	0	0	1	0	0	0	3306	1609	56	5	3656	5	CGN	1	151509788	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	137310	151509788	97740833	94	101973											
CELF3	11189	broad.mit.edu	37	chr1	151682225	151682225	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcacagaacctacctcctcGgctctcgctgtcggctggct	5	9	11	16	3	1	1	0	0	1	1	5	1	2	1	3	4	2	5	3	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:151682225G>A	uc001eys.1	-	3	1065	c.271C>T	c.(271-273)CGA>TGA	p.R91*	CELF3_uc010pdh.1_5'Flank|CELF3_uc001eyr.2_Nonsense_Mutation_p.R91*|CELF3_uc009wmy.2_Nonsense_Mutation_p.R91*|CELF3_uc009wmx.1_Nonsense_Mutation_p.R91*|CELF3_uc001eyt.2_Nonsense_Mutation_p.R15*|CELF3_uc010pdi.1_Nonsense_Mutation_p.R91*|C1orf230_uc001eyu.2_5'Flank	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	91					nuclear mRNA splicing, via spliceosome|regulation of alternative nuclear mRNA splicing, via spliceosome	cytoplasm|nucleus	mRNA binding|nucleotide binding			ovary(1)|central_nervous_system(1)	2						CTACCTCCTCGGCTCTCGCTG	0.607													47	70					0	0	1	0	0		A	151682225	A	A	151682225	4	1	211	1	0	0	0	0	0	1	0	0	3220	1124	39	1	1166	1	CELF3	1	151682225	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	172437	151682225	97568396	95	101974											
TCHH	7062	broad.mit.edu	37	chr1	152084711	152084711	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctcctcctgctgctcgcGcctctcctgctgctcgcgcc	0	11	8	22	4	2	0	0	0	2	0	7	0	3	0	6	0	4	4	6	0	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:152084711G>A	uc001ezp.2	-	2	982	c.982C>T	c.(982-984)CGC>TGC	p.R328C	TCHH_uc009wne.1_Missense_Mutation_p.R328C	NM_007113	NP_009044	Q07283	TRHY_HUMAN	trichohyalin	328	5 X 13 AA tandem repeats of R-R-E-Q-E-E- E-R-R-E-Q-Q-L.|1-2; approximate.				keratinization	cytoskeleton	calcium ion binding			ovary(3)|kidney(1)|central_nervous_system(1)	5	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			tgctgctcgcgcctctcctgc	0													7	24					0	0	1	0	0		A	152084711	A	A	152084711	3	1	211	1	0	0	0	0	1	0	0	0	15725	1087	38	1	4853	1	TCHH	1	152084711	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	402486	152084711	97165910	96	101975											
FLG2	388698	broad.mit.edu	37	chr1	152329055	152329055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actagaagagtttgaaaagcGgccacaggaaccatattcat	16	8	9	8	1	1	3	1	1	0	2	1	4	1	4	2	2	2	1	2	2	6	4	rs145274102		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:152329055G>A	uc001ezw.3	-	3	1280	c.1207C>T	c.(1207-1209)CGC>TGC	p.R403C	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	403	Ser-rich.						calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTTGAAAAGCGGCCACAGGAA	0.428													28	78					0	0	1	0	0		A	152329055	A	A	152329055	3	1	211	1	0	0	0	0	1	0	0	0	5937	1116	39	1	5972	1	FLG2	1	152329055	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	244344	152329055	96921566	97	101976											
S100A13	6284	broad.mit.edu	37	chr1	153598863	153598863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacgctgaggctatccttcCggccctcctgccttgcaaag	6	10	10	15	2	0	2	0	2	0	0	3	2	3	2	5	2	2	3	5	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:153598863C>T	uc001fcf.3	-	2	245	c.86G>A	c.(85-87)CGG>CAG	p.R29Q	S100A13_uc001fcg.2_Missense_Mutation_p.R29Q|S100A13_uc009woh.2_Missense_Mutation_p.R29Q|S100A13_uc001fch.2_Missense_Mutation_p.R29Q|S100A13_uc001fci.2_Missense_Mutation_p.R29Q|S100A13_uc001fcj.2_Missense_Mutation_p.R29Q|S100A1_uc001fck.1_5'Flank|S100A1_uc001fcl.1_5'Flank	NM_001024213	NP_001019384	Q99584	S10AD_HUMAN	S100 calcium binding protein A13	29	1.|EF-hand 1.				interleukin-1 alpha secretion|mast cell degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|extracellular space|nucleus|perinuclear region of cytoplasm	calcium ion binding|copper ion binding|fibroblast growth factor 1 binding|lipid binding|protein homodimerization activity|RAGE receptor binding|zinc ion binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)		Amlexanox(DB01025)	GCTATCCTTCCGGCCCTCCTG	0.552													47	157					0	0	1	0	0		T	153598863	T	T	153598863	3	4	211	1	0	0	0	0	1	0	0	0	13800	652	23	1	218	1	S100A13	1	153598863	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1269808	153598863	95651758	98	101977											
DENND4B	9909	broad.mit.edu	37	chr1	153914704	153914704	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcacaaaggtggagaagaCgggcacggggtacttggtct	11	6	17	7	2	1	2	0	0	1	2	1	4	1	2	0	6	2	3	0	6	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:153914704C>T	uc001fdd.1	-	5	1170	c.769G>A	c.(769-771)GTC>ATC	p.V257I		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	257	UDENN.									ovary(1)	1	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)			GTGGAGAAGACGGGCACGGGG	0.632													16	49					0	0	1	0	0		T	153914704	T	T	153914704	3	4	211	1	0	0	0	0	1	0	0	0	4440	536	19	1	3817	1	DENND4B	1	153914704	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	315841	153914704	95335917	99	101978											
UBAP2L	9898	broad.mit.edu	37	chr1	154223782	154223782	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcagaagaaaaaagcctcCttgacttctaaggtacttaa	16	9	7	9	0	1	3	0	1	1	2	2	3	2	3	2	1	3	2	2	1	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:154223782C>A	uc001fep.3	+	13	1646	c.1479C>A	c.(1477-1479)TCC>TCA	p.S493S	UBAP2L_uc009wot.2_Silent_p.S493S|UBAP2L_uc010pek.1_Silent_p.S485S|UBAP2L_uc010pel.1_Silent_p.S503S|UBAP2L_uc010pen.1_Silent_p.S407S	NM_014847	NP_055662	Q14157	UBP2L_HUMAN	ubiquitin associated protein 2-like isoform a	493					binding of sperm to zona pellucida		protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(78;1.09e-30)|Lung NSC(65;1.66e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AAAAAGCCTCCTTGACTTCTA	0.448													20	47					1.50039e-11	1.60644e-11	1	1	0		A	154223782	A	A	154223782	2	1	211	1	0	0	0	0	0	0	0	1	16864	668	24	5		5	UBAP2L	1	154223782	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	309078	154223782	95026839	100	101979											
ADAR	103	broad.mit.edu	37	chr1	154557515	154557515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccgggacaattcattccGtggcctagagaaacaaaagc	14	6	10	11	2	1	1	1	0	0	1	2	4	2	2	3	2	2	0	3	2	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:154557515G>A	uc001ffh.2	-	15	3648	c.3448C>T	c.(3448-3450)CGG>TGG	p.R1150W	ADAR_uc001ffj.2_Missense_Mutation_p.R1105W|ADAR_uc001ffi.2_Missense_Mutation_p.R1124W|ADAR_uc001ffk.2_Missense_Mutation_p.R855W	NM_001111	NP_001102	P55265	DSRAD_HUMAN	adenosine deaminase, RNA-specific isoform a	1150	A to I editase.				adenosine to inosine editing|gene silencing by RNA|mRNA modification|mRNA processing|type I interferon-mediated signaling pathway	cytoplasm|nucleolus|nucleoplasm	DNA binding|double-stranded RNA adenosine deaminase activity|metal ion binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.0997)		LUSC - Lung squamous cell carcinoma(543;0.185)	Colorectal(1306;0.115)		AATTCATTCCGTGGCCTAGAG	0.498													34	80					0	0	1	0	0		A	154557515	A	A	154557515	3	1	211	1	0	0	0	0	1	0	0	0	281	1144	40	1	236	1	ADAR	1	154557515	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	333733	154557515	94693106	101	101980											
SHC1	6464	broad.mit.edu	37	chr1	154942742	154942742	+	Silent	SNP	T	G	G	0	1	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	atcccctccccatcatcagcTgcccttcctggctccccctt	4	11	4	22	0	2	0	2	0	0	0	6	0	6	0	8	1	2	2	8	1	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:154942742T>G	uc001ffv.2	-	1	482	c.261A>C	c.(259-261)GCA>GCC	p.A87A	SHC1_uc001ffz.1_5'Flank|SHC1_uc001ffw.2_Silent_p.A87A|SHC1_uc001ffx.2_Intron|SHC1_uc001ffy.2_Intron	NM_183001	NP_892113	P29353	SHC1_HUMAN	SHC-transforming protein 1 isoform 1	87					activation of MAPK activity|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|positive regulation of DNA replication|Ras protein signal transduction|regulation of epidermal growth factor receptor activity|regulation of growth	cytosol|mitochondrial matrix|Shc-EGFR complex	epidermal growth factor receptor binding|insulin receptor binding|insulin-like growth factor receptor binding|phospholipid binding|protein binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(1)|skin(1)	2	all_epithelial(22;4.9e-30)|all_lung(78;4.1e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00034)			CATCATCAGCTGCCCTTCCTG	0.672													19	61					0	0	1	0	0		G	154942742	G	G	154942742	2	3	211	1	0	0	0	0	0	0	0	1	14295	1567	55	5		5	SHC1	1	154942742	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	385227	154942742	94307879	102	101981											
MTX1	4580	broad.mit.edu	37	chr1	155182303	155182303	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcggcagtacatggaacggcTacagctgctgactggggagc	9	6	16	10	2	0	1	0	1	0	0	0	3	0	3	0	5	6	5	0	5	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:155182303T>C	uc001fjb.2	+	5	1005	c.899T>C	c.(898-900)CTA>CCA	p.L300P	RAG1AP1_uc010pey.1_Intron|MTX1_uc001fjc.2_Missense_Mutation_p.L269P	NM_002455	NP_002446	Q13505	MTX1_HUMAN	metaxin 1 isoform 1	300					protein targeting to mitochondrion	integral to membrane|mitochondrial outer membrane	protein binding			skin(1)	1	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)			ATGGAACGGCTACAGCTGCTG	0.582													14	30					0	0	1	0	0		C	155182303	C	C	155182303	3	2	211	1	0	0	0	0	1	0	0	0	9985	1522	53	3	917	3	MTX1	1	155182303	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	239561	155182303	94068318	103	101982											
CLK2	1196	broad.mit.edu	37	chr1	155240683	155240683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accaggagcgacttcttcgtCgcttatgctttcggctccga	6	12	10	13	5	1	0	0	0	1	0	5	3	2	1	2	2	2	3	2	2	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:155240683C>T	uc001fjy.2	-	2	376	c.86G>A	c.(85-87)CGA>CAA	p.R29Q	RAG1AP1_uc010pey.1_Intron|CLK2_uc001fjw.2_Missense_Mutation_p.R29Q|CLK2_uc001fjx.2_5'UTR|CLK2_uc009wqm.2_Missense_Mutation_p.R29Q	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	29						nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		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)			ACTTCTTCGTCGCTTATGCTT	0.592								Other_conserved_DNA_damage_response_genes					28	86					0	0	1	0	0		T	155240683	T	T	155240683	3	4	211	1	0	0	0	0	1	0	0	0	3540	884	31	1	1458	1	CLK2	1	155240683	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	58380	155240683	94009938	104	101983											
ARHGEF2	9181	broad.mit.edu	37	chr1	155924705	155924705	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacttactcttaattcgccGcaggtaagcctcatcctctg	8	12	8	13	2	3	0	1	0	2	0	5	1	4	1	3	2	2	2	3	2	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:155924705G>A	uc001fmt.2	-	14	1889	c.1771C>T	c.(1771-1773)CGG>TGG	p.R591W	ARHGEF2_uc001fmr.2_Missense_Mutation_p.R563W|ARHGEF2_uc001fms.2_Missense_Mutation_p.R590W|ARHGEF2_uc001fmu.2_Missense_Mutation_p.R635W	NM_001162383	NP_001155855	Q92974	ARHG2_HUMAN	Rho/Rac guanine nucleotide exchange factor 2	591	Potential.				actin filament organization|apoptosis|cell division|cell morphogenesis|induction of apoptosis by extracellular signals|intracellular protein transport|mitosis|negative regulation of microtubule depolymerization|nerve growth factor receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|regulation of cell proliferation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|Golgi apparatus|microtubule|ruffle membrane|spindle|tight junction	microtubule binding|Rac GTPase binding|Rac guanyl-nucleotide exchange factor activity|zinc ion binding			ovary(1)	1	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TTAATTCGCCGCAGGTAAGCC	0.313													22	81					0	0	1	0	0		A	155924705	A	A	155924705	3	1	211	1	0	0	0	0	1	0	0	0	903	1086	38	1	1225	1	ARHGEF2	1	155924705	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	684022	155924705	93325916	105	101984											
IQGAP3	128239	broad.mit.edu	37	chr1	156510583	156510583	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccagctgctgattggatcGgatcttcctaactacctctt	7	14	7	13	1	2	1	0	1	2	0	5	3	4	3	3	2	4	2	3	2	2	5	rs138977257	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:156510583G>A	uc001fpf.2	-	23	2731	c.2656C>T	c.(2656-2658)CGA>TGA	p.R886*		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	886					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGATTGGATCGGATCTTCCTA	0.527													18	65					0	0	1	0	0		A	156510583	A	A	156510583	4	1	211	1	0	0	0	0	0	1	0	0	7832	1124	39	1	2303	1	IQGAP3	1	156510583	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	585878	156510583	92740038	106	101985											
BCAN	63827	broad.mit.edu	37	chr1	156617400	156617400	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcccacatcgccaccccGgagcagctctatgccgccta	8	5	10	18	3	1	0	0	0	1	0	2	2	1	2	6	2	4	2	6	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:156617400G>A	uc001fpp.2	+	4	903	c.567G>A	c.(565-567)CCG>CCA	p.P189P	BCAN_uc001fpo.2_Silent_p.P189P	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	189	Link 1.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TCGCCACCCCGGAGCAGCTCT	0.632													27	97					0	0	1	0	0		A	156617400	A	A	156617400	2	1	211	1	0	0	0	0	0	0	0	1	1346	1103	39	1		1	BCAN	1	156617400	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	106817	156617400	92633221	107	101986											
C1orf66	51093	broad.mit.edu	37	chr1	156702120	156702120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggccctgaagtccacggCgtgtgccctggcctttaccc	4	9	12	16	2	0	1	0	1	0	0	1	1	1	1	5	3	2	1	5	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:156702120C>T	uc001fpu.2	+	3	918	c.284C>T	c.(283-285)GCG>GTG	p.A95V	C1orf66_uc001fpv.2_Missense_Mutation_p.A95V	NM_015997	NP_057081	Q96FB5	RRNAD_HUMAN	hypothetical protein LOC51093 isoform 1	95						integral to membrane	rRNA (adenine-N6,N6-)-dimethyltransferase activity				0	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					AAGTCCACGGCGTGTGCCCTG	0.592													23	51					0	0	1	0	0		T	156702120	T	T	156702120	3	4	211	1	0	0	0	0	1	0	0	0	2059	768	27	1	294	1	C1orf66	1	156702120	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	84720	156702120	92548501	108	101987											
INSRR	3645	broad.mit.edu	37	chr1	156821779	156821779	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgggcacagagtgcaggctgGcacagcgctcagctgtgaca	9	5	15	12	2	1	2	1	1	0	1	1	2	1	2	0	3	3	6	0	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:156821779G>A	uc010pht.1	-	3	1096	c.842C>T	c.(841-843)GCC>GTC	p.A281V	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Missense_Mutation_p.A281V	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	281					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GTGCAGGCTGGCACAGCGCTC	0.657													17	26					0	0	1	0	0		A	156821779	A	A	156821779	3	1	211	1	0	0	0	0	1	0	0	0	7790	1203	42	2	3130	2	INSRR	1	156821779	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	119659	156821779	92428842	109	101988											
INSRR	3645	broad.mit.edu	37	chr1	156823914	156823914	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgcgcaggctctccagtccGtagacacggaagagcagcag	10	5	13	13	4	1	2	0	0	1	2	4	3	2	3	2	2	2	5	2	2	2	1	rs62640942	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:156823914G>A	uc010pht.1	-	2	521	c.267C>T	c.(265-267)TAC>TAT	p.Y89Y	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Silent_p.Y89Y	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor	89					protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TCTCCAGTCCGTAGACACGGA	0.617													16	40					0	0	1	0	0		A	156823914	A	A	156823914	2	1	211	1	0	0	0	0	0	0	0	1	7790	1140	40	1		1	INSRR	1	156823914	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2135	156823914	92426707	110	101989											
NTRK1	4914	broad.mit.edu	37	chr1	156843506	156843506	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtggatgggcagccggcacCgtctctgcgctggctcttca	4	10	14	13	3	3	0	1	0	2	0	4	1	3	1	2	4	2	4	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:156843506C>T	uc001fqh.1	+	8	988	c.932C>T	c.(931-933)CCG>CTG	p.P311L	NTRK1_uc001fqf.1_Missense_Mutation_p.P281L|NTRK1_uc009wsi.1_Missense_Mutation_p.P16L|NTRK1_uc001fqi.1_Missense_Mutation_p.P311L|NTRK1_uc009wsk.1_Missense_Mutation_p.P311L	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	311	Ig-like C2-type 2.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	CAGCCGGCACCGTCTCTGCGC	0.627			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			9	24					0	0	1	0	0		T	156843506	T	T	156843506	3	4	211	1	0	0	0	0	1	0	0	0	10725	652	23	1	1092	1	NTRK1	1	156843506	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	19592	156843506	92407115	111	101990											
ARHGEF11	9826	broad.mit.edu	37	chr1	156918229	156918229	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttctctgcctttcgagaccGtttcatctcttcccggccct	3	15	7	16	3	3	1	1	0	2	1	7	2	4	1	4	1	1	2	4	1	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:156918229G>A	uc001fqo.2	-	22	2907	c.1867C>T	c.(1867-1869)CGG>TGG	p.R623W	ARHGEF11_uc010phu.1_Missense_Mutation_p.R39W|ARHGEF11_uc001fqn.2_Missense_Mutation_p.R663W|ARHGEF11_uc001fqp.1_Missense_Mutation_p.R142W	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	623					actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					TTTCGAGACCGTTTCATCTCT	0.587													23	76					0	0	1	0	0		A	156918229	A	A	156918229	3	1	211	1	0	0	0	0	1	0	0	0	896	1144	40	1	2777	1	ARHGEF11	1	156918229	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	74723	156918229	92332392	112	101991											
SPTA1	6708	broad.mit.edu	37	chr1	158622409	158622409	+	Missense_Mutation	SNP	T	C	C	0	1	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	acgttgcaatagacgacgtcTgcgttcttctgcccgatcca	8	11	9	13	5	3	1	0	0	3	1	4	3	4	1	2	0	3	3	2	0	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:158622409T>C	uc001fst.1	-	23	3422	c.3223A>G	c.(3223-3225)AGA>GGA	p.R1075G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1075					actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGACGACGTCTGCGTTCTTCT	0.438													24	56					0	0	1	0	0		C	158622409	C	C	158622409	3	2	211	1	0	0	0	0	1	0	0	0	15141	1588	55	3	4156	3	SPTA1	1	158622409	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1704180	158622409	90628212	113	101992											
MNDA	4332	broad.mit.edu	37	chr1	158815592	158815592	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgaaagagaaatttgtaagGaagaaggtcattaccatatc	17	11	9	4	0	1	3	1	1	0	2	2	5	1	4	1	2	1	1	1	2	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:158815592G>T	uc001fsz.1	+	5	986	c.786G>T	c.(784-786)AGG>AGT	p.R262S		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	262	HIN-200.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					AATTTGTAAGGAAGAAGGTCA	0.353													8	38					0.000157383	0.000161667	1	1	0		T	158815592	T	T	158815592	3	4	211	1	0	0	0	0	1	0	0	0	9694	1165	41	5	800	5	MNDA	1	158815592	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	193183	158815592	90435029	114	101993											
FCRL6	343413	broad.mit.edu	37	chr1	159779226	159779226	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cctgtgctcactctgcaccaCgggcctgctgaccctgctgt	4	10	10	17	1	2	1	1	1	1	0	2	1	2	1	4	1	4	4	4	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:159779226C>T	uc001fud.3	+	5	681	c.639C>T	c.(637-639)CAC>CAT	p.H213H	FCRL6_uc001fuc.2_Silent_p.H220H|FCRL6_uc009wsz.1_Silent_p.H118H|FCRL6_uc009wta.2_Silent_p.H213H	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	213	Ig-like C2-type 3.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					CTCTGCACCACGGGCCTGCTG	0.627													17	52					0	0	1	0	0		T	159779226	T	T	159779226	2	4	211	1	0	0	0	0	0	0	0	1	5813	535	19	1		1	FCRL6	1	159779226	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	963634	159779226	89471395	115	101994											
SLAMF8	56833	broad.mit.edu	37	chr1	159799767	159799767	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtccgtgaggctatctggcGatctctctggccttcagaag	7	11	12	11	2	4	2	1	1	3	1	6	3	5	2	2	3	0	1	2	3	2	2	rs140969397		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:159799767G>A	uc001fue.3	+	2	362	c.152G>A	c.(151-153)CGA>CAA	p.R51Q		NM_020125	NP_064510	Q9P0V8	SLAF8_HUMAN	SLAM family member 8 precursor	51	Extracellular (Potential).					integral to membrane					0	all_hematologic(112;0.0597)					GCTATCTGGCGATCTCTCTGG	0.612													55	167					0	0	1	0	0		A	159799767	A	A	159799767	3	1	211	1	0	0	0	0	1	0	0	0	14395	1058	37	1	158	1	SLAMF8	1	159799767	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	20541	159799767	89450854	116	101995											
IGSF8	93185	broad.mit.edu	37	chr1	160064775	160064775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggcaatcttgagcaccacgGcatcaccttgtaggcgctgc	8	8	12	13	2	2	1	1	1	1	0	2	1	2	1	2	3	2	5	2	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:160064775G>A	uc001fva.2	-	2	371	c.326C>T	c.(325-327)GCC>GTC	p.A109V	IGSF8_uc001fuz.2_Missense_Mutation_p.A109V|IGSF8_uc009wtf.2_Missense_Mutation_p.A109V	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	109	Ig-like C2-type 1.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			GAGCACCACGGCATCACCTTG	0.607													27	46					0	0	1	0	0		A	160064775	A	A	160064775	3	1	211	1	0	0	0	0	1	0	0	0	7620	1203	42	2	1535	2	IGSF8	1	160064775	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	265008	160064775	89185846	117	101996											
NCSTN	23385	broad.mit.edu	37	chr1	160325683	160325683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgtggccacggtgctgggaCgtgctctgtatgagcttgca	6	11	15	9	2	1	1	0	1	1	0	1	2	1	2	1	3	4	5	1	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:160325683C>T	uc001fvx.2	+	13	1610	c.1486C>T	c.(1486-1488)CGT>TGT	p.R496C	NCSTN_uc001fvy.2_Missense_Mutation_p.R476C|NCSTN_uc010pjf.1_Missense_Mutation_p.R358C|NCSTN_uc001fvz.2_Missense_Mutation_p.R276C|NCSTN_uc010pjg.1_Missense_Mutation_p.R238C	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	496	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GGTGCTGGGACGTGCTCTGTA	0.552													11	47					0	0	1	0	0		T	160325683	T	T	160325683	3	4	211	1	0	0	0	0	1	0	0	0	10260	536	19	1	1536	1	NCSTN	1	160325683	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	260908	160325683	88924938	118	101997											
CD84	8832	broad.mit.edu	37	chr1	160535331	160535331	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggacctaaggcatgtatcCgttcataataatttctgtgg	10	14	9	8	2	2	0	1	0	1	0	4	1	3	1	2	3	0	3	2	3	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:160535331C>T	uc001fwh.3	-	2	275	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	CD84_uc001fwf.3_Missense_Mutation_p.R84Q|CD84_uc001fwg.3_Missense_Mutation_p.R84Q|CD84_uc009wtn.2_Missense_Mutation_p.R84Q|CD84_uc001fwi.3_Intron|CD84_uc001fwj.2_Missense_Mutation_p.R84Q|CD84_uc001fwk.2_Missense_Mutation_p.R84Q	NM_003874	NP_003865	Q9UIB8	SLAF5_HUMAN	CD84 molecule	84	Extracellular (Potential).				blood coagulation|defense response|homophilic cell adhesion|leukocyte migration	integral to plasma membrane	receptor activity	p.R84W(1)		ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(52;3.62e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			GGCATGTATCCGTTCATAATA	0.438													44	136					0	0	1	0	0		T	160535331	T	T	160535331	3	4	211	1	0	0	0	0	1	0	0	0	3045	652	23	1	814	1	CD84	1	160535331	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	209648	160535331	88715290	119	101998											
USF1	7391	broad.mit.edu	37	chr1	161010422	161010422	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gattatcttggagagctgcaCgatccagttgttgatcttgt	8	15	11	7	1	2	2	0	1	2	1	3	5	3	2	1	1	2	4	1	1	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:161010422C>T	uc001fxi.2	-	9	853	c.658G>A	c.(658-660)GTG>ATG	p.V220M	F11R_uc010pjw.1_5'Flank|F11R_uc001fxf.3_5'Flank|TSTD1_uc010pjx.1_5'Flank|TSTD1_uc009wtw.2_5'Flank|TSTD1_uc001fxh.3_5'Flank|USF1_uc001fxj.2_Missense_Mutation_p.V161M	NM_007122	NP_009053	P22415	USF1_HUMAN	upstream stimulatory factor 1 isoform 1	220	Helix-loop-helix motif.				cellular response to insulin stimulus|glucose homeostasis|late viral mRNA transcription|lipid homeostasis|positive regulation of transcription from RNA polymerase II promoter by glucose|response to hypoxia|response to UV	transcription factor complex	bHLH transcription factor binding|histone deacetylase binding|protein heterodimerization activity|protein homodimerization activity|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(52;6.73e-18)|Breast(13;0.012)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00122)			GAGAGCTGCACGATCCAGTTG	0.547													6	49					0	0	1	0	0		T	161010422	T	T	161010422	3	4	211	1	0	0	0	0	1	0	0	0	17058	536	19	1	286	1	USF1	1	161010422	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	475091	161010422	88240199	120	101999											
FCGR2A	2212	broad.mit.edu	37	chr1	161479826	161479826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacaggaaacataggctacaCgctgttctcatccaagcctg	12	8	8	13	1	1	0	1	0	1	0	3	1	2	1	2	2	3	3	2	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:161479826C>T	uc001gan.2	+	4	634	c.581C>T	c.(580-582)ACG>ATG	p.T194M	FCGR2A_uc001gam.2_Missense_Mutation_p.T193M|FCGR2A_uc001gao.2_RNA	NM_001136219	NP_001129691	P12318	FCG2A_HUMAN	Fc fragment of IgG, low affinity IIa, receptor	194	Extracellular (Potential).|Ig-like C2-type 2.					integral to membrane|plasma membrane	IgG binding|receptor activity			ovary(1)	1	all_cancers(52;4.89e-16)|all_hematologic(112;0.0207)		BRCA - Breast invasive adenocarcinoma(70;0.00376)		Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	ATAGGCTACACGCTGTTCTCA	0.517													20	48					0	0	1	0	0		T	161479826	T	T	161479826	3	4	211	1	0	0	0	0	1	0	0	0	5795	536	19	1	595	1	FCGR2A	1	161479826	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	469404	161479826	87770795	121	102000											
DDR2	4921	broad.mit.edu	37	chr1	162745616	162745616	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccccctaattcttcctccagCgatgtacgcactgtcaggta	8	11	7	15	2	2	0	1	0	1	0	4	1	4	0	4	1	2	3	4	1	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:162745616C>T	uc001gcf.2	+	16	2496	c.2031C>T	c.(2029-2031)AGC>AGT	p.S677S	DDR2_uc001gcg.2_Silent_p.S677S	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	677	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			CTTCCTCCAGCGATGTACGCA	0.483													40	108					0	0	1	0	0		T	162745616	T	T	162745616	2	4	211	1	0	0	0	0	0	0	0	1	4340	767	27	1		1	DDR2	1	162745616	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1265790	162745616	86505005	122	102001											
LMX1A	4009	broad.mit.edu	37	chr1	165179968	165179968	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttttggaaccacacctggaCgacacggacactcagccctg	10	7	10	14	2	1	0	1	0	0	0	1	4	1	3	3	3	2	1	3	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:165179968C>T	uc001gcy.1	-	5	936	c.715G>A	c.(715-717)GTC>ATC	p.V239I	LMX1A_uc001gcz.1_Missense_Mutation_p.V239I|LMX1A_uc001gcw.1_5'UTR|LMX1A_uc001gcx.1_5'UTR	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	239	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.V239I(1)		central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CACACCTGGACGACACGGACA	0.478													15	46					0	0	1	0	0		T	165179968	T	T	165179968	3	4	211	1	0	0	0	0	1	0	0	0	8878	536	19	1	449	1	LMX1A	1	165179968	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2434352	165179968	84070653	123	102002											
POGK	57645	broad.mit.edu	37	chr1	166815887	166815887	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggccatatatttttcCgatgaggaatgggaagtttt	10	14	13	4	1	0	1	0	1	0	0	1	5	1	3	2	4	0	1	2	4	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:166815887C>T	uc001gdt.1	+	3	291	c.171C>T	c.(169-171)TCC>TCT	p.S57S	POGK_uc010ple.1_Intron|POGK_uc010plf.1_Intron	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	57	KRAB.				multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						TATATTTTTCCGATGAGGAAT	0.473													21	101					0	0	1	0	0		T	166815887	T	T	166815887	2	4	211	1	0	0	0	0	0	0	0	1	12204	639	23	1		1	POGK	1	166815887	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1635919	166815887	82434734	124	102003											
ADCY10	55811	broad.mit.edu	37	chr1	167830192	167830192	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttcgaaggttggtctgtcGttctttataatgtttacaag	9	18	9	5	2	2	0	0	0	2	0	4	1	2	0	0	2	1	3	0	2	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:167830192G>A	uc001ger.2	-	15	2024	c.1726C>T	c.(1726-1728)CGA>TGA	p.R576*	ADCY10_uc009wvk.2_Nonsense_Mutation_p.R484*|ADCY10_uc010plj.1_Nonsense_Mutation_p.R423*|ADCY10_uc009wvl.2_Nonsense_Mutation_p.R575*	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	576					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TTGGTCTGTCGTTCTTTATAA	0.363													22	73					0	0	1	0	0		A	167830192	A	A	167830192	4	1	211	1	0	0	0	0	0	1	0	0	293	1153	40	1	3182	1	ADCY10	1	167830192	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1014305	167830192	81420429	125	102004											
TNN	63923	broad.mit.edu	37	chr1	175092540	175092540	+	Silent	SNP	T	C	C	0	1	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	aaatctttttaaaaagaaatTgacggccccaaaaacctagt	18	10	5	8	1	1	2	0	1	1	1	1	2	1	2	3	1	1	0	3	1	8	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:175092540T>C	uc001gkl.1	+	12	2768	c.2655T>C	c.(2653-2655)ATT>ATC	p.I885I		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	885	Fibronectin type-III 8.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		AAAAAGAAATTGACGGCCCCA	0.463													18	57					0	0	1	0	0		C	175092540	C	C	175092540	2	2	211	1	0	0	0	0	0	0	0	1	16348	1800	63	3		3	TNN	1	175092540	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	7262348	175092540	74158081	126	102005											
TNR	7143	broad.mit.edu	37	chr1	175375480	175375480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgaactggcacatggacagGcctttttggggaagttgatc	9	11	13	8	0	0	2	0	2	0	0	1	4	0	4	1	5	1	2	1	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:175375480G>A	uc001gkp.1	-	1	452	c.371C>T	c.(370-372)GCC>GTC	p.A124V	TNR_uc009wwu.1_Missense_Mutation_p.A124V|TNR_uc010pmz.1_Missense_Mutation_p.A124V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	124					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACATGGACAGGCCTTTTTGGG	0.592													18	81					0	0	1	0	0		A	175375480	A	A	175375480	3	1	211	1	0	0	0	0	1	0	0	0	16363	1203	42	2	3789	2	TNR	1	175375480	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	282940	175375480	73875141	127	102006											
ASTN1	460	broad.mit.edu	37	chr1	176999987	176999987	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctggctgctggaggtgtGagagagaagggtggcttgct	6	11	18	6	0	1	2	0	1	1	2	2	5	1	3	0	5	2	4	0	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:176999987G>T	uc001glc.2	-	4	1179	c.967C>A	c.(967-969)CAC>AAC	p.H323N	ASTN1_uc001glb.1_Missense_Mutation_p.H323N|ASTN1_uc001gld.1_Missense_Mutation_p.H323N|ASTN1_uc009wwx.1_Missense_Mutation_p.H323N|ASTN1_uc001gle.3_RNA|MIR488_hsa-mir-488|MI0003123_5'Flank	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	323					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CTGGAGGTGTGAGAGAGAAGG	0.478													6	76					0.00198382	0.00201759	1	1	0		T	176999987	T	T	176999987	3	4	211	1	0	0	0	0	1	0	0	0	1065	1290	45	5	3001	5	ASTN1	1	176999987	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1624507	176999987	72250634	128	102007											
FAM5B	57795	broad.mit.edu	37	chr1	177199214	177199214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accggggccccttccaccgcGctcaggagtatgctgacttc	6	8	11	16	3	1	1	1	1	0	0	3	2	2	2	5	3	1	3	5	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:177199214G>A	uc001glf.2	+	2	514	c.202G>A	c.(202-204)GCT>ACT	p.A68T		NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	68						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CTTCCACCGCGCTCAGGAGTA	0.637													43	94					0	0	1	0	0		A	177199214	A	A	177199214	3	1	211	1	0	0	0	0	1	0	0	0	5607	1087	38	1	204	1	FAM5B	1	177199214	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	199227	177199214	72051407	129	102008											
FAM5B	57795	broad.mit.edu	37	chr1	177250252	177250252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacagttcatgtttacctacGgagccgaatcaagtccctgg	10	10	10	11	2	2	0	2	0	0	0	3	3	3	1	3	2	3	2	3	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:177250252G>A	uc001glf.2	+	8	2252	c.1940G>A	c.(1939-1941)CGG>CAG	p.R647Q	FAM5B_uc001glg.2_Missense_Mutation_p.R542Q	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	647						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						GTTTACCTACGGAGCCGAATC	0.463													16	62					0	0	1	0	0		A	177250252	A	A	177250252	3	1	211	1	0	0	0	0	1	0	0	0	5607	1116	39	1	1966	1	FAM5B	1	177250252	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	51038	177250252	72000369	130	102009											
SEC16B	89866	broad.mit.edu	37	chr1	177901700	177901700	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcggatcctcggccttcaccCccacctggaaagtaatgagg	9	7	11	14	2	1	1	1	1	0	0	3	3	2	3	5	4	0	1	5	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:177901700C>A	uc001gli.1	-	24	3027	c.2937G>T	c.(2935-2937)GGG>GGT	p.G979G	SEC16B_uc001glk.1_Silent_p.G656G|SEC16B_uc009wwy.1_Missense_Mutation_p.G498V|SEC16B_uc001glh.1_Silent_p.G639G|SEC16B_uc009wwz.1_Silent_p.G638G|SEC16B_uc001glj.1_Silent_p.G980G	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	979					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						GGCCTTCACCCCCACCTGGAA	0.662													5	7					0.0293803	0.0295452	1	1	0		A	177901700	A	A	177901700	2	1	211	1	0	0	0	0	0	0	0	1	14012	610	22	5		5	SEC16B	1	177901700	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	651448	177901700	71348921	131	102010											
SEC16B	89866	broad.mit.edu	37	chr1	177909758	177909758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcacctccagctgcctcCgaagttgcgctagccaatct	8	9	7	17	2	2	0	1	0	1	0	4	1	4	0	5	0	4	3	5	0	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:177909758C>T	uc001gli.1	-	17	2204	c.2114G>A	c.(2113-2115)CGG>CAG	p.R705Q	SEC16B_uc001glk.1_Missense_Mutation_p.R382Q|SEC16B_uc009wwy.1_Missense_Mutation_p.R260Q|SEC16B_uc001glh.1_Missense_Mutation_p.R364Q|SEC16B_uc009wwz.1_Missense_Mutation_p.R364Q|SEC16B_uc001glj.1_Missense_Mutation_p.R706Q	NM_033127	NP_149118	Q96JE7	SC16B_HUMAN	leucine zipper transcription regulator 2	705					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane				ovary(3)|central_nervous_system(1)	4						CAGCTGCCTCCGAAGTTGCGC	0.572													17	27					0	0	1	0	0		T	177909758	T	T	177909758	3	4	211	1	0	0	0	0	1	0	0	0	14012	652	23	1	1108	1	SEC16B	1	177909758	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8058	177909758	71340863	132	102011											
RALGPS2	55103	broad.mit.edu	37	chr1	178861408	178861408	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccggtgacaagagtggcaCgaaatggctatcgaagtcac	12	6	13	10	3	1	2	1	1	0	1	2	4	1	2	1	3	0	2	1	3	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:178861408C>T	uc001glz.2	+	15	1629	c.1291C>T	c.(1291-1293)CGA>TGA	p.R431*	RALGPS2_uc010pnb.1_Intron	NM_152663	NP_689876	Q86X27	RGPS2_HUMAN	Ral GEF with PH domain and SH3 binding motif 2	431					small GTPase mediated signal transduction	cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity|protein binding				0						AAGAGTGGCACGAAATGGCTA	0.433													41	64					0	0	1	0	0		T	178861408	T	T	178861408	4	4	211	1	0	0	0	0	0	1	0	0	13043	528	19	1	1345	1	RALGPS2	1	178861408	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	951650	178861408	70389213	133	102012											
CEP350	9857	broad.mit.edu	37	chr1	179991857	179991857	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgaagacaagttggacagagGaacatcaacatcacggcctt	15	7	10	9	1	2	3	2	1	0	2	2	5	2	5	1	3	2	1	1	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:179991857G>A	uc001gnt.2	+	13	3643	c.3260G>A	c.(3259-3261)GGA>GAA	p.G1087E	CEP350_uc009wxl.2_Missense_Mutation_p.G1086E|CEP350_uc001gnu.2_Missense_Mutation_p.G921E	NM_014810	NP_055625	Q5VT06	CE350_HUMAN	centrosome-associated protein 350	1087						centrosome|nucleus|spindle				ovary(4)	4						TTGGACAGAGGAACATCAACA	0.413													3	24					0	0	1	0	0		A	179991857	A	A	179991857	3	1	211	1	0	0	0	0	1	0	0	0	3257	1174	41	4	3306	4	CEP350	1	179991857	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1130449	179991857	69258764	134	102013											
IER5	51278	broad.mit.edu	37	chr1	181058046	181058046	+	Missense_Mutation	SNP	T	A	A	0	1	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	gcaggggaagcagatggagtTcaagctggaggctcatcgca	11	6	16	8	1	2	1	2	0	0	1	3	4	2	4	0	5	2	6	0	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:181058046T>A	uc001got.3	+	1	409	c.8T>A	c.(7-9)TTC>TAC	p.F3Y		NM_016545	NP_057629	Q5VY09	IER5_HUMAN	immediate early response 5	3										pancreas(1)	1						CAGATGGAGTTCAAGCTGGAG	0.622													13	65					0	0	1	0	0		A	181058046	A	A	181058046	3	1	211	1	0	0	0	0	1	0	0	0	7524	1783	62	5	10	5	IER5	1	181058046	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1066189	181058046	68192575	135	102014											
RGS8	85397	broad.mit.edu	37	chr1	182615870	182615870	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caggagttcccttctgaggtCtaactgagcctcctctggct	6	12	10	13	0	3	2	0	2	3	0	5	3	5	3	3	3	2	2	3	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:182615870C>T	uc010pnw.1	-	7	801	c.543G>A	c.(541-543)TAG>TAA	p.*181*	RGS8_uc001gpn.1_Silent_p.*181*|RGS8_uc001gpm.1_Silent_p.*199*	NM_001102450	NP_001095920	P57771	RGS8_HUMAN	regulator of G-protein signalling 8 isoform 2	181					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)	1						CTTCTGAGGTCTAACTGAGCC	0.483													24	109					0	0	1	0	0		T	182615870	T	T	182615870	2	4	211	1	0	0	0	0	0	0	0	1	13337	924	32	4		4	RGS8	1	182615870	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1557824	182615870	66634751	136	102015											
C1orf14	81626	broad.mit.edu	37	chr1	182922238	182922238	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatggtgcggaatgagtccgCgggcaccgaggccttggagc	7	6	18	10	4	0	1	0	1	0	0	1	5	1	3	3	5	2	1	3	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:182922238C>T	uc001gpu.2	-	1	316	c.31G>A	c.(31-33)GCG>ACG	p.A11T	C1orf14_uc001gpv.2_5'UTR|C1orf14_uc010pnz.1_5'UTR|C1orf14_uc001gpw.2_5'UTR	NM_030933	NP_112195	Q9BZQ2	SHP1L_HUMAN	chromosome 1 open reading frame 14	83											0				Colorectal(1306;1.64e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00267)		AATGAGTCCGCGGGCACCGAG	0.716													7	15					0	0	1	0	0		T	182922238	T	T	182922238	3	4	211	1	0	0	0	0	1	0	0	0	2003	768	27	1	1970	1	C1orf14	1	182922238	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	306368	182922238	66328383	137	102016											
HMCN1	83872	broad.mit.edu	37	chr1	186055508	186055508	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctcaagaatgaacagcccatCaaactgaacacaaatactct	18	7	4	12	0	3	3	2	2	1	1	3	3	3	3	1	0	5	0	1	0	7	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:186055508C>T	uc001grq.1	+	58	9244	c.9015C>T	c.(9013-9015)ATC>ATT	p.I3005I		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	3005	Ig-like C2-type 28.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AACAGCCCATCAAACTGAACA	0.388													28	50					0	0	1	0	0		T	186055508	T	T	186055508	2	4	211	1	0	0	0	0	0	0	0	1	7236	816	29	4		4	HMCN1	1	186055508	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3133270	186055508	63195113	138	102017											
GLRX2	51022	broad.mit.edu	37	chr1	193066740	193066740	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccagtcattttgtaaaGagcatcttggaactggtttc	10	15	8	8	0	3	1	2	0	1	1	4	2	3	2	1	2	2	3	1	2	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:193066740G>T	uc001gsz.1	-	3	378	c.334C>A	c.(334-336)CTT>ATT	p.L112I	GLRX2_uc001gta.1_Missense_Mutation_p.L113I	NM_197962	NP_932066	Q9NS18	GLRX2_HUMAN	glutaredoxin 2 isoform 2	112	Glutaredoxin.				apoptosis|cell differentiation|cell redox homeostasis|DNA protection|electron transport chain|glutathione metabolic process|protein thiol-disulfide exchange|regulation of signal transduction|regulation of transcription, DNA-dependent|response to hydrogen peroxide|response to organic substance|response to redox state|response to temperature stimulus|transport	mitochondrion|nucleus	2 iron, 2 sulfur cluster binding|arsenate reductase (glutaredoxin) activity|electron carrier activity|glutathione disulfide oxidoreductase activity|metal ion binding|protein disulfide oxidoreductase activity				0					Glutathione(DB00143)	ATTTTGTAAAGAGCATCTTGG	0.393													22	77					3.28513e-13	3.54201e-13	1	1	0		T	193066740	T	T	193066740	3	4	211	1	0	0	0	0	1	0	0	0	6475	942	33	5	168	5	GLRX2	1	193066740	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7011232	193066740	56183881	139	102018											
ASPM	259266	broad.mit.edu	37	chr1	197099130	197099130	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggcgattcagaataaacatAgccaaccctgtgacatcact	15	8	7	11	1	2	2	2	1	0	1	2	3	2	2	2	1	3	0	2	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:197099130A>G	uc001gtu.2	-	8	2801	c.2544T>C	c.(2542-2544)GCT>GCC	p.A848A	ASPM_uc001gtv.2_Silent_p.A848A|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	848					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GAATAAACATAGCCAACCCTG	0.343													25	92					0	0	1	0	0		G	197099130	G	G	197099130	2	3	211	1	0	0	0	0	0	0	0	1	1057	407	15	3		3	ASPM	1	197099130	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4032390	197099130	52151491	140	102019											
KIF21B	23046	broad.mit.edu	37	chr1	200969527	200969527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actccactcacctcttcctcCgctgcctgacctccttcttc	4	13	3	21	1	3	1	1	1	2	0	8	1	7	1	7	0	1	1	7	0	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:200969527C>T	uc001gvs.1	-	11	1993	c.1676G>A	c.(1675-1677)CGG>CAG	p.R559Q	KIF21B_uc001gvr.1_Missense_Mutation_p.R559Q|KIF21B_uc009wzl.1_Missense_Mutation_p.R559Q|KIF21B_uc010ppn.1_Missense_Mutation_p.R559Q	NM_017596	NP_060066	O75037	KI21B_HUMAN	kinesin family member 21B	559	Potential.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(3)	6						CCTCTTCCTCCGCTGCCTGAC	0.667													125	178					0	0	1	0	0		T	200969527	T	T	200969527	3	4	211	1	0	0	0	0	1	0	0	0	8305	652	23	1	3294	1	KIF21B	1	200969527	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3870397	200969527	48281094	141	102020											
CACNA1S	779	broad.mit.edu	37	chr1	201022613	201022613	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacttgatgaacgtccacaGgagggttcgcactccttctg	8	10	12	11	2	1	2	0	2	1	0	4	4	3	4	2	3	1	2	2	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:201022613G>A	uc001gvv.2	-	30	3996	c.3769C>T	c.(3769-3771)CTG>TTG	p.L1257L		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	1257	Cytoplasmic (Potential).|IV.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	AACGTCCACAGGAGGGTTCGC	0.617													16	113					0	0	1	0	0		A	201022613	A	A	201022613	2	1	211	1	0	0	0	0	0	0	0	1	2550	991	35	4		4	CACNA1S	1	201022613	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	53086	201022613	48228008	142	102021											
IGFN1	91156	broad.mit.edu	37	chr1	201196200	201196200	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcctggaaggaaaccccgcGgtgtacagcactgacctgct	10	6	12	13	2	0	1	0	1	0	0	0	3	0	3	4	3	5	3	4	3	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:201196200G>A	uc001gwc.2	+	12	3229	c.2457G>A	c.(2455-2457)GCG>GCA	p.A819A	IGFN1_uc001gwb.2_RNA	NM_178275	NP_840059			RecName: Full=Immunoglobulin-like and fibronectin type III domain-containing protein 1; AltName: Full=EEF1A2-binding protein 1; AltName: Full=KY-interacting protein 1;											ovary(2)|pancreas(1)	3						GAAACCCCGCGGTGTACAGCA	0.657													12	80					0	0	1	0	0		A	201196200	A	A	201196200	2	1	211	1	0	0	0	0	0	0	0	1	7606	1103	39	1		1	IGFN1	1	201196200	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	173587	201196200	48054421	143	102022											
NAV1	89796	broad.mit.edu	37	chr1	201618271	201618272	+	Frame_Shift_Ins	INS	-	C	C																															cccggcgggcggcgccaagaINScccccctggctccgctcgcg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:201618271_201618272insC	uc001gwu.2	+	1	822_823	c.475_476insC	c.(475-477)ACCfs	p.T159fs		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	159					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						CGGCGCCAAGACCCCCCTGGCT	0.698													13	20	---	---	---	---						.	C	201618272	C	C	201618271	7	5	211	1	0	1	1	0	0	0	0	0	10201	275	10	0	477	0	NAV1	1	201618271	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	422071	201618271	47632350	144	102023											
PPFIA4	8497	broad.mit.edu	37	chr1	203008345	203008345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcgggaccagctccagcGccaccttaactccgccctcc	7	5	9	20	4	0	0	0	0	0	0	3	2	3	1	7	1	4	1	7	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:203008345G>A	uc009xaj.2	+	6	650	c.650G>A	c.(649-651)CGC>CAC	p.R217H				O75335	LIPA4_HUMAN	SubName: Full=Liprin alpha4;	Error:Variant_position_missing_in_O75335_after_alignment					cell communication	cell surface|cytoplasm	protein binding			ovary(4)|skin(1)	5						CAGCTCCAGCGCCACCTTAAC	0.637											OREG0014109	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	16					0	0	1	0	0		A	203008345	A	A	203008345	3	1	211	1	0	0	0	0	1	0	0	0	12331	1102	38	1		1	PPFIA4	1	203008345	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1390074	203008345	46242276	145	102024											
LRRN2	10446	broad.mit.edu	37	chr1	204588727	204588727	+	Silent	SNP	G	A	A	0	0	1	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	tgcaaagctgtggtcctccaGccgggtcagctggttctcct	5	11	12	13	1	2	0	1	0	1	0	5	0	4	0	4	3	4	4	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:204588727G>A	uc001hbe.1	-	3	782	c.394C>T	c.(394-396)CTG>TTG	p.L132L	MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Silent_p.L132L|LRRN2_uc009xbf.1_Silent_p.L132L|MDM4_uc001hbc.2_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor	132	LRR 3.|Extracellular (Potential).				cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			TGGTCCTCCAGCCGGGTCAGC	0.607													35	167					0	0	1	0	0		A	204588727	A	A	204588727	2	1	211	1	0	0	0	0	0	0	0	1	9053	962	34	2		2	LRRN2	1	204588727	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1580382	204588727	44661894	146	102025											
CNTN2	6900	broad.mit.edu	37	chr1	205039135	205039135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagatccgcagctacaacCgccgcggggatgggcccgag	9	4	14	14	5	1	1	1	0	0	1	2	3	2	2	4	3	3	2	4	3	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:205039135C>T	uc001hbr.2	+	18	2646	c.2377C>T	c.(2377-2379)CGC>TGC	p.R793C	CNTN2_uc001hbq.1_Missense_Mutation_p.R684C|CNTN2_uc001hbs.2_Missense_Mutation_p.R581C	NM_005076	NP_005067	Q02246	CNTN2_HUMAN	contactin 2 precursor	793	Fibronectin type-III 2.				axon guidance|clustering of voltage-gated potassium channels	anchored to membrane|juxtaparanode region of axon|myelin sheath|node of Ranvier|synapse part	identical protein binding			ovary(1)	1	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)			CAGCTACAACCGCCGCGGGGA	0.667													39	39					0	0	1	0	0		T	205039135	T	T	205039135	3	4	211	1	0	0	0	0	1	0	0	0	3644	652	23	1	2443	1	CNTN2	1	205039135	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	450408	205039135	44211486	147	102026											
AVPR1B	553	broad.mit.edu	37	chr1	206224496	206224496	+	Frame_Shift_Del	DEL	C	-	-																															ccctcggggcaccctctctgCccccaatgccacaacaccct																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:206224496delC	uc001hds.2	+	1	214	c.56delC	c.(55-57)GCCfs	p.A19fs		NM_000707	NP_000698	P47901	V1BR_HUMAN	arginine vasopressin receptor 1B	19	Extracellular (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity			ovary(2)|large_intestine(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.0312)		Desmopressin(DB00035)|Terlipressin(DB02638)|Vasopressin(DB00067)	ACCCTCTCTGCCCCCAATGCC	0.652													200	349	---	---	---	---						.	-	206224496	-	-	206224496	7	5	211	1	0	1	0	1	0	0	0	0	1233	739	26	0	58	0	AVPR1B	1	206224496	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1185361	206224496	43026125	148	102027											
AVPR1B	553	broad.mit.edu	37	chr1	206224692	206224692	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgacagacctggccgtggcGctcttccaggtgctgccaca	6	8	12	15	2	1	2	0	1	1	1	2	2	2	2	4	3	2	2	4	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:206224692G>A	uc001hds.2	+	1	410	c.252G>A	c.(250-252)GCG>GCA	p.A84A		NM_000707	NP_000698	P47901	V1BR_HUMAN	arginine vasopressin receptor 1B	84	Helical; Name=2; (Potential).				activation of phospholipase C activity|elevation of cytosolic calcium ion concentration	endosome|integral to plasma membrane	protein kinase C binding|vasopressin receptor activity			ovary(2)|large_intestine(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.0312)		Desmopressin(DB00035)|Terlipressin(DB02638)|Vasopressin(DB00067)	TGGCCGTGGCGCTCTTCCAGG	0.662													17	65					0	0	1	0	0		A	206224692	A	A	206224692	2	1	211	1	0	0	0	0	0	0	0	1	1233	1074	38	1		1	AVPR1B	1	206224692	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	196	206224692	43025929	149	102028											
RASSF5	83593	broad.mit.edu	37	chr1	206757885	206757885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cttctacctgcccctagatgCcatcaagcagctgcacatca	10	9	6	16	0	3	1	2	0	1	1	3	1	3	1	4	0	6	3	4	0	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:206757885C>T	uc001hed.2	+	4	914	c.857C>T	c.(856-858)GCC>GTC	p.A286V	RASSF5_uc001hec.1_Missense_Mutation_p.A286V|RASSF5_uc001hee.2_Missense_Mutation_p.A286V|RASSF5_uc001hef.2_Missense_Mutation_p.A133V|RASSF5_uc001heg.1_Missense_Mutation_p.A59V	NM_182663	NP_872604	Q8WWW0	RASF5_HUMAN	Ras association (RalGDS/AF-6) domain family 5	286	Ras-associating.				apoptosis|intracellular signal transduction	cytoplasm|microtubule	metal ion binding|protein binding			ovary(1)	1	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			CCCCTAGATGCCATCAAGCAG	0.572													63	99					0	0	1	0	0		T	206757885	T	T	206757885	3	4	211	1	0	0	0	0	1	0	0	0	13114	739	26	2	995	2	RASSF5	1	206757885	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	533193	206757885	42492736	150	102029											
PLXNA2	5362	broad.mit.edu	37	chr1	208225682	208225682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttatctcacccgtagaactCgcaggtctggttgcccaggt	7	12	10	12	2	2	1	1	0	2	1	4	1	2	1	2	3	2	3	2	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:208225682C>T	uc001hgz.2	-	15	3741	c.2983G>A	c.(2983-2985)GAG>AAG	p.E995K		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	995	Extracellular (Potential).|IPT/TIG 2.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		CCGTAGAACTCGCAGGTCTGG	0.547													11	108					0	0	1	0	0		T	208225682	T	T	208225682	3	4	211	1	0	0	0	0	1	0	0	0	12139	893	31	1	2773	1	PLXNA2	1	208225682	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1467797	208225682	41024939	151	102030											
LAMB3	3914	broad.mit.edu	37	chr1	209806438	209806438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaattttttgactttgagttGctggaatcccagacactaaa	12	14	8	7	0	0	3	0	2	0	1	1	5	1	4	1	1	1	2	1	1	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:209806438G>A	uc001hhg.2	-	6	995	c.605C>T	c.(604-606)GCA>GTA	p.A202V	LAMB3_uc009xco.2_Missense_Mutation_p.A202V|LAMB3_uc001hhh.2_Missense_Mutation_p.A202V|LAMB3_uc010psl.1_RNA|LAMB3_uc009xcp.1_Missense_Mutation_p.A138V	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	202	Laminin N-terminal.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		ACTTTGAGTTGCTGGAATCCC	0.453													41	33					0	0	1	0	0		A	209806438	A	A	209806438	3	1	211	1	0	0	0	0	1	0	0	0	8628	1319	46	2	2981	2	LAMB3	1	209806438	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1580756	209806438	39444183	152	102031											
G0S2	50486	broad.mit.edu	37	chr1	209849053	209849053	+	Frame_Shift_Del	DEL	C	-	-																															gaaacggtccaggagctgatCcccctggccaaggagatgat																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:209849053delC	uc001hhi.3	+	2	281	c.24delC	c.(22-24)ATCfs	p.I8fs		NM_015714	NP_056529	P27469	G0S2_HUMAN	G0/G1switch 2	8					cell cycle						0				OV - Ovarian serous cystadenocarcinoma(81;0.041)		AGGAGCTGATCCCCCTGGCCA	0.642													12	17	---	---	---	---						.	-	209849053	-	-	209849053	7	5	211	1	0	1	0	1	0	0	0	0	6153	845	30	0	26	0	G0S2	1	209849053	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	42615	209849053	39401568	153	102032											
C1orf107	27042	broad.mit.edu	37	chr1	210012437	210012437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcctgaggattatgaagccGtatttgtgggcaatattgat	10	13	13	5	1	0	3	0	3	0	0	0	4	0	4	2	3	1	2	2	3	5	5	rs41275346	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:210012437G>A	uc001hhr.1	+	7	1322	c.1246G>A	c.(1246-1248)GTA>ATA	p.V416I	C1orf107_uc009xcu.1_Missense_Mutation_p.V131I	NM_014388	NP_055203	Q68CQ4	DIEXF_HUMAN	digestive-organ expansion factor homolog	416					multicellular organismal development	nucleus					0				OV - Ovarian serous cystadenocarcinoma(81;0.0367)		TTATGAAGCCGTATTTGTGGG	0.433													38	48					0	0	1	0	0		A	210012437	A	A	210012437	3	1	211	1	0	0	0	0	1	0	0	0	1984	1145	40	1	1272	1	C1orf107	1	210012437	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	163384	210012437	39238184	154	102033											
SERTAD4	56256	broad.mit.edu	37	chr1	210415016	210415016	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctgtccttataaacaatttGatgaaaaggatccatggaga	15	12	8	6	0	1	3	0	2	1	1	3	5	3	4	2	2	1	0	2	2	6	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:210415016G>A	uc001hhy.2	+	4	584	c.405G>A	c.(403-405)TTG>TTA	p.L135L	SERTAD4_uc009xcw.2_Silent_p.L135L	NM_019605	NP_062551	Q9NUC0	SRTD4_HUMAN	SERTA domain containing 4	135	SERTA.						protein binding			ovary(1)|pancreas(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0237)|all cancers(67;0.127)		TAAACAATTTGATGAAAAGGA	0.423													9	135					0	0	1	0	0		A	210415016	A	A	210415016	2	1	211	1	0	0	0	0	0	0	0	1	14148	1281	45	4		4	SERTAD4	1	210415016	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	402579	210415016	38835605	155	102034											
KCNH1	3756	broad.mit.edu	37	chr1	210857061	210857061	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagtcctcactcttcccGcaagcatctttgaagcgggc	7	11	8	15	2	3	1	1	1	2	0	6	1	6	1	3	1	2	2	3	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:210857061G>A	uc001hib.2	-	11	2702	c.2532C>T	c.(2530-2532)TGC>TGT	p.C844C	KCNH1_uc001hic.2_Silent_p.C817C	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	844	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		CACTCTTCCCGCAAGCATCTT	0.612													27	102					0	0	1	0	0		A	210857061	A	A	210857061	2	1	211	1	0	0	0	0	0	0	0	1	8047	1079	38	1		1	KCNH1	1	210857061	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	442045	210857061	38393560	156	102035											
RCOR3	55758	broad.mit.edu	37	chr1	211451507	211451507	+	Frame_Shift_Del	DEL	A	-	-																															taaaatattactattcttggAaaaaaactcgctctaggaca																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:211451507delA	uc001hig.2	+	5	560	c.391delA	c.(391-393)AAAfs	p.K131fs	RCOR3_uc010psv.1_RNA|RCOR3_uc001hie.2_Frame_Shift_Del_p.K189fs|RCOR3_uc010psw.1_Frame_Shift_Del_p.K189fs|RCOR3_uc001hif.2_Frame_Shift_Del_p.K189fs	NM_018254	NP_060724	Q9P2K3	RCOR3_HUMAN	REST corepressor 3 isoform d	131	SANT 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.00961)|all cancers(67;0.0999)|Epithelial(68;0.171)		CTATTCTTGGAAAAAAACTCG	0.338													53	97	---	---	---	---						.	-	211451507	-	-	211451507	7	5	211	1	0	1	0	1	0	0	0	0	13209	247	9	0	587	0	RCOR3	1	211451507	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	594446	211451507	37799114	157	102036											
SMYD2	56950	broad.mit.edu	37	chr1	214488155	214488156	+	Frame_Shift_Ins	INS	-	G	G																															gttctcccatggttgtttttINSggggaaaactggaatccctc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:214488155_214488156insG	uc010ptx.1	+	3	321_322	c.288_289insG	c.(286-291)TTTGGGfs	p.F96fs	SMYD2_uc009xdj.2_Frame_Shift_Ins_p.F4fs|SMYD2_uc010ptw.1_RNA|SMYD2_uc009xdl.1_RNA	NM_020197	NP_064582	Q9NRG4	SMYD2_HUMAN	SET and MYND domain containing 2	96_97					negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	cytosol|nucleus	histone methyltransferase activity (H3-K36 specific)|p53 binding|RNA polymerase II core binding|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0122)|all cancers(67;0.0209)|GBM - Glioblastoma multiforme(131;0.106)|Epithelial(68;0.144)		TGGTTGTTTTTGGGGAAAACTG	0.396													48	73	---	---	---	---						.	G	214488156	G	G	214488155	7	5	211	1	0	1	1	0	0	0	0	0	14847	1809	63	0	298	0	SMYD2	1	214488155	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	3036648	214488155	34762466	158	102037											
RAB3GAP2	25782	broad.mit.edu	37	chr1	220338127	220338127	+	Frame_Shift_Del	DEL	A	-	-																															aagtgttctattgacctaacAaaaaaacgtgcttccttaca																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:220338127delA	uc010puk.1	-	27	3266	c.3102delT	c.(3100-3102)TTTfs	p.F1034fs	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_Frame_Shift_Del_p.F614fs|RAB3GAP2_uc001hmh.2_5'UTR	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1034					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TTGACCTAACAAAAAAACGTG	0.313													10	21	---	---	---	---						.	-	220338127	-	-	220338127	7	5	211	1	0	1	0	1	0	0	0	0	12961	127	5	0	1115	0	RAB3GAP2	1	220338127	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	5849972	220338127	28912494	159	102038											
HHIPL2	79802	broad.mit.edu	37	chr1	222713622	222713622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtccgaggggactcggtaccGcttgccatgtgagcctgccc	5	8	14	14	3	0	1	0	1	0	0	2	3	1	2	5	3	4	2	5	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:222713622G>A	uc001hnh.1	-	4	1238	c.1180C>T	c.(1180-1182)CGG>TGG	p.R394W		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	394					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		ACTCGGTACCGCTTGCCATGT	0.527													24	111					0	0	1	0	0		A	222713622	A	A	222713622	3	1	211	1	0	0	0	0	1	0	0	0	7110	1086	38	1	1018	1	HHIPL2	1	222713622	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2375495	222713622	26536999	160	102039											
DISP1	84976	broad.mit.edu	37	chr1	223175814	223175814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacactgggaaactacatcGccattctgaacaatagatcg	14	8	9	10	2	1	2	0	1	1	1	3	4	1	4	1	2	3	0	1	2	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:223175814G>A	uc001hnu.1	+	8	1222	c.1075G>A	c.(1075-1077)GCC>ACC	p.A359T		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	359					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		AAACTACATCGCCATTCTGAA	0.498											OREG0014268|OREG0026708	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	81					0	0	1	0	0		A	223175814	A	A	223175814	3	1	211	1	0	0	0	0	1	0	0	0	4545	1087	38	1	1101	1	DISP1	1	223175814	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	462192	223175814	26074807	161	102040											
DISP1	84976	broad.mit.edu	37	chr1	223177193	223177193	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttagatagcagttttaacatCgccagcccagcttcccaggc	10	10	8	13	1	0	1	0	0	0	1	2	1	1	1	3	1	4	3	3	1	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:223177193C>T	uc001hnu.1	+	8	2601	c.2454C>T	c.(2452-2454)ATC>ATT	p.I818I		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	818					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		GTTTTAACATCGCCAGCCCAG	0.468													21	41					0	0	1	0	0		T	223177193	T	T	223177193	2	4	211	1	0	0	0	0	0	0	0	1	4545	874	31	1		1	DISP1	1	223177193	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1379	223177193	26073428	162	102041											
DISP1	84976	broad.mit.edu	37	chr1	223178573	223178573	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agctgcccagatgcctacaaAcacttgaactatggcccaca	13	7	7	14	0	0	2	0	1	0	1	0	2	0	2	3	1	6	1	3	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:223178573A>G	uc001hnu.1	+	8	3981	c.3834A>G	c.(3832-3834)AAA>AAG	p.K1278K		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1278					diaphragm development|protein homotrimerization|regulation of protein secretion|smoothened signaling pathway	basolateral plasma membrane|integral to membrane	hedgehog receptor activity|peptide transporter activity				0				GBM - Glioblastoma multiforme(131;0.102)		ATGCCTACAAACACTTGAACT	0.537													29	177					0	0	1	0	0		G	223178573	G	G	223178573	2	3	211	1	0	0	0	0	0	0	0	1	4545	40	2	3		3	DISP1	1	223178573	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1380	223178573	26072048	163	102042											
TMEM63A	9725	broad.mit.edu	37	chr1	226034752	226034752	+	Frame_Shift_Del	DEL	G	-	-																															cacccagcctcaggcctcctGgggggcagcagccacactgc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:226034752delG	uc001hpm.1	-	24	2663	c.2413delC	c.(2413-2415)CAGfs	p.Q805fs		NM_014698	NP_055513	O94886	TM63A_HUMAN	transmembrane protein 63A	805						integral to membrane|lysosomal membrane	nucleotide binding			ovary(1)|breast(1)	2	Breast(184;0.197)					CAGGCCTCCTGGGGGGCAGCA	0.647													33	47	---	---	---	---						.	-	226034752	-	-	226034752	7	5	211	1	0	1	0	1	0	0	0	0	16215	1357	47	0	14	0	TMEM63A	1	226034752	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2856179	226034752	23215869	164	102043											
PARP1	142	broad.mit.edu	37	chr1	226566913	226566913	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctttaacgatgtccaccaGgccaagggtggcactgaaga	11	8	11	11	1	0	2	0	1	0	1	2	3	2	2	4	3	1	1	4	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:226566913G>T	uc001hqd.3	-	12	1846	c.1675C>A	c.(1675-1677)CTG>ATG	p.L559M		NM_001618	NP_001609	P09874	PARP1_HUMAN	poly (ADP-ribose) polymerase family, member 1	559					cellular response to insulin stimulus|protein ADP-ribosylation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nuclear envelope|nucleolus|transcription factor complex	DNA binding|identical protein binding|NAD+ ADP-ribosyltransferase activity|protein N-terminus binding|transcription factor binding|zinc ion binding			lung(3)|ovary(2)|breast(2)|skin(2)|upper_aerodigestive_tract(1)	10	Breast(184;0.133)			GBM - Glioblastoma multiforme(131;0.0531)		ATGTCCACCAGGCCAAGGGTG	0.537								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					40	151					1.15183e-24	1.26861e-24	1	1	0		T	226566913	T	T	226566913	3	4	211	1	0	0	0	0	1	0	0	0	11473	991	35	5	1417	5	PARP1	1	226566913	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	532161	226566913	22683708	165	102044											
GJC2	57165	broad.mit.edu	37	chr1	228346347	228346347	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcttgggcagcgcgcaggaCgcggtgcgcggccgccgcgg	3	3	21	14	9	0	0	0	0	0	0	0	1	0	1	2	6	2	3	2	6	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228346347C>T	uc001hsk.2	+	2	1063	c.888C>T	c.(886-888)GAC>GAT	p.D296D		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	296	Cytoplasmic (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				GCGCGCAGGACGCGGTGCGCG	0.552													23	25					0	0	1	0	0		T	228346347	T	T	228346347	2	4	211	1	0	0	0	0	0	0	0	1	6430	535	19	1		1	GJC2	1	228346347	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1779434	228346347	20904274	166	102045											
OBSCN	84033	broad.mit.edu	37	chr1	228402651	228402651	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aagcttggcacctacacctgGatcaggtgccacgaggctga	10	7	12	12	1	1	1	1	1	0	0	1	3	1	2	3	4	3	3	3	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228402651G>A	uc009xez.1	+	5	1724	c.1680G>A	c.(1678-1680)TGG>TGA	p.W560*	OBSCN_uc001hsn.2_Nonsense_Mutation_p.W560*|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	560	Fibronectin type-III 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCTACACCTGGATCAGGTGCC	0.592													3	31					0	0	1	0	0		A	228402651	A	A	228402651	4	1	211	1	0	0	0	0	0	1	0	0	10831	1183	41	4	1694	4	OBSCN	1	228402651	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	56304	228402651	20847970	167	102046											
OBSCN	84033	broad.mit.edu	37	chr1	228403459	228403459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccatccgggaggtgcccgCcagcctgcacggggcgcagc	6	3	15	17	4	0	0	0	0	0	0	1	1	1	1	5	4	4	2	5	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228403459C>T	uc009xez.1	+	6	2068	c.2024C>T	c.(2023-2025)GCC>GTC	p.A675V	OBSCN_uc001hsn.2_Missense_Mutation_p.A675V|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	675	Ig-like 6.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GAGGTGCCCGCCAGCCTGCAC	0.657													8	5					0	0	1	0	0		T	228403459	T	T	228403459	3	4	211	1	0	0	0	0	1	0	0	0	10831	739	26	2	2042	2	OBSCN	1	228403459	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	808	228403459	20847162	168	102047											
OBSCN	84033	broad.mit.edu	37	chr1	228481310	228481310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacctcagccatgctcacCgtcaggggtaaaggccacat	11	6	11	13	1	3	0	3	0	0	0	3	1	3	1	4	4	2	2	4	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228481310C>T	uc009xez.1	+	41	11168	c.11124C>T	c.(11122-11124)ACC>ACT	p.T3708T	OBSCN_uc001hsn.2_Silent_p.T3708T|OBSCN_uc001hsq.1_Silent_p.T964T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3708	Ig-like 37.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCATGCTCACCGTCAGGGGTA	0.622													17	63					0	0	1	0	0		T	228481310	T	T	228481310	2	4	211	1	0	0	0	0	0	0	0	1	10831	639	23	1		1	OBSCN	1	228481310	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	77851	228481310	20769311	169	102048											
OBSCN	84033	broad.mit.edu	37	chr1	228494787	228494787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctgcagagctgctggtaCgcggagtggagcaggaggat	9	6	18	8	2	0	1	0	0	0	1	0	5	0	5	0	5	6	6	0	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228494787C>T	uc009xez.1	+	45	12156	c.12112C>T	c.(12112-12114)CGC>TGC	p.R4038C	OBSCN_uc001hsn.2_Missense_Mutation_p.R4038C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4038	Ig-like 41.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCTGCTGGTACGCGGAGTGGA	0.647													10	60					0	0	1	0	0		T	228494787	T	T	228494787	3	4	211	1	0	0	0	0	1	0	0	0	10831	536	19	1	12286	1	OBSCN	1	228494787	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	13477	228494787	20755834	170	102049											
OBSCN	84033	broad.mit.edu	37	chr1	228509323	228509323	+	Silent	SNP	G	A	A	0	0	1	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	gtggccagcaaggcagatgtGcgagcccgctggctgaagga	9	5	17	10	2	0	2	0	1	0	1	0	4	0	3	2	4	3	4	2	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228509323G>A	uc009xez.1	+	55	14825	c.14781G>A	c.(14779-14781)GTG>GTA	p.V4927V	OBSCN_uc001hsn.2_Silent_p.V4927V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	4927	Ig-like 48.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGGCAGATGTGCGAGCCCGCT	0.637													6	36					0	0	1	0	0		A	228509323	A	A	228509323	2	1	211	1	0	0	0	0	0	0	0	1	10831	1306	46	2		2	OBSCN	1	228509323	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	14536	228509323	20741298	171	102050											
OBSCN	84033	broad.mit.edu	37	chr1	228527676	228527676	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttgcagcagtgcgacacGgacgacgacgtggccatgtg	9	6	16	10	5	0	0	0	0	0	0	0	5	0	1	1	2	3	3	1	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228527676G>A	uc009xez.1	+	70	17333	c.17289G>A	c.(17287-17289)ACG>ACA	p.T5763T	OBSCN_uc001hsn.2_Silent_p.T5763T|OBSCN_uc001hsr.1_Silent_p.T392T	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5763	DH.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGTGCGACACGGACGACGACG	0.627													57	85					0	0	1	0	0		A	228527676	A	A	228527676	2	1	211	1	0	0	0	0	0	0	0	1	10831	1103	39	1		1	OBSCN	1	228527676	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	18353	228527676	20722945	172	102051											
OBSCN	84033	broad.mit.edu	37	chr1	228558393	228558393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcccagaaatccatgcctgCggaggaggcccacttcatca	10	7	9	15	1	2	1	2	0	0	1	4	3	4	3	4	3	2	0	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228558393C>T	uc009xez.1	+	93	20224	c.20180C>T	c.(20179-20181)GCG>GTG	p.A6727V	OBSCN_uc001hsr.1_Missense_Mutation_p.A1356V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6727					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding	p.A7309V(1)		stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				TCCATGCCTGCGGAGGAGGCC	0.617													29	121					0	0	1	0	0		T	228558393	T	T	228558393	3	4	211	1	0	0	0	0	1	0	0	0	10831	768	27	1	21756	1	OBSCN	1	228558393	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	30717	228558393	20692228	173	102052											
OBSCN	84033	broad.mit.edu	37	chr1	228564758	228564758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtccccttgagcaggggccGcttcagcgtggtgcggcaat	5	9	15	12	3	1	1	1	1	0	0	2	1	2	1	3	4	3	3	3	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:228564758G>A	uc009xez.1	+	101	23089	c.23045G>A	c.(23044-23046)CGC>CAC	p.R7682H	OBSCN_uc001hsr.1_Missense_Mutation_p.R2311H	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7682	Protein kinase 2.|ATP (By similarity).				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGCAGGGGCCGCTTCAGCGTG	0.662													6	6					0	0	1	0	0		A	228564758	A	A	228564758	3	1	211	1	0	0	0	0	1	0	0	0	10831	1087	38	1	24653	1	OBSCN	1	228564758	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6365	228564758	20685863	174	102053											
EXOC8	149371	broad.mit.edu	37	chr1	231471747	231471747	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttacccagggcttctggcGtcatcaagttcatcctcctc	6	12	8	15	1	4	0	3	0	1	0	7	0	6	0	3	2	1	3	3	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:231471747G>A	uc001huq.2	-	1	1832	c.1745C>T	c.(1744-1746)ACG>ATG	p.T582M		NM_175876	NP_787072	Q8IYI6	EXOC8_HUMAN	exocyst complex 84-kDa subunit	582					exocytosis|protein transport	growth cone|nucleus	protein binding			skin(1)	1	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				GGCTTCTGGCGTCATCAAGTT	0.458													20	67					0	0	1	0	0		A	231471747	A	A	231471747	3	1	211	1	0	0	0	0	1	0	0	0	5319	1145	40	1	436	1	EXOC8	1	231471747	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2906989	231471747	17778874	175	102054											
SIPA1L2	57568	broad.mit.edu	37	chr1	232577521	232577521	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agttccttattacccgggtgCctgcttgcttccatggtgtc	4	15	10	12	1	0	0	0	0	0	0	3	0	2	0	4	2	4	3	4	2	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:232577521C>A	uc001hvg.2	-	11	3689	c.3531G>T	c.(3529-3531)AGG>AGT	p.R1177S	SIPA1L2_uc001hvf.2_Missense_Mutation_p.R251S	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1177					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TACCCGGGTGCCTGCTTGCTT	0.552													20	23					3.62473e-10	3.84079e-10	1	1	0		A	232577521	A	A	232577521	3	1	211	1	0	0	0	0	1	0	0	0	14355	738	26	5	1681	5	SIPA1L2	1	232577521	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1105774	232577521	16673100	176	102055											
PCNXL2	80003	broad.mit.edu	37	chr1	233397867	233397867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggaggcgtggagaggtttCgactggcctcttcctttttg	4	13	16	8	2	1	1	0	0	1	1	3	4	2	2	2	6	0	1	2	6	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:233397867C>T	uc001hvl.2	-	3	639	c.404G>A	c.(403-405)CGA>CAA	p.R135Q	PCNXL2_uc009xfu.2_5'Flank|PCNXL2_uc009xfv.1_5'Flank	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	135						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GGAGAGGTTTCGACTGGCCTC	0.483													64	106					0	0	1	0	0		T	233397867	T	T	233397867	3	4	211	1	0	0	0	0	1	0	0	0	11611	884	31	1	6137	1	PCNXL2	1	233397867	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	820346	233397867	15852754	177	102056											
NID1	4811	broad.mit.edu	37	chr1	236180456	236180456	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagaacttacccacacacGttccctcatctgaaaactgg	12	9	7	13	1	2	2	1	1	1	1	3	3	3	2	2	2	3	1	2	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:236180456G>A	uc001hxo.2	-	10	2348	c.2246C>T	c.(2245-2247)ACG>ATG	p.T749M	NID1_uc009xgd.2_Intron	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	749	EGF-like 3; calcium-binding (Potential).				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	ACCCACACACGTTCCCTCATC	0.483													33	153					0	0	1	0	0		A	236180456	A	A	236180456	3	1	211	1	0	0	0	0	1	0	0	0	10433	1145	40	1	1541	1	NID1	1	236180456	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2782589	236180456	13070165	178	102057											
NID1	4811	broad.mit.edu	37	chr1	236192939	236192939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgcggccctccagctccGtgtcgatggtcaggtgccca	5	7	13	16	4	1	0	1	0	0	0	4	1	3	0	4	3	2	2	4	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:236192939G>A	uc001hxo.2	-	7	1751	c.1649C>T	c.(1648-1650)ACG>ATG	p.T550M	NID1_uc009xgd.2_Missense_Mutation_p.T550M	NM_002508	NP_002499	P14543	NID1_HUMAN	nidogen 1 precursor	550	Nidogen G2 beta-barrel.				cell-matrix adhesion	basement membrane	calcium ion binding			large_intestine(1)|pancreas(1)	2	Ovarian(103;0.0544)|Breast(184;0.23)	all_cancers(173;0.00491)|Prostate(94;0.184)|Acute lymphoblastic leukemia(190;0.229)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)		Becaplermin(DB00102)|Urokinase(DB00013)	CTCCAGCTCCGTGTCGATGGT	0.632													3	22					0	0	1	0	0		A	236192939	A	A	236192939	3	1	211	1	0	0	0	0	1	0	0	0	10433	1145	40	1	2150	1	NID1	1	236192939	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	12483	236192939	13057682	179	102058											
HEATR1	55127	broad.mit.edu	37	chr1	236749163	236749163	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ctcctaaatttatattatcaGccaacaactcaatcatcttc	14	14	1	12	0	4	0	3	0	1	0	6	0	5	0	2	0	3	0	2	0	8	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:236749163G>C	uc001hyd.1	-	16	2131	c.2006C>G	c.(2005-2007)GCT>GGT	p.A669G	HEATR1_uc009xgh.1_5'Flank	NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	669					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TATATTATCAGCCAACAACTC	0.333													9	49					0	0	1	0	0		C	236749163	C	C	236749163	3	2	211	1	0	0	0	0	1	0	0	0	7043	971	34	5	4548	5	HEATR1	1	236749163	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	556224	236749163	12501458	180	102059											
HEATR1	55127	broad.mit.edu	37	chr1	236761267	236761267	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caaagttcctttagctaacgGcactccagattgctgttatt	10	14	7	10	1	0	1	0	0	0	1	2	1	2	1	2	1	3	5	2	1	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:236761267G>A	uc001hyd.1	-	5	639	c.514C>T	c.(514-516)CCG>TCG	p.P172S		NM_018072	NP_060542	Q9H583	HEAT1_HUMAN	protein BAP28	172					rRNA processing	nucleolus|ribonucleoprotein complex	protein binding			ovary(2)|skin(1)	3	Ovarian(103;0.0634)|Breast(184;0.133)	all_cancers(173;0.0255)|Prostate(94;0.175)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			TTAGCTAACGGCACTCCAGAT	0.373													21	75					0	0	1	0	0		A	236761267	A	A	236761267	3	1	211	1	0	0	0	0	1	0	0	0	7043	1203	42	2	6084	2	HEATR1	1	236761267	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	12104	236761267	12489354	181	102060											
RYR2	6262	broad.mit.edu	37	chr1	237580390	237580390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctgtgtctgttcatgcacGttccctttggagactagaga	7	13	11	10	2	2	2	1	0	1	2	3	4	3	2	1	1	1	4	1	1	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:237580390G>A	uc001hyl.1	+	11	935	c.815G>A	c.(814-816)CGT>CAT	p.R272H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	272	Cytoplasmic (By similarity).|MIR 3.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GTTCATGCACGTTCCCTTTGG	0.423													13	31					0	0	1	0	0		A	237580390	A	A	237580390	3	1	211	1	0	0	0	0	1	0	0	0	13794	1145	40	1	857	1	RYR2	1	237580390	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	819123	237580390	11670231	182	102061											
CHRM3	1131	broad.mit.edu	37	chr1	240071340	240071340	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctggcttgggtcatctccTttgtcctttgggctcctgcc	1	16	11	13	0	3	0	1	0	2	0	6	0	5	0	4	3	1	2	4	3	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:240071340T>C	uc001hyp.2	+	5	1368	c.589T>C	c.(589-591)TTT>CTT	p.F197L		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	197	Helical; Name=4; (By similarity).				cell proliferation|energy reserve metabolic process|nervous system development|protein modification process|regulation of insulin secretion	basolateral plasma membrane|cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(1)	5	Ovarian(103;0.127)	all_cancers(173;0.00567)|all_neural(198;0.203)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)		Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Cevimeline(DB00185)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Darifenacin(DB00496)|Diphemanil Methylsulfate(DB00729)|Diphenidol(DB01231)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Solifenacin(DB01591)|Thiethylperazine(DB00372)|Tiotropium(DB01409)|Tolterodine(DB01036)|Tridihexethyl(DB00505)	GGTCATCTCCTTTGTCCTTTG	0.517													51	196					0	0	1	0	0		C	240071340	C	C	240071340	3	2	211	1	0	0	0	0	1	0	0	0	3381	1609	56	3	591	3	CHRM3	1	240071340	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2490950	240071340	9179281	183	102062											
FMN2	56776	broad.mit.edu	37	chr1	240370881	240370881	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcgggcatacctcctccGccgcctctacccggagcagg	6	5	13	17	4	1	0	0	0	1	0	3	2	3	2	6	4	4	2	6	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:240370881G>T	uc010pyd.1	+	5	2994	c.2769G>T	c.(2767-2769)CCG>CCT	p.P923P	FMN2_uc010pye.1_Silent_p.P927P	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	923	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TACCTCCTCCGCCGCCTCTAC	0.672													26	95					3.21399e-22	3.5308e-22	1	1	0		T	240370881	T	T	240370881	2	4	211	1	0	0	0	0	0	0	0	1	5964	1074	38	5		5	FMN2	1	240370881	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	299541	240370881	8879740	184	102063											
FMN2	56776	broad.mit.edu	37	chr1	240371493	240371493	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctccccctctacccggagcGggcataccccctcctccccc	4	6	6	25	2	1	0	0	0	1	0	4	1	4	1	9	2	3	1	9	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:240371493G>A	uc010pyd.1	+	5	3606	c.3381G>A	c.(3379-3381)GCG>GCA	p.A1127A	FMN2_uc010pye.1_Silent_p.A1131A	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1127	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			TACCCGGAGCGGGCATACCCC	0.721													9	15					0	0	1	0	0		A	240371493	A	A	240371493	2	1	211	1	0	0	0	0	0	0	0	1	5964	1103	39	1		1	FMN2	1	240371493	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	612	240371493	8879128	185	102064											
EFCAB2	84288	broad.mit.edu	37	chr1	245245466	245245466	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatactactagaaagaaagTaagtaagtaaatgcaattgt	21	10	7	3	0	0	2	0	0	0	2	0	2	0	2	0	0	3	4	0	0	11	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:245245466T>A	uc001ibd.2	+	5	812	c.671_splice	c.e5+2	p.K224_splice	EFCAB2_uc001ibc.2_Splice_Site_p.K88_splice|EFCAB2_uc010pyo.1_Splice_Site_p.K98_splice|EFCAB2_uc010pyp.1_Splice_Site_p.K88_splice|EFCAB2_uc001ibe.2_Splice_Site	NR_026586		Q5VUJ9	EFCB2_HUMAN	RecName: Full=EF-hand calcium-binding domain-containing protein 2;								calcium ion binding				0	all_cancers(71;2.93e-06)|all_epithelial(71;2.13e-05)|all_lung(81;0.0337)|Lung NSC(105;0.0472)|Ovarian(71;0.0584)|Breast(184;0.0716)|all_neural(11;0.0982)		OV - Ovarian serous cystadenocarcinoma(106;0.015)			AGAAAGAAAGTAAGTAAGTAA	0.343													14	68					0	0	1	0	0		A	245245466	A	A	245245466	5	1	211	1	0	0	0	0	0	0	1	0	4940	1652	57	5	279	5	EFCAB2	1	245245466	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	4873973	245245466	4005155	186	102065											
KIF26B	55083	broad.mit.edu	37	chr1	245849907	245849908	+	Frame_Shift_Ins	INS	-	C	C																															cctggacagcggccgccccaINSccagcatcatcagcttcaac																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:245849907_245849908insC	uc001ibf.1	+	12	4062_4063	c.3622_3623insC	c.(3622-3624)ACCfs	p.T1208fs	KIF26B_uc001ibg.1_Frame_Shift_Ins_p.T826fs|KIF26B_uc001ibh.1_Frame_Shift_Ins_p.T450fs	NM_018012	NP_060482	Q2KJY2	KI26B_HUMAN	kinesin family member 26B	1208					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(3)	3	all_cancers(71;3.86e-05)|all_epithelial(71;0.000121)|Ovarian(71;0.0412)|all_lung(81;0.0498)|Lung NSC(105;0.0708)|Breast(184;0.127)		OV - Ovarian serous cystadenocarcinoma(106;0.022)			CGGCCGCCCCACCAGCATCATC	0.663													9	17	---	---	---	---						.	C	245849908	C	C	245849907	7	5	211	1	0	1	1	0	0	0	0	0	8311	159	6	0	3668	0	KIF26B	1	245849907	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	604441	245849907	3400714	187	102066											
TFB2M	64216	broad.mit.edu	37	chr1	246707850	246707850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtctattacagtggcgctgCgcctcccaaaacagtgcttt	8	11	10	12	2	1	0	0	0	1	0	2	0	2	0	2	2	4	2	2	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:246707850C>T	uc001ibn.2	-	7	1117	c.992G>A	c.(991-993)CGC>CAC	p.R331H		NM_022366	NP_071761	Q9H5Q4	TFB2M_HUMAN	transcription factor B2, mitochondrial	331					positive regulation of transcription, DNA-dependent|transcription initiation from mitochondrial promoter	mitochondrial nucleoid	protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity|transcription cofactor activity			ovary(1)	1	all_cancers(71;4.25e-05)|all_epithelial(71;4.92e-06)|Ovarian(71;0.0254)|all_lung(81;0.0272)|Breast(184;0.0318)|Lung NSC(105;0.0376)		OV - Ovarian serous cystadenocarcinoma(106;0.00358)			AGTGGCGCTGCGCCTCCCAAA	0.333													19	57					0	0	1	0	0		T	246707850	T	T	246707850	3	4	211	1	0	0	0	0	1	0	0	0	15819	768	27	1	206	1	TFB2M	1	246707850	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	857943	246707850	2542771	188	102067											
NLRP3	114548	broad.mit.edu	37	chr1	247607387	247607387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caacactctcggagacaaggGgatcaaactactctgtgagg	13	7	11	10	1	3	2	1	1	2	1	4	4	3	3	0	4	3	0	0	4	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:247607387G>A	uc001icr.2	+	9	2921	c.2783G>A	c.(2782-2784)GGG>GAG	p.G928E	NLRP3_uc001ics.2_Missense_Mutation_p.G871E|NLRP3_uc001icu.2_Missense_Mutation_p.G928E|NLRP3_uc001icw.2_Missense_Mutation_p.G871E|NLRP3_uc001icv.2_Missense_Mutation_p.G814E|NLRP3_uc010pyw.1_Missense_Mutation_p.G906E	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	928	LRR 7.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			GGAGACAAGGGGATCAAACTA	0.502													39	68					0	0	1	0	0		A	247607387	A	A	247607387	3	1	211	1	0	0	0	0	1	0	0	0	10497	1232	43	4	2809	4	NLRP3	1	247607387	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	899537	247607387	1643234	189	102068											
OR2T8	343172	broad.mit.edu	37	chr1	248084484	248084484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggaccaccggctccacacGcccatgtacttcctcctgag	7	8	9	17	2	0	1	0	1	0	0	3	2	3	2	6	2	1	2	6	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:248084484G>A	uc010pzc.1	+	1	165	c.165G>A	c.(163-165)ACG>ACA	p.T55T		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	55	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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)			GGCTCCACACGCCCATGTACT	0.522													15	101					0	0	1	0	0		A	248084484	A	A	248084484	2	1	211	1	0	0	0	0	0	0	0	1	11049	1074	38	1		1	OR2T8	1	248084484	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	477097	248084484	1166137	190	102069											
OR2AK2	391191	broad.mit.edu	37	chr1	248129580	248129580	+	Missense_Mutation	SNP	T	C	C	0	1	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	taaggaagtgacgggggcagTgaggagactgttgggatatt	11	9	18	3	1	0	3	0	2	0	1	0	6	0	5	0	5	0	2	0	5	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:248129580T>C	uc010pzd.1	+	1	947	c.947T>C	c.(946-948)GTG>GCG	p.V316A	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	316	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			ACGGGGGCAGTGAGGAGACTG	0.418													17	80					0	0	1	0	0		C	248129580	C	C	248129580	3	2	211	1	0	0	0	0	1	0	0	0	11005	1696	59	3	949	3	OR2AK2	1	248129580	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	45096	248129580	1121041	191	102070											
OR2M3	127062	broad.mit.edu	37	chr1	248366979	248366979	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattcttttcatctgctgtAtagtaatgattgttttccct	8	20	6	7	0	3	2	1	1	2	1	4	2	4	2	1	0	1	4	1	0	3	9			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:248366979A>G	uc010pzg.1	+	1	610	c.610A>G	c.(610-612)ATA>GTA	p.I204V		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CATCTGCTGTATAGTAATGAT	0.443													120	193					0	0	1	0	0		G	248366979	G	G	248366979	3	3	211	1	0	0	0	0	1	0	0	0	11030	449	16	3	612	3	OR2M3	1	248366979	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	237399	248366979	883642	192	102071											
OR2T33	391195	broad.mit.edu	37	chr1	248437015	248437015	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaattgccaaacagggaggtCaaaacgatactcagaaccat	17	6	9	9	1	2	1	2	0	0	1	2	4	2	2	2	2	5	0	2	2	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:248437015C>G	uc010pzi.1	-	1	102	c.102G>C	c.(100-102)TTG>TTC	p.L34F		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	34	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ACAGGGAGGTCAAAACGATAC	0.493													39	51					0	0	1	0	0		G	248437015	G	G	248437015	3	3	211	1	0	0	0	0	1	0	0	0	11043	825	29	5	863	5	OR2T33	1	248437015	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	70036	248437015	813606	193	102072											
ZNF692	55657	broad.mit.edu	37	chr1	249144569	249144569	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctgggtgacttttgctaCggtgggctgcaacactgtct	5	12	15	9	1	1	1	0	1	1	0	1	1	1	1	0	4	4	4	0	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr1:249144569C>T	uc001ifc.1	-	12	1567	c.1400G>A	c.(1399-1401)CGT>CAT	p.R467H	ZNF692_uc001iez.1_Missense_Mutation_p.R189H|ZNF692_uc001ifa.1_Missense_Mutation_p.R189H|ZNF692_uc001ifb.1_Missense_Mutation_p.R263H|ZNF692_uc001ifd.1_Missense_Mutation_p.R466H|ZNF692_uc001ife.1_RNA|ZNF692_uc001iff.1_Missense_Mutation_p.R422H|ZNF692_uc010pzr.1_Missense_Mutation_p.R472H	NM_017865	NP_060335	Q9BU19	ZN692_HUMAN	zinc finger protein 692 isoform 2	467	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;3.33e-06)|all_epithelial(71;2.41e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.0458)|Lung NSC(105;0.0494)|Melanoma(84;0.199)	all_cancers(173;0.19)	OV - Ovarian serous cystadenocarcinoma(106;0.00805)			ACTTTTGCTACGGTGGGCTGC	0.617													34	115					0	0	1	0	0		T	249144569	T	T	249144569	3	4	211	1	0	0	0	0	1	0	0	0	18122	536	19	1	163	1	ZNF692	1	249144569	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	707554	249144569	106052	194	102073											
TMEM18	129787	broad.mit.edu	37	chr2	677290	677290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacgcgggccgcgagttaccGtgagcacggctgggatgctg	6	7	17	11	6	0	1	0	1	0	0	0	3	0	2	2	3	4	4	2	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:677290G>A	uc002qwl.2	-	1	150	c.56C>T	c.(55-57)ACG>ATG	p.T19M	TMEM18_uc002qwk.2_5'Flank|uc002qwm.1_RNA	NM_152834	NP_690047	Q96B42	TMM18_HUMAN	transmembrane protein 18	19					cell migration	integral to membrane|nuclear membrane				ovary(1)	1	all_hematologic(175;0.0429)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;5.27e-05)|all_epithelial(98;2.11e-06)|Ovarian(717;0.0253)		all cancers(51;1.95e-21)|Epithelial(75;9.47e-21)|OV - Ovarian serous cystadenocarcinoma(76;8.15e-18)|GBM - Glioblastoma multiforme(21;0.0285)		GCGAGTTACCGTGAGCACGGC	0.682													7	18					0	0	1	0	0		A	677290	A	A	677290	3	1	211	1	0	0	0	0	1	0	0	0	16123	1159	40	1	386	1	TMEM18	2	677290	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08		677290	242522083	195	102074											
TPO	7173	broad.mit.edu	37	chr2	1491596	1491596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcatggtattttccaggtgGtttggacccactaatacgag	9	13	11	8	1	0	0	0	0	0	0	1	2	1	1	2	4	2	3	2	4	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:1491596G>A	uc002qww.2	+	10	1692	c.1601G>A	c.(1600-1602)GGT>GAT	p.G534D	TPO_uc010ewj.2_Intron|TPO_uc002qwu.2_Intron|TPO_uc002qwr.2_Missense_Mutation_p.G534D|TPO_uc002qwx.2_Intron|TPO_uc010yio.1_Missense_Mutation_p.G361D|TPO_uc010yip.1_Missense_Mutation_p.G534D|TPO_uc002qwy.1_Intron|TPO_uc002qwz.2_Intron	NM_000547	NP_000538	P07202	PERT_HUMAN	thyroid peroxidase isoform a	534	Extracellular (Potential).				cellular nitrogen compound metabolic process|hormone biosynthetic process|hydrogen peroxide catabolic process	cell surface|cytoplasm|integral to plasma membrane	calcium ion binding|heme binding|iodide peroxidase activity			ovary(7)|pancreas(6)|skin(5)|lung(1)|kidney(1)	20	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.0627)	all_cancers(51;0.0338)		all cancers(51;0.0356)|OV - Ovarian serous cystadenocarcinoma(76;0.0748)|Epithelial(75;0.12)	Carbimazole(DB00389)|Methimazole(DB00763)|Propylthiouracil(DB00550)	TTTCCAGGTGGTTTGGACCCA	0.423													16	37					0	0	1	0	0		A	1491596	A	A	1491596	3	1	211	1	0	0	0	0	1	0	0	0	16436	1261	44	4	1635	4	TPO	2	1491596	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	814306	1491596	241707777	196	102075											
PXDN	7837	broad.mit.edu	37	chr2	1670073	1670073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccgctgtccccctgtacgaCgttctgtatgtaaagcccgc	6	11	9	15	4	1	0	0	0	1	0	3	1	3	0	4	0	2	5	4	0	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:1670073C>T	uc002qxa.2	-	10	1268	c.1204G>A	c.(1204-1206)GTC>ATC	p.V402I	PXDN_uc002qxb.1_Missense_Mutation_p.V402I|PXDN_uc002qxc.1_Missense_Mutation_p.V219I	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	402	Ig-like C2-type 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CCCTGTACGACGTTCTGTATG	0.607													11	33					0	0	1	0	0		T	1670073	T	T	1670073	3	4	211	1	0	0	0	0	1	0	0	0	12872	536	19	1	3291	1	PXDN	2	1670073	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	178477	1670073	241529300	197	102076											
ROCK2	9475	broad.mit.edu	37	chr2	11351916	11351916	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcttgttctaggctctgCtgtataacttttagttggta	6	20	8	7	0	4	0	0	0	4	0	4	0	4	0	0	2	2	6	0	2	5	10			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:11351916C>T	uc002rbd.1	-	18	2543	c.2094G>A	c.(2092-2094)CAG>CAA	p.Q698Q		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	698	Potential.|Interaction with PPP1R12A.				axon guidance|cytokinesis|intracellular signal transduction	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			stomach(2)|skin(2)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)		CTAGGCTCTGCTGTATAACTT	0.353													19	41					0	0	1	0	0		T	11351916	T	T	11351916	2	4	211	1	0	0	0	0	0	0	0	1	13543	796	28	2		2	ROCK2	2	11351916	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9681843	11351916	231847457	198	102077											
MYCN	4613	broad.mit.edu	37	chr2	16082453	16082453	+	Silent	SNP	C	A	A	0	0	0	1	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	cttgagaacgagctgtggggCagcccggccgaggaggacgc	8	4	18	11	4	0	1	0	1	0	1	0	6	0	3	2	5	3	2	2	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:16082453C>A	uc002rci.2	+	2	567	c.267C>A	c.(265-267)GGC>GGA	p.G89G	MYCNOS_uc002rch.1_5'Flank|MYCN_uc010yjr.1_Silent_p.G81G	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	89					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			AGCTGTGGGGCAGCCCGGCCG	0.716			A		neuroblastoma								3	12					1	1	1	1	0		A	16082453	A	A	16082453	2	1	211	1	0	0	0	0	0	0	0	1	10039	697	25	5		5	MYCN	2	16082453	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4730537	16082453	227116920	199	102078											
HS1BP3	64342	broad.mit.edu	37	chr2	20823667	20823667	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggtacctgaacagttcCttggaggcgtccctgtggct	6	11	14	10	1	0	1	0	1	0	0	2	2	2	2	3	5	2	3	3	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:20823667C>A	uc002rdw.1	-	6	950	c.909G>T	c.(907-909)AAG>AAT	p.K303N		NM_022460	NP_071905	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	303					cell communication		phosphatidylinositol binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGAACAGTTCCTTGGAGGCGT	0.672													9	17					0.0809354	0.0812375	1	1	0		A	20823667	A	A	20823667	3	1	211	1	0	0	0	0	1	0	0	0	7377	680	24	5	277	5	HS1BP3	2	20823667	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4741214	20823667	222375706	200	102079											
MFSD2B	388931	broad.mit.edu	37	chr2	24244545	24244545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactgcattgcggctgccGtggttgtagtgacttacccc	5	13	11	12	2	1	1	0	1	1	0	1	1	1	1	3	2	5	4	3	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:24244545G>A	uc002reo.1	+	7	723	c.709G>A	c.(709-711)GTG>ATG	p.V237M		NM_001080473	NP_001073942	A6NFX1	MFS2B_HUMAN	major facilitator superfamily domain containing	237	Helical; (Potential).				transport	integral to membrane				ovary(2)	2						TGCGGCTGCCGTGGTTGTAGT	0.607													9	14					0	0	1	0	0		A	24244545	A	A	24244545	3	1	211	1	0	0	0	0	1	0	0	0	9549	1145	40	1	735	1	MFSD2B	2	24244545	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3420878	24244545	218954828	201	102080											
NCOA1	8648	broad.mit.edu	37	chr2	24881612	24881612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacataagaggaaaggatcGccatgtgacacactggcatc	14	7	10	10	1	1	2	1	1	0	1	3	4	1	4	1	3	0	1	1	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:24881612G>A	uc002rfk.2	+	3	324	c.66G>A	c.(64-66)TCG>TCA	p.S22S	NCOA1_uc010eye.2_Silent_p.S22S|NCOA1_uc002rfi.2_5'UTR|NCOA1_uc002rfj.2_Silent_p.S22S|NCOA1_uc002rfl.2_Silent_p.S22S	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	22	Helix-loop-helix motif.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAAAGGATCGCCATGTGACA	0.408			T	PAX3	alveolar rhadomyosarcoma								17	29					0	0	1	0	0		A	24881612	A	A	24881612	2	1	211	1	0	0	0	0	0	0	0	1	10247	1074	38	1		1	NCOA1	2	24881612	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	637067	24881612	218317761	202	102081											
KCNK3	3777	broad.mit.edu	37	chr2	26950641	26950641	+	Silent	SNP	G	A	A	0	0	1	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	atgttccagagcctgggcgaGcgcatcaacaccttggtgag	9	8	13	11	2	1	2	1	1	0	1	2	3	2	2	3	2	3	2	3	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:26950641G>A	uc002rhn.2	+	2	553	c.390G>A	c.(388-390)GAG>GAA	p.E130E		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	130	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCTGGGCGAGCGCATCAACA	0.657													33	83					0	0	1	0	0		A	26950641	A	A	26950641	2	1	211	1	0	0	0	0	0	0	0	1	8083	962	34	2		2	KCNK3	2	26950641	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2069029	26950641	216248732	203	102082											
SLC5A6	8884	broad.mit.edu	37	chr2	27430161	27430161	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatgcaggcggtagaaaaCggggatgaagatgtgtgcag	13	6	18	4	2	0	4	0	1	0	3	0	6	0	5	0	4	3	3	0	4	4	1	rs150524685	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:27430161C>T	uc002rjd.2	-	3	749	c.358G>A	c.(358-360)GTT>ATT	p.V120I	SLC5A6_uc010eyv.1_Missense_Mutation_p.V120I|SLC5A6_uc002rje.1_Missense_Mutation_p.V120I	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	120	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	CGGTAGAAAACGGGGATGAAG	0.577													7	30					0	0	1	0	0		T	27430161	T	T	27430161	3	4	211	1	0	0	0	0	1	0	0	0	14694	536	19	1	1609	1	SLC5A6	2	27430161	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	479520	27430161	215769212	204	102083											
C2orf28	51374	broad.mit.edu	37	chr2	27439715	27439715	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggtctgttgttcacagggcTcgttctcactgcttatgttc	4	17	10	10	1	3	0	2	0	2	0	6	0	3	0	0	2	1	6	0	2	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:27439715T>C	uc002rjf.2	+	7	927	c.754T>C	c.(754-756)TCG>CCG	p.S252P	C2orf28_uc002rjg.2_Missense_Mutation_p.S139P|C2orf28_uc002rjh.2_RNA|CAD_uc002rji.2_5'Flank|CAD_uc010eyw.2_5'Flank	NM_080592	NP_542159	Q6UW56	APR3_HUMAN	apoptosis related protein 3 isoform b	197	Extracellular (Potential).					integral to membrane|plasma membrane				skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCACAGGGCTCGTTCTCACT	0.493													18	51					0	0	1	0	0		C	27439715	C	C	27439715	3	2	211	1	0	0	0	0	1	0	0	0	2163	1551	54	3	780	3	C2orf28	2	27439715	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	9554	27439715	215759658	205	102084											
CAD	790	broad.mit.edu	37	chr2	27447223	27447223	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcttccacagttagagagcgGctgactgagcgcctctgtcc	7	9	12	13	2	1	3	0	2	1	1	3	4	3	3	3	1	2	3	3	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:27447223G>A	uc002rji.2	+	9	1281	c.1119G>A	c.(1117-1119)CGG>CGA	p.R373R	CAD_uc010eyw.2_Silent_p.R373R	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	373	Linker.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	TTAGAGAGCGGCTGACTGAGC	0.408													11	73					0	0	1	0	0		A	27447223	A	A	27447223	2	1	211	1	0	0	0	0	0	0	0	1	2568	1190	42	2		2	CAD	2	27447223	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7508	27447223	215752150	206	102085											
ZNF513	130557	broad.mit.edu	37	chr2	27600873	27600873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataaggacagcgggcgcagcGgaagggcttctcaccactgt	10	6	14	11	3	1	0	1	0	1	0	2	2	1	2	1	4	2	2	1	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:27600873G>A	uc002rkk.2	-	4	1365	c.1165C>T	c.(1165-1167)CGC>TGC	p.R389C	ZNF513_uc002rkj.2_Missense_Mutation_p.R327C	NM_144631	NP_653232	Q8N8E2	ZN513_HUMAN	zinc finger protein 513	389	C2H2-type 5.				regulation of transcription, DNA-dependent|response to stimulus|retina development in camera-type eye|transcription, DNA-dependent|visual perception	nucleus	transcription regulatory region DNA binding|zinc ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CGGGCGCAGCGGAAGGGCTTC	0.592													62	180					0	0	1	0	0		A	27600873	A	A	27600873	3	1	211	1	0	0	0	0	1	0	0	0	17983	1116	39	1	464	1	ZNF513	2	27600873	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	153650	27600873	215598500	207	102086											
SPDYA	245711	broad.mit.edu	37	chr2	29041919	29041919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatcttttgttgtagatgacGatttaattcaagatttcttg	10	20	7	4	1	3	3	1	1	2	2	3	4	3	3	0	0	0	2	0	0	4	10			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:29041919G>A	uc002rmj.2	+	4	447	c.241G>A	c.(241-243)GAT>AAT	p.D81N	SPDYA_uc002rmi.2_Missense_Mutation_p.D81N|SPDYA_uc002rmk.2_Missense_Mutation_p.D81N|SPDYA_uc002rml.2_Missense_Mutation_p.D81N	NM_182756	NP_877433	Q5MJ70	SPDYA_HUMAN	speedy homolog A isoform 1	81	Speedy/Ringo box; Required for CDK- binding (By similarity).				G1/S transition of mitotic cell cycle|multicellular organismal development|positive regulation of cell proliferation|response to DNA damage stimulus	nucleus	protein kinase binding			upper_aerodigestive_tract(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					TGTAGATGACGATTTAATTCA	0.299													25	88					0	0	1	0	0		A	29041919	A	A	29041919	3	1	211	1	0	0	0	0	1	0	0	0	15052	1058	37	1	247	1	SPDYA	2	29041919	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1441046	29041919	214157454	208	102087											
CLIP4	79745	broad.mit.edu	37	chr2	29404681	29404681	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tatttcacctgtaagccgaaCcatggagtcttagttcgacc	10	12	8	11	2	2	0	1	0	1	0	3	3	2	1	4	1	2	2	4	1	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:29404681C>T	uc002rmv.2	+	16	2279	c.2040C>T	c.(2038-2040)AAC>AAT	p.N680N	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	680	CAP-Gly 3.									ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GTAAGCCGAACCATGGAGTCT	0.448													27	106					0	0	1	0	0		T	29404681	T	T	29404681	2	4	211	1	0	0	0	0	0	0	0	1	3538	506	18	4		4	CLIP4	2	29404681	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	362762	29404681	213794692	209	102088											
LCLAT1	253558	broad.mit.edu	37	chr2	30863019	30863019	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtccatgatatcactgtggCgtatcctcacaacattcctc	9	13	6	13	1	2	1	2	1	0	0	6	1	5	1	3	1	1	1	3	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:30863019C>T	uc002rnj.2	+	7	988	c.779C>T	c.(778-780)GCG>GTG	p.A260V	LCLAT1_uc010ymp.1_Missense_Mutation_p.A98V|LCLAT1_uc002rnl.2_Missense_Mutation_p.A222V|LCLAT1_uc010ymq.1_Missense_Mutation_p.A222V	NM_182551	NP_872357	Q6UWP7	LCLT1_HUMAN	lysocardiolipin acyltransferase 1 isoform 1	260					multicellular organismal development|phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			ovary(2)	2						ATCACTGTGGCGTATCCTCAC	0.453													66	154					0	0	1	0	0		T	30863019	T	T	30863019	3	4	211	1	0	0	0	0	1	0	0	0	8693	768	27	1	801	1	LCLAT1	2	30863019	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1458338	30863019	212336354	210	102089											
QPCT	25797	broad.mit.edu	37	chr2	37599550	37599550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatcactctttggaggggcGgtatttccagaattacagtt	9	13	12	7	1	2	1	1	0	1	1	3	3	3	3	1	5	1	2	1	5	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:37599550G>A	uc002rqg.2	+	6	997	c.875G>A	c.(874-876)CGG>CAG	p.R292Q	QPCT_uc002rqh.2_Missense_Mutation_p.R243Q	NM_012413	NP_036545	Q16769	QPCT_HUMAN	glutaminyl-peptide cyclotransferase precursor	292					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	extracellular region	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|zinc ion binding			central_nervous_system(1)	1		Ovarian(717;0.051)|all_hematologic(82;0.21)				TTGGAGGGGCGGTATTTCCAG	0.299													46	130					0	0	1	0	0		A	37599550	A	A	37599550	3	1	211	1	0	0	0	0	1	0	0	0	12899	1116	39	1	897	1	QPCT	2	37599550	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6736531	37599550	205599823	211	102090											
SOS1	6654	broad.mit.edu	37	chr2	39249715	39249715	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgcataattcttacctgcGtacatatggtacgtaagcct	11	13	7	10	2	1	0	0	0	1	0	1	0	1	0	2	1	6	4	2	1	6	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:39249715G>A	uc002rrk.3	-	10	1895	c.1854C>T	c.(1852-1854)TAC>TAT	p.Y618Y	SOS1_uc010ynr.1_RNA|SOS1_uc002rrj.3_Silent_p.Y232Y|SOS1_uc002rrl.2_Silent_p.Y350Y	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	618	N-terminal Ras-GEF.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				TCTTACCTGCGTACATATGGT	0.363									Noonan_syndrome				9	41					0	0	1	0	0		A	39249715	A	A	39249715	2	1	211	1	0	0	0	0	0	0	0	1	14961	1140	40	1		1	SOS1	2	39249715	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1650165	39249715	203949658	212	102091											
ABCG8	64241	broad.mit.edu	37	chr2	44078854	44078854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaagtgtgtggcccacgtgCgccagcacaaccagctgctc	8	6	13	14	2	0	0	0	0	0	0	1	1	0	1	3	2	5	3	3	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:44078854C>T	uc002rtq.2	+	4	544	c.454C>T	c.(454-456)CGC>TGC	p.R152C	ABCG8_uc010yoa.1_Missense_Mutation_p.R152C	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	152	ABC transporter.|Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GGCCCACGTGCGCCAGCACAA	0.627													30	70					0	0	1	0	0		T	44078854	T	T	44078854	3	4	211	1	0	0	0	0	1	0	0	0	72	768	27	1	468	1	ABCG8	2	44078854	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4829139	44078854	199120519	213	102092											
KLRAQ1	129285	broad.mit.edu	37	chr2	48687004	48687004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggttgacggtctcaccCggaagtacatggaaaccatt	10	10	11	10	2	1	1	1	1	1	0	2	3	1	3	2	4	2	2	2	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:48687004C>T	uc002rwm.2	+	5	672	c.487C>T	c.(487-489)CGG>TGG	p.R163W	KLRAQ1_uc002rwi.1_Missense_Mutation_p.R163W|KLRAQ1_uc002rwj.2_Missense_Mutation_p.R163W|KLRAQ1_uc002rwl.2_Missense_Mutation_p.R117W|KLRAQ1_uc002rwk.2_Missense_Mutation_p.R163W|KLRAQ1_uc010yok.1_Missense_Mutation_p.R163W	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	163	Potential.									ovary(1)	1						CGGTCTCACCCGGAAGTACAT	0.498													8	31					0	0	1	0	0		T	48687004	T	T	48687004	3	4	211	1	0	0	0	0	1	0	0	0	8429	643	23	1	505	1	KLRAQ1	2	48687004	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4608150	48687004	194512369	214	102093											
SPTBN1	6711	broad.mit.edu	37	chr2	54855380	54855380	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcccagaagttcgcaacagaCggggaaggtaaggatggccc	12	4	15	10	2	0	2	0	0	0	2	1	4	0	4	2	5	1	3	2	5	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:54855380C>T	uc002rxu.2	+	13	2040	c.1791C>T	c.(1789-1791)GAC>GAT	p.D597D	SPTBN1_uc002rxv.1_Silent_p.D597D|SPTBN1_uc002rxx.2_Silent_p.D584D	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	597	Spectrin 3.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			TCGCAACAGACGGGGAAGGTA	0.512													6	30					0	0	1	0	0		T	54855380	T	T	54855380	2	4	211	1	0	0	0	0	0	0	0	1	15144	535	19	1		1	SPTBN1	2	54855380	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6168376	54855380	188343993	215	102094											
SPTBN1	6711	broad.mit.edu	37	chr2	54895523	54895523	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggatccaggctatctcttcCgccatctcctctgataaaca	9	12	6	14	1	3	1	0	1	3	0	7	2	5	2	4	2	1	1	4	2	3	3	rs147084588		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:54895523C>T	uc002rxu.2	+	36	7161	c.6912C>T	c.(6910-6912)TCC>TCT	p.S2304S	SPTBN1_uc010you.1_Silent_p.S294S	NM_003128	NP_003119	Q01082	SPTB2_HUMAN	spectrin, beta, non-erythrocytic 1 isoform 1	2304	PH.				actin filament capping|axon guidance	cytosol|nucleolus|plasma membrane|sarcomere|spectrin	actin binding|calmodulin binding|protein binding|structural constituent of cytoskeleton			ovary(3)|breast(2)|central_nervous_system(2)|skin(1)	8			Lung(47;0.24)			CTATCTCTTCCGCCATCTCCT	0.577													14	50					0	0	1	0	0		T	54895523	T	T	54895523	2	4	211	1	0	0	0	0	0	0	0	1	15144	639	23	1		1	SPTBN1	2	54895523	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	40143	54895523	188303850	216	102095											
CCDC88A	55704	broad.mit.edu	37	chr2	55562112	55562112	+	Frame_Shift_Del	DEL	T	-	-																															tctttataatgttccaattcTtttttaatttgtcttttttc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:55562112delT	uc002ryv.2	-	15	2687	c.1845delA	c.(1843-1845)AAAfs	p.K615fs	CCDC88A_uc010yoz.1_Frame_Shift_Del_p.K615fs|CCDC88A_uc010ypa.1_Frame_Shift_Del_p.K615fs|CCDC88A_uc010ypb.1_Frame_Shift_Del_p.K517fs|CCDC88A_uc002ryu.2_5'UTR|CCDC88A_uc002ryw.2_5'UTR	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	615	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GTTCCAATTCTTTTTTAATTT	0.254													5	6	---	---	---	---						.	-	55562112	-	-	55562112	7	5	211	1	0	1	0	1	0	0	0	0	2866	1606	56	0	3842	0	CCDC88A	2	55562112	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	666589	55562112	187637261	217	102096											
BCL11A	53335	broad.mit.edu	37	chr2	60773219	60773219	+	Missense_Mutation	SNP	T	C	C	0	1	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	gattggatgcttttttcatcTcgattggtgaaggggaaggt	8	15	14	4	1	2	1	1	1	1	0	3	5	2	3	0	5	1	1	0	5	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:60773219T>C	uc002sae.1	-	2	500	c.272A>G	c.(271-273)GAG>GGG	p.E91G	BCL11A_uc002sab.2_Missense_Mutation_p.E91G|BCL11A_uc002sac.2_Missense_Mutation_p.E91G|BCL11A_uc010ypi.1_5'UTR|BCL11A_uc010ypj.1_Missense_Mutation_p.E91G|BCL11A_uc002saf.1_Missense_Mutation_p.E91G|BCL11A_uc010fcg.2_Missense_Mutation_p.E91G	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	91	Required for nuclear body formation and for SUMO1 recruitment (By similarity).				negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TTTTTTCATCTCGATTGGTGA	0.468			T	IGH@	B-CLL								25	66					0	0	1	0	0		C	60773219	C	C	60773219	3	2	211	1	0	0	0	0	1	0	0	0	1364	1551	54	3	2353	3	BCL11A	2	60773219	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	5211107	60773219	182426154	218	102097											
PROKR1	10887	broad.mit.edu	37	chr2	68873256	68873256	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacctcaccaacctgctcatCgccaacctggccatctctga	10	8	5	18	1	3	1	2	1	1	0	5	1	3	1	6	1	4	1	6	1	3	0	rs144978946		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:68873256C>T	uc010yqj.1	+	1	303	c.303C>T	c.(301-303)ATC>ATT	p.I101I	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	101	Helical; Name=2; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						ACCTGCTCATCGCCAACCTGG	0.582													49	123					0	0	1	0	0		T	68873256	T	T	68873256	2	4	211	1	0	0	0	0	0	0	0	1	12574	874	31	1		1	PROKR1	2	68873256	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8100037	68873256	174326117	219	102098											
TIA1	7072	broad.mit.edu	37	chr2	70441502	70441502	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	taaatccttgctggttccatGcctggccatacattccatat	9	14	6	12	0	0	0	0	0	0	0	3	0	3	0	5	2	3	2	5	2	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:70441502G>A	uc002sgj.3	-	12	1230	c.1013C>T	c.(1012-1014)GCA>GTA	p.A338V	TIA1_uc002sgk.3_Missense_Mutation_p.A327V|TIA1_uc002sgl.3_RNA	NM_022173	NP_071505	P31483	TIA1_HUMAN	TIA1 cytotoxic granule-associated RNA binding	338					apoptosis|induction of apoptosis|regulation of nuclear mRNA splicing, via spliceosome	nucleus	nucleotide binding|poly(A) RNA binding|protein binding				0						CTGGTTCCATGCCTGGCCATA	0.388													27	57					0	0	1	0	0		A	70441502	A	A	70441502	3	1	211	1	0	0	0	0	1	0	0	0	15912	1319	46	2	155	2	TIA1	2	70441502	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1568246	70441502	172757871	220	102099											
ANKRD53	79998	broad.mit.edu	37	chr2	71209747	71209747	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaaaaaggacaagaaggacTttgcccgtgagatgacgaaa	17	5	13	6	2	0	3	0	2	0	2	0	8	0	6	1	3	1	0	1	3	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:71209747T>G	uc002shl.3	+	5	1024	c.823T>G	c.(823-825)TTT>GTT	p.F275V	ANKRD53_uc002shk.3_Missense_Mutation_p.F275V|ANKRD53_uc002shm.3_Missense_Mutation_p.F186V	NM_001115116	NP_001108588	Q8N9V6	ANR53_HUMAN	ankyrin repeat domain 53 isoform a	275											0						CAAGAAGGACTTTGCCCGTGA	0.537													25	66					0	0	1	0	0		G	71209747	G	G	71209747	3	3	211	1	0	0	0	0	1	0	0	0	679	1609	56	5	841	5	ANKRD53	2	71209747	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	768245	71209747	171989626	221	102100											
DYSF	8291	broad.mit.edu	37	chr2	71839776	71839776	+	Silent	SNP	G	A	A	0	0	1	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	tcctcctccacccagatgctGcccagggaggagctctactg	7	8	10	16	0	1	1	0	0	1	1	4	3	4	3	5	2	4	2	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:71839776G>A	uc002sie.2	+	39	4549	c.4173G>A	c.(4171-4173)CTG>CTA	p.L1391L	DYSF_uc010feg.2_Silent_p.L1422L|DYSF_uc010feh.2_Silent_p.L1377L|DYSF_uc002sig.3_Silent_p.L1377L|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.L1391L|DYSF_uc010fef.2_Silent_p.L1408L|DYSF_uc010fei.2_Silent_p.L1408L|DYSF_uc010fek.2_Silent_p.L1409L|DYSF_uc010fej.2_Silent_p.L1378L|DYSF_uc010fel.2_Silent_p.L1378L|DYSF_uc010feo.2_Silent_p.L1423L|DYSF_uc010fem.2_Silent_p.L1392L|DYSF_uc010fen.2_Silent_p.L1409L|DYSF_uc002sif.2_Silent_p.L1392L|DYSF_uc010yqy.1_Silent_p.L272L|DYSF_uc010yqz.1_Silent_p.L131L	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1391	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						CCCAGATGCTGCCCAGGGAGG	0.597													26	58					0	0	1	0	0		A	71839776	A	A	71839776	2	1	211	1	0	0	0	0	0	0	0	1	4865	1306	46	2		2	DYSF	2	71839776	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	630029	71839776	171359597	222	102101											
EMX1	2016	broad.mit.edu	37	chr2	73145444	73145444	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcggcgcccagcaccgggacCctctccatttctacccctgg	5	8	9	19	3	2	0	0	0	2	0	4	1	2	1	6	3	2	1	6	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:73145444C>A	uc002sin.1	+	1	841	c.463C>A	c.(463-465)CCT>ACT	p.P155T	EMX1_uc002sim.1_Intron	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	122						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCACCGGGACCCTCTCCATTT	0.607													8	7					0.0477658	0.0480113	1	1	0		A	73145444	A	A	73145444	3	1	211	1	0	0	0	0	1	0	0	0	5115	623	22	5	465	5	EMX1	2	73145444	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1305668	73145444	170053929	223	102102											
EMX1	2016	broad.mit.edu	37	chr2	73151504	73151504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgcaagcccaagcggatccGcacggccttctcgccctcgc	7	5	10	19	6	1	0	0	0	1	0	4	1	2	1	4	2	2	2	4	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:73151504G>A	uc002sin.1	+	2	965	c.587G>A	c.(586-588)CGC>CAC	p.R196H	EMX1_uc002sim.1_Silent_p.P148P	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	163	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AAGCGGATCCGCACGGCCTTC	0.721													6	10					0	0	1	0	0		A	73151504	A	A	73151504	3	1	211	1	0	0	0	0	1	0	0	0	5115	1087	38	1	593	1	EMX1	2	73151504	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6060	73151504	170047869	224	102103											
ALMS1	7840	broad.mit.edu	37	chr2	73761965	73761965	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttaggccagcctttattaTtgccatataagccttctggt	8	15	7	11	0	1	0	0	0	1	0	1	0	1	0	5	2	3	0	5	2	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:73761965T>A	uc002sje.1	+	14	9910	c.9799T>A	c.(9799-9801)TTG>ATG	p.L3267M	ALMS1_uc002sjf.1_Missense_Mutation_p.L3223M|ALMS1_uc002sjg.2_Missense_Mutation_p.L2653M|ALMS1_uc002sjh.1_Missense_Mutation_p.L2653M|ALMS1_uc010fev.1_Missense_Mutation_p.L82M	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3265					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						GCCTTTATTATTGCCATATAA	0.284													31	61					0	0	1	0	0		A	73761965	A	A	73761965	3	1	211	1	0	0	0	0	1	0	0	0	535	1490	52	5	9839	5	ALMS1	2	73761965	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	610461	73761965	169437408	225	102104											
TPRKB	51002	broad.mit.edu	37	chr2	73957865	73957865	+	Splice_Site	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttcaaagcctctgaaatcTaagagaaaaaaaatgaaaaa	22	9	5	5	0	3	3	1	2	2	1	3	4	3	3	1	0	1	0	1	0	9	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:73957865T>A	uc002sjn.2	-	4	376	c.265_splice	c.e4-1	p.I89_splice	TPRKB_uc002sjm.2_Splice_Site_p.I128_splice|TPRKB_uc002sjl.2_Splice_Site_p.I56_splice|TPRKB_uc002sjo.2_Splice_Site_p.I89_splice|TPRKB_uc010yrm.1_Intron	NM_016058	NP_057142	Q9Y3C4	TPRKB_HUMAN	TP53RK binding protein						protein catabolic process	cytosol|nucleus	protein kinase binding			ovary(1)|skin(1)	2						CTCTGAAATCTAAGAGAAAAA	0.318													11	25					0	0	1	0	0		A	73957865	A	A	73957865	5	1	211	1	0	0	0	0	0	0	1	0	16446	1536	53	5	272	5	TPRKB	2	73957865	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	195900	73957865	169241508	226	102105											
STAMBP	10617	broad.mit.edu	37	chr2	74058054	74058054	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctcccagctgggtagtgCggtagaggtgaatgaagaca	10	9	14	8	1	1	4	0	2	1	2	3	4	2	4	1	3	2	3	1	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:74058054C>T	uc002sjs.2	+	2	121	c.71C>T	c.(70-72)GCG>GTG	p.A24V	STAMBP_uc002sjt.2_Missense_Mutation_p.A24V|STAMBP_uc002sju.2_Missense_Mutation_p.A24V|STAMBP_uc002sjv.2_Missense_Mutation_p.A24V	NM_201647	NP_964010	O95630	STABP_HUMAN	STAM binding protein	24	Interaction with CHMP3.				JAK-STAT cascade|positive regulation of cell proliferation	early endosome|membrane|nucleus	metal ion binding|metallopeptidase activity|protein binding			ovary(1)|lung(1)|breast(1)|pancreas(1)	4						CTGGGTAGTGCGGTAGAGGTG	0.527													8	35					0	0	1	0	0		T	74058054	T	T	74058054	3	4	211	1	0	0	0	0	1	0	0	0	15275	768	27	1	73	1	STAMBP	2	74058054	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	100189	74058054	169141319	227	102106											
SLC4A5	57835	broad.mit.edu	37	chr2	74459682	74459682	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgggcgatggagatgacCgtggcagccacgtaccaggg	9	6	17	9	3	0	2	0	1	0	1	0	4	0	2	3	4	2	2	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:74459682C>A	uc002sko.1	-	19	2690	c.2688G>T	c.(2686-2688)ACG>ACT	p.T896T	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Silent_p.T896T|SLC4A5_uc010ffc.1_Silent_p.T896T|SLC4A5_uc002skp.1_Silent_p.T794T|SLC4A5_uc002sks.1_Intron	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	896	Cytoplasmic (Potential).			T -> M (in Ref. 6; AAL48291).		apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						TGGAGATGACCGTGGCAGCCA	0.612													5	76					0.184627	0.184971	1	1	0		A	74459682	A	A	74459682	2	1	211	1	0	0	0	0	0	0	0	1	14682	639	23	5		5	SLC4A5	2	74459682	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	401628	74459682	168739691	228	102107											
RETSAT	54884	broad.mit.edu	37	chr2	85578126	85578126	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatgctgccctcttccataCgcccaatgtaatggattcct	9	12	6	14	1	1	0	0	0	1	0	3	1	3	1	4	1	3	2	4	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:85578126C>T	uc002spd.2	-	3	565	c.374G>A	c.(373-375)CGT>CAT	p.R125H	RETSAT_uc010fge.2_RNA|RETSAT_uc010ysm.1_Missense_Mutation_p.R64H|RETSAT_uc010fgf.2_Intron	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	125					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)	CTCTTCCATACGCCCAATGTA	0.512													13	58					0	0	1	0	0		T	85578126	T	T	85578126	3	4	211	1	0	0	0	0	1	0	0	0	13263	536	19	1	1494	1	RETSAT	2	85578126	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	11118444	85578126	157621247	229	102108											
C2orf68	388969	broad.mit.edu	37	chr2	85836155	85836155	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatccagaggcgtgtgtgcCgacaccttctcactcacctt	7	10	10	14	2	2	1	2	0	1	1	4	3	3	2	4	2	1	0	4	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:85836155C>T	uc002sqc.2	-	4	486	c.414G>A	c.(412-414)TCG>TCA	p.S138S	USP39_uc002sqb.2_Intron	NM_001013649	NP_001013671	Q2NKX9	CB068_HUMAN	hypothetical protein LOC388969	138										central_nervous_system(1)	1						GCGTGTGTGCCGACACCTTCT	0.577													12	51					0	0	1	0	0		T	85836155	T	T	85836155	2	4	211	1	0	0	0	0	0	0	0	1	2190	639	23	1		1	C2orf68	2	85836155	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	258029	85836155	157363218	230	102109											
FAHD2A	51011	broad.mit.edu	37	chr2	96071494	96071494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctttgaccccacactccCgaagacgatgacgcagttcc	9	8	8	16	3	0	3	0	2	0	1	2	5	2	3	5	0	1	2	5	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:96071494C>T	uc002sur.2	+	2	367	c.188C>T	c.(187-189)CCG>CTG	p.P63L	FAHD2A_uc002sus.2_Missense_Mutation_p.P63L	NM_016044	NP_057128	Q96GK7	FAH2A_HUMAN	fumarylacetoacetate hydrolase domain containing	63							hydrolase activity|metal ion binding			ovary(1)	1						CCCACACTCCCGAAGACGATG	0.607													7	55					0	0	1	0	0		T	96071494	T	T	96071494	3	4	211	1	0	0	0	0	1	0	0	0	5384	652	23	1	190	1	FAHD2A	2	96071494	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	10235339	96071494	147127879	231	102110											
CNNM4	26504	broad.mit.edu	37	chr2	97462748	97462748	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acttgctgcattgtcccacaGggaagtcccacctggccatc	8	9	9	15	0	0	0	0	0	0	0	3	1	2	1	4	2	2	2	4	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:97462748G>T	uc002swx.2	+	2	1501	c.1403_splice	c.e2-1	p.G468_splice	CNNM4_uc010yuy.1_Splice_Site|hsa-mir-3127|MI0014144_5'Flank	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4						biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						TTGTCCCACAGGGAAGTCCCA	0.557													4	21					1.23904e-05	1.28318e-05	1	1	0		T	97462748	T	T	97462748	5	4	211	1	0	0	0	0	0	0	1	0	3618	1014	35	5	1408	5	CNNM4	2	97462748	Splice_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1391254	97462748	145736625	232	102111											
CNNM4	26504	broad.mit.edu	37	chr2	97462840	97462840	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcctggtcaccctggaggaCgtgatcgaggagatcatcaa	10	7	14	10	2	3	2	3	1	0	1	4	6	3	4	2	5	0	0	2	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:97462840C>T	uc002swx.2	+	2	1592	c.1494C>T	c.(1492-1494)GAC>GAT	p.D498D	CNNM4_uc010yuy.1_Translation_Start_Site|hsa-mir-3127|MI0014144_5'Flank	NM_020184	NP_064569	Q6P4Q7	CNNM4_HUMAN	cyclin M4	498	CBS 2.				biomineral tissue development|ion transport|response to stimulus|visual perception	integral to membrane|plasma membrane				breast(2)|ovary(1)	3						CCCTGGAGGACGTGATCGAGG	0.597													11	49					0	0	1	0	0		T	97462840	T	T	97462840	2	4	211	1	0	0	0	0	0	0	0	1	3618	535	19	1		1	CNNM4	2	97462840	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	92	97462840	145736533	233	102112											
FAHD2B	151313	broad.mit.edu	37	chr2	97751578	97751578	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacagtgaagccggccacGtgggccatggcatctgtggc	7	6	15	13	2	1	1	0	1	1	0	1	1	1	1	4	4	1	1	4	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:97751578G>A	uc002sxm.2	-	5	694	c.543C>T	c.(541-543)CAC>CAT	p.H181H		NM_199336	NP_955368	Q6P2I3	FAH2B_HUMAN	fumarylacetoacetate hydrolase domain containing	181							hydrolase activity|metal ion binding				0						AGCCGGCCACGTGGGCCATGG	0.562													17	68					0	0	1	0	0		A	97751578	A	A	97751578	2	1	211	1	0	0	0	0	0	0	0	1	5385	1136	40	1		1	FAHD2B	2	97751578	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	288738	97751578	145447795	234	102113											
EIF5B	9669	broad.mit.edu	37	chr2	99953983	99953983	+	Translation_Start_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtctgtgagagaccgaatAgaggggctggggccacgagc	9	5	19	8	2	1	3	0	1	1	2	1	6	1	3	2	5	1	1	2	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:99953983A>G	uc002tab.2	+	1	150	c.-34A>G	c.(-36--32)ATAGA>ATGGA		TXNDC9_uc010yvp.1_Intron|TXNDC9_uc002szz.2_5'Flank|TXNDC9_uc002taa.1_5'Flank	NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B						regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						GAGACCGAATAGAGGGGCTGG	0.607													8	17					0	0	1	0	0		G	99953983	G	G	99953983	1	3	211	1	0	0	0	0	0	0	0	0	5052	435	15	3		3	EIF5B	2	99953983	Translation_Start_Site	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2202405	99953983	143245390	235	102114											
NPAS2	4862	broad.mit.edu	37	chr2	101587503	101587503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagctggctctggaagacccGccatccgaggccctccactc	7	6	11	17	2	1	1	0	0	1	1	4	4	3	2	5	3	1	2	5	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:101587503G>A	uc002tap.1	+	12	1393	c.1107G>A	c.(1105-1107)CCG>CCA	p.P369P	NPAS2_uc010yvt.1_Silent_p.P434P	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2	369					central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						TGGAAGACCCGCCATCCGAGG	0.557													22	62					0	0	1	0	0		A	101587503	A	A	101587503	2	1	211	1	0	0	0	0	0	0	0	1	10582	1074	38	1		1	NPAS2	2	101587503	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1633520	101587503	141611870	236	102115											
MAP4K4	9448	broad.mit.edu	37	chr2	102486181	102486181	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atccagtgaggagtcggggaCgacggatgaggaggacgacg	11	4	19	7	5	0	2	0	2	0	0	2	9	1	7	1	6	0	0	1	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:102486181C>T	uc002tbg.2	+	20	2373	c.2318C>T	c.(2317-2319)ACG>ATG	p.T773M	MAP4K4_uc002tbc.2_Missense_Mutation_p.T854M|MAP4K4_uc002tbd.2_Missense_Mutation_p.T746M|MAP4K4_uc002tbe.2_Missense_Mutation_p.T692M|MAP4K4_uc002tbf.2_Missense_Mutation_p.T743M|MAP4K4_uc010yvy.1_Missense_Mutation_p.T769M|MAP4K4_uc002tbh.2_Missense_Mutation_p.T691M|MAP4K4_uc002tbi.2_Missense_Mutation_p.T576M|MAP4K4_uc010yvz.1_Missense_Mutation_p.T749M|MAP4K4_uc002tbk.2_Missense_Mutation_p.T228M|MAP4K4_uc002tbl.2_Translation_Start_Site	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	773					intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						GAGTCGGGGACGACGGATGAG	0.582													4	10					0	0	1	0	0		T	102486181	T	T	102486181	3	4	211	1	0	0	0	0	1	0	0	0	9280	536	19	1	2647	1	MAP4K4	2	102486181	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	898678	102486181	140713192	237	102116											
IL18R1	8809	broad.mit.edu	37	chr2	103013313	103013313	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaagccaggtagagacgaAccggaagtcttgcctgttct	10	9	12	10	2	3	1	1	0	2	1	3	4	3	2	3	2	3	2	3	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:103013313A>G	uc002tbw.3	+	11	1743	c.1593A>G	c.(1591-1593)GAA>GAG	p.E531E	IL18R1_uc010ywc.1_Silent_p.E530E|IL18R1_uc010ywd.1_Silent_p.E375E|IL18R1_uc010fiy.2_Silent_p.E531E	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor	531	Cytoplasmic (Potential).				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						GTAGAGACGAACCGGAAGTCT	0.423													14	32					0	0	1	0	0		G	103013313	G	G	103013313	2	3	211	1	0	0	0	0	0	0	0	1	7663	40	2	3		3	IL18R1	2	103013313	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	527132	103013313	140186060	238	102117											
SLC9A2	6549	broad.mit.edu	37	chr2	103274237	103274237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctttgagaacattggcacGattttctggtatgctgtggt	7	17	11	6	1	2	1	0	1	2	1	2	3	2	1	0	3	2	3	0	3	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:103274237G>A	uc002tca.2	+	2	646	c.504G>A	c.(502-504)ACG>ACA	p.T168T		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	168	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						ACATTGGCACGATTTTCTGGT	0.488													96	226					0	0	1	0	0		A	103274237	A	A	103274237	2	1	211	1	0	0	0	0	0	0	0	1	14737	1045	37	1		1	SLC9A2	2	103274237	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	260924	103274237	139925136	239	102118											
SLC9A2	6549	broad.mit.edu	37	chr2	103299895	103299895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgagtggaactgggccttcGtctgcttcaccctggccttc	5	11	11	14	2	2	0	1	0	1	0	4	2	2	1	3	3	2	1	3	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:103299895G>A	uc002tca.2	+	4	1322	c.1180G>A	c.(1180-1182)GTC>ATC	p.V394I		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	394	Helical; Name=K/M9; (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						CTGGGCCTTCGTCTGCTTCAC	0.507													15	47					0	0	1	0	0		A	103299895	A	A	103299895	3	1	211	1	0	0	0	0	1	0	0	0	14737	1145	40	1	1194	1	SLC9A2	2	103299895	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	25658	103299895	139899478	240	102119											
SLC9A2	6549	broad.mit.edu	37	chr2	103324830	103324830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctctctaaagaccagtctgGctcagagagggaagacagtt	12	9	11	9	0	4	3	1	0	3	3	5	5	4	4	1	2	0	2	1	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:103324830G>A	uc002tca.2	+	12	2463	c.2321G>A	c.(2320-2322)GGC>GAC	p.G774D		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	774	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						GACCAGTCTGGCTCAGAGAGG	0.597													39	89					0	0	1	0	0		A	103324830	A	A	103324830	3	1	211	1	0	0	0	0	1	0	0	0	14737	1203	42	2	2367	2	SLC9A2	2	103324830	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	24935	103324830	139874543	241	102120											
SEPT10	151011	broad.mit.edu	37	chr2	110323432	110323432	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccacaacagcaaacggcaacTgtccctgaaaaagaatatcg	17	5	7	12	2	0	2	0	1	0	1	2	2	1	2	2	1	4	2	2	1	7	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:110323432T>G	uc002tew.2	-	7	1146	c.767A>C	c.(766-768)CAG>CCG	p.Q256P	SEPT10_uc010ywu.1_Missense_Mutation_p.Q89P|SEPT10_uc002tex.2_Missense_Mutation_p.Q233P|SEPT10_uc002tey.2_Missense_Mutation_p.Q256P|SEPT10_uc010ywv.1_Missense_Mutation_p.Q122P|SEPT10_uc002tev.1_Missense_Mutation_p.Q63P|SEPT10_uc010fjo.2_RNA|SEPT10_uc002tez.1_Missense_Mutation_p.Q31P	NM_144710	NP_653311	Q9P0V9	SEP10_HUMAN	septin 10 isoform 1	256					cell cycle|cell division	septin complex	GTP binding				0						AAACGGCAACTGTCCCTGAAA	0.388													41	125					0	0	1	0	0		G	110323432	G	G	110323432	3	3	211	1	0	0	0	0	1	0	0	0	14085	1580	55	5	617	5	SEPT10	2	110323432	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	6998602	110323432	132875941	242	102121											
STEAP3	55240	broad.mit.edu	37	chr2	120003324	120003324	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggcagtgagctccccGgaggtcatctttgtggctgt	6	10	16	9	1	2	1	1	1	1	0	3	4	3	3	2	5	1	3	2	5	0	1	rs144377604	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:120003324G>A	uc002tlp.2	+	3	409	c.252G>A	c.(250-252)CCG>CCA	p.P84P	STEAP3_uc002tlq.2_Silent_p.P94P|STEAP3_uc002tlr.2_Silent_p.P84P|STEAP3_uc010fle.2_Silent_p.P84P	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	84	Cytoplasmic (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						TGAGCTCCCCGGAGGTCATCT	0.592													15	41					0	0	1	0	0		A	120003324	A	A	120003324	2	1	211	1	0	0	0	0	0	0	0	1	15304	1103	39	1		1	STEAP3	2	120003324	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	9679892	120003324	123196049	243	102122											
STEAP3	55240	broad.mit.edu	37	chr2	120005744	120005744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcttgccgctgcgccgcGcccaccgctacgacctggtc	3	8	11	19	6	1	0	0	0	1	0	2	1	1	0	5	1	4	3	5	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:120005744G>A	uc002tlp.2	+	4	1139	c.982G>A	c.(982-984)GCC>ACC	p.A328T	STEAP3_uc002tlq.2_Missense_Mutation_p.A338T|STEAP3_uc002tlr.2_Missense_Mutation_p.A328T|STEAP3_uc010fle.2_Missense_Mutation_p.A328T	NM_018234	NP_060704	Q658P3	STEA3_HUMAN	dudulin 2 isoform b	328	Ferric oxidoreductase.|Vesicular (Potential).				apoptosis|cell cycle|cellular iron ion homeostasis|protein secretion|transferrin transport|transmembrane transport	endosome membrane|integral to membrane|multivesicular body	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			central_nervous_system(2)|skin(1)	3						GCTGCGCCGCGCCCACCGCTA	0.652													21	54					0	0	1	0	0		A	120005744	A	A	120005744	3	1	211	1	0	0	0	0	1	0	0	0	15304	1087	38	1	1022	1	STEAP3	2	120005744	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2420	120005744	123193629	244	102123											
C2orf76	130355	broad.mit.edu	37	chr2	120069198	120069198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaggcccccttcctcacCgattccagctgctttcagag	8	9	7	17	1	2	1	2	0	0	1	4	2	4	1	5	1	2	2	5	1	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:120069198C>T	uc002tls.2	-	6	845	c.304G>A	c.(304-306)GCC>ACC	p.A102T	C2orf76_uc010flf.1_Missense_Mutation_p.A102T|C2orf76_uc010yyg.1_RNA|C2orf76_uc002tlt.2_Missense_Mutation_p.A102T|C2orf76_uc002tlu.2_Missense_Mutation_p.A102T	NM_001017927	NP_001017927	Q3KRA6	CB076_HUMAN	hypothetical protein LOC130355	102											0						CCTTCCTCACCGATTCCAGCT	0.468													3	35					0	0	1	0	0		T	120069198	T	T	120069198	3	4	211	1	0	0	0	0	1	0	0	0	2196	666	23	1	84	1	C2orf76	2	120069198	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	63454	120069198	123130175	245	102124											
TMEM177	80775	broad.mit.edu	37	chr2	120438550	120438550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacctcttcccggatcccGtggtccaatggctctaccag	7	9	8	17	2	2	0	0	0	2	0	5	1	5	1	6	3	1	1	6	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:120438550G>A	uc010flg.1	+	2	594	c.121G>A	c.(121-123)GTG>ATG	p.V41M	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Missense_Mutation_p.V41M|TMEM177_uc002tmd.2_Missense_Mutation_p.V41M|TMEM177_uc010flh.2_Missense_Mutation_p.V41M	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	41						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					CCCGGATCCCGTGGTCCAATG	0.592													38	91					0	0	1	0	0		A	120438550	A	A	120438550	3	1	211	1	0	0	0	0	1	0	0	0	16119	1145	40	1	123	1	TMEM177	2	120438550	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	369352	120438550	122760823	246	102125											
GYPC	2995	broad.mit.edu	37	chr2	127453674	127453674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgcagggagaccctgccCtccaagatgctggtgatagc	8	7	12	14	0	0	3	0	1	0	2	1	4	1	3	4	2	4	2	4	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:127453674C>A	uc002tnq.2	+	4	499	c.343C>A	c.(343-345)CTC>ATC	p.L115I	GYPC_uc002tnr.2_Missense_Mutation_p.L96I|GYPC_uc010flv.2_RNA	NM_002101	NP_002092	P04921	GLPC_HUMAN	glycophorin C isoform 1	115	Cytoplasmic.					cortical cytoskeleton|integral to plasma membrane	protein binding			central_nervous_system(1)	1	Colorectal(110;0.0533)			BRCA - Breast invasive adenocarcinoma(221;0.075)		AGACCCTGCCCTCCAAGATGC	0.542													17	45					3.41278e-10	3.61977e-10	1	1	0		A	127453674	A	A	127453674	3	1	211	1	0	0	0	0	1	0	0	0	6926	681	24	5	357	5	GYPC	2	127453674	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7015124	127453674	115745699	247	102126											
ERCC3	2071	broad.mit.edu	37	chr2	128028923	128028923	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccactttaccttttttagctCgaagcacccgccctagcctt	7	13	5	16	2	0	0	0	0	0	0	1	1	0	0	5	0	4	2	5	0	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:128028923C>T	uc002toh.1	-	12	2029	c.1934G>A	c.(1933-1935)CGA>CAA	p.R645Q	ERCC3_uc002toe.1_Missense_Mutation_p.R400Q|ERCC3_uc002tof.1_Missense_Mutation_p.R581Q|ERCC3_uc002tog.1_Missense_Mutation_p.R581Q	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	645	Helicase C-terminal.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		TTTTTTAGCTCGAAGCACCCG	0.507			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				53	138					0	0	1	0	0		T	128028923	T	T	128028923	3	4	211	1	0	0	0	0	1	0	0	0	5222	884	31	1	430	1	ERCC3	2	128028923	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	575249	128028923	115170450	248	102127											
ERCC3	2071	broad.mit.edu	37	chr2	128030525	128030525	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccctgagacgtaggtccGtagatatagggtctagagaa	11	9	12	9	2	1	3	0	1	1	3	3	5	3	3	3	2	0	2	3	2	6	5	rs147061557		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:128030525G>A	uc002toh.1	-	11	1838	c.1743C>T	c.(1741-1743)TAC>TAT	p.Y581Y	ERCC3_uc002toe.1_Silent_p.Y336Y|ERCC3_uc002tof.1_Silent_p.Y517Y|ERCC3_uc002tog.1_Silent_p.Y517Y	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	581	Helicase C-terminal.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		ACGTAGGTCCGTAGATATAGG	0.428			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				18	46					0	0	1	0	0		A	128030525	A	A	128030525	2	1	211	1	0	0	0	0	0	0	0	1	5222	1140	40	1		1	ERCC3	2	128030525	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1602	128030525	115168848	249	102128											
ERCC3	2071	broad.mit.edu	37	chr2	128038146	128038146	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatcttcgcggacgagggtCgcagtcaaacccagcttaca	10	8	10	13	4	3	0	2	0	1	0	5	2	3	1	1	2	3	2	1	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:128038146C>T	uc002toh.1	-	9	1499	c.1404G>A	c.(1402-1404)GCG>GCA	p.A468A	ERCC3_uc002toe.1_Silent_p.A223A|ERCC3_uc002tof.1_Silent_p.A404A|ERCC3_uc002tog.1_Silent_p.A404A	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	468	Helicase ATP-binding.				cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		GGACGAGGGTCGCAGTCAAAC	0.488			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				23	41					0	0	1	0	0		T	128038146	T	T	128038146	2	4	211	1	0	0	0	0	0	0	0	1	5222	871	31	1		1	ERCC3	2	128038146	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7621	128038146	115161227	250	102129											
WDR33	55339	broad.mit.edu	37	chr2	128466263	128466263	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcttacctttgcctcctcGgtcttcagaagggcctcctg	4	13	9	15	1	3	1	1	0	2	1	6	1	5	1	5	2	2	1	5	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:128466263G>A	uc002tpg.1	-	21	3952	c.3769C>T	c.(3769-3771)CGA>TGA	p.R1257*		NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	1257					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		TTGCCTCCTCGGTCTTCAGAA	0.612													44	137					0	0	1	0	0		A	128466263	A	A	128466263	4	1	211	1	0	0	0	0	0	1	0	0	17313	1124	39	1	249	1	WDR33	2	128466263	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	428117	128466263	114733110	251	102130											
AMMECR1L	83607	broad.mit.edu	37	chr2	128628889	128628889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agaaggtcccaatgcagccaCgaagccgcttgtcccgccct	9	6	10	16	3	0	1	0	0	0	1	2	2	2	1	5	1	3	2	5	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:128628889C>T	uc002tpl.2	-	4	703	c.452G>A	c.(451-453)CGT>CAT	p.R151H	AMMECR1L_uc002tpm.2_Missense_Mutation_p.R151H	NM_031445	NP_113633	Q6DCA0	AMERL_HUMAN	AMME chromosomal region gene 1-like	151	AMMECR1.									central_nervous_system(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.07)		AATGCAGCCACGAAGCCGCTT	0.443													11	34					0	0	1	0	0		T	128628889	T	T	128628889	3	4	211	1	0	0	0	0	1	0	0	0	579	536	19	1	500	1	AMMECR1L	2	128628889	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	162626	128628889	114570484	252	102131											
HS6ST1	9394	broad.mit.edu	37	chr2	129026328	129026328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagctcctcaggcgtgggcGtgcgcccatcacacatatgc	7	7	12	15	3	2	0	2	0	0	0	3	0	3	0	2	2	3	2	2	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:129026328G>A	uc002tpt.3	-	2	678	c.644C>T	c.(643-645)ACG>ATG	p.T215M		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	215	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		AGGCGTGGGCGTGCGCCCATC	0.647													27	55					0	0	1	0	0		A	129026328	A	A	129026328	3	1	211	1	0	0	0	0	1	0	0	0	7386	1145	40	1	595	1	HS6ST1	2	129026328	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	397439	129026328	114173045	253	102132											
RAB6C	84084	broad.mit.edu	37	chr2	130738414	130738414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttcccttcattaataacGttttgcaattcatcattgct	9	19	3	10	1	3	0	3	0	0	0	4	0	4	0	1	0	3	3	1	0	3	9			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:130738414G>A	uc002tpx.1	+	1	1180	c.726G>A	c.(724-726)ACG>ACA	p.T242T	uc002tpw.1_5'Flank	NM_032144	NP_115520	Q9H0N0	RAB6C_HUMAN	RAB6C, member RAS oncogene family	242					protein transport|response to drug|small GTPase mediated signal transduction		GTP binding|GTPase activity			lung(1)	1	Colorectal(110;0.1)					CATTAATAACGTTTTGCAATT	0.393													20	61					0	0	1	0	0		A	130738414	A	A	130738414	2	1	211	1	0	0	0	0	0	0	0	1	12978	1132	40	1		1	RAB6C	2	130738414	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1712086	130738414	112460959	254	102133											
SMPD4	55627	broad.mit.edu	37	chr2	130939110	130939110	+	Missense_Mutation	SNP	A	G	G	1	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	ccgcgccactcacctgtgggAtccatagcgtcgctcgcctc	5	8	10	18	5	1	0	1	0	0	0	5	1	2	1	5	1	1	1	5	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:130939110A>G	uc002tqq.1	-	1	585	c.65T>C	c.(64-66)ATC>ACC	p.I22T	FAM128B_uc002tqu.2_5'Flank|uc010zae.1_5'Flank|SMPD4_uc010yzy.1_Missense_Mutation_p.I22T|SMPD4_uc010yzz.1_5'UTR|SMPD4_uc002tqr.1_Missense_Mutation_p.I22T|SMPD4_uc002tqs.1_5'UTR|SMPD4_uc002tqt.1_5'UTR|SMPD4_uc010zaa.1_5'UTR|SMPD4_uc010zab.1_Missense_Mutation_p.I22T|SMPD4_uc010zac.1_5'UTR|SMPD4_uc010zad.1_5'UTR	NM_017951	NP_060421	Q9NXE4	NSMA3_HUMAN	sphingomyelin phosphodiesterase 4 isoform 2	Error:Variant_position_missing_in_Q9NXE4_after_alignment					sphingomyelin catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|trans-Golgi network	metal ion binding|protein binding|sphingomyelin phosphodiesterase activity|sphingomyelin phosphodiesterase D activity				0	Colorectal(110;0.1)				Phosphatidylserine(DB00144)	CACCTGTGGGATCCATAGCGT	0.726													5	19					0	0	1	0	0		G	130939110	G	G	130939110	3	3	211	1	0	0	0	0	1	0	0	0	14832	333	12	3	2615	3	SMPD4	2	130939110	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	200696	130939110	112260263	255	102134											
GPR39	2863	broad.mit.edu	37	chr2	133174993	133174993	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacgctacgctgctgcacgtGctgacactcagctttgagcg	7	10	11	13	4	1	2	1	2	0	0	1	2	1	2	0	0	7	6	0	0	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:133174993G>A	uc002ttl.2	+	1	847	c.378G>A	c.(376-378)GTG>GTA	p.V126V		NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	126	Helical; Name=3; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						TGCTGCACGTGCTGACACTCA	0.577													8	27					0	0	1	0	0		A	133174993	A	A	133174993	2	1	211	1	0	0	0	0	0	0	0	1	6708	1306	46	2		2	GPR39	2	133174993	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2235883	133174993	110024380	256	102135											
NCKAP5	344148	broad.mit.edu	37	chr2	133636480	133636480	+	Missense_Mutation	SNP	A	G	G	1	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	attctccaaagccaacgctgAattctctgcctgcagtaaga	12	10	7	12	1	2	2	0	1	2	1	4	2	2	2	3	0	4	3	3	0	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:133636480A>G	uc002ttp.2	-	9	963	c.589T>C	c.(589-591)TCA>CCA	p.S197P	NCKAP5_uc002ttq.2_Missense_Mutation_p.S197P	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	197	Potential.						protein binding				0						GCCAACGCTGAATTCTCTGCC	0.388													12	33					0	0	1	0	0		G	133636480	G	G	133636480	3	3	211	1	0	0	0	0	1	0	0	0	10242	246	9	3	5188	3	NCKAP5	2	133636480	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	461487	133636480	109562893	257	102136											
LRP1B	53353	broad.mit.edu	37	chr2	141143493	141143493	+	Silent	SNP	G	A	A	0	0	1	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	tcatctgaattatcactgcaGtcattttggctatcacaccg	10	14	6	11	1	5	1	4	1	1	0	5	1	5	1	1	1	1	2	1	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:141143493G>A	uc002tvj.1	-	67	11472	c.10500C>T	c.(10498-10500)GAC>GAT	p.D3500D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3500	Extracellular (Potential).|LDL-receptor class A 25.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TATCACTGCAGTCATTTTGGC	0.373										TSP Lung(27;0.18)			15	48					0	0	1	0	0		A	141143493	A	A	141143493	2	1	211	1	0	0	0	0	0	0	0	1	8973	1020	36	4		4	LRP1B	2	141143493	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7507013	141143493	102055880	258	102137											
LRP1B	53353	broad.mit.edu	37	chr2	141643823	141643823	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtttctcaatccaggaacaAgtagactatagtctcttttg	11	15	7	8	0	2	1	1	0	2	1	5	2	3	2	1	1	1	2	1	1	6	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:141643823A>T	uc002tvj.1	-	24	4820	c.3848T>A	c.(3847-3849)CTT>CAT	p.L1283H	LRP1B_uc010fnl.1_Missense_Mutation_p.L465H	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1283	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCCAGGAACAAGTAGACTATA	0.328										TSP Lung(27;0.18)			16	43					0	0	1	0	0		T	141643823	T	T	141643823	3	4	211	1	0	0	0	0	1	0	0	0	8973	72	3	5	10223	5	LRP1B	2	141643823	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	500330	141643823	101555550	259	102138											
ZEB2	9839	broad.mit.edu	37	chr2	145157105	145157105	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttctttatattactgatcTgtctccttgagtcagtagtc	7	19	6	9	0	4	2	1	2	3	0	6	2	4	2	1	0	1	1	1	0	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:145157105T>C	uc002tvu.2	-	8	2129	c.1649A>G	c.(1648-1650)CAG>CGG	p.Q550R	ZEB2_uc002tvv.2_Missense_Mutation_p.Q544R|ZEB2_uc010zbm.1_Missense_Mutation_p.Q521R|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.Q579R	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	550						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		ATTACTGATCTGTCTCCTTGA	0.373													15	53					0	0	1	0	0		C	145157105	C	C	145157105	3	2	211	1	0	0	0	0	1	0	0	0	17649	1580	55	3	2007	3	ZEB2	2	145157105	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3513282	145157105	98042268	260	102139											
NEB	4703	broad.mit.edu	37	chr2	152468749	152468749	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctaggacaatttccggagtgTcggtaatgcatgtgaatttg	10	13	12	6	2	0	1	0	1	0	0	2	3	1	3	1	3	1	2	1	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:152468749T>C	uc010fnx.2	-	74	11218	c.11027A>G	c.(11026-11028)GAC>GGC	p.D3676G		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3676	Nebulin 101.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		TTCCGGAGTGTCGGTAATGCA	0.478													19	51					0	0	1	0	0		C	152468749	C	C	152468749	3	2	211	1	0	0	0	0	1	0	0	0	10321	1667	58	3	14350	3	NEB	2	152468749	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	7311644	152468749	90730624	261	102140											
PRPF40A	55660	broad.mit.edu	37	chr2	153529111	153529111	+	Frame_Shift_Del	DEL	T	-	-																															tataggcattaaaggcttgcTttttttcacttaactttgcc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:153529111delT	uc002tyi.2	-	13	1326	c.1313delA	c.(1312-1314)AAGfs	p.K438fs	PRPF40A_uc002tyg.3_5'Flank|PRPF40A_uc002tyh.3_Frame_Shift_Del_p.K411fs|PRPF40A_uc010zcd.1_Frame_Shift_Del_p.K358fs|PRPF40A_uc002tyj.2_Frame_Shift_Del_p.K307fs	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	438	FF 1.				mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						AAAGGCTTGCTTTTTTTCACT	0.308													4	8	---	---	---	---						.	-	153529111	-	-	153529111	7	5	211	1	0	1	0	1	0	0	0	0	12593	1609	56	0	1616	0	PRPF40A	2	153529111	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1060362	153529111	89670262	262	102141											
NR4A2	4929	broad.mit.edu	37	chr2	157185981	157185981	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtgtcgagcagctgagacgCgtggccgatctgcaggcccg	6	6	16	13	6	1	1	0	1	1	1	2	4	1	1	2	2	3	3	2	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:157185981C>T	uc002tyz.3	-	3	1140	c.718G>A	c.(718-720)GCG>ACG	p.A240T	NR4A2_uc002tyx.3_Missense_Mutation_p.A177T|NR4A2_uc010zcf.1_Missense_Mutation_p.A240T|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	240					cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						AGCTGAGACGCGTGGCCGATC	0.716													8	12					0	0	1	0	0		T	157185981	T	T	157185981	3	4	211	1	0	0	0	0	1	0	0	0	10652	768	27	1	1102	1	NR4A2	2	157185981	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3656870	157185981	86013392	263	102142											
ACVR1C	130399	broad.mit.edu	37	chr2	158399322	158399322	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atggcacaagtttcacacttTttcactaagatattctttga	12	16	5	8	0	3	2	2	1	1	1	3	2	3	2	0	1	0	2	0	1	3	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:158399322T>C	uc002tzk.3	-	6	1239	c.996A>G	c.(994-996)AAA>AAG	p.K332K	ACVR1C_uc002tzl.3_Silent_p.K252K|ACVR1C_uc010fof.2_Silent_p.K175K|ACVR1C_uc010foe.2_Silent_p.K282K	NM_145259	NP_660302	Q8NER5	ACV1C_HUMAN	activin A receptor, type IC isoform 1	332	Protein kinase.|Cytoplasmic (Potential).				apoptosis|cell differentiation|regulation of apoptosis	activin receptor complex	activin receptor activity, type I|ATP binding|transforming growth factor beta receptor activity			lung(3)|ovary(2)|skin(2)	7						TTTCACACTTTTTCACTAAGA	0.383													30	72					0	0	1	0	0		C	158399322	C	C	158399322	2	2	211	1	0	0	0	0	0	0	0	1	222	1838	64	3		3	ACVR1C	2	158399322	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1213341	158399322	84800051	264	102143											
PKP4	8502	broad.mit.edu	37	chr2	159488414	159488414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaaccatggaactgtggagCtccaaggatcgcagacggcg	12	5	13	11	3	0	1	0	0	0	1	2	4	1	4	2	4	3	2	2	4	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:159488414C>T	uc002tzv.2	+	8	1563	c.1303C>T	c.(1303-1305)CTC>TTC	p.L435F	PKP4_uc002tzt.1_Missense_Mutation_p.L287F|PKP4_uc002tzu.2_Missense_Mutation_p.L435F|PKP4_uc002tzw.2_Missense_Mutation_p.L435F|PKP4_uc002tzx.2_Missense_Mutation_p.L93F|PKP4_uc002tzy.1_Missense_Mutation_p.L93F|PKP4_uc002tzz.1_Missense_Mutation_p.L433F|PKP4_uc002uaa.2_Missense_Mutation_p.L287F	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	435	ARM 1.				cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						AACTGTGGAGCTCCAAGGATC	0.512										HNSCC(62;0.18)			23	40					0	0	1	0	0		T	159488414	T	T	159488414	3	4	211	1	0	0	0	0	1	0	0	0	12006	797	28	2	1329	2	PKP4	2	159488414	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1089092	159488414	83710959	265	102144											
GORASP2	26003	broad.mit.edu	37	chr2	171822461	171822461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccgcccaccagcaacgcaCcctccgaccctgccacaact	9	4	5	23	3	0	0	0	0	0	0	2	1	2	0	7	0	4	2	7	0	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:171822461C>T	uc002ugk.2	+	10	1320	c.1180C>T	c.(1180-1182)CCC>TCC	p.P394S	GORASP2_uc002ugj.2_Missense_Mutation_p.P326S|GORASP2_uc010zdl.1_Missense_Mutation_p.P406S|GORASP2_uc010zdm.1_Missense_Mutation_p.P350S|GORASP2_uc002ugl.2_Missense_Mutation_p.P326S|GORASP2_uc002ugm.2_Missense_Mutation_p.P176S	NM_015530	NP_056345	Q9H8Y8	GORS2_HUMAN	golgi reassembly stacking protein 2	394						Golgi membrane				breast(1)|central_nervous_system(1)	2						CAGCAACGCACCCTCCGACCC	0.627													5	98					0	0	1	0	0		T	171822461	T	T	171822461	3	4	211	1	0	0	0	0	1	0	0	0	6591	507	18	4	1218	4	GORASP2	2	171822461	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	12334047	171822461	71376912	266	102145											
CYBRD1	79901	broad.mit.edu	37	chr2	172379245	172379245	+	Missense_Mutation	SNP	A	G	G	1	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	gcttcgtcttcatccagggcAtcggtactggcacctcctgg	5	11	11	14	2	2	0	1	0	1	0	6	0	4	0	3	4	1	4	3	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:172379245A>G	uc002ugy.3	+	1	380	c.190A>G	c.(190-192)ATC>GTC	p.I64V	CYBRD1_uc002ugz.3_Missense_Mutation_p.I64V	NM_024843	NP_079119	Q53TN4	CYBR1_HUMAN	cytochrome b reductase 1 isoform 1	64	Cytochrome b561.|Helical; Name=2; (Potential).				cellular iron ion homeostasis|electron transport chain|transmembrane transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0						CATCCAGGGCATCGGTACTGG	0.647													3	35					0	0	1	0	0		G	172379245	G	G	172379245	3	3	211	1	0	0	0	0	1	0	0	0	4137	217	8	3	192	3	CYBRD1	2	172379245	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	556784	172379245	70820128	267	102146											
HOXD10	3236	broad.mit.edu	37	chr2	176982041	176982041	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtcagacctacgccacCgggaaaacccaagagtacaa	15	4	9	13	2	1	3	1	1	0	2	1	4	1	4	4	1	3	1	4	1	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:176982041C>T	uc002ukj.2	+	1	550	c.480C>T	c.(478-480)ACC>ACT	p.T160T		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	160						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		CCTACGCCACCGGGAAAACCC	0.592													30	107					0	0	1	0	0		T	176982041	T	T	176982041	2	4	211	1	0	0	0	0	0	0	0	1	7335	639	23	1		1	HOXD10	2	176982041	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4602796	176982041	66217332	268	102147											
TTN	7273	broad.mit.edu	37	chr2	179417885	179417885	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcaccaactccattttcTattgtgagaatatattttcc	10	17	5	9	0	2	1	1	1	1	1	4	2	4	1	3	1	1	1	3	1	5	9			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179417885T>G	uc010zfg.1	-	284	82262	c.82038A>C	c.(82036-82038)ATA>ATC	p.I27346I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I21041I|TTN_uc010zfi.1_Silent_p.I20974I|TTN_uc010zfj.1_Silent_p.I20849I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	28273							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCCATTTTCTATTGTGAGAA	0.408													19	39					0	0	1	0	0		G	179417885	G	G	179417885	2	3	211	1	0	0	0	0	0	0	0	1	16761	1512	53	5		5	TTN	2	179417885	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2435844	179417885	63781488	269	102148											
TTN	7273	broad.mit.edu	37	chr2	179438692	179438692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attccattgttggaggtgggCggcctgaaacatcagcttcc	8	11	12	10	1	1	1	1	1	0	0	3	2	3	2	3	4	2	2	3	4	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179438692C>T	uc010zfg.1	-	275	64687	c.64463G>A	c.(64462-64464)CGC>CAC	p.R21488H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R15183H|TTN_uc010zfi.1_Missense_Mutation_p.R15116H|TTN_uc010zfj.1_Missense_Mutation_p.R14991H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22415							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGGAGGTGGGCGGCCTGAAAC	0.408													14	23					0	0	1	0	0		T	179438692	T	T	179438692	3	4	211	1	0	0	0	0	1	0	0	0	16761	768	27	1	35960	1	TTN	2	179438692	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	20807	179438692	63760681	270	102149											
TTN	7273	broad.mit.edu	37	chr2	179452670	179452670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcctttagctctgcagggCgcccaataccaacttggttt	7	13	8	13	1	1	0	0	0	1	0	2	0	2	0	3	2	4	3	3	2	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179452670C>T	uc010zfg.1	-	254	55984	c.55760G>A	c.(55759-55761)CGC>CAC	p.R18587H	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R12282H|TTN_uc010zfi.1_Missense_Mutation_p.R12215H|TTN_uc010zfj.1_Missense_Mutation_p.R12090H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	19514							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTCTGCAGGGCGCCCAATACC	0.438													7	11					0	0	1	0	0		T	179452670	T	T	179452670	3	4	211	1	0	0	0	0	1	0	0	0	16761	768	27	1	44747	1	TTN	2	179452670	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	13978	179452670	63746703	271	102150											
TTN	7273	broad.mit.edu	37	chr2	179474028	179474028	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggtcggagagaatctcGgacgcgtagctgagattctc	9	9	14	9	4	3	2	1	1	2	2	6	6	3	4	0	3	1	2	0	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179474028G>A	uc010zfg.1	-	222	44529	c.44305C>T	c.(44305-44307)CGA>TGA	p.R14769*	uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.R8464*|TTN_uc010zfi.1_Nonsense_Mutation_p.R8397*|TTN_uc010zfj.1_Nonsense_Mutation_p.R8272*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	15696							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGAGAATCTCGGACGCGTAGC	0.453													9	31					0	0	1	0	0		A	179474028	A	A	179474028	4	1	211	1	0	0	0	0	0	1	0	0	16761	1124	39	1	56044	1	TTN	2	179474028	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	21358	179474028	63725345	272	102151											
TTN	7273	broad.mit.edu	37	chr2	179483201	179483201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctgtcacttctaagttacGtactggcccaggaacatctg	9	13	8	11	1	4	0	1	0	3	0	4	1	4	1	1	2	3	2	1	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179483201G>A	uc010zfg.1	-	201	39504	c.39280C>T	c.(39280-39282)CGT>TGT	p.R13094C	TTN_uc010zfh.1_Missense_Mutation_p.R6789C|TTN_uc010zfi.1_Missense_Mutation_p.R6722C|TTN_uc010zfj.1_Missense_Mutation_p.R6597C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14021							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCTAAGTTACGTACTGGCCCA	0.393													10	45					0	0	1	0	0		A	179483201	A	A	179483201	3	1	211	1	0	0	0	0	1	0	0	0	16761	1145	40	1	61153	1	TTN	2	179483201	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	9173	179483201	63716172	273	102152											
TTN	7273	broad.mit.edu	37	chr2	179583532	179583532	+	Missense_Mutation	SNP	A	G	G	1	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	caaacaactccagttctgtgAcaaaatcttccagagagatg	15	9	7	10	0	2	3	0	1	2	2	4	4	4	3	2	0	2	1	2	0	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179583532A>G	uc010zfg.1	-	81	20887	c.20663T>C	c.(20662-20664)GTC>GCC	p.V6888A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.V3549A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7815							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CAGTTCTGTGACAAAATCTTC	0.483													14	27					0	0	1	0	0		G	179583532	G	G	179583532	3	3	211	1	0	0	0	0	1	0	0	0	16761	275	10	3	80250	3	TTN	2	179583532	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	100331	179583532	63615841	274	102153											
TTN	7273	broad.mit.edu	37	chr2	179591896	179591896	+	Silent	SNP	A	G	G	1	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	atgaaatctccactgtcctcAgtactgagattgttcatctg	10	14	7	10	0	4	2	2	2	2	1	6	3	5	2	2	0	1	2	2	0	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179591896A>G	uc010zfg.1	-	66	16688	c.16464T>C	c.(16462-16464)ACT>ACC	p.T5488T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.T2149T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6415							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CACTGTCCTCAGTACTGAGAT	0.438													31	81					0	0	1	0	0		G	179591896	G	G	179591896	2	3	211	1	0	0	0	0	0	0	0	1	16761	175	7	3		3	TTN	2	179591896	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	8364	179591896	63607477	275	102154											
TTN	7273	broad.mit.edu	37	chr2	179645895	179645895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtttctccatgcttattgCgaacaacaatagtgtattct	12	15	6	8	1	2	0	0	0	2	0	3	1	2	0	1	0	4	3	1	0	7	6	rs149883066		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:179645895C>T	uc010zfg.1	-	21	3700	c.3476G>A	c.(3475-3477)CGC>CAC	p.R1159H	TTN_uc010zfh.1_Missense_Mutation_p.R1113H|TTN_uc010zfi.1_Missense_Mutation_p.R1113H|TTN_uc010zfj.1_Missense_Mutation_p.R1113H|TTN_uc002unb.2_Missense_Mutation_p.R1159H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1159							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ATGCTTATTGCGAACAACAAT	0.388													10	33					0	0	1	0	0		T	179645895	T	T	179645895	3	4	211	1	0	0	0	0	1	0	0	0	16761	768	27	1	107880	1	TTN	2	179645895	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	53999	179645895	63553478	276	102155											
SSFA2	6744	broad.mit.edu	37	chr2	182766502	182766502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttttggtaggccgttttcGtcaaattgaagtgcttacta	8	17	9	7	2	2	1	1	1	1	0	3	1	2	1	1	2	2	3	1	2	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:182766502G>A	uc002uoi.2	+	8	1044	c.722G>A	c.(721-723)CGT>CAT	p.R241H	SSFA2_uc002uoh.2_Missense_Mutation_p.R241H|SSFA2_uc002uoj.2_Missense_Mutation_p.R241H|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.R88H|SSFA2_uc002uol.2_Missense_Mutation_p.R88H	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	241						cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			GGCCGTTTTCGTCAAATTGAA	0.303													19	55					0	0	1	0	0		A	182766502	A	A	182766502	3	1	211	1	0	0	0	0	1	0	0	0	15208	1145	40	1	752	1	SSFA2	2	182766502	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3120607	182766502	60432871	277	102156											
PDE1A	5136	broad.mit.edu	37	chr2	183095828	183095828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tccacttgcttcatttagggCaaatacatcgaaagaccatt	13	12	6	10	1	1	1	1	0	0	1	3	2	2	1	2	1	2	2	2	1	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:183095828C>A	uc002uos.2	-	6	580	c.496G>T	c.(496-498)GCC>TCC	p.A166S	PDE1A_uc010zfp.1_Missense_Mutation_p.A62S|PDE1A_uc002uoq.1_Missense_Mutation_p.A166S|PDE1A_uc010zfq.1_Missense_Mutation_p.A166S|PDE1A_uc002uor.2_Missense_Mutation_p.A150S|PDE1A_uc002uou.2_Missense_Mutation_p.A132S	NM_001003683	NP_001003683	P54750	PDE1A_HUMAN	phosphodiesterase 1A isoform 2	166					activation of phospholipase C activity|nerve growth factor receptor signaling pathway|platelet activation	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.061)			TCATTTAGGGCAAATACATCG	0.328													19	101					2.94398e-08	3.08001e-08	1	1	0		A	183095828	A	A	183095828	3	1	211	1	0	0	0	0	1	0	0	0	11652	710	25	5	1229	5	PDE1A	2	183095828	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	329326	183095828	60103545	278	102157											
MSTN	2660	broad.mit.edu	37	chr2	190925048	190925048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cactgttgtaggagtctcgaCgggtctcaaatatatccata	11	12	9	9	2	2	0	1	0	2	0	5	2	3	1	1	2	0	2	1	2	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:190925048C>T	uc002urp.2	-	2	620	c.487G>A	c.(487-489)GTC>ATC	p.V163I		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	163					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			GGAGTCTCGACGGGTCTCAAA	0.383													31	78					0	0	1	0	0		T	190925048	T	T	190925048	3	4	211	1	0	0	0	0	1	0	0	0	9911	536	19	1	648	1	MSTN	2	190925048	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7829220	190925048	52274325	279	102158											
NAB1	4664	broad.mit.edu	37	chr2	191524601	191524601	+	Silent	SNP	T	C	C	0	1	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	aagttggccaaaatgattggTcacatctttgagatgaacga	14	11	10	6	1	2	3	1	3	1	1	2	5	2	3	1	2	1	1	1	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:191524601T>C	uc002usb.2	+	4	1271	c.699T>C	c.(697-699)GGT>GGC	p.G233G	NAB1_uc010fsc.2_Silent_p.G233G|NAB1_uc010fsd.2_Silent_p.G233G|NAB1_uc002usc.2_Silent_p.G233G|NAB1_uc010zgh.1_Silent_p.G233G	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	233	NCD2.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			AAATGATTGGTCACATCTTTG	0.438													20	38					0	0	1	0	0		C	191524601	C	C	191524601	2	2	211	1	0	0	0	0	0	0	0	1	10149	1654	58	3		3	NAB1	2	191524601	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	599553	191524601	51674772	280	102159											
ALS2CR12	130540	broad.mit.edu	37	chr2	202173902	202173902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcaggatattttctcgctcGaacttctcatccttcttcca	8	15	5	13	2	3	0	1	0	3	0	8	2	5	1	2	1	2	2	2	1	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:202173902G>A	uc010ftg.2	-	10	1191	c.747C>T	c.(745-747)TTC>TTT	p.F249F	ALS2CR12_uc002uya.3_Silent_p.F249F|ALS2CR12_uc010fth.2_RNA	NM_139163	NP_631902	Q96Q35	AL2SB_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	249					regulation of GTPase activity		protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						TTTCTCGCTCGAACTTCTCAT	0.403													43	144					0	0	1	0	0		A	202173902	A	A	202173902	2	1	211	1	0	0	0	0	0	0	0	1	553	1049	37	1		1	ALS2CR12	2	202173902	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10649301	202173902	41025471	281	102160											
ALS2	57679	broad.mit.edu	37	chr2	202589136	202589136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagaagaccatgaccatgacGcatattatcttgaaaacagc	16	9	7	9	1	1	5	0	3	1	2	1	5	1	5	2	0	2	1	2	0	6	4	rs149670991	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:202589136G>A	uc002uyo.2	-	21	3750	c.3394C>T	c.(3394-3396)CGT>TGT	p.R1132C	ALS2_uc002uyp.3_Missense_Mutation_p.R1132C|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	1132	MORN 4.				cell death|endosome organization|positive regulation of Rac GTPase activity|regulation of endosome size	centrosome|cytosol|early endosome|growth cone|lamellipodium|protein complex|ruffle	protein homodimerization activity|protein serine/threonine kinase activator activity|Rab GTPase binding|Rab guanyl-nucleotide exchange factor activity|Rac guanyl-nucleotide exchange factor activity|Ran guanyl-nucleotide exchange factor activity			skin(5)|lung(1)|breast(1)	7						TGACCATGACGCATATTATCT	0.413													58	133					0	0	1	0	0		A	202589136	A	A	202589136	3	1	211	1	0	0	0	0	1	0	0	0	550	1087	38	1	1635	1	ALS2	2	202589136	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	415234	202589136	40610237	282	102161											
CYP20A1	57404	broad.mit.edu	37	chr2	204131350	204131350	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttacacagatggtaatgggTagtacatttgaagatgatca	14	12	11	4	0	1	4	1	2	0	2	1	4	1	4	0	2	2	4	0	2	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:204131350T>C	uc002uzv.3	+	5	1168	c.546T>C	c.(544-546)GGT>GGC	p.G182G	CYP20A1_uc002uzx.3_Silent_p.G80G|CYP20A1_uc010zif.1_Silent_p.G182G|CYP20A1_uc002uzy.3_Silent_p.G80G|CYP20A1_uc002uzw.3_RNA|CYP20A1_uc010ftw.2_5'UTR	NM_177538	NP_803882	Q6UW02	CP20A_HUMAN	cytochrome P450, family 20, subfamily A,	182						integral to membrane	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen				0						TGGTAATGGGTAGTACATTTG	0.403													39	107					0	0	1	0	0		C	204131350	C	C	204131350	2	2	211	1	0	0	0	0	0	0	0	1	4155	1625	57	3		3	CYP20A1	2	204131350	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1542214	204131350	39068023	283	102162											
ICOS	29851	broad.mit.edu	37	chr2	204801578	204801578	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttctttctcttctgcttgcGcattaaagttttaacaggta	8	19	6	8	1	3	0	0	0	3	0	4	0	3	0	0	1	3	4	0	1	4	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:204801578G>A	uc002vam.2	+	1	108	c.41G>A	c.(40-42)CGC>CAC	p.R14H	ICOS_uc010zip.1_Missense_Mutation_p.R14H|ICOS_uc010fua.2_Missense_Mutation_p.R14H	NM_012092	NP_036224	Q9Y6W8	ICOS_HUMAN	inducible T-cell co-stimulator precursor	14					immune response|T cell costimulation	extracellular region					0						TTCTGCTTGCGCATTAAAGTT	0.358													19	65					0	0	1	0	0		A	204801578	A	A	204801578	3	1	211	1	0	0	0	0	1	0	0	0	7502	1087	38	1	43	1	ICOS	2	204801578	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	670228	204801578	38397795	284	102163											
EEF1B2	1933	broad.mit.edu	37	chr2	207027606	207027607	+	Frame_Shift_Del	DEL	AA	-	-																															ggctgctttcaacaagatctAaaatccatcctggatcatgg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:207027606_207027607delAA	uc002vbf.1	+	7	835_836	c.677_678delAA	c.(676-678)TAAfs	p.*226fs	EEF1B2_uc002vbg.1_Frame_Shift_Del_p.*226fs|EEF1B2_uc002vbh.1_Frame_Shift_Del_p.*226fs	NM_001037663	NP_001032752	P24534	EF1B_HUMAN	eukaryotic translation elongation factor 1 beta	226						cytosol|eukaryotic translation elongation factor 1 complex	protein binding|translation elongation factor activity				0						AACAAGATCTAAAATCCATCCT	0.386													17	36	---	---	---	---						.	-	207027607	-	-	207027606	7	5	211	1	0	1	0	1	0	0	0	0	4931	369	13	0	699	0	EEF1B2	2	207027606	Frame_Shift_Del	DEL	AA	TCGA-HU-A4GQ-01A-11D-A25D-08	2226028	207027606	36171767	285	102164											
DYTN	391475	broad.mit.edu	37	chr2	207570544	207570544	+	Missense_Mutation	SNP	A	G	G	1	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	aaagagggctgtctcctgagAgggttattagggcagcggcc	9	8	16	8	1	1	2	0	1	1	2	2	3	1	2	2	4	1	3	2	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:207570544A>G	uc002vbr.1	-	4	467	c.350T>C	c.(349-351)CTC>CCC	p.L117P		NM_001093730	NP_001087199	A2CJ06	DYTN_HUMAN	dystrotelin	117						plasma membrane	zinc ion binding			ovary(1)|central_nervous_system(1)	2				LUSC - Lung squamous cell carcinoma(261;0.082)|Epithelial(149;0.129)|Lung(261;0.153)		GTCTCCTGAGAGGGTTATTAG	0.502													4	27					0	0	1	0	0		G	207570544	G	G	207570544	3	3	211	1	0	0	0	0	1	0	0	0	4867	304	11	3	1422	3	DYTN	2	207570544	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	542938	207570544	35628829	286	102165											
ACADL	33	broad.mit.edu	37	chr2	211089983	211089983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accctcggagaaggcgtgcgGccatgtccgaaacacagggg	10	4	15	12	4	0	1	0	0	0	1	2	3	1	1	3	5	2	0	3	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:211089983G>A	uc002vdz.3	-	1	233	c.5C>T	c.(4-6)GCC>GTC	p.A2V	ACADL_uc010zjg.1_Missense_Mutation_p.A2V	NM_001608	NP_001599	P28330	ACADL_HUMAN	long-chain acyl-CoA dehydrogenase precursor	2					carnitine catabolic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial matrix	long-chain-acyl-CoA dehydrogenase activity|palmitoyl-CoA oxidase activity				0		Renal(323;0.202)		Epithelial(149;0.00631)|Lung(261;0.0438)|LUSC - Lung squamous cell carcinoma(261;0.0466)|all cancers(144;0.0621)		AAGGCGTGCGGCCATGTCCGA	0.751													3	5					0	0	1	0	0		A	211089983	A	A	211089983	3	1	211	1	0	0	0	0	1	0	0	0	112	1203	42	2	1331	2	ACADL	2	211089983	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3519439	211089983	32109390	287	102166											
CPS1	1373	broad.mit.edu	37	chr2	211466978	211466978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggctacccagtgatgatccGttccgcctatgcactgggtg	6	11	12	12	2	0	2	0	2	0	0	2	2	2	2	4	2	2	3	4	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:211466978G>A	uc002vee.3	+	16	1892	c.1760G>A	c.(1759-1761)CGT>CAT	p.R587H	CPS1_uc010fur.2_Missense_Mutation_p.R593H|CPS1_uc010fus.2_Missense_Mutation_p.R136H	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	587	ATP-grasp 1.		R -> H (in CPS1D).		carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		GTGATGATCCGTTCCGCCTAT	0.468													18	69					0	0	1	0	0		A	211466978	A	A	211466978	3	1	211	1	0	0	0	0	1	0	0	0	3826	1145	40	1	1844	1	CPS1	2	211466978	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	376995	211466978	31732395	288	102167											
BARD1	580	broad.mit.edu	37	chr2	215593504	215593504	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaccctctctgggtgataatTacacaaatcttcatagatga	14	12	6	9	0	3	3	1	2	2	1	4	3	3	3	1	1	2	0	1	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:215593504T>C	uc002veu.2	-	11	2365	c.2230A>G	c.(2230-2232)AAT>GAT	p.N744D	BARD1_uc010zjm.1_3'UTR	NM_000465	NP_000456	Q99728	BARD1_HUMAN	BRCA1 associated RING domain 1	744	BRCT 2.				cell cycle arrest|DNA repair|negative regulation of apoptosis|negative regulation of mRNA 3'-end processing|negative regulation of protein export from nucleus|positive regulation of apoptosis|positive regulation of protein catabolic process|protein K6-linked ubiquitination|regulation of phosphorylation|tissue homeostasis	BRCA1-A complex|BRCA1-BARD1 complex|cytoplasm	kinase binding|protein heterodimerization activity|protein homodimerization activity|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)	2		Renal(323;0.0243)		Epithelial(149;3.2e-06)|all cancers(144;0.000461)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.011)		GGGTGATAATTACACAAATCT	0.478									Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				12	52					0	0	1	0	0		C	215593504	C	C	215593504	3	2	211	1	0	0	0	0	1	0	0	0	1313	1754	61	3	107	3	BARD1	2	215593504	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	4126526	215593504	27605869	289	102168											
FN1	2335	broad.mit.edu	37	chr2	216226796	216226796	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcggcagttgtcacagcGccagccctgagagagtagag	9	7	14	11	2	2	3	1	1	1	2	2	4	2	3	2	1	3	3	2	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:216226796G>A	uc002vfa.2	-	45	7524	c.7258C>T	c.(7258-7260)CGC>TGC	p.R2420C	FN1_uc002vfb.2_Missense_Mutation_p.R2208C|FN1_uc002vfc.2_Missense_Mutation_p.R2183C|FN1_uc002vfd.2_Missense_Mutation_p.R2364C|FN1_uc002vfe.2_Missense_Mutation_p.R2298C|FN1_uc002vff.2_Missense_Mutation_p.R2273C|FN1_uc002vfg.2_Missense_Mutation_p.R2239C|FN1_uc002vfh.2_Missense_Mutation_p.R2119C|FN1_uc002vfi.2_Missense_Mutation_p.R2389C|FN1_uc002vfj.2_Missense_Mutation_p.R2210C|FN1_uc002vez.2_Missense_Mutation_p.R583C|FN1_uc010zjp.1_Missense_Mutation_p.R957C	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	2329	Fibrin-binding 2.|Fibronectin type-I 12.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTGTCACAGCGCCAGCCCTGA	0.468													7	24					0	0	1	0	0		A	216226796	A	A	216226796	3	1	211	1	0	0	0	0	1	0	0	0	5976	1087	38	1	183	1	FN1	2	216226796	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	633292	216226796	26972577	290	102169											
FN1	2335	broad.mit.edu	37	chr2	216274362	216274363	+	Missense_Mutation	DNP	GA	TT	TT																															gacacggtgtcggaagctgaGacccaggagaccacaaagct																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:216274362_216274363GA>TT	uc002vfa.2	-	15	2488_2489	c.2222_2223TC>AA	c.(2221-2223)GTC>GAA	p.V741E	FN1_uc002vfb.2_Missense_Mutation_p.V741E|FN1_uc002vfc.2_Missense_Mutation_p.V741E|FN1_uc002vfd.2_Missense_Mutation_p.V741E|FN1_uc002vfe.2_Missense_Mutation_p.V741E|FN1_uc002vff.2_Missense_Mutation_p.V741E|FN1_uc002vfg.2_Missense_Mutation_p.V741E|FN1_uc002vfh.2_Missense_Mutation_p.V741E|FN1_uc002vfi.2_Missense_Mutation_p.V741E|FN1_uc002vfj.2_Missense_Mutation_p.V741E	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	741	Fibronectin type-III 2.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGGAAGCTGAGACCCAGGAGAC	0.54													14	31					0	0	1	0	0		TT	216274363	TT	TT	216274362	3	4	211	1	0	0	0	0	1	0	0	0	5976	929	33	5	5338	5	FN1	2	216274362	Missense_Mutation	DNP	GA	TCGA-HU-A4GQ-01A-11D-A25D-08	47566	216274362	26925011	291	102170											
TMEM169	92691	broad.mit.edu	37	chr2	216965029	216965029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctatccagtgctcatcatgGccatggcttcttccctcggc	5	13	8	15	1	4	0	2	0	2	0	7	0	6	0	3	3	1	2	3	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:216965029G>A	uc010zjr.1	+	4	984	c.658G>A	c.(658-660)GCC>ACC	p.A220T	TMEM169_uc010zjs.1_Missense_Mutation_p.A220T|TMEM169_uc002vfw.2_Missense_Mutation_p.A220T|TMEM169_uc002vfv.3_Missense_Mutation_p.A220T	NM_001142310	NP_001135782	Q96HH4	TM169_HUMAN	transmembrane protein 169	220	Helical; (Potential).					integral to membrane				ovary(1)	1		Renal(323;0.0651)		Epithelial(149;6.44e-06)|all cancers(144;0.000398)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GCTCATCATGGCCATGGCTTC	0.547													55	135					0	0	1	0	0		A	216965029	A	A	216965029	3	1	211	1	0	0	0	0	1	0	0	0	16109	1203	42	2	664	2	TMEM169	2	216965029	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	690667	216965029	26234344	292	102171											
PNKD	25953	broad.mit.edu	37	chr2	219209543	219209543	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acccacagtgcccatctaccCtgggagaggagcgctcctac	9	6	10	16	1	1	1	0	0	1	1	2	3	2	2	4	2	4	1	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:219209543C>A	uc002vhn.2	+	10	1141	c.997C>A	c.(997-999)CTG>ATG	p.L333M	PNKD_uc002vhq.2_Missense_Mutation_p.L309M	NM_015488	NP_056303	Q8N490	PNKD_HUMAN	myofibrillogenesis regulator 1 isoform 1	333						membrane|mitochondrion|nucleus	hydroxyacylglutathione hydrolase activity|zinc ion binding				0		Renal(207;0.0474)		Epithelial(149;7.33e-07)|all cancers(144;0.000133)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCCATCTACCCTGGGAGAGGA	0.632													45	225					1.72184e-34	1.9042e-34	1	1	0		A	219209543	A	A	219209543	3	1	211	1	0	0	0	0	1	0	0	0	12165	680	24	5	1400	5	PNKD	2	219209543	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2244514	219209543	23989830	293	102172											
VIL1	7429	broad.mit.edu	37	chr2	219295520	219295520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgatggggctgagtcggccGtctttcagcagctcttccag	6	11	13	11	2	3	2	1	2	2	0	5	2	4	2	2	3	2	3	2	3	0	2	rs150670051		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:219295520G>A	uc002via.2	+	10	1086	c.1021G>A	c.(1021-1023)GTC>ATC	p.V341I	VIL1_uc010zke.1_Missense_Mutation_p.V30I|VIL1_uc002vib.2_Missense_Mutation_p.V341I|VIL1_uc002vic.1_Missense_Mutation_p.V341I	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	341	Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAGTCGGCCGTCTTTCAGCA	0.602													22	45					0	0	1	0	0		A	219295520	A	A	219295520	3	1	211	1	0	0	0	0	1	0	0	0	17190	1145	40	1	1055	1	VIL1	2	219295520	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	85977	219295520	23903853	294	102173											
TTLL4	9654	broad.mit.edu	37	chr2	219614783	219614783	+	Silent	SNP	T	C	C	0	1	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	atcaaaggccagatgattcgTgaccttctgaatctggcagg	11	10	11	9	1	3	4	1	3	2	1	4	4	3	4	2	3	0	1	2	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:219614783T>C	uc002viy.2	+	15	3157	c.2787T>C	c.(2785-2787)CGT>CGC	p.R929R	TTLL4_uc010zkl.1_Silent_p.R764R|TTLL4_uc010fvx.2_Silent_p.R865R|TTLL4_uc010zkm.1_Silent_p.R132R	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	929	TTL.				protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		AGATGATTCGTGACCTTCTGA	0.512													46	166					0	0	1	0	0		C	219614783	C	C	219614783	2	2	211	1	0	0	0	0	0	0	0	1	16755	1683	59	3		3	TTLL4	2	219614783	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	319263	219614783	23584590	295	102174											
ATG9A	79065	broad.mit.edu	37	chr2	220088634	220088634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaactcgtcccgggtctgcGagcggtgggcattaccctgc	6	8	13	14	4	1	0	0	0	1	0	3	1	2	0	2	3	5	1	2	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:220088634G>A	uc002vke.1	-	9	1562	c.1376C>T	c.(1375-1377)TCG>TTG	p.S459L	ATG9A_uc002vkd.1_Intron|ATG9A_uc002vkf.1_Missense_Mutation_p.S459L	NM_001077198	NP_001070666	Q7Z3C6	ATG9A_HUMAN	APG9 autophagy 9-like 1	459	Lumenal (By similarity).				autophagic vacuole assembly|protein transport	autophagic vacuole membrane|cytoplasmic vesicle|Golgi apparatus|integral to membrane|late endosome membrane				skin(1)	1		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)		CCGGGTCTGCGAGCGGTGGGC	0.612													25	84					0	0	1	0	0		A	220088634	A	A	220088634	3	1	211	1	0	0	0	0	1	0	0	0	1103	1059	37	1	1175	1	ATG9A	2	220088634	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	473851	220088634	23110739	296	102175											
SPEG	10290	broad.mit.edu	37	chr2	220348545	220348545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccccaccaccagcccccactCgagaaccggggcctgcaaaa	11	2	8	20	2	0	1	0	0	0	1	1	2	0	1	8	2	3	1	8	2	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:220348545C>T	uc010fwg.2	+	30	6360	c.6360C>T	c.(6358-6360)CTC>CTT	p.L2120L		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2120					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		AGCCCCCACTCGAGAACCGGG	0.587													5	3					0	0	1	0	0		T	220348545	T	T	220348545	2	4	211	1	0	0	0	0	0	0	0	1	15061	871	31	1		1	SPEG	2	220348545	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	259911	220348545	22850828	297	102176											
KIAA1486	57624	broad.mit.edu	37	chr2	226378307	226378307	+	Missense_Mutation	SNP	A	G	G	1	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	ccaaacccaagagggaccccAgcaccaagctgagcacctca	14	2	8	17	0	1	2	1	1	0	1	1	3	1	3	6	1	4	3	6	1	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:226378307A>G	uc002voe.2	+	3	617	c.442A>G	c.(442-444)AGC>GGC	p.S148G	KIAA1486_uc010fxa.1_Intron	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	148										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GAGGGACCCCAGCACCAAGCT	0.572													14	30					0	0	1	0	0		G	226378307	G	G	226378307	3	3	211	1	0	0	0	0	1	0	0	0	8253	188	7	3	448	3	KIAA1486	2	226378307	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	6029762	226378307	16821066	298	102177											
COL4A3	1285	broad.mit.edu	37	chr2	228173957	228173957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcctgcgatcgccatagccGttcacagccaaaccactgac	10	7	8	16	3	1	1	1	1	0	0	3	2	2	1	5	0	4	1	5	0	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:228173957G>A	uc002vom.1	+	50	4840	c.4678G>A	c.(4678-4680)GTT>ATT	p.V1560I	COL4A3_uc002von.1_Missense_Mutation_p.V1560I|COL4A3_uc002voo.1_Intron|COL4A3_uc002vop.1_Intron|uc002voq.1_Intron|uc002vor.1_Intron|COL4A3_uc010fxf.1_5'UTR	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1560	Collagen IV NC1.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		CGCCATAGCCGTTCACAGCCA	0.483													19	41					0	0	1	0	0		A	228173957	A	A	228173957	3	1	211	1	0	0	0	0	1	0	0	0	3694	1145	40	1	4876	1	COL4A3	2	228173957	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1795650	228173957	15025416	299	102178											
SPHKAP	80309	broad.mit.edu	37	chr2	228882972	228882972	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggaaccacttctggactgGctgaccgttggggacctttg	6	11	14	10	1	1	1	0	1	1	0	1	4	1	4	3	5	1	2	3	5	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:228882972G>A	uc002vpq.2	-	7	2645	c.2598C>T	c.(2596-2598)AGC>AGT	p.S866S	SPHKAP_uc002vpp.2_Silent_p.S866S|SPHKAP_uc010zlx.1_Silent_p.S866S	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	866						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		TTCTGGACTGGCTGACCGTTG	0.488													44	118					0	0	1	0	0		A	228882972	A	A	228882972	2	1	211	1	0	0	0	0	0	0	0	1	15073	1194	42	2		2	SPHKAP	2	228882972	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	709015	228882972	14316401	300	102179											
DNER	92737	broad.mit.edu	37	chr2	230456366	230456366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaggtaggcagtgtcaccGttgcctgagagcgaggcagg	8	6	17	10	2	1	1	1	1	0	1	1	3	1	1	3	4	2	4	3	4	1	2	rs143332732	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:230456366G>A	uc002vpv.2	-	2	662	c.515C>T	c.(514-516)ACG>ATG	p.T172M		NM_139072	NP_620711	Q8NFT8	DNER_HUMAN	delta-notch-like EGF repeat-containing	172	Extracellular (Potential).				central nervous system development|endocytosis|neuron migration|Notch signaling pathway|synapse assembly	dendrite|early endosome|integral to membrane|plasma membrane	calcium ion binding|clathrin binding|transmembrane receptor activity			lung(5)|ovary(2)|skin(1)	8		all_lung(227;0.00413)|Renal(207;0.0113)|Lung NSC(271;0.0211)|all_hematologic(139;0.105)|Acute lymphoblastic leukemia(138;0.175)		Epithelial(121;1.4e-11)|all cancers(144;7.7e-09)|LUSC - Lung squamous cell carcinoma(224;0.034)|Lung(119;0.0375)		CAGTGTCACCGTTGCCTGAGA	0.527													19	58					0	0	1	0	0		A	230456366	A	A	230456366	3	1	211	1	0	0	0	0	1	0	0	0	4673	1145	40	1	1746	1	DNER	2	230456366	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1573394	230456366	12743007	301	102180											
GPR55	9290	broad.mit.edu	37	chr2	231775353	231775353	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgaagcagatggtgaagaCgcttccgtacatgctgacga	12	8	13	8	3	0	5	0	3	0	2	1	7	1	5	1	1	3	4	1	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:231775353C>T	uc002vrg.2	-	2	518	c.325G>A	c.(325-327)GTC>ATC	p.V109I	GPR55_uc002vrf.2_RNA|GPR55_uc010fxs.1_Missense_Mutation_p.V109I	NM_005683	NP_005674	Q9Y2T6	GPR55_HUMAN	G protein-coupled receptor 55	109	Helical; Name=3; (Potential).				activation of phospholipase C activity|bone resorption|negative regulation of osteoclast differentiation|positive regulation of ERK1 and ERK2 cascade|positive regulation of Rho protein signal transduction	integral to plasma membrane	cannabinoid receptor activity			ovary(1)	1		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)		ATGGTGAAGACGCTTCCGTAC	0.582													16	38					0	0	1	0	0		T	231775353	T	T	231775353	3	4	211	1	0	0	0	0	1	0	0	0	6714	536	19	1	638	1	GPR55	2	231775353	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1318987	231775353	11424020	302	102181											
DIS3L2	129563	broad.mit.edu	37	chr2	232880239	232880239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tctaggtgtgtctgctgtggCtggtccacatgacattggtg	5	14	14	8	0	2	1	0	1	2	0	3	1	3	1	1	4	1	2	1	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:232880239C>T	uc010fxz.2	+	3	344	c.68C>T	c.(67-69)GCT>GTT	p.A23V	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vsn.1_Missense_Mutation_p.A23V	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	23							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		TCTGCTGTGGCTGGTCCACAT	0.403													22	64					0	0	1	0	0		T	232880239	T	T	232880239	3	4	211	1	0	0	0	0	1	0	0	0	4543	797	28	2	74	2	DIS3L2	2	232880239	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1104886	232880239	10319134	303	102182											
DIS3L2	129563	broad.mit.edu	37	chr2	233199145	233199145	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggaccactgtaacgaccGccgcatggcgtccaagcgcg	8	4	14	15	7	0	0	0	0	0	0	1	2	1	1	4	3	2	2	4	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:233199145G>A	uc010fxz.2	+	18	2501	c.2225G>A	c.(2224-2226)CGC>CAC	p.R742H	DIS3L2_uc002vsm.3_RNA|DIS3L2_uc002vso.2_RNA|DIS3L2_uc002vsp.1_5'Flank	NM_152383	NP_689596	Q8IYB7	DI3L2_HUMAN	DIS3 mitotic control homolog (S.	742							exonuclease activity|ribonuclease activity|RNA binding			ovary(1)|breast(1)|central_nervous_system(1)	3		all_hematologic(139;0.00809)|Renal(207;0.0113)|Acute lymphoblastic leukemia(138;0.0195)|all_lung(227;0.0465)|Lung NSC(271;0.136)		Epithelial(121;1.6e-13)|BRCA - Breast invasive adenocarcinoma(100;0.00104)|LUSC - Lung squamous cell carcinoma(224;0.0109)|Lung(119;0.0149)		TGTAACGACCGCCGCATGGCG	0.617													15	39					0	0	1	0	0		A	233199145	A	A	233199145	3	1	211	1	0	0	0	0	1	0	0	0	4543	1087	38	1	2291	1	DIS3L2	2	233199145	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	318906	233199145	10000228	304	102183											
UGT1A5	54579	broad.mit.edu	37	chr2	234622259	234622259	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcagaccacatgacattcCtgcaaagggtcaagaacatg	15	8	8	10	0	2	3	2	1	0	2	3	3	3	3	2	1	2	1	2	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:234622259C>A	uc002vuw.2	+	1	622	c.622C>A	c.(622-624)CTG>ATG	p.L208M	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Missense_Mutation_p.L208M	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	208					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		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)		CATGACATTCCTGCAAAGGGT	0.463													43	99					3.31993e-32	3.66778e-32	1	1	0		A	234622259	A	A	234622259	3	1	211	1	0	0	0	0	1	0	0	0	16974	680	24	5	624	5	UGT1A5	2	234622259	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1423114	234622259	8577114	305	102184											
UGT1A4	54657	broad.mit.edu	37	chr2	234627640	234627640	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catgccagaggccaccaggcGgtggtcctcaccccagaggt	8	5	13	15	1	1	2	1	0	0	2	2	2	2	2	6	5	1	0	6	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:234627640G>A	uc002vux.2	+	1	203	c.174G>A	c.(172-174)GCG>GCA	p.A58A	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Silent_p.A58A	NM_007120	NP_009051	P22310	UD14_HUMAN	UDP glycosyltransferase 1 family, polypeptide A4	58					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;3.49e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000504)|Lung(119;0.0026)|LUSC - Lung squamous cell carcinoma(224;0.00624)	Imipramine(DB00458)|Lamotrigine(DB00555)|Paricalcitol(DB00910)|Trifluoperazine(DB00831)	GCCACCAGGCGGTGGTCCTCA	0.577													12	42					0	0	1	0	0		A	234627640	A	A	234627640	2	1	211	1	0	0	0	0	0	0	0	1	16973	1103	39	1		1	UGT1A4	2	234627640	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5381	234627640	8571733	306	102185											
DNAJB3	414061	broad.mit.edu	37	chr2	234652344	234652344	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcctgtgcagccgccctcCgcccccgcctcgccatagcg	3	5	10	23	6	0	0	0	0	0	0	2	0	1	0	9	0	3	1	9	0	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:234652344C>T	uc002vuz.2	-	1	318	c.219G>A	c.(217-219)GCG>GCA	p.A73A	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron	NM_001001394	NP_001001394	Q8WWF6	DNJB3_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 3	73					protein folding		heat shock protein binding|unfolded protein binding				0						AGCCGCCCTCCGCCCCCGCCT	0.647													49	125					0	0	1	0	0		T	234652344	T	T	234652344	2	4	211	1	0	0	0	0	0	0	0	1	4627	639	23	1		1	DNAJB3	2	234652344	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	24704	234652344	8547029	307	102186											
UGT1A5	54579	broad.mit.edu	37	chr2	234676526	234676526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtacactggaacccgaccatCgaatcttgcgaacaacacga	14	6	8	13	4	1	0	0	0	1	0	2	5	1	1	2	1	5	1	2	1	5	2	rs144978321		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:234676526C>T	uc002vuw.2	+	3	1031	c.1031C>T	c.(1030-1032)TCG>TTG	p.S344L	UGT1A8_uc010zmv.1_Missense_Mutation_p.S340L|UGT1A8_uc002vup.2_Missense_Mutation_p.S340L|UGT1A10_uc002vuq.3_Missense_Mutation_p.S340L|UGT1A10_uc002vur.2_Missense_Mutation_p.S340L|UGT1A9_uc010zmw.1_Missense_Mutation_p.S340L|UGT1A9_uc002vus.2_Missense_Mutation_p.S340L|UGT1A7_uc010zmx.1_Missense_Mutation_p.S340L|UGT1A7_uc002vut.2_Missense_Mutation_p.S340L|UGT1A6_uc002vuu.2_Missense_Mutation_p.S75L|UGT1A6_uc010zmy.1_Missense_Mutation_p.S342L|UGT1A6_uc002vuv.3_Missense_Mutation_p.S342L|UGT1A5_uc010zmz.1_Missense_Mutation_p.S344L|UGT1A4_uc010zna.1_Missense_Mutation_p.S344L|UGT1A4_uc002vux.2_Missense_Mutation_p.S344L|UGT1A3_uc010znb.1_Missense_Mutation_p.S344L|UGT1A3_uc002vuy.2_Missense_Mutation_p.S344L|UGT1A9_uc002vva.2_RNA|UGT1A1_uc010znc.1_Missense_Mutation_p.S343L|UGT1A1_uc002vvb.2_Missense_Mutation_p.S343L	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	344					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		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)		ACCCGACCATCGAATCTTGCG	0.448													24	99					0	0	1	0	0		T	234676526	T	T	234676526	3	4	211	1	0	0	0	0	1	0	0	0	16974	893	31	1	1041	1	UGT1A5	2	234676526	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	24182	234676526	8522847	308	102187											
AGAP1	116987	broad.mit.edu	37	chr2	236626247	236626247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caagtctgccctggtgcaccGgtacctgacgggcacatatg	8	8	12	13	2	1	1	0	1	1	0	1	1	1	1	3	3	3	3	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:236626247G>A	uc002vvs.2	+	3	864	c.269G>A	c.(268-270)CGG>CAG	p.R90Q	AGAP1_uc002vvt.2_Missense_Mutation_p.R90Q	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	90	Small GTPase-like.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						CTGGTGCACCGGTACCTGACG	0.463													17	60					0	0	1	0	0		A	236626247	A	A	236626247	3	1	211	1	0	0	0	0	1	0	0	0	366	1116	39	1	279	1	AGAP1	2	236626247	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1949721	236626247	6573126	309	102188											
CXCR7	57007	broad.mit.edu	37	chr2	237490003	237490003	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccctcttcacggccctgcatGtcacacagtgcctgtcgctg	5	10	9	17	2	3	0	2	0	1	0	4	0	3	0	3	1	2	2	3	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:237490003G>A	uc010fyq.2	+	3	1125	c.895G>A	c.(895-897)GTC>ATC	p.V299I	CXCR7_uc002vwd.2_Missense_Mutation_p.V299I	NM_020311	NP_064707	P25106	CXCR7_HUMAN	chemokine orphan receptor 1	299	Helical; Name=7; (Potential).				interspecies interaction between organisms	integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			large_intestine(1)|central_nervous_system(1)|skin(1)	3		Breast(86;0.000182)|Renal(207;0.00339)|all_hematologic(139;0.0048)|Acute lymphoblastic leukemia(138;0.0775)|Ovarian(221;0.089)|all_lung(227;0.147)|all_neural(83;0.223)		Epithelial(121;8.35e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.09e-11)|Kidney(56;1.11e-07)|KIRC - Kidney renal clear cell carcinoma(57;3.03e-06)|BRCA - Breast invasive adenocarcinoma(100;0.000176)|Lung(119;0.00468)|LUSC - Lung squamous cell carcinoma(224;0.008)|COAD - Colon adenocarcinoma(134;0.118)		GGCCCTGCATGTCACACAGTG	0.582													24	60					0	0	1	0	0		A	237490003	A	A	237490003	3	1	211	1	0	0	0	0	1	0	0	0	4099	1377	48	4	897	4	CXCR7	2	237490003	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	863756	237490003	5709370	310	102189											
COL6A3	1293	broad.mit.edu	37	chr2	238296700	238296700	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aactggaccacccccactcgGatctgctgagttccaattgg	9	9	9	14	1	1	1	0	1	1	0	3	3	2	3	4	3	2	2	4	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:238296700G>C	uc002vwl.2	-	4	1122	c.837C>G	c.(835-837)ATC>ATG	p.I279M	COL6A3_uc002vwo.2_Missense_Mutation_p.I73M|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwq.2_Missense_Mutation_p.I73M|COL6A3_uc002vwr.2_Intron|COL6A3_uc010znk.1_Missense_Mutation_p.I279M	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	279	VWFA 2.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CCCCCACTCGGATCTGCTGAG	0.502													22	76					0	0	1	0	0		C	238296700	C	C	238296700	3	2	211	1	0	0	0	0	1	0	0	0	3704	1164	41	5	8907	5	COL6A3	2	238296700	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	806697	238296700	4902673	311	102190											
TRAF3IP1	26146	broad.mit.edu	37	chr2	239237867	239237867	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagactgagagacagggacCgagagcgcgaccgggacaaa	15	1	16	9	4	0	4	0	1	0	3	0	10	0	6	2	2	1	0	2	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:239237867C>T	uc002vye.2	+	5	918	c.799C>T	c.(799-801)CGA>TGA	p.R267*	TRAF3IP1_uc002vyf.2_Nonsense_Mutation_p.R267*	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	267	Abolishes microtubules-binding when missing.|DISC1-interaction domain.|Arg-rich.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)		agacagggaccgagagcgcga	0.114													6	23					0	0	1	0	0		T	239237867	T	T	239237867	4	4	211	1	0	0	0	0	0	1	0	0	16466	644	23	1	817	1	TRAF3IP1	2	239237867	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	941167	239237867	3961506	312	102191											
HDAC4	9759	broad.mit.edu	37	chr2	240111758	240111758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccacttgcagaggcagcGccgtggccacatccactgtg	7	6	14	14	2	0	1	0	0	0	1	1	1	1	1	4	3	2	2	4	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:240111758G>A	uc002vyk.3	-	4	902	c.110C>T	c.(109-111)GCG>GTG	p.A37V	HDAC4_uc010fyz.1_Missense_Mutation_p.A32V|HDAC4_uc010zoa.1_Missense_Mutation_p.A32V|HDAC4_uc010fza.2_Missense_Mutation_p.A37V|HDAC4_uc002vyl.1_RNA|HDAC4_uc010fyy.2_5'UTR	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	37					B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CAGAGGCAGCGCCGTGGCCAC	0.677													19	29					0	0	1	0	0		A	240111758	A	A	240111758	3	1	211	1	0	0	0	0	1	0	0	0	7025	1087	38	1	3240	1	HDAC4	2	240111758	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	873891	240111758	3087615	313	102192											
CAPN10	11132	broad.mit.edu	37	chr2	241534459	241534459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagaggctgctctgccataCgcgggcgctgcctggggcct	5	7	16	13	3	1	1	0	0	1	1	1	2	1	1	3	4	4	3	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:241534459C>T	uc002vzk.1	+	7	1200	c.1016C>T	c.(1015-1017)ACG>ATG	p.T339M	CAPN10_uc010zoh.1_Missense_Mutation_p.T339M|CAPN10_uc002vzl.1_Missense_Mutation_p.T339M|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Missense_Mutation_p.T211M|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	339	Domain III 1.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		CTCTGCCATACGCGGGCGCTG	0.642													21	49					0	0	1	0	0		T	241534459	T	T	241534459	3	4	211	1	0	0	0	0	1	0	0	0	2626	536	19	1	1042	1	CAPN10	2	241534459	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1422701	241534459	1664914	314	102193											
CAPN10	11132	broad.mit.edu	37	chr2	241537333	241537333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggtggaaggagccaggacgCacccccactgctgctgcagg	8	4	16	13	1	0	0	0	0	0	0	0	3	0	3	3	5	4	4	3	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:241537333C>T	uc002vzk.1	+	10	1956	c.1772C>T	c.(1771-1773)GCA>GTA	p.A591V	CAPN10_uc002vzl.1_Missense_Mutation_p.A436V|CAPN10_uc002vzm.1_Missense_Mutation_p.A57V|CAPN10_uc002vzn.1_Missense_Mutation_p.A463V|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_RNA|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	591	Domain III 2.				actin cytoskeleton reorganization|cellular response to insulin stimulus|positive regulation of apoptosis|positive regulation of glucose import|positive regulation of insulin secretion|positive regulation of intracellular transport|proteolysis	cytosol|plasma membrane	calcium-dependent cysteine-type endopeptidase activity|cytoskeletal protein binding|SNARE binding			ovary(3)|large_intestine(2)|lung(1)	6		all_epithelial(40;1.72e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|all_neural(83;0.0459)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;1.13e-31)|all cancers(36;3.24e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.82e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;5.1e-06)|Lung(119;0.00168)|Colorectal(34;0.00495)|LUSC - Lung squamous cell carcinoma(224;0.00813)|COAD - Colon adenocarcinoma(134;0.032)		AGCCAGGACGCACCCCCACTG	0.687													6	9					0	0	1	0	0		T	241537333	T	T	241537333	3	4	211	1	0	0	0	0	1	0	0	0	2626	710	25	2	1810	2	CAPN10	2	241537333	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2874	241537333	1662040	315	102194											
AGXT	189	broad.mit.edu	37	chr2	241817502	241817502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatgactggagagacatcGtcagctacgtcatagaccac	12	8	10	11	2	2	3	2	1	0	2	3	5	2	4	1	1	2	2	1	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:241817502G>A	uc002waa.3	+	10	1127	c.1006G>A	c.(1006-1008)GTC>ATC	p.V336I	AGXT_uc002wab.3_Missense_Mutation_p.V214I	NM_000030	NP_000021	P21549	SPYA_HUMAN	alanine-glyoxylate aminotransferase	336			V -> D (in HP1).		glyoxylate metabolic process|protein targeting to peroxisome	mitochondrial matrix|peroxisomal matrix	alanine-glyoxylate transaminase activity|protein homodimerization activity|pyridoxal phosphate binding|serine-pyruvate transaminase activity				0		all_epithelial(40;1.61e-15)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)	Glycine(DB00145)|L-Alanine(DB00160)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	GAGAGACATCGTCAGCTACGT	0.617													19	45					0	0	1	0	0		A	241817502	A	A	241817502	3	1	211	1	0	0	0	0	1	0	0	0	404	1145	40	1	1044	1	AGXT	2	241817502	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	280169	241817502	1381871	316	102195											
C2orf54	79919	broad.mit.edu	37	chr2	241826549	241826549	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctctgcatggcagagatccGgtccttatcctggatgttga	7	12	12	10	1	1	2	0	1	1	1	4	4	4	3	3	3	1	4	3	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:241826549G>A	uc002wae.3	-	5	1441	c.1282C>T	c.(1282-1284)CGG>TGG	p.R428W	C2orf54_uc002wac.2_Missense_Mutation_p.R260W|C2orf54_uc002wad.2_Missense_Mutation_p.R279W	NM_001085437	NP_001078906	Q08AI8	CB054_HUMAN	hypothetical protein LOC79919 isoform 1	428											0		all_epithelial(40;3.99e-16)|Breast(86;2.35e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0294)|Lung NSC(271;0.094)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;8.14e-32)|all cancers(36;4.77e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;4.88e-06)|Lung(119;0.000452)|LUSC - Lung squamous cell carcinoma(224;0.00415)|Colorectal(34;0.021)|COAD - Colon adenocarcinoma(134;0.15)		GCAGAGATCCGGTCCTTATCC	0.592													17	69					0	0	1	0	0		A	241826549	A	A	241826549	3	1	211	1	0	0	0	0	1	0	0	0	2178	1115	39	1	65	1	C2orf54	2	241826549	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	9047	241826549	1372824	317	102196											
ATG4B	23192	broad.mit.edu	37	chr2	242606145	242606145	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgcaacggattccctgcCggagctgaggtcaccaacag	10	6	11	14	2	1	1	1	1	0	0	2	3	2	3	3	3	5	2	3	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:242606145C>T	uc002wbv.2	+	8	727	c.624C>T	c.(622-624)GCC>GCT	p.A208A	ATG4B_uc002wbu.2_Silent_p.A134A|ATG4B_uc002wbw.2_Silent_p.A208A|ATG4B_uc010zox.1_Silent_p.A194A|ATG4B_uc010zoy.1_Silent_p.A134A|ATG4B_uc010fzp.2_Silent_p.A208A|ATG4B_uc010zoz.1_Silent_p.A134A|ATG4B_uc002wby.2_5'Flank	NM_013325	NP_037457	Q9Y4P1	ATG4B_HUMAN	APG4 autophagy 4 homolog B isoform a	208					autophagic vacuole assembly|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.44e-33)|all cancers(36;5.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.75e-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;0.0848)		GATTCCCTGCCGGAGCTGAGG	0.617													3	18					0	0	1	0	0		T	242606145	T	T	242606145	2	4	211	1	0	0	0	0	0	0	0	1	1098	639	23	1		1	ATG4B	2	242606145	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	779596	242606145	593228	318	102197											
ATG4B	23192	broad.mit.edu	37	chr2	242608088	242608088	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatcgcggagcttgacccGtccatcgctgtggtacgtgg	6	9	14	12	5	0	1	0	1	0	0	3	2	1	2	2	3	3	4	2	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:242608088G>A	uc002wbv.2	+	10	1048	c.945G>A	c.(943-945)CCG>CCA	p.P315P	ATG4B_uc002wbu.2_Silent_p.P241P|ATG4B_uc002wbw.2_Silent_p.P315P|ATG4B_uc010zox.1_Silent_p.P301P|ATG4B_uc010zoy.1_Silent_p.P241P|ATG4B_uc010fzp.2_Silent_p.P315P|ATG4B_uc010zoz.1_Silent_p.P241P|ATG4B_uc002wby.2_Silent_p.P68P	NM_013325	NP_037457	Q9Y4P1	ATG4B_HUMAN	APG4 autophagy 4 homolog B isoform a	315					autophagic vacuole assembly|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.44e-33)|all cancers(36;5.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.75e-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;0.0848)		AGCTTGACCCGTCCATCGCTG	0.592													3	4					0	0	1	0	0		A	242608088	A	A	242608088	2	1	211	1	0	0	0	0	0	0	0	1	1098	1132	40	1		1	ATG4B	2	242608088	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1943	242608088	591285	319	102198											
ATG4B	23192	broad.mit.edu	37	chr2	242610802	242610802	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacatctggcctgccccgacGtcctgaacctgtccctaggt	6	9	9	17	2	1	1	0	1	1	0	3	2	3	1	6	2	2	0	6	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:242610802G>A	uc002wbv.2	+	12	1193	c.1090G>A	c.(1090-1092)GTC>ATC	p.V364I	ATG4B_uc002wbu.2_Missense_Mutation_p.V290I|ATG4B_uc002wbw.2_Missense_Mutation_p.V364I|ATG4B_uc010zox.1_Missense_Mutation_p.V350I|ATG4B_uc010zoy.1_Missense_Mutation_p.V290I|ATG4B_uc010fzp.2_Missense_Mutation_p.V364I|ATG4B_uc010zoz.1_Missense_Mutation_p.V290I|ATG4B_uc002wby.2_Missense_Mutation_p.V117I	NM_013325	NP_037457	Q9Y4P1	ATG4B_HUMAN	APG4 autophagy 4 homolog B isoform a	364					autophagic vacuole assembly|protein transport|proteolysis	cytoplasm	cysteine-type peptidase activity|protein binding				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;2.44e-33)|all cancers(36;5.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.75e-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;0.0848)		CTGCCCCGACGTCCTGAACCT	0.607													3	24					0	0	1	0	0		A	242610802	A	A	242610802	3	1	211	1	0	0	0	0	1	0	0	0	1098	1145	40	1	1136	1	ATG4B	2	242610802	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2714	242610802	588571	320	102199											
GAL3ST2	64090	broad.mit.edu	37	chr2	242742903	242742903	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggacgcgttcctggcctcGccgcggacgttctacaacga	6	8	12	15	7	1	0	0	0	1	0	3	3	2	2	3	3	2	2	3	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr2:242742903G>A	uc002wcj.1	+	4	650	c.519G>A	c.(517-519)TCG>TCA	p.S173S		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	173	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		TCCTGGCCTCGCCGCGGACGT	0.632													7	14					0	0	1	0	0		A	242742903	A	A	242742903	2	1	211	1	0	0	0	0	0	0	0	1	6213	1074	38	1		1	GAL3ST2	2	242742903	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	132101	242742903	456470	321	102200											
LHFPL4	375323	broad.mit.edu	37	chr3	9547708	9547708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtttgccggttgcccagcaCgaaggcgaggaaggagagga	10	6	17	8	3	0	1	0	0	0	1	0	6	0	3	2	5	3	3	2	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:9547708C>T	uc003bry.2	-	3	872	c.586G>A	c.(586-588)GTG>ATG	p.V196M		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	196	Helical; (Potential).					integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					TTGCCCAGCACGAAGGCGAGG	0.647													37	82					0	0	1	0	0		T	9547708	T	T	9547708	3	4	211	1	0	0	0	0	1	0	0	0	8783	536	19	1	165	1	LHFPL4	3	9547708	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		9547708	188474722	322	102201											
LHFPL4	375323	broad.mit.edu	37	chr3	9594083	9594083	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcacgaagaaggcggccGccttgaaggcgctggacggg	9	3	18	11	5	0	2	0	1	0	1	0	4	0	3	2	5	1	3	2	5	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:9594083G>A	uc003bry.2	-	2	567	c.281C>T	c.(280-282)GCG>GTG	p.A94V		NM_198560	NP_940962	Q7Z7J7	LHPL4_HUMAN	lipoma HMGIC fusion partner-like 4	94						integral to membrane				ovary(2)|skin(1)	3	Medulloblastoma(99;0.227)					GAAGGCGGCCGCCTTGAAGGC	0.622													16	41					0	0	1	0	0		A	9594083	A	A	9594083	3	1	211	1	0	0	0	0	1	0	0	0	8783	1087	38	1	474	1	LHFPL4	3	9594083	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	46375	9594083	188428347	323	102202											
MTMR14	64419	broad.mit.edu	37	chr3	9710417	9710417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccagcacatttgcaggtcGgccacactggctggatgggg	7	8	14	12	1	0	0	0	0	0	0	2	1	1	1	2	6	2	3	2	6	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:9710417G>A	uc003brz.2	+	4	556	c.432G>A	c.(430-432)TCG>TCA	p.S144S	MTMR14_uc003bsa.2_Silent_p.S144S|MTMR14_uc003bsb.2_Silent_p.S144S|MTMR14_uc011ath.1_Intron|MTMR14_uc010hcl.2_Intron|MTMR14_uc003bsc.2_RNA	NM_001077525	NP_001070993	Q8NCE2	MTMRE_HUMAN	jumpy isoform 2	144						perinuclear region of cytoplasm|ruffle	phosphatidylinositol-3-phosphatase activity|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(99;0.227)					TTTGCAGGTCGGCCACACTGG	0.478													25	92					0	0	1	0	0		A	9710417	A	A	9710417	2	1	211	1	0	0	0	0	0	0	0	1	9960	1103	39	1		1	MTMR14	3	9710417	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	116334	9710417	188312013	324	102203											
OGG1	4968	broad.mit.edu	37	chr3	9807580	9807580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgagaaggcccccctatcGggagaggggattcacaaggt	10	6	14	11	2	1	2	1	0	0	2	3	5	2	3	4	5	0	0	4	5	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:9807580G>A	uc003bsm.2	+	7	1379	c.1036G>A	c.(1036-1038)GGG>AGG	p.G346R	OGG1_uc003bsk.2_3'UTR|OGG1_uc003bsl.2_3'UTR|OGG1_uc003bsn.2_Missense_Mutation_p.G279R|OGG1_uc003bso.2_3'UTR|CAMK1_uc003bst.2_Intron|CAMK1_uc003bsu.2_Intron	NM_016821	NP_058214	O15527	OGG1_HUMAN	8-oxoguanine DNA-glycosylase 1 isoform 2a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					depurination|nucleotide-excision repair|regulation of protein import into nucleus, translocation|regulation of transcription, DNA-dependent|response to oxidative stress|response to radiation	mitochondrion|nuclear matrix|nuclear speck	damaged DNA binding|endonuclease activity|oxidized purine base lesion DNA N-glycosylase activity|protein binding				0	Medulloblastoma(99;0.227)					CCCCCCTATCGGGAGAGGGGA	0.582								BER_DNA_glycosylases					18	56					0	0	1	0	0		A	9807580	A	A	9807580	3	1	211	1	0	0	0	0	1	0	0	0	10864	1116	39	1	1482	1	OGG1	3	9807580	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	97163	9807580	188214850	325	102204											
TADA3	10474	broad.mit.edu	37	chr3	9822135	9822135	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggagtccgcttcttctgcCgggcagccatgatcttgcga	5	11	13	12	3	3	1	0	1	3	0	4	3	4	2	3	2	3	2	3	2	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:9822135C>T	uc003bsx.1	-	9	1753	c.1205G>A	c.(1204-1206)CGG>CAG	p.R402Q	TADA3_uc010hcn.1_Missense_Mutation_p.R402Q|TADA3_uc003bsw.1_Missense_Mutation_p.R231Q	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3 isoform a	402	Potential.				estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0						CTTCTTCTGCCGGGCAGCCAT	0.602													15	53					0	0	1	0	0		T	9822135	T	T	9822135	3	4	211	1	0	0	0	0	1	0	0	0	15537	652	23	1	97	1	TADA3	3	9822135	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	14555	9822135	188200295	326	102205											
ATP2B2	491	broad.mit.edu	37	chr3	10387187	10387187	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccccacatcactgccttgaCgatgctgctgaaattgtcgt	8	11	9	13	2	1	2	1	2	0	0	2	3	1	2	3	0	3	2	3	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:10387187C>T	uc003bvt.2	-	18	3023	c.2584G>A	c.(2584-2586)GTC>ATC	p.V862I	ATP2B2_uc003bvv.2_Missense_Mutation_p.V817I|ATP2B2_uc003bvw.2_Missense_Mutation_p.V817I|ATP2B2_uc010hdo.2_Missense_Mutation_p.V567I	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	862	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						ACTGCCTTGACGATGCTGCTG	0.577													22	46					0	0	1	0	0		T	10387187	T	T	10387187	3	4	211	1	0	0	0	0	1	0	0	0	1141	536	19	1	1171	1	ATP2B2	3	10387187	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	565052	10387187	187635243	327	102206											
IQSEC1	9922	broad.mit.edu	37	chr3	12978054	12978054	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgttggacagcacaatccgGcgtgacatgcggttctctga	9	10	12	10	3	1	2	0	2	1	0	3	3	2	3	1	3	2	3	1	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:12978054G>A	uc003bxt.2	-	3	513	c.504C>T	c.(502-504)CGC>CGT	p.R168R	IQSEC1_uc003bxu.3_Silent_p.R46R|IQSEC1_uc011auw.1_Silent_p.R154R	NM_014869	NP_055684	Q6DN90	IQEC1_HUMAN	IQ motif and Sec7 domain 1 isoform b	168					regulation of ARF protein signal transduction	cytoplasm|nucleus	ARF guanyl-nucleotide exchange factor activity			ovary(1)	1						GCACAATCCGGCGTGACATGC	0.572													5	39					0	0	1	0	0		A	12978054	A	A	12978054	2	1	211	1	0	0	0	0	0	0	0	1	7833	1190	42	2		2	IQSEC1	3	12978054	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2590867	12978054	185044376	328	102207											
NUP210	23225	broad.mit.edu	37	chr3	13363234	13363234	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctctgtggagaagtggctgcTggagagggaggcactgacca	9	7	17	8	0	1	3	0	1	1	2	1	6	1	4	1	5	1	3	1	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:13363234T>C	uc003bxv.1	-	36	5100	c.5017A>G	c.(5017-5019)AGC>GGC	p.S1673G		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1673	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					AAGTGGCTGCTGGAGAGGGAG	0.582													51	179					0	0	1	0	0		C	13363234	C	C	13363234	3	2	211	1	0	0	0	0	1	0	0	0	10779	1580	55	3	666	3	NUP210	3	13363234	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	385180	13363234	184659196	329	102208											
NUP210	23225	broad.mit.edu	37	chr3	13367348	13367348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	atagtaaaccgtcacggatcCcacggcccgggccacagcca	11	4	10	16	4	1	0	1	0	0	0	2	1	2	1	5	3	2	1	5	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:13367348C>T	uc003bxv.1	-	33	4674	c.4591G>A	c.(4591-4593)GGA>AGA	p.G1531R		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1531	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					GTCACGGATCCCACGGCCCGG	0.632													29	105					0	0	1	0	0		T	13367348	T	T	13367348	3	4	211	1	0	0	0	0	1	0	0	0	10779	632	22	4	1104	4	NUP210	3	13367348	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4114	13367348	184655082	330	102209											
HDAC11	79885	broad.mit.edu	37	chr3	13538284	13538284	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcccccccgttatcttcCtccccaacttccttgtgcag	7	12	4	18	1	1	0	0	0	1	0	5	0	5	0	7	0	2	2	7	0	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:13538284C>A	uc003bxy.2	+	4	434	c.301C>A	c.(301-303)CTC>ATC	p.L101I	HDAC11_uc010heb.2_Missense_Mutation_p.L73I|HDAC11_uc011aux.1_Intron|HDAC11_uc003bxz.2_Missense_Mutation_p.L73I|HDAC11_uc011auy.1_Intron	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	101	Histone deacetylase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding			ovary(2)	2						CGTTATCTTCCTCCCCAACTT	0.602											OREG0015411	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	43					0.000673444	0.000687181	1	1	0		A	13538284	A	A	13538284	3	1	211	1	0	0	0	0	1	0	0	0	7022	681	24	5	315	5	HDAC11	3	13538284	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	170936	13538284	184484146	331	102210											
C3orf19	51244	broad.mit.edu	37	chr3	14709017	14709017	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaaaaccttagagatgctgCgtgaacaggtacagataaat	16	9	10	6	1	0	4	0	2	0	2	0	5	0	4	1	1	5	2	1	1	7	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:14709017C>T	uc003byw.2	+	8	902	c.811C>T	c.(811-813)CGT>TGT	p.R271C	C3orf19_uc010hej.2_Intron	NM_016474	NP_057558	Q6PII3	CC019_HUMAN	hypothetical protein LOC51244	271	Potential.										0						AGAGATGCTGCGTGAACAGGT	0.438													13	36					0	0	1	0	0		T	14709017	T	T	14709017	3	4	211	1	0	0	0	0	1	0	0	0	2215	768	27	1	841	1	C3orf19	3	14709017	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1170733	14709017	183313413	332	102211											
GALNTL2	117248	broad.mit.edu	37	chr3	16254232	16254232	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggtcattcaaagaaaccTtctacaagcatagcccagag	14	8	9	10	0	3	2	2	0	1	2	3	2	3	2	2	2	4	1	2	2	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:16254232T>G	uc003car.3	+	6	1829	c.1354T>G	c.(1354-1356)TTC>GTC	p.F452V	GALNTL2_uc003caq.3_Missense_Mutation_p.F185V	NM_054110	NP_473451	Q8N3T1	GLTL2_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	452	Lumenal (Potential).					Golgi membrane|integral to membrane|transport vesicle	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(1)	1						CAAAGAAACCTTCTACAAGCA	0.572													25	63					0	0	1	0	0		G	16254232	G	G	16254232	3	3	211	1	0	0	0	0	1	0	0	0	6237	1609	56	5	1376	5	GALNTL2	3	16254232	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1545215	16254232	181768198	333	102212											
DCLK3	85443	broad.mit.edu	37	chr3	36756949	36756949	+	Missense_Mutation	SNP	T	C	C	0	1	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	tccaggggtgctgaagaaccTgatgagctgtgtagcgcttt	8	11	14	8	1	0	4	0	3	0	1	1	4	1	4	2	2	4	4	2	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:36756949T>C	uc003cgi.2	-	5	2308	c.1817A>G	c.(1816-1818)CAG>CGG	p.Q606R		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	606	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						CTGAAGAACCTGATGAGCTGT	0.537													18	62					0	0	1	0	0		C	36756949	C	C	36756949	3	2	211	1	0	0	0	0	1	0	0	0	4296	1580	55	3	133	3	DCLK3	3	36756949	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	20502717	36756949	161265481	334	102213											
SCN10A	6336	broad.mit.edu	37	chr3	38748813	38748813	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggggcttcttggagcccaacTtcttcatggcattgtagtat	7	14	11	9	0	3	0	1	0	2	0	3	1	3	1	1	4	2	4	1	4	3	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:38748813T>G	uc003ciq.2	-	25	4343	c.4343A>C	c.(4342-4344)AAG>ACG	p.K1448T		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1448					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GGAGCCCAACTTCTTCATGGC	0.532													19	84					0	0	1	0	0		G	38748813	G	G	38748813	3	3	211	1	0	0	0	0	1	0	0	0	13937	1609	56	5	1539	5	SCN10A	3	38748813	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1991864	38748813	159273617	335	102214											
SLC25A38	54977	broad.mit.edu	37	chr3	39431957	39431957	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtactcttgaaggtggttCgcacggagagtcttttgggc	6	13	14	8	2	2	2	0	1	2	1	3	3	2	2	0	4	1	3	0	4	2	5	rs147819123		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:39431957C>T	uc003cjo.2	+	3	636	c.235C>T	c.(235-237)CGC>TGC	p.R79C		NM_017875	NP_060345	Q96DW6	S2538_HUMAN	solute carrier family 25, member 38	79	Solcar 1.				erythrocyte differentiation|heme biosynthetic process|transport	integral to membrane|mitochondrial inner membrane					0				KIRC - Kidney renal clear cell carcinoma(284;0.0525)|Kidney(284;0.0661)		GAAGGTGGTTCGCACGGAGAG	0.473													26	85					0	0	1	0	0		T	39431957	T	T	39431957	3	4	211	1	0	0	0	0	1	0	0	0	14527	884	31	1	245	1	SLC25A38	3	39431957	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	683144	39431957	158590473	336	102215											
CCDC13	152206	broad.mit.edu	37	chr3	42777361	42777361	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcgcgttttctcctcctgCagactcaggctgcctaggat	6	12	9	14	2	2	1	1	0	1	1	5	2	3	2	3	2	2	3	3	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:42777361C>T	uc003cly.3	-	10	1293	c.1209G>A	c.(1207-1209)CTG>CTA	p.L403L		NM_144719	NP_653320	Q8IYE1	CCD13_HUMAN	coiled-coil domain containing 13	403	Potential.									ovary(1)	1						TCTCCTCCTGCAGACTCAGGC	0.642													8	25					0	0	1	0	0		T	42777361	T	T	42777361	2	4	211	1	0	0	0	0	0	0	0	1	2768	697	25	2		2	CCDC13	3	42777361	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3345404	42777361	155245069	337	102216											
KIAA1143	57456	broad.mit.edu	37	chr3	44803061	44803061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cagaaacgccggctcggctgGccgcacgtacgatacctggt	8	6	13	14	6	0	1	0	0	0	1	1	2	0	1	3	4	3	4	3	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:44803061G>A	uc011bac.1	-	1	113	c.34C>T	c.(34-36)CCA>TCA	p.P12S	KIF15_uc003cnx.3_5'Flank|KIF15_uc010hiq.2_5'Flank	NM_020696	NP_065747	Q96AT1	K1143_HUMAN	hypothetical protein LOC57456	12											0				BRCA - Breast invasive adenocarcinoma(193;0.00847)|KIRC - Kidney renal clear cell carcinoma(197;0.0465)|Kidney(197;0.0582)		GGCTCGGCTGGCCGCACGTAC	0.597													14	47					0	0	1	0	0		A	44803061	A	A	44803061	3	1	211	1	0	0	0	0	1	0	0	0	8225	1203	42	2	442	2	KIAA1143	3	44803061	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2025700	44803061	153219369	338	102217											
LIMD1	8994	broad.mit.edu	37	chr3	45636836	45636836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttccagggagagcctggcGacttctgagatgtctgcttt	6	12	14	9	1	2	2	0	1	2	2	3	5	3	2	2	3	2	2	2	3	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:45636836G>A	uc003coq.2	+	1	514	c.465G>A	c.(463-465)GCG>GCA	p.A155A		NM_014240	NP_055055	Q9UGP4	LIMD1_HUMAN	LIM domains containing 1	155					cytoplasmic mRNA processing body assembly|gene silencing by miRNA|multicellular organismal development|negative regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	cytoplasmic mRNA processing body|nucleus|RNA-induced silencing complex	protein binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.011)|KIRC - Kidney renal clear cell carcinoma(197;0.0264)|Kidney(197;0.0315)		AGAGCCTGGCGACTTCTGAGA	0.602													25	70					0	0	1	0	0		A	45636836	A	A	45636836	2	1	211	1	0	0	0	0	0	0	0	1	8814	1045	37	1		1	LIMD1	3	45636836	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	833775	45636836	152385594	339	102218											
SACM1L	22908	broad.mit.edu	37	chr3	45785048	45785048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacttggacagaaacactgGcctatgtgctcttctgggga	10	10	11	10	0	2	1	0	0	2	1	2	3	2	3	1	4	2	1	1	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:45785048G>A	uc003cos.2	+	20	1855	c.1651G>A	c.(1651-1653)GCC>ACC	p.A551T	SACM1L_uc011bag.1_Missense_Mutation_p.A448T|SACM1L_uc011bah.1_Missense_Mutation_p.A485T|SACM1L_uc003cot.2_Missense_Mutation_p.A194T	NM_014016	NP_054735	Q9NTJ5	SAC1_HUMAN	suppressor of actin 1	551	Helical; (Potential).					Golgi apparatus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0102)|KIRC - Kidney renal clear cell carcinoma(197;0.0234)|Kidney(197;0.0277)		AGAAACACTGGCCTATGTGCT	0.393													33	97					0	0	1	0	0		A	45785048	A	A	45785048	3	1	211	1	0	0	0	0	1	0	0	0	13828	1203	42	2	1729	2	SACM1L	3	45785048	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	148212	45785048	152237382	340	102219											
FYCO1	79443	broad.mit.edu	37	chr3	46009504	46009504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcgctccaggctggcccggGcatcctctttcagctgaagc	5	8	13	15	2	2	1	1	1	1	0	4	1	4	1	3	4	2	4	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:46009504G>A	uc003cpb.3	-	8	1528	c.1322C>T	c.(1321-1323)GCC>GTC	p.A441V	FYCO1_uc011bal.1_Missense_Mutation_p.A441V	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	441	Potential.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		GCTGGCCCGGGCATCCTCTTT	0.612													88	212					0	0	1	0	0		A	46009504	A	A	46009504	3	1	211	1	0	0	0	0	1	0	0	0	6139	1203	42	2	3158	2	FYCO1	3	46009504	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	224456	46009504	152012926	341	102220											
KLHL18	23276	broad.mit.edu	37	chr3	47378211	47378211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctacaacccggagacagacaCatggaccagagtggggagca	14	3	13	11	1	0	3	0	0	0	3	0	6	0	5	2	4	3	1	2	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:47378211C>T	uc003crd.2	+	7	1211	c.1085C>T	c.(1084-1086)ACA>ATA	p.T362I	KLHL18_uc003crc.2_Missense_Mutation_p.T362I|KLHL18_uc011bav.1_Missense_Mutation_p.T250I|KLHL18_uc010hjq.1_Missense_Mutation_p.T218I	NM_025010	NP_079286	O94889	KLH18_HUMAN	kelch-like 18	362	Kelch 2.										0		Acute lymphoblastic leukemia(5;0.164)		BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00645)|Kidney(197;0.00741)		GAGACAGACACATGGACCAGA	0.577													13	47					0	0	1	0	0		T	47378211	T	T	47378211	3	4	211	1	0	0	0	0	1	0	0	0	8389	478	17	4	1111	4	KLHL18	3	47378211	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1368707	47378211	150644219	342	102221											
SCAP	22937	broad.mit.edu	37	chr3	47461185	47461185	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggatgccaatccagacaaCggtgccagcctgcagtgggg	10	5	14	12	1	0	1	0	0	0	1	1	2	1	2	4	4	5	1	4	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:47461185C>T	uc003crh.1	-	13	1828	c.1573G>A	c.(1573-1575)GTT>ATT	p.V525I	SCAP_uc011baz.1_Missense_Mutation_p.V270I|SCAP_uc003crg.2_Missense_Mutation_p.V133I	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	525	Helical; Name=7; (Potential).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		ATCCAGACAACGGTGCCAGCC	0.632													22	82					0	0	1	0	0		T	47461185	T	T	47461185	3	4	211	1	0	0	0	0	1	0	0	0	13902	536	19	1	2310	1	SCAP	3	47461185	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	82974	47461185	150561245	343	102222											
PLXNB1	5364	broad.mit.edu	37	chr3	48451076	48451076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagtacttcacagcgagcgGcacggggcggctggtgctga	8	6	17	10	4	1	1	1	1	0	0	1	3	1	1	0	5	4	4	0	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:48451076G>A	uc003csw.2	-	33	6112	c.5842C>T	c.(5842-5844)CCG>TCG	p.P1948S	PLXNB1_uc003cst.2_Missense_Mutation_p.P398S|PLXNB1_uc003csu.2_Missense_Mutation_p.P1765S|PLXNB1_uc003csx.2_Missense_Mutation_p.P1948S	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1948	Cytoplasmic (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ACAGCGAGCGGCACGGGGCGG	0.582													25	70					0	0	1	0	0		A	48451076	A	A	48451076	3	1	211	1	0	0	0	0	1	0	0	0	12142	1203	42	2	589	2	PLXNB1	3	48451076	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	989891	48451076	149571354	344	102223											
CELSR3	1951	broad.mit.edu	37	chr3	48696881	48696881	+	Missense_Mutation	SNP	T	C	C	0	1	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	agctgggaagacaggtgcatTgtcgttcacatcctgcacca	10	9	11	11	1	1	1	1	0	0	1	3	2	2	2	2	2	3	4	2	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:48696881T>C	uc003cul.2	-	1	3468	c.3187A>G	c.(3187-3189)AAT>GAT	p.N1063D	CELSR3_uc003cuf.1_Missense_Mutation_p.N1133D	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1063	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		ACAGGTGCATTGTCGTTCACA	0.552													52	160					0	0	1	0	0		C	48696881	C	C	48696881	3	2	211	1	0	0	0	0	1	0	0	0	3226	1812	63	3	6891	3	CELSR3	3	48696881	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	245805	48696881	149325549	345	102224											
CELSR3	1951	broad.mit.edu	37	chr3	48698957	48698957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgaacagctccagcgagcGgctgttcatgagtgccgcca	8	7	13	13	3	1	2	1	2	0	0	2	3	2	2	3	1	5	4	3	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:48698957G>A	uc003cul.2	-	1	1392	c.1111C>T	c.(1111-1113)CGC>TGC	p.R371C	CELSR3_uc003cuf.1_Missense_Mutation_p.R441C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	371	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		TCCAGCGAGCGGCTGTTCATG	0.677													9	45					0	0	1	0	0		A	48698957	A	A	48698957	3	1	211	1	0	0	0	0	1	0	0	0	3226	1116	39	1	8967	1	CELSR3	3	48698957	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2076	48698957	149323473	346	102225											
CELSR3	1951	broad.mit.edu	37	chr3	48699280	48699280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgggagctgtccgagactcgCggggtgctgaacctgatgca	7	7	16	11	4	0	3	0	2	0	1	2	5	1	4	2	3	4	3	2	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:48699280C>T	uc003cul.2	-	1	1069	c.788G>A	c.(787-789)CGC>CAC	p.R263H	CELSR3_uc003cuf.1_Missense_Mutation_p.R333H	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	263	Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CCGAGACTCGCGGGGTGCTGA	0.731													18	69					0	0	1	0	0		T	48699280	T	T	48699280	3	4	211	1	0	0	0	0	1	0	0	0	3226	768	27	1	9290	1	CELSR3	3	48699280	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	323	48699280	149323150	347	102226											
QRICH1	54870	broad.mit.edu	37	chr3	49068057	49068057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggtaaaaggtgtcattcCggcctttcacactctggggg	8	11	12	10	1	4	0	3	0	1	0	5	0	5	0	2	5	0	1	2	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:49068057C>T	uc010hkq.2	-	11	2455	c.2159G>A	c.(2158-2160)CGG>CAG	p.R720Q	IMPDH2_uc003cvt.2_5'Flank|IMPDH2_uc010hkp.1_5'Flank|QRICH1_uc003cvu.2_Missense_Mutation_p.R720Q|QRICH1_uc003cvv.2_Missense_Mutation_p.R720Q	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	720										ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.88e-05)|Kidney(197;0.00239)|KIRC - Kidney renal clear cell carcinoma(197;0.00258)		GGTGTCATTCCGGCCTTTCAC	0.522													15	40					0	0	1	0	0		T	49068057	T	T	49068057	3	4	211	1	0	0	0	0	1	0	0	0	12904	652	23	1	175	1	QRICH1	3	49068057	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	368777	49068057	148954373	348	102227											
QARS	5859	broad.mit.edu	37	chr3	49141346	49141346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacacccacgccacattcccGctcgaagtccacagtgtcga	10	6	8	17	4	0	0	0	0	0	0	4	3	2	0	4	0	0	1	4	0	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:49141346G>A	uc003cvx.2	-	3	330	c.325C>T	c.(325-327)CGG>TGG	p.R109W	QARS_uc011bcd.1_5'UTR|QARS_uc003cvy.2_5'UTR|QARS_uc011bce.1_Missense_Mutation_p.R98W|QARS_uc011bcf.1_Missense_Mutation_p.R109W	NM_005051	NP_005042	P47897	SYQ_HUMAN	glutaminyl-tRNA synthetase	109					glutaminyl-tRNA aminoacylation	cytosol|mitochondrial matrix	ATP binding|glutamine-tRNA ligase activity|protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)	L-Glutamine(DB00130)	CCACATTCCCGCTCGAAGTCC	0.582													15	54					0	0	1	0	0		A	49141346	A	A	49141346	3	1	211	1	0	0	0	0	1	0	0	0	12896	1086	38	1	2090	1	QARS	3	49141346	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	73289	49141346	148881084	349	102228											
LAMB2	3913	broad.mit.edu	37	chr3	49166108	49166108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaacctggggctctaagcGcagcagcaggtcatagtcca	10	8	11	12	1	3	0	1	0	2	0	4	0	4	0	2	3	4	4	2	3	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:49166108G>A	uc003cwe.2	-	14	2175	c.1876C>T	c.(1876-1878)CGC>TGC	p.R626C	LAMB2_uc003cwf.1_Missense_Mutation_p.R626C	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	626	Laminin IV type B.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GGCTCTAAGCGCAGCAGCAGG	0.582													30	79					0	0	1	0	0		A	49166108	A	A	49166108	3	1	211	1	0	0	0	0	1	0	0	0	8627	1087	38	1	3596	1	LAMB2	3	49166108	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	24762	49166108	148856322	350	102229											
LAMB2	3913	broad.mit.edu	37	chr3	49167667	49167667	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccaatcccagcctcacagcGgcacacagccggatcccgca	10	3	8	20	3	1	0	1	0	0	0	3	1	3	1	5	2	3	2	5	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:49167667G>A	uc003cwe.2	-	9	1521	c.1222C>T	c.(1222-1224)CGC>TGC	p.R408C	LAMB2_uc003cwf.1_Missense_Mutation_p.R408C	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	408	Laminin EGF-like 2.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		GCCTCACAGCGGCACACAGCC	0.587													6	27					0	0	1	0	0		A	49167667	A	A	49167667	3	1	211	1	0	0	0	0	1	0	0	0	8627	1116	39	1	4270	1	LAMB2	3	49167667	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1559	49167667	148854763	351	102230											
RNF123	63891	broad.mit.edu	37	chr3	49742583	49742583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagaaagtgaaggtccgcaCgctgagcgtggagcagagga	12	4	18	7	3	0	4	0	2	0	2	1	7	1	6	1	4	2	3	1	4	2	0	rs151252055		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:49742583C>T	uc003cxh.2	+	23	2212	c.2126C>T	c.(2125-2127)ACG>ATG	p.T709M	RNF123_uc010hky.1_Missense_Mutation_p.T371M|RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	709						cytoplasm	ligase activity|protein binding|zinc ion binding			kidney(3)|ovary(1)|lung(1)|breast(1)|skin(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.71e-05)|Kidney(197;0.00227)|KIRC - Kidney renal clear cell carcinoma(197;0.00255)		AAGGTCCGCACGCTGAGCGTG	0.647													4	14					0	0	1	0	0		T	49742583	T	T	49742583	3	4	211	1	0	0	0	0	1	0	0	0	13458	536	19	1	2212	1	RNF123	3	49742583	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	574916	49742583	148279847	352	102231											
AMIGO3	386724	broad.mit.edu	37	chr3	49755649	49755649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggtgtttggggccagcggCggcagcggcaggcacggcgg	4	5	22	10	5	0	0	0	0	0	0	0	0	0	0	1	9	2	4	1	9	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:49755649C>T	uc003cxj.2	-	1	1590	c.1250G>A	c.(1249-1251)CGC>CAC	p.R417H	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	417	Cytoplasmic (Potential).				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GGGCcagcggcggcagcggca	0.537													19	71					0	0	1	0	0		T	49755649	T	T	49755649	3	4	211	1	0	0	0	0	1	0	0	0	577	768	27	1	268	1	AMIGO3	3	49755649	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	13066	49755649	148266781	353	102232											
AMIGO3	386724	broad.mit.edu	37	chr3	49755895	49755895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgttgcctatggccaagctgCcgtcggccagcaccgcgatg	6	7	13	15	5	0	0	0	0	0	0	1	1	0	0	5	2	4	3	5	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:49755895C>T	uc003cxj.2	-	1	1344	c.1004G>A	c.(1003-1005)GGC>GAC	p.G335D	RNF123_uc003cxh.2_Intron|RNF123_uc003cxi.2_Intron	NM_198722	NP_942015	Q86WK7	AMGO3_HUMAN	adhesion molecule with Ig-like domain 3	335	Extracellular (Potential).|Ig-like C2-type.				heterophilic cell-cell adhesion	integral to membrane				pancreas(1)	1				BRCA - Breast invasive adenocarcinoma(193;4.47e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GGCCAAGCTGCCGTCGGCCAG	0.667													23	53					0	0	1	0	0		T	49755895	T	T	49755895	3	4	211	1	0	0	0	0	1	0	0	0	577	739	26	2	514	2	AMIGO3	3	49755895	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	246	49755895	148266535	354	102233											
SEMA3F	6405	broad.mit.edu	37	chr3	50222097	50222097	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgaggtgatcaacttcatgCgcagccacccactcatgtac	11	9	8	13	1	3	2	3	2	0	0	3	2	3	2	2	1	4	2	2	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:50222097C>T	uc003cyj.2	+	13	1504	c.1306C>T	c.(1306-1308)CGC>TGC	p.R436C	SEMA3F_uc003cyk.2_Missense_Mutation_p.R405C	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	436	Sema.				axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		CAACTTCATGCGCAGCCACCC	0.592													17	49					0	0	1	0	0		T	50222097	T	T	50222097	3	4	211	1	0	0	0	0	1	0	0	0	14054	768	27	1	1352	1	SEMA3F	3	50222097	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	466202	50222097	147800333	355	102234											
HYAL1	3373	broad.mit.edu	37	chr3	50338110	50338110	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctttggggtggctggtgcggCggacacagcggccatggccg	4	7	19	11	4	0	0	0	0	0	0	0	1	0	1	2	8	2	1	2	8	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:50338110C>T	uc003czp.2	-	4	1244	c.1112G>A	c.(1111-1113)CGC>CAC	p.R371H	HYAL3_uc003czc.1_5'Flank|HYAL3_uc003czd.1_5'Flank|HYAL3_uc003cze.1_5'Flank|HYAL3_uc003czf.1_5'Flank|HYAL3_uc003czg.1_5'Flank|NAT6_uc003czi.2_5'Flank|NAT6_uc003czj.2_5'Flank|NAT6_uc003czk.3_5'Flank|NAT6_uc003czl.1_5'Flank|HYAL1_uc003czm.2_Missense_Mutation_p.R189H|HYAL1_uc003czo.2_Missense_Mutation_p.R112H|HYAL1_uc003czq.2_Missense_Mutation_p.R341H|HYAL1_uc003czr.2_Missense_Mutation_p.R371H|HYAL1_uc003czn.2_Missense_Mutation_p.R32H|HYAL1_uc003czs.2_Missense_Mutation_p.R371H|HYAL1_uc003czt.2_3'UTR	NM_033159	NP_149349	Q12794	HYAL1_HUMAN	hyaluronoglucosaminidase 1 isoform 1	371	EGF-like.					extracellular space|lysosome	hyalurononglucosaminidase activity			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Hyaluronidase(DB00070)	GCTGGTGCGGCGGACACAGCG	0.647													8	14					0	0	1	0	0		T	50338110	T	T	50338110	3	4	211	1	0	0	0	0	1	0	0	0	7479	768	27	1	199	1	HYAL1	3	50338110	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	116013	50338110	147684320	356	102235											
DOCK3	1795	broad.mit.edu	37	chr3	51418820	51418820	+	Frame_Shift_Del	DEL	C	-	-																															tggacccgcctgcgctgccgCccaagccctaccacccccgc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:51418820delC	uc011bds.1	+	53	5946	c.5923delC	c.(5923-5925)CCCfs	p.P1975fs		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	1975	SH3-binding (Potential).					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		TGCGCTGCCGCCCAAGCCCTA	0.697													15	32	---	---	---	---						.	-	51418820	-	-	51418820	7	5	211	1	0	1	0	1	0	0	0	0	4694	739	26	0	6133	0	DOCK3	3	51418820	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1080710	51418820	146603610	357	102236											
GRM2	2912	broad.mit.edu	37	chr3	51746781	51746781	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggccgtgccatgagccgcgCggcctttgagggtgtggtgc	3	8	19	11	4	0	2	0	2	0	0	0	2	0	2	4	4	3	0	4	4	0	1	rs141459351	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:51746781C>T	uc010hlv.2	+	3	982	c.743C>T	c.(742-744)GCG>GTG	p.A248V	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	248	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	ATGAGCCGCGCGGCCTTTGAG	0.647													19	33					0	0	1	0	0		T	51746781	T	T	51746781	3	4	211	1	0	0	0	0	1	0	0	0	6813	768	27	1	749	1	GRM2	3	51746781	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	327961	51746781	146275649	358	102237											
POC1A	25886	broad.mit.edu	37	chr3	52183326	52183326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttgtcgtcagaggctgtcaCgaaggactggccatcactgc	8	9	12	12	2	3	1	3	0	0	1	4	3	3	2	1	3	1	1	1	3	1	1	rs143181521		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52183326C>T	uc003dcu.2	-	4	673	c.355G>A	c.(355-357)GTG>ATG	p.V119M	POC1A_uc003dcv.2_Missense_Mutation_p.V81M|POC1A_uc003dcw.2_Missense_Mutation_p.V119M	NM_015426	NP_056241	Q8NBT0	POC1A_HUMAN	WD repeat domain 51A isoform 1	119	WD 3.					centriole|microtubule basal body					0						GAGGCTGTCACGAAGGACTGG	0.537													29	58					0	0	1	0	0		T	52183326	T	T	52183326	3	4	211	1	0	0	0	0	1	0	0	0	12194	536	19	1	900	1	POC1A	3	52183326	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	436545	52183326	145839104	359	102238											
ALAS1	211	broad.mit.edu	37	chr3	52246368	52246368	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caattaccctacggtgccccGgggagaagagctcctacgga	10	6	12	13	3	0	2	0	0	0	2	1	4	1	3	4	4	5	1	4	4	5	3	rs139914359		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52246368G>T	uc003dcy.1	+	11	2031	c.1694G>T	c.(1693-1695)CGG>CTG	p.R565L	ALAS1_uc003dcz.1_Missense_Mutation_p.R565L|ALAS1_uc011bec.1_Missense_Mutation_p.R582L	NM_000688	NP_000679	P13196	HEM1_HUMAN	5-aminolevulinate synthase 1 precursor	565					heme biosynthetic process	mitochondrial matrix	5-aminolevulinate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(2)|upper_aerodigestive_tract(1)	3				BRCA - Breast invasive adenocarcinoma(193;5.13e-05)|Kidney(197;0.000583)|KIRC - Kidney renal clear cell carcinoma(197;0.000751)	Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	ACGGTGCCCCGGGGAGAAGAG	0.517													87	292					3.77759e-48	4.18414e-48	1	1	0		T	52246368	T	T	52246368	3	4	211	1	0	0	0	0	1	0	0	0	484	1116	39	5	1728	5	ALAS1	3	52246368	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	63042	52246368	145776062	360	102239											
GLYCTK	132158	broad.mit.edu	37	chr3	52326884	52326884	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcagagttgagaaggtggccGctggggccgatagatgtgct	8	8	18	7	2	0	3	0	1	0	3	0	5	0	3	2	4	1	4	2	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52326884G>A	uc003ddo.2	+	5	1410	c.1314G>A	c.(1312-1314)CCG>CCA	p.P438P	GLYCTK_uc003ddq.2_3'UTR|GLYCTK_uc003ddm.2_Intron|GLYCTK_uc003ddn.2_Intron|GLYCTK_uc003ddp.1_Intron|GLYCTK_uc003ddr.2_Silent_p.P102P	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	438					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)		GAAGGTGGCCGCTGGGGCCGA	0.662													38	93					0	0	1	0	0		A	52326884	A	A	52326884	2	1	211	1	0	0	0	0	0	0	0	1	6497	1074	38	1		1	GLYCTK	3	52326884	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	80516	52326884	145695546	361	102240											
DNAH1	25981	broad.mit.edu	37	chr3	52431783	52431783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcctgagatctttggcctgCatgacaatgccaacatcacc	10	10	8	13	0	2	2	1	2	1	1	2	3	2	2	4	1	4	1	4	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52431783C>T	uc011bef.1	+	74	12109	c.11848C>T	c.(11848-11850)CAT>TAT	p.H3950Y	DNAH1_uc003ddv.2_Missense_Mutation_p.H808Y	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	4015					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CTTTGGCCTGCATGACAATGC	0.557													7	33					0	0	1	0	0		T	52431783	T	T	52431783	3	4	211	1	0	0	0	0	1	0	0	0	4603	710	25	2	12138	2	DNAH1	3	52431783	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	104899	52431783	145590647	362	102241											
DNAH1	25981	broad.mit.edu	37	chr3	52433040	52433040	+	Silent	SNP	A	G	G	1	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	tcgctcaagcctctgtcatcAtgggtcatggacctgctgca	7	11	10	13	1	5	0	4	0	1	0	6	1	5	1	2	2	3	3	2	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52433040A>G	uc011bef.1	+	76	12525	c.12264A>G	c.(12262-12264)TCA>TCG	p.S4088S	DNAH1_uc003ddv.2_Silent_p.S946S	NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	4153					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CTCTGTCATCATGGGTCATGG	0.567													21	101					0	0	1	0	0		G	52433040	G	G	52433040	2	3	211	1	0	0	0	0	0	0	0	1	4603	204	8	3		3	DNAH1	3	52433040	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1257	52433040	145589390	363	102242											
BAP1	8314	broad.mit.edu	37	chr3	52437205	52437205	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccaggcctcaccatcccCgtcttctctctgctgtccgt	3	12	7	19	3	4	0	1	0	3	0	8	0	6	0	6	1	1	1	6	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52437205C>T	uc003ddx.2	-	14	1954	c.1839G>A	c.(1837-1839)ACG>ACA	p.T613T	BAP1_uc003ddw.2_RNA|BAP1_uc010hmg.2_RNA|BAP1_uc010hmh.2_Intron	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	613	Interaction with BRCA1.				monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				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)		TCACCATCCCCGTCTTCTCTC	0.597			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								19	59					0	0	1	0	0		T	52437205	T	T	52437205	2	4	211	1	0	0	0	0	0	0	0	1	1312	639	23	1		1	BAP1	3	52437205	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4165	52437205	145585225	364	102243											
STAB1	23166	broad.mit.edu	37	chr3	52540747	52540747	+	Missense_Mutation	SNP	A	G	G	1	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	ccgagggggtcccgctgcagAgggtagacgtgatggccgcc	6	5	18	12	4	0	3	0	1	0	2	1	4	1	3	4	4	1	3	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52540747A>G	uc003dej.2	+	18	1944	c.1870A>G	c.(1870-1872)AGG>GGG	p.R624G	STAB1_uc003dei.1_Missense_Mutation_p.R624G	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	624	Extracellular (Potential).|FAS1 2.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		CCCGCTGCAGAGGGTAGACGT	0.692													7	28					0	0	1	0	0		G	52540747	G	G	52540747	3	3	211	1	0	0	0	0	1	0	0	0	15262	295	11	3	1940	3	STAB1	3	52540747	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	103542	52540747	145481683	365	102244											
TMEM110	375346	broad.mit.edu	37	chr3	52878871	52878871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccactgaagtattaggaggaCgatgaagacgacagactttt	14	9	11	7	2	0	4	0	2	0	2	0	8	0	6	1	2	0	1	1	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:52878871C>T	uc003dge.2	-	5	595	c.514G>A	c.(514-516)GTC>ATC	p.V172I	MUSTN1_uc003dgb.3_5'Flank|TMEM110_uc003dgc.3_Missense_Mutation_p.V172I	NM_198563	NP_940965	Q86TL2	TM110_HUMAN	transmembrane protein 110	172	Helical; (Potential).					integral to membrane				large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.72e-05)|Kidney(197;0.000777)|KIRC - Kidney renal clear cell carcinoma(197;0.000915)|OV - Ovarian serous cystadenocarcinoma(275;0.0541)		ATTAGGAGGACGATGAAGACG	0.537													17	70					0	0	1	0	0		T	52878871	T	T	52878871	3	4	211	1	0	0	0	0	1	0	0	0	16052	536	19	1	386	1	TMEM110	3	52878871	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	338124	52878871	145143559	366	102245											
TKT	7086	broad.mit.edu	37	chr3	53263034	53263034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcaacctacctttgtattggCggctagttccactgccttct	6	14	8	13	1	1	0	0	0	1	0	2	0	2	0	4	2	3	4	4	2	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:53263034C>T	uc003dgo.2	-	10	1494	c.1384G>A	c.(1384-1386)GCC>ACC	p.A462T	TKT_uc003dgp.2_Missense_Mutation_p.A94T|TKT_uc011beo.1_Missense_Mutation_p.A415T|TKT_uc003dgq.2_Missense_Mutation_p.A462T|TKT_uc011beq.1_Missense_Mutation_p.A470T|TKT_uc011ber.1_Missense_Mutation_p.A264T|TKT_uc011bep.1_Missense_Mutation_p.A379T	NM_001135055	NP_001128527	P29401	TKT_HUMAN	transketolase isoform 1	462					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|transketolase activity			ovary(2)	2		Prostate(884;0.0959)		BRCA - Breast invasive adenocarcinoma(193;0.000159)|OV - Ovarian serous cystadenocarcinoma(275;0.000314)|Kidney(197;0.00178)|KIRC - Kidney renal clear cell carcinoma(197;0.00201)	Thiamine(DB00152)	TTTGTATTGGCGGCTAGTTCC	0.527													47	123					0	0	1	0	0		T	53263034	T	T	53263034	3	4	211	1	0	0	0	0	1	0	0	0	15959	768	27	1	507	1	TKT	3	53263034	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	384163	53263034	144759396	367	102246											
CACNA1D	776	broad.mit.edu	37	chr3	53810059	53810059	+	Missense_Mutation	SNP	T	G	G	0	1	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	tttcatcagtttttacatgcTctgtgcatttctggtaagtg	7	19	8	7	0	4	0	2	0	2	0	4	0	4	0	0	1	3	4	0	1	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:53810059T>G	uc003dgv.3	+	35	4512	c.4349T>G	c.(4348-4350)CTC>CGC	p.L1450R	CACNA1D_uc003dgu.3_Missense_Mutation_p.L1470R|CACNA1D_uc003dgy.3_Missense_Mutation_p.L1435R|CACNA1D_uc003dgw.3_Missense_Mutation_p.L1117R|CACNA1D_uc003dgx.1_Missense_Mutation_p.L626R	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	1450	Dihydropyridine binding (By similarity).|IV.|Phenylalkylamine binding (By similarity).|Helical; Name=S6 of repeat IV; (Potential).				axon guidance|energy reserve metabolic process|regulation of insulin secretion	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(6)|upper_aerodigestive_tract(2)|liver(1)|central_nervous_system(1)|skin(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.00029)|KIRC - Kidney renal clear cell carcinoma(284;0.0145)|Kidney(284;0.0175)|OV - Ovarian serous cystadenocarcinoma(275;0.0613)	Verapamil(DB00661)	TTTTACATGCTCTGTGCATTT	0.483													22	69					0	0	1	0	0		G	53810059	G	G	53810059	3	3	211	1	0	0	0	0	1	0	0	0	2544	1551	54	5	4659	5	CACNA1D	3	53810059	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	547025	53810059	144212371	368	102247											
CACNA2D3	55799	broad.mit.edu	37	chr3	54596945	54596945	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagtgcaaagggctttttTaggcagtatccgggtgagta	10	11	15	5	1	0	1	0	1	0	0	1	2	1	2	1	4	1	5	1	4	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:54596945T>A	uc003dhf.2	+	6	711	c.663T>A	c.(661-663)TTT>TTA	p.F221L	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.F127L|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_5'UTR	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	221	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		AGGGCTTTTTTAGGCAGTATC	0.373													8	21					0	0	1	0	0		A	54596945	A	A	54596945	3	1	211	1	0	0	0	0	1	0	0	0	2553	1751	61	5	685	5	CACNA2D3	3	54596945	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	786886	54596945	143425485	369	102248											
CCDC66	285331	broad.mit.edu	37	chr3	56627979	56627979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatcttgccagctttctcCgttctatgactgctctcttg	4	18	7	12	1	4	1	0	1	4	0	6	1	4	1	2	0	3	4	2	0	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:56627979C>T	uc003dhz.2	+	10	1414	c.1327C>T	c.(1327-1329)CGT>TGT	p.R443C	CCDC66_uc003dhy.2_Missense_Mutation_p.R79C|CCDC66_uc003dhu.2_Missense_Mutation_p.R409C|CCDC66_uc003dhx.2_RNA	NM_001141947	NP_001135419	A2RUB6	CCD66_HUMAN	coiled-coil domain containing 66 isoform 1	443										breast(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0478)|Kidney(284;0.0597)|OV - Ovarian serous cystadenocarcinoma(275;0.233)		CAGCTTTCTCCGTTCTATGAC	0.363													33	70					0	0	1	0	0		T	56627979	T	T	56627979	3	4	211	1	0	0	0	0	1	0	0	0	2841	652	23	1	1365	1	CCDC66	3	56627979	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2031034	56627979	141394451	370	102249											
PXK	54899	broad.mit.edu	37	chr3	58368270	58368271	+	Frame_Shift_Ins	INS	-	A	A																															taagtctacctcttcctcccINSaaaaaattgattggtaacat																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:58368270_58368271insA	uc003djz.1	+	4	330_331	c.231_232insA	c.(229-234)CCCAAAfs	p.P77fs	PXK_uc003djx.1_Frame_Shift_Ins_p.P77fs|PXK_uc003djy.1_Frame_Shift_Ins_p.P60fs|PXK_uc003dka.1_Frame_Shift_Ins_p.P77fs|PXK_uc003dkb.1_5'UTR|PXK_uc003dkc.1_Frame_Shift_Ins_p.P60fs|PXK_uc011bfe.1_Frame_Shift_Ins_p.P44fs|PXK_uc010hnj.1_Frame_Shift_Ins_p.P44fs|PXK_uc003dkd.1_Intron|PXK_uc010hnk.1_5'UTR	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase	77_78	PX.				cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		CTCTTCCTCCCAAAAAATTGAT	0.342													16	33	---	---	---	---						.	A	58368271	A	A	58368270	7	5	211	1	0	1	1	0	0	0	0	0	12874	581	21	0	245	0	PXK	3	58368270	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	1740291	58368270	139654160	371	102250											
ADAMTS9	56999	broad.mit.edu	37	chr3	64607996	64607996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggttgtacaactttcccaccGacaaaacctagaatgtgtgg	12	10	9	10	1	0	1	0	0	0	1	1	2	1	1	3	2	3	2	3	2	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:64607996G>A	uc003dmg.2	-	18	2596	c.2564C>T	c.(2563-2565)TCG>TTG	p.S855L	ADAMTS9_uc011bfo.1_Missense_Mutation_p.S827L|ADAMTS9_uc003dmh.1_Missense_Mutation_p.S684L|ADAMTS9_uc003dmk.1_Missense_Mutation_p.S855L	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	855	Spacer.				glycoprotein catabolic process|multicellular organismal development|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|urinary_tract(1)|skin(1)	4		Lung NSC(201;0.00682)		BRCA - Breast invasive adenocarcinoma(55;0.00142)|Kidney(15;0.00202)|KIRC - Kidney renal clear cell carcinoma(15;0.00221)		CTTTCCCACCGACAAAACCTA	0.443													13	44					0	0	1	0	0		A	64607996	A	A	64607996	3	1	211	1	0	0	0	0	1	0	0	0	273	1059	37	1	3331	1	ADAMTS9	3	64607996	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6239726	64607996	133414434	372	102251											
LRIG1	26018	broad.mit.edu	37	chr3	66457835	66457835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgtggctgatggaattgtggCtgagacgcaggacactcagg	9	9	16	7	1	1	2	1	2	0	1	1	5	1	4	0	5	0	3	0	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:66457835C>T	uc003dmx.2	-	8	1030	c.1016G>A	c.(1015-1017)AGC>AAC	p.S339N	LRIG1_uc003dmw.2_5'Flank|LRIG1_uc010hnz.2_Missense_Mutation_p.S79N|LRIG1_uc010hoa.2_Missense_Mutation_p.S339N	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	339	Extracellular (Potential).|LRR 12.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GGAATTGTGGCTGAGACGCAG	0.602													23	42					0	0	1	0	0		T	66457835	T	T	66457835	3	4	211	1	0	0	0	0	1	0	0	0	8962	797	28	2	2313	2	LRIG1	3	66457835	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1849839	66457835	131564595	373	102252											
GPR27	2850	broad.mit.edu	37	chr3	71803255	71803255	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcggcgaggcggccgccctgGgcctcaagctggccacgctc	4	4	16	17	5	1	0	1	0	0	0	2	1	1	0	4	5	1	2	4	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:71803255G>T	uc011bge.1	+	1	55	c.55G>T	c.(55-57)GGC>TGC	p.G19C	EIF4E3_uc003dox.2_5'Flank|EIF4E3_uc011bgd.1_Intron|EIF4E3_uc010hoc.2_Intron	NM_018971	NP_061844	Q9NS67	GPR27_HUMAN	G protein-coupled receptor 27	19	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1		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)		GGCCGCCCTGGGCCTCAAGCT	0.766													8	11					1.12685e-05	1.16812e-05	1	1	0		T	71803255	T	T	71803255	3	4	211	1	0	0	0	0	1	0	0	0	6700	1232	43	5	57	5	GPR27	3	71803255	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5345420	71803255	126219175	374	102253											
PDZRN3	23024	broad.mit.edu	37	chr3	73432926	73432926	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcctcttggtgatgtagcGcgtcccgtcgctgcggatct	3	11	15	12	5	2	1	0	1	2	0	4	2	3	2	2	3	2	2	2	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:73432926G>A	uc003dpl.1	-	10	2887	c.2791C>T	c.(2791-2793)CGC>TGC	p.R931C	PDZRN3_uc011bgh.1_Missense_Mutation_p.R588C|PDZRN3_uc010hoe.1_Missense_Mutation_p.R629C|PDZRN3_uc011bgf.1_Missense_Mutation_p.R648C|PDZRN3_uc011bgg.1_Missense_Mutation_p.R651C	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	931							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		GTGATGTAGCGCGTCCCGTCG	0.672													22	35					0	0	1	0	0		A	73432926	A	A	73432926	3	1	211	1	0	0	0	0	1	0	0	0	11728	1087	38	1	413	1	PDZRN3	3	73432926	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1629671	73432926	124589504	375	102254											
VGLL3	389136	broad.mit.edu	37	chr3	87017929	87017929	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atccagggcagagccagcagGagggtggtgatggtgatgat	10	7	18	6	0	0	4	0	3	0	1	1	5	1	5	2	5	2	2	2	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:87017929G>T	uc003dqn.2	-	3	1112	c.748C>A	c.(748-750)CCT>ACT	p.P250T		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	250					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		GAGCCAGCAGGAGggtggtga	0.473													13	26					0.000151284	0.000155551	1	1	0		T	87017929	T	T	87017929	3	4	211	1	0	0	0	0	1	0	0	0	17186	1174	41	5	240	5	VGLL3	3	87017929	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	13585003	87017929	111004501	376	102255											
EPHA6	285220	broad.mit.edu	37	chr3	97356829	97356829	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatcgagacctagcggctcGgaatatactggtcaatagca	12	9	10	10	3	2	1	2	0	0	1	4	3	2	2	1	3	3	2	1	3	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:97356829G>A	uc010how.1	+	14	2730	c.2687G>A	c.(2686-2688)CGG>CAG	p.R896Q	EPHA6_uc011bgp.1_3'UTR|EPHA6_uc003drs.3_Missense_Mutation_p.R288Q|EPHA6_uc003drr.3_Missense_Mutation_p.R288Q|EPHA6_uc003drt.2_Missense_Mutation_p.R288Q|EPHA6_uc010hox.1_RNA	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	801	Protein kinase.|Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						CTAGCGGCTCGGAATATACTG	0.443													26	70					0	0	1	0	0		A	97356829	A	A	97356829	3	1	211	1	0	0	0	0	1	0	0	0	5179	1116	39	1	2809	1	EPHA6	3	97356829	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10338900	97356829	100665601	377	102256											
CPOX	1371	broad.mit.edu	37	chr3	98299553	98299553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacccagtcccttggatggcGtagaacttccagaatttcag	10	10	9	12	1	1	2	1	0	0	2	3	3	3	3	3	2	1	1	3	2	3	4	rs28931603		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:98299553G>A	uc003dsx.2	-	7	1432	c.1339C>T	c.(1339-1341)CGC>TGC	p.R447C		NM_000097	NP_000088	P36551	HEM6_HUMAN	coproporphyrinogen oxidase precursor	447						mitochondrial intermembrane space	coproporphyrinogen oxidase activity|protein homodimerization activity				0						CTTGGATGGCGTAGAACTTCC	0.493													11	31					0	0	1	0	0		A	98299553	A	A	98299553	3	1	211	1	0	0	0	0	1	0	0	0	3824	1145	40	1	29	1	CPOX	3	98299553	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	942724	98299553	99722877	378	102257											
COL8A1	1295	broad.mit.edu	37	chr3	99514602	99514602	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgagatgcctgcatttacCgccgagctaaccgcaccttt	9	11	8	13	3	0	1	0	1	0	1	0	3	0	1	5	0	5	3	5	0	3	5	rs115676498	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:99514602C>T	uc003dtg.1	+	5	2102	c.1857C>T	c.(1855-1857)ACC>ACT	p.T619T	COL8A1_uc003dth.1_Silent_p.T619T|COL8A1_uc003dti.1_Silent_p.T620T	NM_001850	NP_001841	P27658	CO8A1_HUMAN	alpha 1 type VIII collagen precursor	619	C1q.|Nonhelical region (NC1).				angiogenesis|cell adhesion	basement membrane|collagen type VIII					0						CTGCATTTACCGCCGAGCTAA	0.557													17	45					0	0	1	0	0		T	99514602	T	T	99514602	2	4	211	1	0	0	0	0	0	0	0	1	3708	639	23	1		1	COL8A1	3	99514602	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1215049	99514602	98507828	379	102258											
TBC1D23	55773	broad.mit.edu	37	chr3	100018114	100018114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttctttgtggtggattgccGtcctgcagaacaatataatg	9	14	11	7	1	1	1	0	0	1	1	2	2	2	2	2	2	3	2	2	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:100018114G>A	uc003dtt.2	+	10	1208	c.1031G>A	c.(1030-1032)CGT>CAT	p.R344H	TBC1D23_uc003dts.2_Missense_Mutation_p.R344H	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	344	Rhodanese.					intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						GTGGATTGCCGTCCTGCAGAA	0.373													14	59					0	0	1	0	0		A	100018114	A	A	100018114	3	1	211	1	0	0	0	0	1	0	0	0	15638	1145	40	1	1069	1	TBC1D23	3	100018114	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	503512	100018114	98004316	380	102259											
SENP7	57337	broad.mit.edu	37	chr3	101060606	101060606	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtgtaagtaggcttggcCgcatctgtgtttgagggctg	7	12	16	6	1	1	1	0	1	1	0	1	1	1	1	1	4	0	6	1	4	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:101060606C>T	uc003dut.2	-	15	2235	c.2124G>A	c.(2122-2124)GCG>GCA	p.A708A	SENP7_uc003duu.2_Silent_p.A643A|SENP7_uc003duv.2_Silent_p.A675A|SENP7_uc003duw.2_Silent_p.A642A|SENP7_uc003dux.2_Silent_p.A544A	NM_020654	NP_065705	Q9BQF6	SENP7_HUMAN	sentrin/SUMO-specific protease 7 isoform 1	708					proteolysis	nucleus	cysteine-type peptidase activity			ovary(3)|lung(2)	5						TAGGCTTGGCCGCATCTGTGT	0.438													13	25					0	0	1	0	0		T	101060606	T	T	101060606	2	4	211	1	0	0	0	0	0	0	0	1	14076	639	23	1		1	SENP7	3	101060606	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1042492	101060606	96961824	381	102260											
SIDT1	54847	broad.mit.edu	37	chr3	113344997	113344997	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accgcgagtgcattctgctgGatttcttcgatgaccatgac	8	12	10	11	3	2	2	0	2	2	0	3	5	2	3	2	1	2	2	2	1	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:113344997G>T	uc003eak.2	+	24	3007	c.2356G>T	c.(2356-2358)GAT>TAT	p.D786Y	SIDT1_uc011big.1_Missense_Mutation_p.D539Y|SIDT1_uc011bii.1_Missense_Mutation_p.D239Y	NM_017699	NP_060169	Q9NXL6	SIDT1_HUMAN	SID1 transmembrane family, member 1 precursor	786	Extracellular (Potential).					integral to membrane				ovary(3)|pancreas(1)|skin(1)	5						CATTCTGCTGGATTTCTTCGA	0.488													50	142					5.19286e-32	5.734e-32	1	1	0		T	113344997	T	T	113344997	3	4	211	1	0	0	0	0	1	0	0	0	14327	1174	41	5	2450	5	SIDT1	3	113344997	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	12284391	113344997	84677433	382	102261											
TIGIT	201633	broad.mit.edu	37	chr3	114014391	114014391	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcttcgtcctcttccctaGgaatgatgacaggcacaata	10	11	9	11	1	1	2	0	2	1	0	4	3	3	3	2	2	1	2	2	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:114014391G>T	uc003ebg.1	+	2	96	c.62_splice	c.e2-1	p.G21_splice		NM_173799	NP_776160	Q495A1	TIGIT_HUMAN	T cell immunoreceptor with Ig and ITIM domains						negative regulation of interleukin-12 production|negative regulation of T cell activation|positive regulation of interleukin-10 production	cell surface|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)	1						CTCTTCCCTAGGAATGATGAC	0.493													40	126					8.86878e-18	9.66891e-18	1	1	0		T	114014391	T	T	114014391	5	4	211	1	0	0	0	0	0	0	1	0	15927	1014	35	5	67	5	TIGIT	3	114014391	Splice_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	669394	114014391	84008039	383	102262											
STXBP5L	9515	broad.mit.edu	37	chr3	120959299	120959299	+	Missense_Mutation	SNP	A	G	G	1	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	ctgtttaggagtggccaatcAgtggaggagcttggaacctt	9	11	14	7	0	1	0	1	0	0	0	1	4	1	4	2	5	2	2	2	5	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:120959299A>G	uc003eec.3	+	14	1485	c.1345A>G	c.(1345-1347)AGT>GGT	p.S449G	STXBP5L_uc011bji.1_Missense_Mutation_p.S449G	NM_014980	NP_055795	Q9Y2K9	STB5L_HUMAN	syntaxin binding protein 5-like	449	WD 8.				exocytosis|protein transport	cytoplasm|integral to membrane|plasma membrane				ovary(7)|skin(2)	9				GBM - Glioblastoma multiforme(114;0.0694)		GTGGCCAATCAGTGGAGGAGC	0.303													13	38					0	0	1	0	0		G	120959299	G	G	120959299	3	3	211	1	0	0	0	0	1	0	0	0	15382	188	7	3	1395	3	STXBP5L	3	120959299	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	6944908	120959299	77063131	384	102263											
SEMA5B	54437	broad.mit.edu	37	chr3	122641181	122641181	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgctgtcctgggtgacacaGggctcgggtgtcaccggctg	5	8	16	12	3	1	1	1	1	0	0	3	1	2	1	2	4	0	3	2	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:122641181G>T	uc003efz.1	-	11	1690	c.1386C>A	c.(1384-1386)CCC>CCA	p.P462P	SEMA5B_uc011bju.1_Silent_p.P404P|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Silent_p.P462P|SEMA5B_uc010hro.1_Silent_p.P404P|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	462	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GGGTGACACAGGGCTCGGGTG	0.637													11	22					1.08611e-07	1.13409e-07	1	1	0		T	122641181	T	T	122641181	2	4	211	1	0	0	0	0	0	0	0	1	14063	987	35	5		5	SEMA5B	3	122641181	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1681882	122641181	75381249	385	102264											
ADCY5	111	broad.mit.edu	37	chr3	123010121	123010121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctcatcattgcgccgctCgcgggccaggaagtgagcgg	7	6	16	12	5	2	1	2	1	0	0	3	3	2	2	2	3	3	2	2	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:123010121C>T	uc003egh.1	-	18	3166	c.3166G>A	c.(3166-3168)GAG>AAG	p.E1056K	ADCY5_uc003egg.1_Missense_Mutation_p.E714K	NM_183357	NP_899200	O95622	ADCY5_HUMAN	adenylate cyclase 5	1056	Cytoplasmic (Potential).				activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)	4				GBM - Glioblastoma multiforme(114;0.0342)		TTGCGCCGCTCGCGGGCCAGG	0.602													29	78					0	0	1	0	0		T	123010121	T	T	123010121	3	4	211	1	0	0	0	0	1	0	0	0	297	893	31	1	635	1	ADCY5	3	123010121	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	368940	123010121	75012309	386	102265											
KALRN	8997	broad.mit.edu	37	chr3	123987740	123987740	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaacagcgccgtgcacctgCtctcgcgcctcgaggacctc	6	7	10	18	5	2	0	1	0	1	0	5	2	2	1	4	1	4	2	4	1	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:123987740C>T	uc003ehg.2	+	5	728	c.601C>T	c.(601-603)CTC>TTC	p.L201F	KALRN_uc010hrv.1_Missense_Mutation_p.L201F|KALRN_uc003ehf.1_Missense_Mutation_p.L201F|KALRN_uc011bjy.1_Missense_Mutation_p.L201F	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	201	Spectrin 1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						CGTGCACCTGCTCTCGCGCCT	0.597													3	23					0	0	1	0	0		T	123987740	T	T	123987740	3	4	211	1	0	0	0	0	1	0	0	0	7991	797	28	2	619	2	KALRN	3	123987740	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	977619	123987740	74034690	387	102266											
KALRN	8997	broad.mit.edu	37	chr3	123988090	123988090	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctgcggctcttcgagcaGgatgctgagaaggtaggaag	10	7	16	8	2	1	1	0	1	1	1	2	5	1	3	0	4	4	5	0	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:123988090G>T	uc003ehg.2	+	5	1078	c.951G>T	c.(949-951)CAG>CAT	p.Q317H	KALRN_uc010hrv.1_Missense_Mutation_p.Q317H|KALRN_uc003ehf.1_Missense_Mutation_p.Q317H|KALRN_uc011bjy.1_Missense_Mutation_p.Q317H	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	317	Spectrin 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						TCTTCGAGCAGGATGCTGAGA	0.562													19	54					1.96292e-10	2.083e-10	1	1	0		T	123988090	T	T	123988090	3	4	211	1	0	0	0	0	1	0	0	0	7991	991	35	5	969	5	KALRN	3	123988090	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	350	123988090	74034340	388	102267											
KALRN	8997	broad.mit.edu	37	chr3	124174121	124174121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gataaggaaatgggtgaccaCggtggacaagcactacagag	15	5	14	7	1	0	2	0	1	0	1	0	5	0	4	1	4	2	1	1	4	4	2	rs148828057		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:124174121C>T	uc003ehg.2	+	22	3771	c.3644C>T	c.(3643-3645)ACG>ATG	p.T1215M	KALRN_uc010hrv.1_Missense_Mutation_p.T1206M|KALRN_uc003ehf.1_Missense_Mutation_p.T1215M|KALRN_uc011bjy.1_Missense_Mutation_p.T1206M|KALRN_uc003ehh.1_Missense_Mutation_p.T561M	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1215	Spectrin 5.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						TGGGTGACCACGGTGGACAAG	0.498													17	76					0	0	1	0	0		T	124174121	T	T	124174121	3	4	211	1	0	0	0	0	1	0	0	0	7991	536	19	1	3730	1	KALRN	3	124174121	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	186031	124174121	73848309	389	102268											
ITGB5	3693	broad.mit.edu	37	chr3	124492757	124492757	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgcagtgacactcgccatGgcctaaaaggatacatgtgg	11	7	11	12	2	0	1	0	1	0	0	1	2	0	2	3	3	1	1	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:124492757G>T	uc003eho.2	-	11	1993	c.1696C>A	c.(1696-1698)CAT>AAT	p.H566N	ITGB5_uc010hrx.2_RNA|ITGB5_uc003ehp.1_RNA	NM_002213	NP_002204	P18084	ITB5_HUMAN	integrin, beta 5 precursor	566	III.|Extracellular (Potential).|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)		CACTCGCCATGGCCTAAAAGG	0.383													14	46					6.72482e-11	7.16804e-11	1	1	0		T	124492757	T	T	124492757	3	4	211	1	0	0	0	0	1	0	0	0	7914	1348	47	5	723	5	ITGB5	3	124492757	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	318636	124492757	73529673	390	102269											
PLXNA1	5361	broad.mit.edu	37	chr3	126730826	126730826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccacagatcctgccctccaCgcagatctacgtgccagtgg	8	7	9	17	2	1	2	0	0	1	2	3	2	3	2	5	1	3	1	5	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:126730826C>T	uc003ejg.2	+	9	2073	c.2069C>T	c.(2068-2070)ACG>ATG	p.T690M		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	713	Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CTGCCCTCCACGCAGATCTAC	0.612													23	86					0	0	1	0	0		T	126730826	T	T	126730826	3	4	211	1	0	0	0	0	1	0	0	0	12138	536	19	1	2172	1	PLXNA1	3	126730826	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2238069	126730826	71291604	391	102270											
PLXNA1	5361	broad.mit.edu	37	chr3	126749160	126749160	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caccggggctcagccctgccGctggccatcaagtacatgtt	7	8	11	15	2	2	0	2	0	0	0	2	0	2	0	4	3	3	4	4	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:126749160G>A	uc003ejg.2	+	28	5071	c.5067G>A	c.(5065-5067)CCG>CCA	p.P1689P	PLXNA1_uc003ejh.2_Silent_p.P357P	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1712	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CAGCCCTGCCGCTGGCCATCA	0.597													32	95					0	0	1	0	0		A	126749160	A	A	126749160	2	1	211	1	0	0	0	0	0	0	0	1	12138	1074	38	1		1	PLXNA1	3	126749160	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	18334	126749160	71273270	392	102271											
TPRA1	131601	broad.mit.edu	37	chr3	127295889	127295889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcatggataccacggcccGggcaatgcccaccagcgcca	9	4	11	17	4	1	0	1	0	0	0	1	1	1	1	5	3	3	1	5	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:127295889G>A	uc003ejl.2	-	3	580	c.289C>T	c.(289-291)CGG>TGG	p.R97W	TPRA1_uc003ejm.2_RNA|TPRA1_uc003ejo.2_Missense_Mutation_p.R97W|TPRA1_uc010hsk.2_Missense_Mutation_p.R97W|TPRA1_uc003ejn.2_Missense_Mutation_p.R97W	NM_016372	NP_057456	Q86W33	TPRA1_HUMAN	G protein-coupled receptor 175 isoform 1	97					aging|lipid metabolic process	integral to membrane	G-protein coupled receptor activity				0						ACCACGGCCCGGGCAATGCCC	0.652													18	63					0	0	1	0	0		A	127295889	A	A	127295889	3	1	211	1	0	0	0	0	1	0	0	0	16443	1115	39	1	864	1	TPRA1	3	127295889	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	546729	127295889	70726541	393	102272											
ABTB1	80325	broad.mit.edu	37	chr3	127394896	127394896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatccgccgggctctacgcGattacaagcaggtcacggct	8	7	11	15	5	2	0	1	0	1	0	3	1	3	0	3	3	3	3	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:127394896G>A	uc003ejt.2	+	4	347	c.259G>A	c.(259-261)GAT>AAT	p.D87N	ABTB1_uc003ejr.2_5'UTR|ABTB1_uc003ejs.2_Missense_Mutation_p.D62N|ABTB1_uc003eju.2_5'UTR|ABTB1_uc010hsm.2_5'Flank	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	87						cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						GGCTCTACGCGATTACAAGCA	0.652													9	36					0	0	1	0	0		A	127394896	A	A	127394896	3	1	211	1	0	0	0	0	1	0	0	0	102	1058	37	1	273	1	ABTB1	3	127394896	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	99007	127394896	70627534	394	102273											
ACAD9	28976	broad.mit.edu	37	chr3	128628217	128628217	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acaagtttgaggagaacaccTactgcttcggccggaccgtg	10	8	12	11	3	0	2	0	1	0	1	1	4	0	3	3	3	3	2	3	3	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:128628217T>C	uc003ela.3	+	15	1718	c.1516T>C	c.(1516-1518)TAC>CAC	p.Y506H	ACAD9_uc011bks.1_Missense_Mutation_p.Y383H|ACAD9_uc003elb.2_Missense_Mutation_p.Y383H|ACAD9_uc003eld.1_RNA|ACAD9_uc003ele.2_Missense_Mutation_p.Y158H	NM_014049	NP_054768	Q9H845	ACAD9_HUMAN	acyl-Coenzyme A dehydrogenase family, member 9	506						mitochondrion	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding			ovary(2)|central_nervous_system(1)	3						GGAGAACACCTACTGCTTCGG	0.592													28	76					0	0	1	0	0		C	128628217	C	C	128628217	3	2	211	1	0	0	0	0	1	0	0	0	111	1522	53	3	1574	3	ACAD9	3	128628217	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1233321	128628217	69394213	395	102274											
PLXND1	23129	broad.mit.edu	37	chr3	129280700	129280700	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttccaccactgaggtgtcGtccaggtcccgaaggatgta	8	10	11	12	2	1	1	0	1	1	0	5	3	4	2	4	3	0	1	4	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:129280700G>A	uc003emx.2	-	28	4972	c.4872C>T	c.(4870-4872)GAC>GAT	p.D1624D	PLXND1_uc011blb.1_Silent_p.D292D	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1624	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						CTGAGGTGTCGTCCAGGTCCC	0.652													17	79					0	0	1	0	0		A	129280700	A	A	129280700	2	1	211	1	0	0	0	0	0	0	0	1	12146	1136	40	1		1	PLXND1	3	129280700	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	652483	129280700	68741730	396	102275											
TF	7018	broad.mit.edu	37	chr3	133465297	133465297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggaagatgaggctcgccGtgggagccctgctggtctgc	5	7	16	13	3	1	2	0	1	1	1	2	4	1	4	3	4	3	2	3	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:133465297G>A	uc003epu.1	+	6	1741	c.13G>A	c.(13-15)GTG>ATG	p.V5M	TF_uc011bls.1_Missense_Mutation_p.V5M|TF_uc011blt.1_Translation_Start_Site|TF_uc003epw.1_Missense_Mutation_p.V5M|TF_uc010htv.1_Intron|TF_uc003epv.1_Missense_Mutation_p.V5M	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	5					cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	GAGGCTCGCCGTGGGAGCCCT	0.716													7	14					0	0	1	0	0		A	133465297	A	A	133465297	3	1	211	1	0	0	0	0	1	0	0	0	15810	1145	40	1	15	1	TF	3	133465297	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4184597	133465297	64557133	397	102276											
CEP63	80254	broad.mit.edu	37	chr3	134270808	134270808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcactcaaattagaaaatcGtcatctttctgaaatggtga	14	13	7	7	1	5	3	3	2	2	1	6	3	5	3	0	1	0	0	0	1	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:134270808G>A	uc003eqo.1	+	13	1870	c.1421G>A	c.(1420-1422)CGT>CAT	p.R474H	CEP63_uc003eql.1_Missense_Mutation_p.R428H|CEP63_uc003eqm.2_Missense_Mutation_p.R428H|CEP63_uc003eqn.1_Missense_Mutation_p.R474H|CEP63_uc003eqp.1_Missense_Mutation_p.R103H	NM_025180	NP_079456	Q96MT8	CEP63_HUMAN	centrosomal protein 63 isoform a	474	Potential.				cell division|DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitosis|signal transduction in response to DNA damage|spindle assembly	centrosome|cytosol|spindle pole	protein binding			ovary(1)	1						TTAGAAAATCGTCATCTTTCT	0.308													25	93					0	0	1	0	0		A	134270808	A	A	134270808	3	1	211	1	0	0	0	0	1	0	0	0	3260	1145	40	1	1463	1	CEP63	3	134270808	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	805511	134270808	63751622	398	102277											
PCCB	5096	broad.mit.edu	37	chr3	136046531	136046531	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacctttgtggtgataccaActatgcctggcccaccgcag	8	9	10	14	1	0	1	0	1	0	0	0	1	0	1	5	2	3	2	5	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:136046531A>G	uc003eqy.1	+	13	1406	c.1355A>G	c.(1354-1356)AAC>AGC	p.N452S	PCCB_uc003eqz.1_Missense_Mutation_p.N452S|PCCB_uc011bmc.1_Missense_Mutation_p.N472S	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta	452	Carboxyltransferase.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	GGTGATACCAACTATGCCTGG	0.522													20	39					0	0	1	0	0		G	136046531	G	G	136046531	3	3	211	1	0	0	0	0	1	0	0	0	11524	43	2	3	1469	3	PCCB	3	136046531	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1775723	136046531	61975899	399	102278											
CLDN18	51208	broad.mit.edu	37	chr3	137742517	137742517	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagccatgctgcaggcagtgCgagccctgatgatcgtaggc	8	7	14	12	2	0	2	0	2	0	0	1	3	0	2	2	2	5	4	2	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:137742517C>T	uc003ero.1	+	2	291	c.238C>T	c.(238-240)CGA>TGA	p.R80*	CLDN18_uc003erp.1_Nonsense_Mutation_p.R80*|CLDN18_uc010hue.1_Missense_Mutation_p.A75V	NM_001002026	NP_001002026	P56856	CLD18_HUMAN	claudin 18 isoform 2	80	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity	p.R80R(1)		upper_aerodigestive_tract(1)|ovary(1)	2						GCAGGCAGTGCGAGCCCTGAT	0.522													19	53					0	0	1	0	0		T	137742517	T	T	137742517	4	4	211	1	0	0	0	0	0	1	0	0	3482	760	27	1	468	1	CLDN18	3	137742517	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1695986	137742517	60279913	400	102279											
ATR	545	broad.mit.edu	37	chr3	142278281	142278281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgacagtccttgaaagtaCggctgcagtaagtacatttt	11	13	10	7	1	0	2	0	2	0	0	1	2	1	2	1	1	3	6	1	1	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:142278281C>T	uc003eux.3	-	7	1666	c.1544G>A	c.(1543-1545)CGT>CAT	p.R515H		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	515					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|skin(5)|breast(4)|ovary(3)|stomach(1)|central_nervous_system(1)|liver(1)	20						CTTGAAAGTACGGCTGCAGTA	0.318								Other_conserved_DNA_damage_response_genes					5	27					0	0	1	0	0		T	142278281	T	T	142278281	3	4	211	1	0	0	0	0	1	0	0	0	1205	536	19	1	6554	1	ATR	3	142278281	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4535764	142278281	55744149	401	102280											
ZIC4	84107	broad.mit.edu	37	chr3	147108942	147108942	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcacgtgtatggcttgtcGctagtgtgcacgtgcgaatg	6	13	14	8	4	0	0	0	0	0	0	1	1	0	0	0	1	3	5	0	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:147108942G>A	uc003ewd.1	-	4	1053	c.780C>T	c.(778-780)AGC>AGT	p.S260S	ZIC4_uc003ewc.1_Silent_p.S190S|ZIC4_uc011bno.1_Silent_p.S310S	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	260						nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						ATGGCTTGTCGCTAGTGTGCA	0.647													15	35					0	0	1	0	0		A	147108942	A	A	147108942	2	1	211	1	0	0	0	0	0	0	0	1	17706	1078	38	1		1	ZIC4	3	147108942	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4830661	147108942	50913488	402	102281											
DHX36	170506	broad.mit.edu	37	chr3	154002398	154002398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgcattcacaactgttaagtGatcacttctagtatcctttg	10	15	6	10	1	3	1	2	1	1	0	4	1	4	1	1	0	1	3	1	0	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:154002398G>A	uc003ezy.3	-	19	2347	c.2266C>T	c.(2266-2268)CAC>TAC	p.H756Y	DHX36_uc010hvq.2_Missense_Mutation_p.H742Y|DHX36_uc003ezz.3_Intron	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	756						cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			ACTGTTAAGTGATCACTTCTA	0.303													4	13					0	0	1	0	0		A	154002398	A	A	154002398	3	1	211	1	0	0	0	0	1	0	0	0	4515	1290	45	4	788	4	DHX36	3	154002398	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6893456	154002398	44020032	403	102282											
PTX3	5806	broad.mit.edu	37	chr3	157155333	157155333	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcggtcaggagcactcGgaatgggacaagctcttcat	9	8	13	11	2	3	0	2	0	1	0	4	3	3	3	1	4	3	2	1	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:157155333G>A	uc003fbl.3	+	2	305	c.162G>A	c.(160-162)TCG>TCA	p.S54S	VEPH1_uc003fbj.1_Intron|VEPH1_uc003fbk.1_Intron|VEPH1_uc010hvu.1_Intron	NM_002852	NP_002843	P26022	PTX3_HUMAN	pentraxin 3 precursor	54					inflammatory response	extracellular region				central_nervous_system(1)	1			Lung(72;0.0272)|LUSC - Lung squamous cell carcinoma(72;0.0461)			AGGAGCACTCGGAATGGGACA	0.612													3	11					0	0	1	0	0		A	157155333	A	A	157155333	2	1	211	1	0	0	0	0	0	0	0	1	12847	1103	39	1		1	PTX3	3	157155333	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3152935	157155333	40867097	404	102283											
NMD3	51068	broad.mit.edu	37	chr3	160958926	160958926	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgagtaaccagtgccattcaCctcattgatccaaacaccct	12	9	5	15	1	2	1	2	1	0	0	3	2	3	1	5	0	3	1	5	0	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:160958926C>T	uc003feb.1	+	10	965	c.846C>T	c.(844-846)CAC>CAT	p.H282H	NMD3_uc003fec.2_Silent_p.H282H|NMD3_uc003fed.1_Silent_p.H282H|NMD3_uc010hwh.2_Silent_p.H102H	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	282					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			GTGCCATTCACCTCATTGATC	0.363													15	59					0	0	1	0	0		T	160958926	T	T	160958926	2	4	211	1	0	0	0	0	0	0	0	1	10507	506	18	4		4	NMD3	3	160958926	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3803593	160958926	37063504	405	102284											
PLD1	5337	broad.mit.edu	37	chr3	171379954	171379954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaccaatcagcagcagagcGgagcaactacaaggcagcaa	17	2	11	11	1	1	2	1	0	0	2	1	3	1	3	1	2	7	5	1	2	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:171379954G>A	uc003fhs.2	-	20	2352	c.2236C>T	c.(2236-2238)CGC>TGC	p.R746C	PLD1_uc003fht.2_Missense_Mutation_p.R708C|PLD1_uc003fhu.3_Missense_Mutation_p.R40C|PLD1_uc003fhv.1_Missense_Mutation_p.R71C	NM_002662	NP_002653	Q13393	PLD1_HUMAN	phospholipase D1 isoform a	746	Catalytic.				cell communication|chemotaxis|Ras protein signal transduction	endoplasmic reticulum membrane|Golgi membrane|late endosome membrane|perinuclear region of cytoplasm	NAPE-specific phospholipase D activity|phosphatidylinositol binding|phospholipase D activity			ovary(2)|lung(1)	3	all_cancers(22;4.53e-19)|Ovarian(172;0.00197)|Breast(254;0.186)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)		Choline(DB00122)	GCAGCAGAGCGGAGCAACTAC	0.428													15	44					0	0	1	0	0		A	171379954	A	A	171379954	3	1	211	1	0	0	0	0	1	0	0	0	12064	1116	39	1	1020	1	PLD1	3	171379954	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10421028	171379954	26642476	406	102285											
NLGN1	22871	broad.mit.edu	37	chr3	173996996	173996996	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgttgaaaatatagtagataGcgatgatggtatatcagcta	15	13	10	3	1	1	3	1	2	0	1	1	4	1	3	0	1	2	4	0	1	9	8	rs76946997	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:173996996G>A	uc003fio.1	+	6	1628	c.1205G>A	c.(1204-1206)AGC>AAC	p.S402N	NLGN1_uc010hww.1_Missense_Mutation_p.S442N|NLGN1_uc003fip.1_Missense_Mutation_p.S402N	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	419	Extracellular (Potential).				calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			ATAGTAGATAGCGATGATGGT	0.348													28	60					0	0	1	0	0		A	173996996	A	A	173996996	3	1	211	1	0	0	0	0	1	0	0	0	10480	971	34	2	1219	2	NLGN1	3	173996996	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2617042	173996996	24025434	407	102286											
PIK3CA	5290	broad.mit.edu	37	chr3	178916890	178916890	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagacgactttgtgaccttCggctttttcaacccttttta	8	16	6	11	2	1	2	1	1	0	1	2	3	1	2	2	1	1	1	2	1	3	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:178916890C>T	uc003fjk.2	+	2	434	c.277C>T	c.(277-279)CGG>TGG	p.R93W		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	93	PI3K-ABD.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.R93W(5)|p.R93Q(3)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TTGTGACCTTCGGCTTTTTCA	0.343		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			28	75					0	0	1	0	0		T	178916890	T	T	178916890	3	4	211	1	0	0	0	0	1	0	0	0	11932	875	31	1	279	1	PIK3CA	3	178916890	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4919894	178916890	19105540	408	102287											
PIK3CA	5290	broad.mit.edu	37	chr3	178952006	178952006	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcttttgatgacattgcaTacattcgaaagaccctagcc	13	12	6	10	1	1	3	0	2	1	1	2	4	1	3	2	0	3	1	2	0	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:178952006T>C	uc003fjk.2	+	21	3218	c.3061T>C	c.(3061-3063)TAC>CAC	p.Y1021H		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1021	PI3K/PI4K.		Y -> C (in cancer).|Y -> H (in cancer).|Y -> N (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.Y1021C(17)|p.Y1021H(2)|p.Y1021N(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGACATTGCATACATTCGAAA	0.388		57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			23	45					0	0	1	0	0		C	178952006	C	C	178952006	3	2	211	1	0	0	0	0	1	0	0	0	11932	1406	49	3	3139	3	PIK3CA	3	178952006	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	35116	178952006	19070424	409	102288											
ATP11B	23200	broad.mit.edu	37	chr3	182584192	182584192	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttggagtactatgcatCttcaccagatgaaaaggctc	12	10	10	9	0	2	2	1	1	1	1	3	3	2	3	1	2	2	5	1	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:182584192C>A	uc003flb.2	+	14	1837	c.1580C>A	c.(1579-1581)TCT>TAT	p.S527Y	ATP11B_uc003flc.2_Missense_Mutation_p.S111Y	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	527	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	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)			TACTATGCATCTTCACCAGAT	0.413													25	62					2.65835e-16	2.88793e-16	1	1	0		A	182584192	A	A	182584192	3	1	211	1	0	0	0	0	1	0	0	0	1121	913	32	5	1634	5	ATP11B	3	182584192	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3632186	182584192	15438238	410	102289											
ATP11B	23200	broad.mit.edu	37	chr3	182586903	182586903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttctggaatttgattcagatCgtaggagaatgagtgtaatt	12	15	11	3	1	2	4	1	2	1	2	3	6	2	5	0	2	0	2	0	2	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:182586903C>T	uc003flb.2	+	16	1983	c.1726C>T	c.(1726-1728)CGT>TGT	p.R576C	ATP11B_uc003flc.2_Missense_Mutation_p.R160C	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	576	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	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)			TGATTCAGATCGTAGGAGAAT	0.274													12	34					0	0	1	0	0		T	182586903	T	T	182586903	3	4	211	1	0	0	0	0	1	0	0	0	1121	884	31	1	1788	1	ATP11B	3	182586903	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2711	182586903	15435527	411	102290											
MCF2L2	23101	broad.mit.edu	37	chr3	183027529	183027529	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttttttcctccagttttttgTgttccttaagaatctgctcc	5	21	5	10	0	1	1	0	0	1	1	5	1	5	1	4	0	1	3	4	0	2	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:183027529T>C	uc003fli.1	-	10	1178	c.1088A>G	c.(1087-1089)CAC>CGC	p.H363R	MCF2L2_uc003flj.1_Missense_Mutation_p.H363R|MCF2L2_uc003flp.1_3'UTR|MCF2L2_uc011bqs.1_RNA	NM_015078	NP_055893	Q86YR7	MF2L2_HUMAN	Rho family guanine-nucleotide exchange factor	363	Spectrin.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(2)|large_intestine(2)|breast(1)	5	all_cancers(143;1.26e-12)|Ovarian(172;0.0355)		all cancers(12;3.35e-44)|Epithelial(37;6.48e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			CAGTTTTTTGTGTTCCTTAAG	0.458													6	101					0	0	1	0	0		C	183027529	C	C	183027529	3	2	211	1	0	0	0	0	1	0	0	0	9398	1696	59	3	2340	3	MCF2L2	3	183027529	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	440626	183027529	14994901	412	102291											
DVL3	1857	broad.mit.edu	37	chr3	183888240	183888240	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcagcagcctgcgggggccGcgggagcgggcgcccagcga	5	1	20	15	7	0	0	0	0	0	0	0	2	0	1	3	4	5	2	3	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:183888240G>A	uc003fms.2	+	15	1988	c.1848G>A	c.(1846-1848)CCG>CCA	p.P616P	DVL3_uc011bqw.1_Silent_p.P599P|DVL3_uc003fmt.2_Silent_p.P287P|DVL3_uc003fmu.2_Silent_p.P448P	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	616					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			TGCGGGGGCCGCGGGAGCGGG	0.731													5	7					0	0	1	0	0		A	183888240	A	A	183888240	2	1	211	1	0	0	0	0	0	0	0	1	4843	1074	38	1		1	DVL3	3	183888240	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	860711	183888240	14134190	413	102292											
AP2M1	1173	broad.mit.edu	37	chr3	183899533	183899533	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccttccaccagtgtgtgCgactcagcaagtttgactct	8	11	9	13	1	2	1	1	1	1	0	3	2	3	1	3	0	2	3	3	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:183899533C>T	uc011bqx.1	+	8	914	c.757C>T	c.(757-759)CGA>TGA	p.R253*	AP2M1_uc003fmw.2_Nonsense_Mutation_p.R251*|AP2M1_uc003fmx.2_Nonsense_Mutation_p.R181*|AP2M1_uc003fmy.2_Nonsense_Mutation_p.R251*|AP2M1_uc011bqy.1_Nonsense_Mutation_p.R123*|AP2M1_uc011bqz.1_Nonsense_Mutation_p.R69*	NM_004068	NP_004059	Q96CW1	AP2M1_HUMAN	adaptor-related protein complex 2, mu 1 subunit	253	MHD.				axon guidance|cellular membrane organization|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|vesicle-mediated transport|viral reproduction	clathrin adaptor complex|clathrin coat of coated pit|cytosol|endocytic vesicle membrane|peroxisomal membrane	lipid binding|protein binding|transporter activity				0	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.92e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CCAGTGTGTGCGACTCAGCAA	0.522													24	63					0	0	1	0	0		T	183899533	T	T	183899533	4	4	211	1	0	0	0	0	0	1	0	0	742	760	27	1	780	1	AP2M1	3	183899533	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	11293	183899533	14122897	414	102293											
ECE2	9718	broad.mit.edu	37	chr3	183995760	183995760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagctgagcagaagacacagCgcttctacctatcttgccta	12	9	8	12	1	2	3	0	1	2	2	2	3	2	3	2	0	5	3	2	0	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:183995760C>T	uc003fni.3	+	5	918	c.880C>T	c.(880-882)CGC>TGC	p.R294C	ECE2_uc011brg.1_Missense_Mutation_p.R222C|ECE2_uc011brh.1_Missense_Mutation_p.R147C|ECE2_uc003fnl.3_Missense_Mutation_p.R222C|ECE2_uc003fnm.3_Missense_Mutation_p.R176C|ECE2_uc003fnk.3_Missense_Mutation_p.R147C|ECE2_uc011bri.1_Missense_Mutation_p.R209C|ECE2_uc010hxv.2_5'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	294	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAAGACACAGCGCTTCTACCT	0.557													33	55					0	0	1	0	0		T	183995760	T	T	183995760	3	4	211	1	0	0	0	0	1	0	0	0	4896	768	27	1	1462	1	ECE2	3	183995760	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	96227	183995760	14026670	415	102294											
EIF4G1	1981	broad.mit.edu	37	chr3	184040890	184040890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccaataaaacaccactgcGgccactggatcccactagac	13	5	8	15	1	0	1	0	0	0	1	1	2	1	2	4	3	2	0	4	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:184040890G>A	uc003fnp.2	+	14	2147	c.1949G>A	c.(1948-1950)CGG>CAG	p.R650Q	EIF4G1_uc003fno.1_Missense_Mutation_p.R591Q|EIF4G1_uc010hxw.1_Missense_Mutation_p.R486Q|EIF4G1_uc003fnt.2_Missense_Mutation_p.R361Q|EIF4G1_uc003fnq.2_Missense_Mutation_p.R563Q|EIF4G1_uc003fnr.2_Missense_Mutation_p.R486Q|EIF4G1_uc010hxx.2_Missense_Mutation_p.R657Q|EIF4G1_uc003fns.2_Missense_Mutation_p.R610Q|EIF4G1_uc010hxy.2_Missense_Mutation_p.R657Q|EIF4G1_uc003fnv.3_Missense_Mutation_p.R650Q|EIF4G1_uc003fnu.3_Missense_Mutation_p.R650Q|EIF4G1_uc003fnw.2_Missense_Mutation_p.R657Q|EIF4G1_uc003fnx.2_Missense_Mutation_p.R454Q|EIF4G1_uc003fny.3_Missense_Mutation_p.R454Q|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	650	MIF4G.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACACCACTGCGGCCACTGGAT	0.547													49	117					0	0	1	0	0		A	184040890	A	A	184040890	3	1	211	1	0	0	0	0	1	0	0	0	5044	1116	39	1	1995	1	EIF4G1	3	184040890	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	45130	184040890	13981540	416	102295											
EIF4G1	1981	broad.mit.edu	37	chr3	184042855	184042855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtcccttgagtgcctttgtCgtctgctcaccaccattggc	5	13	9	14	1	2	1	1	1	1	0	4	1	3	1	4	1	2	1	4	1	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:184042855C>T	uc003fnp.2	+	18	3007	c.2809C>T	c.(2809-2811)CGT>TGT	p.R937C	EIF4G1_uc003fno.1_Missense_Mutation_p.R878C|EIF4G1_uc010hxw.1_Missense_Mutation_p.R773C|EIF4G1_uc003fnt.2_Missense_Mutation_p.R648C|EIF4G1_uc003fnq.2_Missense_Mutation_p.R850C|EIF4G1_uc003fnr.2_Missense_Mutation_p.R773C|EIF4G1_uc010hxx.2_Missense_Mutation_p.R944C|EIF4G1_uc003fns.2_Missense_Mutation_p.R897C|EIF4G1_uc010hxy.2_Missense_Mutation_p.R944C|EIF4G1_uc003fnv.3_Missense_Mutation_p.R938C|EIF4G1_uc003fnu.3_Missense_Mutation_p.R937C|EIF4G1_uc003fnw.2_Missense_Mutation_p.R944C|EIF4G1_uc003fnx.2_Missense_Mutation_p.R742C|EIF4G1_uc003fny.3_Missense_Mutation_p.R741C|SNORD66_uc003fnz.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	937	eIF3/EIF4A-binding.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GTGCCTTTGTCGTCTGCTCAC	0.478													26	71					0	0	1	0	0		T	184042855	T	T	184042855	3	4	211	1	0	0	0	0	1	0	0	0	5044	884	31	1	2871	1	EIF4G1	3	184042855	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1965	184042855	13979575	417	102296											
CLCN2	1181	broad.mit.edu	37	chr3	184072414	184072414	+	Missense_Mutation	SNP	T	C	C	0	1	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	atctgggaaccaggcagccaTgctttcacccaccagacgcc	10	6	9	16	1	2	1	1	0	1	1	2	2	2	2	5	2	3	2	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:184072414T>C	uc003foi.2	-	14	1553	c.1429A>G	c.(1429-1431)ATG>GTG	p.M477V	CLCN2_uc003foh.2_Missense_Mutation_p.M1V|CLCN2_uc010hya.1_Intron|CLCN2_uc011brl.1_Missense_Mutation_p.M477V|CLCN2_uc011brm.1_Missense_Mutation_p.M433V	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	477	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	CAGGCAGCCATGCTTTCACCC	0.408											OREG0015949	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	46					0	0	1	0	0		C	184072414	C	C	184072414	3	2	211	1	0	0	0	0	1	0	0	0	3466	1464	51	3	1311	3	CLCN2	3	184072414	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	29559	184072414	13950016	418	102297											
THPO	7066	broad.mit.edu	37	chr3	184090422	184090422	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagctggaccacaggggtgGgcaaggtgggtggaagaggg	9	4	23	5	0	0	1	0	0	0	1	0	4	0	4	1	9	1	2	1	9	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:184090422G>T	uc003fol.1	-	6	1156	c.941C>A	c.(940-942)CCC>CAC	p.P314H	THPO_uc003fom.1_Missense_Mutation_p.P310H|THPO_uc003fon.2_Silent_p.A275A|THPO_uc011bro.1_Intron|THPO_uc003fop.2_Silent_p.A271A|THPO_uc011brp.1_Intron|THPO_uc011brq.1_Silent_p.A235A	NM_000460	NP_000451	P40225	TPO_HUMAN	thrombopoietin precursor	314	Pro-rich.				cell proliferation|platelet activation	extracellular space	cytokine activity|growth factor activity|hormone activity			ovary(1)	1	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CACAGGGGTGGGCAAGGTGGG	0.602													39	93					4.14481e-20	4.54176e-20	1	1	0		T	184090422	T	T	184090422	3	4	211	1	0	0	0	0	1	0	0	0	15897	1232	43	5	124	5	THPO	3	184090422	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	18008	184090422	13932008	419	102298											
CHRD	8646	broad.mit.edu	37	chr3	184104713	184104713	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caggctcccgaccagtgctgCcctgtttgccctggtgagtt	4	11	12	14	1	0	1	0	1	0	0	1	2	1	1	4	2	3	4	4	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:184104713C>T	uc003fov.2	+	17	2523	c.2277C>T	c.(2275-2277)TGC>TGT	p.C759C	CHRD_uc003fow.2_Silent_p.C389C|CHRD_uc003fox.2_Silent_p.C759C|CHRD_uc003foy.2_Silent_p.C389C|CHRD_uc010hyc.2_Silent_p.C349C|CHRD_uc011brr.1_Silent_p.C301C	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	759	VWFC 2.				BMP signaling pathway involved in spinal cord dorsal/ventral patterning|floor plate development|negative regulation of BMP signaling pathway|negative regulation of cell migration|positive regulation of cell adhesion|skeletal system development	extracellular space	cytokine binding			skin(2)|ovary(1)	3	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			ACCAGTGCTGCCCTGTTTGCC	0.662													14	45					0	0	1	0	0		T	184104713	T	T	184104713	2	4	211	1	0	0	0	0	0	0	0	1	3375	747	26	2		2	CHRD	3	184104713	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	14291	184104713	13917717	420	102299											
MAGEF1	64110	broad.mit.edu	37	chr3	184428773	184428773	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctggccctgtcggcctcGtctgctagggcctcacggta	3	10	13	15	3	3	0	1	0	2	0	5	0	3	0	3	4	1	3	3	4	2	2	rs142008611		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:184428773G>A	uc003fpa.2	-	1	1064	c.837C>T	c.(835-837)GAC>GAT	p.D279D		NM_022149	NP_071432	Q9HAY2	MAGF1_HUMAN	melanoma antigen family F, 1	279										ovary(1)	1	all_cancers(143;4.61e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;5.64e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.56e-22)			tGTCGGCCTCGTCTGCTAGGG	0.408													5	35					0	0	1	0	0		A	184428773	A	A	184428773	2	1	211	1	0	0	0	0	0	0	0	1	9205	1136	40	1		1	MAGEF1	3	184428773	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	324060	184428773	13593657	421	102300											
MAP3K13	9175	broad.mit.edu	37	chr3	185190867	185190867	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacttctagcagcaagagccGatatcgaagcaaaccacgcc	14	5	8	14	3	1	1	0	0	1	1	2	3	1	1	3	0	5	3	3	0	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:185190867G>A	uc010hyf.2	+	12	2014	c.1748G>A	c.(1747-1749)CGA>CAA	p.R583Q	MAP3K13_uc011brt.1_Missense_Mutation_p.R376Q|MAP3K13_uc011bru.1_Missense_Mutation_p.R439Q|MAP3K13_uc003fpi.2_Missense_Mutation_p.R583Q|MAP3K13_uc010hyg.2_Missense_Mutation_p.R273Q	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	583					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			AGCAAGAGCCGATATCGAAGC	0.537													72	222					0	0	1	0	0		A	185190867	A	A	185190867	3	1	211	1	0	0	0	0	1	0	0	0	9265	1058	37	1	1786	1	MAP3K13	3	185190867	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	762094	185190867	12831563	422	102301											
HRG	3273	broad.mit.edu	37	chr3	186395317	186395317	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccatggacaccatccccactGccatgatttccaagactatg	11	9	6	15	0	0	2	0	1	0	1	2	3	2	3	6	1	1	0	6	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:186395317G>A	uc003fqq.2	+	7	1246	c.1223G>A	c.(1222-1224)TGC>TAC	p.C408Y		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	408	His/Pro-rich (HRR).				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		catccccactgccatGATTTC	0.269													8	10					0	0	1	0	0		A	186395317	A	A	186395317	3	1	211	1	0	0	0	0	1	0	0	0	7370	1319	46	2	1249	2	HRG	3	186395317	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1204450	186395317	11627113	423	102302											
BCL6	604	broad.mit.edu	37	chr3	187440320	187440320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccttggtgttggtgatggCgccatgcttctggcgcaagt	5	12	14	10	2	1	1	0	1	1	0	1	1	1	1	2	4	1	3	2	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:187440320C>T	uc003frp.3	-	10	2504	c.2047G>A	c.(2047-2049)GCC>ACC	p.A683T	BCL6_uc011bsf.1_Missense_Mutation_p.A627T|BCL6_uc010hza.2_Missense_Mutation_p.A581T|BCL6_uc003frq.1_Missense_Mutation_p.A683T	NM_001130845	NP_001124317	P41182	BCL6_HUMAN	B-cell lymphoma 6 protein isoform 1	683					negative regulation of B cell apoptosis|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|protein import into nucleus, translocation|regulation of germinal center formation|response to DNA damage stimulus	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|lung(2)|central_nervous_system(1)	5	all_cancers(143;9.45e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0141)		TTGGTGATGGCGCCATGCTTC	0.542			T|Mis	IG loci|ZNFN1A1|LCP1|PIM1|TFRC|MHC2TA|NACA|HSPCB|HSPCA|HIST1H4I|IL21R| POU2AF1|ARHH|EIF4A2|SFRS3	NHL|CLL								26	64					0	0	1	0	0		T	187440320	T	T	187440320	3	4	211	1	0	0	0	0	1	0	0	0	1377	768	27	1	77	1	BCL6	3	187440320	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1045003	187440320	10582110	424	102303											
MUC4	4585	broad.mit.edu	37	chr3	195486029	195486029	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcggtgcagctgtctctgagCgtgaagttggcatcctcagc	6	11	13	11	2	2	2	1	2	1	0	5	2	3	2	1	2	4	4	1	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:195486029C>T	uc011bto.1	-	18	15028	c.14568G>A	c.(14566-14568)ACG>ACA	p.T4856T	MUC4_uc003fuz.2_Silent_p.T582T|MUC4_uc003fva.2_Silent_p.T464T|MUC4_uc003fvb.2_Silent_p.T500T|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.T500T|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Silent_p.T464T|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Silent_p.T548T|MUC4_uc011bti.1_Silent_p.T548T|MUC4_uc011btj.1_Silent_p.T725T|MUC4_uc011btk.1_Silent_p.T464T|MUC4_uc011btl.1_Silent_p.T493T|MUC4_uc011btm.1_Silent_p.T673T|MUC4_uc011btn.1_Silent_p.T464T|MUC4_uc003fvo.2_Silent_p.T748T|MUC4_uc003fvp.2_Silent_p.T697T	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1741					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TGTCTCTGAGCGTGAAGTTGG	0.547													74	236					0	0	1	0	0		T	195486029	T	T	195486029	2	4	211	1	0	0	0	0	0	0	0	1	9996	755	27	1		1	MUC4	3	195486029	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8045709	195486029	2536401	425	102304											
MUC4	4585	broad.mit.edu	37	chr3	195495900	195495900	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcccatcctacctagagaAgcccatgagcaccgggttgc	9	7	9	16	1	0	2	0	1	0	1	2	3	2	2	6	1	4	2	6	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:195495900A>C	uc011bto.1	-	8	13598	c.13138T>G	c.(13138-13140)TTC>GTC	p.F4380V	MUC4_uc003fuz.2_Silent_p.A135A|MUC4_uc003fva.2_Intron|MUC4_uc003fvb.2_Silent_p.A53A|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Silent_p.A53A|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.F72V|MUC4_uc011bti.1_Missense_Mutation_p.F72V|MUC4_uc011btj.1_Missense_Mutation_p.F249V|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Missense_Mutation_p.F17V|MUC4_uc011btm.1_Missense_Mutation_p.F197V|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Missense_Mutation_p.F272V|MUC4_uc003fvp.2_Missense_Mutation_p.F221V|MUC4_uc010hzu.1_Missense_Mutation_p.F1120V	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1265	NIDO.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TACCTAGAGAAGCCCATGAGC	0.632													6	28					0	0	1	0	0		C	195495900	C	C	195495900	3	2	211	1	0	0	0	0	1	0	0	0	9996	72	3	5	2792	5	MUC4	3	195495900	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	9871	195495900	2526530	426	102305											
C3orf43	255798	broad.mit.edu	37	chr3	196236458	196236458	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgccaaagccttactatgatGttcgaatttctgcatcaggt	10	14	8	9	1	2	1	1	1	1	0	3	2	2	1	2	1	4	2	2	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:196236458G>A	uc003fws.2	-	2	290	c.133C>T	c.(133-135)CAT>TAT	p.H45Y	C3orf43_uc003fwr.2_Missense_Mutation_p.H37Y	NM_001077657	NP_001071125	Q147U7	CC043_HUMAN	hypothetical protein LOC255798	45						integral to membrane				ovary(1)	1	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;2.13e-23)|all cancers(36;2e-21)|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;0.00298)		TTACTATGATGTTCGAATTTC	0.443													15	52					0	0	1	0	0		A	196236458	A	A	196236458	3	1	211	1	0	0	0	0	1	0	0	0	2233	1377	48	4	519	4	C3orf43	3	196236458	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	740558	196236458	1785972	427	102306											
C3orf43	255798	broad.mit.edu	37	chr3	196242058	196242058	+	Missense_Mutation	SNP	A	G	G	1	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	ttgcctccttcaaggatatcAgggttgtggtttcattgttc	6	17	10	8	0	3	0	3	0	0	0	5	1	4	1	2	3	1	3	2	3	2	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:196242058A>G	uc003fws.2	-	1	180	c.23T>C	c.(22-24)CTG>CCG	p.L8P	C3orf43_uc003fwr.2_5'UTR	NM_001077657	NP_001071125	Q147U7	CC043_HUMAN	hypothetical protein LOC255798	8	Potential.					integral to membrane				ovary(1)	1	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;2.13e-23)|all cancers(36;2e-21)|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;0.00298)		CAAGGATATCAGGGTTGTGGT	0.328													52	112					0	0	1	0	0		G	196242058	G	G	196242058	3	3	211	1	0	0	0	0	1	0	0	0	2233	188	7	3	633	3	C3orf43	3	196242058	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	5600	196242058	1780372	428	102307											
MFI2	4241	broad.mit.edu	37	chr3	196735805	196735805	+	Silent	SNP	C	T	T	0	0	0	1	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	ttcttggggttgttcacgggCacgcagctggcattgaagaa	8	11	14	8	2	2	2	1	1	1	1	2	2	2	2	0	4	1	6	0	4	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:196735805C>T	uc003fxk.3	-	12	1670	c.1557G>A	c.(1555-1557)GTG>GTA	p.V519V		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	519	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		TGTTCACGGGCACGCAGCTGG	0.642													34	85					0	0	1	0	0		T	196735805	T	T	196735805	2	4	211	1	0	0	0	0	0	0	0	1	9540	697	25	2		2	MFI2	3	196735805	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	493747	196735805	1286625	429	102308											
BDH1	622	broad.mit.edu	37	chr3	197239184	197239184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgatgcagtacggggagCgggccgggttggccatgcgg	5	7	21	8	4	0	1	0	1	0	0	0	2	0	2	2	7	4	3	2	7	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:197239184C>T	uc003fxr.2	-	8	1016	c.614G>A	c.(613-615)CGC>CAC	p.R205H	BDH1_uc003fxs.2_Missense_Mutation_p.R205H|BDH1_uc003fxt.2_Missense_Mutation_p.R118H|BDH1_uc003fxu.2_Missense_Mutation_p.R205H	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1	205					cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	GTACGGGGAGCGGGCCGGGTT	0.617													14	39					0	0	1	0	0		T	197239184	T	T	197239184	3	4	211	1	0	0	0	0	1	0	0	0	1391	768	27	1	421	1	BDH1	3	197239184	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	503379	197239184	783246	430	102309											
KIAA0226	9711	broad.mit.edu	37	chr3	197444992	197444992	+	Silent	SNP	G	A	A	0	0	1	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	aaattacccagcaactgccaGtgctccctcctgcaagggca	11	7	8	15	0	0	0	0	0	0	0	2	0	2	0	4	1	6	4	4	1	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr3:197444992G>A	uc003fyc.2	-	2	258	c.75C>T	c.(73-75)CAC>CAT	p.H25H	KIAA0226_uc003fyd.3_5'UTR|KIAA0226_uc003fyf.2_Intron|KIAA0226_uc003fyg.2_Silent_p.H18H	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	25					autophagy|endocytosis|negative regulation of autophagy|negative regulation of endocytosis	early endosome|late endosome|lysosome	protein binding				0	all_cancers(143;8.26e-10)|Ovarian(172;0.0418)|Breast(254;0.0976)		Epithelial(36;2.19e-23)|all cancers(36;1.39e-21)|OV - Ovarian serous cystadenocarcinoma(49;1.21e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(93;0.0446)		GCAACTGCCAGTGCTCCCTCC	0.502													21	42					0	0	1	0	0		A	197444992	A	A	197444992	2	1	211	1	0	0	0	0	0	0	0	1	8178	1020	36	4		4	KIAA0226	3	197444992	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	205808	197444992	577438	431	102310											
ZNF721	170960	broad.mit.edu	37	chr4	437305	437305	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctatgtacataaaggtttgcGgactgtctaaaggctttgcc	10	13	10	8	1	1	0	0	0	1	0	1	1	1	1	1	3	3	3	1	3	6	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:437305G>A	uc003gag.2	-	3	1642	c.951C>T	c.(949-951)TCC>TCT	p.S317S	ABCA11P_uc003gac.2_Intron|ABCA11P_uc003gad.2_Intron|ABCA11P_uc011buv.1_Intron|ABCA11P_uc003gae.2_Intron|ABCA11P_uc010ibd.1_Intron|ZNF721_uc003gaf.3_Silent_p.S349S|ZNF721_uc010ibe.2_Silent_p.S305S	NM_133474	NP_597731	D9N162	D9N162_HUMAN	zinc finger protein 721	317						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						AAAGGTTTGCGGACTGTCTAA	0.408													18	56					0	0	1	0	0		A	437305	A	A	437305	2	1	211	1	0	0	0	0	0	0	0	1	18147	1103	39	1		1	ZNF721	4	437305	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08		437305	190716971	432	102311											
GAK	2580	broad.mit.edu	37	chr4	871440	871440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggaggtgctggccacacGctcgtcccccacgtagacct	6	7	12	16	3	0	1	0	0	0	1	2	2	1	2	4	3	1	3	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:871440G>A	uc003gbm.3	-	16	2018	c.1819C>T	c.(1819-1821)CGT>TGT	p.R607C	GAK_uc003gbn.3_Missense_Mutation_p.R528C|GAK_uc010ibk.1_Missense_Mutation_p.R501C|GAK_uc003gbl.3_Missense_Mutation_p.R471C	NM_005255	NP_005246	O14976	GAK_HUMAN	cyclin G associated kinase	607	C2 tensin-type.				cell cycle	focal adhesion|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|heat shock protein binding|protein serine/threonine kinase activity			lung(2)|central_nervous_system(1)|skin(1)	4				Colorectal(103;0.219)		CTGGCCACACGCTCGTCCCCC	0.647													18	39					0	0	1	0	0		A	871440	A	A	871440	3	1	211	1	0	0	0	0	1	0	0	0	6210	1087	38	1	2168	1	GAK	4	871440	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	434135	871440	190282836	433	102312											
IDUA	3425	broad.mit.edu	37	chr4	997815	997815	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaggtgcctgtggacataCgagatccagttctctcagga	9	9	11	12	1	2	1	1	0	1	1	4	4	3	3	3	3	2	1	3	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:997815C>T	uc003gby.2	+	13	1831	c.1743C>T	c.(1741-1743)TAC>TAT	p.Y581Y	IDUA_uc003gbz.2_RNA|IDUA_uc003gca.2_Silent_p.Y603Y	NM_000203	NP_000194	P35475	IDUA_HUMAN	alpha-L-iduronidase precursor	581					disaccharide metabolic process	lysosome	cation binding|L-iduronidase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)		Laronidase(DB00090)	TGTGGACATACGAGATCCAGT	0.622													56	181					0	0	1	0	0		T	997815	T	T	997815	2	4	211	1	0	0	0	0	0	0	0	1	7520	547	19	1		1	IDUA	4	997815	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	126375	997815	190156461	434	102313											
KIAA1530	57654	broad.mit.edu	37	chr4	1348915	1348915	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtttcgcagcgcttcacccGcgtcgggacccacggtggat	5	8	13	15	7	1	0	1	0	0	0	3	2	1	2	2	3	1	3	2	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:1348915G>A	uc003gde.3	+	7	1505	c.1058G>A	c.(1057-1059)CGC>CAC	p.R353H		NM_020894	NP_065945	Q2YD98	K1530_HUMAN	hypothetical protein LOC57654	353											0			OV - Ovarian serous cystadenocarcinoma(23;0.0138)			CGCTTCACCCGCGTCGGGACC	0.617													9	15					0	0	1	0	0		A	1348915	A	A	1348915	3	1	211	1	0	0	0	0	1	0	0	0	8257	1087	38	1	1080	1	KIAA1530	4	1348915	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	351100	1348915	189805361	435	102314											
LETM1	3954	broad.mit.edu	37	chr4	1843332	1843332	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accgagtcatcgcgaacaggGcgcgaagagtgccagccacg	11	3	14	13	6	1	1	1	0	0	1	2	4	1	1	3	1	3	0	3	1	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:1843332G>A	uc003gdv.2	-	3	633	c.336C>T	c.(334-336)CGC>CGT	p.R112R	LETM1_uc010icc.2_5'Flank|LETM1_uc011bvg.1_Silent_p.R112R	NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	112					cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			CGCGAACAGGGCGCGAAGAGT	0.602													27	62					0	0	1	0	0		A	1843332	A	A	1843332	2	1	211	1	0	0	0	0	0	0	0	1	8750	1190	42	2		2	LETM1	4	1843332	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	494417	1843332	189310944	436	102315											
WHSC2	7469	broad.mit.edu	37	chr4	1989662	1989662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactggtggtgtccatcttcCgcagcagcccccggcccttg	4	10	11	16	2	1	0	0	0	1	0	3	0	3	0	5	3	3	2	5	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:1989662C>T	uc003gem.2	-	4	890	c.650G>A	c.(649-651)CGG>CAG	p.R217Q	WHSC2_uc003gek.2_5'Flank|WHSC2_uc003gel.2_Missense_Mutation_p.R131Q|WHSC2_uc003gen.2_Missense_Mutation_p.R71Q|MIR943_hsa-mir-943|MI0005768_5'Flank	NM_005663	NP_005654	Q9H3P2	NELFA_HUMAN	Wolf-Hirschhorn syndrome candidate 2 protein	206	HDAg-like.				multicellular organismal development|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0155)			GTCCATCTTCCGCAGCAGCCC	0.657													10	11					0	0	1	0	0		T	1989662	T	T	1989662	3	4	211	1	0	0	0	0	1	0	0	0	17390	652	23	1	1001	1	WHSC2	4	1989662	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	146330	1989662	189164614	437	102316											
RGS12	6002	broad.mit.edu	37	chr4	3432560	3432560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaggccgggggcatccagaCggtggaggatgagcacgtgg	8	4	21	8	3	0	2	0	1	0	1	1	5	1	5	2	8	1	2	2	8	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:3432560C>T	uc003ggw.2	+	17	4896	c.3992C>T	c.(3991-3993)ACG>ATG	p.T1331M	RGS12_uc003ggv.2_Missense_Mutation_p.T1331M|RGS12_uc003ggy.1_3'UTR|RGS12_uc003ggz.2_Missense_Mutation_p.T683M|RGS12_uc011bvs.1_3'UTR|RGS12_uc003gha.2_Missense_Mutation_p.T673M|RGS12_uc010icv.2_Missense_Mutation_p.T530M	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	1331						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GGCATCCAGACGGTGGAGGAT	0.687													14	46					0	0	1	0	0		T	3432560	T	T	3432560	3	4	211	1	0	0	0	0	1	0	0	0	13320	536	19	1	4112	1	RGS12	4	3432560	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1442898	3432560	187721716	438	102317											
LRPAP1	4043	broad.mit.edu	37	chr4	3516517	3516517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtccgcccctccagcagggCgtgcttctcgcggctgcggc	2	7	15	17	5	1	0	0	0	1	0	4	0	3	0	4	4	3	3	4	4	0	1	rs148077268	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:3516517C>T	uc003ghi.2	-	7	1058	c.973G>A	c.(973-975)GCC>ACC	p.A325T		NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	325	LDL receptor binding (Potential).				negative regulation of protein binding|negative regulation of very-low-density lipoprotein particle clearance|protein folding|vesicle-mediated transport	cell surface|integral to membrane|plasma membrane	asialoglycoprotein receptor activity|heparin binding|low-density lipoprotein particle receptor binding|receptor antagonist activity|unfolded protein binding|very-low-density lipoprotein particle receptor binding			ovary(1)|skin(1)	2				UCEC - Uterine corpus endometrioid carcinoma (64;0.165)		TCCAGCAGGGCGTGCTTCTCG	0.677													18	62					0	0	1	0	0		T	3516517	T	T	3516517	3	4	211	1	0	0	0	0	1	0	0	0	8982	768	27	1	108	1	LRPAP1	4	3516517	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	83957	3516517	187637759	439	102318											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107609	6107609	+	Missense_Mutation	SNP	A	G	G	1	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	cctcatgcagcttggccttgAgctccgaaatgtaggccgtg	7	10	12	12	2	1	1	1	1	0	0	2	2	2	1	4	2	3	4	4	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:6107609A>G	uc003giu.3	-	3	491	c.215T>C	c.(214-216)CTC>CCC	p.L72P	JAKMIP1_uc010idb.1_Missense_Mutation_p.L72P|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.L72P|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Missense_Mutation_p.L72P|JAKMIP1_uc010ide.2_Missense_Mutation_p.L72P	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	72	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						CTTGGCCTTGAGCTCCGAAAT	0.682													18	41					0	0	1	0	0		G	6107609	G	G	6107609	3	3	211	1	0	0	0	0	1	0	0	0	7956	304	11	3	2431	3	JAKMIP1	4	6107609	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2591092	6107609	185046667	440	102319											
WFS1	7466	broad.mit.edu	37	chr4	6292940	6292940	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaggcatcacgtccgagaaCgaacgggaggtgaggcagct	11	5	15	10	4	2	2	2	1	0	1	3	5	3	3	1	4	3	3	1	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:6292940C>T	uc003giy.2	+	5	643	c.477C>T	c.(475-477)AAC>AAT	p.N159N	WFS1_uc003gix.2_Silent_p.N159N|WFS1_uc003giz.2_Translation_Start_Site	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	159					endoplasmic reticulum calcium ion homeostasis|endoplasmic reticulum unfolded protein response|ER overload response|ER-associated protein catabolic process|glucose homeostasis|kidney development|negative regulation of neuron apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|polyubiquitinated misfolded protein transport|positive regulation of calcium ion transport|positive regulation of growth|positive regulation of protein ubiquitination|positive regulation of proteolysis|protein stabilization|renal water homeostasis|sensory perception of sound|visual perception	dendrite|integral to endoplasmic reticulum membrane	activating transcription factor binding|ATPase binding|transporter activity|ubiquitin protein ligase binding			central_nervous_system(2)	2				Colorectal(103;0.0512)		CGTCCGAGAACGAACGGGAGG	0.602													13	43					0	0	1	0	0		T	6292940	T	T	6292940	2	4	211	1	0	0	0	0	0	0	0	1	17386	535	19	1		1	WFS1	4	6292940	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	185331	6292940	184861336	441	102320											
KIAA0232	9778	broad.mit.edu	37	chr4	6882514	6882514	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaaaattgttttaatcttagGtgtcttctgtttatgaagca	11	18	8	4	0	3	1	0	1	3	0	3	2	3	1	0	1	1	3	0	1	6	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:6882514G>A	uc003gjr.3	+	10	4472	c.4009G>A	c.(4009-4011)GTG>ATG	p.V1337M	KIAA0232_uc003gjq.3_Missense_Mutation_p.V1337M	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	1337							ATP binding			ovary(2)	2						TTAATCTTAGGTGTCTTCTGT	0.393													20	54					0	0	1	0	0		A	6882514	A	A	6882514	3	1	211	1	0	0	0	0	1	0	0	0	8179	1275	44	4	4039	4	KIAA0232	4	6882514	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	589574	6882514	184271762	442	102321											
SH3TC1	54436	broad.mit.edu	37	chr4	8218845	8218845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgagccccagcgtgtcctccGaggaggtggcagtggcggcc	5	5	17	14	4	0	0	0	0	0	0	2	3	2	1	5	5	2	1	5	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:8218845G>A	uc003gkv.3	+	7	891	c.790G>A	c.(790-792)GAG>AAG	p.E264K	SH3TC1_uc003gkw.3_Missense_Mutation_p.E188K|SH3TC1_uc003gkx.3_Intron	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	264							binding			large_intestine(2)|pancreas(1)	3						CGTGTCCTCCGAGGAGGTGGC	0.662													8	24					0	0	1	0	0		A	8218845	A	A	8218845	3	1	211	1	0	0	0	0	1	0	0	0	14286	1059	37	1	812	1	SH3TC1	4	8218845	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1336331	8218845	182935431	443	102322											
SH3TC1	54436	broad.mit.edu	37	chr4	8242678	8242678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggcccccagccaccctcGctgaggacagcatccaaggg	8	5	12	16	1	0	1	0	1	0	0	2	2	1	2	5	3	2	3	5	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:8242678G>A	uc003gkv.3	+	18	4108	c.4007G>A	c.(4006-4008)CGC>CAC	p.R1336H	SH3TC1_uc003gkw.3_Missense_Mutation_p.R1260H|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1336							binding			large_intestine(2)|pancreas(1)	3						AGCCACCCTCGCTGAGGACAG	0.647													21	46					0	0	1	0	0		A	8242678	A	A	8242678	3	1	211	1	0	0	0	0	1	0	0	0	14286	1087	38	1	4073	1	SH3TC1	4	8242678	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	23833	8242678	182911598	444	102323											
ACOX3	8310	broad.mit.edu	37	chr4	8396369	8396369	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctggcgctgcggtctcccGatgcaagtcctcgctggagc	4	9	14	14	4	2	0	0	0	2	0	5	2	3	1	2	3	3	3	2	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:8396369G>A	uc010idk.2	-	10	1302	c.1157C>T	c.(1156-1158)TCG>TTG	p.S386L	ACOX3_uc003glc.3_Missense_Mutation_p.S386L|ACOX3_uc003gld.3_Missense_Mutation_p.S386L|ACOX3_uc003gle.1_Missense_Mutation_p.S291L	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	386					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						GCGGTCTCCCGATGCAAGTCC	0.542													14	30					0	0	1	0	0		A	8396369	A	A	8396369	3	1	211	1	0	0	0	0	1	0	0	0	160	1059	37	1	981	1	ACOX3	4	8396369	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	153691	8396369	182757907	445	102324											
ACOX3	8310	broad.mit.edu	37	chr4	8398742	8398742	+	Silent	SNP	A	G	G	1	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	cgagtggctgagaagcgaagAgcgatggccacggccagctt	10	5	16	10	4	0	2	0	1	0	2	0	6	0	2	2	3	3	2	2	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:8398742A>G	uc010idk.2	-	9	1123	c.978T>C	c.(976-978)GCT>GCC	p.A326A	ACOX3_uc003glc.3_Silent_p.A326A|ACOX3_uc003gld.3_Silent_p.A326A|ACOX3_uc003gle.1_Silent_p.A231A	NM_003501	NP_003492	O15254	ACOX3_HUMAN	acyl-Coenzyme A oxidase 3 isoform a	326					bile acid metabolic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|pristanoyl-CoA oxidase activity			central_nervous_system(1)	1						AGAAGCGAAGAGCGATGGCCA	0.582													37	84					0	0	1	0	0		G	8398742	G	G	8398742	2	3	211	1	0	0	0	0	0	0	0	1	160	291	11	3		3	ACOX3	4	8398742	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2373	8398742	182755534	446	102325											
GPR78	27201	broad.mit.edu	37	chr4	8582941	8582941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacaccgtcggcgcccggcGcatgccaagtcattggcttc	6	7	13	15	5	1	0	1	0	0	0	3	1	1	1	3	4	1	2	3	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:8582941G>A	uc003glk.2	+	1	651	c.232G>A	c.(232-234)GCA>ACA	p.A78T	CPZ_uc003gll.2_RNA	NM_080819	NP_543009	Q96P69	GPR78_HUMAN	G protein-coupled receptor 78	78	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(4)|ovary(2)	6						GGCGCCCGGCGCATGCCAAGT	0.692													6	15					0	0	1	0	0		A	8582941	A	A	8582941	3	1	211	1	0	0	0	0	1	0	0	0	6725	1087	38	1	234	1	GPR78	4	8582941	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	184199	8582941	182571335	447	102326											
SLC34A2	10568	broad.mit.edu	37	chr4	25671387	25671387	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccagcttatagtggagagcTtccacttcaagaatggagaa	13	9	10	9	0	1	3	1	0	0	3	2	5	2	3	2	2	2	2	2	2	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:25671387T>G	uc003grr.2	+	7	835	c.754T>G	c.(754-756)TTC>GTC	p.F252V	SLC34A2_uc003grs.2_Missense_Mutation_p.F251V|SLC34A2_uc010iev.2_Missense_Mutation_p.F251V	NM_006424	NP_006415	O95436	NPT2B_HUMAN	solute carrier family 34 (sodium phosphate),	252	Extracellular (Potential).				cellular phosphate ion homeostasis	apical plasma membrane|brush border membrane|integral to plasma membrane	phosphate binding|sodium ion binding|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			skin(3)|ovary(1)|kidney(1)	5		Breast(46;0.0503)				AGTGGAGAGCTTCCACTTCAA	0.493													76	175					0	0	1	0	0		G	25671387	G	G	25671387	3	3	211	1	0	0	0	0	1	0	0	0	14593	1609	56	5	776	5	SLC34A2	4	25671387	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	17088446	25671387	165482889	448	102327											
STIM2	57620	broad.mit.edu	37	chr4	26997036	26997036	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttgaagacactcttcagtggTtgatagagtttgttgaacta	11	15	10	5	0	2	5	1	3	1	2	2	5	2	5	0	1	1	3	0	1	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:26997036T>C	uc003gsh.3	+	4	910	c.694T>C	c.(694-696)TTG>CTG	p.L232L	STIM2_uc003gsg.3_Silent_p.L232L|STIM2_uc010iex.2_Silent_p.L232L	NM_020860	NP_065911	Q9P246	STIM2_HUMAN	stromal interaction molecule 2	145	SAM.|Extracellular (Potential).				activation of store-operated calcium channel activity|calcium ion transport|cellular calcium ion homeostasis|negative regulation of calcium ion transport via store-operated calcium channel activity	endoplasmic reticulum membrane|integral to membrane|plasma membrane	calcium channel regulator activity|calcium ion binding|protein binding			central_nervous_system(1)|skin(1)	2		Breast(46;0.0503)				TCTTCAGTGGTTGATAGAGTT	0.368													34	92					0	0	1	0	0		C	26997036	C	C	26997036	2	2	211	1	0	0	0	0	0	0	0	1	15309	1722	60	3		3	STIM2	4	26997036	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1325649	26997036	164157240	449	102328											
PTTG2	10744	broad.mit.edu	37	chr4	37962494	37962494	+	Missense_Mutation	SNP	A	G	G	1	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	ccttgagtggagtgcctctcAtgatccttgatgaggaggga	8	11	14	8	0	1	4	1	4	1	0	3	7	2	7	3	3	1	0	3	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:37962494A>G	uc011bye.1	+	1	439	c.439A>G	c.(439-441)ATG>GTG	p.M147V	TBC1D1_uc003gtb.2_Intron|TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Intron	NM_006607	NP_006598	Q9NZH5	PTTG2_HUMAN	pituitary tumor-transforming 2	147					chromosome organization|DNA metabolic process	cytoplasm|nucleus	SH3 domain binding				0						AGTGCCTCTCATGATCCTTGA	0.488													33	84					0	0	1	0	0		G	37962494	G	G	37962494	3	3	211	1	0	0	0	0	1	0	0	0	12846	217	8	3	441	3	PTTG2	4	37962494	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	10965458	37962494	153191782	450	102329											
TBC1D1	23216	broad.mit.edu	37	chr4	38016406	38016406	+	Missense_Mutation	SNP	A	G	G	1	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	aggagcctgtgcgcaggcccAtgcgcaagtccttctcccag	7	7	12	15	2	1	0	0	0	1	0	3	1	2	1	4	2	3	2	4	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:38016406A>G	uc003gtb.2	+	3	1037	c.694A>G	c.(694-696)ATG>GTG	p.M232V	TBC1D1_uc011byd.1_Missense_Mutation_p.M232V|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc011byf.1_Missense_Mutation_p.M103V	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	232						nucleus	Rab GTPase activator activity			ovary(1)	1						GCGCAGGCCCATGCGCAAGTC	0.692													6	21					0	0	1	0	0		G	38016406	G	G	38016406	3	3	211	1	0	0	0	0	1	0	0	0	15622	217	8	3	700	3	TBC1D1	4	38016406	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	53912	38016406	153137870	451	102330											
KLF3	51274	broad.mit.edu	37	chr4	38690414	38690414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagttcccgtcctcacaccGgagagcctcgcctgggttga	7	8	12	14	3	1	2	1	1	0	1	4	4	3	2	5	2	1	2	5	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:38690414G>A	uc003gth.3	+	3	598	c.266G>A	c.(265-267)CGG>CAG	p.R89Q	KLF3_uc003gtg.2_Missense_Mutation_p.R89Q	NM_016531	NP_057615	P57682	KLF3_HUMAN	Kruppel-like factor 3 (basic)	89	Pro-rich.				multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|lung(1)	2						TCCTCACACCGGAGAGCCTCG	0.602													21	63					0	0	1	0	0		A	38690414	A	A	38690414	3	1	211	1	0	0	0	0	1	0	0	0	8363	1116	39	1	272	1	KLF3	4	38690414	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	674008	38690414	152463862	452	102331											
ATP8A1	10396	broad.mit.edu	37	chr4	42545946	42545946	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaacttacagctcctttgcaGtagagtcgtaactttccaga	12	12	7	10	1	0	2	0	0	0	2	3	2	2	2	2	0	5	4	2	0	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:42545946G>A	uc003gwr.2	-	20	1942	c.1710C>T	c.(1708-1710)TAC>TAT	p.Y570Y	ATP8A1_uc003gws.2_Silent_p.Y555Y|ATP8A1_uc011byz.1_Silent_p.Y555Y	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),	570	Cytoplasmic (Potential).				ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	CTCCTTTGCAGTAGAGTCGTA	0.328													14	29					0	0	1	0	0		A	42545946	A	A	42545946	2	1	211	1	0	0	0	0	0	0	0	1	1193	1024	36	4		4	ATP8A1	4	42545946	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3855532	42545946	148608330	453	102332											
GUF1	60558	broad.mit.edu	37	chr4	44690074	44690074	+	Missense_Mutation	SNP	A	G	G	1	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	tgggatgaaagatgtcactgAagcgcaaataggagatacat	16	8	12	5	1	1	4	1	2	0	2	1	6	1	5	0	2	2	1	0	2	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:44690074A>G	uc003gww.3	+	9	1196	c.989A>G	c.(988-990)GAA>GGA	p.E330G	GUF1_uc010ifz.1_RNA	NM_021927	NP_068746	Q8N442	GUF1_HUMAN	GUF1 GTPase homolog	330					translation	mitochondrial inner membrane	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1						GATGTCACTGAAGCGCAAATA	0.388													7	138					0	0	1	0	0		G	44690074	G	G	44690074	3	3	211	1	0	0	0	0	1	0	0	0	6915	246	9	3	1023	3	GUF1	4	44690074	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2144128	44690074	146464202	454	102333											
CORIN	10699	broad.mit.edu	37	chr4	47746581	47746581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcagcctcacagaaggaccTacagggcaggagtccatgac	12	5	12	12	0	1	2	1	1	0	1	2	4	2	4	3	3	3	2	3	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:47746581T>C	uc003gxm.2	-	5	730	c.637A>G	c.(637-639)AGG>GGG	p.R213G	CORIN_uc011bzf.1_Missense_Mutation_p.R74G|CORIN_uc011bzg.1_Missense_Mutation_p.R146G|CORIN_uc011bzh.1_Missense_Mutation_p.R213G|CORIN_uc011bzi.1_Missense_Mutation_p.R213G|CORIN_uc003gxn.3_Missense_Mutation_p.R213G	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	213	Extracellular (Potential).|FZ 1.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						CAGAAGGACCTACAGGGCAGG	0.408													43	86					0	0	1	0	0		C	47746581	C	C	47746581	3	2	211	1	0	0	0	0	1	0	0	0	3755	1521	53	3	2563	3	CORIN	4	47746581	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3056507	47746581	143407695	455	102334											
KDR	3791	broad.mit.edu	37	chr4	55971024	55971024	+	Silent	SNP	C	T	T	0	0	0	1	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	aactctcccacatggattggCagaggctgtgggccaagctt	9	9	12	11	0	1	1	0	0	1	1	2	2	1	2	2	4	2	3	2	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:55971024C>T	uc003has.2	-	13	2075	c.1773G>A	c.(1771-1773)CTG>CTA	p.L591L	KDR_uc003hat.1_Silent_p.L591L|KDR_uc011bzx.1_Silent_p.L591L	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	591	Ig-like C2-type 6.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CATGGATTGGCAGAGGCTGTG	0.483			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			17	79					0	0	1	0	0		T	55971024	T	T	55971024	2	4	211	1	0	0	0	0	0	0	0	1	8155	697	25	2		2	KDR	4	55971024	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8224443	55971024	135183252	456	102335											
EXOC1	55763	broad.mit.edu	37	chr4	56724584	56724584	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctgcaaagcaggaaaaaAgaaaaagaactgttttttat	18	11	8	4	0	1	2	0	0	1	2	1	3	1	3	0	1	3	3	0	1	8	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:56724584A>G	uc003hbe.1	+	2	253	c.95A>G	c.(94-96)AAG>AGG	p.K32R	EXOC1_uc003hbf.1_Missense_Mutation_p.K32R|EXOC1_uc003hbg.1_Missense_Mutation_p.K32R	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	32					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					GCAGGAAAAAAGAAAAAGAAC	0.338													21	51					0	0	1	0	0		G	56724584	G	G	56724584	3	3	211	1	0	0	0	0	1	0	0	0	5309	72	3	3	97	3	EXOC1	4	56724584	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	753560	56724584	134429692	457	102336											
LPHN3	23284	broad.mit.edu	37	chr4	62910182	62910182	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccacccagagccgaatccgTagaatgtggaatgacacggt	12	6	11	12	3	0	3	0	1	0	2	1	5	1	4	4	2	1	1	4	2	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:62910182T>C	uc010ihh.2	+	22	3698	c.3525T>C	c.(3523-3525)CGT>CGC	p.R1175R	LPHN3_uc003hcq.3_Silent_p.R1175R|LPHN3_uc003hct.2_Silent_p.R559R	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	1153	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GCCGAATCCGTAGAATGTGGA	0.383													4	4					0	0	1	0	0		C	62910182	C	C	62910182	2	2	211	1	0	0	0	0	0	0	0	1	8935	1625	57	3		3	LPHN3	4	62910182	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	6185598	62910182	128244094	458	102337											
TMPRSS11D	9407	broad.mit.edu	37	chr4	68688179	68688179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacaataaaccaaagccgcCgtgagtcttcttgtactagt	12	10	7	12	2	2	1	0	1	2	0	2	1	2	1	4	0	3	1	4	0	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:68688179C>T	uc003hdq.2	-	10	1198	c.1133G>A	c.(1132-1134)CGG>CAG	p.R378Q	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc003hdp.2_Missense_Mutation_p.R159Q|TMPRSS11D_uc011caj.1_Missense_Mutation_p.R261Q	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	378	Peptidase S1.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CCAAAGCCGCCGTGAGTCTTC	0.468													20	63					0	0	1	0	0		T	68688179	T	T	68688179	3	4	211	1	0	0	0	0	1	0	0	0	16266	652	23	1	127	1	TMPRSS11D	4	68688179	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5777997	68688179	122466097	459	102338											
UGT2A1	10941	broad.mit.edu	37	chr4	70513145	70513145	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccaaagggcaccctatatAtttcaaatgtcagagatggg	13	10	10	8	0	2	1	2	0	0	1	2	2	2	1	2	2	1	1	2	2	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:70513145A>G	uc003hem.3	-	1	281	c.218T>C	c.(217-219)ATA>ACA	p.I73T	UGT2A1_uc011caq.1_Missense_Mutation_p.I73T|UGT2A1_uc010ihu.2_Missense_Mutation_p.I73T|UGT2A1_uc010iht.2_Missense_Mutation_p.I73T	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	73	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						CACCCTATATATTTCAAATGT	0.403													20	43					0	0	1	0	0		G	70513145	G	G	70513145	3	3	211	1	0	0	0	0	1	0	0	0	16979	449	16	3	1389	3	UGT2A1	4	70513145	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1824966	70513145	120641131	460	102339											
ANKRD17	26057	broad.mit.edu	37	chr4	74027008	74027008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taacagacgatgtcaacctcCgaagtacttcaggatctgca	13	9	8	11	2	3	1	2	0	1	1	4	4	4	2	2	1	4	2	2	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:74027008C>T	uc003hgp.2	-	3	722	c.605G>A	c.(604-606)CGG>CAG	p.R202Q	ANKRD17_uc003hgo.2_Missense_Mutation_p.R89Q|ANKRD17_uc003hgq.2_Missense_Mutation_p.R202Q|ANKRD17_uc003hgr.2_Missense_Mutation_p.R202Q	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	202					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGTCAACCTCCGAAGTACTTC	0.458													19	38					0	0	1	0	0		T	74027008	T	T	74027008	3	4	211	1	0	0	0	0	1	0	0	0	646	652	23	1	7334	1	ANKRD17	4	74027008	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3513863	74027008	117127268	461	102340											
HNRNPD	3184	broad.mit.edu	37	chr4	83276455	83276455	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaaactatttttagaacatAcctgttggggataagttgca	15	13	8	5	0	0	1	0	0	0	1	0	2	0	2	1	2	4	3	1	2	7	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:83276455A>G	uc003hmm.1	-	8	1416	c.1098_splice	c.e8+1		HNRNPD_uc003hml.1_Splice_Site|HNRNPD_uc003hmn.1_Splice_Site|HNRNPD_uc003hmo.1_Splice_Site|HNRNPD_uc003hmp.1_Splice_Site|HNRNPD_uc010ijr.1_3'UTR|HNRNPD_uc011cci.1_3'UTR	NM_031370	NP_112738	Q14103	HNRPD_HUMAN	heterogeneous nuclear ribonucleoprotein D						nuclear mRNA splicing, via spliceosome|positive regulation of transcription, DNA-dependent|RNA catabolic process|transcription, DNA-dependent	cytosol|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|telomeric DNA binding				0						TTTAGAACATACCTGTTGGGG	0.333													13	23					0	0	1	0	0		G	83276455	G	G	83276455	5	3	211	1	0	0	0	0	0	0	1	0	7280	405	14	3		3	HNRNPD	4	83276455	Splice_Site	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	9249447	83276455	107877821	462	102341											
WDFY3	23001	broad.mit.edu	37	chr4	85678171	85678171	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tggctgctgcagaaacaaggCcatgaggagaaaatagaggg	15	5	15	6	0	0	4	0	1	0	3	0	5	0	4	1	4	3	3	1	4	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:85678171C>T	uc003hpd.2	-	33	5740	c.5332G>A	c.(5332-5334)GCC>ACC	p.A1778T		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1778						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AGAAACAAGGCCATGAGGAGA	0.502													25	96					0	0	1	0	0		T	85678171	T	T	85678171	3	4	211	1	0	0	0	0	1	0	0	0	17296	739	26	2	5392	2	WDFY3	4	85678171	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2401716	85678171	105476105	463	102342											
DMP1	1758	broad.mit.edu	37	chr4	88583826	88583826	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtgactctacagaaaacaGcaactccagagacactggcc	15	5	9	12	0	1	3	0	1	1	2	2	5	2	3	2	1	4	1	2	1	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:88583826G>A	uc003hqv.2	+	6	1000	c.896G>A	c.(895-897)AGC>AAC	p.S299N	DMP1_uc003hqw.2_Missense_Mutation_p.S283N	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	299					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)|skin(1)	2		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)		ACAGAAAACAGCAACTCCAGA	0.473													13	44					0	0	1	0	0		A	88583826	A	A	88583826	3	1	211	1	0	0	0	0	1	0	0	0	4589	971	34	2	914	2	DMP1	4	88583826	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2905655	88583826	102570450	464	102343											
PKD2	5311	broad.mit.edu	37	chr4	88989084	88989084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggatcacagttctttaccacGtcccatgagcagccgaagtt	10	10	9	12	2	2	1	1	1	1	0	3	3	3	2	3	1	3	3	3	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:88989084G>A	uc003hre.2	+	13	2459	c.2393G>A	c.(2392-2394)CGT>CAT	p.R798H	PKD2_uc011cdf.1_Missense_Mutation_p.R216H|PKD2_uc011cdg.1_Missense_Mutation_p.R124H|PKD2_uc011cdh.1_Missense_Mutation_p.R21H	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	798	Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TCTTTACCACGTCCCATGAGC	0.527													16	39					0	0	1	0	0		A	88989084	A	A	88989084	3	1	211	1	0	0	0	0	1	0	0	0	11985	1145	40	1	2443	1	PKD2	4	88989084	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	405258	88989084	102165192	465	102344											
HERC6	55008	broad.mit.edu	37	chr4	89314657	89314657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagtgcaaagcaacaagcctCtctcagtcggtgcactgaag	12	7	10	12	1	2	1	1	1	1	0	4	1	2	1	1	1	5	3	1	1	4	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:89314657C>T	uc011cdi.1	+	5	865	c.682C>T	c.(682-684)CTC>TTC	p.L228F	HERC6_uc003hrp.1_RNA|HERC6_uc011cdj.1_Missense_Mutation_p.L228F|HERC6_uc011cdk.1_RNA|HERC6_uc011cdl.1_RNA	NM_017912	NP_060382	Q8IVU3	HERC6_HUMAN	hect domain and RLD 6 isoform 1	228	RCC1 4.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytosol	ubiquitin-protein ligase activity			lung(3)|ovary(1)|kidney(1)	5		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000222)		CAACAAGCCTCTCTCAGTCGG	0.388													3	13					0	0	1	0	0		T	89314657	T	T	89314657	3	4	211	1	0	0	0	0	1	0	0	0	7078	913	32	4	497	4	HERC6	4	89314657	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	325573	89314657	101839619	466	102345											
HERC5	51191	broad.mit.edu	37	chr4	89408222	89408222	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgtcatttccatttttaggaCgcttcagaaaatgtacaatg	12	15	7	7	1	2	1	2	0	0	1	3	2	3	2	1	1	1	2	1	1	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:89408222C>T	uc003hrt.2	+	15	2007	c.1854C>T	c.(1852-1854)GAC>GAT	p.D618D	HERC5_uc011cdm.1_Silent_p.D256D	NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	618					innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		ATTTTTAGGACGCTTCAGAAA	0.338													5	20					0	0	1	0	0		T	89408222	T	T	89408222	2	4	211	1	0	0	0	0	0	0	0	1	7077	535	19	1		1	HERC5	4	89408222	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	93565	89408222	101746054	467	102346											
HERC3	8916	broad.mit.edu	37	chr4	89574214	89574214	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgggggatgaataatgccGggcagctagggctcagtgat	9	8	17	7	1	1	2	1	2	0	0	1	3	1	3	1	4	2	4	1	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:89574214G>A	uc003hrw.1	+	6	824	c.658G>A	c.(658-660)GGG>AGG	p.G220R	HERC3_uc003hrv.2_Missense_Mutation_p.G220R|HERC3_uc011cdn.1_Missense_Mutation_p.G102R	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	220	RCC1 5.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasmic membrane-bounded vesicle	ubiquitin-protein ligase activity			lung(2)|prostate(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(123;0.000319)		GAATAATGCCGGGCAGCTAGG	0.438													16	52					0	0	1	0	0		A	89574214	A	A	89574214	3	1	211	1	0	0	0	0	1	0	0	0	7075	1116	39	1	672	1	HERC3	4	89574214	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	165992	89574214	101580062	468	102347											
PDHA2	5161	broad.mit.edu	37	chr4	96761598	96761598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggtcaggaagcttgttgCgtgggccttgaggccggcat	6	10	17	8	2	1	1	1	1	0	0	1	3	1	2	2	5	2	3	2	5	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:96761598C>T	uc003htr.3	+	1	360	c.297C>T	c.(295-297)TGC>TGT	p.C99C		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	99					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	AAGCTTGTTGCGTGGGCCTTG	0.517													29	97					0	0	1	0	0		T	96761598	T	T	96761598	2	4	211	1	0	0	0	0	0	0	0	1	11684	776	27	1		1	PDHA2	4	96761598	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7187384	96761598	94392678	469	102348											
NPNT	255743	broad.mit.edu	37	chr4	106863786	106863786	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actatagcaccagctgccagTacacctccaggagggattac	12	7	9	13	0	0	0	0	0	0	0	1	2	1	2	4	2	5	3	4	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:106863786T>C	uc003hya.2	+	8	1291	c.1086T>C	c.(1084-1086)AGT>AGC	p.S362S	NPNT_uc011cfc.1_Silent_p.S379S|NPNT_uc011cfd.1_Silent_p.S392S|NPNT_uc011cfe.1_Silent_p.S392S|NPNT_uc010ilt.1_Silent_p.S362S|NPNT_uc011cff.1_Silent_p.S362S|NPNT_uc010ilu.1_Silent_p.S258S	NM_001033047	NP_001028219	Q6UXI9	NPNT_HUMAN	nephronectin precursor	362	Pro-rich.				cell differentiation	membrane	calcium ion binding			skin(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.41e-07)		CAGCTGCCAGTACACCTCCAG	0.507													28	78					0	0	1	0	0		C	106863786	C	C	106863786	2	2	211	1	0	0	0	0	0	0	0	1	10609	1635	57	3		3	NPNT	4	106863786	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	10102188	106863786	84290490	470	102349											
PAPSS1	9061	broad.mit.edu	37	chr4	108615150	108615150	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctcacagtagtctttcccGctccagacaagcctaaaatt	11	11	6	13	1	2	1	1	0	1	1	4	1	4	1	3	0	2	3	3	0	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:108615150G>A	uc003hyk.2	-	3	272	c.188C>T	c.(187-189)GCG>GTG	p.A63V	PAPSS1_uc011cfh.1_RNA	NM_005443	NP_005434	O43252	PAPS1_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase	63	Adenylyl-sulfate kinase.|ATP (Potential).				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|sulfate adenylyltransferase (ATP) activity			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;5.49e-05)		AGTCTTTCCCGCTCCAGACAA	0.368													12	24					0	0	1	0	0		A	108615150	A	A	108615150	3	1	211	1	0	0	0	0	1	0	0	0	11453	1087	38	1	1726	1	PAPSS1	4	108615150	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1751364	108615150	82539126	471	102350											
LEF1	51176	broad.mit.edu	37	chr4	109000672	109000672	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcattaggtcactgtcagtgTggggatgttcctgtttgacc	6	14	13	8	0	2	1	2	1	0	0	3	2	3	2	2	3	0	3	2	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:109000672T>C	uc003hyt.1	-	7	1476	c.821A>G	c.(820-822)CAC>CGC	p.H274R	LEF1_uc011cfj.1_Missense_Mutation_p.H131R|LEF1_uc011cfk.1_Missense_Mutation_p.H178R|LEF1_uc003hyu.1_Missense_Mutation_p.H246R|LEF1_uc003hyv.1_Missense_Mutation_p.H246R|LEF1_uc010imb.1_RNA|LEF1_uc010ima.1_5'Flank|LEF1_uc003hyw.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	274					canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		ACTGTCAGTGTGGGGATGTTC	0.502													17	59					0	0	1	0	0		C	109000672	C	C	109000672	3	2	211	1	0	0	0	0	1	0	0	0	8730	1696	59	3	482	3	LEF1	4	109000672	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	385522	109000672	82153604	472	102351											
ANK2	287	broad.mit.edu	37	chr4	114294316	114294316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cattgatgagcatggacacaCcgtggtaaagaaggtattgt	13	10	12	6	1	0	3	0	2	0	1	0	4	0	4	1	3	1	3	1	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:114294316C>T	uc003ibe.3	+	44	11781	c.11681C>T	c.(11680-11682)ACC>ATC	p.T3894I	ANK2_uc003ibd.3_Missense_Mutation_p.T1800I|ANK2_uc003ibf.3_Missense_Mutation_p.T1809I|ANK2_uc011cgc.1_Missense_Mutation_p.T985I|ANK2_uc003ibg.3_Missense_Mutation_p.T824I|ANK2_uc003ibh.3_Missense_Mutation_p.T514I|ANK2_uc011cgd.1_Missense_Mutation_p.T1196I|ANK2_uc010imr.2_5'Flank|ANK2_uc010ims.2_5'Flank	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	3861					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		CATGGACACACCGTGGTAAAG	0.388													17	61					0	0	1	0	0		T	114294316	T	T	114294316	3	4	211	1	0	0	0	0	1	0	0	0	621	507	18	4	11920	4	ANK2	4	114294316	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5293644	114294316	76859960	473	102352											
CAMK2D	817	broad.mit.edu	37	chr4	114378718	114378718	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtttattgcttttggacaaAgctgaaagagaaaaacatga	16	11	10	4	0	0	3	0	2	0	1	0	5	0	4	0	2	3	3	0	2	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:114378718A>C	uc003ibi.2	-	17	2065	c.1206T>G	c.(1204-1206)GCT>GCG	p.A402A	CAMK2D_uc003ibj.2_Silent_p.A402A|CAMK2D_uc003ibk.2_Silent_p.A402A|CAMK2D_uc003ibo.3_Silent_p.A436A|CAMK2D_uc003ibm.2_Silent_p.A416A|CAMK2D_uc003ibn.2_Silent_p.A413A|CAMK2D_uc003ibl.2_Silent_p.A402A	NM_001221	NP_001212	Q13557	KCC2D_HUMAN	calcium/calmodulin-dependent protein kinase II	402					interferon-gamma-mediated signaling pathway|regulation of cell growth|synaptic transmission	calcium- and calmodulin-dependent protein kinase complex|cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1		Ovarian(17;0.00369)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000271)		TTTTGGACAAAGCTGAAAGAG	0.353													32	78					0	0	1	0	0		C	114378718	C	C	114378718	2	2	211	1	0	0	0	0	0	0	0	1	2604	86	3	5		5	CAMK2D	4	114378718	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	84402	114378718	76775558	474	102353											
TRPC3	7222	broad.mit.edu	37	chr4	122820840	122820840	+	Missense_Mutation	SNP	A	G	G	1	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	ctcttgagttagactgagtgAagaggtttaactaggaaaaa	15	11	11	4	0	1	5	0	3	1	2	1	6	1	6	0	2	1	2	0	2	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:122820840A>G	uc003ieg.2	-	10	2548	c.2474T>C	c.(2473-2475)TTC>TCC	p.F825S	TRPC3_uc010inr.2_Missense_Mutation_p.F697S|TRPC3_uc003ief.2_Missense_Mutation_p.F752S|TRPC3_uc011cgl.1_Missense_Mutation_p.F489S	NM_001130698	NP_001124170	Q13507	TRPC3_HUMAN	transient receptor potential cation channel,	740	Extracellular (Potential).				axon guidance|phototransduction|platelet activation	integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AGACTGAGTGAAGAGGTTTAA	0.303													19	74					0	0	1	0	0		G	122820840	G	G	122820840	3	3	211	1	0	0	0	0	1	0	0	0	16605	246	9	3	303	3	TRPC3	4	122820840	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	8442122	122820840	68333436	475	102354											
KIAA1109	84162	broad.mit.edu	37	chr4	123283310	123283310	+	Silent	SNP	C	T	T	0	0	0	1	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	aaagaggagtcatggatccaCtggacaaggttctgtcagtt	12	10	12	7	0	3	1	2	0	1	1	4	4	4	4	1	4	0	2	1	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:123283310C>T	uc003ieh.2	+	84	14971	c.14926C>T	c.(14926-14928)CTG>TTG	p.L4976L	KIAA1109_uc003iem.2_Silent_p.L1332L	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4976					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CATGGATCCACTGGACAAGGT	0.378													40	118					0	0	1	0	0		T	123283310	T	T	123283310	2	4	211	1	0	0	0	0	0	0	0	1	8224	564	20	4		4	KIAA1109	4	123283310	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	462470	123283310	67870966	476	102355											
FGF2	2247	broad.mit.edu	37	chr4	123748453	123748453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaacgggggcttcttcctgCgcatccaccccgacggccga	8	6	11	16	5	1	0	0	0	1	0	3	2	3	0	5	3	2	2	5	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:123748453C>T	uc003iev.1	+	1	591	c.523C>T	c.(523-525)CGC>TGC	p.R175C		NM_002006	NP_001997	P09038	FGF2_HUMAN	fibroblast growth factor 2	175					activation of MAPK activity|branching involved in ureteric bud morphogenesis|cell migration involved in sprouting angiogenesis|chemotaxis|chondroblast differentiation|embryonic morphogenesis|fibroblast growth factor receptor signaling pathway|inositol phosphate biosynthetic process|insulin receptor signaling pathway|negative regulation of blood vessel endothelial cell migration|negative regulation of cell death|organ morphogenesis|phosphatidylinositol biosynthetic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of cardiac muscle cell proliferation|positive regulation of cell division|positive regulation of cell fate specification|positive regulation of ERK1 and ERK2 cascade|positive regulation of phosphatidylinositol 3-kinase activity|positive regulation of phospholipase C activity|Ras protein signal transduction|release of sequestered calcium ion into cytosol|wound healing	extracellular space	fibroblast growth factor receptor binding|growth factor activity|heparin binding|ligand-dependent nuclear receptor transcription coactivator activity			ovary(1)|lung(1)|central_nervous_system(1)	3					Pentosan Polysulfate(DB00686)	CTTCTTCCTGCGCATCCACCC	0.667													6	31					0	0	1	0	0		T	123748453	T	T	123748453	3	4	211	1	0	0	0	0	1	0	0	0	5862	768	27	1	525	1	FGF2	4	123748453	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	465143	123748453	67405823	477	102356											
PCDH10	57575	broad.mit.edu	37	chr4	134073077	134073077	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtgctgccccgctcggcGgagccgggttacctgctcac	4	7	15	15	4	1	0	1	0	0	0	2	2	1	1	4	4	5	4	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:134073077G>A	uc003iha.2	+	1	2608	c.1782G>A	c.(1780-1782)GCG>GCA	p.A594A	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.A594A	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	594	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		CCCGCTCGGCGGAGCCGGGTT	0.657													16	39					0	0	1	0	0		A	134073077	A	A	134073077	2	1	211	1	0	0	0	0	0	0	0	1	11526	1103	39	1		1	PCDH10	4	134073077	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10324624	134073077	57081199	478	102357											
UCP1	7350	broad.mit.edu	37	chr4	141483361	141483361	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttaccccttgaagaaagcCgttggtccttcgttagtgaa	9	13	9	10	2	1	3	0	2	1	1	3	3	2	3	4	1	2	2	4	1	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:141483361C>T	uc011chj.1	-	5	871	c.795G>A	c.(793-795)ACG>ACA	p.T265T	UCP1_uc011chk.1_Silent_p.T264T	NM_021833	NP_068605	P25874	UCP1_HUMAN	uncoupling protein 1	265	Solcar 3.				brown fat cell differentiation|cellular lipid metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial inner membrane	binding			ovary(1)	1	all_hematologic(180;0.162)					TGAAGAAAGCCGTTGGTCCTT	0.433													8	131					0	0	1	0	0		T	141483361	T	T	141483361	2	4	211	1	0	0	0	0	0	0	0	1	16956	639	23	1		1	UCP1	4	141483361	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7410284	141483361	49670915	479	102358											
OTUD4	54726	broad.mit.edu	37	chr4	146059083	146059083	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagggatggaagccaatgcCgtatctgcctttcgtgtctg	7	11	14	9	2	2	0	0	0	2	0	3	3	2	3	3	3	3	1	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:146059083C>T	uc003ika.3	-	21	2787	c.2649G>A	c.(2647-2649)ACG>ACA	p.T883T	OTUD4_uc003ijz.3_Silent_p.T882T	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	947							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					AAGCCAATGCCGTATCTGCCT	0.517													36	100					0	0	1	0	0		T	146059083	T	T	146059083	2	4	211	1	0	0	0	0	0	0	0	1	11333	639	23	1		1	OTUD4	4	146059083	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4575722	146059083	45095193	480	102359											
SLC10A7	84068	broad.mit.edu	37	chr4	147215169	147215169	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaatgttgtgtagatgatcaTgaggagtacactgctgctga	11	12	13	5	0	1	4	1	3	0	1	1	6	1	5	0	1	3	5	0	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:147215169T>C	uc010ioz.2	-	8	888	c.634A>G	c.(634-636)ATG>GTG	p.M212V	SLC10A7_uc003ikr.2_Missense_Mutation_p.M212V|SLC10A7_uc010ipa.2_Missense_Mutation_p.M199V|SLC10A7_uc003iks.2_Intron	NM_001029998	NP_001025169	Q0GE19	NTCP7_HUMAN	solute carrier family 10 (sodium/bile acid	212	Helical; (Potential).					integral to membrane	bile acid:sodium symporter activity				0	all_hematologic(180;0.151)					TAGATGATCATGAGGAGTACA	0.403													26	58					0	0	1	0	0		C	147215169	C	C	147215169	3	2	211	1	0	0	0	0	1	0	0	0	14404	1464	51	3	408	3	SLC10A7	4	147215169	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1156086	147215169	43939107	481	102360											
NR3C2	4306	broad.mit.edu	37	chr4	149357438	149357438	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagagggctgcaaacagacGggcttttctcatgacacatg	11	9	11	10	1	2	3	2	1	1	2	3	3	2	3	0	2	2	3	0	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:149357438G>A	uc003ilj.3	-	2	909	c.575C>T	c.(574-576)CCG>CTG	p.P192L	NR3C2_uc003ilk.3_Missense_Mutation_p.P192L|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	192	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	GCAAACAGACGGGCTTTTCTC	0.522													20	75					0	0	1	0	0		A	149357438	A	A	149357438	3	1	211	1	0	0	0	0	1	0	0	0	10650	1116	39	1	2411	1	NR3C2	4	149357438	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2142269	149357438	41796838	482	102361											
LRBA	987	broad.mit.edu	37	chr4	151199033	151199033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaagacagcgccatggcccGgattccagcgtcacatcctg	9	7	11	14	3	1	1	1	0	0	1	3	2	3	2	4	2	2	1	4	2	1	2	rs143351602	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:151199033G>A	uc010ipj.2	-	57	8947	c.8473C>T	c.(8473-8475)CGG>TGG	p.R2825W	LRBA_uc010ipi.2_Missense_Mutation_p.R347W|LRBA_uc003ils.3_Missense_Mutation_p.R720W|LRBA_uc003ilt.3_Missense_Mutation_p.R1473W|LRBA_uc003ilu.3_Missense_Mutation_p.R2813W|LRBA_uc003ilr.3_Missense_Mutation_p.R245W	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2825	WD 6.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					GCCATGGCCCGGATTCCAGCG	0.502													44	124					0	0	1	0	0		A	151199033	A	A	151199033	3	1	211	1	0	0	0	0	1	0	0	0	8949	1115	39	1	126	1	LRBA	4	151199033	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1841595	151199033	39955243	483	102362											
FGA	2243	broad.mit.edu	37	chr4	155507087	155507087	+	Silent	SNP	G	A	A	0	0	1	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	gtacctatgccagacaatgtGcctaaatccattgcctcggg	10	10	9	12	1	0	1	0	0	0	1	2	1	1	1	5	1	4	1	5	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:155507087G>A	uc003iod.1	-	5	1552	c.1494C>T	c.(1492-1494)GGC>GGT	p.G498G	FGA_uc003ioe.1_Silent_p.G498G|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	498	By similarity.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CAGACAATGTGCCTAAATCCA	0.483													31	77					0	0	1	0	0		A	155507087	A	A	155507087	2	1	211	1	0	0	0	0	0	0	0	1	5844	1306	46	2		2	FGA	4	155507087	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4308054	155507087	35647189	484	102363											
FGG	2266	broad.mit.edu	37	chr4	155527932	155527932	+	Missense_Mutation	SNP	A	C	C	1	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	agatccatcctgttcagcacAgttgccttcaaacttatcat	11	13	5	12	0	3	1	3	0	0	1	5	1	5	1	3	0	3	3	3	0	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:155527932A>C	uc003ioj.2	-	8	1195	c.1054T>G	c.(1054-1056)TGT>GGT	p.C352G	FGG_uc003iog.2_Missense_Mutation_p.C352G|FGG_uc003ioh.2_Missense_Mutation_p.C360G|FGG_uc010ipx.2_Missense_Mutation_p.C180G|FGG_uc010ipy.2_Missense_Mutation_p.C63G|FGG_uc003ioi.2_Missense_Mutation_p.C63G|FGG_uc003iok.2_Missense_Mutation_p.C360G	NM_021870	NP_068656	P02679	FIBG_HUMAN	fibrinogen, gamma chain isoform gamma-B	352	|Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding				0	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	TGTTCAGCACAGTTGCCTTCA	0.423													32	77					0	0	1	0	0		C	155527932	C	C	155527932	3	2	211	1	0	0	0	0	1	0	0	0	5884	188	7	5	334	5	FGG	4	155527932	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	20845	155527932	35626344	485	102364											
RXFP1	59350	broad.mit.edu	37	chr4	159533352	159533352	+	Silent	SNP	C	T	T	0	0	0	1	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	atcttcacagactagaatggCtgtatgtttaatttatgtgg	11	16	9	5	0	2	2	1	0	1	2	2	2	2	2	0	2	0	3	0	2	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:159533352C>T	uc003ipz.2	+	7	689	c.607C>T	c.(607-609)CTG>TTG	p.L203L	RXFP1_uc010iqj.1_Silent_p.L32L|RXFP1_uc011cja.1_Silent_p.L122L|RXFP1_uc010iqo.2_Silent_p.L203L|RXFP1_uc011cjb.1_Silent_p.L149L|RXFP1_uc010iqk.2_Silent_p.L71L|RXFP1_uc011cjc.1_Silent_p.L122L|RXFP1_uc011cjd.1_Silent_p.L122L|RXFP1_uc010iql.2_Silent_p.L71L|RXFP1_uc011cje.1_Silent_p.L230L|RXFP1_uc010iqm.2_Silent_p.L170L|RXFP1_uc011cjf.1_Silent_p.L73L|RXFP1_uc010iqn.2_Silent_p.L149L	NM_021634	NP_067647	Q9HBX9	RXFP1_HUMAN	relaxin/insulin-like family peptide receptor 1	203	LRR 3.|Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|metal ion binding				0	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.0219)		ACTAGAATGGCTGTATGTTTA	0.313													17	82					0	0	1	0	0		T	159533352	T	T	159533352	2	4	211	1	0	0	0	0	0	0	0	1	13784	811	28	2		2	RXFP1	4	159533352	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4005420	159533352	31620924	486	102365											
PALLD	23022	broad.mit.edu	37	chr4	169433473	169433473	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttcccagctgcacctcgatTcatccaaaagctgaggagcc	10	8	8	15	1	1	1	1	1	0	0	4	3	3	2	4	1	4	3	4	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:169433473T>C	uc011cjx.1	+	2	1029	c.818T>C	c.(817-819)TTC>TCC	p.F273S	PALLD_uc003iru.2_Missense_Mutation_p.F273S	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2	273	Ig-like C2-type 1.				cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		GCACCTCGATTCATCCAAAAG	0.547									Pancreatic_Cancer_Familial_Clustering_of				15	52					0	0	1	0	0		C	169433473	C	C	169433473	3	2	211	1	0	0	0	0	1	0	0	0	11426	1783	62	3	820	3	PALLD	4	169433473	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	9900121	169433473	21720803	487	102366											
SH3RF1	57630	broad.mit.edu	37	chr4	170041971	170041971	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatgtattcaaaaccataccTtgtgactggtgccacataat	14	12	6	9	0	1	1	1	1	0	0	1	1	1	1	3	1	3	1	3	1	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:170041971T>G	uc003isa.1	-	8	1851	c.1516A>C	c.(1516-1518)AGG>CGG	p.R506R	SH3RF1_uc010irc.1_Silent_p.R206R	NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	506	SH3 3.|Interaction with AKT2 (By similarity).					Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		AAACCATACCTTGTGACTGGT	0.413													7	31					0	0	1	0	0		G	170041971	G	G	170041971	2	3	211	1	0	0	0	0	0	0	0	1	14283	1623	56	5		5	SH3RF1	4	170041971	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	608498	170041971	21112305	488	102367											
SPATA4	132851	broad.mit.edu	37	chr4	177116614	177116614	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagacacttcttaggcctccCtcggatgggagctgctagct	7	10	11	13	1	1	1	0	0	1	1	3	3	2	3	2	3	3	3	2	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:177116614C>A	uc003iuo.1	-	1	209	c.100G>T	c.(100-102)GGG>TGG	p.G34W		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	34					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		TTAGGCCTCCCTCGGATGGGA	0.582													37	81					2.40579e-17	2.62151e-17	1	1	0		A	177116614	A	A	177116614	3	1	211	1	0	0	0	0	1	0	0	0	15035	681	24	5	841	5	SPATA4	4	177116614	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7074643	177116614	14037662	489	102368											
LRP2BP	55805	broad.mit.edu	37	chr4	186294142	186294142	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagcttccgtatcctgcCggatgccttgtccatacaag	7	10	11	13	2	0	0	0	0	0	0	3	1	3	1	5	2	4	3	5	2	3	4	rs140807270		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:186294142C>T	uc003ixj.1	-	6	1483	c.671G>A	c.(670-672)CGG>CAG	p.R224Q	LRP2BP_uc003ixk.1_Missense_Mutation_p.R198Q|LRP2BP_uc011ckr.1_Missense_Mutation_p.R224Q	NM_018409	NP_060879	Q9P2M1	LR2BP_HUMAN	LRP2 binding protein	224	Sel1-like 4.					cytoplasm	protein binding				0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;0.00109)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;2.14e-25)|Epithelial(43;1.55e-22)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-11)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000132)|STAD - Stomach adenocarcinoma(60;0.000766)|Colorectal(24;0.00116)|LUSC - Lung squamous cell carcinoma(40;0.00904)|COAD - Colon adenocarcinoma(29;0.0101)|READ - Rectum adenocarcinoma(43;0.161)		CGTATCCTGCCGGATGCCTTG	0.488													19	58					0	0	1	0	0		T	186294142	T	T	186294142	3	4	211	1	0	0	0	0	1	0	0	0	8975	652	23	1	384	1	LRP2BP	4	186294142	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9177528	186294142	4860134	490	102369											
TRIML1	339976	broad.mit.edu	37	chr4	189061103	189061103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagtgcatctctccagcgagGctgaggagcatcacagagta	11	7	13	10	1	2	2	1	1	1	1	4	5	3	3	1	2	3	4	1	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr4:189061103G>A	uc003izm.1	+	1	506	c.391G>A	c.(391-393)GCT>ACT	p.A131T		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	131					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		CTCCAGCGAGGCTGAGGAGCA	0.572													8	39					0	0	1	0	0		A	189061103	A	A	189061103	3	1	211	1	0	0	0	0	1	0	0	0	16576	1203	42	2	393	2	TRIML1	4	189061103	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2766961	189061103	2093173	491	102370											
PLEKHG4B	153478	broad.mit.edu	37	chr5	169524	169524	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacattcggtgcttaggataCgtcattgacaactattttcc	10	15	7	9	2	1	1	1	1	0	0	3	2	2	2	1	2	4	1	1	2	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:169524C>T	uc003jak.2	+	12	2528	c.2478C>T	c.(2476-2478)TAC>TAT	p.Y826Y		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	826	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		GCTTAGGATACGTCATTGACA	0.537													38	87					0	0	1	0	0		T	169524	T	T	169524	2	4	211	1	0	0	0	0	0	0	0	1	12091	547	19	1		1	PLEKHG4B	5	169524	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		169524	180745736	492	102371											
LRRC14B	389257	broad.mit.edu	37	chr5	192197	192197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctctgaggccagcgggcccgGcccctctgcgggtgcactgc	3	6	15	17	3	2	1	0	1	2	0	2	1	2	1	4	4	4	1	4	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:192197G>A	uc003jal.1	+	1	572	c.544G>A	c.(544-546)GCC>ACC	p.A182T		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	182										skin(1)	1						AGCGGGCCCGGCCCCTCTGCG	0.741													3	4					0	0	1	0	0		A	192197	A	A	192197	3	1	211	1	0	0	0	0	1	0	0	0	8987	1203	42	2	546	2	LRRC14B	5	192197	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	22673	192197	180723063	493	102372											
SDHA	6389	broad.mit.edu	37	chr5	240501	240501	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccctccaattaaaccaaaCgctggggaagaatctgtcat	13	9	8	11	1	2	1	1	0	1	1	4	2	4	2	3	2	2	1	3	2	6	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:240501C>T	uc003jao.3	+	11	1576	c.1461C>T	c.(1459-1461)AAC>AAT	p.N487N	SDHA_uc011clv.1_Silent_p.N487N|SDHA_uc011clw.1_Silent_p.N439N|SDHA_uc003jap.3_Silent_p.N487N|SDHA_uc003jaq.3_Silent_p.N262N|SDHA_uc003jar.3_Silent_p.N81N	NM_004168	NP_004159	P31040	DHSA_HUMAN	succinate dehydrogenase complex, subunit A,	487					nervous system development|respiratory electron transport chain|succinate metabolic process|transport|tricarboxylic acid cycle	mitochondrial respiratory chain complex II	electron carrier activity|flavin adenine dinucleotide binding|protein binding|succinate dehydrogenase (ubiquinone) activity				0			Epithelial(17;0.0159)|all cancers(22;0.0236)|OV - Ovarian serous cystadenocarcinoma(19;0.0674)|Lung(60;0.113)		Succinic acid(DB00139)	TTAAACCAAACGCTGGGGAAG	0.368									Familial_Paragangliomas				14	33					0	0	1	0	0		T	240501	T	T	240501	2	4	211	1	0	0	0	0	0	0	0	1	13988	535	19	1		1	SDHA	5	240501	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	48304	240501	180674759	494	102373											
AHRR	57491	broad.mit.edu	37	chr5	434622	434622	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tacatctcgcacctggggcaCggcgtgcggggggctcagcc	5	6	16	14	4	2	0	1	0	1	0	3	0	2	0	2	6	3	3	2	6	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:434622C>T	uc003jav.2	+	12	1877	c.1833C>T	c.(1831-1833)CAC>CAT	p.H611H	AHRR_uc003jaw.2_Silent_p.H589H|AHRR_uc010isy.2_Silent_p.H439H|AHRR_uc010isz.2_Silent_p.H589H|AHRR_uc003jax.2_Silent_p.H352H|AHRR_uc003jay.2_Silent_p.H449H|AHRR_uc003jaz.2_Silent_p.H210H	NM_020731	NP_065782	A9YTQ3	AHRR_HUMAN	arylhydrocarbon receptor repressor	593	Needed for transcriptional repression (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			breast(2)	2			Epithelial(17;0.0011)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00354)|Lung(60;0.0863)			ACCTGGGGCACGGCGTGCGGG	0.667													4	21					0	0	1	0	0		T	434622	T	T	434622	2	4	211	1	0	0	0	0	0	0	0	1	417	535	19	1		1	AHRR	5	434622	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	194121	434622	180480638	495	102374											
IRX4	50805	broad.mit.edu	37	chr5	1878803	1878803	+	Silent	SNP	G	A	A	0	0	1	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	tccagaccgccgtccagggaGtggaagggcggcttcagctc	7	6	15	13	3	1	1	1	0	0	1	4	3	3	3	4	4	1	2	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:1878803G>A	uc003jcz.2	-	5	959	c.840C>T	c.(838-840)CAC>CAT	p.H280H	IRX4_uc011cmf.1_Silent_p.H141H	NM_016358	NP_057442	P78413	IRX4_HUMAN	iroquois homeobox 4	280					heart development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0				GBM - Glioblastoma multiforme(108;0.242)		CGTCCAGGGAGTGGAAGGGCG	0.711													13	17					0	0	1	0	0		A	1878803	A	A	1878803	2	1	211	1	0	0	0	0	0	0	0	1	7862	1020	36	4		4	IRX4	5	1878803	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1444181	1878803	179036457	496	102375											
TRIO	7204	broad.mit.edu	37	chr5	14488310	14488310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccctggcaaggatactgacCgcatgagcacgtgctcctcg	8	7	11	15	3	0	2	0	2	0	0	2	3	1	3	4	2	3	4	4	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:14488310C>T	uc003jff.2	+	48	7579	c.7573C>T	c.(7573-7575)CGC>TGC	p.R2525C	TRIO_uc003jfg.2_Intron|TRIO_uc003jfh.1_Missense_Mutation_p.R2174C	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2525					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					GGATACTGACCGCATGAGCAC	0.741													7	10					0	0	1	0	0		T	14488310	T	T	14488310	3	4	211	1	0	0	0	0	1	0	0	0	16578	652	23	1	7763	1	TRIO	5	14488310	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	12609507	14488310	166426950	497	102376											
ANKH	56172	broad.mit.edu	37	chr5	14746035	14746035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaccagccgtatggcatgtGacccacagggtatgtggctg	9	8	13	11	1	0	1	0	1	0	0	0	1	0	1	3	3	2	4	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:14746035G>A	uc003jfm.3	-	7	1190	c.859C>T	c.(859-861)CAC>TAC	p.H287Y	ANKH_uc003jfl.3_5'UTR	NM_054027	NP_473368	Q9HCJ1	ANKH_HUMAN	progressive ankylosis protein	287	Cytoplasmic (Potential).				locomotory behavior|regulation of bone mineralization|skeletal system development	integral to plasma membrane|outer membrane	inorganic diphosphate transmembrane transporter activity|inorganic phosphate transmembrane transporter activity			upper_aerodigestive_tract(1)	1						TATGGCATGTGACCCACAGGG	0.532													19	55					0	0	1	0	0		A	14746035	A	A	14746035	3	1	211	1	0	0	0	0	1	0	0	0	627	1290	45	4	643	4	ANKH	5	14746035	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	257725	14746035	166169225	498	102377											
CDH18	1016	broad.mit.edu	37	chr5	19612580	19612580	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggttgtcattgacatcggtTaaggtgatgttgactgttgt	7	16	14	4	1	1	3	1	3	0	0	2	3	1	3	0	3	0	4	0	3	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:19612580T>A	uc003jgc.2	-	5	1151	c.774A>T	c.(772-774)TTA>TTT	p.L258F	CDH18_uc003jgd.2_Missense_Mutation_p.L258F|CDH18_uc011cnm.1_Missense_Mutation_p.L258F	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	258	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TGACATCGGTTAAGGTGATGT	0.393													17	36					0	0	1	0	0		A	19612580	A	A	19612580	3	1	211	1	0	0	0	0	1	0	0	0	3106	1751	61	5	1630	5	CDH18	5	19612580	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	4866545	19612580	161302680	499	102378											
CDH18	1016	broad.mit.edu	37	chr5	19747115	19747115	+	Silent	SNP	A	G	G	1	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	gtgaattttggagcgttgtcAttgatgtcttgcactttgat	7	18	11	5	1	2	3	1	3	1	0	2	4	2	4	0	1	2	2	0	1	1	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:19747115A>G	uc003jgc.2	-	3	836	c.459T>C	c.(457-459)AAT>AAC	p.N153N	CDH18_uc003jgd.2_Silent_p.N153N|CDH18_uc011cnm.1_Silent_p.N153N	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	153	Extracellular (Potential).|Cadherin 1.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					GAGCGTTGTCATTGATGTCTT	0.383													27	71					0	0	1	0	0		G	19747115	G	G	19747115	2	3	211	1	0	0	0	0	0	0	0	1	3106	214	8	3		3	CDH18	5	19747115	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	134535	19747115	161168145	500	102379											
PRDM9	56979	broad.mit.edu	37	chr5	23526448	23526448	+	Silent	SNP	A	G	G	1	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	cactcctctcagaacttcccAggaccatctgcaagaaaact	13	8	5	15	0	2	2	1	0	2	2	5	3	4	3	3	1	3	1	3	1	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:23526448A>G	uc003jgo.2	+	11	1433	c.1251A>G	c.(1249-1251)CCA>CCG	p.P417P		NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9	417					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleoplasm	histone-lysine N-methyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)|large_intestine(2)|pancreas(1)	6						AGAACTTCCCAGGACCATCTG	0.483										HNSCC(3;0.000094)			26	69					0	0	1	0	0		G	23526448	G	G	23526448	2	3	211	1	0	0	0	0	0	0	0	1	12485	175	7	3		3	PRDM9	5	23526448	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3779333	23526448	157388812	501	102380											
RXFP3	51289	broad.mit.edu	37	chr5	33938198	33938198	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgctctactacccacctggCgtcgtggtctacagcggggg	5	9	13	14	3	2	0	0	0	2	0	3	0	2	0	2	4	5	1	2	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:33938198C>T	uc003jic.1	+	1	1710	c.1353C>T	c.(1351-1353)GGC>GGT	p.G451G		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	451	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						ACCCACCTGGCGTCGTGGTCT	0.597													10	32					0	0	1	0	0		T	33938198	T	T	33938198	2	4	211	1	0	0	0	0	0	0	0	1	13786	755	27	1		1	RXFP3	5	33938198	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	10411750	33938198	146977062	502	102381											
EGFLAM	133584	broad.mit.edu	37	chr5	38406315	38406315	+	Missense_Mutation	SNP	A	G	G	1	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	tgatgaaggatttgaagacgActtagatttggatatttcct	12	15	10	4	1	0	5	0	3	0	2	1	8	1	7	1	2	0	0	1	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:38406315A>G	uc003jlc.1	+	7	1124	c.800A>G	c.(799-801)GAC>GGC	p.D267G	EGFLAM_uc003jlb.1_Missense_Mutation_p.D267G|EGFLAM_uc003jle.1_Missense_Mutation_p.D33G|EGFLAM_uc003jlf.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G	267						cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					TTTGAAGACGACTTAGATTTG	0.458													12	30					0	0	1	0	0		G	38406315	G	G	38406315	3	3	211	1	0	0	0	0	1	0	0	0	4972	275	10	3	840	3	EGFLAM	5	38406315	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4468117	38406315	142508945	503	102382											
RICTOR	253260	broad.mit.edu	37	chr5	38975690	38975690	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cattttactggctagaaatcGtgcttctctgtcttctctgt	6	18	7	10	1	3	1	0	0	3	1	6	1	3	1	0	1	2	2	0	1	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:38975690G>A	uc003jlp.2	-	10	862	c.838C>T	c.(838-840)CGA>TGA	p.R280*	RICTOR_uc003jlo.2_Nonsense_Mutation_p.R280*|RICTOR_uc010ivf.2_Translation_Start_Site|RICTOR_uc003jlq.1_Nonsense_Mutation_p.R264*	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	280					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|lung(3)|skin(2)|kidney(1)|central_nervous_system(1)	10	all_lung(31;0.000396)					GCTAGAAATCGTGCTTCTCTG	0.398													11	30					0	0	1	0	0		A	38975690	A	A	38975690	4	1	211	1	0	0	0	0	0	1	0	0	13383	1153	40	1	4404	1	RICTOR	5	38975690	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	569375	38975690	141939570	504	102383											
HEATR7B2	133558	broad.mit.edu	37	chr5	41004501	41004501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttccttgaagtagaagctcaCgtctcggtctgtcagcagct	8	12	10	11	2	4	2	2	1	2	1	6	2	5	2	1	1	3	4	1	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:41004501C>T	uc003jmj.3	-	37	4631	c.4141G>A	c.(4141-4143)GTG>ATG	p.V1381M	HEATR7B2_uc003jmi.3_Missense_Mutation_p.V936M	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1381	HEAT 15.						binding			ovary(6)|central_nervous_system(2)	8						TAGAAGCTCACGTCTCGGTCT	0.463													35	84					0	0	1	0	0		T	41004501	T	T	41004501	3	4	211	1	0	0	0	0	1	0	0	0	7051	536	19	1	640	1	HEATR7B2	5	41004501	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2028811	41004501	139910759	505	102384											
C5orf51	285636	broad.mit.edu	37	chr5	41904537	41904537	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatctggctcaggcccacaTacagcaacttagcgaagctg	11	7	11	12	1	2	0	1	0	1	0	2	2	2	1	1	3	5	3	1	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:41904537T>C	uc003jmo.2	+	1	68	c.68T>C	c.(67-69)ATA>ACA	p.I23T		NM_175921	NP_787117	A6NDU8	CE051_HUMAN	hypothetical protein LOC285636	23											0						CAGGCCCACATACAGCAACTT	0.657													11	22					0	0	1	0	0		C	41904537	C	C	41904537	3	2	211	1	0	0	0	0	1	0	0	0	2311	1406	49	3	70	3	C5orf51	5	41904537	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	900036	41904537	139010723	506	102385											
ZNF131	7690	broad.mit.edu	37	chr5	43161931	43161931	+	Missense_Mutation	SNP	A	G	G	1	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	accttgaagaaggtggagtcAgtaagaagcaaagaactggg	16	6	14	5	0	1	4	1	1	0	3	1	5	1	5	1	3	2	2	1	3	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:43161931A>G	uc011cpw.1	+	5	988	c.952A>G	c.(952-954)AGT>GGT	p.S318G	ZNF131_uc010ivl.1_Missense_Mutation_p.S284G|ZNF131_uc003jnj.3_Missense_Mutation_p.S39G|ZNF131_uc003jnk.2_Missense_Mutation_p.S284G|ZNF131_uc003jnn.3_Missense_Mutation_p.S39G|ZNF131_uc003jnl.1_Intron|ZNF131_uc010ivm.1_Intron	NM_003432	NP_003423	P52739	ZN131_HUMAN	zinc finger protein 131	318						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						AGGTGGAGTCAGTAAGAAGCA	0.373													23	52					0	0	1	0	0		G	43161931	G	G	43161931	3	3	211	1	0	0	0	0	1	0	0	0	17746	188	7	3	868	3	ZNF131	5	43161931	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1257394	43161931	137753329	507	102386											
MGC42105	167359	broad.mit.edu	37	chr5	43245938	43245938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccactatgcccggtgggatCggcgcgacagtgtagaaagt	9	7	14	11	4	0	1	0	0	0	1	1	3	0	2	2	3	1	1	2	3	3	2	rs55664335		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:43245938C>T	uc003jno.2	+	2	942	c.61C>T	c.(61-63)CGG>TGG	p.R21W		NM_153361	NP_699192	Q8IY84	NIM1_HUMAN	serine/threonine-protein kinase NIM1	21			R -> W.				ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(4)|ovary(2)|stomach(1)|large_intestine(1)|breast(1)	9						CCGGTGGGATCGGCGCGACAG	0.602													44	111					0	0	1	0	0		T	43245938	T	T	43245938	3	4	211	1	0	0	0	0	1	0	0	0	9570	875	31	1	63	1	MGC42105	5	43245938	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	84007	43245938	137669322	508	102387											
NDUFS4	4724	broad.mit.edu	37	chr5	52954391	52954391	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttacagggctgatcccTtatccaacatggttctaacc	9	14	6	12	0	2	1	0	1	2	0	4	1	4	1	3	2	3	2	3	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:52954391T>G	uc003jpe.2	+	4	389	c.361T>G	c.(361-363)TTA>GTA	p.L121V		NM_002495	NP_002486	O43181	NDUS4_HUMAN	NADH dehydrogenase (ubiquinone) Fe-S protein 4	121					brain development|cAMP-mediated signaling|mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|positive regulation of fibroblast proliferation|reactive oxygen species metabolic process|regulation of protein phosphorylation|response to cAMP|transport	mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			central_nervous_system(1)	1		Lung NSC(810;8.27e-05)|Breast(144;0.0848)			NADH(DB00157)	GGCTGATCCCTTATCCAACAT	0.303													25	53					0	0	1	0	0		G	52954391	G	G	52954391	3	3	211	1	0	0	0	0	1	0	0	0	10313	1606	56	5	375	5	NDUFS4	5	52954391	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	9708453	52954391	127960869	509	102388											
HTR1A	3350	broad.mit.edu	37	chr5	63256825	63256825	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcgggagatgctccatggCgggtgtccgctccggtcttc	3	9	17	12	4	1	1	0	0	1	1	5	2	4	1	3	5	1	2	3	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:63256825C>T	uc011cqt.1	-	1	722	c.722G>A	c.(721-723)CGC>CAC	p.R241H		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	241	Cytoplasmic (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	TGCTCCATGGCGGGTGTCCGC	0.627													26	76					0	0	1	0	0		T	63256825	T	T	63256825	3	4	211	1	0	0	0	0	1	0	0	0	7452	768	27	1	549	1	HTR1A	5	63256825	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	10302434	63256825	117658435	510	102389											
NLN	57486	broad.mit.edu	37	chr5	65118659	65118659	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaacctgggggatctctggaCggcatggacatgctccacaa	11	7	12	11	1	1	0	0	0	1	0	3	3	2	3	2	5	2	2	2	5	2	0	rs148323761		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:65118659C>T	uc003juf.2	+	13	2147	c.2031C>T	c.(2029-2031)GAC>GAT	p.D677D	NLN_uc003jug.2_Silent_p.D506D|NLN_uc010iww.2_Silent_p.D354D	NM_020726	NP_065777	Q9BYT8	NEUL_HUMAN	neurolysin precursor	677					proteolysis	mitochondrial intermembrane space	metal ion binding|metalloendopeptidase activity			central_nervous_system(1)	1		Lung NSC(167;7.21e-05)|Prostate(74;0.0174)|Ovarian(174;0.186)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0743)|Lung(70;0.00616)		GATCTCTGGACGGCATGGACA	0.418													35	89					0	0	1	0	0		T	65118659	T	T	65118659	2	4	211	1	0	0	0	0	0	0	0	1	10486	535	19	1		1	NLN	5	65118659	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1861834	65118659	115796601	511	102390											
ERBB2IP	55914	broad.mit.edu	37	chr5	65344494	65344494	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctcacccccttttcactaGgaatctgaagaactttcttc	9	13	4	15	0	4	2	2	1	2	1	5	3	4	3	3	1	1	0	3	1	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:65344494G>A	uc003juk.1	+	19	2097	c.1789_splice	c.e19-1	p.E597_splice	ERBB2IP_uc003juh.1_Splice_Site_p.E593_splice|ERBB2IP_uc003jui.1_Splice_Site_p.E597_splice|ERBB2IP_uc003juj.1_Splice_Site_p.E597_splice|ERBB2IP_uc011cqx.1_Splice_Site_p.E597_splice|ERBB2IP_uc011cqy.1_Splice_Site_p.E597_splice|ERBB2IP_uc011cqz.1_Intron|ERBB2IP_uc010iwx.1_Splice_Site_p.E593_splice|ERBB2IP_uc003jul.1_Splice_Site_p.E593_splice	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	ERBB2 interacting protein isoform 2						basal protein localization|cell adhesion|cell cycle|cell growth|epidermal growth factor receptor signaling pathway|establishment or maintenance of epithelial cell apical/basal polarity|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization	basement membrane|cytoplasm|hemidesmosome|nucleus	ErbB-2 class receptor binding|integrin binding|structural constituent of cytoskeleton			ovary(3)|lung(2)|central_nervous_system(2)	7		Lung NSC(167;9.45e-06)|Prostate(74;0.0139)|Ovarian(174;0.0547)|Breast(144;0.093)|Colorectal(97;0.234)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0767)|Lung(70;0.00191)		CTTTTCACTAGGAATCTGAAG	0.308													13	30					0	0	1	0	0		A	65344494	A	A	65344494	5	1	211	1	0	0	0	0	0	0	1	0	5215	1014	35	4	1854	4	ERBB2IP	5	65344494	Splice_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	225835	65344494	115570766	512	102391											
MAST4	375449	broad.mit.edu	37	chr5	66459182	66459182	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaccccgcaacccacctcccCgcagcggtcaccatcccctc	8	4	5	24	3	1	0	1	0	0	0	4	0	3	0	9	1	3	2	9	1	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:66459182C>T	uc003jut.1	+	28	3676	c.3608C>T	c.(3607-3609)CCG>CTG	p.P1203L	MAST4_uc003juw.2_Missense_Mutation_p.P1131L|MAST4_uc003jux.2_5'Flank	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	1395						cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)		CCCACCTCCCCGCAGCGGTCA	0.667													19	42					0	0	1	0	0		T	66459182	T	T	66459182	3	4	211	1	0	0	0	0	1	0	0	0	9345	652	23	1	4419	1	MAST4	5	66459182	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1114688	66459182	114456078	513	102392											
MARVELD2	153562	broad.mit.edu	37	chr5	68715240	68715240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgatggaagatccaggaatCgggacaggcgctacgatgag	13	6	15	7	3	0	3	0	2	0	1	2	7	1	6	1	4	1	1	1	4	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:68715240C>T	uc003jwq.2	+	2	87	c.28C>T	c.(28-30)CGG>TGG	p.R10W	MARVELD2_uc010ixf.2_Missense_Mutation_p.R10W|MARVELD2_uc003jwr.1_Missense_Mutation_p.R10W|MARVELD2_uc003jws.1_RNA	NM_001038603	NP_001033692	Q8N4S9	MALD2_HUMAN	MARVEL domain containing 2 isoform 1	10	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane|tight junction					0		Lung NSC(167;0.000937)|Prostate(74;0.0187)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;7.31e-57)|Epithelial(20;1.05e-52)|all cancers(19;2.63e-48)|Lung(70;0.0183)		ATCCAGGAATCGGGACAGGCG	0.463													15	41					0	0	1	0	0		T	68715240	T	T	68715240	3	4	211	1	0	0	0	0	1	0	0	0	9336	875	31	1	30	1	MARVELD2	5	68715240	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2256058	68715240	112200020	514	102393											
MARVELD2	153562	broad.mit.edu	37	chr5	68716108	68716108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaatttggaattaacgttgCcttgtttattttgtatatgg	9	20	9	3	1	0	1	0	1	0	0	0	2	0	2	1	2	2	3	1	2	6	10			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:68716108C>T	uc003jwq.2	+	2	955	c.896C>T	c.(895-897)GCC>GTC	p.A299V	MARVELD2_uc010ixf.2_Missense_Mutation_p.A299V|MARVELD2_uc003jwr.1_Missense_Mutation_p.A299V|MARVELD2_uc003jws.1_Intron	NM_001038603	NP_001033692	Q8N4S9	MALD2_HUMAN	MARVEL domain containing 2 isoform 1	299	MARVEL.|Helical; (Potential).				sensory perception of sound	integral to membrane|tight junction					0		Lung NSC(167;0.000937)|Prostate(74;0.0187)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;7.31e-57)|Epithelial(20;1.05e-52)|all cancers(19;2.63e-48)|Lung(70;0.0183)		ATTAACGTTGCCTTGTTTATT	0.423													15	74					0	0	1	0	0		T	68716108	T	T	68716108	3	4	211	1	0	0	0	0	1	0	0	0	9336	739	26	2	898	2	MARVELD2	5	68716108	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	868	68716108	112199152	515	102394											
MARVELD2	153562	broad.mit.edu	37	chr5	68728392	68728392	+	Silent	SNP	A	G	G	1	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	ggtgacagacaaagagactcAgaagttaatttcaaggaact	17	8	10	6	0	2	4	2	1	0	3	2	6	2	5	0	2	1	1	0	2	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:68728392A>G	uc003jwq.2	+	4	1280	c.1221A>G	c.(1219-1221)TCA>TCG	p.S407S	MARVELD2_uc010ixf.2_Silent_p.S395S|MARVELD2_uc003jwr.1_Silent_p.S407S|MARVELD2_uc003jws.1_RNA	NM_001038603	NP_001033692	Q8N4S9	MALD2_HUMAN	MARVEL domain containing 2 isoform 1	407	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane|tight junction					0		Lung NSC(167;0.000937)|Prostate(74;0.0187)|Ovarian(174;0.16)		OV - Ovarian serous cystadenocarcinoma(47;7.31e-57)|Epithelial(20;1.05e-52)|all cancers(19;2.63e-48)|Lung(70;0.0183)		AAAGAGACTCAGAAGTTAATT	0.423													14	33					0	0	1	0	0		G	68728392	G	G	68728392	2	3	211	1	0	0	0	0	0	0	0	1	9336	175	7	3		3	MARVELD2	5	68728392	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	12284	68728392	112186868	516	102395											
PAPD4	167153	broad.mit.edu	37	chr5	78936673	78936673	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttttttgcggtggattcaaGttgagtcagcagatactgga	9	15	12	5	1	2	2	2	1	0	1	2	4	2	4	0	3	3	2	0	3	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:78936673G>A	uc010jae.1	+	6	884	c.466_splice	c.e6-1	p.L156_splice	PAPD4_uc003kgb.2_Splice_Site_p.L156_splice|PAPD4_uc010jaf.1_Splice_Site_p.L156_splice|PAPD4_uc003kga.2_Splice_Site_p.L156_splice|PAPD4_uc003kfz.2_Splice_Site_p.L156_splice	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4						histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		GTGGATTCAAGTTGAGTCAGC	0.328													13	24					0	0	1	0	0		A	78936673	A	A	78936673	5	1	211	1	0	0	0	0	0	0	1	0	11443	1043	36	4	479	4	PAPD4	5	78936673	Splice_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10208281	78936673	101978587	517	102396											
CMYA5	202333	broad.mit.edu	37	chr5	79030432	79030432	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagaaagcaggtcctgccGcattctgctgaagaatctca	11	9	11	10	1	2	3	1	2	2	2	4	4	3	3	2	1	3	3	2	1	3	1	rs142351624	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:79030432G>A	uc003kgc.2	+	2	5916	c.5844G>A	c.(5842-5844)CCG>CCA	p.P1948P		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1948						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		AGGTCCTGCCGCATTCTGCTG	0.463													17	46					0	0	1	0	0		A	79030432	A	A	79030432	2	1	211	1	0	0	0	0	0	0	0	1	3593	1074	38	1		1	CMYA5	5	79030432	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	93759	79030432	101884828	518	102397											
POU5F2	134187	broad.mit.edu	37	chr5	93077153	93077153	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatcaccctgccaggggcCgcctgggtgctcaaccaggt	7	6	12	16	1	2	0	2	0	0	0	2	0	2	0	6	4	3	1	6	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:93077153C>T	uc003kkl.1	-	1	157	c.117G>A	c.(115-117)GCG>GCA	p.A39A	FAM172A_uc010jbd.2_Intron|FAM172A_uc011cuf.1_Intron|FAM172A_uc011cug.1_Intron|FAM172A_uc011cuh.1_Intron|FAM172A_uc011cui.1_Intron|FAM172A_uc011cuj.1_Intron	NM_153216	NP_694948	Q8N7G0	PO5F2_HUMAN	POU domain class 5, transcription factor 2	39						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		TGCCAGGGGCCGCCTGGGTGC	0.682													9	26					0	0	1	0	0		T	93077153	T	T	93077153	2	4	211	1	0	0	0	0	0	0	0	1	12302	639	23	1		1	POU5F2	5	93077153	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	14046721	93077153	87838107	519	102398											
CHD1	1105	broad.mit.edu	37	chr5	98193931	98193931	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacgatggtctttaccattActaaaagaagaatagggtct	14	12	8	7	1	3	2	1	0	2	2	3	3	3	2	1	2	2	0	1	2	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:98193931A>G	uc003knf.2	-	34	4888	c.4740T>C	c.(4738-4740)AGT>AGC	p.S1580S	CHD1_uc010jbn.2_Silent_p.S306S	NM_001270	NP_001261	O14646	CHD1_HUMAN	chromodomain helicase DNA binding protein 1	1580					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|methylated histone residue binding			lung(2)|ovary(1)|breast(1)|pancreas(1)	5		all_cancers(142;5.36e-08)|all_epithelial(76;6.97e-11)|Lung NSC(167;0.000693)|Prostate(80;0.000986)|all_lung(232;0.00119)|Ovarian(225;0.024)|Colorectal(57;0.117)		COAD - Colon adenocarcinoma(37;0.0717)	Epirubicin(DB00445)	CTTTACCATTACTAAAAGAAG	0.368													40	129					0	0	1	0	0		G	98193931	G	G	98193931	2	3	211	1	0	0	0	0	0	0	0	1	3326	388	14	3		3	CHD1	5	98193931	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	5116778	98193931	82721329	520	102399											
FER	2241	broad.mit.edu	37	chr5	108294935	108294935	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctctctccagaacatgtatCgattcgagggcactgggttt	8	13	10	10	2	2	1	0	0	2	1	6	3	2	1	1	2	1	3	1	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:108294935C>T	uc003kop.1	+	13	1927	c.1543C>T	c.(1543-1545)CGA>TGA	p.R515*	FER_uc011cvf.1_RNA|FER_uc011cvg.1_Nonsense_Mutation_p.R340*	NM_005246	NP_005237	P16591	FER_HUMAN	fer (fps/fes related) tyrosine kinase	515	SH2.				intracellular signal transduction|peptidyl-tyrosine phosphorylation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|kidney(1)	5		all_cancers(142;2.86e-06)|all_epithelial(76;9.81e-08)|Prostate(80;0.00972)|Lung NSC(167;0.039)|Ovarian(225;0.0448)|all_lung(232;0.0496)|Colorectal(57;0.0986)|Breast(839;0.152)		OV - Ovarian serous cystadenocarcinoma(64;6.77e-10)|Epithelial(69;4.13e-08)|COAD - Colon adenocarcinoma(37;0.0174)		GAACATGTATCGATTCGAGGG	0.333													15	38					0	0	1	0	0		T	108294935	T	T	108294935	4	4	211	1	0	0	0	0	0	1	0	0	5827	876	31	1	1585	1	FER	5	108294935	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	10101004	108294935	72620325	521	102400											
SRP19	6728	broad.mit.edu	37	chr5	112227602	112227602	+	Missense_Mutation	SNP	A	G	G	1	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	gagggagcagaaggcacaagAagaattcagaataaagaagg	20	3	14	4	0	1	5	1	0	0	5	1	7	1	6	0	3	1	2	0	3	8	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:112227602A>G	uc011cvv.1	+	4	596	c.341A>G	c.(340-342)GAA>GGA	p.E114G	SRP19_uc011cvu.1_Missense_Mutation_p.E99G|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_Intron|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		AAGGCACAAGAAGAATTCAGA	0.224													8	22					0	0	1	0	0		G	112227602	G	G	112227602	3	3	211	1	0	0	0	0	1	0	0	0	15179	261	9	3		3	SRP19	5	112227602	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3932667	112227602	68687658	522	102401											
DCP2	167227	broad.mit.edu	37	chr5	112328440	112328440	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaaagtaaataaagaagaAgctcctcatgattgtgctgc	16	9	10	6	0	1	3	1	1	0	2	2	4	2	4	1	1	3	3	1	1	8	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:112328440A>C	uc003kqh.2	+	4	603	c.405A>C	c.(403-405)GAA>GAC	p.E135D	DCP2_uc011cwa.1_5'UTR|DCP2_uc010jcc.2_Missense_Mutation_p.E41D	NM_152624	NP_689837	Q8IU60	DCP2_HUMAN	DCP2 decapping enzyme	135	Nudix box.|Nudix hydrolase.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytoplasmic mRNA processing body|cytosol|nucleus|RNA-induced silencing complex	exoribonuclease activity, producing 5'-phosphomonoesters|manganese ion binding|protein binding|protein binding|RNA binding				0		all_cancers(142;4.41e-05)|all_epithelial(76;3.65e-07)|Colorectal(10;0.00115)|Prostate(80;0.00133)|Ovarian(225;0.0443)		OV - Ovarian serous cystadenocarcinoma(64;6.98e-08)|Epithelial(69;7.87e-08)|all cancers(49;1.06e-05)|COAD - Colon adenocarcinoma(37;0.0123)|Colorectal(14;0.0171)		ATAAAGAAGAAGCTCCTCATG	0.353													11	29					0	0	1	0	0		C	112328440	C	C	112328440	3	2	211	1	0	0	0	0	1	0	0	0	4303	69	3	5	419	5	DCP2	5	112328440	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	100838	112328440	68586820	523	102402											
TSSK1B	83942	broad.mit.edu	37	chr5	112769448	112769448	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctcactgggcccgcgtCtctggaggctgttggggggg	4	8	19	10	2	2	0	1	0	1	0	3	2	2	1	1	6	1	3	1	6	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:112769448C>A	uc003kqm.2	-	1	1281	c.1089G>T	c.(1087-1089)GAG>GAT	p.E363D	MCC_uc003kql.3_Intron	NM_032028	NP_114417	Q9BXA7	TSSK1_HUMAN	testis-specific serine kinase 1	363					cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|skin(2)|stomach(1)	5		all_cancers(142;0.0138)|all_epithelial(76;0.000445)|Colorectal(10;0.00814)|Prostate(80;0.0115)|Ovarian(225;0.156)		Epithelial(69;4.15e-08)|OV - Ovarian serous cystadenocarcinoma(64;4.49e-08)|all cancers(49;3.2e-06)|COAD - Colon adenocarcinoma(37;0.0371)|Colorectal(14;0.0449)		GGGCCCGCGTCTCTGGAGGCT	0.592													5	27					0.014758	0.0149105	1	1	0		A	112769448	A	A	112769448	3	1	211	1	0	0	0	0	1	0	0	0	16694	912	32	5	18	5	TSSK1B	5	112769448	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	441008	112769448	68145812	524	102403											
COMMD10	51397	broad.mit.edu	37	chr5	115628184	115628184	+	Nonstop_Mutation	SNP	T	C	C	0	1	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	cacagctggattcccttacaTgatgttttcgaagactgttt	9	15	8	9	1	0	2	0	1	0	1	2	4	1	3	1	1	2	3	1	1	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:115628184T>C	uc003krt.1	+	7	630	c.607T>C	c.(607-609)TGA>CGA	p.*203R		NM_016144	NP_057228	Q9Y6G5	COMDA_HUMAN	COMM domain containing 10	203							protein binding			ovary(1)	1		all_cancers(142;0.0834)|all_epithelial(76;0.00314)|Prostate(80;0.0102)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;4.3e-07)|Epithelial(69;8.06e-07)|all cancers(49;4.06e-05)		TTCCCTTACATGATGTTTTCG	0.373													28	60					0	0	1	0	0		C	115628184	C	C	115628184	4	2	211	1	0	0	0	0	0	0	0	0	3718	1477	51	3	633	3	COMMD10	5	115628184	Nonstop_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2858736	115628184	65287076	525	102404											
DMXL1	1657	broad.mit.edu	37	chr5	118485859	118485859	+	Frame_Shift_Del	DEL	T	-	-																															taaagaaagttatgatgagcTttttcagactcaacttctaa																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:118485859delT	uc003ksd.2	+	18	4518	c.4337delT	c.(4336-4338)CTTfs	p.L1446fs	DMXL1_uc010jcl.1_Frame_Shift_Del_p.L1446fs	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1446										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TATGATGAGCTTTTTCAGACT	0.348													18	41	---	---	---	---						.	-	118485859	-	-	118485859	7	5	211	1	0	1	0	1	0	0	0	0	4600	1609	56	0	4407	0	DMXL1	5	118485859	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2857675	118485859	62429401	526	102405											
SRFBP1	153443	broad.mit.edu	37	chr5	121297697	121297697	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagagaccggttcacgtgcaGgcagcggcggatcatattcc	9	7	14	11	4	2	1	2	0	0	1	3	4	3	2	2	4	2	3	2	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:121297697G>T	uc003kst.1	+	1	42	c.-30G>T	c.(-32--28)CAGGC>CATGC			NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		TTCACGTGCAGGCAGCGGCGG	0.587													29	129					3.1745e-13	3.42444e-13	1	1	0		T	121297697	T	T	121297697	1	4	211	1	0	0	0	0	0	0	0	0	15169	1015	35	5		5	SRFBP1	5	121297697	Translation_Start_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2811838	121297697	59617563	527	102406											
CSNK1G3	1456	broad.mit.edu	37	chr5	122911537	122911537	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaagttattcacattataGattttggtttggcaaaggaa	14	14	9	4	0	1	1	1	0	0	1	1	2	1	2	0	3	1	4	0	3	6	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:122911537G>T	uc003ktm.2	+	6	1272	c.553G>T	c.(553-555)GAT>TAT	p.D185Y	CSNK1G3_uc003ktl.2_Missense_Mutation_p.D185Y|CSNK1G3_uc003ktn.2_Missense_Mutation_p.D185Y|CSNK1G3_uc003kto.2_Missense_Mutation_p.D185Y|CSNK1G3_uc011cwr.1_Missense_Mutation_p.D110Y|CSNK1G3_uc011cws.1_Missense_Mutation_p.D72Y|CSNK1G3_uc010jda.2_Missense_Mutation_p.D185Y	NM_004384	NP_004375	Q9Y6M4	KC1G3_HUMAN	casein kinase 1, gamma 3 isoform 1	185	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0		all_cancers(142;0.0156)|Prostate(80;0.0322)|Lung NSC(810;0.245)	KIRC - Kidney renal clear cell carcinoma(527;0.165)|Kidney(363;0.229)	OV - Ovarian serous cystadenocarcinoma(64;0.000121)|Epithelial(69;0.000227)|all cancers(49;0.00176)		TCACATTATAGATTTTGGTTT	0.363													23	42					2.27525e-19	2.48935e-19	1	1	0		T	122911537	T	T	122911537	3	4	211	1	0	0	0	0	1	0	0	0	3959	942	33	5	571	5	CSNK1G3	5	122911537	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1613840	122911537	58003723	528	102407											
MEGF10	84466	broad.mit.edu	37	chr5	126758366	126758366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctgttttccatgcaggatgGcacgtacgggctgaactgtg	7	11	14	9	2	0	1	0	1	0	0	1	2	1	2	1	3	3	6	1	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:126758366G>A	uc003kuh.3	+	14	1957	c.1595G>A	c.(1594-1596)GGC>GAC	p.G532D	MEGF10_uc010jdc.1_Missense_Mutation_p.G532D|MEGF10_uc010jdd.1_Missense_Mutation_p.G532D|MEGF10_uc003kui.3_Missense_Mutation_p.G532D	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	532	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		ATGCAGGATGGCACGTACGGG	0.582													11	36					0	0	1	0	0		A	126758366	A	A	126758366	3	1	211	1	0	0	0	0	1	0	0	0	9478	1203	42	2	1641	2	MEGF10	5	126758366	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3846829	126758366	54156894	529	102408											
P4HA2	8974	broad.mit.edu	37	chr5	131545995	131545995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaagggagagcaggcggcGggtgagctccagggcacggt	9	3	19	10	3	0	2	0	1	0	1	1	3	1	2	2	6	2	3	2	6	1	0	rs149593706		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:131545995G>A	uc003kwh.2	-	6	1255	c.691C>T	c.(691-693)CGC>TGC	p.R231C	P4HA2_uc003kwg.2_Missense_Mutation_p.R231C|P4HA2_uc003kwi.2_Missense_Mutation_p.R231C|P4HA2_uc003kwk.2_Missense_Mutation_p.R231C|P4HA2_uc003kwl.2_Missense_Mutation_p.R231C|P4HA2_uc003kwj.2_Missense_Mutation_p.R231C	NM_004199	NP_004190	O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha II subunit isoform 1	231	TPR.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding				0		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	AGCAGGCGGCGGGTGAGCTCC	0.597													48	101					0	0	1	0	0		A	131545995	A	A	131545995	3	1	211	1	0	0	0	0	1	0	0	0	11376	1116	39	1	1020	1	P4HA2	5	131545995	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4787629	131545995	49369265	530	102409											
CDKL3	51265	broad.mit.edu	37	chr5	133634344	133634344	+	Nonstop_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatgtaaaagaaaagacactAccagaaaaaaaacctgtttc	21	8	5	7	0	0	3	0	0	0	3	1	3	0	3	2	0	2	2	2	0	10	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:133634344A>G	uc003kzf.3	-	13	1896	c.1777T>C	c.(1777-1779)TAG>CAG	p.*593Q	CDKL3_uc011cxm.1_Intron|CDKL3_uc011cxn.1_Intron|CDKL3_uc010jdw.2_Intron|CDKL3_uc011cxo.1_Intron|CDKL3_uc011cxp.1_Intron|CDKL3_uc011cxq.1_3'UTR	NM_001113575	NP_001107047	Q8IVW4	CDKL3_HUMAN	cyclin-dependent kinase-like 3 isoform 1	593						cytoplasm	ATP binding|cyclin-dependent protein kinase activity			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AAAAGACACTACCAGAAAAAA	0.368													25	82					0	0	1	0	0		G	133634344	G	G	133634344	4	3	211	1	0	0	0	0	0	0	0	0	3158	404	14	3	5	3	CDKL3	5	133634344	Nonstop_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2088349	133634344	47280916	531	102410											
H2AFY	9555	broad.mit.edu	37	chr5	134670787	134670787	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acacgaagtaactggagatgGccttcagaatcagctgagct	13	8	11	9	1	2	3	2	1	0	2	2	5	2	3	1	2	3	3	1	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:134670787G>A	uc003lam.1	-	9	1208	c.998C>T	c.(997-999)GCC>GTC	p.A333V	uc003laj.1_Intron|H2AFY_uc003lal.1_RNA|H2AFY_uc003lao.1_Missense_Mutation_p.A332V|H2AFY_uc003lan.1_Missense_Mutation_p.A330V|H2AFY_uc003lap.1_RNA|H2AFY_uc003laq.1_RNA|H2AFY_uc003lar.1_RNA|H2AFY_uc011cxz.1_Missense_Mutation_p.A161V|H2AFY_uc003las.1_Missense_Mutation_p.A333V|H2AFY_uc003lat.1_Missense_Mutation_p.A332V|H2AFY_uc003lau.1_RNA	NM_138610	NP_613258	O75367	H2AY_HUMAN	H2A histone family, member Y isoform 3	333	Macro.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ACTGGAGATGGCCTTCAGAAT	0.498													19	49					0	0	1	0	0		A	134670787	A	A	134670787	3	1	211	1	0	0	0	0	1	0	0	0	6945	1203	42	2	124	2	H2AFY	5	134670787	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1036443	134670787	46244473	532	102411											
BRD8	10902	broad.mit.edu	37	chr5	137496755	137496755	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatagttgacaaatccataGgcctaaaaaaaaagaacagg	21	7	7	6	0	0	2	0	1	0	1	1	2	1	2	2	2	1	1	2	2	10	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:137496755G>T	uc003lcf.1	-	18	2307	c.2252C>A	c.(2251-2253)CCT>CAT	p.P751H	BRD8_uc003lcc.1_RNA|BRD8_uc011cyl.1_Missense_Mutation_p.P530H|BRD8_uc003lcg.2_Missense_Mutation_p.P824H|BRD8_uc003lci.2_Missense_Mutation_p.P754H|BRD8_uc003lch.2_Missense_Mutation_p.P645H|BRD8_uc011cym.1_Missense_Mutation_p.P735H|BRD8_uc010jer.1_Missense_Mutation_p.P720H|BRD8_uc011cyn.1_Missense_Mutation_p.P710H	NM_139199	NP_631938	Q9H0E9	BRD8_HUMAN	bromodomain containing 8 isoform 2	751	Bromo 1.				cell surface receptor linked signaling pathway|histone H2A acetylation|histone H4 acetylation|regulation of growth|regulation of transcription from RNA polymerase II promoter	mitochondrion|NuA4 histone acetyltransferase complex	sequence-specific DNA binding transcription factor activity|thyroid hormone receptor activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			CAAATCCATAGGCCTAAAAAA	0.373													6	24					0.00198382	0.00201759	1	1	0		T	137496755	T	T	137496755	3	4	211	1	0	0	0	0	1	0	0	0	1509	1000	35	5	1559	5	BRD8	5	137496755	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2825968	137496755	43418505	533	102412											
FAM53C	51307	broad.mit.edu	37	chr5	137681158	137681158	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctccccagagctgccctggCgacctcgaggtctccgcaac	6	6	10	19	3	1	1	0	0	1	1	4	3	2	1	6	2	3	2	6	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:137681158C>T	uc003lcv.2	+	4	1251	c.781C>T	c.(781-783)CGA>TGA	p.R261*	FAM53C_uc003lcw.2_Nonsense_Mutation_p.R261*|FAM53C_uc011cyq.1_RNA|FAM53C_uc011cyr.1_Silent_p.G76G	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	261										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			GCTGCCCTGGCGACCTCGAGG	0.677													40	93					0	0	1	0	0		T	137681158	T	T	137681158	4	4	211	1	0	0	0	0	0	1	0	0	5595	760	27	1	791	1	FAM53C	5	137681158	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	184403	137681158	43234102	534	102413											
MATR3	9782	broad.mit.edu	37	chr5	138658374	138658374	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaagactgagagttcaacCgaaggtaaagaacaagaaga	20	4	11	6	1	1	6	1	1	0	6	1	8	1	6	1	1	2	2	1	1	8	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:138658374C>T	uc003ldu.2	+	15	2293	c.1866C>T	c.(1864-1866)ACC>ACT	p.T622T	MATR3_uc010jfb.2_Silent_p.T622T|MATR3_uc003ldt.2_Silent_p.T284T|MATR3_uc003ldw.2_Silent_p.T622T|MATR3_uc003ldx.2_Silent_p.T622T|MATR3_uc010jfc.2_Silent_p.T622T|MATR3_uc003ldy.2_Silent_p.T299T|MATR3_uc011czb.1_Silent_p.T334T|MATR3_uc003ldz.2_Silent_p.T622T|MATR3_uc003lea.2_Silent_p.T622T|MATR3_uc003leb.2_Silent_p.T284T|MATR3_uc003lec.2_Silent_p.T299T	NM_199189	NP_954659	P43243	MATR3_HUMAN	matrin 3	622						nuclear inner membrane|nuclear matrix	nucleotide binding|protein binding|RNA binding|structural molecule activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGAGTTCAACCGAAGGTAAAG	0.408													9	27					0	0	1	0	0		T	138658374	T	T	138658374	2	4	211	1	0	0	0	0	0	0	0	1	9355	639	23	1		1	MATR3	5	138658374	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	977216	138658374	42256886	535	102414											
DNAJC18	202052	broad.mit.edu	37	chr5	138762025	138762025	+	Missense_Mutation	SNP	A	G	G	1	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	tcttatcaggattgctcaggActgcaaatgcatttcctatt	10	15	7	9	0	3	0	2	0	1	0	4	2	4	2	1	2	3	3	1	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:138762025A>G	uc003len.2	-	4	400	c.395T>C	c.(394-396)GTC>GCC	p.V132A	DNAJC18_uc010jff.2_Intron	NM_152686	NP_689899	Q9H819	DJC18_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 18	132	J.				protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)|kidney(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ATTGCTCAGGACTGCAAATGC	0.458													13	58					0	0	1	0	0		G	138762025	G	G	138762025	3	3	211	1	0	0	0	0	1	0	0	0	4643	275	10	3	701	3	DNAJC18	5	138762025	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	103651	138762025	42153235	536	102415											
TMEM173	340061	broad.mit.edu	37	chr5	138860445	138860445	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgggccacgttgaaattcccTttttcacacactgcagagat	10	12	8	11	1	1	2	1	1	0	1	2	3	2	2	2	1	1	2	2	1	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:138860445T>C	uc003lep.2	-	5	701	c.450A>G	c.(448-450)AAA>AAG	p.K150K		NM_198282	NP_938023	Q86WV6	TM173_HUMAN	transmembrane protein 173	150	Extracellular (Potential).			K->R: Abolishes ubiquitination, homodimerization and subsequent production of IFN-beta.	activation of innate immune response|apoptosis|cellular response to exogenous dsRNA|defense response to virus|innate immune response|interferon-beta production|positive regulation of defense response to virus by host|positive regulation of protein binding|positive regulation of protein import into nucleus, translocation|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|perinuclear region of cytoplasm|plasma membrane	protein homodimerization activity|protein kinase binding|transcription factor binding			upper_aerodigestive_tract(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			TGAAATTCCCTTTTTCACACA	0.587													9	29					0	0	1	0	0		C	138860445	C	C	138860445	2	2	211	1	0	0	0	0	0	0	0	1	16114	1606	56	3		3	TMEM173	5	138860445	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	98420	138860445	42054815	537	102416											
SLC4A9	83697	broad.mit.edu	37	chr5	139741710	139741710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggagcctttgttcgactgCggaaccctgtggtactgggg	5	11	16	9	2	0	0	0	0	0	0	1	3	0	2	2	5	4	2	2	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:139741710C>T	uc003lfm.2	+	5	777	c.742C>T	c.(742-744)CGG>TGG	p.R248W	SLC4A9_uc003lfj.2_Missense_Mutation_p.R224W|SLC4A9_uc011czg.1_Missense_Mutation_p.R224W|SLC4A9_uc003lfl.2_Missense_Mutation_p.R224W|SLC4A9_uc003lfk.2_Missense_Mutation_p.R224W	NM_031467	NP_113655	Q96Q91	B3A4_HUMAN	solute carrier family 4, sodium bicarbonate	248	Cytoplasmic (Potential).					integral to membrane|plasma membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			large_intestine(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTTCGACTGCGGAACCCTGT	0.617													6	14					0	0	1	0	0		T	139741710	T	T	139741710	3	4	211	1	0	0	0	0	1	0	0	0	14685	759	27	1	688	1	SLC4A9	5	139741710	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	881265	139741710	41173550	538	102417											
HARS	3035	broad.mit.edu	37	chr5	140058700	140058700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttattcattgccaaataccGagcaaaaggaacctgatgac	15	10	7	9	1	1	2	1	2	0	0	1	4	1	3	3	1	4	1	3	1	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140058700G>A	uc003lgv.2	-	5	491	c.409C>T	c.(409-411)CGG>TGG	p.R137W	HARS_uc003lgu.2_Missense_Mutation_p.R68W|HARS_uc011czm.1_Missense_Mutation_p.R97W|HARS_uc003lgw.2_Missense_Mutation_p.R137W|HARS_uc011czn.1_Missense_Mutation_p.R97W|HARS_uc010jfu.2_Missense_Mutation_p.R137W|HARS_uc011czo.1_Intron|HARS_uc011czp.1_Intron|HARS_uc011czq.1_Intron	NM_002109	NP_002100	P12081	SYHC_HUMAN	histidyl-tRNA synthetase	137					histidyl-tRNA aminoacylation	cytosol	ATP binding|histidine-tRNA ligase activity			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		L-Histidine(DB00117)	GCCAAATACCGAGCAAAAGGA	0.478													36	63					0	0	1	0	0		A	140058700	A	A	140058700	3	1	211	1	0	0	0	0	1	0	0	0	6975	1057	37	1	1156	1	HARS	5	140058700	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	316990	140058700	40856560	539	102418											
PCDHA1	56147	broad.mit.edu	37	chr5	140166589	140166589	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcctcgacgttaatgataaCgccccactgtttgaccaggc	9	10	9	13	3	0	2	0	2	0	0	2	3	1	2	4	1	1	2	4	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140166589C>T	uc003lhb.2	+	1	714	c.714C>T	c.(712-714)AAC>AAT	p.N238N	PCDHA1_uc003lha.2_Silent_p.N238N|PCDHA1_uc003lgz.2_Silent_p.N238N	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	238	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TTAATGATAACGCCCCACTGT	0.488													20	63					0	0	1	0	0		T	140166589	T	T	140166589	2	4	211	1	0	0	0	0	0	0	0	1	11538	535	19	1		1	PCDHA1	5	140166589	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	107889	140166589	40748671	540	102419											
PCDHA4	56144	broad.mit.edu	37	chr5	140188218	140188218	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actgtgtctgcgtgggacgcGgacgcgcaggagaacgcgct	7	6	17	11	7	1	1	0	0	1	1	1	4	1	3	0	3	2	2	0	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140188218G>A	uc003lhi.2	+	1	1547	c.1446G>A	c.(1444-1446)GCG>GCA	p.A482A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.A482A|PCDHA4_uc011daa.1_Silent_p.A482A	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	482	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGGGACGCGGACGCGCAGG	0.657													31	77					0	0	1	0	0		A	140188218	A	A	140188218	2	1	211	1	0	0	0	0	0	0	0	1	11545	1103	39	1		1	PCDHA4	5	140188218	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	21629	140188218	40727042	541	102420											
PCDHA13	56136	broad.mit.edu	37	chr5	140263149	140263149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgcgcgggacgggggctcGccttcgctgtgggccacggc	3	5	18	15	7	0	0	0	0	0	0	2	1	0	1	3	5	0	2	3	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140263149G>A	uc003lif.2	+	1	1296	c.1296G>A	c.(1294-1296)TCG>TCA	p.S432S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.S432S|PCDHA13_uc003lid.2_Silent_p.S432S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	432	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGGGGGCTCGCCTTCGCTGT	0.657													49	147					0	0	1	0	0		A	140263149	A	A	140263149	2	1	211	1	0	0	0	0	0	0	0	1	11542	1074	38	1		1	PCDHA13	5	140263149	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	74931	140263149	40652111	542	102421											
PCDHA13	56136	broad.mit.edu	37	chr5	140263395	140263395	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtcggtgcacgcggagagCggcaaggtgtacgcgctgca	7	6	18	10	6	0	1	0	0	0	1	1	2	0	1	0	4	4	5	0	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140263395C>T	uc003lif.2	+	1	1542	c.1542C>T	c.(1540-1542)AGC>AGT	p.S514S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Silent_p.S514S|PCDHA13_uc003lid.2_Silent_p.S514S	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	514	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGCGGAGAGCGGCAAGGTGT	0.692													39	122					0	0	1	0	0		T	140263395	T	T	140263395	2	4	211	1	0	0	0	0	0	0	0	1	11542	767	27	1		1	PCDHA13	5	140263395	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	246	140263395	40651865	543	102422											
PCDHAC2	56134	broad.mit.edu	37	chr5	140346986	140346986	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgcttgagctggtgctgcGtaagggcctagaccgggagc	7	8	17	9	2	0	2	0	1	0	1	0	3	0	3	2	3	5	4	2	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140346986G>A	uc003lii.2	+	1	875	c.635G>A	c.(634-636)CGT>CAT	p.R212H	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lih.2_Intron|PCDHAC2_uc011dag.1_Missense_Mutation_p.R212H	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	212	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGGTGCTGCGTAAGGGCCTA	0.617													6	25					0	0	1	0	0		A	140346986	A	A	140346986	3	1	211	1	0	0	0	0	1	0	0	0	11552	1145	40	1	637	1	PCDHAC2	5	140346986	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	83591	140346986	40568274	544	102423											
PCDHB2	56133	broad.mit.edu	37	chr5	140475056	140475056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtccacccaggtccggcacgGccctggtacggattgaagtt	7	8	13	13	3	0	1	0	1	0	0	2	2	2	2	4	5	1	3	4	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140475056G>A	uc003lil.2	+	1	820	c.682G>A	c.(682-684)GCC>ACC	p.A228T	PCDHB2_uc003lim.1_5'UTR	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	228	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(3)|upper_aerodigestive_tract(2)|pancreas(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTCCGGCACGGCCCTGGTACG	0.587													15	36					0	0	1	0	0		A	140475056	A	A	140475056	3	1	211	1	0	0	0	0	1	0	0	0	11561	1203	42	2	684	2	PCDHB2	5	140475056	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	128070	140475056	40440204	545	102424											
PCDHB6	56130	broad.mit.edu	37	chr5	140531689	140531689	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtctgttcggcgtgtgggcGcacaatggcgaggtgcgcac	5	8	18	10	5	1	0	0	0	1	0	2	1	1	0	0	5	1	3	0	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140531689G>A	uc003lir.2	+	1	1851	c.1851G>A	c.(1849-1851)GCG>GCA	p.A617A	PCDHB6_uc011dah.1_Silent_p.A481A	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	617	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCGTGTGGGCGCACAATGGCG	0.672													22	58					0	0	1	0	0		A	140531689	A	A	140531689	2	1	211	1	0	0	0	0	0	0	0	1	11565	1074	38	1		1	PCDHB6	5	140531689	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	56633	140531689	40383571	546	102425											
PCDHB12	56124	broad.mit.edu	37	chr5	140589778	140589778	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacccccaggctaaaaacCgagcacaacataaccgtgct	14	4	9	14	2	0	0	0	0	0	0	0	2	0	1	4	2	5	3	4	2	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140589778C>T	uc003liz.2	+	1	1488	c.1299C>T	c.(1297-1299)ACC>ACT	p.T433T	PCDHB12_uc011dak.1_Silent_p.T96T	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	433	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCTAAAAACCGAGCACAACA	0.572													32	76					0	0	1	0	0		T	140589778	T	T	140589778	2	4	211	1	0	0	0	0	0	0	0	1	11556	639	23	1		1	PCDHB12	5	140589778	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	58089	140589778	40325482	547	102426											
PCDHB15	56121	broad.mit.edu	37	chr5	140626740	140626740	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggctttcgagttccgcgtgGgcgccacagaccgcggcttc	5	8	14	14	6	0	1	0	0	0	1	3	2	1	1	3	3	0	3	3	3	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140626740G>T	uc003lje.2	+	1	1594	c.1594G>T	c.(1594-1596)GGC>TGC	p.G532C		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	532	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GTTCCGCGTGGGCGCCACAGA	0.667													27	65					4.22769e-11	4.51304e-11	1	1	0		T	140626740	T	T	140626740	3	4	211	1	0	0	0	0	1	0	0	0	11559	1232	43	5	1596	5	PCDHB15	5	140626740	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	36962	140626740	40288520	548	102427											
PCDHGA4	56111	broad.mit.edu	37	chr5	140737119	140737119	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acgctcatcagccgggagagTtgtgagaaaagcgagcctct	11	7	13	10	3	3	2	2	1	1	2	3	5	3	2	2	1	3	2	2	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140737119T>C	uc003ljq.1	+	1	2352	c.2352T>C	c.(2350-2352)AGT>AGC	p.S784S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGB2_uc003ljs.1_5'Flank|PCDHGA4_uc003ljp.1_Silent_p.S784S|PCDHGB2_uc011dar.1_5'Flank	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	784	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCGGGAGAGTTGTGAGAAAA	0.488													5	99					0	0	1	0	0		C	140737119	C	C	140737119	2	2	211	1	0	0	0	0	0	0	0	1	11575	1722	60	3		3	PCDHGA4	5	140737119	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	110379	140737119	40178141	549	102428											
PCDHGA5	56110	broad.mit.edu	37	chr5	140744618	140744618	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcaaacgacaatgcgcccCtgttcaccccatccgagtac	11	6	7	17	4	1	0	1	0	0	0	2	2	2	0	5	0	3	3	5	0	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140744618C>A	uc003lju.1	+	1	721	c.721C>A	c.(721-723)CTG>ATG	p.L241M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.L241M	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	241	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAATGCGCCCCTGTTCACCCC	0.577													31	84					2.47316e-13	2.66922e-13	1	1	0		A	140744618	A	A	140744618	3	1	211	1	0	0	0	0	1	0	0	0	11576	680	24	5	723	5	PCDHGA5	5	140744618	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7499	140744618	40170642	550	102429											
PCDHGA6	56109	broad.mit.edu	37	chr5	140753786	140753786	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagaaaggctccttcgtaGgcaacatcgtcaaggatctg	11	9	12	9	2	2	1	1	0	1	1	5	3	3	2	1	4	1	3	1	4	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140753786G>T	uc003ljy.1	+	1	136	c.136G>T	c.(136-138)GGC>TGC	p.G46C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc011dau.1_Missense_Mutation_p.G46C	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	46	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCCTTCGTAGGCAACATCGT	0.622													8	33					0.00307968	0.00313062	1	1	0		T	140753786	T	T	140753786	3	4	211	1	0	0	0	0	1	0	0	0	11577	1000	35	5	138	5	PCDHGA6	5	140753786	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	9168	140753786	40161474	551	102430											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769313	140769313	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcagcctggggctgcgcaCgggcgaagtgcgcacagcgc	6	5	16	14	5	1	0	1	0	0	0	1	1	1	0	1	3	4	3	1	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140769313C>T	uc003lkc.1	+	1	1862	c.1862C>T	c.(1861-1863)ACG>ATG	p.T621M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.T621M	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	621	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGCTGCGCACGGGCGAAGTG	0.692													20	49					0	0	1	0	0		T	140769313	T	T	140769313	3	4	211	1	0	0	0	0	1	0	0	0	11584	536	19	1	1864	1	PCDHGB4	5	140769313	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	15527	140769313	40145947	552	102431											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769490	140769490	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgaccgccccgacccctCtgacctccaggctgagctgc	6	6	9	20	2	1	3	0	3	1	0	2	4	2	3	7	1	2	2	7	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140769490C>A	uc003lkc.1	+	1	2039	c.2039C>A	c.(2038-2040)TCT>TAT	p.S680Y	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Missense_Mutation_p.S680Y	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	680	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCGACCCCTCTGACCTCCAG	0.617													47	130					5.13769e-22	5.64123e-22	1	1	0		A	140769490	A	A	140769490	3	1	211	1	0	0	0	0	1	0	0	0	11584	913	32	5	2041	5	PCDHGB4	5	140769490	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	177	140769490	40145770	553	102432											
PCDHGB5	56101	broad.mit.edu	37	chr5	140779420	140779420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgctcttcgatatggtgccgCgcgctgcagagcccggctac	5	8	13	15	6	1	1	0	0	1	1	2	2	1	1	2	2	4	4	2	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140779420C>T	uc003lkf.1	+	1	1726	c.1726C>T	c.(1726-1728)CGC>TGC	p.R576C	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Missense_Mutation_p.R576C	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	576	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGGTGCCGCGCGCTGCAGA	0.672													21	31					0	0	1	0	0		T	140779420	T	T	140779420	3	4	211	1	0	0	0	0	1	0	0	0	11585	768	27	1	1728	1	PCDHGB5	5	140779420	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9930	140779420	40135840	554	102433											
PCDHGB6	56100	broad.mit.edu	37	chr5	140790006	140790006	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccccccaactacagtgaggGgactttgccttattcttata	9	13	7	12	0	1	1	0	1	1	0	2	2	2	2	4	2	3	0	4	2	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140790006G>T	uc003lkj.1	+	1	2237	c.2237G>T	c.(2236-2238)GGG>GTG	p.G746V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Missense_Mutation_p.G746V|PCDHGA10_uc011day.1_5'Flank|PCDHGA10_uc003lkl.1_5'Flank	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	746	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TACAGTGAGGGGACTTTGCCT	0.483													24	60					9.57634e-11	1.01923e-10	1	1	0		T	140790006	T	T	140790006	3	4	211	1	0	0	0	0	1	0	0	0	11586	1232	43	5	2239	5	PCDHGB6	5	140790006	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10586	140790006	40125254	555	102434											
PCDHGA12	26025	broad.mit.edu	37	chr5	140812120	140812120	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcggtggacagagactcCggccagaacgcctggctgtc	7	6	16	12	3	0	2	0	0	0	2	2	4	1	3	3	5	1	1	3	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:140812120C>T	uc003lkt.1	+	1	1963	c.1794C>T	c.(1792-1794)TCC>TCT	p.S598S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc011dba.1_Silent_p.S598S	NM_003735	NP_003726	O60330	PCDGC_HUMAN	protocadherin gamma subfamily A, 12 isoform 1	598	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|pancreas(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGAGACTCCGGCCAGAACG	0.711													35	98					0	0	1	0	0		T	140812120	T	T	140812120	2	4	211	1	0	0	0	0	0	0	0	1	11572	639	23	1		1	PCDHGA12	5	140812120	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	22114	140812120	40103140	556	102435											
PCDH1	5097	broad.mit.edu	37	chr5	141248291	141248291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgccatcctgcaccttgatgGtgaggtcataggagtcccag	8	9	12	12	1	1	2	1	2	0	0	3	3	3	3	4	3	1	1	4	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:141248291G>A	uc003llq.2	-	2	863	c.746C>T	c.(745-747)ACC>ATC	p.T249I	PCDH1_uc003llp.2_Missense_Mutation_p.T249I|PCDH1_uc011dbf.1_Missense_Mutation_p.T227I	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	249	Extracellular (Potential).|Cadherin 2.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CACCTTGATGGTGAGGTCATA	0.617													17	39					0	0	1	0	0		A	141248291	A	A	141248291	3	1	211	1	0	0	0	0	1	0	0	0	11525	1261	44	4	3067	4	PCDH1	5	141248291	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	436171	141248291	39666969	557	102436											
RBM27	54439	broad.mit.edu	37	chr5	145664219	145664219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaaaatttaaagaccgtcGgctacagatatcatggcaca	15	8	8	10	2	1	2	1	0	0	2	2	2	1	2	2	2	1	2	2	2	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:145664219G>A	uc003lnz.3	+	20	3189	c.3023G>A	c.(3022-3024)CGG>CAG	p.R1008Q		NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	1008					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAAGACCGTCGGCTACAGATA	0.373													29	84					0	0	1	0	0		A	145664219	A	A	145664219	3	1	211	1	0	0	0	0	1	0	0	0	13152	1116	39	1	3101	1	RBM27	5	145664219	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4415928	145664219	35251041	558	102437											
POU4F3	5459	broad.mit.edu	37	chr5	145719823	145719823	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcgaacggaagcgcaaacGcacgtccatcgcggcgccgg	10	2	14	15	9	0	0	0	0	0	0	2	2	1	1	2	3	4	2	2	3	3	0	rs113824781		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:145719823G>A	uc003loa.2	+	2	922	c.833G>A	c.(832-834)CGC>CAC	p.R278H		NM_002700	NP_002691	Q15319	PO4F3_HUMAN	POU class 4 homeobox 3	278	Homeobox.				sensory perception of sound|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAGCGCAAACGCACGTCCATC	0.612													12	55					0	0	1	0	0		A	145719823	A	A	145719823	3	1	211	1	0	0	0	0	1	0	0	0	12299	1087	38	1	839	1	POU4F3	5	145719823	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	55604	145719823	35195437	559	102438											
DPYSL3	1809	broad.mit.edu	37	chr5	146778699	146778699	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatctggatcccagatgacGaggtcgctgtcagaacccac	10	7	11	13	2	2	3	1	1	1	2	4	5	3	4	2	2	1	2	2	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:146778699G>A	uc003lon.1	-	11	1337	c.1227C>T	c.(1225-1227)CTC>CTT	p.L409L	DPYSL3_uc003loo.2_Silent_p.L523L	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	409					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCAGATGACGAGGTCGCTGT	0.527													37	106					0	0	1	0	0		A	146778699	A	A	146778699	2	1	211	1	0	0	0	0	0	0	0	1	4754	1045	37	1		1	DPYSL3	5	146778699	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1058876	146778699	34136561	560	102439											
DPYSL3	1809	broad.mit.edu	37	chr5	146781173	146781173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtggggatgtcacaaatgCagccgccttggcccagttct	7	9	14	11	1	2	0	1	0	1	0	2	1	2	1	3	4	2	2	3	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:146781173C>T	uc003lon.1	-	9	1008	c.898G>A	c.(898-900)GCA>ACA	p.A300T	DPYSL3_uc003loo.2_Missense_Mutation_p.A414T	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3	300					axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTCACAAATGCAGCCGCCTTG	0.572													7	20					0	0	1	0	0		T	146781173	T	T	146781173	3	4	211	1	0	0	0	0	1	0	0	0	4754	710	25	2	838	2	DPYSL3	5	146781173	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2474	146781173	34134087	561	102440											
PPARGC1B	133522	broad.mit.edu	37	chr5	149212959	149212959	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaagaagaggaggaggaagaGgaagaagaaaaagaggagga	22	0	19	0	0	0	6	0	0	0	6	0	13	0	12	0	6	0	0	0	6	7	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:149212959G>A	uc003lrc.2	+	5	1365	c.1323G>A	c.(1321-1323)GAG>GAA	p.E441E	PPARGC1B_uc003lrb.1_Silent_p.E441E|PPARGC1B_uc003lrd.2_Silent_p.E402E|PPARGC1B_uc003lrf.2_Silent_p.E420E|PPARGC1B_uc003lre.1_Silent_p.E420E	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	441	Glu-rich.				estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			aggaggaagaggaagaagaaa	0.463													7	17					0	0	1	0	0		A	149212959	A	A	149212959	2	1	211	1	0	0	0	0	0	0	0	1	12320	991	35	4		4	PPARGC1B	5	149212959	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2431786	149212959	31702301	562	102441											
SLC6A7	6534	broad.mit.edu	37	chr5	149584484	149584484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgttcctgtccccagccacGctcttggtaactggggaggg	5	10	13	13	1	1	0	0	0	1	0	3	1	3	1	4	4	2	3	4	4	1	3	rs144487516		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:149584484G>A	uc003lrr.2	+	12	1898	c.1527G>A	c.(1525-1527)ACG>ACA	p.T509T		NM_014228	NP_055043	Q99884	SC6A7_HUMAN	solute carrier family 6, member 7	509	Helical; Name=11; (Potential).					integral to plasma membrane|membrane fraction	neurotransmitter:sodium symporter activity|proline:sodium symporter activity				0		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Proline(DB00172)	CCCCAGCCACGCTCTTGGTAA	0.627													20	49					0	0	1	0	0		A	149584484	A	A	149584484	2	1	211	1	0	0	0	0	0	0	0	1	14714	1074	38	1		1	SLC6A7	5	149584484	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	371525	149584484	31330776	563	102442											
NDST1	3340	broad.mit.edu	37	chr5	149914560	149914560	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccgtgttggccgagcagatgGccttgaacaagaagttcgct	9	9	13	10	3	0	3	0	1	0	2	1	4	0	3	3	2	2	4	3	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:149914560G>A	uc003lsk.3	+	5	1730	c.1228G>A	c.(1228-1230)GCC>ACC	p.A410T	NDST1_uc011dcj.1_Missense_Mutation_p.A410T|NDST1_uc003lsl.2_Missense_Mutation_p.A410T	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	410	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CGAGCAGATGGCCTTGAACAA	0.592													8	20					0	0	1	0	0		A	149914560	A	A	149914560	3	1	211	1	0	0	0	0	1	0	0	0	10274	1203	42	2	1242	2	NDST1	5	149914560	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	330076	149914560	31000700	564	102443											
G3BP1	10146	broad.mit.edu	37	chr5	151170537	151170537	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcatgccacgctaaatgatGgtgtggtagtccaggtgatg	9	11	13	8	1	1	2	1	2	0	0	2	2	2	2	2	3	1	2	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:151170537G>T	uc003lun.2	+	4	436	c.265G>T	c.(265-267)GGT>TGT	p.G89C	G3BP1_uc010jhy.1_Missense_Mutation_p.G89C|G3BP1_uc003lum.2_Missense_Mutation_p.G89C|G3BP1_uc011dcu.1_5'UTR|G3BP1_uc010jhz.2_5'UTR	NM_005754	NP_005745	Q13283	G3BP1_HUMAN	Ras-GTPase-activating protein SH3-domain-binding	89	NTF2.				Ras protein signal transduction|transport	cytosol|nucleus|plasma membrane	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|endonuclease activity|protein binding|RNA binding			skin(3)|ovary(1)	4		all_hematologic(541;0.0338)|Medulloblastoma(196;0.091)	Kidney(363;0.000171)|KIRC - Kidney renal clear cell carcinoma(527;0.000785)			GCTAAATGATGGTGTGGTAGT	0.443													35	89					6.99958e-10	7.39857e-10	1	1	0		T	151170537	T	T	151170537	3	4	211	1	0	0	0	0	1	0	0	0	6155	1348	47	5	275	5	G3BP1	5	151170537	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1255977	151170537	29744723	565	102444											
CYFIP2	26999	broad.mit.edu	37	chr5	156810312	156810312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccggatgaaacgtctggaagCcaagtatgccccgctccacc	10	6	10	15	3	1	1	0	1	1	0	2	3	2	3	6	2	3	2	6	2	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:156810312C>T	uc003lwq.2	+	30	3290	c.3152C>T	c.(3151-3153)GCC>GTC	p.A1051V	CYFIP2_uc011ddn.1_Missense_Mutation_p.A1025V|CYFIP2_uc011ddo.1_Missense_Mutation_p.A855V|CYFIP2_uc003lwr.2_Missense_Mutation_p.A1051V|CYFIP2_uc003lws.2_Missense_Mutation_p.A1051V|CYFIP2_uc003lwt.2_Missense_Mutation_p.A954V|CYFIP2_uc011ddp.1_Missense_Mutation_p.A785V|CYFIP2_uc003lwv.2_Missense_Mutation_p.A6V	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	1076					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CGTCTGGAAGCCAAGTATGCC	0.532													8	27					0	0	1	0	0		T	156810312	T	T	156810312	3	4	211	1	0	0	0	0	1	0	0	0	4141	739	26	2	3258	2	CYFIP2	5	156810312	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5639775	156810312	24104948	566	102445											
SOX30	11063	broad.mit.edu	37	chr5	157065461	157065461	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agttgcaaatctggcatgggCagtacttgcactacttgaaa	12	11	10	8	0	1	1	0	1	1	0	1	1	1	1	0	2	4	6	0	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:157065461C>T	uc003lxb.1	-	4	1999	c.1657G>A	c.(1657-1659)GCC>ACC	p.A553T	SOX30_uc003lxc.1_Intron|SOX30_uc011dds.1_Missense_Mutation_p.A248T	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	553					regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|response to corticosteroid stimulus|transcription, DNA-dependent	nucleus|nucleus	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity			ovary(1)|central_nervous_system(1)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTGGCATGGGCAGTACTTGCA	0.522													21	76					0	0	1	0	0		T	157065461	T	T	157065461	3	4	211	1	0	0	0	0	1	0	0	0	14977	710	25	2	612	2	SOX30	5	157065461	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	255149	157065461	23849799	567	102446											
CCNJL	79616	broad.mit.edu	37	chr5	159680492	159680492	+	Missense_Mutation	SNP	T	C	C	0	1	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	agctgcaatggccatatgcaTgctaagggatgcagggacgg	11	7	15	8	1	0	0	0	0	0	0	0	2	0	2	1	4	5	5	1	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:159680492T>C	uc003lyb.1	-	7	1453	c.1201A>G	c.(1201-1203)ATG>GTG	p.M401V	CCNJL_uc011dee.1_Missense_Mutation_p.M353V|CCNJL_uc003lyc.1_RNA	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	401						nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCCATATGCATGCTAAGGGAT	0.612													24	63					0	0	1	0	0		C	159680492	C	C	159680492	3	2	211	1	0	0	0	0	1	0	0	0	2932	1464	51	3	110	3	CCNJL	5	159680492	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2615031	159680492	21234768	568	102447											
PTTG1	9232	broad.mit.edu	37	chr5	159855661	159855661	+	Silent	SNP	A	G	G	1	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	accctggatgttgaattgccAcctgtttgctgtgacataga	9	13	10	9	0	0	3	0	2	0	1	0	4	0	4	3	1	2	3	3	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:159855661A>G	uc003lyj.2	+	6	627	c.582A>G	c.(580-582)CCA>CCG	p.P194P	PTTG1_uc003lyk.2_Silent_p.P194P	NM_004219	NP_004210	O95997	PTTG1_HUMAN	pituitary tumor-transforming protein 1	194					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|chromosome organization|chromosome segregation|DNA repair|mitosis|spermatogenesis|transcription from RNA polymerase II promoter	cytosol|nucleus	cysteine-type endopeptidase inhibitor activity|sequence-specific DNA binding transcription factor activity|SH3 domain binding				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.00219)|Epithelial(171;0.00348)|all cancers(165;0.0104)		TTGAATTGCCACCTGTTTGCT	0.348													55	118					0	0	1	0	0		G	159855661	G	G	159855661	2	3	211	1	0	0	0	0	0	0	0	1	12844	146	6	3		3	PTTG1	5	159855661	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	175169	159855661	21059599	569	102448											
SLIT3	6586	broad.mit.edu	37	chr5	168244359	168244359	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacgttgaagcccctcaaatGcacaggagccatgcagagtg	12	6	11	12	1	1	2	1	1	0	1	1	3	1	3	3	1	4	3	3	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:168244359G>A	uc003mab.2	-	8	1159	c.739C>T	c.(739-741)CAT>TAT	p.H247Y	SLIT3_uc010jjg.2_Missense_Mutation_p.H247Y|SLIT3_uc010jji.2_Missense_Mutation_p.H247Y|SLIT3_uc003mac.1_Missense_Mutation_p.H44Y	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	247	LRRCT 1.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCCCTCAAATGCACAGGAGCC	0.597													7	51					0	0	1	0	0		A	168244359	A	A	168244359	3	1	211	1	0	0	0	0	1	0	0	0	14766	1319	46	2	3948	2	SLIT3	5	168244359	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	8388698	168244359	12670901	570	102449											
STK10	6793	broad.mit.edu	37	chr5	171517367	171517367	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttttgtacagtttcgggtcCtggccagggaaaaccattag	9	13	11	8	1	0	0	0	0	0	0	2	1	1	1	3	3	2	2	3	3	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:171517367C>A	uc003mbo.1	-	10	1855	c.1555_splice	c.e10-1	p.D519_splice		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10								ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GTTTCGGGTCCTGGCCAGGGA	0.537													48	96					4.25531e-23	4.68193e-23	1	1	0		A	171517367	A	A	171517367	5	1	211	1	0	0	0	0	0	0	1	0	15311	695	24	5	1392	5	STK10	5	171517367	Splice_Site	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3273008	171517367	9397893	571	102450											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171766472	171766472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggccccggagctgctccGtcctctgccgctcccgctcc	1	8	12	20	4	1	0	0	0	1	0	5	1	5	1	7	3	3	4	7	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:171766472G>A	uc003mbr.2	-	13	1808	c.1637C>T	c.(1636-1638)ACG>ATG	p.T546M		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	546					adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GAGCTGCTCCGTCCTCTGCCG	0.667													21	66					0	0	1	0	0		A	171766472	A	A	171766472	3	1	211	1	0	0	0	0	1	0	0	0	14282	1145	40	1	1102	1	SH3PXD2B	5	171766472	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	249105	171766472	9148788	572	102451											
CDHR2	54825	broad.mit.edu	37	chr5	176022601	176022601	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcgtggtcctgttaggacgGcaggcaggcgcaagtggaca	9	6	17	9	3	0	0	0	0	0	0	1	2	1	2	1	6	1	4	1	6	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:176022601G>A	uc003mem.1	+	32	3927	c.3861G>A	c.(3859-3861)CGG>CGA	p.R1287R	CDHR2_uc003men.1_Silent_p.R1287R	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	1287	Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						TGTTAGGACGGCAGGCAGGCG	0.652													49	123					0	0	1	0	0		A	176022601	A	A	176022601	2	1	211	1	0	0	0	0	0	0	0	1	3122	1190	42	2		2	CDHR2	5	176022601	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4256129	176022601	4892659	573	102452											
PFN3	345456	broad.mit.edu	37	chr5	176827262	176827262	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccattagcaccaggagcgCgcgcggcgcacggcccacgc	7	2	14	18	7	0	0	0	0	0	0	0	1	0	1	3	3	2	2	3	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:176827262C>T	uc003mgl.2	-	1	376	c.316G>A	c.(316-318)GCG>ACG	p.A106T		NM_001029886	NP_001025057	P60673	PROF3_HUMAN	profilin 3	106					actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACCAGGAGCGCGCGCGGCGCA	0.716													7	21					0	0	1	0	0		T	176827262	T	T	176827262	3	4	211	1	0	0	0	0	1	0	0	0	11788	768	27	1	101	1	PFN3	5	176827262	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	804661	176827262	4087998	574	102453											
DOK3	79930	broad.mit.edu	37	chr5	176935492	176935492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagctctccagccgtgccaCgcctgatgggcctcctgcat	5	8	10	18	2	1	1	0	1	1	0	3	1	2	1	7	1	4	2	7	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:176935492C>T	uc003mhk.2	-	3	291	c.286G>A	c.(286-288)GTG>ATG	p.V96M	DOK3_uc003mhh.3_Translation_Start_Site|DOK3_uc003mhi.3_Missense_Mutation_p.V40M|DOK3_uc003mhj.3_Intron|DOK3_uc003mhl.2_Missense_Mutation_p.V40M	NM_024872	NP_079148	Q7L591	DOK3_HUMAN	docking protein 3 isoform 1	96	PH.					cytoplasm|plasma membrane	insulin receptor binding				0	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.191)			AGCCGTGCCACGCCTGATGGG	0.697													6	9					0	0	1	0	0		T	176935492	T	T	176935492	3	4	211	1	0	0	0	0	1	0	0	0	4704	536	19	1	1572	1	DOK3	5	176935492	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	108230	176935492	3979768	575	102454											
FAM193B	54540	broad.mit.edu	37	chr5	176951430	176951430	+	Silent	SNP	G	A	A	0	0	1	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	tctccagcctcagcacagctGcctactttgggaagctctag	8	10	9	14	0	3	0	1	0	2	0	4	1	3	1	3	1	6	3	3	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:176951430G>A	uc003mhs.3	-	8	3542	c.1953C>T	c.(1951-1953)GGC>GGT	p.G651G	FAM193B_uc003mhr.2_Silent_p.G188G|FAM193B_uc003mht.2_Silent_p.G310G|FAM193B_uc003mhu.2_Silent_p.G363G|FAM193B_uc003mhv.2_Silent_p.G310G|FAM193B_uc003mhw.2_RNA	NM_019057	NP_061930	E9PET5	E9PET5_HUMAN	hypothetical protein LOC54540	684											0						CAGCACAGCTGCCTACTTTGG	0.677													3	10					0	0	1	0	0		A	176951430	A	A	176951430	2	1	211	1	0	0	0	0	0	0	0	1	5536	1306	46	2		2	FAM193B	5	176951430	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	15938	176951430	3963830	576	102455											
N4BP3	23138	broad.mit.edu	37	chr5	177546827	177546827	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcggaacgagcctgcCgactatgccaccctctacta	8	7	8	18	3	1	0	0	0	1	0	2	3	1	1	6	1	5	0	6	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:177546827C>T	uc003mik.1	+	2	490	c.243C>T	c.(241-243)GCC>GCT	p.A81A	N4BP3_uc003mil.1_5'Flank	NM_015111	NP_055926	O15049	N4BP3_HUMAN	Nedd4 binding protein 3	81						cytoplasmic vesicle membrane					0	all_cancers(89;0.00294)|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)			ACGAGCCTGCCGACTATGCCA	0.612													33	111					0	0	1	0	0		T	177546827	T	T	177546827	2	4	211	1	0	0	0	0	0	0	0	1	10131	639	23	1		1	N4BP3	5	177546827	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	595397	177546827	3368433	577	102456											
COL23A1	91522	broad.mit.edu	37	chr5	177697345	177697345	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgtcatcacttacgggcttgCcatccaaacccaggggtccc	8	9	9	15	1	2	0	2	0	0	0	4	0	4	0	4	3	3	1	4	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:177697345C>T	uc003mje.2	-	6	819	c.461G>A	c.(460-462)GGC>GAC	p.G154D	COL23A1_uc010jkt.2_Missense_Mutation_p.A2T	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	154	Extracellular (Potential).|Collagen-like 1.|Gly-rich.					collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		TACGGGCTTGCCATCCAAACC	0.587													5	15					0	0	1	0	0		T	177697345	T	T	177697345	3	4	211	1	0	0	0	0	1	0	0	0	3685	739	26	2	1257	2	COL23A1	5	177697345	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	150518	177697345	3217915	578	102457											
ZFP2	80108	broad.mit.edu	37	chr5	178358352	178358352	+	Frame_Shift_Del	DEL	A	-	-																															ctggcattctactctaggggAaacctgggaacctaataatt																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:178358352delA	uc003mjn.1	+	5	547	c.38delA	c.(37-39)GAAfs	p.E13fs	ZFP2_uc010jky.2_Frame_Shift_Del_p.E13fs|ZFP2_uc010jkx.1_Frame_Shift_Del_p.E13fs	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	13					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		ACTCTAGGGGAAACCTGGGAA	0.453													37	79	---	---	---	---						.	-	178358352	-	-	178358352	7	5	211	1	0	1	0	1	0	0	0	0	17666	246	9	0	40	0	ZFP2	5	178358352	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	661007	178358352	2556908	579	102458											
ZFP2	80108	broad.mit.edu	37	chr5	178358745	178358745	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acacttcattgaacgatcctCccttactgtacatcaaagaa	14	11	4	12	1	2	2	2	1	0	1	4	3	4	2	2	0	3	1	2	0	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:178358745C>A	uc003mjn.1	+	5	940	c.431C>A	c.(430-432)TCC>TAC	p.S144Y	ZFP2_uc010jky.2_Missense_Mutation_p.S144Y|ZFP2_uc010jkx.1_Missense_Mutation_p.S144Y	NM_030613	NP_085116	Q6ZN57	ZFP2_HUMAN	zinc finger protein 2 homolog	144	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3	all_cancers(89;0.000639)|all_epithelial(37;0.000109)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.00655)|GBM - Glioblastoma multiforme(465;0.0302)|OV - Ovarian serous cystadenocarcinoma(192;0.0615)|Epithelial(171;0.111)		GAACGATCCTCCCTTACTGTA	0.403													17	43					6.94344e-10	7.34284e-10	1	1	0		A	178358745	A	A	178358745	3	1	211	1	0	0	0	0	1	0	0	0	17666	855	30	5	433	5	ZFP2	5	178358745	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	393	178358745	2556515	580	102459											
ZNF454	285676	broad.mit.edu	37	chr5	178392092	178392092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcctttcaccagagtacGcaccttatccatcaccaaag	14	8	5	14	1	2	1	2	0	0	1	3	1	3	1	5	0	2	2	5	0	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:178392092G>A	uc003mjo.1	+	5	958	c.687G>A	c.(685-687)ACG>ACA	p.T229T	ZNF454_uc010jkz.1_Silent_p.T229T	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	229	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		ACCAGAGTACGCACCTTATCC	0.388													18	77					0	0	1	0	0		A	178392092	A	A	178392092	2	1	211	1	0	0	0	0	0	0	0	1	17948	1074	38	1		1	ZNF454	5	178392092	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	33347	178392092	2523168	581	102460											
SQSTM1	8878	broad.mit.edu	37	chr5	179250884	179250884	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagagtgccggcgggaccacCgcccaccgtgtgctcaggag	8	4	15	14	4	1	1	1	0	0	1	1	3	1	3	5	3	2	1	5	3	1	0	rs139372286	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:179250884C>T	uc003mkw.3	+	3	423	c.328C>T	c.(328-330)CGC>TGC	p.R110C	SQSTM1_uc011dgr.1_Missense_Mutation_p.R26C|SQSTM1_uc011dgs.1_Missense_Mutation_p.R26C|SQSTM1_uc003mkv.3_Missense_Mutation_p.R110C|SQSTM1_uc003mkx.2_Missense_Mutation_p.R26C	NM_003900	NP_003891	Q13501	SQSTM_HUMAN	sequestosome 1 isoform 1	110					anti-apoptosis|apoptosis|cell differentiation|endosome transport|induction of apoptosis by extracellular signals|intracellular signal transduction|macroautophagy|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein localization|regulation of I-kappaB kinase/NF-kappaB cascade|ubiquitin-dependent protein catabolic process	cytosol|late endosome|nucleoplasm	protein kinase C binding|receptor tyrosine kinase binding|SH2 domain binding|ubiquitin binding|zinc ion binding		SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(89;0.000205)|all_epithelial(37;7.15e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0395)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCGGGACCACCGCCCACCGTG	0.617									Paget_Disease_of_Bone				24	77					0	0	1	0	0		T	179250884	T	T	179250884	3	4	211	1	0	0	0	0	1	0	0	0	15155	652	23	1	338	1	SQSTM1	5	179250884	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	858792	179250884	1664376	582	102461											
MAPK9	5601	broad.mit.edu	37	chr5	179668088	179668088	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgggtgacgcagagcttcGtctacagagatccgcttgtc	8	11	12	10	3	1	3	0	1	1	2	4	4	2	3	1	1	2	3	1	1	2	4	rs116346965	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:179668088G>A	uc003mls.3	-	9	1210	c.939C>T	c.(937-939)GAC>GAT	p.D313D	MAPK9_uc003mlt.3_Silent_p.D313D|MAPK9_uc010jlc.2_Silent_p.D313D|MAPK9_uc003mlv.3_Silent_p.D313D	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	313	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCAGAGCTTCGTCTACAGAGA	0.428													44	132					0	0	1	0	0		A	179668088	A	A	179668088	2	1	211	1	0	0	0	0	0	0	0	1	9305	1136	40	1		1	MAPK9	5	179668088	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	417204	179668088	1247172	583	102462											
CNOT6	57472	broad.mit.edu	37	chr5	179992874	179992874	+	Missense_Mutation	SNP	A	G	G	1	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	tgataaatatgcgacccggcAgttatacggctactgtccat	11	11	9	10	3	0	1	0	1	0	0	1	2	1	1	2	2	3	3	2	2	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:179992874A>G	uc003mlx.2	+	7	963	c.614A>G	c.(613-615)CAG>CGG	p.Q205R	CNOT6_uc010jld.2_Missense_Mutation_p.Q205R|CNOT6_uc010jle.2_Missense_Mutation_p.Q200R	NM_015455	NP_056270	Q9ULM6	CNOT6_HUMAN	CCR4-NOT transcription complex, subunit 6	205					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	exonuclease activity|metal ion binding|protein binding|RNA binding				0	all_cancers(89;3.3e-05)|all_epithelial(37;7.38e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00543)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.023)		GCGACCCGGCAGTTATACGGC	0.398													14	66					0	0	1	0	0		G	179992874	G	G	179992874	3	3	211	1	0	0	0	0	1	0	0	0	3625	188	7	3	636	3	CNOT6	5	179992874	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	324786	179992874	922386	584	102463											
BTNL9	153579	broad.mit.edu	37	chr5	180486694	180486694	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttccacgacaccttctcgggCgcgctctgtgcgtacttcag	5	11	10	15	5	3	0	1	0	2	0	5	1	4	0	2	1	2	2	2	1	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr5:180486694C>T	uc003mmt.2	+	11	1671	c.1440C>T	c.(1438-1440)GGC>GGT	p.G480G		NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	480	Cytoplasmic (Potential).|B30.2/SPRY.					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCTTCTCGGGCGCGCTCTGTG	0.672													13	31					0	0	1	0	0		T	180486694	T	T	180486694	2	4	211	1	0	0	0	0	0	0	0	1	1571	755	27	1		1	BTNL9	5	180486694	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	493820	180486694	428566	585	102464											
GMDS	2762	broad.mit.edu	37	chr6	1726673	1726673	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	ttcagttggccggtagtactTgagatccacagtcacgtgaa	10	11	11	9	2	2	2	2	2	0	1	3	3	3	2	2	2	1	3	2	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:1726673T>A	uc003mtq.2	-	9	1154	c.964A>T	c.(964-966)AAG>TAG	p.K322*		NM_001500	NP_001491	O60547	GMDS_HUMAN	GDP-mannose 4,6-dehydratase	322					'de novo' GDP-L-fucose biosynthetic process|GDP-mannose metabolic process|leukocyte cell-cell adhesion		coenzyme binding|GDP-mannose 4,6-dehydratase activity			central_nervous_system(1)	1	Ovarian(93;0.0733)	all_cancers(2;7.64e-19)|all_epithelial(2;3.05e-16)|Colorectal(2;0.00414)|all_hematologic(90;0.00997)|all_lung(73;0.0141)|Lung NSC(90;0.0802)		Epithelial(2;7.61e-06)|all cancers(2;0.000111)|STAD - Stomach adenocarcinoma(2;0.000231)|Colorectal(2;0.00445)|COAD - Colon adenocarcinoma(2;0.0125)|OV - Ovarian serous cystadenocarcinoma(45;0.0563)		CGGTAGTACTTGAGATCCACA	0.512													34	73					0	0	1	0	0		A	1726673	A	A	1726673	4	1	211	1	0	0	0	0	0	1	0	0	6501	1821	63	5	166	5	GMDS	6	1726673	Nonsense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08		1726673	169388394	586	102465											
DSP	1832	broad.mit.edu	37	chr6	7585816	7585816	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagcagctatgccaaaatccTgacctgccccaaaaccaaat	15	6	5	15	0	0	1	0	1	0	0	1	1	1	1	6	0	5	2	6	0	6	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:7585816T>C	uc003mxp.1	+	24	8600	c.8321T>C	c.(8320-8322)CTG>CCG	p.L2774P	DSP_uc003mxq.1_Missense_Mutation_p.L2175P	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	2774	Plectin 17.|Globular 2.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		GCCAAAATCCTGACCTGCCCC	0.527													41	124					0	0	1	0	0		C	7585816	C	C	7585816	3	2	211	1	0	0	0	0	1	0	0	0	4787	1580	55	3	8415	3	DSP	6	7585816	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	5859143	7585816	163529251	587	102466											
MAK	4117	broad.mit.edu	37	chr6	10796328	10796328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacgctcaggttctgtggcGgctgaatgggctgcagtggc	5	9	18	9	2	2	1	1	1	1	0	2	2	2	2	0	6	1	5	0	6	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:10796328G>A	uc003mzl.2	-	8	1275	c.1046C>T	c.(1045-1047)CCG>CTG	p.P349L	SYCP2L_uc011dim.1_Intron|TMEM14B_uc010jos.1_Intron|MAK_uc010jot.2_RNA|MAK_uc010jou.2_RNA|MAK_uc003mzm.2_Missense_Mutation_p.P349L|MAK_uc010jov.1_RNA	NM_005906	NP_005897	P20794	MAK_HUMAN	male germ cell-associated kinase	349	Glu/Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding|cyclin-dependent protein kinase activity			breast(2)|skin(1)	3	Breast(50;0.107)|Ovarian(93;0.107)	all_hematologic(90;0.117)				GTTCTGTGGCGGCTGAATGGG	0.527													39	97					0	0	1	0	0		A	10796328	A	A	10796328	3	1	211	1	0	0	0	0	1	0	0	0	9215	1116	39	1	849	1	MAK	6	10796328	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3210512	10796328	160318739	588	102467											
PHACTR1	221692	broad.mit.edu	37	chr6	13230374	13230374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaacatccttcccaggcagaCggatgaggagcggctggagc	10	5	15	11	2	0	2	0	1	0	1	2	6	2	5	2	5	3	2	2	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:13230374C>T	uc010jpc.2	+	10	1672	c.1340C>T	c.(1339-1341)ACG>ATG	p.T447M	PHACTR1_uc011dir.1_Missense_Mutation_p.T516M|PHACTR1_uc003nag.1_Missense_Mutation_p.T447M|PHACTR1_uc003nah.1_Missense_Mutation_p.T447M	NM_030948	NP_112210	Q9C0D0	PHAR1_HUMAN	phosphatase and actin regulator 1	447	RPEL 2.					cell junction|cytoplasm|synapse	actin binding|protein phosphatase inhibitor activity				0	Breast(50;0.0427)|Ovarian(93;0.12)	all_hematologic(90;0.122)|Lung SC(78;0.195)	Epithelial(50;0.146)|BRCA - Breast invasive adenocarcinoma(129;0.239)			CCCAGGCAGACGGATGAGGAG	0.587													10	11					0	0	1	0	0		T	13230374	T	T	13230374	3	4	211	1	0	0	0	0	1	0	0	0	11828	536	19	1	1370	1	PHACTR1	6	13230374	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2434046	13230374	157884693	589	102468											
SIRT5	23408	broad.mit.edu	37	chr6	13601128	13601128	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccaggtggctgccaggggCgtgccagtggctgaatttaa	7	8	15	11	1	0	1	0	1	0	0	0	1	0	1	4	5	2	2	4	5	2	2	rs35937472	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:13601128C>T	uc003nay.2	+	9	1100	c.804C>T	c.(802-804)GGC>GGT	p.G268G	SIRT5_uc003naw.2_Silent_p.G268G|SIRT5_uc003nax.2_Silent_p.G160G|SIRT5_uc011dit.1_Silent_p.G250G	NM_012241	NP_036373	Q9NXA8	SIRT5_HUMAN	sirtuin 5 isoform 1	268	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)	CTGCCAGGGGCGTGCCAGTGG	0.572													12	20					0	0	1	0	0		T	13601128	T	T	13601128	2	4	211	1	0	0	0	0	0	0	0	1	14366	755	27	1		1	SIRT5	6	13601128	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	370754	13601128	157513939	590	102469											
JARID2	3720	broad.mit.edu	37	chr6	15496805	15496805	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actggaagaggcacaccaggCggagaagccgcagtcgcccc	11	2	14	14	3	0	2	0	0	0	2	1	4	0	3	4	4	1	2	4	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:15496805C>T	uc003nbj.2	+	7	1593	c.1349C>T	c.(1348-1350)GCG>GTG	p.A450V	JARID2_uc011diu.1_Missense_Mutation_p.A314V|JARID2_uc011div.1_Missense_Mutation_p.A278V|JARID2_uc011diw.1_Missense_Mutation_p.A412V	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	450					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				GCACACCAGGCGGAGAAGCCG	0.687													9	20					0	0	1	0	0		T	15496805	T	T	15496805	3	4	211	1	0	0	0	0	1	0	0	0	7961	768	27	1	1375	1	JARID2	6	15496805	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1895677	15496805	155618262	591	102470											
KIF13A	63971	broad.mit.edu	37	chr6	17796972	17796972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgccatttccagcacacCggtggccccatacttcaatg	9	9	8	15	1	1	0	1	0	0	0	2	0	2	0	5	2	4	2	5	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:17796972C>T	uc003ncg.3	-	23	2975	c.2870G>A	c.(2869-2871)CGG>CAG	p.R957Q	KIF13A_uc003ncf.2_Missense_Mutation_p.R957Q|KIF13A_uc003nch.3_Missense_Mutation_p.R957Q|KIF13A_uc003nci.3_Missense_Mutation_p.R957Q	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	957					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			TCCAGCACACCGGTGGCCCCA	0.483													34	53					0	0	1	0	0		T	17796972	T	T	17796972	3	4	211	1	0	0	0	0	1	0	0	0	8290	652	23	1	2640	1	KIF13A	6	17796972	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2300167	17796972	153318095	592	102471											
E2F3	1871	broad.mit.edu	37	chr6	20481645	20481645	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaagaagtctaaaaacaaCgtccaatggatgtgagtagg	18	7	11	5	1	1	3	0	1	1	2	2	4	2	4	1	2	2	1	1	2	9	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:20481645C>T	uc003nda.2	+	3	1041	c.714C>T	c.(712-714)AAC>AAT	p.N238N	E2F3_uc003ncz.2_Silent_p.N232N	NM_001949	NP_001940	O00716	E2F3_HUMAN	E2F transcription factor 3	238	Potential.|DEF box.				G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|transcription initiation from RNA polymerase II promoter	transcription factor complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1	all_cancers(95;0.154)|all_epithelial(95;0.0585)|Breast(50;0.146)|Ovarian(93;0.148)		OV - Ovarian serous cystadenocarcinoma(7;0.0068)|all cancers(50;0.0148)|Epithelial(50;0.0562)			CTAAAAACAACGTCCAATGGA	0.478													37	74					0	0	1	0	0		T	20481645	T	T	20481645	2	4	211	1	0	0	0	0	0	0	0	1	4874	535	19	1		1	E2F3	6	20481645	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2684673	20481645	150633422	593	102472											
ALDH5A1	7915	broad.mit.edu	37	chr6	24503611	24503611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acaccccggcaaaggacaggCgggccctggtcctcaagcag	10	3	13	15	2	1	0	1	0	0	0	2	1	2	1	4	5	1	2	4	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:24503611C>T	uc003neg.2	+	3	587	c.559C>T	c.(559-561)CGG>TGG	p.R187W	ALDH5A1_uc003nef.2_Missense_Mutation_p.R187W	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	187					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	AAAGGACAGGCGGGCCCTGGT	0.557													18	67					0	0	1	0	0		T	24503611	T	T	24503611	3	4	211	1	0	0	0	0	1	0	0	0	502	759	27	1	569	1	ALDH5A1	6	24503611	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4021966	24503611	146611456	594	102473											
ALDH5A1	7915	broad.mit.edu	37	chr6	24528266	24528266	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgtttctaaaggtgccacCgttgtgacaggtggaaaacg	10	9	13	9	3	1	1	0	1	1	0	1	2	1	2	3	3	2	2	3	3	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:24528266C>T	uc003neg.2	+	8	1243	c.1215C>T	c.(1213-1215)ACC>ACT	p.T405T	ALDH5A1_uc003nef.2_Silent_p.T418T	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	405					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	AAGGTGCCACCGTTGTGACAG	0.423													14	39					0	0	1	0	0		T	24528266	T	T	24528266	2	4	211	1	0	0	0	0	0	0	0	1	502	639	23	1		1	ALDH5A1	6	24528266	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	24655	24528266	146586801	595	102474											
SLC17A1	6568	broad.mit.edu	37	chr6	25799104	25799104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttaggccagtcacattaatgGctgccatcaggatgaaggtt	11	11	11	8	0	2	1	2	1	0	0	2	2	2	2	2	4	1	2	2	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:25799104G>A	uc003nfh.3	-	12	1429	c.1313C>T	c.(1312-1314)GCC>GTC	p.A438V	SLC17A1_uc011djy.1_RNA|SLC17A1_uc010jqb.1_Missense_Mutation_p.A436V|SLC17A1_uc010jqc.1_Missense_Mutation_p.A382V	NM_005074	NP_005065	Q14916	NPT1_HUMAN	solute carrier family 17 (sodium phosphate),	438	Helical; (Potential).				sodium ion transport|urate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(3)|pancreas(1)	4						CACATTAATGGCTGCCATCAG	0.373													22	61					0	0	1	0	0		A	25799104	A	A	25799104	3	1	211	1	0	0	0	0	1	0	0	0	14441	1203	42	2	94	2	SLC17A1	6	25799104	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1270838	25799104	145315963	596	102475											
OR2B6	26212	broad.mit.edu	37	chr6	27925084	27925084	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtttctcagatcgaccttgGctggagtttccactccttgt	5	15	10	11	1	1	1	1	0	1	1	5	3	3	2	3	3	0	3	3	3	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:27925084G>A	uc011dkx.1	+	1	66	c.66G>A	c.(64-66)TGG>TGA	p.W22*		NM_012367	NP_036499	P58173	OR2B6_HUMAN	olfactory receptor, family 2, subfamily B,	22	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						ATCGACCTTGGCTGGAGTTTC	0.423													30	81					0	0	1	0	0		A	27925084	A	A	27925084	4	1	211	1	0	0	0	0	0	1	0	0	11010	1212	42	2	68	2	OR2B6	6	27925084	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2125980	27925084	143189983	597	102476											
NKAPL	222698	broad.mit.edu	37	chr6	28228000	28228000	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatagggccagaagcacctaTaatacatacctctcaagatg	16	8	7	10	0	1	2	1	0	1	2	2	2	1	2	3	1	3	1	3	1	8	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:28228000T>C	uc003nkt.2	+	1	903	c.851T>C	c.(850-852)ATA>ACA	p.I284T	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	284										upper_aerodigestive_tract(1)|ovary(1)	2						GAAGCACCTATAATACATACC	0.448													11	29					0	0	1	0	0		C	28228000	C	C	28228000	3	2	211	1	0	0	0	0	1	0	0	0	10459	1406	49	3	853	3	NKAPL	6	28228000	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	302916	28228000	142887067	598	102477											
ZNF311	282890	broad.mit.edu	37	chr6	28962826	28962826	+	Silent	SNP	T	C	C	0	1	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	gaggtctgagaaacagtcacTggagagagggatttcctact	12	9	13	7	0	2	2	1	1	1	2	3	7	3	4	1	3	2	0	1	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:28962826T>C	uc003nlu.2	-	7	2466	c.1953A>G	c.(1951-1953)CCA>CCG	p.P651P	ZNF311_uc011dlk.1_Silent_p.P559P|ZNF311_uc003nlv.2_Silent_p.P559P	NM_001010877	NP_001010877	Q5JNZ3	ZN311_HUMAN	zinc finger protein 311	651					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding				0						AAACAGTCACTGGAGAGAGGG	0.343													13	30					0	0	1	0	0		C	28962826	C	C	28962826	2	2	211	1	0	0	0	0	0	0	0	1	17859	1567	55	3		3	ZNF311	6	28962826	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	734826	28962826	142152241	599	102478											
MOG	4340	broad.mit.edu	37	chr6	29638115	29638115	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgtttgtaattgtgccggTtcttggacccttggttgcct	3	17	11	10	1	1	0	0	0	1	0	1	1	1	1	4	3	2	4	4	3	1	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:29638115T>C	uc003nnf.2	+	6	828	c.650T>C	c.(649-651)GTT>GCT	p.V217A	MOG_uc003nmy.1_Missense_Mutation_p.V217A|MOG_uc003nmz.2_3'UTR|MOG_uc011dlt.1_Missense_Mutation_p.V147A|MOG_uc003nna.2_Missense_Mutation_p.V101A|MOG_uc011dlu.1_Intron|MOG_uc011dlv.1_Intron|MOG_uc003nnd.2_3'UTR|MOG_uc003nne.2_Missense_Mutation_p.V217A|MOG_uc003nng.2_Intron|MOG_uc003nnh.2_Intron|MOG_uc003nni.2_Intron|MOG_uc003nnj.2_Intron|MOG_uc003nnk.2_Intron	NM_206809	NP_996532	Q16653	MOG_HUMAN	myelin oligodendrocyte glycoprotein isoform	217	Helical; (Potential).				cell adhesion|central nervous system development|positive regulation of MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)	1						ATTGTGCCGGTTCTTGGACCC	0.512													51	108					0	0	1	0	0		C	29638115	C	C	29638115	3	2	211	1	0	0	0	0	1	0	0	0	9711	1725	60	3	808	3	MOG	6	29638115	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	675289	29638115	141476952	600	102479											
TRIM31	11074	broad.mit.edu	37	chr6	30080390	30080390	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacagcgagttgaacctgaTtgcgttcttccttacggaag	10	11	10	10	3	1	2	0	2	1	0	2	4	2	3	2	1	5	2	2	1	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:30080390T>G	uc003npg.1	-	2	303	c.193A>C	c.(193-195)ATC>CTC	p.I65L	TRIM31_uc003npi.3_RNA	NM_007028	NP_008959	Q9BZY9	TRI31_HUMAN	tripartite motif protein 31	65						mitochondrion	ligase activity|zinc ion binding			lung(1)	1						TTGAACCTGATTGCGTTCTTC	0.478													26	74					0	0	1	0	0		G	30080390	G	G	30080390	3	3	211	1	0	0	0	0	1	0	0	0	16531	1493	52	5	1116	5	TRIM31	6	30080390	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	442275	30080390	141034677	601	102480											
HLA-E	3133	broad.mit.edu	37	chr6	30458189	30458189	+	Silent	SNP	T	C	C	0	1	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	atctccgagcaaaagtcaaaTgatgcctctgaggcggagca	13	7	11	10	2	3	2	1	2	2	0	4	4	3	3	2	2	3	2	2	2	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:30458189T>C	uc003nqg.2	+	3	545	c.507T>C	c.(505-507)AAT>AAC	p.N169N	HLA-E_uc011dmg.1_RNA|HLA-E_uc011dmh.1_Silent_p.N210N	NM_005516	NP_005507	P13747	HLAE_HUMAN	major histocompatibility complex, class I, E	169	Extracellular (Potential).|Alpha-2.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			central_nervous_system(4)|ovary(1)	5						AAAAGTCAAATGATGCCTCTG	0.582													23	57					0	0	1	0	0		C	30458189	C	C	30458189	2	2	211	1	0	0	0	0	0	0	0	1	7226	1461	51	3		3	HLA-E	6	30458189	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	377799	30458189	140656878	602	102481											
MRPS18B	28973	broad.mit.edu	37	chr6	30593484	30593484	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catctccaagaagagagtggCcccccacctgagtcaatgcc	11	6	9	15	0	2	3	1	1	1	2	3	4	2	3	6	1	1	0	6	1	3	0	rs148815125	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:30593484C>T	uc003nqo.2	+	7	844	c.687C>T	c.(685-687)GGC>GGT	p.G229G	MRPS18B_uc011dml.1_3'UTR|MRPS18B_uc010jsd.1_Silent_p.G186G|C6orf134_uc003nqr.3_5'Flank|C6orf134_uc003rdc.2_5'Flank|C6orf134_uc003nqs.3_5'Flank|C6orf134_uc003rdd.2_5'Flank|C6orf134_uc003nqu.2_5'Flank|C6orf134_uc003nqt.2_5'Flank|C6orf134_uc011dmm.1_5'Flank|C6orf134_uc003nqv.2_5'Flank	NM_014046	NP_054765	Q9Y676	RT18B_HUMAN	mitochondrial ribosomal protein S18B precursor	229					translation	mitochondrial small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1						AAGAGAGTGGCCCCCCACCTG	0.592													31	93					0	0	1	0	0		T	30593484	T	T	30593484	2	4	211	1	0	0	0	0	0	0	0	1	9847	726	26	2		2	MRPS18B	6	30593484	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	135295	30593484	140521583	603	102482											
TCF19	6941	broad.mit.edu	37	chr6	31130391	31130391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcctgggttcagtgtgatgGctgtgacgtctggttccatg	4	13	16	8	1	2	2	1	2	1	0	3	2	3	2	2	4	0	3	2	4	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:31130391G>A	uc003nss.2	+	4	1459	c.935G>A	c.(934-936)GGC>GAC	p.G312D	TCF19_uc003nst.2_Missense_Mutation_p.G312D	NM_001077511	NP_001070979	Q9Y242	TCF19_HUMAN	transcription factor 19	312	PHD-type.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CAGTGTGATGGCTGTGACGTC	0.657													22	70					0	0	1	0	0		A	31130391	A	A	31130391	3	1	211	1	0	0	0	0	1	0	0	0	15714	1203	42	2	945	2	TCF19	6	31130391	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	536907	31130391	139984676	604	102483											
HLA-B	3106	broad.mit.edu	37	chr6	31323308	31323308	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtagaaacccagggcccaGcacctcagggtggcctcatg	9	5	14	13	0	2	1	2	0	0	1	2	1	2	1	4	4	2	2	4	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:31323308G>T	uc003nth.2	-	4	735	c.681C>A	c.(679-681)TGC>TGA	p.C227*	HLA-C_uc003ntb.2_RNA|HLA-C_uc003ntc.1_5'Flank|HLA-B_uc010jsm.1_RNA|HLA-B_uc011dnk.1_RNA|HLA-B_uc003ntf.2_Intron|HLA-B_uc003ntg.1_Nonsense_Mutation_p.C106*|HLA-B_uc003nti.1_RNA|HLA-B_uc010jsn.1_RNA|HLA-B_uc010jso.2_3'UTR	NM_005514	NP_005505	P01889	1B07_HUMAN	major histocompatibility complex, class I, B	227	Alpha-3.|Ig-like C1-type.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity				0						CCAGGGCCCAGCACCTCAGGG	0.587									Melanoma_Familial_Clustering_of|Lichen_Sclerosis_et_Atrophicus_Familial_Clustering_of				37	120					1.04594e-18	1.14378e-18	1	1	0		T	31323308	T	T	31323308	4	4	211	1	0	0	0	0	0	1	0	0	7212	963	34	5	423	5	HLA-B	6	31323308	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	192917	31323308	139791759	605	102484											
C6orf27	80737	broad.mit.edu	37	chr6	31734281	31734281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agtgctaggctgaggggcagCcctgtgcaggcgccgccccg	5	5	17	14	3	0	1	0	1	0	0	0	1	0	1	4	4	3	4	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:31734281C>T	uc011dog.1	-	14	2381	c.2143G>A	c.(2143-2145)GCT>ACT	p.A715T	C6orf27_uc003nxd.2_Missense_Mutation_p.A390T	NM_025258	NP_079534	Q9Y334	G7C_HUMAN	G7c protein precursor	715						extracellular region				ovary(3)	3						TGAGGGGCAGCCCTGTGCAGG	0.672													5	12					0	0	1	0	0		T	31734281	T	T	31734281	3	4	211	1	0	0	0	0	1	0	0	0	2365	739	26	2	547	2	C6orf27	6	31734281	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	410973	31734281	139380786	606	102485											
SLC44A4	80736	broad.mit.edu	37	chr6	31833553	31833553	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctccaaatgccaatgacccaGtgtggtaactgcagagggtg	11	8	12	10	0	0	2	0	1	0	1	1	2	1	2	3	2	3	2	3	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:31833553G>T	uc010jti.2	-	15	1562	c.1496C>A	c.(1495-1497)ACT>AAT	p.T499N	NEU1_uc003nxq.3_5'Flank|NEU1_uc010jtg.2_5'Flank|NEU1_uc003nxr.3_5'Flank|NEU1_uc010jth.2_5'Flank|NEU1_uc003nxs.3_5'Flank	NM_025257	NP_079533	Q53GD3	CTL4_HUMAN	choline transporter-like protein 4	499	Cytoplasmic (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4					Choline(DB00122)	CAATGACCCAGTGTGGTAACT	0.577													43	114					4.44401e-20	4.86714e-20	1	1	0		T	31833553	T	T	31833553	3	4	211	1	0	0	0	0	1	0	0	0	14663	1029	36	5	664	5	SLC44A4	6	31833553	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	99272	31833553	139281514	607	102486											
EHMT2	10919	broad.mit.edu	37	chr6	31856834	31856834	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactggggcctgaggagccCacaccattcactcctgacac	9	7	9	16	0	2	2	2	2	0	0	3	3	3	3	4	3	1	0	4	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:31856834C>A	uc003nxz.1	-	10	1138	c.1128G>T	c.(1126-1128)GTG>GTT	p.V376V	EHMT2_uc003nxy.1_Silent_p.V167V|EHMT2_uc011don.1_Intron|EHMT2_uc003nya.1_Intron	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2	376					DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						CTGAGGAGCCCACACCATTCA	0.617													5	10					0.00116845	0.00119059	1	1	0		A	31856834	A	A	31856834	2	1	211	1	0	0	0	0	0	0	0	1	4990	581	21	5		5	EHMT2	6	31856834	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	23281	31856834	139258233	608	102487											
C4A	720	broad.mit.edu	37	chr6	31962394	31962394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccttctctgtggtgcccacGgcagccgccgctgtgtctct	2	11	12	16	3	2	0	0	0	2	0	4	0	2	0	4	2	2	2	4	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:31962394G>A	uc011doy.1	+	21	2763	c.2712G>A	c.(2710-2712)ACG>ACA	p.T904T	C4A_uc011doz.1_Silent_p.T904T	NM_007293	NP_009224	P0C0L4	CO4A_HUMAN	complement component 4A preproprotein	904					complement activation, classical pathway|inflammatory response|innate immune response	extracellular space	endopeptidase inhibitor activity				0						TGGTGCCCACGGCAGCCGCCG	0.662													13	153					0	0	1	0	0		A	31962394	A	A	31962394	2	1	211	1	0	0	0	0	0	0	0	1	2250	1103	39	1		1	C4A	6	31962394	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	105560	31962394	139152673	609	102488											
CYP21A2	1589	broad.mit.edu	37	chr6	32007917	32007917	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagtggacctcctgatcGgtggcactgagaccacagca	9	7	12	13	1	0	2	0	2	0	1	2	4	1	3	3	3	2	3	3	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:32007917G>A	uc003nze.1	+	7	992	c.874G>A	c.(874-876)GGT>AGT	p.G292S	CYP21A2_uc003nzf.1_Missense_Mutation_p.G262S	NM_000500	NP_000491	P08686	CP21A_HUMAN	cytochrome P450, family 21, subfamily A,	291			G -> R (in AH3).|G -> S (in AH3; salt wasting form; less then 1% activity).|G -> C (in AH3).		glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|steroid 21-monooxygenase activity|steroid binding				0						CCTCCTGATCGGTGGCACTGA	0.607													82	233					0	0	1	0	0		A	32007917	A	A	32007917	3	1	211	1	0	0	0	0	1	0	0	0	4156	1116	39	1	2421	1	CYP21A2	6	32007917	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	45523	32007917	139107150	610	102489											
TNXB	7148	broad.mit.edu	37	chr6	32010293	32010293	+	Frame_Shift_Del	DEL	C	-	-																															tcaggggccgctcgcggttgCcgttgaggaagatggtgctg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:32010293delC	uc003nzl.2	-	40	12345	c.12143delG	c.(12142-12144)GGCfs	p.G4048fs	TNXB_uc003nzg.1_Frame_Shift_Del_p.G479fs|TNXB_uc003nzh.1_Frame_Shift_Del_p.G517fs	NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	4095	Fibrinogen C-terminal.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CTCGCGGTTGCCGTTGAGGAA	0.667													14	22	---	---	---	---						.	-	32010293	-	-	32010293	7	5	211	1	0	1	0	1	0	0	0	0	16371	739	26	0	2590	0	TNXB	6	32010293	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2376	32010293	139104774	611	102490											
AGPAT1	10554	broad.mit.edu	37	chr6	32137210	32137210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcactgggggcagcaccCgcacctgacattgtcctggg	6	7	15	13	1	0	1	0	1	0	0	1	1	1	1	3	4	1	4	3	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:32137210C>T	uc003oae.2	-	7	1013	c.695G>A	c.(694-696)CGG>CAG	p.R232Q	PPT2_uc003nzy.1_RNA|AGPAT1_uc011dpj.1_RNA|AGPAT1_uc011dpk.1_Missense_Mutation_p.R196Q|AGPAT1_uc003oaf.2_Missense_Mutation_p.R232Q|AGPAT1_uc003oag.2_Missense_Mutation_p.R122Q|AGPAT1_uc003oah.2_Missense_Mutation_p.R232Q|AGPAT1_uc003oai.1_Missense_Mutation_p.R232Q|AGPAT1_uc011dpl.1_Missense_Mutation_p.R120Q	NM_006411	NP_006402	Q99943	PLCA_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 1	232					energy reserve metabolic process|phosphatidic acid biosynthetic process|positive regulation of cellular metabolic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			central_nervous_system(1)	1						GGGCAGCACCCGCACCTGACA	0.617													30	73					0	0	1	0	0		T	32137210	T	T	32137210	3	4	211	1	0	0	0	0	1	0	0	0	386	652	23	1	160	1	AGPAT1	6	32137210	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	126917	32137210	138977857	612	102491											
NOTCH4	4855	broad.mit.edu	37	chr6	32166736	32166736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcctcgcctagtgggggcCggcgtcggtggggagctgac	3	8	19	11	4	0	1	0	1	0	0	3	2	1	2	3	6	1	1	3	6	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:32166736C>T	uc003obb.2	-	24	4641	c.4502G>A	c.(4501-4503)CGG>CAG	p.R1501Q	NOTCH4_uc011dpt.1_5'Flank|NOTCH4_uc003oba.2_Missense_Mutation_p.R164Q|NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc011dpw.1_5'Flank	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	1501	Cytoplasmic (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						TAGTGGGGGCCGGCGTCGGTG	0.602													68	160					0	0	1	0	0		T	32166736	T	T	32166736	3	4	211	1	0	0	0	0	1	0	0	0	10570	652	23	1	1537	1	NOTCH4	6	32166736	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	29526	32166736	138948331	613	102492											
NOTCH4	4855	broad.mit.edu	37	chr6	32187952	32187952	+	Silent	SNP	G	A	A	0	0	1	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	tggcaggtgggccccgaataGccaggctgacacaggcagag	10	4	16	11	1	0	2	0	1	0	1	0	3	0	2	3	5	1	3	3	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:32187952G>A	uc003obb.2	-	7	1408	c.1269C>T	c.(1267-1269)GGC>GGT	p.G423G	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Silent_p.G423G	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	423	EGF-like 10.|Extracellular (Potential).				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						GCCCCGAATAGCCAGGCTGAC	0.622													14	49					0	0	1	0	0		A	32187952	A	A	32187952	2	1	211	1	0	0	0	0	0	0	0	1	10570	958	34	2		2	NOTCH4	6	32187952	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	21216	32187952	138927115	614	102493											
HLA-DPB1	3115	broad.mit.edu	37	chr6	33043844	33043844	+	Frame_Shift_Del	DEL	C	-	-																															ggttctgcaggtttctgcggCcccccggacagtggctctga																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:33043844delC	uc003ocu.1	+	1	85	c.26delC	c.(25-27)GCCfs	p.A9fs	HLA-DPA1_uc003ocs.1_5'Flank|HLA-DPA1_uc010juk.2_5'Flank|HLA-DPA1_uc003oct.1_Intron|HLA-DPB1_uc011dqn.1_RNA|HLA-DPB1_uc011dqo.1_RNA|HLA-DPB1_uc011dqp.1_Frame_Shift_Del_p.A8fs	NM_002121	NP_002112	P04440	DPB1_HUMAN	major histocompatibility complex, class II, DP	9					antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to membrane|lysosomal membrane|MHC class II protein complex				ovary(1)	1						GTTTCTGCGGCCCCCCGGACA	0.552													10	13	---	---	---	---						.	-	33043844	-	-	33043844	7	5	211	1	0	1	0	1	0	0	0	0	7219	739	26	0	28	0	HLA-DPB1	6	33043844	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	855892	33043844	138071223	615	102494											
ITPR3	3710	broad.mit.edu	37	chr6	33638469	33638469	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgattccaacctcaacgcGtcccgagatgacaagaagaa	15	7	8	11	3	1	5	1	2	0	3	3	6	3	5	3	0	2	0	3	0	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:33638469G>A	uc011drk.1	+	20	2682	c.2463G>A	c.(2461-2463)GCG>GCA	p.A821A		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	821	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						ACCTCAACGCGTCCCGAGATG	0.587													17	49					0	0	1	0	0		A	33638469	A	A	33638469	2	1	211	1	0	0	0	0	0	0	0	1	7938	1132	40	1		1	ITPR3	6	33638469	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	594625	33638469	137476598	616	102495											
ANKS1A	23294	broad.mit.edu	37	chr6	34957009	34957009	+	Silent	SNP	T	C	C	0	1	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	tctcttctgcagagggaacgTccaccacctccagcaaagcc	10	7	8	16	1	2	1	0	0	2	1	5	2	4	2	5	1	4	2	5	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:34957009T>C	uc003ojx.3	+	9	1360	c.1218T>C	c.(1216-1218)CGT>CGC	p.R406R	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_5'UTR|ANKS1A_uc010jvp.1_5'UTR	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	406						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						AGAGGGAACGTCCACCACCTC	0.413													34	81					0	0	1	0	0		C	34957009	C	C	34957009	2	2	211	1	0	0	0	0	0	0	0	1	688	1654	58	3		3	ANKS1A	6	34957009	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1318540	34957009	136158058	617	102496											
TULP1	7287	broad.mit.edu	37	chr6	35480431	35480431	+	Silent	SNP	C	T	T	0	0	0	1	1	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	catacctgtttggggcgccgCggggcctccgggctcaggct	3	8	16	14	4	1	0	1	0	0	0	2	0	2	0	4	6	1	3	4	6	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:35480431C>T	uc003okv.3	-	2	96	c.84G>A	c.(82-84)CCG>CCA	p.P28P	TULP1_uc003okw.3_Silent_p.P28P	NM_003322	NP_003313	O00294	TULP1_HUMAN	tubby like protein 1	28					dendrite development|eye photoreceptor cell development|phagocytosis|photoreceptor cell maintenance|positive regulation of phagocytosis	cell junction|cytoplasm|extracellular region|photoreceptor inner segment|photoreceptor outer segment|synapse	actin filament binding|phosphatidylinositol-4,5-bisphosphate binding			ovary(2)|central_nervous_system(1)	3						TGGGGCGCCGCGGGGCCTCCG	0.502													31	93					0	0	1	0	0		T	35480431	T	T	35480431	2	4	211	1	0	0	0	0	0	0	0	1	16799	755	27	1		1	TULP1	6	35480431	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	523422	35480431	135634636	618	102497											
SLC26A8	116369	broad.mit.edu	37	chr6	35919044	35919044	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggcaaacagcacggcgtCgtgaacgctgaggaacagct	13	4	13	11	4	0	2	0	2	0	0	1	3	0	3	0	3	5	4	0	3	4	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:35919044C>T	uc003olm.2	-	19	2479	c.2368G>A	c.(2368-2370)GAC>AAC	p.D790N	SLC26A8_uc010jwa.2_RNA|SLC26A8_uc003olk.2_Missense_Mutation_p.D372N|SLC26A8_uc003oln.2_Missense_Mutation_p.D790N|SLC26A8_uc003oll.2_Missense_Mutation_p.D685N	NM_052961	NP_443193	Q96RN1	S26A8_HUMAN	solute carrier family 26, member 8 isoform a	790	Interaction with RACGAP1.|STAS.|Cytoplasmic (Potential).				cell differentiation|meiosis|multicellular organismal development|spermatogenesis	integral to membrane|plasma membrane	anion:anion antiporter activity|chloride channel activity|oxalate transmembrane transporter activity|protein binding|sulfate transmembrane transporter activity			ovary(2)	2						AGCACGGCGTCGTGAACGCTG	0.488													5	56					0	0	1	0	0		T	35919044	T	T	35919044	3	4	211	1	0	0	0	0	1	0	0	0	14548	884	31	1	552	1	SLC26A8	6	35919044	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	438613	35919044	135196023	619	102498											
TBC1D22B	55633	broad.mit.edu	37	chr6	37252164	37252164	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgaccctgcagcggaagcGggaggaatattttggcttca	9	10	14	8	2	1	1	1	1	0	0	1	4	1	4	1	4	3	3	1	4	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:37252164G>A	uc003onn.2	+	6	871	c.725G>A	c.(724-726)CGG>CAG	p.R242Q	TBC1D22B_uc010jwt.2_RNA	NM_017772	NP_060242	Q9NU19	TB22B_HUMAN	TBC1 domain family, member 22B	242	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0			OV - Ovarian serous cystadenocarcinoma(102;0.241)			CAGCGGAAGCGGGAGGAATAT	0.488													21	74					0	0	1	0	0		A	37252164	A	A	37252164	3	1	211	1	0	0	0	0	1	0	0	0	15637	1116	39	1	747	1	TBC1D22B	6	37252164	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1333120	37252164	133862903	620	102499											
MDGA1	266727	broad.mit.edu	37	chr6	37623589	37623589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttggagttgacagtacagcGcaggaacaccgtcttctcct	9	10	11	11	2	2	1	0	1	2	0	3	3	2	3	2	2	3	4	2	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:37623589G>A	uc003onu.1	-	4	1645	c.466C>T	c.(466-468)CGC>TGC	p.R156C		NM_153487	NP_705691	Q8NFP4	MDGA1_HUMAN	MAM domain containing	156	Ig-like 2.				brain development|neuron migration|spinal cord association neuron differentiation	anchored to plasma membrane				central_nervous_system(2)	2						ACAGTACAGCGCAGGAACACC	0.592													4	28					0	0	1	0	0		A	37623589	A	A	37623589	3	1	211	1	0	0	0	0	1	0	0	0	9424	1087	38	1	2457	1	MDGA1	6	37623589	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	371425	37623589	133491478	621	102500											
DAAM2	23500	broad.mit.edu	37	chr6	39846031	39846031	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaccaggcagagaagttcCggaaaggtgaggggctctgc	11	5	17	8	1	1	3	0	1	1	2	2	6	2	4	2	5	1	3	2	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:39846031C>T	uc003oow.2	+	12	1510	c.1354C>T	c.(1354-1356)CGG>TGG	p.R452W	DAAM2_uc010jxc.2_Missense_Mutation_p.R452W|DAAM2_uc003oox.2_Missense_Mutation_p.R452W	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	452	Potential.				actin cytoskeleton organization		actin binding|Rho GTPase binding	p.R452Q(1)		ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					AGAGAAGTTCCGGAAAGGTGA	0.547													13	40					0	0	1	0	0		T	39846031	T	T	39846031	3	4	211	1	0	0	0	0	1	0	0	0	4219	643	23	1	1396	1	DAAM2	6	39846031	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2222442	39846031	131269036	622	102501											
GUCA1B	2979	broad.mit.edu	37	chr6	42162429	42162429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtctgtgaccttgaagaagcGcttaaactcatgcataaaga	14	10	9	8	1	2	4	1	2	1	2	2	4	2	4	1	0	3	2	1	0	6	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:42162429G>A	uc003orz.2	-	1	266	c.130C>T	c.(130-132)CGC>TGC	p.R44C		NM_002098	NP_002089	Q9UMX6	GUC1B_HUMAN	guanylate cyclase activator 1B (retina)	44					body fluid secretion|cell-cell signaling|receptor guanylyl cyclase signaling pathway|visual perception	plasma membrane	calcium ion binding|calcium sensitive guanylate cyclase activator activity			skin(2)	2	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00154)|STAD - Stomach adenocarcinoma(11;0.00177)			TTGAAGAAGCGCTTAAACTCA	0.547													5	48					0	0	1	0	0		A	42162429	A	A	42162429	3	1	211	1	0	0	0	0	1	0	0	0	6905	1087	38	1	488	1	GUCA1B	6	42162429	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2316398	42162429	128952638	623	102502											
TRERF1	55809	broad.mit.edu	37	chr6	42196140	42196140	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgatcatccaagagaagatcGgtgtccacaacttcagcctc	12	9	8	12	1	2	3	2	1	0	2	6	4	4	3	3	1	2	0	3	1	3	1	rs138437729		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:42196140G>A	uc003osd.2	-	18	4109	c.3546C>T	c.(3544-3546)ACC>ACT	p.T1182T	TRERF1_uc011duq.1_Silent_p.T1099T|TRERF1_uc003osb.2_Silent_p.T950T|TRERF1_uc003osc.2_Silent_p.T938T|TRERF1_uc003ose.2_Silent_p.T1202T	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	1182	Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			AGAGAAGATCGGTGTCCACAA	0.512													34	91					0	0	1	0	0		A	42196140	A	A	42196140	2	1	211	1	0	0	0	0	0	0	0	1	16501	1103	39	1		1	TRERF1	6	42196140	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	33711	42196140	128918927	624	102503											
UBR2	23304	broad.mit.edu	37	chr6	42643810	42643810	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctaggtgggcttggtgcttgCatttcctgcgttgcagtgtc	3	15	14	9	1	0	0	0	0	0	0	2	0	1	0	1	3	4	5	1	3	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:42643810C>T	uc011dur.1	+	39	4268	c.4268C>T	c.(4267-4269)GCA>GTA	p.A1423V	UBR2_uc011dus.1_Missense_Mutation_p.A1068V|UBR2_uc003osh.2_Intron|UBR2_uc011dut.1_Missense_Mutation_p.A11V	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	1423					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			TTGGTGCTTGCATTTCCTGCG	0.443													23	76					0	0	1	0	0		T	42643810	T	T	42643810	3	4	211	1	0	0	0	0	1	0	0	0	16928	710	25	2	4568	2	UBR2	6	42643810	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	447670	42643810	128471257	625	102504											
CUL7	9820	broad.mit.edu	37	chr6	43013345	43013345	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggcagcgctttatgcGgatctggatgatgggccaga	7	10	15	9	2	1	2	0	1	1	1	1	4	1	4	1	4	3	3	1	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:43013345G>A	uc003otq.2	-	14	3145	c.2842C>T	c.(2842-2844)CGC>TGC	p.R948C	CUL7_uc010jyg.2_Missense_Mutation_p.R227C|CUL7_uc011dvb.1_Missense_Mutation_p.R1032C|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	948	DOC.				interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			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)			CGCTTTATGCGGATCTGGATG	0.622													12	45					0	0	1	0	0		A	43013345	A	A	43013345	3	1	211	1	0	0	0	0	1	0	0	0	4063	1116	39	1	2306	1	CUL7	6	43013345	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	369535	43013345	128101722	626	102505											
KLC4	89953	broad.mit.edu	37	chr6	43039923	43039923	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctgagaaacctgggagctcTgtataggcgccagggaaagc	11	7	14	9	1	2	1	0	1	2	1	2	4	2	3	2	3	3	2	2	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:43039923T>C	uc003otv.1	+	12	1495	c.1418T>C	c.(1417-1419)CTG>CCG	p.L473P	KLC4_uc003otr.1_RNA|KLC4_uc011dvd.1_Missense_Mutation_p.L396P|KLC4_uc003otw.1_Missense_Mutation_p.L491P|KLC4_uc003otx.1_Missense_Mutation_p.L473P|KLC4_uc003oty.1_Missense_Mutation_p.L473P|KLC4_uc003otz.1_Missense_Mutation_p.L473P	NM_201521	NP_958929	Q9NSK0	KLC4_HUMAN	kinesin-like 8 isoform a	473	TPR 7.					cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			skin(3)|ovary(1)	4			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			CTGGGAGCTCTGTATAGGCGC	0.542													24	75					0	0	1	0	0		C	43039923	C	C	43039923	3	2	211	1	0	0	0	0	1	0	0	0	8352	1580	55	3	1587	3	KLC4	6	43039923	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	26578	43039923	128075144	627	102506											
ZNF318	24149	broad.mit.edu	37	chr6	43323104	43323104	+	Silent	SNP	G	A	A	0	0	1	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	cagtggtcaactgaggaacaGcggtcagctgagaagcggtg	11	6	16	8	2	2	2	2	2	0	1	2	4	2	3	0	4	5	1	0	4	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:43323104G>A	uc003oux.2	-	4	2046	c.1968C>T	c.(1966-1968)CGC>CGT	p.R656R	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	656					meiosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(3)|breast(2)|central_nervous_system(1)|skin(1)	7			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.0171)|OV - Ovarian serous cystadenocarcinoma(102;0.0579)			CTGAGGAACAGCGGTCAGCTG	0.542													34	85					0	0	1	0	0		A	43323104	A	A	43323104	2	1	211	1	0	0	0	0	0	0	0	1	17861	958	34	2		2	ZNF318	6	43323104	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	283181	43323104	127791963	628	102507											
YIPF3	25844	broad.mit.edu	37	chr6	43483391	43483391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctgaggatgtcgatgttggCgtacaagctgaaggccctgg	8	10	15	8	2	1	2	0	2	1	0	2	4	1	3	1	4	2	3	1	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:43483391C>T	uc003ovl.1	-	3	494	c.337G>A	c.(337-339)GCC>ACC	p.A113T	YIPF3_uc011dvk.1_Missense_Mutation_p.A78T|YIPF3_uc010jyr.1_Missense_Mutation_p.A119T|YIPF3_uc010jys.1_5'UTR|YIPF3_uc003ovm.1_5'UTR|YIPF3_uc010jyt.1_Intron|POLR1C_uc003ovn.2_5'Flank|POLR1C_uc003ovo.1_5'Flank	NM_015388	NP_056203	Q9GZM5	YIPF3_HUMAN	natural killer cell-specific antigen KLIP1	113					cell differentiation	integral to membrane|plasma membrane|transport vesicle					0	all_cancers(18;3.79e-05)|Lung NSC(15;0.00217)|all_lung(25;0.00536)		Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00736)|OV - Ovarian serous cystadenocarcinoma(102;0.0711)			TCGATGTTGGCGTACAAGCTG	0.517													22	85					0	0	1	0	0		T	43483391	T	T	43483391	3	4	211	1	0	0	0	0	1	0	0	0	17505	768	27	1	743	1	YIPF3	6	43483391	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	160287	43483391	127631676	629	102508											
TCTE1	202500	broad.mit.edu	37	chr6	44248064	44248064	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggccacatctgacaggcGcaagtcaaattccaggaggg	11	6	13	11	1	2	1	1	1	1	0	3	2	3	2	2	4	0	1	2	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:44248064G>A	uc003oxi.2	-	5	1516	c.1360C>T	c.(1360-1362)CGC>TGC	p.R454C	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_182539	NP_872345	Q5JU00	TCTE1_HUMAN	t-complex-associated testis expressed 1	454										ovary(2)|skin(2)	4	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TCTGACAGGCGCAAGTCAAAT	0.572													26	68					0	0	1	0	0		A	44248064	A	A	44248064	3	1	211	1	0	0	0	0	1	0	0	0	15742	1087	38	1	149	1	TCTE1	6	44248064	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	764673	44248064	126867003	630	102509											
PKHD1	5314	broad.mit.edu	37	chr6	51882334	51882334	+	Missense_Mutation	SNP	A	G	G	1	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	caagcagttgctctgtcgccAtggcaactgtcaaatcacac	11	9	8	13	1	3	0	2	0	1	0	4	0	3	0	1	1	3	4	1	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:51882334A>G	uc003pah.1	-	34	5750	c.5474T>C	c.(5473-5475)ATG>ACG	p.M1825T	PKHD1_uc003pai.2_Missense_Mutation_p.M1825T	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1825	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CTCTGTCGCCATGGCAACTGT	0.527													37	96					0	0	1	0	0		G	51882334	G	G	51882334	3	3	211	1	0	0	0	0	1	0	0	0	11990	217	8	3	6925	3	PKHD1	6	51882334	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	7634270	51882334	119232733	631	102510											
EFHC1	114327	broad.mit.edu	37	chr6	52318984	52318984	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttactatcttatggatgataCggtggaaattcgagaggtcc	11	13	11	6	2	1	2	0	1	1	1	3	5	2	4	1	4	2	0	1	4	5	5	rs143655397		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:52318984C>T	uc003pap.3	+	5	1030	c.815C>T	c.(814-816)ACG>ATG	p.T272M	EFHC1_uc011dwv.1_Missense_Mutation_p.T181M|EFHC1_uc011dww.1_Missense_Mutation_p.T253M	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	272	DM10 2.					axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					ATGGATGATACGGTGGAAATT	0.453													36	89					0	0	1	0	0		T	52318984	T	T	52318984	3	4	211	1	0	0	0	0	1	0	0	0	4952	536	19	1	843	1	EFHC1	6	52318984	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	436650	52318984	118796083	632	102511											
EFHC1	114327	broad.mit.edu	37	chr6	52357070	52357070	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctttgctctctctgcagttAatcaggatgtgctctcatgg	6	16	9	10	0	5	0	2	0	4	0	7	1	5	1	0	2	3	4	0	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:52357070A>G	uc003pap.3	+	11	2069	c.1854A>G	c.(1852-1854)TTA>TTG	p.L618L	EFHC1_uc011dwv.1_Intron|EFHC1_uc011dww.1_Silent_p.L599L	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	618						axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					CTCTGCAGTTAATCAGGATGT	0.433													12	49					0	0	1	0	0		G	52357070	G	G	52357070	2	3	211	1	0	0	0	0	0	0	0	1	4952	359	13	3		3	EFHC1	6	52357070	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	38086	52357070	118757997	633	102512											
DST	667	broad.mit.edu	37	chr6	56328464	56328464	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcgcctcgtgatgatggccGggatcttcggcctcggggtc	4	9	16	12	5	1	2	0	2	1	0	5	3	1	3	3	5	1	0	3	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:56328464G>A	uc003pdf.2	-	94	16457	c.16429C>T	c.(16429-16431)CGG>TGG	p.R5477W	DST_uc003pcz.3_Missense_Mutation_p.R5299W|DST_uc011dxj.1_Missense_Mutation_p.R5328W|DST_uc011dxk.1_Missense_Mutation_p.R5339W|DST_uc003pcy.3_Missense_Mutation_p.R4973W|DST_uc003pcv.3_Missense_Mutation_p.R95W|DST_uc003pcw.3_Missense_Mutation_p.R56W|DST_uc003pcx.3_Missense_Mutation_p.R56W	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	7409					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GATGATGGCCGGGATCTTCGG	0.592													23	125					0	0	1	0	0		A	56328464	A	A	56328464	3	1	211	1	0	0	0	0	1	0	0	0	4789	1115	39	1	614	1	DST	6	56328464	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3971394	56328464	114786603	634	102513											
IMPG1	3617	broad.mit.edu	37	chr6	76660338	76660338	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagctcttgttgaacaggtCgttggagaaggccatgttag	10	11	14	6	1	1	3	0	1	1	2	2	4	1	3	1	3	2	4	1	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:76660338C>T	uc003pik.1	-	13	1895	c.1765G>A	c.(1765-1767)GAC>AAC	p.D589N		NM_001563	NP_001554	Q17R60	IMPG1_HUMAN	interphotoreceptor matrix proteoglycan 1	589	SEA 2.				visual perception	proteinaceous extracellular matrix	extracellular matrix structural constituent|receptor activity			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(125;0.0418)|all_hematologic(105;0.222)				TTGAACAGGTCGTTGGAGAAG	0.493													18	35					0	0	1	0	0		T	76660338	T	T	76660338	3	4	211	1	0	0	0	0	1	0	0	0	7744	884	31	1	648	1	IMPG1	6	76660338	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	20331874	76660338	94454729	635	102514											
ELOVL4	6785	broad.mit.edu	37	chr6	80656996	80656996	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctccgagtccaggagccccaTcgcggcgatgagcgggcgct	6	5	15	15	6	0	1	0	1	0	0	3	4	2	2	4	3	2	1	4	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:80656996T>A	uc003pja.3	-	1	320	c.1A>T	c.(1-3)ATG>TTG	p.M1L	ELOVL4_uc011dyt.1_RNA	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	elongation of very long chain fatty acids-like	1					fatty acid elongation, saturated fatty acid|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process|very long-chain fatty acid biosynthetic process	integral to endoplasmic reticulum membrane	G-protein coupled photoreceptor activity|protein binding|transferase activity, transferring acyl groups other than amino-acyl groups			ovary(1)|skin(1)	2		all_cancers(76;1.83e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.011)		BRCA - Breast invasive adenocarcinoma(397;0.0168)	Alpha-Linolenic Acid(DB00132)	AGGAGCCCCATCGCGGCGATG	0.697													7	15					0	0	1	0	0		A	80656996	A	A	80656996	3	1	211	1	0	0	0	0	1	0	0	0	5084	1435	50	5	967	5	ELOVL4	6	80656996	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3996658	80656996	90458071	636	102515											
DOPEY1	23033	broad.mit.edu	37	chr6	83849800	83849800	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagccattatccattactgTttgttggatccaactacaca	12	13	5	11	0	0	0	0	0	0	0	2	1	2	1	3	1	4	2	3	1	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:83849800T>A	uc003pjs.1	+	22	5462	c.5202T>A	c.(5200-5202)TGT>TGA	p.C1734*	DOPEY1_uc011dyy.1_Nonsense_Mutation_p.C1725*|DOPEY1_uc010kbl.1_Nonsense_Mutation_p.C1725*|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1734					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TCCATTACTGTTTGTTGGATC	0.358													15	54					0	0	1	0	0		A	83849800	A	A	83849800	4	1	211	1	0	0	0	0	0	1	0	0	4713	1731	60	5	5280	5	DOPEY1	6	83849800	Nonsense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3192804	83849800	87265267	637	102516											
RIPPLY2	134701	broad.mit.edu	37	chr6	84563821	84563821	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctttcctctccagatgccCgatggccctggaatgaccgc	6	10	9	16	2	1	2	0	1	1	1	4	4	3	3	6	2	1	0	6	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:84563821C>T	uc003pke.2	+	3	331	c.180C>T	c.(178-180)CCC>CCT	p.P60P		NM_001009994	NP_001009994	Q5TAB7	RIPP2_HUMAN	ripply2 protein	60					somite rostral/caudal axis specification	nucleus					0						TCCAGATGCCCGATGGCCCTG	0.577													21	54					0	0	1	0	0		T	84563821	T	T	84563821	2	4	211	1	0	0	0	0	0	0	0	1	13410	639	23	1		1	RIPPLY2	6	84563821	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	714021	84563821	86551246	638	102517											
SPACA1	81833	broad.mit.edu	37	chr6	88767395	88767395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaatccaagtgtgttgtaCgggtagaagaatgccgtgga	11	10	15	5	2	0	3	0	1	0	2	1	4	1	4	2	2	2	3	2	2	6	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:88767395C>T	uc003pmn.2	+	3	448	c.331C>T	c.(331-333)CGG>TGG	p.R111W		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	111	Extracellular (Potential).					integral to membrane					0		all_cancers(76;8.24e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;4.11e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.00011)		BRCA - Breast invasive adenocarcinoma(108;0.11)		GTGTGTTGTACGGGTAGAAGA	0.393													18	62					0	0	1	0	0		T	88767395	T	T	88767395	3	4	211	1	0	0	0	0	1	0	0	0	14997	527	19	1	341	1	SPACA1	6	88767395	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4203574	88767395	82347672	639	102518											
MDN1	23195	broad.mit.edu	37	chr6	90359802	90359803	+	Missense_Mutation	DNP	AC	GT	GT																															gatagccaaacaaatctgatActggcgtttactgggcttgg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:90359802_90359803AC>GT	uc003pnn.1	-	97	16262_16263	c.16146_16147GT>AC	c.(16144-16149)CAGTAT>CAACAT	p.Y5383H		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	5383					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		CAAATCTGATACTGGCGTTTAC	0.411													27	78					0	0	1	0	0		GT	90359803	GT	GT	90359802	3	3	211	1	0	0	0	0	1	0	0	0	9433	391	14	3	667	3	MDN1	6	90359802	Missense_Mutation	DNP	AC	TCGA-HU-A4GQ-01A-11D-A25D-08	1592407	90359802	80755265	640	102519											
BACH2	60468	broad.mit.edu	37	chr6	90660298	90660298	+	Silent	SNP	G	A	A	0	0	1	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	ctggtctccaaggggggtgaGcgagggcagactttgattgg	7	9	18	7	1	1	3	0	2	1	1	2	4	1	3	1	6	1	1	1	6	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:90660298G>A	uc011eab.1	-	7	2336	c.1527C>T	c.(1525-1527)CGC>CGT	p.R509R	BACH2_uc003pnw.2_Silent_p.R509R|BACH2_uc010kch.2_Silent_p.R509R	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	509						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		AGGGGGGTGAGCGAGGGCAGA	0.652													22	78					0	0	1	0	0		A	90660298	A	A	90660298	2	1	211	1	0	0	0	0	0	0	0	1	1285	958	34	2		2	BACH2	6	90660298	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	300496	90660298	80454769	641	102520											
KIAA0776	23376	broad.mit.edu	37	chr6	96972270	96972270	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaaaggtcgagtaaacaTtgttgatctacaacaggtag	14	11	9	7	1	2	1	1	1	1	0	3	2	2	1	0	2	3	3	0	2	6	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:96972270T>C	uc003por.2	+	3	284	c.236T>C	c.(235-237)ATT>ACT	p.I79T	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	79	Required for E3 UFM1-protein ligase activity.				negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		CGAGTAAACATTGTTGATCTA	0.284													12	32					0	0	1	0	0		C	96972270	C	C	96972270	3	2	211	1	0	0	0	0	1	0	0	0	8209	1493	52	3	246	3	KIAA0776	6	96972270	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	6311972	96972270	74142797	642	102521											
C6orf167	253714	broad.mit.edu	37	chr6	97597752	97597752	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtgctatattcctgccaagGccccatttctgctctgaatc	7	14	7	13	0	2	1	0	1	2	0	4	1	3	1	4	1	3	2	4	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:97597752G>A	uc003ppb.2	-	24	3893	c.3627C>T	c.(3625-3627)GGC>GGT	p.G1209G	C6orf167_uc011eaf.1_Silent_p.G1169G	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	1209					double-strand break repair via homologous recombination|replication fork processing	nuclear replication fork	protein binding				0		all_cancers(76;0.000243)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.148)|Colorectal(196;0.198)		BRCA - Breast invasive adenocarcinoma(108;0.0457)		TCCTGCCAAGGCCCCATTTCT	0.348													10	31					0	0	1	0	0		A	97597752	A	A	97597752	2	1	211	1	0	0	0	0	0	0	0	1	2345	1190	42	2		2	C6orf167	6	97597752	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	625482	97597752	73517315	643	102522											
ASCC3	10973	broad.mit.edu	37	chr6	101037562	101037562	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcaggcttcaagcggtccTtgaacattttaactgtttga	10	15	8	8	1	2	2	2	2	0	0	3	2	3	2	1	2	3	2	1	2	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:101037562T>A	uc003pqk.2	-	36	5827	c.5498A>T	c.(5497-5499)AAG>ATG	p.K1833M		NM_006828	NP_006819	Q8N3C0	HELC1_HUMAN	activating signal cointegrator 1 complex subunit	1833	SEC63 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(5)|skin(1)	6		all_cancers(76;1.45e-07)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(87;0.00149)|Hepatocellular(1;0.0893)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0539)|all cancers(137;0.103)|GBM - Glioblastoma multiforme(226;0.199)		CAAGCGGTCCTTGAACATTTT	0.343													19	73					0	0	1	0	0		A	101037562	A	A	101037562	3	1	211	1	0	0	0	0	1	0	0	0	1034	1609	56	5	1138	5	ASCC3	6	101037562	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3439810	101037562	70077505	644	102523											
GRIK2	2898	broad.mit.edu	37	chr6	102337740	102337740	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctctttgtcatagccaggTaacatgctcacttttgtgat	8	16	8	9	0	3	1	2	1	1	0	3	1	3	1	1	1	4	3	1	1	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:102337740T>C	uc003pqp.3	+	11	1997	c.1748_splice	c.e11+2	p.R583_splice	GRIK2_uc003pqn.2_Nonstop_Mutation_p.*584Q|GRIK2_uc003pqo.3_Splice_Site_p.R583_splice|GRIK2_uc010kcw.2_Splice_Site_p.R583_splice	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2						glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)	CATAGCCAGGTAACATGCTCA	0.378													23	78					0	0	1	0	0		C	102337740	C	C	102337740	5	2	211	1	0	0	0	0	0	0	1	0	6790	1652	57	3	1792	3	GRIK2	6	102337740	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1300178	102337740	68777327	645	102524											
SCML4	256380	broad.mit.edu	37	chr6	108070973	108070973	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcgggctctggggtactccgCggaggtgagagggctaaggg	6	7	20	8	3	1	1	0	1	1	1	3	3	2	2	1	7	1	3	1	7	2	2	rs148891280		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:108070973C>T	uc010kdf.2	-	3	452	c.201G>A	c.(199-201)CCG>CCA	p.P67P	SCML4_uc003prz.3_Silent_p.P9P|SCML4_uc011eam.1_Silent_p.P67P|SCML4_uc003psa.3_Silent_p.P38P	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	67					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		GGGTACTCCGCGGAGGTGAGA	0.577													20	67					0	0	1	0	0		T	108070973	T	T	108070973	2	4	211	1	0	0	0	0	0	0	0	1	13936	755	27	1		1	SCML4	6	108070973	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5733233	108070973	63044094	646	102525											
REV3L	5980	broad.mit.edu	37	chr6	111694477	111694477	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtcatgacttaaaaactcaTttttttctatagcttgtcct	10	19	4	8	0	3	1	2	1	1	0	4	1	4	1	1	0	2	1	1	0	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:111694477T>G	uc003puy.3	-	13	5404	c.5081A>C	c.(5080-5082)AAT>ACT	p.N1694T	REV3L_uc003pux.3_Missense_Mutation_p.N1616T|REV3L_uc003puz.3_Missense_Mutation_p.N1616T	NM_002912	NP_002903	O60673	DPOLZ_HUMAN	DNA polymerase zeta	1694					DNA-dependent DNA replication|translesion synthesis	nucleus|zeta DNA polymerase complex	DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding			large_intestine(2)|ovary(2)|skin(2)	6		all_cancers(87;7.57e-06)|Acute lymphoblastic leukemia(125;2.46e-08)|all_hematologic(75;1.08e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.021)		OV - Ovarian serous cystadenocarcinoma(136;0.0314)|Epithelial(106;0.057)|all cancers(137;0.0663)		TAAAAACTCATTTTTTTCTAT	0.318								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					9	53					0	0	1	0	0		G	111694477	G	G	111694477	3	3	211	1	0	0	0	0	1	0	0	0	13265	1493	52	5	4391	5	REV3L	6	111694477	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3623504	111694477	59420590	647	102526											
GOPC	57120	broad.mit.edu	37	chr6	117923401	117923401	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccccacggagcaggaggcGccccctgggccccctccggc	4	2	14	21	3	0	0	0	0	0	0	1	2	1	2	7	5	1	1	7	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:117923401G>A	uc003pxu.2	-	1	281	c.51C>T	c.(49-51)GGC>GGT	p.G17G	GOPC_uc003pxv.2_Silent_p.G17G	NM_020399	NP_065132	Q9HD26	GOPC_HUMAN	golgi associated PDZ and coiled-coil motif	17					apical protein localization|cytoplasmic sequestering of CFTR protein|ER to Golgi vesicle-mediated transport|Golgi to plasma membrane transport|protein homooligomerization|protein transport	cell junction|dendrite|Golgi membrane|postsynaptic density|postsynaptic membrane|trans-Golgi network transport vesicle	cystic fibrosis transmembrane conductance regulator binding			ovary(1)	1		all_cancers(87;0.00844)|all_epithelial(87;0.0242)		GBM - Glioblastoma multiforme(226;0.0363)|OV - Ovarian serous cystadenocarcinoma(136;0.0821)|all cancers(137;0.0976)		AGCAGGAGGCGCCCCCTGGGC	0.697			O	ROS1	glioblastoma						OREG0017633	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	22					0	0	1	0	0		A	117923401	A	A	117923401	2	1	211	1	0	0	0	0	0	0	0	1	6588	1074	38	1		1	GOPC	6	117923401	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6228924	117923401	53191666	648	102527											
SMPDL3A	10924	broad.mit.edu	37	chr6	123116911	123116911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgtgcttcatctaaaggtGcaaatgcctccaaccctggc	9	11	9	12	0	2	0	1	0	1	0	3	0	3	0	3	2	4	2	3	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:123116911G>A	uc003pzg.2	+	2	723	c.202G>A	c.(202-204)GCA>ACA	p.A68T	SMPDL3A_uc003pzh.2_Intron	NM_006714	NP_006705	Q92484	ASM3A_HUMAN	acid sphingomyelinase-like phosphodiesterase 3A	68					sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|protein binding|sphingomyelin phosphodiesterase activity				0				GBM - Glioblastoma multiforme(226;0.236)		ATCTAAAGGTGCAAATGCCTC	0.398													18	52					0	0	1	0	0		A	123116911	A	A	123116911	3	1	211	1	0	0	0	0	1	0	0	0	14833	1319	46	2	208	2	SMPDL3A	6	123116911	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5193510	123116911	47998156	649	102528											
C6orf174	387104	broad.mit.edu	37	chr6	127796902	127796902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgctctccttcttgcccgCgtcgctctcggcgtcgctgt	0	13	11	17	7	3	0	0	0	3	0	8	0	3	0	2	1	1	3	2	1	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:127796902C>T	uc003qbd.2	-	6	3134	c.2269G>A	c.(2269-2271)GCG>ACG	p.A757T	C6orf174_uc003qbc.2_5'Flank	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	757						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		TTCTTGCCCGCGTCGCTCTCG	0.697													27	77					0	0	1	0	0		T	127796902	T	T	127796902	3	4	211	1	0	0	0	0	1	0	0	0	2348	768	27	1	582	1	C6orf174	6	127796902	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4679991	127796902	43318165	650	102529											
C6orf174	387104	broad.mit.edu	37	chr6	127837665	127837665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcgctgctgctttctgctgCtgccctccgggtgcagacga	3	11	12	15	3	1	1	0	0	1	1	3	2	2	1	2	1	6	6	2	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:127837665C>T	uc003qbd.2	-	2	960	c.95G>A	c.(94-96)AGC>AAC	p.S32N		NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	32						integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		CTTTCTGCTGCTGCCCTCCGG	0.677													9	24					0	0	1	0	0		T	127837665	T	T	127837665	3	4	211	1	0	0	0	0	1	0	0	0	2348	797	28	2	2772	2	C6orf174	6	127837665	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	40763	127837665	43277402	651	102530											
L3MBTL3	84456	broad.mit.edu	37	chr6	130454617	130454617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcccgggaagaacccaccGtccagcaggcacagcgtcgg	9	3	14	15	4	0	1	0	0	0	1	2	2	1	2	4	3	4	2	4	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:130454617G>A	uc003qbt.2	+	21	2157	c.1987G>A	c.(1987-1989)GTC>ATC	p.V663I	L3MBTL3_uc003qbu.2_Missense_Mutation_p.V638I	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	663					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		AGAACCCACCGTCCAGCAGGC	0.527													25	64					0	0	1	0	0		A	130454617	A	A	130454617	3	1	211	1	0	0	0	0	1	0	0	0	8609	1145	40	1	2061	1	L3MBTL3	6	130454617	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2616952	130454617	40660450	652	102531											
TAAR6	319100	broad.mit.edu	37	chr6	132891738	132891738	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccttcagcatggtcaggaCggtggagagctgctggtatt	7	10	15	9	1	2	1	2	0	0	1	2	3	2	2	1	5	3	4	1	5	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:132891738C>T	uc011eck.1	+	1	278	c.278C>T	c.(277-279)ACG>ATG	p.T93M		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	93	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(2)|skin(1)	3	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.006)|GBM - Glioblastoma multiforme(226;0.00792)		ATGGTCAGGACGGTGGAGAGC	0.498													29	68					0	0	1	0	0		T	132891738	T	T	132891738	3	4	211	1	0	0	0	0	1	0	0	0	15517	536	19	1	280	1	TAAR6	6	132891738	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2437121	132891738	38223329	653	102532											
TNFAIP3	7128	broad.mit.edu	37	chr6	138201287	138201287	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgtgcctggggagggaatgCggcacccttggaagcaccat	8	6	15	12	2	0	0	0	0	0	0	0	3	0	3	4	5	3	2	4	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:138201287C>T	uc003qhr.2	+	8	2052	c.1986C>T	c.(1984-1986)TGC>TGT	p.C662C	TNFAIP3_uc003qhs.2_Silent_p.C662C	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	662	A20-type 5.|Interaction with NAF1 (By similarity).				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)|p.C662fs*36(1)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		GGAGGGAATGCGGCACCCTTG	0.502			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								11	52					0	0	1	0	0		T	138201287	T	T	138201287	2	4	211	1	0	0	0	0	0	0	0	1	16299	776	27	1		1	TNFAIP3	6	138201287	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5309549	138201287	32913780	654	102533											
ECT2L	345930	broad.mit.edu	37	chr6	139159645	139159645	+	Silent	SNP	T	C	C	0	1	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	tggccctggaagtttttaacTgaacaggtttactatttgcc	9	15	9	8	0	0	1	0	1	0	0	0	2	0	2	2	3	4	2	2	3	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:139159645T>C	uc003qif.1	+	3	439	c.336T>C	c.(334-336)ACT>ACC	p.T112T	ECT2L_uc011edq.1_Silent_p.T43T	NM_001077706	NP_001071174	Q008S8	ECT2L_HUMAN	epithelial cell transforming sequence 2	112	F-box.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity				0						AGTTTTTAACTGAACAGGTTT	0.448													11	29					0	0	1	0	0		C	139159645	C	C	139159645	2	2	211	1	0	0	0	0	0	0	0	1	4908	1567	55	3		3	ECT2L	6	139159645	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	958358	139159645	31955422	655	102534											
TXLNB	167838	broad.mit.edu	37	chr6	139583894	139583894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctcttcttcctcacgtgccCgctgaagcgcctcttcctgc	3	13	7	18	3	4	1	1	1	3	0	7	1	6	1	4	0	3	1	4	0	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:139583894C>T	uc011eds.1	-	5	869	c.704G>A	c.(703-705)CGG>CAG	p.R235Q		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	235	Potential.					cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		CTCACGTGCCCGCTGAAGCGC	0.478													17	57					0	0	1	0	0		T	139583894	T	T	139583894	3	4	211	1	0	0	0	0	1	0	0	0	16814	652	23	1	1374	1	TXLNB	6	139583894	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	424249	139583894	31531173	656	102535											
TXLNB	167838	broad.mit.edu	37	chr6	139609852	139609852	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgttaatgatgtcttccagcTgtcgattcagctcttcagag	8	15	9	9	1	4	2	2	1	2	1	6	3	5	2	1	0	2	3	1	0	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:139609852T>C	uc011eds.1	-	2	350	c.185A>G	c.(184-186)CAG>CGG	p.Q62R		NM_153235	NP_694967	Q8N3L3	TXLNB_HUMAN	taxilin beta	62						cytoplasm				large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(155;0.000185)|GBM - Glioblastoma multiforme(68;0.000235)		GTCTTCCAGCTGTCGATTCAG	0.547													48	99					0	0	1	0	0		C	139609852	C	C	139609852	3	2	211	1	0	0	0	0	1	0	0	0	16814	1580	55	3	1905	3	TXLNB	6	139609852	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	25958	139609852	31505215	657	102536											
GPR126	57211	broad.mit.edu	37	chr6	142725056	142725056	+	Silent	SNP	T	C	C	0	1	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	tccctgttaccagggacaaaTgcaatttcaaattttagcat	13	13	6	9	0	1	0	1	0	0	0	2	1	2	1	2	1	3	3	2	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:142725056T>C	uc010khc.2	+	14	2484	c.2073T>C	c.(2071-2073)AAT>AAC	p.N691N	GPR126_uc010khd.2_Silent_p.N663N|GPR126_uc010khe.2_Silent_p.N691N|GPR126_uc010khf.2_Silent_p.N663N	NM_020455	NP_065188	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 alpha 1	691	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)			OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)		CAGGGACAAATGCAATTTCAA	0.363													21	42					0	0	1	0	0		C	142725056	C	C	142725056	2	2	211	1	0	0	0	0	0	0	0	1	6655	1461	51	3		3	GPR126	6	142725056	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3115204	142725056	28390011	658	102537											
FBXO30	84085	broad.mit.edu	37	chr6	146121270	146121270	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggttttaaaactgagcgtAgtgaacgtccttctttagtg	10	14	10	7	2	1	2	0	2	1	0	2	2	2	2	1	1	3	2	1	1	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:146121270A>G	uc003qla.2	-	3	2409	c.2210T>C	c.(2209-2211)CTA>CCA	p.L737P	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	737							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		AACTGAGCGTAGTGAACGTCC	0.353													29	84					0	0	1	0	0		G	146121270	G	G	146121270	3	3	211	1	0	0	0	0	1	0	0	0	5754	420	15	3	31	3	FBXO30	6	146121270	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3396214	146121270	24993797	659	102538											
SUMO4	387082	broad.mit.edu	37	chr6	149721679	149721679	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagcctattgtgaaccacGgggattgtcagtgaagcaga	13	8	13	7	1	1	3	1	2	0	1	1	5	1	4	2	2	3	1	2	2	4	3	rs57327874	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:149721679G>A	uc003qml.2	+	1	185	c.152G>A	c.(151-153)CGG>CAG	p.R51Q	TAB2_uc011eec.1_Intron|TAB2_uc003qmj.2_Intron|TAB2_uc003qmk.3_Intron	NM_001002255	NP_001002255	Q6EEV6	SUMO4_HUMAN	SMT3 suppressor of mif two 3 homolog 4	51	Ubiquitin-like.										0		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;7.91e-12)|GBM - Glioblastoma multiforme(68;0.0282)		TGTGAACCACGGGGATTGTCA	0.433													41	134					0	0	1	0	0		A	149721679	A	A	149721679	3	1	211	1	0	0	0	0	1	0	0	0	15415	1116	39	1	154	1	SUMO4	6	149721679	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3600409	149721679	21393388	660	102539											
AKAP12	9590	broad.mit.edu	37	chr6	151672372	151672372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcagaagaagaaccccccaCggttactgaacctctgccag	12	6	9	14	1	1	4	0	1	1	3	1	4	1	4	5	1	5	2	5	1	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:151672372C>T	uc011eep.1	+	4	3086	c.2846C>T	c.(2845-2847)ACG>ATG	p.T949M	AKAP12_uc003qoe.2_Missense_Mutation_p.T949M|AKAP12_uc003qof.2_Missense_Mutation_p.T851M|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.T844M	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	949					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GAACCCCCCACGGTTACTGAA	0.527													29	71					0	0	1	0	0		T	151672372	T	T	151672372	3	4	211	1	0	0	0	0	1	0	0	0	448	536	19	1	2885	1	AKAP12	6	151672372	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1950693	151672372	19442695	661	102540											
AKAP12	9590	broad.mit.edu	37	chr6	151672999	151673000	+	Frame_Shift_Ins	INS	-	C	C																															atggtgatggaacaggctatINScccccctgactcggtggaaa																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:151672999_151673000insC	uc011eep.1	+	4	3713_3714	c.3473_3474insC	c.(3472-3474)ATCfs	p.I1158fs	AKAP12_uc003qoe.2_Frame_Shift_Ins_p.I1158fs|AKAP12_uc003qof.2_Frame_Shift_Ins_p.I1060fs|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Frame_Shift_Ins_p.I1053fs	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	1158					G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		GAACAGGCTATCCCCCCTGACT	0.53													49	92	---	---	---	---						.	C	151673000	C	C	151672999	7	5	211	1	0	1	1	0	0	0	0	0	448	1435	50	0	3512	0	AKAP12	6	151672999	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	627	151672999	19442068	662	102541											
RMND1	55005	broad.mit.edu	37	chr6	151766691	151766691	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttcatcttggcaacgagCagcatttaatggagacagca	12	11	9	9	1	2	1	1	0	1	1	2	3	2	1	0	2	4	4	0	2	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:151766691C>T	uc003qoi.2	-	2	436	c.256G>A	c.(256-258)GCT>ACT	p.A86T	RMND1_uc011eeq.1_5'Flank|RMND1_uc003qoj.2_Missense_Mutation_p.A86T|RMND1_uc011eer.1_Missense_Mutation_p.A86T	NM_017909	NP_060379	Q9NWS8	RMND1_HUMAN	required for meiotic nuclear division 1 homolog	86											0		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.146)	OV - Ovarian serous cystadenocarcinoma(155;6.8e-11)		TGGCAACGAGCAGCATTTAAT	0.423													58	168					0	0	1	0	0		T	151766691	T	T	151766691	3	4	211	1	0	0	0	0	1	0	0	0	13421	710	25	2	1137	2	RMND1	6	151766691	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	93692	151766691	19348376	663	102542											
SYNE1	23345	broad.mit.edu	37	chr6	152473123	152473123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcaagatggaggtgacacGcttttgcaggttgtcccatc	8	10	13	10	2	0	2	0	1	0	1	2	3	1	3	1	3	1	4	1	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:152473123G>A	uc010kiw.2	-	134	24885	c.24283C>T	c.(24283-24285)CGT>TGT	p.R8095C	SYNE1_uc010kiv.2_Missense_Mutation_p.R2619C|SYNE1_uc003qos.3_Missense_Mutation_p.R2619C|SYNE1_uc003qot.3_Missense_Mutation_p.R8024C|SYNE1_uc003qou.3_Missense_Mutation_p.R8095C|SYNE1_uc003qop.3_Missense_Mutation_p.R257C|SYNE1_uc011eez.1_Missense_Mutation_p.R297C|SYNE1_uc003qoq.3_Missense_Mutation_p.R297C|SYNE1_uc003qor.3_Missense_Mutation_p.R995C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	8095	Spectrin 29.|Cytoplasmic (Potential).		R -> H (in EDMD4).		cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GAGGTGACACGCTTTTGCAGG	0.527										HNSCC(10;0.0054)			10	41					0	0	1	0	0		A	152473123	A	A	152473123	3	1	211	1	0	0	0	0	1	0	0	0	15470	1087	38	1	2235	1	SYNE1	6	152473123	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	706432	152473123	18641944	664	102543											
SYNE1	23345	broad.mit.edu	37	chr6	152841622	152841622	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcgaggaacttgagtgccGtgccaatgttagccacagca	10	9	11	11	2	0	1	0	1	0	0	1	3	0	2	3	1	5	2	3	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:152841622G>A	uc010kiw.2	-	6	883	c.281C>T	c.(280-282)ACG>ATG	p.T94M	SYNE1_uc003qot.3_Missense_Mutation_p.T94M|SYNE1_uc003qou.3_Missense_Mutation_p.T94M|SYNE1_uc010kjb.1_Missense_Mutation_p.T94M|SYNE1_uc003qpa.1_Missense_Mutation_p.T94M	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	94	Actin-binding.|Cytoplasmic (Potential).|CH 1.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTTGAGTGCCGTGCCAATGTT	0.443										HNSCC(10;0.0054)			42	131					0	0	1	0	0		A	152841622	A	A	152841622	3	1	211	1	0	0	0	0	1	0	0	0	15470	1145	40	1	26774	1	SYNE1	6	152841622	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	368499	152841622	18273445	665	102544											
TIAM2	26230	broad.mit.edu	37	chr6	155465747	155465747	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgtttcacaggatgcacGctgctgttttatgagaccta	8	14	9	10	1	2	1	1	1	1	1	2	3	2	2	1	1	2	5	1	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:155465747G>A	uc003qqb.2	+	8	2911	c.1638G>A	c.(1636-1638)ACG>ACA	p.T546T	TIAM2_uc003qqe.2_Silent_p.T546T|TIAM2_uc010kjj.2_Silent_p.T79T	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	546	PH 1.				apoptosis|cellular lipid metabolic process|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|filopodium|growth cone|lamellipodium	receptor signaling protein activity|Rho guanyl-nucleotide exchange factor activity			ovary(3)|breast(1)	4		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;8.1e-13)|BRCA - Breast invasive adenocarcinoma(81;0.0053)		CAGGATGCACGCTGCTGTTTT	0.483													21	75					0	0	1	0	0		A	155465747	A	A	155465747	2	1	211	1	0	0	0	0	0	0	0	1	15916	1074	38	1		1	TIAM2	6	155465747	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2624125	155465747	15649320	666	102545											
IGF2R	3482	broad.mit.edu	37	chr6	160494501	160494501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgctggcctgcgagcaagcGgtgagttttcagatgggcac	7	8	15	11	3	1	2	1	1	0	1	1	3	1	2	2	3	3	4	2	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:160494501G>A	uc003qta.2	+	34	5095	c.4947G>A	c.(4945-4947)GCG>GCA	p.A1649A		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1649	11.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GCGAGCAAGCGGTGAGTTTTC	0.607													18	40					0	0	1	0	0		A	160494501	A	A	160494501	2	1	211	1	0	0	0	0	0	0	0	1	7592	1130	39	1		1	IGF2R	6	160494501	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5028754	160494501	10620566	667	102546											
RPS6KA2	6196	broad.mit.edu	37	chr6	166883342	166883342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacttacgttccagtctatgGtcacaaagaagggatggcgc	12	9	11	9	2	2	1	1	0	1	1	3	2	3	2	1	3	2	1	1	3	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:166883342G>A	uc003qvb.1	-	11	1178	c.959C>T	c.(958-960)ACC>ATC	p.T320I	RPS6KA2_uc011ego.1_Missense_Mutation_p.T231I|RPS6KA2_uc010kkl.1_Missense_Mutation_p.T231I|RPS6KA2_uc003qvc.1_Missense_Mutation_p.T328I|RPS6KA2_uc003qvd.1_Missense_Mutation_p.T345I	NM_021135	NP_066958	Q15349	KS6A2_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	320	AGC-kinase C-terminal.				axon guidance|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|synaptic transmission|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|skin(2)|large_intestine(1)|central_nervous_system(1)	8		Breast(66;2.04e-05)|Ovarian(120;0.0652)|Prostate(117;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.76e-18)|GBM - Glioblastoma multiforme(31;9.94e-06)|BRCA - Breast invasive adenocarcinoma(81;1.36e-05)		CCAGTCTATGGTCACAAAGAA	0.517													19	50					0	0	1	0	0		A	166883342	A	A	166883342	3	1	211	1	0	0	0	0	1	0	0	0	13676	1261	44	4	1286	4	RPS6KA2	6	166883342	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6388841	166883342	4231725	668	102547											
TCP10L2	401285	broad.mit.edu	37	chr6	167592007	167592007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgactcccggtgcagaaagaCgggaggtgtctgaagacgga	11	5	16	9	4	1	4	0	1	1	3	2	7	2	6	1	4	1	1	1	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:167592007C>T	uc010kkp.2	+	5	765	c.634C>T	c.(634-636)CGG>TGG	p.R212W		NM_001145121	NP_001138593	B9ZVM9	B9ZVM9_HUMAN	t-complex 10-like 2	212											0						TGCAGAAAGACGGGAGGTGTC	0.527													17	61					0	0	1	0	0		T	167592007	T	T	167592007	3	4	211	1	0	0	0	0	1	0	0	0	15737	527	19	1	648	1	TCP10L2	6	167592007	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	708665	167592007	3523060	669	102548											
THBS2	7058	broad.mit.edu	37	chr6	169629757	169629757	+	Silent	SNP	C	T	T	0	0	0	1	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	tcttcctgcccagaatttggCagatgggggcagttatcctg	7	12	12	10	0	1	2	0	0	1	2	3	2	3	2	3	3	1	3	3	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr6:169629757C>T	uc003qwt.2	-	15	2417	c.2169G>A	c.(2167-2169)CTG>CTA	p.L723L		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	723	TSP type-3 1.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CAGAATTTGGCAGATGGGGGC	0.478													26	71					0	0	1	0	0		T	169629757	T	T	169629757	2	4	211	1	0	0	0	0	0	0	0	1	15879	697	25	2		2	THBS2	6	169629757	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2037750	169629757	1485310	670	102549											
HEATR2	54919	broad.mit.edu	37	chr7	796463	796463	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggacgtttgtcagccctgaGgtgtttctgaagctgatctt	6	14	13	8	1	3	3	1	3	2	0	3	4	3	4	1	2	2	3	1	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:796463G>T	uc010krz.1	+	6	1322	c.1302G>T	c.(1300-1302)GAG>GAT	p.E434D	HEATR2_uc003siz.2_Missense_Mutation_p.E302D	NM_017802	NP_060272	Q86Y56	HEAT2_HUMAN	HEAT repeat containing 2	434							protein binding			skin(1)	1		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0182)|Epithelial(4;5.48e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.95e-16)|all cancers(6;2.98e-14)		TCAGCCCTGAGGTGTTTCTGA	0.607													34	205					1.67305e-13	1.80659e-13	1	1	0		T	796463	T	T	796463	3	4	211	1	0	0	0	0	1	0	0	0	7044	991	35	5	1324	5	HEATR2	7	796463	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08		796463	158342200	671	102550											
SUN1	23353	broad.mit.edu	37	chr7	899919	899919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgcagctgcagatcctgcGgaacgtcacccaccacgttt	8	8	9	16	3	1	1	1	0	0	1	2	2	2	2	4	1	5	4	4	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:899919G>A	uc011jvp.1	+	15	1758	c.1679G>A	c.(1678-1680)CGG>CAG	p.R560Q	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.R477Q|SUN1_uc011jvq.1_Missense_Mutation_p.R457Q|SUN1_uc003sjg.2_Missense_Mutation_p.R465Q|SUN1_uc011jvr.1_Missense_Mutation_p.R358Q|SUN1_uc003sji.2_Missense_Mutation_p.R398Q|SUN1_uc003sjk.2_Missense_Mutation_p.R199Q	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	587	Perinuclear space.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						CAGATCCTGCGGAACGTCACC	0.597													19	68					0	0	1	0	0		A	899919	A	A	899919	3	1	211	1	0	0	0	0	1	0	0	0	15416	1116	39	1	1916	1	SUN1	7	899919	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	103456	899919	158238744	672	102551											
GPER	2852	broad.mit.edu	37	chr7	1131765	1131765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtcctgtgcaccttcatgtCgctcttcctgcaggtcaaca	6	12	8	15	2	3	0	2	0	1	0	6	0	5	0	3	1	3	3	3	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:1131765C>T	uc010ksd.1	+	2	790	c.401C>T	c.(400-402)TCG>TTG	p.S134L	C7orf50_uc003sju.2_Intron|C7orf50_uc011jvt.1_Intron|C7orf50_uc011jvu.1_Intron|GPER_uc003sjz.1_Missense_Mutation_p.S134L|GPER_uc003ska.1_Missense_Mutation_p.S134L|GPER_uc003skb.2_Missense_Mutation_p.S134L	NM_001098201	NP_001091671	Q99527	GPER_HUMAN	G protein-coupled receptor 30	134	Helical; Name=3; (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;2.32e-16)		ACCTTCATGTCGCTCTTCCTG	0.612													96	81					0	0	1	0	0		T	1131765	T	T	1131765	3	4	211	1	0	0	0	0	1	0	0	0	6622	893	31	1	403	1	GPER	7	1131765	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	231846	1131765	158006898	673	102552											
INTS1	26173	broad.mit.edu	37	chr7	1538480	1538480	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcagcaggtcctgggccggCcgggtcagctgcggggccga	5	5	18	13	4	2	0	2	0	0	0	3	1	3	0	4	6	3	2	4	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:1538480C>T	uc003skn.2	-	9	1247	c.1146G>A	c.(1144-1146)CGG>CGA	p.R382R	INTS1_uc003skq.2_Silent_p.R382R	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	382					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CCTGGGCCGGCCGGGTCAGCT	0.657													3	26					0	0	1	0	0		T	1538480	T	T	1538480	2	4	211	1	0	0	0	0	0	0	0	1	7791	726	26	2		2	INTS1	7	1538480	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	406715	1538480	157600183	674	102553											
AMZ1	155185	broad.mit.edu	37	chr7	2752035	2752035	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcgggggagccgtcagtgtgGgaggacaccccgcctgccag	6	4	18	13	3	1	0	1	0	0	0	1	3	1	3	5	4	2	0	5	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:2752035G>A	uc003smr.1	+	7	1381	c.1020G>A	c.(1018-1020)TGG>TGA	p.W340*	AMZ1_uc003sms.1_Missense_Mutation_p.G284R|AMZ1_uc011jwa.1_Nonsense_Mutation_p.W89*	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	340							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		CGTCAGTGTGGGAGGACACCC	0.667													11	43					0	0	1	0	0		A	2752035	A	A	2752035	4	1	211	1	0	0	0	0	0	1	0	0	596	1241	43	4	1042	4	AMZ1	7	2752035	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1213555	2752035	156386628	675	102554											
SDK1	221935	broad.mit.edu	37	chr7	4153777	4153777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccaagtcgtcagtgacCggctggagagagaattcacc	10	7	13	11	2	2	3	2	1	0	2	3	5	2	3	3	3	0	1	3	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:4153777C>T	uc003smx.2	+	25	3833	c.3694C>T	c.(3694-3696)CGG>TGG	p.R1232W	SDK1_uc010kso.2_Missense_Mutation_p.R508W	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1232	Fibronectin type-III 6.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CGTCAGTGACCGGCTGGAGAG	0.602													17	95					0	0	1	0	0		T	4153777	T	T	4153777	3	4	211	1	0	0	0	0	1	0	0	0	13993	643	23	1	3792	1	SDK1	7	4153777	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1401742	4153777	154984886	676	102555											
KIAA0415	9907	broad.mit.edu	37	chr7	4830330	4830330	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatcggcgagtacctgtcGgtgacctacgatcggaggtg	7	8	15	11	5	0	1	0	1	0	0	3	4	0	2	3	4	2	1	3	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:4830330G>A	uc003sne.2	+	16	2048	c.1965G>A	c.(1963-1965)TCG>TCA	p.S655S	KIAA0415_uc010ksp.2_RNA|KIAA0415_uc003snf.2_Silent_p.S132S	NM_014855	NP_055670	O43299	K0415_HUMAN	hypothetical protein LOC9907	655					cell death|double-strand break repair via homologous recombination	cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.091)|OV - Ovarian serous cystadenocarcinoma(56;8.35e-15)		AGTACCTGTCGGTGACCTACG	0.657													4	31					0	0	1	0	0		A	4830330	A	A	4830330	2	1	211	1	0	0	0	0	0	0	0	1	8191	1103	39	1		1	KIAA0415	7	4830330	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	676553	4830330	154308333	677	102556											
PAPOLB	56903	broad.mit.edu	37	chr7	4899860	4899860	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catgctgttttcacagcctgCagacaagtcaaagctgctgt	10	11	9	11	0	2	1	2	0	0	1	2	1	2	1	1	0	5	5	1	0	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:4899860C>T	uc003snk.2	-	1	1766	c.1582G>A	c.(1582-1584)GCA>ACA	p.A528T	RADIL_uc003sng.1_Intron|RADIL_uc011jwd.1_Intron|RADIL_uc003snj.1_Intron	NM_020144	NP_064529	Q9NRJ5	PAPOB_HUMAN	poly(A) polymerase beta (testis specific)	527					mRNA processing|RNA polyadenylation|transcription, DNA-dependent	nucleus	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity|RNA binding			ovary(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.089)|OV - Ovarian serous cystadenocarcinoma(56;2.06e-14)		TCACAGCCTGCAGACAAGTCA	0.478													24	126					0	0	1	0	0		T	4899860	T	T	4899860	3	4	211	1	0	0	0	0	1	0	0	0	11449	710	25	2	335	2	PAPOLB	7	4899860	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	69530	4899860	154238803	678	102557											
MMD2	221938	broad.mit.edu	37	chr7	4947141	4947141	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccagatggcgtgggcaaaGgggatcctcccgtcactctt	7	9	13	12	2	2	1	1	0	1	1	4	2	4	2	3	4	1	1	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:4947141G>A	uc003sno.3	-	7	895	c.699C>T	c.(697-699)CCC>CCT	p.P233P	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Silent_p.P209P|MMD2_uc010ksq.2_3'UTR	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	233	Cytoplasmic (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		CGTGGGCAAAGGGGATCCTCC	0.582													8	135					0	0	1	0	0		A	4947141	A	A	4947141	2	1	211	1	0	0	0	0	0	0	0	1	9662	987	35	4		4	MMD2	7	4947141	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	47281	4947141	154191522	679	102558											
WIPI2	26100	broad.mit.edu	37	chr7	5266847	5266847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accacctggaccgggtacttCgggaaagtgctcatggcctc	8	8	12	13	2	1	0	1	0	0	0	3	2	1	2	4	4	2	2	4	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:5266847C>T	uc003snv.2	+	10	1101	c.885C>T	c.(883-885)TTC>TTT	p.F295F	WIPI2_uc003snw.2_Silent_p.F295F|WIPI2_uc003snx.2_Silent_p.F277F|WIPI2_uc003sny.2_Silent_p.F277F|WIPI2_uc010ksv.2_Silent_p.F151F|WIPI2_uc003soa.2_Silent_p.F236F|WIPI2_uc003sob.2_Silent_p.F38F	NM_015610	NP_056425	Q9Y4P8	WIPI2_HUMAN	WD repeat domain, phosphoinositide interacting 2	295					autophagic vacuole assembly	cytosol|PAS complex|pre-autophagosomal structure membrane	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding			ovary(2)	2		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0925)|OV - Ovarian serous cystadenocarcinoma(56;2.59e-14)		CCGGGTACTTCGGGAAAGTGC	0.632													87	122					0	0	1	0	0		T	5266847	T	T	5266847	2	4	211	1	0	0	0	0	0	0	0	1	17397	883	31	1		1	WIPI2	7	5266847	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	319706	5266847	153871816	680	102559											
TNRC18	84629	broad.mit.edu	37	chr7	5410321	5410321	+	Frame_Shift_Del	DEL	C	-	-																															caggctcgggcactgtccctCcccggcgggcacgtcacagt																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:5410321delC	uc003soi.3	-	11	4253	c.3904delG	c.(3904-3906)GAGfs	p.E1302fs		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	1302							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		CACTGTCCCTCCCCGGCGGGC	0.672													28	18	---	---	---	---						.	-	5410321	-	-	5410321	7	5	211	1	0	1	0	1	0	0	0	0	16364	864	30	0	5082	0	TNRC18	7	5410321	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	143474	5410321	153728342	681	102560											
GLCCI1	113263	broad.mit.edu	37	chr7	8124630	8124630	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggatgtgagcgagtgaaGgtctttgaggaaatggcgta	11	9	18	3	2	1	3	0	3	1	0	1	7	1	5	0	4	1	1	0	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:8124630G>T	uc003srk.2	+	7	1840	c.1281G>T	c.(1279-1281)AAG>AAT	p.K427N		NM_138426	NP_612435	Q86VQ1	GLCI1_HUMAN	glucocorticoid induced transcript 1	427											0		Ovarian(82;0.0608)		UCEC - Uterine corpus endometrioid carcinoma (126;0.206)		AGCGAGTGAAGGTCTTTGAGG	0.453													27	50					1.80694e-10	1.91843e-10	1	1	0		T	8124630	T	T	8124630	3	4	211	1	0	0	0	0	1	0	0	0	6446	991	35	5	1307	5	GLCCI1	7	8124630	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2714309	8124630	151014033	682	102561											
PHF14	9678	broad.mit.edu	37	chr7	11062500	11062500	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcttctcttcttagatgggTtcatattgtttgtgccctgt	5	20	8	8	0	4	1	1	0	3	1	5	1	4	1	1	1	1	2	1	1	2	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:11062500T>A	uc003sry.1	+	6	1646	c.1211T>A	c.(1210-1212)GTT>GAT	p.V404D	PHF14_uc011jxi.1_Missense_Mutation_p.V119D|PHF14_uc003srz.2_Missense_Mutation_p.V404D|PHF14_uc011jxj.1_Missense_Mutation_p.V119D	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	404							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		CTTAGATGGGTTCATATTGTT	0.338													11	8					0	0	1	0	0		A	11062500	A	A	11062500	3	1	211	1	0	0	0	0	1	0	0	0	11844	1725	60	5	1233	5	PHF14	7	11062500	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2937870	11062500	148076163	683	102562											
NUPL2	11097	broad.mit.edu	37	chr7	23239157	23239157	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagcagcaacatttatgtcGccaggtaagtgataaagtaa	16	9	9	7	1	0	1	0	1	0	0	1	1	0	1	1	1	3	4	1	1	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:23239157G>A	uc003svu.2	+	6	949	c.690G>A	c.(688-690)TCG>TCA	p.S230S	NUPL2_uc003svv.2_RNA|NUPL2_uc003svw.2_Silent_p.S107S|NUPL2_uc011jyw.1_RNA|NUPL2_uc003svx.2_Silent_p.S107S|NUPL2_uc011jyx.1_Silent_p.S2S	NM_007342	NP_031368	O15504	NUPL2_HUMAN	nucleoporin like 2	230					carbohydrate metabolic process|glucose transport|mRNA transport|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear membrane|nuclear pore	nuclear export signal receptor activity|nucleic acid binding|zinc ion binding			skin(2)|ovary(1)	3						CATTTATGTCGCCAGGTAAGT	0.363													47	91					0	0	1	0	0		A	23239157	A	A	23239157	2	1	211	1	0	0	0	0	0	0	0	1	10794	1074	38	1		1	NUPL2	7	23239157	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	12176657	23239157	135899506	684	102563											
C7orf30	115416	broad.mit.edu	37	chr7	23339094	23339094	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggctgctggccgtgcagcgGcttcccgtaggagcagcgtt	4	8	16	13	5	0	0	0	0	0	0	1	1	1	1	2	4	5	7	2	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:23339094G>A	uc003swd.1	+	1	155	c.123G>A	c.(121-123)CGG>CGA	p.R41R		NM_138446	NP_612455	Q96EH3	CG030_HUMAN	hypothetical protein LOC115416	41						mitochondrion					0			GBM - Glioblastoma multiforme(13;0.154)			CCGTGCAGCGGCTTCCCGTAG	0.726													10	48					0	0	1	0	0		A	23339094	A	A	23339094	2	1	211	1	0	0	0	0	0	0	0	1	2389	1190	42	2		2	C7orf30	7	23339094	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	99937	23339094	135799569	685	102564											
MPP6	51678	broad.mit.edu	37	chr7	24720064	24720064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctatgtggtatttattgcGgctccggagctagagacgtt	7	13	12	9	3	0	1	0	0	0	1	1	3	1	2	2	3	2	4	2	3	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:24720064G>A	uc003swx.2	+	12	1670	c.1371G>A	c.(1369-1371)GCG>GCA	p.A457A	MPP6_uc003swy.2_Silent_p.A457A|MPP6_uc010kur.2_Silent_p.A125A	NM_016447	NP_057531	Q9NZW5	MPP6_HUMAN	membrane protein, palmitoylated 6	457	Guanylate kinase-like.				protein complex assembly		protein binding				0						TATTTATTGCGGCTCCGGAGC	0.418													31	110					0	0	1	0	0		A	24720064	A	A	24720064	2	1	211	1	0	0	0	0	0	0	0	1	9756	1103	39	1		1	MPP6	7	24720064	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1380970	24720064	134418599	686	102565											
HOXA7	3204	broad.mit.edu	37	chr7	27194754	27194754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaatgcggcggcgccgcGtcaggtagcggttgaagtgg	6	9	17	9	6	2	1	2	1	0	0	2	1	2	1	1	5	2	2	1	5	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:27194754G>A	uc003sys.2	-	2	599	c.467C>T	c.(466-468)ACG>ATG	p.T156M	HOXA6_uc003syq.1_5'Flank|uc003syr.1_3'UTR	NM_006896	NP_008827	P31268	HXA7_HUMAN	homeobox A7	156	Homeobox.				angiogenesis|negative regulation of cell-matrix adhesion|negative regulation of keratinocyte differentiation|negative regulation of leukocyte migration|negative regulation of monocyte differentiation|negative regulation of transcription from RNA polymerase II promoter		sequence-specific DNA binding|transcription factor binding				0						GCGGCGCCGCGTCAGGTAGCG	0.602													50	228					0	0	1	0	0		A	27194754	A	A	27194754	3	1	211	1	0	0	0	0	1	0	0	0	7313	1145	40	1	229	1	HOXA7	7	27194754	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2474690	27194754	131943909	687	102566											
PLEKHA8	84725	broad.mit.edu	37	chr7	30094883	30094883	+	Missense_Mutation	SNP	A	G	G	1	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	aattatgtagctttagtgacAttgaacttctggaagacagt	13	14	9	5	0	1	3	0	2	1	1	1	4	1	4	0	1	2	2	0	1	6	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:30094883A>G	uc003tam.1	+	9	1055	c.964A>G	c.(964-966)ATT>GTT	p.I322V	PLEKHA8_uc003tao.2_Missense_Mutation_p.I206V|PLEKHA8_uc003tap.1_Missense_Mutation_p.I322V|PLEKHA8_uc003tan.2_Missense_Mutation_p.I322V	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	322					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						CTTTAGTGACATTGAACTTCT	0.413													72	102					0	0	1	0	0		G	30094883	G	G	30094883	3	3	211	1	0	0	0	0	1	0	0	0	12081	217	8	3	998	3	PLEKHA8	7	30094883	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2900129	30094883	129043780	688	102567											
NEUROD6	63974	broad.mit.edu	37	chr7	31378410	31378410	+	Missense_Mutation	SNP	A	G	G	1	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	agttttggacgaatgtgagcAgatctggtctcttgccgatt	8	14	12	7	2	2	2	0	1	2	1	3	5	2	3	1	2	2	2	1	2	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:31378410A>G	uc003tch.2	-	2	826	c.473T>C	c.(472-474)CTG>CCG	p.L158P		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	158					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						GAATGTGAGCAGATCTGGTCT	0.463													21	76					0	0	1	0	0		G	31378410	G	G	31378410	3	3	211	1	0	0	0	0	1	0	0	0	10370	188	7	3	544	3	NEUROD6	7	31378410	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1283527	31378410	127760253	689	102568											
KBTBD2	25948	broad.mit.edu	37	chr7	32909627	32909627	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catctttctcagtgtcgtatCtttctacggtcctccgatta	6	17	6	12	3	4	0	1	0	4	0	8	1	6	0	2	1	1	1	2	1	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:32909627C>A	uc003tdb.2	-	4	1861	c.1202G>T	c.(1201-1203)AGA>ATA	p.R401I	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	401	Kelch 2.										0			GBM - Glioblastoma multiforme(11;0.0499)			AGTGTCGTATCTTTCTACGGT	0.453													24	113					4.7796e-09	5.01509e-09	1	1	0		A	32909627	A	A	32909627	3	1	211	1	0	0	0	0	1	0	0	0	8009	913	32	5	673	5	KBTBD2	7	32909627	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1531217	32909627	126229036	690	102569											
EEPD1	80820	broad.mit.edu	37	chr7	36194488	36194488	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggatggatggtatcaatgcCgccttcctggacaggatccg	9	9	13	10	2	1	0	1	0	0	0	3	4	3	4	4	5	1	1	4	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:36194488C>T	uc003tfa.2	+	2	1195	c.555C>T	c.(553-555)GCC>GCT	p.A185A		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	185					DNA repair		DNA binding				0						GTATCAATGCCGCCTTCCTGG	0.617													21	72					0	0	1	0	0		T	36194488	T	T	36194488	2	4	211	1	0	0	0	0	0	0	0	1	4938	639	23	1		1	EEPD1	7	36194488	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3284861	36194488	122944175	691	102570											
TXNDC3	51314	broad.mit.edu	37	chr7	37890310	37890310	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaattgaaaaatgaactgaaCgaagacgaaattctgcattt	19	10	7	5	2	1	4	0	3	1	1	1	6	1	4	0	0	3	1	0	0	7	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:37890310C>T	uc003tfn.2	+	5	543	c.171C>T	c.(169-171)AAC>AAT	p.N57N		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	57	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3						ATGAACTGAACGAAGACGAAA	0.313									Kartagener_syndrome				13	91					0	0	1	0	0		T	37890310	T	T	37890310	2	4	211	1	0	0	0	0	0	0	0	1	16824	535	19	1		1	TXNDC3	7	37890310	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1695822	37890310	121248353	692	102571											
C7orf25	79020	broad.mit.edu	37	chr7	42949913	42949913	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagggtgatctaacagagcgTtgactgctactatgtctcct	9	12	10	10	1	2	3	0	2	2	1	3	3	2	3	1	1	4	2	1	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:42949913T>C	uc003thw.2	-	2	1051	c.587A>G	c.(586-588)AAC>AGC	p.N196S	C7orf25_uc010kxq.2_Missense_Mutation_p.N196S|C7orf25_uc003thx.3_Missense_Mutation_p.N254S|C7orf25_uc010kxr.2_Missense_Mutation_p.N254S	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	196										skin(1)	1						TAACAGAGCGTTGACTGCTAC	0.468													22	48					0	0	1	0	0		C	42949913	C	C	42949913	3	2	211	1	0	0	0	0	1	0	0	0	2383	1725	60	3	682	3	C7orf25	7	42949913	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	5059603	42949913	116188750	693	102572											
HECW1	23072	broad.mit.edu	37	chr7	43547711	43547711	+	Missense_Mutation	SNP	A	G	G	1	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	agcgaaacaagctctacgtcAcctttgttggagaggagggg	11	8	14	8	2	2	1	1	0	1	1	2	4	2	2	1	4	4	2	1	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:43547711A>G	uc003tid.1	+	23	4452	c.3847A>G	c.(3847-3849)ACC>GCC	p.T1283A	HECW1_uc011kbi.1_Missense_Mutation_p.T1249A	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1283	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						GCTCTACGTCACCTTTGTTGG	0.522													10	52					0	0	1	0	0		G	43547711	G	G	43547711	3	3	211	1	0	0	0	0	1	0	0	0	7058	159	6	3	3929	3	HECW1	7	43547711	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	597798	43547711	115590952	694	102573											
URGCP	55665	broad.mit.edu	37	chr7	43917048	43917048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagccctgtgacccagcggaCgggcatgctcagcgtgctcc	6	6	14	15	3	1	1	1	1	0	0	2	3	2	2	3	2	5	3	3	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:43917048C>T	uc003tiw.2	-	6	2071	c.2014G>A	c.(2014-2016)GTC>ATC	p.V672I	URGCP_uc003tiu.2_Missense_Mutation_p.V629I|URGCP_uc003tiv.2_Missense_Mutation_p.V597I|URGCP_uc003tix.2_Missense_Mutation_p.V663I|URGCP_uc003tiy.2_Missense_Mutation_p.V629I|URGCP_uc003tiz.2_Missense_Mutation_p.V629I|URGCP_uc011kbj.1_Missense_Mutation_p.V629I	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	672					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						ACCCAGCGGACGGGCATGCTC	0.647													10	44					0	0	1	0	0		T	43917048	T	T	43917048	3	4	211	1	0	0	0	0	1	0	0	0	17052	536	19	1	785	1	URGCP	7	43917048	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	369337	43917048	115221615	695	102574											
DBNL	28988	broad.mit.edu	37	chr7	44099178	44099178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccggcgcccagcactcctcCatgtctggtgcaggcagaag	7	6	13	15	2	1	1	0	0	1	1	3	1	3	1	4	3	2	3	4	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:44099178C>T	uc003tjp.3	+	11	1066	c.968C>T	c.(967-969)CCA>CTA	p.P323L	DBNL_uc003tjo.3_Missense_Mutation_p.P324L|DBNL_uc003tjr.3_Missense_Mutation_p.P196L|DBNL_uc003tjq.3_Missense_Mutation_p.P332L|DBNL_uc011kbm.1_Missense_Mutation_p.P299L|DBNL_uc011kbn.1_Missense_Mutation_p.P220L|DBNL_uc011kbo.1_Missense_Mutation_p.P224L|DBNL_uc011kbp.1_Missense_Mutation_p.P275L|DBNL_uc011kbq.1_Missense_Mutation_p.P248L|DBNL_uc011kbr.1_Missense_Mutation_p.P272L|DBNL_uc011kbs.1_Missense_Mutation_p.P228L	NM_001014436	NP_001014436	Q9UJU6	DBNL_HUMAN	drebrin-like isoform b	323					activation of JUN kinase activity|cellular component disassembly involved in apoptosis|endocytosis|Rac protein signal transduction	cell cortex|cytoskeleton|cytosol|lamellipodium	actin binding|enzyme activator activity|identical protein binding			skin(1)	1						AGCACTCCTCCATGTCTGGTG	0.617													8	35					0	0	1	0	0		T	44099178	T	T	44099178	3	4	211	1	0	0	0	0	1	0	0	0	4258	594	21	4	1037	4	DBNL	7	44099178	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	182130	44099178	115039485	696	102575											
ADCY1	107	broad.mit.edu	37	chr7	45750148	45750148	+	Missense_Mutation	SNP	T	A	A	0	1	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	catcaatgttggccctgtggTggctggagtgattggcgctc	5	12	15	9	1	1	1	1	1	0	0	2	2	1	2	1	5	0	3	1	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:45750148T>A	uc003tne.3	+	19	2972	c.2954T>A	c.(2953-2955)GTG>GAG	p.V985E		NM_021116	NP_066939	Q08828	ADCY1_HUMAN	adenylate cyclase 1	985	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|calmodulin binding|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6					Adenosine(DB00640)|Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	GGCCCTGTGGTGGCTGGAGTG	0.577													20	111					0	0	1	0	0		A	45750148	A	A	45750148	3	1	211	1	0	0	0	0	1	0	0	0	292	1696	59	5	3028	5	ADCY1	7	45750148	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1650970	45750148	113388515	697	102576											
PKD1L1	168507	broad.mit.edu	37	chr7	47876598	47876598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaggacacggtgaggcgcGgcgtgtgcaggtagcggctg	8	5	20	8	5	0	2	0	1	0	1	0	3	0	3	0	6	2	3	0	6	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:47876598G>A	uc003tny.1	-	37	5864	c.5864C>T	c.(5863-5865)CCG>CTG	p.P1955L		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1955	Cytoplasmic (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GGTGAGGCGCGGCGTGTGCAG	0.582													13	46					0	0	1	0	0		A	47876598	A	A	47876598	3	1	211	1	0	0	0	0	1	0	0	0	11983	1116	39	1	2769	1	PKD1L1	7	47876598	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2126450	47876598	111262065	698	102577											
PKD1L1	168507	broad.mit.edu	37	chr7	47917170	47917170	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacctgacaggccatgtcccGaggagccgggttgactgtca	8	7	13	13	2	1	2	1	2	0	0	2	4	2	3	4	3	1	1	4	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:47917170G>A	uc003tny.1	-	22	3580	c.3580C>T	c.(3580-3582)CGG>TGG	p.R1194W		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1194	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GCCATGTCCCGAGGAGCCGGG	0.542													46	68					0	0	1	0	0		A	47917170	A	A	47917170	3	1	211	1	0	0	0	0	1	0	0	0	11983	1057	37	1	5113	1	PKD1L1	7	47917170	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	40572	47917170	111221493	699	102578											
POM121L12	285877	broad.mit.edu	37	chr7	53103537	53103537	+	Missense_Mutation	SNP	T	C	C	0	1	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	tccctggcccctgaggtcccTgactcagagccatattcagt	7	10	9	15	0	2	3	2	2	0	1	4	3	4	3	5	2	1	0	5	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:53103537T>C	uc003tpz.2	+	1	189	c.173T>C	c.(172-174)CTG>CCG	p.L58P		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	58											0						CTGAGGTCCCTGACTCAGAGC	0.711													23	89					0	0	1	0	0		C	53103537	C	C	53103537	3	2	211	1	0	0	0	0	1	0	0	0	12260	1580	55	3	175	3	POM121L12	7	53103537	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	5186367	53103537	106035126	700	102579											
LANCL2	55915	broad.mit.edu	37	chr7	55467786	55467786	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caggcaccgtgtgtgagtcaGctattaaagaggtactatgg	11	10	13	7	1	1	2	1	1	0	1	1	2	1	2	1	3	2	3	1	3	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:55467786G>T	uc003tqp.2	+	4	1245	c.667G>T	c.(667-669)GCT>TCT	p.A223S		NM_018697	NP_061167	Q9NS86	LANC2_HUMAN	LanC lantibiotic synthetase component C-like 2	223					negative regulation of transcription, DNA-dependent|positive regulation of abscisic acid mediated signaling pathway	cortical actin cytoskeleton|cytosol|nucleus|plasma membrane	ATP binding|catalytic activity|GTP binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4-phosphate binding|phosphatidylinositol-5-phosphate binding			ovary(1)|skin(1)	2	Breast(14;0.0379)		Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00128)|Epithelial(13;0.0706)			GTGTGAGTCAGCTATTAAAGA	0.453													24	149					1.77063e-15	1.91774e-15	1	1	0		T	55467786	T	T	55467786	3	4	211	1	0	0	0	0	1	0	0	0	8637	971	34	5	681	5	LANCL2	7	55467786	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2364249	55467786	103670877	701	102580											
ZNF680	340252	broad.mit.edu	37	chr7	63982808	63982808	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cattttccatatcctctcagTatcactttttgaaaagaatc	12	16	3	10	0	2	2	2	1	1	1	6	2	4	2	2	0	0	1	2	0	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:63982808T>C	uc003tta.2	-	4	497	c.324A>G	c.(322-324)ATA>ATG	p.I108M	ZNF680_uc010kzr.2_Missense_Mutation_p.I35M	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	108					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				ATCCTCTCAGTATCACTTTTT	0.318													7	56					0	0	1	0	0		C	63982808	C	C	63982808	3	2	211	1	0	0	0	0	1	0	0	0	18112	1628	57	3	1272	3	ZNF680	7	63982808	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	8515022	63982808	95155855	702	102581											
WBSCR17	64409	broad.mit.edu	37	chr7	71036318	71036318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggtcaacaggaagttcttCggtgaaattggtcttctgga	9	13	13	6	1	4	1	1	1	3	0	5	3	4	3	0	5	1	1	0	5	3	4	rs144325682		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:71036318C>T	uc003tvy.2	+	6	1011	c.1011C>T	c.(1009-1011)TTC>TTT	p.F337F	WBSCR17_uc003tvz.2_Silent_p.F36F	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	337	Catalytic subdomain B.|Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				GGAAGTTCTTCGGTGAAATTG	0.507													105	94					0	0	1	0	0		T	71036318	T	T	71036318	2	4	211	1	0	0	0	0	0	0	0	1	17290	883	31	1		1	WBSCR17	7	71036318	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7053510	71036318	88102345	703	102582											
MLXIPL	51085	broad.mit.edu	37	chr7	73008616	73008616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacgtacttggccggagagCgggcagagagcagtactggt	9	7	16	9	3	1	2	1	0	0	2	1	4	1	2	1	4	4	4	1	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:73008616C>T	uc003tyn.1	-	16	2476	c.2428G>A	c.(2428-2430)GCT>ACT	p.A810T	MLXIPL_uc003tyj.1_Missense_Mutation_p.A189T|MLXIPL_uc003tyk.1_Missense_Mutation_p.A789T|MLXIPL_uc003tyl.1_Missense_Mutation_p.A808T|MLXIPL_uc003tym.1_Missense_Mutation_p.A791T|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.A716T	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	810					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				GGCCGGAGAGCGGGCAGAGAG	0.627													19	115					0	0	1	0	0		T	73008616	T	T	73008616	3	4	211	1	0	0	0	0	1	0	0	0	9655	768	27	1	138	1	MLXIPL	7	73008616	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1972298	73008616	86130047	704	102583											
ELN	2006	broad.mit.edu	37	chr7	73456948	73456948	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcctcccctccgcagggctCggcgccttccccgcagttac	4	8	9	20	4	0	0	0	0	0	0	5	0	4	0	7	2	1	4	7	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:73456948C>T	uc003tzw.2	+	6	328	c.237C>T	c.(235-237)CTC>CTT	p.L79L	RFC2_uc011kfa.1_Intron|ELN_uc003tzm.1_RNA|ELN_uc011kfe.1_Intron|ELN_uc003tzn.2_Silent_p.L79L|ELN_uc003tzz.2_Silent_p.L67L|ELN_uc003tzo.2_Silent_p.L79L|ELN_uc003tzp.2_Silent_p.L69L|ELN_uc003tzq.2_Intron|ELN_uc003tzr.2_RNA|ELN_uc003tzs.2_Silent_p.L79L|ELN_uc003tzt.2_Silent_p.L79L|ELN_uc003tzu.2_Silent_p.L79L|ELN_uc003tzv.2_Silent_p.L69L|ELN_uc003tzx.2_Silent_p.L69L|ELN_uc011kff.1_Silent_p.L79L|ELN_uc003tzy.2_Silent_p.L69L	NM_000501	NP_001075224	P15502	ELN_HUMAN	elastin isoform a precursor	79					blood circulation|cell proliferation|organ morphogenesis|respiratory gaseous exchange	proteinaceous extracellular matrix	extracellular matrix constituent conferring elasticity|protein binding			ovary(3)|pancreas(2)	5		Lung NSC(55;0.159)			Rofecoxib(DB00533)	CCGCAGGGCTCGGCGCCTTCC	0.637			T	PAX5	B-ALL		Supravalvular Aortic Stenosis|Cutis laxa |Williams-Beuren Syndrome						23	124					0	0	1	0	0		T	73456948	T	T	73456948	2	4	211	1	0	0	0	0	0	0	0	1	5079	871	31	1		1	ELN	7	73456948	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	448332	73456948	85681715	705	102584											
GTF2IRD2	84163	broad.mit.edu	37	chr7	74211440	74211440	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atttcagggtgggaaagtggGccagattattcctcgtcaaa	11	11	12	7	1	2	1	2	0	0	1	4	2	3	2	2	3	0	0	2	3	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:74211440G>A	uc003ubd.1	-	16	2595	c.2411C>T	c.(2410-2412)GCC>GTC	p.A804V	GTF2IRD2_uc010lbt.1_Missense_Mutation_p.A351V	NM_173537	NP_775808	Q86UP8	GTD2A_HUMAN	GTF2I repeat domain containing 2	804					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						gggaaagtgggccagattatt	0													43	210					0	0	1	0	0		A	74211440	A	A	74211440	3	1	211	1	0	0	0	0	1	0	0	0	6885	1203	42	2	442	2	GTF2IRD2	7	74211440	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	754492	74211440	84927223	706	102585											
HIP1	3092	broad.mit.edu	37	chr7	75178286	75178286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttgatgtccagtcccCtgggcaggagctcctgtgaa	6	10	12	13	0	0	2	0	2	0	0	3	3	3	3	5	2	2	3	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:75178286C>T	uc003uds.1	-	23	2350	c.2309G>A	c.(2308-2310)AGG>AAG	p.R770K	HIP1_uc011kfz.1_Missense_Mutation_p.R647K	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	770					activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						GTCCAGTCCCCTGGGCAGGAG	0.562			T	PDGFRB	CMML								40	190					0	0	1	0	0		T	75178286	T	T	75178286	3	4	211	1	0	0	0	0	1	0	0	0	7130	681	24	4	840	4	HIP1	7	75178286	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	966846	75178286	83960377	707	102586											
CCL24	6369	broad.mit.edu	37	chr7	75441248	75441248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacccactcctgcttggggtCgccacagaactgctggccct	6	8	11	16	1	0	1	0	0	0	1	2	2	1	1	4	3	3	2	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:75441248C>T	uc011kga.1	-	3	226	c.226G>A	c.(226-228)GAC>AAC	p.D76N		NM_002991	NP_002982	O00175	CCL24_HUMAN	small inducible cytokine A24 precursor	76					cell-cell signaling|chemotaxis|immune response|inflammatory response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|signal transduction	extracellular space	chemokine activity				0						TGCTTGGGGTCGCCACAGAAC	0.602													24	112					0	0	1	0	0		T	75441248	T	T	75441248	3	4	211	1	0	0	0	0	1	0	0	0	2899	884	31	1	135	1	CCL24	7	75441248	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	262962	75441248	83697415	708	102587											
FGL2	10875	broad.mit.edu	37	chr7	76825678	76825678	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagggtgtgcctcacttAcaccaggccaggtaccccag	9	6	10	16	0	1	0	1	0	0	0	1	0	1	0	6	3	3	1	6	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:76825678A>G	uc003ugb.2	-	2	1278	c.1238T>C	c.(1237-1239)GTA>GCA	p.V413A	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	413	Fibrinogen C-terminal.				signal transduction	fibrinogen complex	receptor binding			skin(2)	2						TGCCTCACTTACACCAGGCCA	0.438													8	76					0	0	1	0	0		G	76825678	G	G	76825678	3	3	211	1	0	0	0	0	1	0	0	0	5887	391	14	3	85	3	FGL2	7	76825678	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1384430	76825678	82312985	709	102588											
PION	54103	broad.mit.edu	37	chr7	76982304	76982304	+	Missense_Mutation	SNP	A	G	G	1	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	aatgtggcaatagtttgtccAtgttacttgtctctgaatat	10	17	8	6	0	1	1	0	1	1	0	3	1	2	1	1	1	1	3	1	1	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:76982304A>G	uc003ugf.2	-	18	1527	c.1448T>C	c.(1447-1449)ATG>ACG	p.M483T	PION_uc003ugg.1_Missense_Mutation_p.M268T	NM_017439	NP_059135	A4D1B5	GSAP_HUMAN	pigeon homolog	483					beta-amyloid formation|regulation of proteolysis	trans-Golgi network	beta-amyloid binding			central_nervous_system(1)	1						TAGTTTGTCCATGTTACTTGT	0.368													64	119					0	0	1	0	0		G	76982304	G	G	76982304	3	3	211	1	0	0	0	0	1	0	0	0	11953	217	8	3	1172	3	PION	7	76982304	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	156626	76982304	82156359	710	102589											
RSBN1L	222194	broad.mit.edu	37	chr7	77379031	77379031	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttgtctcattaaaggagccaCgagttcagaataacctcaaa	15	10	7	9	1	3	1	3	0	1	1	4	3	3	2	2	1	2	1	2	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:77379031C>T	uc010ldt.1	+	3	1038	c.994C>T	c.(994-996)CGA>TGA	p.R332*	RSBN1L_uc003ugm.2_Nonsense_Mutation_p.R114*	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	332						nucleus				ovary(1)	1						AAAGGAGCCACGAGTTCAGAA	0.383													10	70					0	0	1	0	0		T	77379031	T	T	77379031	4	4	211	1	0	0	0	0	0	1	0	0	13722	528	19	1	1004	1	RSBN1L	7	77379031	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	396727	77379031	81759632	711	102590											
RSBN1L	222194	broad.mit.edu	37	chr7	77408242	77408242	+	Silent	SNP	T	C	C	0	1	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	gtaagaatcaaggaagaaccTgtgaatgttaatattcctga	16	11	9	5	0	1	4	1	2	0	2	2	5	2	5	2	1	1	2	2	1	8	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:77408242T>C	uc010ldt.1	+	8	2342	c.2298T>C	c.(2296-2298)CCT>CCC	p.P766P	RSBN1L_uc003ugm.2_Silent_p.P548P	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like	766						nucleus				ovary(1)	1						AGGAAGAACCTGTGAATGTTA	0.318													6	53					0	0	1	0	0		C	77408242	C	C	77408242	2	2	211	1	0	0	0	0	0	0	0	1	13722	1567	55	3		3	RSBN1L	7	77408242	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	29211	77408242	81730421	712	102591											
MAGI2	9863	broad.mit.edu	37	chr7	77807330	77807330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagaagattcaacttacagGctgtccaggctcatctcccc	12	9	7	13	0	3	2	2	0	1	2	5	2	4	2	3	2	2	2	3	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:77807330G>A	uc003ugx.2	-	14	2655	c.2401C>T	c.(2401-2403)CCT>TCT	p.P801S	MAGI2_uc003ugy.2_Missense_Mutation_p.P787S|MAGI2_uc010ldx.1_Missense_Mutation_p.P394S	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	801	PDZ 4.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CAACTTACAGGCTGTCCAGGC	0.418													39	82					0	0	1	0	0		A	77807330	A	A	77807330	3	1	211	1	0	0	0	0	1	0	0	0	9209	1203	42	2	2002	2	MAGI2	7	77807330	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	399088	77807330	81331333	713	102592											
PCLO	27445	broad.mit.edu	37	chr7	82585203	82585204	+	Frame_Shift_Ins	INS	-	T	T																															ttcgtcaaaatacaaacttgINStttttttctgtgatgactct																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:82585203_82585204insT	uc003uhx.2	-	5	5354_5355	c.5065_5066insA	c.(5065-5067)ACAfs	p.T1689fs	PCLO_uc003uhv.2_Frame_Shift_Ins_p.T1689fs	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1620					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATACAAACTTGTTTTTTTCTGT	0.426													26	47	---	---	---	---						.	T	82585204	T	T	82585203	7	5	211	1	0	1	1	0	0	0	0	0	11602	1377	48	0	10463	0	PCLO	7	82585203	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	4777873	82585203	76553460	714	102593											
SEMA3A	10371	broad.mit.edu	37	chr7	83606510	83606510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatatcttgtcgtcttgtgCgtctgaagcaattacattta	9	18	7	7	2	3	1	0	1	3	0	4	1	3	1	0	0	3	1	0	0	6	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:83606510C>T	uc003uhz.2	-	15	1970	c.1655G>A	c.(1654-1656)CGC>CAC	p.R552H		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	552					axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TCGTCTTGTGCGTCTGAAGCA	0.328													14	86					0	0	1	0	0		T	83606510	T	T	83606510	3	4	211	1	0	0	0	0	1	0	0	0	14049	768	27	1	672	1	SEMA3A	7	83606510	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1021307	83606510	75532153	715	102594											
GRM3	2913	broad.mit.edu	37	chr7	86468893	86468893	+	Missense_Mutation	SNP	A	G	G	1	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	attcatcagccccagttctcAggttttcatctgcctgggtc	6	14	8	13	0	5	0	4	0	2	0	7	0	5	0	3	2	2	2	3	2	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:86468893A>G	uc003uid.2	+	4	3162	c.2063A>G	c.(2062-2064)CAG>CGG	p.Q688R	GRM3_uc010lef.2_Intron|GRM3_uc010leg.2_Missense_Mutation_p.Q560R|GRM3_uc010leh.2_Missense_Mutation_p.Q280R	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	688	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	CCCAGTTCTCAGGTTTTCATC	0.542													15	57					0	0	1	0	0		G	86468893	G	G	86468893	3	3	211	1	0	0	0	0	1	0	0	0	6814	188	7	3	2073	3	GRM3	7	86468893	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2862383	86468893	72669770	716	102595											
C7orf64	84060	broad.mit.edu	37	chr7	92161755	92161755	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggatgaacagagtttcttcGgtggattgcttcatgtgtgc	7	15	13	6	1	2	2	1	1	1	1	3	4	2	4	0	3	3	2	0	3	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:92161755G>A	uc003ulz.2	+	3	381	c.340G>A	c.(340-342)GGT>AGT	p.G114S	C7orf64_uc011khu.1_Missense_Mutation_p.G114S|C7orf64_uc003uma.2_Missense_Mutation_p.G114S	NM_032120	NP_115496	Q5RL73	CG064_HUMAN	hypothetical protein LOC84060	114							nucleotide binding			ovary(2)	2						GAGTTTCTTCGGTGGATTGCT	0.353													65	84					0	0	1	0	0		A	92161755	A	A	92161755	3	1	211	1	0	0	0	0	1	0	0	0	2413	1116	39	1	350	1	C7orf64	7	92161755	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5692862	92161755	66976908	717	102596											
SAMD9	54809	broad.mit.edu	37	chr7	92731909	92731909	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctctatcttcactttgctGttgagattctttgaatgcac	7	18	6	10	0	4	2	1	2	3	1	5	3	4	2	0	0	2	3	0	0	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:92731909G>A	uc003umf.2	-	3	3758	c.3502C>T	c.(3502-3504)CAG>TAG	p.Q1168*	SAMD9_uc003umg.2_Nonsense_Mutation_p.Q1168*	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1168						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			TCACTTTGCTGTTGAGATTCT	0.383													44	156					0	0	1	0	0		A	92731909	A	A	92731909	4	1	211	1	0	0	0	0	0	1	0	0	13851	1386	48	4	1271	4	SAMD9	7	92731909	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	570154	92731909	66406754	718	102597											
COL1A2	1278	broad.mit.edu	37	chr7	94045723	94045723	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcacttttttcagggggaaCgcggtcccccaggtgagagt	8	10	13	10	2	2	1	2	1	0	1	3	3	3	2	2	4	1	0	2	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:94045723C>T	uc003ung.1	+	31	2242	c.1771C>T	c.(1771-1773)CGC>TGC	p.R591C	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_5'Flank	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	591					axon guidance|blood vessel development|collagen fibril organization|leukocyte migration|odontogenesis|platelet activation|regulation of blood pressure|Rho protein signal transduction|skeletal system development|skin morphogenesis|transforming growth factor beta receptor signaling pathway	collagen type I|extracellular space|plasma membrane	extracellular matrix structural constituent|identical protein binding|platelet-derived growth factor binding|protein binding, bridging		COL1A2/PLAG1(3)	soft_tissue(3)|central_nervous_system(3)|ovary(2)|skin(1)	9	all_cancers(62;2.46e-09)|all_epithelial(64;2.7e-08)		STAD - Stomach adenocarcinoma(171;0.0031)		Collagenase(DB00048)	TCAGGGGGAACGCGGTCCCCC	0.493										HNSCC(75;0.22)			3	7					0	0	1	0	0		T	94045723	T	T	94045723	3	4	211	1	0	0	0	0	1	0	0	0	3681	536	19	1	1893	1	COL1A2	7	94045723	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1313814	94045723	65092940	719	102598											
PON2	5445	broad.mit.edu	37	chr7	95039303	95039303	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gactgtagtaaacaacatttGcccagtgtaagttcaagtat	14	12	8	7	0	1	0	1	0	0	0	1	1	1	0	1	0	3	5	1	0	7	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:95039303G>T	uc003unv.2	-	6	726	c.605C>A	c.(604-606)GCA>GAA	p.A202E	PON2_uc003unu.2_Missense_Mutation_p.A190E|PON2_uc010lfk.2_RNA|PON2_uc003unw.2_Missense_Mutation_p.A115E	NM_000305	NP_000296	Q15165	PON2_HUMAN	paraoxonase 2 isoform 1	202					aromatic compound catabolic process	extracellular region|plasma membrane	arylesterase activity|identical protein binding|metal ion binding				0	all_cancers(62;9.35e-11)|all_epithelial(64;3.37e-09)		STAD - Stomach adenocarcinoma(171;0.0151)			AACAACATTTGCCCAGTGTAA	0.388													29	96					7.26314e-15	7.85471e-15	1	1	0		T	95039303	T	T	95039303	3	4	211	1	0	0	0	0	1	0	0	0	12268	1319	46	5	475	5	PON2	7	95039303	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	993580	95039303	64099360	720	102599											
DYNC1I1	1780	broad.mit.edu	37	chr7	95709775	95709775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttggggactcggaaggccGtatttgggtctatgacgttg	6	13	16	6	3	1	1	0	1	1	0	2	3	1	3	1	5	0	3	1	5	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:95709775G>A	uc003uoc.3	+	16	2079	c.1802G>A	c.(1801-1803)CGT>CAT	p.R601H	DYNC1I1_uc003uod.3_Missense_Mutation_p.R584H|DYNC1I1_uc003uob.2_Missense_Mutation_p.R564H|DYNC1I1_uc003uoe.3_Missense_Mutation_p.R581H|DYNC1I1_uc010lfl.2_Missense_Mutation_p.R590H	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	601	WD 7.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole|vesicle	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)		STAD - Stomach adenocarcinoma(171;0.0957)			TCGGAAGGCCGTATTTGGGTC	0.473													43	138					0	0	1	0	0		A	95709775	A	A	95709775	3	1	211	1	0	0	0	0	1	0	0	0	4848	1145	40	1	1860	1	DYNC1I1	7	95709775	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	670472	95709775	63428888	721	102600											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97946626	97946626	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgggatttctccaaagactCtaatttattcttgtgttctg	8	19	7	7	0	4	1	0	0	4	1	5	2	4	2	1	1	0	1	1	1	3	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:97946626C>T	uc003upj.2	-	6	654	c.391G>A	c.(391-393)GAG>AAG	p.E131K		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	131	Potential.|IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			TCCAAAGACTCTAATTTATTC	0.393													35	134					0	0	1	0	0		T	97946626	T	T	97946626	3	4	211	1	0	0	0	0	1	0	0	0	1303	922	32	4	1180	4	BAIAP2L1	7	97946626	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2236851	97946626	61192037	722	102601											
CPSF4	10898	broad.mit.edu	37	chr7	99042416	99042416	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctctcctttctacagagtcGggcgctgctgtctgtgaatt	5	15	10	11	2	3	2	0	1	3	1	6	2	4	2	1	1	2	2	1	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:99042416G>A	uc003uqj.2	+	2	251	c.108G>A	c.(106-108)TCG>TCA	p.S36S	PTCD1_uc011kiw.1_Intron|CPSF4_uc003uqi.2_Silent_p.S36S|CPSF4_uc003uqk.2_Silent_p.S36S|CPSF4_uc011kix.1_5'UTR	NM_006693	NP_006684	O95639	CPSF4_HUMAN	cleavage and polyadenylation specific factor 4,	36	C3H1-type 1.				modification by virus of host mRNA processing|mRNA processing|viral infectious cycle	mRNA cleavage and polyadenylation specificity factor complex	RNA binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					CTACAGAGTCGGGCGCTGCTG	0.527													156	172					0	0	1	0	0		A	99042416	A	A	99042416	2	1	211	1	0	0	0	0	0	0	0	1	3831	1103	39	1		1	CPSF4	7	99042416	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1095790	99042416	60096247	723	102602											
CYP3A4	1576	broad.mit.edu	37	chr7	99377640	99377640	+	Frame_Shift_Del	DEL	A	-	-																															ggtaggacaaaatatttcccAaaaaaggcagaggtgtgggc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:99377640delA	uc003urv.1	-	2	244	c.140delT	c.(139-141)TTGfs	p.L47fs	CYP3A4_uc003urw.1_Frame_Shift_Del_p.L47fs|CYP3A4_uc011kiz.1_Frame_Shift_Del_p.L47fs|CYP3A4_uc011kja.1_Intron|CYP3A4_uc011kjb.1_Intron	NM_017460	NP_059488	P08684	CP3A4_HUMAN	cytochrome P450, family 3, subfamily A,	47					alkaloid catabolic process|androgen metabolic process|exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|oxidative demethylation|steroid catabolic process|xenobiotic metabolic process	cell surface|endoplasmic reticulum membrane|integral to membrane|microsome	albendazole monooxygenase activity|caffeine oxidase activity|electron carrier activity|enzyme binding|heme binding|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|oxygen binding|quinine 3-monooxygenase activity|steroid binding|taurochenodeoxycholate 6alpha-hydroxylase activity|testosterone 6-beta-hydroxylase activity|vitamin D 24-hydroxylase activity|vitamin D3 25-hydroxylase activity			central_nervous_system(3)|ovary(1)	4	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)				Albendazole(DB00518)|Alclometasone(DB00240)|Alfentanil(DB00802)|Alfuzosin(DB00346)|Aliskiren(DB01258)|Almotriptan(DB00918)|Alosetron(DB00969)|Alprazolam(DB00404)|Amlodipine(DB00381)|Amprenavir(DB00701)|Aprepitant(DB00673)|Aripiprazole(DB01238)|Astemizole(DB00637)|Atazanavir(DB01072)|Atorvastatin(DB01076)|Benazepril(DB00542)|Bepridil(DB01244)|Betamethasone(DB00443)|Bexarotene(DB00307)|Bortezomib(DB00188)|Bosentan(DB00559)|Bromocriptine(DB01200)|Budesonide(DB01222)|Bupivacaine(DB00297)|Buprenorphine(DB00921)|Buspirone(DB00490)|Busulfan(DB01008)|Carbamazepine(DB00564)|Cevimeline(DB00185)|Chlorpheniramine(DB01114)|Ciclesonide(DB01410)|Cilostazol(DB01166)|Cinacalcet(DB01012)|Cisapride(DB00604)|Clarithromycin(DB01211)|Clindamycin(DB01190)|Clofibrate(DB00636)|Clonazepam(DB01068)|Clopidogrel(DB00758)|Cocaine(DB00907)|Conivaptan(DB00872)|Conjugated Estrogens(DB00286)|Cyproterone(DB04839)|Darifenacin(DB00496)|Darunavir(DB01264)|Dasatinib(DB01254)|Delavirdine(DB00705)|Desogestrel(DB00304)|Dexamethasone(DB01234)|Diazepam(DB00829)|Dihydroergotamine(DB00320)|Diltiazem(DB00343)|Diphenhydramine(DB01075)|Disopyramide(DB00280)|Dofetilide(DB00204)|Dolasetron(DB00757)|Domperidone(DB01184)|Donepezil(DB00843)|Doxorubicin(DB00997)|Drospirenone(DB01395)|Dutasteride(DB01126)|Efavirenz(DB00625)|Eletriptan(DB00216)|Enalapril(DB00584)|Epirubicin(DB00445)|Eplerenone(DB00700)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Escitalopram(DB01175)|Esomeprazole(DB00736)|Estazolam(DB01215)|Eszopiclone(DB00402)|Ethinyl Estradiol(DB00977)|Ethosuximide(DB00593)|Etonogestrel(DB00294)|Etoposide(DB00773)|Etoricoxib(DB01628)|Exemestane(DB00990)|Felodipine(DB01023)|Fentanyl(DB00813)|Fexofenadine(DB00950)|Finasteride(DB01216)|Fluconazole(DB00196)|Flumethasone Pivalate(DB00663)|Flunisolide(DB00180)|Fluocinolone Acetonide(DB00591)|Fluocinonide(DB01047)|Fluorometholone(DB00324)|Flurandrenolide(DB00846)|Fluticasone Propionate(DB00588)|Fosamprenavir(DB01319)|Fulvestrant(DB00947)|Galantamine(DB00674)|Gefitinib(DB00317)|Gemfibrozil(DB01241)|Granisetron(DB00889)|Grepafloxacin(DB00365)|Halofantrine(DB01218)|Hydrocodone(DB00956)|Hydrocortamate(DB00769)|Hydrocortisone(DB00741)|Hydromorphone(DB00327)|Imatinib(DB00619)|Indinavir(DB00224)|Ipratropium(DB00332)|Irinotecan(DB00762)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Isradipine(DB00270)|Itraconazole(DB01167)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lercanidipine(DB00528)|Letrozole(DB01006)|Levobupivacaine(DB01002)|Levomethadyl Acetate(DB01227)|Levothyroxine(DB00451)|Lomustine(DB01206)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Losartan(DB00678)|Lovastatin(DB00227)|Maraviroc(DB04835)|Marinol(DB00470)|Mebendazole(DB00643)|Medroxyprogesterone(DB00603)|Methadone(DB00333)|Methylprednisolone(DB00959)|Metyrapone(DB01011)|Mibefradil(DB01388)|Midazolam(DB00683)|Mifepristone(DB00834)|Mirtazapine(DB00370)|Modafinil(DB00745)|Mometasone(DB00764)|Montelukast(DB00471)|Nateglinide(DB00731)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nimodipine(DB00393)|Nisoldipine(DB00401)|Nitrendipine(DB01054)|Norethindrone(DB00717)|Norgestrel(DB00506)|Nystatin(DB00646)|Ondansetron(DB00904)|Oxybutynin(DB01062)|Paclitaxel(DB01229)|Paliperidone(DB01267)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Paricalcitol(DB00910)|Phenmetrazine(DB00830)|Pimecrolimus(DB00337)|Pimozide(DB01100)|Pioglitazone(DB01132)|Posaconazole(DB01263)|Pranlukast(DB01411)|Prednisolone(DB00860)|Prednisone(DB00635)|Prochlorperazine(DB00433)|Quetiapine(DB01224)|Quinapril(DB00881)|Quinine(DB00468)|Rabeprazole(DB01129)|Ranolazine(DB00243)|Reboxetine(DB00234)|Retapamulin(DB01256)|Rifabutin(DB00615)|Rifampin(DB01045)|Rimonabant(DB06155)|Ritonavir(DB00503)|Rofecoxib(DB00533)|Roxithromycin(DB00778)|Salmeterol(DB00938)|Saquinavir(DB01232)|Sertindole(DB06144)|Sibutramine(DB01105)|Simvastatin(DB00641)|Sirolimus(DB00877)|Sitagliptin(DB01261)|Solifenacin(DB01591)|Sorafenib(DB00398)|Sunitinib(DB01268)|Tacrolimus(DB00864)|Tadalafil(DB00820)|Tamoxifen(DB00675)|Telithromycin(DB00976)|Terconazole(DB00251)|Terfenadine(DB00342)|Testosterone(DB00624)|Tiagabine(DB00906)|Ticlopidine(DB00208)|Tinidazole(DB00911)|Tiotropium(DB01409)|Tipranavir(DB00932)|Toremifene(DB00539)|Triazolam(DB00897)|Trimetrexate(DB01157)|Troglitazone(DB00197)|Valdecoxib(DB00580)|Vardenafil(DB00862)|Vinblastine(DB00570)|Vincristine(DB00541)|Vindesine(DB00309)|Vinorelbine(DB00361)|Voriconazole(DB00582)|Zaleplon(DB00962)|Zileuton(DB00744)|Ziprasidone(DB00246)|Zolpidem(DB00425)|Zonisamide(DB00909)	AATATTTCCCAAAAAAGGCAG	0.403													39	62	---	---	---	---						.	-	99377640	-	-	99377640	7	5	211	1	0	1	0	1	0	0	0	0	4181	131	5	0	1419	0	CYP3A4	7	99377640	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	335224	99377640	59761023	724	102603											
LRCH4	4034	broad.mit.edu	37	chr7	100172796	100172796	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaccacgtagaagacgacGaagccgcccagaccagaggg	14	1	14	12	4	0	4	0	0	0	4	0	7	0	5	4	2	1	1	4	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:100172796G>A	uc003uvj.2	-	18	2039	c.1986C>T	c.(1984-1986)TTC>TTT	p.F662F	uc003uvh.2_5'Flank|LRCH4_uc010lgz.2_RNA|LRCH4_uc003uvi.2_RNA|LRCH4_uc011kjw.1_3'UTR	NM_002319	NP_002310	O75427	LRCH4_HUMAN	leucine-rich repeats and calponin homology (CH)	662					nervous system development	PML body	protein binding			large_intestine(1)|ovary(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					AGAAGACGACGAAGCCGCCCA	0.682													9	35					0	0	1	0	0		A	100172796	A	A	100172796	2	1	211	1	0	0	0	0	0	0	0	1	8953	1049	37	1		1	LRCH4	7	100172796	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	795156	100172796	58965867	725	102604											
MUC17	140453	broad.mit.edu	37	chr7	100679802	100679802	+	Missense_Mutation	SNP	T	C	C	0	1	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	aactgtcagaacaacaccggTggccagctctgcaatcagca	13	6	9	13	1	3	1	2	0	1	1	3	1	3	1	2	2	6	3	2	2	4	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:100679802T>C	uc003uxp.1	+	3	5158	c.5105T>C	c.(5104-5106)GTG>GCG	p.V1702A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1702	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|26.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					ACAACACCGGTGGCCAGCTCT	0.473													87	220					0	0	1	0	0		C	100679802	C	C	100679802	3	2	211	1	0	0	0	0	1	0	0	0	9992	1696	59	3	5115	3	MUC17	7	100679802	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	507006	100679802	58458861	726	102605											
PLOD3	8985	broad.mit.edu	37	chr7	100855554	100855554	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggccatgtccctggcctcGcctgggctcagagcctcctc	4	9	11	17	1	1	1	1	0	0	1	5	1	3	1	6	3	1	1	6	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:100855554G>A	uc003uyd.2	-	10	1563	c.1107C>T	c.(1105-1107)GGC>GGT	p.G369G	PLOD3_uc010lhs.2_5'UTR	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	369					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	CCCTGGCCTCGCCTGGGCTCA	0.662													66	75					0	0	1	0	0		A	100855554	A	A	100855554	2	1	211	1	0	0	0	0	0	0	0	1	12122	1074	38	1		1	PLOD3	7	100855554	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	175752	100855554	58283109	727	102606											
PLOD3	8985	broad.mit.edu	37	chr7	100859469	100859469	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaattgaggaagcgcttcccCgtgcccacctcagggtactg	8	8	12	13	2	1	1	1	1	0	0	2	3	2	2	4	2	3	2	4	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:100859469C>T	uc003uyd.2	-	4	933	c.477G>A	c.(475-477)ACG>ACA	p.T159T	ZNHIT1_uc003uye.2_5'Flank|ZNHIT1_uc003uyf.2_5'Flank	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	159					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	AGCGCTTCCCCGTGCCCACCT	0.632													12	72					0	0	1	0	0		T	100859469	T	T	100859469	2	4	211	1	0	0	0	0	0	0	0	1	12122	639	23	1		1	PLOD3	7	100859469	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3915	100859469	58279194	728	102607											
EMID2	136227	broad.mit.edu	37	chr7	101187338	101187338	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgggtctaaaggtgacCgaggccagacaggagagaag	12	3	15	11	2	1	3	0	1	1	2	1	6	1	4	4	4	0	0	4	4	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:101187338C>T	uc010lhy.1	+	6	850	c.658C>T	c.(658-660)CGA>TGA	p.R220*	EMID2_uc003uyo.1_Nonsense_Mutation_p.R222*	NM_133457	NP_597714	Q96A83	EMID2_HUMAN	EMI domain containing 2	222	Collagen-like 1.					collagen				ovary(1)	1	Lung NSC(181;0.215)					TAAAGGTGACCGAGGCCAGAC	0.637													12	8					0	0	1	0	0		T	101187338	T	T	101187338	4	4	211	1	0	0	0	0	0	1	0	0	5100	644	23	1	680	1	EMID2	7	101187338	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	327869	101187338	57951325	729	102608											
RELN	5649	broad.mit.edu	37	chr7	103234873	103234873	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtcctcccctgagaacacGggctgccaccagcggaacct	9	6	10	16	2	0	1	0	1	0	1	2	3	2	2	6	2	4	1	6	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:103234873G>A	uc003vca.2	-	26	3766	c.3606C>T	c.(3604-3606)CCC>CCT	p.P1202P	RELN_uc010liz.2_Silent_p.P1202P	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1202					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CTGAGAACACGGGCTGCCACC	0.488													117	162					0	0	1	0	0		A	103234873	A	A	103234873	2	1	211	1	0	0	0	0	0	0	0	1	13245	1103	39	1		1	RELN	7	103234873	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2047535	103234873	55903790	730	102609											
RELN	5649	broad.mit.edu	37	chr7	103322570	103322570	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcaattacttaccctgtagGctggctctcaaattcttctg	9	14	7	11	0	3	0	1	0	3	0	4	0	3	0	1	2	3	4	1	2	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:103322570G>A	uc003vca.2	-	11	1442	c.1282C>T	c.(1282-1284)CCT>TCT	p.P428S	RELN_uc010liz.2_Missense_Mutation_p.P428S	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	428					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		TACCCTGTAGGCTGGCTCTCA	0.408													27	104					0	0	1	0	0		A	103322570	A	A	103322570	3	1	211	1	0	0	0	0	1	0	0	0	13245	1203	42	2	9320	2	RELN	7	103322570	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	87697	103322570	55816093	731	102610											
SRPK2	6733	broad.mit.edu	37	chr7	104773248	104773248	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgtccttaccatacacgccGtgctccagatgtccgcaggg	7	8	10	16	4	0	1	0	0	0	1	3	1	3	1	6	1	3	2	6	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:104773248G>A	uc003vct.2	-	12	1896	c.1709C>T	c.(1708-1710)ACG>ATG	p.T570M	SRPK2_uc003vcu.2_Missense_Mutation_p.T570M|SRPK2_uc003vcv.2_Missense_Mutation_p.T581M|SRPK2_uc003vcs.1_RNA	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	570	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CATACACGCCGTGCTCCAGAT	0.562													3	10					0	0	1	0	0		A	104773248	A	A	104773248	3	1	211	1	0	0	0	0	1	0	0	0	15185	1145	40	1	373	1	SRPK2	7	104773248	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1450678	104773248	54365415	732	102611											
SLC26A3	1811	broad.mit.edu	37	chr7	107418725	107418725	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaaggtcatgatccaaattAactgtgaaaagaaagcaaca	19	8	8	6	0	1	4	1	3	0	1	2	4	2	4	1	1	3	1	1	1	7	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:107418725A>C	uc003ver.2	-	13	1620	c.1409T>G	c.(1408-1410)TTA>TGA	p.L470*	SLC26A3_uc003ves.2_Nonsense_Mutation_p.L435*	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	470	Helical; (Potential).				excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						GATCCAAATTAACTGTGAAAA	0.388													22	33					0	0	1	0	0		C	107418725	C	C	107418725	4	2	211	1	0	0	0	0	0	1	0	0	14543	376	13	5	921	5	SLC26A3	7	107418725	Nonsense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2645477	107418725	51719938	733	102612											
NRCAM	4897	broad.mit.edu	37	chr7	107820828	107820828	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggatctttttctcaatgtgaCgtctgtttcttttagatgaa	8	19	8	6	1	4	3	1	2	4	1	5	4	4	4	0	1	0	1	0	1	3	5	rs151029926	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:107820828C>T	uc003vfb.2	-	25	3161	c.2690G>A	c.(2689-2691)CGT>CAT	p.R897H	NRCAM_uc003vfc.2_Missense_Mutation_p.R881H|NRCAM_uc011kmk.1_Missense_Mutation_p.R892H|NRCAM_uc003vfd.2_Missense_Mutation_p.R873H|NRCAM_uc003vfe.2_Missense_Mutation_p.R873H	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	897	Fibronectin type-III 3.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CTCAATGTGACGTCTGTTTCT	0.448													17	64					0	0	1	0	0		T	107820828	T	T	107820828	3	4	211	1	0	0	0	0	1	0	0	0	10663	536	19	1	1290	1	NRCAM	7	107820828	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	402103	107820828	51317835	734	102613											
DOCK4	9732	broad.mit.edu	37	chr7	111386418	111386418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatcagctctcttaatcgtGcaattttctccccatcttca	8	15	4	14	1	5	0	2	0	3	0	8	0	5	0	2	0	2	3	2	0	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:111386418G>A	uc003vfx.2	-	43	4891	c.4622C>T	c.(4621-4623)GCA>GTA	p.A1541V	DOCK4_uc011kml.1_Missense_Mutation_p.A422V|DOCK4_uc011kmm.1_Missense_Mutation_p.A448V|DOCK4_uc003vfw.2_Missense_Mutation_p.A991V|DOCK4_uc003vfy.2_Missense_Mutation_p.A1586V	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	1541	DHR-2.				cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TCTTAATCGTGCAATTTTCTC	0.453													4	30					0	0	1	0	0		A	111386418	A	A	111386418	3	1	211	1	0	0	0	0	1	0	0	0	4695	1319	46	2	1318	2	DOCK4	7	111386418	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3565590	111386418	47752245	735	102614											
DOCK4	9732	broad.mit.edu	37	chr7	111629126	111629126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacgtccttcatccggtcGtgggtgaggtggcccaccag	5	10	13	13	3	2	1	2	1	0	0	5	1	4	1	4	4	0	0	4	4	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:111629126G>A	uc003vfx.2	-	6	677	c.408C>T	c.(406-408)CAC>CAT	p.H136H	DOCK4_uc003vfy.2_Silent_p.H136H|DOCK4_uc003vga.1_Translation_Start_Site|DOCK4_uc010ljt.1_Silent_p.H136H|DOCK4_uc003vgb.1_Silent_p.H60H	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	136					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				TCATCCGGTCGTGGGTGAGGT	0.562													14	32					0	0	1	0	0		A	111629126	A	A	111629126	2	1	211	1	0	0	0	0	0	0	0	1	4695	1136	40	1		1	DOCK4	7	111629126	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	242708	111629126	47509537	736	102615											
CFTR	1080	broad.mit.edu	37	chr7	117232305	117232305	+	Frame_Shift_Del	DEL	A	-	-																															acagactggagagtttggggAaaaaaggaagaattctattc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:117232305delA	uc003vjd.2	+	14	2216	c.2084delA	c.(2083-2085)GAAfs	p.E695fs	CFTR_uc011knq.1_Frame_Shift_Del_p.E101fs	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	695	Cytoplasmic (Potential).				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	GAGTTTGGGGAAAAAAGGAAG	0.378									Cystic_Fibrosis				23	41	---	---	---	---						.	-	117232305	-	-	117232305	7	5	211	1	0	1	0	1	0	0	0	0	3297	246	9	0	2138	0	CFTR	7	117232305	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	5603179	117232305	41906358	737	102616											
CFTR	1080	broad.mit.edu	37	chr7	117282581	117282581	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgaaggagaaatccagatCgatggtgtgtcttgggattc	11	11	13	6	1	1	3	0	1	1	2	4	6	2	4	1	3	0	0	1	3	2	2	rs1800129		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:117282581C>T	uc003vjd.2	+	23	3939	c.3807C>T	c.(3805-3807)ATC>ATT	p.I1269I	CFTR_uc011knq.1_Silent_p.I675I	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	1269	Cytoplasmic (Potential).|ABC transporter 2.				respiratory gaseous exchange	apical plasma membrane|basolateral plasma membrane|chloride channel complex|early endosome membrane	ATP binding|ATP-binding and phosphorylation-dependent chloride channel activity|channel-conductance-controlling ATPase activity|chloride channel regulator activity|enzyme binding|PDZ domain binding			central_nervous_system(2)|skin(2)|ovary(1)	5	Lung NSC(10;0.00148)|all_lung(10;0.00171)		STAD - Stomach adenocarcinoma(10;0.000534)		Bumetanide(DB00887)|Glibenclamide(DB01016)	AAATCCAGATCGATGGTGTGT	0.438									Cystic_Fibrosis				13	59					0	0	1	0	0		T	117282581	T	T	117282581	2	4	211	1	0	0	0	0	0	0	0	1	3297	874	31	1		1	CFTR	7	117282581	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	50276	117282581	41856082	738	102617											
CADPS2	93664	broad.mit.edu	37	chr7	122194676	122194676	+	Frame_Shift_Del	DEL	T	-	-																															ttaagtcagaatcctggctaTtttttggaactaccattcgg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:122194676delT	uc010lkp.2	-	8	1566	c.1403delA	c.(1402-1404)AATfs	p.N468fs	CADPS2_uc003vkg.3_Frame_Shift_Del_p.N168fs|CADPS2_uc010lkq.2_Frame_Shift_Del_p.N468fs	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	468					exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						ATCCTGGCTATTTTTTGGAAC	0.363													25	31	---	---	---	---						.	-	122194676	-	-	122194676	7	5	211	1	0	1	0	1	0	0	0	0	2574	1493	52	0	2623	0	CADPS2	7	122194676	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	4912095	122194676	36943987	739	102618											
GPR37	2861	broad.mit.edu	37	chr7	124387030	124387030	+	Missense_Mutation	SNP	A	G	G	1	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	tgcggattttcctcgcagtcActagagagcaggtgatggtg	8	11	14	8	2	1	2	1	1	0	1	3	4	2	3	1	3	2	2	1	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:124387030A>G	uc003vli.2	-	2	2042	c.1391T>C	c.(1390-1392)GTG>GCG	p.V464A		NM_005302	NP_005293	O15354	GPR37_HUMAN	G protein-coupled receptor 37 precursor	464	Helical; Name=5; (Potential).					endoplasmic reticulum membrane|integral to plasma membrane	G-protein coupled receptor activity			ovary(1)|lung(1)|central_nervous_system(1)	3						CCTCGCAGTCACTAGAGAGCA	0.483													25	64					0	0	1	0	0		G	124387030	G	G	124387030	3	3	211	1	0	0	0	0	1	0	0	0	6706	159	6	3	454	3	GPR37	7	124387030	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2192354	124387030	34751633	740	102619											
GRM8	2918	broad.mit.edu	37	chr7	126173169	126173169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagtgaccatcaagaggataCtgtatccaagtgaacaaatg	17	8	9	7	0	1	3	1	2	0	1	2	4	2	4	2	1	2	1	2	1	7	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:126173169C>T	uc003vlr.2	-	8	2578	c.2267G>A	c.(2266-2268)AGT>AAT	p.S756N	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Missense_Mutation_p.S756N|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	756	Helical; Name=5; (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	CAAGAGGATACTGTATCCAAG	0.438										HNSCC(24;0.065)			9	48					0	0	1	0	0		T	126173169	T	T	126173169	3	4	211	1	0	0	0	0	1	0	0	0	6819	565	20	4	521	4	GRM8	7	126173169	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1786139	126173169	32965494	741	102620											
IMPDH1	3614	broad.mit.edu	37	chr7	128040160	128040160	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctggtacctttcttgctaCgctgcaggatctcatttgcc	5	14	8	14	1	2	0	1	0	2	0	3	1	2	1	3	2	5	4	3	2	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:128040160C>T	uc011kol.1	-	6	714	c.608G>A	c.(607-609)CGT>CAT	p.R203H	IMPDH1_uc011kom.1_Missense_Mutation_p.R198H|IMPDH1_uc003vmt.2_Missense_Mutation_p.R178H|IMPDH1_uc003vmu.2_Missense_Mutation_p.R288H|IMPDH1_uc003vmw.2_Missense_Mutation_p.R278H|IMPDH1_uc011kon.1_Missense_Mutation_p.R255H|IMPDH1_uc003vmv.2_Missense_Mutation_p.R252H|IMPDH1_uc003vmx.2_Missense_Mutation_p.R211H|IMPDH1_uc003vmy.2_Missense_Mutation_p.R219H	NM_001142573	NP_001136045	P20839	IMDH1_HUMAN	inosine monophosphate dehydrogenase 1 isoform e	203	CBS 2.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	DNA binding|IMP dehydrogenase activity|metal ion binding			skin(2)|lung(1)|central_nervous_system(1)	4					Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)|Ribavirin(DB00811)|Thioguanine(DB00352)	TTTCTTGCTACGCTGCAGGAT	0.537													41	198					0	0	1	0	0		T	128040160	T	T	128040160	3	4	211	1	0	0	0	0	1	0	0	0	7742	536	19	1	972	1	IMPDH1	7	128040160	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1866991	128040160	31098503	742	102621											
CCDC136	64753	broad.mit.edu	37	chr7	128434431	128434436	+	In_Frame_Del	DEL	GAGGAA	-	-																															tactcccagctctctatgagGaggaagaggaagaggaagag																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:128434431_128434436delGAGGAA	uc003vnv.1	+	2	413_418	c.46_51delGAGGAA	c.(46-51)GAGGAAdel	p.EE24del	CCDC136_uc003vnu.1_In_Frame_Del_p.EE74del|CCDC136_uc003vnw.1_In_Frame_Del_p.EE24del	NM_022742	NP_073579	Q96JN2	CC136_HUMAN	coiled-coil domain containing 136	24_25	Glu-rich.					integral to membrane	protein binding			ovary(2)	2						TCTCTATgaggaggaagaggaagagg	0.403													6	4	---	---	---	---						.	-	128434436	-	-	128434431	7	5	211	1	0	1	0	1	0	0	0	0	2773	1175	41	0	52	0	CCDC136	7	128434431	In_Frame_Del	DEL	GAGGAA	TCGA-HU-A4GQ-01A-11D-A25D-08	394271	128434431	30704232	743	102622											
SMO	6608	broad.mit.edu	37	chr7	128845572	128845572	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagttcatggatggtgcccGccgagagatcgtctgccgtg	6	9	14	12	4	2	1	1	0	1	1	3	4	2	2	4	2	2	1	4	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:128845572G>A	uc003vor.2	+	4	1149	c.869G>A	c.(868-870)CGC>CAC	p.R290H	SMO_uc003vos.2_5'Flank	NM_005631	NP_005622	Q99835	SMO_HUMAN	smoothened precursor	290	Extracellular (Potential).				adenohypophysis development|axon extension involved in axon guidance|canonical Wnt receptor signaling pathway|cardioblast differentiation|central nervous system neuron differentiation|cerebellar cortex morphogenesis|ciliary receptor clustering involved in smoothened signaling pathway|determination of left/right symmetry|dorsal/ventral neural tube patterning|embryonic camera-type eye development|embryonic digestive tract morphogenesis|embryonic neurocranium morphogenesis|embryonic viscerocranium morphogenesis|exocrine pancreas development|facial nerve development|floor plate formation|gonad development|heart morphogenesis|muscle cell fate commitment|negative regulation of apoptosis|neural crest cell migration|neuron fate commitment|neuron projection regeneration|odontogenesis of dentine-containing tooth|osteoblast differentiation|otolith morphogenesis|positive regulation of epithelial cell proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of neuroblast proliferation|positive regulation of smoothened signaling pathway|semicircular canal morphogenesis|smoothened signaling pathway involved in regulation of cerebellar granule cell precursor cell proliferation|smoothened signaling pathway involved in ventral spinal cord patterning|spermatogenesis|vasculogenesis	cilium|cytoplasm|integral to membrane|neuronal cell body|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding	p.R290S(1)		skin(19)|large_intestine(10)|central_nervous_system(3)|upper_aerodigestive_tract(2)|biliary_tract(1)|lung(1)|liver(1)	37						GATGGTGCCCGCCGAGAGATC	0.582			Mis		skin basal cell 								19	67					0	0	1	0	0		A	128845572	A	A	128845572	3	1	211	1	0	0	0	0	1	0	0	0	14825	1087	38	1	883	1	SMO	7	128845572	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	411141	128845572	30293091	744	102623											
FAM40B	57464	broad.mit.edu	37	chr7	129096460	129096460	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacccccaccctccaagctgCgaggccgccgtggctctcga	6	5	10	20	4	1	0	0	0	1	0	3	2	2	0	6	2	2	2	6	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:129096460C>T	uc011koy.1	+	9	1055	c.1015C>T	c.(1015-1017)CGA>TGA	p.R339*	FAM40B_uc003vow.2_Nonsense_Mutation_p.R339*|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	339											0						CTCCAAGCTGCGAGGCCGCCG	0.567													8	48					0	0	1	0	0		T	129096460	T	T	129096460	4	4	211	1	0	0	0	0	0	1	0	0	5575	760	27	1	1049	1	FAM40B	7	129096460	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	250888	129096460	30042203	745	102624											
CPA1	1357	broad.mit.edu	37	chr7	130023575	130023575	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaccgccattctcgacacCttggacatcttcctggagat	8	12	7	14	2	3	1	1	0	2	1	5	4	4	2	4	2	0	0	4	2	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:130023575C>A	uc003vpx.2	+	6	708	c.636C>A	c.(634-636)ACC>ACA	p.T212T	CPA1_uc011kpf.1_Silent_p.T124T|CPA1_uc003vpw.2_Intron	NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	212					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					TTCTCGACACCTTGGACATCT	0.607													36	109					3.77016e-25	4.15664e-25	1	1	0		A	130023575	A	A	130023575	2	1	211	1	0	0	0	0	0	0	0	1	3792	668	24	5		5	CPA1	7	130023575	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	927115	130023575	29115088	746	102625											
WDR91	29062	broad.mit.edu	37	chr7	134878329	134878329	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggggggtaggttccagttcaCctgggcatgttgtcgttgat	5	13	16	7	1	1	1	1	1	0	0	3	1	2	1	2	5	0	6	2	5	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:134878329C>T	uc003vsp.2	-	10	1552	c.1490_splice	c.e10+1	p.R497_splice	WDR91_uc010lmq.2_Splice_Site_p.R86_splice|WDR91_uc010lmr.2_Splice_Site	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91											breast(2)|ovary(1)|skin(1)	4						TTCCAGTTCACCTGGGCATGT	0.567													6	29					0	0	1	0	0		T	134878329	T	T	134878329	5	4	211	1	0	0	0	0	0	0	1	0	17364	521	18	4	776	4	WDR91	7	134878329	Splice_Site	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4854754	134878329	24260334	747	102626											
NUP205	23165	broad.mit.edu	37	chr7	135310080	135310080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agcctccccttttaaaagcaCtttatacttatgaatctaaa	14	14	3	10	0	1	1	0	1	1	0	2	1	2	1	3	0	3	1	3	0	8	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:135310080C>T	uc003vsw.2	+	32	4679	c.4648C>T	c.(4648-4650)CTT>TTT	p.L1550F	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1550					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						TTTAAAAGCACTTTATACTTA	0.378													45	73					0	0	1	0	0		T	135310080	T	T	135310080	3	4	211	1	0	0	0	0	1	0	0	0	10778	565	20	4	4774	4	NUP205	7	135310080	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	431751	135310080	23828583	748	102627											
CHRM2	1129	broad.mit.edu	37	chr7	136699678	136699678	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtccttataagacatttgaAgtggtgtttattgtcctggt	9	17	10	5	0	0	2	0	1	0	1	2	2	2	2	2	2	0	1	2	2	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:136699678A>T	uc003vtf.1	+	4	689	c.66A>T	c.(64-66)GAA>GAT	p.E22D	CHRM2_uc003vtg.1_Missense_Mutation_p.E22D|CHRM2_uc003vtj.1_Missense_Mutation_p.E22D|CHRM2_uc003vtk.1_Missense_Mutation_p.E22D|CHRM2_uc003vtl.1_Missense_Mutation_p.E22D|CHRM2_uc003vtm.1_Missense_Mutation_p.E22D|CHRM2_uc003vti.1_Missense_Mutation_p.E22D|CHRM2_uc003vto.1_Missense_Mutation_p.E22D|CHRM2_uc003vtn.1_Missense_Mutation_p.E22D|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	22	Extracellular (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	AGACATTTGAAGTGGTGTTTA	0.423													36	59					0	0	1	0	0		T	136699678	T	T	136699678	3	4	211	1	0	0	0	0	1	0	0	0	3380	69	3	5	68	5	CHRM2	7	136699678	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1389598	136699678	22438985	749	102628											
DGKI	9162	broad.mit.edu	37	chr7	137531226	137531226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgtacgagacctgcttcCggaaagttaagttcctcagc	10	10	9	12	2	1	1	1	0	0	1	3	3	3	2	4	1	3	4	4	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:137531226C>T	uc003vtt.2	-	1	384	c.383G>A	c.(382-384)CGG>CAG	p.R128Q	DGKI_uc003vtu.2_5'UTR	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	128					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						GACCTGCTTCCGGAAAGTTAA	0.597													12	40					0	0	1	0	0		T	137531226	T	T	137531226	3	4	211	1	0	0	0	0	1	0	0	0	4477	652	23	1	2950	1	DGKI	7	137531226	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	831548	137531226	21607437	750	102629											
TRIM24	8805	broad.mit.edu	37	chr7	138239681	138239681	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccaaaccctagaatgcagggGcccatccagcaaccttccat	12	6	7	16	0	0	1	0	0	0	1	2	1	2	1	6	2	4	2	6	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:138239681G>A	uc003vuc.2	+	9	1715	c.1500G>A	c.(1498-1500)GGG>GGA	p.G500G	TRIM24_uc003vub.2_Intron	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	500					cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						GAATGCAGGGGCCCATCCAGC	0.468													27	109					0	0	1	0	0		A	138239681	A	A	138239681	2	1	211	1	0	0	0	0	0	0	0	1	16524	1190	42	2		2	TRIM24	7	138239681	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	708455	138239681	20898982	751	102630											
SVOPL	136306	broad.mit.edu	37	chr7	138312134	138312134	+	Missense_Mutation	SNP	G	A	A																															ggagaaggaagaataaagccGtgcatcccatggtaatagaa																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:138312134G>A	uc011kqh.1	-	11	1142	c.1142C>T	c.(1141-1143)ACG>ATG	p.T381M	SVOPL_uc003vue.2_Missense_Mutation_p.T229M	NM_001139456	NP_001132928	Q8N434	SVOPL_HUMAN	SVOP-like isoform 1	381						integral to membrane	transmembrane transporter activity				0						GAATAAAGCCGTGCATCCCAT	0.393													15	69					0	0	1	0	0		A	138312134	A	A	138312134	3	1	211	1	0	0	0	0	1	0	0	0	15449	1145	40	1	356	1	SVOPL	7	138312134	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	72453	138312134	20826529	752	102631	191	2									
SVOPL	136306	broad.mit.edu	37	chr7	138312137	138312137	+	Missense_Mutation	SNP	C	T	T																															gaaggaagaataaagccgtgCatcccatggtaatagaaagg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:138312137C>T	uc011kqh.1	-	11	1139	c.1139G>A	c.(1138-1140)TGC>TAC	p.C380Y	SVOPL_uc003vue.2_Missense_Mutation_p.C228Y	NM_001139456	NP_001132928	Q8N434	SVOPL_HUMAN	SVOP-like isoform 1	380						integral to membrane	transmembrane transporter activity				0						TAAAGCCGTGCATCCCATGGT	0.393													33	48					0	0	1	0	0		T	138312137	T	T	138312137	3	4	211	1	0	0	0	0	1	0	0	0	15449	710	25	2	359	2	SVOPL	7	138312137	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3	138312137	20826526	753	102632	191	2									
PARP12	64761	broad.mit.edu	37	chr7	139726084	139726084	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaaaaatggcgctggtgcCgtggaacagctgccgctcgt	9	7	13	12	4	0	0	0	0	0	0	1	1	0	1	2	3	4	3	2	3	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:139726084C>T	uc003vvl.1	-	11	2567	c.1693G>A	c.(1693-1695)GGC>AGC	p.G565S	PARP12_uc003vvk.1_Missense_Mutation_p.G351S|PARP12_uc010lnf.1_RNA	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	565	PARP catalytic.					nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)					GCGCTGGTGCCGTGGAACAGC	0.562													46	109					0	0	1	0	0		T	139726084	T	T	139726084	3	4	211	1	0	0	0	0	1	0	0	0	11476	652	23	1	420	1	PARP12	7	139726084	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1413947	139726084	19412579	754	102633											
JHDM1D	80853	broad.mit.edu	37	chr7	139797360	139797360	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtaccagtgcagtgcactcGggtccggagtcttctgactc	6	10	12	13	3	2	1	0	1	2	0	5	2	3	2	2	2	3	3	2	2	1	2	rs148957004	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:139797360G>A	uc003vvm.2	-	15	2005	c.2001C>T	c.(1999-2001)CCC>CCT	p.P667P	JHDM1D_uc010lng.2_RNA	NM_030647	NP_085150	Q6ZMT4	KDM7_HUMAN	jumonji C domain containing histone demethylase	667					midbrain development|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K27 specific)|histone demethylase activity (H3-K36 specific)|histone demethylase activity (H3-K9 specific)|histone demethylase activity (H4-K20 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1	Melanoma(164;0.0142)					CAGTGCACTCGGGTCCGGAGT	0.453													21	61					0	0	1	0	0		A	139797360	A	A	139797360	2	1	211	1	0	0	0	0	0	0	0	1	7964	1103	39	1		1	JHDM1D	7	139797360	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	71276	139797360	19341303	755	102634											
SSBP1	6742	broad.mit.edu	37	chr7	141443388	141443388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgtgtgcacttacttgggcGagtgggtcaggaccctgtct	5	12	14	10	2	2	0	1	0	1	0	3	2	2	1	1	3	2	1	1	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:141443388G>A	uc003vwo.1	+	4	191	c.113G>A	c.(112-114)CGA>CAA	p.R38Q	SSBP1_uc011kri.1_Missense_Mutation_p.R38Q|SSBP1_uc010lnp.1_Missense_Mutation_p.R38Q	NM_003143	NP_003134	Q04837	SSBP_HUMAN	single-stranded DNA binding protein 1 precursor	38	SSB.				DNA replication|positive regulation of helicase activity	mitochondrial nucleoid	single-stranded DNA binding			ovary(1)	1	Melanoma(164;0.0171)					TTACTTGGGCGAGTGGGTCAG	0.373													35	111					0	0	1	0	0		A	141443388	A	A	141443388	3	1	211	1	0	0	0	0	1	0	0	0	15204	1058	37	1	123	1	SSBP1	7	141443388	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1646028	141443388	17695275	756	102635											
OR6V1	346517	broad.mit.edu	37	chr7	142750155	142750155	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaaggctttctccacttgcGggtctcacctcacactggtc	7	11	9	14	1	3	1	2	0	2	1	6	1	3	1	2	3	1	1	2	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:142750155G>A	uc011ksv.1	+	1	718	c.718G>A	c.(718-720)GGG>AGG	p.G240R		NM_001001667	NP_001001667	Q8N148	OR6V1_HUMAN	olfactory receptor, family 6, subfamily V,	240	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.059)					CTCCACTTGCGGGTCTCACCT	0.557													36	141					0	0	1	0	0		A	142750155	A	A	142750155	3	1	211	1	0	0	0	0	1	0	0	0	11230	1116	39	1	720	1	OR6V1	7	142750155	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1306767	142750155	16388508	757	102636											
ZNF786	136051	broad.mit.edu	37	chr7	148767797	148767797	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgatggctgagcagctgCgccttcaggcggaaactctt	7	9	12	13	2	2	2	1	2	1	0	2	3	2	3	2	3	4	3	2	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:148767797C>T	uc003wfh.2	-	4	2204	c.2067G>A	c.(2065-2067)GCG>GCA	p.A689A	ZNF786_uc011kuk.1_Silent_p.A652A|ZNF786_uc003wfi.2_Silent_p.A603A	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	689	C2H2-type 14.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TGAGCAGCTGCGCCTTCAGGC	0.557													30	161					0	0	1	0	0		T	148767797	T	T	148767797	2	4	211	1	0	0	0	0	0	0	0	1	18183	755	27	1		1	ZNF786	7	148767797	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6017642	148767797	10370866	758	102637											
ZNF777	27153	broad.mit.edu	37	chr7	149152575	149152575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcgggtgatctctgccGtggggagcggctgttccttc	4	10	15	12	3	1	1	0	1	1	0	4	2	2	2	3	4	3	2	3	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:149152575G>A	uc003wfv.2	-	2	702	c.539C>T	c.(538-540)ACG>ATG	p.T180M		NM_015694	NP_056509	Q9ULD5	ZN777_HUMAN	zinc finger protein 777	180					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1	Melanoma(164;0.165)		OV - Ovarian serous cystadenocarcinoma(82;0.00358)			GATCTCTGCCGTGGGGAGCGG	0.627													41	147					0	0	1	0	0		A	149152575	A	A	149152575	3	1	211	1	0	0	0	0	1	0	0	0	18175	1145	40	1	1976	1	ZNF777	7	149152575	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	384778	149152575	9986088	759	102638											
SSPO	23145	broad.mit.edu	37	chr7	149522173	149522173	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaggaggctgccgggagccaTgggctcaagacagaaagctg	11	4	17	9	1	1	2	1	0	0	2	1	5	1	4	2	4	3	3	2	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:149522173T>C	uc010lpk.2	+	97	13960	c.13960T>C	c.(13960-13962)TGG>CGG	p.W4654R	SSPO_uc010lpm.1_RNA|SSPO_uc003wgg.2_Intron|SSPO_uc003wgh.2_RNA|SSPO_uc003wgi.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	4654	TSP type-1 23.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCGGGAGCCATGGGCTCAAGA	0.652													11	45					0	0	1	0	0		C	149522173	C	C	149522173	3	2	211	1	0	0	0	0	1	0	0	0	15214	1464	51	3	14336	3	SSPO	7	149522173	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	369598	149522173	9616490	760	102639											
GIMAP8	155038	broad.mit.edu	37	chr7	150164369	150164369	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggttgagtctttggtgaatAcgaacggaggaccctatcat	11	11	12	7	2	2	2	1	2	1	0	2	5	2	4	1	4	2	1	1	4	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:150164369A>G	uc003whj.2	+	2	913	c.583A>G	c.(583-585)ACG>GCG	p.T195A		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	195						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		TTTGGTGAATACGAACGGAGG	0.423													23	112					0	0	1	0	0		G	150164369	G	G	150164369	3	3	211	1	0	0	0	0	1	0	0	0	6400	391	14	3	585	3	GIMAP8	7	150164369	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	642196	150164369	8974294	761	102640											
ASB10	136371	broad.mit.edu	37	chr7	150878203	150878203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggacaggagcagctccacGacagctgcatggccacggcg	10	3	14	14	3	0	0	0	0	0	0	1	3	1	2	2	4	4	4	2	4	0	0	rs144099189		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:150878203G>A	uc003wjm.1	-	3	1188	c.1062C>T	c.(1060-1062)GTC>GTT	p.V354V	ASB10_uc003wjl.1_Silent_p.V354V|ASB10_uc003wjn.1_Silent_p.V294V	NM_001142459	NP_001135931	Q8WXI3	ASB10_HUMAN	ankyrin repeat and SOCS box-containing 10	309	ANK 6.				intracellular signal transduction						0			OV - Ovarian serous cystadenocarcinoma(82;0.00448)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GCAGCTCCACGACAGCTGCAT	0.657													11	49					0	0	1	0	0		A	150878203	A	A	150878203	2	1	211	1	0	0	0	0	0	0	0	1	1015	1045	37	1		1	ASB10	7	150878203	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	713834	150878203	8260460	762	102641											
PAXIP1	22976	broad.mit.edu	37	chr7	154767562	154767562	+	Silent	SNP	A	G	G	1	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	attaaattaccccggacctcAgggggcaaaatgttacctgg	12	9	10	10	1	1	0	1	0	0	0	1	1	1	1	4	4	2	2	4	4	6	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:154767562A>G	uc003wlp.2	-	6	961	c.918T>C	c.(916-918)CCT>CCC	p.P306P	PAXIP1_uc003wlq.1_Silent_p.P272P|PAXIP1_uc011kvs.1_Silent_p.P270P|PAXIP1_uc003wlr.1_Silent_p.P215P	NM_007349	NP_031375	Q6ZW49	PAXI1_HUMAN	PAX interacting protein 1	306					DNA damage response, signal transduction by p53 class mediator|DNA recombination|DNA repair|histone H3-K4 methylation|positive regulation of histone acetylation|positive regulation of histone H3-K36 methylation|positive regulation of histone H3-K4 methylation|positive regulation of isotype switching|positive regulation of protein ubiquitination|positive regulation of transcription initiation from RNA polymerase II promoter|response to ionizing radiation|transcription, DNA-dependent	histone methyltransferase complex|nuclear matrix				lung(2)|ovary(1)|breast(1)|pancreas(1)	5	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)		CCCGGACCTCAGGGGGCAAAA	0.512													8	46					0	0	1	0	0		G	154767562	G	G	154767562	2	3	211	1	0	0	0	0	0	0	0	1	11506	175	7	3		3	PAXIP1	7	154767562	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3889359	154767562	4371101	763	102642											
HTR5A	3361	broad.mit.edu	37	chr7	154862882	154862882	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggatgtcctggtggccgcGctggtcatgccgctgagcct	3	10	15	13	4	1	1	1	1	0	0	3	2	2	2	4	4	2	2	4	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:154862882G>A	uc003wlu.1	+	1	337	c.273G>A	c.(271-273)GCG>GCA	p.A91A	uc011kvt.1_Silent_p.S44S|uc003wlt.2_Silent_p.S44S	NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	91	Helical; Name=2; (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)		TGGTGGCCGCGCTGGTCATGC	0.672													15	37					0	0	1	0	0		A	154862882	A	A	154862882	2	1	211	1	0	0	0	0	0	0	0	1	7466	1074	38	1		1	HTR5A	7	154862882	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	95320	154862882	4275781	764	102643											
RBM33	155435	broad.mit.edu	37	chr7	155504033	155504033	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcagggaatgcacatgcCtccccagctagagaccccaa	11	5	9	16	0	1	1	1	0	0	1	2	3	2	2	6	1	3	2	6	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:155504033C>A	uc010lqk.1	+	8	1453	c.1085C>A	c.(1084-1086)CCT>CAT	p.P362H	RBM33_uc011kvv.1_Missense_Mutation_p.P171H	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	362	Pro-rich.						nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		ATGCACATGCCTCCCCAGCTA	0.632													11	77					4.3838e-07	4.5708e-07	1	1	0		A	155504033	A	A	155504033	3	1	211	1	0	0	0	0	1	0	0	0	13155	681	24	5	1115	5	RBM33	7	155504033	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	641151	155504033	3634630	765	102644											
WDR60	55112	broad.mit.edu	37	chr7	158738439	158738439	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcgtctgcttttgcaggaagCcctgtggccagagggaaaac	9	8	14	10	1	1	1	0	0	1	1	1	3	1	3	2	3	4	2	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr7:158738439C>A	uc003woe.3	+	25	3328	c.3170C>A	c.(3169-3171)GCC>GAC	p.A1057D	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Missense_Mutation_p.A689D	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	1057										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		TTGCAGGAAGCCCTGTGGCCA	0.572													8	18					4.68919e-08	4.90347e-08	1	1	0		A	158738439	A	A	158738439	3	1	211	1	0	0	0	0	1	0	0	0	17337	739	26	5	3268	5	WDR60	7	158738439	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3234406	158738439	400224	766	102645											
MYOM2	9172	broad.mit.edu	37	chr8	2040189	2040189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaagttgtcccttctgctcCgggtcgggttcttgcttccc	4	14	10	13	2	2	0	0	0	2	0	6	0	5	0	3	2	2	4	3	2	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:2040189C>T	uc003wpx.3	+	16	1982	c.1844C>T	c.(1843-1845)CCG>CTG	p.P615L	MYOM2_uc011kwi.1_Missense_Mutation_p.P40L	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	615	Fibronectin type-III 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CCTTCTGCTCCGGGTCGGGTT	0.557													113	191					0	0	1	0	0		T	2040189	T	T	2040189	3	4	211	1	0	0	0	0	1	0	0	0	10110	652	23	1	1902	1	MYOM2	8	2040189	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		2040189	144323833	767	102646											
CSMD1	64478	broad.mit.edu	37	chr8	3889462	3889462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggaagtcccacgatgcaCcatttcctgggctgacgatg	8	9	12	12	2	0	1	0	1	0	0	2	4	2	2	3	2	1	2	3	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:3889462C>T	uc011kwk.1	-	4	965	c.575G>A	c.(574-576)GGT>GAT	p.G192D		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	192	Extracellular (Potential).|Sushi 1.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CCACGATGCACCATTTCCTGG	0.552													17	24					0	0	1	0	0		T	3889462	T	T	3889462	3	4	211	1	0	0	0	0	1	0	0	0	3947	507	18	4	10200	4	CSMD1	8	3889462	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1849273	3889462	142474560	768	102647											
DEFA4	1669	broad.mit.edu	37	chr8	6793553	6793553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagaacgttaatcgacacGcgtgcagcagtatgtgaaac	14	7	11	9	4	0	2	0	1	0	1	1	3	0	2	0	0	5	5	0	0	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:6793553G>A	uc003wqu.1	-	3	334	c.283C>T	c.(283-285)CGT>TGT	p.R95C		NM_001925	NP_001916	P12838	DEF4_HUMAN	defensin, alpha 4 preproprotein	95					defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular space				large_intestine(1)	1				COAD - Colon adenocarcinoma(149;0.0572)|READ - Rectum adenocarcinoma(644;0.121)		TAATCGACACGCGTGCAGCAG	0.507													60	94					0	0	1	0	0		A	6793553	A	A	6793553	3	1	211	1	0	0	0	0	1	0	0	0	4394	1087	38	1	14	1	DEFA4	8	6793553	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2904091	6793553	139570469	769	102648											
MFHAS1	9258	broad.mit.edu	37	chr8	8749154	8749154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagtcatacacgatgaacCgcaggccccgggaggcatcg	11	5	12	13	4	1	1	1	1	0	0	2	3	1	2	3	3	2	2	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:8749154C>T	uc003wsj.1	-	1	1978	c.1415G>A	c.(1414-1416)CGG>CAG	p.R472Q		NM_004225	NP_004216	Q9Y4C4	MFHA1_HUMAN	malignant fibrous histiocytoma amplified	472	Roc.										0		Hepatocellular(245;0.217)		COAD - Colon adenocarcinoma(149;0.124)		CACGATGAACCGCAGGCCCCG	0.612													19	75					0	0	1	0	0		T	8749154	T	T	8749154	3	4	211	1	0	0	0	0	1	0	0	0	9539	652	23	1	1755	1	MFHAS1	8	8749154	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1955601	8749154	137614868	770	102649											
MTMR9	66036	broad.mit.edu	37	chr8	11157581	11157581	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgtaccctttcttttaccGtcctatgtttgaagtgatag	8	17	8	8	1	1	2	0	2	1	0	2	3	2	2	3	0	2	2	3	0	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:11157581G>A	uc003wtm.2	+	3	739	c.341G>A	c.(340-342)CGT>CAT	p.R114H	MTMR9_uc010lrx.2_Missense_Mutation_p.R7H|MTMR9_uc011kxa.1_Missense_Mutation_p.R29H	NM_015458	NP_056273	Q96QG7	MTMR9_HUMAN	myotubularin related protein 9	114						cytoplasm	phosphatase activity|protein binding				0			STAD - Stomach adenocarcinoma(15;0.215)	COAD - Colon adenocarcinoma(149;0.0678)		TTCTTTTACCGTCCTATGTTT	0.408													35	161					0	0	1	0	0		A	11157581	A	A	11157581	3	1	211	1	0	0	0	0	1	0	0	0	9968	1145	40	1	351	1	MTMR9	8	11157581	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2408427	11157581	135206441	771	102650											
GATA4	2626	broad.mit.edu	37	chr8	11565838	11565838	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gaccatgtatcagagcttggCcatggccgccaaccacgggc	9	6	12	14	2	1	1	1	0	0	1	1	2	1	1	5	3	2	2	5	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:11565838C>T	uc003wuc.2	+	2	571	c.17C>T	c.(16-18)GCC>GTC	p.A6V	GATA4_uc011kxb.1_Missense_Mutation_p.A6V|GATA4_uc003wub.1_Intron|GATA4_uc010lrz.1_Missense_Mutation_p.A6V|GATA4_uc011kxc.1_Missense_Mutation_p.A6V	NM_002052	NP_002043	P43694	GATA4_HUMAN	GATA binding protein 4	6					atrial septum primum morphogenesis|atrial septum secundum morphogenesis|blood coagulation|cardiac right ventricle morphogenesis|cell-cell signaling|embryonic foregut morphogenesis|embryonic heart tube anterior/posterior pattern formation|endocardial cushion development|endoderm development|heart looping|intestinal epithelial cell differentiation|male gonad development|positive regulation of angiogenesis|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation vascular endothelial growth factor production|response to drug|transcription from RNA polymerase II promoter|ventricular septum development	nucleoplasm	activating transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(15;0.0839)		STAD - Stomach adenocarcinoma(15;0.00225)	COAD - Colon adenocarcinoma(149;0.199)		CAGAGCTTGGCCATGGCCGCC	0.706													4	12					0	0	1	0	0		T	11565838	T	T	11565838	3	4	211	1	0	0	0	0	1	0	0	0	6271	739	26	2	19	2	GATA4	8	11565838	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	408257	11565838	134798184	772	102651											
FAM86B2	653333	broad.mit.edu	37	chr8	12285288	12285288	+	Missense_Mutation	SNP	A	G	G	1	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	gcaggaccccgaccagcgacAcgatggcttctgggcaatac	10	5	12	14	3	1	0	0	0	1	0	1	4	1	1	3	3	2	3	3	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:12285288A>G	uc003wvt.3	-	7	770	c.770T>C	c.(769-771)GTG>GCG	p.V257A	FAM66D_uc011kxp.1_Intron|uc003wvm.1_Intron|uc003wvp.1_5'Flank|FAM86B2_uc003wvq.3_RNA|FAM86B2_uc003wvr.3_Missense_Mutation_p.V80A|FAM86B2_uc003wvs.3_Missense_Mutation_p.V157A|FAM86B2_uc010lsn.2_RNA|FAM86B2_uc003wvu.3_Missense_Mutation_p.V66A|FAM86B2_uc010lso.2_RNA|FAM86B2_uc011kxt.1_Missense_Mutation_p.V29A|FAM86B2_uc011kxu.1_RNA|FAM86B2_uc010lsl.2_RNA	NM_001137610	NP_001131082	P0C5J1	F86B2_HUMAN	hypothetical protein LOC653333	257											0						GACCAGCGACACGATGGCTTC	0.587													6	41					0	0	1	0	0		G	12285288	G	G	12285288	3	3	211	1	0	0	0	0	1	0	0	0	5659	159	6	3	230	3	FAM86B2	8	12285288	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	719450	12285288	134078734	773	102652											
C8orf79	57604	broad.mit.edu	37	chr8	12863855	12863855	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagaagccaggcagcctcatCgctgacataggtaaccaggc	12	5	11	13	1	1	2	1	1	0	1	2	2	1	2	3	3	3	3	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:12863855C>T	uc010lsq.2	+	3	636	c.144C>T	c.(142-144)ATC>ATT	p.I48I	C8orf79_uc011kxw.1_Silent_p.I48I	NM_020844	NP_065895	Q9P272	K1456_HUMAN	hypothetical protein LOC57604 isoform 1	48							methyltransferase activity				0						GCAGCCTCATCGCTGACATAG	0.567													18	31					0	0	1	0	0		T	12863855	T	T	12863855	2	4	211	1	0	0	0	0	0	0	0	1	2441	874	31	1		1	C8orf79	8	12863855	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	578567	12863855	133500167	774	102653											
DLC1	10395	broad.mit.edu	37	chr8	12956932	12956932	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggagggctcttccggttcatTcagggagttgcctgtgctgt	4	13	15	9	1	3	0	2	0	1	0	4	2	4	2	2	4	2	4	2	4	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:12956932T>C	uc003wwm.2	-	9	3358	c.2914A>G	c.(2914-2916)AAT>GAT	p.N972D	DLC1_uc003wwk.1_Missense_Mutation_p.N535D|DLC1_uc003wwl.1_Missense_Mutation_p.N569D|DLC1_uc011kxx.1_Missense_Mutation_p.N461D	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	972					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TCCGGTTCATTCAGGGAGTTG	0.577													17	74					0	0	1	0	0		C	12956932	C	C	12956932	3	2	211	1	0	0	0	0	1	0	0	0	4556	1783	62	3	1712	3	DLC1	8	12956932	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	93077	12956932	133407090	775	102654											
MTMR7	9108	broad.mit.edu	37	chr8	17188712	17188712	+	Missense_Mutation	SNP	A	G	G	1	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	catggatgttctctatcccgAtaaactgaaacttgatattg	12	14	7	8	1	1	2	0	2	1	0	3	4	2	3	1	1	2	1	1	1	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:17188712A>G	uc003wxm.2	-	7	1051	c.812T>C	c.(811-813)ATC>ACC	p.I271T	MTMR7_uc003wxn.2_Missense_Mutation_p.I50T	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7	271	Myotubularin phosphatase.						protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		CTCTATCCCGATAAACTGAAA	0.393													18	78					0	0	1	0	0		G	17188712	G	G	17188712	3	3	211	1	0	0	0	0	1	0	0	0	9966	333	12	3	1202	3	MTMR7	8	17188712	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4231780	17188712	129175310	776	102655											
INTS10	55174	broad.mit.edu	37	chr8	19684046	19684046	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atccataaaaagaggaaactAgctgaaggaagagaaaaaac	23	4	9	5	0	0	3	0	1	0	2	1	6	1	5	1	2	3	1	1	2	10	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:19684046A>G	uc003wzj.2	+	9	1247	c.1116A>G	c.(1114-1116)CTA>CTG	p.L372L		NM_018142	NP_060612	Q9NVR2	INT10_HUMAN	integrator complex subunit 10	372					snRNA processing	integrator complex	protein binding			ovary(1)	1				Colorectal(111;0.057)|COAD - Colon adenocarcinoma(73;0.215)		AGAGGAAACTAGCTGAAGGAA	0.373													17	48					0	0	1	0	0		G	19684046	G	G	19684046	2	3	211	1	0	0	0	0	0	0	0	1	7792	407	15	3		3	INTS10	8	19684046	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2495334	19684046	126679976	777	102656											
GFRA2	2675	broad.mit.edu	37	chr8	21560457	21560457	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttttggggacacgttcacgtCcgtgccgttgccaaaggcct	6	11	12	12	4	1	0	1	0	0	0	2	1	2	1	4	3	2	2	4	3	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:21560457C>T	uc003wzu.1	-	7	1753	c.1078G>A	c.(1078-1080)GAC>AAC	p.D360N	GFRA2_uc003wzv.1_Missense_Mutation_p.D255N|GFRA2_uc003wzw.1_Missense_Mutation_p.D227N	NM_001495	NP_001486	O00451	GFRA2_HUMAN	GDNF family receptor alpha 2 isoform a	360						anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		ACGTTCACGTCCGTGCCGTTG	0.622													3	24					0	0	1	0	0		T	21560457	T	T	21560457	3	4	211	1	0	0	0	0	1	0	0	0	6363	855	30	4	328	4	GFRA2	8	21560457	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1876411	21560457	124803565	778	102657											
EGR3	1960	broad.mit.edu	37	chr8	22548299	22548299	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtccgaacggctgaaacggCggtcgcagccctcggccggg	6	4	16	15	8	0	1	0	1	0	0	3	2	1	1	3	5	3	2	3	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:22548299C>T	uc003xcm.1	-	2	1209	c.851G>A	c.(850-852)CGC>CAC	p.R284H	EGR3_uc011kzn.1_Missense_Mutation_p.R246H|EGR3_uc011kzo.1_Missense_Mutation_p.R230H	NM_004430	NP_004421	Q06889	EGR3_HUMAN	early growth response 3	284	C2H2-type 1.				circadian rhythm|muscle organ development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		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)		GCTGAAACGGCGGTCGCAGCC	0.697													40	56					0	0	1	0	0		T	22548299	T	T	22548299	3	4	211	1	0	0	0	0	1	0	0	0	4979	768	27	1	316	1	EGR3	8	22548299	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	987842	22548299	123815723	779	102658											
ENTPD4	9583	broad.mit.edu	37	chr8	23290492	23290492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccctcctccatccagagggCggcggccgagctgctccggg	4	5	15	17	4	0	1	0	0	0	1	4	2	4	1	6	4	2	2	6	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:23290492C>T	uc003xdl.2	-	13	1962	c.1798G>A	c.(1798-1800)GCC>ACC	p.A600T	ENTPD4_uc011kzu.1_Intron|ENTPD4_uc003xdm.2_Missense_Mutation_p.A592T	NM_004901	NP_004892	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4	600	Cytoplasmic (Potential).				UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		ATCCAGAGGGCGGCGGCCGAG	0.642													16	16					0	0	1	0	0		T	23290492	T	T	23290492	3	4	211	1	0	0	0	0	1	0	0	0	5149	768	27	1	56	1	ENTPD4	8	23290492	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	742193	23290492	123073530	780	102659											
ADAM7	8756	broad.mit.edu	37	chr8	24349444	24349444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagggtccatatgcagacCggcgaaagatgaatgtgatt	13	8	13	7	2	0	4	0	2	0	2	1	5	1	4	2	2	2	2	2	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:24349444C>T	uc003xeb.2	+	14	1498	c.1385C>T	c.(1384-1386)CCG>CTG	p.P462L	ADAM7_uc003xec.2_Missense_Mutation_p.P234L	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	462	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		ATATGCAGACCGGCGAAAGAT	0.438													15	26					0	0	1	0	0		T	24349444	T	T	24349444	3	4	211	1	0	0	0	0	1	0	0	0	251	652	23	1	1439	1	ADAM7	8	24349444	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1058952	24349444	122014578	781	102660											
NEFM	4741	broad.mit.edu	37	chr8	24771390	24771390	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgagcttcagccgcgtcagCggctccccgtccagtggctt	4	9	12	16	5	2	0	2	0	0	0	5	1	4	0	4	2	3	3	4	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:24771390C>A	uc003xed.3	+	1	117	c.84C>A	c.(82-84)AGC>AGA	p.S28R	NEFM_uc011lac.1_Missense_Mutation_p.S28R|NEFM_uc010lue.2_5'Flank|uc010luc.1_3'UTR	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	28	Head.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		GCCGCGTCAGCGGCTCCCCGT	0.697													11	17					4.7546e-09	4.99129e-09	1	1	0		A	24771390	A	A	24771390	3	1	211	1	0	0	0	0	1	0	0	0	10335	767	27	5	86	5	NEFM	8	24771390	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	421946	24771390	121592632	782	102661											
NEFL	4747	broad.mit.edu	37	chr8	24813101	24813101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggtcttggccttgagcagaCgacggctctcggacacctcg	6	8	14	13	4	2	2	0	1	2	1	4	4	2	3	2	4	1	2	2	4	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:24813101C>T	uc003xee.2	-	1	1031	c.929G>A	c.(928-930)CGT>CAT	p.R310H		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	310	Rod.|Coil 2B.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CTTGAGCAGACGACGGCTCTC	0.632													13	48					0	0	1	0	0		T	24813101	T	T	24813101	3	4	211	1	0	0	0	0	1	0	0	0	10334	536	19	1	719	1	NEFL	8	24813101	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	41711	24813101	121550921	783	102662											
NEFL	4747	broad.mit.edu	37	chr8	24813732	24813732	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcgatgaagctggcgaagcGgtcattgaggtcctggagct	8	9	15	9	3	1	2	1	2	0	0	3	5	2	3	1	4	3	2	1	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:24813732G>A	uc003xee.2	-	1	400	c.298C>T	c.(298-300)CGC>TGC	p.R100C		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	100	Rod.|Coil 1A.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CTGGCGAAGCGGTCATTGAGG	0.627													14	19					0	0	1	0	0		A	24813732	A	A	24813732	3	1	211	1	0	0	0	0	1	0	0	0	10334	1116	39	1	1350	1	NEFL	8	24813732	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	631	24813732	121550290	784	102663											
CDCA2	157313	broad.mit.edu	37	chr8	25323825	25323825	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaggcaggaaaagagtcCgagatgacagacttgagtga	15	6	14	6	1	1	7	1	3	0	4	2	9	2	8	1	2	0	1	1	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:25323825C>T	uc003xep.1	+	5	1001	c.522C>T	c.(520-522)TCC>TCT	p.S174S	PPP2R2A_uc003xek.2_Intron|CDCA2_uc011lae.1_Silent_p.S174S|CDCA2_uc003xeq.1_Silent_p.S159S|CDCA2_uc003xer.1_5'Flank	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	174					cell division|mitosis	cytoplasm|nucleus					0		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)		GAAAAGAGTCCGAGATGACAG	0.383													12	34					0	0	1	0	0		T	25323825	T	T	25323825	2	4	211	1	0	0	0	0	0	0	0	1	3089	639	23	1		1	CDCA2	8	25323825	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	510093	25323825	121040197	785	102664											
EBF2	64641	broad.mit.edu	37	chr8	25902265	25902265	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctgcgcggcgacattagcGtccaccactccgacattccg	7	8	9	17	6	1	0	0	0	1	0	4	2	4	0	4	1	2	0	4	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:25902265G>A	uc003xes.1	-	1	128	c.111C>T	c.(109-111)GAC>GAT	p.D37D	PPP2R2A_uc003xek.2_Intron|EBF2_uc003xet.1_Silent_p.D37D	NM_022659	NP_073150	Q9HAK2	COE2_HUMAN	early B-cell factor 2	37					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding			ovary(3)|skin(1)	4		all_cancers(63;0.0989)|Ovarian(32;2.74e-05)|all_epithelial(46;0.0608)|Prostate(55;0.0845)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0277)|Epithelial(17;3.29e-10)|Colorectal(74;0.00383)|COAD - Colon adenocarcinoma(73;0.00738)		CGACATTAGCGTCCACCACTC	0.577													89	130					0	0	1	0	0		A	25902265	A	A	25902265	2	1	211	1	0	0	0	0	0	0	0	1	4887	1136	40	1		1	EBF2	8	25902265	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	578440	25902265	120461757	786	102665											
ESCO2	157570	broad.mit.edu	37	chr8	27634065	27634065	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctcaccatttaaatctgcGctctccactgtatcttttta	8	16	5	12	1	4	0	1	0	3	0	5	0	4	0	2	1	1	3	2	1	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:27634065G>A	uc003xgg.2	+	3	323	c.240G>A	c.(238-240)GCG>GCA	p.A80A	ESCO2_uc010luy.1_RNA|ESCO2_uc003xgh.2_Silent_p.A80A	NM_001017420	NP_001017420	Q56NI9	ESCO2_HUMAN	establishment of cohesion 1 homolog 2	80					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding			central_nervous_system(1)	1		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0204)|KIRC - Kidney renal clear cell carcinoma(542;0.0955)|Kidney(114;0.115)|Colorectal(74;0.132)		TTAAATCTGCGCTCTCCACTG	0.373									SC_Phocomelia_syndrome				25	29					0	0	1	0	0		A	27634065	A	A	27634065	2	1	211	1	0	0	0	0	0	0	0	1	5257	1074	38	1		1	ESCO2	8	27634065	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1731800	27634065	118729957	787	102666											
ZNF395	55893	broad.mit.edu	37	chr8	28206714	28206714	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcgcaggtgctggctgctggGgctcgctgaagcttagcgac	5	9	16	11	3	0	1	0	1	0	0	2	2	0	1	0	4	4	7	0	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:28206714G>T	uc003xgq.2	-	9	1446	c.1358C>A	c.(1357-1359)CCC>CAC	p.P453H	ZNF395_uc003xgt.2_Missense_Mutation_p.P453H|ZNF395_uc003xgr.2_Missense_Mutation_p.P453H|ZNF395_uc003xgs.2_Missense_Mutation_p.P453H	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	453					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		TGGCTGCTGGGGCTCGCTGAA	0.617													16	134					1.3612e-06	1.41515e-06	1	1	0		T	28206714	T	T	28206714	3	4	211	1	0	0	0	0	1	0	0	0	17906	1232	43	5	191	5	ZNF395	8	28206714	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	572649	28206714	118157308	788	102667											
ADRB3	155	broad.mit.edu	37	chr8	37823754	37823754	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaggtcggctgcggccagCgaagtcacgaacacgttggt	9	6	14	12	5	1	0	1	0	0	0	2	2	1	0	2	4	3	2	2	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:37823754C>T	uc003xkr.1	-	1	431	c.234G>A	c.(232-234)TCG>TCA	p.S78S		NM_000025	NP_000016	P13945	ADRB3_HUMAN	adrenergic, beta-3-, receptor	78	Helical; Name=2; (By similarity).				carbohydrate metabolic process|energy reserve metabolic process|positive regulation of MAPKKK cascade	integral to plasma membrane|receptor complex	beta3-adrenergic receptor activity|protein homodimerization activity			lung(2)	2	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)		Norepinephrine(DB00368)|Pindolol(DB00960)|Propranolol(DB00571)	CTGCGGCCAGCGAAGTCACGA	0.692													7	39					0	0	1	0	0		T	37823754	T	T	37823754	2	4	211	1	0	0	0	0	0	0	0	1	342	755	27	1		1	ADRB3	8	37823754	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9617040	37823754	108540268	789	102668											
PLEKHA2	59339	broad.mit.edu	37	chr8	38793535	38793535	+	Silent	SNP	T	C	C	0	1	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	ctggcaatgggggcaggagcTgttggagctttgcagctgac	7	9	17	8	0	0	1	0	1	0	0	0	3	0	3	0	5	4	7	0	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:38793535T>C	uc003xmi.3	+	3	399	c.165T>C	c.(163-165)GCT>GCC	p.A55A	PLEKHA2_uc011lce.1_Silent_p.A5A	NM_021623	NP_067636	Q9HB19	PKHA2_HUMAN	pleckstrin homology domain containing, family A	55	PH 1.				positive regulation of cell-matrix adhesion	cytoplasm|nucleus|plasma membrane|protein complex	fibronectin binding|laminin binding				0		all_lung(54;0.0413)|Lung NSC(58;0.115)|Hepatocellular(245;0.152)	LUSC - Lung squamous cell carcinoma(45;4.68e-08)|COAD - Colon adenocarcinoma(9;0.235)			GGGCAGGAGCTGTTGGAGCTT	0.348													37	143					0	0	1	0	0		C	38793535	C	C	38793535	2	2	211	1	0	0	0	0	0	0	0	1	12075	1567	55	3		3	PLEKHA2	8	38793535	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	969781	38793535	107570487	790	102669											
SFRP1	6422	broad.mit.edu	37	chr8	41166309	41166309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgacacgggtagatgggccGgtccaggcagacgggcgcga	8	3	19	11	6	0	2	0	0	0	2	1	4	1	2	2	5	0	2	2	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:41166309G>A	uc003xnt.2	-	1	672	c.370C>T	c.(370-372)CGG>TGG	p.R124W		NM_003012	NP_003003	Q8N474	SFRP1_HUMAN	secreted frizzled-related protein 1 precursor	124	FZ.				brain development|canonical Wnt receptor signaling pathway|cellular response to BMP stimulus|cellular response to estradiol stimulus|cellular response to fibroblast growth factor stimulus|cellular response to heparin|cellular response to hypoxia|cellular response to interleukin-1|cellular response to prostaglandin E stimulus|cellular response to starvation|cellular response to transforming growth factor beta stimulus|cellular response to tumor necrosis factor|cellular response to vitamin D|DNA fragmentation involved in apoptotic nuclear change|dorsal/ventral axis specification|hemopoietic progenitor cell differentiation|hemopoietic stem cell differentiation|menstrual cycle phase|negative regulation of androgen receptor signaling pathway|negative regulation of B cell differentiation|negative regulation of bone remodeling|negative regulation of canonical Wnt receptor signaling pathway involved in controlling type B pancreatic cell proliferation|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cysteine-type endopeptidase activity|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast apoptosis|negative regulation of fibroblast proliferation|negative regulation of insulin secretion|negative regulation of ossification|negative regulation of osteoblast proliferation|negative regulation of peptidyl-tyrosine phosphorylation|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|osteoblast differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell growth|positive regulation of epithelial cell proliferation|positive regulation of fat cell differentiation|positive regulation of fibroblast apoptosis|positive regulation of focal adhesion assembly|positive regulation of non-canonical Wnt receptor signaling pathway|positive regulation of Rac GTPase activity|positive regulation of smoothened signaling pathway|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|regulation of angiogenesis|regulation of cell cycle process|response to drug|response to organic cyclic compound|vasculature development	cell surface|cytosol|extracellular space|plasma membrane|proteinaceous extracellular matrix	cysteine-type endopeptidase activity|drug binding|frizzled binding|heparin binding|identical protein binding|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1	Breast(1;9.19e-13)|Ovarian(28;0.00769)|Colorectal(14;0.0305)|Lung SC(25;0.211)	all_lung(54;0.0034)|Lung NSC(58;0.0134)|Hepatocellular(245;0.023)|Esophageal squamous(32;0.0559)	BRCA - Breast invasive adenocarcinoma(1;1.11e-10)|LUSC - Lung squamous cell carcinoma(45;0.00894)|COAD - Colon adenocarcinoma(11;0.0174)			TAGATGGGCCGGTCCAGGCAG	0.657													5	13					0	0	1	0	0		A	41166309	A	A	41166309	3	1	211	1	0	0	0	0	1	0	0	0	14186	1115	39	1	586	1	SFRP1	8	41166309	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2372774	41166309	105197713	791	102670											
GINS4	84296	broad.mit.edu	37	chr8	41397521	41397521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gaaggtggacctctttcgggCaggtaaacaggacgttctcc	9	9	13	10	2	2	0	0	0	2	0	4	3	2	2	2	5	1	3	2	5	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:41397521C>T	uc003xnx.2	+	6	692	c.482C>T	c.(481-483)GCA>GTA	p.A161V	GINS4_uc003xny.2_Missense_Mutation_p.A161V	NM_032336	NP_115712	Q9BRT9	SLD5_HUMAN	GINS complex subunit 4	161					DNA strand elongation involved in DNA replication|S phase of mitotic cell cycle	cytoplasm|nucleoplasm				skin(1)	1	Ovarian(28;0.014)|Colorectal(14;0.0202)|Lung SC(25;0.211)	all_lung(54;0.00732)|Lung NSC(58;0.0207)|Hepatocellular(245;0.0462)|Esophageal squamous(32;0.0844)	Colorectal(10;0.0014)|OV - Ovarian serous cystadenocarcinoma(14;0.00329)|LUSC - Lung squamous cell carcinoma(45;0.0137)|COAD - Colon adenocarcinoma(11;0.0147)			CTCTTTCGGGCAGGTAAACAG	0.493													13	61					0	0	1	0	0		T	41397521	T	T	41397521	3	4	211	1	0	0	0	0	1	0	0	0	6405	710	25	2	500	2	GINS4	8	41397521	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	231212	41397521	104966501	792	102671											
SLC20A2	6575	broad.mit.edu	37	chr8	42294538	42294538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgtgagcaaaggaccCgaaacaggcggtgaggacct	11	3	15	12	4	0	2	0	2	0	0	0	5	0	4	4	4	2	1	4	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:42294538C>T	uc010lxl.2	-	8	2186	c.1492G>A	c.(1492-1494)GGG>AGG	p.G498R	SLC20A2_uc010lxm.2_Missense_Mutation_p.G498R|SLC20A2_uc003xpe.2_Missense_Mutation_p.G498R|SLC20A2_uc011lcu.1_Missense_Mutation_p.G300R	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	498	Helical; (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GCAAAGGACCCGAAACAGGCG	0.612													5	47					0	0	1	0	0		T	42294538	T	T	42294538	3	4	211	1	0	0	0	0	1	0	0	0	14464	652	23	1	482	1	SLC20A2	8	42294538	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	897017	42294538	104069484	793	102672											
SGK196	84197	broad.mit.edu	37	chr8	42977374	42977374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaaggcacacatgttgtcaCgctgcttggctattgtgagg	8	11	12	10	1	1	1	1	1	0	0	1	1	1	1	1	3	1	5	1	3	2	4	rs138216719		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:42977374C>T	uc003xpw.2	+	5	666	c.407C>T	c.(406-408)ACG>ATG	p.T136M		NM_032237	NP_115613	Q9H5K3	SG196_HUMAN	protein kinase-like protein SgK196	136	Protein kinase.					integral to membrane	ATP binding|protein kinase activity				0						CATGTTGTCACGCTGCTTGGC	0.453													40	46					0	0	1	0	0		T	42977374	T	T	42977374	3	4	211	1	0	0	0	0	1	0	0	0	14233	536	19	1	413	1	SGK196	8	42977374	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	682836	42977374	103386648	794	102673											
PRKDC	5591	broad.mit.edu	37	chr8	48746918	48746918	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgtggtcgaccagcgggtcaGtgctgctcccggtcagccaa	6	8	14	13	3	2	0	2	0	0	0	4	1	3	0	3	3	4	2	3	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:48746918G>A	uc003xqi.2	-	60	8048	c.7991C>T	c.(7990-7992)ACT>ATT	p.T2664I	PRKDC_uc003xqj.2_Missense_Mutation_p.T2664I|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2664	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CAGCGGGTCAGTGCTGCTCCC	0.562								NHEJ					69	94					0	0	1	0	0		A	48746918	A	A	48746918	3	1	211	1	0	0	0	0	1	0	0	0	12543	1029	36	4	4507	4	PRKDC	8	48746918	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5769544	48746918	97617104	795	102674											
PXDNL	137902	broad.mit.edu	37	chr8	52384839	52384839	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggtacctccacatcctgCggctcaaaagtaattcgggg	10	9	11	11	2	1	0	1	0	0	0	4	1	3	0	3	4	2	3	3	4	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:52384839C>T	uc003xqu.3	-	8	821	c.720G>A	c.(718-720)CCG>CCA	p.P240P		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	240	Ig-like C2-type 1.				hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CCACATCCTGCGGCTCAAAAG	0.423													23	90					0	0	1	0	0		T	52384839	T	T	52384839	2	4	211	1	0	0	0	0	0	0	0	1	12873	755	27	1		1	PXDNL	8	52384839	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3637921	52384839	93979183	796	102675											
NPBWR1	2831	broad.mit.edu	37	chr8	53853402	53853402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctctacgccttcctggacgCcagcttccgcaggaacctcc	6	8	8	19	3	1	0	0	0	1	0	4	2	4	2	7	2	3	2	7	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:53853402C>T	uc011ldu.1	+	1	935	c.935C>T	c.(934-936)GCC>GTC	p.A312V		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	312	Cytoplasmic (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				TTCCTGGACGCCAGCTTCCGC	0.657													10	44					0	0	1	0	0		T	53853402	T	T	53853402	3	4	211	1	0	0	0	0	1	0	0	0	10587	739	26	2	937	2	NPBWR1	8	53853402	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1468563	53853402	92510620	797	102676											
OPRK1	4986	broad.mit.edu	37	chr8	54147537	54147537	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatggaaattactatcttgCacagcacatccccaaaaggc	15	8	6	12	0	1	0	0	0	1	0	2	1	2	1	2	2	3	2	2	2	6	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:54147537C>T	uc003xrh.1	-	2	767	c.392G>A	c.(391-393)TGC>TAC	p.C131Y	OPRK1_uc003xri.1_Missense_Mutation_p.C131Y|OPRK1_uc010lyc.1_Missense_Mutation_p.C42Y	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	131	Extracellular (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	TACTATCTTGCACAGCACATC	0.463													11	74					0	0	1	0	0		T	54147537	T	T	54147537	3	4	211	1	0	0	0	0	1	0	0	0	10904	710	25	2	758	2	OPRK1	8	54147537	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	294135	54147537	92216485	798	102677											
SOX17	64321	broad.mit.edu	37	chr8	55372288	55372288	+	Frame_Shift_Del	DEL	C	-	-																															cagcaccagcaccagcaccaCcccccgggccccggacagcc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:55372288delC	uc003xsb.3	+	2	1182	c.978delC	c.(976-978)CACfs	p.H326fs		NM_022454	NP_071899	Q9H6I2	SOX17_HUMAN	SRY-box 17	326	Gln/Pro-rich.|Sox C-terminal.				angiogenesis|cardiac cell fate determination|endocardial cell differentiation|endocardium formation|endoderm formation|heart formation|heart looping|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell growth|outflow tract morphogenesis|positive regulation of transcription, DNA-dependent|protein destabilization|protein stabilization|regulation of embryonic development|renal system development|vasculogenesis|Wnt receptor signaling pathway	transcription factor complex	beta-catenin binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			lung(1)	1		Lung NSC(129;0.109)|all_epithelial(80;0.176)|all_lung(136;0.181)	OV - Ovarian serous cystadenocarcinoma(7;1.9e-07)|Epithelial(17;1.7e-05)|all cancers(17;0.000159)			accagcaccaCCCCCCGGGCC	0.532													3	3	---	---	---	---						.	-	55372288	-	-	55372288	7	5	211	1	0	1	0	1	0	0	0	0	14972	506	18	0	984	0	SOX17	8	55372288	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1224751	55372288	90991734	799	102678											
MOS	4342	broad.mit.edu	37	chr8	57026480	57026480	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggactgctgcagggccgcGcgtccaccgatggggaaaac	9	4	16	12	4	0	0	0	0	0	0	1	3	1	2	3	4	3	2	3	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:57026480G>A	uc011leb.1	-	1	62	c.62C>T	c.(61-63)GCG>GTG	p.A21V		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	21							ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			GCAGGGCCGCGCGTCCACCGA	0.706													12	21					0	0	1	0	0		A	57026480	A	A	57026480	3	1	211	1	0	0	0	0	1	0	0	0	9730	1087	38	1	981	1	MOS	8	57026480	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1654192	57026480	89337542	800	102679											
CHD7	55636	broad.mit.edu	37	chr8	61743069	61743069	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggcggtggtcaagctaaCgtacctaacctattaaacac	15	8	8	10	2	1	0	1	0	0	0	1	0	1	0	2	3	5	2	2	3	8	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:61743069C>T	uc003xue.2	+	15	4188	c.3711C>T	c.(3709-3711)AAC>AAT	p.N1237N		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1237					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GTCAAGCTAACGTACCTAACC	0.413													58	57					0	0	1	0	0		T	61743069	T	T	61743069	2	4	211	1	0	0	0	0	0	0	0	1	3333	535	19	1		1	CHD7	8	61743069	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4716589	61743069	84620953	801	102680											
CHD7	55636	broad.mit.edu	37	chr8	61748719	61748719	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggcaatgatccaggctgCtggcaagctagtgctgattg	9	9	13	10	0	0	2	0	2	0	0	1	2	1	2	2	3	3	6	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:61748719C>T	uc003xue.2	+	16	4343	c.3866C>T	c.(3865-3867)GCT>GTT	p.A1289V		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1289					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			ATCCAGGCTGCTGGCAAGCTA	0.488													14	30					0	0	1	0	0		T	61748719	T	T	61748719	3	4	211	1	0	0	0	0	1	0	0	0	3333	797	28	2	3924	2	CHD7	8	61748719	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5650	61748719	84615303	802	102681											
CHD7	55636	broad.mit.edu	37	chr8	61749516	61749516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaggcattaacctcactgCtgctgatacctgcatcatct	9	14	6	12	0	3	1	2	1	1	0	3	1	3	1	2	1	5	4	2	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:61749516C>T	uc003xue.2	+	17	4607	c.4130C>T	c.(4129-4131)GCT>GTT	p.A1377V		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	1377	Helicase C-terminal.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			AACCTCACTGCTGCTGATACC	0.453													64	76					0	0	1	0	0		T	61749516	T	T	61749516	3	4	211	1	0	0	0	0	1	0	0	0	3333	797	28	2	4192	2	CHD7	8	61749516	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	797	61749516	84614506	803	102682											
CHD7	55636	broad.mit.edu	37	chr8	61777588	61777588	+	Missense_Mutation	SNP	A	G	G	1	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	actccagggttttgttcctgAgtcgatgtttgaccgccttc	5	15	10	11	2	0	2	0	2	0	0	4	3	2	2	4	1	0	3	4	1	0	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:61777588A>G	uc003xue.2	+	38	8567	c.8090A>G	c.(8089-8091)GAG>GGG	p.E2697G		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2697					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			TTTGTTCCTGAGTCGATGTTT	0.552													6	4					0	0	1	0	0		G	61777588	G	G	61777588	3	3	211	1	0	0	0	0	1	0	0	0	3333	304	11	3	8236	3	CHD7	8	61777588	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	28072	61777588	84586434	804	102683											
ASPH	444	broad.mit.edu	37	chr8	62475336	62475336	+	Silent	SNP	T	C	C	0	1	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	ttctttgcattgtcattatcTcctatcaagaggtatcccac	9	16	5	11	0	4	1	2	0	2	1	6	1	5	1	2	1	1	2	2	1	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:62475336T>C	uc003xuj.2	-	18	1673	c.1404A>G	c.(1402-1404)GGA>GGG	p.G468G	ASPH_uc011leg.1_Silent_p.G439G|ASPH_uc003xuo.2_Silent_p.G449G	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	468	TPR 2.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	TGTCATTATCTCCTATCAAGA	0.348													23	88					0	0	1	0	0		C	62475336	C	C	62475336	2	2	211	1	0	0	0	0	0	0	0	1	1054	1538	54	3		3	ASPH	8	62475336	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	697748	62475336	83888686	805	102684											
MTFR1	9650	broad.mit.edu	37	chr8	66582207	66582207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgcttggctggattaagcGcctaattaggatggtttttc	9	15	11	6	1	0	0	0	0	0	0	1	2	0	2	1	4	2	3	1	4	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:66582207G>A	uc003xvm.2	+	2	232	c.20G>A	c.(19-21)CGC>CAC	p.R7H	MTFR1_uc011lep.1_Missense_Mutation_p.R7H|MTFR1_uc003xvn.2_Missense_Mutation_p.R7H|MTFR1_uc003xvo.1_5'UTR	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	7						mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			TGGATTAAGCGCCTAATTAGG	0.368													72	102					0	0	1	0	0		A	66582207	A	A	66582207	3	1	211	1	0	0	0	0	1	0	0	0	9943	1087	38	1	22	1	MTFR1	8	66582207	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4106871	66582207	79781815	806	102685											
C8orf34	116328	broad.mit.edu	37	chr8	69552649	69552649	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatggagggagtaacaaccCtggtaccttctgggagcaaa	13	7	13	8	0	1	0	0	0	1	0	1	4	1	3	2	4	4	3	2	4	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:69552649C>T	uc010lyz.2	+	8	935	c.886C>T	c.(886-888)CTG>TTG	p.L296L	C8orf34_uc003xyb.2_Silent_p.L271L	NM_052958	NP_443190	Q49A92	CH034_HUMAN	hypothetical protein LOC116328	296					signal transduction		cAMP-dependent protein kinase regulator activity			large_intestine(1)	1			Epithelial(68;0.0117)|OV - Ovarian serous cystadenocarcinoma(28;0.0227)|all cancers(69;0.0502)			AGTAACAACCCTGGTACCTTC	0.418													28	63					0	0	1	0	0		T	69552649	T	T	69552649	2	4	211	1	0	0	0	0	0	0	0	1	2425	680	24	4		4	C8orf34	8	69552649	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2970442	69552649	76811373	807	102686											
SULF1	23213	broad.mit.edu	37	chr8	70540063	70540063	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagtgagaggacatctgaaGagaaggaagcctgaggaatg	16	5	16	4	0	1	4	0	3	1	2	1	10	1	7	1	3	1	0	1	3	5	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:70540063G>T	uc010lza.1	+	17	2721	c.2004G>T	c.(2002-2004)AAG>AAT	p.K668N	SULF1_uc003xyd.2_Missense_Mutation_p.K668N|SULF1_uc003xye.2_Missense_Mutation_p.K668N|SULF1_uc003xyf.2_Missense_Mutation_p.K668N|SULF1_uc003xyg.2_Missense_Mutation_p.K668N|SULF1_uc003xyh.1_RNA|SULF1_uc003xyi.1_5'UTR	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	668					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			GACATCTGAAGAGAAGGAAGC	0.398													22	121					1.5548e-18	1.69765e-18	1	1	0		T	70540063	T	T	70540063	3	4	211	1	0	0	0	0	1	0	0	0	15395	933	33	5	2054	5	SULF1	8	70540063	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	987414	70540063	75823959	808	102687											
STAU2	27067	broad.mit.edu	37	chr8	74526053	74526053	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaagaggtggaagtttttTaagctcctgtaagacggtgg	11	11	15	4	1	0	2	0	0	0	2	1	4	1	4	1	5	1	3	1	5	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:74526053T>A	uc003xzm.2	-	9	1053	c.817A>T	c.(817-819)AAA>TAA	p.K273*	STAU2_uc011lfg.1_Nonsense_Mutation_p.K101*|STAU2_uc003xzn.2_Nonsense_Mutation_p.K241*|STAU2_uc011lfh.1_Nonsense_Mutation_p.K169*|STAU2_uc003xzo.2_Nonsense_Mutation_p.K273*|STAU2_uc003xzp.2_Nonsense_Mutation_p.K241*|STAU2_uc011lfi.1_Nonsense_Mutation_p.K235*|STAU2_uc003xzq.2_Nonsense_Mutation_p.K53*|STAU2_uc010lzk.2_Nonsense_Mutation_p.K241*|STAU2_uc010lzl.1_Nonsense_Mutation_p.K101*	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e	273	DRBM 3.|Nuclear localization signal 1 (By similarity).				transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			GGAAGTTTTTTAAGCTCCTGT	0.403													43	35					0	0	1	0	0		A	74526053	A	A	74526053	4	1	211	1	0	0	0	0	0	1	0	0	15298	1763	61	5	1047	5	STAU2	8	74526053	Nonsense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3985990	74526053	71837969	809	102688											
RALYL	138046	broad.mit.edu	37	chr8	85441711	85441711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggaaaaatagttggatgttCcgttcacaaaggttatgcat	13	13	10	5	1	1	0	1	0	0	0	2	2	2	2	1	3	1	5	1	3	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:85441711C>T	uc003ycq.3	+	3	571	c.155C>T	c.(154-156)TCC>TTC	p.S52F	RALYL_uc003ycr.3_Missense_Mutation_p.S52F|RALYL_uc003ycs.3_Missense_Mutation_p.S52F|RALYL_uc010lzy.2_Missense_Mutation_p.S52F|RALYL_uc003yct.3_Missense_Mutation_p.S65F	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2	52	RRM.						identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						GTTGGATGTTCCGTTCACAAA	0.428													10	38					0	0	1	0	0		T	85441711	T	T	85441711	3	4	211	1	0	0	0	0	1	0	0	0	13045	855	30	4	200	4	RALYL	8	85441711	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	10915658	85441711	60922311	810	102689											
CA3	761	broad.mit.edu	37	chr8	86354377	86354377	+	Missense_Mutation	SNP	A	G	G	1	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	ctggggctcttcggatgatcAtggctctgagcacaccgtgg	6	10	14	11	2	3	2	1	2	2	0	4	3	3	3	1	5	1	3	1	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:86354377A>G	uc003ydj.2	+	3	391	c.308A>G	c.(307-309)CAT>CGT	p.H103R	CA3_uc011lfv.1_Intron	NM_005181	NP_005172	P07451	CAH3_HUMAN	carbonic anhydrase III	103					one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0						TCGGATGATCATGGCTCTGAG	0.502													53	71					0	0	1	0	0		G	86354377	G	G	86354377	3	3	211	1	0	0	0	0	1	0	0	0	2520	217	8	3	318	3	CA3	8	86354377	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	912666	86354377	60009645	811	102690											
FAM92A1	137392	broad.mit.edu	37	chr8	94738661	94738661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgcaccagattattcatctCgtttagatattgtaagagca	13	14	7	7	1	2	3	1	0	1	3	3	3	2	3	1	0	2	4	1	0	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:94738661C>T	uc010maq.2	+	7	800	c.697C>T	c.(697-699)CGT>TGT	p.R233C	FAM92A1_uc003yfv.3_RNA|FAM92A1_uc003yfx.3_RNA|FAM92A1_uc003yfw.3_RNA|FAM92A1_uc010mar.2_Missense_Mutation_p.R40C	NM_145269	NP_660312	A1XBS5	F92A1_HUMAN	hypothetical protein LOC137392	233											0	Breast(36;2.4e-06)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TTATTCATCTCGTTTAGATAT	0.358													18	26					0	0	1	0	0		T	94738661	T	T	94738661	3	4	211	1	0	0	0	0	1	0	0	0	5666	884	31	1	723	1	FAM92A1	8	94738661	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8384284	94738661	51625361	812	102691											
CDH17	1015	broad.mit.edu	37	chr8	95164230	95164230	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacatctgtcacaataagCgtgaacttggcaaaagaact	15	10	7	9	1	3	2	2	1	1	1	3	2	3	2	0	1	3	1	0	1	6	3	rs149027046	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:95164230C>T	uc003ygh.2	-	13	1787	c.1662G>A	c.(1660-1662)ACG>ACA	p.T554T	CDH17_uc011lgo.1_Silent_p.T340T|CDH17_uc011lgp.1_Silent_p.T554T	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor	554	Extracellular (Potential).|Cadherin 5.					integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TCACAATAAGCGTGAACTTGG	0.423													17	69					0	0	1	0	0		T	95164230	T	T	95164230	2	4	211	1	0	0	0	0	0	0	0	1	3105	755	27	1		1	CDH17	8	95164230	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	425569	95164230	51199792	813	102692											
TP53INP1	94241	broad.mit.edu	37	chr8	95952276	95952277	+	Frame_Shift_Ins	INS	-	CT	CT																															ggggtggggtgataaaccagINSctctcctccattggacatga																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:95952276_95952277insCT	uc003yhg.2	-	3	668_669	c.284_285insAG	c.(283-285)AGCfs	p.S95fs	C8orf38_uc003yhe.1_Intron|C8orf38_uc003yhf.2_Intron|TP53INP1_uc003yhh.2_Frame_Shift_Ins_p.S95fs	NM_033285	NP_150601	Q96A56	T53I1_HUMAN	tumor protein p53 inducible nuclear protein 1	95					apoptosis	PML body					0	Breast(36;8.75e-07)					TGATAAACCAGCTCTCCTCCAT	0.465													31	46	---	---	---	---						.	CT	95952277	CT	CT	95952276	7	5	211	1	0	1	1	0	0	0	0	0	16414	962	34	0	471	0	TP53INP1	8	95952276	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	788046	95952276	50411746	814	102693											
VPS13B	157680	broad.mit.edu	37	chr8	100286468	100286468	+	Missense_Mutation	SNP	T	C	C	0	1	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	gccaactcttgagggctcaaTccagaatgttgaattgaagt	12	11	10	8	0	2	4	1	3	1	1	3	4	3	4	2	1	1	2	2	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:100286468T>C	uc003yiv.2	+	18	2669	c.2558T>C	c.(2557-2559)ATC>ACC	p.I853T	VPS13B_uc003yiw.2_Missense_Mutation_p.I853T|VPS13B_uc003yiu.1_Missense_Mutation_p.I853T|VPS13B_uc003yix.1_Missense_Mutation_p.I324T	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	853					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			GAGGGCTCAATCCAGAATGTT	0.388													49	125					0	0	1	0	0		C	100286468	C	C	100286468	3	2	211	1	0	0	0	0	1	0	0	0	17216	1435	50	3	2747	3	VPS13B	8	100286468	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	4334192	100286468	46077554	815	102694											
RGS22	26166	broad.mit.edu	37	chr8	101075899	101075899	+	Frame_Shift_Del	DEL	A	-	-																															tagtttgaactaattcacttAaaaaattcttgccatgaata																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:101075899delA	uc003yjb.1	-	8	1292	c.1097delT	c.(1096-1098)TTAfs	p.L366fs	RGS22_uc003yja.1_Frame_Shift_Del_p.L185fs|RGS22_uc003yjc.1_Frame_Shift_Del_p.L354fs|RGS22_uc011lgz.1_RNA|RGS22_uc010mbo.1_RNA	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	366					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TAATTCACTTAAAAAATTCTT	0.378													40	44	---	---	---	---						.	-	101075899	-	-	101075899	7	5	211	1	0	1	0	1	0	0	0	0	13330	372	13	0	2777	0	RGS22	8	101075899	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	789431	101075899	45288123	816	102695											
UBR5	51366	broad.mit.edu	37	chr8	103269926	103269926	+	Silent	SNP	A	G	G	1	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	aaccaacgcttgaactgcagAagcttctcagcattttctcc	11	11	6	13	1	2	2	1	1	2	1	4	2	2	2	2	0	6	4	2	0	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:103269926A>G	uc003ykr.1	-	58	8154	c.8121T>C	c.(8119-8121)CTT>CTC	p.L2707L	UBR5_uc003yks.1_Silent_p.L2706L|UBR5_uc003ykq.2_Silent_p.L218L	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2707	HECT.				cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			TGAACTGCAGAAGCTTCTCAG	0.313													28	26					0	0	1	0	0		G	103269926	G	G	103269926	2	3	211	1	0	0	0	0	0	0	0	1	16931	233	9	3		3	UBR5	8	103269926	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2194027	103269926	43094096	817	102696											
KCNV1	27012	broad.mit.edu	37	chr8	110984517	110984517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcccagctttagcatgcGcagagccctgagcagcctca	8	8	10	15	1	2	2	1	1	1	1	2	2	2	2	3	0	7	4	3	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:110984517G>A	uc003ynr.3	-	2	1303	c.961C>T	c.(961-963)CGC>TGC	p.R321C	KCNV1_uc010mcw.2_Missense_Mutation_p.R321C	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	321	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			TTTAGCATGCGCAGAGCCCTG	0.507													14	42					0	0	1	0	0		A	110984517	A	A	110984517	3	1	211	1	0	0	0	0	1	0	0	0	8110	1087	38	1	549	1	KCNV1	8	110984517	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7714591	110984517	35379505	818	102697											
CSMD3	114788	broad.mit.edu	37	chr8	113348969	113348969	+	Frame_Shift_Del	DEL	A	-	-																															agggggtactcttacaagccAaaaacaatcttgaaagtttg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:113348969delA	uc003ynu.2	-	44	7090	c.6931delT	c.(6931-6933)TGGfs	p.W2311fs	CSMD3_uc003yns.2_Frame_Shift_Del_p.W1513fs|CSMD3_uc003ynt.2_Frame_Shift_Del_p.W2271fs|CSMD3_uc011lhx.1_Frame_Shift_Del_p.W2207fs|CSMD3_uc003ynw.1_Frame_Shift_Del_p.W22fs	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2311	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTTACAAGCCAAAAACAATCT	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			60	96	---	---	---	---						.	-	113348969	-	-	113348969	7	5	211	1	0	1	0	1	0	0	0	0	3949	130	5	0	4304	0	CSMD3	8	113348969	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2364452	113348969	33015053	819	102698											
COL14A1	7373	broad.mit.edu	37	chr8	121222066	121222066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatgcgagtcaaatgggatGcagtgcctggggcctcaggt	8	8	16	9	1	2	0	2	0	0	0	2	2	2	1	2	4	3	2	2	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:121222066G>A	uc003yox.2	+	12	1658	c.1393G>A	c.(1393-1395)GCA>ACA	p.A465T	COL14A1_uc003yoy.2_Missense_Mutation_p.A143T|COL14A1_uc010mde.1_Missense_Mutation_p.A143T	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	465	Fibronectin type-III 3.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			CAAATGGGATGCAGTGCCTGG	0.473													26	110					0	0	1	0	0		A	121222066	A	A	121222066	3	1	211	1	0	0	0	0	1	0	0	0	3674	1319	46	2	1435	2	COL14A1	8	121222066	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7873097	121222066	25141956	820	102699											
ATAD2	29028	broad.mit.edu	37	chr8	124381406	124381406	+	Missense_Mutation	SNP	T	C	C	0	1	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	atatgttgggctttctctggTgacgaggttctaaaaaaaag	12	13	11	5	1	2	1	0	1	2	0	3	2	2	1	0	3	0	3	0	3	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:124381406T>C	uc003yqh.3	-	8	1049	c.941A>G	c.(940-942)CAC>CGC	p.H314R	ATAD2_uc011lii.1_Missense_Mutation_p.H105R|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.H314R	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	314					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CTTTCTCTGGTGACGAGGTTC	0.323													14	30					0	0	1	0	0		C	124381406	C	C	124381406	3	2	211	1	0	0	0	0	1	0	0	0	1072	1696	59	3	3315	3	ATAD2	8	124381406	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3159340	124381406	21982616	821	102700											
FER1L6	654463	broad.mit.edu	37	chr8	125035715	125035715	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatccctgacgttttcatctGgatgctcagcaacaacagga	11	11	8	11	1	3	1	2	1	1	0	4	3	4	3	1	2	4	3	1	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:125035715G>A	uc003yqw.2	+	18	2371	c.2165G>A	c.(2164-2166)TGG>TAG	p.W722*	uc003yqx.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	722	Cytoplasmic (Potential).					integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)			GTTTTCATCTGGATGCTCAGC	0.537													73	81					0	0	1	0	0		A	125035715	A	A	125035715	4	1	211	1	0	0	0	0	0	1	0	0	5829	1357	47	4	2231	4	FER1L6	8	125035715	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	654309	125035715	21328307	822	102701											
SQLE	6713	broad.mit.edu	37	chr8	126021272	126021272	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctccaagttcaggaaaagCctggtctccaataaagtttc	12	12	7	10	0	3	0	1	0	2	0	6	1	3	1	3	2	1	2	3	2	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:126021272C>T	uc011liq.1	+	5	1808	c.882C>T	c.(880-882)AGC>AGT	p.S294S		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	294					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			ovary(1)|breast(1)	2	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	TCAGGAAAAGCCTGGTCTCCA	0.368													3	13					0	0	1	0	0		T	126021272	T	T	126021272	2	4	211	1	0	0	0	0	0	0	0	1	15153	738	26	2		2	SQLE	8	126021272	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	985557	126021272	20342750	823	102702											
TRIB1	10221	broad.mit.edu	37	chr8	126445691	126445691	+	Frame_Shift_Del	DEL	G	-	-																															tcttctttgagaaggactttGgggacatgcactcctatgtg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:126445691delG	uc003yrx.2	+	2	1075	c.493delG	c.(493-495)GGGfs	p.G165fs	TRIB1_uc011lis.1_5'UTR|TRIB1_uc010mdn.2_5'Flank	NM_025195	NP_079471	Q96RU8	TRIB1_HUMAN	G-protein-coupled receptor induced protein	165	Protein kinase.				JNK cascade|negative regulation of lipopolysaccharide-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|regulation of MAP kinase activity|response to lipopolysaccharide	cytoplasm|nucleus	ATP binding|mitogen-activated protein kinase kinase binding|protein kinase activity|protein kinase inhibitor activity|transcription factor binding|ubiquitin protein ligase binding|ubiquitin-protein ligase regulator activity			lung(1)	1	all_hematologic(1;4.97e-05)|Ovarian(258;0.00167)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)			GAAGGACTTTGGGGACATGCA	0.567													79	152	---	---	---	---						.	-	126445691	-	-	126445691	7	5	211	1	0	1	0	1	0	0	0	0	16508	1348	47	0	499	0	TRIB1	8	126445691	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	424419	126445691	19918331	824	102703											
COL22A1	169044	broad.mit.edu	37	chr8	139606332	139606332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggctcccccatggggcCggcccggcctggaagcccat	5	5	13	18	2	0	0	0	0	0	0	1	1	1	1	7	6	1	1	7	6	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:139606332C>T	uc003yvd.2	-	63	4990	c.4543G>A	c.(4543-4545)GGC>AGC	p.G1515S	COL22A1_uc011ljo.1_Missense_Mutation_p.G795S	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1515	Pro-rich.|Gly-rich.|Collagen-like 15.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			CCCATGGGGCCGGCCCGGCCT	0.652										HNSCC(7;0.00092)			29	34					0	0	1	0	0		T	139606332	T	T	139606332	3	4	211	1	0	0	0	0	1	0	0	0	3684	652	23	1	349	1	COL22A1	8	139606332	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	13160641	139606332	6757690	825	102704											
EIF2C2	27161	broad.mit.edu	37	chr8	141595331	141595331	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtaatttgattgttctcccGgaggtcccaaagtcgggtct	7	14	11	9	2	2	1	0	1	2	0	5	2	3	2	2	3	0	2	2	3	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:141595331G>A	uc003yvn.2	-	2	142	c.102C>T	c.(100-102)TCC>TCT	p.S34S	EIF2C2_uc010men.2_Intron|EIF2C2_uc010meo.2_Silent_p.S34S	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1	34					mRNA cleavage involved in gene silencing by miRNA|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|pre-miRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|micro-ribonucleoprotein complex|mRNA cap binding complex|nucleus|polysome|RNA-induced silencing complex	endoribonuclease activity, cleaving siRNA-paired mRNA|metal ion binding|protein binding|RNA 7-methylguanosine cap binding|siRNA binding|translation initiation factor activity				0	all_cancers(97;2.54e-14)|all_epithelial(106;5.99e-13)|Lung NSC(106;1.45e-05)|all_lung(105;2.07e-05)|Ovarian(258;0.0154)|Acute lymphoblastic leukemia(118;0.155)	Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.158)			TTGTTCTCCCGGAGGTCCCAA	0.507													30	115					0	0	1	0	0		A	141595331	A	A	141595331	2	1	211	1	0	0	0	0	0	0	0	1	5012	1103	39	1		1	EIF2C2	8	141595331	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1988999	141595331	4768691	826	102705											
SLC45A4	57210	broad.mit.edu	37	chr8	142222398	142222398	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccctgccttcgccggccaaCggggaagacaggcctttctg	6	7	13	15	3	1	1	0	0	1	1	2	2	1	2	5	4	2	0	5	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:142222398C>T	uc003ywd.1	-	7	2354	c.2046G>A	c.(2044-2046)CCG>CCA	p.P682P	SLC45A4_uc003ywc.1_Silent_p.P682P|SLC45A4_uc010meq.1_Silent_p.P680P	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	733					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			CGCCGGCCAACGGGGAAGACA	0.637													24	22					0	0	1	0	0		T	142222398	T	T	142222398	2	4	211	1	0	0	0	0	0	0	0	1	14668	523	19	1		1	SLC45A4	8	142222398	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	627067	142222398	4141624	827	102706											
PTP4A3	11156	broad.mit.edu	37	chr8	142437063	142437063	+	Frame_Shift_Del	DEL	C	-	-																															ggccgtttgacgatggggcgCccccgcccggcaaggtagtg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:142437063delC	uc003ywg.1	+	3	557	c.223delC	c.(223-225)CCCfs	p.P75fs	PTP4A3_uc003ywh.1_Frame_Shift_Del_p.P75fs|PTP4A3_uc010met.1_Intron	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	75						early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			CGATGGGGCGCCCCCGCCCGG	0.677													143	227	---	---	---	---						.	-	142437063	-	-	142437063	7	5	211	1	0	1	0	1	0	0	0	0	12795	739	26	0	233	0	PTP4A3	8	142437063	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	214665	142437063	3926959	828	102707											
NAPRT1	93100	broad.mit.edu	37	chr8	144658969	144658969	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacacctgggctttggccGccaggtccaccccagggccc	5	5	12	19	1	0	0	0	0	0	0	1	0	1	0	8	4	0	1	8	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144658969G>A	uc003yym.3	-	6	753	c.728C>T	c.(727-729)GCG>GTG	p.A243V	NAPRT1_uc003yyn.3_Missense_Mutation_p.A243V|NAPRT1_uc011lkh.1_Missense_Mutation_p.A243V|NAPRT1_uc003yyo.3_Missense_Mutation_p.A243V	NM_145201	NP_660202	Q6XQN6	PNCB_HUMAN	nicotinate phosphoribosyltransferase domain	243					nicotinamide metabolic process|nicotinate nucleotide salvage|response to oxidative stress|water-soluble vitamin metabolic process	cytosol|Golgi apparatus|nucleus	nicotinate phosphoribosyltransferase activity|nicotinate-nucleotide diphosphorylase (carboxylating) activity			ovary(1)	1	all_cancers(97;6.49e-11)|all_epithelial(106;4.73e-09)|Lung NSC(106;0.000202)|all_lung(105;0.000548)|Ovarian(258;0.014)|Acute lymphoblastic leukemia(118;0.155)		Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GGCTTTGGCCGCCAGGTCCAC	0.672													10	11					0	0	1	0	0		A	144658969	A	A	144658969	3	1	211	1	0	0	0	0	1	0	0	0	10183	1087	38	1	920	1	NAPRT1	8	144658969	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2221906	144658969	1705053	829	102708											
TIGD5	84948	broad.mit.edu	37	chr8	144681106	144681106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caggcgtcaaacgctacctgCgccgaagctgcctgcagcag	9	5	12	15	4	1	0	1	0	0	0	1	1	1	0	3	1	7	4	3	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144681106C>T	uc003yyx.1	+	1	886	c.886C>T	c.(886-888)CGC>TGC	p.R296C	EEF1D_uc011lki.1_5'Flank|EEF1D_uc011lkj.1_5'Flank|EEF1D_uc003yyr.2_5'Flank|EEF1D_uc003yyt.2_5'Flank|EEF1D_uc011lkk.1_5'Flank|EEF1D_uc003yys.2_5'Flank|EEF1D_uc003yyv.2_5'Flank|EEF1D_uc003yyu.2_5'Flank|EEF1D_uc011lkl.1_5'Flank	NM_032862	NP_116251	Q53EQ6	TIGD5_HUMAN	tigger transposable element derived 5	345					regulation of transcription, DNA-dependent	chromosome, centromeric region	DNA binding				0	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)			ACGCTACCTGCGCCGAAGCTG	0.697													4	21					0	0	1	0	0		T	144681106	T	T	144681106	3	4	211	1	0	0	0	0	1	0	0	0	15924	768	27	1	1035	1	TIGD5	8	144681106	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	22137	144681106	1682916	830	102709											
PYCRL	65263	broad.mit.edu	37	chr8	144688310	144688310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccttcagccagggcctcGgagaatgcacacacctgtag	9	7	11	14	1	1	1	1	0	0	1	3	2	2	1	4	2	2	3	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144688310G>A	uc003yyy.2	-	5	610	c.600C>T	c.(598-600)TCC>TCT	p.S200S	PYCRL_uc011lkm.1_Silent_p.S180S|PYCRL_uc011lkn.1_RNA	NM_023078	NP_075566	Q53H96	P5CR3_HUMAN	pyrroline-5-carboxylate reductase-like	188					proline biosynthetic process		pyrroline-5-carboxylate reductase activity				0	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;1.17e-38)|Epithelial(56;7.17e-37)|all cancers(56;2.46e-32)|Colorectal(110;0.134)|BRCA - Breast invasive adenocarcinoma(115;0.239)			CCAGGGCCTCGGAGAATGCAC	0.652													7	12					0	0	1	0	0		A	144688310	A	A	144688310	2	1	211	1	0	0	0	0	0	0	0	1	12882	1103	39	1		1	PYCRL	8	144688310	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7204	144688310	1675712	831	102710											
ZNF707	286075	broad.mit.edu	37	chr8	144776083	144776083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgggccgcagagagcgcCggaagcagcgcgcagtagag	9	1	19	12	6	0	2	0	0	0	2	0	4	0	3	3	3	3	4	3	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144776083C>T	uc003yze.3	+	7	814	c.499C>T	c.(499-501)CGG>TGG	p.R167W	ZNF707_uc010mfh.2_Missense_Mutation_p.R167W|ZNF707_uc010mfi.2_Missense_Mutation_p.R167W|ZNF707_uc003yzf.3_Missense_Mutation_p.R167W|ZNF707_uc003yzh.3_Missense_Mutation_p.R94W|ZNF707_uc011lkq.1_RNA	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	167					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CAGAGAGCGCCGGAAGCAGCG	0.682													6	28					0	0	1	0	0		T	144776083	T	T	144776083	3	4	211	1	0	0	0	0	1	0	0	0	18136	643	23	1	513	1	ZNF707	8	144776083	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	87773	144776083	1587939	832	102711											
FAM83H	286077	broad.mit.edu	37	chr8	144808130	144808130	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcccaggatcttgggcacGaacttgcccaccttgctgtc	6	10	11	14	1	1	0	0	0	1	0	2	2	1	1	3	2	4	2	3	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144808130G>A	uc003yzk.2	-	5	3570	c.3501C>T	c.(3499-3501)TTC>TTT	p.F1167F	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	1167					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		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)			TCTTGGGCACGAACTTGCCCA	0.647													6	52					0	0	1	0	0		A	144808130	A	A	144808130	2	1	211	1	0	0	0	0	0	0	0	1	5654	1049	37	1		1	FAM83H	8	144808130	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	32047	144808130	1555892	833	102712											
FAM83H	286077	broad.mit.edu	37	chr8	144809289	144809289	+	Frame_Shift_Del	DEL	C	-	-																															tctcgaggctgcggcgctcgCcccccacggcacctggggcc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144809289delC	uc003yzk.2	-	5	2411	c.2342delG	c.(2341-2343)GGCfs	p.G781fs	FAM83H_uc010mfk.1_RNA	NM_198488	NP_940890	Q6ZRV2	FA83H_HUMAN	FAM83H	781					biomineral tissue development					lung(1)|central_nervous_system(1)|pancreas(1)	3	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		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)			GCGGCGCTCGCCCCCCACGGC	0.652													3	4	---	---	---	---						.	-	144809289	-	-	144809289	7	5	211	1	0	1	0	1	0	0	0	0	5654	739	26	0	1201	0	FAM83H	8	144809289	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1159	144809289	1554733	834	102713											
EPPK1	83481	broad.mit.edu	37	chr8	144943454	144943454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctgggtacccggccgccGccctctcggcctgcccgagc	3	6	13	19	5	2	0	0	0	2	0	3	2	2	0	6	3	3	1	6	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144943454G>A	uc003zaa.1	-	1	3981	c.3968C>T	c.(3967-3969)GCG>GTG	p.A1323V		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1323	Plectin 23.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCCGGCCGCCGCCCTCTCGGC	0.662													78	80					0	0	1	0	0		A	144943454	A	A	144943454	3	1	211	1	0	0	0	0	1	0	0	0	5198	1087	38	1	3298	1	EPPK1	8	144943454	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	134165	144943454	1420568	835	102714											
PLEC	5339	broad.mit.edu	37	chr8	144990675	144990675	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagatcttgagcttggtcttAgggcaggtgaggtacttgga	8	12	16	5	0	2	3	0	2	2	1	2	5	2	4	0	5	2	3	0	5	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144990675A>G	uc003zaf.1	-	32	13895	c.13725T>C	c.(13723-13725)CCT>CCC	p.P4575P	PLEC_uc003zab.1_Silent_p.P4438P|PLEC_uc003zac.1_Silent_p.P4442P|PLEC_uc003zad.2_Silent_p.P4438P|PLEC_uc003zae.1_Silent_p.P4406P|PLEC_uc003zag.1_Silent_p.P4416P|PLEC_uc003zah.2_Silent_p.P4424P|PLEC_uc003zaj.2_Silent_p.P4465P	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4575	Globular 2.|Plectin 33.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GCTTGGTCTTAGGGCAGGTGA	0.682													43	219					0	0	1	0	0		G	144990675	G	G	144990675	2	3	211	1	0	0	0	0	0	0	0	1	12071	407	15	3		3	PLEC	8	144990675	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	47221	144990675	1373347	836	102715											
PLEC	5339	broad.mit.edu	37	chr8	144999954	144999954	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctccgcctgtgcctttgcCtgggcgtgcgcctcggccag	1	9	14	17	5	0	0	0	0	0	0	2	0	1	0	6	2	3	1	6	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:144999954C>A	uc003zaf.1	-	31	4724	c.4554G>T	c.(4552-4554)CAG>CAT	p.Q1518H	PLEC_uc003zab.1_Missense_Mutation_p.Q1381H|PLEC_uc003zac.1_Missense_Mutation_p.Q1385H|PLEC_uc003zad.2_Missense_Mutation_p.Q1381H|PLEC_uc003zae.1_Missense_Mutation_p.Q1349H|PLEC_uc003zag.1_Missense_Mutation_p.Q1359H|PLEC_uc003zah.2_Missense_Mutation_p.Q1367H|PLEC_uc003zaj.2_Missense_Mutation_p.Q1408H	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	1518	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						GTGCCTTTGCCTGGGCGTGCG	0.736													4	14					1.23904e-05	1.28318e-05	1	1	0		A	144999954	A	A	144999954	3	1	211	1	0	0	0	0	1	0	0	0	12071	680	24	5	9508	5	PLEC	8	144999954	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9279	144999954	1364068	837	102716											
PARP10	84875	broad.mit.edu	37	chr8	145057175	145057175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accacctcctggaactccccGgtgttctctgccagacgctc	6	9	8	18	2	1	1	0	0	1	1	5	2	3	2	6	2	2	2	6	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:145057175G>A	uc003zal.3	-	9	2589	c.2481C>T	c.(2479-2481)ACC>ACT	p.T827T	PARP10_uc003zak.3_Silent_p.T524T|PARP10_uc011lku.1_Silent_p.T839T|PARP10_uc011lkv.1_RNA|PARP10_uc003zam.2_Silent_p.T818T	NM_032789	NP_116178	Q53GL7	PAR10_HUMAN	poly (ADP-ribose) polymerase family, member 10	827	PARP catalytic.|Myc binding.					Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)|pancreas(1)	6	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGAACTCCCCGGTGTTCTCTG	0.657													16	100					0	0	1	0	0		A	145057175	A	A	145057175	2	1	211	1	0	0	0	0	0	0	0	1	11474	1103	39	1		1	PARP10	8	145057175	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	57221	145057175	1306847	838	102717											
SPATC1	375686	broad.mit.edu	37	chr8	145095767	145095767	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacacaccctcaagcaccacCcacatcgcccagggtgcccc	10	4	6	21	1	1	0	1	0	0	0	2	0	1	0	6	1	3	1	6	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:145095767C>A	uc011lkw.1	+	3	1167	c.1065C>A	c.(1063-1065)ACC>ACA	p.T355T	SPATC1_uc011lkx.1_Silent_p.T355T	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	355										ovary(1)|central_nervous_system(1)	2	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)			CAAGCACCACCCACATCGCCC	0.428													10	24					2.17888e-05	2.25325e-05	1	1	0		A	145095767	A	A	145095767	2	1	211	1	0	0	0	0	0	0	0	1	15042	610	22	5		5	SPATC1	8	145095767	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	38592	145095767	1268255	839	102718											
NFKBIL2	4796	broad.mit.edu	37	chr8	145661488	145661488	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcttccctgttgctggcGgggccaggcgtccaggctgc	2	9	16	14	2	0	0	0	0	0	0	2	0	2	0	3	5	3	5	3	5	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:145661488G>A	uc011llg.1	-	17	2343	c.2328C>T	c.(2326-2328)CCC>CCT	p.P776P	uc011llh.1_Intron	NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	776					cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			TGTTGCTGGCGGGGCCAGGCG	0.726													4	8					0	0	1	0	0		A	145661488	A	A	145661488	2	1	211	1	0	0	0	0	0	0	0	1	10401	1103	39	1		1	NFKBIL2	8	145661488	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	565721	145661488	702534	840	102719											
RECQL4	9401	broad.mit.edu	37	chr8	145737867	145737867	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtccaccagcttgaccatgTcaaactccacggagctgctg	10	8	9	14	1	1	1	1	1	0	0	3	2	3	2	4	1	4	3	4	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:145737867T>C	uc003zdj.2	-	18	2995	c.2963A>G	c.(2962-2964)GAC>GGC	p.D988G		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	988					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CTTGACCATGTCAAACTCCAC	0.652			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				15	25					0	0	1	0	0		C	145737867	C	C	145737867	3	2	211	1	0	0	0	0	1	0	0	0	13227	1667	58	3	683	3	RECQL4	8	145737867	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	76379	145737867	626155	841	102720											
ZNF16	7564	broad.mit.edu	37	chr8	146156252	146156252	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgctggatgaggaccgaacGctgactgaaggctttcccac	9	8	13	11	2	0	3	0	3	0	0	1	6	1	5	2	3	2	3	2	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr8:146156252G>A	uc003zet.2	-	4	2108	c.1921C>T	c.(1921-1923)CGT>TGT	p.R641C	ZNF16_uc003zeu.2_Missense_Mutation_p.R641C	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	641	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		AGGACCGAACGCTGACTGAAG	0.537													29	96					0	0	1	0	0		A	146156252	A	A	146156252	3	1	211	1	0	0	0	0	1	0	0	0	17763	1087	38	1	131	1	ZNF16	8	146156252	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	418385	146156252	207770	842	102721											
CBWD1	55871	broad.mit.edu	37	chr9	121557	121557	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagctgtttaaggatatcCttatctaaatttctgcctgc	11	15	6	9	0	2	0	0	0	2	0	3	1	3	1	2	1	4	2	2	1	6	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:121557C>A	uc003zga.3	-	15	1204	c.1098G>T	c.(1096-1098)AAG>AAT	p.K366N	CBWD1_uc010mgs.2_RNA|CBWD1_uc003zgb.3_Missense_Mutation_p.K330N|CBWD1_uc003zgc.3_Missense_Mutation_p.K347N	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1	366	CobW C-terminal.						ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		TAAGGATATCCTTATCTAAAT	0.343													39	225					2.45108e-15	2.65338e-15	1	1	0		A	121557	A	A	121557	3	1	211	1	0	0	0	0	1	0	0	0	2715	680	24	5	93	5	CBWD1	9	121557	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		121557	141091874	843	102722											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													13	126					0	0	1	0	0		G	164038	G	G	164038	5	3	211	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	42481	164038	141049393	844	102723											
KANK1	23189	broad.mit.edu	37	chr9	740797	740797	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttttttttttacagatgtgTgtaatgtggatcaccagaac	10	18	8	5	0	1	2	1	0	0	2	1	3	1	3	1	1	2	1	1	1	3	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:740797T>C	uc003zgl.1	+	13	4208	c.3559T>C	c.(3559-3561)TGT>CGT	p.C1187R	KANK1_uc003zgn.1_Missense_Mutation_p.C1187R|KANK1_uc003zgs.1_Missense_Mutation_p.C1029R|KANK1_uc010mgx.1_Missense_Mutation_p.C165R|KANK1_uc010mgy.1_Missense_Mutation_p.C99R|KANK1_uc003zgt.1_Missense_Mutation_p.C99R	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	1187	ANK 1.				negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		TACAGATGTGTGTAATGTGGA	0.493													20	51					0	0	1	0	0		C	740797	C	C	740797	3	2	211	1	0	0	0	0	1	0	0	0	7992	1696	59	3	3589	3	KANK1	9	740797	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	576759	740797	140472634	845	102724											
VLDLR	7436	broad.mit.edu	37	chr9	2647580	2647580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggatatccagtggcctaacGgaattacacttggtatgtat	11	12	10	8	2	0	0	0	0	0	0	1	2	1	2	2	4	2	2	2	4	6	6	rs147695876		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:2647580G>A	uc003zhk.1	+	12	2207	c.1810G>A	c.(1810-1812)GGA>AGA	p.G604R	VLDLR_uc003zhl.1_Missense_Mutation_p.G604R|VLDLR_uc003zhm.1_RNA|VLDLR_uc003zhn.1_Missense_Mutation_p.G563R	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a	604	Extracellular (Potential).|LDL-receptor class B 4.				cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		GTGGCCTAACGGAATTACACT	0.438													11	51					0	0	1	0	0		A	2647580	A	A	2647580	3	1	211	1	0	0	0	0	1	0	0	0	17200	1117	39	1	1856	1	VLDLR	9	2647580	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1906783	2647580	138565851	846	102725											
PTPRD	5789	broad.mit.edu	37	chr9	8485951	8485951	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgatatccctataaagaaGggtatacttggtgataatgc	13	13	10	5	0	0	3	0	2	0	1	1	3	1	3	1	2	2	2	1	2	8	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:8485951G>T	uc003zkk.2	-	27	3577	c.2866C>A	c.(2866-2868)CTT>ATT	p.L956I	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.L947I|PTPRD_uc003zkm.2_Missense_Mutation_p.L943I|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	956	Fibronectin type-III 7.|Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		CTATAAAGAAGGGTATACTTG	0.473										TSP Lung(15;0.13)			34	82					2.1956e-27	2.42316e-27	1	1	0		T	8485951	T	T	8485951	3	4	211	1	0	0	0	0	1	0	0	0	12824	1000	35	5	3016	5	PTPRD	9	8485951	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5838371	8485951	132727480	847	102726											
IFNA7	3444	broad.mit.edu	37	chr9	21201602	21201602	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgaaccagttttcaatccTtcctccttaatccttttttc	8	18	3	12	0	1	1	1	1	0	0	6	2	5	1	5	0	1	1	5	0	3	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:21201602T>C	uc003zop.1	-	1	603	c.563A>G	c.(562-564)AAG>AGG	p.K188R	IFNA14_uc003zoo.1_Intron	NM_021057	NP_066401	P01567	IFNA7_HUMAN	interferon, alpha 7 precursor	188					blood coagulation|cell-cell signaling|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		TTTTCAATCCTTCCTCCTTAA	0.383													49	124					0	0	1	0	0		C	21201602	C	C	21201602	3	2	211	1	0	0	0	0	1	0	0	0	7558	1609	56	3	10	3	IFNA7	9	21201602	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	12715651	21201602	120011829	848	102727											
KLHL9	55958	broad.mit.edu	37	chr9	21333734	21333734	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctgcatccatttattataCcgaggatcaaatctgaaaac	15	11	5	10	1	2	1	1	1	1	0	3	3	3	2	3	1	3	1	3	1	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:21333734C>T	uc003zoy.2	-	1	1696	c.1125G>A	c.(1123-1125)CGG>CGA	p.R375R	KLHL9_uc003zow.2_Intron|KLHL9_uc003zox.2_RNA	NM_018847	NP_061335	Q9P2J3	KLHL9_HUMAN	kelch-like 9	375	Kelch 2.				cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|midbody				ovary(3)|skin(1)	4				Lung(24;8.52e-27)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.118)		ATTTATTATACCGAGGATCAA	0.388													18	49					0	0	1	0	0		T	21333734	T	T	21333734	2	4	211	1	0	0	0	0	0	0	0	1	8412	494	18	4		4	KLHL9	9	21333734	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	132132	21333734	119879697	849	102728											
TAF1L	138474	broad.mit.edu	37	chr9	32633790	32633790	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggtgccccgaagaccctgTtgcttggggaaataatactc	11	9	11	10	1	0	1	0	0	0	1	1	3	0	2	3	3	3	2	3	3	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:32633790T>A	uc003zrg.1	-	1	1878	c.1788A>T	c.(1786-1788)CAA>CAT	p.Q596H	uc003zrh.1_RNA	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	596					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		GAAGACCCTGTTGCTTGGGGA	0.483													60	166					0	0	1	0	0		A	32633790	A	A	32633790	3	1	211	1	0	0	0	0	1	0	0	0	15548	1722	60	5	3696	5	TAF1L	9	32633790	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	11300056	32633790	108579641	850	102729											
APTX	54840	broad.mit.edu	37	chr9	32973609	32973609	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagctcaggcatcccatctcGgacagttactctaccagcct	9	9	8	15	1	3	0	1	0	2	0	5	2	4	1	3	2	4	3	3	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:32973609G>A	uc003zrm.2	-	7	1113	c.916C>T	c.(916-918)CGA>TGA	p.R306*	APTX_uc010mjm.2_RNA|APTX_uc003zrj.2_Nonsense_Mutation_p.R218*|APTX_uc011lns.1_Nonsense_Mutation_p.R127*|APTX_uc003zrl.2_Nonsense_Mutation_p.R132*|APTX_uc003zrn.2_Nonsense_Mutation_p.R218*|APTX_uc003zro.2_Nonsense_Mutation_p.R306*|APTX_uc003zrp.2_Nonsense_Mutation_p.R218*|APTX_uc003zrq.2_Nonsense_Mutation_p.R218*|APTX_uc003zrr.2_Nonsense_Mutation_p.R252*|APTX_uc003zrs.2_Nonsense_Mutation_p.R306*|APTX_uc003zrt.2_Nonsense_Mutation_p.R218*|APTX_uc003zru.2_Nonsense_Mutation_p.R252*|APTX_uc003zrv.2_3'UTR|APTX_uc003zrw.2_Nonsense_Mutation_p.R234*|APTX_uc003zrx.2_3'UTR|APTX_uc003zry.2_Nonsense_Mutation_p.R306*|APTX_uc003zrz.2_Nonsense_Mutation_p.R127*	NM_175072	NP_778242	Q7Z2E3	APTX_HUMAN	aprataxin isoform c	320					cell death|double-strand break repair|regulation of protein stability|response to hydrogen peroxide|single strand break repair	chromatin|nucleolus|nucleoplasm	chromatin binding|damaged DNA binding|DNA 5'-adenosine monophosphate hydrolase activity|double-stranded DNA binding|double-stranded RNA binding|phosphoglycolate phosphatase activity|phosphoprotein binding|polynucleotide 3'-phosphatase activity|protein N-terminus binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.0302)	GBM - Glioblastoma multiforme(74;0.105)		ATCCCATCTCGGACAGTTACT	0.502								Direct_reversal_of_damage|Editing_and_processing_nucleases					33	47					0	0	1	0	0		A	32973609	A	A	32973609	4	1	211	1	0	0	0	0	0	1	0	0	820	1124	39	1	116	1	APTX	9	32973609	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	339819	32973609	108239822	851	102730											
KIAA1161	57462	broad.mit.edu	37	chr9	34370860	34370860	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtaatcggtgagcagcacCggcgtcttgtcgaaaagctc	9	8	14	10	4	1	1	0	1	1	0	4	2	1	1	1	3	3	4	1	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:34370860C>A	uc003zue.3	-	3	2249	c.2082G>T	c.(2080-2082)CCG>CCT	p.P694P		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	694	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		TGAGCAGCACCGGCGTCTTGT	0.642													12	24					0.00010058	0.000103565	1	1	0		A	34370860	A	A	34370860	2	1	211	1	0	0	0	0	0	0	0	1	8227	639	23	5		5	KIAA1161	9	34370860	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1397251	34370860	106842571	852	102731											
PIGO	84720	broad.mit.edu	37	chr9	35095104	35095104	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccactatggcgtggctggcGaagttactaccagcatcaat	10	10	10	11	2	1	0	1	0	0	0	2	1	2	0	2	3	3	3	2	3	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:35095104G>A	uc003zwd.2	-	2	855	c.459C>T	c.(457-459)TTC>TTT	p.F153F	PIGO_uc003zwc.1_Silent_p.F153F|PIGO_uc003zwe.2_Silent_p.F153F|PIGO_uc003zwf.2_Silent_p.F153F|PIGO_uc003zwg.1_5'UTR	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	153					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			CGTGGCTGGCGAAGTTACTAC	0.527													28	64					0	0	1	0	0		A	35095104	A	A	35095104	2	1	211	1	0	0	0	0	0	0	0	1	11913	1049	37	1		1	PIGO	9	35095104	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	724244	35095104	106118327	853	102732											
RUSC2	9853	broad.mit.edu	37	chr9	35547693	35547693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaggcccgtcttgttgtggCcacacaaaattactataaac	12	10	7	12	1	1	0	0	0	1	0	1	0	1	0	3	2	2	1	3	2	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:35547693C>T	uc003zww.2	+	2	1430	c.1175C>T	c.(1174-1176)GCC>GTC	p.A392V	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.A392V	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	392						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			CTTGTTGTGGCCACACAAAAT	0.547													29	97					0	0	1	0	0		T	35547693	T	T	35547693	3	4	211	1	0	0	0	0	1	0	0	0	13776	739	26	2	1177	2	RUSC2	9	35547693	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	452589	35547693	105665738	854	102733											
TESK1	7016	broad.mit.edu	37	chr9	35607360	35607360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggaagatcgaggcttcaccGctgtcgtgggtgacttcggg	6	9	17	9	4	1	2	1	1	0	1	4	4	1	3	1	4	0	2	1	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:35607360G>A	uc003zxa.2	+	5	910	c.574G>A	c.(574-576)GCT>ACT	p.A192T	TESK1_uc003zwz.1_Intron|TESK1_uc010mks.2_Intron	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	192	Protein kinase.				cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			AGGCTTCACCGCTGTCGTGGG	0.542													26	80					0	0	1	0	0		A	35607360	A	A	35607360	3	1	211	1	0	0	0	0	1	0	0	0	15792	1087	38	1	592	1	TESK1	9	35607360	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	59667	35607360	105606071	855	102734											
TLN1	7094	broad.mit.edu	37	chr9	35706052	35706052	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttgttgtcaggtcctctacGgcctcggtcatcatctgcac	5	13	10	13	2	5	0	3	0	2	0	7	0	6	0	2	3	2	3	2	3	1	3	rs141032582	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:35706052G>A	uc003zxt.2	-	41	5772	c.5418C>T	c.(5416-5418)GCC>GCT	p.A1806A		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1806	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GGTCCTCTACGGCCTCGGTCA	0.602													36	123					0	0	1	0	0		A	35706052	A	A	35706052	2	1	211	1	0	0	0	0	0	0	0	1	15972	1103	39	1		1	TLN1	9	35706052	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	98692	35706052	105507379	856	102735											
CREB3	10488	broad.mit.edu	37	chr9	35736104	35736104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gattgagatatcaaacaaaaCcagcagcagcagcacctgca	17	5	8	11	0	1	1	1	1	0	1	1	3	1	1	2	0	7	5	2	0	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:35736104C>T	uc003zxv.2	+	7	1124	c.671C>T	c.(670-672)ACC>ATC	p.T224I	CREB3_uc010mla.2_Missense_Mutation_p.T143I	NM_006368	NP_006359	O43889	CREB3_HUMAN	cAMP responsive element binding protein 3	248	Cytoplasmic (Potential).				chemotaxis|induction of positive chemotaxis|interspecies interaction between organisms|negative regulation of cell cycle|positive regulation of calcium ion transport|positive regulation of cell migration|positive regulation of transcription, DNA-dependent|reactivation of latent virus|regulation of cell proliferation	cytosol|endoplasmic reticulum|endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|integral to membrane|nucleus|nucleus	cAMP response element binding protein binding|CCR1 chemokine receptor binding|DNA binding|protein dimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity				0	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)	GBM - Glioblastoma multiforme(74;0.0285)		TCAAACAAAACCAGCAGCAGC	0.517											OREG0019176	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	87					0	0	1	0	0		T	35736104	T	T	35736104	3	4	211	1	0	0	0	0	1	0	0	0	3858	507	18	4	697	4	CREB3	9	35736104	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	30052	35736104	105477327	857	102736											
SHB	6461	broad.mit.edu	37	chr9	38068427	38068427	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgctggtgctgccgctgtcGtcgggcagcgagcccgaaga	5	7	16	13	6	0	1	0	0	0	1	3	3	0	1	2	2	4	4	2	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:38068427G>A	uc004aax.2	-	1	784	c.216C>T	c.(214-216)GAC>GAT	p.D72D		NM_003028	NP_003019	Q15464	SHB_HUMAN	Src homology 2 domain containing adaptor protein	72	Mediates interaction with LAT, FAK1, JAK1 and JAK3.				angiogenesis|apoptosis|cell differentiation|signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity			central_nervous_system(2)|skin(1)	3		all_epithelial(88;0.122)		GBM - Glioblastoma multiforme(29;3.27e-05)|Lung(182;0.0658)		TGCCGCTGTCGTCGGGCAGCG	0.726													6	6					0	0	1	0	0		A	38068427	A	A	38068427	2	1	211	1	0	0	0	0	0	0	0	1	14293	1136	40	1		1	SHB	9	38068427	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2332323	38068427	103145004	858	102737											
ALDH1B1	219	broad.mit.edu	37	chr9	38395768	38395768	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgcttcctggcaccccGgctgcttagcctccagggca	4	8	12	17	2	0	0	0	0	0	0	2	0	2	0	5	3	3	6	5	3	1	2	rs61757680		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:38395768G>A	uc004aay.2	+	2	135	c.23G>A	c.(22-24)CGG>CAG	p.R8Q		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	8					carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	CTGGCACCCCGGCTGCTTAGC	0.627													14	55					0	0	1	0	0		A	38395768	A	A	38395768	3	1	211	1	0	0	0	0	1	0	0	0	493	1116	39	1	25	1	ALDH1B1	9	38395768	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	327341	38395768	102817663	859	102738											
ALDH1B1	219	broad.mit.edu	37	chr9	38396542	38396542	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttcaccggttccaccgaggTgggccacctgatccagaaag	9	7	11	14	2	1	2	1	1	0	1	3	3	3	2	6	3	0	1	6	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:38396542T>C	uc004aay.2	+	2	909	c.797T>C	c.(796-798)GTG>GCG	p.V266A		NM_000692	NP_000683	P30837	AL1B1_HUMAN	aldehyde dehydrogenase 1B1 precursor	266	NAD (By similarity).				carbohydrate metabolic process	mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity			skin(1)	1				GBM - Glioblastoma multiforme(29;0.043)|Lung(182;0.115)	NADH(DB00157)	TCCACCGAGGTGGGCCACCTG	0.607													24	53					0	0	1	0	0		C	38396542	C	C	38396542	3	2	211	1	0	0	0	0	1	0	0	0	493	1696	59	3	799	3	ALDH1B1	9	38396542	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	774	38396542	102816889	860	102739											
FAM75A3	727830	broad.mit.edu	37	chr9	40702870	40702870	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcaccaggcccaatgaccaCctcagtctcctccctaagtg	10	8	6	17	0	3	1	2	1	1	0	5	1	4	1	6	1	0	0	6	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:40702870C>T	uc010mmj.2	+	4	556	c.527C>T	c.(526-528)ACC>ATC	p.T176I		NM_001083124	NP_001076593	Q5VYP0	F75A3_HUMAN	hypothetical protein LOC727830	176	Pro-rich.					integral to membrane				ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		CCAATGACCACCTCAGTCTCC	0.597													20	228					0	0	1	0	0		T	40702870	T	T	40702870	3	4	211	1	0	0	0	0	1	0	0	0	5635	507	18	4	541	4	FAM75A3	9	40702870	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2306328	40702870	100510561	861	102740											
ZNF658	26149	broad.mit.edu	37	chr9	40772343	40772343	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	gtgtgcactaaggtgtgattTctgggagaacgttttcccac	8	13	12	8	1	1	2	0	1	1	1	2	3	2	2	1	2	2	2	1	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:40772343T>A	uc004abs.2	-	5	3084	c.2932A>T	c.(2932-2934)AAA>TAA	p.K978*	ZNF658_uc010mmm.1_Intron|ZNF658_uc010mmn.1_Nonsense_Mutation_p.K978*	NM_033160	NP_149350	Q5TYW1	ZN658_HUMAN	zinc finger protein 658	978	C2H2-type 22.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		AGGTGTGATTTCTGGGAGAAC	0.423													50	150					0	0	1	0	0		A	40772343	A	A	40772343	4	1	211	1	0	0	0	0	0	1	0	0	18094	1792	62	5	251	5	ZNF658	9	40772343	Nonsense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	69473	40772343	100441088	862	102741											
FAM75A6	389730	broad.mit.edu	37	chr9	43625469	43625469	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccagtttgctccttctggctGccatgaggtcatgtagctcc	5	13	10	13	0	2	1	1	1	1	0	4	1	4	1	4	2	3	5	4	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:43625469G>A	uc011lrb.1	-	4	3247	c.3218C>T	c.(3217-3219)GCA>GTA	p.A1073V		NM_001145196	NP_001138668	Q5VVP1	F75A6_HUMAN	hypothetical protein LOC389730	1073						integral to membrane					0						CCTTCTGGCTGCCATGAGGTC	0.537													52	139					0	0	1	0	0		A	43625469	A	A	43625469	3	1	211	1	0	0	0	0	1	0	0	0	5636	1319	46	2	817	2	FAM75A6	9	43625469	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2853126	43625469	97587962	863	102742											
PGM5	5239	broad.mit.edu	37	chr9	70993145	70993145	+	Missense_Mutation	SNP	A	G	G	1	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	tgattattggacagaatggcAtcttgtcgacacctgcggtc	9	12	11	9	2	1	2	0	1	1	1	3	4	1	3	1	3	1	1	1	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:70993145A>G	uc004agr.2	+	2	521	c.292A>G	c.(292-294)ATC>GTC	p.I98V		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	98					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						ACAGAATGGCATCTTGTCGAC	0.478													13	97					0	0	1	0	0		G	70993145	G	G	70993145	3	3	211	1	0	0	0	0	1	0	0	0	11820	217	8	3	298	3	PGM5	9	70993145	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	27367676	70993145	70220286	864	102743											
TRPM3	80036	broad.mit.edu	37	chr9	73152123	73152123	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacaatgtaggcggcgtcCgtgcagtctgacgaggtcct	7	8	15	11	5	1	1	0	1	1	0	3	3	3	2	2	4	1	2	2	4	2	1	rs147000092		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:73152123C>T	uc004aid.2	-	25	4114	c.3870G>A	c.(3868-3870)ACG>ACA	p.T1290T	TRPM3_uc004ahu.2_Silent_p.T1132T|TRPM3_uc004ahv.2_Silent_p.T1092T|TRPM3_uc004ahw.2_Silent_p.T1162T|TRPM3_uc004ahx.2_Silent_p.T1149T|TRPM3_uc004ahy.2_Silent_p.T1152T|TRPM3_uc004ahz.2_Silent_p.T1139T|TRPM3_uc004aia.2_Silent_p.T1137T|TRPM3_uc004aib.2_Silent_p.T1127T|TRPM3_uc004aic.2_Silent_p.T1290T	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1315	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						AGGCGGCGTCCGTGCAGTCTG	0.597													34	94					0	0	1	0	0		T	73152123	T	T	73152123	2	4	211	1	0	0	0	0	0	0	0	1	16613	639	23	1		1	TRPM3	9	73152123	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2158978	73152123	68061308	865	102744											
TRPM3	80036	broad.mit.edu	37	chr9	73233869	73233869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcacgtgtgcgcgatgaagtCgcggtgtttggcagccacgg	6	8	17	10	6	0	1	0	1	0	0	1	2	0	1	1	3	2	3	1	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:73233869C>T	uc004aid.2	-	16	2480	c.2236G>A	c.(2236-2238)GAC>AAC	p.D746N	TRPM3_uc004ahu.2_Missense_Mutation_p.D576N|TRPM3_uc004ahv.2_Missense_Mutation_p.D548N|TRPM3_uc004ahw.2_Missense_Mutation_p.D618N|TRPM3_uc004ahx.2_Missense_Mutation_p.D605N|TRPM3_uc004ahy.2_Missense_Mutation_p.D608N|TRPM3_uc004ahz.2_Missense_Mutation_p.D595N|TRPM3_uc004aia.2_Missense_Mutation_p.D593N|TRPM3_uc004aib.2_Missense_Mutation_p.D583N|TRPM3_uc004aic.2_Missense_Mutation_p.D746N	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	771	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GCGATGAAGTCGCGGTGTTTG	0.612													17	38					0	0	1	0	0		T	73233869	T	T	73233869	3	4	211	1	0	0	0	0	1	0	0	0	16613	884	31	1	2927	1	TRPM3	9	73233869	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	81746	73233869	67979562	866	102745											
NTRK2	4915	broad.mit.edu	37	chr9	87482168	87482168	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctccaggcccagcctcCgttatcagcaatgatgatga	10	9	8	14	1	2	3	1	3	1	0	4	3	3	3	5	1	2	2	5	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:87482168C>T	uc004aoa.1	+	15	2345	c.1407C>T	c.(1405-1407)TCC>TCT	p.S469S	NTRK2_uc004any.1_Silent_p.S469S|NTRK2_uc004anz.1_Silent_p.S485S|NTRK2_uc011lsz.1_Silent_p.S485S|NTRK2_uc011lta.1_Silent_p.S469S|NTRK2_uc004aoc.2_Silent_p.S20S	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	469	Cytoplasmic (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						GCCCAGCCTCCGTTATCAGCA	0.343										TSP Lung(25;0.17)			16	57					0	0	1	0	0		T	87482168	T	T	87482168	2	4	211	1	0	0	0	0	0	0	0	1	10726	639	23	1		1	NTRK2	9	87482168	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	14248299	87482168	53731263	867	102746											
ZCCHC6	79670	broad.mit.edu	37	chr9	88937944	88937944	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttttccacattctttcacGtcttcatacttagcagcttc	7	18	4	12	1	4	0	2	0	2	0	6	0	5	0	1	0	3	3	1	0	2	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:88937944G>A	uc004aoq.2	-	13	2936	c.2721C>T	c.(2719-2721)GAC>GAT	p.D907D	ZCCHC6_uc011ltf.1_RNA|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Silent_p.D784D|ZCCHC6_uc004aou.2_Silent_p.D907D	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	907	Glu-rich.				RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						ATTCTTTCACGTCTTCATACT	0.403													25	75					0	0	1	0	0		A	88937944	A	A	88937944	2	1	211	1	0	0	0	0	0	0	0	1	17617	1136	40	1		1	ZCCHC6	9	88937944	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1455776	88937944	52275487	868	102747											
DAPK1	1612	broad.mit.edu	37	chr9	90263711	90263711	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtctggagagatggccCtccacgtggcagctcgctat	7	9	13	12	2	1	1	0	0	1	1	3	3	2	2	2	3	2	4	2	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:90263711C>A	uc004apc.2	+	15	1483	c.1345C>A	c.(1345-1347)CTC>ATC	p.L449I	DAPK1_uc004ape.2_Missense_Mutation_p.L449I|DAPK1_uc004apd.2_Missense_Mutation_p.L449I|DAPK1_uc011ltg.1_Missense_Mutation_p.L449I|DAPK1_uc011lth.1_Missense_Mutation_p.L186I|DAPK1_uc004apf.1_Missense_Mutation_p.L3I	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	449	ANK 3.				apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						AGAGATGGCCCTCCACGTGGC	0.567									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				26	83					6.32553e-13	6.80992e-13	1	1	0		A	90263711	A	A	90263711	3	1	211	1	0	0	0	0	1	0	0	0	4238	681	24	5	1399	5	DAPK1	9	90263711	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1325767	90263711	50949720	869	102748											
S1PR3	1903	broad.mit.edu	37	chr9	91617033	91617033	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctggccagcaaggagatgcgGcgggccttcttccgtctggt	5	9	15	12	3	2	1	0	0	2	1	3	2	3	1	3	5	2	1	3	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:91617033G>A	uc004aqe.2	+	2	1314	c.918G>A	c.(916-918)CGG>CGA	p.R306R		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	306	Cytoplasmic (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						AGGAGATGCGGCGGGCCTTCT	0.622													15	38					0	0	1	0	0		A	91617033	A	A	91617033	2	1	211	1	0	0	0	0	0	0	0	1	13820	1190	42	2		2	S1PR3	9	91617033	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1353322	91617033	49596398	870	102749											
NOL8	55035	broad.mit.edu	37	chr9	95077300	95077300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcaggacgaatacactgtCggcctctgcggaggccagtg	8	6	14	13	4	1	0	0	0	1	0	2	3	1	2	3	4	2	1	3	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:95077300C>T	uc004arv.2	-	7	1944	c.1607G>A	c.(1606-1608)CGA>CAA	p.R536Q	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.R468Q	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	536					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						AATACACTGTCGGCCTCTGCG	0.493													25	46					0	0	1	0	0		T	95077300	T	T	95077300	3	4	211	1	0	0	0	0	1	0	0	0	10546	884	31	1	1940	1	NOL8	9	95077300	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3460267	95077300	46136131	871	102750											
FAM120A	23196	broad.mit.edu	37	chr9	96261128	96261128	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaattggatattattcagcGactagtaagcctatgtcatt	12	14	8	7	1	2	0	2	0	0	0	2	2	2	1	1	1	2	2	1	1	6	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:96261128G>A	uc004atw.2	+	5	1015	c.990G>A	c.(988-990)GCG>GCA	p.A330A	FAM120A_uc004atv.2_Silent_p.A330A|FAM120A_uc004atx.2_Silent_p.A112A|FAM120A_uc004aty.2_Silent_p.A112A	NM_014612	NP_055427	Q9NZB2	F120A_HUMAN	oxidative stress-associated Src activator	330						cytoplasm|plasma membrane	RNA binding				0						ATTATTCAGCGACTAGTAAGC	0.338													45	116					0	0	1	0	0		A	96261128	A	A	96261128	2	1	211	1	0	0	0	0	0	0	0	1	5426	1045	37	1		1	FAM120A	9	96261128	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1183828	96261128	44952303	872	102751											
C9orf102	375748	broad.mit.edu	37	chr9	98678534	98678534	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccaggccttttagggagtGggacctacttcaagaagcag	10	9	13	9	0	1	1	1	0	0	1	1	3	1	3	3	3	3	1	3	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:98678534G>T	uc004avt.3	+	6	1397	c.1009G>T	c.(1009-1011)GGG>TGG	p.G337W	C9orf102_uc010mrx.1_RNA|C9orf102_uc011lum.1_Missense_Mutation_p.G39W|C9orf102_uc010mry.1_Missense_Mutation_p.G39W|C9orf102_uc010mrz.2_Missense_Mutation_p.G148W	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	337					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TTTAGGGAGTGGGACCTACTT	0.423													15	58					6.72482e-11	7.16804e-11	1	1	0		T	98678534	T	T	98678534	3	4	211	1	0	0	0	0	1	0	0	0	2448	1348	47	5	1031	5	C9orf102	9	98678534	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2417406	98678534	42534897	873	102752											
ANKS6	203286	broad.mit.edu	37	chr9	101530424	101530424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcagacgggctggaccccGgtgctggccccacagggctt	5	6	15	15	2	1	1	1	0	0	1	1	2	1	2	4	5	1	4	4	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:101530424G>A	uc004ayu.2	-	11	2102	c.2081C>T	c.(2080-2082)CCG>CTG	p.P694L	ANKS6_uc004ayt.2_Missense_Mutation_p.P393L|ANKS6_uc004ayv.1_Missense_Mutation_p.P156L|ANKS6_uc004ayw.1_Missense_Mutation_p.P276L|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	694	Ser-rich.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				GCTGGACCCCGGTGCTGGCCC	0.582													14	27					0	0	1	0	0		A	101530424	A	A	101530424	3	1	211	1	0	0	0	0	1	0	0	0	692	1116	39	1	554	1	ANKS6	9	101530424	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2851890	101530424	39683007	874	102753											
TMEFF1	8577	broad.mit.edu	37	chr9	103271406	103271406	+	Silent	SNP	A	G	G	1	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	acagtaatagcaagaggaccAtgctactctggtatgtatga	14	10	10	7	0	1	2	0	1	1	1	1	3	1	3	1	2	3	5	1	2	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:103271406A>G	uc004baz.1	+	3	536	c.426A>G	c.(424-426)CCA>CCG	p.P142P	TMEFF1_uc004bay.1_Silent_p.P216P	NM_003692	NP_003683	Q8IYR6	TEFF1_HUMAN	transmembrane protein with EGF-like and two	142	Kazal-like 1.|Extracellular (Potential).				multicellular organismal development	integral to membrane|plasma membrane					0		Acute lymphoblastic leukemia(62;0.0452)				CAAGAGGACCATGCTACTCTG	0.378													19	30					0	0	1	0	0		G	103271406	G	G	103271406	2	3	211	1	0	0	0	0	0	0	0	1	16038	204	8	3		3	TMEFF1	9	103271406	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1740982	103271406	37942025	875	102754											
LPPR1	54886	broad.mit.edu	37	chr9	104075105	104075105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tattacaagcacaatcaagaCgaagagcagtcgactggcca	16	6	9	10	2	1	2	1	0	0	2	2	4	1	2	1	1	3	2	1	1	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:104075105C>T	uc004bbb.2	+	6	1061	c.662C>T	c.(661-663)ACG>ATG	p.T221M	LPPR1_uc011lvi.1_Missense_Mutation_p.T197M|LPPR1_uc004bbc.2_Missense_Mutation_p.T221M|LPPR1_uc010mtc.2_Missense_Mutation_p.T205M	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	221						integral to membrane	catalytic activity				0						ACAATCAAGACGAAGAGCAGT	0.547													15	75					0	0	1	0	0		T	104075105	T	T	104075105	3	4	211	1	0	0	0	0	1	0	0	0	8942	536	19	1	680	1	LPPR1	9	104075105	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	803699	104075105	37138326	876	102755											
EPB41L4B	54566	broad.mit.edu	37	chr9	112042122	112042122	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgggcagagtcgaggaacTggaggccaaagtaatctgtt	11	8	14	8	1	1	1	0	0	1	1	2	4	1	3	2	4	1	3	2	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:112042122T>C	uc004bdz.1	-	2	681	c.386A>G	c.(385-387)CAG>CGG	p.Q129R	EPB41L4B_uc004bea.2_Missense_Mutation_p.Q129R	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	129	FERM.					cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						GTCGAGGAACTGGAGGCCAAA	0.438													14	40					0	0	1	0	0		C	112042122	C	C	112042122	3	2	211	1	0	0	0	0	1	0	0	0	5164	1580	55	3	2568	3	EPB41L4B	9	112042122	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	7967017	112042122	29171309	877	102756											
MUSK	4593	broad.mit.edu	37	chr9	113538217	113538217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagcatgcattgggaccccaCggcctgtgccagactgccac	8	6	11	16	1	0	1	0	0	0	1	0	2	0	2	5	2	4	2	5	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:113538217C>T	uc004bey.2	+	9	1432	c.1334C>T	c.(1333-1335)ACG>ATG	p.T445M	MUSK_uc004bez.1_Missense_Mutation_p.T33M	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	445	FZ.|Extracellular (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						TGGGACCCCACGGCCTGTGCC	0.478													40	156					0	0	1	0	0		T	113538217	T	T	113538217	3	4	211	1	0	0	0	0	1	0	0	0	10007	536	19	1	1404	1	MUSK	9	113538217	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1496095	113538217	27675214	878	102757											
SNX30	401548	broad.mit.edu	37	chr9	115598612	115598612	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcttgagtttgctgccatagGtgactacttagatacatttg	9	15	10	7	0	0	3	0	2	0	1	0	3	0	3	1	1	4	3	1	1	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:115598612G>A	uc004bgj.3	+	5	885	c.737G>A	c.(736-738)GGT>GAT	p.G246D	SNX30_uc004bgi.3_5'Flank	NM_001012994	NP_001013012	Q5VWJ9	SNX30_HUMAN	sorting nexin family member 30	246					cell communication|protein transport	cytoplasm	phosphatidylinositol binding				0						GCTGCCATAGGTGACTACTTA	0.502													36	117					0	0	1	0	0		A	115598612	A	A	115598612	3	1	211	1	0	0	0	0	1	0	0	0	14925	1261	44	4	755	4	SNX30	9	115598612	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2060395	115598612	25614819	879	102758											
BSPRY	54836	broad.mit.edu	37	chr9	116124670	116124670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaaggagcaagagattttcGagaggtgagtatagaccccg	14	7	14	6	2	0	5	0	1	0	4	1	8	0	6	2	2	1	2	2	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:116124670G>A	uc004bhg.3	+	4	601	c.553G>A	c.(553-555)GAG>AAG	p.E185K	BSPRY_uc010muw.2_Missense_Mutation_p.E185K	NM_017688	NP_060158	Q5W0U4	BSPRY_HUMAN	B-box and SPRY domain containing	185					calcium ion transport	cytoplasm|membrane	zinc ion binding			breast(1)	1						AGAGATTTTCGAGAGGTGAGT	0.483													13	36					0	0	1	0	0		A	116124670	A	A	116124670	3	1	211	1	0	0	0	0	1	0	0	0	1535	1059	37	1	567	1	BSPRY	9	116124670	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	526058	116124670	25088761	880	102759											
RGS3	5998	broad.mit.edu	37	chr9	116267792	116267792	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctccagttcgagtccaggCcgtggattccggtaagttat	7	12	11	11	3	1	0	0	0	1	0	5	2	3	1	4	3	0	3	4	3	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:116267792C>T	uc004bhq.2	+	12	1177	c.968C>T	c.(967-969)GCC>GTC	p.A323V	RGS3_uc004bhr.2_Missense_Mutation_p.A211V|RGS3_uc004bhs.2_Missense_Mutation_p.A213V|RGS3_uc004bht.2_Missense_Mutation_p.A42V|RGS3_uc010muy.2_Missense_Mutation_p.A42V|RGS3_uc004bhu.2_5'UTR	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	323	PDZ.				inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						CGAGTCCAGGCCGTGGATTCC	0.577													10	40					0	0	1	0	0		T	116267792	T	T	116267792	3	4	211	1	0	0	0	0	1	0	0	0	13331	739	26	2	1151	2	RGS3	9	116267792	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	143122	116267792	24945639	881	102760											
MEGF9	1955	broad.mit.edu	37	chr9	123367553	123367553	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catcatcttccaacaatcccGaaacatctgcattgggaatg	13	10	6	12	1	3	0	1	0	2	0	5	2	5	1	2	1	3	1	2	1	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:123367553G>A	uc004bkj.1	-	8	1835	c.1835C>T	c.(1834-1836)TCG>TTG	p.S612L	MEGF9_uc011lyb.1_Missense_Mutation_p.S567L	NM_001080497	NP_001073966	Q9H1U4	MEGF9_HUMAN	multiple EGF-like-domains 9	575	Cytoplasmic (Potential).					integral to membrane	calcium ion binding				0						CAACAATCCCGAAACATCTGC	0.478													43	103					0	0	1	0	0		A	123367553	A	A	123367553	3	1	211	1	0	0	0	0	1	0	0	0	9482	1059	37	1	88	1	MEGF9	9	123367553	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7099761	123367553	17845878	882	102761											
RAB14	51552	broad.mit.edu	37	chr9	123943720	123943720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggggttcactggttagcCggcctccctgcggggctgaa	4	10	16	11	2	1	1	1	1	0	0	2	1	2	1	3	6	2	4	3	6	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:123943720C>T	uc004blc.2	-	8	1058	c.602G>A	c.(601-603)CGG>CAG	p.R201Q		NM_016322	NP_057406	P61106	RAB14_HUMAN	GTPase Rab14	201					embryo development|fibroblast growth factor receptor signaling pathway|Golgi to endosome transport|neurotransmitter secretion|protein transport|small GTPase mediated signal transduction	cytosol|early endosome membrane|Golgi membrane|Golgi stack|late endosome|lysosome|membrane fraction|nuclear outer membrane-endoplasmic reticulum membrane network|perinuclear region of cytoplasm|rough endoplasmic reticulum|trans-Golgi network transport vesicle	GDP binding|GTP binding|GTPase activity				0						ACTGGTTAGCCGGCCTCCCTG	0.532													17	36					0	0	1	0	0		T	123943720	T	T	123943720	3	4	211	1	0	0	0	0	1	0	0	0	12925	652	23	1	49	1	RAB14	9	123943720	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	576167	123943720	17269711	883	102762											
NDUFA8	4702	broad.mit.edu	37	chr9	124914576	124914576	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgccttcctctaaacaccGcctcggatctttctcttccc	5	15	4	17	2	3	0	0	0	3	0	7	1	5	1	5	1	2	0	5	1	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:124914576G>A	uc004blv.2	-	2	305	c.163C>T	c.(163-165)CGG>TGG	p.R55W		NM_014222	NP_055037	P51970	NDUA8_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	55	CHCH 1.				mitochondrial electron transport, NADH to ubiquinone|transport	mitochondrial intermembrane space|mitochondrial respiratory chain complex I	NADH dehydrogenase (ubiquinone) activity			breast(1)	1					NADH(DB00157)	TCTAAACACCGCCTCGGATCT	0.458													13	39					0	0	1	0	0		A	124914576	A	A	124914576	3	1	211	1	0	0	0	0	1	0	0	0	10290	1086	38	1	367	1	NDUFA8	9	124914576	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	970856	124914576	16298855	884	102763											
RC3H2	54542	broad.mit.edu	37	chr9	125627678	125627678	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcattctgaccattagcGccaacctttcccactttctt	8	13	5	15	1	2	1	0	1	2	0	3	1	3	1	4	0	3	2	4	0	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:125627678G>A	uc010mwc.1	-	10	1825	c.1584C>T	c.(1582-1584)GGC>GGT	p.G528G	RC3H2_uc004bnc.2_RNA|RC3H2_uc004bnd.1_Silent_p.G528G|RC3H2_uc004bne.3_Silent_p.G528G	NM_001100588	NP_001094058	Q9HBD1	RC3H2_HUMAN	ring finger and CCCH-type zinc finger domains 2	528						cell surface|endomembrane system|membrane|membrane fraction|perinuclear region of cytoplasm	DNA binding|zinc ion binding			ovary(2)|lung(2)	4						GACCATTAGCGCCAACCTTTC	0.408													16	72					0	0	1	0	0		A	125627678	A	A	125627678	2	1	211	1	0	0	0	0	0	0	0	1	13192	1074	38	1		1	RC3H2	9	125627678	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	713102	125627678	15585753	885	102764											
FAM125B	89853	broad.mit.edu	37	chr9	129184191	129184191	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaacagcacccggacggacTacgagtaccagcactccaat	13	4	10	14	3	0	0	0	0	0	0	1	4	1	3	3	3	5	3	3	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:129184191T>C	uc004bqh.1	+	7	802	c.721T>C	c.(721-723)TAC>CAC	p.Y241H	FAM125B_uc011lzy.1_Missense_Mutation_p.Y226H|FAM125B_uc010mxd.2_Missense_Mutation_p.Y234H	NM_033446	NP_258257	Q9H7P6	F125B_HUMAN	hypothetical protein LOC89853 isoform 1	241					protein transport	late endosome membrane					0						CCGGACGGACTACGAGTACCA	0.567													31	85					0	0	1	0	0		C	129184191	C	C	129184191	3	2	211	1	0	0	0	0	1	0	0	0	5439	1522	53	3	751	3	FAM125B	9	129184191	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3556513	129184191	12029240	886	102765											
LMX1B	4010	broad.mit.edu	37	chr9	129458222	129458222	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agagcccctacggcagcagcGaccccttccagcagggcctc	8	4	11	18	2	0	1	0	0	0	1	2	2	1	1	6	2	5	3	6	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:129458222G>A	uc004bqj.2	+	7	972	c.922G>A	c.(922-924)GAC>AAC	p.D308N	LMX1B_uc004bqi.2_Missense_Mutation_p.D308N|LMX1B_uc011maa.1_Missense_Mutation_p.D319N	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	308					dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGGCAGCAGCGACCCCTTCCA	0.677									Nail-Patella_Syndrome				12	31					0	0	1	0	0		A	129458222	A	A	129458222	3	1	211	1	0	0	0	0	1	0	0	0	8879	1058	37	1	1050	1	LMX1B	9	129458222	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	274031	129458222	11755209	887	102766											
GARNL3	84253	broad.mit.edu	37	chr9	130149474	130149474	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctctcttcctttctagtcGgatatatacttcacagcaac	9	15	4	13	1	4	0	1	0	3	0	7	1	5	1	1	1	3	1	1	1	5	7	rs149694236	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:130149474G>A	uc011mae.1	+	25	2792	c.2391G>A	c.(2389-2391)TCG>TCA	p.S797S	GARNL3_uc011mad.1_Silent_p.S775S|GARNL3_uc010mxi.2_Silent_p.S27S	NM_032293	NP_115669	Q5VVW2	GARL3_HUMAN	GTPase activating Rap/RanGAP domain-like 3	797	CNH.				regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity|small GTPase regulator activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CTTTCTAGTCGGATATATACT	0.577													30	129					0	0	1	0	0		A	130149474	A	A	130149474	2	1	211	1	0	0	0	0	0	0	0	1	6256	1103	39	1		1	GARNL3	9	130149474	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	691252	130149474	11063957	888	102767											
LCN2	3934	broad.mit.edu	37	chr9	130911884	130911884	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaggactccacctcagaccTgatcccagccccacctctga	9	6	6	20	0	2	3	1	2	1	1	4	4	4	4	8	1	1	0	8	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:130911884T>C	uc004bto.1	+	1	153	c.80T>C	c.(79-81)CTG>CCG	p.L27P	LCN2_uc010mxq.1_Missense_Mutation_p.L27P|LCN2_uc011map.1_Missense_Mutation_p.L27P	NM_005564	NP_005555	P80188	NGAL_HUMAN	lipocalin 2 precursor	27					apoptosis|innate immune response|regulation of apoptosis|siderophore transport		iron ion binding|transporter activity				0						ACCTCAGACCTGATCCCAGCC	0.637													32	76					0	0	1	0	0		C	130911884	C	C	130911884	3	2	211	1	0	0	0	0	1	0	0	0	8700	1580	55	3	82	3	LCN2	9	130911884	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	762410	130911884	10301547	889	102768											
SPTAN1	6709	broad.mit.edu	37	chr9	131355282	131355282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacacgcataactaaggaggCcggcagtgtatctctgcgta	11	8	12	10	3	1	0	0	0	1	0	2	2	1	1	1	3	2	4	1	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:131355282C>T	uc004bvl.3	+	23	3289	c.3176C>T	c.(3175-3177)GCC>GTC	p.A1059V	SPTAN1_uc011mbg.1_Intron|SPTAN1_uc011mbh.1_Missense_Mutation_p.A1071V|SPTAN1_uc004bvm.3_Missense_Mutation_p.A1059V|SPTAN1_uc004bvn.3_Intron	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	1059					actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						ACTAAGGAGGCCGGCAGTGTA	0.532													3	17					0	0	1	0	0		T	131355282	T	T	131355282	3	4	211	1	0	0	0	0	1	0	0	0	15142	739	26	2	3262	2	SPTAN1	9	131355282	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	443398	131355282	9858149	890	102769											
PKN3	29941	broad.mit.edu	37	chr9	131475388	131475388	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgacagccgtgcctgggcGctccccagcggccgcactgg	4	5	15	17	4	0	1	0	1	0	0	1	1	1	1	5	3	3	3	5	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:131475388G>A	uc004bvw.2	+	7	1286	c.893G>A	c.(892-894)CGC>CAC	p.R298H	PKN3_uc010myh.2_Missense_Mutation_p.R298H|PKN3_uc011mbk.1_5'UTR	NM_013355	NP_037487	Q6P5Z2	PKN3_HUMAN	protein kinase PKNbeta	298					signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm	ATP binding|protein binding|protein kinase C activity			stomach(2)|lung(2)	4						GTGCCTGGGCGCTCCCCAGCG	0.682													13	31					0	0	1	0	0		A	131475388	A	A	131475388	3	1	211	1	0	0	0	0	1	0	0	0	12000	1087	38	1	919	1	PKN3	9	131475388	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	120106	131475388	9738043	891	102770											
ZER1	10444	broad.mit.edu	37	chr9	131515484	131515484	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgacccggatgtggtcgtcGgacaggtccatgttgtagag	8	10	15	8	3	0	2	0	1	0	1	3	4	1	4	2	4	0	2	2	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:131515484G>A	uc004bwa.1	-	4	1138	c.705C>T	c.(703-705)TCC>TCT	p.S235S		NM_006336	NP_006327	Q7Z7L7	ZER1_HUMAN	zyg-11 homolog B (C. elegans)-like	235	LRR 1.				ATP hydrolysis coupled proton transport|regulation of ubiquitin-protein ligase activity	Cul2-RING ubiquitin ligase complex|vacuolar proton-transporting V-type ATPase, V1 domain	protein binding|proton-transporting ATPase activity, rotational mechanism|ubiquitin-protein ligase activity			ovary(1)	1						TGTGGTCGTCGGACAGGTCCA	0.632													4	6					0	0	1	0	0		A	131515484	A	A	131515484	2	1	211	1	0	0	0	0	0	0	0	1	17650	1103	39	1		1	ZER1	9	131515484	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	40096	131515484	9697947	892	102771											
LAMC3	10319	broad.mit.edu	37	chr9	133945082	133945082	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggtgctccccactgggcGctgcctcggcccagtgccac	4	6	13	18	2	0	0	0	0	0	0	2	0	1	0	5	3	3	3	5	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:133945082G>A	uc004caa.1	+	17	3012	c.2914G>A	c.(2914-2916)GCT>ACT	p.A972T		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	972	Laminin EGF-like 11.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		CCCACTGGGCGCTGCCTCGGC	0.667													7	7					0	0	1	0	0		A	133945082	A	A	133945082	3	1	211	1	0	0	0	0	1	0	0	0	8632	1087	38	1	2980	1	LAMC3	9	133945082	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2429598	133945082	7268349	893	102772											
BAT2L1	84726	broad.mit.edu	37	chr9	134351152	134351152	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccccggctgagcaattgCgggtatggacggagaacctt	8	8	13	12	3	0	2	0	1	0	1	1	4	1	3	4	4	3	3	4	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:134351152C>T	uc004can.3	+	15	3691	c.3636C>T	c.(3634-3636)TGC>TGT	p.C1212C	BAT2L1_uc010mzj.1_Silent_p.C795C|BAT2L1_uc004cao.3_Silent_p.C570C	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1212							protein binding				0						TGAGCAATTGCGGGTATGGAC	0.617													9	22					0	0	1	0	0		T	134351152	T	T	134351152	2	4	211	1	0	0	0	0	0	0	0	1	1321	776	27	1		1	BAT2L1	9	134351152	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	406070	134351152	6862279	894	102773											
NTNG2	84628	broad.mit.edu	37	chr9	135102326	135102326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaccaccggccccgactgCggcaagtgcaagaagaattt	13	5	10	13	3	0	2	0	0	0	2	0	3	0	2	4	2	3	2	4	2	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:135102326C>T	uc004cbh.2	+	4	1724	c.948C>T	c.(946-948)TGC>TGT	p.C316C		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	316	Laminin EGF-like 1.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		GCCCCGACTGCGGCAAGTGCA	0.677													13	20					0	0	1	0	0		T	135102326	T	T	135102326	2	4	211	1	0	0	0	0	0	0	0	1	10724	776	27	1		1	NTNG2	9	135102326	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	751174	135102326	6111105	895	102774											
NTNG2	84628	broad.mit.edu	37	chr9	135102359	135102359	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagaatttccgcacccggtcCtggcgggccggctcctacct	6	8	11	16	4	0	1	0	0	0	1	3	1	3	1	6	4	1	2	6	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:135102359C>A	uc004cbh.2	+	4	1757	c.981C>A	c.(979-981)TCC>TCA	p.S327S		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	327	Laminin EGF-like 1.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		GCACCCGGTCCTGGCGGGCCG	0.667													9	27					0.00621372	0.00630458	1	1	0		A	135102359	A	A	135102359	2	1	211	1	0	0	0	0	0	0	0	1	10724	668	24	5		5	NTNG2	9	135102359	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	33	135102359	6111072	896	102775											
NTNG2	84628	broad.mit.edu	37	chr9	135116378	135116378	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgccgcgagggcgcggcggGccccaagtgcgacgactgcc	5	3	18	15	7	0	0	0	0	0	0	0	3	0	0	4	3	3	0	4	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:135116378G>T	uc004cbh.2	+	7	2080	c.1304G>T	c.(1303-1305)GGC>GTC	p.G435V		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	435	Laminin EGF-like 3.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		GGCGCGGCGGGCCCCAAGTGC	0.687													5	23					0.0215528	0.021694	1	1	0		T	135116378	T	T	135116378	3	4	211	1	0	0	0	0	1	0	0	0	10724	1203	42	5	1326	5	NTNG2	9	135116378	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	14019	135116378	6097053	897	102776											
ADAMTS13	11093	broad.mit.edu	37	chr9	136308546	136308546	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctcctgtgggggcggcCtgcgggagcggccagtgcgc	2	5	20	14	5	0	0	0	0	0	0	1	1	1	1	4	5	3	0	4	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:136308546C>A	uc004cdv.3	+	19	2728	c.2284C>A	c.(2284-2286)CTG>ATG	p.L762M	ADAMTS13_uc004cdp.3_Intron|ADAMTS13_uc004cdt.1_Missense_Mutation_p.L762M|ADAMTS13_uc004cdu.1_Missense_Mutation_p.L731M|ADAMTS13_uc004cdw.3_Missense_Mutation_p.L762M|ADAMTS13_uc004cdx.3_Missense_Mutation_p.L731M|ADAMTS13_uc004cdy.1_Intron|ADAMTS13_uc004cdz.3_Missense_Mutation_p.L432M|ADAMTS13_uc004cds.1_Missense_Mutation_p.L287M|ADAMTS13_uc004cdr.1_RNA	NM_139025	NP_620594	Q76LX8	ATS13_HUMAN	ADAM metallopeptidase with thrombospondin type 1	762	TSP type-1 3.				cell-matrix adhesion|glycoprotein metabolic process|integrin-mediated signaling pathway|peptide catabolic process|platelet activation|protein processing|proteolysis	cell surface|proteinaceous extracellular matrix	calcium ion binding|integrin binding|metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|kidney(1)	6				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TGGGGGCGGCCTGCGGGAGCG	0.726													4	10					0.00909568	0.00920264	1	1	0		A	136308546	A	A	136308546	3	1	211	1	0	0	0	0	1	0	0	0	258	680	24	5	2358	5	ADAMTS13	9	136308546	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1192168	136308546	4904885	898	102777											
COL5A1	1289	broad.mit.edu	37	chr9	137696842	137696842	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacccaggccctgcaggcCtccctgggaaagatggccct	7	6	13	15	0	0	2	0	1	0	1	1	3	1	3	5	4	1	1	5	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:137696842C>A	uc004cfe.2	+	40	3518	c.3136C>A	c.(3136-3138)CTC>ATC	p.L1046I		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1046	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCCTGCAGGCCTCCCTGGGAA	0.617													12	28					9.05144e-12	9.69604e-12	1	1	0		A	137696842	A	A	137696842	3	1	211	1	0	0	0	0	1	0	0	0	3699	681	24	5	3294	5	COL5A1	9	137696842	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1388296	137696842	3516589	899	102778											
CARD9	64170	broad.mit.edu	37	chr9	139265589	139265589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagtcaggcctgactcccCggacgcgtctgtgggccagg	5	7	15	14	3	2	2	1	2	1	0	3	3	3	3	4	4	0	0	4	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:139265589C>T	uc004chg.3	-	4	497	c.331G>A	c.(331-333)GGG>AGG	p.G111R	CARD9_uc011mdw.1_Missense_Mutation_p.G111R|CARD9_uc011mdx.1_Missense_Mutation_p.G7R|CARD9_uc010nbj.2_Missense_Mutation_p.G111R	NM_052813	NP_434700	Q9H257	CARD9_HUMAN	caspase recruitment domain protein 9 isoform 1	111					positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of JNK cascade|positive regulation of stress-activated MAPK cascade|regulation of apoptosis	cytoplasm	CARD domain binding|protein homodimerization activity			pancreas(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;4.58e-06)|Epithelial(140;5.65e-06)		CCTGACTCCCCGGACGCGTCT	0.627													7	20					0	0	1	0	0		T	139265589	T	T	139265589	3	4	211	1	0	0	0	0	1	0	0	0	2655	652	23	1	1372	1	CARD9	9	139265589	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1568747	139265589	1947842	900	102779											
SNAPC4	6621	broad.mit.edu	37	chr9	139273210	139273210	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgggggcctgagactgtccGagaccactctcggggcagct	6	6	16	13	3	1	2	0	1	1	2	3	4	2	2	3	4	1	2	3	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:139273210G>A	uc004chh.2	-	21	3078	c.3069C>T	c.(3067-3069)CTC>CTT	p.L1023L		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	1023	Pro-rich.				snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GAGACTGTCCGAGACCACTCT	0.711													5	8					0	0	1	0	0		A	139273210	A	A	139273210	2	1	211	1	0	0	0	0	0	0	0	1	14862	1045	37	1		1	SNAPC4	9	139273210	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7621	139273210	1940221	901	102780											
INPP5E	56623	broad.mit.edu	37	chr9	139326317	139326317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggtcgtgctgcagcagcGccggcacgtccaccaccagg	6	5	14	16	4	0	0	0	0	0	0	2	0	1	0	4	3	4	5	4	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:139326317G>A	uc004cho.2	-	7	1893	c.1508C>T	c.(1507-1509)GCG>GTG	p.A503V	INPP5E_uc010nbm.2_Missense_Mutation_p.A502V	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	503						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		CTGCAGCAGCGCCGGCACGTC	0.562													13	33					0	0	1	0	0		A	139326317	A	A	139326317	3	1	211	1	0	0	0	0	1	0	0	0	7773	1087	38	1	442	1	INPP5E	9	139326317	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	53107	139326317	1887114	902	102781											
SEC16A	9919	broad.mit.edu	37	chr9	139342121	139342121	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcgaggttggaggtgggggCggggctttcttctgcagagg	5	10	20	6	2	2	1	0	0	2	1	3	3	2	2	0	8	1	3	0	8	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:139342121C>T	uc004chx.2	-	26	6768	c.6459G>A	c.(6457-6459)CCG>CCA	p.P2153P	SEC16A_uc004chp.2_5'Flank|SEC16A_uc004chq.2_5'UTR|SEC16A_uc011mea.1_5'UTR|SEC16A_uc004chr.2_Silent_p.P159P|SEC16A_uc004chs.2_5'UTR|SEC16A_uc004cht.2_Silent_p.P184P|SEC16A_uc004chu.2_Silent_p.P338P|SEC16A_uc004chv.3_Silent_p.P1543P|SEC16A_uc004chw.2_Silent_p.P2153P|SEC16A_uc010nbn.2_Silent_p.P2153P	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1975	Required for interaction with SEC23A.|Pro-rich.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GAGGTGGGGGCGGGGCTTTCT	0.607													8	43					0	0	1	0	0		T	139342121	T	T	139342121	2	4	211	1	0	0	0	0	0	0	0	1	14011	755	27	1		1	SEC16A	9	139342121	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	15804	139342121	1871310	903	102782											
LCN6	158062	broad.mit.edu	37	chr9	139639702	139639702	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catagtctctgaagttggtgGccagcacccagagctccagc	9	8	11	13	0	1	2	0	1	1	1	3	2	2	2	3	2	3	3	3	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:139639702G>C	uc004ciy.2	-	4	377	c.332C>G	c.(331-333)GCC>GGC	p.A111G	LCN10_uc004civ.2_5'Flank|LCN10_uc011med.1_5'Flank|LCN10_uc010nbq.2_5'Flank|LCN10_uc011mee.1_5'Flank|LCN10_uc011mef.1_5'Flank|LCN10_uc004ciw.2_RNA|uc004ciz.1_5'Flank	NM_198946	NP_945184	P62502	LCN6_HUMAN	lipocalin 6 precursor	111					single fertilization	extracellular region	binding				0	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)		GAAGTTGGTGGCCAGCACCCA	0.597													21	78					0	0	1	0	0		C	139639702	C	C	139639702	3	2	211	1	0	0	0	0	1	0	0	0	8701	1203	42	5	167	5	LCN6	9	139639702	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	297581	139639702	1573729	904	102783											
ABCA2	20	broad.mit.edu	37	chr9	139909513	139909513	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctcggagcagctgctcagcGgggcccgacctggggggctg	4	5	19	13	3	1	0	1	0	0	0	2	2	1	1	2	6	4	5	2	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:139909513G>A	uc011mem.1	-	24	3879	c.3731C>T	c.(3730-3732)CCG>CTG	p.P1244L	ABCA2_uc011mel.1_Missense_Mutation_p.P1245L|ABCA2_uc004ckl.1_Missense_Mutation_p.P1175L|ABCA2_uc004ckm.1_Missense_Mutation_p.P1275L|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1244					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		GCTGCTCAGCGGGGCCCGACC	0.657													24	60					0	0	1	0	0		A	139909513	A	A	139909513	3	1	211	1	0	0	0	0	1	0	0	0	32	1116	39	1	3676	1	ABCA2	9	139909513	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	269811	139909513	1303918	905	102784											
GRIN1	2902	broad.mit.edu	37	chr9	140051349	140051349	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagctcatcaacggcaagaaCgagtcggcccacatcagcga	13	4	10	14	4	3	1	3	0	0	1	4	3	3	1	1	2	4	2	1	2	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:140051349C>T	uc004clk.2	+	6	1158	c.828C>T	c.(826-828)AAC>AAT	p.N276N	GRIN1_uc004cli.1_Translation_Start_Site|GRIN1_uc004clj.1_Silent_p.N273N|GRIN1_uc004cll.2_Silent_p.N276N|GRIN1_uc004clm.2_Silent_p.N276N|GRIN1_uc004cln.2_Silent_p.N294N|GRIN1_uc004clo.2_Silent_p.N294N	NM_007327	NP_015566	Q05586	NMDZ1_HUMAN	NMDA receptor 1 isoform NR1-3 precursor	276	Extracellular (Potential).				ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			skin(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	ACGGCAAGAACGAGTCGGCCC	0.701													10	26					0	0	1	0	0		T	140051349	T	T	140051349	2	4	211	1	0	0	0	0	0	0	0	1	6794	535	19	1		1	GRIN1	9	140051349	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	141836	140051349	1162082	906	102785											
TMEM203	94107	broad.mit.edu	37	chr9	140099695	140099695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagtaggtgctgagccCgtcagcggcgaagaaaggca	11	5	17	8	3	1	3	1	2	0	1	1	4	1	3	1	4	3	3	1	4	4	1	rs11545809		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:140099695C>T	uc004clv.2	-	1	396	c.172G>A	c.(172-174)GGG>AGG	p.G58R	NDOR1_uc004clx.2_5'Flank|NDOR1_uc004clw.2_5'Flank|NDOR1_uc011mes.1_5'Flank|NDOR1_uc004cly.2_5'Flank	NM_053045	NP_444273	Q969S6	TM203_HUMAN	transmembrane protein 203	58	Helical; (Potential).					integral to membrane					0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GTGCTGAGCCCGTCAGCGGCG	0.627													7	13					0	0	1	0	0		T	140099695	T	T	140099695	3	4	211	1	0	0	0	0	1	0	0	0	16153	652	23	1	242	1	TMEM203	9	140099695	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	48346	140099695	1113736	907	102786											
C9orf173	441476	broad.mit.edu	37	chr9	140147690	140147690	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgacacaggccccttctgcaCgctctagagccagctgggca	8	6	11	16	2	2	1	0	0	2	1	2	2	2	1	3	2	3	4	3	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:140147690C>T	uc004cmk.1	+	6	945	c.933C>T	c.(931-933)CAC>CAT	p.H311H	C9orf173_uc004cmj.1_Missense_Mutation_p.T307M|C9orf173_uc011meu.1_RNA|C9orf173_uc010ncd.1_RNA|C9orf173_uc011mev.1_Missense_Mutation_p.T251M|C9orf173_uc004cml.1_Silent_p.H256H|COBRA1_uc004cmm.3_5'Flank			Q8N7X2	CI173_HUMAN	SubName: Full=LOC441476 protein;	315										pancreas(1)	1						CCCTTCTGCACGCTCTAGAGC	0.677													5	27					0	0	1	0	0		T	140147690	T	T	140147690	2	4	211	1	0	0	0	0	0	0	0	1	2475	536	19	1		1	C9orf173	9	140147690	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	47995	140147690	1065741	908	102787											
C9orf167	54863	broad.mit.edu	37	chr9	140174021	140174021	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcccaccacttccacaacGccatctacgtgctcctcagt	8	9	5	19	2	2	0	1	0	1	0	5	0	5	0	5	0	3	2	5	0	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:140174021G>A	uc004cmn.2	+	2	997	c.880G>A	c.(880-882)GCC>ACC	p.A294T	C9orf167_uc011mew.1_5'Flank	NM_017723	NP_060193	Q9NXH8	CI167_HUMAN	hypothetical protein LOC54863	294					chaperone mediated protein folding requiring cofactor	integral to membrane	ATP binding|nucleoside-triphosphatase activity			pancreas(1)	1	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.07e-05)|Epithelial(140;0.000728)		CTTCCACAACGCCATCTACGT	0.711													8	15					0	0	1	0	0		A	140174021	A	A	140174021	3	1	211	1	0	0	0	0	1	0	0	0	2471	1087	38	1	882	1	C9orf167	9	140174021	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	26331	140174021	1039410	909	102788											
ENTPD8	377841	broad.mit.edu	37	chr9	140329730	140329730	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgcaggagggtgaggatgtAcaggcctgaggcacagtagt	10	7	18	6	0	0	2	0	2	0	0	0	4	0	4	1	5	2	4	1	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr9:140329730A>G	uc004cmw.2	-	9	1406	c.1222T>C	c.(1222-1224)TAC>CAC	p.Y408H	C9orf167_uc011mew.1_Intron|ENTPD8_uc004cmx.2_Missense_Mutation_p.Y371H	NM_001033113	NP_001028285	Q5MY95	ENTP8_HUMAN	ectonucleoside triphosphate diphosphohydrolase 8	408	Extracellular (Potential).					integral to membrane|plasma membrane	ATP binding			skin(1)	1	all_cancers(76;0.0926)			OV - Ovarian serous cystadenocarcinoma(145;0.000224)|Epithelial(140;0.000898)		GTGAGGATGTACAGGCCTGAG	0.687													13	50					0	0	1	0	0		G	140329730	G	G	140329730	3	3	211	1	0	0	0	0	1	0	0	0	5153	391	14	3	273	3	ENTPD8	9	140329730	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	155709	140329730	883701	910	102789											
FBXO18	84893	broad.mit.edu	37	chr10	5966457	5966457	+	Missense_Mutation	SNP	A	T	T	1	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	agaaaaatgccatatagaagAtttggactttgcaggtaagg	16	10	11	4	0	0	3	0	0	0	3	0	4	0	4	1	3	2	2	1	3	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:5966457A>T	uc001iis.2	+	17	2677	c.2582A>T	c.(2581-2583)GAT>GTT	p.D861V	FBXO18_uc001iir.2_Missense_Mutation_p.D787V|FBXO18_uc009xig.2_Missense_Mutation_p.D787V|FBXO18_uc001iit.2_Missense_Mutation_p.D912V	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	861					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						CATATAGAAGATTTGGACTTT	0.398													14	41					0	0	1	0	0		T	5966457	T	T	5966457	3	4	211	1	0	0	0	0	1	0	0	0	5745	333	12	5	2810	5	FBXO18	10	5966457	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08		5966457	129568290	911	102790											
IL15RA	3601	broad.mit.edu	37	chr10	6008297	6008297	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggacatggggggagggcacgTgatgcctgcgaaagtgcaga	10	5	19	7	2	0	2	0	1	0	1	0	5	0	4	1	5	3	2	1	5	1	0	rs141286489		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:6008297T>G	uc001iiv.2	-	2	176	c.94A>C	c.(94-96)ACG>CCG	p.T32P	IL15RA_uc010qau.1_Missense_Mutation_p.T32P|IL15RA_uc001iiw.2_5'UTR|IL15RA_uc001iix.2_5'UTR|IL15RA_uc001iiy.2_Intron	NM_002189	NP_002180	Q13261	I15RA_HUMAN	interleukin 15 receptor, alpha isoform 1	32	Sushi.|Extracellular (Potential).				cell proliferation	cytoplasmic vesicle membrane|endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane|nuclear membrane	cytokine receptor activity				0						GGAGGGCACGTGATGCCTGCG	0.557													16	50					0	0	1	0	0		G	6008297	G	G	6008297	3	3	211	1	0	0	0	0	1	0	0	0	7648	1696	59	5	733	5	IL15RA	10	6008297	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	41840	6008297	129526450	912	102791											
USP6NL	9712	broad.mit.edu	37	chr10	11504982	11504982	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agaagcaaagctgctgttggCagtagggaagtgtttgggag	11	9	17	4	0	0	1	0	0	0	1	0	3	0	3	0	3	3	7	0	3	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:11504982C>T	uc001ikt.3	-	15	2266	c.1945G>A	c.(1945-1947)GCC>ACC	p.A649T	USP6NL_uc001iks.1_Missense_Mutation_p.A666T	NM_014688	NP_055503	Q92738	US6NL_HUMAN	USP6 N-terminal like isoform 1	649						intracellular	Rab GTPase activator activity				0						CTGCTGTTGGCAGTAGGGAAG	0.557													5	21					0	0	1	0	0		T	11504982	T	T	11504982	3	4	211	1	0	0	0	0	1	0	0	0	17113	710	25	2	545	2	USP6NL	10	11504982	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5496685	11504982	124029765	913	102792											
MCM10	55388	broad.mit.edu	37	chr10	13237117	13237117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agccccctgctcagcctccaCggacaggatccgagttcccc	7	6	9	19	2	1	0	1	0	0	0	4	3	4	2	7	2	3	2	7	2	0	1	rs74881009		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:13237117C>T	uc001ima.2	+	14	1926	c.1825C>T	c.(1825-1827)CGG>TGG	p.R609W	MCM10_uc001imb.2_Missense_Mutation_p.R608W|MCM10_uc001imc.2_Missense_Mutation_p.R608W	NM_182751	NP_877428	Q7L590	MCM10_HUMAN	minichromosome maintenance complex component 10	609					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TCAGCCTCCACGGACAGGATC	0.532													10	51					0	0	1	0	0		T	13237117	T	T	13237117	3	4	211	1	0	0	0	0	1	0	0	0	9403	527	19	1	1875	1	MCM10	10	13237117	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1732135	13237117	122297630	914	102793											
BEND7	222389	broad.mit.edu	37	chr10	13523008	13523008	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagtcttgtcatcaaaaaaCgcacacaccagttttctaaa	17	10	4	10	1	4	0	2	0	2	0	4	0	4	0	1	0	1	2	1	0	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:13523008C>T	uc001imm.2	-	6	1095	c.798G>A	c.(796-798)GCG>GCA	p.A266A	BEND7_uc001imn.2_Silent_p.A27A|BEND7_uc001imo.3_Silent_p.A279A	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1	318	BEN.						protein binding			ovary(1)|breast(1)	2						CATCAAAAAACGCACACACCA	0.433													43	98					0	0	1	0	0		T	13523008	T	T	13523008	2	4	211	1	0	0	0	0	0	0	0	1	1404	523	19	1		1	BEND7	10	13523008	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	285891	13523008	122011739	915	102794											
ST8SIA6	338596	broad.mit.edu	37	chr10	17365073	17365073	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagctacttacttcagagttAtgatgcttggatttatagtc	10	16	8	7	0	1	2	1	1	0	1	2	3	1	3	0	1	4	3	0	1	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:17365073A>G	uc001ipd.2	-	7	719	c.719T>C	c.(718-720)ATA>ACA	p.I240T	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	240	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						CTTCAGAGTTATGATGCTTGG	0.368													15	57					0	0	1	0	0		G	17365073	G	G	17365073	3	3	211	1	0	0	0	0	1	0	0	0	15261	449	16	3	485	3	ST8SIA6	10	17365073	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3842065	17365073	118169674	916	102795											
PTPLA	9200	broad.mit.edu	37	chr10	17636321	17636321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcacatgcggcaaggcagCgtatattgtaagaagttcac	12	10	10	9	2	2	1	2	0	0	1	2	1	2	1	0	2	2	5	0	2	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:17636321C>T	uc001ipg.2	-	6	702	c.667G>A	c.(667-669)GCT>ACT	p.A223T		NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	223	Lumenal (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						GGCAAGGCAGCGTATATTGTA	0.313													16	79					0	0	1	0	0		T	17636321	T	T	17636321	3	4	211	1	0	0	0	0	1	0	0	0	12797	768	27	1	207	1	PTPLA	10	17636321	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	271248	17636321	117898426	917	102796											
STAM	8027	broad.mit.edu	37	chr10	17742261	17742261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caatagaaccagagccggaaCcagcctttattgatgaagta	15	8	9	9	1	0	4	0	2	0	2	0	5	0	5	4	1	4	1	4	1	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:17742261C>T	uc001ipj.1	+	9	1111	c.895C>T	c.(895-897)CCA>TCA	p.P299S	STAM_uc010qcf.1_Missense_Mutation_p.P188S|STAM_uc009xjw.1_5'UTR	NM_003473	NP_003464	Q92783	STAM1_HUMAN	signal transducing adaptor molecule 1	299					cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway	cytosol|early endosome membrane	SH3/SH2 adaptor activity			large_intestine(1)|ovary(1)	2						AGAGCCGGAACCAGCCTTTAT	0.328													15	42					0	0	1	0	0		T	17742261	T	T	17742261	3	4	211	1	0	0	0	0	1	0	0	0	15273	507	18	4	929	4	STAM	10	17742261	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	105940	17742261	117792486	918	102797											
SLC39A12	221074	broad.mit.edu	37	chr10	18242200	18242200	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agactcaaggtggaggaagcGtggaaatgtgcttccggaca	12	7	15	7	2	1	1	1	0	0	1	2	5	2	5	1	5	2	1	1	5	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:18242200G>A	uc001ipo.2	+	2	268	c.-5G>A	c.(-7--3)GCGTG>GCATG		SLC39A12_uc001ipn.2_Translation_Start_Site|SLC39A12_uc001ipp.2_Translation_Start_Site|SLC39A12_uc010qck.1_Intron	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),						zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TGGAGGAAGCGTGGAAATGTG	0.468													24	58					0	0	1	0	0		A	18242200	A	A	18242200	1	1	211	1	0	0	0	0	0	0	0	0	14640	1160	40	1		1	SLC39A12	10	18242200	Translation_Start_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	499939	18242200	117292547	919	102798											
PLXDC2	84898	broad.mit.edu	37	chr10	20290771	20290771	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtggaagttgattcacacgcGtacagccacaggtggaaaag	13	7	13	8	2	1	1	1	1	0	0	1	3	1	3	1	3	2	2	1	3	4	3	rs149037714		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:20290771G>A	uc001iqg.1	+	2	817	c.180G>A	c.(178-180)GCG>GCA	p.A60A	PLXDC2_uc001iqh.1_Silent_p.A60A	NM_032812	NP_116201	Q6UX71	PXDC2_HUMAN	plexin domain containing 2 precursor	60	Extracellular (Potential).					integral to membrane				ovary(2)|central_nervous_system(1)|skin(1)	4						ATTCACACGCGTACAGCCACA	0.502													14	59					0	0	1	0	0		A	20290771	A	A	20290771	2	1	211	1	0	0	0	0	0	0	0	1	12137	1132	40	1		1	PLXDC2	10	20290771	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2048571	20290771	115243976	920	102799											
DNAJC1	64215	broad.mit.edu	37	chr10	22048331	22048331	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctcctctggctccggcttcGctgtagcctccagcagcctg	3	11	10	17	2	2	0	0	0	2	0	6	0	4	0	5	2	3	5	5	2	1	2	rs141146821		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:22048331G>A	uc001irc.2	-	11	1651	c.1364C>T	c.(1363-1365)GCG>GTG	p.A455V	DNAJC1_uc001ird.2_Missense_Mutation_p.A341V	NM_022365	NP_071760	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	455	Cytoplasmic (By similarity).				negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding			lung(1)	1		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)				CTCCGGCTTCGCTGTAGCCTC	0.632													11	33					0	0	1	0	0		A	22048331	A	A	22048331	3	1	211	1	0	0	0	0	1	0	0	0	4634	1087	38	1	308	1	DNAJC1	10	22048331	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1757560	22048331	113486416	921	102800											
PIP4K2A	5305	broad.mit.edu	37	chr10	22880669	22880669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacgagctccactgcgggcCtgggagtcgttggggagggg	7	6	19	9	3	0	0	0	0	0	0	2	3	1	2	2	6	3	2	2	6	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:22880669C>A	uc001irl.3	-	4	629	c.381G>T	c.(379-381)CAG>CAT	p.Q127H	PIP4K2A_uc010qcu.1_Translation_Start_Site	NM_005028	NP_005019	P48426	PI42A_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	127	PIPK.						1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding			ovary(1)|skin(1)	2						CACTGCGGGCCTGGGAGTCGT	0.532													16	47					6.94344e-10	7.34284e-10	1	1	0		A	22880669	A	A	22880669	3	1	211	1	0	0	0	0	1	0	0	0	11955	680	24	5	867	5	PIP4K2A	10	22880669	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	832338	22880669	112654078	922	102801											
MYO3A	53904	broad.mit.edu	37	chr10	26315378	26315378	+	Silent	SNP	T	C	C	0	1	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	cataaattcattactcaaatTgagggcaaagatgtgatgct	15	12	8	6	0	2	3	2	2	0	1	2	3	2	3	0	1	2	2	0	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:26315378T>C	uc001isn.2	+	10	1230	c.870T>C	c.(868-870)ATT>ATC	p.I290I	MYO3A_uc009xko.1_Silent_p.I290I|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Silent_p.I290I	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	290					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						TTACTCAAATTGAGGGCAAAG	0.378													15	31					0	0	1	0	0		C	26315378	C	C	26315378	2	2	211	1	0	0	0	0	0	0	0	1	10094	1800	63	3		3	MYO3A	10	26315378	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3434709	26315378	109219369	923	102802											
MYO3A	53904	broad.mit.edu	37	chr10	26500869	26500869	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcaaaacctcccagcgcCggcgcctcgtccagcagtcc	7	5	10	19	5	0	0	0	0	0	0	4	0	3	0	6	1	4	2	6	1	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:26500869C>T	uc001isn.2	+	35	5188	c.4828C>T	c.(4828-4830)CGG>TGG	p.R1610W	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Missense_Mutation_p.P625L	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1610					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						CTCCCAGCGCCGGCGCCTCGT	0.687													7	26					0	0	1	0	0		T	26500869	T	T	26500869	3	4	211	1	0	0	0	0	1	0	0	0	10094	643	23	1	4958	1	MYO3A	10	26500869	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	185491	26500869	109033878	924	102803											
ITGB1	3688	broad.mit.edu	37	chr10	33218834	33218834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctgctgttcctttgctacGgttggttacatttttatttt	4	22	7	8	1	1	0	0	0	1	0	2	0	2	0	1	2	4	5	1	2	3	10			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:33218834G>A	uc001iws.3	-	4	428	c.292C>T	c.(292-294)CGT>TGT	p.R98C	ITGB1_uc001iwp.3_Missense_Mutation_p.R98C|ITGB1_uc001iwq.3_Missense_Mutation_p.R98C|ITGB1_uc001iwr.3_Missense_Mutation_p.R98C|ITGB1_uc001iwt.3_Missense_Mutation_p.R98C|ITGB1_uc001iwu.1_Missense_Mutation_p.R98C	NM_133376	NP_596867	P05556	ITB1_HUMAN	integrin beta 1 isoform 1A precursor	98	Extracellular (Potential).				axon guidance|blood coagulation|cell-cell adhesion mediated by integrin|cell-matrix adhesion|cellular defense response|homophilic cell adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte cell-cell adhesion|leukocyte migration|positive regulation of apoptosis|regulation of immune response	cell surface|cleavage furrow|focal adhesion|melanosome|neuromuscular junction|ruffle|sarcolemma	identical protein binding|protein heterodimerization activity|receptor activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(717;1.34e-05)|Breast(68;0.0634)				CCTTTGCTACGGTTGGTTACA	0.408													52	145					0	0	1	0	0		A	33218834	A	A	33218834	3	1	211	1	0	0	0	0	1	0	0	0	7906	1116	39	1	2394	1	ITGB1	10	33218834	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6717965	33218834	102315913	925	102804											
RBP3	5949	broad.mit.edu	37	chr10	48388554	48388554	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgatcaccagcgcagccGtgtccaccagctgttgccat	7	8	11	15	3	1	0	1	0	0	0	3	1	2	0	5	1	4	3	5	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:48388554G>A	uc001jez.2	-	1	2438	c.2324C>T	c.(2323-2325)ACG>ATG	p.T775M		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	775	4 X approximate tandem repeats.|3.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	CAGCGCAGCCGTGTCCACCAG	0.637													12	23					0	0	1	0	0		A	48388554	A	A	48388554	3	1	211	1	0	0	0	0	1	0	0	0	13182	1145	40	1	1435	1	RBP3	10	48388554	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	15169720	48388554	87146193	926	102805											
ERCC6	2074	broad.mit.edu	37	chr10	50691467	50691467	+	Silent	SNP	G	A	A	0	0	1	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	tccaagatcacatagtgccaGtcatacctgctaatgtcatc	12	11	6	12	0	3	1	3	0	0	1	5	1	4	1	3	0	3	1	3	0	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:50691467G>A	uc001jhs.3	-	9	2071	c.1917C>T	c.(1915-1917)GAC>GAT	p.D639D	ERCC6_uc010qgr.1_Silent_p.D9D|ERCC6_uc001jhr.3_Silent_p.D39D	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	639	Helicase ATP-binding.				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						CATAGTGCCAGTCATACCTGC	0.418								Direct_reversal_of_damage|NER					23	84					0	0	1	0	0		A	50691467	A	A	50691467	2	1	211	1	0	0	0	0	0	0	0	1	5225	1020	36	4		4	ERCC6	10	50691467	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2302913	50691467	84843280	927	102806											
PCDH15	65217	broad.mit.edu	37	chr10	55583033	55583033	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcaatagtattggaagaaaAgggcatcacaacttgttgat	15	11	9	6	0	2	2	2	1	0	1	2	3	2	3	0	2	1	3	0	2	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:55583033A>G	uc001jju.1	-	33	4848	c.4453T>C	c.(4453-4455)TTT>CTT	p.F1485L	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.F1482L|PCDH15_uc010qhw.1_Missense_Mutation_p.F1445L|PCDH15_uc010qhx.1_Missense_Mutation_p.F1416L|PCDH15_uc010qhy.1_Missense_Mutation_p.F1492L|PCDH15_uc010qhz.1_Missense_Mutation_p.F1487L|PCDH15_uc010qia.1_Missense_Mutation_p.F1465L|PCDH15_uc010qib.1_Missense_Mutation_p.F1462L	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	1485	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				TTGGAAGAAAAGGGCATCACA	0.383										HNSCC(58;0.16)			23	46					0	0	1	0	0		G	55583033	G	G	55583033	3	3	211	1	0	0	0	0	1	0	0	0	11530	72	3	3	3024	3	PCDH15	10	55583033	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4891566	55583033	79951714	928	102807											
RTKN2	219790	broad.mit.edu	37	chr10	63959523	63959523	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccccacttactcatatcatgGtagactgaggttgcctcttt	8	14	7	12	0	3	2	2	1	1	1	3	2	3	2	3	2	2	2	3	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:63959523G>A	uc001jlw.2	-	11	1381	c.1284C>T	c.(1282-1284)TAC>TAT	p.Y428Y	RTKN2_uc009xpf.1_Silent_p.Y230Y|RTKN2_uc001jlv.2_Silent_p.Y82Y	NM_145307	NP_660350	Q8IZC4	RTKN2_HUMAN	rhotekin 2	428					signal transduction	intracellular					0	Prostate(12;0.0297)|all_hematologic(501;0.215)					TCATATCATGGTAGACTGAGG	0.383													18	45					0	0	1	0	0		A	63959523	A	A	63959523	2	1	211	1	0	0	0	0	0	0	0	1	13748	1256	44	4		4	RTKN2	10	63959523	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	8376490	63959523	71575224	929	102808											
CTNNA3	29119	broad.mit.edu	37	chr10	68940230	68940230	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaggcgtttctctagtgatgGtcgtatttcctcctcagtta	7	16	9	9	2	2	1	1	1	1	0	6	1	4	1	2	2	0	3	2	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:68940230G>A	uc009xpn.1	-	7	1015	c.892C>T	c.(892-894)CCA>TCA	p.P298S	CTNNA3_uc001jmw.2_Missense_Mutation_p.P298S|CTNNA3_uc001jmx.3_Missense_Mutation_p.P298S|CTNNA3_uc009xpo.1_Missense_Mutation_p.P158S|CTNNA3_uc001jna.2_Missense_Mutation_p.P310S	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	298					cell-cell adhesion	actin cytoskeleton|cytoplasm|fascia adherens	cadherin binding|structural molecule activity			skin(3)|ovary(2)|pancreas(1)|lung(1)|central_nervous_system(1)	8						TCTAGTGATGGTCGTATTTCC	0.448													8	33					0	0	1	0	0		A	68940230	A	A	68940230	3	1	211	1	0	0	0	0	1	0	0	0	4017	1261	44	4	1843	4	CTNNA3	10	68940230	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4980707	68940230	66594517	930	102809											
TET1	80312	broad.mit.edu	37	chr10	70332337	70332337	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaagagctggagcagcacGcatgaatttggataggactg	13	7	14	7	1	0	2	0	1	0	1	0	6	0	5	0	3	3	4	0	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:70332337G>A	uc001jok.3	+	2	747	c.242G>A	c.(241-243)CGC>CAC	p.R81H		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	81					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						GGAGCAGCACGCATGAATTTG	0.438													21	88					0	0	1	0	0		A	70332337	A	A	70332337	3	1	211	1	0	0	0	0	1	0	0	0	15794	1087	38	1	244	1	TET1	10	70332337	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1392107	70332337	65202410	931	102810											
DDX50	79009	broad.mit.edu	37	chr10	70706238	70706238	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcaagtggtcgatcaggccGgtcaggccggtcaggtggtc	6	8	17	10	3	4	0	4	0	0	0	6	1	4	0	2	7	0	0	2	7	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:70706238G>A	uc001jou.2	+	15	2173	c.2066G>A	c.(2065-2067)CGG>CAG	p.R689Q	DDX50_uc010qjc.1_Intron	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	689	Arg-rich.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1						CGATCAGGCCGGTCAGGCCGG	0.517													30	53					0	0	1	0	0		A	70706238	A	A	70706238	3	1	211	1	0	0	0	0	1	0	0	0	4371	1116	39	1	2124	1	DDX50	10	70706238	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	373901	70706238	64828509	932	102811											
ADAMTS14	140766	broad.mit.edu	37	chr10	72498727	72498727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggggtgcgatcccgcagcCggagctgcaacaacccctcg	7	4	14	16	5	0	0	0	0	0	0	2	2	1	1	4	3	6	3	4	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:72498727C>T	uc001jrh.2	+	11	1729	c.1729C>T	c.(1729-1731)CGG>TGG	p.R577W	ADAMTS14_uc001jrg.2_Missense_Mutation_p.R580W|ADAMTS14_uc001jri.1_Missense_Mutation_p.R100W	NM_080722	NP_542453	Q8WXS8	ATS14_HUMAN	ADAM metallopeptidase with thrombospondin type 1	577	TSP type-1 1.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(5)|upper_aerodigestive_tract(1)	6						ATCCCGCAGCCGGAGCTGCAA	0.672													4	44					0	0	1	0	0		T	72498727	T	T	72498727	3	4	211	1	0	0	0	0	1	0	0	0	259	643	23	1	1780	1	ADAMTS14	10	72498727	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1792489	72498727	63036020	933	102812											
CDH23	64072	broad.mit.edu	37	chr10	73462408	73462408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcagaacctgccttttgtggCcgaggtgcttgaaggcatcc	7	11	12	11	1	1	2	1	1	0	1	2	3	2	2	4	3	3	2	4	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:73462408C>T	uc001jrx.3	+	23	3067	c.2690C>T	c.(2689-2691)GCC>GTC	p.A897V	CDH23_uc001jry.2_Missense_Mutation_p.A513V|CDH23_uc001jrz.2_Missense_Mutation_p.A513V	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	897	Cadherin 9.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CCTTTTGTGGCCGAGGTGCTT	0.572													37	96					0	0	1	0	0		T	73462408	T	T	73462408	3	4	211	1	0	0	0	0	1	0	0	0	3111	739	26	2	3007	2	CDH23	10	73462408	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	963681	73462408	62072339	934	102813											
CDH23	64072	broad.mit.edu	37	chr10	73491781	73491781	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aactaccgcatcctgtcgggCgcagaggggaagtttgagat	10	8	14	9	3	0	2	0	1	0	2	2	4	1	3	2	3	2	3	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:73491781C>T	uc001jrx.3	+	31	4130	c.3753C>T	c.(3751-3753)GGC>GGT	p.G1251G	CDH23_uc001jrz.2_Silent_p.G867G|C10orf105_uc001jsb.1_Intron|CDH23_uc001jsc.1_Silent_p.G59G	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1251	Cadherin 12.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TCCTGTCGGGCGCAGAGGGGA	0.557													4	16					0	0	1	0	0		T	73491781	T	T	73491781	2	4	211	1	0	0	0	0	0	0	0	1	3111	755	27	1		1	CDH23	10	73491781	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	29373	73491781	62042966	935	102814											
CDH23	64072	broad.mit.edu	37	chr10	73501579	73501579	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttccgcatggaccgcatcagCggtgagatcgccacacggcc	8	6	12	15	5	1	1	1	1	0	1	3	3	2	2	4	3	1	2	4	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:73501579C>T	uc001jrx.3	+	36	5123	c.4746C>T	c.(4744-4746)AGC>AGT	p.S1582S	CDH23_uc001jsc.1_Silent_p.S389S	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1582	Cadherin 15.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ACCGCATCAGCGGTGAGATCG	0.632													7	23					0	0	1	0	0		T	73501579	T	T	73501579	2	4	211	1	0	0	0	0	0	0	0	1	3111	767	27	1		1	CDH23	10	73501579	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9798	73501579	62033168	936	102815											
PLAU	5328	broad.mit.edu	37	chr10	75673765	75673765	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaaagaaggaggactacatCgtctacctgggtcgctcaag	12	7	11	11	2	2	1	1	0	1	1	4	3	2	3	2	3	2	1	2	3	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:75673765C>T	uc001jwa.2	+	8	854	c.708C>T	c.(706-708)ATC>ATT	p.I236I	C10orf55_uc001jvz.1_Intron|PLAU_uc010qkw.1_Silent_p.I219I|PLAU_uc010qkx.1_Silent_p.I150I|PLAU_uc001jwb.2_RNA|PLAU_uc001jwc.2_Silent_p.I236I|PLAU_uc009xrq.1_Silent_p.I200I	NM_002658	NP_002649	P00749	UROK_HUMAN	plasminogen activator, urokinase isoform 1	236	Peptidase S1.				blood coagulation|chemotaxis|fibrinolysis|proteolysis|regulation of cell adhesion mediated by integrin|regulation of receptor activity|regulation of smooth muscle cell migration|regulation of smooth muscle cell-matrix adhesion|signal transduction	cell surface|extracellular space|plasma membrane	serine-type endopeptidase activity			ovary(2)|kidney(1)	3	Prostate(51;0.0112)				Amiloride(DB00594)|Urokinase(DB00013)	AGGACTACATCGTCTACCTGG	0.507													21	36					0	0	1	0	0		T	75673765	T	T	75673765	2	4	211	1	0	0	0	0	0	0	0	1	12041	874	31	1		1	PLAU	10	75673765	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2172186	75673765	59860982	937	102816											
MYST4	23522	broad.mit.edu	37	chr10	76789460	76789460	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgctctggaaaacagctaCgcccaaatcagcccagatca	13	6	7	15	1	3	1	2	0	1	1	3	2	3	2	3	1	5	2	3	1	4	1	rs146568876		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:76789460C>A	uc001jwn.1	+	18	5371	c.4878C>A	c.(4876-4878)TAC>TAA	p.Y1626*	MYST4_uc001jwo.1_Nonsense_Mutation_p.Y1334*|MYST4_uc001jwp.1_Nonsense_Mutation_p.Y1443*	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1626	Ser-rich.|Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					AAAACAGCTACGCCCAAATCA	0.527			T	CREBBP	AML								39	70					6.68952e-21	7.33392e-21	1	1	0		A	76789460	A	A	76789460	4	1	211	1	0	0	0	0	0	1	0	0	10123	547	19	5	4940	5	MYST4	10	76789460	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1115695	76789460	58745287	938	102817											
VDAC2	7417	broad.mit.edu	37	chr10	76980624	76980624	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtctttggttatgagggctgGcttgctggctaccagatgac	6	13	14	8	0	1	3	0	2	1	1	1	3	1	3	1	4	2	5	1	4	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:76980624G>A	uc001jwz.2	+	7	639	c.480G>A	c.(478-480)TGG>TGA	p.W160*	VDAC2_uc010qld.1_Nonsense_Mutation_p.W121*|VDAC2_uc001jxa.2_Nonsense_Mutation_p.W175*|VDAC2_uc010qle.1_Nonsense_Mutation_p.W121*	NM_003375	NP_003366	P45880	VDAC2_HUMAN	voltage-dependent anion channel 2	160						mitochondrial nucleoid|mitochondrial outer membrane|pore complex	nucleotide binding|porin activity|protein binding|voltage-gated anion channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.0642)|all_epithelial(25;0.00604)|Prostate(51;0.0112)|Ovarian(15;0.183)				Dihydroxyaluminium(DB01375)	ATGAGGGCTGGCTTGCTGGCT	0.468													8	55					0	0	1	0	0		A	76980624	A	A	76980624	4	1	211	1	0	0	0	0	0	1	0	0	17173	1212	42	2	582	2	VDAC2	10	76980624	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	191164	76980624	58554123	939	102818											
ANXA11	311	broad.mit.edu	37	chr10	81917463	81917463	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatctgatgtccaggaggtcGgtctcgctgcgagacaccat	8	9	13	11	3	2	2	0	1	2	1	5	5	3	3	2	3	1	1	2	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:81917463G>A	uc001kbq.1	-	16	2217	c.1392C>T	c.(1390-1392)ACC>ACT	p.T464T	ANXA11_uc010qlx.1_Silent_p.T564T|ANXA11_uc001kbr.1_Silent_p.T464T|ANXA11_uc001kbs.1_Silent_p.T464T|ANXA11_uc001kbt.1_Silent_p.T464T|ANXA11_uc010qly.1_Silent_p.T431T|ANXA11_uc009xsq.1_Silent_p.T468T|ANXA11_uc001kbu.1_Silent_p.T464T	NM_145869	NP_665876	P50995	ANX11_HUMAN	annexin A11	464	Annexin 4.				cell cycle|cytokinesis, completion of separation|phagocytosis|response to calcium ion	azurophil granule|melanosome|midbody|nuclear envelope|nucleoplasm|phagocytic vesicle|specific granule|spindle	calcium-dependent phospholipid binding|calcium-dependent protein binding|S100 alpha binding			ovary(1)	1	Prostate(51;0.00985)|all_epithelial(25;0.0951)		Colorectal(32;0.109)			CCAGGAGGTCGGTCTCGCTGC	0.587													13	52					0	0	1	0	0		A	81917463	A	A	81917463	2	1	211	1	0	0	0	0	0	0	0	1	716	1103	39	1		1	ANXA11	10	81917463	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4936839	81917463	53617284	940	102819											
NRG3	10718	broad.mit.edu	37	chr10	84745202	84745202	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccgaattctgactgatgcCagacggtcagaagactacga	13	8	10	10	3	2	5	1	2	1	3	3	7	3	5	2	1	2	0	2	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:84745202C>A	uc001kco.2	+	9	1959	c.1932C>A	c.(1930-1932)GCC>GCA	p.A644A	NRG3_uc010qlz.1_Silent_p.A643A|NRG3_uc001kcp.2_Silent_p.A447A|NRG3_uc001kcq.2_Silent_p.A294A|NRG3_uc001kcr.2_Silent_p.A318A	NM_001010848	NP_001010848	P56975	NRG3_HUMAN	neuregulin 3 isoform 1	668	Cytoplasmic (Potential).				regulation of cell growth	extracellular region|integral to plasma membrane	growth factor activity|receptor tyrosine kinase binding|transmembrane receptor protein tyrosine kinase activator activity			lung(5)|breast(1)	6				GBM - Glioblastoma multiforme(1;2.5e-18)|all cancers(1;2.85e-09)		TGACTGATGCCAGACGGTCAG	0.478													11	25					0.000673444	0.000687181	1	1	0		A	84745202	A	A	84745202	2	1	211	1	0	0	0	0	0	0	0	1	10668	581	21	5		5	NRG3	10	84745202	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2827739	84745202	50789545	941	102820											
BMPR1A	657	broad.mit.edu	37	chr10	88659627	88659627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	taaccagtatttgcaacccaCactgccccctgttgtcatag	10	11	6	14	0	1	0	1	0	0	0	1	0	1	0	4	0	4	3	4	0	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:88659627C>T	uc001kdy.2	+	6	958	c.410C>T	c.(409-411)ACA>ATA	p.T137I		NM_004329	NP_004320	P36894	BMR1A_HUMAN	bone morphogenetic protein receptor, type IA	137	Extracellular (Potential).				BMP signaling pathway|immune response|positive regulation of bone mineralization|positive regulation of osteoblast differentiation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|transforming growth factor beta receptor signaling pathway	integral to membrane|plasma membrane	ATP binding|metal ion binding|protein homodimerization activity|SMAD binding|transforming growth factor beta receptor activity			lung(3)|large_intestine(1)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	8						TTGCAACCCACACTGCCCCCT	0.423			Mis|N|F			gastrointestinal polyps			Hereditary_Mixed_Polyposis_syndrome_type_2|Juvenile_Polyposis				14	53					0	0	1	0	0		T	88659627	T	T	88659627	3	4	211	1	0	0	0	0	1	0	0	0	1470	478	17	4	424	4	BMPR1A	10	88659627	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3914425	88659627	46875120	942	102821											
MMRN2	79812	broad.mit.edu	37	chr10	88702881	88702881	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggccgcccgcgcccgctcgcCctccgctttgtgcgcgtcca	1	7	12	21	8	0	0	0	0	0	0	3	0	2	0	6	1	1	2	6	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:88702881C>A	uc001kea.2	-	6	1787	c.1660G>T	c.(1660-1662)GGC>TGC	p.G554C	MMRN2_uc010qmn.1_Missense_Mutation_p.G197C|MMRN2_uc009xtb.2_Missense_Mutation_p.G511C	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	554	Potential.					extracellular space				large_intestine(1)	1						GCCCGCTCGCCCTCCGCTTTG	0.766													4	6					1	1	1	1	0		A	88702881	A	A	88702881	3	1	211	1	0	0	0	0	1	0	0	0	9689	623	22	5	1197	5	MMRN2	10	88702881	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	43254	88702881	46831866	943	102822											
STAMBPL1	57559	broad.mit.edu	37	chr10	90665312	90665312	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catcagtgaagacatcactcCacgacgttactttaggtctg	11	11	8	11	2	3	2	2	1	1	1	4	3	4	2	1	1	1	1	1	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:90665312C>A	uc001kfk.2	+	3	566	c.143C>A	c.(142-144)CCA>CAA	p.P48Q	STAMBPL1_uc010qmx.1_Missense_Mutation_p.P48Q|STAMBPL1_uc009xto.2_RNA|STAMBPL1_uc001kfl.2_Missense_Mutation_p.P48Q|STAMBPL1_uc001kfm.2_5'Flank	NM_020799	NP_065850	Q96FJ0	STALP_HUMAN	STAM binding protein-like 1	48							metal ion binding|metallopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0381)		Colorectal(12;6.38e-05)|COAD - Colon adenocarcinoma(12;7.75e-05)		GACATCACTCCACGACGTTAC	0.433													27	66					1.08312e-15	1.1737e-15	1	1	0		A	90665312	A	A	90665312	3	1	211	1	0	0	0	0	1	0	0	0	15276	594	21	5	149	5	STAMBPL1	10	90665312	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1962431	90665312	44869435	944	102823											
TNKS2	80351	broad.mit.edu	37	chr10	93610997	93610998	+	Frame_Shift_Ins	INS	-	T	T																															tttggatgtattagttgagaINStggggcacaaggagctgaag																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:93610997_93610998insT	uc001khp.2	+	21	3016_3017	c.2719_2720insT	c.(2719-2721)ATGfs	p.M907fs		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	907	SAM.				positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				ATTAGTTGAGATGGGGCACAAG	0.371													27	58	---	---	---	---						.	T	93610998	T	T	93610997	7	5	211	1	0	1	1	0	0	0	0	0	16346	333	12	0	2801	0	TNKS2	10	93610997	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	2945685	93610997	41923750	945	102824											
IDE	3416	broad.mit.edu	37	chr10	94221002	94221002	+	Silent	SNP	A	G	G	1	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	gtctttaaatatgcaacctcAgtgttatctgaaaaagtaat	15	14	6	6	0	3	1	1	1	2	0	3	1	3	1	1	0	2	3	1	0	8	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:94221002A>G	uc001kia.2	-	22	2845	c.2769T>C	c.(2767-2769)ACT>ACC	p.T923T	IDE_uc010qnp.1_Silent_p.T368T|IDE_uc001khz.2_Silent_p.T368T	NM_004969	NP_004960	P14735	IDE_HUMAN	insulin-degrading enzyme isoform 1 precursor	923					beta-amyloid metabolic process|bradykinin catabolic process|interspecies interaction between organisms|sex differentiation	cell surface|extracellular space|soluble fraction	ATP binding|metalloendopeptidase activity|protein homodimerization activity|signal transducer activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3					Bacitracin(DB00626)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ATGCAACCTCAGTGTTATCTG	0.294													3	17					0	0	1	0	0		G	94221002	G	G	94221002	2	3	211	1	0	0	0	0	0	0	0	1	7509	175	7	3		3	IDE	10	94221002	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	610005	94221002	41313745	946	102825											
CYP26C1	340665	broad.mit.edu	37	chr10	94822567	94822567	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggtgcgctcctggtgcGcggcgggcgggccggtctca	3	7	19	12	6	1	1	1	1	1	0	3	1	2	1	2	6	2	1	2	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:94822567G>A	uc010qns.1	+	3	520	c.520G>A	c.(520-522)GCG>ACG	p.A174T	CYP26C1_uc009xud.2_RNA	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	174					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				CTCCTGGTGCGCGGCGGGCGG	0.741													3	15					0	0	1	0	0		A	94822567	A	A	94822567	3	1	211	1	0	0	0	0	1	0	0	0	4160	1087	38	1	530	1	CYP26C1	10	94822567	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	601565	94822567	40712180	947	102826											
CYP26C1	340665	broad.mit.edu	37	chr10	94822703	94822703	+	Missense_Mutation	SNP	A	T	T	1	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	gaccttcgagcagctcgtggAgaacctcttctcactgcctc	7	10	9	15	2	2	1	1	0	2	1	6	4	2	1	3	1	4	2	3	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:94822703A>T	uc010qns.1	+	3	656	c.656A>T	c.(655-657)GAG>GTG	p.E219V	CYP26C1_uc009xud.2_RNA	NM_183374	NP_899230	Q6V0L0	CP26C_HUMAN	cytochrome P450, family 26, subfamily C,	219					anterior/posterior pattern formation|central nervous system development|negative regulation of retinoic acid receptor signaling pathway|neural crest cell development|organelle fusion|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			central_nervous_system(1)	1		Colorectal(252;0.122)				CAGCTCGTGGAGAACCTCTTC	0.697													27	81					0	0	1	0	0		T	94822703	T	T	94822703	3	4	211	1	0	0	0	0	1	0	0	0	4160	304	11	5	666	5	CYP26C1	10	94822703	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	136	94822703	40712044	948	102827											
CYP26A1	1592	broad.mit.edu	37	chr10	94833762	94833762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgctgctcttcctggctgCgatcaagctctgggacctgt	4	12	12	13	1	3	0	1	0	2	0	4	2	4	1	2	2	4	5	2	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:94833762C>T	uc001kil.2	+	1	116	c.71C>T	c.(70-72)GCG>GTG	p.A24V	CYP26A1_uc001kik.1_Intron|CYP26A1_uc001kim.1_5'Flank	NM_000783	NP_000774	O43174	CP26A_HUMAN	cytochrome P450, family 26, subfamily A,	24					negative regulation of retinoic acid receptor signaling pathway|retinoic acid catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|oxygen binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		Colorectal(252;0.122)				TTCCTGGCTGCGATCAAGCTC	0.697													9	35					0	0	1	0	0		T	94833762	T	T	94833762	3	4	211	1	0	0	0	0	1	0	0	0	4158	768	27	1	73	1	CYP26A1	10	94833762	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	11059	94833762	40700985	949	102828											
LGI1	9211	broad.mit.edu	37	chr10	95556956	95556956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagttcaaaagctggttttaCtaccatttacaaatggaacg	14	12	7	8	1	1	0	1	0	0	0	1	1	1	1	1	2	5	3	1	2	7	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:95556956C>T	uc001kjc.3	+	8	1406	c.1070C>T	c.(1069-1071)ACT>ATT	p.T357I	LGI1_uc010qnv.1_Missense_Mutation_p.T309I|LGI1_uc001kjd.3_Intron|LGI1_uc009xui.2_RNA|LGI1_uc001kje.2_Intron	NM_005097	NP_005088	O95970	LGI1_HUMAN	leucine-rich, glioma inactivated 1 precursor	357	EAR 3.				axon guidance|cell proliferation|positive regulation of cell growth|positive regulation of synaptic transmission	cell junction|extracellular space|synapse	receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4		Colorectal(252;0.124)				GCTGGTTTTACTACCATTTAC	0.378													14	39					0	0	1	0	0		T	95556956	T	T	95556956	3	4	211	1	0	0	0	0	1	0	0	0	8767	565	20	4	1100	4	LGI1	10	95556956	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	723194	95556956	39977791	950	102829											
BLNK	29760	broad.mit.edu	37	chr10	97956800	97956800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatcatggccagagcttttcCgaataagaaatgatccatcc	14	10	7	10	1	1	3	1	1	0	2	4	4	4	3	4	1	1	1	4	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:97956800C>T	uc001kls.3	-	16	1293	c.1115G>A	c.(1114-1116)CGG>CAG	p.R372Q	BLNK_uc001kme.3_Missense_Mutation_p.R267Q|BLNK_uc001klt.3_Missense_Mutation_p.R263Q|BLNK_uc009xvc.2_RNA|BLNK_uc001klu.3_Intron|BLNK_uc001klv.3_Intron|BLNK_uc001klw.3_Intron|BLNK_uc001klx.3_Missense_Mutation_p.R349Q|BLNK_uc001kly.3_Intron|BLNK_uc001klz.3_RNA|BLNK_uc001kma.3_Intron|BLNK_uc001kmb.3_Missense_Mutation_p.R168Q|BLNK_uc001kmc.3_Intron|BLNK_uc001kmd.3_Missense_Mutation_p.R290Q|BLNK_uc009xvd.2_RNA	NM_013314	NP_037446	Q8WV28	BLNK_HUMAN	B-cell linker isoform 1	372	SH2.				B cell differentiation|humoral immune response|inflammatory response|intracellular signal transduction	cytoplasm|plasma membrane	SH3/SH2 adaptor activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(2)	2		Colorectal(252;0.083)		Epithelial(162;7.89e-08)|all cancers(201;2.27e-06)		AGAGCTTTTCCGAATAAGAAA	0.274													5	46					0	0	1	0	0		T	97956800	T	T	97956800	3	4	211	1	0	0	0	0	1	0	0	0	1448	652	23	1	263	1	BLNK	10	97956800	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2399844	97956800	37577947	951	102830											
PIK3AP1	118788	broad.mit.edu	37	chr10	98369534	98369534	+	Missense_Mutation	SNP	A	G	G	1	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	gctccgtcctagggggaatgAcacttttcctggggccactc	6	10	12	13	1	0	1	0	1	0	0	4	2	3	2	4	4	0	1	4	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:98369534A>G	uc001kmq.2	-	14	2233	c.2105T>C	c.(2104-2106)GTC>GCC	p.V702A	PIK3AP1_uc001kmo.2_Missense_Mutation_p.V301A|PIK3AP1_uc001kmp.2_Missense_Mutation_p.V524A	NM_152309	NP_689522	Q6ZUJ8	BCAP_HUMAN	phosphoinositide-3-kinase adaptor protein 1	702						cytoplasm|plasma membrane				upper_aerodigestive_tract(3)|ovary(1)|skin(1)	5		Colorectal(252;0.0442)		Epithelial(162;6.29e-08)|all cancers(201;3.18e-06)		AGGGGGAATGACACTTTTCCT	0.567													70	240					0	0	1	0	0		G	98369534	G	G	98369534	3	3	211	1	0	0	0	0	1	0	0	0	11927	275	10	3	328	3	PIK3AP1	10	98369534	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	412734	98369534	37165213	952	102831											
RRP12	23223	broad.mit.edu	37	chr10	99118343	99118343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gatgtaggcatagggatccgGccggcctttcttcttcacat	7	12	11	11	2	3	0	1	0	2	0	4	2	4	1	3	4	0	2	3	4	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:99118343G>A	uc001knf.2	-	33	3881	c.3742C>T	c.(3742-3744)CCG>TCG	p.P1248S	RRP12_uc001kne.2_Missense_Mutation_p.P263S|RRP12_uc009xvl.2_Missense_Mutation_p.P365S|RRP12_uc009xvm.2_Missense_Mutation_p.P966S|RRP12_uc010qou.1_Missense_Mutation_p.P1187S|RRP12_uc009xvn.2_Missense_Mutation_p.P1148S	NM_015179	NP_055994	Q5JTH9	RRP12_HUMAN	ribosomal RNA processing 12 homolog isoform 1	1248						integral to membrane|nuclear membrane|nucleolus	protein binding			ovary(2)|central_nervous_system(1)	3		Colorectal(252;0.162)		Epithelial(162;2.72e-09)|all cancers(201;1.76e-07)		TAGGGATCCGGCCGGCCTTTC	0.582													80	221					0	0	1	0	0		A	99118343	A	A	99118343	3	1	211	1	0	0	0	0	1	0	0	0	13711	1203	42	2	159	2	RRP12	10	99118343	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	748809	99118343	36416404	953	102832											
GOLGA7B	401647	broad.mit.edu	37	chr10	99623943	99623943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggttctcaagaagatttccCgctacatccaggagcagaat	13	9	9	10	1	1	3	1	0	1	3	4	4	3	4	2	2	2	3	2	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:99623943C>T	uc001kos.2	+	4	375	c.310C>T	c.(310-312)CGC>TGC	p.R104C		NM_001010917	NP_001010917	Q2TAP0	GOG7B_HUMAN	golgi autoantigen, golgin subfamily a, 7B	104						Golgi membrane					0						GAAGATTTCCCGCTACATCCA	0.567													16	40					0	0	1	0	0		T	99623943	T	T	99623943	3	4	211	1	0	0	0	0	1	0	0	0	6577	652	23	1	324	1	GOLGA7B	10	99623943	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	505600	99623943	35910804	954	102833											
NKX2-3	159296	broad.mit.edu	37	chr10	101294895	101294895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcaggttcaagcagcagcGgtacctgtcggcacccgagc	9	5	13	14	4	1	0	1	0	0	0	2	1	1	0	2	3	5	6	2	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:101294895G>A	uc009xwj.2	+	2	711	c.512G>A	c.(511-513)CGG>CAG	p.R171Q		NM_145285	NP_660328	Q8TAU0	NKX23_HUMAN	NK2 transcription factor related, locus 3	171	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;4.72e-10)|all cancers(201;3.45e-08)		AAGCAGCAGCGGTACCTGTCG	0.627													4	15					0	0	1	0	0		A	101294895	A	A	101294895	3	1	211	1	0	0	0	0	1	0	0	0	10470	1116	39	1	518	1	NKX2-3	10	101294895	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1670952	101294895	34239852	955	102834											
COX15	1355	broad.mit.edu	37	chr10	101491804	101491804	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcggaaagagcaatcgctgCatactgatgacagggaacag	14	5	14	8	2	0	3	0	2	0	1	1	5	0	5	0	3	4	3	0	3	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:101491804C>T	uc001kqb.3	-	1	620	c.3G>A	c.(1-3)ATG>ATA	p.M1I	COX15_uc001kqc.3_Missense_Mutation_p.M1I|COX15_uc010qpj.1_5'UTR|CUTC_uc010qpk.1_5'Flank|CUTC_uc001kqd.3_5'Flank|CUTC_uc001kqe.3_5'Flank	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	1					heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		GCAATCGCTGCATACTGATGA	0.617													3	17					0	0	1	0	0		T	101491804	T	T	101491804	3	4	211	1	0	0	0	0	1	0	0	0	3767	710	25	2	1335	2	COX15	10	101491804	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	196909	101491804	34042943	956	102835											
WNT8B	7479	broad.mit.edu	37	chr10	102242433	102242433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggagcgccgggccgagaccGtgtccagctgcaactgcaag	9	4	15	13	4	0	1	0	0	0	1	1	3	1	2	4	2	5	3	4	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:102242433G>A	uc001krb.2	+	6	1030	c.916G>A	c.(916-918)GTG>ATG	p.V306M		NM_003393	NP_003384	Q93098	WNT8B_HUMAN	wingless-type MMTV integration site family,	306					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to retinoic acid|determination of dorsal identity|endoderm development|eye development|gastrulation|hypothalamus development|negative regulation of anterior neural cell fate commitment of the neural plate by Wnt receptor signaling pathway|otic placode formation|positive regulation of gene expression|response to estradiol stimulus|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			ovary(1)|breast(1)|large_intestine(1)|skin(1)	4		Colorectal(252;0.117)		Epithelial(162;1.87e-10)|all cancers(201;1.64e-08)		GGCCGAGACCGTGTCCAGCTG	0.726											OREG0020440	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	24					0	0	1	0	0		A	102242433	A	A	102242433	3	1	211	1	0	0	0	0	1	0	0	0	17423	1145	40	1	938	1	WNT8B	10	102242433	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	750629	102242433	33292314	957	102836											
SEC31B	25956	broad.mit.edu	37	chr10	102265959	102265959	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggtagcttatataccacCtaatatgagggaacacacca	14	10	8	9	0	0	1	0	1	0	0	0	2	0	2	3	2	3	3	3	2	7	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:102265959C>A	uc001krc.1	-	9	985	c.883_splice	c.e9-1	p.V295_splice	SEC31B_uc010qpo.1_Splice_Site_p.V294_splice|SEC31B_uc001krd.1_Splice_Site|SEC31B_uc001krf.1_Splice_Site|SEC31B_uc001kre.1_Splice_Site|SEC31B_uc001krg.1_Splice_Site|SEC31B_uc010qpp.1_Intron|SEC31B_uc009xwn.1_Intron|SEC31B_uc009xwo.1_Intron|SEC31B_uc010qpq.1_Intron	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B						protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		TATATACCACCTAATATGAGG	0.527													18	55					2.35188e-11	2.51686e-11	1	1	0		A	102265959	A	A	102265959	5	1	211	1	0	0	0	0	0	0	1	0	14024	695	24	5	2729	5	SEC31B	10	102265959	Splice_Site	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	23526	102265959	33268788	958	102837											
FAM178A	55719	broad.mit.edu	37	chr10	102684492	102684492	+	Silent	SNP	A	G	G	1	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	ccttcagataaagccccttcAgaaggagagagttcaggaaa	15	7	10	9	0	3	3	3	0	0	3	3	6	3	5	3	2	1	1	3	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:102684492A>G	uc001krt.3	+	5	2276	c.1734A>G	c.(1732-1734)TCA>TCG	p.S578S	FAM178A_uc001krr.1_Silent_p.S578S|FAM178A_uc001krs.2_Silent_p.S578S|FAM178A_uc001kru.1_Silent_p.S513S	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	578											0						AAGCCCCTTCAGAAGGAGAGA	0.463													5	96					0	0	1	0	0		G	102684492	G	G	102684492	2	3	211	1	0	0	0	0	0	0	0	1	5514	175	7	3		3	FAM178A	10	102684492	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	418533	102684492	32850255	959	102838											
FAM178A	55719	broad.mit.edu	37	chr10	102719203	102719203	+	Missense_Mutation	SNP	A	G	G	1	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	aggtgaaagacttggtcgccAggatacatggaaaatggcag	14	7	14	6	1	0	2	0	1	0	1	1	4	0	4	1	5	1	1	1	5	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:102719203A>G	uc001krt.3	+	19	3978	c.3436A>G	c.(3436-3438)AGG>GGG	p.R1146G	FAM178A_uc001krs.2_Missense_Mutation_p.R1146G	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	1146											0						CTTGGTCGCCAGGATACATGG	0.353													44	121					0	0	1	0	0		G	102719203	G	G	102719203	3	3	211	1	0	0	0	0	1	0	0	0	5514	179	7	3	3510	3	FAM178A	10	102719203	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	34711	102719203	32815544	960	102839											
MRPL43	84545	broad.mit.edu	37	chr10	102739097	102739097	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctggagcagaggtcaatgaGgatgagataggatccactgt	12	8	15	6	0	1	3	1	2	0	2	2	7	2	6	1	4	1	2	1	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:102739097G>T	uc001kry.1	-	5	633	c.561C>A	c.(559-561)TCC>TCA	p.S187S	SEMA4G_uc001krv.2_Intron|SEMA4G_uc010qpt.1_Intron|SEMA4G_uc001krw.1_Intron|SEMA4G_uc001krx.2_Intron|MRPL43_uc010qpu.1_Missense_Mutation_p.L230I	NM_176792	NP_789762	Q8N983	RM43_HUMAN	mitochondrial ribosomal protein L43 isoform b	187					translation	mitochondrial ribosome	protein binding|structural constituent of ribosome			skin(1)	1		Colorectal(252;0.234)		Epithelial(162;6.21e-09)|all cancers(201;3.14e-07)		AGGTCAATGAGGATGAGATAG	0.403													20	71					5.45024e-15	5.89712e-15	1	1	0		T	102739097	T	T	102739097	2	4	211	1	0	0	0	0	0	0	0	1	9825	987	35	5		5	MRPL43	10	102739097	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	19894	102739097	32795650	961	102840											
NPM3	10360	broad.mit.edu	37	chr10	103543108	103543108	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcccgcgttcggctctcctGactcaaaaacgctaaggcag	9	7	11	14	4	2	1	1	1	1	0	4	1	2	1	2	3	1	4	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:103543108G>A	uc001ktt.2	-	1	63	c.40C>T	c.(40-42)CAG>TAG	p.Q14*		NM_006993	NP_008924	O75607	NPM3_HUMAN	nucleophosmin/nucleoplasmin 3	14							nucleic acid binding				0		Colorectal(252;0.122)		Epithelial(162;3.94e-09)|all cancers(201;2.13e-07)		CGGCTCTCCTGACTCAAAAAC	0.627													18	35					0	0	1	0	0		A	103543108	A	A	103543108	4	1	211	1	0	0	0	0	0	1	0	0	10608	1299	45	4	516	4	NPM3	10	103543108	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	804011	103543108	31991639	962	102841											
GBF1	8729	broad.mit.edu	37	chr10	104128514	104128514	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaagtgcgccatgatctcCgcccactatggcctcagcga	9	7	11	14	3	2	1	1	1	1	0	3	3	2	2	4	2	2	0	4	2	2	1	rs141570106		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:104128514C>T	uc001kux.1	+	23	3135	c.2895C>T	c.(2893-2895)TCC>TCT	p.S965S	GBF1_uc001kuy.1_Silent_p.S965S|GBF1_uc001kuz.1_Silent_p.S966S	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	965					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CCATGATCTCCGCCCACTATG	0.532													22	54					0	0	1	0	0		T	104128514	T	T	104128514	2	4	211	1	0	0	0	0	0	0	0	1	6286	639	23	1		1	GBF1	10	104128514	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	585406	104128514	31406233	963	102842											
GBF1	8729	broad.mit.edu	37	chr10	104129937	104129937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tttgccctctctagcaatgtGacccagaaaaaatgatcaca	14	10	6	11	0	2	3	1	2	1	1	3	3	2	3	2	0	2	1	2	0	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:104129937G>A	uc001kux.1	+	27	3583	c.3343G>A	c.(3343-3345)GAC>AAC	p.D1115N	GBF1_uc001kuy.1_Missense_Mutation_p.D1115N|GBF1_uc001kuz.1_Missense_Mutation_p.D1116N	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1115					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CTAGCAATGTGACCCAGAAAA	0.498													94	236					0	0	1	0	0		A	104129937	A	A	104129937	3	1	211	1	0	0	0	0	1	0	0	0	6286	1290	45	4	3445	4	GBF1	10	104129937	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1423	104129937	31404810	964	102843											
GBF1	8729	broad.mit.edu	37	chr10	104130552	104130552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttctgcttccttgtggagCgggcagtggtggggttgcta	4	14	16	7	1	1	0	0	0	1	0	2	1	2	1	1	5	3	4	1	5	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:104130552C>T	uc001kux.1	+	29	3832	c.3592C>T	c.(3592-3594)CGG>TGG	p.R1198W	GBF1_uc001kuy.1_Missense_Mutation_p.R1198W|GBF1_uc001kuz.1_Missense_Mutation_p.R1199W	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1198					COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|regulation of ARF protein signal transduction|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.0236)		Epithelial(162;5.16e-08)|all cancers(201;1.19e-06)		CCTTGTGGAGCGGGCAGTGGT	0.542													16	64					0	0	1	0	0		T	104130552	T	T	104130552	3	4	211	1	0	0	0	0	1	0	0	0	6286	759	27	1	3702	1	GBF1	10	104130552	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	615	104130552	31404195	965	102844											
NEURL	9148	broad.mit.edu	37	chr10	105330652	105330652	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatcgggggccccttccccGtcacttctcaccgatgccac	5	9	8	19	3	2	0	2	0	1	0	5	1	3	0	6	2	1	0	6	2	1	3	rs143041435		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:105330652G>A	uc001kxh.2	+	2	519	c.109G>A	c.(109-111)GTC>ATC	p.V37I		NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	37					nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		CCCCTTCCCCGTCACTTCTCA	0.647													66	191					0	0	1	0	0		A	105330652	A	A	105330652	3	1	211	1	0	0	0	0	1	0	0	0	10364	1145	40	1	115	1	NEURL	10	105330652	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1200100	105330652	30204095	966	102845											
PNLIP	5406	broad.mit.edu	37	chr10	118307977	118307977	+	Silent	SNP	C	T	T	0	0	0	1	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	acaagggagaagaaaactggCtggccaatgtgtgcaaggtg	14	6	15	6	0	0	2	0	0	0	2	0	3	0	2	1	4	2	2	1	4	6	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:118307977C>T	uc001lcm.2	+	4	350	c.307C>T	c.(307-309)CTG>TTG	p.L103L		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	103					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	AGAAAACTGGCTGGCCAATGT	0.338													26	81					0	0	1	0	0		T	118307977	T	T	118307977	2	4	211	1	0	0	0	0	0	0	0	1	12168	796	28	2		2	PNLIP	10	118307977	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	12977325	118307977	17226770	967	102846											
BAG3	9531	broad.mit.edu	37	chr10	121411231	121411231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	catgatgcaggtggcgtccgGcaacggtgaccgcgaccctt	7	7	14	13	5	0	2	0	2	0	0	1	3	1	2	3	4	2	2	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:121411231G>A	uc001lem.2	+	1	350	c.44G>A	c.(43-45)GGC>GAC	p.G15D	BAG3_uc001lel.2_Missense_Mutation_p.G15D	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	15					anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		GTGGCGTCCGGCAACGGTGAC	0.716													14	31					0	0	1	0	0		A	121411231	A	A	121411231	3	1	211	1	0	0	0	0	1	0	0	0	1289	1203	42	2	46	2	BAG3	10	121411231	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3103254	121411231	14123516	968	102847											
INPP5F	22876	broad.mit.edu	37	chr10	121586728	121586728	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaaagtccttctgctggcgaCgtacacatattgactggctt	10	12	9	10	2	1	1	0	1	1	0	2	2	2	1	1	2	2	3	1	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:121586728C>T	uc001leo.2	+	20	3001	c.2835C>T	c.(2833-2835)GAC>GAT	p.D945D	INPP5F_uc001lep.2_Silent_p.D335D	NM_014937	NP_055752	Q9Y2H2	SAC2_HUMAN	inositol polyphosphate-5-phosphatase F	945							phosphoric ester hydrolase activity			ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00205)|BRCA - Breast invasive adenocarcinoma(275;0.158)		CTGCTGGCGACGTACACATAT	0.468													20	48					0	0	1	0	0		T	121586728	T	T	121586728	2	4	211	1	0	0	0	0	0	0	0	1	7774	535	19	1		1	INPP5F	10	121586728	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	175497	121586728	13948019	969	102848											
BTBD16	118663	broad.mit.edu	37	chr10	124096124	124096124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcagaggccctggttgacgGcaagtggcaggagttcagga	10	6	17	8	1	1	2	1	1	0	1	1	4	1	4	1	6	1	5	1	6	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:124096124G>A	uc001lgc.1	+	15	1630	c.1379G>A	c.(1378-1380)GGC>GAC	p.G460D	BTBD16_uc001lgd.1_Missense_Mutation_p.G459D	NM_144587	NP_653188	Q32M84	BTBDG_HUMAN	BTB (POZ) domain containing 16	460										skin(1)	1		all_neural(114;0.107)|Lung NSC(174;0.175)|all_lung(145;0.222)|Breast(234;0.238)				CTGGTTGACGGCAAGTGGCAG	0.542													23	32					0	0	1	0	0		A	124096124	A	A	124096124	3	1	211	1	0	0	0	0	1	0	0	0	1544	1203	42	2	1433	2	BTBD16	10	124096124	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2509396	124096124	11438623	970	102849											
DMBT1	1755	broad.mit.edu	37	chr10	124353109	124353109	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ccagtcccggccgacacccaGtccaggtaggtccccagtgt	7	6	11	17	2	0	0	0	0	0	0	3	1	3	0	7	3	0	1	7	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:124353109G>C	uc001lgk.1	+	21	2631	c.2525G>C	c.(2524-2526)AGT>ACT	p.S842T	DMBT1_uc001lgl.1_Missense_Mutation_p.S832T|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Missense_Mutation_p.S842T|DMBT1_uc010qtx.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	842					epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CCGACACCCAGTCCAGGTAGG	0.522													65	225					0	0	1	0	0		C	124353109	C	C	124353109	3	2	211	1	0	0	0	0	1	0	0	0	4583	1029	36	5	2607	5	DMBT1	10	124353109	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	256985	124353109	11181638	971	102850											
HMX3	340784	broad.mit.edu	37	chr10	124896767	124896767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgccaggcgcggccggggcGagcgtaggggcggcggcggc	3	1	24	13	9	0	0	0	0	0	0	0	1	0	0	2	9	1	1	2	9	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:124896767G>A	uc010quc.1	+	2	594	c.594G>A	c.(592-594)GCG>GCA	p.A198A		NM_001105574	NP_001099044	A6NHT5	HMX3_HUMAN	H6 family homeobox 3	198					cell differentiation	nucleus	sequence-specific DNA binding transcription factor activity				0		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.122)|COAD - Colon adenocarcinoma(40;0.141)		CGGCCGGGGCGAGCGTAGGGG	0.657													4	9					0	0	1	0	0		A	124896767	A	A	124896767	2	1	211	1	0	0	0	0	0	0	0	1	7264	1045	37	1		1	HMX3	10	124896767	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	543658	124896767	10637980	972	102851											
CPXM2	119587	broad.mit.edu	37	chr10	125526656	125526656	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcgtcccagggaccagcctcCcagctccgagccctggagac	7	4	12	18	2	0	1	0	0	0	1	3	4	3	2	6	2	3	1	6	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:125526656C>A	uc001lhk.1	-	10	1637	c.1312G>T	c.(1312-1314)GGA>TGA	p.G438*	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	438					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		GACCAGCCTCCCAGCTCCGAG	0.547													20	55					3.01185e-09	3.16796e-09	1	1	0		A	125526656	A	A	125526656	4	1	211	1	0	0	0	0	0	1	0	0	3841	632	22	5	978	5	CPXM2	10	125526656	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	629889	125526656	10008091	973	102852											
CHST15	51363	broad.mit.edu	37	chr10	125780886	125780886	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcatggaagtcgtccgcGgatttattcgaacttgcaaa	10	13	9	9	4	1	0	1	0	1	0	5	3	2	2	1	2	2	1	1	2	4	5	rs139630938	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:125780886G>A	uc001lhl.2	-	5	1746	c.1233C>T	c.(1231-1233)TCC>TCT	p.S411S	CHST15_uc001lhm.2_Silent_p.S411S|CHST15_uc001lhn.2_Silent_p.S411S|CHST15_uc010que.1_Silent_p.S411S|CHST15_uc001lho.2_Silent_p.S411S	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	411	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						AGTCGTCCGCGGATTTATTCG	0.418													12	41					0	0	1	0	0		A	125780886	A	A	125780886	2	1	211	1	0	0	0	0	0	0	0	1	3406	1103	39	1		1	CHST15	10	125780886	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	254230	125780886	9753861	974	102853											
CHST15	51363	broad.mit.edu	37	chr10	125801889	125801889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccttgatggatctggtgtgCggccaggtcaaagaggtcca	8	10	14	9	1	2	2	1	1	1	1	4	3	4	3	3	5	1	0	3	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:125801889C>T	uc001lhl.2	-	3	1474	c.961G>A	c.(961-963)GCA>ACA	p.A321T	CHST15_uc001lhm.2_Missense_Mutation_p.A321T|CHST15_uc001lhn.2_Missense_Mutation_p.A321T|CHST15_uc010que.1_Missense_Mutation_p.A321T|CHST15_uc001lho.2_Missense_Mutation_p.A321T	NM_015892	NP_056976	Q7LFX5	CHSTF_HUMAN	B cell RAG associated protein	321	Lumenal (Potential).				hexose biosynthetic process	Golgi membrane|integral to membrane	3'-phosphoadenosine 5'-phosphosulfate binding|N-acetylgalactosamine 4-sulfate 6-O-sulfotransferase activity			ovary(1)	1						ATCTGGTGTGCGGCCAGGTCA	0.527													25	67					0	0	1	0	0		T	125801889	T	T	125801889	3	4	211	1	0	0	0	0	1	0	0	0	3406	768	27	1	744	1	CHST15	10	125801889	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	21003	125801889	9732858	975	102854											
CTBP2	1488	broad.mit.edu	37	chr10	126682504	126682504	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttgtgctaaggctttctcGtccaccaggccgccacgggc	5	9	12	15	3	1	0	0	0	1	0	3	0	2	0	4	3	1	3	4	3	1	3	rs148275243		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:126682504G>A	uc009yak.2	-	8	1118	c.831C>T	c.(829-831)GAC>GAT	p.D277D	CTBP2_uc009yal.2_Silent_p.D277D|CTBP2_uc001lif.3_Silent_p.D277D|CTBP2_uc001lih.3_Silent_p.D277D|CTBP2_uc001lid.3_Silent_p.D345D|CTBP2_uc001lie.3_Silent_p.D817D	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	277					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		AGGCTTTCTCGTCCACCAGGC	0.607													72	124					0	0	1	0	0		A	126682504	A	A	126682504	2	1	211	1	0	0	0	0	0	0	0	1	4001	1136	40	1		1	CTBP2	10	126682504	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	880615	126682504	8852243	976	102855											
CTBP2	1488	broad.mit.edu	37	chr10	126691913	126691913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtgggcccaccttctcGtggatttcctgcgtcgactg	4	11	13	13	3	1	0	0	0	1	0	4	2	2	1	3	3	1	0	3	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:126691913G>A	uc009yak.2	-	4	494	c.207C>T	c.(205-207)CAC>CAT	p.H69H	CTBP2_uc009yal.2_Silent_p.H69H|CTBP2_uc001lif.3_Silent_p.H69H|CTBP2_uc001lih.3_Silent_p.H69H|CTBP2_uc001lid.3_Silent_p.H137H|CTBP2_uc001lie.3_Silent_p.H609H	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	69					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		CCACCTTCTCGTGGATTTCCT	0.667													26	64					0	0	1	0	0		A	126691913	A	A	126691913	2	1	211	1	0	0	0	0	0	0	0	1	4001	1136	40	1		1	CTBP2	10	126691913	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	9409	126691913	8842834	977	102856											
C10orf90	118611	broad.mit.edu	37	chr10	128192694	128192694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaccactccaaggacaagCgccggtccccaaatgcaccc	13	3	8	17	2	0	1	0	0	0	1	2	2	2	2	6	2	3	1	6	2	4	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:128192694C>T	uc001ljq.2	-	3	1196	c.1075G>A	c.(1075-1077)GCT>ACT	p.A359T	C10orf90_uc001ljp.2_Missense_Mutation_p.A312T|C10orf90_uc010qum.1_Missense_Mutation_p.A456T|C10orf90_uc009yao.2_Missense_Mutation_p.A456T|C10orf90_uc001ljs.1_Missense_Mutation_p.A312T	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	359										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CAAGGACAAGCGCCGGTCCCC	0.512											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	58					0	0	1	0	0		T	128192694	T	T	128192694	3	4	211	1	0	0	0	0	1	0	0	0	1626	768	27	1	1052	1	C10orf90	10	128192694	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1500781	128192694	7342053	978	102857											
EBF3	253738	broad.mit.edu	37	chr10	131638574	131638574	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggcttggggccggaccacgGgcgcgaaggcgctcttctgt	5	7	17	12	5	2	0	0	0	2	0	2	2	2	1	2	6	0	2	2	6	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr10:131638574G>A	uc001lki.1	-	15	1618	c.1559C>T	c.(1558-1560)CCC>CTC	p.P520L		NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	early B-cell factor 3	565					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|metal ion binding|protein binding			central_nervous_system(1)|pancreas(1)	2		all_cancers(35;1.8e-08)|all_epithelial(44;8.26e-08)|Lung NSC(174;0.0091)|all_lung(145;0.0123)|Breast(234;0.039)|all_neural(114;0.0722)|Colorectal(57;0.0764)		OV - Ovarian serous cystadenocarcinoma(35;0.00513)		CCGGACCACGGGCGCGAAGGC	0.622													3	7					0	0	1	0	0		A	131638574	A	A	131638574	3	1	211	1	0	0	0	0	1	0	0	0	4888	1232	43	4	104	4	EBF3	10	131638574	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3445880	131638574	3896173	979	102858											
PKP3	11187	broad.mit.edu	37	chr11	400009	400009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcgaccacctgaaggaccGcctggccagagacacgctgg	10	3	13	15	3	0	2	0	1	0	1	0	5	0	3	5	3	1	1	5	3	1	0	rs144679997		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:400009G>A	uc001lpc.2	+	6	1392	c.1316G>A	c.(1315-1317)CGC>CAC	p.R439H		NM_007183	NP_009114	Q9Y446	PKP3_HUMAN	plakophilin 3	439					cell adhesion	desmosome|nucleus	binding			skin(1)	1		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)		CTGAAGGACCGCCTGGCCAGA	0.662													4	18					0	0	1	0	0		A	400009	A	A	400009	3	1	211	1	0	0	0	0	1	0	0	0	12005	1087	38	1	1338	1	PKP3	11	400009	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08		400009	134606507	980	102859											
PHRF1	57661	broad.mit.edu	37	chr11	609301	609301	+	Missense_Mutation	SNP	A	T	T	1	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	aagcgacgccgttttcatccAgctcgatgacatgagctcgc	9	9	10	13	5	1	2	1	2	0	0	4	4	2	2	2	0	3	3	2	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:609301A>T	uc001lqe.2	+	14	3976	c.3845A>T	c.(3844-3846)CAG>CTG	p.Q1282L	PHRF1_uc010qwc.1_Missense_Mutation_p.Q1281L|PHRF1_uc010qwd.1_Missense_Mutation_p.Q1280L|PHRF1_uc010qwe.1_Missense_Mutation_p.Q1278L|PHRF1_uc009ybz.1_Missense_Mutation_p.Q1072L|PHRF1_uc009yca.1_RNA	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1	1282							RNA polymerase binding|zinc ion binding				0						GTTTTCATCCAGCTCGATGAC	0.607													13	47					0	0	1	0	0		T	609301	T	T	609301	3	4	211	1	0	0	0	0	1	0	0	0	11880	188	7	5	3892	5	PHRF1	11	609301	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	209292	609301	134397215	981	102860											
DEAF1	10522	broad.mit.edu	37	chr11	679753	679753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgacagcagtggcctctaccGtggacgctcggtcaaaggtc	8	8	13	12	3	2	1	1	1	1	0	4	2	2	2	2	4	2	2	2	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:679753G>A	uc001lqq.1	-	8	1754	c.1061C>T	c.(1060-1062)ACG>ATG	p.T354M	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	354					embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		GGCCTCTACCGTGGACGCTCG	0.642													16	47					0	0	1	0	0		A	679753	A	A	679753	3	1	211	1	0	0	0	0	1	0	0	0	4383	1145	40	1	656	1	DEAF1	11	679753	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	70452	679753	134326763	982	102861											
CHID1	66005	broad.mit.edu	37	chr11	900108	900108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtcctcaaacaggagccgagGcactgcaggggcaacagaca	13	3	13	12	1	1	1	1	0	0	1	2	3	2	2	2	4	4	3	2	4	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:900108G>A	uc001lsl.2	-	6	603	c.442C>T	c.(442-444)CCT>TCT	p.P148S	CHID1_uc010qwu.1_Missense_Mutation_p.P178S|CHID1_uc010qwv.1_Missense_Mutation_p.P209S|CHID1_uc001lsn.2_Missense_Mutation_p.P173S|CHID1_uc001lsm.2_Missense_Mutation_p.P148S|CHID1_uc001lso.2_Missense_Mutation_p.P148S|CHID1_uc001lsp.2_Missense_Mutation_p.P148S|CHID1_uc010qww.1_Missense_Mutation_p.P148S	NM_023947	NP_076436	Q9BWS9	CHID1_HUMAN	chitinase domain containing 1 isoform a	148					chitin catabolic process|innate immune response	extracellular region|lysosome	cation binding|chitinase activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.48e-25)|Epithelial(43;3.75e-24)|BRCA - Breast invasive adenocarcinoma(625;4.65e-05)|Lung(200;0.0624)|LUSC - Lung squamous cell carcinoma(625;0.0735)		AGGAGCCGAGGCACTGCAGGG	0.587													12	30					0	0	1	0	0		A	900108	A	A	900108	3	1	211	1	0	0	0	0	1	0	0	0	3348	1203	42	2	771	2	CHID1	11	900108	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	220355	900108	134106408	983	102862											
AP2A2	161	broad.mit.edu	37	chr11	993774	993774	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccgctgatccagttccaccTgctgcactccaagttccacc	7	9	6	19	1	0	1	0	1	0	0	4	1	4	1	7	0	2	5	7	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:993774T>C	uc001lss.2	+	13	1752	c.1571T>C	c.(1570-1572)CTG>CCG	p.L524P	AP2A2_uc001lst.1_Missense_Mutation_p.L525P|AP2A2_uc009yco.1_RNA|AP2A2_uc009ycq.1_Missense_Mutation_p.L115P	NM_012305	NP_036437	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2	524					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		CAGTTCCACCTGCTGCACTCC	0.687													4	9					0	0	1	0	0		C	993774	C	C	993774	3	2	211	1	0	0	0	0	1	0	0	0	740	1580	55	3	1621	3	AP2A2	11	993774	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	93666	993774	134012742	984	102863											
MUC6	4588	broad.mit.edu	37	chr11	1017592	1017592	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgtgctaaatgagcttcGggattggctggtcccactgg	6	10	15	10	2	0	1	0	1	0	0	2	2	1	2	2	5	2	3	2	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:1017592G>A	uc001lsw.2	-	31	5260	c.5209C>T	c.(5209-5211)CGA>TGA	p.R1737*		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1737	Thr-rich.|1; truncated.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AATGAGCTTCGGGATTGGCTG	0.532													57	591					0	0	1	0	0		A	1017592	A	A	1017592	4	1	211	1	0	0	0	0	0	1	0	0	9998	1124	39	1	2122	1	MUC6	11	1017592	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	23818	1017592	133988924	985	102864											
MUC2	4583	broad.mit.edu	37	chr11	1081791	1081791	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggactggttggacgatccCtgctccctgaacatcgagag	8	9	12	12	2	0	2	0	1	0	1	3	6	2	4	2	3	2	2	2	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:1081791C>A	uc001lsx.1	+	13	1746	c.1719C>A	c.(1717-1719)CCC>CCA	p.P573P		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	573	VWFD 2.					inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	TGGACGATCCCTGCTCCCTGA	0.677													23	47					3.73148e-12	4.0112e-12	1	1	0		A	1081791	A	A	1081791	2	1	211	1	0	0	0	0	0	0	0	1	9993	668	24	5		5	MUC2	11	1081791	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	64199	1081791	133924725	986	102865											
MUC2	4583	broad.mit.edu	37	chr11	1083287	1083287	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcggtctctacctggaggcGggggatgtggtcgtcaggca	5	8	18	10	4	2	0	1	0	1	0	4	2	2	2	1	7	1	1	1	7	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:1083287G>A	uc001lsx.1	+	16	2214	c.2187G>A	c.(2185-2187)GCG>GCA	p.A729A		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	729						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ACCTGGAGGCGGGGGATGTGG	0.672													25	28					0	0	1	0	0		A	1083287	A	A	1083287	2	1	211	1	0	0	0	0	0	0	0	1	9993	1103	39	1		1	MUC2	11	1083287	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1496	1083287	133923229	987	102866											
SLC22A18	5002	broad.mit.edu	37	chr11	2924669	2924669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcatcttgcttacctacgtgCtggccgccacagaacttacc	8	11	7	15	2	2	1	1	0	1	1	2	1	2	1	4	1	6	2	4	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:2924669C>A	uc001lwx.2	+	2	312	c.94C>A	c.(94-96)CTG>ATG	p.L32M	SLC22A18AS_uc001lwv.3_Intron|SLC22A18AS_uc001lww.3_Intron|SLC22A18_uc001lwy.2_Missense_Mutation_p.L32M|SLC22A18_uc001lwz.2_Missense_Mutation_p.L32M	NM_183233	NP_899056	Q96BI1	S22AI_HUMAN	tumor suppressing subtransferable candidate 5	32	Helical; (Potential).				excretion|organic cation transport	apical plasma membrane|cytoplasmic part|integral to membrane|nuclear envelope	drug:hydrogen antiporter activity|symporter activity|ubiquitin protein ligase binding			central_nervous_system(2)|ovary(1)	3		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)		TACCTACGTGCTGGCCGCCAC	0.652													16	42					1.67942e-08	1.75873e-08	1	1	0		A	2924669	A	A	2924669	3	1	211	1	0	0	0	0	1	0	0	0	14474	796	28	5	96	5	SLC22A18	11	2924669	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1841382	2924669	132081847	988	102867											
CHRNA10	57053	broad.mit.edu	37	chr11	3688709	3688709	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagggctcggagcagcagccGtaggtgagcacgcgccgccg	7	4	17	13	6	0	1	0	1	0	0	1	2	0	2	3	3	4	5	3	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:3688709G>A	uc001lyf.2	-	4	720	c.648C>T	c.(646-648)TAC>TAT	p.Y216Y	CHRNA10_uc010qxt.1_Silent_p.Y10Y|CHRNA10_uc010qxu.1_Silent_p.Y10Y	NM_020402	NP_065135	Q9GZZ6	ACH10_HUMAN	cholinergic receptor, nicotinic, alpha 10	216	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|regulation of cell proliferation|synaptic transmission, cholinergic	cell junction|postsynaptic membrane	calcium channel activity|receptor activity|receptor binding			ovary(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0164)|all_neural(188;0.0577)		BRCA - Breast invasive adenocarcinoma(625;0.0344)|LUSC - Lung squamous cell carcinoma(625;0.192)	Chloroprocaine(DB01161)|Methadone(DB00333)|Nicotine(DB00184)|Pentolinium(DB01090)|Procaine(DB00721)|Trimethaphan(DB01116)	AGCAGCAGCCGTAGGTGAGCA	0.731													9	14					0	0	1	0	0		A	3688709	A	A	3688709	2	1	211	1	0	0	0	0	0	0	0	1	3385	1140	40	1		1	CHRNA10	11	3688709	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	764040	3688709	131317807	989	102868											
OR52A5	390054	broad.mit.edu	37	chr11	5153860	5153860	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggcatgaagactgagccatTgaatgtcggcatgatttgtt	10	12	13	6	1	0	5	0	4	0	1	1	5	0	5	1	2	1	3	1	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:5153860T>C	uc010qyx.1	-	1	13	c.13A>G	c.(13-15)AAT>GAT	p.N5D		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	5	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		ACTGAGCCATTGAATGTCGGC	0.388													6	33					0	0	1	0	0		C	5153860	C	C	5153860	3	2	211	1	0	0	0	0	1	0	0	0	11129	1812	63	3	940	3	OR52A5	11	5153860	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1465151	5153860	129852656	990	102869											
OR52N4	390072	broad.mit.edu	37	chr11	5776875	5776875	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggtgaaaaccaaacagaTacgagactgtgtcataagga	16	7	12	6	1	1	3	1	1	0	2	1	5	1	4	1	3	3	0	1	3	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:5776875T>G	uc001mbu.2	+	1	953	c.905T>G	c.(904-906)ATA>AGA	p.I302R	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		ACCAAACAGATACGAGACTGT	0.428													12	41					0	0	1	0	0		G	5776875	G	G	5776875	3	3	211	1	0	0	0	0	1	0	0	0	11148	1406	49	5	907	5	OR52N4	11	5776875	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	623015	5776875	129229641	991	102870											
ILK	3611	broad.mit.edu	37	chr11	6631234	6631234	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctttccaatgtcctggtcGcatgtatgcacctgcctggg	5	13	10	13	1	1	0	0	0	1	0	4	0	3	0	4	2	2	3	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:6631234G>A	uc001mee.2	+	11	1181	c.1046G>A	c.(1045-1047)CGC>CAC	p.R349H	ILK_uc001mef.2_Missense_Mutation_p.R349H|ILK_uc010rap.1_Missense_Mutation_p.R215H|ILK_uc010raq.1_Missense_Mutation_p.R288H|ILK_uc001meg.2_Missense_Mutation_p.R195H|ILK_uc001meh.2_Missense_Mutation_p.R349H|ILK_uc001mei.2_5'Flank	NM_001014794	NP_001014794	Q13418	ILK_HUMAN	integrin-linked kinase	349	Protein kinase.				cell junction assembly|cell proliferation|cell-matrix adhesion|integrin-mediated signaling pathway|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of transcription, DNA-dependent	cytosol|focal adhesion	ATP binding|protein serine/threonine kinase activity			central_nervous_system(1)	1		Breast(177;7.61e-05)|Medulloblastoma(188;0.00263)|all_neural(188;0.026)|all_lung(207;0.152)		Epithelial(150;5.49e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00012)|Lung(200;0.00942)|LUSC - Lung squamous cell carcinoma(625;0.0163)		TGTCCTGGTCGCATGTATGCA	0.502													21	66					0	0	1	0	0		A	6631234	A	A	6631234	3	1	211	1	0	0	0	0	1	0	0	0	7729	1087	38	1	1084	1	ILK	11	6631234	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	854359	6631234	128375282	992	102871											
DCHS1	8642	broad.mit.edu	37	chr11	6648203	6648203	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagagctacaggagagcgggCcacgcggatttcaccagtgt	10	7	14	10	3	1	2	1	0	0	2	1	4	1	3	2	3	3	1	2	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:6648203C>A	uc001mem.1	-	14	6477	c.6067G>T	c.(6067-6069)GCC>TCC	p.A2023S		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2023	Cadherin 19.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAGAGCGGGCCACGCGGATT	0.577													12	33					0.0135373	0.01369	1	1	0		A	6648203	A	A	6648203	3	1	211	1	0	0	0	0	1	0	0	0	4290	739	26	5	3861	5	DCHS1	11	6648203	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	16969	6648203	128358313	993	102872											
DCHS1	8642	broad.mit.edu	37	chr11	6651814	6651814	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagcgcgtaccgtaagcGcgcgccacggcgggccagct	6	4	14	17	8	1	0	1	0	0	0	1	0	1	0	4	2	4	3	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:6651814G>A	uc001mem.1	-	10	4621	c.4211C>T	c.(4210-4212)GCG>GTG	p.A1404V		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1404	Cadherin 13.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TACCGTAAGCGCGCGCCACGG	0.731													4	9					0	0	1	0	0		A	6651814	A	A	6651814	3	1	211	1	0	0	0	0	1	0	0	0	4290	1087	38	1	5733	1	DCHS1	11	6651814	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3611	6651814	128354702	994	102873											
DCHS1	8642	broad.mit.edu	37	chr11	6662035	6662035	+	Silent	SNP	A	G	G	1	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	acctgcaagacaggactgccAggggccaggctctcagacac	11	4	12	14	0	1	2	1	0	1	2	2	3	1	3	3	4	2	2	3	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:6662035A>G	uc001mem.1	-	2	1220	c.810T>C	c.(808-810)CCT>CCC	p.P270P		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	270	Extracellular (Potential).|Cadherin 3.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CAGGACTGCCAGGGGCCAGGC	0.597													23	55					0	0	1	0	0		G	6662035	G	G	6662035	2	3	211	1	0	0	0	0	0	0	0	1	4290	175	7	3		3	DCHS1	11	6662035	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	10221	6662035	128344481	995	102874											
RBMXL2	27288	broad.mit.edu	37	chr11	7110404	7110404	+	Frame_Shift_Del	DEL	A	-	-																															cattgggggcctcaacctcgAaaccgacgagaaagccctcg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:7110404delA	uc001mfc.2	+	1	240	c.53delA	c.(52-54)GAAfs	p.E18fs		NM_014469	NP_055284	O75526	HNRGT_HUMAN	testes-specific heterogenous nuclear	18	RRM.					nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0				Epithelial(150;5.14e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CTCAACCTCGAAACCGACGAG	0.607													12	26	---	---	---	---						.	-	7110404	-	-	7110404	7	5	211	1	0	1	0	1	0	0	0	0	13179	246	9	0	55	0	RBMXL2	11	7110404	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	448369	7110404	127896112	996	102875											
PPFIBP2	8495	broad.mit.edu	37	chr11	7670467	7670467	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgctgcaatacctaactgtgGtgaggactttttctttaaat	10	16	8	7	0	1	1	0	1	1	0	1	2	1	2	1	2	4	2	1	2	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:7670467G>A	uc001mfj.3	+	20	2386	c.1998_splice	c.e20+1	p.V666_splice	PPFIBP2_uc010rbb.1_Splice_Site_p.V589_splice|PPFIBP2_uc001mfk.1_Intron|PPFIBP2_uc010rbc.1_Splice_Site_p.V600_splice|PPFIBP2_uc010rbe.1_Splice_Site_p.V554_splice|PPFIBP2_uc001mfl.3_Splice_Site_p.V523_splice|PPFIBP2_uc009yfj.1_Splice_Site_p.V310_splice	NM_003621	NP_003612	Q8ND30	LIPB2_HUMAN	PTPRF interacting protein, binding protein 2						cell communication|DNA integration	intracellular	DNA binding|integrase activity|protein binding			ovary(2)|breast(2)	4				Epithelial(150;2.01e-07)|BRCA - Breast invasive adenocarcinoma(625;0.236)		CCTAACTGTGGTGAGGACTTT	0.398													7	29					0	0	1	0	0		A	7670467	A	A	7670467	5	1	211	1	0	0	0	0	0	0	1	0	12333	1275	44	4	2073	4	PPFIBP2	11	7670467	Splice_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	560063	7670467	127336049	997	102876											
SBF2	81846	broad.mit.edu	37	chr11	9810688	9810688	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgagagcatcaggctgagTacagctgacatcatcatagc	12	8	12	9	0	3	3	3	3	0	1	3	4	3	3	0	2	4	4	0	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:9810688T>C	uc001mib.2	-	35	5038	c.4900A>G	c.(4900-4902)ACT>GCT	p.T1634A	uc001mhz.1_Intron|SBF2_uc001mid.2_Missense_Mutation_p.T278A|SBF2_uc001mic.2_5'Flank|uc001mie.3_Intron	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	1634	Interaction with MTMR2.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TCAGGCTGAGTACAGCTGACA	0.577													16	60					0	0	1	0	0		C	9810688	C	C	9810688	3	2	211	1	0	0	0	0	1	0	0	0	13884	1638	57	3	673	3	SBF2	11	9810688	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2140221	9810688	125195828	998	102877											
SOX6	55553	broad.mit.edu	37	chr11	16208344	16208344	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcacctgttcttgctgttgGcgagcaaggtccatttgctg	5	14	11	11	1	2	0	1	0	1	0	3	1	3	0	2	2	3	5	2	2	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:16208344G>A	uc001mme.2	-	5	765	c.732C>T	c.(730-732)CGC>CGT	p.R244R	SOX6_uc001mmd.2_Silent_p.R234R|SOX6_uc001mmf.2_Silent_p.R231R|SOX6_uc001mmg.2_Silent_p.R231R	NM_001145819	NP_001139291	P35712	SOX6_HUMAN	SRY (sex determining region Y)-box 6 isoform 4	231	Potential.|Gln-rich.				muscle organ development	nucleus	sequence-specific DNA binding transcription factor activity			ovary(3)	3						CTTGCTGTTGGCGAGCAAGGT	0.478													16	145					0	0	1	0	0		A	16208344	A	A	16208344	2	1	211	1	0	0	0	0	0	0	0	1	14980	1190	42	2		2	SOX6	11	16208344	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6397656	16208344	118798172	999	102878											
MRGPRX3	117195	broad.mit.edu	37	chr11	18159128	18159128	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcctgtccatcctgtggCccatctggtaccactgccgc	4	10	10	17	1	1	0	0	0	1	0	3	0	3	0	6	2	3	2	6	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:18159128C>T	uc001mnu.2	+	3	740	c.379C>T	c.(379-381)CCC>TCC	p.P127S		NM_054031	NP_473372	Q96LB0	MRGX3_HUMAN	MAS-related GPR, member X3	127	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						CATCCTGTGGCCCATCTGGTA	0.572													48	122					0	0	1	0	0		T	18159128	T	T	18159128	3	4	211	1	0	0	0	0	1	0	0	0	9786	739	26	2	381	2	MRGPRX3	11	18159128	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1950784	18159128	116847388	1000	102879											
ANO5	203859	broad.mit.edu	37	chr11	22296135	22296135	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctttattgttgcatttacGtcagacatcattccccgtct	7	16	6	12	2	3	1	2	0	1	1	4	1	4	1	3	0	2	2	3	0	2	7	rs144048656		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:22296135G>A	uc001mqi.2	+	20	2573	c.2256G>A	c.(2254-2256)ACG>ACA	p.T752T	ANO5_uc001mqj.2_Silent_p.T751T	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	752	Helical; (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						TTGCATTTACGTCAGACATCA	0.363													30	69					0	0	1	0	0		A	22296135	A	A	22296135	2	1	211	1	0	0	0	0	0	0	0	1	700	1132	40	1		1	ANO5	11	22296135	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4137007	22296135	112710381	1001	102880											
CSTF3	1479	broad.mit.edu	37	chr11	33106750	33106750	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttttgacggccttggtgagTactgcattactttccacggg	6	14	11	10	2	0	2	0	2	0	0	1	2	1	2	2	3	3	2	2	3	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:33106750T>C	uc001muh.2	-	21	2203	c.2037A>G	c.(2035-2037)GTA>GTG	p.V679V	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	679					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						CCTTGGTGAGTACTGCATTAC	0.512													21	41					0	0	1	0	0		C	33106750	C	C	33106750	2	2	211	1	0	0	0	0	0	0	0	1	3989	1625	57	3		3	CSTF3	11	33106750	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	10810615	33106750	101899766	1002	102881											
HIPK3	10114	broad.mit.edu	37	chr11	33369417	33369417	+	Missense_Mutation	SNP	A	G	G	1	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	ggaagatgatttcatgcagcAatcattataactcagtgatg	14	12	9	6	0	3	3	3	2	0	1	3	4	3	4	0	1	3	2	0	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:33369417A>G	uc001mul.1	+	11	2434	c.2164A>G	c.(2164-2166)AAT>GAT	p.N722D	HIPK3_uc001mum.1_Missense_Mutation_p.N722D|HIPK3_uc009yjv.1_Missense_Mutation_p.N722D	NM_005734	NP_005725	Q9H422	HIPK3_HUMAN	homeodomain interacting protein kinase 3 isoform	722					anti-apoptosis|apoptosis|negative regulation of JUN kinase activity|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)|skin(1)|stomach(1)|ovary(1)|pancreas(1)	5						TTCATGCAGCAATCATTATAA	0.408													23	61					0	0	1	0	0		G	33369417	G	G	33369417	3	3	211	1	0	0	0	0	1	0	0	0	7134	130	5	3	2202	3	HIPK3	11	33369417	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	262667	33369417	101637099	1003	102882											
PRDM11	56981	broad.mit.edu	37	chr11	45204517	45204517	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcatcccagaccgggcggCgctcaccatcccacagggca	8	3	13	17	3	1	1	1	0	0	1	3	1	3	1	4	4	0	3	4	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:45204517C>T	uc001myo.2	+	5	680	c.431C>T	c.(430-432)GCG>GTG	p.A144V		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	144										upper_aerodigestive_tract(1)	1						GACCGGGCGGCGCTCACCATC	0.612													21	48					0	0	1	0	0		T	45204517	T	T	45204517	3	4	211	1	0	0	0	0	1	0	0	0	12474	768	27	1	445	1	PRDM11	11	45204517	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	11835100	45204517	89801999	1004	102883											
CHST1	8534	broad.mit.edu	37	chr11	45671832	45671832	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccaccagggcgcgcaggtcGttcacctcgggcacgcgcac	6	5	13	17	6	1	0	1	0	0	0	4	0	2	0	3	3	0	4	3	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:45671832G>A	uc001mys.1	-	4	1313	c.642C>T	c.(640-642)AAC>AAT	p.N214N		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	214	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGCGCAGGTCGTTCACCTCGG	0.677													17	40					0	0	1	0	0		A	45671832	A	A	45671832	2	1	211	1	0	0	0	0	0	0	0	1	3400	1136	40	1		1	CHST1	11	45671832	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	467315	45671832	89334684	1005	102884											
GYLTL1B	120071	broad.mit.edu	37	chr11	45948971	45948971	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcctgcatttcgtcgaggcCtcaccagtgcttgctgcccg	4	12	10	15	3	1	0	1	0	0	0	4	1	2	0	4	1	4	3	4	1	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:45948971C>A	uc001nbv.1	+	11	1542	c.1431C>A	c.(1429-1431)GCC>GCA	p.A477A	GYLTL1B_uc001nbw.1_Silent_p.A446A|GYLTL1B_uc001nbx.1_Silent_p.A477A|GYLTL1B_uc001nby.1_Silent_p.A160A|GYLTL1B_uc001nbz.1_5'Flank	NM_152312	NP_689525	Q8N3Y3	LARG2_HUMAN	glycosyltransferase-like 1B	477	Lumenal (Potential).				muscle cell homeostasis	Golgi membrane|integral to membrane	transferase activity, transferring glycosyl groups			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(35;0.226)		TCGTCGAGGCCTCACCAGTGC	0.627													28	78					1.2476e-16	1.35603e-16	1	1	0		A	45948971	A	A	45948971	2	1	211	1	0	0	0	0	0	0	0	1	6923	668	24	5		5	GYLTL1B	11	45948971	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	277139	45948971	89057545	1006	102885											
PHF21A	51317	broad.mit.edu	37	chr11	45955742	45955742	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgtgcatctccttctgcCgggccaggatggtgttcttc	4	13	12	12	1	3	0	0	0	3	0	5	1	3	1	3	3	3	3	3	3	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:45955742C>T	uc001ncc.3	-	18	2444	c.1820G>A	c.(1819-1821)CGG>CAG	p.R607Q	PHF21A_uc001ncb.3_Missense_Mutation_p.R561Q|PHF21A_uc009ykx.2_Missense_Mutation_p.R561Q|PHF21A_uc001nca.1_3'UTR	NM_001101802	NP_001095272	Q96BD5	PF21A_HUMAN	BRAF35/HDAC2 complex isoform a	607	Required for transcriptional repression.				blood coagulation|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						CTCCTTCTGCCGGGCCAGGAT	0.552													18	72					0	0	1	0	0		T	45955742	T	T	45955742	3	4	211	1	0	0	0	0	1	0	0	0	11852	652	23	1	226	1	PHF21A	11	45955742	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6771	45955742	89050774	1007	102886											
DGKZ	8525	broad.mit.edu	37	chr11	46395999	46395999	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcggaataagatgttctacGccggggtgagtggggtctgc	7	11	16	7	3	2	2	0	1	2	1	3	3	2	3	1	5	2	1	1	5	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:46395999G>A	uc001ncn.1	+	17	2145	c.2020G>A	c.(2020-2022)GCC>ACC	p.A674T	DGKZ_uc001nch.1_Missense_Mutation_p.A502T|DGKZ_uc010rgq.1_Missense_Mutation_p.A429T|DGKZ_uc001ncj.1_Missense_Mutation_p.A452T|DGKZ_uc010rgr.1_Missense_Mutation_p.A451T|DGKZ_uc001nck.1_Missense_Mutation_p.A264T|DGKZ_uc001ncl.2_Missense_Mutation_p.A486T|DGKZ_uc001ncm.2_Missense_Mutation_p.A485T|DGKZ_uc009yky.1_Missense_Mutation_p.A486T|DGKZ_uc010rgs.1_Missense_Mutation_p.A463T	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	674					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		GATGTTCTACGCCGGGGTGAG	0.652													30	57					0	0	1	0	0		A	46395999	A	A	46395999	3	1	211	1	0	0	0	0	1	0	0	0	4480	1087	38	1	2529	1	DGKZ	11	46395999	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	440257	46395999	88610517	1008	102887											
MYBPC3	4607	broad.mit.edu	37	chr11	47357511	47357511	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccacttgagggagaccGtggtgtcagagacgtcctct	7	8	14	12	3	2	3	1	1	1	2	3	5	3	3	4	2	0	0	4	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:47357511G>A	uc001nfa.3	-	25	2709	c.2654C>T	c.(2653-2655)ACG>ATG	p.T885M	MYBPC3_uc010rhl.1_RNA	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	884	Fibronectin type-III 2.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		GAGGGAGACCGTGGTGTCAGA	0.672													3	17					0	0	1	0	0		A	47357511	A	A	47357511	3	1	211	1	0	0	0	0	1	0	0	0	10031	1145	40	1	1206	1	MYBPC3	11	47357511	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	961512	47357511	87649005	1009	102888											
MYBPC3	4607	broad.mit.edu	37	chr11	47364465	47364465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagctggtcctccaaggggCgcgtgatgagcacagggggc	7	5	17	12	2	0	2	0	2	0	0	2	2	2	2	3	5	2	2	3	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:47364465C>T	uc001nfa.3	-	15	1428	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H	MYBPC3_uc010rhl.1_RNA	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	457	Ig-like C2-type 3.		R -> H (in CMH4).		cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		CTCCAAGGGGCGCGTGATGAG	0.622													8	19					0	0	1	0	0		T	47364465	T	T	47364465	3	4	211	1	0	0	0	0	1	0	0	0	10031	768	27	1	2527	1	MYBPC3	11	47364465	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6954	47364465	87642051	1010	102889											
PTPRJ	5795	broad.mit.edu	37	chr11	48188871	48188871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacaatctatgaaaaccttgCgcccgtgaccacatttggaa	13	9	8	11	2	1	2	0	2	1	0	1	4	1	3	3	1	2	0	3	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:48188871C>T	uc001ngp.3	+	25	4326	c.3971C>T	c.(3970-3972)GCG>GTG	p.A1324V		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	1324	Cytoplasmic (Potential).				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GAAAACCTTGCGCCCGTGACC	0.443													25	72					0	0	1	0	0		T	48188871	T	T	48188871	3	4	211	1	0	0	0	0	1	0	0	0	12829	768	27	1	4078	1	PTPRJ	11	48188871	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	824406	48188871	86817645	1011	102890											
OR5M8	219484	broad.mit.edu	37	chr11	56258299	56258299	+	Missense_Mutation	SNP	A	G	G	1	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	cagaacaagccagcttaatcAgtggtgggtccgcacagtag	12	7	12	10	1	1	1	1	0	0	1	2	1	2	1	2	2	3	3	2	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:56258299A>G	uc001nix.1	-	1	548	c.548T>C	c.(547-549)CTG>CCG	p.L183P		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	183	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					CAGCTTAATCAGTGGTGGGTC	0.463													32	78					0	0	1	0	0		G	56258299	G	G	56258299	3	3	211	1	0	0	0	0	1	0	0	0	11195	188	7	3	391	3	OR5M8	11	56258299	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	8069428	56258299	78748217	1012	102891											
SMTNL1	219537	broad.mit.edu	37	chr11	57313372	57313372	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agtgagtcttcacccagcgaCgtgccccagagtccccctga	8	7	10	16	2	2	3	1	2	1	1	3	4	3	3	5	0	2	0	5	0	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:57313372C>T	uc009ymh.1	+	5	990	c.990C>T	c.(988-990)GAC>GAT	p.D330D		NM_001105565	NP_001099035	E9PPJ3	E9PPJ3_HUMAN	smoothelin-like 1	312										ovary(1)	1						CACCCAGCGACGTGCCCCAGA	0.657													8	16					0	0	1	0	0		T	57313372	T	T	57313372	2	4	211	1	0	0	0	0	0	0	0	1	14840	535	19	1		1	SMTNL1	11	57313372	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1055073	57313372	77693144	1013	102892											
ZDHHC5	25921	broad.mit.edu	37	chr11	57466520	57466520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccgttacgacaatctgtcgCgccacattgtggcctctctc	6	12	8	15	4	2	0	0	0	2	0	6	1	3	0	3	1	1	1	3	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:57466520C>T	uc001nkx.1	+	11	2868	c.1612C>T	c.(1612-1614)CGC>TGC	p.R538C	ZDHHC5_uc001nky.1_Missense_Mutation_p.R485C|ZDHHC5_uc001nkz.1_Missense_Mutation_p.R352C	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	538						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						CAATCTGTCGCGCCACATTGT	0.627													20	55					0	0	1	0	0		T	57466520	T	T	57466520	3	4	211	1	0	0	0	0	1	0	0	0	17643	768	27	1	1650	1	ZDHHC5	11	57466520	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	153148	57466520	77539996	1014	102893											
ZDHHC5	25921	broad.mit.edu	37	chr11	57466723	57466723	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccactgggacgcccagctgtCccccgttttggcaagccaga	7	7	11	16	2	0	1	0	0	0	1	1	2	1	2	5	2	2	3	5	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:57466723C>T	uc001nkx.1	+	11	3071	c.1815C>T	c.(1813-1815)GTC>GTT	p.V605V	ZDHHC5_uc001nky.1_Silent_p.V552V|ZDHHC5_uc001nkz.1_Silent_p.V419V	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	605						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						GCCCAGCTGTCCCCCGTTTTG	0.597													35	134					0	0	1	0	0		T	57466723	T	T	57466723	2	4	211	1	0	0	0	0	0	0	0	1	17643	842	30	4		4	ZDHHC5	11	57466723	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	203	57466723	77539793	1015	102894											
OR5B17	219965	broad.mit.edu	37	chr11	58125979	58125979	+	Silent	SNP	A	G	G	1	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	aactcactaatgtgtttctcAgagcaggtcagagtaatgac	13	11	9	8	0	3	3	3	1	1	2	4	3	3	3	0	1	2	3	0	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:58125979A>G	uc010rke.1	-	1	564	c.564T>C	c.(562-564)TCT>TCC	p.S188S		NM_001005489	NP_001005489	Q8NGF7	OR5BH_HUMAN	olfactory receptor, family 5, subfamily B,	188	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				TGTGTTTCTCAGAGCAGGTCA	0.358													18	45					0	0	1	0	0		G	58125979	G	G	58125979	2	3	211	1	0	0	0	0	0	0	0	1	11168	175	7	3		3	OR5B17	11	58125979	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	659256	58125979	76880537	1016	102895											
OR5B17	219965	broad.mit.edu	37	chr11	58126399	58126399	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtggagatgagagtccagCaggattaatatgatcatccc	12	10	12	7	0	1	3	1	2	0	2	3	6	3	4	2	2	1	1	2	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:58126399C>A	uc010rke.1	-	1	144	c.144G>T	c.(142-144)CTG>CTT	p.L48L		NM_001005489	NP_001005489	Q8NGF7	OR5BH_HUMAN	olfactory receptor, family 5, subfamily B,	48	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GAGAGTCCAGCAGGATTAATA	0.458													27	61					3.73148e-12	4.0112e-12	1	1	0		A	58126399	A	A	58126399	2	1	211	1	0	0	0	0	0	0	0	1	11168	697	25	5		5	OR5B17	11	58126399	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	420	58126399	76880117	1017	102896											
TMEM132A	54972	broad.mit.edu	37	chr11	60703568	60703568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgccgccggggccgccaccGtgtgcctctggcctctggca	2	7	14	18	4	2	0	0	0	2	0	2	0	2	0	7	4	2	1	7	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:60703568G>A	uc001nqj.2	+	11	2454	c.2261G>A	c.(2260-2262)CGT>CAT	p.R754H	TMEM132A_uc001nqi.2_Missense_Mutation_p.R755H|TMEM132A_uc001nqm.2_Translation_Start_Site	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	754	Binds to HSPA5/GRP78 (By similarity).|Confers cellular localization similar to full-length form (By similarity).|Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						GGCCGCCACCGTGTGCCTCTG	0.751													6	16					0	0	1	0	0		A	60703568	A	A	60703568	3	1	211	1	0	0	0	0	1	0	0	0	16070	1145	40	1	2306	1	TMEM132A	11	60703568	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2577169	60703568	74302948	1018	102897											
C11orf10	746	broad.mit.edu	37	chr11	61557966	61557966	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgctcagtgaaaggatacaCgaagaaccaggcggtgaaga	15	5	13	8	2	1	4	1	2	0	2	1	6	1	5	1	3	3	1	1	3	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:61557966C>T	uc001nsf.2	-	2	167	c.112G>A	c.(112-114)GTT>ATT	p.V38I	FEN1_uc001nsg.2_5'Flank	NM_014206	NP_055021	P61165	CK010_HUMAN	hypothetical protein LOC746	38						integral to membrane				breast(1)	1						AAAGGATACACGAAGAACCAG	0.542													4	27					0	0	1	0	0		T	61557966	T	T	61557966	3	4	211	1	0	0	0	0	1	0	0	0	1633	550	19	1	135	1	C11orf10	11	61557966	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	854398	61557966	73448550	1019	102898											
ASRGL1	80150	broad.mit.edu	37	chr11	62159723	62159723	+	Missense_Mutation	SNP	T	A	A	0	1	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	aagctgcacttcggaattgaTcctgacgatactactatcac	12	11	7	11	2	1	2	1	2	0	0	3	4	2	3	1	1	4	2	1	1	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:62159723T>A	uc001nte.3	+	7	1178	c.894T>A	c.(892-894)GAT>GAA	p.D298E	ASRGL1_uc001ntf.3_Missense_Mutation_p.D298E|ASRGL1_uc001ntg.3_Missense_Mutation_p.D170E	NM_025080	NP_079356	Q7L266	ASGL1_HUMAN	asparaginase-like 1	298					asparagine catabolic process via L-aspartate|protein maturation	cytoplasm|microtubule cytoskeleton|nucleus	N4-(beta-N-acetylglucosaminyl)-L-asparaginase activity				0					L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)	TCGGAATTGATCCTGACGATA	0.527											OREG0021023	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	58					0	0	1	0	0		A	62159723	A	A	62159723	3	1	211	1	0	0	0	0	1	0	0	0	1061	1432	50	5	916	5	ASRGL1	11	62159723	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	601757	62159723	72846793	1020	102899											
AHNAK	79026	broad.mit.edu	37	chr11	62298080	62298080	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcacatccacttctcggcccTctcctttgaagccaggcatg	7	11	7	16	1	3	1	1	1	2	0	6	1	4	1	4	2	1	1	4	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:62298080T>C	uc001ntl.2	-	5	4109	c.3809A>G	c.(3808-3810)GAG>GGG	p.E1270G	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	1270					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TTCTCGGCCCTCTCCTTTGAA	0.542													86	259					0	0	1	0	0		C	62298080	C	C	62298080	3	2	211	1	0	0	0	0	1	0	0	0	414	1551	54	3	13983	3	AHNAK	11	62298080	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	138357	62298080	72708436	1021	102900											
POLR2G	5436	broad.mit.edu	37	chr11	62533156	62533156	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagcaggacgatgagatccGcttaaagattgtggggaccc	11	8	13	9	2	1	2	1	1	0	2	2	6	2	4	2	3	1	2	2	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:62533156G>A	uc001nva.2	+	6	541	c.431G>A	c.(430-432)CGC>CAC	p.R144H	POLR2G_uc001nvb.2_RNA	NM_002696	NP_002687	P62487	RPB7_HUMAN	DNA directed RNA polymerase II polypeptide G	144					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA-directed RNA polymerase activity|protein binding|RNA binding				0						GATGAGATCCGCTTAAAGATT	0.453													17	52					0	0	1	0	0		A	62533156	A	A	62533156	3	1	211	1	0	0	0	0	1	0	0	0	12239	1087	38	1	453	1	POLR2G	11	62533156	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	235076	62533156	72473360	1022	102901											
OTUB1	55611	broad.mit.edu	37	chr11	63764564	63764564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggagaagcagacctctgtcGccgacctgctggcctccttc	6	9	11	15	2	1	2	0	0	1	2	4	4	2	2	5	2	2	2	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:63764564G>A	uc001nyf.1	+	6	1070	c.466G>A	c.(466-468)GCC>ACC	p.A156T	OTUB1_uc001nyg.1_Missense_Mutation_p.A199T|OTUB1_uc010rmz.1_Missense_Mutation_p.A193T|OTUB1_uc010rna.1_Missense_Mutation_p.A165T|OTUB1_uc009ypa.2_Missense_Mutation_p.A55T|OTUB1_uc009ypb.1_Missense_Mutation_p.A126T	NM_017670	NP_060140	Q96FW1	OTUB1_HUMAN	otubain 1	156	OTU.				protein K48-linked deubiquitination	cytoplasm	NEDD8-specific protease activity|omega peptidase activity|ubiquitin binding|ubiquitin-specific protease activity			breast(1)	1						GACCTCTGTCGCCGACCTGCT	0.607													25	128					0	0	1	0	0		A	63764564	A	A	63764564	3	1	211	1	0	0	0	0	1	0	0	0	11330	1087	38	1	488	1	OTUB1	11	63764564	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1231408	63764564	71241952	1023	102902											
PPP1R14B	26472	broad.mit.edu	37	chr11	64012400	64012400	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccccccaggaaatctcttAcctctgtgggtttgtaacag	9	11	9	12	0	2	0	0	0	2	0	3	1	2	1	4	2	3	2	4	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64012400A>G	uc001nza.2	-	3	643	c.375_splice	c.e3+1	p.E125_splice		NM_138689	NP_619634	Q96C90	PP14B_HUMAN	protein phosphatase 1 regulatory subunit 14B						regulation of phosphorylation	cytoplasm	protein phosphatase inhibitor activity				0						GAAATCTCTTACCTCTGTGGG	0.597													6	19					0	0	1	0	0		G	64012400	G	G	64012400	5	3	211	1	0	0	0	0	0	0	1	0	12382	405	14	3	74	3	PPP1R14B	11	64012400	Splice_Site	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	247836	64012400	70994116	1024	102903											
NRXN2	9379	broad.mit.edu	37	chr11	64436033	64436033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatggtgtaatcctcctgcGtgtagcctgtggtggtcagg	5	12	15	9	1	1	0	1	0	0	0	3	0	3	0	3	4	2	3	3	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64436033G>A	uc001oar.2	-	9	1680	c.1241C>T	c.(1240-1242)ACG>ATG	p.T414M	NRXN2_uc001oas.2_Missense_Mutation_p.T383M|NRXN2_uc001oaq.2_Missense_Mutation_p.T81M	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						ATCCTCCTGCGTGTAGCCTGT	0.582													33	95					0	0	1	0	0		A	64436033	A	A	64436033	3	1	211	1	0	0	0	0	1	0	0	0	10685	1145	40	1	4230	1	NRXN2	11	64436033	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	423633	64436033	70570483	1025	102904											
RASGRP2	10235	broad.mit.edu	37	chr11	64502632	64502632	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgaggtaagggaagttcccaCggatgatctggaattcttcc	10	11	12	8	1	2	2	0	2	2	0	4	5	4	5	2	4	0	2	2	4	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64502632C>T	uc009ypu.2	-	12	1591	c.1364G>A	c.(1363-1365)CGT>CAT	p.R455H	RASGRP2_uc001oat.2_Missense_Mutation_p.R357H|RASGRP2_uc001oau.2_Missense_Mutation_p.R310H|RASGRP2_uc009ypv.2_Missense_Mutation_p.R455H|RASGRP2_uc009ypw.2_Missense_Mutation_p.R455H	NM_001098671	NP_001092141	Q7LDG7	GRP2_HUMAN	RAS guanyl releasing protein 2	455	EF-hand 2.|EF-hand 1.				platelet activation|Ras protein signal transduction|regulation of cell growth|regulation of small GTPase mediated signal transduction	cell junction|cytosol|ruffle membrane|synapse|synaptosome	calcium ion binding|diacylglycerol binding|guanyl-nucleotide exchange factor activity				0						GAAGTTCCCACGGATGATCTG	0.537													18	55					0	0	1	0	0		T	64502632	T	T	64502632	3	4	211	1	0	0	0	0	1	0	0	0	13100	536	19	1	485	1	RASGRP2	11	64502632	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	66599	64502632	70503884	1026	102905											
CDC42BPG	55561	broad.mit.edu	37	chr11	64602606	64602606	+	Missense_Mutation	SNP	T	G	G	0	1	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	gctgcttgctctcctgctccTgggccagctctgcttctagc	2	13	10	16	0	3	0	0	0	3	0	5	0	4	0	3	1	6	6	3	1	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64602606T>G	uc001obs.3	-	17	1973	c.1973A>C	c.(1972-1974)CAG>CCG	p.Q658P		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	658	Potential.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						CTCCTGCTCCTGGGCCAGCTC	0.692													11	31					0	0	1	0	0		G	64602606	G	G	64602606	3	3	211	1	0	0	0	0	1	0	0	0	3077	1580	55	5	2766	5	CDC42BPG	11	64602606	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	99974	64602606	70403910	1027	102906											
EHD1	10938	broad.mit.edu	37	chr11	64627709	64627709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcagagccttgatcacttccGagaactcatcggagatgtcc	10	10	9	12	2	3	4	3	1	0	3	6	6	5	4	3	1	2	0	3	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64627709G>A	uc001obu.1	-	3	857	c.602C>T	c.(601-603)TCG>TTG	p.S201L	EHD1_uc001obv.1_Missense_Mutation_p.S201L|EHD1_uc010rnq.1_Missense_Mutation_p.S215L	NM_006795	NP_006786	Q9H4M9	EHD1_HUMAN	EH-domain containing 1	201	Potential.				blood coagulation|cholesterol homeostasis|endocytic recycling|intracellular protein transport|low-density lipoprotein particle clearance|positive regulation of cholesterol storage|protein homooligomerization	early endosome membrane|lipid particle|plasma membrane|platelet dense tubular network membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|protein binding				0						GATCACTTCCGAGAACTCATC	0.582													19	38					0	0	1	0	0		A	64627709	A	A	64627709	3	1	211	1	0	0	0	0	1	0	0	0	4983	1059	37	1	1014	1	EHD1	11	64627709	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	25103	64627709	70378807	1028	102907											
ATG2A	23130	broad.mit.edu	37	chr11	64675237	64675237	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctgttgtagatgctctcGtagacctccttgctgggcag	6	12	11	12	1	1	2	0	0	1	2	3	2	2	2	3	1	2	6	3	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64675237G>A	uc001obx.2	-	17	2605	c.2490C>T	c.(2488-2490)TAC>TAT	p.Y830Y		NM_015104	NP_055919	Q2TAZ0	ATG2A_HUMAN	autophagy related 2A	830							protein binding			ovary(1)|central_nervous_system(1)	2						AGATGCTCTCGTAGACCTCCT	0.632													9	20					0	0	1	0	0		A	64675237	A	A	64675237	2	1	211	1	0	0	0	0	0	0	0	1	1094	1140	40	1		1	ATG2A	11	64675237	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	47528	64675237	70331279	1029	102908											
C11orf2	738	broad.mit.edu	37	chr11	64875963	64875963	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgagaagctggcggccttCgcccggcagctgggcagccg	5	4	17	15	5	0	1	0	0	0	1	1	2	0	1	4	4	3	4	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64875963C>T	uc001ocr.1	+	5	1060	c.1020C>T	c.(1018-1020)TTC>TTT	p.F340F	C11orf2_uc001ocs.1_Silent_p.F216F	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	340					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						TGGCGGCCTTCGCCCGGCAGC	0.716													7	13					0	0	1	0	0		T	64875963	T	T	64875963	2	4	211	1	0	0	0	0	0	0	0	1	1636	883	31	1		1	C11orf2	11	64875963	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	200726	64875963	70130553	1030	102909											
CAPN1	823	broad.mit.edu	37	chr11	64953462	64953462	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaggacgggaagctagtgttCgtgcactctgccgaaggcaa	11	7	14	9	3	1	0	0	0	1	0	2	3	1	2	1	3	3	4	1	3	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:64953462C>T	uc009yqd.1	+	5	642	c.531C>T	c.(529-531)TTC>TTT	p.F177F	CAPN1_uc001odf.1_Silent_p.F177F|CAPN1_uc001odg.1_Silent_p.F177F|CAPN1_uc010roa.1_5'UTR	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit	177	Calpain catalytic.				positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		AGCTAGTGTTCGTGCACTCTG	0.617													3	15					0	0	1	0	0		T	64953462	T	T	64953462	2	4	211	1	0	0	0	0	0	0	0	1	2625	883	31	1		1	CAPN1	11	64953462	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	77499	64953462	70053054	1031	102910											
PCNXL3	399909	broad.mit.edu	37	chr11	65386029	65386029	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaacggcagccacccctgcGaagacactctccacctggcc	10	4	8	19	2	1	1	0	0	1	1	2	2	1	1	6	2	3	1	6	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:65386029G>A	uc001oey.2	+	6	1196	c.1196G>A	c.(1195-1197)CGA>CAA	p.R399Q		NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	399						integral to membrane					0						CCACCCCTGCGAAGACACTCT	0.657													9	21					0	0	1	0	0		A	65386029	A	A	65386029	3	1	211	1	0	0	0	0	1	0	0	0	11612	1058	37	1	1218	1	PCNXL3	11	65386029	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	432567	65386029	69620487	1032	102911											
PCNXL3	399909	broad.mit.edu	37	chr11	65403107	65403107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccagaacgccaagcaggcGcttcgcaacatgatcaactc	13	6	8	14	3	1	2	1	1	0	1	4	2	2	2	2	1	4	3	2	1	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:65403107G>A	uc001oey.2	+	32	5292	c.5292G>A	c.(5290-5292)GCG>GCA	p.A1764A	PCNXL3_uc001oez.2_Silent_p.A651A	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	1764						integral to membrane					0						CCAAGCAGGCGCTTCGCAACA	0.672													17	15					0	0	1	0	0		A	65403107	A	A	65403107	2	1	211	1	0	0	0	0	0	0	0	1	11612	1074	38	1		1	PCNXL3	11	65403107	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	17078	65403107	69603409	1033	102912											
SNX32	254122	broad.mit.edu	37	chr11	65620191	65620191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaccaggaaccgggaggtgCggcccgccgagagccaccag	9	1	16	15	4	0	1	0	0	0	1	0	4	0	3	6	4	3	1	6	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:65620191C>T	uc001ofr.2	+	11	1130	c.1003C>T	c.(1003-1005)CGG>TGG	p.R335W		NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B	335	Potential.				cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		CCGGGAGGTGCGGCCCGCCGA	0.697													4	12					0	0	1	0	0		T	65620191	T	T	65620191	3	4	211	1	0	0	0	0	1	0	0	0	14927	759	27	1	1045	1	SNX32	11	65620191	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	217084	65620191	69386325	1034	102913											
CTSW	1521	broad.mit.edu	37	chr11	65648955	65648955	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaggaggacttgggcacaGctgagtttggggtgactcca	9	8	17	7	0	0	2	0	2	0	0	1	5	1	5	1	6	1	3	1	6	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:65648955G>A	uc001ogc.1	+	3	292	c.250G>A	c.(250-252)GCT>ACT	p.A84T	CTSW_uc001ogb.1_Missense_Mutation_p.A84T	NM_001335	NP_001326	P56202	CATW_HUMAN	cathepsin W preproprotein	84					immune response|proteolysis		cysteine-type endopeptidase activity			central_nervous_system(1)	1				READ - Rectum adenocarcinoma(159;0.168)		CTTGGGCACAGCTGAGTTTGG	0.582													5	12					0	0	1	0	0		A	65648955	A	A	65648955	3	1	211	1	0	0	0	0	1	0	0	0	4045	971	34	2	260	2	CTSW	11	65648955	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	28764	65648955	69357561	1035	102914											
RIN1	9610	broad.mit.edu	37	chr11	66100001	66100001	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccactccgcccggcggtagaCgaggtagccagtggtgggca	7	5	16	13	4	0	1	0	0	0	1	1	2	1	1	4	5	1	3	4	5	2	2	rs11227461	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66100001C>T	uc001ohn.1	-	10	2225	c.2098G>A	c.(2098-2100)GTC>ATC	p.V700I	RIN1_uc010roy.1_Missense_Mutation_p.V331I|RIN1_uc009yrd.1_Missense_Mutation_p.V393I|RIN1_uc010roz.1_Missense_Mutation_p.V595I|RIN1_uc010rpa.1_Missense_Mutation_p.V534I	NM_004292	NP_004283	Q13671	RIN1_HUMAN	ras inhibitor RIN1	700	Ras and 14-3-3 protein binding region.|Ras-associating.				endocytosis|signal transduction	cytoplasm|cytoskeleton|plasma membrane	GTPase activator activity|protein binding			lung(2)|breast(1)	3						CGGCGGTAGACGAGGTAGCCA	0.672													48	168					0	0	1	0	0		T	66100001	T	T	66100001	3	4	211	1	0	0	0	0	1	0	0	0	13396	536	19	1	257	1	RIN1	11	66100001	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	451046	66100001	68906515	1036	102915											
PELI3	246330	broad.mit.edu	37	chr11	66243212	66243212	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaggaggcaaatgcagcGcggccccagtgccccgtggg	7	3	17	14	4	0	0	0	0	0	0	0	1	0	1	4	5	3	3	4	5	1	0	rs141532058	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66243212G>A	uc001oic.3	+	8	1148	c.984G>A	c.(982-984)GCG>GCA	p.A328A	PELI3_uc001oid.3_Silent_p.A304A|PELI3_uc001oie.3_Silent_p.A179A	NM_145065	NP_659502	Q8N2H9	PELI3_HUMAN	pellino 3 alpha isoform 1	328						cytosol	protein binding			ovary(1)	1						CAAATGCAGCGCGGCCCCAGT	0.711													12	20					0	0	1	0	0		A	66243212	A	A	66243212	2	1	211	1	0	0	0	0	0	0	0	1	11742	1074	38	1		1	PELI3	11	66243212	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	143211	66243212	68763304	1037	102916											
DPP3	10072	broad.mit.edu	37	chr11	66260192	66260192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccctcctctgcaggtttcGtagctgtggtgaacaaggcc	6	11	11	13	1	1	1	0	1	1	0	4	1	3	1	3	3	3	4	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66260192G>A	uc001oig.1	+	10	1056	c.994G>A	c.(994-996)GTA>ATA	p.V332I	DPP3_uc001oif.1_Missense_Mutation_p.V332I|DPP3_uc010rpe.1_Missense_Mutation_p.V321I	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	332					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						TGCAGGTTTCGTAGCTGTGGT	0.517													38	103					0	0	1	0	0		A	66260192	A	A	66260192	3	1	211	1	0	0	0	0	1	0	0	0	4734	1145	40	1	1028	1	DPP3	11	66260192	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	16980	66260192	68746324	1038	102917											
CCS	9973	broad.mit.edu	37	chr11	66372815	66372815	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tggatctcattccagcaccgCggagacctgggcaatgtccg	8	8	12	13	3	1	1	1	0	1	1	4	3	3	2	4	3	1	2	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66372815C>T	uc001oir.2	+	6	538	c.495C>T	c.(493-495)CGC>CGT	p.R165R	CCS_uc001ois.2_RNA	NM_005125	NP_005116	O14618	CCS_HUMAN	copper chaperone for superoxide dismutase	165	Superoxide dismutase-like.				intracellular copper ion transport|oxidation-reduction process|removal of superoxide radicals	cytosol|mitochondrial inner membrane|nucleus|soluble fraction	copper ion transmembrane transporter activity|protein binding|superoxide dismutase copper chaperone activity|zinc ion binding				0						TCCAGCACCGCGGAGACCTGG	0.557													9	36					0	0	1	0	0		T	66372815	T	T	66372815	2	4	211	1	0	0	0	0	0	0	0	1	2955	755	27	1		1	CCS	11	66372815	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	112623	66372815	68633701	1039	102918											
SPTBN2	6712	broad.mit.edu	37	chr11	66460165	66460165	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagccagctccttcaggcCggcatacagcttgtccacct	7	9	8	17	1	1	0	1	0	0	0	4	0	4	0	6	2	4	3	6	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66460165C>T	uc001ojd.2	-	25	5104	c.5032G>A	c.(5032-5034)GGC>AGC	p.G1678S		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	1678	Spectrin 13.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						TCCTTCAGGCCGGCATACAGC	0.637													10	34					0	0	1	0	0		T	66460165	T	T	66460165	3	4	211	1	0	0	0	0	1	0	0	0	15145	652	23	1	2192	1	SPTBN2	11	66460165	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	87350	66460165	68546351	1040	102919											
SPTBN2	6712	broad.mit.edu	37	chr11	66473194	66473194	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcgcagggcagaggcgctgaCggcccgcaccctctcggcct	5	4	15	17	5	1	2	0	1	1	1	2	2	1	2	3	4	0	4	3	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66473194C>T	uc001ojd.2	-	13	1840	c.1768G>A	c.(1768-1770)GTC>ATC	p.V590I		NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	590	Spectrin 3.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GAGGCGCTGACGGCCCGCACC	0.657													6	30					0	0	1	0	0		T	66473194	T	T	66473194	3	4	211	1	0	0	0	0	1	0	0	0	15145	536	19	1	5504	1	SPTBN2	11	66473194	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	13029	66473194	68533322	1041	102920											
PC	5091	broad.mit.edu	37	chr11	66619987	66619987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttttgagatcgtgggtgCgcacacgagtggccagcagt	7	11	14	9	3	1	1	0	1	1	1	2	3	1	1	1	2	2	2	1	2	0	2	rs119103242		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66619987C>T	uc001ojn.1	-	13	1797	c.1748G>A	c.(1747-1749)CGC>CAC	p.R583H	PC_uc001ojo.1_Missense_Mutation_p.R583H|PC_uc001ojp.1_Missense_Mutation_p.R583H|PC_uc001ojm.1_5'Flank	NM_022172	NP_071504	P11498	PYC_HUMAN	pyruvate carboxylase precursor	583	Carboxyltransferase.		R -> L (in PC deficiency).		gluconeogenesis|lipid biosynthetic process	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|metal ion binding|pyruvate carboxylase activity			ovary(2)|lung(1)|kidney(1)	4		Melanoma(852;0.0525)		Lung(977;0.153)|LUSC - Lung squamous cell carcinoma(976;0.227)	Biotin(DB00121)|Pyruvic acid(DB00119)	ATCGTGGGTGCGCACACGAGT	0.617													32	66					0	0	1	0	0		T	66619987	T	T	66619987	3	4	211	1	0	0	0	0	1	0	0	0	11516	768	27	1	1824	1	PC	11	66619987	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	146793	66619987	68386529	1042	102921											
SYT12	91683	broad.mit.edu	37	chr11	66816221	66816221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgtggcacgctgtccggcGaaactagcaaccagggcggg	9	5	15	12	4	0	0	0	0	0	0	1	1	1	0	2	4	3	3	2	4	3	1	rs78683901	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:66816221G>A	uc009yrl.2	+	8	1489	c.1259G>A	c.(1258-1260)CGA>CAA	p.R420Q	SYT12_uc001oju.2_Missense_Mutation_p.R420Q	NM_177963	NP_808878	Q8IV01	SYT12_HUMAN	synaptotagmin XII	420	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane				ovary(1)	1						GCTGTCCGGCGAAACTAGCAA	0.632													6	36					0	0	1	0	0		A	66816221	A	A	66816221	3	1	211	1	0	0	0	0	1	0	0	0	15493	1058	37	1	1285	1	SYT12	11	66816221	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	196234	66816221	68190295	1043	102922											
RAD9A	5883	broad.mit.edu	37	chr11	67164978	67164978	+	Frame_Shift_Del	DEL	C	-	-																															catcctggcccctgtacgctCcccccagggccccagccctg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:67164978delC	uc001okr.2	+	11	1217	c.1124delC	c.(1123-1125)TCCfs	p.S375fs	RAD9A_uc001oks.2_Frame_Shift_Del_p.S232fs	NM_004584	NP_004575	Q99638	RAD9A_HUMAN	RAD9 homolog	375	Sufficient for interaction with ABL1.			S->A: Complete loss of phosphorylation and no loss of interaction with the 9-1-1 complex; when associated with A-272; A- 277; A-328; A-341; A-380 and A-387.	DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint	nucleoplasm	3'-5' exonuclease activity|exodeoxyribonuclease III activity|histone deacetylase binding|protein kinase binding|SH3 domain binding				0			BRCA - Breast invasive adenocarcinoma(15;8.53e-07)			CCTGTACGCTCCCCCCAGGGC	0.612								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					20	43	---	---	---	---						.	-	67164978	-	-	67164978	7	5	211	1	0	1	0	1	0	0	0	0	13020	855	30	0	1166	0	RAD9A	11	67164978	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	348757	67164978	67841538	1044	102923											
PTPRCAP	5790	broad.mit.edu	37	chr11	67203412	67203412	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggggacctgctctgggctgGacgcctctccacattgctgc	4	9	13	15	2	2	0	0	0	2	0	3	2	2	2	3	4	3	3	3	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:67203412G>A	uc001oli.1	-	2	476	c.413C>T	c.(412-414)TCC>TTC	p.S138F		NM_005608	NP_005599	Q14761	PTCA_HUMAN	protein tyrosine phosphatase, receptor type,	138					defense response	integral to membrane|plasma membrane					0			BRCA - Breast invasive adenocarcinoma(15;3.26e-06)			CTCTGGGCTGGACGCCTCTCC	0.677													15	57					0	0	1	0	0		A	67203412	A	A	67203412	3	1	211	1	0	0	0	0	1	0	0	0	12823	1174	41	4	211	4	PTPRCAP	11	67203412	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	38434	67203412	67803104	1045	102924											
CABP4	57010	broad.mit.edu	37	chr11	67223140	67223140	+	Silent	SNP	C	T	T	0	0	0	1	1	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	actggagaggggccggcgggCgcaccccctgcatcccctgg	5	4	16	16	3	0	1	0	0	0	1	1	2	1	1	5	6	1	2	5	6	0	0	rs147329388		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:67223140C>T	uc001olo.2	+	1	323	c.246C>T	c.(244-246)GGC>GGT	p.G82G	GPR152_uc001olm.2_5'Flank|CABP4_uc001oln.2_Intron	NM_145200	NP_660201	P57796	CABP4_HUMAN	calcium binding protein 4	82					visual perception	cytoplasm|extracellular region|terminal button	calcium ion binding				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			GGCCGGCGGGCGCACCCCCTG	0.701													7	20					0	0	1	0	0		T	67223140	T	T	67223140	2	4	211	1	0	0	0	0	0	0	0	1	2536	755	27	1		1	CABP4	11	67223140	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	19728	67223140	67783376	1046	102925											
SUV420H1	51111	broad.mit.edu	37	chr11	67926241	67926241	+	Silent	SNP	A	G	G	1	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	ctctccccctgcgaatgagcAcctctcacaggattctgtct	7	11	7	16	1	4	1	1	1	4	0	6	3	4	2	3	1	2	1	3	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:67926241A>G	uc001onm.1	-	11	1828	c.1572T>C	c.(1570-1572)GGT>GGC	p.G524G	SUV420H1_uc009yse.1_Silent_p.G110G|SUV420H1_uc001onn.1_Silent_p.G352G|SUV420H1_uc009ysf.2_Silent_p.G284G	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	524					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GCGAATGAGCACCTCTCACAG	0.557													17	75					0	0	1	0	0		G	67926241	G	G	67926241	2	3	211	1	0	0	0	0	0	0	0	1	15439	146	6	3		3	SUV420H1	11	67926241	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	703101	67926241	67080275	1047	102926											
LRP5	4041	broad.mit.edu	37	chr11	68125314	68125314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacctggacggctcgttcCggtaggtacccacgcagtcc	7	7	11	16	4	0	0	0	0	0	0	3	1	2	1	5	4	2	5	5	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:68125314C>T	uc001ont.2	+	3	760	c.685C>T	c.(685-687)CGG>TGG	p.R229W	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	229	Beta-propeller 1.|LDL-receptor class B 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CGGCTCGTTCCGGTAGGTACC	0.587													4	16					0	0	1	0	0		T	68125314	T	T	68125314	3	4	211	1	0	0	0	0	1	0	0	0	8978	666	23	1	695	1	LRP5	11	68125314	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	199073	68125314	66881202	1048	102927											
IGHMBP2	3508	broad.mit.edu	37	chr11	68701933	68701933	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gttctttctttccctccaggCgaagtccgcctcgtcagttt	4	15	8	14	3	3	0	1	0	2	0	7	1	6	0	4	1	0	2	4	1	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:68701933C>T	uc001ook.1	+	11	1641	c.1539C>T	c.(1537-1539)GGC>GGT	p.G513G	IGHMBP2_uc001ool.1_Silent_p.G137G|IGHMBP2_uc001oom.1_Silent_p.G91G	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	513					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TCCCTCCAGGCGAAGTCCGCC	0.582													6	10					0	0	1	0	0		T	68701933	T	T	68701933	2	4	211	1	0	0	0	0	0	0	0	1	7607	782	27	1		1	IGHMBP2	11	68701933	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	576619	68701933	66304583	1049	102928											
SHANK2	22941	broad.mit.edu	37	chr11	70338532	70338532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccatgttctcagcagcgcGggagggcttggaggccggga	7	6	18	10	3	1	0	1	0	1	0	2	3	1	3	2	5	3	3	2	5	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:70338532G>A	uc001oqc.2	-	18	2425	c.2347C>T	c.(2347-2349)CGC>TGC	p.R783C	SHANK2_uc010rqn.1_Missense_Mutation_p.R195C|SHANK2_uc001opz.2_Missense_Mutation_p.R188C|uc009ysn.1_Intron|SHANK2_uc010rqp.1_Missense_Mutation_p.R185C|SHANK2_uc001opy.2_5'UTR|SHANK2_uc010rqo.1_5'UTR	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	404					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			TCAGCAGCGCGGGAGGGCTTG	0.617													16	57					0	0	1	0	0		A	70338532	A	A	70338532	3	1	211	1	0	0	0	0	1	0	0	0	14290	1116	39	1	3222	1	SHANK2	11	70338532	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1636599	70338532	64667984	1050	102929											
C11orf51	25906	broad.mit.edu	37	chr11	71822259	71822259	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctcttccacacagggtcGatccagattaaaccacagag	12	9	8	12	1	1	2	0	0	1	2	5	3	3	2	3	1	1	0	3	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:71822259G>A	uc001orw.2	-	3	286	c.64C>T	c.(64-66)CGA>TGA	p.R22*	C11orf51_uc009ytc.1_Intron|C11orf51_uc001orv.2_Nonsense_Mutation_p.R22*	NM_014042	NP_054761	P60006	CK051_HUMAN	hypothetical protein LOC25906	22						intracellular					0						ACACAGGGTCGATCCAGATTA	0.542													47	88					0	0	1	0	0		A	71822259	A	A	71822259	4	1	211	1	0	0	0	0	0	1	0	0	1649	1066	37	1	317	1	C11orf51	11	71822259	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1483727	71822259	63184257	1051	102930											
ATG16L2	89849	broad.mit.edu	37	chr11	72540364	72540364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcgctgccgtcaacgccGtggcctggtgctactccggg	4	7	14	16	5	1	0	1	0	0	0	2	0	2	0	5	3	5	2	5	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:72540364G>A	uc001otd.2	+	18	1829	c.1789G>A	c.(1789-1791)GTG>ATG	p.V597M	ATG16L2_uc001ote.2_Missense_Mutation_p.V491M|ATG16L2_uc009ytj.1_Intron|ATG16L2_uc001otf.2_Missense_Mutation_p.V352M|ATG16L2_uc001otg.2_Missense_Mutation_p.V331M|ATG16L2_uc009ytk.2_Missense_Mutation_p.V318M	NM_033388	NP_203746	Q8NAA4	A16L2_HUMAN	ATG16 autophagy related 16-like 2	597	WD 7.				autophagy|protein transport	cytoplasm	protein binding				0			BRCA - Breast invasive adenocarcinoma(5;2.73e-06)			cGTCAACGCCGTGGCCTGGTG	0.368													12	32					0	0	1	0	0		A	72540364	A	A	72540364	3	1	211	1	0	0	0	0	1	0	0	0	1093	1145	40	1	1859	1	ATG16L2	11	72540364	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	718105	72540364	62466152	1052	102931											
SLCO2B1	11309	broad.mit.edu	37	chr11	74914466	74914466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctacaataatgacctgctccGaaaccggtgagacctggttt	11	10	9	11	2	0	2	0	2	0	1	1	4	1	2	4	2	3	2	4	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:74914466G>A	uc001owb.2	+	13	2330	c.1943G>A	c.(1942-1944)CGA>CAA	p.R648Q	SLCO2B1_uc010rrr.1_Missense_Mutation_p.R504Q|SLCO2B1_uc010rrs.1_Missense_Mutation_p.R532Q|SLCO2B1_uc001owc.2_Missense_Mutation_p.R421Q|SLCO2B1_uc001owd.2_Missense_Mutation_p.R626Q	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	648	Extracellular (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	GACCTGCTCCGAAACCGGTGA	0.577													42	112					0	0	1	0	0		A	74914466	A	A	74914466	3	1	211	1	0	0	0	0	1	0	0	0	14752	1058	37	1	1993	1	SLCO2B1	11	74914466	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2374102	74914466	60092050	1053	102932											
DGAT2	84649	broad.mit.edu	37	chr11	75501723	75501723	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaggtggcaggaggtcacagTgggtccgaaactgggctgtg	9	7	18	7	1	1	0	1	0	0	0	2	2	2	1	1	6	1	2	1	6	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:75501723T>C	uc001oxa.2	+	4	635	c.376T>C	c.(376-378)TGG>CGG	p.W126R	DGAT2_uc001oxb.2_Missense_Mutation_p.W83R	NM_032564	NP_115953	Q96PD7	DGAT2_HUMAN	diacylglycerol O-acyltransferase 2	126	Cytoplasmic (Potential).				glycerol metabolic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	Ovarian(111;0.103)					GAGGTCACAGTGGGTCCGAAA	0.537													44	102					0	0	1	0	0		C	75501723	C	C	75501723	3	2	211	1	0	0	0	0	1	0	0	0	4464	1696	59	3	390	3	DGAT2	11	75501723	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	587257	75501723	59504793	1054	102933											
B3GNT6	192134	broad.mit.edu	37	chr11	76751075	76751075	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctctttctattgggcaccccGggccccgaggacgaggcgcg	5	7	14	15	5	2	0	0	0	2	0	2	3	2	1	4	4	0	1	4	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:76751075G>A	uc001oxw.2	+	2	568	c.480G>A	c.(478-480)CCG>CCA	p.P160P		NM_138706	NP_619651	Q6ZMB0	B3GN6_HUMAN	UDP-GlcNAc:betaGal	160	Lumenal (Potential).				O-glycan processing, core 3	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity|galactosyltransferase activity				0						TGGGCACCCCGGGCCCCGAGG	0.741													8	8					0	0	1	0	0		A	76751075	A	A	76751075	2	1	211	1	0	0	0	0	0	0	0	1	1262	1103	39	1		1	B3GNT6	11	76751075	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1249352	76751075	58255441	1055	102934											
INTS4	92105	broad.mit.edu	37	chr11	77667073	77667073	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caaacgcatcatcaactaagCgtatttcttcattagaagaa	16	11	5	9	2	4	2	3	0	1	2	4	2	4	2	0	0	3	2	0	0	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:77667073C>T	uc001oys.2	-	8	861	c.833G>A	c.(832-834)CGC>CAC	p.R278H	INTS4_uc001oyt.2_RNA|INTS4_uc001oyu.1_Missense_Mutation_p.R278H	NM_033547	NP_291025	Q96HW7	INT4_HUMAN	integrator complex subunit 4	278	HEAT 5.				snRNA processing	integrator complex	protein binding			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		Epithelial(5;1.13e-46)|all cancers(3;8.92e-44)|BRCA - Breast invasive adenocarcinoma(5;8.4e-26)|OV - Ovarian serous cystadenocarcinoma(8;1.05e-23)			ATCAACTAAGCGTATTTCTTC	0.373													9	31					0	0	1	0	0		T	77667073	T	T	77667073	3	4	211	1	0	0	0	0	1	0	0	0	7796	768	27	1	2122	1	INTS4	11	77667073	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	915998	77667073	57339443	1056	102935											
USP35	57558	broad.mit.edu	37	chr11	77920763	77920763	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatgcgccccacagaagacaTcacagcccgggagttgcccc	10	4	11	16	2	1	2	1	0	0	2	1	4	1	3	5	1	3	1	5	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:77920763T>C	uc009yva.1	+	10	2108	c.1862T>C	c.(1861-1863)ATC>ACC	p.I621T	USP35_uc001oze.2_Missense_Mutation_p.I377T|USP35_uc001ozc.2_Missense_Mutation_p.I189T|USP35_uc010rsp.1_Missense_Mutation_p.I53T|USP35_uc001ozd.2_Missense_Mutation_p.I232T|USP35_uc001ozf.2_Missense_Mutation_p.I352T	NM_020798	NP_065849	Q9P2H5	UBP35_HUMAN	ubiquitin specific protease 35	621					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)	3	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)			ACAGAAGACATCACAGCCCGG	0.677													28	59					0	0	1	0	0		C	77920763	C	C	77920763	3	2	211	1	0	0	0	0	1	0	0	0	17092	1435	50	3	1896	3	USP35	11	77920763	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	253690	77920763	57085753	1057	102936											
ODZ4	26011	broad.mit.edu	37	chr11	78369635	78369635	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttcaagatggcagcaaccCttcgcccatcctcattggcc	8	9	9	15	1	2	1	2	0	0	1	4	1	3	1	4	3	2	3	4	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:78369635C>A	uc001ozl.3	-	34	8241	c.7778G>T	c.(7777-7779)AGG>ATG	p.R2593M	ODZ4_uc001ozk.3_Missense_Mutation_p.R818M|ODZ4_uc009yvb.1_Intron	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	2593	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						GGCAGCAACCCTTCGCCCATC	0.527													5	25					0.0215528	0.021694	1	1	0		A	78369635	A	A	78369635	3	1	211	1	0	0	0	0	1	0	0	0	10856	681	24	5	535	5	ODZ4	11	78369635	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	448872	78369635	56636881	1058	102937											
ODZ4	26011	broad.mit.edu	37	chr11	78413245	78413245	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgtgtgaaacagccaaagcGgtggctgactccagggttgc	9	9	14	9	1	0	2	0	2	0	0	1	2	1	2	2	3	4	2	2	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:78413245G>A	uc001ozl.3	-	28	4876	c.4413C>T	c.(4411-4413)ACC>ACT	p.T1471T	ODZ4_uc009yvb.1_Silent_p.T55T	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1471	Extracellular (Potential).			T -> I (in Ref. 4; CAE45850).	signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CAGCCAAAGCGGTGGCTGACT	0.557													10	22					0	0	1	0	0		A	78413245	A	A	78413245	2	1	211	1	0	0	0	0	0	0	0	1	10856	1103	39	1		1	ODZ4	11	78413245	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	43610	78413245	56593271	1059	102938											
PCF11	51585	broad.mit.edu	37	chr11	82878523	82878523	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgttgttgtgcatcaaattCgacagctatttcagtatcaa	11	16	7	7	1	3	0	3	0	0	0	4	1	3	0	0	0	2	5	0	0	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:82878523C>T	uc001ozx.3	+	7	2413	c.2068C>T	c.(2068-2070)CGA>TGA	p.R690*	PCF11_uc010rsu.1_Nonsense_Mutation_p.R690*	NM_015885	NP_056969	O94913	PCF11_HUMAN	pre-mRNA cleavage complex II protein Pcf11	690					mRNA 3'-end processing|mRNA cleavage|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage factor complex				ovary(1)	1						GCATCAAATTCGACAGCTATT	0.353													6	20					0	0	1	0	0		T	82878523	T	T	82878523	4	4	211	1	0	0	0	0	0	1	0	0	11592	876	31	1	2094	1	PCF11	11	82878523	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4465278	82878523	52127993	1060	102939											
DLG2	1740	broad.mit.edu	37	chr11	84245742	84245742	+	Silent	SNP	A	G	G	1	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	agtcgaggtaaggaatgatcAtgtggagcgtcctcatcttg	10	11	13	7	2	3	1	2	1	1	0	5	4	4	3	1	3	1	1	1	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:84245742A>G	uc001paj.2	-	2	378	c.75T>C	c.(73-75)CAT>CAC	p.H25H	DLG2_uc010rsz.1_Silent_p.H25H|DLG2_uc010rta.1_Silent_p.H25H|DLG2_uc001pak.2_Silent_p.H130H|DLG2_uc001pal.1_Silent_p.H25H	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	25						cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				AGGAATGATCATGTGGAGCGT	0.388													30	96					0	0	1	0	0		G	84245742	G	G	84245742	2	3	211	1	0	0	0	0	0	0	0	1	4561	214	8	3		3	DLG2	11	84245742	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1367219	84245742	50760774	1061	102940											
CCDC89	220388	broad.mit.edu	37	chr11	85396954	85396954	+	Missense_Mutation	SNP	A	G	G	1	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	caggatgcagatgagctgggActgctcttcaatgcgggagc	9	8	15	9	1	2	2	1	1	1	1	2	5	2	5	0	3	5	3	0	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:85396954A>G	uc001pau.1	-	1	367	c.220T>C	c.(220-222)TCC>CCC	p.S74P		NM_152723	NP_689936	Q8N998	CCD89_HUMAN	coiled-coil domain containing 89	74	Potential.					cytoplasm|nucleus					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				ATGAGCTGGGACTGCTCTTCA	0.587													6	28					0	0	1	0	0		G	85396954	G	G	85396954	3	3	211	1	0	0	0	0	1	0	0	0	2869	275	10	3	908	3	CCDC89	11	85396954	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1151212	85396954	49609562	1062	102941											
UBTFL1	642623	broad.mit.edu	37	chr11	89819249	89819249	+	Frame_Shift_Del	DEL	A	-	-																															cagtcacacatggactggggAaaagtagcttttaaaaactt																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:89819249delA	uc010rub.1	+	1	132	c.132delA	c.(130-132)GGAfs	p.G44fs		NM_001143975	NP_001137447	P0CB47	UBFL1_HUMAN	upstream binding transcription factor, RNA	44					multicellular organismal development	cytoplasm|nucleus	DNA binding				0						TGGACTGGGGAAAAGTAGCTT	0.403													42	83	---	---	---	---						.	-	89819249	-	-	89819249	7	5	211	1	0	1	0	1	0	0	0	0	16936	233	9	0	134	0	UBTFL1	11	89819249	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4422295	89819249	45187267	1063	102942											
FAT3	120114	broad.mit.edu	37	chr11	92590502	92590502	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtccaccagggaagctcGgagagtgctcaggtgcagag	10	6	16	9	1	1	2	1	0	0	2	3	4	2	3	2	3	3	3	2	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:92590502G>A	uc001pdj.3	+	19	11505	c.11488G>A	c.(11488-11490)GGA>AGA	p.G3830R	FAT3_uc001pdi.3_Missense_Mutation_p.G270R	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3830	EGF-like 1.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				AGGGAAGCTCGGAGAGTGCTC	0.517										TCGA Ovarian(4;0.039)			21	59					0	0	1	0	0		A	92590502	A	A	92590502	3	1	211	1	0	0	0	0	1	0	0	0	5705	1117	39	1	11562	1	FAT3	11	92590502	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2771253	92590502	42416014	1064	102943											
FAM76B	143684	broad.mit.edu	37	chr11	95513059	95513059	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttacctctgtttccacagtcCctgctcttcttctggactta	5	17	5	14	0	4	0	0	0	4	0	6	1	6	1	3	1	2	2	3	1	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:95513059C>T	uc001pfn.2	-	6	907	c.595G>A	c.(595-597)GGA>AGA	p.G199R	FAM76B_uc001pfm.2_RNA	NM_144664	NP_653265	Q5HYJ3	FA76B_HUMAN	hypothetical protein LOC143684	199											0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TTCCACAGTCCCTGCTCTTCT	0.279													19	86					0	0	1	0	0		T	95513059	T	T	95513059	3	4	211	1	0	0	0	0	1	0	0	0	5639	632	22	4	444	4	FAM76B	11	95513059	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2922557	95513059	39493457	1065	102944											
KIAA1377	57562	broad.mit.edu	37	chr11	101849177	101849177	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	atctgtaggacagaagtacaGtgagcaaattaatgtaagta	17	10	10	4	0	1	2	0	1	1	1	1	3	1	3	0	1	2	5	0	1	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:101849177G>A	uc001pgm.2	+	7	3215	c.2945G>A	c.(2944-2946)AGT>AAT	p.S982N	KIAA1377_uc001pgn.2_Missense_Mutation_p.S938N|KIAA1377_uc010run.1_Missense_Mutation_p.S783N	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	hypothetical protein LOC57562	982							protein binding			breast(2)|ovary(1)|central_nervous_system(1)	4	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		CAGAAGTACAGTGAGCAAATT	0.343													37	67					0	0	1	0	0		A	101849177	A	A	101849177	3	1	211	1	0	0	0	0	1	0	0	0	8243	1029	36	4	2971	4	KIAA1377	11	101849177	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6336118	101849177	33157339	1066	102945											
MMP12	4321	broad.mit.edu	37	chr11	102738713	102738713	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgtcaacatatttgtaggtgGggaacattacggcctttgga	10	13	12	6	1	1	0	1	0	0	0	1	2	1	2	1	5	3	1	1	5	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:102738713G>T	uc001phk.2	-	6	758	c.713C>A	c.(712-714)CCC>CAC	p.P238H		NM_002426	NP_002417	P39900	MMP12_HUMAN	matrix metalloproteinase 12 preproprotein	238					positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding				0		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	TTTGTAGGTGGGGAACATTAC	0.448													5	10					0.000602214	0.000615082	1	1	0		T	102738713	T	T	102738713	3	4	211	1	0	0	0	0	1	0	0	0	9669	1232	43	5	723	5	MMP12	11	102738713	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	889536	102738713	32267803	1067	102946											
PDGFD	80310	broad.mit.edu	37	chr11	103780444	103780444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcgaggtggtcttgagctgCagatacaatcacatcgttca	11	11	10	9	2	3	2	2	1	1	1	5	3	3	2	0	2	3	3	0	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:103780444C>T	uc001phq.2	-	7	1463	c.1091G>A	c.(1090-1092)TGC>TAC	p.C364Y	PDGFD_uc001php.2_Missense_Mutation_p.C358Y	NM_025208	NP_079484	Q9GZP0	PDGFD_HUMAN	platelet derived growth factor D isoform 1	364					positive regulation of cell division	endoplasmic reticulum lumen|extracellular region|Golgi membrane	growth factor activity			upper_aerodigestive_tract(1)|large_intestine(1)	2		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)		TCTTGAGCTGCAGATACAATC	0.453													31	98					0	0	1	0	0		T	103780444	T	T	103780444	3	4	211	1	0	0	0	0	1	0	0	0	11679	710	25	2	25	2	PDGFD	11	103780444	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1041731	103780444	31226072	1068	102947											
RAB39	54734	broad.mit.edu	37	chr11	107799501	107799501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagctacagctctgggacacGgcgggacaggagcggttcag	10	5	16	10	3	2	0	1	0	1	0	2	3	2	3	0	5	4	3	0	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:107799501G>A	uc001pjt.2	+	1	225	c.207G>A	c.(205-207)ACG>ACA	p.T69T		NM_017516	NP_059986	Q14964	RB39A_HUMAN	RAB39, member RAS oncogene family	69	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0				BRCA - Breast invasive adenocarcinoma(274;3.04e-05)|Epithelial(105;8.56e-05)|all cancers(92;0.00179)		TCTGGGACACGGCGGGACAGG	0.736													5	6					0	0	1	0	0		A	107799501	A	A	107799501	2	1	211	1	0	0	0	0	0	0	0	1	12954	1103	39	1		1	RAB39	11	107799501	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4019057	107799501	27207015	1069	102948											
CUL5	8065	broad.mit.edu	37	chr11	107968391	107968391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctttcccaaaactcaaacGgcaagttttgttgtatgaac	13	12	7	9	1	1	1	1	1	0	0	2	1	2	1	1	1	4	5	1	1	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:107968391G>A	uc001pjv.2	+	17	2601	c.1934G>A	c.(1933-1935)CGG>CAG	p.R645Q	CUL5_uc001pju.2_RNA	NM_003478	NP_003469	Q93034	CUL5_HUMAN	Vasopressin-activated calcium-mobilizing	645					cell cycle arrest|cell proliferation|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process|viral reproduction	cullin-RING ubiquitin ligase complex|cytosol	calcium channel activity|receptor activity|ubiquitin protein ligase binding			ovary(1)	1		all_cancers(61;7.09e-10)|all_epithelial(67;2.97e-06)|Acute lymphoblastic leukemia(157;3.95e-05)|Melanoma(852;4.48e-05)|all_hematologic(158;0.00014)|Breast(348;0.0258)|all_neural(303;0.072)		BRCA - Breast invasive adenocarcinoma(274;3.58e-05)|Epithelial(105;4.68e-05)|all cancers(92;0.00122)|OV - Ovarian serous cystadenocarcinoma(223;0.217)		AAACTCAAACGGCAAGTTTTG	0.373													9	43					0	0	1	0	0		A	107968391	A	A	107968391	3	1	211	1	0	0	0	0	1	0	0	0	4062	1116	39	1	2000	1	CUL5	11	107968391	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	168890	107968391	27038125	1070	102949											
DDX10	1662	broad.mit.edu	37	chr11	108594061	108594061	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcttcctaacaccagtgagGcacagaagatcaaggaagtt	14	8	9	10	0	2	3	1	1	1	2	3	4	3	4	2	2	1	2	2	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:108594061G>A	uc001pkm.2	+	13	1902	c.1837G>A	c.(1837-1839)GCA>ACA	p.A613T	DDX10_uc001pkl.1_Missense_Mutation_p.A613T	NM_004398	NP_004389	Q13206	DDX10_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 10	613							ATP binding|ATP-dependent helicase activity|RNA binding|RNA helicase activity	p.E594_E618del(1)		breast(2)|lung(1)|prostate(1)	4		all_cancers(61;1.29e-11)|all_epithelial(67;2.96e-07)|Melanoma(852;1.54e-05)|Acute lymphoblastic leukemia(157;4.24e-05)|all_hematologic(158;0.000141)|Breast(348;0.026)|all_neural(223;0.0729)		BRCA - Breast invasive adenocarcinoma(274;2.48e-05)|Epithelial(105;4.35e-05)|all cancers(92;0.000609)|OV - Ovarian serous cystadenocarcinoma(223;0.133)		CACCAGTGAGGCACAGAAGAT	0.363			T	NUP98	AML*								10	22					0	0	1	0	0		A	108594061	A	A	108594061	3	1	211	1	0	0	0	0	1	0	0	0	4345	1203	42	2	1887	2	DDX10	11	108594061	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	625670	108594061	26412455	1071	102950											
DRD2	1813	broad.mit.edu	37	chr11	113283448	113283448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcccattcttctctggtttgGcggggctgtcgggagtgctg	2	13	16	10	2	2	0	0	0	2	0	4	1	2	1	1	5	1	3	1	5	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:113283448G>A	uc001pnz.2	-	6	1289	c.968C>T	c.(967-969)GCC>GTC	p.A323V	DRD2_uc010rwv.1_Missense_Mutation_p.A322V|DRD2_uc001poa.3_Missense_Mutation_p.A323V|DRD2_uc001pob.3_Missense_Mutation_p.A294V	NM_000795	NP_000786	P14416	DRD2_HUMAN	dopamine receptor D2 isoform long	323	Cytoplasmic (By similarity).|Interaction with PPP1R9B (By similarity).				activation of phospholipase C activity by dopamine receptor signaling pathway|adenohypophysis development|adult walking behavior|arachidonic acid secretion|axonogenesis|behavioral response to cocaine|behavioral response to ethanol|branching morphogenesis of a nerve|cerebral cortex GABAergic interneuron migration|circadian regulation of gene expression|elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|intracellular protein kinase cascade|negative regulation of blood pressure|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of dopamine receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of protein secretion|negative regulation of synaptic transmission, glutamatergic|neurological system process involved in regulation of systemic arterial blood pressure|peristalsis|phosphatidylinositol metabolic process|positive regulation of dopamine uptake|positive regulation of growth hormone secretion|positive regulation of neuroblast proliferation|prepulse inhibition|protein localization|regulation of heart rate|regulation of long-term neuronal synaptic plasticity|regulation of potassium ion transport|regulation of sodium ion transport|regulation of synaptic transmission, GABAergic|release of sequestered calcium ion into cytosol|response to amphetamine|response to drug|response to histamine|response to morphine|sensory perception of smell|synapse assembly|temperature homeostasis|visual learning	integral to plasma membrane	dopamine D2 receptor activity|dopamine receptor activity, coupled via Gi/Go|drug binding|potassium channel regulator activity|protein binding			pancreas(1)|skin(1)	2		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)	Acetophenazine(DB01063)|Amantadine(DB00915)|Apomorphine(DB00714)|Aripiprazole(DB01238)|Bromocriptine(DB01200)|Buspirone(DB00490)|Cabergoline(DB00248)|Carphenazine(DB01038)|Chlorpromazine(DB00477)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clozapine(DB00363)|Domperidone(DB01184)|Droperidol(DB00450)|Ergotamine(DB00696)|Flupenthixol(DB00875)|Fluphenazine(DB00623)|Fluspirilene(DB04842)|Haloperidol(DB00502)|Levodopa(DB01235)|Lisuride(DB00589)|Loxapine(DB00408)|Mesoridazine(DB00933)|Metoclopramide(DB01233)|Minaprine(DB00805)|Molindone(DB01618)|Olanzapine(DB00334)|Paliperidone(DB01267)|Pergolide(DB01186)|Perphenazine(DB00850)|Pimozide(DB01100)|Pramipexole(DB00413)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Remoxipride(DB00409)|Risperidone(DB00734)|Ropinirole(DB00268)|Sertindole(DB06144)|Sulpiride(DB00391)|Thiethylperazine(DB00372)|Thioridazine(DB00679)|Tranylcypromine(DB00752)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Ziprasidone(DB00246)|Zuclopenthixol(DB01624)	CTCTGGTTTGGCGGGGCTGTC	0.612													34	66					0	0	1	0	0		A	113283448	A	A	113283448	3	1	211	1	0	0	0	0	1	0	0	0	4763	1203	42	2	371	2	DRD2	11	113283448	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4689387	113283448	21723068	1072	102951											
USP28	57646	broad.mit.edu	37	chr11	113679043	113679043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actcagtgccgcttctacacCgctcttctcataggcacggg	7	10	9	15	3	4	0	2	0	3	0	5	0	4	0	2	2	2	3	2	2	2	4	rs143699311		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:113679043C>T	uc001poh.2	-	18	2314	c.2281G>A	c.(2281-2283)GGT>AGT	p.G761S	USP28_uc001pog.2_Missense_Mutation_p.G469S|USP28_uc010rwy.1_Missense_Mutation_p.G636S|USP28_uc001poi.2_Missense_Mutation_p.G116S	NM_020886	NP_065937	Q96RU2	UBP28_HUMAN	ubiquitin specific protease 28	761					cell proliferation|DNA damage checkpoint|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA repair|protein deubiquitination|response to ionizing radiation|ubiquitin-dependent protein catabolic process	nucleolus|nucleoplasm	protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(2)|breast(2)|ovary(1)|large_intestine(1)|kidney(1)	7		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)		GCTTCTACACCGCTCTTCTCA	0.522													44	150					0	0	1	0	0		T	113679043	T	T	113679043	3	4	211	1	0	0	0	0	1	0	0	0	17084	652	23	1	984	1	USP28	11	113679043	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	395595	113679043	21327473	1073	102952											
BUD13	84811	broad.mit.edu	37	chr11	116619250	116619250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcctccactgccttcttgCtggcaagcctggcaaagcgc	6	10	10	15	1	1	0	0	0	1	0	3	0	3	0	4	2	4	4	4	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:116619250C>T	uc001ppn.2	-	10	1842	c.1808G>A	c.(1807-1809)AGC>AAC	p.S603N	BUD13_uc001ppo.2_Missense_Mutation_p.S469N	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	603										large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		TGCCTTCTTGCTGGCAAGCCT	0.488													27	72					0	0	1	0	0		T	116619250	T	T	116619250	3	4	211	1	0	0	0	0	1	0	0	0	1576	797	28	2	55	2	BUD13	11	116619250	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2940207	116619250	18387266	1074	102953											
SIK3	23387	broad.mit.edu	37	chr11	116729395	116729395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cctggtcgtagttagcagggGagaaccgattcacgttcaag	10	9	13	9	3	2	1	2	0	0	1	3	3	2	1	2	3	2	4	2	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:116729395G>A	uc001ppy.2	-	20	2504	c.2468C>T	c.(2467-2469)TCC>TTC	p.S823F	SIK3_uc001ppz.2_Intron|SIK3_uc001pqa.2_Intron|SIK3_uc001ppw.2_Intron|SIK3_uc001ppx.2_Intron|SIK3_uc001pqb.2_Missense_Mutation_p.S126F	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	823	Gln-rich.					cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|breast(3)|stomach(2)|lung(1)|skin(1)|kidney(1)	12						GTTAGCAGGGGAGAACCGATT	0.547													26	71					0	0	1	0	0		A	116729395	A	A	116729395	3	1	211	1	0	0	0	0	1	0	0	0	14344	1174	41	4	1339	4	SIK3	11	116729395	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	110145	116729395	18277121	1075	102954											
CEP164	22897	broad.mit.edu	37	chr11	117209321	117209321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatggctggacgacccctcCgcataggagatcagctggtt	8	9	12	12	2	2	1	2	0	0	1	3	4	3	2	3	4	1	4	3	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:117209321C>T	uc001prc.2	+	3	166	c.19C>T	c.(19-21)CGC>TGC	p.R7C	CEP164_uc001prb.2_Missense_Mutation_p.R7C|CEP164_uc001prd.2_Missense_Mutation_p.R7C|CEP164_uc010rxj.1_Intron|CEP164_uc010rxk.1_Missense_Mutation_p.R7C	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	7	Interaction with ATRIP.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		ACGACCCCTCCGCATAGGAGA	0.488													25	82					0	0	1	0	0		T	117209321	T	T	117209321	3	4	211	1	0	0	0	0	1	0	0	0	3252	652	23	1	21	1	CEP164	11	117209321	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	479926	117209321	17797195	1076	102955											
CEP164	22897	broad.mit.edu	37	chr11	117232594	117232594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agttcatgttcctcttggggGcctggctcctttacgaggtc	4	14	12	11	1	2	0	1	0	1	0	5	1	4	0	3	4	1	3	3	4	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:117232594G>A	uc001prc.2	+	6	584	c.437G>A	c.(436-438)GGC>GAC	p.G146D	CEP164_uc001prb.2_Missense_Mutation_p.G146D|CEP164_uc010rxk.1_Missense_Mutation_p.G146D|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	146	Interaction with ATRIP.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)		CCTCTTGGGGGCCTGGCTCCT	0.542													40	88					0	0	1	0	0		A	117232594	A	A	117232594	3	1	211	1	0	0	0	0	1	0	0	0	3252	1203	42	2	451	2	CEP164	11	117232594	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	23273	117232594	17773922	1077	102956											
DSCAML1	57453	broad.mit.edu	37	chr11	117308780	117308780	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cactcctcgctgttgtccacCgagtactgtagcacgaagcc	8	9	9	15	3	0	0	0	0	0	0	3	2	2	0	4	0	3	5	4	0	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:117308780C>T	uc001prh.1	-	25	4445	c.4443G>A	c.(4441-4443)TCG>TCA	p.S1481S		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1421	Fibronectin type-III 5.|Extracellular (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGTTGTCCACCGAGTACTGTA	0.612													12	18					0	0	1	0	0		T	117308780	T	T	117308780	2	4	211	1	0	0	0	0	0	0	0	1	4775	639	23	1		1	DSCAML1	11	117308780	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	76186	117308780	17697736	1078	102957											
DSCAML1	57453	broad.mit.edu	37	chr11	117335865	117335865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagccaatctggtagccccGgatgacaccgttctgcagct	8	9	11	13	2	2	1	0	1	2	0	2	2	2	2	4	2	4	5	4	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:117335865G>A	uc001prh.1	-	17	3240	c.3238C>T	c.(3238-3240)CGG>TGG	p.R1080W		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1020	Extracellular (Potential).|Fibronectin type-III 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		TGGTAGCCCCGGATGACACCG	0.517													28	64					0	0	1	0	0		A	117335865	A	A	117335865	3	1	211	1	0	0	0	0	1	0	0	0	4775	1115	39	1	3171	1	DSCAML1	11	117335865	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	27085	117335865	17670651	1079	102958											
MLL	4297	broad.mit.edu	37	chr11	118352503	118352503	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagagcagtgttgtgaagaaCgtggtggactctagtcagaa	12	9	15	5	1	2	4	1	1	1	3	2	6	2	5	0	2	2	2	0	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:118352503C>T	uc001pta.2	+	7	3731	c.3708C>T	c.(3706-3708)AAC>AAT	p.N1236N	MLL_uc001ptb.2_Silent_p.N1236N|MLL_uc001pte.1_RNA|MLL_uc009zab.1_Translation_Start_Site	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1236					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TTGTGAAGAACGTGGTGGACT	0.463			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								21	67					0	0	1	0	0		T	118352503	T	T	118352503	2	4	211	1	0	0	0	0	0	0	0	1	9638	535	19	1		1	MLL	11	118352503	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1016638	118352503	16654013	1080	102959											
PHLDB1	23187	broad.mit.edu	37	chr11	118499338	118499338	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggcgacagcgccaagagcGgctccgggagcaggagatgg	9	2	18	12	5	0	2	0	0	0	2	1	5	1	3	3	5	3	2	3	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:118499338G>A	uc001ptr.1	+	7	2152	c.1799G>A	c.(1798-1800)CGG>CAG	p.R600Q	PHLDB1_uc001pts.2_Missense_Mutation_p.R600Q|PHLDB1_uc001ptt.2_Missense_Mutation_p.R600Q|PHLDB1_uc001ptu.1_Intron|PHLDB1_uc001ptv.1_Missense_Mutation_p.R400Q|PHLDB1_uc001ptw.1_5'Flank	NM_015157	NP_055972	Q86UU1	PHLB1_HUMAN	pleckstrin homology-like domain, family B,	600											0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0523)|all_hematologic(192;0.0735)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)		CGCCAAGAGCGGCTCCGGGAG	0.627													6	13					0	0	1	0	0		A	118499338	A	A	118499338	3	1	211	1	0	0	0	0	1	0	0	0	11870	1116	39	1	1817	1	PHLDB1	11	118499338	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	146835	118499338	16507178	1081	102960											
VPS11	55823	broad.mit.edu	37	chr11	118948655	118948655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcagagagcaacatgaagcGctacggcaagatcctcatgc	13	5	12	11	2	1	3	1	1	0	2	2	4	2	3	1	2	5	4	1	2	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:118948655G>A	uc010ryx.1	+	11	1682	c.1640G>A	c.(1639-1641)CGC>CAC	p.R547H	VPS11_uc010ryy.1_Missense_Mutation_p.R393H	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	547	Clathrin.				protein transport	endocytic vesicle|HOPS complex|late endosome membrane|lysosomal membrane	nucleotide binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.88e-05)		AACATGAAGCGCTACGGCAAG	0.502													45	130					0	0	1	0	0		A	118948655	A	A	118948655	3	1	211	1	0	0	0	0	1	0	0	0	17214	1087	38	1	1677	1	VPS11	11	118948655	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	449317	118948655	16057861	1082	102961											
ETS1	2113	broad.mit.edu	37	chr11	128350145	128350145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtccttattgaggtcagcaCggtcccgcacatagtccttg	7	12	10	12	2	1	1	1	1	0	0	4	1	4	1	3	2	1	2	3	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:128350145C>T	uc010sbs.1	-	6	1248	c.932G>A	c.(931-933)CGT>CAT	p.R311H	ETS1_uc001qej.2_Missense_Mutation_p.R355H|ETS1_uc009zch.2_Missense_Mutation_p.R95H|ETS1_uc009zcg.2_Intron	NM_005238	NP_005229	P14921	ETS1_HUMAN	v-ets erythroblastosis virus E26 oncogene	311					cell motility|immune response|induction of apoptosis|negative regulation of cell cycle|negative regulation of cell cycle|negative regulation of cell proliferation|PML body organization|positive regulation of cellular component movement|positive regulation of erythrocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|response to antibiotic|transcription from RNA polymerase II promoter	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			lung(4)|central_nervous_system(1)|pleura(1)	6	all_hematologic(175;0.0537)	Lung NSC(97;0.000542)|all_lung(97;0.000665)|Breast(109;0.00765)|all_neural(223;0.0351)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;1.47e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.0174)|LUSC - Lung squamous cell carcinoma(976;0.0815)|Lung(307;0.0833)		GAGGTCAGCACGGTCCCGCAC	0.597													19	53					0	0	1	0	0		T	128350145	T	T	128350145	3	4	211	1	0	0	0	0	1	0	0	0	5283	536	19	1	405	1	ETS1	11	128350145	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9401490	128350145	6656371	1083	102962											
FLI1	2313	broad.mit.edu	37	chr11	128680442	128680442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcacctgggaggggaccaaCggggagttcaaaatgacgga	13	5	15	8	2	2	1	2	1	0	0	2	5	2	5	2	6	1	1	2	6	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:128680442C>T	uc010sbu.1	+	9	1259	c.918C>T	c.(916-918)AAC>AAT	p.N306N	FLI1_uc010sbt.1_Silent_p.N113N|FLI1_uc010sbv.1_Silent_p.N273N|FLI1_uc009zci.2_Silent_p.N240N	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	306	ETS.				hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		AGGGGACCAACGGGGAGTTCA	0.632			T	EWSR1	Ewing sarcoma								6	12					0	0	1	0	0		T	128680442	T	T	128680442	2	4	211	1	0	0	0	0	0	0	0	1	5938	535	19	1		1	FLI1	11	128680442	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	330297	128680442	6326074	1084	102963											
ARHGAP32	9743	broad.mit.edu	37	chr11	128993399	128993399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcacattcagccatcttcGgaaagtgacctttagtgaag	11	10	10	10	2	2	2	1	2	1	0	3	3	2	3	2	1	1	1	2	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:128993399G>A	uc009zcp.2	-	4	344	c.344C>T	c.(343-345)CCG>CTG	p.P115L	ARHGAP32_uc009zcq.1_Missense_Mutation_p.P75L	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	115					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						AGCCATCTTCGGAAAGTGACC	0.338													4	28					0	0	1	0	0		A	128993399	A	A	128993399	3	1	211	1	0	0	0	0	1	0	0	0	881	1116	39	1	5995	1	ARHGAP32	11	128993399	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	312957	128993399	6013117	1085	102964											
VPS26B	112936	broad.mit.edu	37	chr11	134109913	134109913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcgtgctaccatcagccgcCgcctcaatgatgttgtcaaa	9	11	8	13	3	3	1	3	1	0	0	4	1	3	1	4	0	3	2	4	0	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:134109913C>T	uc001qhe.2	+	3	865	c.409C>T	c.(409-411)CGC>TGC	p.R137C		NM_052875	NP_443107	Q4G0F5	VP26B_HUMAN	vacuolar protein sorting 26 homolog B	137					protein transport|vacuolar transport	cytosol|retromer complex					0	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)		CATCAGCCGCCGCCTCAATGA	0.463													10	42					0	0	1	0	0		T	134109913	T	T	134109913	3	4	211	1	0	0	0	0	1	0	0	0	17224	652	23	1	419	1	VPS26B	11	134109913	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5116514	134109913	896603	1086	102965											
ACAD8	27034	broad.mit.edu	37	chr11	134126526	134126526	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agagatggctccaaatatggCagagtgggaccagaaggtag	14	6	15	6	0	0	3	0	0	0	3	1	5	1	4	2	4	0	3	2	4	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr11:134126526C>T	uc001qhk.2	+	2	255	c.194C>T	c.(193-195)GCA>GTA	p.A65V	ACAD8_uc009zdc.2_Nonsense_Mutation_p.Q24*|ACAD8_uc010sco.1_Nonsense_Mutation_p.Q24*|ACAD8_uc010scp.1_RNA|ACAD8_uc010scq.1_Intron|ACAD8_uc001qhl.2_Intron|ACAD8_uc010scr.1_Missense_Mutation_p.A27V|ACAD8_uc009zde.1_5'Flank	NM_014384	NP_055199	Q9UKU7	ACAD8_HUMAN	acyl-Coenzyme A dehydrogenase family, member 8	65					branched chain family amino acid catabolic process|lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial matrix	acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding				0	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)		CCAAATATGGCAGAGTGGGAC	0.448													9	35					0	0	1	0	0		T	134126526	T	T	134126526	3	4	211	1	0	0	0	0	1	0	0	0	110	710	25	2	200	2	ACAD8	11	134126526	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	16613	134126526	879990	1087	102966											
WNK1	65125	broad.mit.edu	37	chr12	995198	995198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccagtcagcactactacatCaggagtgaaacctggaactg	13	7	9	12	0	2	1	2	1	0	0	2	3	2	3	2	2	5	1	2	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:995198C>T	uc001qio.3	+	19	5735	c.5228C>T	c.(5227-5229)TCA>TTA	p.S1743L	WNK1_uc001qip.3_Missense_Mutation_p.S1496L|WNK1_uc001qir.3_Missense_Mutation_p.S916L	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1743					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			ACTACTACATCAGGAGTGAAA	0.418													23	97					0	0	1	0	0		T	995198	T	T	995198	3	4	211	1	0	0	0	0	1	0	0	0	17403	838	29	4	6804	4	WNK1	12	995198	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		995198	132856697	1088	102967											
WNT5B	81029	broad.mit.edu	37	chr12	1748963	1748963	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcggctgcagccggacggcgCggcccaaggacctgccccgg	5	2	17	17	6	0	0	0	0	0	0	0	2	0	2	5	6	3	2	5	6	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:1748963C>T	uc009zdq.2	+	4	684	c.442C>T	c.(442-444)CGG>TGG	p.R148W	WNT5B_uc001qjj.2_Missense_Mutation_p.R148W|WNT5B_uc001qjk.2_Missense_Mutation_p.R148W|WNT5B_uc001qjl.2_Missense_Mutation_p.R148W	NM_032642	NP_116031	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family,	148					angiogenesis|anterior/posterior pattern formation|cell migration involved in gastrulation|cellular response to retinoic acid|chondrocyte differentiation|convergent extension involved in axis elongation|convergent extension involved in gastrulation|dorsal/ventral axis specification|endocrine pancreas development|fat cell differentiation|lens fiber cell development|negative regulation of canonical Wnt receptor signaling pathway|neuron differentiation|positive regulation of cell migration|positive regulation of fat cell differentiation|respiratory system development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			CCGGACGGCGCGGCCCAAGGA	0.731													14	30					0	0	1	0	0		T	1748963	T	T	1748963	3	4	211	1	0	0	0	0	1	0	0	0	17418	759	27	1	452	1	WNT5B	12	1748963	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	753765	1748963	132102932	1089	102968											
CACNA1C	775	broad.mit.edu	37	chr12	2795387	2795387	+	Silent	SNP	A	G	G	1	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	cgacagaaggaccgagggggAgacatctctcagaagacagt	14	4	14	9	2	2	4	1	0	1	4	3	8	2	5	1	3	0	0	1	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:2795387A>G	uc009zdu.1	+	48	6298	c.5985A>G	c.(5983-5985)GGA>GGG	p.G1995G	CACNA1C_uc009zdv.1_Silent_p.G1909G|CACNA1C_uc001qkb.2_Silent_p.G1912G|CACNA1C_uc001qkc.2_Silent_p.G1931G|CACNA1C_uc001qke.2_Silent_p.G1901G|CACNA1C_uc001qkf.2_Silent_p.G1920G|CACNA1C_uc001qjz.2_Silent_p.G1912G|CACNA1C_uc001qkd.2_Silent_p.G1931G|CACNA1C_uc001qkg.2_Silent_p.G1918G|CACNA1C_uc009zdw.1_Silent_p.G1953G|CACNA1C_uc001qkh.2_Silent_p.G1920G|CACNA1C_uc001qkl.2_Silent_p.G1960G|CACNA1C_uc001qkn.2_Silent_p.G1912G|CACNA1C_uc001qko.2_Silent_p.G1932G|CACNA1C_uc001qkp.2_Silent_p.G1912G|CACNA1C_uc001qkr.2_Silent_p.G1929G|CACNA1C_uc001qku.2_Silent_p.G1947G|CACNA1C_uc001qkq.2_Silent_p.G1940G|CACNA1C_uc001qks.2_Silent_p.G1912G|CACNA1C_uc001qkt.2_Silent_p.G1931G|CACNA1C_uc001qki.1_Silent_p.G1719G|CACNA1C_uc001qkj.1_Silent_p.G1683G|CACNA1C_uc001qkk.1_Silent_p.G1648G|CACNA1C_uc001qkm.1_Silent_p.G1708G|CACNA1C_uc010sea.1_Silent_p.G603G|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Silent_p.G230G	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1995	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ACCGAGGGGGAGACATCTCTC	0.572													35	123					0	0	1	0	0		G	2795387	G	G	2795387	2	3	211	1	0	0	0	0	0	0	0	1	2543	291	11	3		3	CACNA1C	12	2795387	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1046424	2795387	131056508	1090	102969											
TULP3	7289	broad.mit.edu	37	chr12	3043651	3043651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtttacagtttatgaccGtggcatctgccccatgaagg	10	11	10	10	1	1	2	0	2	1	0	1	2	1	2	3	2	2	3	3	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:3043651G>A	uc010seh.1	+	8	929	c.848G>A	c.(847-849)CGT>CAT	p.R283H	TULP3_uc010sef.1_RNA|TULP3_uc009zec.1_Missense_Mutation_p.R10H|TULP3_uc010seg.1_RNA|TULP3_uc001qlj.2_Missense_Mutation_p.R283H|TULP3_uc010sei.1_Missense_Mutation_p.R140H	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1	283					G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			GTTTATGACCGTGGCATCTGC	0.522													52	173					0	0	1	0	0		A	3043651	A	A	3043651	3	1	211	1	0	0	0	0	1	0	0	0	16801	1145	40	1	878	1	TULP3	12	3043651	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	248264	3043651	130808244	1091	102970											
RAD51AP1	10635	broad.mit.edu	37	chr12	4665605	4665605	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctgtcttcagataccactAggaaaccattagaaatacgc	14	10	6	11	1	3	2	1	0	2	2	3	3	3	3	2	1	3	0	2	1	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:4665605A>G	uc001qmw.2	+	9	1015	c.859A>G	c.(859-861)AGG>GGG	p.R287G	RAD51AP1_uc001qmu.2_Missense_Mutation_p.R270G|RAD51AP1_uc001qmv.2_Missense_Mutation_p.R233G|RAD51AP1_uc010sep.1_Missense_Mutation_p.R152G|RAD51AP1_uc010seq.1_Missense_Mutation_p.R152G|RAD51AP1_uc009zeg.2_Intron	NM_001130862	NP_001124334	Q96B01	R51A1_HUMAN	RAD51 associated protein 1 isoform a	287					double-strand break repair via homologous recombination		double-stranded DNA binding|protein binding|protein binding|RNA binding|single-stranded DNA binding				0			Colorectal(7;0.00306)|COAD - Colon adenocarcinoma(12;0.0389)			AGATACCACTAGGAAACCATT	0.433													23	56					0	0	1	0	0		G	4665605	G	G	4665605	3	3	211	1	0	0	0	0	1	0	0	0	13011	411	15	3	893	3	RAD51AP1	12	4665605	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1621954	4665605	129186290	1092	102971											
KCNA5	3741	broad.mit.edu	37	chr12	5153903	5153903	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtctccctggacgtgttcgCggacgagatacgcttctacc	6	10	11	14	6	2	1	0	0	2	1	4	4	2	3	2	2	2	2	2	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:5153903C>T	uc001qni.2	+	1	819	c.590C>T	c.(589-591)GCG>GTG	p.A197V		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	197						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GACGTGTTCGCGGACGAGATA	0.632													15	42					0	0	1	0	0		T	5153903	T	T	5153903	3	4	211	1	0	0	0	0	1	0	0	0	8022	768	27	1	592	1	KCNA5	12	5153903	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	488298	5153903	128697992	1093	102972											
ANO2	57101	broad.mit.edu	37	chr12	5848546	5848546	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcatctgtagcctcttccaGttttccaggaacatggtagc	8	12	9	12	1	2	0	0	0	2	0	4	1	4	1	3	2	3	4	3	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:5848546G>C	uc001qnm.2	-	13	1431	c.1359C>G	c.(1357-1359)AAC>AAG	p.N453K		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	458	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						GCCTCTTCCAGTTTTCCAGGA	0.438													6	12					0	0	1	0	0		C	5848546	C	C	5848546	3	2	211	1	0	0	0	0	1	0	0	0	697	1020	36	5	1693	5	ANO2	12	5848546	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	694643	5848546	128003349	1094	102973											
C12orf53	196500	broad.mit.edu	37	chr12	6806777	6806777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gacccgaggagatcggcttgGtggaggtgctcgctcccaca	7	7	15	12	3	0	1	0	0	0	1	3	5	1	2	2	5	1	3	2	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:6806777G>A	uc001qqf.1	-	3	275	c.199C>T	c.(199-201)CCA>TCA	p.P67S	C12orf53_uc001qqg.1_Missense_Mutation_p.P67S	NM_153685	NP_710152	Q8IYJ0	CL053_HUMAN	hypothetical protein LOC196500 precursor	67	Extracellular (Potential).					integral to membrane					0						GATCGGCTTGGTGGAGGTGCT	0.697													3	4					0	0	1	0	0		A	6806777	A	A	6806777	3	1	211	1	0	0	0	0	1	0	0	0	1701	1261	44	4	665	4	C12orf53	12	6806777	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	958231	6806777	127045118	1095	102974											
ATN1	1822	broad.mit.edu	37	chr12	7044973	7044973	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccctcgacagccagaggcTagctttgaaccccatccttc	9	8	7	17	1	0	2	0	1	0	1	3	3	1	2	6	1	3	2	6	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:7044973T>C	uc001qrw.1	+	5	780	c.543T>C	c.(541-543)GCT>GCC	p.A181A	ATN1_uc001qrx.1_Silent_p.A181A|ATN1_uc001qry.1_Silent_p.A180A	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	181					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						AGCCAGAGGCTAGCTTTGAAC	0.637													57	117					0	0	1	0	0		C	7044973	C	C	7044973	2	2	211	1	0	0	0	0	0	0	0	1	1112	1509	53	3		3	ATN1	12	7044973	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	238196	7044973	126806922	1096	102975											
C1S	716	broad.mit.edu	37	chr12	7177814	7177814	+	Silent	SNP	T	C	C	0	1	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	tttgctgtacaggatcccaaTgacaagaccaaattctacgc	13	10	7	11	1	1	2	0	1	1	1	2	3	2	3	2	1	3	2	2	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:7177814T>C	uc001qsj.2	+	15	2645	c.1926T>C	c.(1924-1926)AAT>AAC	p.N642N	C1S_uc001qsk.2_Silent_p.N642N|C1S_uc001qsl.2_Silent_p.N642N|C1S_uc009zfr.2_Silent_p.N475N|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	642	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	AGGATCCCAATGACAAGACCA	0.522													57	187					0	0	1	0	0		C	7177814	C	C	7177814	2	2	211	1	0	0	0	0	0	0	0	1	1977	1461	51	3		3	C1S	12	7177814	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	132841	7177814	126674081	1097	102976											
FOXJ2	55810	broad.mit.edu	37	chr12	8200580	8200580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagcagcagcagcagcCgccacagccacctccccagc	10	1	10	20	1	0	0	0	0	0	0	1	0	1	0	6	0	8	6	6	0	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:8200580C>T	uc001qtu.2	+	7	2005	c.920C>T	c.(919-921)CCG>CTG	p.P307L	FOXJ2_uc001qtt.1_Missense_Mutation_p.P307L	NM_018416	NP_060886	Q9P0K8	FOXJ2_HUMAN	forkhead box J2	307					embryo development|organ development|pattern specification process|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|tissue development	nucleolus|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding			upper_aerodigestive_tract(2)|ovary(2)|skin(1)	5				Kidney(36;0.0944)		cagcagcagcCGCCACAGCCA	0.473													14	26					0	0	1	0	0		T	8200580	T	T	8200580	3	4	211	1	0	0	0	0	1	0	0	0	6026	652	23	1	942	1	FOXJ2	12	8200580	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1022766	8200580	125651315	1098	102977											
CLEC2B	9976	broad.mit.edu	37	chr12	10010142	10010142	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cagttgtatttacttgaattCcaatctccttcttctttaga	9	19	4	9	0	3	2	0	1	3	1	5	2	4	2	2	0	1	2	2	0	5	10			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:10010142C>T	uc001qwn.2	-	3	825	c.168G>A	c.(166-168)TGG>TGA	p.W56*		NM_005127	NP_005118	Q92478	CLC2B_HUMAN	C-type lectin, superfamily member 2	56	C-type lectin.|Extracellular (Potential).					integral to plasma membrane	sugar binding				0						TACTTGAATTCCAATCTCCTT	0.323													8	27					0	0	1	0	0		T	10010142	T	T	10010142	4	4	211	1	0	0	0	0	0	1	0	0	3510	856	30	4	293	4	CLEC2B	12	10010142	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1809562	10010142	123841753	1099	102978											
TAS2R7	50837	broad.mit.edu	37	chr12	10954878	10954878	+	Missense_Mutation	SNP	A	G	G	1	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	gctgaggcaggttgcaaaccAgatacttaaatgattggtta	13	11	11	6	0	0	3	0	2	0	1	0	3	0	3	1	3	3	5	1	3	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:10954878A>G	uc001qyv.2	-	1	349	c.292T>C	c.(292-294)TGG>CGG	p.W98R		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	98	Helical; Name=3; (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						GTTGCAAACCAGATACTTAAA	0.373													15	37					0	0	1	0	0		G	10954878	G	G	10954878	3	3	211	1	0	0	0	0	1	0	0	0	15611	188	7	3	668	3	TAS2R7	12	10954878	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	944736	10954878	122897017	1100	102979											
GRIN2B	2904	broad.mit.edu	37	chr12	14018807	14018807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtctgtgctgaaatgaaatcGaggatctgggcgatggcttc	9	11	14	7	2	2	2	0	2	2	0	4	5	2	3	0	3	1	2	0	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:14018807G>A	uc001rbt.2	-	2	515	c.336C>T	c.(334-336)CTC>CTT	p.L112L		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	112	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AAATGAAATCGAGGATCTGGG	0.542													28	86					0	0	1	0	0		A	14018807	A	A	14018807	2	1	211	1	0	0	0	0	0	0	0	1	6796	1045	37	1		1	GRIN2B	12	14018807	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3063929	14018807	119833088	1101	102980											
ITPR2	3709	broad.mit.edu	37	chr12	26752212	26752212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaagtgttgtacaactctctCgctaatttcgttgcacagat	11	14	7	9	2	1	1	0	0	1	1	4	1	1	1	0	0	3	5	0	0	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:26752212C>T	uc001rhg.2	-	30	4285	c.3868G>A	c.(3868-3870)GAG>AAG	p.E1290K		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	1290	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					ACAACTCTCTCGCTAATTTCG	0.433													40	97					0	0	1	0	0		T	26752212	T	T	26752212	3	4	211	1	0	0	0	0	1	0	0	0	7937	893	31	1	4349	1	ITPR2	12	26752212	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	12733405	26752212	107099683	1102	102981											
KIF21A	55605	broad.mit.edu	37	chr12	39734129	39734129	+	Frame_Shift_Del	DEL	T	-	-																															ttttcatattcagacctaacTttttttgctttttcttctga																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:39734129delT	uc001rly.2	-	16	2294	c.2148delA	c.(2146-2148)AAAfs	p.K716fs	KIF21A_uc001rlw.2_Frame_Shift_Del_p.K33fs|KIF21A_uc001rlx.2_Frame_Shift_Del_p.K703fs|KIF21A_uc001rlz.2_Frame_Shift_Del_p.K703fs|KIF21A_uc010skl.1_Frame_Shift_Del_p.K703fs	NM_017641	NP_060111	Q7Z4S6	KI21A_HUMAN	kinesin family member 21A	716					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(4)|pancreas(1)|lung(1)|skin(1)	7		Lung NSC(34;0.179)|all_lung(34;0.213)				CAGACCTAACTTTTTTTGCTT	0.343													10	22	---	---	---	---						.	-	39734129	-	-	39734129	7	5	211	1	0	1	0	1	0	0	0	0	8304	1606	56	0	2968	0	KIF21A	12	39734129	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	12981917	39734129	94117766	1103	102982											
PRICKLE1	144165	broad.mit.edu	37	chr12	42854129	42854129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctctcttcaaaattgtagaCgcgtctccgagtcctttcac	8	13	6	14	3	4	1	2	0	2	1	7	2	5	1	3	0	0	1	3	0	3	4	rs143947284	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:42854129C>T	uc010skv.1	-	8	2265	c.1978G>A	c.(1978-1980)GTC>ATC	p.V660I	PRICKLE1_uc001rnl.2_Missense_Mutation_p.V660I|PRICKLE1_uc010skw.1_Missense_Mutation_p.V660I|PRICKLE1_uc001rnm.2_Missense_Mutation_p.V660I|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	660	Arg/His-rich.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		AAATTGTAGACGCGTCTCCGA	0.507													10	48					0	0	1	0	0		T	42854129	T	T	42854129	3	4	211	1	0	0	0	0	1	0	0	0	12508	536	19	1	521	1	PRICKLE1	12	42854129	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3120000	42854129	90997766	1104	102983											
ARID2	196528	broad.mit.edu	37	chr12	46230679	46230679	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttaagctcttggcagctaatCgtacctgtcttcgtttccta	7	16	7	11	2	2	0	0	0	2	0	5	0	3	0	2	1	3	5	2	1	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:46230679C>T	uc001ros.1	+	8	928	c.928C>T	c.(928-930)CGT>TGT	p.R310C	ARID2_uc001ror.2_Missense_Mutation_p.R310C|ARID2_uc009zkg.1_5'UTR|ARID2_uc009zkh.1_5'Flank|ARID2_uc001rot.1_5'UTR	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	310					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(6)|skin(3)|upper_aerodigestive_tract(1)	10	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GGCAGCTAATCGTACCTGTCT	0.403													34	68					0	0	1	0	0		T	46230679	T	T	46230679	3	4	211	1	0	0	0	0	1	0	0	0	915	884	31	1	958	1	ARID2	12	46230679	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3376550	46230679	87621216	1105	102984											
PFKM	5213	broad.mit.edu	37	chr12	48534550	48534550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaacgtgggggctccggctGcaggcatgaatgctgctgtt	6	10	16	9	2	0	2	0	2	0	0	1	2	1	2	1	4	4	7	1	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:48534550G>A	uc001rrc.2	+	14	1407	c.1237G>A	c.(1237-1239)GCA>ACA	p.A413T	PFKM_uc001rra.1_Missense_Mutation_p.A98T|PFKM_uc001rrb.1_Missense_Mutation_p.A484T|PFKM_uc001rrd.2_Missense_Mutation_p.A98T|PFKM_uc001rre.1_Missense_Mutation_p.A413T|PFKM_uc001rrg.1_Missense_Mutation_p.A382T	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	413					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						GGCTCCGGCTGCAGGCATGAA	0.577													28	71					0	0	1	0	0		A	48534550	A	A	48534550	3	1	211	1	0	0	0	0	1	0	0	0	11784	1319	46	2	1508	2	PFKM	12	48534550	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2303871	48534550	85317345	1106	102985											
CCDC65	85478	broad.mit.edu	37	chr12	49312541	49312541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatgagaaccggtatatccGtaatgacaaggaattggtcc	14	9	11	7	2	0	3	0	2	0	2	2	5	2	4	3	3	1	2	3	3	6	4	rs143876144	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:49312541G>A	uc001rso.2	+	6	1108	c.881G>A	c.(880-882)CGT>CAT	p.R294H		NM_033124	NP_149115	Q8IXS2	CCD65_HUMAN	coiled-coil domain containing 65	294										ovary(1)|skin(1)	2						CGGTATATCCGTAATGACAAG	0.463													24	46					0	0	1	0	0		A	49312541	A	A	49312541	3	1	211	1	0	0	0	0	1	0	0	0	2840	1145	40	1	903	1	CCDC65	12	49312541	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	777991	49312541	84539354	1107	102986											
NCKAP5L	57701	broad.mit.edu	37	chr12	50195699	50195699	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcagcatctggttctgccGttccaggtcaaacactctct	8	12	7	14	1	5	0	2	0	3	0	7	0	6	0	2	2	3	3	2	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:50195699G>T	uc009zlk.2	-	6	485	c.283C>A	c.(283-285)CGG>AGG	p.R95R		NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	91	Potential.									central_nervous_system(1)	1						TGGTTCTGCCGTTCCAGGTCA	0.587													18	74					8.04996e-18	8.78066e-18	1	1	0		T	50195699	T	T	50195699	2	4	211	1	0	0	0	0	0	0	0	1	10243	1144	40	5		5	NCKAP5L	12	50195699	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	883158	50195699	83656196	1108	102987											
AQP6	363	broad.mit.edu	37	chr12	50367197	50367197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaaggccagcggggcccacGccaaccccgccgtgacgctg	7	2	15	17	5	0	1	0	1	0	0	0	2	0	2	6	4	2	1	6	4	2	0	rs116856189		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:50367197G>A	uc001rvr.1	+	1	578	c.241G>A	c.(241-243)GCC>ACC	p.A81T	AQP6_uc001rvp.1_Intron|AQP6_uc001rvq.1_RNA	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6	81	Cytoplasmic (Potential).				excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						CGGGGCCCACGCCAACCCCGC	0.672													16	65					0	0	1	0	0		A	50367197	A	A	50367197	3	1	211	1	0	0	0	0	1	0	0	0	830	1087	38	1	243	1	AQP6	12	50367197	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	171498	50367197	83484698	1109	102988											
GPD1	2819	broad.mit.edu	37	chr12	50501398	50501398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgatggcctgggctttggcGacaacaccaaggcggcagtg	8	7	16	10	2	0	1	0	1	0	0	0	2	0	1	2	5	1	2	2	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:50501398G>A	uc001rvz.2	+	6	694	c.661G>A	c.(661-663)GAC>AAC	p.D221N	GPD1_uc001rwa.2_Missense_Mutation_p.D198N	NM_005276	NP_005267	P21695	GPDA_HUMAN	glycerol-3-phosphate dehydrogenase 1 (soluble)	221					glycerol-3-phosphate catabolic process|triglyceride biosynthetic process	cytosol|glycerol-3-phosphate dehydrogenase complex	glycerol-3-phosphate dehydrogenase|protein homodimerization activity				0					NADH(DB00157)	GGGCTTTGGCGACAACACCAA	0.582													45	139					0	0	1	0	0		A	50501398	A	A	50501398	3	1	211	1	0	0	0	0	1	0	0	0	6619	1058	37	1	683	1	GPD1	12	50501398	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	134201	50501398	83350497	1110	102989											
DAZAP2	9802	broad.mit.edu	37	chr12	51636173	51636173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagtcatgcagggagccaaCgtcctcgtaactcagcggaa	11	6	12	12	3	2	0	2	0	0	0	4	2	3	2	2	2	5	3	2	2	3	1	rs149578797		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:51636173C>T	uc010snd.1	+	4	545	c.361C>T	c.(361-363)CGT>TGT	p.R121C	DAZAP2_uc001ryb.2_Silent_p.N124N|DAZAP2_uc010snc.1_Silent_p.N64N|DAZAP2_uc010sne.1_Silent_p.N114N|DAZAP2_uc010snf.1_Intron	NM_001136266	NP_001129738	Q15038	DAZP2_HUMAN	DAZ associated protein 2 isoform c	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							WW domain binding				0						AGGGAGCCAACGTCCTCGTAA	0.557													63	208					0	0	1	0	0		T	51636173	T	T	51636173	3	4	211	1	0	0	0	0	1	0	0	0	4248	536	19	1	452	1	DAZAP2	12	51636173	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1134775	51636173	82215722	1111	102990											
KRT1	3848	broad.mit.edu	37	chr12	53069361	53069361	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccaccgccgccacctcctcgGctgccacctccactgatggt	5	7	8	21	3	0	1	0	1	0	0	3	1	2	1	9	2	1	1	9	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:53069361G>A	uc001sau.1	-	9	1610	c.1551C>T	c.(1549-1551)AGC>AGT	p.S517S	KRT1_uc001sav.1_Silent_p.S517S	NM_006121	NP_006112	P04264	K2C1_HUMAN	keratin 1	517	Gly/Ser-rich.|Tail.				complement activation, lectin pathway|epidermis development|fibrinolysis|regulation of angiogenesis|response to oxidative stress	plasma membrane	protein binding|receptor activity|structural constituent of cytoskeleton|sugar binding			ovary(1)|skin(1)	2						cacctcctcggctgccacctc	0.219													15	42					0	0	1	0	0		A	53069361	A	A	53069361	2	1	211	1	0	0	0	0	0	0	0	1	8463	1194	42	2		2	KRT1	12	53069361	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1433188	53069361	80782534	1112	102991											
KRT3	3850	broad.mit.edu	37	chr12	53188043	53188043	+	Missense_Mutation	SNP	A	G	G	1	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	gttgtttgtgcctgagatggAacttgtgccctgctgctgga	5	14	14	8	0	0	1	0	1	0	1	0	4	0	3	2	2	5	4	2	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:53188043A>G	uc001say.2	-	2	784	c.718T>C	c.(718-720)TCC>CCC	p.S240P		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	240	Rod.|Linker 1.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						CCTGAGATGGAACTTGTGCCC	0.542													32	93					0	0	1	0	0		G	53188043	G	G	53188043	3	3	211	1	0	0	0	0	1	0	0	0	8482	246	9	3	1200	3	KRT3	12	53188043	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	118682	53188043	80663852	1113	102992											
ZNF740	283337	broad.mit.edu	37	chr12	53580194	53580194	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgagaagccatttgaatgCgatatatgtgatatgcgttt	11	14	12	4	2	0	3	0	3	0	1	0	5	0	3	1	1	3	1	1	1	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:53580194C>T	uc001scb.3	+	6	787	c.393C>T	c.(391-393)TGC>TGT	p.C131C		NM_001004304	NP_001004304	Q8NDX6	ZN740_HUMAN	zinc finger protein 740	131	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|protein binding|zinc ion binding				0						CATTTGAATGCGATATATGTG	0.483													5	7					0	0	1	0	0		T	53580194	T	T	53580194	2	4	211	1	0	0	0	0	0	0	0	1	18153	776	27	1		1	ZNF740	12	53580194	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	392151	53580194	80271701	1114	102993											
C12orf10	60314	broad.mit.edu	37	chr12	53700604	53700604	+	Silent	SNP	A	G	G	1	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	gaccaggctggacagtggcgAatacagtgtgtgcccaagga	11	6	15	9	1	0	0	0	0	0	0	0	4	0	2	2	4	2	1	2	4	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:53700604A>G	uc001scp.3	+	6	958	c.906A>G	c.(904-906)CGA>CGG	p.R302R	C12orf10_uc009zmx.2_Silent_p.R251R|C12orf10_uc001scq.3_Silent_p.R187R	NM_021640	NP_067653	Q86UA3	Q86UA3_HUMAN	MYG1 protein precursor	302										ovary(2)	2						GACAGTGGCGAATACAGTGTG	0.552													25	86					0	0	1	0	0		G	53700604	G	G	53700604	2	3	211	1	0	0	0	0	0	0	0	1	1677	233	9	3		3	C12orf10	12	53700604	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	120410	53700604	80151291	1115	102994											
HOXC5	3222	broad.mit.edu	37	chr12	54428192	54428192	+	Silent	SNP	T	C	C	0	1	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	gccaacaacttgtgtctcaaTgagagacagatcaagatctg	14	9	9	9	0	3	4	2	1	2	3	4	5	3	4	1	0	2	0	1	0	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:54428192T>C	uc001sew.2	+	2	660	c.585T>C	c.(583-585)AAT>AAC	p.N195N	HOXC5_uc001set.2_RNA|HOXC4_uc001seu.2_Intron	NM_018953	NP_061826	Q00444	HXC5_HUMAN	homeobox C5	195	Homeobox.				regulation of transcription from RNA polymerase II promoter	cell junction|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGTGTCTCAATGAGAGACAGA	0.502													31	56					0	0	1	0	0		C	54428192	C	C	54428192	2	2	211	1	0	0	0	0	0	0	0	1	7330	1461	51	3		3	HOXC5	12	54428192	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	727588	54428192	79423703	1116	102995											
HOXC4	3221	broad.mit.edu	37	chr12	54447822	54447822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtccggaatattacggccGgaccagggaatcgggattcc	10	7	13	11	4	0	0	0	0	0	0	3	4	2	4	4	5	1	0	4	5	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:54447822G>A	uc001seu.2	+	3	796	c.116G>A	c.(115-117)CGG>CAG	p.R39Q	HOXC4_uc001sex.2_Missense_Mutation_p.R39Q	NM_014620	NP_055435	P09017	HXC4_HUMAN	homeobox C4	39						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TATTACGGCCGGACCAGGGAA	0.527													51	198					0	0	1	0	0		A	54447822	A	A	54447822	3	1	211	1	0	0	0	0	1	0	0	0	7329	1116	39	1	118	1	HOXC4	12	54447822	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	19630	54447822	79404073	1117	102996											
SMUG1	23583	broad.mit.edu	37	chr12	54576169	54576169	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctcagcaggagtaaggttgCgcccgctgggagccaggaaa	10	5	16	10	2	1	0	1	0	0	0	1	3	1	3	2	4	3	5	2	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:54576169C>T	uc001sff.1	-	4	653	c.524G>A	c.(523-525)CGC>CAC	p.R175H	SMUG1_uc001sfa.1_5'Flank|SMUG1_uc001sfe.1_3'UTR|SMUG1_uc001sfg.1_Missense_Mutation_p.R175H|SMUG1_uc009znf.1_Missense_Mutation_p.R175H|SMUG1_uc001sfb.3_Intron|SMUG1_uc001sfc.3_Intron|SMUG1_uc001sfd.3_Intron	NM_014311	NP_055126	Q53HV7	SMUG1_HUMAN	single-strand-selective monofunctional	175	DNA binding (By similarity).				depyrimidination	nucleolus|nucleoplasm	DNA binding|protein binding|single-strand selective uracil DNA N-glycosylase activity				0						AGTAAGGTTGCGCCCGCTGGG	0.592								BER_DNA_glycosylases					22	80					0	0	1	0	0		T	54576169	T	T	54576169	3	4	211	1	0	0	0	0	1	0	0	0	14843	768	27	1	292	1	SMUG1	12	54576169	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	128347	54576169	79275726	1118	102997											
KIAA0748	9840	broad.mit.edu	37	chr12	55356472	55356472	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccttatctgagctgggtctgTgctccactgtggatcttcta	5	15	10	11	0	4	1	0	1	4	0	5	2	5	2	2	2	2	2	2	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:55356472T>C	uc001sgn.3	-	9	1320	c.1210A>G	c.(1210-1212)ACA>GCA	p.T404A	KIAA0748_uc001sgl.3_Missense_Mutation_p.T266A|KIAA0748_uc001sgm.3_Missense_Mutation_p.T151A|KIAA0748_uc010spb.1_Missense_Mutation_p.T151A|KIAA0748_uc010spc.1_Missense_Mutation_p.T266A|KIAA0748_uc010spd.1_Missense_Mutation_p.T404A|KIAA0748_uc001sgo.3_RNA	NM_001098815	NP_001092285	A2RU30	K0748_HUMAN	hypothetical protein LOC9840	404										ovary(1)|central_nervous_system(1)	2						GCTGGGTCTGTGCTCCACTGT	0.512													26	76					0	0	1	0	0		C	55356472	C	C	55356472	3	2	211	1	0	0	0	0	1	0	0	0	8206	1696	59	3	363	3	KIAA0748	12	55356472	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	780303	55356472	78495423	1119	102998											
OBFC2B	79035	broad.mit.edu	37	chr12	56622933	56622933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaccacacacctgcaggccCgcctggcccttccagcaacc	9	4	7	21	1	0	0	0	0	0	0	1	0	1	0	7	2	4	2	7	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:56622933C>T	uc001ski.2	+	7	696	c.572C>T	c.(571-573)CCG>CTG	p.P191L	OBFC2B_uc001skk.2_Missense_Mutation_p.P216L|OBFC2B_uc001skj.2_Missense_Mutation_p.P207L	NM_024068	NP_076973	Q9BQ15	SOSB1_HUMAN	oligonucleotide/oligosaccharide-binding fold	191	Pro-rich.				double-strand break repair via homologous recombination|G2/M transition checkpoint|response to ionizing radiation	SOSS complex	protein binding|single-stranded DNA binding			ovary(1)	1						CCTGCAGGCCCGCCTGGCCCT	0.607								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					20	65					0	0	1	0	0		T	56622933	T	T	56622933	3	4	211	1	0	0	0	0	1	0	0	0	10828	652	23	1	594	1	OBFC2B	12	56622933	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1266461	56622933	77228962	1120	102999											
TIMELESS	8914	broad.mit.edu	37	chr12	56822112	56822112	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtcacgaaggaaagagcGgggctggcatctctcatcaa	12	6	13	10	2	4	1	3	0	1	1	5	3	4	2	0	5	1	2	0	5	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:56822112G>A	uc001slf.2	-	13	1654	c.1486C>T	c.(1486-1488)CGC>TGC	p.R496C	TIMELESS_uc001slg.2_Missense_Mutation_p.R495C	NM_003920	NP_003911	Q9UNS1	TIM_HUMAN	timeless homolog	496					cell division|circadian rhythm|detection of abiotic stimulus|mitosis|morphogenesis of an epithelium|negative regulation of transcription, DNA-dependent|regulation of S phase|response to DNA damage stimulus|transcription, DNA-dependent	nuclear chromatin				ovary(5)|breast(2)|pancreas(1)	8						AGGAAAGAGCGGGGCTGGCAT	0.512													21	58					0	0	1	0	0		A	56822112	A	A	56822112	3	1	211	1	0	0	0	0	1	0	0	0	15929	1116	39	1	2208	1	TIMELESS	12	56822112	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	199179	56822112	77029783	1121	103000											
GPR182	11318	broad.mit.edu	37	chr12	57389756	57389756	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggacaacccaagagccggCgccactgcctgctgctgtgc	8	5	12	16	2	0	1	0	0	0	1	0	2	0	2	4	2	6	2	4	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:57389756C>T	uc001smk.2	+	2	857	c.763C>T	c.(763-765)CGC>TGC	p.R255C	RDH16_uc010sqx.1_Intron	NM_007264	NP_009195	O15218	GP182_HUMAN	G protein-coupled receptor 182	255	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(1)	1						CAAGAGCCGGCGCCACTGCCT	0.622													21	59					0	0	1	0	0		T	57389756	T	T	57389756	3	4	211	1	0	0	0	0	1	0	0	0	6692	768	27	1	765	1	GPR182	12	57389756	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	567644	57389756	76462139	1122	103001											
SRGAP1	57522	broad.mit.edu	37	chr12	64502736	64502736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agataatctctatgagagggCgcttcacatccgcaaactcc	12	9	8	12	2	2	2	1	1	1	2	5	3	4	2	2	1	1	2	2	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:64502736C>T	uc010ssp.1	+	16	1894	c.1838C>T	c.(1837-1839)GCG>GTG	p.A613V	SRGAP1_uc001srv.2_Missense_Mutation_p.A550V	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	613	Rho-GAP.				axon guidance	cytosol		p.A613V(1)		ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		TATGAGAGGGCGCTTCACATC	0.443													32	78					0	0	1	0	0		T	64502736	T	T	64502736	3	4	211	1	0	0	0	0	1	0	0	0	15170	768	27	1	1900	1	SRGAP1	12	64502736	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7112980	64502736	69349159	1123	103002											
GRIP1	23426	broad.mit.edu	37	chr12	66935616	66935616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagcagcaattcctccttgcCgcagattagatactcttggc	9	12	8	12	1	1	2	0	0	1	2	3	2	3	2	3	1	4	3	3	1	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:66935616C>T	uc001stk.2	-	3	492	c.251G>A	c.(250-252)CGG>CAG	p.R84Q	GRIP1_uc010sta.1_Missense_Mutation_p.R28Q|GRIP1_uc001stl.1_Missense_Mutation_p.R28Q|GRIP1_uc001stm.2_Missense_Mutation_p.R84Q	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	84	PDZ 1.				androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TCCTCCTTGCCGCAGATTAGA	0.463													47	168					0	0	1	0	0		T	66935616	T	T	66935616	3	4	211	1	0	0	0	0	1	0	0	0	6803	652	23	1	3067	1	GRIP1	12	66935616	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2432880	66935616	66916279	1124	103003											
IL26	55801	broad.mit.edu	37	chr12	68595796	68595796	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tataaggatttagaattcttAccctataaaatattcttttc	14	18	3	6	0	2	1	0	0	2	1	3	2	2	2	1	1	1	0	1	1	9	12			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:68595796A>G	uc001stx.1	-	4	464	c.429_splice	c.e4+1	p.R143_splice		NM_018402	NP_060872	Q9NPH9	IL26_HUMAN	interleukin 26 precursor						cell-cell signaling|negative regulation of epithelial cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of JAK-STAT cascade|positive regulation of protein kinase B signaling cascade|positive regulation of stress-activated MAPK cascade|positive regulation of transcription from RNA polymerase II promoter	cytosol|extracellular space|soluble fraction	cytokine activity				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000515)		TAGAATTCTTACCCTATAAAA	0.269													3	17					0	0	1	0	0		G	68595796	G	G	68595796	5	3	211	1	0	0	0	0	0	0	1	0	7695	405	14	3	92	3	IL26	12	68595796	Splice_Site	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1660180	68595796	65256099	1125	103004											
PTPRB	5787	broad.mit.edu	37	chr12	70963466	70963466	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatgcttacctgtccgcccaAccacatttatctgattcttc	8	14	5	14	1	2	1	0	1	2	0	4	2	3	1	4	0	3	1	4	0	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:70963466A>G	uc001swb.3	-	12	2999	c.2969T>C	c.(2968-2970)GTT>GCT	p.V990A	PTPRB_uc010sto.1_Missense_Mutation_p.V990A|PTPRB_uc010stp.1_Missense_Mutation_p.V900A|PTPRB_uc001swc.3_Missense_Mutation_p.V1208A|PTPRB_uc001swa.3_Missense_Mutation_p.V1120A|PTPRB_uc001swd.3_Missense_Mutation_p.V1207A|PTPRB_uc009zrr.1_Missense_Mutation_p.V1087A	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	990	Fibronectin type-III 11.|Extracellular (Potential).				angiogenesis	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(2)|skin(1)	3	Renal(347;0.236)		GBM - Glioblastoma multiforme(2;2.17e-05)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00306)|STAD - Stomach adenocarcinoma(21;0.149)			TGTCCGCCCAACCACATTTAT	0.517													19	47					0	0	1	0	0		G	70963466	G	G	70963466	3	3	211	1	0	0	0	0	1	0	0	0	12821	43	2	3	3108	3	PTPRB	12	70963466	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2367670	70963466	62888429	1126	103005											
THAP2	83591	broad.mit.edu	37	chr12	72068121	72068121	+	Silent	SNP	A	G	G	1	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	ctaacaggacaaactcgacgActtaaaatggatgctgttcc	14	9	8	10	2	0	0	0	0	0	0	2	4	1	2	1	2	3	2	1	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:72068121A>G	uc001swq.2	+	2	716	c.210A>G	c.(208-210)CGA>CGG	p.R70R		NM_031435	NP_113623	Q9H0W7	THAP2_HUMAN	THAP domain containing, apoptosis associated	70	THAP-type.					nucleolus	DNA binding|metal ion binding			ovary(1)	1						AAACTCGACGACTTAAAATGG	0.373													9	68					0	0	1	0	0		G	72068121	G	G	72068121	2	3	211	1	0	0	0	0	0	0	0	1	15869	262	10	3		3	THAP2	12	72068121	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1104655	72068121	61783774	1127	103006											
KCNC2	3747	broad.mit.edu	37	chr12	75441991	75441991	+	Silent	SNP	T	C	C	0	1	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	cctgtcgtcagtaggaaacaTgtttcccctcttctgttttt	6	17	7	11	1	3	0	1	0	2	0	5	1	4	1	3	1	1	3	3	1	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:75441991T>C	uc001sxg.1	-	4	2266	c.1722A>G	c.(1720-1722)ACA>ACG	p.T574T	KCNC2_uc009zry.2_Silent_p.T574T|KCNC2_uc001sxe.2_Silent_p.T574T|KCNC2_uc001sxf.2_Intron|KCNC2_uc010stw.1_Intron	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	574	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						GTAGGAAACATGTTTCCCCTC	0.488													39	105					0	0	1	0	0		C	75441991	C	C	75441991	2	2	211	1	0	0	0	0	0	0	0	1	8031	1451	51	3		3	KCNC2	12	75441991	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3373870	75441991	58409904	1128	103007											
GLIPR1L2	144321	broad.mit.edu	37	chr12	75807475	75807475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aattttcatatgcaactatgCgccagggtaagttacttaaa	14	13	7	7	1	1	0	1	0	0	0	1	0	1	0	1	1	4	3	1	1	8	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:75807475C>T	uc001sxr.1	+	3	586	c.578C>T	c.(577-579)GCG>GTG	p.A193V	GLIPR1L2_uc001sxp.1_Missense_Mutation_p.A193V|GLIPR1L2_uc001sxq.1_Missense_Mutation_p.A86V	NM_152436	NP_689649	Q4G1C9	GRPL2_HUMAN	GLI pathogenesis-related 1 like 2	193						integral to membrane				ovary(1)	1						TGCAACTATGCGCCAGGGTAA	0.289													33	81					0	0	1	0	0		T	75807475	T	T	75807475	3	4	211	1	0	0	0	0	1	0	0	0	6458	768	27	1	588	1	GLIPR1L2	12	75807475	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	365484	75807475	58044420	1129	103008											
NAV3	89795	broad.mit.edu	37	chr12	78516178	78516178	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagagcctgctcatgagaaCgggtagtgtgagatctactc	10	9	12	10	1	2	3	1	2	1	3	3	5	2	3	2	1	4	2	2	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:78516178C>T	uc001syp.2	+	16	4381	c.4208C>T	c.(4207-4209)ACG>ATG	p.T1403M	NAV3_uc001syo.2_Missense_Mutation_p.T1403M|NAV3_uc010sub.1_Missense_Mutation_p.T903M|NAV3_uc009zsf.2_Intron	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1403	Ser-rich.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTCATGAGAACGGGTAGTGTG	0.552										HNSCC(70;0.22)			19	80					0	0	1	0	0		T	78516178	T	T	78516178	3	4	211	1	0	0	0	0	1	0	0	0	10203	536	19	1	4270	1	NAV3	12	78516178	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2708703	78516178	55335717	1130	103009											
LIN7A	8825	broad.mit.edu	37	chr12	81242079	81242079	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacagccattaacagttatcGtttcatgcatatattgatac	13	14	6	8	1	1	1	1	1	0	0	2	2	1	1	1	0	4	3	1	0	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:81242079G>A	uc001szj.1	-	3	417	c.224C>T	c.(223-225)ACG>ATG	p.T75M	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	75	L27.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						AACAGTTATCGTTTCATGCAT	0.323													9	22					0	0	1	0	0		A	81242079	A	A	81242079	3	1	211	1	0	0	0	0	1	0	0	0	8827	1145	40	1	489	1	LIN7A	12	81242079	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2725901	81242079	52609816	1131	103010											
PPFIA2	8499	broad.mit.edu	37	chr12	81833764	81833764	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggttacctcctgattagcaGcagctagttcttcttccagt	8	14	8	11	0	2	1	0	1	2	0	4	1	4	1	3	1	4	5	3	1	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:81833764G>A	uc001szo.1	-	7	793	c.632C>T	c.(631-633)GCT>GTT	p.A211V	PPFIA2_uc010sue.1_Missense_Mutation_p.A111V|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_Intron|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	137										ovary(3)|lung(2)|pancreas(1)	6						CTGATTAGCAGCAGCTAGTTC	0.413													5	49					0	0	1	0	0		A	81833764	A	A	81833764	3	1	211	1	0	0	0	0	1	0	0	0	12329	971	34	2	3245	2	PPFIA2	12	81833764	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	591685	81833764	52018131	1132	103011											
UBE2N	7334	broad.mit.edu	37	chr12	93804898	93804898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaattttggtcatgaaacGtactttaggggctgccattg	11	14	10	6	1	1	1	1	1	0	0	1	1	1	1	1	3	3	2	1	3	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:93804898G>A	uc001tcp.2	-	2	574	c.208C>T	c.(208-210)CGT>TGT	p.R70C		NM_003348	NP_003339	P61088	UBE2N_HUMAN	ubiquitin-conjugating enzyme E2N	70					DNA double-strand break processing|double-strand break repair via homologous recombination|histone ubiquitination|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of DNA repair|positive regulation of histone modification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity|postreplication repair|protein K63-linked ubiquitination|proteolysis|regulation of histone ubiquitination|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleus|UBC13-MMS2 complex|UBC13-UEV1A complex|ubiquitin ligase complex	ATP binding|ubiquitin binding|ubiquitin-protein ligase activity				0						GTCATGAAACGTACTTTAGGG	0.388								Direct_reversal_of_damage|Rad6_pathway					21	64					0	0	1	0	0		A	93804898	A	A	93804898	3	1	211	1	0	0	0	0	1	0	0	0	16892	1145	40	1	262	1	UBE2N	12	93804898	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	11971134	93804898	40046997	1133	103012											
TMCC3	57458	broad.mit.edu	37	chr12	94975589	94975589	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccccaaacgactggtttccGttactgtcggccgagcctga	7	9	11	14	4	0	1	0	1	0	0	2	3	1	1	5	2	3	2	5	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:94975589G>A	uc001tdj.2	-	2	922	c.804C>T	c.(802-804)AAC>AAT	p.N268N	TMCC3_uc001tdi.2_Silent_p.N237N	NM_020698	NP_065749	Q9ULS5	TMCC3_HUMAN	transmembrane and coiled-coil domain family 3	268						integral to membrane				ovary(1)|skin(1)	2						ACTGGTTTCCGTTACTGTCGG	0.592													26	103					0	0	1	0	0		A	94975589	A	A	94975589	2	1	211	1	0	0	0	0	0	0	0	1	16019	1136	40	1		1	TMCC3	12	94975589	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1170691	94975589	38876306	1134	103013											
C12orf63	374467	broad.mit.edu	37	chr12	97045387	97045387	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttcttgctcatcgtggtggcTattggactctgcttcagaac	6	15	10	10	1	4	1	2	0	2	1	5	2	4	2	0	3	3	3	0	3	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:97045387T>C	uc001tet.1	+	3	247	c.169T>C	c.(169-171)TAT>CAT	p.Y57H		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467	57										skin(6)|ovary(1)	7						TCGTGGTGGCTATTGGACTCT	0.383													19	61					0	0	1	0	0		C	97045387	C	C	97045387	3	2	211	1	0	0	0	0	1	0	0	0	1709	1522	53	3	175	3	C12orf63	12	97045387	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2069798	97045387	36806508	1135	103014											
ANKS1B	56899	broad.mit.edu	37	chr12	99447056	99447056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccactcagctacagaggtgGgatggtagccatcatgccca	10	7	12	12	0	2	1	2	0	0	1	2	2	2	2	3	3	4	2	3	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:99447056G>A	uc001tge.1	-	17	3074	c.2657C>T	c.(2656-2658)CCC>CTC	p.P886L	ANKS1B_uc001tgf.1_Missense_Mutation_p.P462L|ANKS1B_uc001tgk.2_Missense_Mutation_p.P183L|ANKS1B_uc001tgd.1_Missense_Mutation_p.P112L|ANKS1B_uc001tgi.2_Missense_Mutation_p.P112L|ANKS1B_uc009ztr.2_Missense_Mutation_p.P112L|ANKS1B_uc001tgj.2_Missense_Mutation_p.P112L|ANKS1B_uc001tgg.3_Missense_Mutation_p.P55L|ANKS1B_uc010svg.1_Missense_Mutation_p.P81L|ANKS1B_uc009zts.1_Missense_Mutation_p.P112L|ANKS1B_uc001tgm.1_Missense_Mutation_p.P112L	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	886	SAM 2.					Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TACAGAGGTGGGATGGTAGCC	0.413													9	14					0	0	1	0	0		A	99447056	A	A	99447056	3	1	211	1	0	0	0	0	1	0	0	0	689	1232	43	4	1320	4	ANKS1B	12	99447056	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2401669	99447056	34404839	1136	103015											
ANO4	121601	broad.mit.edu	37	chr12	101504234	101504234	+	Silent	SNP	A	T	T	1	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	gcagcttttcccctagcaccActtctggccttactgaataa	9	12	6	14	0	1	1	0	1	1	0	2	1	2	1	4	1	3	3	4	1	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:101504234A>T	uc010svm.1	+	23	2774	c.2202A>T	c.(2200-2202)CCA>CCT	p.P734P	ANO4_uc001thw.2_Silent_p.P699P|ANO4_uc001thx.2_Silent_p.P734P|ANO4_uc001thy.2_Silent_p.P254P	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	734	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						CCCTAGCACCACTTCTGGCCT	0.388										HNSCC(74;0.22)			24	54					0	0	1	0	0		T	101504234	T	T	101504234	2	4	211	1	0	0	0	0	0	0	0	1	699	146	6	5		5	ANO4	12	101504234	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2057178	101504234	32347661	1137	103016											
ASCL1	429	broad.mit.edu	37	chr12	103352210	103352210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagcagcagcagcagcaggCgccgcagctgagaccggcgg	9	1	17	14	4	0	1	0	1	0	1	0	2	0	1	2	3	6	8	2	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:103352210C>T	uc001tjr.3	+	1	759	c.188C>T	c.(187-189)GCG>GTG	p.A63V		NM_004316	NP_004307	P50553	ASCL1_HUMAN	achaete-scute complex homolog 1	63					cerebral cortex GABAergic interneuron differentiation|negative regulation of apoptosis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|noradrenergic neuron fate commitment|Notch signaling pathway|positive regulation of neuron differentiation|positive regulation of transcription from RNA polymerase II promoter|response to retinoic acid|sympathetic nervous system development	nucleus	bHLH transcription factor binding|E-box binding|sequence-specific DNA binding transcription factor activity|transcription factor binding transcription factor activity				0						cagcagcagGCGCCGCAGCTG	0.408													2	1					0	0	1	0	0		T	103352210	T	T	103352210	3	4	211	1	0	0	0	0	1	0	0	0	1035	768	27	1	190	1	ASCL1	12	103352210	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1847976	103352210	30499685	1138	103017											
STAB2	55576	broad.mit.edu	37	chr12	104034015	104034015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaatgcaaattgcaccaccGtcgcaccaggccgaactgag	12	5	11	13	3	0	1	0	1	0	0	1	3	0	2	4	2	3	3	4	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:104034015G>A	uc001tjw.2	+	9	1207	c.1021G>A	c.(1021-1023)GTC>ATC	p.V341I		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	341	Extracellular (Potential).|EGF-like 5.				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						TTGCACCACCGTCGCACCAGG	0.403													23	97					0	0	1	0	0		A	104034015	A	A	104034015	3	1	211	1	0	0	0	0	1	0	0	0	15263	1145	40	1	1055	1	STAB2	12	104034015	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	681805	104034015	29817880	1139	103018											
POLR3B	55703	broad.mit.edu	37	chr12	106773822	106773822	+	Frame_Shift_Del	DEL	A	-	-																															ctcatagctctacccatgagAaaaaaagcagaaccaatatg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:106773822delA	uc001tlp.2	+	9	850	c.628delA	c.(628-630)AAAfs	p.K210fs	POLR3B_uc001tlq.2_Frame_Shift_Del_p.K152fs	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	210					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						TACCCATGAGAAAAAAAGCAG	0.333													16	29	---	---	---	---						.	-	106773822	-	-	106773822	7	5	211	1	0	1	0	1	0	0	0	0	12248	247	9	0	662	0	POLR3B	12	106773822	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2739807	106773822	27078073	1140	103019											
WSCD2	9671	broad.mit.edu	37	chr12	108626654	108626654	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagctactacttcgatGgctccctctacaacaaaggt	10	10	8	13	1	1	0	0	0	1	0	3	1	2	0	1	3	5	3	1	3	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:108626654G>T	uc001tms.2	+	7	1870	c.1126G>T	c.(1126-1128)GGC>TGC	p.G376C	WSCD2_uc001tmt.2_Missense_Mutation_p.G376C|WSCD2_uc001tmu.2_Missense_Mutation_p.G124C	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	376						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						CTACTTCGATGGCTCCCTCTA	0.577													19	33					5.26018e-13	5.66582e-13	1	1	0		T	108626654	T	T	108626654	3	4	211	1	0	0	0	0	1	0	0	0	17433	1348	47	5	1148	5	WSCD2	12	108626654	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1852832	108626654	25225241	1141	103020											
SART3	9733	broad.mit.edu	37	chr12	108924005	108924005	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttttcttcttttttaacGctttcttctcagcccgagct	4	21	4	12	2	5	0	1	0	5	0	6	1	5	0	1	0	3	2	1	0	1	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:108924005G>A	uc001tmz.1	-	15	2064	c.1829C>T	c.(1828-1830)GCG>GTG	p.A610V	SART3_uc001tmy.1_Missense_Mutation_p.A136V|SART3_uc009zux.1_Missense_Mutation_p.A222V|SART3_uc010swx.1_Missense_Mutation_p.A574V|SART3_uc010swy.1_Missense_Mutation_p.A496V|SART3_uc010swz.1_Missense_Mutation_p.A610V|SART3_uc001tna.1_RNA	NM_014706	NP_055521	Q15020	SART3_HUMAN	squamous cell carcinoma antigen recognized by T	610	Required for nuclear localization.|Potential.|Nuclear localization signal (Potential).				RNA processing	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding			pancreas(1)	1						CTTTTTTAACGCTTTCTTCTC	0.483									Porokeratosis				25	69					0	0	1	0	0		A	108924005	A	A	108924005	3	1	211	1	0	0	0	0	1	0	0	0	13872	1087	38	1	1082	1	SART3	12	108924005	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	297351	108924005	24927890	1142	103021											
ACACB	32	broad.mit.edu	37	chr12	109677751	109677751	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accgactgcaaccacatcttCctcaacttcgtgcccactgt	9	10	5	17	2	2	0	1	0	1	0	4	1	3	0	4	0	4	1	4	0	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:109677751C>A	uc001tob.2	+	35	4898	c.4779C>A	c.(4777-4779)TTC>TTA	p.F1593L	ACACB_uc001toc.2_Missense_Mutation_p.F1593L|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.F259L	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1593					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	ACCACATCTTCCTCAACTTCG	0.612													28	82					4.40665e-25	4.85589e-25	1	1	0		A	109677751	A	A	109677751	3	1	211	1	0	0	0	0	1	0	0	0	107	854	30	5	4913	5	ACACB	12	109677751	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	753746	109677751	24174144	1143	103022											
C12orf34	84915	broad.mit.edu	37	chr12	110206330	110206330	+	Missense_Mutation	SNP	T	C	C	0	1	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	accttccaacctgccctccaTccacagcctcctgtaccagc	8	8	4	21	0	0	0	0	0	0	0	4	0	4	0	9	0	5	1	9	0	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:110206330T>C	uc001tpd.1	+	3	1155	c.596T>C	c.(595-597)ATC>ACC	p.I199T	MGC14436_uc010sxs.1_Intron|MGC14436_uc001tpe.2_Intron|C12orf34_uc001tpf.1_Missense_Mutation_p.I199T	NM_032829	NP_116218	Q5U5X8	CL034_HUMAN	hypothetical protein LOC84915	199	Pro-rich.									ovary(1)	1						CTGCCCTCCATCCACAGCCTC	0.731													19	64					0	0	1	0	0		C	110206330	C	C	110206330	3	2	211	1	0	0	0	0	1	0	0	0	1684	1435	50	3	602	3	C12orf34	12	110206330	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	528579	110206330	23645565	1144	103023											
ANKRD13A	88455	broad.mit.edu	37	chr12	110450965	110450965	+	Missense_Mutation	SNP	A	G	G	1	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	tgagcactggcgatcctgagAtggtgtacacagttctccaa	10	10	11	10	1	1	2	0	2	1	1	3	4	2	2	2	2	2	3	2	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:110450965A>G	uc001tpx.2	+	3	524	c.265A>G	c.(265-267)ATG>GTG	p.M89V	ANKRD13A_uc009zvl.1_RNA|ANKRD13A_uc009zvm.1_Missense_Mutation_p.M89V|ANKRD13A_uc010sxw.1_Missense_Mutation_p.M89V	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13	89	ANK 2.										0						CGATCCTGAGATGGTGTACAC	0.433													16	51					0	0	1	0	0		G	110450965	G	G	110450965	3	3	211	1	0	0	0	0	1	0	0	0	641	333	12	3	275	3	ANKRD13A	12	110450965	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	244635	110450965	23400930	1145	103024											
ANAPC7	51434	broad.mit.edu	37	chr12	110812029	110812029	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccaggtccccttcttcccCactcccttccatgtcgtcca	4	12	4	21	1	1	0	0	0	1	0	8	0	7	0	8	1	0	0	8	1	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:110812029C>A	uc001tqo.2	-	11	1721	c.1720G>T	c.(1720-1722)GGG>TGG	p.G574W		NM_016238	NP_057322	Q9UJX3	APC7_HUMAN	anaphase-promoting complex subunit 7 isoform a	574					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	protein phosphatase binding				0						CCTTCTTCCCCACTCCCTTCC	0.622													21	45					1.01871e-10	1.08317e-10	1	1	0		A	110812029	A	A	110812029	3	1	211	1	0	0	0	0	1	0	0	0	606	594	21	5	83	5	ANAPC7	12	110812029	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	361064	110812029	23039866	1146	103025											
HVCN1	84329	broad.mit.edu	37	chr12	111088012	111088012	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggtgttgaatcttggcGgccaattgtacattcatctg	9	14	10	8	1	4	1	2	1	2	0	4	1	4	1	1	3	1	2	1	3	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:111088012G>A	uc001trs.1	-	7	882	c.717C>T	c.(715-717)GCC>GCT	p.A239A	HVCN1_uc001trq.1_Silent_p.A239A|HVCN1_uc001trt.1_Silent_p.A239A|HVCN1_uc010syd.1_Silent_p.A219A	NM_032369	NP_115745	Q96D96	HVCN1_HUMAN	hydrogen voltage-gated channel 1	239	Cytoplasmic (Potential).|Potential.				response to pH|response to zinc ion	integral to membrane	voltage-gated proton channel activity			skin(1)	1						GAATCTTGGCGGCCAATTGTA	0.348													18	54					0	0	1	0	0		A	111088012	A	A	111088012	2	1	211	1	0	0	0	0	0	0	0	1	7478	1103	39	1		1	HVCN1	12	111088012	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	275983	111088012	22763883	1147	103026											
MYL2	4633	broad.mit.edu	37	chr12	111356949	111356949	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctgttcgaacatggagaAcacgttggagttggcgcccc	8	9	14	10	3	1	1	0	0	1	1	2	4	1	2	2	4	2	3	2	4	2	3	rs104894370		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:111356949A>C	uc001try.3	-	2	123	c.52T>G	c.(52-54)TTC>GTC	p.F18V	MYL2_uc001trx.3_5'UTR	NM_000432	NP_000423	P10916	MLRV_HUMAN	slow cardiac myosin regulatory light chain 2	18					cardiac myofibril assembly|heart contraction|muscle filament sliding|negative regulation of cell growth|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	cytosol|myosin complex|sarcomere	actin monomer binding|calcium ion binding|myosin heavy chain binding|structural constituent of muscle			ovary(1)	1						AACATGGAGAACACGTTGGAG	0.507													12	36					0	0	1	0	0		C	111356949	C	C	111356949	3	2	211	1	0	0	0	0	1	0	0	0	10065	43	2	5	472	5	MYL2	12	111356949	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	268937	111356949	22494946	1148	103027											
C12orf51	283450	broad.mit.edu	37	chr12	112608179	112608179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaggtgatctcaggggccgCgtggtccgctgtcctctgca	5	9	14	13	3	2	1	1	1	2	0	5	1	4	1	3	4	1	2	3	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:112608179C>T	uc009zwc.2	-	62	10762	c.10744G>A	c.(10744-10746)GCG>ACG	p.A3582T		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TCAGGGGCCGCGTGGTCCGCT	0.552													9	40					0	0	1	0	0		T	112608179	T	T	112608179	3	4	211	1	0	0	0	0	1	0	0	0	1699	768	27	1	1278	1	C12orf51	12	112608179	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1251230	112608179	21243716	1149	103028											
C12orf51	283450	broad.mit.edu	37	chr12	112622719	112622719	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgcgcggtggaaccacagcaTgtcctcgggcttgctgcctc	5	9	13	14	3	0	0	0	0	0	0	3	1	1	1	3	3	5	3	3	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:112622719T>C	uc009zwc.2	-	54	8803	c.8785A>G	c.(8785-8787)ATG>GTG	p.M2929V		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						AACCACAGCATGTCCTCGGGC	0.667													15	33					0	0	1	0	0		C	112622719	C	C	112622719	3	2	211	1	0	0	0	0	1	0	0	0	1699	1464	51	3	3269	3	C12orf51	12	112622719	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	14540	112622719	21229176	1150	103029											
C12orf51	283450	broad.mit.edu	37	chr12	112630521	112630521	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttcgcttcactttgtggccGaggccatatacgagcacccg	7	11	10	13	4	1	0	1	0	0	0	2	2	1	0	3	2	2	2	3	2	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:112630521G>A	uc009zwc.2	-	52	7887	c.7869C>T	c.(7867-7869)CTC>CTT	p.L2623L		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CTTTGTGGCCGAGGCCATATA	0.612													3	10					0	0	1	0	0		A	112630521	A	A	112630521	2	1	211	1	0	0	0	0	0	0	0	1	1699	1045	37	1		1	C12orf51	12	112630521	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7802	112630521	21221374	1151	103030											
DTX1	1840	broad.mit.edu	37	chr12	113532597	113532597	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctgctgccacctgcaggacTgcaccatctgcatggagcga	8	7	11	15	1	1	0	0	0	1	0	1	3	1	2	4	2	6	4	4	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:113532597T>C	uc001tuk.1	+	6	1567	c.1231T>C	c.(1231-1233)TGC>CGC	p.C411R		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	411	RING-type.				negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						CCTGCAGGACTGCACCATCTG	0.672													8	31					0	0	1	0	0		C	113532597	C	C	113532597	3	2	211	1	0	0	0	0	1	0	0	0	4799	1580	55	3	1253	3	DTX1	12	113532597	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	902076	113532597	20319298	1152	103031											
DTX1	1840	broad.mit.edu	37	chr12	113534523	113534523	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtccctgtccccccaggtgCtgcggctgctcatcacggcc	3	9	11	18	2	2	0	2	0	0	0	4	0	4	0	5	3	3	3	5	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:113534523C>T	uc001tuk.1	+	9	1978	c.1642C>T	c.(1642-1644)CTG>TTG	p.L548L		NM_004416	NP_004407	Q86Y01	DTX1_HUMAN	deltex homolog 1	548					negative regulation of neuron differentiation|Notch signaling pathway|regulation of Notch signaling pathway|transcription from RNA polymerase II promoter	cytoplasm|nucleus	Notch binding|SH3 domain binding|transcription coactivator activity|ubiquitin protein ligase binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4						CCCCCAGGTGCTGCGGCTGCT	0.647													4	22					0	0	1	0	0		T	113534523	T	T	113534523	2	4	211	1	0	0	0	0	0	0	0	1	4799	796	28	2		2	DTX1	12	113534523	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1926	113534523	20317372	1153	103032											
DDX54	79039	broad.mit.edu	37	chr12	113600761	113600761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctgctgccggcccctcGtcaggttctgggcttcatcc	3	11	12	15	2	3	1	2	1	1	0	5	1	4	1	4	3	3	4	4	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:113600761G>A	uc001tup.2	-	17	2199	c.2171C>T	c.(2170-2172)ACG>ATG	p.T724M	DDX54_uc001tuq.3_Missense_Mutation_p.T724M	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	724					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						CCGGCCCCTCGTCAGGTTCTG	0.652													28	72					0	0	1	0	0		A	113600761	A	A	113600761	3	1	211	1	0	0	0	0	1	0	0	0	4375	1145	40	1	493	1	DDX54	12	113600761	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	66238	113600761	20251134	1154	103033											
FBXW8	26259	broad.mit.edu	37	chr12	117387508	117387508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacgatggtgtggtcattgCggggtaagccaaaccgtttc	8	11	13	9	3	2	0	2	0	0	0	3	1	2	0	2	4	3	2	2	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:117387508C>T	uc001twg.1	+	4	756	c.674C>T	c.(673-675)GCG>GTG	p.A225V	FBXW8_uc001twf.1_Missense_Mutation_p.A159V|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	225	WD 1.						protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		GTGGTCATTGCGGGGTAAGCC	0.498													26	83					0	0	1	0	0		T	117387508	T	T	117387508	3	4	211	1	0	0	0	0	1	0	0	0	5784	768	27	1	688	1	FBXW8	12	117387508	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3786747	117387508	16464387	1155	103034											
TAOK3	51347	broad.mit.edu	37	chr12	118619376	118619376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgacatctgttcccgcaactCgttctcctgctcatgctcat	6	14	6	15	2	4	1	2	1	2	0	7	1	5	1	2	0	3	5	2	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:118619376C>T	uc001twx.2	-	15	1661	c.1366G>A	c.(1366-1368)GAG>AAG	p.E456K	TAOK3_uc001twv.2_5'UTR|TAOK3_uc001tww.2_Missense_Mutation_p.E286K|TAOK3_uc001twy.3_Missense_Mutation_p.E456K	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	456	Potential.				MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TCCCGCAACTCGTTCTCCTGC	0.517											OREG0022177	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	40					0	0	1	0	0		T	118619376	T	T	118619376	3	4	211	1	0	0	0	0	1	0	0	0	15574	893	31	1	1358	1	TAOK3	12	118619376	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1231868	118619376	15232519	1156	103035											
CIT	11113	broad.mit.edu	37	chr12	120220362	120220362	+	Missense_Mutation	SNP	A	G	G	1	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	gcttccggctctgctctctgAtatcatggagaagctgcagt	7	12	11	11	1	3	2	1	1	2	1	5	3	4	2	1	2	3	5	1	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:120220362A>G	uc001txi.1	-	13	1678	c.1625T>C	c.(1624-1626)ATC>ACC	p.I542T	CIT_uc001txh.1_Missense_Mutation_p.I76T|CIT_uc001txj.1_Missense_Mutation_p.I542T	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	542	Potential.				intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		CTGCTCTCTGATATCATGGAG	0.502													23	71					0	0	1	0	0		G	120220362	G	G	120220362	3	3	211	1	0	0	0	0	1	0	0	0	3441	333	12	3	4598	3	CIT	12	120220362	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1600986	120220362	13631533	1157	103036											
RNF10	9921	broad.mit.edu	37	chr12	120995154	120995154	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctactgcagccaagataaccCgttgtggacacatcttctgc	10	10	8	13	1	2	1	0	0	2	1	2	2	2	2	2	1	5	2	2	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:120995154C>T	uc001typ.3	+	5	1198	c.715C>T	c.(715-717)CGT>TGT	p.R239C	RNF10_uc010szk.1_RNA|RNF10_uc001tyq.3_Missense_Mutation_p.R145C	NM_014868	NP_055683	Q8N5U6	RNF10_HUMAN	ring finger protein 10	239	RING-type.				negative regulation of Schwann cell proliferation|positive regulation of myelination|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|transcription regulatory region DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAAGATAACCCGTTGTGGACA	0.473													38	94					0	0	1	0	0		T	120995154	T	T	120995154	3	4	211	1	0	0	0	0	1	0	0	0	13447	652	23	1	733	1	RNF10	12	120995154	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	774792	120995154	12856741	1158	103037											
RSRC2	65117	broad.mit.edu	37	chr12	123001835	123001835	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgtcttgatcttgagcGggaacgagacctgatccgcc	7	10	12	12	3	2	4	0	3	2	1	3	6	3	5	4	1	2	0	4	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:123001835G>A	uc001ucr.2	-	5	687	c.541C>T	c.(541-543)CGC>TGC	p.R181C	RSRC2_uc001uco.2_5'UTR|RSRC2_uc001ucp.2_Missense_Mutation_p.R122C|RSRC2_uc001ucq.2_5'UTR|RSRC2_uc001ucs.2_5'UTR|RSRC2_uc001uct.2_Missense_Mutation_p.R133C|RSRC2_uc001ucu.2_Missense_Mutation_p.R181C	NM_023012	NP_075388	Q7L4I2	RSRC2_HUMAN	arginine/serine-rich coiled-coil 2 isoform a	181	Ser-rich.									ovary(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;5.14e-05)|Epithelial(86;0.000183)|BRCA - Breast invasive adenocarcinoma(302;0.201)		GATCTTGAGCGGGAACGAGAC	0.493													32	63					0	0	1	0	0		A	123001835	A	A	123001835	3	1	211	1	0	0	0	0	1	0	0	0	13740	1116	39	1	787	1	RSRC2	12	123001835	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2006681	123001835	10850060	1159	103038											
PITPNM2	57605	broad.mit.edu	37	chr12	123472373	123472373	+	Missense_Mutation	SNP	T	C	C	0	1	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	catgtccaggggcccatacaTgaacctgcccgtcagaacct	10	7	9	15	1	1	2	1	1	0	1	2	2	2	2	5	2	4	0	5	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:123472373T>C	uc001uej.1	-	20	3212	c.3073A>G	c.(3073-3075)ATG>GTG	p.M1025V	PITPNM2_uc001uek.1_Missense_Mutation_p.M1019V	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	1025					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	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)		GGCCCATACATGAACCTGCCC	0.622													20	65					0	0	1	0	0		C	123472373	C	C	123472373	3	2	211	1	0	0	0	0	1	0	0	0	11970	1464	51	3	1000	3	PITPNM2	12	123472373	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	470538	123472373	10379522	1160	103039											
SETD8	387893	broad.mit.edu	37	chr12	123875317	123875317	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggaaaccattagccggaatCtacaggaaacgagaaggtaa	17	5	12	7	2	1	1	0	0	1	1	1	5	1	4	2	4	4	1	2	4	7	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:123875317C>T	uc001uew.2	+	3	315	c.273C>T	c.(271-273)ATC>ATT	p.I91I	SETD8_uc001uex.2_Silent_p.I26I	NM_020382	NP_065115	Q9NQR1	SETD8_HUMAN	SET domain-containing 8	132					cell division|mitosis|negative regulation of transcription from RNA polymerase II promoter|peptidyl-lysine monomethylation|regulation of DNA damage response, signal transduction by p53 class mediator|transcription, DNA-dependent	chromosome|nucleus	histone-lysine N-methyltransferase activity|p53 binding|transcription corepressor activity				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.00101)|Epithelial(86;0.00425)		TAGCCGGAATCTACAGGAAAC	0.488													11	55					0	0	1	0	0		T	123875317	T	T	123875317	2	4	211	1	0	0	0	0	0	0	0	1	14162	903	32	4		4	SETD8	12	123875317	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	402944	123875317	9976578	1161	103040											
ATP6V0A2	23545	broad.mit.edu	37	chr12	124228805	124228805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgatgtttggagacttcgGacatggctttgtgatgtttt	6	18	13	4	1	0	3	0	2	0	1	1	5	0	4	0	3	0	3	0	3	0	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:124228805G>A	uc001ufr.2	+	11	1495	c.1247G>A	c.(1246-1248)GGA>GAA	p.G416E		NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	416	Helical; (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		GGAGACTTCGGACATGGCTTT	0.373													35	113					0	0	1	0	0		A	124228805	A	A	124228805	3	1	211	1	0	0	0	0	1	0	0	0	1170	1174	41	4	1289	4	ATP6V0A2	12	124228805	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	353488	124228805	9623090	1162	103041											
CCDC92	80212	broad.mit.edu	37	chr12	124421929	124421929	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agtttcctgctctctgccccGaatctgtagacctcttcaaa	8	13	6	14	1	4	1	1	0	3	1	6	2	5	1	4	0	2	3	4	0	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:124421929G>A	uc001ufw.1	-	5	819	c.672C>T	c.(670-672)TTC>TTT	p.F224F	CCDC92_uc001ufv.1_Silent_p.F207F|CCDC92_uc001ufx.1_Silent_p.F224F|CCDC92_uc001ufy.1_Silent_p.F207F	NM_025140	NP_079416	Q53HC0	CCD92_HUMAN	coiled-coil domain containing 92	224											0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.0002)|OV - Ovarian serous cystadenocarcinoma(86;0.000222)|all cancers(50;0.00129)|BRCA - Breast invasive adenocarcinoma(302;0.242)		TCTCTGCCCCGAATCTGTAGA	0.602													19	61					0	0	1	0	0		A	124421929	A	A	124421929	2	1	211	1	0	0	0	0	0	0	0	1	2874	1049	37	1		1	CCDC92	12	124421929	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	193124	124421929	9429966	1163	103042											
NCOR2	9612	broad.mit.edu	37	chr12	124826557	124826557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggtagccgcggatgaggtagGgtgggtacaggtgcgggtag	7	7	22	5	3	0	1	0	1	0	0	0	2	0	2	1	7	3	4	1	7	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:124826557G>A	uc010tba.1	-	34	5141	c.5024C>T	c.(5023-5025)CCC>CTC	p.P1675L	NCOR2_uc010tay.1_Missense_Mutation_p.P1674L|NCOR2_uc010taz.1_Missense_Mutation_p.P1658L|NCOR2_uc010tbb.1_Missense_Mutation_p.P1667L|NCOR2_uc010tbc.1_Missense_Mutation_p.P1657L|NCOR2_uc010tax.1_5'Flank	NM_001077261	NP_001070729	Q9Y618	NCOR2_HUMAN	nuclear receptor co-repressor 2 isoform 2	1675					cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|regulation of cellular ketone metabolic process by negative regulation of transcription from an RNA polymerase II promoter|transcription, DNA-dependent	nuclear body|nucleus|transcriptional repressor complex	DNA binding|histone deacetylase binding|Notch binding|protein N-terminus binding|transcription corepressor activity			skin(3)|ovary(1)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.163)			Epithelial(86;3.99e-05)|OV - Ovarian serous cystadenocarcinoma(86;9.14e-05)|all cancers(50;0.000402)|BRCA - Breast invasive adenocarcinoma(302;0.0764)		GATGAGGTAGGGTGGGTACAG	0.662													18	38					0	0	1	0	0		A	124826557	A	A	124826557	3	1	211	1	0	0	0	0	1	0	0	0	10255	1232	43	4	2600	4	NCOR2	12	124826557	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	404628	124826557	9025338	1164	103043											
UBC	7316	broad.mit.edu	37	chr12	125397325	125397325	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtcttggatctttgcCttgacattctcaatggtgtc	5	18	8	10	0	3	1	1	1	3	0	6	2	4	2	2	2	1	0	2	2	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:125397325C>T	uc001ugs.3	-	2	1441	c.993G>A	c.(991-993)AAG>AAA	p.K331K	UBC_uc001ugr.2_RNA|UBC_uc001ugu.1_Silent_p.K331K|UBC_uc001ugt.2_Silent_p.K331K|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_Silent_p.K179K	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	331	Ubiquitin-like 5.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	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)		GGATCTTTGCCTTGACATTCT	0.517													61	120					0	0	1	0	0		T	125397325	T	T	125397325	2	4	211	1	0	0	0	0	0	0	0	1	16868	680	24	4		4	UBC	12	125397325	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	570768	125397325	8454570	1165	103044			1	46		3	3	211	N	G_C	8.412843e-05
UBC	7316	broad.mit.edu	37	chr12	125397350	125397350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattctcaatggtgtcactcGgctccacttcgagagtgatg	8	12	10	11	2	2	2	2	1	1	1	6	3	3	2	1	2	0	1	1	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:125397350G>A	uc001ugs.3	-	2	1416	c.968C>T	c.(967-969)CCG>CTG	p.P323L	UBC_uc001ugr.2_RNA|UBC_uc001ugu.1_Missense_Mutation_p.P323L|UBC_uc001ugt.2_Missense_Mutation_p.P323L|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_Missense_Mutation_p.P171L	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	323	Ubiquitin-like 5.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	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)		GGTGTCACTCGGCTCCACTTC	0.522													44	134					0	0	1	0	0		A	125397350	A	A	125397350	3	1	211	1	0	0	0	0	1	0	0	0	16868	1116	39	1	1093	1	UBC	12	125397350	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	25	125397350	8454545	1166	103045			1	46		3	3	211	N	G_C	8.412843e-05
UBC	7316	broad.mit.edu	37	chr12	125397535	125397535	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaggaggaatgccttcCttgtcttggatctttgcttt	5	17	11	8	0	3	0	1	0	2	0	4	3	4	3	2	4	2	1	2	4	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:125397535C>A	uc001ugs.3	-	2	1231	c.783G>T	c.(781-783)AAG>AAT	p.K261N	UBC_uc001ugr.2_5'Flank|UBC_uc001ugu.1_Missense_Mutation_p.K261N|UBC_uc001ugt.2_Missense_Mutation_p.K261N|UBC_uc001ugv.2_Intron|UBC_uc001ugw.2_Missense_Mutation_p.K109N	NM_021009	NP_066289	P0CG48	UBC_HUMAN	ubiquitin C	261	Ubiquitin-like 4.				activation of MAPK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|apoptosis|cellular membrane organization|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA repair|endosome transport|epidermal growth factor receptor signaling pathway|G1/S transition of mitotic cell cycle|I-kappaB kinase/NF-kappaB cascade|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|M/G1 transition of mitotic cell cycle|mRNA metabolic process|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of type I interferon production|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|S phase of mitotic cell cycle|stress-activated MAPK cascade|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|viral reproduction	cytosol|endocytic vesicle membrane|endosome membrane|nucleoplasm|plasma membrane	protein binding			ovary(2)	2	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)		GAATGCCTTCCTTGTCTTGGA	0.517													57	158					3.13296e-38	3.46835e-38	1	1	0		A	125397535	A	A	125397535	3	1	211	1	0	0	0	0	1	0	0	0	16868	680	24	5	1278	5	UBC	12	125397535	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	185	125397535	8454360	1167	103046			1	46		3	3	211	N	G_C	8.412843e-05
DHX37	57647	broad.mit.edu	37	chr12	125434766	125434766	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggaaaatccacctcgatggCggggagcggccagcccacgc	9	4	14	14	4	0	0	0	0	0	0	2	3	1	2	4	5	2	0	4	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:125434766C>T	uc001ugy.2	-	24	3244	c.3145G>A	c.(3145-3147)GCC>ACC	p.A1049T	DHX37_uc001ugz.1_Missense_Mutation_p.A136T	NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	1049							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		ACCTCGATGGCGGGGAGCGGC	0.652													12	35					0	0	1	0	0		T	125434766	T	T	125434766	3	4	211	1	0	0	0	0	1	0	0	0	4516	768	27	1	344	1	DHX37	12	125434766	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	37231	125434766	8417129	1168	103047											
TMEM132B	114795	broad.mit.edu	37	chr12	126135480	126135480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccctggctggtcgggagcCgggaataaccacggtgcagg	8	5	17	11	3	0	0	0	0	0	0	1	3	0	2	3	6	3	2	3	6	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:126135480C>T	uc001uhe.1	+	7	1888	c.1880C>T	c.(1879-1881)CCG>CTG	p.P627L	TMEM132B_uc001uhf.1_Missense_Mutation_p.P139L	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	627	Extracellular (Potential).					integral to membrane				skin(11)|ovary(5)|large_intestine(1)|pancreas(1)|breast(1)	19	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000423)|Epithelial(86;0.00394)|all cancers(50;0.0362)		GGTCGGGAGCCGGGAATAACC	0.567													16	32					0	0	1	0	0		T	126135480	T	T	126135480	3	4	211	1	0	0	0	0	1	0	0	0	16071	652	23	1	1906	1	TMEM132B	12	126135480	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	700714	126135480	7716415	1169	103048											
TMEM132D	121256	broad.mit.edu	37	chr12	129558566	129558566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcgtcgtctgaggagacggCggtgaaggtggtaaatttta	9	11	15	6	4	1	3	0	2	1	1	3	4	1	3	0	5	0	1	0	5	4	3	rs143281224	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:129558566C>T	uc009zyl.1	-	9	3482	c.3154G>A	c.(3154-3156)GCC>ACC	p.A1052T	TMEM132D_uc001uia.2_Missense_Mutation_p.A590T	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1052	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		GAGGAGACGGCGGTGAAGGTG	0.517													18	75					0	0	1	0	0		T	129558566	T	T	129558566	3	4	211	1	0	0	0	0	1	0	0	0	16072	768	27	1	149	1	TMEM132D	12	129558566	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3423086	129558566	4293329	1170	103049											
RIMBP2	23504	broad.mit.edu	37	chr12	130926863	130926863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacgttgtagctgctcaccGttccccatcctggtggcacc	5	10	11	15	2	1	0	1	0	0	0	3	1	3	1	5	3	2	6	5	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:130926863G>A	uc001uil.2	-	8	1147	c.983C>T	c.(982-984)ACG>ATG	p.T328M	RIMBP2_uc001uim.2_Missense_Mutation_p.T236M|RIMBP2_uc001uin.1_Translation_Start_Site	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	328	Fibronectin type-III 1.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		GCTGCTCACCGTTCCCCATCC	0.562													19	101					0	0	1	0	0		A	130926863	A	A	130926863	3	1	211	1	0	0	0	0	1	0	0	0	13388	1145	40	1	2223	1	RIMBP2	12	130926863	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1368297	130926863	2925032	1171	103050											
RIMBP2	23504	broad.mit.edu	37	chr12	130926883	130926883	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttccccatcctggtggcacCgccgggggctcccagcccac	4	6	12	19	2	0	0	0	0	0	0	3	0	3	0	7	4	1	3	7	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:130926883C>T	uc001uil.2	-	8	1127	c.963G>A	c.(961-963)GCG>GCA	p.A321A	RIMBP2_uc001uim.2_Silent_p.A229A|RIMBP2_uc001uin.1_5'UTR	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	321	Fibronectin type-III 1.					cell junction|synapse				upper_aerodigestive_tract(3)|ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	11	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)		CTGGTGGCACCGCCGGGGGCT	0.557													17	107					0	0	1	0	0		T	130926883	T	T	130926883	2	4	211	1	0	0	0	0	0	0	0	1	13388	639	23	1		1	RIMBP2	12	130926883	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	20	130926883	2925012	1172	103051											
POLE	5426	broad.mit.edu	37	chr12	133218372	133218372	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gctgtcggccccctccatgtCgttgacatggtgagactgga	6	10	13	12	2	0	2	0	2	0	1	3	4	1	3	3	3	0	2	3	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr12:133218372C>T	uc001uks.1	-	39	5283	c.5239G>A	c.(5239-5241)GAC>AAC	p.D1747N	POLE_uc001ukq.1_5'Flank|POLE_uc001ukr.1_Missense_Mutation_p.D551N|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1747					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CCCTCCATGTCGTTGACATGG	0.612								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					19	60					0	0	1	0	0		T	133218372	T	T	133218372	3	4	211	1	0	0	0	0	1	0	0	0	12215	884	31	1	1665	1	POLE	12	133218372	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2291489	133218372	633523	1173	103052											
ZMYM5	9205	broad.mit.edu	37	chr13	20411844	20411844	+	Frame_Shift_Del	DEL	T	-	-																															cttgacttattaaaaactccTtttttaagattccagttgtt																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:20411844delT	uc010tcn.1	-	6	1255	c.990delA	c.(988-990)AAAfs	p.K330fs	ZMYM5_uc001umm.1_Frame_Shift_Del_p.K154fs|ZMYM5_uc001umn.2_Frame_Shift_Del_p.K330fs|ZMYM5_uc001umo.2_3'UTR	NM_001142684	NP_001136156	Q9UJ78	ZMYM5_HUMAN	zinc finger protein 237 isoform 3	330	MYM-type 2.					nucleus	zinc ion binding				0		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)		TAAAAACTCCTTTTTTAAGAT	0.313													16	33	---	---	---	---						.	-	20411844	-	-	20411844	7	5	211	1	0	1	0	1	0	0	0	0	17728	1606	56	0	1142	0	ZMYM5	13	20411844	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08		20411844	94758034	1174	103053											
XPO4	64328	broad.mit.edu	37	chr13	21383964	21383964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	catctggagcagctaggtggCactgaatataggaattgaaa	14	9	12	6	0	1	2	0	2	1	0	1	4	1	4	0	4	2	3	0	4	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:21383964C>T	uc001unq.3	-	10	1352	c.1316G>A	c.(1315-1317)TGC>TAC	p.C439Y		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	439					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		AGCTAGGTGGCACTGAATATA	0.363													7	32					0	0	1	0	0		T	21383964	T	T	21383964	3	4	211	1	0	0	0	0	1	0	0	0	17472	710	25	2	2195	2	XPO4	13	21383964	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	972120	21383964	93785914	1175	103054											
EFHA1	221154	broad.mit.edu	37	chr13	22069321	22069322	+	Frame_Shift_Ins	INS	-	T	T																															ataaacctcgatgcattctgINSttttttaacaccccaagaaa																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:22069321_22069322insT	uc001uof.2	-	11	1200_1201	c.1178_1179insA	c.(1177-1179)AACfs	p.N393fs	EFHA1_uc010tct.1_Frame_Shift_Ins_p.N183fs	NM_152726	NP_689939	Q8IYU8	EFHA1_HUMAN	EF-hand domain family, member A1	393	EF-hand 4.						calcium ion binding				0		all_cancers(29;1.24e-15)|all_epithelial(30;5.4e-14)|all_lung(29;2.04e-13)|Lung SC(185;0.0367)		all cancers(112;0.000171)|Epithelial(112;0.000398)|OV - Ovarian serous cystadenocarcinoma(117;0.00641)|Lung(94;0.189)		GATGCATTCTGTTTTTTAACAC	0.317													21	35	---	---	---	---						.	T	22069322	T	T	22069321	7	5	211	1	0	1	1	0	0	0	0	0	4949	1368	48	0	133	0	EFHA1	13	22069321	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	685357	22069321	93100557	1176	103055											
SACS	26278	broad.mit.edu	37	chr13	23909044	23909044	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcacaacaggtaaaagacGtttcatgtcttcgtgaatgc	12	10	9	10	3	2	2	1	1	1	1	3	2	2	2	1	1	2	3	1	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:23909044G>A	uc001uon.2	-	10	9560	c.8971C>T	c.(8971-8973)CGT>TGT	p.R2991C	SACS_uc001uoo.2_Missense_Mutation_p.R2844C|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2991					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GGTAAAAGACGTTTCATGTCT	0.368													28	69					0	0	1	0	0		A	23909044	A	A	23909044	3	1	211	1	0	0	0	0	1	0	0	0	13829	1145	40	1	4772	1	SACS	13	23909044	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1839723	23909044	91260834	1177	103056											
SPATA13	221178	broad.mit.edu	37	chr13	24865020	24865020	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagtataccacacaggaacaCgggtgaggggcatgggtaag	14	5	15	7	1	0	1	0	1	0	0	0	2	0	2	1	5	2	3	1	5	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:24865020C>T	uc001upg.1	+	8	1610	c.1203C>T	c.(1201-1203)CAC>CAT	p.H401H	SPATA13_uc001upd.1_Silent_p.H1026H|C1QTNF9_uc001upe.2_RNA|SPATA13_uc010tcy.1_Silent_p.H347H|SPATA13_uc010tcz.1_Silent_p.H285H|SPATA13_uc010tda.1_Silent_p.H345H|SPATA13_uc001uph.2_Silent_p.H323H|SPATA13_uc010tdb.1_Silent_p.H261H|SPATA13_uc009zzz.1_Silent_p.H126H	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	401	DH.				cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)		CACAGGAACACGGGTGAGGGG	0.572													7	23					0	0	1	0	0		T	24865020	T	T	24865020	2	4	211	1	0	0	0	0	0	0	0	1	15025	535	19	1		1	SPATA13	13	24865020	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	955976	24865020	90304858	1178	103057											
RNF17	56163	broad.mit.edu	37	chr13	25425689	25425689	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatatttgattaaaaagggTttggctttgagagaaaggag	16	12	12	1	0	0	3	0	2	0	1	0	5	0	4	0	3	0	2	0	3	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:25425689T>C	uc001upr.2	+	24	3341	c.3300T>C	c.(3298-3300)GGT>GGC	p.G1100G	RNF17_uc010tdd.1_Silent_p.G959G|RNF17_uc010aab.2_RNA|RNF17_uc010tde.1_Silent_p.G1096G|RNF17_uc001ups.2_Silent_p.G1039G|RNF17_uc010aac.2_Silent_p.G298G|RNF17_uc010aad.2_Silent_p.G152G	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	ring finger protein 17	1100					multicellular organismal development	cytoplasm|nucleus	hydrolase activity, acting on ester bonds|nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0114)|OV - Ovarian serous cystadenocarcinoma(117;0.0311)|Epithelial(112;0.0524)		TTAAAAAGGGTTTGGCTTTGA	0.358													14	33					0	0	1	0	0		C	25425689	C	C	25425689	2	2	211	1	0	0	0	0	0	0	0	1	13486	1712	60	3		3	RNF17	13	25425689	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	560669	25425689	89744189	1179	103058											
SHISA2	387914	broad.mit.edu	37	chr13	26621039	26621039	+	Missense_Mutation	SNP	A	T	T	1	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	gggaggtgctggcactggggAtcatggggatggtctccatc	6	9	18	8	0	2	0	1	0	1	0	4	3	2	3	1	8	1	2	1	8	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:26621039A>T	uc001uqm.1	-	2	585	c.500T>A	c.(499-501)ATC>AAC	p.I167N		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	167	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						GGCACTGGGGATCATGGGGAT	0.672													18	55					0	0	1	0	0		T	26621039	T	T	26621039	3	4	211	1	0	0	0	0	1	0	0	0	14305	333	12	5	391	5	SHISA2	13	26621039	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1195350	26621039	88548839	1180	103059											
MTIF3	219402	broad.mit.edu	37	chr13	28014243	28014243	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgttcctttgaaccagtcGcaggtctcgctcatccataa	8	12	9	12	2	2	1	1	1	1	0	6	1	4	1	3	2	1	3	3	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:28014243G>A	uc001urh.2	-	1	1567	c.343C>T	c.(343-345)CGA>TGA	p.R115*	MTIF3_uc001uri.2_Nonsense_Mutation_p.R115*|MTIF3_uc001urj.2_Nonsense_Mutation_p.R115*|MTIF3_uc001urk.2_Nonsense_Mutation_p.R115*	NM_152912	NP_690876	Q9H2K0	IF3M_HUMAN	mitochondrial translational initiation factor 3	115					regulation of translational initiation|ribosome disassembly	mitochondrion	ribosomal small subunit binding|translation initiation factor activity			ovary(1)|skin(1)	2		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)		TGAACCAGTCGCAGGTCTCGC	0.478													37	78					0	0	1	0	0		A	28014243	A	A	28014243	4	1	211	1	0	0	0	0	0	1	0	0	9953	1095	38	1	505	1	MTIF3	13	28014243	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1393204	28014243	87155635	1181	103060											
LNX2	222484	broad.mit.edu	37	chr13	28143294	28143294	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccaaacagtctgcttctGgagataaggtacctgcagga	11	9	10	11	0	2	1	0	0	2	1	3	3	3	2	3	3	4	3	3	3	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:28143294G>A	uc001url.3	-	3	836	c.527C>T	c.(526-528)CCA>CTA	p.P176L	LNX2_uc001urm.1_Missense_Mutation_p.P176L	NM_153371	NP_699202	Q8N448	LNX2_HUMAN	ligand of numb-protein X 2	176							zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)|central_nervous_system(1)	6		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)		GTCTGCTTCTGGAGATAAGGT	0.527													80	198					0	0	1	0	0		A	28143294	A	A	28143294	3	1	211	1	0	0	0	0	1	0	0	0	8883	1348	47	4	1577	4	LNX2	13	28143294	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	129051	28143294	87026584	1182	103061											
FLT1	2321	broad.mit.edu	37	chr13	29041262	29041262	+	Frame_Shift_Del	DEL	C	-	-																															agaccatttatgggctgcttCccccctgcaatcacagataa																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:29041262delC	uc001usb.3	-	3	451	c.166delG	c.(166-168)GAAfs	p.E56fs	FLT1_uc010aar.1_Frame_Shift_Del_p.E56fs|FLT1_uc001usc.3_Frame_Shift_Del_p.E56fs|FLT1_uc010tdp.1_Frame_Shift_Del_p.E56fs|FLT1_uc001usd.2_Frame_Shift_Del_p.E56fs	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	56	Ig-like C2-type 1.|Extracellular (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TGGGCTGCTTCCCCCCTGCAA	0.453													34	75	---	---	---	---						.	-	29041262	-	-	29041262	7	5	211	1	0	1	0	1	0	0	0	0	5955	864	30	0	4225	0	FLT1	13	29041262	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	897968	29041262	86128616	1183	103062											
C13orf33	84935	broad.mit.edu	37	chr13	31480852	31480852	+	Frame_Shift_Del	DEL	G	-	-																															cggggagccggcggcggcgcGggggggcttcaacgtcttcg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:31480852delG	uc001uth.3	+	1	541	c.200delG	c.(199-201)CGGfs	p.R67fs	uc001utg.1_Intron	NM_032849	NP_116238	Q5VYS4	CM033_HUMAN	hypothetical protein LOC84935	67											0		Lung SC(185;0.0281)		all cancers(112;0.00914)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.0559)|GBM - Glioblastoma multiforme(144;0.244)		gcggcggcgcgggggggcTTC	0.582													9	5	---	---	---	---						.	-	31480852	-	-	31480852	7	5	211	1	0	1	0	1	0	0	0	0	1730	1116	39	0	202	0	C13orf33	13	31480852	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2439590	31480852	83689026	1184	103063											
PDS5B	23047	broad.mit.edu	37	chr13	33306284	33306284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctaaaaaaggaccccccCgtcaagccaaatatgccatt	16	7	5	13	1	2	0	1	0	1	0	2	1	2	1	5	1	2	0	5	1	7	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:33306284C>T	uc010abf.2	+	20	2328	c.2170C>T	c.(2170-2172)CGT>TGT	p.R724C	PDS5B_uc010abg.2_RNA	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	724					cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		AGGACCCCCCCGTCAAGCCAA	0.333													9	31					0	0	1	0	0		T	33306284	T	T	33306284	3	4	211	1	0	0	0	0	1	0	0	0	11711	652	23	1	2244	1	PDS5B	13	33306284	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1825432	33306284	81863594	1185	103064											
SOHLH2	54937	broad.mit.edu	37	chr13	36765933	36765933	+	Missense_Mutation	SNP	A	G	G	1	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	aaaagaacaaaaaactaaccAggcaaatagatcagtaggaa	24	4	7	6	0	1	2	1	0	0	2	1	3	1	3	1	2	3	2	1	2	11	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:36765933A>G	uc001uvj.2	-	5	618	c.529T>C	c.(529-531)TGC>CGC	p.C177R	SOHLH2_uc010tei.1_Missense_Mutation_p.C254R	NM_017826	NP_060296	Q9NX45	SOLH2_HUMAN	spermatogenesis and oogenesis specific basic	177					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;4.63e-08)|Epithelial(112;2.67e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00272)|BRCA - Breast invasive adenocarcinoma(63;0.00685)|GBM - Glioblastoma multiforme(144;0.0273)		AAAACTAACCAGGCAAATAGA	0.303													23	53					0	0	1	0	0		G	36765933	G	G	36765933	3	3	211	1	0	0	0	0	1	0	0	0	14949	202	7	3	776	3	SOHLH2	13	36765933	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3459649	36765933	78403945	1186	103065											
TRPC4	7223	broad.mit.edu	37	chr13	38211510	38211510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cggctcctgaaccaccagggCagagccattgcttatgttat	9	10	10	12	1	0	2	0	1	0	1	1	2	1	2	4	2	3	4	4	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:38211510C>T	uc001uws.2	-	11	2699	c.2464G>A	c.(2464-2466)GCC>ACC	p.A822T	TRPC4_uc010abv.2_Missense_Mutation_p.A402T|TRPC4_uc001uwt.2_Intron|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Missense_Mutation_p.A649T|TRPC4_uc010abx.2_Missense_Mutation_p.A827T|TRPC4_uc010aby.2_Intron	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	822	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		ACCACCAGGGCAGAGCCATTG	0.418													22	64					0	0	1	0	0		T	38211510	T	T	38211510	3	4	211	1	0	0	0	0	1	0	0	0	16606	710	25	2	473	2	TRPC4	13	38211510	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1445577	38211510	76958368	1187	103066											
ZC3H13	23091	broad.mit.edu	37	chr13	46549464	46549464	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttggattcctatcttctcGgatctcttctcgcttttctc	3	20	5	13	2	6	0	0	0	6	0	11	2	7	2	1	2	0	1	1	2	1	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:46549464G>A	uc010tfw.1	-	11	2428	c.2422C>T	c.(2422-2424)CGA>TGA	p.R808*	ZC3H13_uc001vas.1_Nonsense_Mutation_p.R808*|ZC3H13_uc001vat.1_Nonsense_Mutation_p.R808*	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	808	Arg/Glu-rich.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		CTATCTTCTCGGATCTCTTCT	0.323													51	157					0	0	1	0	0		A	46549464	A	A	46549464	4	1	211	1	0	0	0	0	0	1	0	0	17590	1124	39	1	2296	1	ZC3H13	13	46549464	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	8337954	46549464	68620414	1188	103067											
C13orf18	80183	broad.mit.edu	37	chr13	46917574	46917574	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tttctcctcgctgtgatcctCgcacaccgggggcactcgga	5	10	11	15	4	1	1	0	1	1	0	6	2	2	2	3	3	0	3	3	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:46917574C>T	uc010acl.2	-	15	2540	c.1935G>A	c.(1933-1935)GCG>GCA	p.A645A	C13orf18_uc010tfy.1_Silent_p.A168A|C13orf18_uc001vbf.3_Silent_p.A578A|C13orf18_uc001vbg.3_Silent_p.A373A|C13orf18_uc010tfz.1_Silent_p.A488A|C13orf18_uc010acm.2_Silent_p.A510A|C13orf18_uc010acn.2_Silent_p.A430A|C13orf18_uc001vbe.3_Missense_Mutation_p.R594Q|C13orf18_uc001vbh.3_Silent_p.A645A|C13orf18_uc001vbi.3_Silent_p.A488A	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183	645											0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		CTGTGATCCTCGCACACCGGG	0.517													16	47					0	0	1	0	0		T	46917574	T	T	46917574	2	4	211	1	0	0	0	0	0	0	0	1	1723	871	31	1		1	C13orf18	13	46917574	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	368110	46917574	68252304	1189	103068											
RCBTB2	1102	broad.mit.edu	37	chr13	49070346	49070346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtgcatcatacttcaccGcagccgagagcagagcgatg	10	7	11	13	3	2	2	2	0	0	2	2	4	2	2	3	0	5	3	3	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:49070346G>A	uc001vch.2	-	14	1867	c.1496C>T	c.(1495-1497)GCG>GTG	p.A499V	RCBTB2_uc010tgg.1_Missense_Mutation_p.A504V|RCBTB2_uc001vci.2_Missense_Mutation_p.A475V|RCBTB2_uc010tgh.1_Missense_Mutation_p.A225V|RCBTB2_uc001vcj.2_Missense_Mutation_p.A451V	NM_001268	NP_001259	O95199	RCBT2_HUMAN	regulator of chromosome condensation and BTB	499	BTB 2.						Ran guanyl-nucleotide exchange factor activity			ovary(2)|lung(2)|skin(1)	5		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)		ATACTTCACCGCAGCCGAGAG	0.478													17	53					0	0	1	0	0		A	49070346	A	A	49070346	3	1	211	1	0	0	0	0	1	0	0	0	13197	1087	38	1	167	1	RCBTB2	13	49070346	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2152772	49070346	66099532	1190	103069											
MLNR	2862	broad.mit.edu	37	chr13	49794847	49794847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagggctgcacctacgccaCgctgctgcacatgaccgcgc	7	5	12	17	5	0	1	0	1	0	0	0	2	0	1	3	1	4	5	3	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:49794847C>T	uc010tgj.1	+	1	374	c.374C>T	c.(373-375)ACG>ATG	p.T125M		NM_001507	NP_001498	O43193	MTLR_HUMAN	motilin receptor	125	Helical; Name=3; (Potential).				digestion	integral to plasma membrane	growth hormone-releasing hormone receptor activity				0		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)		ACCTACGCCACGCTGCTGCAC	0.741													3	7					0	0	1	0	0		T	49794847	T	T	49794847	3	4	211	1	0	0	0	0	1	0	0	0	9650	536	19	1	376	1	MLNR	13	49794847	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	724501	49794847	65375031	1191	103070											
MLNR	2862	broad.mit.edu	37	chr13	49796368	49796368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcaaagaagtacagagcggCggcctttaaactgctgctcg	11	9	11	10	3	1	2	1	0	0	2	2	2	1	2	1	2	5	3	1	2	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:49796368C>T	uc010tgj.1	+	2	1094	c.1094C>T	c.(1093-1095)GCG>GTG	p.A365V		NM_001507	NP_001498	O43193	MTLR_HUMAN	motilin receptor	365	Cytoplasmic (Potential).				digestion	integral to plasma membrane	growth hormone-releasing hormone receptor activity				0		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)		TACAGAGCGGCGGCCTTTAAA	0.522													27	75					0	0	1	0	0		T	49796368	T	T	49796368	3	4	211	1	0	0	0	0	1	0	0	0	9650	768	27	1	1100	1	MLNR	13	49796368	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1521	49796368	65373510	1192	103071											
WDFY2	115825	broad.mit.edu	37	chr13	52325544	52325544	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaacatggacgtggagaGgcaggaggtaggtggcacag	11	5	19	6	1	0	1	0	0	0	1	0	5	0	4	0	8	1	3	0	8	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:52325544G>T	uc001vfp.2	+	8	1164	c.824G>T	c.(823-825)AGG>ATG	p.R275M	WDFY2_uc010ads.1_Missense_Mutation_p.R275M|WDFY2_uc010adt.1_RNA	NM_052950	NP_443182	Q96P53	WDFY2_HUMAN	WD repeat and FYVE domain containing 2	275	WD 6.						metal ion binding				0		Breast(56;0.000208)|Lung NSC(96;0.000517)|Prostate(109;0.0041)|Hepatocellular(98;0.0652)|Myeloproliferative disorder(33;0.164)|all_neural(104;0.191)		GBM - Glioblastoma multiforme(99;9e-08)		GACGTGGAGAGGCAGGAGGTA	0.547													10	54					0.00136819	0.00139346	1	1	0		T	52325544	T	T	52325544	3	4	211	1	0	0	0	0	1	0	0	0	17295	1000	35	5	854	5	WDFY2	13	52325544	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2529176	52325544	62844334	1193	103072											
CKAP2	26586	broad.mit.edu	37	chr13	53042429	53042429	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taagcctattgaagagatgcGacacacgattgtagatattc	14	11	9	7	2	0	3	0	1	0	2	1	6	0	3	1	0	2	1	1	0	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:53042429G>A	uc001vgv.2	+	7	1693	c.1496G>A	c.(1495-1497)CGA>CAA	p.R499Q	CKAP2_uc001vgu.2_Missense_Mutation_p.R498Q|CKAP2_uc010tha.1_Missense_Mutation_p.R450Q	NM_001098525	NP_001091995	Q8WWK9	CKAP2_HUMAN	cytoskeleton associated protein 2 isoform 2	499					apoptosis|cell cycle	centrosome|microtubule|spindle pole				ovary(1)|skin(1)	2		Breast(56;0.000207)|Lung NSC(96;0.00212)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.6e-08)		GAAGAGATGCGACACACGATT	0.294													7	24					0	0	1	0	0		A	53042429	A	A	53042429	3	1	211	1	0	0	0	0	1	0	0	0	3445	1058	37	1	1522	1	CKAP2	13	53042429	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	716885	53042429	62127449	1194	103073											
PCDH8	5100	broad.mit.edu	37	chr13	53421150	53421150	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcactgtgcgcagcgggggCgcgccgcgatcctcggccac	4	4	16	17	8	0	0	0	0	0	0	2	1	1	0	3	3	2	2	3	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:53421150C>T	uc001vhi.2	-	1	1625	c.1422G>A	c.(1420-1422)GCG>GCA	p.A474A	PCDH8_uc001vhj.2_Silent_p.A474A	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	474	Extracellular (Potential).|Cadherin 4.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GCAGCGGGGGCGCGCCGCGAT	0.711													5	6					0	0	1	0	0		T	53421150	T	T	53421150	2	4	211	1	0	0	0	0	0	0	0	1	11536	755	27	1		1	PCDH8	13	53421150	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	378721	53421150	61748728	1195	103074											
PCDH8	5100	broad.mit.edu	37	chr13	53422176	53422176	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgggccctggggaagcgcggCgcgtggtcgttgacgtccct	3	8	18	12	6	0	1	0	1	0	0	2	2	1	2	2	5	1	1	2	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:53422176C>T	uc001vhi.2	-	1	599	c.396G>A	c.(394-396)GCG>GCA	p.A132A	PCDH8_uc001vhj.2_Silent_p.A132A	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	132	Extracellular (Potential).|Cadherin 1.				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GGAAGCGCGGCGCGTGGTCGT	0.692													11	53					0	0	1	0	0		T	53422176	T	T	53422176	2	4	211	1	0	0	0	0	0	0	0	1	11536	755	27	1		1	PCDH8	13	53422176	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1026	53422176	61747702	1196	103075											
TDRD3	81550	broad.mit.edu	37	chr13	61102729	61102729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttctgaaagaccaagtacttCttcagtatctgaagtatggg	12	13	9	7	0	4	3	1	2	3	1	4	3	4	3	1	1	1	3	1	1	6	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:61102729C>T	uc001via.2	+	11	1879	c.1091C>T	c.(1090-1092)TCT>TTT	p.S364F	TDRD3_uc010aef.2_Missense_Mutation_p.S189F|TDRD3_uc001vhz.3_Missense_Mutation_p.S364F|TDRD3_uc010aeg.2_Missense_Mutation_p.S457F|TDRD3_uc001vib.3_Missense_Mutation_p.S363F	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	364					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		CCAAGTACTTCTTCAGTATCT	0.378													20	52					0	0	1	0	0		T	61102729	T	T	61102729	3	4	211	1	0	0	0	0	1	0	0	0	15757	913	32	4	1412	4	TDRD3	13	61102729	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7680553	61102729	54067149	1197	103076											
TDRD3	81550	broad.mit.edu	37	chr13	61102745	61102745	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acttcttcagtatctgaagtAtgggctgaagacagaatcaa	14	11	9	7	0	4	4	2	2	2	2	4	4	4	4	0	1	0	3	0	1	6	4	rs139943757	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:61102745A>T	uc001via.2	+	11	1895	c.1107A>T	c.(1105-1107)GTA>GTT	p.V369V	TDRD3_uc010aef.2_Silent_p.V194V|TDRD3_uc001vhz.3_Silent_p.V369V|TDRD3_uc010aeg.2_Silent_p.V462V|TDRD3_uc001vib.3_Silent_p.V368V	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	369					chromatin modification	cytoplasm|nucleus	chromatin binding|methylated histone residue binding|nucleic acid binding|transcription coactivator activity			upper_aerodigestive_tract(1)|skin(1)	2		Prostate(109;0.173)|Breast(118;0.174)		GBM - Glioblastoma multiforme(99;0.000291)		TATCTGAAGTATGGGCTGAAG	0.373													21	55					0	0	1	0	0		T	61102745	T	T	61102745	2	4	211	1	0	0	0	0	0	0	0	1	15757	436	16	5		5	TDRD3	13	61102745	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	16	61102745	54067133	1198	103077											
PCDH9	5101	broad.mit.edu	37	chr13	67800275	67800275	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaaggaatacaagcacaagCgtgtgcaaagacttagggta	17	7	11	6	1	0	1	0	0	0	1	0	2	0	2	0	2	4	3	0	2	9	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:67800275C>T	uc001vik.2	-	2	2990	c.2298G>A	c.(2296-2298)ACG>ACA	p.T766T	PCDH9_uc001vil.2_Silent_p.T766T|PCDH9_uc010thl.1_Silent_p.T766T|PCDH9_uc001vin.3_Silent_p.T766T	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	766	Extracellular (Potential).|Cadherin 7.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		CAAGCACAAGCGTGTGCAAAG	0.463													17	69					0	0	1	0	0		T	67800275	T	T	67800275	2	4	211	1	0	0	0	0	0	0	0	1	11537	755	27	1		1	PCDH9	13	67800275	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6697530	67800275	47369603	1199	103078											
DIS3	22894	broad.mit.edu	37	chr13	73336167	73336167	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacagcttgcatcatacagcGagtggctaatattctcaaca	13	10	7	11	1	2	0	2	0	1	0	3	1	2	0	0	1	5	3	0	1	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:73336167G>A	uc001vix.3	-	17	2610	c.2236C>T	c.(2236-2238)CGC>TGC	p.R746C	DIS3_uc001viy.3_Missense_Mutation_p.R716C|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	746					CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		ATCATACAGCGAGTGGCTAAT	0.398										Multiple Myeloma(4;0.011)			18	59					0	0	1	0	0		A	73336167	A	A	73336167	3	1	211	1	0	0	0	0	1	0	0	0	4541	1058	37	1	660	1	DIS3	13	73336167	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5535892	73336167	41833711	1200	103079											
LMO7	4008	broad.mit.edu	37	chr13	76397790	76397790	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acccctgcaccaagcccggaCgcaagccaactggcttcaag	11	4	9	17	2	1	0	1	0	0	0	1	1	1	1	5	2	4	3	5	2	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:76397790C>T	uc001vjv.2	+	12	2791	c.2031C>T	c.(2029-2031)GAC>GAT	p.D677D	LMO7_uc010thv.1_Silent_p.D628D|LMO7_uc001vjt.1_Silent_p.D576D|LMO7_uc010thw.1_Silent_p.D527D|LMO7_uc001vjw.1_Silent_p.D583D	NM_015842	NP_056667	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 2	962						cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)|ovary(1)|prostate(1)|skin(1)	5		Breast(118;0.0992)		GBM - Glioblastoma multiforme(99;0.0109)		CAAGCCCGGACGCAAGCCAAC	0.473													17	66					0	0	1	0	0		T	76397790	T	T	76397790	2	4	211	1	0	0	0	0	0	0	0	1	8872	535	19	1		1	LMO7	13	76397790	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3061623	76397790	38772088	1201	103080											
MYCBP2	23077	broad.mit.edu	37	chr13	77651309	77651309	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtaatcagtctgaatactcGcagagtctcagcttcacagt	11	11	8	11	2	4	2	3	1	2	1	6	2	4	2	0	0	2	3	0	0	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:77651309G>A	uc001vkf.2	-	68	11675	c.11584C>T	c.(11584-11586)CGA>TGA	p.R3862*	MYCBP2_uc010aev.2_Nonsense_Mutation_p.R3266*|MYCBP2_uc001vke.2_Nonsense_Mutation_p.R482*	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3862					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTGAATACTCGCAGAGTCTCA	0.408													20	38					0	0	1	0	0		A	77651309	A	A	77651309	4	1	211	1	0	0	0	0	0	1	0	0	10036	1095	38	1	2406	1	MYCBP2	13	77651309	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1253519	77651309	37518569	1202	103081											
SLITRK5	26050	broad.mit.edu	37	chr13	88328655	88328655	+	Missense_Mutation	SNP	A	G	G	1	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	ctaaggggactcgccaacccAacaagcccagggtgcgcccc	10	3	11	17	2	0	0	0	0	0	0	1	1	0	1	5	3	4	0	5	3	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:88328655A>G	uc001vln.2	+	2	1231	c.1012A>G	c.(1012-1014)AAC>GAC	p.N338D	SLITRK5_uc010tic.1_Missense_Mutation_p.N97D	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	338	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TCGCCAACCCAACAAGCCCAG	0.587													27	100					0	0	1	0	0		G	88328655	G	G	88328655	3	3	211	1	0	0	0	0	1	0	0	0	14771	130	5	3	1014	3	SLITRK5	13	88328655	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	10677346	88328655	26841223	1203	103082											
GPC5	2262	broad.mit.edu	37	chr13	92345659	92345659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaccacctcattaaccctGgtgtgactgacagttccctg	10	10	7	14	0	1	2	1	2	0	0	2	2	2	2	4	1	2	1	4	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:92345659G>A	uc010tif.1	+	3	910	c.544G>A	c.(544-546)GGT>AGT	p.G182S		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	182						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				CATTAACCCTGGTGTGACTGA	0.443													22	93					0	0	1	0	0		A	92345659	A	A	92345659	3	1	211	1	0	0	0	0	1	0	0	0	6616	1348	47	4	554	4	GPC5	13	92345659	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4017004	92345659	22824219	1204	103083											
SOX21	11166	broad.mit.edu	37	chr13	95364183	95364183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttccactcggcgcccaagcGcttgctgatctccgagttgt	5	12	10	14	4	1	1	0	1	1	0	4	2	2	1	3	1	2	3	3	1	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:95364183G>A	uc001vma.2	-	1	207	c.121C>T	c.(121-123)CGC>TGC	p.R41C	uc001vmb.1_5'Flank	NM_007084	NP_009015	Q9Y651	SOX21_HUMAN	SRY-box 21	41	HMG box.			R -> P (in Ref. 4; CAA50466).	regulation of transcription from RNA polymerase II promoter|stem cell differentiation	nucleus	DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity				0	all_neural(89;0.0646)|Medulloblastoma(90;0.163)					GCGCCCAAGCGCTTGCTGATC	0.627													15	71					0	0	1	0	0		A	95364183	A	A	95364183	3	1	211	1	0	0	0	0	1	0	0	0	14975	1087	38	1	713	1	SOX21	13	95364183	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3018524	95364183	19805695	1205	103084											
DZIP1	22873	broad.mit.edu	37	chr13	96293996	96293996	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggcaggggccccgaagcCgcgctggggggcgcacaggc	7	1	20	13	4	0	0	0	0	0	0	0	1	0	0	3	7	1	3	3	7	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:96293996C>T	uc001vmk.2	-	5	1002	c.150G>A	c.(148-150)GCG>GCA	p.A50A	DZIP1_uc001vml.2_Silent_p.A50A|DZIP1_uc001vmn.2_Silent_p.A39A	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2	50					germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			GCCCCGAAGCCGCGCTGGGGG	0.746													9	31					0	0	1	0	0		T	96293996	T	T	96293996	2	4	211	1	0	0	0	0	0	0	0	1	4869	639	23	1		1	DZIP1	13	96293996	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	929813	96293996	18875882	1206	103085											
RNF113B	140432	broad.mit.edu	37	chr13	98828808	98828808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgaccctcttcaagctccCgttcaatctcccacccgagc	8	8	6	19	3	4	0	2	0	2	0	6	2	5	0	4	0	3	2	4	0	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:98828808C>T	uc001vnk.2	-	1	714	c.683G>A	c.(682-684)CGG>CAG	p.R228Q	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	228							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			TTCAAGCTCCCGTTCAATCTC	0.522													33	61					0	0	1	0	0		T	98828808	T	T	98828808	3	4	211	1	0	0	0	0	1	0	0	0	13453	652	23	1	293	1	RNF113B	13	98828808	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2534812	98828808	16341070	1207	103086											
FARP1	10160	broad.mit.edu	37	chr13	99091389	99091389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgtcctgctatacacgagccGggggctgacggcctccaatc	7	7	12	15	4	0	1	0	1	0	0	3	2	2	1	4	3	3	2	4	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:99091389G>A	uc001vnj.2	+	21	2708	c.2372G>A	c.(2371-2373)CGG>CAG	p.R791Q	FARP1_uc001vnh.2_Missense_Mutation_p.R822Q	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	791	PH 1.				regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			TACACGAGCCGGGGGCTGACG	0.597													48	160					0	0	1	0	0		A	99091389	A	A	99091389	3	1	211	1	0	0	0	0	1	0	0	0	5690	1116	39	1	2673	1	FARP1	13	99091389	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	262581	99091389	16078489	1208	103087											
DOCK9	23348	broad.mit.edu	37	chr13	99532924	99532924	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatggctcagccttatacgcGtactttgaagaaaagagaaa	15	10	9	7	2	1	3	1	1	0	2	1	4	1	3	1	1	3	2	1	1	8	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:99532924G>A	uc001vnt.2	-	26	2806	c.2751C>T	c.(2749-2751)TAC>TAT	p.Y917Y	DOCK9_uc001vnw.2_Silent_p.Y916Y|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Silent_p.Y917Y|DOCK9_uc010tis.1_Silent_p.Y916Y|DOCK9_uc010tit.1_Silent_p.Y917Y|DOCK9_uc010afu.1_Silent_p.Y763Y	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	917					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CCTTATACGCGTACTTTGAAG	0.463													3	14					0	0	1	0	0		A	99532924	A	A	99532924	2	1	211	1	0	0	0	0	0	0	0	1	4700	1140	40	1		1	DOCK9	13	99532924	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	441535	99532924	15636954	1209	103088											
TM9SF2	9375	broad.mit.edu	37	chr13	100169934	100169934	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttcttccttatgaatacacaGcgtaagtttttcagcttggc	9	16	7	9	1	2	1	1	1	1	0	3	1	3	1	1	1	3	3	1	1	4	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:100169934G>A	uc001voj.1	+	2	371	c.238G>A	c.(238-240)GCG>ACG	p.A80T	TM9SF2_uc010afz.1_Missense_Mutation_p.A80T	NM_004800	NP_004791	Q99805	TM9S2_HUMAN	transmembrane 9 superfamily member 2 precursor	80	Lumenal (Potential).				transport	endosome membrane|integral to plasma membrane				ovary(1)	1	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.218)					TGAATACACAGCGTAAGTTTT	0.318													5	18					0	0	1	0	0		A	100169934	A	A	100169934	3	1	211	1	0	0	0	0	1	0	0	0	16003	985	34	2	244	2	TM9SF2	13	100169934	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	637010	100169934	14999944	1210	103089											
NALCN	259232	broad.mit.edu	37	chr13	101735208	101735208	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	actgacattgttgccaaaggTacggtcaccgggtcctcgac	9	9	11	12	3	1	1	1	1	0	0	3	2	2	1	3	3	2	2	3	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:101735208T>G	uc001vox.1	-	33	3906	c.3717A>C	c.(3715-3717)GTA>GTC	p.V1239V		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1239	Helical; Name=S2 of repeat IV; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					TTGCCAAAGGTACGGTCACCG	0.517													25	81					0	0	1	0	0		G	101735208	G	G	101735208	2	3	211	1	0	0	0	0	0	0	0	1	10166	1625	57	5		5	NALCN	13	101735208	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1565274	101735208	13434670	1211	103090											
COL4A2	1284	broad.mit.edu	37	chr13	111117863	111117863	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggccttcccggcctcaaaGgccaacgtggtttccctgga	6	9	12	14	2	1	0	1	0	0	0	3	1	3	1	5	5	1	1	5	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:111117863G>T	uc001vqx.2	+	25	2177	c.1888G>T	c.(1888-1890)GGC>TGC	p.G630C		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	630	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			CGGCCTCAAAGGCCAACGTGG	0.637													13	57					1.5842e-08	1.66063e-08	1	1	0		T	111117863	T	T	111117863	3	4	211	1	0	0	0	0	1	0	0	0	3693	1000	35	5	1982	5	COL4A2	13	111117863	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	9382655	111117863	4052015	1212	103091											
MCF2L	23263	broad.mit.edu	37	chr13	113728775	113728775	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caggtcaaagccatcttggaCgcagcgtcccagaagatagc	12	6	11	12	2	2	2	1	0	1	2	3	3	3	3	2	2	3	1	2	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr13:113728775C>T	uc001vsu.2	+	10	1207	c.1185C>T	c.(1183-1185)GAC>GAT	p.D395D	MCF2L_uc001vsq.2_Silent_p.D395D|MCF2L_uc010tjr.1_Silent_p.D338D|MCF2L_uc001vsr.2_Silent_p.D342D|MCF2L_uc001vss.3_Silent_p.D336D|MCF2L_uc010tjs.1_Silent_p.D336D|MCF2L_uc001vst.1_Silent_p.D300D	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	368	Spectrin.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CCATCTTGGACGCAGCGTCCC	0.587													25	69					0	0	1	0	0		T	113728775	T	T	113728775	2	4	211	1	0	0	0	0	0	0	0	1	9397	535	19	1		1	MCF2L	13	113728775	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2610912	113728775	1441103	1213	103092											
POTEG	404785	broad.mit.edu	37	chr14	19563437	19563437	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgctgtatgttgtggatcGgcaagtatagtcagccttct	7	15	11	8	1	2	0	1	0	1	0	3	1	2	1	1	2	2	5	1	2	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:19563437G>A	uc001vuz.1	+	5	1003	c.951G>A	c.(949-951)TCG>TCA	p.S317S	POTEG_uc001vva.1_RNA|POTEG_uc010ahc.1_RNA|uc001vvb.2_RNA	NM_001005356	NP_001005356	Q6S5H5	POTEG_HUMAN	POTE ankyrin domain family, member G	317	ANK 5.									ovary(1)	1						GTTGTGGATCGGCAAGTATAG	0.358													12	117					0	0	1	0	0		A	19563437	A	A	19563437	2	1	211	1	0	0	0	0	0	0	0	1	12285	1103	39	1		1	POTEG	14	19563437	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08		19563437	87786103	1214	103093											
OR4N2	390429	broad.mit.edu	37	chr14	20295661	20295661	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcatcctccttggtctgacCcagtctcaagatattcagct	8	14	6	13	0	4	2	3	1	2	1	7	2	6	2	3	1	1	1	3	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:20295661C>T	uc010tkv.1	+	1	54	c.54C>T	c.(52-54)ACC>ACT	p.T18T		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TTGGTCTGACCCAGTCTCAAG	0.383													38	162					0	0	1	0	0		T	20295661	T	T	20295661	2	4	211	1	0	0	0	0	0	0	0	1	11096	610	22	4		4	OR4N2	14	20295661	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	732224	20295661	87053879	1215	103094											
TEP1	7011	broad.mit.edu	37	chr14	20850793	20850793	+	Silent	SNP	G	A	A	0	0	1	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	agaactgacctgctcatacaGcgtgaagagcctcaggtgat	12	8	11	10	1	2	5	2	3	0	2	2	5	2	5	2	1	5	1	2	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:20850793G>A	uc001vxe.2	-	28	4169	c.4129C>T	c.(4129-4131)CTG>TTG	p.L1377L	TEP1_uc010ahk.2_Silent_p.L720L|TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Silent_p.L1269L|TEP1_uc010tlh.1_5'Flank	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	1377	NACHT.				telomere maintenance via recombination	chromosome, telomeric region|cytoplasm|nuclear matrix|soluble fraction|telomerase holoenzyme complex	ATP binding|RNA binding			ovary(5)	5	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;7.42e-08)|all cancers(55;6.46e-07)	GBM - Glioblastoma multiforme(265;0.028)|READ - Rectum adenocarcinoma(17;0.233)		TGCTCATACAGCGTGAAGAGC	0.547													33	69					0	0	1	0	0		A	20850793	A	A	20850793	2	1	211	1	0	0	0	0	0	0	0	1	15784	962	34	2		2	TEP1	14	20850793	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	555132	20850793	86498747	1216	103095											
METT11D1	64745	broad.mit.edu	37	chr14	21464425	21464425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggcctgtagcttctcacagGcgtaccatcccatccccttc	6	11	7	17	1	1	0	1	0	1	0	5	0	3	0	5	2	2	3	5	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:21464425G>A	uc001vyn.2	+	12	1251	c.1054G>A	c.(1054-1056)GCG>ACG	p.A352T	METT11D1_uc001vym.2_Missense_Mutation_p.A352T|METT11D1_uc001vyo.2_Missense_Mutation_p.A352T|METT11D1_uc001vyp.2_Missense_Mutation_p.A194T|METT11D1_uc001vyq.2_Missense_Mutation_p.A194T|SLC39A2_uc001vyr.2_5'Flank|SLC39A2_uc001vys.2_5'Flank	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	352					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		CTTCTCACAGGCGTACCATCC	0.478													78	162					0	0	1	0	0		A	21464425	A	A	21464425	3	1	211	1	0	0	0	0	1	0	0	0	9509	1203	42	2	1100	2	METT11D1	14	21464425	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	613632	21464425	85885115	1217	103096											
ZNF219	51222	broad.mit.edu	37	chr14	21561363	21561363	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcgctcacggctggcccGttggagtatcgctgcagatc	5	9	13	14	4	1	1	1	0	0	1	3	2	1	2	2	3	2	6	2	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:21561363G>A	uc001vzr.2	-	3	514	c.93C>T	c.(91-93)AAC>AAT	p.N31N	ZNF219_uc001vzs.2_Silent_p.N31N|ZNF219_uc010aik.1_Silent_p.N31N	NM_016423	NP_057507	Q9P2Y4	ZN219_HUMAN	zinc finger protein 219	31					negative regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|histamine receptor activity|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)	1	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)		CGGCTGGCCCGTTGGAGTATC	0.687											OREG0022565	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	15					0	0	1	0	0		A	21561363	A	A	21561363	2	1	211	1	0	0	0	0	0	0	0	1	17798	1136	40	1		1	ZNF219	14	21561363	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	96938	21561363	85788177	1218	103097											
RPGRIP1	57096	broad.mit.edu	37	chr14	21769319	21769319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccctgccagcccccgccGcgcccagcctcgcgtccaag	4	3	11	23	6	0	0	0	0	0	0	2	0	1	0	8	1	3	0	8	1	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:21769319G>A	uc001wag.2	+	3	413	c.413G>A	c.(412-414)CGC>CAC	p.R138H		NM_020366	NP_065099	Q96KN7	RPGR1_HUMAN	retinitis pigmentosa GTPase regulator	138					response to stimulus|visual perception	cilium				ovary(4)|breast(2)|pancreas(1)	7	all_cancers(95;0.0017)	all_cancers(140;0.0973)	Epithelial(56;6.24e-07)|all cancers(55;6.56e-06)	GBM - Glioblastoma multiforme(265;0.00888)		AGCCCCCGCCGCGCCCAGCCT	0.672													4	8					0	0	1	0	0		A	21769319	A	A	21769319	3	1	211	1	0	0	0	0	1	0	0	0	13574	1087	38	1	423	1	RPGRIP1	14	21769319	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	207956	21769319	85580221	1219	103098											
CHD8	57680	broad.mit.edu	37	chr14	21861839	21861839	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	tactcgcatctcatagtcttGtggggttggtcggctcctgg	4	14	13	10	2	2	0	1	0	2	0	6	0	3	0	1	5	1	3	1	5	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:21861839G>A	uc001was.1	-	32	5372	c.5278C>T	c.(5278-5280)CAA>TAA	p.Q1760*	CHD8_uc001war.1_Nonsense_Mutation_p.Q1656*|SNORD9_uc001wat.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2039					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TCATAGTCTTGTGGGGTTGGT	0.547													11	40					0	0	1	0	0		A	21861839	A	A	21861839	4	1	211	1	0	0	0	0	0	1	0	0	3334	1386	48	4	1658	4	CHD8	14	21861839	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	92520	21861839	85487701	1220	103099											
CHD8	57680	broad.mit.edu	37	chr14	21868737	21868737	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcatacgtcgcttgaagcGtccatgagataaaatatctc	13	11	8	9	3	2	2	1	2	1	1	5	3	3	2	1	0	2	1	1	0	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:21868737G>A	uc001was.1	-	23	3662	c.3568C>T	c.(3568-3570)CGC>TGC	p.R1190C	CHD8_uc001war.1_Missense_Mutation_p.R1086C|CHD8_uc001wav.1_Missense_Mutation_p.R632C	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	1469					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CGCTTGAAGCGTCCATGAGAT	0.423													8	26					0	0	1	0	0		A	21868737	A	A	21868737	3	1	211	1	0	0	0	0	1	0	0	0	3334	1145	40	1	3404	1	CHD8	14	21868737	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6898	21868737	85480803	1221	103100											
SALL2	6297	broad.mit.edu	37	chr14	21993476	21993476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ccccagccgctgtacctgtgGcagcgaccaggaaatgccct	8	6	11	16	2	0	0	0	0	0	0	0	2	0	1	6	2	4	3	6	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:21993476G>A	uc001wbe.2	-	2	668	c.386C>T	c.(385-387)GCC>GTC	p.A129V	SALL2_uc010tly.1_Missense_Mutation_p.A127V|SALL2_uc010tlz.1_Missense_Mutation_p.A127V|SALL2_uc001wbf.3_Missense_Mutation_p.A127V|SALL2_uc010tma.1_Missense_Mutation_p.A129V|SALL2_uc001wbg.1_Missense_Mutation_p.A129V	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	129							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		TGTACCTGTGGCAGCGACCAG	0.652													21	99					0	0	1	0	0		A	21993476	A	A	21993476	3	1	211	1	0	0	0	0	1	0	0	0	13836	1203	42	2	2641	2	SALL2	14	21993476	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	124739	21993476	85356064	1222	103101											
ACIN1	22985	broad.mit.edu	37	chr14	23530581	23530581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacgggaccttgatcgggaaCggggcccttctcgaactttg	7	9	13	12	4	1	1	0	1	1	0	3	4	1	3	2	4	2	0	2	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:23530581C>T	uc001wit.3	-	17	3852	c.3524G>A	c.(3523-3525)CGT>CAT	p.R1175H	ACIN1_uc001wio.3_RNA|ACIN1_uc001wip.3_Missense_Mutation_p.R417H|ACIN1_uc001wiq.3_Missense_Mutation_p.R417H|ACIN1_uc001wir.3_Missense_Mutation_p.R448H|ACIN1_uc001wis.3_Missense_Mutation_p.R856H|ACIN1_uc010akg.2_Missense_Mutation_p.R1162H	NM_014977	NP_055792	Q9UKV3	ACINU_HUMAN	apoptotic chromatin condensation inducer 1	1175	Arg/Asp/Glu/Lys-rich.				apoptotic chromosome condensation|erythrocyte differentiation|positive regulation of monocyte differentiation	cytosol	ATPase activity|enzyme binding|nucleic acid binding|nucleotide binding			ovary(2)|large_intestine(1)|skin(1)	4	all_cancers(95;1.36e-05)			GBM - Glioblastoma multiforme(265;0.00816)		TGATCGGGAACGGGGCCCTTC	0.577													39	76					0	0	1	0	0		T	23530581	T	T	23530581	3	4	211	1	0	0	0	0	1	0	0	0	142	536	19	1	513	1	ACIN1	14	23530581	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1537105	23530581	83818959	1223	103102											
CEBPE	1053	broad.mit.edu	37	chr14	23586911	23586911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcgatgttgttgcgctcccGcctcagccggtactcaaggc	5	9	13	14	4	2	0	2	0	0	0	3	1	3	0	3	3	3	4	3	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:23586911G>A	uc001wiv.1	-	2	805	c.631C>T	c.(631-633)CGG>TGG	p.R211W		NM_001805	NP_001796	Q15744	CEBPE_HUMAN	CCAAT/enhancer binding protein epsilon	211	Basic motif.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.0064)		TTGCGCTCCCGCCTCAGCCGG	0.617													30	92					0	0	1	0	0		A	23586911	A	A	23586911	3	1	211	1	0	0	0	0	1	0	0	0	3205	1086	38	1	218	1	CEBPE	14	23586911	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	56330	23586911	83762629	1224	103103											
MYH6	4624	broad.mit.edu	37	chr14	23853752	23853752	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctcaccctccagctcccGcacccgcgcttccagcttct	5	8	6	22	3	2	0	1	0	1	0	5	0	5	0	5	0	3	5	5	0	0	2	rs150589765		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:23853752G>A	uc001wjv.2	-	36	5531	c.5464C>T	c.(5464-5466)CGG>TGG	p.R1822W		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1822	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		TCCAGCTCCCGCACCCGCGCT	0.642													33	97					0	0	1	0	0		A	23853752	A	A	23853752	3	1	211	1	0	0	0	0	1	0	0	0	10056	1086	38	1	371	1	MYH6	14	23853752	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	266841	23853752	83495788	1225	103104											
JPH4	84502	broad.mit.edu	37	chr14	24040144	24040144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagaggatctcaccggctggGcaggcctctcggttgcagcg	6	7	15	13	3	2	1	1	0	2	1	4	2	2	2	2	5	2	4	2	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:24040144G>A	uc001wkq.2	-	6	2714	c.1796C>T	c.(1795-1797)GCC>GTC	p.A599V	AP1G2_uc001wkl.2_5'Flank|AP1G2_uc001wkn.2_5'Flank|AP1G2_uc010tnp.1_5'Flank|AP1G2_uc010akt.2_5'Flank|JPH4_uc010tnr.1_Missense_Mutation_p.A264V|JPH4_uc001wkr.2_Missense_Mutation_p.A599V	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	599	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		CACCGGCTGGGCAGGCCTCTC	0.637													3	7					0	0	1	0	0		A	24040144	A	A	24040144	3	1	211	1	0	0	0	0	1	0	0	0	7979	1203	42	2	98	2	JPH4	14	24040144	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	186392	24040144	83309396	1226	103105											
LRRC16B	90668	broad.mit.edu	37	chr14	24523605	24523605	+	Missense_Mutation	SNP	A	G	G	1	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	tgacgcttcgtctcccccagAtcctggtggagacggagcgt	6	9	13	13	4	1	3	0	1	1	2	4	5	2	4	3	3	1	1	3	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:24523605A>G	uc001wlj.2	+	5	404	c.247A>G	c.(247-249)ATC>GTC	p.I83V		NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	83										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		TCTCCCCCAGATCCTGGTGGA	0.607													32	72					0	0	1	0	0		G	24523605	G	G	24523605	3	3	211	1	0	0	0	0	1	0	0	0	8990	347	12	3	265	3	LRRC16B	14	24523605	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	483461	24523605	82825935	1227	103106											
NFATC4	4776	broad.mit.edu	37	chr14	24838726	24838726	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actggactcagaggatgcccCgccatgctgccgtctggcct	6	8	12	15	2	2	1	1	0	1	1	2	3	2	3	5	3	3	1	5	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:24838726C>T	uc001wpc.2	+	2	443	c.122C>T	c.(121-123)CCG>CTG	p.P41L	NFATC4_uc010tok.1_Missense_Mutation_p.P104L|NFATC4_uc010tol.1_Missense_Mutation_p.P104L|NFATC4_uc010alr.2_Missense_Mutation_p.P104L|NFATC4_uc010als.2_Missense_Mutation_p.P54L|NFATC4_uc010tom.1_Missense_Mutation_p.P54L|NFATC4_uc010ton.1_Missense_Mutation_p.P54L|NFATC4_uc010too.1_Missense_Mutation_p.P54L|NFATC4_uc010alt.2_Missense_Mutation_p.P73L|NFATC4_uc010top.1_Missense_Mutation_p.P73L|NFATC4_uc010toq.1_Missense_Mutation_p.P73L|NFATC4_uc010alu.2_Missense_Mutation_p.P41L|NFATC4_uc010tor.1_Missense_Mutation_p.P41L|NFATC4_uc010tos.1_5'UTR|NFATC4_uc010tot.1_Missense_Mutation_p.P29L|NFATC4_uc010tou.1_5'UTR|NFATC4_uc010tov.1_Missense_Mutation_p.P29L|NFATC4_uc010tow.1_5'UTR|NFATC4_uc010alv.2_Missense_Mutation_p.P29L|NFATC4_uc010tox.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	41	Pro-rich.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		GAGGATGCCCCGCCATGCTGC	0.607													91	255					0	0	1	0	0		T	24838726	T	T	24838726	3	4	211	1	0	0	0	0	1	0	0	0	10384	652	23	1	321	1	NFATC4	14	24838726	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	315121	24838726	82510814	1228	103107											
PRKD1	5587	broad.mit.edu	37	chr14	30066753	30066753	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatgaaagctgcattctgaAtttggtcgtgtatgtcttca	10	15	9	7	1	3	2	1	2	2	0	4	2	3	2	0	1	2	3	0	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:30066753A>G	uc001wqh.2	-	16	2559	c.2378T>C	c.(2377-2379)ATT>ACT	p.I793T		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	793	Protein kinase.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TGCATTCTGAATTTGGTCGTG	0.373													31	90					0	0	1	0	0		G	30066753	G	G	30066753	3	3	211	1	0	0	0	0	1	0	0	0	12540	101	4	3	372	3	PRKD1	14	30066753	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	5228027	30066753	77282787	1229	103108											
PRKD1	5587	broad.mit.edu	37	chr14	30135409	30135409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgaaagtcttcaaaggtggCggaagctgtaaaaatagtga	15	9	12	5	1	2	2	1	2	1	0	2	3	2	3	0	3	1	2	0	3	7	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:30135409C>T	uc001wqh.2	-	3	590	c.409G>A	c.(409-411)GCC>ACC	p.A137T		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	137					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TCAAAGGTGGCGGAAGCTGTA	0.403													28	70					0	0	1	0	0		T	30135409	T	T	30135409	3	4	211	1	0	0	0	0	1	0	0	0	12540	768	27	1	2393	1	PRKD1	14	30135409	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	68656	30135409	77214131	1230	103109											
AKAP6	9472	broad.mit.edu	37	chr14	33291887	33291887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggatataagcgtgagcagtgGctcagttggtgaactaagta	12	10	14	5	1	1	2	1	2	0	0	1	3	1	3	0	3	3	4	0	3	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:33291887G>A	uc001wrq.2	+	13	5038	c.4868G>A	c.(4867-4869)GGC>GAC	p.G1623D		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1623	Ser-rich.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		GTGAGCAGTGGCTCAGTTGGT	0.418													19	57					0	0	1	0	0		A	33291887	A	A	33291887	3	1	211	1	0	0	0	0	1	0	0	0	455	1203	42	2	4914	2	AKAP6	14	33291887	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3156478	33291887	74057653	1231	103110											
AKAP6	9472	broad.mit.edu	37	chr14	33291932	33291932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacattagatctcctgaatcGtttggagaatatccagagcc	13	11	8	9	1	1	4	0	1	1	3	4	5	2	4	3	1	2	1	3	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:33291932G>A	uc001wrq.2	+	13	5083	c.4913G>A	c.(4912-4914)CGT>CAT	p.R1638H		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1638	Ser-rich.				protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CTCCTGAATCGTTTGGAGAAT	0.428													10	58					0	0	1	0	0		A	33291932	A	A	33291932	3	1	211	1	0	0	0	0	1	0	0	0	455	1145	40	1	4959	1	AKAP6	14	33291932	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	45	33291932	74057608	1232	103111											
SOS2	6655	broad.mit.edu	37	chr14	50623748	50623748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggttggacatattccttgcGaaatcttttaaggtctgcac	9	15	9	8	1	2	0	0	0	2	0	3	2	3	1	1	3	2	2	1	3	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:50623748G>A	uc001wxs.3	-	12	2124	c.2026C>T	c.(2026-2028)CGC>TGC	p.R676C	SOS2_uc010tql.1_Missense_Mutation_p.R643C|SOS2_uc010tqm.1_RNA|SOS2_uc001wxt.2_Missense_Mutation_p.R364C	NM_006939	NP_008870	Q07890	SOS2_HUMAN	son of sevenless homolog 2	676	N-terminal Ras-GEF.				apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	DNA binding|protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(2)	2	all_epithelial(31;0.000822)|Breast(41;0.0065)					TATTCCTTGCGAAATCTTTTA	0.338													8	20					0	0	1	0	0		A	50623748	A	A	50623748	3	1	211	1	0	0	0	0	1	0	0	0	14962	1058	37	1	2020	1	SOS2	14	50623748	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	17331816	50623748	56725792	1233	103112											
TRIM9	114088	broad.mit.edu	37	chr14	51561062	51561062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctaggggcccccggggcGggtggcagcgcaggcggcac	4	3	21	13	4	0	0	0	0	0	0	0	0	0	0	2	9	1	4	2	9	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:51561062G>A	uc001wyx.3	-	1	1361	c.596C>T	c.(595-597)CCG>CTG	p.P199L	TRIM9_uc001wyy.2_Missense_Mutation_p.P199L|TRIM9_uc001wyz.3_Missense_Mutation_p.P199L	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	199	B box-type 1.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					CCCCCGGGGCGGGTGGCAGCG	0.687													10	17					0	0	1	0	0		A	51561062	A	A	51561062	3	1	211	1	0	0	0	0	1	0	0	0	16575	1116	39	1	1626	1	TRIM9	14	51561062	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	937314	51561062	55788478	1234	103113											
NID2	22795	broad.mit.edu	37	chr14	52494043	52494043	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgactgccatcctcacagggGttggcaggtggggtgatcac	7	9	15	10	0	2	2	2	2	0	0	3	2	3	2	2	6	1	2	2	6	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:52494043G>A	uc001wzo.2	-	12	2784	c.2550C>T	c.(2548-2550)AAC>AAT	p.N850N	NID2_uc010tqs.1_Intron|NID2_uc010tqt.1_Silent_p.N850N|NID2_uc001wzp.2_Silent_p.N850N	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	850	EGF-like 4.					basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					CCTCACAGGGGTTGGCAGGTG	0.488													10	14					0	0	1	0	0		A	52494043	A	A	52494043	2	1	211	1	0	0	0	0	0	0	0	1	10434	1252	44	4		4	NID2	14	52494043	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	932981	52494043	54855497	1235	103114											
NID2	22795	broad.mit.edu	37	chr14	52520475	52520475	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtagggctggatgcttccGttttcggggtacggtggtgg	3	12	20	6	3	0	0	0	0	0	0	2	1	1	1	1	8	2	5	1	8	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:52520475G>A	uc001wzo.2	-	5	1485	c.1251C>T	c.(1249-1251)AAC>AAT	p.N417N	NID2_uc010tqs.1_Silent_p.N417N|NID2_uc010tqt.1_Silent_p.N417N|NID2_uc001wzp.2_Silent_p.N417N	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	417						basement membrane	calcium ion binding|collagen binding			pancreas(2)|breast(2)|ovary(1)|liver(1)|skin(1)	7	Breast(41;0.0639)|all_epithelial(31;0.123)					GGATGCTTCCGTTTTCGGGGT	0.557													30	83					0	0	1	0	0		A	52520475	A	A	52520475	2	1	211	1	0	0	0	0	0	0	0	1	10434	1136	40	1		1	NID2	14	52520475	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	26432	52520475	54829065	1236	103115											
KCNH5	27133	broad.mit.edu	37	chr14	63453879	63453879	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggctatttgtcaaagcccGtgtcaatcgggcaaatttcg	9	12	10	10	4	2	0	2	0	0	0	5	0	2	0	1	2	1	2	1	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:63453879G>A	uc001xfx.2	-	5	511	c.460C>T	c.(460-462)CGG>TGG	p.R154W	KCNH5_uc001xfy.2_Missense_Mutation_p.R154W|KCNH5_uc001xfz.1_Missense_Mutation_p.R96W|KCNH5_uc001xga.2_Missense_Mutation_p.R96W	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	154	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GTCAAAGCCCGTGTCAATCGG	0.383													32	77					0	0	1	0	0		A	63453879	A	A	63453879	3	1	211	1	0	0	0	0	1	0	0	0	8051	1144	40	1	2568	1	KCNH5	14	63453879	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10933404	63453879	43895661	1237	103116											
SYNE2	23224	broad.mit.edu	37	chr14	64519635	64519635	+	Frame_Shift_Del	DEL	A	-	-																															tcttacaggtattgaaacttAaaaaagtgtttgactatatt																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:64519635delA	uc001xgm.2	+	48	9234	c.9004delA	c.(9004-9006)AAAfs	p.K3002fs	SYNE2_uc001xgl.2_Frame_Shift_Del_p.K3002fs	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3002	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		ATTGAAACTTAAAAAAGTGTT	0.303													28	62	---	---	---	---						.	-	64519635	-	-	64519635	7	5	211	1	0	1	0	1	0	0	0	0	15471	363	13	0	9190	0	SYNE2	14	64519635	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1065756	64519635	42829905	1238	103117											
SYNE2	23224	broad.mit.edu	37	chr14	64681059	64681059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctagtggccccagggcacGagcggtctggctgcgagacc	7	6	15	13	3	2	1	0	0	2	1	2	3	2	1	3	4	2	2	3	4	1	1	rs140450053	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:64681059G>A	uc001xgm.2	+	106	19434	c.19204G>A	c.(19204-19206)GAG>AAG	p.E6402K	SYNE2_uc001xgl.2_Missense_Mutation_p.E6402K|SYNE2_uc010apy.2_Missense_Mutation_p.E2787K|SYNE2_uc001xgn.2_Missense_Mutation_p.E1364K|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.E372K|SYNE2_uc001xgq.2_Missense_Mutation_p.E767K|SYNE2_uc001xgr.2_Missense_Mutation_p.E185K|SYNE2_uc010tsi.1_Missense_Mutation_p.E36K|SYNE2_uc001xgs.2_Missense_Mutation_p.E36K|SYNE2_uc001xgt.2_5'Flank	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6402	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)		CCCAGGGCACGAGCGGTCTGG	0.622													6	132					0	0	1	0	0		A	64681059	A	A	64681059	3	1	211	1	0	0	0	0	1	0	0	0	15471	1059	37	1	19622	1	SYNE2	14	64681059	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	161424	64681059	42668481	1239	103118											
C14orf50	145376	broad.mit.edu	37	chr14	65054951	65054951	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaaaagtatcatcaagtagaCgtcagattcccagccgagat	16	8	8	9	2	3	3	3	0	0	3	4	4	4	3	2	0	1	2	2	0	5	3	rs147167561	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:65054951C>T	uc001xhl.1	+	11	1116	c.1020C>T	c.(1018-1020)GAC>GAT	p.D340D	C14orf50_uc001xhm.1_Silent_p.D70D	NM_172365	NP_758953	Q96LQ0	CN050_HUMAN	hypothetical protein LOC145376	340										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00382)|all cancers(60;0.00427)|BRCA - Breast invasive adenocarcinoma(234;0.0488)		ATCAAGTAGACGTCAGATTCC	0.473													28	73					0	0	1	0	0		T	65054951	T	T	65054951	2	4	211	1	0	0	0	0	0	0	0	1	1780	535	19	1		1	C14orf50	14	65054951	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	373892	65054951	42294589	1240	103119											
MAX	4149	broad.mit.edu	37	chr14	65543363	65543363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagttgggcacttgacctcGccttctccagtgcacggact	6	10	11	14	2	1	1	0	1	1	0	3	2	1	2	3	2	1	4	3	2	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:65543363G>A	uc001xif.1	-	5	484	c.314C>T	c.(313-315)GCG>GTG	p.A105V	MAX_uc001xic.1_Intron|MAX_uc001xie.1_3'UTR|MAX_uc010aql.1_Nonsense_Mutation_p.R19*|MAX_uc001xig.1_Missense_Mutation_p.A96V|MAX_uc001xih.1_RNA	NM_002382	NP_002373	P61244	MAX_HUMAN	MAX protein isoform a	105					transcription from RNA polymerase II promoter	cytoplasm|MLL1 complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			lung(1)	1				all cancers(60;0.000776)|OV - Ovarian serous cystadenocarcinoma(108;0.00359)|BRCA - Breast invasive adenocarcinoma(234;0.00999)		ACTTGACCTCGCCTTCTCCAG	0.577													41	116					0	0	1	0	0		A	65543363	A	A	65543363	3	1	211	1	0	0	0	0	1	0	0	0	9357	1087	38	1	257	1	MAX	14	65543363	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	488412	65543363	41806177	1241	103120											
GALNTL1	57452	broad.mit.edu	37	chr14	69798253	69798253	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcctaccttgcagcatctGctgaccttcgtggaggtgag	6	12	12	11	1	1	2	0	2	1	0	2	3	1	3	3	2	5	3	3	2	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:69798253G>A	uc010aqu.1	+	7	856	c.763G>A	c.(763-765)GCT>ACT	p.A255T	GALNTL1_uc001xla.1_Missense_Mutation_p.A255T|GALNTL1_uc001xlb.1_Missense_Mutation_p.A255T	NM_020692	NP_065743	Q8N428	GLTL1_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	255	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|central_nervous_system(1)	2				all cancers(60;0.00793)|BRCA - Breast invasive adenocarcinoma(234;0.0174)|OV - Ovarian serous cystadenocarcinoma(108;0.0656)		TGCAGCATCTGCTGACCTTCG	0.542													53	142					0	0	1	0	0		A	69798253	A	A	69798253	3	1	211	1	0	0	0	0	1	0	0	0	6236	1319	46	2	789	2	GALNTL1	14	69798253	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4254890	69798253	37551287	1242	103121											
PCNX	22990	broad.mit.edu	37	chr14	71575563	71575563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggaaccctcaggtcagagcGgcctggcctgtgtgcagcac	7	7	14	13	1	2	1	2	0	0	1	2	2	2	2	3	4	4	2	3	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:71575563G>A	uc001xmo.2	+	34	6990	c.6544G>A	c.(6544-6546)GGC>AGC	p.G2182S	PCNX_uc010are.1_Missense_Mutation_p.G2071S|PCNX_uc010arf.1_Missense_Mutation_p.G970S|PCNX_uc001xmp.2_Missense_Mutation_p.G266S	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	2182	Ser-rich.					integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		AGGTCAGAGCGGCCTGGCCTG	0.562													15	67					0	0	1	0	0		A	71575563	A	A	71575563	3	1	211	1	0	0	0	0	1	0	0	0	11610	1116	39	1	6678	1	PCNX	14	71575563	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1777310	71575563	35773977	1243	103122											
SIPA1L1	26037	broad.mit.edu	37	chr14	72191431	72191431	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatagcccacaccaggctgcGtgcctcaaccagagacctcc	11	5	8	17	1	1	1	1	0	0	1	2	2	2	1	6	1	4	1	6	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:72191431G>A	uc001xms.2	+	17	4904	c.4556G>A	c.(4555-4557)CGT>CAT	p.R1519H	SIPA1L1_uc001xmt.2_Missense_Mutation_p.R1498H|SIPA1L1_uc001xmu.2_Missense_Mutation_p.R1498H|SIPA1L1_uc001xmv.2_Missense_Mutation_p.R1519H|SIPA1L1_uc010ttm.1_Missense_Mutation_p.R973H|SIPA1L1_uc001xmw.2_Missense_Mutation_p.R284H	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1519					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4				all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)		ACCAGGCTGCGTGCCTCAACC	0.493													17	51					0	0	1	0	0		A	72191431	A	A	72191431	3	1	211	1	0	0	0	0	1	0	0	0	14354	1145	40	1	4618	1	SIPA1L1	14	72191431	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	615868	72191431	35158109	1244	103123											
RGS6	9628	broad.mit.edu	37	chr14	72818895	72818895	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctccaaaatccccagtgtCgtcacaggtaacaccctcct	10	9	5	17	1	2	0	1	0	1	0	6	0	4	0	5	1	1	1	5	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:72818895C>T	uc001xna.3	+	3	700	c.177C>T	c.(175-177)GTC>GTT	p.V59V	RGS6_uc010ttn.1_Silent_p.V59V|RGS6_uc001xmx.3_Silent_p.V59V|RGS6_uc010tto.1_RNA|RGS6_uc001xmy.3_Silent_p.V59V	NM_004296	NP_004287	P49758	RGS6_HUMAN	regulator of G-protein signalling 6	59	DEP.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			upper_aerodigestive_tract(1)|lung(1)|skin(1)	3				all cancers(60;0.00309)|BRCA - Breast invasive adenocarcinoma(234;0.0281)|STAD - Stomach adenocarcinoma(64;0.0302)|OV - Ovarian serous cystadenocarcinoma(108;0.0476)		TCCCCAGTGTCGTCACAGGTA	0.463													6	27					0	0	1	0	0		T	72818895	T	T	72818895	2	4	211	1	0	0	0	0	0	0	0	1	13334	871	31	1		1	RGS6	14	72818895	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	627464	72818895	34530645	1245	103124											
ABCD4	5826	broad.mit.edu	37	chr14	74769598	74769598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgccagctccgggcgcGggccccgcgaccgccatgac	4	3	15	19	7	0	1	0	1	0	0	1	2	1	1	6	3	1	1	6	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:74769598G>A	uc001xpr.2	-	1	170	c.18C>T	c.(16-18)CCC>CCT	p.P6P	ABCD4_uc001xps.2_5'UTR|ABCD4_uc001xpt.2_5'UTR|ABCD4_uc010tur.1_5'UTR|ABCD4_uc001xpu.2_5'UTR|ABCD4_uc001xpv.2_RNA	NM_005050	NP_005041	O14678	ABCD4_HUMAN	ATP-binding cassette, sub-family D, member 4	6						ATP-binding cassette (ABC) transporter complex|integral to membrane|peroxisomal membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			upper_aerodigestive_tract(2)|large_intestine(1)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00153)		CTCCGGGCGCGGGCCCCGCGA	0.701											OREG0022802	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	28					0	0	1	0	0		A	74769598	A	A	74769598	2	1	211	1	0	0	0	0	0	0	0	1	63	1103	39	1		1	ABCD4	14	74769598	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1950703	74769598	32579942	1246	103125											
LTBP2	4053	broad.mit.edu	37	chr14	74995671	74995671	+	Silent	SNP	C	T	T	0	0	0	1	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	aggaggttacctgtgccaggCagagggcatttctcacactc	9	9	12	11	0	1	1	1	0	1	1	3	2	1	2	2	4	2	3	2	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:74995671C>T	uc001xqa.2	-	11	2529	c.2142G>A	c.(2140-2142)CTG>CTA	p.L714L		NM_000428	NP_000419	Q14767	LTBP2_HUMAN	latent transforming growth factor beta binding	714	TB 2.				protein secretion|protein targeting|transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|growth factor binding			liver(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00219)|READ - Rectum adenocarcinoma(1;0.0649)		CTGTGCCAGGCAGAGGGCATT	0.607													3	11					0	0	1	0	0		T	74995671	T	T	74995671	2	4	211	1	0	0	0	0	0	0	0	1	9092	697	25	2		2	LTBP2	14	74995671	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	226073	74995671	32353869	1247	103126											
RPS6KL1	83694	broad.mit.edu	37	chr14	75376455	75376455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccacagccccctagcaccGggccggccccctcaggaacc	7	2	11	21	2	1	0	1	0	0	0	1	1	1	1	8	4	3	1	8	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:75376455G>A	uc010tux.1	-	7	1589	c.1061C>T	c.(1060-1062)CCG>CTG	p.P354L	RPS6KL1_uc001xqx.1_Missense_Mutation_p.P106L|RPS6KL1_uc001xqw.2_Missense_Mutation_p.P323L|RPS6KL1_uc010asd.1_RNA	NM_031464	NP_113652	Q9Y6S9	RPKL1_HUMAN	ribosomal protein S6 kinase-like 1	354	Protein kinase.					ribosome	ATP binding|protein serine/threonine kinase activity			ovary(1)|stomach(1)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00658)		CCCTAGCACCGGGCCGGCCCC	0.701													10	17					0	0	1	0	0		A	75376455	A	A	75376455	3	1	211	1	0	0	0	0	1	0	0	0	13684	1116	39	1	681	1	RPS6KL1	14	75376455	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	380784	75376455	31973085	1248	103127											
MLH3	27030	broad.mit.edu	37	chr14	75516318	75516318	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcttatggccaaaccagaaCgcaatttggcttgtacttca	12	11	8	10	1	1	1	1	0	0	1	1	1	1	1	2	2	4	4	2	2	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:75516318C>T	uc001xrd.1	-	2	257	c.41G>A	c.(40-42)CGT>CAT	p.R14H	MLH3_uc001xre.1_Missense_Mutation_p.R14H|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	14					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		CAAACCAGAACGCAATTTGGC	0.453								MMR					8	31					0	0	1	0	0		T	75516318	T	T	75516318	3	4	211	1	0	0	0	0	1	0	0	0	9636	536	19	1	4368	1	MLH3	14	75516318	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	139863	75516318	31833222	1249	103128											
C14orf118	55668	broad.mit.edu	37	chr14	76620816	76620816	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcccccgacagcagaggcGgcagcttcggaaacgccgag	10	2	15	14	5	0	1	0	0	0	1	1	5	0	2	3	3	4	3	3	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:76620816G>A	uc001xsh.2	+	2	196	c.110G>A	c.(109-111)CGG>CAG	p.R37Q	C14orf118_uc001xsi.2_Missense_Mutation_p.R37Q|C14orf118_uc001xsj.1_Missense_Mutation_p.R37Q|C14orf118_uc001xsk.1_Missense_Mutation_p.R37Q|C14orf118_uc001xsl.2_RNA	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1	37	Arg-rich.									ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		CAGCAGAGGCGGCAGCTTCGG	0.582													23	61					0	0	1	0	0		A	76620816	A	A	76620816	3	1	211	1	0	0	0	0	1	0	0	0	1744	1116	39	1	112	1	C14orf118	14	76620816	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1104498	76620816	30728724	1250	103129											
STON2	85439	broad.mit.edu	37	chr14	81744277	81744277	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgctcataatacagctGcaggtaaccagtgtctgtca	10	10	9	12	0	3	0	2	0	1	0	3	0	3	0	2	1	5	4	2	1	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:81744277G>A	uc010tvu.1	-	4	1579	c.1378C>T	c.(1378-1380)CAG>TAG	p.Q460*	STON2_uc001xvk.1_Nonsense_Mutation_p.Q460*|STON2_uc010tvt.1_Nonsense_Mutation_p.Q257*	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	460	SHD.				endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		TAATACAGCTGCAGGTAACCA	0.483													67	185					0	0	1	0	0		A	81744277	A	A	81744277	4	1	211	1	0	0	0	0	0	1	0	0	15343	1328	46	2	1345	2	STON2	14	81744277	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5123461	81744277	25605263	1251	103130											
TTC7B	145567	broad.mit.edu	37	chr14	91247217	91247217	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttccacataattcaacttggCcatgatcagattggattctt	11	15	6	9	0	3	2	2	1	1	1	4	3	4	3	2	2	1	0	2	2	2	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:91247217C>A	uc001xyp.2	-	3	432	c.310G>T	c.(310-312)GCC>TCC	p.A104S		NM_001010854	NP_001010854	Q86TV6	TTC7B_HUMAN	tetratricopeptide repeat domain 7B	104	TPR 1.						binding			ovary(2)	2		Melanoma(154;0.222)				TTCAACTTGGCCATGATCAGA	0.463													14	65					0.000308642	0.000316439	1	1	0		A	91247217	A	A	91247217	3	1	211	1	0	0	0	0	1	0	0	0	16739	739	26	5	2293	5	TTC7B	14	91247217	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	9502940	91247217	16102323	1252	103131											
C14orf159	80017	broad.mit.edu	37	chr14	91671055	91671055	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccttcccttcaggagtcGgtgatggaggcaacgagctt	7	10	12	12	2	1	1	1	1	0	0	4	4	3	3	3	4	2	2	3	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:91671055G>A	uc001xzb.2	+	14	2203	c.1435G>A	c.(1435-1437)GGT>AGT	p.G479S	C14orf159_uc001xyx.2_Intron|C14orf159_uc001xyw.2_Missense_Mutation_p.G484S|C14orf159_uc001xzc.2_Missense_Mutation_p.G479S|C14orf159_uc001xza.2_Missense_Mutation_p.G484S|C14orf159_uc001xyv.2_Intron|C14orf159_uc001xyz.2_Missense_Mutation_p.G355S|C14orf159_uc001xze.2_Missense_Mutation_p.G479S	NM_001102366	NP_001095836	Q7Z3D6	CN159_HUMAN	hypothetical protein LOC80017 isoform a	479						mitochondrion				central_nervous_system(2)|ovary(1)	3		all_cancers(154;0.0191)|all_epithelial(191;0.241)		Epithelial(152;0.141)|OV - Ovarian serous cystadenocarcinoma(161;0.207)		TTCAGGAGTCGGTGATGGAGG	0.597													10	17					0	0	1	0	0		A	91671055	A	A	91671055	3	1	211	1	0	0	0	0	1	0	0	0	1758	1116	39	1	1488	1	C14orf159	14	91671055	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	423838	91671055	15678485	1253	103132											
SMEK1	55671	broad.mit.edu	37	chr14	91948517	91948517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggtcctgagtgatgtccacGgaagggtcctttccttgaac	8	11	12	10	1	0	3	0	3	0	0	4	4	4	4	4	3	1	0	4	3	2	2	rs138032388		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:91948517G>A	uc001xzn.2	-	4	1140	c.318C>T	c.(316-318)TCC>TCT	p.S106S	SMEK1_uc001xzm.2_Silent_p.S106S|SMEK1_uc001xzo.2_Silent_p.S106S|SMEK1_uc010atz.2_Intron|SMEK1_uc001xzp.1_RNA|SMEK1_uc001xzq.1_5'UTR	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	106						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		TGATGTCCACGGAAGGGTCCT	0.403													8	41					0	0	1	0	0		A	91948517	A	A	91948517	2	1	211	1	0	0	0	0	0	0	0	1	14818	1103	39	1		1	SMEK1	14	91948517	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	277462	91948517	15401023	1254	103133											
CPSF2	53981	broad.mit.edu	37	chr14	92620755	92620756	+	Frame_Shift_Del	DEL	AG	-	-																															cttgaagaatacttggaaaaAgagaaactaaagaaagaagc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:92620755_92620756delAG	uc001yah.1	+	10	1431_1432	c.1194_1195delAG	c.(1192-1197)AAAGAGfs	p.K398fs		NM_017437	NP_059133	Q9P2I0	CPSF2_HUMAN	cleavage and polyadenylation specific factor 2	398_399					histone mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	hydrolase activity|protein binding|RNA binding			ovary(2)	2		all_cancers(154;0.0766)		COAD - Colon adenocarcinoma(157;0.222)		ACTTGGAAAAAGAGAAACTAAA	0.302													14	20	---	---	---	---						.	-	92620756	-	-	92620755	7	5	211	1	0	1	0	1	0	0	0	0	3828	69	3	0	1224	0	CPSF2	14	92620755	Frame_Shift_Del	DEL	AG	TCGA-HU-A4GQ-01A-11D-A25D-08	672238	92620755	14728785	1255	103134											
SLC24A4	123041	broad.mit.edu	37	chr14	92959869	92959869	+	Missense_Mutation	SNP	T	C	C	0	1	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	actggaccggaagctgggtgTctacgtgctggttctctacg	6	11	14	10	3	2	0	0	0	2	0	3	2	2	2	1	4	4	3	1	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:92959869T>C	uc001yak.2	+	17	1739	c.1715T>C	c.(1714-1716)GTC>GCC	p.V572A	SLC24A4_uc001yai.2_Missense_Mutation_p.V525A|SLC24A4_uc010twm.1_Missense_Mutation_p.V570A|SLC24A4_uc001yaj.2_Missense_Mutation_p.V553A|SLC24A4_uc010auj.2_3'UTR|SLC24A4_uc010twn.1_Missense_Mutation_p.V345A|SLC24A4_uc001yan.2_Missense_Mutation_p.V283A	NM_153646	NP_705932	Q8NFF2	NCKX4_HUMAN	solute carrier family 24 member 4 isoform 1	589	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			breast(2)|ovary(1)	3		all_cancers(154;0.0347)|all_epithelial(191;0.163)		Colorectal(1;0.00242)|COAD - Colon adenocarcinoma(157;0.047)|Epithelial(152;0.0781)|READ - Rectum adenocarcinoma(1;0.176)|all cancers(159;0.182)		AAGCTGGGTGTCTACGTGCTG	0.517													8	38					0	0	1	0	0		C	92959869	C	C	92959869	3	2	211	1	0	0	0	0	1	0	0	0	14493	1667	58	3	1781	3	SLC24A4	14	92959869	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	339114	92959869	14389671	1256	103135											
COX8C	341947	broad.mit.edu	37	chr14	93813694	93813694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcctgcagcccgctccccGcttcgcccactcggggcccc	2	5	11	23	5	0	0	0	0	0	0	3	0	1	0	7	3	2	3	7	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:93813694G>A	uc001ybt.1	+	1	158	c.80G>A	c.(79-81)CGC>CAC	p.R27H	KIAA1409_uc001ybs.1_Intron	NM_182971	NP_892016	Q7Z4L0	COX8C_HUMAN	cytochrome c oxidase subunit VIIIc	27						integral to membrane|mitochondrial inner membrane	cytochrome-c oxidase activity				0		all_cancers(154;0.083)		Epithelial(152;0.176)|all cancers(159;0.197)|COAD - Colon adenocarcinoma(157;0.202)		CCCGCTCCCCGCTTCGCCCAC	0.741													7	9					0	0	1	0	0		A	93813694	A	A	93813694	3	1	211	1	0	0	0	0	1	0	0	0	3789	1087	38	1	82	1	COX8C	14	93813694	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	853825	93813694	13535846	1257	103136											
ASB2	51676	broad.mit.edu	37	chr14	94413727	94413727	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcttggaggcgatgtgcagCgggagcaagccgtccttgtt	6	11	15	9	3	1	0	0	0	1	0	2	3	2	2	2	3	4	3	2	3	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:94413727C>T	uc001ycc.1	-	5	1365	c.876G>A	c.(874-876)CCG>CCA	p.P292P	ASB2_uc001ycd.2_Silent_p.P340P|ASB2_uc001yce.1_Silent_p.P238P	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	292	ANK 8.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		CGATGTGCAGCGGGAGCAAGC	0.622													27	66					0	0	1	0	0		T	94413727	T	T	94413727	2	4	211	1	0	0	0	0	0	0	0	1	1024	755	27	1		1	ASB2	14	94413727	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	600033	94413727	12935813	1258	103137											
C14orf49	161176	broad.mit.edu	37	chr14	95934206	95934206	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcagccgggccaggatcccGggcttctggtccccagggca	5	7	14	15	2	2	0	1	0	1	0	4	1	4	1	5	5	1	2	5	5	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:95934206G>A	uc001yei.3	-	2	258	c.243C>T	c.(241-243)CCC>CCT	p.P81P	C14orf49_uc010avi.2_Silent_p.P81P|C14orf49_uc001yej.1_Silent_p.P81P	NM_152592	NP_689805	Q6ZMZ3	SYNE3_HUMAN	nesprin-3	81	Cytoplasmic (Potential).				cytoskeletal anchoring at nuclear membrane	integral to membrane|nuclear outer membrane|SUN-KASH complex	actin binding			central_nervous_system(1)	1		all_cancers(154;0.0937)		COAD - Colon adenocarcinoma(157;0.245)		CCAGGATCCCGGGCTTCTGGT	0.612													6	36					0	0	1	0	0		A	95934206	A	A	95934206	2	1	211	1	0	0	0	0	0	0	0	1	1779	1103	39	1		1	C14orf49	14	95934206	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1520479	95934206	11415334	1259	103138											
BCL11B	64919	broad.mit.edu	37	chr14	99641430	99641430	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcgccttggccgcgccGccccccgcgcccgggacccc	2	2	13	24	7	0	0	0	0	0	0	0	1	0	1	10	2	1	0	10	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:99641430G>C	uc001yga.2	-	4	2010	c.1743C>G	c.(1741-1743)GGC>GGG	p.G581G	BCL11B_uc001ygb.2_Silent_p.G510G	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	581	Gly-rich.					nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		Tggccgcgccgccccccgcgc	0.562			T	TLX3	T-ALL								8	23					0	0	1	0	0		C	99641430	C	C	99641430	2	2	211	1	0	0	0	0	0	0	0	1	1365	1074	38	5		5	BCL11B	14	99641430	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3707224	99641430	7708110	1260	103139											
EML1	2009	broad.mit.edu	37	chr14	100406391	100406391	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cgatttcctctgtgaagacaGccacctcatctccacgggcg	8	9	9	15	3	3	2	1	1	2	1	5	3	4	2	4	1	1	0	4	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:100406391G>A	uc001ygs.2	+	22	2459	c.2390G>A	c.(2389-2391)AGC>AAC	p.S797N	EML1_uc010tww.1_Missense_Mutation_p.S785N|EML1_uc001ygr.2_Missense_Mutation_p.S816N	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	797	WD 11.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				TGTGAAGACAGCCACCTCATC	0.567													14	44					0	0	1	0	0		A	100406391	A	A	100406391	3	1	211	1	0	0	0	0	1	0	0	0	5104	971	34	2	2537	2	EML1	14	100406391	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	764961	100406391	6943149	1261	103140											
BEGAIN	57596	broad.mit.edu	37	chr14	101004539	101004539	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtccccgtcccccccctCgctgggtgcatagccgggca	3	7	11	20	3	0	0	0	0	0	0	3	0	2	0	8	2	2	3	8	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:101004539C>T	uc010txa.1	-	6	1695	c.1549G>A	c.(1549-1551)GAG>AAG	p.E517K	BEGAIN_uc001yhp.2_Missense_Mutation_p.E453K|BEGAIN_uc001yhq.2_Missense_Mutation_p.E517K	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	517						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				TCCCCCCCCTCGCTGGGTGCA	0.731													3	13					0	0	1	0	0		T	101004539	T	T	101004539	3	4	211	1	0	0	0	0	1	0	0	0	1398	893	31	1	236	1	BEGAIN	14	101004539	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	598148	101004539	6345001	1262	103141											
BEGAIN	57596	broad.mit.edu	37	chr14	101011342	101011342	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtggcggcctcaccatgcGgtacagcttgtcctccagct	5	9	12	15	3	1	0	1	0	0	0	3	0	3	0	4	3	4	3	4	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:101011342G>A	uc010txa.1	-	3	384	c.238C>T	c.(238-240)CGC>TGC	p.R80C	BEGAIN_uc001yhp.2_Missense_Mutation_p.R16C|BEGAIN_uc001yhq.2_Missense_Mutation_p.R80C	NM_001159531	NP_001153003	Q9BUH8	BEGIN_HUMAN	brain-enriched guanylate kinase-associated	80						cytoplasm|membrane	protein binding				0		Melanoma(154;0.212)				CTCACCATGCGGTACAGCTTG	0.657													6	121					0	0	1	0	0		A	101011342	A	A	101011342	3	1	211	1	0	0	0	0	1	0	0	0	1398	1116	39	1	1559	1	BEGAIN	14	101011342	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6803	101011342	6338198	1263	103142											
DYNC1H1	1778	broad.mit.edu	37	chr14	102471540	102471540	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	gactctgtcctcatggagcaGcccccactccgaaggcggaa	9	6	11	15	2	2	0	1	0	1	0	4	4	4	2	4	3	2	1	4	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:102471540G>C	uc001yks.2	+	26	5564	c.5400G>C	c.(5398-5400)CAG>CAC	p.Q1800H		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1800	Stem (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TCATGGAGCAGCCCCCACTCC	0.547													13	39					0	0	1	0	0		C	102471540	C	C	102471540	3	2	211	1	0	0	0	0	1	0	0	0	4847	962	34	5	5502	5	DYNC1H1	14	102471540	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1460198	102471540	4878000	1264	103143											
DYNC1H1	1778	broad.mit.edu	37	chr14	102494389	102494389	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acatcgtgcctgattacatgCcagttgtgtatgataagctg	10	13	10	8	1	0	2	0	2	0	0	1	2	0	2	2	0	4	3	2	0	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:102494389C>T	uc001yks.2	+	48	9543	c.9379C>T	c.(9379-9381)CCA>TCA	p.P3127S		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3127	AAA 4 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TGATTACATGCCAGTTGTGTA	0.483													40	113					0	0	1	0	0		T	102494389	T	T	102494389	3	4	211	1	0	0	0	0	1	0	0	0	4847	739	26	2	9569	2	DYNC1H1	14	102494389	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	22849	102494389	4855151	1265	103144											
DYNC1H1	1778	broad.mit.edu	37	chr14	102505836	102505836	+	Missense_Mutation	SNP	A	G	G	1	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	acccgaacctgaagggtgtcAccgaccacacacagcgcctg	11	4	10	16	3	1	1	1	1	0	0	1	3	1	1	5	1	2	0	5	1	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:102505836A>G	uc001yks.2	+	61	11712	c.11548A>G	c.(11548-11550)ACC>GCC	p.T3850A		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3850					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						GAAGGGTGTCACCGACCACAC	0.532													16	43					0	0	1	0	0		G	102505836	G	G	102505836	3	3	211	1	0	0	0	0	1	0	0	0	4847	159	6	3	11790	3	DYNC1H1	14	102505836	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	11447	102505836	4843704	1266	103145											
WDR20	91833	broad.mit.edu	37	chr14	102675570	102675570	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacagtccaggctctccaaaCggaactctacagacagccgc	12	5	8	16	2	2	1	0	0	2	1	4	2	3	2	3	2	4	1	3	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:102675570C>T	uc001ykz.2	+	3	1112	c.1063C>T	c.(1063-1065)CGG>TGG	p.R355W	WDR20_uc001yky.1_Missense_Mutation_p.R98W|WDR20_uc001yla.2_Missense_Mutation_p.R231W|WDR20_uc001ylb.2_Missense_Mutation_p.R294W|WDR20_uc010txu.1_Missense_Mutation_p.R386W|WDR20_uc001ylc.2_Intron|WDR20_uc001yld.2_Missense_Mutation_p.R355W|WDR20_uc001yle.2_Missense_Mutation_p.R294W|WDR20_uc001ylf.2_Missense_Mutation_p.R367W	NM_144574	NP_653175	Q8TBZ3	WDR20_HUMAN	WD repeat domain 20 isoform 2	355	WD 4.										0						GCTCTCCAAACGGAACTCTAC	0.507											OREG0022939	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	59					0	0	1	0	0		T	102675570	T	T	102675570	3	4	211	1	0	0	0	0	1	0	0	0	17306	527	19	1	1090	1	WDR20	14	102675570	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	169734	102675570	4673970	1267	103146											
CDC42BPB	9578	broad.mit.edu	37	chr14	103432702	103432702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagagcttgaaggtaaccccGggcatctttctcgtcactga	10	10	10	11	2	3	3	1	2	2	1	4	3	3	3	2	2	2	3	2	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:103432702G>A	uc001ymi.1	-	18	2726	c.2494C>T	c.(2494-2496)CGG>TGG	p.R832W	CDC42BPB_uc001ymj.1_5'Flank	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	CDC42-binding protein kinase beta	832					actin cytoskeleton reorganization|establishment or maintenance of cell polarity|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm|cytoskeleton	ATP binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			large_intestine(3)|skin(3)|lung(2)|stomach(1)|breast(1)|ovary(1)	11		Melanoma(154;0.155)		Colorectal(3;0.0129)|READ - Rectum adenocarcinoma(2;0.0419)|Epithelial(152;0.0474)|all cancers(159;0.199)		AGGTAACCCCGGGCATCTTTC	0.517													30	53					0	0	1	0	0		A	103432702	A	A	103432702	3	1	211	1	0	0	0	0	1	0	0	0	3076	1115	39	1	2721	1	CDC42BPB	14	103432702	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	757132	103432702	3916838	1268	103147											
ASPG	374569	broad.mit.edu	37	chr14	104575630	104575630	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgtccacccaggagctggagGaagcagggacggagctgtgc	9	5	17	10	1	0	0	0	0	0	0	1	5	1	5	2	5	4	3	2	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:104575630G>T	uc001yoq.1	+	13	1558	c.1498G>T	c.(1498-1500)GAA>TAA	p.E500*	ASPG_uc001yop.1_Nonsense_Mutation_p.E500*|ASPG_uc001yor.1_Nonsense_Mutation_p.E500*	NM_001080464	NP_001073933	Q86U10	LPP60_HUMAN	60 kDa lysophospholipase	500					lipid catabolic process		1-alkyl-2-acetylglycerophosphocholine esterase activity|asparaginase activity|lysophospholipase activity				0						GGAGCTGGAGGAAGCAGGGAC	0.632													11	15					4.93089e-13	5.3138e-13	1	1	0		T	104575630	T	T	104575630	4	4	211	1	0	0	0	0	0	1	0	0	1053	1175	41	5	1548	5	ASPG	14	104575630	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1142928	104575630	2773910	1269	103148											
KIF26A	26153	broad.mit.edu	37	chr14	104641944	104641944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggtcccggaaaaggctgCagtgagtggaggcaggaggc	9	5	19	8	1	0	1	0	1	0	0	1	4	1	4	1	7	1	4	1	7	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:104641944C>T	uc001yos.3	+	12	2819	c.2819C>T	c.(2818-2820)GCA>GTA	p.A940V		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	940					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		GAAAAGGCTGCAGTGAGTGGA	0.667													6	24					0	0	1	0	0		T	104641944	T	T	104641944	3	4	211	1	0	0	0	0	1	0	0	0	8310	710	25	2	2865	2	KIF26A	14	104641944	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	66314	104641944	2707596	1270	103149											
ADSSL1	122622	broad.mit.edu	37	chr14	105207035	105207035	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgtcagattttgatgagTtttcctccaggtacctgagc	7	15	9	10	0	1	4	1	3	0	1	4	4	4	4	4	1	2	2	4	1	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr14:105207035T>C	uc001ypd.2	+	6	648	c.574T>C	c.(574-576)TTT>CTT	p.F192L	INF2_uc010tyi.1_Intron|ADSSL1_uc001ype.2_Missense_Mutation_p.F235L|ADSSL1_uc001ypf.2_RNA	NM_152328	NP_689541	Q8N142	PURA1_HUMAN	adenylosuccinate synthase like 1 isoform 2	192					AMP biosynthetic process|immune system process|purine base metabolic process	cytosol	adenylosuccinate synthase activity|GTP binding|magnesium ion binding|phosphate binding			ovary(1)|central_nervous_system(1)	2		all_cancers(154;0.0896)|Melanoma(154;0.155)|all_epithelial(191;0.172)	all cancers(16;0.00153)|OV - Ovarian serous cystadenocarcinoma(23;0.0148)|Epithelial(46;0.0396)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.18)	L-Aspartic Acid(DB00128)	TTTTGATGAGTTTTCCTCCAG	0.592													23	66					0	0	1	0	0		C	105207035	C	C	105207035	3	2	211	1	0	0	0	0	1	0	0	0	348	1725	60	3	921	3	ADSSL1	14	105207035	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	565091	105207035	2142505	1271	103150											
MAGEL2	54551	broad.mit.edu	37	chr15	23889179	23889179	+	Silent	SNP	G	A	A	0	0	1	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	ctggtggggccgtgggcactGtcaccggtgtcaggttcatc	4	10	16	11	2	3	0	3	0	0	0	4	0	3	0	2	6	0	2	2	6	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:23889179G>A	uc001ywj.3	-	1	1997	c.1902C>T	c.(1900-1902)GAC>GAT	p.D634D		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		CGTGGGCACTGTCACCGGTGT	0.587													9	25					0	0	1	0	0		A	23889179	A	A	23889179	2	1	211	1	0	0	0	0	0	0	0	1	9207	1368	48	4		4	MAGEL2	15	23889179	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08		23889179	78642213	1272	103151											
TRPM1	4308	broad.mit.edu	37	chr15	31320576	31320576	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcaccagcaggatgttggcGaccagtagatagcacgccat	11	8	11	11	2	1	1	1	0	0	1	1	3	1	2	3	2	2	4	3	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:31320576G>A	uc001zfm.2	-	24	3314	c.3186C>T	c.(3184-3186)GTC>GTT	p.V1062V	TRPM1_uc010azy.2_Silent_p.V969V|TRPM1_uc001zfl.2_RNA	NM_002420	NP_002411	Q7Z4N2	TRPM1_HUMAN	transient receptor potential cation channel,	1062	Helical; (Potential).				cellular response to light stimulus|visual perception	integral to plasma membrane	calcium channel activity|receptor activity			ovary(2)|pancreas(1)|skin(1)	4		all_lung(180;1.92e-11)		all cancers(64;3.52e-16)|Epithelial(43;1.65e-11)|GBM - Glioblastoma multiforme(186;3.57e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00533)|COAD - Colon adenocarcinoma(236;0.0609)|Lung(196;0.199)		GGATGTTGGCGACCAGTAGAT	0.507													18	58					0	0	1	0	0		A	31320576	A	A	31320576	2	1	211	1	0	0	0	0	0	0	0	1	16611	1045	37	1		1	TRPM1	15	31320576	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7431397	31320576	71210816	1273	103152											
RYR3	6263	broad.mit.edu	37	chr15	33893742	33893742	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcagacacgactgattaaCgatgtaaccaggtaaggcca	14	7	10	10	2	0	2	0	1	0	1	0	4	0	2	2	2	3	3	2	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:33893742C>T	uc001zhi.2	+	17	1981	c.1911C>T	c.(1909-1911)AAC>AAT	p.N637N	RYR3_uc010bar.2_Silent_p.N637N	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	637	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		GACTGATTAACGATGTAACCA	0.507													6	24					0	0	1	0	0		T	33893742	T	T	33893742	2	4	211	1	0	0	0	0	0	0	0	1	13795	535	19	1		1	RYR3	15	33893742	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2573166	33893742	68637650	1274	103153											
C15orf55	256646	broad.mit.edu	37	chr15	34640529	34640529	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcactccctgtggaggcCttgagggtcctgcacctcca	5	8	13	15	1	0	1	0	1	0	0	3	2	3	2	5	4	1	2	5	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:34640529C>A	uc001zif.2	+	2	531	c.376C>A	c.(376-378)CTT>ATT	p.L126I	C15orf55_uc010ucc.1_Missense_Mutation_p.L154I|C15orf55_uc010ucd.1_Missense_Mutation_p.L144I	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	126	Pro-rich.					cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		CTGTGGAGGCCTTGAGGGTCC	0.562			T	BRD3|BRD4	lethal midline carcinoma								15	56					6.72482e-11	7.16804e-11	1	1	0		A	34640529	A	A	34640529	3	1	211	1	0	0	0	0	1	0	0	0	1806	681	24	5	382	5	C15orf55	15	34640529	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	746787	34640529	67890863	1275	103154											
DNAJC17	55192	broad.mit.edu	37	chr15	41060175	41060175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcttcctgctgcatcCgtgcgatcagctgttgccgc	3	12	11	15	3	2	0	1	0	1	0	4	1	4	0	4	1	5	4	4	1	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:41060175C>T	uc001zms.1	-	11	889	c.878G>A	c.(877-879)CGG>CAG	p.R293Q	C15orf62_uc010bby.2_5'Flank	NM_018163	NP_060633	Q9NVM6	DJC17_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 17	293					protein folding		heat shock protein binding|nucleotide binding|RNA binding|unfolded protein binding				0		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)		CTGCTGCATCCGTGCGATCAG	0.592													25	64					0	0	1	0	0		T	41060175	T	T	41060175	3	4	211	1	0	0	0	0	1	0	0	0	4642	652	23	1	40	1	DNAJC17	15	41060175	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6419646	41060175	61471217	1276	103155											
RPAP1	26015	broad.mit.edu	37	chr15	41822179	41822179	+	Splice_Site	SNP	T	C	C	0	1	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	gtcacgggcaatgccagagcTggggagacaaagcatgatag	13	5	15	8	1	1	3	1	1	0	2	1	4	1	3	1	3	3	3	1	3	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:41822179T>C	uc001zod.2	-	8	1068	c.944_splice	c.e8-1	p.A315_splice		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1							nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		ATGCCAGAGCTGGGGAGACAA	0.582													9	17					0	0	1	0	0		C	41822179	C	C	41822179	5	2	211	1	0	0	0	0	0	0	1	0	13566	1594	55	3	3311	3	RPAP1	15	41822179	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	762004	41822179	60709213	1277	103156											
TYRO3	7301	broad.mit.edu	37	chr15	41859622	41859622	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccctgtgcccccctttacctGcctgctccgggacctggtgc	2	10	10	19	1	0	0	0	0	0	0	1	1	1	1	8	2	5	1	8	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:41859622G>A	uc001zof.1	+	7	1072	c.848G>A	c.(847-849)TGC>TAC	p.C283Y		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	283	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		CCCTTTACCTGCCTGCTCCGG	0.602													33	85					0	0	1	0	0		A	41859622	A	A	41859622	3	1	211	1	0	0	0	0	1	0	0	0	16840	1319	46	2	874	2	TYRO3	15	41859622	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	37443	41859622	60671770	1278	103157											
CDAN1	146059	broad.mit.edu	37	chr15	43023873	43023873	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgacagcctgggaaggtggGgggtgggcagggccccccac	6	5	19	11	0	0	1	0	1	0	0	0	2	0	2	4	7	1	1	4	7	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:43023873G>T	uc001zql.2	-	11	1801	c.1684C>A	c.(1684-1686)CCC>ACC	p.P562T	CDAN1_uc001zqj.2_5'Flank|CDAN1_uc001zqk.2_5'UTR	NM_138477	NP_612486	Q8IWY9	CDAN1_HUMAN	codanin 1	562						integral to membrane	protein binding			ovary(2)	2		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)		GGGAAGGTGGGGGGTGGGCAG	0.602													25	74					2.41591e-17	2.6312e-17	1	1	0		T	43023873	T	T	43023873	3	4	211	1	0	0	0	0	1	0	0	0	3057	1232	43	5	2071	5	CDAN1	15	43023873	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1164251	43023873	59507519	1279	103158											
ZSCAN29	146050	broad.mit.edu	37	chr15	43661121	43661121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catatgaatctactcctcacCgctcctttgaaaaggtttga	11	13	6	11	1	2	3	1	3	1	0	4	3	4	3	3	1	1	2	3	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:43661121C>T	uc001zrk.1	-	2	670	c.523G>A	c.(523-525)GGA>AGA	p.G175R	ZSCAN29_uc001zrj.1_Missense_Mutation_p.G55R|ZSCAN29_uc010bdf.1_Missense_Mutation_p.G174R|ZSCAN29_uc001zrl.1_RNA|ZSCAN29_uc010bdg.1_Missense_Mutation_p.G174S|ZSCAN29_uc001zrm.2_Missense_Mutation_p.G174R|TUBGCP4_uc001zrn.2_5'Flank|TUBGCP4_uc001zro.2_5'Flank	NM_152455	NP_689668	Q8IWY8	ZSC29_HUMAN	zinc finger protein 690	175					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		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;8.97e-07)		TACTCCTCACCGCTCCTTTGA	0.502													66	231					0	0	1	0	0		T	43661121	T	T	43661121	3	4	211	1	0	0	0	0	1	0	0	0	18261	666	23	1	2051	1	ZSCAN29	15	43661121	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	637248	43661121	58870271	1280	103159											
DUOX1	53905	broad.mit.edu	37	chr15	45444070	45444070	+	Splice_Site	SNP	A	G	G	1	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	gctaaggcttcctgtctcccAgggtaacgtcattccagccc	7	10	9	15	1	2	0	1	0	1	0	5	0	4	0	4	2	2	3	4	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:45444070A>G	uc001zus.1	+	25	3361	c.3015_splice	c.e25-2	p.K1005_splice	DUOX1_uc001zut.1_Splice_Site_p.K1005_splice|DUOX1_uc010bee.1_Splice_Site_p.K385_splice|DUOX1_uc001zuu.2_Splice_Site_p.K147_splice	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor						cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		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)		CCTGTCTCCCAGGGTAACGTC	0.597													20	68					0	0	1	0	0		G	45444070	G	G	45444070	5	3	211	1	0	0	0	0	0	0	1	0	4806	202	7	3	3103	3	DUOX1	15	45444070	Splice_Site	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1782949	45444070	57087322	1281	103160											
MYEF2	50804	broad.mit.edu	37	chr15	48441562	48441562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cactgttcatgctacccattCcaccacctggattttcaaga	10	12	5	14	0	2	1	2	0	0	1	3	2	3	2	4	1	2	2	4	1	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:48441562C>T	uc001zwi.3	-	15	1509	c.1385G>A	c.(1384-1386)GGA>GAA	p.G462E	MYEF2_uc001zwg.3_5'UTR|MYEF2_uc001zwh.3_Missense_Mutation_p.G50E|MYEF2_uc001zwj.3_Missense_Mutation_p.G438E	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	462	Gly-rich.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding			lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		GCTACCCATTCCACCACCTGG	0.383													21	63					0	0	1	0	0		T	48441562	T	T	48441562	3	4	211	1	0	0	0	0	1	0	0	0	10042	855	30	4	429	4	MYEF2	15	48441562	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2997492	48441562	54089830	1282	103161											
SLC12A1	6557	broad.mit.edu	37	chr15	48537040	48537040	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttcagcagcatgtgggttggGctatgacttctcaagatgtc	8	13	12	8	0	2	2	2	1	1	1	4	2	2	2	0	2	2	4	0	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:48537040G>A	uc001zwn.3	+	11	1607	c.1391G>A	c.(1390-1392)GGC>GAC	p.G464D	SLC12A1_uc010uew.1_Missense_Mutation_p.G270D|SLC12A1_uc010bem.2_Missense_Mutation_p.G464D|SLC12A1_uc001zwq.3_Missense_Mutation_p.G235D|SLC12A1_uc001zwr.3_Missense_Mutation_p.G191D	NM_000338	NP_000329	Q13621	S12A1_HUMAN	sodium potassium chloride cotransporter 2	464					potassium ion transport|sodium ion transport	integral to membrane|membrane fraction	sodium:potassium:chloride symporter activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;0.00219)		all cancers(107;1.76e-09)|GBM - Glioblastoma multiforme(94;1.48e-06)	Bumetanide(DB00887)|Chlormerodrin(DB00534)|Chlorthalidone(DB00310)|Ethacrynic acid(DB00903)|Furosemide(DB00695)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Metolazone(DB00524)|Potassium Chloride(DB00761)|Torasemide(DB00214)|Trichlormethiazide(DB01021)	TGTGGGTTGGGCTATGACTTC	0.458													13	39					0	0	1	0	0		A	48537040	A	A	48537040	3	1	211	1	0	0	0	0	1	0	0	0	14407	1203	42	2	1529	2	SLC12A1	15	48537040	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	95478	48537040	53994352	1283	103162											
FBN1	2200	broad.mit.edu	37	chr15	48802279	48802279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgtgtaacatgaaagcccGcattacacacgcaatgaaaa	16	7	7	11	3	0	2	0	2	0	0	1	2	0	2	1	0	3	3	1	0	6	2	rs141551765	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:48802279G>A	uc001zwx.1	-	14	2004	c.1676C>T	c.(1675-1677)GCG>GTG	p.A559V		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	559	EGF-like 8; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		ATGAAAGCCCGCATTACACAC	0.408													15	55					0	0	1	0	0		A	48802279	A	A	48802279	3	1	211	1	0	0	0	0	1	0	0	0	5716	1087	38	1	7151	1	FBN1	15	48802279	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	265239	48802279	53729113	1284	103163											
FBN1	2200	broad.mit.edu	37	chr15	48936963	48936963	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccagcagacgccctcgacGcatgatgccgagccgccacc	8	4	10	19	5	0	2	0	1	0	1	2	4	1	2	6	0	3	2	6	0	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:48936963G>A	uc001zwx.1	-	2	332	c.4C>T	c.(4-6)CGT>TGT	p.R2C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2					heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CGCCCTCGACGCATGATGCCG	0.706													8	18					0	0	1	0	0		A	48936963	A	A	48936963	3	1	211	1	0	0	0	0	1	0	0	0	5716	1087	38	1	8871	1	FBN1	15	48936963	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	134684	48936963	53594429	1285	103164											
WDR72	256764	broad.mit.edu	37	chr15	54005035	54005035	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtgcaaaatcgaattgtctgGcagttcaaggactcaagaaa	15	9	10	7	1	3	1	2	0	1	1	4	3	3	2	0	2	1	3	0	2	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:54005035G>A	uc002acj.2	-	7	687	c.645C>T	c.(643-645)TGC>TGT	p.C215C	WDR72_uc010bfi.1_Silent_p.C215C	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	215										lung(1)|skin(1)	2				all cancers(107;0.0511)		GAATTGTCTGGCAGTTCAAGG	0.323													11	31					0	0	1	0	0		A	54005035	A	A	54005035	2	1	211	1	0	0	0	0	0	0	0	1	17348	1195	42	2		2	WDR72	15	54005035	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5068072	54005035	48526357	1286	103165											
UNC13C	440279	broad.mit.edu	37	chr15	54586097	54586097	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacatttattttcagtgagTgtcataactccacagatcga	12	13	6	10	1	2	2	2	1	0	1	4	3	3	2	2	0	1	0	2	0	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:54586097T>C	uc002ack.2	+	9	3823	c.3823T>C	c.(3823-3825)TGT>CGT	p.C1275R	UNC13C_uc002acl.2_Missense_Mutation_p.C105R	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1275	C2 1.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TTTCAGTGAGTGTCATAACTC	0.318													9	21					0	0	1	0	0		C	54586097	C	C	54586097	3	2	211	1	0	0	0	0	1	0	0	0	17012	1696	59	3	3857	3	UNC13C	15	54586097	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	581062	54586097	47945295	1287	103166											
TCF12	6938	broad.mit.edu	37	chr15	57545514	57545514	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgatgcaatccatgtgctgCggaaccatgctgtgggacct	9	10	12	10	1	0	1	0	1	0	0	1	3	1	3	3	2	5	3	3	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:57545514C>T	uc002aec.2	+	15	1527	c.1243C>T	c.(1243-1245)CGG>TGG	p.R415W	TCF12_uc010ugm.1_Missense_Mutation_p.R467W|TCF12_uc010ugn.1_Missense_Mutation_p.R435W|TCF12_uc002aea.2_Missense_Mutation_p.R439W|TCF12_uc010bfs.2_Intron|TCF12_uc002aeb.2_Missense_Mutation_p.R439W|TCF12_uc002aed.2_Missense_Mutation_p.R415W|TCF12_uc002aee.2_Missense_Mutation_p.R245W|TCF12_uc010bft.2_Missense_Mutation_p.R269W|TCF12_uc010ugo.1_Missense_Mutation_p.R179W|TCF12_uc010ugp.1_Missense_Mutation_p.R73W|TCF12_uc010ugq.1_Missense_Mutation_p.R49W|TCF12_uc010ugr.1_Missense_Mutation_p.R28W	NM_207038	NP_996921	Q99081	HTF4_HUMAN	transcription factor 12 isoform b	415					immune response|muscle organ development|regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(2)|lung(1)	8		Colorectal(260;0.0907)		all cancers(107;0.000313)|GBM - Glioblastoma multiforme(80;0.00878)|STAD - Stomach adenocarcinoma(283;0.239)		CCATGTGCTGCGGAACCATGC	0.453			T	TEC	extraskeletal myxoid chondrosarcoma								6	111					0	0	1	0	0		T	57545514	T	T	57545514	3	4	211	1	0	0	0	0	1	0	0	0	15712	759	27	1	1446	1	TCF12	15	57545514	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2959417	57545514	44985878	1288	103167											
CGNL1	84952	broad.mit.edu	37	chr15	57820963	57820963	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acctggagtatgagctggaaGccaagagtcacctcaaagat	14	7	11	9	0	2	3	2	1	0	2	2	5	2	5	3	2	2	2	3	2	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:57820963G>A	uc002aeg.2	+	13	3227	c.3151G>A	c.(3151-3153)GCC>ACC	p.A1051T	CGNL1_uc010bfw.2_Missense_Mutation_p.A1051T	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	1051	Potential.					myosin complex|tight junction	motor activity	p.A1051A(1)		skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		TGAGCTGGAAGCCAAGAGTCA	0.572													11	33					0	0	1	0	0		A	57820963	A	A	57820963	3	1	211	1	0	0	0	0	1	0	0	0	3307	971	34	2	3197	2	CGNL1	15	57820963	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	275449	57820963	44710429	1289	103168											
RORA	6095	broad.mit.edu	37	chr15	60792196	60792196	+	Silent	SNP	T	C	C	0	1	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	tttaccttttcttgcagccaTgagcgatctaagcataaaaa	13	13	6	9	1	2	1	0	1	2	0	2	2	2	1	2	0	5	2	2	0	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:60792196T>C	uc002agv.2	-	11	1557	c.1401A>G	c.(1399-1401)TCA>TCG	p.S467S	uc002ags.1_Intron|RORA_uc002agt.3_Silent_p.S379S|RORA_uc002agw.2_Silent_p.S459S|RORA_uc002agx.2_Silent_p.S434S	NM_134260	NP_599022	P35398	RORA_HUMAN	RAR-related orphan receptor A isoform b	467	Ligand-binding.				positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			large_intestine(1)|ovary(1)	2						CTTGCAGCCATGAGCGATCTA	0.368													21	60					0	0	1	0	0		C	60792196	C	C	60792196	2	2	211	1	0	0	0	0	0	0	0	1	13553	1451	51	3		3	RORA	15	60792196	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2971233	60792196	41739196	1290	103169											
VPS13C	54832	broad.mit.edu	37	chr15	62304323	62304323	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tactgtattgataatttgggGgtatatttccacttgtaaga	11	17	9	4	0	0	2	0	1	0	1	1	2	1	2	1	2	1	3	1	2	6	10			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:62304323G>T	uc002agz.2	-	12	940	c.866C>A	c.(865-867)CCC>CAC	p.P289H	VPS13C_uc002aha.2_Missense_Mutation_p.P246H|VPS13C_uc002ahb.1_Missense_Mutation_p.P289H|VPS13C_uc002ahc.1_Missense_Mutation_p.P246H	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	289					protein localization					ovary(2)	2						ATAATTTGGGGGTATATTTCC	0.249													3	26					0.004672	0.00474255	1	1	0		T	62304323	T	T	62304323	3	4	211	1	0	0	0	0	1	0	0	0	17217	1232	43	5	10719	5	VPS13C	15	62304323	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1512127	62304323	40227069	1291	103170											
TLN2	83660	broad.mit.edu	37	chr15	63069085	63069085	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggttgggggcatggtggaCgccattgcagaagccatgag	8	8	17	8	1	0	2	0	1	0	1	0	3	0	3	2	5	2	3	2	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:63069085C>T	uc002alb.3	+	40	5490	c.5490C>T	c.(5488-5490)GAC>GAT	p.D1830D	TLN2_uc002alc.3_Silent_p.D223D|TLN2_uc002ald.2_Silent_p.D223D	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1830					cell adhesion|cell-cell junction assembly|cytoskeletal anchoring at plasma membrane	actin cytoskeleton|cytoplasm|focal adhesion|ruffle|synapse	actin binding|insulin receptor binding|structural constituent of cytoskeleton			ovary(5)|upper_aerodigestive_tract(2)|lung(2)|breast(2)	11						GCATGGTGGACGCCATTGCAG	0.582													19	52					0	0	1	0	0		T	63069085	T	T	63069085	2	4	211	1	0	0	0	0	0	0	0	1	15973	535	19	1		1	TLN2	15	63069085	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	764762	63069085	39462307	1292	103171											
ZNF609	23060	broad.mit.edu	37	chr15	64973051	64973051	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagcacagtacaacttaccCtatgcagcaggtaagcctgt	12	8	8	13	0	0	0	0	0	0	0	0	0	0	0	3	1	7	5	3	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:64973051C>A	uc002ann.2	+	7	4152	c.4152C>A	c.(4150-4152)CCC>CCA	p.P1384P		NM_015042	NP_055857	O15014	ZN609_HUMAN	zinc finger protein 609	1384						nucleus	zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						ACAACTTACCCTATGCAGCAG	0.488													18	59					1.67942e-08	1.75873e-08	1	1	0		A	64973051	A	A	64973051	2	1	211	1	0	0	0	0	0	0	0	1	18060	668	24	5		5	ZNF609	15	64973051	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1903966	64973051	37558341	1293	103172											
PIF1	80119	broad.mit.edu	37	chr15	65108536	65108536	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctcctggtctgaggctgcCtcatcatcatctggggactc	5	13	10	13	0	6	1	3	1	3	0	8	2	6	2	2	4	1	1	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:65108536C>A	uc002ant.2	-	13	1953	c.1887G>T	c.(1885-1887)GAG>GAT	p.E629D	PIF1_uc002anr.2_Missense_Mutation_p.E177D|PIF1_uc002ans.2_Missense_Mutation_p.E320D|PIF1_uc010uiq.1_Missense_Mutation_p.E629D	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	629	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding				0						CTGAGGCTGCCTCATCATCAT	0.582													10	40					0.00010058	0.000103565	1	1	0		A	65108536	A	A	65108536	3	1	211	1	0	0	0	0	1	0	0	0	11902	680	24	5	42	5	PIF1	15	65108536	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	135485	65108536	37422856	1294	103173											
PARP16	54956	broad.mit.edu	37	chr15	65551865	65551865	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggctggaaaaccaggaGagctggctcgaagccctgct	11	6	13	11	1	0	1	0	0	0	1	1	4	0	2	2	4	4	4	2	4	4	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:65551865G>T	uc002aoo.2	-	6	1103	c.849C>A	c.(847-849)CTC>CTA	p.L283L	PARP16_uc002aop.2_Silent_p.L168L|PARP16_uc002aoq.2_Silent_p.L284L	NM_017851	NP_060321	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	283						integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2						AAAACCAGGAGAGCTGGCTCG	0.433													23	56					1.85244e-09	1.95228e-09	1	1	0		T	65551865	T	T	65551865	2	4	211	1	0	0	0	0	0	0	0	1	11479	929	33	5		5	PARP16	15	65551865	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	443329	65551865	36979527	1295	103174											
IGDCC3	9543	broad.mit.edu	37	chr15	65627706	65627706	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacagtggaagatgccaccgTcctcagctcgaagtcctgtg	9	8	11	13	2	1	1	1	0	0	1	4	3	3	2	4	1	2	1	4	1	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:65627706T>C	uc002aos.2	-	4	860	c.608A>G	c.(607-609)GAC>GGC	p.D203G		NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	203	Extracellular (Potential).|Ig-like C2-type 2.									ovary(3)	3						GATGCCACCGTCCTCAGCTCG	0.582													29	84					0	0	1	0	0		C	65627706	C	C	65627706	3	2	211	1	0	0	0	0	1	0	0	0	7584	1667	58	3	1880	3	IGDCC3	15	65627706	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	75841	65627706	36903686	1296	103175											
ITGA11	22801	broad.mit.edu	37	chr15	68631954	68631954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagctccattccagtcatagGcaccgacggctcccagcaga	10	6	9	16	2	1	1	1	0	0	1	4	2	4	1	4	2	2	4	4	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:68631954G>A	uc002ari.2	-	11	1247	c.1160C>T	c.(1159-1161)GCC>GTC	p.A387V	ITGA11_uc010bib.2_Missense_Mutation_p.A387V	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	387	FG-GAP 3.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	CCAGTCATAGGCACCGACGGC	0.592													21	68					0	0	1	0	0		A	68631954	A	A	68631954	3	1	211	1	0	0	0	0	1	0	0	0	7890	1203	42	2	2486	2	ITGA11	15	68631954	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3004248	68631954	33899438	1297	103176											
CORO2B	10391	broad.mit.edu	37	chr15	69011527	69011527	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacccaatgacaccaggcacGgagccagcactgaccccgga	12	3	10	16	2	0	2	0	2	0	0	0	4	0	4	5	3	3	2	5	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:69011527G>T	uc002arj.3	+	10	1154	c.1125G>T	c.(1123-1125)ACG>ACT	p.T375T	CORO2B_uc010bic.2_Silent_p.T370T|CORO2B_uc002ark.2_Silent_p.T142T	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	375					actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						CACCAGGCACGGAGCCAGCAC	0.577													24	95					9.80776e-20	1.07361e-19	1	1	0		T	69011527	T	T	69011527	2	4	211	1	0	0	0	0	0	0	0	1	3760	1103	39	5		5	CORO2B	15	69011527	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	379573	69011527	33519865	1298	103177											
KIF23	9493	broad.mit.edu	37	chr15	69732651	69732651	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgataatctgtaggagcGtagagtggcagccaaacagc	13	7	12	9	1	1	2	0	1	1	1	1	3	1	3	1	2	4	3	1	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:69732651G>A	uc002asb.2	+	17	2009	c.1892G>A	c.(1891-1893)CGT>CAT	p.R631H	KIF23_uc002asc.2_Missense_Mutation_p.R631H|KIF23_uc010bii.2_Missense_Mutation_p.R521H|KIF23_uc010ukc.1_Missense_Mutation_p.R448H	NM_138555	NP_612565	Q02241	KIF23_HUMAN	kinesin family member 23 isoform 1	631					blood coagulation|cytokinesis|microtubule-based movement|mitosis|mitotic spindle elongation	cytosol|kinesin complex|microtubule|midbody|nucleoplasm|spindle	ATP binding|microtubule motor activity|protein binding				0						CTGTAGGAGCGTAGAGTGGCA	0.398													11	37					0	0	1	0	0		A	69732651	A	A	69732651	3	1	211	1	0	0	0	0	1	0	0	0	8307	1145	40	1	1958	1	KIF23	15	69732651	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	721124	69732651	32798741	1299	103178											
C15orf60	283677	broad.mit.edu	37	chr15	73852107	73852107	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcagactcttctggcatcGgaggagctgccccatgtcta	7	10	11	13	1	3	1	0	0	3	1	4	3	3	3	2	3	3	3	2	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:73852107G>A	uc002avq.2	+	6	679	c.651G>A	c.(649-651)TCG>TCA	p.S217S	C15orf60_uc010bjb.2_Silent_p.S189S	NM_001042367	NP_001035826	Q7Z4M0	CO060_HUMAN	hypothetical protein LOC283677	217										pancreas(1)	1						TTCTGGCATCGGAGGAGCTGC	0.463													19	42					0	0	1	0	0		A	73852107	A	A	73852107	2	1	211	1	0	0	0	0	0	0	0	1	1811	1103	39	1		1	C15orf60	15	73852107	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4119456	73852107	28679285	1300	103179											
ISLR2	57611	broad.mit.edu	37	chr15	74425173	74425173	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcccggagccgtgcgcctgCgtggacaagtacgctcacca	7	6	13	15	5	1	0	1	0	0	0	1	2	1	2	4	2	5	2	4	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:74425173C>T	uc002axd.2	+	4	847	c.78C>T	c.(76-78)TGC>TGT	p.C26C	ISLR2_uc002axe.2_Silent_p.C26C|ISLR2_uc010bjg.2_Silent_p.C26C|ISLR2_uc010bjf.2_Silent_p.C26C	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	26	Extracellular (Potential).|LRRNT.				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CGTGCGCCTGCGTGGACAAGT	0.637													17	73					0	0	1	0	0		T	74425173	T	T	74425173	2	4	211	1	0	0	0	0	0	0	0	1	7875	776	27	1		1	ISLR2	15	74425173	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	573066	74425173	28106219	1301	103180											
CYP11A1	1583	broad.mit.edu	37	chr15	74640344	74640344	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcggacttaaagagaagggCcacatcttcagggtcgatga	12	8	12	9	2	2	2	1	1	1	1	4	5	2	3	1	3	0	0	1	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:74640344C>G	uc002axt.2	-	2	477	c.322G>C	c.(322-324)GCC>CCC	p.A108P	CYP11A1_uc002axs.2_5'UTR|CYP11A1_uc010bjm.1_Intron|CYP11A1_uc010bjn.1_RNA|CYP11A1_uc010bjo.1_Missense_Mutation_p.A108P|CYP11A1_uc010ulj.1_5'UTR|CYP11A1_uc010bjq.2_Missense_Mutation_p.A108P	NM_000781	NP_000772	P05108	CP11A_HUMAN	cytochrome P450, family 11, subfamily A,	108					C21-steroid hormone biosynthetic process|cholesterol metabolic process|vitamin D metabolic process|xenobiotic metabolic process	mitochondrial matrix	cholesterol monooxygenase (side-chain-cleaving) activity|electron carrier activity|heme binding			ovary(2)	2					Aminoglutethimide(DB00357)|Cholecalciferol(DB00169)|Cimetidine(DB00501)|Clotrimazole(DB00257)|Digitoxin(DB01396)|Digoxin(DB00390)|Medroxyprogesterone(DB00603)|Ouabain(DB01092)|Progesterone(DB00396)|Testosterone(DB00624)|Trilostane(DB01108)	AAGAGAAGGGCCACATCTTCA	0.483													18	41					0	0	1	0	0		G	74640344	G	G	74640344	3	3	211	1	0	0	0	0	1	0	0	0	4147	739	26	5	1275	5	CYP11A1	15	74640344	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	215171	74640344	27891048	1302	103181											
CLK3	1198	broad.mit.edu	37	chr15	74911579	74911579	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgctcccctgaaccagacccGtacctgagctaccgatggaa	10	6	9	16	3	0	3	0	2	0	1	1	5	1	4	6	1	4	3	6	1	4	2	rs150664892	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:74911579G>A	uc010uln.1	+	2	947	c.486G>A	c.(484-486)CCG>CCA	p.P162P	CLK3_uc002ayg.3_Silent_p.P14P|CLK3_uc002ayh.3_5'UTR|CLK3_uc010ulm.1_Silent_p.P162P|CLK3_uc002ayj.3_Silent_p.P14P|CLK3_uc002ayk.3_5'UTR	NM_001130028	NP_001123500	P49761	CLK3_HUMAN	CDC-like kinase 3 isoform a	162						acrosomal vesicle|nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)	2						AACCAGACCCGTACCTGAGCT	0.592													40	142					0	0	1	0	0		A	74911579	A	A	74911579	2	1	211	1	0	0	0	0	0	0	0	1	3541	1132	40	1		1	CLK3	15	74911579	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	271235	74911579	27619813	1303	103182											
CPLX3	594855	broad.mit.edu	37	chr15	75120416	75120416	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacacagaggaaggcagagcGggccacactgcggagccact	12	2	14	13	2	0	2	0	0	0	2	0	4	0	4	2	4	3	1	2	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:75120416G>A	uc002ayu.1	+	2	300	c.206G>A	c.(205-207)CGG>CAG	p.R69Q		NM_001030005	NP_001025176	Q8WVH0	CPLX3_HUMAN	complexin 3 precursor	69	Potential.					cell junction|synapse	syntaxin binding				0						AAGGCAGAGCGGGCCACACTG	0.622													5	10					0	0	1	0	0		A	75120416	A	A	75120416	3	1	211	1	0	0	0	0	1	0	0	0	3809	1116	39	1	212	1	CPLX3	15	75120416	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	208837	75120416	27410976	1304	103183											
MPI	4351	broad.mit.edu	37	chr15	75185605	75185607	+	In_Frame_Del	DEL	AGA	-	-																															ctcccacctgatgaagagtgAgaagaaggtggtggtggaac																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:75185605_75185607delAGA	uc002azc.1	+	5	619_621	c.614_616delAGA	c.(613-618)GAGAAG>GAG	p.K207del	MPI_uc010ulv.1_In_Frame_Del_p.K207del|MPI_uc010ulw.1_Intron|MPI_uc002azd.1_In_Frame_Del_p.K207del|MPI_uc010ulx.1_In_Frame_Del_p.K157del|MPI_uc002aze.1_Intron	NM_002435	NP_002426	P34949	MPI_HUMAN	mannose-6- phosphate isomerase	207					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	mannose-6-phosphate isomerase activity|zinc ion binding			ovary(2)	2						ATGAAGAGTGAGAAGAAGGTGGT	0.557													28	63	---	---	---	---						.	-	75185607	-	-	75185605	7	5	211	1	0	1	0	1	0	0	0	0	9747	304	11	0	632	0	MPI	15	75185605	In_Frame_Del	DEL	AGA	TCGA-HU-A4GQ-01A-11D-A25D-08	65189	75185605	27345787	1305	103184											
ODF3L1	161753	broad.mit.edu	37	chr15	76017535	76017535	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaaggcaccagcttataccCtgcatagccggcactcagag	11	7	9	14	1	2	1	2	0	0	1	2	1	2	1	3	2	4	4	3	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:76017535C>A	uc002bax.1	+	2	427	c.205C>A	c.(205-207)CTG>ATG	p.L69M		NM_175881	NP_787077	Q8IXM7	OD3L1_HUMAN	outer dense fiber of sperm tails 3-like 1	69											0						AGCTTATACCCTGCATAGCCG	0.587													9	105					7.48243e-07	7.7865e-07	1	1	0		A	76017535	A	A	76017535	3	1	211	1	0	0	0	0	1	0	0	0	10850	680	24	5	211	5	ODF3L1	15	76017535	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	831930	76017535	26513857	1306	103185											
C15orf27	123591	broad.mit.edu	37	chr15	76496086	76496086	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcctaccttgcagacagCggtgtcccagagccagctgt	7	8	10	16	1	0	2	0	0	0	2	2	2	2	2	5	1	5	2	5	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:76496086C>T	uc002bbq.2	+	11	1181	c.1026C>T	c.(1024-1026)AGC>AGT	p.S342S	C15orf27_uc010bkp.2_Silent_p.S158S|C15orf27_uc002bbr.2_Silent_p.S158S|C15orf27_uc002bbs.2_Silent_p.S20S	NM_152335	NP_689548	Q2M3C6	CO027_HUMAN	hypothetical protein LOC123591	342						integral to membrane					0						TTGCAGACAGCGGTGTCCCAG	0.597													31	112					0	0	1	0	0		T	76496086	T	T	76496086	2	4	211	1	0	0	0	0	0	0	0	1	1791	767	27	1		1	C15orf27	15	76496086	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	478551	76496086	26035306	1307	103186											
TSPAN3	10099	broad.mit.edu	37	chr15	77348183	77348183	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caacaacttctgtgacaaaaAccaagagcaggatgatgaca	18	6	8	9	0	1	4	0	3	1	1	1	5	1	5	1	1	4	1	1	1	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:77348183A>C	uc002bcj.2	-	3	495	c.278T>G	c.(277-279)GTT>GGT	p.V93G	TSPAN3_uc002bck.2_Intron|TSPAN3_uc010ump.1_Missense_Mutation_p.V29G|TSPAN3_uc010bkx.2_Intron	NM_005724	NP_005715	O60637	TSN3_HUMAN	transmembrane 4 superfamily member 8 isoform 1	93	Helical; (Potential).					integral to membrane					0				all cancers(203;1.14e-19)		TGTGACAAAAACCAAGAGCAG	0.294													26	68					0	0	1	0	0		C	77348183	C	C	77348183	3	2	211	1	0	0	0	0	1	0	0	0	16671	43	2	5	503	5	TSPAN3	15	77348183	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	852097	77348183	25183209	1308	103187											
SGK269	79834	broad.mit.edu	37	chr15	77471616	77471616	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaaatgcctctgcaaaaGgttacctgcatggtaaggag	12	9	13	7	0	1	1	0	1	1	0	1	2	1	2	2	4	4	4	2	4	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:77471616G>T	uc002bcm.2	-	3	2961	c.2653C>A	c.(2653-2655)CTT>ATT	p.L885I	SGK269_uc002bcn.2_Missense_Mutation_p.L885I	NM_024776	NP_079052	Q9H792	PEAK1_HUMAN	NKF3 kinase family member	885					cell migration|protein autophosphorylation|substrate adhesion-dependent cell spreading	actin cytoskeleton|cytoplasm|focal adhesion	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding				0				STAD - Stomach adenocarcinoma(199;0.124)		CTCTGCAAAAGGTTACCTGCA	0.557													19	73					3.62473e-10	3.84079e-10	1	1	0		T	77471616	T	T	77471616	3	4	211	1	0	0	0	0	1	0	0	0	14236	1000	35	5	2603	5	SGK269	15	77471616	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	123433	77471616	25059776	1309	103188											
ACSBG1	23205	broad.mit.edu	37	chr15	78466028	78466028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgcgttcatgttgaccctccGgatcccctcttcgatggcct	4	12	9	16	4	2	1	1	1	1	0	5	3	4	2	5	2	0	2	5	2	0	3	rs146939982	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:78466028G>A	uc002bdh.2	-	13	2052	c.1996C>T	c.(1996-1998)CGG>TGG	p.R666W	ACSBG1_uc010umw.1_Missense_Mutation_p.R662W|ACSBG1_uc010umx.1_Missense_Mutation_p.R424W	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	666					long-chain fatty acid metabolic process|myelination|very long-chain fatty acid metabolic process	cytoplasmic membrane-bounded vesicle|endoplasmic reticulum|microsome	ATP binding|long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity			ovary(1)	1						TTGACCCTCCGGATCCCCTCT	0.582													19	42					0	0	1	0	0		A	78466028	A	A	78466028	3	1	211	1	0	0	0	0	1	0	0	0	173	1115	39	1	186	1	ACSBG1	15	78466028	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	994412	78466028	24065364	1310	103189											
TMED3	23423	broad.mit.edu	37	chr15	79614413	79614413	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggcccaggaccgggccCgagcagaagaccttaatagc	11	3	15	12	2	0	2	0	0	0	2	0	5	0	4	4	4	2	1	4	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:79614413C>T	uc002beu.2	+	3	612	c.511C>T	c.(511-513)CGA>TGA	p.R171*	TMED3_uc010unj.1_Intron|TMED3_uc002bev.2_RNA	NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3	171	Lumenal (Potential).				protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						GGACCGGGCCCGAGCAGAAGA	0.572													22	80					0	0	1	0	0		T	79614413	T	T	79614413	4	4	211	1	0	0	0	0	0	1	0	0	16030	644	23	1	521	1	TMED3	15	79614413	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1148385	79614413	22916979	1311	103190											
IL16	3603	broad.mit.edu	37	chr15	81591888	81591888	+	Missense_Mutation	SNP	A	G	G	1	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	gccacatgcctctacagcccAatgccagcctgaatgaagaa	13	6	8	14	0	1	3	0	2	1	1	1	3	1	3	5	0	5	0	5	0	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:81591888A>G	uc002bgh.3	+	14	2597	c.2221A>G	c.(2221-2223)AAT>GAT	p.N741D	IL16_uc010blq.1_Missense_Mutation_p.N695D|IL16_uc002bge.3_RNA|IL16_uc010unp.1_Missense_Mutation_p.N783D|IL16_uc002bgg.2_Missense_Mutation_p.N741D|IL16_uc002bgi.1_Missense_Mutation_p.N131D|IL16_uc002bgj.2_Missense_Mutation_p.N235D|IL16_uc002bgk.2_Missense_Mutation_p.N40D|IL16_uc002bgl.1_Missense_Mutation_p.N40D|IL16_uc010unq.1_Missense_Mutation_p.N40D	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	741					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4						TCTACAGCCCAATGCCAGCCT	0.522													33	70					0	0	1	0	0		G	81591888	G	G	81591888	3	3	211	1	0	0	0	0	1	0	0	0	7649	130	5	3	2271	3	IL16	15	81591888	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1977475	81591888	20939504	1312	103191											
MEX3B	84206	broad.mit.edu	37	chr15	82336304	82336304	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgctgctgctggtcccgcCgccgaaataagagtctgtgg	6	9	14	12	4	1	1	0	0	1	1	2	2	2	1	3	2	3	3	3	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:82336304C>T	uc002bgq.1	-	2	1222	c.907G>A	c.(907-909)GGC>AGC	p.G303S		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	303					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						CTGGTCCCGCCGCCGAAATAA	0.632													20	68					0	0	1	0	0		T	82336304	T	T	82336304	3	4	211	1	0	0	0	0	1	0	0	0	9528	652	23	1	806	1	MEX3B	15	82336304	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	744416	82336304	20195088	1313	103192											
BNC1	646	broad.mit.edu	37	chr15	83932176	83932176	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaattactgattcacgatgGcagggcctctccccttcagg	8	11	9	13	1	4	1	3	1	1	0	5	2	4	1	3	3	1	1	3	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:83932176G>A	uc002bjt.1	-	4	1915	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C	BNC1_uc010uos.1_Silent_p.C597C	NM_001717	NP_001708	Q01954	BNC1_HUMAN	basonuclin 1	609					epidermis development|positive regulation of cell proliferation	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						ATTCACGATGGCAGGGCCTCT	0.552													23	52					0	0	1	0	0		A	83932176	A	A	83932176	2	1	211	1	0	0	0	0	0	0	0	1	1475	1195	42	2		2	BNC1	15	83932176	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1595872	83932176	18599216	1314	103193											
ACAN	176	broad.mit.edu	37	chr15	89400561	89400561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tctagagacttcagcttctgGagctgaggacctcagtgggt	8	11	13	9	0	4	2	2	1	2	1	4	5	4	4	1	3	2	2	1	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:89400561G>A	uc010upo.1	+	12	5119	c.4745G>A	c.(4744-4746)GGA>GAA	p.G1582E	ACAN_uc010upp.1_Missense_Mutation_p.G1582E|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	1582					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			TCAGCTTCTGGAGCTGAGGAC	0.537													19	64					0	0	1	0	0		A	89400561	A	A	89400561	3	1	211	1	0	0	0	0	1	0	0	0	117	1174	41	4	4787	4	ACAN	15	89400561	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5468385	89400561	13130831	1315	103194											
ACAN	176	broad.mit.edu	37	chr15	89402303	89402303	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaagaaggcgaggcgtccGctgccccagaagtgagtgga	10	6	15	10	3	1	3	1	1	0	2	2	5	2	4	3	3	1	1	3	3	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:89402303G>A	uc010upo.1	+	12	6861	c.6487G>A	c.(6487-6489)GCT>ACT	p.A2163T	ACAN_uc010upp.1_Missense_Mutation_p.A2163T|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	2163					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CGAGGCGTCCGCTGCCCCAGA	0.577													25	81					0	0	1	0	0		A	89402303	A	A	89402303	3	1	211	1	0	0	0	0	1	0	0	0	117	1087	38	1	6529	1	ACAN	15	89402303	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1742	89402303	13129089	1316	103195											
ABHD2	11057	broad.mit.edu	37	chr15	89698693	89698693	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acgcccagaaaaatggctatCggtgcgccgtgctgaaccac	11	6	11	13	4	0	2	0	1	0	1	1	2	0	2	3	2	3	2	3	2	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:89698693C>T	uc002bnj.2	+	10	1383	c.466C>T	c.(466-468)CGG>TGG	p.R156W	ABHD2_uc002bnk.2_Missense_Mutation_p.R156W	NM_007011	NP_008942	P08910	ABHD2_HUMAN	alpha/beta hydrolase domain containing protein	156						integral to membrane	carboxylesterase activity			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)					AAATGGCTATCGGTGCGCCGT	0.517													30	96					0	0	1	0	0		T	89698693	T	T	89698693	3	4	211	1	0	0	0	0	1	0	0	0	82	875	31	1	476	1	ABHD2	15	89698693	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	296390	89698693	12832699	1317	103196											
KIF7	374654	broad.mit.edu	37	chr15	90176438	90176438	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcttcctctggaatgccgcGatctcttccgtcttaatctt	5	16	6	14	3	5	0	0	0	5	0	8	2	7	1	3	1	1	0	3	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:90176438G>A	uc002bof.2	-	13	2729	c.2652C>T	c.(2650-2652)ATC>ATT	p.I884I	KIF7_uc010upw.1_Silent_p.I370I	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	884	Potential.				microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGAATGCCGCGATCTCTTCCG	0.607													4	13					0	0	1	0	0		A	90176438	A	A	90176438	2	1	211	1	0	0	0	0	0	0	0	1	8325	1048	37	1		1	KIF7	15	90176438	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	477745	90176438	12354954	1318	103197											
SV2B	9899	broad.mit.edu	37	chr15	91835714	91835714	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccccatccttctggctgctGcttctctggttgggggtggc	1	14	13	13	0	2	0	0	0	2	0	5	0	4	0	3	5	2	4	3	5	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:91835714G>T	uc002bqv.2	+	12	2375	c.1984G>T	c.(1984-1986)GCT>TCT	p.A662S	SV2B_uc010uqv.1_Missense_Mutation_p.A511S|SV2B_uc002bqu.3_RNA	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	662	Helical; (Potential).				neurotransmitter transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)|upper_aerodigestive_tract(1)	8	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)			TCTGGCTGCTGCTTCTCTGGT	0.498													28	74					1.16021e-09	1.22514e-09	1	1	0		T	91835714	T	T	91835714	3	4	211	1	0	0	0	0	1	0	0	0	15443	1319	46	5	2030	5	SV2B	15	91835714	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1659276	91835714	10695678	1319	103198											
ST8SIA2	8128	broad.mit.edu	37	chr15	92988137	92988137	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcactgcatacccctcgctgCgcctgctgcacgccgttcgc	4	8	10	19	5	0	0	0	0	0	0	2	0	0	0	4	0	5	6	4	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:92988137C>T	uc002bra.2	+	5	975	c.820C>T	c.(820-822)CGC>TGC	p.R274C	ST8SIA2_uc002brb.2_Missense_Mutation_p.R253C	NM_006011	NP_006002	Q92186	SIA8B_HUMAN	ST8 alpha-N-acetyl-neuraminide	274	Lumenal (Potential).				axon guidance|N-glycan processing|oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity				0	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0355)|OV - Ovarian serous cystadenocarcinoma(32;0.203)			CCCCTCGCTGCGCCTGCTGCA	0.627													6	99					0	0	1	0	0		T	92988137	T	T	92988137	3	4	211	1	0	0	0	0	1	0	0	0	15257	768	27	1	838	1	ST8SIA2	15	92988137	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1152423	92988137	9543255	1320	103199											
IGF1R	3480	broad.mit.edu	37	chr15	99251056	99251056	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aactacgccctggtcatcttCgagatgaccaatctcaagga	12	9	8	12	2	3	2	2	1	2	1	5	4	3	3	2	2	2	0	2	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:99251056C>T	uc002bul.2	+	2	410	c.360C>T	c.(358-360)TTC>TTT	p.F120F	IGF1R_uc010urq.1_Silent_p.F120F|IGF1R_uc010bon.2_Silent_p.F120F	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	120					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	TGGTCATCTTCGAGATGACCA	0.532													9	36					0	0	1	0	0		T	99251056	T	T	99251056	2	4	211	1	0	0	0	0	0	0	0	1	7587	883	31	1		1	IGF1R	15	99251056	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6262919	99251056	3280336	1321	103200											
IGF1R	3480	broad.mit.edu	37	chr15	99251189	99251189	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccctgatcctggatgcggtgTccaataactacattgtgggg	8	11	12	10	1	0	1	0	1	0	0	2	2	2	2	3	4	3	0	3	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:99251189T>A	uc002bul.2	+	2	543	c.493T>A	c.(493-495)TCC>ACC	p.S165T	IGF1R_uc010urq.1_Missense_Mutation_p.S165T|IGF1R_uc010bon.2_Missense_Mutation_p.S165T	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	165					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	GGATGCGGTGTCCAATAACTA	0.527													27	76					0	0	1	0	0		A	99251189	A	A	99251189	3	1	211	1	0	0	0	0	1	0	0	0	7587	1667	58	5	499	5	IGF1R	15	99251189	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	133	99251189	3280203	1322	103201											
TM2D3	80213	broad.mit.edu	37	chr15	102187098	102187098	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcttttgggatttgaagtctTgatcctatgtagcaaatgac	10	16	9	6	0	2	3	0	3	2	0	3	4	3	4	1	1	1	2	1	1	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr15:102187098T>C	uc002bxi.2	-	4	362	c.332A>G	c.(331-333)CAA>CGA	p.Q111R	TM2D3_uc010usg.1_Missense_Mutation_p.Q85R|TM2D3_uc002bxh.2_Missense_Mutation_p.Q46R|TM2D3_uc002bxj.2_Missense_Mutation_p.Q85R|TM2D3_uc002bxk.2_Missense_Mutation_p.Q46R|TM2D3_uc010ush.1_Missense_Mutation_p.Q111R	NM_078474	NP_510883	Q9BRN9	TM2D3_HUMAN	TM2 domain containing 3 isoform a	111						integral to membrane				ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TTTGAAGTCTTGATCCTATGT	0.403													8	24					0	0	1	0	0		C	102187098	C	C	102187098	3	2	211	1	0	0	0	0	1	0	0	0	15990	1812	63	3	423	3	TM2D3	15	102187098	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2935909	102187098	344294	1323	103202											
WDR24	84219	broad.mit.edu	37	chr16	735396	735396	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaagaagtcgggcggcaggCggctgtcgtagagcgcgtgt	7	6	19	9	7	0	2	0	0	0	2	2	3	0	2	0	4	1	3	0	4	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:735396C>T	uc002ciz.1	-	7	2640	c.1880G>A	c.(1879-1881)CGC>CAC	p.R627H	JMJD8_uc002ciw.1_5'Flank|JMJD8_uc002cix.1_5'Flank|JMJD8_uc002ciy.1_5'Flank	NM_032259	NP_115635	Q96S15	WDR24_HUMAN	WD repeat domain 24	757										ovary(1)|central_nervous_system(1)	2		Hepatocellular(780;0.0218)				GGGCGGCAGGCGGCTGTCGTA	0.667													18	25					0	0	1	0	0		T	735396	T	T	735396	3	4	211	1	0	0	0	0	1	0	0	0	17307	768	27	1	504	1	WDR24	16	735396	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		735396	89619357	1324	103203											
CHTF18	63922	broad.mit.edu	37	chr16	840568	840568	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcccagcccttgggggccCctgaggaggagccgactgac	7	4	15	15	1	0	2	0	2	0	0	0	5	0	4	5	4	3	0	5	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:840568C>A	uc002cke.3	+	7	859	c.796C>A	c.(796-798)CCT>ACT	p.P266T	RPUSD1_uc002cka.2_5'Flank|RPUSD1_uc002ckb.2_5'Flank|RPUSD1_uc002ckc.2_5'Flank|RPUSD1_uc002ckd.2_5'Flank|CHTF18_uc010uus.1_Missense_Mutation_p.P271H|CHTF18_uc010bre.1_RNA|CHTF18_uc002ckf.3_Missense_Mutation_p.P294T|CHTF18_uc010brf.2_5'UTR|CHTF18_uc002ckg.3_5'UTR	NM_022092	NP_071375	Q8WVB6	CTF18_HUMAN	CTF18, chromosome transmission fidelity factor	266					cell cycle|DNA replication	nucleus	ATP binding|DNA binding|nucleoside-triphosphatase activity	p.P266L(1)		kidney(1)	1		Hepatocellular(780;0.00335)				CTTGGGGGCCCCTGAGGAGGA	0.637													5	10					3.59834e-05	3.71759e-05	1	1	0		A	840568	A	A	840568	3	1	211	1	0	0	0	0	1	0	0	0	3417	623	22	5	822	5	CHTF18	16	840568	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	105172	840568	89514185	1325	103204											
GNG13	51764	broad.mit.edu	37	chr16	849007	849007	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtcttggacgccatctccCgctggaaggccagctggtac	6	9	13	13	2	2	0	0	0	2	0	3	2	2	2	3	5	2	3	3	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:849007C>T	uc002ckh.3	-	2	173	c.71G>A	c.(70-72)CGG>CAG	p.R24Q		NM_016541	NP_057625	Q9P2W3	GBG13_HUMAN	guanine nucleotide binding protein (G protein),	24					cellular response to glucagon stimulus|energy reserve metabolic process		signal transducer activity				0		Hepatocellular(780;0.00335)				CGCCATCTCCCGCTGGAAGGC	0.597													17	30					0	0	1	0	0		T	849007	T	T	849007	3	4	211	1	0	0	0	0	1	0	0	0	6541	652	23	1	140	1	GNG13	16	849007	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8439	849007	89505746	1326	103205											
C16orf42	115939	broad.mit.edu	37	chr16	1400977	1400977	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggagcagtcgatgacggcGaccccagactgcgccaccag	10	3	13	15	4	0	2	0	1	0	1	1	5	0	3	4	2	2	1	4	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:1400977G>A	uc002cll.2	-	3	425	c.357C>T	c.(355-357)GTC>GTT	p.V119V	GNPTG_uc002clm.2_5'Flank	NM_001001410	NP_001001410	Q9UJK0	TSR3_HUMAN	hypothetical protein LOC115939	119					rRNA processing						0		Hepatocellular(780;0.0893)				CGATGACGGCGACCCCAGACT	0.642													17	47					0	0	1	0	0		A	1400977	A	A	1400977	2	1	211	1	0	0	0	0	0	0	0	1	1816	1045	37	1		1	C16orf42	16	1400977	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	551970	1400977	88953776	1327	103206											
C16orf91	283951	broad.mit.edu	37	chr16	1470325	1470325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggcacctctccccacacCtgtctcaaccactggtccgc	6	9	6	20	1	3	0	1	0	3	0	6	0	4	0	6	2	1	1	6	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:1470325C>A	uc002clr.2	-	2	342	c.321G>T	c.(319-321)CAG>CAT	p.Q107H	C16orf91_uc010uvd.1_Missense_Mutation_p.Q264H	NM_001010878	NP_001010878	Q4G0I0	CSMT1_HUMAN	hypothetical protein LOC283951	107	Cytoplasmic (Potential).					integral to membrane					0						CTCCCCACACCTGTCTCAACC	0.647													30	105					3.11337e-16	3.38055e-16	1	1	0		A	1470325	A	A	1470325	3	1	211	1	0	0	0	0	1	0	0	0	1847	695	24	5	284	5	C16orf91	16	1470325	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	69348	1470325	88884428	1328	103207											
HAGH	3029	broad.mit.edu	37	chr16	1866996	1866996	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtggccacagtagactctCtgaggagagaggtgacaggt	10	8	15	8	1	1	4	0	2	1	2	3	6	1	5	1	4	0	1	1	4	1	1	rs113814490		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:1866996C>A	uc002cna.2	-	7	1053	c.646_splice	c.e7-1	p.R216_splice	HAGH_uc002cmz.2_Splice_Site_p.R168_splice|HAGH_uc010uvp.1_Splice_Site_p.Q179_splice|HAGH_uc002cnb.1_Splice_Site_p.R168_splice	NM_005326	NP_005317	Q16775	GLO2_HUMAN	hydroxyacylglutathione hydrolase isoform 1						glutathione biosynthetic process	cytoplasm|mitochondrial matrix|mitochondrial matrix	hydroxyacylglutathione hydrolase activity|zinc ion binding			ovary(1)	1		Hepatocellular(780;0.00335)			Glutathione(DB00143)	AGTAGACTCTCTGAGGAGAGA	0.627													10	22					7.48243e-07	7.7865e-07	1	1	0		A	1866996	A	A	1866996	5	1	211	1	0	0	0	0	0	0	1	0	6961	927	32	5	293	5	HAGH	16	1866996	Splice_Site	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	396671	1866996	88487757	1329	103208											
TBL3	10607	broad.mit.edu	37	chr16	2025588	2025588	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtacacgcaggcccagccGccgggccctgggcaggagct	6	4	16	15	3	0	0	0	0	0	0	0	1	0	1	4	4	3	4	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2025588G>A	uc002cnu.1	+	10	966	c.864G>A	c.(862-864)CCG>CCA	p.P288P	TBL3_uc002cnv.1_Silent_p.P174P|TBL3_uc010bsb.1_Silent_p.P77P|TBL3_uc010bsc.1_Silent_p.P174P|TBL3_uc010uvt.1_5'UTR|TBL3_uc002cnw.1_5'Flank	NM_006453	NP_006444	Q12788	TBL3_HUMAN	transducin beta-like 3	288					G-protein signaling, coupled to cGMP nucleotide second messenger|rRNA processing	nucleolus|small-subunit processome	receptor signaling protein activity				0						AGGCCCAGCCGCCGGGCCCTG	0.687													11	19					0	0	1	0	0		A	2025588	A	A	2025588	2	1	211	1	0	0	0	0	0	0	0	1	15668	1074	38	1		1	TBL3	16	2025588	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	158592	2025588	88329165	1330	103209											
TSC2	7249	broad.mit.edu	37	chr16	2120494	2120494	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcaagccacgccacgcGtgtgtatgagatgctggtca	8	8	13	12	3	1	1	1	1	0	1	1	2	1	1	3	1	3	3	3	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2120494G>A	uc002con.2	+	17	1860	c.1754G>A	c.(1753-1755)CGT>CAT	p.R585H	TSC2_uc010bsd.2_Missense_Mutation_p.R585H|TSC2_uc002coo.2_Missense_Mutation_p.R585H|TSC2_uc010uvv.1_Missense_Mutation_p.R548H|TSC2_uc010uvw.1_Missense_Mutation_p.R536H|TSC2_uc002cop.2_Missense_Mutation_p.R385H	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	585					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				CACGCCACGCGTGTGTATGAG	0.602			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				20	60					0	0	1	0	0		A	2120494	A	A	2120494	3	1	211	1	0	0	0	0	1	0	0	0	16632	1145	40	1	1816	1	TSC2	16	2120494	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	94906	2120494	88234259	1331	103210											
TSC2	7249	broad.mit.edu	37	chr16	2124374	2124374	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccagcatggccgtcccactGctggagttcctgtccagtga	6	9	12	14	1	0	1	0	1	0	0	3	2	3	2	5	2	2	3	5	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2124374G>A	uc002con.2	+	22	2635	c.2529G>A	c.(2527-2529)CTG>CTA	p.L843L	TSC2_uc010bsd.2_Silent_p.L843L|TSC2_uc002coo.2_Silent_p.L843L|TSC2_uc010uvv.1_Silent_p.L806L|TSC2_uc010uvw.1_Silent_p.L794L|TSC2_uc002cop.2_Silent_p.L643L	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	843					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				CCGTCCCACTGCTGGAGTTCC	0.622			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				20	72					0	0	1	0	0		A	2124374	A	A	2124374	2	1	211	1	0	0	0	0	0	0	0	1	16632	1306	46	2		2	TSC2	16	2124374	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3880	2124374	88230379	1332	103211											
PKD1	5310	broad.mit.edu	37	chr16	2140904	2140904	+	Missense_Mutation	SNP	A	T	T	1	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	ccttgaccaaaagcaggaagAgcagcgaggccgccaggcca	13	2	13	13	2	0	2	0	1	0	1	0	4	0	3	5	3	3	2	5	3	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2140904A>T	uc002cos.1	-	43	12193	c.11984T>A	c.(11983-11985)CTC>CAC	p.L3995H	PKD1_uc002cot.1_Missense_Mutation_p.L3994H|MIR1225_hsa-mir-1225|MI0006311_5'Flank|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3995	Helical; (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AAGCAGGAAGAGCAGCGAGGC	0.706													6	10					0	0	1	0	0		T	2140904	T	T	2140904	3	4	211	1	0	0	0	0	1	0	0	0	11982	304	11	5	943	5	PKD1	16	2140904	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	16530	2140904	88213849	1333	103212											
PKD1	5310	broad.mit.edu	37	chr16	2158371	2158371	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccgtgtgtctgaccacacgCggtatgagccaccctcaatg	8	8	10	15	3	2	2	1	2	1	0	2	2	2	2	4	1	1	1	4	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2158371C>T	uc002cos.1	-	15	7006	c.6797G>A	c.(6796-6798)CGC>CAC	p.R2266H	PKD1_uc002cot.1_Missense_Mutation_p.R2266H	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2266	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						TGACCACACGCGGTATGAGCC	0.642													26	85					0	0	1	0	0		T	2158371	T	T	2158371	3	4	211	1	0	0	0	0	1	0	0	0	11982	768	27	1	6242	1	PKD1	16	2158371	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	17467	2158371	88196382	1334	103213											
ABCA3	21	broad.mit.edu	37	chr16	2347360	2347360	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgaggaacagcgaggaccCgcagcactgcagctccccct	9	5	11	16	2	0	1	0	1	0	0	1	4	1	3	3	2	5	4	3	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2347360C>A	uc002cpy.1	-	17	2945	c.2233G>T	c.(2233-2235)GGG>TGG	p.G745W	ABCA3_uc010bsk.1_Missense_Mutation_p.G687W|ABCA3_uc010bsl.1_Missense_Mutation_p.G745W	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	745	ABC transporter 1.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				AGCGAGGACCCGCAGCACTGC	0.642													23	60					9.57634e-11	1.01923e-10	1	1	0		A	2347360	A	A	2347360	3	1	211	1	0	0	0	0	1	0	0	0	33	652	23	5	2949	5	ABCA3	16	2347360	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	188989	2347360	88007393	1335	103214											
TBC1D24	57465	broad.mit.edu	37	chr16	2546162	2546162	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgctatggactctccaGgatacaactgcttcgtggac	8	9	12	12	3	1	0	0	0	1	0	3	3	1	3	1	4	3	2	1	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2546162G>T	uc002cql.2	+	2	153	c.13G>T	c.(13-15)GGA>TGA	p.G5*	TBC1D24_uc002cqk.2_Nonsense_Mutation_p.G5*|TBC1D24_uc002cqm.2_Nonsense_Mutation_p.G5*|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	5					neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						GGACTCTCCAGGATACAACTG	0.597													29	111					2.42023e-17	2.63457e-17	1	1	0		T	2546162	T	T	2546162	4	4	211	1	0	0	0	0	0	1	0	0	15639	1001	35	5	15	5	TBC1D24	16	2546162	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	198802	2546162	87808591	1336	103215											
AMDHD2	51005	broad.mit.edu	37	chr16	2577787	2577787	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcccagggctgcacctggaGggccccttcatcagccggga	6	6	13	16	1	2	0	2	0	0	0	3	2	3	2	5	4	2	2	5	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2577787G>T	uc002cqq.2	+	5	526	c.429G>T	c.(427-429)GAG>GAT	p.E143D	AMDHD2_uc002cqp.2_Missense_Mutation_p.E143D|AMDHD2_uc010uwc.1_Missense_Mutation_p.E143D|AMDHD2_uc010uwd.1_Translation_Start_Site	NM_015944	NP_057028	Q9Y303	NAGA_HUMAN	amidohydrolase domain containing 2 isoform 1	143					N-acetylglucosamine metabolic process		N-acetylglucosamine-6-phosphate deacetylase activity			skin(2)|large_intestine(1)|breast(1)	4						TGCACCTGGAGGGCCCCTTCA	0.701													4	14					0.217242	0.217546	1	1	0		T	2577787	T	T	2577787	3	4	211	1	0	0	0	0	1	0	0	0	568	991	35	5	447	5	AMDHD2	16	2577787	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	31625	2577787	87776966	1337	103216											
SRRM2	23524	broad.mit.edu	37	chr16	2811591	2811591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcgacctagcccctctccGgaaaggagcagcacaggccc	10	4	10	17	2	1	0	0	0	1	0	3	3	1	2	5	3	3	2	5	3	2	1	rs138332398		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2811591G>A	uc002crk.2	+	11	1611	c.1062G>A	c.(1060-1062)CCG>CCA	p.P354P	SRRM2_uc002crj.1_Silent_p.P258P|SRRM2_uc002crl.1_Silent_p.P354P|SRRM2_uc010bsu.1_Silent_p.P258P	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	354	Pro-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GCCCCTCTCCGGAAAGGAGCA	0.567													43	139					0	0	1	0	0		A	2811591	A	A	2811591	2	1	211	1	0	0	0	0	0	0	0	1	15194	1103	39	1		1	SRRM2	16	2811591	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	233804	2811591	87543162	1338	103217											
PRSS33	260429	broad.mit.edu	37	chr16	2835149	2835149	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cggcacccttactccttgtaGcggtcgccactctgggaggg	5	9	13	14	3	1	0	0	0	1	0	3	1	2	1	3	4	2	2	3	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2835149G>T	uc002cro.1	-	5	698	c.538C>A	c.(538-540)CTA>ATA	p.L180I	PRSS33_uc002crp.1_Missense_Mutation_p.A89D|PRSS33_uc010uwh.1_Missense_Mutation_p.L180I	NM_152891	NP_690851	Q8NF86	PRS33_HUMAN	protease, serine, 33 precursor	180	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0						ACTCCTTGTAGCGGTCGCCAC	0.677													3	1					6.4e-05	6.60259e-05	1	1	0		T	2835149	T	T	2835149	3	4	211	1	0	0	0	0	1	0	0	0	12645	962	34	5	312	5	PRSS33	16	2835149	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	23558	2835149	87519604	1339	103218											
FLYWCH1	84256	broad.mit.edu	37	chr16	2983439	2983439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggacacgctgctccgaggcGtggatagtttgctctaccgc	6	10	13	12	4	1	0	0	0	1	0	2	3	2	2	2	3	3	4	2	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:2983439G>A	uc002csd.2	+	5	1468	c.1105G>A	c.(1105-1107)GTG>ATG	p.V369M	FLYWCH1_uc002csb.2_Missense_Mutation_p.V368M|FLYWCH1_uc002csc.2_Missense_Mutation_p.V368M|FLYWCH1_uc010bsv.2_Missense_Mutation_p.V44M	NM_032296	NP_115672	Q4VC44	FWCH1_HUMAN	FLYWCH-type zinc finger 1 isoform a	369						nucleus	DNA binding|metal ion binding				0						GCTCCGAGGCGTGGATAGTTT	0.677													6	12					0	0	1	0	0		A	2983439	A	A	2983439	3	1	211	1	0	0	0	0	1	0	0	0	5961	1145	40	1	1112	1	FLYWCH1	16	2983439	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	148290	2983439	87371314	1340	103219											
THOC6	79228	broad.mit.edu	37	chr16	3076568	3076568	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagttgcacactatggacCttgaaactgggactttcacg	10	11	10	10	1	2	1	2	1	0	0	2	3	2	3	1	2	2	2	1	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:3076568C>A	uc002ctb.2	+	7	759	c.463C>A	c.(463-465)CTT>ATT	p.L155I	HCFC1R1_uc002csx.1_5'Flank|HCFC1R1_uc002csy.1_5'Flank|HCFC1R1_uc002csz.1_5'Flank|THOC6_uc002ctd.2_Missense_Mutation_p.L155I|THOC6_uc002ctc.2_Missense_Mutation_p.L131I|THOC6_uc002cta.2_Missense_Mutation_p.L131I	NM_024339	NP_077315	Q86W42	THOC6_HUMAN	WD repeat domain 58 isoform 1	155	WD 3.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	RNA binding			ovary(1)|central_nervous_system(1)	2						CACTATGGACCTTGAAACTGG	0.557													10	23					5.50884e-06	5.72164e-06	1	1	0		A	3076568	A	A	3076568	3	1	211	1	0	0	0	0	1	0	0	0	15894	681	24	5	489	5	THOC6	16	3076568	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	93129	3076568	87278185	1341	103220											
BTBD12	84464	broad.mit.edu	37	chr16	3633486	3633486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcttcagaaccatctggcGtttaggcagagggcggactc	9	8	13	11	2	2	2	1	0	1	2	3	3	2	3	1	4	2	3	1	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:3633486G>A	uc002cvp.2	-	14	5392	c.4765C>T	c.(4765-4767)CGC>TGC	p.R1589C		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1589	Interaction with MUS81.|Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						ACCATCTGGCGTTTAGGCAGA	0.562								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				43	108					0	0	1	0	0		A	3633486	A	A	3633486	3	1	211	1	0	0	0	0	1	0	0	0	1543	1145	40	1	747	1	BTBD12	16	3633486	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	556918	3633486	86721267	1342	103221											
TRAP1	10131	broad.mit.edu	37	chr16	3712930	3712930	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacatttctcatccaggccaTgagctcctccgtctccttct	6	13	5	17	1	3	1	1	1	3	0	8	1	6	1	5	1	1	1	5	1	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:3712930T>C	uc002cvt.3	-	15	1836	c.1747A>G	c.(1747-1749)ATG>GTG	p.M583V	TRAP1_uc002cvs.2_Missense_Mutation_p.M374V|TRAP1_uc010uxf.1_Missense_Mutation_p.M530V|uc002cvu.2_RNA	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	583					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				ATCCAGGCCATGAGCTCCTCC	0.632													11	30					0	0	1	0	0		C	3712930	C	C	3712930	3	2	211	1	0	0	0	0	1	0	0	0	16481	1464	51	3	383	3	TRAP1	16	3712930	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	79444	3712930	86641823	1343	103222											
NUDT16L1	84309	broad.mit.edu	37	chr16	4745111	4745111	+	Silent	SNP	T	C	C	0	1	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	atgcccgaggagaagctggtTgaggccctggctgcagccac	8	6	15	12	1	0	2	0	1	0	1	0	4	0	2	3	4	4	4	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:4745111T>C	uc002cxe.2	+	3	579	c.567T>C	c.(565-567)GTT>GTC	p.V189V	NUDT16L1_uc002cxf.1_3'UTR	NM_032349	NP_115725	Q9BRJ7	SDOS_HUMAN	syndesmos	189	Interaction with PXN (By similarity).					cytoplasm	hydrolase activity				0						AGAAGCTGGTTGAGGCCCTGG	0.622													33	97					0	0	1	0	0		C	4745111	C	C	4745111	2	2	211	1	0	0	0	0	0	0	0	1	10752	1799	63	3		3	NUDT16L1	16	4745111	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1032181	4745111	85609642	1344	103223											
C16orf71	146562	broad.mit.edu	37	chr16	4790235	4790235	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgcatcctctcaggaaGgaagagaccctggcaggcct	11	6	13	11	0	1	1	1	0	1	1	3	5	2	4	3	5	1	2	3	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:4790235G>A	uc002cxn.2	+	4	820	c.358G>A	c.(358-360)GGA>AGA	p.G120R		NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	120										central_nervous_system(1)	1						CTCTCAGGAAGGAAGAGACCC	0.562													29	108					0	0	1	0	0		A	4790235	A	A	4790235	3	1	211	1	0	0	0	0	1	0	0	0	1833	1001	35	4	368	4	C16orf71	16	4790235	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	45124	4790235	85564518	1345	103224											
ZNF500	26048	broad.mit.edu	37	chr16	4803010	4803010	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtaccactccattctcaaCggggcatcctccctgccatc	7	9	7	18	2	1	0	1	0	1	0	6	0	4	0	5	3	3	2	5	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:4803010C>T	uc002cxp.1	-	6	1057	c.810G>A	c.(808-810)CCG>CCA	p.P270P	ZNF500_uc002cxo.1_Silent_p.P62P|ZNF500_uc010uxt.1_Silent_p.P270P	NM_021646	NP_067678	O60304	ZN500_HUMAN	zinc finger protein 500	270					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CCATTCTCAACGGGGCATCCT	0.637													21	67					0	0	1	0	0		T	4803010	T	T	4803010	2	4	211	1	0	0	0	0	0	0	0	1	17973	523	19	1		1	ZNF500	16	4803010	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	12775	4803010	85551743	1346	103225											
UBN1	29855	broad.mit.edu	37	chr16	4925234	4925234	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggcatacagcctccctcCgtgggacaggccaccagccg	7	5	11	18	2	0	0	0	0	0	0	2	1	2	1	7	3	3	1	7	3	1	1	rs145528581		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:4925234C>T	uc002cyb.2	+	15	3162	c.2823C>T	c.(2821-2823)TCC>TCT	p.S941S	UBN1_uc010uxw.1_Silent_p.S941S|UBN1_uc002cyc.2_Silent_p.S941S	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	941	Ser-rich.				chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity	p.S941S(1)|p.S941F(1)		skin(2)	2						AGCCTCCCTCCGTGGGACAGG	0.582													26	46					0	0	1	0	0		T	4925234	T	T	4925234	2	4	211	1	0	0	0	0	0	0	0	1	16918	639	23	1		1	UBN1	16	4925234	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	122224	4925234	85429519	1347	103226											
A2BP1	54715	broad.mit.edu	37	chr16	7714948	7714948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cagtgttgtttaccaggatgGattttatggtgcagacattt	9	16	11	5	0	0	1	0	0	0	1	0	3	0	3	1	3	2	3	1	3	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:7714948G>A	uc002cys.2	+	13	1896	c.908G>A	c.(907-909)GGA>GAA	p.G303E	A2BP1_uc002cyt.2_Missense_Mutation_p.G276E|A2BP1_uc010uxz.1_Missense_Mutation_p.G346E|A2BP1_uc010uya.1_Missense_Mutation_p.G260E|A2BP1_uc010uyb.1_Missense_Mutation_p.G303E|A2BP1_uc002cyw.2_Intron|A2BP1_uc002cyy.2_Intron|A2BP1_uc002cyx.2_Intron|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	303					mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		TACCAGGATGGATTTTATGGT	0.443													51	128					0	0	1	0	0		A	7714948	A	A	7714948	3	1	211	1	0	0	0	0	1	0	0	0	3	1174	41	4	1037	4	A2BP1	16	7714948	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2789714	7714948	82639805	1348	103227											
TEKT5	146279	broad.mit.edu	37	chr16	10775850	10775850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggggagtctgatacttacGtgccgtcaattttctccatg	8	13	11	9	2	3	1	1	1	2	0	4	2	3	2	2	2	3	0	2	2	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:10775850G>A	uc002czz.1	-	4	935	c.863C>T	c.(862-864)ACG>ATG	p.T288M		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	288					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						TGATACTTACGTGCCGTCAAT	0.537													30	100					0	0	1	0	0		A	10775850	A	A	10775850	3	1	211	1	0	0	0	0	1	0	0	0	15781	1159	40	1	610	1	TEKT5	16	10775850	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3060902	10775850	79578903	1349	103228											
SNN	8303	broad.mit.edu	37	chr16	11770033	11770033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgctacctgcggctgcagCgcatcagccagtcagaggac	8	6	14	13	2	2	1	2	0	0	1	2	2	2	2	2	3	6	4	2	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:11770033C>T	uc002dbf.2	+	2	299	c.118C>T	c.(118-120)CGC>TGC	p.R40C		NM_003498	NP_003489	O75324	SNN_HUMAN	Stannin	40	Cytoplasmic.				response to abiotic stimulus|response to stress	integral to membrane|mitochondrial outer membrane					0						GCGGCTGCAGCGCATCAGCCA	0.647													16	52					0	0	1	0	0		T	11770033	T	T	11770033	3	4	211	1	0	0	0	0	1	0	0	0	14874	768	27	1	120	1	SNN	16	11770033	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	994183	11770033	78584720	1350	103229											
NPIP	9284	broad.mit.edu	37	chr16	15045841	15045841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctcccgagtgtgtctgctcaCtccccttccaccctcagcgg	4	10	8	19	2	3	0	2	0	1	0	6	1	6	0	5	1	2	1	5	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:15045841C>T	uc002dcy.3	+	8	1012	c.1012C>T	c.(1012-1014)CTC>TTC	p.L338F	NPIP_uc002dcx.3_RNA	NM_006985	NP_008916	Q9UND3	NPIP_HUMAN	nuclear pore complex interacting protein	338	Pro-rich.				mRNA transport|protein transport|transmembrane transport	nuclear membrane|nuclear pore					0						TGTCTGCTCACTCCCCTTCCA	0.443													12	30					0	0	1	0	0		T	15045841	T	T	15045841	3	4	211	1	0	0	0	0	1	0	0	0	10603	565	20	4	1042	4	NPIP	16	15045841	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3275808	15045841	75308912	1351	103230											
PDXDC1	23042	broad.mit.edu	37	chr16	15110036	15110036	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttgggagattgaaagaactcTgtgagcagtatggcatatgg	12	11	14	4	0	1	4	0	2	1	2	1	5	1	4	0	3	2	3	0	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:15110036T>G	uc002dda.3	+	9	1002	c.778T>G	c.(778-780)TGT>GGT	p.C260G	PDXDC1_uc010uzl.1_Missense_Mutation_p.C245G|PDXDC1_uc010uzm.1_Missense_Mutation_p.C169G|PDXDC1_uc002dcz.2_Missense_Mutation_p.C237G|PDXDC1_uc002ddb.3_Missense_Mutation_p.C233G|PDXDC1_uc010uzn.1_Missense_Mutation_p.C232G|PDXDC1_uc002ddc.2_Missense_Mutation_p.C260G	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	260					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GAAAGAACTCTGTGAGCAGTA	0.498													11	39					0	0	1	0	0		G	15110036	G	G	15110036	3	3	211	1	0	0	0	0	1	0	0	0	11715	1580	55	5	812	5	PDXDC1	16	15110036	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	64195	15110036	75244717	1352	103231											
MYH11	4629	broad.mit.edu	37	chr16	15811203	15811203	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctcgttgctgagctgctcGgcctggggaggagagtgaag	7	8	18	8	2	0	3	0	2	0	1	2	5	0	4	1	4	4	5	1	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:15811203G>A	uc002ddy.2	-	38	5405	c.5298C>T	c.(5296-5298)GCC>GCT	p.A1766A	MYH11_uc002ddv.2_Silent_p.A1773A|MYH11_uc002ddw.2_Silent_p.A1766A|MYH11_uc002ddx.2_Silent_p.A1773A|MYH11_uc010bvg.2_Silent_p.A1598A|NDE1_uc010uzy.1_Intron|NDE1_uc002dds.2_Intron|MYH11_uc010bvh.2_Silent_p.A472A	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1766	Potential.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						TGAGCTGCTCGGCCTGGGGAG	0.637			T	CBFB	AML								16	42					0	0	1	0	0		A	15811203	A	A	15811203	2	1	211	1	0	0	0	0	0	0	0	1	10049	1103	39	1		1	MYH11	16	15811203	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	701167	15811203	74543550	1353	103232											
ABCC1	4363	broad.mit.edu	37	chr16	16232232	16232232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggtcaagtgtcgggcagcGccagcttgtgtgcctagccc	5	8	14	14	3	1	0	1	0	0	0	2	0	1	0	4	2	4	2	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:16232232G>A	uc010bvi.2	+	30	4479	c.4304G>A	c.(4303-4305)CGC>CAC	p.R1435H	ABCC1_uc010bvj.2_Missense_Mutation_p.R1376H|ABCC1_uc010bvk.2_Missense_Mutation_p.R1379H|ABCC1_uc010bvl.2_Intron|ABCC1_uc010bvm.2_Missense_Mutation_p.R1320H|ABCC1_uc002del.3_Missense_Mutation_p.R1329H	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1435	ABC transporter 2.|Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GTCGGGCAGCGCCAGCTTGTG	0.592													15	22					0	0	1	0	0		A	16232232	A	A	16232232	3	1	211	1	0	0	0	0	1	0	0	0	49	1087	38	1	4422	1	ABCC1	16	16232232	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	421029	16232232	74122521	1354	103233											
SMG1	23049	broad.mit.edu	37	chr16	18858833	18858833	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcttcaagctgctgaattcGtctcaggacatacatgtgtt	10	14	8	9	1	3	1	2	1	2	0	5	2	3	2	0	1	3	3	0	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:18858833G>A	uc002dfm.2	-	38	6301	c.5938C>T	c.(5938-5940)CGA>TGA	p.R1980*	SMG1_uc010bwb.2_Nonsense_Mutation_p.R1840*|SMG1_uc010bwa.2_Nonsense_Mutation_p.R711*|SMG1_uc002dfo.3_Nonsense_Mutation_p.R278*	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	1980					DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						TGCTGAATTCGTCTCAGGACA	0.507													30	91					0	0	1	0	0		A	18858833	A	A	18858833	4	1	211	1	0	0	0	0	0	1	0	0	14820	1153	40	1	5151	1	SMG1	16	18858833	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2626601	18858833	71495920	1355	103234											
SYT17	51760	broad.mit.edu	37	chr16	19194968	19194968	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagacggacctataacccCgacgactatttcaggaagtt	12	9	8	12	3	2	1	2	0	0	1	2	5	2	3	3	2	1	1	3	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:19194968C>T	uc002dfw.2	+	5	781	c.450C>T	c.(448-450)CCC>CCT	p.P150P	SYT17_uc002dfx.2_Silent_p.P89P|SYT17_uc002dfy.2_Silent_p.P146P|SYT17_uc002dfv.1_Silent_p.P89P	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	150						membrane|synaptic vesicle	transporter activity			ovary(1)	1						CCTATAACCCCGACGACTATT	0.542													11	54					0	0	1	0	0		T	19194968	T	T	19194968	2	4	211	1	0	0	0	0	0	0	0	1	15498	639	23	1		1	SYT17	16	19194968	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	336135	19194968	71159785	1356	103235											
C16orf62	57020	broad.mit.edu	37	chr16	19580847	19580847	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gacccgctgagcagcgtcctCgatgggactgaccccctctc	6	7	11	17	3	1	2	0	2	1	0	4	5	2	3	4	1	2	2	4	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:19580847C>T	uc002dgn.1	+	3	231	c.219C>T	c.(217-219)CTC>CTT	p.L73L	C16orf62_uc002dgo.1_Silent_p.L73L|C16orf62_uc010vas.1_5'UTR|C16orf62_uc002dgm.1_Silent_p.L73L	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	73						integral to membrane				ovary(1)	1						GCAGCGTCCTCGATGGGACTG	0.602													17	39					0	0	1	0	0		T	19580847	T	T	19580847	2	4	211	1	0	0	0	0	0	0	0	1	1828	871	31	1		1	C16orf62	16	19580847	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	385879	19580847	70773906	1357	103236											
UMOD	7369	broad.mit.edu	37	chr16	20357561	20357561	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcactcaggtacatgaagaCcttgtcgaagcccagactct	11	9	9	12	1	3	3	2	1	1	2	4	4	3	3	2	1	2	1	2	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:20357561C>T	uc002dgz.2	-	5	1198	c.1069G>A	c.(1069-1071)GTC>ATC	p.V357I	UMOD_uc002dha.2_Missense_Mutation_p.V357I|UMOD_uc002dhb.2_Missense_Mutation_p.V390I	NM_003361	NP_003352	P07911	UROM_HUMAN	uromodulin precursor	357	ZP.				cellular defense response|negative regulation of cell proliferation	anchored to membrane|apical plasma membrane|basolateral plasma membrane|cilium membrane|extrinsic to membrane|primary cilium|spindle pole	calcium ion binding			ovary(1)|skin(1)	2						TACATGAAGACCTTGTCGAAG	0.587													15	57					0	0	1	0	0		T	20357561	T	T	20357561	3	4	211	1	0	0	0	0	1	0	0	0	17005	507	18	4	881	4	UMOD	16	20357561	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	776714	20357561	69997192	1358	103237											
DNAH3	55567	broad.mit.edu	37	chr16	21147818	21147818	+	Missense_Mutation	SNP	A	G	G	1	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	ctttgcgaattccattggtcAgatagtaatagtatctcttc	10	16	7	8	1	2	1	1	0	1	1	5	2	3	1	1	1	1	2	1	1	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:21147818A>G	uc010vbe.1	-	6	713	c.713T>C	c.(712-714)CTG>CCG	p.L238P	DNAH3_uc002die.2_Missense_Mutation_p.L209P	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	238	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			ovary(10)|skin(3)|large_intestine(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	18				GBM - Glioblastoma multiforme(48;0.207)		TCCATTGGTCAGATAGTAATA	0.473													33	69					0	0	1	0	0		G	21147818	G	G	21147818	3	3	211	1	0	0	0	0	1	0	0	0	4609	188	7	3	11864	3	DNAH3	16	21147818	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	790257	21147818	69206935	1359	103238											
METTL9	51108	broad.mit.edu	37	chr16	21623995	21623995	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaacagagagaaattatgCgaatcactccaggctgtctt	13	10	9	9	1	2	2	1	0	1	2	3	4	3	2	1	1	3	2	1	1	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:21623995C>T	uc002dje.2	+	2	394	c.195C>T	c.(193-195)TGC>TGT	p.C65C	uc002diq.3_Intron|METTL9_uc002djf.2_Silent_p.C65C	NM_016025	NP_057109	Q9H1A3	METL9_HUMAN	methyltransferase like 9 isoform 1	65										ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0759)		AGAAATTATGCGAATCACTCC	0.338													20	48					0	0	1	0	0		T	21623995	T	T	21623995	2	4	211	1	0	0	0	0	0	0	0	1	9526	776	27	1		1	METTL9	16	21623995	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	476177	21623995	68730758	1360	103239											
CDR2	1039	broad.mit.edu	37	chr16	22358598	22358598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accttcagggcgctgtactgCgtgtccacttcgtgcagaag	7	10	12	12	3	1	1	1	0	0	1	3	1	2	1	2	1	3	3	2	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:22358598C>T	uc002dkn.2	-	5	1361	c.1053G>A	c.(1051-1053)ACG>ACA	p.T351T		NM_001802	NP_001793	Q01850	CDR2_HUMAN	cerebellar degeneration-related protein 2	351	Potential.					nucleus	protein binding			skin(1)	1				GBM - Glioblastoma multiforme(48;0.0188)		CGCTGTACTGCGTGTCCACTT	0.577													28	56					0	0	1	0	0		T	22358598	T	T	22358598	2	4	211	1	0	0	0	0	0	0	0	1	3175	755	27	1		1	CDR2	16	22358598	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	734603	22358598	67996155	1361	103240											
USP31	57478	broad.mit.edu	37	chr16	23080440	23080440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagagctgtctacggagtCgctctgatccacataagcga	10	9	12	10	3	2	2	0	1	2	1	4	5	3	3	1	2	3	2	1	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:23080440C>T	uc002dll.2	-	16	2986	c.2986G>A	c.(2986-2988)GAC>AAC	p.D996N	USP31_uc002dlk.2_Missense_Mutation_p.D268N|USP31_uc010vca.1_Missense_Mutation_p.D299N|USP31_uc010bxm.2_Missense_Mutation_p.D284N	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	996	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		TCTACGGAGTCGCTCTGATCC	0.527													42	66					0	0	1	0	0		T	23080440	T	T	23080440	3	4	211	1	0	0	0	0	1	0	0	0	17088	884	31	1	1076	1	USP31	16	23080440	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	721842	23080440	67274313	1362	103241											
SCNN1B	6338	broad.mit.edu	37	chr16	23391462	23391462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccaagaatttaactatcGcaccattgaagaatcagcag	15	10	6	10	1	1	3	1	1	0	2	3	3	2	3	2	0	2	2	2	0	6	5	rs138784278		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:23391462G>A	uc002dln.2	+	12	1690	c.1514G>A	c.(1513-1515)CGC>CAC	p.R505H		NM_000336	NP_000327	P51168	SCNNB_HUMAN	sodium channel, nonvoltage-gated 1, beta	505	Extracellular (By similarity).				excretion|sensory perception of taste	apical plasma membrane	ligand-gated sodium channel activity|WW domain binding			ovary(3)|breast(2)|large_intestine(1)|pancreas(1)	7				GBM - Glioblastoma multiforme(48;0.0465)	Amiloride(DB00594)|Triamterene(DB00384)	TTTAACTATCGCACCATTGAA	0.527													25	56					0	0	1	0	0		A	23391462	A	A	23391462	3	1	211	1	0	0	0	0	1	0	0	0	13953	1087	38	1	1556	1	SCNN1B	16	23391462	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	311022	23391462	66963291	1363	103242											
PLK1	5347	broad.mit.edu	37	chr16	23700888	23700888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgccaacatcacgccgcGcgaaggtgatgagctcgccc	9	5	13	14	5	1	2	1	2	0	0	2	3	1	2	3	2	3	1	3	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:23700888G>A	uc002dlz.1	+	9	1552	c.1499G>A	c.(1498-1500)CGC>CAC	p.R500H		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	500	Linker.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		ATCACGCCGCGCGAAGGTGAT	0.577													9	48					0	0	1	0	0		A	23700888	A	A	23700888	3	1	211	1	0	0	0	0	1	0	0	0	12113	1087	38	1	1533	1	PLK1	16	23700888	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	309426	23700888	66653865	1364	103243											
SLC5A11	115584	broad.mit.edu	37	chr16	24920325	24920325	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cggtcctggtgaagagcattCactacctctacttctccatg	8	12	8	13	1	3	2	1	1	2	1	5	2	4	2	3	2	3	1	3	2	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:24920325C>T	uc002dmu.2	+	14	1790	c.1558C>T	c.(1558-1560)CAC>TAC	p.H520Y	SLC5A11_uc002dms.2_Missense_Mutation_p.H456Y|SLC5A11_uc010vcd.1_Missense_Mutation_p.H485Y|SLC5A11_uc002dmt.2_Missense_Mutation_p.H364Y|SLC5A11_uc010vce.1_Missense_Mutation_p.H450Y|SLC5A11_uc010bxt.2_Missense_Mutation_p.H456Y|SLC5A11_uc002dmv.2_Missense_Mutation_p.H143Y	NM_052944	NP_443176	Q8WWX8	SC5AB_HUMAN	solute carrier family 5 (sodium/glucose	520	Extracellular (Potential).				apoptosis|carbohydrate transport|sodium ion transport	integral to membrane|plasma membrane	polyol transmembrane transporter activity|symporter activity			ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0365)		GAAGAGCATTCACTACCTCTA	0.567													17	70					0	0	1	0	0		T	24920325	T	T	24920325	3	4	211	1	0	0	0	0	1	0	0	0	14688	826	29	4	1608	4	SLC5A11	16	24920325	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1219437	24920325	65434428	1365	103244											
IL21R	50615	broad.mit.edu	37	chr16	27448866	27448866	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcagcctccacaggtcGgcccacaatgccacgcatgc	8	6	9	18	2	0	0	0	0	0	0	3	0	2	0	5	2	4	2	5	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:27448866G>A	uc002doq.1	+	4	443	c.210G>A	c.(208-210)TCG>TCA	p.S70S	IL21R_uc002dor.1_Silent_p.S70S|IL21R_uc002dos.1_Silent_p.S70S	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	70	Extracellular (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						TCCACAGGTCGGCCCACAATG	0.567			T	BCL6	NHL								20	58					0	0	1	0	0		A	27448866	A	A	27448866	2	1	211	1	0	0	0	0	0	0	0	1	7687	1103	39	1		1	IL21R	16	27448866	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2528541	27448866	62905887	1366	103245											
GSG1L	146395	broad.mit.edu	37	chr16	27974491	27974491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcacctttctccgatgccGgggccaggtcaatgaagctg	8	9	11	13	2	3	1	2	1	1	0	4	2	3	1	4	3	2	1	4	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:27974491G>A	uc002doz.2	-	2	468	c.383C>T	c.(382-384)CCG>CTG	p.P128L	GSG1L_uc010bya.1_Missense_Mutation_p.P128L	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	128						integral to membrane				ovary(1)	1						CTCCGATGCCGGGGCCAGGTC	0.547													13	29					0	0	1	0	0		A	27974491	A	A	27974491	3	1	211	1	0	0	0	0	1	0	0	0	6837	1116	39	1	636	1	GSG1L	16	27974491	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	525625	27974491	62380262	1367	103246											
XPO6	23214	broad.mit.edu	37	chr16	28133060	28133060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgtacaattttatctgagatCcgtacagagtgactttgacc	11	14	8	8	1	1	4	0	3	1	2	2	5	2	4	2	0	2	2	2	0	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:28133060C>T	uc002dpa.1	-	14	2291	c.1790G>A	c.(1789-1791)GGA>GAA	p.G597E	XPO6_uc002dpb.1_Missense_Mutation_p.G583E|XPO6_uc010vcp.1_Missense_Mutation_p.G597E	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	597					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						TATCTGAGATCCGTACAGAGT	0.398													37	77					0	0	1	0	0		T	28133060	T	T	28133060	3	4	211	1	0	0	0	0	1	0	0	0	17474	855	30	4	1631	4	XPO6	16	28133060	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	158569	28133060	62221693	1368	103247											
CLN3	1201	broad.mit.edu	37	chr16	28488849	28488849	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgagtatcaggagagctgGcagaggaagtcatgcagagg	12	5	16	8	1	2	3	2	0	0	3	2	6	2	4	1	4	2	4	1	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:28488849G>A	uc002dpo.2	-	15	1628	c.1305C>T	c.(1303-1305)TGC>TGT	p.C435C	uc010vct.1_Intron|CLN3_uc002dpl.2_Silent_p.C357C|CLN3_uc010vcu.1_Silent_p.C335C|CLN3_uc002dpn.2_Silent_p.C336C|CLN3_uc002dpm.2_Silent_p.C381C|CLN3_uc010vcv.1_Silent_p.C411C|CLN3_uc010byd.2_Silent_p.C338C|CLN3_uc002dpp.2_Silent_p.C435C|CLN3_uc002dpt.1_Silent_p.C335C|CLN3_uc002dpq.1_Silent_p.C387C|CLN3_uc010bye.1_Silent_p.C418C|CLN3_uc002dpr.1_RNA|CLN3_uc010byf.1_RNA|CLN3_uc002dps.1_Silent_p.C308C|CLN3_uc002dpu.1_Silent_p.C333C	NM_000086	NP_000077	Q13286	CLN3_HUMAN	ceroid-lipofuscinosis, neuronal 3	435					amyloid precursor protein catabolic process|arginine transport|associative learning|autophagic vacuole fusion|cell death|cellular amino acid metabolic process|cytosolic calcium ion homeostasis|galactosylceramide metabolic process|globoside metabolic process|glucosylceramide metabolic process|ionotropic glutamate receptor signaling pathway|lysosomal lumen acidification|lysosomal lumen pH elevation|negative regulation of catalytic activity|negative regulation of macroautophagy|negative regulation of neuron apoptosis|negative regulation of proteolysis|neuromuscular process controlling balance|neurotransmitter metabolic process|protein catabolic process|protein folding|protein processing|receptor-mediated endocytosis|regulation of action potential|sphingomyelin metabolic process|vacuolar transport	autophagic vacuole|caveola|cytosol|early endosome|Golgi membrane|Golgi stack|integral to endoplasmic reticulum membrane|late endosome|lysosomal membrane|membrane fraction|mitochondrion|neuron projection|nucleus|synaptic vesicle|trans-Golgi network	unfolded protein binding				0						AGGAGAGCTGGCAGAGGAAGT	0.612													17	57					0	0	1	0	0		A	28488849	A	A	28488849	2	1	211	1	0	0	0	0	0	0	0	1	3546	1195	42	2		2	CLN3	16	28488849	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	355789	28488849	61865904	1369	103248											
ATP2A1	487	broad.mit.edu	37	chr16	28906196	28906196	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	accgagacagcactcaccacCctggtggagaagatgaatgt	13	6	11	11	1	1	4	1	1	0	3	1	6	1	4	3	2	1	1	3	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:28906196C>A	uc002dro.1	+	12	1525	c.1341C>A	c.(1339-1341)ACC>ACA	p.T447T	uc010vct.1_Intron|ATP2A1_uc002drn.1_Silent_p.T447T|ATP2A1_uc002drp.1_Silent_p.T322T	NM_173201	NP_775293	O14983	AT2A1_HUMAN	ATPase, Ca++ transporting, fast twitch 1 isoform	447	Cytoplasmic (By similarity).				apoptosis in response to endoplasmic reticulum stress|apoptotic mitochondrial changes|ATP biosynthetic process|calcium ion import|elevation of endoplasmic reticulum calcium ion concentration|elevation of mitochondrial calcium ion concentration|maintenance of mitochondrion location|negative regulation of striated muscle contraction|platelet activation|positive regulation of fast-twitch skeletal muscle fiber contraction|reduction of endoplasmic reticulum calcium ion concentration|relaxation of skeletal muscle|response to endoplasmic reticulum stress	endoplasmic reticulum membrane|ER-Golgi intermediate compartment|H zone|I band|microsome|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum|sarcoplasmic reticulum membrane	ATP binding|ATP binding|calcium ion binding|calcium ion binding|calcium-transporting ATPase activity|protein homodimerization activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CACTCACCACCCTGGTGGAGA	0.602													24	34					4.72057e-08	4.93389e-08	1	1	0		A	28906196	A	A	28906196	2	1	211	1	0	0	0	0	0	0	0	1	1137	610	22	5		5	ATP2A1	16	28906196	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	417347	28906196	61448557	1370	103249											
NFATC2IP	84901	broad.mit.edu	37	chr16	28975083	28975083	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggccatgggactgtcgggaCggaagctctccttcttcttt	6	12	12	11	2	3	0	0	0	3	0	5	3	3	3	2	4	1	1	2	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:28975083C>T	uc002dru.2	+	8	1174	c.1159C>T	c.(1159-1161)CGG>TGG	p.R387W	uc010vct.1_Intron|NFATC2IP_uc002drt.2_Missense_Mutation_p.R108W|NFATC2IP_uc002drv.2_Missense_Mutation_p.R106W|NFATC2IP_uc010vdh.1_Missense_Mutation_p.R95W	NM_032815	NP_116204	Q8NCF5	NF2IP_HUMAN	nuclear factor of activated T-cells,	387	Ubiquitin-like.					cytoplasm|nucleus				ovary(1)	1						ACTGTCGGGACGGAAGCTCTC	0.542													22	65					0	0	1	0	0		T	28975083	T	T	28975083	3	4	211	1	0	0	0	0	1	0	0	0	10382	527	19	1	1189	1	NFATC2IP	16	28975083	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	68887	28975083	61379670	1371	103250											
CORO1A	11151	broad.mit.edu	37	chr16	30196549	30196549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatgagccggcaggtggtcCgctccagcaagttccgccac	8	6	13	14	3	0	1	0	1	0	0	3	2	3	1	5	3	2	4	5	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:30196549C>T	uc002dww.2	+	2	141	c.19C>T	c.(19-21)CGC>TGC	p.R7C	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010vej.1_Missense_Mutation_p.R7C|CORO1A_uc010bzq.2_Missense_Mutation_p.R7C|CORO1A_uc010bzr.2_Missense_Mutation_p.R7C|CORO1A_uc002dwx.2_5'UTR|CORO1A_uc002dwy.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	7					cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						GCAGGTGGTCCGCTCCAGCAA	0.602													15	36					0	0	1	0	0		T	30196549	T	T	30196549	3	4	211	1	0	0	0	0	1	0	0	0	3756	652	23	1	21	1	CORO1A	16	30196549	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1221466	30196549	60158204	1372	103251											
ZNF48	197407	broad.mit.edu	37	chr16	30409115	30409115	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggtcccccaaagattcctCggtcccggatccctgctggt	6	9	11	15	2	0	1	0	0	0	1	5	2	4	2	5	4	1	1	5	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:30409115C>T	uc002dya.1	+	2	603	c.544C>T	c.(544-546)CGG>TGG	p.R182W	ZNF48_uc002dxz.1_Missense_Mutation_p.R59W	NM_152652	NP_689865	Q96MX3	ZNF48_HUMAN	zinc finger protein 48	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGATTCCTCGGTCCCGGAT	0.602													24	50					0	0	1	0	0		T	30409115	T	T	30409115	3	4	211	1	0	0	0	0	1	0	0	0	17959	875	31	1	550	1	ZNF48	16	30409115	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	212566	30409115	59945638	1373	103252											
ZNF785	146540	broad.mit.edu	37	chr16	30593992	30593992	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accacggcctgctgccacgcGcgcctctcgctgcaggagcg	5	5	13	18	6	1	0	0	0	1	0	2	1	1	1	4	2	4	3	4	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:30593992G>A	uc002dyw.1	-	3	1185	c.1107C>T	c.(1105-1107)CGC>CGT	p.R369R	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Silent_p.R354R|ZNF785_uc010vez.1_Silent_p.R334R	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	369					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GCTGCCACGCGCGCCTCTCGC	0.627													32	86					0	0	1	0	0		A	30593992	A	A	30593992	2	1	211	1	0	0	0	0	0	0	0	1	18182	1074	38	1		1	ZNF785	16	30593992	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	184877	30593992	59760761	1374	103253											
ZNF785	146540	broad.mit.edu	37	chr16	30596523	30596523	+	Missense_Mutation	SNP	A	G	G	1	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	cctccgggctccacgcctccActtctccttccacccacgag	5	8	6	22	3	1	0	0	0	1	0	6	1	5	0	8	1	0	1	8	1	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:30596523A>G	uc002dyw.1	-	2	332	c.254T>C	c.(253-255)GTG>GCG	p.V85A	ZNF785_uc002dyv.1_Missense_Mutation_p.V85A|ZNF785_uc010vez.1_Missense_Mutation_p.V50A	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	85	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCACGCCTCCACTTCTCCTTC	0.572													7	27					0	0	1	0	0		G	30596523	G	G	30596523	3	3	211	1	0	0	0	0	1	0	0	0	18182	159	6	3	971	3	ZNF785	16	30596523	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2531	30596523	59758230	1375	103254											
RNF40	9810	broad.mit.edu	37	chr16	30777709	30777709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgccccaggtggccctgCggagccttcctgaggaggta	5	7	14	15	1	0	1	0	1	0	0	1	3	1	3	6	5	3	1	6	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:30777709C>T	uc002dzq.2	+	10	1246	c.1123C>T	c.(1123-1125)CGG>TGG	p.R375W	RNF40_uc010caa.2_Missense_Mutation_p.R375W|RNF40_uc010cab.2_Intron|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Missense_Mutation_p.R375W|RNF40_uc010vfb.1_Intron|RNF40_uc010vfc.1_5'Flank	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	375	Potential.				histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)			GGTGGCCCTGCGGAGCCTTCC	0.612													24	107					0	0	1	0	0		T	30777709	T	T	30777709	3	4	211	1	0	0	0	0	1	0	0	0	13518	759	27	1	1157	1	RNF40	16	30777709	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	181186	30777709	59577044	1376	103255											
SETD1A	9739	broad.mit.edu	37	chr16	30975995	30975995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccaagatgccttttcccGccgccacttctctgcatctt	6	13	5	17	2	2	1	0	0	2	1	4	1	3	1	5	0	3	1	5	0	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:30975995G>A	uc002ead.1	+	7	1618	c.932G>A	c.(931-933)CGC>CAC	p.R311H		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	311	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)|skin(1)	3						GCCTTTTCCCGCCGCCACTTC	0.517													48	88					0	0	1	0	0		A	30975995	A	A	30975995	3	1	211	1	0	0	0	0	1	0	0	0	14155	1087	38	1	954	1	SETD1A	16	30975995	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	198286	30975995	59378758	1377	103256											
ZNF646	9726	broad.mit.edu	37	chr16	31087907	31087907	+	Missense_Mutation	SNP	A	G	G	1	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	gcaaggacttctccaatcccAtggctctcaagagccatatg	11	9	8	13	0	2	1	1	0	2	1	5	2	3	2	3	2	1	2	3	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:31087907A>G	uc002eap.2	+	2	551	c.262A>G	c.(262-264)ATG>GTG	p.M88V	ZNF668_uc002eao.2_5'Flank	NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	88	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CTCCAATCCCATGGCTCTCAA	0.637													17	49					0	0	1	0	0		G	31087907	G	G	31087907	3	3	211	1	0	0	0	0	1	0	0	0	18087	217	8	3	264	3	ZNF646	16	31087907	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	111912	31087907	59266846	1378	103257											
PRSS8	5652	broad.mit.edu	37	chr16	31146738	31146739	+	Frame_Shift_Ins	INS	-	C	C																															ccacgtcctcacttacctgtINSccccgaccggagtaatccaa																								rs8049043	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:31146738_31146739insC	uc002ebc.3	-	1	413_414	c.81_82insG	c.(79-84)GGGACAfs	p.G27fs	PRSS8_uc010vfe.1_Frame_Shift_Ins_p.G27fs	NM_002773	NP_002764	Q16651	PRSS8_HUMAN	prostasin preproprotein	27_28					proteolysis	extracellular space|integral to membrane|plasma membrane	serine-type endopeptidase activity				0						CACTTACCTGTCCCCGACCGGA	0.639													6	8	---	---	---	---						.	C	31146739	C	C	31146738	7	5	211	1	0	1	1	0	0	0	0	0	12657	1667	58	0	973	0	PRSS8	16	31146738	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	58831	31146738	59208015	1379	103258											
ZNF267	10308	broad.mit.edu	37	chr16	31927101	31927101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcttgccttactcaacatCggaaaattcatactggagaa	13	12	7	9	1	3	1	2	0	1	1	4	3	3	2	1	2	4	1	1	2	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:31927101C>T	uc002ecs.3	+	4	1740	c.1531C>T	c.(1531-1533)CGG>TGG	p.R511W		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	511	C2H2-type 7.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						TACTCAACATCGGAAAATTCA	0.343													11	39					0	0	1	0	0		T	31927101	T	T	31927101	3	4	211	1	0	0	0	0	1	0	0	0	17831	875	31	1	1545	1	ZNF267	16	31927101	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	780363	31927101	58427652	1380	103259											
ZNF423	23090	broad.mit.edu	37	chr16	49671250	49671250	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctccacatcggacgagactgGgctctgctcggccttggact	6	9	12	14	3	1	1	0	0	1	1	4	4	2	3	2	4	1	2	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:49671250G>T	uc002efs.2	-	5	2111	c.1813C>A	c.(1813-1815)CCA>ACA	p.P605T	ZNF423_uc010vgn.1_Missense_Mutation_p.P488T	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	605					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GACGAGACTGGGCTCTGCTCG	0.562													25	70					3.01185e-09	3.16796e-09	1	1	0		T	49671250	T	T	49671250	3	4	211	1	0	0	0	0	1	0	0	0	17923	1232	43	5	2061	5	ZNF423	16	49671250	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	17744149	49671250	40683503	1381	103260											
ZNF423	23090	broad.mit.edu	37	chr16	49764836	49764836	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgctgttcctgtcttccagCgcacggctggttttctgatc	4	14	10	13	3	2	1	0	1	2	0	5	1	4	1	2	2	1	5	2	2	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:49764836C>T	uc002efs.2	-	4	421	c.123G>A	c.(121-123)GCG>GCA	p.A41A		NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	41					cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				TGTCTTCCAGCGCACGGCTGG	0.512													65	196					0	0	1	0	0		T	49764836	T	T	49764836	2	4	211	1	0	0	0	0	0	0	0	1	17923	755	27	1		1	ZNF423	16	49764836	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	93586	49764836	40589917	1382	103261											
ADCY7	113	broad.mit.edu	37	chr16	50348306	50348306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactccttcaactccttccGcctccgcgtcggtgagcccg	4	9	9	19	5	1	1	1	1	0	0	6	1	5	1	6	1	2	1	6	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:50348306G>A	uc002egd.1	+	23	3228	c.2960G>A	c.(2959-2961)CGC>CAC	p.R987H		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	987	Cytoplasmic (Potential).|Guanylate cyclase 2.				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	AACTCCTTCCGCCTCCGCGTC	0.632													10	37					0	0	1	0	0		A	50348306	A	A	50348306	3	1	211	1	0	0	0	0	1	0	0	0	299	1087	38	1	3050	1	ADCY7	16	50348306	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	583470	50348306	40006447	1383	103262											
SALL1	6299	broad.mit.edu	37	chr16	51171055	51171055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatctccttgctgtcctccaCgaagcgggtgaagcggaagt	8	9	13	11	3	1	1	0	1	1	0	4	4	3	2	3	2	3	1	3	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:51171055C>T	uc010vgs.1	-	3	3974	c.3943G>A	c.(3943-3945)GTG>ATG	p.V1315M	SALL1_uc010vgr.1_Missense_Mutation_p.V1218M|SALL1_uc010cbv.2_Missense_Mutation_p.V167M	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1315					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CTGTCCTCCACGAAGCGGGTG	0.567													13	35					0	0	1	0	0		T	51171055	T	T	51171055	3	4	211	1	0	0	0	0	1	0	0	0	13835	536	19	1	35	1	SALL1	16	51171055	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	822749	51171055	39183698	1384	103263											
SALL1	6299	broad.mit.edu	37	chr16	51173598	51173598	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gataagctgtcttgggaggcGtctgcagacttaggtgtatc	8	12	14	7	1	2	1	0	0	2	1	3	3	2	2	0	3	2	3	0	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:51173598G>A	uc010vgs.1	-	2	2566	c.2535C>T	c.(2533-2535)GAC>GAT	p.D845D	SALL1_uc010vgr.1_Silent_p.D748D|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	845					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CTTGGGAGGCGTCTGCAGACT	0.483													46	100					0	0	1	0	0		A	51173598	A	A	51173598	2	1	211	1	0	0	0	0	0	0	0	1	13835	1136	40	1		1	SALL1	16	51173598	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2543	51173598	39181155	1385	103264											
AKTIP	64400	broad.mit.edu	37	chr16	53528485	53528485	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgaggtgggatcaactagCgggtgaaagacaggaatatc	13	7	14	7	1	1	3	1	2	0	1	2	5	1	5	1	4	2	0	1	4	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:53528485C>T	uc002ehk.2	-	6	658	c.447G>A	c.(445-447)CCG>CCA	p.P149P	AKTIP_uc002ehl.2_Silent_p.P149P|AKTIP_uc002ehm.2_Silent_p.P149P	NM_001012398	NP_001012398	Q9H8T0	AKTIP_HUMAN	AKT interacting protein	149					apoptosis|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|positive regulation of protein binding|positive regulation of protein phosphorylation|protein transport	FHF complex|plasma membrane	acid-amino acid ligase activity|protein binding				0		all_cancers(37;0.14)				GATCAACTAGCGGGTGAAAGA	0.413													9	30					0	0	1	0	0		T	53528485	T	T	53528485	2	4	211	1	0	0	0	0	0	0	0	1	482	755	27	1		1	AKTIP	16	53528485	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2354887	53528485	36826268	1386	103265											
LPCAT2	54947	broad.mit.edu	37	chr16	55584912	55584912	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgaatatgcatctattgcGagttcctcaaaaggaggaag	14	10	11	6	1	2	1	1	1	1	0	3	5	3	3	1	2	2	2	1	2	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:55584912G>A	uc002eie.3	+	11	1294	c.1113G>A	c.(1111-1113)GCG>GCA	p.A371A	LPCAT2_uc002eic.2_Silent_p.A101A	NM_017839	NP_060309	Q7L5N7	PCAT2_HUMAN	lysophosphatidylcholine acyltransferase 2	371	Lumenal (Potential).				cellular membrane organization|platelet activating factor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|Golgi stack|integral to membrane	1-acylglycerophosphocholine O-acyltransferase activity|1-alkylglycerophosphocholine O-acetyltransferase activity|calcium ion binding				0						CATCTATTGCGAGTTCCTCAA	0.348													24	44					0	0	1	0	0		A	55584912	A	A	55584912	2	1	211	1	0	0	0	0	0	0	0	1	8929	1045	37	1		1	LPCAT2	16	55584912	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2056427	55584912	34769841	1387	103266											
CES7	221223	broad.mit.edu	37	chr16	55907790	55907790	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaagttatcccagggcgatGcaggctgcgggttcgtaaat	9	9	14	9	3	0	0	0	0	0	0	2	1	1	0	1	3	2	6	1	3	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:55907790G>A	uc002eip.2	-	2	382	c.233C>T	c.(232-234)GCA>GTA	p.A78V	CES7_uc002eio.2_Missense_Mutation_p.A78V|CES7_uc002eiq.2_5'UTR|CES7_uc002eir.2_5'UTR	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	78						extracellular region	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.229)|Epithelial(162;0.231)		CCAGGGCGATGCAGGCTGCGG	0.592													7	15					0	0	1	0	0		A	55907790	A	A	55907790	3	1	211	1	0	0	0	0	1	0	0	0	3275	1319	46	2	1542	2	CES7	16	55907790	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	322878	55907790	34446963	1388	103267											
CCDC102A	92922	broad.mit.edu	37	chr16	57552039	57552039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtcgcagtccagtgcgctggCtgtttgccgccgccgccggg	2	8	16	15	6	0	0	0	0	0	0	2	0	1	0	5	2	2	4	5	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:57552039C>T	uc002elw.2	-	6	1402	c.1189G>A	c.(1189-1191)GCC>ACC	p.A397T		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	397										ovary(1)	1						AGTGCGCTGGCTGTTTGCCGC	0.677													43	121					0	0	1	0	0		T	57552039	T	T	57552039	3	4	211	1	0	0	0	0	1	0	0	0	2739	797	28	2	479	2	CCDC102A	16	57552039	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1644249	57552039	32802714	1389	103268											
CNGB1	1258	broad.mit.edu	37	chr16	57965635	57965635	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtaacctgtgtgtccccgagGctgagcttgggactataagg	8	10	14	9	1	0	1	0	1	0	0	1	3	1	2	3	3	2	3	3	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:57965635G>A	uc002emt.2	-	17	1585	c.1520C>T	c.(1519-1521)GCC>GTC	p.A507V	CNGB1_uc010cdh.2_Missense_Mutation_p.A501V	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform	507	Cytoplasmic (Potential).				sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						TGTCCCCGAGGCTGAGCTTGG	0.423													13	19					0	0	1	0	0		A	57965635	A	A	57965635	3	1	211	1	0	0	0	0	1	0	0	0	3603	1203	42	2	2303	2	CNGB1	16	57965635	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	413596	57965635	32389118	1390	103269											
PRSS54	221191	broad.mit.edu	37	chr16	58314489	58314489	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tttcccagtggtggagtgagGacaggggagggccggccctc	6	7	18	10	1	0	1	0	1	0	0	2	4	1	4	3	7	0	0	3	7	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:58314489G>A	uc002enf.2	-	7	1222	c.827C>T	c.(826-828)TCC>TTC	p.S276F	PRSS54_uc002eng.2_Missense_Mutation_p.S276F|PRSS54_uc010vie.1_Missense_Mutation_p.S177F|CCDC113_uc002ene.2_3'UTR|CCDC113_uc010vid.1_3'UTR	NM_001080492	NP_001073961	Q6PEW0	PRS54_HUMAN	plasma kallikrein-like protein 4 precursor	276					proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GTGGAGTGAGGACAGGGGAGG	0.522													18	30					0	0	1	0	0		A	58314489	A	A	58314489	3	1	211	1	0	0	0	0	1	0	0	0	12655	1174	41	4	364	4	PRSS54	16	58314489	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	348854	58314489	32040264	1391	103270											
CDH8	1006	broad.mit.edu	37	chr16	61689414	61689414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaatatggcaattaaggcGcccatactgagtccaattgg	12	10	10	9	1	0	1	0	1	0	0	1	1	1	1	2	3	1	2	2	3	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:61689414G>A	uc002eog.1	-	11	2118	c.1866C>T	c.(1864-1866)GGC>GGT	p.G622G		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	622	Helical; (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		CAATTAAGGCGCCCATACTGA	0.448													26	57					0	0	1	0	0		A	61689414	A	A	61689414	2	1	211	1	0	0	0	0	0	0	0	1	3119	1074	38	1		1	CDH8	16	61689414	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3374925	61689414	28665339	1392	103271											
DYNC1LI2	1783	broad.mit.edu	37	chr16	66783190	66783190	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccttgtagtttagtcatgaGggttgttttaccagaaccat	9	16	9	7	0	1	2	1	1	0	1	2	2	2	2	3	1	2	4	3	1	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:66783190G>T	uc002eqb.1	-	3	239	c.208C>A	c.(208-210)CTC>ATC	p.L70I	DYNC1LI2_uc010vis.1_Missense_Mutation_p.L70I|DYNC1LI2_uc010vit.1_Missense_Mutation_p.L70I|DYNC1LI2_uc010viu.1_Intron	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	70					transport	centrosome|cytoplasmic dynein complex|microtubule	ATP binding|motor activity			central_nervous_system(3)|skin(1)	4		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0907)|Epithelial(162;0.212)		TTAGTCATGAGGGTTGTTTTA	0.463													13	50					9.05144e-12	9.69604e-12	1	1	0		T	66783190	T	T	66783190	3	4	211	1	0	0	0	0	1	0	0	0	4851	1000	35	5	1314	5	DYNC1LI2	16	66783190	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5093776	66783190	23571563	1393	103272											
TRADD	8717	broad.mit.edu	37	chr16	67189037	67189039	+	In_Frame_Del	DEL	GGC	-	-																															acagaaaagtctgggcaggtGgcggcggcggcggcggcttc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:67189037_67189039delGGC	uc002eri.1	-	4	668_670	c.588_590delGCC	c.(586-591)CCGCCA>CCA	p.196_197PP>P	TRADD_uc002erh.1_In_Frame_Del_p.136_137PP>P	NM_003789	NP_003780	Q15628	TRADD_HUMAN	TNFRSF1A-associated via death domain	196_197	Poly-Pro.|Death.				activation of caspase activity|activation of pro-apoptotic gene products|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|tumor necrosis factor-mediated signaling pathway	cytoskeleton|cytosol|receptor complex	binding, bridging|death domain binding|identical protein binding|kinase binding|signal transducer activity			lung(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		CTGGGCAGGTGGCGGCGGCGGCG	0.724													3	4	---	---	---	---						.	-	67189039	-	-	67189037	7	5	211	1	0	1	0	1	0	0	0	0	16462	1348	47	0	356	0	TRADD	16	67189037	In_Frame_Del	DEL	GGC	TCGA-HU-A4GQ-01A-11D-A25D-08	405847	67189037	23165716	1394	103273											
HSF4	3299	broad.mit.edu	37	chr16	67200492	67200492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctctttgggccacttcaggCggggccgagcaatgcaggag	7	8	15	11	2	2	0	1	0	1	0	3	2	2	1	2	5	2	2	2	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:67200492C>T	uc002erl.1	+	8	1558	c.593C>T	c.(592-594)GCG>GTG	p.A198V	HSF4_uc002erm.1_Missense_Mutation_p.A198V|HSF4_uc002ern.1_RNA|HSF4_uc010cec.1_RNA	NM_001040667	NP_001035757	Q9ULV5	HSF4_HUMAN	heat shock transcription factor 4 isoform b	198	Hydrophobic repeat HR-A/B.				response to stress	nucleus	sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.0335)|all cancers(182;0.184)		CCACTTCAGGCGGGGCCGAGC	0.562													12	56					0	0	1	0	0		T	67200492	T	T	67200492	3	4	211	1	0	0	0	0	1	0	0	0	7414	768	27	1	615	1	HSF4	16	67200492	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	11455	67200492	23154261	1395	103274											
ZDHHC1	29800	broad.mit.edu	37	chr16	67428950	67428950	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcgcactttatacacgcGcctcttcctctttttctgca	5	16	5	15	4	3	0	0	0	3	0	5	0	4	0	2	0	2	3	2	0	2	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:67428950G>A	uc010vjm.1	-	10	1489	c.1185C>T	c.(1183-1185)GGC>GGT	p.G395G	TPPP3_uc002eta.2_5'Flank|TPPP3_uc002etb.2_5'Flank	NM_013304	NP_037436	Q8WTX9	ZDHC1_HUMAN	zinc finger, DHHC-type containing 1	395						integral to membrane	DNA binding|zinc ion binding				0		Ovarian(137;0.223)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0178)|all cancers(182;5.71e-53)|Epithelial(162;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(108;1.53e-29)|Kidney(780;4.37e-05)|BRCA - Breast invasive adenocarcinoma(181;5.8e-05)|GBM - Glioblastoma multiforme(240;0.0022)		TTATACACGCGCCTCTTCCTC	0.622													10	28					0	0	1	0	0		A	67428950	A	A	67428950	2	1	211	1	0	0	0	0	0	0	0	1	17625	1074	38	1		1	ZDHHC1	16	67428950	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	228458	67428950	22925803	1396	103275											
RLTPR	146206	broad.mit.edu	37	chr16	67679931	67679931	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctttctaggtggactgcaCgttcagctacctggaggtcc	6	11	11	13	1	2	0	1	0	1	0	3	2	3	2	3	4	3	3	3	4	2	4	rs145651592	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:67679931C>T	uc002etn.2	+	4	317	c.197C>T	c.(196-198)ACG>ATG	p.T66M	RLTPR_uc010cel.1_Missense_Mutation_p.T66M|RLTPR_uc010vjr.1_Missense_Mutation_p.T66M	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	66	LRR 1.									breast(1)	1		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)		GTGGACTGCACGTTCAGCTAC	0.627													27	71					0	0	1	0	0		T	67679931	T	T	67679931	3	4	211	1	0	0	0	0	1	0	0	0	13419	536	19	1	211	1	RLTPR	16	67679931	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	250981	67679931	22674822	1397	103276											
C16orf48	84080	broad.mit.edu	37	chr16	67697911	67697911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggaggccagggccgcagcGggagtgcgcccgcaggaagt	7	3	20	11	4	0	0	0	0	0	0	0	3	0	3	3	5	2	2	3	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:67697911G>A	uc002etw.1	-	4	791	c.508C>T	c.(508-510)CGC>TGC	p.R170C	C16orf48_uc002etv.1_Missense_Mutation_p.R52C|C16orf48_uc010cem.1_Missense_Mutation_p.R170C|C16orf86_uc002etx.1_5'Flank|C16orf86_uc002ety.2_5'Flank|C16orf86_uc002etz.2_5'Flank	NM_032140	NP_115516	Q9H0I2	CP048_HUMAN	hypothetical protein LOC84080	170						microtubule cytoskeleton	protein binding				0		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0143)|Epithelial(162;0.047)|all cancers(182;0.228)		GGGCCGCAGCGGGAGTGCGCC	0.662													5	7					0	0	1	0	0		A	67697911	A	A	67697911	3	1	211	1	0	0	0	0	1	0	0	0	1819	1116	39	1	548	1	C16orf48	16	67697911	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	17980	67697911	22656842	1398	103277											
CENPT	80152	broad.mit.edu	37	chr16	67865769	67865769	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccagggttgtggggggctcGagctcaggaagttgcagctc	6	8	18	9	1	1	0	1	0	0	0	3	2	1	1	1	5	3	6	1	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:67865769G>A	uc002eun.3	-	8	960	c.411C>T	c.(409-411)CTC>CTT	p.L137L	CENPT_uc002eum.3_Silent_p.L137L|CENPT_uc010vkc.1_5'UTR|CENPT_uc010vkd.1_Intron|CENPT_uc010vke.1_Silent_p.L34L	NM_025082	NP_079358	Q96BT3	CENPT_HUMAN	centromere protein T	137					mitotic prometaphase	condensed chromosome kinetochore|cytosol|nucleus	DNA binding				0		Acute lymphoblastic leukemia(13;0.000299)|all_hematologic(13;0.0184)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00429)|Epithelial(162;0.019)|all cancers(182;0.124)		TGGGGGGCTCGAGCTCAGGAA	0.577													6	9					0	0	1	0	0		A	67865769	A	A	67865769	2	1	211	1	0	0	0	0	0	0	0	1	3245	1045	37	1		1	CENPT	16	67865769	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	167858	67865769	22488984	1399	103278											
DDX28	55794	broad.mit.edu	37	chr16	68055915	68055915	+	Silent	SNP	T	C	C	0	1	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	cagaacaccagaacagttccTgagggaccagtcctttctgc	11	8	9	13	0	1	3	0	1	1	2	3	4	3	4	4	1	3	1	4	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:68055915T>C	uc002evh.1	-	1	2045	c.1191A>G	c.(1189-1191)TCA>TCG	p.S397S	DUS2L_uc002evi.2_5'Flank|DUS2L_uc002evj.2_5'Flank|DUS2L_uc010vkk.1_5'Flank	NM_018380	NP_060850	Q9NUL7	DDX28_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 28	397	Helicase C-terminal.					mitochondrial nucleoid|nucleus	ATP binding|ATP-dependent helicase activity|RNA binding			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0116)|Epithelial(162;0.0474)|all cancers(182;0.233)		GAACAGTTCCTGAGGGACCAG	0.493													28	76					0	0	1	0	0		C	68055915	C	C	68055915	2	2	211	1	0	0	0	0	0	0	0	1	4358	1567	55	3		3	DDX28	16	68055915	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	190146	68055915	22298838	1400	103279											
ESRP2	80004	broad.mit.edu	37	chr16	68266193	68266193	+	Splice_Site	SNP	T	C	C	0	1	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	cccctgtcgctttatacaccTgtgggtacagagagcagcag	9	9	11	12	1	0	1	0	0	0	1	1	2	0	1	3	1	4	4	3	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:68266193T>C	uc010cfa.1	-	9	1173	c.985_splice	c.e9-1	p.V329_splice	ESRP2_uc002evp.1_Splice_Site|ESRP2_uc002evq.1_Splice_Site_p.V319_splice	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B						mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						TTTATACACCTGTGGGTACAG	0.567													23	68					0	0	1	0	0		C	68266193	C	C	68266193	5	2	211	1	0	0	0	0	0	0	1	0	5267	1594	55	3	1228	3	ESRP2	16	68266193	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	210278	68266193	22088560	1401	103280											
HAS3	3038	broad.mit.edu	37	chr16	69143820	69143820	+	Silent	SNP	G	A	A	0	0	1	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	caggagggcatggaccgtgtGcgggatgtggtgcgggccag	6	6	21	8	3	0	0	0	0	0	0	0	3	0	3	2	6	2	1	2	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:69143820G>A	uc010cfh.2	+	2	746	c.522G>A	c.(520-522)GTG>GTA	p.V174V	HAS3_uc002ewk.2_Silent_p.V174V|HAS3_uc010vlk.1_Silent_p.V174V|HAS3_uc002ewl.2_Silent_p.V174V	NM_005329	NP_005320	O00219	HAS3_HUMAN	hyaluronan synthase 3 isoform a	174	Cytoplasmic (Potential).				carbohydrate metabolic process	integral to plasma membrane	hyaluronan synthase activity				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.0694)		TGGACCGTGTGCGGGATGTGG	0.657													22	45					0	0	1	0	0		A	69143820	A	A	69143820	2	1	211	1	0	0	0	0	0	0	0	1	6979	1306	46	2		2	HAS3	16	69143820	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	877627	69143820	21210933	1402	103281											
COG8	84342	broad.mit.edu	37	chr16	69373130	69373130	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcaggcggccgagcgacGcctccacgtcgccaaacagg	9	2	14	16	7	0	0	0	0	0	0	2	3	1	0	4	3	3	1	4	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:69373130G>T	uc002ewy.2	-	1	397	c.326C>A	c.(325-327)GCG>GAG	p.A109E	COG8_uc002ewz.3_Missense_Mutation_p.A109E|NIP7_uc002exa.2_5'Flank|NIP7_uc002exb.2_5'Flank	NM_032382	NP_115758	Q96MW5	COG8_HUMAN	component of oligomeric golgi complex 8	109					protein transport	Golgi membrane|Golgi transport complex				ovary(1)	1						GCCGAGCGACGCCTCCACGTC	0.627													19	44					1.33834e-09	1.41185e-09	1	1	0		T	69373130	T	T	69373130	3	4	211	1	0	0	0	0	1	0	0	0	3667	1087	38	5	1532	5	COG8	16	69373130	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	229310	69373130	20981623	1403	103282											
TERF2	7014	broad.mit.edu	37	chr16	69401095	69401095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatggtggttggaggattccGtagctgcctgcaaatcaagc	10	10	13	8	1	1	0	1	0	0	0	2	2	2	2	2	4	4	4	2	4	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:69401095G>A	uc002exd.2	-	7	954	c.829C>T	c.(829-831)CGG>TGG	p.R277W		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	277					age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				GGAGGATTCCGTAGCTGCCTG	0.443													14	37					0	0	1	0	0		A	69401095	A	A	69401095	3	1	211	1	0	0	0	0	1	0	0	0	15787	1144	40	1	689	1	TERF2	16	69401095	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	27965	69401095	20953658	1404	103283											
COG4	25839	broad.mit.edu	37	chr16	70514956	70514956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttcactgcggaagtctatcCgcagggccagcacctggcgc	7	7	12	15	3	2	0	1	0	1	0	3	1	3	1	3	3	2	2	3	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:70514956C>T	uc002ezc.2	-	19	2338	c.2327G>A	c.(2326-2328)CGG>CAG	p.R776Q	COG4_uc002eza.2_Missense_Mutation_p.R113Q|COG4_uc002ezb.2_Missense_Mutation_p.R232Q|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Missense_Mutation_p.R755Q|COG4_uc002eze.2_Missense_Mutation_p.R470Q	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	772	E domain; essential for proper cell surface glycosylation.				Golgi organization|Golgi vesicle prefusion complex stabilization|protein transport|retrograde vesicle-mediated transport, Golgi to ER	Golgi membrane|Golgi transport complex	protein binding				0		Ovarian(137;0.0694)				GAAGTCTATCCGCAGGGCCAG	0.612													26	63					0	0	1	0	0		T	70514956	T	T	70514956	3	4	211	1	0	0	0	0	1	0	0	0	3663	652	23	1	46	1	COG4	16	70514956	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1113861	70514956	19839797	1405	103284											
CHST4	10164	broad.mit.edu	37	chr16	71571193	71571193	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatatcgtgcacctggtcCgggacccccgggccgtgttc	4	9	13	15	4	0	0	0	0	0	0	3	1	1	1	5	3	2	3	5	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:71571193C>T	uc002fan.2	+	2	794	c.613C>T	c.(613-615)CGG>TGG	p.R205W	CHST4_uc002fao.2_Missense_Mutation_p.R205W	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	205	Lumenal (Potential).|PAPS (By similarity).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCACCTGGTCCGGGACCCCCG	0.577													10	45					0	0	1	0	0		T	71571193	T	T	71571193	3	4	211	1	0	0	0	0	1	0	0	0	3409	643	23	1	615	1	CHST4	16	71571193	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1056237	71571193	18783560	1406	103285											
ZNF821	55565	broad.mit.edu	37	chr16	71894324	71894324	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgccggctcttcttggccGtgcgctctcgttccagccgc	1	10	11	19	6	3	0	0	0	3	0	5	0	4	0	5	2	2	3	5	2	0	3	rs149068810	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:71894324G>A	uc010vmj.1	-	7	1212	c.836C>T	c.(835-837)ACG>ATG	p.T279M	ATXN1L_uc010vmi.1_Intron|ZNF821_uc002fbe.2_Missense_Mutation_p.T129M|ZNF821_uc002fbf.2_Missense_Mutation_p.T237M|ZNF821_uc002fbg.3_Missense_Mutation_p.T129M|ZNF821_uc002fbh.3_Missense_Mutation_p.T237M|ZNF821_uc002fbi.3_Missense_Mutation_p.T76M	NM_017530	NP_060000	O75541	ZN821_HUMAN	zinc finger protein 821	279	Potential.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTCTTGGCCGTGCGCTCTCG	0.622													4	67					0	0	1	0	0		A	71894324	A	A	71894324	3	1	211	1	0	0	0	0	1	0	0	0	18203	1145	40	1	406	1	ZNF821	16	71894324	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	323131	71894324	18460429	1407	103286											
ZFHX3	463	broad.mit.edu	37	chr16	72821567	72821567	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttcctccccacagagcgcGctctcgcacgccaggcagtg	6	6	11	18	4	1	1	0	0	1	1	4	1	3	1	4	1	1	4	4	1	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:72821567G>A	uc002fck.2	-	10	11281	c.10608C>T	c.(10606-10608)AGC>AGT	p.S3536S	uc002fcj.1_RNA|ZFHX3_uc002fcl.2_Silent_p.S2622S	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3536	C2H2-type 22.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CACAGAGCGCGCTCTCGCACG	0.393													57	99					0	0	1	0	0		A	72821567	A	A	72821567	2	1	211	1	0	0	0	0	0	0	0	1	17659	1078	38	1		1	ZFHX3	16	72821567	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	927243	72821567	17533186	1408	103287											
ZFHX3	463	broad.mit.edu	37	chr16	72822036	72822036	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctgctgctgtagttgccgcTgctgctgctgctgaattgcc	3	13	13	12	1	0	1	0	1	0	0	0	1	0	1	2	0	8	10	2	0	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:72822036T>C	uc002fck.2	-	10	10812	c.10139A>G	c.(10138-10140)CAG>CGG	p.Q3380R	ZFHX3_uc002fcl.2_Missense_Mutation_p.Q2466R	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3380	Poly-Gln.		Missing.		muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				tagttgccgctgctgctgctg	0.433													8	32					0	0	1	0	0		C	72822036	C	C	72822036	3	2	211	1	0	0	0	0	1	0	0	0	17659	1580	55	3	976	3	ZFHX3	16	72822036	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	469	72822036	17532717	1409	103288											
ZFHX3	463	broad.mit.edu	37	chr16	72827364	72827364	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgagccatcaactgacGtacggtggctgggtcaaagt	9	11	13	8	2	2	2	2	2	0	0	2	2	2	2	1	3	3	3	1	3	3	3	rs149453115		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:72827364G>A	uc002fck.2	-	9	9890	c.9217C>T	c.(9217-9219)CGT>TGT	p.R3073C	ZFHX3_uc002fcl.2_Missense_Mutation_p.R2159C	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3073					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				ATCAACTGACGTACGGTGGCT	0.488													37	121					0	0	1	0	0		A	72827364	A	A	72827364	3	1	211	1	0	0	0	0	1	0	0	0	17659	1145	40	1	1902	1	ZFHX3	16	72827364	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5328	72827364	17527389	1410	103289											
CLEC18B	497190	broad.mit.edu	37	chr16	74444925	74444925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgatctgggccagcaccccgCctttcctctgtaaccccacc	6	9	7	19	1	2	1	0	1	2	0	3	1	3	1	8	1	2	2	8	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:74444925C>T	uc002fct.2	-	9	1192	c.992G>A	c.(991-993)GGC>GAC	p.G331D	CLEC18B_uc002fcu.2_Missense_Mutation_p.G331D|CLEC18B_uc010vmu.1_3'UTR	NM_001011880	NP_001011880	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B	331	C-type lectin.					extracellular region	sugar binding				0						CAGCACCCCGCCTTTCCTCTG	0.612													12	74					0	0	1	0	0		T	74444925	T	T	74444925	3	4	211	1	0	0	0	0	1	0	0	0	3506	739	26	2	395	2	CLEC18B	16	74444925	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1617561	74444925	15909828	1411	103290											
FA2H	79152	broad.mit.edu	37	chr16	74760135	74760135	+	Missense_Mutation	SNP	A	G	G	1	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	ggcattacctgttgtaaatgAcgtgaagagtcggacgttgc	10	11	13	7	3	0	3	0	2	0	1	1	4	0	4	1	2	2	4	1	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:74760135A>G	uc002fde.1	-	4	669	c.601T>C	c.(601-603)TCA>CCA	p.S201P	FA2H_uc010vmy.1_Intron	NM_024306	NP_077282	Q7L5A8	FA2H_HUMAN	fatty acid 2-hydroxylase	201					cell death|electron transport chain|fatty acid biosynthetic process|sphingolipid metabolic process|transport	endoplasmic reticulum membrane|integral to membrane|microsome	heme binding|oxidoreductase activity				0						GTTGTAAATGACGTGAAGAGT	0.547													10	22					0	0	1	0	0		G	74760135	G	G	74760135	3	3	211	1	0	0	0	0	1	0	0	0	5363	275	10	3	533	3	FA2H	16	74760135	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	315210	74760135	15594618	1412	103291											
BCAR1	9564	broad.mit.edu	37	chr16	75269703	75269703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaggtcaggagccgggggcGgcacgtcatacacgtcctcg	8	5	16	12	5	2	1	2	0	0	1	4	2	3	2	2	5	2	1	2	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:75269703G>A	uc002fdv.2	-	5	1217	c.1094C>T	c.(1093-1095)CCG>CTG	p.P365L	BCAR1_uc002fdt.2_5'UTR|BCAR1_uc002fdu.2_Missense_Mutation_p.P155L|BCAR1_uc010cgu.2_Missense_Mutation_p.P354L|BCAR1_uc010vna.1_Missense_Mutation_p.P363L|BCAR1_uc010vnb.1_Missense_Mutation_p.P411L|BCAR1_uc002fdw.2_Missense_Mutation_p.P365L|BCAR1_uc010vnc.1_Missense_Mutation_p.P217L|BCAR1_uc010vnd.1_Missense_Mutation_p.P383L|BCAR1_uc002fdx.2_Missense_Mutation_p.P383L	NM_014567	NP_055382	P56945	BCAR1_HUMAN	breast cancer anti-estrogen resistance 1	365	Substrate for kinases (By similarity).				actin filament organization|B cell receptor signaling pathway|blood coagulation|cell adhesion|cell division|cell migration|cell proliferation|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|integrin-mediated signaling pathway|nerve growth factor receptor signaling pathway|platelet-derived growth factor receptor signaling pathway|positive regulation of cell migration|regulation of apoptosis|regulation of cell growth|T cell receptor signaling pathway	cytosol|focal adhesion|membrane fraction|ruffle	protein kinase binding|protein phosphatase binding|SH3 domain binding|signal transducer activity			central_nervous_system(5)|breast(2)|prostate(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.169)		AGCCGGGGGCGGCACGTCATA	0.716													4	10					0	0	1	0	0		A	75269703	A	A	75269703	3	1	211	1	0	0	0	0	1	0	0	0	1349	1116	39	1	1530	1	BCAR1	16	75269703	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	509568	75269703	15085050	1413	103292											
CHST6	4166	broad.mit.edu	37	chr16	75513514	75513514	+	Silent	SNP	C	T	T	0	0	0	1	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	gtccacacgtgccacgcgggCtccattaggtagaagacgtc	9	7	12	13	4	0	2	0	0	0	2	3	2	2	2	3	2	1	2	3	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:75513514C>T	uc002fef.2	-	3	393	c.213G>A	c.(211-213)GAG>GAA	p.E71E	CHST6_uc002feg.1_RNA|CHST6_uc002feh.1_Silent_p.E71E	NM_021615	NP_067628	Q9GZX3	CHST6_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	71	Lumenal (Potential).				keratan sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	N-acetylglucosamine 6-O-sulfotransferase activity				0						GCCACGCGGGCTCCATTAGGT	0.667													11	24					0	0	1	0	0		T	75513514	T	T	75513514	2	4	211	1	0	0	0	0	0	0	0	1	3411	796	28	2		2	CHST6	16	75513514	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	243811	75513514	14841239	1414	103293											
CNTNAP4	85445	broad.mit.edu	37	chr16	76573711	76573711	+	Missense_Mutation	SNP	A	G	G	1	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	ctgatggacaacttcaccacAtaatgattaacagagaagaa	18	8	7	8	0	1	4	1	2	0	2	1	6	1	5	1	1	2	0	1	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:76573711A>G	uc002feu.1	+	22	3701	c.3316A>G	c.(3316-3318)ATA>GTA	p.I1106V	CNTNAP4_uc002fev.1_Missense_Mutation_p.I970V|CNTNAP4_uc010chb.1_Missense_Mutation_p.I1033V|CNTNAP4_uc002fex.1_Missense_Mutation_p.I1109V	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	1106	Extracellular (Potential).|Laminin G-like 4.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						ACTTCACCACATAATGATTAA	0.348													21	45					0	0	1	0	0		G	76573711	G	G	76573711	3	3	211	1	0	0	0	0	1	0	0	0	3652	217	8	3	3407	3	CNTNAP4	16	76573711	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1060197	76573711	13781042	1415	103294											
ATMIN	23300	broad.mit.edu	37	chr16	81078356	81078356	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctccactgctaaaaatatAcctgctctagaaagcaaagt	15	10	6	10	0	2	1	0	0	2	1	3	1	2	1	2	0	4	3	2	0	8	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:81078356A>G	uc002ffz.1	+	4	2271	c.2253A>G	c.(2251-2253)ATA>ATG	p.I751M	ATMIN_uc002fga.2_Missense_Mutation_p.I593M|ATMIN_uc010vnn.1_Missense_Mutation_p.I522M|ATMIN_uc002fgb.1_Missense_Mutation_p.I593M	NM_015251	NP_056066	O43313	ATMIN_HUMAN	ATM interactor	751					response to DNA damage stimulus	nucleus	zinc ion binding				0						CTAAAAATATACCTGCTCTAG	0.448													7	63					0	0	1	0	0		G	81078356	G	G	81078356	3	3	211	1	0	0	0	0	1	0	0	0	1111	381	14	3	2267	3	ATMIN	16	81078356	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4504645	81078356	9276397	1416	103295											
CMIP	80790	broad.mit.edu	37	chr16	81712200	81712200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcccccaggccgaccgcaCgctcggctgctacgtggaaa	7	4	14	16	5	0	0	0	0	0	0	1	2	0	1	4	4	2	4	4	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:81712200C>T	uc002fgp.2	+	10	1427	c.1355C>T	c.(1354-1356)ACG>ATG	p.T452M	CMIP_uc002fgq.1_Missense_Mutation_p.T358M|CMIP_uc010vnq.1_Missense_Mutation_p.T265M|CMIP_uc002fgr.1_Missense_Mutation_p.T299M	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	418						cytoplasm|nucleus					0						GCCGACCGCACGCTCGGCTGC	0.547													7	10					0	0	1	0	0		T	81712200	T	T	81712200	3	4	211	1	0	0	0	0	1	0	0	0	3581	536	19	1	1415	1	CMIP	16	81712200	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	633844	81712200	8642553	1417	103296											
KCNG4	93107	broad.mit.edu	37	chr16	84256290	84256290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactcacgtgtgcaacggcGcacggtgagccccagcgtct	8	6	13	14	5	2	1	1	1	1	0	2	2	2	1	2	2	5	2	2	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:84256290G>A	uc010voc.1	-	3	1214	c.1093C>T	c.(1093-1095)CGC>TGC	p.R365C		NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	365	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						GTGCAACGGCGCACGGTGAGC	0.677													7	21					0	0	1	0	0		A	84256290	A	A	84256290	3	1	211	1	0	0	0	0	1	0	0	0	8046	1087	38	1	468	1	KCNG4	16	84256290	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2544090	84256290	6098463	1418	103297											
FOXF1	2294	broad.mit.edu	37	chr16	86544707	86544707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttccagggctcggccggcGgcctctcgtgcccgcccaac	3	6	13	19	5	1	0	0	0	1	0	4	0	2	0	5	4	2	2	5	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:86544707G>A	uc002fjl.2	+	1	575	c.532G>A	c.(532-534)GGC>AGC	p.G178S	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	178					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding				0						CTCGGCCGGCGGCCTCTCGTG	0.682													13	26					0	0	1	0	0		A	86544707	A	A	86544707	3	1	211	1	0	0	0	0	1	0	0	0	6019	1116	39	1	534	1	FOXF1	16	86544707	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2288417	86544707	3810046	1419	103298											
FBXO31	79791	broad.mit.edu	37	chr16	87364948	87364948	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcatcgaaggcctgtggggaCggcgcatctgcgttccggaa	7	8	15	11	5	2	0	1	0	1	0	4	3	3	2	2	5	1	2	2	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:87364948C>T	uc002fjw.2	-	9	1610	c.1566G>A	c.(1564-1566)CCG>CCA	p.P522P	FBXO31_uc010vot.1_Silent_p.P350P|FBXO31_uc002fjv.2_Silent_p.P414P	NM_024735	NP_079011	Q5XUX0	FBX31_HUMAN	F-box protein 31	522					cell cycle|cyclin catabolic process|mitotic cell cycle G1/S transition DNA damage checkpoint|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	SCF ubiquitin ligase complex	cyclin binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0272)		CCTGTGGGGACGGCGCATCTG	0.622													14	67					0	0	1	0	0		T	87364948	T	T	87364948	2	4	211	1	0	0	0	0	0	0	0	1	5755	523	19	1		1	FBXO31	16	87364948	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	820241	87364948	2989805	1420	103299											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445990	87445990	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaatcagcaggaacagatgaCgacagcagcagtttgatggg	14	6	14	7	1	1	3	1	2	0	1	1	6	1	4	0	2	4	4	0	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:87445990C>T	uc002fjz.1	-	12	1953	c.1926G>A	c.(1924-1926)TCG>TCA	p.S642S	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Silent_p.S418S	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	642					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GAACAGATGACGACAGCAGCA	0.592													52	133					0	0	1	0	0		T	87445990	T	T	87445990	2	4	211	1	0	0	0	0	0	0	0	1	17608	523	19	1		1	ZCCHC14	16	87445990	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	81042	87445990	2908763	1421	103300											
ANKRD11	29123	broad.mit.edu	37	chr16	89346157	89346158	+	Frame_Shift_Ins	INS	-	G	G																															ggggcacagagggacgcggcINSgggggggccttcagcctcag																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:89346157_89346158insG	uc002fmx.1	-	9	7253_7254	c.6792_6793insC	c.(6790-6795)CCCGCCfs	p.P2264fs	ANKRD11_uc002fmy.1_Frame_Shift_Ins_p.P2264fs|ANKRD11_uc002fnc.1_Frame_Shift_Ins_p.P2264fs|ANKRD11_uc002fna.1_5'Flank|ANKRD11_uc002fnb.1_Frame_Shift_Ins_p.P2221fs	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	2264_2265	Pro-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		AGGGACGCGGCGGGGGGGCCTT	0.748													2	4	---	---	---	---						.	G	89346158	G	G	89346157	7	5	211	1	0	1	1	0	0	0	0	0	639	768	27	0	1218	0	ANKRD11	16	89346157	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	1900167	89346157	1008596	1422	103301											
ANKRD11	29123	broad.mit.edu	37	chr16	89354947	89354947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgccaaccttgtagtgccCgttgttggcagcgtcgtgca	6	11	13	11	3	0	0	0	0	0	0	1	1	0	0	3	1	5	5	3	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:89354947C>T	uc002fmx.1	-	7	1194	c.733G>A	c.(733-735)GGG>AGG	p.G245R	ANKRD11_uc002fmy.1_Missense_Mutation_p.G245R|ANKRD11_uc002fnc.1_Missense_Mutation_p.G245R|ANKRD11_uc002fnd.2_Missense_Mutation_p.G211R|ANKRD11_uc002fne.2_Missense_Mutation_p.G211R|ANKRD11_uc002fnb.1_Missense_Mutation_p.G202R	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	245	ANK 3.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		TTGTAGTGCCCGTTGTTGGCA	0.602													21	25					0	0	1	0	0		T	89354947	T	T	89354947	3	4	211	1	0	0	0	0	1	0	0	0	639	652	23	1	7286	1	ANKRD11	16	89354947	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8790	89354947	999806	1423	103302											
SPIRE2	84501	broad.mit.edu	37	chr16	89916879	89916879	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagggctacgggggtccCgaggaggaggaggaggccga	9	3	22	7	3	0	1	0	1	0	0	1	8	1	5	2	8	1	1	2	8	1	1	rs146569219	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr16:89916879C>T	uc002foz.1	+	3	508	c.456C>T	c.(454-456)CCC>CCT	p.P152P	SPIRE2_uc010civ.1_Silent_p.P67P|SPIRE2_uc010ciw.1_Silent_p.P152P|SPIRE2_uc002fpa.1_Silent_p.P104P|SPIRE2_uc010cix.1_Silent_p.P21P	NM_032451	NP_115827	Q8WWL2	SPIR2_HUMAN	spire homolog 2	152	KIND.				transport	cytoplasm|cytoskeleton	actin binding			central_nervous_system(1)	1		Lung NSC(15;5.15e-06)|all_lung(18;8.38e-06)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0286)		ACGGGGGTCCCGAGGAGGAGG	0.731													3	6					0	0	1	0	0		T	89916879	T	T	89916879	2	4	211	1	0	0	0	0	0	0	0	1	15097	639	23	1		1	SPIRE2	16	89916879	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	561932	89916879	437874	1424	103303											
FAM101B	359845	broad.mit.edu	37	chr17	292996	292996	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgctgcccgggagctccgCggcttcgagctccacgctgg	3	7	15	16	6	0	0	0	0	0	0	4	2	2	1	3	3	3	5	3	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:292996C>T	uc002frj.2	-	2	668	c.394G>A	c.(394-396)GCG>ACG	p.A132T		NM_182705	NP_874364	Q8N5W9	F101B_HUMAN	hypothetical protein LOC359845	202											0		Myeloproliferative disorder(207;0.204)		UCEC - Uterine corpus endometrioid carcinoma (25;0.0216)		GGGAGCTCCGCGGCTTCGAGC	0.657													10	24					0	0	1	0	0		T	292996	T	T	292996	3	4	211	1	0	0	0	0	1	0	0	0	5392	768	27	1	44	1	FAM101B	17	292996	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		292996	80902214	1425	103304											
MYO1C	4641	broad.mit.edu	37	chr17	1370578	1370578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccttggtgatgagcagctcCgagccgggtgtgaagtcaat	8	9	15	9	2	1	3	1	3	0	0	2	4	2	3	3	2	3	2	3	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:1370578C>T	uc002fsp.2	-	31	3343	c.3123G>A	c.(3121-3123)TCG>TCA	p.S1041S	MYO1C_uc002fsn.2_Silent_p.S1022S|MYO1C_uc002fso.2_Silent_p.S1006S	NM_001080779	NP_001074248	O00159	MYO1C_HUMAN	myosin IC isoform a	1041					mRNA transport|protein transport|transmembrane transport	basal plasma membrane|cytoplasm|filamentous actin|lateral plasma membrane|nuclear pore|nucleolus|nucleoplasm|stereocilium membrane	actin binding|ATP binding|calmodulin binding|motor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		TGAGCAGCTCCGAGCCGGGTG	0.627													4	14					0	0	1	0	0		T	1370578	T	T	1370578	2	4	211	1	0	0	0	0	0	0	0	1	10088	639	23	1		1	MYO1C	17	1370578	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1077582	1370578	79824632	1426	103305											
PRPF8	10594	broad.mit.edu	37	chr17	1580395	1580395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atcatgcatcacagctgcccGcagctcaaggtcaaaatgtg	12	8	9	12	1	4	0	4	0	0	0	4	0	4	0	1	1	4	4	1	1	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:1580395G>A	uc002fte.2	-	15	2170	c.2056C>T	c.(2056-2058)CGG>TGG	p.R686W		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	686						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		ACAGCTGCCCGCAGCTCAAGG	0.542													8	126					0	0	1	0	0		A	1580395	A	A	1580395	3	1	211	1	0	0	0	0	1	0	0	0	12597	1086	38	1	5067	1	PRPF8	17	1580395	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	209817	1580395	79614815	1427	103306											
SERPINF2	5345	broad.mit.edu	37	chr17	1657536	1657536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtcggcgtggaggcggcggCggccaccagcattgccatgt	5	6	18	12	5	0	0	0	0	0	0	1	1	0	1	3	7	2	1	3	7	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:1657536C>T	uc002ftk.1	+	10	1261	c.1184C>T	c.(1183-1185)GCG>GTG	p.A395V	SERPINF2_uc010vqr.1_Missense_Mutation_p.A331V	NM_000934	NP_000925	P08697	A2AP_HUMAN	alpha-2-antiplasmin isoform a precursor	395					acute-phase response|fibrinolysis|platelet activation|platelet degranulation|regulation of proteolysis	extracellular space|platelet alpha granule lumen	protease binding|serine-type endopeptidase inhibitor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)	Streptokinase(DB00086)	GAGGCGGCGGCGGCCACCAGC	0.662													48	138					0	0	1	0	0		T	1657536	T	T	1657536	3	4	211	1	0	0	0	0	1	0	0	0	14140	768	27	1	1228	1	SERPINF2	17	1657536	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	77141	1657536	79537674	1428	103307											
SERPINF1	5176	broad.mit.edu	37	chr17	1673293	1673293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgagccccacgaccaacGtgctcctgtctcctctcagt	7	8	8	18	3	2	0	1	0	2	0	5	2	3	0	5	0	3	2	5	0	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:1673293G>A	uc002ftl.2	+	3	389	c.232G>A	c.(232-234)GTG>ATG	p.V78M	SERPINF1_uc010cjw.2_Intron	NM_002615	NP_002606	P36955	PEDF_HUMAN	serine (or cysteine) proteinase inhibitor, clade	78					cell proliferation|negative regulation of angiogenesis|positive regulation of neurogenesis|regulation of proteolysis	extracellular space|melanosome	serine-type endopeptidase inhibitor activity			ovary(1)	1						CACGACCAACGTGCTCCTGTC	0.632													28	59					0	0	1	0	0		A	1673293	A	A	1673293	3	1	211	1	0	0	0	0	1	0	0	0	14139	1145	40	1	238	1	SERPINF1	17	1673293	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	15757	1673293	79521917	1429	103308											
HIC1	3090	broad.mit.edu	37	chr17	1961293	1961293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgagcagctgaacgcgcacGtggaggctcacgtggaggag	9	5	17	10	4	1	2	1	2	0	0	1	5	1	5	0	4	3	4	0	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:1961293G>A	uc010cjy.2	+	2	1366	c.1366G>A	c.(1366-1368)GTG>ATG	p.V456M	HIC1_uc002fty.3_Missense_Mutation_p.V437M|HIC1_uc002ftz.3_Missense_Mutation_p.V437M	NM_001098202	NP_001091672	Q14526	HIC1_HUMAN	hypermethylated in cancer 1 isoform 2	456	C2H2-type 1.				multicellular organismal development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1				READ - Rectum adenocarcinoma(1115;0.236)		GAACGCGCACGTGGAGGCTCA	0.692													6	10					0	0	1	0	0		A	1961293	A	A	1961293	3	1	211	1	0	0	0	0	1	0	0	0	7117	1145	40	1	1372	1	HIC1	17	1961293	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	288000	1961293	79233917	1430	103309											
PAFAH1B1	5048	broad.mit.edu	37	chr17	2579802	2579802	+	Frame_Shift_Del	DEL	A	-	-																															tattatgttttctgtagactAaaaaaagtggtaaacctggg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:2579802delA	uc002fuw.3	+	9	1472	c.904delA	c.(904-906)AAAfs	p.K302fs	PAFAH1B1_uc010ckb.1_Intron|PAFAH1B1_uc010vqz.1_Intron	NM_000430	NP_000421	P43034	LIS1_HUMAN	platelet-activating factor acetylhydrolase,	302	WD 5.|Interaction with dynein and dynactin.				acrosome assembly|actin cytoskeleton organization|adult locomotory behavior|brain morphogenesis|corpus callosum morphogenesis|establishment of mitotic spindle orientation|G2/M transition of mitotic cell cycle|hippocampus development|layer formation in cerebral cortex|learning or memory|lipid catabolic process|microtubule organizing center organization|mitotic prometaphase|neuroblast proliferation|neuromuscular process controlling balance|neuron migration|platelet activating factor metabolic process|regulation of Rho GTPase activity|retrograde axon cargo transport|synaptic transmission|vesicle transport along microtubule	astral microtubule|cell cortex|centrosome|cytosol|kinetochore|motile primary cilium|nuclear membrane|perinuclear region of cytoplasm	dynactin binding|heparin binding|microtubule binding|phospholipase binding|phosphoprotein binding|protein homodimerization activity			skin(1)	1						TCTGTAGACTAAAAAAAGTGG	0.358													24	55	---	---	---	---						.	-	2579802	-	-	2579802	7	5	211	1	0	1	0	1	0	0	0	0	11403	363	13	0	934	0	PAFAH1B1	17	2579802	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	618509	2579802	78615408	1431	103310											
CAMKK1	84254	broad.mit.edu	37	chr17	3789008	3789008	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcaagggggttcttctgcGtagccttgttgggaacctga	7	12	14	8	1	3	1	1	1	2	0	3	2	3	2	2	3	3	3	2	3	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:3789008G>A	uc002fwt.2	-	2	68	c.-26C>T	c.(-28--24)TACGC>TATGC		CAMKK1_uc002fwu.2_Translation_Start_Site|CAMKK1_uc002fwv.2_Translation_Start_Site	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1						synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		GTTCTTCTGCGTAGCCTTGTT	0.572													13	34					0	0	1	0	0		A	3789008	A	A	3789008	1	1	211	1	0	0	0	0	0	0	0	0	2609	1160	40	1		1	CAMKK1	17	3789008	Translation_Start_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1209206	3789008	77406202	1432	103311											
MINK1	50488	broad.mit.edu	37	chr17	4790892	4790892	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctccatcatgaacgtgcCtggagagtcgactctacgcc	9	8	10	14	3	2	2	1	1	1	1	4	4	3	2	3	1	4	1	3	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:4790892C>A	uc010vsl.1	+	12	1233	c.1037C>A	c.(1036-1038)CCT>CAT	p.P346H	MINK1_uc010vsk.1_Missense_Mutation_p.P346H|MINK1_uc010vsm.1_Missense_Mutation_p.P346H|MINK1_uc010vsn.1_Missense_Mutation_p.P346H|MINK1_uc010vso.1_Missense_Mutation_p.P291H|MINK1_uc010vsp.1_Translation_Start_Site	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	346					JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						ATGAACGTGCCTGGAGAGTCG	0.502													4	3					0.00024832	0.000254836	1	1	0		A	4790892	A	A	4790892	3	1	211	1	0	0	0	0	1	0	0	0	9605	681	24	5	822	5	MINK1	17	4790892	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1001884	4790892	76404318	1433	103312											
MINK1	50488	broad.mit.edu	37	chr17	4795504	4795504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagtggggccggagggtccCggccagcccaggcagtccgt	5	4	17	15	3	0	0	0	0	0	0	2	1	2	1	6	6	1	1	6	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:4795504C>T	uc010vsl.1	+	17	2258	c.2062C>T	c.(2062-2064)CGG>TGG	p.R688W	MINK1_uc010vsk.1_Missense_Mutation_p.R688W|MINK1_uc010vsm.1_Missense_Mutation_p.R668W|MINK1_uc010vsn.1_Missense_Mutation_p.R688W|MINK1_uc010vso.1_Missense_Mutation_p.R633W|MINK1_uc010vsp.1_Missense_Mutation_p.R178W	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	688					JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						CGGAGGGTCCCGGCCAGCCCA	0.652													4	10					0	0	1	0	0		T	4795504	T	T	4795504	3	4	211	1	0	0	0	0	1	0	0	0	9605	643	23	1	1867	1	MINK1	17	4795504	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4612	4795504	76399706	1434	103313											
ENO3	2027	broad.mit.edu	37	chr17	4858836	4858836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaagtcgcctgatgatcccGcacggcacatcactggggag	9	7	12	13	3	2	2	2	2	0	0	4	3	3	3	2	3	0	2	2	3	1	0	rs149301373		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:4858836G>A	uc002gab.3	+	8	896	c.802G>A	c.(802-804)GCA>ACA	p.A268T	ENO3_uc010vsr.1_Missense_Mutation_p.A175T|ENO3_uc002gac.3_Missense_Mutation_p.A268T|ENO3_uc010vss.1_Missense_Mutation_p.A225T|ENO3_uc010vst.1_Missense_Mutation_p.A104T	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	268					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1						TGATGATCCCGCACGGCACAT	0.527													73	283					0	0	1	0	0		A	4858836	A	A	4858836	3	1	211	1	0	0	0	0	1	0	0	0	5131	1087	38	1	828	1	ENO3	17	4858836	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	63332	4858836	76336374	1435	103314											
PITPNM3	83394	broad.mit.edu	37	chr17	6374567	6374567	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgctcatcctccgtcctgggCgctggaacctcgaggcctga	5	8	12	16	4	1	1	1	1	0	0	5	3	4	2	5	3	1	2	5	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:6374567C>T	uc002gdd.3	-	12	1689	c.1538G>A	c.(1537-1539)CGC>CAC	p.R513H	PITPNM3_uc010cln.2_Missense_Mutation_p.R477H|PITPNM3_uc010clm.2_5'UTR|PITPNM3_uc002gdc.3_Missense_Mutation_p.R104H	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	513	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CCGTCCTGGGCGCTGGAACCT	0.692													9	17					0	0	1	0	0		T	6374567	T	T	6374567	3	4	211	1	0	0	0	0	1	0	0	0	11971	768	27	1	1422	1	PITPNM3	17	6374567	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1515731	6374567	74820643	1436	103315											
PITPNM3	83394	broad.mit.edu	37	chr17	6406880	6406880	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggatgctggatgtgcacgGcgcggtcccttctcctgcag	5	9	15	12	3	1	0	0	0	1	0	3	3	2	2	2	4	3	3	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:6406880G>C	uc002gdd.3	-	4	392	c.241C>G	c.(241-243)CCG>GCG	p.P81A	PITPNM3_uc010cln.2_Missense_Mutation_p.P45A	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	81					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		GATGTGCACGGCGCGGTCCCT	0.562													12	31					0	0	1	0	0		C	6406880	C	C	6406880	3	2	211	1	0	0	0	0	1	0	0	0	11971	1203	42	5	2751	5	PITPNM3	17	6406880	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	32313	6406880	74788330	1437	103316											
SLC13A5	284111	broad.mit.edu	37	chr17	6607255	6607255	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggccggcctcggtggctgcGcttgtggcttccatctgctg	2	11	15	13	3	1	0	0	0	1	0	3	0	2	0	3	5	2	4	3	5	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:6607255G>A	uc002gdj.2	-	4	577	c.489C>T	c.(487-489)AGC>AGT	p.S163S	SLC13A5_uc010vtf.1_Silent_p.S163S|SLC13A5_uc010clq.2_Silent_p.S120S|SLC13A5_uc002gdk.2_Silent_p.S146S|SLC13A5_uc002gdl.1_Silent_p.S145S	NM_177550	NP_808218	Q86YT5	S13A5_HUMAN	solute carrier family 13, member 5 isoform a	163						integral to membrane	citrate transmembrane transporter activity				0						CGGTGGCTGCGCTTGTGGCTT	0.647													11	43					0	0	1	0	0		A	6607255	A	A	6607255	2	1	211	1	0	0	0	0	0	0	0	1	14420	1078	38	1		1	SLC13A5	17	6607255	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	200375	6607255	74587955	1438	103317											
BCL6B	255877	broad.mit.edu	37	chr17	6927811	6927811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtagtcccaggcgctccGaaggacacccagacccacct	10	4	10	17	2	0	1	0	0	0	1	2	3	2	2	5	3	0	2	5	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:6927811G>A	uc002geg.2	+	4	550	c.493G>A	c.(493-495)GAA>AAA	p.E165K	BCL6B_uc010clt.1_Missense_Mutation_p.E165K	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	165	Pro-rich.					nucleus	zinc ion binding			skin(1)	1						CAGGCGCTCCGAAGGACACCC	0.622													44	105					0	0	1	0	0		A	6927811	A	A	6927811	3	1	211	1	0	0	0	0	1	0	0	0	1378	1059	37	1	503	1	BCL6B	17	6927811	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	320556	6927811	74267399	1439	103318											
C17orf74	201243	broad.mit.edu	37	chr17	7329095	7329095	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgaggacatcttactcctgCtgctgggcctcatcgttctt	5	13	9	14	2	3	0	1	0	2	0	5	2	4	1	3	2	3	3	3	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7329095C>T	uc002ggw.2	+	1	161	c.88C>T	c.(88-90)CTG>TTG	p.L30L	FGF11_uc010vtw.1_Intron	NM_175734	NP_783861	Q0P670	CQ074_HUMAN	hypothetical protein LOC201243	30	Helical; (Potential).					integral to membrane					0		Prostate(122;0.157)				CTTACTCCTGCTGCTGGGCCT	0.537													85	244					0	0	1	0	0		T	7329095	T	T	7329095	2	4	211	1	0	0	0	0	0	0	0	1	1882	796	28	2		2	C17orf74	17	7329095	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	401284	7329095	73866115	1440	103319											
SHBG	6462	broad.mit.edu	37	chr17	7534615	7534615	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcccctgaccagcaaacGccatcccatcatgaggattg	10	7	10	14	1	1	2	1	2	0	0	2	3	2	3	5	2	2	1	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7534615G>A	uc002gie.2	+	4	529	c.491G>A	c.(490-492)CGC>CAC	p.R164H	SHBG_uc010cmo.2_Intron|SHBG_uc010cmp.2_Missense_Mutation_p.R106H|SHBG_uc010cmq.2_Intron|SHBG_uc010cmr.2_Intron|SHBG_uc010cms.2_Intron|SHBG_uc010cmt.2_Missense_Mutation_p.R106H|SHBG_uc010cmu.2_Missense_Mutation_p.R106H|SHBG_uc010cmz.2_Missense_Mutation_p.R106H|SHBG_uc010cmv.2_Intron|SHBG_uc010cmw.2_Intron|SHBG_uc010cmx.2_Intron|SHBG_uc010cmy.2_Missense_Mutation_p.R106H|SHBG_uc002gid.3_Missense_Mutation_p.R106H|SHBG_uc010cnd.2_Intron|SHBG_uc010cna.2_Intron|SHBG_uc010vue.1_Missense_Mutation_p.R164H|SHBG_uc010vuf.1_Missense_Mutation_p.R164H|SHBG_uc010cnb.2_Missense_Mutation_p.R164H|SHBG_uc010cnc.2_Intron	NM_001040	NP_001031	P04278	SHBG_HUMAN	sex hormone-binding globulin isoform 1	164	Laminin G-like 1.				hormone transport	extracellular region	androgen binding|protein homodimerization activity	p.0?(1)|p.?(1)			0		all_cancers(10;0.0867)		READ - Rectum adenocarcinoma(115;0.168)	Danazol(DB01406)|Dromostanolone(DB00858)|Estradiol(DB00783)|Estrone(DB00655)|Fluoxymesterone(DB01185)|Hydrocortisone(DB00741)|Mitotane(DB00648)|Norethindrone(DB00717)|Testosterone(DB00624)	ACCAGCAAACGCCATCCCATC	0.622													12	36					0	0	1	0	0		A	7534615	A	A	7534615	3	1	211	1	0	0	0	0	1	0	0	0	14294	1087	38	1	505	1	SHBG	17	7534615	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	205520	7534615	73660595	1441	103320											
TP53	7157	broad.mit.edu	37	chr17	7577551	7577551	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcctccggttcatgccgcCcatgcaggaactgttacaca	8	8	11	14	2	1	0	1	0	0	0	2	1	2	1	4	3	4	3	4	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7577551C>A	uc002gim.2	-	7	924	c.730G>T	c.(730-732)GGC>TGC	p.G244C	TP53_uc002gig.1_Missense_Mutation_p.G244C|TP53_uc002gih.2_Missense_Mutation_p.G244C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.G112C|TP53_uc010cng.1_Missense_Mutation_p.G112C|TP53_uc002gii.1_Missense_Mutation_p.G112C|TP53_uc010cnh.1_Missense_Mutation_p.G244C|TP53_uc010cni.1_Missense_Mutation_p.G244C|TP53_uc002gij.2_Missense_Mutation_p.G244C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.G151C|TP53_uc002gio.2_Missense_Mutation_p.G112C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	244	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		G -> A (in sporadic cancers; somatic mutation).|G -> S (in sporadic cancers; somatic mutation).|G -> R (in sporadic cancers; somatic mutation).|MG -> IC (in a sporadic cancer; somatic mutation).|G -> E (in a sporadic cancer; somatic mutation).|G -> C (in sporadic cancers; somatic mutation).|MG -> IS (in a sporadic cancer; somatic mutation).|G -> V (in LFS; germline mutation and in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.G244C(36)|p.G244S(35)|p.G244D(32)|p.G244V(14)|p.G244G(13)|p.G244A(9)|p.0?(7)|p.G244fs*3(5)|p.G244R(3)|p.M243_G244>IC(1)|p.G244E(1)|p.G244fs*19(1)|p.G151C(1)|p.G244fs*17(1)|p.M243fs*18(1)|p.S241_G245delSCMGG(1)|p.C242fs*98(1)|p.C242_M246>L(1)|p.G244del(1)|p.C238_M246delCNSSCMGGM(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCATGCCGCCCATGCAGGAA	0.582		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			30	67					5.8336e-16	6.33102e-16	1	1	0		A	7577551	A	A	7577551	3	1	211	1	0	0	0	0	1	0	0	0	16407	623	22	5	560	5	TP53	17	7577551	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	42936	7577551	73617659	1442	103321											
DNAH2	146754	broad.mit.edu	37	chr17	7662800	7662800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcatgatggaggatgccctgCgcctgaatgtgaagtggtca	9	9	15	8	1	1	3	1	3	0	0	1	5	1	5	2	3	2	1	2	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7662800C>T	uc002giu.1	+	15	2523	c.2509C>T	c.(2509-2511)CGC>TGC	p.R837C		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	837	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				GGATGCCCTGCGCCTGAATGT	0.502													27	62					0	0	1	0	0		T	7662800	T	T	7662800	3	4	211	1	0	0	0	0	1	0	0	0	4608	768	27	1	2567	1	DNAH2	17	7662800	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	85249	7662800	73532410	1443	103322											
DNAH2	146754	broad.mit.edu	37	chr17	7681430	7681430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatccgccagaccaacacGcaatttcagtataattatga	14	10	6	11	2	2	2	2	1	0	1	3	2	3	2	3	0	1	2	3	0	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7681430G>A	uc002giu.1	+	33	5297	c.5283G>A	c.(5281-5283)ACG>ACA	p.T1761T		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1761	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AGACCAACACGCAATTTCAGT	0.532													21	62					0	0	1	0	0		A	7681430	A	A	7681430	2	1	211	1	0	0	0	0	0	0	0	1	4608	1074	38	1		1	DNAH2	17	7681430	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	18630	7681430	73513780	1444	103323											
DNAH2	146754	broad.mit.edu	37	chr17	7710838	7710838	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaagcgaatccgaatgaaCgctgccttggctcagcttcg	9	8	10	14	4	1	1	1	1	0	0	3	3	2	1	3	1	4	3	3	1	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7710838C>T	uc002giu.1	+	62	9677	c.9663C>T	c.(9661-9663)AAC>AAT	p.N3221N	DNAH2_uc010cnm.1_Silent_p.N159N	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3221	Potential.|Stalk (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				TCCGAATGAACGCTGCCTTGG	0.637													33	54					0	0	1	0	0		T	7710838	T	T	7710838	2	4	211	1	0	0	0	0	0	0	0	1	4608	535	19	1		1	DNAH2	17	7710838	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	29408	7710838	73484372	1445	103324											
KDM6B	23135	broad.mit.edu	37	chr17	7749463	7749463	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgtgcaggcattgctcCgggagccagcccagccaggg	6	6	16	13	1	0	0	0	0	0	0	1	1	1	1	4	3	5	4	4	3	0	1	rs145085233		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7749463C>T	uc002giw.1	+	6	680	c.304C>T	c.(304-306)CGG>TGG	p.R102W	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	102					inflammatory response	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			central_nervous_system(1)|pancreas(1)	2						GGCATTGCTCCGGGAGCCAGC	0.637													6	31					0	0	1	0	0		T	7749463	T	T	7749463	3	4	211	1	0	0	0	0	1	0	0	0	8154	643	23	1	314	1	KDM6B	17	7749463	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	38625	7749463	73445747	1446	103325											
CHD3	1107	broad.mit.edu	37	chr17	7798700	7798700	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaagatcctacattggcGgtggggggagccacctgtag	9	7	16	9	1	0	2	0	0	0	2	1	3	1	3	3	5	2	2	3	5	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:7798700G>A	uc002gje.2	+	10	1697	c.1547G>A	c.(1546-1548)CGG>CAG	p.R516Q	CHD3_uc002gjd.2_Missense_Mutation_p.R575Q|CHD3_uc002gjf.2_Missense_Mutation_p.R516Q|CHD3_uc002gjg.1_Missense_Mutation_p.R344Q	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	516	Chromo 1.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				CTACATTGGCGGTGGGGGGAG	0.572													39	95					0	0	1	0	0		A	7798700	A	A	7798700	3	1	211	1	0	0	0	0	1	0	0	0	3329	1116	39	1	1866	1	CHD3	17	7798700	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	49237	7798700	73396510	1447	103326											
ALOXE3	59344	broad.mit.edu	37	chr17	8020176	8020176	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatacactaccatccggttcGgtgacacagatgcggctaca	11	8	10	12	3	0	2	0	1	0	1	2	3	1	2	2	3	4	2	2	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:8020176G>A	uc010cnr.2	-	3	640	c.270C>T	c.(268-270)ACC>ACT	p.T90T	ALOXE3_uc002gka.2_Silent_p.T246T|ALOXE3_uc010vuo.1_Silent_p.T222T|ALOXE3_uc010vup.1_RNA	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	90	PLAT.				leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						CATCCGGTTCGGTGACACAGA	0.582													21	58					0	0	1	0	0		A	8020176	A	A	8020176	2	1	211	1	0	0	0	0	0	0	0	1	542	1103	39	1		1	ALOXE3	17	8020176	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	221476	8020176	73175034	1448	103327											
AURKB	9212	broad.mit.edu	37	chr17	8110190	8110190	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataaaaatagttgtagagacGcaggatgttgggatggctgg	13	10	15	3	1	0	1	0	0	0	1	0	4	0	3	0	4	0	5	0	4	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:8110190G>A	uc002gkm.2	-	6	476	c.415C>T	c.(415-417)CGT>TGT	p.R139C	AURKB_uc010cnu.2_Intron|AURKB_uc002gkn.2_Missense_Mutation_p.R140C|AURKB_uc010vuu.1_Missense_Mutation_p.R98C|AURKB_uc002gko.2_RNA	NM_004217	NP_004208	Q96GD4	AURKB_HUMAN	aurora kinase B	139	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|mitotic prometaphase|protein localization to kinetochore	chromosome passenger complex|condensed nuclear chromosome, centromeric region|cytosol|spindle	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(1)|central_nervous_system(1)	4						TTGTAGAGACGCAGGATGTTG	0.522													12	26					0	0	1	0	0		A	8110190	A	A	8110190	3	1	211	1	0	0	0	0	1	0	0	0	1224	1087	38	1	635	1	AURKB	17	8110190	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	90014	8110190	73085020	1449	103328											
ARHGEF15	22899	broad.mit.edu	37	chr17	8215771	8215771	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccccatggctggagtcctGgctcagaatggctctgcctc	5	10	11	15	0	2	1	1	0	1	1	5	2	4	2	4	4	1	3	4	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:8215771G>A	uc002glc.2	+	2	535	c.414G>A	c.(412-414)CTG>CTA	p.L138L	ARHGEF15_uc002glb.1_Silent_p.L138L|ARHGEF15_uc002gld.2_Silent_p.L138L|ARHGEF15_uc010vuw.1_Silent_p.L138L	NM_173728	NP_776089	O94989	ARHGF_HUMAN	Rho guanine exchange factor 15	138					negative regulation of synapse maturation|regulation of Rho protein signal transduction	dendrite|intracellular	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CTGGAGTCCTGGCTCAGAATG	0.687													28	89					0	0	1	0	0		A	8215771	A	A	8215771	2	1	211	1	0	0	0	0	0	0	0	1	898	1335	47	4		4	ARHGEF15	17	8215771	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	105581	8215771	72979439	1450	103329											
MYH10	4628	broad.mit.edu	37	chr17	8452089	8452089	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacctgtagttattaaatccTtcaagaagcaaatcagctaa	17	11	5	8	0	2	1	2	0	0	1	3	1	3	1	2	0	3	4	2	0	9	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:8452089T>C	uc002gll.2	-	9	1002	c.906A>G	c.(904-906)GAA>GAG	p.E302E	MYH10_uc002glm.2_Silent_p.E312E|MYH10_uc010cnx.2_Silent_p.E311E|MYH10_uc010cny.1_RNA	NM_005964	NP_005955	P35580	MYH10_HUMAN	myosin, heavy polypeptide 10, non-muscle	302	Myosin head-like.				actin filament-based movement|axon guidance|cytokinesis after mitosis|regulation of cell shape	cell cortex|cleavage furrow|midbody|myosin complex|stress fiber	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(2)	2						TATTAAATCCTTCAAGAAGCA	0.363													14	59					0	0	1	0	0		C	8452089	C	C	8452089	2	2	211	1	0	0	0	0	0	0	0	1	10048	1606	56	3		3	MYH10	17	8452089	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	236318	8452089	72743121	1451	103330											
USP43	124739	broad.mit.edu	37	chr17	9631535	9631535	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgagaagtcagcatcgccgaGgtccaacgtcgcccttcctg	8	8	11	14	4	1	1	1	1	0	1	5	3	3	1	4	1	2	1	4	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:9631535G>T	uc010cod.2	+	15	2600	c.2600G>T	c.(2599-2601)AGG>ATG	p.R867M	USP43_uc002gma.3_Missense_Mutation_p.R556M|USP43_uc010vva.1_Missense_Mutation_p.R862M|USP43_uc010coe.2_Missense_Mutation_p.R664M|USP43_uc002gmc.3_Missense_Mutation_p.R379M	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	ubiquitin specific protease 43	867					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GCATCGCCGAGGTCCAACGTC	0.607													8	16					0.00448238	0.00455437	1	1	0		T	9631535	T	T	9631535	3	4	211	1	0	0	0	0	1	0	0	0	17100	1000	35	5	2658	5	USP43	17	9631535	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1179446	9631535	71563675	1452	103331											
GLP2R	9340	broad.mit.edu	37	chr17	9792733	9792733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtccgcttcttgctagcccGccactcaggctgcagagcct	5	9	11	16	2	2	1	1	0	1	1	3	1	3	1	4	2	4	4	4	2	1	3	rs143908746	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:9792733G>A	uc002gmd.1	+	13	1373	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H		NM_004246	NP_004237	O95838	GLP2R_HUMAN	glucagon-like peptide 2 receptor precursor	458	Cytoplasmic (Potential).				G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of cell proliferation	integral to membrane|plasma membrane				lung(2)|ovary(1)	3					Glucagon recombinant(DB00040)	TTGCTAGCCCGCCACTCAGGC	0.562													15	45					0	0	1	0	0		A	9792733	A	A	9792733	3	1	211	1	0	0	0	0	1	0	0	0	6468	1087	38	1	1423	1	GLP2R	17	9792733	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	161198	9792733	71402477	1453	103332											
MYH13	8735	broad.mit.edu	37	chr17	10212618	10212618	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctctgacagcctgcgggtcCgctccgtctgttccagggcc	3	9	13	16	3	2	1	0	1	2	0	5	1	5	1	5	2	2	3	5	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:10212618C>T	uc002gmk.1	-	35	5192	c.5102G>A	c.(5101-5103)CGG>CAG	p.R1701Q		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	1701	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						CCTGCGGGTCCGCTCCGTCTG	0.657													11	26					0	0	1	0	0		T	10212618	T	T	10212618	3	4	211	1	0	0	0	0	1	0	0	0	10050	652	23	1	742	1	MYH13	17	10212618	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	419885	10212618	70982592	1454	103333											
MYH8	4626	broad.mit.edu	37	chr17	10303724	10303724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taccttggctttggaaatggCctctgcgttactgctgaggt	6	14	12	9	1	1	1	0	1	1	0	1	2	1	2	2	4	4	3	2	4	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:10303724C>T	uc002gmm.2	-	27	3813	c.3718G>A	c.(3718-3720)GCC>ACC	p.A1240T	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1240	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						TTGGAAATGGCCTCTGCGTTA	0.453									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				43	119					0	0	1	0	0		T	10303724	T	T	10303724	3	4	211	1	0	0	0	0	1	0	0	0	10059	739	26	2	2151	2	MYH8	17	10303724	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	91106	10303724	70891486	1455	103334											
MYH8	4626	broad.mit.edu	37	chr17	10318675	10318675	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctccagtaggggattggcGctgatgatttgatcttccag	7	12	13	9	1	1	3	0	3	1	0	3	4	3	4	3	3	0	2	3	3	1	4	rs146651214	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:10318675G>A	uc002gmm.2	-	8	770	c.675C>T	c.(673-675)AGC>AGT	p.S225S	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	225	Myosin head-like.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GGGGATTGGCGCTGATGATTT	0.507									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				45	100					0	0	1	0	0		A	10318675	A	A	10318675	2	1	211	1	0	0	0	0	0	0	0	1	10059	1078	38	1		1	MYH8	17	10318675	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	14951	10318675	70876535	1456	103335											
MYH2	4620	broad.mit.edu	37	chr17	10438444	10438444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatcctttcctacagatgCggatgccttccagcacaccg	10	9	8	14	2	0	1	0	0	0	1	3	3	3	2	5	1	4	1	5	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:10438444C>T	uc010coi.2	-	19	2254	c.2126G>A	c.(2125-2127)CGC>CAC	p.R709H	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.R709H|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	709	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle	p.R709C(1)		ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCTACAGATGCGGATGCCTTC	0.433													18	63					0	0	1	0	0		T	10438444	T	T	10438444	3	4	211	1	0	0	0	0	1	0	0	0	10053	768	27	1	3787	1	MYH2	17	10438444	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	119769	10438444	70756766	1457	103336											
MYH3	4621	broad.mit.edu	37	chr17	10538718	10538718	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcttctgtgcgctggatggCgtccgtctcgtatttggttc	2	16	12	11	4	3	0	0	0	3	0	6	1	4	1	1	3	1	3	1	3	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:10538718C>T	uc002gmq.1	-	29	4215	c.4138G>A	c.(4138-4140)GCC>ACC	p.A1380T		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1380	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CGCTGGATGGCGTCCGTCTCG	0.493													46	137					0	0	1	0	0		T	10538718	T	T	10538718	3	4	211	1	0	0	0	0	1	0	0	0	10054	768	27	1	1732	1	MYH3	17	10538718	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	100274	10538718	70656492	1458	103337											
PMP22	5376	broad.mit.edu	37	chr17	15134388	15134388	+	Missense_Mutation	SNP	A	G	G	1	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	agatggccgcagcactcatcAcgcacagacctggggaagga	12	4	13	12	2	2	2	2	0	0	2	2	4	2	4	2	4	1	3	2	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:15134388A>G	uc002goj.2	-	4	378	c.329T>C	c.(328-330)GTG>GCG	p.V110A	PMP22_uc002gok.2_Missense_Mutation_p.V110A|PMP22_uc002gol.2_Missense_Mutation_p.V110A	NM_153322	NP_696997	Q01453	PMP22_HUMAN	peripheral myelin protein 22	110	Helical; (By similarity).				peripheral nervous system development|synaptic transmission	integral to membrane					0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0884)|BRCA - Breast invasive adenocarcinoma(8;4.92e-06)		AGCACTCATCACGCACAGACC	0.622													8	43					0	0	1	0	0		G	15134388	G	G	15134388	3	3	211	1	0	0	0	0	1	0	0	0	12158	159	6	3	157	3	PMP22	17	15134388	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4595670	15134388	66060822	1459	103338											
TRPV2	51393	broad.mit.edu	37	chr17	16321122	16321122	+	Missense_Mutation	SNP	A	G	G	1	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	gtcacagttccagggcgaggAccggaaattcgcccctcaga	10	6	12	13	3	2	1	2	0	0	1	4	4	3	3	4	3	0	1	4	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:16321122A>G	uc002gpy.2	+	2	507	c.140A>G	c.(139-141)GAC>GGC	p.D47G	TRPV2_uc002gpz.2_5'UTR	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	47	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		CAGGGCGAGGACCGGAAATTC	0.587													10	32					0	0	1	0	0		G	16321122	G	G	16321122	3	3	211	1	0	0	0	0	1	0	0	0	16622	275	10	3	142	3	TRPV2	17	16321122	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1186734	16321122	64874088	1460	103339											
MED9	55090	broad.mit.edu	37	chr17	17394661	17394661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagcaagttccaggagatgcGcaagctcatcagcaccatgc	13	6	10	12	1	2	1	2	0	0	1	3	2	3	1	2	1	5	5	2	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:17394661G>A	uc002grh.1	+	2	349	c.293G>A	c.(292-294)CGC>CAC	p.R98H		NM_018019	NP_060489	Q9NWA0	MED9_HUMAN	mediator complex subunit 9	98					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		protein binding				0						CAGGAGATGCGCAAGCTCATC	0.587													35	68					0	0	1	0	0		A	17394661	A	A	17394661	3	1	211	1	0	0	0	0	1	0	0	0	9472	1087	38	1	299	1	MED9	17	17394661	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1073539	17394661	63800549	1461	103340											
MYO15A	51168	broad.mit.edu	37	chr17	18023437	18023437	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctggaggaaccagaggacgcGggcgtagagcgtcaggggac	10	3	19	9	4	1	2	1	0	0	2	1	6	1	6	1	6	2	1	1	6	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:18023437G>A	uc010vxh.1	+	2	1661	c.1323G>A	c.(1321-1323)GCG>GCA	p.A441A		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	441	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CAGAGGACGCGGGCGTAGAGC	0.657													15	55					0	0	1	0	0		A	18023437	A	A	18023437	2	1	211	1	0	0	0	0	0	0	0	1	10081	1103	39	1		1	MYO15A	17	18023437	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	628776	18023437	63171773	1462	103341											
MYO15A	51168	broad.mit.edu	37	chr17	18061119	18061119	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgctgcccccgacttcctgCagctgccaacggagccaggc	6	6	11	18	2	0	0	0	0	0	0	1	2	1	1	5	2	7	3	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:18061119C>T	uc010vxh.1	+	50	9210	c.8872C>T	c.(8872-8874)CAG>TAG	p.Q2958*	MYO15A_uc010vxi.1_Nonsense_Mutation_p.Q222*|MYO15A_uc010vxk.1_5'UTR|MYO15A_uc010vxl.1_5'UTR|MYO15A_uc002gsl.2_5'Flank|MYO15A_uc010vxm.1_5'Flank|MYO15A_uc002gsm.1_5'Flank	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	2958	Tail.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CGACTTCCTGCAGCTGCCAAC	0.716													9	38					0	0	1	0	0		T	18061119	T	T	18061119	4	4	211	1	0	0	0	0	0	1	0	0	10081	711	25	2	9066	2	MYO15A	17	18061119	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	37682	18061119	63134091	1463	103342											
SMCR7	125170	broad.mit.edu	37	chr17	18167126	18167126	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggccttcgagcgggaccGtgtgaccatcccagcagccc	6	6	13	16	3	0	1	0	1	0	0	2	3	1	2	5	2	3	2	5	2	0	1	rs151225748		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:18167126G>A	uc002gst.2	+	4	624	c.413G>A	c.(412-414)CGT>CAT	p.R138H	SMCR7_uc002gsu.2_Silent_p.P113P|SMCR7_uc010vxq.1_Missense_Mutation_p.R149H	NM_139162	NP_631901	Q96C03	SMCR7_HUMAN	Smith-Magenis syndrome chromosome region,	138						integral to membrane	protein binding				0	all_neural(463;0.228)					GAGCGGGACCGTGTGACCATC	0.632													23	58					0	0	1	0	0		A	18167126	A	A	18167126	3	1	211	1	0	0	0	0	1	0	0	0	14815	1145	40	1	460	1	SMCR7	17	18167126	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	106007	18167126	63028084	1464	103343											
TOP3A	7156	broad.mit.edu	37	chr17	18181478	18181478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtcagcaggctgggggtGctggctgttgtccatcctgt	3	12	16	10	0	1	0	1	0	0	0	3	0	3	0	2	4	2	6	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:18181478G>A	uc002gsx.1	-	18	2567	c.2338C>T	c.(2338-2340)CAC>TAC	p.H780Y	TOP3A_uc010cpz.1_Missense_Mutation_p.H232Y|TOP3A_uc010vxr.1_Missense_Mutation_p.H310Y|TOP3A_uc002gsw.1_Missense_Mutation_p.H232Y|TOP3A_uc010vxs.1_Missense_Mutation_p.H678Y	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	780					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						GGCTGGGGGTGCTGGCTGTTG	0.632													36	104					0	0	1	0	0		A	18181478	A	A	18181478	3	1	211	1	0	0	0	0	1	0	0	0	16393	1319	46	2	675	2	TOP3A	17	18181478	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	14352	18181478	63013732	1465	103344											
SMCR8	140775	broad.mit.edu	37	chr17	18219833	18219833	+	Missense_Mutation	SNP	A	G	G	1	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	ccagtgtggagaagtccatcAttgaacatcaagacctgctg	12	9	10	10	0	2	3	2	1	0	2	3	4	3	3	3	1	2	1	3	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:18219833A>G	uc002gsy.3	+	1	1240	c.730A>G	c.(730-732)ATT>GTT	p.I244V		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	244										central_nervous_system(1)	1						GAAGTCCATCATTGAACATCA	0.483													11	41					0	0	1	0	0		G	18219833	G	G	18219833	3	3	211	1	0	0	0	0	1	0	0	0	14817	217	8	3	732	3	SMCR8	17	18219833	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	38355	18219833	62975377	1466	103345											
EVPLL	645027	broad.mit.edu	37	chr17	18286168	18286168	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccatccggagccaataccGagacctactggtgagcagga	12	5	11	13	2	0	2	0	1	0	1	1	5	1	4	5	3	4	1	5	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:18286168G>A	uc002gte.2	+	6	756	c.501G>A	c.(499-501)CCG>CCA	p.P167P		NM_001145127	NP_001138599	A8MZ36	EVPLL_HUMAN	envoplakin-like	167											0						AGCCAATACCGAGACCTACTG	0.692													8	14					0	0	1	0	0		A	18286168	A	A	18286168	2	1	211	1	0	0	0	0	0	0	0	1	5301	1045	37	1		1	EVPLL	17	18286168	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	66335	18286168	62909042	1467	103346											
FAM83G	644815	broad.mit.edu	37	chr17	18881428	18881428	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccaatatcactgctgtcccgGgctagtacatctgccacagg	9	9	9	14	1	2	0	1	0	1	0	3	0	3	0	3	2	3	3	3	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:18881428G>T	uc002guw.2	-	5	1718	c.1551C>A	c.(1549-1551)GCC>GCA	p.A517A	SLC5A10_uc002gur.1_Intron|SLC5A10_uc002guu.1_Intron|SLC5A10_uc002gut.1_Intron|SLC5A10_uc002guv.1_Intron|SLC5A10_uc010vyl.1_Intron	NM_001039999	NP_001035088	A6ND36	FA83G_HUMAN	hypothetical protein LOC644815	517										ovary(1)|central_nervous_system(1)	2						TGCTGTCCCGGGCTAGTACAT	0.652													23	81					1.85244e-09	1.95228e-09	1	1	0		T	18881428	T	T	18881428	2	4	211	1	0	0	0	0	0	0	0	1	5653	1219	43	5		5	FAM83G	17	18881428	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	595260	18881428	62313782	1468	103347											
ALDH3A1	218	broad.mit.edu	37	chr17	19643782	19643782	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatttcttagcatcttccccGtagaactcctgtggagaaga	10	12	9	10	1	2	3	0	0	2	3	4	5	4	3	3	1	2	2	3	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:19643782G>A	uc010cqu.2	-	6	1146	c.816C>T	c.(814-816)TAC>TAT	p.Y272Y	ALDH3A1_uc010vzd.1_Silent_p.Y272Y|ALDH3A1_uc002gwj.2_Silent_p.Y272Y|ALDH3A1_uc010cqv.2_Silent_p.Y271Y|ALDH3A1_uc002gwk.2_Silent_p.Y389Y|ALDH3A1_uc002gwl.1_Silent_p.Y199Y	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	272					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	CATCTTCCCCGTAGAACTCCT	0.527													26	89					0	0	1	0	0		A	19643782	A	A	19643782	2	1	211	1	0	0	0	0	0	0	0	1	497	1140	40	1		1	ALDH3A1	17	19643782	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	762354	19643782	61551428	1469	103348											
ULK2	9706	broad.mit.edu	37	chr17	19720076	19720076	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctcacatgagtggtctgacGagatgttgtgtggcaccaaa	10	11	12	8	1	2	3	1	2	2	1	3	4	2	3	1	2	0	2	1	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:19720076G>A	uc002gwm.3	-	13	1591	c.1082C>T	c.(1081-1083)TCG>TTG	p.S361L	ULK2_uc002gwn.2_Missense_Mutation_p.S361L	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	361					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					GTGGTCTGACGAGATGTTGTG	0.368													13	55					0	0	1	0	0		A	19720076	A	A	19720076	3	1	211	1	0	0	0	0	1	0	0	0	17002	1059	37	1	2088	1	ULK2	17	19720076	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	76294	19720076	61475134	1470	103349											
MAP2K3	5606	broad.mit.edu	37	chr17	21217508	21217508	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	caagaagacggacattgctgCcttcgtgaaggagatcctgg	11	8	13	9	2	0	4	0	1	0	3	2	6	1	5	2	3	2	1	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:21217508C>T	uc002gys.2	+	12	1275	c.1010C>T	c.(1009-1011)GCC>GTC	p.A337V	MAP2K3_uc002gyt.2_Missense_Mutation_p.A308V|MAP2K3_uc002gyu.2_Missense_Mutation_p.A308V	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	337					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		GACATTGCTGCCTTCGTGAAG	0.627													36	319					0	0	1	0	0		T	21217508	T	T	21217508	3	4	211	1	0	0	0	0	1	0	0	0	9256	739	26	2	1056	2	MAP2K3	17	21217508	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1497432	21217508	59977702	1471	103350											
WSB1	26118	broad.mit.edu	37	chr17	25630429	25630429	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaatgttaccaattcaagCagtttaagattgccaagaca	17	10	7	7	0	1	3	1	0	0	3	1	3	1	3	2	0	3	3	2	0	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:25630429C>T	uc002gzd.1	+	3	562	c.246C>T	c.(244-246)AGC>AGT	p.S82S	WSB1_uc010vzy.1_Silent_p.S82S|WSB1_uc010vzz.1_Silent_p.S51S|WSB1_uc010crf.1_Intron|WSB1_uc002gze.1_Intron|WSB1_uc002gzf.1_RNA	NM_015626	NP_056441	Q9Y6I7	WSB1_HUMAN	WD repeat and SOCS box-containing 1 isoform 1	82					intracellular signal transduction	intracellular	protein binding				0	all_cancers(1;2e-13)|all_epithelial(1;4.8e-15)|Lung NSC(42;0.00152)		BRCA - Breast invasive adenocarcinoma(3;0.0152)	UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		CCAATTCAAGCAGTTTAAGAT	0.403													32	93					0	0	1	0	0		T	25630429	T	T	25630429	2	4	211	1	0	0	0	0	0	0	0	1	17430	709	25	2		2	WSB1	17	25630429	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4412921	25630429	55564781	1472	103351											
SLC13A2	9058	broad.mit.edu	37	chr17	26823498	26823498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgcctccaccctctctacGtcatgctcccctgcactctg	4	12	5	20	1	4	0	1	0	3	0	7	0	6	0	5	0	4	2	5	0	1	1	rs149423247	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:26823498G>A	uc002hbh.2	+	11	1568	c.1501G>A	c.(1501-1503)GTC>ATC	p.V501I	SLC13A2_uc010wam.1_Missense_Mutation_p.V457I|SLC13A2_uc010wan.1_Missense_Mutation_p.V550I|SLC13A2_uc010wao.1_Missense_Mutation_p.V458I|SLC13A2_uc002hbi.2_Missense_Mutation_p.V430I	NM_003984	NP_003975	Q13183	S13A2_HUMAN	solute carrier family 13, member 2 isoform b	501	Helical; (Potential).					integral to plasma membrane|membrane fraction	low affinity sodium:dicarboxylate symporter activity				0	all_lung(13;0.000871)|Lung NSC(42;0.0027)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)	Succinic acid(DB00139)	CCCTCTCTACGTCATGCTCCC	0.632													59	160					0	0	1	0	0		A	26823498	A	A	26823498	3	1	211	1	0	0	0	0	1	0	0	0	14417	1145	40	1	1690	1	SLC13A2	17	26823498	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1193069	26823498	54371712	1473	103352											
KIAA0100	9703	broad.mit.edu	37	chr17	26942731	26942731	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttttgacagccatggcaaagTctagccatgtccatgtgttg	9	13	10	9	0	1	1	0	1	1	0	2	1	2	1	3	1	2	2	3	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:26942731T>A	uc002hbu.2	-	38	6575	c.6476A>T	c.(6475-6477)GAC>GTC	p.D2159V	SGK494_uc010waq.1_5'Flank|SGK494_uc010war.1_5'Flank|SGK494_uc002hbr.1_5'Flank|uc002hbs.1_Intron|KIAA0100_uc002hbt.2_Missense_Mutation_p.D488V	NM_014680	NP_055495	Q14667	K0100_HUMAN	hypothetical protein LOC9703 precursor	2159						extracellular region				ovary(2)|breast(1)|skin(1)	4	Lung NSC(42;0.00431)					CATGGCAAAGTCTAGCCATGT	0.572													17	38					0	0	1	0	0		A	26942731	A	A	26942731	3	1	211	1	0	0	0	0	1	0	0	0	8170	1667	58	5	239	5	KIAA0100	17	26942731	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	119233	26942731	54252479	1474	103353											
C17orf63	55731	broad.mit.edu	37	chr17	27086286	27086286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atctgagtctggcatcttccGgcctccatgcagcaagggat	8	10	11	12	1	3	1	0	1	3	0	5	2	5	2	3	3	2	3	3	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:27086286G>A	uc002hct.1	-	3	958	c.691C>T	c.(691-693)CGG>TGG	p.R231W	C17orf63_uc010wax.1_Missense_Mutation_p.R231W|C17orf63_uc010way.1_Missense_Mutation_p.R231W|C17orf63_uc002hcw.2_Missense_Mutation_p.R103W	NM_018182	NP_060652	Q8WU58	CQ063_HUMAN	hypothetical protein LOC55731	231										ovary(1)	1	all_epithelial(6;5.06e-20)|Lung NSC(42;0.01)		Epithelial(11;3.38e-06)|all cancers(11;2.46e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.104)			GGCATCTTCCGGCCTCCATGC	0.637													3	20					0	0	1	0	0		A	27086286	A	A	27086286	3	1	211	1	0	0	0	0	1	0	0	0	1874	1115	39	1		1	C17orf63	17	27086286	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	143555	27086286	54108924	1475	103354											
MYO18A	399687	broad.mit.edu	37	chr17	27448654	27448654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaggctagcgccatagcGctggcgcaaggtgtgcagga	9	5	16	11	3	0	0	0	0	0	0	0	1	0	1	1	4	4	5	1	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:27448654G>A	uc002hdt.1	-	5	1440	c.1282C>T	c.(1282-1284)CGC>TGC	p.R428C	MYO18A_uc010wbc.1_5'UTR|MYO18A_uc002hds.2_5'UTR|MYO18A_uc010csa.1_Missense_Mutation_p.R428C|MYO18A_uc002hdu.1_Missense_Mutation_p.R428C|MYO18A_uc010wbd.1_Missense_Mutation_p.R97C	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	428	Myosin head-like.				anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			GCGCCATAGCGCTGGCGCAAG	0.637													4	5					0	0	1	0	0		A	27448654	A	A	27448654	3	1	211	1	0	0	0	0	1	0	0	0	10083	1087	38	1	5034	1	MYO18A	17	27448654	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	362368	27448654	53746556	1476	103355											
NUFIP2	57532	broad.mit.edu	37	chr17	27614057	27614057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaagcatgctttcctttggGccgatcatcaaactttttgc	8	15	8	10	1	2	1	2	1	0	0	3	2	3	1	2	1	4	2	2	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:27614057G>A	uc002hdy.3	-	2	1044	c.955C>T	c.(955-957)CCC>TCC	p.P319S	NUFIP2_uc002hdx.3_Intron	NM_020772	NP_065823	Q7Z417	NUFP2_HUMAN	nuclear fragile X mental retardation protein	319						nucleus|polysomal ribosome	protein binding|RNA binding			skin(2)|ovary(1)|breast(1)	4			BRCA - Breast invasive adenocarcinoma(11;0.000457)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			TTTCCTTTGGGCCGATCATCA	0.478													29	99					0	0	1	0	0		A	27614057	A	A	27614057	3	1	211	1	0	0	0	0	1	0	0	0	10768	1203	42	2	1144	2	NUFIP2	17	27614057	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	165403	27614057	53581153	1477	103356											
TAOK1	57551	broad.mit.edu	37	chr17	27825386	27825386	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagttaatagtgttggaagTaatcaatccattcccagcat	14	12	7	8	0	1	0	1	0	0	0	3	1	3	1	2	1	1	4	2	1	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:27825386T>C	uc002hdz.1	+	12	1244	c.1050T>C	c.(1048-1050)AGT>AGC	p.S350S	TAOK1_uc010wbe.1_Silent_p.S350S|TAOK1_uc010wbf.1_Silent_p.S350S|TAOK1_uc002heb.1_Silent_p.S176S	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	350	Ser-rich.				mitotic prometaphase	cytosol|intracellular membrane-bounded organelle	ATP binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)|skin(1)	4			Colorectal(6;0.198)			GTGTTGGAAGTAATCAATCCA	0.413													24	63					0	0	1	0	0		C	27825386	C	C	27825386	2	2	211	1	0	0	0	0	0	0	0	1	15572	1635	57	3		3	TAOK1	17	27825386	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	211329	27825386	53369824	1478	103357											
ADAP2	55803	broad.mit.edu	37	chr17	29253876	29253876	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caatggaaacctccgtgtgaAggccaagttcgaagccagag	13	6	12	10	2	0	2	0	1	0	1	2	4	1	3	4	2	2	1	4	2	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:29253876A>C	uc002hfx.2	+	3	536	c.257A>C	c.(256-258)AAG>ACG	p.K86T	ADAP2_uc010csk.2_Missense_Mutation_p.K92T|ADAP2_uc002hfy.2_Missense_Mutation_p.K86T|ADAP2_uc010csl.2_RNA	NM_018404	NP_060874	Q9NPF8	ADAP2_HUMAN	centaurin-alpha 2 protein	86	Arf-GAP.				heart development|regulation of ARF GTPase activity	mitochondrial envelope|plasma membrane	ARF GTPase activator activity|inositol 1,3,4,5 tetrakisphosphate binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding, bridging|zinc ion binding	p.?(1)		ovary(1)	1						CTCCGTGTGAAGGCCAAGTTC	0.488													11	41					0	0	1	0	0		C	29253876	C	C	29253876	3	2	211	1	0	0	0	0	1	0	0	0	280	72	3	5	267	5	ADAP2	17	29253876	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1428490	29253876	51941334	1479	103358											
NF1	4763	broad.mit.edu	37	chr17	29687688	29687688	+	Missense_Mutation	SNP	A	G	G	1	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	accttaacctttctaattccAtgacctcacttgcaacttcc	10	14	2	15	0	2	1	1	1	1	0	4	1	4	1	5	0	3	1	5	0	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:29687688A>G	uc002hgg.2	+	57	8677	c.8344A>G	c.(8344-8346)ATG>GTG	p.M2782V	NF1_uc002hgh.2_Missense_Mutation_p.M2761V|NF1_uc010cso.2_Missense_Mutation_p.M970V|NF1_uc010wbt.1_Missense_Mutation_p.M260V|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2782					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TTCTAATTCCATGACCTCACT	0.443			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)			49	115					0	0	1	0	0		G	29687688	G	G	29687688	3	3	211	1	0	0	0	0	1	0	0	0	10375	217	8	3	8631	3	NF1	17	29687688	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	433812	29687688	51507522	1480	103359											
ZNF830	91603	broad.mit.edu	37	chr17	33289326	33289326	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacaccgcggaagcgttaccGgaaggtttttttgacgaccc	10	9	11	11	5	0	1	0	1	0	0	0	4	0	3	3	3	3	2	3	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:33289326G>A	uc002hih.3	+	1	778	c.741G>A	c.(739-741)CCG>CCA	p.P247P	CCT6B_uc002hig.2_5'Flank|CCT6B_uc010ctg.2_5'Flank|CCT6B_uc010wcc.1_5'Flank	NM_052857	NP_443089	Q96NB3	ZN830_HUMAN	coiled-coil domain containing 16	247					cell division|mitosis	cytoplasm|nucleus	metal ion binding			breast(1)	1		Ovarian(249;0.17)				AAGCGTTACCGGAAGGTTTTT	0.458													10	40					0	0	1	0	0		A	33289326	A	A	33289326	2	1	211	1	0	0	0	0	0	0	0	1	18209	1103	39	1		1	ZNF830	17	33289326	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3601638	33289326	47905884	1481	103360											
LIG3	3980	broad.mit.edu	37	chr17	33331364	33331364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagacttcagccgtctcagaCgctactttgtggcattcgac	8	11	9	13	3	2	2	2	0	1	2	4	3	2	2	1	1	2	2	1	1	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:33331364C>T	uc002hik.1	+	20	2977	c.2869C>T	c.(2869-2871)CGC>TGC	p.R957C	uc002hil.2_5'Flank	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	957	BRCT.				base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	CCGTCTCAGACGCTACTTTGT	0.577								Other_BER_factors					17	63					0	0	1	0	0		T	33331364	T	T	33331364	3	4	211	1	0	0	0	0	1	0	0	0	8798	536	19	1	3001	1	LIG3	17	33331364	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	42038	33331364	47863846	1482	103361											
SOCS7	30837	broad.mit.edu	37	chr17	36520674	36520674	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatgtggacatttctcagcGgggcctgacctctccacacc	7	9	11	14	1	2	1	1	1	2	0	4	3	2	3	4	4	1	0	4	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:36520674G>A	uc002hqa.2	+	3	1016	c.893G>A	c.(892-894)CGG>CAG	p.R298Q	SOCS7_uc010cvl.2_Missense_Mutation_p.R298Q|SOCS7_uc002hqb.2_RNA	NM_014598	NP_055413	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	298	Mediates interaction with SORBS3.				intracellular signal transduction|negative regulation of signal transduction|regulation of growth	cytoplasm|nucleus|plasma membrane	protein binding|SH3 domain binding			skin(1)	1	Breast(7;3.47e-17)					ATTTCTCAGCGGGGCCTGACC	0.547													28	77					0	0	1	0	0		A	36520674	A	A	36520674	3	1	211	1	0	0	0	0	1	0	0	0	14944	1116	39	1	903	1	SOCS7	17	36520674	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3189310	36520674	44674536	1483	103362											
MLLT6	4302	broad.mit.edu	37	chr17	36865453	36865453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acatctgcgaggagcagggcCgggagagcaaggcggcctcg	9	3	18	11	4	1	1	0	0	1	1	2	4	1	2	2	5	3	2	2	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:36865453C>T	uc002hqi.3	+	5	395	c.382C>T	c.(382-384)CGG>TGG	p.R128W	MLLT6_uc010wdr.1_Missense_Mutation_p.R128W|MLLT6_uc010cvm.1_Missense_Mutation_p.R128W	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	128	PHD-type 2.				regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					GGAGCAGGGCCGGGAGAGCAA	0.632			T	MLL	AL								81	202					0	0	1	0	0		T	36865453	T	T	36865453	3	4	211	1	0	0	0	0	1	0	0	0	9648	643	23	1	400	1	MLLT6	17	36865453	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	344779	36865453	44329757	1484	103363											
PSMB3	5691	broad.mit.edu	37	chr17	36916769	36916769	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgctctctagacctcatcGgctgccccatggtgactgat	6	13	9	13	1	2	3	1	2	1	1	4	3	2	3	3	2	2	2	3	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:36916769G>A	uc002hqr.2	+	4	460	c.382G>A	c.(382-384)GGC>AGC	p.G128S		NM_002795	NP_002786	P49720	PSB3_HUMAN	proteasome beta 3 subunit	128					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	protein binding|threonine-type endopeptidase activity				0						AGACCTCATCGGCTGCCCCAT	0.557													30	61					0	0	1	0	0		A	36916769	A	A	36916769	3	1	211	1	0	0	0	0	1	0	0	0	12700	1116	39	1	396	1	PSMB3	17	36916769	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	51316	36916769	44278441	1485	103364											
STARD3	10948	broad.mit.edu	37	chr17	37809851	37809851	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcctgccgtggcctccctgGgctcctcactgtcccacagc	3	9	10	19	1	1	0	1	0	0	0	4	0	4	0	6	2	3	1	6	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:37809851G>T	uc002hsd.2	+	2	191	c.67G>T	c.(67-69)GGC>TGC	p.G23C	STARD3_uc010weg.1_Missense_Mutation_p.G23C|STARD3_uc010weh.1_RNA|STARD3_uc002hse.2_Missense_Mutation_p.G23C|STARD3_uc010wei.1_Missense_Mutation_p.G23C|STARD3_uc002hsf.2_5'UTR	NM_006804	NP_006795	Q14849	STAR3_HUMAN	StAR-related lipid transfer (START) domain	23	Cytoplasmic (Potential).				cholesterol metabolic process|mitochondrial transport|steroid biosynthetic process	integral to membrane|late endosome membrane	cholesterol binding|cholesterol transporter activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;1.04e-44)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			GGCCTCCCTGGGCTCCTCACT	0.682											OREG0024381	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	55					1.15088e-07	1.20113e-07	1	1	0		T	37809851	T	T	37809851	3	4	211	1	0	0	0	0	1	0	0	0	15282	1232	43	5	69	5	STARD3	17	37809851	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	893082	37809851	43385359	1486	103365											
SMARCE1	6605	broad.mit.edu	37	chr17	38785239	38785239	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgttgtttcttcaaggtgtGtctcctctgtaatcacacat	7	17	7	10	0	5	0	2	0	3	0	6	0	5	0	1	1	0	3	1	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:38785239G>A	uc002hux.2	-	11	1158	c.1034C>T	c.(1033-1035)ACA>ATA	p.T345I	SMARCE1_uc010wff.1_3'UTR|SMARCE1_uc010wfg.1_3'UTR|SMARCE1_uc002huy.2_Missense_Mutation_p.T310I|SMARCE1_uc010wfh.1_Missense_Mutation_p.T275I|SMARCE1_uc010wfi.1_Missense_Mutation_p.T327I	NM_003079	NP_003070	Q969G3	SMCE1_HUMAN	SWI/SNF-related matrix-associated	345	Glu-rich.				chromatin modification|negative regulation of transcription, DNA-dependent|nervous system development|nucleosome disassembly|regulation of transcription from RNA polymerase II promoter	nBAF complex|npBAF complex|nuclear chromosome|SWI/SNF complex|transcriptional repressor complex	chromatin binding|DNA binding|N-acetyltransferase activity|protein binding|protein N-terminus binding|transcription coactivator activity				0		Breast(137;0.000812)				TTCAAGGTGTGTCTCCTCTGT	0.398													21	56					0	0	1	0	0		A	38785239	A	A	38785239	3	1	211	1	0	0	0	0	1	0	0	0	14805	1377	48	4	205	4	SMARCE1	17	38785239	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	975388	38785239	42409971	1487	103366											
KRT28	162605	broad.mit.edu	37	chr17	38955184	38955184	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttactttagcctgaaatcaTcagcagccagtctggcatta	11	12	7	11	0	3	1	2	1	1	0	3	1	3	1	2	1	4	2	2	1	4	4	rs148946166		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:38955184T>C	uc002hvh.1	-	2	584	c.518A>G	c.(517-519)GAT>GGT	p.D173G		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	173	Rod.|Coil 1B.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				CCTGAAATCATCAGCAGCCAG	0.318													30	112					0	0	1	0	0		C	38955184	C	C	38955184	3	2	211	1	0	0	0	0	1	0	0	0	8481	1435	50	3	904	3	KRT28	17	38955184	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	169945	38955184	42240026	1488	103367											
KRT20	54474	broad.mit.edu	37	chr17	39034445	39034445	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtaagtagcaatttcctgtTcaagtcgagtctttatgtca	10	15	9	7	1	3	0	2	0	1	0	5	1	4	0	1	1	1	4	1	1	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:39034445T>C	uc002hvl.2	-	6	1133	c.1091A>G	c.(1090-1092)GAA>GGA	p.E364G		NM_019010	NP_061883	P35900	K1C20_HUMAN	keratin 20	364	Rod.|Coil 2.				apoptosis|intermediate filament organization	Golgi apparatus|intermediate filament	protein binding|structural constituent of cytoskeleton			large_intestine(1)|kidney(1)|skin(1)	3		Breast(137;0.000301)|Ovarian(249;0.15)				AATTTCCTGTTCAAGTCGAGT	0.443													46	136					0	0	1	0	0		C	39034445	C	C	39034445	3	2	211	1	0	0	0	0	1	0	0	0	8474	1783	62	3	195	3	KRT20	17	39034445	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	79261	39034445	42160765	1489	103368											
KRT34	3885	broad.mit.edu	37	chr17	39535427	39535427	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgtgttttccagagagtctCgctgtggtggggaagatcag	7	11	16	7	2	2	2	1	0	1	2	4	4	3	3	1	3	0	2	1	3	1	2	rs140889696		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:39535427C>T	uc002hwm.2	-	6	1016	c.1004G>A	c.(1003-1005)CGA>CAA	p.R335Q		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	335	Rod.|Coil 2.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)				CAGAGAGTCTCGCTGTGGTGG	0.547													14	39					0	0	1	0	0		T	39535427	T	T	39535427	3	4	211	1	0	0	0	0	1	0	0	0	8487	898	31	1	314	1	KRT34	17	39535427	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	500982	39535427	41659783	1490	103369											
KRT13	3860	broad.mit.edu	37	chr17	39659656	39659656	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcgcaggccgttgatgtcGgcctccacgctctggcgcag	4	7	15	15	6	1	1	0	1	1	0	3	1	2	1	3	4	0	4	3	4	0	1	rs147005767		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:39659656G>A	uc002hwu.1	-	3	681	c.618C>T	c.(616-618)GCC>GCT	p.A206A	KRT13_uc002hwv.1_Silent_p.A206A|KRT13_uc002hww.2_Silent_p.A99A|KRT13_uc010wfr.1_Silent_p.A99A|KRT13_uc010cxo.2_Silent_p.A206A|KRT13_uc002hwx.1_Silent_p.A194A	NM_153490	NP_705694	P13646	K1C13_HUMAN	keratin 13 isoform a	206	Coil 1B.|Rod.				epidermis development	intermediate filament	structural molecule activity			ovary(2)|skin(2)|pancreas(1)	5		Breast(137;0.000286)				CGTTGATGTCGGCCTCCACGC	0.468													24	69					0	0	1	0	0		A	39659656	A	A	39659656	2	1	211	1	0	0	0	0	0	0	0	1	8466	1103	39	1		1	KRT13	17	39659656	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	124229	39659656	41535554	1491	103370											
KRT9	3857	broad.mit.edu	37	chr17	39728026	39728026	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacccccagatcctccgccGtagctgtagccaaaactgcc	9	6	7	19	2	0	1	0	0	0	1	2	1	2	1	8	0	4	3	8	0	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:39728026G>A	uc002hxe.3	-	1	285	c.219C>T	c.(217-219)TAC>TAT	p.Y73Y	JUP_uc010wfs.1_Intron	NM_000226	NP_000217	P35527	K1C9_HUMAN	keratin 9	73	Head.				intermediate filament organization|skin development		protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Breast(137;0.000307)				ATCCTCCGCCGTAGCTGTAGC	0.418													9	22					0	0	1	0	0		A	39728026	A	A	39728026	2	1	211	1	0	0	0	0	0	0	0	1	8517	1140	40	1		1	KRT9	17	39728026	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	68370	39728026	41467184	1492	103371											
STAT5B	6777	broad.mit.edu	37	chr17	40370880	40370880	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccggttctgccagatgatctCggccaacttctcacacctgc	7	10	8	16	2	3	2	1	1	3	1	5	2	3	2	4	2	3	1	4	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:40370880C>T	uc002hzh.2	-	8	1019	c.850G>A	c.(850-852)GAG>AAG	p.E284K	STAT5B_uc002hzi.3_Missense_Mutation_p.E284K	NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	284	Required for interaction with NMI.				2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		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)	CAGATGATCTCGGCCAACTTC	0.652													15	53					0	0	1	0	0		T	40370880	T	T	40370880	3	4	211	1	0	0	0	0	1	0	0	0	15294	893	31	1	1561	1	STAT5B	17	40370880	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	642854	40370880	40824330	1493	103372											
HSD17B1	3292	broad.mit.edu	37	chr17	40705464	40705464	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgtctccgcagtgtgtaaCgcaggcctgggcctgctggg	4	10	15	12	2	1	0	0	0	1	0	2	0	1	0	3	3	2	4	3	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:40705464C>T	uc002hzw.2	+	3	1241	c.273C>T	c.(271-273)AAC>AAT	p.N91N	HSD17B1_uc002hzx.2_Silent_p.N91N|HSD17B1_uc010wgm.1_RNA|uc002hzy.2_Silent_p.A39A|HSD17B1_uc010cyi.2_Silent_p.N122N	NM_000413	NP_000404	P14061	DHB1_HUMAN	hydroxysteroid (17-beta) dehydrogenase 1	91					estrogen biosynthetic process	cytosol	binding|estradiol 17-beta-dehydrogenase activity				0		all_cancers(22;5.59e-08)|all_epithelial(22;7e-07)|Ovarian(249;0.0261)		BRCA - Breast invasive adenocarcinoma(366;0.129)	NADH(DB00157)	CAGTGTGTAACGCAGGCCTGG	0.672													12	37					0	0	1	0	0		T	40705464	T	T	40705464	2	4	211	1	0	0	0	0	0	0	0	1	7394	535	19	1		1	HSD17B1	17	40705464	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	334584	40705464	40489746	1494	103373											
MLX	6945	broad.mit.edu	37	chr17	40721591	40721591	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaggaggtgtccacgttacGcaaggatgtcaccgccctaa	10	7	13	11	3	1	0	1	0	0	0	2	3	2	3	3	4	1	2	3	4	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:40721591G>A	uc002iag.2	+	6	670	c.605G>A	c.(604-606)CGC>CAC	p.R202H	MLX_uc002iaf.2_Missense_Mutation_p.R148H|MLX_uc002iah.2_Missense_Mutation_p.R118H	NM_170607	NP_733752	Q9UH92	MLX_HUMAN	transcription factor-like protein 4 isoform	202					energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		TCCACGTTACGCAAGGATGTC	0.493													12	43					0	0	1	0	0		A	40721591	A	A	40721591	3	1	211	1	0	0	0	0	1	0	0	0	9653	1087	38	1	627	1	MLX	17	40721591	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	16127	40721591	40473619	1495	103374											
WNK4	65266	broad.mit.edu	37	chr17	40947524	40947524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcccaggggaagccaggctgGcgcccatctctgaaggtaag	9	6	14	12	1	1	1	0	1	1	0	3	2	2	2	3	5	1	2	3	5	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:40947524G>A	uc002ibj.2	+	15	3028	c.3007G>A	c.(3007-3009)GCG>ACG	p.A1003T	WNK4_uc010wgx.1_Missense_Mutation_p.A667T|CCDC56_uc010wgz.1_3'UTR	NM_032387	NP_115763	Q96J92	WNK4_HUMAN	WNK lysine deficient protein kinase 4	1003					intracellular protein kinase cascade	tight junction	ATP binding|protein serine/threonine kinase activity			ovary(3)|skin(3)|stomach(1)	7		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		AGCCAGGCTGGCGCCCATCTC	0.592													44	95					0	0	1	0	0		A	40947524	A	A	40947524	3	1	211	1	0	0	0	0	1	0	0	0	17406	1203	42	2	3065	2	WNK4	17	40947524	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	225933	40947524	40247686	1496	103375											
BECN1	8678	broad.mit.edu	37	chr17	40970692	40970692	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catgatgtcaaaaaggtcccCagtgacctggaagtgtggga	12	8	13	8	0	1	2	1	2	0	0	2	4	2	4	3	3	0	0	3	3	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:40970692C>A	uc002ibo.3	-	6	493	c.358G>T	c.(358-360)GGG>TGG	p.G120W	BECN1_uc010whb.1_Missense_Mutation_p.G33W|BECN1_uc010whc.1_Intron|BECN1_uc002ibn.2_Missense_Mutation_p.G120W	NM_003766	NP_003757	Q14457	BECN1_HUMAN	beclin 1	120					anti-apoptosis|cell cycle|cellular defense response|cytokinesis|response to virus	membrane	protein binding			ovary(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0745)		AAAAGGTCCCCAGTGACCTGG	0.552													15	32					0.000308642	0.000316439	1	1	0		A	40970692	A	A	40970692	3	1	211	1	0	0	0	0	1	0	0	0	1397	594	21	5	1022	5	BECN1	17	40970692	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	23168	40970692	40224518	1497	103376											
SOST	50964	broad.mit.edu	37	chr17	41835927	41835927	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggggaggccgccctccGttctccgcccggttcatggt	2	10	15	14	4	2	0	1	0	1	0	4	1	3	1	5	6	0	2	5	6	0	2	rs17883541		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:41835927G>A	uc002iec.1	-	1	230	c.183C>T	c.(181-183)AAC>AAT	p.N61N		NM_025237	NP_079513	Q9BQB4	SOST_HUMAN	sclerostin precursor	61					negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of ossification|negative regulation of protein complex assembly|negative regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway		heparin binding|protein binding				0		Breast(137;0.00725)		UCEC - Uterine corpus endometrioid carcinoma (308;0.177)|BRCA - Breast invasive adenocarcinoma(366;0.0741)		GCCGCCCTCCGTTCTCCGCCC	0.547													24	30					0	0	1	0	0		A	41835927	A	A	41835927	2	1	211	1	0	0	0	0	0	0	0	1	14963	1136	40	1		1	SOST	17	41835927	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	865235	41835927	39359283	1498	103377											
HDAC5	10014	broad.mit.edu	37	chr17	42169769	42169769	+	Missense_Mutation	SNP	A	G	G	1	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	ccccaggcccggcacctgtgAtctcaacagctctcttctta	7	10	7	17	1	3	1	1	1	3	0	5	1	3	1	4	2	2	2	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:42169769A>G	uc002ifd.1	-	8	1110	c.899T>C	c.(898-900)ATC>ACC	p.I300T	HDAC5_uc002ife.1_Missense_Mutation_p.I300T|HDAC5_uc002iff.1_Missense_Mutation_p.I301T|HDAC5_uc010czp.1_Missense_Mutation_p.I300T|HDAC5_uc002ifh.2_Missense_Mutation_p.I300T	NM_005474	NP_005465	Q9UQL6	HDAC5_HUMAN	histone deacetylase 5 isoform 1	300					B cell differentiation|cellular response to insulin stimulus|chromatin remodeling|chromatin silencing|inflammatory response|negative regulation of cell migration involved in sprouting angiogenesis|negative regulation of myotube differentiation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|transcription, DNA-dependent	cytoplasm|histone deacetylase complex	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein kinase C binding|repressing transcription factor binding			ovary(1)	1		Breast(137;0.00637)|Prostate(33;0.0313)		BRCA - Breast invasive adenocarcinoma(366;0.118)		GGCACCTGTGATCTCAACAGC	0.567													16	41					0	0	1	0	0		G	42169769	G	G	42169769	3	3	211	1	0	0	0	0	1	0	0	0	7026	333	12	3	2549	3	HDAC5	17	42169769	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	333842	42169769	39025441	1499	103378											
ATXN7L3	56970	broad.mit.edu	37	chr17	42272170	42272170	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaataaatccgtacggttcGcctctgctcatctgtgtgct	9	13	8	11	3	3	0	1	0	2	0	5	0	4	0	2	1	3	4	2	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:42272170G>A	uc002iga.2	-	10	794	c.703C>T	c.(703-705)CGA>TGA	p.R235*	ATXN7L3_uc010wiv.1_Nonsense_Mutation_p.R17*|ATXN7L3_uc002ifz.2_Nonsense_Mutation_p.R242*	NM_001098833	NP_001092303	Q14CW9	AT7L3_HUMAN	ataxin 7-like 3 isoform b	235	SCA7.				histone deubiquitination|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	SAGA complex	ligand-dependent nuclear receptor transcription coactivator activity|metal ion binding|protein binding				0		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		CGTACGGTTCGCCTCTGCTCA	0.587													12	26					0	0	1	0	0		A	42272170	A	A	42272170	4	1	211	1	0	0	0	0	0	1	0	0	1219	1095	38	1	352	1	ATXN7L3	17	42272170	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	102401	42272170	38923040	1500	103379											
GPATCH8	23131	broad.mit.edu	37	chr17	42476843	42476843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagctacttgagtaagaacGccgggaggaacgatgcgagg	12	6	16	7	4	0	3	0	2	0	1	0	7	0	5	1	3	5	2	1	3	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:42476843G>A	uc002igw.1	-	8	2666	c.2602C>T	c.(2602-2604)CGT>TGT	p.R868C	GPATCH8_uc002igv.1_Missense_Mutation_p.R790C|GPATCH8_uc010wiz.1_Missense_Mutation_p.R790C	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	868	Ser-rich.					intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		GAGTAAGAACGCCGGGAGGAA	0.537													26	105					0	0	1	0	0		A	42476843	A	A	42476843	3	1	211	1	0	0	0	0	1	0	0	0	6609	1087	38	1	1910	1	GPATCH8	17	42476843	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	204673	42476843	38718367	1501	103380											
GPATCH8	23131	broad.mit.edu	37	chr17	42501727	42501727	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaactcacctgcttgtgtGcatgatcataggagttgata	11	13	9	8	0	2	2	2	2	0	0	2	3	2	3	1	1	4	3	1	1	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:42501727G>T	uc002igw.1	-	6	546	c.482C>A	c.(481-483)GCA>GAA	p.A161E	GPATCH8_uc002igv.1_Missense_Mutation_p.A83E|GPATCH8_uc010wiz.1_Missense_Mutation_p.A83E	NM_001002909	NP_001002909	Q9UKJ3	GPTC8_HUMAN	G patch domain containing 8	161						intracellular	nucleic acid binding|zinc ion binding			ovary(2)|kidney(1)|skin(1)	4		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.206)		CTGCTTGTGTGCATGATCATA	0.383													9	44					0.00010058	0.000103565	1	1	0		T	42501727	T	T	42501727	3	4	211	1	0	0	0	0	1	0	0	0	6609	1319	46	5	4038	5	GPATCH8	17	42501727	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	24884	42501727	38693483	1502	103381											
KIF18B	146909	broad.mit.edu	37	chr17	43011405	43011405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtgcggcagttgcccccGagggagtctttgagcaggcg	6	8	16	11	3	1	1	0	1	1	0	1	3	1	2	2	3	3	3	2	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:43011405G>A	uc010wji.1	-	7	1049	c.948C>T	c.(946-948)CTC>CTT	p.L316L	KIF18B_uc002iht.2_Silent_p.L316L|KIF18B_uc010wjh.1_Silent_p.L316L	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				AGTTGCCCCCGAGGGAGTCTT	0.632													3	17					0	0	1	0	0		A	43011405	A	A	43011405	2	1	211	1	0	0	0	0	0	0	0	1	8297	1045	37	1		1	KIF18B	17	43011405	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	509678	43011405	38183805	1503	103382											
ACBD4	79777	broad.mit.edu	37	chr17	43214761	43214761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aagagcaggttgtgaatggaGatgttggggctgtttcagag	10	11	17	3	0	1	4	1	1	0	3	1	5	1	4	0	4	1	5	0	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:43214761G>A	uc002iid.2	+	6	786	c.442G>A	c.(442-444)GAT>AAT	p.D148N	ACBD4_uc010wjj.1_Missense_Mutation_p.D148N|ACBD4_uc002iie.2_Missense_Mutation_p.D148N|ACBD4_uc002iif.2_Missense_Mutation_p.D148N|ACBD4_uc002iic.2_Missense_Mutation_p.D148N|ACBD4_uc010dae.2_Missense_Mutation_p.D70N	NM_001135707	NP_001129179	Q8NC06	ACBD4_HUMAN	acyl-Coenzyme A binding domain containing 4	148							fatty-acyl-CoA binding			ovary(1)|kidney(1)	2						TGTGAATGGAGATGTTGGGGC	0.612													17	53					0	0	1	0	0		A	43214761	A	A	43214761	3	1	211	1	0	0	0	0	1	0	0	0	124	942	33	4	460	4	ACBD4	17	43214761	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	203356	43214761	37980449	1504	103383											
KPNB1	3837	broad.mit.edu	37	chr17	45755696	45755696	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agactatgacatggtggattAtctgaatgagctaagggaaa	15	10	12	4	0	1	4	0	3	1	1	1	6	1	6	0	3	1	1	0	3	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:45755696A>G	uc002ilt.1	+	19	2606	c.2270A>G	c.(2269-2271)TAT>TGT	p.Y757C	KPNB1_uc010wkw.1_Missense_Mutation_p.Y612C|KPNB1_uc010wkx.1_Missense_Mutation_p.Y541C	NM_002265	NP_002256	Q14974	IMB1_HUMAN	karyopherin beta 1	757					DNA fragmentation involved in apoptotic nuclear change|NLS-bearing substrate import into nucleus|protein import into nucleus, translocation|ribosomal protein import into nucleus|viral genome transport in host cell|viral infectious cycle	cytosol|nuclear pore|nucleoplasm	nuclear localization sequence binding|protein domain specific binding|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3						ATGGTGGATTATCTGAATGAG	0.438													19	36					0	0	1	0	0		G	45755696	G	G	45755696	3	3	211	1	0	0	0	0	1	0	0	0	8451	449	16	3	2344	3	KPNB1	17	45755696	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2540935	45755696	35439514	1505	103384											
NGFR	4804	broad.mit.edu	37	chr17	47587858	47587858	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccaggagcctgaggcacCtccagaacaagacctcatag	13	4	9	15	0	1	3	1	1	0	2	2	4	2	4	5	2	2	1	5	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:47587858C>A	uc002ioz.3	+	4	778	c.653C>A	c.(652-654)CCT>CAT	p.P218H		NM_002507	NP_002498	P08138	TNR16_HUMAN	nerve growth factor receptor precursor	218	Ser/Thr-rich.|Extracellular (Potential).				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|negative regulation of axonogenesis|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|positive regulation of axonogenesis	cell surface|cytosol|endosome|extracellular region|integral to plasma membrane|nucleoplasm				ovary(1)|lung(1)	2	all_cancers(4;1.45e-13)|Breast(4;6.34e-28)|all_epithelial(4;4.95e-17)					CCTGAGGCACCTCCAGAACAA	0.642													4	56					0.0215528	0.021694	1	1	0		A	47587858	A	A	47587858	3	1	211	1	0	0	0	0	1	0	0	0	10415	681	24	5	667	5	NGFR	17	47587858	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1832162	47587858	33607352	1506	103385											
ITGA3	3675	broad.mit.edu	37	chr17	48155490	48155490	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagctgcagctctccacGtgagtgacctcgaaaagcca	10	7	11	13	2	1	2	0	2	1	0	3	3	1	2	3	0	5	4	3	0	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:48155490G>A	uc010dbl.2	+	17	2683	c.2219_splice	c.e17+1	p.T740_splice	ITGA3_uc010dbm.2_Splice_Site_p.T740_splice	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor						blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						AGCTCTCCACGTGAGTGACCT	0.582													20	42					0	0	1	0	0		A	48155490	A	A	48155490	5	1	211	1	0	0	0	0	0	0	1	0	7893	1159	40	1	2286	1	ITGA3	17	48155490	Splice_Site	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	567632	48155490	33039720	1507	103386											
ACSF2	80221	broad.mit.edu	37	chr17	48538177	48538177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagggtcccagaacgagagGccttggtcgtcctccatgaa	10	7	13	11	2	0	4	0	1	0	3	4	5	3	4	4	3	1	0	4	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:48538177G>A	uc002iqu.2	+	2	372	c.268G>A	c.(268-270)GCC>ACC	p.A90T	ACSF2_uc010wml.1_Missense_Mutation_p.A90T|ACSF2_uc010wmm.1_Missense_Mutation_p.A115T|ACSF2_uc010wmn.1_Missense_Mutation_p.A90T|ACSF2_uc010wmo.1_Intron	NM_025149	NP_079425	Q96CM8	ACSF2_HUMAN	acyl-CoA synthetase family member 2 precursor	90					fatty acid metabolic process	mitochondrion	ATP binding|ligase activity				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			AGAACGAGAGGCCTTGGTCGT	0.562													5	19					0	0	1	0	0		A	48538177	A	A	48538177	3	1	211	1	0	0	0	0	1	0	0	0	175	1203	42	2	274	2	ACSF2	17	48538177	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	382687	48538177	32657033	1508	103387											
MYCBPAP	84073	broad.mit.edu	37	chr17	48598516	48598516	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ataccgctacacctgggatcGgagtctgtttctgatctacc	8	12	9	12	2	3	1	0	1	3	0	4	3	3	3	3	2	3	2	3	2	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:48598516G>A	uc010wmr.1	+	8	1253	c.1091G>A	c.(1090-1092)CGG>CAG	p.R364Q	MYCBPAP_uc002iqx.2_Missense_Mutation_p.R364Q|MYCBPAP_uc002iqz.2_RNA	NM_032133	NP_115509	Q8TBZ2	MYBPP_HUMAN	Myc-binding protein-associated protein	327					cell differentiation|multicellular organismal development|spermatogenesis|synaptic transmission	cytoplasm|membrane	protein binding			urinary_tract(2)|skin(2)|ovary(1)|pancreas(1)	6	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;1.23e-09)			ACCTGGGATCGGAGTCTGTTT	0.562													5	20					0	0	1	0	0		A	48598516	A	A	48598516	3	1	211	1	0	0	0	0	1	0	0	0	10037	1116	39	1	1121	1	MYCBPAP	17	48598516	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	60339	48598516	32596694	1509	103388											
SPATA20	64847	broad.mit.edu	37	chr17	48627954	48627954	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatcctgcagtacgtggctCggagcctgagccaccgggtg	6	7	15	13	3	0	1	0	1	0	0	2	2	1	2	4	3	4	4	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:48627954C>T	uc002irf.2	+	9	1249	c.1108C>T	c.(1108-1110)CGG>TGG	p.R370W	SPATA20_uc002irc.2_Missense_Mutation_p.R37W|SPATA20_uc002ire.2_Missense_Mutation_p.R326W|SPATA20_uc002ird.2_Missense_Mutation_p.R386W|SPATA20_uc010wmv.1_Silent_p.L426L|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	370					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			GTACGTGGCTCGGAGCCTGAG	0.612											OREG0024568	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	125					0	0	1	0	0		T	48627954	T	T	48627954	3	4	211	1	0	0	0	0	1	0	0	0	15031	875	31	1	1194	1	SPATA20	17	48627954	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	29438	48627954	32567256	1510	103389											
CACNA1G	8913	broad.mit.edu	37	chr17	48696324	48696324	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggggctctgcacccagcGgcccacgcgagatcagcctc	6	5	12	18	3	2	1	1	0	1	1	3	2	2	1	4	3	3	2	4	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:48696324G>A	uc002irk.1	+	33	6108	c.5736G>A	c.(5734-5736)GCG>GCA	p.A1912A	CACNA1G_uc002irj.1_Silent_p.A1878A|CACNA1G_uc002irl.1_Silent_p.A1889A|CACNA1G_uc002irm.1_Silent_p.A1878A|CACNA1G_uc002irn.1_Silent_p.A1871A|CACNA1G_uc002iro.1_Silent_p.A1878A|CACNA1G_uc002irp.1_Silent_p.A1912A|CACNA1G_uc002irq.1_Silent_p.A1889A|CACNA1G_uc002irr.1_Silent_p.A1912A|CACNA1G_uc002irs.1_Silent_p.A1901A|CACNA1G_uc002irt.1_Silent_p.A1894A|CACNA1G_uc002irv.1_Silent_p.A1901A|CACNA1G_uc002irw.1_Silent_p.A1889A|CACNA1G_uc002iru.1_Silent_p.A1878A|CACNA1G_uc002irx.1_Silent_p.A1825A|CACNA1G_uc002iry.1_Silent_p.A1814A|CACNA1G_uc002irz.1_Silent_p.A1818A|CACNA1G_uc002isa.1_Silent_p.A1791A|CACNA1G_uc002isb.1_Silent_p.A1832A|CACNA1G_uc002isc.1_Silent_p.A1814A|CACNA1G_uc002isd.1_Silent_p.A1800A|CACNA1G_uc002ise.1_Silent_p.A1780A|CACNA1G_uc002isf.1_Silent_p.A1807A|CACNA1G_uc002isg.1_Silent_p.A1773A|CACNA1G_uc002ish.1_Silent_p.A1780A|CACNA1G_uc002isi.1_Silent_p.A1768A	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1912	Cytoplasmic (Potential).				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	TGCACCCAGCGGCCCACGCGA	0.716													10	22					0	0	1	0	0		A	48696324	A	A	48696324	2	1	211	1	0	0	0	0	0	0	0	1	2547	1103	39	1		1	CACNA1G	17	48696324	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	68370	48696324	32498886	1511	103390											
SPAG9	9043	broad.mit.edu	37	chr17	49074033	49074033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctcttttgttctctgcGtgaggctaaactagcttcag	6	16	8	11	1	4	1	1	1	3	0	6	1	4	1	0	1	3	3	0	1	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:49074033G>A	uc002itc.2	-	16	2070	c.1861C>T	c.(1861-1863)CGC>TGC	p.R621C	SPAG9_uc002itb.2_Missense_Mutation_p.R607C|SPAG9_uc002itd.2_Missense_Mutation_p.R611C|SPAG9_uc002itf.2_Missense_Mutation_p.R442C|SPAG9_uc002ita.2_Missense_Mutation_p.R464C|SPAG9_uc002ite.2_Missense_Mutation_p.R451C	NM_001130528	NP_001124000	O60271	JIP4_HUMAN	sperm associated antigen 9 isoform 1	621					positive regulation of cell migration|positive regulation of muscle cell differentiation|retrograde transport, endosome to Golgi|spermatogenesis	acrosomal vesicle|integral to membrane|perinuclear region of cytoplasm				lung(4)|breast(1)	5			BRCA - Breast invasive adenocarcinoma(22;4.24e-07)			TGTTCTCTGCGTGAGGCTAAA	0.408													15	35					0	0	1	0	0		A	49074033	A	A	49074033	3	1	211	1	0	0	0	0	1	0	0	0	15010	1145	40	1	2164	1	SPAG9	17	49074033	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	377709	49074033	32121177	1512	103391											
MTMR4	9110	broad.mit.edu	37	chr17	56585913	56585913	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctccgcctcctgtcgacaaCgtatgtgctcacctgcaaca	8	9	8	16	3	1	0	1	0	0	0	4	1	3	0	4	0	4	4	4	0	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:56585913C>T	uc002iwj.2	-	7	577	c.467G>A	c.(466-468)CGT>CAT	p.R156H		NM_004687	NP_004678	Q9NYA4	MTMR4_HUMAN	myotubularin related protein 4	156	Myotubularin phosphatase.					cytoplasm|membrane	metal ion binding|protein tyrosine phosphatase activity			skin(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CTGTCGACAACGTATGTGCTC	0.547													9	46					0	0	1	0	0		T	56585913	T	T	56585913	3	4	211	1	0	0	0	0	1	0	0	0	9964	536	19	1	3172	1	MTMR4	17	56585913	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	7511880	56585913	24609297	1513	103392											
TEX14	56155	broad.mit.edu	37	chr17	56650604	56650604	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttttgggtgttttgcatgaaGcttccttaaaagagctgtct	8	17	10	6	0	1	2	0	1	1	1	2	2	2	2	1	1	3	4	1	1	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:56650604G>T	uc010dcz.1	-	24	3705	c.3587C>A	c.(3586-3588)GCT>GAT	p.A1196D	TEX14_uc002iwr.1_Missense_Mutation_p.A1190D|TEX14_uc002iws.1_Missense_Mutation_p.A1150D|TEX14_uc010dda.1_Missense_Mutation_p.A930D	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	1196						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TTTGCATGAAGCTTCCTTAAA	0.433													52	164					1.27334e-21	1.39742e-21	1	1	0		T	56650604	T	T	56650604	3	4	211	1	0	0	0	0	1	0	0	0	15803	971	34	5	946	5	TEX14	17	56650604	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	64691	56650604	24544606	1514	103393											
TRIM37	4591	broad.mit.edu	37	chr17	57126657	57126657	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcatgcagacttcttagctCgtgtctccagagcatcatca	10	11	8	12	1	4	2	2	0	2	2	6	2	4	2	1	0	4	4	1	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:57126657C>T	uc002iwy.3	-	15	1856	c.1412G>A	c.(1411-1413)CGA>CAA	p.R471Q	TRIM37_uc002iwz.3_Missense_Mutation_p.R471Q|TRIM37_uc002ixa.3_Missense_Mutation_p.R349Q|TRIM37_uc010woc.1_Missense_Mutation_p.R437Q	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	471						perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					CTTCTTAGCTCGTGTCTCCAG	0.453									Mulibrey_Nanism				23	43					0	0	1	0	0		T	57126657	T	T	57126657	3	4	211	1	0	0	0	0	1	0	0	0	16537	884	31	1	1530	1	TRIM37	17	57126657	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	476053	57126657	24068553	1515	103394											
C17orf71	55181	broad.mit.edu	37	chr17	57287657	57287657	+	Missense_Mutation	SNP	A	G	G	1	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	ggtctttcctctctttcgccAccaagatcctggggatccag	6	12	9	14	1	2	1	0	0	2	1	7	2	5	2	5	3	0	0	5	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:57287657A>G	uc002ixi.2	+	1	287	c.245A>G	c.(244-246)CAC>CGC	p.H82R		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	82					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					CTCTTTCGCCACCAAGATCCT	0.602													8	18					0	0	1	0	0		G	57287657	G	G	57287657	3	3	211	1	0	0	0	0	1	0	0	0	1881	159	6	3	247	3	C17orf71	17	57287657	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	161000	57287657	23907553	1516	103395											
USP32	84669	broad.mit.edu	37	chr17	58260599	58260599	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgtcctcttccccagcCgaactctgcgcatccacttt	7	10	6	18	3	2	0	0	0	2	0	5	1	5	0	5	0	4	2	5	0	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:58260599C>T	uc002iyo.1	-	31	4336	c.4050G>A	c.(4048-4050)TCG>TCA	p.S1350S	USP32_uc002iyn.1_Silent_p.S1020S	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	1350					protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			CTTCCCCAGCCGAACTCTGCG	0.592													20	70					0	0	1	0	0		T	58260599	T	T	58260599	2	4	211	1	0	0	0	0	0	0	0	1	17089	639	23	1		1	USP32	17	58260599	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	972942	58260599	22934611	1517	103396											
MRC2	9902	broad.mit.edu	37	chr17	60767091	60767091	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccgagggctgcgcacGccgctctggattgggctggc	3	7	17	14	4	1	0	0	0	1	0	1	2	1	1	2	4	2	5	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:60767091G>A	uc002jad.2	+	24	3945	c.3543G>A	c.(3541-3543)ACG>ACA	p.T1181T	MRC2_uc002jae.2_Silent_p.T252T|MRC2_uc002jaf.2_Intron	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	1181	Extracellular (Potential).|C-type lectin 7.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GGCTGCGCACGCCGCTCTGGA	0.706													3	3					0	0	1	0	0		A	60767091	A	A	60767091	2	1	211	1	0	0	0	0	0	0	0	1	9776	1074	38	1		1	MRC2	17	60767091	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2506492	60767091	20428119	1518	103397											
TANC2	26115	broad.mit.edu	37	chr17	61498449	61498449	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcttccacagcgaccttcCtcagcataccgaggtggcgt	8	9	10	14	3	2	0	1	0	1	0	4	3	4	0	4	2	3	1	4	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:61498449C>T	uc002jal.3	+	25	5129	c.5106C>T	c.(5104-5106)TCC>TCT	p.S1702S	TANC2_uc010wpe.1_3'UTR|TANC2_uc002jao.3_Silent_p.S813S	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	1702							binding			ovary(2)	2						AGCGACCTTCCTCAGCATACC	0.562													53	153					0	0	1	0	0		T	61498449	T	T	61498449	2	4	211	1	0	0	0	0	0	0	0	1	15570	668	24	4		4	TANC2	17	61498449	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	731358	61498449	19696761	1519	103398											
LIMD2	80774	broad.mit.edu	37	chr17	61776056	61776056	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagaactccccgtgcagcgcGgcgtagctgcccaggctgca	7	6	13	15	4	0	1	0	0	0	1	1	1	1	1	3	2	6	5	3	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:61776056G>A	uc002jbj.3	-	5	418	c.240C>T	c.(238-240)GCC>GCT	p.A80A	LIMD2_uc002jbk.3_Missense_Mutation_p.R82C|LIMD2_uc002jbl.3_Silent_p.A80A	NM_030576	NP_085053	Q9BT23	LIMD2_HUMAN	LIM domain containing 2	80	LIM zinc-binding.						zinc ion binding				0						CGTGCAGCGCGGCGTAGCTGC	0.433													9	52					0	0	1	0	0		A	61776056	A	A	61776056	2	1	211	1	0	0	0	0	0	0	0	1	8815	1103	39	1		1	LIMD2	17	61776056	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	277607	61776056	19419154	1520	103399											
LIMD2	80774	broad.mit.edu	37	chr17	61776626	61776626	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cgggcacttacatgagagggGgtggcctgggcggctcctgc	5	7	18	11	2	0	1	0	1	0	1	1	2	1	1	2	6	2	2	2	6	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:61776626G>T	uc002jbj.3	-	2	211	c.33C>A	c.(31-33)ACC>ACA	p.T11T	LIMD2_uc002jbk.3_5'UTR|LIMD2_uc002jbl.3_Silent_p.T11T	NM_030576	NP_085053	Q9BT23	LIMD2_HUMAN	LIM domain containing 2	11							zinc ion binding				0						CATGAGAGGGGGTGGCCTGGG	0.672													5	27					0.00198382	0.00201759	1	1	0		T	61776626	T	T	61776626	2	4	211	1	0	0	0	0	0	0	0	1	8815	1219	43	5		5	LIMD2	17	61776626	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	570	61776626	19418584	1521	103400											
ERN1	2081	broad.mit.edu	37	chr17	62144199	62144199	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacataaaaggccaccacaGgggaggcgtagttttggatc	13	7	13	8	1	0	1	0	0	0	1	1	3	0	3	2	5	0	2	2	5	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:62144199G>T	uc002jdz.2	-	8	787	c.674C>A	c.(673-675)CCT>CAT	p.P225H		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	225	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						GGCCACCACAGGGGAGGCGTA	0.552													10	21					0.00829132	0.00840463	1	1	0		T	62144199	T	T	62144199	3	4	211	1	0	0	0	0	1	0	0	0	5245	1000	35	5	2319	5	ERN1	17	62144199	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	367573	62144199	19051011	1522	103401											
PRKCA	5578	broad.mit.edu	37	chr17	64683346	64683346	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaaaaaaccaaaaccatccGctccacactaaatccgcagt	17	5	4	15	2	0	0	0	0	0	0	3	0	3	0	5	0	2	3	5	0	7	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:64683346G>A	uc002jfp.1	+	6	691	c.647G>A	c.(646-648)CGC>CAC	p.R216H	PRKCA_uc002jfo.1_Missense_Mutation_p.R87H	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	216	C2.				activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	AAAACCATCCGCTCCACACTA	0.423													29	89					0	0	1	0	0		A	64683346	A	A	64683346	3	1	211	1	0	0	0	0	1	0	0	0	12529	1087	38	1	669	1	PRKCA	17	64683346	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2539147	64683346	16511864	1523	103402											
CACNG1	786	broad.mit.edu	37	chr17	65052273	65052273	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctggtcctttgcctgcgcCtgtgccgccttcatcctcct	1	14	8	18	2	1	0	1	0	0	0	5	0	5	0	8	1	3	0	8	1	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:65052273C>A	uc002jfu.2	+	4	626	c.555C>A	c.(553-555)GCC>GCA	p.A185A		NM_000727	NP_000718	Q06432	CCG1_HUMAN	voltage-dependent calcium channel gamma-1	185	Helical; (Potential).				muscle contraction	voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(12;1.04e-10)|Breast(2;1.45e-16)|all_epithelial(3;4.81e-12)				Amlodipine(DB00381)|Diltiazem(DB00343)|Ibutilide(DB00308)|Lercanidipine(DB00528)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Nitrendipine(DB01054)|Verapamil(DB00661)	TTGCCTGCGCCTGTGCCGCCT	0.602													16	74					4.14922e-12	4.45358e-12	1	1	0		A	65052273	A	A	65052273	2	1	211	1	0	0	0	0	0	0	0	1	2559	668	24	5		5	CACNG1	17	65052273	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	368927	65052273	16142937	1524	103403											
HELZ	9931	broad.mit.edu	37	chr17	65163599	65163599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgtgtgtcacagtcaggccGaagattaagttcttcacagc	10	11	10	10	1	4	1	3	0	1	1	4	2	4	1	1	1	1	1	1	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:65163599G>A	uc010wqk.1	-	14	1931	c.1744C>T	c.(1744-1746)CGG>TGG	p.R582W	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.R582W	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					CAGTCAGGCCGAAGATTAAGT	0.388													17	56					0	0	1	0	0		A	65163599	A	A	65163599	3	1	211	1	0	0	0	0	1	0	0	0	7065	1057	37	1	4164	1	HELZ	17	65163599	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	111326	65163599	16031611	1525	103404											
SLC39A11	201266	broad.mit.edu	37	chr17	70845904	70845904	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggaaggccagtggctgccGccttctttctctgatatgcc	5	12	11	13	1	2	1	0	1	2	0	3	2	2	2	4	3	2	1	4	3	2	3	rs143231715		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:70845904G>A	uc002jjb.2	-	6	606	c.491C>T	c.(490-492)GCG>GTG	p.A164V	SLC39A11_uc002jja.2_Missense_Mutation_p.A157V|SLC39A11_uc002jjc.1_Missense_Mutation_p.A157V	NM_001159770	NP_001153242	Q8N1S5	S39AB_HUMAN	solute carrier family 39, member 11 isoform 1	164					zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)	1						AGTGGCTGCCGCCTTCTTTCT	0.542													15	55					0	0	1	0	0		A	70845904	A	A	70845904	3	1	211	1	0	0	0	0	1	0	0	0	14639	1087	38	1	557	1	SLC39A11	17	70845904	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5682305	70845904	10349306	1526	103405											
CDC42EP4	23580	broad.mit.edu	37	chr17	71282522	71282522	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgtctccggcccggccaaCgtgcatggtgtggcggaagt	5	7	17	12	5	1	0	0	0	1	0	2	1	1	1	3	6	2	1	3	6	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:71282522C>T	uc002jjn.2	-	2	265	c.118G>A	c.(118-120)GTT>ATT	p.V40I	CDC42EP4_uc002jjo.2_Missense_Mutation_p.V40I|CDC42EP4_uc002jjp.1_Missense_Mutation_p.V40I	NM_012121	NP_036253	Q9H3Q1	BORG4_HUMAN	Cdc42 effector protein 4	40	CRIB.				positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|cytoplasm|endomembrane system|membrane|microtubule cytoskeleton	GTP-Rho binding				0			LUSC - Lung squamous cell carcinoma(166;0.0352)|Lung(188;0.0711)			GCCCGGCCAACGTGCATGGTG	0.657													19	57					0	0	1	0	0		T	71282522	T	T	71282522	3	4	211	1	0	0	0	0	1	0	0	0	3081	536	19	1	956	1	CDC42EP4	17	71282522	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	436618	71282522	9912688	1527	103406											
SDK2	54549	broad.mit.edu	37	chr17	71346417	71346417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggcagaaagagttcttgacGgagagccgcctgttgttgag	9	9	15	8	3	1	5	0	2	1	3	1	6	1	5	2	2	1	4	2	2	1	4	rs138003419	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:71346417G>A	uc010dfm.2	-	43	5997	c.5997C>T	c.(5995-5997)TCC>TCT	p.S1999S	SDK2_uc002jjt.3_Silent_p.S1139S	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1999	Cytoplasmic (Potential).				cell adhesion	integral to membrane				ovary(2)	2						AGTTCTTGACGGAGAGCCGCC	0.602													3	12					0	0	1	0	0		A	71346417	A	A	71346417	2	1	211	1	0	0	0	0	0	0	0	1	13994	1103	39	1		1	SDK2	17	71346417	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	63895	71346417	9848793	1528	103407											
RPL38	6169	broad.mit.edu	37	chr17	72205355	72205355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagaaaaataaggacaacGtgaagtttaaagttcgatgc	18	9	9	5	2	1	2	1	1	0	1	2	4	1	3	0	1	2	2	0	1	8	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:72205355G>A	uc002jjz.2	+	4	222	c.94G>A	c.(94-96)GTG>ATG	p.V32M	RPL38_uc002jka.2_Missense_Mutation_p.V32M	NM_000999	NP_000990	P63173	RL38_HUMAN	ribosomal protein L38	32					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	protein binding|RNA binding|structural constituent of ribosome				0						TAAGGACAACGTGAAGTTTAA	0.443													22	86					0	0	1	0	0		A	72205355	A	A	72205355	3	1	211	1	0	0	0	0	1	0	0	0	13616	1145	40	1	104	1	RPL38	17	72205355	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	858938	72205355	8989855	1529	103408											
FADS6	283985	broad.mit.edu	37	chr17	72877353	72877353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatcagggccagcgtccgcaGggctgtcccgagctccacct	7	6	12	16	3	1	0	1	0	0	0	4	1	4	0	5	2	2	3	5	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:72877353G>T	uc002jmd.1	-	4	583	c.571C>A	c.(571-573)CTG>ATG	p.L191M	FADS6_uc010wrn.1_Intron	NM_178128	NP_835229	Q8N9I5	FADS6_HUMAN	fatty acid desaturase domain family, member 6	197					fatty acid biosynthetic process	integral to membrane	oxidoreductase activity				0	all_lung(278;0.172)|Lung NSC(278;0.207)					AGCGTCCGCAGGGCTGTCCCG	0.617													5	9					4.096e-09	4.30621e-09	1	1	0		T	72877353	T	T	72877353	3	4	211	1	0	0	0	0	1	0	0	0	5379	991	35	5	493	5	FADS6	17	72877353	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	671998	72877353	8317857	1530	103409											
USH1G	124590	broad.mit.edu	37	chr17	72916757	72916757	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagatgtcacacttgtcCgggtcacccctgcagggaaa	9	7	10	15	1	2	1	2	0	0	1	3	2	3	2	5	2	1	1	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:72916757C>T	uc002jme.1	-	2	357	c.174G>A	c.(172-174)CCG>CCA	p.P58P	USH1G_uc010wro.1_Intron	NM_173477	NP_775748	Q495M9	USH1G_HUMAN	Usher syndrome 1G protein	58	ANK 1.				equilibrioception|photoreceptor cell maintenance|sensory perception of sound	actin cytoskeleton				skin(2)	2	all_lung(278;0.172)|Lung NSC(278;0.207)					CACACTTGTCCGGGTCACCCC	0.617													9	28					0	0	1	0	0		T	72916757	T	T	72916757	2	4	211	1	0	0	0	0	0	0	0	1	17061	639	23	1		1	USH1G	17	72916757	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	39404	72916757	8278453	1531	103410											
SLC16A5	9121	broad.mit.edu	37	chr17	73094194	73094194	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgaccgtgatgctggggggCgtgctggccagcctgggcat	4	8	19	10	2	0	2	0	2	0	0	0	2	0	2	3	5	3	3	3	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:73094194C>T	uc002jmr.2	+	4	633	c.261C>T	c.(259-261)GGC>GGT	p.G87G	SLC16A5_uc002jms.1_Silent_p.G87G|SLC16A5_uc002jmt.2_Silent_p.G87G|SLC16A5_uc002jmu.2_Silent_p.G87G|SLC16A5_uc010wrt.1_Silent_p.G127G	NM_004695	NP_004686	O15375	MOT6_HUMAN	solute carrier family 16, member 5	87	Helical; (Potential).				organic anion transport	integral to plasma membrane|membrane fraction	secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	TGCTGGGGGGCGTGCTGGCCA	0.602													38	115					0	0	1	0	0		T	73094194	T	T	73094194	2	4	211	1	0	0	0	0	0	0	0	1	14436	755	27	1		1	SLC16A5	17	73094194	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	177437	73094194	8101016	1532	103411											
KIAA0195	9772	broad.mit.edu	37	chr17	73484108	73484108	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctggtccttgcactgggccTacagagacggacacctggtc	7	8	12	14	1	0	1	0	0	0	1	2	3	1	2	4	4	2	1	4	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:73484108T>C	uc002jnz.3	+	6	780	c.505T>C	c.(505-507)TAC>CAC	p.Y169H	KIAA0195_uc010wsa.1_Missense_Mutation_p.Y179H|KIAA0195_uc010wsb.1_5'Flank	NM_014738	NP_055553	Q12767	K0195_HUMAN	hypothetical protein LOC9772	169					ATP biosynthetic process|cation transport	integral to membrane	ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism			ovary(1)	1	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)			GCACTGGGCCTACAGAGACGG	0.582													22	50					0	0	1	0	0		C	73484108	C	C	73484108	3	2	211	1	0	0	0	0	1	0	0	0	8176	1522	53	3	523	3	KIAA0195	17	73484108	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	389914	73484108	7711102	1533	103412											
SAP30BP	29115	broad.mit.edu	37	chr17	73699916	73699916	+	Missense_Mutation	SNP	A	G	G	1	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	tgatccccatggctggtctgAggactcctactatgaggcat	8	11	11	11	0	1	3	0	3	1	0	3	4	3	4	3	4	1	2	3	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:73699916A>G	uc002jpe.2	+	8	632	c.578A>G	c.(577-579)GAG>GGG	p.E193G	SAP30BP_uc002jpc.1_RNA|SAP30BP_uc010wsf.1_Intron|SAP30BP_uc010wsg.1_RNA|SAP30BP_uc002jpf.2_Missense_Mutation_p.E177G	NM_013260	NP_037392	Q9UHR5	S30BP_HUMAN	transcriptional regulator protein	193					apoptosis|induction of apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			ovary(1)	1	all_cancers(13;6.42e-08)		all cancers(21;4.25e-07)|Epithelial(20;9.57e-07)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			GGCTGGTCTGAGGACTCCTAC	0.493													41	144					0	0	1	0	0		G	73699916	G	G	73699916	3	3	211	1	0	0	0	0	1	0	0	0	13859	304	11	3	608	3	SAP30BP	17	73699916	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	215808	73699916	7495294	1534	103413											
SRP68	6730	broad.mit.edu	37	chr17	74035930	74035930	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgcagggaatgggctggaAgcctggtgggaagtgcacaa	10	7	17	7	0	0	0	0	0	0	0	0	3	0	3	1	5	3	3	1	5	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:74035930A>G	uc002jqk.1	-	16	1776	c.1741T>C	c.(1741-1743)TTC>CTC	p.F581L	SRP68_uc010wsu.1_Missense_Mutation_p.F480L|SRP68_uc002jql.1_Missense_Mutation_p.F543L|SRP68_uc002jqj.1_Missense_Mutation_p.F242L	NM_014230	NP_055045	Q9UHB9	SRP68_HUMAN	signal recognition particle 68kDa	581					response to drug	cytosol|endoplasmic reticulum|nucleolus|ribosome|signal recognition particle, endoplasmic reticulum targeting	RNA binding|signal recognition particle binding			ovary(1)	1						ATGGGCTGGAAGCCTGGTGGG	0.532													15	41					0	0	1	0	0		G	74035930	G	G	74035930	3	3	211	1	0	0	0	0	1	0	0	0	15181	72	3	3	146	3	SRP68	17	74035930	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	336014	74035930	7159280	1535	103414											
GALR2	8811	broad.mit.edu	37	chr17	74073109	74073109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgctggatgccccaccacgCgctcatcctctgcgtgtggt	4	10	11	16	3	2	0	1	0	1	0	3	1	3	1	4	2	3	2	4	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:74073109C>T	uc002jqm.1	+	2	842	c.761C>T	c.(760-762)GCG>GTG	p.A254V	ZACN_uc002jqn.2_5'Flank|ZACN_uc002jqo.2_5'Flank|ZACN_uc010dgu.2_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	254	Helical; Name=6; (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						CCCCACCACGCGCTCATCCTC	0.677													14	36					0	0	1	0	0		T	74073109	T	T	74073109	3	4	211	1	0	0	0	0	1	0	0	0	6243	768	27	1	767	1	GALR2	17	74073109	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	37179	74073109	7122101	1536	103415											
SEPT9	10801	broad.mit.edu	37	chr17	75398671	75398671	+	Missense_Mutation	SNP	A	T	T	1	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	ctgaggcgcccaccgcccccAgcccagcccagaccttggag	7	3	11	20	2	0	2	0	1	0	1	0	3	0	3	7	2	2	0	7	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:75398671A>T	uc002jts.3	+	3	733	c.607A>T	c.(607-609)AGC>TGC	p.S203C	SEPT9_uc010wtk.1_Missense_Mutation_p.S184C|SEPT9_uc002jtt.3_Missense_Mutation_p.S39C|SEPT9_uc002jtu.3_Missense_Mutation_p.S185C|SEPT9_uc002jtv.2_Missense_Mutation_p.S196C|SEPT9_uc002jtw.2_Missense_Mutation_p.S39C|SEPT9_uc002jtx.1_Missense_Mutation_p.S39C|SEPT9_uc010wtl.1_5'Flank	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	203					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			CACCGCCCCCAGCCCAGCCCA	0.687													6	26					0	0	1	0	0		T	75398671	T	T	75398671	3	4	211	1	0	0	0	0	1	0	0	0	14096	188	7	5	702	5	SEPT9	17	75398671	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1325562	75398671	5796539	1537	103416											
TMC8	147138	broad.mit.edu	37	chr17	76129604	76129604	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcctgcctgctcctctgcTtctgtgggactctgcggcgg	1	12	14	14	2	3	0	0	0	3	0	4	1	4	1	3	4	4	2	3	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:76129604T>C	uc002jup.2	+	6	1031	c.649T>C	c.(649-651)TTC>CTC	p.F217L	TMC6_uc002jul.1_5'Flank|TMC8_uc002juq.2_5'UTR|TMC8_uc010wtr.1_5'Flank	NM_152468	NP_689681	Q8IU68	TMC8_HUMAN	transmembrane channel-like 8	217	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)|OV - Ovarian serous cystadenocarcinoma(97;0.192)			GCTCCTCTGCTTCTGTGGGAC	0.642									Epidermodysplasia_Verruciformis_Familial_Clustering_of				34	84					0	0	1	0	0		C	76129604	C	C	76129604	3	2	211	1	0	0	0	0	1	0	0	0	16016	1609	56	3	667	3	TMC8	17	76129604	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	730933	76129604	5065606	1538	103417											
DNAH17	8632	broad.mit.edu	37	chr17	76458959	76458959	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgcagcttcatcaggccGttctccagcctctcgatttt	5	14	7	15	2	5	0	2	0	3	0	7	1	5	0	3	1	3	3	3	1	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:76458959G>A	uc010dhp.1	-	2	363	c.141C>T	c.(139-141)AAC>AAT	p.N47N	DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TCATCAGGCCGTTCTCCAGCC	0.582													14	37					0	0	1	0	0		A	76458959	A	A	76458959	2	1	211	1	0	0	0	0	0	0	0	1	4607	1136	40	1		1	DNAH17	17	76458959	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	329355	76458959	4736251	1539	103418											
USP36	57602	broad.mit.edu	37	chr17	76817087	76817087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgtacccggatctccagcgCgacgtccaagtaggggtcgt	7	8	13	13	5	1	0	0	0	1	0	4	2	2	1	3	3	2	2	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:76817087C>T	uc002jvz.1	-	8	1139	c.814G>A	c.(814-816)GCG>ACG	p.A272T	USP36_uc002jwa.1_Missense_Mutation_p.A272T|USP36_uc002jwc.1_5'UTR	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	272					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			ATCTCCAGCGCGACGTCCAAG	0.582													3	16					0	0	1	0	0		T	76817087	T	T	76817087	3	4	211	1	0	0	0	0	1	0	0	0	17093	768	27	1	2609	1	USP36	17	76817087	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	358128	76817087	4378123	1540	103419											
TBC1D16	125058	broad.mit.edu	37	chr17	77984457	77984457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgggtgtgatgtagcgcaggGcctcctcgtcctgcctctgg	3	10	15	13	3	1	1	0	1	1	0	4	1	3	1	4	3	2	2	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:77984457G>A	uc002jxj.2	-	3	397	c.281C>T	c.(280-282)GCC>GTC	p.A94V		NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	94						intracellular	Rab GTPase activator activity				0	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.00739)|BRCA - Breast invasive adenocarcinoma(99;0.0819)			GTAGCGCAGGGCCTCCTCGTC	0.672													3	18					0	0	1	0	0		A	77984457	A	A	77984457	3	1	211	1	0	0	0	0	1	0	0	0	15630	1203	42	2	2062	2	TBC1D16	17	77984457	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1167370	77984457	3210753	1541	103420											
RNF213	57674	broad.mit.edu	37	chr17	78326795	78326795	+	Silent	SNP	T	C	C	0	1	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	agatccaccctcatggtttcTgatgtgaccaggctgcagca	9	10	10	12	0	2	3	1	2	1	1	3	3	3	3	3	2	2	4	3	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:78326795T>C	uc002jyh.1	+	8	4801	c.4578T>C	c.(4576-4578)TCT>TCC	p.S1526S	uc002jyi.1_RNA|RNF213_uc010dhw.1_5'Flank	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			TCATGGTTTCTGATGTGACCA	0.602													25	75					0	0	1	0	0		C	78326795	C	C	78326795	2	2	211	1	0	0	0	0	0	0	0	1	13502	1567	55	3		3	RNF213	17	78326795	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	342338	78326795	2868415	1542	103421											
RNF213	57674	broad.mit.edu	37	chr17	78357574	78357574	+	Missense_Mutation	SNP	T	C	C	0	1	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	aataatatatggtgacccagTgaccttcctgccccacctgc	10	10	7	14	0	0	2	0	2	0	0	1	2	1	2	6	1	2	0	6	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:78357574T>C	uc002jyh.1	+	34	8610	c.8387T>C	c.(8386-8388)GTG>GCG	p.V2796A	uc002jyi.1_Intron|RNF213_uc010dhx.1_5'Flank	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GGTGACCCAGTGACCTTCCTG	0.468													24	45					0	0	1	0	0		C	78357574	C	C	78357574	3	2	211	1	0	0	0	0	1	0	0	0	13502	1696	59	3	14717	3	RNF213	17	78357574	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	30779	78357574	2837636	1543	103422											
BAHCC1	57597	broad.mit.edu	37	chr17	79428094	79428094	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcaagaagctgcgggcccgCgaggccctgttccccgtgca	7	5	14	15	4	0	1	0	0	0	1	1	2	1	1	4	2	4	4	4	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:79428094C>T	uc002kaf.2	+	24	6405	c.6405C>T	c.(6403-6405)CGC>CGT	p.R2135R	BAHCC1_uc002kae.2_Silent_p.R1365R	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	2135							DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			TGCGGGCCCGCGAGGCCCTGT	0.687													7	16					0	0	1	0	0		T	79428094	T	T	79428094	2	4	211	1	0	0	0	0	0	0	0	1	1297	755	27	1		1	BAHCC1	17	79428094	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1070520	79428094	1767116	1544	103423											
HGS	9146	broad.mit.edu	37	chr17	79661855	79661855	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	ttctccccagaactcgtcggCgcctctggctgaggacatcg	6	9	11	15	4	2	2	0	1	2	1	6	3	2	3	3	3	1	1	3	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:79661855C>A	uc002kbg.2	+	12	1024	c.947C>A	c.(946-948)GCG>GAG	p.A316E		NM_004712	NP_004703	O14964	HGS_HUMAN	hepatocyte growth factor-regulated tyrosine	316	Interaction with SNX1 (By similarity).				cellular membrane organization|endosome transport|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of JAK-STAT cascade|regulation of protein catabolic process	cytosol|early endosome membrane|multivesicular body membrane	metal ion binding|protein domain specific binding			ovary(1)	1	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0955)			AACTCGTCGGCGCCTCTGGCT	0.607													28	63					4.22769e-11	4.51304e-11	1	1	0		A	79661855	A	A	79661855	3	1	211	1	0	0	0	0	1	0	0	0	7103	768	27	5	993	5	HGS	17	79661855	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	233761	79661855	1533355	1545	103424											
PYCR1	5831	broad.mit.edu	37	chr17	79893013	79893013	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgggggctggccgaaacGctgacagcttctggaagaga	9	6	15	11	2	1	2	0	1	1	1	1	5	1	3	2	4	2	3	2	4	2	1	rs138195513	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:79893013G>A	uc002kcr.1	-	4	607	c.329C>T	c.(328-330)GCG>GTG	p.A110V	PYCR1_uc002kcq.1_Missense_Mutation_p.A110V|PYCR1_uc002kcp.2_Missense_Mutation_p.A110V|PYCR1_uc002kcs.1_Missense_Mutation_p.A110V|PYCR1_uc010wvd.1_Missense_Mutation_p.A137V|PYCR1_uc002kct.1_Missense_Mutation_p.A110V|PYCR1_uc002kcu.1_Missense_Mutation_p.A110V|PYCR1_uc010wve.1_Missense_Mutation_p.A62V	NM_006907	NP_008838	P32322	P5CR1_HUMAN	pyrroline-5-carboxylate reductase 1 isoform 1	110					cellular response to oxidative stress|proline biosynthetic process	mitochondrial matrix	binding|pyrroline-5-carboxylate reductase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0165)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)		L-Proline(DB00172)|NADH(DB00157)	TGGCCGAAACGCTGACAGCTT	0.647													12	18					0	0	1	0	0		A	79893013	A	A	79893013	3	1	211	1	0	0	0	0	1	0	0	0	12880	1087	38	1	734	1	PYCR1	17	79893013	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	231158	79893013	1302197	1546	103425											
GPS1	2873	broad.mit.edu	37	chr17	80013901	80013901	+	Missense_Mutation	SNP	A	G	G	1	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	tgtcccccagcaacgtggccAtctacggtggcctgtgcgcc	5	8	12	16	3	1	0	0	0	1	0	2	0	2	0	5	3	4	1	5	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:80013901A>G	uc002kdl.1	+	8	916	c.871A>G	c.(871-873)ATC>GTC	p.I291V	GPS1_uc002kdk.1_Missense_Mutation_p.I327V|GPS1_uc010dij.1_Missense_Mutation_p.I326V|GPS1_uc002kdm.1_Missense_Mutation_p.I271V|GPS1_uc002kdn.1_Missense_Mutation_p.I287V|GPS1_uc002kdo.1_Missense_Mutation_p.I290V|GPS1_uc010wvh.1_Missense_Mutation_p.I283V	NM_004127	NP_004118	Q13098	CSN1_HUMAN	G protein pathway suppressor 1 isoform 2	291					cell cycle|cullin deneddylation|inactivation of MAPK activity|JNK cascade	cytoplasm|signalosome	GTPase inhibitor activity|protein binding			central_nervous_system(1)	1	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)			CAACGTGGCCATCTACGGTGG	0.657													8	23					0	0	1	0	0		G	80013901	G	G	80013901	3	3	211	1	0	0	0	0	1	0	0	0	6748	217	8	3	1058	3	GPS1	17	80013901	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	120888	80013901	1181309	1547	103426											
FN3KRP	79672	broad.mit.edu	37	chr17	80680764	80680764	+	Splice_Site	SNP	T	C	C	0	1	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	ctgtggatacctcccccaggTgagtgcacggcgtttgcttc	5	11	12	13	2	0	1	0	1	0	0	2	2	1	2	3	3	3	3	3	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr17:80680764T>C	uc002kfu.2	+	4	518	c.468_splice	c.e4+2	p.Q156_splice	FN3KRP_uc010wvr.1_Splice_Site_p.Q106_splice	NM_024619	NP_078895	Q9HA64	KT3K_HUMAN	fructosamine 3 kinase related protein								kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			CTCCCCCAGGTGAGTGCACGG	0.547													30	55					0	0	1	0	0		C	80680764	C	C	80680764	5	2	211	1	0	0	0	0	0	0	1	0	5978	1710	59	3	484	3	FN3KRP	17	80680764	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	666863	80680764	514446	1548	103427											
TMEM200C	645369	broad.mit.edu	37	chr18	5891793	5891793	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cggtggctgctgcccgcaggCggcagctgcttacccccctc	3	7	13	18	3	0	0	0	0	0	0	1	0	0	0	4	4	5	6	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:5891793C>T	uc002kmx.1	-	1	311	c.270G>A	c.(268-270)CCG>CCA	p.P90P		NM_001080209	NP_001073678	A6NKL6	T200C_HUMAN	transmembrane protein 200C	90						integral to membrane					0						TGCCCGCAGGCGGCAGCTGCT	0.672													14	39					0	0	1	0	0		T	5891793	T	T	5891793	2	4	211	1	0	0	0	0	0	0	0	1	16150	755	27	1		1	TMEM200C	18	5891793	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		5891793	72185455	1549	103428											
KIAA0802	23255	broad.mit.edu	37	chr18	8784282	8784282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcgatgccgagagtgatgCgggcaagaaggagagtgatg	12	5	18	6	3	0	5	0	2	0	3	0	8	0	5	1	2	3	1	1	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:8784282C>T	uc002knr.2	+	6	1314	c.1172C>T	c.(1171-1173)GCG>GTG	p.A391V	KIAA0802_uc002knq.2_Missense_Mutation_p.A391V|KIAA0802_uc010dkw.1_Missense_Mutation_p.A229V	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	742											0						GAGAGTGATGCGGGCAAGAAG	0.662													14	45					0	0	1	0	0		T	8784282	T	T	8784282	3	4	211	1	0	0	0	0	1	0	0	0	8210	768	27	1	1186	1	KIAA0802	18	8784282	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2892489	8784282	69292966	1550	103429											
NAPG	8774	broad.mit.edu	37	chr18	10549069	10549069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcagatgtctgcaactcaccGcttttcaagtacatggacaa	12	11	7	11	1	4	1	3	0	1	1	4	2	4	2	1	1	3	3	1	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:10549069G>A	uc002kon.2	+	11	998	c.771G>A	c.(769-771)CCG>CCA	p.P257P	NAPG_uc010wzr.1_Silent_p.P175P|NAPG_uc002koo.2_Silent_p.P170P|NAPG_uc002kop.2_Silent_p.P170P	NM_003826	NP_003817	Q99747	SNAG_HUMAN	N-ethylmaleimide-sensitive factor attachment	257					cellular membrane fusion|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein complex assembly|protein stabilization	membrane|membrane fraction|mitochondrion	protein binding				0						GCAACTCACCGCTTTTCAAGT	0.433													57	169					0	0	1	0	0		A	10549069	A	A	10549069	2	1	211	1	0	0	0	0	0	0	0	1	10182	1074	38	1		1	NAPG	18	10549069	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1764787	10549069	67528179	1551	103430											
CEP192	55125	broad.mit.edu	37	chr18	13095595	13095595	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcctcttctctcacgggcGgctcgcccgcctctggatca	3	11	9	18	4	6	0	2	0	4	0	9	1	6	1	3	3	0	1	3	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:13095595G>A	uc010xac.1	+	35	6428	c.6348G>A	c.(6346-6348)GCG>GCA	p.A2116A	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Silent_p.A1641A|CEP192_uc002kru.2_RNA|CEP192_uc002krv.2_Silent_p.A538A|CEP192_uc002krw.2_Silent_p.A265A|CEP192_uc002krx.2_Silent_p.A120A|CEP192_uc002kry.2_RNA	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	2116										ovary(4)|pancreas(1)	5						TCTCACGGGCGGCTCGCCCGC	0.542													27	88					0	0	1	0	0		A	13095595	A	A	13095595	2	1	211	1	0	0	0	0	0	0	0	1	3254	1103	39	1		1	CEP192	18	13095595	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2546526	13095595	64981653	1552	103431											
C18orf1	753	broad.mit.edu	37	chr18	13645411	13645411	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagacattgctatgtatagcGggggtccatgcccacccagc	9	9	11	12	1	0	1	0	0	0	1	1	1	1	1	3	2	4	2	3	2	4	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:13645411G>A	uc002ksa.2	+	7	1344	c.676G>A	c.(676-678)GGG>AGG	p.G226R	C18orf1_uc002ksb.2_Missense_Mutation_p.G208R|C18orf1_uc002kse.2_Missense_Mutation_p.G189R|C18orf1_uc002ksf.2_Missense_Mutation_p.G171R|C18orf1_uc002ksg.1_Missense_Mutation_p.G149R|C18orf1_uc002ksh.1_Missense_Mutation_p.G168R|C18orf1_uc002ksi.1_Missense_Mutation_p.G150R	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	226	Cytoplasmic (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		TATGTATAGCGGGGGTCCATG	0.567													24	79					0	0	1	0	0		A	13645411	A	A	13645411	3	1	211	1	0	0	0	0	1	0	0	0	1897	1116	39	1	775	1	C18orf1	18	13645411	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	549816	13645411	64431837	1553	103432											
MC5R	4161	broad.mit.edu	37	chr18	13826187	13826187	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccattgcagtggataggtaCgtcaccatcttctacgccct	8	11	9	13	2	3	0	1	0	2	0	3	1	3	1	3	2	3	2	3	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:13826187C>T	uc010xaf.1	+	1	423	c.423C>T	c.(421-423)TAC>TAT	p.Y141Y		NM_005913	NP_005904	P33032	MC5R_HUMAN	melanocortin 5 receptor	141	Cytoplasmic (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	melanocortin receptor activity|protein binding			ovary(3)|lung(2)|breast(1)	6						TGGATAGGTACGTCACCATCT	0.577													20	105					0	0	1	0	0		T	13826187	T	T	13826187	2	4	211	1	0	0	0	0	0	0	0	1	9385	547	19	1		1	MC5R	18	13826187	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	180776	13826187	64251061	1554	103433											
ESCO1	114799	broad.mit.edu	37	chr18	19154750	19154750	+	Frame_Shift_Del	DEL	T	-	-																															ttctgaattcttatcgtcacTttttttagtaactttggagg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:19154750delT	uc002kth.1	-	4	989	c.55delA	c.(55-57)AGTfs	p.S19fs	ESCO1_uc002kti.1_RNA	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	19					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0						TTATCGTCACTTTTTTTAGTA	0.328													19	31	---	---	---	---						.	-	19154750	-	-	19154750	7	5	211	1	0	1	0	1	0	0	0	0	5256	1609	56	0	2503	0	ESCO1	18	19154750	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	5328563	19154750	58922498	1555	103434											
LAMA3	3909	broad.mit.edu	37	chr18	21461971	21461971	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tactatggcaacgccgtccaCggatcctgcagggcctgccc	7	7	11	16	3	0	0	0	0	0	0	2	1	2	1	5	3	4	2	5	3	3	2	rs144191865		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:21461971C>T	uc002kuq.2	+	40	5270	c.5184C>T	c.(5182-5184)CAC>CAT	p.H1728H	LAMA3_uc002kur.2_Silent_p.H1728H|LAMA3_uc002kus.3_Silent_p.H119H|LAMA3_uc002kut.3_Silent_p.H119H	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1728	Domain III A.|Laminin EGF-like 13.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ACGCCGTCCACGGATCCTGCA	0.458													13	28					0	0	1	0	0		T	21461971	T	T	21461971	2	4	211	1	0	0	0	0	0	0	0	1	8623	535	19	1		1	LAMA3	18	21461971	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2307221	21461971	56615277	1556	103435											
ZNF521	25925	broad.mit.edu	37	chr18	22804544	22804544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccaagcctggtctattcGtgccgggagggacgttaatg	7	9	15	10	3	1	0	0	0	1	0	2	2	1	2	3	4	2	1	3	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:22804544G>A	uc002kvk.2	-	4	3585	c.3338C>T	c.(3337-3339)ACG>ATG	p.T1113M	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.T1113M|ZNF521_uc002kvl.2_Missense_Mutation_p.T893M	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1113					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					TGGTCTATTCGTGCCGGGAGG	0.552			T	PAX5	ALL								17	33					0	0	1	0	0		A	22804544	A	A	22804544	3	1	211	1	0	0	0	0	1	0	0	0	17990	1145	40	1	617	1	ZNF521	18	22804544	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1342573	22804544	55272704	1557	103436											
KCTD1	284252	broad.mit.edu	37	chr18	24039762	24039762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctccgaggtctggggccacaCgcacgacgaggcactcacag	9	4	13	15	4	2	0	1	0	1	0	3	3	3	0	2	4	0	2	2	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:24039762C>T	uc002kvw.2	-	4	997	c.437G>A	c.(436-438)CGT>CAT	p.R146H	KCTD1_uc010xbj.1_Missense_Mutation_p.R754H|KCTD1_uc010xbk.1_Missense_Mutation_p.R146H|KCTD1_uc002kvy.2_Missense_Mutation_p.R64H	NM_001136205	NP_001129677	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain	146					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			TGGGGCCACACGCACGACGAG	0.493													26	82					0	0	1	0	0		T	24039762	T	T	24039762	3	4	211	1	0	0	0	0	1	0	0	0	8112	536	19	1	344	1	KCTD1	18	24039762	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1235218	24039762	54037486	1558	103437											
DSC2	1824	broad.mit.edu	37	chr18	28671067	28671067	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttggagcccatcttctcttgGcgcgccttagaactttttct	5	16	8	12	2	3	1	0	0	3	1	4	2	3	2	2	2	2	0	2	2	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:28671067G>T	uc002kwl.3	-	4	852	c.398C>A	c.(397-399)GCC>GAC	p.A133D	DSC2_uc002kwk.3_Missense_Mutation_p.A133D	NM_024422	NP_077740	Q02487	DSC2_HUMAN	desmocollin 2 isoform Dsc2a preproprotein	133					homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(10;0.0241)			TCTTCTCTTGGCGCGCCTTAG	0.378													10	26					0.000442599	0.000452701	1	1	0		T	28671067	T	T	28671067	3	4	211	1	0	0	0	0	1	0	0	0	4772	1203	42	5	2399	5	DSC2	18	28671067	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4631305	28671067	49406181	1559	103438											
DSG2	1829	broad.mit.edu	37	chr18	29122700	29122700	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggggccacaggcgctatcaTgaccactgaaaccacgaaga	14	4	11	12	2	1	3	1	2	0	1	1	4	1	3	3	3	1	1	3	3	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:29122700T>C	uc002kwu.3	+	14	2407	c.2219T>C	c.(2218-2220)ATG>ACG	p.M740T	uc002kwv.3_Intron	NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	740	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			GGCGCTATCATGACCACTGAA	0.547													28	97					0	0	1	0	0		C	29122700	C	C	29122700	3	2	211	1	0	0	0	0	1	0	0	0	4783	1464	51	3	2273	3	DSG2	18	29122700	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	451633	29122700	48954548	1560	103439											
MEP1B	4225	broad.mit.edu	37	chr18	29797785	29797785	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaaagagaggctccaccCgagacaccatagtcattgct	13	7	10	11	1	1	3	1	1	0	2	2	5	2	3	3	1	1	2	3	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:29797785C>T	uc002kxj.3	+	14	1995	c.1948C>T	c.(1948-1950)CGA>TGA	p.R650*		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	650	Extracellular (Potential).				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						AGGCTCCACCCGAGACACCAT	0.468													8	34					0	0	1	0	0		T	29797785	T	T	29797785	4	4	211	1	0	0	0	0	0	1	0	0	9494	644	23	1	2002	1	MEP1B	18	29797785	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	675085	29797785	48279463	1561	103440											
C18orf34	374864	broad.mit.edu	37	chr18	30792020	30792020	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatagttataaatttgttcCtgtgaagaaagaattccatg	14	15	7	5	0	1	3	1	1	0	2	3	3	3	3	2	0	0	2	2	0	7	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:30792020C>A	uc002kxn.2	-	19	2221	c.2079_splice	c.e19-1	p.K693_splice	C18orf34_uc010dme.1_Splice_Site_p.K207_splice|C18orf34_uc010xbr.1_Splice_Site_p.K693_splice|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Splice_Site_p.K655_splice|C18orf34_uc002kxp.2_Splice_Site_p.K693_splice	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1											ovary(1)	1						AAATTTGTTCCTGTGAAGAAA	0.294													5	11					0.0215528	0.021694	1	1	0		A	30792020	A	A	30792020	5	1	211	1	0	0	0	0	0	0	1	0	1905	695	24	5	541	5	C18orf34	18	30792020	Splice_Site	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	994235	30792020	47285228	1562	103441											
ASXL3	80816	broad.mit.edu	37	chr18	31325236	31325236	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccaaatccagatggtaaGggctacttggcagggactct	10	10	11	10	0	2	1	0	0	2	1	4	2	3	2	2	4	1	3	2	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:31325236G>T	uc010dmg.1	+	12	5479	c.5424G>T	c.(5422-5424)AAG>AAT	p.K1808N	ASXL3_uc002kxq.2_Missense_Mutation_p.K1515N	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1808					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CAGATGGTAAGGGCTACTTGG	0.483													35	100					3.21399e-22	3.5308e-22	1	1	0		T	31325236	T	T	31325236	3	4	211	1	0	0	0	0	1	0	0	0	1069	991	35	5	5470	5	ASXL3	18	31325236	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	533216	31325236	46752012	1563	103442											
SETBP1	26040	broad.mit.edu	37	chr18	42530475	42530475	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcagaacgtgagttctgcCagtaatcctgaaaatgactc	13	9	10	9	1	1	4	0	3	1	1	3	4	2	4	2	1	2	3	2	1	4	2	rs8091231	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:42530475C>T	uc010dni.2	+	4	1466	c.1170C>T	c.(1168-1170)GCC>GCT	p.A390A		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	390						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		TGAGTTCTGCCAGTAATCCTG	0.473									Schinzel-Giedion_syndrome				12	39					0	0	1	0	0		T	42530475	T	T	42530475	2	4	211	1	0	0	0	0	0	0	0	1	14154	581	21	4		4	SETBP1	18	42530475	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	11205239	42530475	35546773	1564	103443											
ATP5A1	498	broad.mit.edu	37	chr18	43667339	43667339	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgtcatagatgatcaaagCatgtttgccattgtctctaa	11	14	8	8	1	3	2	2	1	1	1	5	2	3	2	1	0	2	2	1	0	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:43667339C>G	uc002lbr.1	-	7	1009	c.919G>C	c.(919-921)GCT>CCT	p.A307P	ATP5A1_uc010dnl.1_Missense_Mutation_p.A257P|ATP5A1_uc002lbs.1_Missense_Mutation_p.A257P|ATP5A1_uc002lbt.1_Missense_Mutation_p.A307P	NM_004046	NP_004037	P25705	ATPA_HUMAN	ATP synthase, H+ transporting, mitochondrial F1	307					ATP hydrolysis coupled proton transport|embryo development|lipid metabolic process|negative regulation of endothelial cell proliferation|respiratory electron transport chain	mitochondrial matrix|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism				0						ATGATCAAAGCATGTTTGCCA	0.418													20	74					0	0	1	0	0		G	43667339	G	G	43667339	3	3	211	1	0	0	0	0	1	0	0	0	1148	710	25	5	766	5	ATP5A1	18	43667339	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1136864	43667339	34409909	1565	103444											
RNF165	494470	broad.mit.edu	37	chr18	44015310	44015310	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccatcccagcttcgacttcGgccaactgcagacacctcag	9	8	7	17	2	1	1	1	0	0	1	5	2	3	1	4	1	3	2	4	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:44015310G>A	uc002lcb.1	+	3	487	c.436G>A	c.(436-438)GGC>AGC	p.G146S	RNF165_uc002lby.1_Missense_Mutation_p.G79S|RNF165_uc010dnn.1_Intron	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165	146							zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)		CTTCGACTTCGGCCAACTGCA	0.537													15	46					0	0	1	0	0		A	44015310	A	A	44015310	3	1	211	1	0	0	0	0	1	0	0	0	13481	1116	39	1	446	1	RNF165	18	44015310	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	347971	44015310	34061938	1566	103445											
TCEB3B	51224	broad.mit.edu	37	chr18	44560278	44560278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaagacatggctgggcaccGttttcggcccggcggaatca	9	7	14	11	4	1	2	1	0	0	2	2	3	1	3	2	5	0	3	2	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:44560278G>A	uc002lcr.1	-	1	1711	c.1358C>T	c.(1357-1359)ACG>ATG	p.T453M	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	453					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GCTGGGCACCGTTTTCGGCCC	0.602													24	113					0	0	1	0	0		A	44560278	A	A	44560278	3	1	211	1	0	0	0	0	1	0	0	0	15707	1145	40	1	907	1	TCEB3B	18	44560278	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	544968	44560278	33516970	1567	103446											
KATNAL2	83473	broad.mit.edu	37	chr18	44627353	44627353	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	ctcagagatactcagactggCaaagagagttcgagtctgtc	12	9	11	9	1	3	3	2	0	1	3	5	6	3	3	0	1	1	2	0	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:44627353C>T	uc002lco.2	+	15	1572	c.1378C>T	c.(1378-1380)CAA>TAA	p.Q460*	KATNAL2_uc002lcp.3_Nonsense_Mutation_p.Q387*	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2	532						cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						CTCAGACTGGCAAAGAGAGTT	0.478											OREG0024959	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	31					0	0	1	0	0		T	44627353	T	T	44627353	4	4	211	1	0	0	0	0	0	1	0	0	8002	711	25	2	1432	2	KATNAL2	18	44627353	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	67075	44627353	33449895	1568	103447											
DYM	54808	broad.mit.edu	37	chr18	46783465	46783465	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccaaacaatttgtgtgaaGgtacttgtcctgtgaggaaa	12	12	11	6	0	0	2	0	2	0	0	1	3	1	3	2	2	3	1	2	2	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:46783465G>T	uc002ldi.1	-	13	1740	c.1375C>A	c.(1375-1377)CTT>ATT	p.L459I	DYM_uc010xdf.1_Missense_Mutation_p.L269I|DYM_uc002ldj.3_Missense_Mutation_p.L281I|DYM_uc010dov.1_Missense_Mutation_p.L9I	NM_017653	NP_060123	Q7RTS9	DYM_HUMAN	dymeclin	459						Golgi apparatus					0						TTTGTGTGAAGGTACTTGTCC	0.378													9	37					2.17888e-05	2.25325e-05	1	1	0		T	46783465	T	T	46783465	3	4	211	1	0	0	0	0	1	0	0	0	4846	1000	35	5	654	5	DYM	18	46783465	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2156112	46783465	31293783	1569	103448											
STARD6	147323	broad.mit.edu	37	chr18	51855760	51855760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacaaggatggttataacCgcggatataatttgaagatg	14	10	11	6	2	0	2	0	1	0	1	0	4	0	4	2	3	1	1	2	3	6	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:51855760C>T	uc010xdt.1	-	5	436	c.436G>A	c.(436-438)GGT>AGT	p.G146S		NM_139171	NP_631910	P59095	STAR6_HUMAN	START domain containing protein 6	146	START.				lipid transport		lipid binding			ovary(1)	1				Colorectal(16;0.021)|READ - Rectum adenocarcinoma(59;0.188)		TGGTTATAACCGCGGATATAA	0.308													40	148					0	0	1	0	0		T	51855760	T	T	51855760	3	4	211	1	0	0	0	0	1	0	0	0	15286	652	23	1	233	1	STARD6	18	51855760	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5072295	51855760	26221488	1570	103449											
FECH	2235	broad.mit.edu	37	chr18	55238742	55238742	+	Silent	SNP	T	C	C	0	1	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	tgctcttgaatcttgggggtTcggcgtttggcgatgaatgg	5	14	16	6	3	2	2	0	2	2	0	3	3	2	2	0	5	1	3	0	5	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:55238742T>C	uc002lgq.3	-	4	462	c.345A>G	c.(343-345)CGA>CGG	p.R115R	FECH_uc002lgp.3_Silent_p.R121R|FECH_uc002lgr.3_5'UTR	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	115					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				TCTTGGGGGTTCGGCGTTTGG	0.478													24	85					0	0	1	0	0		C	55238742	C	C	55238742	2	2	211	1	0	0	0	0	0	0	0	1	5822	1770	62	3		3	FECH	18	55238742	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3382982	55238742	22838506	1571	103450											
ZCCHC2	54877	broad.mit.edu	37	chr18	60232310	60232310	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctccactcctcagcatgcCcatggtggtactgtgaaagg	8	10	10	13	0	2	1	1	1	1	0	4	1	3	1	3	3	3	2	3	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:60232310C>T	uc002lip.3	+	11	1827	c.1827C>T	c.(1825-1827)GCC>GCT	p.A609A	ZCCHC2_uc002lio.2_RNA|ZCCHC2_uc002liq.2_Silent_p.A79A	NM_017742	NP_060212	Q9C0B9	ZCHC2_HUMAN	zinc finger, CCHC domain containing 2	609					cell communication	cytoplasm	nucleic acid binding|phosphatidylinositol binding|zinc ion binding			lung(1)|prostate(1)	2						CTCAGCATGCCCATGGTGGTA	0.338													10	26					0	0	1	0	0		T	60232310	T	T	60232310	2	4	211	1	0	0	0	0	0	0	0	1	17612	610	22	4		4	ZCCHC2	18	60232310	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4993568	60232310	17844938	1572	103451											
DSEL	92126	broad.mit.edu	37	chr18	65178220	65178220	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagcatttagtccataaacTttggatatcctaggcgatcc	11	12	8	10	1	0	0	0	0	0	0	3	2	3	1	3	2	2	2	3	2	5	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:65178220T>C	uc002lke.1	-	2	4880	c.3656A>G	c.(3655-3657)AAG>AGG	p.K1219R		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	1209						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				GTCCATAAACTTTGGATATCC	0.353													11	36					0	0	1	0	0		C	65178220	C	C	65178220	3	2	211	1	0	0	0	0	1	0	0	0	4781	1609	56	3	16	3	DSEL	18	65178220	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	4945910	65178220	12899028	1573	103452											
DSEL	92126	broad.mit.edu	37	chr18	65180521	65180521	+	Frame_Shift_Del	DEL	C	-	-																															ctatgtcatacacagctcgtCcccccagcttcccagattta																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:65180521delC	uc002lke.1	-	2	2579	c.1355delG	c.(1354-1356)GGAfs	p.G452fs		NM_032160	NP_115536	Q8IZU8	DSEL_HUMAN	dermatan sulfate epimerase-like	442						integral to membrane	isomerase activity|sulfotransferase activity			ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	6		Esophageal squamous(42;0.129)				CACAGCTCGTCCCCCCAGCTT	0.458													22	49	---	---	---	---						.	-	65180521	-	-	65180521	7	5	211	1	0	1	0	1	0	0	0	0	4781	855	30	0	2317	0	DSEL	18	65180521	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2301	65180521	12896727	1574	103453											
DOK6	220164	broad.mit.edu	37	chr18	67266666	67266666	+	Missense_Mutation	SNP	A	G	G	1	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	tataaccagactgccccgagAgacaaagaagcatgcggtgg	14	5	12	10	2	0	3	0	0	0	3	0	5	0	3	3	2	4	1	3	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:67266666A>G	uc002lkl.2	+	3	411	c.221A>G	c.(220-222)GAG>GGG	p.E74G		NM_152721	NP_689934	Q6PKX4	DOK6_HUMAN	docking protein 6	74	PH.						insulin receptor binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Colorectal(73;0.083)|Esophageal squamous(42;0.131)				CTGCCCCGAGAGACAAAGAAG	0.398													14	51					0	0	1	0	0		G	67266666	G	G	67266666	3	3	211	1	0	0	0	0	1	0	0	0	4707	304	11	3	231	3	DOK6	18	67266666	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2086145	67266666	10810582	1575	103454											
SOCS6	9306	broad.mit.edu	37	chr18	67992757	67992757	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatcttcgtggatcagtccGtgaatggcttgttgattggc	7	14	13	7	2	2	3	1	2	1	1	4	4	3	4	1	3	0	2	1	3	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:67992757G>A	uc002lkr.1	+	2	1169	c.853G>A	c.(853-855)GTG>ATG	p.V285M	SOCS6_uc010dqq.2_Missense_Mutation_p.V285M	NM_004232	NP_004223	O14544	SOCS6_HUMAN	suppressor of cytokine signaling 6	285					defense response|JAK-STAT cascade|negative regulation of signal transduction|regulation of growth	cytoplasm				large_intestine(1)|lung(1)	2		Esophageal squamous(42;0.129)|Colorectal(73;0.152)				GGATCAGTCCGTGAATGGCTT	0.577													12	157					0	0	1	0	0		A	67992757	A	A	67992757	3	1	211	1	0	0	0	0	1	0	0	0	14943	1145	40	1	855	1	SOCS6	18	67992757	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	726091	67992757	10084491	1576	103455											
NETO1	81832	broad.mit.edu	37	chr18	70526084	70526084	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgaaattgtatcgagctGaaaatcccatagattccagc	13	11	9	8	1	0	3	0	2	0	1	3	4	2	3	2	0	2	2	2	0	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:70526084G>T	uc002lkw.2	-	4	730	c.446C>A	c.(445-447)TCA>TAA	p.S149*	NETO1_uc002lkx.1_Nonsense_Mutation_p.S148*|NETO1_uc002lky.1_Nonsense_Mutation_p.S149*|NETO1_uc002lkz.2_Nonsense_Mutation_p.S148*	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	149	CUB 1.|Extracellular (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		GTATCGAGCTGAAAATCCCAT	0.328													12	34					9.05144e-12	9.69604e-12	1	1	0		T	70526084	T	T	70526084	4	4	211	1	0	0	0	0	0	1	0	0	10358	1294	45	5	1192	5	NETO1	18	70526084	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2533327	70526084	7551164	1577	103456											
ZNF407	55628	broad.mit.edu	37	chr18	72344495	72344495	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagggccaggggagtgcccGtcctccggactccgggctgc	4	5	17	15	3	0	0	0	0	0	0	3	2	3	2	5	5	2	2	5	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:72344495G>A	uc002llw.2	+	1	1577	c.1520G>A	c.(1519-1521)CGT>CAT	p.R507H	ZNF407_uc010xfc.1_Missense_Mutation_p.R507H|ZNF407_uc010dqu.1_Missense_Mutation_p.R507H|ZNF407_uc002llu.2_Missense_Mutation_p.R506H	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	507					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		GGGAGTGCCCGTCCTCCGGAC	0.572													25	73					0	0	1	0	0		A	72344495	A	A	72344495	3	1	211	1	0	0	0	0	1	0	0	0	17912	1145	40	1	1522	1	ZNF407	18	72344495	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1818411	72344495	5732753	1578	103457											
ZNF516	9658	broad.mit.edu	37	chr18	74083491	74083491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctttccgcactcgatgcagaCgaactctcctggccgggcct	6	9	10	16	4	1	1	0	0	1	1	4	3	2	1	4	2	2	2	4	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:74083491C>T	uc010dqx.1	-	6	3530	c.3295G>A	c.(3295-3297)GTC>ATC	p.V1099I	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	1099	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		TCGATGCAGACGAACTCTCCT	0.692													7	26					0	0	1	0	0		T	74083491	T	T	74083491	3	4	211	1	0	0	0	0	1	0	0	0	17985	536	19	1	208	1	ZNF516	18	74083491	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1738996	74083491	3993757	1579	103458											
ATP9B	374868	broad.mit.edu	37	chr18	77107848	77107848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaggctgctcatggtgcacGggcggaacagctacaagagg	10	5	16	10	2	1	1	1	0	0	1	1	2	1	2	0	5	5	5	0	5	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:77107848G>A	uc002lmx.2	+	24	2775	c.2761G>A	c.(2761-2763)GGG>AGG	p.G921R	ATP9B_uc002lmw.1_Missense_Mutation_p.G921R|ATP9B_uc002lmz.1_Missense_Mutation_p.G615R|ATP9B_uc002lna.2_5'UTR|ATP9B_uc002lnb.1_Missense_Mutation_p.G41R|ATP9B_uc010drb.2_RNA	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	921	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		CATGGTGCACGGGCGGAACAG	0.607													17	71					0	0	1	0	0		A	77107848	A	A	77107848	3	1	211	1	0	0	0	0	1	0	0	0	1200	1116	39	1	2855	1	ATP9B	18	77107848	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3024357	77107848	969400	1580	103459											
NFATC1	4772	broad.mit.edu	37	chr18	77246402	77246402	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcctcgtggccggcttcccGccctgtccgcagagaagcac	5	7	12	17	4	0	1	0	0	0	1	3	2	2	1	5	2	2	3	5	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr18:77246402G>A	uc010xfg.1	+	9	2700	c.2247G>A	c.(2245-2247)CCG>CCA	p.P749P	NFATC1_uc002lnd.2_Silent_p.P749P|NFATC1_uc002lne.2_Silent_p.P277P|NFATC1_uc010xfh.1_Intron|NFATC1_uc010xfj.1_Silent_p.P277P|NFATC1_uc002lnf.2_Silent_p.P736P|NFATC1_uc002lng.2_Silent_p.P736P|NFATC1_uc010xfk.1_Intron	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	749	Trans-activation domain B (TAD-B).				intracellular signal transduction|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	FK506 binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0157)|Melanoma(33;0.144)		OV - Ovarian serous cystadenocarcinoma(15;3.73e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0257)		CCGGCTTCCCGCCCTGTCCGC	0.672													52	137					0	0	1	0	0		A	77246402	A	A	77246402	2	1	211	1	0	0	0	0	0	0	0	1	10380	1074	38	1		1	NFATC1	18	77246402	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	138554	77246402	830846	1581	103460											
CDC34	997	broad.mit.edu	37	chr19	541398	541398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cggcgtgaaggtgcccaccaCgctggccgagtactgcgtga	7	6	15	13	5	0	2	0	2	0	0	0	3	0	2	3	3	3	2	3	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:541398C>T	uc002lov.2	+	5	756	c.557C>T	c.(556-558)ACG>ATG	p.T186M	GZMM_uc002low.1_5'Flank	NM_004359	NP_004350	P49427	UB2R1_HUMAN	ubiquitin-conjugating enzyme Cdc34	186					DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|negative regulation of cAMP-mediated signaling|proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked ubiquitination	cytoplasm|nucleus	ATP binding|protein binding|ubiquitin-protein ligase activity				0		all_cancers(10;1.94e-35)|all_epithelial(18;5.94e-23)|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)		GTGCCCACCACGCTGGCCGAG	0.687													6	18					0	0	1	0	0		T	541398	T	T	541398	3	4	211	1	0	0	0	0	1	0	0	0	3070	536	19	1	575	1	CDC34	19	541398	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		541398	58587585	1582	103461											
MED16	10025	broad.mit.edu	37	chr19	886015	886015	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtcggccagggccacgcGgccgcgcagccggcacaggc	6	2	17	16	6	0	0	0	0	0	0	1	1	0	0	4	5	1	2	4	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:886015G>A	uc002lqd.1	-	5	785	c.634C>T	c.(634-636)CGC>TGC	p.R212C	MED16_uc010drw.1_Missense_Mutation_p.R37C|MED16_uc002lqe.2_Missense_Mutation_p.R201C|MED16_uc002lqf.2_Missense_Mutation_p.R201C|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Missense_Mutation_p.R201C|MED16_uc010xfx.1_Intron|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	212	WD 2.				androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGGGCCACGCGGCCGCGCAGC	0.716													8	25					0	0	1	0	0		A	886015	A	A	886015	3	1	211	1	0	0	0	0	1	0	0	0	9452	1116	39	1	2047	1	MED16	19	886015	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	344617	886015	58242968	1583	103462											
ABCA7	10347	broad.mit.edu	37	chr19	1058844	1058844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgaggtctctgccactcCtgggagaggaggacgaggat	8	7	18	8	1	1	2	0	1	1	1	3	7	2	5	2	6	1	0	2	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1058844C>A	uc002lqw.3	+	39	5536	c.5305C>A	c.(5305-5307)CTG>ATG	p.L1769M	ABCA7_uc002lqy.2_Missense_Mutation_p.L222M|ABCA7_uc010dsc.2_RNA	NM_019112	NP_061985	Q8IZY2	ABCA7_HUMAN	ATP-binding cassette, sub-family A, member 7	1769					phagocytosis|transmembrane transport	ATP-binding cassette (ABC) transporter complex|endosome membrane|Golgi membrane|integral to membrane|plasma membrane	ATP binding|ATPase activity|transporter activity			pancreas(7)|ovary(1)|central_nervous_system(1)	9		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)		TCTGCCACTCCTGGGAGAGGA	0.597													20	64					8.28177e-16	8.9834e-16	1	1	0		A	1058844	A	A	1058844	3	1	211	1	0	0	0	0	1	0	0	0	37	680	24	5	5455	5	ABCA7	19	1058844	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	172829	1058844	58070139	1584	103463											
HMHA1	23526	broad.mit.edu	37	chr19	1083158	1083158	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggatcgtggaggtggagCaggacaacaagatgaccccc	12	4	15	10	1	0	2	0	1	0	1	1	6	0	6	2	5	2	2	2	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1083158C>T	uc002lqz.1	+	21	2992	c.2761C>T	c.(2761-2763)CAG>TAG	p.Q921*	HMHA1_uc010xgd.1_Nonsense_Mutation_p.Q937*|HMHA1_uc010xge.1_Nonsense_Mutation_p.Q789*|HMHA1_uc002lra.1_Nonsense_Mutation_p.Q761*|HMHA1_uc002lrb.1_Nonsense_Mutation_p.Q804*|HMHA1_uc002lrc.1_Nonsense_Mutation_p.Q556*|HMHA1_uc002lrd.1_5'UTR|HMHA1_uc010dsd.1_Nonsense_Mutation_p.Q27*	NM_012292	NP_036424	Q92619	HMHA1_HUMAN	minor histocompatibility antigen HA-1	921	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding			lung(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GGAGGTGGAGCAGGACAACAA	0.701													5	23					0	0	1	0	0		T	1083158	T	T	1083158	4	4	211	1	0	0	0	0	0	1	0	0	7256	711	25	2	2843	2	HMHA1	19	1083158	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	24314	1083158	58045825	1585	103464											
STK11	6794	broad.mit.edu	37	chr19	1223113	1223113	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgcacggcgcggacgaggaCgaggacctcttcgacatcga	9	5	14	13	7	1	0	0	0	1	0	3	7	1	3	1	4	1	1	1	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1223113C>T	uc002lrl.1	+	8	2165	c.1050C>T	c.(1048-1050)GAC>GAT	p.D350D		NM_000455	NP_000446	Q15831	STK11_HUMAN	serine/threonine protein kinase 11	350					anoikis|cell cycle arrest|energy reserve metabolic process|insulin receptor signaling pathway|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|magnesium ion binding|protein serine/threonine kinase activity	p.0?(19)|p.D350D(1)		lung(174)|cervix(35)|skin(15)|large_intestine(12)|pancreas(6)|gastrointestinal_tract_(site_indeterminate)(5)|stomach(4)|ovary(4)|breast(2)|upper_aerodigestive_tract(1)|testis(1)|liver(1)|biliary_tract(1)|small_intestine(1)|urinary_tract(1)|oesophagus(1)|prostate(1)|kidney(1)	266		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;7.93e-06)|all_lung(49;1.25e-05)|Breast(49;0.000172)|Renal(1328;0.0183)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.00942)|STAD - Stomach adenocarcinoma(1328;0.18)		CGGACGAGGACGAGGACCTCT	0.652		14	D|Mis|N|F|S		NSCLC|pancreatic	jejunal harmartoma|ovarian|testicular|pancreatic			Peutz-Jeghers_syndrome	TSP Lung(3;<1E-08)			7	15					0	0	1	0	0		T	1223113	T	T	1223113	2	4	211	1	0	0	0	0	0	0	0	1	15312	535	19	1		1	STK11	19	1223113	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	139955	1223113	57905870	1586	103465											
MIDN	90007	broad.mit.edu	37	chr19	1257093	1257093	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccgtagaaaggcccggcGggacgcgcggggtccgtacc	6	4	17	14	7	0	1	0	0	0	1	2	2	2	2	4	5	1	3	4	5	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1257093G>A	uc002lrp.2	+	8	1744	c.1229G>A	c.(1228-1230)CGG>CAG	p.R410Q		NM_177401	NP_796375	Q504T8	MIDN_HUMAN	midnolin	410						nucleolus					0		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)		AAGGCCCGGCGGGACGCGCGG	0.721													17	25					0	0	1	0	0		A	1257093	A	A	1257093	3	1	211	1	0	0	0	0	1	0	0	0	9597	1116	39	1	1255	1	MIDN	19	1257093	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	33980	1257093	57871890	1587	103466											
NDUFS7	374291	broad.mit.edu	37	chr19	1390972	1390972	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accgctttggcgtggtcttcCgcgccagcccgcgccagtcc	3	8	12	18	6	1	0	0	0	1	0	3	0	3	0	6	2	1	1	6	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1390972C>T	uc002lse.3	+	5	374	c.331C>T	c.(331-333)CGC>TGC	p.R111C	NDUFS7_uc002lsf.2_Missense_Mutation_p.R175C|NDUFS7_uc002lsh.2_Missense_Mutation_p.R175C|NDUFS7_uc002lsg.2_Missense_Mutation_p.R118C	NM_024407	NP_077718	O75251	NDUS7_HUMAN	NADH-ubiquinone oxidoreductase Fe-S protein 7	111					mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|metal ion binding|NADH dehydrogenase (ubiquinone) activity|protein binding|quinone binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)|Breast(49;0.00186)|Lung NSC(49;0.00292)|all_lung(49;0.00419)		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)	NADH(DB00157)	CGTGGTCTTCCGCGCCAGCCC	0.662													22	50					0	0	1	0	0		T	1390972	T	T	1390972	3	4	211	1	0	0	0	0	1	0	0	0	10316	652	23	1	349	1	NDUFS7	19	1390972	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	133879	1390972	57738011	1588	103467											
APC2	10297	broad.mit.edu	37	chr19	1465252	1465252	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcgtgcggcacgctctggaAcctgtcggcccgcagcgccc	4	5	14	18	7	1	0	0	0	1	0	2	1	1	1	3	3	3	3	3	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1465252A>C	uc002lsr.1	+	15	2160	c.1952A>C	c.(1951-1953)AAC>ACC	p.N651T	APC2_uc002lss.1_Missense_Mutation_p.N233T|APC2_uc002lst.1_Missense_Mutation_p.N651T|APC2_uc002lsu.1_Missense_Mutation_p.N650T|C19orf25_uc010xgn.1_Intron	NM_005883	NP_005874	O95996	APC2_HUMAN	adenomatosis polyposis coli 2	651	ARM 5.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|Wnt receptor signaling pathway	actin filament|catenin complex|cytoplasmic microtubule|Golgi membrane|lamellipodium membrane|perinuclear region of cytoplasm	beta-catenin binding|microtubule binding			breast(3)|pancreas(1)	4		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACGCTCTGGAACCTGTCGGCC	0.642													11	28					0	0	1	0	0		C	1465252	C	C	1465252	3	2	211	1	0	0	0	0	1	0	0	0	764	43	2	5	2006	5	APC2	19	1465252	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	74280	1465252	57663731	1589	103468											
PCSK4	54760	broad.mit.edu	37	chr19	1488257	1488257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttcacccgccgctgcagcGtctgctgctggaaccactgc	5	9	11	16	3	2	0	1	0	1	0	2	1	2	1	3	1	6	5	3	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1488257G>A	uc002ltb.1	-	3	379	c.317C>T	c.(316-318)ACG>ATG	p.T106M	PCSK4_uc002lta.2_Translation_Start_Site|REEP6_uc010xgp.1_5'Flank|REEP6_uc002ltc.2_5'Flank	NM_017573	NP_060043	Q6UW60	PCSK4_HUMAN	proprotein convertase subtilisin/kexin type 4	106					proteolysis	integral to membrane	serine-type endopeptidase activity				0		Acute lymphoblastic leukemia(61;3.02e-13)|all_hematologic(61;4.32e-09)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGCTGCAGCGTCTGCTGCTG	0.672													11	19					0	0	1	0	0		A	1488257	A	A	1488257	3	1	211	1	0	0	0	0	1	0	0	0	11621	1145	40	1	2002	1	PCSK4	19	1488257	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	23005	1488257	57640726	1590	103469											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1506232	1506232	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgtgcccgcagtggcgagcGgttcttgtagacgagctgga	6	8	17	10	5	1	1	0	0	1	1	1	4	1	2	1	3	3	4	1	3	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1506232G>A	uc002ltd.2	-	12	1642	c.1198C>T	c.(1198-1200)CGC>TGC	p.R400C	ADAMTSL5_uc010dsl.2_Missense_Mutation_p.R169C|ADAMTSL5_uc010xgq.1_Missense_Mutation_p.R410C	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5 precursor	400	NTR.					proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGTGGCGAGCGGTTCTTGTAG	0.677													16	34					0	0	1	0	0		A	1506232	A	A	1506232	3	1	211	1	0	0	0	0	1	0	0	0	278	1116	39	1	221	1	ADAMTSL5	19	1506232	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	17975	1506232	57622751	1591	103470											
MBD3	53615	broad.mit.edu	37	chr19	1592581	1592581	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttctgggcacttcttccCtctcccagccctgcgggagc	4	10	9	18	1	3	0	0	0	3	0	5	1	4	1	4	2	3	1	4	2	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1592581C>A	uc002ltl.1	-	1	72	c.50G>T	c.(49-51)AGG>ATG	p.R17M	MBD3_uc002ltj.2_Missense_Mutation_p.R17M|MBD3_uc002ltk.2_Intron	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	17	MBD.				transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		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)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		CACTTCTTCCCTCTCCCAGCC	0.577													8	13					9.70103e-10	1.0249e-09	1	1	0		A	1592581	A	A	1592581	3	1	211	1	0	0	0	0	1	0	0	0	9362	681	24	5	849	5	MBD3	19	1592581	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	86349	1592581	57536402	1592	103471											
KLF16	83855	broad.mit.edu	37	chr19	1854753	1854753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccagtcacaagcaaaagggCgttcccctggacggagagac	12	4	13	12	2	1	1	1	0	0	1	2	4	2	3	3	3	1	2	3	3	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1854753C>T	uc002luc.2	-	2	532	c.464G>A	c.(463-465)CGC>CAC	p.R155H	KLF16_uc010xgt.1_RNA	NM_031918	NP_114124	Q9BXK1	KLF16_HUMAN	BTE-binding protein 4	155						nucleus	DNA binding|zinc ion binding				0		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)		AGCAAAAGGGCGTTCCCCTGG	0.657													10	39					0	0	1	0	0		T	1854753	T	T	1854753	3	4	211	1	0	0	0	0	1	0	0	0	8360	768	27	1	298	1	KLF16	19	1854753	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	262172	1854753	57274230	1593	103472											
ADAT3	113179	broad.mit.edu	37	chr19	1912913	1912913	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaactggacgcagacgaggaCggcctcccctacctgtgcac	10	5	11	15	3	0	1	0	0	0	1	1	4	1	3	4	3	3	2	4	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1912913C>T	uc002luh.2	+	2	1047	c.819C>T	c.(817-819)GAC>GAT	p.D273D	SCAMP4_uc002lui.1_Intron|SCAMP4_uc002luj.2_Intron|SCAMP4_uc002luk.2_Intron|SCAMP4_uc010dss.2_Intron	NM_138422	NP_612431	Q96EY9	ADAT3_HUMAN	tRNA-specific adenosine deaminase 3	273					tRNA processing		hydrolase activity|zinc ion binding			breast(1)|skin(1)	2		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)		CAGACGAGGACGGCCTCCCCT	0.706													19	56					0	0	1	0	0		T	1912913	T	T	1912913	2	4	211	1	0	0	0	0	0	0	0	1	286	535	19	1		1	ADAT3	19	1912913	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	58160	1912913	57216070	1594	103473											
BTBD2	55643	broad.mit.edu	37	chr19	1990129	1990129	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactcggcctcggaccagcGgacaacggcattgaacagcc	11	4	11	15	4	0	1	0	1	0	0	2	3	0	3	3	4	4	1	3	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:1990129G>A	uc002lup.1	-	5	862	c.862C>T	c.(862-864)CGC>TGC	p.R288C	BTBD2_uc002luo.1_5'UTR	NM_017797	NP_060267	Q9BX70	BTBD2_HUMAN	BTB (POZ) domain containing 2	288						cytoplasmic mRNA processing body	protein binding			ovary(1)|skin(1)	2		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)		TCGGACCAGCGGACAACGGCA	0.657													6	18					0	0	1	0	0		A	1990129	A	A	1990129	3	1	211	1	0	0	0	0	1	0	0	0	1546	1116	39	1	735	1	BTBD2	19	1990129	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	77216	1990129	57138854	1595	103474											
JSRP1	126306	broad.mit.edu	37	chr19	2255290	2255290	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggccgccatccagctcctcCcaggctctggttgtcatgga	6	9	11	15	1	2	0	1	0	1	0	5	1	5	1	5	4	1	3	5	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:2255290C>T	uc002lvi.1	-	1	59	c.24G>A	c.(22-24)TGG>TGA	p.W8*	JSRP1_uc002lvj.1_Nonsense_Mutation_p.W8*	NM_144616	NP_653217	Q96MG2	JSPR1_HUMAN	junctional sarcoplasmic reticulum protein 1	8	Mediates interaction with CACNA1S (By similarity).					sarcoplasmic reticulum membrane				pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCTCCTCCCAGGCTCTGG	0.652													11	23					0	0	1	0	0		T	2255290	T	T	2255290	4	4	211	1	0	0	0	0	0	1	0	0	7982	624	22	4	995	4	JSRP1	19	2255290	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	265161	2255290	56873693	1596	103475											
LMNB2	84823	broad.mit.edu	37	chr19	2431600	2431600	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcttcctcctcctcttcctcCccattctcattctcacgcat	4	15	2	20	1	3	0	2	0	3	0	10	0	8	0	6	0	0	2	6	0	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:2431600C>T	uc002lvy.2	-	11	1794	c.1707G>A	c.(1705-1707)GGG>GGA	p.G569G	LMNB2_uc010dtc.1_5'Flank|LMNB2_uc002lwa.1_Silent_p.G589G	NM_032737	NP_116126	Q03252	LMNB2_HUMAN	lamin B2	569	Tail.					nuclear inner membrane	structural molecule activity			large_intestine(1)|ovary(1)	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)		CCTCTTCCTCCCCATTCTCAT	0.627													42	152					0	0	1	0	0		T	2431600	T	T	2431600	2	4	211	1	0	0	0	0	0	0	0	1	8867	610	22	4		4	LMNB2	19	2431600	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	176310	2431600	56697383	1597	103476											
TLE2	7089	broad.mit.edu	37	chr19	3009627	3009627	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcacggagaggtctccGttgagagtgctgtgggagcc	6	8	18	9	2	1	2	0	1	1	2	2	5	1	3	2	4	2	3	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:3009627G>A	uc002lww.2	-	13	1349	c.1086C>T	c.(1084-1086)AAC>AAT	p.N362N	TLE2_uc010xhb.1_Intron|TLE2_uc010dth.2_Silent_p.N363N|TLE2_uc010xhc.1_Silent_p.N240N|TLE2_uc010dti.2_Silent_p.N376N|TLE2_uc010xhd.1_Silent_p.N270N	NM_003260	NP_003251	Q04725	TLE2_HUMAN	transducin-like enhancer protein 2 isoform 1	362	Pro/Ser-rich.				negative regulation of canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|organ morphogenesis|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	protein binding|transcription corepressor activity				0				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)		AGAGGTCTCCGTTGAGAGTGC	0.647													15	32					0	0	1	0	0		A	3009627	A	A	3009627	2	1	211	1	0	0	0	0	0	0	0	1	15964	1136	40	1		1	TLE2	19	3009627	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	578027	3009627	56119356	1598	103477											
NCLN	56926	broad.mit.edu	37	chr19	3193377	3193377	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctgctgtctatctacaaGcagacccaggctgcctccgc	7	8	9	17	1	2	1	0	0	2	1	3	1	3	1	4	1	4	3	4	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:3193377G>T	uc002lxi.2	+	3	625	c.471G>T	c.(469-471)AAG>AAT	p.K157N	NCLN_uc002lxh.1_RNA	NM_020170	NP_064555	Q969V3	NCLN_HUMAN	nicalin precursor	157	Lumenal (Potential).				proteolysis|regulation of signal transduction	endoplasmic reticulum membrane|integral to membrane|nucleus	peptidase activity|protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.83e-113)|Epithelial(107;1.65e-111)|all cancers(105;1.53e-103)|BRCA - Breast invasive adenocarcinoma(158;0.00139)|STAD - Stomach adenocarcinoma(1328;0.18)		CTATCTACAAGCAGACCCAGG	0.667													13	34					9.31168e-06	9.66205e-06	1	1	0		T	3193377	T	T	3193377	3	4	211	1	0	0	0	0	1	0	0	0	10246	962	34	5	481	5	NCLN	19	3193377	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	183750	3193377	55935606	1599	103478											
DOHH	83475	broad.mit.edu	37	chr19	3496774	3496774	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcttggggtccaccagCgtctgcccgatggcatccac	5	8	13	15	2	1	0	0	0	1	0	3	1	3	0	4	4	3	3	4	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:3496774C>T	uc002lxs.2	-	2	202	c.39G>A	c.(37-39)ACG>ACA	p.T13T	DOHH_uc010xhl.1_Silent_p.T13T	NM_031304	NP_112594	Q9BU89	DOHH_HUMAN	deoxyhypusine hydroxylase/monooxygenase	13					peptidyl-lysine modification to hypusine|post-translational protein modification	cytosol	deoxyhypusine monooxygenase activity|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTCCACCAGCGTCTGCCCGA	0.687													9	47					0	0	1	0	0		T	3496774	T	T	3496774	2	4	211	1	0	0	0	0	0	0	0	1	4701	755	27	1		1	DOHH	19	3496774	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	303397	3496774	55632209	1600	103479											
C19orf28	126321	broad.mit.edu	37	chr19	3544813	3544813	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggccaggactcacagcgtcGcaggcgggtcggccacagca	8	3	16	14	4	1	0	1	0	0	0	3	1	1	1	2	5	2	2	2	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:3544813G>A	uc002lxz.2	-	9	1584	c.1414C>T	c.(1414-1416)CGA>TGA	p.R472*	C19orf28_uc002lxw.2_Nonsense_Mutation_p.R472*|C19orf28_uc002lxx.2_Nonsense_Mutation_p.R472*|C19orf28_uc002lxy.2_Nonsense_Mutation_p.R463*	NM_174983	NP_778148	Q6NUT3	CS028_HUMAN	hypothetical protein LOC126321 isoform c	472					transmembrane transport	integral to membrane				breast(1)|pancreas(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00251)|STAD - Stomach adenocarcinoma(1328;0.18)		TCACAGCGTCGCAGGCGGGTC	0.672											OREG0025153	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	17	40					0	0	1	0	0		A	3544813	A	A	3544813	4	1	211	1	0	0	0	0	0	1	0	0	1920	1095	38	1	243	1	C19orf28	19	3544813	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	48039	3544813	55584170	1601	103480											
C19orf29	58509	broad.mit.edu	37	chr19	3613518	3613518	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaacagcggctcgctctcCacgccctgctcctgcttcag	5	8	11	17	3	2	0	1	0	1	0	5	1	3	1	3	2	4	4	3	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:3613518C>A	uc002lyh.2	-	8	1475	c.1422G>T	c.(1420-1422)GTG>GTT	p.V474V	C19orf29_uc010xho.1_5'UTR|C19orf29_uc010dtn.2_Silent_p.V322V|C19orf29_uc002lyi.3_Silent_p.V474V|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	474						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GCTCGCTCTCCACGCCCTGCT	0.706													5	14					0.014758	0.0149105	1	1	0		A	3613518	A	A	3613518	2	1	211	1	0	0	0	0	0	0	0	1	1921	581	21	5		5	C19orf29	19	3613518	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	68705	3613518	55515465	1602	103481											
PIAS4	51588	broad.mit.edu	37	chr19	4037657	4037657	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcccgcccccagcgtcaaCgggagcggtgccctgggcag	5	4	15	17	4	1	0	1	0	0	0	1	1	1	1	4	3	5	1	4	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4037657C>T	uc002lzg.2	+	11	1327	c.1317C>T	c.(1315-1317)AAC>AAT	p.N439N		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	439					positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CCAGCGTCAACGGGAGCGGTG	0.682													16	33					0	0	1	0	0		T	4037657	T	T	4037657	2	4	211	1	0	0	0	0	0	0	0	1	11897	535	19	1		1	PIAS4	19	4037657	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	424139	4037657	55091326	1603	103482											
ZBTB7A	51341	broad.mit.edu	37	chr19	4054897	4054897	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcggggatctccagcaggcGggcggcgctgaggatgtcac	6	5	19	11	4	2	1	1	1	1	0	3	3	2	3	1	7	1	2	1	7	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4054897G>A	uc002lzh.2	-	2	409	c.334C>T	c.(334-336)CGC>TGC	p.R112C	ZBTB7A_uc002lzi.2_Missense_Mutation_p.R112C	NM_015898	NP_056982	O95365	ZBT7A_HUMAN	zinc finger and BTB domain containing 7A	112					cell differentiation|multicellular organismal development|transcription, DNA-dependent	nucleus	DNA binding|histone acetyltransferase binding|zinc ion binding			pancreas(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.014)|STAD - Stomach adenocarcinoma(1328;0.18)		TCCAGCAGGCGGGCGGCGCTG	0.721													10	12					0	0	1	0	0		A	4054897	A	A	4054897	3	1	211	1	0	0	0	0	1	0	0	0	17578	1116	39	1	1428	1	ZBTB7A	19	4054897	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	17240	4054897	55074086	1604	103483											
ANKRD24	170961	broad.mit.edu	37	chr19	4207271	4207271	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctctcctgctcagaggtgCtctgctcctttaaggcacat	6	13	9	13	0	3	1	1	0	2	1	6	1	5	1	2	2	3	4	2	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4207271C>A	uc010dtt.1	+	8	775	c.499C>A	c.(499-501)CTC>ATC	p.L167I	ANKRD24_uc002lzs.2_Missense_Mutation_p.L138I|ANKRD24_uc002lzt.2_Missense_Mutation_p.L139I	NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	167	ANK 3.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		CTCAGAGGTGCTCTGCTCCTT	0.408											OREG0025162	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	36					1.12685e-05	1.16812e-05	1	1	0		A	4207271	A	A	4207271	3	1	211	1	0	0	0	0	1	0	0	0	653	797	28	5	525	5	ANKRD24	19	4207271	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	152374	4207271	54921712	1605	103484											
EBI3	10148	broad.mit.edu	37	chr19	4234811	4234811	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagcgtcagggagctgcgcGcttccaccgggtgaggagga	8	5	17	11	4	1	1	1	1	0	0	2	4	2	4	2	4	3	2	2	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4234811G>A	uc002lzu.2	+	4	535	c.527G>A	c.(526-528)CGC>CAC	p.R176H		NM_005755	NP_005746	Q14213	IL27B_HUMAN	Epstein-Barr virus induced 3 precursor	176	Fibronectin type-III 2.				humoral immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of interferon-gamma biosynthetic process|T-helper 1 type immune response	extracellular space|plasma membrane	cytokine activity|cytokine receptor activity				0		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)		GGAGCTGCGCGCTTCCACCGG	0.607													37	121					0	0	1	0	0		A	4234811	A	A	4234811	3	1	211	1	0	0	0	0	1	0	0	0	4889	1087	38	1	541	1	EBI3	19	4234811	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	27540	4234811	54894172	1606	103485											
SH3GL1	6455	broad.mit.edu	37	chr19	4363850	4363850	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtagtcaaagtccaggcggCggccctccagtttcttcagg	7	10	12	12	2	3	0	2	0	1	0	5	0	5	0	3	4	0	2	3	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4363850C>T	uc002maj.2	-	6	597	c.491G>A	c.(490-492)CGC>CAC	p.R164H	SH3GL1_uc002mak.2_Missense_Mutation_p.R100H|SH3GL1_uc010xig.1_Missense_Mutation_p.R116H	NM_003025	NP_003016	Q99961	SH3G1_HUMAN	SH3-domain GRB2-like 1	164	Potential.|BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	lipid binding|protein binding			ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0152)|STAD - Stomach adenocarcinoma(1328;0.182)		GTCCAGGCGGCGGCCCTCCAG	0.627			T	MLL	AL								23	71					0	0	1	0	0		T	4363850	T	T	4363850	3	4	211	1	0	0	0	0	1	0	0	0	14275	768	27	1	635	1	SH3GL1	19	4363850	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	129039	4363850	54765133	1607	103486											
CHAF1A	10036	broad.mit.edu	37	chr19	4433182	4433182	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaaccacaccggcagcccGcggagcccctccaccaccta	10	2	8	21	3	0	0	0	0	0	0	1	1	1	1	8	2	4	2	8	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4433182G>A	uc002mal.2	+	13	2419	c.2319G>A	c.(2317-2319)CCG>CCA	p.P773P		NM_005483	NP_005474	Q13111	CAF1A_HUMAN	chromatin assembly factor 1, subunit A (p150)	773	Binds to p60.				cell cycle|DNA repair|DNA replication|DNA replication-dependent nucleosome assembly|protein complex assembly|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|WINAC complex	chromatin binding|chromo shadow domain binding|unfolded protein binding			ovary(1)|skin(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0148)|STAD - Stomach adenocarcinoma(1328;0.18)		CCGGCAGCCCGCGGAGCCCCT	0.662								Chromatin_Structure					20	68					0	0	1	0	0		A	4433182	A	A	4433182	2	1	211	1	0	0	0	0	0	0	0	1	3314	1074	38	1		1	CHAF1A	19	4433182	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	69332	4433182	54695801	1608	103487											
HDGFRP2	84717	broad.mit.edu	37	chr19	4499549	4499549	+	Missense_Mutation	SNP	T	G	G	0	1	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	agcagaagtctatacccggcTcaagtcgcgggtcctcggcc	8	7	12	14	4	2	1	1	0	1	1	5	1	3	1	3	3	2	2	3	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4499549T>G	uc002mao.2	+	14	1730	c.1637T>G	c.(1636-1638)CTC>CGC	p.L546R	HDGFRP2_uc002map.2_Missense_Mutation_p.L546R|HDGFRP2_uc010dtz.1_RNA|HDGFRP2_uc010dua.2_Missense_Mutation_p.L11R|HDGFRP2_uc002maq.1_Missense_Mutation_p.L11R	NM_001001520	NP_001001520	Q7Z4V5	HDGR2_HUMAN	hepatoma-derived growth factor-related protein 2	546	Potential.				transcription, DNA-dependent	nucleus	DNA binding|protein binding				0						TATACCCGGCTCAAGTCGCGG	0.363													11	17					0	0	1	0	0		G	4499549	G	G	4499549	3	3	211	1	0	0	0	0	1	0	0	0	7036	1551	54	5	1691	5	HDGFRP2	19	4499549	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	66367	4499549	54629434	1609	103488											
TICAM1	148022	broad.mit.edu	37	chr19	4817841	4817841	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctccagtccgaaacaccGtcaatggggcgtgggaggct	8	7	15	11	3	1	0	1	0	0	0	3	2	3	1	3	5	1	2	3	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:4817841G>A	uc002mbi.2	-	2	800	c.549C>T	c.(547-549)GAC>GAT	p.D183D		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	183					apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CCGAAACACCGTCAATGGGGC	0.647													33	77					0	0	1	0	0		A	4817841	A	A	4817841	2	1	211	1	0	0	0	0	0	0	0	1	15917	1136	40	1		1	TICAM1	19	4817841	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	318292	4817841	54311142	1610	103489											
PTPRS	5802	broad.mit.edu	37	chr19	5221061	5221061	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatacaccatgatgaagccGtcagcatcaggcttgggggc	11	7	13	10	1	2	3	2	2	0	1	2	3	2	3	2	3	3	2	2	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:5221061G>A	uc002mbv.2	-	20	3639	c.3405C>T	c.(3403-3405)GAC>GAT	p.D1135D	PTPRS_uc002mbu.1_Silent_p.D704D|PTPRS_uc010xin.1_Silent_p.D704D|PTPRS_uc002mbw.2_Silent_p.D1113D|PTPRS_uc002mbx.2_Silent_p.D708D|PTPRS_uc002mby.2_Silent_p.D704D	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1135	Extracellular (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		TGATGAAGCCGTCAGCATCAG	0.612													31	121					0	0	1	0	0		A	5221061	A	A	5221061	2	1	211	1	0	0	0	0	0	0	0	1	12836	1136	40	1		1	PTPRS	19	5221061	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	403220	5221061	53907922	1611	103490											
PTPRS	5802	broad.mit.edu	37	chr19	5222792	5222792	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacttggaggtcataggccGtgtcgggcttcaggccctgc	5	9	15	12	2	2	0	2	0	0	0	3	1	2	1	2	5	1	2	2	5	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:5222792G>A	uc002mbv.2	-	18	3245	c.3011C>T	c.(3010-3012)ACG>ATG	p.T1004M	PTPRS_uc002mbu.1_Intron|PTPRS_uc010xin.1_Intron|PTPRS_uc002mbw.2_Missense_Mutation_p.T982M|PTPRS_uc002mbx.2_Intron|PTPRS_uc002mby.2_Intron	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1004	Fibronectin type-III 7.|Extracellular (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GTCATAGGCCGTGTCGGGCTT	0.741													12	33					0	0	1	0	0		A	5222792	A	A	5222792	3	1	211	1	0	0	0	0	1	0	0	0	12836	1145	40	1	2919	1	PTPRS	19	5222792	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1731	5222792	53906191	1612	103491											
SAFB	6294	broad.mit.edu	37	chr19	5667115	5667115	+	Frame_Shift_Del	DEL	G	-	-																															ccgggactcccgcgatggctGggggggctatggctctgaca																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:5667115delG	uc002mcf.2	+	18	2446	c.2393delG	c.(2392-2394)TGGfs	p.W798fs	SAFB_uc002mcg.2_Frame_Shift_Del_p.W798fs|SAFB_uc002mce.3_Frame_Shift_Del_p.W797fs|SAFB_uc010xir.1_Frame_Shift_Del_p.W797fs|SAFB_uc010xis.1_Frame_Shift_Del_p.W729fs|SAFB_uc010xit.1_Frame_Shift_Del_p.W640fs|SAFB_uc010xiu.1_Frame_Shift_Del_p.W597fs	NM_002967	NP_002958	Q15424	SAFB1_HUMAN	scaffold attachment factor B	798	Interaction with SAFB2.|Arg-rich.|Gly-rich.				chromatin organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding			ovary(1)|liver(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;0.000222)		CGCGATGGCTGGGGGGGCTAT	0.642													27	61	---	---	---	---						.	-	5667115	-	-	5667115	7	5	211	1	0	1	0	1	0	0	0	0	13831	1357	47	0	2463	0	SAFB	19	5667115	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	444323	5667115	53461868	1613	103492											
DUS3L	56931	broad.mit.edu	37	chr19	5785755	5785755	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacgagatgtcccagtgcCgctgctccttgatctccgtg	6	10	11	14	4	1	2	0	1	1	1	4	4	3	2	4	0	2	2	4	0	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:5785755C>T	uc002mdc.2	-	11	1707	c.1610G>A	c.(1609-1611)CGG>CAG	p.R537Q	PRR22_uc002mdb.1_5'Flank|PRR22_uc010xiv.1_5'Flank|DUS3L_uc002mdd.2_Missense_Mutation_p.R295Q|DUS3L_uc010duk.2_Missense_Mutation_p.R202Q	NM_020175	NP_064560	Q96G46	DUS3L_HUMAN	dihydrouridine synthase 3-like isoform 1	537					tRNA processing		flavin adenine dinucleotide binding|nucleic acid binding|tRNA dihydrouridine synthase activity|zinc ion binding				0						GTCCCAGTGCCGCTGCTCCTT	0.662													6	16					0	0	1	0	0		T	5785755	T	T	5785755	3	4	211	1	0	0	0	0	1	0	0	0	4813	652	23	1	354	1	DUS3L	19	5785755	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	118640	5785755	53343228	1614	103493											
FUT3	2525	broad.mit.edu	37	chr19	5844280	5844280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caccgcccaggccaccagctCggtcttggccgagaggttga	7	6	13	15	3	1	2	0	1	1	1	2	3	1	2	5	4	1	2	5	4	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:5844280C>T	uc002mdk.2	-	2	668	c.571G>A	c.(571-573)GAG>AAG	p.E191K	FUT3_uc002mdm.2_Missense_Mutation_p.E191K|FUT3_uc002mdj.2_Missense_Mutation_p.E191K|FUT3_uc002mdl.2_Missense_Mutation_p.E191K	NM_001097641	NP_001091110	P21217	FUT3_HUMAN	fucosyltransferase 3	191	Lumenal (Potential).				protein glycosylation	Golgi cisterna membrane|integral to membrane|membrane fraction	3-galactosyl-N-acetylglucosaminide 4-alpha-L-fucosyltransferase activity				0						GCCACCAGCTCGGTCTTGGCC	0.667													17	51					0	0	1	0	0		T	5844280	T	T	5844280	3	4	211	1	0	0	0	0	1	0	0	0	6119	893	31	1	518	1	FUT3	19	5844280	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	58525	5844280	53284703	1615	103494											
C3	718	broad.mit.edu	37	chr19	6702207	6702207	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtctttcaaaaatatattcaTgagcttcgtagagattctgg	12	15	8	6	1	4	2	2	1	2	1	5	3	4	2	0	1	1	2	0	1	5	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:6702207T>C	uc002mfm.2	-	19	2433	c.2371A>G	c.(2371-2373)ATG>GTG	p.M791V		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	791					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		AATATATTCATGAGCTTCGTA	0.517													13	20					0	0	1	0	0		C	6702207	C	C	6702207	3	2	211	1	0	0	0	0	1	0	0	0	2207	1464	51	3	2712	3	C3	19	6702207	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	857927	6702207	52426776	1616	103495											
ARHGEF18	23370	broad.mit.edu	37	chr19	7521218	7521218	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctgttttcccagatatcCtggctatcctgctgaccgac	7	13	8	13	1	0	2	0	1	0	1	3	3	3	2	4	1	2	4	4	1	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:7521218C>A	uc002mgi.2	+	8	1799	c.1546C>A	c.(1546-1548)CTG>ATG	p.L516M	ARHGEF18_uc010xjm.1_Missense_Mutation_p.L358M|ARHGEF18_uc002mgh.2_Missense_Mutation_p.L358M|ARHGEF18_uc002mgj.1_Missense_Mutation_p.L159M	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18	516	PH.				actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				CCCAGATATCCTGGCTATCCT	0.498													131	412					2.05974e-71	2.28258e-71	1	1	0		A	7521218	A	A	7521218	3	1	211	1	0	0	0	0	1	0	0	0	901	680	24	5	1576	5	ARHGEF18	19	7521218	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	819011	7521218	51607765	1617	103496											
FBN3	84467	broad.mit.edu	37	chr19	8171032	8171032	+	Silent	SNP	T	C	C	0	1	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	tcactgaggtggtagccaggTgggcactcacactggaaact	10	8	13	10	0	2	1	2	1	0	0	2	2	2	2	1	5	2	2	1	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:8171032T>C	uc002mjf.2	-	37	4794	c.4773A>G	c.(4771-4773)CCA>CCG	p.P1591P		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	1591	EGF-like 24; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						GGTAGCCAGGTGGGCACTCAC	0.592													8	27					0	0	1	0	0		C	8171032	C	C	8171032	2	2	211	1	0	0	0	0	0	0	0	1	5718	1683	59	3		3	FBN3	19	8171032	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	649814	8171032	50957951	1618	103497											
RAB11B	9230	broad.mit.edu	37	chr19	8468313	8468313	+	Silent	SNP	G	A	A	0	0	1	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	gcagagatctaccgcatcgtGtcacagaaacagatcgcaga	14	6	10	11	3	2	4	1	0	1	4	4	5	2	4	1	0	2	3	1	0	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:8468313G>A	uc002mju.3	+	5	624	c.528G>A	c.(526-528)GTG>GTA	p.V176V		NM_004218	NP_004209	Q15907	RB11B_HUMAN	RAB11B, member RAS oncogene family	176					cell cycle|protein transport|small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity				0						ACCGCATCGTGTCACAGAAAC	0.657													25	64					0	0	1	0	0		A	8468313	A	A	8468313	2	1	211	1	0	0	0	0	0	0	0	1	12917	1364	48	4		4	RAB11B	19	8468313	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	297281	8468313	50660670	1619	103498											
MYO1F	4542	broad.mit.edu	37	chr19	8595204	8595204	+	Missense_Mutation	SNP	A	T	T	1	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	ccccgacgaagttccgattgAtgctgttgcgcctccgctcc	5	10	10	16	5	0	1	0	1	0	0	3	4	3	1	6	0	2	4	6	0	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:8595204A>T	uc002mkg.2	-	21	2318	c.2204T>A	c.(2203-2205)ATC>AAC	p.I735N		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	735						unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						GTTCCGATTGATGCTGTTGCG	0.627													78	218					0	0	1	0	0		T	8595204	T	T	8595204	3	4	211	1	0	0	0	0	1	0	0	0	10091	333	12	5	1124	5	MYO1F	19	8595204	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	126891	8595204	50533779	1620	103499											
ADAMTS10	81794	broad.mit.edu	37	chr19	8668765	8668765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgtctgccacgatcaggcCgtgctgggttttgagaagtg	6	11	14	10	3	2	1	1	1	1	1	3	3	2	1	2	2	2	2	2	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:8668765C>T	uc002mkj.1	-	5	713	c.439G>A	c.(439-441)GGC>AGC	p.G147S	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	147					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						ACGATCAGGCCGTGCTGGGTT	0.537													20	40					0	0	1	0	0		T	8668765	T	T	8668765	3	4	211	1	0	0	0	0	1	0	0	0	256	652	23	1	2960	1	ADAMTS10	19	8668765	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	73561	8668765	50460218	1621	103500											
COL5A3	50509	broad.mit.edu	37	chr19	10107118	10107118	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcccactcacctgagtctgCtgcagaactgcctgagcctg	7	9	9	16	0	2	3	1	2	1	1	3	3	3	3	4	0	5	2	4	0	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:10107118C>G	uc002mmq.1	-	13	1499	c.1413G>C	c.(1411-1413)CAG>CAC	p.Q471H		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	471	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CCTGAGTCTGCTGCAGAACTG	0.582													4	14					0	0	1	0	0		G	10107118	G	G	10107118	3	3	211	1	0	0	0	0	1	0	0	0	3701	796	28	5	4044	5	COL5A3	19	10107118	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1438353	10107118	49021865	1622	103501											
EIF3G	8666	broad.mit.edu	37	chr19	10226486	10226486	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggtgacacggatggtggcGttgtcgtcggctgtgtggga	4	12	19	6	4	0	1	0	1	0	0	2	3	0	3	0	6	0	2	0	6	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:10226486G>A	uc002mnd.2	-	9	778	c.714C>T	c.(712-714)AAC>AAT	p.N238N		NM_003755	NP_003746	O75821	EIF3G_HUMAN	eukaryotic translation initiation factor 3,	238						cytosol|eukaryotic translation initiation factor 3 complex|nucleus|perinuclear region of cytoplasm	nucleotide binding|protein binding|translation initiation factor activity				0			OV - Ovarian serous cystadenocarcinoma(20;3.53e-09)|Epithelial(33;4.91e-06)|all cancers(31;1.1e-05)			GGATGGTGGCGTTGTCGTCGG	0.642													43	97					0	0	1	0	0		A	10226486	A	A	10226486	2	1	211	1	0	0	0	0	0	0	0	1	5025	1136	40	1		1	EIF3G	19	10226486	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	119368	10226486	48902497	1623	103502											
ICAM4	3386	broad.mit.edu	37	chr19	10398019	10398019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagggcctggagctccctcGcgcactgcctcgtgacctgc	4	8	13	16	3	0	2	0	2	0	0	3	3	1	3	4	2	3	2	4	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:10398019G>A	uc002mns.1	+	1	370	c.331G>A	c.(331-333)GCG>ACG	p.A111T	ICAM4_uc002mnr.1_Missense_Mutation_p.A111T|ICAM4_uc002mnt.1_Missense_Mutation_p.A111T|ICAM5_uc002mnu.3_5'Flank	NM_001544	NP_001535	Q14773	ICAM4_HUMAN	intercellular adhesion molecule 4 isoform 1	111	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell adhesion|regulation of immune response	extracellular region|integral to membrane|plasma membrane	integrin binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			GAGCTCCCTCGCGCACTGCCT	0.677													7	19					0	0	1	0	0		A	10398019	A	A	10398019	3	1	211	1	0	0	0	0	1	0	0	0	7498	1087	38	1	333	1	ICAM4	19	10398019	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	171533	10398019	48730964	1624	103503											
ICAM5	7087	broad.mit.edu	37	chr19	10402911	10402911	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccacagccacagctagcGcagagcaggagggtgccagg	10	3	15	13	1	0	1	0	0	0	1	0	2	0	2	3	3	6	3	3	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:10402911G>A	uc002mnu.3	+	4	939	c.874G>A	c.(874-876)GCA>ACA	p.A292T	ICAM5_uc002mnv.3_Missense_Mutation_p.A167T	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	292	Extracellular (Potential).|Ig-like C2-type 3.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CACAGCTAGCGCAGAGCAGGA	0.627													8	45					0	0	1	0	0		A	10402911	A	A	10402911	3	1	211	1	0	0	0	0	1	0	0	0	7499	1087	38	1	888	1	ICAM5	19	10402911	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4892	10402911	48726072	1625	103504											
S1PR5	53637	broad.mit.edu	37	chr19	10624889	10624889	+	Frame_Shift_Del	DEL	G	-	-																															gagcaacagcagcaggaagaGggggccccaacatgccacaa																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:10624889delG	uc002mot.1	-	2	856	c.799delC	c.(799-801)CTCfs	p.L267fs	S1PR5_uc002mou.1_Frame_Shift_Del_p.L267fs	NM_030760	NP_110387	Q9H228	S1PR5_HUMAN	endothelial differentiation, sphingolipid	267	Helical; Name=6; (By similarity).					integral to membrane|plasma membrane	lysosphingolipid and lysophosphatidic acid receptor activity			central_nervous_system(1)|pancreas(1)	2						AGCAGGAAGAGGGGGCCCCAA	0.692													8	14	---	---	---	---						.	-	10624889	-	-	10624889	7	5	211	1	0	1	0	1	0	0	0	0	13822	1000	35	0	401	0	S1PR5	19	10624889	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	221978	10624889	48504094	1626	103505											
DNM2	1785	broad.mit.edu	37	chr19	10940880	10940880	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtgaggggccccactccagGgccccccctgattcctgttc	5	8	11	17	0	0	2	0	2	0	0	3	2	2	2	7	3	0	1	7	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:10940880G>T	uc002mps.1	+	20	2533	c.2369G>T	c.(2368-2370)GGG>GTG	p.G790V	DNM2_uc010dxk.2_Intron|DNM2_uc002mpt.1_Missense_Mutation_p.G790V|DNM2_uc002mpv.1_Missense_Mutation_p.G786V|DNM2_uc002mpu.1_Missense_Mutation_p.G786V|DNM2_uc010dxl.1_Missense_Mutation_p.G790V|DNM2_uc002mpw.2_Missense_Mutation_p.G519V|DNM2_uc002mpx.1_Missense_Mutation_p.G146V	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	790	Pro-rich.				G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			CCCACTCCAGGGCCCCCCCTG	0.692													35	82					1.06647e-15	1.15624e-15	1	1	0		T	10940880	T	T	10940880	3	4	211	1	0	0	0	0	1	0	0	0	4678	1232	43	5	2590	5	DNM2	19	10940880	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	315991	10940880	48188103	1627	103506											
LDLR	3949	broad.mit.edu	37	chr19	11216183	11216183	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtagcccctgctcggccttcGagttccactgcctaagtggc	5	10	11	15	2	0	0	0	0	0	0	3	1	1	0	5	2	3	3	5	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:11216183G>A	uc002mqk.3	+	4	769	c.601G>A	c.(601-603)GAG>AAG	p.E201K	LDLR_uc010xlk.1_Missense_Mutation_p.E201K|LDLR_uc010xll.1_Missense_Mutation_p.E160K|LDLR_uc010xlm.1_Missense_Mutation_p.E54K|LDLR_uc010xln.1_Intron|LDLR_uc010xlo.1_Intron	NM_000527	NP_000518	P01130	LDLR_HUMAN	low density lipoprotein receptor precursor	201	LDL-receptor class A 5.|Extracellular (Potential).				cholesterol homeostasis|cholesterol metabolic process|interspecies interaction between organisms|intestinal cholesterol absorption|low-density lipoprotein particle clearance|receptor-mediated endocytosis	clathrin-coated endocytic vesicle membrane|coated pit|early endosome|endosome membrane|external side of plasma membrane|integral to plasma membrane|low-density lipoprotein particle|lysosome	calcium ion binding|low-density lipoprotein receptor activity|protein binding|very-low-density lipoprotein particle receptor activity			ovary(2)|skin(2)	4		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)	Methyl aminolevulinate(DB00992)|Porfimer(DB00707)	CTCGGCCTTCGAGTTCCACTG	0.607													9	39					0	0	1	0	0		A	11216183	A	A	11216183	3	1	211	1	0	0	0	0	1	0	0	0	8720	1059	37	1	615	1	LDLR	19	11216183	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	275303	11216183	47912800	1628	103507											
NACC1	112939	broad.mit.edu	37	chr19	13246173	13246173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgggccgtgcttgctgccaGcagctcctacttccgggacc	4	8	12	17	3	0	0	0	0	0	0	2	1	2	1	6	2	6	4	6	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:13246173G>A	uc002mwm.2	+	2	320	c.152G>A	c.(151-153)AGC>AAC	p.S51N		NM_052876	NP_443108	Q96RE7	NACC1_HUMAN	transcriptional repressor NAC1	51	BTB.				negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|protein homooligomerization|transcription, DNA-dependent	cytoplasm|nuclear body					0						CTTGCTGCCAGCAGCTCCTAC	0.637													15	63					0	0	1	0	0		A	13246173	A	A	13246173	3	1	211	1	0	0	0	0	1	0	0	0	10153	971	34	2	154	2	NACC1	19	13246173	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2029990	13246173	45882810	1629	103508											
CACNA1A	773	broad.mit.edu	37	chr19	13394195	13394195	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgcaggttcaggatgtaatgGcacaggcggcgaaggctgtt	9	8	16	8	3	1	0	1	0	0	0	1	2	1	1	0	6	0	6	0	6	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:13394195G>T	uc010dze.2	-	22	3947	c.3711C>A	c.(3709-3711)TGC>TGA	p.C1237*	CACNA1A_uc010dzc.2_Nonsense_Mutation_p.C762*|CACNA1A_uc002mwy.3_Nonsense_Mutation_p.C1236*|CACNA1A_uc010xne.1_Nonsense_Mutation_p.C765*	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	1237	III.|Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	GGATGTAATGGCACAGGCGGC	0.562													10	27					0.000978159	0.000997639	1	1	0		T	13394195	T	T	13394195	4	4	211	1	0	0	0	0	0	1	0	0	2541	1195	42	5	4018	5	CACNA1A	19	13394195	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	148022	13394195	45734788	1630	103509											
C19orf57	79173	broad.mit.edu	37	chr19	14000816	14000816	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctggagcagggcctgaggTaggagctgatgctggggtac	7	8	18	8	0	0	2	0	2	0	0	1	4	1	4	2	6	4	5	2	6	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:14000816T>A	uc002mxl.1	-	6	912	c.853A>T	c.(853-855)ACC>TCC	p.T285S	C19orf57_uc002mxk.1_Missense_Mutation_p.T167S|C19orf57_uc002mxm.1_Intron	NM_024323	NP_077299	Q0VDD7	CS057_HUMAN	hypothetical protein LOC79173	285					multicellular organismal development		protein binding			ovary(2)|upper_aerodigestive_tract(1)	3			OV - Ovarian serous cystadenocarcinoma(19;2e-21)			GGGCCTGAGGTAGGAGCTGAT	0.706													6	21					0	0	1	0	0		A	14000816	A	A	14000816	3	1	211	1	0	0	0	0	1	0	0	0	1942	1638	57	5	1072	5	C19orf57	19	14000816	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	606621	14000816	45128167	1631	103510											
CCDC105	126402	broad.mit.edu	37	chr19	15124536	15124536	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagaaagaggagctgaaaaGcatgaagaggaaaatggaga	20	3	16	2	0	0	6	0	2	0	4	0	10	0	8	0	4	2	2	0	4	6	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:15124536G>T	uc002nae.2	+	2	722	c.623G>T	c.(622-624)AGC>ATC	p.S208I		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	208	Potential.				microtubule cytoskeleton organization	microtubule				ovary(1)	1						GAGCTGAAAAGCATGAAGAGG	0.498													14	35					4.7546e-09	4.99129e-09	1	1	0		T	15124536	T	T	15124536	3	4	211	1	0	0	0	0	1	0	0	0	2743	971	34	5	629	5	CCDC105	19	15124536	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1123720	15124536	44004447	1632	103511											
NOTCH3	4854	broad.mit.edu	37	chr19	15281358	15281358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgggttctggaggctccagcGgctcccctaagagcaggaag	8	7	15	11	1	1	1	0	0	1	1	3	3	3	3	3	5	2	4	3	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:15281358G>A	uc002nan.2	-	27	4974	c.4898C>T	c.(4897-4899)CCG>CTG	p.P1633L		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1633	Extracellular (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AGGCTCCAGCGGCTCCCCTAA	0.716													8	20					0	0	1	0	0		A	15281358	A	A	15281358	3	1	211	1	0	0	0	0	1	0	0	0	10569	1116	39	1	2095	1	NOTCH3	19	15281358	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	156822	15281358	43847625	1633	103512											
BRD4	23476	broad.mit.edu	37	chr19	15365024	15365024	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gagctctccgactctgaggaCgagaagcccttcatcttgga	9	9	11	12	2	4	2	1	1	3	1	5	7	4	4	2	2	2	1	2	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:15365024C>T	uc002nar.2	-	11	2319	c.2097G>A	c.(2095-2097)TCG>TCA	p.S699S	BRD4_uc002nas.2_Silent_p.S699S|BRD4_uc002nat.3_Silent_p.S699S	NM_058243	NP_490597	O60885	BRD4_HUMAN	bromodomain-containing protein 4 isoform long	699	Ser-rich.				interspecies interaction between organisms|positive regulation of G2/M transition of mitotic cell cycle|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription involved in G1 phase of mitotic cell cycle	condensed nuclear chromosome|cytoplasm	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(3;3.02e-24)|Epithelial(3;4.71e-20)|all cancers(3;2.26e-18)			ACTCTGAGGACGAGAAGCCCT	0.542			T	NUT|C15orf55	lethal midline carcinoma of young people								10	38					0	0	1	0	0		T	15365024	T	T	15365024	2	4	211	1	0	0	0	0	0	0	0	1	1507	523	19	1		1	BRD4	19	15365024	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	83666	15365024	43763959	1634	103513											
AKAP8	10270	broad.mit.edu	37	chr19	15483948	15483948	+	Missense_Mutation	SNP	T	C	C	0	1	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	tccggtcctggaagcggcccTggccccggccccgcatgaag	5	5	14	17	4	0	1	0	1	0	0	2	2	2	2	7	5	1	1	7	5	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:15483948T>C	uc002nav.2	-	5	636	c.575A>G	c.(574-576)CAG>CGG	p.Q192R	AKAP8_uc010dzy.2_5'UTR|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Missense_Mutation_p.Q6R	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	192					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						GAAGCGGCCCTGGCCCCGGCC	0.701													9	21					0	0	1	0	0		C	15483948	C	C	15483948	3	2	211	1	0	0	0	0	1	0	0	0	457	1580	55	3	1543	3	AKAP8	19	15483948	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	118924	15483948	43645035	1635	103514											
CHERP	10523	broad.mit.edu	37	chr19	16631266	16631266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaggatcttgagttggagcGggaggaagaacgccctcgac	10	6	17	8	3	1	2	0	1	1	1	2	8	1	7	1	5	2	1	1	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:16631266G>A	uc002nei.1	-	14	2328	c.2254C>T	c.(2254-2256)CGC>TGC	p.R752C	MED26_uc002nee.2_Intron|C19orf44_uc002neh.1_3'UTR|C19orf44_uc010eai.1_RNA|CHERP_uc010xpg.1_Missense_Mutation_p.R291C	NM_006387	NP_006378	Q8IWX8	CHERP_HUMAN	calcium homeostasis endoplasmic reticulum	752	Arg-rich.				cellular calcium ion homeostasis|negative regulation of cell proliferation|nervous system development|RNA processing	endoplasmic reticulum|perinuclear region of cytoplasm	RNA binding			ovary(2)	2						GAGTTGGAGCGGGAGGAAGAA	0.607													51	176					0	0	1	0	0		A	16631266	A	A	16631266	3	1	211	1	0	0	0	0	1	0	0	0	3339	1116	39	1	512	1	CHERP	19	16631266	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1147318	16631266	42497717	1636	103515											
UNC13A	23025	broad.mit.edu	37	chr19	17758169	17758169	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgcgccgtcttggtcaccGcgaagatctcctggatgagc	6	10	13	12	4	3	2	1	1	2	1	4	4	3	3	3	2	2	0	3	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:17758169G>A	uc002nhd.2	-	17	2213	c.2213C>T	c.(2212-2214)GCG>GTG	p.A738V		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	650					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						CTTGGTCACCGCGAAGATCTC	0.597													11	19					0	0	1	0	0		A	17758169	A	A	17758169	3	1	211	1	0	0	0	0	1	0	0	0	17010	1087	38	1	3270	1	UNC13A	19	17758169	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1126903	17758169	41370814	1637	103516											
ARRDC2	27106	broad.mit.edu	37	chr19	18119538	18119538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agataccggggagaccacgaCgctgcctcctgggcgccatg	8	5	14	14	4	0	2	0	0	0	2	1	4	1	2	5	3	2	1	5	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:18119538C>T	uc002nhv.2	+	2	436	c.293C>T	c.(292-294)ACG>ATG	p.T98M	ARRDC2_uc002nhu.2_Missense_Mutation_p.T93M	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	98								p.R98C(1)		pancreas(1)	1						GAGACCACGACGCTGCCTCCT	0.642													29	77					0	0	1	0	0		T	18119538	T	T	18119538	3	4	211	1	0	0	0	0	1	0	0	0	984	536	19	1	562	1	ARRDC2	19	18119538	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	361369	18119538	41009445	1638	103517											
KLHL26	55295	broad.mit.edu	37	chr19	18778890	18778890	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccgagatcgacctgttccGcgcggccgtccgctggctgc	3	8	14	16	7	0	1	0	0	0	1	3	3	2	1	5	2	2	3	5	2	0	1	rs148044384		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:18778890G>A	uc002njz.1	+	3	710	c.683G>A	c.(682-684)CGC>CAC	p.R228H		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	228	BACK.									ovary(1)	1						GACCTGTTCCGCGCGGCCGTC	0.577													15	57					0	0	1	0	0		A	18778890	A	A	18778890	3	1	211	1	0	0	0	0	1	0	0	0	8397	1087	38	1	693	1	KLHL26	19	18778890	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	659352	18778890	40350093	1639	103518											
UPF1	5976	broad.mit.edu	37	chr19	18956893	18956893	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaagatgaagaagacacCtattacacgaaggacctccc	16	5	10	10	1	0	4	0	1	0	3	1	8	1	6	3	2	1	0	3	2	6	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:18956893C>A	uc002nkg.2	+	2	611	c.336C>A	c.(334-336)ACC>ACA	p.T112T	UPF1_uc002nkf.2_Silent_p.T112T	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	112	Sufficient for interaction with RENT2.				cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						AAGAAGACACCTATTACACGA	0.597													22	59					0.000229342	0.000235472	1	1	0		A	18956893	A	A	18956893	2	1	211	1	0	0	0	0	0	0	0	1	17029	668	24	5		5	UPF1	19	18956893	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	178003	18956893	40172090	1640	103519											
SFRS14	10147	broad.mit.edu	37	chr19	19106069	19106069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcggtcagcttctgctgggcGaagtccaagtccttgggttt	5	13	13	10	2	2	0	1	0	1	0	5	1	4	0	2	3	2	3	2	3	2	3	rs143289736		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:19106069G>A	uc002nkx.2	-	9	3158	c.3012C>T	c.(3010-3012)TTC>TTT	p.F1004F	SFRS14_uc002nkz.1_Silent_p.F1018F|SFRS14_uc002nla.1_Silent_p.F1004F|SFRS14_uc002nlb.2_Silent_p.F1004F|SFRS14_uc010xqk.1_Silent_p.F773F	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	1004					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			TCTGCTGGGCGAAGTCCAAGT	0.592													14	33					0	0	1	0	0		A	19106069	A	A	19106069	2	1	211	1	0	0	0	0	0	0	0	1	14195	1049	37	1		1	SFRS14	19	19106069	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	149176	19106069	40022914	1641	103520											
ARMC6	93436	broad.mit.edu	37	chr19	19162461	19162461	+	Missense_Mutation	SNP	A	T	T	1	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	acctccaggagtctgtggccAgctctcgcccccaggaggtg	6	7	13	15	1	2	0	0	0	2	0	4	2	3	2	5	4	1	1	5	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:19162461A>T	uc002nld.2	+	5	658	c.310A>T	c.(310-312)AGC>TGC	p.S104C	ARMC6_uc002nlc.2_Missense_Mutation_p.S79C|ARMC6_uc010xql.1_Missense_Mutation_p.S11C|ARMC6_uc002nle.2_Missense_Mutation_p.S79C|ARMC6_uc010xqm.1_Missense_Mutation_p.S104C	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6	104							protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			GTCTGTGGCCAGCTCTCGCCC	0.612													27	112					0	0	1	0	0		T	19162461	T	T	19162461	3	4	211	1	0	0	0	0	1	0	0	0	956	188	7	5	245	5	ARMC6	19	19162461	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	56392	19162461	39966522	1642	103521											
NCAN	1463	broad.mit.edu	37	chr19	19338121	19338121	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcaagagctccccagagccCtggctgtggccccctaccat	7	6	11	17	0	0	2	0	0	0	2	1	2	1	2	6	3	3	3	6	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:19338121C>A	uc002nlz.2	+	8	1791	c.1692C>A	c.(1690-1692)CCC>CCA	p.P564P	NCAN_uc010ecc.1_Silent_p.P128P	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	564					axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			CCCCAGAGCCCTGGCTGTGGC	0.612													23	90					5.61819e-17	6.10957e-17	1	1	0		A	19338121	A	A	19338121	2	1	211	1	0	0	0	0	0	0	0	1	10223	668	24	5		5	NCAN	19	19338121	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	175660	19338121	39790862	1643	103522											
TSSK6	83983	broad.mit.edu	37	chr19	19626126	19626126	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaccaccttgatggccacGgtacccttgtacttcttgga	7	12	8	14	1	1	1	0	1	1	0	2	2	2	2	5	3	2	2	5	3	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:19626126G>A	uc002nmr.2	-	1	344	c.111C>T	c.(109-111)ACC>ACT	p.T37T	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	37	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						TGATGGCCACGGTACCCTTGT	0.612													17	50					0	0	1	0	0		A	19626126	A	A	19626126	2	1	211	1	0	0	0	0	0	0	0	1	16698	1103	39	1		1	TSSK6	19	19626126	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	288005	19626126	39502857	1644	103523											
GMIP	51291	broad.mit.edu	37	chr19	19741101	19741101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggcggctgaagtggccacGagactgtgtccccaggagtg	7	7	16	11	2	0	2	0	1	0	1	1	4	1	3	3	4	0	1	3	4	1	0	rs138311100		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:19741101G>A	uc002nnd.2	-	21	2701	c.2584C>T	c.(2584-2586)CGT>TGT	p.R862C	LPAR2_uc002nnb.3_5'Flank|LPAR2_uc002nna.3_5'Flank|LPAR2_uc002nnc.3_5'Flank|GMIP_uc010xrb.1_Missense_Mutation_p.R836C|GMIP_uc010xrc.1_Missense_Mutation_p.R833C	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	862					negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						AAGTGGCCACGAGACTGTGTC	0.622													17	67					0	0	1	0	0		A	19741101	A	A	19741101	3	1	211	1	0	0	0	0	1	0	0	0	6506	1058	37	1	332	1	GMIP	19	19741101	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	114975	19741101	39387882	1645	103524											
ZNF14	7561	broad.mit.edu	37	chr19	19822955	19822955	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atgagttctttcatgcaatcGaagagaaatggaccaactga	15	10	9	7	1	2	3	1	2	1	1	3	6	2	4	1	1	2	2	1	1	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:19822955G>A	uc002nnk.1	-	4	1289	c.1135C>T	c.(1135-1137)CGA>TGA	p.R379*		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	379	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				TCATGCAATCGAAGAGAAATG	0.378													24	71					0	0	1	0	0		A	19822955	A	A	19822955	4	1	211	1	0	0	0	0	0	1	0	0	17753	1066	37	1	797	1	ZNF14	19	19822955	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	81854	19822955	39306028	1646	103525											
DPY19L3	147991	broad.mit.edu	37	chr19	32971337	32971337	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatgccaagagggcaccagaGgaagtgcatgccctcctaag	12	6	12	11	0	0	2	0	0	0	2	1	3	1	3	4	2	3	2	4	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:32971337G>T	uc002ntg.2	+	18	2039	c.1863G>T	c.(1861-1863)GAG>GAT	p.E621D	DPY19L3_uc002nth.1_Missense_Mutation_p.E621D|DPY19L3_uc002nti.1_RNA|DPY19L3_uc002ntj.1_Missense_Mutation_p.E43D	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	621						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					GGGCACCAGAGGAAGTGCATG	0.517													13	36					1.49906e-05	1.55172e-05	1	1	0		T	32971337	T	T	32971337	3	4	211	1	0	0	0	0	1	0	0	0	4748	991	35	5	1929	5	DPY19L3	19	32971337	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	13148382	32971337	26157646	1647	103526											
RHPN2	85415	broad.mit.edu	37	chr19	33486994	33486994	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctggtgctgggcgtacGtgagccgggagcgttcctgt	3	10	16	12	4	0	1	0	1	0	0	2	2	2	2	4	3	4	3	4	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:33486994G>A	uc002nuf.2	-	11	1424	c.1358C>T	c.(1357-1359)ACG>ATG	p.T453M	RHPN2_uc010xro.1_Missense_Mutation_p.T302M|RHPN2_uc002nue.2_Missense_Mutation_p.T183M	NM_033103	NP_149094	Q8IUC4	RHPN2_HUMAN	rhophilin, Rho GTPase binding protein 2	453	BRO1.				signal transduction	perinuclear region of cytoplasm	protein binding			central_nervous_system(5)|ovary(1)	6	Esophageal squamous(110;0.137)					CTGGGCGTACGTGAGCCGGGA	0.627													20	52					0	0	1	0	0		A	33486994	A	A	33486994	3	1	211	1	0	0	0	0	1	0	0	0	13376	1145	40	1	722	1	RHPN2	19	33486994	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	515657	33486994	25641989	1648	103527											
LRP3	4037	broad.mit.edu	37	chr19	33697149	33697149	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgagcatgggtgcctggcCgccgtgccccgcaaggtcat	6	7	15	13	3	1	1	1	1	0	0	1	2	1	1	5	3	3	2	5	3	1	0	rs139298570		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:33697149C>T	uc010edh.2	+	5	1566	c.1473C>T	c.(1471-1473)GCC>GCT	p.A491A	LRP3_uc010xrp.1_Silent_p.A365A|LRP3_uc002nuk.3_Silent_p.A365A	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	491	Extracellular (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					GGTGCCTGGCCGCCGTGCCCC	0.657													5	11					0	0	1	0	0		T	33697149	T	T	33697149	2	4	211	1	0	0	0	0	0	0	0	1	8976	639	23	1		1	LRP3	19	33697149	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	210155	33697149	25431834	1649	103528											
LRP3	4037	broad.mit.edu	37	chr19	33698276	33698276	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacaaggacagaaaggtctGcagggagccactggtagacg	13	4	16	8	1	1	2	0	0	1	2	1	5	1	5	1	5	2	2	1	5	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:33698276G>A	uc010edh.2	+	7	2201	c.2108G>A	c.(2107-2109)TGC>TAC	p.C703Y	LRP3_uc002nuk.3_Missense_Mutation_p.C577Y	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	703	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					AGAAAGGTCTGCAGGGAGCCA	0.701													6	7					0	0	1	0	0		A	33698276	A	A	33698276	3	1	211	1	0	0	0	0	1	0	0	0	8976	1319	46	2	2134	2	LRP3	19	33698276	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1127	33698276	25430707	1650	103529											
GPI	2821	broad.mit.edu	37	chr19	34868469	34868469	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcacggacgtcatcaacaTtggcattggcggctccgacc	9	8	10	14	4	3	0	3	0	0	0	4	2	4	1	2	4	1	2	2	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:34868469T>G	uc002nvg.1	+	5	567	c.464T>G	c.(463-465)ATT>AGT	p.I155S	GPI_uc002nvf.2_Missense_Mutation_p.I194S|GPI_uc010xrv.1_Intron|GPI_uc010xrw.1_Intron|GPI_uc010edl.1_Missense_Mutation_p.I155S	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	155					angiogenesis|gluconeogenesis|glycolysis|hemostasis|humoral immune response	cytosol|extracellular space|nucleus|plasma membrane	cytokine activity|glucose-6-phosphate isomerase activity|growth factor activity			ovary(1)|kidney(1)	2	Esophageal squamous(110;0.162)					GTCATCAACATTGGCATTGGC	0.597													29	70					0	0	1	0	0		G	34868469	G	G	34868469	3	3	211	1	0	0	0	0	1	0	0	0	6626	1493	52	5	603	5	GPI	19	34868469	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1170193	34868469	24260514	1651	103530											
MAG	4099	broad.mit.edu	37	chr19	35800942	35800942	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gttcgtgtactcggagcgcaGcggcctcgtgctcaccagca	6	8	13	14	5	1	0	1	0	0	0	4	1	1	1	2	2	5	5	2	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:35800942G>A	uc002nyy.1	+	8	1546	c.1397G>A	c.(1396-1398)AGC>AAC	p.S466N	MAG_uc002nyx.1_Missense_Mutation_p.S466N|MAG_uc010eds.1_Missense_Mutation_p.S441N|MAG_uc002nyz.1_Missense_Mutation_p.S466N	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	466	Ig-like C2-type 4.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			TCGGAGCGCAGCGGCCTCGTG	0.677													20	71					0	0	1	0	0		A	35800942	A	A	35800942	3	1	211	1	0	0	0	0	1	0	0	0	9180	971	34	2	1419	2	MAG	19	35800942	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	932473	35800942	23328041	1652	103531											
RBM42	79171	broad.mit.edu	37	chr19	36124806	36124806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgagcccctgcccctccCgttggaggtcgtccgcggcc	2	7	13	19	4	0	1	0	1	0	0	3	2	2	2	8	3	2	1	8	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:36124806C>T	uc002oan.2	+	7	978	c.902C>T	c.(901-903)CCG>CTG	p.P301L	RBM42_uc010eef.2_Missense_Mutation_p.P247L|RBM42_uc002oao.2_Missense_Mutation_p.P279L|RBM42_uc002oap.2_Missense_Mutation_p.P271L|RBM42_uc002oaq.2_Missense_Mutation_p.P272L|RBM42_uc010eeg.2_Missense_Mutation_p.P272L	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42	301	Necessary for interaction with HNRNPK (By similarity).|Pro-rich.					cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			CTGCCCCTCCCGTTGGAGGTC	0.746													7	12					0	0	1	0	0		T	36124806	T	T	36124806	3	4	211	1	0	0	0	0	1	0	0	0	13161	652	23	1	928	1	RBM42	19	36124806	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	323864	36124806	23004177	1653	103532											
ARHGAP33	115703	broad.mit.edu	37	chr19	36277879	36277879	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccggagcctgcgcccccatcTcatacccctgctgctgcgag	5	7	10	19	3	1	0	1	0	1	0	2	2	1	1	6	1	6	2	6	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:36277879T>G	uc002obr.1	+	20	2592	c.2507T>G	c.(2506-2508)CTC>CGC	p.L836R	ARHGAP33_uc002obs.1_Missense_Mutation_p.L675R|ARHGAP33_uc002obt.1_Missense_Mutation_p.L700R|ARHGAP33_uc010eel.2_Missense_Mutation_p.L424R|ARHGAP33_uc002obv.1_Missense_Mutation_p.L424R	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	836					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CGCCCCCATCTCATACCCCTG	0.706													5	21					0	0	1	0	0		G	36277879	G	G	36277879	3	3	211	1	0	0	0	0	1	0	0	0	882	1551	54	5	2585	5	ARHGAP33	19	36277879	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	153073	36277879	22851104	1654	103533											
ARHGAP33	115703	broad.mit.edu	37	chr19	36278542	36278542	+	Silent	SNP	A	G	G	1	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	tccccatgttctgtcccctcAcaggttcctacccccggctt	4	12	6	19	1	2	0	1	0	1	0	5	0	5	0	7	2	1	3	7	2	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:36278542A>G	uc002obs.1	+	21	2677	c.2592A>G	c.(2590-2592)TCA>TCG	p.S864S	ARHGAP33_uc002obt.1_Intron|ARHGAP33_uc010eel.2_Intron|ARHGAP33_uc002obv.1_Silent_p.S613S	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CTGTCCCCTCACAGGTTCCTA	0.701													26	63					0	0	1	0	0		G	36278542	G	G	36278542	2	3	211	1	0	0	0	0	0	0	0	1	882	146	6	3		3	ARHGAP33	19	36278542	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	663	36278542	22850441	1655	103534											
NFKBID	84807	broad.mit.edu	37	chr19	36380854	36380854	+	Silent	SNP	G	A	A	0	0	1	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	ctcattctccaggttgcgcaGtgtggggtccgccccagctg	4	10	13	14	2	2	0	1	0	1	0	4	0	3	0	4	3	2	3	4	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:36380854G>A	uc002oci.1	-	11	1400	c.826C>T	c.(826-828)CTG>TTG	p.L276L	NFKBID_uc002och.1_Silent_p.L113L|NFKBID_uc002ocj.1_Silent_p.L291L	NM_139239	NP_640332	Q8NI38	IKBD_HUMAN	nuclear factor of kappa light polypeptide gene	276	ANK 6.				inflammatory response	nucleus					0						AGGTTGCGCAGTGTGGGGTCC	0.701													22	50					0	0	1	0	0		A	36380854	A	A	36380854	2	1	211	1	0	0	0	0	0	0	0	1	10398	1020	36	4		4	NFKBID	19	36380854	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	102312	36380854	22748129	1656	103535											
ZNF420	147923	broad.mit.edu	37	chr19	37580028	37580028	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctctaaaaaccatggctcGggtaaattggagtttccttg	11	12	10	8	1	1	0	0	0	1	0	3	1	2	1	2	3	2	4	2	3	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:37580028G>A	uc002ofl.2	+	3	223	c.8G>A	c.(7-9)CGG>CAG	p.R3Q		NM_144689	NP_653290	Q8TAQ5	ZN420_HUMAN	zinc finger protein 420	3					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			ACCATGGCTCGGGTAAATTGG	0.428													24	78					0	0	1	0	0		A	37580028	A	A	37580028	3	1	211	1	0	0	0	0	1	0	0	0	17922	1130	39	1	10	1	ZNF420	19	37580028	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1199174	37580028	21548955	1657	103536											
SIPA1L3	23094	broad.mit.edu	37	chr19	38621145	38621145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtggcctgcaggtgatgaCcagtggctgggagacggtgg	6	8	19	8	1	0	3	0	2	0	1	0	4	0	3	2	6	1	2	2	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:38621145C>T	uc002ohk.2	+	10	3385	c.2876C>T	c.(2875-2877)ACC>ATC	p.T959I		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	959					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			CAGGTGATGACCAGTGGCTGG	0.627													26	58					0	0	1	0	0		T	38621145	T	T	38621145	3	4	211	1	0	0	0	0	1	0	0	0	14356	507	18	4	2906	4	SIPA1L3	19	38621145	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1041117	38621145	20507838	1658	103537											
CATSPERG	57828	broad.mit.edu	37	chr19	38853439	38853439	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggcctcggtgaagcaggaGgtcctgattaatcgcaactc	10	8	13	10	2	0	2	0	2	0	0	4	4	1	3	2	4	2	2	2	4	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:38853439G>T	uc002oih.3	+	20	2529	c.2442G>T	c.(2440-2442)GAG>GAT	p.E814D	CATSPERG_uc002oig.3_Missense_Mutation_p.E774D|CATSPERG_uc002oif.3_Missense_Mutation_p.E454D|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	814	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TGAAGCAGGAGGTCCTGATTA	0.542													49	96					1.61742e-36	1.78964e-36	1	1	0		T	38853439	T	T	38853439	3	4	211	1	0	0	0	0	1	0	0	0	2695	991	35	5	2516	5	CATSPERG	19	38853439	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	232294	38853439	20275544	1659	103538											
GGN	199720	broad.mit.edu	37	chr19	38876239	38876239	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactgctgtcaggcacggTagctgtagctcgttcgcgag	7	9	13	12	4	1	0	1	0	0	0	3	1	1	0	1	2	3	7	1	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:38876239T>C	uc002oij.1	-	3	1798	c.1663A>G	c.(1663-1665)ACC>GCC	p.T555A	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Intron	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	555	Interactions with ZNF403/GGNBP2 and OAZ3 (By similarity).				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			TCAGGCACGGTAGCTGTAGCT	0.677													11	58					0	0	1	0	0		C	38876239	C	C	38876239	3	2	211	1	0	0	0	0	1	0	0	0	6373	1638	57	3	303	3	GGN	19	38876239	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	22800	38876239	20252744	1660	103539											
SPRED3	399473	broad.mit.edu	37	chr19	38886249	38886249	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggccacccgcgcccctcGccctgtccacctgcgtcgtg	2	6	11	22	6	0	0	0	0	0	0	3	0	1	0	8	1	1	0	8	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:38886249G>A	uc002oim.2	+	5	701	c.697G>A	c.(697-699)GCC>ACC	p.A233T		NM_001042522	NP_001035987	Q2MJR0	SPRE3_HUMAN	sprouty-related, EVH1 domain containing 3	233	KBD.				multicellular organismal development					central_nervous_system(2)|lung(1)|skin(1)	4	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGCGCCCCTCGCCCTGTCCAC	0.736													4	6					0	0	1	0	0		A	38886249	A	A	38886249	3	1	211	1	0	0	0	0	1	0	0	0	15119	1087	38	1	755	1	SPRED3	19	38886249	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10010	38886249	20242734	1661	103540											
FAM98C	147965	broad.mit.edu	37	chr19	38899423	38899423	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aacgttccagaccgggggggCcgcccaaatgagctggagcc	9	4	15	13	3	0	2	0	1	0	1	1	3	1	3	5	4	3	2	5	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:38899423C>G	uc002oin.1	+	8	970	c.951C>G	c.(949-951)GGC>GGG	p.G317G	FAM98C_uc002oio.1_Silent_p.G235G|FAM98C_uc010xtz.1_Missense_Mutation_p.P184A	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	317										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ACCGGGGGGGCCGCCCAAATG	0.547													20	78					0	0	1	0	0		G	38899423	G	G	38899423	2	3	211	1	0	0	0	0	0	0	0	1	5672	726	26	5		5	FAM98C	19	38899423	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	13174	38899423	20229560	1662	103541											
RYR1	6261	broad.mit.edu	37	chr19	39005673	39005673	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgtctccctcagtggacgaCgtccaggtctcttgctaccg	5	11	10	15	3	3	0	1	0	2	0	6	2	4	1	3	2	2	1	3	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:39005673C>T	uc002oit.2	+	64	9610	c.9480C>T	c.(9478-9480)GAC>GAT	p.D3160D	RYR1_uc002oiu.2_Silent_p.D3160D|RYR1_uc002oiv.1_Silent_p.D80D|RYR1_uc010xuf.1_Silent_p.D80D	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	3160					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CAGTGGACGACGTCCAGGTCT	0.582											OREG0025449	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	31					0	0	1	0	0		T	39005673	T	T	39005673	2	4	211	1	0	0	0	0	0	0	0	1	13793	535	19	1		1	RYR1	19	39005673	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	106250	39005673	20123310	1663	103542											
ACTN4	81	broad.mit.edu	37	chr19	39220045	39220045	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactacaagtccttctccacGgccttgtatggcgagagcga	9	9	11	12	3	1	1	0	0	1	1	3	4	2	1	3	2	2	1	3	2	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:39220045G>A	uc002oja.1	+	21	2768	c.2709G>A	c.(2707-2709)ACG>ACA	p.T903T	ACTN4_uc002ojb.1_Silent_p.T225T	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	903					platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCTTCTCCACGGCCTTGTATG	0.687													16	32					0	0	1	0	0		A	39220045	A	A	39220045	2	1	211	1	0	0	0	0	0	0	0	1	207	1103	39	1		1	ACTN4	19	39220045	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	214372	39220045	19908938	1664	103543											
CAPN12	147968	broad.mit.edu	37	chr19	39230781	39230781	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttttgtctcagatagagcacCtcgcccacgccgcctgtgaa	8	10	9	14	3	1	3	1	1	1	2	3	3	1	3	4	0	1	1	4	0	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:39230781C>A	uc002ojd.1	-	5	948	c.639G>T	c.(637-639)GAG>GAT	p.E213D		NM_144691	NP_653292	Q6ZSI9	CAN12_HUMAN	calpain 12	213	Calpain catalytic.				proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			central_nervous_system(1)|pancreas(1)	2	all_cancers(60;2.87e-05)|Ovarian(47;0.0454)		Lung(45;0.00416)|LUSC - Lung squamous cell carcinoma(53;0.00741)			GATAGAGCACCTCGCCCACGC	0.627													13	18					7.03913e-09	7.38233e-09	1	1	0		A	39230781	A	A	39230781	3	1	211	1	0	0	0	0	1	0	0	0	2628	680	24	5	1588	5	CAPN12	19	39230781	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	10736	39230781	19898202	1665	103544											
TIMM50	92609	broad.mit.edu	37	chr19	39971205	39971205	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atggcctcagctttatctctGggcaataagtgtgatccctt	8	14	9	10	0	2	1	1	1	1	0	4	1	3	1	2	2	1	2	2	2	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:39971205G>A	uc002olu.1	+	1	154	c.21G>A	c.(19-21)CTG>CTA	p.L7L	TIMM50_uc002olt.1_RNA	NM_001001563	NP_001001563	Q3ZCQ8	TIM50_HUMAN	translocase of inner mitochondrial membrane 50	Error:Variant_position_missing_in_Q3ZCQ8_after_alignment					mitochondrial membrane organization|protein transport|release of cytochrome c from mitochondria|transmembrane transport	integral to membrane|mitochondrial inner membrane presequence translocase complex|nuclear speck	interleukin-2 receptor binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|ribonucleoprotein binding|RNA binding			ovary(1)	1	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)			CTTTATCTCTGGGCAATAAGT	0.542													25	61					0	0	1	0	0		A	39971205	A	A	39971205	2	1	211	1	0	0	0	0	0	0	0	1	15938	1335	47	4		4	TIMM50	19	39971205	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	740424	39971205	19157778	1666	103545											
DLL3	10683	broad.mit.edu	37	chr19	39997718	39997718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggccacgccctgcgctgccGctgccgcgccggcttcgcgg	1	5	16	19	8	0	0	0	0	0	0	1	0	0	0	5	3	3	3	5	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:39997718G>A	uc002olx.2	+	7	1191	c.1133G>A	c.(1132-1134)CGC>CAC	p.R378H	DLL3_uc002olw.2_Missense_Mutation_p.R378H	NM_016941	NP_058637	Q9NYJ7	DLL3_HUMAN	delta-like 3 protein isoform 1 precursor	378	EGF-like 4.|Extracellular (Potential).				Notch signaling pathway|skeletal system development	integral to membrane	Notch binding			central_nervous_system(2)|breast(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;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			CTGCGCTGCCGCTGCCGCGCC	0.766													3	5					0	0	1	0	0		A	39997718	A	A	39997718	3	1	211	1	0	0	0	0	1	0	0	0	4573	1087	38	1	1159	1	DLL3	19	39997718	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	26513	39997718	19131265	1667	103546											
AKT2	208	broad.mit.edu	37	chr19	40762839	40762839	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcccaagacacacctgctaCggagaagttgtttaaggggg	12	8	12	9	1	0	2	0	0	0	2	1	3	1	2	2	3	2	3	2	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:40762839C>T	uc002onf.2	-	3	431	c.169G>A	c.(169-171)GTA>ATA	p.V57I	AKT2_uc010egs.2_Missense_Mutation_p.V57I|AKT2_uc010egt.2_5'UTR|AKT2_uc010xvj.1_5'UTR|AKT2_uc010egu.1_5'UTR|AKT2_uc010xvk.1_Missense_Mutation_p.V57I	NM_001626	NP_001617	P31751	AKT2_HUMAN	AKT2 kinase	57	PH.				insulin receptor signaling pathway|negative regulation of plasma membrane long-chain fatty acid transport|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process	cytosol|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)	2			Lung(22;0.000499)			ACACCTGCTACGGAGAAGTTG	0.557			A		ovarian|pancreatic 								16	52					0	0	1	0	0		T	40762839	T	T	40762839	3	4	211	1	0	0	0	0	1	0	0	0	480	536	19	1	1324	1	AKT2	19	40762839	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	765121	40762839	18366144	1668	103547											
AXL	558	broad.mit.edu	37	chr19	41744408	41744408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgagaacattagtgctaCgcggaatgggagccaggcct	10	7	13	11	2	0	1	0	1	0	1	0	4	0	3	3	3	4	1	3	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:41744408C>T	uc010ehj.2	+	8	1218	c.1028C>T	c.(1027-1029)ACG>ATG	p.T343M	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Missense_Mutation_p.T343M|AXL_uc010ehk.2_Missense_Mutation_p.T343M	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	343	Extracellular (Potential).|Fibronectin type-III 2.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						ATTAGTGCTACGCGGAATGGG	0.662													27	47					0	0	1	0	0		T	41744408	T	T	41744408	3	4	211	1	0	0	0	0	1	0	0	0	1239	536	19	1	1058	1	AXL	19	41744408	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	981569	41744408	17384575	1669	103548											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41810040	41810040	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaccaccccagcagccaccGccaccacccagctacagccc	10	1	5	25	1	0	0	0	0	0	0	0	0	0	0	10	0	5	2	10	0	1	1	rs148483967		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:41810040G>A	uc002oqb.3	+	13	2425	c.2136G>A	c.(2134-2136)CCG>CCA	p.P712P	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Silent_p.P612P|HNRNPUL1_uc002oqa.3_Silent_p.P612P|HNRNPUL1_uc010ehm.2_Silent_p.P712P|HNRNPUL1_uc002oqc.3_Silent_p.P598P|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Silent_p.P612P|HNRNPUL1_uc010ehn.2_Silent_p.P612P|HNRNPUL1_uc010eho.2_Silent_p.P612P|HNRNPUL1_uc010xvy.1_Silent_p.P612P|HNRNPUL1_uc010ehp.2_Silent_p.P568P|HNRNPUL1_uc002oqf.3_Silent_p.P236P	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	712	Pro-rich.|Necessary for interaction with TP53.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						agcagccaccgccaccaccCA	0.413													18	29					0	0	1	0	0		A	41810040	A	A	41810040	2	1	211	1	0	0	0	0	0	0	0	1	7290	1074	38	1		1	HNRNPUL1	19	41810040	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	65632	41810040	17318943	1670	103549											
MEGF8	1954	broad.mit.edu	37	chr19	42879930	42879930	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctatgacaccttcgtggtccGtgtggcccctgacactggcg	5	10	12	14	3	0	2	0	2	0	0	2	2	1	2	4	3	0	0	4	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:42879930G>A	uc002otl.3	+	41	7975	c.7340G>A	c.(7339-7341)CGT>CAT	p.R2447H	MEGF8_uc002otm.3_Missense_Mutation_p.R2055H|MEGF8_uc002otn.3_Missense_Mutation_p.R108H	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	2514	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				TTCGTGGTCCGTGTGGCCCCT	0.652													7	23					0	0	1	0	0		A	42879930	A	A	42879930	3	1	211	1	0	0	0	0	1	0	0	0	9481	1145	40	1	7502	1	MEGF8	19	42879930	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1069890	42879930	16249053	1671	103550											
LIPE	3991	broad.mit.edu	37	chr19	42909669	42909669	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaccagccccatcatgcCgagggctttctggtctgagt	6	9	11	15	2	3	1	1	1	2	0	3	2	3	1	5	2	2	2	5	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:42909669C>A	uc002otr.2	-	8	2687	c.2410G>T	c.(2410-2412)GGC>TGC	p.G804C	uc010eif.1_Intron	NM_005357	NP_005348	Q05469	LIPS_HUMAN	hormone-sensitive lipase	804					cholesterol metabolic process|protein phosphorylation|triglyceride catabolic process	caveola|cytosol	hormone-sensitive lipase activity|protein binding			ovary(1)|breast(1)	2		Prostate(69;0.00682)				CCCATCATGCCGAGGGCTTTC	0.577													20	62					7.45023e-12	7.99274e-12	1	1	0		A	42909669	A	A	42909669	3	1	211	1	0	0	0	0	1	0	0	0	8838	652	23	5	832	5	LIPE	19	42909669	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	29739	42909669	16219314	1672	103551											
PSG8	440533	broad.mit.edu	37	chr19	43258696	43258696	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagaggacttctcctgaacgGtaataggtgaatgaagggta	13	10	13	5	1	1	4	0	3	1	1	2	5	1	5	1	4	1	2	1	4	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:43258696G>A	uc002ouo.2	-	5	1130	c.1032C>T	c.(1030-1032)TAC>TAT	p.Y344Y	PSG3_uc002ouf.2_Intron|PSG1_uc002oug.1_Intron|PSG8_uc010eim.2_RNA|PSG8_uc002oui.2_Silent_p.Y183Y|PSG8_uc002ouh.2_Silent_p.Y344Y|PSG8_uc010ein.2_Silent_p.Y222Y|PSG8_uc002ouj.3_Silent_p.Y126Y|PSG8_uc002ouk.3_Silent_p.Y183Y|PSG8_uc002oul.3_Silent_p.Y344Y|PSG8_uc002oum.3_Silent_p.Y251Y|PSG1_uc002oun.2_Intron|PSG8_uc002oup.3_Silent_p.Y251Y	NM_182707	NP_874366	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8 isoform	344	Ig-like C2-type 3.					extracellular region					0		Prostate(69;0.00899)				CTCCTGAACGGTAATAGGTGA	0.473													39	78					0	0	1	0	0		A	43258696	A	A	43258696	2	1	211	1	0	0	0	0	0	0	0	1	12683	1256	44	4		4	PSG8	19	43258696	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	349027	43258696	15870287	1673	103552											
PSG7	5676	broad.mit.edu	37	chr19	43433781	43433781	+	Silent	SNP	T	C	C	0	1	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	caccacaggtagcttgcatcTggagtctcaggatcacaggt	10	9	11	11	0	3	0	2	0	2	0	4	2	3	2	1	4	2	3	1	4	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:43433781T>C	uc002ovl.3	-	4	624	c.522A>G	c.(520-522)CCA>CCG	p.P174P	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_5'Flank|PSG7_uc002out.1_5'UTR|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG7_uc010xwl.1_Silent_p.P52P	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	174	Ig-like C2-type 1.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				AGCTTGCATCTGGAGTCTCAG	0.532													91	222					0	0	1	0	0		C	43433781	C	C	43433781	2	2	211	1	0	0	0	0	0	0	0	1	12682	1567	55	3		3	PSG7	19	43433781	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	175085	43433781	15695202	1674	103553											
RELB	5971	broad.mit.edu	37	chr19	45515294	45515294	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgtctcgcggggctgcGtccctgagcacggtcaccct	3	9	14	15	4	2	1	1	1	1	0	4	1	3	1	2	4	2	2	2	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:45515294G>A	uc002paj.1	+	5	390	c.264G>A	c.(262-264)GCG>GCA	p.A88A		NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	88						nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		GCGGGGCTGCGTCCCTGAGCA	0.746													7	8					0	0	1	0	0		A	45515294	A	A	45515294	2	1	211	1	0	0	0	0	0	0	0	1	13242	1132	40	1		1	RELB	19	45515294	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2081513	45515294	13613689	1675	103554											
ZNF296	162979	broad.mit.edu	37	chr19	45575278	45575278	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccactgccaggagcccCgggttcctggacacctgctg	6	6	12	17	1	0	0	0	0	0	0	1	2	1	2	7	3	4	2	7	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:45575278C>T	uc002pao.2	-	3	1066	c.1009G>A	c.(1009-1011)GGG>AGG	p.G337R		NM_145288	NP_660331	Q8WUU4	ZN296_HUMAN	zinc finger protein 296	337					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CCAGGAGCCCCGGGTTCCTGG	0.667													32	83					0	0	1	0	0		T	45575278	T	T	45575278	3	4	211	1	0	0	0	0	1	0	0	0	17853	652	23	1	422	1	ZNF296	19	45575278	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	59984	45575278	13553705	1676	103555											
EXOC3L2	90332	broad.mit.edu	37	chr19	45731456	45731456	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgggccaggctgctgggctgGtcctccaggctcccccagtg	3	8	15	15	0	0	0	0	0	0	0	3	0	3	0	5	5	1	4	5	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:45731456G>A	uc002pay.1	-	3	200	c.159C>T	c.(157-159)GAC>GAT	p.D53D		NM_138568	NP_612635	Q2M3D2	EX3L2_HUMAN	exocyst complex component 3-like 2	53										ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00883)		TGCTGGGCTGGTCCTCCAGGC	0.652													54	139					0	0	1	0	0		A	45731456	A	A	45731456	2	1	211	1	0	0	0	0	0	0	0	1	5313	1252	44	4		4	EXOC3L2	19	45731456	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	156178	45731456	13397527	1677	103556											
EML2	24139	broad.mit.edu	37	chr19	46137614	46137614	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgtgtcccaggtagtgtcGctgcctctgctcctccacgc	3	12	11	15	2	1	0	0	0	1	0	5	0	4	0	4	1	2	4	4	1	1	2	rs35928591		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:46137614G>A	uc002pcn.2	-	4	330	c.295C>T	c.(295-297)CGA>TGA	p.R99*	EML2_uc002pco.2_RNA|EML2_uc002pcp.2_Intron|EML2_uc010xxl.1_Nonsense_Mutation_p.R246*|EML2_uc010xxm.1_Nonsense_Mutation_p.R300*|EML2_uc010xxn.1_RNA|EML2_uc010xxo.1_Nonsense_Mutation_p.R99*|EML2_uc010ekj.2_Nonsense_Mutation_p.R99*	NM_012155	NP_036287	O95834	EMAL2_HUMAN	echinoderm microtubule associated protein like	99					sensory perception of sound|visual perception	cytoplasm|intracellular membrane-bounded organelle|microtubule|microtubule associated complex	catalytic activity|protein binding			large_intestine(1)|ovary(1)	2		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)		AGGTAGTGTCGCTGCCTCTGC	0.607													20	46					0	0	1	0	0		A	46137614	A	A	46137614	4	1	211	1	0	0	0	0	0	1	0	0	5105	1095	38	1	1718	1	EML2	19	46137614	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	406158	46137614	12991369	1678	103557											
QPCTL	54814	broad.mit.edu	37	chr19	46205070	46205070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccagagaagcgtctgcacCgtttgaacctgctgcagtct	8	11	10	12	2	2	2	0	1	2	1	3	3	3	2	3	0	5	4	3	0	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:46205070C>T	uc010xxr.1	+	6	1122	c.901C>T	c.(901-903)CGT>TGT	p.R301C	QPCTL_uc010ekn.2_Missense_Mutation_p.R207C	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	301					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		GCGTCTGCACCGTTTGAACCT	0.567													21	60					0	0	1	0	0		T	46205070	T	T	46205070	3	4	211	1	0	0	0	0	1	0	0	0	12900	652	23	1	923	1	QPCTL	19	46205070	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	67456	46205070	12923913	1679	103558											
FBXO46	23403	broad.mit.edu	37	chr19	46215486	46215486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggccggggagtcggccgggGgtggctccgggggcccgtcc	1	5	22	13	5	0	0	0	0	0	0	3	1	2	1	5	9	0	1	5	9	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:46215486G>A	uc002pcy.2	-	2	1393	c.1268C>T	c.(1267-1269)CCC>CTC	p.P423L	FBXO46_uc002pcz.2_Missense_Mutation_p.P423L	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	423							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		GTCGGCCGGGGGTGGCTCCGG	0.731													5	12					0	0	1	0	0		A	46215486	A	A	46215486	3	1	211	1	0	0	0	0	1	0	0	0	5769	1232	43	4	547	4	FBXO46	19	46215486	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10416	46215486	12913497	1680	103559											
FOXA3	3171	broad.mit.edu	37	chr19	46375522	46375522	+	Missense_Mutation	SNP	A	G	G	1	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	gcctgggtgtcagcggtggcAgcagcagctccgggtacggg	5	6	19	11	3	1	0	1	0	0	0	2	0	2	0	2	5	5	5	2	5	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:46375522A>G	uc002pdr.2	+	2	456	c.259A>G	c.(259-261)AGC>GGC	p.S87G		NM_004497	NP_004488	P55318	FOXA3_HUMAN	forkhead box A3	87					brain development|cellular glucose homeostasis|cellular response to starvation|chromatin modification|embryo development|endocrine pancreas development|negative regulation of cell proliferation|neural plate anterior/posterior regionalization|neuron fate specification|positive regulation of hepatocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)	1		Ovarian(192;0.0308)|all_neural(266;0.0476)		OV - Ovarian serous cystadenocarcinoma(262;0.00453)|GBM - Glioblastoma multiforme(486;0.0518)|Epithelial(262;0.236)		CAGCGGTGGCAGCAGCAGCTC	0.731													12	48					0	0	1	0	0		G	46375522	G	G	46375522	3	3	211	1	0	0	0	0	1	0	0	0	6005	188	7	3	265	3	FOXA3	19	46375522	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	160036	46375522	12753461	1681	103560											
IRF2BP1	26145	broad.mit.edu	37	chr19	46387909	46387909	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgacggcgcggcgtgggcGccaggttccgggatggggct	3	6	21	11	7	0	0	0	0	0	0	1	2	1	1	2	7	1	2	2	7	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:46387909G>A	uc002pds.1	-	1	1468	c.1124C>T	c.(1123-1125)GCG>GTG	p.A375V		NM_015649	NP_056464	Q8IU81	I2BP1_HUMAN	interferon regulatory factor 2 binding protein	375					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0402)|Epithelial(262;0.231)		CGGCGTGGGCGCCAGGTTCCG	0.756													6	18					0	0	1	0	0		A	46387909	A	A	46387909	3	1	211	1	0	0	0	0	1	0	0	0	7845	1087	38	1	634	1	IRF2BP1	19	46387909	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	12387	46387909	12741074	1682	103561											
PRKD2	25865	broad.mit.edu	37	chr19	47177930	47177930	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcacgtcgtcactctcatgCgtgatgtatcgctctcccat	6	12	8	15	5	3	1	2	1	2	0	7	1	3	1	1	0	1	3	1	0	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:47177930C>T	uc002pfh.2	-	19	2829	c.2487G>A	c.(2485-2487)ACG>ACA	p.T829T	PRKD2_uc002pfd.2_Silent_p.T203T|PRKD2_uc010eks.2_Silent_p.T232T|PRKD2_uc010ekt.2_Silent_p.T96T|PRKD2_uc002pfe.2_Silent_p.T359T|PRKD2_uc002pff.2_Silent_p.T349T|PRKD2_uc002pfg.2_Silent_p.T672T|PRKD2_uc002pfi.2_Silent_p.T829T|PRKD2_uc002pfj.2_Silent_p.T829T|PRKD2_uc010xye.1_Silent_p.T839T|PRKD2_uc002pfk.2_Silent_p.T672T	NM_001079881	NP_001073350	Q9BZL6	KPCD2_HUMAN	protein kinase D2 isoform A	829					cell death|intracellular signal transduction|positive regulation of transcription from RNA polymerase II promoter|protein autophosphorylation|T cell receptor signaling pathway	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein kinase C activity			ovary(2)|central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)	7		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000189)|all cancers(93;0.000545)|Epithelial(262;0.0219)|GBM - Glioblastoma multiforme(486;0.0353)		CACTCTCATGCGTGATGTATC	0.637													12	38					0	0	1	0	0		T	47177930	T	T	47177930	2	4	211	1	0	0	0	0	0	0	0	1	12541	755	27	1		1	PRKD2	19	47177930	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	790021	47177930	11951053	1683	103562											
C5AR1	728	broad.mit.edu	37	chr19	47823236	47823236	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacggcattcgaggccaagCggaccatcaatgccatctgg	10	7	12	12	3	2	1	1	1	1	0	3	3	2	2	3	4	2	1	3	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:47823236C>T	uc002pgj.1	+	2	251	c.202C>T	c.(202-204)CGG>TGG	p.R68W		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	68	Cytoplasmic (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		CGAGGCCAAGCGGACCATCAA	0.577													21	67					0	0	1	0	0		T	47823236	T	T	47823236	3	4	211	1	0	0	0	0	1	0	0	0	2284	759	27	1	207	1	C5AR1	19	47823236	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	645306	47823236	11305747	1684	103563											
C5AR1	728	broad.mit.edu	37	chr19	47823428	47823428	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctcctggccaccatcagcGccgaccgctttctgctggtg	4	10	11	16	3	2	0	1	0	1	0	3	1	3	0	5	2	3	3	5	2	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:47823428G>A	uc002pgj.1	+	2	443	c.394G>A	c.(394-396)GCC>ACC	p.A132T		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	132	Helical; Name=3; (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		CACCATCAGCGCCGACCGCTT	0.632													8	70					0	0	1	0	0		A	47823428	A	A	47823428	3	1	211	1	0	0	0	0	1	0	0	0	2284	1087	38	1	399	1	C5AR1	19	47823428	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	192	47823428	11305555	1685	103564											
C5AR1	728	broad.mit.edu	37	chr19	47823993	47823993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atccctccccagcctcctccGgaacgtgttgactgaagagt	8	9	9	15	2	0	3	0	2	0	1	4	4	4	4	6	1	2	1	6	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:47823993G>A	uc002pgj.1	+	2	1008	c.959G>A	c.(958-960)CGG>CAG	p.R320Q		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	320	Cytoplasmic (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		AGCCTCCTCCGGAACGTGTTG	0.592													27	86					0	0	1	0	0		A	47823993	A	A	47823993	3	1	211	1	0	0	0	0	1	0	0	0	2284	1116	39	1	964	1	C5AR1	19	47823993	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	565	47823993	11304990	1686	103565											
GRIN2D	2906	broad.mit.edu	37	chr19	48917652	48917652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcagctgggagcagcagaCgctccgcctcaagtacccgc	8	4	14	15	3	1	1	1	0	0	1	2	2	2	2	3	2	4	6	3	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:48917652C>T	uc002pjc.3	+	5	1311	c.1223C>T	c.(1222-1224)ACG>ATG	p.T408M		NM_000836	NP_000827	O15399	NMDE4_HUMAN	N-methyl-D-aspartate receptor subunit 2D	408	Extracellular (Potential).					cell junction|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|protein binding			ovary(3)|breast(3)	6		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)	L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Orphenadrine(DB01173)	GAGCAGCAGACGCTCCGCCTC	0.632													3	16					0	0	1	0	0		T	48917652	T	T	48917652	3	4	211	1	0	0	0	0	1	0	0	0	6798	536	19	1	1237	1	GRIN2D	19	48917652	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1093659	48917652	10211331	1687	103566											
NOSIP	51070	broad.mit.edu	37	chr19	50059063	50059063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcttcactccggagcccGcgaagccggtaccgccctgg	6	5	13	17	5	1	0	1	0	0	0	2	2	2	1	5	3	4	3	5	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:50059063G>A	uc002pok.2	-	10	1003	c.851C>T	c.(850-852)GCG>GTG	p.A284V	NOSIP_uc002pol.2_Missense_Mutation_p.A284V	NM_015953	NP_057037	Q9Y314	NOSIP_HUMAN	nitric oxide synthase interacting protein	284					negative regulation of nitric-oxide synthase activity|nitric oxide metabolic process	cytosol|nucleus	protein binding			skin(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00321)|GBM - Glioblastoma multiforme(134;0.0133)		TCCGGAGCCCGCGAAGCCGGT	0.647													26	37					0	0	1	0	0		A	50059063	A	A	50059063	3	1	211	1	0	0	0	0	1	0	0	0	10564	1087	38	1	58	1	NOSIP	19	50059063	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1141411	50059063	9069920	1688	103567											
CPT1C	126129	broad.mit.edu	37	chr19	50204806	50204806	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgaggacttcgactggaccgCggtcctggcgcaggaattcc	7	7	14	13	5	0	0	0	0	0	0	3	5	2	3	3	5	0	1	3	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:50204806C>T	uc002ppj.2	+	6	813	c.608C>T	c.(607-609)GCG>GTG	p.A203V	CPT1C_uc002ppl.3_Missense_Mutation_p.A169V|CPT1C_uc002ppi.2_Missense_Mutation_p.A120V|CPT1C_uc002ppk.2_Missense_Mutation_p.A203V|CPT1C_uc010eng.2_Missense_Mutation_p.A203V|CPT1C_uc010enh.2_Missense_Mutation_p.A203V|CPT1C_uc010ybc.1_Missense_Mutation_p.A41V	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	203	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		GACTGGACCGCGGTCCTGGCG	0.562													11	46					0	0	1	0	0		T	50204806	T	T	50204806	3	4	211	1	0	0	0	0	1	0	0	0	3836	768	27	1	626	1	CPT1C	19	50204806	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	145743	50204806	8924177	1689	103568											
CPT1C	126129	broad.mit.edu	37	chr19	50208533	50208533	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaagatcttcaacaccacGcggattccaggggtccaaaa	14	6	10	11	2	2	2	1	0	1	2	4	4	4	3	3	3	1	0	3	3	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:50208533G>A	uc002ppj.2	+	9	1147	c.942G>A	c.(940-942)ACG>ACA	p.T314T	CPT1C_uc002ppl.3_Silent_p.T280T|CPT1C_uc002ppi.2_Silent_p.T231T|CPT1C_uc002ppk.2_Silent_p.T303T|CPT1C_uc010eng.2_Silent_p.T314T|CPT1C_uc010enh.2_Silent_p.T314T|CPT1C_uc010ybc.1_Silent_p.T185T|CPT1C_uc010eni.1_5'Flank	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	314	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		TCAACACCACGCGGATTCCAG	0.443													24	88					0	0	1	0	0		A	50208533	A	A	50208533	2	1	211	1	0	0	0	0	0	0	0	1	3836	1074	38	1		1	CPT1C	19	50208533	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3727	50208533	8920450	1690	103569											
PNKP	11284	broad.mit.edu	37	chr19	50365310	50365310	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctggtcataccctgttcacGtggacatatccggccgacac	8	9	9	15	3	2	0	2	0	0	0	3	2	3	1	4	3	1	1	4	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:50365310G>A	uc002pqh.2	-	12	1231	c.1179C>T	c.(1177-1179)CAC>CAT	p.H393H	PNKP_uc002pqg.2_Silent_p.H174H|PNKP_uc002pqi.2_Silent_p.H354H|PNKP_uc002pqj.2_Silent_p.H393H|PNKP_uc010enm.2_Silent_p.H362H|PNKP_uc002pqk.2_Silent_p.H393H	NM_007254	NP_009185	Q96T60	PNKP_HUMAN	polynucleotide kinase 3' phosphatase	393					DNA damage response, detection of DNA damage|DNA-dependent DNA replication|nucleotide-excision repair, DNA damage removal|response to oxidative stress|response to radiation	nucleolus	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|damaged DNA binding|double-stranded DNA binding|endonuclease activity|nucleotide kinase activity|polynucleotide 3'-phosphatase activity|protein binding			ovary(1)|kidney(1)	2		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		GBM - Glioblastoma multiforme(134;0.0118)|OV - Ovarian serous cystadenocarcinoma(262;0.0134)		CCCTGTTCACGTGGACATATC	0.582								Other_BER_factors					11	53					0	0	1	0	0		A	50365310	A	A	50365310	2	1	211	1	0	0	0	0	0	0	0	1	12166	1136	40	1		1	PNKP	19	50365310	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	156777	50365310	8763673	1691	103570											
SIGLEC11	114132	broad.mit.edu	37	chr19	50461749	50461749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accagcgcagagagggggccGggctggcctgggaggagcag	8	2	21	10	2	0	1	0	0	0	1	0	4	0	3	3	6	2	3	3	6	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:50461749G>A	uc010ybh.1	-	8	1533	c.1442C>T	c.(1441-1443)CCG>CTG	p.P481L	SIGLEC11_uc010ybi.1_Intron	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1	481	Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|central_nervous_system(2)|pancreas(1)	6		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00107)|OV - Ovarian serous cystadenocarcinoma(262;0.00517)		AGAGGGGGCCGGGCTGGCCTG	0.711													3	23					0	0	1	0	0		A	50461749	A	A	50461749	3	1	211	1	0	0	0	0	1	0	0	0	14332	1116	39	1	670	1	SIGLEC11	19	50461749	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	96439	50461749	8667234	1692	103571											
KLK3	354	broad.mit.edu	37	chr19	51359531	51359531	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtctcggattgtgggaGgctgggagtgcgagaagcat	7	10	17	7	2	1	1	0	0	1	1	3	5	2	4	1	4	2	2	1	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:51359531G>T	uc002pts.1	+	2	123	c.82G>T	c.(82-84)GGC>TGC	p.G28C	KLK3_uc002ptp.1_Missense_Mutation_p.G28C|KLK3_uc010ycj.1_Missense_Mutation_p.G28C|KLK3_uc002ptr.1_Missense_Mutation_p.G28C|KLK3_uc010eof.1_RNA	NM_001030047	NP_001025218	P07288	KLK3_HUMAN	prostate specific antigen isoform 3	28	Peptidase S1.				negative regulation of angiogenesis|proteolysis	extracellular region	serine-type endopeptidase activity			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00763)|GBM - Glioblastoma multiforme(134;0.0144)		GATTGTGGGAGGCTGGGAGTG	0.632													26	101					3.99451e-17	4.34607e-17	1	1	0		T	51359531	T	T	51359531	3	4	211	1	0	0	0	0	1	0	0	0	8421	1000	35	5	88	5	KLK3	19	51359531	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	897782	51359531	7769452	1693	103572											
KLK9	284366	broad.mit.edu	37	chr19	51512561	51512561	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagttggggcgacattcctcGgccccgatggcacgggtgtc	5	8	16	12	4	0	0	0	0	0	0	3	3	1	0	3	5	0	2	3	5	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:51512561G>A	uc002pux.1	-	2	165	c.78C>T	c.(76-78)GCC>GCT	p.A26A	KLK9_uc002puw.1_RNA|KLK9_uc010eol.1_Intron	NM_012315	NP_036447	Q9UKQ9	KLK9_HUMAN	kallikrein-related peptidase 9 precursor	26	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.0652)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		GACATTCCTCGGCCCCGATGG	0.662													5	10					0	0	1	0	0		A	51512561	A	A	51512561	2	1	211	1	0	0	0	0	0	0	0	1	8427	1103	39	1		1	KLK9	19	51512561	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	153030	51512561	7616422	1694	103573											
KLK12	43849	broad.mit.edu	37	chr19	51535220	51535220	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaggggcaggggttgaacGctgctggttacgcggacggg	6	6	21	8	4	0	1	0	1	0	0	0	2	0	2	0	8	3	6	0	8	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:51535220G>A	uc002pvg.1	-	3	489	c.369C>T	c.(367-369)AGC>AGT	p.S123S	KLK12_uc010ycp.1_RNA|KLK12_uc010ycq.1_Intron|KLK12_uc010ycr.1_Intron|KLK12_uc010ycs.1_Intron|KLK12_uc002pvh.1_Silent_p.S123S|KLK12_uc002pvi.1_Silent_p.S123S|KLK12_uc002pvj.1_Intron	NM_145894	NP_665901	Q9UKR0	KLK12_HUMAN	kallikrein 12 isoform 2	123	Peptidase S1.				proteolysis	extracellular region|soluble fraction	serine-type endopeptidase activity			ovary(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00399)		GGGGTTGAACGCTGCTGGTTA	0.677													18	45					0	0	1	0	0		A	51535220	A	A	51535220	2	1	211	1	0	0	0	0	0	0	0	1	8416	1078	38	1		1	KLK12	19	51535220	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	22659	51535220	7593763	1695	103574											
CD33	945	broad.mit.edu	37	chr19	51729600	51729600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacaactggtatctttccaGgagatggctcaggtaggaag	12	9	12	8	0	2	1	1	0	1	1	3	3	3	2	1	5	2	3	1	5	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:51729600G>A	uc002pwa.2	+	4	773	c.733G>A	c.(733-735)GGA>AGA	p.G245R	CD33_uc010eos.1_Missense_Mutation_p.G245R|CD33_uc010eot.1_Missense_Mutation_p.G118R|CD33_uc010eou.1_Intron	NM_001772	NP_001763	P20138	CD33_HUMAN	CD33 antigen isoform 1 precursor	245	Extracellular (Potential).				cell adhesion|cell-cell signaling|negative regulation of cell proliferation	external side of plasma membrane|integral to plasma membrane	receptor activity|sugar binding				0		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000224)|OV - Ovarian serous cystadenocarcinoma(262;0.00468)	Gemtuzumab ozogamicin(DB00056)	TATCTTTCCAGGAGATGGCTC	0.498													18	80					0	0	1	0	0		A	51729600	A	A	51729600	3	1	211	1	0	0	0	0	1	0	0	0	3008	1001	35	4	747	4	CD33	19	51729600	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	194380	51729600	7399383	1696	103575											
SIGLEC6	946	broad.mit.edu	37	chr19	52033157	52033157	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaggtgtgcaggggggttgCcgtcagcatcacagagcagc	8	7	16	10	1	3	1	3	0	0	1	3	1	3	1	1	4	5	4	1	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:52033157C>A	uc002pwy.2	-	5	995	c.833G>T	c.(832-834)GGC>GTC	p.G278V	SIGLEC6_uc002pwz.2_Missense_Mutation_p.G262V|SIGLEC6_uc002pxa.2_Missense_Mutation_p.G278V|SIGLEC6_uc010ydb.1_Missense_Mutation_p.G215V|SIGLEC6_uc010ydc.1_Missense_Mutation_p.G278V|SIGLEC6_uc010eoz.1_Missense_Mutation_p.G256V|SIGLEC6_uc010epb.1_Missense_Mutation_p.G231V|SIGLEC6_uc010epa.1_Missense_Mutation_p.G267V	NM_001245	NP_001236	O43699	SIGL6_HUMAN	sialic acid binding Ig-like lectin 6 isoform 1	278	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell-cell signaling	cytoplasm|extracellular region|integral to plasma membrane|membrane fraction|nucleus				ovary(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00115)|OV - Ovarian serous cystadenocarcinoma(262;0.0165)		AGGGGGGTTGCCGTCAGCATC	0.622													28	72					4.22769e-11	4.51304e-11	1	1	0		A	52033157	A	A	52033157	3	1	211	1	0	0	0	0	1	0	0	0	14337	739	26	5	544	5	SIGLEC6	19	52033157	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	303557	52033157	7095826	1697	103576											
SIGLEC5	8778	broad.mit.edu	37	chr19	52131128	52131128	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatttgcaggaagcccagcGggtgctgagcgcggcaggtg	9	6	17	9	3	0	1	0	1	0	0	0	2	0	2	1	4	5	3	1	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:52131128G>A	uc002pxe.2	-	5	1095	c.956C>T	c.(955-957)CCG>CTG	p.P319L		NM_003830	NP_003821	O15389	SIGL5_HUMAN	sialic acid binding Ig-like lectin 5 precursor	319	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion	integral to membrane	sugar binding			skin(2)|breast(1)|central_nervous_system(1)	4		all_neural(266;0.0726)		GBM - Glioblastoma multiforme(134;0.00124)|OV - Ovarian serous cystadenocarcinoma(262;0.0218)		GAAGCCCAGCGGGTGCTGAGC	0.562													18	53					0	0	1	0	0		A	52131128	A	A	52131128	3	1	211	1	0	0	0	0	1	0	0	0	14336	1116	39	1	719	1	SIGLEC5	19	52131128	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	97971	52131128	6997855	1698	103577											
PPP2R1A	5518	broad.mit.edu	37	chr19	52723484	52723484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacttaactccttgtgcatgGcctggcttgtggatcatggt	7	14	11	9	0	1	0	1	0	0	0	2	1	2	1	2	4	3	2	2	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:52723484G>A	uc002pyp.2	+	11	1504	c.1345G>A	c.(1345-1347)GCC>ACC	p.A449T	PPP2R1A_uc010ydk.1_Missense_Mutation_p.A394T|PPP2R1A_uc002pyq.2_Missense_Mutation_p.A270T	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	449	PP2A subunit C binding.|HEAT 12.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		CTTGTGCATGGCCTGGCTTGT	0.547			Mis		clear cell ovarian carcinoma								38	108					0	0	1	0	0		A	52723484	A	A	52723484	3	1	211	1	0	0	0	0	1	0	0	0	12404	1203	42	2	1387	2	PPP2R1A	19	52723484	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	592356	52723484	6405499	1699	103578											
ZNF677	342926	broad.mit.edu	37	chr19	53747065	53747065	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttctccaacatcacgtccCtgtacaaggccctctgggca	9	9	8	15	1	3	0	1	0	2	0	5	0	4	0	3	2	2	3	3	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:53747065C>A	uc002qbf.1	-	4	286	c.101G>T	c.(100-102)AGG>ATG	p.R34M	ZNF677_uc002qbg.1_Missense_Mutation_p.R34M|ZNF677_uc002qbh.2_RNA	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	34	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		CATCACGTCCCTGTACAAGGC	0.473													20	55					1.33834e-09	1.41185e-09	1	1	0		A	53747065	A	A	53747065	3	1	211	1	0	0	0	0	1	0	0	0	18109	681	24	5	1661	5	ZNF677	19	53747065	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1023581	53747065	5381918	1700	103579											
ZNF845	91664	broad.mit.edu	37	chr19	53855783	53855783	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcaaatttttcagacatCgttcataccttgcagttcat	10	15	7	9	1	3	1	3	0	0	1	4	1	3	1	1	1	2	4	1	1	2	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:53855783C>T	uc010ydv.1	+	4	1972	c.1855C>T	c.(1855-1857)CGT>TGT	p.R619C	ZNF845_uc010ydw.1_Missense_Mutation_p.R619C	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	619	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TTTCAGACATCGTTCATACCT	0.368													4	9					0	0	1	0	0		T	53855783	T	T	53855783	3	4	211	1	0	0	0	0	1	0	0	0	18216	884	31	1	1865	1	ZNF845	19	53855783	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	108718	53855783	5273200	1701	103580											
LILRB3	11025	broad.mit.edu	37	chr19	54746593	54746593	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agagcagggctgtgagggcgGgcgtcatggcgtctccttcc	5	8	17	11	3	2	2	1	1	1	1	4	2	3	2	2	4	1	2	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:54746593G>A	uc010erh.1	-	1	132	c.8C>T	c.(7-9)CCC>CTC	p.P3L	LILRA6_uc002qew.1_Intron|LILRB3_uc002qeh.1_Missense_Mutation_p.P3L|LILRB3_uc002qeg.1_RNA|LILRB3_uc002qei.1_Missense_Mutation_p.P3L|LILRA6_uc002qek.1_Missense_Mutation_p.P3L|LILRB3_uc002qej.1_RNA|LILRA6_uc002qel.1_Missense_Mutation_p.P3L|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Missense_Mutation_p.P3L|LILRB3_uc002qep.1_Missense_Mutation_p.P3L|LILRB3_uc002qeq.1_Missense_Mutation_p.P3L|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Missense_Mutation_p.P3L|LILRA6_uc010yep.1_Missense_Mutation_p.P3L|LILRA6_uc010yeq.1_Missense_Mutation_p.P3L|LILRA6_uc002qet.3_RNA|LILRA6_uc002qeu.1_Missense_Mutation_p.P3L|LILRA6_uc002qev.1_5'Flank	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,	3					cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	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)		TGTGAGGGCGGGCGTCATGGC	0.642													26	32					0	0	1	0	0		A	54746593	A	A	54746593	3	1	211	1	0	0	0	0	1	0	0	0	8808	1232	43	4		4	LILRB3	19	54746593	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	890810	54746593	4382390	1702	103581											
LENG8	114823	broad.mit.edu	37	chr19	54967959	54967959	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgcctcgagcccctggtGctgcagatgagcagcctgga	6	7	14	14	2	0	2	0	1	0	1	1	4	0	3	4	2	6	3	4	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:54967959G>A	uc002qfv.1	+	10	1623	c.1479G>A	c.(1477-1479)GTG>GTA	p.V493V	LENG8_uc002qfw.2_Silent_p.V530V			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	493							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		AGCCCCTGGTGCTGCAGATGA	0.672													5	11					0	0	1	0	0		A	54967959	A	A	54967959	2	1	211	1	0	0	0	0	0	0	0	1	8740	1306	46	2		2	LENG8	19	54967959	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	221366	54967959	4161024	1703	103582											
RDH13	112724	broad.mit.edu	37	chr19	55568152	55568152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcacacttctccatgtctCggcaggccaggatgatgttg	7	11	10	13	1	3	1	1	1	2	0	5	2	3	2	3	3	0	2	3	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:55568152C>T	uc002qio.3	-	3	394	c.209G>A	c.(208-210)CGA>CAA	p.R70Q	RDH13_uc002qip.2_5'UTR|RDH13_uc010yfq.1_RNA|RDH13_uc010esr.1_5'Flank	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	70							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	CTCCATGTCTCGGCAGGCcag	0.328													12	30					0	0	1	0	0		T	55568152	T	T	55568152	3	4	211	1	0	0	0	0	1	0	0	0	13217	884	31	1	806	1	RDH13	19	55568152	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	600193	55568152	3560831	1704	103583											
EPS8L1	54869	broad.mit.edu	37	chr19	55597479	55597479	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcgggacccagcggggcaGgagggatatgtgccctacaa	9	6	16	10	2	0	0	0	0	0	0	1	3	0	3	2	5	3	2	2	5	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:55597479G>T	uc002qis.3	+	16	1673	c.1569G>T	c.(1567-1569)CAG>CAT	p.Q523H	EPS8L1_uc010ess.1_Missense_Mutation_p.Q537H|EPS8L1_uc010yfr.1_Missense_Mutation_p.Q459H|EPS8L1_uc002qiu.2_Missense_Mutation_p.Q396H|EPS8L1_uc002qiv.2_Missense_Mutation_p.Q201H|EPS8L1_uc002qiw.2_Missense_Mutation_p.Q302H	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway	523	SH3.					cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		CAGCGGGGCAGGAGGGATATG	0.627													21	78					2.48779e-11	2.66099e-11	1	1	0		T	55597479	T	T	55597479	3	4	211	1	0	0	0	0	1	0	0	0	5203	991	35	5	1679	5	EPS8L1	19	55597479	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	29327	55597479	3531504	1705	103584											
U2AF2	11338	broad.mit.edu	37	chr19	56180456	56180456	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctccaaacacaggccattgCggggctgaacggcatgcagc	10	5	12	14	2	0	1	0	1	0	0	1	1	1	1	3	4	5	3	3	4	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:56180456C>T	uc002qlu.2	+	10	2008	c.953C>T	c.(952-954)GCG>GTG	p.A318V	U2AF2_uc002qlt.2_Missense_Mutation_p.A318V	NM_007279	NP_009210	P26368	U2AF2_HUMAN	U2 (RNU2) small nuclear RNA auxiliary factor 2	318	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	nucleoplasm|spliceosomal complex	enzyme binding|nucleotide binding|RNA binding			ovary(1)	1		Colorectal(82;0.00244)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.107)		CAGGCCATTGCGGGGCTGAAC	0.667													18	31					0	0	1	0	0		T	56180456	T	T	56180456	3	4	211	1	0	0	0	0	1	0	0	0	16849	768	27	1	991	1	U2AF2	19	56180456	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	582977	56180456	2948527	1706	103585											
ZIM2	23619	broad.mit.edu	37	chr19	57286562	57286562	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atagaaggcttcagcacactGtttacattcatagggtttct	11	14	8	8	0	3	1	2	0	1	1	3	1	3	1	0	2	2	4	0	2	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:57286562G>A	uc002qnr.2	-	11	1460	c.1078C>T	c.(1078-1080)CAG>TAG	p.Q360*	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Nonsense_Mutation_p.Q156*|ZIM2_uc010ygr.1_Nonsense_Mutation_p.Q156*|ZIM2_uc002qnq.2_Nonsense_Mutation_p.Q360*|ZIM2_uc010etp.2_Nonsense_Mutation_p.Q360*|ZIM2_uc010ygs.1_Nonsense_Mutation_p.Q360*	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	360	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		TCAGCACACTGTTTACATTCA	0.453													22	64					0	0	1	0	0		A	57286562	A	A	57286562	4	1	211	1	0	0	0	0	0	1	0	0	17709	1386	48	4	509	4	ZIM2	19	57286562	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1106106	57286562	1842421	1707	103586											
PEG3	5178	broad.mit.edu	37	chr19	57326969	57326969	+	Silent	SNP	A	G	G	1	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	gagtgaattacagaggtctcAttgctcctatgctcaatgta	11	13	9	8	0	2	2	2	1	1	1	4	3	3	2	1	1	3	3	1	1	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:57326969A>G	uc002qnu.2	-	7	3192	c.2841T>C	c.(2839-2841)AAT>AAC	p.N947N	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.N918N|PEG3_uc002qnv.2_Silent_p.N947N|PEG3_uc002qnw.2_Silent_p.N823N|PEG3_uc002qnx.2_Silent_p.N821N|PEG3_uc010etr.2_Silent_p.N947N	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	947					apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		CAGAGGTCTCATTGCTCCTAT	0.453													38	140					0	0	1	0	0		G	57326969	G	G	57326969	2	3	211	1	0	0	0	0	0	0	0	1	11739	214	8	3		3	PEG3	19	57326969	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	40407	57326969	1802014	1708	103587											
ZNF805	390980	broad.mit.edu	37	chr19	57765667	57765667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtggaaaggccttcaacCgcaggtcaggcctcacaagg	11	6	13	11	1	3	0	3	0	0	0	3	1	3	1	3	5	1	1	3	5	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:57765667C>T	uc010ygt.1	+	4	1687	c.1480C>T	c.(1480-1482)CGC>TGC	p.R494C	ZNF805_uc010ygu.1_Missense_Mutation_p.R361C	NM_001023563	NP_001018857	Q5CZA5	ZN805_HUMAN	zinc finger protein 805 isoform 1	494	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCCTTCAACCGCAGGTCAGG	0.517													13	38					0	0	1	0	0		T	57765667	T	T	57765667	3	4	211	1	0	0	0	0	1	0	0	0	18197	652	23	1	1494	1	ZNF805	19	57765667	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	438698	57765667	1363316	1709	103588											
ZNF543	125919	broad.mit.edu	37	chr19	57839442	57839442	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctataaatgtgaggaatgCgggaaagtgtttaaaaagaa	17	10	11	3	1	0	2	0	1	0	1	1	4	1	4	1	2	1	1	1	2	9	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:57839442C>T	uc002qoi.1	+	4	957	c.612C>T	c.(610-612)TGC>TGT	p.C204C		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	204	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GTGAGGAATGCGGGAAAGTGT	0.413													15	75					0	0	1	0	0		T	57839442	T	T	57839442	2	4	211	1	0	0	0	0	0	0	0	1	18001	776	27	1		1	ZNF543	19	57839442	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	73775	57839442	1289541	1710	103589											
ZNF772	400720	broad.mit.edu	37	chr19	57985774	57985774	+	Missense_Mutation	SNP	A	G	G	1	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	aaggtatctcttcatcctccAttccatgccaacaacctgaa	12	11	4	14	0	2	1	1	1	1	0	6	1	5	1	5	1	3	1	5	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:57985774A>G	uc002qot.2	-	5	599	c.338T>C	c.(337-339)ATG>ACG	p.M113T	ZNF547_uc002qpm.3_Intron|ZNF772_uc010ygy.1_Missense_Mutation_p.M72T|ZNF772_uc010ygz.1_Missense_Mutation_p.M1T|ZNF772_uc010yha.1_Missense_Mutation_p.M59T|ZNF772_uc002qou.2_Missense_Mutation_p.M1T	NM_001024596	NP_001019767	Q68DY9	ZN772_HUMAN	zinc finger protein 772 isoform 1	113					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)|Lung(386;0.174)		TTCATCCTCCATTCCATGCCA	0.453													16	45					0	0	1	0	0		G	57985774	G	G	57985774	3	3	211	1	0	0	0	0	1	0	0	0	18170	217	8	3	1135	3	ZNF772	19	57985774	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	146332	57985774	1143209	1711	103590											
ZIK1	284307	broad.mit.edu	37	chr19	58102493	58102493	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaaggccttatgagtgtggCcagtgtggaaagtcctttag	9	11	14	7	0	0	1	0	1	0	0	1	2	1	2	3	3	0	1	3	3	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:58102493C>T	uc002qpg.2	+	4	1411	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	ZNF547_uc002qpm.3_Intron|ZIK1_uc002qph.2_Silent_p.G383G|ZIK1_uc002qpi.2_Silent_p.G425G|ZIK1_uc002qpj.2_Silent_p.G335G	NM_001010879	NP_001010879	Q3SY52	ZIK1_HUMAN	zinc finger protein interacting with K protein	438	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		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)		ATGAGTGTGGCCAGTGTGGAA	0.458													13	24					0	0	1	0	0		T	58102493	T	T	58102493	2	4	211	1	0	0	0	0	0	0	0	1	17708	726	26	2		2	ZIK1	19	58102493	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	116719	58102493	1026490	1712	103591											
ZSCAN1	284312	broad.mit.edu	37	chr19	58549499	58549499	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagatgcggacctgggtgCagtcacagggcccccgaagc	9	4	15	13	2	1	1	1	0	0	1	1	3	1	2	3	3	3	2	3	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:58549499C>T	uc002qrc.1	+	3	542	c.295C>T	c.(295-297)CAG>TAG	p.Q99*	ZSCAN1_uc002qra.1_Nonsense_Mutation_p.Q99*|ZSCAN1_uc002qrb.1_Nonsense_Mutation_p.Q99*	NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	99	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		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;0.0152)		GACCTGGGTGCAGTCACAGGG	0.687													7	16					0	0	1	0	0		T	58549499	T	T	58549499	4	4	211	1	0	0	0	0	0	1	0	0	18251	711	25	2	297	2	ZSCAN1	19	58549499	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	447006	58549499	579484	1713	103592											
ZSCAN18	65982	broad.mit.edu	37	chr19	58601411	58601411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcaggcatcagccactggCggcacagctcatgcagccgg	8	5	12	16	2	3	0	3	0	0	0	3	0	3	0	3	4	4	4	3	4	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:58601411C>T	uc002qri.2	-	2	533	c.224G>A	c.(223-225)CGC>CAC	p.R75H	ZSCAN18_uc002qrj.3_Missense_Mutation_p.R75H|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.R75H|ZSCAN18_uc010yht.1_Missense_Mutation_p.R131H|ZSCAN18_uc002qrk.1_Missense_Mutation_p.R75H|ZSCAN18_uc002qrl.2_Missense_Mutation_p.R75H	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	75	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		CAGCCACTGGCGGCACAGCTC	0.662													12	47					0	0	1	0	0		T	58601411	T	T	58601411	3	4	211	1	0	0	0	0	1	0	0	0	18255	768	27	1	1332	1	ZSCAN18	19	58601411	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	51912	58601411	527572	1714	103593											
ZNF497	162968	broad.mit.edu	37	chr19	58868090	58868090	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagcctttccgcactcggcGcaggggaagggcttctcgct	7	8	13	13	4	1	0	0	0	1	0	4	1	2	1	2	4	1	4	2	4	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr19:58868090G>A	uc002qsh.1	-	3	1101	c.912C>T	c.(910-912)TGC>TGT	p.C304C	A1BG_uc002qsf.1_Intron|ZNF497_uc002qsi.1_Silent_p.C304C|uc002qsj.1_5'Flank|uc002qsk.1_5'Flank	NM_198458	NP_940860	Q6ZNH5	ZN497_HUMAN	zinc finger protein 497	304	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(2)	2		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)		CGCACTCGGCGCAGGGGAAGG	0.716													4	8					0	0	1	0	0		A	58868090	A	A	58868090	2	1	211	1	0	0	0	0	0	0	0	1	17971	1079	38	1		1	ZNF497	19	58868090	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	266679	58868090	260893	1715	103594											
SNPH	9751	broad.mit.edu	37	chr20	1285981	1285981	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacacactgagccggacggaCgcgctggaagccagcagcct	10	3	14	14	4	0	1	0	1	0	0	0	5	0	4	3	3	4	2	3	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:1285981C>T	uc002wes.2	+	6	1004	c.768C>T	c.(766-768)GAC>GAT	p.D256D	SNPH_uc002wet.2_Silent_p.D300D	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	256					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCCGGACGGACGCGCTGGAAG	0.682													20	47					0	0	1	0	0		T	1285981	T	T	1285981	2	4	211	1	0	0	0	0	0	0	0	1	14875	535	19	1		1	SNPH	20	1285981	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		1285981	61739539	1716	103595											
NSFL1C	55968	broad.mit.edu	37	chr20	1426391	1426391	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgtggtaggctctgattcGtcgattaagatggaagagct	9	14	13	5	2	1	3	0	1	1	2	3	5	1	4	0	3	1	3	0	3	3	4	rs141160175		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:1426391G>A	uc002wfc.2	-	8	1818	c.870C>T	c.(868-870)GAC>GAT	p.D290D	NSFL1C_uc002wfd.2_Silent_p.D179D|NSFL1C_uc002wfe.2_Silent_p.D259D|NSFL1C_uc002wff.2_RNA|NSFL1C_uc010gag.2_Silent_p.D56D	NM_016143	NP_057227	Q9UNZ2	NSF1C_HUMAN	p47 protein isoform a	290						chromosome|Golgi stack|nucleus	lipid binding|protein binding				0						GCTCTGATTCGTCGATTAAGA	0.537													66	222					0	0	1	0	0		A	1426391	A	A	1426391	2	1	211	1	0	0	0	0	0	0	0	1	10691	1136	40	1		1	NSFL1C	20	1426391	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	140410	1426391	61599129	1717	103596											
STK35	140901	broad.mit.edu	37	chr20	2097724	2097724	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacactacacagccaaggcGgacatctttgccctgggcat	10	7	11	13	1	1	0	0	0	1	0	1	2	1	2	2	4	3	1	2	4	2	2	rs147812244	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:2097724G>A	uc010gak.2	+	3	1305	c.1305G>A	c.(1303-1305)GCG>GCA	p.A435A	STK35_uc010zpu.1_Intron|STK35_uc002wfw.3_Silent_p.A302A	NM_080836	NP_543026	Q8TDR2	STK35_HUMAN	serine/threonine kinase 35	435	Protein kinase.					cytoplasm|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CAGCCAAGGCGGACATCTTTG	0.478													17	81					0	0	1	0	0		A	2097724	A	A	2097724	2	1	211	1	0	0	0	0	0	0	0	1	15326	1103	39	1		1	STK35	20	2097724	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	671333	2097724	60927796	1718	103597											
TMC2	117532	broad.mit.edu	37	chr20	2582779	2582779	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatcaatagtggatgaacaAgagagtaacaaagaagaaaa	23	5	10	3	0	1	4	1	1	0	3	1	7	1	5	0	1	2	1	0	1	10	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:2582779A>C	uc002wgf.1	+	11	1260	c.1245A>C	c.(1243-1245)CAA>CAC	p.Q415H	TMC2_uc002wgg.1_Missense_Mutation_p.Q399H|TMC2_uc010zpw.1_Missense_Mutation_p.Q247H|TMC2_uc010zpx.1_Missense_Mutation_p.Q246H	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	415	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						TGGATGAACAAGAGAGTAACA	0.408													17	62					0	0	1	0	0		C	2582779	C	C	2582779	3	2	211	1	0	0	0	0	1	0	0	0	16010	69	3	5	1287	5	TMC2	20	2582779	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	485055	2582779	60442741	1719	103598											
ADRA1D	146	broad.mit.edu	37	chr20	4229076	4229076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaggccgtgcagcacagcaCgtccacggcggcccatacgt	8	4	14	15	5	0	0	0	0	0	0	1	1	1	1	3	4	4	3	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:4229076C>T	uc002wkr.2	-	1	584	c.529G>A	c.(529-531)GTG>ATG	p.V177M		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	177	Helical; Name=3; (By similarity).				cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)	CAGCACAGCACGTCCACGGCG	0.657													6	18					0	0	1	0	0		T	4229076	T	T	4229076	3	4	211	1	0	0	0	0	1	0	0	0	336	536	19	1	1197	1	ADRA1D	20	4229076	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1646297	4229076	58796444	1720	103599											
SLC23A2	9962	broad.mit.edu	37	chr20	4854641	4854641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccttgcctggcatctgtgCgagcatagaagccatacttt	8	11	10	12	2	1	1	0	0	1	1	1	2	1	1	3	1	5	2	3	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:4854641C>T	uc002wlg.1	-	11	1418	c.1043G>A	c.(1042-1044)CGC>CAC	p.R348H	SLC23A2_uc010zqr.1_Missense_Mutation_p.R233H|SLC23A2_uc002wlh.1_Missense_Mutation_p.R348H|SLC23A2_uc002wli.2_Missense_Mutation_p.R347H	NM_005116	NP_005107	Q9UGH3	S23A2_HUMAN	solute carrier family 23 (nucleobase	348					L-ascorbic acid metabolic process|molecular hydrogen transport|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|transepithelial L-ascorbic acid transport	apical plasma membrane|integral to plasma membrane|membrane fraction	nucleobase transmembrane transporter activity|sodium-dependent L-ascorbate transmembrane transporter activity|sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2						GGCATCTGTGCGAGCATAGAA	0.542													51	95					0	0	1	0	0		T	4854641	T	T	4854641	3	4	211	1	0	0	0	0	1	0	0	0	14488	768	27	1	937	1	SLC23A2	20	4854641	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	625565	4854641	58170879	1721	103600											
LRRN4	164312	broad.mit.edu	37	chr20	6022019	6022019	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtagatgacccccaccacCgactggttccccgcccagcc	7	5	9	20	3	0	2	0	1	0	1	1	3	1	2	8	1	1	2	8	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:6022019C>T	uc002wmo.2	-	5	2096	c.1872G>A	c.(1870-1872)TCG>TCA	p.S624S		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	624	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(3)	3						CCCCCACCACCGACTGGTTCC	0.701													22	69					0	0	1	0	0		T	6022019	T	T	6022019	2	4	211	1	0	0	0	0	0	0	0	1	9055	639	23	1		1	LRRN4	20	6022019	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1167378	6022019	57003501	1722	103601											
PLCB1	23236	broad.mit.edu	37	chr20	8720006	8720006	+	Silent	SNP	A	T	T	1	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	ccagtgcaagccattcggccAggtatgggtagtgtgctgag	8	9	15	9	1	0	1	0	1	0	0	1	1	0	1	3	3	3	4	3	3	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:8720006A>T	uc002wnb.2	+	21	2310	c.2307A>T	c.(2305-2307)CCA>CCT	p.P769P	PLCB1_uc010zrb.1_Silent_p.P668P|PLCB1_uc002wna.2_Silent_p.P769P|PLCB1_uc002wnc.1_Silent_p.P668P|PLCB1_uc002wnd.1_Silent_p.P346P	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	769					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						CCATTCGGCCAGGTATGGGTA	0.393													15	41					0	0	1	0	0		T	8720006	T	T	8720006	2	4	211	1	0	0	0	0	0	0	0	1	12046	202	7	5		5	PLCB1	20	8720006	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	2697987	8720006	54305514	1723	103602											
PAK7	57144	broad.mit.edu	37	chr20	9546634	9546634	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttctcggtggcgatgcatAcgatgccggttgagccttcc	5	12	13	11	4	1	1	0	1	1	0	3	3	2	1	3	3	4	3	3	3	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:9546634A>G	uc002wnl.2	-	6	1933	c.1388T>C	c.(1387-1389)GTA>GCA	p.V463A	PAK7_uc002wnk.2_Missense_Mutation_p.V463A|PAK7_uc002wnj.2_Missense_Mutation_p.V463A|PAK7_uc010gby.1_Missense_Mutation_p.V463A	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7	463	Protein kinase.|ATP (By similarity).						ATP binding|protein binding|protein serine/threonine kinase activity	p.V463L(1)		lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			GGCGATGCATACGATGCCGGT	0.527													53	179					0	0	1	0	0		G	9546634	G	G	9546634	3	3	211	1	0	0	0	0	1	0	0	0	11424	391	14	3	795	3	PAK7	20	9546634	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	826628	9546634	53478886	1724	103603											
TASP1	55617	broad.mit.edu	37	chr20	13514787	13514787	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaaagtgcctgagtcatttTcctgcagagcaaaagtggca	12	9	10	10	0	1	2	1	1	0	1	2	2	2	2	3	1	3	3	3	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:13514787T>C	uc002woi.2	-	9	794	c.677A>G	c.(676-678)GAA>GGA	p.E226G	TASP1_uc010zri.1_Intron|TASP1_uc002woh.2_Missense_Mutation_p.E203G|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	226					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						TGAGTCATTTTCCTGCAGAGC	0.473													29	94					0	0	1	0	0		C	13514787	C	C	13514787	3	2	211	1	0	0	0	0	1	0	0	0	15614	1797	62	3	609	3	TASP1	20	13514787	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3968153	13514787	49510733	1725	103604											
MACROD2	140733	broad.mit.edu	37	chr20	15480470	15480470	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctcaacaccattaaggaatGgcttgccaagaatcaccatg	14	8	7	12	0	2	1	2	0	0	1	2	2	2	2	4	2	2	1	4	2	5	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:15480470G>T	uc002wou.2	+	8	887	c.623G>T	c.(622-624)TGG>TTG	p.W208L	MACROD2_uc002wot.2_Missense_Mutation_p.W208L|MACROD2_uc002woz.2_5'UTR	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	208	Macro.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				ATTAAGGAATGGCTTGCCAAG	0.433													13	68					4.14922e-12	4.45358e-12	1	1	0		T	15480470	T	T	15480470	3	4	211	1	0	0	0	0	1	0	0	0	9164	1357	47	5	653	5	MACROD2	20	15480470	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1965683	15480470	47545050	1726	103605											
MACROD2	140733	broad.mit.edu	37	chr20	15948229	15948229	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gatgaaaatattacaaaaggCggtgaagtgacagatcattc	17	9	10	5	1	1	4	1	3	0	1	2	5	1	4	0	2	1	0	0	2	7	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:15948229C>T	uc002wou.2	+	13	1203	c.939C>T	c.(937-939)GGC>GGT	p.G313G	MACROD2_uc002wot.2_Silent_p.G313G|MACROD2_uc002woz.2_Silent_p.G78G|MACROD2_uc002wpb.2_Silent_p.G78G	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1	313	Glu-rich.										0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				TTACAAAAGGCGGTGAAGTGA	0.378													18	108					0	0	1	0	0		T	15948229	T	T	15948229	2	4	211	1	0	0	0	0	0	0	0	1	9164	755	27	1		1	MACROD2	20	15948229	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	467759	15948229	47077291	1727	103606											
KIF16B	55614	broad.mit.edu	37	chr20	16360306	16360306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccactgtacctccccacGccgcaggagctggatcatct	8	7	8	18	2	2	0	1	0	1	0	3	2	3	2	5	2	2	3	5	2	1	1	rs142424331		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:16360306G>A	uc002wpg.1	-	19	2499	c.2341C>T	c.(2341-2343)CGT>TGT	p.R781C	KIF16B_uc002wpe.1_Missense_Mutation_p.R163C|KIF16B_uc002wpf.1_Missense_Mutation_p.R163C|KIF16B_uc010gch.1_Missense_Mutation_p.R781C|KIF16B_uc010gci.1_Missense_Mutation_p.R781C|KIF16B_uc010gcj.1_Missense_Mutation_p.R792C	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	781	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						ACCTCCCCACGCCGCAGGAGC	0.592													15	121					0	0	1	0	0		A	16360306	A	A	16360306	3	1	211	1	0	0	0	0	1	0	0	0	8294	1087	38	1	1644	1	KIF16B	20	16360306	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	412077	16360306	46665214	1728	103607											
OTOR	56914	broad.mit.edu	37	chr20	16729075	16729075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatattgttacttttcctccCgggtcttgtggctgtatgtg	5	18	10	8	1	1	0	0	0	1	0	3	0	3	0	2	2	1	3	2	2	4	7			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:16729075C>T	uc002wpj.2	+	1	73	c.29C>T	c.(28-30)CCG>CTG	p.P10L	OTOR_uc002wpk.2_5'Flank	NM_020157	NP_064542	Q9NRC9	OTOR_HUMAN	otoraplin precursor	10					sensory perception of sound	extracellular region				ovary(1)|central_nervous_system(1)	2						CTTTTCCTCCCGGGTCTTGTG	0.433													45	207					0	0	1	0	0		T	16729075	T	T	16729075	3	4	211	1	0	0	0	0	1	0	0	0	11327	652	23	1	31	1	OTOR	20	16729075	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	368769	16729075	46296445	1729	103608											
CSRP2BP	57325	broad.mit.edu	37	chr20	18139825	18139825	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcaggaatttggagagccaGgatggtggaaacttgttcat	11	11	13	6	0	2	1	2	0	0	1	2	5	2	4	1	5	2	1	1	5	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:18139825G>T	uc002wqj.2	+	5	1220	c.598G>T	c.(598-600)GGA>TGA	p.G200*	CSRP2BP_uc002wqk.2_Nonsense_Mutation_p.G72*|CSRP2BP_uc010zru.1_Nonsense_Mutation_p.G72*	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	200					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						TGGAGAGCCAGGATGGTGGAA	0.488													13	62					0.000151284	0.000155551	1	1	0		T	18139825	T	T	18139825	4	4	211	1	0	0	0	0	0	1	0	0	3971	1001	35	5	612	5	CSRP2BP	20	18139825	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1410750	18139825	44885695	1730	103609											
RBBP9	10741	broad.mit.edu	37	chr20	18477798	18477798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgggaacaatcactgccttgCtaggagaagccatgagtgca	12	7	12	10	1	1	2	1	1	0	1	1	4	1	3	2	2	5	2	2	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:18477798C>T	uc002wqy.2	-	1	90	c.14G>A	c.(13-15)AGC>AAC	p.S5N		NM_006606	NP_006597	O75884	RBBP9_HUMAN	retinoblastoma binding protein 9	5						cytoplasm|nucleus	hydrolase activity			haematopoietic_and_lymphoid_tissue(1)	1						CACTGCCTTGCTAGGAGAAGC	0.662													11	30					0	0	1	0	0		T	18477798	T	T	18477798	3	4	211	1	0	0	0	0	1	0	0	0	13131	797	28	2	566	2	RBBP9	20	18477798	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	337973	18477798	44547722	1731	103610											
SEC23B	10483	broad.mit.edu	37	chr20	18507120	18507120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaattaaagattcctattcGttcttggcatgatattgaga	12	16	8	5	1	1	4	0	3	1	2	3	5	2	4	1	1	0	2	1	1	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:18507120G>A	uc002wqz.1	+	8	1381	c.938G>A	c.(937-939)CGT>CAT	p.R313H	SEC23B_uc002wra.1_Missense_Mutation_p.R313H|SEC23B_uc002wrb.1_Missense_Mutation_p.R313H|SEC23B_uc010zsb.1_Missense_Mutation_p.R295H|SEC23B_uc002wrc.1_Missense_Mutation_p.R313H	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	313			R -> H.		ER to Golgi vesicle-mediated transport|intracellular protein transport	COPII vesicle coat|endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane	zinc ion binding			ovary(1)	1						ATTCCTATTCGTTCTTGGCAT	0.458													26	105					0	0	1	0	0		A	18507120	A	A	18507120	3	1	211	1	0	0	0	0	1	0	0	0	14017	1145	40	1	964	1	SEC23B	20	18507120	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	29322	18507120	44518400	1732	103611											
NKX2-2	4821	broad.mit.edu	37	chr20	21492970	21492970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccagctcgtaggtctgcGccttggagaaaagcactcgc	8	8	12	13	3	1	1	0	0	1	1	4	2	2	1	2	2	3	4	2	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:21492970G>A	uc002wsi.2	-	2	770	c.413C>T	c.(412-414)GCG>GTG	p.A138V		NM_002509	NP_002500	O95096	NKX22_HUMAN	NK2 transcription factor related, locus 2	138	Homeobox.				brain development|positive regulation of sequence-specific DNA binding transcription factor activity	nucleus	chromatin binding|core promoter proximal region DNA binding|transcription coactivator activity			pancreas(1)|skin(1)	2						GTAGGTCTGCGCCTTGGAGAA	0.697													9	24					0	0	1	0	0		A	21492970	A	A	21492970	3	1	211	1	0	0	0	0	1	0	0	0	10469	1087	38	1	412	1	NKX2-2	20	21492970	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2985850	21492970	41532550	1733	103612											
GZF1	64412	broad.mit.edu	37	chr20	23350290	23350290	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caacgccctccagcgccaccGccgcatccacacaggggaga	10	2	10	19	4	0	1	0	0	0	1	2	2	2	1	6	2	2	1	6	2	1	0	rs144872945	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:23350290G>A	uc010gdb.2	+	6	1871	c.1697G>A	c.(1696-1698)CGC>CAC	p.R566H	GZF1_uc002wsy.2_Missense_Mutation_p.R566H|GZF1_uc010zsq.1_Missense_Mutation_p.R90H|GZF1_uc010zsr.1_Missense_Mutation_p.R75H|GZF1_uc002wsz.2_Missense_Mutation_p.R566H	NM_022482	NP_071927	Q9H116	GZF1_HUMAN	GDNF-inducible zinc finger protein 1	566	C2H2-type 9.				transcription, DNA-dependent	nucleolus|nucleoplasm	sequence-specific DNA binding|zinc ion binding			kidney(1)	1	Lung NSC(19;0.0605)|Colorectal(13;0.0993)|all_lung(19;0.135)					CAGCGCCACCGCCGCATCCAC	0.632													27	139					0	0	1	0	0		A	23350290	A	A	23350290	3	1	211	1	0	0	0	0	1	0	0	0	6930	1087	38	1	1711	1	GZF1	20	23350290	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1857320	23350290	39675230	1734	103613											
TM9SF4	9777	broad.mit.edu	37	chr20	30749115	30749115	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagaaatttcctagtctccGggggctctgcattctacgtc	7	12	11	11	2	3	1	0	0	3	1	6	2	4	1	2	3	2	2	2	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:30749115G>A	uc002wxj.2	+	17	1961	c.1726G>A	c.(1726-1728)GGG>AGG	p.G576R	TM9SF4_uc010zts.1_Missense_Mutation_p.G483R|TM9SF4_uc002wxk.2_Missense_Mutation_p.G559R|TM9SF4_uc010gdz.2_Missense_Mutation_p.G455R	NM_014742	NP_055557	Q92544	TM9S4_HUMAN	transmembrane 9 superfamily protein member 4	576	Helical; (Potential).					integral to membrane				central_nervous_system(1)|pancreas(1)	2			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CCTAGTCTCCGGGGGCTCTGC	0.502													19	68					0	0	1	0	0		A	30749115	A	A	30749115	3	1	211	1	0	0	0	0	1	0	0	0	16005	1116	39	1	1792	1	TM9SF4	20	30749115	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	7398825	30749115	32276405	1735	103614											
KIF3B	9371	broad.mit.edu	37	chr20	30915466	30915466	+	Splice_Site	SNP	T	C	C	0	1	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	tccagaggcccgatatagggTgagaagatccttcttgggtt	9	11	13	8	1	1	3	0	1	1	3	3	5	3	3	3	3	0	1	3	3	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:30915466T>C	uc002wxq.2	+	7	2135	c.1968_splice	c.e7+2	p.R656_splice	KIF3B_uc010ztw.1_Splice_Site_p.R594_splice	NM_004798	NP_004789	O15066	KIF3B_HUMAN	kinesin family member 3B						anterograde axon cargo transport|blood coagulation|determination of left/right symmetry|mitotic centrosome separation|plus-end-directed vesicle transport along microtubule|spindle assembly involved in mitosis	centrosome|cytosol|kinesin II complex|plus-end kinesin complex|spindle microtubule	ATP binding|plus-end-directed microtubule motor activity|Rho GTPase binding			central_nervous_system(3)|ovary(2)	5			UCEC - Uterine corpus endometrioid carcinoma (5;0.0241)			CGATATAGGGTGAGAAGATCC	0.468													26	47					0	0	1	0	0		C	30915466	C	C	30915466	5	2	211	1	0	0	0	0	0	0	1	0	8317	1710	59	3	1992	3	KIF3B	20	30915466	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	166351	30915466	32110054	1736	103615											
ASXL1	171023	broad.mit.edu	37	chr20	30956896	30956896	+	Silent	SNP	G	A	A	0	0	1	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	gaggggttgttttataaactGcctggccgaatcagcctttt	8	14	11	8	1	1	0	1	0	0	0	1	2	1	0	3	3	3	2	3	3	4	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:30956896G>A	uc002wxs.2	+	3	648	c.222G>A	c.(220-222)CTG>CTA	p.L74L	ASXL1_uc002wxr.1_RNA|ASXL1_uc002wxt.2_RNA|ASXL1_uc010geb.2_Silent_p.L16L	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	74					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						TTTATAAACTGCCTGGCCGAA	0.358			F|N|Mis		MDS|CMML								21	76					0	0	1	0	0		A	30956896	A	A	30956896	2	1	211	1	0	0	0	0	0	0	0	1	1067	1306	46	2		2	ASXL1	20	30956896	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	41430	30956896	32068624	1737	103616											
CDK5RAP1	51654	broad.mit.edu	37	chr20	31975140	31975140	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgactcacacaaaggcagaCgtggcactggcgcttgtctg	9	8	13	11	2	2	2	1	1	1	1	2	2	2	2	0	3	0	3	0	3	1	1	rs143485633	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:31975140C>T	uc010gek.2	-	6	868	c.744G>A	c.(742-744)ACG>ACA	p.T248T	CDK5RAP1_uc002wyy.2_Silent_p.T158T|CDK5RAP1_uc002wyz.2_Silent_p.T248T|CDK5RAP1_uc002wza.2_Silent_p.T248T|CDK5RAP1_uc010gel.2_Silent_p.T157T|CDK5RAP1_uc010gem.2_Silent_p.T248T|CDK5RAP1_uc002wzc.1_Silent_p.T248T|CDK5RAP1_uc010gen.2_Silent_p.T248T	NM_016408	NP_057492	Q96SZ6	CK5P1_HUMAN	CDK5 regulatory subunit associated protein 1	248					brain development|negative regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation|tRNA modification	cytoplasm	4 iron, 4 sulfur cluster binding|metal ion binding|neuronal Cdc2-like kinase binding|transferase activity			ovary(2)|skin(2)|lung(1)	5						CAAAGGCAGACGTGGCACTGG	0.448													12	58					0	0	1	0	0		T	31975140	T	T	31975140	2	4	211	1	0	0	0	0	0	0	0	1	3148	523	19	1		1	CDK5RAP1	20	31975140	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1018244	31975140	31050380	1738	103617											
SNTA1	6640	broad.mit.edu	37	chr20	32026768	32026768	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccacaaaaagggcctctgtCtggtcagctgccaatccctt	9	9	8	15	0	3	0	1	0	2	0	4	0	4	0	4	2	2	1	4	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:32026768C>T	uc002wzd.1	-	2	647	c.375G>A	c.(373-375)CAG>CAA	p.Q125Q	SNTA1_uc010zuf.1_Silent_p.Q125Q	NM_003098	NP_003089	Q13424	SNTA1_HUMAN	acidic alpha 1 syntrophin	125	PH 1.|PDZ.				muscle contraction	cell junction|cytoplasm|cytoskeleton|sarcolemma	actin binding|calmodulin binding			skin(1)	1						GGGCCTCTGTCTGGTCAGCTG	0.537													51	170					0	0	1	0	0		T	32026768	T	T	32026768	2	4	211	1	0	0	0	0	0	0	0	1	14896	912	32	4		4	SNTA1	20	32026768	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	51628	32026768	30998752	1739	103618											
ZNF341	84905	broad.mit.edu	37	chr20	32378977	32378977	+	Missense_Mutation	SNP	A	G	G	1	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	cggcccccaaaaggacaaggAcctgcaaacccggcggcccc	11	1	11	18	3	0	0	0	0	0	0	0	2	0	2	6	5	2	1	6	5	4	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:32378977A>G	uc002wzy.2	+	15	2239	c.2219A>G	c.(2218-2220)GAC>GGC	p.D740G	ZNF341_uc002wzx.2_Missense_Mutation_p.D733G|ZNF341_uc010geq.2_Missense_Mutation_p.D650G|ZNF341_uc010ger.2_RNA|ZNF341_uc002wzz.2_Missense_Mutation_p.D167G	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	740					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						AAGGACAAGGACCTGCAAACC	0.662													12	77					0	0	1	0	0		G	32378977	G	G	32378977	3	3	211	1	0	0	0	0	1	0	0	0	17882	275	10	3	2256	3	ZNF341	20	32378977	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	352209	32378977	30646543	1740	103619											
AHCY	191	broad.mit.edu	37	chr20	32880243	32880243	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaatcatgttgaggggcccGtccttgaagtacagggtctg	9	10	14	8	1	2	3	1	2	1	1	3	3	3	3	2	3	1	2	2	3	3	3	rs141935523		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:32880243G>A	uc002xai.2	-	4	505	c.366C>T	c.(364-366)GAC>GAT	p.D122D	AHCY_uc002xaj.2_Silent_p.D94D	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	122					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						TGAGGGGCCCGTCCTTGAAGT	0.617													54	69					0	0	1	0	0		A	32880243	A	A	32880243	2	1	211	1	0	0	0	0	0	0	0	1	409	1136	40	1		1	AHCY	20	32880243	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	501266	32880243	30145277	1741	103620											
AHCY	191	broad.mit.edu	37	chr20	32883218	32883218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacctcagcacccagggtgaCgagggtctcaatgaggacgg	10	5	14	12	2	2	2	2	2	1	0	3	4	2	3	2	4	1	1	2	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:32883218C>T	uc002xai.2	-	2	341	c.202G>A	c.(202-204)GTC>ATC	p.V68I	AHCY_uc002xaj.2_Missense_Mutation_p.V40I|AHCY_uc010get.2_Missense_Mutation_p.V68I	NM_000687	NP_000678	P23526	SAHH_HUMAN	adenosylhomocysteinase isoform 1	68					methylation|xenobiotic metabolic process	cytosol|melanosome	adenosylhomocysteinase activity|protein binding				0						CCCAGGGTGACGAGGGTCTCA	0.652													14	41					0	0	1	0	0		T	32883218	T	T	32883218	3	4	211	1	0	0	0	0	1	0	0	0	409	536	19	1	1132	1	AHCY	20	32883218	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2975	32883218	30142302	1742	103621											
ITCH	83737	broad.mit.edu	37	chr20	32996530	32996530	+	Silent	SNP	T	C	C	0	1	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	tacgtagaggtcacagtagaTggacagtcaaagaagacaga	17	6	12	6	1	2	5	2	0	0	5	2	6	2	6	0	2	1	2	0	2	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:32996530T>C	uc010geu.1	+	4	336	c.144T>C	c.(142-144)GAT>GAC	p.D48D	ITCH_uc002xak.2_Silent_p.D48D|ITCH_uc010zuj.1_Intron	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	48	C2.				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity			breast(4)|lung(1)|central_nervous_system(1)	6						TCACAGTAGATGGACAGTCAA	0.368													13	47					0	0	1	0	0		C	32996530	C	C	32996530	2	2	211	1	0	0	0	0	0	0	0	1	7884	1461	51	3		3	ITCH	20	32996530	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	113312	32996530	30028990	1743	103622											
ACSS2	55902	broad.mit.edu	37	chr20	33514064	33514064	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caccttcagccccaagctcaCcgaggagctcaagaagcaga	13	4	9	15	1	3	2	3	0	0	2	3	4	3	3	4	1	4	3	4	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:33514064C>T	uc002xbd.2	+	16	2004	c.1883C>T	c.(1882-1884)ACC>ATC	p.T628I	ACSS2_uc002xbc.2_Missense_Mutation_p.T533I|ACSS2_uc010zum.1_RNA|ACSS2_uc010gey.2_Missense_Mutation_p.T641I|ACSS2_uc002xbe.2_Missense_Mutation_p.T336I|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2	628					ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	CCCAAGCTCACCGAGGAGCTC	0.577													11	77					0	0	1	0	0		T	33514064	T	T	33514064	3	4	211	1	0	0	0	0	1	0	0	0	189	507	18	4	1988	4	ACSS2	20	33514064	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	517534	33514064	29511456	1744	103623											
MYH7B	57644	broad.mit.edu	37	chr20	33568503	33568503	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccccgccccatatatatgcGgtggcggacaacgcctacaa	10	7	9	15	4	0	0	0	0	0	0	1	1	1	1	5	3	3	0	5	3	6	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:33568503G>A	uc010gfa.1	+	5	586	c.465G>A	c.(463-465)GCG>GCA	p.A155A	MYH7B_uc002xbi.1_Silent_p.A197A			A7E2Y1	MYH7B_HUMAN	RecName: Full=Myosin-7B; AltName: Full=Myosin heavy chain 7B, cardiac muscle beta isoform; AltName: Full=Myosin cardiac muscle beta chain; AltName: Full=Antigen MLAA-21; AltName: Full=Slow A MYH14;	155	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			ATATATATGCGGTGGCGGACA	0.612													26	109					0	0	1	0	0		A	33568503	A	A	33568503	2	1	211	1	0	0	0	0	0	0	0	1	10058	1103	39	1		1	MYH7B	20	33568503	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	54439	33568503	29457017	1745	103624											
MYH7B	57644	broad.mit.edu	37	chr20	33582133	33582133	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggctgcggccgaggccaagCgccaggaactggaggagacg	9	3	18	11	4	0	1	0	0	0	1	0	5	0	3	3	6	3	1	3	6	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:33582133C>T	uc002xbi.1	+	25	2847	c.2755C>T	c.(2755-2757)CGC>TGC	p.R919C		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	877	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CGAGGCCAAGCGCCAGGAACT	0.701													31	51					0	0	1	0	0		T	33582133	T	T	33582133	3	4	211	1	0	0	0	0	1	0	0	0	10058	768	27	1	2853	1	MYH7B	20	33582133	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	13630	33582133	29443387	1746	103625											
MYH7B	57644	broad.mit.edu	37	chr20	33588235	33588235	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagctgggccatgccaccCgtcaggccacagaggcccag	8	4	13	16	1	1	1	1	0	0	1	1	1	1	1	5	3	3	2	5	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:33588235C>T	uc002xbi.1	+	37	5139	c.5047C>T	c.(5047-5049)CGT>TGT	p.R1683C		NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	1641	Potential.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CCATGCCACCCGTCAGGCCAC	0.672													14	60					0	0	1	0	0		T	33588235	T	T	33588235	3	4	211	1	0	0	0	0	1	0	0	0	10058	652	23	1	5193	1	MYH7B	20	33588235	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6102	33588235	29437285	1747	103626											
TRPC4AP	26133	broad.mit.edu	37	chr20	33592318	33592318	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggaagaggaaggacatctgCgtgggcacctgggatatgta	11	7	16	7	2	1	1	0	0	1	1	1	5	1	5	1	5	1	2	1	5	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:33592318C>T	uc002xbk.2	-	17	2026	c.1992G>A	c.(1990-1992)ACG>ACA	p.T664T	TRPC4AP_uc002xbj.2_RNA|TRPC4AP_uc010zuq.1_Silent_p.T255T|TRPC4AP_uc002xbl.2_Silent_p.T656T|TRPC4AP_uc010zur.1_Silent_p.T625T	NM_015638	NP_056453	Q8TEL6	TP4AP_HUMAN	TRPC4-associated protein isoform a	664					protein ubiquitination|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	protein binding			central_nervous_system(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00936)			AGGACATCTGCGTGGGCACCT	0.612													8	35					0	0	1	0	0		T	33592318	T	T	33592318	2	4	211	1	0	0	0	0	0	0	0	1	16607	755	27	1		1	TRPC4AP	20	33592318	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4083	33592318	29433202	1748	103627											
MMP24	10893	broad.mit.edu	37	chr20	33862189	33862191	+	In_Frame_Del	DEL	AGG	-	-																															ctggatgggctgcaaccagaAggaggtggagcggcggaagg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:33862189_33862191delAGG	uc002xbu.2	+	9	1718_1720	c.1715_1717delAGG	c.(1714-1719)AAGGAG>AAG	p.E573del	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	573	Extracellular (Potential).				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TGCAACCAGAAGGAGGTGGAGCG	0.631													92	151	---	---	---	---						.	-	33862191	-	-	33862189	7	5	211	1	0	1	0	1	0	0	0	0	9679	72	3	0	1499	0	MMP24	20	33862189	In_Frame_Del	DEL	AGG	TCGA-HU-A4GQ-01A-11D-A25D-08	269871	33862189	29163331	1749	103628											
CEP250	11190	broad.mit.edu	37	chr20	34092291	34092291	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatccaggaccaggatctcCgataccaggaggatgtgcag	12	6	13	10	1	1	1	0	0	1	1	3	6	2	5	4	4	2	1	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:34092291C>T	uc002xcm.2	+	31	6765	c.6094C>T	c.(6094-6096)CGA>TGA	p.R2032*	CEP250_uc010zve.1_Nonsense_Mutation_p.R1400*	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	2032	Gln/Glu-rich.|Potential.				centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			CCAGGATCTCCGATACCAGGA	0.592													8	17					0	0	1	0	0		T	34092291	T	T	34092291	4	4	211	1	0	0	0	0	0	1	0	0	3255	644	23	1	6200	1	CEP250	20	34092291	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	230102	34092291	28933229	1750	103629											
CPNE1	8904	broad.mit.edu	37	chr20	34214296	34214296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctgtgccaatgcctccCgaggggcctgccaagaaaag	9	6	13	13	2	1	1	0	0	1	1	2	2	2	1	5	3	3	0	5	3	4	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:34214296C>T	uc002xdf.2	-	18	1844	c.1481G>A	c.(1480-1482)CGG>CAG	p.R494Q	CPNE1_uc002xdc.2_Missense_Mutation_p.R156Q|CPNE1_uc010zvj.1_Missense_Mutation_p.R499Q|CPNE1_uc002xde.2_Missense_Mutation_p.R470Q|CPNE1_uc002xdg.2_Missense_Mutation_p.R438Q|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Missense_Mutation_p.R494Q|CPNE1_uc002xdi.2_Missense_Mutation_p.R494Q|CPNE1_uc002xdj.2_Missense_Mutation_p.R494Q|CPNE1_uc002xdk.2_Missense_Mutation_p.R494Q|CPNE1_uc002xdl.2_Missense_Mutation_p.R494Q|CPNE1_uc002xdm.2_Missense_Mutation_p.R494Q	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	494	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CAATGCCTCCCGAGGGGCCTG	0.572													37	142					0	0	1	0	0		T	34214296	T	T	34214296	3	4	211	1	0	0	0	0	1	0	0	0	3814	652	23	1	136	1	CPNE1	20	34214296	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	122005	34214296	28811224	1751	103630											
CPNE1	8904	broad.mit.edu	37	chr20	34218859	34218859	+	Missense_Mutation	SNP	A	G	G	1	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	ccacgctgcccacactccacAgtgccatcaggtactcattg	9	8	7	17	1	2	0	2	0	0	0	3	0	3	0	4	1	3	2	4	1	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:34218859A>G	uc002xdf.2	-	13	1322	c.959T>C	c.(958-960)CTG>CCG	p.L320P	CPNE1_uc002xdc.2_5'UTR|CPNE1_uc010zvj.1_Missense_Mutation_p.L325P|CPNE1_uc002xde.2_Missense_Mutation_p.L296P|CPNE1_uc002xdg.2_Missense_Mutation_p.L320P|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Missense_Mutation_p.L320P|CPNE1_uc002xdi.2_Missense_Mutation_p.L320P|CPNE1_uc002xdj.2_Missense_Mutation_p.L320P|CPNE1_uc002xdk.2_Missense_Mutation_p.L320P|CPNE1_uc002xdl.2_Missense_Mutation_p.L320P|CPNE1_uc002xdm.2_Missense_Mutation_p.L320P|CPNE1_uc010gfk.1_3'UTR	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	320	VWFA.				lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			CACACTCCACAGTGCCATCAG	0.572													31	99					0	0	1	0	0		G	34218859	G	G	34218859	3	3	211	1	0	0	0	0	1	0	0	0	3814	188	7	3	678	3	CPNE1	20	34218859	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	4563	34218859	28806661	1752	103631											
PPP1R16B	26051	broad.mit.edu	37	chr20	37529261	37529261	+	Missense_Mutation	SNP	A	G	G	1	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	ctgtcaactcggatgggaacAtgccatatgacctctgcgag	10	9	11	11	2	2	1	1	1	1	0	3	4	2	3	2	2	4	0	2	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:37529261A>G	uc002xje.2	+	5	694	c.505A>G	c.(505-507)ATG>GTG	p.M169V	PPP1R16B_uc010ggc.2_Missense_Mutation_p.M169V	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	169					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GGATGGGAACATGCCATATGA	0.572													38	56					0	0	1	0	0		G	37529261	G	G	37529261	3	3	211	1	0	0	0	0	1	0	0	0	12388	217	8	3	519	3	PPP1R16B	20	37529261	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3310402	37529261	25496259	1753	103632											
FAM83D	81610	broad.mit.edu	37	chr20	37580194	37580194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctttaagttttacatggacGgatggcaaattaaacagcag	14	12	9	6	1	1	0	0	0	1	0	1	2	1	2	0	3	3	3	0	3	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:37580194G>A	uc002xjg.2	+	4	920	c.879G>A	c.(877-879)ACG>ACA	p.T293T		NM_030919	NP_112181	Q9H4H8	FA83D_HUMAN	hypothetical protein LOC81610	263					cell division|mitosis	cytoplasm|spindle pole				ovary(3)	3		Myeloproliferative disorder(115;0.00878)				TTACATGGACGGATGGCAAAT	0.398													10	40					0	0	1	0	0		A	37580194	A	A	37580194	2	1	211	1	0	0	0	0	0	0	0	1	5650	1103	39	1		1	FAM83D	20	37580194	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	50933	37580194	25445326	1754	103633											
MAFB	9935	broad.mit.edu	37	chr20	39317196	39317196	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcgggcgtcaggttgagcgCctcggggttcatctgctggt	3	11	16	11	4	3	1	2	1	1	0	5	1	3	1	1	5	2	3	1	5	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:39317196C>T	uc002xji.2	-	1	681	c.295G>A	c.(295-297)GCG>ACG	p.A99T		NM_005461	NP_005452	Q9Y5Q3	MAFB_HUMAN	transcription factor MAFB	99					negative regulation of erythrocyte differentiation		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		Myeloproliferative disorder(115;0.00878)				AGGTTGAGCGCCTCGGGGTTC	0.627			T	IGH@	MM								26	76					0	0	1	0	0		T	39317196	T	T	39317196	3	4	211	1	0	0	0	0	1	0	0	0	9176	739	26	2	680	2	MAFB	20	39317196	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1737002	39317196	23708324	1755	103634											
PLCG1	5335	broad.mit.edu	37	chr20	39792073	39792073	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttcatgctcagcttcctccGagaccccttacgagagatcg	8	10	9	14	3	2	2	2	0	0	2	5	5	4	2	4	0	3	3	4	0	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:39792073G>A	uc002xjp.1	+	9	966	c.845G>A	c.(844-846)CGA>CAA	p.R282Q	PLCG1_uc002xjo.1_Missense_Mutation_p.R282Q|PLCG1_uc010zwe.1_5'Flank|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	282					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				AGCTTCCTCCGAGACCCCTTA	0.557													22	94					0	0	1	0	0		A	39792073	A	A	39792073	3	1	211	1	0	0	0	0	1	0	0	0	12054	1058	37	1	879	1	PLCG1	20	39792073	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	474877	39792073	23233447	1756	103635											
LPIN3	64900	broad.mit.edu	37	chr20	39983322	39983322	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagagggagaagatgccccGgaagggtgggcgatggtggt	9	5	22	5	2	0	3	0	0	0	3	0	7	0	4	2	7	1	0	2	7	2	0	rs148237195	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:39983322G>A	uc002xjx.2	+	12	1656	c.1565G>A	c.(1564-1566)CGG>CAG	p.R522Q	LPIN3_uc010ggh.2_Missense_Mutation_p.R523Q|LPIN3_uc010zwf.1_RNA	NM_022896	NP_075047	Q9BQK8	LPIN3_HUMAN	lipin 3	522					fatty acid metabolic process	nucleus	phosphatidate phosphatase activity			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(115;0.000739)				AAGATGCCCCGGAAGGGTGGG	0.617													16	95					0	0	1	0	0		A	39983322	A	A	39983322	3	1	211	1	0	0	0	0	1	0	0	0	8938	1116	39	1	1607	1	LPIN3	20	39983322	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	191249	39983322	23042198	1757	103636											
EMILIN3	90187	broad.mit.edu	37	chr20	39991679	39991679	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccagccgctcaccaaacagcCctgggcctttccttcctggg	6	8	9	18	1	1	0	1	0	0	0	3	0	3	0	7	2	3	1	7	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:39991679C>A	uc002xjy.1	-	4	754	c.530G>T	c.(529-531)GGG>GTG	p.G177V		NM_052846	NP_443078	Q9NT22	EMIL3_HUMAN	elastin microfibril interfacer 3	177						proteinaceous extracellular matrix				ovary(1)	1		Myeloproliferative disorder(115;0.00425)				ACCAAACAGCCCTGGGCCTTT	0.597													5	19					0.00116845	0.00119059	1	1	0		A	39991679	A	A	39991679	3	1	211	1	0	0	0	0	1	0	0	0	5103	623	22	5	1774	5	EMILIN3	20	39991679	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8357	39991679	23033841	1758	103637											
SFRS6	6431	broad.mit.edu	37	chr20	42088683	42088683	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtctttcaggattttatgcGacaagcaggtgaagtaacct	11	13	10	7	1	2	1	1	1	1	0	2	3	2	2	1	2	3	2	1	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:42088683G>A	uc010zwg.1	+	4	562	c.392G>A	c.(391-393)CGA>CAA	p.R131Q	SFRS6_uc002xki.2_Missense_Mutation_p.R2Q|SFRS6_uc002xkk.2_Missense_Mutation_p.R131Q	NM_006275	NP_006266	Q13247	SRSF6_HUMAN	arginine/serine-rich splicing factor 6	131	RRM 2.				mRNA 3'-end processing|mRNA export from nucleus|mRNA splice site selection|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding				0		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.0031)			GATTTTATGCGACAAGCAGGT	0.393													10	60					0	0	1	0	0		A	42088683	A	A	42088683	3	1	211	1	0	0	0	0	1	0	0	0	14206	1058	37	1	406	1	SFRS6	20	42088683	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2097004	42088683	20936837	1759	103638											
JPH2	57158	broad.mit.edu	37	chr20	42788552	42788552	+	Missense_Mutation	SNP	A	G	G	1	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	tgtcgttcttccactcgcccAtgtaggtctcggtggtggtg	3	14	13	11	3	2	0	0	0	2	0	6	0	3	0	2	4	0	2	2	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:42788552A>G	uc002xli.1	-	2	1748	c.875T>C	c.(874-876)ATG>ACG	p.M292T		NM_020433	NP_065166	Q9BR39	JPH2_HUMAN	junctophilin 2 isoform 1	292	MORN 7.|Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane|plasma membrane					0		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CCACTCGCCCATGTAGGTCTC	0.701													10	31					0	0	1	0	0		G	42788552	G	G	42788552	3	3	211	1	0	0	0	0	1	0	0	0	7977	217	8	3	1231	3	JPH2	20	42788552	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	699869	42788552	20236968	1760	103639											
PKIG	11142	broad.mit.edu	37	chr20	43243243	43243243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggacttcatctcctgtgacCggacaggccgtcggaatgcg	7	8	13	13	5	2	1	1	1	1	0	4	4	2	4	3	4	1	0	3	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:43243243C>T	uc002xmg.2	+	5	575	c.46C>T	c.(46-48)CGG>TGG	p.R16W	PKIG_uc002xmh.2_Missense_Mutation_p.R16W|PKIG_uc002xmi.2_Missense_Mutation_p.R16W	NM_181805	NP_861521	Q9Y2B9	IPKG_HUMAN	cAMP-dependent protein kinase inhibitor gamma	16							cAMP-dependent protein kinase inhibitor activity|protein binding				0		Myeloproliferative disorder(115;0.0122)	Colorectal(3;0.001)|COAD - Colon adenocarcinoma(18;0.00189)			CTCCTGTGACCGGACAGGCCG	0.627													22	103					0	0	1	0	0		T	43243243	T	T	43243243	3	4	211	1	0	0	0	0	1	0	0	0	11994	643	23	1	48	1	PKIG	20	43243243	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	454691	43243243	19782277	1761	103640											
PABPC1L	80336	broad.mit.edu	37	chr20	43545432	43545432	+	Silent	SNP	C	T	T	0	0	0	1	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	catggctcccggggtttcggCtttgtccattttgagaccca	5	13	11	12	2	0	1	0	1	0	1	3	2	2	1	3	4	0	3	3	4	0	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:43545432C>T	uc010ggv.1	+	3	505	c.423C>T	c.(421-423)GGC>GGT	p.G141G	PABPC1L_uc010zwq.1_RNA	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	141	RRM 2.						nucleotide binding|RNA binding			ovary(1)	1						GGGGTTTCGGCTTTGTCCATT	0.577													50	211					0	0	1	0	0		T	43545432	T	T	43545432	2	4	211	1	0	0	0	0	0	0	0	1	11383	784	28	2		2	PABPC1L	20	43545432	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	302189	43545432	19480088	1762	103641											
SNX21	90203	broad.mit.edu	37	chr20	44469465	44469465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagagaccattgcccgccGtagccgggcctttgagcagt	7	8	13	13	3	0	2	0	1	0	1	0	3	0	2	5	1	4	3	5	1	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:44469465G>A	uc002xpv.1	+	4	724	c.635G>A	c.(634-636)CGT>CAT	p.R212H	SNX21_uc002xps.1_Intron|SNX21_uc002xpt.1_3'UTR|SNX21_uc002xpu.1_3'UTR|SNX21_uc002xpw.1_Missense_Mutation_p.R23H|SNX21_uc002xpx.2_Missense_Mutation_p.R202H|SNX21_uc010zxd.1_3'UTR|SNX21_uc002xpy.1_Missense_Mutation_p.R23H|SNX21_uc002xpz.1_Missense_Mutation_p.R23H	NM_033421	NP_219489	Q969T3	SNX21_HUMAN	sorting nexin 21 isoform a	212	PX.	Phosphatidylinositol 3-phosphate (By similarity).			cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding			breast(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				ATTGCCCGCCGTAGCCGGGCC	0.642													39	133					0	0	1	0	0		A	44469465	A	A	44469465	3	1	211	1	0	0	0	0	1	0	0	0	14918	1145	40	1	664	1	SNX21	20	44469465	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	924033	44469465	18556055	1763	103642											
ACOT8	10005	broad.mit.edu	37	chr20	44470568	44470568	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccatcctgacgccacagcCgcccatggaccagcccccga	8	4	8	21	3	0	1	0	1	0	0	2	3	2	2	8	1	2	0	8	1	0	0	rs150475004		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:44470568C>T	uc002xqa.1	-	6	950	c.869G>A	c.(868-870)CGG>CAG	p.R290Q	SNX21_uc002xps.1_Intron|SNX21_uc002xpt.1_3'UTR|SNX21_uc002xpu.1_3'UTR|SNX21_uc002xpv.1_3'UTR|SNX21_uc002xpw.1_3'UTR|SNX21_uc002xpx.2_3'UTR|SNX21_uc010zxd.1_3'UTR|SNX21_uc002xpy.1_3'UTR|SNX21_uc002xpz.1_3'UTR	NM_005469	NP_005460	O14734	ACOT8_HUMAN	peroxisomal acyl-CoA thioesterase 1 isoform a	290					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|interspecies interaction between organisms|peroxisome organization	peroxisomal matrix	acetyl-CoA hydrolase activity|acyl-CoA thioesterase activity|carboxylesterase activity|choloyl-CoA hydrolase activity|protein binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				ACGCCACAGCCGCCCATGGAC	0.547													10	24					0	0	1	0	0		T	44470568	T	T	44470568	3	4	211	1	0	0	0	0	1	0	0	0	156	652	23	1	94	1	ACOT8	20	44470568	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1103	44470568	18554952	1764	103643											
ACOT8	10005	broad.mit.edu	37	chr20	44472981	44472981	+	Silent	SNP	T	C	C	0	1	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	ctcaggggggatgggtttacTggcttgatctcaatggggac	7	11	16	7	0	2	1	2	1	1	0	3	3	2	3	0	7	1	2	0	7	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:44472981T>C	uc002xqa.1	-	4	648	c.567A>G	c.(565-567)CCA>CCG	p.P189P	ACOT8_uc010zxe.1_Silent_p.P189P|ACOT8_uc002xqc.1_Silent_p.P136P|ACOT8_uc010zxf.1_Silent_p.P69P	NM_005469	NP_005460	O14734	ACOT8_HUMAN	peroxisomal acyl-CoA thioesterase 1 isoform a	189					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|interspecies interaction between organisms|peroxisome organization	peroxisomal matrix	acetyl-CoA hydrolase activity|acyl-CoA thioesterase activity|carboxylesterase activity|choloyl-CoA hydrolase activity|protein binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				ATGGGTTTACTGGCTTGATCT	0.547													18	80					0	0	1	0	0		C	44472981	C	C	44472981	2	2	211	1	0	0	0	0	0	0	0	1	156	1567	55	3		3	ACOT8	20	44472981	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2413	44472981	18552539	1765	103644											
ELMO2	63916	broad.mit.edu	37	chr20	45002176	45002176	+	Splice_Site	SNP	T	C	C	0	1	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	tcattgcgtccttcatttgcTgtggaagtgaaaaaacaggg	11	12	11	7	1	2	1	2	1	0	0	3	2	3	2	1	2	3	1	1	2	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:45002176T>C	uc002xrt.1	-	16	1490	c.1280_splice	c.e16-1	p.P427_splice	ELMO2_uc010zxq.1_Splice_Site_p.P159_splice|ELMO2_uc002xrs.1_Splice_Site_p.P174_splice|ELMO2_uc002xru.1_Splice_Site_p.P427_splice|ELMO2_uc010zxr.1_Splice_Site_p.P439_splice|ELMO2_uc010zxs.1_Splice_Site_p.P244_splice|ELMO2_uc002xrv.1_Splice_Site_p.P146_splice|ELMO2_uc002xrw.2_Intron	NM_133171	NP_573403	Q96JJ3	ELMO2_HUMAN	engulfment and cell motility 2						apoptosis|cell chemotaxis|phagocytosis	cytoskeleton|cytosol|membrane	lyase activity|receptor tyrosine kinase binding|SH3 domain binding			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				CTTCATTTGCTGTGGAAGTGA	0.488													9	53					0	0	1	0	0		C	45002176	C	C	45002176	5	2	211	1	0	0	0	0	0	0	1	0	5074	1594	55	3	912	3	ELMO2	20	45002176	Splice_Site	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	529195	45002176	18023344	1766	103645											
SLC13A3	64849	broad.mit.edu	37	chr20	45228639	45228639	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcgagaaactgcatctcCgtgggcacagtgtgtaggcc	8	8	14	11	2	1	1	0	0	1	1	2	2	1	1	2	3	2	3	2	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:45228639C>T	uc002xsf.1	-	4	617	c.579G>A	c.(577-579)ACG>ACA	p.T193T	SLC13A3_uc010ghn.1_Silent_p.T162T|SLC13A3_uc010zxw.1_Intron|SLC13A3_uc002xsg.1_Silent_p.T146T|SLC13A3_uc010gho.1_Silent_p.T146T|SLC13A3_uc010zxx.1_Silent_p.T95T	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	193	Cytoplasmic (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)	ACTGCATCTCCGTGGGCACAG	0.468													28	111					0	0	1	0	0		T	45228639	T	T	45228639	2	4	211	1	0	0	0	0	0	0	0	1	14418	639	23	1		1	SLC13A3	20	45228639	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	226463	45228639	17796881	1767	103646											
SLC2A10	81031	broad.mit.edu	37	chr20	45353746	45353746	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggtggcctgacctttggttAtgaactggcagtcatatcag	8	12	13	8	0	2	2	2	2	0	0	2	2	2	2	2	4	1	2	2	4	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:45353746A>G	uc002xsl.2	+	2	168	c.71A>G	c.(70-72)TAT>TGT	p.Y24C		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	24	Helical; Name=1; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				ACCTTTGGTTATGAACTGGCA	0.552													19	101					0	0	1	0	0		G	45353746	G	G	45353746	3	3	211	1	0	0	0	0	1	0	0	0	14564	449	16	3	77	3	SLC2A10	20	45353746	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	125107	45353746	17671774	1768	103647											
SLC2A10	81031	broad.mit.edu	37	chr20	45354606	45354606	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccctcatggccctgtccGtcagtggcataggcctcgtc	4	10	12	15	2	2	0	2	0	0	0	5	0	3	0	4	3	1	1	4	3	1	1	rs139932041		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:45354606G>A	uc002xsl.2	+	2	1028	c.931G>A	c.(931-933)GTC>ATC	p.V311I		NM_030777	NP_110404	O95528	GTR10_HUMAN	solute carrier family 2 member 10	311	Helical; Name=9; (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity|sugar:hydrogen symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)				GGCCCTGTCCGTCAGTGGCAT	0.662													13	100					0	0	1	0	0		A	45354606	A	A	45354606	3	1	211	1	0	0	0	0	1	0	0	0	14564	1145	40	1	937	1	SLC2A10	20	45354606	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	860	45354606	17670914	1769	103648											
ZMYND8	23613	broad.mit.edu	37	chr20	45874806	45874806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttattttttcgaccctcccGcccagaatggtcttctccta	6	15	5	15	2	2	1	0	0	2	1	5	2	3	1	4	1	0	0	4	1	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:45874806G>A	uc002xta.1	-	14	2424	c.2170C>T	c.(2170-2172)CGG>TGG	p.R724W	ZMYND8_uc010ghq.1_Missense_Mutation_p.R401W|ZMYND8_uc010ghr.1_Missense_Mutation_p.R699W|ZMYND8_uc002xst.1_Missense_Mutation_p.R652W|ZMYND8_uc002xsu.1_Missense_Mutation_p.R724W|ZMYND8_uc002xsv.1_Missense_Mutation_p.R652W|ZMYND8_uc002xsw.1_Missense_Mutation_p.R476W|ZMYND8_uc002xsx.1_Missense_Mutation_p.R476W|ZMYND8_uc002xsy.1_Missense_Mutation_p.R699W|ZMYND8_uc002xsz.1_Missense_Mutation_p.R661W|ZMYND8_uc010zxy.1_Missense_Mutation_p.R751W|ZMYND8_uc002xtb.1_Missense_Mutation_p.R744W|ZMYND8_uc002xss.2_Missense_Mutation_p.R724W|ZMYND8_uc010zxz.1_Missense_Mutation_p.R719W|ZMYND8_uc002xtc.1_Missense_Mutation_p.R744W|ZMYND8_uc002xtd.1_Missense_Mutation_p.R719W|ZMYND8_uc002xte.1_Missense_Mutation_p.R724W|ZMYND8_uc010zya.1_Missense_Mutation_p.R724W|ZMYND8_uc002xtf.1_Missense_Mutation_p.R744W|ZMYND8_uc002xtg.2_Missense_Mutation_p.R718W|ZMYND8_uc010ghs.1_Missense_Mutation_p.R718W	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b	724							protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			CGACCCTCCCGCCCAGAATGG	0.433													22	102					0	0	1	0	0		A	45874806	A	A	45874806	3	1	211	1	0	0	0	0	1	0	0	0	17736	1086	38	1	1376	1	ZMYND8	20	45874806	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	520200	45874806	17150714	1770	103649											
SULF2	55959	broad.mit.edu	37	chr20	46301066	46301066	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggagagggctctgctgccGcccagccgcatggggccctt	4	8	15	14	2	1	1	0	0	1	1	1	2	1	1	4	4	3	3	4	4	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:46301066G>A	uc002xto.2	-	11	1782	c.1452C>T	c.(1450-1452)GGC>GGT	p.G484G	SULF2_uc002xtr.2_Silent_p.G484G|SULF2_uc002xtq.2_Silent_p.G484G	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	sulfatase 2 isoform a precursor	484					bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						CTCTGCTGCCGCCCAGCCGCA	0.657													10	59					0	0	1	0	0		A	46301066	A	A	46301066	2	1	211	1	0	0	0	0	0	0	0	1	15396	1074	38	1		1	SULF2	20	46301066	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	426260	46301066	16724454	1771	103650											
ARFGEF2	10564	broad.mit.edu	37	chr20	47582548	47582548	+	Silent	SNP	A	G	G	1	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	gacaggcagtccttgtcgtcAgcagataatctggtatgttg	9	12	12	8	1	2	1	1	0	1	1	4	2	3	1	1	2	1	4	1	2	2	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:47582548A>G	uc002xtx.3	+	8	1199	c.1047A>G	c.(1045-1047)TCA>TCG	p.S349S		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	349					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			CCTTGTCGTCAGCAGATAATC	0.438													5	54					0	0	1	0	0		G	47582548	G	G	47582548	2	3	211	1	0	0	0	0	0	0	0	1	853	175	7	3		3	ARFGEF2	20	47582548	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1281482	47582548	15442972	1772	103651											
MOCS3	27304	broad.mit.edu	37	chr20	49575847	49575847	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcggcagtggaatgcgtgccGtacactcaggcccttacgcc	7	8	12	14	4	1	0	1	0	0	0	2	1	1	1	3	3	4	2	3	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:49575847G>A	uc002xvy.1	+	1	485	c.468G>A	c.(466-468)CCG>CCA	p.P156P	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	156					enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						AATGCGTGCCGTACACTCAGG	0.652													23	101					0	0	1	0	0		A	49575847	A	A	49575847	2	1	211	1	0	0	0	0	0	0	0	1	9710	1132	40	1		1	MOCS3	20	49575847	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1993299	49575847	13449673	1773	103652											
NFATC2	4773	broad.mit.edu	37	chr20	50090678	50090678	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctaagcttcaagatccccGcacagtcgatgctgccagga	10	9	9	13	2	2	1	1	0	1	1	4	3	3	2	3	1	3	3	3	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:50090678G>A	uc002xwd.2	-	5	1767	c.1547C>T	c.(1546-1548)GCG>GTG	p.A516V	NFATC2_uc002xwc.2_Missense_Mutation_p.A516V|NFATC2_uc010zyv.1_Missense_Mutation_p.A297V|NFATC2_uc010zyw.1_Missense_Mutation_p.A297V|NFATC2_uc010zyx.1_Missense_Mutation_p.A496V|NFATC2_uc010zyy.1_Missense_Mutation_p.A297V|NFATC2_uc010zyz.1_Missense_Mutation_p.A297V|NFATC2_uc002xwe.2_Missense_Mutation_p.A496V	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	516	RHD.				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					CAAGATCCCCGCACAGTCGAT	0.532													31	108					0	0	1	0	0		A	50090678	A	A	50090678	3	1	211	1	0	0	0	0	1	0	0	0	10381	1087	38	1	1302	1	NFATC2	20	50090678	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	514831	50090678	12934842	1774	103653											
NFATC2	4773	broad.mit.edu	37	chr20	50139915	50139915	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggtacccagccggggagcCgtggtcctggggtgccacgt	4	6	19	12	3	0	0	0	0	0	0	1	1	1	1	5	7	4	1	5	7	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:50139915C>T	uc002xwd.2	-	2	1085	c.865G>A	c.(865-867)GGC>AGC	p.G289S	NFATC2_uc002xwc.2_Missense_Mutation_p.G289S|NFATC2_uc010zyv.1_Missense_Mutation_p.G70S|NFATC2_uc010zyw.1_Missense_Mutation_p.G70S|NFATC2_uc010zyx.1_Missense_Mutation_p.G269S|NFATC2_uc010zyy.1_Missense_Mutation_p.G70S|NFATC2_uc010zyz.1_Missense_Mutation_p.G70S|NFATC2_uc002xwe.2_Missense_Mutation_p.G269S	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	289					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					GCCGGGGAGCCGTGGTCCTGG	0.711													4	23					0	0	1	0	0		T	50139915	T	T	50139915	3	4	211	1	0	0	0	0	1	0	0	0	10381	652	23	1	1996	1	NFATC2	20	50139915	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	49237	50139915	12885605	1775	103654											
ATP9A	10079	broad.mit.edu	37	chr20	50290784	50290784	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaagggcaaccatgaccagCgagaccaccaccagggcacc	13	2	11	15	1	0	3	0	2	0	1	0	4	0	3	6	2	2	2	6	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:50290784C>T	uc002xwg.1	-	11	945	c.945G>A	c.(943-945)TCG>TCA	p.S315S	ATP9A_uc010gih.1_Silent_p.S179S|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	315	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						CCATGACCAGCGAGACCACCA	0.542													9	86					0	0	1	0	0		T	50290784	T	T	50290784	2	4	211	1	0	0	0	0	0	0	0	1	1199	755	27	1		1	ATP9A	20	50290784	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	150869	50290784	12734736	1776	103655											
SALL4	57167	broad.mit.edu	37	chr20	50407935	50407935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caccgcggagatgttcggtgGcttccccttccctttcttgg	3	13	11	14	3	1	1	0	0	1	1	4	2	3	1	4	4	0	2	4	4	0	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:50407935G>A	uc002xwh.3	-	2	1188	c.1087C>T	c.(1087-1089)CCA>TCA	p.P363S	SALL4_uc010gii.2_Missense_Mutation_p.P363S|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	363					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ATGTTCGGTGGCTTCCCCTTC	0.572													24	78					0	0	1	0	0		A	50407935	A	A	50407935	3	1	211	1	0	0	0	0	1	0	0	0	13838	1203	42	2	2086	2	SALL4	20	50407935	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	117151	50407935	12617585	1777	103656											
ZFP64	55734	broad.mit.edu	37	chr20	50715063	50715063	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtgatgacaggggccttcGgagtgtcagtgctttcagtg	7	11	16	7	1	2	2	2	2	0	0	3	4	2	3	1	3	1	1	1	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:50715063G>A	uc002xwk.2	-	6	1176	c.827C>T	c.(826-828)CCG>CTG	p.P276L	ZFP64_uc002xwj.2_Missense_Mutation_p.P57L	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						AGGGGCCTTCGGAGTGTCAGT	0.468													25	97					0	0	1	0	0		A	50715063	A	A	50715063	3	1	211	1	0	0	0	0	1	0	0	0	17677	1116	39	1	1126	1	ZFP64	20	50715063	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	307128	50715063	12310457	1778	103657											
TSHZ2	128553	broad.mit.edu	37	chr20	51872628	51872628	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatacctgctgtctgatctGggcccacaagagcgtatgca	11	9	10	11	1	2	2	0	1	2	1	2	2	2	2	2	1	4	3	2	1	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:51872628G>T	uc002xwo.2	+	2	3587	c.2631G>T	c.(2629-2631)CTG>CTT	p.L877L		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	877	Homeobox; atypical.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			TGTCTGATCTGGGCCCACAAG	0.507													15	74					1.5739e-10	1.67265e-10	1	1	0		T	51872628	T	T	51872628	2	4	211	1	0	0	0	0	0	0	0	1	16650	1335	47	5		5	TSHZ2	20	51872628	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1157565	51872628	11152892	1779	103658											
ZNF217	7764	broad.mit.edu	37	chr20	52198490	52198490	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagcctggaaggtggtgaaCggatcgagctgagggatgca	11	6	17	7	2	0	2	0	2	0	0	1	6	0	5	1	5	4	2	1	5	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:52198490C>T	uc002xwq.3	-	1	1147	c.876G>A	c.(874-876)CCG>CCA	p.P292P	ZNF217_uc010gij.1_Silent_p.P284P	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	292					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			AGGTGGTGAACGGATCGAGCT	0.542													32	145					0	0	1	0	0		T	52198490	T	T	52198490	2	4	211	1	0	0	0	0	0	0	0	1	17797	523	19	1		1	ZNF217	20	52198490	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	325862	52198490	10827030	1780	103659											
CASS4	57091	broad.mit.edu	37	chr20	55033646	55033646	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtgcgcaacgagatcctccGtggcagcagtcacctctgca	8	7	11	15	4	2	1	1	0	1	1	4	2	4	1	3	1	4	4	3	1	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:55033646G>A	uc002xxp.2	+	7	2429	c.2204G>A	c.(2203-2205)CGT>CAT	p.R735H	CASS4_uc002xxr.2_Missense_Mutation_p.R735H|CASS4_uc010zze.1_Missense_Mutation_p.R681H|CASS4_uc010gio.2_Missense_Mutation_p.R298H	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	735					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						GAGATCCTCCGTGGCAGCAGT	0.622													8	32					0	0	1	0	0		A	55033646	A	A	55033646	3	1	211	1	0	0	0	0	1	0	0	0	2686	1145	40	1	2226	1	CASS4	20	55033646	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2835156	55033646	7991874	1781	103660											
RBM38	55544	broad.mit.edu	37	chr20	55982697	55982697	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcctcgccctacattgagtAcacgccggccagcccggcct	6	7	10	18	4	0	1	0	1	0	0	2	1	1	1	6	2	3	1	6	2	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:55982697A>G	uc010zzj.1	+	4	690	c.515A>G	c.(514-516)TAC>TGC	p.Y172C	RBM38_uc010zzk.1_3'UTR	NM_017495	NP_059965	Q9H0Z9	RBM38_HUMAN	RNA-binding region containing protein 1 isoform	172					3'-UTR-mediated mRNA stabilization|cell cycle|cell cycle arrest|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mRNA processing|negative regulation of cell proliferation|regulation of RNA splicing|RNA splicing	cytosol|cytosol|nucleus|nucleus	mRNA 3'-UTR binding|mRNA binding|nucleotide binding|RNA binding				0	Lung NSC(12;0.00242)|all_lung(29;0.00767)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(4;1.55e-12)|Epithelial(14;9.49e-09)|all cancers(14;5.01e-08)			TACATTGAGTACACGCCGGCC	0.677													17	50					0	0	1	0	0		G	55982697	G	G	55982697	3	3	211	1	0	0	0	0	1	0	0	0	13157	391	14	3	288	3	RBM38	20	55982697	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	949051	55982697	7042823	1782	103661											
PCK1	5105	broad.mit.edu	37	chr20	56136502	56136502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaaaacggcctgaacctctCggccaaagttgtccagggaa	12	6	11	12	2	1	1	0	1	1	0	3	2	2	2	4	3	2	2	4	3	5	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:56136502C>T	uc002xyn.3	+	2	198	c.35C>T	c.(34-36)TCG>TTG	p.S12L	PCK1_uc010zzm.1_5'UTR	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	12					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			CTGAACCTCTCGGCCAAAGTT	0.547													30	153					0	0	1	0	0		T	56136502	T	T	56136502	3	4	211	1	0	0	0	0	1	0	0	0	11600	893	31	1	37	1	PCK1	20	56136502	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	153805	56136502	6889018	1783	103662											
APCDD1L	164284	broad.mit.edu	37	chr20	57042225	57042225	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccgcctctccgccgggtcGgtgtggatgtcccccaggta	3	9	14	15	4	1	0	0	0	1	0	4	1	2	1	6	4	1	1	6	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:57042225G>A	uc002xze.1	-	3	864	c.678C>T	c.(676-678)ACC>ACT	p.T226T	APCDD1L_uc010zzp.1_Silent_p.T237T	NM_153360	NP_699191	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated	226						integral to membrane				ovary(1)	1	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			CCGCCGGGTCGGTGTGGATGT	0.731													12	40					0	0	1	0	0		A	57042225	A	A	57042225	2	1	211	1	0	0	0	0	0	0	0	1	766	1103	39	1		1	APCDD1L	20	57042225	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	905723	57042225	5983295	1784	103663											
ZNF831	128611	broad.mit.edu	37	chr20	57766653	57766653	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctacaagcacaggcggacGcagacgcacctcaacaactc	13	4	8	16	3	2	1	1	0	1	1	3	2	2	2	1	2	4	3	1	2	4	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:57766653G>A	uc002yan.2	+	1	579	c.579G>A	c.(577-579)ACG>ACA	p.T193T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	193	C2H2-type 2.					intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACAGGCGGACGCAGACGCACC	0.662													27	92					0	0	1	0	0		A	57766653	A	A	57766653	2	1	211	1	0	0	0	0	0	0	0	1	18210	1074	38	1		1	ZNF831	20	57766653	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	724428	57766653	5258867	1785	103664											
PHACTR3	116154	broad.mit.edu	37	chr20	58349514	58349514	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacttgcttttgtatcaggaCgaggaggcgctgaacgactc	9	10	13	9	3	1	1	1	1	0	0	2	6	1	3	0	3	2	3	0	3	2	4	rs142106796	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:58349514C>T	uc002yau.2	+	7	1610	c.1143C>T	c.(1141-1143)GAC>GAT	p.D381D	PHACTR3_uc002yat.2_Silent_p.D378D|PHACTR3_uc010zzw.1_Silent_p.D340D|PHACTR3_uc002yav.2_Silent_p.D340D|PHACTR3_uc002yaw.2_Silent_p.D340D|PHACTR3_uc002yax.2_Silent_p.D270D	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	381						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			TGTATCAGGACGAGGAGGCGC	0.502													34	122					0	0	1	0	0		T	58349514	T	T	58349514	2	4	211	1	0	0	0	0	0	0	0	1	11830	535	19	1		1	PHACTR3	20	58349514	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	582861	58349514	4676006	1786	103665											
SYCP2	10388	broad.mit.edu	37	chr20	58486832	58486832	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagcaatgtagaatgaGagagtctgactcccaagatt	13	10	9	9	0	2	5	0	2	2	3	4	6	3	5	2	0	1	2	2	0	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:58486832G>T	uc002yaz.2	-	13	1084	c.945C>A	c.(943-945)CTC>CTA	p.L315L	SYCP2_uc010gju.1_Silent_p.L216L	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	315					cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			TGTAGAATGAGAGAGTCTGAC	0.279													6	38					3.59834e-05	3.71759e-05	1	1	0		T	58486832	T	T	58486832	2	4	211	1	0	0	0	0	0	0	0	1	15457	929	33	5		5	SYCP2	20	58486832	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	137318	58486832	4538688	1787	103666											
CDH4	1002	broad.mit.edu	37	chr20	60469990	60469990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcagcagtacacagtcatcGttcaggccacagatatggaa	13	9	9	10	1	3	1	3	0	0	1	4	2	3	2	1	2	2	3	1	2	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:60469990G>A	uc002ybn.1	+	8	1089	c.1075G>A	c.(1075-1077)GTT>ATT	p.V359I	CDH4_uc002ybp.1_Missense_Mutation_p.V285I	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	359	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CACAGTCATCGTTCAGGCCAC	0.443													34	140					0	0	1	0	0		A	60469990	A	A	60469990	3	1	211	1	0	0	0	0	1	0	0	0	3115	1145	40	1	1105	1	CDH4	20	60469990	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1983158	60469990	2555530	1788	103667											
LAMA5	3911	broad.mit.edu	37	chr20	60885620	60885620	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcacacagccgctgaacccGacggtcacctataggagcag	11	6	10	14	3	2	1	2	1	0	0	2	3	2	2	3	2	3	2	3	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:60885620G>A	uc002ycq.2	-	76	10522	c.10455C>T	c.(10453-10455)GTC>GTT	p.V3485V		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3485	Laminin G-like 4.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CGCTGAACCCGACGGTCACCT	0.672													19	101					0	0	1	0	0		A	60885620	A	A	60885620	2	1	211	1	0	0	0	0	0	0	0	1	8625	1045	37	1		1	LAMA5	20	60885620	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	415630	60885620	2139900	1789	103668											
LAMA5	3911	broad.mit.edu	37	chr20	60887968	60887968	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgctggccgaggtcaggggCggtgggggctgcagtgggac	4	7	22	8	2	1	0	1	0	0	0	1	2	1	1	1	8	2	3	1	8	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:60887968C>T	uc002ycq.2	-	66	9121	c.9054G>A	c.(9052-9054)CCG>CCA	p.P3018P		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	3018	Laminin G-like 2.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AGGTCAGGGGCGGTGGGGGCT	0.667													17	42					0	0	1	0	0		T	60887968	T	T	60887968	2	4	211	1	0	0	0	0	0	0	0	1	8625	755	27	1		1	LAMA5	20	60887968	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2348	60887968	2137552	1790	103669											
LAMA5	3911	broad.mit.edu	37	chr20	60889877	60889877	+	Missense_Mutation	SNP	T	C	C	0	1	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	tactggcagccccccgggccTgggcaatgagctctcgcacg	6	6	13	16	3	1	1	0	1	1	0	2	1	1	1	4	3	3	4	4	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:60889877T>C	uc002ycq.2	-	60	8241	c.8174A>G	c.(8173-8175)CAG>CGG	p.Q2725R		NM_005560	NP_005551	O15230	LAMA5_HUMAN	laminin alpha 5 precursor	2725	Domain II and I.				angiogenesis|cell proliferation|cell recognition|cytoskeleton organization|endothelial cell differentiation|focal adhesion assembly|integrin-mediated signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	integrin binding			ovary(1)|pancreas(1)|skin(1)	3	Breast(26;1.57e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)		Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CCCCCGGGCCTGGGCAATGAG	0.672													31	172					0	0	1	0	0		C	60889877	C	C	60889877	3	2	211	1	0	0	0	0	1	0	0	0	8625	1580	55	3	2997	3	LAMA5	20	60889877	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1909	60889877	2135643	1791	103670											
CABLES2	81928	broad.mit.edu	37	chr20	60966136	60966136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actcaaaccctatcaggtcgCgcctgttgaatcgaaacctt	11	10	7	13	3	2	1	2	1	0	0	4	2	2	1	3	1	2	1	3	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:60966136C>T	uc002ycv.2	-	10	1335	c.1328G>A	c.(1327-1329)CGC>CAC	p.R443H		NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2	443					cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			TATCAGGTCGCGCCTGTTGAA	0.557													24	120					0	0	1	0	0		T	60966136	T	T	60966136	3	4	211	1	0	0	0	0	1	0	0	0	2533	768	27	1	112	1	CABLES2	20	60966136	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	76259	60966136	2059384	1792	103671											
DIDO1	11083	broad.mit.edu	37	chr20	61542717	61542717	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcatgctcctcctgccgcggCgccgcgcaatggtcaggaac	6	6	13	16	5	1	0	1	0	0	0	3	1	3	1	4	3	3	3	4	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:61542717C>T	uc002ydr.1	-	3	512	c.248G>A	c.(247-249)CGC>CAC	p.R83H	DIDO1_uc002yds.1_Missense_Mutation_p.R83H|DIDO1_uc002ydt.1_Missense_Mutation_p.R83H|DIDO1_uc002ydu.1_Missense_Mutation_p.R83H|DIDO1_uc002ydv.1_Missense_Mutation_p.R83H|DIDO1_uc002ydw.1_Missense_Mutation_p.R83H|DIDO1_uc002ydx.1_Missense_Mutation_p.R83H|DIDO1_uc011aao.1_Missense_Mutation_p.R83H	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	83					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CCTGCCGCGGCGCCGCGCAAT	0.706													7	40					0	0	1	0	0		T	61542717	T	T	61542717	3	4	211	1	0	0	0	0	1	0	0	0	4528	768	27	1	6660	1	DIDO1	20	61542717	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	576581	61542717	1482803	1793	103672											
DIDO1	11083	broad.mit.edu	37	chr20	61542746	61542746	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtcaggaactgctccacGcgctcagtgcgcttgggctg	6	9	14	12	3	2	0	2	0	0	0	3	1	3	1	1	3	3	4	1	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:61542746G>A	uc002ydr.1	-	3	483	c.219C>T	c.(217-219)CGC>CGT	p.R73R	DIDO1_uc002yds.1_Silent_p.R73R|DIDO1_uc002ydt.1_Silent_p.R73R|DIDO1_uc002ydu.1_Silent_p.R73R|DIDO1_uc002ydv.1_Silent_p.R73R|DIDO1_uc002ydw.1_Silent_p.R73R|DIDO1_uc002ydx.1_Silent_p.R73R|DIDO1_uc011aao.1_Silent_p.R73R	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	73					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					ACTGCTCCACGCGCTCAGTGC	0.711													10	37					0	0	1	0	0		A	61542746	A	A	61542746	2	1	211	1	0	0	0	0	0	0	0	1	4528	1074	38	1		1	DIDO1	20	61542746	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	29	61542746	1482774	1794	103673											
COL20A1	57642	broad.mit.edu	37	chr20	61937336	61937336	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggggagcccagaccctgaGcaggcttctgagccccaagt	9	5	13	14	1	1	3	0	2	1	1	1	4	1	4	4	3	3	2	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:61937336G>A	uc011aau.1	+	5	541	c.441G>A	c.(439-441)GAG>GAA	p.E147E	COL20A1_uc011aav.1_5'Flank	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	147					cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					CAGACCCTGAGCAGGCTTCTG	0.652													15	49					0	0	1	0	0		A	61937336	A	A	61937336	2	1	211	1	0	0	0	0	0	0	0	1	3682	962	34	2		2	COL20A1	20	61937336	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	394590	61937336	1088184	1795	103674											
CHRNA4	1137	broad.mit.edu	37	chr20	61978175	61978175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaacatccagaggaagatgCggtcgatgaccatggccacg	12	6	13	10	3	0	4	0	2	0	2	2	6	1	5	3	3	2	0	3	3	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:61978175C>T	uc002yes.2	-	6	1977	c.1799G>A	c.(1798-1800)CGC>CAC	p.R600H	CHRNA4_uc002yet.1_Missense_Mutation_p.R424H|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.R529H|CHRNA4_uc002yev.1_Missense_Mutation_p.R424H|CHRNA4_uc010gkf.1_Missense_Mutation_p.R424H	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	600	Cytoplasmic (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|cognition|DNA repair|membrane depolarization|regulation of action potential|regulation of dopamine secretion|regulation of inhibitory postsynaptic membrane potential|response to hypoxia|response to oxidative stress|sensory perception of pain|synaptic transmission, cholinergic	cell junction|dendrite|external side of plasma membrane|membrane fraction|neuronal cell body|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;1.71e-10)				Nicotine(DB00184)|Varenicline(DB01273)	GAGGAAGATGCGGTCGATGAC	0.657													31	38					0	0	1	0	0		T	61978175	T	T	61978175	3	4	211	1	0	0	0	0	1	0	0	0	3388	768	27	1	88	1	CHRNA4	20	61978175	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	40839	61978175	1047345	1796	103675											
PRIC285	85441	broad.mit.edu	37	chr20	62197056	62197056	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagcagccgctcctgccGcacaggccccgggcaccacg	6	3	12	20	4	0	0	0	0	0	0	1	0	1	0	6	2	4	5	6	2	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62197056G>A	uc002yfm.2	-	9	4011	c.3119C>T	c.(3118-3120)GCG>GTG	p.A1040V	PRIC285_uc002yfl.1_Missense_Mutation_p.A471V	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	1040	Ala-rich.				cellular lipid metabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|helicase activity|ribonuclease activity|RNA binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)	2	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;1.27e-08)|all cancers(9;7.32e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)			CGCTCCTGCCGCACAGGCCCC	0.687													11	56					0	0	1	0	0		A	62197056	A	A	62197056	3	1	211	1	0	0	0	0	1	0	0	0	12507	1087	38	1	4878	1	PRIC285	20	62197056	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	218881	62197056	828464	1797	103676											
GMEB2	26205	broad.mit.edu	37	chr20	62223446	62223446	+	Missense_Mutation	SNP	A	G	G	1	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	ggctggccagcaccttcttcAccaggtccagcatgccgaag	8	7	11	15	1	2	0	1	0	1	0	3	1	3	0	5	3	3	3	5	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62223446A>G	uc002yfp.1	-	8	1360	c.881T>C	c.(880-882)GTG>GCG	p.V294A	GMEB2_uc002yfo.1_Missense_Mutation_p.V216A|GMEB2_uc002yfq.1_Missense_Mutation_p.V294A	NM_012384	NP_036516	Q9UKD1	GMEB2_HUMAN	glucocorticoid modulatory element binding	294					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|metal ion binding				0	all_cancers(38;2.51e-11)|all_epithelial(29;8.27e-13)		Epithelial(9;4.79e-09)|all cancers(9;2.76e-08)|BRCA - Breast invasive adenocarcinoma(10;5.15e-06)|OV - Ovarian serous cystadenocarcinoma(5;0.0114)			CACCTTCTTCACCAGGTCCAG	0.602													26	71					0	0	1	0	0		G	62223446	G	G	62223446	3	3	211	1	0	0	0	0	1	0	0	0	6503	159	6	3	719	3	GMEB2	20	62223446	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	26390	62223446	802074	1798	103677											
SLC2A4RG	56731	broad.mit.edu	37	chr20	62373333	62373333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagtgaccagtcctctcCgtccaccccgtcacccccac	6	6	7	22	2	2	1	1	1	1	0	5	1	4	1	9	1	0	0	9	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62373333C>T	uc002ygq.2	+	4	558	c.503C>T	c.(502-504)CCG>CTG	p.P168L	SLC2A4RG_uc002ygr.2_Missense_Mutation_p.P63L|SLC2A4RG_uc011abj.1_Missense_Mutation_p.P63L|SLC2A4RG_uc002ygs.2_Intron|SLC2A4RG_uc002ygt.2_5'UTR	NM_020062	NP_064446	Q9NR83	S2A4R_HUMAN	SLC2A4 regulator	168						cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					CAGTCCTCTCCGTCCACCCCG	0.677													14	60					0	0	1	0	0		T	62373333	T	T	62373333	3	4	211	1	0	0	0	0	1	0	0	0	14572	652	23	1	517	1	SLC2A4RG	20	62373333	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	149887	62373333	652187	1799	103678											
ZBTB46	140685	broad.mit.edu	37	chr20	62378374	62378374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgtcgtccgccaacagcGcatcctcaggggccaggccc	6	6	11	18	3	1	0	1	0	0	0	4	0	3	0	6	3	2	1	6	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62378374G>A	uc002ygv.1	-	5	1880	c.1679C>T	c.(1678-1680)GCG>GTG	p.A560V	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	560					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					CGCCAACAGCGCATCCTCAGG	0.711													10	61					0	0	1	0	0		A	62378374	A	A	62378374	3	1	211	1	0	0	0	0	1	0	0	0	17572	1087	38	1	94	1	ZBTB46	20	62378374	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5041	62378374	647146	1800	103679											
ZBTB46	140685	broad.mit.edu	37	chr20	62421431	62421431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaacctgctcttccttgatgCgcagaggcccgtagcccacg	8	8	10	15	3	1	2	0	1	1	1	2	2	2	2	4	1	4	3	4	1	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62421431C>T	uc002ygv.1	-	2	881	c.680G>A	c.(679-681)CGC>CAC	p.R227H	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	227					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					TTCCTTGATGCGCAGAGGCCC	0.577													12	71					0	0	1	0	0		T	62421431	T	T	62421431	3	4	211	1	0	0	0	0	1	0	0	0	17572	768	27	1	1105	1	ZBTB46	20	62421431	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	43057	62421431	604089	1801	103680											
UCKL1	54963	broad.mit.edu	37	chr20	62572555	62572555	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactggtgtgccgaggccagCgcagccctggggacaaaccg	8	4	15	14	3	0	0	0	0	0	0	0	2	0	1	4	4	4	1	4	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62572555C>T	uc010gkn.2	-	9	973	c.930G>A	c.(928-930)GCG>GCA	p.A310A	UCKL1_uc002yhj.2_5'UTR|UCKL1_uc011abm.1_Silent_p.A295A|UCKL1_uc011abn.1_RNA|UCKL1_uc011abo.1_RNA	NM_017859	NP_060329	Q9NWZ5	UCKL1_HUMAN	uridine-cytidine kinase 1-like 1	310					interspecies interaction between organisms	endoplasmic reticulum|nucleus	ATP binding|phosphotransferase activity, alcohol group as acceptor|protein binding|uridine kinase activity				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CCGAGGCCAGCGCAGCCCTGG	0.662													3	17					0	0	1	0	0		T	62572555	T	T	62572555	2	4	211	1	0	0	0	0	0	0	0	1	16951	755	27	1		1	UCKL1	20	62572555	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	151124	62572555	452965	1802	103681											
NPBWR2	2832	broad.mit.edu	37	chr20	62737267	62737267	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggttcaggcacgagttggcGtagctgaggctggtgatgac	7	9	18	7	2	1	3	1	3	0	0	1	4	1	3	0	5	1	6	0	5	1	3	rs139194738		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62737267G>A	uc011abt.1	-	1	918	c.918C>T	c.(916-918)TAC>TAT	p.Y306Y		NM_005286	NP_005277	P48146	NPBW2_HUMAN	neuropeptides B/W receptor 2	306	Helical; Name=7; (Potential).					plasma membrane	opioid receptor activity|protein binding			large_intestine(1)	1	all_cancers(38;2.58e-11)|all_epithelial(29;6.4e-13)|Lung NSC(23;1.25e-09)|all_lung(23;4.21e-09)					ACGAGTTGGCGTAGCTGAGGC	0.582													32	44					0	0	1	0	0		A	62737267	A	A	62737267	2	1	211	1	0	0	0	0	0	0	0	1	10588	1140	40	1		1	NPBWR2	20	62737267	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	164712	62737267	288253	1803	103682											
MYT1	4661	broad.mit.edu	37	chr20	62859258	62859258	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcttgtccggctgccctcGtgcaaagaaaagtggagtca	10	8	12	11	2	1	1	1	0	0	1	3	2	2	2	2	2	3	3	2	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr20:62859258G>A	uc002yii.2	+	18	2973	c.2609G>A	c.(2608-2610)CGT>CAT	p.R870H	MYT1_uc002yih.2_Missense_Mutation_p.R549H|MYT1_uc002yij.2_Missense_Mutation_p.R529H	NM_004535	NP_004526	Q01538	MYT1_HUMAN	myelin transcription factor 1	870					cell differentiation|nervous system development	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	all_cancers(38;1.82e-11)|all_epithelial(29;3.3e-13)|Lung NSC(23;5.21e-10)|all_lung(23;1.92e-09)					GGCTGCCCTCGTGCAAAGAAA	0.542													12	45					0	0	1	0	0		A	62859258	A	A	62859258	3	1	211	1	0	0	0	0	1	0	0	0	10124	1145	40	1	2671	1	MYT1	20	62859258	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	121991	62859258	166262	1804	103683											
ADAMTS5	11096	broad.mit.edu	37	chr21	28327176	28327176	+	Silent	SNP	A	G	G	1	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	cccagggtgtcacatgaatgAtgcccacataaatcctgccc	11	8	8	14	0	1	2	1	2	0	0	2	2	2	2	4	1	2	0	4	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:28327176A>G	uc002ymg.2	-	2	1848	c.1119T>C	c.(1117-1119)CAT>CAC	p.H373H		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	373	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						CACATGAATGATGCCCACATA	0.493													8	26					0	0	1	0	0		G	28327176	G	G	28327176	2	3	211	1	0	0	0	0	0	0	0	1	269	330	12	3		3	ADAMTS5	21	28327176	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08		28327176	19802719	1805	103684											
RNF160	26046	broad.mit.edu	37	chr21	30330717	30330717	+	Missense_Mutation	SNP	T	A	A	0	1	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	aaaaaggttacctgttgataTccaaagatgaagcctgaact	16	10	8	7	0	0	4	0	3	0	1	1	4	1	4	3	1	3	2	3	1	7	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:30330717T>A	uc002ymr.2	-	14	2889	c.2876A>T	c.(2875-2877)GAT>GTT	p.D959V		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	913							ligase activity|zinc ion binding				0						CCTGTTGATATCCAAAGATGA	0.373													22	78					0	0	1	0	0		A	30330717	A	A	30330717	3	1	211	1	0	0	0	0	1	0	0	0	13480	1435	50	5	2630	5	RNF160	21	30330717	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	2003541	30330717	17799178	1806	103685											
USP16	10600	broad.mit.edu	37	chr21	30408598	30408598	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttttgggtcacaggtgttaCgtatgtgataatgaggtcca	9	15	12	5	1	1	2	1	2	0	0	2	2	2	2	1	3	1	2	1	3	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:30408598C>T	uc002ymy.2	+	5	553	c.351C>T	c.(349-351)TAC>TAT	p.Y117Y	USP16_uc002ymx.2_Silent_p.Y117Y|USP16_uc002ymw.2_Silent_p.Y117Y|USP16_uc011acm.1_Silent_p.Y103Y|USP16_uc011acn.1_Intron	NM_006447	NP_006438	Q9Y5T5	UBP16_HUMAN	ubiquitin specific protease 16 isoform a	117	UBP-type.				cell division|histone deubiquitination|mitosis|positive regulation of transcription, DNA-dependent|protein homotetramerization|transcription, DNA-dependent|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	cysteine-type endopeptidase activity|histone binding|transcription coactivator activity|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			ovary(2)|breast(1)|pancreas(1)	4						ACAGGTGTTACGTATGTGATA	0.388													18	51					0	0	1	0	0		T	30408598	T	T	30408598	2	4	211	1	0	0	0	0	0	0	0	1	17073	547	19	1		1	USP16	21	30408598	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	77881	30408598	17721297	1807	103686											
CRYZL1	9946	broad.mit.edu	37	chr21	34962202	34962202	+	Silent	SNP	G	A	A	0	0	1	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	ggaaacttttgcctcatacaGtggaatgggttcatccaact	11	12	9	9	0	2	0	2	0	0	0	3	2	3	2	2	3	4	1	2	3	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:34962202G>A	uc011adw.1	-	13	1156	c.976C>T	c.(976-978)CTG>TTG	p.L326L	DONSON_uc002ysn.1_Intron|DONSON_uc002ysj.2_5'Flank|DONSON_uc002ysk.2_5'Flank|DONSON_uc002ysl.2_5'Flank|DONSON_uc010gme.2_5'Flank|DONSON_uc002ysm.2_5'UTR	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	326					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						GCCTCATACAGTGGAATGGGT	0.363													6	32					0	0	1	0	0		A	34962202	A	A	34962202	2	1	211	1	0	0	0	0	0	0	0	1	3926	1020	36	4		4	CRYZL1	21	34962202	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	4553604	34962202	13167693	1808	103687											
DOPEY2	9980	broad.mit.edu	37	chr21	37605203	37605203	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtggccatttccactctgCtggaagtgataaaccattcc	10	11	8	12	1	1	1	0	1	1	0	3	2	3	2	4	2	2	1	4	2	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:37605203C>T	uc002yvg.2	+	15	2531	c.2452C>T	c.(2452-2454)CTG>TTG	p.L818L	DOPEY2_uc011aeb.1_Silent_p.L818L	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	818					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						TTCCACTCTGCTGGAAGTGAT	0.488													31	69					0	0	1	0	0		T	37605203	T	T	37605203	2	4	211	1	0	0	0	0	0	0	0	1	4714	796	28	2		2	DOPEY2	21	37605203	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2643001	37605203	10524692	1809	103688											
DOPEY2	9980	broad.mit.edu	37	chr21	37605312	37605312	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggcaagctgcagatggtgaCggttcctcccattgctccag	7	10	12	12	1	0	2	0	1	0	1	3	2	3	2	3	3	3	5	3	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:37605312C>T	uc002yvg.2	+	15	2640	c.2561C>T	c.(2560-2562)ACG>ATG	p.T854M	DOPEY2_uc011aeb.1_Missense_Mutation_p.T854M	NM_005128	NP_005119	Q9Y3R5	DOP2_HUMAN	pad-1-like	854					endoplasmic reticulum organization|Golgi to endosome transport|multicellular organismal development|protein transport	Golgi membrane				ovary(1)|central_nervous_system(1)	2						CAGATGGTGACGGTTCCTCCC	0.393													22	57					0	0	1	0	0		T	37605312	T	T	37605312	3	4	211	1	0	0	0	0	1	0	0	0	4714	536	19	1	2615	1	DOPEY2	21	37605312	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	109	37605312	10524583	1810	103689											
BACE2	25825	broad.mit.edu	37	chr21	42647425	42647425	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtcctatgcgctcatgagCgtctgtggagccatcctcct	5	12	11	13	2	2	1	1	1	1	0	5	2	5	2	4	1	3	1	4	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:42647425C>T	uc002yyw.2	+	9	1894	c.1431C>T	c.(1429-1431)AGC>AGT	p.S477S	BACE2_uc002yyx.2_Silent_p.S427S|BACE2_uc002yyy.2_3'UTR|BACE2_uc010goo.2_RNA	NM_012105	NP_036237	Q9Y5Z0	BACE2_HUMAN	beta-site APP-cleaving enzyme 2 isoform A	477	Helical; (Potential).				membrane protein ectodomain proteolysis|negative regulation of amyloid precursor protein biosynthetic process|peptide hormone processing	cell surface|endoplasmic reticulum|endosome|Golgi apparatus|integral to membrane	aspartic-type endopeptidase activity			ovary(2)	2		Prostate(19;1.57e-07)|all_epithelial(19;0.0251)				CGCTCATGAGCGTCTGTGGAG	0.567													13	41					0	0	1	0	0		T	42647425	T	T	42647425	2	4	211	1	0	0	0	0	0	0	0	1	1283	767	27	1		1	BACE2	21	42647425	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	5042113	42647425	5482470	1811	103690											
TMPRSS2	7113	broad.mit.edu	37	chr21	42861455	42861455	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacttccagagtaggccagCggccagcgcagctcccacga	10	4	12	15	3	0	1	0	0	0	1	2	3	2	1	4	2	4	3	4	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:42861455C>T	uc002yzj.2	-	4	438	c.304G>A	c.(304-306)GCT>ACT	p.A102T	TMPRSS2_uc010gor.2_Missense_Mutation_p.A139T|TMPRSS2_uc010gos.1_Missense_Mutation_p.A102T	NM_005656	NP_005647	O15393	TMPS2_HUMAN	transmembrane protease, serine 2 isoform 2	102	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	cytoplasm|extracellular region|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity		TMPRSS2/ERG(2499)|TMPRSS2/ETV1(24)	prostate(2523)|central_nervous_system(1)	2524		Prostate(19;4.48e-07)|all_epithelial(19;0.031)				AGTAGGCCAGCGGCCAGCGCA	0.592			T	ERG|ETV1|ETV4|ETV5	prostate 								13	46					0	0	1	0	0		T	42861455	T	T	42861455	3	4	211	1	0	0	0	0	1	0	0	0	16272	768	27	1	1218	1	TMPRSS2	21	42861455	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	214030	42861455	5268440	1812	103691											
PRDM15	63977	broad.mit.edu	37	chr21	43259870	43259870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cactgcagggggttccccccGgggtgtgtcctgctccttct	2	11	13	15	1	1	0	0	0	1	0	4	0	4	0	5	4	2	3	5	4	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:43259870G>A	uc002yzq.1	-	14	1942	c.1831C>T	c.(1831-1833)CGG>TGG	p.R611W	PRDM15_uc002yzo.2_Missense_Mutation_p.R282W|PRDM15_uc002yzp.2_Missense_Mutation_p.R282W|PRDM15_uc002yzr.1_Missense_Mutation_p.R282W	NM_022115	NP_071398	P57071	PRD15_HUMAN	PR domain containing 15 isoform 1	611					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGTTCCCCCCGGGGTGTGTCC	0.562													53	106					0	0	1	0	0		A	43259870	A	A	43259870	3	1	211	1	0	0	0	0	1	0	0	0	12478	1115	39	1	2764	1	PRDM15	21	43259870	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	398415	43259870	4870025	1813	103692											
CBS	875	broad.mit.edu	37	chr21	44488638	44488638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagctcacacttcaggccGaacttcttcccaatcttgtt	9	12	6	14	1	4	1	2	0	2	1	5	2	5	1	2	1	2	2	2	1	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:44488638G>A	uc002zcu.2	-	4	542	c.297C>T	c.(295-297)TTC>TTT	p.F99F	CBS_uc002zcs.1_5'Flank|CBS_uc002zct.2_Silent_p.F99F|CBS_uc002zcw.3_Silent_p.F99F|CBS_uc002zcv.2_Silent_p.F99F	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	99					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	ACTTCAGGCCGAACTTCTTCC	0.443													25	77					0	0	1	0	0		A	44488638	A	A	44488638	2	1	211	1	0	0	0	0	0	0	0	1	2714	1049	37	1		1	CBS	21	44488638	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1228768	44488638	3641257	1814	103693											
PWP2	5822	broad.mit.edu	37	chr21	45547815	45547815	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cactgcttaatttcccagggCgctgctgggcggccaccacc	6	8	11	16	2	0	0	0	0	0	0	1	0	1	0	4	3	2	3	4	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:45547815C>T	uc002zeb.2	+	18	2233	c.2143C>T	c.(2143-2145)CGC>TGC	p.R715C		NM_005049	NP_005040	Q15269	PWP2_HUMAN	PWP2 periodic tryptophan protein homolog	715	WD 14.					cytoplasm|nucleolus	signal transducer activity			pancreas(1)	1				STAD - Stomach adenocarcinoma(101;0.172)|Colorectal(79;0.2)		TTTCCCAGGGCGCTGCTGGGC	0.473													19	38					0	0	1	0	0		T	45547815	T	T	45547815	3	4	211	1	0	0	0	0	1	0	0	0	12869	768	27	1	2213	1	PWP2	21	45547815	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1059177	45547815	2582080	1815	103694											
AIRE	326	broad.mit.edu	37	chr21	45713741	45713741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcggtgtactcactgcGccgctgccttccactggcgc	3	10	12	16	4	1	0	1	0	0	0	2	0	2	0	3	2	5	3	3	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:45713741G>A	uc002zei.2	+	11	1475	c.1348G>A	c.(1348-1350)GCC>ACC	p.A450T	AIRE_uc010gpq.2_RNA|AIRE_uc002zej.2_Missense_Mutation_p.A253T|AIRE_uc010gpr.2_Missense_Mutation_p.A253T	NM_000383	NP_000374	O43918	AIRE_HUMAN	autoimmune regulator isoform 1	450	PHD-type 2.			CGDGTDVLRCTHCAAAFHWRCHFPAGTSRPG -> W (in Ref. 3; CAA08759).	positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	chromatin binding|histone binding|transcription regulatory region DNA binding|translation regulator activity|zinc ion binding			skin(1)	1				Colorectal(79;0.0806)		TACTCACTGCGCCGCTGCCTT	0.652									Autoimmune_PolyEndocrinopathy_Candidiasis_Ectodermal_Dystrophy				12	51					0	0	1	0	0		A	45713741	A	A	45713741	3	1	211	1	0	0	0	0	1	0	0	0	437	1087	38	1	1678	1	AIRE	21	45713741	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	165926	45713741	2416154	1816	103695											
TRPM2	7226	broad.mit.edu	37	chr21	45815350	45815350	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttcctcaggccatgtgacCttcaccatggaccccatccg	7	9	8	17	2	2	1	2	1	0	0	4	2	4	2	7	2	0	1	7	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:45815350C>A	uc002zet.1	+	13	2061	c.1848C>A	c.(1846-1848)ACC>ACA	p.T616T	TRPM2_uc002zeu.1_Silent_p.T616T|TRPM2_uc002zew.1_Silent_p.T616T|TRPM2_uc010gpt.1_Silent_p.T616T|TRPM2_uc002zex.1_Silent_p.T402T|TRPM2_uc002zey.1_Silent_p.T129T	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	616	Cytoplasmic (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCCATGTGACCTTCACCATGG	0.527													50	140					3.4597e-24	3.8085e-24	1	1	0		A	45815350	A	A	45815350	2	1	211	1	0	0	0	0	0	0	0	1	16612	668	24	5		5	TRPM2	21	45815350	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	101609	45815350	2314545	1817	103696											
LRRC3	81543	broad.mit.edu	37	chr21	45876939	45876939	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccctgggcaaactcagcGccaagatacgcctgtcccac	10	5	9	17	3	1	1	1	0	0	1	2	1	2	1	4	1	3	1	4	1	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:45876939G>A	uc002zfa.2	+	2	705	c.412G>A	c.(412-414)GCC>ACC	p.A138T		NM_030891	NP_112153	Q9BY71	LRRC3_HUMAN	leucine-rich repeat-containing 3 precursor	138	LRR 4.					integral to membrane	protein binding				0		Breast(209;0.00908)		COAD - Colon adenocarcinoma(84;0.148)|Lung(125;0.195)		CAAACTCAGCGCCAAGATACG	0.677													21	61					0	0	1	0	0		A	45876939	A	A	45876939	3	1	211	1	0	0	0	0	1	0	0	0	9002	1087	38	1	414	1	LRRC3	21	45876939	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	61589	45876939	2252956	1818	103697											
C21orf29	54084	broad.mit.edu	37	chr21	45949798	45949798	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggacacagccttggggtggCgtctgagcccggcagcagga	7	5	18	11	2	1	1	0	1	1	0	1	3	1	3	2	6	3	2	2	6	0	1	rs146216896		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:45949798C>T	uc002zfe.1	-	5	739	c.673G>A	c.(673-675)GCC>ACC	p.A225T	C21orf29_uc010gpv.1_Missense_Mutation_p.A157T	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	225					cell adhesion	extracellular region	structural molecule activity				0						CTTGGGGTGGCGTCTGAGCCC	0.672													8	29					0	0	1	0	0		T	45949798	T	T	45949798	3	4	211	1	0	0	0	0	1	0	0	0	2127	768	27	1	1368	1	C21orf29	21	45949798	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	72859	45949798	2180097	1819	103698											
C21orf70	85395	broad.mit.edu	37	chr21	46396683	46396684	+	Frame_Shift_Ins	INS	-	G	G																															catcgggcagacgctggcccINSggcagatgcagctggaagat																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:46396683_46396684insG	uc002zgl.2	+	6	676_677	c.658_659insG	c.(658-660)CGGfs	p.R220fs	C21orf70_uc002zgm.2_Frame_Shift_Ins_p.R205fs	NM_058190	NP_478070	Q9NSI2	CU070_HUMAN	hypothetical protein LOC85395	220											0				Colorectal(79;0.248)		GACGCTGGCCCGGCAGATGCAG	0.653													2	4	---	---	---	---						.	G	46396684	G	G	46396683	7	5	211	1	0	1	1	0	0	0	0	0	2136	643	23	0	680	0	C21orf70	21	46396683	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	446885	46396683	1733212	1820	103699											
FTCD	10841	broad.mit.edu	37	chr21	47574137	47574137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccctccaccacgcactccGgcggccccacgaaggtgtac	7	4	9	21	4	0	0	0	0	0	0	2	1	2	0	7	3	1	2	7	3	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:47574137G>A	uc002zif.2	-	2	208	c.164C>T	c.(163-165)CCG>CTG	p.P55L	FTCD_uc002zig.2_Missense_Mutation_p.P55L|FTCD_uc002zih.2_Missense_Mutation_p.P55L|FTCD_uc010gqf.2_Missense_Mutation_p.P55L|FTCD_uc010gqg.1_5'UTR	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	55	Formiminotransferase N-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)|skin(1)	2	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)	CACGCACTCCGGCGGCCCCAC	0.662													18	46					0	0	1	0	0		A	47574137	A	A	47574137	3	1	211	1	0	0	0	0	1	0	0	0	6095	1116	39	1	1513	1	FTCD	21	47574137	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1177454	47574137	555758	1821	103700											
LSS	4047	broad.mit.edu	37	chr21	47611037	47611037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctcaggggtggccagcaaggGctctctcagggtacagctgg	7	7	16	11	0	3	0	2	0	1	0	4	0	3	0	1	6	3	4	1	6	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:47611037G>A	uc002zij.2	-	22	2259	c.2180C>T	c.(2179-2181)GCC>GTC	p.A727V	LSS_uc011afv.1_Missense_Mutation_p.A716V|LSS_uc002zil.2_Missense_Mutation_p.A727V|LSS_uc002zik.2_Missense_Mutation_p.A647V	NM_001001438	NP_001001438	P48449	ERG7_HUMAN	lanosterol synthase isoform 1	727					cholesterol biosynthetic process	endoplasmic reticulum membrane	lanosterol synthase activity				0	Breast(49;0.214)					GCCAGCAAGGGCTCTCTCAGG	0.627													14	44					0	0	1	0	0		A	47611037	A	A	47611037	3	1	211	1	0	0	0	0	1	0	0	0	9083	1203	42	2	22	2	LSS	21	47611037	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	36900	47611037	518858	1822	103701											
MCM3AP	8888	broad.mit.edu	37	chr21	47697552	47697552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacacatggcccgaggccctCggagccctcggaggctgagt	7	5	14	15	3	0	1	0	1	0	0	2	4	0	3	3	5	1	1	3	5	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:47697552C>T	uc002zir.1	-	5	1783	c.1747G>A	c.(1747-1749)GAG>AAG	p.E583K		NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	583					DNA replication|protein import into nucleus	cytosol|nucleus	DNA binding|nucleotide binding			large_intestine(2)|lung(1)|ovary(1)|skin(1)	5	Breast(49;0.112)					CCGAGGCCCTCGGAGCCCTCG	0.542													37	74					0	0	1	0	0		T	47697552	T	T	47697552	3	4	211	1	0	0	0	0	1	0	0	0	9406	893	31	1	4291	1	MCM3AP	21	47697552	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	86515	47697552	432343	1823	103702											
C21orf58	54058	broad.mit.edu	37	chr21	47731429	47731429	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggggaggaggaatctgtgctAtgagtggctgctgagggagc	8	8	20	5	0	1	2	0	2	1	0	1	6	1	6	0	6	3	3	0	6	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:47731429A>G	uc002zjf.2	-	7	1796	c.662T>C	c.(661-663)ATA>ACA	p.I221T	C21orf58_uc002ziz.2_Missense_Mutation_p.I138T|C21orf58_uc002zja.2_Missense_Mutation_p.I115T|C21orf58_uc011afw.1_Missense_Mutation_p.I138T|C21orf58_uc002zjc.2_Missense_Mutation_p.I115T|C21orf58_uc011afx.1_Missense_Mutation_p.I115T|C21orf58_uc010gqj.1_RNA	NM_058180	NP_478060	P58505	CU058_HUMAN	hypothetical protein LOC54058	221										pancreas(1)	1	Breast(49;0.112)			Colorectal(79;0.239)		AATCTGTGCTATGAGTGGCTG	0.493													7	14					0	0	1	0	0		G	47731429	G	G	47731429	3	3	211	1	0	0	0	0	1	0	0	0	2132	449	16	3	318	3	C21orf58	21	47731429	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	33877	47731429	398466	1824	103703											
PCNT	5116	broad.mit.edu	37	chr21	47817218	47817218	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggatctgaccaaagaacagtCggagaccaggaagcaggctg	14	4	14	9	1	1	3	0	1	1	2	2	6	1	5	2	4	2	2	2	4	3	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:47817218C>T	uc002zji.3	+	22	4363	c.4256C>T	c.(4255-4257)TCG>TTG	p.S1419L	PCNT_uc002zjj.2_Missense_Mutation_p.S1301L	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1419	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					AAAGAACAGTCGGAGACCAGG	0.567													20	61					0	0	1	0	0		T	47817218	T	T	47817218	3	4	211	1	0	0	0	0	1	0	0	0	11609	893	31	1	4342	1	PCNT	21	47817218	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	85789	47817218	312677	1825	103704											
PCNT	5116	broad.mit.edu	37	chr21	47831466	47831466	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagcagcgcctccagggcGcagaggaggctgcggagcta	8	4	17	12	3	0	1	0	0	0	1	1	3	1	3	2	4	5	5	2	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr21:47831466G>A	uc002zji.3	+	28	5586	c.5479G>A	c.(5479-5481)GCA>ACA	p.A1827T	PCNT_uc002zjj.2_Missense_Mutation_p.A1709T	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	1827	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					CCTCCAGGGCGCAGAGGAGGC	0.687													6	25					0	0	1	0	0		A	47831466	A	A	47831466	3	1	211	1	0	0	0	0	1	0	0	0	11609	1087	38	1	5589	1	PCNT	21	47831466	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	14248	47831466	298429	1826	103705											
POTEH	23784	broad.mit.edu	37	chr22	16266973	16266973	+	Silent	SNP	A	G	G	1	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	tcaggaaattgctggctttcAggtgttctgcttttccttgg	5	17	11	8	0	3	0	2	0	1	0	4	1	4	1	1	4	2	4	1	4	1	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:16266973A>G	uc010gqp.2	-	9	1528	c.1476T>C	c.(1474-1476)CCT>CCC	p.P492P	POTEH_uc002zlg.1_RNA|POTEH_uc002zlh.1_Silent_p.P211P|POTEH_uc002zlj.1_Silent_p.P327P	NM_001136213	NP_001129685	Q6S545	POTEH_HUMAN	ANKRD26-like family C, member 3	492										skin(1)	1						GCTGGCTTTCAGGTGTTCTGC	0.428													23	167					0	0	1	0	0		G	16266973	G	G	16266973	2	3	211	1	0	0	0	0	0	0	0	1	12286	175	7	3		3	POTEH	22	16266973	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08		16266973	35037593	1827	103706											
XKR3	150165	broad.mit.edu	37	chr22	17280908	17280908	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtaatttctaatggtgtgCaaacacctgttaacatgaag	13	13	9	6	0	1	1	0	1	1	0	1	1	1	1	1	2	3	3	1	2	5	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:17280908C>A	uc002zlv.2	-	3	440	c.342G>T	c.(340-342)TTG>TTT	p.L114F	XKR3_uc011agf.1_Missense_Mutation_p.L114F	NM_175878	NP_787074	Q5GH77	XKR3_HUMAN	X Kell blood group precursor-related family,	114	Helical; (Potential).					integral to membrane|plasma membrane				large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				TAATGGTGTGCAAACACCTGT	0.348													8	37					0.000442599	0.000452701	1	1	0		A	17280908	A	A	17280908	3	1	211	1	0	0	0	0	1	0	0	0	17458	709	25	5	1045	5	XKR3	22	17280908	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1013935	17280908	34023658	1828	103707											
CECR6	27439	broad.mit.edu	37	chr22	17600531	17600531	+	Frame_Shift_Del	DEL	A	-	-																															tcttgagcatgaagatggagAggggctgctggtagctgacc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:17600531delA	uc002zmb.2	-	1	1683	c.1487delT	c.(1486-1488)CTCfs	p.L496fs	CECR6_uc002zma.2_Frame_Shift_Del_p.L141fs|uc002zmc.2_5'Flank	NM_031890	NP_114096	Q9BXQ6	CECR6_HUMAN	cat eye syndrome chromosome region, candidate 6	496											0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.221)		GAAGATGGAGAGGGGCTGCTG	0.701													5	5	---	---	---	---						.	-	17600531	-	-	17600531	7	5	211	1	0	1	0	1	0	0	0	0	3211	304	11	0	253	0	CECR6	22	17600531	Frame_Shift_Del	DEL	A	TCGA-HU-A4GQ-01A-11D-A25D-08	319623	17600531	33704035	1829	103708											
CECR2	27443	broad.mit.edu	37	chr22	18022564	18022564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaccagcctgcacacccccGtttacctggcccttttccgc	5	9	6	21	2	0	0	0	0	0	0	1	0	1	0	8	1	3	2	8	1	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:18022564G>A	uc010gqw.1	+	15	2792	c.2666G>A	c.(2665-2667)CGT>CAT	p.R889H	CECR2_uc010gqv.1_Missense_Mutation_p.R748H|CECR2_uc002zml.2_Missense_Mutation_p.R748H	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	931					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		GCACACCCCCGTTTACCTGGC	0.632													36	80					0	0	1	0	0		A	18022564	A	A	18022564	3	1	211	1	0	0	0	0	1	0	0	0	3209	1145	40	1	2726	1	CECR2	22	18022564	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	422033	18022564	33282002	1830	103709											
MICAL3	57553	broad.mit.edu	37	chr22	18371904	18371904	+	Missense_Mutation	SNP	A	G	G	1	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	aggccatttctttgcctgtcAtgatgggagaaatgcccaat	10	12	10	9	0	2	2	1	1	1	1	2	3	2	2	3	2	2	0	3	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:18371904A>G	uc002zng.3	-	13	2140	c.1787T>C	c.(1786-1788)ATG>ACG	p.M596T	MICAL3_uc011agl.1_Missense_Mutation_p.M596T|MICAL3_uc002znh.2_Missense_Mutation_p.M596T|MICAL3_uc002znj.1_Missense_Mutation_p.M296T|MICAL3_uc002znk.1_Missense_Mutation_p.M596T|MICAL3_uc002znl.1_Missense_Mutation_p.M229T|MICAL3_uc002znm.2_Missense_Mutation_p.M97T|MICAL3_uc010grf.2_Missense_Mutation_p.M596T	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	596	CH.					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		TTTGCCTGTCATGATGGGAGA	0.463											OREG0026284	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	59					0	0	1	0	0		G	18371904	G	G	18371904	3	3	211	1	0	0	0	0	1	0	0	0	9589	217	8	3	5038	3	MICAL3	22	18371904	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	349340	18371904	32932662	1831	103710											
GSC2	2928	broad.mit.edu	37	chr22	19137315	19137315	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtgcggtggcgcctcgtgCgccgctgcgaacccgggccg	2	6	18	15	8	0	0	0	0	0	0	1	1	0	0	4	4	4	1	4	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:19137315C>T	uc011ags.1	-	2	374	c.374G>A	c.(373-375)CGC>CAC	p.R125H		NM_005315	NP_005306	O15499	GSC2_HUMAN	goosecoid homeobox 2	125					anatomical structure morphogenesis|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Colorectal(54;0.0993)					GCGCCTCGTGCGCCGCTGCGA	0.716													4	13					0	0	1	0	0		T	19137315	T	T	19137315	3	4	211	1	0	0	0	0	1	0	0	0	6831	768	27	1	250	1	GSC2	22	19137315	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	765411	19137315	32167251	1832	103711											
HIRA	7290	broad.mit.edu	37	chr22	19396041	19396041	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctggcaaagcatcttgggaAtattttcatccttctcgtca	9	15	7	10	1	5	0	2	0	3	0	7	1	6	1	1	2	1	2	1	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:19396041A>T	uc002zpf.1	-	3	396	c.176T>A	c.(175-177)ATT>AAT	p.I59N	HIRA_uc011agx.1_5'UTR|HIRA_uc010grn.1_Missense_Mutation_p.I59N|HIRA_uc010gro.1_Missense_Mutation_p.I15N|HIRA_uc010grp.2_RNA	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective	59					chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CATCTTGGGAATATTTTCATC	0.488													17	57					0	0	1	0	0		T	19396041	T	T	19396041	3	4	211	1	0	0	0	0	1	0	0	0	7136	101	4	5	2969	5	HIRA	22	19396041	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	258726	19396041	31908525	1833	103712											
CLDN5	7122	broad.mit.edu	37	chr22	19511314	19511314	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgcccagctcgtacttctgCgacacgggcacagacgggtc	7	6	13	15	5	1	1	0	0	1	1	3	2	1	1	1	2	3	3	1	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:19511314C>T	uc002zpu.2	-	2	935	c.720G>A	c.(718-720)TCG>TCA	p.S240S	CLDN5_uc010grr.2_Silent_p.S240S	NM_003277	NP_003268	O00501	CLD5_HUMAN	claudin 5	155	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0	Colorectal(54;0.0993)					CGTACTTCTGCGACACGGGCA	0.657													4	15					0	0	1	0	0		T	19511314	T	T	19511314	2	4	211	1	0	0	0	0	0	0	0	1	3491	755	27	1		1	CLDN5	22	19511314	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	115273	19511314	31793252	1834	103713											
CLDN5	7122	broad.mit.edu	37	chr22	19511395	19511395	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcacgagcgccagcagcccGcaaaacaggtagagcacgcc	12	1	13	15	4	0	1	0	0	0	1	0	2	0	1	3	2	5	5	3	2	3	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:19511395G>A	uc002zpu.2	-	2	854	c.639C>T	c.(637-639)TGC>TGT	p.C213C	CLDN5_uc010grr.2_Silent_p.C213C	NM_003277	NP_003268	O00501	CLD5_HUMAN	claudin 5	128	Helical; (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity				0	Colorectal(54;0.0993)					CCAGCAGCCCGCAAAACAGGT	0.682													3	31					0	0	1	0	0		A	19511395	A	A	19511395	2	1	211	1	0	0	0	0	0	0	0	1	3491	1079	38	1		1	CLDN5	22	19511395	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	81	19511395	31793171	1835	103714											
ARVCF	421	broad.mit.edu	37	chr22	19961234	19961234	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggcgacggcgcgcaccaccTtgtcggtctcagactgcagc	6	7	13	15	5	1	1	1	0	1	1	3	2	1	1	2	3	2	2	2	3	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:19961234T>G	uc002zqz.2	-	13	2442	c.2171A>C	c.(2170-2172)AAG>ACG	p.K724T	ARVCF_uc002zqy.2_Missense_Mutation_p.K240T	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	724	ARM 8.				cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					GCGCACCACCTTGTCGGTCTC	0.672													38	93					0	0	1	0	0		G	19961234	G	G	19961234	3	3	211	1	0	0	0	0	1	0	0	0	1004	1609	56	5	745	5	ARVCF	22	19961234	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	449839	19961234	31343332	1836	103715											
DGCR8	54487	broad.mit.edu	37	chr22	20079466	20079466	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcgtgtcctcaaggtcCgccctgtctataatttcttt	6	15	8	12	2	3	0	1	0	2	0	5	0	5	0	3	1	2	1	3	1	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:20079466C>T	uc002zri.2	+	7	1929	c.1579C>T	c.(1579-1581)CGC>TGC	p.R527C	DGCR8_uc010grz.2_Missense_Mutation_p.R527C|DGCR8_uc002zrj.2_Missense_Mutation_p.R170C	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	527	Necessary for interaction with DROSHA.|Necessary for heme-binding and pri-miRNA processing.|DRBM 1.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					CCTCAAGGTCCGCCCTGTCTA	0.478													6	19					0	0	1	0	0		T	20079466	T	T	20079466	3	4	211	1	0	0	0	0	1	0	0	0	4470	652	23	1	1601	1	DGCR8	22	20079466	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	118232	20079466	31225100	1837	103716											
ZDHHC8	29801	broad.mit.edu	37	chr22	20127357	20127357	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtgggcgtcgtggccttcGgcctggtctacgtgctgaac	3	11	16	11	4	1	1	0	1	1	0	3	1	1	1	2	5	3	1	2	5	2	2	rs146759935		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:20127357G>A	uc002zrq.2	+	4	605	c.499G>A	c.(499-501)GGC>AGC	p.G167S	ZDHHC8_uc002zrr.1_Missense_Mutation_p.G167S|ZDHHC8_uc010gsa.2_Intron	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	167	Helical; (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					CGTGGCCTTCGGCCTGGTCTA	0.607													14	36					0	0	1	0	0		A	20127357	A	A	20127357	3	1	211	1	0	0	0	0	1	0	0	0	17646	1116	39	1	513	1	ZDHHC8	22	20127357	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	47891	20127357	31177209	1838	103717											
ZDHHC8	29801	broad.mit.edu	37	chr22	20131072	20131072	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctccgtgagccgtgcaccgcGgacgtcgtcctcctccctgc	3	8	11	19	6	0	1	0	1	0	0	5	2	4	2	6	1	3	1	6	1	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:20131072G>A	uc002zrq.2	+	10	2025	c.1919G>A	c.(1918-1920)CGG>CAG	p.R640Q	ZDHHC8_uc002zrr.1_Missense_Mutation_p.R640Q|ZDHHC8_uc010gsa.2_Missense_Mutation_p.R446Q	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	640	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					CGTGCACCGCGGACGTCGTCC	0.711													9	20					0	0	1	0	0		A	20131072	A	A	20131072	3	1	211	1	0	0	0	0	1	0	0	0	17646	1116	39	1	1957	1	ZDHHC8	22	20131072	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3715	20131072	31173494	1839	103718											
ZNF74	7625	broad.mit.edu	37	chr22	20760633	20760633	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcaccctccaccagaggaCgcacacgggcgagaagccct	10	3	10	18	3	1	2	1	0	0	2	2	4	2	3	5	2	1	1	5	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:20760633C>T	uc010gsm.2	+	6	1522	c.1310C>T	c.(1309-1311)ACG>ATG	p.T437M	ZNF74_uc002zsg.2_Missense_Mutation_p.T366M|ZNF74_uc002zsh.2_Missense_Mutation_p.T437M|ZNF74_uc002zsi.2_Missense_Mutation_p.T366M|ZNF74_uc010gsn.2_Missense_Mutation_p.T366M	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	437	C2H2-type 7.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	actin cytoskeleton|nucleus	DNA binding|RNA binding|zinc ion binding			ovary(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.0025)|Colorectal(54;0.0221)|all_neural(72;0.219)	Lung SC(17;0.0262)|all_lung(157;0.248)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			CACCAGAGGACGCACACGGGC	0.652													14	35					0	0	1	0	0		T	20760633	T	T	20760633	3	4	211	1	0	0	0	0	1	0	0	0	18152	536	19	1	1328	1	ZNF74	22	20760633	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	629561	20760633	30543933	1840	103719											
KLHL22	84861	broad.mit.edu	37	chr22	20812182	20812182	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggtcattgtggtagtcacgGcccgccacagcgtagatgta	9	9	13	10	3	2	1	2	0	0	1	2	1	2	1	2	3	1	3	2	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:20812182G>A	uc002zsl.1	-	5	1327	c.1218C>T	c.(1216-1218)GGC>GGT	p.G406G	KLHL22_uc011ahr.1_Silent_p.G263G|KLHL22_uc002zsm.1_Silent_p.G406G	NM_032775	NP_116164	Q53GT1	KLH22_HUMAN	kelch-like	406	Kelch 3.				cell division	Cul3-RING ubiquitin ligase complex				lung(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00167)|Colorectal(54;0.0221)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.00102)|Lung(15;0.0173)			GGTAGTCACGGCCCGCCACAG	0.612													3	22					0	0	1	0	0		A	20812182	A	A	20812182	2	1	211	1	0	0	0	0	0	0	0	1	8393	1190	42	2		2	KLHL22	22	20812182	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	51549	20812182	30492384	1841	103720											
LZTR1	8216	broad.mit.edu	37	chr22	21348009	21348009	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggcggctgtgggagagccGccagttctgcgacgtggagt	5	7	19	10	5	1	1	0	0	1	1	1	4	1	2	2	4	2	2	2	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:21348009G>A	uc002zto.2	+	12	1422	c.1319G>A	c.(1318-1320)CGC>CAC	p.R440H	LZTR1_uc002ztn.2_Missense_Mutation_p.R399H|LZTR1_uc011ahy.1_Missense_Mutation_p.R421H|LZTR1_uc010gsr.1_Missense_Mutation_p.R311H|LZTR1_uc002ztp.2_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	440	Kelch 6.				anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-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;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			TGGGAGAGCCGCCAGTTCTGC	0.622													15	26					0	0	1	0	0		A	21348009	A	A	21348009	3	1	211	1	0	0	0	0	1	0	0	0	9155	1087	38	1	1365	1	LZTR1	22	21348009	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	535827	21348009	29956557	1842	103721											
LZTR1	8216	broad.mit.edu	37	chr22	21349285	21349285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagcagcagccgccccctCgcactcccttggaccagcca	8	4	10	19	2	0	0	0	0	0	0	2	2	1	2	6	2	4	3	6	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:21349285C>T	uc002zto.2	+	16	2015	c.1912C>T	c.(1912-1914)CGC>TGC	p.R638C	LZTR1_uc002ztn.2_Missense_Mutation_p.R597C|LZTR1_uc011ahy.1_Missense_Mutation_p.R619C|LZTR1_uc002ztp.2_5'Flank	NM_006767	NP_006758	Q8N653	LZTR1_HUMAN	leucine-zipper-like transcription regulator 1	638					anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-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;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			GCCGCCCCCTCGCACTCCCTT	0.612													26	83					0	0	1	0	0		T	21349285	T	T	21349285	3	4	211	1	0	0	0	0	1	0	0	0	9155	884	31	1	1974	1	LZTR1	22	21349285	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1276	21349285	29955281	1843	103722											
PPM1F	9647	broad.mit.edu	37	chr22	22285542	22285542	+	Missense_Mutation	SNP	T	G	G	0	1	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	gccgttctggtctgtgtggcTccatcagcttcaccacctgt	4	13	10	14	1	4	0	2	0	2	0	5	0	5	0	4	2	1	3	4	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:22285542T>G	uc002zvp.1	-	6	983	c.869A>C	c.(868-870)GAG>GCG	p.E290A	PPM1F_uc011aik.1_Missense_Mutation_p.E186A|PPM1F_uc002zvq.2_Missense_Mutation_p.E290A	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	290					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		TCTGTGTGGCTCCATCAGCTT	0.627													32	83					0	0	1	0	0		G	22285542	G	G	22285542	3	3	211	1	0	0	0	0	1	0	0	0	12361	1551	54	5	507	5	PPM1F	22	22285542	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	936257	22285542	29019024	1844	103723											
RAB36	9609	broad.mit.edu	37	chr22	23494678	23494678	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccaaggtggtggtggttggCgatctctacgtggggaagac	7	10	17	7	2	1	1	0	0	1	1	3	3	2	2	1	7	1	1	1	7	3	2	rs114023206	byFrequency	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:23494678C>T	uc002zwv.1	+	4	430	c.390C>T	c.(388-390)GGC>GGT	p.G130G	RAB36_uc010gtw.1_Intron	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family	130	GTP (By similarity).				protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)		TGGTGGTTGGCGATCTCTACG	0.582													18	86					0	0	1	0	0		T	23494678	T	T	23494678	2	4	211	1	0	0	0	0	0	0	0	1	12951	755	27	1		1	RAB36	22	23494678	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1209136	23494678	27809888	1845	103724											
RAB36	9609	broad.mit.edu	37	chr22	23495284	23495284	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtggactttgaaattgagCgctttgagattgctgggatt	8	14	15	4	1	0	3	0	3	0	1	0	6	0	5	0	3	2	2	0	3	1	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:23495284C>T	uc002zwv.1	+	5	530	c.490C>T	c.(490-492)CGC>TGC	p.R164C	RAB36_uc010gtw.1_Missense_Mutation_p.R142C	NM_004914	NP_004905	O95755	RAB36_HUMAN	RAB36, member RAS oncogene family	164					protein transport|small GTPase mediated signal transduction	Golgi membrane	GTP binding			ovary(1)|central_nervous_system(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.155)		TGAAATTGAGCGCTTTGAGAT	0.507													37	112					0	0	1	0	0		T	23495284	T	T	23495284	3	4	211	1	0	0	0	0	1	0	0	0	12951	768	27	1	508	1	RAB36	22	23495284	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	606	23495284	27809282	1846	103725											
SMARCB1	6598	broad.mit.edu	37	chr22	24176339	24176339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttccaggcggatgaggcGtcttgccaacacggccccgg	6	7	13	15	4	2	1	0	1	2	0	3	2	3	2	4	5	2	0	4	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:24176339G>A	uc002zyb.2	+	9	1337	c.1130G>A	c.(1129-1131)CGT>CAT	p.R377H	SMARCB1_uc002zya.2_Intron|SMARCB1_uc002zyc.2_Missense_Mutation_p.R368H|SMARCB1_uc002zyd.2_Missense_Mutation_p.R386H	NM_003073	NP_003064	Q12824	SNF5_HUMAN	SWI/SNF related, matrix associated, actin	377					cell cycle|chromatin remodeling|DNA integration|interspecies interaction between organisms|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|retroviral genome replication|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleolus|nucleoplasm|SWI/SNF complex	p53 binding	p.R377H(4)|p.?(2)|p.R377fs*10(1)|p.L266_*386del(1)		soft_tissue(193)|central_nervous_system(172)|haematopoietic_and_lymphoid_tissue(23)|meninges(5)|skin(5)|bone(4)|ovary(2)|endometrium(1)|lung(1)|pancreas(1)	407		Medulloblastoma(6;2.2e-09)|all_neural(6;2.73e-05)				CGGATGAGGCGTCTTGCCAAC	0.647			D|N|F|S		malignant rhabdoid 	malignant rhabdoid			Rhabdoid_Predisposition_syndrome|Schwannomatosis				3	14					0	0	1	0	0		A	24176339	A	A	24176339	3	1	211	1	0	0	0	0	1	0	0	0	14799	1145	40	1	1164	1	SMARCB1	22	24176339	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	681055	24176339	27128227	1847	103726											
CABIN1	23523	broad.mit.edu	37	chr22	24487549	24487549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcttacagatggagggccggCgcgacagcatgctagagaca	11	6	14	10	3	1	2	0	0	1	2	1	5	1	3	1	3	3	2	1	3	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:24487549C>T	uc002zzi.1	+	24	3665	c.3538C>T	c.(3538-3540)CGC>TGC	p.R1180C	CABIN1_uc002zzj.1_Missense_Mutation_p.R1130C|CABIN1_uc002zzl.1_Missense_Mutation_p.R1180C	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1180					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity	p.D1181fs*19(1)		ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						GGAGGGCCGGCGCGACAGCAT	0.572													20	76					0	0	1	0	0		T	24487549	T	T	24487549	3	4	211	1	0	0	0	0	1	0	0	0	2531	768	27	1	3628	1	CABIN1	22	24487549	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	311210	24487549	26817017	1848	103727											
CYTSA	23384	broad.mit.edu	37	chr22	24720240	24720240	+	Missense_Mutation	SNP	A	G	G	1	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	agctaagaaacaaattgaagAtttgaatatgacgttagaaa	20	10	8	3	1	0	6	0	3	0	3	0	6	0	6	0	0	2	2	0	0	8	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:24720240A>G	uc002zzw.2	+	6	2298	c.1991A>G	c.(1990-1992)GAT>GGT	p.D664G	CYTSA_uc002zzv.3_Missense_Mutation_p.D664G|CYTSA_uc011ajq.1_Missense_Mutation_p.D664G	NM_015330	NP_056145	Q69YQ0	CYTSA_HUMAN	cytospin A	664	Potential.				cell cycle|cell division						0						CAAATTGAAGATTTGAATATG	0.338													15	60					0	0	1	0	0		G	24720240	G	G	24720240	3	3	211	1	0	0	0	0	1	0	0	0	4212	333	12	3	2005	3	CYTSA	22	24720240	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	232691	24720240	26584326	1849	103728											
MN1	4330	broad.mit.edu	37	chr22	28194245	28194245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgcgctggggggcgagttcaCgcctggaccgctgtgcggcg	3	6	19	13	7	1	0	1	0	0	0	1	2	1	1	2	5	1	3	2	5	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:28194245C>T	uc003adj.2	-	1	3242	c.2287G>A	c.(2287-2289)GTG>ATG	p.V763M		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	763							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GGCGAGTTCACGCCTGGACCG	0.756			T	ETV6	AML|meningioma								3	6					0	0	1	0	0		T	28194245	T	T	28194245	3	4	211	1	0	0	0	0	1	0	0	0	9691	536	19	1	1683	1	MN1	22	28194245	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	3474005	28194245	23110321	1850	103729											
MN1	4330	broad.mit.edu	37	chr22	28195048	28195048	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caggcggtgtgaactcgccgGgtaggcctgggtaggcggaa	7	6	19	9	4	0	1	0	1	0	0	1	2	0	2	2	7	1	2	2	7	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:28195048G>A	uc003adj.2	-	1	2439	c.1484C>T	c.(1483-1485)CCC>CTC	p.P495L		NM_002430	NP_002421	Q10571	MN1_HUMAN	meningioma  1	495							binding			central_nervous_system(3)|lung(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	10						GAACTCGCCGGGTAGGCCTGG	0.632			T	ETV6	AML|meningioma								9	22					0	0	1	0	0		A	28195048	A	A	28195048	3	1	211	1	0	0	0	0	1	0	0	0	9691	1232	43	4	2486	4	MN1	22	28195048	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	803	28195048	23109518	1851	103730											
KREMEN1	83999	broad.mit.edu	37	chr22	29533564	29533564	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcttccacgggaggagccGcccacctctgtccttcaacg	6	7	10	18	4	2	0	1	0	1	0	4	2	4	2	6	2	2	1	6	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:29533564G>A	uc011akm.1	+	6	879	c.866G>A	c.(865-867)CGC>CAC	p.R289H	KREMEN1_uc003ael.2_Missense_Mutation_p.R289H|KREMEN1_uc011akn.1_Missense_Mutation_p.R172H	NM_032045	NP_114434	Q96MU8	KREM1_HUMAN	kringle-containing transmembrane protein 1	287	Extracellular (Potential).|CUB.				cell communication|regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane|membrane fraction	protein binding			ovary(3)|lung(2)	5						GGGAGGAGCCGCCCACCTCTG	0.542													18	30					0	0	1	0	0		A	29533564	A	A	29533564	3	1	211	1	0	0	0	0	1	0	0	0	8458	1087	38	1	888	1	KREMEN1	22	29533564	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1338516	29533564	21771002	1852	103731											
CABP7	164633	broad.mit.edu	37	chr22	30116482	30116482	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgtgcccaacctgctgtcGgagcagcgcccggtggacat	7	6	13	15	4	0	0	0	0	0	0	1	2	0	2	4	3	5	2	4	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:30116482G>A	uc003agl.2	+	1	139	c.69G>A	c.(67-69)TCG>TCA	p.S23S		NM_182527	NP_872333	Q86V35	CABP7_HUMAN	calcium binding protein 7	23	Cytoplasmic (Potential).					Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|plasma membrane	calcium ion binding				0			OV - Ovarian serous cystadenocarcinoma(5;0.00442)|Epithelial(10;0.215)|all cancers(5;0.233)			ACCTGCTGTCGGAGCAGCGCC	0.612													5	20					0	0	1	0	0		A	30116482	A	A	30116482	2	1	211	1	0	0	0	0	0	0	0	1	2538	1103	39	1		1	CABP7	22	30116482	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	582918	30116482	21188084	1853	103732											
MTMR3	8897	broad.mit.edu	37	chr22	30405050	30405050	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtttatggggatggcaaaCattcattctattcggaggag	10	13	13	5	1	2	0	1	0	1	0	3	3	2	3	0	5	1	2	0	5	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:30405050C>T	uc003agv.3	+	12	1381	c.1053C>T	c.(1051-1053)AAC>AAT	p.N351N	MTMR3_uc003agu.3_Silent_p.N351N|MTMR3_uc003agw.3_Silent_p.N351N	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	351	Myotubularin phosphatase.|Substrate binding (By similarity).				phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			GGATGGCAAACATTCATTCTA	0.438													27	73					0	0	1	0	0		T	30405050	T	T	30405050	2	4	211	1	0	0	0	0	0	0	0	1	9963	477	17	4		4	MTMR3	22	30405050	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	288568	30405050	20899516	1854	103733											
INPP5J	27124	broad.mit.edu	37	chr22	31521988	31521988	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacctggaagagcgacccCggcttccggtgagggggccc	6	5	15	15	3	0	2	0	1	0	1	1	4	1	3	6	5	2	1	6	5	2	2	rs141054135	by1000genomes	TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:31521988C>T	uc003aju.3	+	2	1355	c.1263C>T	c.(1261-1263)CCC>CCT	p.P421P	INPP5J_uc010gwf.2_Silent_p.P421P|INPP5J_uc003ajv.3_Silent_p.P54P|INPP5J_uc003ajs.3_Silent_p.P54P|INPP5J_uc011alk.1_Silent_p.P354P|INPP5J_uc010gwg.2_Intron|INPP5J_uc003ajw.2_Intron|INPP5J_uc003ajt.3_Intron|INPP5J_uc003ajx.2_5'Flank|INPP5J_uc003ajy.2_5'Flank|INPP5J_uc003ajz.2_5'Flank	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	421						cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1						AGAGCGACCCCGGCTTCCGGT	0.607													14	19					0	0	1	0	0		T	31521988	T	T	31521988	2	4	211	1	0	0	0	0	0	0	0	1	7775	667	23	1		1	INPP5J	22	31521988	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1116938	31521988	19782578	1855	103734											
EIF4ENIF1	56478	broad.mit.edu	37	chr22	31859098	31859098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctacgctcaccaaagacacGcttactatctccaaactctc	12	10	3	16	2	4	1	1	0	3	1	6	1	4	1	2	0	3	2	2	0	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:31859098G>A	uc003akz.1	-	6	771	c.607C>T	c.(607-609)CGT>TGT	p.R203C	EIF4ENIF1_uc003ala.1_Missense_Mutation_p.R203C|EIF4ENIF1_uc003alb.1_Intron	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	203	Arg-rich.|Nuclear localization signal.					nucleus	protein binding|protein transporter activity			ovary(1)	1						CCAAAGACACGCTTACTATCT	0.403													12	57					0	0	1	0	0		A	31859098	A	A	31859098	3	1	211	1	0	0	0	0	1	0	0	0	5043	1087	38	1	2409	1	EIF4ENIF1	22	31859098	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	337110	31859098	19445468	1856	103735											
DEPDC5	9681	broad.mit.edu	37	chr22	32275660	32275660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgccctggctgcctagcCggccagcctcctatgcaagt	5	9	10	17	1	0	0	0	0	0	0	2	0	2	0	7	2	5	2	7	2	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:32275660C>T	uc003als.2	+	37	4004	c.3862C>T	c.(3862-3864)CGG>TGG	p.R1288W	DEPDC5_uc011als.1_Missense_Mutation_p.R1219W|DEPDC5_uc011alu.1_Missense_Mutation_p.R1319W|DEPDC5_uc011alv.1_RNA|DEPDC5_uc003alt.2_Missense_Mutation_p.R1310W|DEPDC5_uc003alu.2_Missense_Mutation_p.R737W|DEPDC5_uc003alv.2_RNA|DEPDC5_uc003alw.2_Missense_Mutation_p.R586W|DEPDC5_uc011alx.1_Missense_Mutation_p.R136W|DEPDC5_uc010gwk.2_Missense_Mutation_p.R314W|DEPDC5_uc011aly.1_Missense_Mutation_p.R136W	NM_014662	NP_055477	O75140	DEPD5_HUMAN	DEP domain containing 5 isoform 1	1288					intracellular signal transduction					ovary(4)|central_nervous_system(3)|pancreas(1)	8						GCTGCCTAGCCGGCCAGCCTC	0.577													17	48					0	0	1	0	0		T	32275660	T	T	32275660	3	4	211	1	0	0	0	0	1	0	0	0	4448	643	23	1	4092	1	DEPDC5	22	32275660	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	416562	32275660	19028906	1857	103736											
FBXO7	25793	broad.mit.edu	37	chr22	32894316	32894316	+	Silent	SNP	T	C	C	0	1	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	caaagaccaacacttccctaTgttggagacccaatcagttc	13	9	6	13	0	1	2	1	0	0	2	3	3	2	2	3	1	1	2	3	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:32894316T>C	uc003amq.2	+	9	1651	c.1368T>C	c.(1366-1368)TAT>TAC	p.Y456Y	FBXO7_uc003amr.2_Silent_p.Y342Y|FBXO7_uc003ams.2_Silent_p.Y300Y|FBXO7_uc003amt.2_Silent_p.Y377Y|FBXO7_uc003amu.2_Silent_p.Y342Y|FBXO7_uc003amv.2_Silent_p.Y155Y	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	456					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						CACTTCCCTATGTTGGAGACC	0.542													23	78					0	0	1	0	0		C	32894316	C	C	32894316	2	2	211	1	0	0	0	0	0	0	0	1	5774	1471	51	3		3	FBXO7	22	32894316	Silent	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	618656	32894316	18410250	1858	103737											
LARGE	9215	broad.mit.edu	37	chr22	33712123	33712123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtccgtgctgtctgctgcagGctcatactcgtagtgcagga	6	11	13	11	2	2	0	1	0	1	0	4	1	3	1	1	2	5	6	1	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:33712123G>A	uc003and.3	-	12	1978	c.1399C>T	c.(1399-1401)CCT>TCT	p.P467S	LARGE_uc011amd.1_Missense_Mutation_p.P266S|LARGE_uc003ane.3_Missense_Mutation_p.P467S|LARGE_uc010gwp.2_Missense_Mutation_p.P415S|LARGE_uc011ame.1_Missense_Mutation_p.P399S|LARGE_uc011amf.1_Missense_Mutation_p.P467S|LARGE_uc010gwq.1_RNA	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	467	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				TCTGCTGCAGGCTCATACTCG	0.617													9	34					0	0	1	0	0		A	33712123	A	A	33712123	3	1	211	1	0	0	0	0	1	0	0	0	8643	1203	42	2	891	2	LARGE	22	33712123	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	817807	33712123	17592443	1859	103738											
TOM1	10043	broad.mit.edu	37	chr22	35730403	35730403	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgagtttgacatgtttgcGctgacacggggcagctcact	8	11	13	9	2	1	3	1	3	0	0	1	4	1	3	0	2	2	5	0	2	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:35730403G>A	uc003ann.2	+	11	1235	c.1110G>A	c.(1108-1110)GCG>GCA	p.A370A	TOM1_uc011ami.1_Silent_p.A337A|TOM1_uc011amj.1_Silent_p.A213A|TOM1_uc003ans.2_Silent_p.A213A|TOM1_uc011amk.1_Silent_p.A332A|TOM1_uc003anp.2_Silent_p.A370A|TOM1_uc011aml.1_Silent_p.A325A|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Silent_p.A364A|TOM1_uc003anr.2_Silent_p.A213A	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	370					endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						ACATGTTTGCGCTGACACGGG	0.622													34	65					0	0	1	0	0		A	35730403	A	A	35730403	2	1	211	1	0	0	0	0	0	0	0	1	16376	1074	38	1		1	TOM1	22	35730403	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	2018280	35730403	15574163	1860	103739											
HMOX1	3162	broad.mit.edu	37	chr22	35782832	35782832	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttctggtacgggccccGctggcaggaggtcatcccct	4	8	14	15	2	2	0	1	0	1	0	3	1	3	1	5	6	1	3	5	6	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:35782832G>A	uc003ant.1	+	3	379	c.299G>A	c.(298-300)CGC>CAC	p.R100H		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	100					angiogenesis|anti-apoptosis|cell death|cellular iron ion homeostasis|endothelial cell proliferation|erythrocyte homeostasis|heme catabolic process|heme oxidation|intracellular protein kinase cascade|low-density lipoprotein particle clearance|negative regulation of leukocyte migration|negative regulation of smooth muscle cell proliferation|positive regulation of chemokine biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of smooth muscle cell proliferation|protein homooligomerization|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to hydrogen peroxide|response to nicotine|smooth muscle hyperplasia|transmembrane transport|wound healing involved in inflammatory response	endoplasmic reticulum membrane|extracellular space|microsome	enzyme binding|heme binding|heme oxygenase (decyclizing) activity|protein homodimerization activity|signal transducer activity			ovary(1)	1					NADH(DB00157)	TACGGGCCCCGCTGGCAGGAG	0.667													17	59					0	0	1	0	0		A	35782832	A	A	35782832	3	1	211	1	0	0	0	0	1	0	0	0	7259	1087	38	1	309	1	HMOX1	22	35782832	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	52429	35782832	15521734	1861	103740											
APOL4	80832	broad.mit.edu	37	chr22	36587367	36587367	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgttctcagtgtctcaacaAcatttataggtacatatcgc	11	14	7	9	1	2	0	2	0	2	0	5	0	2	0	0	1	3	2	0	1	6	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:36587367A>G	uc003aox.2	-	6	1037	c.812T>C	c.(811-813)GTT>GCT	p.V271A	APOL4_uc003aow.2_Missense_Mutation_p.V268A|APOL4_uc010gww.2_Missense_Mutation_p.V113A	NM_145660	NP_663693	Q9BPW4	APOL4_HUMAN	apolipoprotein L4 isoform 2 precursor	271					lipid metabolic process|lipid transport|lipoprotein metabolic process	extracellular region	lipid binding				0						TGTCTCAACAACATTTATAGG	0.498													12	38					0	0	1	0	0		G	36587367	G	G	36587367	3	3	211	1	0	0	0	0	1	0	0	0	808	41	2	3	247	3	APOL4	22	36587367	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	804535	36587367	14717199	1862	103741											
MYH9	4627	broad.mit.edu	37	chr22	36714268	36714268	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atacctgctctttagtctgcGccttctggacgtaatcccgt	6	14	8	13	3	3	0	0	0	3	0	4	1	4	1	3	1	3	2	3	1	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:36714268G>A	uc003apg.2	-	11	1442	c.1211C>T	c.(1210-1212)GCG>GTG	p.A404V	MYH9_uc003aph.1_Missense_Mutation_p.A268V	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	404	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	11						TTTAGTCTGCGCCTTCTGGAC	0.582			T	ALK	ALCL		Deafness|autosomal dominant 17|Epstein syndrome|Fechtner syndrome|May-Hegglin anomaly|Sebastian syndrome		Hereditary_Macrothrombocytopenia_MYH9-associated				60	153					0	0	1	0	0		A	36714268	A	A	36714268	3	1	211	1	0	0	0	0	1	0	0	0	10060	1087	38	1	4795	1	MYH9	22	36714268	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	126901	36714268	14590298	1863	103742											
PVALB	5816	broad.mit.edu	37	chr22	37209766	37209766	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtttctttagcagacaggtcTctggcatctggggagaagcc	8	11	13	9	0	3	2	0	0	3	2	4	3	3	2	1	4	2	3	1	4	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:37209766T>G	uc010gwz.2	-	3	258	c.228A>C	c.(226-228)AGA>AGC	p.R76S	PVALB_uc003apx.2_Missense_Mutation_p.R76S	NM_002854	NP_002845	P20472	PRVA_HUMAN	parvalbumin	76							calcium ion binding			skin(1)	1						CAGACAGGTCTCTGGCATCTG	0.562													49	117					0	0	1	0	0		G	37209766	G	G	37209766	3	3	211	1	0	0	0	0	1	0	0	0	12861	1548	54	5	112	5	PVALB	22	37209766	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	495498	37209766	14094800	1864	103743											
RAC2	5880	broad.mit.edu	37	chr22	37622790	37622790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccggatggcctcgtcgaacaCggttttcaggcctctctggg	5	10	13	13	4	2	0	1	0	1	0	5	2	2	1	3	5	1	1	3	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:37622790C>T	uc003arc.2	-	6	619	c.502G>A	c.(502-504)GTG>ATG	p.V168M		NM_002872	NP_002863	P15153	RAC2_HUMAN	ras-related C3 botulinum toxin substrate 2	168					axon guidance|platelet activation|regulation of hydrogen peroxide metabolic process|regulation of respiratory burst|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding			breast(2)|central_nervous_system(1)|skin(1)	4						TCGTCGAACACGGTTTTCAGG	0.637													14	50					0	0	1	0	0		T	37622790	T	T	37622790	3	4	211	1	0	0	0	0	1	0	0	0	13000	536	19	1	80	1	RAC2	22	37622790	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	413024	37622790	13681776	1865	103744											
ELFN2	114794	broad.mit.edu	37	chr22	37769277	37769277	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcgctcccagatcttgtgCgtgctctcggatgagtactc	7	11	11	12	3	2	2	0	1	2	1	5	3	3	3	1	1	4	3	1	1	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:37769277C>T	uc003asq.3	-	3	3084	c.2298G>A	c.(2296-2298)ACG>ACA	p.T766T		NM_052906	NP_443138	Q5R3F8	LRFN6_HUMAN	leucine rich repeat containing 62	766	Cytoplasmic (Potential).					cell surface|integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2	Melanoma(58;0.0574)					AGATCTTGTGCGTGCTCTCGG	0.632													22	70					0	0	1	0	0		T	37769277	T	T	37769277	2	4	211	1	0	0	0	0	0	0	0	1	5066	755	27	1		1	ELFN2	22	37769277	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	146487	37769277	13535289	1866	103745											
SOX10	6663	broad.mit.edu	37	chr22	38379399	38379399	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agcgtcttgctgagctcagcGttgtgcaggtgcgggtactg	5	11	16	9	3	2	1	1	1	1	0	2	1	2	1	0	2	7	5	0	2	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:38379399G>A	uc003aun.1	-	2	671	c.393C>T	c.(391-393)AAC>AAT	p.N131N	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Silent_p.N131N|SOX10_uc010gxj.2_Silent_p.N131N|uc003aup.2_5'Flank	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	131	HMG box.					cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					TGAGCTCAGCGTTGTGCAGGT	0.667													3	20					0	0	1	0	0		A	38379399	A	A	38379399	2	1	211	1	0	0	0	0	0	0	0	1	14966	1136	40	1		1	SOX10	22	38379399	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	610122	38379399	12925167	1867	103746											
APOBEC3F	200316	broad.mit.edu	37	chr22	39441441	39441441	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttcgtctcagaatttgcaTactgctgggaaaactttgtg	9	15	9	8	1	2	1	1	0	2	1	4	2	2	2	0	1	4	2	0	1	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:39441441T>C	uc003aww.2	+	4	753	c.460T>C	c.(460-462)TAC>CAC	p.Y154H	APOBEC3F_uc011aog.1_Missense_Mutation_p.Y154H	NM_145298	NP_660341	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding				0	Melanoma(58;0.04)					AGAATTTGCATACTGCTGGGA	0.532													65	140					0	0	1	0	0		C	39441441	C	C	39441441	3	2	211	1	0	0	0	0	1	0	0	0	793	1406	49	3	613	3	APOBEC3F	22	39441441	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1062042	39441441	11863125	1868	103747											
CACNA1I	8911	broad.mit.edu	37	chr22	40080308	40080308	+	Silent	SNP	A	G	G	1	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	tcttctcctttcccagcagcAcccccaagtcccttctcccc	5	11	3	22	0	3	0	0	0	3	0	7	0	5	0	7	0	2	2	7	0	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:40080308A>G	uc003ayc.2	+	36	5832	c.5832A>G	c.(5830-5832)GCA>GCG	p.A1944A	CACNA1I_uc003ayd.2_Silent_p.A1909A|CACNA1I_uc003aye.2_Silent_p.A1859A|CACNA1I_uc003ayf.2_Silent_p.A1824A	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1944	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	TCCCAGCAGCACCCCCAAGTC	0.632													6	15					0	0	1	0	0		G	40080308	G	G	40080308	2	3	211	1	0	0	0	0	0	0	0	1	2549	173	6	3		3	CACNA1I	22	40080308	Silent	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	638867	40080308	11224258	1869	103748											
FAM83F	113828	broad.mit.edu	37	chr22	40417817	40417817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccggggggaggccgcccccGccaggcgcttcagcagcagg	5	2	17	17	4	1	0	1	0	0	0	1	1	1	1	5	6	2	3	5	6	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:40417817G>A	uc003ayk.1	+	4	1397	c.1303G>A	c.(1303-1305)GCC>ACC	p.A435T		NM_138435	NP_612444	Q8NEG4	FA83F_HUMAN	hypothetical protein LOC113828	435										breast(1)	1						GGCCGCCCCCGCCAGGCGCTT	0.662													12	29					0	0	1	0	0		A	40417817	A	A	40417817	3	1	211	1	0	0	0	0	1	0	0	0	5652	1087	38	1	1317	1	FAM83F	22	40417817	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	337509	40417817	10886749	1870	103749											
SGSM3	27352	broad.mit.edu	37	chr22	40803530	40803530	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctgctggactttgagcggcaCgacgacgacgagctgggctt	7	8	15	11	5	0	1	0	1	0	0	0	6	0	2	0	3	3	4	0	3	0	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:40803530C>T	uc003ayu.1	+	13	1691	c.1482C>T	c.(1480-1482)CAC>CAT	p.H494H	SGSM3_uc011aos.1_Silent_p.H427H|SGSM3_uc011aot.1_Silent_p.H431H|SGSM3_uc010gyd.1_Silent_p.H565H	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	494	SH3.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						TTGAGCGGCACGACGACGACG	0.652													8	33					0	0	1	0	0		T	40803530	T	T	40803530	2	4	211	1	0	0	0	0	0	0	0	1	14249	535	19	1		1	SGSM3	22	40803530	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	385713	40803530	10501036	1871	103750											
MKL1	57591	broad.mit.edu	37	chr22	40815316	40815316	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcttgataggctcgaaggcGctcaatcagctcagttttgg	8	12	12	9	2	4	1	3	1	1	0	5	2	4	1	0	3	1	4	0	3	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:40815316G>A	uc003ayv.1	-	9	1333	c.1126C>T	c.(1126-1128)CGC>TGC	p.R376C	MKL1_uc003ayw.1_Missense_Mutation_p.R376C|MKL1_uc010gye.1_Missense_Mutation_p.R376C|MKL1_uc010gyf.1_Missense_Mutation_p.R326C	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	376	SAP.				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GCTCGAAGGCGCTCAATCAGC	0.607			T	RBM15	acute megakaryocytic leukemia								9	21					0	0	1	0	0		A	40815316	A	A	40815316	3	1	211	1	0	0	0	0	1	0	0	0	9619	1087	38	1	1685	1	MKL1	22	40815316	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	11786	40815316	10489250	1872	103751											
TCF20	6942	broad.mit.edu	37	chr22	42606614	42606614	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatctgcagaaccttctggTatctgtgggggctgaggggg	6	10	16	9	0	3	2	0	1	3	1	3	2	3	2	2	5	2	3	2	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:42606614T>C	uc003bcj.1	-	1	4832	c.4698A>G	c.(4696-4698)ATA>ATG	p.I1566M	TCF20_uc003bck.1_Missense_Mutation_p.I1566M|TCF20_uc003bnt.2_Missense_Mutation_p.I1566M	NM_005650	NP_005641	Q9UGU0	TCF20_HUMAN	transcription factor 20 isoform 1	1566					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(4)|skin(1)	5						AACCTTCTGGTATCTGTGGGG	0.532													24	84					0	0	1	0	0		C	42606614	C	C	42606614	3	2	211	1	0	0	0	0	1	0	0	0	15715	1628	57	3	1222	3	TCF20	22	42606614	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1791298	42606614	8697952	1873	103752											
SCUBE1	80274	broad.mit.edu	37	chr22	43610139	43610139	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccaggcagaccaagcccGtcgctgctggggcacggtgt	7	5	15	14	3	0	1	0	0	0	1	1	1	0	1	3	4	2	5	3	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:43610139G>A	uc003bdt.1	-	16	2098	c.2010C>T	c.(2008-2010)GAC>GAT	p.D670D		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	670					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				GACCAAGCCCGTCGCTGCTGG	0.652													5	53					0	0	1	0	0		A	43610139	A	A	43610139	2	1	211	1	0	0	0	0	0	0	0	1	13969	1136	40	1		1	SCUBE1	22	43610139	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1003525	43610139	7694427	1874	103753											
SAMM50	25813	broad.mit.edu	37	chr22	44386201	44386201	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgcatccgctggtcgtacGgggccgggattgtcctcagg	5	9	16	11	4	1	0	1	0	0	0	4	1	3	1	3	5	2	3	3	5	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:44386201G>A	uc003bej.2	+	14	1476	c.1279G>A	c.(1279-1281)GGG>AGG	p.G427R	SAMM50_uc011aqd.1_Missense_Mutation_p.G217R|SAMM50_uc003bek.2_Missense_Mutation_p.G232R	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50	427					protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				CTGGTCGTACGGGGCCGGGAT	0.562													21	60					0	0	1	0	0		A	44386201	A	A	44386201	3	1	211	1	0	0	0	0	1	0	0	0	13854	1116	39	1	1333	1	SAMM50	22	44386201	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	776062	44386201	6918365	1875	103754											
PRR5-ARHGAP8	553158	broad.mit.edu	37	chr22	45130968	45130968	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctggagacgctggtccagaAggtggtgtcgccatacctgg	7	8	15	11	2	0	2	0	0	0	2	2	3	1	2	4	5	1	1	4	5	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:45130968A>G	uc003bfd.2	+	7	889	c.617A>G	c.(616-618)AAG>AGG	p.K206R	PRR5_uc003bew.1_Missense_Mutation_p.K197R|PRR5_uc003bex.1_Missense_Mutation_p.K111R|PRR5_uc010gzt.1_Missense_Mutation_p.K229R|PRR5_uc010gzu.1_Missense_Mutation_p.K170R|PRR5_uc003bey.1_Missense_Mutation_p.K197R|PRR5_uc003bez.1_Missense_Mutation_p.K111R|PRR5-ARHGAP8_uc003bfc.2_Intron|PRR5-ARHGAP8_uc011aqi.1_Intron|PRR5-ARHGAP8_uc011aqj.1_Intron|PRR5_uc003bfa.1_Missense_Mutation_p.K99R|PRR5_uc003bfb.1_Missense_Mutation_p.K206R|PRR5_uc003bfe.1_Intron|PRR5-ARHGAP8_uc003bfg.1_Intron|PRR5_uc003bfh.1_Missense_Mutation_p.K105R	NM_181335	NP_851852			Rho GTPase activating protein 8 isoform 2											skin(2)	2						CTGGTCCAGAAGGTGGTGTCG	0.667													20	15					0	0	1	0	0		G	45130968	G	G	45130968	3	3	211	1	0	0	0	0	1	0	0	0	12623	72	3	3		3	PRR5-ARHGAP8	22	45130968	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	744767	45130968	6173598	1876	103755											
FAM118A	55007	broad.mit.edu	37	chr22	45726516	45726516	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaagagggcacatgaagtaCggcgtcctccacattcacgg	11	6	12	12	3	1	2	1	1	0	1	3	2	3	2	2	3	1	3	2	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:45726516C>T	uc003bfz.3	+	6	1171	c.555C>T	c.(553-555)TAC>TAT	p.Y185Y	FAM118A_uc003bga.3_Silent_p.Y185Y|FAM118A_uc011aqr.1_Silent_p.Y3Y	NM_001104595	NP_001098065	Q9NWS6	F118A_HUMAN	hypothetical protein LOC55007	185						integral to membrane					0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		ACATGAAGTACGGCGTCCTCC	0.502													14	43					0	0	1	0	0		T	45726516	T	T	45726516	2	4	211	1	0	0	0	0	0	0	0	1	5422	547	19	1		1	FAM118A	22	45726516	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	595548	45726516	5578050	1877	103756											
WNT7B	7477	broad.mit.edu	37	chr22	46319046	46319046	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcaggaaggtgggctgcCgcagacggctggcccgcacc	6	4	17	14	4	0	1	0	0	0	1	0	2	0	2	3	5	2	5	3	5	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:46319046C>T	uc003bgo.2	-	4	1114	c.740G>A	c.(739-741)CGG>CAG	p.R247Q	WNT7B_uc010haa.2_Missense_Mutation_p.R251Q	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	247					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		GGTGGGCTGCCGCAGACGGCT	0.622													27	76					0	0	1	0	0		T	46319046	T	T	46319046	3	4	211	1	0	0	0	0	1	0	0	0	17421	652	23	1	313	1	WNT7B	22	46319046	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	592530	46319046	4985520	1878	103757											
CELSR1	9620	broad.mit.edu	37	chr22	46786376	46786376	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccgctgcagtgtcggacCgcatttcctggggaaggaga	7	8	14	12	3	0	1	0	0	0	1	3	4	2	3	4	4	1	3	4	4	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:46786376C>T	uc003bhw.1	-	17	6258	c.6258G>A	c.(6256-6258)GCG>GCA	p.A2086A	CELSR1_uc011arc.1_Silent_p.A407A	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2086	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		AGTGTCGGACCGCATTTCCTG	0.532											OREG0026656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	18					0	0	1	0	0		T	46786376	T	T	46786376	2	4	211	1	0	0	0	0	0	0	0	1	3224	639	23	1		1	CELSR1	22	46786376	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	467330	46786376	4518190	1879	103758											
TTLL8	164714	broad.mit.edu	37	chr22	50471777	50471777	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagatgagcagcggcgtctcGatgtacttctggaccaccca	9	8	11	13	3	2	2	0	1	2	1	3	4	2	3	2	2	3	2	2	2	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:50471777G>A	uc011ark.1	-	10	1137	c.1137C>T	c.(1135-1137)ATC>ATT	p.I379I		NM_001080447	NP_001073916			tubulin tyrosine ligase-like family, member 8											ovary(2)	2		all_cancers(38;3.44e-07)|all_epithelial(38;2.44e-06)|all_lung(38;0.00141)|Breast(42;0.00519)|Lung NSC(38;0.0199)|Ovarian(80;0.142)|Lung SC(80;0.162)		READ - Rectum adenocarcinoma(2;0.000882)|Colorectal(2;0.00311)|BRCA - Breast invasive adenocarcinoma(115;0.226)		GCGGCGTCTCGATGTACTTCT	0.557													5	17					0	0	1	0	0		A	50471777	A	A	50471777	2	1	211	1	0	0	0	0	0	0	0	1	16759	1048	37	1		1	TTLL8	22	50471777	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	3685401	50471777	832789	1880	103759											
TUBGCP6	85378	broad.mit.edu	37	chr22	50682250	50682250	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcacaagggccccgaagagCgagacccgggtgtctctctc	8	6	13	14	3	2	2	0	0	2	2	4	4	2	2	3	2	2	1	3	2	2	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:50682250C>T	uc003bkb.1	-	1	1151	c.639G>A	c.(637-639)TCG>TCA	p.S213S	TUBGCP6_uc010har.1_Silent_p.S213S|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hau.1_Silent_p.S213S	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	213					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		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)		CCCCGAAGAGCGAGACCCGGG	0.622													17	22					0	0	1	0	0		T	50682250	T	T	50682250	2	4	211	1	0	0	0	0	0	0	0	1	16796	755	27	1		1	TUBGCP6	22	50682250	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	210473	50682250	622316	1881	103760											
PLXNB2	23654	broad.mit.edu	37	chr22	50718980	50718980	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccaggagctccaggaagagCgtgtgcatgatgtccgtgta	9	9	14	9	2	0	2	0	1	0	1	3	4	3	4	3	2	3	3	3	2	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:50718980C>T	uc003bkv.3	-	25	4219	c.4113G>A	c.(4111-4113)ACG>ACA	p.T1371T	PLXNB2_uc003bkt.1_Silent_p.T163T|PLXNB2_uc003bku.1_Silent_p.T356T	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1371	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CCAGGAAGAGCGTGTGCATGA	0.527													29	90					0	0	1	0	0		T	50718980	T	T	50718980	2	4	211	1	0	0	0	0	0	0	0	1	12143	755	27	1		1	PLXNB2	22	50718980	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	36730	50718980	585586	1882	103761											
SAPS2	9701	broad.mit.edu	37	chr22	50873504	50873504	+	Missense_Mutation	SNP	A	G	G	1	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	agacgcacatcagcgaggtcAtccgaggtgagcccccaacc	11	4	11	15	3	2	2	2	1	0	1	3	4	3	2	4	2	3	1	4	2	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:50873504A>G	uc003blb.1	+	14	1932	c.1510A>G	c.(1510-1512)ATC>GTC	p.I504V	SAPS2_uc003bky.1_Missense_Mutation_p.I504V|SAPS2_uc003bkz.1_Missense_Mutation_p.I504V|SAPS2_uc003blc.2_Missense_Mutation_p.I504V|SAPS2_uc003bla.1_Missense_Mutation_p.I505V|SAPS2_uc003bld.1_Missense_Mutation_p.I63V	NM_014678	NP_055493	O75170	PP6R2_HUMAN	SAPS domain family, member 2	504						cytoplasm|intracellular membrane-bounded organelle	protein binding				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.222)		CAGCGAGGTCATCCGAGGTGA	0.667													7	20					0	0	1	0	0		G	50873504	G	G	50873504	3	3	211	1	0	0	0	0	1	0	0	0	13862	217	8	3	1552	3	SAPS2	22	50873504	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	154524	50873504	431062	1883	103762											
NCAPH2	29781	broad.mit.edu	37	chr22	50960987	50960987	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggagcagaccccagggaagCcgctgaccttggtaggtggg	8	5	18	10	1	0	2	0	1	0	1	0	4	0	4	4	5	2	3	4	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chr22:50960987C>T	uc003blr.3	+	16	1486	c.1364C>T	c.(1363-1365)GCC>GTC	p.A455V	NCAPH2_uc003blv.2_Missense_Mutation_p.A455V|NCAPH2_uc010hbb.2_Intron|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.A456V|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	455					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		CCCAGGGAAGCCGCTGACCTT	0.647													29	72					0	0	1	0	0		T	50960987	T	T	50960987	3	4	211	1	0	0	0	0	1	0	0	0	10229	739	26	2	1468	2	NCAPH2	22	50960987	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	87483	50960987	343579	1884	103763											
ASMTL	8623	broad.mit.edu	37	chrX	1540581	1540581	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttccgccttcttccccaaCgccctgtggtgctggtttgt	2	15	9	15	2	2	0	0	0	2	0	4	0	4	0	5	2	2	2	5	2	1	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:1540581C>T	uc004cpx.1	-	9	1326	c.1215G>A	c.(1213-1215)GCG>GCA	p.A405A	ASMTL_uc011mhe.1_Silent_p.A329A|ASMTL_uc004cpy.1_Silent_p.A389A|ASMTL_uc011mhf.1_Silent_p.A347A	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	405	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TCTTCCCCAACGCCCTGTGGT	0.507													42	86					0	0	1	0	0		T	1540581	T	T	1540581	2	4	211	1	0	0	0	0	0	0	0	1	1047	523	19	1		1	ASMTL	23	1540581	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08		1540581	153729979	1885	103764											
ZBED1	9189	broad.mit.edu	37	chrX	2408016	2408016	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagacctcatagagcactcGcgtgatggtctccgccgtgt	8	9	12	12	4	2	3	1	1	1	2	4	4	2	3	3	1	1	1	3	1	2	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:2408016G>A	uc004cqg.2	-	2	946	c.745C>T	c.(745-747)CGA>TGA	p.R249*	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Nonsense_Mutation_p.R249*	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	249						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				TAGAGCACTCGCGTGATGGTC	0.632													35	87					0	0	1	0	0		A	2408016	A	A	2408016	4	1	211	1	0	0	0	0	0	1	0	0	17543	1095	38	1	1343	1	ZBED1	23	2408016	Nonsense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	867435	2408016	152862544	1886	103765											
ARSE	415	broad.mit.edu	37	chrX	2856188	2856188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	gaccacggtggggaacacgtCcatcagactcgtgggctcgc	8	6	14	13	4	1	1	1	0	0	1	4	3	2	2	2	4	1	1	2	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:2856188C>T	uc004crc.3	-	9	1487	c.1237G>A	c.(1237-1239)GAC>AAC	p.D413N	ARSE_uc011mhi.1_Missense_Mutation_p.D359N|ARSE_uc011mhh.1_Missense_Mutation_p.D438N	NM_000047	NP_000038	P51690	ARSE_HUMAN	arylsulfatase E precursor	413					skeletal system development	Golgi stack	arylsulfatase activity|metal ion binding			ovary(1)|central_nervous_system(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GGGAACACGTCCATCAGACTC	0.647													43	33					0	0	1	0	0		T	2856188	T	T	2856188	3	4	211	1	0	0	0	0	1	0	0	0	991	855	30	4	544	4	ARSE	23	2856188	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	448172	2856188	152414372	1887	103766											
ARHGAP6	395	broad.mit.edu	37	chrX	11682375	11682375	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctacctcggatttccacaCgacgtaggggtgcccgcgac	7	7	11	16	5	0	0	0	0	0	0	2	3	1	1	4	3	2	1	4	3	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:11682375C>T	uc004cup.1	-	1	1447	c.574G>A	c.(574-576)GTG>ATG	p.V192M	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.V192M	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	192					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						GATTTCCACACGACGTAGGGG	0.617													18	14					0	0	1	0	0		T	11682375	T	T	11682375	3	4	211	1	0	0	0	0	1	0	0	0	887	536	19	1	2524	1	ARHGAP6	23	11682375	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	8826187	11682375	143588185	1888	103767											
CDKL5	6792	broad.mit.edu	37	chrX	18646647	18646647	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgagccaggcctctggcGggagcagcaacatccggcag	8	4	14	15	2	1	1	0	1	1	0	2	2	2	2	4	4	4	3	4	4	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:18646647G>A	uc004cym.2	+	18	2906	c.2653G>A	c.(2653-2655)GGG>AGG	p.G885R	CDKL5_uc004cyn.2_Missense_Mutation_p.G885R	NM_003159	NP_003150	O76039	CDKL5_HUMAN	cyclin-dependent kinase-like 5	885					neuron migration|positive regulation of axon extension|positive regulation of dendrite morphogenesis|positive regulation of Rac GTPase activity|protein autophosphorylation	dendrite cytoplasm|dendritic growth cone|nucleus	ATP binding|cyclin-dependent protein kinase activity|Rac GTPase binding			ovary(2)|large_intestine(1)|stomach(1)|central_nervous_system(1)|skin(1)	6	Hepatocellular(33;0.183)					GGCCTCTGGCGGGAGCAGCAA	0.597													47	46					0	0	1	0	0		A	18646647	A	A	18646647	3	1	211	1	0	0	0	0	1	0	0	0	3160	1116	39	1	2719	1	CDKL5	23	18646647	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6964272	18646647	136623913	1889	103768											
SH3KBP1	30011	broad.mit.edu	37	chrX	19560215	19560215	+	Frame_Shift_Del	DEL	G	-	-																															tgttcccaaagaggatgacaGgggggagggcgccgctgagg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:19560215delG	uc004czm.2	-	16	2036	c.1720delC	c.(1720-1722)CTGfs	p.L574fs	SH3KBP1_uc011mje.1_Frame_Shift_Del_p.L313fs|SH3KBP1_uc011mjf.1_Frame_Shift_Del_p.L336fs|SH3KBP1_uc004czl.2_Frame_Shift_Del_p.L537fs|SH3KBP1_uc010nfm.2_Frame_Shift_Del_p.L19fs	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	574					apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						GAGGATGACAGGGGGGAGGGC	0.647													38	37	---	---	---	---						.	-	19560215	-	-	19560215	7	5	211	1	0	1	0	1	0	0	0	0	14280	991	35	0	289	0	SH3KBP1	23	19560215	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	913568	19560215	135710345	1890	103769											
DMD	1756	broad.mit.edu	37	chrX	31196876	31196876	+	Frame_Shift_Del	DEL	T	-	-																															accttttggttcgaaatttgTtttttagtaccttggcaaag																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:31196876delT	uc004dda.1	-	70	10377	c.10133delA	c.(10132-10134)AACfs	p.N3378fs	DMD_uc004dcq.1_Frame_Shift_Del_p.N649fs|DMD_uc004dcr.1_Frame_Shift_Del_p.N918fs|DMD_uc004dcs.1_Frame_Shift_Del_p.N918fs|DMD_uc004dct.1_Frame_Shift_Del_p.N918fs|DMD_uc004dcu.1_Frame_Shift_Del_p.N918fs|DMD_uc004dcv.1_Frame_Shift_Del_p.N918fs|DMD_uc004dcw.2_Frame_Shift_Del_p.N2034fs|DMD_uc004dcx.2_Frame_Shift_Del_p.N2037fs|DMD_uc004dcz.2_Frame_Shift_Del_p.N3255fs|DMD_uc004dcy.1_Frame_Shift_Del_p.N3374fs|DMD_uc004ddb.1_Frame_Shift_Del_p.N3370fs|DMD_uc004dcm.1_Frame_Shift_Del_p.N310fs|DMD_uc004dcn.1_Frame_Shift_Del_p.N310fs|DMD_uc004dco.1_Frame_Shift_Del_p.N310fs|DMD_uc004dcp.1_Frame_Shift_Del_p.N310fs|DMD_uc011mkb.1_Frame_Shift_Del_p.N310fs|DMD_uc010ngm.2_Frame_Shift_Del_p.N310fs	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	3378	Interaction with SYNM (By similarity).				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TCGAAATTTGTTTTTTAGTAC	0.428													20	30	---	---	---	---						.	-	31196876	-	-	31196876	7	5	211	1	0	1	0	1	0	0	0	0	4586	1725	60	0	1054	0	DMD	23	31196876	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	11636661	31196876	124073684	1891	103770											
DMD	1756	broad.mit.edu	37	chrX	32360294	32360294	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcttgctgagctggatctGagttggctccactgccattg	5	12	13	11	1	1	2	0	2	1	0	2	3	2	3	2	2	3	5	2	2	0	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:32360294G>T	uc004dda.1	-	41	6089	c.5845C>A	c.(5845-5847)CAG>AAG	p.Q1949K	DMD_uc004dcw.2_Missense_Mutation_p.Q605K|DMD_uc004dcx.2_Missense_Mutation_p.Q608K|DMD_uc004dcz.2_Missense_Mutation_p.Q1826K|DMD_uc004dcy.1_Missense_Mutation_p.Q1945K|DMD_uc004ddb.1_Missense_Mutation_p.Q1941K|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1949	Spectrin 13.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AGCTGGATCTGAGTTGGCTCC	0.507													9	11					0.0692343	0.0695577	1	1	0		T	32360294	T	T	32360294	3	4	211	1	0	0	0	0	1	0	0	0	4586	1299	45	5	5516	5	DMD	23	32360294	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1163418	32360294	122910266	1892	103771											
FAM47C	442444	broad.mit.edu	37	chrX	37028708	37028708	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcccatctccgcccagagcCtcccaagcctcgggtttcca	6	8	8	19	2	1	1	0	0	1	1	6	1	4	1	7	1	2	1	7	1	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:37028708C>A	uc004ddl.1	+	1	2239	c.2225C>A	c.(2224-2226)CCT>CAT	p.P742H		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	742										ovary(3)	3						CGCCCAGAGCCTCCCAAGCCT	0.632													22	25					7.87624e-14	8.50919e-14	1	1	0		A	37028708	A	A	37028708	3	1	211	1	0	0	0	0	1	0	0	0	5585	681	24	5	2227	5	FAM47C	23	37028708	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	4668414	37028708	118241852	1893	103772											
BCOR	54880	broad.mit.edu	37	chrX	39914621	39914621	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcttgaactttgtcatacCtgttaagaacttttccataa	11	18	4	8	0	2	2	1	1	1	1	3	2	3	2	2	0	3	1	2	0	5	8			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:39914621C>A	uc004den.3	-	12	5033	c.4741G>T	c.(4741-4743)GAT>TAT	p.D1581Y	BCOR_uc004dep.3_Missense_Mutation_p.D1547Y|BCOR_uc004deo.3_Missense_Mutation_p.D1529Y|BCOR_uc010nhb.2_Missense_Mutation_p.D289Y|BCOR_uc004dem.3_Missense_Mutation_p.D1547Y	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1581					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						TTTGTCATACCTGTTAAGAAC	0.378													13	17					2.61681e-11	2.7976e-11	1	1	0		A	39914621	A	A	39914621	3	1	211	1	0	0	0	0	1	0	0	0	1387	695	24	5	542	5	BCOR	23	39914621	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2885913	39914621	115355939	1894	103773											
USP9X	8239	broad.mit.edu	37	chrX	41045867	41045867	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcttagaaatgtgtcagTtcgtcttgctcagcagatat	10	14	9	8	1	3	2	2	0	1	2	4	2	3	2	0	0	3	4	0	0	3	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:41045867T>C	uc004dfb.2	+	24	4289	c.3656T>C	c.(3655-3657)GTT>GCT	p.V1219A	USP9X_uc004dfc.2_Missense_Mutation_p.V1219A	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1219					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						AATGTGTCAGTTCGTCTTGCT	0.413													27	36					0	0	1	0	0		C	41045867	C	C	41045867	3	2	211	1	0	0	0	0	1	0	0	0	17116	1725	60	3	3746	3	USP9X	23	41045867	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	1131246	41045867	114224693	1895	103774											
USP9X	8239	broad.mit.edu	37	chrX	41082472	41082472	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cactcctttttgttgtaggtGtggcagagaagacacagctt	9	13	11	8	0	0	2	0	0	0	2	1	3	1	2	1	2	1	4	1	2	2	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:41082472G>A	uc004dfb.2	+	39	7201	c.6568G>A	c.(6568-6570)GTG>ATG	p.V2190M	USP9X_uc004dfc.2_Missense_Mutation_p.V2190M	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	2190					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TGTTGTAGGTGTGGCAGAGAA	0.398													13	8					0	0	1	0	0		A	41082472	A	A	41082472	3	1	211	1	0	0	0	0	1	0	0	0	17116	1377	48	4	6718	4	USP9X	23	41082472	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	36605	41082472	114188088	1896	103775											
KDM6A	7403	broad.mit.edu	37	chrX	44966693	44966693	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctgaagcaatgtcagacatTgagggaagctctcattgctg	11	11	11	8	0	3	3	2	2	2	1	4	4	3	4	0	1	3	3	0	1	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:44966693T>C	uc004dge.3	+	27	4292	c.3917T>C	c.(3916-3918)TTG>TCG	p.L1306S	KDM6A_uc011mkz.1_Missense_Mutation_p.L1358S|KDM6A_uc011mla.1_Missense_Mutation_p.L1261S|KDM6A_uc011mlb.1_Missense_Mutation_p.L1313S|KDM6A_uc011mlc.1_Missense_Mutation_p.L1010S|KDM6A_uc011mld.1_Missense_Mutation_p.L945S	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	1306					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TGTCAGACATTGAGGGAAGCT	0.373			D|N|F|S		renal|oesophageal SCC|MM								33	28					0	0	1	0	0		C	44966693	C	C	44966693	3	2	211	1	0	0	0	0	1	0	0	0	8153	1821	63	3	4023	3	KDM6A	23	44966693	Missense_Mutation	SNP	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3884221	44966693	110303867	1897	103776											
CHST7	56548	broad.mit.edu	37	chrX	46434069	46434069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgcccacccgtggcgataCgcgccctggaggccgagtgc	5	5	15	16	5	0	0	0	0	0	0	0	3	0	1	4	3	3	1	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:46434069C>T	uc004dgt.2	+	1	878	c.703C>T	c.(703-705)CGC>TGC	p.R235C		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	235	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						CGTGGCGATACGCGCCCTGGA	0.711													8	8					0	0	1	0	0		T	46434069	T	T	46434069	3	4	211	1	0	0	0	0	1	0	0	0	3412	536	19	1	705	1	CHST7	23	46434069	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1467376	46434069	108836491	1898	103777											
CHST7	56548	broad.mit.edu	37	chrX	46434730	46434730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcctgcgctccagccatgcGtctgctcgcctaccctcgca	4	8	9	20	5	1	0	0	0	1	0	4	0	2	0	5	0	5	3	5	0	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:46434730G>A	uc004dgt.2	+	1	1539	c.1364G>A	c.(1363-1365)CGT>CAT	p.R455H		NM_019886	NP_063939	Q9NS84	CHST7_HUMAN	chondroitin 6-sulfotransferase 7	455	Lumenal (Potential).				chondroitin sulfate biosynthetic process|N-acetylglucosamine metabolic process	Golgi membrane|integral to membrane	chondroitin 6-sulfotransferase activity|N-acetylglucosamine 6-O-sulfotransferase activity			breast(3)	3						CCAGCCATGCGTCTGCTCGCC	0.741													8	2					0	0	1	0	0		A	46434730	A	A	46434730	3	1	211	1	0	0	0	0	1	0	0	0	3412	1145	40	1	1366	1	CHST7	23	46434730	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	661	46434730	108835830	1899	103778											
SSX3	10214	broad.mit.edu	37	chrX	48209552	48209552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tcctctgctggcttcttgggCatgatctttataatgtgaag	7	16	10	8	0	3	2	0	2	3	0	4	2	4	2	1	2	1	3	1	2	3	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:48209552C>T	uc004djd.1	-	6	430	c.336G>A	c.(334-336)ATG>ATA	p.M112I	SSX3_uc004dje.2_Missense_Mutation_p.M112I	NM_021014	NP_066294	Q99909	SSX3_HUMAN	synovial sarcoma, X breakpoint 3 isoform a	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding				0						GCTTCTTGGGCATGATCTTTA	0.333													55	85					0	0	1	0	0		T	48209552	T	T	48209552	3	4	211	1	0	0	0	0	1	0	0	0	15230	710	25	2	289	2	SSX3	23	48209552	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1774822	48209552	107061008	1900	103779											
WDR13	64743	broad.mit.edu	37	chrX	48458100	48458100	+	Missense_Mutation	SNP	A	C	C	1	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	ttttgaccagcacgtggatgAggcaggtgagccagtgggta	9	9	16	7	1	0	3	0	3	0	0	0	4	0	4	2	4	2	3	2	4	1	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:48458100A>C	uc004dkh.1	+	5	665	c.518A>C	c.(517-519)GAG>GCG	p.E173A	WDR13_uc010nif.1_Missense_Mutation_p.E51A|WDR13_uc004dki.1_Missense_Mutation_p.E81A|WDR13_uc004dkj.1_Missense_Mutation_p.E173A|WDR13_uc004dkk.1_Missense_Mutation_p.E81A|WDR13_uc004dkl.3_Missense_Mutation_p.E81A|WDR13_uc011mme.1_Missense_Mutation_p.E51A	NM_017883	NP_060353	Q9H1Z4	WDR13_HUMAN	WD repeat domain 13 protein	173	WD 1.					cytoplasm|nucleus				ovary(2)	2						CACGTGGATGAGGCAGGTGAG	0.567													24	18					0	0	1	0	0		C	48458100	C	C	48458100	3	2	211	1	0	0	0	0	1	0	0	0	17301	304	11	5	532	5	WDR13	23	48458100	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	248548	48458100	106812460	1901	103780											
HDAC6	10013	broad.mit.edu	37	chrX	48681771	48681771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagaggaggctgtaggaggaGctacactggcccagaccacc	11	4	14	12	0	0	2	0	0	0	2	0	5	0	5	3	5	2	3	3	5	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:48681771G>A	uc011mmi.1	+	25	3057	c.2962G>A	c.(2962-2964)GCT>ACT	p.A988T	HDAC6_uc004dks.1_Missense_Mutation_p.A988T|HDAC6_uc010nig.1_Missense_Mutation_p.A836T|HDAC6_uc004dkt.1_Missense_Mutation_p.A988T|HDAC6_uc011mmk.1_Missense_Mutation_p.A969T|HDAC6_uc004dkv.1_Missense_Mutation_p.A636T|HDAC6_uc004dkw.1_Missense_Mutation_p.A636T|HDAC6_uc004dkx.1_Missense_Mutation_p.A351T	NM_006044	NP_006035	Q9UBN7	HDAC6_HUMAN	histone deacetylase 6	988					aggresome assembly|cellular response to hydrogen peroxide|Hsp90 deacetylation|lysosome localization|macroautophagy|misfolded or incompletely synthesized protein catabolic process|negative regulation of proteolysis|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|polyubiquitinated misfolded protein transport|positive regulation of apoptosis|positive regulation of cellular chaperone-mediated protein complex assembly|positive regulation of epithelial cell migration|positive regulation of receptor biosynthetic process|positive regulation of signal transduction|regulation of androgen receptor signaling pathway|regulation of receptor activity|response to growth factor stimulus|response to toxin|transcription, DNA-dependent|tubulin deacetylation	aggresome|caveola|cell leading edge|cytosol|histone deacetylase complex|microtubule associated complex|perinuclear region of cytoplasm	actin binding|alpha-tubulin binding|beta-catenin binding|dynein complex binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|Hsp90 protein binding|microtubule binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|polyubiquitin binding|tau protein binding|tubulin deacetylase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)	4					Vorinostat(DB02546)	TGTAGGAGGAGCTACACTGGC	0.632													7	6					0	0	1	0	0		A	48681771	A	A	48681771	3	1	211	1	0	0	0	0	1	0	0	0	7027	971	34	2	3056	2	HDAC6	23	48681771	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	223671	48681771	106588789	1902	103781											
CCNB3	85417	broad.mit.edu	37	chrX	50054470	50054470	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttctgataaacctgtctcaCcacaggccaagggaacacca	13	7	7	14	0	2	1	1	1	2	0	3	2	2	2	4	2	2	0	4	2	4	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:50054470C>A	uc004dox.3	+	6	3599	c.3301C>A	c.(3301-3303)CCA>ACA	p.P1101T	CCNB3_uc004doy.2_Missense_Mutation_p.P1101T|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Intron	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1101					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					ACCTGTCTCACCACAGGCCAA	0.473													12	12					4.3838e-07	4.5708e-07	1	1	0		A	50054470	A	A	50054470	3	1	211	1	0	0	0	0	1	0	0	0	2917	507	18	5	3315	5	CCNB3	23	50054470	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1372699	50054470	105216090	1903	103782											
FAM123B	139285	broad.mit.edu	37	chrX	63410309	63410309	+	Frame_Shift_Del	DEL	G	-	-																															caggccaatcataggcccctGggggttcagtatagagggaa																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:63410309delG	uc004dvo.2	-	2	3131	c.2858delC	c.(2857-2859)CCAfs	p.P953fs		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	953	Pro-rich.				Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						ATAGGCCCCTGGGGGTTCAGT	0.597													13	15	---	---	---	---						.	-	63410309	-	-	63410309	7	5	211	1	0	1	0	1	0	0	0	0	5434	1348	47	0	553	0	FAM123B	23	63410309	Frame_Shift_Del	DEL	G	TCGA-HU-A4GQ-01A-11D-A25D-08	13355839	63410309	91860251	1904	103783											
SLC7A3	84889	broad.mit.edu	37	chrX	70149524	70149524	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccagtggtgaaggcccaGagttcacccacagtgacata	12	6	11	12	0	1	3	1	2	0	1	1	3	1	3	3	2	1	1	3	2	2	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:70149524G>T	uc004dyn.2	-	2	482	c.324C>A	c.(322-324)CTC>CTA	p.L108L	SLC7A3_uc004dyo.2_Silent_p.L108L	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	108	Helical; Name=3; (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	TGAAGGCCCAGAGTTCACCCA	0.557													11	10					2.80697e-09	2.95536e-09	1	1	0		T	70149524	T	T	70149524	2	4	211	1	0	0	0	0	0	0	0	1	14723	929	33	5		5	SLC7A3	23	70149524	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	6739215	70149524	85121036	1905	103784											
MED12	9968	broad.mit.edu	37	chrX	70356270	70356270	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggagaggagcagcagcGgttgctgctctaccacacac	10	6	13	12	2	1	1	0	0	1	1	2	4	1	2	1	3	6	5	1	3	1	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:70356270G>A	uc004dyy.2	+	37	5364	c.5165G>A	c.(5164-5166)CGG>CAG	p.R1722Q	MED12_uc011mpq.1_Missense_Mutation_p.R1722Q|MED12_uc004dyz.2_Missense_Mutation_p.R1722Q|MED12_uc004dza.2_Missense_Mutation_p.R1569Q|MED12_uc010nla.2_Missense_Mutation_p.R348Q	NM_005120	NP_005111	Q93074	MED12_HUMAN	mediator complex subunit 12	1722	Interaction with CTNNB1 and GLI3.				androgen receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|protein domain specific binding|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4	Renal(35;0.156)					GAGCAGCAGCGGTTGCTGCTC	0.632													21	18					0	0	1	0	0		A	70356270	A	A	70356270	3	1	211	1	0	0	0	0	1	0	0	0	9446	1116	39	1	5311	1	MED12	23	70356270	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	206746	70356270	84914290	1906	103785											
ZMYM3	9203	broad.mit.edu	37	chrX	70472854	70472854	+	Frame_Shift_Del	DEL	C	-	-																															gagggggctttatagagcagCccccccagccccagcaactc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:70472854delC	uc004dzh.1	-	2	339	c.252delG	c.(250-252)GGGfs	p.G84fs	BCYRN1_uc011mpt.1_Intron|ZMYM3_uc004dzi.1_Frame_Shift_Del_p.G84fs|ZMYM3_uc004dzj.1_Frame_Shift_Del_p.G84fs|ZMYM3_uc011mpu.1_5'Flank|ZMYM3_uc004dzk.3_Frame_Shift_Del_p.G84fs|ZMYM3_uc004dzl.3_Frame_Shift_Del_p.G84fs|ZMYM3_uc004dzm.3_Frame_Shift_Del_p.G84fs	NM_201599	NP_963893	Q14202	ZMYM3_HUMAN	zinc finger protein 261	84					multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Renal(35;0.156)					TATAGAGCAGCCCCCCCAGCC	0.642													18	13	---	---	---	---						.	-	70472854	-	-	70472854	7	5	211	1	0	1	0	1	0	0	0	0	17726	726	26	0	3974	0	ZMYM3	23	70472854	Frame_Shift_Del	DEL	C	TCGA-HU-A4GQ-01A-11D-A25D-08	116584	70472854	84797706	1907	103786											
ATP7A	538	broad.mit.edu	37	chrX	77301978	77301978	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actcactactgtctgataaaCgctccctaaacagtgttgtt	11	13	6	11	1	2	1	1	1	1	0	3	1	3	1	1	0	3	3	1	0	5	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:77301978C>T	uc004ecx.3	+	23	4574	c.4414C>T	c.(4414-4416)CGC>TGC	p.R1472C		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	1472	Cytoplasmic (Potential).				ATP biosynthetic process|blood vessel development|blood vessel remodeling|cartilage development|cellular copper ion homeostasis|cerebellar Purkinje cell differentiation|collagen fibril organization|copper ion import|detoxification of copper ion|dopamine metabolic process|elastic fiber assembly|elastin biosynthetic process|epinephrine metabolic process|hair follicle morphogenesis|locomotory behavior|lung alveolus development|negative regulation of metalloenzyme activity|neuroprotection|peptidyl-lysine modification|pigmentation|positive regulation of metalloenzyme activity|positive regulation of oxidoreductase activity|pyramidal neuron development|regulation of oxidative phosphorylation|removal of superoxide radicals|serotonin metabolic process|skin development|T-helper cell differentiation|tryptophan metabolic process	basolateral plasma membrane|cytosol|endoplasmic reticulum|endoplasmic reticulum|integral to membrane|late endosome|neuron projection|neuronal cell body|perinuclear region of cytoplasm|trans-Golgi network|trans-Golgi network transport vesicle	ATP binding|copper-dependent protein binding|copper-exporting ATPase activity|superoxide dismutase copper chaperone activity				0						GTCTGATAAACGCTCCCTAAA	0.438													68	72					0	0	1	0	0		T	77301978	T	T	77301978	3	4	211	1	0	0	0	0	1	0	0	0	1191	536	19	1	4500	1	ATP7A	23	77301978	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	6829124	77301978	77968582	1908	103787											
BRWD3	254065	broad.mit.edu	37	chrX	79965051	79965051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgtgtcctgcgtaaagaaCgcccacagctaggctcataa	11	8	10	12	2	1	1	1	0	0	1	2	1	2	1	2	1	3	4	2	1	5	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:79965051C>T	uc004edt.2	-	21	2614	c.2351G>A	c.(2350-2352)CGT>CAT	p.R784H	BRWD3_uc010nmi.1_RNA|BRWD3_uc004edo.2_Missense_Mutation_p.R380H|BRWD3_uc004edp.2_Missense_Mutation_p.R613H|BRWD3_uc004edq.2_Missense_Mutation_p.R380H|BRWD3_uc010nmj.1_Missense_Mutation_p.R380H|BRWD3_uc004edr.2_Missense_Mutation_p.R454H|BRWD3_uc004eds.2_Missense_Mutation_p.R380H|BRWD3_uc004edu.2_Missense_Mutation_p.R454H|BRWD3_uc004edv.2_Missense_Mutation_p.R380H|BRWD3_uc004edw.2_Missense_Mutation_p.R380H|BRWD3_uc004edx.2_Missense_Mutation_p.R380H|BRWD3_uc004edy.2_Missense_Mutation_p.R380H|BRWD3_uc004edz.2_Missense_Mutation_p.R454H|BRWD3_uc004eea.2_Missense_Mutation_p.R454H|BRWD3_uc004eeb.2_Missense_Mutation_p.R380H	NM_153252	NP_694984	Q6RI45	BRWD3_HUMAN	bromodomain and WD repeat domain containing 3	784										ovary(4)	4						GCGTAAAGAACGCCCACAGCT	0.378													10	15					0	0	1	0	0		T	79965051	T	T	79965051	3	4	211	1	0	0	0	0	1	0	0	0	1529	536	19	1	3141	1	BRWD3	23	79965051	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	2663073	79965051	75305509	1909	103788											
RPS6KA6	27330	broad.mit.edu	37	chrX	83403063	83403063	+	Frame_Shift_Del	DEL	T	-	-																															tttctaccttttaaagaggcTttttttaacaccttcattgc																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:83403063delT	uc004eej.1	-	4	404	c.327delA	c.(325-327)AAAfs	p.K109fs	RPS6KA6_uc011mqt.1_Frame_Shift_Del_p.K109fs|RPS6KA6_uc011mqu.1_Frame_Shift_Del_p.K6fs|RPS6KA6_uc010nmo.1_RNA	NM_014496	NP_055311	Q9UK32	KS6A6_HUMAN	ribosomal protein S6 kinase polypeptide 6	109	Protein kinase 1.				axon guidance|central nervous system development|intracellular protein kinase cascade|synaptic transmission	cytosol|nucleoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(5)|stomach(1)|central_nervous_system(1)|skin(1)	8						TTAAAGAGGCTTTTTTTAACA	0.303													15	19	---	---	---	---						.	-	83403063	-	-	83403063	7	5	211	1	0	1	0	1	0	0	0	0	13680	1606	56	0	1986	0	RPS6KA6	23	83403063	Frame_Shift_Del	DEL	T	TCGA-HU-A4GQ-01A-11D-A25D-08	3438012	83403063	71867497	1910	103789											
HNRNPH2	3188	broad.mit.edu	37	chrX	100667062	100667062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcagccgatgaagtgatgcGcttcttctctgattgcaaga	9	12	10	10	2	3	4	1	3	2	1	4	5	3	4	1	0	3	2	1	0	2	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:100667062G>A	uc004ehm.2	+	2	256	c.86G>A	c.(85-87)CGC>CAC	p.R29H	HNRNPH2_uc004ehn.2_Missense_Mutation_p.R29H	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	29	RRM 1.				nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						GAAGTGATGCGCTTCTTCTCT	0.512													14	50					0	0	1	0	0		A	100667062	A	A	100667062	3	1	211	1	0	0	0	0	1	0	0	0	7283	1087	38	1	88	1	HNRNPH2	23	100667062	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	17263999	100667062	54603498	1911	103790											
ARMCX5	64860	broad.mit.edu	37	chrX	101858527	101858527	+	Silent	SNP	G	A	A	0	0	1	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	gcaccctttaacaagaatgaGtcaaaggccaatattcttaa	16	10	6	9	0	2	2	1	1	1	1	2	2	2	2	2	1	1	1	2	1	7	5			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:101858527G>A	uc004ejg.2	+	6	2339	c.1458G>A	c.(1456-1458)GAG>GAA	p.E486E	ARMCX5_uc004ejh.2_Silent_p.E486E	NM_022838	NP_073749	Q6P1M9	ARMX5_HUMAN	armadillo repeat containing, X-linked 5	486	ARM 3.						binding			ovary(1)	1						ACAAGAATGAGTCAAAGGCCA	0.308													18	20					0	0	1	0	0		A	101858527	A	A	101858527	2	1	211	1	0	0	0	0	0	0	0	1	963	1020	36	4		4	ARMCX5	23	101858527	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	1191465	101858527	53412033	1912	103791											
TSC22D3	1831	broad.mit.edu	37	chrX	107018464	107018464	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attatgctgttgagcttgtcGgtattgaggttctcaaagac	9	15	11	6	1	1	3	1	2	1	1	3	3	1	3	0	2	2	5	0	2	3	6			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:107018464G>A	uc004enh.2	-	1	554	c.186C>T	c.(184-186)ACC>ACT	p.T62T	TSC22D3_uc004eni.2_Silent_p.T62T|TSC22D3_uc004enj.2_Silent_p.T62T	NM_198057	NP_932174	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 1	Error:Variant_position_missing_in_Q99576_after_alignment							sequence-specific DNA binding transcription factor activity				0						TGAGCTTGTCGGTATTGAGGT	0.582													30	25					0	0	1	0	0		A	107018464	A	A	107018464	2	1	211	1	0	0	0	0	0	0	0	1	16635	1103	39	1		1	TSC22D3	23	107018464	Silent	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5159937	107018464	48252096	1913	103792											
IRS4	8471	broad.mit.edu	37	chrX	107978313	107978313	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaaaccgctctccttgacCtgcgccctctgggcaggtgc	5	9	11	16	2	2	2	0	2	2	0	3	2	2	2	4	2	3	2	4	2	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:107978313C>A	uc004eoc.2	-	1	1295	c.1262G>T	c.(1261-1263)AGG>ATG	p.R421M		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	421						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						TCTCCTTGACCTGCGCCCTCT	0.637													30	23					1.39806e-14	1.51116e-14	1	1	0		A	107978313	A	A	107978313	3	1	211	1	0	0	0	0	1	0	0	0	7858	681	24	5	2515	5	IRS4	23	107978313	Missense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	959849	107978313	47292247	1914	103793											
IRS4	8471	broad.mit.edu	37	chrX	107978481	107978481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccagcctcccggctcgagcGgcaccaagcccaggtgcctc	6	4	12	19	3	0	0	0	0	0	0	3	1	1	0	6	3	4	2	6	3	1	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:107978481G>A	uc004eoc.2	-	1	1127	c.1094C>T	c.(1093-1095)CCG>CTG	p.P365L		NM_003604	NP_003595	O14654	IRS4_HUMAN	insulin receptor substrate 4	365						plasma membrane	insulin receptor binding|SH3/SH2 adaptor activity|signal transducer activity			ovary(4)|large_intestine(2)|lung(1)|breast(1)|skin(1)|pancreas(1)	10						CGGCTCGAGCGGCACCAAGCC	0.637													72	62					0	0	1	0	0		A	107978481	A	A	107978481	3	1	211	1	0	0	0	0	1	0	0	0	7858	1116	39	1	2683	1	IRS4	23	107978481	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	168	107978481	47292079	1915	103794											
ALG13	79868	broad.mit.edu	37	chrX	111000877	111000877	+	Missense_Mutation	SNP	A	G	G	1	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	acagatgcagcagcagcttcAtgtagagaattatccagtct	13	10	9	9	0	2	2	1	0	1	2	3	3	3	2	1	0	4	5	1	0	3	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:111000877A>G	uc011msy.1	+	26	3069	c.3035A>G	c.(3034-3036)CAT>CGT	p.H1012R	ALG13_uc011msx.1_Missense_Mutation_p.H829R|ALG13_uc011msz.1_Missense_Mutation_p.H934R|ALG13_uc011mta.1_Missense_Mutation_p.H829R|ALG13_uc011mtb.1_Missense_Mutation_p.H829R			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);	1012					dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						CAGCAGCTTCATGTAGAGAAT	0.458													13	12					0	0	1	0	0		G	111000877	G	G	111000877	3	3	211	1	0	0	0	0	1	0	0	0	515	217	8	3	3279	3	ALG13	23	111000877	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	3022396	111000877	44269683	1916	103795											
ELF4	2000	broad.mit.edu	37	chrX	129200998	129200998	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggagctccctcagggtctCttcaggaaccagcagcccct	8	7	10	16	0	3	0	2	0	1	0	5	2	4	2	4	3	4	2	4	3	1	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:129200998C>A	uc004evd.3	-	9	2075	c.1690G>T	c.(1690-1692)GAG>TAG	p.E564*	ELF4_uc004eve.3_Nonsense_Mutation_p.E564*	NM_001421	NP_001412	Q99607	ELF4_HUMAN	E74-like factor 4	564					natural killer cell proliferation|NK T cell proliferation|positive regulation of transcription from RNA polymerase II promoter	PML body	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTCAGGGTCTCTTCAGGAACC	0.607			T	ERG	AML								50	40					6.3008e-33	6.96456e-33	1	1	0		A	129200998	A	A	129200998	4	1	211	1	0	0	0	0	0	1	0	0	5064	922	32	5	305	5	ELF4	23	129200998	Nonsense_Mutation	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	18200121	129200998	26069562	1917	103796											
ZNF449	203523	broad.mit.edu	37	chrX	134494267	134494268	+	Frame_Shift_Ins	INS	-	C	C																															gttagaaaatcaatgggaaaINScccccccagaggatttacag																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:134494267_134494268insC	uc004eys.2	+	5	988_989	c.823_824insC	c.(823-825)ACCfs	p.T275fs	ZNF449_uc004eyt.2_Frame_Shift_Ins_p.T155fs|ZNF449_uc004eyu.2_Frame_Shift_Ins_p.T81fs	NM_152695	NP_689908	Q6P9G9	ZN449_HUMAN	zinc finger protein 449	275					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TCAATGGGAAACCCCCCCAGAG	0.436													20	46	---	---	---	---						.	C	134494268	C	C	134494267	7	5	211	1	0	1	1	0	0	0	0	0	17945	43	2	0	837	0	ZNF449	23	134494267	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	5293269	134494267	20776293	1918	103797											
HTATSF1	27336	broad.mit.edu	37	chrX	135594074	135594075	+	Frame_Shift_Ins	INS	-	G	G																															gtttgacgattctgatgagaINSgggggactttgggtggtttt																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:135594074_135594075insG	uc004ezw.2	+	10	2592_2593	c.2170_2171insG	c.(2170-2172)AGGfs	p.R724fs	HTATSF1_uc004ezx.2_Frame_Shift_Ins_p.R724fs	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	724	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					TTCTGATGAGAGGGGGACTTTG	0.441													27	50	---	---	---	---						.	G	135594075	G	G	135594074	7	5	211	1	0	1	1	0	0	0	0	0	7449	295	11	0	2204	0	HTATSF1	23	135594074	Frame_Shift_Ins	INS	-	TCGA-HU-A4GQ-01A-11D-A25D-08	1099807	135594074	19676486	1919	103798											
MAGEC2	51438	broad.mit.edu	37	chrX	141290965	141290965	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttagtgaggagctccctaGgctccccatagacgaagtgc	9	9	11	12	1	0	2	0	1	0	1	2	4	2	3	3	2	2	2	3	2	4	4			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:141290965G>T	uc004fbu.1	-	3	1157	c.809C>A	c.(808-810)CCT>CAT	p.P270H		NM_016249	NP_057333	Q9UBF1	MAGC2_HUMAN	melanoma antigen family C, 2	270	MAGE.					cytoplasm|nucleus				breast(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					GAGCTCCCTAGGCTCCCCATA	0.532										HNSCC(46;0.14)			47	34					1.23103e-26	1.35792e-26	1	1	0		T	141290965	T	T	141290965	3	4	211	1	0	0	0	0	1	0	0	0	9199	1000	35	5	316	5	MAGEC2	23	141290965	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	5696891	141290965	13979595	1920	103799											
GABRQ	55879	broad.mit.edu	37	chrX	151820208	151820208	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accccgaagagtcattgcccGctaccgctaccagcaagtgg	10	6	10	15	3	1	1	1	0	0	1	1	2	1	1	5	1	4	3	5	1	4	3			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:151820208G>A	uc004ffp.1	+	8	1141	c.1121G>A	c.(1120-1122)CGC>CAC	p.R374H		NM_018558	NP_061028	Q9UN88	GBRT_HUMAN	gamma-aminobutyric acid (GABA) receptor, theta	374						cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|neurotransmitter transporter activity			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTCATTGCCCGCTACCGCTAC	0.537													29	26					0	0	1	0	0		A	151820208	A	A	151820208	3	1	211	1	0	0	0	0	1	0	0	0	6189	1087	38	1	1151	1	GABRQ	23	151820208	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	10529243	151820208	3450352	1921	103800											
SLC6A8	6535	broad.mit.edu	37	chrX	152959879	152959879	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcaggccttttgggagtgCgtggtggtggcctgggtgta	3	12	20	6	1	0	0	0	0	0	0	0	1	0	1	2	7	1	2	2	7	1	3	rs122453118		TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:152959879C>T	uc004fib.3	+	10	1751	c.1473C>T	c.(1471-1473)TGC>TGT	p.C491C	SLC6A8_uc004fic.3_Silent_p.C481C|SLC6A8_uc011myx.1_Silent_p.C376C|SLC6A8_uc010nuj.2_RNA	NM_005629	NP_005620	P48029	SC6A8_HUMAN	solute carrier family 6 member 8 isoform 1	491	Helical; (Potential).		C -> W (in XL-CDS).		creatine metabolic process|muscle contraction	integral to plasma membrane	creatine:sodium symporter activity|neurotransmitter:sodium symporter activity			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)				Creatine(DB00148)	TTTGGGAGTGCGTGGTGGTGG	0.662													24	23					0	0	1	0	0		T	152959879	T	T	152959879	2	4	211	1	0	0	0	0	0	0	0	1	14715	776	27	1		1	SLC6A8	23	152959879	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	1139671	152959879	2310681	1922	103801											
L1CAM	3897	broad.mit.edu	37	chrX	153133800	153133800	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggtctcgaccgtccccacGccaggtgatgctgggctgca	6	7	14	14	3	1	1	0	1	1	0	3	3	2	1	4	3	2	3	4	3	0	0			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:153133800G>A	uc004fjb.2	-	13	1768	c.1660C>T	c.(1660-1662)CGT>TGT	p.R554C	L1CAM_uc004fjc.2_Missense_Mutation_p.R554C|L1CAM_uc010nuo.2_Missense_Mutation_p.R549C|L1CAM_uc004fjd.1_Missense_Mutation_p.R368C	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	554	Ig-like C2-type 6.|Extracellular (Potential).|Cell attachment site (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	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)					CCGTCCCCACGCCAGGTGATG	0.612													60	45					0	0	1	0	0		A	153133800	A	A	153133800	3	1	211	1	0	0	0	0	1	0	0	0	8604	1087	38	1	2177	1	L1CAM	23	153133800	Missense_Mutation	SNP	G	TCGA-HU-A4GQ-01A-11D-A25D-08	173921	153133800	2136760	1923	103802											
ARHGAP4	393	broad.mit.edu	37	chrX	153178181	153178182	+	Frame_Shift_Del	DEL	AA	-	-																															aacttctccatgtctcccccAaagagtctctggttatactg																										TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:153178181_153178182delAA	uc004fjk.1	-	12	1556_1557	c.1514_1515delTT	c.(1513-1515)TTTfs	p.F505fs	ARHGAP4_uc004fjj.1_5'Flank|ARHGAP4_uc011mzf.1_Frame_Shift_Del_p.F482fs|ARHGAP4_uc004fjl.1_Frame_Shift_Del_p.F545fs|ARHGAP4_uc010nup.1_RNA	NM_001666	NP_001657	P98171	RHG04_HUMAN	Rho GTPase activating protein 4 isoform 2	505					apoptosis|cytoskeleton organization|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|Rho protein signal transduction	cytosol|focal adhesion|nucleus	Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			central_nervous_system(1)	1	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)					TGTCTCCCCCAAAGAGTCTCTG	0.55													63	63	---	---	---	---						.	-	153178182	-	-	153178181	7	5	211	1	0	1	0	1	0	0	0	0	885	127	5	0	1369	0	ARHGAP4	23	153178181	Frame_Shift_Del	DEL	AA	TCGA-HU-A4GQ-01A-11D-A25D-08	44381	153178181	2092379	1924	103803											
HCFC1	3054	broad.mit.edu	37	chrX	153219890	153219890	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtctcgtgggtctcgcatggCgggttggagcacaccctctg	4	10	15	12	3	3	0	0	0	3	0	5	1	3	1	1	4	1	3	1	4	0	1			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:153219890C>T	uc004fjp.2	-	17	4488	c.3960G>A	c.(3958-3960)CCG>CCA	p.P1320P		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	1320	HCF repeat 6.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	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)					TCTCGCATGGCGGGTTGGAGC	0.672													77	75					0	0	1	0	0		T	153219890	T	T	153219890	2	4	211	1	0	0	0	0	0	0	0	1	7007	755	27	1		1	HCFC1	23	153219890	Silent	SNP	C	TCGA-HU-A4GQ-01A-11D-A25D-08	41709	153219890	2050670	1925	103804											
SPRY3	10251	broad.mit.edu	37	chrX	155004291	155004291	+	Missense_Mutation	SNP	A	T	T	1	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	tctgtgccaacagggctatgAtagcctccggcgaccaggct	8	8	12	13	2	1	1	0	1	1	0	2	2	2	1	4	3	3	2	4	3	3	2			TCGA-HU-A4GQ-01A-11D-A25D-08	TCGA-HU-A4GQ-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	e1b8c6d7-933b-450a-9cb3-3266e6ff8096	b0459656-b4a9-4132-87e0-047418fbb6fe	g.chrX:155004291A>T	uc004fnq.1	+	2	1212	c.758A>T	c.(757-759)GAT>GTT	p.D253V	SPRY3_uc010nvl.1_Missense_Mutation_p.D154V	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	253	SPR.|Cys-rich.				multicellular organismal development|regulation of signal transduction	cytoplasm|membrane					0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					CAGGGCTATGATAGCCTCCGG	0.602													72	177					0	0	1	0	0		T	155004291	T	T	155004291	3	4	211	1	0	0	0	0	1	0	0	0	15132	333	12	5	760	5	SPRY3	23	155004291	Missense_Mutation	SNP	A	TCGA-HU-A4GQ-01A-11D-A25D-08	1784401	155004291	266269	1926	103805											
NPHP4	261734	broad.mit.edu	37	chr1	5965427	5965427	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttccttctgagggttaaacGtcacaggttctgtagcgctg	7	13	11	10	2	3	1	1	1	2	0	4	1	4	1	1	2	2	4	1	2	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:5965427G>A	uc001alq.1	-	15	2146	c.1880C>T	c.(1879-1881)ACG>ATG	p.T627M	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA|NPHP4_uc009vlu.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	627			T -> M (in SLSN4).		actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	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)		AGGGTTAAACGTCACAGGTTC	0.488													45	115					0	0	0.01441	0	0		A	5965427	A	A	5965427	3	1	212	1	0	0	0	0	1	0	0	0	10600	1145	40	1	2464	1	NPHP4	1	5965427	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		5965427	243285194	1	103806											
NPHP4	261734	broad.mit.edu	37	chr1	5965471	5965471	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcggctggctgtttattGgcatccagaatctcgggaaa	8	11	12	10	2	1	1	0	0	1	1	4	2	2	2	2	4	0	4	2	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:5965471G>T	uc001alq.1	-	15	2102	c.1836C>A	c.(1834-1836)GCC>GCA	p.A612A	NPHP4_uc001als.1_RNA|NPHP4_uc009vlt.1_RNA|NPHP4_uc001alt.1_RNA|NPHP4_uc009vlu.1_RNA	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	612					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cell-cell junction|centrosome|cilium|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	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)		GCTGTTTATTGGCATCCAGAA	0.552													10	79					5.16669e-11	5.66669e-11	0.010729	1	0		T	5965471	T	T	5965471	2	4	212	1	0	0	0	0	0	0	0	1	10600	1335	47	5		5	NPHP4	1	5965471	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	44	5965471	243285150	2	103807											
CHD5	26038	broad.mit.edu	37	chr1	6206878	6206878	+	Silent	SNP	C	T	T	0	0	0	1	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	accatgaagggggcagggggCtccgtccacctccagtgtag	8	6	15	12	1	0	1	0	1	0	0	3	1	3	1	5	4	0	3	5	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:6206878C>T	uc001amb.1	-	10	1537	c.1437G>A	c.(1435-1437)GAG>GAA	p.E479E	CHD5_uc001ama.1_5'Flank|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	479	Pro-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		GGGCAGGGGGCTCCGTCCACC	0.662													3	16					0	0	0.009096	0	0		T	6206878	T	T	6206878	2	4	212	1	0	0	0	0	0	0	0	1	3331	796	28	2		2	CHD5	1	6206878	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	241407	6206878	243043743	3	103808											
ESPN	83715	broad.mit.edu	37	chr1	6488424	6488424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgccctgcctatccactacGctgccgccaaaggagacttc	8	7	9	17	3	0	1	0	0	0	1	2	2	1	1	5	1	3	1	5	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:6488424G>A	uc001amy.2	+	2	601	c.433G>A	c.(433-435)GCT>ACT	p.A145T		NM_031475	NP_113663	B1AK53	ESPN_HUMAN	espin	145	ANK 5.				sensory perception of sound	brush border|cytoplasm|filamentous actin|stereocilium	actin filament binding|SH3 domain binding				0	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;3.6e-37)|all_epithelial(116;2.56e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|all_hematologic(16;6.92e-06)|Colorectal(325;4.47e-05)|Acute lymphoblastic leukemia(12;4.92e-05)|Breast(487;7.61e-05)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)		Epithelial(90;1.82e-35)|GBM - Glioblastoma multiforme(13;3e-28)|Kidney(185;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(229;5.63e-08)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;1.41e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000109)|STAD - Stomach adenocarcinoma(132;0.00167)|Lung(427;0.0108)|LUSC - Lung squamous cell carcinoma(448;0.0253)|READ - Rectum adenocarcinoma(331;0.0419)		TATCCACTACGCTGCCGCCAA	0.652													6	89					0	0	0.001984	0	0		A	6488424	A	A	6488424	3	1	212	1	0	0	0	0	1	0	0	0	5262	1087	38	1	439	1	ESPN	1	6488424	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	281546	6488424	242762197	4	103809											
DNAJC11	55735	broad.mit.edu	37	chr1	6712907	6712907	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acctctccccatccctttgcCgaagttactcgtctgagcgc	6	11	7	17	3	2	1	0	1	2	0	5	2	3	1	5	0	3	1	5	0	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:6712907C>T	uc001aof.2	-	6	718	c.612G>A	c.(610-612)TCG>TCA	p.S204S	DNAJC11_uc010nzt.1_Silent_p.S166S|DNAJC11_uc001aog.2_Silent_p.S204S|DNAJC11_uc010nzu.1_Silent_p.S114S	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	204					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|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;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		ATCCCTTTGCCGAAGTTACTC	0.478													26	70					0	0	0.003954	0	0		T	6712907	T	T	6712907	2	4	212	1	0	0	0	0	0	0	0	1	4636	639	23	1		1	DNAJC11	1	6712907	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	224483	6712907	242537714	5	103810											
SPSB1	80176	broad.mit.edu	37	chr1	9416386	9416386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctggggctgggacttggggCgcaaccggctctaccacgat	6	7	15	13	3	1	0	0	0	1	0	1	2	1	1	3	6	2	3	3	6	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:9416386C>T	uc010oae.1	+	2	775	c.436C>T	c.(436-438)CGC>TGC	p.R146C	SPSB1_uc001apv.2_Missense_Mutation_p.R146C	NM_025106	NP_079382	Q96BD6	SPSB1_HUMAN	splA/ryanodine receptor domain and SOCS box	146	B30.2/SPRY.				intracellular signal transduction	cytoplasm					0	all_lung(157;0.194)	all_epithelial(116;4.38e-15)|all_lung(118;0.000156)|Lung NSC(185;0.000446)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;2.72e-07)|COAD - Colon adenocarcinoma(227;9.12e-05)|Kidney(185;0.000296)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00193)|BRCA - Breast invasive adenocarcinoma(304;0.00202)|READ - Rectum adenocarcinoma(331;0.0419)		GGACTTGGGGCGCAACCGGCT	0.607													15	48					0	0	0.004007	0	0		T	9416386	T	T	9416386	3	4	212	1	0	0	0	0	1	0	0	0	15137	768	27	1	438	1	SPSB1	1	9416386	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2703479	9416386	239834235	6	103811											
PEX14	5195	broad.mit.edu	37	chr1	10690017	10690017	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagctgcggcggcccgagggCgccagcaacgagagtgagcg	9	2	18	12	6	0	2	0	1	0	1	0	4	0	2	2	3	5	2	2	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:10690017C>T	uc001arn.2	+	9	1128	c.1107C>T	c.(1105-1107)GGC>GGT	p.G369G	PEX14_uc009vmv.2_Silent_p.G305G|PEX14_uc010oam.1_Silent_p.G305G|PEX14_uc010oan.1_Silent_p.G326G|PEX14_uc009vmw.2_Silent_p.G305G	NM_004565	NP_004556	O75381	PEX14_HUMAN	peroxisomal biogenesis factor 14	369					negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|protein homooligomerization|protein import into peroxisome matrix|transmembrane transport	integral to membrane|nucleus|peroxisomal membrane|protein complex	protein N-terminus binding|transcription corepressor activity			breast(1)	1	Ovarian(185;0.203)	all_lung(284;6.02e-06)|Lung NSC(185;9.62e-06)|Renal(390;0.000147)|Breast(348;0.000932)|Colorectal(325;0.00215)|Hepatocellular(190;0.00913)|Ovarian(437;0.023)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0292)|Colorectal(212;9.13e-08)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000482)|Kidney(185;0.00174)|KIRC - Kidney renal clear cell carcinoma(229;0.00457)|STAD - Stomach adenocarcinoma(132;0.0249)|READ - Rectum adenocarcinoma(331;0.0419)		GGCCCGAGGGCGCCAGCAACG	0.692													11	40					0	0	0.001855	0	0		T	10690017	T	T	10690017	2	4	212	1	0	0	0	0	0	0	0	1	11761	755	27	1		1	PEX14	1	10690017	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1273631	10690017	238560604	7	103812											
MTOR	2475	broad.mit.edu	37	chr1	11175526	11175526	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatcaggttggatgggtgtCtttgagaaacagaagacaga	13	9	14	5	0	2	4	1	1	1	4	2	6	2	5	0	3	1	2	0	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:11175526C>A	uc001asd.2	-	51	7138	c.7017_splice	c.e51-1	p.R2339_splice	MTOR_uc001asc.2_Splice_Site_p.R544_splice	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated						cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GGATGGGTGTCTTTGAGAAAC	0.418													25	80					1.2476e-16	1.42538e-16	0.00632	1	0		A	11175526	A	A	11175526	5	1	212	1	0	0	0	0	0	0	1	0	9972	927	32	5	665	5	MTOR	1	11175526	Splice_Site	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	485509	11175526	238075095	8	103813											
MFN2	9927	broad.mit.edu	37	chr1	12059139	12059139	+	Missense_Mutation	SNP	A	C	C	1	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	tgcatctgcctcagagcccgAgtacatggaggaggttcgtg	8	9	14	10	2	2	1	1	0	1	1	3	4	2	3	2	3	4	3	2	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:12059139A>C	uc001atn.3	+	8	1256	c.803A>C	c.(802-804)GAG>GCG	p.E268A	MFN2_uc009vni.2_Missense_Mutation_p.E268A	NM_014874	NP_055689	O95140	MFN2_HUMAN	mitofusin 2	268	Cytoplasmic (Potential).				blood coagulation|mitochondrial fusion|mitochondrial membrane organization|mitochondrion localization|negative regulation of Ras protein signal transduction|negative regulation of smooth muscle cell proliferation|protein targeting to mitochondrion	cytosol|integral to membrane|intrinsic to mitochondrial outer membrane	GTP binding|GTPase activity|ubiquitin protein ligase binding			ovary(1)	1	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)		TCAGAGCCCGAGTACATGGAG	0.567													23	66					0	0	0.00333	0	0		C	12059139	C	C	12059139	3	2	212	1	0	0	0	0	1	0	0	0	9542	304	11	5	825	5	MFN2	1	12059139	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	883613	12059139	237191482	9	103814											
TNFRSF1B	7133	broad.mit.edu	37	chr1	12262149	12262149	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcgttggacagaagggcGcccactcggaaccagccaca	11	4	13	13	3	0	1	0	0	0	1	1	3	0	3	3	3	3	1	3	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:12262149G>A	uc001att.2	+	9	1115	c.1026G>A	c.(1024-1026)GCG>GCA	p.A342A	TNFRSF1B_uc001atu.2_Silent_p.A147A|TNFRSF1B_uc009vnk.2_RNA	NM_001066	NP_001057	P20333	TNR1B_HUMAN	tumor necrosis factor receptor 2 precursor	342	Cytoplasmic (Potential).				apoptosis	extracellular region|integral to membrane|membrane raft|plasma membrane	tumor necrosis factor receptor activity			liver(1)|central_nervous_system(1)|skin(1)	3	Ovarian(185;0.249)	Lung NSC(185;8.72e-05)|all_lung(284;9.92e-05)|Renal(390;0.000147)|Colorectal(325;0.000584)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;5.52e-07)|COAD - Colon adenocarcinoma(227;0.000345)|BRCA - Breast invasive adenocarcinoma(304;0.000353)|Kidney(185;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00302)|STAD - Stomach adenocarcinoma(313;0.00815)|READ - Rectum adenocarcinoma(331;0.0284)	Etanercept(DB00005)|Infliximab(DB00065)	ACAGAAGGGCGCCCACTCGGA	0.701													7	8					0	0	0.001984	0	0		A	12262149	A	A	12262149	2	1	212	1	0	0	0	0	0	0	0	1	16319	1074	38	1		1	TNFRSF1B	1	12262149	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	203010	12262149	236988472	10	103815											
PRAMEF1	65121	broad.mit.edu	37	chr1	12855721	12855721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctacgtgctgctgttccGcatcagtcttgaacccctcg	6	11	9	15	3	2	1	1	1	1	0	4	1	3	1	3	0	5	5	3	0	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:12855721G>A	uc001auj.1	+	4	1104	c.1001G>A	c.(1000-1002)CGC>CAC	p.R334H		NM_023013	NP_075389	O95521	PRAM1_HUMAN	PRAME family member 1	334	LRR 1.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.0042)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCTGTTCCGCATCAGTCTT	0.502													24	308					0	0	0.007291	0	0		A	12855721	A	A	12855721	3	1	212	1	0	0	0	0	1	0	0	0	12447	1087	38	1	1011	1	PRAMEF1	1	12855721	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	593572	12855721	236394900	11	103816											
PRAMEF11	440560	broad.mit.edu	37	chr1	12887509	12887509	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tattcatccagagtcctgttCttgagccaaagttctacaaa	12	13	6	10	0	3	2	1	1	2	1	5	2	5	2	3	0	2	2	3	0	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:12887509C>G	uc001auk.2	-	3	544	c.348G>C	c.(346-348)AAG>AAC	p.K116N		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	116											0						GAGTCCTGTTCTTGAGCCAAA	0.478													90	287					0	0	0.01441	0	0		G	12887509	G	G	12887509	3	3	212	1	0	0	0	0	1	0	0	0	12449	912	32	5	970	5	PRAMEF11	1	12887509	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	31788	12887509	236363112	12	103817											
PDPN	10630	broad.mit.edu	37	chr1	13933720	13933720	+	Silent	SNP	C	T	T	0	0	0	1	1	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	actacaggtttggaaggcggCgttgccatgccaggtgccga	8	8	15	10	3	0	0	0	0	0	0	0	2	0	1	3	5	4	2	3	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:13933720C>T	uc001avd.2	+	2	397	c.348C>T	c.(346-348)GGC>GGT	p.G116G	PDPN_uc001avc.2_Silent_p.G116G|PDPN_uc009vob.2_5'UTR|PDPN_uc009voc.2_5'UTR|PDPN_uc001ave.2_5'UTR|PDPN_uc001avf.2_5'UTR	NM_006474	NP_006465	Q86YL7	PDPN_HUMAN	lung type-I cell membrane-associated	40	Extracellular (Potential).				cell morphogenesis|lymphangiogenesis|regulation of cell shape	filopodium membrane|integral to plasma membrane|lamellipodium membrane|microvillus membrane|ruffle membrane				ovary(2)	2	Ovarian(185;0.249)	all_lung(284;2.29e-05)|Lung NSC(185;4.37e-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;0.00969)|Colorectal(212;4.48e-06)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000347)|Kidney(185;0.00087)|KIRC - Kidney renal clear cell carcinoma(229;0.0027)|STAD - Stomach adenocarcinoma(313;0.00802)|READ - Rectum adenocarcinoma(331;0.0678)		TGGAAGGCGGCGTTGCCATGC	0.522													7	72					0	0	0.00308	0	0		T	13933720	T	T	13933720	2	4	212	1	0	0	0	0	0	0	0	1	11707	755	27	1		1	PDPN	1	13933720	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1046211	13933720	235316901	13	103818											
PRDM2	7799	broad.mit.edu	37	chr1	14107751	14107751	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agatctaaccaaacatttatCtattcatgctgaagaatggc	15	12	6	8	0	3	3	1	1	2	2	3	3	3	3	1	1	3	1	1	1	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:14107751C>A	uc001avi.2	+	8	4317	c.3461C>A	c.(3460-3462)TCT>TAT	p.S1154Y	PRDM2_uc001avg.2_Intron|PRDM2_uc001avh.2_Missense_Mutation_p.S1154Y|PRDM2_uc001avj.2_Intron|PRDM2_uc001avk.2_Missense_Mutation_p.S953Y|PRDM2_uc009voe.2_Intron|PRDM2_uc009vof.2_Intron	NM_012231	NP_036363	Q13029	PRDM2_HUMAN	retinoblastoma protein-binding zinc finger	1154	C2H2-type 4.					Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		AAACATTTATCTATTCATGCT	0.358													31	72					1.60099e-16	1.82685e-16	0.004878	1	0		A	14107751	A	A	14107751	3	1	212	1	0	0	0	0	1	0	0	0	12480	913	32	5	3487	5	PRDM2	1	14107751	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	174031	14107751	235142870	14	103819											
KAZ	23254	broad.mit.edu	37	chr1	15390070	15390070	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cttctcctctggctacagggCgacagtcccggcccagttca	6	9	10	16	2	3	0	1	0	2	0	5	1	4	0	3	3	1	2	3	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:15390070C>T	uc001avm.3	+	7	1331	c.1050C>T	c.(1048-1050)GGC>GGT	p.G350G	KAZ_uc009vog.1_Silent_p.G350G|KAZ_uc010obj.1_Silent_p.G350G|KAZ_uc001avo.2_Silent_p.G344G|KAZ_uc001avp.2_Silent_p.G256G|KAZ_uc001avq.2_Silent_p.G256G|KAZ_uc001avr.2_Nonsense_Mutation_p.R252*	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	350					keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						GGCTACAGGGCGACAGTCCCG	0.602													9	32					0	0	0.008291	0	0		T	15390070	T	T	15390070	2	4	212	1	0	0	0	0	0	0	0	1	8004	755	27	1		1	KAZ	1	15390070	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1282319	15390070	233860551	15	103820											
SPEN	23013	broad.mit.edu	37	chr1	16202716	16202716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcttcagataacagggagCgtgcttatgaacatagtgcc	11	9	13	8	1	1	2	1	1	0	1	1	3	1	3	1	2	5	2	1	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:16202716C>T	uc001axk.1	+	3	628	c.424C>T	c.(424-426)CGT>TGT	p.R142C	SPEN_uc010obp.1_Missense_Mutation_p.R101C	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	142	Arg-rich.|By similarity.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TAACAGGGAGCGTGCTTATGA	0.438													5	28					0	0	0.00308	0	0		T	16202716	T	T	16202716	3	4	212	1	0	0	0	0	1	0	0	0	15063	768	27	1	434	1	SPEN	1	16202716	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	812646	16202716	233047905	16	103821											
SPEN	23013	broad.mit.edu	37	chr1	16260465	16260465	+	Missense_Mutation	SNP	A	G	G	1	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	ggccccgcccccgccagttgActctaaaaagcctttagaag	10	7	9	15	2	1	2	0	1	1	1	1	2	1	2	6	1	1	1	6	1	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:16260465A>G	uc001axk.1	+	11	7934	c.7730A>G	c.(7729-7731)GAC>GGC	p.D2577G	SPEN_uc010obp.1_Missense_Mutation_p.D2536G	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2577	RID.				interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CCGCCAGTTGACTCTAAAAAG	0.532													35	94					0	0	0.00623	0	0		G	16260465	G	G	16260465	3	3	212	1	0	0	0	0	1	0	0	0	15063	275	10	3	7772	3	SPEN	1	16260465	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	57749	16260465	232990156	17	103822											
EPHA2	1969	broad.mit.edu	37	chr1	16461656	16461656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacggagaaaccctcggtgCggcgcacattgtagctgttg	8	9	13	11	4	1	1	1	0	0	1	2	2	1	1	1	3	3	4	1	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:16461656C>T	uc001aya.1	-	7	1594	c.1457G>A	c.(1456-1458)CGC>CAC	p.R486H		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	486	Extracellular (Potential).|Fibronectin type-III 2.				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	ACCCTCGGTGCGGCGCACATT	0.701													41	138					0	0	0.011902	0	0		T	16461656	T	T	16461656	3	4	212	1	0	0	0	0	1	0	0	0	5175	768	27	1	1517	1	EPHA2	1	16461656	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	201191	16461656	232788965	18	103823											
PADI3	51702	broad.mit.edu	37	chr1	17575654	17575654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtcgctgcagagaatcgtgCgtgtgtccctggagcatccc	6	10	13	12	3	0	1	0	0	0	1	4	3	2	2	2	1	3	3	2	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:17575654C>T	uc001bai.2	+	1	62	c.22C>T	c.(22-24)CGT>TGT	p.R8C		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	8					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	GAGAATCGTGCGTGTGTCCCT	0.592													10	91					0	0	0.010729	0	0		T	17575654	T	T	17575654	3	4	212	1	0	0	0	0	1	0	0	0	11398	768	27	1	24	1	PADI3	1	17575654	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1113998	17575654	231674967	19	103824											
ARHGEF10L	55160	broad.mit.edu	37	chr1	18023681	18023681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatttacgagatggccgacGaccccgacatctgggtgcgc	8	7	12	14	5	1	1	0	0	1	1	1	5	1	1	4	2	2	0	4	2	1	2	rs149908903		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:18023681G>A	uc001ban.2	+	29	3805	c.3646G>A	c.(3646-3648)GAC>AAC	p.D1216N	ARHGEF10L_uc001bao.2_Missense_Mutation_p.D1177N|ARHGEF10L_uc001bap.2_Missense_Mutation_p.D1172N|ARHGEF10L_uc001baq.2_Missense_Mutation_p.D977N|ARHGEF10L_uc010ocs.1_Missense_Mutation_p.D989N|ARHGEF10L_uc001bar.2_Missense_Mutation_p.D919N|ARHGEF10L_uc009vpf.2_RNA|ARHGEF10L_uc001bas.2_Missense_Mutation_p.D240N	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	1216					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		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)		GATGGCCGACGACCCCGACAT	0.697													10	35					0	0	0.006214	0	0		A	18023681	A	A	18023681	3	1	212	1	0	0	0	0	1	0	0	0	895	1058	37	1	3756	1	ARHGEF10L	1	18023681	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	448027	18023681	231226940	20	103825											
AKR7A2	8574	broad.mit.edu	37	chr1	19630817	19630817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggcccttcctctgttgctgCcaagttctgctccagctgct	3	13	10	15	0	2	0	0	0	2	0	4	0	4	0	4	1	5	6	4	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:19630817C>T	uc001bbw.2	-	7	1004	c.982G>A	c.(982-984)GCA>ACA	p.A328T	AKR7A2_uc001bbx.2_Missense_Mutation_p.A293T	NM_003689	NP_003680	O43488	ARK72_HUMAN	aldo-keto reductase family 7, member A2	328					carbohydrate metabolic process|cellular aldehyde metabolic process	Golgi apparatus	alditol:NADP+ 1-oxidoreductase activity|electron carrier activity			central_nervous_system(1)	1		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;0.00461)|BRCA - Breast invasive adenocarcinoma(304;1.83e-05)|Kidney(64;0.000167)|GBM - Glioblastoma multiforme(114;0.00115)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)		TCTGTTGCTGCCAAGTTCTGC	0.607													23	89					0	0	0.00333	0	0		T	19630817	T	T	19630817	3	4	212	1	0	0	0	0	1	0	0	0	475	739	26	2	101	2	AKR7A2	1	19630817	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1607136	19630817	229619804	21	103826											
HSPG2	3339	broad.mit.edu	37	chr1	22192298	22192298	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacttcccaccgtaggccGccacctgcaaagaggcaagc	11	4	10	16	2	0	1	0	0	0	1	1	1	1	1	5	2	3	4	5	2	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:22192298G>A	uc001bfj.2	-	34	4266	c.4226C>T	c.(4225-4227)GCG>GTG	p.A1409V	HSPG2_uc009vqd.2_Missense_Mutation_p.A1410V	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	1409	Laminin IV type A 3.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	ACCGTAGGCCGCCACCTGCAA	0.592													9	81					0	0	0.006214	0	0		A	22192298	A	A	22192298	3	1	212	1	0	0	0	0	1	0	0	0	7446	1087	38	1	9205	1	HSPG2	1	22192298	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2561481	22192298	227058323	22	103827											
ZBTB40	9923	broad.mit.edu	37	chr1	22843928	22843928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggcttccggcaagccaatgGcctctccatccatctgcaca	8	8	9	16	1	2	0	0	0	2	0	5	0	4	0	5	3	2	3	5	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:22843928G>A	uc001bft.2	+	14	3315	c.2804G>A	c.(2803-2805)GGC>GAC	p.G935D	ZBTB40_uc001bfu.2_Missense_Mutation_p.G935D|ZBTB40_uc009vqi.1_Missense_Mutation_p.G823D	NM_001083621	NP_001077090	Q9NUA8	ZBT40_HUMAN	zinc finger and BTB domain containing 40	935	C2H2-type 5.				bone mineralization|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|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)		CAAGCCAATGGCCTCTCCATC	0.572													30	48					0	0	0.013726	0	0		A	22843928	A	A	22843928	3	1	212	1	0	0	0	0	1	0	0	0	17567	1203	42	2	2850	2	ZBTB40	1	22843928	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	651630	22843928	226406693	23	103828											
C1QC	714	broad.mit.edu	37	chr1	22974052	22974052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactactttgtctaccacGcgtcgcatacagccaacctg	9	11	6	15	3	2	0	0	0	2	0	3	0	2	0	3	0	6	1	3	0	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:22974052G>A	uc001bgc.3	+	3	617	c.514G>A	c.(514-516)GCG>ACG	p.A172T	C1QC_uc001bga.3_Missense_Mutation_p.A172T|C1QC_uc001bgb.2_Missense_Mutation_p.A172T	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	172	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TGTCTACCACGCGTCGCATAC	0.572													12	72					0	0	0.00245	0	0		A	22974052	A	A	22974052	3	1	212	1	0	0	0	0	1	0	0	0	1960	1087	38	1	520	1	C1QC	1	22974052	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	130124	22974052	226276569	24	103829											
RHD	6007	broad.mit.edu	37	chr1	25611170	25611170	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaacctcttcatgctggcGcttggtgtgcagtgggcaat	6	13	12	10	1	3	0	2	0	1	0	3	0	3	0	1	3	3	4	1	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:25611170G>A	uc001bjz.2	+	2	313	c.255G>A	c.(253-255)GCG>GCA	p.A85A	RHD_uc010oep.1_Silent_p.A85A|RHD_uc001bkc.2_Silent_p.A85A|RHD_uc009vrm.2_5'UTR|RHD_uc001bka.2_Silent_p.A85A|RHD_uc001bkb.2_Silent_p.A85A|RHD_uc009vrn.2_Silent_p.A85A|RHD_uc009vro.2_Silent_p.A85A|RHD_uc009vrp.2_Silent_p.A85A	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1	85	Helical; (Potential).					integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-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)		TCATGCTGGCGCTTGGTGTGC	0.577													9	60					0	0	0.008291	0	0		A	25611170	A	A	25611170	2	1	212	1	0	0	0	0	0	0	0	1	13352	1074	38	1		1	RHD	1	25611170	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2637118	25611170	223639451	25	103830											
TMEM57	55219	broad.mit.edu	37	chr1	25818071	25818071	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aagcggcagctcgagattgcCcaaggtaggagaacgtgggc	11	5	16	9	3	0	2	0	0	0	2	1	4	0	2	1	4	4	3	1	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:25818071C>A	uc001bkk.2	+	10	1990	c.1788C>A	c.(1786-1788)GCC>GCA	p.A596A	TMEM57_uc009vru.2_Silent_p.A369A|TMEM57_uc009vrv.2_Silent_p.A238A	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	596						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		TCGAGATTGCCCAAGGTAGGA	0.562													13	27					2.27111e-07	2.41865e-07	0.013537	1	0		A	25818071	A	A	25818071	2	1	212	1	0	0	0	0	0	0	0	1	16209	610	22	5		5	TMEM57	1	25818071	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	206901	25818071	223432550	26	103831											
LDLRAP1	26119	broad.mit.edu	37	chr1	25880532	25880532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaggagctgtcggccgccGccatcaagaggatcgtggct	7	7	16	11	4	1	2	1	1	0	1	3	4	1	4	3	4	1	2	3	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:25880532G>A	uc001bkl.3	+	2	322	c.208G>A	c.(208-210)GCC>ACC	p.A70T		NM_015627	NP_056442	Q5SW96	ARH_HUMAN	low density lipoprotein receptor adaptor protein	70	PID.				amyloid precursor protein metabolic process|cholesterol homeostasis|cholesterol metabolic process|positive regulation of receptor-mediated endocytosis|receptor internalization|receptor-mediated endocytosis of low-density lipoprotein particle involved in cholesterol transport|regulation of establishment of protein localization in plasma membrane|regulation of protein binding	basal plasma membrane|cytosol|early endosome|internal side of plasma membrane|neurofilament|recycling endosome	beta-amyloid binding|clathrin binding|low-density lipoprotein particle receptor binding|phosphatidylinositol-4,5-bisphosphate binding|phosphotyrosine binding|protein binding, bridging|protein complex binding|receptor signaling complex scaffold activity|signaling adaptor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.63e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|GBM - Glioblastoma multiforme(114;0.00914)|READ - Rectum adenocarcinoma(331;0.0649)		GTCGGCCGCCGCCATCAAGAG	0.642													17	57					0	0	0.008871	0	0		A	25880532	A	A	25880532	3	1	212	1	0	0	0	0	1	0	0	0	8724	1087	38	1	214	1	LDLRAP1	1	25880532	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	62461	25880532	223370089	27	103832											
MAN1C1	57134	broad.mit.edu	37	chr1	26104649	26104649	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggggctgacctacattgcCgagtggcgaggggggattct	6	8	19	8	2	1	1	0	1	1	0	1	4	1	2	2	7	2	1	2	7	1	3	rs144169583		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:26104649C>A	uc001bkm.2	+	9	1641	c.1311C>A	c.(1309-1311)GCC>GCA	p.A437A	MAN1C1_uc009vry.1_Silent_p.A257A|MAN1C1_uc001bkn.2_5'Flank	NM_020379	NP_065112	Q9NR34	MA1C1_HUMAN	mannosidase, alpha, class 1C, member 1	437	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(1)	1		Colorectal(325;3.78e-05)|Lung NSC(340;0.000181)|all_lung(284;0.000245)|Renal(390;0.000714)|Ovarian(437;0.00159)|Breast(348;0.0156)|Myeloproliferative disorder(586;0.0257)|all_neural(195;0.0515)|Esophageal squamous(538;0.232)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0574)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.15e-07)|COAD - Colon adenocarcinoma(152;4.31e-06)|STAD - Stomach adenocarcinoma(196;0.00125)|BRCA - Breast invasive adenocarcinoma(304;0.00141)|KIRC - Kidney renal clear cell carcinoma(1967;0.00146)|GBM - Glioblastoma multiforme(114;0.0149)|READ - Rectum adenocarcinoma(331;0.0803)		CCTACATTGCCGAGTGGCGAG	0.627													10	49					4.36969e-10	4.74719e-10	0.001855	1	0		A	26104649	A	A	26104649	2	1	212	1	0	0	0	0	0	0	0	1	9231	639	23	5		5	MAN1C1	1	26104649	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	224117	26104649	223145972	28	103833											
CNKSR1	10256	broad.mit.edu	37	chr1	26516001	26516001	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcactcccatctctgccccCtgacctcagagagcagcctc	8	7	7	19	0	2	2	1	1	1	1	5	3	3	2	5	0	4	2	5	0	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:26516001C>A	uc001bln.3	+	21	2183	c.2125C>A	c.(2125-2127)CTG>ATG	p.L709M	CNKSR1_uc001blm.3_Missense_Mutation_p.L702M|CNKSR1_uc009vsd.2_Missense_Mutation_p.L444M|CNKSR1_uc009vse.2_Missense_Mutation_p.L444M|CNKSR1_uc001blo.2_Missense_Mutation_p.L444M|CATSPER4_uc010oey.1_5'Flank|CATSPER4_uc010oez.1_5'Flank|CATSPER4_uc009vsf.2_5'Flank	NM_006314	NP_006305	Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras	709					Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			lung(1)|kidney(1)	2		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)		TCTCTGCCCCCTGACCTCAGA	0.617													40	109					1.06522e-23	1.24017e-23	0.013114	1	0		A	26516001	A	A	26516001	3	1	212	1	0	0	0	0	1	0	0	0	3609	680	24	5	2186	5	CNKSR1	1	26516001	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	411352	26516001	222734620	29	103834											
CATSPER4	378807	broad.mit.edu	37	chr1	26517892	26517892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgatcaatgccatcaccatcGctctccgtaccaactcctac	10	10	4	17	2	3	1	2	1	1	0	6	1	4	1	5	0	4	2	5	0	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:26517892G>A	uc010oez.1	+	2	328	c.328G>A	c.(328-330)GCT>ACT	p.A110T	CATSPER4_uc010oey.1_5'UTR|CATSPER4_uc009vsf.2_RNA	NM_198137	NP_937770	Q7RTX7	CTSR4_HUMAN	cation channel, sperm associated 4	110	Helical; Name=Segment S1; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	cilium|flagellar membrane|integral to membrane	calcium channel activity|voltage-gated ion channel activity			ovary(1)	1		all_cancers(24;2.05e-18)|Colorectal(325;0.000147)|Renal(390;0.00211)|all_lung(284;0.00218)|Lung NSC(340;0.00239)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0687)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;3.52e-26)|Colorectal(126;1.34e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000755)|BRCA - Breast invasive adenocarcinoma(304;0.000995)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00878)|READ - Rectum adenocarcinoma(331;0.0649)		CATCACCATCGCTCTCCGTAC	0.428													16	36					0	0	0.006122	0	0		A	26517892	A	A	26517892	3	1	212	1	0	0	0	0	1	0	0	0	2693	1087	38	1	334	1	CATSPER4	1	26517892	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1891	26517892	222732729	30	103835											
MAP3K6	9064	broad.mit.edu	37	chr1	27687237	27687237	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttgatggcgatgcgcacCctcgtgtggcgatcgcggcc	4	9	14	14	6	0	1	0	1	0	0	3	3	1	1	3	3	1	1	3	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:27687237C>T	uc001bny.1	-	15	2262	c.2013G>A	c.(2011-2013)AGG>AGA	p.R671R	MAP3K6_uc009vsw.1_Silent_p.R663R|MAP3K6_uc001bnz.1_Silent_p.R194R	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase	671	Protein kinase.				activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity	p.L671V(1)		breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		CGATGCGCACCCTCGTGTGGC	0.701													4	30					0	0	0.009096	0	0		T	27687237	T	T	27687237	2	4	212	1	0	0	0	0	0	0	0	1	9272	622	22	4		4	MAP3K6	1	27687237	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1169345	27687237	221563384	31	103836											
EPB41	2035	broad.mit.edu	37	chr1	29386935	29386935	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccccctttcattttcacagaAaaagagagaaagactagatg	16	9	7	9	0	2	5	2	0	0	5	2	6	2	5	2	0	0	0	2	0	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:29386935A>G	uc001brm.1	+	14	1953	c.1946A>G	c.(1945-1947)AAA>AGA	p.K649R	EPB41_uc001brg.1_Missense_Mutation_p.K426R|EPB41_uc001brh.1_Missense_Mutation_p.K407R|EPB41_uc001bri.1_Intron|EPB41_uc001brj.1_Intron|EPB41_uc001brk.2_Missense_Mutation_p.K635R|EPB41_uc001brl.1_Missense_Mutation_p.K616R|EPB41_uc009vtl.1_Intron|EPB41_uc009vtm.1_Intron	NM_203342	NP_976217	P11171	41_HUMAN	erythrocyte membrane protein band 4.1	649	Spectrin--actin-binding.				blood circulation|cortical actin cytoskeleton organization|positive regulation of protein binding	extrinsic to membrane|Golgi apparatus|nucleus|plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	1-phosphatidylinositol binding|actin binding|spectrin binding|structural constituent of cytoskeleton			ovary(1)	1		Colorectal(325;3.46e-05)|Prostate(1639;0.000244)|Lung NSC(340;0.00328)|all_lung(284;0.00412)|Breast(348;0.00765)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;3.12e-07)|COAD - Colon adenocarcinoma(152;1.21e-05)|STAD - Stomach adenocarcinoma(196;0.00395)|KIRC - Kidney renal clear cell carcinoma(1967;0.0249)|BRCA - Breast invasive adenocarcinoma(304;0.0289)|READ - Rectum adenocarcinoma(331;0.0757)		TTTTCACAGAAAAAGAGAGAA	0.313													8	47					0	0	0.004482	0	0		G	29386935	G	G	29386935	3	3	212	1	0	0	0	0	1	0	0	0	5159	28	1	3	2000	3	EPB41	1	29386935	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1699698	29386935	219863686	32	103837											
PTPRU	10076	broad.mit.edu	37	chr1	29586016	29586016	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggtcaacgcgggccagaaCgcgtcgttccagtgcatggc	8	6	15	12	5	1	1	1	0	0	1	3	2	2	1	2	3	3	2	2	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:29586016C>T	uc001bru.2	+	5	725	c.615C>T	c.(613-615)AAC>AAT	p.N205N	PTPRU_uc001brv.2_Silent_p.N205N|PTPRU_uc001brw.2_Silent_p.N205N|PTPRU_uc009vtq.2_Silent_p.N205N|PTPRU_uc009vtr.2_Silent_p.N205N	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	205	Extracellular (Potential).|Ig-like C2-type.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		CGGGCCAGAACGCGTCGTTCC	0.692													12	37					0	0	0.003163	0	0		T	29586016	T	T	29586016	2	4	212	1	0	0	0	0	0	0	0	1	12838	535	19	1		1	PTPRU	1	29586016	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	199081	29586016	219664605	33	103838											
PTPRU	10076	broad.mit.edu	37	chr1	29650282	29650282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccgagagtggggatgggcGcaccatcgtgcactgcctgt	6	7	17	11	3	0	1	0	0	0	1	1	3	0	2	3	4	2	2	3	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:29650282G>A	uc001bru.2	+	29	4234	c.4124G>A	c.(4123-4125)CGC>CAC	p.R1375H	PTPRU_uc001brv.2_Missense_Mutation_p.R1371H|PTPRU_uc001brw.2_Missense_Mutation_p.R1365H|PTPRU_uc009vtq.2_Missense_Mutation_p.R1369H|PTPRU_uc009vtr.2_Missense_Mutation_p.R1362H|PTPRU_uc001brx.2_Missense_Mutation_p.R101H	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1375	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GGGGATGGGCGCACCATCGTG	0.642													14	34					0	0	0.004007	0	0		A	29650282	A	A	29650282	3	1	212	1	0	0	0	0	1	0	0	0	12838	1087	38	1	4260	1	PTPRU	1	29650282	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	64266	29650282	219600339	34	103839											
COL16A1	1307	broad.mit.edu	37	chr1	32131489	32131489	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcgtcactcacctggtcGcccttctcaccggagttacc	6	10	8	17	3	3	0	3	0	1	0	6	1	3	1	4	2	1	1	4	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:32131489G>A	uc001btk.1	-	54	3815	c.3450C>T	c.(3448-3450)GGC>GGT	p.G1150G	COL16A1_uc001bti.1_5'UTR|COL16A1_uc001btj.1_Silent_p.G948G	NM_001856	NP_001847	Q07092	COGA1_HUMAN	alpha 1 type XVI collagen precursor	1150	Triple-helical region 2 (COL2) with 2 imperfections.				cell adhesion|female pregnancy|integrin-mediated signaling pathway	collagen type XVI	integrin binding|structural molecule activity			ovary(8)	8		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0423)|all_neural(195;0.0837)|Breast(348;0.116)		STAD - Stomach adenocarcinoma(196;0.059)		TCACCTGGTCGCCCTTCTCAC	0.607													18	55					0	0	0.007413	0	0		A	32131489	A	A	32131489	2	1	212	1	0	0	0	0	0	0	0	1	3676	1074	38	1		1	COL16A1	1	32131489	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2481207	32131489	217119132	35	103840											
TMEM39B	55116	broad.mit.edu	37	chr1	32557330	32557330	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgacctccgcaagacaagCctcttcaaccacatggcctc	10	7	7	17	2	2	1	1	0	1	1	4	2	3	1	5	1	3	1	5	1	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:32557330C>T	uc010ogv.1	+	6	791	c.645C>T	c.(643-645)AGC>AGT	p.S215S	TMEM39B_uc010ogt.1_RNA|TMEM39B_uc010ogu.1_Silent_p.S88S|TMEM39B_uc001bue.3_Silent_p.S216S|TMEM39B_uc001buf.3_Silent_p.S16S|TMEM39B_uc010ogw.1_Silent_p.S16S	NM_018056	NP_060526	Q9GZU3	TM39B_HUMAN	transmembrane protein 39B	215						integral to membrane					0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GCAAGACAAGCCTCTTCAACC	0.632													14	36					0	0	0.004007	0	0		T	32557330	T	T	32557330	2	4	212	1	0	0	0	0	0	0	0	1	16187	738	26	2		2	TMEM39B	1	32557330	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	425841	32557330	216693291	36	103841											
IQCC	55721	broad.mit.edu	37	chr1	32673633	32673633	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacaaaggcaggctgtacaGgagaggaacagtggaggggc	13	4	17	7	0	0	1	0	0	0	1	0	4	0	3	0	7	3	3	0	7	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:32673633G>T	uc001bum.2	+	5	1398	c.1351G>T	c.(1351-1353)GGA>TGA	p.G451*	IQCC_uc009vua.2_Nonsense_Mutation_p.G531*|IQCC_uc010ogz.1_Nonsense_Mutation_p.G351*|DCDC2B_uc001bun.2_5'Flank	NM_018134	NP_060604	Q4KMZ1	IQCC_HUMAN	IQ motif containing C isoform 2	451										ovary(4)	4		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				AGGCTGTACAGGAGAGGAACA	0.498													13	29					9.05144e-12	9.99305e-12	0.001855	1	0		T	32673633	T	T	32673633	4	4	212	1	0	0	0	0	0	1	0	0	7820	1001	35	5	1609	5	IQCC	1	32673633	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	116303	32673633	216576988	37	103842											
DLGAP3	58512	broad.mit.edu	37	chr1	35331731	35331731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtagatctcgatgctgtcggCgctctcggtggccgagctgt	4	11	15	11	5	2	1	0	0	2	1	5	3	2	1	1	3	2	4	1	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:35331731C>T	uc001byc.2	-	10	2893	c.2893G>A	c.(2893-2895)GCC>ACC	p.A965T		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	965					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				ATGCTGTCGGCGCTCTCGGTG	0.507													6	30					0	0	0.00308	0	0		T	35331731	T	T	35331731	3	4	212	1	0	0	0	0	1	0	0	0	4567	768	27	1	50	1	DLGAP3	1	35331731	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2658098	35331731	213918890	38	103843											
ZC3H12A	80149	broad.mit.edu	37	chr1	37941105	37941105	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aggagtctgagctatgagtgGcccctgtggagagaagcctg	9	8	16	8	0	1	3	0	2	1	1	1	6	1	5	3	3	2	1	3	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:37941105G>A	uc001cbb.3	+	2	158	c.8G>A	c.(7-9)GGC>GAC	p.G3D		NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	3					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GCTATGAGTGGCCCCTGTGGA	0.607													30	100					0	0	0.003755	0	0		A	37941105	A	A	37941105	3	1	212	1	0	0	0	0	1	0	0	0	17586	1203	42	2	10	2	ZC3H12A	1	37941105	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2609374	37941105	211309516	39	103844											
INPP5B	3633	broad.mit.edu	37	chr1	38330097	38330097	+	Splice_Site	SNP	T	C	C	0	1	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	tggggagagtagaaatgaccTgaaagaggaagaaccgggat	16	5	16	4	1	0	6	0	2	0	4	0	9	0	8	2	4	1	1	2	4	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:38330097T>C	uc001ccg.1	-	23	2609	c.2515_splice	c.e23-1	p.V839_splice	INPP5B_uc009vvk.1_Intron|INPP5B_uc001ccf.1_Splice_Site_p.V675_splice	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AGAAATGACCTGAAAGAGGAA	0.393													4	18					0	0	0.000602	0	0		C	38330097	C	C	38330097	5	2	212	1	0	0	0	0	0	0	1	0	7771	1594	55	3	236	3	INPP5B	1	38330097	Splice_Site	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	388992	38330097	210920524	40	103845											
HPCAL4	51440	broad.mit.edu	37	chr1	40149645	40149645	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atctccaggcgcgtgatgcgCccgtcgccgtccaggtcgta	5	8	13	15	7	1	1	0	1	1	0	5	1	2	1	4	2	1	1	4	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:40149645C>T	uc001cdr.2	-	3	462	c.342G>A	c.(340-342)GGG>GGA	p.G114G	HPCAL4_uc010oix.1_Intron	NM_016257	NP_057341	Q9UM19	HPCL4_HUMAN	hippocalcin-like protein 4	114	EF-hand 3.|2 (Potential).				central nervous system development	intracellular	calcium ion binding			central_nervous_system(1)	1	all_cancers(7;4.65e-13)|Lung NSC(20;2.88e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GCGTGATGCGCCCGTCGCCGT	0.682													25	51					0	0	0.00632	0	0		T	40149645	T	T	40149645	2	4	212	1	0	0	0	0	0	0	0	1	7347	726	26	2		2	HPCAL4	1	40149645	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1819548	40149645	209100976	41	103846											
MYCL1	4610	broad.mit.edu	37	chr1	40363267	40363267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggtcattccgcctcttgCgctccaggaagttgtgattc	6	12	11	12	2	2	1	1	1	1	0	5	2	4	2	3	2	1	3	3	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:40363267C>T	uc001cer.1	-	3	1089	c.872G>A	c.(871-873)CGC>CAC	p.R291H	MYCL1_uc001ces.1_Missense_Mutation_p.R291H	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	291	Basic motif.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CCGCCTCTTGCGCTCCAGGAA	0.577			A		small cell lung 								26	105					0	0	0.004656	0	0		T	40363267	T	T	40363267	3	4	212	1	0	0	0	0	1	0	0	0	10038	768	27	1	226	1	MYCL1	1	40363267	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	213622	40363267	208887354	42	103847											
MYCL1	4610	broad.mit.edu	37	chr1	40366677	40366677	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcgcccagcggacagggggCggcgggcgccgggttgccgg	3	4	21	13	7	0	0	0	0	0	0	1	1	0	1	3	7	2	1	3	7	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:40366677C>T	uc001cer.1	-	2	647	c.430G>A	c.(430-432)GCC>ACC	p.A144T	MYCL1_uc001ces.1_Missense_Mutation_p.A144T|MYCL1_uc001cet.1_Missense_Mutation_p.A144T	NM_001033082	NP_001028254	P12524	MYCL1_HUMAN	l-myc-1 proto-oncogene isoform 1	144						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(1)|liver(1)	2	all_cancers(7;1.73e-14)|all_lung(5;2.77e-17)|all_epithelial(6;6.81e-17)|Lung SC(1;2.85e-13)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.51e-19)|Epithelial(16;3.36e-18)|all cancers(16;8.43e-17)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GGACAGGGGGCGGCGGGCGCC	0.761			A		small cell lung 								3	3					0	0	0.009096	0	0		T	40366677	T	T	40366677	3	4	212	1	0	0	0	0	1	0	0	0	10038	768	27	1	797	1	MYCL1	1	40366677	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3410	40366677	208883944	43	103848											
SCMH1	22955	broad.mit.edu	37	chr1	41540998	41540998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtcttgggtgtccggccccGcttctttcctggtttacgcc	1	14	12	14	3	2	0	0	0	2	0	4	0	4	0	5	4	1	2	5	4	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:41540998G>A	uc001cgo.2	-	9	1152	c.841C>T	c.(841-843)CGG>TGG	p.R281W	SCMH1_uc010ojr.1_Missense_Mutation_p.R123W|SCMH1_uc001cgp.2_Missense_Mutation_p.R220W|SCMH1_uc001cgr.2_Missense_Mutation_p.R220W|SCMH1_uc001cgs.2_Missense_Mutation_p.R291W|SCMH1_uc001cgt.2_Missense_Mutation_p.R220W|SCMH1_uc001cgq.2_Missense_Mutation_p.R234W|SCMH1_uc010ojs.1_RNA	NM_001031694	NP_001026864	Q96GD3	SCMH1_HUMAN	sex comb on midleg 1 isoform 1	281					anatomical structure morphogenesis|gene silencing|multicellular organismal development|negative regulation of transcription, DNA-dependent		DNA binding|sequence-specific DNA binding transcription factor activity				0	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)|Breast(333;0.162)	Myeloproliferative disorder(586;0.0393)				GTCCGGCCCCGCTTCTTTCCT	0.537													37	110					0	0	0.005524	0	0		A	41540998	A	A	41540998	3	1	212	1	0	0	0	0	1	0	0	0	13933	1086	38	1	1173	1	SCMH1	1	41540998	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1174321	41540998	207709623	44	103849											
TIE1	7075	broad.mit.edu	37	chr1	43783574	43783574	+	Missense_Mutation	SNP	A	G	G	1	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	ttacttgtatatcgctattgAatatgccccctacgggaacc	10	13	7	11	2	0	1	0	1	0	0	1	2	0	2	3	1	4	2	3	1	8	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:43783574A>G	uc001ciu.2	+	17	2832	c.2753A>G	c.(2752-2754)GAA>GGA	p.E918G	TIE1_uc010oke.1_Missense_Mutation_p.E873G|TIE1_uc009vwq.2_Missense_Mutation_p.E874G|TIE1_uc010okg.1_Missense_Mutation_p.E563G	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	918	Cytoplasmic (Potential).|Protein kinase.				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				ATCGCTATTGAATATGCCCCC	0.522													35	394					0	0	0.004289	0	0		G	43783574	G	G	43783574	3	3	212	1	0	0	0	0	1	0	0	0	15918	246	9	3	2819	3	TIE1	1	43783574	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2242576	43783574	205467047	45	103850											
MED8	112950	broad.mit.edu	37	chr1	43851888	43851888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttaaaggtctgcttgttcGgccggagacctgaagaaaaa	12	9	13	7	2	1	3	0	1	1	2	2	4	1	3	2	4	1	3	2	4	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:43851888G>A	uc001cjg.3	-	6	551	c.503C>T	c.(502-504)CCG>CTG	p.P168L	MED8_uc001cje.1_Missense_Mutation_p.P168L|MED8_uc001cjf.3_Missense_Mutation_p.P79L	NM_201542	NP_963836	Q96G25	MED8_HUMAN	mediator complex subunit 8 isoform 1	168					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				CTGCTTGTTCGGCCGGAGACC	0.507													20	47					0	0	0.007413	0	0		A	43851888	A	A	43851888	3	1	212	1	0	0	0	0	1	0	0	0	9471	1116	39	1	418	1	MED8	1	43851888	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	68314	43851888	205398733	46	103851											
KIAA0467	23334	broad.mit.edu	37	chr1	43914078	43914078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atcgactgcggctaggggggCgcctggccctggcagagctg	5	6	18	12	3	0	1	0	0	0	1	1	2	0	1	2	6	2	3	2	6	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:43914078C>T	uc001cjk.1	+	54	7657	c.7195C>T	c.(7195-7197)CGC>TGC	p.R2399C	KIAA0467_uc001cjl.1_Missense_Mutation_p.R387C	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	3298						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				GCTAGGGGGGCGCCTGGCCCT	0.652													5	5					0	0	0.000602	0	0		T	43914078	T	T	43914078	3	4	212	1	0	0	0	0	1	0	0	0	8194	768	27	1	7401	1	KIAA0467	1	43914078	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	62190	43914078	205336543	47	103852											
PTPRF	5792	broad.mit.edu	37	chr1	44072062	44072062	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctaccggggcttctacaaccGgcccctgtctccggacttga	6	9	10	16	3	2	1	0	1	2	0	3	2	2	2	5	4	3	1	5	4	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:44072062G>A	uc001cjr.2	+	20	3975	c.3635G>A	c.(3634-3636)CGG>CAG	p.R1212Q	PTPRF_uc001cjs.2_Missense_Mutation_p.R1203Q|PTPRF_uc001cju.2_Missense_Mutation_p.R590Q|PTPRF_uc009vwt.2_Missense_Mutation_p.R772Q|PTPRF_uc001cjv.2_Missense_Mutation_p.R672Q|PTPRF_uc001cjw.2_Missense_Mutation_p.R438Q	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1212	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TTCTACAACCGGCCCCTGTCT	0.582													68	173					0	0	0.01441	0	0		A	44072062	A	A	44072062	3	1	212	1	0	0	0	0	1	0	0	0	12826	1116	39	1	3705	1	PTPRF	1	44072062	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	157984	44072062	205178559	48	103853											
SLC6A9	6536	broad.mit.edu	37	chr1	44474227	44474227	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagaagaagtagtagaaggCgatgcagatgaccacattgt	15	7	13	6	2	0	5	0	1	0	4	0	7	0	5	1	1	1	3	1	1	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:44474227C>T	uc001cll.2	-	5	799	c.607G>A	c.(607-609)GCC>ACC	p.A203T	SLC6A9_uc009vxe.2_Missense_Mutation_p.A59T|SLC6A9_uc010okm.1_Missense_Mutation_p.A130T|SLC6A9_uc001clm.2_Missense_Mutation_p.A149T|SLC6A9_uc009vxd.2_RNA|SLC6A9_uc010okn.1_Missense_Mutation_p.A134T|SLC6A9_uc001cln.2_Missense_Mutation_p.A130T|SLC6A9_uc010oko.1_Missense_Mutation_p.A19T|SLC6A9_uc010okp.1_RNA	NM_201649	NP_964012	P48067	SC6A9_HUMAN	solute carrier family 6 member 9 isoform 2	203	Helical; Name=3; (Potential).					integral to plasma membrane|membrane fraction	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity				0	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0511)			Glycine(DB00145)	TAGTAGAAGGCGATGCAGATG	0.587													4	49					0	0	0.000602	0	0		T	44474227	T	T	44474227	3	4	212	1	0	0	0	0	1	0	0	0	14716	768	27	1	1553	1	SLC6A9	1	44474227	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	402165	44474227	204776394	49	103854											
MUTYH	4595	broad.mit.edu	37	chr1	45797368	45797368	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gcaccagcagaatttgggccCcaagggccccaggctgttcc	8	6	12	15	0	0	1	0	0	0	1	1	1	1	1	6	3	1	4	6	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:45797368C>A	uc001cnm.2	-	12	1358	c.1142G>T	c.(1141-1143)GGG>GTG	p.G381V	MUTYH_uc009vxn.2_Missense_Mutation_p.G206V|MUTYH_uc001cnf.2_Missense_Mutation_p.G356V|MUTYH_uc009vxo.2_Missense_Mutation_p.G356V|MUTYH_uc001cng.2_Missense_Mutation_p.G367V|MUTYH_uc001cnj.2_Missense_Mutation_p.G264V|MUTYH_uc001cni.2_Missense_Mutation_p.G356V|MUTYH_uc001cnh.2_Missense_Mutation_p.G357V|MUTYH_uc001cno.2_Missense_Mutation_p.G264V|MUTYH_uc001cnk.2_Missense_Mutation_p.G241V|MUTYH_uc010oll.1_Intron|MUTYH_uc001cnl.2_Missense_Mutation_p.G370V|MUTYH_uc009vxp.2_Missense_Mutation_p.G384V|MUTYH_uc001cnn.2_Missense_Mutation_p.G371V	NM_012222	NP_036354	Q9UIF7	MUTYH_HUMAN	mutY homolog isoform 1	381	Nudix hydrolase.				depurination|mismatch repair	nucleoplasm	4 iron, 4 sulfur cluster binding|DNA N-glycosylase activity|endonuclease activity|metal ion binding|MutSalpha complex binding				0	Acute lymphoblastic leukemia(166;0.155)					AATTTGGGCCCCAAGGGCCCC	0.612			Mis			colorectal		BER_DNA_glycosylases	MUTYH-associated_polyposis				5	78					1.23904e-05	1.29697e-05	0.000602	1	0		A	45797368	A	A	45797368	3	1	212	1	0	0	0	0	1	0	0	0	10011	623	22	5	518	5	MUTYH	1	45797368	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1323141	45797368	203453253	50	103855											
MMACHC	25974	broad.mit.edu	37	chr1	45973942	45973942	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggtgcaccccaaccgacGccccaagatcctggcccaga	10	3	10	18	3	0	2	0	0	0	2	1	4	1	2	7	2	2	1	7	2	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:45973942G>A	uc009vxv.2	+	3	484	c.335G>A	c.(334-336)CGC>CAC	p.R112H	MMACHC_uc001cny.2_RNA	NM_015506	NP_056321	Q9Y4U1	MMAC_HUMAN	methylmalonic aciduria (cobalamin deficiency)	112							cobalamin binding				0	Acute lymphoblastic leukemia(166;0.155)				Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	CCCAACCGACGCCCCAAGATC	0.562													13	73					0	0	0.00245	0	0		A	45973942	A	A	45973942	3	1	212	1	0	0	0	0	1	0	0	0	9659	1087	38	1	345	1	MMACHC	1	45973942	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	176574	45973942	203276679	51	103856											
CCDC17	149483	broad.mit.edu	37	chr1	46086449	46086449	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggattgatctctgccagtgtCtgtacagctgcatctcttgc	6	14	10	11	0	3	1	0	1	3	0	5	2	3	2	1	1	5	3	1	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:46086449C>T	uc010olt.1	-	12	1804	c.1656G>A	c.(1654-1656)CAG>CAA	p.Q552Q	CCDC17_uc009vxy.2_Silent_p.Q520Q|CCDC17_uc010ols.1_Silent_p.Q543Q|CCDC17_uc001com.3_Silent_p.Q373Q|CCDC17_uc001con.3_RNA|CCDC17_uc009vxz.2_Intron	NM_001114938	NP_001108410	Q96LX7	CCD17_HUMAN	coiled-coil domain containing 17	552										ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTGCCAGTGTCTGTACAGCTG	0.542													5	9					0	0	0.001984	0	0		T	46086449	T	T	46086449	2	4	212	1	0	0	0	0	0	0	0	1	2796	912	32	4		4	CCDC17	1	46086449	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	112507	46086449	203164172	52	103857											
SLC5A9	200010	broad.mit.edu	37	chr1	48701405	48701405	+	Silent	SNP	G	A	A	0	0	1	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	cctcgtctctccccaggtctGcgggggctgatgattgccgt	3	11	13	14	3	2	2	0	2	2	0	5	2	3	2	4	3	2	1	4	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:48701405G>A	uc001cro.2	+	10	1198	c.1146G>A	c.(1144-1146)CTG>CTA	p.L382L	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Silent_p.L407L|SLC5A9_uc010omt.1_Silent_p.L396L|SLC5A9_uc001crp.2_Silent_p.L49L|SLC5A9_uc010omu.1_Silent_p.L49L	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	382	Extracellular (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						CCCCAGGTCTGCGGGGGCTGA	0.582													14	46					0	0	0.003163	0	0		A	48701405	A	A	48701405	2	1	212	1	0	0	0	0	0	0	0	1	14697	1306	46	2		2	SLC5A9	1	48701405	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2614956	48701405	200549216	53	103858											
C8B	732	broad.mit.edu	37	chr1	57420464	57420464	+	Missense_Mutation	SNP	T	C	C	0	1	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	actggtctccacagtcattgTccccattgcaaagaagtctg	10	11	8	12	0	3	1	1	0	2	1	5	1	4	1	3	1	1	1	3	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:57420464T>C	uc001cyp.2	-	4	495	c.428A>G	c.(427-429)GAC>GGC	p.D143G	C8B_uc010oon.1_Missense_Mutation_p.D81G|C8B_uc010ooo.1_Missense_Mutation_p.D91G	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	143	LDL-receptor class A.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ACAGTCATTGTCCCCATTGCA	0.433													23	64					0	0	0.004656	0	0		C	57420464	C	C	57420464	3	2	212	1	0	0	0	0	1	0	0	0	2420	1667	58	3	1383	3	C8B	1	57420464	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	8719059	57420464	191830157	54	103859											
DAB1	1600	broad.mit.edu	37	chr1	57476396	57476396	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggcctgtggacttatattaTcaccactgggctccccactg	7	11	9	14	1	1	0	1	0	0	0	2	1	2	1	4	3	0	1	4	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:57476396T>C	uc001cys.1	-	16	2314	c.1640A>G	c.(1639-1641)GAT>GGT	p.D547G	DAB1_uc001cyt.1_Missense_Mutation_p.D545G|DAB1_uc001cyq.1_Missense_Mutation_p.D545G|DAB1_uc001cyr.1_Missense_Mutation_p.D461G|DAB1_uc009vzw.1_Missense_Mutation_p.D529G|DAB1_uc009vzx.1_Missense_Mutation_p.D547G	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1	580					cell differentiation|nervous system development					skin(2)|ovary(1)	3						ACTTATATTATCACCACTGGG	0.458													33	100					0	0	0.004289	0	0		C	57476396	C	C	57476396	3	2	212	1	0	0	0	0	1	0	0	0	4220	1435	50	3	31	3	DAB1	1	57476396	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	55932	57476396	191774225	55	103860											
JUN	3725	broad.mit.edu	37	chr1	59247823	59247823	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcatgactttctgtttaagcTgtgccacctgttccctgagc	6	15	8	12	0	2	2	1	2	1	0	3	2	3	2	3	0	3	3	3	0	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:59247823T>C	uc001cze.2	-	1	1963	c.920A>G	c.(919-921)CAG>CGG	p.Q307R	uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene	307	Leucine-zipper.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD protein signal transduction|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	CTGTTTAAGCTGTGCCACCTG	0.532			A		sarcoma						OREG0013518	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	122					0	0	0.003271	0	0		C	59247823	C	C	59247823	3	2	212	1	0	0	0	0	1	0	0	0	7985	1580	55	3	79	3	JUN	1	59247823	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1771427	59247823	190002798	56	103861											
INADL	10207	broad.mit.edu	37	chr1	62455951	62455951	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtaataaagaccgatcacGcatgagcatatttgtggtgg	12	11	12	6	2	1	2	1	1	0	1	1	3	1	2	1	3	1	3	1	3	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:62455951G>A	uc001dab.2	+	28	3896	c.3782G>A	c.(3781-3783)CGC>CAC	p.R1261H	INADL_uc009waf.1_Missense_Mutation_p.R1261H|INADL_uc001daa.2_Missense_Mutation_p.R1261H|INADL_uc001dad.3_Missense_Mutation_p.R958H|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.R45H|INADL_uc009wag.2_Missense_Mutation_p.R45H|INADL_uc010oou.1_5'UTR	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1261	PDZ 7.				intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GACCGATCACGCATGAGCATA	0.453													29	69					0	0	0.010818	0	0		A	62455951	A	A	62455951	3	1	212	1	0	0	0	0	1	0	0	0	7747	1087	38	1	3888	1	INADL	1	62455951	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3208128	62455951	186794670	57	103862											
INADL	10207	broad.mit.edu	37	chr1	62550223	62550223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctgtcagtggaccccgcaaCgtgtcccattgtccctggac	6	10	10	15	2	2	0	1	0	1	0	4	2	4	2	4	2	1	1	4	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:62550223C>T	uc001dab.2	+	33	4394	c.4280C>T	c.(4279-4281)ACG>ATG	p.T1427M	INADL_uc009waf.1_Missense_Mutation_p.T1427M|INADL_uc001daa.2_Missense_Mutation_p.T1427M|INADL_uc001dad.3_Missense_Mutation_p.T1124M|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.T211M|INADL_uc009wag.2_Missense_Mutation_p.T211M|INADL_uc010oou.1_Missense_Mutation_p.T100M	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1427					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GACCCCGCAACGTGTCCCATT	0.512													22	49					0	0	0.00333	0	0		T	62550223	T	T	62550223	3	4	212	1	0	0	0	0	1	0	0	0	7747	536	19	1	4406	1	INADL	1	62550223	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	94272	62550223	186700398	58	103863											
ANGPTL3	27329	broad.mit.edu	37	chr1	63070402	63070402	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagagaggagaagaggattaTcttggaagtctcaaaatgga	16	8	13	4	0	2	3	1	0	2	3	3	8	2	6	0	4	0	0	0	4	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:63070402T>C	uc001das.1	+	7	1348	c.1297T>C	c.(1297-1299)TCT>CCT	p.S433P	DOCK7_uc001dan.2_Intron|DOCK7_uc001dao.2_Intron|DOCK7_uc001dap.2_Intron|DOCK7_uc001daq.2_Intron|DOCK7_uc009wah.1_Intron	NM_014495	NP_055310	Q9Y5C1	ANGL3_HUMAN	angiopoietin-like 3 precursor	433	Fibrinogen C-terminal.				acylglycerol homeostasis|artery morphogenesis|cell-matrix adhesion|cholesterol homeostasis|cholesterol metabolic process|fatty acid metabolic process|glycerol metabolic process|integrin-mediated signaling pathway|lipid storage|negative regulation of lipoprotein lipase activity|negative regulation of phospholipase activity|phospholipid catabolic process|phospholipid homeostasis|positive regulation of angiogenesis|positive regulation of cell migration|positive regulation of lipid catabolic process|triglyceride homeostasis	extracellular space	cell surface binding|growth factor activity|integrin binding|phospholipase inhibitor activity				0						AAGAGGATTATCTTGGAAGTC	0.378													20	49					0	0	0.012319	0	0		C	63070402	C	C	63070402	3	2	212	1	0	0	0	0	1	0	0	0	615	1435	50	3	1323	3	ANGPTL3	1	63070402	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	520179	63070402	186180219	59	103864											
SLC44A5	204962	broad.mit.edu	37	chr1	75740675	75740675	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccttctggccacaaaagtgGccctggctgtctgtaggata	8	10	11	12	0	2	0	0	0	2	0	2	1	2	1	3	4	0	2	3	4	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:75740675G>A	uc001dgu.2	-	6	372	c.228C>T	c.(226-228)GGC>GGT	p.G76G	SLC44A5_uc001dgt.2_Silent_p.G76G|SLC44A5_uc001dgs.2_Silent_p.G34G|SLC44A5_uc001dgr.2_Silent_p.G34G|SLC44A5_uc010oqz.1_Silent_p.G115G|SLC44A5_uc010ora.1_Silent_p.G70G|SLC44A5_uc010orb.1_Intron	NM_152697	NP_689910	Q8NCS7	CTL5_HUMAN	solute carrier family 44, member 5 isoform A	76	Extracellular (Potential).					integral to membrane|plasma membrane	choline transmembrane transporter activity			ovary(2)|skin(2)	4						CACAAAAGTGGCCCTGGCTGT	0.478													5	33					0	0	0.000602	0	0		A	75740675	A	A	75740675	2	1	212	1	0	0	0	0	0	0	0	1	14664	1190	42	2		2	SLC44A5	1	75740675	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	12670273	75740675	173509946	60	103865											
ACADM	34	broad.mit.edu	37	chr1	76215155	76215155	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagaggaattgtcttcgaaGatgtgaaagtgcctaaagaa	15	10	11	5	1	1	4	0	1	1	3	2	6	1	5	1	1	1	0	1	1	7	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:76215155G>T	uc001dgw.3	+	9	1190	c.760G>T	c.(760-762)GAT>TAT	p.D254Y	ACADM_uc010ord.1_Missense_Mutation_p.D168Y|ACADM_uc009wbp.2_Missense_Mutation_p.D258Y|ACADM_uc009wbr.2_Missense_Mutation_p.D287Y|ACADM_uc010ore.1_Missense_Mutation_p.D218Y|ACADM_uc010orf.1_Missense_Mutation_p.D65Y|ACADM_uc001dgx.3_Missense_Mutation_p.D168Y|ACADM_uc010org.1_Missense_Mutation_p.D124Y|ACADM_uc009wbs.1_RNA	NM_000016	NP_000007	P11310	ACADM_HUMAN	medium-chain acyl-CoA dehydrogenase isoform a	254					carnitine biosynthetic process|carnitine metabolic process, CoA-linked|fatty acid beta-oxidation using acyl-CoA dehydrogenase|medium-chain fatty acid catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|identical protein binding|medium-chain-acyl-CoA dehydrogenase activity			breast(2)|ovary(1)|skin(1)	4						TGTCTTCGAAGATGTGAAAGT	0.348													21	87					5.26018e-13	5.87808e-13	0.012319	1	0		T	76215155	T	T	76215155	3	4	212	1	0	0	0	0	1	0	0	0	113	942	33	5	806	5	ACADM	1	76215155	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	474480	76215155	173035466	61	103866											
GIPC2	54810	broad.mit.edu	37	chr1	78585146	78585146	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtggaagggcaacacttcGcctgagatcaaaaggtcctg	11	9	12	9	1	1	1	1	1	0	1	3	3	2	2	2	3	1	1	2	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:78585146G>A	uc001dik.2	+	4	867	c.677G>A	c.(676-678)CGC>CAC	p.R226H		NM_017655	NP_060125	Q8TF65	GIPC2_HUMAN	PDZ domain protein GIPC2	226						cytoplasm				ovary(1)	1						GCAACACTTCGCCTGAGATCA	0.398													4	37					0	0	0.000602	0	0		A	78585146	A	A	78585146	3	1	212	1	0	0	0	0	1	0	0	0	6408	1087	38	1	691	1	GIPC2	1	78585146	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2369991	78585146	170665475	62	103867											
LPHN2	23266	broad.mit.edu	37	chr1	82456582	82456582	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttatacaagcatgcccaatcTtagagactctccctatccgg	11	11	6	13	1	2	1	0	0	2	1	4	2	3	1	3	1	3	1	3	1	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:82456582T>G	uc001dit.3	+	21	4146	c.3965T>G	c.(3964-3966)CTT>CGT	p.L1322R	LPHN2_uc001dis.2_Missense_Mutation_p.L302R|LPHN2_uc001diu.2_Missense_Mutation_p.L1322R|LPHN2_uc001div.2_3'UTR|LPHN2_uc009wcd.2_3'UTR|LPHN2_uc001diw.2_Missense_Mutation_p.L949R	NM_012302	NP_036434	O95490	LPHN2_HUMAN	latrophilin 2 precursor	1378	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|latrotoxin receptor activity|sugar binding			ovary(3)|lung(3)|breast(2)|central_nervous_system(1)	9				all cancers(265;0.00142)|Epithelial(280;0.00829)|OV - Ovarian serous cystadenocarcinoma(397;0.077)|STAD - Stomach adenocarcinoma(256;0.248)		ATGCCCAATCTTAGAGACTCT	0.468													25	59					0	0	0.007291	0	0		G	82456582	G	G	82456582	3	3	212	1	0	0	0	0	1	0	0	0	8934	1609	56	5	4039	5	LPHN2	1	82456582	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3871436	82456582	166794039	63	103868											
COL24A1	255631	broad.mit.edu	37	chr1	86515849	86515849	+	Silent	SNP	G	T	T	0	0	1	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	tgtcccgcttctccaggagaGccaataaaacccttaaaaca	14	8	6	13	1	1	1	0	0	1	1	3	2	2	1	4	1	3	1	4	1	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:86515849G>T	uc001dlj.2	-	11	1905	c.1863C>A	c.(1861-1863)GGC>GGA	p.G621G	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Silent_p.G621G	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	621					cell adhesion	collagen	extracellular matrix structural constituent			ovary(3)|central_nervous_system(1)|skin(1)	5				all cancers(265;0.0627)|Epithelial(280;0.0689)		CTCCAGGAGAGCCAATAAAAC	0.343													20	87					6.12954e-19	7.06455e-19	0.004656	1	0		T	86515849	T	T	86515849	2	4	212	1	0	0	0	0	0	0	0	1	3686	958	34	5		5	COL24A1	1	86515849	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4059267	86515849	162734772	64	103869											
PKN2	5586	broad.mit.edu	37	chr1	89237165	89237165	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttaaggcatcattttaggatAgagtttgcagtagcagaagg	13	12	12	4	0	1	2	1	0	0	2	1	3	1	3	0	3	2	5	0	3	5	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:89237165A>G	uc001dmn.2	+	5	1026	c.684A>G	c.(682-684)ATA>ATG	p.I228M	PKN2_uc001dmm.1_Missense_Mutation_p.I228M|PKN2_uc010osp.1_Missense_Mutation_p.I228M|PKN2_uc010osq.1_Missense_Mutation_p.I71M|PKN2_uc009wcv.2_Missense_Mutation_p.I228M	NM_006256	NP_006247	Q16513	PKN2_HUMAN	protein kinase N2	228	REM 3.				signal transduction	cytoplasm	ATP binding|histone deacetylase binding|protein kinase C activity			large_intestine(1)|lung(1)|skin(1)	3		Lung NSC(277;0.123)		all cancers(265;0.0136)|Epithelial(280;0.0301)		ATTTTAGGATAGAGTTTGCAG	0.323													19	63					0	0	0.003954	0	0		G	89237165	G	G	89237165	3	3	212	1	0	0	0	0	1	0	0	0	11999	410	15	3	702	3	PKN2	1	89237165	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2721316	89237165	160013456	65	103870											
LRRC8D	55144	broad.mit.edu	37	chr1	90399442	90399442	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctgtgattgaagttcccaGcatgacaatcctggataaaa	13	10	9	9	0	0	3	0	3	0	0	2	4	2	4	3	1	1	2	3	1	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:90399442G>A	uc001dnm.2	+	3	1240	c.815G>A	c.(814-816)AGC>AAC	p.S272N	LRRC8D_uc001dnn.2_Missense_Mutation_p.S272N	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	272						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		GAAGTTCCCAGCATGACAATC	0.458													5	15					0	0	0.000602	0	0		A	90399442	A	A	90399442	3	1	212	1	0	0	0	0	1	0	0	0	9042	971	34	2	817	2	LRRC8D	1	90399442	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1162277	90399442	158851179	66	103871											
LPPR4	9890	broad.mit.edu	37	chr1	99771789	99771789	+	Silent	SNP	G	A	A	0	0	1	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	aatcagtacctcaaaatccaGcctggcgctgtccccggatg	10	8	9	14	2	2	0	2	0	0	0	4	1	4	1	5	2	2	2	5	2	4	1	rs148412092		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:99771789G>A	uc001dse.2	+	7	1621	c.1515G>A	c.(1513-1515)CAG>CAA	p.Q505Q	LPPR4_uc010oue.1_Silent_p.Q447Q	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	505							phosphatidate phosphatase activity			ovary(3)	3		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)		TCAAAATCCAGCCTGGCGCTG	0.567													55	238					0	0	0.01441	0	0		A	99771789	A	A	99771789	2	1	212	1	0	0	0	0	0	0	0	1	8945	962	34	2		2	LPPR4	1	99771789	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9372347	99771789	149478832	67	103872											
LPPR4	9890	broad.mit.edu	37	chr1	99771907	99771907	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggagactcaggaaaacataAgcacctcccccaaaagcagc	17	3	8	13	0	1	1	1	0	0	1	2	3	2	2	3	2	4	2	3	2	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:99771907A>C	uc001dse.2	+	7	1739	c.1633A>C	c.(1633-1635)AGC>CGC	p.S545R	LPPR4_uc010oue.1_Missense_Mutation_p.S487R	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	545							phosphatidate phosphatase activity			ovary(3)	3		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)		GGAAAACATAAGCACCTCCCC	0.537													33	114					0	0	0.010818	0	0		C	99771907	C	C	99771907	3	2	212	1	0	0	0	0	1	0	0	0	8945	72	3	5	1659	5	LPPR4	1	99771907	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	118	99771907	149478714	68	103873											
PALMD	54873	broad.mit.edu	37	chr1	100154805	100154805	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tccgccagtgcctcatccccGatcagtgattcaacaagcag	10	8	8	15	2	3	1	3	1	0	0	5	2	5	1	5	0	3	1	5	0	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:100154805G>A	uc001dsg.2	+	7	1432	c.989G>A	c.(988-990)CGA>CAA	p.R330Q	PALMD_uc001dsf.2_Missense_Mutation_p.R330Q	NM_017734	NP_060204	Q9NP74	PALMD_HUMAN	palmdelphin	330					regulation of cell shape	cytoplasm|membrane				ovary(2)|pancreas(1)	3		all_epithelial(167;0.000813)|all_lung(203;0.0214)|Lung NSC(277;0.0216)		Epithelial(280;0.067)|all cancers(265;0.117)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)		CCTCATCCCCGATCAGTGATT	0.468													27	31					0	0	0.010818	0	0		A	100154805	A	A	100154805	3	1	212	1	0	0	0	0	1	0	0	0	11430	1058	37	1	1015	1	PALMD	1	100154805	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	382898	100154805	149095816	69	103874											
AGL	178	broad.mit.edu	37	chr1	100347173	100347173	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	catccatcagtctgttgtggCtgtatctagaactgctttca	8	15	8	10	0	4	1	2	0	2	1	5	1	5	1	1	1	2	4	1	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:100347173C>A	uc001dsi.1	+	17	2634	c.2234C>A	c.(2233-2235)GCT>GAT	p.A745D	AGL_uc001dsj.1_Missense_Mutation_p.A745D|AGL_uc001dsk.1_Missense_Mutation_p.A745D|AGL_uc001dsl.1_Missense_Mutation_p.A745D|AGL_uc001dsm.1_Missense_Mutation_p.A729D|AGL_uc001dsn.1_Missense_Mutation_p.A728D	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	745	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		TCTGTTGTGGCTGTATCTAGA	0.418													34	100					3.28013e-08	3.50542e-08	0.004878	1	0		A	100347173	A	A	100347173	3	1	212	1	0	0	0	0	1	0	0	0	384	797	28	5	2365	5	AGL	1	100347173	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	192368	100347173	148903448	70	103875											
AGL	178	broad.mit.edu	37	chr1	100378009	100378009	+	Silent	SNP	C	T	T	0	0	0	1	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	ctgagtaaatctgctgttcgCtggttgctggaattatccaa	9	14	10	8	1	1	1	0	1	1	0	3	2	2	2	1	2	2	6	1	2	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:100378009C>T	uc001dsi.1	+	29	4285	c.3885C>T	c.(3883-3885)CGC>CGT	p.R1295R	AGL_uc001dsj.1_Silent_p.R1295R|AGL_uc001dsk.1_Silent_p.R1295R|AGL_uc001dsl.1_Silent_p.R1295R|AGL_uc001dsm.1_Silent_p.R1279R|AGL_uc001dsn.1_Silent_p.R1278R	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1295	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		CTGCTGTTCGCTGGTTGCTGG	0.338													20	57					0	0	0.003954	0	0		T	100378009	T	T	100378009	2	4	212	1	0	0	0	0	0	0	0	1	384	784	28	2		2	AGL	1	100378009	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	30836	100378009	148872612	71	103876											
AGL	178	broad.mit.edu	37	chr1	100387188	100387188	+	Missense_Mutation	SNP	A	G	G	1	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	gtcaattgctactattcttgAgacactttatgatttatagt	11	18	6	6	0	2	2	1	2	1	1	2	3	2	2	0	0	2	1	0	0	6	10			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:100387188A>G	uc001dsi.1	+	34	4980	c.4580A>G	c.(4579-4581)GAG>GGG	p.E1527G	AGL_uc001dsj.1_Missense_Mutation_p.E1527G|AGL_uc001dsk.1_Missense_Mutation_p.E1527G|AGL_uc001dsl.1_Missense_Mutation_p.E1527G|AGL_uc001dsm.1_Missense_Mutation_p.E1511G|AGL_uc001dsn.1_Missense_Mutation_p.E1510G	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1527	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		ACTATTCTTGAGACACTTTAT	0.378													16	48					0	0	0.003163	0	0		G	100387188	G	G	100387188	3	3	212	1	0	0	0	0	1	0	0	0	384	304	11	3	4779	3	AGL	1	100387188	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	9179	100387188	148863433	72	103877											
DBT	1629	broad.mit.edu	37	chr1	100661908	100661908	+	Missense_Mutation	SNP	T	C	C	0	1	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	caccatcaataactctgtgaTcagctgaccagctcacattc	12	10	5	14	0	4	2	3	2	1	0	5	2	4	2	2	0	3	2	2	0	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:100661908T>C	uc001dta.2	-	11	1385	c.1352A>G	c.(1351-1353)GAT>GGT	p.D451G	DBT_uc010oug.1_Missense_Mutation_p.D270G	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	451					branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		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)		AACTCTGTGATCAGCTGACCA	0.323													33	77					0	0	0.006999	0	0		C	100661908	C	C	100661908	3	2	212	1	0	0	0	0	1	0	0	0	4261	1435	50	3	100	3	DBT	1	100661908	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	274720	100661908	148588713	73	103878											
DBT	1629	broad.mit.edu	37	chr1	100684199	100684199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacattgttttccattgccaGacggcgaactgcaggagttg	9	12	11	9	2	0	1	0	0	0	1	1	3	1	2	2	2	4	3	2	2	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:100684199G>A	uc001dta.2	-	5	571	c.538C>T	c.(538-540)CTG>TTG	p.L180L	DBT_uc010oug.1_5'UTR	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	180					branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		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)		TCCATTGCCAGACGGCGAACT	0.393													31	117					0	0	0.003271	0	0		A	100684199	A	A	100684199	2	1	212	1	0	0	0	0	0	0	0	1	4261	933	33	4		4	DBT	1	100684199	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	22291	100684199	148566422	74	103879											
VCAM1	7412	broad.mit.edu	37	chr1	101200253	101200253	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaggcccagttgaaggatgCgggagtatatgaatgtgaat	14	9	14	4	1	0	3	0	3	0	0	0	5	0	5	1	3	1	2	1	3	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:101200253C>T	uc001dti.2	+	8	2108	c.1988C>T	c.(1987-1989)GCG>GTG	p.A663V	VCAM1_uc001dtj.2_Missense_Mutation_p.A571V|VCAM1_uc010ouj.1_Missense_Mutation_p.A601V	NM_001078	NP_001069	P19320	VCAM1_HUMAN	vascular cell adhesion molecule 1 isoform a	663	Ig-like C2-type 7.|Extracellular (Potential).				heterophilic cell-cell adhesion|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|leukocyte tethering or rolling|membrane to membrane docking|positive regulation of T cell proliferation|regulation of immune response	alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex|apical part of cell|external side of plasma membrane|extracellular space|filopodium|integral to membrane|microvillus|podosome	cell adhesion molecule binding|integrin binding			central_nervous_system(1)	1		all_epithelial(167;3.83e-06)|all_lung(203;0.000485)|Lung NSC(277;0.0011)		Epithelial(280;0.0227)|all cancers(265;0.0276)|COAD - Colon adenocarcinoma(174;0.149)|Colorectal(144;0.169)|Lung(183;0.196)	Carvedilol(DB01136)	TTGAAGGATGCGGGAGTATAT	0.378													13	59					0	0	0.00245	0	0		T	101200253	T	T	101200253	3	4	212	1	0	0	0	0	1	0	0	0	17163	768	27	1	2018	1	VCAM1	1	101200253	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	516054	101200253	148050368	75	103880											
COL11A1	1301	broad.mit.edu	37	chr1	103540264	103540264	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcacttctatcaagtggtttCgtggttttcttcttacaatc	7	19	6	9	1	5	0	2	0	3	0	7	0	5	0	0	2	1	2	0	2	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:103540264C>T	uc001dul.2	-	4	879	c.561G>A	c.(559-561)ACG>ACA	p.T187T	COL11A1_uc001dum.2_Silent_p.T187T|COL11A1_uc001dun.2_Silent_p.T187T|COL11A1_uc009weh.2_Silent_p.T187T	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	187	TSP N-terminal.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CAAGTGGTTTCGTGGTTTTCT	0.358													12	43					0	0	0.010729	0	0		T	103540264	T	T	103540264	2	4	212	1	0	0	0	0	0	0	0	1	3670	871	31	1		1	COL11A1	1	103540264	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2340011	103540264	145710357	76	103881											
RNPC3	55599	broad.mit.edu	37	chr1	104093657	104093657	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaaaagccttaaaggaaGctaatggatatgtgcttttt	14	12	9	6	0	0	0	0	0	0	0	0	2	0	2	1	2	4	3	1	2	7	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:104093657G>T	uc010oul.1	+	13	1571	c.1456G>T	c.(1456-1458)GCT>TCT	p.A486S	RNPC3_uc010oum.1_Missense_Mutation_p.A485S|RNPC3_uc010oun.1_Missense_Mutation_p.A486S|AMY2B_uc010ouo.1_RNA	NM_017619	NP_060089	Q96LT9	RBM40_HUMAN	RNA-binding region (RNP1, RRM) containing 3	486	RRM 2.				mRNA processing	U12-type spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Lung(183;0.111)|Epithelial(280;0.122)|all cancers(265;0.125)|Colorectal(144;0.163)		CTTAAAGGAAGCTAATGGATA	0.328													8	18					5.4927e-09	5.92515e-09	0.004482	1	0		T	104093657	T	T	104093657	3	4	212	1	0	0	0	0	1	0	0	0	13533	971	34	5	345	5	RNPC3	1	104093657	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	553393	104093657	145156964	77	103882											
AMY2B	280	broad.mit.edu	37	chr1	104114744	104114744	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttgtaggtctctccaccaAatgaaaatgttgcaattcac	13	13	6	9	0	2	1	1	1	1	0	4	1	3	1	2	1	1	3	2	1	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:104114744A>T	uc001duq.2	+	4	797	c.181A>T	c.(181-183)AAT>TAT	p.N61Y	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Missense_Mutation_p.N61Y	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	61					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		CTCTCCACCAAATGAAAATGT	0.313													42	87					0	0	0.01441	0	0		T	104114744	T	T	104114744	3	4	212	1	0	0	0	0	1	0	0	0	595	14	1	5	187	5	AMY2B	1	104114744	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	21087	104114744	145135877	78	103883											
CELSR2	1952	broad.mit.edu	37	chr1	109814954	109814954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggctgtaccagccctacggaGactcggccggctctctgcac	6	7	12	16	3	1	1	0	0	1	1	3	2	1	1	3	4	4	4	3	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:109814954G>A	uc001dxa.3	+	29	8042	c.7981G>A	c.(7981-7983)GAC>AAC	p.D2661N		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	2661	Cytoplasmic (Potential).				dendrite morphogenesis|homophilic cell adhesion|neural plate anterior/posterior regionalization|neuropeptide signaling pathway|regulation of cell-cell adhesion|regulation of transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(4)|lung(3)|skin(1)	8		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0296)|Lung(183;0.067)|COAD - Colon adenocarcinoma(174;0.114)|Epithelial(280;0.193)|all cancers(265;0.219)		GCCCTACGGAGACTCGGCCGG	0.627													55	126					0	0	0.01441	0	0		A	109814954	A	A	109814954	3	1	212	1	0	0	0	0	1	0	0	0	3225	942	33	4	8095	4	CELSR2	1	109814954	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5700210	109814954	139435667	79	103884											
RBM15	64783	broad.mit.edu	37	chr1	110884271	110884271	+	Silent	SNP	C	A	A	0	0	0	1	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	cctctgaaaaaagaagaccgCtctgatgggagtgcacctag	13	7	11	10	1	2	4	0	2	2	2	2	5	2	5	3	1	1	2	3	1	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:110884271C>A	uc001dzl.1	+	1	2327	c.2244C>A	c.(2242-2244)CGC>CGA	p.R748R	RBM15_uc001dzm.1_Silent_p.R748R|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	748					interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		AAGAAGACCGCTCTGATGGGA	0.557			T	MKL1	acute megakaryocytic leukemia								34	62					1.21669e-08	1.30941e-08	0.003271	1	0		A	110884271	A	A	110884271	2	1	212	1	0	0	0	0	0	0	0	1	13141	784	28	5		5	RBM15	1	110884271	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1069317	110884271	138366350	80	103885											
CHIA	27159	broad.mit.edu	37	chr1	111854874	111854874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtaccggccaggcctggggCgcttcatgcctgacaacatc	8	7	12	14	2	1	1	1	1	0	0	2	1	1	1	4	4	3	2	4	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:111854874C>T	uc001eas.2	+	4	221	c.118C>T	c.(118-120)CGC>TGC	p.R40C	CHIA_uc001ear.2_Intron|CHIA_uc001eaq.2_Intron|CHIA_uc009wgc.2_Intron|CHIA_uc001eat.2_Intron|CHIA_uc001eav.2_Intron|CHIA_uc001eau.2_Intron|CHIA_uc009wgd.2_Intron	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	40					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		AGGCCTGGGGCGCTTCATGCC	0.572													23	100					0	0	0.004656	0	0		T	111854874	T	T	111854874	3	4	212	1	0	0	0	0	1	0	0	0	3345	768	27	1	128	1	CHIA	1	111854874	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	970603	111854874	137395747	81	103886											
KCND3	3752	broad.mit.edu	37	chr1	112321089	112321089	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	aggttcgtacagataacaggGgatcatccacaagataggac	15	7	11	8	1	1	2	1	0	0	2	3	4	2	4	1	4	2	2	1	4	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:112321089G>T	uc001ebu.1	-	6	1967	c.1487C>A	c.(1486-1488)CCC>CAC	p.P496H	KCND3_uc001ebv.1_Intron	NM_004980	NP_004971	Q9UK17	KCND3_HUMAN	potassium voltage-gated channel, Shal-related	496	Cytoplasmic (Potential).					sarcolemma|voltage-gated potassium channel complex	A-type (transient outward) potassium channel activity|metal ion binding			ovary(2)|large_intestine(1)	3		all_cancers(81;8.52e-06)|all_epithelial(167;5.65e-06)|all_lung(203;2.72e-05)|Lung NSC(69;4.56e-05)		all cancers(265;0.056)|Lung(183;0.0576)|Colorectal(144;0.1)|Epithelial(280;0.104)|COAD - Colon adenocarcinoma(174;0.222)|LUSC - Lung squamous cell carcinoma(189;0.231)		AGATAACAGGGGATCATCCAC	0.398													22	64					3.5997e-14	4.05214e-14	0.014323	1	0		T	112321089	T	T	112321089	3	4	212	1	0	0	0	0	1	0	0	0	8036	1232	43	5	492	5	KCND3	1	112321089	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	466215	112321089	136929532	82	103887											
HIPK1	204851	broad.mit.edu	37	chr1	114512812	114512812	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gactgcactgtagcaacccaGgcctcaggtcagtgttatct	9	10	10	12	0	3	0	2	0	1	0	3	1	3	0	2	2	3	4	2	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:114512812G>T	uc001eem.2	+	14	3167	c.3006G>T	c.(3004-3006)CAG>CAT	p.Q1002H	HIPK1_uc001eel.2_Missense_Mutation_p.Q1002H|HIPK1_uc001een.2_Missense_Mutation_p.Q1002H|HIPK1_uc001eeo.2_Missense_Mutation_p.Q628H|HIPK1_uc001eep.2_Missense_Mutation_p.Q608H|HIPK1_uc001eeq.2_Missense_Mutation_p.Q294H	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	1002	Interaction with TP53.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		TAGCAACCCAGGCCTCAGGTC	0.478													22	50					8.24728e-16	9.39914e-16	0.004656	1	0		T	114512812	T	T	114512812	3	4	212	1	0	0	0	0	1	0	0	0	7132	991	35	5	3074	5	HIPK1	1	114512812	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2191723	114512812	134737809	83	103888											
HIPK1	204851	broad.mit.edu	37	chr1	114515787	114515787	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgctacactcgacagggcacCcacaccttgccccggcccct	7	5	8	21	3	0	0	0	0	0	0	1	1	0	0	6	2	2	2	6	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:114515787C>A	uc001eem.2	+	16	3447	c.3286C>A	c.(3286-3288)CCA>ACA	p.P1096T	HIPK1_uc001een.2_Missense_Mutation_p.P1096T|HIPK1_uc001eeo.2_Missense_Mutation_p.P722T|HIPK1_uc001eep.2_Missense_Mutation_p.P702T|HIPK1_uc001eeq.2_Missense_Mutation_p.P388T	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	1096					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(4)	4	Lung SC(450;0.184)	all_cancers(81;4.5e-08)|all_epithelial(167;1.09e-07)|all_lung(203;1.53e-05)|Lung NSC(69;2.76e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|all cancers(265;0.0792)|Epithelial(280;0.0866)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)		GACAGGGCACCCACACCTTGC	0.652													33	122					9.80977e-26	1.14645e-25	0.004289	1	0		A	114515787	A	A	114515787	3	1	212	1	0	0	0	0	1	0	0	0	7132	623	22	5	3446	5	HIPK1	1	114515787	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2975	114515787	134734834	84	103889											
ADAM30	11085	broad.mit.edu	37	chr1	120438692	120438692	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttctgtgaaggagaaaaCgcgcagatgtcggggcaaca	13	7	14	7	3	1	3	0	1	1	2	2	4	1	3	0	3	2	3	0	3	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:120438692C>T	uc001eij.2	-	1	422	c.268G>A	c.(268-270)GTT>ATT	p.V90I		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	90					proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		AAGGAGAAAACGCGCAGATGT	0.517													15	53					0	0	0.003163	0	0		T	120438692	T	T	120438692	3	4	212	1	0	0	0	0	1	0	0	0	248	536	19	1	2108	1	ADAM30	1	120438692	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5922905	120438692	128811929	85	103890											
NOTCH2	4853	broad.mit.edu	37	chr1	120458008	120458008	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgacctcctccagcacccCcaggggtagggctggtggtc	5	7	14	15	0	0	1	0	1	0	0	3	1	2	1	5	5	1	4	5	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:120458008C>A	uc001eik.2	-	34	7593	c.7337G>T	c.(7336-7338)GGG>GTG	p.G2446V		NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	2446	Cytoplasmic (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TCCAGCACCCCCAGGGGTAGG	0.582			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				23	102					2.70639e-06	2.8508e-06	0.014323	1	0		A	120458008	A	A	120458008	3	1	212	1	0	0	0	0	1	0	0	0	10567	623	22	5	82	5	NOTCH2	1	120458008	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	19316	120458008	128792613	86	103891											
NOTCH2	4853	broad.mit.edu	37	chr1	120479990	120479990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	actcatcgagttgctcctcaCagtagctcccagtatagccc	9	10	7	15	1	2	0	2	0	0	0	5	1	4	0	3	0	3	5	3	0	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:120479990C>T	uc001eik.2	-	21	3693	c.3437G>A	c.(3436-3438)TGT>TAT	p.C1146Y	NOTCH2_uc001eil.2_Missense_Mutation_p.C1146Y	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1146	EGF-like 29.|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		TTGCTCCTCACAGTAGCTCCC	0.557			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				33	71					0	0	0.012213	0	0		T	120479990	T	T	120479990	3	4	212	1	0	0	0	0	1	0	0	0	10567	478	17	4	4034	4	NOTCH2	1	120479990	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	21982	120479990	128770631	87	103892											
NOTCH2	4853	broad.mit.edu	37	chr1	120510772	120510772	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	tgggcaggtgcaaatatattGcccatttagggggttggtgt	8	13	15	5	0	0	0	0	0	0	0	0	0	0	0	1	5	2	3	1	5	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:120510772G>A	uc001eik.2	-	7	1448	c.1192C>T	c.(1192-1194)CAA>TAA	p.Q398*	NOTCH2_uc001eil.2_Nonsense_Mutation_p.Q398*|NOTCH2_uc001eim.3_Nonsense_Mutation_p.Q315*	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	398	EGF-like 10.|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		CAAATATATTGCCCATTTAGG	0.517			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome		OREG0013734	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	50					0	0	0.008291	0	0		A	120510772	A	A	120510772	4	1	212	1	0	0	0	0	0	1	0	0	10567	1328	46	2	6335	2	NOTCH2	1	120510772	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	30782	120510772	128739849	88	103893											
PDE4DIP	9659	broad.mit.edu	37	chr1	145039616	145039616	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtctgctccattttccaGgctctttccttagtctcagg	5	15	8	13	0	3	0	1	0	3	0	7	0	6	0	3	3	1	2	3	3	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:145039616G>T	uc001elx.3	-	1	329	c.-6C>A	c.(-8--4)GCCTG>GCATG		NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elm.3_Translation_Start_Site|PDE4DIP_uc001eln.3_Translation_Start_Site|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform						cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CCATTTTCCAGGCTCTTTCCT	0.612			T	PDGFRB	MPD								4	76					1.024e-07	1.09306e-07	0.000602	1	0		T	145039616	T	T	145039616	1	4	212	1	0	0	0	0	0	0	0	0	11662	1015	35	5		5	PDE4DIP	1	145039616	Translation_Start_Site	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	24528844	145039616	104211005	89	103894											
ITGA10	8515	broad.mit.edu	37	chr1	145532147	145532147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagtcagtcccatgggggccGacccgaggctgccaggctac	7	5	14	15	2	1	0	1	0	0	0	2	2	2	0	4	4	2	2	4	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:145532147G>A	uc001eoa.2	+	8	867	c.791G>A	c.(790-792)CGA>CAA	p.R264Q	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Missense_Mutation_p.R133Q|ITGA10_uc009wiw.2_Missense_Mutation_p.R121Q|ITGA10_uc010oyw.1_Missense_Mutation_p.R209Q	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	264	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					CATGGGGGCCGACCCGAGGCT	0.488													38	91					0	0	0.00874	0	0		A	145532147	A	A	145532147	3	1	212	1	0	0	0	0	1	0	0	0	7889	1058	37	1	821	1	ITGA10	1	145532147	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	492531	145532147	103718474	90	103895											
POLR3C	10623	broad.mit.edu	37	chr1	145594051	145594051	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcttacttgttgacattaCgtttcagggtctctagctgc	7	16	9	9	1	2	1	1	1	1	0	3	1	2	1	0	1	5	4	0	1	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:145594051C>T	uc001eoh.2	-	14	1672	c.1511G>A	c.(1510-1512)CGT>CAT	p.R504H	NBPF10_uc001emp.3_Intron|POLR3C_uc001eog.2_Missense_Mutation_p.R517H|POLR3C_uc001eoi.2_RNA|POLR3C_uc009wix.2_Intron	NM_006468	NP_006459	Q9BUI4	RPC3_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	504					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|regulation of transcription from RNA polymerase III promoter|response to virus	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)		Epithelial(2;7.55e-13)			GTTGACATTACGTTTCAGGGT	0.443													48	152					0	0	0.01441	0	0		T	145594051	T	T	145594051	3	4	212	1	0	0	0	0	1	0	0	0	12249	536	19	1	101	1	POLR3C	1	145594051	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	61904	145594051	103656570	91	103896											
NBPF14	25832	broad.mit.edu	37	chr1	148015781	148015781	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaggccctttctcatccaGcagctctctgctgagcctgg	5	12	9	15	0	3	1	2	1	2	0	6	1	4	1	3	2	4	3	3	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:148015781G>A	uc001eqq.2	-	8	867	c.850C>T	c.(850-852)CTG>TTG	p.L284L	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqf.2_Intron|LOC200030_uc001eqg.2_Intron|FLJ39739_uc001eqo.1_Intron|NBPF14_uc010pab.1_Intron|NBPF14_uc010pac.1_Intron|NBPF14_uc001eqx.2_Intron|NBPF14_uc010pae.1_Intron|NBPF14_uc010paf.1_Intron|NBPF14_uc001eqs.1_Silent_p.L163L	NM_015383	NP_056198	Q5TI25	NBPFE_HUMAN	hypothetical protein LOC25832	284	NBPF 3.					cytoplasm				ovary(1)	1	all_hematologic(923;0.032)					TTCTCATCCAGCAGCTCTCTG	0.483													14	101					0	0	0.00499	0	0		A	148015781	A	A	148015781	2	1	212	1	0	0	0	0	0	0	0	1	10213	962	34	2		2	NBPF14	1	148015781	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2421730	148015781	101234840	92	103897											
PLEKHO1	51177	broad.mit.edu	37	chr1	150131688	150131688	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacctcagacagaccaccccGcacagtcagtaccggaagag	13	3	9	16	2	2	3	2	0	0	3	2	4	2	4	5	1	1	2	5	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:150131688G>A	uc001ett.2	+	6	1478	c.1200G>A	c.(1198-1200)CCG>CCA	p.P400P	PLEKHO1_uc001etr.2_Silent_p.P228P|PLEKHO1_uc001ets.2_Silent_p.P217P|PLEKHO1_uc001etu.2_Silent_p.P228P	NM_016274	NP_057358	Q53GL0	PKHO1_HUMAN	pleckstrin homology domain containing, family O	400	Negative regulator of AP-1 activity.					cytoplasm|nucleus|plasma membrane				lung(1)	1	Lung NSC(24;7.78e-28)|Breast(34;0.00211)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)			AGACCACCCCGCACAGTCAGT	0.582													7	27					0	0	0.001984	0	0		A	150131688	A	A	150131688	2	1	212	1	0	0	0	0	0	0	0	1	12103	1074	38	1		1	PLEKHO1	1	150131688	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2115907	150131688	99118933	93	103898											
C1orf51	148523	broad.mit.edu	37	chr1	150259051	150259051	+	Silent	SNP	T	C	C	0	1	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	ggtactatctcctttagccaTggtcctttaggcactggaac	8	13	9	11	0	1	0	0	0	1	0	3	1	2	1	3	4	3	2	3	4	5	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:150259051T>C	uc001euh.2	+	6	979	c.843T>C	c.(841-843)CAT>CAC	p.H281H	C1orf51_uc001eui.2_Silent_p.H193H|C1orf51_uc001euj.2_Silent_p.H281H	NM_144697	NP_653298	Q8N365	CA051_HUMAN	hypothetical protein LOC148523	281											0	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)			CCTTTAGCCATGGTCCTTTAG	0.562													8	144					0	0	0.006214	0	0		C	150259051	C	C	150259051	2	2	212	1	0	0	0	0	0	0	0	1	2046	1461	51	3		3	C1orf51	1	150259051	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	127363	150259051	98991570	94	103899											
ADAMTSL4	54507	broad.mit.edu	37	chr1	150530584	150530584	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacccagtcttgccagctgCgcctctgtggccattgggaa	6	10	11	14	1	3	0	1	0	2	0	3	1	3	1	4	2	3	1	4	2	1	2	rs149442347	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:150530584C>T	uc001eux.2	+	14	2577	c.2341C>T	c.(2341-2343)CGC>TGC	p.R781C	ADAMTSL4_uc001euw.2_Missense_Mutation_p.R781C|ADAMTSL4_uc009wlw.2_Missense_Mutation_p.R804C|ADAMTSL4_uc010pcg.1_Missense_Mutation_p.R742C|ADAMTSL4_uc009wlx.2_5'UTR	NM_019032	NP_061905	Q6UY14	ATL4_HUMAN	thrombospondin repeat containing 1 isoform 1	781	TSP type-1 2.				apoptosis|positive regulation of apoptosis		metalloendopeptidase activity|protease binding			ovary(1)|skin(1)	2	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)			TTGCCAGCTGCGCCTCTGTGG	0.647													45	126					0	0	0.01441	0	0		T	150530584	T	T	150530584	3	4	212	1	0	0	0	0	1	0	0	0	277	768	27	1	2387	1	ADAMTSL4	1	150530584	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	271533	150530584	98720037	95	103900											
POGZ	23126	broad.mit.edu	37	chr1	151378679	151378679	+	Missense_Mutation	SNP	A	T	T	1	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	actgggctcccttcatcctgAtcatcaacattcagacattc	10	12	5	14	0	4	2	4	1	0	1	7	2	6	2	2	1	1	1	2	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:151378679A>T	uc001eyd.1	-	19	3138	c.2832T>A	c.(2830-2832)GAT>GAA	p.D944E	POGZ_uc001eye.1_Missense_Mutation_p.D891E|POGZ_uc010pdb.1_Missense_Mutation_p.D935E|POGZ_uc001eyf.1_Missense_Mutation_p.D900E|POGZ_uc010pdc.1_Missense_Mutation_p.D882E|POGZ_uc009wmv.1_Missense_Mutation_p.D849E|POGZ_uc010pdd.1_Missense_Mutation_p.D435E	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	944					cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	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)			CTTCATCCTGATCATCAACAT	0.567													12	112					0	0	0.010729	0	0		T	151378679	T	T	151378679	3	4	212	1	0	0	0	0	1	0	0	0	12205	330	12	5	1404	5	POGZ	1	151378679	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	848095	151378679	97871942	96	103901											
FLG	2312	broad.mit.edu	37	chr1	152279744	152279744	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgtccagagctgtcggcccGagaggaagcttcatggtgac	8	8	15	10	2	1	3	1	1	0	2	3	5	2	4	2	3	2	2	2	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:152279744G>A	uc001ezu.1	-	3	7654	c.7618C>T	c.(7618-7620)CGG>TGG	p.R2540W		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2540	Ser-rich.|Filaggrin 15.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTCGGCCCGAGAGGAAGCT	0.582									Ichthyosis				42	431					0	0	0.01441	0	0		A	152279744	A	A	152279744	3	1	212	1	0	0	0	0	1	0	0	0	5936	1057	37	1	4571	1	FLG	1	152279744	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	901065	152279744	96970877	97	103902											
FLG	2312	broad.mit.edu	37	chr1	152279848	152279848	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttctggatcctgagtgcccaTgggaggcatcagaccttccc	7	10	11	13	0	2	2	1	1	1	1	4	4	4	4	4	3	1	1	4	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:152279848T>C	uc001ezu.1	-	3	7550	c.7514A>G	c.(7513-7515)CAT>CGT	p.H2505R		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2505	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGAGTGCCCATGGGAGGCATC	0.552									Ichthyosis				61	496					0	0	0.01441	0	0		C	152279848	C	C	152279848	3	2	212	1	0	0	0	0	1	0	0	0	5936	1464	51	3	4675	3	FLG	1	152279848	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	104	152279848	96970773	98	103903											
LCE3D	84648	broad.mit.edu	37	chr1	152552263	152552263	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggttcaggaagcagccGccctcggagctagggccaca	8	6	15	12	2	1	0	1	0	0	0	2	2	1	2	3	5	3	3	3	5	2	2	rs139649941		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:152552263G>A	uc001fab.2	-	2	207	c.150C>T	c.(148-150)GGC>GGT	p.G50G		NM_032563	NP_115952	Q9BYE3	LCE3D_HUMAN	late cornified envelope 3D	50					keratinization						0	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)		GGAAGCAGCCGCCCTCGGAGC	0.672													19	64					0	0	0.010504	0	0		A	152552263	A	A	152552263	2	1	212	1	0	0	0	0	0	0	0	1	8688	1074	38	1		1	LCE3D	1	152552263	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	272415	152552263	96698358	99	103904											
KPRP	448834	broad.mit.edu	37	chr1	152733277	152733277	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgtccacctcctgctccaCgtccacgtctgcgcccagaa	7	8	8	18	3	1	1	0	0	1	1	5	2	5	1	6	0	2	1	6	0	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:152733277C>T	uc001fal.1	+	2	1271	c.1213C>T	c.(1213-1215)CGT>TGT	p.R405C		NM_001025231	NP_001020402	Q5T749	KPRP_HUMAN	keratinocyte proline-rich protein	405	Pro-rich.					cytoplasm				ovary(4)|pancreas(1)	5	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTGCTCCACGTCCACGTCT	0.572													22	49					0	0	0.012319	0	0		T	152733277	T	T	152733277	3	4	212	1	0	0	0	0	1	0	0	0	8452	536	19	1	1215	1	KPRP	1	152733277	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	181014	152733277	96517344	100	103905											
AQP10	89872	broad.mit.edu	37	chr1	154295722	154295722	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccttcctccacagatgccCtacagaactatacaggtggg	10	9	8	14	0	0	2	0	0	0	2	3	2	3	2	4	2	4	0	4	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:154295722C>A	uc001feu.2	+	4	416	c.376C>A	c.(376-378)CTA>ATA	p.L126I	AQP10_uc001fev.2_Missense_Mutation_p.L126I|ATP8B2_uc001few.2_5'Flank	NM_080429	NP_536354	Q96PS8	AQP10_HUMAN	aquaporin 10	126	Extracellular (Potential).				response to toxin|transmembrane transport|water transport	integral to membrane|plasma membrane	transporter activity			central_nervous_system(1)	1	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			CACAGATGCCCTACAGAACTA	0.547													34	84					7.11191e-15	8.03536e-15	0.013726	1	0		A	154295722	A	A	154295722	3	1	212	1	0	0	0	0	1	0	0	0	822	680	24	5	390	5	AQP10	1	154295722	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1562445	154295722	94954899	101	103906											
TDRD10	126668	broad.mit.edu	37	chr1	154517360	154517360	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccctgtgcagtctctgcGcagcctagacagcgacgact	8	8	10	15	3	1	1	0	0	1	1	3	3	2	1	2	0	4	2	2	0	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:154517360G>A	uc009wow.2	+	11	1725	c.887G>A	c.(886-888)CGC>CAC	p.R296H	TDRD10_uc001ffd.2_Missense_Mutation_p.R296H|TDRD10_uc001ffe.2_Missense_Mutation_p.R217H	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	296	Tudor.						nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			CAGTCTCTGCGCAGCCTAGAC	0.552													15	50					0	0	0.006122	0	0		A	154517360	A	A	154517360	3	1	212	1	0	0	0	0	1	0	0	0	15756	1087	38	1	925	1	TDRD10	1	154517360	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	221638	154517360	94733261	102	103907											
FDPS	2224	broad.mit.edu	37	chr1	155290383	155290383	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggcttgcgcgcaaaatcTacaagcggagaaagtgacct	12	7	13	9	3	1	2	0	1	1	1	1	3	1	2	1	3	3	2	1	3	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:155290383T>C	uc001fkc.2	+	11	1462	c.1243T>C	c.(1243-1245)TAC>CAC	p.Y415H	RAG1AP1_uc010pey.1_Intron|FDPS_uc001fkd.2_Missense_Mutation_p.Y349H|FDPS_uc001fke.2_Missense_Mutation_p.Y415H|FDPS_uc001fkf.2_Missense_Mutation_p.Y349H|C1orf104_uc001fkh.1_Intron|C1orf104_uc001fki.2_3'UTR|RUSC1_uc001fkj.2_5'Flank|RUSC1_uc001fkk.2_5'Flank|RUSC1_uc009wqn.1_5'Flank|RUSC1_uc009wqo.1_5'Flank	NM_002004	NP_001995	P14324	FPPS_HUMAN	farnesyl diphosphate synthase isoform a	415					cholesterol biosynthetic process|interspecies interaction between organisms|isoprenoid biosynthetic process	cytosol|nucleus	dimethylallyltranstransferase activity|geranyltranstransferase activity|metal ion binding				0	Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;2.03e-10)|all cancers(21;5.23e-10)|BRCA - Breast invasive adenocarcinoma(34;0.000549)|LUSC - Lung squamous cell carcinoma(543;0.127)		Alendronate(DB00630)|Ibandronate(DB00710)|Pamidronate(DB00282)|Risedronate(DB00884)|Zoledronate(DB00399)	GCGCAAAATCTACAAGCGGAG	0.517													23	41					0	0	0.00333	0	0		C	155290383	C	C	155290383	3	2	212	1	0	0	0	0	1	0	0	0	5817	1522	53	3	1281	3	FDPS	1	155290383	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	773023	155290383	93960238	103	103908											
ASH1L	55870	broad.mit.edu	37	chr1	155450513	155450513	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accactttagtccaccgaggTtttcttccttttcttttttt	5	21	4	11	1	2	0	0	0	2	0	4	1	4	0	4	1	0	1	4	1	1	10			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:155450513T>G	uc009wqq.2	-	3	2628	c.2148A>C	c.(2146-2148)AAA>AAC	p.K716N	ASH1L_uc001fkt.2_Missense_Mutation_p.K716N|ASH1L_uc009wqr.1_Missense_Mutation_p.K716N	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	716					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TCCACCGAGGTTTTCTTCCTT	0.418													17	44					0	0	0.007413	0	0		G	155450513	G	G	155450513	3	3	212	1	0	0	0	0	1	0	0	0	1042	1722	60	5	6850	5	ASH1L	1	155450513	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	160130	155450513	93800108	104	103909											
MEX3A	92312	broad.mit.edu	37	chr1	156046580	156046580	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accaagtttagagaagccctGgagcggctctcccggggggc	8	6	15	12	2	1	1	0	0	1	1	2	3	1	2	3	5	2	2	3	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:156046580G>A	uc001fnd.3	-	2	1348	c.1348C>T	c.(1348-1350)CAG>TAG	p.Q450*		NM_001093725	NP_001087194	A1L020	MEX3A_HUMAN	MEX3A protein	450						cytoplasmic mRNA processing body|nucleus	RNA binding|zinc ion binding				0	Hepatocellular(266;0.158)|all_neural(408;0.195)					GAGAAGCCCTGGAGCGGCTCT	0.741													3	5					0	0	0.004672	0	0		A	156046580	A	A	156046580	4	1	212	1	0	0	0	0	0	1	0	0	9527	1357	47	4	218	4	MEX3A	1	156046580	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	596067	156046580	93204041	105	103910											
SMG5	23381	broad.mit.edu	37	chr1	156222250	156222250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggtaccgaatcccatccCgggcccctgggtgttccttc	5	9	10	17	2	0	0	0	0	0	0	4	1	3	0	7	3	1	2	7	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:156222250C>T	uc001foc.3	-	19	2857	c.2708G>A	c.(2707-2709)CGG>CAG	p.R903Q	SMG5_uc009wrv.2_Intron	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	903	PINc.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					AATCCCATCCCGGGCCCCTGG	0.532													15	56					0	0	0.004007	0	0		T	156222250	T	T	156222250	3	4	212	1	0	0	0	0	1	0	0	0	14821	652	23	1	358	1	SMG5	1	156222250	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	175670	156222250	93028371	106	103911											
ARHGEF11	9826	broad.mit.edu	37	chr1	156916756	156916756	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatgaggtcactgatctctTtgatgatggggccttcctcc	6	13	11	11	0	2	4	1	4	1	0	5	4	4	4	3	3	0	1	3	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:156916756T>C	uc001fqo.2	-	26	3460	c.2420A>G	c.(2419-2421)AAA>AGA	p.K807R	ARHGEF11_uc010phu.1_Missense_Mutation_p.K223R|ARHGEF11_uc001fqn.2_Missense_Mutation_p.K847R	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	807	DH.				actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					ACTGATCTCTTTGATGATGGG	0.552													120	111					0	0	0.01441	0	0		C	156916756	C	C	156916756	3	2	212	1	0	0	0	0	1	0	0	0	896	1841	64	3	2208	3	ARHGEF11	1	156916756	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	694506	156916756	92333865	107	103912											
CD1E	913	broad.mit.edu	37	chr1	158324361	158324361	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agccctggtcccatggaaacTtcagcaagcaggagctgaaa	13	6	11	11	0	1	1	1	1	0	0	2	3	2	3	2	3	5	3	2	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:158324361T>G	uc001fse.2	+	2	492	c.253T>G	c.(253-255)TTC>GTC	p.F85V	CD1E_uc010pid.1_Missense_Mutation_p.F83V|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Missense_Mutation_p.F85V|CD1E_uc001fsk.2_Missense_Mutation_p.F85V|CD1E_uc001fsj.2_Missense_Mutation_p.F85V|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.F85V|CD1E_uc001fry.2_Missense_Mutation_p.F85V|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Missense_Mutation_p.F85V|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Missense_Mutation_p.F85V|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	85					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					CCATGGAAACTTCAGCAAGCA	0.498													28	16					0	0	0.004656	0	0		G	158324361	G	G	158324361	3	3	212	1	0	0	0	0	1	0	0	0	2981	1609	56	5	259	5	CD1E	1	158324361	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1407605	158324361	90926260	108	103913											
OR10K2	391107	broad.mit.edu	37	chr1	158390296	158390296	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagatggctatgtaacgatCataacccatgactgccagca	14	8	8	11	1	1	2	1	1	0	1	1	3	1	2	2	1	4	3	2	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:158390296C>A	uc010pii.1	-	1	361	c.361G>T	c.(361-363)GAT>TAT	p.D121Y		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					ATGTAACGATCATAACCCATG	0.517													31	93					6.05902e-23	7.04966e-23	0.003755	1	0		A	158390296	A	A	158390296	3	1	212	1	0	0	0	0	1	0	0	0	10933	826	29	5	579	5	OR10K2	1	158390296	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	65935	158390296	90860325	109	103914											
SPTA1	6708	broad.mit.edu	37	chr1	158596785	158596785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aatctctttgttctgactttCctcctgcaacacctgtgaga	8	15	6	12	0	2	2	0	2	2	1	5	3	4	2	3	0	2	2	3	0	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:158596785C>T	uc001fst.1	-	41	5876	c.5677G>A	c.(5677-5679)GAA>AAA	p.E1893K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1893	Spectrin 18.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TTCTGACTTTCCTCCTGCAAC	0.423													27	79					0	0	0.00632	0	0		T	158596785	T	T	158596785	3	4	212	1	0	0	0	0	1	0	0	0	15141	864	30	4	1630	4	SPTA1	1	158596785	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	206489	158596785	90653836	110	103915											
SPTA1	6708	broad.mit.edu	37	chr1	158639574	158639574	+	Silent	SNP	A	G	G	1	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	ttggttgcagtcttgtctacAgtctgaaaaaataaaaataa	16	13	7	5	0	3	1	0	1	3	0	3	1	3	1	0	1	2	2	0	1	8	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:158639574A>G	uc001fst.1	-	13	1801	c.1602T>C	c.(1600-1602)ACT>ACC	p.T534T		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	534	Spectrin 6.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCTTGTCTACAGTCTGAAAAA	0.403													50	120					0	0	0.01441	0	0		G	158639574	G	G	158639574	2	3	212	1	0	0	0	0	0	0	0	1	15141	175	7	3		3	SPTA1	1	158639574	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	42789	158639574	90611047	111	103916											
PYHIN1	149628	broad.mit.edu	37	chr1	158913704	158913704	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agataagcttcgactcttctGctttcgactgagaaagaggg	11	11	11	8	2	2	3	0	1	2	3	4	6	2	3	0	1	2	2	0	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:158913704G>T	uc001ftb.2	+	6	1372	c.1127G>T	c.(1126-1128)TGC>TTC	p.C376F	PYHIN1_uc001ftc.2_Missense_Mutation_p.C367F|PYHIN1_uc001ftd.2_Missense_Mutation_p.C376F|PYHIN1_uc001fte.2_Missense_Mutation_p.C367F	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	376	HIN-200.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					CGACTCTTCTGCTTTCGACTG	0.363													13	47					2.62699e-14	2.96262e-14	0.003163	1	0		T	158913704	T	T	158913704	3	4	212	1	0	0	0	0	1	0	0	0	12890	1319	46	5	1145	5	PYHIN1	1	158913704	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	274130	158913704	90336917	112	103917											
IGSF9	57549	broad.mit.edu	37	chr1	159899451	159899451	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcggaggcgcttgcggcggCggcgggcagccctgcgccgg	2	3	22	14	8	0	0	0	0	0	0	0	1	0	1	2	8	3	2	2	8	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:159899451C>T	uc001fur.2	-	17	2501	c.2303G>A	c.(2302-2304)CGC>CAC	p.R768H	IGSF9_uc001fuq.2_Missense_Mutation_p.R752H|IGSF9_uc001fup.2_5'UTR	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a	768	Cytoplasmic (Potential).					cell junction|integral to membrane|synapse				ovary(2)|central_nervous_system(2)|large_intestine(1)	5	all_hematologic(112;0.0597)	Breast(1374;0.000126)	BRCA - Breast invasive adenocarcinoma(70;0.111)			CTTGCGGCGGCGGCGGGCAGC	0.687													3	7					0	0	0.004672	0	0		T	159899451	T	T	159899451	3	4	212	1	0	0	0	0	1	0	0	0	7621	768	27	1	1256	1	IGSF9	1	159899451	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	985747	159899451	89351170	113	103918											
ATP1A4	480	broad.mit.edu	37	chr1	160145892	160145892	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccccaggccgcctgatCtttgacaacctgaagaaatc	10	9	7	15	1	1	4	0	3	1	1	4	4	3	4	6	1	1	0	6	1	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:160145892C>A	uc001fve.3	+	16	2801	c.2322C>A	c.(2320-2322)ATC>ATA	p.I774I	ATP1A4_uc001fvf.3_RNA|ATP1A4_uc001fvg.2_Silent_p.I277I|ATP1A4_uc001fvh.2_5'Flank	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	774	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport|regulation of cellular pH|sperm motility	sodium:potassium-exchanging ATPase complex	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(2)|skin(2)	4	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			GCCGCCTGATCTTTGACAACC	0.562													74	216					7.31121e-38	8.59922e-38	0.01441	1	0		A	160145892	A	A	160145892	2	1	212	1	0	0	0	0	0	0	0	1	1132	903	32	5		5	ATP1A4	1	160145892	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	246441	160145892	89104729	114	103919											
ITLN1	55600	broad.mit.edu	37	chr1	160851041	160851041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ttctccagtgctgcatggggGacttattgggcacgtgccag	6	11	14	10	1	1	0	0	0	1	0	2	1	1	1	2	3	3	3	2	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:160851041G>A	uc001fxc.2	-	5	583	c.467C>T	c.(466-468)TCC>TTC	p.S156F		NM_017625	NP_060095	Q8WWA0	ITLN1_HUMAN	intelectin precursor	156	Fibrinogen C-terminal.				positive regulation of glucose import|positive regulation of protein phosphorylation|response to nematode|signal transduction	anchored to membrane|brush border membrane|extracellular region|membrane raft	receptor binding|sugar binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)	7	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00737)			CTGCATGGGGGACTTATTGGG	0.572													26	91					0	0	0.00632	0	0		A	160851041	A	A	160851041	3	1	212	1	0	0	0	0	1	0	0	0	7926	1174	41	4	490	4	ITLN1	1	160851041	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	705149	160851041	88399580	115	103920											
PVRL4	81607	broad.mit.edu	37	chr1	161042656	161042656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtcagcgtggagtaactgCggccctcgggctcttcactc	5	10	13	13	3	3	0	2	0	1	0	5	1	3	1	1	4	3	2	1	4	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:161042656C>T	uc001fxo.2	-	9	1627	c.1328G>A	c.(1327-1329)CGC>CAC	p.R443H	ARHGAP30_uc001fxk.2_5'Flank|ARHGAP30_uc001fxl.2_5'Flank|ARHGAP30_uc001fxm.2_5'Flank|ARHGAP30_uc009wtx.2_5'Flank|ARHGAP30_uc001fxn.1_5'Flank|PVRL4_uc010pjy.1_Missense_Mutation_p.R97H|PVRL4_uc010pjz.1_Missense_Mutation_p.R152H	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	443	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GGAGTAACTGCGGCCCTCGGG	0.602													5	18					0	0	0.001168	0	0		T	161042656	T	T	161042656	3	4	212	1	0	0	0	0	1	0	0	0	12867	768	27	1	208	1	PVRL4	1	161042656	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	191615	161042656	88207965	116	103921											
NOS1AP	9722	broad.mit.edu	37	chr1	162336931	162336931	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacccctaagccagaggacCtgcattcgccgccgctgggc	7	5	12	17	4	0	1	0	0	0	1	1	3	0	2	6	2	2	2	6	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:162336931C>A	uc001gbv.2	+	10	1582	c.1195C>A	c.(1195-1197)CTG>ATG	p.L399M	NOS1AP_uc010pks.1_RNA|NOS1AP_uc001gbw.2_Missense_Mutation_p.L394M|NOS1AP_uc009wut.1_Missense_Mutation_p.L104M	NM_014697	NP_055512	O75052	CAPON_HUMAN	nitric oxide synthase 1 (neuronal) adaptor	399					regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)			GCCAGAGGACCTGCATTCGCC	0.672													50	135					9.52127e-25	1.11061e-24	0.01441	1	0		A	162336931	A	A	162336931	3	1	212	1	0	0	0	0	1	0	0	0	10561	680	24	5	1287	5	NOS1AP	1	162336931	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1294275	162336931	86913690	117	103922											
POGK	57645	broad.mit.edu	37	chr1	166818871	166818871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtcctggctctgcgcagggCgcatgactatgaggtagctc	6	10	14	11	2	1	2	0	2	1	0	3	2	2	2	1	3	2	5	1	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:166818871C>T	uc001gdt.1	+	5	1175	c.1055C>T	c.(1054-1056)GCG>GTG	p.A352V	POGK_uc010ple.1_Missense_Mutation_p.A267V|POGK_uc010plf.1_Missense_Mutation_p.A234V	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	352					multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						CTGCGCAGGGCGCATGACTAT	0.557													33	81					0	0	0.010818	0	0		T	166818871	T	T	166818871	3	4	212	1	0	0	0	0	1	0	0	0	12204	768	27	1	1069	1	POGK	1	166818871	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4481940	166818871	82431750	118	103923											
BAT2L2	23215	broad.mit.edu	37	chr1	171494089	171494089	+	Silent	SNP	A	G	G	1	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	aaagttccctatgggaaaggAccttcatttaatcaggtttg	12	13	9	7	0	2	0	2	0	0	0	3	2	3	2	2	3	0	2	2	3	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:171494089A>G	uc010pmg.1	+	10	1445	c.1179A>G	c.(1177-1179)GGA>GGG	p.G393G	BAT2L2_uc001ghr.1_Silent_p.G395G	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	393							protein C-terminus binding				0						ATGGGAAAGGACCTTCATTTA	0.358													7	13					0	0	0.004482	0	0		G	171494089	G	G	171494089	2	3	212	1	0	0	0	0	0	0	0	1	1322	262	10	3		3	BAT2L2	1	171494089	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4675218	171494089	77756532	119	103924											
METTL13	51603	broad.mit.edu	37	chr1	171763606	171763606	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgggaatgagttgtccGcccccagcatttgtggagca	9	9	12	11	1	0	1	0	1	0	0	1	3	1	3	3	2	2	3	3	2	1	2	rs111707385		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:171763606G>A	uc001ghz.2	+	7	2111	c.1764G>A	c.(1762-1764)CCG>CCA	p.P588P	METTL13_uc001gia.2_Silent_p.P502P|METTL13_uc001gib.2_Silent_p.P432P|METTL13_uc010pml.1_Silent_p.P587P|METTL13_uc001gic.1_5'Flank	NM_015935	NP_057019	Q8N6R0	MTL13_HUMAN	CGI-01 protein isoform 1	588							methyltransferase activity|protein binding			kidney(1)	1						TGAGTTGTCCGCCCCCAGCAT	0.473													22	50					0	0	0.012319	0	0		A	171763606	A	A	171763606	2	1	212	1	0	0	0	0	0	0	0	1	9515	1074	38	1		1	METTL13	1	171763606	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	269517	171763606	77487015	120	103925											
C1orf9	51430	broad.mit.edu	37	chr1	172539198	172539198	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtctgcaggtcagtcgatgCatgcatcttctaatggaggt	8	13	12	8	1	4	0	1	0	3	0	5	2	4	1	0	3	3	3	0	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:172539198C>T	uc001giq.3	+	8	1184	c.868C>T	c.(868-870)CAT>TAT	p.H290Y	C1orf9_uc010pmm.1_Missense_Mutation_p.H290Y|C1orf9_uc009wwd.2_Missense_Mutation_p.H253Y|C1orf9_uc010pmn.1_Missense_Mutation_p.H253Y|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	290	SUN.				multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		TCAGTCGATGCATGCATCTTC	0.358													7	10					0	0	0.001984	0	0		T	172539198	T	T	172539198	3	4	212	1	0	0	0	0	1	0	0	0	2070	710	25	2	898	2	C1orf9	1	172539198	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	775592	172539198	76711423	121	103926											
SLC9A11	284525	broad.mit.edu	37	chr1	173526624	173526624	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttgaatgcatcaaaatagggCtcactaacaaaatagtaagc	18	9	7	7	0	2	1	2	1	0	0	2	1	2	1	0	1	3	3	0	1	9	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:173526624C>T	uc001giz.2	-	10	1493	c.1070G>A	c.(1069-1071)AGC>AAC	p.S357N	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	357					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						CAAAATAGGGCTCACTAACAA	0.333													11	148					0	0	0.010729	0	0		T	173526624	T	T	173526624	3	4	212	1	0	0	0	0	1	0	0	0	14736	797	28	2	2380	2	SLC9A11	1	173526624	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	987426	173526624	75723997	122	103927											
TNN	63923	broad.mit.edu	37	chr1	175048603	175048603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcagcggccacgggcgttgcGtggacgggcgctgcctgtgc	3	6	19	13	6	0	0	0	0	0	0	0	1	0	1	2	4	4	3	2	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:175048603G>A	uc001gkl.1	+	3	657	c.544G>A	c.(544-546)GTG>ATG	p.V182M	TNN_uc010pmx.1_Missense_Mutation_p.V182M	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	182	EGF-like 1.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CGGGCGTTGCGTGGACGGGCG	0.746													3	8					0	0	0.009096	0	0		A	175048603	A	A	175048603	3	1	212	1	0	0	0	0	1	0	0	0	16348	1145	40	1	550	1	TNN	1	175048603	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1521979	175048603	74202018	123	103928											
TNN	63923	broad.mit.edu	37	chr1	175066603	175066603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accgggtgactgagaataccGccaccatctcctgggacccg	9	6	11	15	3	1	2	0	2	1	1	2	4	1	3	6	2	1	0	6	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:175066603G>A	uc001gkl.1	+	8	1752	c.1639G>A	c.(1639-1641)GCC>ACC	p.A547T	TNN_uc010pmx.1_Intron	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	547	Fibronectin type-III 4.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		TGAGAATACCGCCACCATCTC	0.522													6	45					0	0	0.001168	0	0		A	175066603	A	A	175066603	3	1	212	1	0	0	0	0	1	0	0	0	16348	1087	38	1	1665	1	TNN	1	175066603	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	18000	175066603	74184018	124	103929											
ZNF648	127665	broad.mit.edu	37	chr1	182026251	182026251	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgctcgcccgtgtgcaggcGcctgtgctgctggagtgtgc	2	9	16	14	4	0	0	0	0	0	0	1	1	0	1	3	2	4	4	3	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:182026251G>T	uc001goz.2	-	2	1103	c.895C>A	c.(895-897)CGC>AGC	p.R299S		NM_001009992	NP_001009992	Q5T619	ZN648_HUMAN	zinc finger protein 648	299	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						GTGTGCAGGCGCCTGTGCTGC	0.706													3	33					0.00909568	0.00923654	0.009096	1	0		T	182026251	T	T	182026251	3	4	212	1	0	0	0	0	1	0	0	0	18088	1087	38	5	815	5	ZNF648	1	182026251	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6959648	182026251	67224370	125	103930											
LAMC2	3918	broad.mit.edu	37	chr1	183204789	183204789	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaagccctctcactggtgCgcaaggccctgcatgaagga	11	6	11	13	1	1	1	1	1	1	0	2	2	1	2	2	3	4	2	2	3	4	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:183204789C>T	uc001gqa.2	+	16	2694	c.2380C>T	c.(2380-2382)CGC>TGC	p.R794C	LAMC2_uc001gpz.3_Missense_Mutation_p.R794C|LAMC2_uc010poa.1_Missense_Mutation_p.R494C	NM_005562	NP_005553	Q13753	LAMC2_HUMAN	laminin, gamma 2 isoform a precursor	794	Domain II and I.				cell adhesion|epidermis development|hemidesmosome assembly		heparin binding			skin(2)|ovary(1)	3						CTCACTGGTGCGCAAGGCCCT	0.537											OREG0014042	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	45					0	0	0.001855	0	0		T	183204789	T	T	183204789	3	4	212	1	0	0	0	0	1	0	0	0	8631	768	27	1	2442	1	LAMC2	1	183204789	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1178538	183204789	66045832	126	103931											
GLT25D2	23127	broad.mit.edu	37	chr1	183944265	183944265	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	accatttttccctcgcagttCgaagggctgcctgtcgtagt	6	13	10	12	3	0	0	0	0	0	0	4	1	1	0	3	1	1	4	3	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:183944265C>G	uc001gqr.2	-	3	830	c.458G>C	c.(457-459)CGA>CCA	p.R153P	GLT25D2_uc010poj.1_Missense_Mutation_p.R153P|GLT25D2_uc001gqs.2_Missense_Mutation_p.R33P	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	153					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CCTCGCAGTTCGAAGGGCTGC	0.423													18	75					0	0	0.010504	0	0		G	183944265	G	G	183944265	3	3	212	1	0	0	0	0	1	0	0	0	6482	884	31	5	1462	5	GLT25D2	1	183944265	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	739476	183944265	65306356	127	103932											
HMCN1	83872	broad.mit.edu	37	chr1	185970773	185970773	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgaacaatgggaagatactGaagctcttcagagccactcc	13	8	10	10	0	2	4	1	2	1	2	3	5	3	5	2	1	4	1	2	1	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:185970773G>A	uc001grq.1	+	28	4477	c.4248G>A	c.(4246-4248)CTG>CTA	p.L1416L		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	1416	Ig-like C2-type 11.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						GGAAGATACTGAAGCTCTTCA	0.398													17	74					0	0	0.006122	0	0		A	185970773	A	A	185970773	2	1	212	1	0	0	0	0	0	0	0	1	7236	1277	45	4		4	HMCN1	1	185970773	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2026508	185970773	63279848	128	103933											
HMCN1	83872	broad.mit.edu	37	chr1	186092202	186092202	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttacatggcataaagatgggCgtgcaattgtggaatctatc	12	12	11	6	1	1	1	0	0	1	1	2	2	1	2	0	3	2	2	0	3	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:186092202C>T	uc001grq.1	+	81	12578	c.12349C>T	c.(12349-12351)CGT>TGT	p.R4117C		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4117	Ig-like C2-type 40.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TAAAGATGGGCGTGCAATTGT	0.512													18	76					0	0	0.00499	0	0		T	186092202	T	T	186092202	3	4	212	1	0	0	0	0	1	0	0	0	7236	768	27	1	12671	1	HMCN1	1	186092202	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	121429	186092202	63158419	129	103934											
CFHR3	10878	broad.mit.edu	37	chr1	196759259	196759259	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaagtgtatgtgccacagtCaagagtcgagtaccaatgcc	14	8	10	9	1	1	1	1	0	0	1	2	2	1	1	3	0	3	2	3	0	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:196759259C>T	uc001gtl.2	+	5	785	c.698C>T	c.(697-699)TCA>TTA	p.S233L	CFHR3_uc010poy.1_Missense_Mutation_p.S172L|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	233	Sushi 4.					extracellular space					0						GTGCCACAGTCAAGAGTCGAG	0.423													44	58					0	0	0.01441	0	0		T	196759259	T	T	196759259	3	4	212	1	0	0	0	0	1	0	0	0	3289	838	29	4	716	4	CFHR3	1	196759259	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	10667057	196759259	52491362	130	103935											
ASPM	259266	broad.mit.edu	37	chr1	197071707	197071707	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gtatgtttctttctttcattGcccagtatctttgctgtact	5	21	6	9	0	4	0	1	0	3	0	4	0	4	0	1	0	3	5	1	0	3	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:197071707G>T	uc001gtu.2	-	18	6931	c.6674C>A	c.(6673-6675)GCA>GAA	p.A2225E	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.A73E	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2225					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TTCTTTCATTGCCCAGTATCT	0.328													19	33					5.03518e-11	5.52576e-11	0.007413	1	0		T	197071707	T	T	197071707	3	4	212	1	0	0	0	0	1	0	0	0	1057	1319	46	5	3803	5	ASPM	1	197071707	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	312448	197071707	52178914	131	103936											
CRB1	23418	broad.mit.edu	37	chr1	197396685	197396685	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagcctctccatgtttgtcCgaacgcttcaaccatcaggc	8	11	7	15	2	4	0	3	0	1	0	6	1	5	0	4	1	3	2	4	1	2	2	rs150412614		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:197396685C>T	uc001gtz.2	+	7	2365	c.2230C>T	c.(2230-2232)CGA>TGA	p.R744*	CRB1_uc010poz.1_Nonsense_Mutation_p.R675*|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Nonsense_Mutation_p.R632*|CRB1_uc010ppb.1_Intron|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Nonsense_Mutation_p.R225*|CRB1_uc001gub.1_Nonsense_Mutation_p.R393*	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	744	Extracellular (Potential).|Laminin G-like 2.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						CATGTTTGTCCGAACGCTTCA	0.483													10	27					0	0	0.010729	0	0		T	197396685	T	T	197396685	4	4	212	1	0	0	0	0	0	1	0	0	3851	644	23	1	2256	1	CRB1	1	197396685	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	324978	197396685	51853936	132	103937											
NAV1	89796	broad.mit.edu	37	chr1	201618272	201618272	+	Frame_Shift_Del	DEL	C	-	-																															cccggcgggcggcgccaagaCccccctggctccgctcgcgc																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:201618272delC	uc001gwu.2	+	1	823	c.476delC	c.(475-477)ACCfs	p.T159fs		NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	159					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GGCGCCAAGACCCCCCTGGCT	0.697													14	12	---	---	---	---						.	-	201618272	-	-	201618272	7	5	212	1	0	1	0	1	0	0	0	0	10201	507	18	0	478	0	NAV1	1	201618272	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	4221587	201618272	47632349	133	103938											
GPR37L1	9283	broad.mit.edu	37	chr1	202092388	202092388	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggggcaccccagacagtggGcaggaactgaggggcaatct	10	4	17	10	0	1	2	0	1	1	1	1	3	1	3	2	6	1	3	2	6	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:202092388G>A	uc001gxj.2	+	1	360	c.297G>A	c.(295-297)GGG>GGA	p.G99G		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	99	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						CAGACAGTGGGCAGGAACTGA	0.637													9	13					0	0	0.008291	0	0		A	202092388	A	A	202092388	2	1	212	1	0	0	0	0	0	0	0	1	6707	1190	42	2		2	GPR37L1	1	202092388	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	474116	202092388	47158233	134	103939											
LGR6	59352	broad.mit.edu	37	chr1	202288271	202288271	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agagggatctacgccagcagGtggaggcttgtcagggggtg	8	7	19	7	1	2	1	1	0	1	1	2	3	2	3	1	6	2	2	1	6	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:202288271G>A	uc001gxu.2	+	18	2840	c.2840G>A	c.(2839-2841)GGT>GAT	p.G947D	LGR6_uc001gxv.2_Missense_Mutation_p.G895D|LGR6_uc009xab.2_RNA|LGR6_uc001gxw.2_Missense_Mutation_p.G808D	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled	947	Cytoplasmic (Potential).					integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						ACGCCAGCAGGTGGAGGCTTG	0.498													17	35					0	0	0.00499	0	0		A	202288271	A	A	202288271	3	1	212	1	0	0	0	0	1	0	0	0	8774	1261	44	4	3057	4	LGR6	1	202288271	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	195883	202288271	46962350	135	103940											
MYBPH	4608	broad.mit.edu	37	chr1	203139557	203139557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggtggttgggtggtagcGctccagcactgtgaaccatt	7	10	15	9	1	0	1	0	1	0	0	1	1	1	1	2	4	3	5	2	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:203139557G>A	uc001gzh.1	-	7	1014	c.955C>T	c.(955-957)CGC>TGC	p.R319C	FMOD_uc010pqi.1_Intron	NM_004997	NP_004988	Q13203	MYBPH_HUMAN	myosin binding protein H	319	Fibronectin type-III 2.				cell adhesion|regulation of striated muscle contraction	myosin filament	structural constituent of muscle				0			BRCA - Breast invasive adenocarcinoma(75;0.153)	Colorectal(1306;0.0306)		GGGTGGTAGCGCTCCAGCACT	0.587													28	39					0	0	0.010818	0	0		A	203139557	A	A	203139557	3	1	212	1	0	0	0	0	1	0	0	0	10032	1087	38	1	494	1	MYBPH	1	203139557	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	851286	203139557	46111064	136	103941											
ZC3H11A	9877	broad.mit.edu	37	chr1	203797471	203797471	+	Silent	SNP	A	G	G	1	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	tattgggaaaatcagccaacAggatgtcaaaaattaaactg	18	9	8	6	0	2	0	2	0	0	0	2	2	2	2	1	2	3	0	1	2	8	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:203797471A>G	uc001hac.2	+	7	835	c.219A>G	c.(217-219)ACA>ACG	p.T73T	ZC3H11A_uc001had.2_Silent_p.T73T|ZC3H11A_uc001hae.2_Silent_p.T73T|ZC3H11A_uc001haf.2_Silent_p.T73T|ZC3H11A_uc010pqm.1_Silent_p.T19T|ZC3H11A_uc001hag.1_Silent_p.T73T	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	73	C3H1-type 3.						nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			ATCAGCCAACAGGATGTCAAA	0.358													18	15					0	0	0.010504	0	0		G	203797471	G	G	203797471	2	3	212	1	0	0	0	0	0	0	0	1	17585	175	7	3		3	ZC3H11A	1	203797471	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	657914	203797471	45453150	137	103942											
NFASC	23114	broad.mit.edu	37	chr1	204948558	204948558	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgaccattccaagtaccccGgcagcgttaactcagccgtc	10	8	8	15	3	1	1	1	1	0	0	3	1	2	1	5	1	4	3	5	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:204948558G>A	uc001hbj.2	+	19	2375	c.2047G>A	c.(2047-2049)GGC>AGC	p.G683S	NFASC_uc010pra.1_Missense_Mutation_p.G679S|NFASC_uc001hbi.2_Missense_Mutation_p.G679S|NFASC_uc010prb.1_Missense_Mutation_p.G694S|NFASC_uc010prc.1_Missense_Mutation_p.G250S|NFASC_uc001hbk.1_Missense_Mutation_p.G489S|NFASC_uc001hbl.1_5'Flank	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	683	Extracellular (Potential).|Fibronectin type-III 1.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	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)			CAAGTACCCCGGCAGCGTTAA	0.572													33	59					0	0	0.003755	0	0		A	204948558	A	A	204948558	3	1	212	1	0	0	0	0	1	0	0	0	10378	1116	39	1	2197	1	NFASC	1	204948558	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1151087	204948558	44302063	138	103943											
CDK18	5129	broad.mit.edu	37	chr1	205492639	205492639	+	Frame_Shift_Del	DEL	C	-	-																															ctcggtcctcttggcagagaCcccccgcaggagtgcagcac																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:205492639delC	uc001hcr.2	+	3	378	c.159delC	c.(157-159)GACfs	p.D53fs	CDK18_uc009xbk.1_RNA|CDK18_uc009xbl.1_RNA|CDK18_uc010pri.1_Frame_Shift_Del_p.P74fs|CDK18_uc001hcp.2_Frame_Shift_Del_p.D53fs|CDK18_uc001hcq.2_Frame_Shift_Del_p.D53fs|CDK18_uc010prj.1_5'UTR|CDK18_uc001hcs.2_5'UTR|CDK18_uc009xbm.1_5'UTR	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	51							ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						TTGGCAGAGACCCCCCGCAGG	0.682													5	6	---	---	---	---						.	-	205492639	-	-	205492639	7	5	212	1	0	1	0	1	0	0	0	0	3137	506	18	0	165	0	CDK18	1	205492639	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	544081	205492639	43757982	139	103944											
SLC26A9	115019	broad.mit.edu	37	chr1	205892468	205892468	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggactgagccttaccttggCgatgaccttttgcctgaaga	8	11	12	10	1	0	4	0	3	0	1	0	6	0	5	4	2	3	0	4	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:205892468C>T	uc001hdq.2	-	15	1768	c.1654G>A	c.(1654-1656)GCC>ACC	p.A552T	SLC26A9_uc001hdo.2_Missense_Mutation_p.A220T|SLC26A9_uc001hdp.2_Missense_Mutation_p.A552T	NM_052934	NP_443166	Q7LBE3	S26A9_HUMAN	solute carrier family 26, member 9 isoform a	552	STAS.					integral to membrane	chloride channel activity|secondary active sulfate transmembrane transporter activity			ovary(1)|skin(1)	2	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0458)			CTTACCTTGGCGATGACCTTT	0.557													28	50					0	0	0.003271	0	0		T	205892468	T	T	205892468	3	4	212	1	0	0	0	0	1	0	0	0	14549	768	27	1	1045	1	SLC26A9	1	205892468	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	399829	205892468	43358153	140	103945											
CR2	1380	broad.mit.edu	37	chr1	207651401	207651401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccaatggaaccctcccctggCggtttgcagatcccgtaagt	8	9	10	14	2	0	1	0	0	0	1	2	2	2	2	5	3	2	3	5	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:207651401C>T	uc001hfw.2	+	15	2991	c.2897C>T	c.(2896-2898)GCG>GTG	p.A966V	CR2_uc001hfv.2_Missense_Mutation_p.A1025V|CR2_uc009xch.2_Missense_Mutation_p.A904V	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	966	Sushi 15.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						CCTCCCCTGGCGGTTTGCAGA	0.552													7	22					0	0	0.00308	0	0		T	207651401	T	T	207651401	3	4	212	1	0	0	0	0	1	0	0	0	3845	768	27	1	3136	1	CR2	1	207651401	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1758933	207651401	41599220	141	103946											
CR1	1378	broad.mit.edu	37	chr1	207669657	207669657	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccggagcctgtcgggccgccGgcgcccggtctccccttctg	1	7	14	19	6	2	0	0	0	2	0	4	1	2	1	7	4	1	0	7	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:207669657G>A	uc001hfy.2	+	1	185	c.45G>A	c.(43-45)CCG>CCA	p.P15P	CR1_uc009xcl.1_Silent_p.P15P|CR1_uc001hfx.2_Silent_p.P15P|CR1_uc010psg.1_Silent_p.P15P|CR1_uc009xcj.1_Silent_p.P15P|CR1_uc009xck.1_Silent_p.P15P	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	15					complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						TCGGGCCGCCGGCGCCCGGTC	0.637													4	33					0	0	0.000602	0	0		A	207669657	A	A	207669657	2	1	212	1	0	0	0	0	0	0	0	1	3843	1103	39	1		1	CR1	1	207669657	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	18256	207669657	41580964	142	103947											
LAMB3	3914	broad.mit.edu	37	chr1	209790919	209790919	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcttttctgctggccgcaGtacctgctgaacctttgtgg	5	13	11	12	1	1	1	0	1	1	0	1	1	1	1	3	2	5	5	3	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:209790919G>A	uc001hhg.2	-	20	3454	c.3064C>T	c.(3064-3066)CTG>TTG	p.L1022L	LAMB3_uc009xco.2_Silent_p.L1022L|LAMB3_uc001hhh.2_Silent_p.L1022L	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	1022	Domain I.|Potential.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		GCTGGCCGCAGTACCTGCTGA	0.582													3	39					0	0	0.004672	0	0		A	209790919	A	A	209790919	2	1	212	1	0	0	0	0	0	0	0	1	8628	1020	36	4		4	LAMB3	1	209790919	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2121262	209790919	39459702	143	103948											
INTS7	25896	broad.mit.edu	37	chr1	212141284	212141284	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtaaagatctccatatcGagaagcaaggcttcgaaatt	14	10	9	8	2	1	2	0	0	1	2	4	4	1	2	1	2	1	3	1	2	6	4	rs147974722		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:212141284G>A	uc001hiw.1	-	15	2155	c.2050C>T	c.(2050-2052)CGA>TGA	p.R684*	INTS7_uc009xdb.1_Nonsense_Mutation_p.R684*|INTS7_uc001hix.1_Nonsense_Mutation_p.R560*|INTS7_uc001hiy.1_Nonsense_Mutation_p.R684*|INTS7_uc010pta.1_Nonsense_Mutation_p.R635*	NM_015434	NP_056249	Q9NVH2	INT7_HUMAN	integrator complex subunit 7	684					snRNA processing	integrator complex	protein binding				0				OV - Ovarian serous cystadenocarcinoma(81;0.00584)|all cancers(67;0.0318)|Epithelial(68;0.0852)		TCTCCATATCGAGAAGCAAGG	0.353													22	30					0	0	0.003954	0	0		A	212141284	A	A	212141284	4	1	212	1	0	0	0	0	0	1	0	0	7799	1066	37	1	862	1	INTS7	1	212141284	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2350365	212141284	37109337	144	103949											
PROX1	5629	broad.mit.edu	37	chr1	214169895	214169895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgatgcctgaccatgacaGcacagccctcttaagccggc	10	7	10	14	1	1	3	0	3	1	0	1	3	1	3	4	1	4	1	4	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:214169895G>A	uc001hkh.2	+	2	289	c.17G>A	c.(16-18)AGC>AAC	p.S6N	PROX1_uc001hkg.1_Missense_Mutation_p.S6N	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	6					aorta smooth muscle tissue morphogenesis|atrial cardiac muscle tissue morphogenesis|brain development|dorsal spinal cord development|embryonic retina morphogenesis in camera-type eye|endocardium formation|hepatocyte differentiation|kidney development|lens fiber cell morphogenesis|lung development|lymphangiogenesis|negative regulation of bile acid biosynthetic process|negative regulation of cell proliferation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of viral genome replication|neural tube development|olfactory placode formation|optic placode formation involved in camera-type eye formation|otic placode formation|pancreas development|positive regulation of cyclin-dependent protein kinase activity|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of heart growth|positive regulation of S phase of mitotic cell cycle|positive regulation of sarcomere organization|positive regulation of transcription, DNA-dependent|regulation of transcription involved in lymphatic endothelial cell fate commitment|skeletal muscle thin filament assembly|venous blood vessel morphogenesis|ventricular cardiac muscle tissue morphogenesis|ventricular cardiac myofibril development|ventricular septum morphogenesis	cytoplasm|nucleus	DBD domain binding|LBD domain binding|ligand-dependent nuclear receptor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription corepressor activity|transcription regulatory region DNA binding			ovary(3)|lung(1)|central_nervous_system(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0179)|all cancers(67;0.0488)|GBM - Glioblastoma multiforme(131;0.188)|Epithelial(68;0.219)		GACCATGACAGCACAGCCCTC	0.512													18	27					0	0	0.008871	0	0		A	214169895	A	A	214169895	3	1	212	1	0	0	0	0	1	0	0	0	12582	971	34	2	19	2	PROX1	1	214169895	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2028611	214169895	35080726	145	103950											
CENPF	1063	broad.mit.edu	37	chr1	214819474	214819474	+	Frame_Shift_Del	DEL	A	-	-																															aaagcagaagtagagactctAaaaacacaaatagaagagat																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:214819474delA	uc001hkm.2	+	13	6735	c.6561delA	c.(6559-6561)CTAfs	p.L2187fs		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2283	Potential.|2-1.|2 X 177 AA tandem repeats.|Interaction with NDE1 and NDEL1.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TAGAGACTCTAAAAACACAAA	0.373													26	44	---	---	---	---						.	-	214819474	-	-	214819474	7	5	212	1	0	1	0	1	0	0	0	0	3234	349	13	0	6607	0	CENPF	1	214819474	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	649579	214819474	34431147	146	103951											
MOSC2	54996	broad.mit.edu	37	chr1	220928350	220928350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgacaggagcctcgcctcGtgctcatctccatcatttat	7	11	7	16	3	3	0	2	0	1	0	6	2	3	1	4	1	2	1	4	1	1	2	rs145299584	by1000genomes	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:220928350G>A	uc001hmq.2	+	2	532	c.334G>A	c.(334-336)GTG>ATG	p.V112M	MOSC2_uc001hmr.2_Missense_Mutation_p.V112M|MOSC2_uc009xdx.2_Missense_Mutation_p.V112M	NM_017898	NP_060368	Q969Z3	MOSC2_HUMAN	MOCO sulphurase C-terminal domain containing 2	112						mitochondrial outer membrane|peroxisome	molybdenum ion binding|oxidoreductase activity|pyridoxal phosphate binding				0				GBM - Glioblastoma multiforme(131;0.00499)|all cancers(67;0.204)		GCCTCGCCTCGTGCTCATCTC	0.502													34	121					0	0	0.003271	0	0		A	220928350	A	A	220928350	3	1	212	1	0	0	0	0	1	0	0	0	9732	1145	40	1	340	1	MOSC2	1	220928350	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6108876	220928350	28322271	147	103952											
AIDA	64853	broad.mit.edu	37	chr1	222846720	222846720	+	Missense_Mutation	SNP	T	C	C	0	1	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	taaaatgaacatatgtatctTcttttcttgaagccacagga	14	14	6	7	0	3	2	0	2	3	0	3	3	3	3	1	1	2	1	1	1	6	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:222846720T>C	uc001hnn.2	-	8	846	c.641A>G	c.(640-642)GAA>GGA	p.E214G	AIDA_uc001hno.2_RNA|AIDA_uc010pus.1_Missense_Mutation_p.E190G	NM_022831	NP_073742	Q96BJ3	AIDA_HUMAN	axin interactor, dorsalization associated	214	Axin-binding (By similarity).				dorsal/ventral pattern formation|negative regulation of JNK cascade|negative regulation of JUN kinase activity|regulation of protein homodimerization activity						0						ATATGTATCTTCTTTTCTTGA	0.338													9	35					0	0	0.004482	0	0		C	222846720	C	C	222846720	3	2	212	1	0	0	0	0	1	0	0	0	423	1783	62	3	291	3	AIDA	1	222846720	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1918370	222846720	26403901	148	103953											
C1orf65	164127	broad.mit.edu	37	chr1	223568121	223568121	+	Missense_Mutation	SNP	T	G	G	0	1	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	caattaccaggcccggaaggTcctcatggactgccaggcca	10	6	11	14	1	1	0	1	0	0	0	2	2	2	2	5	5	2	0	5	5	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:223568121T>G	uc001hoa.2	+	1	1407	c.1304T>G	c.(1303-1305)GTC>GGC	p.V435G		NM_152610	NP_689823	Q8N715	CA065_HUMAN	hypothetical protein LOC164127	435	Potential.									central_nervous_system(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0704)		GCCCGGAAGGTCCTCATGGAC	0.597													12	40					0	0	0.013537	0	0		G	223568121	G	G	223568121	3	3	212	1	0	0	0	0	1	0	0	0	2058	1667	58	5	1306	5	C1orf65	1	223568121	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	721401	223568121	25682500	149	103954											
TP53BP2	7159	broad.mit.edu	37	chr1	223989893	223989893	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggcccctctgaagcctgaaTgaccaaggaaccatccggca	11	5	10	15	2	1	3	0	3	1	0	2	4	2	4	6	3	2	1	6	3	4	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:223989893T>C	uc010pvb.1	-	9	1442	c.1150A>G	c.(1150-1152)ATT>GTT	p.I384V	TP53BP2_uc001hod.2_Missense_Mutation_p.I255V|TP53BP2_uc010puz.1_5'Flank|TP53BP2_uc010pva.1_Missense_Mutation_p.I23V	NM_001031685	NP_001026855	Q13625	ASPP2_HUMAN	tumor protein p53 binding protein, 2 isoform 1	378					apoptosis|cell cycle|induction of apoptosis|negative regulation of cell cycle|signal transduction	nucleus|perinuclear region of cytoplasm	NF-kappaB binding|protein binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(2)|lung(1)	3				GBM - Glioblastoma multiforme(131;0.0958)		GAAGCCTGAATGACCAAGGAA	0.527													14	119					0	0	0.006122	0	0		C	223989893	C	C	223989893	3	2	212	1	0	0	0	0	1	0	0	0	16410	1464	51	3	2294	3	TP53BP2	1	223989893	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	421772	223989893	25260728	150	103955											
ENAH	55740	broad.mit.edu	37	chr1	225707109	225707109	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcgttcctgccgttccCgttcttgtctctctctctcc	1	15	7	18	3	4	0	0	0	4	0	9	0	6	0	5	1	1	3	5	1	0	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:225707109C>T	uc001hpc.1	-	5	1046	c.593G>A	c.(592-594)CGG>CAG	p.R198Q	ENAH_uc001hpd.1_Missense_Mutation_p.R198Q	NM_001008493	NP_001008493	Q8N8S7	ENAH_HUMAN	enabled homolog isoform a	198	Potential.|9.|9 X 5 AA tandem repeats of [LMQ]-E-[QR]- E-[QR].				axon guidance|intracellular transport|T cell receptor signaling pathway	cytosol|filopodium|focal adhesion|lamellipodium|synapse	actin binding|SH3 domain binding|WW domain binding			ovary(1)|skin(1)	2	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.19)		ctgccgttccCGTTCTTGTct	0.1													10	16					0	0	0.008871	0	0		T	225707109	T	T	225707109	3	4	212	1	0	0	0	0	1	0	0	0	5119	652	23	1	1226	1	ENAH	1	225707109	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1717216	225707109	23543512	151	103956											
ITPKB	3707	broad.mit.edu	37	chr1	226835021	226835021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatcagccggtccaggcagCgctgctctgactcacagtgc	7	7	11	16	2	3	1	2	1	1	0	4	1	4	1	3	2	4	3	3	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:226835021C>T	uc010pvo.1	-	4	2433	c.2093G>A	c.(2092-2094)CGC>CAC	p.R698H		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	698							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				GTCCAGGCAGCGCTGCTCTGA	0.592													11	38					0	0	0.008291	0	0		T	226835021	T	T	226835021	3	4	212	1	0	0	0	0	1	0	0	0	7934	768	27	1	767	1	ITPKB	1	226835021	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1127912	226835021	22415600	152	103957											
CABC1	56997	broad.mit.edu	37	chr1	227152799	227152799	+	Silent	SNP	C	T	T	0	0	0	1	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	gcagccggagcctccacagaCttctcttcagcctccgctcc	6	8	8	19	2	2	1	1	0	1	1	6	2	5	2	6	1	3	2	6	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:227152799C>T	uc001hqm.1	+	8	3695	c.276C>T	c.(274-276)GAC>GAT	p.D92D	CABC1_uc010pvp.1_Silent_p.D55D|CABC1_uc001hqn.1_Silent_p.D92D|CABC1_uc009xeq.1_Silent_p.D40D|CABC1_uc010pvq.1_Intron|CABC1_uc010pvr.1_5'Flank	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	92					cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				CCTCCACAGACTTCTCTTCAG	0.602													12	35					0	0	0.00245	0	0		T	227152799	T	T	227152799	2	4	212	1	0	0	0	0	0	0	0	1	2530	564	20	4		4	CABC1	1	227152799	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	317778	227152799	22097822	153	103958											
OBSCN	84033	broad.mit.edu	37	chr1	228462328	228462328	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accgtggtcgcagaggagggCggcgaggccaccttccagtg	7	5	17	12	4	0	1	0	0	0	1	2	3	1	2	4	5	0	1	4	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:228462328C>T	uc009xez.1	+	20	5783	c.5739C>T	c.(5737-5739)GGC>GGT	p.G1913G	OBSCN_uc001hsn.2_Silent_p.G1913G	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1913	Ig-like 19.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CAGAGGAGGGCGGCGAGGCCA	0.632													4	17					0	0	0.000602	0	0		T	228462328	T	T	228462328	2	4	212	1	0	0	0	0	0	0	0	1	10831	755	27	1		1	OBSCN	1	228462328	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1309529	228462328	20788293	154	103959											
OBSCN	84033	broad.mit.edu	37	chr1	228509885	228509885	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccctgtggtgcctccagagCcattgcccagcctactgact	6	9	9	17	0	0	2	0	1	0	1	1	2	1	2	7	1	5	0	7	1	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:228509885C>T	uc009xez.1	+	55	15387	c.15343C>T	c.(15343-15345)CCA>TCA	p.P5115S	OBSCN_uc001hsn.2_Missense_Mutation_p.P5115S	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5115					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GCCTCCAGAGCCATTGCCCAG	0.612													10	27					0	0	0.010729	0	0		T	228509885	T	T	228509885	3	4	212	1	0	0	0	0	1	0	0	0	10831	739	26	2	15557	2	OBSCN	1	228509885	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	47557	228509885	20740736	155	103960											
URB2	9816	broad.mit.edu	37	chr1	229772212	229772212	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acacttgggcccaggtggacGctatgttcagtttgaactgt	8	12	12	9	1	1	1	1	1	0	0	1	2	1	2	1	3	1	3	1	3	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:229772212G>A	uc001hts.1	+	4	1988	c.1852G>A	c.(1852-1854)GCT>ACT	p.A618T	URB2_uc009xfd.1_Missense_Mutation_p.A618T	NM_014777	NP_055592	Q14146	URB2_HUMAN	URB2 ribosome biogenesis 2 homolog	618						nucleolus				central_nervous_system(2)|ovary(1)	3						CCAGGTGGACGCTATGTTCAG	0.572													52	175					0	0	0.01441	0	0		A	229772212	A	A	229772212	3	1	212	1	0	0	0	0	1	0	0	0	17051	1087	38	1	1862	1	URB2	1	229772212	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1262327	229772212	19478409	156	103961											
AGT	183	broad.mit.edu	37	chr1	230846219	230846219	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggtggccccatggaccacGccccatagctcactgtgcat	8	7	10	16	2	1	0	1	0	0	0	1	1	1	1	5	3	2	2	5	3	1	1	rs143232180		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:230846219G>A	uc001hty.3	-	2	886	c.378C>T	c.(376-378)GGC>GGT	p.G126G	AGT_uc009xfe.2_Silent_p.G126G|AGT_uc009xff.2_Silent_p.G98G	NM_000029	NP_000020	P01019	ANGT_HUMAN	angiotensinogen preproprotein	126					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|blood vessel remodeling|cell-cell signaling|cellular lipid metabolic process|G-protein signaling, coupled to cGMP nucleotide second messenger|kidney development|low-density lipoprotein particle remodeling|negative regulation of nerve growth factor receptor signaling pathway|nitric oxide mediated signal transduction|positive regulation of activation of JAK2 kinase activity|positive regulation of apoptosis|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of cardiac muscle hypertrophy|positive regulation of cholesterol esterification|positive regulation of cytokine production|positive regulation of endothelial cell migration|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of fibroblast proliferation|positive regulation of inflammatory response|positive regulation of NAD(P)H oxidase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein tyrosine kinase activity|positive regulation of reactive oxygen species metabolic process|positive regulation of transcription, DNA-dependent|regulation of proteolysis|regulation of renal output by angiotensin|regulation of renal sodium excretion|regulation of vasoconstriction|renin-angiotensin regulation of aldosterone production|response to muscle activity involved in regulation of muscle adaptation	extracellular space|soluble fraction	acetyltransferase activator activity|growth factor activity|hormone activity|serine-type endopeptidase inhibitor activity|type 1 angiotensin receptor binding|type 2 angiotensin receptor binding				0	Breast(184;0.0735)|Ovarian(103;0.183)	all_cancers(173;4.64e-23)|all_epithelial(177;3.61e-18)|Breast(1374;0.00093)|all_neural(198;0.0604)|Prostate(94;0.167)		GBM - Glioblastoma multiforme(131;4.4e-06)|Colorectal(1306;5.46e-06)|COAD - Colon adenocarcinoma(196;0.000256)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)	Aliskiren(DB01258)|Atorvastatin(DB01076)|Cilazapril(DB01340)|Irbesartan(DB01029)|Lisinopril(DB00722)|Ouabain(DB01092)|Simvastatin(DB00641)	CATGGACCACGCCCCATAGCT	0.582													33	115					0	0	0.004878	0	0		A	230846219	A	A	230846219	2	1	212	1	0	0	0	0	0	0	0	1	399	1074	38	1		1	AGT	1	230846219	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1074007	230846219	18404402	157	103962											
DISC1	27185	broad.mit.edu	37	chr1	231830305	231830305	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgtctctctcggcccttcagTctcttggctacacgggtctc	3	14	9	15	2	5	0	1	0	4	0	9	0	5	0	1	3	1	1	1	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:231830305T>G	uc001huz.2	+	2	854	c.801T>G	c.(799-801)AGT>AGG	p.S267R	TSNAX-DISC1_uc010pwe.1_Missense_Mutation_p.S222R|TSNAX-DISC1_uc010pwf.1_Missense_Mutation_p.S222R|TSNAX-DISC1_uc010pwg.1_Missense_Mutation_p.S256R|TSNAX-DISC1_uc010pwh.1_Missense_Mutation_p.S222R|TSNAX-DISC1_uc010pwi.1_Missense_Mutation_p.S222R|TSNAX-DISC1_uc010pwj.1_Missense_Mutation_p.S256R|TSNAX-DISC1_uc010pwk.1_Missense_Mutation_p.S256R|TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pwo.1_Missense_Mutation_p.S267R|DISC1_uc010pwp.1_Missense_Mutation_p.S267R|DISC1_uc010pwq.1_Missense_Mutation_p.S267R|DISC1_uc010pwr.1_Missense_Mutation_p.S267R|DISC1_uc010pws.1_Missense_Mutation_p.S267R|DISC1_uc010pwt.1_Missense_Mutation_p.S267R|DISC1_uc010pwu.1_Intron|DISC1_uc010pwv.1_RNA|DISC1_uc010pww.1_Missense_Mutation_p.S267R|DISC1_uc010pwx.1_RNA|DISC1_uc010pwy.1_RNA|DISC1_uc010pwz.1_RNA|DISC1_uc010pxa.1_RNA|DISC1_uc001huy.2_Missense_Mutation_p.S267R|DISC1_uc010pxb.1_Missense_Mutation_p.S267R|DISC1_uc010pxc.1_Missense_Mutation_p.S267R|DISC1_uc010pxd.1_5'UTR|DISC1_uc010pxe.1_Missense_Mutation_p.S267R|DISC1_uc009xfr.2_Missense_Mutation_p.S222R|DISC1_uc010pxf.1_Missense_Mutation_p.S267R|DISC1_uc010pxg.1_Missense_Mutation_p.S267R|DISC1_uc010pxh.1_Missense_Mutation_p.S267R|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_5'UTR|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Missense_Mutation_p.S267R|DISC1_uc010pxn.1_5'UTR|DISC1_uc001hva.2_Missense_Mutation_p.S267R|DISC1_uc010pwm.1_Missense_Mutation_p.S267R|DISC1_uc001hux.1_Missense_Mutation_p.S267R|DISC1_uc001hvc.3_Missense_Mutation_p.S267R|DISC1_uc010pwn.1_Missense_Mutation_p.S267R	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	267	Interaction with MAP1A.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				GGCCCTTCAGTCTCTTGGCTA	0.617													11	37					0	0	0.008291	0	0		G	231830305	G	G	231830305	3	3	212	1	0	0	0	0	1	0	0	0	4544	1664	58	5	807	5	DISC1	1	231830305	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	984086	231830305	17420316	158	103963											
DISC1	27185	broad.mit.edu	37	chr1	232144539	232144539	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tctctgtctcagctgcaagtGtccactgcttgggaaagtgt	7	13	11	10	0	2	0	1	0	2	0	5	1	3	1	1	1	3	3	1	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:232144539G>T	uc001huz.2	+	11	2104	c.2051G>T	c.(2050-2052)TGT>TTT	p.C684F	TSNAX-DISC1_uc010pwl.1_RNA|DISC1_uc010pxd.1_Missense_Mutation_p.C329F|DISC1_uc010pxe.1_Missense_Mutation_p.C684F|DISC1_uc009xfr.2_Missense_Mutation_p.C639F|DISC1_uc010pxf.1_Missense_Mutation_p.V664F|DISC1_uc010pxg.1_3'UTR|DISC1_uc010pxh.1_Missense_Mutation_p.C716F|DISC1_uc010pxi.1_RNA|DISC1_uc010pxj.1_Missense_Mutation_p.C329F|DISC1_uc010pxk.1_RNA|DISC1_uc010pxl.1_RNA|DISC1_uc010pxm.1_Missense_Mutation_p.C562F|DISC1_uc010pxn.1_Missense_Mutation_p.C329F|DISC1_uc001hva.2_Missense_Mutation_p.C684F	NM_018662	NP_061132	Q9NRI5	DISC1_HUMAN	disrupted in schizophrenia 1 isoform L	684	Necessary and sufficient for interaction with PCNT and localization at the centrosome.|Interaction with TRAF3IP1.|Interaction with ATF4 and ATF5.				microtubule cytoskeleton organization|neuron migration|positive regulation of neuroblast proliferation|positive regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	centrosome|microtubule	protein binding			skin(1)	1		all_cancers(173;0.0208)|Prostate(94;0.0975)				AGCTGCAAGTGTCCACTGCTT	0.478													30	26					1.45844e-13	1.63473e-13	0.013726	1	0		T	232144539	T	T	232144539	3	4	212	1	0	0	0	0	1	0	0	0	4544	1377	48	5	2829	5	DISC1	1	232144539	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	314234	232144539	17106082	159	103964											
PCNXL2	80003	broad.mit.edu	37	chr1	233397814	233397814	+	Missense_Mutation	SNP	A	G	G	1	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	tggcccagaagagtgatgagAggttatgctttgccctctgg	8	11	14	8	0	1	4	0	2	1	3	1	5	1	4	2	3	2	2	2	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:233397814A>G	uc001hvl.2	-	3	692	c.457T>C	c.(457-459)TCT>CCT	p.S153P	PCNXL2_uc009xfu.2_5'Flank|PCNXL2_uc009xfv.1_5'Flank	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	153						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GAGTGATGAGAGGTTATGCTT	0.493													16	98					0	0	0.008871	0	0		G	233397814	G	G	233397814	3	3	212	1	0	0	0	0	1	0	0	0	11611	304	11	3	6084	3	PCNXL2	1	233397814	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1253275	233397814	15852807	160	103965											
SLC35F3	148641	broad.mit.edu	37	chr1	234041293	234041293	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtggcatgaggaggtcaccGgacgtcagcccccggagact	9	5	15	12	3	2	2	2	1	0	1	2	5	2	4	3	5	1	1	3	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:234041293G>A	uc001hvy.1	+	2	217	c.72G>A	c.(70-72)CCG>CCA	p.P24P		NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	Error:Variant_position_missing_in_Q8IY50_after_alignment					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			GGAGGTCACCGGACGTCAGCC	0.647													7	23					0	0	0.001984	0	0		A	234041293	A	A	234041293	2	1	212	1	0	0	0	0	0	0	0	1	14615	1103	39	1		1	SLC35F3	1	234041293	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	643479	234041293	15209328	161	103966											
GGPS1	9453	broad.mit.edu	37	chr1	235505516	235505516	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacccttgatcacccagatgCagtgaagctttttacccgcc	10	10	7	14	1	1	3	1	2	0	1	1	3	1	3	4	0	4	2	4	0	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:235505516C>T	uc001hwv.2	+	4	416	c.332C>T	c.(331-333)GCA>GTA	p.A111V	GGPS1_uc001hww.2_Missense_Mutation_p.A111V|GGPS1_uc001hwx.2_Missense_Mutation_p.A57V|GGPS1_uc001hwy.2_Missense_Mutation_p.A111V	NM_001037277	NP_001032354	O95749	GGPPS_HUMAN	geranylgeranyl diphosphate synthase 1 isoform A	111					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|soluble fraction	dimethylallyltranstransferase activity|farnesyltranstransferase activity|geranyltranstransferase activity|metal ion binding			central_nervous_system(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00192)|Prostate(94;0.0294)|all_epithelial(177;0.155)|Lung SC(1967;0.238)	OV - Ovarian serous cystadenocarcinoma(106;1.39e-05)			CACCCAGATGCAGTGAAGCTT	0.448													7	34					0	0	0.006214	0	0		T	235505516	T	T	235505516	3	4	212	1	0	0	0	0	1	0	0	0	6375	710	25	2	342	2	GGPS1	1	235505516	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1464223	235505516	13745105	162	103967											
FMN2	56776	broad.mit.edu	37	chr1	240286542	240286542	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctccagaagaagcagagaAgttttgctcccggatcattg	11	9	11	10	1	1	3	1	0	0	3	3	5	3	4	3	1	2	3	3	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:240286542A>C	uc010pyd.1	+	2	1904	c.1679A>C	c.(1678-1680)AAG>ACG	p.K560T	FMN2_uc010pye.1_Missense_Mutation_p.K560T	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	560					actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			GAAGCAGAGAAGTTTTGCTCC	0.512													20	69					0	0	0.00278	0	0		C	240286542	C	C	240286542	3	2	212	1	0	0	0	0	1	0	0	0	5964	72	3	5	1685	5	FMN2	1	240286542	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4781026	240286542	8964079	163	103968											
FMN2	56776	broad.mit.edu	37	chr1	240371894	240371894	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	accaaccccacaggtgtgtgGatttcttcctcctccattgc	7	12	7	15	0	1	0	0	0	1	0	4	1	4	1	6	2	2	0	6	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:240371894G>T	uc010pyd.1	+	5	4007	c.3782G>T	c.(3781-3783)GGA>GTA	p.G1261V	FMN2_uc010pye.1_Missense_Mutation_p.G1265V	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1261	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CAGGTGTGTGGATTTCTTCCT	0.542													20	24					2.94398e-08	3.15169e-08	0.007413	1	0		T	240371894	T	T	240371894	3	4	212	1	0	0	0	0	1	0	0	0	5964	1174	41	5	3800	5	FMN2	1	240371894	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	85352	240371894	8878727	164	103969											
EXO1	9156	broad.mit.edu	37	chr1	242020674	242020674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcagggggtagattgcCtcgtggctccctatgaagct	6	11	14	10	1	1	2	1	1	1	1	4	2	2	2	2	4	2	3	2	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:242020674C>A	uc001hzh.2	+	7	973	c.433C>A	c.(433-435)CTC>ATC	p.L145I	EXO1_uc001hzi.2_Missense_Mutation_p.L145I|EXO1_uc001hzj.2_Missense_Mutation_p.L145I|EXO1_uc009xgq.2_Missense_Mutation_p.L145I	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	145	I-domain.|Interaction with MSH3.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			GGTAGATTGCCTCGTGGCTCC	0.493								Direct_reversal_of_damage|Editing_and_processing_nucleases					38	144					1.96642e-18	2.2607e-18	0.006999	1	0		A	242020674	A	A	242020674	3	1	212	1	0	0	0	0	1	0	0	0	5308	681	24	5	447	5	EXO1	1	242020674	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1648780	242020674	7229947	165	103970											
C1orf101	257044	broad.mit.edu	37	chr1	244643032	244643032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttttaggatgaagaagaacGctatttatttgtggaaagtt	13	15	10	3	1	0	3	0	1	0	2	0	5	0	5	0	2	1	2	0	2	7	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:244643032G>A	uc001iam.2	+	5	331	c.272G>A	c.(271-273)CGC>CAC	p.R91H	C1orf101_uc001iak.1_5'UTR|C1orf101_uc001ial.2_Missense_Mutation_p.R91H|C1orf101_uc010pym.1_5'UTR|C1orf101_uc010pyn.1_Missense_Mutation_p.R94H	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	91	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			GAAGAAGAACGCTATTTATTT	0.313													12	37					0	0	0.00245	0	0		A	244643032	A	A	244643032	3	1	212	1	0	0	0	0	1	0	0	0	1979	1087	38	1	290	1	C1orf101	1	244643032	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2622358	244643032	4607589	166	103971											
NLRP3	114548	broad.mit.edu	37	chr1	247582207	247582207	+	Silent	SNP	C	T	T	0	0	0	1	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	gactatcctccccagaagggCtgcatccccctcccgagggg	7	6	11	17	1	0	1	0	0	0	1	4	3	4	1	6	3	1	2	6	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:247582207C>T	uc001icr.2	+	3	249	c.111C>T	c.(109-111)GGC>GGT	p.G37G	NLRP3_uc001ics.2_Silent_p.G37G|NLRP3_uc001icu.2_Silent_p.G37G|NLRP3_uc001icw.2_Silent_p.G37G|NLRP3_uc001icv.2_Silent_p.G37G|NLRP3_uc010pyw.1_Silent_p.G35G|NLRP3_uc001ict.1_Silent_p.G35G	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	37	DAPIN.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CCCAGAAGGGCTGCATCCCCC	0.567													3	28					0	0	0.004672	0	0		T	247582207	T	T	247582207	2	4	212	1	0	0	0	0	0	0	0	1	10497	784	28	2		2	NLRP3	1	247582207	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2939175	247582207	1668414	167	103972											
OR2G2	81470	broad.mit.edu	37	chr1	247752027	247752027	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctcccggctgtgatgtcCtgtgaccgctatgtggctgt	3	13	13	12	2	0	2	0	2	0	0	3	2	3	2	4	2	0	3	4	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:247752027C>A	uc010pyy.1	+	1	366	c.366C>A	c.(364-366)TCC>TCA	p.S122S		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	122	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			CTGTGATGTCCTGTGACCGCT	0.532													50	148					7.10663e-31	8.3479e-31	0.01441	1	0		A	247752027	A	A	247752027	2	1	212	1	0	0	0	0	0	0	0	1	11017	668	24	5		5	OR2G2	1	247752027	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	169820	247752027	1498594	168	103973											
OR2T8	343172	broad.mit.edu	37	chr1	248084575	248084575	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcggctgactacttgaccGgaagtaaggccatctcccgc	8	8	12	13	3	1	2	0	2	1	0	2	3	1	3	3	4	1	2	3	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:248084575G>A	uc010pzc.1	+	1	256	c.256G>A	c.(256-258)GGA>AGA	p.G86R		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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)			CTACTTGACCGGAAGTAAGGC	0.577													10	45					0	0	0.003163	0	0		A	248084575	A	A	248084575	3	1	212	1	0	0	0	0	1	0	0	0	11049	1117	39	1	258	1	OR2T8	1	248084575	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	332548	248084575	1166046	169	103974											
OR2L2	26246	broad.mit.edu	37	chr1	248202020	248202020	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taacaggatcttggatgataAgctctatcaactcttgtgct	11	14	8	8	0	4	1	1	1	3	0	4	3	4	3	0	2	4	2	0	2	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:248202020A>C	uc001idw.2	+	1	547	c.451A>C	c.(451-453)AGC>CGC	p.S151R	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	151	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)			TTGGATGATAAGCTCTATCAA	0.418													50	113					0	0	0.01441	0	0		C	248202020	C	C	248202020	3	2	212	1	0	0	0	0	1	0	0	0	11026	72	3	5	453	5	OR2L2	1	248202020	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	117445	248202020	1048601	170	103975											
OR2T33	391195	broad.mit.edu	37	chr1	248436861	248436861	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgggagatggccttacttcCggtcaagtagtcagccgcca	8	8	13	12	3	2	1	2	0	0	1	3	2	3	1	4	3	2	1	4	3	3	3	rs139302289	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr1:248436861C>T	uc010pzi.1	-	1	256	c.256G>A	c.(256-258)GGA>AGA	p.G86R		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	86	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GCCTTACTTCCGGTCAAGTAG	0.567													11	292					0	0	0.00333	0	0		T	248436861	T	T	248436861	3	4	212	1	0	0	0	0	1	0	0	0	11043	661	23	1	709	1	OR2T33	1	248436861	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	234841	248436861	813760	171	103976											
PXDN	7837	broad.mit.edu	37	chr2	1652162	1652162	+	Silent	SNP	C	T	T	0	0	0	1	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	gtgttcagcagctgcgagggCacacgcattttccccgccac	7	8	11	15	3	1	0	1	0	0	0	2	1	2	0	3	1	3	5	3	1	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:1652162C>T	uc002qxa.2	-	17	3454	c.3390G>A	c.(3388-3390)GTG>GTA	p.V1130V		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1130					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCTGCGAGGGCACACGCATTT	0.632													11	31					0	0	0.010729	0	0		T	1652162	T	T	1652162	2	4	212	1	0	0	0	0	0	0	0	1	12872	697	25	2		2	PXDN	2	1652162	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		1652162	241547211	172	103977											
PXDN	7837	broad.mit.edu	37	chr2	1652753	1652753	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccctgccgcagcaggccGcggtggctggccaggtcgcg	4	5	17	15	5	0	0	0	0	0	0	1	0	0	0	4	5	3	3	4	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:1652753G>A	uc002qxa.2	-	17	2863	c.2799C>T	c.(2797-2799)CGC>CGT	p.R933R		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	933					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCAGCAGGCCGCGGTGGCTGG	0.692													11	8					0	0	0.001855	0	0		A	1652753	A	A	1652753	2	1	212	1	0	0	0	0	0	0	0	1	12872	1074	38	1		1	PXDN	2	1652753	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	591	1652753	241546620	173	103978											
COLEC11	78989	broad.mit.edu	37	chr2	3691529	3691529	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgacctggagaaggagggcGccttcgtgtactctgaccac	9	7	13	12	3	1	2	0	1	1	1	2	5	1	3	3	3	1	1	3	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:3691529G>A	uc002qya.2	+	7	785	c.637G>A	c.(637-639)GCC>ACC	p.A213T	COLEC11_uc002qxz.2_Missense_Mutation_p.A210T|COLEC11_uc002qyb.2_Missense_Mutation_p.A189T|COLEC11_uc002qyc.2_Missense_Mutation_p.A189T|COLEC11_uc010ewo.2_Missense_Mutation_p.A165T|COLEC11_uc010ewp.2_Missense_Mutation_p.A187T|COLEC11_uc010ewq.2_Missense_Mutation_p.A163T|COLEC11_uc010ewr.2_Missense_Mutation_p.A163T|COLEC11_uc010ews.2_Missense_Mutation_p.A139T	NM_024027	NP_076932	Q9BWP8	COL11_HUMAN	collectin sub-family member 11 isoform a	213	C-type lectin.					collagen	mannose binding				0	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.093)			OV - Ovarian serous cystadenocarcinoma(76;0.127)		GAAGGAGGGCGCCTTCGTGTA	0.632													16	50					0	0	0.004007	0	0		A	3691529	A	A	3691529	3	1	212	1	0	0	0	0	1	0	0	0	3714	1087	38	1	742	1	COLEC11	2	3691529	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2038776	3691529	239507844	174	103979											
ITGB1BP1	9270	broad.mit.edu	37	chr2	9547672	9547672	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttttcccgcccccagaccgTcatcgtaacacaccatccgg	8	9	6	18	4	1	1	1	0	0	1	4	1	3	1	6	1	1	1	6	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:9547672T>C	uc002qzj.2	-	6	614	c.437A>G	c.(436-438)GAC>GGC	p.D146G	ITGB1BP1_uc002qzk.2_Intron|ITGB1BP1_uc002qzl.2_Intron|ITGB1BP1_uc002qzm.2_RNA|ITGB1BP1_uc010yiy.1_Missense_Mutation_p.D102G|ITGB1BP1_uc002qzn.1_Missense_Mutation_p.D146G	NM_004763	NP_004754	O14713	ITBP1_HUMAN	integrin cytoplasmic domain-associated protein 1	146	PID.				cell migration|cell-matrix adhesion|intracellular protein kinase cascade	cytosol|lamellipodium|membrane|ruffle	protein binding|protein binding				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.23)		CCCCAGACCGTCATCGTAACA	0.488													15	61					0	0	0.006122	0	0		C	9547672	C	C	9547672	3	2	212	1	0	0	0	0	1	0	0	0	7907	1667	58	3	173	3	ITGB1BP1	2	9547672	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	5856143	9547672	233651701	175	103980											
PDIA6	10130	broad.mit.edu	37	chr2	10929969	10929969	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaccgtcataatccacaGgagactcgcctttctgaaat	11	9	7	14	2	2	2	1	1	1	1	4	3	3	2	4	1	0	0	4	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:10929969G>T	uc002rau.2	-	8	884	c.746C>A	c.(745-747)CCT>CAT	p.P249H	PDIA6_uc010yjg.1_Missense_Mutation_p.P246H|PDIA6_uc002rav.2_Missense_Mutation_p.P301H|PDIA6_uc010yjh.1_Missense_Mutation_p.P254H|PDIA6_uc002raw.2_Missense_Mutation_p.P297H	NM_005742	NP_005733	Q15084	PDIA6_HUMAN	protein disulfide isomerase A6 precursor	249	Thioredoxin 2.				cell redox homeostasis|glycerol ether metabolic process|protein folding	endoplasmic reticulum lumen|ER-Golgi intermediate compartment|melanosome|plasma membrane	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.149)|OV - Ovarian serous cystadenocarcinoma(76;0.15)		ATAATCCACAGGAGACTCGCC	0.428													14	97					7.93312e-07	8.39493e-07	0.00245	1	0		T	10929969	T	T	10929969	3	4	212	1	0	0	0	0	1	0	0	0	11691	1000	35	5	600	5	PDIA6	2	10929969	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1382297	10929969	232269404	176	103981											
GREB1	9687	broad.mit.edu	37	chr2	11750894	11750894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgccctgatggccgtaagcgGcctcccgcagatgaagaact	9	6	12	14	4	0	4	0	2	0	2	1	4	1	4	4	2	2	2	4	2	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:11750894G>A	uc002rbk.1	+	18	3047	c.2747G>A	c.(2746-2748)GGC>GAC	p.G916D	GREB1_uc002rbo.1_Missense_Mutation_p.G550D|GREB1_uc002rbp.1_5'Flank	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	916						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GCCGTAAGCGGCCTCCCGCAG	0.632													22	90					0	0	0.010504	0	0		A	11750894	A	A	11750894	3	1	212	1	0	0	0	0	1	0	0	0	6776	1203	42	2	2921	2	GREB1	2	11750894	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	820925	11750894	231448479	177	103982											
GREB1	9687	broad.mit.edu	37	chr2	11759017	11759017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtggacggcttccacccccGcaggctgctgctcagcggcc	4	6	13	18	4	1	0	1	0	0	0	2	1	2	1	4	4	3	5	4	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:11759017G>A	uc002rbk.1	+	22	4316	c.4016G>A	c.(4015-4017)CGC>CAC	p.R1339H	GREB1_uc002rbp.1_Missense_Mutation_p.R337H	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	1339						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		TTCCACCCCCGCAGGCTGCTG	0.716													6	7					0	0	0.00308	0	0		A	11759017	A	A	11759017	3	1	212	1	0	0	0	0	1	0	0	0	6776	1087	38	1	4206	1	GREB1	2	11759017	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8123	11759017	231440356	178	103983											
APOB	338	broad.mit.edu	37	chr2	21237354	21237354	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttttctgggatgtggaagtCtggcaatcccatgttctgga	7	14	13	7	0	3	0	0	0	3	0	4	3	4	3	1	4	0	3	1	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:21237354C>A	uc002red.2	-	24	3936	c.3808G>T	c.(3808-3810)GAC>TAC	p.D1270Y		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1270					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	ATGTGGAAGTCTGGCAATCCC	0.428													20	46					0.000295444	0.000304396	0.014323	1	0		A	21237354	A	A	21237354	3	1	212	1	0	0	0	0	1	0	0	0	785	913	32	5	9907	5	APOB	2	21237354	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	9478337	21237354	221962019	179	103984											
ATAD2B	54454	broad.mit.edu	37	chr2	24042724	24042724	+	Silent	SNP	A	G	G	1	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	gataaagcattttcatcttcActatcctctaaaattaaagt	15	15	3	8	0	4	0	2	0	2	0	5	1	5	0	1	0	1	1	1	0	7	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:24042724A>G	uc002rek.3	-	17	2454	c.2160T>C	c.(2158-2160)AGT>AGC	p.S720S	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_5'UTR|ATAD2B_uc002rej.3_5'UTR	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	720							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTTCATCTTCACTATCCTCTA	0.328													6	15					0	0	0.001168	0	0		G	24042724	G	G	24042724	2	3	212	1	0	0	0	0	0	0	0	1	1073	156	6	3		3	ATAD2B	2	24042724	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2805370	24042724	219156649	180	103985											
C2orf84	653140	broad.mit.edu	37	chr2	24406406	24406406	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acttgaagaaatagagaaggCcaggctgcatgccagctcgc	13	6	12	10	1	0	3	0	1	0	2	1	4	0	3	2	2	3	3	2	2	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:24406406C>T	uc002rfc.2	+	5	379	c.293C>T	c.(292-294)GCC>GTC	p.A98V	C2orf84_uc010eyc.2_RNA	NM_001040710	NP_001035800	Q86W67	CB084_HUMAN	hypothetical protein LOC653140	98											0						ATAGAGAAGGCCAGGCTGCAT	0.423													10	37					0	0	0.010729	0	0		T	24406406	T	T	24406406	3	4	212	1	0	0	0	0	1	0	0	0	2202	739	26	2	307	2	C2orf84	2	24406406	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	363682	24406406	218792967	181	103986											
NCOA1	8648	broad.mit.edu	37	chr2	24929665	24929665	+	Silent	SNP	A	C	C	1	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	aacagccaaggaagtttcggAtgctcacccggaagtcagat	13	7	11	10	2	2	1	2	0	0	1	3	4	2	4	2	3	3	2	2	3	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:24929665A>C	uc002rfk.2	+	11	1584	c.1326A>C	c.(1324-1326)GGA>GGC	p.G442G	NCOA1_uc010eye.2_Silent_p.G442G|NCOA1_uc002rfi.2_Silent_p.G291G|NCOA1_uc002rfj.2_Silent_p.G442G|NCOA1_uc002rfl.2_Silent_p.G442G	NM_003743	NP_003734	Q15788	NCOA1_HUMAN	nuclear receptor coactivator 1 isoform 1	442	Interaction with STAT3.|Ser-rich.								PAX3/NCOA1(8)	soft_tissue(8)|ovary(1)|lung(1)|skin(1)	11	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GAAGTTTCGGATGCTCACCCG	0.463			T	PAX3	alveolar rhadomyosarcoma								28	101					0	0	0.010818	0	0		C	24929665	C	C	24929665	2	2	212	1	0	0	0	0	0	0	0	1	10247	320	12	5		5	NCOA1	2	24929665	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	523259	24929665	218269708	182	103987											
ADCY3	109	broad.mit.edu	37	chr2	25043704	25043704	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaccccagccagaaccccGcctttgttcatgcctagggt	8	9	9	15	1	1	2	1	1	0	1	1	2	1	2	7	1	3	1	7	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:25043704G>A	uc002rfs.3	-	20	3340	c.3141C>T	c.(3139-3141)GGC>GGT	p.G1047G	ADCY3_uc002rfr.3_Silent_p.G634G|ADCY3_uc010ykm.1_Silent_p.G1048G	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	1047	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					CCAGAACCCCGCCTTTGTTCA	0.567													22	83					0	0	0.003954	0	0		A	25043704	A	A	25043704	2	1	212	1	0	0	0	0	0	0	0	1	295	1074	38	1		1	ADCY3	2	25043704	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	114039	25043704	218155669	183	103988											
ADCY3	109	broad.mit.edu	37	chr2	25047330	25047330	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaggcctcgttccagcgtcGcatctcatagacacgttcct	8	10	8	15	4	1	1	1	0	1	1	6	1	3	1	3	1	1	3	3	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:25047330G>A	uc002rfs.3	-	16	2852	c.2653C>T	c.(2653-2655)CGA>TGA	p.R885*	ADCY3_uc002rfr.3_Nonsense_Mutation_p.R472*|ADCY3_uc010ykm.1_Nonsense_Mutation_p.R886*	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	885	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					TTCCAGCGTCGCATCTCATAG	0.542													23	63					0	0	0.003954	0	0		A	25047330	A	A	25047330	4	1	212	1	0	0	0	0	0	1	0	0	295	1095	38	1	805	1	ADCY3	2	25047330	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3626	25047330	218152043	184	103989											
HADHA	3030	broad.mit.edu	37	chr2	26427022	26427022	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttatccacggagacttgggCgatgcctgctcccatcagcc	7	9	10	15	2	1	1	1	0	0	1	3	3	3	1	4	2	3	1	4	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:26427022C>T	uc002rgy.2	-	12	1259	c.1129G>A	c.(1129-1131)GCC>ACC	p.A377T	HADHA_uc010yks.1_Missense_Mutation_p.A290T	NM_000182	NP_000173	P40939	ECHA_HUMAN	mitochondrial trifunctional protein, alpha	377					fatty acid beta-oxidation	fatty acid beta-oxidation multienzyme complex|mitochondrial nucleoid|nucleolus	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acetyltransferase activity|coenzyme binding|enoyl-CoA hydratase activity|long-chain-3-hydroxyacyl-CoA dehydrogenase activity|protein binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				NADH(DB00157)	GAGACTTGGGCGATGCCTGCT	0.488													94	266					0	0	0.01441	0	0		T	26427022	T	T	26427022	3	4	212	1	0	0	0	0	1	0	0	0	6959	768	27	1	1198	1	HADHA	2	26427022	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1379692	26427022	216772351	185	103990											
HADHB	3032	broad.mit.edu	37	chr2	26502871	26502871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttttaataggaaaagataCagttaccaaagataatggca	18	12	7	4	0	0	2	0	0	0	2	0	3	0	3	1	2	2	2	1	2	8	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:26502871C>T	uc002rgz.2	+	10	1072	c.821C>T	c.(820-822)ACA>ATA	p.T274I	HADHB_uc010ykv.1_Missense_Mutation_p.T252I|HADHB_uc010ykw.1_Missense_Mutation_p.T259I|HADHB_uc002rha.2_Missense_Mutation_p.T151I|HADHB_uc010ykx.1_Missense_Mutation_p.T200I	NM_000183	NP_000174	P55084	ECHB_HUMAN	mitochondrial trifunctional protein, beta	274					fatty acid beta-oxidation	mitochondrial nucleoid	3-hydroxyacyl-CoA dehydrogenase activity|acetyl-CoA C-acyltransferase activity|enoyl-CoA hydratase activity|protein binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GGAAAAGATACAGTTACCAAA	0.363													12	40					0	0	0.013537	0	0		T	26502871	T	T	26502871	3	4	212	1	0	0	0	0	1	0	0	0	6960	478	17	4	855	4	HADHB	2	26502871	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	75849	26502871	216696502	186	103991											
KCNK3	3777	broad.mit.edu	37	chr2	26915809	26915809	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcacctacctgctggtgggCgccgcggtcttcgacgcgct	3	10	13	15	6	2	0	1	0	1	0	3	1	2	0	3	3	2	2	3	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:26915809C>T	uc002rhn.2	+	1	229	c.66C>T	c.(64-66)GGC>GGT	p.G22G		NM_002246	NP_002237	O14649	KCNK3_HUMAN	potassium channel, subfamily K, member 3	22	Helical; (Potential).				synaptic transmission	integral to plasma membrane				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCTGGTGGGCGCCGCGGTCT	0.582													3	6					0	0	0.009096	0	0		T	26915809	T	T	26915809	2	4	212	1	0	0	0	0	0	0	0	1	8083	755	27	1		1	KCNK3	2	26915809	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	412938	26915809	216283564	187	103992											
AGBL5	60509	broad.mit.edu	37	chr2	27276775	27276775	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctcttcagatgacagagacGcagtttgtgttatcctttgt	8	15	10	8	1	2	3	1	1	1	2	3	4	3	3	1	0	0	4	1	0	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:27276775G>A	uc002rie.2	+	4	616	c.399G>A	c.(397-399)ACG>ACA	p.T133T	AGBL5_uc002ric.2_Silent_p.T133T|AGBL5_uc002rid.2_Silent_p.T133T|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	133					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGACAGAGACGCAGTTTGTGT	0.557													25	75					0	0	0.00333	0	0		A	27276775	A	A	27276775	2	1	212	1	0	0	0	0	0	0	0	1	378	1074	38	1		1	AGBL5	2	27276775	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	360966	27276775	215922598	188	103993											
AGBL5	60509	broad.mit.edu	37	chr2	27282224	27282224	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgcagggctgccaggcctgGgctctagtacccaaaaggtc	8	7	13	13	0	1	0	0	0	1	0	2	0	1	0	3	4	3	4	3	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:27282224G>T	uc002rie.2	+	11	2258	c.2041G>T	c.(2041-2043)GGC>TGC	p.G681C	AGBL5_uc002rid.2_Missense_Mutation_p.G681C|AGBL5_uc002rif.2_RNA	NM_021831	NP_068603	Q8NDL9	CBPC5_HUMAN	ATP/GTP binding protein-like 5 isoform 1	681					protein branching point deglutamylation|proteolysis	cytosol|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GCCAGGCCTGGGCTCTAGTAC	0.592													8	177					0.00307968	0.00314477	0.00308	1	0		T	27282224	T	T	27282224	3	4	212	1	0	0	0	0	1	0	0	0	378	1232	43	5	2079	5	AGBL5	2	27282224	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5449	27282224	215917149	189	103994											
CAD	790	broad.mit.edu	37	chr2	27461041	27461041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtgcacatatgtcacgtgGcacggaaggaggaggtaaga	13	6	15	7	2	1	1	1	0	0	1	1	4	1	4	0	5	1	3	0	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:27461041G>A	uc002rji.2	+	30	5008	c.4846G>A	c.(4846-4848)GCA>ACA	p.A1616T	CAD_uc010eyw.2_Missense_Mutation_p.A1553T	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1616	DHOase (dihydroorotase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	ATGTCACGTGGCACGGAAGGA	0.577													9	34					0	0	0.006214	0	0		A	27461041	A	A	27461041	3	1	212	1	0	0	0	0	1	0	0	0	2568	1203	42	2	4964	2	CAD	2	27461041	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	178817	27461041	215738332	190	103995											
ALK	238	broad.mit.edu	37	chr2	29450527	29450527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttcggggtcattgtttgaggCtgcattgccgcctgagtagc	5	13	14	9	2	1	2	1	2	0	0	2	2	1	2	2	3	3	4	2	3	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:29450527C>T	uc002rmy.2	-	17	3734	c.2827G>A	c.(2827-2829)GCC>ACC	p.A943T		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	943	Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	TTGTTTGAGGCTGCATTGCCG	0.527			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				22	66					0	0	0.00278	0	0		T	29450527	T	T	29450527	3	4	212	1	0	0	0	0	1	0	0	0	525	797	28	2	2087	2	ALK	2	29450527	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1989486	29450527	213748846	191	103996											
XDH	7498	broad.mit.edu	37	chr2	31598263	31598263	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacgtcttccaggttctcttGgcccagcttctgaaggactg	6	12	10	13	1	3	1	0	1	3	0	5	2	4	2	2	3	1	2	2	3	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:31598263G>T	uc002rnv.1	-	15	1664	c.1585C>A	c.(1585-1587)CAA>AAA	p.Q529K		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	529					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	AGGTTCTCTTGGCCCAGCTTC	0.552													13	120					4.36969e-10	4.74719e-10	0.001855	1	0		T	31598263	T	T	31598263	3	4	212	1	0	0	0	0	1	0	0	0	17452	1357	47	5	2504	5	XDH	2	31598263	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2147736	31598263	211601110	192	103997											
SPAST	6683	broad.mit.edu	37	chr2	32289087	32289087	+	Silent	SNP	C	T	T	0	0	0	1	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	cgctgtttgtaggcttcgcgCtgctgcgtttggtcgccttc	1	15	13	12	5	0	0	0	0	0	0	3	0	0	0	1	2	2	7	1	2	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:32289087C>T	uc002roc.2	+	1	408	c.187C>T	c.(187-189)CTG>TTG	p.L63L	SPAST_uc002rod.2_Silent_p.L63L	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	63	Required for interaction with SSNA1 and microtubules.|Required for interaction with RTN1.|Nuclear export signal.|Required for interaction with ATL1.|Helical; (Potential).|Required for midbody localization.				cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AGGCTTCGCGCTGCTGCGTTT	0.507													11	40					0	0	0.00245	0	0		T	32289087	T	T	32289087	2	4	212	1	0	0	0	0	0	0	0	1	15022	796	28	2		2	SPAST	2	32289087	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	690824	32289087	210910286	193	103998											
NLRC4	58484	broad.mit.edu	37	chr2	32449667	32449667	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cacttggctaagttttctgaCtaatgctggatcaggtagaa	11	13	10	7	0	2	2	1	1	1	1	2	3	2	3	0	3	1	4	0	3	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:32449667C>T	uc002roi.2	-	9	3196	c.2950G>A	c.(2950-2952)GTC>ATC	p.V984I	NLRC4_uc002roj.1_Missense_Mutation_p.V984I|NLRC4_uc010ezt.1_Missense_Mutation_p.V319I	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	984	LRR 13.				activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					AGTTTTCTGACTAATGCTGGA	0.378													18	60					0	0	0.007413	0	0		T	32449667	T	T	32449667	3	4	212	1	0	0	0	0	1	0	0	0	10488	565	20	4	128	4	NLRC4	2	32449667	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	160580	32449667	210749706	194	103999											
BIRC6	57448	broad.mit.edu	37	chr2	32626306	32626306	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagaatgtgccattgtcagtCactcttgcaacaagtcctgc	10	11	8	12	0	3	1	2	0	1	1	4	1	4	1	2	0	4	1	2	0	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:32626306C>A	uc010ezu.2	+	7	1244	c.1110C>A	c.(1108-1110)GTC>GTA	p.V370V		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	370					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					CATTGTCAGTCACTCTTGCAA	0.458													29	138					1.88708e-17	2.16138e-17	0.008361	1	0		A	32626306	A	A	32626306	2	1	212	1	0	0	0	0	0	0	0	1	1439	813	29	5		5	BIRC6	2	32626306	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	176639	32626306	210573067	195	104000											
LTBP1	4052	broad.mit.edu	37	chr2	33525616	33525616	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtggacaggggtaccagctgTcggcagctaaagaccagtgt	10	7	15	9	1	0	1	0	0	0	1	1	2	0	2	2	4	3	4	2	4	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:33525616T>C	uc002ros.2	+	21	3337	c.3337T>C	c.(3337-3339)TCG>CCG	p.S1113P	LTBP1_uc002rot.2_Missense_Mutation_p.S787P|LTBP1_uc002rou.2_Missense_Mutation_p.S786P|LTBP1_uc002rov.2_Missense_Mutation_p.S733P|LTBP1_uc010ymz.1_Missense_Mutation_p.S786P|LTBP1_uc010yna.1_Missense_Mutation_p.S733P|LTBP1_uc010ynb.1_Missense_Mutation_p.S52P	NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding	1112	EGF-like 9; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GTACCAGCTGTCGGCAGCTAA	0.468													18	50					0	0	0.007413	0	0		C	33525616	C	C	33525616	3	2	212	1	0	0	0	0	1	0	0	0	9091	1667	58	3	3471	3	LTBP1	2	33525616	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	899310	33525616	209673757	196	104001											
HEATR5B	54497	broad.mit.edu	37	chr2	37208749	37208749	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgaacggcagtttctagacGcactttcaactcaggagcag	11	9	10	11	3	3	1	2	0	1	1	4	3	3	2	0	2	3	4	0	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:37208749G>A	uc002rpp.1	-	36	6196	c.6100C>T	c.(6100-6102)CGT>TGT	p.R2034C	HEATR5B_uc002rpo.1_Missense_Mutation_p.R346C|HEATR5B_uc010ezy.1_Missense_Mutation_p.R529C	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	2034							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GTTTCTAGACGCACTTTCAAC	0.478													17	52					0	0	0.007413	0	0		A	37208749	A	A	37208749	3	1	212	1	0	0	0	0	1	0	0	0	7048	1087	38	1	119	1	HEATR5B	2	37208749	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3683133	37208749	205990624	197	104002											
THADA	63892	broad.mit.edu	37	chr2	43801624	43801624	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atataaaaaggagaggagaaAcccaagtctcatgccactgg	17	6	10	8	0	1	2	1	0	1	2	2	4	1	2	2	3	2	0	2	3	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:43801624A>C	uc002rsw.3	-	11	1932	c.1580T>G	c.(1579-1581)GTT>GGT	p.V527G	THADA_uc002rsx.3_Missense_Mutation_p.V527G|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.V237G|THADA_uc002rta.2_Missense_Mutation_p.V237G|THADA_uc002rtb.1_Missense_Mutation_p.V527G|THADA_uc002rtc.3_Missense_Mutation_p.V527G|THADA_uc002rtd.2_Missense_Mutation_p.V527G	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	527							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				GAGAGGAGAAACCCAAGTCTC	0.383													9	25					0	0	0.008291	0	0		C	43801624	C	C	43801624	3	2	212	1	0	0	0	0	1	0	0	0	15865	43	2	5	4393	5	THADA	2	43801624	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6592875	43801624	199397749	198	104003											
ABCG5	64240	broad.mit.edu	37	chr2	44049989	44049989	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaacgctgaaggggaggacGtgcagtgcataggccagcat	12	5	15	9	2	0	1	0	1	0	0	0	3	0	3	1	4	4	4	1	4	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:44049989G>A	uc002rtn.2	-	10	1550	c.1410C>T	c.(1408-1410)CAC>CAT	p.H470H	ABCG5_uc002rtm.2_Silent_p.H75H|ABCG5_uc002rto.2_Silent_p.H299H|ABCG5_uc002rtp.2_Silent_p.H75H	NM_022436	NP_071881	Q9H222	ABCG5_HUMAN	ATP-binding cassette sub-family G member 5	470	Helical; Name=3; (Potential).|ABC transmembrane type-2.				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AGGGGAGGACGTGCAGTGCAT	0.592													10	32					0	0	0.008291	0	0		A	44049989	A	A	44049989	2	1	212	1	0	0	0	0	0	0	0	1	71	1136	40	1		1	ABCG5	2	44049989	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	248365	44049989	199149384	199	104004											
ABCG8	64241	broad.mit.edu	37	chr2	44099210	44099210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgtttctagaaaaagtgCgtgacttagatgactttcta	11	14	8	8	1	2	4	0	2	2	2	2	4	2	4	1	0	1	1	1	0	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:44099210C>T	uc002rtq.2	+	7	1150	c.1060C>T	c.(1060-1062)CGT>TGT	p.R354C	ABCG8_uc010yoa.1_Missense_Mutation_p.R354C	NM_022437	NP_071882	Q9H221	ABCG8_HUMAN	ATP-binding cassette sub-family G member 8	354	Cytoplasmic (Potential).				cholesterol efflux|cholesterol homeostasis|excretion|lipid metabolic process|negative regulation of intestinal cholesterol absorption|negative regulation of intestinal phytosterol absorption	apical plasma membrane|integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity			skin(3)|ovary(1)	4		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				AGAAAAAGTGCGTGACTTAGA	0.537													17	69					0	0	0.004007	0	0		T	44099210	T	T	44099210	3	4	212	1	0	0	0	0	1	0	0	0	72	768	27	1	1086	1	ABCG8	2	44099210	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	49221	44099210	199100163	200	104005											
PREPL	9581	broad.mit.edu	37	chr2	44556113	44556113	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taatatccatccatcatccaCcaggacccgcctctcaggcc	10	8	5	18	1	2	0	2	0	1	0	6	1	5	1	7	2	0	0	7	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:44556113C>A	uc002ruf.2	-	9	1527	c.1492G>T	c.(1492-1494)GTG>TTG	p.V498L	PREPL_uc002rug.2_Missense_Mutation_p.V432L|PREPL_uc002ruh.2_Missense_Mutation_p.V436L|PREPL_uc010fax.2_Missense_Mutation_p.V498L|PREPL_uc002rui.3_Missense_Mutation_p.V409L|PREPL_uc002ruj.1_Missense_Mutation_p.V409L|PREPL_uc002ruk.1_Missense_Mutation_p.V498L	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	498					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				CCATCATCCACCAGGACCCGC	0.428													22	99					6.36457e-07	6.74674e-07	0.003954	1	0		A	44556113	A	A	44556113	3	1	212	1	0	0	0	0	1	0	0	0	12497	507	18	5	715	5	PREPL	2	44556113	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	456903	44556113	198643260	201	104006											
SIX3	6496	broad.mit.edu	37	chr2	45169339	45169339	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatacttctggcgagtagCggcggcgggaacggtgcggg	6	7	18	10	6	1	0	0	0	1	0	2	2	2	1	1	6	4	1	1	6	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:45169339C>T	uc002run.1	+	1	303	c.96C>T	c.(94-96)AGC>AGT	p.S32S		NM_005413	NP_005404	O95343	SIX3_HUMAN	SIX homeobox 3	32					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				TGGCGAGTAgcggcggcggga	0.264													39	59					0	0	0.00623	0	0		T	45169339	T	T	45169339	2	4	212	1	0	0	0	0	0	0	0	1	14373	767	27	1		1	SIX3	2	45169339	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	613226	45169339	198030034	202	104007											
SIX2	10736	broad.mit.edu	37	chr2	45235938	45235938	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcggtatttgcccacggcGcccaggggtcggccgcgcag	5	5	16	15	7	0	0	0	0	0	0	1	0	0	0	3	5	1	2	3	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:45235938G>A	uc002ruo.2	-	1	605	c.312C>T	c.(310-312)GGC>GGT	p.G104G	SIX2_uc002rup.2_Silent_p.G104G	NM_016932	NP_058628	Q9NPC8	SIX2_HUMAN	SIX homeobox 2	104						nucleus	sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TGCCCACGGCGCCCAGGGGTC	0.652													13	70					0	0	0.00245	0	0		A	45235938	A	A	45235938	2	1	212	1	0	0	0	0	0	0	0	1	14372	1074	38	1		1	SIX2	2	45235938	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	66599	45235938	197963435	203	104008											
NRXN1	9378	broad.mit.edu	37	chr2	50170851	50170851	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agttgactaacctaacccacCtgagctcggctcacaggggt	10	8	10	13	1	1	2	1	2	0	0	2	2	1	2	3	3	3	3	3	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:50170851C>A	uc010fbp.2	-	5	1819	c.1012G>T	c.(1012-1014)GGT>TGT	p.G338C	NRXN1_uc002rxb.3_Missense_Mutation_p.A1075S|NRXN1_uc010fbq.2_Missense_Mutation_p.G1443C|NRXN1_uc002rxe.3_Missense_Mutation_p.G1373C|NRXN1_uc010yon.1_Missense_Mutation_p.G38C|NRXN1_uc002rxa.3_Missense_Mutation_p.A38S	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	338	Extracellular (Potential).				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CCTAACCCACCTGAGCTCGGC	0.433													3	34					0.00024832	0.000256276	0.009096	1	0		A	50170851	A	A	50170851	3	1	212	1	0	0	0	0	1	0	0	0	10684	681	24	5	324	5	NRXN1	2	50170851	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4934913	50170851	193028522	204	104009											
BCL11A	53335	broad.mit.edu	37	chr2	60687749	60687749	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgcatttataaggcctttcGcccgtgtggcttctcctgtg	4	15	10	12	3	1	0	0	0	1	0	4	0	1	0	3	2	0	2	3	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:60687749G>A	uc002sae.1	-	4	2526	c.2298C>T	c.(2296-2298)GGC>GGT	p.G766G	BCL11A_uc002sab.2_Intron|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Intron|BCL11A_uc010ypj.1_Silent_p.G732G|BCL11A_uc002sad.1_Silent_p.G614G|BCL11A_uc002saf.1_Silent_p.G732G	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	766					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			AAGGCCTTTCGCCCGTGTGGC	0.532			T	IGH@	B-CLL								56	67					0	0	0.01441	0	0		A	60687749	A	A	60687749	2	1	212	1	0	0	0	0	0	0	0	1	1364	1074	38	1		1	BCL11A	2	60687749	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	10516898	60687749	182511624	205	104010											
BCL11A	53335	broad.mit.edu	37	chr2	60688714	60688714	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgggttccggggagctggCggtggagagaccgtcgtcgg	4	6	21	10	6	0	1	0	0	0	1	3	4	1	3	3	7	1	2	3	7	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:60688714C>T	uc002sae.1	-	4	1561	c.1333G>A	c.(1333-1335)GCC>ACC	p.A445T	BCL11A_uc002sab.2_Missense_Mutation_p.A445T|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.A114T|BCL11A_uc010ypj.1_Missense_Mutation_p.A411T|BCL11A_uc002sad.1_Missense_Mutation_p.A293T|BCL11A_uc002saf.1_Missense_Mutation_p.A411T	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	445					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			GGGGAGCTGGCGGTGGAGAGA	0.647			T	IGH@	B-CLL								18	62					0	0	0.007413	0	0		T	60688714	T	T	60688714	3	4	212	1	0	0	0	0	1	0	0	0	1364	768	27	1	1284	1	BCL11A	2	60688714	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	965	60688714	182510659	206	104011											
EHBP1	23301	broad.mit.edu	37	chr2	63206358	63206358	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgacgtcggcagctgagagaGagagctcgtcagctaatagc	11	6	14	10	4	1	3	1	1	0	2	3	6	1	3	0	1	4	4	0	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:63206358G>A	uc002sby.2	+	16	3083	c.2601G>A	c.(2599-2601)GAG>GAA	p.E867E	EHBP1_uc010fcp.2_Silent_p.E832E|EHBP1_uc002sbz.2_Silent_p.E832E|EHBP1_uc002scb.2_Silent_p.E832E	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	867	Potential.					cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			AGCTGAGAGAGAGAGCTCGTC	0.428									Hereditary_Prostate_Cancer				35	32					0	0	0.00623	0	0		A	63206358	A	A	63206358	2	1	212	1	0	0	0	0	0	0	0	1	4981	933	33	4		4	EHBP1	2	63206358	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2517644	63206358	179993015	207	104012											
ACTR2	10097	broad.mit.edu	37	chr2	65482777	65482777	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacgtgggatataatattgaGcaagagcagaaactggcctt	14	10	11	6	1	0	3	0	1	0	2	0	4	0	4	1	2	4	2	1	2	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:65482777G>A	uc002sdq.2	+	6	899	c.684G>A	c.(682-684)GAG>GAA	p.E228E	ACTR2_uc010yqf.1_Silent_p.E173E|ACTR2_uc002sdp.2_Silent_p.E233E|ACTR2_uc010yqg.1_Silent_p.E176E	NM_005722	NP_005713	P61160	ARP2_HUMAN	actin-related protein 2 isoform b	228					cellular component movement	Arp2/3 protein complex|cell projection|cytoplasm	actin binding|ATP binding				0						ATAATATTGAGCAAGAGCAGA	0.378													19	60					0	0	0.008871	0	0		A	65482777	A	A	65482777	2	1	212	1	0	0	0	0	0	0	0	1	211	962	34	2		2	ACTR2	2	65482777	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2276419	65482777	177716596	208	104013											
SPRED2	200734	broad.mit.edu	37	chr2	65559175	65559175	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttatggatggtggaagatgaCgttgttgaacctaaaaagac	14	11	12	4	1	0	4	0	2	0	2	0	6	0	6	1	3	1	2	1	3	6	4	rs111994933		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:65559175C>T	uc002sdr.3	-	4	919	c.384G>A	c.(382-384)ACG>ACA	p.T128T	SPRED2_uc010fcw.2_Silent_p.T125T|SPRED2_uc010fcx.1_RNA	NM_181784	NP_861449	Q7Z698	SPRE2_HUMAN	sprouty-related protein with EVH-1 domain 2	128					inactivation of MAPK activity|multicellular organismal development	transport vesicle membrane	stem cell factor receptor binding			ovary(1)|lung(1)|central_nervous_system(1)	3						TGGAAGATGACGTTGTTGAAC	0.328													18	43					0	0	0.007413	0	0		T	65559175	T	T	65559175	2	4	212	1	0	0	0	0	0	0	0	1	15118	523	19	1		1	SPRED2	2	65559175	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	76398	65559175	177640198	209	104014											
ETAA1	54465	broad.mit.edu	37	chr2	67631124	67631124	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatacaagtccagatgccaGgttaggagattcaaaagtat	17	9	9	6	0	1	2	1	0	0	2	2	3	2	2	2	2	2	2	2	2	7	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:67631124G>T	uc002sdz.1	+	5	1449	c.1310G>T	c.(1309-1311)AGG>ATG	p.R437M		NM_019002	NP_061875	Q9NY74	ETAA1_HUMAN	ETAA16 protein	437						cytoplasm|nucleus				ovary(3)|large_intestine(1)	4						CCAGATGCCAGGTTAGGAGAT	0.308													10	28					6.40141e-05	6.65138e-05	0.010729	1	0		T	67631124	T	T	67631124	3	4	212	1	0	0	0	0	1	0	0	0	5275	1000	35	5	1328	5	ETAA1	2	67631124	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2071949	67631124	175568249	210	104015											
PROKR1	10887	broad.mit.edu	37	chr2	68882419	68882419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgcctacgtgctatgctgggCgcccttctacggcttcacca	5	10	10	16	4	2	0	1	0	1	0	2	0	2	0	3	2	4	3	3	2	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:68882419C>T	uc010yqj.1	+	2	893	c.893C>T	c.(892-894)GCG>GTG	p.A298V	PROKR1_uc002ses.2_RNA	NM_138964	NP_620414	Q8TCW9	PKR1_HUMAN	G protein-coupled receptor 73	298	Helical; Name=6; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(1)	1						CTATGCTGGGCGCCCTTCTAC	0.597													10	59					0	0	0.006214	0	0		T	68882419	T	T	68882419	3	4	212	1	0	0	0	0	1	0	0	0	12574	768	27	1	899	1	PROKR1	2	68882419	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1251295	68882419	174316954	211	104016											
ANTXR1	84168	broad.mit.edu	37	chr2	69409751	69409751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaatctcaacaacaatatgCgtcggccttcttccccccgg	10	9	7	15	3	2	0	1	0	2	0	5	1	3	0	4	2	3	0	4	2	5	3	rs144438225	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:69409751C>T	uc002sfg.2	+	16	1668	c.1312C>T	c.(1312-1314)CGT>TGT	p.R438C		NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	438	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						CAACAATATGCGTCGGCCTTC	0.438									Familial_Infantile_Hemangioma				23	71					0	0	0.00632	0	0		T	69409751	T	T	69409751	3	4	212	1	0	0	0	0	1	0	0	0	711	768	27	1	1451	1	ANTXR1	2	69409751	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	527332	69409751	173789622	212	104017											
ANTXR1	84168	broad.mit.edu	37	chr2	69472360	69472360	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctccaattcttttctaggggCgctgcatcaacttcaccagg	8	12	8	13	1	4	0	2	0	2	0	5	0	5	0	2	3	2	2	2	3	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:69472360C>T	uc002sfg.2	+	18	1794	c.1438C>T	c.(1438-1440)CGC>TGC	p.R480C		NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	480	Cytoplasmic (Potential).				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						TTTCTAGGGGCGCTGCATCAA	0.468									Familial_Infantile_Hemangioma				16	67					0	0	0.004007	0	0		T	69472360	T	T	69472360	3	4	212	1	0	0	0	0	1	0	0	0	711	768	27	1	1585	1	ANTXR1	2	69472360	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	62609	69472360	173727013	213	104018											
CD207	50489	broad.mit.edu	37	chr2	71060989	71060989	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaggaactgagaacgcacaTaacccaggctctcattcacc	13	7	7	14	1	3	1	3	1	1	1	4	3	3	2	2	2	3	2	2	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:71060989T>C	uc002shg.2	-	3	400	c.353A>G	c.(352-354)TAT>TGT	p.Y118C		NM_015717	NP_056532	Q9UJ71	CLC4K_HUMAN	CD207 antigen, langerin	118	Extracellular (Potential).				defense response to virus	endocytic vesicle|integral to membrane	mannose binding			ovary(1)|lung(1)	2						AGAACGCACATAACCCAGGCT	0.458													6	51					0	0	0.001984	0	0		C	71060989	C	C	71060989	3	2	212	1	0	0	0	0	1	0	0	0	2986	1406	49	3	649	3	CD207	2	71060989	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1588629	71060989	172138384	214	104019											
ZNF638	27332	broad.mit.edu	37	chr2	71631033	71631033	+	Missense_Mutation	SNP	T	G	G	0	1	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	taaatagaaaagctgctgagTctatggtaaaattttatacc	16	13	7	5	0	1	2	0	1	1	1	1	2	1	2	1	1	3	3	1	1	10	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:71631033T>G	uc002shx.2	+	17	3182	c.2863T>G	c.(2863-2865)TCT>GCT	p.S955A	ZNF638_uc010yqw.1_Missense_Mutation_p.S534A|ZNF638_uc002shy.2_Missense_Mutation_p.S955A|ZNF638_uc002shz.2_Missense_Mutation_p.S955A|ZNF638_uc002sia.2_Missense_Mutation_p.S955A|ZNF638_uc002sib.1_Missense_Mutation_p.S955A|ZNF638_uc010fed.2_RNA|ZNF638_uc002sic.2_Missense_Mutation_p.S52A	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	955	RRM 2.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AGCTGCTGAGTCTATGGTAAA	0.299													35	85					0	0	0.013726	0	0		G	71631033	G	G	71631033	3	3	212	1	0	0	0	0	1	0	0	0	18080	1667	58	5	2925	5	ZNF638	2	71631033	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	570044	71631033	171568340	215	104020											
DYSF	8291	broad.mit.edu	37	chr2	71891503	71891503	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagatcggtgagacggtcgtCgacctggagaacaggctgct	10	7	15	9	4	0	3	0	1	0	3	3	6	0	3	1	4	2	2	1	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:71891503C>T	uc002sie.2	+	45	5368	c.4992C>T	c.(4990-4992)GTC>GTT	p.V1664V	DYSF_uc010feg.2_Silent_p.V1695V|DYSF_uc010feh.2_Silent_p.V1671V|DYSF_uc002sig.3_Silent_p.V1650V|DYSF_uc010yqx.1_RNA|DYSF_uc010fee.2_Silent_p.V1685V|DYSF_uc010fef.2_Silent_p.V1702V|DYSF_uc010fei.2_Silent_p.V1681V|DYSF_uc010fek.2_Silent_p.V1682V|DYSF_uc010fej.2_Silent_p.V1672V|DYSF_uc010fel.2_Silent_p.V1651V|DYSF_uc010feo.2_Silent_p.V1696V|DYSF_uc010fem.2_Silent_p.V1686V|DYSF_uc010fen.2_Silent_p.V1703V|DYSF_uc002sif.2_Silent_p.V1665V|DYSF_uc010yqy.1_Silent_p.V545V|DYSF_uc010yqz.1_Silent_p.V425V	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8	1664	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						AGACGGTCGTCGACCTGGAGA	0.562													6	49					0	0	0.001984	0	0		T	71891503	T	T	71891503	2	4	212	1	0	0	0	0	0	0	0	1	4865	871	31	1		1	DYSF	2	71891503	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	260470	71891503	171307870	216	104021											
EXOC6B	23233	broad.mit.edu	37	chr2	73052953	73052953	+	Silent	SNP	G	A	A	0	0	1	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	gtgggcccgatgcaggccgtGtcagtgctctcgatctctcg	4	10	14	13	4	3	0	1	0	2	0	6	2	3	0	2	2	2	2	2	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:73052953G>A	uc010fep.2	-	1	225	c.87C>T	c.(85-87)GAC>GAT	p.D29D	EXOC6B_uc002sij.2_Silent_p.D29D	NM_015189	NP_056004	Q9Y2D4	EXC6B_HUMAN	SEC15-like 2	29					protein transport|vesicle docking involved in exocytosis	exocyst				central_nervous_system(2)	2						TGCAGGCCGTGTCAGTGCTCT	0.716													7	64					0	0	0.006214	0	0		A	73052953	A	A	73052953	2	1	212	1	0	0	0	0	0	0	0	1	5317	1368	48	4		4	EXOC6B	2	73052953	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1161450	73052953	170146420	217	104022											
CCT7	10574	broad.mit.edu	37	chr2	73476983	73476983	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccagaccagtgtgaatgctCtgtcagcagatgtgctgggt	8	11	13	9	0	2	3	1	1	1	2	3	3	3	3	2	1	3	3	2	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:73476983C>A	uc002siz.2	+	9	1111	c.1009C>A	c.(1009-1011)CTG>ATG	p.L337M	CCT7_uc002sja.2_Missense_Mutation_p.L133M|CCT7_uc010yrf.1_Missense_Mutation_p.L293M|CCT7_uc010feu.2_Missense_Mutation_p.L295M|CCT7_uc010yrg.1_Missense_Mutation_p.L237M|CCT7_uc010yrh.1_Missense_Mutation_p.L209M|CCT7_uc010yri.1_Missense_Mutation_p.L250M	NM_006429	NP_006420	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 isoform a	337					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding				0						TGTGAATGCTCTGTCAGCAGA	0.597													68	197					5.61366e-43	6.60684e-43	0.01441	1	0		A	73476983	A	A	73476983	3	1	212	1	0	0	0	0	1	0	0	0	2962	912	32	5	1043	5	CCT7	2	73476983	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	424030	73476983	169722390	218	104023											
EGR4	1961	broad.mit.edu	37	chr2	73518762	73518762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccggtgtgggtgcgcacGtgcgtggtgaggtggtcgct	2	10	20	9	6	0	1	0	1	0	0	2	1	0	1	1	5	2	2	1	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:73518762G>A	uc010yrj.1	-	2	1668	c.1593C>T	c.(1591-1593)CAC>CAT	p.H531H	EGR4_uc010yrk.1_Silent_p.H530H	NM_001965	NP_001956	Q05215	EGR4_HUMAN	early growth response 4	427						intracellular	nucleic acid binding|zinc ion binding				0						GGGTGCGCACGTGCGTGGTGA	0.647													15	54					0	0	0.006122	0	0		A	73518762	A	A	73518762	2	1	212	1	0	0	0	0	0	0	0	1	4980	1136	40	1		1	EGR4	2	73518762	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	41779	73518762	169680611	219	104024											
TET3	200424	broad.mit.edu	37	chr2	74327960	74327960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaggctgttcccacagacGcccaccaccccactcctcac	8	5	6	22	1	1	1	1	0	0	1	3	1	3	1	7	1	0	2	7	1	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:74327960G>A	uc002skb.3	+	9	3640	c.3640G>A	c.(3640-3642)GCC>ACC	p.A1214T		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	1214							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TCCCACAGACGCCCACCACCC	0.647													5	12					0	0	0.001984	0	0		A	74327960	A	A	74327960	3	1	212	1	0	0	0	0	1	0	0	0	15796	1087	38	1	3674	1	TET3	2	74327960	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	809198	74327960	168871413	220	104025											
DCTN1	1639	broad.mit.edu	37	chr2	74596537	74596537	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctcacgaacccgcgcgcctgCcatgtccagctgctcccgca	6	6	9	20	5	1	0	1	0	0	0	3	1	3	0	5	0	4	3	5	0	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:74596537C>A	uc002skx.2	-	14	1785	c.1474G>T	c.(1474-1476)GCA>TCA	p.A492S	DCTN1_uc002skv.2_Missense_Mutation_p.A358S|DCTN1_uc002sku.2_Missense_Mutation_p.A358S|DCTN1_uc002skw.1_Missense_Mutation_p.A468S|DCTN1_uc010ffd.2_Missense_Mutation_p.A472S|DCTN1_uc002sky.2_Missense_Mutation_p.A455S	NM_004082	NP_004073	Q14203	DCTN1_HUMAN	dynactin 1 isoform 1	492	Potential.				cell death|G2/M transition of mitotic cell cycle|mitosis|nervous system development	centrosome|cytosol|kinetochore|microtubule|spindle pole	motor activity|protein binding			ovary(3)|skin(2)	5						CGCGCGCCTGCCATGTCCAGC	0.597													34	64					6.90743e-12	7.649e-12	0.003755	1	0		A	74596537	A	A	74596537	3	1	212	1	0	0	0	0	1	0	0	0	4309	739	26	5	2438	5	DCTN1	2	74596537	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	268577	74596537	168602836	221	104026											
MOGS	7841	broad.mit.edu	37	chr2	74689868	74689868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tagactgcctgccagtcttgGcagggcttgatttcctcctg	5	13	11	12	0	1	2	0	1	1	1	3	2	3	2	4	2	2	2	4	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:74689868G>A	uc010ffj.2	-	4	1211	c.1048C>T	c.(1048-1050)CCA>TCA	p.P350S	MOGS_uc010ffh.2_Missense_Mutation_p.P75S|MOGS_uc010yrt.1_Missense_Mutation_p.P231S|MOGS_uc010ffi.2_Missense_Mutation_p.P244S	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	350	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						GCCAGTCTTGGCAGGGCTTGA	0.537													37	97					0	0	0.004289	0	0		A	74689868	A	A	74689868	3	1	212	1	0	0	0	0	1	0	0	0	9715	1203	42	2	1469	2	MOGS	2	74689868	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	93331	74689868	168509505	222	104027											
DQX1	165545	broad.mit.edu	37	chr2	74746315	74746315	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgggccacatgcttatgggTtaggagaaggtaatttccag	10	11	13	7	0	0	1	0	0	0	1	1	2	1	1	2	4	1	3	2	4	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:74746315T>G	uc010yrw.1	-	11	2014	c.1849A>C	c.(1849-1851)ACC>CCC	p.T617P	DQX1_uc002smc.2_Missense_Mutation_p.T178P	NM_133637	NP_598376	Q8TE96	DQX1_HUMAN	DEAQ box polypeptide 1 (RNA-dependent ATPase)	617						nucleus	ATP binding|helicase activity|nucleic acid binding			ovary(2)	2						TGCTTATGGGTTAGGAGAAGG	0.507													21	54					0	0	0.014323	0	0		G	74746315	G	G	74746315	3	3	212	1	0	0	0	0	1	0	0	0	4757	1725	60	5	312	5	DQX1	2	74746315	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	56447	74746315	168453058	223	104028											
LRRTM4	80059	broad.mit.edu	37	chr2	77746550	77746550	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctttaaattgttcagattGcaatgtctgaagcttattgt	10	17	8	6	0	2	2	1	1	1	1	2	2	2	2	1	0	2	3	1	0	5	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:77746550G>A	uc002snr.2	-	3	860	c.445C>T	c.(445-447)CAA>TAA	p.Q149*	LRRTM4_uc002snq.2_Nonsense_Mutation_p.Q149*|LRRTM4_uc002sns.2_Nonsense_Mutation_p.Q149*|LRRTM4_uc002snt.2_Nonsense_Mutation_p.Q150*	NM_001134745	NP_001128217	Q86VH4	LRRT4_HUMAN	leucine rich repeat transmembrane neuronal 4	149	LRR 4.|Extracellular (Potential).					integral to membrane				pancreas(3)|ovary(1)	4				Colorectal(11;0.059)		TGTTCAGATTGCAATGTCTGA	0.393													18	53					0	0	0.007413	0	0		A	77746550	A	A	77746550	4	1	212	1	0	0	0	0	0	1	0	0	9060	1328	46	2	1341	2	LRRTM4	2	77746550	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3000235	77746550	165452823	224	104029											
POLR1A	25885	broad.mit.edu	37	chr2	86255759	86255759	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatctccttctcgatcacccGcagcgcggcctcaatgccat	7	9	8	17	4	4	0	2	0	2	0	6	2	4	0	4	1	2	1	4	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:86255759G>A	uc002sqs.2	-	32	5234	c.4855C>T	c.(4855-4857)CGG>TGG	p.R1619W	POLR1A_uc010ytb.1_Missense_Mutation_p.R985W	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1619					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TCGATCACCCGCAGCGCGGCC	0.572													20	78					0	0	0.010504	0	0		A	86255759	A	A	86255759	3	1	212	1	0	0	0	0	1	0	0	0	12228	1086	38	1	319	1	POLR1A	2	86255759	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8509209	86255759	156943614	225	104030											
ASTL	431705	broad.mit.edu	37	chr2	96801118	96801118	+	Missense_Mutation	SNP	A	C	C	1	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	tgatgtccccctcgatgaggAagctgctctctggggtttct	5	13	12	11	1	2	2	0	2	2	0	5	4	3	3	2	3	2	3	2	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:96801118A>C	uc010yui.1	-	3	215	c.215T>G	c.(214-216)TTC>TGC	p.F72C		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	72					proteolysis		metalloendopeptidase activity|zinc ion binding				0						CTCGATGAGGAAGCTGCTCTC	0.607													7	39					0	0	0.004482	0	0		C	96801118	C	C	96801118	3	2	212	1	0	0	0	0	1	0	0	0	1064	246	9	5	1107	5	ASTL	2	96801118	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	10545359	96801118	146398255	226	104031											
SNRNP200	23020	broad.mit.edu	37	chr2	96945221	96945221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacacatgatgacacagcGcccctcatcgtcctgcaaag	11	7	8	15	2	1	3	1	3	0	0	3	3	2	3	3	0	2	1	3	0	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:96945221G>A	uc002svu.2	-	36	5187	c.5101C>T	c.(5101-5103)CGC>TGC	p.R1701C	SNRNP200_uc002svt.2_Missense_Mutation_p.R311C|SNRNP200_uc010yuj.1_RNA	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	1701	Helicase C-terminal 2.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						ATGACACAGCGCCCCTCATCG	0.517													8	34					0	0	0.006214	0	0		A	96945221	A	A	96945221	3	1	212	1	0	0	0	0	1	0	0	0	14877	1087	38	1	1349	1	SNRNP200	2	96945221	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	144103	96945221	146254152	227	104032											
SNRNP200	23020	broad.mit.edu	37	chr2	96956165	96956165	+	Missense_Mutation	SNP	A	G	G	1	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	aagttgttgattgaggagggAcaggtagtactgtagctccc	10	11	14	6	0	0	2	0	2	0	0	1	4	1	4	1	3	2	6	1	3	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:96956165A>G	uc002svu.2	-	20	2727	c.2641T>C	c.(2641-2643)TCC>CCC	p.S881P	SNRNP200_uc002svw.1_5'Flank	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit	881	Helicase C-terminal 1.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						TTGAGGAGGGACAGGTAGTAC	0.483													39	112					0	0	0.009718	0	0		G	96956165	G	G	96956165	3	3	212	1	0	0	0	0	1	0	0	0	14877	275	10	3	3873	3	SNRNP200	2	96956165	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	10944	96956165	146243208	228	104033											
KIAA1310	55683	broad.mit.edu	37	chr2	97268532	97268532	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggatttgctggaaggccagaGgtcttgctgctgatatcctg	7	12	14	8	0	1	2	0	1	1	1	2	4	2	4	2	4	3	3	2	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:97268532G>T	uc002swn.3	-	18	2363	c.2217C>A	c.(2215-2217)ACC>ACA	p.T739T	KIAA1310_uc002swh.3_Silent_p.T625T|KIAA1310_uc002swi.3_Silent_p.T666T|KIAA1310_uc002swj.3_RNA|KIAA1310_uc002swk.3_Silent_p.T652T|KIAA1310_uc010fhz.2_Silent_p.T559T|KIAA1310_uc002swl.3_Silent_p.T638T|KIAA1310_uc002swm.3_RNA|KIAA1310_uc010yur.1_Silent_p.T533T|KIAA1310_uc002swo.2_Silent_p.T87T	NM_001115016	NP_001108488	Q9P2N6	K1310_HUMAN	hypothetical protein LOC55683 isoform a	765	Ser-rich.										0						GAAGGCCAGAGGTCTTGCTGC	0.592													27	98					4.4194e-11	4.85579e-11	0.013726	1	0		T	97268532	T	T	97268532	2	4	212	1	0	0	0	0	0	0	0	1	8238	987	35	5		5	KIAA1310	2	97268532	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	312367	97268532	145930841	229	104034											
KIAA1310	55683	broad.mit.edu	37	chr2	97285224	97285224	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacacttgccagagcctgccGcactctccttgcacacttgt	7	10	7	17	1	1	1	0	0	1	1	2	1	1	1	4	0	4	2	4	0	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:97285224G>A	uc002swn.3	-	5	681	c.535C>T	c.(535-537)CGG>TGG	p.R179W	KIAA1310_uc002swh.3_Missense_Mutation_p.R67W|KIAA1310_uc002swi.3_Missense_Mutation_p.R80W|KIAA1310_uc002swj.3_RNA|KIAA1310_uc002swk.3_Missense_Mutation_p.R92W|KIAA1310_uc010fhz.2_5'UTR|KIAA1310_uc002swl.3_Missense_Mutation_p.R80W|KIAA1310_uc002swm.3_RNA|KIAA1310_uc010yur.1_5'UTR|KIAA1310_uc002swp.1_Missense_Mutation_p.R80W|KIAA1310_uc002swq.1_5'UTR|KIAA1310_uc010fhy.1_Missense_Mutation_p.R80W	NM_001115016	NP_001108488	Q9P2N6	K1310_HUMAN	hypothetical protein LOC55683 isoform a	179											0						AGAGCCTGCCGCACTCTCCTT	0.547													8	38					0	0	0.010729	0	0		A	97285224	A	A	97285224	3	1	212	1	0	0	0	0	1	0	0	0	8238	1086	38	1	2169	1	KIAA1310	2	97285224	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	16692	97285224	145914149	230	104035											
TMEM131	23505	broad.mit.edu	37	chr2	98409946	98409946	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgaggcctcaaaggatagccGccttcgaaatggctcccata	11	7	10	13	3	1	0	1	0	0	0	3	3	2	1	4	3	1	1	4	3	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:98409946G>A	uc002syh.3	-	30	3686	c.3457C>T	c.(3457-3459)CGG>TGG	p.R1153W		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1153						integral to membrane				ovary(4)|central_nervous_system(2)	6						AAGGATAGCCGCCTTCGAAAT	0.453													4	40					0	0	0.009096	0	0		A	98409946	A	A	98409946	3	1	212	1	0	0	0	0	1	0	0	0	16069	1086	38	1	2242	1	TMEM131	2	98409946	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1124722	98409946	144789427	231	104036											
VWA3B	200403	broad.mit.edu	37	chr2	98914470	98914470	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcatcacgcctgtggggggCgccatgccctgcccgctgct	3	9	13	16	3	2	0	2	0	0	0	2	0	2	0	4	3	3	2	4	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:98914470C>T	uc002syo.2	+	24	3522	c.3258C>T	c.(3256-3258)GGC>GGT	p.G1086G	VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Silent_p.G743G|VWA3B_uc002syp.1_Silent_p.G478G|VWA3B_uc002syq.1_Silent_p.G362G|VWA3B_uc002syr.1_Silent_p.G403G|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1086										ovary(3)|large_intestine(2)|skin(1)	6						CTGTGGGGGGCGCCATGCCCT	0.592													28	78					0	0	0.007291	0	0		T	98914470	T	T	98914470	2	4	212	1	0	0	0	0	0	0	0	1	17267	755	27	1		1	VWA3B	2	98914470	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	504524	98914470	144284903	232	104037											
GPR45	11250	broad.mit.edu	37	chr2	105858511	105858511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaccagaggccggctatgCgctcggccatcaacctgctg	7	8	12	14	3	1	1	1	0	0	1	2	1	1	1	4	3	4	4	4	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:105858511C>T	uc002tco.1	+	1	312	c.196C>T	c.(196-198)CGC>TGC	p.R66C		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	66	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						GCCGGCTATGCGCTCGGCCAT	0.617													47	113					0	0	0.01441	0	0		T	105858511	T	T	105858511	3	4	212	1	0	0	0	0	1	0	0	0	6711	768	27	1	198	1	GPR45	2	105858511	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6944041	105858511	137340862	233	104038											
RGPD3	653489	broad.mit.edu	37	chr2	107050812	107050812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcatcatttgcaatgtcttCtgccttcctgtgaaaaatct	9	15	7	10	0	4	1	1	1	3	0	5	1	5	1	2	1	2	2	2	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:107050812C>T	uc010ywi.1	-	15	2134	c.2077G>A	c.(2077-2079)GAA>AAA	p.E693K		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	693					intracellular transport		binding			ovary(1)	1						GCAATGTCTTCTGCCTTCCTG	0.294													25	56					0	0	0.005524	0	0		T	107050812	T	T	107050812	3	4	212	1	0	0	0	0	1	0	0	0	13312	922	32	4	3235	4	RGPD3	2	107050812	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1192301	107050812	136148561	234	104039											
EDAR	10913	broad.mit.edu	37	chr2	109513587	109513587	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagctctcggcgaggtggcGccacgttttcacaacagcct	8	8	12	13	4	2	0	1	0	1	0	3	2	2	0	2	3	3	2	2	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:109513587G>A	uc002teq.3	-	12	1554	c.1123C>T	c.(1123-1125)CGC>TGC	p.R375C	EDAR_uc010fjn.2_Missense_Mutation_p.R407C|EDAR_uc010yws.1_Missense_Mutation_p.R407C	NM_022336	NP_071731	Q9UNE0	EDAR_HUMAN	ectodysplasin A receptor precursor	375	Death.|Cytoplasmic (Potential).		R -> H (in EDA; the mutant protein does not interact with EDARADD and is functionally inactive).		apoptosis|cell differentiation	integral to membrane	protein binding|transmembrane receptor activity			skin(1)	1						GCGAGGTGGCGCCACGTTTTC	0.567													16	40					0	0	0.004007	0	0		A	109513587	A	A	109513587	3	1	212	1	0	0	0	0	1	0	0	0	4911	1087	38	1	227	1	EDAR	2	109513587	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2462775	109513587	133685786	235	104040											
ANAPC1	64682	broad.mit.edu	37	chr2	112545863	112545863	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataaagggcacagagaagagCggcaatggaagaatttgatg	17	6	14	4	1	0	4	0	1	0	3	0	6	0	5	0	3	1	2	0	3	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:112545863C>T	uc002thi.2	-	39	4994	c.4747G>A	c.(4747-4749)GCT>ACT	p.A1583T		NM_022662	NP_073153	Q9H1A4	APC1_HUMAN	anaphase promoting complex subunit 1	1583					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm				skin(2)	2						CAGAGAAGAGCGGCAATGGAA	0.423													5	31					0	0	0.001984	0	0		T	112545863	T	T	112545863	3	4	212	1	0	0	0	0	1	0	0	0	598	768	27	1	1127	1	ANAPC1	2	112545863	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3032276	112545863	130653510	236	104041											
TMEM87B	84910	broad.mit.edu	37	chr2	112847268	112847268	+	Silent	SNP	T	G	G	0	1	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	ctatacttaatctttgcagcTgttgaaggcgtgatgagagt	10	14	11	6	1	1	3	0	3	1	1	1	4	1	3	0	1	3	3	0	1	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:112847268T>G	uc002thm.2	+	10	1374	c.1005T>G	c.(1003-1005)GCT>GCG	p.A335A		NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor	335	Helical; (Potential).					integral to membrane					0						TCTTTGCAGCTGTTGAAGGCG	0.433													33	85					0	0	0.004878	0	0		G	112847268	G	G	112847268	2	3	212	1	0	0	0	0	0	0	0	1	16236	1567	55	5		5	TMEM87B	2	112847268	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	301405	112847268	130352105	237	104042											
IL1A	3552	broad.mit.edu	37	chr2	113539199	113539199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	accttcctctgagtcattggCgatggcctccaggtcatcat	7	12	9	13	1	4	1	3	1	1	0	6	2	6	1	4	3	0	0	4	3	0	2	rs143855190		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:113539199C>T	uc002tig.2	-	4	1261	c.301G>A	c.(301-303)GCC>ACC	p.A101T		NM_000575	NP_000566	P01583	IL1A_HUMAN	interleukin 1, alpha proprotein	101					anti-apoptosis|apoptosis|cell proliferation|cellular response to heat|cytokine-mediated signaling pathway|fever generation|immune response|negative regulation of cell proliferation|positive regulation of angiogenesis|positive regulation of cell division|positive regulation of cytokine secretion|positive regulation of interleukin-2 biosynthetic process|positive regulation of mitosis|positive regulation vascular endothelial growth factor production|response to copper ion	cytosol|extracellular space	copper ion binding|cytokine activity|interleukin-1 receptor binding			lung(1)	1						GAGTCATTGGCGATGGCCTCC	0.438													49	117					0	0	0.01441	0	0		T	113539199	T	T	113539199	3	4	212	1	0	0	0	0	1	0	0	0	7666	768	27	1	530	1	IL1A	2	113539199	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	691931	113539199	129660174	238	104043											
FOXD4L1	200350	broad.mit.edu	37	chr2	114257989	114257989	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggctgcgctcccaccaagggCgcggtgctgggcgggcacct	4	5	17	15	4	0	0	0	0	0	0	1	0	1	0	3	5	2	4	3	5	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:114257989C>T	uc002tjw.3	+	1	1329	c.1156C>T	c.(1156-1158)CGC>TGC	p.R386C		NM_012184	NP_036316	Q9NU39	FX4L1_HUMAN	forkhead box D4-like 1	386					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0						CCACCAAGGGCGCGGTGCTGG	0.687													4	46					0	0	0.000602	0	0		T	114257989	T	T	114257989	3	4	212	1	0	0	0	0	1	0	0	0	6014	768	27	1	1158	1	FOXD4L1	2	114257989	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	718790	114257989	128941384	239	104044											
CNTNAP5	129684	broad.mit.edu	37	chr2	125504877	125504877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actggggaggttcccctcctGgggtccagcagtgtgagtgt	5	10	16	10	0	0	1	0	1	0	0	3	2	3	2	4	5	1	2	4	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:125504877G>A	uc002tno.2	+	14	2510	c.2146G>A	c.(2146-2148)GGG>AGG	p.G716R	CNTNAP5_uc010flu.2_Missense_Mutation_p.G717R	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	716	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TTCCCCTCCTGGGGTCCAGCA	0.527													25	40					0	0	0.00278	0	0		A	125504877	A	A	125504877	3	1	212	1	0	0	0	0	1	0	0	0	3653	1348	47	4	2200	4	CNTNAP5	2	125504877	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	11246888	125504877	117694496	240	104045											
MAP3K2	10746	broad.mit.edu	37	chr2	128079649	128079649	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggtgggctgatgtccattaCggtcaaagtaggattgtcta	9	12	14	6	1	2	1	1	1	1	0	3	2	3	2	1	4	1	2	1	4	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:128079649C>T	uc002toj.1	-	11	1083	c.1018G>A	c.(1018-1020)GTA>ATA	p.V340I		NM_006609	NP_006600	Q9Y2U5	M3K2_HUMAN	mitogen-activated protein kinase kinase kinase	340					activation of JUN kinase activity|cellular response to mechanical stimulus	nucleus	ATP binding|MAP kinase kinase kinase activity|metal ion binding|protein kinase binding			lung(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0706)		ATGTCCATTACGGTCAAAGTA	0.378													3	17					0	0	0.009096	0	0		T	128079649	T	T	128079649	3	4	212	1	0	0	0	0	1	0	0	0	9268	536	19	1	865	1	MAP3K2	2	128079649	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2574772	128079649	115119724	241	104046											
IWS1	55677	broad.mit.edu	37	chr2	128238676	128238676	+	Frame_Shift_Del	DEL	T	-	-																															cactgcgtgtgcagatctgcTttttttccttatatctgtga																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:128238676delT	uc002ton.2	-	14	2707	c.2404delA	c.(2404-2406)AGCfs	p.S802fs		NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	802					transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		GCAGATCTGCTTTTTTTCCTT	0.423													32	71	---	---	---	---						.	-	128238676	-	-	128238676	7	5	212	1	0	1	0	1	0	0	0	0	7947	1609	56	0	59	0	IWS1	2	128238676	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	159027	128238676	114960697	242	104047											
LIMS2	55679	broad.mit.edu	37	chr2	128398501	128398501	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgagtctcgcagtaggccagGcccttcttctcatagtgccg	6	11	11	13	2	3	1	1	1	3	0	5	1	3	1	3	2	1	2	3	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:128398501G>T	uc002tpa.2	-	7	889	c.723C>A	c.(721-723)GGC>GGA	p.G241G	LIMS2_uc002tou.2_Silent_p.G49G|LIMS2_uc002tov.2_Silent_p.G89G|LIMS2_uc002tow.2_Silent_p.G89G|LIMS2_uc002tox.2_Silent_p.G265G|LIMS2_uc010fmb.2_Silent_p.G151G|LIMS2_uc002toy.2_Silent_p.G236G|LIMS2_uc010yzm.1_Silent_p.G263G|LIMS2_uc002toz.2_Silent_p.G236G|LIMS2_uc002tpb.2_Silent_p.G236G	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	241	LIM zinc-binding 4.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)		AGTAGGCCAGGCCCTTCTTCT	0.622													25	55					8.58068e-18	9.84018e-18	0.007291	1	0		T	128398501	T	T	128398501	2	4	212	1	0	0	0	0	0	0	0	1	8820	1190	42	5		5	LIMS2	2	128398501	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	159825	128398501	114800872	243	104048											
POTEE	445582	broad.mit.edu	37	chr2	132021845	132021845	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcctccctagagaagagCtacgagctgcccgatggcca	10	6	11	14	2	0	2	0	0	0	2	2	5	2	2	4	1	5	3	4	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:132021845C>A	uc002tsn.2	+	15	2869	c.2817C>A	c.(2815-2817)AGC>AGA	p.S939R	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.S539R|POTEE_uc002tsl.2_Missense_Mutation_p.S521R|POTEE_uc010fmy.1_Missense_Mutation_p.S403R	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	939	Actin-like.						ATP binding				0						TAGAGAAGAGCTACGAGCTGC	0.612													29	120					5.91797e-21	6.86813e-21	0.012213	1	0		A	132021845	A	A	132021845	3	1	212	1	0	0	0	0	1	0	0	0	12283	796	28	5	2875	5	POTEE	2	132021845	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3623344	132021845	111177528	244	104049											
ACMSD	130013	broad.mit.edu	37	chr2	135620998	135620998	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acactttaaacctgtgccagCttttaaacaacgaccttgcc	12	11	5	13	1	0	0	0	0	0	0	0	1	0	0	4	0	6	1	4	0	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:135620998C>A	uc002ttz.2	+	5	350	c.283C>A	c.(283-285)CTT>ATT	p.L95I	ACMSD_uc002tua.2_Missense_Mutation_p.L37I	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase	95					quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		CCTGTGCCAGCTTTTAAACAA	0.527													42	59					1.7489e-18	2.0119e-18	0.011902	1	0		A	135620998	A	A	135620998	3	1	212	1	0	0	0	0	1	0	0	0	144	797	28	5	301	5	ACMSD	2	135620998	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3599153	135620998	107578375	245	104050											
R3HDM1	23518	broad.mit.edu	37	chr2	136480084	136480084	+	Frame_Shift_Del	DEL	A	-	-																															accgaggaaggagacaagctAaaaaagctgcatccacagac																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:136480084delA	uc002tuo.2	+	25	3275	c.2905delA	c.(2905-2907)AAAfs	p.K969fs	R3HDM1_uc010fni.2_Frame_Shift_Del_p.K968fs|R3HDM1_uc002tup.2_Frame_Shift_Del_p.K914fs|R3HDM1_uc010zbh.1_Frame_Shift_Del_p.K717fs	NM_015361	NP_056176	Q15032	R3HD1_HUMAN	R3H domain containing 1	969							nucleic acid binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.127)		GAGACAAGCTAAAAAAGCTGC	0.458													12	22	---	---	---	---						.	-	136480084	-	-	136480084	7	5	212	1	0	1	0	1	0	0	0	0	12912	363	13	0	2995	0	R3HDM1	2	136480084	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	859086	136480084	106719289	246	104051											
LCT	3938	broad.mit.edu	37	chr2	136570016	136570016	+	Missense_Mutation	SNP	A	G	G	1	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	tcctcttgtgtattccagggAtacaaactgcaacagcctcc	10	11	7	13	0	1	0	0	0	1	0	4	1	4	1	4	1	5	2	4	1	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:136570016A>G	uc002tuu.1	-	7	2229	c.2218T>C	c.(2218-2220)TCC>CCC	p.S740P		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	740	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TATTCCAGGGATACAAACTGC	0.493													18	50					0	0	0.010504	0	0		G	136570016	G	G	136570016	3	3	212	1	0	0	0	0	1	0	0	0	8709	333	12	3	3609	3	LCT	2	136570016	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	89932	136570016	106629357	247	104052											
THSD7B	80731	broad.mit.edu	37	chr2	137988667	137988667	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccctcctcctgagaggaagTcttgtgaaattccctgccga	8	10	9	14	1	1	2	0	2	1	1	4	5	4	3	6	1	1	0	6	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:137988667T>C	uc002tva.1	+	7	1684	c.1684T>C	c.(1684-1686)TCT>CCT	p.S562P	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.S452P	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		TGAGAGGAAGTCTTGTGAAAT	0.473													8	21					0	0	0.00308	0	0		C	137988667	C	C	137988667	3	2	212	1	0	0	0	0	1	0	0	0	15905	1667	58	3	1710	3	THSD7B	2	137988667	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1418651	137988667	105210706	248	104053											
LRP1B	53353	broad.mit.edu	37	chr2	141108494	141108494	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacatccatccctgttattcTtgaattatgttcaatatgag	11	17	5	8	0	2	2	1	2	1	0	4	2	4	2	2	0	1	2	2	0	6	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:141108494T>G	uc002tvj.1	-	77	12736	c.11764A>C	c.(11764-11766)AGA>CGA	p.R3922R		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3922	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CCTGTTATTCTTGAATTATGT	0.343										TSP Lung(27;0.18)			25	54					0	0	0.004656	0	0		G	141108494	G	G	141108494	2	3	212	1	0	0	0	0	0	0	0	1	8973	1617	56	5		5	LRP1B	2	141108494	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3119827	141108494	102090879	249	104054											
LRP1B	53353	broad.mit.edu	37	chr2	141202174	141202174	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctccacaatcattctctcCatcacagatgaaagctggta	12	11	6	12	0	4	2	2	1	2	1	7	2	5	2	2	1	1	2	2	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:141202174C>A	uc002tvj.1	-	64	11104	c.10132G>T	c.(10132-10134)GGA>TGA	p.G3378*		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3378	Extracellular (Potential).|LDL-receptor class A 22.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TCATTCTCTCCATCACAGATG	0.403										TSP Lung(27;0.18)			17	39					1.56452e-12	1.74089e-12	0.007413	1	0		A	141202174	A	A	141202174	4	1	212	1	0	0	0	0	0	1	0	0	8973	603	21	5	3779	5	LRP1B	2	141202174	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	93680	141202174	101997199	250	104055											
LRP1B	53353	broad.mit.edu	37	chr2	141259341	141259341	+	Missense_Mutation	SNP	T	G	G	0	1	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	catttatatggcagtttctcTcatctgaaccatcgccacag	10	13	6	12	1	3	1	1	1	2	0	5	1	3	1	2	1	1	2	2	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:141259341T>G	uc002tvj.1	-	55	9737	c.8765A>C	c.(8764-8766)GAG>GCG	p.E2922A		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2922	Extracellular (Potential).|LDL-receptor class A 20.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GCAGTTTCTCTCATCTGAACC	0.418										TSP Lung(27;0.18)			20	41					0	0	0.008871	0	0		G	141259341	G	G	141259341	3	3	212	1	0	0	0	0	1	0	0	0	8973	1551	54	5	5182	5	LRP1B	2	141259341	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	57167	141259341	101940032	251	104056											
LRP1B	53353	broad.mit.edu	37	chr2	141747221	141747221	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgatcatcaggacagctatGattgactgggagggaggggg	10	8	17	6	0	2	3	2	3	0	0	2	6	2	6	0	5	1	1	0	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:141747221G>T	uc002tvj.1	-	17	3622	c.2650C>A	c.(2650-2652)CAT>AAT	p.H884N	LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	884	Extracellular (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGACAGCTATGATTGACTGGG	0.368										TSP Lung(27;0.18)			25	35					3.65163e-15	4.13596e-15	0.00632	1	0		T	141747221	T	T	141747221	3	4	212	1	0	0	0	0	1	0	0	0	8973	1290	45	5	11449	5	LRP1B	2	141747221	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	487880	141747221	101452152	252	104057											
ZEB2	9839	broad.mit.edu	37	chr2	145156636	145156636	+	Silent	SNP	T	C	C	0	1	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	ttggagcttctttccagggaTggggacctggaatttgagta	8	13	14	6	0	1	1	0	1	1	0	2	5	2	5	2	5	1	2	2	5	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:145156636T>C	uc002tvu.2	-	8	2598	c.2118A>G	c.(2116-2118)CCA>CCG	p.P706P	ZEB2_uc002tvv.2_Silent_p.P700P|ZEB2_uc010zbm.1_Silent_p.P677P|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.P735P	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	706						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		TTTCCAGGGATGGGGACCTGG	0.453													72	89					0	0	0.01441	0	0		C	145156636	C	C	145156636	2	2	212	1	0	0	0	0	0	0	0	1	17649	1451	51	3		3	ZEB2	2	145156636	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3409415	145156636	98042737	253	104058											
RND3	390	broad.mit.edu	37	chr2	151326681	151326681	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtgaaaaatgtctctgacGctattttccgactgtaaagc	12	12	8	9	3	1	2	0	2	1	0	3	3	2	2	1	0	1	2	1	0	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:151326681G>A	uc002txe.2	-	5	799	c.555C>T	c.(553-555)AGC>AGT	p.S185S	RND3_uc002txf.2_Silent_p.S184S|RND3_uc002txg.2_Silent_p.S185S|RND3_uc010zbv.1_Intron|RND3_uc010zbw.1_Silent_p.S48S	NM_005168	NP_005159	P61587	RND3_HUMAN	ras homolog gene family, member E precursor	185					actin cytoskeleton organization|cell adhesion|small GTPase mediated signal transduction	Golgi membrane	GTP binding|GTPase activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.106)		TGTCTCTGACGCTATTTTCCG	0.418													17	43					0	0	0.006122	0	0		A	151326681	A	A	151326681	2	1	212	1	0	0	0	0	0	0	0	1	13446	1078	38	1		1	RND3	2	151326681	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6170045	151326681	91872692	254	104059											
NEB	4703	broad.mit.edu	37	chr2	152482152	152482152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggcttctgtgtataagcGctgtgaaggataaaaaggtt	12	11	12	6	1	1	1	0	1	1	0	1	2	1	2	1	3	1	4	1	3	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:152482152G>A	uc010fnx.2	-	67	9810	c.9619C>T	c.(9619-9621)CGC>TGC	p.R3207C		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	3207	Nebulin 87.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		GTGTATAAGCGCTGTGAAGGA	0.358													10	10					0	0	0.008291	0	0		A	152482152	A	A	152482152	3	1	212	1	0	0	0	0	1	0	0	0	10321	1101	38	1	15786	1	NEB	2	152482152	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1155471	152482152	90717221	255	104060											
NEB	4703	broad.mit.edu	37	chr2	152522696	152522696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtatgactgtctgtagttggCgttggtggcaacctcctgag	6	13	14	8	1	1	2	0	2	1	0	2	2	2	2	2	3	1	5	2	3	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:152522696C>T	uc010fnx.2	-	41	5130	c.4939G>A	c.(4939-4941)GCC>ACC	p.A1647T		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	1647	Nebulin 42.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(2)|skin(1)|pancreas(1)	20				BRCA - Breast invasive adenocarcinoma(221;0.219)		CTGTAGTTGGCGTTGGTGGCA	0.498													49	92					0	0	0.01441	0	0		T	152522696	T	T	152522696	3	4	212	1	0	0	0	0	1	0	0	0	10321	768	27	1	21315	1	NEB	2	152522696	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	40544	152522696	90676677	256	104061											
GPD2	2820	broad.mit.edu	37	chr2	157439405	157439405	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagaagagttccaattccagTggaccgtagttgtggaggat	11	10	13	7	1	0	2	0	0	0	2	2	5	2	5	3	3	0	3	3	3	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:157439405T>C	uc002tzf.3	+	17	2519	c.2159T>C	c.(2158-2160)GTG>GCG	p.V720A	GPD2_uc010zch.1_Missense_Mutation_p.V493A|GPD2_uc002tzd.3_Missense_Mutation_p.V720A|GPD2_uc002tze.1_RNA	NM_001083112	NP_001076581	P43304	GPDM_HUMAN	glycerol-3-phosphate dehydrogenase 2,	720					cellular lipid metabolic process	glycerol-3-phosphate dehydrogenase complex|mitochondrial inner membrane	calcium ion binding|sn-glycerol-3-phosphate:ubiquinone-8 oxidoreductase activity			ovary(1)	1						CCAATTCCAGTGGACCGTAGT	0.443													18	29					0	0	0.007413	0	0		C	157439405	C	C	157439405	3	2	212	1	0	0	0	0	1	0	0	0	6621	1696	59	3	2221	3	GPD2	2	157439405	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	4916709	157439405	85759968	257	104062											
CCDC148	130940	broad.mit.edu	37	chr2	159077217	159077217	+	Frame_Shift_Del	DEL	T	-	-																															tgttttttcttggcccagtaTttttttatctattgtataaa																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:159077217delT	uc002tzq.2	-	11	1523	c.1260delA	c.(1258-1260)AAAfs	p.K420fs	CCDC148_uc002tzr.2_Frame_Shift_Del_p.K268fs|CCDC148_uc010foh.2_Frame_Shift_Del_p.K133fs	NM_138803	NP_620158	Q8NFR7	CC148_HUMAN	coiled-coil domain containing 148	420	Glu/Lys-rich.									ovary(2)	2						TGGCCCAGTATTTTTTTATCT	0.318													9	9	---	---	---	---						.	-	159077217	-	-	159077217	7	5	212	1	0	1	0	1	0	0	0	0	2785	1490	52	0	531	0	CCDC148	2	159077217	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	1637812	159077217	84122156	258	104063											
TANC1	85461	broad.mit.edu	37	chr2	160035080	160035080	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccccaggaaatcataagtgCgctgccatttgtcaagcttt	10	11	8	12	1	2	0	2	0	0	0	2	1	2	1	3	1	3	2	3	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:160035080C>T	uc002uag.2	+	14	2190	c.1916C>T	c.(1915-1917)GCG>GTG	p.A639V	TANC1_uc010fol.1_Missense_Mutation_p.A533V|TANC1_uc010zcm.1_Missense_Mutation_p.A631V|TANC1_uc010fom.1_Missense_Mutation_p.A445V|TANC1_uc002uai.1_RNA	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	639						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						ATCATAAGTGCGCTGCCATTT	0.443													31	37					0	0	0.010818	0	0		T	160035080	T	T	160035080	3	4	212	1	0	0	0	0	1	0	0	0	15569	768	27	1	1962	1	TANC1	2	160035080	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	957863	160035080	83164293	259	104064											
CSRNP3	80034	broad.mit.edu	37	chr2	166535748	166535748	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagttctttgttattctgatGgcaccgccgttcacgaaagc	8	13	9	11	3	3	1	1	1	2	0	3	2	3	1	2	1	1	4	2	1	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:166535748G>A	uc002udf.2	+	7	1619	c.1243G>A	c.(1243-1245)GGC>AGC	p.G415S	CSRNP3_uc002udg.2_Missense_Mutation_p.G415S	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	415					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						TTATTCTGATGGCACCGCCGT	0.433													36	60					0	0	0.00623	0	0		A	166535748	A	A	166535748	3	1	212	1	0	0	0	0	1	0	0	0	3968	1348	47	4	1257	4	CSRNP3	2	166535748	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6500668	166535748	76663625	260	104065											
SCN1A	6323	broad.mit.edu	37	chr2	166905432	166905432	+	Frame_Shift_Del	DEL	A	-	-																															ttccacatagtagtgcatctAaaaaaccctccaggaaataa																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:166905432delA	uc010zcz.1	-	7	1010	c.992delT	c.(991-993)TTAfs	p.L331fs	SCN1A_uc002udo.3_Frame_Shift_Del_p.L200fs|SCN1A_uc010fpk.2_Frame_Shift_Del_p.L200fs	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	331	I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TAGTGCATCTAAAAAACCCTC	0.264													17	26	---	---	---	---						.	-	166905432	-	-	166905432	7	5	212	1	0	1	0	1	0	0	0	0	13939	372	13	0	5117	0	SCN1A	2	166905432	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	369684	166905432	76293941	261	104066											
SCN1A	6323	broad.mit.edu	37	chr2	166909417	166909417	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actctgaatgttctcaatgcCgagacattgcccaggtccac	10	10	8	13	1	2	2	1	1	2	1	4	3	3	2	3	1	2	1	3	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:166909417C>T	uc010zcz.1	-	5	657	c.639G>A	c.(637-639)TCG>TCA	p.S213S	SCN1A_uc002udo.3_Silent_p.S82S|SCN1A_uc010fpk.2_Silent_p.S82S	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	213	I.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TTCTCAATGCCGAGACATTGC	0.438													5	16					0	0	0.001168	0	0		T	166909417	T	T	166909417	2	4	212	1	0	0	0	0	0	0	0	1	13939	639	23	1		1	SCN1A	2	166909417	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3985	166909417	76289956	262	104067											
XIRP2	129446	broad.mit.edu	37	chr2	168102667	168102667	+	Missense_Mutation	SNP	A	C	C	1	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	tggcaaaatacaagctaatgAaccaagcatctcctgagata	17	8	7	9	0	1	2	0	2	1	1	2	3	1	2	2	1	4	3	2	1	8	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:168102667A>C	uc002udx.2	+	8	4783	c.4765A>C	c.(4765-4767)AAC>CAC	p.N1589H	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.N1414H|XIRP2_uc010fpq.2_Missense_Mutation_p.N1367H|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1414					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CAAGCTAATGAACCAAGCATC	0.388													10	16					0	0	0.006214	0	0		C	168102667	C	C	168102667	3	2	212	1	0	0	0	0	1	0	0	0	17456	246	9	5	4795	5	XIRP2	2	168102667	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1193250	168102667	75096706	263	104068											
PPIG	9360	broad.mit.edu	37	chr2	170493811	170493811	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aataacagcagggaaaaaaaGgctgatagagatcaaagtcc	20	5	10	6	0	1	2	1	1	0	1	2	4	2	3	1	2	2	2	1	2	7	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:170493811G>T	uc002uez.2	+	14	2263	c.2043G>T	c.(2041-2043)AAG>AAT	p.K681N	PPIG_uc010fpx.2_Missense_Mutation_p.K666N|PPIG_uc010fpy.2_Missense_Mutation_p.K674N|PPIG_uc002ufb.2_Missense_Mutation_p.K681N|PPIG_uc002ufd.2_Missense_Mutation_p.K678N	NM_004792	NP_004783	Q13427	PPIG_HUMAN	peptidylprolyl isomerase G	681					protein folding|RNA splicing	nuclear matrix|nuclear speck	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|central_nervous_system(1)	3					L-Proline(DB00172)	GGGAAAAAAAGGCTGATAGAG	0.353													16	34					4.96729e-08	5.30538e-08	0.008871	1	0		T	170493811	T	T	170493811	3	4	212	1	0	0	0	0	1	0	0	0	12346	991	35	5	2089	5	PPIG	2	170493811	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2391144	170493811	72705562	264	104069											
WIPF1	7456	broad.mit.edu	37	chr2	175436932	175436932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcactggtggggacccccGgttgtgcggacttgattgaa	6	9	17	9	2	0	2	0	2	0	0	0	4	0	4	2	6	1	2	2	6	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:175436932G>A	uc002uiy.2	-	6	933	c.601C>T	c.(601-603)CGG>TGG	p.R201W	uc002uiw.2_Intron|uc002uix.1_Intron|WIPF1_uc002uja.2_Missense_Mutation_p.R201W|WIPF1_uc010fqt.1_Missense_Mutation_p.R201W|WIPF1_uc002ujc.1_Missense_Mutation_p.R201W|WIPF1_uc002uiz.2_Missense_Mutation_p.R201W|WIPF1_uc002ujb.1_Missense_Mutation_p.R201W|WIPF1_uc010zep.1_Missense_Mutation_p.R201W	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	201					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)|skin(1)	2						GGGGACCCCCGGTTGTGCGGA	0.657													31	61					0	0	0.004878	0	0		A	175436932	A	A	175436932	3	1	212	1	0	0	0	0	1	0	0	0	17393	1115	39	1	926	1	WIPF1	2	175436932	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4943121	175436932	67762441	265	104070											
MTX2	10651	broad.mit.edu	37	chr2	177134392	177134392	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaagccttcgtctcccagaTtgcaggtagcgcggctggcc	6	8	14	13	3	1	1	0	0	1	1	3	2	1	2	3	4	3	3	3	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:177134392T>C	uc002ukx.2	+	1	270	c.35T>C	c.(34-36)ATT>ACT	p.I12T	MTX2_uc002ukw.2_5'UTR	NM_006554	NP_006545	O75431	MTX2_HUMAN	metaxin 2	12					protein targeting to mitochondrion	mitochondrial outer membrane				ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00365)|Epithelial(96;0.0654)|all cancers(119;0.181)			GTCTCCCAGATTGCAGGTAGC	0.706													9	6					0	0	0.008291	0	0		C	177134392	C	C	177134392	3	2	212	1	0	0	0	0	1	0	0	0	9986	1493	52	3	37	3	MTX2	2	177134392	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1697460	177134392	66064981	266	104071											
HNRNPA3	220988	broad.mit.edu	37	chr2	178080769	178080769	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgttggtggtattaaagaaGatacagaagaatataatttg	16	14	10	1	0	0	4	0	0	0	4	0	4	0	4	0	2	1	2	0	2	9	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:178080769G>T	uc002ulb.1	+	4	512	c.406G>T	c.(406-408)GAT>TAT	p.D136Y	HNRNPA3_uc002ulc.1_Missense_Mutation_p.D136Y|HNRNPA3_uc002uld.2_Missense_Mutation_p.D114Y|HNRNPA3_uc002ule.2_5'Flank	NM_194247	NP_919223	P51991	ROA3_HUMAN	heterogeneous nuclear ribonucleoprotein A3	136	RRM 2.					catalytic step 2 spliceosome|nucleolus|nucleoplasm	nucleotide binding|protein binding|RNA binding			ovary(2)	2						TATTAAAGAAGATACAGAAGA	0.328													6	15					5.9392e-07	6.29946e-07	0.001168	1	0		T	178080769	T	T	178080769	3	4	212	1	0	0	0	0	1	0	0	0	7276	942	33	5	420	5	HNRNPA3	2	178080769	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	946377	178080769	65118604	267	104072											
PDE11A	50940	broad.mit.edu	37	chr2	178936666	178936667	+	Frame_Shift_Ins	INS	-	G	G																															ctgagaatatgggctgtggtINSggggggcagggagcttgcct																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:178936666_178936667insG	uc002ulq.2	-	1	816_817	c.498_499insC	c.(496-501)CCCACCfs	p.P166fs	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	166_167					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TGGGCTGTGGTGGGGGGCAGGG	0.564									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				36	70	---	---	---	---						.	G	178936667	G	G	178936666	7	5	212	1	0	1	1	0	0	0	0	0	11650	1696	59	0	2382	0	PDE11A	2	178936666	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	855897	178936666	64262707	268	104073											
PRKRA	8575	broad.mit.edu	37	chr2	179296888	179296888	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagctgcatcactttgtgcaTtgccacaggagataccggag	10	9	12	10	1	1	1	1	0	0	1	1	4	1	2	2	2	5	3	2	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:179296888T>G	uc002umf.2	-	8	1079	c.878A>C	c.(877-879)AAT>ACT	p.N293T	PRKRA_uc002umc.2_Missense_Mutation_p.N125T|PRKRA_uc002umd.2_Missense_Mutation_p.N268T|PRKRA_uc002ume.2_Missense_Mutation_p.N282T|PRKRA_uc002umg.2_Missense_Mutation_p.N180T|uc002umb.1_Intron|PRKRA_uc002umh.1_RNA	NM_003690	NP_003681	O75569	PRKRA_HUMAN	protein kinase, interferon-inducible double	293	DRBM 3.|Sufficient for self-association and interaction with TARBP2.				immune response|negative regulation of cell proliferation|production of siRNA involved in RNA interference|response to virus	perinuclear region of cytoplasm	double-stranded RNA binding|enzyme activator activity|protein homodimerization activity			central_nervous_system(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00406)|Epithelial(96;0.00634)|all cancers(119;0.0265)			ACTTTGTGCATTGCCACAGGA	0.418													15	42					0	0	0.003163	0	0		G	179296888	G	G	179296888	3	3	212	1	0	0	0	0	1	0	0	0	12546	1493	52	5	67	5	PRKRA	2	179296888	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	360222	179296888	63902485	269	104074											
TTN	7273	broad.mit.edu	37	chr2	179471853	179471853	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttgtccctcaagcagacCtgtgatgtcacatttagatc	9	14	7	11	0	3	3	2	1	1	2	5	3	4	3	2	0	1	1	2	0	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:179471853C>A	uc010zfg.1	-	227	45996	c.45772G>T	c.(45772-45774)GGT>TGT	p.G15258C	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G8953C|TTN_uc010zfi.1_Missense_Mutation_p.G8886C|TTN_uc010zfj.1_Missense_Mutation_p.G8761C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16185							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCAAGCAGACCTGTGATGTCA	0.413													30	62					1.30897e-18	1.5077e-18	0.009535	1	0		A	179471853	A	A	179471853	3	1	212	1	0	0	0	0	1	0	0	0	16761	681	24	5	54557	5	TTN	2	179471853	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	174965	179471853	63727520	270	104075											
TTN	7273	broad.mit.edu	37	chr2	179546140	179546140	+	Silent	SNP	C	T	T	0	0	0	1	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	ttgagtttcttaggaatgggCactggtactttttcttcagg	7	17	11	6	0	3	1	1	1	2	0	3	2	3	2	0	4	1	3	0	4	3	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:179546140C>T	uc010zfg.1	-	134	29702	c.29478G>A	c.(29476-29478)GTG>GTA	p.V9826V	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.V6487V|TTN_uc010fre.1_Intron|TTN_uc002una.1_5'Flank|TTN_uc010frf.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10753							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGGAATGGGCACTGGTACTT	0.343													6	12					0	0	0.001168	0	0		T	179546140	T	T	179546140	2	4	212	1	0	0	0	0	0	0	0	1	16761	697	25	2		2	TTN	2	179546140	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	74287	179546140	63653233	271	104076											
TTN	7273	broad.mit.edu	37	chr2	179591924	179591924	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gattgttcatctgtatgacgGccactgagtcaatgaaagtc	11	12	10	8	1	3	3	2	3	1	0	4	4	3	3	1	1	0	2	1	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:179591924G>T	uc010zfg.1	-	66	16660	c.16436C>A	c.(16435-16437)GCC>GAC	p.A5479D	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.A2140D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6406							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CTGTATGACGGCCACTGAGTC	0.453													4	60					0.00909568	0.00923654	0.009096	1	0		T	179591924	T	T	179591924	3	4	212	1	0	0	0	0	1	0	0	0	16761	1203	42	5	84537	5	TTN	2	179591924	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	45784	179591924	63607449	272	104077											
TTN	7273	broad.mit.edu	37	chr2	179611032	179611032	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatttttagttctttgtcTtctccctcccttgaatccat	6	20	3	12	0	4	1	1	1	3	0	7	1	6	1	3	0	0	1	3	0	3	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:179611032T>G	uc002unb.2	-	46	16319	c.16095A>C	c.(16093-16095)GAA>GAC	p.E5365D	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTTCTTTGTCTTCTCCCTCCC	0.328													4	37					0	0	0.009096	0	0		G	179611032	G	G	179611032	3	3	212	1	0	0	0	0	1	0	0	0	16761	1606	56	5	94202	5	TTN	2	179611032	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	19108	179611032	63588341	273	104078											
ITGA4	3676	broad.mit.edu	37	chr2	182323028	182323028	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaatcccggccagacgtgCgaacagctccagctgggtga	11	5	13	12	3	0	3	0	1	0	2	2	4	2	3	3	2	4	2	3	2	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:182323028C>T	uc002unu.2	+	2	1066	c.303C>T	c.(301-303)TGC>TGT	p.C101C	ITGA4_uc002unt.2_Silent_p.C101C|ITGA4_uc010zfl.1_Silent_p.C101C	NM_000885	NP_000876	P13612	ITA4_HUMAN	integrin alpha 4 precursor	101	Extracellular (Potential).				blood coagulation|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response	integrin complex	identical protein binding|receptor activity			ovary(3)|lung(1)|central_nervous_system(1)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.0593)		Natalizumab(DB00108)	GCCAGACGTGCGAACAGCTCC	0.587													5	11					0	0	0.001168	0	0		T	182323028	T	T	182323028	2	4	212	1	0	0	0	0	0	0	0	1	7894	776	27	1		1	ITGA4	2	182323028	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2711996	182323028	60876345	274	104079											
SSFA2	6744	broad.mit.edu	37	chr2	182784139	182784139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcagcttcgtgctgtgcGcatgccttcacccttccgct	4	11	11	15	3	1	0	1	0	0	0	3	1	2	1	3	1	5	5	3	1	0	3	rs150716378	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:182784139G>A	uc002uoi.2	+	14	3432	c.3110G>A	c.(3109-3111)CGC>CAC	p.R1037H	SSFA2_uc002uoh.2_Missense_Mutation_p.R1037H|SSFA2_uc002uoj.2_Missense_Mutation_p.R1037H|SSFA2_uc002uok.2_RNA|SSFA2_uc010zfo.1_Missense_Mutation_p.R884H|SSFA2_uc002uol.2_Missense_Mutation_p.R884H|SSFA2_uc002uom.2_Missense_Mutation_p.R505H	NM_001130445	NP_001123917	P28290	SSFA2_HUMAN	sperm specific antigen 2 isoform 1	1037	Potential.					cytoplasm|plasma membrane	actin binding			breast(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0856)			CGTGCTGTGCGCATGCCTTCA	0.532													56	94					0	0	0.01441	0	0		A	182784139	A	A	182784139	3	1	212	1	0	0	0	0	1	0	0	0	15208	1087	38	1	3164	1	SSFA2	2	182784139	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	461111	182784139	60415234	275	104080											
COL5A2	1290	broad.mit.edu	37	chr2	189917496	189917496	+	Silent	SNP	A	G	G	1	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	ggcggaccttgggttcctcgAccaccttttagtccaggaac	7	10	11	13	2	0	0	0	0	0	0	3	3	2	2	5	4	1	1	5	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:189917496A>G	uc002uqk.2	-	40	2969	c.2694T>C	c.(2692-2694)GGT>GGC	p.G898G	COL5A2_uc010frx.2_Silent_p.G474G	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	898					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			GGGTTCCTCGACCACCTTTTA	0.418													11	21					0	0	0.001855	0	0		G	189917496	G	G	189917496	2	3	212	1	0	0	0	0	0	0	0	1	3700	262	10	3		3	COL5A2	2	189917496	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	7133357	189917496	53281877	276	104081											
ALS2CR4	65062	broad.mit.edu	37	chr2	202496851	202496851	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atacagactgctgttccacaGtagtttgctcatcagtgatt	10	14	8	9	0	2	2	2	1	0	1	3	2	3	2	1	0	3	5	1	0	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:202496851G>T	uc002uyh.1	-	8	577	c.476C>A	c.(475-477)ACT>AAT	p.T159N	ALS2CR4_uc002uyg.1_Missense_Mutation_p.T151N|ALS2CR4_uc010zho.1_Translation_Start_Site|ALS2CR4_uc010zhp.1_RNA	NM_001044385	NP_001037850	Q96Q45	TM237_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	183						integral to membrane	protein binding				0						CTGTTCCACAGTAGTTTGCTC	0.428													39	56					2.75727e-19	3.18187e-19	0.004878	1	0		T	202496851	T	T	202496851	3	4	212	1	0	0	0	0	1	0	0	0	554	1029	36	5	778	5	ALS2CR4	2	202496851	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	12579355	202496851	40702522	277	104082											
NRP2	8828	broad.mit.edu	37	chr2	206610590	206610590	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cggggattgggatgcggctgGaggtgctgggctgtgactgg	4	9	22	6	2	0	1	0	1	0	0	0	4	0	4	0	8	2	3	0	8	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:206610590G>A	uc002vaw.2	+	10	2553	c.1762G>A	c.(1762-1764)GAG>AAG	p.E588K	NRP2_uc002vau.2_Missense_Mutation_p.E588K|NRP2_uc002vav.2_Missense_Mutation_p.E588K|NRP2_uc002vax.2_Missense_Mutation_p.E588K|NRP2_uc002vay.2_Missense_Mutation_p.E588K	NM_201266	NP_957718	O60462	NRP2_HUMAN	neuropilin 2 isoform 1 precursor	588	Extracellular (Potential).|F5/8 type C 2.				angiogenesis|axon guidance|cell adhesion	integral to membrane|membrane fraction|plasma membrane	heparin binding|metal ion binding|semaphorin receptor activity|vascular endothelial growth factor receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4						GATGCGGCTGGAGGTGCTGGG	0.602													21	60					0	0	0.012319	0	0		A	206610590	A	A	206610590	3	1	212	1	0	0	0	0	1	0	0	0	10680	1175	41	4	1827	4	NRP2	2	206610590	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4113739	206610590	36588783	278	104083											
MDH1B	130752	broad.mit.edu	37	chr2	207619965	207619965	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accctgcttcggaggcagtcCtccagagtgaacacctcctt	8	9	9	15	1	0	2	0	1	0	1	4	3	3	3	5	2	2	2	5	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:207619965C>A	uc002vbs.2	-	5	733	c.678G>T	c.(676-678)GAG>GAT	p.E226D	MDH1B_uc010ziw.1_Intron|MDH1B_uc010fui.2_Missense_Mutation_p.E226D|MDH1B_uc010fuj.2_Missense_Mutation_p.E128D|MDH1B_uc002vbt.2_Intron	NM_001039845	NP_001034934	Q5I0G3	MDH1B_HUMAN	malate dehydrogenase 1B, NAD (soluble)	226					carbohydrate metabolic process|malate metabolic process|tricarboxylic acid cycle		binding|malate dehydrogenase activity			ovary(3)|kidney(1)	4				LUSC - Lung squamous cell carcinoma(261;0.0763)|Epithelial(149;0.131)|Lung(261;0.145)		GGAGGCAGTCCTCCAGAGTGA	0.567													16	40					0.000308642	0.000317638	0.003163	1	0		A	207619965	A	A	207619965	3	1	212	1	0	0	0	0	1	0	0	0	9427	680	24	5	910	5	MDH1B	2	207619965	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1009375	207619965	35579408	279	104084											
CRYGA	1418	broad.mit.edu	37	chr2	209028137	209028137	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgatgcaattgtagcagcGaccctgaaagtctcggtcct	10	10	10	11	2	1	2	0	2	1	0	3	3	2	2	2	1	3	3	2	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:209028137G>A	uc002vcq.3	-	2	60	c.43C>T	c.(43-45)CGC>TGC	p.R15C		NM_014617	NP_055432	P11844	CRGA_HUMAN	crystallin, gamma A	15	Beta/gamma crystallin 'Greek key' 1.				visual perception		structural constituent of eye lens				0				Epithelial(149;0.067)|LUSC - Lung squamous cell carcinoma(261;0.0708)|Lung(261;0.135)		TTGTAGCAGCGACCCTGAAAG	0.552													22	66					0	0	0.014323	0	0		A	209028137	A	A	209028137	3	1	212	1	0	0	0	0	1	0	0	0	3917	1058	37	1	489	1	CRYGA	2	209028137	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1408172	209028137	34171236	280	104085											
ATIC	471	broad.mit.edu	37	chr2	216197139	216197139	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctggatttataaacttgtgCgatgctttgaacgcctggca	9	13	10	9	2	0	1	0	1	0	0	0	3	0	2	2	2	4	2	2	2	4	5	rs143393493	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:216197139C>T	uc002vex.3	+	8	897	c.723C>T	c.(721-723)TGC>TGT	p.C241C	ATIC_uc010zjo.1_Silent_p.C182C|ATIC_uc002vey.3_Silent_p.C240C	NM_004044	NP_004035	P31939	PUR9_HUMAN	5-aminoimidazole-4-carboxamide ribonucleotide	241					IMP biosynthetic process|purine base metabolic process	cytosol	IMP cyclohydrolase activity|phosphoribosylaminoimidazolecarboxamide formyltransferase activity|protein homodimerization activity		ATIC/ALK(24)	haematopoietic_and_lymphoid_tissue(22)|ovary(2)|lung(2)|soft_tissue(2)|skin(1)	29		Renal(323;0.229)		Epithelial(149;2.02e-06)|all cancers(144;0.000316)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.0097)	Tetrahydrofolic acid(DB00116)	TAAACTTGTGCGATGCTTTGA	0.448			T	ALK	ALCL								23	58					0	0	0.00333	0	0		T	216197139	T	T	216197139	2	4	212	1	0	0	0	0	0	0	0	1	1106	776	27	1		1	ATIC	2	216197139	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7169002	216197139	27002234	281	104086											
VIL1	7429	broad.mit.edu	37	chr2	219299403	219299403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttgtcctcaagacccagtCttgctgctatctatggtgtg	6	15	9	11	0	3	1	1	0	2	1	4	1	4	1	2	1	2	2	2	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:219299403C>T	uc002via.2	+	14	1720	c.1655C>T	c.(1654-1656)TCT>TTT	p.S552F	VIL1_uc010zke.1_Missense_Mutation_p.S241F|VIL1_uc002vib.2_Missense_Mutation_p.S552F	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	552	Gelsolin-like 5.|Core.				actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		AAGACCCAGTCTTGCTGCTAT	0.577													5	90					0	0	0.000602	0	0		T	219299403	T	T	219299403	3	4	212	1	0	0	0	0	1	0	0	0	17190	913	32	4	1705	4	VIL1	2	219299403	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3102264	219299403	23899970	282	104087											
WNT10A	80326	broad.mit.edu	37	chr2	219746928	219746928	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccgcctccccccggagccCgtgctcaatgccaacacagt	7	6	8	20	3	1	0	1	0	0	0	3	1	3	1	7	1	4	1	7	1	2	0	rs143421847		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:219746928C>T	uc002vjd.1	+	2	622	c.159C>T	c.(157-159)CCC>CCT	p.P53P		NM_025216	NP_079492	Q9GZT5	WN10A_HUMAN	wingless-type MMTV integration site family,	53					anterior/posterior pattern formation|axis specification|canonical Wnt receptor signaling pathway|cellular response to transforming growth factor beta stimulus|female gonad development|hair follicle morphogenesis|odontogenesis|regulation of odontogenesis of dentine-containing tooth|sebaceous gland development|skin development|tongue development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|signal transducer activity			lung(1)|skin(1)	2		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)		CCCCGGAGCCCGTGCTCAATG	0.622													17	46					0	0	0.004007	0	0		T	219746928	T	T	219746928	2	4	212	1	0	0	0	0	0	0	0	1	17408	639	23	1		1	WNT10A	2	219746928	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	447525	219746928	23452445	283	104088											
STK16	8576	broad.mit.edu	37	chr2	220111501	220111501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgagaagccgacatgcatcGcctcttcaatcaccccaaca	12	6	7	16	3	3	1	2	0	1	1	4	3	3	1	4	0	3	1	4	0	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:220111501G>A	uc002vko.2	+	3	366	c.209G>A	c.(208-210)CGC>CAC	p.R70H	GLB1L_uc002vkm.2_5'Flank|GLB1L_uc002vkn.2_5'Flank|STK16_uc002vks.2_Intron|STK16_uc010zky.1_Missense_Mutation_p.R70H|STK16_uc010fwf.2_Missense_Mutation_p.R70H|STK16_uc002vkp.2_Missense_Mutation_p.R70H|STK16_uc002vkr.2_Missense_Mutation_p.R3H|STK16_uc002vkq.2_Missense_Mutation_p.R115H	NM_001008910	NP_001008910	O75716	STK16_HUMAN	serine/threonine kinase 16	70	Protein kinase.				protein complex assembly	membrane	ATP binding|protein binding|protein serine/threonine kinase activity			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)		GACATGCATCGCCTCTTCAAT	0.577													18	31					0	0	0.010504	0	0		A	220111501	A	A	220111501	3	1	212	1	0	0	0	0	1	0	0	0	15314	1087	38	1	215	1	STK16	2	220111501	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	364573	220111501	23087872	284	104089											
DES	1674	broad.mit.edu	37	chr2	220286144	220286144	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaccaggacaacattgcgcGcctggaggaggaaatccggc	11	5	13	12	3	0	0	0	0	0	0	1	4	1	4	3	5	3	0	3	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:220286144G>A	uc002vll.2	+	6	1192	c.1106G>A	c.(1105-1107)CGC>CAC	p.R369H		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	369	Rod.|Coil 2B.				cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		AACATTGCGCGCCTGGAGGAG	0.587													13	50					0	0	0.00245	0	0		A	220286144	A	A	220286144	3	1	212	1	0	0	0	0	1	0	0	0	4455	1087	38	1	1128	1	DES	2	220286144	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	174643	220286144	22913229	285	104090											
EPHA4	2043	broad.mit.edu	37	chr2	222290845	222290845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggtgcgtgatggctgtgataCcaattcttgccaggtccctg	6	12	13	10	1	1	2	0	2	1	0	2	2	2	2	3	3	3	1	3	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:222290845C>T	uc002vmq.2	-	17	2906	c.2864G>A	c.(2863-2865)GGT>GAT	p.G955D	EPHA4_uc002vmr.2_3'UTR|EPHA4_uc010zlm.1_Missense_Mutation_p.G896D|EPHA4_uc010zln.1_Missense_Mutation_p.G955D	NM_004438	NP_004429	P54764	EPHA4_HUMAN	ephrin receptor EphA4 precursor	955	Cytoplasmic (Potential).|SAM.					integral to plasma membrane	ATP binding|ephrin receptor activity			lung(6)|large_intestine(2)|central_nervous_system(2)|urinary_tract(1)|skin(1)	12		Renal(207;0.0183)		Epithelial(121;5.38e-09)|all cancers(144;2.47e-06)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(261;0.0154)		GGCTGTGATACCAATTCTTGC	0.502													30	87					0	0	0.012213	0	0		T	222290845	T	T	222290845	3	4	212	1	0	0	0	0	1	0	0	0	5177	507	18	4	100	4	EPHA4	2	222290845	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2004701	222290845	20908528	286	104091											
SPHKAP	80309	broad.mit.edu	37	chr2	228881852	228881852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcatggggatctgctgtctgGcatggacgactgtctgtggc	5	11	16	9	1	3	0	0	0	3	0	3	3	3	2	0	5	1	3	0	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:228881852G>A	uc002vpq.2	-	7	3765	c.3718C>T	c.(3718-3720)CCA>TCA	p.P1240S	SPHKAP_uc002vpp.2_Missense_Mutation_p.P1240S|SPHKAP_uc010zlx.1_Missense_Mutation_p.P1240S	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1240						cytoplasm	protein binding			skin(5)|ovary(4)|lung(1)	10		Renal(207;0.025)|all_hematologic(139;0.15)|all_lung(227;0.204)|Acute lymphoblastic leukemia(138;0.205)|Esophageal squamous(248;0.23)		Epithelial(121;8.17e-11)|all cancers(144;7.92e-08)|Lung(261;0.0168)|LUSC - Lung squamous cell carcinoma(224;0.0232)		CTGCTGTCTGGCATGGACGAC	0.557													26	77					0	0	0.005443	0	0		A	228881852	A	A	228881852	3	1	212	1	0	0	0	0	1	0	0	0	15073	1203	42	2	1408	2	SPHKAP	2	228881852	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6591007	228881852	14317521	287	104092											
SP100	6672	broad.mit.edu	37	chr2	231368993	231368993	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agggcactctatataaggagCgattcaaacaaggtgagttt	14	10	11	6	1	2	1	1	1	1	0	2	3	2	2	0	3	2	2	0	3	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:231368993C>T	uc002vqt.2	+	21	1999	c.1858C>T	c.(1858-1860)CGA>TGA	p.R620*	SP100_uc002vqs.2_Nonsense_Mutation_p.R620*|SP100_uc002vqu.1_Nonsense_Mutation_p.R620*|SP100_uc010fxp.1_5'UTR	NM_003113	NP_003104	P23497	SP100_HUMAN	nuclear antigen Sp100 isoform 2	620	SAND.				DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|interspecies interaction between organisms|negative regulation of cellular component movement|negative regulation of DNA binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of transcription, DNA-dependent|negative regulation of viral transcription|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|response to cytokine stimulus|response to retinoic acid|response to type I interferon	cytoplasm|nuclear periphery|nucleolus|PML body	chromo shadow domain binding|DNA binding|identical protein binding|kinase binding|protein homodimerization activity|transcription coactivator activity|transcription corepressor activity|transcription factor binding			ovary(4)|central_nervous_system(1)	5		Renal(207;0.0112)|all_lung(227;0.0335)|all_hematologic(139;0.0749)|Lung NSC(271;0.142)|Acute lymphoblastic leukemia(138;0.167)		Epithelial(121;1.13e-12)|all cancers(144;2.71e-10)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)		ATATAAGGAGCGATTCAAACA	0.393													23	86					0	0	0.00632	0	0		T	231368993	T	T	231368993	4	4	212	1	0	0	0	0	0	1	0	0	14985	760	27	1	1940	1	SP100	2	231368993	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2487141	231368993	11830380	288	104093											
SAG	6295	broad.mit.edu	37	chr2	234240339	234240339	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgattattacgtcaagcccGtggctatggaggaagcgcag	10	9	14	8	3	1	1	1	1	0	0	1	3	1	3	1	3	3	2	1	3	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:234240339G>A	uc002vuh.2	+	10	1175	c.787G>A	c.(787-789)GTG>ATG	p.V263M	SAG_uc010zmq.1_Missense_Mutation_p.V129M	NM_000541	NP_000532	P10523	ARRS_HUMAN	S-arrestin	263					rhodopsin mediated phototransduction|rhodopsin mediated signaling pathway		protein phosphatase inhibitor activity			ovary(1)	1		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.018)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.054)		Epithelial(121;2.86e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00608)|Lung(119;0.00714)|GBM - Glioblastoma multiforme(43;0.207)		CGTCAAGCCCGTGGCTATGGA	0.552													7	25					0	0	0.00308	0	0		A	234240339	A	A	234240339	3	1	212	1	0	0	0	0	1	0	0	0	13833	1145	40	1	821	1	SAG	2	234240339	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2871346	234240339	8959034	289	104094											
UGT1A5	54579	broad.mit.edu	37	chr2	234676936	234676936	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tatgaaagcatatgcaatggCgttcccatggtgatgatgcc	11	11	11	8	1	0	3	0	3	0	0	1	3	1	3	2	2	3	3	2	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:234676936C>T	uc002vuw.2	+	4	1158	c.1158C>T	c.(1156-1158)GGC>GGT	p.G386G	UGT1A8_uc010zmv.1_Silent_p.G382G|UGT1A8_uc002vup.2_Silent_p.G382G|UGT1A10_uc002vuq.3_Silent_p.G382G|UGT1A10_uc002vur.2_Silent_p.G382G|UGT1A9_uc010zmw.1_Silent_p.G382G|UGT1A9_uc002vus.2_Silent_p.G382G|UGT1A7_uc010zmx.1_Silent_p.G382G|UGT1A7_uc002vut.2_Silent_p.G382G|UGT1A6_uc002vuu.2_Silent_p.G117G|UGT1A6_uc010zmy.1_Silent_p.G384G|UGT1A6_uc002vuv.3_Silent_p.G384G|UGT1A5_uc010zmz.1_Silent_p.G386G|UGT1A4_uc010zna.1_Silent_p.G386G|UGT1A4_uc002vux.2_Silent_p.G386G|UGT1A3_uc010znb.1_Silent_p.G386G|UGT1A3_uc002vuy.2_Silent_p.G386G|UGT1A9_uc002vva.2_RNA|UGT1A1_uc010znc.1_Silent_p.G385G|UGT1A1_uc002vvb.2_Silent_p.G385G	NM_019078	NP_061951	P35504	UD15_HUMAN	UDP glycosyltransferase 1 family, polypeptide A5	386					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1		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)		TATGCAATGGCGTTCCCATGG	0.493													38	91					0	0	0.00874	0	0		T	234676936	T	T	234676936	2	4	212	1	0	0	0	0	0	0	0	1	16974	755	27	1		1	UGT1A5	2	234676936	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	436597	234676936	8522437	290	104095											
SH3BP4	23677	broad.mit.edu	37	chr2	235951518	235951518	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgtggaccaaggagtGgtacatcggctactaccagg	10	7	13	11	1	0	0	0	0	0	0	1	2	0	2	3	5	4	3	3	5	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:235951518G>A	uc002vvp.2	+	4	2498	c.2105G>A	c.(2104-2106)TGG>TAG	p.W702*	SH3BP4_uc010fym.2_Nonsense_Mutation_p.W702*|SH3BP4_uc002vvq.2_Nonsense_Mutation_p.W702*	NM_014521	NP_055336	Q9P0V3	SH3B4_HUMAN	SH3-domain binding protein 4	702					endocytosis	clathrin-coated vesicle|coated pit|nucleus	protein binding			skin(3)|ovary(1)	4		Breast(86;0.000332)|Renal(207;0.00339)|all_lung(227;0.00458)|all_hematologic(139;0.0296)|Lung NSC(271;0.0419)		Epithelial(121;7.66e-20)|BRCA - Breast invasive adenocarcinoma(100;0.000402)|Lung(119;0.00299)|LUSC - Lung squamous cell carcinoma(224;0.00645)|GBM - Glioblastoma multiforme(43;0.237)		ACCAAGGAGTGGTACATCGGC	0.667													23	46					0	0	0.00333	0	0		A	235951518	A	A	235951518	4	1	212	1	0	0	0	0	0	1	0	0	14271	1357	47	4	2111	4	SH3BP4	2	235951518	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1274582	235951518	7247855	291	104096											
AGAP1	116987	broad.mit.edu	37	chr2	236957795	236957795	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacccacctttcccgagtcCgatctctggacctggatgac	7	9	9	16	2	1	1	0	1	1	0	4	5	3	3	5	2	0	1	5	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:236957795C>T	uc002vvs.2	+	16	2579	c.1984C>T	c.(1984-1986)CGA>TGA	p.R662*	AGAP1_uc002vvt.2_Nonsense_Mutation_p.R609*	NM_001037131	NP_001032208	Q9UPQ3	AGAP1_HUMAN	centaurin, gamma 2 isoform 1	662	Arf-GAP.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			ovary(2)|skin(1)	3						TTCCCGAGTCCGATCTCTGGA	0.577													23	65					0	0	0.014323	0	0		T	236957795	T	T	236957795	4	4	212	1	0	0	0	0	0	1	0	0	366	644	23	1	2046	1	AGAP1	2	236957795	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1006277	236957795	6241578	292	104097											
HDLBP	3069	broad.mit.edu	37	chr2	242169080	242169080	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccccaaagctgggaaattccTcagagctgctcatgtcagga	11	8	10	12	0	3	1	3	0	0	1	4	3	4	3	3	2	3	3	3	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:242169080T>C	uc002waz.2	-	28	3971	c.3743A>G	c.(3742-3744)GAG>GGG	p.E1248G	HDLBP_uc002wba.2_Missense_Mutation_p.E1248G|HDLBP_uc002wbb.2_Missense_Mutation_p.E1200G	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	1248					cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		GGGAAATTCCTCAGAGCTGCT	0.582													4	79					0	0	0.000602	0	0		C	242169080	C	C	242169080	3	2	212	1	0	0	0	0	1	0	0	0	7041	1551	54	3	67	3	HDLBP	2	242169080	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	5211285	242169080	1030293	293	104098											
HDLBP	3069	broad.mit.edu	37	chr2	242195733	242195733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcctgtctcctgcatgatctCgccaaccagtctattatacg	8	12	7	14	2	3	1	0	1	3	0	5	1	3	1	4	0	3	1	4	0	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:242195733C>T	uc002waz.2	-	7	967	c.739G>A	c.(739-741)GAG>AAG	p.E247K	HDLBP_uc002wba.2_Missense_Mutation_p.E247K|HDLBP_uc002wbb.2_Missense_Mutation_p.E268K|HDLBP_uc010fzn.1_5'UTR	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	247	KH 2.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		TGCATGATCTCGCCAACCAGT	0.542													28	92					0	0	0.012213	0	0		T	242195733	T	T	242195733	3	4	212	1	0	0	0	0	1	0	0	0	7041	893	31	1	3155	1	HDLBP	2	242195733	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	26653	242195733	1003640	294	104099											
GAL3ST2	64090	broad.mit.edu	37	chr2	242742942	242742942	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacagccgccacctcaggaaCgtctacgccaagaacaacat	14	4	8	15	3	2	1	1	0	1	1	2	3	2	2	4	1	5	0	4	1	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr2:242742942C>T	uc002wcj.1	+	4	689	c.558C>T	c.(556-558)AAC>AAT	p.N186N		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	186	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		ACCTCAGGAACGTCTACGCCA	0.672													4	18					0	0	0.009096	0	0		T	242742942	T	T	242742942	2	4	212	1	0	0	0	0	0	0	0	1	6213	535	19	1		1	GAL3ST2	2	242742942	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	547209	242742942	456431	295	104100											
CHL1	10752	broad.mit.edu	37	chr3	440833	440833	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggtggaaagtactcaggTaaaattgtttcttaatgtga	14	13	11	3	0	2	2	1	1	1	1	2	3	2	3	0	3	1	3	0	3	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:440833T>C	uc003bou.2	+	25	3608	c.3337_splice	c.e25+2	p.V1113_splice	CHL1_uc003bot.2_Splice_Site_p.V1129_splice|CHL1_uc011asi.1_Splice_Site_p.V1076_splice	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM						axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		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)		AGTACTCAGGTAAAATTGTTT	0.328													7	42					0	0	0.00308	0	0		C	440833	C	C	440833	5	2	212	1	0	0	0	0	0	0	1	0	3352	1652	57	3	3481	3	CHL1	3	440833	Splice_Site	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08		440833	197581597	296	104101											
CNTN6	27255	broad.mit.edu	37	chr3	1262392	1262392	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtcttttaagccgtcCtatttttactcaggagccac	8	15	8	10	1	2	1	1	1	1	0	3	2	3	2	3	2	3	0	3	2	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:1262392C>A	uc003boz.2	+	3	344	c.77C>A	c.(76-78)CCT>CAT	p.P26H	CNTN6_uc010hbo.2_Missense_Mutation_p.P21H|CNTN6_uc011asj.1_5'UTR|CNTN6_uc003bpa.2_Missense_Mutation_p.P26H	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	26	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		TTAAGCCGTCCTATTTTTACT	0.363													12	38					6.72482e-11	7.36681e-11	0.003163	1	0		A	1262392	A	A	1262392	3	1	212	1	0	0	0	0	1	0	0	0	3648	681	24	5	83	5	CNTN6	3	1262392	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	821559	1262392	196760038	297	104102											
LMCD1	29995	broad.mit.edu	37	chr3	8590439	8590439	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtcaagcaatataagagCgaggccctcggcgtgggaga	11	8	14	8	3	1	2	1	0	0	2	2	4	1	2	1	3	2	1	1	3	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:8590439C>T	uc003bqq.2	+	4	687	c.573C>T	c.(571-573)AGC>AGT	p.S191S	LMCD1_uc011atd.1_Silent_p.S118S|LMCD1_uc011ate.1_Silent_p.S79S|LMCD1_uc011atf.1_Silent_p.S118S	NM_014583	NP_055398	Q9NZU5	LMCD1_HUMAN	LIM and cysteine-rich domains 1	191	PET.				positive regulation of calcineurin-NFAT signaling pathway|regulation of cardiac muscle hypertrophy|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus	transcription corepressor activity|zinc ion binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(96;0.124)		AATATAAGAGCGAGGCCCTCG	0.587													22	55					0	0	0.014323	0	0		T	8590439	T	T	8590439	2	4	212	1	0	0	0	0	0	0	0	1	8861	767	27	1		1	LMCD1	3	8590439	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7328047	8590439	189431991	298	104103											
THUMPD3	25917	broad.mit.edu	37	chr3	9413197	9413197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attattttaagtggaaggccGacatgaccaactttgatgtg	12	13	10	6	1	0	2	0	2	0	0	0	4	0	3	2	2	1	0	2	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:9413197G>A	uc003bro.3	+	4	932	c.784G>A	c.(784-786)GAC>AAC	p.D262N	LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Missense_Mutation_p.D262N	NM_001114092	NP_001107564	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	262	THUMP.						methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		GTGGAAGGCCGACATGACCAA	0.433													37	84					0	0	0.006999	0	0		A	9413197	A	A	9413197	3	1	212	1	0	0	0	0	1	0	0	0	15909	1058	37	1	794	1	THUMPD3	3	9413197	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	822758	9413197	188609233	299	104104											
THUMPD3	25917	broad.mit.edu	37	chr3	9426223	9426223	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaggcgttatctggaatgCgacacgtatggcgaaaggtg	11	8	14	8	4	1	0	0	0	1	0	1	3	1	1	0	4	1	2	0	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:9426223C>T	uc003bro.3	+	10	1523	c.1375C>T	c.(1375-1377)CGA>TGA	p.R459*	LOC440944_uc003brm.2_Intron|THUMPD3_uc003brn.3_Nonsense_Mutation_p.R459*	NM_001114092	NP_001107564	Q9BV44	THUM3_HUMAN	THUMP domain containing 3	459							methyltransferase activity|protein binding|RNA binding			ovary(1)	1	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.101)		ATCTGGAATGCGACACGTATG	0.423													61	95					0	0	0.01441	0	0		T	9426223	T	T	9426223	4	4	212	1	0	0	0	0	0	1	0	0	15909	760	27	1	1409	1	THUMPD3	3	9426223	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	13026	9426223	188596207	300	104105											
SETD5	55209	broad.mit.edu	37	chr3	9512217	9512217	+	Missense_Mutation	SNP	A	C	C	1	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	actaacagctgtgctgatagAccttccctactcaactcagg	11	10	7	13	0	2	2	2	1	0	1	3	2	3	2	2	1	5	2	2	1	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:9512217A>C	uc003brt.2	+	19	3234	c.2799A>C	c.(2797-2799)AGA>AGC	p.R933S	SETD5_uc003bru.2_Missense_Mutation_p.R835S|SETD5_uc003brv.2_Missense_Mutation_p.R822S|SETD5_uc010hck.2_Missense_Mutation_p.R415S|SETD5_uc003brx.2_Missense_Mutation_p.R602S	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	933										ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		GTGCTGATAGACCTTCCCTAC	0.483													39	96					0	0	0.013114	0	0		C	9512217	C	C	9512217	3	2	212	1	0	0	0	0	1	0	0	0	14159	272	10	5	2865	5	SETD5	3	9512217	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	85994	9512217	188510213	301	104106											
BRPF1	7862	broad.mit.edu	37	chr3	9776020	9776020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcaagcacaagaaaaaggggCgccagtcacgcccagccaac	15	1	11	14	2	1	1	1	0	0	1	1	1	1	1	3	2	3	2	3	2	5	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:9776020C>T	uc003bse.2	+	2	595	c.196C>T	c.(196-198)CGC>TGC	p.R66C	BRPF1_uc003bsf.2_Missense_Mutation_p.R66C|BRPF1_uc003bsg.2_Missense_Mutation_p.R66C|BRPF1_uc011ati.1_Missense_Mutation_p.R66C	NM_004634	NP_004625	P55201	BRPF1_HUMAN	bromodomain and PHD finger-containing protein 1	66	Interaction with MYST3 and MYST4.				histone H3 acetylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|MOZ/MORF histone acetyltransferase complex|plasma membrane	DNA binding|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Medulloblastoma(99;0.227)					GAAAAAGGGGCGCCAGTCACG	0.572													34	84					0	0	0.004878	0	0		T	9776020	T	T	9776020	3	4	212	1	0	0	0	0	1	0	0	0	1523	768	27	1	198	1	BRPF1	3	9776020	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	263803	9776020	188246410	302	104107											
ATP2B2	491	broad.mit.edu	37	chr3	10401790	10401790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccacctgccgaggcagggcGccctccttctctgggggctg	3	7	14	17	2	1	0	0	0	1	0	3	1	2	0	5	4	1	2	5	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:10401790G>A	uc003bvt.2	-	13	2116	c.1677C>T	c.(1675-1677)GGC>GGT	p.G559G	ATP2B2_uc003bvv.2_Silent_p.G514G|ATP2B2_uc003bvw.2_Silent_p.G514G|ATP2B2_uc010hdo.2_Silent_p.G264G	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1	559	Cytoplasmic (Potential).				ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						GAGGCAGGGCGCCCTCCTTCT	0.687													31	10					0	0	0.003271	0	0		A	10401790	A	A	10401790	2	1	212	1	0	0	0	0	0	0	0	1	1141	1074	38	1		1	ATP2B2	3	10401790	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	625770	10401790	187620640	303	104108											
VGLL4	9686	broad.mit.edu	37	chr3	11600086	11600086	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgtgggcagaggggctggCgggctggcccctgcgagagg	5	5	21	10	2	0	2	0	0	0	2	0	3	0	2	2	7	1	3	2	7	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:11600086C>T	uc003bwf.2	-	6	1183	c.817G>A	c.(817-819)GCC>ACC	p.A273T	VGLL4_uc010hdx.1_Missense_Mutation_p.A279T|VGLL4_uc003bwg.2_Missense_Mutation_p.A278T|VGLL4_uc010hdv.1_Missense_Mutation_p.A189T|VGLL4_uc010hdw.1_Missense_Mutation_p.A193T|VGLL4_uc011aun.1_Missense_Mutation_p.A214T	NM_014667	NP_055482	Q14135	VGLL4_HUMAN	vestigial like 4 isoform b	273					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1				LUSC - Lung squamous cell carcinoma(1;0.089)|Lung(1;0.111)		GAGGGGCTGGCGGGCTGGCCC	0.637													18	61					0	0	0.010504	0	0		T	11600086	T	T	11600086	3	4	212	1	0	0	0	0	1	0	0	0	17187	768	27	1	59	1	VGLL4	3	11600086	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1198296	11600086	186422344	304	104109											
NUP210	23225	broad.mit.edu	37	chr3	13372108	13372108	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttcgggtccatccaggacgCggtagctcagagaggctgca	8	8	14	11	3	1	1	1	0	0	1	4	3	3	2	2	4	2	4	2	4	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:13372108C>T	uc003bxv.1	-	30	4045	c.3962G>A	c.(3961-3963)CGC>CAC	p.R1321H		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	1321	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					ATCCAGGACGCGGTAGCTCAG	0.502													5	56					0	0	0.001984	0	0		T	13372108	T	T	13372108	3	4	212	1	0	0	0	0	1	0	0	0	10779	768	27	1	1745	1	NUP210	3	13372108	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1772022	13372108	184650322	305	104110											
NUP210	23225	broad.mit.edu	37	chr3	13429924	13429924	+	Missense_Mutation	SNP	A	G	G	1	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	ctgagatgtaagaaggagggAtgtacgtagactccaagaaa	16	7	13	5	1	0	4	0	1	0	4	1	7	1	6	1	2	1	3	1	2	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:13429924A>G	uc003bxv.1	-	5	646	c.563T>C	c.(562-564)ATC>ACC	p.I188T		NM_024923	NP_079199	Q8TEM1	PO210_HUMAN	nucleoporin 210 precursor	188	Lumenal (Probable).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore				ovary(3)|large_intestine(3)|skin(3)|pancreas(1)|liver(1)	11	all_neural(104;0.187)					AGAAGGAGGGATGTACGTAGA	0.498													3	39					0	0	0.009096	0	0		G	13429924	G	G	13429924	3	3	212	1	0	0	0	0	1	0	0	0	10779	333	12	3	5244	3	NUP210	3	13429924	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	57816	13429924	184592506	306	104111											
HDAC11	79885	broad.mit.edu	37	chr3	13542247	13542247	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cactgctccagcgaccgtggCgggggcttctgtgcctatgc	4	9	14	14	3	1	0	0	0	1	0	2	1	2	0	3	3	4	2	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:13542247C>T	uc003bxy.2	+	6	580	c.447C>T	c.(445-447)GGC>GGT	p.G149G	HDAC11_uc010heb.2_Missense_Mutation_p.A107V|HDAC11_uc011aux.1_Intron|HDAC11_uc003bxz.2_Silent_p.G121G|HDAC11_uc011auy.1_Silent_p.G98G	NM_024827	NP_079103	Q96DB2	HDA11_HUMAN	histone deacetylase 11 isoform 1	149	Histone deacetylase.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	histone deacetylase complex|plasma membrane	histone deacetylase activity (H3-K16 specific)|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding			ovary(2)	2						GCGACCGTGGCGGGGGCTTCT	0.647											OREG0015412	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	8					0	0	0.004672	0	0		T	13542247	T	T	13542247	2	4	212	1	0	0	0	0	0	0	0	1	7022	755	27	1		1	HDAC11	3	13542247	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	112323	13542247	184480183	307	104112											
ZFYVE20	64145	broad.mit.edu	37	chr3	15115947	15115947	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcataagcaaggtgggtgCgaggctctctgctgggctcc	8	8	15	10	1	1	0	0	0	1	0	3	1	2	0	1	4	4	5	1	4	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:15115947C>T	uc003bzm.1	-	14	2311	c.1697G>A	c.(1696-1698)CGC>CAC	p.R566H	ZFYVE20_uc010hek.1_Missense_Mutation_p.R566H	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	566	Necessary for the interaction with EHD1.				blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						AAGGTGGGTGCGAGGCTCTCT	0.572													9	17					0	0	0.004482	0	0		T	15115947	T	T	15115947	3	4	212	1	0	0	0	0	1	0	0	0	17691	768	27	1	661	1	ZFYVE20	3	15115947	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1573700	15115947	182906483	308	104113											
COLQ	8292	broad.mit.edu	37	chr3	15529720	15529720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agagtgcaccaacctgggggCcgggaggcccaggggagcct	8	3	18	12	1	0	1	0	0	0	1	0	3	0	3	5	6	3	1	5	6	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:15529720C>T	uc003bzx.2	-	3	440	c.314G>A	c.(313-315)GGC>GAC	p.G105D	HACL1_uc011avr.1_RNA|COLQ_uc003bzv.2_Missense_Mutation_p.G95D|COLQ_uc003bzz.2_Missense_Mutation_p.G105D|COLQ_uc010heo.2_Intron|COLQ_uc003cac.1_RNA|COLQ_uc003cae.1_5'UTR|COLQ_uc003cad.1_RNA	NM_005677	NP_005668	Q9Y215	COLQ_HUMAN	acetylcholinesterase collagen-like tail subunit	105	Collagen-like 1.				acetylcholine catabolic process in synaptic cleft|asymmetric protein localization	basal lamina|cell junction|collagen|extracellular space|synaptic cleft					0						AACCTGGGGGCCGGGAGGCCC	0.587													26	50					0	0	0.012213	0	0		T	15529720	T	T	15529720	3	4	212	1	0	0	0	0	1	0	0	0	3716	739	26	2	1113	2	COLQ	3	15529720	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	413773	15529720	182492710	309	104114											
THRB	7068	broad.mit.edu	37	chr3	24169194	24169194	+	Missense_Mutation	SNP	A	G	G	1	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	gcgcacagcagcgcgaagggAcatgatctccatgcagcagc	11	4	13	13	3	1	1	0	1	1	0	2	3	1	2	1	1	5	4	1	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:24169194A>G	uc003ccx.3	-	10	1289	c.940T>C	c.(940-942)TCC>CCC	p.S314P	THRB_uc010hfe.2_Missense_Mutation_p.S314P|THRB_uc003ccy.3_Missense_Mutation_p.S314P|THRB_uc003ccz.3_Missense_Mutation_p.S309P	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	314	Ligand-binding.|Interaction with NR2F6.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription corepressor activity|zinc ion binding			skin(2)|pancreas(1)	3					Levothyroxine(DB00451)|Liothyronine(DB00279)	GCGCGAAGGGACATGATCTCC	0.498													4	78					0	0	0.000602	0	0		G	24169194	G	G	24169194	3	3	212	1	0	0	0	0	1	0	0	0	15900	275	10	3	453	3	THRB	3	24169194	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	8639474	24169194	173853236	310	104115											
RBMS3	27303	broad.mit.edu	37	chr3	29781216	29781216	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttccttcccttagcaacaAgagcaagacccaacaaacct	14	8	4	15	0	0	2	0	0	0	2	2	2	2	2	4	0	5	2	4	0	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:29781216A>T	uc003cel.2	+	5	635	c.405A>T	c.(403-405)CAA>CAT	p.Q135H	RBMS3_uc003cek.2_Missense_Mutation_p.Q135H|RBMS3_uc010hfq.2_Missense_Mutation_p.Q135H|RBMS3_uc003cem.2_Missense_Mutation_p.Q134H|RBMS3_uc010hfr.2_Missense_Mutation_p.Q135H	NM_001003793	NP_001003793	Q6XE24	RBMS3_HUMAN	RNA binding motif, single stranded interacting	135						cytoplasm	nucleotide binding|RNA binding			central_nervous_system(1)	1		Ovarian(412;0.0956)				CTTAGCAACAAGAGCAAGACC	0.363													69	32					0	0	0.01441	0	0		T	29781216	T	T	29781216	3	4	212	1	0	0	0	0	1	0	0	0	13175	69	3	5	423	5	RBMS3	3	29781216	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	5612022	29781216	168241214	311	104116											
MYD88	4615	broad.mit.edu	37	chr3	38181461	38181461	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccacggacagcagagctggcGggcatcaccacacttgatga	11	5	12	13	2	1	3	1	2	0	1	1	4	1	4	2	3	2	3	2	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:38181461G>A	uc003chx.2	+	2	658	c.474G>A	c.(472-474)GCG>GCA	p.A158A	ACAA1_uc003cht.2_5'Flank|ACAA1_uc003chu.2_5'Flank|ACAA1_uc010hgy.2_5'Flank|ACAA1_uc010hgz.2_5'Flank|ACAA1_uc003chv.2_5'Flank|MYD88_uc011ayh.1_Silent_p.A158A|MYD88_uc011ayi.1_Silent_p.A158A|MYD88_uc011ayj.1_Silent_p.A158A|MYD88_uc011ayk.1_Intron|MYD88_uc011ayl.1_Intron	NM_002468	NP_002459	Q99836	MYD88_HUMAN	myeloid differentiation primary response gene	145	Intermediate domain (By similarity).				3'-UTR-mediated mRNA stabilization|anti-apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-17 production|positive regulation of interleukin-23 production|positive regulation of interleukin-6 production|regulation of inflammatory response|response to interleukin-1|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|intrinsic to membrane|plasma membrane	death receptor binding|TIR domain binding|transmembrane receptor activity			haematopoietic_and_lymphoid_tissue(93)|breast(1)	94				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CAGAGCTGGCGGGCATCACCA	0.532			Mis 		ABC-DLBCL								4	19					0	0	0.009096	0	0		A	38181461	A	A	38181461	2	1	212	1	0	0	0	0	0	0	0	1	10041	1103	39	1		1	MYD88	3	38181461	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8400245	38181461	159840969	312	104117											
SCN5A	6331	broad.mit.edu	37	chr3	38592060	38592060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatcctcttcggagaggcCgctgcccgcctgctgacgga	5	7	14	15	4	1	2	0	1	1	1	3	4	2	3	4	4	2	3	4	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:38592060C>T	uc003cio.2	-	28	5997	c.5803G>A	c.(5803-5805)GGC>AGC	p.G1935S	SCN5A_uc003cin.2_Missense_Mutation_p.G1934S|SCN5A_uc003cil.3_Missense_Mutation_p.G1935S|SCN5A_uc010hhi.2_Missense_Mutation_p.G1917S|SCN5A_uc010hhk.2_Missense_Mutation_p.G1902S|SCN5A_uc011ayr.1_Missense_Mutation_p.G1881S	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	1935			G -> S (in BRS1).		blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	TCGGAGAGGCCGCTGCCCGCC	0.622													13	18					0	0	0.001855	0	0		T	38592060	T	T	38592060	3	4	212	1	0	0	0	0	1	0	0	0	13947	652	23	1	251	1	SCN5A	3	38592060	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	410599	38592060	159430370	313	104118											
XIRP1	165904	broad.mit.edu	37	chr3	39226157	39226157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcctgagccactgggcctggCgctactgctgactgtgacac	6	8	13	14	1	0	3	0	3	0	0	0	3	0	3	3	2	3	2	3	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:39226157C>T	uc003cjk.1	-	2	5001	c.4780G>A	c.(4780-4782)GCC>ACC	p.A1594T	XIRP1_uc003cji.2_3'UTR|XIRP1_uc003cjj.2_Missense_Mutation_p.A277T	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1594							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CTGGGCCTGGCGCTACTGCTG	0.572													51	112					0	0	0.01441	0	0		T	39226157	T	T	39226157	3	4	212	1	0	0	0	0	1	0	0	0	17455	768	27	1	755	1	XIRP1	3	39226157	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	634097	39226157	158796273	314	104119											
XIRP1	165904	broad.mit.edu	37	chr3	39227573	39227573	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggtagtgcttgctcttcccTactgacctttctgggggctg	3	14	13	11	0	2	1	0	1	2	0	3	1	3	1	2	3	3	4	2	3	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:39227573T>G	uc003cjk.1	-	2	3585	c.3364A>C	c.(3364-3366)AGG>CGG	p.R1122R	XIRP1_uc003cji.2_Intron|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	1122							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		TGCTCTTCCCTACTGACCTTT	0.602													20	58					0	0	0.003954	0	0		G	39227573	G	G	39227573	2	3	212	1	0	0	0	0	0	0	0	1	17455	1521	53	5		5	XIRP1	3	39227573	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1416	39227573	158794857	315	104120											
XIRP1	165904	broad.mit.edu	37	chr3	39228162	39228162	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctggccaacagctgcacGctgctcctctcagaggcctt	7	8	10	16	1	1	1	1	0	1	1	3	1	2	1	3	2	5	5	3	2	1	1	rs149549006		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:39228162G>A	uc003cjk.1	-	2	2996	c.2775C>T	c.(2773-2775)AGC>AGT	p.S925S	XIRP1_uc003cji.2_Silent_p.S925S|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	925							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		ACAGCTGCACGCTGCTCCTCT	0.642													17	34					0	0	0.006122	0	0		A	39228162	A	A	39228162	2	1	212	1	0	0	0	0	0	0	0	1	17455	1078	38	1		1	XIRP1	3	39228162	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	589	39228162	158794268	316	104121											
CCR3	1232	broad.mit.edu	37	chr3	46306955	46306955	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gggcataactgggtttttggCcatggcatgtgtaagctcct	7	13	13	8	0	0	0	0	0	0	0	1	0	1	0	2	4	2	5	2	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:46306955C>T	uc003cpg.1	+	4	849	c.306C>T	c.(304-306)GGC>GGT	p.G102G	CCR3_uc003cpi.1_Silent_p.G102G|CCR3_uc003cpj.1_Silent_p.G102G|CCR3_uc003cpk.1_Silent_p.G123G|CCR3_uc010hjb.1_Silent_p.G120G|CCR3_uc003cpl.1_Silent_p.G135G	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3 isoform 1	102	Extracellular (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(3)|lung(3)|breast(1)|kidney(1)	8				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)		GGGTTTTTGGCCATGGCATGT	0.502													60	103					0	0	0.01441	0	0		T	46306955	T	T	46306955	2	4	212	1	0	0	0	0	0	0	0	1	2945	726	26	2		2	CCR3	3	46306955	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7078793	46306955	151715475	317	104122											
NBEAL2	23218	broad.mit.edu	37	chr3	47037219	47037219	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccagcttctttaccagcagCggctcagggtttgaggcctt	6	11	11	13	1	2	1	1	1	1	0	2	1	2	1	3	3	4	4	3	3	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:47037219C>T	uc003cqp.2	+	14	2093	c.1914C>T	c.(1912-1914)AGC>AGT	p.S638S	NBEAL2_uc010hjm.1_Silent_p.S199S	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	638							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		TTACCAGCAGCGGCTCAGGGT	0.607													3	15					0	0	0.009096	0	0		T	47037219	T	T	47037219	2	4	212	1	0	0	0	0	0	0	0	1	10207	767	27	1		1	NBEAL2	3	47037219	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	730264	47037219	150985211	318	104123											
NBEAL2	23218	broad.mit.edu	37	chr3	47046018	47046018	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgagatatccaacttcgagTacttgatgcaactcaacacc	13	10	7	11	1	1	2	1	2	0	1	3	4	2	2	2	0	5	2	2	0	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:47046018T>C	uc003cqp.2	+	38	6411	c.6232T>C	c.(6232-6234)TAC>CAC	p.Y2078H	NBEAL2_uc010hjm.1_Missense_Mutation_p.Y1455H|NBEAL2_uc010hjn.1_Missense_Mutation_p.Y474H|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2078	BEACH.						binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		CAACTTCGAGTACTTGATGCA	0.587													16	22					0	0	0.007413	0	0		C	47046018	C	C	47046018	3	2	212	1	0	0	0	0	1	0	0	0	10207	1638	57	3	6382	3	NBEAL2	3	47046018	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	8799	47046018	150976412	319	104124											
NBEAL2	23218	broad.mit.edu	37	chr3	47046463	47046464	+	Frame_Shift_Ins	INS	-	C	C																															gctcgggtgggtggccagttINScccctgggtcctgcaggact																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:47046463_47046464insC	uc003cqp.2	+	39	6475_6476	c.6296_6297insC	c.(6295-6297)TTCfs	p.F2099fs	NBEAL2_uc010hjm.1_Frame_Shift_Ins_p.F1476fs|NBEAL2_uc010hjn.1_Frame_Shift_Ins_p.F495fs|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	2099	BEACH.						binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GGTGGCCAGTTCCCCTGGGTCC	0.668													4	8	---	---	---	---						.	C	47046464	C	C	47046463	7	5	212	1	0	1	1	0	0	0	0	0	10207	1797	62	0	6450	0	NBEAL2	3	47046463	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	445	47046463	150975967	320	104125											
COL7A1	1294	broad.mit.edu	37	chr3	48602399	48602399	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaggagccctcatccagtgGcagggaacaggggtctgggc	8	5	17	11	0	2	0	1	0	1	0	3	2	3	2	2	6	2	2	2	6	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:48602399G>A	uc003ctz.2	-	117	8636	c.8635C>T	c.(8635-8637)CCA>TCA	p.P2879S	UCN2_uc003cty.1_5'Flank	NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	2879	Nonhelical region (NC2).|BPTI/Kunitz inhibitor.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		TCATCCAGTGGCAGGGAACAG	0.612													24	38					0	0	0.003954	0	0		A	48602399	A	A	48602399	3	1	212	1	0	0	0	0	1	0	0	0	3707	1203	42	2	207	2	COL7A1	3	48602399	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1555936	48602399	149420031	321	104126											
KLHDC8B	200942	broad.mit.edu	37	chr3	49213186	49213186	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttattgggggtgtggcccaGggccccagtcaagccgtgga	6	8	17	10	1	1	0	1	0	0	0	1	1	1	1	4	5	1	1	4	5	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:49213186G>T	uc003cwh.2	+	6	1202	c.1017G>T	c.(1015-1017)CAG>CAT	p.Q339H	KLHDC8B_uc003cwi.1_3'UTR	NM_173546	NP_775817	Q8IXV7	KLD8B_HUMAN	kelch domain containing 8B	339	Kelch 8.					cytoplasm					0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00217)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)		GTGTGGCCCAGGGCCCCAGTC	0.647													14	43					6.49762e-13	7.25205e-13	0.006122	1	0		T	49213186	T	T	49213186	3	4	212	1	0	0	0	0	1	0	0	0	8379	991	35	5	1035	5	KLHDC8B	3	49213186	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	610787	49213186	148809244	322	104127											
IP6K1	9807	broad.mit.edu	37	chr3	49764749	49764749	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctcggggctggtgttgctggGgctggtgctggggccacagg	2	9	21	9	1	0	0	0	0	0	0	1	0	0	0	1	9	2	5	1	9	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:49764749G>T	uc003cxm.1	-	6	1447	c.1132C>A	c.(1132-1134)CCC>ACC	p.P378T	IP6K1_uc003cxn.1_Missense_Mutation_p.P213T|IP6K1_uc011bcv.1_Missense_Mutation_p.P213T|IP6K1_uc003cxo.2_3'UTR	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	378					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0						GTGTTGCTGGGGCTGGTGCTG	0.637													16	23					1.01871e-10	1.11397e-10	0.008871	1	0		T	49764749	T	T	49764749	3	4	212	1	0	0	0	0	1	0	0	0	7804	1232	43	5	197	5	IP6K1	3	49764749	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	551563	49764749	148257681	323	104128											
CAMKV	79012	broad.mit.edu	37	chr3	49899799	49899799	+	Missense_Mutation	SNP	A	G	G	1	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	tatagttcttcttgtcgcccAgagtcacacacccaaacggc	10	10	7	14	2	3	1	1	0	2	1	4	1	3	1	2	1	1	1	2	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:49899799A>G	uc003cxt.1	-	2	216	c.23T>C	c.(22-24)CTG>CCG	p.L8P	CAMKV_uc011bcy.1_5'UTR|CAMKV_uc003cxv.1_Missense_Mutation_p.L8P|CAMKV_uc003cxw.1_5'UTR|CAMKV_uc003cxx.1_5'UTR|CAMKV_uc003cxu.2_Missense_Mutation_p.L8P|CAMKV_uc011bcz.1_5'UTR|CAMKV_uc011bda.1_Missense_Mutation_p.L8P|CAMKV_uc011bdb.1_RNA	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	8						cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity			ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		CTTGTCGCCCAGAGTCACACA	0.552													20	29					0	0	0.014323	0	0		G	49899799	G	G	49899799	3	3	212	1	0	0	0	0	1	0	0	0	2611	188	7	3	1522	3	CAMKV	3	49899799	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	135050	49899799	148122631	324	104129											
MST1R	4486	broad.mit.edu	37	chr3	49936067	49936067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgccatgcccttaggcaacGcccacaggtcaggaagtggc	10	6	12	13	1	1	0	1	0	0	0	1	1	1	1	3	4	3	1	3	4	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:49936067G>A	uc003cxy.3	-	4	1867	c.1603C>T	c.(1603-1605)CGT>TGT	p.R535C	MST1R_uc011bdd.1_Missense_Mutation_p.R535C|MST1R_uc011bde.1_Missense_Mutation_p.R535C|MST1R_uc011bdf.1_Missense_Mutation_p.R429C|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor	535	Extracellular (Potential).				cellular component movement|defense response|multicellular organismal development|positive regulation of cell proliferation|single fertilization|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|macrophage colony-stimulating factor receptor activity|protein binding			ovary(5)|lung(1)	6				BRCA - Breast invasive adenocarcinoma(193;4.65e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00553)|Kidney(197;0.00625)		CTTAGGCAACGCCCACAGGTC	0.607													18	41					0	0	0.010504	0	0		A	49936067	A	A	49936067	3	1	212	1	0	0	0	0	1	0	0	0	9909	1087	38	1	2667	1	MST1R	3	49936067	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	36268	49936067	148086363	325	104130											
SEMA3F	6405	broad.mit.edu	37	chr3	50223449	50223449	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtgcctgggatggccaggCctgctcccgctatacagcat	6	9	12	14	1	0	0	0	0	0	0	1	1	1	1	4	3	4	3	4	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:50223449C>T	uc003cyj.2	+	16	1913	c.1715C>T	c.(1714-1716)GCC>GTC	p.A572V	SEMA3F_uc003cyk.2_Missense_Mutation_p.A541V	NM_004186	NP_004177	Q13275	SEM3F_HUMAN	semaphorin 3F precursor	572					axon guidance	extracellular space|membrane	chemorepellent activity|receptor activity			lung(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.00013)|KIRC - Kidney renal clear cell carcinoma(197;0.00599)|Kidney(197;0.00688)		GATGGCCAGGCCTGCTCCCGC	0.622													17	37					0	0	0.006122	0	0		T	50223449	T	T	50223449	3	4	212	1	0	0	0	0	1	0	0	0	14054	739	26	2	1773	2	SEMA3F	3	50223449	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	287382	50223449	147798981	326	104131											
RBM15B	29890	broad.mit.edu	37	chr3	51429820	51429820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggacctgatgcccgaGgatgaccagcgggccacgcg	9	3	17	12	4	0	2	0	2	0	0	0	7	0	5	4	4	2	0	4	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:51429820G>T	uc003dbd.2	+	1	1090	c.990G>T	c.(988-990)GAG>GAT	p.E330D		NM_013286	NP_037418	Q8NDT2	RB15B_HUMAN	RNA binding motif protein 15B	330					interspecies interaction between organisms|mRNA processing|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|transcription, DNA-dependent	nucleoplasm	nucleotide binding|protein binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000224)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TGATGCCCGAGGATGACCAGC	0.622													20	30					1.40151e-16	1.60023e-16	0.010504	1	0		T	51429820	T	T	51429820	3	4	212	1	0	0	0	0	1	0	0	0	13142	991	35	5	992	5	RBM15B	3	51429820	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1206371	51429820	146592610	327	104132											
ABHD14A	25864	broad.mit.edu	37	chr3	52011901	52011901	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctccagactgtggtacagacCtccatgagccggtcccaggt	8	8	11	14	1	0	3	0	1	0	2	3	3	3	3	5	3	2	1	5	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:52011901C>A	uc003dco.2	+	2	194	c.84C>A	c.(82-84)ACC>ACA	p.T28T	ABHD14B_uc003dcn.2_Intron|ABHD14A_uc010hlz.2_Silent_p.T28T|ACY1_uc011bea.1_5'UTR	NM_015407	NP_056222	Q9BUJ0	ABHEA_HUMAN	abhydrolase domain containing 14A	28						cytoplasm|integral to membrane	hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000541)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		TGGTACAGACCTCCATGAGCC	0.612													12	158					1.61879e-10	1.767e-10	0.013537	1	0		A	52011901	A	A	52011901	2	1	212	1	0	0	0	0	0	0	0	1	79	668	24	5		5	ABHD14A	3	52011901	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	582081	52011901	146010529	328	104133											
STAB1	23166	broad.mit.edu	37	chr3	52548457	52548457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcggaagggtggacaccGcaactccctcctgggccctg	6	6	13	16	2	0	0	0	0	0	0	2	2	2	2	5	4	2	1	5	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:52548457G>A	uc003dej.2	+	34	3697	c.3623G>A	c.(3622-3624)CGC>CAC	p.R1208H		NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1208	FAS1 4.|Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GGTGGACACCGCAACTCCCTC	0.642													4	79					0	0	0.001168	0	0		A	52548457	A	A	52548457	3	1	212	1	0	0	0	0	1	0	0	0	15262	1087	38	1	3757	1	STAB1	3	52548457	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	536556	52548457	145473973	329	104134											
STAB1	23166	broad.mit.edu	37	chr3	52554519	52554519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagctgctggagccacctgGccttggtgctcgctgtgacc	4	9	13	15	1	0	1	0	1	0	0	1	2	0	2	5	3	4	4	5	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:52554519G>A	uc003dej.2	+	53	5677	c.5603G>A	c.(5602-5604)GGC>GAC	p.G1868D	STAB1_uc003dek.1_5'UTR|STAB1_uc003del.2_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1868	Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GAGCCACCTGGCCTTGGTGCT	0.647													9	17					0	0	0.008291	0	0		A	52554519	A	A	52554519	3	1	212	1	0	0	0	0	1	0	0	0	15262	1203	42	2	5813	2	STAB1	3	52554519	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6062	52554519	145467911	330	104135											
CACNA2D3	55799	broad.mit.edu	37	chr3	54596848	54596848	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccctgcaattgtcaatggggTttattggtctgaatctctaa	9	15	9	8	0	3	1	1	1	2	0	4	1	3	1	1	3	1	2	1	3	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:54596848T>G	uc003dhf.2	+	6	614	c.566T>G	c.(565-567)GTT>GGT	p.V189G	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Missense_Mutation_p.V95G|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_5'UTR	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	189	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		GTCAATGGGGTTTATTGGTCT	0.408													10	16					0	0	0.010729	0	0		G	54596848	G	G	54596848	3	3	212	1	0	0	0	0	1	0	0	0	2553	1725	60	5	588	5	CACNA2D3	3	54596848	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2042329	54596848	143425582	331	104136											
IL17RD	54756	broad.mit.edu	37	chr3	57132349	57132349	+	Missense_Mutation	SNP	A	G	G	1	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	aactctgcttggcctggcggAgcttttcggcaatggctgac	6	11	13	11	2	1	1	0	1	1	0	2	2	1	2	1	5	3	4	1	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:57132349A>G	uc003dil.2	-	12	1471	c.1382T>C	c.(1381-1383)CTC>CCC	p.L461P	IL17RD_uc003dik.2_Missense_Mutation_p.L437P|IL17RD_uc010hna.2_Missense_Mutation_p.L317P|IL17RD_uc011bex.1_Missense_Mutation_p.L317P	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D precursor	461	SEFIR.|Cytoplasmic (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)		GGCCTGGCGGAGCTTTTCGGC	0.562													16	31					0	0	0.008871	0	0		G	57132349	G	G	57132349	3	3	212	1	0	0	0	0	1	0	0	0	7658	304	11	3	845	3	IL17RD	3	57132349	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2535501	57132349	140890081	332	104137											
DNAH12	201625	broad.mit.edu	37	chr3	57496515	57496515	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgtgtgttagatgctacttAcccaaatatctcttcatgct	9	16	7	9	0	2	1	1	0	1	1	3	1	2	1	1	0	4	3	1	0	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:57496515A>G	uc003dit.2	-	5	650	c.469_splice	c.e5+1	p.V157_splice	DNAH12_uc003diu.2_Splice_Site_p.V157_splice	NM_178504	NP_848599	Q6ZR08	DYH12_HUMAN	dynein heavy chain domain 2 isoform 1						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			pancreas(1)|skin(1)	2						GATGCTACTTACCCAAATATC	0.398													6	16					0	0	0.001168	0	0		G	57496515	G	G	57496515	5	3	212	1	0	0	0	0	0	0	1	0	4606	405	14	3	9070	3	DNAH12	3	57496515	Splice_Site	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	364166	57496515	140525915	333	104138											
KBTBD8	84541	broad.mit.edu	37	chr3	67058677	67058677	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accagcagaaaaaattccctTtaccaatatgatgacattgc	16	10	5	10	0	0	3	0	2	0	1	1	3	1	3	3	0	3	1	3	0	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:67058677T>A	uc003dmy.2	+	4	1727	c.1674T>A	c.(1672-1674)CTT>CTA	p.L558L	KBTBD8_uc011bfv.1_Silent_p.L116L	NM_032505	NP_115894	Q8NFY9	KBTB8_HUMAN	T-cell activation kelch repeat protein	558	Kelch 5.									ovary(2)|large_intestine(1)|breast(1)	4		Lung NSC(201;0.0765)		BRCA - Breast invasive adenocarcinoma(55;6.02e-06)|KIRC - Kidney renal clear cell carcinoma(39;0.105)|Kidney(39;0.125)		AAAATTCCCTTTACCAATATG	0.428													32	56					0	0	0.009535	0	0		A	67058677	A	A	67058677	2	1	212	1	0	0	0	0	0	0	0	1	8015	1828	64	5		5	KBTBD8	3	67058677	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	9562162	67058677	130963753	334	104139											
IMPG2	50939	broad.mit.edu	37	chr3	100951720	100951720	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agactctgacagggccgttcTtccacactcaggtatccagg	9	9	10	13	1	3	2	1	1	2	1	5	2	5	2	3	3	0	2	3	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:100951720T>G	uc003duq.1	-	15	3341	c.3138A>C	c.(3136-3138)GAA>GAC	p.E1046D	IMPG2_uc011bhe.1_Missense_Mutation_p.E909D|IMPG2_uc010hpj.1_RNA	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	1046	Extracellular (Potential).|EGF-like 1.				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						AGGGCCGTTCTTCCACACTCA	0.502													18	33					0	0	0.006122	0	0		G	100951720	G	G	100951720	3	3	212	1	0	0	0	0	1	0	0	0	7745	1606	56	5	607	5	IMPG2	3	100951720	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	33893043	100951720	97070710	335	104140											
MYH15	22989	broad.mit.edu	37	chr3	108248155	108248155	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaatacaattaaaatgatcaTatgaagtagaaatgacctaa	22	10	5	4	0	1	4	1	3	0	1	1	4	1	4	1	0	1	1	1	0	10	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:108248155T>C	uc003dxa.1	-	1	15	c.-42A>G	c.(-44--40)ATATG>ATGTG			NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15							myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						AAAATGATCATATGAAGTAGA	0.363													6	15					0	0	0.001984	0	0		C	108248155	C	C	108248155	1	2	212	1	0	0	0	0	0	0	0	0	10052	1421	49	3		3	MYH15	3	108248155	Translation_Start_Site	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	7296435	108248155	89774275	336	104141											
DZIP3	9666	broad.mit.edu	37	chr3	108405322	108405322	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tagcctgggctctgccagcgCctgtgggagacgctgtgcct	4	9	15	13	2	1	1	0	0	1	1	1	2	1	1	4	2	4	2	4	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:108405322C>T	uc003dxd.2	+	28	3462	c.3040C>T	c.(3040-3042)CCT>TCT	p.P1014S	DZIP3_uc003dxf.1_Missense_Mutation_p.P1014S|DZIP3_uc011bhm.1_Missense_Mutation_p.P465S	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	1014					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						TCTGCCAGCGCCTGTGGGAGA	0.507													45	79					0	0	0.01441	0	0		T	108405322	T	T	108405322	3	4	212	1	0	0	0	0	1	0	0	0	4871	739	26	2	3146	2	DZIP3	3	108405322	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	157167	108405322	89617108	337	104142											
CCDC80	151887	broad.mit.edu	37	chr3	112358362	112358362	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggaccccgaagggaaacGcaacattcttgaccgagctg	11	6	12	12	3	1	1	0	1	1	0	1	5	1	3	3	2	3	3	3	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:112358362G>A	uc003dzf.2	-	2	609	c.391C>T	c.(391-393)CGT>TGT	p.R131C	CCDC80_uc011bhv.1_Missense_Mutation_p.R131C|CCDC80_uc003dzg.2_Missense_Mutation_p.R131C|CCDC80_uc003dzh.1_Missense_Mutation_p.R131C	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	131										ovary(2)	2						GAAGGGAAACGCAACATTCTT	0.582													35	56					0	0	0.00623	0	0		A	112358362	A	A	112358362	3	1	212	1	0	0	0	0	1	0	0	0	2857	1087	38	1	2489	1	CCDC80	3	112358362	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3953040	112358362	85664068	338	104143											
ZBTB20	26137	broad.mit.edu	37	chr3	114069396	114069396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgggctgggtagtgaagaggGctggcaggtaggtgttgcca	7	8	20	6	1	0	2	0	1	0	1	0	2	0	2	1	6	1	6	1	6	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:114069396G>A	uc003ebi.2	-	4	1709	c.1529C>T	c.(1528-1530)GCC>GTC	p.A510V	ZBTB20_uc003ebj.2_Missense_Mutation_p.A437V|ZBTB20_uc010hqp.2_Missense_Mutation_p.A437V|ZBTB20_uc003ebk.2_Missense_Mutation_p.A437V|ZBTB20_uc003ebl.2_Missense_Mutation_p.A437V|ZBTB20_uc003ebm.2_Missense_Mutation_p.A437V|ZBTB20_uc003ebn.2_Missense_Mutation_p.A437V|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	510					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		AGTGAAGAGGGCTGGCAGGTA	0.612													15	44					0	0	0.003163	0	0		A	114069396	A	A	114069396	3	1	212	1	0	0	0	0	1	0	0	0	17554	1203	42	2	704	2	ZBTB20	3	114069396	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1711034	114069396	83953034	339	104144											
IGSF11	152404	broad.mit.edu	37	chr3	118649028	118649028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaggttaatgagggcagcGctggtagtgaaagtgcaggg	10	9	18	4	1	0	3	0	3	0	0	0	3	0	3	0	4	2	5	0	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:118649028G>A	uc003ebw.2	-	2	394	c.147C>T	c.(145-147)AGC>AGT	p.S49S	IGSF11_uc011biv.1_Silent_p.S49S|IGSF11_uc003ebx.2_Silent_p.S49S|IGSF11_uc003eby.2_Silent_p.S48S|IGSF11_uc003ebz.2_Silent_p.S48S|IGSF11_uc010hqs.2_Silent_p.S48S	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	49	Ig-like V-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						TGAGGGCAGCGCTGGTAGTGA	0.542													34	61					0	0	0.003271	0	0		A	118649028	A	A	118649028	2	1	212	1	0	0	0	0	0	0	0	1	7614	1078	38	1		1	IGSF11	3	118649028	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4579632	118649028	79373402	340	104145											
ARHGAP31	57514	broad.mit.edu	37	chr3	119134425	119134425	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cccagatcccacagcccctgCcctctcagagctcaggggag	8	5	10	18	0	2	2	2	0	1	2	4	3	3	3	5	2	3	1	5	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:119134425C>T	uc003ecj.3	+	12	4181	c.3649C>T	c.(3649-3651)CCC>TCC	p.P1217S		NM_020754	NP_065805	Q2M1Z3	RHG31_HUMAN	Cdc42 GTPase-activating protein	1217					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion|lamellipodium	GTPase activator activity			ovary(2)	2						ACAGCCCCTGCCCTCTCAGAG	0.587													23	27					0	0	0.00278	0	0		T	119134425	T	T	119134425	3	4	212	1	0	0	0	0	1	0	0	0	880	739	26	2	3695	2	ARHGAP31	3	119134425	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	485397	119134425	78888005	341	104146											
TMEM39A	55254	broad.mit.edu	37	chr3	119165880	119165880	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcacgggtagccaaggaaaAggagattgaggactgaatgg	14	6	15	6	1	1	3	1	2	0	1	1	6	1	5	1	5	1	1	1	5	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:119165880A>G	uc003eck.1	-	5	923	c.560T>C	c.(559-561)CTT>CCT	p.L187P	TMEM39A_uc003ecl.1_Missense_Mutation_p.L35P	NM_018266	NP_060736	Q9NV64	TM39A_HUMAN	transmembrane protein 39A	187	Helical; (Potential).					integral to membrane				ovary(1)|breast(1)	2				GBM - Glioblastoma multiforme(114;0.244)		GCCAAGGAAAAGGAGATTGAG	0.398													9	37					0	0	0.006214	0	0		G	119165880	G	G	119165880	3	3	212	1	0	0	0	0	1	0	0	0	16186	72	3	3	926	3	TMEM39A	3	119165880	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	31455	119165880	78856550	342	104147											
PLA1A	51365	broad.mit.edu	37	chr3	119325738	119325738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccttcgaatcctagctgtgGgcagctagtagaaggaagca	11	8	12	10	1	0	1	0	0	0	1	2	3	1	2	2	2	3	5	2	2	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:119325738G>T	uc003ecu.2	+	2	230	c.191G>T	c.(190-192)GGG>GTG	p.G64V	PLA1A_uc003ecv.2_Missense_Mutation_p.G64V|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Intron	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	64					lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						CCTAGCTGTGGGCAGCTAGTA	0.488													57	105					2.37032e-18	2.72335e-18	0.01441	1	0		T	119325738	T	T	119325738	3	4	212	1	0	0	0	0	1	0	0	0	12007	1232	43	5	197	5	PLA1A	3	119325738	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	159858	119325738	78696692	343	104148											
CASR	846	broad.mit.edu	37	chr3	122003039	122003039	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatctggctctacaccgcGcccccgtcaagctaccgcaa	8	7	9	17	4	3	1	1	1	2	0	3	1	3	1	4	1	3	3	4	1	4	2	rs149557554	by1000genomes	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:122003039G>A	uc003eev.3	+	7	2610	c.2238G>A	c.(2236-2238)GCG>GCA	p.A746A	CASR_uc003eew.3_Silent_p.A756A	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	746	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	TCTACACCGCGCCCCCGTCAA	0.587													14	26					0	0	0.004007	0	0		A	122003039	A	A	122003039	2	1	212	1	0	0	0	0	0	0	0	1	2685	1074	38	1		1	CASR	3	122003039	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2677301	122003039	76019391	344	104149											
CASR	846	broad.mit.edu	37	chr3	122003716	122003716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtcatctttggcagcggcaCggtcaccttctcactgagct	6	11	11	13	2	4	1	3	1	2	0	5	1	4	1	1	4	2	3	1	4	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:122003716C>T	uc003eev.3	+	7	3287	c.2915C>T	c.(2914-2916)ACG>ATG	p.T972M	CASR_uc003eew.3_Missense_Mutation_p.T982M	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	972	Cytoplasmic (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	GGCAGCGGCACGGTCACCTTC	0.582													3	35					0	0	0.004672	0	0		T	122003716	T	T	122003716	3	4	212	1	0	0	0	0	1	0	0	0	2685	536	19	1	2967	1	CASR	3	122003716	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	677	122003716	76018714	345	104150											
SEMA5B	54437	broad.mit.edu	37	chr3	122641164	122641164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cgaggtgtgagaagcgcacgCtgtcctgggtgacacagggc	8	6	17	10	3	0	2	0	2	0	1	1	4	1	2	1	3	1	2	1	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:122641164C>T	uc003efz.1	-	11	1707	c.1403G>A	c.(1402-1404)AGC>AAC	p.S468N	SEMA5B_uc011bju.1_Missense_Mutation_p.S410N|SEMA5B_uc003ega.1_RNA|SEMA5B_uc003egb.1_Missense_Mutation_p.S468N|SEMA5B_uc010hro.1_Missense_Mutation_p.S410N|SEMA5B_uc010hrp.1_RNA	NM_001031702	NP_001026872	Q9P283	SEM5B_HUMAN	semaphorin 5B isoform 1	468	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			ovary(2)|breast(2)|pancreas(2)|central_nervous_system(1)	7				GBM - Glioblastoma multiforme(114;0.0367)		GAAGCGCACGCTGTCCTGGGT	0.647													11	15					0	0	0.010729	0	0		T	122641164	T	T	122641164	3	4	212	1	0	0	0	0	1	0	0	0	14063	797	28	2	2104	2	SEMA5B	3	122641164	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	637448	122641164	75381266	346	104151											
KALRN	8997	broad.mit.edu	37	chr3	124369721	124369721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctgcctgaatgaggggatgGccccacccacacctcctaaa	10	6	10	15	0	0	2	0	2	0	0	1	3	1	3	6	3	1	1	6	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:124369721G>A	uc003ehg.2	+	38	5855	c.5728G>A	c.(5728-5730)GCC>ACC	p.A1910T	KALRN_uc003ehi.2_Missense_Mutation_p.A251T|KALRN_uc003ehk.2_Missense_Mutation_p.A213T|KALRN_uc011bjz.1_Missense_Mutation_p.A2T|KALRN_uc003ehj.2_Missense_Mutation_p.A181T	NM_001024660	NP_001019831	O60229	KALRN_HUMAN	kalirin, RhoGEF kinase isoform 1	1909					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|vesicle-mediated transport	actin cytoskeleton|cytosol	ATP binding|GTPase activator activity|metal ion binding|protein binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			large_intestine(2)|ovary(2)|central_nervous_system(1)|skin(1)	6						TGAGGGGATGGCCCCACCCAC	0.532													11	72					0	0	0.008291	0	0		A	124369721	A	A	124369721	3	1	212	1	0	0	0	0	1	0	0	0	7991	1203	42	2	6034	2	KALRN	3	124369721	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1728557	124369721	73652709	347	104152											
CCDC37	348807	broad.mit.edu	37	chr3	126154472	126154472	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagcgggcccgggcgcgcGcccaggctgagatcaagaag	8	3	17	13	5	1	2	1	1	0	2	1	3	1	2	2	3	2	2	2	3	2	0	rs145096068	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:126154472G>A	uc003eiu.1	+	16	1798	c.1699G>A	c.(1699-1701)GCC>ACC	p.A567T	CCDC37_uc010hsg.1_Missense_Mutation_p.A568T	NM_182628	NP_872434	Q494V2	CCD37_HUMAN	coiled-coil domain containing 37	567	Potential.									ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(114;0.166)		CCGGGCGCGCGCCCAGGCTGA	0.592													21	21					0	0	0.00278	0	0		A	126154472	A	A	126154472	3	1	212	1	0	0	0	0	1	0	0	0	2812	1087	38	1	1757	1	CCDC37	3	126154472	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1784751	126154472	71867958	348	104153											
PLXNA1	5361	broad.mit.edu	37	chr3	126735456	126735456	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaccgcgcccagctcaccaaCcctgaggtgaagtacaacta	13	5	8	15	2	1	2	1	2	0	0	1	2	1	2	4	1	5	2	4	1	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:126735456C>T	uc003ejg.2	+	15	3046	c.3042C>T	c.(3040-3042)AAC>AAT	p.N1014N		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1037	IPT/TIG 2.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AGCTCACCAACCCTGAGGTGA	0.622													5	49					0	0	0.000602	0	0		T	126735456	T	T	126735456	2	4	212	1	0	0	0	0	0	0	0	1	12138	506	18	4		4	PLXNA1	3	126735456	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	580984	126735456	71286974	349	104154											
PLXNA1	5361	broad.mit.edu	37	chr3	126741057	126741057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcgcgaccgcgggaatgtgGcctcgctcatcatgacggcc	6	7	14	14	6	2	1	2	1	0	0	3	3	2	2	3	3	1	1	3	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:126741057G>A	uc003ejg.2	+	21	4103	c.4099G>A	c.(4099-4101)GCC>ACC	p.A1367T		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1390	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		CGGGAATGTGGCCTCGCTCAT	0.607													3	16					0	0	0.004672	0	0		A	126741057	A	A	126741057	3	1	212	1	0	0	0	0	1	0	0	0	12138	1203	42	2	4250	2	PLXNA1	3	126741057	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5601	126741057	71281373	350	104155											
ABTB1	80325	broad.mit.edu	37	chr3	127396115	127396115	+	Frame_Shift_Del	DEL	C	-	-																															tgctggccgattgtgccctgCcccccgagctccgagtaagt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:127396115delC	uc003ejt.2	+	8	836	c.748delC	c.(748-750)CCCfs	p.P250fs	ABTB1_uc003ejr.2_Frame_Shift_Del_p.P108fs|ABTB1_uc003ejs.2_Frame_Shift_Del_p.P225fs|ABTB1_uc003eju.2_Frame_Shift_Del_p.P108fs|ABTB1_uc010hsm.2_Frame_Shift_Del_p.P10fs	NM_172027	NP_742024	Q969K4	ABTB1_HUMAN	ankyrin repeat and BTB (POZ) domain containing 1	250						cytoplasm|nucleolus|plasma membrane	translation elongation factor activity				0						TTGTGCCCTGCCCCCCGAGCT	0.637													6	6	---	---	---	---						.	-	127396115	-	-	127396115	7	5	212	1	0	1	0	1	0	0	0	0	102	739	26	0	778	0	ABTB1	3	127396115	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	655058	127396115	70626315	351	104156											
RUVBL1	8607	broad.mit.edu	37	chr3	127816207	127816207	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgatagaagactccagggCgcggtgcaggtaggtgaagc	11	5	17	8	3	0	3	0	1	0	2	1	4	1	3	1	4	3	2	1	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:127816207C>T	uc003ekh.2	-	8	1056	c.952G>A	c.(952-954)GCC>ACC	p.A318T	RUVBL1_uc003eke.2_Missense_Mutation_p.A59T|RUVBL1_uc003ekf.2_Missense_Mutation_p.A258T|RUVBL1_uc010hss.2_Missense_Mutation_p.A318T	NM_003707	NP_003698	Q9Y265	RUVB1_HUMAN	RuvB-like 1	318					cell division|CenH3-containing nucleosome assembly at centromere|DNA recombination|DNA repair|histone H2A acetylation|histone H4 acetylation|mitosis|regulation of growth|regulation of transcription from RNA polymerase II promoter|spermatogenesis|transcription, DNA-dependent	Golgi apparatus|Ino80 complex|membrane|microtubule organizing center|MLL1 complex|NuA4 histone acetyltransferase complex|nuclear matrix	ATP binding|DNA helicase activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.181)		GACTCCAGGGCGCGGTGCAGG	0.547													14	16					0	0	0.001855	0	0		T	127816207	T	T	127816207	3	4	212	1	0	0	0	0	1	0	0	0	13777	768	27	1	434	1	RUVBL1	3	127816207	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	420092	127816207	70206223	352	104157											
COL6A6	131873	broad.mit.edu	37	chr3	130394240	130394240	+	Frame_Shift_Del	DEL	A	-	-																															tgctcccaaacaacatgattAaaaaaatgcttgaacaactt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:130394240delA	uc010htl.2	+	36	6822	c.6791delA	c.(6790-6792)TAAfs	p.*2264fs	COL6A6_uc003eni.3_Frame_Shift_Del_p.*363fs	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	2264					axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CAACATGATTAAAAAAATGCT	0.378													2	4	---	---	---	---						.	-	130394240	-	-	130394240	7	5	212	1	0	1	0	1	0	0	0	0	3706	369	13	0	6933	0	COL6A6	3	130394240	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	2578033	130394240	67628190	353	104158											
PIK3R4	30849	broad.mit.edu	37	chr3	130452966	130452966	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggctcacggtgaatcatCtgagttacctataccaaggg	10	11	10	10	1	4	2	2	2	2	0	4	2	4	2	2	3	2	2	2	3	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:130452966C>A	uc003enj.2	-	4	1457	c.876G>T	c.(874-876)CAG>CAT	p.Q292H		NM_014602	NP_055417	Q99570	PI3R4_HUMAN	phosphoinositide-3-kinase, regulatory subunit 4	292	Protein kinase.				fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(2)|skin(2)|stomach(1)|central_nervous_system(1)|kidney(1)	12						GGTGAATCATCTGAGTTACCT	0.353													6	44					1.12685e-05	1.18155e-05	0.004482	1	0		A	130452966	A	A	130452966	3	1	212	1	0	0	0	0	1	0	0	0	11940	912	32	5	3268	5	PIK3R4	3	130452966	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	58726	130452966	67569464	354	104159											
UBA5	79876	broad.mit.edu	37	chr3	132394093	132394093	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctattttgatttttctaggTttctgttaaattttggtact	7	24	6	4	0	3	1	0	1	3	0	3	1	3	1	0	2	1	3	0	2	5	11			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:132394093T>G	uc003epa.3	+	9	1056	c.814T>G	c.(814-816)TTT>GTT	p.F272V	NPHP3_uc003eoz.1_Intron|UBA5_uc010htr.2_Missense_Mutation_p.F216V|UBA5_uc010htt.2_Missense_Mutation_p.F272V|UBA5_uc003epb.3_Missense_Mutation_p.F216V|UBA5_uc003epc.2_5'Flank	NM_024818	NP_079094	Q9GZZ9	UBA5_HUMAN	ubiquitin-activating enzyme 5 isoform 1	272					protein ufmylation	aggresome|cytoplasm|cytoplasm|nucleus	ATP binding|cofactor binding|metal ion binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding|UFM1 activating enzyme activity			kidney(1)	1						TTTTTCTAGGTTTCTGTTAAA	0.269													5	14					0	0	0.000602	0	0		G	132394093	G	G	132394093	3	3	212	1	0	0	0	0	1	0	0	0	16856	1739	60	5	848	5	UBA5	3	132394093	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1941127	132394093	65628337	355	104160											
TOPBP1	11073	broad.mit.edu	37	chr3	133377884	133377884	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaggtgatcaaagacaacGccactaaaagggtcacagat	16	7	10	8	1	2	4	2	2	0	2	2	4	2	4	1	2	1	0	1	2	4	2	rs61747713		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:133377884G>A	uc003eps.2	-	3	327	c.195C>T	c.(193-195)GGC>GGT	p.G65G		NM_007027	NP_008958	Q92547	TOPB1_HUMAN	topoisomerase (DNA) II binding protein 1	65					DNA repair|response to ionizing radiation	microtubule organizing center|PML body|spindle pole	DNA binding|protein C-terminus binding			ovary(2)|kidney(2)|skin(1)|lung(1)|pancreas(1)	7						CAAAGACAACGCCACTAAAAG	0.338								Other_conserved_DNA_damage_response_genes					6	3					0	0	0.00308	0	0		A	133377884	A	A	133377884	2	1	212	1	0	0	0	0	0	0	0	1	16395	1074	38	1		1	TOPBP1	3	133377884	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	983791	133377884	64644546	356	104161											
TF	7018	broad.mit.edu	37	chr3	133485235	133485235	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaccgctggctggaacatcCccatgggcctgctctacaat	9	8	10	14	1	1	0	0	0	1	0	2	2	2	1	4	3	4	3	4	3	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:133485235C>A	uc003epu.1	+	17	3172	c.1444C>A	c.(1444-1446)CCC>ACC	p.P482T	TF_uc011blt.1_Missense_Mutation_p.P355T|TF_uc003epw.1_Intron|TF_uc003epv.1_Missense_Mutation_p.P482T	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	482	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	CTGGAACATCCCCATGGGCCT	0.537													41	80					4.10826e-27	4.80737e-27	0.01441	1	0		A	133485235	A	A	133485235	3	1	212	1	0	0	0	0	1	0	0	0	15810	623	22	5	1490	5	TF	3	133485235	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	107351	133485235	64537195	357	104162											
AMOTL2	51421	broad.mit.edu	37	chr3	134078146	134078146	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtagtcagccgagcaggggCgtctgctgtttgtcgctcac	5	11	14	11	3	3	0	2	0	1	0	4	1	3	0	1	2	3	5	1	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:134078146C>T	uc003eqf.2	-	8	2374	c.2257G>A	c.(2257-2259)GCC>ACC	p.A753T	AMOTL2_uc003eqg.1_Missense_Mutation_p.A695T|AMOTL2_uc003eqh.1_Missense_Mutation_p.A693T|AMOTL2_uc010htx.1_5'Flank|AMOTL2_uc003eqe.1_Missense_Mutation_p.A320T	NM_016201	NP_057285	Q9Y2J4	AMOL2_HUMAN	angiomotin like 2	695										large_intestine(1)	1						CGAGCAGGGGCGTCTGCTGTT	0.587													32	51					0	0	0.003755	0	0		T	134078146	T	T	134078146	3	4	212	1	0	0	0	0	1	0	0	0	584	768	27	1	271	1	AMOTL2	3	134078146	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	592911	134078146	63944284	358	104163											
EPHB1	2047	broad.mit.edu	37	chr3	134880956	134880956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtatatgtggtacaggtgCgtgcccgcactgttgctggc	5	12	15	9	2	0	0	0	0	0	0	0	0	0	0	1	4	4	5	1	4	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:134880956C>T	uc003eqt.2	+	7	1739	c.1519C>T	c.(1519-1521)CGT>TGT	p.R507C	EPHB1_uc003equ.2_Missense_Mutation_p.R68C	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	507	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GGTACAGGTGCGTGCCCGCAC	0.552													4	66					0	0	0.009096	0	0		T	134880956	T	T	134880956	3	4	212	1	0	0	0	0	1	0	0	0	5182	768	27	1	1545	1	EPHB1	3	134880956	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	802810	134880956	63141474	359	104164											
STAG1	10274	broad.mit.edu	37	chr3	136287655	136287655	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttgattaaatccagaagtgCgatgtccctgtcttgtttat	9	16	9	7	1	1	2	0	1	1	1	3	3	3	2	2	0	1	2	2	0	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:136287655C>T	uc003era.1	-	5	638	c.346G>A	c.(346-348)GCA>ACA	p.A116T	STAG1_uc003erb.1_Missense_Mutation_p.A116T|STAG1_uc003erc.1_5'UTR|STAG1_uc010hua.1_5'UTR|STAG1_uc003erd.2_Missense_Mutation_p.A19T|STAG1_uc003ere.2_Missense_Mutation_p.A116T	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	116					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TCCAGAAGTGCGATGTCCCTG	0.348													9	18					0	0	0.001855	0	0		T	136287655	T	T	136287655	3	4	212	1	0	0	0	0	1	0	0	0	15267	768	27	1	3550	1	STAG1	3	136287655	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1406699	136287655	61734775	360	104165											
ESYT3	83850	broad.mit.edu	37	chr3	138170891	138170891	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctcggggcttctttcctagaTccacttcccggacgtggagc	5	11	11	14	3	1	1	0	0	1	1	5	3	4	3	3	4	1	1	3	4	1	4	rs149154169		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:138170891T>G	uc003esk.2	+	2	555	c.329T>G	c.(328-330)ATC>AGC	p.I110S	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	110						integral to membrane|plasma membrane					0						CTTTCCTAGATCCACTTCCCG	0.672													9	36					0	0	0.006214	0	0		G	138170891	G	G	138170891	3	3	212	1	0	0	0	0	1	0	0	0	5274	1449	50	5	335	5	ESYT3	3	138170891	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1883236	138170891	59851539	361	104166											
PIK3CB	5291	broad.mit.edu	37	chr3	138431111	138431111	+	Frame_Shift_Del	DEL	A	-	-																															ctcaattgtcctttaaagtcAaaaaccatcgtatttaccca																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:138431111delA	uc011bmq.1	-	8	1338	c.1338delT	c.(1336-1338)TTTfs	p.F446fs	PIK3CB_uc011bmo.1_5'UTR|PIK3CB_uc011bmp.1_Frame_Shift_Del_p.F50fs	NM_006219	NP_006210	P42338	PK3CB_HUMAN	catalytic phosphatidylinositol 3-kinase beta	446	C2 PI3K-type.				activation of MAPK activity|chemotaxis|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell receptor signaling pathway	phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity			breast(2)|ovary(1)|lung(1)|skin(1)	5						CTTTAAAGTCAAAAACCATCG	0.338													14	28	---	---	---	---						.	-	138431111	-	-	138431111	7	5	212	1	0	1	0	1	0	0	0	0	11933	127	5	0	1932	0	PIK3CB	3	138431111	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	260220	138431111	59591319	362	104167											
SR140	23350	broad.mit.edu	37	chr3	142741774	142741774	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacatccaatatacattccGccttctatgatggaacatac	13	11	4	13	1	1	1	0	1	1	0	3	2	3	2	4	1	3	0	4	1	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:142741774G>A	uc003evh.1	+	12	1197	c.1098G>A	c.(1096-1098)CCG>CCA	p.P366P	SR140_uc003evi.1_5'UTR|SR140_uc011bnj.1_Silent_p.P366P|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Silent_p.P365P|SR140_uc003evl.1_5'Flank	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	366	Pro-rich.				RNA processing	nucleus	nucleotide binding|RNA binding				0						TATACATTCCGCCTTCTATGA	0.423													6	11					0	0	0.001168	0	0		A	142741774	A	A	142741774	2	1	212	1	0	0	0	0	0	0	0	1	15156	1074	38	1		1	SR140	3	142741774	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4310663	142741774	55280656	363	104168											
IGSF10	285313	broad.mit.edu	37	chr3	151165718	151165718	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taagatgagcaataggattgGactcatcaagtccagatccc	14	9	9	9	0	2	3	2	1	0	2	4	5	4	5	2	2	1	1	2	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:151165718G>A	uc011bod.1	-	4	2051	c.2051C>T	c.(2050-2052)TCC>TTC	p.S684F		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	684					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AATAGGATTGGACTCATCAAG	0.463													18	35					0	0	0.006122	0	0		A	151165718	A	A	151165718	3	1	212	1	0	0	0	0	1	0	0	0	7613	1174	41	4	5880	4	IGSF10	3	151165718	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8423944	151165718	46856712	364	104169											
DHX36	170506	broad.mit.edu	37	chr3	154010429	154010429	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgttctgagtatcaaaatgCgtctcttttatttttcctcc	7	20	5	9	1	3	1	1	1	2	0	6	1	5	1	2	0	1	2	2	0	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:154010429C>T	uc003ezy.3	-	15	1806	c.1725G>A	c.(1723-1725)ACG>ACA	p.T575T	DHX36_uc010hvq.2_Silent_p.T561T|DHX36_uc003ezz.3_Silent_p.T575T	NM_020865	NP_065916	Q9H2U1	DHX36_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 36	575	Helicase C-terminal.					cytoplasm|nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TATCAAAATGCGTCTCTTTTA	0.343													46	75					0	0	0.01441	0	0		T	154010429	T	T	154010429	2	4	212	1	0	0	0	0	0	0	0	1	4515	755	27	1		1	DHX36	3	154010429	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2844711	154010429	44012001	365	104170											
SI	6476	broad.mit.edu	37	chr3	164793707	164793707	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagcaggtgtcttagttgCtaaaacaacaattaaggcaa	17	9	8	7	0	1	0	0	0	1	0	1	0	1	0	0	2	5	4	0	2	8	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:164793707C>T	uc003fei.2	-	2	156	c.94G>A	c.(94-96)GCA>ACA	p.A32T		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	32	Helical; Signal-anchor for type II membrane protein; (Potential).				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	GTCTTAGTTGCTAAAACAACA	0.333										HNSCC(35;0.089)			26	49					0	0	0.007291	0	0		T	164793707	T	T	164793707	3	4	212	1	0	0	0	0	1	0	0	0	14322	797	28	2	5577	2	SI	3	164793707	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	10783278	164793707	33228723	366	104171											
BCHE	590	broad.mit.edu	37	chr3	165547369	165547369	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaaatttcctcggcttttgTgtaattatctcttctttcca	8	19	4	10	1	2	0	0	0	2	0	6	0	4	0	2	1	0	2	2	1	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:165547369T>C	uc003fem.3	-	2	1613	c.1453A>G	c.(1453-1455)ACA>GCA	p.T485A	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	485					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TCGGCTTTTGTGTAATTATCT	0.413													45	19					0	0	0.013114	0	0		C	165547369	C	C	165547369	3	2	212	1	0	0	0	0	1	0	0	0	1359	1696	59	3	367	3	BCHE	3	165547369	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	753662	165547369	32475061	367	104172											
WDR49	151790	broad.mit.edu	37	chr3	167196720	167196720	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttggcataattgcttggcTtttcgttcatgatgcagaat	8	17	9	7	1	2	2	1	1	1	1	3	2	2	2	0	2	2	5	0	2	2	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:167196720T>C	uc003fev.1	-	15	2346	c.2040A>G	c.(2038-2040)AAA>AAG	p.K680K	WDR49_uc003feu.1_Silent_p.K505K|WDR49_uc011bpd.1_Silent_p.K645K|WDR49_uc003few.1_3'UTR	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	680										large_intestine(1)|ovary(1)|skin(1)	3						ATTGCTTGGCTTTTCGTTCAT	0.313													12	12					0	0	0.013537	0	0		C	167196720	C	C	167196720	2	2	212	1	0	0	0	0	0	0	0	1	17328	1606	56	3		3	WDR49	3	167196720	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1649351	167196720	30825710	368	104173											
GOLIM4	27333	broad.mit.edu	37	chr3	167759195	167759195	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttaccttgacatcttgaagCtgtgtatgtatgtcttggtg	7	18	10	6	0	2	2	0	2	2	0	2	2	2	2	1	1	2	3	1	1	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:167759195C>T	uc003ffe.2	-	6	929	c.585G>A	c.(583-585)CAG>CAA	p.Q195Q	GOLIM4_uc011bpe.1_Silent_p.Q195Q|GOLIM4_uc011bpf.1_Silent_p.Q195Q|GOLIM4_uc011bpg.1_Silent_p.Q195Q	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	195	Potential.|Golgi targeting.|Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)|skin(1)	5						CATCTTGAAGCTGTGTATGTA	0.343													6	8					0	0	0.001984	0	0		T	167759195	T	T	167759195	2	4	212	1	0	0	0	0	0	0	0	1	6581	796	28	2		2	GOLIM4	3	167759195	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	562475	167759195	30263235	369	104174											
MECOM	2122	broad.mit.edu	37	chr3	169099149	169099149	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atatcatcagggatgtagatGggggctttgtaaggagaacc	12	10	14	5	0	2	2	2	0	0	2	2	4	2	3	1	4	1	3	1	4	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:169099149G>A	uc011bpj.1	-	2	604	c.201C>T	c.(199-201)CCC>CCT	p.P67P	MECOM_uc003ffl.2_Silent_p.P39P|MECOM_uc011bpk.1_Intron|MECOM_uc010hwn.2_Silent_p.P67P|MECOM_uc011bpl.1_Silent_p.P67P	NM_004991	NP_004982	Q03112	EVI1_HUMAN	MDS1 and EVI1 complex locus isoform c	Error:Variant_position_missing_in_Q03112_after_alignment					apoptosis|cell differentiation|hemopoietic stem cell proliferation|negative regulation of JNK cascade|negative regulation of programmed cell death|negative regulation of transcription, DNA-dependent|regulation of cell cycle	nuclear speck	DNA binding|protein binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(5)|skin(5)|upper_aerodigestive_tract(1)|central_nervous_system(1)|ovary(1)|pancreas(1)	14						GGATGTAGATGGGGGCTTTGT	0.498													39	60					0	0	0.006999	0	0		A	169099149	A	A	169099149	2	1	212	1	0	0	0	0	0	0	0	1	9440	1335	47	4		4	MECOM	3	169099149	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1339954	169099149	28923281	370	104175											
NLGN1	22871	broad.mit.edu	37	chr3	173322476	173322476	+	Missense_Mutation	SNP	A	G	G	1	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	ggggattgggtgccccattgActctctgtatgttgggatgt	5	14	15	7	0	1	1	0	1	1	0	2	3	1	3	2	4	1	2	2	4	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:173322476A>G	uc003fio.1	+	3	511	c.88A>G	c.(88-90)ACT>GCT	p.T30A	NLGN1_uc010hww.1_Missense_Mutation_p.T30A|NLGN1_uc003fip.1_Missense_Mutation_p.T30A	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	30					calcium-dependent cell-cell adhesion|neuron cell-cell adhesion|neuronal signal transduction|positive regulation of dendritic spine development|positive regulation of excitatory postsynaptic membrane potential|positive regulation of intracellular protein kinase cascade|positive regulation of synaptogenesis|protein targeting|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|regulation of N-methyl-D-aspartate selective glutamate receptor activity|synapse assembly|synaptic vesicle targeting	cell junction|cell surface|dendrite|integral to plasma membrane|postsynaptic density|postsynaptic membrane	cell adhesion molecule binding|neurexin binding|receptor activity			lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)|ovary(1)|pancreas(1)	7	Ovarian(172;0.0025)		LUSC - Lung squamous cell carcinoma(14;5.36e-13)|Lung(28;9.49e-13)			TGCCCCATTGACTCTCTGTAT	0.502													33	78					0	0	0.003755	0	0		G	173322476	G	G	173322476	3	3	212	1	0	0	0	0	1	0	0	0	10480	275	10	3	90	3	NLGN1	3	173322476	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4223327	173322476	24699954	371	104176											
NAALADL2	254827	broad.mit.edu	37	chr3	175520895	175520895	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaaatgagacccttcaagaAgccctgtcagaggtgttgaa	13	9	10	9	0	3	4	3	2	0	3	3	5	3	4	2	1	1	1	2	1	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:175520895A>C	uc003fit.2	+	14	2379	c.2292A>C	c.(2290-2292)GAA>GAC	p.E764D		NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	N-acetylated alpha-linked acidic dipeptidase 2	764	Extracellular (Potential).				proteolysis	integral to membrane	peptidase activity			pancreas(1)	1	Ovarian(172;0.0102)	all_cancers(1;0.0272)|all_epithelial(1;0.0553)	OV - Ovarian serous cystadenocarcinoma(80;9.26e-28)	Colorectal(1;1.66e-10)|COAD - Colon adenocarcinoma(1;2.1e-07)|STAD - Stomach adenocarcinoma(1;0.00261)|READ - Rectum adenocarcinoma(3;0.0284)		CCCTTCAAGAAGCCCTGTCAG	0.433													6	19					0	0	0.00308	0	0		C	175520895	C	C	175520895	3	2	212	1	0	0	0	0	1	0	0	0	10148	69	3	5	2346	5	NAALADL2	3	175520895	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2198419	175520895	22501535	372	104177											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; 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; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			17	29					0	0	0.012319	0	0		A	178936091	A	A	178936091	3	1	212	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3415196	178936091	19086339	373	104178											
TTC14	151613	broad.mit.edu	37	chr3	180320724	180320725	+	Frame_Shift_Ins	INS	-	A	A																															agatacagaaattcatctccINSaaaaaagcggatctgctttt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:180320724_180320725insA	uc003fkk.2	+	2	339_340	c.207_208insA	c.(205-210)TCCAAAfs	p.S69fs	TTC14_uc003fkl.2_Frame_Shift_Ins_p.S69fs|TTC14_uc003fkm.2_Frame_Shift_Ins_p.S69fs	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	69_70							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AATTCATCTCCAAAAAAGCGGA	0.342													14	27	---	---	---	---						.	A	180320725	A	A	180320724	7	5	212	1	0	1	1	0	0	0	0	0	16707	581	21	0	213	0	TTC14	3	180320724	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	1384633	180320724	17701706	374	104179											
B3GNT5	84002	broad.mit.edu	37	chr3	182987793	182987793	+	Frame_Shift_Del	DEL	G	-	-																															tctcttaagcacacctcagcGgggcctcgctaccaatactt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:182987793delG	uc003flk.2	+	2	737	c.207delG	c.(205-207)GCGfs	p.A69fs	MCF2L2_uc003fli.1_Intron|MCF2L2_uc003flj.1_Intron|MCF2L2_uc011bqr.1_Intron|B3GNT5_uc003fll.2_Frame_Shift_Del_p.A69fs|B3GNT5_uc003flm.2_Frame_Shift_Del_p.A69fs	NM_032047	NP_114436	Q9BYG0	B3GN5_HUMAN	UDP-GlcNAc:betaGal	69	Lumenal (Potential).				central nervous system development|glycolipid biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	beta-galactosyl-N-acetylglucosaminylgalactosylglucosyl-ceramide beta-1,3-acetylglucosaminyltransferase activity|galactosyltransferase activity			ovary(1)	1	all_cancers(143;8.52e-13)|Ovarian(172;0.0355)		all cancers(12;4.52e-44)|Epithelial(37;8.82e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;6.75e-21)			ACACCTCAGCGGGGCCTCGCT	0.398													34	70	---	---	---	---						.	-	182987793	-	-	182987793	7	5	212	1	0	1	0	1	0	0	0	0	1261	1103	39	0	209	0	B3GNT5	3	182987793	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	2667069	182987793	15034637	375	104180											
DVL3	1857	broad.mit.edu	37	chr3	183885375	183885375	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctcccacccccaggcctagaCgacttccacttgtccatcca	8	8	5	20	1	0	1	0	0	0	1	4	2	4	1	7	1	0	0	7	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:183885375C>T	uc003fms.2	+	12	1346	c.1206C>T	c.(1204-1206)GAC>GAT	p.D402D	DVL3_uc011bqw.1_Silent_p.D385D|DVL3_uc003fmt.2_Silent_p.D73D|DVL3_uc003fmu.2_Silent_p.D234D	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	402					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CAGGCCTAGACGACTTCCACT	0.333													3	34					0	0	0.004672	0	0		T	183885375	T	T	183885375	2	4	212	1	0	0	0	0	0	0	0	1	4843	535	19	1		1	DVL3	3	183885375	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	897582	183885375	14137055	376	104181											
EIF4G1	1981	broad.mit.edu	37	chr3	184039599	184039599	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcaacggagccccctcGccaccagctgtggacttaag	8	7	10	16	2	1	0	1	0	0	0	2	2	1	2	4	2	4	2	4	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:184039599G>A	uc003fnp.2	+	10	1425	c.1227G>A	c.(1225-1227)TCG>TCA	p.S409S	EIF4G1_uc003fno.1_Silent_p.S350S|EIF4G1_uc010hxw.1_Silent_p.S245S|EIF4G1_uc003fnt.2_Silent_p.S120S|EIF4G1_uc003fnq.2_Silent_p.S322S|EIF4G1_uc003fnr.2_Silent_p.S245S|EIF4G1_uc010hxx.2_Silent_p.S416S|EIF4G1_uc003fns.2_Silent_p.S369S|EIF4G1_uc010hxy.2_Silent_p.S416S|EIF4G1_uc003fnv.3_Silent_p.S409S|EIF4G1_uc003fnu.3_Silent_p.S409S|EIF4G1_uc003fnw.2_Silent_p.S416S|EIF4G1_uc003fnx.2_Silent_p.S213S|EIF4G1_uc003fny.3_Silent_p.S213S	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	409					insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			GAGCCCCCTCGCCACCAGCTG	0.632													81	147					0	0	0.01441	0	0		A	184039599	A	A	184039599	2	1	212	1	0	0	0	0	0	0	0	1	5044	1074	38	1		1	EIF4G1	3	184039599	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	154224	184039599	13982831	377	104182											
IGF2BP2	10644	broad.mit.edu	37	chr3	185404892	185404892	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgatttcaagaatcatgcgGcatgcttcagaagtcccctc	11	11	8	11	1	3	3	3	1	0	2	5	3	4	3	2	1	2	2	2	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:185404892G>A	uc003fpo.2	-	7	844	c.765C>T	c.(763-765)TGC>TGT	p.C255C	IGF2BP2_uc010hyi.2_Silent_p.C198C|IGF2BP2_uc010hyj.2_Silent_p.C192C|IGF2BP2_uc010hyk.2_Silent_p.C119C|IGF2BP2_uc010hyl.2_Silent_p.C192C|IGF2BP2_uc003fpp.2_Silent_p.C255C|IGF2BP2_uc003fpq.2_Silent_p.C260C	NM_006548	NP_006539	Q9Y6M1	IF2B2_HUMAN	insulin-like growth factor 2 mRNA binding	255	KH 1.				anatomical structure morphogenesis|negative regulation of translation	cytoskeletal part|cytosol|nucleus	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity				0	all_cancers(143;5.84e-11)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)			GAATCATGCGGCATGCTTCAG	0.458													17	89					0	0	0.00499	0	0		A	185404892	A	A	185404892	2	1	212	1	0	0	0	0	0	0	0	1	7590	1195	42	2		2	IGF2BP2	3	185404892	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1365293	185404892	12617538	378	104183											
TP63	8626	broad.mit.edu	37	chr3	189456514	189456514	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaaacaagattgagattaGcatggactgtatccgcatgc	14	9	10	8	1	0	2	0	1	0	2	1	5	1	3	1	1	3	3	1	1	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:189456514G>T	uc003fry.2	+	3	364	c.275G>T	c.(274-276)AGC>ATC	p.S92I	TP63_uc003frx.2_Missense_Mutation_p.S92I|TP63_uc003frz.2_Missense_Mutation_p.S92I|TP63_uc010hzc.1_Missense_Mutation_p.S92I	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	92	Transcription activation.				anti-apoptosis|cellular response to UV|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of transcription from RNA polymerase II promoter|Notch signaling pathway|positive regulation of Notch signaling pathway|protein homotetramerization|regulation of neuron apoptosis|response to gamma radiation|response to X-ray	chromatin|cytosol|dendrite|Golgi apparatus|transcription factor complex	chromatin binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|metal ion binding|p53 binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(5)|lung(4)|ovary(2)|upper_aerodigestive_tract(1)	12	all_cancers(143;3.35e-10)|Ovarian(172;0.0925)		Lung(62;3.33e-05)	GBM - Glioblastoma multiforme(93;0.0227)		ATTGAGATTAGCATGGACTGT	0.473									Hay-Wells_syndrome	HNSCC(45;0.13)			16	38					1.5739e-10	1.71902e-10	0.004007	1	0		T	189456514	T	T	189456514	3	4	212	1	0	0	0	0	1	0	0	0	16418	971	34	5	285	5	TP63	3	189456514	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4051622	189456514	8565916	379	104184											
ATP13A4	84239	broad.mit.edu	37	chr3	193130155	193130155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctttcattttgtactgtgCaggcactaaaagggaaaacc	12	12	9	8	0	1	0	1	0	0	0	1	1	1	1	1	2	4	4	1	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:193130155C>T	uc003ftd.2	-	27	3128	c.3020G>A	c.(3019-3021)TGC>TAC	p.C1007Y	ATP13A4_uc010hzi.2_RNA	NM_032279	NP_115655	Q4VNC1	AT134_HUMAN	ATPase type 13A4	1007	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(2)	2	all_cancers(143;1.76e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;2.72e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;0.000109)		TTGTACTGTGCAGGCACTAAA	0.393													48	88					0	0	0.011902	0	0		T	193130155	T	T	193130155	3	4	212	1	0	0	0	0	1	0	0	0	1127	710	25	2	586	2	ATP13A4	3	193130155	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3673641	193130155	4892275	380	104185											
MFI2	4241	broad.mit.edu	37	chr3	196736677	196736677	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgtagtacgagttgctgctgTcttccgctggggagagaggg	6	10	17	8	3	1	1	0	0	1	1	2	4	2	2	1	3	3	6	1	3	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:196736677T>C	uc003fxk.3	-	11	1450	c.1337A>G	c.(1336-1338)GAC>GGC	p.D446G		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	446	Transferrin-like 2.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GTTGCTGCTGTCTTCCGCTGG	0.647													17	27					0	0	0.004007	0	0		C	196736677	C	C	196736677	3	2	212	1	0	0	0	0	1	0	0	0	9540	1667	58	3	903	3	MFI2	3	196736677	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3606522	196736677	1285753	381	104186											
MFI2	4241	broad.mit.edu	37	chr3	196743103	196743103	+	Silent	SNP	A	G	G	1	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	ttcatggcgtgcaggtactcAtggcccagccacgcctcata	8	9	10	14	2	3	0	3	0	0	0	3	0	3	0	3	3	3	2	3	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr3:196743103A>G	uc003fxk.3	-	8	1151	c.1038T>C	c.(1036-1038)CAT>CAC	p.H346H		NM_005929	NP_005920	P08582	TRFM_HUMAN	melanoma-associated antigen p97 isoform 1	346	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding				0	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GCAGGTACTCATGGCCCAGCC	0.597													11	26					0	0	0.001855	0	0		G	196743103	G	G	196743103	2	3	212	1	0	0	0	0	0	0	0	1	9540	214	8	3		3	MFI2	3	196743103	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6426	196743103	1279327	382	104187											
HAUS3	79441	broad.mit.edu	37	chr4	2242355	2242355	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctttaatttcagtagagtttGaacctcatcctctaatttct	10	18	4	9	0	4	2	2	1	2	1	5	2	5	2	2	0	1	2	2	0	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:2242355G>A	uc003ges.1	-	2	549	c.319C>T	c.(319-321)CAA>TAA	p.Q107*	POLN_uc011bvi.1_Intron|HAUS3_uc011bvj.1_Nonsense_Mutation_p.Q107*|HAUS3_uc003get.1_Nonsense_Mutation_p.Q107*	NM_024511	NP_078787	Q68CZ6	HAUS3_HUMAN	HAUS augmin-like complex, subunit 3	107	Potential.				cell division|centrosome organization|mitosis|spindle assembly	centrosome|HAUS complex|microtubule|spindle				large_intestine(2)|breast(2)	4						AGTAGAGTTTGAACCTCATCC	0.378													19	38					0	0	0.008871	0	0		A	2242355	A	A	2242355	4	1	212	1	0	0	0	0	0	1	0	0	6983	1299	45	4	1508	4	HAUS3	4	2242355	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		2242355	188911921	383	104188											
ZBTB49	166793	broad.mit.edu	37	chr4	4322608	4322608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactctttctcccaagacacGtctgtgacgctgatgccagt	8	11	9	13	2	3	3	0	2	3	1	4	4	3	3	2	0	1	1	2	0	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:4322608G>A	uc003ghu.2	+	8	2038	c.1863G>A	c.(1861-1863)ACG>ACA	p.T621T	uc003ghw.2_5'Flank|ZBTB49_uc003ghv.2_Silent_p.T104T|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Silent_p.T199T	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	621					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						CCCAAGACACGTCTGTGACGC	0.537													12	25					0	0	0.003163	0	0		A	4322608	A	A	4322608	2	1	212	1	0	0	0	0	0	0	0	1	17575	1132	40	1		1	ZBTB49	4	4322608	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2080253	4322608	186831668	384	104189											
STX18	53407	broad.mit.edu	37	chr4	4440158	4440158	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagggttttcttcagagtcTtttgaaggactctgtgaaac	9	14	11	7	0	4	3	1	2	3	1	4	4	4	4	0	2	1	2	0	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:4440158T>C	uc003gic.2	-	6	660	c.576A>G	c.(574-576)AAA>AAG	p.K192K		NM_016930	NP_058626	Q9P2W9	STX18_HUMAN	syntaxin 18	192	Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|intracellular protein transport	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	SNAP receptor activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.0534)		CTTCAGAGTCTTTTGAAGGAC	0.393													4	78					0	0	0.009096	0	0		C	4440158	C	C	4440158	2	2	212	1	0	0	0	0	0	0	0	1	15366	1606	56	3		3	STX18	4	4440158	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	117550	4440158	186714118	385	104190											
EVC	2121	broad.mit.edu	37	chr4	5798849	5798849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccaccctgacgcagatgCggctatcggggaagaagcac	10	5	14	12	3	0	3	0	1	0	2	1	4	0	4	2	4	2	3	2	4	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:5798849C>T	uc003gil.1	+	14	2171	c.1987C>T	c.(1987-1989)CGG>TGG	p.R663W	EVC_uc003gim.1_RNA|CRMP1_uc003gin.1_Intron	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	663					muscle organ development	integral to membrane				ovary(1)|skin(1)	2		Myeloproliferative disorder(84;0.117)				GACGCAGATGCGGCTATCGGG	0.677													8	26					0	0	0.010729	0	0		T	5798849	T	T	5798849	3	4	212	1	0	0	0	0	1	0	0	0	5293	759	27	1	2041	1	EVC	4	5798849	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1358691	5798849	185355427	386	104191											
KIAA0232	9778	broad.mit.edu	37	chr4	6864082	6864082	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtgcaatgcagtaattCtgttttaccattttcttttg	9	19	7	6	0	2	1	0	1	2	0	2	1	2	1	1	0	3	4	1	0	4	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:6864082C>A	uc003gjr.3	+	7	2436	c.1973C>A	c.(1972-1974)TCT>TAT	p.S658Y	KIAA0232_uc003gjq.3_Missense_Mutation_p.S658Y	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	658							ATP binding			ovary(2)	2						TGCAGTAATTCTGTTTTACCA	0.353													7	25					0.00198382	0.00202687	0.001984	1	0		A	6864082	A	A	6864082	3	1	212	1	0	0	0	0	1	0	0	0	8179	913	32	5	1991	5	KIAA0232	4	6864082	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1065233	6864082	184290194	387	104192											
KIAA0232	9778	broad.mit.edu	37	chr4	6864571	6864571	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccacatggagatggctacaGctcaggggttattaaagaca	13	9	11	8	0	1	2	1	0	0	2	2	3	2	2	1	4	2	3	1	4	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:6864571G>A	uc003gjr.3	+	7	2925	c.2462G>A	c.(2461-2463)AGC>AAC	p.S821N	KIAA0232_uc003gjq.3_Missense_Mutation_p.S821N	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	821							ATP binding			ovary(2)	2						GATGGCTACAGCTCAGGGGTT	0.378													20	45					0	0	0.003954	0	0		A	6864571	A	A	6864571	3	1	212	1	0	0	0	0	1	0	0	0	8179	971	34	2	2480	2	KIAA0232	4	6864571	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	489	6864571	184289705	388	104193											
AFAP1	60312	broad.mit.edu	37	chr4	7820825	7820825	+	Missense_Mutation	SNP	A	G	G	1	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	tctccagttctgccttgtgcAccggggagcttggtggagga	5	11	15	10	1	2	0	0	0	2	0	3	3	2	3	3	5	3	3	3	5	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:7820825A>G	uc003gkg.1	-	7	1073	c.800T>C	c.(799-801)GTG>GCG	p.V267A	AFAP1_uc011bwk.1_Missense_Mutation_p.V267A	NM_198595	NP_940997	Q8N556	AFAP1_HUMAN	actin filament associated protein 1	267						actin cytoskeleton|cytoplasm|focal adhesion	actin binding				0						TGCCTTGTGCACCGGGGAGCT	0.522													19	42					0	0	0.014323	0	0		G	7820825	G	G	7820825	3	3	212	1	0	0	0	0	1	0	0	0	353	159	6	3	1692	3	AFAP1	4	7820825	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	956254	7820825	183333451	389	104194											
SH3TC1	54436	broad.mit.edu	37	chr4	8214541	8214541	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agaatgatagccgggagatgGcccgcgtgcttggggtgagt	8	8	18	7	3	0	4	0	2	0	2	0	5	0	4	2	4	2	1	2	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:8214541G>A	uc003gkv.3	+	4	462	c.361G>A	c.(361-363)GCC>ACC	p.A121T	SH3TC1_uc003gkw.3_Missense_Mutation_p.A45T|SH3TC1_uc003gkx.3_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	121							binding			large_intestine(2)|pancreas(1)	3						CCGGGAGATGGCCCGCGTGCT	0.682													3	3					0	0	0.009096	0	0		A	8214541	A	A	8214541	3	1	212	1	0	0	0	0	1	0	0	0	14286	1203	42	2	371	2	SH3TC1	4	8214541	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	393716	8214541	182939735	390	104195											
SH3TC1	54436	broad.mit.edu	37	chr4	8242611	8242611	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccacagagctcaacgtcCgcagggtcaacctgcctcct	8	7	9	17	3	2	1	2	0	0	1	5	1	4	1	5	1	4	2	5	1	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:8242611C>T	uc003gkv.3	+	18	4041	c.3940C>T	c.(3940-3942)CGC>TGC	p.R1314C	SH3TC1_uc003gkw.3_Missense_Mutation_p.R1238C|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_RNA	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	1314							binding			large_intestine(2)|pancreas(1)	3						GCTCAACGTCCGCAGGGTCAA	0.632													21	45					0	0	0.00278	0	0		T	8242611	T	T	8242611	3	4	212	1	0	0	0	0	1	0	0	0	14286	652	23	1	4006	1	SH3TC1	4	8242611	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	28070	8242611	182911665	391	104196											
DRD5	1816	broad.mit.edu	37	chr4	9783755	9783755	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggctcggcgggggcaccGccactggggccctcacaggt	4	4	19	14	3	1	0	1	0	0	0	2	0	1	0	3	8	0	2	3	8	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:9783755G>A	uc003gmb.3	+	1	498	c.102G>A	c.(100-102)CCG>CCA	p.P34P		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	34	Extracellular (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	CGGGGGCACCGCCACTGGGGC	0.701													6	7					0	0	0.001168	0	0		A	9783755	A	A	9783755	2	1	212	1	0	0	0	0	0	0	0	1	4766	1074	38	1		1	DRD5	4	9783755	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1541144	9783755	181370521	392	104197											
BOD1L	259282	broad.mit.edu	37	chr4	13584277	13584277	+	Frame_Shift_Del	DEL	T	-	-																															aagcagatattttactcaccTttttcttccatgacccttga																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:13584277delT	uc003gmz.1	-	18	8634	c.8517delA	c.(8515-8517)AAAfs	p.K2839fs		NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	2839							DNA binding			ovary(5)|breast(1)	6						TTTACTCACCTTTTTCTTCCA	0.403													7	12	---	---	---	---						.	-	13584277	-	-	13584277	7	5	212	1	0	1	0	1	0	0	0	0	1484	1623	56	0	674	0	BOD1L	4	13584277	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	3800522	13584277	177569999	393	104198											
BST1	683	broad.mit.edu	37	chr4	15717330	15717330	+	Frame_Shift_Del	DEL	T	-	-																															cttcaagaaatgtttctcagTttttttgcagattatgaaat																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:15717330delT	uc003goh.3	+	6	807	c.612delT	c.(610-612)GGTfs	p.G204fs	BST1_uc003goi.2_Frame_Shift_Del_p.G15fs	NM_004334	NP_004325	Q10588	BST1_HUMAN	bone marrow stromal cell antigen 1 precursor	204					humoral immune response|multicellular organismal development	anchored to membrane|extrinsic to membrane|plasma membrane	binding|NAD+ nucleosidase activity			central_nervous_system(1)	1						TGTTTCTCAGTTTTTTTGCAG	0.318													11	18	---	---	---	---						.	-	15717330	-	-	15717330	7	5	212	1	0	1	0	1	0	0	0	0	1536	1739	60	0	634	0	BST1	4	15717330	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	2133053	15717330	175436946	394	104199											
NCAPG	64151	broad.mit.edu	37	chr4	17819570	17819570	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttttaaatgaaggaaattgaTtccagtggaaacattaactc	16	13	7	5	0	0	2	0	2	0	0	2	4	1	4	1	2	2	0	1	2	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:17819570T>G	uc003gpp.2	+	7	1153	c.977T>G	c.(976-978)ATT>AGT	p.I326S	NCAPG_uc011bxj.1_5'UTR	NM_022346	NP_071741	Q9BPX3	CND3_HUMAN	chromosome condensation protein G	326					cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	protein binding			large_intestine(1)	1				STAD - Stomach adenocarcinoma(129;0.18)		AGGAAATTGATTCCAGTGGAA	0.308													15	26					0	0	0.00245	0	0		G	17819570	G	G	17819570	3	3	212	1	0	0	0	0	1	0	0	0	10226	1493	52	5	1003	5	NCAPG	4	17819570	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2102240	17819570	173334706	395	104200											
RBPJ	3516	broad.mit.edu	37	chr4	26431568	26431568	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagagatgataaatgatggcGcttcctggacaatcattagc	14	10	10	7	1	1	3	1	2	0	1	2	5	2	4	1	2	1	1	1	2	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:26431568G>A	uc003grx.1	+	10	1212	c.976G>A	c.(976-978)GCT>ACT	p.A326T	RBPJ_uc003gry.1_Missense_Mutation_p.A311T|RBPJ_uc003grz.1_Missense_Mutation_p.A326T|RBPJ_uc011bxt.1_Missense_Mutation_p.A326T|RBPJ_uc003gsa.1_Missense_Mutation_p.A312T|RBPJ_uc003gsb.1_Missense_Mutation_p.A313T|RBPJ_uc003gsc.1_Missense_Mutation_p.A312T	NM_005349	NP_005340	Q06330	SUH_HUMAN	recombining binding protein suppressor of	326					DNA recombination|negative regulation of transcription, DNA-dependent|positive regulation of transcription of Notch receptor target	cytoplasm|nucleolus|nucleoplasm	DNA binding|protein binding|recombinase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|lung(1)|central_nervous_system(1)	3		Breast(46;0.0503)				AAATGATGGCGCTTCCTGGAC	0.403													19	27					0	0	0.008871	0	0		A	26431568	A	A	26431568	3	1	212	1	0	0	0	0	1	0	0	0	13186	1087	38	1	1073	1	RBPJ	4	26431568	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8611998	26431568	164722708	396	104201											
RBM47	54502	broad.mit.edu	37	chr4	40440760	40440760	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgccgtacttgcgctgccCgttctcttgcaccatgctgt	3	12	10	16	4	1	0	0	0	1	0	2	0	1	0	4	0	5	5	4	0	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:40440760C>A	uc003gvc.2	-	4	861	c.151G>T	c.(151-153)GGG>TGG	p.G51W	RBM47_uc003gvd.2_Missense_Mutation_p.G51W|RBM47_uc003gve.2_RNA|RBM47_uc011bys.1_Missense_Mutation_p.G13W|RBM47_uc003gvg.1_Missense_Mutation_p.G51W	NM_001098634	NP_001092104	A0AV96	RBM47_HUMAN	RNA binding motif protein 47 isoform a	51						nucleus	nucleotide binding|RNA binding			breast(3)	3						TTGCGCTGCCCGTTCTCTTGC	0.721													6	4					2.0095e-06	2.11915e-06	0.001984	1	0		A	40440760	A	A	40440760	3	1	212	1	0	0	0	0	1	0	0	0	13166	652	23	5	1646	5	RBM47	4	40440760	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	14009192	40440760	150713516	397	104202											
PHOX2B	8929	broad.mit.edu	37	chr4	41748270	41748270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcccgaggagccgttcttggCcgcggccgctgcggctgccg	2	6	17	16	7	1	0	0	0	1	0	1	2	1	1	5	4	3	3	5	4	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:41748270C>T	uc003gwf.3	-	3	859	c.499G>A	c.(499-501)GCC>ACC	p.A167T		NM_003924	NP_003915	Q99453	PHX2B_HUMAN	paired-like homeobox 2b	167	Poly-Ala.				positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			autonomic_ganglia(7)|lung(2)|ovary(2)|central_nervous_system(1)	12						CCGTTCTTGGCCGCGGCCGCT	0.657			Mis|F		neuroblastoma	neuroblastoma	congenital central hypoventilation syndrome		Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				19	34					0	0	0.010504	0	0		T	41748270	T	T	41748270	3	4	212	1	0	0	0	0	1	0	0	0	11878	739	26	2	449	2	PHOX2B	4	41748270	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1307510	41748270	149406006	398	104203											
CNGA1	1259	broad.mit.edu	37	chr4	47938810	47938810	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacaggtctgagtagccaatActtttaatattggccgttct	11	14	8	8	1	2	1	0	1	2	0	2	1	2	1	2	2	3	2	2	2	6	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:47938810A>G	uc003gxt.3	-	11	1967	c.1701T>C	c.(1699-1701)AGT>AGC	p.S567S	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Silent_p.S636S	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	567	cGMP (Potential).|Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						AGTAGCCAATACTTTTAATAT	0.443													52	126					0	0	0.01441	0	0		G	47938810	G	G	47938810	2	3	212	1	0	0	0	0	0	0	0	1	3599	388	14	3		3	CNGA1	4	47938810	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6190540	47938810	143215466	399	104204											
SGCB	6443	broad.mit.edu	37	chr4	52895882	52895882	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgaccaaattttcatttcGccttcctcctactgtgcttt	7	17	5	12	1	1	1	1	1	0	0	4	2	3	1	4	0	2	1	4	0	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:52895882G>A	uc003gzj.2	-	3	451	c.391C>T	c.(391-393)CGA>TGA	p.R131*	SGCB_uc011bzp.1_Nonsense_Mutation_p.R61*	NM_000232	NP_000223	Q16585	SGCB_HUMAN	sarcoglycan, beta	131	Extracellular (Potential).|Cys-rich.				cytoskeleton organization|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma					0			GBM - Glioblastoma multiforme(4;7.63e-12)|LUSC - Lung squamous cell carcinoma(32;0.00204)			TTTTCATTTCGCCTTCCTCCT	0.413													6	107					0	0	0.001168	0	0		A	52895882	A	A	52895882	4	1	212	1	0	0	0	0	0	1	0	0	14225	1095	38	1	581	1	SGCB	4	52895882	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4957072	52895882	138258394	400	104205											
GSX2	170825	broad.mit.edu	37	chr4	54966568	54966568	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacacctcacggcctgcGccctcgctgcctgaaccgca	8	5	10	18	4	1	1	1	1	0	0	2	2	1	2	5	2	3	2	5	2	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:54966568G>A	uc010igp.1	+	1	321	c.57G>A	c.(55-57)GCG>GCA	p.A19A	PDGFRA_uc003haa.2_Intron	NM_133267	NP_573574	Q9BZM3	GSX2_HUMAN	GS homeobox 2	19						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_cancers(7;0.00671)|Lung NSC(11;0.0154)|all_neural(26;0.0209)|Glioma(25;0.08)|all_epithelial(27;0.147)		LUSC - Lung squamous cell carcinoma(32;0.00216)			CACGGCCTGCGCCCTCGCTGC	0.677													8	33					0	0	0.004482	0	0		A	54966568	A	A	54966568	2	1	212	1	0	0	0	0	0	0	0	1	6866	1074	38	1		1	GSX2	4	54966568	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2070686	54966568	136187708	401	104206											
PDGFRA	5156	broad.mit.edu	37	chr4	55146554	55146554	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggctgatactacacagtatgTccccatgctagaaaggaaag	14	8	10	9	0	0	2	0	1	0	1	1	3	1	3	2	2	3	3	2	2	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:55146554T>C	uc003han.3	+	16	2559	c.2228T>C	c.(2227-2229)GTC>GCC	p.V743A	PDGFRA_uc003haa.2_Missense_Mutation_p.V503A|PDGFRA_uc010igq.1_Missense_Mutation_p.V637A|PDGFRA_uc003ham.2_RNA|PDGFRA_uc003hao.1_Missense_Mutation_p.V122A	NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha	743	Protein kinase.|Cytoplasmic (Potential).				cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	ACACAGTATGTCCCCATGCTA	0.368			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			27	64					0	0	0.008361	0	0		C	55146554	C	C	55146554	3	2	212	1	0	0	0	0	1	0	0	0	11680	1667	58	3	2286	3	PDGFRA	4	55146554	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	179986	55146554	136007722	402	104207											
KIT	3815	broad.mit.edu	37	chr4	55602973	55602973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggatgctcagccctgaacacGcacctgctgaaatgtaagag	12	7	11	11	1	1	3	1	2	0	1	1	4	1	4	2	1	4	4	2	1	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:55602973G>A	uc010igr.2	+	19	2770	c.2683G>A	c.(2683-2685)GCA>ACA	p.A895T	KIT_uc010igs.2_Missense_Mutation_p.A891T	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	895	Protein kinase.|Cytoplasmic (Potential).		Missing (in PBT; severe).		male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCCTGAACACGCACCTGCTGA	0.438		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				18	56					0	0	0.007413	0	0		A	55602973	A	A	55602973	3	1	212	1	0	0	0	0	1	0	0	0	8345	1087	38	1	2757	1	KIT	4	55602973	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	456419	55602973	135551303	403	104208											
EXOC1	55763	broad.mit.edu	37	chr4	56763012	56763012	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcaaaaatgctgagcgtCgtggagacctggataaagca	13	9	11	8	2	2	2	1	1	1	1	3	4	2	3	1	2	3	2	1	2	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:56763012C>T	uc003hbe.1	+	16	2241	c.2083C>T	c.(2083-2085)CGT>TGT	p.R695C	EXOC1_uc003hbf.1_Missense_Mutation_p.R695C|EXOC1_uc003hbg.1_Missense_Mutation_p.R680C	NM_018261	NP_060731	Q9NV70	EXOC1_HUMAN	exocyst complex component 1 isoform 1	695					exocytosis|protein transport	exocyst	protein binding			ovary(2)|skin(2)|lung(1)|central_nervous_system(1)	6	Glioma(25;0.08)|all_neural(26;0.101)					TGCTGAGCGTCGTGGAGACCT	0.333													12	53					0	0	0.003163	0	0		T	56763012	T	T	56763012	3	4	212	1	0	0	0	0	1	0	0	0	5309	884	31	1	2141	1	EXOC1	4	56763012	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1160039	56763012	134391264	404	104209											
UBA6	55236	broad.mit.edu	37	chr4	68490787	68490787	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgcgctttgttttgaaacgGtcagctggttcaatgctgta	8	15	11	7	2	2	1	2	1	0	0	2	1	2	1	0	2	4	6	0	2	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:68490787G>A	uc003hdg.3	-	29	2689	c.2637C>T	c.(2635-2637)GAC>GAT	p.D879D		NM_018227	NP_060697	A0AVT1	UBA6_HUMAN	ubiquitin-activating enzyme E1-like 2	879					protein ubiquitination|ubiquitin-dependent protein catabolic process	cytoplasm	ATP binding|FAT10 activating enzyme activity|ligase activity|protein binding				0						TTTTGAAACGGTCAGCTGGTT	0.368													7	99					0	0	0.00308	0	0		A	68490787	A	A	68490787	2	1	212	1	0	0	0	0	0	0	0	1	16858	1252	44	4		4	UBA6	4	68490787	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	11727775	68490787	122663489	405	104210											
AMBN	258	broad.mit.edu	37	chr4	71472000	71472000	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccccacaacccagctatgggCggtgacttcactctggaatt	9	9	9	14	1	2	1	1	1	1	0	2	2	2	2	3	3	2	1	3	3	3	3	rs76096306	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:71472000C>T	uc003hfl.2	+	13	972	c.897C>T	c.(895-897)GGC>GGT	p.G299G		NM_016519	NP_057603	Q9NP70	AMBN_HUMAN	ameloblastin precursor	299					bone mineralization|cell adhesion|cell proliferation|odontogenesis of dentine-containing tooth	proteinaceous extracellular matrix	growth factor activity|structural constituent of tooth enamel			ovary(3)|skin(1)	4			Lung(101;0.235)			CAGCTATGGGCGGTGACTTCA	0.592													10	64					0	0	0.008291	0	0		T	71472000	T	T	71472000	2	4	212	1	0	0	0	0	0	0	0	1	563	755	27	1		1	AMBN	4	71472000	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2981213	71472000	119682276	406	104211											
ADAMTS3	9508	broad.mit.edu	37	chr4	73161432	73161432	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggtttcggctttttgttggCctcacagaagctgcgatgga	7	13	13	8	2	1	1	1	0	0	1	2	3	1	2	1	4	2	4	1	4	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:73161432C>T	uc003hgk.1	-	19	2699	c.2662G>A	c.(2662-2664)GCC>ACC	p.A888T		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	888	TSP type-1 2.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTTTTGTTGGCCTCACAGAAG	0.373													14	91					0	0	0.00245	0	0		T	73161432	T	T	73161432	3	4	212	1	0	0	0	0	1	0	0	0	267	739	26	2	971	2	ADAMTS3	4	73161432	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1689432	73161432	117992844	407	104212											
ADAMTS3	9508	broad.mit.edu	37	chr4	73179443	73179443	+	Missense_Mutation	SNP	T	C	C	0	1	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	acgaacaccagttccacatgTccgagaacaggagccaaatt	15	6	8	12	2	0	1	0	0	0	1	2	4	2	2	4	1	3	1	4	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:73179443T>C	uc003hgk.1	-	12	1733	c.1696A>G	c.(1696-1698)ACA>GCA	p.T566A	ADAMTS3_uc003hgl.2_5'Flank	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	566	TSP type-1 1.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GTTCCACATGTCCGAGAACAG	0.418													29	40					0	0	0.007291	0	0		C	73179443	C	C	73179443	3	2	212	1	0	0	0	0	1	0	0	0	267	1667	58	3	1965	3	ADAMTS3	4	73179443	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	18011	73179443	117974833	408	104213											
RASSF6	166824	broad.mit.edu	37	chr4	74451071	74451071	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcagggtgttgctgtgataAgataaatagtctgggaagaa	13	12	13	3	0	2	3	1	1	1	2	2	4	2	4	0	2	1	2	0	2	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:74451071A>C	uc003hhd.1	-	6	612	c.489T>G	c.(487-489)TCT>TCG	p.S163S	RASSF6_uc003hhc.1_Silent_p.S131S|RASSF6_uc010iik.1_Silent_p.S131S|RASSF6_uc010iil.1_Silent_p.S119S	NM_201431	NP_958834	Q6ZTQ3	RASF6_HUMAN	Ras association (RalGDS/AF-6) domain family 6	163					apoptosis|signal transduction		protein binding			pancreas(2)	2	Breast(15;0.00102)		all cancers(17;0.00104)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)			TGCTGTGATAAGATAAATAGT	0.423													5	101					0	0	0.000602	0	0		C	74451071	C	C	74451071	2	2	212	1	0	0	0	0	0	0	0	1	13115	59	3	5		5	RASSF6	4	74451071	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1271628	74451071	116703205	409	104214											
MTHFD2L	441024	broad.mit.edu	37	chr4	75091091	75091091	+	Missense_Mutation	SNP	A	G	G	1	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	gattcatacgcagctggcagAtattatcatagttgctgcag	11	12	10	8	1	2	1	2	0	0	1	2	2	2	1	0	1	4	6	0	1	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:75091091A>G	uc011cbk.1	+	6	812	c.785A>G	c.(784-786)GAT>GGT	p.D262G	MTHFD2L_uc011cbj.1_Missense_Mutation_p.D204G|MTHFD2L_uc003hhu.2_RNA	NM_001144978	NP_001138450	Q9H903	MTD2L_HUMAN	methylenetetrahydrofolate dehydrogenase 2-like	204					folic acid-containing compound biosynthetic process|histidine biosynthetic process|methionine biosynthetic process|one-carbon metabolic process|purine nucleotide biosynthetic process		binding|methenyltetrahydrofolate cyclohydrolase activity|methylenetetrahydrofolate dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2			all cancers(17;0.0101)|Lung(101;0.196)			CAGCTGGCAGATATTATCATA	0.408													29	112					0	0	0.012213	0	0		G	75091091	G	G	75091091	3	3	212	1	0	0	0	0	1	0	0	0	9948	333	12	3	807	3	MTHFD2L	4	75091091	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	640020	75091091	116063185	410	104215											
BMP3	651	broad.mit.edu	37	chr4	81967654	81967654	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagaccctgaaaaaggcaaGgagaaagcagtggattgaac	17	4	13	7	0	0	4	0	2	0	2	0	6	0	5	1	3	2	3	1	3	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:81967654G>T	uc003hmg.3	+	2	1399	c.1079G>T	c.(1078-1080)AGG>ATG	p.R360M		NM_001201	NP_001192	P12645	BMP3_HUMAN	bone morphogenetic protein 3 preproprotein	360					cartilage development|cell differentiation|cell-cell signaling|growth|ossification	extracellular space	BMP receptor binding|cytokine activity|growth factor activity			ovary(4)|central_nervous_system(1)	5						AAAAAGGCAAGGAGAAAGCAG	0.483													21	41					1.00905e-13	1.13171e-13	0.008871	1	0		T	81967654	T	T	81967654	3	4	212	1	0	0	0	0	1	0	0	0	1462	1000	35	5	1085	5	BMP3	4	81967654	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6876563	81967654	109186622	411	104216											
PRKG2	5593	broad.mit.edu	37	chr4	82125916	82125916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aggcactttatctggagaggCctgaagcgggcttcctccct	7	10	12	12	1	1	2	0	1	1	1	3	3	3	2	3	4	1	2	3	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:82125916C>T	uc003hmh.2	-	1	300	c.286G>A	c.(286-288)GCC>ACC	p.A96T	PRKG2_uc011cch.1_Missense_Mutation_p.A96T	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	96					platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			breast(3)|central_nervous_system(2)|ovary(1)|large_intestine(1)	7						TCTGGAGAGGCCTGAAGCGGG	0.567													43	71					0	0	0.009718	0	0		T	82125916	T	T	82125916	3	4	212	1	0	0	0	0	1	0	0	0	12545	739	26	2	2074	2	PRKG2	4	82125916	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	158262	82125916	109028360	412	104217											
NKX6-1	4825	broad.mit.edu	37	chr4	85419144	85419145	+	Frame_Shift_Ins	INS	-	C	C																															gggctgccgagggatgagagINScccccccgtggccgggggct																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:85419144_85419145insC	uc003hpa.1	-	1	243_244	c.237_238insG	c.(235-240)GGGCTCfs	p.G79fs		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	79_80					detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		AGGGATGAGAGCCCCCCCGTGG	0.545													5	9	---	---	---	---						.	C	85419145	C	C	85419144	7	5	212	1	0	1	1	0	0	0	0	0	10476	971	34	0	877	0	NKX6-1	4	85419144	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	3293228	85419144	105735132	413	104218											
PKD2	5311	broad.mit.edu	37	chr4	88989190	88989190	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aggggaagcatttctagtggCgtttcttacgaagagtttca	10	13	12	6	2	3	1	1	0	2	1	3	3	3	2	0	3	2	3	0	3	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:88989190C>T	uc003hre.2	+	13	2565	c.2499C>T	c.(2497-2499)GGC>GGT	p.G833G	PKD2_uc011cdf.1_Silent_p.G251G|PKD2_uc011cdg.1_Silent_p.G159G|PKD2_uc011cdh.1_Silent_p.G56G	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	833	C-terminal coiled coil domain.|Cytoplasmic (Potential).					basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		TTTCTAGTGGCGTTTCTTACG	0.478													27	18					0	0	0.008361	0	0		T	88989190	T	T	88989190	2	4	212	1	0	0	0	0	0	0	0	1	11985	755	27	1		1	PKD2	4	88989190	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3570046	88989190	102165086	414	104219											
MMRN1	22915	broad.mit.edu	37	chr4	90857014	90857014	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttagaaatggaagatggccTcaataagacaatgactatta	17	10	8	6	0	1	4	1	1	0	3	1	5	1	5	1	2	0	0	1	2	8	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:90857014T>C	uc003hst.2	+	6	2254	c.2183T>C	c.(2182-2184)CTC>CCC	p.L728P	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.L470P	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	728					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GAAGATGGCCTCAATAAGACA	0.323													5	23					0	0	0.001168	0	0		C	90857014	C	C	90857014	3	2	212	1	0	0	0	0	1	0	0	0	9688	1551	54	3	2205	3	MMRN1	4	90857014	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1867824	90857014	100297262	415	104220											
MANBA	4126	broad.mit.edu	37	chr4	103644044	103644044	+	Missense_Mutation	SNP	A	G	G	1	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	ttaccttccgaacaaagttgAcatggcattcacccttctgc	10	12	6	13	1	2	1	1	1	1	0	3	2	3	1	3	1	3	2	3	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:103644044A>G	uc003hwg.2	-	4	633	c.533T>C	c.(532-534)GTC>GCC	p.V178A	MANBA_uc011ces.1_Intron	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor	178					carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		AACAAAGTTGACATGGCATTC	0.502													28	53					0	0	0.013726	0	0		G	103644044	G	G	103644044	3	3	212	1	0	0	0	0	1	0	0	0	9237	275	10	3	2162	3	MANBA	4	103644044	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	12787030	103644044	87510232	416	104221											
CFI	3426	broad.mit.edu	37	chr4	110667481	110667481	+	Frame_Shift_Del	DEL	T	-	-																															gaacgaggcagctcacaatcTtttttgtttccgtctttttt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:110667481delT	uc003hzr.3	-	11	1534	c.1326delA	c.(1324-1326)AAAfs	p.K442fs	CFI_uc003hzq.2_Frame_Shift_Del_p.K239fs|CFI_uc011cft.1_Frame_Shift_Del_p.K450fs|CFI_uc003hzs.3_Frame_Shift_Del_p.K435fs	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	442	Peptidase S1.				complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		GCTCACAATCTTTTTTGTTTC	0.418													18	36	---	---	---	---						.	-	110667481	-	-	110667481	7	5	212	1	0	1	0	1	0	0	0	0	3292	1606	56	0	437	0	CFI	4	110667481	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	7023437	110667481	80486795	417	104222											
TIFA	92610	broad.mit.edu	37	chr4	113199100	113199100	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgccatactccggtatgggcCtgtgtggtggccagttgttt	4	14	14	9	1	0	0	0	0	0	0	1	0	1	0	4	4	2	3	4	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:113199100C>A	uc003ial.2	-	2	755	c.473G>T	c.(472-474)AGG>ATG	p.R158M		NM_052864	NP_443096	Q96CG3	TIFA_HUMAN	TRAF-interacting protein with a	158							protein binding			breast(1)	1		Ovarian(17;0.0443)|Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.00172)		CGGTATGGGCCTGTGTGGTGG	0.438													9	20					2.74318e-10	2.98546e-10	0.006214	1	0		A	113199100	A	A	113199100	3	1	212	1	0	0	0	0	1	0	0	0	15919	681	24	5	85	5	TIFA	4	113199100	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2531619	113199100	77955176	418	104223											
NDST3	9348	broad.mit.edu	37	chr4	119145777	119145777	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actctgcctccagtacaactGgcccacaagtattttgagct	10	11	7	13	0	1	1	0	1	1	0	2	1	2	1	3	1	4	3	3	1	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:119145777G>T	uc003ibx.2	+	7	2074	c.1671G>T	c.(1669-1671)CTG>CTT	p.L557L	NDST3_uc011cgf.1_Silent_p.L476L	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	557	Lumenal (Potential).|Heparan sulfate N-deacetylase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						CAGTACAACTGGCCCACAAGT	0.408													17	29					7.05477e-17	8.07012e-17	0.00499	1	0		T	119145777	T	T	119145777	2	4	212	1	0	0	0	0	0	0	0	1	10276	1335	47	5		5	NDST3	4	119145777	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5946677	119145777	72008499	419	104224											
SYNPO2	171024	broad.mit.edu	37	chr4	119810241	119810241	+	Frame_Shift_Del	DEL	G	-	-																															catgactggaggggcgccctGggggttcagattgcaaggtg																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:119810241delG	uc003icm.3	+	1	246	c.50delG	c.(49-51)TGGfs	p.W17fs	SYNPO2_uc010ina.2_Frame_Shift_Del_p.W17fs|SYNPO2_uc010inb.2_Frame_Shift_Del_p.W17fs|SYNPO2_uc011cgh.1_Frame_Shift_Del_p.W17fs	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	17	PDZ.					nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						GGGGCGCCCTGGGGGTTCAGA	0.527													25	51	---	---	---	---						.	-	119810241	-	-	119810241	7	5	212	1	0	1	0	1	0	0	0	0	15482	1357	47	0	52	0	SYNPO2	4	119810241	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	664464	119810241	71344035	420	104225											
USP53	54532	broad.mit.edu	37	chr4	120161049	120161049	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagctgctttcttaatagCgctgtacaggtgagaccata	12	11	9	9	1	1	1	0	1	1	1	1	2	1	1	1	1	5	4	1	1	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:120161049C>T	uc003ics.3	+	4	1201	c.135C>T	c.(133-135)AGC>AGT	p.S45S	USP53_uc003icr.3_Silent_p.S45S|USP53_uc003icu.3_5'UTR	NM_019050	NP_061923	Q70EK8	UBP53_HUMAN	ubiquitin specific protease 53	45					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			ovary(1)|breast(1)|kidney(1)|skin(1)	4						TTCTTAATAGCGCTGTACAGG	0.333													11	18					0	0	0.008291	0	0		T	120161049	T	T	120161049	2	4	212	1	0	0	0	0	0	0	0	1	17110	767	27	1		1	USP53	4	120161049	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	350808	120161049	70993227	421	104226											
MAD2L1	4085	broad.mit.edu	37	chr4	120987858	120987858	+	Missense_Mutation	SNP	A	T	T	1	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	cggcgctcccgcgcagggtgAttccctgctcccgggagagc	4	6	15	16	5	0	2	0	1	0	1	3	3	3	2	3	3	2	3	3	3	0	1	rs11542099		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:120987858A>T	uc003idl.2	-	1	156	c.32T>A	c.(31-33)ATC>AAC	p.I11N	MAD2L1_uc003idm.2_Missense_Mutation_p.I11N	NM_002358	NP_002349	Q13257	MD2L1_HUMAN	MAD2-like 1	11					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|negative regulation of apoptosis|negative regulation of mitotic anaphase-promoting complex activity|positive regulation of mitotic cell cycle spindle assembly checkpoint	condensed chromosome kinetochore|cytosol|nucleus|perinuclear region of cytoplasm	protein homodimerization activity				0						GCGCAGGGTGATTCCCTGCTC	0.627													15	20					0	0	0.00499	0	0		T	120987858	T	T	120987858	3	4	212	1	0	0	0	0	1	0	0	0	9166	333	12	5	605	5	MAD2L1	4	120987858	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	826809	120987858	70166418	422	104227											
FAT4	79633	broad.mit.edu	37	chr4	126242670	126242670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttctggaccgggagcaaggaGcatgtctttacctggtggat	8	11	14	8	1	2	0	0	0	2	0	2	4	2	4	2	5	3	2	2	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:126242670G>A	uc003ifj.3	+	1	5104	c.5104G>A	c.(5104-5106)GCA>ACA	p.A1702T		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	1702	Cadherin 16.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						GGAGCAAGGAGCATGTCTTTA	0.413													21	41					0	0	0.008871	0	0		A	126242670	A	A	126242670	3	1	212	1	0	0	0	0	1	0	0	0	5706	971	34	2	5106	2	FAT4	4	126242670	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5254812	126242670	64911606	423	104228											
FAT4	79633	broad.mit.edu	37	chr4	126412700	126412700	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctgtgggcacccaggcagCagcaccaggcactgctgaca	10	4	12	15	0	0	1	0	1	0	0	0	1	0	1	3	3	3	6	3	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:126412700C>A	uc003ifj.3	+	17	14723	c.14723C>A	c.(14722-14724)GCA>GAA	p.A4908E	FAT4_uc011cgp.1_Missense_Mutation_p.A3149E|FAT4_uc003ifi.1_Missense_Mutation_p.A2385E	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	4908	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						ACCCAGGCAGCAGCACCAGGC	0.572													17	24					0.000566183	0.000581383	0.00499	1	0		A	126412700	A	A	126412700	3	1	212	1	0	0	0	0	1	0	0	0	5706	710	25	5	14789	5	FAT4	4	126412700	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	170030	126412700	64741576	424	104229											
SCLT1	132320	broad.mit.edu	37	chr4	129864248	129864248	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttgctgaagttttagccttTgttcactgacaagcccacag	9	13	8	11	0	1	2	1	2	0	0	1	2	1	2	2	0	3	3	2	0	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:129864248T>C	uc003igp.2	-	17	2041	c.1535A>G	c.(1534-1536)CAA>CGA	p.Q512R	SCLT1_uc003ign.2_Missense_Mutation_p.Q176R|SCLT1_uc003igo.2_Missense_Mutation_p.Q122R|SCLT1_uc003igq.2_Intron|SCLT1_uc010iob.1_Intron	NM_144643	NP_653244	Q96NL6	SCLT1_HUMAN	sodium channel associated protein 1	512	Potential.					centrosome				ovary(3)|lung(1)|central_nervous_system(1)	5						TTTTAGCCTTTGTTCACTGAC	0.388													9	47					0	0	0.008291	0	0		C	129864248	C	C	129864248	3	2	212	1	0	0	0	0	1	0	0	0	13931	1812	63	3	551	3	SCLT1	4	129864248	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3451548	129864248	61290028	425	104230											
OTUD4	54726	broad.mit.edu	37	chr4	146059018	146059018	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	caggcacagtttctctctctCtgtttagaatctgagtggga	8	14	10	9	0	4	2	0	1	4	1	6	3	4	3	0	2	0	3	0	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:146059018C>G	uc003ika.3	-	21	2852	c.2714G>C	c.(2713-2715)AGA>ACA	p.R905T	OTUD4_uc003ijz.3_Missense_Mutation_p.R904T	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3	969							protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					TTCTCTCTCTCTGTTTAGAAT	0.448													8	112					0	0	0.004482	0	0		G	146059018	G	G	146059018	3	3	212	1	0	0	0	0	1	0	0	0	11333	913	32	5	439	5	OTUD4	4	146059018	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	16194770	146059018	45095258	426	104231											
NR3C2	4306	broad.mit.edu	37	chr4	149356865	149356865	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagtcacaccatttgagatgGcactctctacttcctcagtc	9	12	6	14	0	3	1	2	1	1	1	6	2	4	1	2	1	1	1	2	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:149356865G>A	uc003ilj.3	-	2	1482	c.1148C>T	c.(1147-1149)GCC>GTC	p.A383V	NR3C2_uc003ilk.3_Missense_Mutation_p.A383V|NR3C2_uc010iph.2_RNA	NM_000901	NP_000892	P08235	MCR_HUMAN	nuclear receptor subfamily 3, group C, member 2	383	Modulating.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	endoplasmic reticulum membrane|nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			large_intestine(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0614)	Desoxycorticosterone Pivalate(DB01134)|Eplerenone(DB00700)|Fludrocortisone(DB00687)|Spironolactone(DB00421)	ATTTGAGATGGCACTCTCTAC	0.478													23	46					0	0	0.00278	0	0		A	149356865	A	A	149356865	3	1	212	1	0	0	0	0	1	0	0	0	10650	1203	42	2	1838	2	NR3C2	4	149356865	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3297847	149356865	41797411	427	104232											
MAB21L2	10586	broad.mit.edu	37	chr4	151504618	151504618	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggacaagtgcagctatcGggatgtggtcaagatgatcg	10	9	16	6	2	1	2	1	1	0	1	3	4	1	4	0	4	2	2	0	4	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:151504618G>T	uc003ilw.2	+	1	1542	c.437G>T	c.(436-438)CGG>CTG	p.R146L	LRBA_uc003ils.3_5'Flank|LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron|LRBA_uc010ipj.2_Intron	NM_006439	NP_006430	Q9Y586	MB212_HUMAN	mab-21-like protein 2	146					nervous system development	nucleus				ovary(1)	1	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.159)		TGCAGCTATCGGGATGTGGTC	0.602													37	68					5.43694e-19	6.27024e-19	0.005524	1	0		T	151504618	T	T	151504618	3	4	212	1	0	0	0	0	1	0	0	0	9160	1116	39	5	439	5	MAB21L2	4	151504618	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2147753	151504618	39649658	428	104233											
MND1	84057	broad.mit.edu	37	chr4	154335996	154335996	+	Missense_Mutation	SNP	A	G	G	1	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	tggaattccagaagactttgActacatagactaaaatattc	16	12	6	7	0	0	4	0	1	0	3	2	5	1	5	1	1	1	0	1	1	7	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:154335996A>G	uc003ink.1	+	8	694	c.605A>G	c.(604-606)GAC>GGC	p.D202G		NM_032117	NP_115493	Q9BWT6	MND1_HUMAN	GAJ protein	202					DNA recombination|meiosis	nucleus	DNA binding				0	all_hematologic(180;0.093)					GAAGACTTTGACTACATAGAC	0.289													3	34					0	0	0.004672	0	0		G	154335996	G	G	154335996	3	3	212	1	0	0	0	0	1	0	0	0	9693	275	10	3	635	3	MND1	4	154335996	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2831378	154335996	36818280	429	104234											
FGA	2243	broad.mit.edu	37	chr4	155505924	155505924	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcttactggatcccggtagCttgatattgaaaatgccact	11	13	8	9	1	1	2	0	2	1	0	2	3	2	3	2	2	3	2	2	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:155505924C>A	uc003iod.1	-	6	2011	c.1953G>T	c.(1951-1953)AAG>AAT	p.K651N		NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	651	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	ATCCCGGTAGCTTGATATTGA	0.393													18	35					8.34094e-07	8.8214e-07	0.008871	1	0		A	155505924	A	A	155505924	3	1	212	1	0	0	0	0	1	0	0	0	5844	796	28	5	651	5	FGA	4	155505924	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1169928	155505924	35648352	430	104235											
RBM46	166863	broad.mit.edu	37	chr4	155720283	155720283	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatcttaatggtcagatTagtccaaattctgaaaatct	14	13	6	8	0	4	2	1	1	3	1	5	2	5	2	1	1	1	1	1	1	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:155720283T>C	uc003ioo.2	+	4	1142	c.969T>C	c.(967-969)ATT>ATC	p.I323I	RBM46_uc011cim.1_Silent_p.I323I|RBM46_uc003iop.1_Silent_p.I323I	NM_144979	NP_659416	Q8TBY0	RBM46_HUMAN	RNA binding motif protein 46	323							nucleotide binding|RNA binding			central_nervous_system(1)|skin(1)	2	all_hematologic(180;0.24)	Renal(120;0.0854)				ATGGTCAGATTAGTCCAAATT	0.393													20	16					0	0	0.007413	0	0		C	155720283	C	C	155720283	2	2	212	1	0	0	0	0	0	0	0	1	13165	1742	61	3		3	RBM46	4	155720283	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	214359	155720283	35433993	431	104236											
GLRB	2743	broad.mit.edu	37	chr4	158057767	158057767	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttattttttgcaaatgaAaaaagtgccaattttcatga	15	16	6	4	0	1	2	1	2	0	0	1	3	1	2	1	0	2	1	1	0	6	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:158057767A>C	uc003ipj.2	+	5	646	c.444A>C	c.(442-444)GAA>GAC	p.E148D		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	148	Extracellular (Probable).				nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	TTGCAAATGAAAAAAGTGCCA	0.393													32	66					0	0	0.003755	0	0		C	158057767	C	C	158057767	3	2	212	1	0	0	0	0	1	0	0	0	6473	11	1	5	458	5	GLRB	4	158057767	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2337484	158057767	33096509	432	104237											
CPE	1363	broad.mit.edu	37	chr4	166300498	166300498	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcatgaggcggcgccggcGgctgcagcaagaggacggca	8	2	20	11	5	0	2	0	1	0	1	0	3	0	3	1	7	2	5	1	7	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:166300498G>A	uc003irg.3	+	1	402	c.125G>A	c.(124-126)CGG>CAG	p.R42Q		NM_001873	NP_001864	P16870	CBPE_HUMAN	carboxypeptidase E preproprotein	42					cardiac left ventricle morphogenesis|neuropeptide signaling pathway|protein modification process	extracellular region|nucleus|plasma membrane	metallocarboxypeptidase activity|protein binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3	all_hematologic(180;0.221)	Prostate(90;0.0962)|Melanoma(52;0.18)		GBM - Glioblastoma multiforme(119;0.137)	Glucagon recombinant(DB00040)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CGGCGCCGGCGGCTGCAGCAA	0.632													4	7					0	0	0.001984	0	0		A	166300498	A	A	166300498	3	1	212	1	0	0	0	0	1	0	0	0	3802	1116	39	1	127	1	CPE	4	166300498	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8242731	166300498	24853778	433	104238											
SH3RF1	57630	broad.mit.edu	37	chr4	170043298	170043298	+	Silent	SNP	T	C	C	0	1	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	tgtgcaatctggtcagtggaTcctgccatgggcctcggtcc	5	11	13	12	1	2	0	1	0	1	0	5	1	4	1	4	4	2	1	4	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:170043298T>C	uc003isa.1	-	7	1634	c.1299A>G	c.(1297-1299)GGA>GGG	p.G433G	SH3RF1_uc010irc.1_Silent_p.G133G	NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	433						Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		GGTCAGTGGATCCTGCCATGG	0.592													5	49					0	0	0.001168	0	0		C	170043298	C	C	170043298	2	2	212	1	0	0	0	0	0	0	0	1	14283	1422	50	3		3	SH3RF1	4	170043298	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3742800	170043298	21110978	434	104239											
GLRA3	8001	broad.mit.edu	37	chr4	175598420	175598420	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgtcgctccagatggaatcGcacttctatacacgtaaact	11	12	7	11	3	1	1	0	0	1	1	4	2	2	2	1	1	2	3	1	1	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:175598420G>A	uc003ity.1	-	7	1239	c.736C>T	c.(736-738)CGA>TGA	p.R246*	GLRA3_uc003itz.1_Nonsense_Mutation_p.R246*	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	246	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	AGATGGAATCGCACTTCTATA	0.368													11	17					0	0	0.013537	0	0		A	175598420	A	A	175598420	4	1	212	1	0	0	0	0	0	1	0	0	6471	1095	38	1	674	1	GLRA3	4	175598420	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5555122	175598420	15555856	435	104240											
ODZ3	55714	broad.mit.edu	37	chr4	183675596	183675596	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatggataactccatttatgTcctggataataatgtagttt	12	17	7	5	0	0	0	0	0	0	0	2	2	2	2	2	2	1	2	2	2	6	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:183675596T>C	uc003ivd.1	+	21	4113	c.4076T>C	c.(4075-4077)GTC>GCC	p.V1359A	ODZ3_uc003ive.1_Missense_Mutation_p.V772A	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1359	Extracellular (Potential).|NHL 3.				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TCCATTTATGTCCTGGATAAT	0.438													5	4					0	0	0.000602	0	0		C	183675596	C	C	183675596	3	2	212	1	0	0	0	0	1	0	0	0	10855	1667	58	3	4158	3	ODZ3	4	183675596	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	8077176	183675596	7478680	436	104241											
ODZ3	55714	broad.mit.edu	37	chr4	183714994	183714994	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgtacatgtttaggaataAcaaccctgcaagcaaaatcc	15	10	6	10	0	0	0	0	0	0	0	1	1	1	1	2	1	5	4	2	1	8	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:183714994A>G	uc003ivd.1	+	25	7206	c.7169A>G	c.(7168-7170)AAC>AGC	p.N2390S		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	2390	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		TTTAGGAATAACAACCCTGCA	0.408													5	21					0	0	0.000602	0	0		G	183714994	G	G	183714994	3	3	212	1	0	0	0	0	1	0	0	0	10855	43	2	3	7267	3	ODZ3	4	183714994	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	39398	183714994	7439282	437	104242											
ENPP6	133121	broad.mit.edu	37	chr4	185018425	185018425	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggccaggaagatgccccGcatgtccatgagctcgttgt	9	8	13	11	2	0	2	0	1	0	1	2	4	1	3	4	2	2	3	4	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:185018425G>A	uc003iwc.2	-	7	1232	c.1090C>T	c.(1090-1092)CGG>TGG	p.R364W		NM_153343	NP_699174	Q6UWR7	ENPP6_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	364	Extracellular (Potential).				lipid catabolic process	extracellular region|integral to membrane|plasma membrane				central_nervous_system(1)	1		all_lung(41;7.99e-12)|Lung NSC(41;1.46e-11)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;4.98e-27)|Epithelial(43;3.15e-24)|OV - Ovarian serous cystadenocarcinoma(60;4.09e-12)|Colorectal(24;3.78e-05)|STAD - Stomach adenocarcinoma(60;4.5e-05)|COAD - Colon adenocarcinoma(29;0.000154)|GBM - Glioblastoma multiforme(59;0.000167)|BRCA - Breast invasive adenocarcinoma(30;0.000378)|LUSC - Lung squamous cell carcinoma(40;0.0151)		AAGATGCCCCGCATGTCCATG	0.587													21	38					0	0	0.012319	0	0		A	185018425	A	A	185018425	3	1	212	1	0	0	0	0	1	0	0	0	5142	1086	38	1	240	1	ENPP6	4	185018425	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1303431	185018425	6135851	438	104243											
FAM149A	25854	broad.mit.edu	37	chr4	187086608	187086608	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tacagcagttcctggatgccGccttgtttctgtaagacaga	9	12	10	10	1	1	2	0	0	1	2	2	3	2	3	3	1	3	4	3	1	2	5	rs139840598	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:187086608G>A	uc003iyt.3	+	11	1733	c.1154G>A	c.(1153-1155)CGC>CAC	p.R385H	FAM149A_uc011cla.1_Missense_Mutation_p.R385H|FAM149A_uc003iyu.3_Missense_Mutation_p.R385H|FAM149A_uc010isl.2_Missense_Mutation_p.R385H|FAM149A_uc011clb.1_Missense_Mutation_p.R385H	NM_015398	NP_056213	A5PLN7	F149A_HUMAN	hypothetical protein LOC25854	676										breast(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;7.69e-39)|all_lung(41;1.34e-13)|Lung NSC(41;3.58e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.0066)|Hepatocellular(41;0.00886)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.243)		OV - Ovarian serous cystadenocarcinoma(60;1.19e-10)|BRCA - Breast invasive adenocarcinoma(30;1.22e-05)|GBM - Glioblastoma multiforme(59;0.000122)|STAD - Stomach adenocarcinoma(60;0.000288)|LUSC - Lung squamous cell carcinoma(40;0.00241)|READ - Rectum adenocarcinoma(43;0.166)		CCTGGATGCCGCCTTGTTTCT	0.483													15	25					0	0	0.003163	0	0		A	187086608	A	A	187086608	3	1	212	1	0	0	0	0	1	0	0	0	5466	1087	38	1	1184	1	FAM149A	4	187086608	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2068183	187086608	4067668	439	104244											
FAT1	2195	broad.mit.edu	37	chr4	187519138	187519138	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acacatacctctgaccagtaTataatcctctacactggcaa	14	10	4	13	0	2	1	0	1	2	0	3	1	3	1	3	1	2	2	3	1	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:187519138T>C	uc003izf.2	-	23	12433	c.12245A>G	c.(12244-12246)TAT>TGT	p.Y4082C	FAT1_uc010isn.2_5'Flank|FAT1_uc003ize.2_5'Flank	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	4082	Extracellular (Potential).|EGF-like 3.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						CTGACCAGTATATAATCCTCT	0.388										HNSCC(5;0.00058)			6	51					0	0	0.001168	0	0		C	187519138	C	C	187519138	3	2	212	1	0	0	0	0	1	0	0	0	5703	1406	49	3	1541	3	FAT1	4	187519138	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	432530	187519138	3635138	440	104245											
ZFP42	132625	broad.mit.edu	37	chr4	188924698	188924698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactggagagaagccgtttcGgtgcacttttgaagggtgcg	8	11	15	7	3	0	2	0	1	0	1	1	4	0	3	1	3	4	2	1	3	3	4	rs147517413	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr4:188924698G>A	uc003izg.1	+	3	982	c.737G>A	c.(736-738)CGG>CAG	p.R246Q	ZFP42_uc003izh.1_Missense_Mutation_p.R246Q|ZFP42_uc003izi.1_Missense_Mutation_p.R246Q	NM_174900	NP_777560	Q96MM3	ZFP42_HUMAN	zinc finger protein 42	246	C2H2-type 3.				female gonad development|male gonad development|meiosis	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(14;6.2e-52)|all_epithelial(14;7.36e-37)|all_lung(41;2.29e-15)|Lung NSC(41;6.7e-15)|Breast(6;1.53e-05)|Melanoma(20;3.01e-05)|Hepatocellular(41;0.00335)|all_hematologic(60;0.014)|Renal(120;0.0183)|Prostate(90;0.0421)|Colorectal(36;0.227)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-11)|BRCA - Breast invasive adenocarcinoma(30;4.21e-06)|GBM - Glioblastoma multiforme(59;8.93e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.157)		AAGCCGTTTCGGTGCACTTTT	0.522													7	30					0	0	0.001984	0	0		A	188924698	A	A	188924698	3	1	212	1	0	0	0	0	1	0	0	0	17675	1116	39	1	739	1	ZFP42	4	188924698	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1405560	188924698	2229578	441	104246											
LRRC14B	389257	broad.mit.edu	37	chr5	192310	192310	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcgcaagctggaggtggtGcacaacgtgcggctgcatgc	7	7	16	11	3	0	0	0	0	0	0	0	1	0	1	0	4	7	5	0	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:192310G>A	uc003jal.1	+	1	685	c.657G>A	c.(655-657)GTG>GTA	p.V219V		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	219										skin(1)	1						TGGAGGTGGTGCACAACGTGC	0.706													7	10					0	0	0.001984	0	0		A	192310	A	A	192310	2	1	212	1	0	0	0	0	0	0	0	1	8987	1306	46	2		2	LRRC14B	5	192310	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		192310	180722950	442	104247											
LRRC14B	389257	broad.mit.edu	37	chr5	195302	195302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gatcgccgaggagctgcgtgCcgtgctgctgcgggctgacc	4	7	17	13	5	0	1	0	1	0	0	1	4	0	2	3	2	6	4	3	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:195302C>T	uc003jal.1	+	2	1407	c.1379C>T	c.(1378-1380)GCC>GTC	p.A460V		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	460										skin(1)	1						GAGCTGCGTGCCGTGCTGCTG	0.567													8	170					0	0	0.004482	0	0		T	195302	T	T	195302	3	4	212	1	0	0	0	0	1	0	0	0	8987	739	26	2	1385	2	LRRC14B	5	195302	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2992	195302	180719958	443	104248											
SLC6A3	6531	broad.mit.edu	37	chr5	1416275	1416275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcagcaccccgaaccccacGcccagggagaagcacacctg	12	2	9	18	2	1	1	1	0	0	1	1	3	1	1	6	1	3	2	6	1	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:1416275G>A	uc003jck.2	-	7	1090	c.969C>T	c.(967-969)GGC>GGT	p.G323G		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	323	Helical; Name=6; (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CGAACCCCACGCCCAGGGAGA	0.622													11	66					0	0	0.013537	0	0		A	1416275	A	A	1416275	2	1	212	1	0	0	0	0	0	0	0	1	14710	1074	38	1		1	SLC6A3	5	1416275	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1220973	1416275	179498985	444	104249											
SLC6A3	6531	broad.mit.edu	37	chr5	1432617	1432617	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgtggtcccaaaagtgtcGttgaggcccgagctgtctcc	6	10	14	11	2	1	1	0	1	1	0	4	2	2	1	3	3	1	2	3	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:1432617G>A	uc003jck.2	-	4	736	c.615C>T	c.(613-615)AAC>AAT	p.N205N		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	205	Extracellular (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CAAAAGTGTCGTTGAGGCCCG	0.617													13	52					0	0	0.00245	0	0		A	1432617	A	A	1432617	2	1	212	1	0	0	0	0	0	0	0	1	14710	1136	40	1		1	SLC6A3	5	1432617	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	16342	1432617	179482643	445	104250											
C5orf38	153571	broad.mit.edu	37	chr5	2753429	2753429	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagttgcaaactgcagtgCtgtgcttgaggatggctcct	8	11	12	10	0	0	1	0	1	0	0	1	2	1	2	2	2	5	6	2	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:2753429C>A	uc003jdc.2	+	3	481	c.364C>A	c.(364-366)CTG>ATG	p.L122M	C5orf38_uc011cmg.1_Missense_Mutation_p.L122M|C5orf38_uc011cmh.1_RNA|C5orf38_uc011cmi.1_RNA|C5orf38_uc011cmj.1_Intron	NM_178569	NP_848664	Q86SI9	CEI_HUMAN	hypothetical protein LOC153571 precursor	122						extracellular region					0				GBM - Glioblastoma multiforme(108;0.205)		AACTGCAGTGCTGTGCTTGAG	0.657													37	162					2.24722e-20	2.60309e-20	0.01441	1	0		A	2753429	A	A	2753429	3	1	212	1	0	0	0	0	1	0	0	0	2299	796	28	5	374	5	C5orf38	5	2753429	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1320812	2753429	178161831	446	104251											
NSUN2	54888	broad.mit.edu	37	chr5	6602599	6602599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atctggttcatacttcagcaCgatgcttccctttgctggaa	8	14	8	11	1	3	0	2	0	1	0	4	2	4	1	1	2	4	4	1	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:6602599C>T	uc003jdu.2	-	18	2037	c.1972G>A	c.(1972-1974)GTG>ATG	p.V658M	NSUN2_uc003jds.2_Missense_Mutation_p.V104M|NSUN2_uc003jdt.2_Missense_Mutation_p.V422M|NSUN2_uc011cmk.1_Missense_Mutation_p.V623M|NSUN2_uc003jdv.2_Missense_Mutation_p.V422M	NM_017755	NP_060225	Q08J23	NSUN2_HUMAN	NOL1/NOP2/Sun domain family, member 2	658						cytoplasm|nucleolus	tRNA (cytosine-5-)-methyltransferase activity|tRNA binding			ovary(1)	1						TACTTCAGCACGATGCTTCCC	0.483													73	199					0	0	0.01441	0	0		T	6602599	T	T	6602599	3	4	212	1	0	0	0	0	1	0	0	0	10697	536	19	1	339	1	NSUN2	5	6602599	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3849170	6602599	174312661	447	104252											
TRIO	7204	broad.mit.edu	37	chr5	14462945	14462945	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagctgtggagaagaggaaGgcgaggagggggccgacgcc	11	2	21	7	3	0	3	0	0	0	3	0	8	0	5	2	6	1	1	2	6	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:14462945G>T	uc003jff.2	+	36	5584	c.5578G>T	c.(5578-5580)GGC>TGC	p.G1860C	TRIO_uc003jfg.2_RNA|TRIO_uc003jfh.1_Missense_Mutation_p.G1509C|TRIO_uc003jfi.1_Missense_Mutation_p.G163C	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	1860					apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					AGAAGAGGAAGGCGAGGAGGG	0.622													31	70					2.08457e-15	2.36689e-15	0.010818	1	0		T	14462945	T	T	14462945	3	4	212	1	0	0	0	0	1	0	0	0	16578	1000	35	5	5720	5	TRIO	5	14462945	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	7860346	14462945	166452315	448	104253											
CDH6	1004	broad.mit.edu	37	chr5	31323340	31323340	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagatcaagactatgattaCcttagtgactggggacctcg	11	10	11	9	1	1	4	1	2	0	2	2	5	1	5	2	2	1	1	2	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:31323340C>T	uc003jhe.1	+	12	2624	c.2298C>T	c.(2296-2298)TAC>TAT	p.Y766Y		NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein	766	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						ACTATGATTACCTTAGTGACT	0.488													30	68					0	0	0.010818	0	0		T	31323340	T	T	31323340	2	4	212	1	0	0	0	0	0	0	0	1	3117	518	18	4		4	CDH6	5	31323340	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	16860395	31323340	149591920	449	104254											
PDZD2	23037	broad.mit.edu	37	chr5	32074219	32074219	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtcagaggatgacccgaggCgtgtctcaatttcctcttcc	7	12	10	12	2	3	2	2	1	2	1	6	4	5	3	3	2	0	0	3	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:32074219C>T	uc003jhl.2	+	18	3395	c.3007C>T	c.(3007-3009)CGT>TGT	p.R1003C	PDZD2_uc003jhm.2_Missense_Mutation_p.R1003C|PDZD2_uc011cnx.1_Missense_Mutation_p.R829C	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	1003					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						TGACCCGAGGCGTGTCTCAAT	0.577													25	66					0	0	0.00333	0	0		T	32074219	T	T	32074219	3	4	212	1	0	0	0	0	1	0	0	0	11720	768	27	1	3073	1	PDZD2	5	32074219	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	750879	32074219	148841041	450	104255											
PDZD2	23037	broad.mit.edu	37	chr5	32091085	32091085	+	Missense_Mutation	SNP	A	G	G	1	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	ggccgagcgccgtgctcttcAaaactgagctggagatcacc	9	7	12	13	3	3	2	2	1	1	1	3	4	3	2	3	2	4	2	3	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:32091085A>G	uc003jhl.2	+	20	7919	c.7531A>G	c.(7531-7533)AAA>GAA	p.K2511E	PDZD2_uc003jhm.2_Missense_Mutation_p.K2511E	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2511					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CGTGCTCTTCAAAACTGAGCT	0.627													4	77					0	0	0.009096	0	0		G	32091085	G	G	32091085	3	3	212	1	0	0	0	0	1	0	0	0	11720	131	5	3	7605	3	PDZD2	5	32091085	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	16866	32091085	148824175	451	104256											
ADAMTS12	81792	broad.mit.edu	37	chr5	33535021	33535021	+	Missense_Mutation	SNP	T	C	C	0	1	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	cacatagacattggtcttggTcttcagttttattgccctct	7	17	7	10	0	4	1	1	0	3	1	4	1	4	1	1	2	1	1	1	2	2	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:33535021T>C	uc003jia.1	-	23	4686	c.4523A>G	c.(4522-4524)GAC>GGC	p.D1508G	ADAMTS12_uc010iuq.1_Missense_Mutation_p.D1423G	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1508	TSP type-1 8.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TTGGTCTTGGTCTTCAGTTTT	0.483										HNSCC(64;0.19)			19	26					0	0	0.007413	0	0		C	33535021	C	C	33535021	3	2	212	1	0	0	0	0	1	0	0	0	257	1667	58	3	269	3	ADAMTS12	5	33535021	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1443936	33535021	147380239	452	104257											
ADAMTS12	81792	broad.mit.edu	37	chr5	33576948	33576948	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgccactgtttcccacccagGtctccttctttggaggctgt	4	14	9	14	0	2	0	0	0	2	0	4	1	3	1	4	3	1	2	4	3	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:33576948G>A	uc003jia.1	-	19	3346	c.3183C>T	c.(3181-3183)GAC>GAT	p.D1061D	ADAMTS12_uc010iuq.1_Silent_p.D976D	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1061	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						TCCCACCCAGGTCTCCTTCTT	0.562										HNSCC(64;0.19)			12	41					0	0	0.00245	0	0		A	33576948	A	A	33576948	2	1	212	1	0	0	0	0	0	0	0	1	257	1252	44	4		4	ADAMTS12	5	33576948	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	41927	33576948	147338312	453	104258											
ADAMTS12	81792	broad.mit.edu	37	chr5	33614468	33614468	+	Missense_Mutation	SNP	A	C	C	1	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	acttgatgccagggttagtcAcctggaatagaagctaaaag	14	9	11	7	0	1	2	1	1	0	1	1	3	1	3	2	2	2	2	2	2	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:33614468A>C	uc003jia.1	-	16	2565	c.2402T>G	c.(2401-2403)GTG>GGG	p.V801G	ADAMTS12_uc010iuq.1_Missense_Mutation_p.V716G	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	801	Spacer 1.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						AGGGTTAGTCACCTGGAATAG	0.438										HNSCC(64;0.19)			12	26					0	0	0.00245	0	0		C	33614468	C	C	33614468	3	2	212	1	0	0	0	0	1	0	0	0	257	159	6	5	2418	5	ADAMTS12	5	33614468	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	37520	33614468	147300792	454	104259											
ADAMTS12	81792	broad.mit.edu	37	chr5	33649727	33649727	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggagtgggatcgtactggagCtggcgggacatgatgtacgg	8	8	19	6	3	0	1	0	1	0	0	1	5	0	5	0	6	3	3	0	6	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:33649727C>A	uc003jia.1	-	8	1429	c.1266G>T	c.(1264-1266)CAG>CAT	p.Q422H	ADAMTS12_uc010iuq.1_Missense_Mutation_p.Q422H	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	422	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CGTACTGGAGCTGGCGGGACA	0.552										HNSCC(64;0.19)			26	40					1.2476e-16	1.42538e-16	0.00632	1	0		A	33649727	A	A	33649727	3	1	212	1	0	0	0	0	1	0	0	0	257	796	28	5	3586	5	ADAMTS12	5	33649727	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	35259	33649727	147265533	455	104260											
C5orf42	65250	broad.mit.edu	37	chr5	37142580	37142580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atccatatgggtcaaaaaacGcactaatccagagtatatat	17	10	6	8	1	1	1	1	0	0	1	3	1	3	1	2	1	1	2	2	1	8	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:37142580G>A	uc011cpa.1	-	43	8533	c.8302C>T	c.(8302-8304)CGT>TGT	p.R2768C	C5orf42_uc003jkp.1_RNA|C5orf42_uc011coy.1_Missense_Mutation_p.R1286C|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.R1861C	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2768										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			GTCAAAAAACGCACTAATCCA	0.333													6	34					0	0	0.001168	0	0		A	37142580	A	A	37142580	3	1	212	1	0	0	0	0	1	0	0	0	2304	1087	38	1	1331	1	C5orf42	5	37142580	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3492853	37142580	143772680	456	104261											
C9	735	broad.mit.edu	37	chr5	39341801	39341801	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcaatgcttcttgaacgaAactgcacaatatcagttgga	13	11	7	10	1	3	1	2	1	1	0	3	3	3	2	1	1	4	3	1	1	5	4	rs140251849		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:39341801A>T	uc003jlv.3	-	3	274	c.185T>A	c.(184-186)TTT>TAT	p.F62Y		NM_001737	NP_001728	P02748	CO9_HUMAN	complement component 9 precursor	62	TSP type-1.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis|hemolysis by symbiont of host erythrocytes	extracellular region|membrane attack complex					0	all_lung(31;0.000197)	all_neural(839;7.57e-10)|Lung NSC(810;2.62e-08)|Ovarian(839;0.00384)|Breast(839;0.0184)|Myeloproliferative disorder(839;0.0511)	Epithelial(62;0.158)			TCTTGAACGAAACTGCACAAT	0.433													10	31					0	0	0.008291	0	0		T	39341801	T	T	39341801	3	4	212	1	0	0	0	0	1	0	0	0	2446	28	1	5	1530	5	C9	5	39341801	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2199221	39341801	141573459	457	104262											
HEATR7B2	133558	broad.mit.edu	37	chr5	41070947	41070947	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatggattcctctgtactaAgtgtcatgtcttggctgttt	6	18	9	8	0	3	0	1	0	2	0	4	1	4	1	1	2	1	3	1	2	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:41070947A>C	uc003jmj.3	-	1	498	c.8T>G	c.(7-9)CTT>CGT	p.L3R		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	3							binding			ovary(6)|central_nervous_system(2)	8						CTCTGTACTAAGTGTCATGTC	0.398													5	14					0	0	0.000602	0	0		C	41070947	C	C	41070947	3	2	212	1	0	0	0	0	1	0	0	0	7051	72	3	5	4917	5	HEATR7B2	5	41070947	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1729146	41070947	139844313	458	104263											
C6	729	broad.mit.edu	37	chr5	41176626	41176626	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatagagaaggtcatacacGcctcccagggagccagaggt	12	6	13	10	1	1	3	1	1	0	2	2	5	2	4	3	3	2	0	3	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:41176626G>A	uc003jmk.2	-	8	1329	c.1119C>T	c.(1117-1119)GGC>GGT	p.G373G	C6_uc003jml.1_Silent_p.G373G	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	373	MACPF.				complement activation, classical pathway|cytolysis|innate immune response	membrane attack complex	protein binding			ovary(3)|central_nervous_system(2)|skin(2)	7		Breast(839;1.07e-05)|Ovarian(839;0.0228)|Lung SC(612;0.0548)|Lung NSC(810;0.128)|all_neural(839;0.157)				GGTCATACACGCCTCCCAGGG	0.428													20	49					0	0	0.012319	0	0		A	41176626	A	A	41176626	2	1	212	1	0	0	0	0	0	0	0	1	2318	1074	38	1		1	C6	5	41176626	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	105679	41176626	139738634	459	104264											
ISL1	3670	broad.mit.edu	37	chr5	50679529	50679529	+	Frame_Shift_Del	DEL	A	-	-																															ggagacatgggagatccaccAaaaagtaagaggctatttta																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:50679529delA	uc003jor.2	+	1	572	c.24delA	c.(22-24)CCAfs	p.P8fs	uc003joq.1_5'Flank	NM_002202	NP_002193	P61371	ISL1_HUMAN	islet-1	8					generation of precursor metabolites and energy|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3		Lung NSC(810;0.000845)|Breast(144;0.0411)				GAGATCCACCAAAAAGTAAGA	0.512													17	31	---	---	---	---						.	-	50679529	-	-	50679529	7	5	212	1	0	1	0	1	0	0	0	0	7872	117	5	0	26	0	ISL1	5	50679529	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	9502903	50679529	130235731	460	104265											
PIK3R1	5295	broad.mit.edu	37	chr5	67569823	67569823	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccagcaacctggcagaattaCgacagcttcttgattgtggt	10	11	10	10	1	1	2	0	1	1	1	1	3	1	2	2	2	4	3	2	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:67569823C>T	uc003jva.2	+	4	1044	c.484C>T	c.(484-486)CGA>TGA	p.R162*	PIK3R1_uc003jvb.2_Nonsense_Mutation_p.R162*	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	162	Rho-GAP.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(2)|p.R162*(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		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)	Isoproterenol(DB01064)	GGCAGAATTACGACAGCTTCT	0.443			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			31	51					0	0	0.012213	0	0		T	67569823	T	T	67569823	4	4	212	1	0	0	0	0	0	1	0	0	11937	528	19	1	494	1	PIK3R1	5	67569823	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	16890294	67569823	113345437	461	104266											
ZNF366	167465	broad.mit.edu	37	chr5	71756809	71756809	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggggtagtaggggtagggcGtgggcaggaatggagtgggc	7	7	24	3	1	0	0	0	0	0	0	0	2	0	2	0	9	0	4	0	9	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:71756809G>A	uc003kce.1	-	2	701	c.515C>T	c.(514-516)ACG>ATG	p.T172M		NM_152625	NP_689838	Q8N895	ZN366_HUMAN	zinc finger protein 366	172					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2		Lung NSC(167;0.0247)|Ovarian(174;0.0908)|Prostate(461;0.155)		OV - Ovarian serous cystadenocarcinoma(47;2.51e-53)		GGGGTAGGGCGTGGGCAGGAA	0.652													39	77					0	0	0.007835	0	0		A	71756809	A	A	71756809	3	1	212	1	0	0	0	0	1	0	0	0	17895	1145	40	1	1735	1	ZNF366	5	71756809	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4186986	71756809	109158451	462	104267											
THBS4	7060	broad.mit.edu	37	chr5	79331376	79331376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaacatgctggccccgcgcGgagccgccgtcctcctgctg	4	6	12	19	5	0	0	0	0	0	0	2	1	2	1	7	2	4	2	7	2	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:79331376G>A	uc003kgh.2	+	2	339	c.16G>A	c.(16-18)GGA>AGA	p.G6R		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	6					endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		GGCCCCGCGCGGAGCCGCCGT	0.761													3	3					0	0	0.004672	0	0		A	79331376	A	A	79331376	3	1	212	1	0	0	0	0	1	0	0	0	15881	1117	39	1	18	1	THBS4	5	79331376	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	7574567	79331376	101583884	463	104268											
THBS4	7060	broad.mit.edu	37	chr5	79355572	79355572	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaagcacggtggtgcccccGgctccccctgcaccgccaac	6	4	10	21	3	0	0	0	0	0	0	1	0	1	0	7	3	4	3	7	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:79355572G>A	uc003kgh.2	+	8	1154	c.831G>A	c.(829-831)CCG>CCA	p.P277P		NM_003248	NP_003239	P35443	TSP4_HUMAN	thrombospondin 4 precursor	277					endothelial cell-cell adhesion|myoblast migration|negative regulation of angiogenesis|positive regulation of endothelial cell proliferation|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation	basement membrane|extracellular space	calcium ion binding|heparin binding|integrin binding|structural molecule activity				0		Lung NSC(167;0.00328)|all_lung(232;0.00355)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;6.3e-45)|Epithelial(54;1.77e-39)|all cancers(79;3.2e-34)		TGGTGCCCCCGGCTCCCCCTG	0.562													51	88					0	0	0.01441	0	0		A	79355572	A	A	79355572	2	1	212	1	0	0	0	0	0	0	0	1	15881	1103	39	1		1	THBS4	5	79355572	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	24196	79355572	101559688	464	104269											
GPR98	84059	broad.mit.edu	37	chr5	90049480	90049480	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatcagaggttgtgattgtAaccctcacccgtatcaccac	10	12	7	12	1	3	2	3	1	0	1	3	2	3	2	3	1	1	3	3	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:90049480A>G	uc003kju.2	+	54	11307	c.11211A>G	c.(11209-11211)GTA>GTG	p.V3737V	GPR98_uc003kjt.2_Silent_p.V1443V|GPR98_uc003kjv.2_Silent_p.V1337V	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3737	Calx-beta 24.|Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TTGTGATTGTAACCCTCACCC	0.393													16	39					0	0	0.00499	0	0		G	90049480	G	G	90049480	2	3	212	1	0	0	0	0	0	0	0	1	6737	349	13	3		3	GPR98	5	90049480	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	10693908	90049480	90865780	465	104270											
GPR98	84059	broad.mit.edu	37	chr5	90144541	90144541	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttctcttattaacccaaagCgcaaggacactaggggattc	12	10	9	10	1	1	0	0	0	1	0	3	2	1	2	1	3	2	2	1	3	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:90144541C>T	uc003kju.2	+	79	17203	c.17107C>T	c.(17107-17109)CGC>TGC	p.R5703C	GPR98_uc003kjt.2_Missense_Mutation_p.R3409C|GPR98_uc003kjw.2_Missense_Mutation_p.R1364C	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	5703	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		TAACCCAAAGCGCAAGGACAC	0.403													10	22					0	0	0.006214	0	0		T	90144541	T	T	90144541	3	4	212	1	0	0	0	0	1	0	0	0	6737	768	27	1	17421	1	GPR98	5	90144541	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	95061	90144541	90770719	466	104271											
CAST	831	broad.mit.edu	37	chr5	96086328	96086328	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tccagctcctgtgtcggaggCtgtgtgtcggacctccatgt	4	12	13	12	2	0	0	0	0	0	0	5	2	3	2	4	3	1	2	4	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:96086328C>T	uc003klz.1	+	18	1379	c.1217C>T	c.(1216-1218)GCT>GTT	p.A406V	CAST_uc003klt.2_Missense_Mutation_p.A393V|CAST_uc003klu.2_Missense_Mutation_p.A489V|CAST_uc003klv.2_Missense_Mutation_p.A467V|CAST_uc003klw.2_Missense_Mutation_p.A470V|CAST_uc003klx.2_Missense_Mutation_p.A448V|CAST_uc003kly.2_Missense_Mutation_p.A454V|CAST_uc011cuo.1_Missense_Mutation_p.A452V|CAST_uc011cuq.1_Missense_Mutation_p.A254V|CAST_uc011cur.1_Missense_Mutation_p.A392V|CAST_uc011cus.1_Missense_Mutation_p.A393V|CAST_uc003kma.1_Missense_Mutation_p.A365V|CAST_uc011cut.1_Missense_Mutation_p.A334V|CAST_uc003kmb.2_Missense_Mutation_p.A352V|CAST_uc003kmc.2_Missense_Mutation_p.A406V|CAST_uc003kmd.2_Missense_Mutation_p.A384V|CAST_uc003kme.2_Missense_Mutation_p.A365V|CAST_uc003kmf.2_Missense_Mutation_p.A371V|CAST_uc003kmh.2_Missense_Mutation_p.A121V|CAST_uc010jbj.2_Missense_Mutation_p.A121V|CAST_uc010jbk.2_Missense_Mutation_p.A121V|CAST_uc010jbl.1_Missense_Mutation_p.A129V|CAST_uc003kmi.2_RNA|CAST_uc003kmj.2_Missense_Mutation_p.A129V	NM_001042443	NP_001035908	P20810	ICAL_HUMAN	calpastatin isoform i	406							calcium-dependent cysteine-type endopeptidase inhibitor activity|protein binding			central_nervous_system(3)|ovary(1)|kidney(1)	5		all_cancers(142;5.27e-07)|all_epithelial(76;8.21e-10)|all_lung(232;0.000396)|Lung NSC(167;0.000539)|Ovarian(225;0.024)|Colorectal(57;0.0341)|Breast(839;0.244)		all cancers(79;6.85e-15)		GTGTCGGAGGCTGTGTGTCGG	0.488													12	21					0	0	0.00245	0	0		T	96086328	T	T	96086328	3	4	212	1	0	0	0	0	1	0	0	0	2687	797	28	2	1668	2	CAST	5	96086328	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5941787	96086328	84828932	467	104272											
ERAP2	64167	broad.mit.edu	37	chr5	96244664	96244664	+	Splice_Site	SNP	G	A	A	0	0	1	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	gacatttgttttatacttcaGtgcagggagactgaccctag	10	13	10	8	0	1	2	1	1	0	1	1	4	1	2	1	1	2	2	1	1	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:96244664G>A	uc003kmq.2	+	14	2723	c.2013_splice	c.e14-1	p.G671_splice	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Splice_Site_p.G671_splice|ERAP2_uc003kmr.2_Splice_Site|ERAP2_uc003kms.2_Splice_Site_p.G620_splice|ERAP2_uc003kmu.2_Splice_Site	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2						antigen processing and presentation of endogenous peptide antigen via MHC class I|proteolysis|regulation of blood pressure	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding				0		all_cancers(142;0.000311)|all_epithelial(76;1.54e-06)|all_lung(232;0.0131)|Lung NSC(167;0.0161)|Colorectal(57;0.0596)|Ovarian(225;0.105)		COAD - Colon adenocarcinoma(37;0.0703)		TTATACTTCAGTGCAGGGAGA	0.363													20	47					0	0	0.010504	0	0		A	96244664	A	A	96244664	5	1	212	1	0	0	0	0	0	0	1	0	5212	1043	36	4	2062	4	ERAP2	5	96244664	Splice_Site	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	158336	96244664	84670596	468	104273											
RGMB	285704	broad.mit.edu	37	chr5	98129042	98129042	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgtatgcctgaagacctggCcatgtcctacgaggagagcc	9	7	12	13	2	0	3	0	1	0	2	1	5	1	3	6	2	3	1	6	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:98129042C>T	uc003knc.2	+	5	1424	c.1022C>T	c.(1021-1023)GCC>GTC	p.A341V		NM_001012761	NP_001012779	Q6NW40	RGMB_HUMAN	RGM domain family, member B	300					axon guidance|BMP signaling pathway|cell adhesion|positive regulation of transcription, DNA-dependent	anchored to plasma membrane|ER-Golgi intermediate compartment|membrane raft	identical protein binding				0		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)		GAAGACCTGGCCATGTCCTAC	0.612													15	15					0	0	0.004007	0	0		T	98129042	T	T	98129042	3	4	212	1	0	0	0	0	1	0	0	0	13306	739	26	2	1036	2	RGMB	5	98129042	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1884378	98129042	82786218	469	104274											
APC	324	broad.mit.edu	37	chr5	112175650	112175651	+	Frame_Shift_Ins	INS	-	A	A																															aaaccaagcgagaagtacctINSaaaaataaagcacctactgc																								rs111866410	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:112175650_112175651insA	uc010jby.2	+	16	4739_4740	c.4359_4360insA	c.(4357-4362)CCTAAAfs	p.P1453fs	APC_uc011cvt.1_Frame_Shift_Ins_p.P1435fs|APC_uc003kpz.3_Frame_Shift_Ins_p.P1453fs|APC_uc003kpy.3_Frame_Shift_Ins_p.P1453fs|APC_uc010jbz.2_Frame_Shift_Ins_p.P1170fs|APC_uc010jca.2_Frame_Shift_Ins_p.P753fs	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1453_1454	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.P1453fs*20(3)|p.K1454E(3)|p.P1453S(1)|p.?(1)|p.P1424fs*19(1)|p.K1192fs*3(1)|p.P1453fs*4(1)|p.P1453fs*19(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GAGAAGTACCTAAAAATAAAGC	0.48		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			48	21	---	---	---	---						.	A	112175651	A	A	112175650	7	5	212	1	0	1	1	0	0	0	0	0	763	1509	53	0	4417	0	APC	5	112175650	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	14046608	112175650	68739610	470	104275											
SRP19	6728	broad.mit.edu	37	chr5	112203163	112203163	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaaaacaaggacacaaaaaAcaggaggtgctgaccaaagt	21	4	9	7	0	0	1	0	1	0	0	0	3	0	3	1	3	3	1	1	3	8	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:112203163A>C	uc003kqc.2	+	5	445	c.364A>C	c.(364-366)ACA>CCA	p.T122P	SRP19_uc003kqb.1_3'UTR|SRP19_uc011cvu.1_Intron|SRP19_uc011cvv.1_Intron	NM_003135	NP_003126	P09132	SRP19_HUMAN	signal recognition particle 19kDa	122					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		GACACAAAAAACAGGAGGTGC	0.308													12	23					0	0	0.010729	0	0		C	112203163	C	C	112203163	3	2	212	1	0	0	0	0	1	0	0	0	15179	43	2	5	382	5	SRP19	5	112203163	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	27513	112203163	68712097	471	104276											
MCC	4163	broad.mit.edu	37	chr5	112406880	112406880	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcattgcttttacattcCtccaaggttatggtcaggag	8	14	10	9	1	1	0	1	0	0	0	4	1	3	1	2	4	2	3	2	4	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:112406880C>A	uc003kqj.3	-	10	1796	c.1266G>T	c.(1264-1266)GAG>GAT	p.E422D	MCC_uc003kqk.3_RNA|MCC_uc003kql.3_Missense_Mutation_p.E612D|MCC_uc011cwb.1_Missense_Mutation_p.E422D|MCC_uc010jcd.1_Missense_Mutation_p.E384D	NM_002387	NP_002378	P23508	CRCM_HUMAN	mutated in colorectal cancers isoform 2	422					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane	protein binding|receptor activity			ovary(1)	1		all_cancers(142;5.89e-08)|all_epithelial(76;3.57e-11)|all_lung(232;0.000605)|Lung NSC(810;0.000697)|Colorectal(10;0.00146)|Prostate(80;0.00174)|Ovarian(225;0.0175)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(64;2.04e-54)|Epithelial(69;9.69e-49)|all cancers(49;6.25e-44)|COAD - Colon adenocarcinoma(37;0.0432)|Colorectal(14;0.0766)		TTTTACATTCCTCCAAGGTTA	0.473													52	93					2.74695e-27	3.21646e-27	0.01441	1	0		A	112406880	A	A	112406880	3	1	212	1	0	0	0	0	1	0	0	0	9391	680	24	5	1255	5	MCC	5	112406880	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	203717	112406880	68508380	472	104277											
DMXL1	1657	broad.mit.edu	37	chr5	118560435	118560435	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccattaataatgttagaaGaatgacttctcatccaactc	15	12	5	9	0	1	3	1	1	1	2	4	3	2	3	2	0	2	1	2	0	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:118560435G>T	uc003ksd.2	+	37	8427	c.8246G>T	c.(8245-8247)AGA>ATA	p.R2749I	DMXL1_uc010jcl.1_Missense_Mutation_p.R2770I|DMXL1_uc010jcm.1_RNA	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2749	WD 11.									ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		AATGTTAGAAGAATGACTTCT	0.239													16	37					5.35267e-07	5.6905e-07	0.007413	1	0		T	118560435	T	T	118560435	3	4	212	1	0	0	0	0	1	0	0	0	4600	942	33	5	8392	5	DMXL1	5	118560435	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6153555	118560435	62354825	473	104278											
HSD17B4	3295	broad.mit.edu	37	chr5	118842530	118842530	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggaaaattaaaatgtgaaGcagttgttgctgatgtccta	14	13	10	4	0	0	2	0	2	0	0	1	3	1	3	1	1	2	4	1	1	7	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:118842530G>A	uc003ksj.2	+	15	1402	c.1279G>A	c.(1279-1281)GCA>ACA	p.A427T	HSD17B4_uc011cwg.1_Missense_Mutation_p.A403T|HSD17B4_uc011cwh.1_Missense_Mutation_p.A409T|HSD17B4_uc011cwi.1_Missense_Mutation_p.A452T|HSD17B4_uc003ksk.3_Missense_Mutation_p.A280T|HSD17B4_uc011cwj.1_Missense_Mutation_p.A280T|HSD17B4_uc010jcn.1_Missense_Mutation_p.A165T	NM_000414	NP_000405	P51659	DHB4_HUMAN	hydroxysteroid (17-beta) dehydrogenase 4	427	Enoyl-CoA hydratase 2.				bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase	peroxisomal matrix	3-hydroxyacyl-CoA dehydrogenase activity|3alpha,7alpha,12alpha-trihydroxy-5beta-cholest-24-enoyl-CoA hydratase activity|estradiol 17-beta-dehydrogenase activity|isomerase activity|long-chain-enoyl-CoA hydratase activity|protein binding|sterol binding|sterol transporter activity			ovary(1)|pancreas(1)	2		all_cancers(142;0.0206)|Prostate(80;0.0322)		OV - Ovarian serous cystadenocarcinoma(64;0.000247)|Epithelial(69;0.000849)|all cancers(49;0.0122)	NADH(DB00157)	AAAATGTGAAGCAGTTGTTGC	0.274													10	20					0	0	0.010729	0	0		A	118842530	A	A	118842530	3	1	212	1	0	0	0	0	1	0	0	0	7402	971	34	2	1337	2	HSD17B4	5	118842530	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	282095	118842530	62072730	474	104279											
SNX24	28966	broad.mit.edu	37	chr5	122281825	122281825	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccccaaagtcttggaacagCgacgacaaggcttggaaaca	14	6	10	11	2	1	0	0	0	1	0	2	4	2	2	2	3	3	1	2	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:122281825C>T	uc011cwo.1	+	3	389	c.220C>T	c.(220-222)CGA>TGA	p.R74*	SNX24_uc003ktf.2_Nonsense_Mutation_p.R74*|SNX24_uc010jcy.2_Nonsense_Mutation_p.R74*	NM_014035	NP_054754	Q9Y343	SNX24_HUMAN	SBBI31 protein	74	PX.	Phosphatidylinositol 3-phosphate (By similarity).			cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding				0		Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.0897)|Kidney(363;0.137)	OV - Ovarian serous cystadenocarcinoma(64;0.000654)|Epithelial(69;0.0016)|all cancers(49;0.0139)		CTTGGAACAGCGACGACAAGG	0.343													11	21					0	0	0.013537	0	0		T	122281825	T	T	122281825	4	4	212	1	0	0	0	0	0	1	0	0	14920	760	27	1	230	1	SNX24	5	122281825	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3439295	122281825	58633435	475	104280											
MEGF10	84466	broad.mit.edu	37	chr5	126770487	126770487	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cctgtgtgactgcttgcctgGcttcacaggcgccctctgca	4	11	11	15	1	2	1	1	1	1	0	2	1	2	1	3	2	3	3	3	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:126770487G>A	uc003kuh.3	+	16	2311	c.1949G>A	c.(1948-1950)GGC>GAC	p.G650D	MEGF10_uc003kui.3_Missense_Mutation_p.G650D	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	650	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)		TGCTTGCCTGGCTTCACAGGC	0.627													20	33					0	0	0.008871	0	0		A	126770487	A	A	126770487	3	1	212	1	0	0	0	0	1	0	0	0	9478	1203	42	2	2003	2	MEGF10	5	126770487	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4488662	126770487	54144773	476	104281											
FBN2	2201	broad.mit.edu	37	chr5	127704974	127704974	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactgcaccggggaaaggacGcacacacactcctttcttga	11	7	9	14	2	1	1	0	1	1	0	2	3	2	3	2	3	1	2	2	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:127704974G>A	uc003kuu.2	-	16	2588	c.2149C>T	c.(2149-2151)CGT>TGT	p.R717C	FBN2_uc003kuv.2_Missense_Mutation_p.R684C	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	717	TB 3.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GGGAAAGGACGCACACACACT	0.483													23	43					0	0	0.003954	0	0		A	127704974	A	A	127704974	3	1	212	1	0	0	0	0	1	0	0	0	5717	1087	38	1	6789	1	FBN2	5	127704974	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	934487	127704974	53210286	477	104282											
SHROOM1	134549	broad.mit.edu	37	chr5	132161101	132161101	+	Silent	SNP	A	G	G	1	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	ccagagctggagcaggcctcAcccaggcattcccgcgccgg	7	4	13	17	3	1	1	1	0	0	1	2	2	2	2	5	4	2	3	5	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:132161101A>G	uc003kxx.2	-	4	1537	c.732T>C	c.(730-732)GGT>GGC	p.G244G	SHROOM1_uc003kxy.1_Silent_p.G244G	NM_133456	NP_597713	Q2M3G4	SHRM1_HUMAN	shroom family member 1	244					actin filament bundle assembly|cell morphogenesis	cytoplasm|microtubule	actin filament binding			pancreas(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			AGCAGGCCTCACCCAGGCATT	0.677													5	8					0	0	0.001168	0	0		G	132161101	G	G	132161101	2	3	212	1	0	0	0	0	0	0	0	1	14318	146	6	3		3	SHROOM1	5	132161101	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4456127	132161101	48754159	478	104283											
VDAC1	7416	broad.mit.edu	37	chr5	133328039	133328039	+	Silent	SNP	G	A	A	0	0	1	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	ttcaaatcaagctttattaaGccaaatcctaaagaaagaag	19	10	5	7	0	2	2	2	0	0	2	3	2	3	2	2	0	2	1	2	0	9	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:133328039G>A	uc003kyp.1	-	3	174	c.75C>T	c.(73-75)GGC>GGT	p.G25G	VDAC1_uc003kyq.1_Silent_p.G25G|VDAC1_uc003kyr.1_Silent_p.G25G	NM_003374	NP_003365	P21796	VDAC1_HUMAN	voltage-dependent anion channel 1	25					apoptosis|interspecies interaction between organisms	mitochondrial nucleoid|mitochondrial outer membrane|plasma membrane|pore complex	porin activity|protein binding|voltage-gated anion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00806)|Kidney(363;0.02)		Dihydroxyaluminium(DB01375)	GCTTTATTAAGCCAAATCCTA	0.323													13	28					0	0	0.004007	0	0		A	133328039	A	A	133328039	2	1	212	1	0	0	0	0	0	0	0	1	17172	958	34	2		2	VDAC1	5	133328039	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1166938	133328039	47587221	479	104284											
PCDHA1	56147	broad.mit.edu	37	chr5	140165992	140165992	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tactcgatcccggaggaagcCaaacacggcaccttcgttgg	10	7	11	13	4	0	0	0	0	0	0	3	3	1	2	3	4	3	2	3	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140165992C>A	uc003lhb.2	+	1	117	c.117C>A	c.(115-117)GCC>GCA	p.A39A	PCDHA1_uc003lha.2_Silent_p.A39A|PCDHA1_uc003lgz.2_Silent_p.A39A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	39	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGGAGGAAGCCAAACACGGCA	0.667													20	72					1.87028e-06	1.97688e-06	0.012319	1	0		A	140165992	A	A	140165992	2	1	212	1	0	0	0	0	0	0	0	1	11538	581	21	5		5	PCDHA1	5	140165992	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6837953	140165992	40749268	480	104285											
PCDHA1	56147	broad.mit.edu	37	chr5	140167380	140167380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaacggcgggtgggcgagcGcgcgctgtcgaactacgtgt	6	6	19	10	8	0	0	0	0	0	0	1	3	0	1	0	4	4	1	0	4	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140167380G>A	uc003lhb.2	+	1	1505	c.1505G>A	c.(1504-1506)CGC>CAC	p.R502H	PCDHA1_uc003lha.2_Missense_Mutation_p.R502H|PCDHA1_uc003lgz.2_Missense_Mutation_p.R502H	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	502	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGGCGAGCGCGCGCTGTCG	0.682													35	99					0	0	0.004878	0	0		A	140167380	A	A	140167380	3	1	212	1	0	0	0	0	1	0	0	0	11538	1087	38	1	1507	1	PCDHA1	5	140167380	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1388	140167380	40747880	481	104286											
PCDHA9	9752	broad.mit.edu	37	chr5	140229448	140229448	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacaacgcaccagcgttcgcGcagtccgagtacacggtgtt	9	7	12	13	6	0	0	0	0	0	0	2	2	1	0	2	1	3	5	2	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140229448G>A	uc003lhu.2	+	1	2092	c.1368G>A	c.(1366-1368)GCG>GCA	p.A456A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Silent_p.A456A	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	456	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCGTTCGCGCAGTCCGAGT	0.672													58	125					0	0	0.01441	0	0		A	140229448	A	A	140229448	2	1	212	1	0	0	0	0	0	0	0	1	11550	1074	38	1		1	PCDHA9	5	140229448	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	62068	140229448	40685812	482	104287											
PCDHA12	56137	broad.mit.edu	37	chr5	140256412	140256412	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccgacgtgaacgacaatgCgcctgcgttcgcgcagcccg	7	5	14	15	8	0	1	0	1	0	0	1	3	0	1	3	1	4	2	3	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140256412C>T	uc003lic.2	+	1	1482	c.1355C>T	c.(1354-1356)GCG>GTG	p.A452V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Missense_Mutation_p.A452V	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	452	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACGACAATGCGCCTGCGTTC	0.662													44	125					0	0	0.01441	0	0		T	140256412	T	T	140256412	3	4	212	1	0	0	0	0	1	0	0	0	11541	768	27	1	1357	1	PCDHA12	5	140256412	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	26964	140256412	40658848	483	104288											
PCDHA12	56137	broad.mit.edu	37	chr5	140257112	140257112	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcgtcgcgggcctcagtgggCgctgtggatcccgaagcggc	4	7	17	13	6	1	0	1	0	0	0	4	2	2	1	2	4	1	1	2	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140257112C>T	uc003lic.2	+	1	2182	c.2055C>T	c.(2053-2055)GGC>GGT	p.G685G	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.G685G	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	685	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCAGTGGGCGCTGTGGATC	0.647													22	74					0	0	0.014323	0	0		T	140257112	T	T	140257112	2	4	212	1	0	0	0	0	0	0	0	1	11541	755	27	1		1	PCDHA12	5	140257112	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	700	140257112	40658148	484	104289											
PCDHA13	56136	broad.mit.edu	37	chr5	140263877	140263877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggtggagagcggccaagCgccacaggcttcgtcgaggg	7	5	18	11	4	0	1	0	0	0	1	2	3	0	1	2	5	2	2	2	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140263877C>T	uc003lif.2	+	1	2024	c.2024C>T	c.(2023-2025)GCG>GTG	p.A675V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.A675V|PCDHA13_uc003lid.2_Missense_Mutation_p.A675V	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	675	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.A675V(1)		ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGCGGCCAAGCGCCACAGGCT	0.662													17	69					0	0	0.007413	0	0		T	140263877	T	T	140263877	3	4	212	1	0	0	0	0	1	0	0	0	11542	768	27	1	2026	1	PCDHA13	5	140263877	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6765	140263877	40651383	485	104290											
PCDHB4	56131	broad.mit.edu	37	chr5	140502247	140502247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgggtcaccacctaggtctGgcacggtcatggttcgaatc	7	10	13	11	2	3	0	2	0	1	0	5	1	3	0	2	5	0	2	2	5	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140502247G>A	uc003lip.1	+	1	667	c.667G>A	c.(667-669)GGC>AGC	p.G223S		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	223	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACCTAGGTCTGGCACGGTCAT	0.542													18	89					0	0	0.007413	0	0		A	140502247	A	A	140502247	3	1	212	1	0	0	0	0	1	0	0	0	11563	1348	47	4	669	4	PCDHB4	5	140502247	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	238370	140502247	40413013	486	104291											
PCDHB4	56131	broad.mit.edu	37	chr5	140503476	140503476	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gccaggctgctgagcgagcgCgacgcagccaagcacaggct	9	3	15	14	4	0	1	0	1	0	0	0	3	0	1	2	2	5	5	2	2	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140503476C>T	uc003lip.1	+	1	1896	c.1896C>T	c.(1894-1896)CGC>CGT	p.R632R		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	632	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TGAGCGAGCGCGACGCAGCCA	0.682													22	71					0	0	0.00278	0	0		T	140503476	T	T	140503476	2	4	212	1	0	0	0	0	0	0	0	1	11563	755	27	1		1	PCDHB4	5	140503476	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1229	140503476	40411784	487	104292											
PCDHB6	56130	broad.mit.edu	37	chr5	140531428	140531428	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tctttcgagttccgcgtgggCgccacagaccgcggctcccc	4	8	12	17	6	1	1	0	0	1	1	4	2	3	1	5	2	0	2	5	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140531428C>T	uc003lir.2	+	1	1590	c.1590C>T	c.(1588-1590)GGC>GGT	p.G530G	PCDHB6_uc011dah.1_Silent_p.G394G	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	530	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCGCGTGGGCGCCACAGACC	0.662													8	148					0	0	0.004482	0	0		T	140531428	T	T	140531428	2	4	212	1	0	0	0	0	0	0	0	1	11565	755	27	1		1	PCDHB6	5	140531428	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	27952	140531428	40383832	488	104293											
PCDHB7	56129	broad.mit.edu	37	chr5	140554058	140554058	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgagcagcgaggcgctggtgCgcgtgctggtgctggacgcc	4	7	19	11	5	0	1	0	1	0	0	0	3	0	2	1	4	5	4	1	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140554058C>T	uc003lit.2	+	1	1816	c.1642C>T	c.(1642-1644)CGC>TGC	p.R548C		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	548	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCGCTGGTGCGCGTGCTGGT	0.721													13	70					0	0	0.013537	0	0		T	140554058	T	T	140554058	3	4	212	1	0	0	0	0	1	0	0	0	11566	768	27	1	1644	1	PCDHB7	5	140554058	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	22630	140554058	40361202	489	104294											
PCDHB16	57717	broad.mit.edu	37	chr5	140563557	140563557	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcacatcggcagcgtcagcGccacagacagagactcaggc	11	4	12	14	3	2	2	2	0	0	2	3	3	2	2	1	2	3	2	1	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140563557G>A	uc003liv.2	+	1	2578	c.1423G>A	c.(1423-1425)GCC>ACC	p.A475T	PCDHB16_uc010jfw.1_Missense_Mutation_p.A147T	NM_020957	NP_066008	Q9NRJ7	PCDBG_HUMAN	protocadherin beta 16 precursor	475	Extracellular (Potential).|Cadherin 5.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CAGCGTCAGCGCCACAGACAG	0.632													12	154					0	0	0.004007	0	0		A	140563557	A	A	140563557	3	1	212	1	0	0	0	0	1	0	0	0	11560	1087	38	1	1425	1	PCDHB16	5	140563557	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9499	140563557	40351703	490	104295											
PCDHB9	56127	broad.mit.edu	37	chr5	140568765	140568765	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcgcacaatggggaggtgcGcaccgccaggctgctgagcg	7	4	18	12	4	0	1	0	1	0	0	0	2	0	2	2	5	3	4	2	5	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140568765G>A	uc003liw.1	+	3	1874	c.1874G>A	c.(1873-1875)CGC>CAC	p.R625H		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	625	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGGGAGGTGCGCACCGCCAGG	0.692													25	131					0	0	0.004878	0	0		A	140568765	A	A	140568765	3	1	212	1	0	0	0	0	1	0	0	0	11568	1087	38	1	1875	1	PCDHB9	5	140568765	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5208	140568765	40346495	491	104296											
PCDHB12	56124	broad.mit.edu	37	chr5	140589394	140589394	+	Silent	SNP	A	G	G	1	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	ggtgacattactttaacagcAcctttggattttgaagcaat	12	14	8	7	0	0	2	0	2	0	0	0	3	0	3	1	2	4	2	1	2	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140589394A>G	uc003liz.2	+	1	1104	c.915A>G	c.(913-915)GCA>GCG	p.A305A	PCDHB12_uc011dak.1_5'UTR	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	305	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(2)|ovary(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CTTTAACAGCACCTTTGGATT	0.378													23	58					0	0	0.014323	0	0		G	140589394	G	G	140589394	2	3	212	1	0	0	0	0	0	0	0	1	11556	146	6	3		3	PCDHB12	5	140589394	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	20629	140589394	40325866	492	104297											
PCDHGA3	56112	broad.mit.edu	37	chr5	140725577	140725577	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctctctccgccactgtcacGctcaccgtggccgtggccga	4	8	10	19	5	3	0	2	0	1	0	5	1	4	0	6	2	0	1	6	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140725577G>A	uc003ljm.1	+	1	1977	c.1977G>A	c.(1975-1977)ACG>ACA	p.T659T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.T419T|PCDHGA3_uc011dap.1_Silent_p.T659T	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	659	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCACTGTCACGCTCACCGTGG	0.692													28	69					0	0	0.013726	0	0		A	140725577	A	A	140725577	2	1	212	1	0	0	0	0	0	0	0	1	11574	1074	38	1		1	PCDHGA3	5	140725577	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	136183	140725577	40189683	493	104298											
PCDHGA4	56111	broad.mit.edu	37	chr5	140734936	140734936	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacctggggttggcgcccCgggagctggcggagcgcgga	5	4	21	11	5	0	0	0	0	0	0	0	4	0	4	3	8	2	2	3	8	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140734936C>T	uc003ljq.1	+	1	169	c.169C>T	c.(169-171)CGG>TGG	p.R57W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.R57W	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	57	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTGGCGCCCCGGGAGCTGGC	0.637													25	78					0	0	0.004656	0	0		T	140734936	T	T	140734936	3	4	212	1	0	0	0	0	1	0	0	0	11575	643	23	1	171	1	PCDHGA4	5	140734936	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	9359	140734936	40180324	494	104299											
PCDHGA5	56110	broad.mit.edu	37	chr5	140746034	140746034	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttcgtcatcgtgctgctgGtgctcagactgaggcgctgg	4	11	14	12	3	2	2	2	1	0	1	4	2	2	2	1	3	3	4	1	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140746034G>A	uc003lju.1	+	1	2137	c.2137G>A	c.(2137-2139)GTG>ATG	p.V713M	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc011das.1_Missense_Mutation_p.V713M	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	713	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGTGCTGCTGGTGCTCAGACT	0.622													68	193					0	0	0.01441	0	0		A	140746034	A	A	140746034	3	1	212	1	0	0	0	0	1	0	0	0	11576	1261	44	4	2139	4	PCDHGA5	5	140746034	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	11098	140746034	40169226	495	104300											
PCDHGB3	56102	broad.mit.edu	37	chr5	140752045	140752045	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagtttcacctagtagtggCgttggccttgatctcagtgc	7	13	11	10	1	2	1	2	1	1	0	3	1	2	1	2	2	1	3	2	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140752045C>T	uc003ljw.1	+	1	2084	c.2084C>T	c.(2083-2085)GCG>GTG	p.A695V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.A695V|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	695	Helical; (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTAGTAGTGGCGTTGGCCTTG	0.572													40	78					0	0	0.010771	0	0		T	140752045	T	T	140752045	3	4	212	1	0	0	0	0	1	0	0	0	11583	768	27	1	2086	1	PCDHGB3	5	140752045	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6011	140752045	40163215	496	104301											
PCDHGA7	56108	broad.mit.edu	37	chr5	140763070	140763070	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctggagcgggtgctggacCgggaggaagagcgggttcac	7	6	20	8	3	1	1	1	0	0	1	1	5	1	5	1	6	4	3	1	6	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140763070C>T	uc003lka.1	+	1	604	c.604C>T	c.(604-606)CGG>TGG	p.R202W	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.R202W	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	202	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGCTGGACCGGGAGGAAGA	0.622													5	11					0	0	0.000602	0	0		T	140763070	T	T	140763070	3	4	212	1	0	0	0	0	1	0	0	0	11578	643	23	1	606	1	PCDHGA7	5	140763070	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	11025	140763070	40152190	497	104302											
PCDHGA10	56106	broad.mit.edu	37	chr5	140793318	140793318	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gttcagagccgtgccaatggCgtcaagtacccggagctggt	8	8	14	11	3	2	1	2	0	0	1	2	2	2	2	3	3	4	3	3	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140793318C>T	uc003lkl.1	+	1	576	c.576C>T	c.(574-576)GGC>GGT	p.G192G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.G192G	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	192	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGCCAATGGCGTCAAGTACC	0.597													23	35					0	0	0.014323	0	0		T	140793318	T	T	140793318	2	4	212	1	0	0	0	0	0	0	0	1	11570	755	27	1		1	PCDHGA10	5	140793318	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	30248	140793318	40121942	498	104303											
PCDHGA11	56105	broad.mit.edu	37	chr5	140802457	140802457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cgctgagcctgttcgtgctgGaccagaacgacaatgcgccc	8	7	12	14	4	0	2	0	1	0	1	1	4	0	3	3	1	4	3	3	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140802457G>A	uc003lkq.1	+	1	1921	c.1663G>A	c.(1663-1665)GAC>AAC	p.D555N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lko.1_Missense_Mutation_p.D555N|PCDHGA11_uc003lkp.1_Missense_Mutation_p.D555N	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	555	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTCGTGCTGGACCAGAACGA	0.627													74	229					0	0	0.01441	0	0		A	140802457	A	A	140802457	3	1	212	1	0	0	0	0	1	0	0	0	11571	1174	41	4	1665	4	PCDHGA11	5	140802457	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9139	140802457	40112803	499	104304											
PCDHGC4	56098	broad.mit.edu	37	chr5	140866670	140866670	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acctcccaccacagaagctgGtcattgtggtaaaggatagt	12	9	10	10	0	1	1	1	0	0	1	2	2	2	2	3	3	1	2	3	3	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:140866670G>A	uc003lky.1	+	1	1930	c.1930G>A	c.(1930-1932)GTC>ATC	p.V644I	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc003lkl.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron|PCDHGC3_uc003lkv.1_Intron|PCDHGC3_uc003lkw.1_Intron|PCDHGC4_uc011dbb.1_Missense_Mutation_p.V644I|PCDHGC5_uc011dbc.1_5'Flank|PCDHGC5_uc003lla.1_5'Flank	NM_018928	NP_061751	Q9Y5F7	PCDGL_HUMAN	protocadherin gamma subfamily C, 4 isoform 1	644	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACAGAAGCTGGTCATTGTGGT	0.542													9	25					0	0	0.006214	0	0		A	140866670	A	A	140866670	3	1	212	1	0	0	0	0	1	0	0	0	11589	1261	44	4	1932	4	PCDHGC4	5	140866670	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	64213	140866670	40048590	500	104305											
PCDH12	51294	broad.mit.edu	37	chr5	141335926	141335926	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actggggagtcctggatgcgGtatgagacttttccattaat	9	13	12	7	1	0	1	0	1	0	1	2	4	2	3	2	4	1	1	2	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:141335926G>C	uc003llx.2	-	1	2702	c.1491C>G	c.(1489-1491)TAC>TAG	p.Y497*		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	497	Extracellular (Potential).|Cadherin 5.				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGGATGCGGTATGAGACTT	0.493													17	45					0	0	0.004007	0	0		C	141335926	C	C	141335926	4	2	212	1	0	0	0	0	0	1	0	0	11529	1256	44	5	2079	5	PCDH12	5	141335926	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	469256	141335926	39579334	501	104306											
ARHGAP26	23092	broad.mit.edu	37	chr5	142586820	142586820	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcttggcccatgttctcggcGccatccagccctatgcccac	5	10	8	18	2	2	0	0	0	2	0	4	0	3	0	5	2	2	1	5	2	1	3	rs79503222		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:142586820G>A	uc011dbj.1	+	21	2081	c.2046G>A	c.(2044-2046)GCG>GCA	p.A682A	ARHGAP26_uc003lmt.2_Silent_p.A682A|ARHGAP26_uc003lmw.2_Intron	NM_015071	NP_055886	Q9UNA1	RHG26_HUMAN	GTPase regulator associated with the focal	682	Ser-rich.				actin cytoskeleton organization|filopodium assembly|nervous system development|small GTPase mediated signal transduction	cytoskeleton|cytosol|focal adhesion	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(1)	1		all_hematologic(541;0.0416)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGTTCTCGGCGCCATCCAGCC	0.557													24	84					0	0	0.003954	0	0		A	142586820	A	A	142586820	2	1	212	1	0	0	0	0	0	0	0	1	875	1074	38	1		1	ARHGAP26	5	142586820	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1250894	142586820	38328440	502	104307											
PLAC8L1	153770	broad.mit.edu	37	chr5	145465117	145465117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactctccataatgcctggcGatgtcacactcaagacacat	12	9	6	14	1	3	1	2	0	1	1	4	2	3	1	2	1	1	0	2	1	2	1	rs142846473	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:145465117G>A	uc003lnv.2	-	3	372	c.300C>T	c.(298-300)ATC>ATT	p.I100I	PLAC8L1_uc011dbp.1_RNA	NM_001029869	NP_001025040	A1L4L8	PL8L1_HUMAN	PLAC8-like 1	100											0			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AATGCCTGGCGATGTCACACT	0.458													8	35					0	0	0.00308	0	0		A	145465117	A	A	145465117	2	1	212	1	0	0	0	0	0	0	0	1	12035	1048	37	1		1	PLAC8L1	5	145465117	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2878297	145465117	35450143	503	104308											
RBM27	54439	broad.mit.edu	37	chr5	145651091	145651091	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgggtcgaggaaagaccatgTcctctcaaggtcgaggaaga	12	7	14	8	2	1	2	1	0	1	2	5	6	2	4	2	4	0	0	2	4	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:145651091T>C	uc003lnz.3	+	19	3008	c.2842T>C	c.(2842-2844)TCC>CCC	p.S948P		NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	948					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AAAGACCATGTCCTCTCAAGG	0.468													14	43					0	0	0.003163	0	0		C	145651091	C	C	145651091	3	2	212	1	0	0	0	0	1	0	0	0	13152	1667	58	3	2916	3	RBM27	5	145651091	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	185974	145651091	35264169	504	104309											
PDGFRB	5159	broad.mit.edu	37	chr5	149498325	149498325	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catacctttttgtaaccttcGcccaacagtctctcgagaag	10	12	6	13	2	1	1	0	0	1	1	4	2	1	1	3	0	3	1	3	0	4	5	rs139623802	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:149498325G>A	uc003lro.2	-	21	3358	c.2889C>T	c.(2887-2889)GGC>GGT	p.G963G	PDGFRB_uc010jhd.2_Silent_p.G802G	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	963	Cytoplasmic (Potential).				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGTAACCTTCGCCCAACAGTC	0.552			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								27	89					0	0	0.010818	0	0		A	149498325	A	A	149498325	2	1	212	1	0	0	0	0	0	0	0	1	11681	1074	38	1		1	PDGFRB	5	149498325	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3847234	149498325	31416935	505	104310											
PDGFRB	5159	broad.mit.edu	37	chr5	149511617	149511617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catggtgtagtggccagcctCtgccaccttcacgcgaacca	8	8	10	15	2	2	0	1	0	1	0	2	1	2	0	5	2	3	1	5	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:149511617C>T	uc003lro.2	-	8	1637	c.1168G>A	c.(1168-1170)GAG>AAG	p.E390K	PDGFRB_uc010jhd.2_Missense_Mutation_p.E229K	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	390	Ig-like C2-type 4.|Extracellular (Potential).				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGGCCAGCCTCTGCCACCTTC	0.433			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								17	40					0	0	0.00499	0	0		T	149511617	T	T	149511617	3	4	212	1	0	0	0	0	1	0	0	0	11681	922	32	4	2216	4	PDGFRB	5	149511617	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	13292	149511617	31403643	506	104311											
NDST1	3340	broad.mit.edu	37	chr5	149927859	149927859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgccggctctgacgcatcctCgaagctgcgtgccctccaga	6	7	11	17	5	1	2	0	1	1	1	4	3	3	2	4	1	3	3	4	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:149927859C>T	uc003lsk.3	+	12	2727	c.2225C>T	c.(2224-2226)TCG>TTG	p.S742L	NDST1_uc011dcj.1_Intron	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	742	Heparan sulfate N-sulfotransferase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GACGCATCCTCGAAGCTGCGT	0.622													11	46					0	0	0.010729	0	0		T	149927859	T	T	149927859	3	4	212	1	0	0	0	0	1	0	0	0	10274	893	31	1	2267	1	NDST1	5	149927859	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	416242	149927859	30987401	507	104312											
DCTN4	51164	broad.mit.edu	37	chr5	150090922	150090922	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggcctttctgaaggctataAtgctatggaaagaaaaaaaa	17	10	9	5	0	1	2	0	1	1	1	1	3	1	3	1	3	1	2	1	3	9	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:150090922A>G	uc003lsv.2	-	13	1274	c.1172T>C	c.(1171-1173)ATT>ACT	p.I391T	DCTN4_uc003lsu.2_Missense_Mutation_p.I334T|DCTN4_uc010jhi.2_Missense_Mutation_p.I398T	NM_016221	NP_057305	Q9UJW0	DCTN4_HUMAN	dynactin 4 (p62) isoform b	391						centrosome|nucleus	protein N-terminus binding			central_nervous_system(1)	1		Medulloblastoma(196;0.167)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAAGGCTATAATGCTATGGAA	0.383													20	27					0	0	0.008871	0	0		G	150090922	G	G	150090922	3	3	212	1	0	0	0	0	1	0	0	0	4312	101	4	3	214	3	DCTN4	5	150090922	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	163063	150090922	30824338	508	104313											
ITK	3702	broad.mit.edu	37	chr5	156649962	156649962	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaactcgcactgcggcgcaaCgaagagtactgcctgctgga	10	6	13	12	4	0	1	0	0	0	1	1	4	0	2	1	2	6	4	1	2	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:156649962C>T	uc003lwo.1	+	6	667	c.585C>T	c.(583-585)AAC>AAT	p.N195N		NM_005546	NP_005537	Q08881	ITK_HUMAN	IL2-inducible T-cell kinase	195	SH3.				cellular defense response|intracellular signal transduction|T cell receptor signaling pathway	cytosol|plasma membrane	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding			lung(12)|ovary(8)|skin(4)|stomach(1)|central_nervous_system(1)	26	Renal(175;0.00212)	Medulloblastoma(196;0.0354)|all_neural(177;0.1)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TGCGGCGCAACGAAGAGTACT	0.522			T	SYK	peripheral T-cell lymphoma								22	75					0	0	0.012319	0	0		T	156649962	T	T	156649962	2	4	212	1	0	0	0	0	0	0	0	1	7925	535	19	1		1	ITK	5	156649962	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6559040	156649962	24265298	509	104314											
ADRA1B	147	broad.mit.edu	37	chr5	159344849	159344849	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggctacccttcttcatcGctctaccgcttggtaagttg	5	14	9	13	2	3	0	1	0	2	0	4	0	3	0	2	2	2	6	2	2	3	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:159344849G>T	uc003lxt.1	+	1	1110	c.937G>T	c.(937-939)GCT>TCT	p.A313S		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	313	Helical; Name=6; (By similarity).				cell proliferation|cell-cell signaling|G-protein signaling, coupled to cAMP nucleotide second messenger|intracellular protein kinase cascade	integral to plasma membrane	alpha1-adrenergic receptor activity			lung(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.138)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Dextroamphetamine(DB01576)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Guanfacine(DB01018)|Labetalol(DB00598)|Lisdexamfetamine(DB01255)|Methamphetamine(DB01577)|Methotrimeprazine(DB01403)|Methoxamine(DB00723)|Midodrine(DB00211)|Modafinil(DB00745)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Olanzapine(DB00334)|Phendimetrazine(DB01579)|Phenylephrine(DB00388)|Prazosin(DB00457)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)|Trazodone(DB00656)	CTTCTTCATCGCTCTACCGCT	0.463													11	129					7.03913e-09	7.58441e-09	0.013537	1	0		T	159344849	T	T	159344849	3	4	212	1	0	0	0	0	1	0	0	0	335	1087	38	5	939	5	ADRA1B	5	159344849	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2694887	159344849	21570411	510	104315											
CCNJL	79616	broad.mit.edu	37	chr5	159707555	159707555	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagcaggaggcaggagacgGccacggtgtagagctgcttg	10	5	17	9	2	0	2	0	0	0	2	0	4	0	3	1	5	3	5	1	5	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:159707555G>A	uc003lyb.1	-	3	509	c.257C>T	c.(256-258)GCC>GTC	p.A86V	CCNJL_uc011dee.1_Missense_Mutation_p.A86V|CCNJL_uc003lyc.1_RNA|CCNJL_uc011def.1_Missense_Mutation_p.A86V	NM_024565	NP_078841	Q8IV13	CCNJL_HUMAN	cyclin J-like	86	Cyclin N-terminal.					nucleus					0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GCAGGAGACGGCCACGGTGTA	0.617													42	105					0	0	0.011902	0	0		A	159707555	A	A	159707555	3	1	212	1	0	0	0	0	1	0	0	0	2932	1203	42	2	1070	2	CCNJL	5	159707555	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	362706	159707555	21207705	511	104316											
PTTG1	9232	broad.mit.edu	37	chr5	159854859	159854859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ccccttcacctgtgaagatgCcctctccaccatgggaatcc	8	9	7	17	0	2	2	1	1	1	1	4	3	3	3	7	1	1	0	7	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:159854859C>T	uc003lyj.2	+	5	553	c.508C>T	c.(508-510)CCC>TCC	p.P170S	PTTG1_uc003lyk.2_Missense_Mutation_p.P170S	NM_004219	NP_004210	O95997	PTTG1_HUMAN	pituitary tumor-transforming protein 1	170	SH3-binding.			PSPP->LSAL: Strongly reduces transforming capability; when associated with A-163.	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|chromosome organization|chromosome segregation|DNA repair|mitosis|spermatogenesis|transcription from RNA polymerase II promoter	cytosol|nucleus	cysteine-type endopeptidase inhibitor activity|sequence-specific DNA binding transcription factor activity|SH3 domain binding				0	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.00219)|Epithelial(171;0.00348)|all cancers(165;0.0104)		TGTGAAGATGCCCTCTCCACC	0.517													13	38					0	0	0.001855	0	0		T	159854859	T	T	159854859	3	4	212	1	0	0	0	0	1	0	0	0	12844	739	26	2	522	2	PTTG1	5	159854859	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	147304	159854859	21060401	512	104317											
ATP10B	23120	broad.mit.edu	37	chr5	160033846	160033846	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttctggagtggcgtggagCggcagcacaggacggaccga	8	6	17	10	4	2	0	0	0	2	0	2	5	2	4	1	6	2	2	1	6	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:160033846C>T	uc003lym.1	-	19	3933	c.3086G>A	c.(3085-3087)CGC>CAC	p.R1029H	ATP10B_uc010jit.1_Missense_Mutation_p.R346H	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1029	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TGGCGTGGAGCGGCAGCACAG	0.512													16	83					0	0	0.004007	0	0		T	160033846	T	T	160033846	3	4	212	1	0	0	0	0	1	0	0	0	1118	768	27	1	1331	1	ATP10B	5	160033846	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	178987	160033846	20881414	513	104318											
SLIT3	6586	broad.mit.edu	37	chr5	168244398	168244398	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgaactggccaactgtccGtcgctgtcgcagccaatccg	7	9	11	14	4	0	1	0	1	0	0	4	1	2	1	4	1	3	2	4	1	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:168244398G>A	uc003mab.2	-	8	1120	c.700C>T	c.(700-702)CGG>TGG	p.R234W	SLIT3_uc010jjg.2_Missense_Mutation_p.R234W|SLIT3_uc010jji.2_Missense_Mutation_p.R234W|SLIT3_uc003mac.1_Missense_Mutation_p.R31W	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	234	LRRCT 1.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCAACTGTCCGTCGCTGTCGC	0.612													12	34					0	0	0.003163	0	0		A	168244398	A	A	168244398	3	1	212	1	0	0	0	0	1	0	0	0	14766	1144	40	1	3987	1	SLIT3	5	168244398	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8210552	168244398	12670862	514	104319											
KCNIP1	30820	broad.mit.edu	37	chr5	170147330	170147330	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctccccttcccacaggagtgCcccagtggtgtggtcaacga	7	8	11	15	1	1	0	1	0	0	0	3	2	3	1	5	3	2	0	5	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:170147330C>T	uc003mas.2	+	4	754	c.225C>T	c.(223-225)TGC>TGT	p.C75C	KCNIP1_uc003map.2_Silent_p.C73C|KCNIP1_uc003mat.2_Silent_p.C64C|KCNIP1_uc010jjp.2_Silent_p.C36C|KCNIP1_uc010jjq.2_Silent_p.C64C	NM_001034837	NP_001030009	Q9NZI2	KCIP1_HUMAN	Kv channel interacting protein 1 isoform 1	75	EF-hand 1; degenerate.				detection of calcium ion|signal transduction|synaptic transmission	plasma membrane	potassium channel activity|voltage-gated ion channel activity			skin(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0191)|all_lung(126;0.0297)	Medulloblastoma(196;0.0109)|all_neural(177;0.0177)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CACAGGAGTGCCCCAGTGGTG	0.552													11	66					0	0	0.008291	0	0		T	170147330	T	T	170147330	2	4	212	1	0	0	0	0	0	0	0	1	8055	747	26	2		2	KCNIP1	5	170147330	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1902932	170147330	10767930	515	104320											
STK10	6793	broad.mit.edu	37	chr5	171482726	171482726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgccttttcctgttgctgccGcaccttcagctgctctatca	4	14	7	16	2	3	0	2	0	1	0	4	0	4	0	4	0	4	5	4	0	1	5	rs140431437		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:171482726G>A	uc003mbo.1	-	16	2692	c.2392C>T	c.(2392-2394)CGG>TGG	p.R798W		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	798	Gln-rich.|Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGTTGCTGCCGCACCTTCAGC	0.612													23	73					0	0	0.00278	0	0		A	171482726	A	A	171482726	3	1	212	1	0	0	0	0	1	0	0	0	15311	1086	38	1	530	1	STK10	5	171482726	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1335396	171482726	9432534	516	104321											
STK10	6793	broad.mit.edu	37	chr5	171509350	171509350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctttcttcatcagtttgaGctgctcttggaacctggtgt	5	17	9	10	0	5	1	2	1	3	0	5	2	5	2	1	2	3	3	1	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:171509350G>A	uc003mbo.1	-	12	2269	c.1969C>T	c.(1969-1971)CTC>TTC	p.L657F		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	657	Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			ATCAGTTTGAGCTGCTCTTGG	0.478													9	207					0	0	0.008291	0	0		A	171509350	A	A	171509350	3	1	212	1	0	0	0	0	1	0	0	0	15311	971	34	2	969	2	STK10	5	171509350	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	26624	171509350	9405910	517	104322											
SH3PXD2B	285590	broad.mit.edu	37	chr5	171765430	171765430	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttcccaggaaggggctccGctcaggacctggcagaacca	9	5	12	15	1	1	1	1	0	0	1	3	3	3	3	5	5	1	3	5	5	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:171765430G>A	uc003mbr.2	-	13	2850	c.2679C>T	c.(2677-2679)AGC>AGT	p.S893S		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	893	SH3 4.				adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AAGGGGCTCCGCTCAGGACCT	0.572													39	214					0	0	0.009718	0	0		A	171765430	A	A	171765430	2	1	212	1	0	0	0	0	0	0	0	1	14282	1078	38	1		1	SH3PXD2B	5	171765430	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	256080	171765430	9149830	518	104323											
CPEB4	80315	broad.mit.edu	37	chr5	173317794	173317794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gaagtatgctcgccccagctCtgcctttgcacctaaatcct	8	11	7	15	1	1	0	0	0	1	0	3	1	2	0	5	0	4	4	5	0	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:173317794C>T	uc003mcs.3	+	1	2464	c.1058C>T	c.(1057-1059)TCT>TTT	p.S353F	CPEB4_uc010jju.1_Missense_Mutation_p.S353F|CPEB4_uc010jjv.2_Missense_Mutation_p.S353F|CPEB4_uc011dfg.1_Missense_Mutation_p.S353F|CPEB4_uc003mct.3_5'Flank|CPEB4_uc003mcu.3_5'Flank	NM_030627	NP_085130	Q17RY0	CPEB4_HUMAN	cytoplasmic polyadenylation element binding	353							nucleotide binding|RNA binding				0	Renal(175;0.000159)|Lung NSC(126;0.0128)|all_lung(126;0.0202)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CGCCCCAGCTCTGCCTTTGCA	0.438													16	88					0	0	0.004007	0	0		T	173317794	T	T	173317794	3	4	212	1	0	0	0	0	1	0	0	0	3806	913	32	4	1060	4	CPEB4	5	173317794	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1552364	173317794	7597466	519	104324											
SLC34A1	6569	broad.mit.edu	37	chr5	176813055	176813055	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccctgtggcccttgctgaGcacacctgcccctgtgggga	4	8	14	15	0	0	1	0	1	0	0	0	2	0	2	5	4	3	2	5	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:176813055G>A	uc003mgk.3	+	3	278	c.177G>A	c.(175-177)GAG>GAA	p.E59E		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	59	Cytoplasmic (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCCTTGCTGAGCACACCTGCC	0.692													15	68					0	0	0.003163	0	0		A	176813055	A	A	176813055	2	1	212	1	0	0	0	0	0	0	0	1	14592	962	34	2		2	SLC34A1	5	176813055	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3495261	176813055	4102205	520	104325											
SLC34A1	6569	broad.mit.edu	37	chr5	176815130	176815130	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttcaacatccatggtggCcgtgatgctcctgacctgct	6	12	9	14	1	1	2	1	2	0	0	4	2	4	2	5	2	3	2	5	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:176815130C>T	uc003mgk.3	+	7	881	c.780C>T	c.(778-780)GGC>GGT	p.G260G		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	260	Extracellular (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCCATGGTGGCCGTGATGCTC	0.602													4	74					0	0	0.009096	0	0		T	176815130	T	T	176815130	2	4	212	1	0	0	0	0	0	0	0	1	14592	726	26	2		2	SLC34A1	5	176815130	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2075	176815130	4100130	521	104326											
B4GALT7	11285	broad.mit.edu	37	chr5	177031391	177031391	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgagcactgggaagaagacGcatcctggggcccccaccgc	9	4	13	15	2	0	3	0	1	0	2	1	4	1	4	4	3	1	2	4	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:177031391G>A	uc003mhy.2	+	2	302	c.262G>A	c.(262-264)GCA>ACA	p.A88T	B4GALT7_uc003mhz.2_5'UTR	NM_007255	NP_009186	Q9UBV7	B4GT7_HUMAN	xylosylprotein beta 1,4-galactosyltransferase 7	88	Lumenal (Potential).				fibril organization|glycosaminoglycan biosynthetic process|negative regulation of fibroblast proliferation|protein modification process|proteoglycan metabolic process	Golgi cisterna membrane|integral to membrane	metal ion binding|xylosylprotein 4-beta-galactosyltransferase activity			pancreas(1)	1	all_cancers(89;0.00033)|Renal(175;0.000269)|Lung NSC(126;0.00161)|all_lung(126;0.00286)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGAAGAAGACGCATCCTGGGG	0.711													10	44					0	0	0.008291	0	0		A	177031391	A	A	177031391	3	1	212	1	0	0	0	0	1	0	0	0	1277	1087	38	1	268	1	B4GALT7	5	177031391	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	216261	177031391	3883869	522	104327											
HNRNPAB	3182	broad.mit.edu	37	chr5	177634161	177634161	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggttttgtgtttatcaccTttaaagaagaagaacccgtg	12	13	10	6	1	1	3	1	0	0	3	1	4	1	3	2	1	1	2	2	1	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:177634161T>G	uc003miu.2	+	5	861	c.604T>G	c.(604-606)TTT>GTT	p.F202V	HNRNPAB_uc003miv.2_Missense_Mutation_p.F202V|HNRNPAB_uc010jks.2_Missense_Mutation_p.F202V|HNRNPAB_uc003miw.2_Missense_Mutation_p.F202V|HNRNPAB_uc003mix.2_Missense_Mutation_p.F202V	NM_031266	NP_112556	Q99729	ROAA_HUMAN	heterogeneous nuclear ribonucleoprotein A/B	202	RRM 2.				epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding				0						GTTTATCACCTTTAAAGAAGA	0.448													24	125					0	0	0.004656	0	0		G	177634161	G	G	177634161	3	3	212	1	0	0	0	0	1	0	0	0	7277	1609	56	5	618	5	HNRNPAB	5	177634161	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	602770	177634161	3281099	523	104328											
ZNF454	285676	broad.mit.edu	37	chr5	178373448	178373448	+	Missense_Mutation	SNP	A	G	G	1	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	ccagagggccctgtacagggAcgtgatgctggagaactaca	11	6	14	10	1	0	3	0	1	0	2	0	5	0	4	2	3	4	2	2	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:178373448A>G	uc003mjo.1	+	3	393	c.122A>G	c.(121-123)GAC>GGC	p.D41G	ZNF454_uc010jkz.1_Missense_Mutation_p.D41G|ZNF454_uc003mjp.2_Silent_p.G76G	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	41	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		CTGTACAGGGACGTGATGCTG	0.552													22	141					0	0	0.014323	0	0		G	178373448	G	G	178373448	3	3	212	1	0	0	0	0	1	0	0	0	17948	275	10	3	128	3	ZNF454	5	178373448	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	739287	178373448	2541812	524	104329											
ADAMTS2	9509	broad.mit.edu	37	chr5	178581820	178581820	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccccaggccacttacacgtgGccagtctcatgggccaccac	8	6	9	18	1	1	0	1	0	1	0	2	0	1	0	6	3	1	0	6	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:178581820G>A	uc003mjw.2	-	7	1233	c.1233C>T	c.(1231-1233)GGC>GGT	p.G411G	ADAMTS2_uc011dgm.1_Silent_p.G411G	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	411	Peptidase M12B.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		CTTACACGTGGCCAGTCTCAT	0.637													4	31					0	0	0.009096	0	0		A	178581820	A	A	178581820	2	1	212	1	0	0	0	0	0	0	0	1	265	1190	42	2		2	ADAMTS2	5	178581820	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	208372	178581820	2333440	525	104330											
ADAMTS2	9509	broad.mit.edu	37	chr5	178585791	178585791	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgatcgtggtattcatcgtgGcccgtgtctggcttctgctg	3	15	13	10	3	3	1	1	1	2	0	5	1	3	1	1	3	1	3	1	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:178585791G>A	uc003mjw.2	-	6	1065	c.1065C>T	c.(1063-1065)GGC>GGT	p.G355G	ADAMTS2_uc011dgm.1_Silent_p.G355G	NM_014244	NP_055059	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1	355	Peptidase M12B.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		ATTCATCGTGGCCCGTGTCTG	0.617													24	140					0	0	0.014323	0	0		A	178585791	A	A	178585791	2	1	212	1	0	0	0	0	0	0	0	1	265	1190	42	2		2	ADAMTS2	5	178585791	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3971	178585791	2329469	526	104331											
TBC1D9B	23061	broad.mit.edu	37	chr5	179290598	179290598	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggatggaggccaggatctgCtcaaaggagatgcaccagtc	12	6	14	9	0	2	1	1	0	1	1	3	5	2	4	2	5	2	2	2	5	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:179290598C>T	uc003mlh.2	-	22	3640	c.3603G>A	c.(3601-3603)GAG>GAA	p.E1201E	TBC1D9B_uc003mli.2_Silent_p.E1184E|TBC1D9B_uc003mlj.2_Silent_p.E1183E|TBC1D9B_uc003mlf.2_Silent_p.E275E|TBC1D9B_uc003mlg.2_Silent_p.E360E|TBC1D9B_uc011dgv.1_Silent_p.E360E	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	1201						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCAGGATCTGCTCAAAGGAGA	0.587													16	66					0	0	0.004007	0	0		T	179290598	T	T	179290598	2	4	212	1	0	0	0	0	0	0	0	1	15653	796	28	2		2	TBC1D9B	5	179290598	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	704807	179290598	1624662	527	104332											
FLT4	2324	broad.mit.edu	37	chr5	180048661	180048661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggatactcaggctgagcgtgGcgtggcgcgccccaggtgcc	5	6	17	13	4	1	1	1	1	0	0	1	2	1	2	3	5	3	1	3	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:180048661G>A	uc003mma.3	-	13	1980	c.1901C>T	c.(1900-1902)GCC>GTC	p.A634V	FLT4_uc003mlz.3_Missense_Mutation_p.A634V|FLT4_uc003mmb.1_Missense_Mutation_p.A167V|FLT4_uc011dgy.1_Missense_Mutation_p.A634V	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	634	Ig-like C2-type 6.|Extracellular (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GCTGAGCGTGGCGTGGCGCGC	0.677									Congenital_Hereditary_Lymphedema				13	48					0	0	0.00245	0	0		A	180048661	A	A	180048661	3	1	212	1	0	0	0	0	1	0	0	0	5958	1203	42	2	2270	2	FLT4	5	180048661	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	758063	180048661	866599	528	104333											
OR2V2	285659	broad.mit.edu	37	chr5	180582844	180582844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gaacagggaggtgatgggggCactgaggaaggggctggacc	10	4	21	6	0	0	2	0	2	0	0	0	6	0	5	1	8	1	2	1	8	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:180582844C>A	uc011dhj.1	+	1	902	c.902C>A	c.(901-903)GCA>GAA	p.A301E		NM_206880	NP_996763	Q96R30	OR2V2_HUMAN	olfactory receptor, family 2, subfamily V,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(89;8.26e-06)|all_epithelial(37;1.02e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.0103)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0652)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GTGATGGGGGCACTGAGGAAG	0.493													12	67					1.5842e-08	1.69894e-08	0.001855	1	0		A	180582844	A	A	180582844	3	1	212	1	0	0	0	0	1	0	0	0	11050	710	25	5	904	5	OR2V2	5	180582844	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	534183	180582844	332416	529	104334											
TRIM7	81786	broad.mit.edu	37	chr5	180622613	180622613	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgctcgccgaggcgcacGcccttaagatccagagagag	9	4	13	15	5	0	3	0	0	0	3	2	5	1	3	4	1	0	2	4	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr5:180622613G>A	uc003mmz.1	-	7	1156	c.1089C>T	c.(1087-1089)GGC>GGT	p.G363G	TRIM7_uc003mmv.1_Silent_p.G181G|TRIM7_uc003mmw.1_Silent_p.G155G|TRIM7_uc003mmx.1_Silent_p.G155G|TRIM7_uc003mmy.1_Silent_p.G155G	NM_203293	NP_976038	Q9C029	TRIM7_HUMAN	tripartite motif-containing 7 isoform 1	363	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|skin(1)	3	all_cancers(89;6.03e-06)|all_epithelial(37;7.1e-07)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.000172)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_lung(500;0.0221)|all_hematologic(541;0.0433)|Lung NSC(249;0.132)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;2e-06)|Epithelial(171;1.35e-05)|OV - Ovarian serous cystadenocarcinoma(192;0.000128)|Kidney(146;0.0674)|GBM - Glioblastoma multiforme(465;0.0802)		CGAGGCGCACGCCCTTAAGAT	0.677													19	112					0	0	0.008871	0	0		A	180622613	A	A	180622613	2	1	212	1	0	0	0	0	0	0	0	1	16569	1074	38	1		1	TRIM7	5	180622613	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	39769	180622613	292647	530	104335											
IRF4	3662	broad.mit.edu	37	chr6	405052	405052	+	Silent	SNP	G	A	A	0	0	1	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	gctcaccacggccgctccctGccaagattccaggtgactct	7	8	9	17	2	2	2	1	1	1	1	4	2	4	2	5	2	1	2	5	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:405052G>A	uc003msz.3	+	8	1247	c.1134G>A	c.(1132-1134)CTG>CTA	p.L378L	IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Silent_p.L377L	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	378					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		GCCGCTCCCTGCCAAGATTCC	0.517			T	IGH@	MM 								11	24					0	0	0.013537	0	0		A	405052	A	A	405052	2	1	212	1	0	0	0	0	0	0	0	1	7848	1306	46	2		2	IRF4	6	405052	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		405052	170710015	531	104336											
HUS1B	135458	broad.mit.edu	37	chr6	656858	656858	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcgcacgcggagcacgcaGaccttcgctagcctcgcgac	7	4	14	16	7	0	1	0	0	0	1	2	3	0	2	2	2	2	4	2	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:656858G>T	uc003mtg.2	-	1	107	c.87C>A	c.(85-87)GTC>GTA	p.V29V	EXOC2_uc003mtd.2_Intron|EXOC2_uc003mte.2_Intron|EXOC2_uc011dho.1_Intron	NM_148959	NP_683762	Q8NHY5	HUS1B_HUMAN	HUS1 checkpoint protein B	29											0	Ovarian(93;0.0733)	Breast(5;0.00139)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.041)|BRCA - Breast invasive adenocarcinoma(62;0.0965)		GGAGCACGCAGACCTTCGCTA	0.667													13	19					2.27111e-07	2.41865e-07	0.013537	1	0		T	656858	T	T	656858	2	4	212	1	0	0	0	0	0	0	0	1	7476	929	33	5		5	HUS1B	6	656858	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	251806	656858	170458209	532	104337											
TUBB2B	347733	broad.mit.edu	37	chr6	3225000	3225000	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatctacgcctcgtcctcGccctcctcctcctcgaactc	4	10	6	21	4	1	0	0	0	1	0	9	1	5	0	6	1	2	1	6	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:3225000G>A	uc003mvg.2	-	4	1514	c.1323C>T	c.(1321-1323)GGC>GGT	p.G441G	TUBB2B_uc010jnj.2_Silent_p.G404G|TUBB2B_uc010jnk.2_Silent_p.G369G|TUBB2B_uc003mvh.2_Silent_p.G414G|uc011dhu.1_RNA	NM_178012	NP_821080	Q9BVA1	TBB2B_HUMAN	tubulin, beta 2B	441					'de novo' posttranslational protein folding|microtubule-based movement|neuron migration|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			large_intestine(1)	1	Ovarian(93;0.0386)	all_hematologic(90;0.108)				CCTCGTCCTCGCCCTCCTCCT	0.647													19	34					0	0	0.012319	0	0		A	3225000	A	A	3225000	2	1	212	1	0	0	0	0	0	0	0	1	16781	1074	38	1		1	TUBB2B	6	3225000	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2568142	3225000	167890067	533	104338											
C6orf146	222826	broad.mit.edu	37	chr6	4069126	4069126	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtcagaggtataggtgaaActggcattggagacctccat	13	9	12	7	0	1	3	1	1	0	2	2	4	2	3	2	4	1	2	2	4	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:4069126A>C	uc003mvx.2	-	7	1671	c.1331T>G	c.(1330-1332)GTT>GGT	p.V444G	C6orf146_uc010jnq.1_Intron|C6orf146_uc003mvy.2_Missense_Mutation_p.V381G	NM_173563	NP_775834	Q8IXS0	CF146_HUMAN	hypothetical protein LOC222826	444										ovary(1)	1	Ovarian(93;0.0925)	all_hematologic(90;0.108)				TATAGGTGAAACTGGCATTGG	0.398													30	45					0	0	0.010818	0	0		C	4069126	C	C	4069126	3	2	212	1	0	0	0	0	1	0	0	0	2338	43	2	5	199	5	C6orf146	6	4069126	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	844126	4069126	167045941	534	104339											
ALDH5A1	7915	broad.mit.edu	37	chr6	24523088	24523088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatgaagaagaacctgcgcGtaggtaatggatttgaggaa	14	8	13	6	2	0	4	0	2	0	2	0	6	0	6	2	3	2	2	2	3	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:24523088G>A	uc003neg.2	+	7	1136	c.1108G>A	c.(1108-1110)GTA>ATA	p.V370I	ALDH5A1_uc003nef.2_Missense_Mutation_p.V383I	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	370					acetate metabolic process|central nervous system development|galactosylceramide metabolic process|gamma-aminobutyric acid catabolic process|glucose metabolic process|glutamate metabolic process|glutamine metabolic process|glutathione metabolic process|glycerophospholipid metabolic process|neurotransmitter catabolic process|neurotransmitter secretion|protein homotetramerization|respiratory electron transport chain|short-chain fatty acid metabolic process|succinate metabolic process	mitochondrial matrix|soluble fraction	succinate-semialdehyde dehydrogenase activity				0					Chlormerodrin(DB00534)|NADH(DB00157)|Succinic acid(DB00139)	GAACCTGCGCGTAGGTAATGG	0.408													26	69					0	0	0.004656	0	0		A	24523088	A	A	24523088	3	1	212	1	0	0	0	0	1	0	0	0	502	1145	40	1	1177	1	ALDH5A1	6	24523088	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	20453962	24523088	146591979	535	104340											
TDP2	51567	broad.mit.edu	37	chr6	24653291	24653291	+	Frame_Shift_Del	DEL	T	-	-																															ttgcattttctttaaaaccaTttttaactgattcattcgtt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:24653291delT	uc003nej.2	-	6	752	c.727delA	c.(727-729)ATGfs	p.M243fs	TDP2_uc003nei.2_Frame_Shift_Del_p.M131fs|TDP2_uc010jpu.1_Frame_Shift_Del_p.M243fs	NM_016614	NP_057698	O95551	TYDP2_HUMAN	TRAF and TNF receptor-associated protein	243					cell surface receptor linked signaling pathway|double-strand break repair	PML body	5'-tyrosyl-DNA phosphodiesterase activity|magnesium ion binding|nuclease activity|protein binding|transcription corepressor activity			ovary(1)|lung(1)	2						TTTAAAACCATTTTTAACTGA	0.443								Direct_reversal_of_damage|Editing_and_processing_nucleases					70	146	---	---	---	---						.	-	24653291	-	-	24653291	7	5	212	1	0	1	0	1	0	0	0	0	15754	1493	52	0	369	0	TDP2	6	24653291	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	130203	24653291	146461776	536	104341											
FAM65B	9750	broad.mit.edu	37	chr6	24843458	24843458	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgaggactgtcggcggcaagCctcagatggggccgaggcag	8	5	18	10	3	1	2	1	1	0	1	2	4	1	3	2	6	1	2	2	6	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:24843458C>T	uc003neo.1	-	14	1728	c.1552G>A	c.(1552-1554)GCT>ACT	p.A518T	FAM65B_uc011djs.1_Missense_Mutation_p.A497T|FAM65B_uc011dju.1_Missense_Mutation_p.A502T|FAM65B_uc003nep.2_Missense_Mutation_p.A468T|FAM65B_uc011djt.1_Missense_Mutation_p.A468T	NM_014722	NP_055537	Q9Y4F9	FA65B_HUMAN	hypothetical protein LOC9750 isoform 1	518					cell differentiation|muscle organ development	cytoskeleton|filopodium|mitochondrion	binding			ovary(1)	1						CGGCGGCAAGCCTCAGATGGG	0.577													16	36					0	0	0.00499	0	0		T	24843458	T	T	24843458	3	4	212	1	0	0	0	0	1	0	0	0	5614	739	26	2	1704	2	FAM65B	6	24843458	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	190167	24843458	146271609	537	104342											
SLC17A2	10246	broad.mit.edu	37	chr6	25921306	25921306	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaaatagtaaactgacCtgtccatgccattccctgaa	12	10	6	13	0	0	2	0	2	0	0	2	2	2	2	5	0	3	1	5	0	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:25921306C>A	uc011dkb.1	-	4	573	c.490G>T	c.(490-492)GGT>TGT	p.G164C	SLC17A2_uc011dkc.1_Missense_Mutation_p.G164C|SLC17A2_uc003nfl.2_Missense_Mutation_p.G164C			O00624	NPT3_HUMAN	SubName: Full=Solute carrier family 17 (Sodium phosphate), member 2, isoform CRA_b; SubName: Full=Putative uncharacterized protein SLC17A2;	164					phosphate metabolic process	integral to plasma membrane|membrane fraction	sodium:phosphate symporter activity			ovary(1)	1						GTAAACTGACCTGTCCATGCC	0.428													4	43					0.00909568	0.00923654	0.009096	1	0		A	25921306	A	A	25921306	3	1	212	1	0	0	0	0	1	0	0	0	14442	681	24	5	848	5	SLC17A2	6	25921306	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1077848	25921306	145193761	538	104343											
HIST1H2AH	85235	broad.mit.edu	37	chr6	27114952	27114952	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtaaagctcgcgccaaggcCaagacccgctcttctcgggc	8	6	12	15	4	2	1	0	0	2	1	4	1	2	1	3	3	1	3	3	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:27114952C>T	uc003niz.2	+	1	45	c.45C>T	c.(43-45)GCC>GCT	p.A15A	HIST1H2BK_uc003nix.1_5'Flank|hsa-mir-3143|MI0014167_5'Flank	NM_080596	NP_542163	Q96KK5	H2A1H_HUMAN	histone cluster 1, H2ah	15					nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCGCCAAGGCCAAGACCCGCT	0.602													31	62					0	0	0.003271	0	0		T	27114952	T	T	27114952	2	4	212	1	0	0	0	0	0	0	0	1	7150	581	21	4		4	HIST1H2AH	6	27114952	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1193646	27114952	144000115	539	104344											
TCF19	6941	broad.mit.edu	37	chr6	31127381	31127381	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgtgtgatgtggccctgcgGccccagcaggagcctggcct	4	8	15	14	1	0	1	0	1	0	0	0	2	0	2	5	4	3	1	5	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:31127381G>A	uc003nss.2	+	2	659	c.135G>A	c.(133-135)CGG>CGA	p.R45R	CCHCR1_uc011dne.1_5'Flank|CCHCR1_uc003nsq.3_5'Flank|CCHCR1_uc003nsp.3_5'Flank|CCHCR1_uc003nsr.3_5'Flank|CCHCR1_uc010jsk.1_5'Flank|TCF19_uc003nst.2_Silent_p.R45R	NM_001077511	NP_001070979	Q9Y242	TCF19_HUMAN	transcription factor 19	45	FHA.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TGGCCCTGCGGCCCCAGCAGG	0.692													11	16					0	0	0.008291	0	0		A	31127381	A	A	31127381	2	1	212	1	0	0	0	0	0	0	0	1	15714	1190	42	2		2	TCF19	6	31127381	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4012429	31127381	139987686	540	104345											
BAT2	7916	broad.mit.edu	37	chr6	31599862	31599862	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactcacccaggtccctctcGctcccccaccaccaggagcc	7	5	6	23	1	2	0	1	0	1	0	5	1	4	1	7	2	1	1	7	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:31599862G>A	uc003nvb.3	+	16	3661	c.3412G>A	c.(3412-3414)GCT>ACT	p.A1138T	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.A1138T	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1138	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						GGTCCCTCTCGCTCCCCCACC	0.662													7	59					0	0	0.00308	0	0		A	31599862	A	A	31599862	3	1	212	1	0	0	0	0	1	0	0	0	1320	1087	38	1	3470	1	BAT2	6	31599862	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	472481	31599862	139515205	541	104346											
BAT5	7920	broad.mit.edu	37	chr6	31668763	31668763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagtagcagcaatgtcccaGcatagtgagaaaacggcacc	15	5	11	10	1	0	1	0	1	0	1	1	3	1	1	2	1	4	5	2	1	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:31668763G>A	uc003nvy.1	-	4	329	c.299C>T	c.(298-300)GCT>GTT	p.A100V	BAT5_uc003nvx.1_5'UTR|BAT5_uc011dny.1_Missense_Mutation_p.A67V|BAT5_uc003nvz.1_5'UTR|BAT5_uc011dnz.1_5'UTR|BAT5_uc010jtc.1_RNA|BAT5_uc011doa.1_Silent_p.L2L	NM_021160	NP_066983	O95870	ABHGA_HUMAN	HLA-B associated transcript 5	100	Helical; (Potential).					integral to membrane	hydrolase activity|protein binding				0						CAATGTCCCAGCATAGTGAGA	0.512													22	27					0	0	0.014323	0	0		A	31668763	A	A	31668763	3	1	212	1	0	0	0	0	1	0	0	0	1325	971	34	2	1445	2	BAT5	6	31668763	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	68901	31668763	139446304	542	104347											
FKBPL	63943	broad.mit.edu	37	chr6	32097117	32097117	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctccctccatggccctacGcccatagttagctctgtcca	6	11	6	18	1	1	0	0	0	1	0	5	0	5	0	6	1	2	2	6	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:32097117G>A	uc003nzr.2	-	2	711	c.441C>T	c.(439-441)GGC>GGT	p.G147G	ATF6B_uc003nzo.2_5'Flank|ATF6B_uc003nzn.2_5'Flank|ATF6B_uc011dpg.1_5'Flank|ATF6B_uc011dph.1_5'Flank	NM_022110	NP_071393	Q9UIM3	FKBPL_HUMAN	WAF-1/CIP1 stabilizing protein 39	147					response to radiation	membrane|nucleus	FK506 binding|peptidyl-prolyl cis-trans isomerase activity				0						ATGGCCCTACGCCCATAGTTA	0.577													106	184					0	0	0.01441	0	0		A	32097117	A	A	32097117	2	1	212	1	0	0	0	0	0	0	0	1	5930	1074	38	1		1	FKBPL	6	32097117	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	428354	32097117	139017950	543	104348											
AGPAT1	10554	broad.mit.edu	37	chr6	32137062	32137062	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagccagggttcacccaccGcccccaggcttcttcagata	9	7	9	16	1	3	2	2	0	1	2	3	2	3	2	5	2	1	2	5	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:32137062G>A	uc003oae.2	-	7	1161	c.843C>T	c.(841-843)GGC>GGT	p.G281G	PPT2_uc003nzy.1_Intron|AGPAT1_uc011dpj.1_RNA|AGPAT1_uc011dpk.1_Silent_p.G245G|AGPAT1_uc003oaf.2_Silent_p.G281G|AGPAT1_uc003oag.2_Silent_p.G171G|AGPAT1_uc003oah.2_Silent_p.G281G|AGPAT1_uc003oai.1_Silent_p.G281G|AGPAT1_uc011dpl.1_Silent_p.G169G	NM_006411	NP_006402	Q99943	PLCA_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 1	281					energy reserve metabolic process|phosphatidic acid biosynthetic process|positive regulation of cellular metabolic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			central_nervous_system(1)	1						TTCACCCACCGCCCCCAGGCT	0.612													13	26					0	0	0.006122	0	0		A	32137062	A	A	32137062	2	1	212	1	0	0	0	0	0	0	0	1	386	1074	38	1		1	AGPAT1	6	32137062	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	39945	32137062	138978005	544	104349											
NOTCH4	4855	broad.mit.edu	37	chr6	32188990	32188990	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatcacgttcacaggcatgGccctcgaagcccggtgggca	9	6	12	14	3	2	0	2	0	0	0	3	1	2	0	2	4	1	3	2	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:32188990G>A	uc003obb.2	-	4	703	c.564C>T	c.(562-564)GGC>GGT	p.G188G	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA|NOTCH4_uc003obc.2_Silent_p.G188G	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	188	Extracellular (Potential).|EGF-like 4.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						CACAGGCATGGCCCTCGAAGC	0.602													13	27					0	0	0.001855	0	0		A	32188990	A	A	32188990	2	1	212	1	0	0	0	0	0	0	0	1	10570	1190	42	2		2	NOTCH4	6	32188990	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	51928	32188990	138926077	545	104350											
BRD2	6046	broad.mit.edu	37	chr6	32947641	32947641	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	acaaagacagccccacctgcCctgcctacaggttatgattc	11	8	7	15	0	0	2	0	1	0	1	1	2	0	2	5	1	4	1	5	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:32947641C>A	uc003ocn.3	+	11	3579	c.1878C>A	c.(1876-1878)GCC>GCA	p.A626A	BRD2_uc003ocq.3_Silent_p.A626A|BRD2_uc003ocp.3_Silent_p.A506A|BRD2_uc010juh.2_Silent_p.A661A	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	626					spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						CCCCACCTGCCCTGCCTACAG	0.512													3	27					0.00909568	0.00923654	0.009096	1	0		A	32947641	A	A	32947641	2	1	212	1	0	0	0	0	0	0	0	1	1505	610	22	5		5	BRD2	6	32947641	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	758651	32947641	138167426	546	104351											
ITPR3	3710	broad.mit.edu	37	chr6	33658863	33658863	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttcattctcgaggtcgaccGgctgcccaacaaccactcca	9	8	7	17	3	2	0	1	0	1	0	5	2	3	0	4	2	3	1	4	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:33658863G>T	uc011drk.1	+	52	7421	c.7202G>T	c.(7201-7203)CGG>CTG	p.R2401L	ITPR3_uc003oey.2_Missense_Mutation_p.R488L	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	2401	Extracellular (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GAGGTCGACCGGCTGCCCAAC	0.582													25	35					6.32553e-13	7.06428e-13	0.004656	1	0		T	33658863	T	T	33658863	3	4	212	1	0	0	0	0	1	0	0	0	7938	1116	39	5	7408	5	ITPR3	6	33658863	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	711222	33658863	137456204	547	104352											
GLP1R	2740	broad.mit.edu	37	chr6	39041466	39041466	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tactggctcttggtggagggCgtgtacctgtacacactgct	6	12	13	10	1	1	0	0	0	1	0	1	1	1	1	1	4	4	4	1	4	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:39041466C>T	uc003ooj.3	+	7	804	c.744C>T	c.(742-744)GGC>GGT	p.G248G	GLP1R_uc003ooh.2_RNA|GLP1R_uc003ooi.2_RNA	NM_002062	NP_002053	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor precursor	248	Helical; Name=3; (Potential).				activation of adenylate cyclase activity|cAMP-mediated signaling|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	glucagon receptor activity|peptide receptor activity, G-protein coupled			lung(3)|breast(1)|pancreas(1)	5					Exenatide(DB01276)|Glucagon recombinant(DB00040)	TGGTGGAGGGCGTGTACCTGT	0.567													37	60					0	0	0.00874	0	0		T	39041466	T	T	39041466	2	4	212	1	0	0	0	0	0	0	0	1	6467	755	27	1		1	GLP1R	6	39041466	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5382603	39041466	132073601	548	104353											
MOCS1	4337	broad.mit.edu	37	chr6	39895114	39895114	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagatccgcaggtagctgtgCtgccggccgaagctgtctgt	6	9	15	11	3	1	1	0	0	1	1	2	3	2	1	3	2	4	5	3	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:39895114C>A	uc003opb.2	-	1	342	c.204G>T	c.(202-204)CAG>CAT	p.Q68H	MOCS1_uc003opa.2_Missense_Mutation_p.Q68H|MOCS1_uc003opc.2_Missense_Mutation_p.Q68H|MOCS1_uc003opd.2_Missense_Mutation_p.Q68H|MOCS1_uc003ope.2_Intron	NM_005942	NP_005933	Q9NZB8	MOCS1_HUMAN	molybdenum cofactor synthesis-step 1 protein	68	Molybdenum cofactor biosynthesis protein A.				Mo-molybdopterin cofactor biosynthetic process|Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol|molybdopterin synthase complex|nucleus	4 iron, 4 sulfur cluster binding|4 iron, 4 sulfur cluster binding|catalytic activity|GTP binding|metal ion binding			ovary(1)|liver(1)|central_nervous_system(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GGTAGCTGTGCTGCCGGCCGA	0.637													12	20					9.05144e-12	9.99305e-12	0.001855	1	0		A	39895114	A	A	39895114	3	1	212	1	0	0	0	0	1	0	0	0	9708	796	28	5	989	5	MOCS1	6	39895114	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	853648	39895114	131219953	549	104354											
FRS3	10817	broad.mit.edu	37	chr6	41738915	41738915	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcaaggccattccagccCggctcctctgggctcagtct	5	9	12	15	1	3	0	1	0	2	0	5	0	5	0	4	4	1	3	4	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:41738915C>T	uc003orc.1	-	7	1165	c.921G>A	c.(919-921)CCG>CCA	p.P307P		NM_006653	NP_006644	O43559	FRS3_HUMAN	fibroblast growth factor receptor substrate 3	307					fibroblast growth factor receptor signaling pathway	plasma membrane	fibroblast growth factor receptor binding|insulin receptor binding			ovary(2)	2	Ovarian(28;0.0355)|Colorectal(47;0.121)		Epithelial(12;8.38e-05)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			CATTCCAGCCCGGCTCCTCTG	0.687													3	22					0	0	0.004672	0	0		T	41738915	T	T	41738915	2	4	212	1	0	0	0	0	0	0	0	1	6076	639	23	1		1	FRS3	6	41738915	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1843801	41738915	129376152	550	104355											
TRERF1	55809	broad.mit.edu	37	chr6	42231075	42231075	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cacgagcacaggcatctcgtCgtccgacatcgagctggctg	8	7	12	14	5	1	0	0	0	1	0	5	3	2	0	1	2	2	4	1	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:42231075C>T	uc003osd.2	-	8	2430	c.1867G>A	c.(1867-1869)GAC>AAC	p.D623N	TRERF1_uc011duq.1_Intron|TRERF1_uc003osb.2_Intron|TRERF1_uc003osc.2_Intron|TRERF1_uc003ose.2_Missense_Mutation_p.D623N	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	623	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GGCATCTCGTCGTCCGACATC	0.662													33	52					0	0	0.004878	0	0		T	42231075	T	T	42231075	3	4	212	1	0	0	0	0	1	0	0	0	16501	884	31	1	1779	1	TRERF1	6	42231075	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	492160	42231075	128883992	551	104356											
CUL9	23113	broad.mit.edu	37	chr6	43154154	43154154	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atcagtgctggggacgagggCgagttccggcagagcaacaa	11	5	16	9	3	1	1	1	0	0	1	2	4	2	2	1	4	3	4	1	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:43154154C>T	uc003ouk.2	+	4	1287	c.1212C>T	c.(1210-1212)GGC>GGT	p.G404G	CUL9_uc003ouj.1_Silent_p.G404G|CUL9_uc003oul.2_Silent_p.G404G|CUL9_uc010jyk.2_5'UTR|CUL9_uc003oum.1_5'Flank	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	404					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GGGACGAGGGCGAGTTCCGGC	0.582													15	34					0	0	0.00499	0	0		T	43154154	T	T	43154154	2	4	212	1	0	0	0	0	0	0	0	1	4064	755	27	1		1	CUL9	6	43154154	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	923079	43154154	127960913	552	104357											
CUL9	23113	broad.mit.edu	37	chr6	43160851	43160851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcatgaccaagcacgagtggCggccgctctttgccagggag	8	7	14	12	3	2	1	1	1	1	0	2	3	2	2	3	3	2	2	3	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:43160851C>T	uc003ouk.2	+	9	2368	c.2293C>T	c.(2293-2295)CGG>TGG	p.R765W	CUL9_uc003oul.2_Missense_Mutation_p.R765W|CUL9_uc010jyk.2_5'UTR	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	765					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GCACGAGTGGCGGCCGCTCTT	0.592													11	220					0	0	0.008291	0	0		T	43160851	T	T	43160851	3	4	212	1	0	0	0	0	1	0	0	0	4064	759	27	1	2323	1	CUL9	6	43160851	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6697	43160851	127954216	553	104358											
TDRD6	221400	broad.mit.edu	37	chr6	46660831	46660831	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaaatgactatttctatGaaataataacagaagatgtg	18	11	9	3	0	1	4	0	2	1	2	1	5	1	5	0	1	1	0	0	1	7	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:46660831G>T	uc003oyj.2	+	1	4966	c.4966G>T	c.(4966-4968)GAA>TAA	p.E1656*	TDRD6_uc010jze.2_Nonsense_Mutation_p.E1650*	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1656					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CTATTTCTATGAAATAATAAC	0.363													13	28					9.05144e-12	9.99305e-12	0.001855	1	0		T	46660831	T	T	46660831	4	4	212	1	0	0	0	0	0	1	0	0	15759	1291	45	5	4968	5	TDRD6	6	46660831	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3499980	46660831	124454236	554	104359											
TDRD6	221400	broad.mit.edu	37	chr6	46661433	46661433	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactggaatctattgagttAcagaattctctggtggtgga	11	13	12	5	0	2	2	0	1	2	1	3	5	2	4	0	4	2	1	0	4	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:46661433A>G	uc003oyj.2	+	1	5568	c.5568A>G	c.(5566-5568)TTA>TTG	p.L1856L	TDRD6_uc010jze.2_Silent_p.L1850L	NM_001010870	NP_001010870	O60522	TDRD6_HUMAN	tudor domain containing 6	1856					cell differentiation|multicellular organismal development|spermatogenesis	chromatoid body	nucleic acid binding			breast(3)|ovary(2)|skin(1)	6			Lung(136;0.192)			CTATTGAGTTACAGAATTCTC	0.453													22	22					0	0	0.012319	0	0		G	46661433	G	G	46661433	2	3	212	1	0	0	0	0	0	0	0	1	15759	388	14	3		3	TDRD6	6	46661433	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	602	46661433	124453634	555	104360											
PKHD1	5314	broad.mit.edu	37	chr6	51930802	51930802	+	Frame_Shift_Del	DEL	A	-	-																															gtaacctgggcagaattgtcAaaaaagtctcctgtaattgt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:51930802delA	uc003pah.1	-	12	1128	c.852delT	c.(850-852)TTTfs	p.F284fs	PKHD1_uc003pai.2_Frame_Shift_Del_p.F284fs	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	284	IPT/TIG 3.|Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					CAGAATTGTCAAAAAAGTCTC	0.358													16	36	---	---	---	---						.	-	51930802	-	-	51930802	7	5	212	1	0	1	0	1	0	0	0	0	11990	127	5	0	11635	0	PKHD1	6	51930802	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	5269369	51930802	119184265	556	104361											
GFRAL	389400	broad.mit.edu	37	chr6	55196524	55196524	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttattcaagctatggggttaAgcttggaaaatgaatacact	14	13	9	5	0	1	1	1	1	0	0	1	2	1	2	0	3	3	3	0	3	8	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:55196524A>C	uc003pcm.1	+	2	120	c.34A>C	c.(34-36)AGC>CGC	p.S12R		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	12						integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TATGGGGTTAAGCTTGGAAAA	0.318													7	32					0	0	0.006214	0	0		C	55196524	C	C	55196524	3	2	212	1	0	0	0	0	1	0	0	0	6366	72	3	5	40	5	GFRAL	6	55196524	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3265722	55196524	115918543	557	104362											
HMGCLL1	54511	broad.mit.edu	37	chr6	55406891	55406891	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatccatccctaggcccaacTtctactattttaacaaactc	13	12	2	14	0	1	0	0	0	1	0	4	0	3	0	3	1	4	0	3	1	7	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:55406891T>G	uc003pcn.2	-	3	405	c.246A>C	c.(244-246)GAA>GAC	p.E82D	HMGCLL1_uc003pco.2_Missense_Mutation_p.E52D|HMGCLL1_uc010jzx.2_5'UTR|HMGCLL1_uc011dxc.1_Missense_Mutation_p.E52D|HMGCLL1_uc011dxd.1_Missense_Mutation_p.E52D|HMGCLL1_uc011dxe.1_Missense_Mutation_p.E52D|HMGCLL1_uc003pcp.2_Missense_Mutation_p.E52D	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	82							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			TAGGCCCAACTTCTACTATTT	0.313													7	23					0	0	0.004482	0	0		G	55406891	G	G	55406891	3	3	212	1	0	0	0	0	1	0	0	0	7246	1606	56	5	898	5	HMGCLL1	6	55406891	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	210367	55406891	115708176	558	104363											
DST	667	broad.mit.edu	37	chr6	56420259	56420259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatcctcacagagtgcctggGccacttttatctgcttcttt	7	15	7	12	0	3	1	1	0	2	1	4	1	4	1	3	1	2	1	3	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:56420259G>A	uc003pdf.2	-	54	8691	c.8663C>T	c.(8662-8664)GCC>GTC	p.A2888V	DST_uc003pcz.3_Missense_Mutation_p.A2710V|DST_uc011dxj.1_Missense_Mutation_p.A2739V|DST_uc011dxk.1_Missense_Mutation_p.A2750V|DST_uc003pcy.3_Missense_Mutation_p.A2384V	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	4796					cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			GAGTGCCTGGGCCACTTTTAT	0.438													29	45					0	0	0.008361	0	0		A	56420259	A	A	56420259	3	1	212	1	0	0	0	0	1	0	0	0	4789	1203	42	2	8540	2	DST	6	56420259	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1013368	56420259	114694808	559	104364											
EYS	346007	broad.mit.edu	37	chr6	66204765	66204765	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catgaccagagcaaaattctGaactcagagattcctggcag	14	8	9	10	0	2	4	1	2	1	2	3	5	3	4	2	1	2	2	2	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:66204765G>T	uc011dxu.1	-	4	1077	c.539C>A	c.(538-540)TCA>TAA	p.S180*	EYS_uc003peq.2_Nonsense_Mutation_p.S180*|EYS_uc003per.1_Nonsense_Mutation_p.S180*|EYS_uc010kaj.1_RNA	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	180	EGF-like 1.				response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						GCAAAATTCTGAACTCAGAGA	0.438													20	37					1.00905e-13	1.13171e-13	0.008871	1	0		T	66204765	T	T	66204765	4	4	212	1	0	0	0	0	0	1	0	0	5340	1294	45	5	9017	5	EYS	6	66204765	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9784506	66204765	104910302	560	104365											
BAI3	577	broad.mit.edu	37	chr6	70037717	70037717	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttgcttttcttgcaggtttaCcagcattagtagtggccaca	8	15	9	9	0	1	0	0	0	1	0	1	0	1	0	2	2	4	5	2	2	3	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:70037717C>A	uc003pev.3	+	22	3419	c.2971C>A	c.(2971-2973)CCA>ACA	p.P991T	BAI3_uc010kak.2_Missense_Mutation_p.P991T|BAI3_uc011dxx.1_Missense_Mutation_p.P197T|BAI3_uc003pex.1_Missense_Mutation_p.P121T	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	991	Helical; Name=4; (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				TGCAGGTTTACCAGCATTAGT	0.393													9	28					0.000442599	0.000454736	0.006214	1	0		A	70037717	A	A	70037717	3	1	212	1	0	0	0	0	1	0	0	0	1301	507	18	5	3049	5	BAI3	6	70037717	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3832952	70037717	101077350	561	104366											
COL9A1	1297	broad.mit.edu	37	chr6	70991121	70991121	+	Frame_Shift_Del	DEL	G	-	-																															catcgatgcctggaactccaGgggggcccggaggcccggga																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:70991121delG	uc003pfg.3	-	8	1007	c.848delC	c.(847-849)CCTfs	p.P283fs	COL9A1_uc003pfe.3_5'Flank|COL9A1_uc003pff.3_Frame_Shift_Del_p.P40fs	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	283	Triple-helical region (COL3).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						TGGAACTCCAGGGGGGCCCGG	0.592													11	17	---	---	---	---						.	-	70991121	-	-	70991121	7	5	212	1	0	1	0	1	0	0	0	0	3710	1000	35	0	2041	0	COL9A1	6	70991121	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	953404	70991121	100123946	562	104367											
FAM135A	57579	broad.mit.edu	37	chr6	71235709	71235709	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aattcaaaactgatttgtttAggcactccttgtgtcatttc	10	17	6	8	0	2	1	2	1	0	0	4	1	3	1	1	1	1	2	1	1	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:71235709A>G	uc003pfj.2	+	13	3055	c.2922A>G	c.(2920-2922)TTA>TTG	p.L974L	FAM135A_uc003pfi.2_Silent_p.L778L|FAM135A_uc003pfh.2_Silent_p.L761L|FAM135A_uc003pfl.2_Silent_p.L641L|FAM135A_uc003pfn.2_Silent_p.L180L|FAM135A_uc003pfo.1_Silent_p.L345L|FAM135A_uc010kan.1_5'Flank	NM_001162529	NP_001156001	Q9P2D6	F135A_HUMAN	hypothetical protein LOC57579 isoform c	974										central_nervous_system(1)	1						TGATTTGTTTAGGCACTCCTT	0.328													3	24					0	0	0.009096	0	0		G	71235709	G	G	71235709	2	3	212	1	0	0	0	0	0	0	0	1	5459	417	15	3		3	FAM135A	6	71235709	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	244588	71235709	99879358	563	104368											
B3GAT2	135152	broad.mit.edu	37	chr6	71665962	71665962	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcccgtgagccgggccGcccctgcggagcgggagtcg	3	5	19	14	6	0	1	0	1	0	0	2	3	1	3	5	4	3	0	5	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:71665962G>A	uc003pfv.2	-	1	827	c.171C>T	c.(169-171)GGC>GGT	p.G57G	B3GAT2_uc011dxz.1_RNA|B3GAT2_uc003pfw.2_Silent_p.G57G	NM_080742	NP_542780	Q9NPZ5	B3GA2_HUMAN	beta-1,3-glucuronyltransferase 2	57	Lumenal (Potential).				carbohydrate biosynthetic process	Golgi membrane|integral to membrane	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity|metal ion binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAGCCGGGCCGCCCCTGCGGA	0.736													7	12					0	0	0.004482	0	0		A	71665962	A	A	71665962	2	1	212	1	0	0	0	0	0	0	0	1	1255	1074	38	1		1	B3GAT2	6	71665962	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	430253	71665962	99449105	564	104369											
C6orf150	115004	broad.mit.edu	37	chr6	74161472	74161472	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggccgagaccggcaggcCggggctgggcacgtcccagg	5	2	21	13	4	0	1	0	0	0	1	1	2	1	1	4	8	0	3	4	8	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:74161472C>G	uc003pgx.1	-	1	572	c.433G>C	c.(433-435)GGC>CGC	p.G145R		NM_138441	NP_612450	Q8N884	M21D1_HUMAN	hypothetical protein LOC115004	145											0						ACCGGCAGGCCGGGGCTGGGC	0.706													4	16					0	0	0.009096	0	0		G	74161472	G	G	74161472	3	3	212	1	0	0	0	0	1	0	0	0	2340	652	23	5	1155	5	C6orf150	6	74161472	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2495510	74161472	96953595	565	104370											
SENP6	26054	broad.mit.edu	37	chr6	76412665	76412665	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatacagtgtgaaaaaaataAatcatactgcgagtgaaaat	21	9	7	4	1	1	2	1	2	0	0	1	3	1	2	0	0	3	0	0	0	10	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:76412665A>C	uc003pid.3	+	19	3212	c.2593A>C	c.(2593-2595)AAT>CAT	p.N865H	SENP6_uc003pie.3_Missense_Mutation_p.N858H|SENP6_uc010kbf.2_Intron	NM_015571	NP_056386	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6 isoform 1	865	Protease.				proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)				GAAAAAAATAAATCATACTGC	0.363													27	78					0	0	0.00632	0	0		C	76412665	C	C	76412665	3	2	212	1	0	0	0	0	1	0	0	0	14075	14	1	5	2667	5	SENP6	6	76412665	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2251193	76412665	94702402	566	104371											
HTR1B	3351	broad.mit.edu	37	chr6	78172572	78172572	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcctgacgccagaagaagggCggcagcgagatagagatgga	13	3	17	8	3	0	5	0	1	0	4	0	8	0	6	2	3	1	1	2	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:78172572C>T	uc003pil.1	-	1	549	c.549G>A	c.(547-549)CCG>CCA	p.P183P		NM_000863	NP_000854	P28222	5HT1B_HUMAN	5-hydroxytryptamine (serotonin) receptor 1B	183	Helical; Name=4; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cAMP biosynthetic process|synaptic transmission	integral to plasma membrane	protein binding|serotonin receptor activity				0		all_cancers(76;0.0867)|Acute lymphoblastic leukemia(125;0.00119)|all_hematologic(105;0.0332)		BRCA - Breast invasive adenocarcinoma(397;0.205)	Almotriptan(DB00918)|Dexfenfluramine(DB01191)|Dihydroergotamine(DB00320)|Eletriptan(DB00216)|Ergotamine(DB00696)|Frovatriptan(DB00998)|Naratriptan(DB00952)|Pindolol(DB00960)|Propranolol(DB00571)|Rizatriptan(DB00953)|Sumatriptan(DB00669)|Venlafaxine(DB00285)|Zolmitriptan(DB00315)	AGAAGAAGGGCGGCAGCGAGA	0.597													19	66					0	0	0.012319	0	0		T	78172572	T	T	78172572	2	4	212	1	0	0	0	0	0	0	0	1	7453	755	27	1		1	HTR1B	6	78172572	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1759907	78172572	92942495	567	104372											
HMGN3	9324	broad.mit.edu	37	chr6	79918293	79918293	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctggcagaccgtcttgtggGctacaaagggaatgggaaaa	12	8	14	7	1	2	1	0	0	2	1	2	3	2	3	1	4	1	2	1	4	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:79918293G>A	uc003pit.2	-	3	245	c.67C>T	c.(67-69)CCC>TCC	p.P23S	HMGN3_uc003pis.2_Missense_Mutation_p.P23S|HMGN3_uc003piu.1_Missense_Mutation_p.P23S	NM_004242	NP_004233	Q15651	HMGN3_HUMAN	high mobility group nucleosomal binding domain 3	23					chromatin modification	chromatin|cytoplasm|nucleus	DNA binding|thyroid hormone receptor binding				0		all_cancers(76;0.000116)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0393)		BRCA - Breast invasive adenocarcinoma(397;0.125)		CGTCTTGTGGGCTACAAAGGG	0.353													38	121					0	0	0.00623	0	0		A	79918293	A	A	79918293	3	1	212	1	0	0	0	0	1	0	0	0	7252	1217	42	2	248	2	HMGN3	6	79918293	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1745721	79918293	91196774	568	104373											
MDN1	23195	broad.mit.edu	37	chr6	90377778	90377778	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcacatccttcatgccctcGccttctccaattccacctcc	6	12	2	21	1	3	0	2	0	1	0	8	0	6	0	7	0	1	0	7	0	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:90377778G>A	uc003pnn.1	-	84	14165	c.14049C>T	c.(14047-14049)GGC>GGT	p.G4683G		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4683					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TCATGCCCTCGCCTTCTCCAA	0.438													23	85					0	0	0.003954	0	0		A	90377778	A	A	90377778	2	1	212	1	0	0	0	0	0	0	0	1	9433	1074	38	1		1	MDN1	6	90377778	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	10459485	90377778	80737289	569	104374											
MDN1	23195	broad.mit.edu	37	chr6	90428516	90428516	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacccagcagctcagtagtAtccattgcactgttcatagc	10	10	7	14	0	2	0	2	0	0	0	3	0	3	0	3	0	4	6	3	0	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:90428516A>T	uc003pnn.1	-	42	6407	c.6291T>A	c.(6289-6291)GAT>GAA	p.D2097E		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2097					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		GCTCAGTAGTATCCATTGCAC	0.507													40	106					0	0	0.007835	0	0		T	90428516	T	T	90428516	3	4	212	1	0	0	0	0	1	0	0	0	9433	446	16	5	10743	5	MDN1	6	90428516	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	50738	90428516	80686551	570	104375											
BACH2	60468	broad.mit.edu	37	chr6	90642334	90642334	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggtccggggggagccgcGcctggctccaagcagcaggg	5	3	21	12	3	0	0	0	0	0	0	2	1	2	1	4	7	3	3	4	7	1	0	rs150771521	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:90642334G>A	uc011eab.1	-	9	3128	c.2319C>T	c.(2317-2319)GGC>GGT	p.G773G	BACH2_uc003pnw.2_Silent_p.G773G	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	773						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		GGGGAGCCGCGCCTGGCTCCA	0.637													21	53					0	0	0.00278	0	0		A	90642334	A	A	90642334	2	1	212	1	0	0	0	0	0	0	0	1	1285	1074	38	1		1	BACH2	6	90642334	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	213818	90642334	80472733	571	104376											
KIAA0776	23376	broad.mit.edu	37	chr6	96996089	96996089	+	Frame_Shift_Del	DEL	T	-	-																															ttccaggatgagattgaagaTtttttaagaaaacacataca																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:96996089delT	uc003por.2	+	13	1500	c.1452delT	c.(1450-1452)GATfs	p.D484fs	KIAA0776_uc010kck.2_RNA	NM_015323	NP_056138	O94874	UFL1_HUMAN	hypothetical protein LOC23376	484					negative regulation of NF-kappaB transcription factor activity|negative regulation of protein ubiquitination|protein ufmylation	endoplasmic reticulum|nucleus	protein binding|UFM1 conjugating enzyme activity			ovary(1)	1		all_cancers(76;5.83e-05)|Acute lymphoblastic leukemia(125;7.02e-10)|all_hematologic(75;1.23e-06)|all_epithelial(107;0.0604)|Colorectal(196;0.0721)		BRCA - Breast invasive adenocarcinoma(108;0.0934)		AGATTGAAGATTTTTTAAGAA	0.313													14	20	---	---	---	---						.	-	96996089	-	-	96996089	7	5	212	1	0	1	0	1	0	0	0	0	8209	1490	52	0	1502	0	KIAA0776	6	96996089	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	6353755	96996089	74118978	572	104377											
LACE1	246269	broad.mit.edu	37	chr6	108723201	108723201	+	Missense_Mutation	SNP	T	A	A	0	1	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	tatcatttttttctttcagaTctctataaaaatggactcca	12	18	3	8	0	4	1	2	0	2	1	6	2	5	2	1	1	0	0	1	1	5	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:108723201T>A	uc003psj.2	+	7	936	c.750T>A	c.(748-750)GAT>GAA	p.D250E		NM_145315	NP_660358	Q8WV93	LACE1_HUMAN	lactation elevated 1	250							ATP binding			central_nervous_system(1)	1		all_cancers(87;1.5e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;6.79e-05)|Colorectal(196;0.0294)|all_lung(197;0.0486)|Lung SC(18;0.152)		BRCA - Breast invasive adenocarcinoma(108;0.00179)|Epithelial(106;0.0024)|all cancers(137;0.00379)|OV - Ovarian serous cystadenocarcinoma(136;0.0118)		TTCTTTCAGATCTCTATAAAA	0.279													6	13					0	0	0.001984	0	0		A	108723201	A	A	108723201	3	1	212	1	0	0	0	0	1	0	0	0	8611	1449	50	5	776	5	LACE1	6	108723201	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	11727112	108723201	62391866	573	104378											
CDC40	51362	broad.mit.edu	37	chr6	110550119	110550119	+	Frame_Shift_Del	DEL	T	-	-																															tagattaaataagaaaaaaaTttttaagggccatatggtag																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:110550119delT	uc003pua.2	+	14	1526	c.1502delT	c.(1501-1503)ATTfs	p.I501fs		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	501					mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		AAGAAAAAAATTTTTAAGGGC	0.333													15	23	---	---	---	---						.	-	110550119	-	-	110550119	7	5	212	1	0	1	0	1	0	0	0	0	3073	1493	52	0	1556	0	CDC40	6	110550119	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	1826918	110550119	60564948	574	104379											
MARCKS	4082	broad.mit.edu	37	chr6	114181338	114181338	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gctgccgaaggcggcaaggaCgaggccgccgggggcgcagc	7	1	20	13	6	0	0	0	0	0	0	0	3	0	1	3	6	2	3	3	6	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:114181338C>T	uc003pvy.3	+	2	977	c.582C>T	c.(580-582)GAC>GAT	p.D194D		NM_002356	NP_002347	P29966	MARCS_HUMAN	myristoylated alanine-rich protein kinase C	194					energy reserve metabolic process|regulation of insulin secretion	actin cytoskeleton|plasma membrane	actin filament binding|calmodulin binding				0		all_cancers(87;7.65e-05)|all_epithelial(87;0.000296)|all_hematologic(75;0.0172)|Colorectal(196;0.0317)|all_lung(197;0.198)		Epithelial(106;1.59e-07)|all cancers(137;9.85e-07)|OV - Ovarian serous cystadenocarcinoma(136;0.000322)		gcggcaaggacgaggccgccg	0.254													10	7					0	0	0.006214	0	0		T	114181338	T	T	114181338	2	4	212	1	0	0	0	0	0	0	0	1	9327	535	19	1		1	MARCKS	6	114181338	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3631219	114181338	56933729	575	104380											
TAAR5	9038	broad.mit.edu	37	chr6	132910413	132910413	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggagggatagagcagggggTcacagatggcacagtggcgg	10	5	20	6	1	1	2	1	0	0	2	1	4	1	4	0	7	1	2	0	7	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:132910413T>G	uc003qdk.2	-	1	465	c.413A>C	c.(412-414)GAC>GCC	p.D138A		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	138	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		GAGCAGGGGGTCACAGATGGC	0.562													30	84					0	0	0.003755	0	0		G	132910413	G	G	132910413	3	3	212	1	0	0	0	0	1	0	0	0	15516	1667	58	5	604	5	TAAR5	6	132910413	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	18729075	132910413	38204654	576	104381											
TAAR5	9038	broad.mit.edu	37	chr6	132910785	132910785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcacctggtagcagaatgccGcagggtgctcttcagcacct	8	9	11	13	1	3	1	2	0	1	1	3	1	3	1	3	2	4	5	3	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:132910785G>A	uc003qdk.2	-	1	93	c.41C>T	c.(40-42)GCG>GTG	p.A14V		NM_003967	NP_003958	O14804	TAAR5_HUMAN	trace amine associated receptor 5	14	Extracellular (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1	Breast(56;0.112)			OV - Ovarian serous cystadenocarcinoma(155;0.00604)|GBM - Glioblastoma multiforme(226;0.015)		GCAGAATGCCGCAGGGTGCTC	0.522													14	57					0	0	0.003163	0	0		A	132910785	A	A	132910785	3	1	212	1	0	0	0	0	1	0	0	0	15516	1087	38	1	976	1	TAAR5	6	132910785	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	372	132910785	38204282	577	104382											
UTRN	7402	broad.mit.edu	37	chr6	144759958	144759958	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttaacactcacagaggagcGcattcagaagatggaaactt	15	8	10	8	1	2	3	2	0	0	3	2	5	2	5	0	2	3	2	0	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:144759958G>A	uc003qkt.2	+	11	1411	c.1319G>A	c.(1318-1320)CGC>CAC	p.R440H	UTRN_uc010khq.1_Missense_Mutation_p.R440H	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	440	Interaction with SYNM.|Spectrin 3.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		ACAGAGGAGCGCATTCAGAAG	0.463													18	36					0	0	0.007413	0	0		A	144759958	A	A	144759958	3	1	212	1	0	0	0	0	1	0	0	0	17129	1087	38	1	1361	1	UTRN	6	144759958	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	11849173	144759958	26355109	578	104383											
UTRN	7402	broad.mit.edu	37	chr6	145156929	145156929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgctagggaagacgagcacGccctcatccagcagtattgc	10	8	11	12	2	1	1	1	0	0	1	2	3	2	2	2	1	4	4	2	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:145156929G>A	uc003qkt.2	+	69	9771	c.9679G>A	c.(9679-9681)GCC>ACC	p.A3227T		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3227					muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		AGACGAGCACGCCCTCATCCA	0.512													67	185					0	0	0.01441	0	0		A	145156929	A	A	145156929	3	1	212	1	0	0	0	0	1	0	0	0	17129	1087	38	1	9953	1	UTRN	6	145156929	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	396971	145156929	25958138	579	104384											
GRM1	2911	broad.mit.edu	37	chr6	146720510	146720510	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagacccgcaacgtgcccGccaacttcaacgaggccaaa	13	4	8	16	4	2	1	2	0	0	1	2	2	2	1	4	1	4	1	4	1	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:146720510G>A	uc010khw.1	+	8	2805	c.2335G>A	c.(2335-2337)GCC>ACC	p.A779T	GRM1_uc010khv.1_Missense_Mutation_p.A779T|GRM1_uc003qll.2_Missense_Mutation_p.A779T|GRM1_uc011edz.1_Missense_Mutation_p.A779T|GRM1_uc011eea.1_Missense_Mutation_p.A779T	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	779	Cytoplasmic (Potential).				synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(8)|ovary(4)|central_nervous_system(3)|large_intestine(2)|breast(2)	19		Ovarian(120;0.0387)		OV - Ovarian serous cystadenocarcinoma(155;5.35e-08)|GBM - Glioblastoma multiforme(68;0.00762)	Acamprosate(DB00659)|L-Glutamic Acid(DB00142)	CAACGTGCCCGCCAACTTCAA	0.507													31	70					0	0	0.007291	0	0		A	146720510	A	A	146720510	3	1	212	1	0	0	0	0	1	0	0	0	6812	1087	38	1	2361	1	GRM1	6	146720510	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1563581	146720510	24394557	580	104385											
SYNE1	23345	broad.mit.edu	37	chr6	152644683	152644683	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttccccaggggttggggcggCtccatcctggagcatgctca	5	9	14	13	1	1	0	1	0	0	0	4	1	4	1	4	6	2	4	4	6	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:152644683C>T	uc010kiw.2	-	82	16449	c.15847G>A	c.(15847-15849)GCC>ACC	p.A5283T	SYNE1_uc003qot.3_Missense_Mutation_p.A5212T|SYNE1_uc003qou.3_Missense_Mutation_p.A5283T|SYNE1_uc010kiz.2_Missense_Mutation_p.A1038T	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5283	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GTTGGGGCGGCTCCATCCTGG	0.552										HNSCC(10;0.0054)			26	49					0	0	0.00632	0	0		T	152644683	T	T	152644683	3	4	212	1	0	0	0	0	1	0	0	0	15470	797	28	2	10879	2	SYNE1	6	152644683	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5924173	152644683	18470384	581	104386											
SYNE1	23345	broad.mit.edu	37	chr6	152646295	152646295	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctgggccacagctcgaaggCgtgtccagcgctgccagacg	7	5	14	15	4	0	1	0	0	0	1	2	2	1	1	4	2	3	2	4	2	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:152646295C>T	uc010kiw.2	-	81	16183	c.15581G>A	c.(15580-15582)CGC>CAC	p.R5194H	SYNE1_uc003qot.3_Missense_Mutation_p.R5123H|SYNE1_uc003qou.3_Missense_Mutation_p.R5194H|SYNE1_uc010kiz.2_Missense_Mutation_p.R949H	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5194	Spectrin 16.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGCTCGAAGGCGTGTCCAGCG	0.552										HNSCC(10;0.0054)			9	133					0	0	0.008291	0	0		T	152646295	T	T	152646295	3	4	212	1	0	0	0	0	1	0	0	0	15470	768	27	1	11149	1	SYNE1	6	152646295	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1612	152646295	18468772	582	104387											
TFB1M	51106	broad.mit.edu	37	chr6	155606374	155606374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actgagccataacagagaggCgactacgctgtttgcttcct	10	10	10	11	2	0	2	0	1	0	1	1	4	1	2	2	1	4	3	2	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:155606374C>T	uc003qqj.3	-	5	648	c.584G>A	c.(583-585)CGC>CAC	p.R195H	TFB1M_uc003qqk.2_Intron	NM_016020	NP_057104	Q8WVM0	TFB1M_HUMAN	transcription factor B1, mitochondrial	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial nucleoid	DNA binding|protein binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			skin(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;1.48e-12)|BRCA - Breast invasive adenocarcinoma(81;0.0131)		AACAGAGAGGCGACTACGCTG	0.413													18	29					0	0	0.006122	0	0		T	155606374	T	T	155606374	3	4	212	1	0	0	0	0	1	0	0	0	15818	768	27	1	468	1	TFB1M	6	155606374	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2960079	155606374	15508693	583	104388											
RSPH3	83861	broad.mit.edu	37	chr6	159401964	159401964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccactgctgtttcttacgcCgttcctgccaagaacgacag	8	10	8	15	3	1	1	0	0	1	1	2	2	2	1	4	0	4	3	4	0	3	3	rs149769974		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:159401964C>T	uc003qrx.2	-	6	1317	c.1127G>A	c.(1126-1128)CGG>CAG	p.R376Q	RSPH3_uc010kju.2_Missense_Mutation_p.R280Q	NM_031924	NP_114130	Q86UC2	RSPH3_HUMAN	radial spoke 3 homolog	376	Potential.									ovary(1)|skin(1)	2		Breast(66;0.00519)|Ovarian(120;0.123)		OV - Ovarian serous cystadenocarcinoma(65;2.36e-16)|BRCA - Breast invasive adenocarcinoma(81;5.92e-06)		TTTCTTACGCCGTTCCTGCCA	0.468													5	80					0	0	0.001984	0	0		T	159401964	T	T	159401964	3	4	212	1	0	0	0	0	1	0	0	0	13730	652	23	1	567	1	RSPH3	6	159401964	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3795590	159401964	11713103	584	104389											
PDE10A	10846	broad.mit.edu	37	chr6	165806196	165806196	+	Frame_Shift_Del	DEL	G	-	-																															catacatgcagtgtgctacaGtgaccgcatgcttccagttg																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:165806196delG	uc003qun.2	-	17	1806	c.1565delC	c.(1564-1566)ACTfs	p.T522fs	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Frame_Shift_Del_p.T452fs|PDE10A_uc003quo.2_Frame_Shift_Del_p.T532fs	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	522					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cAMP binding|cGMP binding|metal ion binding			ovary(3)|skin(2)	5		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		OV - Ovarian serous cystadenocarcinoma(33;1.5e-17)|BRCA - Breast invasive adenocarcinoma(81;1.8e-06)|GBM - Glioblastoma multiforme(31;1.92e-05)	Dipyridamole(DB00975)	GTGTGCTACAGTGACCGCATG	0.448													52	25	---	---	---	---						.	-	165806196	-	-	165806196	7	5	212	1	0	1	0	1	0	0	0	0	11649	1029	36	0	802	0	PDE10A	6	165806196	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	6404232	165806196	5308871	585	104390											
MLLT4	4301	broad.mit.edu	37	chr6	168273011	168273011	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagagaaaaagaggcattgCgacaggcatctgataaagat	18	6	12	5	1	1	5	0	1	1	4	1	7	1	5	0	2	1	2	0	2	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:168273011C>T	uc003qwd.2	+	4	671	c.529C>T	c.(529-531)CGA>TGA	p.R177*	MLLT4_uc003qwb.1_Nonsense_Mutation_p.R177*|MLLT4_uc003qwc.1_Nonsense_Mutation_p.R178*	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	178	Potential.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		agagGCATTGCGACAGGCATC	0.338			T	MLL	AL								18	47					0	0	0.007413	0	0		T	168273011	T	T	168273011	4	4	212	1	0	0	0	0	0	1	0	0	9647	760	27	1	546	1	MLLT4	6	168273011	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2466815	168273011	2842056	586	104391											
DLL1	28514	broad.mit.edu	37	chr6	170592753	170592753	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggggaatggcccgccctgGccctctagcttctcagtgag	6	8	13	14	1	2	1	1	1	2	0	3	2	2	2	3	4	1	1	3	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr6:170592753G>A	uc003qxm.2	-	9	2084	c.1614C>T	c.(1612-1614)GGC>GGT	p.G538G		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	538	Extracellular (Potential).				cell communication|cell fate determination|hemopoiesis|Notch receptor processing|Notch signaling pathway|regulation of cell adhesion	extracellular region|integral to plasma membrane	calcium ion binding|Notch binding			lung(4)|ovary(1)	5		Breast(66;5.08e-05)|Ovarian(120;0.125)|Esophageal squamous(34;0.246)		OV - Ovarian serous cystadenocarcinoma(33;6.71e-23)|BRCA - Breast invasive adenocarcinoma(81;4.81e-06)|GBM - Glioblastoma multiforme(31;0.0584)		GCCCGCCCTGGCCCTCTAGCT	0.701													5	9					0	0	0.001984	0	0		A	170592753	A	A	170592753	2	1	212	1	0	0	0	0	0	0	0	1	4572	1190	42	2		2	DLL1	6	170592753	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2319742	170592753	522314	587	104392											
UNCX	340260	broad.mit.edu	37	chr7	1275539	1275539	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggcccggggcggccggcGcacaactcgcacccgaccac	8	1	14	18	6	0	0	0	0	0	0	1	1	0	0	4	5	1	2	4	5	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:1275539G>A	uc011jvw.1	+	3	522	c.522G>A	c.(520-522)GCG>GCA	p.A174A		NM_001080461	NP_001073930	A6NJT0	UNC4_HUMAN	UNC homeobox	174					cell differentiation	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Ovarian(82;0.11)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|OV - Ovarian serous cystadenocarcinoma(56;1.74e-15)		GGCGGCCGGCGCACAACTCGC	0.642													11	29					0	0	0.010729	0	0		A	1275539	A	A	1275539	2	1	212	1	0	0	0	0	0	0	0	1	17024	1074	38	1		1	UNCX	7	1275539	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		1275539	157863124	588	104393											
INTS1	26173	broad.mit.edu	37	chr7	1539932	1539932	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacggccccgcacagcacGccctcgatcctgtcatcgtt	6	9	8	18	5	2	0	2	0	0	0	5	1	3	0	4	1	1	3	4	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:1539932G>A	uc003skn.2	-	4	521	c.420C>T	c.(418-420)GGC>GGT	p.G140G	INTS1_uc003skq.2_Silent_p.G140G	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	140					snRNA processing	integral to membrane|integrator complex|nuclear membrane					0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.99e-15)		CGCACAGCACGCCCTCGATCC	0.652													4	17					0	0	0.000602	0	0		A	1539932	A	A	1539932	2	1	212	1	0	0	0	0	0	0	0	1	7791	1074	38	1		1	INTS1	7	1539932	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	264393	1539932	157598731	589	104394											
AMZ1	155185	broad.mit.edu	37	chr7	2740115	2740115	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgtagacccgcacaggagttCagcttcgggccccgggcctt	6	8	13	14	3	1	1	1	0	0	1	2	2	1	2	4	3	1	4	4	3	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:2740115C>T	uc003smr.1	+	2	391	c.30C>T	c.(28-30)TTC>TTT	p.F10F	AMZ1_uc003sms.1_Silent_p.F10F|AMZ1_uc011jwa.1_5'Flank	NM_133463	NP_597720	Q400G9	AMZ1_HUMAN	archaelysin family metallopeptidase 1	10							metallopeptidase activity|zinc ion binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;5.03e-14)		CACAGGAGTTCAGCTTCGGGC	0.692													43	56					0	0	0.013114	0	0		T	2740115	T	T	2740115	2	4	212	1	0	0	0	0	0	0	0	1	596	825	29	4		4	AMZ1	7	2740115	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1200183	2740115	156398548	590	104395											
ACTB	60	broad.mit.edu	37	chr7	5569018	5569018	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaatccttctgacccatgCccaccatcacgccctgggaa	10	7	8	16	1	2	1	1	1	1	0	3	3	3	3	5	2	1	0	5	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:5569018C>A	uc003sos.3	-	2	173	c.137G>T	c.(136-138)GGC>GTC	p.G46V	ACTB_uc003sor.3_5'UTR|ACTB_uc003sot.3_Missense_Mutation_p.G46V|ACTB_uc003soq.3_5'UTR|ACTB_uc010ksy.2_Intron	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	46					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		CTGACCCATGCCCACCATCAC	0.627													34	103					6.70999e-13	7.48453e-13	0.004289	1	0		A	5569018	A	A	5569018	3	1	212	1	0	0	0	0	1	0	0	0	193	739	26	5	1006	5	ACTB	7	5569018	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2828903	5569018	153569645	591	104396											
C7orf26	79034	broad.mit.edu	37	chr7	6639900	6639900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaactgaaccccctcaacGcctcccaggagattgagctc	11	7	8	15	1	1	4	1	3	0	1	3	5	2	4	4	1	4	1	4	1	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:6639900G>A	uc003sqo.1	+	4	1021	c.1021G>A	c.(1021-1023)GCC>ACC	p.A341T	C7orf26_uc003sqp.1_Missense_Mutation_p.A244T|C7orf26_uc003sqq.1_Missense_Mutation_p.A142T	NM_024067	NP_076972	Q96N11	CG026_HUMAN	hypothetical protein LOC79034	341										ovary(1)	1		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)		CCCCCTCAACGCCTCCCAGGA	0.627													16	43					0	0	0.014323	0	0		A	6639900	A	A	6639900	3	1	212	1	0	0	0	0	1	0	0	0	2384	1087	38	1	1035	1	C7orf26	7	6639900	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1070882	6639900	152498763	592	104397											
THSD7A	221981	broad.mit.edu	37	chr7	11514158	11514158	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctcattacagcttcgtacTtcttgcaaagcactgctatt	9	15	6	11	1	2	0	1	0	1	0	3	0	2	0	0	0	7	6	0	0	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:11514158T>G	uc003ssf.3	-	8	2307	c.2055A>C	c.(2053-2055)GAA>GAC	p.E685D		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	685	TSP type-1 6.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		AGCTTCGTACTTCTTGCAAAG	0.468										HNSCC(18;0.044)			19	43					0	0	0.010504	0	0		G	11514158	G	G	11514158	3	3	212	1	0	0	0	0	1	0	0	0	15904	1606	56	5	2998	5	THSD7A	7	11514158	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	4874258	11514158	147624505	593	104398											
DGKB	1607	broad.mit.edu	37	chr7	14722438	14722438	+	Silent	SNP	A	G	G	1	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	gagggaggtgctcgagccacAcagcgctcatggactgtgta	9	7	15	10	2	1	0	1	0	0	0	2	4	1	2	1	3	3	3	1	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:14722438A>G	uc003ssz.2	-	10	1045	c.858T>C	c.(856-858)TGT>TGC	p.C286C	DGKB_uc011jxt.1_Silent_p.C279C|DGKB_uc003sta.2_Silent_p.C286C|DGKB_uc011jxu.1_Silent_p.C286C	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	286	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	CTCGAGCCACACAGCGCTCAT	0.448													3	12					0	0	0.004672	0	0		G	14722438	G	G	14722438	2	3	212	1	0	0	0	0	0	0	0	1	4472	157	6	3		3	DGKB	7	14722438	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3208280	14722438	144416225	594	104399											
ABCB5	340273	broad.mit.edu	37	chr7	20778637	20778637	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caattgcatatggagctatgGccatcggagaaacgctcgtt	11	10	11	9	3	0	1	0	0	0	1	2	3	0	2	1	3	3	4	1	3	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:20778637G>A	uc003suw.3	+	15	2110	c.1564G>A	c.(1564-1566)GCC>ACC	p.A522T	ABCB5_uc010kuh.2_Missense_Mutation_p.A967T	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	522	Helical; (Potential).|ABC transmembrane type-1.				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						TGGAGCTATGGCCATCGGAGA	0.403													11	31					0	0	0.008291	0	0		A	20778637	A	A	20778637	3	1	212	1	0	0	0	0	1	0	0	0	44	1203	42	2	3030	2	ABCB5	7	20778637	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6056199	20778637	138360026	595	104400											
ABCB5	340273	broad.mit.edu	37	chr7	20778696	20778696	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagccaaatcgggggctgcGcatctgtttgccttgttgga	8	11	13	9	2	1	0	0	0	1	0	2	1	1	1	2	3	3	4	2	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:20778696G>A	uc003suw.3	+	15	2169	c.1623G>A	c.(1621-1623)GCG>GCA	p.A541A	ABCB5_uc010kuh.2_Silent_p.A986A	NM_178559	NP_848654	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	541	Cytoplasmic (Potential).				regulation of membrane potential	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus	ATP binding|ATPase activity, coupled to transmembrane movement of substances|efflux transmembrane transporter activity			skin(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|pancreas(1)	6						CGGGGGCTGCGCATCTGTTTG	0.428													8	23					0	0	0.00308	0	0		A	20778696	A	A	20778696	2	1	212	1	0	0	0	0	0	0	0	1	44	1074	38	1		1	ABCB5	7	20778696	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	59	20778696	138359967	596	104401											
DNAH11	8701	broad.mit.edu	37	chr7	21628211	21628211	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggcccagcaggttctccaaCgacttcaaatgttttggtca	9	11	10	11	1	3	0	2	0	1	0	4	1	3	0	2	3	2	3	2	3	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:21628211C>T	uc003svc.2	+	11	1961	c.1930C>T	c.(1930-1932)CGA>TGA	p.R644*		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	644	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GGTTCTCCAACGACTTCAAAT	0.393									Kartagener_syndrome				43	38					0	0	0.011902	0	0		T	21628211	T	T	21628211	4	4	212	1	0	0	0	0	0	1	0	0	4605	528	19	1	1972	1	DNAH11	7	21628211	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	849515	21628211	137510452	597	104402											
HOXA7	3204	broad.mit.edu	37	chr7	27194754	27194754	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttcaatgcggcggcgccgcGtcaggtagcggttgaagtgg	6	9	17	9	6	2	1	2	1	0	0	2	1	2	1	1	5	2	2	1	5	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:27194754G>A	uc003sys.2	-	2	599	c.467C>T	c.(466-468)ACG>ATG	p.T156M	HOXA6_uc003syq.1_5'Flank|uc003syr.1_3'UTR	NM_006896	NP_008827	P31268	HXA7_HUMAN	homeobox A7	156	Homeobox.				angiogenesis|negative regulation of cell-matrix adhesion|negative regulation of keratinocyte differentiation|negative regulation of leukocyte migration|negative regulation of monocyte differentiation|negative regulation of transcription from RNA polymerase II promoter		sequence-specific DNA binding|transcription factor binding				0						GCGGCGCCGCGTCAGGTAGCG	0.602													9	155					0	0	0.004482	0	0		A	27194754	A	A	27194754	3	1	212	1	0	0	0	0	1	0	0	0	7313	1145	40	1	229	1	HOXA7	7	27194754	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5566543	27194754	131943909	598	104403											
HIBADH	11112	broad.mit.edu	37	chr7	27570865	27570865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tagttattagccgagggaacGccatccatcactccaggtac	11	9	9	12	2	1	0	1	0	0	0	3	2	3	1	4	2	3	2	4	2	5	4	rs145731776	by1000genomes	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:27570865G>A	uc003szf.2	-	7	993	c.798C>T	c.(796-798)GGC>GGT	p.G266G	HIBADH_uc003szg.2_Silent_p.G217G|HIBADH_uc003szh.2_Silent_p.G165G	NM_152740	NP_689953	P31937	3HIDH_HUMAN	3-hydroxyisobutyrate dehydrogenase precursor	266					branched chain family amino acid catabolic process|pentose-phosphate shunt|valine metabolic process	mitochondrial matrix	3-hydroxyisobutyrate dehydrogenase activity|NAD binding|phosphogluconate dehydrogenase (decarboxylating) activity			ovary(2)	2			GBM - Glioblastoma multiforme(3;0.0368)		NADH(DB00157)	CCGAGGGAACGCCATCCATCA	0.448													17	54					0	0	0.006122	0	0		A	27570865	A	A	27570865	2	1	212	1	0	0	0	0	0	0	0	1	7115	1074	38	1		1	HIBADH	7	27570865	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	376111	27570865	131567798	599	104404											
NOD1	10392	broad.mit.edu	37	chr7	30491130	30491130	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcgacctgaacgcggggcaGgctcttcaggtagccccgca	7	7	13	14	4	2	1	1	1	1	0	3	2	2	1	3	4	2	4	3	4	2	3	rs146485628		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:30491130G>T	uc003tav.2	-	6	2426	c.1903C>A	c.(1903-1905)CTG>ATG	p.L635M		NM_006092	NP_006083	Q9Y239	NOD1_HUMAN	nucleotide-binding oligomerization domain	635	LRR 1.				activation of MAPK activity|detection of bacterium|induction of apoptosis|inflammatory response|innate immune response|interleukin-8 biosynthetic process|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of dendritic cell antigen processing and presentation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein oligomerization|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	basolateral plasma membrane|cytosol	ATP binding|CARD domain binding|caspase activator activity|peptidoglycan binding|protein homodimerization activity			ovary(1)|skin(1)	2						ACGCGGGGCAGGCTCTTCAGG	0.627													5	20					1.23904e-05	1.29697e-05	0.000602	1	0		T	30491130	T	T	30491130	3	4	212	1	0	0	0	0	1	0	0	0	10535	991	35	5	994	5	NOD1	7	30491130	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2920265	30491130	128647533	600	104405											
KBTBD2	25948	broad.mit.edu	37	chr7	32909192	32909192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtaggtgacgtatttagctCgctcatttaagtgggtttct	7	16	12	6	2	2	1	1	1	1	0	3	1	2	1	0	3	1	5	0	3	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:32909192C>T	uc003tdb.2	-	4	2296	c.1637G>A	c.(1636-1638)CGA>CAA	p.R546Q	AVL9_uc011kai.1_Intron	NM_015483	NP_056298	Q8IY47	KBTB2_HUMAN	kelch repeat and BTB (POZ) domain containing 2	546	Kelch 5.										0			GBM - Glioblastoma multiforme(11;0.0499)			GTATTTAGCTCGCTCATTTAA	0.468													37	120					0	0	0.00874	0	0		T	32909192	T	T	32909192	3	4	212	1	0	0	0	0	1	0	0	0	8009	884	31	1	238	1	KBTBD2	7	32909192	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2418062	32909192	126229471	601	104406											
EEPD1	80820	broad.mit.edu	37	chr7	36336702	36336702	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccaccacctgatccccgcGcacaccttcaccaacatcag	10	7	4	20	2	2	1	2	1	0	0	4	1	4	1	7	0	1	1	7	0	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:36336702G>A	uc003tfa.2	+	7	2056	c.1416G>A	c.(1414-1416)GCG>GCA	p.A472A		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	472					DNA repair		DNA binding				0						TGATCCCCGCGCACACCTTCA	0.473													19	40					0	0	0.012319	0	0		A	36336702	A	A	36336702	2	1	212	1	0	0	0	0	0	0	0	1	4938	1074	38	1		1	EEPD1	7	36336702	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3427510	36336702	122801961	602	104407											
EEPD1	80820	broad.mit.edu	37	chr7	36338750	36338750	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aggactggagcaagaaggatGcccctcggaacggcagcggg	11	3	17	10	3	0	1	0	0	0	1	1	5	0	5	2	6	4	2	2	6	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:36338750G>A	uc003tfa.2	+	8	2285	c.1645G>A	c.(1645-1647)GCC>ACC	p.A549T		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	549					DNA repair		DNA binding				0						CAAGAAGGATGCCCCTCGGAA	0.582													14	45					0	0	0.004007	0	0		A	36338750	A	A	36338750	3	1	212	1	0	0	0	0	1	0	0	0	4938	1319	46	2	1671	2	EEPD1	7	36338750	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2048	36338750	122799913	603	104408											
GPR141	353345	broad.mit.edu	37	chr7	37780105	37780105	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgggctggtgggtgtcatttCcattcttttcctcctggtga	3	16	12	10	1	2	1	1	1	1	0	5	1	5	1	3	4	0	1	3	4	0	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:37780105C>A	uc003tfm.1	+	1	110	c.110C>A	c.(109-111)TCC>TAC	p.S37Y	uc003tfl.2_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	G protein-coupled receptor 141	37	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						GGTGTCATTTCCATTCTTTTC	0.498													22	56					9.95505e-16	1.13314e-15	0.014323	1	0		A	37780105	A	A	37780105	3	1	212	1	0	0	0	0	1	0	0	0	6664	855	30	5	112	5	GPR141	7	37780105	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1441355	37780105	121358558	604	104409											
STARD3NL	83930	broad.mit.edu	37	chr7	38254699	38254699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagactgcgccattggtgggCaatagcggtgagtatgccct	8	9	14	10	2	0	2	0	1	0	1	0	2	0	2	2	3	3	2	2	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:38254699C>T	uc003tfr.2	+	4	522	c.374C>T	c.(373-375)GCA>GTA	p.A125V	STARD3NL_uc003tfs.2_Missense_Mutation_p.A125V|STARD3NL_uc003tft.2_Missense_Mutation_p.A125V	NM_032016	NP_114405	O95772	MENTO_HUMAN	MLN64 N-terminal homolog	125	MENTAL.|Helical; (Potential).					integral to membrane|late endosome membrane				ovary(1)	1						CATTGGTGGGCAATAGCGGTG	0.478													9	39					0	0	0.008291	0	0		T	38254699	T	T	38254699	3	4	212	1	0	0	0	0	1	0	0	0	15283	710	25	2	384	2	STARD3NL	7	38254699	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	474594	38254699	120883964	605	104410											
VPS41	27072	broad.mit.edu	37	chr7	38908811	38908811	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ttcagttaccccattggaaaGcctttcatacttcagcttgg	9	14	7	11	0	3	0	3	0	0	0	3	1	3	1	3	2	4	2	3	2	3	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:38908811G>T	uc003tgy.2	-	3	129	c.103C>A	c.(103-105)CTT>ATT	p.L35I	VPS41_uc003tgz.2_Missense_Mutation_p.L35I|VPS41_uc010kxn.2_Missense_Mutation_p.L35I	NM_014396	NP_055211	P49754	VPS41_HUMAN	vacuolar protein sorting 41 isoform 1	35					Golgi vesicle transport|intracellular protein transport|vesicle-mediated transport	cytosol|Golgi-associated vesicle|HOPS complex|membrane fraction	zinc ion binding			skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	4						CCATTGGAAAGCCTTTCATAC	0.418													40	121					7.88023e-25	9.19778e-25	0.01441	1	0		T	38908811	T	T	38908811	3	4	212	1	0	0	0	0	1	0	0	0	17236	971	34	5	2569	5	VPS41	7	38908811	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	654112	38908811	120229852	606	104411											
POU6F2	11281	broad.mit.edu	37	chr7	39503921	39503921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggacatcacccctaaaagtgCccagaagatcaagccggtgc	13	5	10	13	1	2	2	2	0	0	2	2	3	2	3	4	2	3	0	4	2	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:39503921C>T	uc003thb.1	+	10	1754	c.1712C>T	c.(1711-1713)GCC>GTC	p.A571V		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	571	POU-specific.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CCTAAAAGTGCCCAGAAGATC	0.542													22	52					0	0	0.014323	0	0		T	39503921	T	T	39503921	3	4	212	1	0	0	0	0	1	0	0	0	12304	739	26	2	1750	2	POU6F2	7	39503921	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	595110	39503921	119634742	607	104412											
C7orf25	79020	broad.mit.edu	37	chr7	42950258	42950258	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cactaacaacttcttccaggTtttctgctgattccacaatg	10	14	5	12	0	2	1	0	1	2	0	4	1	4	1	2	1	3	2	2	1	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:42950258T>G	uc003thw.2	-	2	706	c.242A>C	c.(241-243)AAC>ACC	p.N81T	C7orf25_uc010kxq.2_Missense_Mutation_p.N81T|C7orf25_uc003thx.3_Missense_Mutation_p.N139T|C7orf25_uc010kxr.2_Missense_Mutation_p.N139T	NM_024054	NP_076959	Q9BPX7	CG025_HUMAN	hypothetical protein LOC79020 b	81										skin(1)	1						TTCTTCCAGGTTTTCTGCTGA	0.403													17	141					0	0	0.007413	0	0		G	42950258	G	G	42950258	3	3	212	1	0	0	0	0	1	0	0	0	2383	1725	60	5	1027	5	C7orf25	7	42950258	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3446337	42950258	116188405	608	104413											
MRPL32	64983	broad.mit.edu	37	chr7	42972066	42972066	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgaaactactgggagcgactGctacggaagcttccgcagag	11	6	13	11	4	0	1	0	0	0	1	1	5	1	3	1	2	6	3	1	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:42972066G>A	uc003tia.2	+	1	128	c.81G>A	c.(79-81)CTG>CTA	p.L27L	C7orf25_uc010kxr.2_5'Flank|PSMA2_uc003thy.2_5'Flank|PSMA2_uc010kxt.2_5'Flank|PSMA2_uc003thz.1_5'Flank|MRPL32_uc003tib.2_RNA|MRPL32_uc003tic.2_5'UTR	NM_031903	NP_114109	Q9BYC8	RM32_HUMAN	mitochondrial ribosomal protein L32 precursor	27				SPWSAARGVLRNYWERLLRKLPQSRPGFPSPPW -> RRGL RPGECFETTGSDCYGSFRRAGRAFPVLRGV (in Ref. 3).	translation	large ribosomal subunit|mitochondrial ribosome	structural constituent of ribosome				0						GGGAGCGACTGCTACGGAAGC	0.652													8	19					0	0	0.006214	0	0		A	42972066	A	A	42972066	2	1	212	1	0	0	0	0	0	0	0	1	9813	1306	46	2		2	MRPL32	7	42972066	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	21808	42972066	116166597	609	104414											
HECW1	23072	broad.mit.edu	37	chr7	43351499	43351499	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cacaacatggacctcaggggCggcccccacgatggcgtcac	9	4	12	16	3	2	0	2	0	0	0	2	2	2	1	3	5	1	0	3	5	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:43351499C>T	uc003tid.1	+	4	770	c.165C>T	c.(163-165)GGC>GGT	p.G55G	HECW1_uc011kbi.1_Silent_p.G55G|HECW1_uc003tie.1_Silent_p.G87G	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	55					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						ACCTCAGGGGCGGCCCCCACG	0.627													16	52					0	0	0.003163	0	0		T	43351499	T	T	43351499	2	4	212	1	0	0	0	0	0	0	0	1	7058	755	27	1		1	HECW1	7	43351499	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	379433	43351499	115787164	610	104415											
AEBP1	165	broad.mit.edu	37	chr7	44150328	44150328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtccactccacagtgacGattttgtgaccaccttcttc	8	13	6	14	1	1	2	0	2	1	0	4	3	3	2	4	0	0	0	4	0	0	4	rs150909656	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:44150328G>A	uc003tkb.2	+	12	1710	c.1405G>A	c.(1405-1407)GAT>AAT	p.D469N	AEBP1_uc003tkc.3_5'Flank|AEBP1_uc003tkd.2_5'Flank	NM_001129	NP_001120	Q8IUX7	AEBP1_HUMAN	adipocyte enhancer binding protein 1 precursor	469	Required for DNA-binding and interaction with NFKBIA (By similarity).|F5/8 type C.|Interaction with MAPK1 and MAPK3 (By similarity).				cell adhesion|muscle organ development|proteolysis|skeletal system development	cytoplasm|extracellular space|nucleus	DNA binding|metallocarboxypeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CCACAGTGACGATTTTGTGAC	0.572													18	171					0	0	0.014323	0	0		A	44150328	A	A	44150328	3	1	212	1	0	0	0	0	1	0	0	0	349	1058	37	1	1451	1	AEBP1	7	44150328	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	798829	44150328	114988335	611	104416											
NPC1L1	29881	broad.mit.edu	37	chr7	44556414	44556414	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaggttgaggaggccggagCgcaggtccaggcccagcagg	8	3	19	11	2	0	1	0	1	0	0	1	3	1	3	3	7	2	4	3	7	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:44556414C>T	uc003tlb.2	-	17	3544	c.3488G>A	c.(3487-3489)CGC>CAC	p.R1163H	NPC1L1_uc003tlc.2_Missense_Mutation_p.R1136H|NPC1L1_uc011kbw.1_Missense_Mutation_p.R1090H|NPC1L1_uc003tla.2_Intron	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	1163	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	GAGGCCGGAGCGCAGGTCCAG	0.607													7	32					0	0	0.001984	0	0		T	44556414	T	T	44556414	3	4	212	1	0	0	0	0	1	0	0	0	10590	768	27	1	607	1	NPC1L1	7	44556414	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	406086	44556414	114582249	612	104417											
ZMIZ2	83637	broad.mit.edu	37	chr7	44799789	44799789	+	Frame_Shift_Del	DEL	G	-	-																															ggcagggcgccagcttcaacGggggcagcgtcagctacagc																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:44799789delG	uc003tlr.2	+	8	1156	c.1033delG	c.(1033-1035)GGGfs	p.G345fs	ZMIZ2_uc003tlq.2_Intron|ZMIZ2_uc003tls.2_Intron|ZMIZ2_uc003tlt.2_5'UTR|ZMIZ2_uc010kyj.2_5'UTR	NM_031449	NP_113637	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2 isoform 1	345	Pro-rich.				positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear replication fork	ligand-dependent nuclear receptor transcription coactivator activity|protein binding|zinc ion binding			ovary(2)|large_intestine(2)|breast(1)	5						CAGCTTCAACGGGGGCAGCGT	0.687													24	42	---	---	---	---						.	-	44799789	-	-	44799789	7	5	212	1	0	1	0	1	0	0	0	0	17722	1116	39	0	1059	0	ZMIZ2	7	44799789	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	243375	44799789	114338874	613	104418											
CCM2	83605	broad.mit.edu	37	chr7	45113138	45113138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgagctgagcgccagcGccactgagctgctgcaggac	9	4	15	13	3	0	3	0	2	0	1	0	5	0	4	2	1	7	4	2	1	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:45113138G>A	uc003tmo.2	+	8	1029	c.883G>A	c.(883-885)GCC>ACC	p.A295T	CCM2_uc003tmn.2_RNA|CCM2_uc003tmp.2_Missense_Mutation_p.A237T|CCM2_uc003tmq.2_RNA|CCM2_uc003tmr.2_Missense_Mutation_p.A204T|CCM2_uc003tms.2_Missense_Mutation_p.A316T	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2	295					endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						GAGCGCCAGCGCCACTGAGCT	0.622									Familial_Cerebral_Cavernous_Angioma				13	23					0	0	0.00245	0	0		A	45113138	A	A	45113138	3	1	212	1	0	0	0	0	1	0	0	0	2911	1087	38	1	1010	1	CCM2	7	45113138	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	313349	45113138	114025525	614	104419											
IGFBP3	3486	broad.mit.edu	37	chr7	45954540	45954540	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcttcctgcctttggaagggCgacactgtgggagagaaaca	10	8	14	9	1	0	1	0	0	0	1	1	5	1	3	2	3	2	1	2	3	2	2	rs17847676		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:45954540C>T	uc003tns.2	-	4	887	c.755G>A	c.(754-756)CGC>CAC	p.R252H	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Missense_Mutation_p.R258H|IGFBP3_uc003tnt.2_Missense_Mutation_p.R155H	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	252	Thyroglobulin type-1.		R -> C (in a colorectal cancer sample; somatic mutation).		negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity	p.R252C(1)		large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	TTTGGAAGGGCGACACTGTGG	0.592													4	68					0	0	0.009096	0	0		T	45954540	T	T	45954540	3	4	212	1	0	0	0	0	1	0	0	0	7596	768	27	1	124	1	IGFBP3	7	45954540	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	841402	45954540	113184123	615	104420											
TNS3	64759	broad.mit.edu	37	chr7	47344501	47344501	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaagcctgctgaaaggagggCgtcgaggacgcatcagcccg	11	4	15	11	4	1	1	1	1	0	0	2	4	1	3	2	3	3	2	2	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:47344501C>T	uc003tnv.2	-	21	3118	c.2751G>A	c.(2749-2751)ACG>ACA	p.T917T	TNS3_uc003tnw.2_Silent_p.T917T	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	917				T -> A (in Ref. 4; CAH18438).		focal adhesion	protein binding			ovary(4)	4						GAAAGGAGGGCGTCGAGGACG	0.572													12	29					0	0	0.013537	0	0		T	47344501	T	T	47344501	2	4	212	1	0	0	0	0	0	0	0	1	16369	755	27	1		1	TNS3	7	47344501	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1389961	47344501	111794162	616	104421											
ABCA13	154664	broad.mit.edu	37	chr7	48280634	48280634	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacagcttgtcagcagatggCccaaaagataatcatacatt	15	9	8	9	0	2	2	2	0	0	2	2	3	2	2	1	1	3	2	1	1	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:48280634C>T	uc003toq.2	+	10	1258	c.1233C>T	c.(1231-1233)GGC>GGT	p.G411G	ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	411					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CAGCAGATGGCCCAAAAGATA	0.438													27	86					0	0	0.005443	0	0		T	48280634	T	T	48280634	2	4	212	1	0	0	0	0	0	0	0	1	31	726	26	2		2	ABCA13	7	48280634	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	936133	48280634	110858029	617	104422											
POM121L12	285877	broad.mit.edu	37	chr7	53104180	53104180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacttctgggaggcgacaacGccttcctgcggcagctgcag	7	7	14	13	3	1	0	0	0	1	0	2	3	2	1	2	3	4	3	2	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:53104180G>A	uc003tpz.2	+	1	832	c.816G>A	c.(814-816)ACG>ACA	p.T272T		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	272											0						AGGCGACAACGCCTTCCTGCG	0.637													21	76					0	0	0.012319	0	0		A	53104180	A	A	53104180	2	1	212	1	0	0	0	0	0	0	0	1	12260	1074	38	1		1	POM121L12	7	53104180	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4823546	53104180	106034483	618	104423											
ZNF680	340252	broad.mit.edu	37	chr7	63982401	63982401	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggattggttaaaggctttgCcacattcctcacatttgtag	10	14	9	8	0	1	0	1	0	0	0	2	1	2	1	2	3	1	3	2	3	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:63982401C>T	uc003tta.2	-	4	904	c.731G>A	c.(730-732)GGC>GAC	p.G244D	ZNF680_uc010kzr.2_Missense_Mutation_p.G171D	NM_178558	NP_848653	Q8NEM1	ZN680_HUMAN	zinc finger protein 680 isoform 1	244	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(55;0.118)|all_lung(88;0.243)				AAAGGCTTTGCCACATTCCTC	0.358													3	22					0	0	0.004672	0	0		T	63982401	T	T	63982401	3	4	212	1	0	0	0	0	1	0	0	0	18112	739	26	2	865	2	ZNF680	7	63982401	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	10878221	63982401	95156262	619	104424											
AUTS2	26053	broad.mit.edu	37	chr7	70254795	70254795	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cacctgtcctcccggtgaatGccctgggacatacccgcagc	7	7	10	17	2	0	1	0	1	0	0	2	2	2	2	5	2	3	1	5	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:70254795G>T	uc003tvw.3	+	19	3336	c.2593G>T	c.(2593-2595)GCC>TCC	p.A865S	AUTS2_uc003tvx.3_Missense_Mutation_p.A841S|AUTS2_uc011keg.1_Missense_Mutation_p.A317S	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	865										ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		CCCGGTGAATGCCCTGGGACA	0.582													46	28					1.48734e-19	1.71853e-19	0.013114	1	0		T	70254795	T	T	70254795	3	4	212	1	0	0	0	0	1	0	0	0	1226	1319	46	5	2812	5	AUTS2	7	70254795	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6272394	70254795	88883868	620	104425											
WBSCR17	64409	broad.mit.edu	37	chr7	70597954	70597954	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaacctcagcgcgcacagcGccagccccatccaggatgcg	9	3	10	19	4	1	0	1	0	0	0	2	1	2	1	6	1	5	1	6	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:70597954G>A	uc003tvy.2	+	1	166	c.166G>A	c.(166-168)GCC>ACC	p.A56T		NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	56	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CGCGCACAGCGCCAGCCCCAT	0.706													9	26					0	0	0.006214	0	0		A	70597954	A	A	70597954	3	1	212	1	0	0	0	0	1	0	0	0	17290	1087	38	1	168	1	WBSCR17	7	70597954	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	343159	70597954	88540709	621	104426											
FZD9	8326	broad.mit.edu	37	chr7	72849230	72849230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtggcctgtgaccaggaggCgggcgcgctctacgtgatcc	5	7	16	13	5	1	2	0	2	1	0	2	3	2	3	3	4	1	1	3	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:72849230C>T	uc003tyb.2	+	1	1122	c.893C>T	c.(892-894)GCG>GTG	p.A298V		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	298	Extracellular (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				GACCAGGAGGCGGGCGCGCTC	0.642													32	80					0	0	0.009535	0	0		T	72849230	T	T	72849230	3	4	212	1	0	0	0	0	1	0	0	0	6151	768	27	1	895	1	FZD9	7	72849230	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2251276	72849230	86289433	622	104427											
MLXIPL	51085	broad.mit.edu	37	chr7	73013902	73013902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggtcatggccgaggaagccGggggcacctctgggcccagg	6	4	19	12	2	2	0	1	0	1	0	2	2	2	1	4	7	1	1	4	7	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:73013902G>A	uc003tyn.1	-	8	1073	c.1025C>T	c.(1024-1026)CCG>CTG	p.P342L	MLXIPL_uc003tyj.1_5'Flank|MLXIPL_uc003tyk.1_Missense_Mutation_p.P342L|MLXIPL_uc003tyl.1_Missense_Mutation_p.P342L|MLXIPL_uc003tym.1_Missense_Mutation_p.P342L|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_Missense_Mutation_p.P249L|MLXIPL_uc003tyq.1_Missense_Mutation_p.P84L	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	342					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CGAGGAAGCCGGGGGCACCTC	0.652													5	74					0	0	0.000602	0	0		A	73013902	A	A	73013902	3	1	212	1	0	0	0	0	1	0	0	0	9655	1116	39	1	1573	1	MLXIPL	7	73013902	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	164672	73013902	86124761	623	104428											
WBSCR22	114049	broad.mit.edu	37	chr7	73098116	73098116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gttttatgacgagacagaagCccggaaatacgttcgcaagt	13	9	11	8	4	0	3	0	1	0	2	1	5	0	4	1	1	2	3	1	1	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:73098116C>T	uc003tyt.2	+	2	126	c.68C>T	c.(67-69)GCC>GTC	p.A23V	DNAJC30_uc003tys.1_5'Flank|WBSCR22_uc010lbi.1_RNA|WBSCR22_uc003tyu.2_Missense_Mutation_p.A23V|WBSCR22_uc003tyv.2_5'UTR|WBSCR22_uc003tyw.1_5'UTR	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22	23						nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				GAGACAGAAGCCCGGAAATAC	0.592													10	139					0	0	0.010729	0	0		T	73098116	T	T	73098116	3	4	212	1	0	0	0	0	1	0	0	0	17291	739	26	2	74	2	WBSCR22	7	73098116	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	84214	73098116	86040547	624	104429											
HIP1	3092	broad.mit.edu	37	chr7	75192520	75192520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgggggatctgaatgagcCgcttgaagtactgcaggttg	8	10	16	7	1	1	3	0	3	1	0	1	4	1	4	1	3	3	5	1	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:75192520C>T	uc003uds.1	-	10	892	c.851G>A	c.(850-852)CGG>CAG	p.R284Q	HIP1_uc011kfz.1_Missense_Mutation_p.R161Q	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	284					activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						CTGAATGAGCCGCTTGAAGTA	0.597			T	PDGFRB	CMML								17	51					0	0	0.008871	0	0		T	75192520	T	T	75192520	3	4	212	1	0	0	0	0	1	0	0	0	7130	652	23	1	2350	1	HIP1	7	75192520	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2094404	75192520	83946143	625	104430											
SRRM3	222183	broad.mit.edu	37	chr7	75896681	75896681	+	Silent	SNP	G	A	A	0	0	1	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	agcggatgggggtcgccccaGcggaacggcggcagcgggca	7	2	20	12	6	0	0	0	0	0	0	1	2	0	2	2	7	4	2	2	7	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:75896681G>A	uc010ldi.2	+	11	1145	c.936G>A	c.(934-936)CAG>CAA	p.Q312Q	SRRM3_uc011kgi.1_Missense_Mutation_p.A6T	NM_001110199	NP_001103669			serine/arginine repetitive matrix 3												0						GGTCGCCCCAGCGGAACGGCG	0.751													4	5					0	0	0.009096	0	0		A	75896681	A	A	75896681	2	1	212	1	0	0	0	0	0	0	0	1	15195	962	34	2		2	SRRM3	7	75896681	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	704161	75896681	83241982	626	104431											
PHTF2	57157	broad.mit.edu	37	chr7	77569849	77569849	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcttaatcttttttagcgatTactttttgcaaaactctttg	9	21	4	7	1	3	0	0	0	3	0	3	1	3	0	0	0	4	1	0	0	5	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:77569849T>C	uc003ugs.3	+	14	1871	c.1745T>C	c.(1744-1746)TTA>TCA	p.L582S	PHTF2_uc003ugq.3_Missense_Mutation_p.L544S|PHTF2_uc010ldv.2_Missense_Mutation_p.L544S|PHTF2_uc003ugt.3_Missense_Mutation_p.L548S|PHTF2_uc003ugu.3_Missense_Mutation_p.L544S	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	582					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						TTTTAGCGATTACTTTTTGCA	0.303													9	42					0	0	0.006214	0	0		C	77569849	C	C	77569849	3	2	212	1	0	0	0	0	1	0	0	0	11882	1764	61	3	1747	3	PHTF2	7	77569849	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1673168	77569849	81568814	627	104432											
MAGI2	9863	broad.mit.edu	37	chr7	78636429	78636429	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaccgtgcggaggtagaggTtgtcacgaatgatttgctga	9	10	15	7	3	1	3	1	2	0	1	1	5	1	4	1	3	2	4	1	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:78636429T>C	uc003ugx.2	-	2	649	c.395A>G	c.(394-396)AAC>AGC	p.N132S	MAGI2_uc003ugy.2_Missense_Mutation_p.N132S	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	132	Guanylate kinase-like.					cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				GAGGTAGAGGTTGTCACGAAT	0.368													24	131					0	0	0.00632	0	0		C	78636429	C	C	78636429	3	2	212	1	0	0	0	0	1	0	0	0	9209	1725	60	3	4056	3	MAGI2	7	78636429	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1066580	78636429	80502234	628	104433											
SEMA3C	10512	broad.mit.edu	37	chr7	80374227	80374227	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atattatgactctggcaactGattcctcctgtttctacttt	8	18	5	10	0	2	2	0	2	2	0	4	2	4	2	2	1	2	2	2	1	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:80374227G>A	uc003uhj.2	-	18	2801	c.2239C>T	c.(2239-2241)CAG>TAG	p.Q747*	SEMA3C_uc011kgw.1_Nonsense_Mutation_p.Q765*	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	747					immune response|response to drug	membrane	receptor activity			ovary(1)	1						TCTGGCAACTGATTCCTCCTG	0.398													25	153					0	0	0.004656	0	0		A	80374227	A	A	80374227	4	1	212	1	0	0	0	0	0	1	0	0	14051	1299	45	4	20	4	SEMA3C	7	80374227	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1737798	80374227	78764436	629	104434											
SEMA3C	10512	broad.mit.edu	37	chr7	80418778	80418778	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagaggatggttccgaataaAagtgacaacatcatctggga	15	8	12	6	1	2	2	1	1	1	1	3	6	3	4	1	3	1	1	1	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:80418778A>C	uc003uhj.2	-	12	1760	c.1198T>G	c.(1198-1200)TTT>GTT	p.F400V	SEMA3C_uc011kgw.1_Missense_Mutation_p.F418V	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	400	Sema.				immune response|response to drug	membrane	receptor activity			ovary(1)	1						TTCCGAATAAAAGTGACAACA	0.398													14	60					0	0	0.001855	0	0		C	80418778	C	C	80418778	3	2	212	1	0	0	0	0	1	0	0	0	14051	14	1	5	1085	5	SEMA3C	7	80418778	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	44551	80418778	78719885	630	104435											
PCLO	27445	broad.mit.edu	37	chr7	82785132	82785132	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaggcctggatgcatctcgTtgaagtggcaattttgcatg	8	13	13	7	1	1	2	0	2	1	0	2	3	1	3	1	3	2	4	1	3	2	3	rs61742779	by1000genomes	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:82785132T>G	uc003uhx.2	-	2	1114	c.825A>C	c.(823-825)CAA>CAC	p.Q275H	PCLO_uc003uhv.2_Missense_Mutation_p.Q275H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	275	Gln-rich.|Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						ATGCATCTCGTTGAAGTGGCA	0.468													12	61					0	0	0.013537	0	0		G	82785132	G	G	82785132	3	3	212	1	0	0	0	0	1	0	0	0	11602	1722	60	5	14716	5	PCLO	7	82785132	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2366354	82785132	76353531	631	104436											
SEMA3A	10371	broad.mit.edu	37	chr7	83590976	83590976	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catcatcatctttatgaagaAgttcttccaaatgctctgtg	11	15	6	9	0	5	2	2	1	3	1	6	2	6	2	1	0	1	2	1	0	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:83590976A>C	uc003uhz.2	-	17	2342	c.2027T>G	c.(2026-2028)CTT>CGT	p.L676R		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	676					axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TTTATGAAGAAGTTCTTCCAA	0.443													40	171					0	0	0.00874	0	0		C	83590976	C	C	83590976	3	2	212	1	0	0	0	0	1	0	0	0	14049	72	3	5	292	5	SEMA3A	7	83590976	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	805844	83590976	75547687	632	104437											
SEMA3D	223117	broad.mit.edu	37	chr7	84642152	84642152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatattttacatcttggcGtctagctctcctgcggaaag	8	13	9	11	2	3	0	0	0	3	0	4	1	3	1	2	2	3	1	2	2	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:84642152G>A	uc003uic.2	-	15	1754	c.1714C>T	c.(1714-1716)CGC>TGC	p.R572C	SEMA3D_uc010led.2_Missense_Mutation_p.R572C|SEMA3D_uc003uib.2_Missense_Mutation_p.R211C	NM_152754	NP_689967	O95025	SEM3D_HUMAN	semaphorin 3D precursor	572	PSI.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			ovary(3)|large_intestine(2)	5						ACATCTTGGCGTCTAGCTCTC	0.403													59	66					0	0	0.01441	0	0		A	84642152	A	A	84642152	3	1	212	1	0	0	0	0	1	0	0	0	14052	1145	40	1	631	1	SEMA3D	7	84642152	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1051176	84642152	74496511	633	104438											
CROT	54677	broad.mit.edu	37	chr7	87021891	87021891	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttaatacagcttcgtgagCggcagcaaaagatgttacaa	14	11	9	7	2	0	2	0	1	0	1	1	2	0	2	0	1	5	4	0	1	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:87021891C>T	uc003uit.2	+	15	1680	c.1435C>T	c.(1435-1437)CGG>TGG	p.R479W	CROT_uc003uiu.2_Missense_Mutation_p.R507W	NM_021151	NP_066974	Q9UKG9	OCTC_HUMAN	peroxisomal carnitine O-octanoyltransferase	479					fatty acid beta-oxidation using acyl-CoA oxidase|generation of precursor metabolites and energy|transport	peroxisomal matrix	carnitine O-octanoyltransferase activity			ovary(2)|lung(1)	3	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)				L-Carnitine(DB00583)	GCTTCGTGAGCGGCAGCAAAA	0.338													23	173					0	0	0.00632	0	0		T	87021891	T	T	87021891	3	4	212	1	0	0	0	0	1	0	0	0	3897	759	27	1	1573	1	CROT	7	87021891	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2379739	87021891	72116772	634	104439											
ZNF804B	219578	broad.mit.edu	37	chr7	88963494	88963494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgaacaaaagagtacagtgCatctgaatccaaattccaga	17	8	8	8	0	1	4	0	2	1	2	3	4	3	4	2	0	3	2	2	0	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:88963494C>T	uc011khi.1	+	4	1736	c.1198C>T	c.(1198-1200)CAT>TAT	p.H400Y		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	400						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			GAGTACAGTGCATCTGAATCC	0.373										HNSCC(36;0.09)			14	98					0	0	0.003163	0	0		T	88963494	T	T	88963494	3	4	212	1	0	0	0	0	1	0	0	0	18196	710	25	2	1212	2	ZNF804B	7	88963494	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1941603	88963494	70175169	635	104440											
ZNF804B	219578	broad.mit.edu	37	chr7	88964271	88964271	+	Missense_Mutation	SNP	A	G	G	1	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	gacaattcaactgcaagtccAgtccttgtacagtagggggt	11	10	11	9	0	1	0	1	0	0	0	3	1	3	0	2	2	3	3	2	2	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:88964271A>G	uc011khi.1	+	4	2513	c.1975A>G	c.(1975-1977)AGT>GGT	p.S659G		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	659						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CTGCAAGTCCAGTCCTTGTAC	0.418										HNSCC(36;0.09)			15	159					0	0	0.007413	0	0		G	88964271	G	G	88964271	3	3	212	1	0	0	0	0	1	0	0	0	18196	188	7	3	1989	3	ZNF804B	7	88964271	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	777	88964271	70174392	636	104441											
ZNF804B	219578	broad.mit.edu	37	chr7	88965847	88965847	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttcgagttttgcctgctgCagggcctactgccttctctc	3	15	9	14	1	2	0	0	0	2	0	5	1	2	0	3	1	5	3	3	1	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:88965847C>A	uc011khi.1	+	4	4089	c.3551C>A	c.(3550-3552)GCA>GAA	p.A1184E		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1184						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TTGCCTGCTGCAGGGCCTACT	0.488										HNSCC(36;0.09)			23	151					2.39556e-15	2.71833e-15	0.00278	1	0		A	88965847	A	A	88965847	3	1	212	1	0	0	0	0	1	0	0	0	18196	710	25	5	3565	5	ZNF804B	7	88965847	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1576	88965847	70172816	637	104442											
ZNF804B	219578	broad.mit.edu	37	chr7	88966259	88966259	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaccagtattccaaggtcaAgatttttgccatcattcttg	11	14	6	10	0	3	1	2	0	1	1	4	1	4	1	3	1	2	1	3	1	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:88966259A>C	uc011khi.1	+	4	4501	c.3963A>C	c.(3961-3963)CAA>CAC	p.Q1321H		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1321						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			TCCAAGGTCAAGATTTTTGCC	0.388										HNSCC(36;0.09)			277	123					0	0	0.01441	0	0		C	88966259	C	C	88966259	3	2	212	1	0	0	0	0	1	0	0	0	18196	69	3	5	3977	5	ZNF804B	7	88966259	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	412	88966259	70172404	638	104443											
STEAP2	261729	broad.mit.edu	37	chr7	89861856	89861856	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctaaaacgaattaaaaaagGctgggaaaagagccaatttc	19	7	9	6	1	0	1	0	0	0	1	1	3	0	2	1	2	2	2	1	2	9	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:89861856G>A	uc003ujz.2	+	5	1784	c.1391G>A	c.(1390-1392)GGC>GAC	p.G464D	STEAP2_uc010len.2_Missense_Mutation_p.G464D|STEAP2_uc003uka.2_Intron|STEAP2_uc003ukb.2_Missense_Mutation_p.G464D|STEAP2_uc003ukc.2_Intron|STEAP2_uc003ukd.2_Intron	NM_152999	NP_694544	Q8NFT2	STEA2_HUMAN	six transmembrane epithelial antigen of the	464					electron transport chain|endocytosis|Golgi to plasma membrane transport|ion transport|iron ion homeostasis|regulated secretory pathway|response to hormone stimulus	cytosol|early endosome|endosome membrane|integral to Golgi membrane|plasma membrane|trans-Golgi network transport vesicle|vesicular fraction	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|oxidoreductase activity|transporter activity			ovary(2)	2	all_hematologic(106;0.112)					ATTAAAAAAGGCTGGGAAAAG	0.398													11	101					0	0	0.010729	0	0		A	89861856	A	A	89861856	3	1	212	1	0	0	0	0	1	0	0	0	15303	1203	42	2	1405	2	STEAP2	7	89861856	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	895597	89861856	69276807	639	104444											
AKAP9	10142	broad.mit.edu	37	chr7	91691589	91691589	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgttaattttgtattataggCgtcattgatggctatgcaga	10	17	10	4	1	1	2	1	1	0	1	1	2	1	2	0	2	1	4	0	2	5	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:91691589C>T	uc003ulg.2	+	24	5991	c.5766C>T	c.(5764-5766)GGC>GGT	p.G1922G	AKAP9_uc003ulf.2_Silent_p.G1922G|AKAP9_uc003uli.2_Silent_p.G1545G	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1934	Potential.|Glu-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			GTATTATAGGCGTCATTGATG	0.299			T	BRAF	papillary thyroid								15	230					0	0	0.004007	0	0		T	91691589	T	T	91691589	2	4	212	1	0	0	0	0	0	0	0	1	459	782	27	1		1	AKAP9	7	91691589	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1829733	91691589	67447074	640	104445											
PEX1	5189	broad.mit.edu	37	chr7	92122435	92122435	+	Silent	SNP	A	G	G	1	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	aggacatttaaaatttcaagAcgtgacacctgaaaggagaa	18	8	9	6	1	1	4	1	2	0	2	1	6	1	5	1	2	0	0	1	2	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:92122435A>G	uc003uly.2	-	20	3135	c.3039T>C	c.(3037-3039)CGT>CGC	p.R1013R	PEX1_uc011khr.1_Silent_p.R805R|PEX1_uc010ley.2_Silent_p.R956R|PEX1_uc011khs.1_Silent_p.R691R	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	1013					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			AAATTTCAAGACGTGACACCT	0.299													24	221					0	0	0.00333	0	0		G	92122435	G	G	92122435	2	3	212	1	0	0	0	0	0	0	0	1	11754	262	10	3		3	PEX1	7	92122435	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	430846	92122435	67016228	641	104446											
PEX1	5189	broad.mit.edu	37	chr7	92134057	92134057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcatttaccatgagcaagcCgctggctctgcaccgcatca	9	9	9	14	2	2	1	1	1	1	0	2	1	2	1	3	1	5	6	3	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:92134057C>T	uc003uly.2	-	12	2156	c.2060G>A	c.(2059-2061)CGG>CAG	p.R687Q	PEX1_uc011khr.1_Missense_Mutation_p.R479Q|PEX1_uc010ley.2_Intron|PEX1_uc011khs.1_Missense_Mutation_p.R365Q|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	687			Missing (in NALD).		microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			ATGAGCAAGCCGCTGGCTCTG	0.483													19	249					0	0	0.014323	0	0		T	92134057	T	T	92134057	3	4	212	1	0	0	0	0	1	0	0	0	11754	652	23	1	1843	1	PEX1	7	92134057	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	11622	92134057	67004606	642	104447											
PEX1	5189	broad.mit.edu	37	chr7	92147474	92147474	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaatttggataaatatgtaCgtttgttgatcaacccaaac	14	13	6	8	1	1	1	1	1	0	0	1	2	1	2	2	1	3	3	2	1	7	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:92147474C>T	uc003uly.2	-	4	549	c.453G>A	c.(451-453)ACG>ACA	p.T151T	PEX1_uc011khr.1_5'UTR|PEX1_uc010ley.2_Silent_p.T151T|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_5'Flank	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	151					microtubule-based peroxisome localization|protein import into peroxisome matrix	cytosol|nucleus|peroxisomal membrane	ATP binding|ATPase activity, coupled|protein C-terminus binding|protein complex binding			ovary(1)|central_nervous_system(1)	2	all_cancers(62;9.35e-11)|all_epithelial(64;4.59e-10)|Breast(17;0.00201)|all_lung(186;0.0438)|Lung NSC(181;0.0592)	Breast(660;0.000932)|all_neural(109;0.00391)|Myeloproliferative disorder(862;0.0122)|Ovarian(593;0.023)|Medulloblastoma(109;0.123)	GBM - Glioblastoma multiforme(5;4.06e-06)|STAD - Stomach adenocarcinoma(4;4.51e-05)|all cancers(6;5.32e-05)|LUSC - Lung squamous cell carcinoma(200;0.225)|Lung(22;0.23)			TAAATATGTACGTTTGTTGAT	0.353													25	258					0	0	0.004656	0	0		T	92147474	T	T	92147474	2	4	212	1	0	0	0	0	0	0	0	1	11754	523	19	1		1	PEX1	7	92147474	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	13417	92147474	66991189	643	104448											
SAMD9L	219285	broad.mit.edu	37	chr7	92761948	92761948	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatataggaatttttaggtgCtttcattttggcctgacgtg	9	17	10	5	1	1	1	1	1	0	0	1	2	1	2	1	3	1	1	1	3	5	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:92761948C>A	uc003umh.1	-	5	4553	c.3337G>T	c.(3337-3339)GCA>TCA	p.A1113S	SAMD9L_uc003umj.1_Missense_Mutation_p.A1113S|SAMD9L_uc003umi.1_Missense_Mutation_p.A1113S|SAMD9L_uc010lfb.1_Missense_Mutation_p.A1113S|SAMD9L_uc003umk.1_Missense_Mutation_p.A1113S|SAMD9L_uc010lfc.1_Missense_Mutation_p.A1113S|SAMD9L_uc010lfd.1_Missense_Mutation_p.A1113S|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1113										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			TTTTTAGGTGCTTTCATTTTG	0.383													29	457					1.17739e-12	1.31091e-12	0.005443	1	0		A	92761948	A	A	92761948	3	1	212	1	0	0	0	0	1	0	0	0	13852	797	28	5	1421	5	SAMD9L	7	92761948	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	614474	92761948	66376715	644	104449											
ASB4	51666	broad.mit.edu	37	chr7	95157167	95157167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacaaccaagatgaggagaCgcccttgcacacggctgccc	12	4	10	15	2	0	3	0	1	0	2	0	4	0	3	3	2	4	2	3	2	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:95157167C>T	uc011kij.1	+	3	530	c.530C>T	c.(529-531)ACG>ATG	p.T177M	ASB4_uc003unx.2_Missense_Mutation_p.T177M	NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	177	ANK 4.				intracellular signal transduction					central_nervous_system(1)	1	all_cancers(62;2.27e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.218)|all_lung(186;0.246)		STAD - Stomach adenocarcinoma(171;0.0151)			GATGAGGAGACGCCCTTGCAC	0.498											OREG0018172	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	22					0	0	0.00245	0	0		T	95157167	T	T	95157167	3	4	212	1	0	0	0	0	1	0	0	0	1026	536	19	1	540	1	ASB4	7	95157167	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2395219	95157167	63981496	645	104450											
LMTK2	22853	broad.mit.edu	37	chr7	97800932	97800932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catgctgctgcagaggatggCgtgcgaggtcgccgcggggc	5	6	19	11	5	0	1	0	0	0	1	1	3	0	2	1	5	4	3	1	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:97800932C>T	uc003upd.1	+	7	1030	c.737C>T	c.(736-738)GCG>GTG	p.A246V		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	246	Protein kinase.				early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					CAGAGGATGGCGTGCGAGGTC	0.672													19	33					0	0	0.006122	0	0		T	97800932	T	T	97800932	3	4	212	1	0	0	0	0	1	0	0	0	8876	768	27	1	763	1	LMTK2	7	97800932	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2643765	97800932	61337731	646	104451											
TECPR1	25851	broad.mit.edu	37	chr7	97852434	97852434	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggacacgtccctgagggcGatggggggcacctccagcca	8	5	15	13	2	0	1	0	1	0	0	2	3	2	2	4	5	1	1	4	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:97852434G>T	uc003upg.2	-	21	3001	c.2796C>A	c.(2794-2796)ATC>ATA	p.I932I		NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	932						integral to membrane	protein binding			pancreas(1)	1						CCCTGAGGGCGATGGGGGGCA	0.667													4	1					0.00909568	0.00923654	0.009096	1	0		T	97852434	T	T	97852434	2	4	212	1	0	0	0	0	0	0	0	1	15768	1048	37	5		5	TECPR1	7	97852434	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	51502	97852434	61286229	647	104452											
TRRAP	8295	broad.mit.edu	37	chr7	98559056	98559056	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggtgttgcgagccgtccacaGccttctctcgcgcctgatga	5	10	12	14	4	1	2	0	2	1	0	4	3	2	2	4	1	3	1	4	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:98559056G>T	uc003upp.2	+	45	6850	c.6641G>T	c.(6640-6642)AGC>ATC	p.S2214I	TRRAP_uc011kis.1_Missense_Mutation_p.S2196I|TRRAP_uc003upr.2_Missense_Mutation_p.S1913I	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2214	Interaction with TP53.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GCCGTCCACAGCCTTCTCTCG	0.567													23	44					3.65163e-15	4.13596e-15	0.00632	1	0		T	98559056	T	T	98559056	3	4	212	1	0	0	0	0	1	0	0	0	16627	971	34	5	6757	5	TRRAP	7	98559056	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	706622	98559056	60579607	648	104453											
TRRAP	8295	broad.mit.edu	37	chr7	98559094	98559094	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgagcattttcccaacagagCcgagtatgtgacctttccca	10	11	8	12	1	0	3	0	2	0	1	2	4	2	3	4	0	3	2	4	0	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:98559094C>T	uc003upp.2	+	45	6888	c.6679C>T	c.(6679-6681)CCG>TCG	p.P2227S	TRRAP_uc011kis.1_Missense_Mutation_p.P2209S|TRRAP_uc003upr.2_Missense_Mutation_p.P1926S	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2227	Interaction with TP53.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CCCAACAGAGCCGAGTATGTG	0.562													18	38					0	0	0.010504	0	0		T	98559094	T	T	98559094	3	4	212	1	0	0	0	0	1	0	0	0	16627	739	26	2	6795	2	TRRAP	7	98559094	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	38	98559094	60579569	649	104454											
OR2AE1	81392	broad.mit.edu	37	chr7	99473841	99473841	+	Silent	SNP	A	G	G	1	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	atgctgtagaacacagaaccAactttgttctgcaatagagt	14	11	8	8	0	1	3	0	0	1	3	1	3	1	3	1	0	5	4	1	0	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:99473841A>G	uc003usc.1	-	1	816	c.816T>C	c.(814-816)GTT>GTC	p.V272V		NM_001005276	NP_001005276	Q8NHA4	O2AE1_HUMAN	olfactory receptor, family 2, subfamily AE,	272	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(72;0.0166)|Lung NSC(181;0.0211)|all_lung(186;0.0323)					ACACAGAACCAACTTTGTTCT	0.473													29	65					0	0	0.012213	0	0		G	99473841	G	G	99473841	2	3	212	1	0	0	0	0	0	0	0	1	11002	117	5	3		3	OR2AE1	7	99473841	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	914747	99473841	59664822	650	104455											
ZAN	7455	broad.mit.edu	37	chr7	100350317	100350317	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccaccatccccacagaaaaAcccaccatctccccagaaaa	16	3	2	20	0	1	2	0	0	1	2	3	2	2	2	8	0	1	0	8	0	4	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:100350317A>C	uc003uwj.2	+	14	2754	c.2589A>C	c.(2587-2589)AAA>AAC	p.K863N	ZAN_uc003uwk.2_Missense_Mutation_p.K863N|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	863	66 X heptapeptide repeats (approximate) (mucin-like domain).|Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			CCACAGAAAAACCCACCATCT	0.498													22	45					0	0	0.00278	0	0		C	100350317	C	C	100350317	3	2	212	1	0	0	0	0	1	0	0	0	17539	40	2	5	2639	5	ZAN	7	100350317	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	876476	100350317	58788346	651	104456											
EPHB4	2050	broad.mit.edu	37	chr7	100401094	100401094	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tcctgcaggtcagtactgcgGggccggtcctcctgtcccac	4	9	12	16	2	1	0	1	0	0	0	5	0	5	0	5	4	3	2	5	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:100401094G>T	uc003uwn.1	-	17	3444	c.2953C>A	c.(2953-2955)CCG>ACG	p.P985T	EPHB4_uc003uwm.1_Missense_Mutation_p.P892T|EPHB4_uc010lhj.1_Missense_Mutation_p.P933T	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	985	Cytoplasmic (Potential).|PDZ-binding (Potential).				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					CAGTACTGCGGGGCCGGTCCT	0.662													3	9					0.004672	0.00476279	0.004672	1	0		T	100401094	T	T	100401094	3	4	212	1	0	0	0	0	1	0	0	0	5185	1232	43	5	14	5	EPHB4	7	100401094	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	50777	100401094	58737569	652	104457											
TRIP6	7205	broad.mit.edu	37	chr7	100470351	100470351	+	Silent	SNP	C	T	T	0	0	0	1	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	gatcgaagttttcacattggCtgttacaagtgcgaggtcag	10	12	12	7	2	2	0	2	0	0	0	3	3	2	0	0	2	2	3	0	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:100470351C>T	uc003uww.2	+	8	1454	c.1284C>T	c.(1282-1284)GGC>GGT	p.G428G	SRRT_uc010lhl.1_5'Flank|SRRT_uc003uwy.2_5'Flank|SRRT_uc003uxa.2_5'Flank|SRRT_uc003uwz.2_5'Flank	NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	428	LIM zinc-binding 3.				focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)					TTCACATTGGCTGTTACAAGT	0.577													10	35					0	0	0.008291	0	0		T	100470351	T	T	100470351	2	4	212	1	0	0	0	0	0	0	0	1	16585	784	28	2		2	TRIP6	7	100470351	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	69257	100470351	58668312	653	104458											
ACHE	43	broad.mit.edu	37	chr7	100488956	100488956	+	Silent	SNP	A	G	G	1	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	gggtctcggggctcattgggAtccctgcggaaggaagggaa	8	7	18	8	2	2	0	1	0	1	0	4	4	3	4	1	7	1	1	1	7	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:100488956A>G	uc003uxd.2	-	3	1713	c.1557T>C	c.(1555-1557)GAT>GAC	p.D519D	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Silent_p.D519D|ACHE_uc003uxf.2_Silent_p.D519D|ACHE_uc003uxg.2_Silent_p.D519D|ACHE_uc003uxh.2_Silent_p.D431D|ACHE_uc003uxi.2_Silent_p.D519D	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor	519					acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	GCTCATTGGGATCCCTGCGGA	0.682													11	27					0	0	0.013537	0	0		G	100488956	G	G	100488956	2	3	212	1	0	0	0	0	0	0	0	1	141	330	12	3		3	ACHE	7	100488956	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	18605	100488956	58649707	654	104459											
C7orf52	375607	broad.mit.edu	37	chr7	100815807	100815807	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcaggaggcgtgccacgtcGccgcctgcctcggacacggc	6	4	15	16	6	0	0	0	0	0	0	2	2	0	2	4	4	3	1	4	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:100815807G>A	uc003uxy.1	-	4	902	c.663C>T	c.(661-663)GGC>GGT	p.G221G	C7orf52_uc003uxz.1_Silent_p.G221G	NM_198571	NP_940973	Q8N8M0	CG052_HUMAN	hypothetical protein LOC375607	221							N-acetyltransferase activity			ovary(1)	1	Lung NSC(181;0.168)|all_lung(186;0.215)					GTGCCACGTCGCCGCCTGCCT	0.736													6	6					0	0	0.001168	0	0		A	100815807	A	A	100815807	2	1	212	1	0	0	0	0	0	0	0	1	2404	1074	38	1		1	C7orf52	7	100815807	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	326851	100815807	58322856	655	104460											
SLC26A3	1811	broad.mit.edu	37	chr7	107423730	107423730	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgcaaatgcaaccattgCgatgccgaagcaatctccta	13	8	7	13	2	1	0	0	0	1	0	2	2	1	0	3	0	6	3	3	0	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:107423730C>T	uc003ver.2	-	9	1250	c.1039G>A	c.(1039-1041)GCA>ACA	p.A347T	SLC26A3_uc003ves.2_Missense_Mutation_p.A312T	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3	347	Helical; (Potential).				excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						GCAACCATTGCGATGCCGAAG	0.428													22	36					0	0	0.00278	0	0		T	107423730	T	T	107423730	3	4	212	1	0	0	0	0	1	0	0	0	14543	768	27	1	1307	1	SLC26A3	7	107423730	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6607923	107423730	51714933	656	104461											
LAMB4	22798	broad.mit.edu	37	chr7	107696398	107696398	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcccggcagcggcacatgCctgtgtctggatcacagatg	7	8	12	14	2	2	1	1	0	1	1	3	2	3	2	3	3	2	2	3	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:107696398C>A	uc010ljo.1	-	25	3518	c.3434G>T	c.(3433-3435)GGC>GTC	p.G1145V	LAMB4_uc003vey.2_Missense_Mutation_p.G1145V|LAMB4_uc010ljp.1_Missense_Mutation_p.G114V	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor	1145	Laminin EGF-like 13.				cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						GCGGCACATGCCTGTGTCTGG	0.542													24	34					6.44725e-10	6.99595e-10	0.014323	1	0		A	107696398	A	A	107696398	3	1	212	1	0	0	0	0	1	0	0	0	8629	739	26	5	1891	5	LAMB4	7	107696398	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	272668	107696398	51442265	657	104462											
CAV2	858	broad.mit.edu	37	chr7	116139935	116139935	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgccgaccccgagaagttcGcggactcggaccaggaccgg	9	3	14	15	7	0	1	0	0	0	1	2	6	0	4	5	4	0	1	5	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:116139935G>A	uc003vid.2	+	1	492	c.100G>A	c.(100-102)GCG>ACG	p.A34T	CAV2_uc003vhv.2_Intron|CAV2_uc003vhw.2_Intron|CAV2_uc003vhx.2_Intron|CAV2_uc010lkb.1_Intron|CAV2_uc010lkc.2_RNA|CAV2_uc003vib.2_Intron|CAV2_uc003vhz.2_RNA|CAV2_uc003via.2_RNA|CAV1_uc010lkd.1_Intron|CAV1_uc010lke.1_Intron|CAV2_uc003vie.2_Missense_Mutation_p.A34T	NM_001233	NP_001224	P51636	CAV2_HUMAN	caveolin 2 isoform a and b	34	Cytoplasmic (Potential).				caveola assembly|endoplasmic reticulum organization|mitochondrion organization|negative regulation of endothelial cell proliferation|positive regulation of dopamine receptor signaling pathway|regulation of mitosis|skeletal muscle fiber development|vesicle docking|vesicle fusion	caveola|extrinsic to internal side of plasma membrane|Golgi membrane|integral to plasma membrane|membrane fraction|nucleus|perinuclear region of cytoplasm|transport vesicle	D1 dopamine receptor binding|protein homodimerization activity				0	all_epithelial(6;1.53e-06)|Lung NSC(10;0.00592)|all_lung(10;0.00642)		STAD - Stomach adenocarcinoma(10;0.00878)			CGAGAAGTTCGCGGACTCGGA	0.682													9	11					0	0	0.006214	0	0		A	116139935	A	A	116139935	3	1	212	1	0	0	0	0	1	0	0	0	2697	1087	38	1	102	1	CAV2	7	116139935	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8443537	116139935	42998728	658	104463											
CTTNBP2	83992	broad.mit.edu	37	chr7	117432385	117432385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacagatatggaaaccaaacGcctatcttttgtcttccgtg	11	12	7	11	2	2	1	0	0	2	1	3	2	3	2	3	1	2	0	3	1	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:117432385G>A	uc003vjf.2	-	4	957	c.865C>T	c.(865-867)CGT>TGT	p.R289C		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	289										ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		GAAACCAAACGCCTATCTTTT	0.443													34	48					0	0	0.013726	0	0		A	117432385	A	A	117432385	3	1	212	1	0	0	0	0	1	0	0	0	4048	1087	38	1	4206	1	CTTNBP2	7	117432385	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1292450	117432385	41706278	659	104464											
KCND2	3751	broad.mit.edu	37	chr7	119915384	119915384	+	Missense_Mutation	SNP	A	G	G	1	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	tgtggccttcttctgcttggAcacggcctgcgtcatgatct	4	14	11	12	2	4	1	1	1	3	0	4	2	4	2	2	3	2	1	2	3	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:119915384A>G	uc003vjj.1	+	1	1663	c.698A>G	c.(697-699)GAC>GGC	p.D233G		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	233	Helical; Name=Segment S2; (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					TTCTGCTTGGACACGGCCTGC	0.532													11	31					0	0	0.008291	0	0		G	119915384	G	G	119915384	3	3	212	1	0	0	0	0	1	0	0	0	8035	275	10	3	700	3	KCND2	7	119915384	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2482999	119915384	39223279	660	104465											
LRRC4	64101	broad.mit.edu	37	chr7	127669503	127669503	+	Silent	SNP	G	T	T																															aggacagagatccttgggtgGcgggaggcgtggctgagcac																								rs141815231		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:127669503G>T	uc003vmk.2	-	2	1328	c.1191C>A	c.(1189-1191)CGC>CGA	p.R397R	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	397	Extracellular (Potential).|Ig-like.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		TCCTTGGGTGGCGGGAGGCGT	0.562													4	52					0.00909568	0.00923654	0.009096	1	0		T	127669503	T	T	127669503	2	4	212	1	0	0	0	0	0	0	0	1	9015	1190	42	5		5	LRRC4	7	127669503	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	7754119	127669503	31469160	661	104466	192	2									
LRRC4	64101	broad.mit.edu	37	chr7	127669511	127669511	+	Missense_Mutation	SNP	C	T	T																															gatccttgggtggcgggaggCgtggctgagcactgtcccat																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:127669511C>T	uc003vmk.2	-	2	1320	c.1183G>A	c.(1183-1185)GCC>ACC	p.A395T	SND1_uc003vmi.2_Intron|SND1_uc010lle.2_Intron	NM_022143	NP_071426	Q9HBW1	LRRC4_HUMAN	leucine rich repeat containing 4 precursor	395	Extracellular (Potential).|Ig-like.					cell junction|integral to membrane|postsynaptic membrane				large_intestine(1)|breast(1)|central_nervous_system(1)|pancreas(1)	4				Lung(243;0.124)		TGGCGGGAGGCGTGGCTGAGC	0.562													11	41					0	0	0.001855	0	0		T	127669511	T	T	127669511	3	4	212	1	0	0	0	0	1	0	0	0	9015	768	27	1	782	1	LRRC4	7	127669511	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8	127669511	31469152	662	104467	192	2									
IRF5	3663	broad.mit.edu	37	chr7	128587086	128587086	+	Missense_Mutation	SNP	A	T	T	1	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	tgtcccttcagctgcagaggAtgttgccaagcctgagcctc	7	10	11	13	0	1	2	1	1	0	1	3	3	2	3	4	1	5	3	4	1	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:128587086A>T	uc003vog.2	+	5	578	c.457A>T	c.(457-459)ATG>TTG	p.M153L	IRF5_uc010llr.1_Intron|IRF5_uc011kou.1_Missense_Mutation_p.M153L|IRF5_uc010lls.1_Intron|IRF5_uc003voh.2_Missense_Mutation_p.M153L|IRF5_uc010llt.2_Missense_Mutation_p.M153L|IRF5_uc003voi.2_Missense_Mutation_p.M153L|IRF5_uc010llu.1_Intron|IRF5_uc003vok.2_Silent_p.G143G|IRF5_uc003voj.3_Missense_Mutation_p.M153L|IRF5_uc010llv.1_Intron|IRF5_uc010llw.1_Intron	NM_002200	NP_002191	Q13568	IRF5_HUMAN	interferon regulatory factor 5 isoform a	153					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						GCTGCAGAGGATGTTGCCAAG	0.572													22	47					0	0	0.00632	0	0		T	128587086	T	T	128587086	3	4	212	1	0	0	0	0	1	0	0	0	7849	333	12	5	471	5	IRF5	7	128587086	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	917575	128587086	30551577	663	104468											
EXOC4	60412	broad.mit.edu	37	chr7	133749275	133749275	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggacaagaagataactacCgtttagcagggcgtactgcg	14	7	12	8	3	0	2	0	0	0	2	0	3	0	3	1	2	5	3	1	2	7	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:133749275C>T	uc003vrk.2	+	18	2954	c.2919C>T	c.(2917-2919)ACC>ACT	p.T973T	EXOC4_uc011kpo.1_Silent_p.T872T|EXOC4_uc003vrl.2_Silent_p.T583T|EXOC4_uc011kpp.1_Silent_p.T505T|EXOC4_uc011kpq.1_Silent_p.T261T	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	973					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				AGATAACTACCGTTTAGCAGG	0.507													23	48					0	0	0.003954	0	0		T	133749275	T	T	133749275	2	4	212	1	0	0	0	0	0	0	0	1	5314	639	23	1		1	EXOC4	7	133749275	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5162189	133749275	25389388	664	104469											
FAM180A	389558	broad.mit.edu	37	chr7	135418799	135418799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaggctaacgagggactgcGcccagatgtccttctgatgg	9	8	14	10	2	1	3	0	1	1	2	2	5	2	4	2	3	2	1	2	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:135418799G>A	uc003vtd.2	-	3	712	c.446C>T	c.(445-447)GCG>GTG	p.A149V	FAM180A_uc010lmt.2_RNA|FAM180A_uc010lmu.2_Missense_Mutation_p.A149V	NM_205855	NP_995327	Q6UWF9	F180A_HUMAN	hypothetical protein LOC389558 precursor	149						extracellular region				ovary(2)	2						GAGGGACTGCGCCCAGATGTC	0.607													22	23					0	0	0.003954	0	0		A	135418799	A	A	135418799	3	1	212	1	0	0	0	0	1	0	0	0	5518	1087	38	1	79	1	FAM180A	7	135418799	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1669524	135418799	23719864	665	104470											
CHRM2	1129	broad.mit.edu	37	chr7	136700065	136700065	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagctgcctgggtcctctcTttcatcctctgggctccagc	3	12	10	16	0	3	0	1	0	2	0	7	0	6	0	4	2	3	3	4	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:136700065T>G	uc003vtf.1	+	4	1076	c.453T>G	c.(451-453)TCT>TCG	p.S151S	CHRM2_uc003vtg.1_Silent_p.S151S|CHRM2_uc003vtj.1_Silent_p.S151S|CHRM2_uc003vtk.1_Silent_p.S151S|CHRM2_uc003vtl.1_Silent_p.S151S|CHRM2_uc003vtm.1_Silent_p.S151S|CHRM2_uc003vti.1_Silent_p.S151S|CHRM2_uc003vto.1_Silent_p.S151S|CHRM2_uc003vtn.1_Silent_p.S151S|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	151	Helical; Name=4; (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GGGTCCTCTCTTTCATCCTCT	0.498													29	53					0	0	0.008361	0	0		G	136700065	G	G	136700065	2	3	212	1	0	0	0	0	0	0	0	1	3380	1596	56	5		5	CHRM2	7	136700065	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1281266	136700065	22438598	666	104471											
MKRN1	23608	broad.mit.edu	37	chr7	140159029	140159029	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggtgcttcagtgcaggaaggCgcagctgaaaatgtgtaaga	12	8	15	6	1	1	2	1	1	0	1	1	3	1	3	0	3	3	5	0	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:140159029C>T	uc003vvt.2	-	4	774	c.549G>A	c.(547-549)GCG>GCA	p.A183A	MKRN1_uc003vvs.2_Silent_p.A119A|MKRN1_uc011krd.1_Intron|MKRN1_uc003vvv.3_Silent_p.A183A|MKRN1_uc003vvu.3_Silent_p.A119A	NM_013446	NP_038474	Q9UHC7	MKRN1_HUMAN	makorin ring finger protein 1 isoform 1	183							ligase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.00956)					TGCAGGAAGGCGCAGCTGAAA	0.463													22	41					0	0	0.010504	0	0		T	140159029	T	T	140159029	2	4	212	1	0	0	0	0	0	0	0	1	9624	755	27	1		1	MKRN1	7	140159029	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3458964	140159029	18979634	667	104472											
EPHA1	2041	broad.mit.edu	37	chr7	143096040	143096040	+	Splice_Site	SNP	T	C	C	0	1	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	cggggggccgaggggggaccTgtgggagaagaggagccatc	8	3	22	8	2	0	2	0	0	0	2	1	6	0	4	3	8	1	0	3	8	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:143096040T>C	uc003wcz.2	-	6	1079	c.992_splice	c.e6-1	p.G331_splice		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor							integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				AGGGGGGACCTGTGGGAGAAG	0.637													4	5					0	0	0.000602	0	0		C	143096040	C	C	143096040	5	2	212	1	0	0	0	0	0	0	1	0	5173	1594	55	3	1992	3	EPHA1	7	143096040	Splice_Site	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2937011	143096040	16042623	668	104473											
EPHA1	2041	broad.mit.edu	37	chr7	143096757	143096757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcttaccaacacatgcttcGccactgccaccttcctcata	9	12	3	17	1	2	0	1	0	1	0	4	0	3	0	5	0	4	1	5	0	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:143096757G>A	uc003wcz.2	-	4	909	c.822C>T	c.(820-822)GGC>GGT	p.G274G		NM_005232	NP_005223	P21709	EPHA1_HUMAN	ephrin receptor EphA1 precursor	274	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity			ovary(3)|lung(1)|breast(1)	5	Melanoma(164;0.205)	Myeloproliferative disorder(862;0.0255)				CACATGCTTCGCCACTGCCAC	0.627													18	47					0	0	0.00278	0	0		A	143096757	A	A	143096757	2	1	212	1	0	0	0	0	0	0	0	1	5173	1074	38	1		1	EPHA1	7	143096757	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	717	143096757	16041906	669	104474											
CNTNAP2	26047	broad.mit.edu	37	chr7	146997365	146997365	+	Missense_Mutation	SNP	A	G	G	1	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	ccttcaagttaaaactggcgAgaagtacttttttggaggta	12	13	10	6	1	1	1	1	0	0	1	1	3	1	2	1	3	2	3	1	3	6	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:146997365A>G	uc003weu.1	+	9	1997	c.1481A>G	c.(1480-1482)GAG>GGG	p.E494G		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	494	Extracellular (Potential).|Laminin G-like 2.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			AAAACTGGCGAGAAGTACTTT	0.363										HNSCC(39;0.1)			44	8					0	0	0.01441	0	0		G	146997365	G	G	146997365	3	3	212	1	0	0	0	0	1	0	0	0	3650	304	11	3	1515	3	CNTNAP2	7	146997365	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3900608	146997365	12141298	670	104475											
TMUB1	83590	broad.mit.edu	37	chr7	150779570	150779570	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggtgtgcgttgagacccaGgcaagggccagcaccagaag	10	4	16	11	2	0	2	0	1	0	2	0	3	0	2	3	3	2	3	3	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:150779570G>T	uc003wjb.2	-	1	196	c.81C>A	c.(79-81)GCC>GCA	p.A27A	FASTK_uc003wiw.1_5'Flank|FASTK_uc003wix.1_5'Flank|FASTK_uc003wiy.1_5'Flank|FASTK_uc003wiz.1_5'Flank|FASTK_uc003wja.1_5'Flank|TMUB1_uc003wjc.2_Silent_p.A27A|TMUB1_uc003wjd.2_Silent_p.A27A	NM_031434	NP_113622	Q9BVT8	TMUB1_HUMAN	transmembrane and ubiquitin-like domain	27	Nuclear export signal (Potential).					cytoplasm|integral to membrane|nucleus					0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTGAGACCCAGGCAAGGGCCA	0.672													8	78					0.000157383	0.000162976	0.00308	1	0		T	150779570	T	T	150779570	2	4	212	1	0	0	0	0	0	0	0	1	16289	987	35	5		5	TMUB1	7	150779570	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3782205	150779570	8359093	671	104476											
AGAP3	116988	broad.mit.edu	37	chr7	150783996	150783997	+	Frame_Shift_Ins	INS	-	C	C																															cgcagcagctggccggcgggINScccccccagcagttcgcgct																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr7:150783996_150783997insC	uc003wjg.1	+	1	171_172	c.168_169insC	c.(166-171)GGGCCCfs	p.G56fs	AGAP3_uc003wje.1_Intron|AGAP3_uc003wjf.1_Frame_Shift_Ins_p.G56fs|AGAP3_uc010lpy.1_Frame_Shift_Ins_p.G56fs	NM_031946	NP_114152	Q96P47	AGAP3_HUMAN	centaurin, gamma 3 isoform a	20_21					regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm|membrane	ARF GTPase activator activity|GTP binding|GTPase activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3						TGGCCGGCGGGCCCCCCCAGCA	0.554													4	9	---	---	---	---						.	C	150783997	C	C	150783996	7	5	212	1	0	1	1	0	0	0	0	0	369	1190	42	0	170	0	AGAP3	7	150783996	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	4426	150783996	8354667	672	104477											
ZNF596	169270	broad.mit.edu	37	chr8	195870	195870	+	Silent	SNP	A	G	G	1	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	tatgaatgtcatctatgtggAaaagccttctctcattgttc	10	16	7	8	0	4	1	2	1	2	0	6	2	4	2	1	1	1	1	1	1	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:195870A>G	uc003wot.2	+	6	1311	c.1023A>G	c.(1021-1023)GGA>GGG	p.G341G	ZNF596_uc003wou.2_Silent_p.G240G|ZNF596_uc003wov.2_Silent_p.G341G|ZNF596_uc003wow.2_Silent_p.G341G	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	341	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		ATCTATGTGGAAAAGCCTTCT	0.403													7	4					0	0	0.004482	0	0		G	195870	G	G	195870	2	3	212	1	0	0	0	0	0	0	0	1	18051	233	9	3		3	ZNF596	8	195870	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08		195870	146168152	673	104478											
CSMD1	64478	broad.mit.edu	37	chr8	3224684	3224684	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacccggtgagcctggcaacGggctcggaaaaacttccatc	10	6	12	13	3	0	1	0	1	0	0	3	3	1	2	3	4	3	2	3	4	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:3224684G>A	uc011kwk.1	-	20	3378	c.2988C>T	c.(2986-2988)CCC>CCT	p.P996P	CSMD1_uc011kwj.1_Silent_p.P388P|CSMD1_uc003wqe.2_Silent_p.P152P	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	996	Extracellular (Potential).|CUB 6.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GCCTGGCAACGGGCTCGGAAA	0.473													8	9					0	0	0.006214	0	0		A	3224684	A	A	3224684	2	1	212	1	0	0	0	0	0	0	0	1	3947	1103	39	1		1	CSMD1	8	3224684	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3028814	3224684	143139338	674	104479											
PSD3	23362	broad.mit.edu	37	chr8	18490163	18490163	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcatgaattttccgagccaaGaatccacttttgtacacagc	12	11	7	11	1	0	2	0	1	0	1	2	3	2	2	3	0	3	2	3	0	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:18490163G>T	uc003wza.2	-	11	2473	c.2370C>A	c.(2368-2370)TTC>TTA	p.F790L	PSD3_uc003wyx.3_Missense_Mutation_p.F119L|PSD3_uc003wyy.2_Missense_Mutation_p.F256L|PSD3_uc003wyz.2_Missense_Mutation_p.F91L	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	791	PH.				regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		TCCGAGCCAAGAATCCACTTT	0.358													16	39					6.33239e-15	7.16786e-15	0.010504	1	0		T	18490163	T	T	18490163	3	4	212	1	0	0	0	0	1	0	0	0	12670	933	33	5	797	5	PSD3	8	18490163	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	15265479	18490163	127873859	675	104480											
FAM160B2	64760	broad.mit.edu	37	chr8	21960331	21960331	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caccagaccctcctccagggCgtggtggtgctggaggagtt	6	8	15	12	1	0	1	0	0	0	1	2	3	2	3	4	5	1	2	4	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:21960331C>T	uc011kyx.1	+	17	2172	c.2121C>T	c.(2119-2121)GGC>GGT	p.G707G	FAM160B2_uc011kyy.1_RNA	NM_022749	NP_073586	Q86V87	F16B2_HUMAN	retinoic acid induced 16	707											0						TCCTCCAGGGCGTGGTGGTGC	0.647													14	11					0	0	0.003163	0	0		T	21960331	T	T	21960331	2	4	212	1	0	0	0	0	0	0	0	1	5482	755	27	1		1	FAM160B2	8	21960331	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3470168	21960331	124403691	676	104481											
POLR3D	661	broad.mit.edu	37	chr8	22107661	22107661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggttggcaagctactcatccGcaagtctggaagggtgcaac	10	8	13	10	1	2	0	1	0	1	0	3	1	3	1	1	4	4	5	1	4	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:22107661G>A	uc003xbl.2	+	8	1078	c.995G>A	c.(994-996)CGC>CAC	p.R332H	POLR3D_uc003xbm.2_Missense_Mutation_p.R332H|POLR3D_uc011kze.1_RNA	NM_001722	NP_001713	P05423	RPC4_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	332					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity				0				Colorectal(74;0.0146)|COAD - Colon adenocarcinoma(73;0.061)		CTACTCATCCGCAAGTCTGGA	0.562													3	33					0	0	0.009096	0	0		A	22107661	A	A	22107661	3	1	212	1	0	0	0	0	1	0	0	0	12250	1087	38	1	1021	1	POLR3D	8	22107661	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	147330	22107661	124256361	677	104482											
PBK	55872	broad.mit.edu	37	chr8	27668479	27668479	+	Missense_Mutation	SNP	A	T	T	1	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	gaaattgtattcataccttcAtcatcatcatcatttgaaag	14	15	4	8	0	6	1	6	1	0	0	6	2	6	1	1	0	1	1	1	0	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:27668479A>T	uc003xgi.2	-	7	969	c.768T>A	c.(766-768)GAT>GAA	p.D256E	ESCO2_uc010luy.1_Intron|PBK_uc011lap.1_Missense_Mutation_p.D267E	NM_018492	NP_060962	Q96KB5	TOPK_HUMAN	PDZ binding kinase	256	Protein kinase.				mitosis		ATP binding|protein binding|protein serine/threonine kinase activity				0		Ovarian(32;0.000953)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|KIRC - Kidney renal clear cell carcinoma(542;0.101)|Kidney(114;0.121)|Colorectal(74;0.141)		TCATACCTTCATCATCATCAT	0.299													8	5					0	0	0.00308	0	0		T	27668479	T	T	27668479	3	4	212	1	0	0	0	0	1	0	0	0	11507	214	8	5	208	5	PBK	8	27668479	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	5560818	27668479	118695543	678	104483											
KIF13B	23303	broad.mit.edu	37	chr8	28989840	28989840	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcacctgtcccgaagactaCgtgtctttgcttggatgatt	7	15	9	10	2	2	2	1	1	1	1	3	4	3	3	2	1	2	1	2	1	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:28989840C>T	uc003xhh.3	-	23	2986	c.2927G>A	c.(2926-2928)CGT>CAT	p.R976H	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	976					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CCGAAGACTACGTGTCTTTGC	0.323													28	22					0	0	0.010818	0	0		T	28989840	T	T	28989840	3	4	212	1	0	0	0	0	1	0	0	0	8291	536	19	1	2625	1	KIF13B	8	28989840	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1321361	28989840	117374182	679	104484											
KIF13B	23303	broad.mit.edu	37	chr8	28991587	28991587	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaaagacaaccatgcagtgCggctccttgctgacggaaga	12	7	11	11	2	1	3	1	1	0	2	2	4	2	4	2	2	4	3	2	2	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:28991587C>T	uc003xhh.3	-	22	2813	c.2754G>A	c.(2752-2754)CCG>CCA	p.P918P	uc003xhi.1_Intron	NM_015254	NP_056069	Q9NQT8	KI13B_HUMAN	kinesin family member 13B	918					microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)		CCATGCAGTGCGGCTCCTTGC	0.458													6	6					0	0	0.001168	0	0		T	28991587	T	T	28991587	2	4	212	1	0	0	0	0	0	0	0	1	8291	755	27	1		1	KIF13B	8	28991587	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1747	28991587	117372435	680	104485											
ADAM2	2515	broad.mit.edu	37	chr8	39644512	39644512	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagaacaacacctcctgcaTagtttgcatcacacatcttc	12	10	4	15	0	2	1	1	0	1	1	4	1	3	1	3	0	4	3	3	0	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:39644512T>C	uc003xnj.2	-	10	947	c.872A>G	c.(871-873)TAT>TGT	p.Y291C	ADAM2_uc003xnk.2_Missense_Mutation_p.Y272C|ADAM2_uc011lck.1_Missense_Mutation_p.Y291C|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	291	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		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)		ACCTCCTGCATAGTTTGCATC	0.294													22	26					0	0	0.004656	0	0		C	39644512	C	C	39644512	3	2	212	1	0	0	0	0	1	0	0	0	241	1406	49	3	1379	3	ADAM2	8	39644512	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	10652925	39644512	106719510	681	104486											
IDO1	3620	broad.mit.edu	37	chr8	39775722	39775722	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaggtcatggagatgtccGtaaggtttggagattttctc	10	13	12	6	1	2	2	1	0	1	2	4	4	3	2	1	4	0	2	1	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:39775722G>T	uc003xnm.2	+	3	413	c.299G>T	c.(298-300)CGT>CTT	p.R100L	IDO1_uc003xnn.2_RNA	NM_002164	NP_002155	P14902	I23O1_HUMAN	indoleamine 2,3-dioxygenase 1	100					female pregnancy|tryptophan catabolic process	cytosol	electron carrier activity|heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			central_nervous_system(2)	2					L-Tryptophan(DB00150)	GGAGATGTCCGTAAGGTTTGG	0.393													18	26					1.02788e-11	1.13413e-11	0.00499	1	0		T	39775722	T	T	39775722	3	4	212	1	0	0	0	0	1	0	0	0	7517	1145	40	5	309	5	IDO1	8	39775722	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	131210	39775722	106588300	682	104487											
MYST3	7994	broad.mit.edu	37	chr8	41791415	41791415	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcacagtcctggtaggcGccctcatgctcactgctttc	5	12	8	16	1	3	0	3	0	0	0	6	0	5	0	3	2	2	3	3	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:41791415G>A	uc010lxb.2	-	18	4867	c.4323C>T	c.(4321-4323)GGC>GGT	p.G1441G	MYST3_uc010lxc.2_Silent_p.G1441G|MYST3_uc003xon.3_Silent_p.G1441G	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1441					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CCTGGTAGGCGCCCTCATGCT	0.512													19	83					0	0	0.007413	0	0		A	41791415	A	A	41791415	2	1	212	1	0	0	0	0	0	0	0	1	10122	1074	38	1		1	MYST3	8	41791415	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2015693	41791415	104572607	683	104488											
IKBKB	3551	broad.mit.edu	37	chr8	42179452	42179452	+	Frame_Shift_Del	DEL	A	-	-																															gctgtacaggagactaagggAaaaacctcgaggtaagtggg																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:42179452delA	uc003xow.1	+	17	1904	c.1727delA	c.(1726-1728)GAAfs	p.E576fs	IKBKB_uc011lco.1_RNA|IKBKB_uc010lxj.1_Frame_Shift_Del_p.E353fs|IKBKB_uc003xox.1_Frame_Shift_Del_p.E297fs|IKBKB_uc011lcp.1_RNA|IKBKB_uc011lcq.1_Frame_Shift_Del_p.E574fs|IKBKB_uc010lxi.1_RNA|IKBKB_uc011lcr.1_Frame_Shift_Del_p.E517fs	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	576					anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity			breast(3)|ovary(2)|lung(1)|skin(1)	7	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)		Arsenic trioxide(DB01169)|Auranofin(DB00995)	AGACTAAGGGAAAAACCTCGA	0.413													16	20	---	---	---	---						.	-	42179452	-	-	42179452	7	5	212	1	0	1	0	1	0	0	0	0	7627	246	9	0	1789	0	IKBKB	8	42179452	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	388037	42179452	104184570	684	104489											
PRKDC	5591	broad.mit.edu	37	chr8	48777241	48777241	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcggtccacaaaggactggCgtgtgaaacttaggcggggg	10	6	17	8	3	0	1	0	1	0	0	1	2	1	2	1	6	2	0	1	6	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:48777241C>T	uc003xqi.2	-	42	5504	c.5447G>A	c.(5446-5448)CGC>CAC	p.R1816H	PRKDC_uc003xqj.2_Missense_Mutation_p.R1816H|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	1816					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AAAGGACTGGCGTGTGAAACT	0.488								NHEJ					4	3					0	0	0.009096	0	0		T	48777241	T	T	48777241	3	4	212	1	0	0	0	0	1	0	0	0	12543	768	27	1	7123	1	PRKDC	8	48777241	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6597789	48777241	97586781	685	104490											
MOS	4342	broad.mit.edu	37	chr8	57026083	57026083	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcagggtggccggcggcGccatagatgacttggtgtaa	7	8	15	11	3	1	2	1	1	0	1	1	2	1	2	3	5	0	1	3	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:57026083G>A	uc011leb.1	-	1	459	c.459C>T	c.(457-459)GGC>GGT	p.G153G		NM_005372	NP_005363	P00540	MOS_HUMAN	v-mos Moloney murine sarcoma viral oncogene	153	Protein kinase.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|ovary(1)|central_nervous_system(1)	4			Epithelial(17;0.00117)|all cancers(17;0.00879)			GGCCGGCGGCGCCATAGATGA	0.587													17	45					0	0	0.004007	0	0		A	57026083	A	A	57026083	2	1	212	1	0	0	0	0	0	0	0	1	9730	1074	38	1		1	MOS	8	57026083	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8248842	57026083	89337939	686	104491											
CA8	767	broad.mit.edu	37	chr8	61192348	61192348	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaggcggacatccaacagCgaggggtcatacctagcctc	11	5	13	12	2	1	1	1	0	0	1	3	4	2	2	3	4	4	0	3	4	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:61192348C>T	uc003xtz.1	-	2	440	c.192G>A	c.(190-192)TCG>TCA	p.S64S	CA8_uc003xua.1_Silent_p.S64S|CA8_uc003xub.2_Silent_p.S64S	NM_004056	NP_004047	P35219	CAH8_HUMAN	carbonic anhydrase VIII	64					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0		all_cancers(86;0.172)|all_epithelial(80;0.0383)|all_lung(136;0.0413)|Lung NSC(129;0.0474)				CATCCAACAGCGAGGGGTCAT	0.473													13	44					0	0	0.001855	0	0		T	61192348	T	T	61192348	2	4	212	1	0	0	0	0	0	0	0	1	2526	755	27	1		1	CA8	8	61192348	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4166265	61192348	85171674	687	104492											
CHD7	55636	broad.mit.edu	37	chr8	61778057	61778057	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggaaatgagaatgaagacgaGaacaaagactctgagaaaag	21	4	12	4	1	1	6	0	3	1	5	1	10	1	7	0	1	1	0	0	1	7	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:61778057G>A	uc003xue.2	+	38	9036	c.8559G>A	c.(8557-8559)GAG>GAA	p.E2853E		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	2853					central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity			ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			ATGAAGACGAGAACAAAGACT	0.498													11	23					0	0	0.008291	0	0		A	61778057	A	A	61778057	2	1	212	1	0	0	0	0	0	0	0	1	3333	933	33	4		4	CHD7	8	61778057	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	585709	61778057	84585965	688	104493											
YTHDF3	253943	broad.mit.edu	37	chr8	64099642	64099642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaatcgctgggtagctcctcGtaacaggggagcaggcttca	9	8	14	10	2	1	0	1	0	0	0	4	2	2	1	1	4	3	6	1	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:64099642G>A	uc003xuy.2	+	5	1389	c.1073G>A	c.(1072-1074)CGT>CAT	p.R358H	YTHDF3_uc010lys.2_Missense_Mutation_p.R302H|YTHDF3_uc003xuz.2_Missense_Mutation_p.R302H|YTHDF3_uc003xva.2_Missense_Mutation_p.R302H|YTHDF3_uc011len.1_Missense_Mutation_p.R302H	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	358											0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			GTAGCTCCTCGTAACAGGGGA	0.547													4	47					0	0	0.009096	0	0		A	64099642	A	A	64099642	3	1	212	1	0	0	0	0	1	0	0	0	17526	1145	40	1	1086	1	YTHDF3	8	64099642	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2321585	64099642	82264380	689	104494											
YTHDF3	253943	broad.mit.edu	37	chr8	64099819	64099819	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggaatctgaagaatggacGtgtgtttataattaaaagct	14	14	10	3	1	1	2	0	1	1	1	1	4	1	4	0	2	1	2	0	2	7	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:64099819G>A	uc003xuy.2	+	5	1566	c.1250G>A	c.(1249-1251)CGT>CAT	p.R417H	YTHDF3_uc010lys.2_Missense_Mutation_p.R361H|YTHDF3_uc003xuz.2_Missense_Mutation_p.R361H|YTHDF3_uc003xva.2_Missense_Mutation_p.R361H|YTHDF3_uc011len.1_Missense_Mutation_p.R361H	NM_152758	NP_689971	Q7Z739	YTHD3_HUMAN	YTH domain family, member 3	417	YTH.										0	Breast(64;0.0716)	all_cancers(86;0.169)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.146)	BRCA - Breast invasive adenocarcinoma(89;0.161)			AAGAATGGACGTGTGTTTATA	0.393													6	73					0	0	0.001168	0	0		A	64099819	A	A	64099819	3	1	212	1	0	0	0	0	1	0	0	0	17526	1145	40	1	1263	1	YTHDF3	8	64099819	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	177	64099819	82264203	690	104495											
MTFR1	9650	broad.mit.edu	37	chr8	66619297	66619297	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccacaccctccacctccCccaccgcccctgcctccccc	5	4	2	30	1	0	0	0	0	0	0	3	0	3	0	13	0	1	0	13	0	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:66619297C>A	uc003xvm.2	+	6	782	c.570C>A	c.(568-570)CCC>CCA	p.P190P	MTFR1_uc011lep.1_Silent_p.P190P|MTFR1_uc003xvn.2_Silent_p.P157P|MTFR1_uc003xvo.1_Silent_p.P180P	NM_014637	NP_055452	Q15390	MTFR1_HUMAN	mitochondrial fission regulator 1 isoform 1	190	Pro-rich.					mitochondrion|plasma membrane				pancreas(1)	1			Epithelial(68;0.0526)|BRCA - Breast invasive adenocarcinoma(89;0.156)|all cancers(69;0.171)|OV - Ovarian serous cystadenocarcinoma(28;0.194)			CTCCACCTCCCCCACCGCCCC	0.478													24	66					1.10923e-09	1.2015e-09	0.00278	1	0		A	66619297	A	A	66619297	2	1	212	1	0	0	0	0	0	0	0	1	9943	610	22	5		5	MTFR1	8	66619297	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2519478	66619297	79744725	691	104496											
TRIM55	84675	broad.mit.edu	37	chr8	67040642	67040642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtggttttggatagacatgGggtatatggacttcagagga	11	12	15	3	0	1	2	1	0	0	2	1	5	1	5	0	6	0	2	0	6	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:67040642G>A	uc003xvv.2	+	2	498	c.272G>A	c.(271-273)GGG>GAG	p.G91E	TRIM55_uc003xvu.2_Missense_Mutation_p.G91E|TRIM55_uc003xvw.2_Missense_Mutation_p.G91E|TRIM55_uc003xvx.2_Missense_Mutation_p.G91E	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	91						cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5		Lung NSC(129;0.138)|all_lung(136;0.221)	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)			GATAGACATGGGGTATATGGA	0.498													31	209					0	0	0.003755	0	0		A	67040642	A	A	67040642	3	1	212	1	0	0	0	0	1	0	0	0	16555	1232	43	4	278	4	TRIM55	8	67040642	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	421345	67040642	79323380	692	104497											
VCPIP1	80124	broad.mit.edu	37	chr8	67546767	67546767	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ccattggctcagttgtgttaGtcatctcagcatcttgacta	8	15	8	10	0	4	1	3	1	2	0	5	1	4	1	1	1	1	4	1	1	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:67546767G>T	uc003xwn.2	-	3	3897	c.3638C>A	c.(3637-3639)ACT>AAT	p.T1213N		NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	1213					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			AGTTGTGTTAGTCATCTCAGC	0.433													28	201					4.74835e-14	5.33863e-14	0.010818	1	0		T	67546767	T	T	67546767	3	4	212	1	0	0	0	0	1	0	0	0	17167	1029	36	5	34	5	VCPIP1	8	67546767	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	506125	67546767	78817255	693	104498											
C8orf45	157777	broad.mit.edu	37	chr8	67809147	67809147	+	Silent	SNP	C	T	T	0	0	0	1	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	aagccattaatcctgaagggCtgttttatgcggcttctaga	10	13	10	8	1	1	2	0	1	1	1	2	2	2	2	2	2	2	3	2	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:67809147C>T	uc003xwz.3	+	12	1750	c.1579C>T	c.(1579-1581)CTG>TTG	p.L527L	C8orf45_uc011lev.1_Silent_p.L527L|C8orf45_uc011lew.1_Silent_p.L458L|C8orf45_uc011lex.1_Silent_p.L285L|C8orf45_uc003xwy.3_Silent_p.L527L	NM_173518	NP_775789	Q4G0Z9	CH045_HUMAN	minichromosome maintenance complex	527					DNA replication		ATP binding|DNA binding			ovary(1)	1	Breast(64;0.186)		Epithelial(68;0.00384)|OV - Ovarian serous cystadenocarcinoma(28;0.00913)|all cancers(69;0.0175)|BRCA - Breast invasive adenocarcinoma(89;0.206)			TCCTGAAGGGCTGTTTTATGC	0.413													33	184					0	0	0.004289	0	0		T	67809147	T	T	67809147	2	4	212	1	0	0	0	0	0	0	0	1	2433	796	28	2		2	C8orf45	8	67809147	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	262380	67809147	78554875	694	104499											
CSPP1	79848	broad.mit.edu	37	chr8	68028332	68028332	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgcagtggactcagcagcGcccttggtgaaatggtgtct	7	10	14	10	2	2	1	1	1	1	0	2	2	2	2	1	3	3	2	1	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:68028332G>A	uc003xxi.2	+	13	1592	c.1561G>A	c.(1561-1563)GCC>ACC	p.A521T	CSPP1_uc003xxg.1_Missense_Mutation_p.A513T|CSPP1_uc003xxh.1_RNA|CSPP1_uc003xxj.2_Missense_Mutation_p.A486T|CSPP1_uc003xxk.2_Missense_Mutation_p.A192T	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	521	Pro-rich.					centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			ACTCAGCAGCGCCCTTGGTGA	0.443													26	171					0	0	0.007291	0	0		A	68028332	A	A	68028332	3	1	212	1	0	0	0	0	1	0	0	0	3965	1087	38	1	1611	1	CSPP1	8	68028332	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	219185	68028332	78335690	695	104500											
PREX2	80243	broad.mit.edu	37	chr8	68965434	68965434	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcaaaaacacctgaagagaAgcatgaatggtttgaagcta	17	7	11	6	0	0	4	0	3	0	1	0	5	0	4	1	2	3	4	1	2	7	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:68965434A>T	uc003xxv.1	+	9	1073	c.1046A>T	c.(1045-1047)AAG>ATG	p.K349M	PREX2_uc003xxu.1_Missense_Mutation_p.K349M|PREX2_uc011lez.1_Missense_Mutation_p.K284M	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	349	PH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						CCTGAAGAGAAGCATGAATGG	0.383													11	160					0	0	0.013537	0	0		T	68965434	T	T	68965434	3	4	212	1	0	0	0	0	1	0	0	0	12499	72	3	5	1080	5	PREX2	8	68965434	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	937102	68965434	77398588	696	104501											
SULF1	23213	broad.mit.edu	37	chr8	70533326	70533326	+	Silent	SNP	A	C	C	1	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	cgaattcacaagtgtaaaggAcccagtgacctgctcacagt	13	8	9	11	1	2	1	2	1	0	0	2	3	2	2	2	1	1	2	2	1	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:70533326A>C	uc010lza.1	+	14	2151	c.1434A>C	c.(1432-1434)GGA>GGC	p.G478G	SULF1_uc003xyd.2_Silent_p.G478G|SULF1_uc003xye.2_Silent_p.G478G|SULF1_uc003xyf.2_Silent_p.G478G|SULF1_uc003xyg.2_Silent_p.G478G|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	478					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			AGTGTAAAGGACCCAGTGACC	0.517													53	61					0	0	0.01441	0	0		C	70533326	C	C	70533326	2	2	212	1	0	0	0	0	0	0	0	1	15395	262	10	5		5	SULF1	8	70533326	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1567892	70533326	75830696	697	104502											
JPH1	56704	broad.mit.edu	37	chr8	75227608	75227608	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcccctccggaagaggccGcccttcttcttgcccgctag	5	8	11	17	3	2	1	0	0	2	1	3	3	3	2	6	2	2	1	6	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:75227608G>A	uc003yae.2	-	2	667	c.627C>T	c.(625-627)GGC>GGT	p.G209G	JPH1_uc003yaf.2_Silent_p.G209G|JPH1_uc003yag.1_Silent_p.G73G	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	209	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			GGAAGAGGCCGCCCTTCTTCT	0.652													30	173					0	0	0.003755	0	0		A	75227608	A	A	75227608	2	1	212	1	0	0	0	0	0	0	0	1	7976	1074	38	1		1	JPH1	8	75227608	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4694282	75227608	71136414	698	104503											
JPH1	56704	broad.mit.edu	37	chr8	75227780	75227780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gcggtgagcggatcaccgtgGccatgccgtagggcacgctc	6	6	16	13	5	1	1	1	1	0	0	2	2	1	2	3	4	2	3	3	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:75227780G>A	uc003yae.2	-	2	495	c.455C>T	c.(454-456)GCC>GTC	p.A152V	JPH1_uc003yaf.2_Missense_Mutation_p.A152V|JPH1_uc003yag.1_Missense_Mutation_p.A16V	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	152	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional membrane complex|junctional sarcoplasmic reticulum membrane|plasma membrane				ovary(1)	1	Breast(64;0.00576)		BRCA - Breast invasive adenocarcinoma(89;0.0499)|Epithelial(68;0.0728)|all cancers(69;0.176)			GATCACCGTGGCCATGCCGTA	0.697													10	58					0	0	0.010729	0	0		A	75227780	A	A	75227780	3	1	212	1	0	0	0	0	1	0	0	0	7976	1203	42	2	1546	2	JPH1	8	75227780	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	172	75227780	71136242	699	104504											
CHMP4C	92421	broad.mit.edu	37	chr8	82644967	82644967	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcgggagactgaggagatgCtgggcaagaaacaagagtac	14	6	15	6	1	0	5	0	1	0	4	1	7	0	5	0	3	3	3	0	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:82644967C>T	uc003ycl.2	+	1	280	c.106C>T	c.(106-108)CTG>TTG	p.L36L		NM_152284	NP_689497	Q96CF2	CHM4C_HUMAN	chromatin modifying protein 4C	36	Intramolecular interaction with C- terminus (By similarity).				cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(2)	2						TGAGGAGATGCTGGGCAAGAA	0.577													9	29					0	0	0.006214	0	0		T	82644967	T	T	82644967	2	4	212	1	0	0	0	0	0	0	0	1	3361	796	28	2		2	CHMP4C	8	82644967	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7417187	82644967	63719055	700	104505											
MMP16	4325	broad.mit.edu	37	chr8	89053979	89053979	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttctaccttgagtatctggtTgttgaatttccaatactcct	8	18	6	9	0	2	2	0	2	2	0	4	2	4	2	3	1	2	3	3	1	5	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:89053979T>G	uc003yeb.3	-	10	1816	c.1534A>C	c.(1534-1536)AAC>CAC	p.N512H		NM_005941	NP_005932	P51512	MMP16_HUMAN	matrix metalloproteinase 16 isoform 1	512	Hemopexin-like 4.|Extracellular (Potential).				collagen catabolic process|proteolysis	cell surface|integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)|urinary_tract(1)|skin(1)|kidney(1)	8						AGTATCTGGTTGTTGAATTTC	0.418													70	18					0	0	0.01441	0	0		G	89053979	G	G	89053979	3	3	212	1	0	0	0	0	1	0	0	0	9673	1812	63	5	293	5	MMP16	8	89053979	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	6409012	89053979	57310043	701	104506											
OSGIN2	734	broad.mit.edu	37	chr8	90937611	90937611	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cctatgagtgtattaaagaaGccaacctttttgcattgggt	11	14	9	7	0	0	2	0	1	0	1	0	2	0	2	3	1	3	2	3	1	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:90937611G>T	uc003yeg.2	+	6	1715	c.1369G>T	c.(1369-1371)GCC>TCC	p.A457S	OSGIN2_uc003yeh.2_Missense_Mutation_p.A501S	NM_004337	NP_004328	Q9Y236	OSGI2_HUMAN	oxidative stress induced growth inhibitor family	457					germ cell development|meiosis						0			BRCA - Breast invasive adenocarcinoma(11;0.0344)			TATTAAAGAAGCCAACCTTTT	0.428													22	196					3.08376e-08	3.29749e-08	0.00333	1	0		T	90937611	T	T	90937611	3	4	212	1	0	0	0	0	1	0	0	0	11309	971	34	5	1523	5	OSGIN2	8	90937611	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1883632	90937611	55426411	702	104507											
RUNX1T1	862	broad.mit.edu	37	chr8	93004021	93004021	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggctggtaggataagccgttAtttggactgtaccgctggcc	7	11	14	9	2	0	0	0	0	0	0	0	2	0	2	3	5	2	5	3	5	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:93004021A>G	uc003yfd.2	-	6	921	c.837T>C	c.(835-837)AAT>AAC	p.N279N	RUNX1T1_uc003yfc.1_Silent_p.N252N|RUNX1T1_uc003yfe.1_Silent_p.N242N|RUNX1T1_uc010mao.2_Silent_p.N252N|RUNX1T1_uc011lgi.1_Silent_p.N290N|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Silent_p.N242N	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	279					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(9)|large_intestine(3)|breast(2)|central_nervous_system(1)|pancreas(1)	16			BRCA - Breast invasive adenocarcinoma(11;0.0141)			ATAAGCCGTTATTTGGACTGT	0.522													16	82					0	0	0.004007	0	0		G	93004021	G	G	93004021	2	3	212	1	0	0	0	0	0	0	0	1	13772	446	16	3		3	RUNX1T1	8	93004021	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2066410	93004021	53360001	703	104508											
RBM12B	389677	broad.mit.edu	37	chr8	94745991	94745991	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccaaaattcacaaaagggCggtgacttctaaaatcatca	17	8	7	9	1	4	1	3	1	1	0	4	2	4	1	1	2	0	0	1	2	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:94745991C>T	uc003yfz.2	-	3	2841	c.2648G>A	c.(2647-2649)CGC>CAC	p.R883H		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	883							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			CACAAAAGGGCGGTGACTTCT	0.468													49	237					0	0	0.01441	0	0		T	94745991	T	T	94745991	3	4	212	1	0	0	0	0	1	0	0	0	13139	768	27	1	361	1	RBM12B	8	94745991	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1741970	94745991	51618031	704	104509											
GDF6	392255	broad.mit.edu	37	chr8	97157302	97157302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctctgcgaacaggttcttgCgctgggatctggtgaatacc	7	12	12	10	2	3	1	0	1	3	0	4	3	3	2	1	3	4	2	1	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:97157302C>T	uc003yhp.2	-	2	957	c.857G>A	c.(856-858)CGC>CAC	p.R286H		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	286					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					CAGGTTCTTGCGCTGGGATCT	0.527													3	15					0	0	0.009096	0	0		T	97157302	T	T	97157302	3	4	212	1	0	0	0	0	1	0	0	0	6332	768	27	1	514	1	GDF6	8	97157302	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2411311	97157302	49206720	705	104510											
MATN2	4147	broad.mit.edu	37	chr8	99015935	99015935	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgggctgtgagcatgagtgCgtcaacatggaggagagcta	10	7	16	8	2	1	3	1	2	0	1	1	5	1	4	1	3	4	3	1	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:99015935C>T	uc003yic.2	+	8	1482	c.1251C>T	c.(1249-1251)TGC>TGT	p.C417C	MATN2_uc003yib.1_Silent_p.C417C|MATN2_uc010mbh.1_Silent_p.C376C|MATN2_uc003yid.2_Silent_p.C417C|MATN2_uc003yie.1_Silent_p.C417C|MATN2_uc010mbi.1_Silent_p.C250C	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	417	EGF-like 5.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			AGCATGAGTGCGTCAACATGG	0.587													6	101					0	0	0.001984	0	0		T	99015935	T	T	99015935	2	4	212	1	0	0	0	0	0	0	0	1	9352	776	27	1		1	MATN2	8	99015935	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1858633	99015935	47348087	706	104511											
KCNS2	3788	broad.mit.edu	37	chr8	99440303	99440303	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcaagaggaggctgcgctcGcacacgctgctgcgcttccc	6	8	12	15	4	1	1	1	0	0	1	3	2	2	2	1	2	3	6	1	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:99440303G>A	uc003yin.2	+	2	446	c.96G>A	c.(94-96)TCG>TCA	p.S32S		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	32	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			GGCTGCGCTCGCACACGCTGC	0.667													12	37					0	0	0.010729	0	0		A	99440303	A	A	99440303	2	1	212	1	0	0	0	0	0	0	0	1	8105	1074	38	1		1	KCNS2	8	99440303	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	424368	99440303	46923719	707	104512											
RGS22	26166	broad.mit.edu	37	chr8	101011503	101011503	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatatacctttatcttctgaCgtgctgcaaactgttcactt	9	17	5	10	1	3	1	1	1	2	0	3	1	3	1	1	0	4	3	1	0	5	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:101011503C>T	uc003yjb.1	-	19	3131	c.2936G>A	c.(2935-2937)CGT>CAT	p.R979H	RGS22_uc003yja.1_Missense_Mutation_p.R798H|RGS22_uc003yjc.1_Missense_Mutation_p.R967H	NM_015668	NP_056483	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	979	RGS 1.				negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			TATCTTCTGACGTGCTGCAAA	0.239													10	47					0	0	0.006214	0	0		T	101011503	T	T	101011503	3	4	212	1	0	0	0	0	1	0	0	0	13330	536	19	1	894	1	RGS22	8	101011503	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1571200	101011503	45352519	708	104513											
UBR5	51366	broad.mit.edu	37	chr8	103274146	103274146	+	Silent	SNP	T	C	C	0	1	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	gtgtatatttgctttacctgTcctccaccttcttctttaca	6	19	4	12	0	2	0	0	0	2	0	4	0	4	0	4	0	3	2	4	0	4	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:103274146T>C	uc003ykr.1	-	55	7872	c.7839A>G	c.(7837-7839)GGA>GGG	p.G2613G	UBR5_uc003yks.1_Silent_p.G2612G|UBR5_uc003ykq.2_Silent_p.G124G	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2613	HECT.				cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GCTTTACCTGTCCTCCACCTT	0.403													18	133					0	0	0.007413	0	0		C	103274146	C	C	103274146	2	2	212	1	0	0	0	0	0	0	0	1	16931	1654	58	3		3	UBR5	8	103274146	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2262643	103274146	43089876	709	104514											
UBR5	51366	broad.mit.edu	37	chr8	103282387	103282387	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtctaaagggcctagtgtcGatggaaagctgtcttctaaa	11	11	12	7	1	3	0	0	0	3	0	4	2	3	1	1	3	1	1	1	3	6	4	rs140195197		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:103282387G>A	uc003ykr.1	-	50	7143	c.7110C>T	c.(7108-7110)ATC>ATT	p.I2370I	UBR5_uc003yks.1_Silent_p.I2370I|UBR5_uc003ykq.2_5'Flank	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	2370					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			GCCTAGTGTCGATGGAAAGCT	0.428													8	125					0	0	0.008291	0	0		A	103282387	A	A	103282387	2	1	212	1	0	0	0	0	0	0	0	1	16931	1048	37	1		1	UBR5	8	103282387	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8241	103282387	43081635	710	104515											
UBR5	51366	broad.mit.edu	37	chr8	103310701	103310701	+	Missense_Mutation	SNP	T	G	G	0	1	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	tacagctgacataaatggggTcatccctcttgcatccctaa	11	11	7	12	0	2	1	1	1	1	0	4	1	4	1	2	2	3	2	2	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:103310701T>G	uc003ykr.1	-	26	3376	c.3343A>C	c.(3343-3345)ACC>CCC	p.T1115P	UBR5_uc003yks.1_Missense_Mutation_p.T1115P	NM_015902	NP_056986	O95071	UBR5_HUMAN	ubiquitin protein ligase E3 component n-recognin	1115					cell proliferation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of catenin import into nucleus|positive regulation of protein import into nucleus, translocation|progesterone receptor signaling pathway|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to DNA damage stimulus	nucleus|soluble fraction	protein binding|RNA binding|ubiquitin-ubiquitin ligase activity|zinc ion binding			lung(16)|ovary(4)|large_intestine(3)|breast(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	28	all_cancers(14;8e-07)|all_epithelial(15;2.18e-08)|Lung NSC(17;2.55e-05)|all_lung(17;8.85e-05)		OV - Ovarian serous cystadenocarcinoma(57;0.000442)			ATAAATGGGGTCATCCCTCTT	0.303													13	50					0	0	0.004007	0	0		G	103310701	G	G	103310701	3	3	212	1	0	0	0	0	1	0	0	0	16931	1667	58	5	5192	5	UBR5	8	103310701	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	28314	103310701	43053321	711	104516											
DCAF13	25879	broad.mit.edu	37	chr8	104447873	104447873	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttatatacttttgatatgCgtgcactggacactcctgta	9	15	8	9	1	0	1	0	1	0	0	1	2	1	2	1	1	3	3	1	1	5	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:104447873C>T	uc003yln.2	+	8	1538	c.1261C>T	c.(1261-1263)CGT>TGT	p.R421C	DCAF13_uc003ylm.1_Missense_Mutation_p.R154C|DCAF13_uc003ylo.2_Missense_Mutation_p.R132C	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	269	WD 5.				rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						TTTTGATATGCGTGCACTGGA	0.368													7	93					0	0	0.001984	0	0		T	104447873	T	T	104447873	3	4	212	1	0	0	0	0	1	0	0	0	4269	768	27	1	1291	1	DCAF13	8	104447873	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1137172	104447873	41916149	712	104517											
RIMS2	9699	broad.mit.edu	37	chr8	104898096	104898096	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggctcagggaccaagttcTtatgcacaaaggaccacaaa	15	6	10	10	0	2	0	1	0	1	0	2	3	2	2	2	3	1	3	2	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:104898096T>G	uc003yls.2	+	2	844	c.603T>G	c.(601-603)TCT>TCG	p.S201S	RIMS2_uc003ylp.2_Silent_p.S423S|RIMS2_uc003ylw.2_Silent_p.S231S|RIMS2_uc003ylq.2_Silent_p.S231S|RIMS2_uc003ylr.2_Silent_p.S231S	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	454					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding	p.S231S(1)		ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GACCAAGTTCTTATGCACAAA	0.478										HNSCC(12;0.0054)			20	64					0	0	0.007413	0	0		G	104898096	G	G	104898096	2	3	212	1	0	0	0	0	0	0	0	1	13393	1596	56	5		5	RIMS2	8	104898096	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	450223	104898096	41465926	713	104518											
CSMD3	114788	broad.mit.edu	37	chr8	113988259	113988259	+	Silent	SNP	T	C	C	0	1	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	agtctatggatggtgacagcTgtaacactggatacagtaac	13	10	11	7	0	1	1	0	1	1	0	1	3	1	3	0	3	4	3	0	3	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:113988259T>C	uc003ynu.2	-	7	1308	c.1149A>G	c.(1147-1149)ACA>ACG	p.T383T	CSMD3_uc003ynt.2_Silent_p.T343T|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	383	Extracellular (Potential).					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TGGTGACAGCTGTAACACTGG	0.507										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			35	97					0	0	0.003755	0	0		C	113988259	C	C	113988259	2	2	212	1	0	0	0	0	0	0	0	1	3949	1567	55	3		3	CSMD3	8	113988259	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	9090163	113988259	32375763	714	104519											
TRPS1	7227	broad.mit.edu	37	chr8	116631441	116631441	+	Missense_Mutation	SNP	A	G	G	1	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	cagaaaacacagaacggttgAccttctggaagtctttggaa	14	9	10	8	1	2	3	0	1	2	2	2	5	2	5	1	3	2	1	1	3	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:116631441A>G	uc003ynz.2	-	2	1304	c.845T>C	c.(844-846)GTC>GCC	p.V282A	TRPS1_uc011lhy.1_Missense_Mutation_p.V286A|TRPS1_uc003yny.2_Missense_Mutation_p.V295A|TRPS1_uc010mcy.2_Missense_Mutation_p.V282A	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	282					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			AGAACGGTTGACCTTCTGGAA	0.463									Langer-Giedion_syndrome				10	44					0	0	0.006214	0	0		G	116631441	G	G	116631441	3	3	212	1	0	0	0	0	1	0	0	0	16619	275	10	3	3020	3	TRPS1	8	116631441	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2643182	116631441	29732581	715	104520											
SLC30A8	169026	broad.mit.edu	37	chr8	118169969	118169969	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctccatcctgtgcatctgggTggtgactggcgtgctagtgt	4	13	14	10	1	1	1	0	1	1	0	3	1	3	1	2	3	2	2	2	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:118169969T>C	uc003yoh.2	+	4	688	c.458T>C	c.(457-459)GTG>GCG	p.V153A	SLC30A8_uc010mcz.2_Missense_Mutation_p.V104A|SLC30A8_uc011lia.1_Missense_Mutation_p.V104A|SLC30A8_uc003yog.2_Missense_Mutation_p.V104A	NM_173851	NP_776250	Q8IWU4	ZNT8_HUMAN	solute carrier family 30 member 8	153	Helical; (Potential).				insulin secretion|positive regulation of insulin secretion|regulation of sequestering of zinc ion|regulation of vesicle-mediated transport|response to glucose stimulus|sequestering of zinc ion	integral to membrane|plasma membrane|secretory granule membrane|transport vesicle membrane	protein homodimerization activity|zinc ion transmembrane transporter activity			ovary(2)|skin(2)	4	all_cancers(13;2.11e-22)|Lung NSC(37;6.08e-05)|Ovarian(258;0.0173)		STAD - Stomach adenocarcinoma(47;0.203)			TGCATCTGGGTGGTGACTGGC	0.527													53	138					0	0	0.01441	0	0		C	118169969	C	C	118169969	3	2	212	1	0	0	0	0	1	0	0	0	14586	1696	59	3	472	3	SLC30A8	8	118169969	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1538528	118169969	28194053	716	104521											
TNFRSF11B	4982	broad.mit.edu	37	chr8	119936808	119936808	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccttcaaggtgtcttggtcGccattttttattcgccacaa	7	15	7	12	2	2	0	1	0	1	0	4	0	2	0	3	2	0	0	3	2	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:119936808G>A	uc003yon.3	-	5	1334	c.1011C>T	c.(1009-1011)GGC>GGT	p.G337G		NM_002546	NP_002537	O00300	TR11B_HUMAN	osteoprotegerin precursor	337	Death 2.				apoptosis|skeletal system development		cytokine activity|receptor activity			central_nervous_system(2)	2	all_cancers(13;3.71e-26)|Lung NSC(37;1.69e-07)|Ovarian(258;0.018)|all_neural(195;0.0592)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00193)			TGTCTTGGTCGCCATTTTTTA	0.448													49	127					0	0	0.01441	0	0		A	119936808	A	A	119936808	2	1	212	1	0	0	0	0	0	0	0	1	16310	1074	38	1		1	TNFRSF11B	8	119936808	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1766839	119936808	26427214	717	104522											
ENPP2	5168	broad.mit.edu	37	chr8	120613700	120613700	+	Missense_Mutation	SNP	A	G	G	1	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	ttctccgctcgtgagggatgAcactggagggtaaaagcaag	11	8	14	8	2	1	2	0	2	1	0	3	4	1	4	1	3	1	3	1	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:120613700A>G	uc003yot.1	-	10	922	c.836T>C	c.(835-837)GTC>GCC	p.V279A	ENPP2_uc003yos.1_Missense_Mutation_p.V279A|ENPP2_uc010mdd.1_Missense_Mutation_p.V279A	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	279					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GTGAGGGATGACACTGGAGGG	0.458													21	89					0	0	0.012319	0	0		G	120613700	G	G	120613700	3	3	212	1	0	0	0	0	1	0	0	0	5138	275	10	3	2058	3	ENPP2	8	120613700	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	676892	120613700	25750322	718	104523											
MRPL13	28998	broad.mit.edu	37	chr8	121426273	121426273	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtctatttcttcttgtgtgtActcatctagacgtttaggta	7	19	8	7	1	5	1	1	0	4	1	5	1	5	1	0	1	1	3	0	1	5	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:121426273A>G	uc003ypa.2	-	6	785	c.472T>C	c.(472-474)TAC>CAC	p.Y158H	MRPL13_uc010mdf.2_RNA	NM_014078	NP_054797	Q9BYD1	RM13_HUMAN	mitochondrial ribosomal protein L13	158					translation	mitochondrial large ribosomal subunit	protein binding|structural constituent of ribosome			central_nervous_system(1)	1	Lung NSC(37;1.69e-07)|Ovarian(258;0.00769)|all_neural(195;0.0804)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00503)			TCTTGTGTGTACTCATCTAGA	0.313													7	72					0	0	0.001984	0	0		G	121426273	G	G	121426273	3	3	212	1	0	0	0	0	1	0	0	0	9796	391	14	3	72	3	MRPL13	8	121426273	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	812573	121426273	24937749	719	104524											
FBXO32	114907	broad.mit.edu	37	chr8	124526525	124526525	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attcatgaagttcttttgggCgatgccactcagggatgtga	9	13	12	7	1	3	2	2	2	1	0	3	4	3	3	1	2	1	1	1	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:124526525C>T	uc003yqr.2	-	5	613	c.421G>A	c.(421-423)GCC>ACC	p.A141T	FBXO32_uc003yqq.2_5'UTR|FBXO32_uc010mdk.2_Intron	NM_058229	NP_478136	Q969P5	FBX32_HUMAN	F-box only protein 32 isoform 1	141										skin(3)|breast(2)|lung(1)	6	Lung NSC(37;1.13e-13)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TTCTTTTGGGCGATGCCACTC	0.448													16	29					0	0	0.007413	0	0		T	124526525	T	T	124526525	3	4	212	1	0	0	0	0	1	0	0	0	5756	768	27	1	666	1	FBXO32	8	124526525	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3100252	124526525	21837497	720	104525											
ASAP1	50807	broad.mit.edu	37	chr8	131226856	131226856	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagtagaaaacttgacaaaCgcggtgccaaggtcggggtt	13	7	14	7	3	0	3	0	1	0	2	1	3	0	3	1	4	3	2	1	4	5	3	rs141635397		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:131226856C>T	uc003yta.1	-	4	379	c.351G>A	c.(349-351)GCG>GCA	p.A117A	ASAP1_uc011liw.1_Silent_p.A110A	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	117					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						ACTTGACAAACGCGGTGCCAA	0.363													8	40					0	0	0.004482	0	0		T	131226856	T	T	131226856	2	4	212	1	0	0	0	0	0	0	0	1	1011	523	19	1		1	ASAP1	8	131226856	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6700331	131226856	15137166	721	104526											
TG	7038	broad.mit.edu	37	chr8	133898733	133898733	+	Silent	SNP	G	A	A	0	0	1	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	tccgaaaggcagcaggccttGtccagactctactttgggac	9	9	11	12	1	1	1	0	0	1	1	3	3	3	2	3	3	2	2	3	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:133898733G>A	uc003ytw.2	+	9	1157	c.1116G>A	c.(1114-1116)TTG>TTA	p.L372L		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	372					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		AGCAGGCCTTGTCCAGACTCT	0.502													12	130					0	0	0.010729	0	0		A	133898733	A	A	133898733	2	1	212	1	0	0	0	0	0	0	0	1	15838	1368	48	4		4	TG	8	133898733	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2671877	133898733	12465289	722	104527											
TG	7038	broad.mit.edu	37	chr8	133899503	133899503	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaaggaagctatgaggatgTccaatgcttttccggagagt	12	10	13	6	1	0	3	0	1	0	2	2	6	2	5	2	3	2	2	2	3	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:133899503T>C	uc003ytw.2	+	9	1927	c.1886T>C	c.(1885-1887)GTC>GCC	p.V629A		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	629	Thyroglobulin type-1 5.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TATGAGGATGTCCAATGCTTT	0.532													26	73					0	0	0.007291	0	0		C	133899503	C	C	133899503	3	2	212	1	0	0	0	0	1	0	0	0	15838	1667	58	3	1920	3	TG	8	133899503	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	770	133899503	12464519	723	104528											
DENND3	22898	broad.mit.edu	37	chr8	142185496	142185496	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccatgacccagaagcgcCtgttcctcctaaccgaagga	10	7	9	15	3	0	2	0	1	0	1	3	4	2	3	6	1	2	1	6	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:142185496C>A	uc003yvy.2	+	14	2511	c.2233C>A	c.(2233-2235)CTG>ATG	p.L745M	DENND3_uc010mep.2_Missense_Mutation_p.L706M|DENND3_uc003yvz.1_Missense_Mutation_p.L429M	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3	745										ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			CCAGAAGCGCCTGTTCCTCCT	0.532											OREG0019025	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	78					1.13719e-10	1.24279e-10	0.008361	1	0		A	142185496	A	A	142185496	3	1	212	1	0	0	0	0	1	0	0	0	4438	680	24	5	2283	5	DENND3	8	142185496	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8285993	142185496	4178526	724	104529											
FLJ43860	389690	broad.mit.edu	37	chr8	142487536	142487536	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgatgtgcatggcctgctggCgactccgcgtgcacagagtg	6	8	15	12	4	0	1	0	0	0	1	1	3	1	1	2	2	3	3	2	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:142487536C>T	uc003ywi.2	-	12	1493	c.1412G>A	c.(1411-1413)CGC>CAC	p.R471H	FLJ43860_uc011ljs.1_RNA|FLJ43860_uc010meu.1_RNA	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	471							binding	p.R471H(1)			0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)			GGCCTGCTGGCGACTCCGCGT	0.652													36	17					0	0	0.005524	0	0		T	142487536	T	T	142487536	3	4	212	1	0	0	0	0	1	0	0	0	5944	768	27	1	2620	1	FLJ43860	8	142487536	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	302040	142487536	3876486	725	104530											
GPR172A	79581	broad.mit.edu	37	chr8	145584466	145584466	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgtgtccccctcaggtgCtgtcgtgggtgctgtgtctt	1	15	14	11	1	2	0	1	0	1	0	4	0	3	0	2	2	3	3	2	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:145584466C>A	uc003zcc.1	+	5	1286	c.1129C>A	c.(1129-1131)CTG>ATG	p.L377M	FBXL6_uc003zbz.2_5'Flank|FBXL6_uc003zca.2_5'Flank|FBXL6_uc003zcb.2_5'Flank|FBXL6_uc010mfx.2_5'Flank|GPR172A_uc003zcd.1_Missense_Mutation_p.L377M|GPR172A_uc003zce.1_Missense_Mutation_p.L377M|GPR172A_uc010mfy.1_Missense_Mutation_p.L377M|GPR172A_uc003zcf.1_Missense_Mutation_p.L377M|GPR172A_uc011llc.1_Missense_Mutation_p.L289M	NM_024531	NP_078807	Q9HAB3	RFT3_HUMAN	G protein-coupled receptor 172A precursor	377	Helical; (Potential).					integral to plasma membrane	receptor activity|riboflavin transporter activity				0	all_cancers(97;6.64e-12)|all_epithelial(106;2.89e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;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)			CCCTCAGGTGCTGTCGTGGGT	0.672													12	66					2.68362e-12	2.98072e-12	0.013537	1	0		A	145584466	A	A	145584466	3	1	212	1	0	0	0	0	1	0	0	0	6684	796	28	5	1143	5	GPR172A	8	145584466	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3096930	145584466	779556	726	104531											
RECQL4	9401	broad.mit.edu	37	chr8	145738385	145738385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggcctctccccacccacgGccccttcctgctccgagggc	4	6	9	22	2	1	0	0	0	1	0	4	1	3	0	8	3	1	1	8	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr8:145738385G>A	uc003zdj.2	-	16	2632	c.2600C>T	c.(2599-2601)GCC>GTC	p.A867V		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	867					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			CCCACCCACGGCCCCTTCCTG	0.667			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				3	6					0	0	0.004672	0	0		A	145738385	A	A	145738385	3	1	212	1	0	0	0	0	1	0	0	0	13227	1203	42	2	1054	2	RECQL4	8	145738385	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	153919	145738385	625637	727	104532											
VLDLR	7436	broad.mit.edu	37	chr9	2652951	2652951	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggacacacgtacccagcagTaagtcagctttgtgtcttta	10	12	9	10	1	2	0	1	0	1	0	2	1	2	1	1	1	3	4	1	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:2652951T>C	uc003zhk.1	+	18	2983	c.2586_splice	c.e18+2	p.A862_splice	VLDLR_uc003zhl.1_Splice_Site_p.A834_splice|VLDLR_uc003zhm.1_Splice_Site|VLDLR_uc003zhn.1_Splice_Site_p.A793_splice	NM_003383	NP_003374	P98155	VLDLR_HUMAN	very low density lipoprotein receptor isoform a						cholesterol metabolic process|endocytosis|lipid transport|memory|very-low-density lipoprotein particle clearance	coated pit|integral to membrane|membrane fraction|plasma membrane|very-low-density lipoprotein particle	apolipoprotein binding|calcium ion binding|low-density lipoprotein receptor activity|very-low-density lipoprotein particle receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(50;0.0668)|Lung(218;0.123)		TACCCAGCAGTAAGTCAGCTT	0.453													23	36					0	0	0.00333	0	0		C	2652951	C	C	2652951	5	2	212	1	0	0	0	0	0	0	1	0	17200	1652	57	3	2658	3	VLDLR	9	2652951	Splice_Site	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08		2652951	138560480	728	104533											
KDM4C	23081	broad.mit.edu	37	chr9	6805761	6805761	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaaggagttcaggcagctgGccaacagtggcaagtgagta	12	7	15	7	0	1	2	1	2	0	0	1	3	1	3	1	4	2	5	1	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:6805761G>T	uc003zkh.2	+	3	887	c.307G>T	c.(307-309)GCC>TCC	p.A103S	KDM4C_uc010mhu.2_Missense_Mutation_p.A125S|KDM4C_uc010mhw.2_Missense_Mutation_p.A103S|KDM4C_uc011lmi.1_Missense_Mutation_p.A103S|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.A103S|KDM4C_uc011lmk.1_Intron|KDM4C_uc010mhv.2_Missense_Mutation_p.A103S	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	103					positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						CAGGCAGCTGGCCAACAGTGG	0.418													15	10					3.45872e-05	3.61012e-05	0.004007	1	0		T	6805761	T	T	6805761	3	4	212	1	0	0	0	0	1	0	0	0	8146	1203	42	5	383	5	KDM4C	9	6805761	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4152810	6805761	134407670	729	104534											
C9orf93	203238	broad.mit.edu	37	chr9	15623310	15623310	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcataagaaagtagaaaaaTtagaaacagaacatatggac	22	7	8	4	0	0	4	0	0	0	4	0	5	0	5	0	1	3	2	0	1	9	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:15623310T>A	uc003zmd.2	+	7	1036	c.721T>A	c.(721-723)TTA>ATA	p.L241I	C9orf93_uc010mih.1_Missense_Mutation_p.L241I|C9orf93_uc003zme.2_Missense_Mutation_p.L148I|C9orf93_uc011lmu.1_Missense_Mutation_p.L241I|C9orf93_uc003zmc.2_Missense_Mutation_p.L241I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	241	Potential.|Glu-rich.										0				GBM - Glioblastoma multiforme(50;4.84e-07)		AGTAGAAAAATTAGAAACAGA	0.348													7	75					0	0	0.001984	0	0		A	15623310	A	A	15623310	3	1	212	1	0	0	0	0	1	0	0	0	2509	1490	52	5	743	5	C9orf93	9	15623310	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	8817549	15623310	125590121	730	104535											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18504938	18504938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggcctcctactctctgaggCgctgcctgagcagcaagtaa	8	8	12	13	1	1	2	0	2	1	0	3	2	2	2	3	2	4	4	3	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:18504938C>T	uc003zne.3	+	2	302	c.175C>T	c.(175-177)CGC>TGC	p.R59C	ADAMTSL1_uc003znb.2_Missense_Mutation_p.R59C|ADAMTSL1_uc003znc.3_Missense_Mutation_p.R59C	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	59	TSP type-1 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		CTCTCTGAGGCGCTGCCTGAG	0.612													3	31					0	0	0.004672	0	0		T	18504938	T	T	18504938	3	4	212	1	0	0	0	0	1	0	0	0	274	768	27	1	181	1	ADAMTSL1	9	18504938	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2881628	18504938	122708493	731	104536											
ELAVL2	1993	broad.mit.edu	37	chr9	23762152	23762152	+	Silent	SNP	T	G	G	0	1	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	gtgttcccagagtcaactggTgacgaacagttgttgtttat	9	14	11	7	1	1	2	1	1	0	1	2	3	2	2	1	1	2	4	1	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:23762152T>G	uc003zpu.2	-	2	356	c.81A>C	c.(79-81)TCA>TCC	p.S27S	ELAVL2_uc003zps.2_Silent_p.S27S|ELAVL2_uc003zpt.2_Silent_p.S27S|ELAVL2_uc003zpv.2_Silent_p.S27S|ELAVL2_uc003zpw.2_Silent_p.S27S	NM_004432	NP_004423	Q12926	ELAV2_HUMAN	ELAV (embryonic lethal, abnormal vision,	27					regulation of transcription, DNA-dependent		mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(2)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(1;2.18e-156)|Lung(42;2.15e-28)|LUSC - Lung squamous cell carcinoma(38;1.02e-19)		AGTCAACTGGTGACGAACAGT	0.443													58	110					0	0	0.01441	0	0		G	23762152	G	G	23762152	2	3	212	1	0	0	0	0	0	0	0	1	5058	1683	59	5		5	ELAVL2	9	23762152	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	5257214	23762152	117451279	732	104537											
C9orf72	203228	broad.mit.edu	37	chr9	27566799	27566799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgatagtccatatgtgctgCgatccccattccagtttcca	8	14	7	12	1	0	1	0	1	0	0	4	2	4	1	5	0	2	2	5	0	2	5	rs145645318		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:27566799C>T	uc003zqq.2	-	2	417	c.320G>A	c.(319-321)CGC>CAC	p.R107H	C9orf72_uc003zqr.1_Missense_Mutation_p.R107H	NM_018325	NP_060795	Q96LT7	CI072_HUMAN	hypothetical protein LOC203228 isoform a	107										ovary(3)|central_nervous_system(1)	4		all_neural(11;7.57e-10)		LUSC - Lung squamous cell carcinoma(38;0.0001)|Lung(218;0.00016)		ATATGTGCTGCGATCCCCATT	0.373													3	32					0	0	0.004672	0	0		T	27566799	T	T	27566799	3	4	212	1	0	0	0	0	1	0	0	0	2498	768	27	1	1169	1	C9orf72	9	27566799	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3804647	27566799	113646632	733	104538											
LINGO2	158038	broad.mit.edu	37	chr9	27950147	27950147	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctccaagctaagaagccCactgaatgccctgtgtgata	11	9	9	12	0	0	3	0	2	0	1	1	3	1	3	3	0	4	2	3	0	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:27950147C>T	uc003zqu.1	-	2	717	c.523G>A	c.(523-525)GGG>AGG	p.G175R	LINGO2_uc010mjf.1_Missense_Mutation_p.G175R|LINGO2_uc003zqv.1_Missense_Mutation_p.G175R	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	175	LRR 5.|Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		CTAAGAAGCCCACTGAATGCC	0.468													13	30					0	0	0.013537	0	0		T	27950147	T	T	27950147	3	4	212	1	0	0	0	0	1	0	0	0	8832	594	21	4	1301	4	LINGO2	9	27950147	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	383348	27950147	113263284	734	104539											
DDX58	23586	broad.mit.edu	37	chr9	32488855	32488855	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttaagatgatgttcacatAtaagcagtgaaacaaaggtt	16	13	8	4	0	1	3	1	2	0	1	1	3	1	3	0	1	2	3	0	1	5	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:32488855A>C	uc003zra.2	-	7	988	c.830T>G	c.(829-831)ATA>AGA	p.I277R	DDX58_uc010mjj.2_RNA|DDX58_uc010mjk.1_Missense_Mutation_p.I232R|DDX58_uc011lnr.1_Missense_Mutation_p.I74R|DDX58_uc010mji.2_Missense_Mutation_p.I206R	NM_014314	NP_055129	O95786	DDX58_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	277	Helicase ATP-binding.				detection of virus|innate immune response|negative regulation of type I interferon production|positive regulation of defense response to virus by host|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	cytosol	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|protein binding|zinc ion binding			ovary(2)|liver(1)|pancreas(1)	4			LUSC - Lung squamous cell carcinoma(29;0.00813)	GBM - Glioblastoma multiforme(74;0.00056)		ATGTTCACATATAAGCAGTGA	0.328													7	6					0	0	0.004482	0	0		C	32488855	C	C	32488855	3	2	212	1	0	0	0	0	1	0	0	0	4378	449	16	5	1995	5	DDX58	9	32488855	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4538708	32488855	108724576	735	104540											
TLE4	7091	broad.mit.edu	37	chr9	82323668	82323668	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgcagctgctgccgccgcCgctgctgctgctgcctatgg	3	8	14	16	4	0	0	0	0	0	0	0	0	0	0	4	1	8	7	4	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:82323668C>T	uc004ald.2	+	14	2154	c.1305C>T	c.(1303-1305)GCC>GCT	p.A435A	TLE4_uc004alc.2_Silent_p.A410A|TLE4_uc010mpr.2_Silent_p.A289A|TLE4_uc004ale.2_Silent_p.A47A|TLE4_uc011lsq.1_Silent_p.A378A|TLE4_uc010mps.2_Silent_p.A334A|TLE4_uc004alf.2_Silent_p.A349A	NM_007005	NP_008936	O60756	BCE1_HUMAN	transducin-like enhancer protein 4	Error:Variant_position_missing_in_O60756_after_alignment										lung(2)|ovary(1)|breast(1)|skin(1)	5						ctgccgccgccgctgctgctg	0.443													15	18					0	0	0.003163	0	0		T	82323668	T	T	82323668	2	4	212	1	0	0	0	0	0	0	0	1	15966	639	23	1		1	TLE4	9	82323668	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	49834813	82323668	58889763	736	104541											
NTRK2	4915	broad.mit.edu	37	chr9	87285857	87285857	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagcctaacagtgtagatcCtgagaacatcaccgaaatgt	14	8	10	9	1	1	2	1	1	0	2	2	5	2	3	3	1	3	1	3	1	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:87285857C>A	uc004aoa.1	+	4	1132	c.194C>A	c.(193-195)CCT>CAT	p.P65H	NTRK2_uc004anv.1_Missense_Mutation_p.P65H|NTRK2_uc004any.1_Missense_Mutation_p.P65H|NTRK2_uc004anz.1_Missense_Mutation_p.P65H|NTRK2_uc011lsz.1_Missense_Mutation_p.P65H|NTRK2_uc011lta.1_Missense_Mutation_p.P65H|NTRK2_uc004aob.1_Missense_Mutation_p.P65H|NTRK2_uc011ltb.1_5'Flank	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	neurotrophic tyrosine kinase, receptor, type 2	65	Extracellular (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development	integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein tyrosine kinase activity			lung(11)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|liver(1)	16						AGTGTAGATCCTGAGAACATC	0.552										TSP Lung(25;0.17)			7	21					1.26484e-09	1.36925e-09	0.00308	1	0		A	87285857	A	A	87285857	3	1	212	1	0	0	0	0	1	0	0	0	10726	681	24	5	196	5	NTRK2	9	87285857	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4962189	87285857	53927574	737	104542											
GAS1	2619	broad.mit.edu	37	chr9	89560864	89560864	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcggctgctcaccacccgcGcccccggtgcgctgctcgtc	3	6	12	20	6	1	0	1	0	0	0	3	0	1	0	4	2	4	4	4	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:89560864G>A	uc004aox.3	-	1	1241	c.831C>T	c.(829-831)GGC>GGT	p.G277G	uc004aoy.2_5'Flank	NM_002048	NP_002039	P54826	GAS1_HUMAN	growth arrest-specific 1 precursor	277					cell cycle arrest|negative regulation of S phase of mitotic cell cycle	anchored to plasma membrane					0						CACCACCCGCGCCCCCGGTGC	0.761													6	3					0	0	0.004482	0	0		A	89560864	A	A	89560864	2	1	212	1	0	0	0	0	0	0	0	1	6259	1074	38	1		1	GAS1	9	89560864	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2275007	89560864	51652567	738	104543											
DAPK1	1612	broad.mit.edu	37	chr9	90322206	90322206	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatcaacctggatggcaatgGccaggaggcctatgcctcga	11	7	12	11	1	1	0	1	0	0	0	2	3	1	2	4	5	2	1	4	5	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:90322206G>A	uc004apc.2	+	26	4358	c.4220G>A	c.(4219-4221)GGC>GAC	p.G1407D	DAPK1_uc004apd.2_Missense_Mutation_p.G1407D|DAPK1_uc011ltg.1_Missense_Mutation_p.G1341D|DAPK1_uc011lth.1_Missense_Mutation_p.G1144D|DAPK1_uc004apg.2_Missense_Mutation_p.G384D	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1	1407					apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						GATGGCAATGGCCAGGAGGCC	0.572									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				3	19					0	0	0.004672	0	0		A	90322206	A	A	90322206	3	1	212	1	0	0	0	0	1	0	0	0	4238	1203	42	2	4318	2	DAPK1	9	90322206	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	761342	90322206	50891225	739	104544											
SEMA4D	10507	broad.mit.edu	37	chr9	92011708	92011708	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acacacgtaaagggaagtggCgctgagtggctgcagcaccc	11	5	14	11	2	0	1	0	1	0	0	0	2	0	2	1	3	2	5	1	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:92011708C>T	uc004aqo.1	-	8	930	c.358G>A	c.(358-360)GCC>ACC	p.A120T	SEMA4D_uc011ltm.1_Missense_Mutation_p.A120T|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Missense_Mutation_p.A118T	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	120	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						AGGGAAGTGGCGCTGAGTGGC	0.592													10	29					0	0	0.013537	0	0		T	92011708	T	T	92011708	3	4	212	1	0	0	0	0	1	0	0	0	14059	768	27	1	2844	1	SEMA4D	9	92011708	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1689502	92011708	49201723	740	104545											
SPTLC1	10558	broad.mit.edu	37	chr9	94800620	94800620	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgaaaggctggagaaagggaCtcccccaccacttttaatcc	12	8	9	12	0	0	2	0	1	0	1	2	4	2	3	4	3	0	1	4	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:94800620C>A	uc004arl.1	-	13	1202	c.1164G>T	c.(1162-1164)GAG>GAT	p.E388D	SPTLC1_uc011ltv.1_Missense_Mutation_p.E388D	NM_006415	NP_006406	O15269	SPTC1_HUMAN	serine palmitoyltransferase subunit 1 isoform a	388	Cytoplasmic (Potential).					integral to membrane|SPOTS complex	protein binding|pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups			ovary(1)|breast(1)	2					L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)	GAGAAAGGGACTCCCCCACCA	0.473													12	90					7.93312e-07	8.39493e-07	0.00245	1	0		A	94800620	A	A	94800620	3	1	212	1	0	0	0	0	1	0	0	0	15148	564	20	5	269	5	SPTLC1	9	94800620	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2788912	94800620	46412811	741	104546											
ECM2	1842	broad.mit.edu	37	chr9	95277103	95277103	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcttaccgggtcctcctcGtcctcctcatcctcctcacc	3	12	4	22	2	3	0	2	0	1	0	10	0	9	0	9	1	1	0	9	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:95277103G>A	uc004ash.2	-	4	929	c.864C>T	c.(862-864)GAC>GAT	p.D288D	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Silent_p.D266D|ECM2_uc011lty.1_Silent_p.D288D|ECM2_uc004asg.2_Silent_p.D266D	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	288					cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						GGtcctcctcgtcctcctcat	0.418													16	70					0	0	0.004007	0	0		A	95277103	A	A	95277103	2	1	212	1	0	0	0	0	0	0	0	1	4904	1136	40	1		1	ECM2	9	95277103	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	476483	95277103	45936328	742	104547											
FGD3	89846	broad.mit.edu	37	chr9	95768399	95768399	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaactttgaccgagccgtAgggctggtgagcacgtggac	10	7	15	9	3	0	3	0	2	0	1	0	5	0	4	2	3	3	3	2	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:95768399A>G	uc004asw.2	+	6	1402	c.774A>G	c.(772-774)GTA>GTG	p.V258V	FGD3_uc004asx.2_Silent_p.V258V|FGD3_uc004asz.2_Silent_p.V258V|FGD3_uc004ata.2_Silent_p.V61V	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	258	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						ACCGAGCCGTAGGGCTGGTGA	0.582													31	98					0	0	0.013726	0	0		G	95768399	G	G	95768399	2	3	212	1	0	0	0	0	0	0	0	1	5848	407	15	3		3	FGD3	9	95768399	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	491296	95768399	45445032	743	104548											
ZNF169	169841	broad.mit.edu	37	chr9	97062645	97062645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acctgtgtcctgagtgtgggCgtcggtttagccagaaggcc	6	10	15	10	2	0	2	0	1	0	1	2	2	1	2	4	3	1	1	4	3	2	2	rs10993152		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:97062645C>T	uc004aum.1	+	5	910	c.805C>T	c.(805-807)CGT>TGT	p.R269C		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	269	C2H2-type 2.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				TGAGTGTGGGCGTCGGTTTAG	0.572													21	94					0	0	0.00333	0	0		T	97062645	T	T	97062645	3	4	212	1	0	0	0	0	1	0	0	0	17767	768	27	1	819	1	ZNF169	9	97062645	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1294246	97062645	44150786	744	104549											
ZNF169	169841	broad.mit.edu	37	chr9	97063480	97063480	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gccctgcatttgcgatgaatGtgggcgcggctttggcttta	5	13	14	9	3	0	1	0	1	0	0	0	2	0	1	1	3	2	3	1	3	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:97063480G>A	uc004aum.1	+	5	1745	c.1640G>A	c.(1639-1641)TGT>TAT	p.C547Y		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	547	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				TGCGATGAATGTGGGCGCGGC	0.552													22	88					0	0	0.00278	0	0		A	97063480	A	A	97063480	3	1	212	1	0	0	0	0	1	0	0	0	17767	1377	48	4	1654	4	ZNF169	9	97063480	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	835	97063480	44149951	745	104550											
FAM22F	54754	broad.mit.edu	37	chr9	97084510	97084510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatctcgtagaagatcatcCggtcaaagttgctcgtgtgc	9	11	10	11	3	3	2	2	0	1	2	6	2	4	2	2	1	2	3	2	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:97084510C>T	uc004aup.1	-	3	836	c.815G>A	c.(814-816)CGG>CAG	p.R272Q		NM_017561	NP_060031	A1L443	FA22F_HUMAN	hypothetical protein LOC54754	272											0		Acute lymphoblastic leukemia(62;0.136)				GAAGATCATCCGGTCAAAGTT	0.647													109	21					0	0	0.01441	0	0		T	97084510	T	T	97084510	3	4	212	1	0	0	0	0	1	0	0	0	5556	652	23	1	1475	1	FAM22F	9	97084510	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	21030	97084510	44128921	746	104551											
C9orf102	375748	broad.mit.edu	37	chr9	98728971	98728971	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caaatttaggtcccaagggtCttgtcttacgaaggacatcc	11	11	9	10	1	2	0	0	0	2	0	4	2	4	1	2	3	1	0	2	3	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:98728971C>T	uc004avt.3	+	14	2496	c.2108C>T	c.(2107-2109)TCT>TTT	p.S703F	C9orf102_uc011lum.1_Missense_Mutation_p.S405F|C9orf102_uc010mry.1_Missense_Mutation_p.S405F|C9orf102_uc010mrz.2_Missense_Mutation_p.S514F|C9orf102_uc004avu.2_5'UTR	NM_001010895	NP_001010895	Q5T890	RAD26_HUMAN	RAD26L hypothetical protein	703					DNA repair	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding				0		Acute lymphoblastic leukemia(62;0.0559)				TCCCAAGGGTCTTGTCTTACG	0.373													24	63					0	0	0.00333	0	0		T	98728971	T	T	98728971	3	4	212	1	0	0	0	0	1	0	0	0	2448	913	32	4	2162	4	C9orf102	9	98728971	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1644461	98728971	42484460	747	104552											
SLC35D2	11046	broad.mit.edu	37	chr9	99107622	99107622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtataaactccatttgctgCtgtgaagatatcattcagga	12	13	9	7	0	2	2	2	1	0	1	3	3	3	3	1	2	3	3	1	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:99107622C>T	uc004awc.2	-	7	626	c.550G>A	c.(550-552)GCA>ACA	p.A184T	SLC35D2_uc010msd.2_RNA|SLC35D2_uc010mse.2_Missense_Mutation_p.A137T|SLC35D2_uc010msf.2_Intron|SLC35D2_uc004awd.2_Intron	NM_007001	NP_008932	Q76EJ3	S35D2_HUMAN	solute carrier family 35, member D2	184	Helical; (Potential).					Golgi membrane|integral to membrane	nucleotide-sugar transmembrane transporter activity				0		Acute lymphoblastic leukemia(62;0.0167)				CCATTTGCTGCTGTGAAGATA	0.408													9	79					0	0	0.008291	0	0		T	99107622	T	T	99107622	3	4	212	1	0	0	0	0	1	0	0	0	14607	797	28	2	487	2	SLC35D2	9	99107622	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	378651	99107622	42105809	748	104553											
KIAA1529	57653	broad.mit.edu	37	chr9	100080790	100080790	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catactcccccggctgtgacGaaggagctagaggtcatgct	9	8	12	12	2	1	2	1	1	0	1	2	4	2	3	2	3	3	3	2	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:100080790G>A	uc011lut.1	+	22	2327	c.1554G>A	c.(1552-1554)ACG>ACA	p.T518T	KIAA1529_uc004axe.1_Silent_p.T518T|KIAA1529_uc004axg.1_Silent_p.T379T|KIAA1529_uc011lus.1_Silent_p.T336T|KIAA1529_uc010msm.1_Intron|KIAA1529_uc004axf.2_Silent_p.T379T|KIAA1529_uc011luv.1_Silent_p.T376T	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				CGGCTGTGACGAAGGAGCTAG	0.592													40	24					0	0	0.006999	0	0		A	100080790	A	A	100080790	2	1	212	1	0	0	0	0	0	0	0	1	8256	1045	37	1		1	KIAA1529	9	100080790	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	973168	100080790	41132641	749	104554											
KIAA1529	57653	broad.mit.edu	37	chr9	100085148	100085148	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggactgcatgatgcggatccGcctgctgtatgagaagacat	10	9	13	9	2	0	3	0	2	0	2	1	6	1	5	2	2	3	3	2	2	2	1	rs151161375	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:100085148G>A	uc011lut.1	+	24	2515	c.1742G>A	c.(1741-1743)CGC>CAC	p.R581H	KIAA1529_uc004axe.1_Missense_Mutation_p.R581H|KIAA1529_uc004axg.1_Missense_Mutation_p.R442H|KIAA1529_uc011lus.1_Missense_Mutation_p.R399H|KIAA1529_uc010msm.1_RNA|KIAA1529_uc004axf.2_Missense_Mutation_p.R442H|KIAA1529_uc011luv.1_Missense_Mutation_p.R439H	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				ATGCGGATCCGCCTGCTGTAT	0.537													13	75					0	0	0.003163	0	0		A	100085148	A	A	100085148	3	1	212	1	0	0	0	0	1	0	0	0	8256	1087	38	1	1800	1	KIAA1529	9	100085148	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4358	100085148	41128283	750	104555											
KIAA1529	57653	broad.mit.edu	37	chr9	100128909	100128909	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgacacctttgaccagtgCgccgagaacattagcaaaaa	14	8	9	10	2	0	3	0	2	0	1	0	4	0	3	3	0	3	1	3	0	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:100128909C>T	uc011lut.1	+	43	5438	c.4665C>T	c.(4663-4665)TGC>TGT	p.C1555C	KIAA1529_uc004axe.1_Silent_p.C1361C|KIAA1529_uc004axg.1_Silent_p.C1416C|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Silent_p.C509C|MIR1302-8_hsa-mir-1302-8|MI0006369_5'Flank	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				TTGACCAGTGCGCCGAGAACA	0.532													9	55					0	0	0.006214	0	0		T	100128909	T	T	100128909	2	4	212	1	0	0	0	0	0	0	0	1	8256	776	27	1		1	KIAA1529	9	100128909	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	43761	100128909	41084522	751	104556											
KIAA1529	57653	broad.mit.edu	37	chr9	100137832	100137832	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	accaccaaaaccaccctgggCcacctggcggccgtggaagc	10	3	11	17	2	0	0	0	0	0	0	0	1	0	1	7	4	2	0	7	4	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:100137832C>T	uc011lut.1	+	48	6125	c.5352C>T	c.(5350-5352)GGC>GGT	p.G1784G	KIAA1529_uc004axe.1_Silent_p.G1590G|KIAA1529_uc004axg.1_Silent_p.G1645G|KIAA1529_uc004axh.1_RNA|KIAA1529_uc011luw.1_Silent_p.G738G	NM_020893	NP_065944			hypothetical protein LOC57653											ovary(4)|large_intestine(2)|skin(1)	7		Acute lymphoblastic leukemia(62;0.154)				CCACCCTGGGCCACCTGGCGG	0.587													19	75					0	0	0.010504	0	0		T	100137832	T	T	100137832	2	4	212	1	0	0	0	0	0	0	0	1	8256	726	26	2		2	KIAA1529	9	100137832	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8923	100137832	41075599	752	104557											
COL15A1	1306	broad.mit.edu	37	chr9	101822204	101822204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggtccccctggccctccagGacagccagggcttcccggat	6	6	12	17	1	0	0	0	0	0	0	3	2	3	2	6	5	1	1	6	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:101822204G>A	uc004azb.1	+	36	3577	c.3371G>A	c.(3370-3372)GGA>GAA	p.G1124E		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	1124	Triple-helical region 9 (COL9).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				GGCCCTCCAGGACAGCCAGGG	0.463													22	72					0	0	0.008361	0	0		A	101822204	A	A	101822204	3	1	212	1	0	0	0	0	1	0	0	0	3675	1174	41	4	3513	4	COL15A1	9	101822204	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1684372	101822204	39391227	753	104558											
NR4A3	8013	broad.mit.edu	37	chr9	102591219	102591219	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgccgtgtgcggggacaacGccgcctgccagcactacggc	6	5	15	15	5	0	0	0	0	0	0	0	1	0	1	4	3	6	1	4	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:102591219G>A	uc004baf.1	+	3	1624	c.895G>A	c.(895-897)GCC>ACC	p.A299T	NR4A3_uc004bae.2_Missense_Mutation_p.A299T|NR4A3_uc004bag.1_Missense_Mutation_p.A299T|NR4A3_uc004bai.2_Missense_Mutation_p.A310T	NM_006981	NP_008912	Q92570	NR4A3_HUMAN	nuclear receptor subfamily 4, group A, member 3	299	Nuclear receptor.|NR C4-type.				regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor		steroid hormone receptor activity|thyroid hormone receptor activity|zinc ion binding		EWSR1/NR4A3(140)|TAF15/NR4A3(33)	bone(173)	173		Acute lymphoblastic leukemia(62;0.0559)|all_hematologic(171;0.189)				CGGGGACAACGCCGCCTGCCA	0.716			T	EWSR1	extraskeletal myxoid chondrosarcoma								9	15					0	0	0.006214	0	0		A	102591219	A	A	102591219	3	1	212	1	0	0	0	0	1	0	0	0	10653	1087	38	1	934	1	NR4A3	9	102591219	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	769015	102591219	38622212	754	104559											
GRIN3A	116443	broad.mit.edu	37	chr9	104499750	104499750	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagggtcactgctccatggcGaactaggggaggagaagggc	11	5	17	8	1	1	1	1	0	0	1	2	4	2	2	1	6	2	1	1	6	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:104499750G>A	uc004bbp.1	-	1	1113	c.512C>T	c.(511-513)TCG>TTG	p.S171L	GRIN3A_uc004bbq.1_Missense_Mutation_p.S171L	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	171	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GCTCCATGGCGAACTAGGGGA	0.607													16	63					0	0	0.006122	0	0		A	104499750	A	A	104499750	3	1	212	1	0	0	0	0	1	0	0	0	6799	1059	37	1	2871	1	GRIN3A	9	104499750	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1908531	104499750	36713681	755	104560											
ABCA1	19	broad.mit.edu	37	chr9	107571802	107571802	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccagggtctttggtgagggCgtttaagagttccagggttc	6	12	16	7	1	1	2	0	1	1	1	3	2	2	2	2	4	0	3	2	4	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:107571802C>T	uc004bcl.2	-	30	4532	c.4219G>A	c.(4219-4221)GCC>ACC	p.A1407T		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1407	Extracellular.		A -> T (in a colorectal cancer sample; somatic mutation).		Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding	p.A1407T(1)		large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TTGGTGAGGGCGTTTAAGAGT	0.517													16	66					0	0	0.00499	0	0		T	107571802	T	T	107571802	3	4	212	1	0	0	0	0	1	0	0	0	28	768	27	1	2650	1	ABCA1	9	107571802	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3072052	107571802	33641629	756	104561											
FKTN	2218	broad.mit.edu	37	chr9	108370183	108370183	+	Missense_Mutation	SNP	A	C	C	1	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	ctttgtagaagaagtaccacActctaggtttattgagtgta	12	14	9	6	0	1	3	0	1	1	2	1	3	1	3	1	1	1	4	1	1	7	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:108370183A>C	uc004bcr.2	+	7	947	c.731A>C	c.(730-732)CAC>CCC	p.H244P	FKTN_uc011lvx.1_Missense_Mutation_p.H244P|FKTN_uc004bcs.2_Missense_Mutation_p.H244P|FKTN_uc011lvy.1_Missense_Mutation_p.H244P|FKTN_uc010mtm.2_Missense_Mutation_p.H112P	NM_001079802	NP_001073270	O75072	FKTN_HUMAN	fukutin	244	Lumenal (Potential).				muscle organ development|negative regulation of cell proliferation|negative regulation of JNK cascade|nervous system development|regulation of protein glycosylation	cis-Golgi network|endoplasmic reticulum|extracellular space|Golgi membrane|integral to membrane|nucleus	transferase activity			breast(2)|ovary(1)	3						GAAGTACCACACTCTAGGTTT	0.363													24	60					0	0	0.00278	0	0		C	108370183	C	C	108370183	3	2	212	1	0	0	0	0	1	0	0	0	5933	159	6	5	749	5	FKTN	9	108370183	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	798381	108370183	32843248	757	104562											
ACTL7B	10880	broad.mit.edu	37	chr9	111617575	111617575	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcaggcccggcagcacgtcGccctcggatatgggcaccac	7	5	13	16	4	1	0	1	0	0	0	3	1	1	1	3	4	1	3	3	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:111617575G>A	uc004bdi.2	-	1	701	c.636C>T	c.(634-636)GGC>GGT	p.G212G		NM_006686	NP_006677	Q9Y614	ACL7B_HUMAN	actin-like 7B	212						actin cytoskeleton|cytoplasm	structural constituent of cytoskeleton			pancreas(1)	1						GCAGCACGTCGCCCTCGGATA	0.667													12	45					0	0	0.010729	0	0		A	111617575	A	A	111617575	2	1	212	1	0	0	0	0	0	0	0	1	201	1074	38	1		1	ACTL7B	9	111617575	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3247392	111617575	29595856	758	104563											
EPB41L4B	54566	broad.mit.edu	37	chr9	112013771	112013771	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggacactcaccagagctgggCtgctatcactgggttgcttg	7	10	13	11	0	2	1	2	0	0	1	2	2	2	2	1	3	3	5	1	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:112013771C>T	uc004bdz.1	-	13	1595	c.1300G>A	c.(1300-1302)GCC>ACC	p.A434T	EPB41L4B_uc004bea.2_Missense_Mutation_p.A434T	NM_019114	NP_061987	Q9H329	E41LB_HUMAN	erythrocyte membrane protein band 4.1 like 4B	434						cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|skin(1)	3						CAGAGCTGGGCTGCTATCACT	0.418													6	153					0	0	0.00308	0	0		T	112013771	T	T	112013771	3	4	212	1	0	0	0	0	1	0	0	0	5164	797	28	2	1610	2	EPB41L4B	9	112013771	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	396196	112013771	29199660	759	104564											
PTPN3	5774	broad.mit.edu	37	chr9	112172545	112172545	+	Silent	SNP	G	A	A	0	0	1	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	tggctggcgtcctcggtggaGccccctttggtcaccctgtg	2	11	14	14	2	1	0	1	0	0	0	3	1	2	1	4	5	1	1	4	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:112172545G>A	uc004bed.2	-	15	1576	c.1464C>T	c.(1462-1464)GGC>GGT	p.G488G	PTPN3_uc004beb.2_Silent_p.G357G|PTPN3_uc004bec.2_Silent_p.G312G|PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Silent_p.G443G|PTPN3_uc011lwh.1_Silent_p.G334G|PTPN3_uc011lwd.1_5'UTR|PTPN3_uc011lwe.1_Silent_p.G201G|PTPN3_uc011lwf.1_Silent_p.G156G	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	488					negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						CCTCGGTGGAGCCCCCTTTGG	0.607													89	119					0	0	0.01441	0	0		A	112172545	A	A	112172545	2	1	212	1	0	0	0	0	0	0	0	1	12814	958	34	2		2	PTPN3	9	112172545	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	158774	112172545	29040886	760	104565											
PTPN3	5774	broad.mit.edu	37	chr9	112219457	112219457	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagatcacaccaacctttTaactgcttcctgatggcttt	12	13	5	11	0	1	2	1	1	0	1	2	2	2	2	3	1	3	2	3	1	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:112219457T>C	uc004bed.2	-	4	397	c.285A>G	c.(283-285)TTA>TTG	p.L95L	PTPN3_uc010mtu.2_RNA|PTPN3_uc011lwg.1_Silent_p.L95L|PTPN3_uc011lwh.1_Missense_Mutation_p.K13E|PTPN3_uc004bee.3_Silent_p.L95L	NM_002829	NP_002820	P26045	PTN3_HUMAN	protein tyrosine phosphatase, non-receptor type	95	FERM.				negative regulation of membrane protein ectodomain proteolysis|negative regulation of mitotic cell cycle	cytoplasm|cytoskeleton|internal side of plasma membrane	ATPase binding|cytoskeletal protein binding|phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(3)	3						ACCAACCTTTTAACTGCTTCC	0.418													27	43					0	0	0.005443	0	0		C	112219457	C	C	112219457	2	2	212	1	0	0	0	0	0	0	0	1	12814	1751	61	3		3	PTPN3	9	112219457	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	46912	112219457	28993974	761	104566											
HSDL2	84263	broad.mit.edu	37	chr9	115203985	115203985	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaatttttcaggtcatcCtttgcaaccagatttcttct	8	17	6	10	0	5	1	3	0	2	1	6	1	6	1	2	2	2	1	2	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:115203985C>A	uc004bga.1	+	8	893	c.800C>A	c.(799-801)CCT>CAT	p.P267H	HSDL2_uc011lwv.1_Missense_Mutation_p.P146H|HSDL2_uc004bgb.1_Missense_Mutation_p.P101H|HSDL2_uc004bgc.1_Missense_Mutation_p.P194H|HSDL2_uc011lww.1_Missense_Mutation_p.P62H	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2	267						peroxisome	oxidoreductase activity|sterol binding				0						TCAGGTCATCCTTTGCAACCA	0.289													16	64					8.28177e-16	9.43259e-16	0.007413	1	0		A	115203985	A	A	115203985	3	1	212	1	0	0	0	0	1	0	0	0	7410	681	24	5	830	5	HSDL2	9	115203985	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2984528	115203985	26009446	762	104567											
KIAA1958	158405	broad.mit.edu	37	chr9	115337496	115337496	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcagcccccagtcgctccagCcataaccactgaggccacag	10	4	9	18	1	0	1	0	1	0	0	2	1	1	1	6	1	3	2	6	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:115337496C>T	uc004bgf.1	+	2	1311	c.1136C>T	c.(1135-1137)GCC>GTC	p.A379V	KIAA1958_uc011lwx.1_Missense_Mutation_p.A379V	NM_133465	NP_597722	Q8N8K9	K1958_HUMAN	hypothetical protein LOC158405	379										skin(1)	1						GTCGCTCCAGCCATAACCACT	0.597													33	52					0	0	0.003755	0	0		T	115337496	T	T	115337496	3	4	212	1	0	0	0	0	1	0	0	0	8280	739	26	2	1138	2	KIAA1958	9	115337496	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	133511	115337496	25875935	763	104568											
COL27A1	85301	broad.mit.edu	37	chr9	116930329	116930329	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctggccctcgagctccgagGccgcacagtcactctggtga	6	7	12	16	3	2	1	1	1	1	0	4	3	3	1	4	3	1	2	4	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:116930329G>A	uc011lxl.1	+	3	494	c.494G>A	c.(493-495)GGC>GAC	p.G165D	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.G15D	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	165	Laminin G-like.|TSP N-terminal.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GAGCTCCGAGGCCGCACAGTC	0.706													14	46					0	0	0.003163	0	0		A	116930329	A	A	116930329	3	1	212	1	0	0	0	0	1	0	0	0	3688	1203	42	2	504	2	COL27A1	9	116930329	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1592833	116930329	24283102	764	104569											
DFNB31	25861	broad.mit.edu	37	chr9	117165145	117165145	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtgctccttgccccgaagCgtcagcccattcacttccag	6	9	9	17	3	2	0	2	0	0	0	4	1	4	0	5	1	4	1	5	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:117165145C>T	uc004biz.3	-	12	3262	c.2613G>A	c.(2611-2613)ACG>ACA	p.T871T	DFNB31_uc004bix.2_Silent_p.T520T|DFNB31_uc004biy.3_Silent_p.T488T|DFNB31_uc004bja.3_Silent_p.T870T	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	871	PDZ 3.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						TGCCCCGAAGCGTCAGCCCAT	0.592													7	42					0	0	0.006214	0	0		T	117165145	T	T	117165145	2	4	212	1	0	0	0	0	0	0	0	1	4461	755	27	1		1	DFNB31	9	117165145	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	234816	117165145	24048286	765	104570											
TNC	3371	broad.mit.edu	37	chr9	117849041	117849041	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caggtgccattgatgcagcgGccccggtcgaagcagtcatt	8	8	13	12	3	1	1	1	1	0	0	2	2	1	1	3	3	4	2	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:117849041G>A	uc004bjj.3	-	3	1331	c.969C>T	c.(967-969)GGC>GGT	p.G323G	TNC_uc010mvf.2_Silent_p.G323G	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	323	EGF-like 6.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						TGATGCAGCGGCCCCGGTCGA	0.607													28	101					0	0	0.010818	0	0		A	117849041	A	A	117849041	2	1	212	1	0	0	0	0	0	0	0	1	16295	1190	42	2		2	TNC	9	117849041	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	683896	117849041	23364390	766	104571											
C5	727	broad.mit.edu	37	chr9	123722601	123722601	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagatccaattcttcctgcaTttgcccacaatcagctggat	10	12	6	13	0	2	1	1	0	1	1	4	2	4	2	3	1	3	2	3	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:123722601T>C	uc004bkv.2	-	38	4633	c.4603A>G	c.(4603-4605)ATG>GTG	p.M1535V		NM_001735	NP_001726	P01031	CO5_HUMAN	complement component 5 preproprotein	1535	NTR.				activation of MAPK activity|chemotaxis|complement activation, alternative pathway|complement activation, classical pathway|cytolysis|G-protein coupled receptor protein signaling pathway|inflammatory response|negative regulation of macrophage chemotaxis|positive regulation of chemokine secretion|positive regulation vascular endothelial growth factor production	extracellular space|membrane attack complex	chemokine activity|endopeptidase inhibitor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(323;4.98e-53)|GBM - Glioblastoma multiforme(294;0.0242)	Eculizumab(DB01257)	TCTTCCTGCATTTGCCCACAA	0.383													15	50					0	0	0.006122	0	0		C	123722601	C	C	123722601	3	2	212	1	0	0	0	0	1	0	0	0	2283	1493	52	3	443	3	C5	9	123722601	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	5873560	123722601	17490830	767	104572											
DAB2IP	153090	broad.mit.edu	37	chr9	124535252	124535252	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acaccaggcacctccgagggCgcgccaggccggccccagct	7	2	13	19	4	0	0	0	0	0	0	1	1	1	0	7	4	1	2	7	4	0	0	rs144586865	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:124535252C>T	uc004bln.2	+	12	2430	c.2361C>T	c.(2359-2361)GGC>GGT	p.G787G	DAB2IP_uc004blo.2_Silent_p.G691G|DAB2IP_uc004blp.2_Silent_p.G220G	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	815					activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						CCTCCGAGGGCGCGCCAGGCC	0.726													24	49					0	0	0.007291	0	0		T	124535252	T	T	124535252	2	4	212	1	0	0	0	0	0	0	0	1	4222	755	27	1		1	DAB2IP	9	124535252	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	812651	124535252	16678179	768	104573											
CRB2	286204	broad.mit.edu	37	chr9	126128524	126128524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggttccggtgcgactgcgcGggcaccggctacgagggcac	6	5	17	13	6	0	0	0	0	0	0	1	2	1	0	2	5	3	4	2	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:126128524G>A	uc004bnx.1	+	4	725	c.633G>A	c.(631-633)GCG>GCA	p.A211A	CRB2_uc004bnw.1_Silent_p.A211A	NM_173689	NP_775960	Q5IJ48	CRUM2_HUMAN	crumbs homolog 2 precursor	211	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).					extracellular region|integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						GCGACTGCGCGGGCACCGGCT	0.771													4	1					0	0	0.009096	0	0		A	126128524	A	A	126128524	2	1	212	1	0	0	0	0	0	0	0	1	3852	1103	39	1		1	CRB2	9	126128524	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1593272	126128524	15084907	769	104574											
ANGPTL2	23452	broad.mit.edu	37	chr9	129870996	129870996	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgagccaccagcatgtcacGcacagtggcctcatggtcct	8	7	10	16	2	2	0	2	0	0	0	3	1	3	0	5	2	2	2	5	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:129870996G>A	uc004bqr.1	-	2	515	c.15C>T	c.(13-15)TGC>TGT	p.C5C	RALGPS1_uc004bqo.1_Intron|RALGPS1_uc011mab.1_Intron|RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron|ANGPTL2_uc010mxg.1_Intron	NM_012098	NP_036230	Q9UKU9	ANGL2_HUMAN	angiopoietin-like 2 precursor	5					multicellular organismal development|signal transduction	extracellular space	receptor binding				0						AGCATGTCACGCACAGTGGCC	0.532													26	36					0	0	0.005443	0	0		A	129870996	A	A	129870996	2	1	212	1	0	0	0	0	0	0	0	1	614	1079	38	1		1	ANGPTL2	9	129870996	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3742472	129870996	11342435	770	104575											
AK1	203	broad.mit.edu	37	chr9	130630298	130630298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagcgttgctactttagggCgtccaggtgggtgcagacct	6	10	14	11	2	0	1	0	0	0	1	1	1	1	1	3	3	4	3	3	3	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:130630298C>T	uc004bsm.3	-	7	727	c.574G>A	c.(574-576)GCC>ACC	p.A192T		NM_000476	NP_000467	P00568	KAD1_HUMAN	adenylate kinase 1	192					ATP metabolic process|nucleobase, nucleoside and nucleotide interconversion	cytosol	adenylate kinase activity|ATP binding|protein binding				0						TACTTTAGGGCGTCCAGGTGG	0.667													18	94					0	0	0.014323	0	0		T	130630298	T	T	130630298	3	4	212	1	0	0	0	0	1	0	0	0	439	768	27	1	14	1	AK1	9	130630298	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	759302	130630298	10583133	771	104576											
DNM1	1759	broad.mit.edu	37	chr9	130982549	130982549	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgaacgaaagttcttcCtctcccatccatcttatcgc	8	13	5	15	2	3	1	0	1	3	0	7	2	5	1	3	0	2	2	3	0	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:130982549C>A	uc011mau.1	+	6	865	c.778C>A	c.(778-780)CTC>ATC	p.L260I	DNM1_uc010mxr.2_Missense_Mutation_p.L260I|DNM1_uc011mat.1_Missense_Mutation_p.L260I	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	260					receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity			ovary(2)	2						AAAGTTCTTCCTCTCCCATCC	0.562													36	130					1.49673e-21	1.73814e-21	0.00623	1	0		A	130982549	A	A	130982549	3	1	212	1	0	0	0	0	1	0	0	0	4676	681	24	5	800	5	DNM1	9	130982549	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	352251	130982549	10230882	772	104577											
NUP188	23511	broad.mit.edu	37	chr9	131750408	131750408	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ccgtcaccaacaatgttattCggctgaaacctccttctaat	11	12	5	13	2	2	1	1	1	1	0	4	1	3	1	4	1	2	2	4	1	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:131750408C>G	uc004bws.1	+	24	2498	c.2476C>G	c.(2476-2478)CGG>GGG	p.R826G	NUP188_uc004bwu.2_Missense_Mutation_p.R169G	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	826					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						CAATGTTATTCGGCTGAAACC	0.502													59	188					0	0	0.01441	0	0		G	131750408	G	G	131750408	3	3	212	1	0	0	0	0	1	0	0	0	10777	875	31	5	2570	5	NUP188	9	131750408	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	767859	131750408	9463023	773	104578											
NUP188	23511	broad.mit.edu	37	chr9	131760467	131760467	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gactgactctgtggtgcgtcGccagctctttcttgacgtgc	4	13	12	12	3	3	2	0	2	3	0	4	3	3	2	1	1	3	1	1	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:131760467G>A	uc004bws.1	+	31	3411	c.3389G>A	c.(3388-3390)CGC>CAC	p.R1130H	NUP188_uc004bwu.2_Missense_Mutation_p.R473H	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1130					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						GTGGTGCGTCGCCAGCTCTTT	0.438													72	268					0	0	0.01441	0	0		A	131760467	A	A	131760467	3	1	212	1	0	0	0	0	1	0	0	0	10777	1087	38	1	3511	1	NUP188	9	131760467	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	10059	131760467	9452964	774	104579											
NUP188	23511	broad.mit.edu	37	chr9	131768572	131768572	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tacctgctcatctctcaggcGatgcggtaccttagggaccc	7	10	10	14	2	3	0	2	0	1	0	4	2	3	1	3	3	4	2	3	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:131768572G>A	uc004bws.1	+	43	5020	c.4998G>A	c.(4996-4998)GCG>GCA	p.A1666A		NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1666					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						TCTCTCAGGCGATGCGGTACC	0.572											OREG0019528	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	57	220					0	0	0.01441	0	0		A	131768572	A	A	131768572	2	1	212	1	0	0	0	0	0	0	0	1	10777	1045	37	1		1	NUP188	9	131768572	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8105	131768572	9444859	775	104580											
LAMC3	10319	broad.mit.edu	37	chr9	133901769	133901769	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agccgcgccgacggcccatgGgagccctaccagttctacag	8	5	12	16	4	1	0	0	0	1	0	1	2	1	1	5	2	4	1	5	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:133901769G>A	uc004caa.1	+	2	569	c.471G>A	c.(469-471)TGG>TGA	p.W157*		NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	157	Laminin N-terminal.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		ACGGCCCATGGGAGCCCTACC	0.647													26	98					0	0	0.008361	0	0		A	133901769	A	A	133901769	4	1	212	1	0	0	0	0	0	1	0	0	8632	1241	43	4	477	4	LAMC3	9	133901769	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2133197	133901769	7311662	776	104581											
NUP214	8021	broad.mit.edu	37	chr9	134026004	134026004	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacttgtggcttctacagaTtgcacactttcagaaggagt	10	13	9	9	0	3	2	2	0	1	2	3	3	3	3	0	2	2	2	0	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:134026004T>G	uc004cag.2	+	16	2240	c.2129T>G	c.(2128-2130)ATT>AGT	p.I710S	NUP214_uc004cah.2_Missense_Mutation_p.I700S|NUP214_uc004cai.2_Missense_Mutation_p.I140S|NUP214_uc004caf.1_Missense_Mutation_p.I699S|NUP214_uc010mzf.2_Missense_Mutation_p.I8S	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	710	11 X 5 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		CTTCTACAGATTGCACACTTT	0.473			T	DEK|SET|ABL1	AML|T-ALL								7	132					0	0	0.00308	0	0		G	134026004	G	G	134026004	3	3	212	1	0	0	0	0	1	0	0	0	10781	1507	52	5	2191	5	NUP214	9	134026004	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	124235	134026004	7187427	777	104582											
C9orf96	169436	broad.mit.edu	37	chr9	136270471	136270471	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggtgagtgacagcagcGccttcagcaaaccaggcctc	9	6	12	14	1	1	2	1	2	0	0	2	2	1	2	4	2	4	2	4	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:136270471G>A	uc004cdk.2	+	18	2030	c.1969G>A	c.(1969-1971)GCC>ACC	p.A657T	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	657							ATP binding|protein kinase activity			stomach(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;1.06e-07)|Epithelial(140;1.28e-06)|all cancers(34;1.46e-05)		TGACAGCAGCGCCTTCAGCAA	0.592													12	32					0	0	0.010729	0	0		A	136270471	A	A	136270471	3	1	212	1	0	0	0	0	1	0	0	0	2511	1087	38	1	2039	1	C9orf96	9	136270471	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2244467	136270471	4942960	778	104583											
VAV2	7410	broad.mit.edu	37	chr9	136804319	136804319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagactttcaggaaggtgCgtatgttcttcaaacacaga	12	10	11	8	1	3	2	2	0	1	2	3	3	3	3	0	3	2	3	0	3	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:136804319C>T	uc004ces.2	-	2	273	c.227G>A	c.(226-228)CGC>CAC	p.R76H	VAV2_uc004cer.2_Missense_Mutation_p.R76H	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	76	CH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CAGGAAGGTGCGTATGTTCTT	0.423													26	118					0	0	0.00632	0	0		T	136804319	T	T	136804319	3	4	212	1	0	0	0	0	1	0	0	0	17158	768	27	1	2525	1	VAV2	9	136804319	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	533848	136804319	4409112	779	104584											
COL5A1	1289	broad.mit.edu	37	chr9	137688237	137688237	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aagggcaactccggaggtgaCggcccagctggccctcctgg	7	5	15	14	2	0	1	0	1	0	0	2	2	2	2	4	6	2	2	4	6	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:137688237C>T	uc004cfe.2	+	35	3199	c.2817C>T	c.(2815-2817)GAC>GAT	p.D939D		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	939	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCGGAGGTGACGGCCCAGCTG	0.567													15	98					0	0	0.007413	0	0		T	137688237	T	T	137688237	2	4	212	1	0	0	0	0	0	0	0	1	3699	535	19	1		1	COL5A1	9	137688237	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	883918	137688237	3525194	780	104585											
INPP5E	56623	broad.mit.edu	37	chr9	139327500	139327500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttgatctgagacacgatgCgtgtggtcaccgtggagcac	8	10	13	10	3	3	2	1	2	2	1	3	5	3	3	1	2	2	1	1	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:139327500C>T	uc004cho.2	-	5	1572	c.1187G>A	c.(1186-1188)CGC>CAC	p.R396H	INPP5E_uc010nbm.2_Missense_Mutation_p.R396H	NM_019892	NP_063945	Q9NRR6	INP5E_HUMAN	inositol polyphosphate-5-phosphatase E	396						cilium axoneme|cytoskeleton|Golgi cisterna membrane	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity			skin(1)	1		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;8.36e-06)|Epithelial(140;1.4e-05)		AGACACGATGCGTGTGGTCAC	0.612													14	65					0	0	0.00499	0	0		T	139327500	T	T	139327500	3	4	212	1	0	0	0	0	1	0	0	0	7773	768	27	1	771	1	INPP5E	9	139327500	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1639263	139327500	1885931	781	104586											
ABCA2	20	broad.mit.edu	37	chr9	139905693	139905693	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taggccatctccatgagcccGtggcccaggttgtagttggg	6	10	14	11	1	1	1	0	1	1	0	2	1	1	1	4	4	1	3	4	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:139905693G>A	uc011mem.1	-	37	6013	c.5865C>T	c.(5863-5865)CAC>CAT	p.H1955H	ABCA2_uc011mel.1_Silent_p.H1956H|ABCA2_uc004ckl.1_Silent_p.H1886H|ABCA2_uc004ckm.1_Silent_p.H1986H	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	1955					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CCATGAGCCCGTGGCCCAGGT	0.622													12	79					0	0	0.013537	0	0		A	139905693	A	A	139905693	2	1	212	1	0	0	0	0	0	0	0	1	32	1136	40	1		1	ABCA2	9	139905693	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	578193	139905693	1307738	782	104587											
EXD3	54932	broad.mit.edu	37	chr9	140218289	140218289	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cgaccgagaggcagcgcccaGccccgacctgggcccggagc	7	1	15	18	5	0	1	0	0	0	1	0	5	0	2	6	3	3	1	6	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:140218289G>A	uc004cmp.2	-	19	2268	c.2072C>T	c.(2071-2073)GCT>GTT	p.A691V	C9orf167_uc011mew.1_Intron|EXD3_uc010ncf.1_Missense_Mutation_p.A342V	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3	691					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						GCAGCGCCCAGCCCCGACCTG	0.677													8	30					0	0	0.004482	0	0		A	140218289	A	A	140218289	3	1	212	1	0	0	0	0	1	0	0	0	5307	971	34	2	574	2	EXD3	9	140218289	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	312596	140218289	995142	783	104588											
EHMT1	79813	broad.mit.edu	37	chr9	140611397	140611397	+	Silent	SNP	G	A	A	0	0	1	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	aagccggccctacaggcacaGcccttgaggactaccagcac	11	4	10	16	1	0	1	0	1	0	0	0	2	0	2	4	3	5	2	4	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr9:140611397G>A	uc011mfc.1	+	3	442	c.405G>A	c.(403-405)CAG>CAA	p.Q135Q	EHMT1_uc004coa.2_Silent_p.Q135Q|EHMT1_uc004cob.1_Silent_p.Q104Q	NM_024757	NP_079033	Q9H9B1	EHMT1_HUMAN	euchromatic histone-lysine N-methyltransferase 1	135					DNA methylation|embryo development|peptidyl-lysine dimethylation|peptidyl-lysine monomethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			breast(2)|pancreas(1)	3	all_cancers(76;0.164)			OV - Ovarian serous cystadenocarcinoma(145;0.000183)|Epithelial(140;0.000728)		TACAGGCACAGCCCTTGAGGA	0.567													35	106					0	0	0.003755	0	0		A	140611397	A	A	140611397	2	1	212	1	0	0	0	0	0	0	0	1	4989	962	34	2		2	EHMT1	9	140611397	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	393108	140611397	602034	784	104589											
PFKP	5214	broad.mit.edu	37	chr10	3124609	3124609	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgccgtccgtgccgtggtgCgcatgggtatctacgtgggg	3	10	17	11	5	1	0	0	0	1	0	2	0	2	0	3	4	4	2	3	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:3124609C>T	uc001igp.2	+	2	178	c.142C>T	c.(142-144)CGC>TGC	p.R48C	PFKP_uc001igq.2_Missense_Mutation_p.A13V|PFKP_uc009xhr.2_Missense_Mutation_p.R10C	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	48	ATP (By similarity).				glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3				GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)		TGCCGTGGTGCGCATGGGTAT	0.413													23	129					0	0	0.005443	0	0		T	3124609	T	T	3124609	3	4	212	1	0	0	0	0	1	0	0	0	11785	768	27	1	148	1	PFKP	10	3124609	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		3124609	132410138	785	104590											
C10orf18	54906	broad.mit.edu	37	chr10	5782190	5782190	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caggaatgggacaaaaagccCtgaagcagcaaccccagtgg	15	3	12	11	0	0	1	0	1	0	0	0	3	0	3	3	3	4	2	3	3	5	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:5782190C>A	uc001iij.2	+	13	2682	c.2057C>A	c.(2056-2058)CCT>CAT	p.P686H	C10orf18_uc001iik.2_Intron	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	686										ovary(1)|central_nervous_system(1)	2						ACAAAAAGCCCTGAAGCAGCA	0.512													44	244					5.20006e-24	6.05794e-24	0.011902	1	0		A	5782190	A	A	5782190	3	1	212	1	0	0	0	0	1	0	0	0	1599	681	24	5	2095	5	C10orf18	10	5782190	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2657581	5782190	129752557	786	104591											
C10orf18	54906	broad.mit.edu	37	chr10	5788819	5788819	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttcattacagaaggagacGccccttccagtctctctacc	9	11	7	14	1	3	2	1	0	2	2	5	3	4	2	4	1	2	1	4	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:5788819G>A	uc001iij.2	+	15	4060	c.3435G>A	c.(3433-3435)ACG>ACA	p.T1145T	C10orf18_uc001iik.2_5'UTR	NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	1145										ovary(1)|central_nervous_system(1)	2						AGAAGGAGACGCCCCTTCCAG	0.448													39	204					0	0	0.005524	0	0		A	5788819	A	A	5788819	2	1	212	1	0	0	0	0	0	0	0	1	1599	1074	38	1		1	C10orf18	10	5788819	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6629	5788819	129745928	787	104592											
FBXO18	84893	broad.mit.edu	37	chr10	5959450	5959450	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gggggagtgcacagaagaggCgcaccagatgactcatgacg	12	4	16	9	2	1	5	1	2	0	3	1	6	1	6	1	3	1	2	1	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:5959450C>T	uc001iis.2	+	11	1951	c.1856C>T	c.(1855-1857)GCG>GTG	p.A619V	FBXO18_uc001iir.2_Missense_Mutation_p.A545V|FBXO18_uc009xig.2_Missense_Mutation_p.A545V|FBXO18_uc001iit.2_Missense_Mutation_p.A670V	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2	619					DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						ACAGAAGAGGCGCACCAGATG	0.552													8	69					0	0	0.004482	0	0		T	5959450	T	T	5959450	3	4	212	1	0	0	0	0	1	0	0	0	5745	768	27	1	2060	1	FBXO18	10	5959450	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	170631	5959450	129575297	788	104593											
RBM17	84991	broad.mit.edu	37	chr10	6154225	6154225	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	acggcttccgggagggccagGgtctggggaagcatgagcag	8	5	19	9	2	1	1	0	1	1	0	2	3	2	3	2	6	2	3	2	6	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:6154225G>T	uc001ijb.2	+	8	983	c.757G>T	c.(757-759)GGT>TGT	p.G253C	RBM17_uc010qav.1_Missense_Mutation_p.G253C|RBM17_uc001ijc.2_5'Flank	NM_032905	NP_116294	Q96I25	SPF45_HUMAN	RNA binding motif protein 17	253	G-patch.				mRNA processing|RNA splicing	spliceosomal complex	nucleotide binding|protein binding|RNA binding				0						GGAGGGCCAGGGTCTGGGGAA	0.597													13	127					1.5842e-08	1.69894e-08	0.001855	1	0		T	6154225	T	T	6154225	3	4	212	1	0	0	0	0	1	0	0	0	13144	1232	43	5	783	5	RBM17	10	6154225	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	194775	6154225	129380522	789	104594											
TAF3	83860	broad.mit.edu	37	chr10	7866405	7866405	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accttcccacaccaaattccGtcatttcctgttagcaagaa	12	11	4	14	1	1	1	1	0	0	1	4	1	4	1	5	0	1	2	5	0	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:7866405G>A	uc010qbd.1	+	2	291	c.291G>A	c.(289-291)CCG>CCA	p.P97P		NM_031923	NP_114129	Q5VWG9	TAF3_HUMAN	RNA polymerase II transcription factor TAFII140	97					maintenance of protein location in nucleus|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	transcription factor TFIID complex	protein binding|zinc ion binding			ovary(1)	1						ACCAAATTCCGTCATTTCCTG	0.423													38	180					0	0	0.01441	0	0		A	7866405	A	A	7866405	2	1	212	1	0	0	0	0	0	0	0	1	15550	1132	40	1		1	TAF3	10	7866405	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1712180	7866405	127668342	790	104595											
OPTN	10133	broad.mit.edu	37	chr10	13178765	13178765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagctgaggacagggactggCggcaacagcggaatattccg	11	5	16	9	3	0	1	0	1	0	0	1	5	1	4	1	5	3	2	1	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:13178765C>T	uc001ilu.1	+	16	2071	c.1633C>T	c.(1633-1635)CGG>TGG	p.R545W	OPTN_uc001ilv.1_Missense_Mutation_p.R545W|OPTN_uc001ilw.1_Missense_Mutation_p.R545W|OPTN_uc001ilx.1_Missense_Mutation_p.R545W|OPTN_uc001ily.1_Missense_Mutation_p.R539W|OPTN_uc010qbr.1_Missense_Mutation_p.R488W|OPTN_uc001ilz.1_Missense_Mutation_p.R539W	NM_001008213	NP_001008214	Q96CV9	OPTN_HUMAN	optineurin	545	Interaction with HD.				cell death|Golgi ribbon formation|Golgi to plasma membrane protein transport|protein targeting to Golgi|signal transduction	perinuclear region of cytoplasm|trans-Golgi network	protein C-terminus binding			ovary(2)	2						CAGGGACTGGCGGCAACAGCG	0.458													9	65					0	0	0.006214	0	0		T	13178765	T	T	13178765	3	4	212	1	0	0	0	0	1	0	0	0	10908	759	27	1	1683	1	OPTN	10	13178765	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5312360	13178765	122355982	791	104596											
RPP38	10557	broad.mit.edu	37	chr10	15145415	15145415	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatacatcatccgctggagCgctctggagagcgaggatat	10	8	12	11	3	2	1	1	0	1	1	3	5	3	3	2	3	3	2	2	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:15145415C>T	uc001iny.3	+	3	815	c.102C>T	c.(100-102)AGC>AGT	p.S34S	RPP38_uc009xjm.2_Silent_p.S34S|RPP38_uc001inx.3_Silent_p.S34S	NM_183005	NP_892117	P78345	RPP38_HUMAN	ribonuclease P/MRP 38 subunit	34					tRNA processing	nucleolar ribonuclease P complex	protein binding|ribonuclease P activity			ovary(1)	1						TCCGCTGGAGCGCTCTGGAGA	0.507													26	246					0	0	0.007291	0	0		T	15145415	T	T	15145415	2	4	212	1	0	0	0	0	0	0	0	1	13638	767	27	1		1	RPP38	10	15145415	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1966650	15145415	120389332	792	104597											
FAM171A1	221061	broad.mit.edu	37	chr10	15254921	15254921	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtctgcgatagctcatttaAtgttaaacgccatcaggggc	10	11	11	9	2	3	0	2	0	1	0	3	1	3	0	1	3	3	2	1	3	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:15254921A>T	uc001iob.2	-	8	2673	c.2666T>A	c.(2665-2667)ATT>AAT	p.I889N		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	889	Cytoplasmic (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						AGCTCATTTAATGTTAAACGC	0.507													35	407					0	0	0.003755	0	0		T	15254921	T	T	15254921	3	4	212	1	0	0	0	0	1	0	0	0	5501	101	4	5	10	5	FAM171A1	10	15254921	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	109506	15254921	120279826	793	104598											
FAM171A1	221061	broad.mit.edu	37	chr10	15290770	15290770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attactgctcagcaagtggaCgctgacggctgtgactgggg	8	9	15	9	2	1	2	1	2	0	0	1	3	1	3	0	4	3	4	0	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:15290770C>T	uc001iob.2	-	5	629	c.622G>A	c.(622-624)GTC>ATC	p.V208I		NM_001010924	NP_001010924	Q5VUB5	F1711_HUMAN	hypothetical protein LOC221061 precursor	208	Extracellular (Potential).					integral to membrane				ovary(2)|breast(1)|skin(1)	4						AGCAAGTGGACGCTGACGGCT	0.562													12	199					0	0	0.001855	0	0		T	15290770	T	T	15290770	3	4	212	1	0	0	0	0	1	0	0	0	5501	536	19	1	2066	1	FAM171A1	10	15290770	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	35849	15290770	120243977	794	104599											
CUBN	8029	broad.mit.edu	37	chr10	16941150	16941150	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagtgaggggatctgattgTaccattatcagaatgaaata	14	11	10	6	0	2	4	1	3	1	1	2	5	2	5	2	2	1	1	2	2	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:16941150T>C	uc001ioo.2	-	54	8495	c.8443A>G	c.(8443-8445)ACA>GCA	p.T2815A	CUBN_uc009xjq.1_RNA|CUBN_uc009xjr.1_Missense_Mutation_p.T171A	NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2815	CUB 21.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	GATCTGATTGTACCATTATCA	0.403													17	107					0	0	0.006122	0	0		C	16941150	C	C	16941150	3	2	212	1	0	0	0	0	1	0	0	0	4054	1638	57	3	2484	3	CUBN	10	16941150	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1650380	16941150	118593597	795	104600											
VIM	7431	broad.mit.edu	37	chr10	17277192	17277192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtccctggaacgccagatgCgtgaaatggaagagaacttt	13	8	12	8	2	0	3	0	1	0	2	1	6	1	5	2	2	3	0	2	2	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:17277192C>T	uc001iou.2	+	7	1446	c.1033C>T	c.(1033-1035)CGT>TGT	p.R345C	VIM_uc001iov.1_Missense_Mutation_p.R345C|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.R345C|VIM_uc001ioy.1_Intron|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.R303C|VIM_uc001ipc.1_Missense_Mutation_p.R345C	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	345	Rod.|Coil 2.				cellular component disassembly involved in apoptosis|cellular component movement|interspecies interaction between organisms|muscle filament sliding	cytosol|intermediate filament	protein C-terminus binding|structural constituent of cytoskeleton			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4						ACGCCAGATGCGTGAAATGGA	0.478													20	74					0	0	0.008871	0	0		T	17277192	T	T	17277192	3	4	212	1	0	0	0	0	1	0	0	0	17192	768	27	1	1055	1	VIM	10	17277192	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	336042	17277192	118257555	796	104601											
SLC39A12	221074	broad.mit.edu	37	chr10	18276520	18276520	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacaggcttatcttacagctGtttgtgggcttggccgtcgg	5	14	13	9	2	1	0	0	0	1	0	2	0	1	0	1	4	3	4	1	4	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:18276520G>A	uc001ipo.2	+	7	1482	c.1209G>A	c.(1207-1209)CTG>CTA	p.L403L	SLC39A12_uc001ipn.2_Silent_p.L403L|SLC39A12_uc001ipp.2_Silent_p.L403L|SLC39A12_uc010qck.1_Silent_p.L269L	NM_001145195	NP_001138667	Q504Y0	S39AC_HUMAN	solute carrier family 39 (zinc transporter),	403	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			ovary(1)|breast(1)	2						TCTTACAGCTGTTTGTGGGCT	0.532													32	178					0	0	0.005524	0	0		A	18276520	A	A	18276520	2	1	212	1	0	0	0	0	0	0	0	1	14640	1364	48	4		4	SLC39A12	10	18276520	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	999328	18276520	117258227	797	104602											
PRTFDC1	56952	broad.mit.edu	37	chr10	25160939	25160939	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaacaaacctttccagccagCgttgaaagatcatcgcctcc	12	8	7	14	2	1	2	1	1	0	1	4	3	3	2	5	0	4	1	5	0	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:25160939C>T	uc001ise.1	-	4	422	c.393G>A	c.(391-393)ACG>ACA	p.T131T	PRTFDC1_uc010qdd.1_Silent_p.T131T|PRTFDC1_uc001isf.1_RNA|PRTFDC1_uc009xkm.1_RNA	NM_020200	NP_064585	Q9NRG1	PRDC1_HUMAN	phosphoribosyl transferase domain containing 1	131					adenine salvage|central nervous system neuron development|cerebral cortex neuron differentiation|cytolysis|dendrite morphogenesis|GMP salvage|grooming behavior|hypoxanthine metabolic process|IMP salvage|lymphocyte proliferation|positive regulation of dopamine metabolic process|purine ribonucleoside salvage|response to amphetamine|striatum development	cytosol	hypoxanthine phosphoribosyltransferase activity|magnesium ion binding|nucleotide binding|protein homodimerization activity			ovary(1)	1						TTCCAGCCAGCGTTGAAAGAT	0.468													17	326					0	0	0.008871	0	0		T	25160939	T	T	25160939	2	4	212	1	0	0	0	0	0	0	0	1	12659	755	27	1		1	PRTFDC1	10	25160939	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6884419	25160939	110373808	798	104603											
ENKUR	219670	broad.mit.edu	37	chr10	25279400	25279400	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagaacacacacctgcaaaaCtgcctccctttcttcatcgg	11	9	5	16	1	2	1	1	0	1	1	4	1	3	1	3	1	4	1	3	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:25279400C>T	uc001isg.1	-	4	751	c.586G>A	c.(586-588)GTT>ATT	p.V196I	ENKUR_uc001ish.1_Missense_Mutation_p.V134I	NM_145010	NP_659447	Q8TC29	ENKUR_HUMAN	enkurin	196						cilium|flagellum	calmodulin binding|SH3 domain binding				0						ACCTGCAAAACTGCCTCCCTT	0.403													11	64					0	0	0.008291	0	0		T	25279400	T	T	25279400	3	4	212	1	0	0	0	0	1	0	0	0	5128	565	20	4	196	4	ENKUR	10	25279400	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	118461	25279400	110255347	799	104604											
GPR158	57512	broad.mit.edu	37	chr10	25887786	25887786	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatgcctttgggagagccaAggccagtccattttggaaga	10	10	13	8	0	0	2	0	0	0	2	1	4	1	3	4	3	2	1	4	3	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:25887786A>C	uc001isj.2	+	11	3291	c.3231A>C	c.(3229-3231)CAA>CAC	p.Q1077H	GPR158_uc001isk.2_Missense_Mutation_p.Q452H	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1077	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						GGGAGAGCCAAGGCCAGTCCA	0.493													32	131					0	0	0.012213	0	0		C	25887786	C	C	25887786	3	2	212	1	0	0	0	0	1	0	0	0	6678	69	3	5	3273	5	GPR158	10	25887786	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	608386	25887786	109646961	800	104605											
GAD2	2572	broad.mit.edu	37	chr10	26505753	26505753	+	Silent	SNP	C	T	T	0	0	0	1	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	aagccgatggcatctccgggCtctggcttttggtctttcgg	4	13	13	11	3	3	0	0	0	3	0	5	1	3	0	2	5	1	3	2	5	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:26505753C>T	uc001isp.2	+	1	518	c.15C>T	c.(13-15)GGC>GGT	p.G5G	GAD2_uc009xkr.2_Silent_p.G5G|GAD2_uc001isq.2_Silent_p.G5G	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	5					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	CATCTCCGGGCTCTGGCTTTT	0.672													24	67					0	0	0.005443	0	0		T	26505753	T	T	26505753	2	4	212	1	0	0	0	0	0	0	0	1	6194	784	28	2		2	GAD2	10	26505753	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	617967	26505753	109028994	801	104606											
GAD2	2572	broad.mit.edu	37	chr10	26506836	26506836	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacccccgcgggccgccGcccggaaggccgcctgcgcc	4	1	14	22	7	0	0	0	0	0	0	0	1	0	1	9	3	2	0	9	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:26506836G>A	uc001isp.2	+	3	705	c.202G>A	c.(202-204)GCC>ACC	p.A68T	GAD2_uc009xkr.2_Missense_Mutation_p.A68T|GAD2_uc001isq.2_Missense_Mutation_p.A68T	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	68					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	gcgggccgccgcccggAAGGC	0.567													5	34					0	0	0.000602	0	0		A	26506836	A	A	26506836	3	1	212	1	0	0	0	0	1	0	0	0	6194	1087	38	1	212	1	GAD2	10	26506836	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1083	26506836	109027911	802	104607											
GAD2	2572	broad.mit.edu	37	chr10	26513580	26513580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgatgggatattttctcccGgtacatgatatttcaacttt	9	16	8	8	2	2	1	1	1	1	0	3	3	2	2	1	2	2	1	1	2	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:26513580G>A	uc001isp.2	+	6	1227	c.724G>A	c.(724-726)GGT>AGT	p.G242S	GAD2_uc001isq.2_Missense_Mutation_p.G242S	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	242					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	ATTTTCTCCCGGTACATGATA	0.388													17	62					0	0	0.007413	0	0		A	26513580	A	A	26513580	3	1	212	1	0	0	0	0	1	0	0	0	6194	1130	39	1	746	1	GAD2	10	26513580	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6744	26513580	109021167	803	104608											
PDSS1	23590	broad.mit.edu	37	chr10	27012843	27012843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagttattgaagatttggtgCgtggtacgttgattctgatt	9	17	12	3	2	1	4	0	3	1	1	1	4	1	4	0	2	2	3	0	2	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:27012843C>T	uc001isv.2	+	7	764	c.718C>T	c.(718-720)CGT>TGT	p.R240C	PDSS1_uc001isw.2_Missense_Mutation_p.R240C	NM_014317	NP_055132	Q5T2R2	DPS1_HUMAN	prenyl diphosphate synthase, subunit 1	240					isoprenoid biosynthetic process|ubiquinone biosynthetic process	mitochondrion	metal ion binding|protein heterodimerization activity				0						AGATTTGGTGCGTGGTACGTT	0.378													9	51					0	0	0.004482	0	0		T	27012843	T	T	27012843	3	4	212	1	0	0	0	0	1	0	0	0	11712	768	27	1	744	1	PDSS1	10	27012843	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	499263	27012843	108521904	804	104609											
PTCHD3	374308	broad.mit.edu	37	chr10	27702478	27702478	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcgcagatcctgcaccgcGccgtccagtttgctgacttc	6	9	10	16	5	0	2	0	1	0	1	3	2	2	2	4	0	2	4	4	0	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:27702478G>A	uc001itu.2	-	1	820	c.702C>T	c.(700-702)GGC>GGT	p.G234G		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	234					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CCTGCACCGCGCCGTCCAGTT	0.627													21	62					0	0	0.012319	0	0		A	27702478	A	A	27702478	2	1	212	1	0	0	0	0	0	0	0	1	12756	1074	38	1		1	PTCHD3	10	27702478	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	689635	27702478	107832269	805	104610											
ZNF438	220929	broad.mit.edu	37	chr10	31133912	31133912	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttctcagcttcactggaaAgttcgatcactccctggttg	8	14	8	11	1	3	0	3	0	1	0	6	2	4	1	1	2	1	3	1	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:31133912A>T	uc010qdz.1	-	8	2900	c.2465T>A	c.(2464-2466)CTT>CAT	p.L822H	ZNF438_uc001ivn.2_Missense_Mutation_p.L773H|ZNF438_uc010qdy.1_Missense_Mutation_p.L812H|ZNF438_uc001ivo.3_Missense_Mutation_p.L386H|ZNF438_uc009xlg.2_Missense_Mutation_p.L822H|ZNF438_uc001ivp.3_Missense_Mutation_p.L812H|ZNF438_uc010qea.1_Missense_Mutation_p.L822H|ZNF438_uc010qeb.1_Missense_Mutation_p.L822H	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	822					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TTCACTGGAAAGTTCGATCAC	0.532													127	177					0	0	0.01441	0	0		T	31133912	T	T	31133912	3	4	212	1	0	0	0	0	1	0	0	0	17935	72	3	5	25	5	ZNF438	10	31133912	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3431434	31133912	104400835	806	104611											
ZNF438	220929	broad.mit.edu	37	chr10	31134326	31134326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgagtccccttgcttcctGggaaggtcccttcttgtagc	4	13	10	14	0	1	1	0	1	1	0	4	2	4	2	5	2	2	2	5	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:31134326G>A	uc010qdz.1	-	8	2486	c.2051C>T	c.(2050-2052)CCA>CTA	p.P684L	ZNF438_uc001ivn.2_Missense_Mutation_p.P635L|ZNF438_uc010qdy.1_Missense_Mutation_p.P674L|ZNF438_uc001ivo.3_Missense_Mutation_p.P248L|ZNF438_uc009xlg.2_Missense_Mutation_p.P684L|ZNF438_uc001ivp.3_Missense_Mutation_p.P674L|ZNF438_uc010qea.1_Missense_Mutation_p.P684L|ZNF438_uc010qeb.1_Missense_Mutation_p.P684L	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	684					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				CTTGCTTCCTGGGAAGGTCCC	0.502													25	89					0	0	0.004656	0	0		A	31134326	A	A	31134326	3	1	212	1	0	0	0	0	1	0	0	0	17935	1348	47	4	439	4	ZNF438	10	31134326	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	414	31134326	104400421	807	104612											
ZEB1	6935	broad.mit.edu	37	chr10	31815877	31815877	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agggcgtctccctcacagggCgactcggacgagagagagag	10	4	16	11	4	2	2	1	0	1	2	4	7	2	3	1	3	0	0	1	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:31815877C>T	uc001ivs.3	+	9	3123	c.3060C>T	c.(3058-3060)GGC>GGT	p.G1020G	ZEB1_uc001ivr.3_Silent_p.G802G|ZEB1_uc010qee.1_Silent_p.G802G|ZEB1_uc010qef.1_Silent_p.G802G|ZEB1_uc001ivt.3_Silent_p.G802G|ZEB1_uc001ivu.3_Silent_p.G1021G|ZEB1_uc001ivv.3_Silent_p.G1000G|ZEB1_uc010qeh.1_Silent_p.G953G|ZEB1_uc009xlp.2_Silent_p.G1004G	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	1020	Glu-rich (acidic).				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				CCTCACAGGGCGACTCGGACG	0.423													7	25					0	0	0.001984	0	0		T	31815877	T	T	31815877	2	4	212	1	0	0	0	0	0	0	0	1	17648	755	27	1		1	ZEB1	10	31815877	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	681551	31815877	103718870	808	104613											
NRP1	8829	broad.mit.edu	37	chr10	33502476	33502476	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcccccaggtctatttggagCcactcattgatgtaggaatg	9	12	10	10	0	2	1	1	1	1	0	3	3	3	3	3	3	1	1	3	3	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:33502476C>T	uc001iwx.3	-	9	1975	c.1452G>A	c.(1450-1452)TGG>TGA	p.W484*	NRP1_uc001iwv.3_Nonsense_Mutation_p.W484*|NRP1_uc009xlz.2_Nonsense_Mutation_p.W484*|NRP1_uc001iww.3_Nonsense_Mutation_p.W303*|NRP1_uc001iwy.3_Nonsense_Mutation_p.W484*|NRP1_uc001iwz.2_Nonsense_Mutation_p.W484*|NRP1_uc001ixa.2_Nonsense_Mutation_p.W484*|NRP1_uc001ixb.1_Nonsense_Mutation_p.W484*|NRP1_uc001ixc.1_Nonsense_Mutation_p.W484*	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	484	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	CTATTTGGAGCCACTCATTGA	0.537													21	123					0	0	0.010504	0	0		T	33502476	T	T	33502476	4	4	212	1	0	0	0	0	0	1	0	0	10679	740	26	2	1366	2	NRP1	10	33502476	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1686599	33502476	102032271	809	104614											
ZNF33A	7581	broad.mit.edu	37	chr10	38343438	38343438	+	Missense_Mutation	SNP	A	G	G	1	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	aggaataccatttaatgtggAtgtaagttcttttccttcca	11	16	7	7	0	1	0	0	0	1	0	3	2	3	2	3	2	1	2	3	2	4	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:38343438A>G	uc001izh.2	+	5	561	c.383A>G	c.(382-384)GAT>GGT	p.D128G	ZNF33A_uc001izg.2_Missense_Mutation_p.D129G|ZNF33A_uc010qev.1_Missense_Mutation_p.D135G|ZNF33A_uc001izi.1_Missense_Mutation_p.D129G	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	128						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						TTTAATGTGGATGTAAGTTCT	0.328													21	106					0	0	0.00333	0	0		G	38343438	G	G	38343438	3	3	212	1	0	0	0	0	1	0	0	0	17879	333	12	3	400	3	ZNF33A	10	38343438	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4840962	38343438	97191309	810	104615											
BMS1	9790	broad.mit.edu	37	chr10	43315753	43315753	+	Missense_Mutation	SNP	A	G	G	1	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	atgagggttttcgacctgggAtgtacgtccgcattgagatt	8	13	13	7	3	0	2	0	2	0	1	2	5	1	3	2	2	1	3	2	2	1	5	rs2419109		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:43315753A>G	uc001jaj.2	+	16	3008	c.2650A>G	c.(2650-2652)ATG>GTG	p.M884V		NM_014753	NP_055568	Q14692	BMS1_HUMAN	BMS1-like, ribosome assembly protein	884					ribosome assembly	nucleolus	ATP binding|GTP binding|GTPase activity			ovary(2)|upper_aerodigestive_tract(1)	3						TCGACCTGGGATGTACGTCCG	0.458													31	99					0	0	0.003755	0	0		G	43315753	G	G	43315753	3	3	212	1	0	0	0	0	1	0	0	0	1473	333	12	3	2708	3	BMS1	10	43315753	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4972315	43315753	92218994	811	104616											
RET	5979	broad.mit.edu	37	chr10	43613913	43613913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtcatcaaattgtatgggGcctgcagccaggatggtaag	11	10	13	7	0	2	0	2	0	0	0	2	1	2	1	2	4	2	3	2	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:43613913G>A	uc001jal.2	+	13	2567	c.2377G>A	c.(2377-2379)GCC>ACC	p.A793T	RET_uc001jak.1_Missense_Mutation_p.A793T|RET_uc010qez.1_Missense_Mutation_p.A539T	NM_020975	NP_066124	P07949	RET_HUMAN	ret proto-oncogene isoform a	793	Protein kinase.|Cytoplasmic (Potential).				homophilic cell adhesion|positive regulation of metanephric glomerulus development|positive regulation of transcription, DNA-dependent|posterior midgut development	integral to membrane	ATP binding|calcium ion binding|transmembrane receptor protein tyrosine kinase activity			thyroid(404)|adrenal_gland(20)|lung(9)|large_intestine(5)|breast(4)|ovary(4)|central_nervous_system(3)|urinary_tract(1)|NS(1)	451		Ovarian(717;0.0423)			Sunitinib(DB01268)	ATTGTATGGGGCCTGCAGCCA	0.587		1	T|Mis|N|F	H4|PRKAR1A|NCOA4|PCM1|GOLGA5|TRIM33|KTN1|TRIM27|HOOK3	medullary thyroid| papillary thyroid|pheochromocytoma	medullary thyroid| papillary thyroid|pheochromocytoma	Hirschsprung disease		Multiple_Endocrine_Neoplasia_type_2B|Multiple_Endocrine_Neoplasia_type_2A|Familial_Medullary_Thyroid_Carcinoma				10	44					0	0	0.010729	0	0		A	43613913	A	A	43613913	3	1	212	1	0	0	0	0	1	0	0	0	13260	1203	42	2	2427	2	RET	10	43613913	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	298160	43613913	91920834	812	104617											
TMEM72	643236	broad.mit.edu	37	chr10	45430553	45430553	+	Missense_Mutation	SNP	T	C	C	0	1	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	cccaggccccactcttcctgTcatctcttacagccaccggc	6	9	6	20	1	3	0	1	0	2	0	5	0	4	0	6	2	2	0	6	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:45430553T>C	uc001jbn.2	+	5	996	c.799T>C	c.(799-801)TCA>CCA	p.S267P	uc001jbk.1_Intron|uc001jbl.2_Intron|TMEM72_uc009xmm.1_Missense_Mutation_p.S149P	NM_001123376	NP_001116848	A0PK05	TMM72_HUMAN	transmembrane protein 72	267						integral to membrane					0						ACTCTTCCTGTCATCTCTTAC	0.612													9	51					0	0	0.006214	0	0		C	45430553	C	C	45430553	3	2	212	1	0	0	0	0	1	0	0	0	16226	1667	58	3	817	3	TMEM72	10	45430553	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1816640	45430553	90104194	813	104618											
FRMPD2	143162	broad.mit.edu	37	chr10	49457097	49457097	+	Silent	SNP	T	C	C	0	1	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	ggctgctcatcctcactctgTccctgtagcagttcaggggc	5	11	11	14	0	4	0	3	0	1	0	6	0	6	0	2	3	2	5	2	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:49457097T>C	uc001jgi.2	-	3	383	c.276A>G	c.(274-276)GGA>GGG	p.G92G	FRMPD2_uc001jgh.2_Silent_p.G83G|FRMPD2_uc001jgj.2_Silent_p.G92G	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	92	KIND.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		CCTCACTCTGTCCCTGTAGCA	0.562													7	56					0	0	0.001984	0	0		C	49457097	C	C	49457097	2	2	212	1	0	0	0	0	0	0	0	1	6072	1654	58	3		3	FRMPD2	10	49457097	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	4026544	49457097	86077650	814	104619											
ERCC6	2074	broad.mit.edu	37	chr10	50680490	50680490	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acagtcacttgcttcttctgGcctattctccatgctcgctc	5	15	6	15	1	4	0	1	0	3	0	7	0	4	0	2	1	2	3	2	1	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:50680490G>A	uc001jhs.3	-	16	3010	c.2856C>T	c.(2854-2856)GGC>GGT	p.G952G	ERCC6_uc009xod.2_Silent_p.G112G|ERCC6_uc010qgr.1_Silent_p.G322G|ERCC6_uc001jhr.3_Silent_p.G320G	NM_000124	NP_000115	Q03468	ERCC6_HUMAN	excision repair cross-complementing rodent	952	Helicase C-terminal.				base-excision repair|positive regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair	nucleolus|soluble fraction|transcription elongation factor complex	ATP binding|chromatin binding|DNA binding|DNA-dependent ATPase activity|helicase activity|protein C-terminus binding|protein complex binding|protein N-terminus binding			lung(5)|breast(5)|ovary(3)|large_intestine(2)|skin(1)	16						GCTTCTTCTGGCCTATTCTCC	0.522								Direct_reversal_of_damage|NER					33	144					0	0	0.003271	0	0		A	50680490	A	A	50680490	2	1	212	1	0	0	0	0	0	0	0	1	5225	1190	42	2		2	ERCC6	10	50680490	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1223393	50680490	84854257	815	104620											
OGDHL	55753	broad.mit.edu	37	chr10	50959951	50959951	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcacaccaggggtctcaaacTtctgccggatccactggcac	9	8	9	15	1	3	0	2	0	2	0	5	1	4	1	3	4	2	1	3	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:50959951T>C	uc001jie.2	-	6	813	c.671A>G	c.(670-672)AAG>AGG	p.K224R	OGDHL_uc009xog.2_Missense_Mutation_p.K251R|OGDHL_uc010qgt.1_Missense_Mutation_p.K167R|OGDHL_uc010qgu.1_Missense_Mutation_p.K15R|OGDHL_uc009xoh.2_Missense_Mutation_p.K15R	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	224					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GGTCTCAAACTTCTGCCGGAT	0.597													70	209					0	0	0.01441	0	0		C	50959951	C	C	50959951	3	2	212	1	0	0	0	0	1	0	0	0	10859	1609	56	3	2433	3	OGDHL	10	50959951	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	279461	50959951	84574796	816	104621											
NCOA4	8031	broad.mit.edu	37	chr10	51585083	51585083	+	Silent	SNP	T	C	C	0	1	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	gattggcttgtccagaaccaTcaggacccatgtaaggtaga	12	9	11	9	0	1	2	1	0	0	2	2	4	2	3	3	3	1	3	3	3	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:51585083T>C	uc001jis.3	+	8	1385	c.1182T>C	c.(1180-1182)CAT>CAC	p.H394H	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_Silent_p.H410H|NCOA4_uc010qhd.1_Silent_p.H410H|NCOA4_uc010qhe.1_Silent_p.H294H|NCOA4_uc010qhf.1_Silent_p.H228H|NCOA4_uc001jit.2_Silent_p.H394H|NCOA4_uc009xoo.2_Silent_p.H394H	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	394					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						TCCAGAACCATCAGGACCCAT	0.512			T	RET	papillary thyroid 								14	58					0	0	0.00499	0	0		C	51585083	C	C	51585083	2	2	212	1	0	0	0	0	0	0	0	1	10250	1432	50	3		3	NCOA4	10	51585083	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	625132	51585083	83949664	817	104622											
ANK3	288	broad.mit.edu	37	chr10	61831897	61831897	+	Silent	SNP	T	G	G	0	1	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	acagtcatttctttaatttcTgagagagagccgtttgttaa	11	16	8	6	1	3	2	1	1	2	2	3	4	3	2	1	0	1	2	1	0	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:61831897T>G	uc001jky.2	-	37	8934	c.8742A>C	c.(8740-8742)TCA>TCC	p.S2914S	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2914					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						CTTTAATTTCTGAGAGAGAGC	0.388													10	49					0	0	0.008291	0	0		G	61831897	G	G	61831897	2	3	212	1	0	0	0	0	0	0	0	1	622	1567	55	5		5	ANK3	10	61831897	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	10246814	61831897	73702850	818	104623											
DNAJC12	56521	broad.mit.edu	37	chr10	69571347	69571347	+	Missense_Mutation	SNP	A	C	C	1	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	cgacatctggctccttcgccAgtggtcatagcgggctcgac	6	9	12	14	4	2	0	1	0	1	0	5	2	3	0	2	3	1	2	2	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:69571347A>C	uc001jnb.2	-	3	400	c.232T>G	c.(232-234)TGG>GGG	p.W78G	DNAJC12_uc001jnc.2_Missense_Mutation_p.W78G	NM_021800	NP_068572	Q9UKB3	DJC12_HUMAN	J domain containing protein 1 isoform a	78	J.				protein folding		heat shock protein binding|unfolded protein binding			breast(1)	1						CTCCTTCGCCAGTGGTCATAG	0.493													33	170					0	0	0.012213	0	0		C	69571347	C	C	69571347	3	2	212	1	0	0	0	0	1	0	0	0	4637	188	7	5	403	5	DNAJC12	10	69571347	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	7739450	69571347	65963400	819	104624											
PPA1	5464	broad.mit.edu	37	chr10	71977579	71977579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	aagacatacctgagggatggCaccatagttccagatatatc	14	9	9	9	0	0	3	0	1	0	2	2	4	1	4	3	2	1	2	3	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:71977579C>T	uc001jqv.1	-	4	393	c.286G>A	c.(286-288)GCC>ACC	p.A96T		NM_021129	NP_066952	Q15181	IPYR_HUMAN	pyrophosphatase 1	96				AI -> TL (in Ref. 10; CAA88494).	diphosphate metabolic process|tRNA aminoacylation for protein translation	cytosol	inorganic diphosphatase activity|magnesium ion binding			breast(1)	1						TGAGGGATGGCACCATAGTTC	0.343													13	79					0	0	0.004007	0	0		T	71977579	T	T	71977579	3	4	212	1	0	0	0	0	1	0	0	0	12305	710	25	2	615	2	PPA1	10	71977579	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2406232	71977579	63557168	820	104625											
UNC5B	219699	broad.mit.edu	37	chr10	73047482	73047482	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggaggggccttctgcgagggCcaggcattccagaagaccgc	8	5	16	12	2	1	2	0	0	1	2	2	4	2	3	4	5	1	1	4	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:73047482C>T	uc001jro.2	+	6	1306	c.861C>T	c.(859-861)GGC>GGT	p.G287G	UNC5B_uc001jrp.2_Silent_p.G287G	NM_170744	NP_734465	Q8IZJ1	UNC5B_HUMAN	unc-5 homolog B precursor	287	TSP type-1 1.|Extracellular (Potential).				apoptosis|axon guidance|regulation of apoptosis	integral to membrane				ovary(2)|lung(1)	3						TCTGCGAGGGCCAGGCATTCC	0.647													17	72					0	0	0.014323	0	0		T	73047482	T	T	73047482	2	4	212	1	0	0	0	0	0	0	0	1	17018	726	26	2		2	UNC5B	10	73047482	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1069903	73047482	62487265	821	104626											
CDH23	64072	broad.mit.edu	37	chr10	73464675	73464675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tccttgccctcaggtggtggCcatcgacctcgatgagggcc	5	9	13	14	2	1	1	1	1	0	0	4	3	2	1	5	4	1	0	5	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:73464675C>T	uc001jrx.3	+	24	3118	c.2741C>T	c.(2740-2742)GCC>GTC	p.A914V	CDH23_uc001jry.2_Missense_Mutation_p.A530V|CDH23_uc001jrz.2_Missense_Mutation_p.A530V	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	914	Cadherin 9.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						CAGGTGGTGGCCATCGACCTC	0.652													13	100					0	0	0.013537	0	0		T	73464675	T	T	73464675	3	4	212	1	0	0	0	0	1	0	0	0	3111	739	26	2	3062	2	CDH23	10	73464675	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	417193	73464675	62070072	822	104627											
CDH23	64072	broad.mit.edu	37	chr10	73491898	73491898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggccactgaccaggccccGcccttcaaccagggcttctg	6	7	10	18	2	2	1	1	1	1	0	3	1	2	1	6	3	1	1	6	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:73491898G>A	uc001jrx.3	+	31	4247	c.3870G>A	c.(3868-3870)CCG>CCA	p.P1290P	CDH23_uc001jrz.2_Silent_p.P906P|C10orf105_uc001jsb.1_Intron|CDH23_uc001jsc.1_Silent_p.P98P	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	1290	Cadherin 12.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						ACCAGGCCCCGCCCTTCAACC	0.562													7	48					0	0	0.00308	0	0		A	73491898	A	A	73491898	2	1	212	1	0	0	0	0	0	0	0	1	3111	1074	38	1		1	CDH23	10	73491898	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	27223	73491898	62042849	823	104628											
PSAP	5660	broad.mit.edu	37	chr10	73588831	73588831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agagcacacctccccaggacGgctctggtgggatggaaaga	11	5	14	11	1	1	2	0	0	1	2	2	5	2	5	3	5	1	2	3	5	1	0	rs148519599		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:73588831G>A	uc001jsm.2	-	5	483	c.379C>T	c.(379-381)CGT>TGT	p.R127C		NM_002778	NP_002769	P07602	SAP_HUMAN	prosaposin isoform a preproprotein	127	Saposin B-type 1.				glycosphingolipid metabolic process|lipid transport|platelet activation|platelet degranulation	extracellular space|Golgi apparatus|integral to membrane|lysosomal lumen	enzyme activator activity|lipid binding			ovary(1)	1						TCCCCAGGACGGCTCTGGTGG	0.522													8	88					0	0	0.00308	0	0		A	73588831	A	A	73588831	3	1	212	1	0	0	0	0	1	0	0	0	12665	1116	39	1	1251	1	PSAP	10	73588831	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	96933	73588831	61945916	824	104629											
ZMYND17	118490	broad.mit.edu	37	chr10	75188039	75188039	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcgtcgccgggaccgtggagCcatggcctgtccagtgatac	6	8	14	13	4	0	1	0	1	0	0	3	3	1	3	5	3	2	0	5	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:75188039C>T	uc001jud.2	-	2	70	c.4G>A	c.(4-6)GCT>ACT	p.A2T	ZMYND17_uc001juc.2_Missense_Mutation_p.A2T|ZMYND17_uc009xrh.2_Missense_Mutation_p.A25T|ZMYND17_uc009xrg.2_5'UTR	NM_001024593	NP_001019764	Q4VC12	ZMY17_HUMAN	zinc finger, MYND domain containing 17	2							zinc ion binding			ovary(1)	1	Prostate(51;0.0119)					GACCGTGGAGCCATGGCCTGT	0.507													12	63					0	0	0.001855	0	0		T	75188039	T	T	75188039	3	4	212	1	0	0	0	0	1	0	0	0	17734	739	26	2	1402	2	ZMYND17	10	75188039	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1599208	75188039	60346708	825	104630											
PPP3CB	5532	broad.mit.edu	37	chr10	75234731	75234731	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	tctgcattcatggttgcctcTcagaagaaataatgtgcttg	10	14	9	8	0	3	2	2	0	2	2	4	2	3	2	1	1	3	3	1	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:75234731T>A	uc001jue.2	-	4	604	c.469A>T	c.(469-471)AGA>TGA	p.R157*	PPP3CB_uc001juf.2_Nonsense_Mutation_p.R157*|PPP3CB_uc001jug.2_Nonsense_Mutation_p.R157*|PPP3CB_uc001jui.2_Nonsense_Mutation_p.R175*|PPP3CB_uc001juh.2_Nonsense_Mutation_p.R71*	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	157	Catalytic.									skin(1)	1	Prostate(51;0.0119)					TGGTTGCCTCTCAGAAGAAAT	0.338													29	72					0	0	0.013726	0	0		A	75234731	A	A	75234731	4	1	212	1	0	0	0	0	0	1	0	0	12420	1559	54	5	1152	5	PPP3CB	10	75234731	Nonsense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	46692	75234731	60300016	826	104631											
SYNPO2L	79933	broad.mit.edu	37	chr10	75408049	75408049	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctggggtcggggctccaCcacctggttggaagggtctg	5	8	18	10	1	1	0	0	0	1	0	3	2	2	1	3	7	1	3	3	7	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:75408049C>G	uc001jut.3	-	4	1513	c.1361G>C	c.(1360-1362)GGT>GCT	p.G454A	SYNPO2L_uc001jus.3_Missense_Mutation_p.G230A	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	454	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					CGGGGCTCCACCACCTGGTTG	0.657													4	34					0	0	0.009096	0	0		G	75408049	G	G	75408049	3	3	212	1	0	0	0	0	1	0	0	0	15483	507	18	5	1576	5	SYNPO2L	10	75408049	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	173318	75408049	60126698	827	104632											
SEC24C	9632	broad.mit.edu	37	chr10	75525936	75525936	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgttaggctcctctgtgaGgagctcaagtcactgttaga	8	13	11	9	0	3	2	2	1	1	1	4	3	4	3	1	2	1	4	1	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:75525936G>T	uc001juw.2	+	12	1754	c.1575G>T	c.(1573-1575)GAG>GAT	p.E525D	SEC24C_uc010qkn.1_Intron|SEC24C_uc009xrj.1_Missense_Mutation_p.E383D|SEC24C_uc001jux.2_Missense_Mutation_p.E525D|SEC24C_uc010qko.1_Missense_Mutation_p.E406D|SEC24C_uc010qkp.1_Intron|SEC24C_uc010qkq.1_Intron	NM_004922	NP_004913	P53992	SC24C_HUMAN	SEC24-related protein C	525					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|zinc ion binding			skin(2)|central_nervous_system(1)	3	Prostate(51;0.0112)					TCCTCTGTGAGGAGCTCAAGT	0.468													28	122					1.77063e-15	2.01168e-15	0.005443	1	0		T	75525936	T	T	75525936	3	4	212	1	0	0	0	0	1	0	0	0	14021	991	35	5	1613	5	SEC24C	10	75525936	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	117887	75525936	60008811	828	104633											
MYST4	23522	broad.mit.edu	37	chr10	76789444	76789444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caacagcccaagtgtccctgCtctggaaaacagctacgccc	11	6	8	16	1	1	0	0	0	1	0	2	1	2	1	3	1	6	2	3	1	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:76789444C>T	uc001jwn.1	+	18	5355	c.4862C>T	c.(4861-4863)GCT>GTT	p.A1621V	MYST4_uc001jwo.1_Missense_Mutation_p.A1329V|MYST4_uc001jwp.1_Missense_Mutation_p.A1438V	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1621	Ser-rich.|Interaction with RUNX1 and RUNX2.				histone H3 acetylation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					AGTGTCCCTGCTCTGGAAAAC	0.542			T	CREBBP	AML								20	125					0	0	0.014323	0	0		T	76789444	T	T	76789444	3	4	212	1	0	0	0	0	1	0	0	0	10123	797	28	2	4924	2	MYST4	10	76789444	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1263508	76789444	58745303	829	104634											
KCNMA1	3778	broad.mit.edu	37	chr10	78944607	78944607	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccgaagtagagaaggaagaAcacgttgaaagccatgtcga	16	5	13	7	3	0	3	0	1	0	2	1	7	0	4	2	1	2	2	2	1	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:78944607A>C	uc001jxn.2	-	4	847	c.670T>G	c.(670-672)TTC>GTC	p.F224V	KCNMA1_uc001jxj.2_Missense_Mutation_p.F224V|KCNMA1_uc001jxk.1_5'Flank|KCNMA1_uc009xrt.1_Missense_Mutation_p.F44V|KCNMA1_uc001jxo.2_Missense_Mutation_p.F224V|KCNMA1_uc001jxm.2_Missense_Mutation_p.F224V|KCNMA1_uc001jxq.2_Missense_Mutation_p.F224V	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	224	Helical; Name=Segment S2; (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	AGAAGGAAGAACACGTTGAAA	0.448													32	135					0	0	0.003755	0	0		C	78944607	C	C	78944607	3	2	212	1	0	0	0	0	1	0	0	0	8089	43	2	5	3312	5	KCNMA1	10	78944607	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2155163	78944607	56590140	830	104635											
RPS24	6229	broad.mit.edu	37	chr10	79795119	79795119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tatgttttcagaacgacaccGtaactatccgcactagaaag	14	10	7	10	3	1	2	1	0	0	2	2	3	2	2	2	0	2	3	2	0	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:79795119G>A	uc001jzq.2	+	2	155	c.13G>A	c.(13-15)GTA>ATA	p.V5I	RPS24_uc001jzo.2_Missense_Mutation_p.V5I|RPS24_uc010qlo.1_Missense_Mutation_p.V5I|RPS24_uc001jzp.2_Missense_Mutation_p.V5I|RPS24_uc001jzs.2_Missense_Mutation_p.V5I|RPS24_uc001jzt.2_RNA	NM_001026	NP_001017	P62847	RS24_HUMAN	ribosomal protein S24 isoform c	5					endocrine pancreas development|erythrocyte homeostasis|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	nucleotide binding|structural constituent of ribosome|translation initiation factor binding			skin(1)	1	all_cancers(46;0.0343)|all_epithelial(25;0.000959)|Breast(12;0.00113)|Prostate(51;0.0095)		Epithelial(14;0.00128)|OV - Ovarian serous cystadenocarcinoma(4;0.00248)|all cancers(16;0.00428)			GAACGACACCGTAACTATCCG	0.398													30	111					0	0	0.012213	0	0		A	79795119	A	A	79795119	3	1	212	1	0	0	0	0	1	0	0	0	13660	1145	40	1	19	1	RPS24	10	79795119	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	850512	79795119	55739628	831	104636											
ZMIZ1	57178	broad.mit.edu	37	chr10	81061949	81061949	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	caagaagcgcctcctgcccgCagagcactgtatcacgaaaa	13	5	9	14	3	1	2	1	0	0	2	2	3	2	2	3	0	3	3	3	0	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:81061949C>T	uc001kaf.2	+	18	2677	c.2105C>T	c.(2104-2106)GCA>GTA	p.A702V	ZMIZ1_uc001kag.2_Missense_Mutation_p.A578V	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	702					transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			CTCCTGCCCGCAGAGCACTGT	0.627													38	144					0	0	0.006999	0	0		T	81061949	T	T	81061949	3	4	212	1	0	0	0	0	1	0	0	0	17721	710	25	2	2159	2	ZMIZ1	10	81061949	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1266830	81061949	54472798	832	104637											
LRIT1	26103	broad.mit.edu	37	chr10	86001144	86001144	+	Frame_Shift_Del	DEL	G	-	-																															ggggcagaagccccgggcctGggggggccacgcaagggcca																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:86001144delG	uc001kcz.1	-	1	74	c.52delC	c.(52-54)CAGfs	p.Q18fs		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	18						integral to endoplasmic reticulum membrane					0						CCCCGGGCCTGGGGGGGCCAC	0.672													7	13	---	---	---	---						.	-	86001144	-	-	86001144	7	5	212	1	0	1	0	1	0	0	0	0	8965	1357	47	0	1835	0	LRIT1	10	86001144	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	4939195	86001144	49533603	833	104638											
MMRN2	79812	broad.mit.edu	37	chr10	88702426	88702426	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgacattcttgacgtcgttGctcaggctctggagctcccg	5	11	11	14	4	3	1	1	1	2	0	5	3	4	2	2	2	2	4	2	2	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:88702426G>A	uc001kea.2	-	6	2242	c.2115C>T	c.(2113-2115)AGC>AGT	p.S705S	MMRN2_uc010qmn.1_Silent_p.S348S|MMRN2_uc009xtb.2_Silent_p.S662S	NM_024756	NP_079032	Q9H8L6	MMRN2_HUMAN	multimerin 2 precursor	705	Potential.					extracellular space				large_intestine(1)	1						TGACGTCGTTGCTCAGGCTCT	0.751													6	14					0	0	0.001984	0	0		A	88702426	A	A	88702426	2	1	212	1	0	0	0	0	0	0	0	1	9689	1310	46	2		2	MMRN2	10	88702426	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2701282	88702426	46832321	834	104639											
AGAP11	119385	broad.mit.edu	37	chr10	88769344	88769344	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctttctggccccactaccCtgcactgagctgtccctggg	4	11	9	17	0	2	1	0	1	2	0	3	1	3	1	4	2	3	2	4	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:88769344C>A	uc001kee.2	+	12	2539	c.1335C>A	c.(1333-1335)CCC>CCA	p.P445P	AGAP11_uc001kef.2_Intron	NM_133447	NP_597704	Q8TF27	AGA11_HUMAN	ankyrin repeat and GTPase domain Arf GTPase	445	Arf-GAP.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						CCCCACTACCCTGCACTGAGC	0.607													64	85					2.59843e-28	3.04838e-28	0.01441	1	0		A	88769344	A	A	88769344	2	1	212	1	0	0	0	0	0	0	0	1	367	668	24	5		5	AGAP11	10	88769344	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	66918	88769344	46765403	835	104640											
TNKS2	80351	broad.mit.edu	37	chr10	93579297	93579297	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattaaatgtcaactgccacGcaagtgatggcagaaaggta	15	8	10	8	1	1	2	1	1	0	1	1	2	1	2	1	2	2	3	1	2	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:93579297G>A	uc001khp.2	+	5	913	c.616G>A	c.(616-618)GCA>ACA	p.A206T		NM_025235	NP_079511	Q9H2K2	TNKS2_HUMAN	tankyrase, TRF1-interacting ankyrin-related	206					positive regulation of canonical Wnt receptor signaling pathway|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein polyubiquitination|Wnt receptor signaling pathway	Golgi membrane|microsome|nuclear envelope|pericentriolar material|perinuclear region of cytoplasm	NAD+ ADP-ribosyltransferase activity|protein binding			kidney(3)|skin(3)|ovary(1)|lung(1)	8		Colorectal(252;0.162)				CAACTGCCACGCAAGTGATGG	0.348													26	58					0	0	0.012213	0	0		A	93579297	A	A	93579297	3	1	212	1	0	0	0	0	1	0	0	0	16346	1087	38	1	634	1	TNKS2	10	93579297	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4809953	93579297	41955450	836	104641											
TBC1D12	23232	broad.mit.edu	37	chr10	96291116	96291116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agatggactttattcatataGcacagtttctaactaaattg	14	15	6	6	0	2	1	1	0	1	1	2	2	2	2	0	1	2	2	0	1	6	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:96291116G>A	uc001kjr.2	+	12	2343	c.2158G>A	c.(2158-2160)GCA>ACA	p.A720T		NM_015188	NP_056003	O60347	TBC12_HUMAN	TBC1 domain family, member 12	720						intracellular	Rab GTPase activator activity				0		Colorectal(252;0.0429)				TATTCATATAGCACAGTTTCT	0.368													24	41					0	0	0.00278	0	0		A	96291116	A	A	96291116	3	1	212	1	0	0	0	0	1	0	0	0	15626	971	34	2	2204	2	TBC1D12	10	96291116	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2711819	96291116	39243631	837	104642											
ENTPD1	953	broad.mit.edu	37	chr10	97605234	97605234	+	Missense_Mutation	SNP	T	A	A	0	1	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	cccaaaaccagactatcgagTccccagataatgctctgcaa	14	7	6	14	1	1	2	0	0	1	2	3	3	2	2	4	0	3	2	4	0	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:97605234T>A	uc001klh.3	+	6	1018	c.694T>A	c.(694-696)TCC>ACC	p.S232T	ENTPD1_uc001kle.1_Missense_Mutation_p.S239T|ENTPD1_uc001kli.3_Missense_Mutation_p.S239T|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.S244T|ENTPD1_uc010qok.1_Missense_Mutation_p.S124T|ENTPD1_uc010qol.1_Missense_Mutation_p.S124T|ENTPD1_uc010qom.1_Missense_Mutation_p.S232T|ENTPD1_uc010qon.1_Missense_Mutation_p.S94T|ENTPD1_uc009xva.2_Missense_Mutation_p.S94T|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	232	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		GACTATCGAGTCCCCAGATAA	0.468													44	85					0	0	0.013114	0	0		A	97605234	A	A	97605234	3	1	212	1	0	0	0	0	1	0	0	0	5146	1667	58	5	813	5	ENTPD1	10	97605234	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1314118	97605234	37929513	838	104643											
COX15	1355	broad.mit.edu	37	chr10	101489441	101489441	+	Silent	SNP	A	G	G	1	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	ccagattgcaaagctacttcAgagatggtgctgtattgccc	10	11	10	10	0	1	2	1	0	0	2	1	3	1	2	2	1	5	4	2	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:101489441A>G	uc001kqb.3	-	2	758	c.141T>C	c.(139-141)TCT>TCC	p.S47S	COX15_uc001kqc.3_Silent_p.S47S|COX15_uc010qpj.1_5'UTR|CUTC_uc010qpk.1_5'Flank|CUTC_uc001kqd.3_5'Flank|CUTC_uc001kqe.3_5'Flank	NM_078470	NP_510870	Q7KZN9	COX15_HUMAN	COX15 homolog isoform 1	47					heme a biosynthetic process|respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial respiratory chain	cytochrome-c oxidase activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;3.08e-10)|all cancers(201;2.43e-08)		AAGCTACTTCAGAGATGGTGC	0.532													11	62					0	0	0.010729	0	0		G	101489441	G	G	101489441	2	3	212	1	0	0	0	0	0	0	0	1	3767	175	7	3		3	COX15	10	101489441	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3884207	101489441	34045306	839	104644											
SCD	6319	broad.mit.edu	37	chr10	102107859	102107859	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	accaccaccaccattacagcGcctccctccagggtcctgca	9	6	6	20	1	0	0	0	0	0	0	3	0	3	0	8	1	3	1	8	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:102107859G>A	uc001kqy.2	+	2	556	c.66G>A	c.(64-66)GCG>GCA	p.A22A		NM_005063	NP_005054	O00767	ACOD_HUMAN	stearoyl-CoA desaturase 1	22	Cytoplasmic (Potential).				fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	iron ion binding|stearoyl-CoA 9-desaturase activity				0		Colorectal(252;0.0323)		Epithelial(162;1.97e-10)|all cancers(201;1.73e-08)		CCATTACAGCGCCTCCCTCCA	0.532													31	60					0	0	0.004289	0	0		A	102107859	A	A	102107859	2	1	212	1	0	0	0	0	0	0	0	1	13911	1074	38	1		1	SCD	10	102107859	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	618418	102107859	33426888	840	104645											
SEC31B	25956	broad.mit.edu	37	chr10	102255279	102255279	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accttgagcatgaaaaagccGatctcttagctgctgaactg	12	10	9	10	1	1	3	0	3	1	0	2	4	1	3	2	0	5	3	2	0	4	2	rs148539684	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:102255279G>A	uc001krc.1	-	19	2437	c.2335C>T	c.(2335-2337)CGG>TGG	p.R779W	SEC31B_uc010qpo.1_Missense_Mutation_p.R778W|SEC31B_uc001krd.1_Missense_Mutation_p.R316W|SEC31B_uc001krf.1_Missense_Mutation_p.R316W|SEC31B_uc001kre.1_Missense_Mutation_p.R316W|SEC31B_uc001krg.1_Missense_Mutation_p.R348W	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	779					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		TGAAAAAGCCGATCTCTTAGC	0.483													8	11					0	0	0.004482	0	0		A	102255279	A	A	102255279	3	1	212	1	0	0	0	0	1	0	0	0	14024	1057	37	1	1236	1	SEC31B	10	102255279	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	147420	102255279	33279468	841	104646											
TLX1	3195	broad.mit.edu	37	chr10	102893954	102893954	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccctatcagaaccggacGccccccaagaagaagaagcc	14	2	8	17	2	1	4	1	0	0	4	1	5	1	5	7	1	2	0	7	1	6	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:102893954G>A	uc001ksw.2	+	2	829	c.591G>A	c.(589-591)ACG>ACA	p.T197T		NM_005521	NP_005512	P31314	TLX1_HUMAN	T-cell leukemia homeobox 1	197						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1				Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		AGAACCGGACGCCCCCCAAGA	0.627			T	TRB@|TRD@	T-ALL								7	7					0	0	0.00308	0	0		A	102893954	A	A	102893954	2	1	212	1	0	0	0	0	0	0	0	1	15984	1074	38	1		1	TLX1	10	102893954	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	638675	102893954	32640793	842	104647											
PSD	5662	broad.mit.edu	37	chr10	104174959	104174959	+	Frame_Shift_Del	DEL	G	-	-																															agcccaccccaggtggagatGggggggcctgctctgggggc																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:104174959delG	uc001kvg.1	-	4	1312	c.785delC	c.(784-786)CCAfs	p.P262fs	PSD_uc001kvh.1_5'UTR|PSD_uc009xxd.1_Frame_Shift_Del_p.P262fs	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	262					regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		AGGTGGAGATGGGGGGGCCTG	0.627													22	42	---	---	---	---						.	-	104174959	-	-	104174959	7	5	212	1	0	1	0	1	0	0	0	0	12668	1348	47	0	2345	0	PSD	10	104174959	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	1281005	104174959	31359788	843	104648											
TRIM8	81603	broad.mit.edu	37	chr10	104415048	104415048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagctgctctttgataagaCggaggatgtcagcttcatga	10	11	12	8	1	3	3	2	2	1	1	3	5	3	5	0	2	3	4	0	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:104415048C>T	uc001kvz.2	+	3	1001	c.878C>T	c.(877-879)ACG>ATG	p.T293M		NM_030912	NP_112174	Q9BZR9	TRIM8_HUMAN	tripartite motif-containing 8	293						cytoplasm|PML body	ligase activity|protein homodimerization activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;3.93e-09)|all cancers(201;1.02e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		TTTGATAAGACGGAGGATGTC	0.597													24	18					0	0	0.00278	0	0		T	104415048	T	T	104415048	3	4	212	1	0	0	0	0	1	0	0	0	16574	536	19	1	888	1	TRIM8	10	104415048	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	240089	104415048	31119699	844	104649											
MXI1	4601	broad.mit.edu	37	chr10	111967674	111967674	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggccgcgccccagcccccGgccctgcccgaggaccccgc	3	2	13	23	5	0	0	0	0	0	0	0	2	0	1	9	3	2	0	9	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:111967674G>A	uc001kyy.2	+	1	312	c.108G>A	c.(106-108)CCG>CCA	p.P36P	MXI1_uc001kyz.2_5'Flank	NM_130439	NP_569157	P50539	MXI1_HUMAN	MAX interactor 1 isoform b	48					cytoplasmic sequestering of transcription factor|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription corepressor activity				0		Breast(234;0.052)|Lung NSC(174;0.223)		Epithelial(162;1.33e-05)|all cancers(201;0.000277)|BRCA - Breast invasive adenocarcinoma(275;0.127)		cccagcccccggccctgcccG	0.448													4	9					0	0	0.009096	0	0		A	111967674	A	A	111967674	2	1	212	1	0	0	0	0	0	0	0	1	10020	1103	39	1		1	MXI1	10	111967674	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	7552626	111967674	23567073	845	104650											
ABLIM1	3983	broad.mit.edu	37	chr10	116444084	116444084	+	Missense_Mutation	SNP	A	C	C	1	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	tggtgtgatgagggtccgtgAgctcagtcatttccaaggtc	7	12	14	8	1	2	3	2	3	0	0	5	3	4	3	2	3	1	1	2	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:116444084A>C	uc010qsh.1	-	1	331	c.29T>G	c.(28-30)CTC>CGC	p.L10R	ABLIM1_uc010qsi.1_Missense_Mutation_p.L10R|ABLIM1_uc009xyp.2_Missense_Mutation_p.L4R|ABLIM1_uc001lbz.1_Intron	NM_001003408	NP_001003408	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform c	Error:Variant_position_missing_in_O14639_after_alignment					axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		AGGGTCCGTGAGCTCAGTCAT	0.463													27	42					0	0	0.009535	0	0		C	116444084	C	C	116444084	3	2	212	1	0	0	0	0	1	0	0	0	94	304	11	5	2551	5	ABLIM1	10	116444084	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4476410	116444084	19090663	846	104651											
PNLIPRP2	5408	broad.mit.edu	37	chr10	118385521	118385521	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaactggaccgcaagacacGcttcatcatccatggcttct	10	9	7	15	2	3	1	2	0	1	1	4	2	4	2	3	2	1	3	3	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:118385521G>A	uc001lcq.2	+	6	295	c.272G>A	c.(271-273)CGC>CAC	p.R91H	PNLIPRP2_uc009xyu.1_RNA|PNLIPRP2_uc009xyv.1_RNA	NM_005396	NP_005387	P54317	LIPR2_HUMAN	pancreatic lipase-related protein 2	90					galactolipid catabolic process|lipid digestion|phospholipid catabolic process|triglyceride metabolic process	extracellular space	acylglycerol lipase activity|calcium ion binding|galactolipase activity|phospholipase activity|triglyceride lipase activity			large_intestine(1)	1				all cancers(201;0.015)		CGCAAGACACGCTTCATCATC	0.502													12	14					0	0	0.004007	0	0		A	118385521	A	A	118385521	3	1	212	1	0	0	0	0	1	0	0	0	12170	1087	38	1	285	1	PNLIPRP2	10	118385521	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1941437	118385521	17149226	847	104652											
HSPA12A	259217	broad.mit.edu	37	chr10	118434729	118434729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaggtgagcggcgaccggcGcaccttgatgaccgcggggt	6	6	18	11	6	0	3	0	3	0	0	0	4	0	3	3	5	1	2	3	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:118434729G>A	uc001lct.2	-	12	1696	c.1591C>T	c.(1591-1593)CGC>TGC	p.R531C	HSPA12A_uc001lcu.2_Missense_Mutation_p.R448C	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	531							ATP binding			ovary(1)	1				all cancers(201;0.0158)		GGCGACCGGCGCACCTTGATG	0.652													10	27					0	0	0.008291	0	0		A	118434729	A	A	118434729	3	1	212	1	0	0	0	0	1	0	0	0	7420	1087	38	1	440	1	HSPA12A	10	118434729	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	49208	118434729	17100018	848	104653											
PDZD8	118987	broad.mit.edu	37	chr10	119042898	119042898	+	Frame_Shift_Del	DEL	T	-	-																															atcatctgtgtacttgcttaTttttttggagtgctggtcta																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:119042898delT	uc001lde.1	-	5	3545	c.3346delA	c.(3346-3348)ATAfs	p.I1116fs		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	1116					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		TACTTGCTTATTTTTTTGGAG	0.368													14	29	---	---	---	---						.	-	119042898	-	-	119042898	7	5	212	1	0	1	0	1	0	0	0	0	11724	1493	52	0	122	0	PDZD8	10	119042898	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	608169	119042898	16491849	849	104654											
C10orf120	399814	broad.mit.edu	37	chr10	124457714	124457714	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ctttcaatgtagggtaaaggCtgatgatttcccagagcccg	10	11	11	9	1	1	3	1	2	0	1	2	3	2	3	2	2	1	3	2	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:124457714C>A	uc001lgn.2	-	3	575	c.543G>T	c.(541-543)CAG>CAT	p.Q181H		NM_001010912	NP_001010912	Q5SQS8	CJ120_HUMAN	hypothetical protein LOC399814	181										kidney(1)	1		all_neural(114;0.169)|Glioma(114;0.222)				AGGGTAAAGGCTGATGATTTC	0.502													30	48					1.7881e-09	1.93456e-09	0.008361	1	0		A	124457714	A	A	124457714	3	1	212	1	0	0	0	0	1	0	0	0	1593	796	28	5	468	5	C10orf120	10	124457714	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5414816	124457714	11077033	850	104655											
IKZF5	64376	broad.mit.edu	37	chr10	124754218	124754218	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagatgcaaatggacaaagaTgacatcgatgaggtttttca	15	10	10	6	1	1	4	1	2	0	2	2	6	1	5	0	2	1	2	0	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:124754218T>C	uc001lha.2	-	5	637	c.338A>G	c.(337-339)CAT>CGT	p.H113R	IKZF5_uc001lgz.2_5'Flank	NM_022466	NP_071911	Q9H5V7	IKZF5_HUMAN	zinc finger protein, subfamily 1A, 5	113	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_neural(114;0.169)|Colorectal(57;0.178)|Glioma(114;0.222)		Colorectal(40;0.0701)|COAD - Colon adenocarcinoma(40;0.0754)		TGGACAAAGATGACATCGATG	0.383													6	74					0	0	0.001984	0	0		C	124754218	C	C	124754218	3	2	212	1	0	0	0	0	1	0	0	0	7634	1464	51	3	925	3	IKZF5	10	124754218	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	296504	124754218	10780529	851	104656											
ACADSB	36	broad.mit.edu	37	chr10	124800748	124800748	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaagtttctgcctttcagaGgctggagcaggtagtgactc	8	11	14	8	0	2	2	1	1	1	1	3	4	2	4	1	4	2	4	1	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:124800748G>T	uc001lhb.2	+	5	651	c.534G>T	c.(532-534)GAG>GAT	p.E178D	ACADSB_uc010qub.1_Missense_Mutation_p.E76D	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	178	FAD.				branched chain family amino acid catabolic process|fatty acid metabolic process	mitochondrial matrix	flavin adenine dinucleotide binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)	GCCTTTCAGAGGCTGGAGCAG	0.378													24	63					7.76418e-22	9.02218e-22	0.005443	1	0		T	124800748	T	T	124800748	3	4	212	1	0	0	0	0	1	0	0	0	115	991	35	5	552	5	ACADSB	10	124800748	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	46530	124800748	10733999	852	104657											
ZRANB1	54764	broad.mit.edu	37	chr10	126671767	126671767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagcaagcttggagcagacGcacatttttgtactggcaca	11	9	12	9	1	0	1	0	0	0	1	0	3	0	3	0	3	4	6	0	3	2	4	rs75293113	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:126671767G>A	uc001lic.2	+	7	1943	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	ZRANB1_uc010qug.1_Silent_p.T550T	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	524	OTU.|TRAF-binding.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		TGGAGCAGACGCACATTTTTG	0.363													29	57					0	0	0.012213	0	0		A	126671767	A	A	126671767	2	1	212	1	0	0	0	0	0	0	0	1	18247	1074	38	1		1	ZRANB1	10	126671767	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1871019	126671767	8862980	853	104658											
DPYSL4	10570	broad.mit.edu	37	chr10	134010562	134010562	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	catcatccgggacctgggggCcttggcccaggtgcacgctg	5	7	15	14	2	1	0	1	0	0	0	2	1	2	1	4	5	1	2	4	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:134010562C>T	uc009ybb.2	+	6	732	c.578C>T	c.(577-579)GCC>GTC	p.A193V		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	193					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		GACCTGGGGGCCTTGGCCCAG	0.692													4	4					0	0	0.009096	0	0		T	134010562	T	T	134010562	3	4	212	1	0	0	0	0	1	0	0	0	4755	739	26	2	600	2	DPYSL4	10	134010562	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7338795	134010562	1524185	854	104659											
KNDC1	85442	broad.mit.edu	37	chr10	135024207	135024207	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgcacttcctcctcgaccGcatcaacagcacgctgacca	9	7	6	19	3	1	1	1	1	0	0	4	2	3	1	5	0	3	4	5	0	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:135024207G>A	uc001llz.1	+	21	3888	c.3887G>A	c.(3886-3888)CGC>CAC	p.R1296H		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1296	N-terminal Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		CTCCTCGACCGCATCAACAGC	0.622													48	91					0	0	0.01441	0	0		A	135024207	A	A	135024207	3	1	212	1	0	0	0	0	1	0	0	0	8442	1087	38	1	3969	1	KNDC1	10	135024207	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1013645	135024207	510540	855	104660											
KNDC1	85442	broad.mit.edu	37	chr10	135032588	135032588	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatggaggagctgaaagcCgtggaggtaccagcacttta	11	8	14	8	1	1	1	1	1	0	0	1	4	1	4	2	4	4	3	2	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr10:135032588C>T	uc001llz.1	+	28	4855	c.4854C>T	c.(4852-4854)GCC>GCT	p.A1618A		NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	1618	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		AGCTGAAAGCCGTGGAGGTAC	0.617													5	20					0	0	0.000602	0	0		T	135032588	T	T	135032588	2	4	212	1	0	0	0	0	0	0	0	1	8442	639	23	1		1	KNDC1	10	135032588	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8381	135032588	502159	856	104661											
SIGIRR	59307	broad.mit.edu	37	chr11	408790	408790	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagcagtggggcccagaGactacccaagccgtgcagtt	10	5	15	11	1	0	1	0	0	0	1	0	3	0	2	3	3	4	3	3	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:408790G>T	uc001lpd.2	-	3	441	c.111C>A	c.(109-111)GTC>GTA	p.V37V	SIGIRR_uc001lpf.2_Silent_p.V37V|SIGIRR_uc001lpe.1_Silent_p.V37V|SIGIRR_uc001lpg.2_Silent_p.V37V	NM_001135054	NP_001128526	Q6IA17	SIGIR_HUMAN	single Ig IL-1R-related molecule	37	Ig-like C2-type.|Extracellular (Potential).				acute-phase response|innate immune response|negative regulation of chemokine biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of lipopolysaccharide-mediated signaling pathway|negative regulation of sequence-specific DNA binding transcription factor activity	integral to membrane	protein binding|transmembrane receptor activity				0		all_cancers(49;1.59e-06)|all_epithelial(84;0.000256)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;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)		GGGGCCCAGAGACTACCCAAG	0.607													23	91					1.22574e-08	1.3176e-08	0.014323	1	0		T	408790	T	T	408790	2	4	212	1	0	0	0	0	0	0	0	1	14329	929	33	5		5	SIGIRR	11	408790	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		408790	134597726	857	104662											
LRRC56	115399	broad.mit.edu	37	chr11	554076	554076	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagacctgcagtccagggggCgtcggctccgagtcctgggc	5	6	16	14	3	0	1	0	0	0	1	4	2	3	1	4	4	1	2	4	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:554076C>T	uc010qvz.1	+	14	1934	c.1429C>T	c.(1429-1431)CGT>TGT	p.R477C		NM_198075	NP_932341	Q8IYG6	LRC56_HUMAN	leucine rich repeat containing 56	477										skin(1)	1		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)		GTCCAGGGGGCGTCGGCTCCG	0.697													26	60					0	0	0.004656	0	0		T	554076	T	T	554076	3	4	212	1	0	0	0	0	1	0	0	0	9030	768	27	1	1471	1	LRRC56	11	554076	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	145286	554076	134452440	858	104663											
AP2A2	161	broad.mit.edu	37	chr11	970244	970244	+	Missense_Mutation	SNP	A	G	G	1	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	catctttctccttggtcatgAcattgactttggacacatgg	8	15	8	10	0	3	2	1	2	2	0	4	3	3	3	1	3	0	0	1	3	0	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:970244A>G	uc001lss.2	+	3	393	c.212A>G	c.(211-213)GAC>GGC	p.D71G	AP2A2_uc001lst.1_Missense_Mutation_p.D71G|AP2A2_uc009yco.1_RNA|AP2A2_uc001lsu.1_5'Flank	NM_012305	NP_036437	O94973	AP2A2_HUMAN	adaptor-related protein complex 2, alpha 2	71	Lipid-binding.				axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|cytosol	lipid binding|protein transporter activity				0		all_cancers(49;9.46e-06)|Breast(177;0.00257)|all_epithelial(84;0.0027)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;1.75e-24)|BRCA - Breast invasive adenocarcinoma(625;5.73e-05)|Lung(200;0.0696)|LUSC - Lung squamous cell carcinoma(625;0.082)		CTTGGTCATGACATTGACTTT	0.468													24	63					0	0	0.003954	0	0		G	970244	G	G	970244	3	3	212	1	0	0	0	0	1	0	0	0	740	275	10	3	222	3	AP2A2	11	970244	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	416168	970244	134036272	859	104664											
MUC5B	727897	broad.mit.edu	37	chr11	1158129	1158129	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgtgaggaccactgtgtggCcggctgcttctgccctgagg	4	10	15	12	1	1	2	0	2	1	0	1	3	1	3	3	4	2	2	3	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:1158129C>A	uc009ycr.1	+	10	1235	c.1109C>A	c.(1108-1110)GCC>GAC	p.A370D		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CACTGTGTGGCCGGCTGCTTC	0.657													5	11					1.6384e-10	1.78735e-10	0.001984	1	0		A	1158129	A	A	1158129	3	1	212	1	0	0	0	0	1	0	0	0	9997	754	26	5		5	MUC5B	11	1158129	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	187885	1158129	133848387	860	104665											
MUC5B	727897	broad.mit.edu	37	chr11	1162089	1162089	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagctgttcatgcagctggcGcccaagctccgtgggcagac	7	7	13	14	2	1	1	1	0	0	1	2	1	2	1	2	2	4	6	2	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:1162089G>A	uc009ycr.1	+	15	1806	c.1680G>A	c.(1678-1680)GCG>GCA	p.A560A		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		TGCAGCTGGCGCCCAAGCTCC	0.637													3	18					0	0	0.004672	0	0		A	1162089	A	A	1162089	2	1	212	1	0	0	0	0	0	0	0	1	9997	1102	38	1		1	MUC5B	11	1162089	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3960	1162089	133844427	861	104666											
MUC5B	727897	broad.mit.edu	37	chr11	1261607	1261607	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcccccactccacgacaagTaagccctgcctggctctcct	7	8	7	19	1	1	0	0	0	1	0	4	1	3	0	6	1	2	2	6	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:1261607T>C	uc009ycr.1	+	46	6175	c.6049_splice	c.e46+2	p.S2017_splice	MUC5B_uc001ltb.2_Splice_Site_p.S1327_splice	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;						cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CCACGACAAGTAAGCCCTGCC	0.617													17	57					0	0	0.008871	0	0		C	1261607	C	C	1261607	5	2	212	1	0	0	0	0	0	0	1	0	9997	1652	57	3	4099	3	MUC5B	11	1261607	Splice_Site	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	99518	1261607	133744909	862	104667											
IGF2	3481	broad.mit.edu	37	chr11	2156684	2156684	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcactggggcggtaagcagCaatgcagcacgaggcgaagg	11	4	16	10	3	1	0	1	0	0	0	1	2	1	0	0	5	4	5	0	5	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:2156684C>T	uc009yde.2	-	2	173	c.70G>A	c.(70-72)GCT>ACT	p.A24T	IGF2_uc001lvf.2_5'Flank|IGF2_uc001lvg.2_Missense_Mutation_p.A24T|IGF2_uc009ydf.2_Missense_Mutation_p.A80T|IGF2_uc001lvh.2_Missense_Mutation_p.A24T|INS-IGF2_uc001lvi.2_RNA|MIR483_hsa-mir-483|MI0002467_5'Flank|INS-IGF2_uc001lvj.1_RNA	NM_001007139	NP_001007140	P01344	IGF2_HUMAN	insulin-like growth factor 2 isoform 1	24					glucose metabolic process|ossification|phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling|positive regulation of activated T cell proliferation|positive regulation of cell division|positive regulation of glycogen (starch) synthase activity|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein kinase B signaling cascade|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|skeletal system development	extracellular space	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|protein serine/threonine kinase activator activity|receptor activator activity			central_nervous_system(1)	1		all_epithelial(84;5.04e-06)|Breast(177;0.000777)|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;0.0179)|COAD - Colon adenocarcinoma(6;0.029)	BRCA - Breast invasive adenocarcinoma(625;1.09e-05)|LUSC - Lung squamous cell carcinoma(625;0.082)|Lung(200;0.153)		CGGTAAGCAGCAATGCAGCAC	0.617													11	49					0	0	0.010729	0	0		T	2156684	T	T	2156684	3	4	212	1	0	0	0	0	1	0	0	0	7588	710	25	2	484	2	IGF2	11	2156684	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	895077	2156684	132849832	863	104668											
PGAP2	27315	broad.mit.edu	37	chr11	3846314	3846314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttcatctccttcttctcggCgctggctgtctactttcggc	2	16	8	15	3	5	0	1	0	4	0	8	0	5	0	1	3	1	2	1	3	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:3846314C>T	uc001lys.2	+	6	899	c.773C>T	c.(772-774)GCG>GTG	p.A258V	PGAP2_uc001lyl.2_Missense_Mutation_p.A215V|PGAP2_uc010qxw.1_Missense_Mutation_p.A315V|PGAP2_uc010qxx.1_Silent_p.G238G|PGAP2_uc001lyp.3_Silent_p.G124G|PGAP2_uc010qxy.1_Missense_Mutation_p.A250V|PGAP2_uc010qxz.1_Missense_Mutation_p.A254V|PGAP2_uc001lyn.3_Silent_p.G150G|PGAP2_uc010qya.1_RNA|PGAP2_uc001lyr.2_Silent_p.G221G|PGAP2_uc010qyb.1_Silent_p.G200G|PGAP2_uc001lyt.2_Missense_Mutation_p.A41V	NM_014489	NP_055304	Q9UHJ9	PGAP2_HUMAN	FGF receptor activating protein 1 isoform 1	258	Helical; (Potential).				GPI anchor biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	protein transporter activity				0						TTCTTCTCGGCGCTGGCTGTC	0.547											OREG0020703	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	66					0	0	0.00278	0	0		T	3846314	T	T	3846314	3	4	212	1	0	0	0	0	1	0	0	0	11797	768	27	1	970	1	PGAP2	11	3846314	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1689630	3846314	131160202	864	104669											
RHOG	391	broad.mit.edu	37	chr11	3849243	3849243	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgcccgtcaactgcgctctgCgcgctgtaattgtcgaacac	7	9	10	15	6	2	0	1	0	1	0	3	1	2	0	1	0	4	3	1	0	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:3849243C>T	uc001lyu.2	-	2	284	c.126G>A	c.(124-126)GCG>GCA	p.A42A		NM_001665	NP_001656	P84095	RHOG_HUMAN	ras homolog gene family, member G precursor	42					actin cytoskeleton organization|activation of Rac GTPase activity|axon guidance|cell chemotaxis|platelet activation|positive regulation of cell proliferation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of transcription, DNA-dependent|Rac protein signal transduction|Rho protein signal transduction	cytosol|plasma membrane	GTP binding|GTPase activity|protein binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.00328)|all_neural(188;0.0227)		BRCA - Breast invasive adenocarcinoma(625;0.0349)|LUSC - Lung squamous cell carcinoma(625;0.194)		CTGCGCTCTGCGCGCTGTAAT	0.587													5	65					0	0	0.000602	0	0		T	3849243	T	T	3849243	2	4	212	1	0	0	0	0	0	0	0	1	13364	755	27	1		1	RHOG	11	3849243	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2929	3849243	131157273	865	104670											
TRIM21	6737	broad.mit.edu	37	chr11	4409697	4409697	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgcctctgttcttcttcaaCcaggaagtttttttgctgca	6	17	7	11	0	4	0	1	0	3	0	4	1	4	1	2	1	4	4	2	1	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:4409697C>T	uc001lyy.1	-	4	681	c.568G>A	c.(568-570)GTT>ATT	p.V190I		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	190	Potential.				cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		TCTTCTTCAACCAGGAAGTTT	0.498													68	209					0	0	0.01441	0	0		T	4409697	T	T	4409697	3	4	212	1	0	0	0	0	1	0	0	0	16521	507	18	4	875	4	TRIM21	11	4409697	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	560454	4409697	130596819	866	104671											
TRIM21	6737	broad.mit.edu	37	chr11	4411368	4411368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccatgcactgcacacCgttccccctgtgtgccctct	4	12	6	19	1	2	0	0	0	2	0	5	0	4	0	5	0	3	3	5	0	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:4411368C>T	uc001lyy.1	-	2	385	c.272G>A	c.(271-273)CGG>CAG	p.R91Q		NM_003141	NP_003132	P19474	RO52_HUMAN	tripartite motif protein 21	91					cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein deubiquitination|positive regulation of cell cycle|protein autoubiquitination|protein destabilization|protein monoubiquitination|protein polyubiquitination|protein trimerization	cytoplasmic mRNA processing body|nucleus	DNA binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|lung(1)	4		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;2.08e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0851)|LUSC - Lung squamous cell carcinoma(625;0.194)		CACTGCACACCGTTCCCCCTG	0.547													23	62					0	0	0.005443	0	0		T	4411368	T	T	4411368	3	4	212	1	0	0	0	0	1	0	0	0	16521	652	23	1	1179	1	TRIM21	11	4411368	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1671	4411368	130595148	867	104672											
OR52A4	390053	broad.mit.edu	37	chr11	5142185	5142185	+	Silent	SNP	T	C	C	0	1	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	tcaagcccaccaacaataaaTgctccaaggataccatagac	17	6	5	13	0	1	1	1	0	0	1	2	2	2	2	4	1	4	1	4	1	8	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:5142185T>C	uc001lzz.1	-	1	624	c.624A>G	c.(622-624)GCA>GCG	p.A208A		NM_001005222	NP_001005222			olfactory receptor, family 52, subfamily A,											ovary(2)	2		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.7e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		CAACAATAAATGCTCCAAGGA	0.413													6	56					0	0	0.00308	0	0		C	5142185	C	C	5142185	2	2	212	1	0	0	0	0	0	0	0	1	11128	1451	51	3		3	OR52A4	11	5142185	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	730817	5142185	129864331	868	104673											
OR52N1	79473	broad.mit.edu	37	chr11	5810019	5810019	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taggatgaatgaagctggagTtaggctggtgccatttagaa	12	11	14	4	0	0	3	0	2	0	1	0	5	0	5	1	4	2	3	1	4	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:5810019T>A	uc010qzo.1	-	1	28	c.28A>T	c.(28-30)ACT>TCT	p.T10S	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001913	NP_001001913	Q8NH53	O52N1_HUMAN	olfactory receptor, family 52, subfamily N,	10	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		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)		GAAGCTGGAGTTAGGCTGGTG	0.408													10	45					0	0	0.013537	0	0		A	5810019	A	A	5810019	3	1	212	1	0	0	0	0	1	0	0	0	11146	1725	60	5	937	5	OR52N1	11	5810019	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	667834	5810019	129196497	869	104674											
CCKBR	887	broad.mit.edu	37	chr11	6291368	6291368	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtggccatcgcactggagCggtacagcgccatctgccga	7	7	13	14	5	1	0	0	0	1	0	3	2	1	1	3	3	4	2	3	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:6291368C>T	uc001mcp.2	+	3	647	c.454C>T	c.(454-456)CGG>TGG	p.R152W	CCKBR_uc001mcq.2_Missense_Mutation_p.R80W|CCKBR_uc001mcr.2_Missense_Mutation_p.R152W|CCKBR_uc001mcs.2_Missense_Mutation_p.R152W	NM_176875	NP_795344	P32239	GASR_HUMAN	cholecystokinin B receptor	152	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|cell proliferation|digestion|elevation of cytosolic calcium ion concentration|feeding behavior|positive regulation of cell proliferation|sensory perception		1-phosphatidylinositol-3-kinase regulator activity|gastrin receptor activity|phosphatidylinositol phospholipase C activity|type B gastrin/cholecystokinin receptor binding			lung(5)|ovary(2)|breast(1)	8		Medulloblastoma(188;0.00263)|all_neural(188;0.026)|Breast(177;0.029)		Epithelial(150;2.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.139)	Pentagastrin(DB00183)	CGCACTGGAGCGGTACAGCGC	0.597													12	39					0	0	0.001855	0	0		T	6291368	T	T	6291368	3	4	212	1	0	0	0	0	1	0	0	0	2884	759	27	1	464	1	CCKBR	11	6291368	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	481349	6291368	128715148	870	104675											
HPX	3263	broad.mit.edu	37	chr11	6461447	6461447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggaatgcagcatccacagggCtggggaaattcttccatctc	10	9	11	11	0	2	0	0	0	2	0	5	2	4	2	2	4	2	3	2	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:6461447C>T	uc001mdg.2	-	4	345	c.284G>A	c.(283-285)AGC>AAC	p.S95N	HPX_uc001mdf.2_5'Flank|HPX_uc009yfc.2_RNA|HPX_uc010rai.1_Missense_Mutation_p.S95N	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	95	Hemopexin-like 1.				cellular iron ion homeostasis|interspecies interaction between organisms	extracellular space	heme transporter activity|metal ion binding|protein binding				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;5.46e-08)|BRCA - Breast invasive adenocarcinoma(625;0.19)		ATCCACAGGGCTGGGGAAATT	0.522													23	48					0	0	0.014323	0	0		T	6461447	T	T	6461447	3	4	212	1	0	0	0	0	1	0	0	0	7362	797	28	2	1132	2	HPX	11	6461447	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	170079	6461447	128545069	871	104676											
SYT9	143425	broad.mit.edu	37	chr11	7334896	7334896	+	Silent	SNP	A	G	G	1	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	aaggacttttctgggacttcAgatccttatgtcaagatcta	11	14	8	8	0	4	2	2	0	2	2	5	4	5	4	1	2	0	0	1	2	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:7334896A>G	uc001mfe.2	+	3	1005	c.768A>G	c.(766-768)TCA>TCG	p.S256S	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	256	Cytoplasmic (Potential).|C2 1.					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		CTGGGACTTCAGATCCTTATG	0.393													5	121					0	0	0.001984	0	0		G	7334896	G	G	7334896	2	3	212	1	0	0	0	0	0	0	0	1	15506	175	7	3		3	SYT9	11	7334896	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	873449	7334896	127671620	872	104677											
OR5P2	120065	broad.mit.edu	37	chr11	7817741	7817741	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcacataaatgaaggtaatgGtcccatagaacagggtaacc	16	8	9	8	0	1	2	1	1	0	1	2	2	2	2	2	3	2	2	2	3	7	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:7817741G>A	uc001mfp.1	-	1	749	c.749C>T	c.(748-750)ACC>ATC	p.T250I		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	250	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GAAGGTAATGGTCCCATAGAA	0.502													21	70					0	0	0.00278	0	0		A	7817741	A	A	7817741	3	1	212	1	0	0	0	0	1	0	0	0	11197	1261	44	4	223	4	OR5P2	11	7817741	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	482845	7817741	127188775	873	104678											
NLRP10	338322	broad.mit.edu	37	chr11	7982833	7982833	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcttcctgccattcctctAggcagcgcacatgctctcgg	5	11	9	16	2	2	0	0	0	2	0	5	0	4	0	3	2	4	4	3	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:7982833A>G	uc001mfv.1	-	2	343	c.326T>C	c.(325-327)CTA>CCA	p.L109P		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	109							ATP binding			lung(4)|ovary(2)|pancreas(1)|kidney(1)|skin(1)	9				Epithelial(150;1.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.189)		CCATTCCTCTAGGCAGCGCAC	0.517													34	75					0	0	0.004878	0	0		G	7982833	G	G	7982833	3	3	212	1	0	0	0	0	1	0	0	0	10491	420	15	3	1645	3	NLRP10	11	7982833	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	165092	7982833	127023683	874	104679											
ST5	6764	broad.mit.edu	37	chr11	8751553	8751553	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttgggtctccgggtgactggCggggctggggtggagggcaa	4	8	22	7	2	1	1	0	1	1	0	2	2	1	2	1	9	0	2	1	9	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:8751553C>T	uc001mgt.2	-	3	1470	c.1284G>A	c.(1282-1284)CCG>CCA	p.P428P	ST5_uc009yfr.2_Intron|ST5_uc001mgu.2_Intron|ST5_uc001mgv.2_Silent_p.P428P|ST5_uc010rbq.1_Intron|ST5_uc001mgw.1_Silent_p.P428P	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	428	Pro-rich.|Interaction with ABL1.				positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GGGTGACTGGCGGGGCTGGGG	0.592													101	291					0	0	0.01441	0	0		T	8751553	T	T	8751553	2	4	212	1	0	0	0	0	0	0	0	1	15245	755	27	1		1	ST5	11	8751553	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	768720	8751553	126254963	875	104680											
SBF2	81846	broad.mit.edu	37	chr11	10051398	10051398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attcaggctgtccacatacaCggtatagatcaaacccaggc	13	8	8	12	1	2	1	2	0	0	1	3	1	3	1	2	3	2	2	2	3	4	4	rs142469360		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:10051398C>T	uc001mib.2	-	5	565	c.427G>A	c.(427-429)GTG>ATG	p.V143M	SBF2_uc001mif.3_Translation_Start_Site|SBF2_uc001mij.2_RNA	NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	SET binding factor 2	143	DENN.				myelination	cytoplasm|membrane	phosphatase activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3				all cancers(16;2.88e-11)|Epithelial(150;3.61e-10)|BRCA - Breast invasive adenocarcinoma(625;0.00887)		TCCACATACACGGTATAGATC	0.403													10	254					0	0	0.006214	0	0		T	10051398	T	T	10051398	3	4	212	1	0	0	0	0	1	0	0	0	13884	536	19	1	5266	1	SBF2	11	10051398	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1299845	10051398	124955118	876	104681											
AMPD3	272	broad.mit.edu	37	chr11	10517270	10517270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tgcgctggatcatccaggtgCcccggatttagtaagtgagg	8	10	14	9	2	1	1	1	1	0	0	2	3	2	3	3	4	2	2	3	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:10517270C>T	uc001mio.1	+	9	1755	c.1420C>T	c.(1420-1422)CCC>TCC	p.P474S	AMPD3_uc010rbz.1_Missense_Mutation_p.P315S|AMPD3_uc001min.1_Missense_Mutation_p.P483S|AMPD3_uc009yfw.1_RNA|AMPD3_uc009yfz.2_RNA|AMPD3_uc001mip.1_Missense_Mutation_p.P481S|AMPD3_uc009yfy.2_Missense_Mutation_p.P474S	NM_001025389	NP_001020560	Q01432	AMPD3_HUMAN	adenosine monophosphate deaminase 3 isoform 1B	474					AMP catabolic process|purine base metabolic process|purine ribonucleoside monophosphate biosynthetic process|purine-containing compound salvage	cytosol	AMP deaminase activity|metal ion binding			large_intestine(1)|ovary(1)	2				all cancers(16;1.14e-08)|Epithelial(150;2.83e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0291)		CATCCAGGTGCCCCGGATTTA	0.587													11	31					0	0	0.008291	0	0		T	10517270	T	T	10517270	3	4	212	1	0	0	0	0	1	0	0	0	587	739	26	2	1501	2	AMPD3	11	10517270	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	465872	10517270	124489246	877	104682											
USP47	55031	broad.mit.edu	37	chr11	11957978	11957978	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atggggcttctactaggtggCgtcaagtcaacatatatgtt	10	13	11	7	1	3	0	2	0	1	0	3	0	3	0	0	4	2	2	0	4	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:11957978C>T	uc001mjq.1	+	18	2821	c.2058C>T	c.(2056-2058)GGC>GGT	p.G686G	USP47_uc001mjr.2_Silent_p.G598G|USP47_uc001mjs.2_Silent_p.G666G|USP47_uc001mjt.1_5'Flank	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	686					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		TACTAGGTGGCGTCAAGTCAA	0.398													21	61					0	0	0.014323	0	0		T	11957978	T	T	11957978	2	4	212	1	0	0	0	0	0	0	0	1	17104	755	27	1		1	USP47	11	11957978	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1440708	11957978	123048538	878	104683											
USP47	55031	broad.mit.edu	37	chr11	11969622	11969622	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcaatcaagagtttgagagCgtccggctgaatgagacact	13	8	12	8	2	1	4	1	3	0	3	2	6	2	4	1	1	2	3	1	1	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:11969622C>T	uc001mjs.2	+	21	3985	c.3222C>T	c.(3220-3222)AGC>AGT	p.S1074S	USP47_uc001mjr.2_Silent_p.S1006S|USP47_uc009ygi.2_5'Flank	NM_017944	NP_060414	Q96K76	UBP47_HUMAN	ubiquitin specific protease 47	1094					base-excision repair|cellular response to UV|monoubiquitinated protein deubiquitination|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of G2/M transition of mitotic cell cycle|negative regulation of transcription, DNA-dependent|positive regulation of cell growth|response to drug|ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	ubiquitin thiolesterase activity|ubiquitin-specific protease activity|WD40-repeat domain binding			ovary(1)|skin(1)	2				Epithelial(150;0.000339)		AGTTTGAGAGCGTCCGGCTGA	0.383													25	60					0	0	0.005443	0	0		T	11969622	T	T	11969622	2	4	212	1	0	0	0	0	0	0	0	1	17104	767	27	1		1	USP47	11	11969622	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	11644	11969622	123036894	879	104684											
MICAL2	9645	broad.mit.edu	37	chr11	12234849	12234849	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggcgattgccatcaccGccaacttcataaacagaaac	14	7	7	13	2	2	1	2	0	0	1	2	2	2	1	3	1	5	1	3	1	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:12234849G>A	uc001mjz.2	+	7	1027	c.739G>A	c.(739-741)GCC>ACC	p.A247T	MICAL2_uc010rch.1_Missense_Mutation_p.A247T|MICAL2_uc001mka.2_Missense_Mutation_p.A247T|MICAL2_uc010rci.1_Missense_Mutation_p.A247T|MICAL2_uc001mkb.2_Missense_Mutation_p.A247T|MICAL2_uc001mkc.2_Missense_Mutation_p.A247T|MICAL2_uc001mkd.2_Missense_Mutation_p.A76T|MICAL2_uc001mke.2_5'Flank	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	247						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		TGCCATCACCGCCAACTTCAT	0.433													34	79					0	0	0.013726	0	0		A	12234849	A	A	12234849	3	1	212	1	0	0	0	0	1	0	0	0	9588	1087	38	1	757	1	MICAL2	11	12234849	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	265227	12234849	122771667	880	104685											
MICAL2	9645	broad.mit.edu	37	chr11	12281414	12281414	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagttcttgcgcagtggccGccattggcaccctggaaggc	8	8	13	12	2	1	0	0	0	1	0	1	1	1	1	3	4	1	3	3	4	2	3	rs148517207		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:12281414G>A	uc001mjz.2	+	26	3592	c.3304G>A	c.(3304-3306)GCC>ACC	p.A1102T	MICAL2_uc010rch.1_Missense_Mutation_p.A912T|MICAL2_uc001mka.2_Missense_Mutation_p.A1102T|MICAL2_uc010rci.1_Missense_Mutation_p.A1081T|MICAL2_uc001mkb.2_Missense_Mutation_p.A876T|MICAL2_uc001mkc.2_Missense_Mutation_p.A855T|MICAL2_uc001mkd.2_Missense_Mutation_p.A684T|MICAL2_uc010rcj.1_Missense_Mutation_p.A314T|MICAL2_uc001mkf.2_RNA	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	1102						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		CGCAGTGGCCGCCATTGGCAC	0.597													16	28					0	0	0.007413	0	0		A	12281414	A	A	12281414	3	1	212	1	0	0	0	0	1	0	0	0	9588	1087	38	1	3398	1	MICAL2	11	12281414	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	46565	12281414	122725102	881	104686											
LDHA	3939	broad.mit.edu	37	chr11	18422497	18422497	+	Missense_Mutation	SNP	A	C	C	1	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	acgtgaacatctttaaattcAtcattcctaatgttgtaaaa	15	15	4	7	1	3	1	2	1	1	0	4	1	4	1	1	0	1	2	1	0	6	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:18422497A>C	uc001mok.3	+	4	630	c.358A>C	c.(358-360)ATC>CTC	p.I120L	LDHA_uc010rdc.1_Intron|LDHA_uc009yhn.2_Missense_Mutation_p.I120L|LDHA_uc009yho.2_5'UTR|LDHA_uc001mol.3_Missense_Mutation_p.I120L|LDHA_uc010rdd.1_Missense_Mutation_p.I149L	NM_005566	NP_005557	P00338	LDHA_HUMAN	lactate dehydrogenase A isoform 1	120					glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity|protein binding			central_nervous_system(3)	3					NADH(DB00157)	CTTTAAATTCATCATTCCTAA	0.418													15	46					0	0	0.006122	0	0		C	18422497	C	C	18422497	3	2	212	1	0	0	0	0	1	0	0	0	8714	217	8	5	459	5	LDHA	11	18422497	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6141083	18422497	116584019	882	104687											
MUC15	143662	broad.mit.edu	37	chr11	26586878	26586878	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagggggtcacagatggagaAgttggttctgaagagaggat	13	8	17	3	0	2	4	1	1	1	3	2	7	2	5	0	5	0	2	0	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:26586878A>C	uc001mqx.2	-	2	794	c.528T>G	c.(526-528)ACT>ACG	p.T176T	ANO3_uc010rdr.1_Intron|ANO3_uc001mqt.3_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron|MUC15_uc001mqw.2_Silent_p.T203T|MUC15_uc001mqy.2_Silent_p.T203T	NM_145650	NP_663625	Q8N387	MUC15_HUMAN	mucin 15 isoform b	176	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CAGATGGAGAAGTTGGTTCTG	0.433													20	57					0	0	0.008871	0	0		C	26586878	C	C	26586878	2	2	212	1	0	0	0	0	0	0	0	1	9990	59	3	5		5	MUC15	11	26586878	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	8164381	26586878	108419638	883	104688											
ANO3	63982	broad.mit.edu	37	chr11	26664848	26664848	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acaaatttgtcactcaatggCggaggcctttgccagcccga	10	9	10	12	2	2	0	2	0	0	0	2	2	2	1	3	3	2	0	3	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:26664848C>T	uc001mqt.3	+	23	2540	c.2395C>T	c.(2395-2397)CGG>TGG	p.R799W	ANO3_uc010rdr.1_Missense_Mutation_p.R783W|ANO3_uc010rds.1_Missense_Mutation_p.R638W|ANO3_uc010rdt.1_Missense_Mutation_p.R653W	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	799	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CACTCAATGGCGGAGGCCTTT	0.388													19	67					0	0	0.008871	0	0		T	26664848	T	T	26664848	3	4	212	1	0	0	0	0	1	0	0	0	698	759	27	1	2485	1	ANO3	11	26664848	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	77970	26664848	108341668	884	104689											
PAX6	5080	broad.mit.edu	37	chr11	31822286	31822286	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccccggataccaaccagggCgggtgccccagcttccggtc	6	6	12	17	3	0	0	0	0	0	0	3	1	2	1	7	4	4	1	7	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:31822286C>T	uc001mtd.3	-	6	1366	c.476G>A	c.(475-477)CGC>CAC	p.R159H	PAX6_uc001mte.3_Missense_Mutation_p.R159H|PAX6_uc001mtg.3_Missense_Mutation_p.R173H|PAX6_uc001mtf.3_Missense_Mutation_p.R159H|PAX6_uc001mth.3_Missense_Mutation_p.R159H|PAX6_uc009yjr.2_Missense_Mutation_p.R159H	NM_001127612	NP_001121084	P26367	PAX6_HUMAN	paired box gene 6 isoform a	159	Gln/Gly-rich.				blood vessel development|central nervous system development|cornea development in camera-type eye|glucose homeostasis|iris morphogenesis|negative regulation of neurogenesis|neuron fate commitment|pancreatic A cell development|positive regulation of transcription, DNA-dependent|response to wounding|visual perception	cytoplasm|nuclear chromatin	R-SMAD binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|ubiquitin-protein ligase activity			lung(4)|ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	9	Lung SC(675;0.225)					CCAACCAGGGCGGGTGCCCCA	0.567									Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				32	90					0	0	0.008361	0	0		T	31822286	T	T	31822286	3	4	212	1	0	0	0	0	1	0	0	0	11502	768	27	1	820	1	PAX6	11	31822286	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5157438	31822286	103184230	885	104690											
DEPDC7	91614	broad.mit.edu	37	chr11	33050184	33050184	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcaagaagaaacaattgggCgtctactacaacttgtagac	15	8	10	8	1	1	3	0	0	1	3	1	3	1	3	0	2	4	2	0	2	8	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:33050184C>T	uc001mub.2	+	4	720	c.628C>T	c.(628-630)CGT>TGT	p.R210C	DEPDC7_uc001muc.2_Missense_Mutation_p.R201C	NM_001077242	NP_001070710	Q96QD5	DEPD7_HUMAN	novel 58.3 KDA protein isoform 1	210					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			ovary(1)|skin(1)	2						AACAATTGGGCGTCTACTACA	0.383													8	45					0	0	0.004482	0	0		T	33050184	T	T	33050184	3	4	212	1	0	0	0	0	1	0	0	0	4450	768	27	1	692	1	DEPDC7	11	33050184	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1227898	33050184	101956332	886	104691											
ELF5	2001	broad.mit.edu	37	chr11	34527192	34527192	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcacctgtctgatgctcaaaGgcagggtagtactcttcatt	9	12	10	10	0	4	1	2	1	2	0	4	1	4	1	1	2	2	5	1	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:34527192G>T	uc001mvo.1	-	2	365	c.135C>A	c.(133-135)GCC>GCA	p.A45A	ELF5_uc001mvp.1_Silent_p.A35A|ELF5_uc009ykd.1_Silent_p.A35A|ELF5_uc001mvq.1_Silent_p.A35A	NM_198381	NP_938195	Q9UKW6	ELF5_HUMAN	E74-like factor 5 ESE-2a	45	PNT.				cell proliferation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1		Acute lymphoblastic leukemia(5;0.0087)|all_hematologic(20;0.0384)				GATGCTCAAAGGCAGGGTAGT	0.552													27	87					3.96558e-24	4.62274e-24	0.004656	1	0		T	34527192	T	T	34527192	2	4	212	1	0	0	0	0	0	0	0	1	5065	987	35	5		5	ELF5	11	34527192	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1477008	34527192	100479324	887	104692											
CD44	960	broad.mit.edu	37	chr11	35198160	35198160	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgcaggtgtattccacGtggagaaaaatggtcgctac	10	11	12	8	2	0	1	0	0	0	1	2	2	1	1	1	3	2	4	1	3	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:35198160G>A	uc001mvu.2	+	2	540	c.106G>A	c.(106-108)GTG>ATG	p.V36M	CD44_uc001mvv.2_Missense_Mutation_p.V36M|CD44_uc001mvw.2_Missense_Mutation_p.V36M|CD44_uc001mvx.2_Missense_Mutation_p.V36M|CD44_uc001mvy.2_Missense_Mutation_p.V36M|CD44_uc001mwc.3_Missense_Mutation_p.V36M|CD44_uc010rer.1_Missense_Mutation_p.V36M|CD44_uc009ykh.2_RNA	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	36	Extracellular (Potential).|Link.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	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)		Hyaluronidase(DB00070)	TGTATTCCACGTGGAGAAAAA	0.443													15	43					0	0	0.00245	0	0		A	35198160	A	A	35198160	3	1	212	1	0	0	0	0	1	0	0	0	3020	1145	40	1	112	1	CD44	11	35198160	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	670968	35198160	99808356	888	104693											
PAMR1	25891	broad.mit.edu	37	chr11	35515662	35515662	+	Missense_Mutation	SNP	A	G	G	1	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	acctgggtggatcaggcaggAgtcacactcattctcctcat	9	10	10	12	0	5	0	4	0	1	0	6	2	5	2	2	4	0	1	2	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:35515662A>G	uc001mwg.2	-	2	275	c.232T>C	c.(232-234)TCC>CCC	p.S78P	PAMR1_uc001mwf.2_Missense_Mutation_p.S78P|PAMR1_uc010rew.1_Missense_Mutation_p.S78P|PAMR1_uc010rex.1_Missense_Mutation_p.S38P	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	78	Cys-rich.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						ATCAGGCAGGAGTCACACTCA	0.507													41	91					0	0	0.00874	0	0		G	35515662	G	G	35515662	3	3	212	1	0	0	0	0	1	0	0	0	11432	304	11	3	2025	3	PAMR1	11	35515662	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	317502	35515662	99490854	889	104694											
ACCSL	390110	broad.mit.edu	37	chr11	44081393	44081393	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttgaaccctctagctatgCgtcggttctgtgatgtgctg	6	15	11	9	2	2	2	0	2	2	0	3	2	2	2	1	1	4	3	1	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:44081393C>T	uc001mxw.1	+	14	1686	c.1630C>T	c.(1630-1632)CGT>TGT	p.R544C	ACCSL_uc009ykr.2_Missense_Mutation_p.R363C	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	544							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						TCTAGCTATGCGTCGGTTCTG	0.517													91	306					0	0	0.01441	0	0		T	44081393	T	T	44081393	3	4	212	1	0	0	0	0	1	0	0	0	134	768	27	1	1684	1	ACCSL	11	44081393	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8565731	44081393	90925123	890	104695											
CHST1	8534	broad.mit.edu	37	chr11	45671251	45671251	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccgggtcacgagaaggggCggaagtcccgctcctccacc	7	4	14	16	4	1	1	1	0	0	1	4	3	4	2	5	4	0	1	5	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:45671251C>T	uc001mys.1	-	4	1894	c.1223G>A	c.(1222-1224)CGC>CAC	p.R408H		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	408	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGAGAAGGGGCGGAAGTCCCG	0.632													19	73					0	0	0.014323	0	0		T	45671251	T	T	45671251	3	4	212	1	0	0	0	0	1	0	0	0	3400	768	27	1	16	1	CHST1	11	45671251	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1589858	45671251	89335265	891	104696											
SLC35C1	55343	broad.mit.edu	37	chr11	45832610	45832610	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgggggatgatgacgctgggCggcctgtttggctttgccat	4	12	17	8	2	0	2	0	2	0	0	0	3	0	3	2	5	1	3	2	5	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:45832610C>T	uc001nbp.2	+	2	1531	c.819C>T	c.(817-819)GGC>GGT	p.G273G	SLC35C1_uc001nbo.2_Silent_p.G260G|SLC35C1_uc010rgm.1_Silent_p.G260G	NM_018389	NP_060859	Q96A29	FUCT1_HUMAN	GDP-fucose transporter 1 isoform a	273	Helical; (Potential).					Golgi membrane|integral to membrane	GDP-fucose transmembrane transporter activity				0				GBM - Glioblastoma multiforme(35;0.227)		TGACGCTGGGCGGCCTGTTTG	0.637													23	50					0	0	0.014323	0	0		T	45832610	T	T	45832610	2	4	212	1	0	0	0	0	0	0	0	1	14604	755	27	1		1	SLC35C1	11	45832610	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	161359	45832610	89173906	892	104697											
PEX16	9409	broad.mit.edu	37	chr11	45936019	45936019	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctggagtgcagggacggcGctagaacacaagggcggcag	10	3	18	10	3	0	1	0	0	0	1	0	3	0	3	1	5	2	3	1	5	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:45936019G>A	uc001nbu.2	-	7	854	c.542C>T	c.(541-543)ACG>ATG	p.T181M	PEX16_uc001nbt.2_Missense_Mutation_p.T181M	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	181	Cytoplasmic (Potential).				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		CAGGGACGGCGCTAGAACACA	0.692													15	30					0	0	0.004007	0	0		A	45936019	A	A	45936019	3	1	212	1	0	0	0	0	1	0	0	0	11762	1101	38	1	581	1	PEX16	11	45936019	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	103409	45936019	89070497	893	104698											
PEX16	9409	broad.mit.edu	37	chr11	45937794	45937794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaccacaggcaactttttcCgaagctccttccgtaggatc	9	11	7	14	2	1	0	1	0	0	0	5	2	4	1	4	2	2	3	4	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:45937794C>T	uc001nbu.2	-	3	521	c.209G>A	c.(208-210)CGG>CAG	p.R70Q	PEX16_uc001nbt.2_Missense_Mutation_p.R70Q	NM_004813	NP_004804	Q9Y5Y5	PEX16_HUMAN	peroxisomal biogenesis factor 16 isoform 1	70	Cytoplasmic (Potential).|Required for peroxisomal location.				ER-dependent peroxisome organization|peroxisome membrane biogenesis|protein import into peroxisome matrix|protein import into peroxisome membrane	endoplasmic reticulum membrane|integral to peroxisomal membrane	protein C-terminus binding			ovary(2)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.223)		CAACTTTTTCCGAAGCTCCTT	0.542													147	120					0	0	0.01441	0	0		T	45937794	T	T	45937794	3	4	212	1	0	0	0	0	1	0	0	0	11762	652	23	1	930	1	PEX16	11	45937794	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1775	45937794	89068722	894	104699											
DGKZ	8525	broad.mit.edu	37	chr11	46389218	46389218	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctaggagtcagcgacatatgGggagcacatctggttcgaga	11	8	14	8	2	2	1	1	0	1	1	3	5	2	3	0	4	2	2	0	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:46389218G>T	uc001ncn.1	+	4	979	c.854G>T	c.(853-855)GGG>GTG	p.G285V	DGKZ_uc001nch.1_Missense_Mutation_p.G113V|DGKZ_uc010rgq.1_Missense_Mutation_p.G62V|DGKZ_uc001ncj.1_Missense_Mutation_p.G62V|DGKZ_uc010rgr.1_Missense_Mutation_p.G61V|DGKZ_uc001nck.1_5'UTR|DGKZ_uc001ncl.2_Missense_Mutation_p.G96V|DGKZ_uc001ncm.2_Missense_Mutation_p.G96V|DGKZ_uc009yky.1_Missense_Mutation_p.G96V|DGKZ_uc010rgs.1_Missense_Mutation_p.G96V|DGKZ_uc001nci.1_Missense_Mutation_p.G62V	NM_001105540	NP_001099010	Q13574	DGKZ_HUMAN	diacylglycerol kinase zeta isoform 4	285					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell migration|intracellular signal transduction|mitotic cell cycle G1/S transition DNA damage checkpoint|negative regulation of mitotic cell cycle|platelet activation	cytoplasm|lamellipodium|nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|diacylglycerol kinase activity|lipid kinase activity|metal ion binding|protein binding|protein C-terminus binding			pancreas(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(35;0.0259)|Lung(87;0.141)		GCGACATATGGGGAGCACATC	0.647													14	30					4.7546e-09	5.13497e-09	0.004007	1	0		T	46389218	T	T	46389218	3	4	212	1	0	0	0	0	1	0	0	0	4480	1232	43	5	1308	5	DGKZ	11	46389218	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	451424	46389218	88617298	895	104700											
F2	2147	broad.mit.edu	37	chr11	46748106	46748106	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggactcagacagggccatCgaagggcgtaccgccaccag	11	3	14	13	3	1	1	1	0	0	1	2	4	1	2	4	3	1	1	4	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:46748106C>T	uc001ndf.3	+	8	976	c.933C>T	c.(931-933)ATC>ATT	p.I311I	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	311					activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	ACAGGGCCATCGAAGGGCGTA	0.632													33	35					0	0	0.004878	0	0		T	46748106	T	T	46748106	2	4	212	1	0	0	0	0	0	0	0	1	5350	874	31	1		1	F2	11	46748106	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	358888	46748106	88258410	896	104701											
PACSIN3	29763	broad.mit.edu	37	chr11	47202114	47202114	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cggtggaaagccccccgctgCcaggcgcgcacccgctcact	6	4	12	19	5	1	0	1	0	0	0	1	1	1	1	5	3	2	3	5	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:47202114C>T	uc001ndw.2	-	5	677	c.339G>A	c.(337-339)TGG>TGA	p.W113*	PACSIN3_uc001ndx.2_Nonsense_Mutation_p.W113*|PACSIN3_uc001ndy.2_Nonsense_Mutation_p.W113*|PACSIN3_uc001ndz.2_RNA|PACSIN3_uc001nea.2_RNA	NM_016223	NP_057307	Q9UKS6	PACN3_HUMAN	protein kinase C and casein kinase substrate in	113					endocytosis|negative regulation of endocytosis|positive regulation of membrane protein ectodomain proteolysis	cytoplasm|plasma membrane	cytoskeletal protein binding				0						CCCCCCGCTGCCAGGCGCGCA	0.716													21	46					0	0	0.008871	0	0		T	47202114	T	T	47202114	4	4	212	1	0	0	0	0	0	1	0	0	11395	740	26	2	963	2	PACSIN3	11	47202114	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	454008	47202114	87804402	897	104702											
NR1H3	10062	broad.mit.edu	37	chr11	47282887	47282887	+	Frame_Shift_Del	DEL	C	-	-																															tgccccccagggcttcctcaCccccccaaatcctgccccag																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:47282887delC	uc009ylm.2	+	5	816	c.595delC	c.(595-597)CCCfs	p.P199fs	NR1H3_uc009yll.1_Frame_Shift_Del_p.P205fs|NR1H3_uc010rhk.1_Frame_Shift_Del_p.P205fs|NR1H3_uc001nek.2_Frame_Shift_Del_p.P154fs|NR1H3_uc001nej.2_Frame_Shift_Del_p.P199fs|NR1H3_uc001nel.2_Frame_Shift_Del_p.P154fs|NR1H3_uc001nen.3_Frame_Shift_Del_p.P199fs|NR1H3_uc001nem.2_Frame_Shift_Del_p.P199fs|NR1H3_uc001nep.2_Frame_Shift_Del_p.P108fs	NM_005693	NP_005684	Q13133	NR1H3_HUMAN	nuclear receptor subfamily 1, group H, member 3	199					apoptotic cell clearance|cellular response to lipopolysaccharide|cholesterol homeostasis|negative regulation of cholesterol storage|negative regulation of inflammatory response|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of lipid transport|negative regulation of macrophage activation|negative regulation of pancreatic juice secretion|negative regulation of pinocytosis|negative regulation of secretion of lysosomal enzymes|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of cholesterol homeostasis|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor biosynthetic process|positive regulation of toll-like receptor 4 signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of triglyceride biosynthetic process|regulation of circadian rhythm|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to progesterone stimulus|triglyceride homeostasis	nuclear chromatin|nucleoplasm	cholesterol binding|steroid hormone receptor activity|sterol response element binding|transcription coactivator activity|zinc ion binding			ovary(2)|lung(1)	3						GGCTTCCTCACCCCCCCAAAT	0.592													16	37	---	---	---	---						.	-	47282887	-	-	47282887	7	5	212	1	0	1	0	1	0	0	0	0	10637	507	18	0	609	0	NR1H3	11	47282887	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	80773	47282887	87723629	898	104703											
FNBP4	23360	broad.mit.edu	37	chr11	47776173	47776173	+	Silent	SNP	A	G	G	1	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	ttttcggaaacatcattgtcAtcgtcatcactgtcagcata	11	14	6	10	2	5	0	5	0	0	0	7	1	5	1	0	1	2	1	0	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:47776173A>G	uc009ylv.2	-	3	510	c.357T>C	c.(355-357)GAT>GAC	p.D119D	FNBP4_uc001ngj.2_Silent_p.D26D|FNBP4_uc001ngl.2_Intron	NM_015308	NP_056123	Q8N3X1	FNBP4_HUMAN	formin binding protein 4	119										ovary(1)	1						CATCATTGTCATCGTCATCAC	0.393													7	82					0	0	0.001984	0	0		G	47776173	G	G	47776173	2	3	212	1	0	0	0	0	0	0	0	1	5981	214	8	3		3	FNBP4	11	47776173	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	493286	47776173	87230343	899	104704											
PTPRJ	5795	broad.mit.edu	37	chr11	48146561	48146561	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgggcagggagccccaccGcccctgtgcatgatgagtcc	6	5	14	16	2	0	2	0	2	0	0	1	3	1	3	7	2	2	2	7	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:48146561G>A	uc001ngp.3	+	6	1271	c.916G>A	c.(916-918)GCC>ACC	p.A306T	PTPRJ_uc001ngo.3_Missense_Mutation_p.A306T	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	306	Extracellular (Potential).|Fibronectin type-III 3.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						GAGCCCCACCGCCCCTGTGCA	0.587													91	213					0	0	0.01441	0	0		A	48146561	A	A	48146561	3	1	212	1	0	0	0	0	1	0	0	0	12829	1087	38	1	938	1	PTPRJ	11	48146561	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	370388	48146561	86859955	900	104705											
PTPRJ	5795	broad.mit.edu	37	chr11	48152048	48152048	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gacttccgagtgacagtggtCagcacgacggagatcggctt	9	8	14	10	4	1	2	1	1	0	1	3	6	2	2	1	3	1	2	1	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:48152048C>T	uc001ngp.3	+	8	1750	c.1395C>T	c.(1393-1395)GTC>GTT	p.V465V	PTPRJ_uc001ngo.3_Silent_p.V465V	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	465	Extracellular (Potential).|Fibronectin type-III 5.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TGACAGTGGTCAGCACGACGG	0.468													13	46					0	0	0.003163	0	0		T	48152048	T	T	48152048	2	4	212	1	0	0	0	0	0	0	0	1	12829	813	29	4		4	PTPRJ	11	48152048	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5487	48152048	86854468	901	104706											
OR4X1	390113	broad.mit.edu	37	chr11	48285736	48285736	+	Silent	SNP	T	G	G	0	1	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	ctccatttctttggtggcacTgaggcctttctcctgatggt	4	16	10	11	0	2	2	0	2	2	0	4	2	3	2	3	4	0	1	3	4	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:48285736T>G	uc010rht.1	+	1	324	c.324T>G	c.(322-324)ACT>ACG	p.T108T		NM_001004726	NP_001004726	Q8NH49	OR4X1_HUMAN	olfactory receptor, family 4, subfamily X,	108	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3						TTGGTGGCACTGAGGCCTTTC	0.507													17	51					0	0	0.008871	0	0		G	48285736	G	G	48285736	2	3	212	1	0	0	0	0	0	0	0	1	11103	1567	55	5		5	OR4X1	11	48285736	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	133688	48285736	86720780	902	104707											
OR4C46	119749	broad.mit.edu	37	chr11	51515685	51515685	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcactatatgactatcatgaAccagtgtgtgtgtgccctgc	9	12	10	10	0	1	2	1	2	0	0	1	2	1	2	2	0	3	1	2	0	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:51515685A>C	uc010ric.1	+	1	404	c.404A>C	c.(403-405)AAC>ACC	p.N135T		NM_001004703	NP_001004703	A6NHA9	O4C46_HUMAN	olfactory receptor, family 4, subfamily C,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						ACTATCATGAACCAGTGTGTG	0.483													46	93					0	0	0.01441	0	0		C	51515685	C	C	51515685	3	2	212	1	0	0	0	0	1	0	0	0	11070	43	2	5	406	5	OR4C46	11	51515685	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3229949	51515685	83490831	903	104708											
TRIM48	79097	broad.mit.edu	37	chr11	55033087	55033087	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttttgcaggagaagcttttAaagaaaatgcagtctttatg	13	14	9	5	0	1	2	0	0	1	2	1	3	1	2	0	1	3	3	0	1	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:55033087A>G	uc010rid.1	+	3	557	c.471A>G	c.(469-471)TTA>TTG	p.L157L		NM_024114	NP_077019	Q8IWZ4	TRI48_HUMAN	tripartite motif-containing 48	141						intracellular	zinc ion binding				0						AGAAGCTTTTAAAGAAAATGC	0.418													15	10					0	0	0.007413	0	0		G	55033087	G	G	55033087	2	3	212	1	0	0	0	0	0	0	0	1	16549	359	13	3		3	TRIM48	11	55033087	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3517402	55033087	79973429	904	104709											
OR5J2	282775	broad.mit.edu	37	chr11	55944805	55944805	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcaggcagacagcaagccTtctccacctgtgcctctcac	9	8	7	17	0	3	1	2	0	2	1	5	1	3	1	4	1	3	2	4	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:55944805T>G	uc010rjb.1	+	1	712	c.712T>G	c.(712-714)TTC>GTC	p.F238V		NM_001005492	NP_001005492	Q8NH18	OR5J2_HUMAN	olfactory receptor, family 5, subfamily J,	238	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|large_intestine(1)|breast(1)|pancreas(1)	4	Esophageal squamous(21;0.00693)					ACAGCAAGCCTTCTCCACCTG	0.463													29	92					0	0	0.009535	0	0		G	55944805	G	G	55944805	3	3	212	1	0	0	0	0	1	0	0	0	11184	1609	56	5	714	5	OR5J2	11	55944805	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	911718	55944805	79061711	905	104710											
OR5T3	390154	broad.mit.edu	37	chr11	56020329	56020329	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcctctccttgctatttcTtgttctgacactcacacaaa	8	15	3	15	0	4	1	1	1	3	0	6	1	5	1	3	0	1	2	3	0	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:56020329T>G	uc010rjd.1	+	1	654	c.654T>G	c.(652-654)TCT>TCG	p.S218S		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	218	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TTGCTATTTCTTGTTCTGACA	0.398													56	188					0	0	0.01441	0	0		G	56020329	G	G	56020329	2	3	212	1	0	0	0	0	0	0	0	1	11202	1596	56	5		5	OR5T3	11	56020329	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	75524	56020329	78986187	906	104711											
OR5M3	219482	broad.mit.edu	37	chr11	56237670	56237670	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatggacaagagcaatgaAgaagaaacactgtactaaac	20	5	8	8	0	0	4	0	1	0	3	0	5	0	5	0	1	4	2	0	1	8	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:56237670A>C	uc010rjk.1	-	1	304	c.304T>G	c.(304-306)TTC>GTC	p.F102V		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	102	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AGAGCAATGAAGAAGAAACAC	0.368													31	87					0	0	0.009535	0	0		C	56237670	C	C	56237670	3	2	212	1	0	0	0	0	1	0	0	0	11194	72	3	5	621	5	OR5M3	11	56237670	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	217341	56237670	78768846	907	104712											
OR5M3	219482	broad.mit.edu	37	chr11	56237805	56237805	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtgactgaggaaaaagtacaTggggttgttaagctgaggac	13	9	15	4	0	0	3	0	3	0	0	0	5	0	5	0	4	2	4	0	4	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:56237805T>C	uc010rjk.1	-	1	169	c.169A>G	c.(169-171)ATG>GTG	p.M57V		NM_001004742	NP_001004742	Q8NGP4	OR5M3_HUMAN	olfactory receptor, family 5, subfamily M,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AAAAAGTACATGGGGTTGTTA	0.393													36	99					0	0	0.005524	0	0		C	56237805	C	C	56237805	3	2	212	1	0	0	0	0	1	0	0	0	11194	1464	51	3	756	3	OR5M3	11	56237805	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	135	56237805	78768711	908	104713											
OR5AP2	338675	broad.mit.edu	37	chr11	56409116	56409116	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttgagtagctagatgtagggCgcaagtacatgaagaggatt	13	10	14	4	1	0	4	0	2	0	2	0	5	0	5	0	2	2	5	0	2	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:56409116C>T	uc001njb.1	-	1	800	c.800G>A	c.(799-801)CGC>CAC	p.R267H		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						AGATGTAGGGCGCAAGTACAT	0.433													5	63					0	0	0.000602	0	0		T	56409116	T	T	56409116	3	4	212	1	0	0	0	0	1	0	0	0	11163	768	27	1	154	1	OR5AP2	11	56409116	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	171311	56409116	78597400	909	104714											
OR9G9	504191	broad.mit.edu	37	chr11	56468771	56468771	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaaagaggctctgaaaaaacTtctcccataaatcaagatta	18	9	6	8	0	3	3	1	1	2	2	4	4	3	3	1	1	1	1	1	1	8	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:56468771T>G	uc010rjn.1	+	1	908	c.908T>G	c.(907-909)CTT>CGT	p.L303R		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	303	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTGAAAAAACTTCTCCCATAA	0.378													6	68					0	0	0.004482	0	0		G	56468771	G	G	56468771	3	3	212	1	0	0	0	0	1	0	0	0	11271	1609	56	5	910	5	OR9G9	11	56468771	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	59655	56468771	78537745	910	104715											
OR9Q1	219956	broad.mit.edu	37	chr11	57947126	57947126	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agtcacctcgctttcatggaCgtctgctactcatctatcac	8	13	6	14	2	6	0	4	0	2	0	7	1	6	1	1	1	2	2	1	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:57947126C>T	uc001nmj.2	+	3	526	c.210C>T	c.(208-210)GAC>GAT	p.D70D		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	70	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				CTTTCATGGACGTCTGCTACT	0.498													32	136					0	0	0.013726	0	0		T	57947126	T	T	57947126	2	4	212	1	0	0	0	0	0	0	0	1	11274	535	19	1		1	OR9Q1	11	57947126	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1478355	57947126	77059390	911	104716											
MS4A15	219995	broad.mit.edu	37	chr11	60543165	60543165	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccctgcctatgacaatgtgGcatatgcccaaggagtcgtc	9	9	10	13	1	0	1	0	1	0	0	2	2	0	2	4	2	2	1	4	2	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:60543165G>A	uc009ynf.1	+	7	920	c.700G>A	c.(700-702)GCA>ACA	p.A234T	MS4A15_uc001npx.2_Missense_Mutation_p.A141T|MS4A15_uc001npy.2_RNA|MS4A15_uc009yng.1_Missense_Mutation_p.A193T	NM_001098835	NP_001092305	Q8N5U1	M4A15_HUMAN	membrane-spanning 4-domains, subfamily A, member	234						integral to membrane	receptor activity			lung(1)	1						TGACAATGTGGCATATGCCCA	0.602											OREG0020991	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	56	146					0	0	0.01441	0	0		A	60543165	A	A	60543165	3	1	212	1	0	0	0	0	1	0	0	0	9877	1203	42	2	722	2	MS4A15	11	60543165	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2596039	60543165	74463351	912	104717											
TMEM109	79073	broad.mit.edu	37	chr11	60688430	60688430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctctgtctgggatcgccGcacagctgctgaatgccttg	5	12	12	12	2	2	1	0	1	2	0	3	2	2	2	2	1	4	4	2	1	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:60688430G>A	uc001nqg.2	+	3	688	c.310G>A	c.(310-312)GCA>ACA	p.A104T	TMEM109_uc001nqh.2_Missense_Mutation_p.A104T	NM_024092	NP_076997	Q9BVC6	TM109_HUMAN	transmembrane protein 109 precursor	104	Helical; (Potential).					integral to membrane|nuclear outer membrane|sarcoplasmic reticulum membrane					0						TGGGATCGCCGCACAGCTGCT	0.537													28	94					0	0	0.007291	0	0		A	60688430	A	A	60688430	3	1	212	1	0	0	0	0	1	0	0	0	16050	1087	38	1	316	1	TMEM109	11	60688430	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	145265	60688430	74318086	913	104718											
VWCE	220001	broad.mit.edu	37	chr11	61048268	61048268	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacccctagtacccacctcGcaccagcactgggaacaccc	10	4	8	19	1	0	0	0	0	0	0	1	2	0	2	6	2	3	3	6	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:61048268G>A	uc001nra.2	-	8	1506	c.1227C>T	c.(1225-1227)TGC>TGT	p.C409C	VWCE_uc001nrb.2_RNA	NM_152718	NP_689931	Q96DN2	VWCE_HUMAN	von Willebrand factor C and EGF domains	409	VWFC 1.					extracellular region	calcium ion binding			ovary(1)	1						TACCCACCTCGCACCAGCACT	0.627													8	19					0	0	0.004482	0	0		A	61048268	A	A	61048268	2	1	212	1	0	0	0	0	0	0	0	1	17271	1079	38	1		1	VWCE	11	61048268	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	359838	61048268	73958248	914	104719											
DAGLA	747	broad.mit.edu	37	chr11	61491028	61491028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaggaggcagcgtaacctgCggacctacaacctgcggtca	11	5	13	12	3	1	1	1	0	0	1	1	3	1	3	3	4	6	2	3	4	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:61491028C>T	uc001nsa.2	+	5	643	c.532C>T	c.(532-534)CGG>TGG	p.R178W		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	178	Cytoplasmic (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		GCGTAACCTGCGGACCTACAA	0.607													28	85					0	0	0.00632	0	0		T	61491028	T	T	61491028	3	4	212	1	0	0	0	0	1	0	0	0	4229	759	27	1	546	1	DAGLA	11	61491028	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	442760	61491028	73515488	915	104720											
FTH1	2495	broad.mit.edu	37	chr11	61732559	61732559	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	actccattgcattcagcccgCtctcccagtcatcacagtct	8	11	5	17	1	5	0	3	0	2	0	7	0	6	0	3	0	2	2	3	0	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:61732559C>A	uc001nsu.2	-	3	522	c.287G>T	c.(286-288)AGC>ATC	p.S96I		NM_002032	NP_002023	P02794	FRIH_HUMAN	ferritin, heavy polypeptide 1	96	Ferritin-like diiron.				cell proliferation|cellular membrane organization|immune response|intracellular sequestering of iron ion|iron ion transport|negative regulation of cell proliferation|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|ferroxidase activity|protein binding			ovary(1)	1					Iron Dextran(DB00893)	ATTCAGCCCGCTCTCCCAGTC	0.448													51	138					7.50695e-29	8.81251e-29	0.01441	1	0		A	61732559	A	A	61732559	3	1	212	1	0	0	0	0	1	0	0	0	6096	797	28	5	272	5	FTH1	11	61732559	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	241531	61732559	73273957	916	104721											
AHNAK	79026	broad.mit.edu	37	chr11	62287566	62287566	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gggcatcttcaggtgccagtCtgggccatgaacatccacat	9	9	11	12	0	3	1	1	1	2	0	4	1	4	1	3	3	2	1	3	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:62287566C>T	uc001ntl.2	-	5	14623	c.14323G>A	c.(14323-14325)GAC>AAC	p.D4775N	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	4775					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AGGTGCCAGTCTGGGCCATGA	0.537													66	210					0	0	0.01441	0	0		T	62287566	T	T	62287566	3	4	212	1	0	0	0	0	1	0	0	0	414	913	32	4	3469	4	AHNAK	11	62287566	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	555007	62287566	72718950	917	104722											
EML3	256364	broad.mit.edu	37	chr11	62378607	62378607	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctgaggatccccggggggCcaggggagccagcaccactg	7	3	17	14	1	0	1	0	1	0	0	1	3	1	3	6	6	2	1	6	6	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:62378607C>T	uc001ntu.1	-	3	712	c.404G>A	c.(403-405)GGC>GAC	p.G135D	EML3_uc001ntr.1_Missense_Mutation_p.G107D|EML3_uc001nts.1_Missense_Mutation_p.G107D|EML3_uc001ntt.1_Missense_Mutation_p.A32T|EML3_uc010rly.1_Missense_Mutation_p.G135D|EML3_uc009yny.1_5'UTR|ROM1_uc001ntv.2_5'Flank	NM_153265	NP_694997	Q32P44	EMAL3_HUMAN	echinoderm microtubule associated protein like	135						cytoplasm|microtubule	protein binding			ovary(1)	1						CCCCGGGGGGCCAGGGGAGCC	0.682													8	6					0	0	0.004482	0	0		T	62378607	T	T	62378607	3	4	212	1	0	0	0	0	1	0	0	0	5106	739	26	2	2366	2	EML3	11	62378607	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	91041	62378607	72627909	918	104723											
SLC22A10	387775	broad.mit.edu	37	chr11	63064880	63064880	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttactgtgtactacgcttCttggcaggtttttcttccat	5	19	8	9	1	2	0	0	0	2	0	3	0	3	0	1	2	3	5	1	2	3	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:63064880C>A	uc009yor.2	+	3	820	c.612C>A	c.(610-612)TTC>TTA	p.F204L	SLC22A10_uc010rmo.1_RNA|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Intron	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	204	Helical; (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						TACTACGCTTCTTGGCAGGTT	0.413													23	87					2.89027e-11	3.17756e-11	0.014323	1	0		A	63064880	A	A	63064880	3	1	212	1	0	0	0	0	1	0	0	0	14466	912	32	5	622	5	SLC22A10	11	63064880	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	686273	63064880	71941636	919	104724											
FLRT1	23769	broad.mit.edu	37	chr11	63883698	63883698	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctccttgcaggtattcaGgctccaggccaggtggggcc	5	9	15	12	0	1	0	1	0	0	0	3	0	3	0	4	6	2	4	4	6	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:63883698G>T	uc001nyi.1	+	2	300	c.-41G>T	c.(-43--39)CAGGC>CATGC		MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein						cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						CAGGTATTCAGGCTCCAGGCC	0.507													8	17					0.00448238	0.00457203	0.004482	1	0		T	63883698	T	T	63883698	1	4	212	1	0	0	0	0	0	0	0	0	5952	1015	35	5		5	FLRT1	11	63883698	Translation_Start_Site	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	818818	63883698	71122818	920	104725											
SLC22A11	55867	broad.mit.edu	37	chr11	64329769	64329769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccacgaccagcaggagggCggtcaccatgacggtggtgg	9	4	17	11	3	1	1	1	1	0	0	1	4	1	2	3	6	1	1	3	6	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:64329769C>T	uc001oai.2	+	4	1057	c.683C>T	c.(682-684)GCG>GTG	p.A228V	SLC22A11_uc001oah.1_Silent_p.G193G|SLC22A11_uc001oaj.2_Missense_Mutation_p.A228V|SLC22A11_uc009ypq.2_Missense_Mutation_p.A228V|SLC22A11_uc001oak.1_Missense_Mutation_p.A57V	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11	228	Cytoplasmic (Potential).				urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	AGCAGGAGGGCGGTCACCATG	0.682													22	73					0	0	0.00333	0	0		T	64329769	T	T	64329769	3	4	212	1	0	0	0	0	1	0	0	0	14467	768	27	1	697	1	SLC22A11	11	64329769	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	446071	64329769	70676747	921	104726											
NRXN2	9379	broad.mit.edu	37	chr11	64453195	64453195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	attgacgggttccacaagggCctcgaaggcacctgagccta	10	7	12	12	2	0	2	0	2	0	0	2	3	1	2	4	3	1	2	4	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:64453195C>T	uc001oar.2	-	7	1514	c.1075G>A	c.(1075-1077)GCC>ACC	p.A359T	NRXN2_uc001oas.2_Missense_Mutation_p.A335T|NRXN2_uc001oaq.2_Missense_Mutation_p.A33T	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TCCACAAGGGCCTCGAAGGCA	0.602													36	115					0	0	0.007835	0	0		T	64453195	T	T	64453195	3	4	212	1	0	0	0	0	1	0	0	0	10685	739	26	2	4404	2	NRXN2	11	64453195	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	123426	64453195	70553321	922	104727											
CDC42BPG	55561	broad.mit.edu	37	chr11	64597443	64597443	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctccgccagggcaaagagaCgcacgctggggccgcggcca	8	2	16	15	5	0	1	0	0	0	1	1	2	1	1	4	4	0	4	4	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:64597443C>T	uc001obs.3	-	30	3467	c.3467G>A	c.(3466-3468)CGT>CAT	p.R1156H		NM_017525	NP_059995	Q6DT37	MRCKG_HUMAN	CDC42 binding protein kinase gamma (DMPK-like)	1156	CNH.				actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|centrosome	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(3)|central_nervous_system(1)	4						GGCAAAGAGACGCACGCTGGG	0.662													15	54					0	0	0.00499	0	0		T	64597443	T	T	64597443	3	4	212	1	0	0	0	0	1	0	0	0	3077	536	19	1	1220	1	CDC42BPG	11	64597443	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	144248	64597443	70409073	923	104728											
PCNXL3	399909	broad.mit.edu	37	chr11	65391432	65391432	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gatgcggcgtcccccatgcaCgtgagtacccatggagcagc	8	6	13	14	3	0	1	0	1	0	0	1	3	1	2	3	2	5	3	3	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:65391432C>T	uc001oey.2	+	13	2544	c.2544C>T	c.(2542-2544)CAC>CAT	p.H848H	PCNXL3_uc009yqn.2_5'Flank|PCNXL3_uc001oez.2_5'Flank	NM_032223	NP_115599	Q9H6A9	PCX3_HUMAN	pecanex-like 3	848						integral to membrane					0						CCCCCATGCACGTGAGTACCC	0.582													21	59					0	0	0.00333	0	0		T	65391432	T	T	65391432	2	4	212	1	0	0	0	0	0	0	0	1	11612	550	19	1		1	PCNXL3	11	65391432	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	793989	65391432	69615084	924	104729											
NPAS4	266743	broad.mit.edu	37	chr11	66190222	66190222	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcaacaaactcgtgcttattCgaggccgattccatgctcac	10	10	8	13	3	1	0	1	0	0	0	4	2	2	0	2	1	4	3	2	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:66190222C>T	uc001ohx.1	+	4	684	c.508C>T	c.(508-510)CGA>TGA	p.R170*	NPAS4_uc010rpc.1_5'UTR	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	170					transcription, DNA-dependent		DNA binding|signal transducer activity				0						CGTGCTTATTCGAGGCCGATT	0.577													37	89					0	0	0.004878	0	0		T	66190222	T	T	66190222	4	4	212	1	0	0	0	0	0	1	0	0	10584	876	31	1	522	1	NPAS4	11	66190222	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	798790	66190222	68816294	925	104730											
RBM14	10432	broad.mit.edu	37	chr11	66393136	66393136	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atccctacaaaaaggctgtcGccatgtcgaaaaggtactgt	13	9	9	10	2	0	0	0	0	0	0	3	1	1	0	2	2	2	2	2	2	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:66393136G>A	uc001oit.2	+	2	1928	c.1789G>A	c.(1789-1791)GCC>ACC	p.A597T	RBM14_uc009yrh.2_Intron|RBM14_uc009yri.2_Intron|RBM4_uc009yrj.2_Intron|RBM4_uc009yrk.2_Intron	NM_006328	NP_006319	Q96PK6	RBM14_HUMAN	RNA binding motif protein 14	597					DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|histone deacetylation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus	mediator complex|ribonucleoprotein complex|transcription factor complex	ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|protein binding, bridging|RNA binding|RNA polymerase II transcription cofactor activity			ovary(2)|central_nervous_system(1)	3						AAAGGCTGTCGCCATGTCGAA	0.662													18	28					0	0	0.00278	0	0		A	66393136	A	A	66393136	3	1	212	1	0	0	0	0	1	0	0	0	13140	1087	38	1	1795	1	RBM14	11	66393136	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	202914	66393136	68613380	926	104731											
PITPNM1	9600	broad.mit.edu	37	chr11	67266215	67266215	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atccgcctgcttggagttggCgtctccagggcctgagtcca	5	10	13	13	2	1	1	0	1	1	0	4	2	3	2	5	3	1	2	5	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:67266215C>T	uc001olx.2	-	9	1525	c.1336G>A	c.(1336-1338)GCC>ACC	p.A446T	PITPNM1_uc001olw.2_5'Flank|PITPNM1_uc001oly.2_Missense_Mutation_p.A446T|PITPNM1_uc001olz.2_Missense_Mutation_p.A446T	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	446					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						TTGGAGTTGGCGTCTCCAGGG	0.667													22	56					0	0	0.014323	0	0		T	67266215	T	T	67266215	3	4	212	1	0	0	0	0	1	0	0	0	11969	768	27	1	2458	1	PITPNM1	11	67266215	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	873079	67266215	67740301	927	104732											
PITPNM1	9600	broad.mit.edu	37	chr11	67266285	67266285	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgtggactgcgcatgcCtcagcccccagctccccggc	5	5	13	18	3	1	0	1	0	0	0	2	1	2	1	5	3	4	2	5	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:67266285C>A	uc001olx.2	-	9	1455	c.1266G>T	c.(1264-1266)GAG>GAT	p.E422D	PITPNM1_uc001olw.2_5'Flank|PITPNM1_uc001oly.2_Missense_Mutation_p.E422D|PITPNM1_uc001olz.2_Missense_Mutation_p.E422D	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	422					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						CTGCGCATGCCTCAGCCCCCA	0.657													19	50					3.51602e-12	3.89819e-12	0.008871	1	0		A	67266285	A	A	67266285	3	1	212	1	0	0	0	0	1	0	0	0	11969	680	24	5	2528	5	PITPNM1	11	67266285	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	70	67266285	67740231	928	104733											
ALDH3B2	222	broad.mit.edu	37	chr11	67434057	67434057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcctcacctgcggcgagggCgcccaccaggagcaccaggg	7	3	14	17	3	1	0	1	0	0	0	2	2	2	1	5	4	2	1	5	4	0	0	rs1140670		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:67434057C>T	uc001omr.2	-	4	578	c.139G>A	c.(139-141)GCC>ACC	p.A47T	ALDH3B2_uc001oms.2_Missense_Mutation_p.A47T|ALDH3B2_uc009ysa.1_Missense_Mutation_p.A47T	NM_000695	NP_000686	P48448	AL3B2_HUMAN	aldehyde dehydrogenase 3B2	47				ALA -> TLP (in Ref. 1; AAA85441 and 2; no nucleotide entry).	alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase			lung(1)|kidney(1)	2					NADH(DB00157)	GCGGCGAGGGCGCCCACCAGG	0.637													18	37					0	0	0.007413	0	0		T	67434057	T	T	67434057	3	4	212	1	0	0	0	0	1	0	0	0	500	768	27	1	1046	1	ALDH3B2	11	67434057	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	167772	67434057	67572459	929	104734											
LRP5	4041	broad.mit.edu	37	chr11	68125290	68125290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaagctcagcttcatccacCgtgccaacctggacggctcg	8	7	9	17	3	2	0	2	0	0	0	4	1	3	1	5	2	4	3	5	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:68125290C>T	uc001ont.2	+	3	736	c.661C>T	c.(661-663)CGT>TGT	p.R221C	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	221	Beta-propeller 1.|LDL-receptor class B 4.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						CTTCATCCACCGTGCCAACCT	0.577													7	14					0	0	0.001984	0	0		T	68125290	T	T	68125290	3	4	212	1	0	0	0	0	1	0	0	0	8978	652	23	1	671	1	LRP5	11	68125290	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	691233	68125290	66881226	930	104735											
SAPS3	55291	broad.mit.edu	37	chr11	68369411	68369411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaccctctgactcccagtgCggctgccctggcagtgcagc	5	7	13	16	1	1	1	0	1	1	0	2	2	2	2	3	3	4	3	3	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:68369411C>T	uc001onw.2	+	21	2540	c.2273C>T	c.(2272-2274)GCG>GTG	p.A758V	SAPS3_uc001onv.2_Missense_Mutation_p.A758V|SAPS3_uc001ony.3_Missense_Mutation_p.A729V|SAPS3_uc001onx.2_Missense_Mutation_p.A752V|SAPS3_uc009ysh.2_Missense_Mutation_p.A678V|SAPS3_uc001onu.2_Missense_Mutation_p.A678V|SAPS3_uc010rqc.1_Missense_Mutation_p.A526V|SAPS3_uc010rqd.1_Missense_Mutation_p.A441V|SAPS3_uc001onz.2_Missense_Mutation_p.A86V|SAPS3_uc001ooa.2_Missense_Mutation_p.A208V	NM_001164161	NP_001157633	Q5H9R7	PP6R3_HUMAN	SAPS domain family, member 3 isoform 6	758					regulation of phosphoprotein phosphatase activity	cytoplasm|nucleus	protein phosphatase binding				0			LUAD - Lung adenocarcinoma(13;0.102)			ACTCCCAGTGCGGCTGCCCTG	0.517													24	98					0	0	0.004656	0	0		T	68369411	T	T	68369411	3	4	212	1	0	0	0	0	1	0	0	0	13863	768	27	1	2347	1	SAPS3	11	68369411	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	244121	68369411	66637105	931	104736											
MTL5	9633	broad.mit.edu	37	chr11	68475967	68475967	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatgcatgaggaaggccGcctgtcagaaacagagcagt	13	5	15	8	1	1	4	1	1	0	3	1	6	1	5	2	3	3	2	2	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:68475967G>A	uc001ooc.2	-	10	1476	c.1336C>T	c.(1336-1338)CGG>TGG	p.R446W		NM_004923	NP_004914	Q9Y4I5	MTL5_HUMAN	metallothionein-like 5, testis-specific isoform	446					cell differentiation|cellular metal ion homeostasis|multicellular organismal development|response to metal ion|spermatogenesis	cytoplasm|nucleus|soluble fraction	metal ion binding			ovary(2)|breast(1)	3	Esophageal squamous(3;4.37e-12)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.185)			GAGGAAGGCCGCCTGTCAGAA	0.507													9	27					0	0	0.006214	0	0		A	68475967	A	A	68475967	3	1	212	1	0	0	0	0	1	0	0	0	9954	1101	38	1	194	1	MTL5	11	68475967	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	106556	68475967	66530549	932	104737											
IGHMBP2	3508	broad.mit.edu	37	chr11	68673617	68673617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcaggtatccagccagcGcactgggctgtacggacggc	7	6	15	13	3	0	0	0	0	0	0	1	1	1	1	2	4	4	6	2	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:68673617G>A	uc001ook.1	+	2	269	c.167G>A	c.(166-168)CGC>CAC	p.R56H	IGHMBP2_uc001ooj.1_RNA|MRPL21_uc001ooh.2_5'Flank|MRPL21_uc001ooi.2_5'Flank|MRPL21_uc010rqe.1_5'Flank	NM_002180	NP_002171	P38935	SMBP2_HUMAN	immunoglobulin mu binding protein 2	56					cell death|DNA recombination|DNA repair|DNA replication|protein homooligomerization|transcription, DNA-dependent|translation	axon|growth cone|nucleus|ribonucleoprotein complex	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' RNA helicase activity|ribosome binding|single-stranded DNA binding|transcription factor binding|tRNA binding|zinc ion binding				0			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			TCCAGCCAGCGCACTGGGCTG	0.587													26	63					0	0	0.003954	0	0		A	68673617	A	A	68673617	3	1	212	1	0	0	0	0	1	0	0	0	7607	1087	38	1	173	1	IGHMBP2	11	68673617	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	197650	68673617	66332899	933	104738											
MRGPRD	116512	broad.mit.edu	37	chr11	68747523	68747523	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcattggtgcccacggtgggCgtctccccaccttccagctc	4	10	10	17	2	2	0	1	0	1	0	5	0	3	0	5	3	2	1	5	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:68747523C>T	uc010rqf.1	-	1	933	c.933G>A	c.(931-933)ACG>ACA	p.T311T		NM_198923	NP_944605	Q8TDS7	MRGRD_HUMAN	MAS-related GPR, member D	311	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(1)	1			STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)			CCACGGTGGGCGTCTCCCCAC	0.687													17	56					0	0	0.007413	0	0		T	68747523	T	T	68747523	2	4	212	1	0	0	0	0	0	0	0	1	9781	755	27	1		1	MRGPRD	11	68747523	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	73906	68747523	66258993	934	104739											
NUMA1	4926	broad.mit.edu	37	chr11	71724998	71724998	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cccgttgggccgaggctaagGcactctgactgtgccctagc	6	8	13	14	2	1	1	0	1	1	0	1	2	1	1	3	3	2	3	3	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:71724998G>A	uc001orl.1	-	15	3723	c.3551C>T	c.(3550-3552)GCC>GTC	p.A1184V	NUMA1_uc009ysw.1_Missense_Mutation_p.A747V|NUMA1_uc001ork.1_Intron|NUMA1_uc001orm.1_Missense_Mutation_p.A1184V|NUMA1_uc001orn.2_Missense_Mutation_p.A747V|NUMA1_uc009ysx.1_Missense_Mutation_p.A1184V|NUMA1_uc001oro.1_Missense_Mutation_p.A1184V	NM_006185	NP_006176	Q14980	NUMA1_HUMAN	nuclear mitotic apparatus protein 1	1184	Potential.				G2/M transition of mitotic cell cycle|mitotic anaphase|nucleus organization	chromosome|cytosol|nucleoplasm|spindle microtubule|spindle pole	protein binding|structural molecule activity			ovary(3)|lung(2)|skin(2)|central_nervous_system(1)	8						CGAGGCTAAGGCACTCTGACT	0.657			T	RARA	APL								31	54					0	0	0.009535	0	0		A	71724998	A	A	71724998	3	1	212	1	0	0	0	0	1	0	0	0	10769	1203	42	2	2848	2	NUMA1	11	71724998	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2977475	71724998	63281518	935	104740											
FOLR3	2352	broad.mit.edu	37	chr11	71847078	71847078	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagtgcccagcccaggagtgCgcgggccaggacggacctgc	7	3	17	14	3	0	0	0	0	0	0	0	4	0	3	4	4	4	0	4	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:71847078C>T	uc001ory.1	+	2	130	c.80C>T	c.(79-81)GCG>GTG	p.A27V	FOLR3_uc001orx.1_Missense_Mutation_p.A27V			P41439	FOLR3_HUMAN	SubName: Full=FOLR3 protein; Flags: Fragment;	25					folic acid transport	extracellular region|extrinsic to membrane|membrane fraction	folic acid binding|receptor activity				0					Folic Acid(DB00158)	CCCAGGAGTGCGCGGGCCAGG	0.632													35	154					0	0	0.00623	0	0		T	71847078	T	T	71847078	3	4	212	1	0	0	0	0	1	0	0	0	5997	768	27	1	82	1	FOLR3	11	71847078	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	122080	71847078	63159438	936	104741											
INPPL1	3636	broad.mit.edu	37	chr11	71942042	71942042	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccttcacctccaggaagtGtaccacctccaaaaaacgtg	12	7	6	16	1	1	0	1	0	0	0	3	1	3	1	7	1	2	1	7	1	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:71942042G>A	uc001osf.2	+	12	1453	c.1306G>A	c.(1306-1308)GTA>ATA	p.V436I	INPPL1_uc001osg.2_Missense_Mutation_p.V194I	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	436					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)|breast(1)	4						TCCAGGAAGTGTACCACCTCC	0.607													27	105					0	0	0.007291	0	0		A	71942042	A	A	71942042	3	1	212	1	0	0	0	0	1	0	0	0	7777	1377	48	4	1352	4	INPPL1	11	71942042	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	94964	71942042	63064474	937	104742											
RELT	84957	broad.mit.edu	37	chr11	73105738	73105738	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcccaaggccggggccaaGgcagggcgtcagggcgagat	8	4	18	11	3	1	1	1	0	0	1	2	2	2	1	3	6	0	2	3	6	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:73105738G>T	uc001otv.2	+	9	1170	c.1005G>T	c.(1003-1005)AAG>AAT	p.K335N	RELT_uc001otw.2_Missense_Mutation_p.K335N|RELT_uc001otx.2_RNA	NM_152222	NP_689408	Q969Z4	TR19L_HUMAN	RELT tumor necrosis factor receptor precursor	335	Cytoplasmic (Potential).					cytoplasm|integral to membrane|plasma membrane	binding|receptor activity			upper_aerodigestive_tract(1)	1						CCGGGGCCAAGGCAGGGCGTC	0.652													7	49					2.0095e-06	2.11915e-06	0.001984	1	0		T	73105738	T	T	73105738	3	4	212	1	0	0	0	0	1	0	0	0	13246	991	35	5	1035	5	RELT	11	73105738	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1163696	73105738	61900778	938	104743											
PLEKHB1	58473	broad.mit.edu	37	chr11	73372524	73372524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctgcaggccctggcgtgacGcacgtgatagtgcgggagga	7	7	17	10	4	1	2	0	2	1	0	1	4	1	4	1	4	2	2	1	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:73372524G>A	uc001oua.2	+	8	1040	c.609G>A	c.(607-609)ACG>ACA	p.T203T	PLEKHB1_uc001oub.2_Silent_p.T168T|PLEKHB1_uc001ouc.2_Silent_p.T184T|PLEKHB1_uc001oud.2_Silent_p.T149T|PLEKHB1_uc009ytq.2_Silent_p.T149T	NM_021200	NP_067023	Q9UF11	PKHB1_HUMAN	pleckstrin homology domain containing, family B	203					multicellular organismal development|phototransduction	cytoplasm|integral to membrane	signal transducer activity			ovary(1)|lung(1)	2						CTGGCGTGACGCACGTGATAG	0.657											OREG0021217	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	31					0	0	0.004482	0	0		A	73372524	A	A	73372524	2	1	212	1	0	0	0	0	0	0	0	1	12083	1074	38	1		1	PLEKHB1	11	73372524	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	266786	73372524	61633992	939	104744											
XRRA1	143570	broad.mit.edu	37	chr11	74617353	74617353	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcatctgagtcctcaagcaTccttggcttggactgcagca	8	11	9	13	0	3	1	2	1	1	0	5	2	5	2	2	2	3	4	2	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:74617353T>A	uc009yub.2	-	10	1242	c.910A>T	c.(910-912)ATG>TTG	p.M304L	XRRA1_uc001ovm.2_Intron|XRRA1_uc001ovn.2_5'UTR|XRRA1_uc001ovo.2_5'UTR|XRRA1_uc001ovq.3_Missense_Mutation_p.M304L|XRRA1_uc001ovp.3_Missense_Mutation_p.M71L|XRRA1_uc001ovr.2_5'UTR|XRRA1_uc001ovt.2_Missense_Mutation_p.M71L	NM_182969	NP_892014	Q6P2D8	XRRA1_HUMAN	X-ray radiation resistance associated 1	304					response to X-ray	cytoplasm|nucleus				central_nervous_system(1)	1						TCCTCAAGCATCCTTGGCTTG	0.498													4	55					0	0	0.000602	0	0		A	74617353	A	A	74617353	3	1	212	1	0	0	0	0	1	0	0	0	17487	1435	50	5	1508	5	XRRA1	11	74617353	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1244829	74617353	60389163	940	104745											
C11orf30	56946	broad.mit.edu	37	chr11	76261110	76261110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctggatgatgaggagacaGcaatggagcaggacatagac	15	5	15	6	0	0	4	0	2	0	2	0	8	0	7	0	4	3	3	0	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:76261110G>A	uc001oxl.2	+	21	4032	c.3889G>A	c.(3889-3891)GCA>ACA	p.A1297T	C11orf30_uc001oxm.2_Missense_Mutation_p.A1199T|C11orf30_uc010rsb.1_Missense_Mutation_p.A1312T|C11orf30_uc010rsc.1_Missense_Mutation_p.A1298T|C11orf30_uc001oxn.2_Missense_Mutation_p.A1298T|C11orf30_uc010rsd.1_Missense_Mutation_p.A1206T|C11orf30_uc010rse.1_Missense_Mutation_p.A544T|C11orf30_uc001oxp.2_Missense_Mutation_p.A230T	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	1297					chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						TGAGGAGACAGCAATGGAGCA	0.512													8	37					0	0	0.00308	0	0		A	76261110	A	A	76261110	3	1	212	1	0	0	0	0	1	0	0	0	1639	971	34	2	3967	2	C11orf30	11	76261110	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1643757	76261110	58745406	941	104746											
SYTL2	54843	broad.mit.edu	37	chr11	85407243	85407243	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacctgttccaaagccaataCgaagacctcccaaaaattgg	15	8	6	12	1	0	1	0	0	0	1	2	2	2	1	5	1	3	1	5	1	7	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:85407243C>T	uc010rth.1	-	17	2918	c.2642G>A	c.(2641-2643)CGT>CAT	p.R881H	SYTL2_uc010rtg.1_Missense_Mutation_p.R882H|SYTL2_uc010rti.1_Missense_Mutation_p.R857H|SYTL2_uc010rtj.1_Missense_Mutation_p.R849H|SYTL2_uc001pav.2_Missense_Mutation_p.R323H|SYTL2_uc010rte.1_Missense_Mutation_p.R283H|SYTL2_uc001pax.2_Missense_Mutation_p.R323H|SYTL2_uc001paz.2_Missense_Mutation_p.R202H|SYTL2_uc001pba.2_Missense_Mutation_p.R266H|SYTL2_uc001pay.2_Missense_Mutation_p.R312H|SYTL2_uc001paw.2_Missense_Mutation_p.R283H|SYTL2_uc009yvj.2_RNA|SYTL2_uc001pbd.2_Missense_Mutation_p.R1179H|SYTL2_uc001pbb.2_Missense_Mutation_p.R1219H|SYTL2_uc001pbc.2_Missense_Mutation_p.R1203H|SYTL2_uc010rtf.1_Missense_Mutation_p.R699H	NM_001162951	NP_001156423	Q9HCH5	SYTL2_HUMAN	synaptotagmin-like 2 isoform g	881					intracellular protein transport|vesicle docking involved in exocytosis	exocytic vesicle|extrinsic to plasma membrane|melanosome|membrane fraction	neurexin binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylserine binding|Rab GTPase binding			ovary(2)|large_intestine(1)	3		Acute lymphoblastic leukemia(157;4.19e-06)|all_hematologic(158;0.0033)		KIRC - Kidney renal clear cell carcinoma(183;0.202)|Kidney(183;0.237)		AAAGCCAATACGAAGACCTCC	0.408													25	82					0	0	0.00632	0	0		T	85407243	T	T	85407243	3	4	212	1	0	0	0	0	1	0	0	0	15508	536	19	1	170	1	SYTL2	11	85407243	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	9146133	85407243	49599273	942	104747											
CCDC83	220047	broad.mit.edu	37	chr11	85626507	85626507	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggactagaagtgccacctgaAgaaatgtctttggaattgcc	12	10	11	8	0	1	3	0	1	1	2	1	5	1	5	3	2	2	0	3	2	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:85626507A>C	uc001pbh.1	+	9	1352	c.840A>C	c.(838-840)GAA>GAC	p.E280D	CCDC83_uc001pbg.1_Missense_Mutation_p.E311D|CCDC83_uc001pbi.1_RNA|CCDC83_uc001pbj.1_Missense_Mutation_p.E181D	NM_173556	NP_775827	Q8IWF9	CCD83_HUMAN	coiled-coil domain containing 83	280										skin(1)	1		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				TGCCACCTGAAGAAATGTCTT	0.284													23	59					0	0	0.005443	0	0		C	85626507	C	C	85626507	3	2	212	1	0	0	0	0	1	0	0	0	2860	69	3	5	967	5	CCDC83	11	85626507	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	219264	85626507	49380009	943	104748											
FAT3	120114	broad.mit.edu	37	chr11	92258014	92258014	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaggacgtatctgtcattcaGatccaggctgaagatcctga	12	10	10	9	1	3	4	2	2	1	2	5	5	5	5	2	2	0	2	2	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:92258014G>A	uc001pdj.3	+	2	3524	c.3507G>A	c.(3505-3507)CAG>CAA	p.Q1169Q		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1169	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CTGTCATTCAGATCCAGGCTG	0.398										TCGA Ovarian(4;0.039)			13	20					0	0	0.003163	0	0		A	92258014	A	A	92258014	2	1	212	1	0	0	0	0	0	0	0	1	5705	933	33	4		4	FAT3	11	92258014	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6631507	92258014	42748502	944	104749											
HEPHL1	341208	broad.mit.edu	37	chr11	93800812	93800812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	catcagcagagggcatcggaCtgatgtcgtcaacctgttcc	9	9	11	12	2	2	2	2	1	0	1	5	3	3	3	2	2	2	3	2	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:93800812C>T	uc001pep.2	+	5	1116	c.959C>T	c.(958-960)ACT>ATT	p.T320I	uc001pen.1_RNA	NM_001098672	NP_001092142	Q6MZM0	HPHL1_HUMAN	hephaestin-like 1 precursor	320	Plastocyanin-like 2.|Extracellular (Potential).				copper ion transport	integral to membrane	copper ion binding|oxidoreductase activity			ovary(3)	3		Acute lymphoblastic leukemia(157;2.34e-05)|all_hematologic(158;0.00824)				GGGCATCGGACTGATGTCGTC	0.478													41	109					0	0	0.01441	0	0		T	93800812	T	T	93800812	3	4	212	1	0	0	0	0	1	0	0	0	7071	565	20	4	977	4	HEPHL1	11	93800812	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1542798	93800812	41205704	945	104750											
CNTN5	53942	broad.mit.edu	37	chr11	100179126	100179126	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacagatgtcaaggcgacaAgtgtgtctgtgtcagagatt	11	10	12	8	1	3	2	2	0	1	2	3	4	3	2	1	1	0	0	1	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:100179126A>C	uc001pga.2	+	21	2995	c.2656A>C	c.(2656-2658)AGT>CGT	p.S886R	CNTN5_uc001pfz.2_Missense_Mutation_p.S886R|CNTN5_uc001pgb.2_Missense_Mutation_p.S812R|CNTN5_uc010ruk.1_Missense_Mutation_p.S157R	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	886	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CAAGGCGACAAGTGTGTCTGT	0.398													6	29					0	0	0.004482	0	0		C	100179126	C	C	100179126	3	2	212	1	0	0	0	0	1	0	0	0	3647	72	3	5	2730	5	CNTN5	11	100179126	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6378314	100179126	34827390	946	104751											
PGR	5241	broad.mit.edu	37	chr11	100998925	100998925	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtggtggccagcggggagcGcccgggcgccatcggcgcgt	3	4	20	14	8	0	0	0	0	0	0	1	1	0	1	3	6	2	0	3	6	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:100998925G>A	uc001pgh.2	-	1	1620	c.877C>T	c.(877-879)CGC>TGC	p.R293C	PGR_uc001pgi.2_Missense_Mutation_p.R293C|PGR_uc009yww.1_RNA|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA|uc010rum.1_5'Flank	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	293	Modulating, Pro-Rich.				cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	AGCGGGGAGCGCCCGGGCGCC	0.677													11	21					0	0	0.013537	0	0		A	100998925	A	A	100998925	3	1	212	1	0	0	0	0	1	0	0	0	11824	1087	38	1	1956	1	PGR	11	100998925	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	819799	100998925	34007591	947	104752											
TRPC6	7225	broad.mit.edu	37	chr11	101374812	101374812	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattgctaagttctaaagcCgtcatgactggatcttcact	10	14	7	10	1	5	1	3	1	2	0	5	2	5	2	1	1	2	2	1	1	3	5	rs144891994		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:101374812C>A	uc001pgk.3	-	2	1313	c.888G>T	c.(886-888)ACG>ACT	p.T296T	TRPC6_uc009ywy.2_Silent_p.T296T|TRPC6_uc009ywz.1_Silent_p.T296T	NM_004621	NP_004612	Q9Y210	TRPC6_HUMAN	transient receptor potential cation channel,	296	Cytoplasmic (Potential).				axon guidance|platelet activation|positive regulation of calcium ion transport via store-operated calcium channel activity	integral to membrane|plasma membrane	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(157;0.000918)|all_hematologic(158;0.0162)		BRCA - Breast invasive adenocarcinoma(274;0.0442)		GTTCTAAAGCCGTCATGACTG	0.458													48	166					1.32667e-27	1.55441e-27	0.01441	1	0		A	101374812	A	A	101374812	2	1	212	1	0	0	0	0	0	0	0	1	16609	639	23	5		5	TRPC6	11	101374812	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	375887	101374812	33631704	948	104753											
CASP5	838	broad.mit.edu	37	chr11	104879548	104879548	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttactttttacactggtcGacttttgatccgtattaggt	7	19	7	8	2	1	1	0	1	1	0	3	2	2	1	1	2	2	1	1	2	4	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:104879548G>A	uc010rva.1	-	2	199	c.167C>T	c.(166-168)TCG>TTG	p.S56L	CASP5_uc010ruz.1_Missense_Mutation_p.S69L|CASP5_uc010rvb.1_Intron|CASP5_uc010rvc.1_Intron|CASP5_uc009yxh.2_Intron|CASP5_uc010rvd.1_Intron	NM_004347	NP_004338	P51878	CASP5_HUMAN	caspase 5 isoform a precursor	56	CARD.				apoptosis|cellular response to mechanical stimulus|proteolysis|regulation of apoptosis	intracellular	cysteine-type endopeptidase activity|protein binding			ovary(2)|lung(1)	3		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000943)|Epithelial(105;0.0104)|all cancers(92;0.042)		TACACTGGTCGACTTTTGATC	0.383													9	31					0	0	0.006214	0	0		A	104879548	A	A	104879548	3	1	212	1	0	0	0	0	1	0	0	0	2677	1059	37	1	1169	1	CASP5	11	104879548	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3504736	104879548	30126968	949	104754											
GRIA4	2893	broad.mit.edu	37	chr11	105483047	105483047	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atcaggaatacactgcttttCgattagcaatttttcttcat	11	17	5	8	1	3	0	2	0	1	0	4	2	3	1	0	1	3	2	0	1	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:105483047C>T	uc001pix.2	+	3	579	c.133C>T	c.(133-135)CGA>TGA	p.R45*	GRIA4_uc001piu.1_Nonsense_Mutation_p.R45*|GRIA4_uc001piw.2_Nonsense_Mutation_p.R45*|GRIA4_uc001piv.2_Nonsense_Mutation_p.R45*|GRIA4_uc009yxk.1_Nonsense_Mutation_p.R45*|GRIA4_uc001pit.2_Nonsense_Mutation_p.R45*	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	45	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	CACTGCTTTTCGATTAGCAAT	0.413													31	82					0	0	0.013726	0	0		T	105483047	T	T	105483047	4	4	212	1	0	0	0	0	0	1	0	0	6786	876	31	1	139	1	GRIA4	11	105483047	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	603499	105483047	29523469	950	104755											
GUCY1A2	2977	broad.mit.edu	37	chr11	106888515	106888515	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggctgatgctctcgcccagCgagtccaggttgacccgcct	5	8	12	16	4	1	2	0	2	1	0	3	3	2	2	4	2	2	3	4	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:106888515C>T	uc001pjg.1	-	1	657	c.267G>A	c.(265-267)TCG>TCA	p.S89S	GUCY1A2_uc010rvo.1_Silent_p.S89S|GUCY1A2_uc009yxn.1_Silent_p.S89S	NM_000855	NP_000846	P33402	GCYA2_HUMAN	guanylate cyclase 1, soluble, alpha 2	89					intracellular signal transduction|platelet activation	cytoplasm	GTP binding|guanylate cyclase activity|heme binding			large_intestine(3)|lung(2)|pancreas(2)|ovary(1)	8		all_epithelial(67;3.66e-05)|Melanoma(852;0.000382)|Acute lymphoblastic leukemia(157;0.001)|all_hematologic(158;0.0017)|Breast(348;0.026)|all_neural(303;0.068)		BRCA - Breast invasive adenocarcinoma(274;8.04e-05)|Epithelial(105;0.0036)|all cancers(92;0.0476)		TCTCGCCCAGCGAGTCCAGGT	0.517													4	9					0	0	0.001168	0	0		T	106888515	T	T	106888515	2	4	212	1	0	0	0	0	0	0	0	1	6909	755	27	1		1	GUCY1A2	11	106888515	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1405468	106888515	28118001	951	104756											
ZC3H12C	85463	broad.mit.edu	37	chr11	110035459	110035459	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggagttcatttcccacCtcaggatcaaagaccacagg	12	9	8	12	0	4	1	3	0	1	1	5	3	5	3	3	3	0	1	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:110035459C>A	uc009yxw.2	+	6	1700	c.1649C>A	c.(1648-1650)CCT>CAT	p.P550H	ZC3H12C_uc010rwc.1_Missense_Mutation_p.P551H|ZC3H12C_uc010rwd.1_Missense_Mutation_p.P551H|ZC3H12C_uc001pkr.3_Missense_Mutation_p.P519H	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	550							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		CATTTCCCACCTCAGGATCAA	0.433													6	87					3.09899e-07	3.29649e-07	0.004482	1	0		A	110035459	A	A	110035459	3	1	212	1	0	0	0	0	1	0	0	0	17588	681	24	5	1671	5	ZC3H12C	11	110035459	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3146944	110035459	24971057	952	104757											
APOA4	337	broad.mit.edu	37	chr11	116691900	116691900	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggtccaggtgcccacccaGctctgccagtgacttctgca	6	9	10	16	0	2	1	0	1	2	0	3	1	3	1	4	2	4	2	4	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:116691900G>T	uc001pps.1	-	3	978	c.874C>A	c.(874-876)CTG>ATG	p.L292M		NM_000482	NP_000473			apolipoprotein A-IV precursor												0	all_hematologic(175;0.0487)	Breast(348;0.0126)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0564)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;8.54e-06)|Epithelial(105;1.62e-05)|all cancers(92;0.000165)|OV - Ovarian serous cystadenocarcinoma(223;0.148)		TGCCCACCCAGCTCTGCCAGT	0.657													57	33					7.89702e-26	9.23499e-26	0.01441	1	0		T	116691900	T	T	116691900	3	4	212	1	0	0	0	0	1	0	0	0	783	962	34	5	320	5	APOA4	11	116691900	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6656441	116691900	18314616	953	104758											
DSCAML1	57453	broad.mit.edu	37	chr11	117403175	117403175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagcgataggtggagagggCgtcctccttctgtacgtcag	7	9	15	10	3	2	1	1	0	1	1	4	3	4	1	2	3	2	2	2	3	2	3	rs142110596		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:117403175C>T	uc001prh.1	-	4	756	c.754G>A	c.(754-756)GCC>ACC	p.A252T	DSCAML1_uc001pri.1_Missense_Mutation_p.A56T	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	192	Extracellular (Potential).|Ig-like C2-type 2.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GTGGAGAGGGCGTCCTCCTTC	0.557													29	100					0	0	0.008361	0	0		T	117403175	T	T	117403175	3	4	212	1	0	0	0	0	1	0	0	0	4775	768	27	1	5707	1	DSCAML1	11	117403175	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	711275	117403175	17603341	954	104759											
UBE4A	9354	broad.mit.edu	37	chr11	118245827	118245827	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggtgctgctctcctgaagCtatgccagccattttgcaaa	8	12	10	11	0	1	1	0	1	1	0	2	1	1	1	3	1	6	4	3	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:118245827C>A	uc001psw.2	+	9	1462	c.1333C>A	c.(1333-1335)CTA>ATA	p.L445I	UBE4A_uc001psv.2_Missense_Mutation_p.L452I	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	445					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	5	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.28e-05)		TCTCCTGAAGCTATGCCAGCC	0.458													18	93					2.4624e-09	2.66252e-09	0.008871	1	0		A	118245827	A	A	118245827	3	1	212	1	0	0	0	0	1	0	0	0	16908	796	28	5	1384	5	UBE4A	11	118245827	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	842652	118245827	16760689	955	104760											
BCL9L	283149	broad.mit.edu	37	chr11	118772051	118772051	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcaagtccccagggccccGcatcttctgcgacatcagca	9	7	8	17	2	4	0	2	0	2	0	5	1	5	0	4	1	2	2	4	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:118772051G>A	uc001pug.2	-	6	3366	c.2401C>T	c.(2401-2403)CGG>TGG	p.R801W	BCL9L_uc009zal.2_Missense_Mutation_p.R796W	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	801	Met-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		CCAGGGCCCCGCATCTTCTGC	0.517													12	67					0	0	0.001855	0	0		A	118772051	A	A	118772051	3	1	212	1	0	0	0	0	1	0	0	0	1383	1086	38	1	2110	1	BCL9L	11	118772051	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	526224	118772051	16234465	956	104761											
MFRP	83552	broad.mit.edu	37	chr11	119216564	119216564	+	Missense_Mutation	SNP	T	G	G	0	1	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	agaggtggtgatggtgggggTggtggtggtcgtggtaaggc	5	10	24	2	1	0	2	0	1	0	1	1	2	0	2	0	10	0	1	0	10	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:119216564T>G	uc001pwj.2	-	4	506	c.346A>C	c.(346-348)ACC>CCC	p.T116P	MFRP_uc010rzf.1_RNA|MFRP_uc010rzg.1_Missense_Mutation_p.T116P	NM_031433	NP_113621	Q9BXJ0	C1QT5_HUMAN	membrane frizzled-related protein	37	Collagen-like.					collagen					0		Medulloblastoma(222;0.0523)|Breast(348;0.174)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;3.84e-05)		atggtgggggtggtggtggtc	0.552													25	112					0	0	0.004656	0	0		G	119216564	G	G	119216564	3	3	212	1	0	0	0	0	1	0	0	0	9544	1696	59	5	1433	5	MFRP	11	119216564	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	444513	119216564	15789952	957	104762											
GRIK4	2900	broad.mit.edu	37	chr11	120744855	120744855	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaccggagccaagagatcggCgtgaagcccttgtcctgcgg	9	6	14	12	4	0	2	0	1	0	1	2	4	1	3	4	3	4	0	4	3	3	1	rs111523175		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:120744855C>T	uc001pxn.2	+	10	1274	c.987C>T	c.(985-987)GGC>GGT	p.G329G	GRIK4_uc009zav.1_Silent_p.G329G|GRIK4_uc009zaw.1_Silent_p.G329G|GRIK4_uc009zax.1_Silent_p.G329G	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	329	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	AAGAGATCGGCGTGAAGCCCT	0.577													16	63					0	0	0.00499	0	0		T	120744855	T	T	120744855	2	4	212	1	0	0	0	0	0	0	0	1	6792	755	27	1		1	GRIK4	11	120744855	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1528291	120744855	14261661	958	104763											
TECTA	7007	broad.mit.edu	37	chr11	120980049	120980049	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcacaatggaattcgaggcGagatctattacagagagacc	14	8	11	8	2	1	3	0	0	1	3	2	7	1	4	1	2	2	1	1	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:120980049G>A	uc010rzo.1	+	3	328	c.328G>A	c.(328-330)GAG>AAG	p.E110K		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	110	NIDO.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AATTCGAGGCGAGATCTATTA	0.512													7	95					0	0	0.00308	0	0		A	120980049	A	A	120980049	3	1	212	1	0	0	0	0	1	0	0	0	15772	1059	37	1	338	1	TECTA	11	120980049	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	235194	120980049	14026467	959	104764											
TECTA	7007	broad.mit.edu	37	chr11	120996158	120996158	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acgcctccatttccgtcccaGgctcctatataaactccacc	9	10	4	18	2	0	0	0	0	0	0	5	0	5	0	7	1	1	1	7	1	4	4	rs150823097		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:120996158G>T	uc010rzo.1	+	7	1351	c.1351G>T	c.(1351-1353)GGC>TGC	p.G451C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	451	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TTCCGTCCCAGGCTCCTATAT	0.502													18	557					3.5997e-14	4.05214e-14	0.014323	1	0		T	120996158	T	T	120996158	3	4	212	1	0	0	0	0	1	0	0	0	15772	1000	35	5	1377	5	TECTA	11	120996158	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	16109	120996158	14010358	960	104765											
TECTA	7007	broad.mit.edu	37	chr11	121000442	121000442	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acgacagtggagtccaagggCgtggtgactgtccagtactc	9	8	14	10	2	0	1	0	1	0	0	3	3	2	2	2	3	1	1	2	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:121000442C>T	uc010rzo.1	+	9	2463	c.2463C>T	c.(2461-2463)GGC>GGT	p.G821G		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	821	VWFD 2.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		AGTCCAAGGGCGTGGTGACTG	0.478													48	201					0	0	0.01441	0	0		T	121000442	T	T	121000442	2	4	212	1	0	0	0	0	0	0	0	1	15772	755	27	1		1	TECTA	11	121000442	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4284	121000442	14006074	961	104766											
TECTA	7007	broad.mit.edu	37	chr11	121000757	121000757	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aacagctccttcctggagtgCcatggggtggtgaacgtcac	8	9	13	11	1	1	1	1	1	0	0	3	2	3	2	3	4	4	1	3	4	2	1	rs149008453		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:121000757C>T	uc010rzo.1	+	9	2778	c.2778C>T	c.(2776-2778)TGC>TGT	p.C926C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	926	VWFD 2.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TCCTGGAGTGCCATGGGGTGG	0.582													22	104					0	0	0.014323	0	0		T	121000757	T	T	121000757	2	4	212	1	0	0	0	0	0	0	0	1	15772	747	26	2		2	TECTA	11	121000757	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	315	121000757	14005759	962	104767											
TECTA	7007	broad.mit.edu	37	chr11	121016728	121016728	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gactcttgcatcgatgggggCgcggtgcagaccgcctgcag	6	7	16	12	4	1	1	0	0	1	1	2	3	1	1	2	3	3	3	2	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:121016728C>T	uc010rzo.1	+	11	4008	c.4008C>T	c.(4006-4008)GGC>GGT	p.G1336G		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1336					cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		TCGATGGGGGCGCGGTGCAGA	0.562													46	282					0	0	0.01441	0	0		T	121016728	T	T	121016728	2	4	212	1	0	0	0	0	0	0	0	1	15772	755	27	1		1	TECTA	11	121016728	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	15971	121016728	13989788	963	104768											
SORL1	6653	broad.mit.edu	37	chr11	121358756	121358756	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagtacatctttgcagacGcttatgcccagtacctctgg	8	12	9	12	1	2	1	0	0	2	1	2	1	2	1	2	1	5	5	2	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:121358756G>A	uc001pxx.2	+	4	624	c.544G>A	c.(544-546)GCT>ACT	p.A182T		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	182	Extracellular (Potential).				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CTTTGCAGACGCTTATGCCCA	0.522													129	494					0	0	0.01441	0	0		A	121358756	A	A	121358756	3	1	212	1	0	0	0	0	1	0	0	0	14959	1087	38	1	558	1	SORL1	11	121358756	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	342028	121358756	13647760	964	104769											
C11orf63	79864	broad.mit.edu	37	chr11	122756890	122756890	+	Silent	SNP	C	T	T	0	0	0	1	1	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	caccatacctgggaccagggCgccaataacaggtaaggaat	14	5	11	11	1	0	0	0	0	0	0	0	2	0	2	4	4	2	1	4	4	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:122756890C>T	uc001pym.2	+	2	630	c.333C>T	c.(331-333)GGC>GGT	p.G111G	C11orf63_uc001pyl.1_Silent_p.G111G	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	111										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		GGGACCAGGGCGCCAATAACA	0.463													14	28					0	0	0.003163	0	0		T	122756890	T	T	122756890	2	4	212	1	0	0	0	0	0	0	0	1	1657	755	27	1		1	C11orf63	11	122756890	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1398134	122756890	12249626	965	104770											
ROBO3	64221	broad.mit.edu	37	chr11	124747437	124747437	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacccatgggccttggccccGccccctactcatggctggca	5	7	10	19	1	1	0	1	0	0	0	1	0	1	0	6	4	1	2	6	4	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:124747437G>A	uc001qbc.2	+	20	3061	c.2869G>A	c.(2869-2871)GCC>ACC	p.A957T	ROBO3_uc010saq.1_Missense_Mutation_p.A6T|ROBO3_uc001qbd.2_5'UTR|ROBO3_uc010sar.1_Missense_Mutation_p.A6T|ROBO3_uc001qbe.2_5'UTR|ROBO3_uc001qbf.1_5'UTR	NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	957	Cytoplasmic (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		CCTTGGCCCCGCCCCCTACTC	0.657													3	7					0	0	0.009096	0	0		A	124747437	A	A	124747437	3	1	212	1	0	0	0	0	1	0	0	0	13540	1087	38	1	2947	1	ROBO3	11	124747437	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1990547	124747437	10259079	966	104771											
IGSF9B	22997	broad.mit.edu	37	chr11	133792519	133792519	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgacaaagcaggcagccagGgtgctgaacaggatggcagc	12	5	15	9	0	0	2	0	2	0	0	0	3	0	3	1	4	5	4	1	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr11:133792519G>T	uc001qgx.3	-	16	2457	c.2226C>A	c.(2224-2226)ACC>ACA	p.T742T	IGSF9B_uc001qgy.1_Silent_p.T584T	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	742	Helical; (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		AGGCAGCCAGGGTGCTGAACA	0.612													3	7					6.4e-05	6.65138e-05	0.004672	1	0		T	133792519	T	T	133792519	2	4	212	1	0	0	0	0	0	0	0	1	7622	1219	43	5		5	IGSF9B	11	133792519	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9045082	133792519	1213997	967	104772											
IQSEC3	440073	broad.mit.edu	37	chr12	248367	248367	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgccaagtcaggctcggaggCgtcggcctccgcctccaagg	6	5	14	16	5	1	0	1	0	0	0	5	1	3	1	5	5	0	1	5	5	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:248367C>T	uc001qhw.1	+	1	935	c.929C>T	c.(928-930)GCG>GTG	p.A310V	IQSEC3_uc001qhu.1_Missense_Mutation_p.A310V|IQSEC3_uc001qht.1_Missense_Mutation_p.A395V|uc001qhv.1_Intron	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	613					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		GGCTCGGAGGCGTCGGCCTCC	0.657													6	8					0	0	0.001168	0	0		T	248367	T	T	248367	3	4	212	1	0	0	0	0	1	0	0	0	7835	768	27	1	1852	1	IQSEC3	12	248367	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		248367	133603528	968	104773											
SLC6A13	6540	broad.mit.edu	37	chr12	336795	336795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caggcacccaagacagatggCgaaggagaagaatatctggg	15	4	14	8	1	1	4	0	0	1	4	1	6	1	4	1	4	0	1	1	4	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:336795C>T	uc001qic.1	-	8	924	c.871G>A	c.(871-873)GCC>ACC	p.A291T	SLC6A13_uc009zdj.1_Missense_Mutation_p.A291T|SLC6A13_uc010sdl.1_Missense_Mutation_p.A199T|SLC6A13_uc010sdm.1_Missense_Mutation_p.A172T	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	291	Helical; Name=6; (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	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)			AGACAGATGGCGAAGGAGAAG	0.567													12	39					0	0	0.013537	0	0		T	336795	T	T	336795	3	4	212	1	0	0	0	0	1	0	0	0	14701	768	27	1	969	1	SLC6A13	12	336795	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	88428	336795	133515100	969	104774											
KDM5A	5927	broad.mit.edu	37	chr12	427487	427487	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcctgttgtagctcttgcttCagtcgtggtaattcagggag	6	14	13	8	1	3	0	2	0	1	0	4	1	3	1	1	2	2	5	1	2	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:427487C>T	uc001qif.1	-	19	3045	c.2682G>A	c.(2680-2682)CTG>CTA	p.L894L	KDM5A_uc001qie.1_Silent_p.L894L|KDM5A_uc010sdn.1_Silent_p.L853L	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	894					chromatin modification|multicellular organismal development|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|ovary(1)	3						GCTCTTGCTTCAGTCGTGGTA	0.463			T 	NUP98	AML								35	100					0	0	0.004289	0	0		T	427487	T	T	427487	2	4	212	1	0	0	0	0	0	0	0	1	8149	813	29	4		4	KDM5A	12	427487	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	90692	427487	133424408	970	104775											
CACNA1C	775	broad.mit.edu	37	chr12	2566843	2566843	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagggccttccgcgtgctgcGccccctgcggctggtgtccg	1	8	16	16	5	0	0	0	0	0	0	2	1	2	0	5	3	3	2	5	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:2566843G>A	uc009zdu.1	+	5	1041	c.728G>A	c.(727-729)CGC>CAC	p.R243H	CACNA1C_uc009zdv.1_Missense_Mutation_p.R243H|CACNA1C_uc001qkb.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkc.2_Missense_Mutation_p.R243H|CACNA1C_uc001qke.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkf.2_Missense_Mutation_p.R243H|CACNA1C_uc001qjz.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkd.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkg.2_Missense_Mutation_p.R243H|CACNA1C_uc009zdw.1_Missense_Mutation_p.R243H|CACNA1C_uc001qkh.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkl.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkn.2_Missense_Mutation_p.R243H|CACNA1C_uc001qko.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkp.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkr.2_Missense_Mutation_p.R243H|CACNA1C_uc001qku.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkq.2_Missense_Mutation_p.R243H|CACNA1C_uc001qks.2_Missense_Mutation_p.R243H|CACNA1C_uc001qkt.2_Missense_Mutation_p.R243H|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_5'UTR|CACNA1C_uc001qkj.1_5'UTR|CACNA1C_uc001qkk.1_5'UTR|CACNA1C_uc001qkm.1_5'UTR	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	243	I.|Helical; Name=S4 of repeat I; (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	CGCGTGCTGCGCCCCCTGCGG	0.562													24	301					0	0	0.007291	0	0		A	2566843	A	A	2566843	3	1	212	1	0	0	0	0	1	0	0	0	2543	1087	38	1	746	1	CACNA1C	12	2566843	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2139356	2566843	131285052	971	104776											
CACNA1C	775	broad.mit.edu	37	chr12	2800254	2800254	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccctttgtgaactgcagggaCgcggggcaggaccgagccgg	7	5	17	12	4	0	1	0	1	0	0	0	4	0	3	3	5	3	2	3	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:2800254C>T	uc009zdu.1	+	50	6868	c.6555C>T	c.(6553-6555)GAC>GAT	p.D2185D	CACNA1C_uc009zdv.1_Silent_p.D2099D|CACNA1C_uc001qkb.2_Silent_p.D2102D|CACNA1C_uc001qkc.2_Silent_p.D2121D|CACNA1C_uc001qke.2_Silent_p.D2091D|CACNA1C_uc001qkf.2_Silent_p.D2110D|CACNA1C_uc001qjz.2_Silent_p.D2102D|CACNA1C_uc001qkd.2_Silent_p.D2121D|CACNA1C_uc001qkg.2_Silent_p.D2108D|CACNA1C_uc009zdw.1_Silent_p.D2143D|CACNA1C_uc001qkh.2_Silent_p.D2110D|CACNA1C_uc001qkl.2_Silent_p.D2150D|CACNA1C_uc001qkn.2_Silent_p.D2102D|CACNA1C_uc001qko.2_Silent_p.D2122D|CACNA1C_uc001qkp.2_Silent_p.D2102D|CACNA1C_uc001qkr.2_Silent_p.D2119D|CACNA1C_uc001qku.2_Silent_p.D2137D|CACNA1C_uc001qkq.2_Silent_p.D2130D|CACNA1C_uc001qks.2_Silent_p.D2102D|CACNA1C_uc001qkt.2_Silent_p.D2121D|CACNA1C_uc001qki.1_Silent_p.D1909D|CACNA1C_uc001qkj.1_Silent_p.D1873D|CACNA1C_uc001qkk.1_Silent_p.D1838D|CACNA1C_uc001qkm.1_Silent_p.D1898D|CACNA1C_uc010sea.1_Silent_p.D793D|uc001qkx.1_RNA|CACNA1C_uc001qky.1_Silent_p.D420D	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2185	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ACTGCAGGGACGCGGGGCAGG	0.682													5	23					0	0	0.000602	0	0		T	2800254	T	T	2800254	2	4	212	1	0	0	0	0	0	0	0	1	2543	535	19	1		1	CACNA1C	12	2800254	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	233411	2800254	131051641	972	104777											
KCNA5	3741	broad.mit.edu	37	chr12	5154774	5154774	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgggctacggggacatgagGcccatcactgttgggggcaa	8	7	17	9	1	1	1	1	1	0	0	1	2	1	2	1	6	1	3	1	6	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:5154774G>A	uc001qni.2	+	1	1690	c.1461G>A	c.(1459-1461)AGG>AGA	p.R487R		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	487						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GGGACATGAGGCCCATCACTG	0.607													9	120					0	0	0.006214	0	0		A	5154774	A	A	5154774	2	1	212	1	0	0	0	0	0	0	0	1	8022	1194	42	2		2	KCNA5	12	5154774	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2354520	5154774	128697121	973	104778											
TAPBPL	55080	broad.mit.edu	37	chr12	6561438	6561438	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcacacaggagggctggtgCctgctgctctgcctggctct	4	9	15	13	0	2	0	0	0	2	0	2	1	2	1	2	5	4	5	2	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:6561438C>T	uc001qog.3	+	1	262	c.24C>T	c.(22-24)TGC>TGT	p.C8C	LOC678655_uc001qob.2_5'Flank|LOC678655_uc001qoc.2_5'Flank|LOC678655_uc009zel.1_5'Flank|LOC678655_uc009zem.1_5'Flank|LOC678655_uc001qof.2_5'Flank|TAPBPL_uc001qoh.3_5'UTR|TAPBPL_uc001qoi.1_RNA	NM_018009	NP_060479	Q9BX59	TPSNR_HUMAN	TAP binding protein-like precursor	8					antigen processing and presentation of endogenous peptide antigen via MHC class I	endoplasmic reticulum membrane|integral to membrane|microsome|plasma membrane					0						AGGGCTGGTGCCTGCTGCTCT	0.647													3	5					0	0	0.000602	0	0		T	6561438	T	T	6561438	2	4	212	1	0	0	0	0	0	0	0	1	15578	747	26	2		2	TAPBPL	12	6561438	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1406664	6561438	127290457	974	104779											
USP5	8078	broad.mit.edu	37	chr12	6975193	6975193	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgtgtgcctccgagaagccGcccaaggacctgggctacat	8	7	13	13	2	0	1	0	0	0	1	1	3	1	2	5	2	3	1	5	2	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:6975193G>A	uc001qri.3	+	20	2588	c.2529G>A	c.(2527-2529)CCG>CCA	p.P843P	USP5_uc001qrh.3_Silent_p.P820P|TPI1_uc001qrk.2_5'Flank|TPI1_uc010sfo.1_5'Flank	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	843					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						CCGAGAAGCCGCCCAAGGACC	0.537													14	55					0	0	0.003163	0	0		A	6975193	A	A	6975193	2	1	212	1	0	0	0	0	0	0	0	1	17107	1074	38	1		1	USP5	12	6975193	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	413755	6975193	126876702	975	104780											
CLSTN3	9746	broad.mit.edu	37	chr12	7310099	7310099	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagtgatacccagcgccGcaaccctcatcattgtggtg	8	9	10	14	2	2	1	2	1	0	0	2	1	2	1	3	1	4	2	3	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:7310099G>A	uc001qsr.2	+	17	2820	c.2542G>A	c.(2542-2544)GCA>ACA	p.A848T	CLSTN3_uc001qss.2_Missense_Mutation_p.A860T|CLSTN3_uc001qst.2_Missense_Mutation_p.A256T	NM_014718	NP_055533	Q9BQT9	CSTN3_HUMAN	calsyntenin 3 precursor	848	Helical; (Potential).				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			large_intestine(1)	1						ACCCAGCGCCGCAACCCTCAT	0.652													8	34					0	0	0.006214	0	0		A	7310099	A	A	7310099	3	1	212	1	0	0	0	0	1	0	0	0	3566	1087	38	1	2608	1	CLSTN3	12	7310099	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	334906	7310099	126541796	976	104781											
C3AR1	719	broad.mit.edu	37	chr12	8211428	8211428	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gaaggctgcctccagaattcCctgaatggactgccttgctt	8	11	10	12	0	0	2	0	1	0	1	2	4	2	3	4	2	3	2	4	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:8211428C>A	uc001qtv.1	-	2	1446	c.1354G>T	c.(1354-1356)GGA>TGA	p.G452*		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	452	Cytoplasmic (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		TCCAGAATTCCCTGAATGGAC	0.443													24	100					1.10923e-09	1.2015e-09	0.00278	1	0		A	8211428	A	A	8211428	4	1	212	1	0	0	0	0	0	1	0	0	2208	632	22	5	98	5	C3AR1	12	8211428	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	901329	8211428	125640467	977	104782											
C3AR1	719	broad.mit.edu	37	chr12	8211804	8211804	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtgttggcacttgatcGtcatctgtgaattggcctaa	8	13	13	7	1	2	2	1	2	1	0	3	2	2	2	1	4	0	2	1	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:8211804G>A	uc001qtv.1	-	2	1070	c.978C>T	c.(976-978)GAC>GAT	p.D326D		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	326	Extracellular (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)		GCACTTGATCGTCATCTGTGA	0.458													31	86					0	0	0.013726	0	0		A	8211804	A	A	8211804	2	1	212	1	0	0	0	0	0	0	0	1	2208	1136	40	1		1	C3AR1	12	8211804	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	376	8211804	125640091	978	104783											
FAM90A1	55138	broad.mit.edu	37	chr12	8375292	8375292	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagacggagcccctgtcaGacatttcggtagctgagcga	10	8	12	11	3	1	3	1	1	0	2	2	5	1	4	2	2	3	2	2	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:8375292G>T	uc001qui.2	-	7	1080	c.521C>A	c.(520-522)TCT>TAT	p.S174Y	FAM90A1_uc001quh.2_Missense_Mutation_p.S174Y	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	174							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		GCCCCTGTCAGACATTTCGGT	0.572													18	62					5.3912e-06	5.66261e-06	0.006122	1	0		T	8375292	T	T	8375292	3	4	212	1	0	0	0	0	1	0	0	0	5664	942	33	5	877	5	FAM90A1	12	8375292	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	163488	8375292	125476603	979	104784											
A2ML1	144568	broad.mit.edu	37	chr12	9004899	9004899	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtgctgatgacgcaaaaAcccaccactggaacatcaca	14	7	7	13	1	2	2	1	2	1	0	2	3	2	3	2	1	3	2	2	1	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:9004899A>C	uc001quz.3	+	20	2655	c.2557A>C	c.(2557-2559)ACC>CCC	p.T853P	A2ML1_uc001qva.1_Missense_Mutation_p.T433P|A2ML1_uc010sgm.1_Missense_Mutation_p.T353P	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	697						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TGACGCAAAAACCCACCACTG	0.517													44	152					0	0	0.01441	0	0		C	9004899	C	C	9004899	3	2	212	1	0	0	0	0	1	0	0	0	5	43	2	5	2635	5	A2ML1	12	9004899	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	629607	9004899	124846996	980	104785											
CLEC1A	51267	broad.mit.edu	37	chr12	10233962	10233962	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttcctaatctttcttccaTttgagaaatggtgtcttgac	9	18	6	8	0	3	2	0	2	3	1	5	3	5	2	2	1	0	0	2	1	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:10233962T>C	uc001qxb.2	-	3	349	c.265A>G	c.(265-267)ATG>GTG	p.M89V	CLEC1A_uc009zhf.2_Missense_Mutation_p.M1V|CLEC1A_uc001qxc.2_Missense_Mutation_p.M1V|CLEC1A_uc001qxd.2_Missense_Mutation_p.M46V|CLEC1A_uc010sgx.1_Intron	NM_016511	NP_057595	Q8NC01	CLC1A_HUMAN	C-type lectin-like receptor-1	89	Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to plasma membrane|intracellular	sugar binding|transmembrane receptor activity			ovary(1)|central_nervous_system(1)	2						CTTTCTTCCATTTGAGAAATG	0.398													20	83					0	0	0.007413	0	0		C	10233962	C	C	10233962	3	2	212	1	0	0	0	0	1	0	0	0	3508	1493	52	3	593	3	CLEC1A	12	10233962	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1229063	10233962	123617933	981	104786											
KLRC1	3821	broad.mit.edu	37	chr12	10603633	10603633	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttttgaaggtttaattcCgcataggttatttcctgttc	7	19	8	7	1	0	1	0	1	0	0	3	1	2	1	2	2	0	5	2	2	4	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:10603633C>T	uc001qyl.2	-	2	287	c.123G>A	c.(121-123)GCG>GCA	p.A41A	KLRC1_uc009zhm.1_Silent_p.A41A|KLRC1_uc001qym.2_Silent_p.A41A|KLRC1_uc001qyn.2_Silent_p.A41A|KLRC1_uc001qyo.2_Silent_p.A41A	NM_002259	NP_002250	P26715	NKG2A_HUMAN	killer cell lectin-like receptor subfamily C,	41	Cytoplasmic (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0						GGTTTAATTCCGCATAGGTTA	0.383													24	105					0	0	0.003954	0	0		T	10603633	T	T	10603633	2	4	212	1	0	0	0	0	0	0	0	1	8431	639	23	1		1	KLRC1	12	10603633	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	369671	10603633	123248262	982	104787											
CSDA	8531	broad.mit.edu	37	chr12	10856665	10856665	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catacctacggtaccttgggCggtaagttggatttcgatga	9	12	12	8	3	0	1	0	1	0	0	1	3	0	2	2	4	3	3	2	4	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:10856665C>T	uc001qyt.2	-	7	1106	c.863G>A	c.(862-864)CGC>CAC	p.R288H	CSDA_uc001qyu.2_Missense_Mutation_p.R219H	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	288					negative regulation of transcription from RNA polymerase II promoter|response to cold	cytoplasm|nucleus	double-stranded DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|lung(1)|large_intestine(1)	4	Glioma(1;0.155)					GTACCTTGGGCGGTAAGTTGG	0.502													24	57					0	0	0.010818	0	0		T	10856665	T	T	10856665	3	4	212	1	0	0	0	0	1	0	0	0	3930	768	27	1	267	1	CSDA	12	10856665	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	253032	10856665	122995230	983	104788											
TAS2R14	50840	broad.mit.edu	37	chr12	11091555	11091555	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actgtccagatattagtaagCattctgaacattttttcagt	12	16	6	7	0	2	2	1	1	1	1	3	2	3	2	1	0	2	2	1	0	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:11091555C>T	uc010shi.1	-	1	252	c.252G>A	c.(250-252)ATG>ATA	p.M84I	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_023922	NP_076411	Q9NYV8	T2R14_HUMAN	taste receptor, type 2, member 14	84	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste		bitter taste receptor activity				0						TATTAGTAAGCATTCTGAACA	0.378													7	30					0	0	0.00308	0	0		T	11091555	T	T	11091555	3	4	212	1	0	0	0	0	1	0	0	0	15593	710	25	2	704	2	TAS2R14	12	11091555	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	234890	11091555	122760340	984	104789											
GRIN2B	2904	broad.mit.edu	37	chr12	13717545	13717545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagactggcgctcctcgatcGccaccccatggatgcagctg	7	7	11	16	3	0	1	0	0	0	1	3	3	1	2	4	2	2	3	4	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:13717545G>A	uc001rbt.2	-	13	2806	c.2627C>T	c.(2626-2628)GCG>GTG	p.A876V		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	876	Cytoplasmic (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CTCCTCGATCGCCACCCCATG	0.542													39	110					0	0	0.01441	0	0		A	13717545	A	A	13717545	3	1	212	1	0	0	0	0	1	0	0	0	6796	1087	38	1	1831	1	GRIN2B	12	13717545	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2625990	13717545	120134350	985	104790											
GRIN2B	2904	broad.mit.edu	37	chr12	13906258	13906258	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttccacactcacctatttaGcatattggactggtagattc	10	14	7	10	0	1	1	1	0	0	1	3	2	2	2	2	2	1	3	2	2	4	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:13906258G>T	uc001rbt.2	-	3	1182	c.1003C>A	c.(1003-1005)CTA>ATA	p.L335I		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	335	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	CACCTATTTAGCATATTGGAC	0.488													30	94					1.08312e-15	1.23134e-15	0.009535	1	0		T	13906258	T	T	13906258	3	4	212	1	0	0	0	0	1	0	0	0	6796	962	34	5	3495	5	GRIN2B	12	13906258	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	188713	13906258	119945637	986	104791											
GRIN2B	2904	broad.mit.edu	37	chr12	14018818	14018818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aatgaaatcgaggatctgggCgatggcttcctggtctgtgt	8	12	14	7	2	2	1	0	1	2	0	4	4	3	2	1	4	0	1	1	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:14018818C>T	uc001rbt.2	-	2	504	c.325G>A	c.(325-327)GCC>ACC	p.A109T		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	109	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic membrane	glycine binding|N-methyl-D-aspartate selective glutamate receptor activity|zinc ion binding			central_nervous_system(4)|ovary(3)|skin(3)|lung(2)	12					Felbamate(DB00949)|Haloperidol(DB00502)|L-Glutamic Acid(DB00142)|Loperamide(DB00836)|Memantine(DB01043)	AGGATCTGGGCGATGGCTTCC	0.542													35	83					0	0	0.003271	0	0		T	14018818	T	T	14018818	3	4	212	1	0	0	0	0	1	0	0	0	6796	768	27	1	4177	1	GRIN2B	12	14018818	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	112560	14018818	119833077	987	104792											
EPS8	2059	broad.mit.edu	37	chr12	15819381	15819381	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcaatgcttttacctcagggCgtcgggccgcctcttctgtt	4	14	10	13	3	4	0	2	0	2	0	5	0	4	0	3	2	2	2	3	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:15819381C>T	uc009zif.2	-	7	686	c.592G>A	c.(592-594)GCC>ACC	p.A198T	EPS8_uc001rdb.2_Missense_Mutation_p.A198T|EPS8_uc009zig.2_5'UTR	NM_004447	NP_004438	Q12929	EPS8_HUMAN	epidermal growth factor receptor pathway	198					cell proliferation|epidermal growth factor receptor signaling pathway		SH3/SH2 adaptor activity			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		all_epithelial(100;1.87e-05)|Breast(259;0.000286)|Hepatocellular(102;0.244)		BRCA - Breast invasive adenocarcinoma(232;4.29e-05)|GBM - Glioblastoma multiforme(207;0.0264)		TACCTCAGGGCGTCGGGCCGC	0.393													18	51					0	0	0.008871	0	0		T	15819381	T	T	15819381	3	4	212	1	0	0	0	0	1	0	0	0	5202	768	27	1	1936	1	EPS8	12	15819381	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1800563	15819381	118032514	988	104793											
LMO3	55885	broad.mit.edu	37	chr12	16753748	16753748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtccttgatctttcggttgCagccagcacaacctttcggc	6	12	10	13	2	1	1	0	1	1	0	4	1	2	1	3	3	4	3	3	3	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:16753748C>T	uc001rdk.1	-	2	487	c.47G>A	c.(46-48)TGC>TAC	p.C16Y	LMO3_uc001rdj.1_Missense_Mutation_p.C27Y|LMO3_uc010shy.1_Missense_Mutation_p.C34Y|LMO3_uc001rdl.1_Missense_Mutation_p.C16Y|LMO3_uc009zii.1_RNA|LMO3_uc010shz.1_Missense_Mutation_p.C16Y|LMO3_uc001rdm.1_Missense_Mutation_p.C16Y|LMO3_uc001rdo.1_RNA|LMO3_uc001rdp.1_RNA|LMO3_uc001rdn.1_Missense_Mutation_p.C16Y|LMO3_uc009zij.1_RNA|LMO3_uc009zik.1_RNA	NM_018640	NP_061110	Q8TAP4	LMO3_HUMAN	LIM domain only 3	16	LIM zinc-binding 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		zinc ion binding				0		Hepatocellular(102;0.244)				CTTTCGGTTGCAGCCAGCACA	0.493													7	77					0	0	0.00308	0	0		T	16753748	T	T	16753748	3	4	212	1	0	0	0	0	1	0	0	0	8870	710	25	2	402	2	LMO3	12	16753748	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	934367	16753748	117098147	989	104794											
SLCO1C1	53919	broad.mit.edu	37	chr12	20890154	20890154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaaaatggaatcacatatgTatcagcttgtcttgctggtt	11	15	9	6	0	3	1	2	1	1	0	3	2	3	2	0	2	2	4	0	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:20890154T>C	uc001rej.3	+	12	1851	c.1496T>C	c.(1495-1497)GTA>GCA	p.V499A	SLCO1C1_uc010sii.1_Missense_Mutation_p.V499A|SLCO1C1_uc010sij.1_Missense_Mutation_p.V450A|SLCO1C1_uc009zip.2_Missense_Mutation_p.V333A|SLCO1C1_uc001rei.2_Missense_Mutation_p.V499A|SLCO1C1_uc010sik.1_Missense_Mutation_p.V381A	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	499	Extracellular (Potential).|Kazal-like.				sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					ATCACATATGTATCAGCTTGT	0.393													17	60					0	0	0.010504	0	0		C	20890154	C	C	20890154	3	2	212	1	0	0	0	0	1	0	0	0	14750	1638	57	3	1534	3	SLCO1C1	12	20890154	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	4136406	20890154	112961741	990	104795											
KLHDC5	57542	broad.mit.edu	37	chr12	27950952	27950952	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atctacatcatgagcagagaCgtcaccctgtcgaccagctt	11	9	8	13	2	3	2	2	1	1	1	4	4	3	2	2	0	3	2	2	0	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:27950952C>T	uc001rij.2	+	3	1448	c.1371C>T	c.(1369-1371)GAC>GAT	p.D457D	KLHDC5_uc009zjj.2_RNA	NM_020782	NP_065833	Q9P2K6	KLDC5_HUMAN	kelch domain containing 5	457	Kelch 6.									ovary(1)|central_nervous_system(1)	2	Lung SC(9;0.0873)					TGAGCAGAGACGTCACCCTGT	0.498													26	60					0	0	0.004656	0	0		T	27950952	T	T	27950952	2	4	212	1	0	0	0	0	0	0	0	1	8375	535	19	1		1	KLHDC5	12	27950952	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7060798	27950952	105900943	991	104796											
PTHLH	5744	broad.mit.edu	37	chr12	28116524	28116524	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcatcatcagacccaaatCggacggggtggttctttgtg	8	11	11	11	2	4	1	3	0	1	1	5	2	4	2	2	4	0	1	2	4	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:28116524C>T	uc001rik.2	-	3	584	c.281G>A	c.(280-282)CGA>CAA	p.R94Q	PTHLH_uc001ril.2_Missense_Mutation_p.R94Q|PTHLH_uc001rim.2_Missense_Mutation_p.R94Q|PTHLH_uc001rin.2_Missense_Mutation_p.R94Q	NM_198966	NP_945317	P12272	PTHR_HUMAN	parathyroid hormone-like hormone isoform 1	94					activation of adenylate cyclase activity by G-protein signaling pathway|cAMP metabolic process|cell-cell signaling|epidermis development|female pregnancy|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation	cytoplasm|extracellular space|nucleus	hormone activity|peptide hormone receptor binding			breast(1)	1	Lung SC(9;0.184)					AGACCCAAATCGGACGGGGTG	0.507													49	129					0	0	0.01441	0	0		T	28116524	T	T	28116524	3	4	212	1	0	0	0	0	1	0	0	0	12784	884	31	1	264	1	PTHLH	12	28116524	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	165572	28116524	105735371	992	104797											
ERGIC2	51290	broad.mit.edu	37	chr12	29502999	29502999	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gaccacgaggatgtggaattGccctgaaaggagaaaaaaca	17	5	12	7	1	0	2	0	1	0	1	0	7	0	4	2	3	2	0	2	3	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:29502999G>A	uc001riv.2	-	9	708	c.575C>T	c.(574-576)GCA>GTA	p.A192V	ERGIC2_uc001riw.2_RNA	NM_016570	NP_057654	Q96RQ1	ERGI2_HUMAN	PTX1 protein	192	Lumenal (Potential).				vesicle-mediated transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane|nucleus				ovary(1)	1	Lung NSC(12;2.02e-08)|Acute lymphoblastic leukemia(23;0.00885)|all_hematologic(23;0.0155)|Lung SC(9;0.184)				Arsenic trioxide(DB01169)	ATGTGGAATTGCCCTGAAAGG	0.308													7	28					0	0	0.004482	0	0		A	29502999	A	A	29502999	3	1	212	1	0	0	0	0	1	0	0	0	5232	1319	46	2	582	2	ERGIC2	12	29502999	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1386475	29502999	104348896	993	104798											
FGD4	121512	broad.mit.edu	37	chr12	32772677	32772677	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcccaaattcagcttggtaGgctctaaattcacagttcga	11	12	8	10	1	3	0	2	0	1	0	4	1	3	0	1	2	2	4	1	2	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:32772677G>T	uc001rkz.2	+	11	1861	c.1384G>T	c.(1384-1386)GGC>TGC	p.G462C	FGD4_uc001rlc.2_Missense_Mutation_p.G547C|FGD4_uc001rky.2_Missense_Mutation_p.G214C|FGD4_uc001rla.2_Missense_Mutation_p.G118C|FGD4_uc010ske.1_Missense_Mutation_p.G574C|FGD4_uc001rlb.1_RNA	NM_139241	NP_640334	Q96M96	FGD4_HUMAN	FYVE, RhoGEF and PH domain containing 4	462	PH 1.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|filopodium|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)					CAGCTTGGTAGGCTCTAAATT	0.398													29	74					7.11191e-15	8.03536e-15	0.013726	1	0		T	32772677	T	T	32772677	3	4	212	1	0	0	0	0	1	0	0	0	5849	1000	35	5	1418	5	FGD4	12	32772677	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3269678	32772677	101079218	994	104799											
PKP2	5318	broad.mit.edu	37	chr12	32945632	32945632	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacagagaatacagaaggacGgaagcagctttacttgcttt	14	9	10	8	1	0	2	0	0	0	2	0	5	0	4	0	2	5	3	0	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:32945632G>A	uc001rlj.3	-	13	2638	c.2523C>T	c.(2521-2523)TCC>TCT	p.S841S	PKP2_uc001rlk.3_Silent_p.S797S|PKP2_uc010skj.1_Silent_p.S794S	NM_004572	NP_004563	Q99959	PKP2_HUMAN	plakophilin 2 isoform 2b	841	ARM 8.				cell-cell adhesion	desmosome|integral to membrane|nucleus	binding			ovary(1)|pancreas(1)	2	Lung NSC(5;9.35e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.239)					ACAGAAGGACGGAAGCAGCTT	0.473													13	66					0	0	0.004007	0	0		A	32945632	A	A	32945632	2	1	212	1	0	0	0	0	0	0	0	1	12004	1103	39	1		1	PKP2	12	32945632	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	172955	32945632	100906263	995	104800											
SYT10	341359	broad.mit.edu	37	chr12	33532872	33532872	+	Silent	SNP	T	C	C	0	1	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	tccagtcctgttctgcacacTcctatgacctcattgtgtcc	6	14	6	15	0	2	1	1	1	1	0	6	1	6	1	5	0	1	2	5	0	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:33532872T>C	uc001rll.1	-	6	1692	c.1395A>G	c.(1393-1395)GGA>GGG	p.G465G	SYT10_uc009zju.1_Silent_p.G275G	NM_198992	NP_945343	Q6XYQ8	SYT10_HUMAN	synaptotagmin X	465	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(1)|skin(1)	2	Lung NSC(5;8.37e-07)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0334)					TTCTGCACACTCCTATGACCT	0.438													28	73					0	0	0.012213	0	0		C	33532872	C	C	33532872	2	2	212	1	0	0	0	0	0	0	0	1	15491	1538	54	3		3	SYT10	12	33532872	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	587240	33532872	100319023	996	104801											
SLC2A13	114134	broad.mit.edu	37	chr12	40422177	40422177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cctcatcaatggtctggttaCcacgcatctgagataaaatt	12	12	7	10	1	4	1	2	1	2	1	4	2	4	1	2	2	1	2	2	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:40422177C>T	uc010skm.1	-	3	902	c.851G>A	c.(850-852)GGT>GAT	p.G284D	SLC2A13_uc001rmf.2_Missense_Mutation_p.G284D	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	284	Cytoplasmic (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				GGTCTGGTTACCACGCATCTG	0.388										HNSCC(50;0.14)			23	106					0	0	0.00278	0	0		T	40422177	T	T	40422177	3	4	212	1	0	0	0	0	1	0	0	0	14567	507	18	4	1127	4	SLC2A13	12	40422177	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6889305	40422177	93429718	997	104802											
LRRK2	120892	broad.mit.edu	37	chr12	40722217	40722217	+	Silent	SNP	T	C	C	0	1	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	tatgaaggagaagaagtggcTgtgaagatttttaataaaca	17	11	11	2	0	0	5	0	2	0	3	0	6	0	5	0	2	1	1	0	2	8	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:40722217T>C	uc001rmg.3	+	39	5833	c.5712T>C	c.(5710-5712)GCT>GCC	p.A1904A	LRRK2_uc009zjw.2_Silent_p.A742A|LRRK2_uc001rmi.2_Silent_p.A737A	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1904	Protein kinase.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				AAGAAGTGGCTGTGAAGATTT	0.323													24	66					0	0	0.007291	0	0		C	40722217	C	C	40722217	2	2	212	1	0	0	0	0	0	0	0	1	9051	1567	55	3		3	LRRK2	12	40722217	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	300040	40722217	93129678	998	104803											
MLL2	8085	broad.mit.edu	37	chr12	49431843	49431843	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catcagcagcagggggagggCgctcctcagggcccaagggt	8	4	17	12	1	2	0	2	0	0	0	3	1	3	1	2	5	2	3	2	5	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:49431843C>T	uc001rta.3	-	34	9296	c.9296G>A	c.(9295-9297)CGC>CAC	p.R3099H		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	3099					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						AGGGGGAGGGCGCTCCTCAGG	0.647			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			4	17					0	0	0.000602	0	0		T	49431843	T	T	49431843	3	4	212	1	0	0	0	0	1	0	0	0	9639	768	27	1	7401	1	MLL2	12	49431843	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8709626	49431843	84420052	999	104804											
MLL2	8085	broad.mit.edu	37	chr12	49432426	49432426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcacttacagggtaaaaacGgggtctctgaggtgggccct	9	9	13	10	1	2	1	1	1	1	0	3	1	2	1	1	5	2	1	1	5	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:49432426G>A	uc001rta.3	-	34	8713	c.8713C>T	c.(8713-8715)CGT>TGT	p.R2905C		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	2905	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGGTAAAAACGGGGTCTCTGA	0.617			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			9	26					0	0	0.004482	0	0		A	49432426	A	A	49432426	3	1	212	1	0	0	0	0	1	0	0	0	9639	1116	39	1	7984	1	MLL2	12	49432426	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	583	49432426	84419469	1000	104805											
LMBR1L	55716	broad.mit.edu	37	chr12	49491834	49491834	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaggaacacaatgtagaaaTtgcccagccagttgaagcgt	15	7	11	8	1	0	3	0	1	0	2	0	4	0	4	2	1	4	2	2	1	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:49491834T>C	uc001rth.3	-	16	1637	c.1295A>G	c.(1294-1296)AAT>AGT	p.N432S	LMBR1L_uc001rtg.3_Missense_Mutation_p.N427S|LMBR1L_uc001rti.3_Missense_Mutation_p.N412S	NM_018113	NP_060583	Q6UX01	LMBRL_HUMAN	lipocalin-interacting membrane receptor	432	Helical; (Potential).				endocytosis	integral to membrane|plasma membrane	receptor activity			pancreas(1)	1						AATGTAGAAATTGCCCAGCCA	0.572											OREG0021783	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	110	108					0	0	0.01441	0	0		C	49491834	C	C	49491834	3	2	212	1	0	0	0	0	1	0	0	0	8858	1493	52	3	182	3	LMBR1L	12	49491834	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	59408	49491834	84360061	1001	104806											
TROAP	10024	broad.mit.edu	37	chr12	49724418	49724418	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctactgtaggattgagcCtgagataccggagtcctctc	8	11	11	11	1	1	2	0	2	1	1	4	5	3	4	4	2	3	1	4	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:49724418C>A	uc001rtx.3	+	13	1957	c.1790C>A	c.(1789-1791)CCT>CAT	p.P597H	TROAP_uc009zlh.2_Missense_Mutation_p.P597H|TROAP_uc001rty.2_Intron	NM_005480	NP_005471	Q12815	TROAP_HUMAN	tastin isoform 1	597	Cys-rich.|4 X 33 AA approximate tandem repeats.|3.				cell adhesion	cytoplasm				ovary(1)	1						AGGATTGAGCCTGAGATACCG	0.627													22	84					5.26018e-13	5.87808e-13	0.012319	1	0		A	49724418	A	A	49724418	3	1	212	1	0	0	0	0	1	0	0	0	16601	681	24	5	1938	5	TROAP	12	49724418	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	232584	49724418	84127477	1002	104807											
DNAJC22	79962	broad.mit.edu	37	chr12	49742746	49742746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctgggaagggacagccacGccctgctctggatgctgacc	8	6	13	14	1	1	1	0	1	1	0	1	4	1	4	4	3	3	2	4	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:49742746G>A	uc001rua.2	+	2	492	c.91G>A	c.(91-93)GCC>ACC	p.A31T	DNAJC22_uc001rub.2_Missense_Mutation_p.A31T	NM_024902	NP_079178	Q8N4W6	DJC22_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 22	31	Helical; (Potential).				protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			ovary(1)	1						GGACAGCCACGCCCTGCTCTG	0.667													18	66					0	0	0.006122	0	0		A	49742746	A	A	49742746	3	1	212	1	0	0	0	0	1	0	0	0	4647	1087	38	1	93	1	DNAJC22	12	49742746	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	18328	49742746	84109149	1003	104808											
ACVRL1	94	broad.mit.edu	37	chr12	52309876	52309876	+	Missense_Mutation	SNP	A	G	G	1	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	tggacatcggcaacaacccgAgagtgggcaccaagcggtac	12	4	13	12	3	0	1	0	0	0	1	1	3	0	2	2	4	4	3	2	4	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:52309876A>G	uc001rzj.2	+	8	1388	c.1105A>G	c.(1105-1107)AGA>GGA	p.R369G	ACVRL1_uc001rzk.2_Missense_Mutation_p.R369G|ACVRL1_uc010snm.1_Missense_Mutation_p.R195G	NM_000020	NP_000011	P37023	ACVL1_HUMAN	activin A receptor type II-like 1 precursor	369	Cytoplasmic (Potential).|Protein kinase.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|blood vessel maturation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of endothelial cell migration|negative regulation of focal adhesion assembly|positive regulation of BMP signaling pathway|positive regulation of transcription, DNA-dependent|regulation of blood pressure|regulation of blood vessel endothelial cell migration|regulation of DNA replication|regulation of endothelial cell proliferation|transforming growth factor beta receptor signaling pathway|wound healing, spreading of epidermal cells	cell surface|integral to plasma membrane	activin binding|activin receptor activity, type I|ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			lung(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0991)	Adenosine triphosphate(DB00171)	CAACAACCCGAGAGTGGGCAC	0.612									Hereditary_Hemorrhagic_Telangiectasia				8	97					0	0	0.008291	0	0		G	52309876	G	G	52309876	3	3	212	1	0	0	0	0	1	0	0	0	225	296	11	3	1131	3	ACVRL1	12	52309876	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2567130	52309876	81542019	1004	104809											
KRT6C	286887	broad.mit.edu	37	chr12	52864299	52864299	+	Missense_Mutation	SNP	A	G	G	1	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	ctcactgtacctgcttcttgAcatggtcgatctcagatctc	7	14	7	13	1	4	2	2	1	3	1	7	3	4	2	1	1	2	2	1	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:52864299A>G	uc001sal.3	-	6	1241	c.1193T>C	c.(1192-1194)GTC>GCC	p.V398A		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C	398	Rod.|Coil 2.				cytoskeleton organization	keratin filament	structural molecule activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		CTGCTTCTTGACATGGTCGAT	0.483													19	110					0	0	0.012319	0	0		G	52864299	G	G	52864299	3	3	212	1	0	0	0	0	1	0	0	0	8498	275	10	3	517	3	KRT6C	12	52864299	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	554423	52864299	80987596	1005	104810											
KRT6A	3853	broad.mit.edu	37	chr12	52884403	52884403	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ccggcttctctgagcaatctCctcatattgggccttgacct	6	13	8	14	1	3	2	1	2	2	0	5	2	3	2	4	2	1	2	4	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:52884403C>T	uc001sam.2	-	5	1236	c.1027G>A	c.(1027-1029)GAG>AAG	p.E343K		NM_005554	NP_005545	P02538	K2C6A_HUMAN	keratin 6A	343	Rod.|Coil 2.				cell differentiation|ectoderm development|positive regulation of cell proliferation	keratin filament	protein binding|structural constituent of cytoskeleton			ovary(4)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(357;0.189)		TGAGCAATCTCCTCATATTGG	0.577													64	175					0	0	0.01441	0	0		T	52884403	T	T	52884403	3	4	212	1	0	0	0	0	1	0	0	0	8496	864	30	4	687	4	KRT6A	12	52884403	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	20104	52884403	80967492	1006	104811											
KRT72	140807	broad.mit.edu	37	chr12	52981513	52981513	+	Silent	SNP	T	C	C	0	1	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	tggtactcacgcagcatccgTgccagctcctccttggcctg	5	10	10	16	2	1	0	1	0	0	0	4	0	4	0	5	2	4	4	5	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:52981513T>C	uc001sar.2	-	7	1298	c.1212A>G	c.(1210-1212)GCA>GCG	p.A404A	KRT72_uc001saq.2_Silent_p.A404A|KRT72_uc010sns.1_Silent_p.A362A|KRT72_uc010snt.1_Silent_p.A216A	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1	404	Coil 2.|Rod.					keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		GCAGCATCCGTGCCAGCTCCT	0.657													6	115					0	0	0.001984	0	0		C	52981513	C	C	52981513	2	2	212	1	0	0	0	0	0	0	0	1	8501	1683	59	3		3	KRT72	12	52981513	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	97110	52981513	80870382	1007	104812											
KRT3	3850	broad.mit.edu	37	chr12	53186123	53186123	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgctgtccaggtccagggagCgattattgtccatggacagc	8	10	13	10	1	0	0	0	0	0	0	3	3	3	2	3	3	3	1	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:53186123C>T	uc001say.2	-	5	1154	c.1088G>A	c.(1087-1089)CGC>CAC	p.R363H		NM_057088	NP_476429	P12035	K2C3_HUMAN	keratin 3	363	Rod.|Linker 12.				epithelial cell differentiation|intermediate filament cytoskeleton organization	keratin filament	structural molecule activity				0						GTCCAGGGAGCGATTATTGTC	0.522													15	40					0	0	0.003163	0	0		T	53186123	T	T	53186123	3	4	212	1	0	0	0	0	1	0	0	0	8482	768	27	1	818	1	KRT3	12	53186123	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	204610	53186123	80665772	1008	104813											
ESPL1	9700	broad.mit.edu	37	chr12	53682349	53682349	+	Missense_Mutation	SNP	A	T	T	1	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	gactccagctccgggccctgAggcagcttctggagaatggg	7	7	15	12	1	1	2	0	1	1	1	3	4	3	2	3	4	2	3	3	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:53682349A>T	uc001sck.2	+	20	4665	c.4574A>T	c.(4573-4575)GAG>GTG	p.E1525V	ESPL1_uc001scj.2_Missense_Mutation_p.E1200V	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1525					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CCGGGCCCTGAGGCAGCTTCT	0.577											OREG0021863	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	37					0	0	0.010729	0	0		T	53682349	T	T	53682349	3	4	212	1	0	0	0	0	1	0	0	0	5261	304	11	5	4648	5	ESPL1	12	53682349	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	496226	53682349	80169546	1009	104814											
HOXC12	3228	broad.mit.edu	37	chr12	54350255	54350255	+	Missense_Mutation	SNP	A	G	G	1	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	gggaactctcagaccgcttgAatcttagtgaccagcaggtc	10	9	11	11	1	2	3	1	2	2	1	4	4	2	4	2	2	2	2	2	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:54350255A>G	uc010soq.1	+	2	754	c.754A>G	c.(754-756)AAT>GAT	p.N252D		NM_173860	NP_776272	P31275	HXC12_HUMAN	homeobox C12	252	Homeobox.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			upper_aerodigestive_tract(1)	1						AGACCGCTTGAATCTTAGTGA	0.507													38	130					0	0	0.009718	0	0		G	54350255	G	G	54350255	3	3	212	1	0	0	0	0	1	0	0	0	7327	246	9	3	760	3	HOXC12	12	54350255	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	667906	54350255	79501640	1010	104815											
ZNF385A	25946	broad.mit.edu	37	chr12	54765373	54765373	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacccccaggcaaggaagccGgggctggagtccccccttca	8	5	12	16	1	1	0	1	0	0	0	2	2	2	2	6	5	2	2	6	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:54765373G>A	uc001sfw.1	-	4	671	c.488C>T	c.(487-489)CCG>CTG	p.P163L	ZNF385A_uc001sfv.1_Missense_Mutation_p.P144L|ZNF385A_uc009zno.1_RNA|ZNF385A_uc010sov.1_Intron|ZNF385A_uc001sfx.1_Missense_Mutation_p.P163L|ZNF385A_uc001sfy.3_Missense_Mutation_p.P183L|ZNF385A_uc001sfz.3_Intron	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1						CAAGGAAGCCGGGGCTGGAGT	0.622													65	72					0	0	0.01441	0	0		A	54765373	A	A	54765373	3	1	212	1	0	0	0	0	1	0	0	0	17901	1116	39	1	628	1	ZNF385A	12	54765373	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	415118	54765373	79086522	1011	104816											
NCKAP1L	3071	broad.mit.edu	37	chr12	54925968	54925968	+	Silent	SNP	C	T	T	0	0	0	1	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	ctccaggttttctcctcccaCtgcccatttcttatgggtcc	4	15	6	16	0	2	0	0	0	2	0	6	0	5	0	5	2	1	1	5	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:54925968C>T	uc001sgc.3	+	26	2875	c.2796C>T	c.(2794-2796)CAC>CAT	p.H932H	NCKAP1L_uc010sox.1_Silent_p.H474H|NCKAP1L_uc010soy.1_Silent_p.H882H	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	932					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TCTCCTCCCACTGCCCATTTC	0.403													10	45					0	0	0.00245	0	0		T	54925968	T	T	54925968	2	4	212	1	0	0	0	0	0	0	0	1	10241	564	20	4		4	NCKAP1L	12	54925968	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	160595	54925968	78925927	1012	104817											
NCKAP1L	3071	broad.mit.edu	37	chr12	54936433	54936433	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtcctgcttcgaaatgcCtatcgggaggtgtctcgggc	6	12	13	10	3	1	0	0	0	1	0	5	2	2	1	2	3	2	1	2	3	3	3	rs137902294		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:54936433C>A	uc001sgc.3	+	31	3427	c.3348C>A	c.(3346-3348)GCC>GCA	p.A1116A	NCKAP1L_uc010sox.1_Silent_p.A658A|NCKAP1L_uc010soy.1_Silent_p.A1066A	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	1116					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						TTCGAAATGCCTATCGGGAGG	0.537													19	99					0.000229342	0.00023709	0.012319	1	0		A	54936433	A	A	54936433	2	1	212	1	0	0	0	0	0	0	0	1	10241	668	24	5		5	NCKAP1L	12	54936433	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	10465	54936433	78915462	1013	104818											
OR9K2	441639	broad.mit.edu	37	chr12	55524524	55524524	+	Frame_Shift_Del	DEL	A	-	-																															aaagatgtccaagaggctctAaaaaaatttctagagaagaa																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:55524524delA	uc010spe.1	+	1	972	c.972delA	c.(970-972)CTAfs	p.L324fs		NM_001005243	NP_001005243	Q8NGE7	OR9K2_HUMAN	olfactory receptor, family 9, subfamily K,	324	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|pancreas(1)	2						AAGAGGCTCTAAAAAAATTTC	0.323													25	53	---	---	---	---						.	-	55524524	-	-	55524524	7	5	212	1	0	1	0	1	0	0	0	0	11273	349	13	0	974	0	OR9K2	12	55524524	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	588091	55524524	78327371	1014	104819											
OR6C1	390321	broad.mit.edu	37	chr12	55714399	55714399	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagaatgagaaaccatacaGaaataacagagtttattctt	19	10	7	5	0	1	4	0	1	1	4	1	6	1	4	1	0	3	1	1	0	7	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:55714399G>T	uc010spi.1	+	1	16	c.16G>T	c.(16-18)GAA>TAA	p.E6*		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						AAACCATACAGAAATAACAGA	0.368													18	62					4.35082e-09	4.70165e-09	0.010504	1	0		T	55714399	T	T	55714399	4	4	212	1	0	0	0	0	0	1	0	0	11209	943	33	5	18	5	OR6C1	12	55714399	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	189875	55714399	78137496	1015	104820											
ERBB3	2065	broad.mit.edu	37	chr12	56495025	56495025	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccggagcccacggccacgcGgagatagcgcctaccattcc	8	4	12	17	5	0	1	0	0	0	1	1	3	1	2	6	3	3	0	6	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:56495025G>A	uc001sjh.2	+	27	3575	c.3382G>A	c.(3382-3384)GGA>AGA	p.G1128R	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Missense_Mutation_p.G485R|ERBB3_uc010sqc.1_Missense_Mutation_p.G1069R|ERBB3_uc009zok.2_Missense_Mutation_p.G393R|ERBB3_uc001sjk.2_Missense_Mutation_p.G369R|ERBB3_uc001sjl.2_Missense_Mutation_p.G248R	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	1128	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			ACGGCCACGCGGAGATAGCGC	0.587													14	43					0	0	0.003163	0	0		A	56495025	A	A	56495025	3	1	212	1	0	0	0	0	1	0	0	0	5216	1117	39	1	3619	1	ERBB3	12	56495025	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	780626	56495025	77356870	1016	104821											
ANKRD52	283373	broad.mit.edu	37	chr12	56647935	56647935	+	Silent	SNP	C	T	T	0	0	0	1	1	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	actgcagccacatgcagtggCgtgaagcccttgtcattcgg	8	9	12	12	2	1	1	1	1	0	0	2	1	1	1	2	2	4	2	2	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:56647935C>T	uc001skm.3	-	8	912	c.822G>A	c.(820-822)ACG>ACA	p.T274T	ANKRD52_uc001skn.1_RNA	NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	274	ANK 9.						protein binding			ovary(2)	2						CATGCAGTGGCGTGAAGCCCT	0.557													28	101					0	0	0.007291	0	0		T	56647935	T	T	56647935	2	4	212	1	0	0	0	0	0	0	0	1	678	755	27	1		1	ANKRD52	12	56647935	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	152910	56647935	77203960	1017	104822											
MIP	4284	broad.mit.edu	37	chr12	56847486	56847486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcagagcacgaactggagCgtcaggaagatctccactgt	12	7	12	10	2	2	2	1	0	1	2	3	5	2	4	1	2	4	2	1	2	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:56847486C>T	uc001slh.2	-	2	446	c.414G>A	c.(412-414)ACG>ACA	p.T138T		NM_012064	NP_036196	P30301	MIP_HUMAN	major intrinsic protein of lens fiber	138	Helical; (By similarity).		T -> R (in ADC; progressive polymorphic and lamellar cataract; loss of activity).		response to stimulus|visual perception	gap junction|integral to plasma membrane	structural constituent of eye lens			skin(1)	1						CGAACTGGAGCGTCAGGAAGA	0.617													11	30					0	0	0.010729	0	0		T	56847486	T	T	56847486	2	4	212	1	0	0	0	0	0	0	0	1	9609	755	27	1		1	MIP	12	56847486	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	199551	56847486	77004409	1018	104823											
GLS2	27165	broad.mit.edu	37	chr12	56868661	56868661	+	Missense_Mutation	SNP	T	C	C	0	1	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	gatcaagggcagccatcatgTccacccccttaggaaagcac	12	6	9	14	0	2	0	2	0	0	0	3	2	3	1	4	2	2	2	4	2	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:56868661T>C	uc001slj.2	-	11	1295	c.1016A>G	c.(1015-1017)GAC>GGC	p.D339G	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_Missense_Mutation_p.D74G|GLS2_uc009zot.2_5'UTR	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	339					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	AGCCATCATGTCCACCCCCTT	0.547													23	60					0	0	0.004656	0	0		C	56868661	C	C	56868661	3	2	212	1	0	0	0	0	1	0	0	0	6479	1667	58	3	824	3	GLS2	12	56868661	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	21175	56868661	76983234	1019	104824											
B4GALNT1	2583	broad.mit.edu	37	chr12	58021960	58021960	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctctccagccgcgtccgcGccgtgaagacgaagtcgtcg	6	6	13	16	8	1	2	0	1	1	1	5	3	2	2	5	0	1	0	5	0	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:58021960G>A	uc001spg.1	-	9	1520	c.1088C>T	c.(1087-1089)GCG>GTG	p.A363V	B4GALNT1_uc010sru.1_Missense_Mutation_p.A308V	NM_001478	NP_001469	Q00973	B4GN1_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 1	363	Lumenal (Potential).				lipid glycosylation	integral to Golgi membrane|membrane fraction	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity				0	Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			CCGCGTCCGCGCCGTGAAGAC	0.647													18	73					0	0	0.010504	0	0		A	58021960	A	A	58021960	3	1	212	1	0	0	0	0	1	0	0	0	1267	1087	38	1	525	1	B4GALNT1	12	58021960	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1153299	58021960	75829935	1020	104825											
XRCC6BP1	91419	broad.mit.edu	37	chr12	58335595	58335595	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtctggcccaggggaatccCcagcaagggttcttctccag	7	8	12	14	1	3	0	0	0	3	0	5	1	4	1	4	4	1	2	4	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:58335595C>T	uc001sqp.2	+	1	151	c.111C>T	c.(109-111)CCC>CCT	p.P37P		NM_033276	NP_150592	Q9Y6H3	ATP23_HUMAN	XRCC6 binding protein 1	37					double-strand break repair via nonhomologous end joining	DNA-dependent protein kinase-DNA ligase 4 complex	DNA-dependent protein kinase activity|metal ion binding|metalloendopeptidase activity			ovary(1)	1						AGGGGAATCCCCAGCAAGGGT	0.542													7	17					0	0	0.00308	0	0		T	58335595	T	T	58335595	2	4	212	1	0	0	0	0	0	0	0	1	17484	610	22	4		4	XRCC6BP1	12	58335595	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	313635	58335595	75516300	1021	104826											
HELB	92797	broad.mit.edu	37	chr12	66696387	66696387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttgagttcaggagaagcatgGccaggtcgagtccgtacctg	9	9	14	9	2	1	2	1	1	0	1	3	4	2	2	3	3	2	3	3	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:66696387G>A	uc001sti.2	+	1	32	c.4G>A	c.(4-6)GCC>ACC	p.A2T	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	2					DNA replication, synthesis of RNA primer		ATP binding|ATP-dependent 5'-3' DNA helicase activity|single-stranded DNA-dependent ATP-dependent DNA helicase activity			central_nervous_system(1)|pancreas(1)	2			GBM - Glioblastoma multiforme(2;0.000142)	GBM - Glioblastoma multiforme(28;0.0265)		GAGAAGCATGGCCAGGTCGAG	0.552													26	49					0	0	0.00632	0	0		A	66696387	A	A	66696387	3	1	212	1	0	0	0	0	1	0	0	0	7061	1203	42	2	6	2	HELB	12	66696387	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8360792	66696387	67155508	1022	104827											
MDM2	4193	broad.mit.edu	37	chr12	69222698	69222698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tagcagtgaatctacagggaCgccatcgaatccggtaatgt	12	9	11	9	3	1	1	0	1	1	0	3	3	2	2	2	2	2	2	2	2	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:69222698C>T	uc001sui.2	+	8	958	c.671C>T	c.(670-672)ACG>ATG	p.T224M	MDM2_uc009zri.2_Missense_Mutation_p.T179M|MDM2_uc009zqx.2_Missense_Mutation_p.T169M|MDM2_uc009zqw.2_Intron|MDM2_uc001suk.2_Intron|MDM2_uc009zqy.1_Missense_Mutation_p.T213M|MDM2_uc001sun.3_Intron|MDM2_uc009zqz.2_Missense_Mutation_p.T218M|MDM2_uc009zra.2_Intron|MDM2_uc001sum.1_Intron|MDM2_uc009zrd.2_Intron|MDM2_uc009zrc.2_Intron|MDM2_uc009zre.2_Intron|MDM2_uc009zrf.2_Intron|MDM2_uc001suo.2_Intron|MDM2_uc009zrg.2_Intron|MDM2_uc009zrh.2_Intron	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	218	ARF-binding.|Interaction with MTBP (By similarity).|Interaction with PYHIN1.				cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			TCTACAGGGACGCCATCGAAT	0.408			A		sarcoma|glioma|colorectal|other								37	130					0	0	0.006999	0	0		T	69222698	T	T	69222698	3	4	212	1	0	0	0	0	1	0	0	0	9431	536	19	1	701	1	MDM2	12	69222698	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2526311	69222698	64629197	1023	104828											
KCNC2	3747	broad.mit.edu	37	chr12	75444468	75444468	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggggtacatatccccataAcccagggtagtcatggtcac	10	9	11	11	0	2	0	2	0	0	0	3	0	3	0	3	4	2	2	3	4	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:75444468A>C	uc001sxg.1	-	3	1861	c.1317T>G	c.(1315-1317)GGT>GGG	p.G439G	KCNC2_uc009zry.2_Silent_p.G439G|KCNC2_uc001sxe.2_Silent_p.G439G|KCNC2_uc001sxf.2_Silent_p.G439G|KCNC2_uc010stw.1_Silent_p.G439G	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	439	Selectivity filter (By similarity).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						TATCCCCATAACCCAGGGTAG	0.537													14	41					0	0	0.003163	0	0		C	75444468	C	C	75444468	2	2	212	1	0	0	0	0	0	0	0	1	8031	30	2	5		5	KCNC2	12	75444468	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6221770	75444468	58407427	1024	104829											
E2F7	144455	broad.mit.edu	37	chr12	77436971	77436971	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctatgtcatagaggcgtcGtacctttgcttgaagatata	10	13	11	7	2	1	3	1	1	0	2	2	3	1	3	1	2	2	3	1	2	6	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:77436971G>A	uc001sym.3	-	7	1233	c.997C>T	c.(997-999)CGA>TGA	p.R333*		NM_203394	NP_976328	Q96AV8	E2F7_HUMAN	E2F transcription factor 7	333	Potential.				cell cycle	transcription factor complex	DNA binding|identical protein binding			upper_aerodigestive_tract(1)|ovary(1)|kidney(1)	3						TAGAGGCGTCGTACCTTTGCT	0.443													5	99					0	0	0.000602	0	0		A	77436971	A	A	77436971	4	1	212	1	0	0	0	0	0	1	0	0	4878	1153	40	1	1766	1	E2F7	12	77436971	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1992503	77436971	56414924	1025	104830											
LRRIQ1	84125	broad.mit.edu	37	chr12	85531634	85531634	+	Missense_Mutation	SNP	T	A	A	0	1	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	acatttttgtttaggcagttTggaagggctttattttgcga	8	18	11	4	1	0	0	0	0	0	0	0	2	0	1	0	3	1	4	0	3	3	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:85531634T>A	uc001tac.2	+	19	4327	c.4216T>A	c.(4216-4218)TGG>AGG	p.W1406R		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1406	IQ 3.									ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		TTAGGCAGTTTGGAAGGGCTT	0.323													23	70					0	0	0.00333	0	0		A	85531634	A	A	85531634	3	1	212	1	0	0	0	0	1	0	0	0	9047	1812	63	5	4290	5	LRRIQ1	12	85531634	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	8094663	85531634	48320261	1026	104831											
LRRIQ1	84125	broad.mit.edu	37	chr12	85554491	85554491	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagagatggttactttgaAggtatggcttaataacagat	15	12	11	3	0	0	4	0	1	0	3	0	5	0	4	0	3	2	3	0	3	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:85554491A>C	uc001tac.2	+	24	4932	c.4821A>C	c.(4819-4821)GAA>GAC	p.E1607D		NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	1607										ovary(4)|central_nervous_system(1)|skin(1)	6				GBM - Glioblastoma multiforme(134;0.212)		GTTACTTTGAAGGTATGGCTT	0.264													22	74					0	0	0.012319	0	0		C	85554491	C	C	85554491	3	2	212	1	0	0	0	0	1	0	0	0	9047	86	3	5	4915	5	LRRIQ1	12	85554491	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	22857	85554491	48297404	1027	104832											
C12orf50	160419	broad.mit.edu	37	chr12	88379656	88379656	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttgggtttgggttccctgTtagcatggactttattgtag	5	17	14	5	0	0	0	0	0	0	0	1	1	1	1	1	4	1	6	1	4	3	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:88379656T>A	uc001tam.1	-	11	1265	c.1097A>T	c.(1096-1098)AAC>ATC	p.N366I	C12orf50_uc001tan.2_Missense_Mutation_p.N381I	NM_152589	NP_689802	Q8NA57	CL050_HUMAN	hypothetical protein LOC160419	366										skin(2)|ovary(1)	3						GGGTTCCCTGTTAGCATGGAC	0.498													34	100					0	0	0.006999	0	0		A	88379656	A	A	88379656	3	1	212	1	0	0	0	0	1	0	0	0	1698	1725	60	5	159	5	C12orf50	12	88379656	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2825165	88379656	45472239	1028	104833											
TMTC3	160418	broad.mit.edu	37	chr12	88554465	88554465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ttctttttcagtatactttgCcattactatgtactactgct	8	20	4	9	0	2	0	1	0	1	0	2	0	2	0	1	0	6	3	1	0	6	10			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:88554465C>T	uc001tau.2	+	6	854	c.634C>T	c.(634-636)CCA>TCA	p.P212S	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	212	Helical; (Potential).					integral to membrane	binding			skin(1)	1						GTATACTTTGCCATTACTATG	0.338													6	56					0	0	0.001984	0	0		T	88554465	T	T	88554465	3	4	212	1	0	0	0	0	1	0	0	0	16287	739	26	2	652	2	TMTC3	12	88554465	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	174809	88554465	45297430	1029	104834											
ATP2B1	490	broad.mit.edu	37	chr12	89998030	89998030	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatgctgtcatagacatttcGtccccacataactgctttaa	11	13	6	11	1	1	1	1	0	0	1	3	2	2	1	2	0	3	2	2	0	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:89998030G>A	uc001tbh.2	-	15	2717	c.2536C>T	c.(2536-2538)CGA>TGA	p.R846*	ATP2B1_uc001tbg.2_Nonsense_Mutation_p.R846*|ATP2B1_uc001tbf.2_Nonsense_Mutation_p.R516*	NM_001682	NP_001673	P20020	AT2B1_HUMAN	plasma membrane calcium ATPase 1 isoform 1b	846	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3						TAGACATTTCGTCCCCACATA	0.393													22	36					0	0	0.014323	0	0		A	89998030	A	A	89998030	4	1	212	1	0	0	0	0	0	1	0	0	1140	1153	40	1	1308	1	ATP2B1	12	89998030	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1443565	89998030	43853865	1030	104835											
EPYC	1833	broad.mit.edu	37	chr12	91358060	91358060	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatataagtcaaatttttaAcattgcagaacgtatcttcg	15	14	6	6	2	2	1	1	0	1	1	3	2	2	1	0	0	3	2	0	0	7	8	rs1135867		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:91358060A>G	uc001tbk.2	-	7	935	c.842T>C	c.(841-843)GTT>GCT	p.V281A		NM_004950	NP_004941	Q99645	EPYC_HUMAN	dermatan sulfate proteoglycan 3 precursor	281				V -> G (in Ref. 1; AAC50945).	female pregnancy	proteinaceous extracellular matrix	glycosaminoglycan binding			skin(1)	1						CAAATTTTTAACATTGCAGAA	0.323													18	50					0	0	0.00499	0	0		G	91358060	G	G	91358060	3	3	212	1	0	0	0	0	1	0	0	0	5209	43	2	3	130	3	EPYC	12	91358060	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1360030	91358060	42493835	1031	104836											
CCDC38	120935	broad.mit.edu	37	chr12	96288870	96288870	+	Frame_Shift_Del	DEL	A	-	-																															tttggagacatttgcagcagAaaaaaaccatatttcatata																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:96288870delA	uc001tek.1	-	8	903	c.669delT	c.(667-669)TTTfs	p.F223fs		NM_182496	NP_872302	Q502W7	CCD38_HUMAN	coiled-coil domain containing 38	223										skin(1)	1						TTTGCAGCAGAAAAAAACCAT	0.338													42	92	---	---	---	---						.	-	96288870	-	-	96288870	7	5	212	1	0	1	0	1	0	0	0	0	2813	243	9	0	1058	0	CCDC38	12	96288870	Frame_Shift_Del	DEL	A	TCGA-HU-A4GU-01A-11D-A25D-08	4930810	96288870	37563025	1032	104837											
ACTR6	64431	broad.mit.edu	37	chr12	100613858	100613858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttcccaggatttagggatcGggtttactcagaagttcgat	9	14	11	7	2	1	1	1	0	0	1	4	4	2	3	1	3	1	2	1	3	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:100613858G>A	uc001thb.1	+	10	1051	c.995G>A	c.(994-996)CGG>CAG	p.R332Q	ACTR6_uc001thc.1_Missense_Mutation_p.R224Q|ACTR6_uc001thd.1_Missense_Mutation_p.R312Q|ACTR6_uc009ztu.1_Missense_Mutation_p.R137Q|ACTR6_uc001the.1_Missense_Mutation_p.R250Q|ACTR6_uc001thf.1_Missense_Mutation_p.R230Q|uc001thg.1_Intron	NM_022496	NP_071941	Q9GZN1	ARP6_HUMAN	ARP6 actin-related protein 6 homolog	332						cytoplasm|cytoskeleton				ovary(1)	1						TTTAGGGATCGGGTTTACTCA	0.373													26	65					0	0	0.004656	0	0		A	100613858	A	A	100613858	3	1	212	1	0	0	0	0	1	0	0	0	216	1116	39	1	1033	1	ACTR6	12	100613858	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4324988	100613858	33238037	1033	104838											
SLC17A8	246213	broad.mit.edu	37	chr12	100813745	100813745	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgtggaatcattgaccaggaCgaattagctgaggagataga	14	9	13	5	1	1	4	1	2	0	2	1	8	1	6	1	3	1	1	1	3	4	3	rs141294063		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:100813745C>T	uc010svi.1	+	12	1891	c.1578C>T	c.(1576-1578)GAC>GAT	p.D526D	SLC17A8_uc009ztx.2_Silent_p.D476D	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	526	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TTGACCAGGACGAATTAGCTG	0.473													8	24					0	0	0.00308	0	0		T	100813745	T	T	100813745	2	4	212	1	0	0	0	0	0	0	0	1	14448	535	19	1		1	SLC17A8	12	100813745	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	199887	100813745	33038150	1034	104839											
ANO4	121601	broad.mit.edu	37	chr12	101430912	101430912	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatggctcctatgaagctgCgtttcccctgcatgaggtat	8	12	10	11	1	0	2	0	2	0	0	2	2	2	2	3	2	3	5	3	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:101430912C>T	uc010svm.1	+	10	1453	c.881C>T	c.(880-882)GCG>GTG	p.A294V	ANO4_uc001thw.2_Missense_Mutation_p.A259V|ANO4_uc001thx.2_Missense_Mutation_p.A294V	NM_178826	NP_849148	Q32M45	ANO4_HUMAN	anoctamin 4	294	Extracellular (Potential).					chloride channel complex	chloride channel activity			ovary(4)|skin(2)	6						TATGAAGCTGCGTTTCCCCTG	0.343										HNSCC(74;0.22)			9	132					0	0	0.00245	0	0		T	101430912	T	T	101430912	3	4	212	1	0	0	0	0	1	0	0	0	699	768	27	1	806	1	ANO4	12	101430912	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	617167	101430912	32420983	1035	104840											
UTP20	27340	broad.mit.edu	37	chr12	101723149	101723149	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacattagtcatctgatcagCgcatacctgccgaagatttt	12	12	7	10	2	3	2	2	1	1	1	3	3	3	2	2	0	4	1	2	0	4	4	rs144955025		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:101723149C>T	uc001tia.1	+	27	3495	c.3339C>T	c.(3337-3339)AGC>AGT	p.S1113S		NM_014503	NP_055318	O75691	UTP20_HUMAN	down-regulated in metastasis	1113					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			ovary(2)|breast(2)	4						ATCTGATCAGCGCATACCTGC	0.403													25	71					0	0	0.004656	0	0		T	101723149	T	T	101723149	2	4	212	1	0	0	0	0	0	0	0	1	17125	767	27	1		1	UTP20	12	101723149	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	292237	101723149	32128746	1036	104841											
GNPTAB	79158	broad.mit.edu	37	chr12	102155084	102155084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcatatcctcagaatggcGcactttgtgaaatgacgtct	10	12	9	10	2	2	3	1	2	1	1	3	3	3	3	1	1	1	2	1	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:102155084G>A	uc001tit.2	-	15	3135	c.2956C>T	c.(2956-2958)CGC>TGC	p.R986C		NM_024312	NP_077288	Q3T906	GNPTA_HUMAN	N-acetylglucosamine-1-phosphate transferase	986					cell differentiation	Golgi membrane|integral to membrane|nucleus	metal ion binding|transcription factor binding|UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity			ovary(1)|skin(1)	2						TCAGAATGGCGCACTTTGTGA	0.363													27	99					0	0	0.008361	0	0		A	102155084	A	A	102155084	3	1	212	1	0	0	0	0	1	0	0	0	6560	1087	38	1	842	1	GNPTAB	12	102155084	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	431935	102155084	31696811	1037	104842											
ACACB	32	broad.mit.edu	37	chr12	109577565	109577565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccccagagcttcaagccaacGggactgggacacaaggtctg	11	5	12	13	1	2	1	1	0	1	1	2	3	2	3	3	3	3	1	3	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:109577565G>A	uc001tob.2	+	2	474	c.355G>A	c.(355-357)GGG>AGG	p.G119R	ACACB_uc001toc.2_Missense_Mutation_p.G119R	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	119					acetyl-CoA metabolic process|carnitine shuttle|energy reserve metabolic process|fatty acid biosynthetic process|positive regulation of cellular metabolic process|protein homotetramerization|regulation of fatty acid oxidation	cytosol|endomembrane system|Golgi apparatus|membrane	acetyl-CoA carboxylase activity|ATP binding|biotin carboxylase activity|metal ion binding|protein binding			ovary(5)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	8					Biotin(DB00121)	TCAAGCCAACGGGACTGGGAC	0.622													60	117					0	0	0.01441	0	0		A	109577565	A	A	109577565	3	1	212	1	0	0	0	0	1	0	0	0	107	1116	39	1	357	1	ACACB	12	109577565	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	7422481	109577565	24274330	1038	104843											
ALDH2	217	broad.mit.edu	37	chr12	112235973	112235973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgtggtgggggcattgctgCtgaccgtggttacttcatcc	4	13	15	9	1	1	1	1	1	0	0	2	1	2	1	2	4	3	4	2	4	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:112235973C>T	uc001tst.2	+	10	1616	c.1175C>T	c.(1174-1176)GCT>GTT	p.A392V	ALDH2_uc010syi.1_Missense_Mutation_p.A345V|ALDH2_uc009zvy.2_Missense_Mutation_p.A316V	NM_000690	NP_000681	P05091	ALDH2_HUMAN	mitochondrial aldehyde dehydrogenase 2	392					carbohydrate metabolic process|ethanol oxidation|neurotransmitter biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase|electron carrier activity			skin(2)|ovary(1)|central_nervous_system(1)	4					Disulfiram(DB00822)|Guanidine(DB00536)|NADH(DB00157)|Nitroglycerin(DB00727)	GGCATTGCTGCTGACCGTGGT	0.567			T	HMGA2	leiomyoma								16	38					0	0	0.003163	0	0		T	112235973	T	T	112235973	3	4	212	1	0	0	0	0	1	0	0	0	496	797	28	2	1213	2	ALDH2	12	112235973	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2658408	112235973	21615922	1039	104844											
C12orf51	283450	broad.mit.edu	37	chr12	112610662	112610662	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcggacatcgatgcatgcGcaccttggggtggggacagg	7	8	17	9	3	0	0	0	0	0	0	2	3	0	2	1	6	2	2	1	6	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:112610662G>A	uc009zwc.2	-	60	10350	c.10332C>T	c.(10330-10332)TGC>TGT	p.C3444C		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						CGATGCATGCGCACCTTGGGG	0.587													15	73					0	0	0.00499	0	0		A	112610662	A	A	112610662	2	1	212	1	0	0	0	0	0	0	0	1	1699	1079	38	1		1	C12orf51	12	112610662	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	374689	112610662	21241233	1040	104845											
RPL6	6128	broad.mit.edu	37	chr12	112843672	112843672	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttacctctttttctgtgtcGaagatctcaccttcctggtg	5	17	7	12	1	3	1	1	0	3	1	6	2	4	1	3	1	1	0	3	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:112843672G>A	uc001ttu.2	-	6	928	c.699C>T	c.(697-699)TTC>TTT	p.F233F	RPL6_uc001ttv.2_Silent_p.F233F	NM_001024662	NP_001019833	Q02878	RL6_HUMAN	ribosomal protein L6	233					endocrine pancreas development|regulation of transcription, DNA-dependent|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	DNA binding|RNA binding|structural constituent of ribosome			large_intestine(1)	1						TTTCTGTGTCGAAGATCTCAC	0.418													10	56					0	0	0.010729	0	0		A	112843672	A	A	112843672	2	1	212	1	0	0	0	0	0	0	0	1	13623	1049	37	1		1	RPL6	12	112843672	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	233010	112843672	21008223	1041	104846											
OAS1	4938	broad.mit.edu	37	chr12	113348938	113348938	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accgacctgcagaaagagggCgagttctccacctgcttcac	10	7	10	14	2	2	2	1	0	1	2	3	4	2	2	4	1	2	3	4	1	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:113348938C>T	uc001tud.2	+	3	658	c.552C>T	c.(550-552)GGC>GGT	p.G184G	OAS1_uc010syn.1_Silent_p.G183G|OAS1_uc010syo.1_Nonsense_Mutation_p.R168*|OAS1_uc001tub.2_Silent_p.G184G|OAS1_uc001tuc.2_Silent_p.G184G|OAS1_uc009zwf.2_Silent_p.G183G	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	184					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						AGAAAGAGGGCGAGTTCTCCA	0.527													17	72					0	0	0.007413	0	0		T	113348938	T	T	113348938	2	4	212	1	0	0	0	0	0	0	0	1	10818	755	27	1		1	OAS1	12	113348938	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	505266	113348938	20502957	1042	104847											
DDX54	79039	broad.mit.edu	37	chr12	113603681	113603681	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggactcaggcgagggcgccGggcgtgagcgcacatactgc	7	5	17	12	5	1	1	1	1	0	0	1	3	1	2	1	4	3	1	1	4	1	1	rs150376630	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:113603681G>A	uc001tup.2	-	13	1599	c.1571C>T	c.(1570-1572)CCG>CTG	p.P524L	DDX54_uc001tuq.3_Missense_Mutation_p.P524L	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	524					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						CGAGGGCGCCGGGCGTGAGCG	0.652													21	42					0	0	0.003954	0	0		A	113603681	A	A	113603681	3	1	212	1	0	0	0	0	1	0	0	0	4375	1116	39	1	1109	1	DDX54	12	113603681	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	254743	113603681	20248214	1043	104848											
DDX54	79039	broad.mit.edu	37	chr12	113618785	113618785	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttcttgttctgggcacgcaCcatctcccgggtgtccggct	3	12	11	15	3	3	0	0	0	3	0	5	0	4	0	3	3	0	4	3	3	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:113618785C>T	uc001tup.2	-	2	281	c.253G>A	c.(253-255)GTG>ATG	p.V85M	DDX54_uc001tuq.3_Missense_Mutation_p.V85M	NM_024072	NP_076977	Q8TDD1	DDX54_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 54	85					estrogen receptor signaling pathway|regulation of transcription, DNA-dependent|RNA processing|transcription, DNA-dependent	nucleolus	ATP binding|ATP-dependent RNA helicase activity|estrogen receptor binding|RNA binding|transcription corepressor activity			skin(2)|central_nervous_system(1)	3						TGGGCACGCACCATCTCCCGG	0.622													31	73					0	0	0.008361	0	0		T	113618785	T	T	113618785	3	4	212	1	0	0	0	0	1	0	0	0	4375	507	18	4	2471	4	DDX54	12	113618785	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	15104	113618785	20233110	1044	104849											
NOS1	4842	broad.mit.edu	37	chr12	117672391	117672391	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	taaagccgtgttccgctcctCcagcagttccactttcacca	8	11	6	16	2	1	0	1	0	0	0	5	0	5	0	6	0	2	4	6	0	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:117672391C>G	uc001twm.1	-	21	3900	c.3214G>C	c.(3214-3216)GAG>CAG	p.E1072Q		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1072	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	TTCCGCTCCTCCAGCAGTTCC	0.592													29	54					0	0	0.003271	0	0		G	117672391	G	G	117672391	3	3	212	1	0	0	0	0	1	0	0	0	10560	864	30	5	1126	5	NOS1	12	117672391	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4053606	117672391	16179504	1045	104850											
NOS1	4842	broad.mit.edu	37	chr12	117768790	117768790	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgctccttcaccagaaatcCcaggcccccaactttgcgct	8	8	6	19	2	1	1	1	0	0	1	3	1	3	1	6	1	2	2	6	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:117768790C>A	uc001twm.1	-	2	771	c.85G>T	c.(85-87)GGA>TGA	p.G29*		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	29	Interaction with NOSIP (By similarity).|PDZ.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	ACCAGAAATCCCAGGCCCCCA	0.562													22	68					7.45023e-12	8.24013e-12	0.010504	1	0		A	117768790	A	A	117768790	4	1	212	1	0	0	0	0	0	1	0	0	10560	632	22	5	4331	5	NOS1	12	117768790	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	96399	117768790	16083105	1046	104851											
VSIG10	54621	broad.mit.edu	37	chr12	118511549	118511549	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctccctcacccctacagggcTgtcagctcggcagatgtagt	7	9	10	15	1	2	1	2	0	0	1	4	1	3	1	3	2	2	4	3	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:118511549T>G	uc001tws.2	-	5	1508	c.1174A>C	c.(1174-1176)AGC>CGC	p.S392R		NM_019086	NP_061959	Q8N0Z9	VSI10_HUMAN	V-set and immunoglobulin domain containing 10	392	Ig-like C2-type 4.|Extracellular (Potential).					integral to membrane					0						CCTACAGGGCTGTCAGCTCGG	0.577													20	56					0	0	0.003954	0	0		G	118511549	G	G	118511549	3	3	212	1	0	0	0	0	1	0	0	0	17249	1580	55	5	468	5	VSIG10	12	118511549	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	742759	118511549	15340346	1047	104852											
HNF1A	6927	broad.mit.edu	37	chr12	121426831	121426831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgcaagcagcgagaggtggcGcagcgtaagtaatgacccta	12	5	14	10	4	0	2	0	1	0	1	0	3	0	2	1	2	3	5	1	2	4	3	rs149278462		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:121426831G>A	uc001tzg.2	+	2	545	c.522G>A	c.(520-522)GCG>GCA	p.A174A	HNF1A_uc001tze.1_Silent_p.A174A|HNF1A_uc001tzf.2_Silent_p.A174A|HNF1A_uc010szn.1_Silent_p.A174A	NM_000545	NP_000536	P20823	HNF1A_HUMAN	hepatic nuclear factor-1-alpha	174					glucose homeostasis|glucose import|insulin secretion|positive regulation of transcription initiation from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|renal glucose absorption	cytoplasm|nucleus|protein complex	DNA binding|protein dimerization activity|protein heterodimerization activity|protein homodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			liver(92)|large_intestine(15)|endometrium(6)|breast(2)|lung(1)	116	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GAGAGGTGGCGCAGCGTAAGT	0.607									Hepatic_Adenoma_Familial_Clustering_of				5	44					0	0	0.001984	0	0		A	121426831	A	A	121426831	2	1	212	1	0	0	0	0	0	0	0	1	7267	1074	38	1		1	HNF1A	12	121426831	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2915282	121426831	12425064	1048	104853											
P2RX7	5027	broad.mit.edu	37	chr12	121603953	121603953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgactaggagacatcttccGagaaacaggcgataattttt	13	10	9	9	3	1	2	0	0	1	2	2	6	2	2	2	2	1	0	2	2	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:121603953G>A	uc001tzm.2	+	7	803	c.707G>A	c.(706-708)CGA>CAA	p.R236Q	P2RX7_uc001tzn.2_Missense_Mutation_p.R146Q|P2RX7_uc001tzo.2_RNA|P2RX7_uc001tzp.2_5'UTR|P2RX7_uc001tzq.2_Missense_Mutation_p.R66Q	NM_002562	NP_002553	Q99572	P2RX7_HUMAN	purinergic receptor P2X7	236						integral to membrane	ATP binding|ion channel activity|receptor activity			large_intestine(2)|lung(1)|breast(1)|skin(1)	5	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GACATCTTCCGAGAAACAGGC	0.468													71	198					0	0	0.01441	0	0		A	121603953	A	A	121603953	3	1	212	1	0	0	0	0	1	0	0	0	11364	1058	37	1	733	1	P2RX7	12	121603953	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	177122	121603953	12247942	1049	104854											
CLIP1	6249	broad.mit.edu	37	chr12	122845618	122845618	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cggacgtggtcgccatcactCgcctcactgcgttggccttg	4	10	12	15	5	2	0	2	0	0	0	4	1	2	1	3	3	1	1	3	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:122845618C>G	uc001ucg.1	-	4	999	c.893G>C	c.(892-894)CGA>CCA	p.R298P	CLIP1_uc001uch.1_Missense_Mutation_p.R298P|CLIP1_uc001uci.1_Missense_Mutation_p.R298P|CLIP1_uc001ucj.1_5'UTR|CLIP1_uc010tae.1_Missense_Mutation_p.R298P	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	298					mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		CGCCATCACTCGCCTCACTGC	0.582													18	50					0	0	0.006122	0	0		G	122845618	G	G	122845618	3	3	212	1	0	0	0	0	1	0	0	0	3535	884	31	5	3474	5	CLIP1	12	122845618	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1241665	122845618	11006277	1050	104855											
GPR109A	338442	broad.mit.edu	37	chr12	123187301	123187301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagatgctgaagctgctgCacaaatttgcaccgccattc	10	9	10	12	1	0	2	0	1	0	1	1	2	0	2	2	1	5	6	2	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:123187301C>T	uc001ucx.1	-	1	604	c.530G>A	c.(529-531)TGC>TAC	p.C177Y	GPR81_uc001ucw.1_Intron	NM_177551	NP_808219	Q8TDS4	HCAR2_HUMAN	G protein-coupled receptor 109A	177	Extracellular (Potential).				negative regulation of lipid catabolic process|neutrophil apoptosis|positive regulation of adiponectin secretion|positive regulation of neutrophil apoptosis	integral to membrane|plasma membrane	nicotinic acid receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.12e-05)|Epithelial(86;3.19e-05)|BRCA - Breast invasive adenocarcinoma(302;0.196)	Mepenzolate(DB04843)|Niacin(DB00627)	GAAGCTGCTGCACAAATTTGC	0.547													22	73					0	0	0.014323	0	0		T	123187301	T	T	123187301	3	4	212	1	0	0	0	0	1	0	0	0	6640	710	25	2	565	2	GPR109A	12	123187301	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	341683	123187301	10664594	1051	104856											
SBNO1	55206	broad.mit.edu	37	chr12	123794266	123794266	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccctacttacctaagattcCcatatcatatcttccatttt	10	17	1	13	0	2	1	1	0	1	1	5	1	5	1	4	0	2	0	4	0	5	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:123794266C>A	uc010tap.1	-	25	3433	c.3433G>T	c.(3433-3435)GGA>TGA	p.G1145*	SBNO1_uc009zxv.2_RNA|SBNO1_uc010tao.1_Nonsense_Mutation_p.G1144*|SBNO1_uc010taq.1_Nonsense_Mutation_p.G96*|SBNO1_uc001ues.1_Nonsense_Mutation_p.G96*	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	1145							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		CCTAAGATTCCCATATCATAT	0.403													21	75					2.32416e-17	2.66032e-17	0.014323	1	0		A	123794266	A	A	123794266	4	1	212	1	0	0	0	0	0	1	0	0	13887	632	22	5	776	5	SBNO1	12	123794266	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	606965	123794266	10057629	1052	104857											
DNAH10	196385	broad.mit.edu	37	chr12	124265729	124265729	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ctgagcatgaatcagacctgCcgcccatgcctggggaggca	9	6	13	13	1	1	3	1	2	0	1	1	4	1	4	4	3	3	2	4	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:124265729C>T	uc001uft.3	+	6	566	c.541C>T	c.(541-543)CCG>TCG	p.P181S		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	181	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		ATCAGACCTGCCGCCCATGCC	0.428													62	199					0	0	0.01441	0	0		T	124265729	T	T	124265729	3	4	212	1	0	0	0	0	1	0	0	0	4604	739	26	2	563	2	DNAH10	12	124265729	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	471463	124265729	9586166	1053	104858											
DNAH10	196385	broad.mit.edu	37	chr12	124395130	124395130	+	Missense_Mutation	SNP	A	G	G	1	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	ctgaagaaatggaagctgtcAgcaaagccgggctggggatg	12	6	16	7	1	1	2	1	1	0	1	1	4	1	4	1	4	3	3	1	4	4	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:124395130A>G	uc001uft.3	+	58	9716	c.9691A>G	c.(9691-9693)AGC>GGC	p.S3231G		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	3231	Stalk (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		GGAAGCTGTCAGCAAAGCCGG	0.438													19	70					0	0	0.012319	0	0		G	124395130	G	G	124395130	3	3	212	1	0	0	0	0	1	0	0	0	4604	188	7	3	9921	3	DNAH10	12	124395130	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	129401	124395130	9456765	1054	104859											
SFRS8	6433	broad.mit.edu	37	chr12	132283990	132283990	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcatggccaaagtcagagCgatgcttgcagcttccaaaa	12	9	9	11	1	2	1	2	0	1	1	4	2	3	1	2	1	4	3	2	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:132283990C>T	uc001uja.1	+	18	2953	c.2813C>T	c.(2812-2814)GCG>GTG	p.A938V	SFRS8_uc010tbn.1_Missense_Mutation_p.A990V	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	938	Arg/Ser-rich (RS domain).				mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		AAAGTCAGAGCGATGCTTGCA	0.592													16	27					0	0	0.007413	0	0		T	132283990	T	T	132283990	3	4	212	1	0	0	0	0	1	0	0	0	14208	768	27	1	2883	1	SFRS8	12	132283990	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7888860	132283990	1567905	1055	104860											
EP400	57634	broad.mit.edu	37	chr12	132537749	132537749	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcatctctccgtgcagagCgaatcgcaaaagagaaaaag	15	6	11	9	3	1	2	0	0	1	2	4	4	2	2	1	1	2	3	1	1	5	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:132537749C>T	uc001ujn.2	+	41	7488	c.7453C>T	c.(7453-7455)CGA>TGA	p.R2485*	EP400_uc001ujl.2_Nonsense_Mutation_p.R2484*|EP400_uc001ujm.2_Nonsense_Mutation_p.R2404*	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2521					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CCGTGCAGAGCGAATCGCAAA	0.517													10	129					0	0	0.006214	0	0		T	132537749	T	T	132537749	4	4	212	1	0	0	0	0	0	1	0	0	5157	760	27	1	7612	1	EP400	12	132537749	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	253759	132537749	1314146	1056	104861											
POLE	5426	broad.mit.edu	37	chr12	133210909	133210909	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctccccatctctttcctccTcatcgtcctcattttcctgc	3	16	2	20	1	3	0	2	0	1	0	10	0	8	0	7	0	1	0	7	0	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:133210909T>C	uc001uks.1	-	43	5911	c.5867A>G	c.(5866-5868)GAG>GGG	p.E1956G	POLE_uc001ukq.1_Missense_Mutation_p.E166G|POLE_uc001ukr.1_Missense_Mutation_p.E760G|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1956					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		tctttcctcctcatcgtcctc	0.338								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					15	32					0	0	0.00245	0	0		C	133210909	C	C	133210909	3	2	212	1	0	0	0	0	1	0	0	0	12215	1551	54	3	1021	3	POLE	12	133210909	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	673160	133210909	640986	1057	104862											
POLE	5426	broad.mit.edu	37	chr12	133220111	133220111	+	Silent	SNP	G	A	A	0	0	1	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	ttattgaccacacacacacaGcccaggtgcaccagggcccg	11	5	9	16	1	0	1	0	1	0	0	0	1	0	1	4	2	2	1	4	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:133220111G>A	uc001uks.1	-	34	4370	c.4326C>T	c.(4324-4326)GGC>GGT	p.G1442G	POLE_uc001ukq.1_5'Flank|POLE_uc001ukr.1_Silent_p.G246G|POLE_uc010tbq.1_RNA|POLE_uc009zyu.1_Silent_p.G1415G	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1442					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair, DNA gap filling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CACACACACAGCCCAGGTGCA	0.612								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					66	191					0	0	0.01441	0	0		A	133220111	A	A	133220111	2	1	212	1	0	0	0	0	0	0	0	1	12215	958	34	2		2	POLE	12	133220111	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9202	133220111	631784	1058	104863											
GOLGA3	2802	broad.mit.edu	37	chr12	133372766	133372766	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccaggtgctcctgctgcaaaGcctcaagctgctggtctcgc	6	9	11	15	1	2	0	1	0	1	0	4	0	3	0	3	2	6	5	3	2	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr12:133372766G>A	uc001ukz.1	-	11	2700	c.2141C>T	c.(2140-2142)GCT>GTT	p.A714V	GOLGA3_uc001ula.1_Missense_Mutation_p.A714V|GOLGA3_uc001ulb.2_Missense_Mutation_p.A714V	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	714	Gln-rich.|Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		CTGCTGCAAAGCCTCAAGCTG	0.582													8	39					0	0	0.00308	0	0		A	133372766	A	A	133372766	3	1	212	1	0	0	0	0	1	0	0	0	6569	971	34	2	2549	2	GOLGA3	12	133372766	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	152655	133372766	479129	1059	104864											
TPTE2	93492	broad.mit.edu	37	chr13	20048099	20048099	+	Missense_Mutation	SNP	C	G	G																															catccatgagaaaaaataagCcaatagctagagaaatagaa																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:20048099C>G	uc001umd.2	-	7	558	c.347G>C	c.(346-348)GGC>GCC	p.G116A	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Intron|TPTE2_uc001ume.2_Missense_Mutation_p.G79A|TPTE2_uc009zzm.2_5'UTR|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	116	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		AAAAAATAAGCCAATAGCTAG	0.333													4	64					0	0	0.009096	0	0		G	20048099	G	G	20048099	3	3	212	1	0	0	0	0	1	0	0	0	16457	739	26	5	1281	5	TPTE2	13	20048099	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		20048099	95121779	1060	104865	193	2									
TPTE2	93492	broad.mit.edu	37	chr13	20048104	20048104	+	Silent	SNP	A	G	G																															atgagaaaaaataagccaatAgctagagaaatagaacgata																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:20048104A>G	uc001umd.2	-	7	553	c.342T>C	c.(340-342)GCT>GCC	p.A114A	TPTE2_uc009zzk.2_Intron|TPTE2_uc009zzl.2_Intron|TPTE2_uc001ume.2_Silent_p.A77A|TPTE2_uc009zzm.2_5'UTR|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	114	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		ATAAGCCAATAGCTAGAGAAA	0.333													4	69					0	0	0.009096	0	0		G	20048104	G	G	20048104	2	3	212	1	0	0	0	0	0	0	0	1	16457	407	15	3		3	TPTE2	13	20048104	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	5	20048104	95121774	1061	104866	193	2									
GJB2	2706	broad.mit.edu	37	chr13	20763535	20763535	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagtagtgatcgtagcacacGttcttgcagcctggctgcag	9	10	12	10	2	1	1	0	1	1	0	2	1	1	1	1	1	4	7	1	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:20763535G>A	uc001umy.2	-	2	401	c.186C>T	c.(184-186)AAC>AAT	p.N62N		NM_004004	NP_003995	P29033	CXB2_HUMAN	gap junction protein beta 2	62	Extracellular (Potential).				cell-cell signaling|cellular membrane organization|gap junction assembly|sensory perception of sound|transport	connexon complex|ER-Golgi intermediate compartment|integral to membrane					0		all_cancers(29;3.95e-22)|all_epithelial(30;2.36e-19)|all_lung(29;2.27e-18)|Lung SC(185;0.0257)|Ovarian(182;0.0822)		all cancers(112;0.000435)|Epithelial(112;0.000722)|OV - Ovarian serous cystadenocarcinoma(117;0.0096)|Lung(94;0.0236)|LUSC - Lung squamous cell carcinoma(192;0.0738)		CGTAGCACACGTTCTTGCAGC	0.572									Keratitis_Ichthyosis_and_Deafness_syndrome		OREG0022282	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	73					0	0	0.004656	0	0		A	20763535	A	A	20763535	2	1	212	1	0	0	0	0	0	0	0	1	6423	1136	40	1		1	GJB2	13	20763535	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	715431	20763535	94406343	1062	104867											
SACS	26278	broad.mit.edu	37	chr13	23942607	23942607	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agaaaatcaacaagtggtggCgttgtctgaccaaatcgacc	14	8	10	9	2	2	2	1	1	1	1	3	3	2	2	2	2	1	1	2	2	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:23942607C>T	uc001uon.2	-	5	868	c.279G>A	c.(277-279)ACG>ACA	p.T93T	SACS_uc001uoo.2_5'UTR|SACS_uc001uoq.1_5'UTR	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	93					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CAAGTGGTGGCGTTGTCTGAC	0.393													4	19					0	0	0.009096	0	0		T	23942607	T	T	23942607	2	4	212	1	0	0	0	0	0	0	0	1	13829	755	27	1		1	SACS	13	23942607	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3179072	23942607	91227271	1063	104868											
WASF3	10810	broad.mit.edu	37	chr13	27250695	27250695	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggacatcaggagcaaaagCgtatagatggcaccacccgt	13	6	11	11	2	1	1	1	0	0	1	1	3	1	3	2	3	2	3	2	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:27250695C>T	uc001uqv.2	+	7	775	c.550C>T	c.(550-552)CGT>TGT	p.R184C	WASF3_uc001uqw.2_Intron	NM_006646	NP_006637	Q9UPY6	WASF3_HUMAN	WAS protein family, member 3	184	Potential.				actin filament polymerization	cytoplasm|cytoskeleton	actin binding			pancreas(1)	1	Colorectal(5;0.000247)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.0114)|Epithelial(112;0.046)|OV - Ovarian serous cystadenocarcinoma(117;0.0547)|Lung(94;0.105)|LUSC - Lung squamous cell carcinoma(192;0.155)		GGAGCAAAAGCGTATAGATGG	0.473													16	37					0	0	0.006122	0	0		T	27250695	T	T	27250695	3	4	212	1	0	0	0	0	1	0	0	0	17280	768	27	1	568	1	WASF3	13	27250695	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3308088	27250695	87919183	1064	104869											
FLT1	2321	broad.mit.edu	37	chr13	28880898	28880898	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaacagagtgctgctgtcGccctggtagtcctaggggga	7	8	15	11	1	0	1	0	0	0	1	2	2	1	2	3	3	3	3	3	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:28880898G>A	uc001usb.3	-	29	4017	c.3732C>T	c.(3730-3732)GGC>GGT	p.G1244G	FLT1_uc010aap.2_Silent_p.G249G|FLT1_uc010aaq.2_Silent_p.G369G|FLT1_uc001usa.3_Silent_p.G462G	NM_002019	NP_002010	P17948	VGFR1_HUMAN	fms-related tyrosine kinase 1 isoform 1	1244	Cytoplasmic (Potential).				cell differentiation|female pregnancy|positive regulation of vascular endothelial growth factor receptor signaling pathway	extracellular space|Golgi apparatus|integral to plasma membrane|nucleus	ATP binding|growth factor binding|vascular endothelial growth factor receptor activity			lung(10)|central_nervous_system(5)|ovary(3)|stomach(2)|skin(2)|urinary_tract(1)|breast(1)	24	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0262)|Breast(139;0.188)	Colorectal(13;0.000674)	all cancers(112;0.0301)|Epithelial(112;0.155)|GBM - Glioblastoma multiforme(144;0.184)|OV - Ovarian serous cystadenocarcinoma(117;0.205)|Lung(94;0.207)	Sunitinib(DB01268)	TGCTGCTGTCGCCCTGGTAGT	0.552													18	40					0	0	0.007413	0	0		A	28880898	A	A	28880898	2	1	212	1	0	0	0	0	0	0	0	1	5955	1074	38	1		1	FLT1	13	28880898	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1630203	28880898	86288980	1065	104870											
BRCA2	675	broad.mit.edu	37	chr13	32930746	32930746	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgcgtgttctcataaacaGgtatgtgtttgtctacaata	10	16	8	7	1	3	0	1	0	3	0	4	0	3	0	0	1	3	3	0	1	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:32930746G>T	uc001uub.1	+	15	7844	c.7617G>T	c.(7615-7617)CAG>CAT	p.Q2539H		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2539	Interaction with FANCD2.				cell cycle cytokinesis|centrosome duplication|double-strand break repair via homologous recombination|negative regulation of mammary gland epithelial cell proliferation|nucleotide-excision repair|positive regulation of transcription, DNA-dependent|regulation of S phase of mitotic cell cycle	BRCA2-MAGE-D1 complex|centrosome|nucleoplasm|stored secretory granule	gamma-tubulin binding|H3 histone acetyltransferase activity|H4 histone acetyltransferase activity|protease binding|single-stranded DNA binding			ovary(20)|endometrium(8)|lung(7)|breast(7)|oesophagus(5)|large_intestine(4)|central_nervous_system(3)|pancreas(3)|skin(2)|upper_aerodigestive_tract(1)|cervix(1)|salivary_gland(1)|liver(1)|kidney(1)	64		Lung SC(185;0.0262)		all cancers(112;7.13e-07)|Epithelial(112;1.59e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000732)|BRCA - Breast invasive adenocarcinoma(63;0.0291)|GBM - Glioblastoma multiforme(144;0.0704)		CTCATAAACAGGTATGTGTTT	0.393			D|Mis|N|F|S		breast|ovarian|pancreatic	breast|ovarian|pancreatic|leukemia  (FANCB|FANCD1)		Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia_type_D1_bi-allelic_BRCA2_mutations|Fanconi_Anemia|Pancreatic_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_BRCA2_type|Hereditary_Prostate_Cancer|Li-Fraumeni_syndrome	TCGA Ovarian(8;0.087)			19	50					2.37509e-13	2.65894e-13	0.010504	1	0		T	32930746	T	T	32930746	3	4	212	1	0	0	0	0	1	0	0	0	1502	1014	35	5	7671	5	BRCA2	13	32930746	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4049848	32930746	82239132	1066	104871											
KL	9365	broad.mit.edu	37	chr13	33591332	33591332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcacggctacgccaccgggCgcctggcccccggcatccgg	4	3	15	19	6	0	0	0	0	0	0	1	0	1	0	6	6	1	3	6	6	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:33591332C>T	uc001uus.2	+	1	762	c.754C>T	c.(754-756)CGC>TGC	p.R252C	KL_uc001uur.1_Intron	NM_004795	NP_004786	Q9UEF7	KLOT_HUMAN	klotho precursor	252	Glycosyl hydrolase-1 1.|Extracellular (Potential).				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding			large_intestine(1)|ovary(1)|skin(1)	3	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		CGCCACCGGGCGCCTGGCCCC	0.706													4	23					0	0	0.009096	0	0		T	33591332	T	T	33591332	3	4	212	1	0	0	0	0	1	0	0	0	8347	768	27	1	756	1	KL	13	33591332	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	660586	33591332	81578546	1067	104872											
RFC3	5983	broad.mit.edu	37	chr13	34404130	34404130	+	Silent	SNP	T	G	G	0	1	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	agtaggtgcttggcggttcgTgtgcctgctcccagcattga	5	12	14	10	2	0	1	0	1	0	0	2	1	1	1	2	3	4	5	2	3	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:34404130T>G	uc001uuz.2	+	5	659	c.549T>G	c.(547-549)CGT>CGG	p.R183R	RFC3_uc001uva.2_Silent_p.R183R|RFC3_uc010ted.1_Silent_p.R183R	NM_002915	NP_002906	P40938	RFC3_HUMAN	replication factor C 3 isoform 1	183					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|response to organophosphorus|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding				0		Hepatocellular(188;0.0191)|Lung SC(185;0.0548)		all cancers(112;5.09e-06)|Epithelial(112;6.52e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00107)|OV - Ovarian serous cystadenocarcinoma(117;0.0285)|GBM - Glioblastoma multiforme(144;0.123)		TGGCGGTTCGTGTGCCTGCTC	0.393													20	76					0	0	0.012319	0	0		G	34404130	G	G	34404130	2	3	212	1	0	0	0	0	0	0	0	1	13271	1683	59	5		5	RFC3	13	34404130	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	812798	34404130	80765748	1068	104873											
POSTN	10631	broad.mit.edu	37	chr13	38153466	38153466	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctcctggtgtcaggtgataaAgaatgatgttttgaagagca	12	12	12	5	0	1	5	1	3	0	2	2	5	2	5	1	2	1	2	1	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:38153466A>C	uc001uwo.3	-	13	1809	c.1691T>G	c.(1690-1692)CTT>CGT	p.L564R	POSTN_uc010tet.1_Missense_Mutation_p.L92R|POSTN_uc001uwp.3_Missense_Mutation_p.L564R|POSTN_uc001uwr.2_Missense_Mutation_p.L564R|POSTN_uc001uwq.2_Missense_Mutation_p.L564R|POSTN_uc010teu.1_Missense_Mutation_p.L564R|POSTN_uc010tev.1_Missense_Mutation_p.L564R|POSTN_uc010tew.1_Missense_Mutation_p.L564R|POSTN_uc010tex.1_Missense_Mutation_p.L479R	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	564	FAS1 4.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		CAGGTGATAAAGAATGATGTT	0.318													22	55					0	0	0.00278	0	0		C	38153466	C	C	38153466	3	2	212	1	0	0	0	0	1	0	0	0	12278	72	3	5	863	5	POSTN	13	38153466	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	3749336	38153466	77016412	1069	104874											
POSTN	10631	broad.mit.edu	37	chr13	38160332	38160332	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggacacctcgtggaagtttcTcaaaagcctcattggtggga	10	10	12	9	1	2	0	2	0	1	0	4	3	2	3	2	4	1	1	2	4	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:38160332T>A	uc001uwo.3	-	7	957	c.839A>T	c.(838-840)GAG>GTG	p.E280V	POSTN_uc001uwp.3_Missense_Mutation_p.E280V|POSTN_uc001uwr.2_Missense_Mutation_p.E280V|POSTN_uc001uwq.2_Missense_Mutation_p.E280V|POSTN_uc010teu.1_Missense_Mutation_p.E280V|POSTN_uc010tev.1_Missense_Mutation_p.E280V|POSTN_uc010tew.1_Missense_Mutation_p.E280V|POSTN_uc010tex.1_Missense_Mutation_p.E195V	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	280	FAS1 2.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		TGGAAGTTTCTCAAAAGCCTC	0.478													26	67					0	0	0.008361	0	0		A	38160332	A	A	38160332	3	1	212	1	0	0	0	0	1	0	0	0	12278	1551	54	5	1739	5	POSTN	13	38160332	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	6866	38160332	77009546	1070	104875											
TRPC4	7223	broad.mit.edu	37	chr13	38211353	38211353	+	Missense_Mutation	SNP	T	C	C	0	1	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	caagtggtcctgcagcctgtTgacgagcaacttcttctgaa	9	11	10	11	1	2	2	0	2	2	0	3	3	3	2	2	1	4	3	2	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:38211353T>C	uc001uws.2	-	11	2856	c.2621A>G	c.(2620-2622)CAA>CGA	p.Q874R	TRPC4_uc010abv.2_Missense_Mutation_p.Q454R|TRPC4_uc001uwt.2_Missense_Mutation_p.Q790R|TRPC4_uc010tey.1_Missense_Mutation_p.Q733R|TRPC4_uc010abw.2_Missense_Mutation_p.Q701R|TRPC4_uc010abx.2_Missense_Mutation_p.Q879R|TRPC4_uc010aby.2_Missense_Mutation_p.Q725R	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	874	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		TGCAGCCTGTTGACGAGCAAC	0.428													23	41					0	0	0.004656	0	0		C	38211353	C	C	38211353	3	2	212	1	0	0	0	0	1	0	0	0	16606	1812	63	3	316	3	TRPC4	13	38211353	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	51021	38211353	76958525	1071	104876											
FREM2	341640	broad.mit.edu	37	chr13	39263279	39263279	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attctctgctgctttttgtgCtggagtcacccttcttaact	5	18	7	11	0	3	0	1	0	2	0	4	1	3	1	1	1	4	3	1	1	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:39263279C>A	uc001uwv.2	+	1	2107	c.1798C>A	c.(1798-1800)CTG>ATG	p.L600M		NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	600	CSPG 3.|Extracellular (Potential).				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		GCTTTTTGTGCTGGAGTCACC	0.552													20	60					8.04996e-18	9.23733e-18	0.012319	1	0		A	39263279	A	A	39263279	3	1	212	1	0	0	0	0	1	0	0	0	6059	796	28	5	1800	5	FREM2	13	39263279	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1051926	39263279	75906599	1072	104877											
FREM2	341640	broad.mit.edu	37	chr13	39425965	39425965	+	Silent	SNP	C	T	T	0	0	0	1	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	agagtccacaccaaggatggCtcggccacctctggagaaga	12	5	12	12	1	1	3	0	0	1	3	3	5	2	4	4	4	0	1	4	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:39425965C>T	uc001uwv.2	+	11	7194	c.6885C>T	c.(6883-6885)GGC>GGT	p.G2295G	FREM2_uc001uww.2_Silent_p.G381G	NM_207361	NP_997244	Q5SZK8	FREM2_HUMAN	FRAS1-related extracellular matrix protein 2	2295	Extracellular (Potential).|Calx-beta 5.				cell communication|homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(7)|pancreas(1)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	11		Lung NSC(96;1.04e-07)|Prostate(109;0.00384)|Breast(139;0.00396)|Lung SC(185;0.0565)|Hepatocellular(188;0.114)		all cancers(112;3.32e-07)|Epithelial(112;1.66e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00154)|BRCA - Breast invasive adenocarcinoma(63;0.00631)|GBM - Glioblastoma multiforme(144;0.0312)		CCAAGGATGGCTCGGCCACCT	0.522													8	64					0	0	0.006214	0	0		T	39425965	T	T	39425965	2	4	212	1	0	0	0	0	0	0	0	1	6059	784	28	2		2	FREM2	13	39425965	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	162686	39425965	75743913	1073	104878											
FOXO1	2308	broad.mit.edu	37	chr13	41134405	41134405	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaaactggtgtttggtggcGcaaacgagtagcacggcgtc	9	9	14	9	4	1	0	1	0	0	0	2	1	1	0	0	4	3	4	0	4	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:41134405G>A	uc001uxl.3	-	2	1608	c.1223C>T	c.(1222-1224)GCG>GTG	p.A408V	FOXO1_uc010acc.1_Missense_Mutation_p.A223V	NM_002015	NP_002006	Q12778	FOXO1_HUMAN	forkhead box O1	408					anti-apoptosis|blood vessel development|embryo development|endocrine pancreas development|insulin receptor signaling pathway|negative regulation of stress-activated MAPK cascade|nerve growth factor receptor signaling pathway|pattern specification process|phosphatidylinositol-mediated signaling|positive regulation of transcription from RNA polymerase II promoter|regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|response to DNA damage stimulus|tissue development	cytosol|transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein kinase binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription factor binding		PAX3/FOXO1(749)|PAX7/FOXO1(197)	soft_tissue(946)|lung(1)|central_nervous_system(1)	948		Lung NSC(96;1.18e-05)|Breast(139;0.00394)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(188;0.194)		all cancers(112;7.32e-09)|Epithelial(112;2.87e-06)|OV - Ovarian serous cystadenocarcinoma(117;6.98e-05)|GBM - Glioblastoma multiforme(144;0.00394)|BRCA - Breast invasive adenocarcinoma(63;0.0815)		GTTTGGTGGCGCAAACGAGTA	0.478													30	99					0	0	0.012213	0	0		A	41134405	A	A	41134405	3	1	212	1	0	0	0	0	1	0	0	0	6037	1087	38	1	748	1	FOXO1	13	41134405	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1708440	41134405	74035473	1074	104879											
AKAP11	11215	broad.mit.edu	37	chr13	42873547	42873547	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgtgatgctgcttcccagaCggttactggtcatcatttag	7	14	11	9	1	2	2	2	1	0	1	3	2	3	2	1	2	3	3	1	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:42873547C>T	uc001uys.1	+	8	840	c.665C>T	c.(664-666)ACG>ATG	p.T222M		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	222					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		GCTTCCCAGACGGTTACTGGT	0.388													17	46					0	0	0.00499	0	0		T	42873547	T	T	42873547	3	4	212	1	0	0	0	0	1	0	0	0	447	536	19	1	687	1	AKAP11	13	42873547	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1739142	42873547	72296331	1075	104880											
AKAP11	11215	broad.mit.edu	37	chr13	42882736	42882736	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcagcagttttcatcatcTaagtgaaaggtaactacact	15	11	7	8	0	3	1	2	1	1	0	3	1	3	1	0	1	4	4	0	1	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:42882736T>C	uc001uys.1	+	9	5439	c.5264T>C	c.(5263-5265)CTA>CCA	p.L1755P		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	1755	Ser-rich.				intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		TTTCATCATCTAAGTGAAAGG	0.328													17	50					0	0	0.00499	0	0		C	42882736	C	C	42882736	3	2	212	1	0	0	0	0	1	0	0	0	447	1522	53	3	5290	3	AKAP11	13	42882736	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	9189	42882736	72287142	1076	104881											
ZC3H13	23091	broad.mit.edu	37	chr13	46549790	46549790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctctctttttctctttccCgatcccgttcacgttccctc	2	18	3	18	3	4	0	1	0	3	0	10	1	7	0	3	0	0	2	3	0	0	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:46549790C>T	uc010tfw.1	-	11	2102	c.2096G>A	c.(2095-2097)CGG>CAG	p.R699Q	ZC3H13_uc001vas.1_Missense_Mutation_p.R699Q|ZC3H13_uc001vat.1_Missense_Mutation_p.R699Q	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	699	Arg/Glu-rich.|Potential.						nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		ttctctttcccgatcccgttc	0.144													4	7					0	0	0.000602	0	0		T	46549790	T	T	46549790	3	4	212	1	0	0	0	0	1	0	0	0	17590	652	23	1	2622	1	ZC3H13	13	46549790	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3667054	46549790	68620088	1077	104882											
ARL11	115761	broad.mit.edu	37	chr13	50204971	50204971	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	agcaggaggcacctgatgcaCttccgctgcttaagatcaga	11	8	11	11	1	1	3	1	1	0	2	2	4	2	4	2	2	3	5	2	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:50204971C>G	uc001vdf.1	+	2	534	c.388C>G	c.(388-390)CTT>GTT	p.L130V		NM_138450	NP_612459	Q969Q4	ARL11_HUMAN	ADP-ribosylation factor-like 11	130					small GTPase mediated signal transduction	intracellular	GTP binding|protein binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.119)|Kidney(9;0.169)	GBM - Glioblastoma multiforme(99;1.67e-09)		ACCTGATGCACTTCCGCTGCT	0.617													48	16					0	0	0.01441	0	0		G	50204971	G	G	50204971	3	3	212	1	0	0	0	0	1	0	0	0	927	565	20	5	390	5	ARL11	13	50204971	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3655181	50204971	64964907	1078	104883											
PCDH8	5100	broad.mit.edu	37	chr13	53420187	53420187	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagccgaggctccgccgccCgccgccccgggccgctcttc	2	4	14	21	7	1	0	0	0	1	0	3	2	2	1	8	3	1	2	8	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:53420187C>T	uc001vhi.2	-	1	2588	c.2385G>A	c.(2383-2385)GCG>GCA	p.A795A	PCDH8_uc001vhj.2_Intron	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	795	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CTccgccgcccgccgccccgg	0.632													22	4					0	0	0.005443	0	0		T	53420187	T	T	53420187	2	4	212	1	0	0	0	0	0	0	0	1	11536	639	23	1		1	PCDH8	13	53420187	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3215216	53420187	61749691	1079	104884											
PCDH8	5100	broad.mit.edu	37	chr13	53420267	53420267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttgcaggtggtggcgatggCgatgatggcggccagcagca	7	7	19	8	3	0	1	0	1	0	0	0	3	0	1	1	6	3	4	1	6	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:53420267C>T	uc001vhi.2	-	1	2508	c.2305G>A	c.(2305-2307)GCC>ACC	p.A769T	PCDH8_uc001vhj.2_Missense_Mutation_p.A769T	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	769	Helical; (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		GTGGCGATGGCGATGATGGCG	0.607													15	71					0	0	0.004007	0	0		T	53420267	T	T	53420267	3	4	212	1	0	0	0	0	1	0	0	0	11536	768	27	1	919	1	PCDH8	13	53420267	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	80	53420267	61749611	1080	104885											
PCDH9	5101	broad.mit.edu	37	chr13	67801805	67801805	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggaatatgcacctccacTtgaccctctttaaacactgg	10	12	6	13	0	2	1	0	1	2	0	3	2	3	2	3	2	2	1	3	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:67801805T>C	uc001vik.2	-	2	1460	c.768A>G	c.(766-768)CAA>CAG	p.Q256Q	PCDH9_uc001vil.2_Silent_p.Q256Q|PCDH9_uc010thl.1_Silent_p.Q256Q|PCDH9_uc001vin.3_Silent_p.Q256Q	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	256	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)|skin(1)	6		Hepatocellular(98;0.0906)|Breast(118;0.107)		GBM - Glioblastoma multiforme(99;0.00819)		GCACCTCCACTTGACCCTCTT	0.473													18	73					0	0	0.006122	0	0		C	67801805	C	C	67801805	2	2	212	1	0	0	0	0	0	0	0	1	11537	1606	56	3		3	PCDH9	13	67801805	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	14381538	67801805	47368073	1081	104886											
DACH1	1602	broad.mit.edu	37	chr13	72255949	72255949	+	Silent	SNP	A	G	G	1	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	gttggtggaattatcccaggAgacatgagaccagggacaga	13	7	14	7	0	0	3	0	1	0	3	1	7	1	5	2	4	0	1	2	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:72255949A>G	uc010thn.1	-	3	1365	c.942T>C	c.(940-942)TCT>TCC	p.S314S	DACH1_uc010tho.1_Silent_p.S314S|DACH1_uc010thp.1_Silent_p.S314S	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	dachshund homolog 1 isoform a	314	Interaction with SIX6 and HDAC3 (By similarity).				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|nucleotide binding|protein binding			breast(1)	1		Acute lymphoblastic leukemia(28;0.0503)|Breast(118;0.198)		GBM - Glioblastoma multiforme(99;0.00032)		TTATCCCAGGAGACATGAGAC	0.443													17	57					0	0	0.00499	0	0		G	72255949	G	G	72255949	2	3	212	1	0	0	0	0	0	0	0	1	4223	291	11	3		3	DACH1	13	72255949	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4454144	72255949	42913929	1082	104887											
MYCBP2	23077	broad.mit.edu	37	chr13	77656029	77656029	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaaaactctcttcactatcGccatcatctgactttgacaa	12	13	3	13	1	4	2	2	2	2	0	6	2	4	2	1	0	1	0	1	0	4	4	rs138813052	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:77656029G>A	uc001vkf.2	-	65	11113	c.11022C>T	c.(11020-11022)GGC>GGT	p.G3674G	MYCBP2_uc010aev.2_Silent_p.G3078G|MYCBP2_uc001vke.2_Silent_p.G294G	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3674					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CTTCACTATCGCCATCATCTG	0.393													38	69					0	0	0.010771	0	0		A	77656029	A	A	77656029	2	1	212	1	0	0	0	0	0	0	0	1	10036	1074	38	1		1	MYCBP2	13	77656029	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5400080	77656029	37513849	1083	104888											
MYCBP2	23077	broad.mit.edu	37	chr13	77724964	77724964	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgccagccctccataagtcaTgtcagtattagaagatgcag	12	10	9	10	0	2	2	2	0	0	2	3	2	3	2	3	0	3	2	3	0	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:77724964T>C	uc001vkf.2	-	48	7013	c.6922A>G	c.(6922-6924)ATG>GTG	p.M2308V	MYCBP2_uc010aev.2_Missense_Mutation_p.M1712V	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	2308	Filamin.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		CCATAAGTCATGTCAGTATTA	0.388													7	113					0	0	0.00308	0	0		C	77724964	C	C	77724964	3	2	212	1	0	0	0	0	1	0	0	0	10036	1464	51	3	7148	3	MYCBP2	13	77724964	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	68935	77724964	37444914	1084	104889											
SLAIN1	122060	broad.mit.edu	37	chr13	78337291	78337291	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctttttagttttcttcagcCtccaaagcctctgtcttcac	6	18	4	13	0	6	0	2	0	4	0	7	0	7	0	3	0	2	1	3	0	2	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:78337291C>A	uc010thy.1	+	7	1260	c.1217C>A	c.(1216-1218)CCT>CAT	p.P406H	SLAIN1_uc001vkk.1_Missense_Mutation_p.P329H|SLAIN1_uc001vkl.1_Missense_Mutation_p.P285H|SLAIN1_uc010thz.1_Missense_Mutation_p.P284H|SLAIN1_uc010aex.1_Missense_Mutation_p.P171H|SLAIN1_uc010aey.1_Missense_Mutation_p.P171H|SLAIN1_uc001vkm.2_Missense_Mutation_p.P285H	NM_144595	NP_653196	Q8ND83	SLAI1_HUMAN	SLAIN motif family, member 1 B	548										ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0853)		TTTCTTCAGCCTCCAAAGCCT	0.398													13	45					1.5842e-08	1.69894e-08	0.001855	1	0		A	78337291	A	A	78337291	3	1	212	1	0	0	0	0	1	0	0	0	14390	681	24	5	1008	5	SLAIN1	13	78337291	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	612327	78337291	36832587	1085	104890											
POU4F1	5457	broad.mit.edu	37	chr13	79175910	79175910	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctggctgagtgagcccacGcccgggatcttgaggttggc	5	9	15	12	2	2	3	0	3	2	0	2	4	2	4	2	4	1	2	2	4	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:79175910G>A	uc001vkv.2	-	2	1134	c.900C>T	c.(898-900)GGC>GGT	p.G300G	uc001vku.1_Intron	NM_006237	NP_006228	Q01851	PO4F1_HUMAN	POU domain, class 4, transcription factor 1	300	POU-specific.				axonogenesis|regulation of transcription from RNA polymerase II promoter|synapse assembly	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.0848)		GBM - Glioblastoma multiforme(99;0.129)		GTGAGCCCACGCCCGGGATCT	0.662													10	21					0	0	0.008291	0	0		A	79175910	A	A	79175910	2	1	212	1	0	0	0	0	0	0	0	1	12297	1074	38	1		1	POU4F1	13	79175910	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	838619	79175910	35993968	1086	104891											
MBNL2	10150	broad.mit.edu	37	chr13	97995269	97995269	+	Splice_Site	SNP	G	A	A	0	0	1	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	tgtgttgtcttcctttaacaGcccactttccctgtaggtcc	5	16	7	13	0	1	0	0	0	1	0	4	0	4	0	4	1	2	2	4	1	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:97995269G>A	uc010aft.2	+	4	1156	c.340_splice	c.e4-1	p.P114_splice	MBNL2_uc001vmz.2_Splice_Site_p.P114_splice|MBNL2_uc001vna.2_Splice_Site_p.P114_splice|MBNL2_uc001vnb.2_Splice_Site|MBNL2_uc010tij.1_Intron	NM_144778	NP_659002	Q5VZF2	MBNL2_HUMAN	muscleblind-like 2 isoform 1						mRNA processing|regulation of RNA splicing|RNA splicing	cytoplasm|nucleus	RNA binding|zinc ion binding				0	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.218)			TCCTTTAACAGCCCACTTTCC	0.418													12	40					0	0	0.010729	0	0		A	97995269	A	A	97995269	5	1	212	1	0	0	0	0	0	0	1	0	9372	985	34	2	349	2	MBNL2	13	97995269	Splice_Site	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	18819359	97995269	17174609	1087	104892											
RNF113B	140432	broad.mit.edu	37	chr13	98829459	98829459	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atacctggtctgcttggtcgGccgtccttcctggagaaggt	5	12	13	11	2	1	1	0	0	1	1	4	2	3	1	4	5	2	1	4	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:98829459G>A	uc001vnk.2	-	1	63	c.32C>T	c.(31-33)GCC>GTC	p.A11V	FARP1_uc001vnh.2_Intron|FARP1_uc001vni.2_Intron|FARP1_uc001vnj.2_Intron	NM_178861	NP_849192	Q8IZP6	R113B_HUMAN	ring finger protein 113B	11							nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.13)			TGCTTGGTCGGCCGTCCTTCC	0.542													9	35					0	0	0.010729	0	0		A	98829459	A	A	98829459	3	1	212	1	0	0	0	0	1	0	0	0	13453	1203	42	2	944	2	RNF113B	13	98829459	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	834190	98829459	16340419	1088	104893											
FARP1	10160	broad.mit.edu	37	chr13	99061770	99061770	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acggacgatgaggatgagggCcggaggaaggtacagggccg	11	3	20	7	4	0	2	0	2	0	0	0	7	0	6	2	7	1	1	2	7	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:99061770C>T	uc001vnj.2	+	14	1929	c.1593C>T	c.(1591-1593)GGC>GGT	p.G531G	FARP1_uc001vnh.2_Silent_p.G531G	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	531					regulation of Rho protein signal transduction	cytoplasm|cytoskeleton|extrinsic to membrane	cytoskeletal protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			AGGATGAGGGCCGGAGGAAGG	0.532													8	13					0	0	0.004482	0	0		T	99061770	T	T	99061770	2	4	212	1	0	0	0	0	0	0	0	1	5690	726	26	2		2	FARP1	13	99061770	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	232311	99061770	16108108	1089	104894											
SLC15A1	6564	broad.mit.edu	37	chr13	99337102	99337102	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttgatgtaagtatagaacCgagccatgatggcaaaaatt	15	10	11	5	1	0	3	0	2	0	1	0	4	0	3	2	2	2	4	2	2	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:99337102C>T	uc001vno.2	-	23	2080	c.2003G>A	c.(2002-2004)CGG>CAG	p.R668Q		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	668	Cytoplasmic (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	AGTATAGAACCGAGCCATGAT	0.433													6	20					0	0	0.001984	0	0		T	99337102	T	T	99337102	3	4	212	1	0	0	0	0	1	0	0	0	14423	652	23	1	127	1	SLC15A1	13	99337102	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	275332	99337102	15832776	1090	104895											
TMTC4	84899	broad.mit.edu	37	chr13	101277794	101277794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaccccgcgcttaccagacGcccgaggttgtagtaacagt	9	7	11	14	4	0	1	0	0	0	1	0	2	0	1	4	1	2	5	4	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:101277794G>A	uc001vou.2	-	14	1934	c.1774C>T	c.(1774-1776)CGT>TGT	p.R592C	TMTC4_uc001vot.2_Missense_Mutation_p.R611C|TMTC4_uc010tja.1_Missense_Mutation_p.R481C|TMTC4_uc001vov.1_Missense_Mutation_p.R337C|TMTC4_uc001vow.1_Missense_Mutation_p.R375C	NM_001079669	NP_001073137	Q5T4D3	TMTC4_HUMAN	transmembrane and tetratricopeptide repeat	592	TPR 5.					integral to membrane	binding			ovary(2)|breast(1)	3	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					CTTACCAGACGCCCGAGGTTG	0.458													8	85					0	0	0.006214	0	0		A	101277794	A	A	101277794	3	1	212	1	0	0	0	0	1	0	0	0	16288	1087	38	1	471	1	TMTC4	13	101277794	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1940692	101277794	13892084	1091	104896											
ITGBL1	9358	broad.mit.edu	37	chr13	102106322	102106322	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcccccgggggccgcgctgTgccacggccggggccgctgc	2	3	18	18	6	0	0	0	0	0	0	0	0	0	0	6	5	3	2	6	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:102106322T>C	uc001vpb.2	+	2	406	c.187T>C	c.(187-189)TGC>CGC	p.C63R	ITGBL1_uc010agb.2_Missense_Mutation_p.C63R|ITGBL1_uc001vpc.3_Intron	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	63	I.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GGCCGCGCTGTGCCACGGCCG	0.756													3	4					0	0	0.004672	0	0		C	102106322	C	C	102106322	3	2	212	1	0	0	0	0	1	0	0	0	7918	1696	59	3	193	3	ITGBL1	13	102106322	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	828528	102106322	13063556	1092	104897											
ITGBL1	9358	broad.mit.edu	37	chr13	102227785	102227785	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	catggtttaggtacatgtcaCtgtggcaggtgtaagtgtga	9	13	14	5	0	1	1	1	1	0	0	1	1	1	1	0	4	1	4	0	4	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:102227785C>A	uc001vpb.2	+	4	693	c.474C>A	c.(472-474)CAC>CAA	p.H158Q	ITGBL1_uc010agb.2_Missense_Mutation_p.H109Q|ITGBL1_uc001vpc.3_Missense_Mutation_p.H17Q	NM_004791	NP_004782	O95965	ITGBL_HUMAN	integrin, beta-like 1 (with EGF-like repeat	158	III.|Cysteine-rich tandem repeats.				cell-matrix adhesion|integrin-mediated signaling pathway	extracellular region|integrin complex	binding|receptor activity			ovary(1)|skin(1)	2	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					GTACATGTCACTGTGGCAGGT	0.338													51	159					8.4772e-36	9.96424e-36	0.01441	1	0		A	102227785	A	A	102227785	3	1	212	1	0	0	0	0	1	0	0	0	7918	564	20	5	488	5	ITGBL1	13	102227785	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	121463	102227785	12942093	1093	104898											
FGF14	2259	broad.mit.edu	37	chr13	102568842	102568842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcttgaggccgaagatgcGcactttggagaagatatcca	11	10	11	9	2	1	4	0	1	1	3	2	6	2	4	2	2	1	1	2	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:102568842G>A	uc001vpe.2	-	1	154	c.154C>T	c.(154-156)CGC>TGC	p.R52C	FGF14_uc001vpf.2_Intron	NM_004115	NP_004106	Q92915	FGF14_HUMAN	fibroblast growth factor 14 isoform 1A	52					cell death|cell-cell signaling|JNK cascade|nervous system development|signal transduction	nucleus	growth factor activity|heparin binding			ovary(2)|lung(1)|large_intestine(1)	4	all_neural(89;0.0239)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCGAAGATGCGCACTTTGGAG	0.672													21	63					0	0	0.00333	0	0		A	102568842	A	A	102568842	3	1	212	1	0	0	0	0	1	0	0	0	5857	1087	38	1	609	1	FGF14	13	102568842	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	341057	102568842	12601036	1094	104899											
KDELC1	79070	broad.mit.edu	37	chr13	103443739	103443739	+	Silent	SNP	G	A	A	0	0	1	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	ttctttttttccaaaggccaGtctcccaaattaacaaagag	13	13	5	10	0	2	1	0	0	2	1	4	1	3	1	3	1	1	0	3	1	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:103443739G>A	uc001vpq.3	-	5	1098	c.714C>T	c.(712-714)GAC>GAT	p.D238D	KDELC1_uc001vpr.3_Silent_p.D19D	NM_024089	NP_076994	Q6UW63	KDEL1_HUMAN	KDEL (Lys-Asp-Glu-Leu) containing 1 precursor	238						endoplasmic reticulum lumen				ovary(1)	1	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					CCAAAGGCCAGTCTCCCAAAT	0.403													15	186					0	0	0.004007	0	0		A	103443739	A	A	103443739	2	1	212	1	0	0	0	0	0	0	0	1	8133	1020	36	4		4	KDELC1	13	103443739	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	874897	103443739	11726139	1095	104900											
MYO16	23026	broad.mit.edu	37	chr13	109779804	109779804	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccacggaaacagcccccGcccaagccaaagagggaccc	12	2	9	18	2	1	1	0	0	1	1	2	3	1	3	6	2	3	0	6	2	3	0	rs151007439		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:109779804G>A	uc001vqt.1	+	31	4017	c.3891G>A	c.(3889-3891)CCG>CCA	p.P1297P	MYO16_uc010agk.1_Silent_p.P1319P|MYO16_uc010tjh.1_Silent_p.P809P	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1297					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			AACAGCCCCCGCCCAAGCCAA	0.652													7	21					0	0	0.001984	0	0		A	109779804	A	A	109779804	2	1	212	1	0	0	0	0	0	0	0	1	10082	1074	38	1		1	MYO16	13	109779804	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6336065	109779804	5390074	1096	104901											
MCF2L	23263	broad.mit.edu	37	chr13	113731454	113731454	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctgaagaagctggcggccaGgcagacgcggcccgtgcagc	8	3	16	14	4	0	3	0	1	0	2	0	3	0	3	3	4	3	3	3	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:113731454G>T	uc001vsu.2	+	13	1782	c.1760G>T	c.(1759-1761)AGG>ATG	p.R587M	MCF2L_uc001vsq.2_Missense_Mutation_p.R587M|MCF2L_uc010tjr.1_Missense_Mutation_p.R530M|MCF2L_uc001vsr.2_Missense_Mutation_p.R534M|MCF2L_uc001vss.3_Missense_Mutation_p.R528M|MCF2L_uc010tjs.1_Missense_Mutation_p.R528M|MCF2L_uc001vst.1_Missense_Mutation_p.R492M	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	560					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				CTGGCGGCCAGGCAGACGCGG	0.692													9	25					0.000442599	0.000454736	0.006214	1	0		T	113731454	T	T	113731454	3	4	212	1	0	0	0	0	1	0	0	0	9397	1000	35	5	1905	5	MCF2L	13	113731454	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3951650	113731454	1438424	1097	104902											
F10	2159	broad.mit.edu	37	chr13	113783775	113783775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgccttccagtgttcatccGcagggagcaggccaacaaca	10	7	10	14	1	1	0	1	0	0	0	3	1	3	1	4	2	4	3	4	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:113783775G>A	uc001vsx.2	+	2	137	c.80G>A	c.(79-81)CGC>CAC	p.R27H	F10_uc010agq.1_RNA|F10_uc001vsy.2_Missense_Mutation_p.R27H|F10_uc001vsz.2_Missense_Mutation_p.R27H	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	27					blood coagulation, extrinsic pathway|blood coagulation, intrinsic pathway|peptidyl-glutamic acid carboxylation|positive regulation of cell migration|positive regulation of protein kinase B signaling cascade|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|phospholipid binding|protein binding|serine-type endopeptidase activity			pancreas(1)	1	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.113)|all_lung(25;0.0364)|all_epithelial(44;0.0373)|Lung NSC(25;0.128)|Breast(118;0.188)	all cancers(43;0.0805)|Epithelial(84;0.231)		Alteplase(DB00009)|Anistreplase(DB00029)|Antihemophilic Factor(DB00025)|Coagulation Factor IX(DB00100)|Coagulation factor VIIa(DB00036)|Enoxaparin(DB01225)|Heparin(DB01109)|Menadione(DB00170)|Reteplase(DB00015)|Tenecteplase(DB00031)	GTGTTCATCCGCAGGGAGCAG	0.567													21	65					0	0	0.012319	0	0		A	113783775	A	A	113783775	3	1	212	1	0	0	0	0	1	0	0	0	5344	1087	38	1	86	1	F10	13	113783775	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	52321	113783775	1386103	1098	104903											
RASA3	22821	broad.mit.edu	37	chr13	114781736	114781736	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcgatttcacagggtttgtgGctctggcatatctggggaga	7	13	14	7	1	3	1	1	0	2	1	4	3	3	1	0	5	0	3	0	5	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr13:114781736G>A	uc001vui.2	-	13	1349	c.1218C>T	c.(1216-1218)AGC>AGT	p.S406S	RASA3_uc010tkk.1_Silent_p.S374S|RASA3_uc001vuj.2_Silent_p.S23S	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	406	Ras-GAP.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			AGGGTTTGTGGCTCTGGCATA	0.527													14	46					0	0	0.003163	0	0		A	114781736	A	A	114781736	2	1	212	1	0	0	0	0	0	0	0	1	13087	1194	42	2		2	RASA3	13	114781736	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	997961	114781736	388142	1099	104904											
OR4Q3	441669	broad.mit.edu	37	chr14	20215646	20215646	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttctgggcctatcatcttcTtgggagctgcagctatttct	5	16	9	11	0	5	0	1	0	4	0	5	1	5	1	1	2	3	3	1	2	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:20215646T>C	uc010tkt.1	+	1	60	c.60T>C	c.(58-60)TCT>TCC	p.S20S		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TATCATCTTCTTGGGAGCTGC	0.368													26	106					0	0	0.00333	0	0		C	20215646	C	C	20215646	2	2	212	1	0	0	0	0	0	0	0	1	11100	1596	56	3		3	OR4Q3	14	20215646	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08		20215646	87133894	1100	104905											
OR4N2	390429	broad.mit.edu	37	chr14	20295916	20295916	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgcatcactcagctctttttCttgcacttccttggaggagg	6	15	9	11	0	4	0	2	0	2	0	5	2	5	2	1	3	3	3	1	3	0	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:20295916C>T	uc010tkv.1	+	1	309	c.309C>T	c.(307-309)TTC>TTT	p.F103F		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AGCTCTTTTTCTTGCACTTCC	0.517													46	162					0	0	0.01441	0	0		T	20295916	T	T	20295916	2	4	212	1	0	0	0	0	0	0	0	1	11096	912	32	4		4	OR4N2	14	20295916	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	80270	20295916	87053624	1101	104906											
PARP2	10038	broad.mit.edu	37	chr14	20824490	20824490	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcccagtacctacaatctAcccatgctcccacacacagc	11	9	3	18	0	1	0	0	0	1	0	3	0	3	0	4	0	5	2	4	0	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:20824490A>G	uc001vxc.2	+	12	1193	c.1165A>G	c.(1165-1167)ACC>GCC	p.T389A	PARP2_uc001vxd.2_Missense_Mutation_p.T376A|PARP2_uc001vxb.1_Missense_Mutation_p.T389A|PARP2_uc010tle.1_Missense_Mutation_p.T139A	NM_005484	NP_005475	Q9UGN5	PARP2_HUMAN	poly (ADP-ribose) polymerase family, member 2	389	PARP catalytic.				protein ADP-ribosylation	nucleolus|nucleoplasm	DNA binding|NAD+ ADP-ribosyltransferase activity			ovary(1)|pancreas(1)	2	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;5.34e-07)|all cancers(55;3.7e-06)	GBM - Glioblastoma multiforme(265;0.00888)|READ - Rectum adenocarcinoma(17;0.0649)		CCTACAATCTACCCATGCTCC	0.438								Direct_reversal_of_damage|PARP_enzymes_that_bind_to_DNA					6	120					0	0	0.001168	0	0		G	20824490	G	G	20824490	3	3	212	1	0	0	0	0	1	0	0	0	11480	391	14	3	1211	3	PARP2	14	20824490	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	528574	20824490	86525050	1102	104907											
RNASE11	122651	broad.mit.edu	37	chr14	21052507	21052507	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatggtctgtttttcttggcCactttttgccatgtcatatt	6	20	7	8	0	3	0	1	0	2	0	3	0	3	0	2	2	1	1	2	2	2	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:21052507C>A	uc010ahv.2	-	2	312	c.127G>T	c.(127-129)GGC>TGC	p.G43C	RNASE11_uc010ahx.2_Missense_Mutation_p.G43C|RNASE11_uc010ahw.2_Missense_Mutation_p.G43C|RNASE11_uc001vxs.2_Missense_Mutation_p.G43C	NM_145250	NP_660293	Q8TAA1	RNS11_HUMAN	ribonuclease, RNase A family, 11 (non-active)	43						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			ovary(3)	3	all_cancers(95;0.00238)	all_lung(585;0.235)	Epithelial(56;1.85e-06)|all cancers(55;1.46e-05)	GBM - Glioblastoma multiforme(265;0.0139)		TTTTCTTGGCCACTTTTTGCC	0.398													12	116					2.61681e-11	2.88038e-11	0.00245	1	0		A	21052507	A	A	21052507	3	1	212	1	0	0	0	0	1	0	0	0	13426	594	21	5	476	5	RNASE11	14	21052507	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	228017	21052507	86297033	1103	104908											
BCL2L2	599	broad.mit.edu	37	chr14	23778068	23778068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggacggggccctggaggaggCgcggcgtctgcgggagggga	5	3	24	9	5	1	0	0	0	1	0	1	5	1	5	1	10	1	0	1	10	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:23778068C>T	uc001wjg.3	+	4	664	c.476C>T	c.(475-477)GCG>GTG	p.A159V	PABPN1_uc001wjh.3_Intron|BCL2L2_uc001wji.3_Missense_Mutation_p.A159V	NM_004050	NP_004041	Q92843	B2CL2_HUMAN	BCL2-like 2 protein	159					anti-apoptosis|apoptosis|spermatogenesis	mitochondrial membrane	protein binding			central_nervous_system(1)	1	all_cancers(95;5.54e-06)			GBM - Glioblastoma multiforme(265;0.00654)		CTGGAGGAGGCGCGGCGTCTG	0.597													36	98					0	0	0.004878	0	0		T	23778068	T	T	23778068	3	4	212	1	0	0	0	0	1	0	0	0	1375	768	27	1	482	1	BCL2L2	14	23778068	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2725561	23778068	83571472	1104	104909											
MYH6	4624	broad.mit.edu	37	chr14	23857097	23857097	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaggactccagctcagactgCgactcctcatacttctgctt	8	11	8	14	1	3	1	2	0	1	1	5	4	5	2	2	1	4	2	2	1	1	3	rs74039310	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:23857097C>T	uc001wjv.2	-	31	4462	c.4395G>A	c.(4393-4395)TCG>TCA	p.S1465S		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	1465	Potential.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		GCTCAGACTGCGACTCCTCAT	0.607													15	67					0	0	0.003163	0	0		T	23857097	T	T	23857097	2	4	212	1	0	0	0	0	0	0	0	1	10056	755	27	1		1	MYH6	14	23857097	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	79029	23857097	83492443	1105	104910											
AP1G2	8906	broad.mit.edu	37	chr14	24031515	24031515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acttgttgtccccacagaggCgagtgctgagcttcatgagg	8	10	13	10	1	1	3	1	2	0	1	2	4	2	3	2	2	2	3	2	2	0	3	rs142884247	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:24031515C>T	uc001wkl.2	-	16	1947	c.1610G>A	c.(1609-1611)CGC>CAC	p.R537H	AP1G2_uc001wkj.2_Missense_Mutation_p.R156H|AP1G2_uc001wkk.3_Missense_Mutation_p.R465H|AP1G2_uc001wkn.2_Missense_Mutation_p.R156H|uc001wko.1_Intron|AP1G2_uc001wkp.1_RNA	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	537					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)		CCCACAGAGGCGAGTGCTGAG	0.562											OREG0022605	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	86					0	0	0.007291	0	0		T	24031515	T	T	24031515	3	4	212	1	0	0	0	0	1	0	0	0	733	768	27	1	775	1	AP1G2	14	24031515	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	174418	24031515	83318025	1106	104911											
JPH4	84502	broad.mit.edu	37	chr14	24045186	24045186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctgcgccgatctgcgcGccactcgcccgcgtacacct	4	6	11	20	8	1	0	0	0	1	0	2	1	1	0	5	0	3	2	5	0	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:24045186G>A	uc001wkq.2	-	4	1777	c.859C>T	c.(859-861)CGC>TGC	p.R287C	JPH4_uc010tnr.1_5'Flank|JPH4_uc001wkr.2_Missense_Mutation_p.R287C|JPH4_uc001wks.2_Missense_Mutation_p.R287C	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4	287	Cytoplasmic (Potential).				calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		CGATCTGCGCGCCACTCGCCC	0.632													4	18					0	0	0.001984	0	0		A	24045186	A	A	24045186	3	1	212	1	0	0	0	0	1	0	0	0	7979	1087	38	1	1043	1	JPH4	14	24045186	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	13671	24045186	83304354	1107	104912											
LRRC16B	90668	broad.mit.edu	37	chr14	24531964	24531964	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gctgtcagatccaccagggtGcccaggccaagggcaggatc	9	5	14	13	0	1	1	1	0	0	1	3	2	2	2	4	4	1	2	4	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:24531964G>A	uc001wlj.2	+	29	2772	c.2615G>A	c.(2614-2616)TGC>TAC	p.C872Y	LRRC16B_uc001wlk.2_5'UTR	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	872										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		CCACCAGGGTGCCCAGGCCAA	0.627													20	64					0	0	0.008871	0	0		A	24531964	A	A	24531964	3	1	212	1	0	0	0	0	1	0	0	0	8990	1319	46	2	2729	2	LRRC16B	14	24531964	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	486778	24531964	82817576	1108	104913											
RNF31	55072	broad.mit.edu	37	chr14	24626754	24626754	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccaaatgcaagttctcgtaCgccctggcccgaggaggctg	8	7	12	14	3	1	0	0	0	1	0	2	2	1	1	3	3	2	4	3	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:24626754C>T	uc001wmn.1	+	16	2883	c.2634C>T	c.(2632-2634)TAC>TAT	p.Y878Y	RNF31_uc001wml.1_Silent_p.Y727Y|RNF31_uc010alg.1_Silent_p.Y637Y|RNF31_uc001wmo.1_Silent_p.Y345Y|RNF31_uc001wmp.2_RNA|RNF31_uc010alh.1_Silent_p.Y62Y	NM_017999	NP_060469	Q96EP0	RNF31_HUMAN	ring finger protein 31	878	IBR-type 2.				CD40 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein linear polyubiquitination|T cell receptor signaling pathway	CD40 receptor complex|internal side of plasma membrane|LUBAC complex	ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(265;0.00861)		AGTTCTCGTACGCCCTGGCCC	0.582													8	207					0	0	0.00308	0	0		T	24626754	T	T	24626754	2	4	212	1	0	0	0	0	0	0	0	1	13512	547	19	1		1	RNF31	14	24626754	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	94790	24626754	82722786	1109	104914											
TGM1	7051	broad.mit.edu	37	chr14	24718698	24718698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctggcgggggcctggtcgcaCaggcacaaacgactggcgca	8	4	16	13	4	0	0	0	0	0	0	1	1	0	0	1	6	1	3	1	6	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:24718698C>T	uc001wod.2	-	15	2399	c.2275G>A	c.(2275-2277)GTG>ATG	p.V759M	TGM1_uc010tog.1_Missense_Mutation_p.V317M	NM_000359	NP_000350	P22735	TGM1_HUMAN	transglutaminase 1	759					cell envelope organization|keratinization|peptide cross-linking	cornified envelope|intrinsic to membrane	acyltransferase activity|metal ion binding|protein binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(265;0.0186)	L-Glutamine(DB00130)	CCTGGTCGCACAGGCACAAAC	0.627													5	58					0	0	0.001168	0	0		T	24718698	T	T	24718698	3	4	212	1	0	0	0	0	1	0	0	0	15854	478	17	4	182	4	TGM1	14	24718698	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	91944	24718698	82630842	1110	104915											
ADCY4	196883	broad.mit.edu	37	chr14	24798413	24798413	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaggacagcaagcctcctgCagtgcccttctcatcctcct	7	9	8	17	1	1	0	1	0	1	0	5	2	4	1	5	1	4	2	5	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:24798413C>T	uc001wov.2	-	10	1384	c.1378G>A	c.(1378-1380)GCA>ACA	p.A460T	ADCY4_uc001wow.2_Missense_Mutation_p.A460T|ADCY4_uc010toh.1_Missense_Mutation_p.A146T|ADCY4_uc001wox.2_Missense_Mutation_p.A460T|ADCY4_uc001woy.2_Missense_Mutation_p.A460T	NM_139247	NP_640340	Q8NFM4	ADCY4_HUMAN	adenylate cyclase 4	460	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(265;0.0192)		AAGCCTCCTGCAGTGCCCTTC	0.602													6	30					0	0	0.001984	0	0		T	24798413	T	T	24798413	3	4	212	1	0	0	0	0	1	0	0	0	296	710	25	2	1919	2	ADCY4	14	24798413	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	79715	24798413	82551127	1111	104916											
PRKD1	5587	broad.mit.edu	37	chr14	30095688	30095688	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatactcagtgagataacctAcctccataaacaattccaaa	18	9	3	11	0	1	1	1	1	0	1	3	2	3	1	4	0	4	0	4	0	8	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:30095688A>T	uc001wqh.2	-	12	1979	c.1798_splice	c.e12+1	p.G600_splice		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1						cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		GAGATAACCTACCTCCATAAA	0.333													9	42					0	0	0.006214	0	0		T	30095688	T	T	30095688	5	4	212	1	0	0	0	0	0	0	1	0	12540	405	14	5	966	5	PRKD1	14	30095688	Splice_Site	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	5297275	30095688	77253852	1112	104917											
BAZ1A	11177	broad.mit.edu	37	chr14	35234330	35234330	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttcgacatatcttgcaacgcGcattcagtatagatttagac	12	13	7	9	3	2	2	1	0	1	2	3	3	2	2	0	0	2	3	0	0	5	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:35234330G>A	uc001wsk.2	-	22	4014	c.3446C>T	c.(3445-3447)GCG>GTG	p.A1149V	BAZ1A_uc001wsl.2_Missense_Mutation_p.A1117V	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1149	PHD-type.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		CTTGCAACGCGCATTCAGTAT	0.443													12	74					0	0	0.013537	0	0		A	35234330	A	A	35234330	3	1	212	1	0	0	0	0	1	0	0	0	1330	1087	38	1	1248	1	BAZ1A	14	35234330	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5138642	35234330	72115210	1113	104918											
PPP2R3C	55012	broad.mit.edu	37	chr14	35564389	35564389	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttatcaagattcaagtactgGccttgggaagaaaaataata	17	11	8	5	0	2	2	2	0	0	2	2	3	2	3	1	2	1	1	1	2	9	6	rs61741202		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:35564389G>A	uc001wss.2	-	10	1194	c.840C>T	c.(838-840)GGC>GGT	p.G280G	PPP2R3C_uc001wst.2_Silent_p.G164G|PPP2R3C_uc010tpr.1_Silent_p.G164G|PPP2R3C_uc001wsu.2_Intron	NM_017917	NP_060387	Q969Q6	P2R3C_HUMAN	serine/threonine-protein phosphatase 2A	280	EF-hand 1.					centrosome|nucleus	calcium ion binding			ovary(1)	1	Breast(36;0.0545)|Hepatocellular(127;0.158)|Prostate(35;0.184)		Lung(238;8.62e-06)|LUAD - Lung adenocarcinoma(48;1.42e-05)|Epithelial(34;0.0177)|all cancers(34;0.0491)	GBM - Glioblastoma multiforme(112;0.0803)		TCAAGTACTGGCCTTGGGAAG	0.333													8	37					0	0	0.004482	0	0		A	35564389	A	A	35564389	2	1	212	1	0	0	0	0	0	0	0	1	12412	1217	42	2		2	PPP2R3C	14	35564389	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	330059	35564389	71785151	1114	104919											
RALGAPA1	253959	broad.mit.edu	37	chr14	36190894	36190894	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgattttcaagagtacatacCgacagttttttgccgtacta	11	15	7	8	2	1	2	1	1	0	1	1	3	1	2	2	0	4	3	2	0	5	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:36190894C>T	uc001wti.2	-	16	2657	c.2266G>A	c.(2266-2268)GAT>AAT	p.D756N	RALGAPA1_uc001wtj.2_Missense_Mutation_p.D756N|RALGAPA1_uc010tpv.1_Missense_Mutation_p.D756N|RALGAPA1_uc010tpw.1_Missense_Mutation_p.A756T|RALGAPA1_uc001wtk.1_Missense_Mutation_p.A607T	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	756					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						GAGTACATACCGACAGTTTTT	0.408													15	103					0	0	0.004007	0	0		T	36190894	T	T	36190894	3	4	212	1	0	0	0	0	1	0	0	0	13038	666	23	1	4097	1	RALGAPA1	14	36190894	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	626505	36190894	71158646	1115	104920											
NKX2-8	26257	broad.mit.edu	37	chr14	37051674	37051674	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgctcctacggatgggcGtgggaggcgctcgccatgcg	4	6	17	14	7	0	0	0	0	0	0	2	2	1	2	3	4	2	2	3	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:37051674G>A	uc001wtx.2	-	1	113	c.-79C>T	c.(-81--77)CACGC>CATGC			NM_014360	NP_055175	O15522	NKX28_HUMAN	NK2 homeobox 8						liver development|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Breast(36;0.143)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.0113)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0171)		ACGGATGGGCGTGGGAGGCGC	0.652													3	4					0	0	0.009096	0	0		A	37051674	A	A	37051674	1	1	212	1	0	0	0	0	0	0	0	0	10473	1160	40	1		1	NKX2-8	14	37051674	Translation_Start_Site	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	860780	37051674	70297866	1116	104921											
PYGL	5836	broad.mit.edu	37	chr14	51376807	51376807	+	Silent	SNP	T	C	C	0	1	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	gaaatctgctctgacagatcTgtggctggaatgactgcaag	11	10	12	8	0	3	3	0	2	3	1	3	5	3	4	0	2	2	3	0	2	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:51376807T>C	uc001wyu.2	-	17	2110	c.1983A>G	c.(1981-1983)ACA>ACG	p.T661T	PYGL_uc010tqq.1_Silent_p.T627T|PYGL_uc001wyv.2_Silent_p.T335T|PYGL_uc001wyt.2_5'Flank	NM_002863	NP_002854	P06737	PYGL_HUMAN	liver glycogen phosphorylase isoform 1	661					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			skin(1)	1	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	CTGACAGATCTGTGGCTGGAA	0.433													15	96					0	0	0.003163	0	0		C	51376807	C	C	51376807	2	2	212	1	0	0	0	0	0	0	0	1	12886	1567	55	3		3	PYGL	14	51376807	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	14325133	51376807	55972733	1117	104922											
TBPL2	387332	broad.mit.edu	37	chr14	55895632	55895632	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaatcgaggaatctggcaggGaacccaagcttctgcaccac	13	6	10	12	1	2	0	0	0	2	0	3	3	2	2	2	3	3	3	2	3	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:55895632G>A	uc001xby.2	-	5	849	c.849C>T	c.(847-849)TTC>TTT	p.F283F		NM_199047	NP_950248	Q6SJ96	TBPL2_HUMAN	TATA box binding protein like 2	283					multicellular organismal development|transcription initiation from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding				0						ATCTGGCAGGGAACCCAAGCT	0.463													37	81					0	0	0.00874	0	0		A	55895632	A	A	55895632	2	1	212	1	0	0	0	0	0	0	0	1	15671	1165	41	4		4	TBPL2	14	55895632	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4518825	55895632	51453908	1118	104923											
MUDENG	55745	broad.mit.edu	37	chr14	57741365	57741365	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atacaaaattgagccagttgCctgacttgcttctgcaggct	10	12	9	10	0	1	2	0	2	1	0	1	2	1	2	2	1	5	4	2	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:57741365C>T	uc001xcv.2	+	2	905	c.478C>T	c.(478-480)CCT>TCT	p.P160S	MUDENG_uc001xcu.3_Missense_Mutation_p.P160S|MUDENG_uc010tri.1_Intron|MUDENG_uc010trj.1_Missense_Mutation_p.P57S	NM_018229	NP_060699	Q9H0R1	MUDEN_HUMAN	Mu-2 related death-inducing protein	160					intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex				ovary(1)	1						GAGCCAGTTGCCTGACTTGCT	0.373													23	40					0	0	0.004656	0	0		T	57741365	T	T	57741365	3	4	212	1	0	0	0	0	1	0	0	0	10001	739	26	2	484	2	MUDENG	14	57741365	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1845733	57741365	49608175	1119	104924											
ARID4A	5926	broad.mit.edu	37	chr14	58790255	58790255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagaggaagatgaagacaagCgccgtctcaatgatgaatta	17	7	11	6	2	1	6	1	3	1	3	2	7	1	7	1	1	1	0	1	1	7	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:58790255C>T	uc001xdp.2	+	8	756	c.502C>T	c.(502-504)CGC>TGC	p.R168C	ARID4A_uc001xdo.2_Missense_Mutation_p.R168C|ARID4A_uc001xdq.2_Missense_Mutation_p.R168C	NM_002892	NP_002883	P29374	ARI4A_HUMAN	retinoblastoma-binding protein 1 isoform I	168					negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	transcriptional repressor complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|lung(1)	6						TGAAGACAAGCGCCGTCTCAA	0.368													9	59					0	0	0.006214	0	0		T	58790255	T	T	58790255	3	4	212	1	0	0	0	0	1	0	0	0	919	768	27	1	528	1	ARID4A	14	58790255	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1048890	58790255	48559285	1120	104925											
SIX1	6495	broad.mit.edu	37	chr14	61115595	61115595	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacccgatatttgcccacggCgcccaggggtcggccgcgca	6	5	13	17	6	0	0	0	0	0	0	1	1	0	0	4	4	1	1	4	4	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:61115595C>T	uc001xfb.3	-	1	561	c.313G>A	c.(313-315)GCC>ACC	p.A105T		NM_005982	NP_005973	Q15475	SIX1_HUMAN	SIX homeobox 1	105					branching involved in ureteric bud morphogenesis|embryonic cranial skeleton morphogenesis|epithelial cell differentiation|inner ear morphogenesis|mesonephric tubule formation|metanephric mesenchyme development|myoblast migration|negative regulation of neuron apoptosis|organ induction|pattern specification process|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of ureteric bud formation|protein localization to nucleus|regulation of branch elongation involved in ureteric bud branching|regulation of neuron differentiation|skeletal muscle tissue development|thymus development|thyroid gland development	nucleolus|transcription factor complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0201)		TTGCCCACGGCGCCCAGGGGT	0.627													39	67					0	0	0.007835	0	0		T	61115595	T	T	61115595	3	4	212	1	0	0	0	0	1	0	0	0	14371	768	27	1	549	1	SIX1	14	61115595	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2325340	61115595	46233945	1121	104926											
SYT16	83851	broad.mit.edu	37	chr14	62541932	62541932	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cacatccctgctcactcacaGtccccatgtgaaagagggga	11	7	9	14	0	2	2	2	1	0	1	4	3	4	3	3	2	1	1	3	2	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:62541932G>T	uc001xfu.1	+	3	1013	c.816G>T	c.(814-816)CAG>CAT	p.Q272H	SYT16_uc010tsd.1_Missense_Mutation_p.Q272H	NM_031914	NP_114120	Q17RD7	SYT16_HUMAN	synaptotagmin XIV-like	272										central_nervous_system(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.0438)|BRCA - Breast invasive adenocarcinoma(234;0.118)		CTCACTCACAGTCCCCATGTG	0.517													6	21					3.59834e-05	3.75159e-05	0.001168	1	0		T	62541932	T	T	62541932	3	4	212	1	0	0	0	0	1	0	0	0	15497	1020	36	5	826	5	SYT16	14	62541932	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1426337	62541932	44807608	1122	104927											
GPHB5	122876	broad.mit.edu	37	chr14	63784472	63784472	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcacagcccacaaaggtgCgcaggttcccactggaggca	10	4	13	14	2	0	0	0	0	0	0	1	1	1	1	2	5	2	4	2	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:63784472C>T	uc010apu.2	-	1	92	c.92G>A	c.(91-93)CGC>CAC	p.R31H	GPHB5_uc001xgc.2_Missense_Mutation_p.R21H	NM_145171	NP_660154	Q86YW7	GPHB5_HUMAN	glycoprotein beta 5	31						extracellular region	hormone activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00372)|all cancers(60;0.0226)|BRCA - Breast invasive adenocarcinoma(234;0.0978)		CACAAAGGTGCGCAGGTTCCC	0.617													13	37					0	0	0.00245	0	0		T	63784472	T	T	63784472	3	4	212	1	0	0	0	0	1	0	0	0	6624	768	27	1	191	1	GPHB5	14	63784472	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1242540	63784472	43565068	1123	104928											
PLEKHG3	26030	broad.mit.edu	37	chr14	65209760	65209760	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gctgatggcccaggagcacaGccctcccaagccctcctcgg	7	5	11	18	1	0	1	0	1	0	0	3	2	2	2	5	3	3	2	5	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:65209760G>T	uc001xho.1	+	17	3268	c.2999G>T	c.(2998-3000)AGC>ATC	p.S1000I	PLEKHG3_uc001xhn.1_Missense_Mutation_p.S944I|PLEKHG3_uc001xhp.2_Missense_Mutation_p.S1121I|PLEKHG3_uc010aqh.1_Missense_Mutation_p.S542I|PLEKHG3_uc001xhq.1_Missense_Mutation_p.S505I	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	1000					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		CAGGAGCACAGCCCTCCCAAG	0.617													30	92					2.85442e-18	3.27749e-18	0.010818	1	0		T	65209760	T	T	65209760	3	4	212	1	0	0	0	0	1	0	0	0	12089	971	34	5	2885	5	PLEKHG3	14	65209760	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1425288	65209760	42139780	1124	104929											
ADAM20	8748	broad.mit.edu	37	chr14	70989840	70989840	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatatgttgtgcctacaatAccacagtgaccgaaacggtt	13	10	8	10	2	0	1	0	1	0	0	0	2	0	1	3	1	4	2	3	1	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:70989840A>G	uc001xme.2	-	2	2030	c.1785T>C	c.(1783-1785)GGT>GGC	p.G595G		NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	545	Cys-rich.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)		TGCCTACAATACCACAGTGAC	0.418													24	47					0	0	0.00278	0	0		G	70989840	G	G	70989840	2	3	212	1	0	0	0	0	0	0	0	1	242	378	14	3		3	ADAM20	14	70989840	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	5780080	70989840	36359700	1125	104930											
HEATR4	399671	broad.mit.edu	37	chr14	73976119	73976119	+	Missense_Mutation	SNP	A	C	C	1	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	cgcacatgggcattcttgtcAcaaagagcagcctctagggc	10	8	11	12	1	3	1	1	0	2	1	3	1	3	1	1	2	2	3	1	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:73976119A>C	uc010tub.1	-	8	1939	c.1617T>G	c.(1615-1617)TGT>TGG	p.C539W	HEATR4_uc010tua.1_Missense_Mutation_p.C492W	NM_203309	NP_976054			HEAT repeat containing 4											ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00386)|OV - Ovarian serous cystadenocarcinoma(108;0.0719)		CATTCTTGTCACAAAGAGCAG	0.517													7	70					0	0	0.001984	0	0		C	73976119	C	C	73976119	3	2	212	1	0	0	0	0	1	0	0	0	7046	157	6	5	1507	5	HEATR4	14	73976119	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2986279	73976119	33373421	1126	104931											
ISCA2	122961	broad.mit.edu	37	chr14	74961032	74961032	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggctgcaagtggagggaGgtggatgctccggattccaa	9	8	16	8	1	1	0	1	0	0	0	3	4	3	4	2	6	2	3	2	6	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:74961032G>A	uc001xpz.2	+	3	257	c.229G>A	c.(229-231)GGT>AGT	p.G77S	NPC2_uc001xpy.2_5'Flank|NPC2_uc010tus.1_5'Flank	NM_194279	NP_919255	Q86U28	ISCA2_HUMAN	iron-sulfur cluster assembly 2 precursor	77					iron-sulfur cluster assembly	mitochondrion	iron-sulfur cluster binding|metal ion binding|structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00146)		AGTGGAGGGAGGTGGATGCTC	0.522													13	59					0	0	0.004007	0	0		A	74961032	A	A	74961032	3	1	212	1	0	0	0	0	1	0	0	0	7867	1000	35	4	239	4	ISCA2	14	74961032	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	984913	74961032	32388508	1127	104932											
BATF	10538	broad.mit.edu	37	chr14	76012964	76012964	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccgaggtggtgtacagcGcccacgcattccaccaacct	8	6	9	18	3	0	0	0	0	0	0	1	1	1	0	6	2	3	2	6	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:76012964G>A	uc001xrr.2	+	3	570	c.328G>A	c.(328-330)GCC>ACC	p.A110T		NM_006399	NP_006390	Q16520	BATF_HUMAN	basic leucine zipper transcription factor,	110						nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.028)		GGTGTACAGCGCCCACGCATT	0.662													3	16					0	0	0.009096	0	0		A	76012964	A	A	76012964	3	1	212	1	0	0	0	0	1	0	0	0	1326	1087	38	1	338	1	BATF	14	76012964	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1051932	76012964	31336576	1128	104933											
TTLL5	23093	broad.mit.edu	37	chr14	76243106	76243106	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gtaggaaacagaacaaatggCtgaaaagaaatcaaagaaga	23	4	10	4	0	1	5	1	1	0	4	1	6	1	6	0	2	2	2	0	2	9	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:76243106C>A	uc001xrx.2	+	23	2505	c.2300C>A	c.(2299-2301)GCT>GAT	p.A767D	TTLL5_uc010ask.1_Missense_Mutation_p.A781D|TTLL5_uc001xrz.2_Missense_Mutation_p.A342D|TTLL5_uc001xry.1_RNA	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	767					protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)		GAACAAATGGCTGAAAAGAAA	0.378													23	37					7.87624e-14	8.84993e-14	0.00278	1	0		A	76243106	A	A	76243106	3	1	212	1	0	0	0	0	1	0	0	0	16756	797	28	5	2386	5	TTLL5	14	76243106	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	230142	76243106	31106434	1129	104934											
VASH1	22846	broad.mit.edu	37	chr14	77245316	77245316	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggtgacaagaagacttccgaGcccaaagccatgccagacct	13	5	10	13	1	0	4	0	1	0	3	1	5	1	4	5	1	3	0	5	1	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:77245316G>T	uc001xst.2	+	7	1983	c.1053G>T	c.(1051-1053)GAG>GAT	p.E351D		NM_014909	NP_055724	Q7L8A9	VASH1_HUMAN	vasohibin 1	351	Involved in heparin-binding and antiangiogenic activity.				cell cycle arrest|negative regulation of angiogenesis|negative regulation of blood vessel endothelial cell migration|negative regulation of endothelial cell proliferation	endoplasmic reticulum|extracellular space					0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0283)		AGACTTCCGAGCCCAAAGCCA	0.632													42	142					2.9001e-28	3.40012e-28	0.01441	1	0		T	77245316	T	T	77245316	3	4	212	1	0	0	0	0	1	0	0	0	17151	962	34	5	1079	5	VASH1	14	77245316	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1002210	77245316	30104224	1130	104935											
C14orf166B	145497	broad.mit.edu	37	chr14	77302606	77302606	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aattgcatcatggaggagggCgtcttgagcctggtggagat	9	10	16	6	1	2	2	1	1	1	1	2	5	2	4	1	5	2	1	1	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:77302606C>T	uc001xsx.2	+	4	561	c.447C>T	c.(445-447)GGC>GGT	p.G149G	C14orf166B_uc010asn.1_5'UTR|C14orf166B_uc001xsw.2_RNA|C14orf166B_uc010aso.1_RNA|C14orf166B_uc010tvg.1_RNA|C14orf166B_uc010tvh.1_RNA	NM_194287	NP_919263	Q0VAA2	CN16B_HUMAN	hypothetical protein LOC145497	149	LRR 1.										0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0306)		TGGAGGAGGGCGTCTTGAGCC	0.542													6	13					0	0	0.004482	0	0		T	77302606	T	T	77302606	2	4	212	1	0	0	0	0	0	0	0	1	1760	755	27	1		1	C14orf166B	14	77302606	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	57290	77302606	30046934	1131	104936											
TSHR	7253	broad.mit.edu	37	chr14	81609866	81609866	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tacaaccatgccatcgactgGcagacaggccctgggtgcaa	11	6	11	13	1	0	1	0	0	0	1	1	2	0	1	3	3	4	2	3	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:81609866G>A	uc001xvd.1	+	10	1620	c.1464G>A	c.(1462-1464)TGG>TGA	p.W488*		NM_000369	NP_000360	P16473	TSHR_HUMAN	thyroid stimulating hormone receptor isoform 1	488	Extracellular (Potential).				cell-cell signaling|positive regulation of cell proliferation	integral to plasma membrane	protein binding|thyroid-stimulating hormone receptor activity			thyroid(289)|ovary(5)|lung(3)|kidney(1)|skin(1)	299				BRCA - Breast invasive adenocarcinoma(234;0.0402)	Thyrotropin Alfa(DB00024)	CCATCGACTGGCAGACAGGCC	0.547			Mis		toxic thyroid adenoma	thyroid  adenoma	Hereditary nonautoimmune hyperthyroidism; subclinical hypothyroidism 						11	50					0	0	0.008291	0	0		A	81609866	A	A	81609866	4	1	212	1	0	0	0	0	0	1	0	0	16648	1212	42	2	1639	2	TSHR	14	81609866	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4307260	81609866	25739674	1132	104937											
FLRT2	23768	broad.mit.edu	37	chr14	86088364	86088364	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attgttgtttttgtctaagaAtcacctgagcagtgtgcctg	8	16	10	7	0	2	2	1	1	1	1	2	2	2	2	2	0	2	3	2	0	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:86088364A>C	uc001xvr.2	+	2	1273	c.506A>C	c.(505-507)AAT>ACT	p.N169T	FLRT2_uc010atd.2_Missense_Mutation_p.N169T	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	169	Extracellular (Potential).|LRR 5.				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		TTGTCTAAGAATCACCTGAGC	0.502													18	26					0	0	0.007413	0	0		C	86088364	C	C	86088364	3	2	212	1	0	0	0	0	1	0	0	0	5953	101	4	5	508	5	FLRT2	14	86088364	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4478498	86088364	21261176	1133	104938											
KCNK13	56659	broad.mit.edu	37	chr14	90528736	90528736	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctggccaacttcagccgcGgccacaacctgagccgcgac	8	4	11	18	4	1	1	1	1	0	0	1	2	1	1	6	2	4	0	6	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:90528736G>A	uc001xye.1	+	1	629	c.187G>A	c.(187-189)GGC>AGC	p.G63S		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	63						integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				CTTCAGCCGCGGCCACAACCT	0.736													3	6					0	0	0.004672	0	0		A	90528736	A	A	90528736	3	1	212	1	0	0	0	0	1	0	0	0	8077	1116	39	1	189	1	KCNK13	14	90528736	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4440372	90528736	16820804	1134	104939											
RIN3	79890	broad.mit.edu	37	chr14	93022170	93022170	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctttgtctgccagccaaccCgaaaaactgccttcctcacc	9	9	6	17	1	2	0	1	0	1	0	3	1	3	0	6	0	5	1	6	0	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:93022170C>T	uc001yap.2	+	2	271	c.119C>T	c.(118-120)CCG>CTG	p.P40L	RIN3_uc010auk.2_5'UTR	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3	40					endocytosis|signal transduction	cytoplasmic membrane-bounded vesicle|early endosome	GTPase activator activity|Ras GTPase binding			lung(2)|ovary(1)	3		all_cancers(154;0.0701)				CCAGCCAACCCGAAAAACTGC	0.552													37	27					0	0	0.009718	0	0		T	93022170	T	T	93022170	3	4	212	1	0	0	0	0	1	0	0	0	13398	652	23	1	125	1	RIN3	14	93022170	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2493434	93022170	14327370	1135	104940											
BTBD7	55727	broad.mit.edu	37	chr14	93760654	93760654	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtaatcaaagagtccacGcatatctacatcaagggaat	16	9	7	9	1	3	1	2	0	1	1	4	2	4	2	1	1	1	2	1	1	6	3	rs143569452		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:93760654G>A	uc001ybo.2	-	3	1038	c.712C>T	c.(712-714)CGT>TGT	p.R238C	BTBD7_uc010aur.2_5'UTR|BTBD7_uc010two.1_Missense_Mutation_p.R153C|BTBD7_uc001ybp.2_Intron|BTBD7_uc001ybq.3_Missense_Mutation_p.R153C|BTBD7_uc001ybr.2_Missense_Mutation_p.R238C	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	238										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		AAGAGTCCACGCATATCTACA	0.383													23	51					0	0	0.00278	0	0		A	93760654	A	A	93760654	3	1	212	1	0	0	0	0	1	0	0	0	1549	1087	38	1	2797	1	BTBD7	14	93760654	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	738484	93760654	13588886	1136	104941											
DDX24	57062	broad.mit.edu	37	chr14	94526684	94526684	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgttagcgtctccaccgtgGcctcattccttgtgaggtca	5	13	10	13	2	3	1	2	1	1	0	5	1	4	1	4	2	1	1	4	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:94526684G>A	uc001ycj.2	-	5	1772	c.1673C>T	c.(1672-1674)GCC>GTC	p.A558V	DDX24_uc010twq.1_Missense_Mutation_p.A515V|DDX24_uc010twr.1_Missense_Mutation_p.A308V	NM_020414	NP_065147	Q9GZR7	DDX24_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 24	558					RNA metabolic process	cytoplasm|nucleolus|nucleolus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(2)|kidney(1)|skin(1)	4		all_cancers(154;0.12)		Epithelial(152;0.114)|all cancers(159;0.19)|COAD - Colon adenocarcinoma(157;0.207)		CTCCACCGTGGCCTCATTCCT	0.473													22	74					0	0	0.004656	0	0		A	94526684	A	A	94526684	3	1	212	1	0	0	0	0	1	0	0	0	4354	1203	42	2	926	2	DDX24	14	94526684	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	766030	94526684	12822856	1137	104942											
SETD3	84193	broad.mit.edu	37	chr14	99865440	99865440	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacgaacagaaagatcgtggTttttcaagacggatttatct	13	12	9	7	3	2	3	1	0	1	3	3	5	2	4	0	2	1	1	0	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:99865440T>G	uc001ygc.2	-	13	1531	c.1361A>C	c.(1360-1362)AAC>ACC	p.N454T		NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a	454					peptidyl-lysine dimethylation|peptidyl-lysine monomethylation|peptidyl-lysine trimethylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone methyltransferase activity (H3-K36 specific)|transcription coactivator activity				0		all_cancers(154;0.224)|all_epithelial(191;0.0644)|Melanoma(154;0.0866)				AAGATCGTGGTTTTTCAAGAC	0.318													14	46					0	0	0.003163	0	0		G	99865440	G	G	99865440	3	3	212	1	0	0	0	0	1	0	0	0	14157	1725	60	5	427	5	SETD3	14	99865440	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	5338756	99865440	7484100	1138	104943											
C14orf73	91828	broad.mit.edu	37	chr14	103573803	103573803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ccagggactggctgacgcagGactggctgcatcccctcatg	7	7	13	14	1	1	1	1	1	0	0	2	3	2	3	3	4	1	4	3	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:103573803G>A	uc001ymk.2	+	8	1700	c.1624G>A	c.(1624-1626)GAC>AAC	p.D542N		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	hypothetical protein LOC91828	542											0		Melanoma(154;0.155)	Epithelial(46;0.221)			GCTGACGCAGGACTGGCTGCA	0.657													15	40					0	0	0.00499	0	0		A	103573803	A	A	103573803	3	1	212	1	0	0	0	0	1	0	0	0	1782	1174	41	4	1654	4	C14orf73	14	103573803	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3708363	103573803	3775737	1139	104944											
AHNAK2	113146	broad.mit.edu	37	chr14	105414444	105414444	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcctcgacatccacctccacGctgggctgagacacctccac	8	6	8	19	2	0	1	0	1	0	1	4	3	3	1	6	1	0	2	6	1	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:105414444G>A	uc010axc.1	-	7	7464	c.7344C>T	c.(7342-7344)AGC>AGT	p.S2448S	AHNAK2_uc001ypx.2_Silent_p.S2348S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2448						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCACCTCCACGCTGGGCTGAG	0.632													62	141					0	0	0.01441	0	0		A	105414444	A	A	105414444	2	1	212	1	0	0	0	0	0	0	0	1	415	1078	38	1		1	AHNAK2	14	105414444	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1840641	105414444	1935096	1140	104945											
AHNAK2	113146	broad.mit.edu	37	chr14	105419396	105419396	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctggacgtccacctccatgcTggacagagacatcttcacat	10	9	8	14	1	2	1	1	0	1	1	4	4	4	3	3	2	1	1	3	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr14:105419396T>C	uc010axc.1	-	7	2512	c.2392A>G	c.(2392-2394)AGC>GGC	p.S798G	AHNAK2_uc001ypx.2_Missense_Mutation_p.S698G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	798						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			ACCTCCATGCTGGACAGAGAC	0.617													54	203					0	0	0.01441	0	0		C	105419396	C	C	105419396	3	2	212	1	0	0	0	0	1	0	0	0	415	1580	55	3	14999	3	AHNAK2	14	105419396	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	4952	105419396	1930144	1141	104946											
CYFIP1	23191	broad.mit.edu	37	chr15	22929769	22929769	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgcctgtgccatgccgagaGgaggaaggacttcgtgtcag	8	7	16	10	3	1	1	1	0	0	1	2	5	1	4	3	3	2	0	3	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:22929769G>T	uc001yus.2	+	6	547	c.443G>T	c.(442-444)AGG>ATG	p.R148M	CYFIP1_uc001yut.2_Missense_Mutation_p.R148M|CYFIP1_uc010aya.1_Missense_Mutation_p.R176M	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	148					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		CATGCCGAGAGGAGGAAGGAC	0.547													17	43					1.96292e-10	2.13883e-10	0.010504	1	0		T	22929769	T	T	22929769	3	4	212	1	0	0	0	0	1	0	0	0	4140	1000	35	5	461	5	CYFIP1	15	22929769	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		22929769	79601623	1142	104947											
CYFIP1	23191	broad.mit.edu	37	chr15	23002965	23002965	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gataagtacctgaagtcaggCgacggggagggcacgccagt	11	5	16	9	3	1	1	1	1	0	0	1	4	1	2	2	4	1	2	2	4	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:23002965C>T	uc001yus.2	+	31	3791	c.3687C>T	c.(3685-3687)GGC>GGT	p.G1229G	CYFIP1_uc001yut.2_Silent_p.G1229G|CYFIP1_uc001yuu.2_Silent_p.G798G|CYFIP1_uc001yuv.2_Silent_p.G423G	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	1229					axon extension|lamellipodium assembly|regulation of cell shape|ruffle organization	cell junction|lamellipodium|mRNA cap binding complex|perinuclear region of cytoplasm|ruffle|synapse|synaptosome	actin filament binding|Rac GTPase binding			ovary(4)|pancreas(3)|liver(1)|skin(1)	9		all_cancers(20;2.26e-25)|all_epithelial(15;2.1e-22)|Lung NSC(15;3.36e-17)|all_lung(15;1.04e-16)|Breast(32;0.000776)|Colorectal(260;0.0488)		all cancers(64;2.22e-06)|Epithelial(43;1.49e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00101)		TGAAGTCAGGCGACGGGGAGG	0.567													16	33					0	0	0.004007	0	0		T	23002965	T	T	23002965	2	4	212	1	0	0	0	0	0	0	0	1	4140	755	27	1		1	CYFIP1	15	23002965	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	73196	23002965	79528427	1143	104948											
GABRB3	2562	broad.mit.edu	37	chr15	26793230	26793230	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgcctgagacctcattcaTttcattgtgaacttccagcg	8	12	8	13	2	3	2	3	2	0	1	4	3	4	2	4	0	2	0	4	0	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:26793230T>C	uc001zaz.2	-	9	1274	c.1132A>G	c.(1132-1134)ATG>GTG	p.M378V	GABRB3_uc010uae.1_Missense_Mutation_p.M293V|GABRB3_uc001zba.2_Missense_Mutation_p.M378V|GABRB3_uc001zbb.2_Missense_Mutation_p.M434V	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	378	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	ACCTCATTCATTTCATTGTGA	0.453													10	103					0	0	0.010729	0	0		C	26793230	C	C	26793230	3	2	212	1	0	0	0	0	1	0	0	0	6182	1493	52	3	293	3	GABRB3	15	26793230	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3790265	26793230	75738162	1144	104949											
GABRB3	2562	broad.mit.edu	37	chr15	26825568	26825568	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aacagccttgtccccgcctcGccagtaaaactcaatgtcat	11	9	6	15	2	2	0	2	0	0	0	4	0	3	0	5	0	3	1	5	0	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:26825568G>A	uc001zaz.2	-	6	722	c.580C>T	c.(580-582)CGA>TGA	p.R194*	GABRB3_uc010uae.1_Nonsense_Mutation_p.R109*|GABRB3_uc001zba.2_Nonsense_Mutation_p.R194*|GABRB3_uc001zbb.2_Nonsense_Mutation_p.R250*	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	194	Extracellular (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCCCCGCCTCGCCAGTAAAAC	0.517													6	53					0	0	0.001168	0	0		A	26825568	A	A	26825568	4	1	212	1	0	0	0	0	0	1	0	0	6182	1095	38	1	857	1	GABRB3	15	26825568	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	32338	26825568	75705824	1145	104950											
OCA2	4948	broad.mit.edu	37	chr15	28196964	28196964	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atgccagggacaaacgaattGaggaaaaacatgaagataac	20	5	10	6	1	0	3	0	2	0	1	0	6	0	5	1	2	4	0	1	2	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:28196964G>C	uc001zbh.3	-	18	2027	c.1917C>G	c.(1915-1917)CTC>CTG	p.L639L	OCA2_uc010ayv.2_Silent_p.L615L	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	639	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		CAAACGAATTGAGGAAAAACA	0.433									Oculocutaneous_Albinism				12	18					0	0	0.003163	0	0		C	28196964	C	C	28196964	2	2	212	1	0	0	0	0	0	0	0	1	10834	1277	45	5		5	OCA2	15	28196964	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1371396	28196964	74334428	1146	104951											
RYR3	6263	broad.mit.edu	37	chr15	33999192	33999192	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaaggataccctgatgtcGgctggaaccccattgaaggg	11	7	12	11	1	0	2	0	2	0	0	1	4	0	4	4	4	2	1	4	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:33999192G>A	uc001zhi.2	+	43	6626	c.6556G>A	c.(6556-6558)GGC>AGC	p.G2186S	RYR3_uc010bar.2_Missense_Mutation_p.G2186S	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2186	4 X approximate repeats.|Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCCTGATGTCGGCTGGAACCC	0.517													7	10					0	0	0.001984	0	0		A	33999192	A	A	33999192	3	1	212	1	0	0	0	0	1	0	0	0	13795	1116	39	1	6726	1	RYR3	15	33999192	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5802228	33999192	68532200	1147	104952											
RYR3	6263	broad.mit.edu	37	chr15	34049795	34049795	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggagaaagaaatggtggcCgggtgagtctacaagataaa	17	6	14	4	1	1	4	0	1	1	3	1	5	1	4	1	4	1	0	1	4	7	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:34049795C>T	uc001zhi.2	+	60	8773	c.8703C>T	c.(8701-8703)GCC>GCT	p.A2901A	RYR3_uc010bar.2_Silent_p.A2901A	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2901	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AAATGGTGGCCGGGTGAGTCT	0.478													6	6					0	0	0.00308	0	0		T	34049795	T	T	34049795	2	4	212	1	0	0	0	0	0	0	0	1	13795	639	23	1		1	RYR3	15	34049795	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	50603	34049795	68481597	1148	104953											
SPRED1	161742	broad.mit.edu	37	chr15	38591731	38591731	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttttttatccgtggagagCgactcagggacaaaatggta	12	11	11	7	2	1	1	1	0	0	1	2	4	2	2	1	3	1	1	1	3	4	4	rs121434315		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:38591731C>T	uc001zka.3	+	2	525	c.190C>T	c.(190-192)CGA>TGA	p.R64*		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	64	WH1.				inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		CCGTGGAGAGCGACTCAGGGA	0.373									Legius_syndrome				20	29					0	0	0.010504	0	0		T	38591731	T	T	38591731	4	4	212	1	0	0	0	0	0	1	0	0	15117	760	27	1	196	1	SPRED1	15	38591731	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4541936	38591731	63939661	1149	104954											
THBS1	7057	broad.mit.edu	37	chr15	39886303	39886303	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttccttttccttcaggtgCgcaccctgtggcatgaccct	4	15	8	14	1	1	1	1	1	0	0	3	1	3	1	4	2	1	2	4	2	0	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:39886303C>T	uc001zkh.2	+	20	3450	c.3271C>T	c.(3271-3273)CGC>TGC	p.R1091C	THBS1_uc010bbi.2_Missense_Mutation_p.R563C	NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	1091	TSP C-terminal.				activation of MAPK activity|anti-apoptosis|apoptosis|cell adhesion|cell cycle arrest|cell migration|cellular response to heat|chronic inflammatory response|engulfment of apoptotic cell|immune response|induction of apoptosis|negative regulation of angiogenesis|negative regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|negative regulation of blood vessel endothelial cell migration|negative regulation of caspase activity|negative regulation of cGMP-mediated signaling|negative regulation of dendritic cell antigen processing and presentation|negative regulation of endothelial cell proliferation|negative regulation of fibrinolysis|negative regulation of fibroblast growth factor receptor signaling pathway|negative regulation of focal adhesion assembly|negative regulation of interleukin-12 production|negative regulation of nitric oxide mediated signal transduction|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of plasminogen activation|peptide cross-linking|platelet activation|platelet degranulation|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of fibroblast migration|positive regulation of macrophage activation|positive regulation of macrophage chemotaxis|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transforming growth factor-beta1 production|positive regulation of translation|positive regulation of tumor necrosis factor biosynthetic process|response to calcium ion|response to drug|response to glucose stimulus|response to hypoxia|response to magnesium ion|response to progesterone stimulus|sprouting angiogenesis	external side of plasma membrane|extracellular matrix|fibrinogen complex|platelet alpha granule lumen	calcium ion binding|collagen V binding|eukaryotic cell surface binding|fibrinogen binding|fibroblast growth factor 2 binding|fibronectin binding|heparin binding|identical protein binding|integrin binding|laminin binding|low-density lipoprotein particle binding|phosphatidylserine binding|proteoglycan binding|structural molecule activity|transforming growth factor beta binding			ovary(3)|central_nervous_system(3)	6		all_cancers(109;1.35e-17)|all_epithelial(112;2.07e-15)|Lung NSC(122;4.44e-11)|all_lung(180;1.11e-09)|Melanoma(134;0.0574)|Colorectal(260;0.117)|Ovarian(310;0.223)		GBM - Glioblastoma multiforme(113;2.77e-06)|BRCA - Breast invasive adenocarcinoma(123;0.105)	Becaplermin(DB00102)	CCTTCAGGTGCGCACCCTGTG	0.473													4	10					0	0	0.001168	0	0		T	39886303	T	T	39886303	3	4	212	1	0	0	0	0	1	0	0	0	15878	768	27	1	3345	1	THBS1	15	39886303	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1294572	39886303	62645089	1150	104955											
PAK6	56924	broad.mit.edu	37	chr15	40558161	40558161	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggccgcagccccaccagccGgcggcgggcacagtccctgg	5	3	15	18	4	0	0	0	0	0	0	1	0	1	0	6	5	2	2	6	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:40558161G>A	uc010bbl.2	+	5	763	c.323G>A	c.(322-324)CGG>CAG	p.R108Q	PAK6_uc010bbm.2_Missense_Mutation_p.R108Q|PAK6_uc001zky.3_Missense_Mutation_p.R108Q|PAK6_uc010bbn.2_Missense_Mutation_p.R108Q|PAK6_uc001zlb.2_Missense_Mutation_p.R108Q	NM_001128628	NP_001122100	Q9NQU5	PAK6_HUMAN	p21-activated kinase 6	108	Linker.						ATP binding|protein binding|protein serine/threonine kinase activity			lung(5)|large_intestine(1)|ovary(1)|skin(1)	8		all_cancers(109;1.13e-18)|all_epithelial(112;1.62e-15)|Lung NSC(122;5.67e-11)|all_lung(180;1.41e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0823)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.51e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0544)		CCCACCAGCCGGCGGCGGGCA	0.662													9	12					0	0	0.006214	0	0		A	40558161	A	A	40558161	3	1	212	1	0	0	0	0	1	0	0	0	11423	1116	39	1	329	1	PAK6	15	40558161	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	671858	40558161	61973231	1151	104956											
ZFP106	64397	broad.mit.edu	37	chr15	42731306	42731306	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catcacacccagaacgagacGtttctagtgggttttgctct	9	12	9	11	2	3	2	1	0	2	2	3	3	3	2	1	1	2	3	1	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:42731306G>A	uc001zpw.2	-	8	4735	c.4400C>T	c.(4399-4401)ACG>ATG	p.T1467M	ZFP106_uc001zpu.2_Missense_Mutation_p.T565M|ZFP106_uc001zpv.2_Missense_Mutation_p.T652M|ZFP106_uc001zpx.2_Missense_Mutation_p.T695M	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1467						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		AGAACGAGACGTTTCTAGTGG	0.423													40	60					0	0	0.00874	0	0		A	42731306	A	A	42731306	3	1	212	1	0	0	0	0	1	0	0	0	17662	1145	40	1	1299	1	ZFP106	15	42731306	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2173145	42731306	59800086	1152	104957											
EPB42	2038	broad.mit.edu	37	chr15	43508551	43508551	+	Silent	SNP	C	T	T	0	0	0	1	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	tacaggatgatggtgaagggCtgccccctcctcacaaagag	11	7	12	11	0	1	3	1	2	0	1	2	4	2	4	3	3	2	1	3	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:43508551C>T	uc001zra.3	-	2	411	c.111G>A	c.(109-111)CAG>CAA	p.Q37Q	EPB42_uc010bde.2_5'UTR|EPB42_uc001zrb.3_Silent_p.Q67Q|EPB42_uc010udm.1_Silent_p.Q37Q	NM_001114134	NP_001107606	P16452	EPB42_HUMAN	erythrocyte membrane protein band 4.2 isoform 2	37	Band 3 binding (By similarity).				erythrocyte maturation|peptide cross-linking|regulation of cell shape	cytoplasm|cytoskeleton|plasma membrane	ATP binding|protein binding|protein-glutamine gamma-glutamyltransferase activity|structural constituent of cytoskeleton			ovary(2)	2		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)		TGGTGAAGGGCTGCCCCCTCC	0.582													23	43					0	0	0.014323	0	0		T	43508551	T	T	43508551	2	4	212	1	0	0	0	0	0	0	0	1	5166	796	28	2		2	EPB42	15	43508551	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	777245	43508551	59022841	1153	104958											
DUOX1	53905	broad.mit.edu	37	chr15	45453118	45453118	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccagcaatcatctatgggggCgacaagctggtgagcctgag	10	7	14	10	1	2	2	1	2	1	0	2	3	2	2	2	3	3	2	2	3	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:45453118C>T	uc001zus.1	+	30	4132	c.3786C>T	c.(3784-3786)GGC>GGT	p.G1262G	DUOX1_uc001zut.1_Silent_p.G1262G|DUOX1_uc010bee.1_Silent_p.G642G	NM_017434	NP_059130	Q9NRD9	DUOX1_HUMAN	dual oxidase 1 precursor	1262	Helical; (Potential).|Ferric oxidoreductase.				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|superoxide anion generation	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|NADP binding|peroxidase activity			ovary(5)|skin(2)|breast(1)	8		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)		TCTATGGGGGCGACAAGCTGG	0.577													26	78					0	0	0.003954	0	0		T	45453118	T	T	45453118	2	4	212	1	0	0	0	0	0	0	0	1	4806	755	27	1		1	DUOX1	15	45453118	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1944567	45453118	57078274	1154	104959											
FBN1	2200	broad.mit.edu	37	chr15	48722881	48722881	+	Silent	SNP	T	C	C	0	1	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	ctcttacctacacagccttcTccatcaggtctccgctgata	8	12	5	16	1	4	1	1	1	3	0	6	1	4	1	4	1	3	1	4	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:48722881T>C	uc001zwx.1	-	56	7186	c.6858A>G	c.(6856-6858)GGA>GGG	p.G2286G	FBN1_uc010beo.1_RNA	NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	2286	EGF-like 39; calcium-binding.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		CACAGCCTTCTCCATCAGGTC	0.483													27	30					0	0	0.010818	0	0		C	48722881	C	C	48722881	2	2	212	1	0	0	0	0	0	0	0	1	5716	1538	54	3		3	FBN1	15	48722881	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3269763	48722881	53808511	1155	104960											
FBN1	2200	broad.mit.edu	37	chr15	48812973	48812973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcagctggttagagcagcGcccgtttgtcagagctgtgt	6	11	15	9	2	1	2	1	0	0	2	1	2	1	2	1	2	4	6	1	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:48812973G>A	uc001zwx.1	-	10	1358	c.1030C>T	c.(1030-1032)CGC>TGC	p.R344C		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	344	TB 2.				heart development|negative regulation of BMP signaling pathway by extracellular sequestering of BMP|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|skeletal system development	basement membrane|extracellular space|microfibril	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(2)|large_intestine(1)	3		all_lung(180;0.00279)		all cancers(107;4.24e-07)|GBM - Glioblastoma multiforme(94;1.41e-05)		TTAGAGCAGCGCCCGTTTGTC	0.517													11	30					0	0	0.013537	0	0		A	48812973	A	A	48812973	3	1	212	1	0	0	0	0	1	0	0	0	5716	1087	38	1	7813	1	FBN1	15	48812973	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	90092	48812973	53718419	1156	104961											
COPS2	9318	broad.mit.edu	37	chr15	49422919	49422919	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tggcagaaagaacataccttCaatgtgttctcttatgaaag	14	12	8	7	0	2	3	1	1	1	2	3	3	2	3	1	1	2	2	1	1	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:49422919C>T	uc001zxf.2	-	10	1121	c.1042G>A	c.(1042-1044)GAA>AAA	p.E348K	COPS2_uc001zxh.2_Missense_Mutation_p.E355K|COPS2_uc010ufa.1_Missense_Mutation_p.E284K	NM_004236	NP_004227	P61201	CSN2_HUMAN	COP9 constitutive photomorphogenic homolog	348	PCI.				cullin deneddylation|transcription from RNA polymerase II promoter	cytoplasm|signalosome	protein binding|signal transducer activity			lung(1)	1		all_lung(180;0.0428)		all cancers(107;1.34e-07)|GBM - Glioblastoma multiforme(94;3.02e-05)		AACATACCTTCAATGTGTTCT	0.348													23	74					0	0	0.007291	0	0		T	49422919	T	T	49422919	3	4	212	1	0	0	0	0	1	0	0	0	3736	835	29	4	305	4	COPS2	15	49422919	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	609946	49422919	53108473	1157	104962											
DMXL2	23312	broad.mit.edu	37	chr15	51799444	51799444	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttctgaaaatggtggtgggCggtatcctattattcaaagg	10	14	12	5	1	2	1	1	1	1	0	3	1	3	1	1	5	0	1	1	5	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:51799444C>T	uc002abf.2	-	16	2876	c.2651G>A	c.(2650-2652)CGC>CAC	p.R884H	DMXL2_uc010ufy.1_Missense_Mutation_p.R884H|DMXL2_uc010bfa.2_Missense_Mutation_p.R884H	NM_015263	NP_056078	Q8TDJ6	DMXL2_HUMAN	Dmx-like 2	884	WD 7.					cell junction|synaptic vesicle membrane	Rab GTPase binding			ovary(6)|skin(3)	9				all cancers(107;0.00494)		TGGTGGTGGGCGGTATCCTAT	0.328													20	67					0	0	0.012319	0	0		T	51799444	T	T	51799444	3	4	212	1	0	0	0	0	1	0	0	0	4601	768	27	1	6574	1	DMXL2	15	51799444	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2376525	51799444	50731948	1158	104963											
SCG3	29106	broad.mit.edu	37	chr15	51974034	51974034	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaaacctggaggaagccaaGgtatgtgaacacttttcttc	12	10	9	10	0	1	1	0	1	1	0	2	3	1	3	3	3	3	1	3	3	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:51974034G>T	uc002abh.2	+	1	490	c.82G>T	c.(82-84)GAC>TAC	p.D28Y	SCG3_uc010ufz.1_5'UTR	NM_013243	NP_037375	Q8WXD2	SCG3_HUMAN	secretogranin III isoform 1 precursor	28					platelet activation|platelet degranulation	extracellular region|stored secretory granule				ovary(1)	1				all cancers(107;0.00488)		AGGAAGCCAAGGTATGTGAAC	0.488													3	39					6.4e-05	6.65138e-05	0.004672	1	0		T	51974034	T	T	51974034	3	4	212	1	0	0	0	0	1	0	0	0	13917	1014	35	5	84	5	SCG3	15	51974034	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	174590	51974034	50557358	1159	104964											
LEO1	123169	broad.mit.edu	37	chr15	52244057	52244057	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataccttaatcatttctgtgCgttggcattcaggatcacga	10	14	8	9	2	4	0	3	0	1	0	4	2	4	1	1	2	2	2	1	2	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:52244057C>T	uc002abo.2	-	9	1611	c.1595G>A	c.(1594-1596)CGC>CAC	p.R532H	LEO1_uc010bfd.2_Missense_Mutation_p.R472H	NM_138792	NP_620147	Q8WVC0	LEO1_HUMAN	Leo1, Paf1/RNA polymerase II complex component,	532					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding				0				all cancers(107;0.00264)		CATTTCTGTGCGTTGGCATTC	0.418													21	82					0	0	0.00333	0	0		T	52244057	T	T	52244057	3	4	212	1	0	0	0	0	1	0	0	0	8742	768	27	1	421	1	LEO1	15	52244057	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	270023	52244057	50287335	1160	104965											
PRTG	283659	broad.mit.edu	37	chr15	55972291	55972291	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catagcaactgtaaagttgcGtgtgccaggggtagtggccc	9	9	14	9	1	0	0	0	0	0	0	0	0	0	0	2	3	4	4	2	3	5	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:55972291G>A	uc002adg.2	-	6	982	c.934C>T	c.(934-936)CGC>TGC	p.R312C		NM_173814	NP_776175	Q2VWP7	PRTG_HUMAN	protogenin precursor	312	Ig-like 3.				multicellular organismal development	integral to membrane				large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.00891)|GBM - Glioblastoma multiforme(80;0.135)		GTAAAGTTGCGTGTGCCAGGG	0.403													4	39					0	0	0.000602	0	0		A	55972291	A	A	55972291	3	1	212	1	0	0	0	0	1	0	0	0	12660	1145	40	1	2578	1	PRTG	15	55972291	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3728234	55972291	46559101	1161	104966											
APH1B	83464	broad.mit.edu	37	chr15	63569850	63569850	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggccgtgttcttcggctgcGccttcattgccttcgggcct	1	13	12	15	5	2	0	1	0	1	0	4	0	2	0	4	3	2	2	4	3	0	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:63569850G>A	uc002ama.2	+	1	102	c.28G>A	c.(28-30)GCC>ACC	p.A10T	APH1B_uc002amb.2_Missense_Mutation_p.A10T|APH1B_uc010bgq.2_5'UTR|APH1B_uc010bgr.2_5'Flank	NM_031301	NP_112591	Q8WW43	APH1B_HUMAN	presenilin stabilization factor-like isoform 1	10	Helical; Name=1; (Potential).				apoptosis|induction of apoptosis by extracellular signals|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	integral to membrane|plasma membrane|transport vesicle	peptidase activity|protein binding				0						CTTCGGCTGCGCCTTCATTGC	0.687													5	43					0	0	0.001168	0	0		A	63569850	A	A	63569850	3	1	212	1	0	0	0	0	1	0	0	0	772	1087	38	1	30	1	APH1B	15	63569850	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	7597559	63569850	38961542	1162	104967											
PARP16	54956	broad.mit.edu	37	chr15	65555539	65555539	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggtcaatgacctcacacacGgccacacagctaaggatggg	12	6	11	12	1	2	1	2	1	0	0	2	2	2	2	2	4	1	1	2	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:65555539G>T	uc002aoo.2	-	4	893	c.639C>A	c.(637-639)GCC>GCA	p.A213A	PARP16_uc002aop.2_Silent_p.A98A|PARP16_uc002aoq.2_Silent_p.A213A	NM_017851	NP_060321	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	213	PARP catalytic.					integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2						CCTCACACACGGCCACACAGC	0.597													10	19					2.17888e-05	2.27555e-05	0.006214	1	0		T	65555539	T	T	65555539	2	4	212	1	0	0	0	0	0	0	0	1	11479	1103	39	5		5	PARP16	15	65555539	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1985689	65555539	36975853	1163	104968											
IGDCC3	9543	broad.mit.edu	37	chr15	65623855	65623855	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagacacagagactgcccGcacattgcggggaggcccgg	10	3	16	12	3	0	2	0	0	0	2	0	5	0	4	2	5	2	1	2	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:65623855G>A	uc002aos.2	-	8	1543	c.1291C>T	c.(1291-1293)CGG>TGG	p.R431W	IGDCC3_uc002aor.1_5'Flank	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	431	Extracellular (Potential).|Fibronectin type-III 1.									ovary(3)	3						GAGACTGCCCGCACATTGCGG	0.627													3	24					0	0	0.009096	0	0		A	65623855	A	A	65623855	3	1	212	1	0	0	0	0	1	0	0	0	7584	1086	38	1	1181	1	IGDCC3	15	65623855	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	68316	65623855	36907537	1164	104969											
SLC24A1	9187	broad.mit.edu	37	chr15	65917329	65917329	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttagtgggaaagagcaaccCgaagactccccagggaacag	14	4	13	10	1	0	2	0	0	0	2	1	5	1	4	3	2	3	2	3	2	5	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:65917329C>T	uc010ujf.1	+	2	1198	c.911C>T	c.(910-912)CCG>CTG	p.P304L	SLC24A1_uc010ujd.1_Missense_Mutation_p.P304L|SLC24A1_uc010uje.1_Missense_Mutation_p.P304L|SLC24A1_uc010ujg.1_Missense_Mutation_p.P304L|SLC24A1_uc010ujh.1_Missense_Mutation_p.P304L	NM_004727	NP_004718	O60721	NCKX1_HUMAN	solute carrier family 24	304	Extracellular (Potential).				response to light intensity|visual perception	integral to plasma membrane|membrane fraction|outer membrane	calcium, potassium:sodium antiporter activity|protein binding|symporter activity				0						AAGAGCAACCCGAAGACTCCC	0.547													24	64					0	0	0.005443	0	0		T	65917329	T	T	65917329	3	4	212	1	0	0	0	0	1	0	0	0	14490	652	23	1		1	SLC24A1	15	65917329	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	293474	65917329	36614063	1165	104970											
CLN6	54982	broad.mit.edu	37	chr15	68506646	68506646	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accttgagcaagagaaagggCgtgatgacgttgtaggccat	12	8	14	7	2	0	4	0	3	0	1	0	5	0	4	2	2	1	3	2	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:68506646C>T	uc002arf.2	-	3	437	c.279G>A	c.(277-279)ACG>ACA	p.T93T	CLN6_uc010ujy.1_Missense_Mutation_p.R59H|CLN6_uc010ujz.1_Silent_p.T125T	NM_017882	NP_060352	Q9NWW5	CLN6_HUMAN	CLN6 protein	93	Helical; (Potential).				cell death|cholesterol metabolic process|ganglioside metabolic process|glycosaminoglycan metabolic process|lysosomal lumen acidification|positive regulation of proteolysis|protein catabolic process	endoplasmic reticulum lumen|endoplasmic reticulum membrane|integral to membrane	protein homodimerization activity				0						AGAGAAAGGGCGTGATGACGT	0.547													16	53					0	0	0.006122	0	0		T	68506646	T	T	68506646	2	4	212	1	0	0	0	0	0	0	0	1	3548	755	27	1		1	CLN6	15	68506646	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2589317	68506646	34024746	1166	104971											
ITGA11	22801	broad.mit.edu	37	chr15	68612623	68612623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccagtgtggcctccaccGccactcgctggcgtgtgctc	3	10	11	17	3	1	0	0	0	1	0	5	0	2	0	5	2	1	2	5	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:68612623G>A	uc002ari.2	-	20	2603	c.2516C>T	c.(2515-2517)GCG>GTG	p.A839V	ITGA11_uc010bib.2_Missense_Mutation_p.A839V	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	integrin, alpha 11 precursor	839	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|muscle organ development	integrin complex	collagen binding|receptor activity			kidney(2)|pancreas(1)	3					Tirofiban(DB00775)	GGCCTCCACCGCCACTCGCTG	0.582													12	25					0	0	0.001855	0	0		A	68612623	A	A	68612623	3	1	212	1	0	0	0	0	1	0	0	0	7890	1087	38	1	1094	1	ITGA11	15	68612623	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	105977	68612623	33918769	1167	104972											
LRRC49	54839	broad.mit.edu	37	chr15	71185961	71185961	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggttattcaaacatcatcGcttcctgaaaaaaacaaagt	16	11	5	9	1	2	1	2	1	0	0	4	1	3	1	1	1	2	2	1	1	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:71185961G>A	uc002asw.2	+	2	334	c.87G>A	c.(85-87)TCG>TCA	p.S29S	LRRC49_uc002asu.2_Silent_p.S19S|LRRC49_uc002asx.2_5'UTR|LRRC49_uc010ukf.1_Silent_p.S29S|LRRC49_uc002asy.2_5'Flank|LRRC49_uc002asz.2_5'Flank|THAP10_uc002asv.2_5'Flank	NM_017691	NP_060161	Q8IUZ0	LRC49_HUMAN	leucine rich repeat containing 49	29						cytoplasm|microtubule				ovary(1)	1						AAACATCATCGCTTCCTGAAA	0.299													14	18					0	0	0.004007	0	0		A	71185961	A	A	71185961	2	1	212	1	0	0	0	0	0	0	0	1	9024	1074	38	1		1	LRRC49	15	71185961	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2573338	71185961	31345431	1168	104973											
THSD4	79875	broad.mit.edu	37	chr15	71535125	71535125	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcatcccgccattccaggtCccagggagcatcttctgcta	7	10	8	16	1	3	0	1	0	2	0	6	1	6	1	4	2	2	2	4	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:71535125C>A	uc002atb.1	+	4	681	c.602C>A	c.(601-603)TCC>TAC	p.S201Y	THSD4_uc002atd.1_5'UTR	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	201	TSP type-1 1.					proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						CATTCCAGGTCCCAGGGAGCA	0.577													6	58					5.9392e-07	6.29946e-07	0.001168	1	0		A	71535125	A	A	71535125	3	1	212	1	0	0	0	0	1	0	0	0	15903	855	30	5	616	5	THSD4	15	71535125	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	349164	71535125	30996267	1169	104974											
ARIH1	25820	broad.mit.edu	37	chr15	72874426	72874426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcttacagaataaccaagCagatctagagaatgccacag	16	8	7	10	0	2	3	0	0	2	3	2	4	2	3	2	0	4	1	2	0	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:72874426C>T	uc002aut.3	+	13	1801	c.1487C>T	c.(1486-1488)GCA>GTA	p.A496V		NM_005744	NP_005735	Q9Y4X5	ARI1_HUMAN	ariadne ubiquitin-conjugating enzyme E2 binding	496					ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding				0						AATAACCAAGCAGATCTAGAG	0.378													22	48					0	0	0.014323	0	0		T	72874426	T	T	72874426	3	4	212	1	0	0	0	0	1	0	0	0	923	710	25	2	1537	2	ARIH1	15	72874426	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1339301	72874426	29656966	1170	104975											
HCN4	10021	broad.mit.edu	37	chr15	73617459	73617459	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgcagcttggtcagcatggaCgtcacgaagttggggtccgc	7	8	15	11	4	2	0	2	0	0	0	3	2	3	1	1	4	2	4	1	4	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:73617459C>T	uc002avp.2	-	6	2809	c.1815G>A	c.(1813-1815)ACG>ACA	p.T605T		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	605	Cytoplasmic (Potential).|cAMP.				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		TCAGCATGGACGTCACGAAGT	0.557													38	80					0	0	0.007835	0	0		T	73617459	T	T	73617459	2	4	212	1	0	0	0	0	0	0	0	1	7015	523	19	1		1	HCN4	15	73617459	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	743033	73617459	28913933	1171	104976											
GOLGA6A	342096	broad.mit.edu	37	chr15	74368307	74368307	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaaccaccgctggaggaccGcttctctgcagctcgaggac	8	7	12	14	3	1	0	0	0	1	0	3	4	1	3	3	3	3	5	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:74368307G>A	uc002axa.1	-	8	625	c.584C>T	c.(583-585)GCG>GTG	p.A195V		NM_001038640	NP_001033729	Q9NYA3	GOG6A_HUMAN	golgi autoantigen, golgin subfamily a, 6	195	Potential.										0						CTGGAGGACCGCTTCTCTGCA	0.557													25	201					0	0	0.008361	0	0		A	74368307	A	A	74368307	3	1	212	1	0	0	0	0	1	0	0	0	6572	1087	38	1	1541	1	GOLGA6A	15	74368307	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	750848	74368307	28163085	1172	104977											
CCDC33	80125	broad.mit.edu	37	chr15	74623083	74623083	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgcagcatttgcagaatgaGctgattcgagtgagctgggg	9	10	16	6	1	0	4	0	3	0	1	1	5	0	4	0	2	5	5	0	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:74623083G>A	uc002axo.2	+	13	1930	c.1536G>A	c.(1534-1536)GAG>GAA	p.E512E	CCDC33_uc002axp.2_Silent_p.E334E|CCDC33_uc002axq.2_Silent_p.E105E|CCDC33_uc002axr.2_Silent_p.E105E	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	715	Potential.						protein binding			ovary(3)|skin(2)	5						TGCAGAATGAGCTGATTCGAG	0.572													4	36					0	0	0.009096	0	0		A	74623083	A	A	74623083	2	1	212	1	0	0	0	0	0	0	0	1	2809	962	34	2		2	CCDC33	15	74623083	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	254776	74623083	27908309	1173	104978											
FAH	2184	broad.mit.edu	37	chr15	80454663	80454663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gttcagggacaaggagaatgCgttgatgccaaattggtatg	12	10	14	5	1	1	2	1	1	0	1	1	4	1	3	1	3	2	3	1	3	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:80454663C>T	uc002bfj.2	+	6	522	c.440C>T	c.(439-441)GCG>GTG	p.A147V	FAH_uc002bfk.1_Missense_Mutation_p.A147V|FAH_uc002bfm.1_Missense_Mutation_p.A147V|FAH_uc002bfn.1_Missense_Mutation_p.A77V|FAH_uc010unl.1_Silent_p.C168C|FAH_uc002bfl.1_Missense_Mutation_p.A147V	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	147					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						AAGGAGAATGCGTTGATGCCA	0.458									Tyrosinemia_type_1				30	70					0	0	0.012213	0	0		T	80454663	T	T	80454663	3	4	212	1	0	0	0	0	1	0	0	0	5382	768	27	1	458	1	FAH	15	80454663	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5831580	80454663	22076729	1174	104979											
ARNT2	9915	broad.mit.edu	37	chr15	80869226	80869226	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcggagaagaagatgatgagCtcagcctctgcagcaggaac	13	5	14	9	1	2	5	1	2	1	3	2	7	2	6	1	2	5	3	1	2	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:80869226C>T	uc002bfr.2	+	15	1699	c.1533C>T	c.(1531-1533)AGC>AGT	p.S511S	ARNT2_uc010unm.1_Silent_p.S500S|ARNT2_uc002bfs.2_Silent_p.S500S	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	511					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			AGATGATGAGCTCAGCCTCTG	0.582													11	134					0	0	0.010729	0	0		T	80869226	T	T	80869226	2	4	212	1	0	0	0	0	0	0	0	1	967	796	28	2		2	ARNT2	15	80869226	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	414563	80869226	21662166	1175	104980											
AKAP13	11214	broad.mit.edu	37	chr15	86266404	86266404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagttatgaaaagaaagtgCgtctcaatgagatttataca	17	11	8	5	1	1	3	1	2	1	2	2	4	1	3	0	0	2	1	0	0	8	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:86266404C>T	uc002blv.1	+	26	6768	c.6598C>T	c.(6598-6600)CGT>TGT	p.R2200C	AKAP13_uc002blu.1_Missense_Mutation_p.R2204C|AKAP13_uc010bnf.1_Missense_Mutation_p.R821C|AKAP13_uc002blw.1_Missense_Mutation_p.R665C|AKAP13_uc002blx.1_Missense_Mutation_p.R445C	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2200	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						AAAGAAAGTGCGTCTCAATGA	0.428													4	54					0	0	0.001168	0	0		T	86266404	T	T	86266404	3	4	212	1	0	0	0	0	1	0	0	0	449	768	27	1	6766	1	AKAP13	15	86266404	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	5397178	86266404	16264988	1176	104981											
AGBL1	123624	broad.mit.edu	37	chr15	86790991	86790991	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acagccatgacacagccaacGcctacgtgcagatccgacgg	12	4	10	15	4	0	2	0	1	0	1	1	3	1	2	4	1	5	1	4	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:86790991G>A	uc002blz.1	+	6	558	c.478G>A	c.(478-480)GCC>ACC	p.A160T		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	160					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						CACAGCCAACGCCTACGTGCA	0.632													16	15					0	0	0.004007	0	0		A	86790991	A	A	86790991	3	1	212	1	0	0	0	0	1	0	0	0	375	1087	38	1	496	1	AGBL1	15	86790991	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	524587	86790991	15740401	1177	104982											
C15orf42	90381	broad.mit.edu	37	chr15	90170255	90170255	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgcgctttctccaggaggCgccccatcagcagaacttat	8	9	10	14	3	2	1	1	0	1	1	4	2	2	2	3	2	2	2	3	2	2	2	rs151193931		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:90170255C>T	uc002boe.2	+	22	5671	c.5671C>T	c.(5671-5673)CGC>TGC	p.R1891C	C15orf42_uc010upv.1_RNA	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1891					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			CTCCAGGAGGCGCCCCATCAG	0.498													42	127					0	0	0.007835	0	0		T	90170255	T	T	90170255	3	4	212	1	0	0	0	0	1	0	0	0	1799	768	27	1	5757	1	C15orf42	15	90170255	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3379264	90170255	12361137	1178	104983											
C15orf58	390637	broad.mit.edu	37	chr15	90784507	90784507	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcaggcatttgaccctgtaCagttcaacttcaacaagatc	12	10	8	11	0	2	2	2	1	0	1	3	2	2	2	1	2	3	4	1	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:90784507C>T	uc002bpc.2	+	4	546	c.367C>T	c.(367-369)CAG>TAG	p.Q123*		NM_001013657	NP_001013679	Q6ZNW5	VTC2_HUMAN	hypothetical protein LOC390637	123					glucose metabolic process	cytoplasm	GDP-D-glucose phosphorylase activity				0						TGACCCTGTACAGTTCAACTT	0.577													32	103					0	0	0.013726	0	0		T	90784507	T	T	90784507	4	4	212	1	0	0	0	0	0	1	0	0	1809	479	17	4	369	4	C15orf58	15	90784507	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	614252	90784507	11746885	1179	104984											
BLM	641	broad.mit.edu	37	chr15	91333930	91333930	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggattgacaaaccggacgtgCgatttgtgattcatgcatct	10	12	11	8	3	2	2	1	2	1	0	2	5	2	4	1	2	3	1	1	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:91333930C>T	uc002bpr.2	+	15	2972	c.2875C>T	c.(2875-2877)CGA>TGA	p.R959*	BLM_uc010uqh.1_Nonsense_Mutation_p.R959*|BLM_uc010uqi.1_Nonsense_Mutation_p.R584*|BLM_uc010bnx.2_Nonsense_Mutation_p.R959*|BLM_uc002bps.1_Nonsense_Mutation_p.R521*	NM_000057	NP_000048	P54132	BLM_HUMAN	Bloom syndrome protein	959	Helicase C-terminal.				double-strand break repair via homologous recombination|G2 phase of mitotic cell cycle|G2/M transition DNA damage checkpoint|negative regulation of cell division|positive regulation of transcription, DNA-dependent|protein oligomerization|regulation of cyclin-dependent protein kinase activity|replication fork processing|replication fork protection|response to X-ray	cytoplasm|lateral element|nuclear matrix|nucleolus|PML body	ATP binding|bubble DNA binding|DNA strand annealing activity|four-way junction helicase activity|G-quadruplex DNA binding|p53 binding			ovary(3)|skin(2)|breast(1)	6	Lung NSC(78;0.0875)|all_lung(78;0.109)		Lung(145;0.189)			ACCGGACGTGCGATTTGTGAT	0.423			Mis|N|F			leukemia|lymphoma|skin squamous cell |other cancers		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Bloom_syndrome				31	77					0	0	0.004289	0	0		T	91333930	T	T	91333930	4	4	212	1	0	0	0	0	0	1	0	0	1446	760	27	1	2929	1	BLM	15	91333930	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	549423	91333930	11197462	1180	104985											
CHD2	1106	broad.mit.edu	37	chr15	93482905	93482905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggatgatgatgatgacgaaGctcccaaaaggcagactcgt	14	7	12	8	2	0	5	0	4	0	1	2	7	1	6	1	2	1	2	1	2	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:93482905G>A	uc002bsp.2	+	7	1224	c.649G>A	c.(649-651)GCT>ACT	p.A217T	CHD2_uc002bsm.1_Missense_Mutation_p.A217T|CHD2_uc002bsn.2_Missense_Mutation_p.A217T|CHD2_uc002bso.1_Missense_Mutation_p.A217T|CHD2_uc010urb.1_Missense_Mutation_p.A230T	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	217					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			TGATGACGAAGCTCCCAAAAG	0.443													24	96					0	0	0.00278	0	0		A	93482905	A	A	93482905	3	1	212	1	0	0	0	0	1	0	0	0	3328	971	34	2	671	2	CHD2	15	93482905	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2148975	93482905	9048487	1181	104986											
CHD2	1106	broad.mit.edu	37	chr15	93547920	93547920	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgtccatattacagcaggaaGtgaacctgtccccattggag	11	10	10	10	0	0	1	0	1	0	0	2	3	2	3	4	2	3	1	4	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:93547920G>A	uc002bsp.2	+	34	4927	c.4352G>A	c.(4351-4353)AGT>AAT	p.S1451N	CHD2_uc002bso.1_Missense_Mutation_p.S1451N	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	1451					regulation of transcription from RNA polymerase II promoter	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|skin(1)	2	Lung NSC(78;0.00976)|all_lung(78;0.016)		BRCA - Breast invasive adenocarcinoma(143;0.0282)|OV - Ovarian serous cystadenocarcinoma(32;0.0814)			ACAGCAGGAAGTGAACCTGTC	0.468													33	139					0	0	0.004878	0	0		A	93547920	A	A	93547920	3	1	212	1	0	0	0	0	1	0	0	0	3328	1029	36	4	4486	4	CHD2	15	93547920	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	65015	93547920	8983472	1182	104987											
OR4F15	390649	broad.mit.edu	37	chr15	102359245	102359245	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccttttctgaatccagttAtctacacattcaggaacaaa	13	13	4	11	0	3	1	1	1	2	0	5	2	5	2	2	1	2	1	2	1	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr15:102359245A>G	uc010uts.1	+	1	856	c.856A>G	c.(856-858)ATC>GTC	p.I286V		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	286	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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)			GAATCCAGTTATCTACACATT	0.398													18	51					0	0	0.00499	0	0		G	102359245	G	G	102359245	3	3	212	1	0	0	0	0	1	0	0	0	11080	449	16	3	858	3	OR4F15	15	102359245	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	8811325	102359245	172147	1183	104988											
AXIN1	8312	broad.mit.edu	37	chr16	396908	396908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagcagaaactgtagctggCgggcctcgggtctgtggaca	8	7	17	9	2	1	1	0	0	1	1	2	3	1	3	1	5	3	3	1	5	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:396908C>T	uc002cgp.1	-	2	295	c.118G>A	c.(118-120)GCC>ACC	p.A40T	AXIN1_uc002cgq.1_Missense_Mutation_p.A40T	NM_003502	NP_003493	O15169	AXIN1_HUMAN	axin 1 isoform a	40					activation of JUN kinase activity|activation of protein kinase activity|apoptosis|axial mesoderm formation|canonical Wnt receptor signaling pathway involved in neural plate anterior/posterior pattern formation|cellular protein complex assembly|cellular response to organic cyclic compound|cytoplasmic microtubule organization|determination of left/right symmetry|dorsal/ventral axis specification|embryonic eye morphogenesis|embryonic skeletal joint morphogenesis|forebrain anterior/posterior pattern formation|muscle cell development|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of fat cell differentiation|olfactory placode formation|optic placode formation|positive regulation of JNK cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity|regulation of catenin import into nucleus|tail morphogenesis|Wnt receptor signaling pathway involved in forebrain neuron fate commitment|Wnt receptor signaling pathway involved in somitogenesis	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|cell cortex|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|cytosol|lateral plasma membrane|nucleus|perinuclear region of cytoplasm|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|I-SMAD binding|p53 binding|protein complex scaffold|protein homodimerization activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			breast(1)|liver(1)	2		all_cancers(16;2.75e-07)|all_epithelial(16;1.6e-06)|Hepatocellular(16;0.000105)|Lung NSC(18;0.00774)|all_lung(18;0.0187)				CTGTAGCTGGCGGGCCTCGGG	0.612													12	37					0	0	0.013537	0	0		T	396908	T	T	396908	3	4	212	1	0	0	0	0	1	0	0	0	1237	768	27	1	2510	1	AXIN1	16	396908	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		396908	89957845	1184	104989											
SOLH	6650	broad.mit.edu	37	chr16	599089	599089	+	Silent	SNP	C	T	T	0	0	0	1	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	agcagcgtgtgaggcagtggCtgcgaccccaggagatcaac	10	5	15	11	2	1	2	1	1	0	1	1	4	1	2	2	3	4	3	2	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:599089C>T	uc002chi.2	+	5	1909	c.1546C>T	c.(1546-1548)CTG>TTG	p.L516L		NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	516	Calpain catalytic.				proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				GAGGCAGTGGCTGCGACCCCA	0.642													43	113					0	0	0.01441	0	0		T	599089	T	T	599089	2	4	212	1	0	0	0	0	0	0	0	1	14950	796	28	2		2	SOLH	16	599089	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	202181	599089	89755664	1185	104990											
C16orf11	146325	broad.mit.edu	37	chr16	613643	613643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccccgcgcctgacctcGtggtcgccgacatccactcc	4	7	9	21	5	0	1	0	1	0	0	4	2	2	1	7	1	1	0	7	1	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:613643G>A	uc002chk.2	+	2	628	c.349G>A	c.(349-351)GTG>ATG	p.V117M		NM_145270	NP_660313	P0CG20	CP011_HUMAN	hypothetical protein LOC146325	117	Pro-rich.									central_nervous_system(1)	1						GCCTGACCTCGTGGTCGCCGA	0.736													5	5					0	0	0.000602	0	0		A	613643	A	A	613643	3	1	212	1	0	0	0	0	1	0	0	0	1813	1145	40	1	351	1	C16orf11	16	613643	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	14554	613643	89741110	1186	104991											
IGFALS	3483	broad.mit.edu	37	chr16	1841355	1841355	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaggccgaggaaagcgcccGccttgacctcctggagctgg	7	6	15	13	3	0	2	0	2	0	0	1	5	1	4	5	4	2	1	5	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:1841355G>A	uc002cmy.2	-	2	1145	c.1064C>T	c.(1063-1065)GCG>GTG	p.A355V	IGFALS_uc010uvn.1_Missense_Mutation_p.A393V|IGFALS_uc010uvo.1_5'UTR	NM_004970	NP_004961	P35858	ALS_HUMAN	insulin-like growth factor binding protein, acid	355	LRR 12.				cell adhesion|signal transduction	soluble fraction	insulin-like growth factor binding				0						GAAAGCGCCCGCCTTGACCTC	0.652													15	26					0	0	0.003163	0	0		A	1841355	A	A	1841355	3	1	212	1	0	0	0	0	1	0	0	0	7593	1087	38	1	757	1	IGFALS	16	1841355	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1227712	1841355	88513398	1187	104992											
PKD1	5310	broad.mit.edu	37	chr16	2147444	2147444	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agattgctacccacaatggaCgggtcactgagcaggtccgg	10	7	13	11	2	1	2	1	1	0	1	2	3	2	3	2	4	3	2	2	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:2147444C>T	uc002cos.1	-	33	10490	c.10281G>A	c.(10279-10281)CCG>CCA	p.P3427P	PKD1_uc002cot.1_Silent_p.P3426P|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3427	Cytoplasmic (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						CCACAATGGACGGGTCACTGA	0.687													3	38					0	0	0.000602	0	0		T	2147444	T	T	2147444	2	4	212	1	0	0	0	0	0	0	0	1	11982	523	19	1		1	PKD1	16	2147444	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	306089	2147444	88207309	1188	104993											
PKD1	5310	broad.mit.edu	37	chr16	2161489	2161489	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgctgaccaccacgggggCgccctgctccacggccaggc	5	3	15	18	4	0	1	0	1	0	0	1	1	1	1	5	5	1	2	5	5	0	0	rs150710956	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:2161489C>T	uc002cos.1	-	15	3888	c.3679G>A	c.(3679-3681)GCC>ACC	p.A1227T	PKD1_uc002cot.1_Missense_Mutation_p.A1227T	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1227	PKD 7.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						ACCACGGGGGCGCCCTGCTCC	0.697													6	17					0	0	0.001168	0	0		T	2161489	T	T	2161489	3	4	212	1	0	0	0	0	1	0	0	0	11982	768	27	1	9360	1	PKD1	16	2161489	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	14045	2161489	88193264	1189	104994											
MLST8	64223	broad.mit.edu	37	chr16	2258808	2258808	+	Missense_Mutation	SNP	T	A	A	0	1	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	gtgtgtggagactggagagaTcaagagagagtatggcggcc	11	7	18	5	1	1	4	1	0	0	4	1	8	1	5	1	4	0	1	1	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:2258808T>A	uc002coz.2	+	9	1030	c.911T>A	c.(910-912)ATC>AAC	p.I304N	MLST8_uc002cpa.2_Missense_Mutation_p.I120N|MLST8_uc002cpb.2_Missense_Mutation_p.I303N|MLST8_uc010uvx.1_Missense_Mutation_p.I238N|MLST8_uc002cpc.2_Missense_Mutation_p.I304N|MLST8_uc002cpd.2_Missense_Mutation_p.I238N|MLST8_uc002cpe.2_Missense_Mutation_p.I304N|MLST8_uc002cpg.2_Missense_Mutation_p.I323N|MLST8_uc002cph.2_RNA|MLST8_uc002cpf.2_Missense_Mutation_p.I304N	NM_022372	NP_071767	Q9BVC4	LST8_HUMAN	G protein beta subunit-like	304	WD 7.				insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|T cell costimulation	cytosol	protein binding				0						ACTGGAGAGATCAAGAGAGAG	0.622													48	159					0	0	0.01441	0	0		A	2258808	A	A	2258808	3	1	212	1	0	0	0	0	1	0	0	0	9652	1435	50	5	941	5	MLST8	16	2258808	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	97319	2258808	88095945	1190	104995											
E4F1	1877	broad.mit.edu	37	chr16	2279661	2279661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggcagcagacatcagccacGcatctgaccttgttggtaag	10	9	11	11	1	2	2	1	1	1	1	2	2	2	2	2	2	2	5	2	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:2279661G>A	uc002cpm.2	+	3	448	c.400G>A	c.(400-402)GCA>ACA	p.A134T	E4F1_uc010bsi.2_Missense_Mutation_p.A134T|E4F1_uc010bsj.2_Missense_Mutation_p.A134T	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	134					cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1						CATCAGCCACGCATCTGACCT	0.627													6	123					0	0	0.001984	0	0		A	2279661	A	A	2279661	3	1	212	1	0	0	0	0	1	0	0	0	4880	1087	38	1	410	1	E4F1	16	2279661	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	20853	2279661	88075092	1191	104996											
CLDN9	9080	broad.mit.edu	37	chr16	3063540	3063540	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcgtggtgcagagcacGggccagatgcagtgcaaggt	8	7	16	10	2	0	2	0	0	0	2	1	2	1	2	2	3	5	4	2	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:3063540G>C	uc010uwo.1	+	1	1084	c.177G>C	c.(175-177)ACG>ACC	p.T59T		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	59	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						TGCAGAGCACGGGCCAGATGC	0.662													20	76					0	0	0.007413	0	0		C	3063540	C	C	3063540	2	2	212	1	0	0	0	0	0	0	0	1	3495	1103	39	5		5	CLDN9	16	3063540	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	783879	3063540	87291213	1192	104997											
OR2C1	4993	broad.mit.edu	37	chr16	3406837	3406837	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cggaacatggaagtgaagggCgcactgaggaggttgctggg	10	6	19	6	2	0	2	0	2	0	0	0	5	0	5	0	6	2	3	0	6	3	1	rs143663049		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:3406837C>T	uc002cuw.1	+	1	949	c.897C>T	c.(895-897)GGC>GGT	p.G299G		NM_012368	NP_036500	O95371	OR2C1_HUMAN	olfactory receptor, family 2, subfamily C,	299	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AAGTGAAGGGCGCACTGAGGA	0.493													13	26					0	0	0.001855	0	0		T	3406837	T	T	3406837	2	4	212	1	0	0	0	0	0	0	0	1	11011	755	27	1		1	OR2C1	16	3406837	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	343297	3406837	86947916	1193	104998											
NLRC3	197358	broad.mit.edu	37	chr16	3602259	3602259	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atccgctgggctcccatgggCccgatgctgttcttctgcag	4	11	12	14	2	2	0	0	0	2	0	4	1	4	0	3	2	2	5	3	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:3602259C>T	uc010btn.2	-	10	2700	c.2289G>A	c.(2287-2289)GGG>GGA	p.G763G	NLRC3_uc010bto.1_Missense_Mutation_p.G28D	NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	763	LRR 6.				I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CTCCCATGGGCCCGATGCTGT	0.507													14	56					0	0	0.001855	0	0		T	3602259	T	T	3602259	2	4	212	1	0	0	0	0	0	0	0	1	10487	726	26	2		2	NLRC3	16	3602259	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	195422	3602259	86752494	1194	104999											
NLRC3	197358	broad.mit.edu	37	chr16	3614879	3614879	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccattgctgcagggccccagCggggcatccggtgtcctatc	5	8	13	15	2	0	0	0	0	0	0	3	0	2	0	5	4	3	3	5	4	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:3614879C>T	uc010btn.2	-	4	570	c.159G>A	c.(157-159)CCG>CCA	p.P53P		NM_178844	NP_849172	Q7RTR2	NLRC3_HUMAN	NOD3 protein	53					I-kappaB kinase/NF-kappaB cascade|negative regulation of NF-kappaB transcription factor activity|T cell activation	cytoplasm	ATP binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						AGGGCCCCAGCGGGGCATCCG	0.672													12	26					0	0	0.001855	0	0		T	3614879	T	T	3614879	2	4	212	1	0	0	0	0	0	0	0	1	10487	755	27	1		1	NLRC3	16	3614879	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	12620	3614879	86739874	1195	105000											
BTBD12	84464	broad.mit.edu	37	chr16	3640612	3640612	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agccccctttccctgacagcGccactttgttcctcgggctc	4	11	8	18	2	0	1	0	1	0	0	4	1	2	1	5	1	2	2	5	1	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:3640612G>A	uc002cvp.2	-	12	3654	c.3027C>T	c.(3025-3027)GGC>GGT	p.G1009G		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1009	Interaction with PLK1 and TERF2-TERF2IP.				DNA double-strand break processing involved in repair via single-strand annealing|double-strand break repair via homologous recombination|nucleotide-excision repair	Slx1-Slx4 complex	enzyme activator activity|protein binding				0						CCCTGACAGCGCCACTTTGTT	0.597								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				18	62					0	0	0.00499	0	0		A	3640612	A	A	3640612	2	1	212	1	0	0	0	0	0	0	0	1	1543	1074	38	1		1	BTBD12	16	3640612	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	25733	3640612	86714141	1196	105001											
DNASE1	1773	broad.mit.edu	37	chr16	3707190	3707190	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggcagcgtttcctggtaggaCgtcatgttgatgggcgactt	6	12	15	8	3	1	1	1	1	0	0	2	3	2	2	1	4	1	4	1	4	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:3707190C>T	uc002cvr.2	+	7	2659	c.552C>T	c.(550-552)GAC>GAT	p.D184D		NM_005223	NP_005214	P24855	DNAS1_HUMAN	deoxyribonuclease I precursor	184					apoptosis|DNA catabolic process	extracellular region|nuclear envelope	actin binding|deoxyribonuclease I activity				0		Ovarian(90;0.0261)		Kidney(780;0.0556)	Dornase Alfa(DB00003)	CCTGGTAGGACGTCATGTTGA	0.627								Direct_reversal_of_damage					25	101					0	0	0.012213	0	0		T	3707190	T	T	3707190	2	4	212	1	0	0	0	0	0	0	0	1	4666	535	19	1		1	DNASE1	16	3707190	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	66578	3707190	86647563	1197	105002											
CREBBP	1387	broad.mit.edu	37	chr16	3788617	3788617	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcatggtaaacggctgtgCggaggcaacgtggccggaag	9	7	16	9	4	1	0	1	0	1	0	2	2	1	2	1	6	3	3	1	6	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:3788617C>T	uc002cvv.2	-	26	4541	c.4337G>A	c.(4336-4338)CGC>CAC	p.R1446H	CREBBP_uc002cvw.2_Missense_Mutation_p.R1408H	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1446	Cys/His-rich.				cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding	p.R1446H(3)|p.R1446L(2)|p.R1446C(2)		haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		AACGGCTGTGCGGAGGCAACG	0.408			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				9	29					0	0	0.006214	0	0		T	3788617	T	T	3788617	3	4	212	1	0	0	0	0	1	0	0	0	3864	768	27	1	3015	1	CREBBP	16	3788617	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	81427	3788617	86566136	1198	105003											
ADCY9	115	broad.mit.edu	37	chr16	4165068	4165068	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgctccacagaaggcaggCgaagccgatgtagaagagcg	13	4	15	9	3	0	3	0	0	0	3	1	6	1	3	2	2	3	3	2	2	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:4165068C>T	uc002cvx.2	-	2	915	c.376G>A	c.(376-378)GCC>ACC	p.A126T		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	126	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						AGAAGGCAGGCGAAGCCGATG	0.617													14	62					0	0	0.004007	0	0		T	4165068	T	T	4165068	3	4	212	1	0	0	0	0	1	0	0	0	301	768	27	1	3725	1	ADCY9	16	4165068	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	376451	4165068	86189685	1199	105004											
CIITA	4261	broad.mit.edu	37	chr16	11002909	11002909	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccttgagcgacacggtggCgctgtgggagtccctgcagc	5	8	16	12	3	0	1	0	1	0	0	1	3	1	2	2	3	4	2	2	3	0	1	rs143801818	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:11002909C>T	uc002dai.3	+	12	2814	c.2681C>T	c.(2680-2682)GCG>GTG	p.A894V	CIITA_uc002daj.3_Missense_Mutation_p.A895V|CIITA_uc002dak.3_Missense_Mutation_p.A310V|CIITA_uc010bup.1_Intron	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	894					interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						GACACGGTGGCGCTGTGGGAG	0.602			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								9	37					0	0	0.003163	0	0		T	11002909	T	T	11002909	3	4	212	1	0	0	0	0	1	0	0	0	3431	768	27	1	2727	1	CIITA	16	11002909	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6837841	11002909	79351844	1200	105005											
ERCC4	2072	broad.mit.edu	37	chr16	14016006	14016006	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaggtggtgttatatttgCgacaagtaggatacttgtgg	11	13	13	4	1	0	0	0	0	0	0	0	2	0	1	0	4	2	2	0	4	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:14016006C>T	uc002dce.2	+	2	335	c.326C>T	c.(325-327)GCG>GTG	p.A109V	ERCC4_uc010bva.2_Missense_Mutation_p.A109V	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	109					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						GTTATATTTGCGACAAGTAGG	0.358			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				3	21					0	0	0.004672	0	0		T	14016006	T	T	14016006	3	4	212	1	0	0	0	0	1	0	0	0	5223	768	27	1	332	1	ERCC4	16	14016006	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3013097	14016006	76338747	1201	105006											
ABCC1	4363	broad.mit.edu	37	chr16	16235070	16235070	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaaatccaggagtacggcGccccatcggacctcctgcag	10	5	12	14	3	0	1	0	0	0	1	3	4	2	3	5	3	2	2	5	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:16235070G>A	uc010bvi.2	+	31	4703	c.4528G>A	c.(4528-4530)GCC>ACC	p.A1510T	ABCC1_uc010bvj.2_Missense_Mutation_p.A1451T|ABCC1_uc010bvk.2_Missense_Mutation_p.A1454T|ABCC1_uc010bvl.2_Missense_Mutation_p.A1445T|ABCC1_uc010bvm.2_Missense_Mutation_p.A1395T|ABCC1_uc002del.3_Missense_Mutation_p.A1404T	NM_004996	NP_004987	P33527	MRP1_HUMAN	ATP-binding cassette, sub-family C, member 1	1510	ABC transporter 2.|Cytoplasmic.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process|response to drug	Golgi apparatus|integral to plasma membrane|membrane fraction|nucleus	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)	4					Daunorubicin(DB00694)|Glibenclamide(DB01016)|Probenecid(DB01032)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	GGAGTACGGCGCCCCATCGGA	0.597													38	178					0	0	0.006999	0	0		A	16235070	A	A	16235070	3	1	212	1	0	0	0	0	1	0	0	0	49	1087	38	1	4650	1	ABCC1	16	16235070	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2219064	16235070	74119683	1202	105007											
ABCC6	368	broad.mit.edu	37	chr16	16297376	16297376	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatggccttcagcagtgggcGccactggctcccttcttgcc	4	10	12	15	1	2	0	1	0	1	0	3	1	3	0	4	3	2	2	4	3	0	3	rs74315139		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:16297376G>A	uc002den.3	-	8	926	c.889C>T	c.(889-891)CGC>TGC	p.R297C	ABCC6_uc010bvo.2_RNA|ABCC6_uc010uzz.1_Missense_Mutation_p.R309C	NM_001171	NP_001162	O95255	MRP6_HUMAN	ATP-binding cassette, sub-family C, member 6	297	Cytoplasmic (By similarity).				response to drug|visual perception	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			skin(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (3;0.123)		AGCAGTGGGCGCCACTGGCTC	0.562													14	42					0	0	0.001855	0	0		A	16297376	A	A	16297376	3	1	212	1	0	0	0	0	1	0	0	0	57	1087	38	1	3718	1	ABCC6	16	16297376	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	62306	16297376	74057377	1203	105008											
C16orf62	57020	broad.mit.edu	37	chr16	19639974	19639974	+	Missense_Mutation	SNP	T	A	A	0	1	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	cttagcatcttctttttcgaTcactgggattaaacttggcc	8	16	7	10	1	3	0	1	0	2	0	4	2	3	1	1	2	2	1	1	2	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:19639974T>A	uc002dgn.1	+	17	1411	c.1399T>A	c.(1399-1401)TCA>ACA	p.S467T	C16orf62_uc002dgo.1_Missense_Mutation_p.S400T|C16orf62_uc002dgp.1_Missense_Mutation_p.S216T	NM_020314	NP_064710	Q7Z3J2	CP062_HUMAN	hypothetical protein LOC57020	467						integral to membrane				ovary(1)	1						TCTTTTTCGATCACTGGGATT	0.383													40	109					0	0	0.01441	0	0		A	19639974	A	A	19639974	3	1	212	1	0	0	0	0	1	0	0	0	1828	1435	50	5	1465	5	C16orf62	16	19639974	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3342598	19639974	70714779	1204	105009											
OTOA	146183	broad.mit.edu	37	chr16	21709120	21709120	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctctgcttcatgggtcagtgCggaacacttatgggttttgg	6	14	13	8	1	3	0	2	0	1	0	3	1	3	1	0	4	3	2	0	4	2	4	rs149668552		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:21709120C>T	uc002djh.2	+	9	765	c.764C>T	c.(763-765)GCG>GTG	p.A255V	uc002diq.3_Intron|OTOA_uc010vbj.1_Missense_Mutation_p.A176V	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1	255					sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		TGGGTCAGTGCGGAACACTTA	0.303													18	77					0	0	0.012319	0	0		T	21709120	T	T	21709120	3	4	212	1	0	0	0	0	1	0	0	0	11321	768	27	1	832	1	OTOA	16	21709120	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2069146	21709120	68645633	1205	105010											
VWA3A	146177	broad.mit.edu	37	chr16	22122251	22122251	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gccacaaggagaagctgtttGtcctgtcctttggcaccaat	9	11	10	11	0	0	1	0	0	0	1	2	2	2	1	4	2	1	3	4	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:22122251G>A	uc010vbq.1	+	8	721	c.625G>A	c.(625-627)GTC>ATC	p.V209I	VWA3A_uc010bxc.2_Missense_Mutation_p.V196I	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	209						extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		GAAGCTGTTTGTCCTGTCCTT	0.577													4	14					0	0	0.000602	0	0		A	22122251	A	A	22122251	3	1	212	1	0	0	0	0	1	0	0	0	17266	1377	48	4	655	4	VWA3A	16	22122251	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	413131	22122251	68232502	1206	105011											
USP31	57478	broad.mit.edu	37	chr16	23080714	23080714	+	Silent	SNP	A	G	G	1	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	caagagatggagaccttgtcAtctgctgcctccccaatctt	9	11	8	13	0	3	2	1	0	2	2	4	4	4	2	4	1	2	1	4	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:23080714A>G	uc002dll.2	-	16	2712	c.2712T>C	c.(2710-2712)GAT>GAC	p.D904D	USP31_uc002dlk.2_Silent_p.D176D|USP31_uc010vca.1_Silent_p.D207D|USP31_uc010bxm.2_Silent_p.D192D	NM_020718	NP_065769	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31	904	Ser-rich.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(3)|lung(3)|breast(2)|pancreas(1)|skin(1)	10				GBM - Glioblastoma multiforme(48;0.0187)		AGACCTTGTCATCTGCTGCCT	0.527													3	40					0	0	0.004672	0	0		G	23080714	G	G	23080714	2	3	212	1	0	0	0	0	0	0	0	1	17088	214	8	3		3	USP31	16	23080714	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	958463	23080714	67274039	1207	105012											
HS3ST4	9951	broad.mit.edu	37	chr16	25704428	25704428	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggcggtgggcgtagagccGcacttcttcgacaggaacta	8	7	15	11	5	1	1	0	0	1	1	2	3	1	2	1	4	2	2	1	4	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:25704428G>A	uc002dof.2	+	1	1082	c.690G>A	c.(688-690)CCG>CCA	p.P230P		NM_006040	NP_006031	Q9Y661	HS3S4_HUMAN	heparan sulfate D-glucosaminyl	230	Substrate binding (By similarity).|Lumenal (Potential).				heparan sulfate proteoglycan metabolic process	extracellular region|Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 1 activity			large_intestine(1)|breast(1)	2				GBM - Glioblastoma multiforme(48;0.0988)		GCGTAGAGCCGCACTTCTTCG	0.677													7	27					0	0	0.00308	0	0		A	25704428	A	A	25704428	2	1	212	1	0	0	0	0	0	0	0	1	7383	1074	38	1		1	HS3ST4	16	25704428	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2623714	25704428	64650325	1208	105013											
GSG1L	146395	broad.mit.edu	37	chr16	27840132	27840132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcccggaagtacttgatggCctcagggtctatgaaggtcg	8	10	13	10	2	2	2	1	2	1	0	4	3	3	3	2	4	1	1	2	4	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:27840132C>T	uc002doz.2	-	5	893	c.808G>A	c.(808-810)GCC>ACC	p.A270T	GSG1L_uc010bya.1_Missense_Mutation_p.A219T|GSG1L_uc010bxz.1_Missense_Mutation_p.A115T|GSG1L_uc002doy.2_Missense_Mutation_p.A115T	NM_001109763	NP_001103233	Q6UXU4	GSG1L_HUMAN	GSG1-like isoform 1	270						integral to membrane				ovary(1)	1						TACTTGATGGCCTCAGGGTCT	0.617													25	66					0	0	0.00632	0	0		T	27840132	T	T	27840132	3	4	212	1	0	0	0	0	1	0	0	0	6837	739	26	2	199	2	GSG1L	16	27840132	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2135704	27840132	62514621	1209	105014											
XPO6	23214	broad.mit.edu	37	chr16	28167623	28167623	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgctgccgttaactgacGccatctttctggcccggatg	5	11	12	13	3	2	1	0	1	2	0	2	2	2	2	3	3	3	3	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:28167623G>A	uc002dpa.1	-	7	1370	c.869C>T	c.(868-870)GCG>GTG	p.A290V	XPO6_uc002dpb.1_Missense_Mutation_p.A276V|XPO6_uc010vcp.1_Missense_Mutation_p.A290V	NM_015171	NP_055986	Q96QU8	XPO6_HUMAN	exportin 6	290					protein export from nucleus		protein binding|protein transporter activity			ovary(1)|skin(1)	2						GTTAACTGACGCCATCTTTCT	0.567													24	83					0	0	0.003954	0	0		A	28167623	A	A	28167623	3	1	212	1	0	0	0	0	1	0	0	0	17474	1087	38	1	2580	1	XPO6	16	28167623	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	327491	28167623	62187130	1210	105015											
SPNS1	83985	broad.mit.edu	37	chr16	28993310	28993310	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggctccggcattcctgctgCgttcccgcgtggtccttggg	1	11	15	14	4	0	0	0	0	0	0	4	0	4	0	4	4	2	4	4	4	0	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:28993310C>T	uc010vdi.1	+	8	1038	c.898C>T	c.(898-900)CGT>TGT	p.R300C	uc010vct.1_Intron|SPNS1_uc002drx.2_Missense_Mutation_p.R227C|SPNS1_uc002dsa.2_Missense_Mutation_p.R300C|SPNS1_uc002drz.2_Intron|SPNS1_uc010byp.2_Intron|SPNS1_uc010byq.1_Missense_Mutation_p.R232C|LAT_uc010vdj.1_5'Flank	NM_001142448	NP_001135920	Q9H2V7	SPNS1_HUMAN	spinster homolog 1 isoform 1	300					lipid transport|transmembrane transport	integral to membrane|mitochondrial inner membrane	protein binding				0						ATTCCTGCTGCGTTCCCGCGT	0.637											OREG0023712	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	28					0	0	0.008871	0	0		T	28993310	T	T	28993310	3	4	212	1	0	0	0	0	1	0	0	0	15099	768	27	1	924	1	SPNS1	16	28993310	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	825687	28993310	61361443	1211	105016											
MVP	9961	broad.mit.edu	37	chr16	29847055	29847055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggtcaccacagtaggggCgtacctcccagcggtgtttg	6	9	14	12	2	1	0	1	0	0	0	2	0	2	0	3	4	2	4	3	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:29847055C>T	uc002dui.2	+	6	692	c.608C>T	c.(607-609)GCG>GTG	p.A203V	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010bzh.1_RNA|MVP_uc010vdz.1_Intron|MVP_uc002duj.2_Missense_Mutation_p.A203V|MVP_uc010vea.1_5'UTR	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	203	MVP 4.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						ACAGTAGGGGCGTACCTCCCA	0.622													7	12					0	0	0.004482	0	0		T	29847055	T	T	29847055	3	4	212	1	0	0	0	0	1	0	0	0	10014	768	27	1	626	1	MVP	16	29847055	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	853745	29847055	60507698	1212	105017											
TAOK2	9344	broad.mit.edu	37	chr16	29998812	29998812	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcagatgggtgcggcagcaGggcccccgggtgcgccgggg	4	3	22	12	4	0	1	0	0	0	1	0	1	0	1	3	7	3	3	3	7	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:29998812G>T	uc002dva.1	+	16	4002	c.3219G>T	c.(3217-3219)CAG>CAT	p.Q1073H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.Q1080H|TAOK2_uc002dvd.1_Missense_Mutation_p.Q900H	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	1073					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						TGCGGCAGCAGGGCCCCCGGG	0.692													14	23					0.000308642	0.000317638	0.003163	1	0		T	29998812	T	T	29998812	3	4	212	1	0	0	0	0	1	0	0	0	15573	991	35	5	3277	5	TAOK2	16	29998812	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	151757	29998812	60355941	1213	105018											
ITGAL	3683	broad.mit.edu	37	chr16	30522245	30522245	+	Frame_Shift_Del	DEL	G	-	-																															tacactggtaaacagctcctGgggggactcggttgaattgc																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:30522245delG	uc002dyi.3	+	23	2839	c.2663delG	c.(2662-2664)TGGfs	p.W888fs	ITGAL_uc002dyj.3_Frame_Shift_Del_p.W804fs|ITGAL_uc010vev.1_Frame_Shift_Del_p.W122fs	NM_002209	NP_002200	P20701	ITAL_HUMAN	integrin alpha L isoform a precursor	888	Extracellular (Potential).				blood coagulation|heterophilic cell-cell adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|leukocyte migration|regulation of immune response|T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell	integrin complex	cell adhesion molecule binding|receptor activity			ovary(3)|lung(3)|central_nervous_system(3)|breast(1)	10					Efalizumab(DB00095)	AACAGCTCCTGGGGGGACTCG	0.562													20	44	---	---	---	---						.	-	30522245	-	-	30522245	7	5	212	1	0	1	0	1	0	0	0	0	7902	1357	47	0	2753	0	ITGAL	16	30522245	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	523433	30522245	59832508	1214	105019											
ORAI3	93129	broad.mit.edu	37	chr16	30960725	30960725	+	Missense_Mutation	SNP	A	G	G	1	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	accgcggctacctggacctcAtgggggccagtcagcactcg	7	6	13	15	3	2	0	2	0	0	0	3	1	2	1	4	4	2	2	4	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:30960725A>G	uc002eac.2	+	1	321	c.115A>G	c.(115-117)ATG>GTG	p.M39V		NM_152288	NP_689501	Q9BRQ5	ORAI3_HUMAN	ORAI calcium release-activated calcium modulator	39						integral to membrane	protein binding				0						CCTGGACCTCATGGGGGCCAG	0.711													5	9					0	0	0.001168	0	0		G	30960725	G	G	30960725	3	3	212	1	0	0	0	0	1	0	0	0	11278	217	8	3	117	3	ORAI3	16	30960725	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	438480	30960725	59394028	1215	105020											
BCKDK	10295	broad.mit.edu	37	chr16	31123326	31123326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctggacatgcatagtggcGcccagtcaggacccatgcac	10	7	11	13	1	2	0	1	0	1	0	2	2	2	2	2	3	2	2	2	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:31123326G>A	uc002eaw.3	+	11	1388	c.1072G>A	c.(1072-1074)GCC>ACC	p.A358T	BCKDK_uc002eav.3_Missense_Mutation_p.A358T|BCKDK_uc010cah.2_RNA|BCKDK_uc010cai.2_Missense_Mutation_p.A328T	NM_005881	NP_005872	O14874	BCKD_HUMAN	branched chain ketoacid dehydrogenase kinase	358	Histidine kinase.				branched chain family amino acid catabolic process|peptidyl-histidine phosphorylation	mitochondrial alpha-ketoglutarate dehydrogenase complex	[3-methyl-2-oxobutanoate dehydrogenase (acetyl-transferring)] kinase activity|ATP binding|protein binding|protein serine/threonine kinase activity|two-component sensor activity			stomach(1)|breast(1)	2						GCATAGTGGCGCCCAGTCAGG	0.637													16	29					0	0	0.00499	0	0		A	31123326	A	A	31123326	3	1	212	1	0	0	0	0	1	0	0	0	1362	1087	38	1	1110	1	BCKDK	16	31123326	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	162601	31123326	59231427	1216	105021											
ADCY7	113	broad.mit.edu	37	chr16	50346071	50346071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cgtcctgccagcccacgtggCtgcccactttatcggtgaca	6	9	10	16	3	0	1	0	1	0	0	2	1	1	1	4	2	3	1	4	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:50346071C>T	uc002egd.1	+	20	2841	c.2573C>T	c.(2572-2574)GCT>GTT	p.A858V		NM_001114	NP_001105	P51828	ADCY7_HUMAN	adenylate cyclase 7	858	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to ethanol|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of cAMP biosynthetic process|synaptic transmission|transmembrane transport|water transport	integral to membrane|plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			skin(1)	1		all_cancers(37;0.0127)		GBM - Glioblastoma multiforme(240;0.195)	Bromocriptine(DB01200)	GCCCACGTGGCTGCCCACTTT	0.592													12	37					0	0	0.001855	0	0		T	50346071	T	T	50346071	3	4	212	1	0	0	0	0	1	0	0	0	299	797	28	2	2651	2	ADCY7	16	50346071	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	19222745	50346071	40008682	1217	105022											
CYLD	1540	broad.mit.edu	37	chr16	50783604	50783604	+	Translation_Start_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attagtattttgaagttaatAtcacaatgagttcaggctta	14	16	7	4	0	2	2	2	2	0	0	2	2	2	2	0	1	0	4	0	1	7	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:50783604A>G	uc002egp.1	+	4	410	c.-5A>G	c.(-7--3)ATATC>ATGTC		CYLD_uc002egn.1_Translation_Start_Site|CYLD_uc002ego.2_Translation_Start_Site|CYLD_uc010cbs.1_Translation_Start_Site|CYLD_uc002egq.1_Translation_Start_Site|CYLD_uc002egr.1_Translation_Start_Site|CYLD_uc002egs.1_Translation_Start_Site	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD						cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				TGAAGTTAATATCACAATGAG	0.363			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				12	19					0	0	0.010729	0	0		G	50783604	G	G	50783604	1	3	212	1	0	0	0	0	0	0	0	0	4146	464	16	3		3	CYLD	16	50783604	Translation_Start_Site	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	437533	50783604	39571149	1218	105023											
MMP2	4313	broad.mit.edu	37	chr16	55513487	55513487	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacgccgccgccgcgccgtcGcccatcatcaagttccccgg	5	5	10	21	8	2	0	2	0	0	0	4	0	3	0	7	1	0	1	7	1	1	1	rs146220690	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:55513487G>A	uc002ehz.3	+	1	407	c.96G>A	c.(94-96)TCG>TCA	p.S32S	MMP2_uc010vhd.1_5'Flank|MMP2_uc010ccc.2_5'Flank	NM_004530	NP_004521	P08253	MMP2_HUMAN	matrix metalloproteinase 2 isoform a	32					angiogenesis|collagen catabolic process|proteolysis	extracellular space|membrane|nucleus|proteinaceous extracellular matrix	metalloendopeptidase activity|protein binding|zinc ion binding			large_intestine(3)|ovary(3)|lung(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)	11		Renal(780;0.00183)|Breast(268;0.00354)|Hepatocellular(780;0.00826)|all_neural(199;0.0189)		UCEC - Uterine corpus endometrioid carcinoma (183;0.0185)|all cancers(182;7.16e-45)|Epithelial(162;5.26e-37)|GBM - Glioblastoma multiforme(240;9e-08)|Kidney(780;0.00227)|BRCA - Breast invasive adenocarcinoma(181;0.00786)	Marimastat(DB00786)|Sulindac(DB00605)	CCGCGCCGTCGCCCATCATCA	0.657													8	16					0	0	0.006214	0	0		A	55513487	A	A	55513487	2	1	212	1	0	0	0	0	0	0	0	1	9676	1074	38	1		1	MMP2	16	55513487	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4729883	55513487	34841266	1219	105024											
SLC6A2	6530	broad.mit.edu	37	chr16	55705876	55705876	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctatgctgtcatcctgatcGccctgtacgttggcttctac	5	14	9	13	2	2	1	1	1	1	0	4	1	3	1	2	1	3	5	2	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:55705876G>A	uc002eif.2	+	4	544	c.433G>A	c.(433-435)GCC>ACC	p.A145T	SLC6A2_uc010ccd.2_Missense_Mutation_p.A145T|SLC6A2_uc002eig.2_Missense_Mutation_p.A145T|SLC6A2_uc002eih.2_Missense_Mutation_p.A145T|SLC6A2_uc002eii.2_Missense_Mutation_p.A40T	NM_001043	NP_001034	P23975	SC6A2_HUMAN	solute carrier family 6 member 2	145	Helical; Name=3; (Potential).				synaptic transmission	integral to plasma membrane|membrane fraction	norepinephrine:sodium symporter activity			lung(4)|ovary(2)|pancreas(2)	8				BRCA - Breast invasive adenocarcinoma(181;0.01)|Kidney(780;0.0267)	Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Atomoxetine(DB00289)|Bethanidine(DB00217)|Bupropion(DB01156)|Clomipramine(DB01242)|Cocaine(DB00907)|Debrisoquin(DB04840)|Desipramine(DB01151)|Diethylpropion(DB00937)|Doxepin(DB01142)|Duloxetine(DB00476)|Ergotamine(DB00696)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Imipramine(DB00458)|Maprotiline(DB00934)|Mazindol(DB00579)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Nefazodone(DB01149)|Norepinephrine(DB00368)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Protriptyline(DB00344)|Reboxetine(DB00234)|Sibutramine(DB01105)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)	CATCCTGATCGCCCTGTACGT	0.602													15	27					0	0	0.004007	0	0		A	55705876	A	A	55705876	3	1	212	1	0	0	0	0	1	0	0	0	14708	1087	38	1	534	1	SLC6A2	16	55705876	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	192389	55705876	34648877	1220	105025											
FAM192A	80011	broad.mit.edu	37	chr16	57207746	57207746	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctctttttgataataaggttAccatcatcccctccatccat	10	15	3	13	0	2	1	1	1	1	0	5	1	5	1	5	1	1	1	5	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:57207746A>G	uc010vhk.1	-	2	280	c.21T>C	c.(19-21)GGT>GGC	p.G7G	FAM192A_uc002ekz.3_Silent_p.G7G|FAM192A_uc002ekv.3_Intron|FAM192A_uc002ekw.3_Silent_p.G7G|FAM192A_uc002ekx.3_Silent_p.G7G|FAM192A_uc002eky.3_Silent_p.G7G|FAM192A_uc010ccx.2_Silent_p.G7G	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	7						nucleus					0						TAATAAGGTTACCATCATCCC	0.343													38	67					0	0	0.010771	0	0		G	57207746	G	G	57207746	2	3	212	1	0	0	0	0	0	0	0	1	5534	378	14	3		3	FAM192A	16	57207746	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1501870	57207746	33147007	1221	105026											
CCDC135	84229	broad.mit.edu	37	chr16	57760043	57760043	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacgtggcagagcgcGtgtttctggtcgcggaggag	7	7	20	7	5	1	1	0	0	1	1	2	5	1	5	0	6	1	2	0	6	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:57760043G>A	uc002emi.2	+	13	1911	c.1822G>A	c.(1822-1824)GTG>ATG	p.V608M	CCDC135_uc002emj.2_Missense_Mutation_p.V608M|CCDC135_uc002emk.2_Missense_Mutation_p.V543M	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	608						cytoplasm				central_nervous_system(1)	1						GGCAGAGCGCGTGTTTCTGGT	0.627													10	24					0	0	0.010729	0	0		A	57760043	A	A	57760043	3	1	212	1	0	0	0	0	1	0	0	0	2772	1145	40	1	1868	1	CCDC135	16	57760043	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	552297	57760043	32594710	1222	105027											
CDH11	1009	broad.mit.edu	37	chr16	65016160	65016160	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgatgtgcacgttggctgcCtctaccttcaagctataggc	7	12	10	12	2	2	0	1	0	1	0	3	1	2	0	2	2	4	4	2	2	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:65016160C>G	uc002eoi.2	-	8	1478	c.1044G>C	c.(1042-1044)GAG>GAC	p.E348D	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.E348D|CDH11_uc010vin.1_Missense_Mutation_p.E222D|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	348	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CGTTGGCTGCCTCTACCTTCA	0.453			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			18	32					0	0	0.007413	0	0		G	65016160	G	G	65016160	3	3	212	1	0	0	0	0	1	0	0	0	3100	680	24	5	1370	5	CDH11	16	65016160	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7256117	65016160	25338593	1223	105028											
FAM65A	79567	broad.mit.edu	37	chr16	67574500	67574500	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agatctgcatgaaatatgggCgtcagcgctggaaactacgg	12	8	13	8	3	2	2	1	1	1	1	2	3	2	3	0	3	4	2	0	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:67574500C>T	uc010vjp.1	+	10	850	c.754C>T	c.(754-756)CGT>TGT	p.R252C	FAM65A_uc010cei.1_Missense_Mutation_p.R74C|FAM65A_uc002eth.2_Missense_Mutation_p.R232C|FAM65A_uc010cej.2_Missense_Mutation_p.R235C|FAM65A_uc002eti.1_Missense_Mutation_p.R195C|FAM65A_uc010vjq.1_Missense_Mutation_p.R246C|FAM65A_uc002etj.1_Missense_Mutation_p.R231C|FAM65A_uc002etk.2_Missense_Mutation_p.R231C	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	236						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		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)		GAAATATGGGCGTCAGCGCTG	0.537													31	41					0	0	0.009535	0	0		T	67574500	T	T	67574500	3	4	212	1	0	0	0	0	1	0	0	0	5613	768	27	1	728	1	FAM65A	16	67574500	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2558340	67574500	22780253	1224	105029											
ESRP2	80004	broad.mit.edu	37	chr16	68269866	68269866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cgaagaggacgaccagtgatCcgggccaggggcaggggtcc	9	3	18	11	3	0	2	0	1	0	1	2	5	2	3	4	6	0	1	4	6	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:68269866C>T	uc010cfa.1	-	1	271	c.83G>A	c.(82-84)GGA>GAA	p.G28E	ESRP2_uc002evq.1_Missense_Mutation_p.G28E	NM_024939	NP_079215	Q9H6T0	ESRP2_HUMAN	RNA binding motif protein 35B	28					mRNA processing|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding|nucleotide binding			ovary(1)	1						GACCAGTGATCCgggccaggg	0.393													12	1					0	0	0.00245	0	0		T	68269866	T	T	68269866	3	4	212	1	0	0	0	0	1	0	0	0	5267	855	30	4	2130	4	ESRP2	16	68269866	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	695366	68269866	22084887	1225	105030											
PLA2G15	23659	broad.mit.edu	37	chr16	68293534	68293534	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acgccaccaccctggcctatCtgaaacgtgtgctccttggg	7	9	10	15	2	1	1	0	1	1	0	2	1	2	1	5	2	2	1	5	2	2	2	rs140573964	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:68293534C>T	uc002evr.2	+	6	1296	c.1213C>T	c.(1213-1215)CTG>TTG	p.L405L	PLA2G15_uc010vld.1_3'UTR|PLA2G15_uc010vle.1_Silent_p.L311L|PLA2G15_uc010vlf.1_Silent_p.L205L|PLA2G15_uc002evs.2_Silent_p.L226L	NM_012320	NP_036452	Q8NCC3	PAG15_HUMAN	lysophospholipase 3 (lysosomal phospholipase A2)	405					fatty acid catabolic process	extracellular region|lysosome	lysophospholipase activity|phosphatidylcholine-sterol O-acyltransferase activity|phospholipid binding			ovary(1)	1						CCTGGCCTATCTGAAACGTGT	0.662													4	57					0	0	0.000602	0	0		T	68293534	T	T	68293534	2	4	212	1	0	0	0	0	0	0	0	1	12011	912	32	4		4	PLA2G15	16	68293534	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	23668	68293534	22061219	1226	105031											
SMPD3	55512	broad.mit.edu	37	chr16	68405290	68405290	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccagctccgttcctggcctgGcccccaggcacagggtcgtc	4	7	12	18	2	0	0	0	0	0	0	4	0	2	0	6	4	1	3	6	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:68405290G>A	uc002ewa.2	-	3	1217	c.795C>T	c.(793-795)GGC>GGT	p.G265G	SMPD3_uc010cfe.2_Silent_p.G265G|SMPD3_uc010vlh.1_Silent_p.G265G	NM_018667	NP_061137	Q9NY59	NSMA2_HUMAN	neutral sphingomyelin phosphodiesterase 3	265	Lumenal (Potential).				cell cycle|multicellular organismal development|sphingomyelin catabolic process	Golgi membrane|integral to membrane|plasma membrane	metal ion binding|sphingomyelin phosphodiesterase activity			skin(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0184)|Epithelial(162;0.0785)	Phosphatidylserine(DB00144)	TCCTGGCCTGGCCCCCAGGCA	0.711													11	7					0	0	0.001855	0	0		A	68405290	A	A	68405290	2	1	212	1	0	0	0	0	0	0	0	1	14831	1190	42	2		2	SMPD3	16	68405290	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	111756	68405290	21949463	1227	105032											
SF3B3	23450	broad.mit.edu	37	chr16	70602280	70602280	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catctgggttcgctacaagcGtaatgaaaaccagcttatca	13	10	8	10	2	2	1	1	1	1	0	3	1	2	1	1	1	4	4	1	1	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:70602280G>A	uc002ezf.2	+	22	3258	c.3047G>A	c.(3046-3048)CGT>CAT	p.R1016H		NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3	1016					protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				CGCTACAAGCGTAATGAAAAC	0.473													4	53					0	0	0.009096	0	0		A	70602280	A	A	70602280	3	1	212	1	0	0	0	0	1	0	0	0	14177	1145	40	1	3129	1	SF3B3	16	70602280	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2196990	70602280	19752473	1228	105033											
VAC14	55697	broad.mit.edu	37	chr16	70820182	70820182	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctttccggctgtgggggtgcTgagacagggcaaactcctgg	6	9	16	10	1	0	1	0	1	0	1	2	2	2	1	2	5	2	3	2	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:70820182T>G	uc002ezm.2	-	2	449	c.191A>C	c.(190-192)CAG>CCG	p.Q64P	VAC14_uc010cfw.2_Intron|VAC14_uc002ezn.2_5'UTR	NM_018052	NP_060522	Q08AM6	VAC14_HUMAN	Vac14 homolog	64					interspecies interaction between organisms	endoplasmic reticulum|endosome membrane|microsome	protein binding|receptor activity			pancreas(1)|skin(1)	2		Ovarian(137;0.0699)				GTGGGGGTGCTGAGACAGGGC	0.617													25	52					0	0	0.005443	0	0		G	70820182	G	G	70820182	3	3	212	1	0	0	0	0	1	0	0	0	17137	1580	55	5	2229	5	VAC14	16	70820182	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	217902	70820182	19534571	1229	105034											
TXNL4B	54957	broad.mit.edu	37	chr16	72120608	72120608	+	Frame_Shift_Del	DEL	C	-	-																															ggactttggacaataagcttCcccctcattgctcctcgata																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:72120608delC	uc002fca.2	-	4	689	c.378delG	c.(376-378)GGGfs	p.G126fs	TXNL4B_uc010cgl.2_Intron|TXNL4B_uc010vmn.1_Frame_Shift_Del_p.G126fs|TXNL4B_uc010vmo.1_Frame_Shift_Del_p.G126fs	NM_017853	NP_060323	Q9NX01	TXN4B_HUMAN	thioredoxin-like 4B	126					mitosis|mRNA processing|RNA splicing	spliceosomal complex				ovary(1)	1						CAATAAGCTTCCCCCTCATTG	0.368													34	52	---	---	---	---						.	-	72120608	-	-	72120608	7	5	212	1	0	1	0	1	0	0	0	0	16832	842	30	0	75	0	TXNL4B	16	72120608	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	1300426	72120608	18234145	1230	105035											
CDYL2	124359	broad.mit.edu	37	chr16	80642064	80642064	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtgggccagaagacctgCgacaccagccccctgctgca	8	5	13	15	1	0	2	0	0	0	2	0	3	0	2	5	2	4	2	5	2	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:80642064C>T	uc002ffs.2	-	6	1392	c.1287G>A	c.(1285-1287)TCG>TCA	p.S429S		NM_152342	NP_689555	Q8N8U2	CDYL2_HUMAN	chromodomain protein, Y-like 2	429						nucleus	catalytic activity|protein binding			central_nervous_system(1)	1						AGAAGACCTGCGACACCAGCC	0.622													2	3					0	0	0.004672	0	0		T	80642064	T	T	80642064	2	4	212	1	0	0	0	0	0	0	0	1	3189	755	27	1		1	CDYL2	16	80642064	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8521456	80642064	9712689	1231	105036											
HSD17B2	3294	broad.mit.edu	37	chr16	82124512	82124512	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccattattcccataggagggGccccaatggaaaggctggca	11	7	12	11	0	0	0	0	0	0	0	1	2	1	2	4	6	0	2	4	6	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:82124512G>A	uc002fgv.2	+	4	842	c.670G>A	c.(670-672)GCC>ACC	p.A224T		NM_002153	NP_002144	P37059	DHB2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 2	224					response to retinoic acid|steroid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|binding|estradiol 17-beta-dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2					NADH(DB00157)	CATAGGAGGGGCCCCAATGGA	0.338													9	16					0	0	0.004482	0	0		A	82124512	A	A	82124512	3	1	212	1	0	0	0	0	1	0	0	0	7400	1203	42	2	684	2	HSD17B2	16	82124512	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1482448	82124512	8230241	1232	105037											
MBTPS1	8720	broad.mit.edu	37	chr16	84125426	84125426	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taaaatggcatagttgaaggCgtccaaaaaccaagatgtgt	16	9	10	6	1	0	2	0	1	0	1	1	2	1	2	2	2	1	2	2	2	7	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:84125426C>T	uc002fhi.2	-	7	1376	c.874G>A	c.(874-876)GCC>ACC	p.A292T		NM_003791	NP_003782	Q14703	MBTP1_HUMAN	membrane-bound transcription factor site-1	292	Serine protease.|Lumenal (Potential).				cholesterol metabolic process|proteolysis	endoplasmic reticulum lumen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	serine-type endopeptidase activity			ovary(2)	2						TAGTTGAAGGCGTCCAAAAAC	0.388													8	38					0	0	0.006214	0	0		T	84125426	T	T	84125426	3	4	212	1	0	0	0	0	1	0	0	0	9379	768	27	1	2352	1	MBTPS1	16	84125426	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2000914	84125426	6229327	1233	105038											
KLHDC4	54758	broad.mit.edu	37	chr16	87790005	87790005	+	Frame_Shift_Del	DEL	T	-	-																															gaaaaaaatatatactttacTttttggccgttgaaatattc																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:87790005delT	uc002fki.2	-	3	316	c.270delA	c.(268-270)AAAfs	p.K90fs	KLHDC4_uc002fkj.2_Frame_Shift_Del_p.K90fs|KLHDC4_uc002fkk.2_Intron|KLHDC4_uc002fkl.2_Intron|KLHDC4_uc010chu.1_5'UTR	NM_017566	NP_060036	Q8TBB5	KLDC4_HUMAN	kelch domain containing 4	90	Kelch 1.									pancreas(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0283)		TATACTTTACTTTTTGGCCGT	0.393													20	32	---	---	---	---						.	-	87790005	-	-	87790005	7	5	212	1	0	1	0	1	0	0	0	0	8374	1623	56	0	1328	0	KLHDC4	16	87790005	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	3664579	87790005	2564748	1234	105039											
CBFA2T3	863	broad.mit.edu	37	chr16	88945709	88945709	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcctgctggttgatgaccGtcagggcgtcctcggaggcc	4	9	14	14	3	1	2	1	2	0	0	4	3	3	3	5	4	1	2	5	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:88945709G>A	uc002fmm.1	-	11	1817	c.1631C>T	c.(1630-1632)ACG>ATG	p.T544M	CBFA2T3_uc002fml.1_Missense_Mutation_p.T458M|CBFA2T3_uc002fmk.1_Missense_Mutation_p.T43M	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	544					cell proliferation|granulocyte differentiation	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)|ovary(1)	4				BRCA - Breast invasive adenocarcinoma(80;0.0275)		GTTGATGACCGTCAGGGCGTC	0.711			T	RUNX1	AML								9	35					0	0	0.004482	0	0		A	88945709	A	A	88945709	3	1	212	1	0	0	0	0	1	0	0	0	2701	1145	40	1	338	1	CBFA2T3	16	88945709	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1155704	88945709	1409044	1235	105040											
ANKRD11	29123	broad.mit.edu	37	chr16	89349483	89349483	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtcggaggcataggcctccCgtccttcctccttctcctgg	3	12	10	16	2	1	0	0	0	1	0	7	1	5	1	6	4	0	1	6	4	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:89349483C>A	uc002fmx.1	-	9	3928	c.3467G>T	c.(3466-3468)CGG>CTG	p.R1156L	ANKRD11_uc002fmy.1_Missense_Mutation_p.R1156L|ANKRD11_uc002fnc.1_Missense_Mutation_p.R1156L|ANKRD11_uc002fnb.1_Missense_Mutation_p.R1113L	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	1156	Lys-rich.					nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		ATAGGCCTCCCGTCCTTCCTC	0.612													28	57					1.17739e-12	1.31091e-12	0.005443	1	0		A	89349483	A	A	89349483	3	1	212	1	0	0	0	0	1	0	0	0	639	652	23	5	4544	5	ANKRD11	16	89349483	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	403774	89349483	1005270	1236	105041											
ANKRD11	29123	broad.mit.edu	37	chr16	89351149	89351149	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttctccgacagggaggctcGcttcctgtgctcctgcctct	3	12	10	16	2	2	0	0	0	2	0	6	2	4	1	4	2	2	3	4	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr16:89351149G>A	uc002fmx.1	-	9	2262	c.1801C>T	c.(1801-1803)CGA>TGA	p.R601*	ANKRD11_uc002fmy.1_Nonsense_Mutation_p.R601*|ANKRD11_uc002fnc.1_Nonsense_Mutation_p.R601*|ANKRD11_uc002fnb.1_Nonsense_Mutation_p.R558*	NM_013275	NP_037407	Q6UB99	ANR11_HUMAN	ankyrin repeat domain 11	601						nucleus				ovary(4)|large_intestine(1)|central_nervous_system(1)	6		all_hematologic(23;0.00824)|Colorectal(91;0.0475)		Epithelial(1;5.33e-11)|all cancers(4;2.6e-09)|OV - Ovarian serous cystadenocarcinoma(4;2.29e-07)|BRCA - Breast invasive adenocarcinoma(80;0.0142)		AGGGAGGCTCGCTTCCTGTGC	0.567													12	18					0	0	0.001855	0	0		A	89351149	A	A	89351149	4	1	212	1	0	0	0	0	0	1	0	0	639	1095	38	1	6210	1	ANKRD11	16	89351149	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1666	89351149	1003604	1237	105042											
MNT	4335	broad.mit.edu	37	chr17	2290499	2290499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatggggggtgtggcaggcGccagttgcaccgcagggctg	6	6	19	10	2	0	0	0	0	0	0	0	0	0	0	2	6	1	5	2	6	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:2290499G>A	uc002fur.2	-	6	1697	c.1445C>T	c.(1444-1446)GCG>GTG	p.A482V		NM_020310	NP_064706	Q99583	MNT_HUMAN	MAX binding protein	482					multicellular organismal development|negative regulation of cell proliferation|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			skin(1)	1				Colorectal(2;1.37e-05)|READ - Rectum adenocarcinoma(2;8.68e-05)		TGTGGCAGGCGCCAGTTGCAC	0.677													7	4					0	0	0.001984	0	0		A	2290499	A	A	2290499	3	1	212	1	0	0	0	0	1	0	0	0	9696	1087	38	1	307	1	MNT	17	2290499	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		2290499	78904711	1238	105043											
OR3A3	8392	broad.mit.edu	37	chr17	3324785	3324785	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agaaatactgatgttcagggCgctctgtgtcagctacttgt	9	13	11	8	1	3	2	2	1	1	1	3	2	3	2	0	1	3	3	0	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:3324785C>T	uc010vrd.1	+	1	924	c.924C>T	c.(922-924)GGC>GGT	p.G308G		NM_012373	NP_036505	P47888	OR3A3_HUMAN	olfactory receptor, family 3, subfamily A,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGTTCAGGGCGCTCTGTGTC	0.483													26	19					0	0	0.004656	0	0		T	3324785	T	T	3324785	2	4	212	1	0	0	0	0	0	0	0	1	11058	755	27	1		1	OR3A3	17	3324785	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1034286	3324785	77870425	1239	105044											
NUP88	4927	broad.mit.edu	37	chr17	5322707	5322707	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggcgggctcttcgccgccGccgctggggccccgaaggcg	3	4	18	16	7	1	0	0	0	1	0	2	1	1	0	5	5	0	2	5	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:5322707G>A	uc002gbo.1	-	1	290	c.264C>T	c.(262-264)GGC>GGT	p.G88G	NUP88_uc010vsx.1_Silent_p.G88G|NUP88_uc010cle.1_Silent_p.G88G|NUP88_uc010vsy.1_Silent_p.G88G|RPAIN_uc010vsz.1_5'Flank|RPAIN_uc002gbp.1_5'Flank|RPAIN_uc010vta.1_5'Flank|RPAIN_uc002gbq.2_5'Flank|RPAIN_uc010vtb.1_5'Flank|RPAIN_uc002gbs.2_5'Flank|RPAIN_uc002gbt.2_5'Flank|RPAIN_uc002gbu.2_5'Flank|RPAIN_uc002gbv.2_5'Flank|RPAIN_uc002gbr.2_5'Flank|RPAIN_uc002gbw.2_5'Flank	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	88					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						CTTCGCCGCCGCCGCTGGGGC	0.602													3	33					0	0	0.009096	0	0		A	5322707	A	A	5322707	2	1	212	1	0	0	0	0	0	0	0	1	10790	1074	38	1		1	NUP88	17	5322707	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1997922	5322707	75872503	1240	105045											
PITPNM3	83394	broad.mit.edu	37	chr17	6358773	6358773	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cccgctcgggcttggggttgGcggcgggcgggtcgggctgc	0	7	22	12	6	0	0	0	0	0	0	2	0	0	0	1	8	1	4	1	8	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:6358773G>T	uc002gdd.3	-	20	2961	c.2810C>A	c.(2809-2811)GCC>GAC	p.A937D	PITPNM3_uc010cln.2_Missense_Mutation_p.A901D|PITPNM3_uc010clm.2_Missense_Mutation_p.A420D|PITPNM3_uc002gdc.3_Missense_Mutation_p.A528D	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	937					phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CTTGGGGTTGGCGGCGGGCGG	0.721													9	3					1.08611e-07	1.15868e-07	0.010729	1	0		T	6358773	T	T	6358773	3	4	212	1	0	0	0	0	1	0	0	0	11971	1203	42	5	118	5	PITPNM3	17	6358773	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1036066	6358773	74836437	1241	105046											
PITPNM3	83394	broad.mit.edu	37	chr17	6371655	6371655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgttcacgctctcatagcGcattacctagccaagagccg	10	9	9	13	3	2	1	2	0	1	1	3	2	2	1	3	0	4	3	3	0	4	4	rs150769456		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:6371655G>A	uc002gdd.3	-	14	1931	c.1780C>T	c.(1780-1782)CGC>TGC	p.R594C	PITPNM3_uc010cln.2_Missense_Mutation_p.R558C|PITPNM3_uc010clm.2_Missense_Mutation_p.R77C|PITPNM3_uc002gdc.3_Missense_Mutation_p.R185C	NM_031220	NP_112497	Q9BZ71	PITM3_HUMAN	PITPNM family member 3 isoform 1	594	DDHD.				phosphatidylinositol metabolic process	endomembrane system|integral to membrane	calcium ion binding|lipid binding|phosphatidylinositol transporter activity|receptor tyrosine kinase binding			ovary(2)|central_nervous_system(2)	4				Colorectal(2;0.000372)|READ - Rectum adenocarcinoma(2;0.0276)|LUAD - Lung adenocarcinoma(2;0.0836)|COAD - Colon adenocarcinoma(228;0.185)		CTCTCATAGCGCATTACCTAG	0.627													3	37					0	0	0.000602	0	0		A	6371655	A	A	6371655	3	1	212	1	0	0	0	0	1	0	0	0	11971	1087	38	1	1172	1	PITPNM3	17	6371655	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	12882	6371655	74823555	1242	105047											
ZBTB4	57659	broad.mit.edu	37	chr17	7369233	7369233	+	Frame_Shift_Del	DEL	G	-	-																															accaccttcaccacgtgctcGgggccccctcggaagcccac																								rs148445568		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:7369233delG	uc002ghc.3	-	3	1138	c.888delC	c.(886-888)CCCfs	p.P296fs	ZBTB4_uc002ghd.3_Frame_Shift_Del_p.P296fs	NM_001128833	NP_001122305	Q9P1Z0	ZBTB4_HUMAN	zinc finger and BTB domain containing 4	296					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(1115;3.46e-05)|Myeloproliferative disorder(207;0.0255)		COAD - Colon adenocarcinoma(228;4.1e-06)|READ - Rectum adenocarcinoma(115;0.0642)		CCACGTGCTCGGGGCCCCCTC	0.687													12	12	---	---	---	---						.	-	7369233	-	-	7369233	7	5	212	1	0	1	0	1	0	0	0	0	17566	1103	39	0	2161	0	ZBTB4	17	7369233	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	997578	7369233	73825977	1243	105048											
TP53	7157	broad.mit.edu	37	chr17	7578275	7578277	+	In_Frame_Del	DEL	GAG	-	-																															ttccactcggataagatgctGaggaggggccagacctaaga																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:7578275_7578277delGAG	uc002gim.2	-	6	766_768	c.572_574delCTC	c.(571-576)CCTCAG>CAG	p.P191del	TP53_uc002gig.1_In_Frame_Del_p.P191del|TP53_uc002gih.2_In_Frame_Del_p.P191del|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Del_p.P59del|TP53_uc010cng.1_In_Frame_Del_p.P59del|TP53_uc002gii.1_In_Frame_Del_p.P59del|TP53_uc010cnh.1_In_Frame_Del_p.P191del|TP53_uc010cni.1_In_Frame_Del_p.P191del|TP53_uc002gij.2_In_Frame_Del_p.P191del|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_In_Frame_Del_p.P98del|TP53_uc002gio.2_In_Frame_Del_p.P59del|TP53_uc010vug.1_In_Frame_Del_p.P152del	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	191	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> R (in sporadic cancers; somatic mutation).|P -> L (in sporadic cancers; somatic mutation).|P -> H (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q192*(64)|p.0?(7)|p.P191del(5)|p.A189_V197delAPPQHLIRV(4)|p.P191fs*56(3)|p.P191fs*53(2)|p.P191L(2)|p.P191R(2)|p.P191S(2)|p.G187fs*16(2)|p.K164_P219del(1)|p.P191fs*6(1)|p.A189_Q192>E(1)|p.P191fs*15(1)|p.P191H(1)|p.P191fs*57(1)|p.P191fs*18(1)|p.P191P(1)|p.P191T(1)|p.P191_Q192delPQ(1)|p.D186_P191delDGLAPP(1)|p.Q192K(1)|p.A189fs*53(1)|p.Q192fs*56(1)|p.Q192del(1)|p.Q192fs*16(1)|p.L188_P191del(1)|p.Q192fs*30(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATAAGATGCTGAGGAGGGGCCAG	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			6	11	---	---	---	---						.	-	7578277	-	-	7578275	7	5	212	1	0	1	0	1	0	0	0	0	16407	1299	45	0	720	0	TP53	17	7578275	In_Frame_Del	DEL	GAG	TCGA-HU-A4GU-01A-11D-A25D-08	209042	7578275	73616935	1244	105049											
CCDC42	146849	broad.mit.edu	37	chr17	8638559	8638559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggtgttctggatgtgcGcccagcgagattcctggaga	6	10	15	10	3	1	2	0	0	1	2	2	5	2	3	2	3	3	1	2	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:8638559G>A	uc002gln.2	-	6	955	c.728C>T	c.(727-729)GCG>GTG	p.A243V	CCDC42_uc002glo.2_Missense_Mutation_p.A169V	NM_144681	NP_653282	Q96M95	CCD42_HUMAN	coiled-coil domain containing 42 isoform 1	243										ovary(1)	1						CTGGATGTGCGCCCAGCGAGA	0.468													17	8					0	0	0.007413	0	0		A	8638559	A	A	8638559	3	1	212	1	0	0	0	0	1	0	0	0	2817	1087	38	1	230	1	CCDC42	17	8638559	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1060284	8638559	72556651	1245	105050											
MYH3	4621	broad.mit.edu	37	chr17	10543508	10543508	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgaagaagagtttcatccaGggccagtgcttgacgttcat	10	12	11	8	1	2	4	2	2	0	2	3	4	3	4	2	1	1	3	2	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:10543508G>T	uc002gmq.1	-	21	2564	c.2487C>A	c.(2485-2487)CCC>CCA	p.P829P		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	829					muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						GTTTCATCCAGGGCCAGTGCT	0.458													6	27					0.00198382	0.00202687	0.001984	1	0		T	10543508	T	T	10543508	2	4	212	1	0	0	0	0	0	0	0	1	10054	987	35	5		5	MYH3	17	10543508	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1904949	10543508	70651702	1246	105051											
CDRT4	284040	broad.mit.edu	37	chr17	15341239	15341239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catggccaataccgaataagCgccccacattgataacgtgg	13	7	9	12	3	0	1	0	1	0	0	0	2	0	1	4	2	3	0	4	2	5	4	rs146969230	by1000genomes	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:15341239C>T	uc002gop.1	-	4	588	c.307G>A	c.(307-309)GCT>ACT	p.A103T	CDRT4_uc010vvw.1_3'UTR	NM_173622	NP_775893	Q8N9R6	CDRT4_HUMAN	CMT1A duplicated region transcript 4	103											0				UCEC - Uterine corpus endometrioid carcinoma (92;0.0874)		ACCGAATAAGCGCCCCACATT	0.483													18	15					0	0	0.008871	0	0		T	15341239	T	T	15341239	3	4	212	1	0	0	0	0	1	0	0	0	3179	768	27	1	152	1	CDRT4	17	15341239	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4797731	15341239	65853971	1247	105052											
TRPV2	51393	broad.mit.edu	37	chr17	16326788	16326788	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctcttggcctgcaggtgagCtacccctctctttggccgct	3	13	10	15	1	2	1	0	1	2	0	4	1	2	1	4	3	3	3	4	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:16326788C>A	uc002gpy.2	+	5	998	c.631C>A	c.(631-633)CTA>ATA	p.L211I	TRPV2_uc002gpz.2_Intron	NM_016113	NP_057197	Q9Y5S1	TRPV2_HUMAN	transient receptor potential cation channel,	211	Cytoplasmic (Potential).|Required for interaction with SLC50A1 (By similarity).|ANK 4.				sensory perception	integral to plasma membrane|melanosome	calcium channel activity			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		TGCAGGTGAGCTACCCCTCTC	0.607													5	13					0.00116845	0.00119713	0.001168	1	0		A	16326788	A	A	16326788	3	1	212	1	0	0	0	0	1	0	0	0	16622	796	28	5	645	5	TRPV2	17	16326788	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	985549	16326788	64868422	1248	105053											
RAI1	10743	broad.mit.edu	37	chr17	17696630	17696630	+	Frame_Shift_Del	DEL	C	-	-																															gagccttcaggcttggggggCcccacagccaccacccccac																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:17696630delC	uc002grm.2	+	3	837	c.368delC	c.(367-369)GCCfs	p.A123fs	RAI1_uc002grn.1_Frame_Shift_Del_p.A123fs	NM_030665	NP_109590	Q7Z5J4	RAI1_HUMAN	retinoic acid induced 1	123						cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)|skin(1)	2				READ - Rectum adenocarcinoma(1115;0.0276)		GCTTGGGGGGCCCCACAGCCA	0.657													7	9	---	---	---	---						.	-	17696630	-	-	17696630	7	5	212	1	0	1	0	1	0	0	0	0	13032	739	26	0	370	0	RAI1	17	17696630	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	1369842	17696630	63498580	1249	105054											
CYTSB	92521	broad.mit.edu	37	chr17	20149379	20149379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagtcatttgacttgggacGcccaggtatttaatcatttt	10	15	8	8	1	2	1	2	1	0	0	2	2	2	2	1	2	0	1	1	2	3	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:20149379G>A	uc002gwq.2	+	8	2637	c.2492G>A	c.(2491-2493)CGC>CAC	p.R831H	CYTSB_uc002gws.2_Missense_Mutation_p.R831H|CYTSB_uc002gwv.2_Missense_Mutation_p.R750H|CYTSB_uc010vzf.1_Missense_Mutation_p.R171H|CYTSB_uc002gww.2_Missense_Mutation_p.R607H	NM_001033553	NP_001028725	Q5M775	CYTSB_HUMAN	spectrin domain with coiled-coils 1 NSP5b3b	831				R -> G (in Ref. 2; AAW30000/AAW30002).		nucleus					0						GACTTGGGACGCCCAGGTATT	0.473													13	12					0	0	0.003163	0	0		A	20149379	A	A	20149379	3	1	212	1	0	0	0	0	1	0	0	0	4213	1087	38	1	2588	1	CYTSB	17	20149379	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2452749	20149379	61045831	1250	105055											
SEBOX	645832	broad.mit.edu	37	chr17	26691501	26691501	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tatgtcgacacactgaggtgCgctgaggtgtgccgctggag	7	9	16	9	3	0	2	0	2	0	0	1	4	0	3	1	3	2	2	1	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:26691501C>T	uc010wai.1	-	3	454	c.440G>A	c.(439-441)CGC>CAC	p.R147H	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_Missense_Mutation_p.R146H|SARM1_uc010waj.1_Intron	NM_001080837	NP_001074306	Q9HB31	SEBOX_HUMAN	SEBOX homeobox isoform 1	147					cell differentiation|multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	all_lung(13;0.000354)|Lung NSC(42;0.00115)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		CACTGAGGTGCGCTGAGGTGT	0.637													4	14					0	0	0.009096	0	0		T	26691501	T	T	26691501	3	4	212	1	0	0	0	0	1	0	0	0	14002	768	27	1	214	1	SEBOX	17	26691501	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6542122	26691501	54503709	1251	105056											
VTN	7448	broad.mit.edu	37	chr17	26696033	26696033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaggacaccatcctcaaagCgccagtactgactaccctaa	13	6	6	16	1	1	1	1	1	0	0	2	2	2	2	5	1	3	1	5	1	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:26696033C>T	uc002hbc.2	-	5	835	c.686G>A	c.(685-687)CGC>CAC	p.R229H	SARM1_uc010wah.1_Intron|SEBOX_uc010crk.1_5'Flank|SARM1_uc010waj.1_Intron|SARM1_uc010crl.1_5'Flank	NM_000638	NP_000629	P04004	VTNC_HUMAN	vitronectin precursor	229	Hemopexin-like 2.				cell adhesion mediated by integrin|immune response|negative regulation of endopeptidase activity|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of protein binding|positive regulation of receptor-mediated endocytosis|positive regulation of smooth muscle cell migration|positive regulation of vascular endothelial growth factor receptor signaling pathway|smooth muscle cell-matrix adhesion	alphav-beta3 integrin-vitronectin complex|extracellular space	heparin binding|integrin binding|scavenger receptor activity			ovary(1)|kidney(1)	2	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Urokinase(DB00013)	ATCCTCAAAGCGCCAGTACTG	0.597													29	101					0	0	0.008361	0	0		T	26696033	T	T	26696033	3	4	212	1	0	0	0	0	1	0	0	0	17263	768	27	1	766	1	VTN	17	26696033	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4532	26696033	54499177	1252	105057											
SLC46A1	113235	broad.mit.edu	37	chr17	26731940	26731940	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tttcctggacttctctggggCgggagccacatagagctgga	7	10	14	10	1	1	1	0	0	1	1	3	4	2	4	2	5	2	1	2	5	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:26731940C>T	uc002hbf.1	-	2	871	c.775G>A	c.(775-777)GCC>ACC	p.A259T	SLC46A1_uc002hbg.1_Missense_Mutation_p.A259T|SLC46A1_uc010wak.1_Missense_Mutation_p.A259T	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	259					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	TTCTCTGGGGCGGGAGCCACA	0.532													9	123					0	0	0.004482	0	0		T	26731940	T	T	26731940	3	4	212	1	0	0	0	0	1	0	0	0	14669	768	27	1	621	1	SLC46A1	17	26731940	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	35907	26731940	54463270	1253	105058											
SUPT6H	6830	broad.mit.edu	37	chr17	27024691	27024691	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatgtccagcccatggcatcCtttgcccgggaccttctgaa	7	11	9	14	1	1	1	0	1	1	0	3	2	3	2	5	2	2	1	5	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:27024691C>A	uc002hby.2	+	31	4353	c.4263C>A	c.(4261-4263)TCC>TCA	p.S1421S	SUPT6H_uc010crt.2_Silent_p.S1421S	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1421	SH2.				chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					CCATGGCATCCTTTGCCCGGG	0.522													14	37					2.48551e-13	2.78086e-13	0.00499	1	0		A	27024691	A	A	27024691	2	1	212	1	0	0	0	0	0	0	0	1	15425	668	24	5		5	SUPT6H	17	27024691	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	292751	27024691	54170519	1254	105059											
NUFIP2	57532	broad.mit.edu	37	chr17	27614007	27614007	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgggggtggtttaaatagGgtccacgagtcctctttgga	8	12	14	7	1	1	0	0	0	1	0	3	2	3	1	2	5	0	1	2	5	3	4	rs141446231		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:27614007G>C	uc002hdy.3	-	2	1094	c.1005C>G	c.(1003-1005)ACC>ACG	p.T335T	NUFIP2_uc002hdx.3_Intron	NM_020772	NP_065823	Q7Z417	NUFP2_HUMAN	nuclear fragile X mental retardation protein	335						nucleus|polysomal ribosome	protein binding|RNA binding			skin(2)|ovary(1)|breast(1)	4			BRCA - Breast invasive adenocarcinoma(11;0.000457)|Colorectal(6;0.0178)|COAD - Colon adenocarcinoma(6;0.0551)			GTTTAAATAGGGTCCACGAGT	0.418													83	74					0	0	0.01441	0	0		C	27614007	C	C	27614007	2	2	212	1	0	0	0	0	0	0	0	1	10768	1219	43	5		5	NUFIP2	17	27614007	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	589316	27614007	53581203	1255	105060											
TP53I13	90313	broad.mit.edu	37	chr17	27899268	27899268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgccaagaggcggaggctgCgggctgcccttggtccccag	5	6	17	13	2	0	1	0	0	0	1	1	2	1	2	4	5	3	2	4	5	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:27899268C>T	uc002hee.2	+	6	660	c.622C>T	c.(622-624)CGG>TGG	p.R208W		NM_138349	NP_612358	Q8NBR0	P5I13_HUMAN	tumor protein p53 inducible protein 13	208	Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane					0				READ - Rectum adenocarcinoma(3;0.236)		GCGGAGGCTGCGGGCTGCCCT	0.662													5	39					0	0	0.000602	0	0		T	27899268	T	T	27899268	3	4	212	1	0	0	0	0	1	0	0	0	16412	759	27	1	644	1	TP53I13	17	27899268	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	285261	27899268	53295942	1256	105061											
GIT1	28964	broad.mit.edu	37	chr17	27903134	27903134	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacgtgcactgaatagatggCgtcgtcctctagctcctggg	7	10	13	11	3	1	2	0	1	1	1	4	3	3	2	2	2	2	2	2	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:27903134C>T	uc002hef.2	-	15	1841	c.1627G>A	c.(1627-1629)GCC>ACC	p.A543T	GIT1_uc002heg.2_Missense_Mutation_p.A552T|GIT1_uc010wbg.1_Missense_Mutation_p.A552T|GIT1_uc010csb.1_Missense_Mutation_p.A543T	NM_014030	NP_054749	Q9Y2X7	GIT1_HUMAN	G protein-coupled receptor kinase interactor 1	543					regulation of ARF GTPase activity|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|focal adhesion	ARF GTPase activator activity|protein binding|zinc ion binding				0				READ - Rectum adenocarcinoma(3;0.0419)|Colorectal(3;0.069)		GAATAGATGGCGTCGTCCTCT	0.612													25	72					0	0	0.00632	0	0		T	27903134	T	T	27903134	3	4	212	1	0	0	0	0	1	0	0	0	6411	768	27	1	682	1	GIT1	17	27903134	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3866	27903134	53292076	1257	105062											
SSH2	85464	broad.mit.edu	37	chr17	27963291	27963291	+	Missense_Mutation	SNP	A	G	G	1	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	tggtgactcaggatcaggggAcatgggggggtctttcagtg	7	10	18	6	0	4	1	3	1	1	0	4	3	4	3	0	7	0	0	0	7	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:27963291A>G	uc002heo.1	-	14	1876	c.1876T>C	c.(1876-1878)TCC>CCC	p.S626P	SSH2_uc010wbh.1_Missense_Mutation_p.S653P	NM_033389	NP_203747	Q76I76	SSH2_HUMAN	slingshot 2	626					actin cytoskeleton organization|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			skin(2)	2						GGATCAGGGGACATGGGGGGG	0.473													32	81					0	0	0.003271	0	0		G	27963291	G	G	27963291	3	3	212	1	0	0	0	0	1	0	0	0	15210	275	10	3	2403	3	SSH2	17	27963291	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	60157	27963291	53231919	1258	105063											
EFCAB5	374786	broad.mit.edu	37	chr17	28419105	28419105	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtgcgtgacatcctgaaggCggttatcttgttctttcatc	7	15	10	9	2	3	2	1	2	2	0	5	2	4	2	1	2	1	2	1	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:28419105C>T	uc002het.2	+	21	4346	c.4154C>T	c.(4153-4155)GCG>GTG	p.A1385V	EFCAB5_uc010cse.2_Missense_Mutation_p.A1140V|EFCAB5_uc010csf.2_Intron	NM_198529	NP_940931	A4FU69	EFCB5_HUMAN	EF-hand calcium binding domain 5 isoform a	1385							calcium ion binding			ovary(1)|skin(1)	2						ATCCTGAAGGCGGTTATCTTG	0.378													9	29					0	0	0.004482	0	0		T	28419105	T	T	28419105	3	4	212	1	0	0	0	0	1	0	0	0	4944	768	27	1	4403	1	EFCAB5	17	28419105	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	455814	28419105	52776105	1259	105064											
CPD	1362	broad.mit.edu	37	chr17	28706682	28706683	+	Frame_Shift_Ins	INS	-	C	C																															accagtttagcaccggcgaaINSccccccgccctggacgaggt																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:28706682_28706683insC	uc002hfb.1	+	1	699_700	c.684_685insC	c.(682-687)GAACCCfs	p.E228fs	CPD_uc010wbo.1_5'Flank|CPD_uc010wbp.1_5'Flank	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	228_229	Extracellular (Potential).|Carboxypeptidase-like 1.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						GCACCGGCGAACCCCCCGCCCT	0.703													7	13	---	---	---	---						.	C	28706683	C	C	28706682	7	5	212	1	0	1	1	0	0	0	0	0	3801	40	2	0	686	0	CPD	17	28706682	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	287577	28706682	52488528	1260	105065											
NF1	4763	broad.mit.edu	37	chr17	29654702	29654702	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcatgcaccaggagtgtgaAgccattgtccagtctatcat	10	12	9	10	0	3	1	2	1	1	0	4	2	4	2	3	1	2	1	3	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:29654702A>G	uc002hgg.2	+	38	5787	c.5454A>G	c.(5452-5454)GAA>GAG	p.E1818E	NF1_uc002hgh.2_Silent_p.E1797E|NF1_uc002hgi.1_Silent_p.E830E|NF1_uc010cso.2_Silent_p.E6E	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1818					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.H1814fs*43(1)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		AGGAGTGTGAAGCCATTGTCC	0.512			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)			30	89					0	0	0.009535	0	0		G	29654702	G	G	29654702	2	3	212	1	0	0	0	0	0	0	0	1	10375	69	3	3		3	NF1	17	29654702	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	948020	29654702	51540508	1261	105066											
ACCN1	40	broad.mit.edu	37	chr17	31343004	31343004	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttaccacattctcatcgtgGctcccttcgtcctcctcttt	4	16	4	17	2	2	0	1	0	2	0	8	0	5	0	4	1	1	1	4	1	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:31343004G>A	uc002hhu.2	-	9	1696	c.1422C>T	c.(1420-1422)AGC>AGT	p.S474S	ACCN1_uc002hht.2_Silent_p.S525S	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	474	Cytoplasmic (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	TCTCATCGTGGCTCCCTTCGT	0.542													11	51					0	0	0.004007	0	0		A	31343004	A	A	31343004	2	1	212	1	0	0	0	0	0	0	0	1	128	1194	42	2		2	ACCN1	17	31343004	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1688302	31343004	49852206	1262	105067											
ACCN1	40	broad.mit.edu	37	chr17	31348260	31348260	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtaaggcagcaacttcatacGccttcttctgttcaattgtc	9	14	7	11	1	4	0	2	0	2	0	5	0	4	0	1	1	3	4	1	1	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:31348260G>A	uc002hhu.2	-	7	1539	c.1265C>T	c.(1264-1266)GCG>GTG	p.A422V	ACCN1_uc002hht.2_Missense_Mutation_p.A473V	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	422	Extracellular (By similarity).				central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	AACTTCATACGCCTTCTTCTG	0.403													14	53					0	0	0.003163	0	0		A	31348260	A	A	31348260	3	1	212	1	0	0	0	0	1	0	0	0	128	1087	38	1	289	1	ACCN1	17	31348260	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5256	31348260	49846950	1263	105068											
LIG3	3980	broad.mit.edu	37	chr17	33319550	33319550	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taccccttggcaggttagacGcccttgaccccaatgcctat	8	10	8	15	1	0	2	0	1	0	1	0	2	0	2	6	2	2	2	6	2	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:33319550G>A	uc002hik.1	+	8	1402	c.1294G>A	c.(1294-1296)GCC>ACC	p.A432T	LIG3_uc002hij.2_Missense_Mutation_p.A432T|LIG3_uc010cth.1_Missense_Mutation_p.A441T	NM_013975	NP_039269	P49916	DNLI3_HUMAN	ligase III, DNA, ATP-dependent isoform alpha	432					base-excision repair|cell division|DNA ligation involved in DNA repair|DNA replication|reciprocal meiotic recombination|spermatogenesis	nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|protein binding|zinc ion binding			skin(3)|lung(2)|ovary(2)|large_intestine(1)|pancreas(1)	9		Ovarian(249;0.17)			Bleomycin(DB00290)	CAGGTTAGACGCCCTTGACCC	0.542								Other_BER_factors					26	92					0	0	0.013726	0	0		A	33319550	A	A	33319550	3	1	212	1	0	0	0	0	1	0	0	0	8798	1087	38	1	1320	1	LIG3	17	33319550	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1971290	33319550	47875660	1264	105069											
GGNBP2	79893	broad.mit.edu	37	chr17	34935676	34935676	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgattattcccttttataggCgaagagaaaggcatgcaaag	14	11	10	6	1	0	2	0	1	0	1	1	4	1	2	1	2	1	2	1	2	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:34935676C>T	uc002hnb.2	+	8	1096	c.847C>T	c.(847-849)CGA>TGA	p.R283*	GGNBP2_uc002hna.2_Nonsense_Mutation_p.R283*|GGNBP2_uc002hnc.1_Nonsense_Mutation_p.R112*	NM_024835	NP_079111	Q9H3C7	GGNB2_HUMAN	zinc finger protein 403	283					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasmic membrane-bounded vesicle				ovary(2)	2		Breast(25;0.00957)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0193)		CTTTTATAGGCGAAGAGAAAG	0.378													23	89					0	0	0.00333	0	0		T	34935676	T	T	34935676	4	4	212	1	0	0	0	0	0	1	0	0	6374	782	27	1	873	1	GGNBP2	17	34935676	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1616126	34935676	46259534	1265	105070											
DDX52	11056	broad.mit.edu	37	chr17	35992179	35992179	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atggcttgcatttggattggCgtaggcatttggaaacctgc	8	13	13	7	1	0	0	0	0	0	0	0	2	0	2	1	5	3	4	1	5	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:35992179C>T	uc002hoi.1	-	4	605	c.567G>A	c.(565-567)ACG>ACA	p.T189T	DDX52_uc002hoh.1_Silent_p.T81T|DDX52_uc002hoj.1_Silent_p.T97T	NM_007010	NP_008941	Q9Y2R4	DDX52_HUMAN	ATP-dependent RNA helicase ROK1 isoform a	189	Q motif.					nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)|skin(1)	2		Breast(25;0.00637)|Ovarian(249;0.15)				TTTGGATTGGCGTAGGCATTT	0.343													27	88					0	0	0.010818	0	0		T	35992179	T	T	35992179	2	4	212	1	0	0	0	0	0	0	0	1	4373	755	27	1		1	DDX52	17	35992179	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1056503	35992179	45203031	1266	105071											
SOCS7	30837	broad.mit.edu	37	chr17	36551660	36551660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gattccggatacgacagctcGtcaggatagatcacatccca	12	8	9	12	3	2	1	2	0	0	1	5	5	4	3	2	2	2	1	2	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:36551660G>A	uc002hqa.2	+	8	1711	c.1588G>A	c.(1588-1590)GTC>ATC	p.V530I	SOCS7_uc010cvl.2_Missense_Mutation_p.V496I|SOCS7_uc002hqb.2_Intron	NM_014598	NP_055413	O14512	SOCS7_HUMAN	suppressor of cytokine signaling 7	530	SOCS box.				intracellular signal transduction|negative regulation of signal transduction|regulation of growth	cytoplasm|nucleus|plasma membrane	protein binding|SH3 domain binding			skin(1)	1	Breast(7;3.47e-17)					ACGACAGCTCGTCAGGATAGA	0.522													23	47					0	0	0.014323	0	0		A	36551660	A	A	36551660	3	1	212	1	0	0	0	0	1	0	0	0	14944	1145	40	1	1618	1	SOCS7	17	36551660	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	559481	36551660	44643550	1267	105072											
SRCIN1	80725	broad.mit.edu	37	chr17	36708278	36708278	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtggcatttcgaagtccacGctcttgttgaagtcagtctc	7	13	11	10	2	3	1	1	1	2	0	6	2	4	1	1	2	0	3	1	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:36708278G>A	uc002hqd.2	-	14	2796	c.2571C>T	c.(2569-2571)AGC>AGT	p.S857S	SRCIN1_uc002hqf.1_Silent_p.S729S|SRCIN1_uc002hqe.2_Silent_p.S711S|SRCIN1_uc002hqg.2_Silent_p.S163S	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein	729					exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						CGAAGTCCACGCTCTTGTTGA	0.622													15	64					0	0	0.003163	0	0		A	36708278	A	A	36708278	2	1	212	1	0	0	0	0	0	0	0	1	15161	1078	38	1		1	SRCIN1	17	36708278	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	156618	36708278	44486932	1268	105073											
CACNB1	782	broad.mit.edu	37	chr17	37351142	37351142	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcctccccattacctggcGgacaaagctgttggatgtgg	8	9	12	12	1	0	0	0	0	0	0	1	2	1	2	4	4	3	2	4	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:37351142G>A	uc002hrm.1	-	2	319	c.166C>T	c.(166-168)CGC>TGC	p.R56C	CACNB1_uc002hrl.1_5'Flank|CACNB1_uc002hrn.2_Missense_Mutation_p.R56C|CACNB1_uc002hro.2_Missense_Mutation_p.R56C|CACNB1_uc002hrp.1_Missense_Mutation_p.R56C|CACNB1_uc010web.1_5'Flank	NM_000723	NP_000714	Q02641	CACB1_HUMAN	calcium channel, voltage-dependent, beta 1	56					axon guidance	voltage-gated calcium channel complex				large_intestine(1)|ovary(1)	2					Ibutilide(DB00308)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Verapamil(DB00661)	ATTACCTGGCGGACAAAGCTG	0.587													11	55					0	0	0.001855	0	0		A	37351142	A	A	37351142	3	1	212	1	0	0	0	0	1	0	0	0	2555	1116	39	1	1946	1	CACNB1	17	37351142	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	642864	37351142	43844068	1269	105074											
PNMT	5409	broad.mit.edu	37	chr17	37826571	37826571	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tccgcacctatatcatgcctGcccaccttcagacaggcgta	9	9	7	16	2	2	1	2	0	0	1	3	1	3	1	5	1	2	2	5	1	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:37826571G>A	uc002hsi.1	+	3	1000	c.778G>A	c.(778-780)GCC>ACC	p.A260T		NM_002686	NP_002677	P11086	PNMT_HUMAN	phenylethanolamine N-methyltransferase	260					catecholamine biosynthetic process|hormone biosynthetic process	cytosol	phenylethanolamine N-methyltransferase activity			ovary(1)	1	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)			TATCATGCCTGCCCACCTTCA	0.632													8	13					0	0	0.004482	0	0		A	37826571	A	A	37826571	3	1	212	1	0	0	0	0	1	0	0	0	12178	1319	46	2	788	2	PNMT	17	37826571	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	475429	37826571	43368639	1270	105075											
ZPBP2	124626	broad.mit.edu	37	chr17	38024549	38024549	+	Translation_Start_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtggggaggtgttgggccaGggctgaggtaggagggagtc	6	7	24	4	0	0	1	0	1	0	0	1	4	0	4	1	9	0	3	1	9	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:38024549G>T	uc002hte.2	+	1	95	c.-58G>T	c.(-60--56)CAGGG>CATGG		ZPBP2_uc002htf.2_Translation_Start_Site	NM_199321	NP_955353	Q6X784	ZPBP2_HUMAN	zona pellucida binding protein 2 isoform 2						binding of sperm to zona pellucida	extracellular region				ovary(1)	1	Colorectal(19;0.000442)		Lung(15;0.00849)|LUSC - Lung squamous cell carcinoma(15;0.171)			TGTTGGGCCAGGGCTGAGGTA	0.697													9	43					0.000274275	0.000282745	0.004482	1	0		T	38024549	T	T	38024549	1	4	212	1	0	0	0	0	0	0	0	0	18245	1015	35	5		5	ZPBP2	17	38024549	Translation_Start_Site	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	197978	38024549	43170661	1271	105076											
NR1D1	9572	broad.mit.edu	37	chr17	38252038	38252038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctgcccagcttgtcatgggCgtaggtgaagatctctcgat	7	11	13	10	2	2	2	1	1	1	1	4	3	2	2	1	2	2	3	1	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:38252038C>T	uc002htz.1	-	5	1533	c.907G>A	c.(907-909)GCC>ACC	p.A303T	NR1D1_uc010cwq.1_RNA|NR1D1_uc010cwr.1_Intron	NM_021724	NP_068370	P20393	NR1D1_HUMAN	nuclear receptor subfamily 1, group D, member 1	303					cellular response to lipopolysaccharide|negative regulation of receptor biosynthetic process|negative regulation of toll-like receptor 4 signaling pathway|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin|nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding			skin(1)	1	Colorectal(19;0.000442)					TTGTCATGGGCGTAGGTGAAG	0.602													12	37					0	0	0.010729	0	0		T	38252038	T	T	38252038	3	4	212	1	0	0	0	0	1	0	0	0	10634	768	27	1	953	1	NR1D1	17	38252038	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	227489	38252038	42943172	1272	105077											
CCR7	1236	broad.mit.edu	37	chr17	38711227	38711227	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaggcgatgttgagttgctTactgagctcacaggtgctac	8	12	13	8	1	1	2	1	2	0	0	1	3	1	2	0	2	5	6	0	2	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:38711227T>C	uc002huw.2	-	3	967	c.904A>G	c.(904-906)AAG>GAG	p.K302E		NM_001838	NP_001829	P32248	CCR7_HUMAN	chemokine (C-C motif) receptor 7 precursor	302	Extracellular (Potential).				cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)				TTGAGTTGCTTACTGAGCTCA	0.572													22	50					0	0	0.014323	0	0		C	38711227	C	C	38711227	3	2	212	1	0	0	0	0	1	0	0	0	2949	1763	61	3	236	3	CCR7	17	38711227	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	459189	38711227	42483983	1273	105078											
KRT24	192666	broad.mit.edu	37	chr17	38859491	38859491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgaccttgtctaggtaattgGccaagcggtcattgaggttc	8	13	12	8	1	2	2	1	2	1	0	3	2	2	2	2	4	1	2	2	4	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:38859491G>A	uc002hvd.2	-	1	512	c.455C>T	c.(454-456)GCC>GTC	p.A152V		NM_019016	NP_061889	Q2M2I5	K1C24_HUMAN	keratin 24	152	Rod.|Coil 1A.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.00526)				TAGGTAATTGGCCAAGCGGTC	0.517													71	160					0	0	0.01441	0	0		A	38859491	A	A	38859491	3	1	212	1	0	0	0	0	1	0	0	0	8477	1203	42	2	1154	2	KRT24	17	38859491	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	148264	38859491	42335719	1274	105079											
KRT27	342574	broad.mit.edu	37	chr17	38938374	38938374	+	Silent	SNP	T	C	C	0	1	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	aggccacggcaagaaccaggTccaaatttctcataccaccc	13	6	7	15	1	1	1	1	0	1	1	3	1	2	1	5	3	2	1	5	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:38938374T>C	uc002hvg.2	-	1	413	c.372A>G	c.(370-372)GGA>GGG	p.G124G		NM_181537	NP_853515	Q7Z3Y8	K1C27_HUMAN	keratin 27	124	Rod.|Linker 1.					cytoplasm|intermediate filament	structural molecule activity				0		Breast(137;0.000812)				AAGAACCAGGTCCAAATTTCT	0.493													34	80					0	0	0.004878	0	0		C	38938374	C	C	38938374	2	2	212	1	0	0	0	0	0	0	0	1	8480	1654	58	3		3	KRT27	17	38938374	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	78883	38938374	42256836	1275	105080											
KRT28	162605	broad.mit.edu	37	chr17	38953476	38953476	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgcgaggtctacccccggggCcgcgttcatctccacgttca	5	8	11	17	6	4	0	2	0	2	0	5	1	4	0	4	3	1	2	4	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:38953476C>T	uc002hvh.1	-	4	814	c.748G>A	c.(748-750)GCC>ACC	p.A250T		NM_181535	NP_853513	Q7Z3Y7	K1C28_HUMAN	keratin 25D	250	Rod.|Linker 12.					cytoplasm|intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)				ACCCCCGGGGCCGCGTTCATC	0.597													31	76					0	0	0.013726	0	0		T	38953476	T	T	38953476	3	4	212	1	0	0	0	0	1	0	0	0	8481	739	26	2	666	2	KRT28	17	38953476	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	15102	38953476	42241734	1276	105081											
JUP	3728	broad.mit.edu	37	chr17	39923794	39923794	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acaggagcaggttgtgcagcGtggtgatggcatagaacagg	11	7	17	6	1	0	2	0	1	0	1	0	3	0	3	0	5	4	4	0	5	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:39923794G>A	uc002hxq.2	-	5	1023	c.746C>T	c.(745-747)ACG>ATG	p.T249M	JUP_uc010wfs.1_Missense_Mutation_p.T249M|JUP_uc002hxr.2_Missense_Mutation_p.T249M|JUP_uc002hxs.2_Missense_Mutation_p.T249M	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin	249	ARM 2.				adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		GTTGTGCAGCGTGGTGATGGC	0.632													14	37					0	0	0.001855	0	0		A	39923794	A	A	39923794	3	1	212	1	0	0	0	0	1	0	0	0	7988	1145	40	1	1531	1	JUP	17	39923794	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	970318	39923794	41271416	1277	105082											
KLHL10	317719	broad.mit.edu	37	chr17	40001675	40001675	+	Frame_Shift_Del	DEL	C	-	-																															ttacttgtgaggaagagagtCcccgtgcctaccatggggca																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:40001675delC	uc010cxr.2	+	3	1124	c.982delC	c.(982-984)CCCfs	p.P328fs	KLHL10_uc010wfv.1_Frame_Shift_Del_p.P322fs|KLHL10_uc010wfw.1_Frame_Shift_Del_p.P240fs	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	328	Kelch 1.					cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				GGAAGAGAGTCCCCGTGCCTA	0.498													33	51	---	---	---	---						.	-	40001675	-	-	40001675	7	5	212	1	0	1	0	1	0	0	0	0	8382	855	30	0	992	0	KLHL10	17	40001675	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	77881	40001675	41193535	1278	105083											
KLHL11	55175	broad.mit.edu	37	chr17	40010749	40010749	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agttgccatgtcctccaatgCtatagagcttccctttgact	8	14	7	12	0	0	2	0	1	0	1	3	2	3	2	4	0	3	3	4	0	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:40010749C>T	uc002hyf.1	-	2	1376	c.1370G>A	c.(1369-1371)AGC>AAC	p.S457N		NM_018143	NP_060613	Q9NVR0	KLH11_HUMAN	kelch-like 11 precursor	457	Kelch 3.					extracellular region					0		Breast(137;0.00156)				TCCTCCAATGCTATAGAGCTT	0.383													36	92					0	0	0.005524	0	0		T	40010749	T	T	40010749	3	4	212	1	0	0	0	0	1	0	0	0	8383	797	28	2	760	2	KLHL11	17	40010749	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	9074	40010749	41184461	1279	105084											
TTC25	83538	broad.mit.edu	37	chr17	40094982	40094982	+	Silent	SNP	T	C	C	0	1	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	ctgcgggaccacaaacgccgTccctcacagacagcccatta	11	5	8	17	3	1	1	1	0	0	1	2	2	2	2	4	1	3	0	4	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:40094982T>C	uc002hyj.3	+	6	887	c.798T>C	c.(796-798)CGT>CGC	p.R266R	TTC25_uc010cxt.2_RNA|TTC25_uc010cxs.1_Intron	NM_031421	NP_113609	Q96NG3	TTC25_HUMAN	tetratricopeptide repeat domain 25	266						cytoplasm	protein binding			ovary(1)	1		all_cancers(22;8.16e-06)|Breast(137;0.000143)|all_epithelial(22;0.000236)				ACAAACGCCGTCCCTCACAGA	0.562													38	116					0	0	0.013114	0	0		C	40094982	C	C	40094982	2	2	212	1	0	0	0	0	0	0	0	1	16719	1654	58	3		3	TTC25	17	40094982	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	84233	40094982	41100228	1280	105085											
CNP	1267	broad.mit.edu	37	chr17	40120221	40120221	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggacacagtggccacgctgCtagagtgcaagacgctcttc	10	7	12	12	2	1	2	0	0	1	2	2	3	1	3	1	2	2	4	1	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:40120221C>A	uc002hyl.1	+	2	283	c.139C>A	c.(139-141)CTA>ATA	p.L47I	CNP_uc002hyk.1_Missense_Mutation_p.L47I|CNP_uc010wfz.1_Missense_Mutation_p.L47I|CNP_uc002hym.1_Missense_Mutation_p.L27I|CNP_uc010wga.1_Intron	NM_033133	NP_149124	P09543	CN37_HUMAN	2',3'-cyclic nucleotide 3' phosphodiesterase	47					cell killing|cyclic nucleotide catabolic process|RNA metabolic process|synaptic transmission	extracellular space|melanosome	2',3'-cyclic-nucleotide 3'-phosphodiesterase activity|ATP binding|protein binding				0		all_cancers(22;2.38e-06)|all_epithelial(22;6.79e-05)|Breast(137;0.000143)		UCEC - Uterine corpus endometrioid carcinoma (308;0.171)		GGCCACGCTGCTAGAGTGCAA	0.582													20	39					1.96292e-10	2.13883e-10	0.010504	1	0		A	40120221	A	A	40120221	3	1	212	1	0	0	0	0	1	0	0	0	3629	796	28	5	145	5	CNP	17	40120221	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	25239	40120221	41074989	1281	105086											
DHX58	79132	broad.mit.edu	37	chr17	40255695	40255695	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggtcgctgccatggcccacaGccaccatgcagttgatgcag	8	7	12	14	1	0	1	0	1	0	0	1	1	0	1	4	2	4	4	4	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:40255695G>T	uc002hyw.3	-	12	1908	c.1685C>A	c.(1684-1686)GCT>GAT	p.A562D	DHX58_uc002hyv.3_Intron|DHX58_uc010wgf.1_Missense_Mutation_p.A555D	NM_024119	NP_077024	Q96C10	DHX58_HUMAN	RNA helicase LGP2	562					innate immune response	cytoplasm	ATP binding|DNA binding|helicase activity|protein binding|RNA binding|zinc ion binding				0		all_cancers(22;9.73e-07)|all_epithelial(22;3.58e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.126)		ATGGCCCACAGCCACCATGCA	0.637													23	72					2.21704e-12	2.46546e-12	0.00278	1	0		T	40255695	T	T	40255695	3	4	212	1	0	0	0	0	1	0	0	0	4520	971	34	5	363	5	DHX58	17	40255695	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	135474	40255695	40939515	1282	105087											
STAT5B	6777	broad.mit.edu	37	chr17	40369449	40369449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttggtggtactccatgacGcagcagttgttcaagatctc	8	12	11	10	1	2	2	1	1	1	1	4	2	3	2	1	2	2	6	1	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:40369449G>A	uc002hzh.2	-	10	1372	c.1203C>T	c.(1201-1203)TGC>TGT	p.C401C		NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	401					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		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)	ACTCCATGACGCAGCAGTTGT	0.488													21	53					0	0	0.012319	0	0		A	40369449	A	A	40369449	2	1	212	1	0	0	0	0	0	0	0	1	15294	1079	38	1		1	STAT5B	17	40369449	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	113754	40369449	40825761	1283	105088											
ETV4	2118	broad.mit.edu	37	chr17	41611239	41611239	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gggctcacctggagtaaaggCactgctcgccatggtggtag	8	8	15	10	1	1	0	1	0	0	0	2	1	1	1	2	5	1	5	2	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:41611239C>T	uc002idw.2	-	6	499	c.371G>A	c.(370-372)TGC>TAC	p.C124Y	ETV4_uc010wih.1_Missense_Mutation_p.C124Y|ETV4_uc010czh.2_Missense_Mutation_p.C123Y|ETV4_uc010wii.1_Missense_Mutation_p.C85Y|ETV4_uc002idx.2_Missense_Mutation_p.C124Y|ETV4_uc010wij.1_Missense_Mutation_p.C85Y|ETV4_uc002idy.1_Missense_Mutation_p.C85Y	NM_001986	NP_001977	P43268	ETV4_HUMAN	ets variant gene 4 (E1A enhancer binding	124					positive regulation of transcription, DNA-dependent	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/ETV4(6)	bone(4)|soft_tissue(2)|ovary(1)	7		Breast(137;0.00908)		BRCA - Breast invasive adenocarcinoma(366;0.0798)		GGAGTAAAGGCACTGCTCGCC	0.657			T	EWSR1|TMPRSS2|DDX5|KLK2|CANT1	Ewing sarcoma|Prostate carcinoma								7	30					0	0	0.004482	0	0		T	41611239	T	T	41611239	3	4	212	1	0	0	0	0	1	0	0	0	5289	710	25	2	1115	2	ETV4	17	41611239	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1241790	41611239	39583971	1284	105089											
ITGA2B	3674	broad.mit.edu	37	chr17	42461008	42461008	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatacacacgccccacttCggccagttttcggtctgccc	8	9	7	17	3	1	0	0	0	1	0	3	0	1	0	4	2	2	1	4	2	2	4	rs137852910		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:42461008C>A	uc002igt.1	-	12	1095	c.1063G>T	c.(1063-1065)GAA>TAA	p.E355*	ITGA2B_uc002igu.1_5'Flank	NM_000419	NP_000410	P08514	ITA2B_HUMAN	integrin alpha 2b preproprotein	355	FG-GAP 5.|Extracellular (Potential).		E -> K (in GT; type I; impairs surface expression of alpha-IIb/beta-3).		axon guidance|integrin-mediated signaling pathway|platelet activation|platelet degranulation	integrin complex|platelet alpha granule membrane	identical protein binding|receptor activity			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.191)	Tirofiban(DB00775)	CGCCCCACTTCGGCCAGTTTT	0.632													7	4					2.17888e-05	2.27555e-05	0.006214	1	0		A	42461008	A	A	42461008	4	1	212	1	0	0	0	0	0	1	0	0	7892	893	31	5	2132	5	ITGA2B	17	42461008	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	849769	42461008	38734202	1285	105090											
PLCD3	113026	broad.mit.edu	37	chr17	43190500	43190500	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctgcccaccattgttgagCacgtagtcagtctcctgccg	6	10	11	14	2	2	1	1	1	1	0	3	1	2	1	4	1	3	4	4	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:43190500C>T	uc002iib.2	-	14	2235	c.2121G>A	c.(2119-2121)GTG>GTA	p.V707V		NM_133373	NP_588614	Q8N3E9	PLCD3_HUMAN	phospholipase C delta 3	707	C2.				intracellular signal transduction|lipid catabolic process	cleavage furrow|cytoplasm|membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			breast(2)|lung(1)	3					Phosphatidylserine(DB00144)	CATTGTTGAGCACGTAGTCAG	0.642													8	23					0	0	0.008291	0	0		T	43190500	T	T	43190500	2	4	212	1	0	0	0	0	0	0	0	1	12051	697	25	2		2	PLCD3	17	43190500	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	729492	43190500	38004710	1286	105091											
CRHR1	1394	broad.mit.edu	37	chr17	43907506	43907506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactggaacctcatctccGccttcatcctgcgcaacgcc	7	9	6	19	3	3	0	2	0	1	0	6	1	5	1	6	1	3	1	6	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:43907506G>A	uc010dap.2	+	7	833	c.568G>A	c.(568-570)GCC>ACC	p.A190T	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_Missense_Mutation_p.A60T|CRHR1_uc002ijm.2_Missense_Mutation_p.A161T|CRHR1_uc002ijn.2_Missense_Mutation_p.A121T|CRHR1_uc010dar.2_Missense_Mutation_p.A161T|CRHR1_uc010dao.2_Missense_Mutation_p.A60T|CRHR1_uc010daq.2_Intron|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_RNA	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	190	Helical; Name=2; (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CCTCATCTCCGCCTTCATCCT	0.627													31	92					0	0	0.012213	0	0		A	43907506	A	A	43907506	3	1	212	1	0	0	0	0	1	0	0	0	3874	1087	38	1	594	1	CRHR1	17	43907506	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	717006	43907506	37287704	1287	105092											
CRHR1	1394	broad.mit.edu	37	chr17	43907524	43907524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccttcatcctgcgcaacGccacctggttcgtggtccag	5	9	10	17	4	1	0	1	0	0	0	4	0	3	0	6	2	2	2	6	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:43907524G>A	uc010dap.2	+	7	851	c.586G>A	c.(586-588)GCC>ACC	p.A196T	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_Missense_Mutation_p.A66T|CRHR1_uc002ijm.2_Missense_Mutation_p.A167T|CRHR1_uc002ijn.2_Missense_Mutation_p.A127T|CRHR1_uc010dar.2_Missense_Mutation_p.A167T|CRHR1_uc010dao.2_Missense_Mutation_p.A66T|CRHR1_uc010daq.2_Intron|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_RNA	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	196	Helical; Name=2; (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CCTGCGCAACGCCACCTGGTT	0.627													30	62					0	0	0.008361	0	0		A	43907524	A	A	43907524	3	1	212	1	0	0	0	0	1	0	0	0	3874	1087	38	1	612	1	CRHR1	17	43907524	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	18	43907524	37287686	1288	105093											
DLX3	1747	broad.mit.edu	37	chr17	48069204	48069204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtttcttgaacttggaacGgcggttctggaaccagattt	9	13	12	7	2	2	2	0	1	2	1	2	5	2	4	1	4	3	2	1	4	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:48069204G>A	uc002ipy.2	-	3	767	c.541C>T	c.(541-543)CGT>TGT	p.R181C		NM_005220	NP_005211	O60479	DLX3_HUMAN	distal-less homeobox 3	181	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AACTTGGAACGGCGGTTCTGG	0.522													14	58					0	0	0.003163	0	0		A	48069204	A	A	48069204	3	1	212	1	0	0	0	0	1	0	0	0	4578	1116	39	1	326	1	DLX3	17	48069204	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4161680	48069204	33126006	1289	105094											
ITGA3	3675	broad.mit.edu	37	chr17	48148760	48148760	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccacggcaccgacatatgggCgcggtgttcttgctgagcca	7	8	13	13	4	1	1	0	1	1	0	1	2	1	1	3	3	2	3	3	3	1	3	rs145459787	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:48148760C>T	uc010dbl.2	+	6	1301	c.837C>T	c.(835-837)GGC>GGT	p.G279G	ITGA3_uc010dbm.2_Silent_p.G279G	NM_002204	NP_002195	P26006	ITA3_HUMAN	integrin alpha 3 isoform a precursor	279	FG-GAP 4.|Extracellular (Potential).				blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			ovary(2)|pancreas(1)	3						GACATATGGGCGCGGTGTTCT	0.622													11	58					0	0	0.013537	0	0		T	48148760	T	T	48148760	2	4	212	1	0	0	0	0	0	0	0	1	7893	755	27	1		1	ITGA3	17	48148760	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	79556	48148760	33046450	1290	105095											
PPP1R9B	84687	broad.mit.edu	37	chr17	48218655	48218655	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcactcggcccttggtgttcCggagcacagacgccgcgaag	7	6	14	14	5	0	1	0	0	0	1	2	3	1	2	3	3	1	3	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:48218655C>A	uc002iqh.3	-	6	1712	c.1709G>T	c.(1708-1710)CGG>CTG	p.R570L		NM_032595	NP_115984	Q96SB3	NEB2_HUMAN	protein phosphatase 1, regulatory subunit 9B	568	PDZ.				cell cycle arrest|cell differentiation|cell migration|filopodium assembly|negative regulation of cell growth|nervous system development|regulation of cell growth by extracellular stimulus|regulation of cell proliferation|regulation of exit from mitosis|RNA splicing	adherens junction|cytoskeleton|dendritic spine|filopodium|lamellipodium|nucleoplasm|protein phosphatase type 1 complex|ruffle membrane|synapse	actin binding|protein phosphatase 1 binding|protein phosphatase inhibitor activity				0						CTTGGTGTTCCGGAGCACAGA	0.632													4	9					0.000602214	0.00061769	0.000602	1	0		A	48218655	A	A	48218655	3	1	212	1	0	0	0	0	1	0	0	0	12401	652	23	5	772	5	PPP1R9B	17	48218655	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	69895	48218655	32976555	1291	105096											
COL1A1	1277	broad.mit.edu	37	chr17	48268238	48268238	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggccagtcagaccacggacGccatctttgccaggagagcc	9	5	13	14	2	2	2	1	0	1	2	2	4	2	3	5	3	2	0	5	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:48268238G>A	uc002iqm.2	-	33	2409	c.2283C>T	c.(2281-2283)GGC>GGT	p.G761G		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	761	Triple-helical region.				axon guidance|blood vessel development|collagen biosynthetic process|collagen fibril organization|embryonic skeletal system development|leukocyte migration|platelet activation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|protein localization to nucleus|sensory perception of sound|skin morphogenesis|tooth mineralization|visual perception	collagen type I|extracellular space|plasma membrane	identical protein binding|platelet-derived growth factor binding		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	GACCACGGACGCCATCTTTGC	0.587			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						4	51					0	0	0.009096	0	0		A	48268238	A	A	48268238	2	1	212	1	0	0	0	0	0	0	0	1	3680	1074	38	1		1	COL1A1	17	48268238	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	49583	48268238	32926972	1292	105097											
MRPL27	51264	broad.mit.edu	37	chr17	48447421	48447421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctgggtgccagcggaaatggCgctgtgttgcaatgatgttc	7	11	15	8	2	0	1	0	1	0	0	1	2	0	2	1	3	3	4	1	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:48447421C>T	uc002iqq.2	-	3	243	c.212G>A	c.(211-213)CGC>CAC	p.R71H	MRPL27_uc002iqr.2_Missense_Mutation_p.R71H	NM_016504	NP_057588	Q9P0M9	RM27_HUMAN	mitochondrial ribosomal protein L27	71					translation	mitochondrial large ribosomal subunit	structural constituent of ribosome				0	Breast(11;5.62e-19)		BRCA - Breast invasive adenocarcinoma(22;1.73e-07)			GCGGAAATGGCGCTGTGTTGC	0.512													8	40					0	0	0.013537	0	0		T	48447421	T	T	48447421	3	4	212	1	0	0	0	0	1	0	0	0	9809	768	27	1	242	1	MRPL27	17	48447421	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	179183	48447421	32747789	1293	105098											
DGKE	8526	broad.mit.edu	37	chr17	54912364	54912364	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgacacggacctgttcagcCagcccacctactgctgcgtg	7	7	11	16	3	1	0	1	0	0	0	1	2	1	1	4	1	5	2	4	1	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:54912364C>A	uc002iur.2	+	2	388	c.208C>A	c.(208-210)CAG>AAG	p.Q70K	DGKE_uc002ius.1_Missense_Mutation_p.Q70K|C17orf67_uc002iuq.2_5'Flank	NM_003647	NP_003638	P52429	DGKE_HUMAN	diacylglycerol kinase epsilon	70	Phorbol-ester/DAG-type 1.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|phospholipid biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding|protein binding			breast(2)	2	Breast(9;3.59e-07)					CCTGTTCAGCCAGCCCACCTA	0.682													19	76					3.51602e-12	3.89819e-12	0.008871	1	0		A	54912364	A	A	54912364	3	1	212	1	0	0	0	0	1	0	0	0	4474	595	21	5	210	5	DGKE	17	54912364	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6464943	54912364	26282846	1294	105099											
C17orf71	55181	broad.mit.edu	37	chr17	57290958	57290958	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcagataatactaatgcCtcaggtaagaaatataaccc	16	11	6	8	0	1	2	1	0	0	2	1	2	1	2	2	1	4	2	2	1	7	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:57290958C>A	uc002ixi.2	+	3	2816	c.2774C>A	c.(2773-2775)CCT>CAT	p.P925H		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	925					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					ATACTAATGCCTCAGGTAAGA	0.378													28	91					3.65163e-15	4.13596e-15	0.00632	1	0		A	57290958	A	A	57290958	3	1	212	1	0	0	0	0	1	0	0	0	1881	681	24	5	2784	5	C17orf71	17	57290958	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2378594	57290958	23904252	1295	105100											
CA4	762	broad.mit.edu	37	chr17	58233957	58233957	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaaactgccagaaggaccGccagtcccccatcaacatcg	12	5	9	15	2	1	1	1	0	0	1	3	3	2	3	5	2	3	0	5	2	3	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:58233957G>A	uc002iym.3	+	3	243	c.149G>A	c.(148-150)CGC>CAC	p.R50H	CA4_uc010wou.1_RNA	NM_000717	NP_000708	P22748	CAH4_HUMAN	carbonic anhydrase IV precursor	50					bicarbonate transport|one-carbon metabolic process	anchored to external side of plasma membrane|apical plasma membrane|brush border membrane|ER-Golgi intermediate compartment|membrane fraction|perinuclear region of cytoplasm|rough endoplasmic reticulum|secretory granule membrane|trans-Golgi network|transport vesicle membrane	carbonate dehydratase activity|protein binding|zinc ion binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.83e-12)|all cancers(12;6.83e-11)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Topiramate(DB00273)|Trichlormethiazide(DB01021)	CAGAAGGACCGCCAGTCCCCC	0.572													16	74					0	0	0.006122	0	0		A	58233957	A	A	58233957	3	1	212	1	0	0	0	0	1	0	0	0	2521	1087	38	1	159	1	CA4	17	58233957	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	942999	58233957	22961253	1296	105101											
USP32	84669	broad.mit.edu	37	chr17	58299799	58299799	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaggccaggtttgctccatAccagtgataaagtgctctcc	10	11	9	11	0	1	1	0	1	1	0	3	1	2	1	4	2	3	3	4	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:58299799A>G	uc002iyo.1	-	15	2006	c.1720T>C	c.(1720-1722)TAT>CAT	p.Y574H	USP32_uc002iyn.1_Missense_Mutation_p.Y244H	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	574	DUSP.				protein deubiquitination|ubiquitin-dependent protein catabolic process	Golgi apparatus|membrane	calcium ion binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|breast(2)|large_intestine(1)	5	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;2.02e-11)|all cancers(12;5.23e-10)|Colorectal(3;0.198)			TTTGCTCCATACCAGTGATAA	0.423													11	340					0	0	0.013537	0	0		G	58299799	G	G	58299799	3	3	212	1	0	0	0	0	1	0	0	0	17089	391	14	3	3174	3	USP32	17	58299799	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	65842	58299799	22895411	1297	105102											
DDX42	11325	broad.mit.edu	37	chr17	61895287	61895287	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgacctacccgtctgcCggagcccaaggagtcaacaa	10	6	10	15	2	2	1	1	1	1	0	2	3	2	3	5	2	4	0	5	2	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:61895287C>A	uc002jbu.2	+	19	2603	c.2346C>A	c.(2344-2346)GCC>GCA	p.A782A	DDX42_uc002jbv.2_Silent_p.A782A|DDX42_uc002jbx.2_Silent_p.A518A|DDX42_uc002jby.2_Silent_p.A328A|DDX42_uc010wps.1_Silent_p.A150A	NM_007372	NP_031398	Q86XP3	DDX42_HUMAN	DEAD box polypeptide 42 protein	782	Gly-rich.|Necessary for interaction with TP53BP2.				protein localization|regulation of anti-apoptosis	Cajal body|cytoplasm|nuclear speck	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)|large_intestine(1)	5						ACCCGTCTGCCGGAGCCCAAG	0.577													22	43					6.44725e-10	6.99595e-10	0.014323	1	0		A	61895287	A	A	61895287	2	1	212	1	0	0	0	0	0	0	0	1	4365	639	23	5		5	DDX42	17	61895287	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3595488	61895287	19299923	1298	105103											
SCN4A	6329	broad.mit.edu	37	chr17	62049733	62049733	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catggatgagcaccttgatgGccccgcgcctgactacgctg	7	8	12	14	3	0	3	0	3	0	0	0	4	0	4	4	2	2	2	4	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:62049733G>A	uc002jds.1	-	2	448	c.371C>T	c.(370-372)GCC>GTC	p.A124V		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	124					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CACCTTGATGGCCCCGCGCCT	0.602													10	20					0	0	0.008291	0	0		A	62049733	A	A	62049733	3	1	212	1	0	0	0	0	1	0	0	0	13945	1203	42	2	5231	2	SCN4A	17	62049733	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	154446	62049733	19145477	1299	105104											
TEX2	55852	broad.mit.edu	37	chr17	62291475	62291475	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggatgccgagaagtgaatggCgatggtatctcgggacacgg	10	7	17	7	4	1	2	0	1	1	1	2	6	1	4	1	5	1	1	1	5	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:62291475C>T	uc002jec.2	-	2	276	c.103G>A	c.(103-105)GCC>ACC	p.A35T	TEX2_uc002jed.2_Missense_Mutation_p.A35T|TEX2_uc002jee.2_Missense_Mutation_p.A35T	NM_018469	NP_060939	Q8IWB9	TEX2_HUMAN	testis expressed sequence 2	35					signal transduction|sphingolipid metabolic process	integral to membrane				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;1.33e-10)	READ - Rectum adenocarcinoma(1115;0.0689)		AAGTGAATGGCGATGGTATCT	0.468													13	54					0	0	0.013537	0	0		T	62291475	T	T	62291475	3	4	212	1	0	0	0	0	1	0	0	0	15806	768	27	1	3345	1	TEX2	17	62291475	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	241742	62291475	18903735	1300	105105											
CCDC46	201134	broad.mit.edu	37	chr17	63685297	63685297	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taattttttctctgcacatcGcacctgattagaacggtttt	9	17	6	9	2	1	2	0	1	1	1	3	2	1	2	1	1	2	3	1	1	3	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:63685297G>A	uc002jfl.2	-	24	2866	c.2647C>T	c.(2647-2649)CGA>TGA	p.R883*	CCDC46_uc010deo.2_Nonsense_Mutation_p.R554*|CCDC46_uc002jfm.2_Nonsense_Mutation_p.R883*|CCDC46_uc010dep.2_Nonsense_Mutation_p.R841*|CCDC46_uc002jfk.2_Nonsense_Mutation_p.R139*	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	883	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			TCTGCACATCGCACCTGATTA	0.338													14	61					0	0	0.004007	0	0		A	63685297	A	A	63685297	4	1	212	1	0	0	0	0	0	1	0	0	2820	1095	38	1	236	1	CCDC46	17	63685297	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1393822	63685297	17509913	1301	105106											
CCDC46	201134	broad.mit.edu	37	chr17	64049870	64049870	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcactgtggactgtgtttgcGccatgtattcactctccatt	6	16	8	11	1	3	0	2	0	1	0	4	1	3	1	2	1	1	2	2	1	1	4	rs147020220	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:64049870G>A	uc002jfl.2	-	12	1421	c.1202C>T	c.(1201-1203)GCG>GTG	p.A401V	CCDC46_uc010deo.2_Missense_Mutation_p.A143V|CCDC46_uc002jfm.2_Missense_Mutation_p.A401V|CCDC46_uc010dep.2_Missense_Mutation_p.A359V	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	401	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			CTGTGTTTGCGCCATGTATTC	0.398													42	148					0	0	0.01441	0	0		A	64049870	A	A	64049870	3	1	212	1	0	0	0	0	1	0	0	0	2820	1087	38	1	1895	1	CCDC46	17	64049870	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	364573	64049870	17145340	1302	105107											
PRKCA	5578	broad.mit.edu	37	chr17	64770155	64770155	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggactggtgggcctatggCgtcctgttgtatgaaatgct	6	13	15	7	1	0	1	0	1	0	0	1	2	1	2	2	4	1	3	2	4	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:64770155C>T	uc002jfp.1	+	14	1619	c.1575C>T	c.(1573-1575)GGC>GGT	p.G525G	PRKCA_uc002jfo.1_Silent_p.G396G	NM_002737	NP_002728	P17252	KPCA_HUMAN	protein kinase C, alpha	525	Protein kinase.				activation of phospholipase C activity|energy reserve metabolic process|induction of apoptosis by extracellular signals|intracellular signal transduction|mRNA metabolic process|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of blood vessel endothelial cell migration|regulation of insulin secretion|response to interleukin-1|synaptic transmission	cytosol|endoplasmic reticulum|membrane fraction|nucleoplasm|plasma membrane	ATP binding|enzyme binding|histone kinase activity (H3-T6 specific)|protein kinase C activity|zinc ion binding			central_nervous_system(4)|large_intestine(1)|stomach(1)|lung(1)|breast(1)|ovary(1)	9			BRCA - Breast invasive adenocarcinoma(6;4.68e-09)		Phosphatidylserine(DB00144)|Vitamin E(DB00163)	GGGCCTATGGCGTCCTGTTGT	0.428													40	82					0	0	0.009718	0	0		T	64770155	T	T	64770155	2	4	212	1	0	0	0	0	0	0	0	1	12529	755	27	1		1	PRKCA	17	64770155	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	720285	64770155	16425055	1303	105108											
CACNG5	27091	broad.mit.edu	37	chr17	64873620	64873620	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	caagatgtccctgcactcagGcctctggcgggtctgcttcc	5	10	11	15	1	3	1	1	0	2	1	5	1	5	1	3	3	2	2	3	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:64873620G>A	uc010wqi.1	+	2	407	c.170G>A	c.(169-171)GGC>GAC	p.G57D	CACNG5_uc002jfr.2_Missense_Mutation_p.G57D|CACNG5_uc010wqj.1_Missense_Mutation_p.G57D	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	57					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			CTGCACTCAGGCCTCTGGCGG	0.627													16	50					0	0	0.004007	0	0		A	64873620	A	A	64873620	3	1	212	1	0	0	0	0	1	0	0	0	2563	1203	42	2	172	2	CACNG5	17	64873620	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	103465	64873620	16321590	1304	105109											
CACNG5	27091	broad.mit.edu	37	chr17	64875104	64875104	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacaggtgaggagcgggggCgttgcttcaccatagaatat	10	8	14	9	2	1	2	1	1	0	1	1	3	1	3	2	4	2	2	2	4	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:64875104C>T	uc010wqi.1	+	3	448	c.211C>T	c.(211-213)CGT>TGT	p.R71C	CACNG5_uc002jfr.2_Missense_Mutation_p.R71C|CACNG5_uc010wqj.1_Missense_Mutation_p.R71C	NM_145811	NP_665810	Q9UF02	CCG5_HUMAN	voltage-dependent calcium channel gamma-5	71					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			pancreas(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			GGAGCGGGGGCGTTGCTTCAC	0.483													24	55					0	0	0.004656	0	0		T	64875104	T	T	64875104	3	4	212	1	0	0	0	0	1	0	0	0	2563	768	27	1	217	1	CACNG5	17	64875104	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1484	64875104	16320106	1305	105110											
BPTF	2186	broad.mit.edu	37	chr17	65928070	65928070	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccctggtatgaccgtgattaGaacaccactccaacagtcaa	13	8	7	13	1	1	3	1	2	0	1	2	3	2	3	4	1	2	1	4	1	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:65928070G>C	uc002jgf.2	+	18	6255	c.6194G>C	c.(6193-6195)AGA>ACA	p.R2065T	BPTF_uc002jge.2_Missense_Mutation_p.R2191T	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2191					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			ACCGTGATTAGAACACCACTC	0.373													21	60					0	0	0.00333	0	0		C	65928070	C	C	65928070	3	2	212	1	0	0	0	0	1	0	0	0	1498	942	33	5	6650	5	BPTF	17	65928070	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1052966	65928070	15267140	1306	105111											
ARSG	22901	broad.mit.edu	37	chr17	66391272	66391272	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggccagcttacctcaaggaCggcgctttgatggtgtggac	8	9	14	10	2	1	1	1	1	0	0	1	3	1	3	2	5	2	2	2	5	2	2	rs150072981		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:66391272C>T	uc002jhc.2	+	10	1946	c.1150C>T	c.(1150-1152)CGG>TGG	p.R384W	ARSG_uc002jhb.1_Missense_Mutation_p.R220W	NM_014960	NP_055775	Q96EG1	ARSG_HUMAN	Arylsulfatase G precursor	384					sulfur compound metabolic process	endoplasmic reticulum|extracellular space|lysosome	arylsulfatase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(8;5.34e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			ACCTCAAGGACGGCGCTTTGA	0.567													18	66					0	0	0.007413	0	0		T	66391272	T	T	66391272	3	4	212	1	0	0	0	0	1	0	0	0	993	527	19	1	1184	1	ARSG	17	66391272	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	463202	66391272	14803938	1307	105112											
CD300LB	124599	broad.mit.edu	37	chr17	72521981	72521981	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcatctcgcctgagcccCtccatggtcacagtgaacgt	7	9	10	15	3	3	2	2	2	1	0	5	2	4	2	4	1	2	0	4	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:72521981C>A	uc002jkx.2	-	2	400	c.387G>T	c.(385-387)GAG>GAT	p.E129D	CD300LB_uc010wqz.1_Missense_Mutation_p.E129D	NM_174892	NP_777552	A8K4G0	CLM7_HUMAN	CD300 molecule-like family member b	92	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)	1						GCCTGAGCCCCTCCATGGTCA	0.512													49	138					1.86277e-20	2.15912e-20	0.01441	1	0		A	72521981	A	A	72521981	3	1	212	1	0	0	0	0	1	0	0	0	3002	680	24	5	341	5	CD300LB	17	72521981	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6130709	72521981	8673229	1308	105113											
SLC25A19	60386	broad.mit.edu	37	chr17	73274291	73274291	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggtgcttcaaggagctgtaGcaagagaactgcagcccggc	11	6	14	10	1	1	1	1	0	0	1	1	3	1	2	1	3	6	5	1	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:73274291G>A	uc002jns.3	-	4	1495	c.585C>T	c.(583-585)TGC>TGT	p.C195C	SLC25A19_uc010dge.2_Silent_p.C138C|SLC25A19_uc002jnv.3_Silent_p.C195C|SLC25A19_uc002jnu.3_Silent_p.C195C|SLC25A19_uc002jnw.3_Silent_p.C195C|SLC25A19_uc002jnt.3_Silent_p.C195C	NM_021734	NP_068380	Q9HC21	TPC_HUMAN	solute carrier family 25, member 19	195	Solcar 2.					integral to membrane|mitochondrial inner membrane	binding|deoxynucleotide transmembrane transporter activity			ovary(1)	1	all_cancers(13;5.98e-08)|all_epithelial(9;1.16e-08)|Breast(9;3.1e-08)		all cancers(21;6.82e-07)|Epithelial(20;6.86e-06)			AGGAGCTGTAGCAAGAGAACT	0.582													57	166					0	0	0.01441	0	0		A	73274291	A	A	73274291	2	1	212	1	0	0	0	0	0	0	0	1	14506	963	34	2		2	SLC25A19	17	73274291	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	752310	73274291	7920919	1309	105114											
ITGB4	3691	broad.mit.edu	37	chr17	73727940	73727940	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgagcacgtggatgggacGcacgtgtgccagctgccgga	7	7	16	11	4	0	1	0	1	0	0	0	4	0	4	2	3	4	3	2	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:73727940G>A	uc002jpg.2	+	11	1450	c.1263G>A	c.(1261-1263)ACG>ACA	p.T421T	ITGB4_uc002jph.2_Silent_p.T421T|ITGB4_uc010dgo.2_Silent_p.T421T|ITGB4_uc002jpi.3_Silent_p.T421T|ITGB4_uc010dgp.1_Silent_p.T421T|ITGB4_uc002jpj.2_Silent_p.T421T|ITGB4_uc010wsh.1_5'UTR	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	421	Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	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)			TGGATGGGACGCACGTGTGCC	0.637													4	16					0	0	0.009096	0	0		A	73727940	A	A	73727940	2	1	212	1	0	0	0	0	0	0	0	1	7913	1074	38	1		1	ITGB4	17	73727940	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	453649	73727940	7467270	1310	105115											
EVPL	2125	broad.mit.edu	37	chr17	74013833	74013833	+	Missense_Mutation	SNP	A	G	G	1	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	cacccacctcatggctgtggAtgcggccctccaagtcctcc	6	8	9	18	1	1	0	1	0	0	0	4	1	4	1	6	3	1	1	6	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:74013833A>G	uc002jqi.2	-	14	1925	c.1697T>C	c.(1696-1698)ATC>ACC	p.I566T	EVPL_uc010wss.1_Missense_Mutation_p.I588T|EVPL_uc010wst.1_Missense_Mutation_p.I36T	NM_001988	NP_001979	Q92817	EVPL_HUMAN	envoplakin	566	Globular 1.				keratinization|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural molecule activity			pancreas(2)|central_nervous_system(1)|skin(1)	4						ATGGCTGTGGATGCGGCCCTC	0.687													20	58					0	0	0.00278	0	0		G	74013833	G	G	74013833	3	3	212	1	0	0	0	0	1	0	0	0	5300	333	12	3	4440	3	EVPL	17	74013833	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	285893	74013833	7181377	1311	105116											
SRP68	6730	broad.mit.edu	37	chr17	74060139	74060139	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgcatgcttcacggctttgCgtaggcgagataacaagtga	10	10	12	9	3	1	2	1	1	0	1	1	3	1	2	0	2	4	4	0	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:74060139C>T	uc002jqk.1	-	4	514	c.479G>A	c.(478-480)CGC>CAC	p.R160H	SRP68_uc010wsu.1_Missense_Mutation_p.R59H|SRP68_uc002jql.1_Missense_Mutation_p.R122H	NM_014230	NP_055045	Q9UHB9	SRP68_HUMAN	signal recognition particle 68kDa	160					response to drug	cytosol|endoplasmic reticulum|nucleolus|ribosome|signal recognition particle, endoplasmic reticulum targeting	RNA binding|signal recognition particle binding			ovary(1)	1						CACGGCTTTGCGTAGGCGAGA	0.502													32	102					0	0	0.003755	0	0		T	74060139	T	T	74060139	3	4	212	1	0	0	0	0	1	0	0	0	15181	768	27	1	1456	1	SRP68	17	74060139	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	46306	74060139	7135071	1312	105117											
ZACN	353174	broad.mit.edu	37	chr17	74077461	74077461	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccaagtcccaccccagcagcTggtgccctgcttccaggtga	7	7	10	17	0	0	1	0	1	0	0	2	1	2	1	6	2	4	3	6	2	1	1	rs147360559	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:74077461T>C	uc002jqn.2	+	6	730	c.647T>C	c.(646-648)CTG>CCG	p.L216P	ZACN_uc002jqo.2_RNA|ZACN_uc010dgu.2_RNA|EXOC7_uc002jqp.1_3'UTR|EXOC7_uc010dgv.1_3'UTR|EXOC7_uc002jqs.2_3'UTR|EXOC7_uc002jqq.2_3'UTR|EXOC7_uc010wsw.1_3'UTR|EXOC7_uc010wsx.1_3'UTR|EXOC7_uc002jqr.2_3'UTR|EXOC7_uc010wsv.1_3'UTR	NM_180990	NP_851321	Q401N2	ZACN_HUMAN	zinc activated ligand-gated ion channel	216	Extracellular (Potential).				response to zinc ion	integral to membrane|membrane fraction|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity				0						CCCCAGCAGCTGGTGCCCTGC	0.597													10	202					0	0	0.00245	0	0		C	74077461	C	C	74077461	3	2	212	1	0	0	0	0	1	0	0	0	17536	1580	55	3	669	3	ZACN	17	74077461	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	17322	74077461	7117749	1313	105118											
UBE2O	63893	broad.mit.edu	37	chr17	74394386	74394386	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtattgccgatgcggatgaCgatgtcagttgtacggaacc	10	10	13	8	4	1	1	1	1	0	0	1	5	1	3	2	2	4	3	2	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:74394386C>T	uc002jrm.3	-	12	2040	c.1975G>A	c.(1975-1977)GTC>ATC	p.V659I	UBE2O_uc002jrn.3_Missense_Mutation_p.V659I|UBE2O_uc002jrl.3_Missense_Mutation_p.V262I	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	659							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						ATGCGGATGACGATGTCAGTT	0.522											OREG0024751	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	273					0	0	0.012319	0	0		T	74394386	T	T	74394386	3	4	212	1	0	0	0	0	1	0	0	0	16894	536	19	1	1931	1	UBE2O	17	74394386	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	316925	74394386	6800824	1314	105119											
JMJD6	23210	broad.mit.edu	37	chr17	74721697	74721697	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaggggactatcatctcgagTgctctccatgtactcgatgt	9	12	10	10	2	3	0	1	0	2	0	6	3	3	1	1	2	2	2	1	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:74721697T>C	uc002jso.2	-	2	694	c.370A>G	c.(370-372)ACT>GCT	p.T124A	JMJD6_uc002jsn.1_Missense_Mutation_p.T124A|JMJD6_uc010dgz.2_Missense_Mutation_p.T124A|C17orf95_uc002jsp.2_5'Flank|C17orf95_uc002jsq.2_5'Flank|C17orf95_uc002jsr.2_5'Flank|C17orf95_uc002jss.2_5'Flank|C17orf95_uc002jst.2_5'Flank|C17orf95_uc002jsu.2_5'Flank	NM_015167	NP_055982	Q6NYC1	JMJD6_HUMAN	jumonji domain containing 6 isoform 2	124					mRNA processing|peptidyl-lysine hydroxylation to 5-hydroxy-L-lysine|regulation of nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|RNA splicing|sprouting angiogenesis|transcription, DNA-dependent	nucleolus|nucleoplasm	histone demethylase activity (H3-R2 specific)|histone demethylase activity (H4-R3 specific)|identical protein binding|iron ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptidyl-lysine 5-dioxygenase activity|single-stranded RNA binding			skin(2)|ovary(1)	3						TCATCTCGAGTGCTCTCCATG	0.413													14	127					0	0	0.00499	0	0		C	74721697	C	C	74721697	3	2	212	1	0	0	0	0	1	0	0	0	7969	1696	59	3	902	3	JMJD6	17	74721697	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	327311	74721697	6473513	1315	105120											
MGAT5B	146664	broad.mit.edu	37	chr17	74928844	74928844	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtggtgtacggcaaggaggCgagcatctggaaggtgagcg	9	6	19	7	4	1	1	0	1	1	0	1	4	1	3	0	6	3	3	0	6	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:74928844C>T	uc002jti.2	+	10	1545	c.1442C>T	c.(1441-1443)GCG>GTG	p.A481V	MGAT5B_uc002jth.2_Missense_Mutation_p.A470V	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	470	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						GGCAAGGAGGCGAGCATCTGG	0.667													21	60					0	0	0.00333	0	0		T	74928844	T	T	74928844	3	4	212	1	0	0	0	0	1	0	0	0	9567	768	27	1	1552	1	MGAT5B	17	74928844	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	207147	74928844	6266366	1316	105121											
MGAT5B	146664	broad.mit.edu	37	chr17	74936520	74936520	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcccctacgagggccccGcccccctggaggccatcgcc	4	5	11	21	3	0	0	0	0	0	0	2	2	1	1	9	3	1	1	9	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:74936520G>A	uc002jti.2	+	12	1751	c.1648G>A	c.(1648-1650)GCC>ACC	p.A550T	MGAT5B_uc002jth.2_Missense_Mutation_p.A539T	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	541	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						CGAGGGCCCCGCCCCCCTGGA	0.657													24	82					0	0	0.005443	0	0		A	74936520	A	A	74936520	3	1	212	1	0	0	0	0	1	0	0	0	9567	1087	38	1	1766	1	MGAT5B	17	74936520	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	7676	74936520	6258690	1317	105122											
ENGASE	64772	broad.mit.edu	37	chr17	77079993	77079993	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggcagctccctgctcgtcCggggtgtgatcccaccggag	5	7	15	14	3	0	1	0	1	0	0	4	3	3	2	4	4	2	3	4	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:77079993C>T	uc002jwv.2	+	10	1410	c.1402C>T	c.(1402-1404)CGG>TGG	p.R468W	ENGASE_uc002jww.2_Missense_Mutation_p.R174W	NM_001042573	NP_001036038	Q8NFI3	ENASE_HUMAN	endo-beta-N-acetylglucosaminidase	468						cytosol	mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity			skin(1)	1						CCTGCTCGTCCGGGGTGTGAT	0.652													8	23					0	0	0.008291	0	0		T	77079993	T	T	77079993	3	4	212	1	0	0	0	0	1	0	0	0	5126	643	23	1	1440	1	ENGASE	17	77079993	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2143473	77079993	4115217	1318	105123											
ENPP7	339221	broad.mit.edu	37	chr17	77708929	77708929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggagccggaaagaaggcatcGcacacaactacaaaaatgag	18	3	11	9	2	0	2	0	1	0	1	1	4	0	4	1	3	3	2	1	3	6	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:77708929G>A	uc002jxa.2	+	3	507	c.487G>A	c.(487-489)GCA>ACA	p.A163T		NM_178543	NP_848638	Q6UWV6	ENPP7_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	163					negative regulation of cell proliferation|negative regulation of DNA replication|sphingomyelin metabolic process	Golgi apparatus|integral to membrane|microvillus	sphingomyelin phosphodiesterase activity			central_nervous_system(2)|ovary(1)	3			OV - Ovarian serous cystadenocarcinoma(97;0.016)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			AGAAGGCATCGCACACAACTA	0.587													15	56					0	0	0.006122	0	0		A	77708929	A	A	77708929	3	1	212	1	0	0	0	0	1	0	0	0	5143	1087	38	1	497	1	ENPP7	17	77708929	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	628936	77708929	3486281	1319	105124											
CARD14	79092	broad.mit.edu	37	chr17	78169019	78169019	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcggacctgagtgccacGtccagccgcgagctggtgga	6	8	15	12	4	0	1	0	1	0	0	2	4	1	3	4	3	3	1	4	3	0	1	rs146882682		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:78169019G>A	uc002jxw.1	+	10	1581	c.1386G>A	c.(1384-1386)ACG>ACA	p.T462T	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Silent_p.T462T|CARD14_uc010wud.1_RNA|CARD14_uc002jxx.2_Silent_p.T225T|CARD14_uc010dhu.1_Silent_p.T260T	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	462					activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			TGAGTGCCACGTCCAGCCGCG	0.672													22	41					0	0	0.003954	0	0		A	78169019	A	A	78169019	2	1	212	1	0	0	0	0	0	0	0	1	2649	1132	40	1		1	CARD14	17	78169019	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	460090	78169019	3026191	1320	105125											
CARD14	79092	broad.mit.edu	37	chr17	78169064	78169064	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttccgctccagcagccccgcGccccccagccagcagtccct	5	5	8	23	3	0	0	0	0	0	0	3	0	3	0	9	0	4	3	9	0	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:78169064G>A	uc002jxw.1	+	10	1626	c.1431G>A	c.(1429-1431)GCG>GCA	p.A477A	CARD14_uc002jxt.1_RNA|CARD14_uc002jxv.2_Silent_p.A477A|CARD14_uc010wud.1_RNA|CARD14_uc002jxx.2_Silent_p.A240A|CARD14_uc010dhu.1_Silent_p.A275A	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	477					activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)		OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			GCAGCCCCGCGCCCCCCAGCC	0.657													11	27					0	0	0.013537	0	0		A	78169064	A	A	78169064	2	1	212	1	0	0	0	0	0	0	0	1	2649	1074	38	1		1	CARD14	17	78169064	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	45	78169064	3026146	1321	105126											
RAC3	5881	broad.mit.edu	37	chr17	79991327	79991327	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctgcagtggtacccggaGgtgcggcaccactgccccca	6	6	12	17	2	0	0	0	0	0	0	1	1	1	1	5	4	4	3	5	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:79991327G>T	uc002kdf.2	+	5	406	c.300G>T	c.(298-300)GAG>GAT	p.E100D		NM_005052	NP_005043	P60763	RAC3_HUMAN	ras-related C3 botulinum toxin substrate 3 (rho	100					actin cytoskeleton organization|cell projection assembly|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endomembrane system|filamentous actin|growth cone|lamellipodium|neuronal cell body|plasma membrane	GTP binding|GTPase activity|protein binding				0	all_neural(118;0.0878)|Ovarian(332;0.12)|all_lung(278;0.246)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0191)			GGTACCCGGAGGTGCGGCACC	0.667													9	21					2.74318e-10	2.98546e-10	0.006214	1	0		T	79991327	T	T	79991327	3	4	212	1	0	0	0	0	1	0	0	0	13001	991	35	5	318	5	RAC3	17	79991327	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1822263	79991327	1203883	1322	105127											
NARF	26502	broad.mit.edu	37	chr17	80426665	80426665	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgatacctcaaagcacaaagTgctggtagtgtctgtgtgtc	10	12	11	8	0	2	1	1	1	1	0	3	1	2	1	1	1	3	3	1	1	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr17:80426665T>C	uc002kfg.3	+	4	418	c.278T>C	c.(277-279)GTG>GCG	p.V93A	NARF_uc002kff.3_Missense_Mutation_p.V34A|NARF_uc010wvo.1_Missense_Mutation_p.V93A|NARF_uc010wvp.1_5'UTR|NARF_uc010dit.2_Missense_Mutation_p.V93A|NARF_uc002kfj.3_Missense_Mutation_p.V45A|NARF_uc002kfi.3_RNA|NARF_uc002kfh.3_Missense_Mutation_p.V93A|NARF_uc002kfk.2_RNA	NM_012336	NP_036468	Q9UHQ1	NARF_HUMAN	nuclear prelamin A recognition factor isoform a	93						lamin filament	lamin binding			skin(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)			AAGCACAAAGTGCTGGTAGTG	0.378													11	70					0	0	0.00245	0	0		C	80426665	C	C	80426665	3	2	212	1	0	0	0	0	1	0	0	0	10185	1696	59	3	292	3	NARF	17	80426665	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	435338	80426665	768545	1323	105128											
USP14	9097	broad.mit.edu	37	chr18	196733	196733	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catggctttcccacagtttgCcgagaaaggtgaacaaggac	12	8	11	10	1	0	2	0	1	0	1	1	4	1	3	2	3	2	2	2	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:196733C>T	uc002kkf.1	+	7	776	c.560C>T	c.(559-561)GCC>GTC	p.A187V	USP14_uc002kkg.1_Missense_Mutation_p.A152V|USP14_uc010wyr.1_Missense_Mutation_p.A176V	NM_005151	NP_005142	P54578	UBP14_HUMAN	ubiquitin specific protease 14 isoform a	187					regulation of chemotaxis|regulation of proteasomal protein catabolic process|ubiquitin-dependent protein catabolic process	cell surface|cytoplasmic membrane-bounded vesicle|plasma membrane|proteasome complex	cysteine-type endopeptidase activity|endopeptidase inhibitor activity|proteasome binding|tRNA guanylyltransferase activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(2)	2		all_cancers(4;0.0896)|Myeloproliferative disorder(11;0.0412)				CCACAGTTTGCCGAGAAAGGT	0.373													26	86					0	0	0.007291	0	0		T	196733	T	T	196733	3	4	212	1	0	0	0	0	1	0	0	0	17071	739	26	2	586	2	USP14	18	196733	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		196733	77880515	1324	105129											
CEP192	55125	broad.mit.edu	37	chr18	13049657	13049657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtgacttttgaaaaccatcGcatagtctcacctaaaaata	15	12	5	9	1	1	2	1	2	1	0	3	2	1	2	2	0	1	1	2	0	7	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:13049657G>A	uc010xac.1	+	16	2947	c.2867G>A	c.(2866-2868)CGC>CAC	p.R956H	CEP192_uc010dlf.1_RNA|CEP192_uc010xad.1_Missense_Mutation_p.R481H|CEP192_uc002kru.2_RNA|CEP192_uc002krs.1_Missense_Mutation_p.R697H	NM_032142	NP_115518	E9PF99	E9PF99_HUMAN	centrosomal protein 192kDa	956										ovary(4)|pancreas(1)	5						GAAAACCATCGCATAGTCTCA	0.363													20	18					0	0	0.010504	0	0		A	13049657	A	A	13049657	3	1	212	1	0	0	0	0	1	0	0	0	3254	1087	38	1	2925	1	CEP192	18	13049657	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	12852924	13049657	65027591	1325	105130											
POTEC	388468	broad.mit.edu	37	chr18	14534979	14534979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgctgtttttgttcatgtaCgccaagcaaaagtggtgtga	9	15	11	6	1	1	1	1	1	0	0	1	1	1	1	1	1	3	5	1	1	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:14534979C>T	uc010dln.2	-	4	1292	c.838G>A	c.(838-840)GTA>ATA	p.V280I	POTEC_uc010xaj.1_RNA	NM_001137671	NP_001131143	B2RU33	POTEC_HUMAN	ANKRD26-like family B, member 2	280	ANK 5.									skin(3)	3						TGTTCATGTACGCCAAGCAAA	0.299													8	33					0	0	0.00278	0	0		T	14534979	T	T	14534979	3	4	212	1	0	0	0	0	1	0	0	0	12281	536	19	1	822	1	POTEC	18	14534979	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1485322	14534979	63542269	1326	105131											
NPC1	4864	broad.mit.edu	37	chr18	21119843	21119843	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgttgcagcccatgccgccGcacaccatgttctgcccctt	5	11	8	17	2	1	0	0	0	1	0	1	0	1	0	6	0	4	4	6	0	0	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:21119843G>A	uc002kum.3	-	18	3001	c.2727C>T	c.(2725-2727)TGC>TGT	p.C909C	NPC1_uc010xaz.1_Silent_p.C642C|NPC1_uc010xba.1_Silent_p.C754C	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	909					autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					CCATGCCGCCGCACACCATGT	0.537													22	40					0	0	0.00333	0	0		A	21119843	A	A	21119843	2	1	212	1	0	0	0	0	0	0	0	1	10589	1079	38	1		1	NPC1	18	21119843	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6584864	21119843	56957405	1327	105132											
LAMA3	3909	broad.mit.edu	37	chr18	21441734	21441734	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcccgcaaccatccacagcgCgtcctgggtcgcacccacct	7	5	9	20	4	0	0	0	0	0	0	3	0	2	0	6	1	2	2	6	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:21441734C>T	uc002kuq.2	+	35	4633	c.4547C>T	c.(4546-4548)GCG>GTG	p.A1516V	LAMA3_uc002kur.2_Missense_Mutation_p.A1516V	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	1516	Laminin IV type A.				cell adhesion|epidermis development|hemidesmosome assembly|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|skin(2)|central_nervous_system(1)	11	all_cancers(21;7.81e-05)|all_epithelial(16;4.45e-07)|Lung NSC(20;0.00156)|all_lung(20;0.00508)|Colorectal(14;0.0202)|Ovarian(20;0.17)				Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	ATCCACAGCGCGTCCTGGGTC	0.592													6	12					0	0	0.001984	0	0		T	21441734	T	T	21441734	3	4	212	1	0	0	0	0	1	0	0	0	8623	768	27	1	4685	1	LAMA3	18	21441734	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	321891	21441734	56635514	1328	105133											
ZNF521	25925	broad.mit.edu	37	chr18	22805650	22805650	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	actttcttttcgttactgtgCttcacagccaagtggagctg	7	15	9	10	1	2	0	1	0	1	0	3	1	2	1	1	1	4	3	1	1	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:22805650C>A	uc002kvk.2	-	4	2479	c.2232G>T	c.(2230-2232)AAG>AAT	p.K744N	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.K744N|ZNF521_uc002kvl.2_Missense_Mutation_p.K524N	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	744	C2H2-type 17.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					CGTTACTGTGCTTCACAGCCA	0.478			T	PAX5	ALL								13	21					0.000151284	0.000156837	0.001855	1	0		A	22805650	A	A	22805650	3	1	212	1	0	0	0	0	1	0	0	0	17990	796	28	5	1723	5	ZNF521	18	22805650	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1363916	22805650	55271598	1329	105134											
ZNF521	25925	broad.mit.edu	37	chr18	22807108	22807108	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtttttggaggtcttcCgggaagtcaaagccttcctc	7	14	11	9	1	2	0	1	0	1	0	5	2	4	2	3	3	1	1	3	3	2	4	rs34187076		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:22807108C>T	uc002kvk.2	-	4	1021	c.774G>A	c.(772-774)CCG>CCA	p.P258P	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.P258P|ZNF521_uc002kvl.2_Silent_p.P38P	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	258	C2H2-type 6.				cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GGAGGTCTTCCGGGAAGTCAA	0.557			T	PAX5	ALL								22	56					0	0	0.00278	0	0		T	22807108	T	T	22807108	2	4	212	1	0	0	0	0	0	0	0	1	17990	639	23	1		1	ZNF521	18	22807108	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1458	22807108	55270140	1330	105135											
DSC1	1823	broad.mit.edu	37	chr18	28728576	28728576	+	Silent	SNP	G	T	T	0	0	1	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	agtggatattctggtgcataGccatctgcagttgttgcata	9	14	11	7	0	2	0	0	0	2	0	2	1	2	1	1	2	4	5	1	2	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:28728576G>T	uc002kwn.2	-	6	919	c.657C>A	c.(655-657)GGC>GGA	p.G219G	DSC1_uc002kwm.2_Silent_p.G219G	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	219	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			CTGGTGCATAGCCATCTGCAG	0.383													21	43					7.45023e-12	8.24013e-12	0.010504	1	0		T	28728576	T	T	28728576	2	4	212	1	0	0	0	0	0	0	0	1	4771	958	34	5		5	DSC1	18	28728576	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5921468	28728576	49348672	1331	105136											
DSG3	1830	broad.mit.edu	37	chr18	29038476	29038476	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagtgggaatcgatcagccGccttttggaatctttgttgt	7	14	13	7	2	2	0	1	0	1	0	3	4	2	3	2	3	1	1	2	3	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:29038476G>A	uc002kws.2	+	4	394	c.285G>A	c.(283-285)CCG>CCA	p.P95P		NM_001944	NP_001935	P32926	DSG3_HUMAN	desmoglein 3 preproprotein	95	Extracellular (Potential).|Cadherin 1.				cellular component disassembly involved in apoptosis|homophilic cell adhesion	cytosol|desmosome|integral to membrane	calcium ion binding			skin(4)|ovary(3)|lung(1)|central_nervous_system(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			TCGATCAGCCGCCTTTTGGAA	0.443													23	31					0	0	0.00278	0	0		A	29038476	A	A	29038476	2	1	212	1	0	0	0	0	0	0	0	1	4784	1074	38	1		1	DSG3	18	29038476	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	309900	29038476	49038772	1332	105137											
DSG2	1829	broad.mit.edu	37	chr18	29121196	29121196	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgtgccattgcggaaagggCgccaaaggctttacccccat	10	8	11	12	2	0	0	0	0	0	0	0	1	0	1	4	3	3	1	4	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:29121196C>T	uc002kwu.3	+	13	2108	c.1920C>T	c.(1918-1920)GGC>GGT	p.G640G		NM_001943	NP_001934	Q14126	DSG2_HUMAN	desmoglein 2 preproprotein	640	Cytoplasmic (Potential).				cellular component disassembly involved in apoptosis|homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(2)|breast(1)|skin(1)	9			OV - Ovarian serous cystadenocarcinoma(10;0.0068)			GCGGAAAGGGCGCCAAAGGCT	0.433													20	37					0	0	0.00278	0	0		T	29121196	T	T	29121196	2	4	212	1	0	0	0	0	0	0	0	1	4783	755	27	1		1	DSG2	18	29121196	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	82720	29121196	48956052	1333	105138											
ASXL3	80816	broad.mit.edu	37	chr18	31323069	31323069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agcgagcattgtctctggagCcatgggaagtccaggagagg	10	7	16	8	1	1	1	0	0	1	1	3	5	2	3	2	4	3	1	2	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:31323069C>T	uc010dmg.1	+	12	3312	c.3257C>T	c.(3256-3258)GCC>GTC	p.A1086V	ASXL3_uc002kxq.2_Missense_Mutation_p.A793V	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1086					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						GTCTCTGGAGCCATGGGAAGT	0.582													11	28					0	0	0.001855	0	0		T	31323069	T	T	31323069	3	4	212	1	0	0	0	0	1	0	0	0	1069	739	26	2	3303	2	ASXL3	18	31323069	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2201873	31323069	46754179	1334	105139											
SLC39A6	25800	broad.mit.edu	37	chr18	33694188	33694188	+	Frame_Shift_Del	DEL	T	-	-																															tgtgactgtgaggatggtggTtttggtggtggtgatgatgg																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:33694188delT	uc010dmy.2	-	7	2005	c.1715delA	c.(1714-1716)AACfs	p.N572fs	SLC39A6_uc002kzj.2_Frame_Shift_Del_p.N297fs	NM_012319	NP_036451	Q13433	S39A6_HUMAN	solute carrier family 39 (zinc transporter),	572	His-rich.|Cytoplasmic (Potential).					integral to membrane|lamellipodium membrane	zinc ion transmembrane transporter activity			ovary(1)|pancreas(1)	2						aggatggtggttttggtggtg	0.323													15	28	---	---	---	---						.	-	33694188	-	-	33694188	7	5	212	1	0	1	0	1	0	0	0	0	14647	1725	60	0	580	0	SLC39A6	18	33694188	Frame_Shift_Del	DEL	T	TCGA-HU-A4GU-01A-11D-A25D-08	2371119	33694188	44383060	1335	105140											
MOCOS	55034	broad.mit.edu	37	chr18	33779654	33779654	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcttcttccagaatcctggCgcacttccacaccaccgcag	8	9	7	17	2	1	1	0	0	1	1	4	1	4	1	5	1	1	3	5	1	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:33779654C>T	uc002kzq.3	+	4	331	c.308C>T	c.(307-309)GCG>GTG	p.A103V		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	103					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AGAATCCTGGCGCACTTCCAC	0.542													33	58					0	0	0.007835	0	0		T	33779654	T	T	33779654	3	4	212	1	0	0	0	0	1	0	0	0	9707	768	27	1	322	1	MOCOS	18	33779654	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	85466	33779654	44297594	1336	105141											
FHOD3	80206	broad.mit.edu	37	chr18	34310607	34310607	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	attctccttttttatcactaAgaaaactgctgcagatggaa	13	14	6	8	0	2	2	1	0	1	2	3	3	2	3	1	1	3	2	1	1	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:34310607A>C	uc002kzt.1	+	16	2939	c.2842_splice	c.e16-2	p.K948_splice	FHOD3_uc002kzs.1_Splice_Site_p.K965_splice|FHOD3_uc010dmz.1_Splice_Site_p.K680_splice|FHOD3_uc010dnb.1_5'Flank	NM_025135	NP_079411	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3						actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			skin(3)|large_intestine(2)|breast(2)|ovary(1)	8		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				TTTATCACTAAGAAAACTGCT	0.398													16	33					0	0	0.004007	0	0		C	34310607	C	C	34310607	5	2	212	1	0	0	0	0	0	0	1	0	5897	86	3	5	2957	5	FHOD3	18	34310607	Splice_Site	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	530953	34310607	43766641	1337	105142											
SETBP1	26040	broad.mit.edu	37	chr18	42281510	42281510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggatgaactaggctcagggCgggatgtggattccaactcc	10	8	14	9	1	1	1	1	1	0	0	3	4	3	4	2	5	2	1	2	5	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:42281510C>T	uc010dni.2	+	2	495	c.199C>T	c.(199-201)CGG>TGG	p.R67W	SETBP1_uc002lay.2_Missense_Mutation_p.R67W	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	67						nucleus	DNA binding			upper_aerodigestive_tract(2)|large_intestine(1)	3				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)		AGGCTCAGGGCGGGATGTGGA	0.562									Schinzel-Giedion_syndrome				14	29					0	0	0.004007	0	0		T	42281510	T	T	42281510	3	4	212	1	0	0	0	0	1	0	0	0	14154	759	27	1	201	1	SETBP1	18	42281510	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7970903	42281510	35795738	1338	105143											
TCEB3B	51224	broad.mit.edu	37	chr18	44560944	44560944	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acaaggggcgtttttcctggCgagacgatttgtgccccttg	6	12	13	10	3	0	1	0	0	0	1	1	3	1	1	3	3	1	1	3	3	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:44560944C>T	uc002lcr.1	-	1	1045	c.692G>A	c.(691-693)CGC>CAC	p.R231H	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	231					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						TTTTTCCTGGCGAGACGATTT	0.612													9	19					0	0	0.004482	0	0		T	44560944	T	T	44560944	3	4	212	1	0	0	0	0	1	0	0	0	15707	768	27	1	1573	1	TCEB3B	18	44560944	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2279434	44560944	33516304	1339	105144											
CCDC68	80323	broad.mit.edu	37	chr18	52585165	52585165	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcttcaagtatgttaacCttttctctgagattttcaat	9	18	7	7	0	3	1	2	1	1	1	4	2	3	1	1	1	1	3	1	1	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:52585165C>A	uc002lfs.2	-	10	1024	c.852G>T	c.(850-852)AAG>AAT	p.K284N	CCDC68_uc002lft.2_Missense_Mutation_p.K284N	NM_001143829	NP_001137301	Q9H2F9	CCD68_HUMAN	coiled-coil domain containing 68	284	Potential.									skin(1)	1				Colorectal(16;0.0256)|READ - Rectum adenocarcinoma(59;0.21)		GTATGTTAACCTTTTCTCTGA	0.244													4	10					0.000602214	0.00061769	0.000602	1	0		A	52585165	A	A	52585165	3	1	212	1	0	0	0	0	1	0	0	0	2843	680	24	5	167	5	CCDC68	18	52585165	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8024221	52585165	25492083	1340	105145											
TCF4	6925	broad.mit.edu	37	chr18	52896180	52896180	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggtggagctgcaccatgcGgccgagctctttgaaagcct	8	8	14	11	2	1	1	0	1	1	0	1	4	1	2	3	3	5	3	3	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:52896180G>A	uc002lfz.2	-	18	2377	c.1765C>T	c.(1765-1767)CGC>TGC	p.R589C	TCF4_uc002lfw.3_Missense_Mutation_p.R433C|TCF4_uc010xdu.1_Missense_Mutation_p.R459C|TCF4_uc010xdv.1_Missense_Mutation_p.R459C|TCF4_uc002lfx.2_Missense_Mutation_p.R522C|TCF4_uc010xdw.1_Missense_Mutation_p.R459C|TCF4_uc002lfy.2_Missense_Mutation_p.R547C|TCF4_uc010xdx.1_Missense_Mutation_p.R565C|TCF4_uc010dph.1_Missense_Mutation_p.R593C|TCF4_uc010xdy.1_Missense_Mutation_p.R569C|TCF4_uc002lga.2_Missense_Mutation_p.R695C|TCF4_uc002lgb.1_Missense_Mutation_p.R429C|TCF4_uc010dpi.2_Missense_Mutation_p.R599C|TCF4_uc002lfv.2_Missense_Mutation_p.R372C	NM_003199	NP_003190	P15884	ITF2_HUMAN	transcription factor 4 isoform b	589	Helix-loop-helix motif.				positive regulation of neuron differentiation|protein-DNA complex assembly|transcription initiation from RNA polymerase II promoter	transcription factor complex	E-box binding|protein C-terminus binding|protein heterodimerization activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific DNA binding RNA polymerase recruiting transcription factor activity|TFIIB-class binding transcription factor activity|TFIIB-class transcription factor binding			ovary(1)|lung(1)	2				Colorectal(16;0.00108)|READ - Rectum adenocarcinoma(59;0.0649)|COAD - Colon adenocarcinoma(17;0.0718)		TGCACCATGCGGCCGAGCTCT	0.612													33	57					0	0	0.003271	0	0		A	52896180	A	A	52896180	3	1	212	1	0	0	0	0	1	0	0	0	15720	1116	39	1	246	1	TCF4	18	52896180	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	311015	52896180	25181068	1341	105146											
FECH	2235	broad.mit.edu	37	chr18	55222129	55222129	+	Missense_Mutation	SNP	A	C	C	1	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	agtactccagcctttccatgActttttggacagtggcgctt	7	14	9	11	1	0	1	0	1	0	0	2	2	2	2	3	2	2	2	3	2	1	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:55222129A>C	uc002lgq.3	-	8	977	c.860T>G	c.(859-861)GTC>GGC	p.V287G	FECH_uc002lgp.3_Missense_Mutation_p.V293G|FECH_uc002lgr.3_Missense_Mutation_p.V145G	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	287					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				CCTTTCCATGACTTTTTGGAC	0.532													23	52					0	0	0.003954	0	0		C	55222129	C	C	55222129	3	2	212	1	0	0	0	0	1	0	0	0	5822	275	10	5	427	5	FECH	18	55222129	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2325949	55222129	22855119	1342	105147											
FECH	2235	broad.mit.edu	37	chr18	55238753	55238753	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cttgggggttcggcgtttggCgatgaatggtgccagcttac	5	12	16	8	3	0	1	0	1	0	0	1	2	0	1	1	5	3	3	1	5	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:55238753C>T	uc002lgq.3	-	4	451	c.334G>A	c.(334-336)GCC>ACC	p.A112T	FECH_uc002lgp.3_Missense_Mutation_p.A118T|FECH_uc002lgr.3_5'UTR	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor	112					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				CGGCGTTTGGCGATGAATGGT	0.448													22	64					0	0	0.00278	0	0		T	55238753	T	T	55238753	3	4	212	1	0	0	0	0	1	0	0	0	5822	768	27	1	969	1	FECH	18	55238753	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	16624	55238753	22838495	1343	105148											
KIAA1468	57614	broad.mit.edu	37	chr18	59949640	59949640	+	Missense_Mutation	SNP	A	T	T	1	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	atcataaaaacatttggtagAgttggccctaacgcagaacc	15	9	8	9	1	1	2	1	0	0	2	1	2	1	2	2	2	3	3	2	2	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:59949640A>T	uc002lil.2	+	25	3431	c.3216A>T	c.(3214-3216)AGA>AGT	p.R1072S	KIAA1468_uc010xel.1_Missense_Mutation_p.R1072S|KIAA1468_uc002lim.2_Missense_Mutation_p.R750S	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	1072							binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				CATTTGGTAGAGTTGGCCCTA	0.408													43	50					0	0	0.013114	0	0		T	59949640	T	T	59949640	3	4	212	1	0	0	0	0	1	0	0	0	8252	301	11	5	3314	5	KIAA1468	18	59949640	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4710887	59949640	18127608	1344	105149											
BCL2	596	broad.mit.edu	37	chr18	60985894	60985894	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taccctgttctcccagcgtgCgccatccttcccagaggaaa	8	9	8	16	2	1	1	0	0	1	1	4	2	3	2	5	1	3	1	5	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:60985894C>T	uc002lit.1	-	2	499	c.6G>A	c.(4-6)GCG>GCA	p.A2A	BCL2_uc002liu.1_Silent_p.A2A|BCL2_uc002liv.1_Silent_p.A2A	NM_000633	NP_000624	P10415	BCL2_HUMAN	B-cell lymphoma protein 2 alpha isoform	2					activation of pro-apoptotic gene products|anti-apoptosis|apoptosis in response to endoplasmic reticulum stress|B cell proliferation|B cell receptor signaling pathway|defense response to virus|female pregnancy|humoral immune response|induction of apoptosis by intracellular signals|negative regulation of cellular pH reduction|negative regulation of mitochondrial depolarization|negative regulation of neuron apoptosis|neuron apoptosis|positive regulation of B cell proliferation|positive regulation of cell growth|protein polyubiquitination|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|regulation of transmembrane transporter activity|release of cytochrome c from mitochondria|response to cytokine stimulus|response to DNA damage stimulus|response to drug|response to iron ion|response to nicotine|response to toxin	endoplasmic reticulum membrane|mitochondrial outer membrane|nuclear membrane|pore complex	BH3 domain binding|channel activity|protease binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|ubiquitin protein ligase binding			central_nervous_system(1)	1		all_hematologic(56;1.18e-20)|Prostate(75;0.0872)		Lung(128;0.0234)|READ - Rectum adenocarcinoma(59;0.0935)	Docetaxel(DB01248)|Fludarabine(DB01073)|Melatonin(DB01065)|Paclitaxel(DB01229)|Rasagiline(DB01367)	TCCCAGCGTGCGCCATCCTTC	0.572			T	IGH@	NHL|CLL								5	66					0	0	0.000602	0	0		T	60985894	T	T	60985894	2	4	212	1	0	0	0	0	0	0	0	1	1366	755	27	1		1	BCL2	18	60985894	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1036254	60985894	17091354	1345	105150											
SERPINB2	5055	broad.mit.edu	37	chr18	61562569	61562569	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gagaactttaccagctgtggGttcatgcagcagatccagaa	12	9	11	9	0	1	3	1	0	0	3	2	4	2	3	2	1	5	4	2	1	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:61562569G>A	uc010xeu.1	+	4	573	c.240G>A	c.(238-240)GGG>GGA	p.G80G	SERPINB2_uc002ljo.2_Silent_p.G80G|SERPINB2_uc010dqh.2_Silent_p.G10G|SERPINB2_uc002ljp.1_5'Flank|SERPINB2_uc002ljq.1_5'Flank	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	80					anti-apoptosis|blood coagulation|fibrinolysis|regulation of proteolysis	extracellular space|Golgi apparatus|plasma membrane	serine-type endopeptidase inhibitor activity			lung(1)|skin(1)	2		Esophageal squamous(42;0.131)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)|Urokinase(DB00013)	CCAGCTGTGGGTTCATGCAGC	0.428													17	107					0	0	0.004007	0	0		A	61562569	A	A	61562569	2	1	212	1	0	0	0	0	0	0	0	1	14126	1248	44	4		4	SERPINB2	18	61562569	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	576675	61562569	16514679	1346	105151											
ZNF407	55628	broad.mit.edu	37	chr18	72345280	72345280	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctaagaaaaataatattggcTtaagctttgaagaatgtatt	17	14	7	3	0	0	3	0	1	0	2	0	3	0	3	0	1	1	3	0	1	9	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:72345280T>G	uc002llw.2	+	1	2362	c.2305T>G	c.(2305-2307)TTA>GTA	p.L769V	ZNF407_uc010xfc.1_Missense_Mutation_p.L769V|ZNF407_uc010dqu.1_Missense_Mutation_p.L769V|ZNF407_uc002llu.2_Missense_Mutation_p.L768V	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	769					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		TAATATTGGCTTAAGCTTTGA	0.323													7	65					0	0	0.001984	0	0		G	72345280	G	G	72345280	3	3	212	1	0	0	0	0	1	0	0	0	17912	1606	56	5	2307	5	ZNF407	18	72345280	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	10782711	72345280	5731968	1347	105152											
ZNF516	9658	broad.mit.edu	37	chr18	74091004	74091004	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggcctgcaaggccgcgtcGcccctggaccccgcagcaca	6	4	13	18	4	0	0	0	0	0	0	1	1	0	1	6	3	2	3	6	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:74091004G>A	uc010dqx.1	-	3	3301	c.3066C>T	c.(3064-3066)GGC>GGT	p.G1022G	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	1022					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		AGGCCGCGTCGCCCCTGGACC	0.731													6	26					0	0	0.00308	0	0		A	74091004	A	A	74091004	2	1	212	1	0	0	0	0	0	0	0	1	17985	1074	38	1		1	ZNF516	18	74091004	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1745724	74091004	3986244	1348	105153											
ZNF236	7776	broad.mit.edu	37	chr18	74632003	74632003	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagagcttcaagaaacctagCgacctggtgaggtgagggca	13	6	14	8	1	1	4	1	2	0	2	1	5	1	4	2	3	3	2	2	3	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:74632003C>T	uc002lmi.2	+	20	3738	c.3540C>T	c.(3538-3540)AGC>AGT	p.S1180S	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1180	C2H2-type 22.				cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AGAAACCTAGCGACCTGGTGA	0.612													6	20					0	0	0.00308	0	0		T	74632003	T	T	74632003	2	4	212	1	0	0	0	0	0	0	0	1	17814	767	27	1		1	ZNF236	18	74632003	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	540999	74632003	3445245	1349	105154											
ZNF236	7776	broad.mit.edu	37	chr18	74680287	74680287	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggcaggccctcacccacGtcttctgatgcgagttggaa	8	9	12	12	2	3	1	1	1	2	0	3	3	3	2	2	3	1	2	2	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:74680287G>A	uc002lmi.2	+	31	5728	c.5530G>A	c.(5530-5532)GTC>ATC	p.V1844I	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	1844					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		CCTCACCCACGTCTTCTGATG	0.562													27	58					0	0	0.013726	0	0		A	74680287	A	A	74680287	3	1	212	1	0	0	0	0	1	0	0	0	17814	1145	40	1	5652	1	ZNF236	18	74680287	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	48284	74680287	3396961	1350	105155											
GALR1	2587	broad.mit.edu	37	chr18	74962929	74962929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccatcgtgcactcgcggcGctcctcctccctcagggtgt	3	9	12	17	4	1	0	1	0	0	0	6	0	4	0	4	3	1	2	4	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:74962929G>A	uc002lms.3	+	1	922	c.425G>A	c.(424-426)CGC>CAC	p.R142H		NM_001480	NP_001471	P47211	GALR1_HUMAN	galanin receptor 1	142	Cytoplasmic (Potential).				digestion|negative regulation of adenylate cyclase activity	integral to membrane|plasma membrane	galanin receptor activity			lung(1)	1		Prostate(75;0.0865)|Esophageal squamous(42;0.129)|Melanoma(33;0.211)		OV - Ovarian serous cystadenocarcinoma(15;1.03e-06)|BRCA - Breast invasive adenocarcinoma(31;0.104)		CACTCGCGGCGCTCCTCCTCC	0.657													8	41					0	0	0.008291	0	0		A	74962929	A	A	74962929	3	1	212	1	0	0	0	0	1	0	0	0	6242	1087	38	1	427	1	GALR1	18	74962929	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	282642	74962929	3114319	1351	105156											
SALL3	27164	broad.mit.edu	37	chr18	76752132	76752132	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccgagagccgcagcgggggCgaggagaccagcgtgtgcga	8	2	19	12	6	0	2	0	0	0	2	0	6	0	2	3	3	4	1	3	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:76752132C>T	uc002lmt.2	+	2	141	c.141C>T	c.(139-141)GGC>GGT	p.G47G	SALL3_uc010dra.2_5'Flank	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	47					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		GCAGCGGGGGCGAGGAGACCA	0.701													3	15					0	0	0.000602	0	0		T	76752132	T	T	76752132	2	4	212	1	0	0	0	0	0	0	0	1	13837	755	27	1		1	SALL3	18	76752132	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1789203	76752132	1325116	1352	105157											
ATP9B	374868	broad.mit.edu	37	chr18	77089290	77089290	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccgagagcaagcggatgggCgtcatcgtcagggtgaggct	8	7	17	9	4	2	2	2	1	0	1	4	4	3	3	1	4	2	2	1	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr18:77089290C>T	uc002lmx.2	+	16	1937	c.1923C>T	c.(1921-1923)GGC>GGT	p.G641G	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Silent_p.G641G|ATP9B_uc002lmz.1_Silent_p.G335G	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	641	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)	3		Esophageal squamous(42;0.018)|Melanoma(33;0.0964)|Prostate(75;0.171)		OV - Ovarian serous cystadenocarcinoma(15;1.44e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0405)		AGCGGATGGGCGTCATCGTCA	0.542													19	116					0	0	0.008871	0	0		T	77089290	T	T	77089290	2	4	212	1	0	0	0	0	0	0	0	1	1200	755	27	1		1	ATP9B	18	77089290	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	337158	77089290	987958	1353	105158											
CELF5	60680	broad.mit.edu	37	chr19	3273874	3273874	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccccctctctctgcagatggCgcggccaatccaggtgaagc	7	7	11	16	2	2	2	0	1	2	1	4	2	3	2	4	3	2	1	4	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:3273874C>T	uc002lxm.2	+	3	384	c.347C>T	c.(346-348)GCG>GTG	p.A116V	CELF5_uc002lxl.1_Missense_Mutation_p.A116V|CELF5_uc010dtj.1_Missense_Mutation_p.A116V|CELF5_uc010xhg.1_Missense_Mutation_p.A2V|CELF5_uc002lxn.2_RNA	NM_021938	NP_068757	Q8N6W0	CELF5_HUMAN	bruno-like 5, RNA binding protein	116	RRM 1.				mRNA processing	cytoplasm|nucleus	nucleotide binding|RNA binding			ovary(2)	2						CTGCAGATGGCGCGGCCAATC	0.637													35	56					0	0	0.00623	0	0		T	3273874	T	T	3273874	3	4	212	1	0	0	0	0	1	0	0	0	3222	768	27	1	357	1	CELF5	19	3273874	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		3273874	55855109	1354	105159											
TBXA2R	6915	broad.mit.edu	37	chr19	3600069	3600069	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacgtccccggactcggcGcccagcgtcaggaagcacca	8	3	12	18	5	1	0	1	0	0	0	3	2	2	2	5	3	2	1	5	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:3600069G>A	uc002lyg.1	-	2	778	c.564C>T	c.(562-564)GGC>GGT	p.G188G	TBXA2R_uc002lye.1_Intron	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	188	Extracellular (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	CGGACTCGGCGCCCAGCGTCA	0.716													6	26					0	0	0.001168	0	0		A	3600069	A	A	3600069	2	1	212	1	0	0	0	0	0	0	0	1	15688	1074	38	1		1	TBXA2R	19	3600069	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	326195	3600069	55528914	1355	105160											
MATK	4145	broad.mit.edu	37	chr19	3779046	3779046	+	Silent	SNP	G	A	A	0	0	1	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	gggcagccggcttgagtctaGccccttccgctcggctttgg	3	10	14	14	3	1	1	0	1	1	0	3	1	2	1	4	4	2	4	4	4	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:3779046G>A	uc002lyt.2	-	12	1541	c.1141C>T	c.(1141-1143)CTA>TTA	p.L381L	MATK_uc002lyv.2_Silent_p.L382L|MATK_uc002lyu.2_Silent_p.L340L|MATK_uc010dtq.2_Silent_p.L381L	NM_139355	NP_647612	P42679	MATK_HUMAN	megakaryocyte-associated tyrosine kinase isoform	381	Protein kinase.				cell proliferation|mesoderm development|positive regulation of cell proliferation	cytoplasm|nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity			stomach(2)|ovary(1)|lung(1)|large_intestine(1)	5		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CTTGAGTCTAGCCCCTTCCGC	0.647													10	23					0	0	0.010729	0	0		A	3779046	A	A	3779046	2	1	212	1	0	0	0	0	0	0	0	1	9350	962	34	2		2	MATK	19	3779046	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	178977	3779046	55349937	1356	105161											
EEF2	1938	broad.mit.edu	37	chr19	3982369	3982369	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcaaactgcttcagggtgaaGgcccacccgtggaggccaga	10	5	14	12	1	1	2	1	1	0	1	1	3	1	3	3	4	2	2	3	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:3982369G>T	uc002lze.2	-	5	749	c.666C>A	c.(664-666)GCC>GCA	p.A222A		NM_001961	NP_001952	P13639	EF2_HUMAN	eukaryotic translation elongation factor 2	222						cytosol|ribonucleoprotein complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|GBM - Glioblastoma multiforme(1328;0.0223)|STAD - Stomach adenocarcinoma(1328;0.18)		TCAGGGTGAAGGCCCACCCGT	0.627													32	48					9.62906e-15	1.08727e-14	0.00623	1	0		T	3982369	T	T	3982369	2	4	212	1	0	0	0	0	0	0	0	1	4935	987	35	5		5	EEF2	19	3982369	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	203323	3982369	55146614	1357	105162											
SEMA6B	10501	broad.mit.edu	37	chr19	4550834	4550834	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcgaggcacctgatcctcCggcaccggcgtccagatgga	7	6	14	14	4	0	2	0	1	0	1	4	4	3	3	5	5	0	2	5	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:4550834C>T	uc010duc.1	-	10	1136	c.1098G>A	c.(1096-1098)CCG>CCA	p.P366P	SEMA6B_uc010dud.2_Silent_p.P366P|SEMA6B_uc010xih.1_Silent_p.P366P	NM_032108	NP_115484	Q9H3T3	SEM6B_HUMAN	semaphorin 6B precursor	366	Extracellular (Potential).|Sema.				cell differentiation|nervous system development	integral to membrane	receptor activity			skin(1)	1		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)		CCTGATCCTCCGGCACCGGCG	0.662													41	18					0	0	0.010771	0	0		T	4550834	T	T	4550834	2	4	212	1	0	0	0	0	0	0	0	1	14065	639	23	1		1	SEMA6B	19	4550834	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	568465	4550834	54578149	1358	105163											
PTPRS	5802	broad.mit.edu	37	chr19	5214614	5214614	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcatcatgacgatggtcgcCgaccgctgctcccacaccat	8	8	9	16	4	2	1	2	1	0	0	4	3	3	1	4	1	1	2	4	1	0	0	rs149934681		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:5214614C>T	uc002mbv.2	-	29	4686	c.4452G>A	c.(4450-4452)TCG>TCA	p.S1484S	PTPRS_uc002mbu.1_Silent_p.S1053S|PTPRS_uc010xin.1_Silent_p.S1026S|PTPRS_uc002mbw.2_Silent_p.S1446S|PTPRS_uc002mbx.2_Silent_p.S1041S|PTPRS_uc002mby.2_Silent_p.S1037S	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1484	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		CGATGGTCGCCGACCGCTGCT	0.647													7	18					0	0	0.00308	0	0		T	5214614	T	T	5214614	2	4	212	1	0	0	0	0	0	0	0	1	12836	639	23	1		1	PTPRS	19	5214614	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	663780	5214614	53914369	1359	105164											
PTPRS	5802	broad.mit.edu	37	chr19	5218520	5218520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttcaggaggcatttggtgCggggttctgagtccttgcgt	4	14	16	7	2	2	1	1	1	1	0	3	2	3	2	1	5	2	3	1	5	0	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:5218520C>T	uc002mbv.2	-	25	4193	c.3959G>A	c.(3958-3960)CGC>CAC	p.R1320H	PTPRS_uc002mbu.1_Missense_Mutation_p.R889H|PTPRS_uc010xin.1_Missense_Mutation_p.R889H|PTPRS_uc002mbw.2_Missense_Mutation_p.R1298H|PTPRS_uc002mbx.2_Missense_Mutation_p.R893H|PTPRS_uc002mby.2_Missense_Mutation_p.R889H	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1320	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GCATTTGGTGCGGGGTTCTGA	0.512													56	93					0	0	0.01441	0	0		T	5218520	T	T	5218520	3	4	212	1	0	0	0	0	1	0	0	0	12836	768	27	1	1943	1	PTPRS	19	5218520	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3906	5218520	53910463	1360	105165											
ALKBH7	84266	broad.mit.edu	37	chr19	6374319	6374319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttggccccggccagaccctgCtctcctccgtgcacgtgctg	3	9	11	18	3	1	1	0	0	1	1	3	1	2	1	6	2	3	3	6	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:6374319C>T	uc002meo.1	+	2	698	c.310C>T	c.(310-312)CTC>TTC	p.L104F		NM_032306	NP_115682	Q9BT30	ALKB7_HUMAN	spermatogenesis associated 11 precursor	104						extracellular region|nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						CCAGACCCTGCTCTCCTCCGT	0.682													22	36					0	0	0.00278	0	0		T	6374319	T	T	6374319	3	4	212	1	0	0	0	0	1	0	0	0	532	797	28	2	316	2	ALKBH7	19	6374319	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1155799	6374319	52754664	1361	105166											
TRIP10	9322	broad.mit.edu	37	chr19	6743586	6743586	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctagaccaggatatcaacGccaccaaggctgatgtggag	12	6	13	10	1	1	2	1	1	0	1	1	4	1	4	3	4	1	2	3	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:6743586G>A	uc002mfs.2	+	6	556	c.490G>A	c.(490-492)GCC>ACC	p.A164T	TRIP10_uc010dux.1_Missense_Mutation_p.A164T|TRIP10_uc002mfr.2_Missense_Mutation_p.A164T|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_5'UTR	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	164	Potential.|Induction of membrane tubulation.				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						GGATATCAACGCCACCAAGGC	0.622													9	35					0	0	0.010729	0	0		A	6743586	A	A	6743586	3	1	212	1	0	0	0	0	1	0	0	0	16580	1087	38	1	512	1	TRIP10	19	6743586	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	369267	6743586	52385397	1362	105167											
INSR	3643	broad.mit.edu	37	chr19	7170599	7170599	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgtcgtttctctcctggcGccccttggttcctgaaactt	5	15	8	13	2	1	1	0	1	1	0	5	1	3	1	4	2	1	2	4	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:7170599G>A	uc002mgd.1	-	6	1541	c.1432C>T	c.(1432-1434)CGC>TGC	p.R478C	INSR_uc002mge.1_Missense_Mutation_p.R478C|INSR_uc002mgf.2_Missense_Mutation_p.R478C	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	478					activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	CTCTCCTGGCGCCCCTTGGTT	0.403													58	92					0	0	0.01441	0	0		A	7170599	A	A	7170599	3	1	212	1	0	0	0	0	1	0	0	0	7789	1087	38	1	2784	1	INSR	19	7170599	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	427013	7170599	51958384	1363	105168											
ZNF358	140467	broad.mit.edu	37	chr19	7584476	7584476	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcgacaccctcagccccggCgatccaaaagtggaccccat	11	4	9	17	3	1	0	1	0	0	0	2	3	2	1	6	2	2	0	6	2	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:7584476C>T	uc002mgn.2	+	2	518	c.348C>T	c.(346-348)GGC>GGT	p.G116G		NM_018083	NP_060553	Q9NW07	ZN358_HUMAN	zinc finger protein 358	116					embryonic forelimb morphogenesis|neural tube development|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1						TCAGCCCCGGCGATCCAAAAG	0.537													38	52					0	0	0.00874	0	0		T	7584476	T	T	7584476	2	4	212	1	0	0	0	0	0	0	0	1	17892	755	27	1		1	ZNF358	19	7584476	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	413877	7584476	51544507	1364	105169											
CLEC4M	10332	broad.mit.edu	37	chr19	7830088	7830088	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggtgtcttggccatggcGccctggtgctgcaactcctc	4	10	13	14	1	1	0	0	0	1	0	3	0	2	0	3	4	3	2	3	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:7830088G>A	uc002mih.2	+	3	266	c.148G>A	c.(148-150)GCC>ACC	p.A50T	CLEC4M_uc010xjv.1_Intron|CLEC4M_uc002mhy.2_Intron|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Missense_Mutation_p.A50T|CLEC4M_uc010dvs.2_Missense_Mutation_p.A49T|CLEC4M_uc010xjx.1_Missense_Mutation_p.A22T|CLEC4M_uc002mhz.2_Missense_Mutation_p.A50T|CLEC4M_uc002mic.2_Missense_Mutation_p.A22T|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	50	Helical; Signal-anchor for type II membrane protein; (Probable).				cell-cell recognition|endocytosis|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to plasma membrane	ICAM-3 receptor activity|mannose binding|metal ion binding|peptide antigen binding|virion binding			pancreas(1)	1						TGGCCATGGCGCCCTGGTGCT	0.632													30	66					0	0	0.010818	0	0		A	7830088	A	A	7830088	3	1	212	1	0	0	0	0	1	0	0	0	3521	1087	38	1	158	1	CLEC4M	19	7830088	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	245612	7830088	51298895	1365	105170											
RAB11B	9230	broad.mit.edu	37	chr19	8464780	8464780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggactcaggcgtgggcaagaGcaacctgctgtcgcgcttca	8	7	14	12	3	2	1	2	0	0	1	3	2	2	2	1	3	3	4	1	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:8464780G>A	uc002mju.3	+	2	170	c.74G>A	c.(73-75)AGC>AAC	p.S25N	RAB11B_uc010xkd.1_Missense_Mutation_p.S25N	NM_004218	NP_004209	Q15907	RB11B_HUMAN	RAB11B, member RAS oncogene family	25	GTP.				cell cycle|protein transport|small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity				0						GTGGGCAAGAGCAACCTGCTG	0.642													7	21					0	0	0.00308	0	0		A	8464780	A	A	8464780	3	1	212	1	0	0	0	0	1	0	0	0	12917	971	34	2	80	2	RAB11B	19	8464780	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	634692	8464780	50664203	1366	105171											
RAB11B	9230	broad.mit.edu	37	chr19	8464795	8464795	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caagagcaacctgctgtcgcGcttcacccgcaacgagttca	10	7	9	15	4	2	1	2	0	0	1	3	2	2	1	2	0	4	5	2	0	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:8464795G>A	uc002mju.3	+	2	185	c.89G>A	c.(88-90)CGC>CAC	p.R30H	RAB11B_uc010xkd.1_Missense_Mutation_p.R30H	NM_004218	NP_004209	Q15907	RB11B_HUMAN	RAB11B, member RAS oncogene family	30					cell cycle|protein transport|small GTPase mediated signal transduction	plasma membrane	GDP binding|GTP binding|GTPase activity				0						CTGCTGTCGCGCTTCACCCGC	0.637													8	23					0	0	0.006214	0	0		A	8464795	A	A	8464795	3	1	212	1	0	0	0	0	1	0	0	0	12917	1087	38	1	95	1	RAB11B	19	8464795	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	15	8464795	50664188	1367	105172											
HNRNPM	4670	broad.mit.edu	37	chr19	8531211	8531211	+	Silent	SNP	A	G	G	1	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	attcttgaagataaagatggAaaaagtcgtggaataggcac	17	9	11	4	1	1	3	0	1	1	2	2	5	1	5	0	3	0	1	0	3	7	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:8531211A>G	uc010dwe.2	+	7	803	c.723A>G	c.(721-723)GGA>GGG	p.G241G	HNRNPM_uc010dwc.1_Silent_p.G241G|HNRNPM_uc010xke.1_Silent_p.G202G|HNRNPM_uc010dwd.2_Silent_p.G202G|HNRNPM_uc002mka.2_Silent_p.G121G	NM_005968	NP_005959	P52272	HNRPM_HUMAN	heterogeneous nuclear ribonucleoprotein M	241	RRM 2.				alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|integral to plasma membrane|nuclear matrix|nucleolus|paraspeckles	nucleotide binding|protein domain specific binding|RNA binding				0						ATAAAGATGGAAAAAGTCGTG	0.403													46	72					0	0	0.011902	0	0		G	8531211	G	G	8531211	2	3	212	1	0	0	0	0	0	0	0	1	7287	233	9	3		3	HNRNPM	19	8531211	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	66416	8531211	50597772	1368	105173											
PRAM1	84106	broad.mit.edu	37	chr19	8563987	8563987	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcacggacttcttagggagGccaccgacctgaggctgcgg	7	6	16	12	3	1	1	0	1	1	0	1	4	1	3	3	6	1	2	3	6	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:8563987G>A	uc002mkd.2	-	2	725	c.705C>T	c.(703-705)GGC>GGT	p.G235G	PRAM1_uc002mkc.2_Silent_p.G235G	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	283	Pro-rich.						lipid binding|protein binding				0						TCTTAGGGAGGCCACCGACCT	0.637													19	33					0	0	0.008871	0	0		A	8563987	A	A	8563987	2	1	212	1	0	0	0	0	0	0	0	1	12445	1190	42	2		2	PRAM1	19	8563987	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	32776	8563987	50564996	1369	105174											
MUC16	94025	broad.mit.edu	37	chr19	9047057	9047057	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaactggcttctggcccaGgactggtgatggctactggg	6	10	15	10	0	1	2	0	2	1	0	1	3	1	3	1	6	2	2	1	6	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:9047057G>T	uc002mkp.2	-	5	34778	c.34574C>A	c.(34573-34575)CCT>CAT	p.P11525H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11527	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTCTGGCCCAGGACTGGTGAT	0.507													25	39					1.08312e-15	1.23134e-15	0.009535	1	0		T	9047057	T	T	9047057	3	4	212	1	0	0	0	0	1	0	0	0	9991	1000	35	5	9269	5	MUC16	19	9047057	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	483070	9047057	50081926	1370	105175											
MUC16	94025	broad.mit.edu	37	chr19	9057555	9057555	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagtactctgtgctgtagccCcaggagaacttttttgggtg	7	13	13	8	0	1	1	0	0	1	1	1	3	1	1	2	2	4	3	2	2	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:9057555C>A	uc002mkp.2	-	3	30095	c.29891G>T	c.(29890-29892)GGG>GTG	p.G9964V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9966	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGCTGTAGCCCCAGGAGAACT	0.478													121	48					7.90946e-78	9.31479e-78	0.01441	1	0		A	9057555	A	A	9057555	3	1	212	1	0	0	0	0	1	0	0	0	9991	623	22	5	13960	5	MUC16	19	9057555	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	10498	9057555	50071428	1371	105176											
MUC16	94025	broad.mit.edu	37	chr19	9077612	9077612	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagaccctttctgtagcCaacatattttctgttggtga	9	14	10	8	0	2	2	0	1	2	1	2	3	2	2	2	2	2	2	2	2	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:9077612C>A	uc002mkp.2	-	3	10038	c.9834G>T	c.(9832-9834)TTG>TTT	p.L3278F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3279	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TTTCTGTAGCCAACATATTTT	0.547													28	69					2.36697e-06	2.4947e-06	0.007291	1	0		A	9077612	A	A	9077612	3	1	212	1	0	0	0	0	1	0	0	0	9991	593	21	5	34017	5	MUC16	19	9077612	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	20057	9077612	50051371	1372	105177											
ZNF317	57693	broad.mit.edu	37	chr19	9271917	9271917	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggagaaaccgtacgaatgCgatcactgtgggaaggcctt	11	7	15	8	3	1	1	1	0	0	1	1	5	1	2	2	4	3	1	2	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:9271917C>T	uc002mku.2	+	7	1871	c.1596C>T	c.(1594-1596)TGC>TGT	p.C532C	ZNF317_uc002mkv.2_Silent_p.C391C|ZNF317_uc002mkw.2_Silent_p.C500C|ZNF317_uc002mkx.2_Silent_p.C447C|ZNF317_uc002mky.2_Silent_p.C415C	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	532	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGTACGAATGCGATCACTGTG	0.567													13	37					0	0	0.00245	0	0		T	9271917	T	T	9271917	2	4	212	1	0	0	0	0	0	0	0	1	17860	776	27	1		1	ZNF317	19	9271917	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	194305	9271917	49857066	1373	105178											
ZNF699	374879	broad.mit.edu	37	chr19	9406577	9406577	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cattctttacattcatacggCttctctccgctgtgagttct	6	17	6	12	2	4	1	1	1	3	0	6	1	5	1	1	1	2	3	1	1	2	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:9406577C>A	uc002mlc.1	-	5	1503	c.1503G>T	c.(1501-1503)AAG>AAT	p.K501N		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	501					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ATTCATACGGCTTCTCTCCGC	0.433													11	21					3.86212e-05	4.02204e-05	0.008291	1	0		A	9406577	A	A	9406577	3	1	212	1	0	0	0	0	1	0	0	0	18126	796	28	5	429	5	ZNF699	19	9406577	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	134660	9406577	49722406	1374	105179											
ILF3	3609	broad.mit.edu	37	chr19	10791720	10791720	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	actgcggctcgctgccttcgGccagctccataaagtcctag	7	9	10	15	3	0	0	0	0	0	0	4	0	2	0	4	2	3	3	4	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:10791720G>A	uc002mpn.2	+	10	1300	c.983G>A	c.(982-984)GGC>GAC	p.G328D	ILF3_uc002mpm.2_Missense_Mutation_p.G328D|ILF3_uc002mpl.2_Missense_Mutation_p.G328D|ILF3_uc002mpk.2_Missense_Mutation_p.G328D|ILF3_uc010xli.1_Intron|ILF3_uc002mpo.2_Missense_Mutation_p.G328D|ILF3_uc002mpp.2_Missense_Mutation_p.G149D	NM_012218	NP_036350	Q12906	ILF3_HUMAN	interleukin enhancer binding factor 3 isoform a	328	DZF.				M phase|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleolus|ribonucleoprotein complex	DNA binding|double-stranded RNA binding|protein binding|protein binding			ovary(3)	3			Epithelial(33;6.86e-06)|all cancers(31;1.65e-05)			GCTGCCTTCGGCCAGCTCCAT	0.592													23	52					0	0	0.004656	0	0		A	10791720	A	A	10791720	3	1	212	1	0	0	0	0	1	0	0	0	7728	1203	42	2	1017	2	ILF3	19	10791720	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1385143	10791720	48337263	1375	105180											
TSPAN16	26526	broad.mit.edu	37	chr19	11417320	11417320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	taactacacagatttttctgGctcttccttcgaaatgacaa	12	14	5	10	1	2	2	0	1	2	1	4	3	3	2	1	1	2	1	1	1	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:11417320G>A	uc002mqv.1	+	5	641	c.491G>A	c.(490-492)GGC>GAC	p.G164D	TSPAN16_uc002mqu.1_RNA|uc002mqw.1_Intron	NM_012466	NP_036598	Q9UKR8	TSN16_HUMAN	transmembrane 4 superfamily member 16	164	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						GATTTTTCTGGCTCTTCCTTC	0.448													17	39					0	0	0.007413	0	0		A	11417320	A	A	11417320	3	1	212	1	0	0	0	0	1	0	0	0	16666	1203	42	2	509	2	TSPAN16	19	11417320	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	625600	11417320	47711663	1376	105181											
CCDC151	115948	broad.mit.edu	37	chr19	11541544	11541544	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgtcctgttcttcaggtatGgcttctcccacttccattcg	4	16	7	14	1	3	0	1	0	2	0	7	0	5	0	3	2	0	3	3	2	1	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:11541544G>T	uc002mrs.2	-	3	562	c.419C>A	c.(418-420)CCA>CAA	p.P140Q	CCDC151_uc002mrr.2_Missense_Mutation_p.P75Q|CCDC151_uc010dxz.2_Intron	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	140	Potential.									ovary(1)	1						CTTCAGGTATGGCTTCTCCCA	0.582													34	58					2.87052e-16	3.27346e-16	0.005524	1	0		T	11541544	T	T	11541544	3	4	212	1	0	0	0	0	1	0	0	0	2789	1348	47	5	1412	5	CCDC151	19	11541544	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	124224	11541544	47587439	1377	105182											
ELAVL3	1995	broad.mit.edu	37	chr19	11569311	11569311	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgcgggacgtgatgatgCggccgtactgggagaagagc	9	6	19	7	4	0	4	0	2	0	2	0	7	0	6	1	4	4	1	1	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:11569311C>T	uc002mry.1	-	4	829	c.449G>A	c.(448-450)CGC>CAC	p.R150H	ELAVL3_uc002mrx.1_Missense_Mutation_p.R150H	NM_001420	NP_001411	Q14576	ELAV3_HUMAN	ELAV-like protein 3 isoform 1	150	RRM 2.				cell differentiation|nervous system development		AU-rich element binding|nucleotide binding			ovary(1)|breast(1)|skin(1)	3						CGTGATGATGCGGCCGTACTG	0.632													5	76					0	0	0.001168	0	0		T	11569311	T	T	11569311	3	4	212	1	0	0	0	0	1	0	0	0	5059	768	27	1	670	1	ELAVL3	19	11569311	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	27767	11569311	47559672	1378	105183											
ZNF878	729747	broad.mit.edu	37	chr19	12155668	12155668	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	catgtctacgaacagaactgGgaaaactgaatgctttccca	14	9	8	10	1	1	2	0	1	1	1	2	4	2	3	1	1	5	1	1	1	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:12155668G>T	uc002mta.1	-	5	689	c.689C>A	c.(688-690)CCC>CAC	p.P230H		NM_001080404	NP_001073873	C9JN71	ZN878_HUMAN	zinc finger protein 878	183	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding				0						AACAGAACTGGGAAAACTGAA	0.393													43	111					1.22674e-20	1.42281e-20	0.00874	1	0		T	12155668	T	T	12155668	3	4	212	1	0	0	0	0	1	0	0	0	18221	1232	43	5	1051	5	ZNF878	19	12155668	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	586357	12155668	46973315	1379	105184											
TNPO2	30000	broad.mit.edu	37	chr19	12830079	12830079	+	Silent	SNP	T	C	C	0	1	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	ggagcagagggcgtaccttcTgacttgagtctggtcaggac	8	9	15	9	1	3	3	1	2	2	1	3	5	3	5	1	4	2	2	1	4	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:12830079T>C	uc002muo.2	-	3	356	c.171A>G	c.(169-171)TCA>TCG	p.S57S	TNPO2_uc002mup.2_Silent_p.S149S|TNPO2_uc002muq.2_Silent_p.S57S|TNPO2_uc002mur.2_Silent_p.S57S	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	57	Importin N-terminal.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						GCGTACCTTCTGACTTGAGTC	0.547													10	21					0	0	0.006214	0	0		C	12830079	C	C	12830079	2	2	212	1	0	0	0	0	0	0	0	1	16361	1567	55	3		3	TNPO2	19	12830079	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	674411	12830079	46298904	1380	105185											
BEST2	54831	broad.mit.edu	37	chr19	12867058	12867058	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccccatacacagcggctaCtgtcttccagctgcggcagc	7	7	10	17	3	1	0	0	0	1	0	2	0	2	0	3	2	6	3	3	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:12867058C>A	uc002mux.2	+	8	1052	c.1052C>A	c.(1051-1053)ACT>AAT	p.T351N		NM_017682	NP_060152	Q8NFU1	BEST2_HUMAN	vitelliform macular dystrophy 2-like 1	351	Cytoplasmic (Potential).				membrane depolarization|sensory perception of smell	chloride channel complex|cilium|plasma membrane	chloride channel activity			ovary(1)|pancreas(1)	2						ACAGCGGCTACTGTCTTCCAG	0.617													28	147					1.75199e-13	1.96257e-13	0.007291	1	0		A	12867058	A	A	12867058	3	1	212	1	0	0	0	0	1	0	0	0	1406	565	20	5	1082	5	BEST2	19	12867058	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	36979	12867058	46261925	1381	105186											
MAST1	22983	broad.mit.edu	37	chr19	12985060	12985060	+	Frame_Shift_Del	DEL	G	-	-																															agcaaggagaaggaatccccGgggggcgccgaggcgtgcac																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:12985060delG	uc002mvm.2	+	26	4217	c.4089delG	c.(4087-4089)CCGfs	p.P1363fs		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1363					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						AGGAATCCCCGGGGGGCGCCG	0.736													2	4	---	---	---	---						.	-	12985060	-	-	12985060	7	5	212	1	0	1	0	1	0	0	0	0	9342	1103	39	0	4191	0	MAST1	19	12985060	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	118002	12985060	46143923	1382	105187											
RAD23A	5886	broad.mit.edu	37	chr19	13059913	13059913	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agggaattcctgggagccccGagccggaacacggttctgtc	8	7	14	12	3	1	0	0	0	1	0	3	4	2	3	4	4	3	1	4	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:13059913G>A	uc002mvw.1	+	6	728	c.619G>A	c.(619-621)GAG>AAG	p.E207K	RAD23A_uc002mvx.1_Missense_Mutation_p.E207K|RAD23A_uc002mvz.1_Missense_Mutation_p.E207K|RAD23A_uc002mwa.1_Missense_Mutation_p.E207K|RAD23A_uc002mvy.1_Missense_Mutation_p.E42K|RAD23A_uc010xmw.1_Missense_Mutation_p.E42K	NM_005053	NP_005044	P54725	RD23A_HUMAN	UV excision repair protein RAD23 homolog A	207					interspecies interaction between organisms|nucleotide-excision repair|positive regulation of viral genome replication|proteasomal ubiquitin-dependent protein catabolic process|regulation of proteasomal ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	damaged DNA binding|polyubiquitin binding|single-stranded DNA binding			central_nervous_system(1)	1						TGGGAGCCCCGAGCCGGAACA	0.622								NER					3	14					0	0	0.009096	0	0		A	13059913	A	A	13059913	3	1	212	1	0	0	0	0	1	0	0	0	13007	1059	37	1	641	1	RAD23A	19	13059913	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	74853	13059913	46069070	1383	105188											
MRI1	84245	broad.mit.edu	37	chr19	13879814	13879814	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agatcattattgaagagcgaCcgggccaggagctgaccgat	12	7	13	9	3	1	4	1	2	0	2	1	7	1	5	3	2	2	1	3	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:13879814C>T	uc002mxe.2	+	5	967	c.901C>T	c.(901-903)CCG>TCG	p.P301S	MRI1_uc002mxf.2_Missense_Mutation_p.P254S	NM_001031727	NP_001026897	Q9BV20	MTNA_HUMAN	translation initiation factor eIF-2B subunit	301					L-methionine salvage from methylthioadenosine	cell projection|cytoplasm|nucleus	identical protein binding|S-methyl-5-thioribose-1-phosphate isomerase activity			ovary(1)	1						TGAAGAGCGACCGGGCCAGGA	0.592													8	12					0	0	0.00308	0	0		T	13879814	T	T	13879814	3	4	212	1	0	0	0	0	1	0	0	0	9788	507	18	4	1012	4	MRI1	19	13879814	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	819901	13879814	45249169	1384	105189											
DCAF15	90379	broad.mit.edu	37	chr19	14070014	14070014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgggtctcctgagccctcGcccgccattgccaaagccaa	7	8	9	17	2	2	1	0	1	2	0	4	1	2	1	6	1	3	0	6	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:14070014G>A	uc002mxt.2	+	7	948	c.942G>A	c.(940-942)TCG>TCA	p.S314S	DCAF15_uc002mxu.2_5'Flank	NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	314										central_nervous_system(1)	1						CTGAGCCCTCGCCCGCCATTG	0.701													27	36					0	0	0.010818	0	0		A	14070014	A	A	14070014	2	1	212	1	0	0	0	0	0	0	0	1	4270	1074	38	1		1	DCAF15	19	14070014	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	190200	14070014	45058969	1385	105190											
OR1I1	126370	broad.mit.edu	37	chr19	15198348	15198348	+	Missense_Mutation	SNP	A	G	G	1	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	tcaccaacctccagtctctcAtacacacctgcctcatggct	9	10	4	18	0	4	0	3	0	1	0	6	0	5	0	5	1	3	1	5	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:15198348A>G	uc010xoe.1	+	1	472	c.472A>G	c.(472-474)ATA>GTA	p.I158V		NM_001004713	NP_001004713	O60431	OR1I1_HUMAN	olfactory receptor, family 1, subfamily I,	158	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|kidney(1)	3						CCAGTCTCTCATACACACCTG	0.567													3	39					0	0	0.004672	0	0		G	15198348	G	G	15198348	3	3	212	1	0	0	0	0	1	0	0	0	10977	217	8	3	474	3	OR1I1	19	15198348	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1128334	15198348	43930635	1386	105191											
ILVBL	10994	broad.mit.edu	37	chr19	15227320	15227320	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccactaacttcagcacgaaGgaacccacatctcctgggga	12	7	8	14	1	2	0	1	0	1	0	4	3	3	2	3	3	3	1	3	3	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:15227320G>T	uc002nam.2	-	11	1321	c.1200C>A	c.(1198-1200)TCC>TCA	p.S400S	ILVBL_uc010xof.1_Silent_p.S41S|ILVBL_uc010dzw.2_Silent_p.S293S	NM_006844	NP_006835	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	400						integral to membrane	magnesium ion binding|thiamine pyrophosphate binding|transferase activity			ovary(2)	2						TCAGCACGAAGGAACCCACAT	0.612													12	28					3.03607e-14	3.42187e-14	0.013537	1	0		T	15227320	T	T	15227320	2	4	212	1	0	0	0	0	0	0	0	1	7731	987	35	5		5	ILVBL	19	15227320	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	28972	15227320	43901663	1387	105192											
NOTCH3	4854	broad.mit.edu	37	chr19	15273352	15273352	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ccacgttgttcacagccgcaGcccagtgtaaggctgatttc	8	10	10	13	2	1	1	1	1	0	0	2	1	1	1	3	1	2	5	3	1	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:15273352G>A	uc002nan.2	-	32	5913	c.5837C>T	c.(5836-5838)GCT>GTT	p.A1946V		NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1946	Cytoplasmic (Potential).|ANK 4.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			CACAGCCGCAGCCCAGTGTAA	0.572													12	15					0	0	0.010729	0	0		A	15273352	A	A	15273352	3	1	212	1	0	0	0	0	1	0	0	0	10569	971	34	2	1136	2	NOTCH3	19	15273352	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	46032	15273352	43855631	1388	105193											
NOTCH3	4854	broad.mit.edu	37	chr19	15289970	15289970	+	Frame_Shift_Del	DEL	G	-	-																															agcgcaaaccagtgtatcctGggggacaggtgcagcggaaa																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:15289970delG	uc002nan.2	-	22	3660	c.3584delC	c.(3583-3585)CCAfs	p.P1195fs	NOTCH3_uc002nao.1_Frame_Shift_Del_p.P1143fs	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	1195	Extracellular (Potential).|EGF-like 30; calcium-binding (Potential).				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AGTGTATCCTGGGGGACAGGT	0.667													20	30	---	---	---	---						.	-	15289970	-	-	15289970	7	5	212	1	0	1	0	1	0	0	0	0	10569	1348	47	0	3429	0	NOTCH3	19	15289970	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	16618	15289970	43839013	1389	105194											
AKAP8	10270	broad.mit.edu	37	chr19	15471735	15471735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gtgcaggaattagcatgtcgCaggccaggcagtgagcagcc	10	6	15	10	1	0	1	0	1	0	0	1	2	0	2	2	3	4	5	2	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:15471735C>T	uc002nav.2	-	12	1512	c.1451G>A	c.(1450-1452)TGC>TAC	p.C484Y	AKAP8_uc010dzy.2_Missense_Mutation_p.C33Y|AKAP8_uc010dzz.1_RNA	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	484	C2H2 AKAP95-type 2.				signal transduction	nuclear matrix				ovary(1)|breast(1)	2						TAGCATGTCGCAGGCCAGGCA	0.587													8	13					0	0	0.008291	0	0		T	15471735	T	T	15471735	3	4	212	1	0	0	0	0	1	0	0	0	457	710	25	2	639	2	AKAP8	19	15471735	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	181765	15471735	43657248	1390	105195											
AP1M1	8907	broad.mit.edu	37	chr19	16319879	16319879	+	Frame_Shift_Del	DEL	C	-	-																															ccacaagctggaaacaggggCcccgcggccaccagccaccg																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:16319879delC	uc002ndu.2	+	5	610	c.437delC	c.(436-438)GCCfs	p.A146fs	AP1M1_uc002ndv.2_Frame_Shift_Del_p.A146fs|AP1M1_uc010xpd.1_Frame_Shift_Del_p.A146fs	NM_032493	NP_115882	Q9BXS5	AP1M1_HUMAN	adaptor-related protein complex 1, mu 1 subunit	146					cellular membrane organization|endosome to melanosome transport|interspecies interaction between organisms|intracellular protein transport|melanosome organization|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(3)|breast(1)	4						GAAACAGGGGCCCCGCGGCCA	0.612													22	37	---	---	---	---						.	-	16319879	-	-	16319879	7	5	212	1	0	1	0	1	0	0	0	0	734	739	26	0	455	0	AP1M1	19	16319879	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	848144	16319879	42809104	1391	105196											
CPAMD8	27151	broad.mit.edu	37	chr19	17039884	17039884	+	Frame_Shift_Del	DEL	C	-	-																															catgacctggtgttctgatgCccccccaggacgatctcgat																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:17039884delC	uc002nfb.2	-	24	3185	c.3153delG	c.(3151-3153)GGGfs	p.G1051fs		NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1004						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)|skin(1)	13						TGTTCTGATGCCCCCCCAGGA	0.587													16	17	---	---	---	---						.	-	17039884	-	-	17039884	7	5	212	1	0	1	0	1	0	0	0	0	3798	726	26	0	2721	0	CPAMD8	19	17039884	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	720005	17039884	42089099	1392	105197											
MYO9B	4650	broad.mit.edu	37	chr19	17317068	17317068	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	accccacagaccccgcagcaGtcaagctggagaacttcccc	11	4	8	18	1	1	2	1	0	0	2	2	3	2	2	6	1	3	3	6	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:17317068G>A	uc010eak.2	+	33	5421	c.5269G>A	c.(5269-5271)GTC>ATC	p.V1757I	MYO9B_uc002nfi.2_Missense_Mutation_p.V1757I|MYO9B_uc002nfj.1_Missense_Mutation_p.V1757I|MYO9B_uc002nfl.1_Intron|MYO9B_uc002nfm.1_5'Flank	NM_004145	NP_004136	Q13459	MYO9B_HUMAN	myosin IXB isoform 1	1757	Rho-GAP.|Tail.				actin filament-based movement	cell cortex|cytosol|filamentous actin|myosin complex|perinuclear region of cytoplasm	actin binding|ADP binding|ATP binding|ATPase activity|calmodulin binding|metal ion binding|microfilament motor activity|Rho GTPase activator activity			breast(1)	1						CCCCGCAGCAGTCAAGCTGGA	0.682													5	4					0	0	0.001168	0	0		A	17317068	A	A	17317068	3	1	212	1	0	0	0	0	1	0	0	0	10103	1029	36	4	5395	4	MYO9B	19	17317068	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	277184	17317068	41811915	1393	105198											
USE1	55850	broad.mit.edu	37	chr19	17330465	17330465	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcacactcactgaaaatggCggaccagaacctggagaaac	15	5	10	11	1	2	3	2	1	0	2	2	5	2	4	2	3	2	0	2	3	4	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:17330465C>T	uc002nfo.2	+	8	683	c.623C>T	c.(622-624)GCG>GTG	p.A208V	USE1_uc010eal.1_3'UTR	NM_018467	NP_060937	Q9NZ43	USE1_HUMAN	unconventional SNARE in the ER 1 homolog	208	Cytoplasmic (Potential).|Potential.				lysosomal transport|protein catabolic process|protein transport|secretion by cell|vesicle-mediated transport	endoplasmic reticulum membrane|integral to membrane	protein binding				0						CTGAAAATGGCGGACCAGAAC	0.537													13	19					0	0	0.001855	0	0		T	17330465	T	T	17330465	3	4	212	1	0	0	0	0	1	0	0	0	17057	768	27	1	653	1	USE1	19	17330465	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	13397	17330465	41798518	1394	105199											
JUND	3727	broad.mit.edu	37	chr19	18391865	18391865	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttgtgtaaatcctccaGggccttgacgaagccctcgg	7	10	11	13	2	0	1	0	1	0	0	3	2	2	1	4	2	2	2	4	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:18391865G>T	uc002nip.2	-	1	568	c.430C>A	c.(430-432)CTG>ATG	p.L144M	hsa-mir-3188|MI0014232_5'Flank	NM_005354	NP_005345	P17535	JUND_HUMAN	jun D proto-oncogene	144					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding				0						AAATCCTCCAGGGCCTTGACG	0.562													10	8					0.000151284	0.000156837	0.001855	1	0		T	18391865	T	T	18391865	3	4	212	1	0	0	0	0	1	0	0	0	7987	991	35	5	617	5	JUND	19	18391865	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1061400	18391865	40737118	1395	105200											
TMEM59L	25789	broad.mit.edu	37	chr19	18727908	18727908	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cctgaagccctggaggtgcaCgtgggtaaggtgcaacctag	9	7	15	10	1	0	1	0	1	0	0	0	2	0	2	3	4	4	3	3	4	4	2	rs138742174		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:18727908C>T	uc002njy.3	+	5	747	c.660C>T	c.(658-660)CAC>CAT	p.H220H	TMEM59L_uc010ebu.1_Silent_p.H220H	NM_012109	NP_036241	Q9UK28	TM59L_HUMAN	brain-specific membrane-anchored protein	220						Golgi membrane|integral to membrane|membrane fraction				ovary(2)|skin(2)	4						TGGAGGTGCACGTGGGTAAGG	0.632													12	50					0	0	0.001855	0	0		T	18727908	T	T	18727908	2	4	212	1	0	0	0	0	0	0	0	1	16211	535	19	1		1	TMEM59L	19	18727908	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	336043	18727908	40401075	1396	105201											
CILP2	148113	broad.mit.edu	37	chr19	19653320	19653320	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggccaccagcgatgctcaCggaaccttccgggtgcctgg	6	7	14	14	3	1	0	1	0	0	0	2	2	2	1	5	4	4	1	5	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:19653320C>T	uc002nmv.3	+	5	814	c.729C>T	c.(727-729)CAC>CAT	p.H243H	CILP2_uc002nmw.3_Silent_p.H249H	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	243						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						GCGATGCTCACGGAACCTTCC	0.667													11	21					0	0	0.010729	0	0		T	19653320	T	T	19653320	2	4	212	1	0	0	0	0	0	0	0	1	3433	535	19	1		1	CILP2	19	19653320	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	925412	19653320	39475663	1397	105202											
GMIP	51291	broad.mit.edu	37	chr19	19746286	19746286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcggcacttggctgggccccGcagtcgccgcagctggtggg	3	6	18	14	4	0	0	0	0	0	0	1	0	0	0	3	5	1	5	3	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:19746286G>A	uc002nnd.2	-	15	1615	c.1498C>T	c.(1498-1500)CGG>TGG	p.R500W	GMIP_uc010xrb.1_Missense_Mutation_p.R474W|GMIP_uc010xrc.1_Missense_Mutation_p.R471W	NM_016573	NP_057657	Q9P107	GMIP_HUMAN	GEM interacting protein	500	Phorbol-ester/DAG-type.				negative regulation of Rho GTPase activity|small GTPase mediated signal transduction	cytosol	metal ion binding|protein binding|Rho GTPase activator activity			ovary(1)	1						GCTGGGCCCCGCAGTCGCCGC	0.652													20	33					0	0	0.012319	0	0		A	19746286	A	A	19746286	3	1	212	1	0	0	0	0	1	0	0	0	6506	1086	38	1	1442	1	GMIP	19	19746286	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	92966	19746286	39382697	1398	105203											
ZNF43	7594	broad.mit.edu	37	chr19	21991483	21991483	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catacttcacatttgtagggTttctctccagtatgaattct	9	17	6	9	0	3	1	1	1	2	0	5	1	4	1	1	1	1	3	1	1	4	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:21991483T>G	uc002nqj.2	-	4	1486	c.1356A>C	c.(1354-1356)AAA>AAC	p.K452N	ZNF43_uc010ecv.2_Missense_Mutation_p.K446N|ZNF43_uc002nql.2_Missense_Mutation_p.K446N|ZNF43_uc002nqm.2_Missense_Mutation_p.K446N|ZNF43_uc002nqk.2_Missense_Mutation_p.K382N	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	452					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		ATTTGTAGGGTTTCTCTCCAG	0.393													10	31					0	0	0.008291	0	0		G	21991483	G	G	21991483	3	3	212	1	0	0	0	0	1	0	0	0	17928	1722	60	5	1077	5	ZNF43	19	21991483	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2245197	21991483	37137500	1399	105204											
ZNF675	171392	broad.mit.edu	37	chr19	23836033	23836033	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ttgtcaaaatcattatcacaCattccagttctgtagtttct	11	17	4	9	0	5	0	3	0	2	0	6	0	6	0	1	0	0	3	1	0	4	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:23836033C>T	uc002nri.2	-	4	1884	c.1702G>A	c.(1702-1704)GTG>ATG	p.V568M		NM_138330	NP_612203	Q8TD23	ZN675_HUMAN	zinc finger protein 675	568					bone resorption|cytokine-mediated signaling pathway|hemopoiesis|I-kappaB kinase/NF-kappaB cascade|negative regulation of JNK cascade|negative regulation of osteoclast differentiation|negative regulation of protein kinase activity|negative regulation of transcription, DNA-dependent|regulation of ossification|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				CATTATCACACATTCCAGTTC	0.299													4	34					0	0	0.001984	0	0		T	23836033	T	T	23836033	3	4	212	1	0	0	0	0	1	0	0	0	18107	478	17	4	8	4	ZNF675	19	23836033	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1844550	23836033	35292950	1400	105205											
ZNF536	9745	broad.mit.edu	37	chr19	30935034	30935034	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggcaacctgggcaaggggCgtgggcgtgtgcgcgaggag	6	5	22	8	4	0	0	0	0	0	0	0	2	0	1	1	6	2	2	1	6	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:30935034C>T	uc002nsu.1	+	2	703	c.565C>T	c.(565-567)CGT>TGT	p.R189C	ZNF536_uc010edd.1_Missense_Mutation_p.R189C	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	189					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					GGGCAAGGGGCGTGGGCGTGT	0.677													5	9					0	0	0.000602	0	0		T	30935034	T	T	30935034	3	4	212	1	0	0	0	0	1	0	0	0	17999	768	27	1	567	1	ZNF536	19	30935034	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7099001	30935034	28193949	1401	105206											
NUDT19	390916	broad.mit.edu	37	chr19	33202775	33202775	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccggatagtgacataccatcGccacctttatgatatccacg	11	10	7	13	3	0	2	0	2	0	0	2	3	1	3	5	1	1	0	5	1	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:33202775G>A	uc010edf.2	+	3	1040	c.1040G>A	c.(1039-1041)CGC>CAC	p.R347H		NM_001105570	NP_001099040	A8MXV4	NUD19_HUMAN	nudix (nucleoside diphosphate linked moiety	347						mitochondrion|peroxisome	hydrolase activity|metal ion binding				0	Esophageal squamous(110;0.137)					ACATACCATCGCCACCTTTAT	0.388													22	63					0	0	0.004656	0	0		A	33202775	A	A	33202775	3	1	212	1	0	0	0	0	1	0	0	0	10755	1087	38	1	1050	1	NUDT19	19	33202775	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2267741	33202775	25926208	1402	105207											
SLC7A9	11136	broad.mit.edu	37	chr19	33355008	33355008	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctcaggtactcacagatggCggcggcggccaggcatttca	8	7	14	12	3	3	1	3	0	0	1	3	1	3	1	1	6	1	3	1	6	1	2	rs140134166	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:33355008C>T	uc002ntv.3	-	4	589	c.472G>A	c.(472-474)GCC>ACC	p.A158T	SLC7A9_uc002ntt.3_RNA|SLC7A9_uc002ntu.3_Missense_Mutation_p.A158T|SLC7A9_uc002ntw.3_5'UTR	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	158	Helical; (Potential).		A -> AA (in CSNU).		blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	TCACAGATGGCGGCGGCGGCC	0.607													11	25					0	0	0.001855	0	0		T	33355008	T	T	33355008	3	4	212	1	0	0	0	0	1	0	0	0	14730	768	27	1	1031	1	SLC7A9	19	33355008	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	152233	33355008	25773975	1403	105208											
CCDC123	84902	broad.mit.edu	37	chr19	33372847	33372847	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtactgggctgtcttgccggCgaagtcctcctgctgctcca	4	11	12	14	2	1	0	0	0	1	0	4	1	4	0	4	2	4	4	4	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:33372847C>T	uc002nty.2	-	18	2127	c.2038G>A	c.(2038-2040)GCC>ACC	p.A680T	CCDC123_uc002ntx.2_Missense_Mutation_p.A433T|CCDC123_uc010edg.2_RNA	NM_032816	NP_116205	Q96ST8	CEP89_HUMAN	coiled-coil domain containing 123	680	Potential.					centrosome|spindle pole					0	Esophageal squamous(110;0.137)					GTCTTGCCGGCGAAGTCCTCC	0.622													5	6					0	0	0.000602	0	0		T	33372847	T	T	33372847	3	4	212	1	0	0	0	0	1	0	0	0	2762	768	27	1	321	1	CCDC123	19	33372847	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	17839	33372847	25756136	1404	105209											
LSR	51599	broad.mit.edu	37	chr19	35741297	35741297	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcctgtgaccctgccctgTacctaccagatgacctcgac	8	8	8	17	1	0	3	0	2	0	1	1	4	0	3	6	0	4	1	6	0	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:35741297T>C	uc002nyl.2	+	2	556	c.333T>C	c.(331-333)TGT>TGC	p.C111C	LSR_uc002nym.2_Silent_p.C111C|LSR_uc002nyn.2_Silent_p.C111C|LSR_uc002nyo.2_Silent_p.C111C|LSR_uc010xsr.1_Silent_p.C111C|LSR_uc002nyp.2_Silent_p.C74C	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor	111	Extracellular (Potential).|Ig-like V-type.				embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	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)			CCCTGCCCTGTACCTACCAGA	0.622													74	152					0	0	0.01441	0	0		C	35741297	C	C	35741297	2	2	212	1	0	0	0	0	0	0	0	1	9082	1644	57	3		3	LSR	19	35741297	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2368450	35741297	23387686	1405	105210											
ATP4A	495	broad.mit.edu	37	chr19	36050835	36050835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtggcaccgaagagaatggCcaggcccgcgatgatgtcca	10	6	14	11	3	0	2	0	1	0	1	1	5	1	2	4	3	0	1	4	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:36050835C>T	uc002oal.1	-	7	957	c.928G>A	c.(928-930)GCC>ACC	p.A310T	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	310	Helical; (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	AAGAGAATGGCCAGGCCCGCG	0.552													25	61					0	0	0.008361	0	0		T	36050835	T	T	36050835	3	4	212	1	0	0	0	0	1	0	0	0	1146	739	26	2	2243	2	ATP4A	19	36050835	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	309538	36050835	23078148	1406	105211											
ATP4A	495	broad.mit.edu	37	chr19	36051332	36051332	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctctcgtgcgtgcactcGggtgagcgggtctgtggctc	2	10	18	11	4	2	1	0	1	2	0	5	1	2	1	0	4	3	3	0	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:36051332G>T	uc002oal.1	-	6	749	c.720C>A	c.(718-720)CCC>CCA	p.P240P	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	240	Cytoplasmic (Potential).				ATP biosynthetic process|ATP hydrolysis coupled proton transport	integral to plasma membrane	ATP binding|hydrogen:potassium-exchanging ATPase activity|magnesium ion binding			ovary(1)	1	all_lung(56;1.05e-07)|Lung NSC(56;1.63e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)		Esomeprazole(DB00736)|Lansoprazole(DB00448)|Omeprazole(DB00338)|Pantoprazole(DB00213)|Rabeprazole(DB01129)|Trifluoperazine(DB00831)	GCGTGCACTCGGGTGAGCGGG	0.657													22	41					4.26978e-12	4.73103e-12	0.00333	1	0		T	36051332	T	T	36051332	2	4	212	1	0	0	0	0	0	0	0	1	1146	1103	39	5		5	ATP4A	19	36051332	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	497	36051332	23077651	1407	105212											
NPHS1	4868	broad.mit.edu	37	chr19	36340027	36340027	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgtgctctgtgccccacGctgtggacaccggctggcca	4	8	15	14	2	1	0	0	0	1	0	1	1	1	1	4	4	2	3	4	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:36340027G>A	uc002oby.2	-	8	863	c.863C>T	c.(862-864)GCG>GTG	p.A288V		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	288	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	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)			TGTGCCCCACGCTGTGGACAC	0.677													26	29					0	0	0.00632	0	0		A	36340027	A	A	36340027	3	1	212	1	0	0	0	0	1	0	0	0	10601	1087	38	1	2950	1	NPHS1	19	36340027	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	288695	36340027	22788956	1408	105213											
CLIP3	25999	broad.mit.edu	37	chr19	36508818	36508818	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggcccgcgacaaggacctggTctccaacctcagccttggcc	7	6	11	17	2	2	0	1	0	1	0	3	2	2	1	6	4	2	0	6	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:36508818T>C	uc010eeq.1	-	9	1541	c.1259A>G	c.(1258-1260)GAC>GGC	p.D420G	uc002ocy.2_Intron|CLIP3_uc002ocz.1_Missense_Mutation_p.D420G	NM_015526	NP_056341	Q96DZ5	CLIP3_HUMAN	CAP-GLY domain containing linker protein 3	420					chaperone-mediated protein transport|fat cell differentiation|membrane biogenesis|negative regulation of microtubule polymerization|peptidyl-L-cysteine S-palmitoylation|positive regulation of apoptosis|positive regulation of endocytosis|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose transport|positive regulation of protein phosphorylation	early endosome membrane|Golgi stack|membrane raft|microsome|plasma membrane|recycling endosome membrane|trans-Golgi network membrane	ganglioside binding|microtubule binding			ovary(2)|pancreas(1)|skin(1)	4	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			AAGGACCTGGTCTCCAACCTC	0.622													15	43					0	0	0.004007	0	0		C	36508818	C	C	36508818	3	2	212	1	0	0	0	0	1	0	0	0	3537	1667	58	3	404	3	CLIP3	19	36508818	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	168791	36508818	22620165	1409	105214											
THAP8	199745	broad.mit.edu	37	chr19	36530914	36530914	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggtagcgcacaccccagcGccactggaagcaggagggtg	10	3	15	13	2	0	0	0	0	0	0	0	2	0	2	3	4	3	3	3	4	2	1	rs146907955		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:36530914G>A	uc002oda.1	-	2	753	c.208C>T	c.(208-210)CGC>TGC	p.R70C	uc002ocy.2_Intron|THAP8_uc010xtb.1_Missense_Mutation_p.R27C|THAP8_uc010xtc.1_Intron	NM_152658	NP_689871	Q8NA92	THAP8_HUMAN	THAP domain containing 8	70	THAP-type.						DNA binding|metal ion binding				0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			ACACCCCAGCGCCACTGGAAG	0.662													11	32					0	0	0.00245	0	0		A	36530914	A	A	36530914	3	1	212	1	0	0	0	0	1	0	0	0	15875	1087	38	1	628	1	THAP8	19	36530914	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	22096	36530914	22598069	1410	105215											
WDR62	284403	broad.mit.edu	37	chr19	36595895	36595895	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacactactcggagctgctgGtgcaggccgtgcggaggaag	9	6	16	10	3	0	0	0	0	0	0	1	3	0	3	1	5	6	3	1	5	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:36595895G>T	uc002odc.2	+	32	4613	c.4522G>T	c.(4522-4524)GTG>TTG	p.V1508L	WDR62_uc002odd.2_Missense_Mutation_p.V1513L	NM_173636	NP_775907	O43379	WDR62_HUMAN	WD repeat domain 62 isoform 2	1508					cerebral cortex development	nucleus					0	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			GGAGCTGCTGGTGCAGGCCGT	0.662													7	4					0.000157383	0.000162976	0.00308	1	0		T	36595895	T	T	36595895	3	4	212	1	0	0	0	0	1	0	0	0	17339	1261	44	5	4663	5	WDR62	19	36595895	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	64981	36595895	22533088	1411	105216											
ZNF570	148268	broad.mit.edu	37	chr19	37975340	37975340	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggattcatactggagaaaaAccctatgaatgtaaggaatg	17	9	10	5	0	1	2	1	1	0	1	1	5	1	4	1	3	2	1	1	3	7	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:37975340A>C	uc002ogk.1	+	5	1345	c.816A>C	c.(814-816)AAA>AAC	p.K272N	ZNF570_uc010efl.1_Missense_Mutation_p.K328N|ZNF570_uc010xtr.1_Missense_Mutation_p.K69N	NM_144694	NP_653295	Q96NI8	ZN570_HUMAN	zinc finger protein 570	272					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTGGAGAAAAACCCTATGAAT	0.398													32	40					0	0	0.012213	0	0		C	37975340	C	C	37975340	3	2	212	1	0	0	0	0	1	0	0	0	18027	40	2	5	830	5	ZNF570	19	37975340	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1379445	37975340	21153643	1412	105217											
GGN	199720	broad.mit.edu	37	chr19	38876629	38876629	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggccccgggcgcatgggctCgccattggtgggtgctggga	4	7	19	11	3	0	0	0	0	0	0	1	1	0	1	3	6	1	3	3	6	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:38876629C>T	uc002oij.1	-	3	1408	c.1273G>A	c.(1273-1275)GAG>AAG	p.E425K	GGN_uc002oik.1_Intron|GGN_uc010efy.1_Missense_Mutation_p.E342K	NM_152657	NP_689870	Q86UU5	GGN_HUMAN	gametogenetin	425	Interaction with GGNBP1 (By similarity).|Pro-rich.				cell differentiation|multicellular organismal development|spermatogenesis						0	all_cancers(60;3.4e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CGCATGGGCTCGCCATTGGTG	0.483													5	8					0	0	0.010729	0	0		T	38876629	T	T	38876629	3	4	212	1	0	0	0	0	1	0	0	0	6373	893	31	1	693	1	GGN	19	38876629	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	901289	38876629	20252354	1413	105218											
PAK4	10298	broad.mit.edu	37	chr19	39667317	39667317	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcggcacgccctactggatgGccccagagctcatctcccgc	6	7	10	18	3	2	1	1	0	1	1	4	2	2	2	4	3	2	2	4	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:39667317G>A	uc002okj.1	+	9	1908	c.1447G>A	c.(1447-1449)GCC>ACC	p.A483T	PAK4_uc002okl.1_Missense_Mutation_p.A483T|PAK4_uc002okn.1_Missense_Mutation_p.A483T|PAK4_uc002okm.1_Missense_Mutation_p.A330T|PAK4_uc002oko.1_Missense_Mutation_p.A330T|PAK4_uc002okp.1_Missense_Mutation_p.A393T	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	483	Protein kinase.				cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			CTACTGGATGGCCCCAGAGCT	0.647													50	70					0	0	0.01441	0	0		A	39667317	A	A	39667317	3	1	212	1	0	0	0	0	1	0	0	0	11422	1203	42	2	1469	2	PAK4	19	39667317	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	790688	39667317	19461666	1414	105219											
SUPT5H	6829	broad.mit.edu	37	chr19	39957172	39957172	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctccctgaagatgatcccacGcatcgactacgatcgcatca	11	8	7	15	4	1	3	1	2	0	1	5	5	3	3	2	0	1	2	2	0	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:39957172G>A	uc002olo.3	+	12	1108	c.929G>A	c.(928-930)CGC>CAC	p.R310H	SUPT5H_uc002olp.3_Missense_Mutation_p.R310H|SUPT5H_uc002olq.3_Missense_Mutation_p.R306H|SUPT5H_uc002oln.3_Missense_Mutation_p.R310H|SUPT5H_uc002olr.3_Missense_Mutation_p.R310H|SUPT5H_uc002ols.1_5'Flank	NM_001111020	NP_001104490	O00267	SPT5H_HUMAN	suppressor of Ty 5 homolog isoform a	310					cell cycle|chromatin remodeling|mRNA capping|negative regulation of transcription elongation, DNA-dependent|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|response to organic substance|retroviral genome replication|transcription elongation from RNA polymerase II promoter	nucleoplasm	enzyme binding|protein heterodimerization activity			ovary(3)|pancreas(1)	4	all_cancers(60;6.69e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;1.57e-06)|Ovarian(47;0.159)		Epithelial(26;3.9e-26)|all cancers(26;1.35e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			ATGATCCCACGCATCGACTAC	0.622													23	51					0	0	0.00278	0	0		A	39957172	A	A	39957172	3	1	212	1	0	0	0	0	1	0	0	0	15424	1087	38	1	971	1	SUPT5H	19	39957172	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	289855	39957172	19171811	1415	105220											
SPTBN4	57731	broad.mit.edu	37	chr19	41075621	41075621	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	agaaagaggcaggcccagggCtgcctgctggggtaagttga	10	6	17	8	0	0	3	0	1	0	2	0	3	0	3	2	5	2	5	2	5	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:41075621C>A	uc002ony.2	+	32	7101	c.7015C>A	c.(7015-7017)CTG>ATG	p.L2339M	SPTBN4_uc002onz.2_Missense_Mutation_p.L2339M|SPTBN4_uc010egx.2_Missense_Mutation_p.L1082M	NM_020971	NP_066022	Q9H254	SPTN4_HUMAN	spectrin, beta, non-erythrocytic 4 isoform	2339					actin filament capping|axon guidance|cytoskeletal anchoring at plasma membrane|vesicle-mediated transport	cytosol|nuclear matrix|PML body|spectrin	actin binding|ankyrin binding|structural constituent of cytoskeleton			ovary(3)|central_nervous_system(1)|skin(1)	5			Lung(22;0.000114)|LUSC - Lung squamous cell carcinoma(20;0.000384)			AGGCCCAGGGCTGCCTGCTGG	0.602													8	17					3.86212e-05	4.02204e-05	0.008291	1	0		A	41075621	A	A	41075621	3	1	212	1	0	0	0	0	1	0	0	0	15146	796	28	5	7231	5	SPTBN4	19	41075621	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1118449	41075621	18053362	1416	105221											
NUMBL	9253	broad.mit.edu	37	chr19	41188661	41188661	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgtcgtccaccactcggagcCcatcggctgacacccacagg	8	6	10	17	3	0	1	0	1	0	0	4	2	1	2	4	3	1	1	4	3	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:41188661C>A	uc002oon.2	-	5	539	c.371G>T	c.(370-372)GGG>GTG	p.G124V	NUMBL_uc010xvq.1_Missense_Mutation_p.G83V|NUMBL_uc002ooo.2_Missense_Mutation_p.G124V|NUMBL_uc010xvr.1_Missense_Mutation_p.G83V	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	124	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			CACTCGGAGCCCATCGGCTGA	0.647													14	29					0.000219431	0.000226972	0.00245	1	0		A	41188661	A	A	41188661	3	1	212	1	0	0	0	0	1	0	0	0	10771	623	22	5	1482	5	NUMBL	19	41188661	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	113040	41188661	17940322	1417	105222											
SNRPA	6626	broad.mit.edu	37	chr19	41271032	41271032	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctgcagggctttaagatcaCgcagaacaacgccatgaaga	14	6	10	11	2	1	4	1	1	0	3	1	4	1	4	2	1	3	3	2	1	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:41271032C>T	uc002ooz.2	+	6	1344	c.809C>T	c.(808-810)ACG>ATG	p.T270M	SNRPA_uc002opa.2_Missense_Mutation_p.T220M	NM_004596	NP_004587	P09012	SNRPA_HUMAN	small nuclear ribonucleoprotein polypeptide A	270	RRM 2.					nucleoplasm|spliceosomal complex	nucleotide binding|protein binding|RNA binding			skin(2)|ovary(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			TTTAAGATCACGCAGAACAAC	0.597													13	22					0	0	0.00245	0	0		T	41271032	T	T	41271032	3	4	212	1	0	0	0	0	1	0	0	0	14884	536	19	1	831	1	SNRPA	19	41271032	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	82371	41271032	17857951	1418	105223											
ATP1A3	478	broad.mit.edu	37	chr19	42473622	42473622	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actgtcttccaggtcattgaCggtgcggtcatcccagttca	7	12	10	12	2	4	1	3	1	1	0	6	1	6	1	2	3	1	1	2	3	0	3	rs149600313	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:42473622C>T	uc002osg.2	-	19	2807	c.2653G>A	c.(2653-2655)GTC>ATC	p.V885I	ATP1A3_uc010xwf.1_Missense_Mutation_p.V896I|ATP1A3_uc010xwg.1_Missense_Mutation_p.V855I|ATP1A3_uc010xwh.1_Missense_Mutation_p.V898I|ATP1A3_uc002osh.2_Missense_Mutation_p.V885I	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	885	Extracellular (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						AGGTCATTGACGGTGCGGTCA	0.592													38	68					0	0	0.004289	0	0		T	42473622	T	T	42473622	3	4	212	1	0	0	0	0	1	0	0	0	1131	536	19	1	408	1	ATP1A3	19	42473622	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1202590	42473622	16655361	1419	105224											
POU2F2	5452	broad.mit.edu	37	chr19	42599543	42599544	+	Frame_Shift_Ins	INS	-	CGGATCA	CGGATCA																															gccggttgcagaaccagacgINScggatcacttccttctccat																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:42599543_42599544insCGGATCA	uc002osp.2	-	11	1092_1093	c.1025_1026insTGATCCG	c.(1024-1026)CGCfs	p.R342fs	POU2F2_uc002osn.2_Frame_Shift_Ins_p.R326fs|POU2F2_uc002oso.2_Frame_Shift_Ins_p.R115fs|POU2F2_uc002osq.2_Frame_Shift_Ins_p.R326fs|POU2F2_uc002osr.1_Frame_Shift_Ins_p.R342fs	NM_002698	NP_002689	P09086	PO2F2_HUMAN	POU domain, class 2, transcription factor 2	342	Homeobox.			VIR->FNP: Suppresses DNA-binding ability.	humoral immune response|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2		Prostate(69;0.059)				AGAACCAGACGCGGATCACTTC	0.644													14	23	---	---	---	---						.	CGGATCA	42599544	CGGATCA	CGGATCA	42599543	7	5	212	1	0	1	1	0	0	0	0	0	12291	1074	38	0	429	0	POU2F2	19	42599543	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	125921	42599543	16529440	1420	105225											
CIC	23152	broad.mit.edu	37	chr19	42793486	42793486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cttctcgttctcagcgtgcgGccagtgaggacatgacgagt	7	10	13	11	4	2	2	1	2	2	0	4	4	2	3	1	2	2	1	1	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:42793486G>A	uc002otf.1	+	8	1328	c.1288G>A	c.(1288-1290)GCC>ACC	p.A430T		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	430					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				TCAGCGTGCGGCCAGTGAGGA	0.627			T	DUX4	soft tissue sarcoma								5	24					0	0	0.000602	0	0		A	42793486	A	A	42793486	3	1	212	1	0	0	0	0	1	0	0	0	3427	1203	42	2	1318	2	CIC	19	42793486	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	193943	42793486	16335497	1421	105226											
MEGF8	1954	broad.mit.edu	37	chr19	42830410	42830410	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcgatggccctgggcaaGgttctggccatggcactggt	5	8	17	11	2	1	0	0	0	1	0	1	1	1	0	2	7	0	3	2	7	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:42830410G>T	uc002otl.3	+	1	650	c.15G>T	c.(13-15)AAG>AAT	p.K5N		NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	5						integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				CCCTGGGCAAGGTTCTGGCCA	0.687											OREG0025502	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	16					7.48243e-07	7.92714e-07	0.006214	1	0		T	42830410	T	T	42830410	3	4	212	1	0	0	0	0	1	0	0	0	9481	991	35	5	17	5	MEGF8	19	42830410	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	36924	42830410	16298573	1422	105227											
PSG3	5671	broad.mit.edu	37	chr19	43243121	43243121	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtaccagatgtagccagcaAgattctggggcaaattgtgg	11	10	13	7	0	1	2	0	0	1	2	1	2	1	2	2	3	3	4	2	3	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:43243121A>G	uc002oue.2	-	2	317	c.185T>C	c.(184-186)CTT>CCT	p.L62P	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Missense_Mutation_p.L84P	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	62	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				GTAGCCAGCAAGATTCTGGGG	0.448													69	122					0	0	0.01441	0	0		G	43243121	G	G	43243121	3	3	212	1	0	0	0	0	1	0	0	0	12678	72	3	3	1121	3	PSG3	19	43243121	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	412711	43243121	15885862	1423	105228											
PSG3	5671	broad.mit.edu	37	chr19	43243165	43243165	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtagaagaacgtccttcccCttggaaactttggttggctc	9	12	10	10	1	0	2	0	0	0	2	3	3	2	3	3	3	2	3	3	3	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:43243165C>A	uc002oue.2	-	2	273	c.141G>T	c.(139-141)AAG>AAT	p.K47N	PSG3_uc002ouf.2_RNA|PSG1_uc002oug.1_Intron|PSG3_uc010eil.2_Missense_Mutation_p.K69N	NM_021016	NP_066296	Q16557	PSG3_HUMAN	pregnancy specific beta-1-glycoprotein 3	47	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00682)				CGTCCTTCCCCTTGGAAACTT	0.463													41	112					4.16155e-14	4.68174e-14	0.00874	1	0		A	43243165	A	A	43243165	3	1	212	1	0	0	0	0	1	0	0	0	12678	680	24	5	1165	5	PSG3	19	43243165	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	44	43243165	15885818	1424	105229											
RELB	5971	broad.mit.edu	37	chr19	45515423	45515423	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcacctggtcatcacggaGcagcccaagcagcgcggcat	9	4	12	16	4	2	0	2	0	0	0	2	1	2	1	3	3	4	4	3	3	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:45515423G>A	uc002paj.1	+	5	519	c.393G>A	c.(391-393)GAG>GAA	p.E131E		NM_006509	NP_006500	Q01201	RELB_HUMAN	reticuloendotheliosis viral oncogene homolog B	131	RHD.					nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1		Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00986)		TCATCACGGAGCAGCCCAAGC	0.751													8	14					0	0	0.006214	0	0		A	45515423	A	A	45515423	2	1	212	1	0	0	0	0	0	0	0	1	13242	962	34	2		2	RELB	19	45515423	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2272258	45515423	13613560	1425	105230											
MARK4	57787	broad.mit.edu	37	chr19	45805817	45805817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcctgcctgcacgggggtgCgggcgggcccgagcccctgt	2	5	19	15	4	0	0	0	0	0	0	0	1	0	0	5	5	4	1	5	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:45805817C>T	uc002pbb.1	+	17	2113	c.2108C>T	c.(2107-2109)GCG>GTG	p.A703V	MARK4_uc002pba.1_3'UTR			Q96L34	MARK4_HUMAN	RecName: Full=MAP/microtubule affinity-regulating kinase 4;          EC=2.7.11.1; AltName: Full=MAP/microtubule affinity-regulating kinase-like 1;	703	KA1.				microtubule bundle formation|nervous system development|positive regulation of programmed cell death	centrosome|neuron projection	ATP binding|gamma-tubulin binding|microtubule binding|protein serine/threonine kinase activity|tau-protein kinase activity|ubiquitin binding			central_nervous_system(2)|large_intestine(1)	3		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CACGGGGGTGCGGGCGGGCCC	0.746													7	1					0	0	0.008291	0	0		T	45805817	T	T	45805817	3	4	212	1	0	0	0	0	1	0	0	0	9333	783	27	1		1	MARK4	19	45805817	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	290394	45805817	13323166	1426	105231											
QPCTL	54814	broad.mit.edu	37	chr19	46206208	46206208	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acgcccttccctgctgtctgGcacacccctgcggacaccga	6	7	9	19	3	1	0	0	0	1	0	2	2	2	1	5	2	2	2	5	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:46206208G>A	uc010xxr.1	+	7	1271	c.1050G>A	c.(1048-1050)TGG>TGA	p.W350*	QPCTL_uc010ekn.2_Nonsense_Mutation_p.W256*	NM_017659	NP_060129	Q9NXS2	QPCTL_HUMAN	glutaminyl-peptide cyclotransferase-like isoform	350					peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase|proteolysis	Golgi membrane|integral to membrane	acyltransferase activity|glutaminyl-peptide cyclotransferase activity|peptidase activity|protein binding|zinc ion binding			skin(1)	1		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0059)|GBM - Glioblastoma multiforme(486;0.0882)|Epithelial(262;0.208)		CTGCTGTCTGGCACACCCCTG	0.602													35	53					0	0	0.006999	0	0		A	46206208	A	A	46206208	4	1	212	1	0	0	0	0	0	1	0	0	12900	1212	42	2	1076	2	QPCTL	19	46206208	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	400391	46206208	12922775	1427	105232											
HIF3A	64344	broad.mit.edu	37	chr19	46825200	46825200	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccagcaccccgctggccacaCggcacccccaaagtcctctt	8	5	7	21	2	1	0	0	0	1	0	2	0	2	0	7	2	1	3	7	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:46825200C>T	uc002peh.2	+	10	1341	c.1312C>T	c.(1312-1314)CGG>TGG	p.R438W	HIF3A_uc002peg.3_Missense_Mutation_p.R438W|HIF3A_uc010xxx.1_RNA|HIF3A_uc002pei.3_Missense_Mutation_p.R382W|HIF3A_uc002pej.1_Missense_Mutation_p.R369W|HIF3A_uc002pek.2_Missense_Mutation_p.R382W|HIF3A_uc010xxy.1_Missense_Mutation_p.R369W|HIF3A_uc002pel.2_Missense_Mutation_p.R436W|HIF3A_uc010xxz.1_Missense_Mutation_p.R387W	NM_152795	NP_690008	Q9Y2N7	HIF3A_HUMAN	hypoxia inducible factor 3, alpha subunit	438					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3		Ovarian(192;0.00965)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00204)|all cancers(93;0.0107)|GBM - Glioblastoma multiforme(486;0.0489)|Epithelial(262;0.136)		GCTGGCCACACGGCACCCCCA	0.637													16	28					0	0	0.006122	0	0		T	46825200	T	T	46825200	3	4	212	1	0	0	0	0	1	0	0	0	7121	527	19	1	1374	1	HIF3A	19	46825200	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	618992	46825200	12303783	1428	105233											
SLC8A2	6543	broad.mit.edu	37	chr19	47933560	47933560	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaaggccagcgtgccagtgCgcacctcgaaggggcggccc	8	3	16	14	4	0	1	0	0	0	1	1	2	0	1	4	4	3	1	4	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:47933560C>T	uc002pgx.2	-	10	2830	c.2552G>A	c.(2551-2553)CGC>CAC	p.R851H	SLC8A2_uc010xyq.1_Missense_Mutation_p.R607H|SLC8A2_uc010xyr.1_Missense_Mutation_p.R314H|SLC8A2_uc010ele.2_Silent_p.A877A	NM_015063	NP_055878	Q9UPR5	NAC2_HUMAN	solute carrier family 8 member 2 precursor	851	Cytoplasmic (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(1)	4		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)		CGTGCCAGTGCGCACCTCGAA	0.701													4	15					0	0	0.000602	0	0		T	47933560	T	T	47933560	3	4	212	1	0	0	0	0	1	0	0	0	14732	768	27	1	217	1	SLC8A2	19	47933560	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1108360	47933560	11195423	1429	105234											
FAM83E	54854	broad.mit.edu	37	chr19	49113248	49113248	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcagccccgcacgacacggaCatccacgttctgttggtgtg	7	8	12	14	4	1	0	0	0	1	0	2	2	2	1	3	2	1	4	3	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:49113248C>T	uc002pjn.2	-	3	708	c.643G>A	c.(643-645)GTC>ATC	p.V215I		NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	215										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		ACGACACGGACATCCACGTTC	0.637													5	13					0	0	0.001984	0	0		T	49113248	T	T	49113248	3	4	212	1	0	0	0	0	1	0	0	0	5651	478	17	4	805	4	FAM83E	19	49113248	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1179688	49113248	10015735	1430	105235											
BCAT2	587	broad.mit.edu	37	chr19	49303509	49303509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagccaggggcggaagaggcGcacctgctggtctttgcctt	6	8	16	11	2	1	1	0	0	1	1	1	3	1	2	3	5	3	2	3	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:49303509G>A	uc002pkr.2	-	4	383	c.346C>T	c.(346-348)CGC>TGC	p.R116C	BCAT2_uc002pkp.2_Missense_Mutation_p.R76C|BCAT2_uc002pkq.3_Missense_Mutation_p.R76C|BCAT2_uc002pks.2_Missense_Mutation_p.R76C|BCAT2_uc002pkt.2_Missense_Mutation_p.R24C|BCAT2_uc010emh.1_Missense_Mutation_p.R116C|BCAT2_uc010emi.1_Missense_Mutation_p.R24C|BCAT2_uc002pku.1_Missense_Mutation_p.R76C|BCAT2_uc010emj.1_RNA	NM_001190	NP_001181	O15382	BCAT2_HUMAN	branched chain aminotransferase 2, mitochondrial	116						mitochondrial matrix	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			ovary(1)	1		all_epithelial(76;7e-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;0.000138)|all cancers(93;0.000366)|Epithelial(262;0.0195)|GBM - Glioblastoma multiforme(486;0.0224)	L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|Pyridoxal Phosphate(DB00114)	CGGAAGAGGCGCACCTGCTGG	0.657													15	25					0	0	0.006122	0	0		A	49303509	A	A	49303509	3	1	212	1	0	0	0	0	1	0	0	0	1356	1087	38	1	864	1	BCAT2	19	49303509	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	190261	49303509	9825474	1431	105236											
PPFIA3	8541	broad.mit.edu	37	chr19	49651343	49651343	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccatggccccagatcCtggcatatggcgacatgaac	9	7	10	15	1	0	2	0	1	0	1	1	3	1	2	5	3	2	1	5	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:49651343C>T	uc002pmr.2	+	24	3171	c.2839C>T	c.(2839-2841)CTG>TTG	p.L947L	PPFIA3_uc010yai.1_RNA|PPFIA3_uc002pms.2_Silent_p.L806L|PPFIA3_uc002pmt.2_Silent_p.L86L|PPFIA3_uc002pmu.1_5'UTR	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	947						cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		GCCCCAGATCCTGGCATATGG	0.607													20	40					0	0	0.004656	0	0		T	49651343	T	T	49651343	2	4	212	1	0	0	0	0	0	0	0	1	12330	680	24	4		4	PPFIA3	19	49651343	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	347834	49651343	9477640	1432	105237											
HRC	3270	broad.mit.edu	37	chr19	49657832	49657832	+	Silent	SNP	A	G	G	1	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	gagacatcctcatcctcttcActcccatggcctcggtgcct	6	11	7	17	1	3	1	2	0	1	1	7	2	6	1	5	2	1	0	5	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:49657832A>G	uc002pmv.2	-	1	850	c.663T>C	c.(661-663)AGT>AGC	p.S221S		NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	221	4 X tandem repeats, acidic.|2-4.|6 X approximate tandem repeats.				muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		CATCCTCTTCACTCCCATGGC	0.368													8	13					0	0	0.006214	0	0		G	49657832	G	G	49657832	2	3	212	1	0	0	0	0	0	0	0	1	7368	156	6	3		3	HRC	19	49657832	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6489	49657832	9471151	1433	105238											
ALDH16A1	126133	broad.mit.edu	37	chr19	49973636	49973636	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcaggggctgcccgcgggCctgggaccaggaggccgagg	6	2	21	12	3	0	0	0	0	0	0	0	4	0	2	4	7	2	2	4	7	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:49973636C>T	uc002pnt.2	+	17	2437	c.2321C>T	c.(2320-2322)GCC>GTC	p.A774V	ALDH16A1_uc010yar.1_Missense_Mutation_p.A723V|ALDH16A1_uc010yas.1_Missense_Mutation_p.A609V|ALDH16A1_uc010yat.1_Missense_Mutation_p.A611V	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	774							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		TGCCCGCGGGCCTGGGACCAG	0.701													19	25					0	0	0.007413	0	0		T	49973636	T	T	49973636	3	4	212	1	0	0	0	0	1	0	0	0	488	739	26	2	2387	2	ALDH16A1	19	49973636	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	315804	49973636	9155347	1434	105239											
PRRG2	5639	broad.mit.edu	37	chr19	50086849	50086849	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcctgagtagccataccCggattccaagagccaaccac	11	7	8	15	1	0	2	0	1	0	1	2	3	2	3	6	1	4	2	6	1	4	4	rs141947949		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:50086849C>T	uc002pon.3	+	3	301	c.136C>T	c.(136-138)CGG>TGG	p.R46W	PRRG2_uc010yaz.1_Missense_Mutation_p.R23W	NM_000951	NP_000942	O14669	TMG2_HUMAN	proline rich Gla (G-carboxyglutamic acid) 2	46						extracellular region|integral to plasma membrane	calcium ion binding			skin(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.196)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0121)		TAGCCATACCCGGATTCCAAG	0.592													45	86					0	0	0.01441	0	0		T	50086849	T	T	50086849	3	4	212	1	0	0	0	0	1	0	0	0	12628	643	23	1	142	1	PRRG2	19	50086849	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	113213	50086849	9042134	1435	105240											
CPT1C	126129	broad.mit.edu	37	chr19	50209247	50209247	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgcatggggacccactcccGaaacagcctgctttccccga	8	6	9	18	3	0	0	0	0	0	0	2	3	2	1	6	2	3	2	6	2	1	1	rs151010811		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:50209247G>A	uc002ppj.2	+	10	1251	c.1046G>A	c.(1045-1047)CGA>CAA	p.R349Q	CPT1C_uc002ppl.3_Missense_Mutation_p.R315Q|CPT1C_uc002ppi.2_Missense_Mutation_p.R266Q|CPT1C_uc002ppk.2_Missense_Mutation_p.R338Q|CPT1C_uc010eng.2_Missense_Mutation_p.R349Q|CPT1C_uc010enh.2_Missense_Mutation_p.R349Q|CPT1C_uc010ybc.1_Missense_Mutation_p.R220Q|CPT1C_uc010eni.1_Missense_Mutation_p.R6Q	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	349	Cytoplasmic (Potential).				fatty acid metabolic process	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3		all_lung(116;1.05e-05)|Lung NSC(112;3.77e-05)|all_neural(266;0.107)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0011)|GBM - Glioblastoma multiforme(134;0.00786)		ACCCACTCCCGAAACAGCCTG	0.622													24	49					0	0	0.00333	0	0		A	50209247	A	A	50209247	3	1	212	1	0	0	0	0	1	0	0	0	3836	1058	37	1	1080	1	CPT1C	19	50209247	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	122398	50209247	8919736	1436	105241											
FAM71E1	112703	broad.mit.edu	37	chr19	50971041	50971041	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ttgacctcgagctgacaccgGcttttgtcgtggacaaagag	9	10	12	10	3	0	3	0	2	0	1	2	5	0	4	2	2	1	2	2	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:50971041G>A	uc002psh.2	-	4	943	c.585C>T	c.(583-585)AGC>AGT	p.S195S	FAM71E1_uc002psg.2_Silent_p.S179S|FAM71E1_uc002psi.2_RNA	NM_138411	NP_612420	Q6IPT2	F71E1_HUMAN	hypothetical protein LOC112703	195										breast(1)	1		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.0077)|GBM - Glioblastoma multiforme(134;0.026)		GCTGACACCGGCTTTTGTCGT	0.622													16	4					0	0	0.00499	0	0		A	50971041	A	A	50971041	2	1	212	1	0	0	0	0	0	0	0	1	5625	1194	42	2		2	FAM71E1	19	50971041	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	761794	50971041	8157942	1437	105242											
SHANK1	50944	broad.mit.edu	37	chr19	51170839	51170839	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggctccgtccccagctgcaGcaggaggggccccaccccgg	5	3	15	18	2	0	0	0	0	0	0	2	1	2	1	7	5	3	4	7	5	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:51170839G>A	uc002psx.1	-	22	4397	c.4378C>T	c.(4378-4380)CTG>TTG	p.L1460L	SHANK1_uc002psw.1_Silent_p.L844L	NM_016148	NP_057232	Q9Y566	SHAN1_HUMAN	SH3 and multiple ankyrin repeat domains 1	1460					cytoskeletal anchoring at plasma membrane	cell junction|cytoplasm|dendrite|membrane fraction|postsynaptic density|postsynaptic membrane	ionotropic glutamate receptor binding			large_intestine(2)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(134;0.0199)		CCCAGCTGCAGCAGGAGGGGC	0.771													4	6					0	0	0.009096	0	0		A	51170839	A	A	51170839	2	1	212	1	0	0	0	0	0	0	0	1	14289	962	34	2		2	SHANK1	19	51170839	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	199798	51170839	7958144	1438	105243											
KLK4	9622	broad.mit.edu	37	chr19	51411835	51411835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acacacacccgtgagctcacCgttcgccagcagaccccagc	10	4	8	19	3	1	2	1	1	0	1	2	2	1	2	5	0	3	3	5	0	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:51411835C>T	uc002pua.1	-	3	475	c.475G>A	c.(475-477)GGC>AGC	p.G159S	KLK4_uc002pty.1_Missense_Mutation_p.G110R|KLK4_uc002ptz.1_RNA|KLK4_uc002pub.1_Missense_Mutation_p.G64S|KLK4_uc002puc.1_RNA|KLK4_uc010eoi.1_Missense_Mutation_p.G64S|KLK4_uc002pud.1_Missense_Mutation_p.G64S	NM_004917	NP_004908	Q9Y5K2	KLK4_HUMAN	kallikrein-related peptidase 4 preproprotein	159	Peptidase S1.				proteolysis	extracellular region	metal ion binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00624)|GBM - Glioblastoma multiforme(134;0.00878)		GTGAGCTCACCGTTCGCCAGC	0.637													47	12					0	0	0.01441	0	0		T	51411835	T	T	51411835	3	4	212	1	0	0	0	0	1	0	0	0	8422	666	23	1	301	1	KLK4	19	51411835	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	240996	51411835	7717148	1439	105244											
SIGLEC8	27181	broad.mit.edu	37	chr19	51957485	51957485	+	Silent	SNP	G	T	T	0	0	1	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	tcactcacctgagaggccgaGcccctgatggcctttgcatc	7	9	10	15	1	2	2	2	2	0	1	3	4	2	2	5	2	2	1	5	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:51957485G>T	uc002pwt.2	-	6	1300	c.1233C>A	c.(1231-1233)GGC>GGA	p.G411G	SIGLEC8_uc010yda.1_Silent_p.G302G|SIGLEC8_uc002pwu.2_RNA|SIGLEC8_uc010eox.2_Silent_p.G318G	NM_014442	NP_055257	Q9NYZ4	SIGL8_HUMAN	sialic acid binding Ig-like lectin 8 precursor	411	Cytoplasmic (Potential).				cell adhesion	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|kidney(1)|central_nervous_system(1)|skin(1)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000627)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		GAGAGGCCGAGCCCCTGATGG	0.602													31	57					7.11191e-15	8.03536e-15	0.013726	1	0		T	51957485	T	T	51957485	2	4	212	1	0	0	0	0	0	0	0	1	14339	958	34	5		5	SIGLEC8	19	51957485	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	545650	51957485	7171498	1440	105245											
ZNF836	162962	broad.mit.edu	37	chr19	52663747	52663747	+	Missense_Mutation	SNP	A	G	G	1	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	ccaggttcctgtagttctccAacatcacatcccagtacaaa	12	10	5	14	0	2	0	1	0	1	0	5	0	4	0	4	1	2	4	4	1	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:52663747A>G	uc010ydi.1	-	4	487	c.113T>C	c.(112-114)TTG>TCG	p.L38S	ZNF836_uc010ydj.1_Missense_Mutation_p.L38S	NM_001102657	NP_001096127	Q6ZNA1	ZN836_HUMAN	zinc finger protein 836	38	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTAGTTCTCCAACATCACATC	0.443													22	68					0	0	0.00333	0	0		G	52663747	G	G	52663747	3	3	212	1	0	0	0	0	1	0	0	0	18212	131	5	3	2703	3	ZNF836	19	52663747	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	706262	52663747	6465236	1441	105246											
ZNF347	84671	broad.mit.edu	37	chr19	53644716	53644716	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cattcatgacatttgtaaggCttttctccggtgtgaattac	9	16	8	8	1	2	2	1	2	1	0	3	2	2	2	1	2	1	2	1	2	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:53644716C>A	uc002qbb.1	-	5	1434	c.1365G>T	c.(1363-1365)AAG>AAT	p.K455N	ZNF347_uc010eql.1_Missense_Mutation_p.K456N|ZNF347_uc002qbc.1_Missense_Mutation_p.K456N	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	455					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		ATTTGTAAGGCTTTTCTCCGG	0.428													38	65					1.30998e-17	1.50133e-17	0.005524	1	0		A	53644716	A	A	53644716	3	1	212	1	0	0	0	0	1	0	0	0	17886	796	28	5	1158	5	ZNF347	19	53644716	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	980969	53644716	5484267	1442	105247											
ZNF677	342926	broad.mit.edu	37	chr19	53754801	53754801	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttttacctgagaaagagcCattccctcctcttctttctt	8	16	4	13	0	3	2	0	1	3	2	5	3	5	2	4	0	2	0	4	0	2	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:53754801C>A	uc002qbf.1	-	3	188	c.3G>T	c.(1-3)ATG>ATT	p.M1I	ZNF677_uc002qbg.1_Missense_Mutation_p.M1I|ZNF677_uc002qbh.2_RNA	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	1					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		GAGAAAGAGCCATTCCCTCCT	0.363													14	26					1.5842e-08	1.69894e-08	0.001855	1	0		A	53754801	A	A	53754801	3	1	212	1	0	0	0	0	1	0	0	0	18109	594	21	5	1763	5	ZNF677	19	53754801	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	110085	53754801	5374182	1443	105248											
LENG8	114823	broad.mit.edu	37	chr19	54967828	54967828	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttcctaggcacgatctggcgCccaccaagcgcagtcgaaag	10	6	11	14	4	1	0	0	0	1	0	3	2	2	0	3	2	1	2	3	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:54967828C>A	uc002qfv.1	+	10	1492	c.1348C>A	c.(1348-1350)CCC>ACC	p.P450T	LENG8_uc002qfw.2_Missense_Mutation_p.P487T			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	450							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		CGATCTGGCGCCCACCAAGCG	0.657													3	5					6.4e-05	6.65138e-05	0.004672	1	0		A	54967828	A	A	54967828	3	1	212	1	0	0	0	0	1	0	0	0	8740	739	26	5	1497	5	LENG8	19	54967828	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1213027	54967828	4161155	1444	105249											
RDH13	112724	broad.mit.edu	37	chr19	55556513	55556513	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gcgggcactttcagcccaaaGcctccgggccacctcctcat	7	7	9	18	2	2	0	2	0	0	0	4	0	4	0	6	2	2	1	6	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:55556513G>T	uc002qio.3	-	7	1110	c.925C>A	c.(925-927)CTT>ATT	p.L309I	RDH13_uc002qip.2_Missense_Mutation_p.L238I|RDH13_uc010esr.1_RNA	NM_001145971	NP_001139443	Q8NBN7	RDH13_HUMAN	retinol dehydrogenase 13 isoform 1	309							binding|oxidoreductase activity			large_intestine(1)|ovary(1)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(297;0.199)	GBM - Glioblastoma multiforme(193;0.0504)	Vitamin A(DB00162)	TCAGCCCAAAGCCTCCGGGCC	0.617													24	30					1.96895e-08	2.10909e-08	0.00278	1	0		T	55556513	T	T	55556513	3	4	212	1	0	0	0	0	1	0	0	0	13217	971	34	5	74	5	RDH13	19	55556513	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	588685	55556513	3572470	1445	105250											
NLRP5	126206	broad.mit.edu	37	chr19	56565026	56565026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtaaagtgtcatctcaccGccgcgtgctgtgagagtctg	7	11	13	10	3	3	1	2	1	2	1	4	2	3	1	2	1	1	2	2	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:56565026G>A	uc002qmj.2	+	13	3151	c.3151G>A	c.(3151-3153)GCC>ACC	p.A1051T	NLRP5_uc002qmi.2_Missense_Mutation_p.A1032T	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1051	LRR 11.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TCATCTCACCGCCGCGTGCTG	0.567													5	20					0	0	0.001984	0	0		A	56565026	A	A	56565026	3	1	212	1	0	0	0	0	1	0	0	0	10499	1087	38	1	3201	1	NLRP5	19	56565026	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1008513	56565026	2563957	1446	105251											
ZNF549	256051	broad.mit.edu	37	chr19	58050284	58050284	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	accagaaggtacatataacaGaagagccctagcaattgttg	16	8	9	8	0	0	3	0	0	0	3	0	3	0	3	2	1	4	3	2	1	7	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:58050284G>C	uc002qpb.1	+	4	2161	c.1912G>C	c.(1912-1914)GAA>CAA	p.E638Q	ZNF547_uc002qpm.3_Intron|ZNF549_uc010eud.1_Intron|ZNF549_uc002qpa.1_Missense_Mutation_p.E625Q	NM_153263	NP_694995	Q6P9A3	ZN549_HUMAN	zinc finger protein 549	638					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACATATAACAGAAGAGCCCTA	0.438													30	55					0	0	0.003271	0	0		C	58050284	C	C	58050284	3	2	212	1	0	0	0	0	1	0	0	0	18006	943	33	5	1883	5	ZNF549	19	58050284	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1485258	58050284	1078699	1447	105252											
ZNF814	730051	broad.mit.edu	37	chr19	58385325	58385325	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ctcgctgatggtgaacaaggCtgcgcttatgactgaaagat	11	10	12	8	2	0	5	0	4	0	1	1	5	0	5	0	2	2	3	0	2	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:58385325C>A	uc002qqo.2	-	3	1705	c.1433G>T	c.(1432-1434)AGC>ATC	p.S478I	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	478	C2H2-type 10.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						GTGAACAAGGCTGCGCTTATG	0.458													9	26					5.4927e-09	5.92515e-09	0.004482	1	0		A	58385325	A	A	58385325	3	1	212	1	0	0	0	0	1	0	0	0	18201	797	28	5	1138	5	ZNF814	19	58385325	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	335041	58385325	743658	1448	105253											
ZBTB45	84878	broad.mit.edu	37	chr19	59027824	59027824	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgaacgtcttgcgacagtggCtgcactcatacgtaggtggc	8	10	13	10	3	2	1	1	1	1	0	2	2	2	1	0	3	4	3	0	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr19:59027824C>A	uc002qtd.2	-	2	1509	c.1217G>T	c.(1216-1218)AGC>ATC	p.S406I	ZBTB45_uc002qte.2_Missense_Mutation_p.S406I|ZBTB45_uc002qtf.2_Missense_Mutation_p.S406I	NM_032792	NP_116181	Q96K62	ZBT45_HUMAN	zinc finger and BTB domain containing 45	406	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		GCGACAGTGGCTGCACTCATA	0.642													13	26					3.52763e-06	3.71372e-06	0.00499	1	0		A	59027824	A	A	59027824	3	1	212	1	0	0	0	0	1	0	0	0	17571	797	28	5	326	5	ZBTB45	19	59027824	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	642499	59027824	101159	1449	105254											
CSNK2A1	1457	broad.mit.edu	37	chr20	489170	489170	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	taacatctgtgtaaactctgGccctgcttggcacgggtccc	7	11	10	13	1	2	0	0	0	2	0	3	0	3	0	2	3	3	3	2	3	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:489170G>T	uc002wdw.1	-	3	419	c.26C>A	c.(25-27)GCC>GAC	p.A9D	CSNK2A1_uc002wdx.1_Missense_Mutation_p.A9D|CSNK2A1_uc002wdy.1_Intron	NM_177559	NP_808227	P68400	CSK21_HUMAN	casein kinase II alpha 1 subunit isoform a	9					axon guidance|Wnt receptor signaling pathway	cytosol|NuRD complex|plasma membrane|Sin3 complex	ATP binding|protein N-terminus binding|protein serine/threonine kinase activity			ovary(1)	1		Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.0969)			GTAAACTCTGGCCCTGCTTGG	0.488													7	72					0.00198382	0.00202687	0.001984	1	0		T	489170	T	T	489170	3	4	212	1	0	0	0	0	1	0	0	0	3960	1203	42	5	1197	5	CSNK2A1	20	489170	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		489170	62536350	1450	105255											
ZNF343	79175	broad.mit.edu	37	chr20	2464233	2464233	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	taaggcttctctccagagtgCgtccgctcgtgtatgatgag	7	12	12	10	3	1	3	0	2	1	1	5	3	3	3	2	1	1	3	2	1	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:2464233C>T	uc002wge.1	-	6	1862	c.1374G>A	c.(1372-1374)ACG>ACA	p.T458T	ZNF343_uc010gao.1_Silent_p.T458T|ZNF343_uc002wgd.1_Silent_p.T368T	NM_024325	NP_077301	Q6P1L6	ZN343_HUMAN	zinc finger protein 343	458	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						CTCCAGAGTGCGTCCGCTCGT	0.532													5	62					0	0	0.000602	0	0		T	2464233	T	T	2464233	2	4	212	1	0	0	0	0	0	0	0	1	17883	755	27	1		1	ZNF343	20	2464233	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1975063	2464233	60561287	1451	105256											
TMC2	117532	broad.mit.edu	37	chr20	2593877	2593877	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgtctgacatgctggtaaCgtacatcaccatcctgctgg	8	11	11	11	1	2	1	1	1	1	0	3	1	3	1	2	3	4	4	2	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:2593877C>T	uc002wgf.1	+	14	1796	c.1781C>T	c.(1780-1782)ACG>ATG	p.T594M	TMC2_uc002wgg.1_Missense_Mutation_p.T578M|TMC2_uc010zpw.1_Missense_Mutation_p.T426M|TMC2_uc010zpx.1_Missense_Mutation_p.T425M	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	594	Cytoplasmic (Potential).					integral to membrane				ovary(3)	3						ATGCTGGTAACGTACATCACC	0.557													8	42					0	0	0.00308	0	0		T	2593877	T	T	2593877	3	4	212	1	0	0	0	0	1	0	0	0	16010	536	19	1	1835	1	TMC2	20	2593877	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	129644	2593877	60431643	1452	105257											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3145314	3145314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccttctcctccagccacacgCggcgctcctcggcgaagctg	5	7	10	19	5	1	0	0	0	1	0	5	1	3	0	5	2	2	2	5	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:3145314C>T	uc002wia.1	-	3	3206	c.1808G>A	c.(1807-1809)CGC>CAC	p.R603H	ProSAPiP1_uc002wib.1_Missense_Mutation_p.R557H	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	603	Potential.					cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						CAGCCACACGCGGCGCTCCTC	0.711													7	26					0	0	0.00308	0	0		T	3145314	T	T	3145314	3	4	212	1	0	0	0	0	1	0	0	0	12895	768	27	1	217	1	ProSAPiP1	20	3145314	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	551437	3145314	59880206	1453	105258											
RNF24	11237	broad.mit.edu	37	chr20	3944542	3944542	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaatcaagtagcaacagaaGagtaaactaaggatgaagac	20	6	9	6	0	1	4	1	1	0	3	1	5	1	5	0	1	3	3	0	1	9	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:3944542G>T	uc002wkh.2	-	2	393	c.123C>A	c.(121-123)CTC>CTA	p.L41L	RNF24_uc002wki.2_Silent_p.L62L|RNF24_uc002wkj.2_Silent_p.L41L	NM_007219	NP_009150	Q9Y225	RNF24_HUMAN	ring finger protein 24 isoform 1	41	Helical; (Potential).					Golgi membrane|integral to membrane	zinc ion binding				0						AGCAACAGAAGAGTAAACTAA	0.303													8	60					2.17888e-05	2.27555e-05	0.006214	1	0		T	3944542	T	T	3944542	2	4	212	1	0	0	0	0	0	0	0	1	13509	929	33	5		5	RNF24	20	3944542	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	799228	3944542	59080978	1454	105259											
PRND	23627	broad.mit.edu	37	chr20	4705463	4705463	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctggcagttccccgatggcaTccactacaacggctgctctg	7	9	10	15	2	1	0	0	0	1	0	3	1	3	0	3	3	3	5	3	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:4705463T>A	uc002wkz.2	+	2	337	c.266T>A	c.(265-267)ATC>AAC	p.I89N		NM_012409	NP_036541	Q9UKY0	PRND_HUMAN	prion-like protein doppel preproprotein	89	Globular.				protein homooligomerization	anchored to membrane|plasma membrane					0						CCCGATGGCATCCACTACAAC	0.592													9	55					0	0	0.006214	0	0		A	4705463	A	A	4705463	3	1	212	1	0	0	0	0	1	0	0	0	12565	1435	50	5	268	5	PRND	20	4705463	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	760921	4705463	58320057	1455	105260											
MCM8	84515	broad.mit.edu	37	chr20	5966634	5966634	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtacattggctatgctCggcagtatgtgtacccaagg	11	10	12	8	1	0	0	0	0	0	0	1	1	0	0	1	3	3	6	1	3	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:5966634C>A	uc002wmi.2	+	16	2397	c.2020C>A	c.(2020-2022)CGG>AGG	p.R674R	MCM8_uc002wmj.2_Silent_p.R658R|MCM8_uc002wmk.2_Silent_p.R714R|MCM8_uc002wml.2_Silent_p.R674R|MCM8_uc010gbp.2_Silent_p.R627R|MCM8_uc002wmm.2_Silent_p.R212R	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8	674					cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						TGGCTATGCTCGGCAGTATGT	0.463													17	106					1.01871e-10	1.11397e-10	0.008871	1	0		A	5966634	A	A	5966634	2	1	212	1	0	0	0	0	0	0	0	1	9411	875	31	5		5	MCM8	20	5966634	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1261171	5966634	57058886	1456	105261											
LRRN4	164312	broad.mit.edu	37	chr20	6022874	6022874	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctggatcccgcagctggcgcGcacatagtgtctgctgccct	5	9	12	15	3	1	0	0	0	1	0	2	1	2	1	2	2	3	4	2	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:6022874G>A	uc002wmo.2	-	5	1241	c.1017C>T	c.(1015-1017)TGC>TGT	p.C339C		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	339	Extracellular (Potential).					integral to membrane				skin(3)	3						CAGCTGGCGCGCACATAGTGT	0.622													10	58					0	0	0.008291	0	0		A	6022874	A	A	6022874	2	1	212	1	0	0	0	0	0	0	0	1	9055	1079	38	1		1	LRRN4	20	6022874	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	56240	6022874	57002646	1457	105262											
LRRN4	164312	broad.mit.edu	37	chr20	6031513	6031513	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggagtcctgacagtccaGctgctgcaggttgggggtca	6	9	17	9	0	1	1	1	1	0	0	3	2	3	2	2	5	3	4	2	5	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:6031513G>A	uc002wmo.2	-	3	996	c.772C>T	c.(772-774)CTG>TTG	p.L258L	LRRN4_uc002wmp.2_Silent_p.L258L	NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	258	Extracellular (Potential).|LRR 9.					integral to membrane				skin(3)	3						TGACAGTCCAGCTGCTGCAGG	0.542													60	74					0	0	0.01441	0	0		A	6031513	A	A	6031513	2	1	212	1	0	0	0	0	0	0	0	1	9055	962	34	2		2	LRRN4	20	6031513	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	8639	6031513	56994007	1458	105263											
FERMT1	55612	broad.mit.edu	37	chr20	6096554	6096554	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attcggcagacgaaggcgcaGcattttatgctgaggggtga	10	9	15	7	3	0	3	0	2	0	1	1	4	0	3	0	4	2	4	0	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:6096554G>A	uc002wmr.2	-	3	1078	c.289C>T	c.(289-291)CTG>TTG	p.L97L	FERMT1_uc010gbt.2_5'UTR|FERMT1_uc002wms.2_Silent_p.L97L	NM_017671	NP_060141	Q9BQL6	FERM1_HUMAN	kindlin-1	97	FERM.				cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			ovary(1)|pancreas(1)|skin(1)	3						CGAAGGCGCAGCATTTTATGC	0.483													34	114					0	0	0.005524	0	0		A	6096554	A	A	6096554	2	1	212	1	0	0	0	0	0	0	0	1	5831	962	34	2		2	FERMT1	20	6096554	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	65041	6096554	56928966	1459	105264											
PLCB1	23236	broad.mit.edu	37	chr20	8678275	8678275	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgttggtgttttatagctGgccaactggctggaaactcc	7	15	11	8	0	0	0	0	0	0	0	1	1	1	1	2	4	3	4	2	4	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:8678275G>A	uc002wnb.2	+	11	1015	c.1012G>A	c.(1012-1014)GGC>AGC	p.G338S	PLCB1_uc010zrb.1_Missense_Mutation_p.G237S|PLCB1_uc002wna.2_Missense_Mutation_p.G338S|PLCB1_uc002wnc.1_Missense_Mutation_p.G237S	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	338	PI-PLC X-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						TTTTATAGCTGGCCAACTGGC	0.498													34	148					0	0	0.013726	0	0		A	8678275	A	A	8678275	3	1	212	1	0	0	0	0	1	0	0	0	12046	1348	47	4	1054	4	PLCB1	20	8678275	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2581721	8678275	54347245	1460	105265											
PLCB1	23236	broad.mit.edu	37	chr20	8696934	8696934	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaagcagcaagccaagatggCggagtactgccgactgatct	13	6	12	10	2	1	2	0	1	1	1	1	4	1	3	2	2	5	3	2	2	4	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:8696934C>T	uc002wnb.2	+	13	1277	c.1274C>T	c.(1273-1275)GCG>GTG	p.A425V	PLCB1_uc010zrb.1_Missense_Mutation_p.A324V|PLCB1_uc002wna.2_Missense_Mutation_p.A425V|PLCB1_uc002wnc.1_Missense_Mutation_p.A324V|PLCB1_uc002wnd.1_Missense_Mutation_p.A2V	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	425	PI-PLC X-box.				activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of monocyte extravasation|negative regulation of transcription, DNA-dependent|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|positive regulation of transcription, DNA-dependent|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity			ovary(4)|breast(3)|upper_aerodigestive_tract(2)|skin(2)|lung(1)	12						GCCAAGATGGCGGAGTACTGC	0.468													15	48					0	0	0.007413	0	0		T	8696934	T	T	8696934	3	4	212	1	0	0	0	0	1	0	0	0	12046	768	27	1	1324	1	PLCB1	20	8696934	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	18659	8696934	54328586	1461	105266											
PLCB4	5332	broad.mit.edu	37	chr20	9368189	9368189	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggaaaagcaatgtgtacaGatatcctttttaaggtaact	15	13	8	5	0	0	1	0	0	0	1	1	2	1	2	1	2	3	3	1	2	7	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:9368189G>T	uc002wnf.2	+	14	1280	c.1144G>T	c.(1144-1146)GAT>TAT	p.D382Y	PLCB4_uc010gbw.1_Missense_Mutation_p.D382Y|PLCB4_uc010gbx.2_Missense_Mutation_p.D382Y|PLCB4_uc002wne.2_Missense_Mutation_p.D382Y|PLCB4_uc002wnh.2_Missense_Mutation_p.D229Y	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	382	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						AATGTGTACAGATATCCTTTT	0.348													9	47					1.76689e-08	1.89376e-08	0.006214	1	0		T	9368189	T	T	9368189	3	4	212	1	0	0	0	0	1	0	0	0	12049	942	33	5	1190	5	PLCB4	20	9368189	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	671255	9368189	53657331	1462	105267											
RBBP9	10741	broad.mit.edu	37	chr20	18470617	18470617	+	Missense_Mutation	SNP	A	G	G	1	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	cttgatcttctcccactgccAggggcgggtgaagtatccta	7	11	11	12	1	2	2	0	2	2	0	4	2	3	2	3	3	1	1	3	3	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:18470617A>G	uc002wqy.2	-	5	428	c.352T>C	c.(352-354)TGG>CGG	p.W118R		NM_006606	NP_006597	O75884	RBBP9_HUMAN	retinoblastoma binding protein 9	118						cytoplasm|nucleus	hydrolase activity			haematopoietic_and_lymphoid_tissue(1)	1						TCCCACTGCCAGGGGCGGGTG	0.483													4	48					0	0	0.009096	0	0		G	18470617	G	G	18470617	3	3	212	1	0	0	0	0	1	0	0	0	13131	188	7	3	212	3	RBBP9	20	18470617	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	9102428	18470617	44554903	1463	105268											
SLC24A3	57419	broad.mit.edu	37	chr20	19496186	19496186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgaggatagaagacaaggtgCggtggtcctccatgtgctct	9	9	14	9	2	1	2	0	0	1	2	3	4	3	3	2	4	2	1	2	4	3	1	rs144636987		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:19496186C>T	uc002wrl.2	+	3	523	c.326C>T	c.(325-327)GCG>GTG	p.A109V		NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24	109	Helical; (Potential).					integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						AGACAAGGTGCGGTGGTCCTC	0.542													25	125					0	0	0.009535	0	0		T	19496186	T	T	19496186	3	4	212	1	0	0	0	0	1	0	0	0	14492	768	27	1	336	1	SLC24A3	20	19496186	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1025569	19496186	43529334	1464	105269											
C20orf26	26074	broad.mit.edu	37	chr20	20243636	20243636	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgatattagtcaacacCtgacaaacagggaggttccc	13	8	10	10	0	1	2	1	2	0	0	2	3	2	3	2	3	2	2	2	3	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:20243636C>A	uc002wru.2	+	21	2441	c.2365C>A	c.(2365-2367)CTG>ATG	p.L789M	C20orf26_uc010zse.1_Missense_Mutation_p.L769M|C20orf26_uc002wrw.2_RNA|C20orf26_uc002wrv.2_Missense_Mutation_p.L145M	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	789										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		TAGTCAACACCTGACAAACAG	0.458													17	81					1.01871e-10	1.11397e-10	0.008871	1	0		A	20243636	A	A	20243636	3	1	212	1	0	0	0	0	1	0	0	0	2109	680	24	5	2475	5	C20orf26	20	20243636	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	747450	20243636	42781884	1465	105270											
NKX2-4	644524	broad.mit.edu	37	chr20	21377059	21377059	+	Silent	SNP	T	C	C	0	1	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	cgcttccttcgcggagcggcTgccgccgccgccgcgtgcag	2	6	15	18	9	0	0	0	0	0	0	2	1	1	1	5	2	3	3	5	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:21377059T>C	uc010gcz.2	-	2	565	c.555A>G	c.(553-555)GCA>GCG	p.A185A		NM_033176	NP_149416	Q9H2Z4	NKX24_HUMAN	NK2 homeobox 4	185	Poly-Ala.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GCGGAGCGGCTGCCGCCGCCG	0.736													3	9					0	0	0.004672	0	0		C	21377059	C	C	21377059	2	2	212	1	0	0	0	0	0	0	0	1	10471	1567	55	3		3	NKX2-4	20	21377059	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1133423	21377059	41648461	1466	105271											
NKX2-4	644524	broad.mit.edu	37	chr20	21377937	21377937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcccccaggccgggtggcGcgccgtccatggcgccgctg	2	4	17	18	7	0	0	0	0	0	0	1	0	1	0	6	4	0	1	6	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:21377937G>A	uc010gcz.2	-	1	111	c.101C>T	c.(100-102)GCG>GTG	p.A34V		NM_033176	NP_149416	Q9H2Z4	NKX24_HUMAN	NK2 homeobox 4	34					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						gccgggtggcgcgccgTCCAT	0.512													4	11					0	0	0.009096	0	0		A	21377937	A	A	21377937	3	1	212	1	0	0	0	0	1	0	0	0	10471	1087	38	1	971	1	NKX2-4	20	21377937	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	878	21377937	41647583	1467	105272											
THBD	7056	broad.mit.edu	37	chr20	23028480	23028480	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acctccttggaaggggccgcGcacttgtactccatcttggc	6	10	11	14	2	1	0	0	0	1	0	3	1	3	1	4	4	1	2	4	4	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:23028480G>A	uc002wss.2	-	1	1822	c.1662C>T	c.(1660-1662)TGC>TGT	p.C554C	THBD_uc002wst.1_RNA	NM_000361	NP_000352	P07204	TRBM_HUMAN	thrombomodulin precursor	554	Cytoplasmic (Potential).				blood coagulation|leukocyte migration|negative regulation of fibrinolysis|negative regulation of platelet activation	cell surface|integral to plasma membrane	calcium ion binding|protein binding|transmembrane receptor activity				0	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)				Drotrecogin alfa(DB00055)	AAGGGGCCGCGCACTTGTACT	0.682													3	9					0	0	0.009096	0	0		A	23028480	A	A	23028480	2	1	212	1	0	0	0	0	0	0	0	1	15877	1079	38	1		1	THBD	20	23028480	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1650543	23028480	39997040	1468	105273											
CD93	22918	broad.mit.edu	37	chr20	23065616	23065616	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cacaggagcagtgaaatgagCcatctgtgttggtgcagccc	10	8	13	10	0	1	2	0	2	1	0	1	3	1	3	2	2	4	3	2	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:23065616C>T	uc002wsv.2	-	1	1362	c.1214G>A	c.(1213-1215)GGC>GAC	p.G405D		NM_012072	NP_036204	Q9NPY3	C1QR1_HUMAN	CD93 antigen precursor	405	Extracellular (Potential).|EGF-like 4; calcium-binding (Potential).				cell-cell adhesion|interspecies interaction between organisms|macrophage activation|phagocytosis	plasma membrane	calcium ion binding|complement component C1q binding|receptor activity|sugar binding			large_intestine(2)	2	Colorectal(13;0.0352)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GTGAAATGAGCCATCTGTGTT	0.672													15	73					0	0	0.00245	0	0		T	23065616	T	T	23065616	3	4	212	1	0	0	0	0	1	0	0	0	3050	739	26	2	752	2	CD93	20	23065616	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	37136	23065616	39959904	1469	105274											
PYGB	5834	broad.mit.edu	37	chr20	25277134	25277134	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccgacctgcagatcccGccccccaacatcccccggga	7	4	7	23	3	0	1	0	0	0	1	3	3	3	2	9	1	2	1	9	1	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:25277134G>A	uc002wup.2	+	20	2617	c.2508G>A	c.(2506-2508)CCG>CCA	p.P836P	ABHD12_uc002wuq.2_Intron|ABHD12_uc002wur.2_Intron	NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	836				IPPPNIPRD -> LQHLPHPEWESGGATCWAPPELCTHLAM Y (in Ref. 1; AAA59597).	glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TGCAGATCCCGCCCCCCAACA	0.602													11	71					0	0	0.013537	0	0		A	25277134	A	A	25277134	2	1	212	1	0	0	0	0	0	0	0	1	12885	1074	38	1		1	PYGB	20	25277134	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2211518	25277134	37748386	1470	105275											
BPIL3	128859	broad.mit.edu	37	chr20	31622664	31622664	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaggcctccccgtgttcaAgagtgagggctgtgaggtca	8	8	15	10	1	2	3	2	2	0	1	3	4	3	3	3	3	0	2	3	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:31622664A>C	uc010zuc.1	+	4	398	c.398A>C	c.(397-399)AAG>ACG	p.K133T	BPIL3_uc010zud.1_Missense_Mutation_p.K72T	NM_174897	NP_777557	Q8NFQ5	BPIL3_HUMAN	bactericidal/permeability-increasing	133						extracellular region	lipid binding			ovary(1)|pancreas(1)	2						CCCGTGTTCAAGAGTGAGGGC	0.572													10	52					0	0	0.006214	0	0		C	31622664	C	C	31622664	3	2	212	1	0	0	0	0	1	0	0	0	1496	72	3	5	412	5	BPIL3	20	31622664	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6345530	31622664	31402856	1471	105276											
C20orf186	149954	broad.mit.edu	37	chr20	31671497	31671497	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acctggagttgccactggggCggtgggcccaggtggtttgc	4	9	18	10	1	0	0	0	0	0	0	0	1	0	1	3	7	2	2	3	7	0	2	rs143050216	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:31671497C>T	uc010zue.1	+	3	509	c.494C>T	c.(493-495)GCG>GTG	p.A165V		NM_182519	NP_872325	P59827	LPLC4_HUMAN	antimicrobial peptide RY2G5 precursor	165	Gly-rich.					cytoplasm|extracellular region	lipid binding				0						GCCACTGGGGCGGTGGGCCCA	0.677													10	61					0	0	0.006214	0	0		T	31671497	T	T	31671497	3	4	212	1	0	0	0	0	1	0	0	0	2101	768	27	1	504	1	C20orf186	20	31671497	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	48833	31671497	31354023	1472	105277											
E2F1	1869	broad.mit.edu	37	chr20	32266038	32266038	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtgtcctcggagagcaggcGcagctgcgtagtacagatat	10	8	14	9	3	0	2	0	0	0	2	2	3	1	2	1	2	4	5	1	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:32266038G>A	uc002wzu.3	-	4	834	c.694C>T	c.(694-696)CGC>TGC	p.R232C		NM_005225	NP_005216	Q01094	E2F1_HUMAN	E2F transcription factor 1	232	Dimerization (Potential).|Required for interaction with TRIM28.				apoptosis|cell proliferation|G1 phase of mitotic cell cycle|G2 phase of mitotic cell cycle|mRNA stabilization|negative regulation of transcription involved in G1/S phase of mitotic cell cycle|positive regulation of fibroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle	mitochondrion|Rb-E2F complex	sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription factor binding				0						GAGAGCAGGCGCAGCTGCGTA	0.597													5	45					0	0	0.001168	0	0		A	32266038	A	A	32266038	3	1	212	1	0	0	0	0	1	0	0	0	4872	1087	38	1	635	1	E2F1	20	32266038	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	594541	32266038	30759482	1473	105278											
PXMP4	11264	broad.mit.edu	37	chr20	32298462	32298462	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgccttgtatgtaggactGcagggcacggagacccttgt	7	11	13	10	1	0	1	0	0	0	1	0	3	0	2	2	3	2	4	2	3	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:32298462G>A	uc002wzv.2	-	3	397	c.274C>T	c.(274-276)CAG>TAG	p.Q92*	PXMP4_uc002wzw.2_Intron|PXMP4_uc010zuh.1_Silent_p.C98C	NM_007238	NP_009169	Q9Y6I8	PXMP4_HUMAN	peroxisomal membrane protein 4 isoform a	92						integral to membrane|membrane fraction|mitochondrial inner membrane|peroxisomal membrane	protein transporter activity				0						ATGTAGGACTGCAGGGCACGG	0.552													20	72					0	0	0.012319	0	0		A	32298462	A	A	32298462	4	1	212	1	0	0	0	0	0	1	0	0	12876	1328	46	2	372	2	PXMP4	20	32298462	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	32424	32298462	30727058	1474	105279											
MMP24	10893	broad.mit.edu	37	chr20	33851679	33851679	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccagcgccatcatggcGcccttctaccagtacatgga	9	7	9	16	2	2	0	1	0	1	0	2	2	2	1	5	2	3	1	5	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:33851679G>A	uc002xbu.2	+	5	906	c.903G>A	c.(901-903)GCG>GCA	p.A301A	EDEM2_uc010zuv.1_Intron	NM_006690	NP_006681	Q9Y5R2	MMP24_HUMAN	matrix metalloproteinase 24 preproprotein	301	Extracellular (Potential).				proteolysis	integral to plasma membrane|proteinaceous extracellular matrix	calcium ion binding|enzyme activator activity|metalloendopeptidase activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(18;0.00252)			CCATCATGGCGCCCTTCTACC	0.622													4	33					0	0	0.009096	0	0		A	33851679	A	A	33851679	2	1	212	1	0	0	0	0	0	0	0	1	9679	1074	38	1		1	MMP24	20	33851679	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1553217	33851679	29173841	1475	105280											
CEP250	11190	broad.mit.edu	37	chr20	34099444	34099444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccccagcactacccaagccGcctccaggtagcagccacag	10	3	9	19	1	0	0	0	0	0	0	1	0	1	0	7	1	5	3	7	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:34099444G>A	uc002xcm.2	+	36	7989	c.7318G>A	c.(7318-7320)GCC>ACC	p.A2440T	CEP250_uc010zve.1_Missense_Mutation_p.A1808T	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	centrosomal protein 2	2440					centriole-centriole cohesion|G2/M transition of mitotic cell cycle|protein localization|regulation of centriole-centriole cohesion	centriole|cilium|cytosol|microtubule basal body|perinuclear region of cytoplasm|protein complex	protein C-terminus binding|protein kinase binding			ovary(4)|central_nervous_system(1)	5	Lung NSC(9;0.00156)|all_lung(11;0.00243)		BRCA - Breast invasive adenocarcinoma(18;0.0106)			TACCCAAGCCGCCTCCAGGTA	0.612													29	23					0	0	0.012213	0	0		A	34099444	A	A	34099444	3	1	212	1	0	0	0	0	1	0	0	0	3255	1087	38	1	7444	1	CEP250	20	34099444	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	247765	34099444	28926076	1476	105281											
C20orf4	25980	broad.mit.edu	37	chr20	34832708	34832708	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctcctgaacctcctgtgcCggtcagaagcagccatgatg	8	8	12	13	1	1	3	1	2	0	1	3	3	3	3	5	2	4	2	5	2	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:34832708C>A	uc002xfc.1	+	3	940	c.847C>A	c.(847-849)CGG>AGG	p.R283R	C20orf4_uc002xfd.1_Silent_p.R283R|C20orf4_uc002xfe.1_Silent_p.R283R	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980	283											0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				CCTCCTGTGCCGGTCAGAAGC	0.532													25	99					3.08376e-08	3.29749e-08	0.00333	1	0		A	34832708	A	A	34832708	2	1	212	1	0	0	0	0	0	0	0	1	2114	643	23	5		5	C20orf4	20	34832708	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	733264	34832708	28192812	1477	105282											
C20orf4	25980	broad.mit.edu	37	chr20	34843569	34843569	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agaaagctgaaaagttccaaGctcacctgaccaagaagttc	16	7	8	10	0	1	4	1	2	0	2	3	4	2	4	3	0	2	4	3	0	6	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:34843569G>A	uc002xfc.1	+	4	1150	c.1057G>A	c.(1057-1059)GCT>ACT	p.A353T	C20orf4_uc002xfd.1_Intron|C20orf4_uc002xfe.1_Missense_Mutation_p.A353T	NM_015511	NP_056326	Q9Y312	CT004_HUMAN	hypothetical protein LOC25980	353											0	Breast(12;0.0162)	Myeloproliferative disorder(115;0.0393)				AAAGTTCCAAGCTCACCTGAC	0.542													29	146					0	0	0.010818	0	0		A	34843569	A	A	34843569	3	1	212	1	0	0	0	0	1	0	0	0	2114	971	34	2	1067	2	C20orf4	20	34843569	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	10861	34843569	28181951	1478	105283											
PPP1R16B	26051	broad.mit.edu	37	chr20	37546809	37546809	+	Silent	SNP	C	T	T	0	0	0	1	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	ctcactcgcagaaccccaggCtggagaagcccgtgctactc	9	6	10	16	2	1	2	1	0	0	2	3	3	1	2	3	2	4	3	3	2	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:37546809C>T	uc002xje.2	+	11	1393	c.1204C>T	c.(1204-1206)CTG>TTG	p.L402L	PPP1R16B_uc010ggc.2_Silent_p.L360L	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	402					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GAACCCCAGGCTGGAGAAGCC	0.502													38	157					0	0	0.00623	0	0		T	37546809	T	T	37546809	2	4	212	1	0	0	0	0	0	0	0	1	12388	796	28	2		2	PPP1R16B	20	37546809	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2703240	37546809	25478711	1479	105284											
PPP1R16B	26051	broad.mit.edu	37	chr20	37546995	37546995	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atggcaaccctggcgtggccGacgccaccccgccctggagc	6	4	13	18	4	0	0	0	0	0	0	0	2	0	1	6	4	2	1	6	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:37546995G>A	uc002xje.2	+	11	1579	c.1390G>A	c.(1390-1392)GAC>AAC	p.D464N	PPP1R16B_uc010ggc.2_Missense_Mutation_p.D422N	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	464					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				TGGCGTGGCCGACGCCACCCC	0.642													34	123					0	0	0.013726	0	0		A	37546995	A	A	37546995	3	1	212	1	0	0	0	0	1	0	0	0	12388	1058	37	1	1428	1	PPP1R16B	20	37546995	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	186	37546995	25478525	1480	105285											
DHX35	60625	broad.mit.edu	37	chr20	37632521	37632521	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctttgagcaaatgaaagtgTttgaaagggtgtcacgcagt	12	11	12	6	1	1	3	1	3	0	0	1	3	1	3	1	1	1	3	1	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:37632521T>C	uc002xjh.2	+	11	993	c.982T>C	c.(982-984)TTT>CTT	p.F328L	DHX35_uc010zwa.1_Missense_Mutation_p.F173L|DHX35_uc010zwb.1_Missense_Mutation_p.F173L|DHX35_uc010zwc.1_Missense_Mutation_p.F297L	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	328	Helicase C-terminal.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				AATGAAAGTGTTTGAAAGGGT	0.488													31	131					0	0	0.003755	0	0		C	37632521	C	C	37632521	3	2	212	1	0	0	0	0	1	0	0	0	4514	1725	60	3	1024	3	DHX35	20	37632521	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	85526	37632521	25392999	1481	105286											
MAFB	9935	broad.mit.edu	37	chr20	39317182	39317182	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcttccaccgcgtcctcgggCgtcaggttgagcgcctcggg	3	8	15	15	6	1	1	1	1	0	0	5	1	3	1	4	3	1	2	4	3	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:39317182C>T	uc002xji.2	-	1	695	c.309G>A	c.(307-309)ACG>ACA	p.T103T		NM_005461	NP_005452	Q9Y5Q3	MAFB_HUMAN	transcription factor MAFB	103					negative regulation of erythrocyte differentiation		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		Myeloproliferative disorder(115;0.00878)				CGTCCTCGGGCGTCAGGTTGA	0.577			T	IGH@	MM								17	64					0	0	0.007413	0	0		T	39317182	T	T	39317182	2	4	212	1	0	0	0	0	0	0	0	1	9176	755	27	1		1	MAFB	20	39317182	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1684661	39317182	23708338	1482	105287											
CHD6	84181	broad.mit.edu	37	chr20	40068644	40068644	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctacgtggcttctcacctttCaggaatgtctgaggtcccat	7	13	9	12	1	3	1	2	1	2	0	5	2	4	2	2	3	1	1	2	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:40068644C>T	uc002xka.1	-	26	4181	c.4003G>A	c.(4003-4005)GAA>AAA	p.E1335K	CHD6_uc002xkb.1_Missense_Mutation_p.E101K	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1335					chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				TCTCACCTTTCAGGAATGTCT	0.522													12	48					0	0	0.013537	0	0		T	40068644	T	T	40068644	3	4	212	1	0	0	0	0	1	0	0	0	3332	835	29	4	4192	4	CHD6	20	40068644	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	751462	40068644	22956876	1483	105288											
PTPRT	11122	broad.mit.edu	37	chr20	40713420	40713420	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agagagcgcttggaggggggCgtgtcccggtaggcaggcca	7	5	20	9	3	0	1	0	0	0	1	1	3	1	2	2	7	1	3	2	7	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:40713420C>T	uc002xkg.2	-	29	4222	c.4038G>A	c.(4036-4038)ACG>ACA	p.T1346T	PTPRT_uc010ggj.2_Silent_p.T1365T|PTPRT_uc010ggi.2_Silent_p.T549T	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1346	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.		T -> M (in some colorectal cancers; reduced phosphatase activity).		homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TGGAGGGGGGCGTGTCCCGGT	0.592													14	55					0	0	0.004007	0	0		T	40713420	T	T	40713420	2	4	212	1	0	0	0	0	0	0	0	1	12837	755	27	1		1	PTPRT	20	40713420	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	644776	40713420	22312100	1484	105289											
PTPRT	11122	broad.mit.edu	37	chr20	40730848	40730848	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcggtccagaggcagcacGtccatacttcgattcttatc	9	10	9	13	3	1	1	0	0	1	1	5	2	3	1	2	2	3	2	2	2	2	4	rs35010609		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:40730848G>A	uc002xkg.2	-	26	3814	c.3630C>T	c.(3628-3630)GAC>GAT	p.D1210D	PTPRT_uc010ggj.2_Silent_p.D1229D|PTPRT_uc010ggi.2_Silent_p.D413D	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1210	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GAGGCAGCACGTCCATACTTC	0.587													19	97					0	0	0.010504	0	0		A	40730848	A	A	40730848	2	1	212	1	0	0	0	0	0	0	0	1	12837	1136	40	1		1	PTPRT	20	40730848	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	17428	40730848	22294672	1485	105290											
KCNK15	60598	broad.mit.edu	37	chr20	43379275	43379275	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcccgcacccccagcccGcgccccccgggggcgcccga	3	1	13	24	6	0	0	0	0	0	0	0	1	0	0	8	2	2	2	8	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:43379275G>A	uc002xmr.2	+	2	853	c.789G>A	c.(787-789)CCG>CCA	p.P263P		NM_022358	NP_071753	Q9H427	KCNKF_HUMAN	potassium family, subfamily K, member 15	263	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity				0		Myeloproliferative disorder(115;0.0122)				CCCCCAgcccgcgccccccgg	0.637													10	24					0	0	0.006214	0	0		A	43379275	A	A	43379275	2	1	212	1	0	0	0	0	0	0	0	1	8078	1074	38	1		1	KCNK15	20	43379275	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2648427	43379275	19646245	1486	105291											
MATN4	8785	broad.mit.edu	37	chr20	43927120	43927120	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggacacatctaggaagtcCacaatctggttcacgaagcg	12	7	12	10	2	3	0	1	0	2	0	4	3	4	2	1	4	1	1	1	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:43927120C>A	uc002xnn.2	-	7	1303	c.1116G>T	c.(1114-1116)GTG>GTT	p.V372V	MATN4_uc002xno.2_Silent_p.V331V|MATN4_uc002xnp.2_Silent_p.V290V|MATN4_uc010zwr.1_Silent_p.V320V|MATN4_uc002xnr.1_Silent_p.V372V	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	413	VWFA 2.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CTAGGAAGTCCACAATCTGGT	0.627													15	87					0.000219431	0.000226972	0.00245	1	0		A	43927120	A	A	43927120	2	1	212	1	0	0	0	0	0	0	0	1	9354	581	21	5		5	MATN4	20	43927120	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	547845	43927120	19098400	1487	105292											
MATN4	8785	broad.mit.edu	37	chr20	43933374	43933374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggtctcgaactcgaaagggCgcacgctgcgggagctgtca	8	7	15	11	5	2	0	1	0	1	0	4	3	2	1	0	3	3	3	0	3	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:43933374C>T	uc002xnn.2	-	3	324	c.137G>A	c.(136-138)CGC>CAC	p.R46H	MATN4_uc002xno.2_Missense_Mutation_p.R46H|MATN4_uc002xnp.2_Missense_Mutation_p.R46H|MATN4_uc010zwr.1_5'UTR|MATN4_uc002xnr.1_Missense_Mutation_p.R46H|RBPJL_uc002xns.2_5'Flank|RBPJL_uc002xnt.2_5'Flank	NM_003833	NP_003824	O95460	MATN4_HUMAN	matrilin 4 isoform 1 precursor	46	VWFA 1.					extracellular region	protein binding				0		Myeloproliferative disorder(115;0.0122)				CTCGAAAGGGCGCACGCTGCG	0.632													8	53					0	0	0.00308	0	0		T	43933374	T	T	43933374	3	4	212	1	0	0	0	0	1	0	0	0	9354	768	27	1	1640	1	MATN4	20	43933374	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	6254	43933374	19092146	1488	105293											
PCIF1	63935	broad.mit.edu	37	chr20	44576240	44576240	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctggctttgccaagtgggCgccgacgcctgaacggctgc	5	7	14	15	4	0	1	0	1	0	0	0	2	0	1	4	3	3	2	4	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:44576240C>T	uc002xqs.2	+	17	2275	c.1961C>T	c.(1960-1962)GCG>GTG	p.A654V	PCIF1_uc002xqt.2_Silent_p.G262G|PCIF1_uc002xqu.2_Missense_Mutation_p.A123V	NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1	654						nucleus				skin(1)	1						GCCAAGTGGGCGCCGACGCCT	0.622													24	77					0	0	0.00278	0	0		T	44576240	T	T	44576240	3	4	212	1	0	0	0	0	1	0	0	0	11599	768	27	1	2019	1	PCIF1	20	44576240	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	642866	44576240	18449280	1489	105294											
ZNF334	55713	broad.mit.edu	37	chr20	45131398	45131398	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggtgcagaataagattttCgttttgattgctggctttcc	7	17	10	7	1	0	3	0	1	0	2	2	3	1	3	1	2	2	4	1	2	2	7			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:45131398C>T	uc002xsc.2	-	5	764	c.580G>A	c.(580-582)GAA>AAA	p.E194K	ZNF334_uc002xsa.2_Missense_Mutation_p.E217K|ZNF334_uc002xsb.2_Missense_Mutation_p.E156K|ZNF334_uc002xsd.2_Missense_Mutation_p.E156K|ZNF334_uc010ghl.2_Missense_Mutation_p.E193K	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				ATAAGATTTTCGTTTTGATTG	0.363													13	88					0	0	0.013537	0	0		T	45131398	T	T	45131398	3	4	212	1	0	0	0	0	1	0	0	0	17876	893	31	1	1466	1	ZNF334	20	45131398	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	555158	45131398	17894122	1490	105295											
NCOA3	8202	broad.mit.edu	37	chr20	46268496	46268496	+	Silent	SNP	G	A	A	0	0	1	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	ggtggctctattcccacattGcctcttcggtctaatagcat	7	14	8	12	1	3	0	0	0	3	0	5	0	4	0	2	3	2	2	2	3	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:46268496G>A	uc002xtk.2	+	15	3088	c.2883G>A	c.(2881-2883)TTG>TTA	p.L961L	NCOA3_uc010ght.1_Silent_p.L956L|NCOA3_uc002xtl.2_Silent_p.L961L|NCOA3_uc002xtm.2_Silent_p.L961L|NCOA3_uc002xtn.2_Silent_p.L961L|NCOA3_uc010zyc.1_Silent_p.L756L	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	961					androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						TTCCCACATTGCCTCTTCGGT	0.473													34	120					0	0	0.012213	0	0		A	46268496	A	A	46268496	2	1	212	1	0	0	0	0	0	0	0	1	10249	1310	46	2		2	NCOA3	20	46268496	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1137098	46268496	16757024	1491	105296											
ZNFX1	57169	broad.mit.edu	37	chr20	47866123	47866123	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgggaaggcaggtattcctgGcacaggaagtacttgcacag	11	8	14	8	0	0	0	0	0	0	0	1	2	1	2	1	5	2	5	1	5	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:47866123G>T	uc002xui.2	-	14	3685	c.3438C>A	c.(3436-3438)TGC>TGA	p.C1146*		NM_021035	NP_066363	Q9P2E3	ZNFX1_HUMAN	zinc finger, NFX1-type containing 1	1146							metal ion binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.00173)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			GGTATTCCTGGCACAGGAAGT	0.512													26	124					1.42536e-11	1.56986e-11	0.004656	1	0		T	47866123	T	T	47866123	4	4	212	1	0	0	0	0	0	1	0	0	18230	1195	42	5	2322	5	ZNFX1	20	47866123	Nonsense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1597627	47866123	15159397	1492	105297											
B4GALT5	9334	broad.mit.edu	37	chr20	48257081	48257081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtccacatccataatagttgCgatcactttccggtatgtga	10	13	8	10	2	1	1	1	1	0	0	4	2	4	1	3	1	1	2	3	1	3	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:48257081C>T	uc002xuu.3	-	6	922	c.728G>A	c.(727-729)CGC>CAC	p.R243H		NM_004776	NP_004767	O43286	B4GT5_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	243	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	galactosyltransferase activity|metal ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;2.51e-06)			ATAATAGTTGCGATCACTTTC	0.383													22	91					0	0	0.003954	0	0		T	48257081	T	T	48257081	3	4	212	1	0	0	0	0	1	0	0	0	1275	768	27	1	454	1	B4GALT5	20	48257081	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	390958	48257081	14768439	1493	105298											
NFATC2	4773	broad.mit.edu	37	chr20	50139752	50139752	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccacggccgggtagatgtggCgaggcaggccggccttggat	6	6	18	11	4	0	1	0	0	0	1	0	3	0	2	4	7	0	2	4	7	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:50139752C>T	uc002xwd.2	-	2	1248	c.1028G>A	c.(1027-1029)CGC>CAC	p.R343H	NFATC2_uc002xwc.2_Missense_Mutation_p.R343H|NFATC2_uc010zyv.1_Missense_Mutation_p.R124H|NFATC2_uc010zyw.1_Missense_Mutation_p.R124H|NFATC2_uc010zyx.1_Missense_Mutation_p.R323H|NFATC2_uc010zyy.1_Missense_Mutation_p.R124H|NFATC2_uc010zyz.1_Missense_Mutation_p.R124H|NFATC2_uc002xwe.2_Missense_Mutation_p.R323H	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	343					B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					GTAGATGTGGCGAGGCAGGCC	0.682													27	102					0	0	0.005443	0	0		T	50139752	T	T	50139752	3	4	212	1	0	0	0	0	1	0	0	0	10381	768	27	1	1833	1	NFATC2	20	50139752	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1882671	50139752	12885768	1494	105299											
SALL4	57167	broad.mit.edu	37	chr20	50407649	50407649	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggggtcaggtacagagagtGcataggggatgccattgccg	9	8	17	7	1	1	1	1	0	0	1	1	3	1	2	2	5	4	2	2	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:50407649G>A	uc002xwh.3	-	2	1474	c.1373C>T	c.(1372-1374)GCA>GTA	p.A458V	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	458					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TACAGAGAGTGCATAGGGGAT	0.532													8	144					0	0	0.006214	0	0		A	50407649	A	A	50407649	3	1	212	1	0	0	0	0	1	0	0	0	13838	1319	46	2	1800	2	SALL4	20	50407649	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	267897	50407649	12617871	1495	105300											
ZFP64	55734	broad.mit.edu	37	chr20	50701394	50701394	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctccgtcttggcctcgtccCtgtgcaccttgtcgacgtgc	2	13	10	16	4	2	0	0	0	2	0	6	1	3	0	4	1	2	1	4	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:50701394C>A	uc002xwk.2	-	9	1989	c.1640G>T	c.(1639-1641)AGG>ATG	p.R547M	ZFP64_uc002xwj.2_Missense_Mutation_p.R328M	NM_199427	NP_955459	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform d	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GGCCTCGTCCCTGTGCACCTT	0.632													26	87					1.06801e-11	1.1777e-11	0.009535	1	0		A	50701394	A	A	50701394	3	1	212	1	0	0	0	0	1	0	0	0	17677	681	24	5	301	5	ZFP64	20	50701394	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	293745	50701394	12324126	1496	105301											
ZFP64	55734	broad.mit.edu	37	chr20	50776842	50776842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcacgcccgtgtggcaccGcatgtgagttttcagcttgt	5	13	11	12	3	2	1	2	1	0	0	2	1	2	1	2	1	1	4	2	1	0	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:50776842G>A	uc002xwl.2	-	5	932	c.583C>T	c.(583-585)CGG>TGG	p.R195W	ZFP64_uc002xwk.2_Missense_Mutation_p.R195W|ZFP64_uc002xwm.2_Missense_Mutation_p.R193W|ZFP64_uc002xwn.2_Missense_Mutation_p.R141W	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	195	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						GTGTGGCACCGCATGTGAGTT	0.537													43	135					0	0	0.011902	0	0		A	50776842	A	A	50776842	3	1	212	1	0	0	0	0	1	0	0	0	17677	1086	38	1	2661	1	ZFP64	20	50776842	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	75448	50776842	12248678	1497	105302											
PCK1	5105	broad.mit.edu	37	chr20	56138777	56138777	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgcctggatgaagtttgacGcacaaggtgactcttttaga	10	13	11	7	1	1	4	0	3	1	1	1	5	1	5	1	2	1	2	1	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:56138777G>A	uc002xyn.3	+	6	1118	c.955G>A	c.(955-957)GCA>ACA	p.A319T	PCK1_uc010zzm.1_Intron	NM_002591	NP_002582	P35558	PCKGC_HUMAN	cytosolic phosphoenolpyruvate carboxykinase 1	319					gluconeogenesis|glucose homeostasis|glycerol biosynthetic process from pyruvate|response to insulin stimulus	cytosol|nucleus	carboxylic acid binding|GTP binding|magnesium ion binding|manganese ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			skin(1)	1	Lung NSC(12;0.000764)|all_lung(29;0.00264)|Melanoma(10;0.242)		BRCA - Breast invasive adenocarcinoma(13;9.88e-12)|Epithelial(14;3.41e-08)|all cancers(14;2.13e-07)			GAAGTTTGACGCACAAGGTGA	0.542													37	126					0	0	0.00623	0	0		A	56138777	A	A	56138777	3	1	212	1	0	0	0	0	1	0	0	0	11600	1087	38	1	973	1	PCK1	20	56138777	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5361935	56138777	6886743	1498	105303											
ZBP1	81030	broad.mit.edu	37	chr20	56190060	56190060	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctcattcccagtgcttgggCgatgaccagggccctctggg	5	9	13	14	1	2	1	1	1	1	0	3	2	3	1	4	3	1	1	4	3	0	2	rs141977359		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:56190060C>T	uc002xyo.2	-	4	666	c.385G>A	c.(385-387)GCC>ACC	p.A129T	ZBP1_uc010gjm.2_Missense_Mutation_p.A129T|ZBP1_uc002xyp.2_Missense_Mutation_p.A54T|ZBP1_uc010zzn.1_Missense_Mutation_p.A129T	NM_030776	NP_110403	Q9H171	ZBP1_HUMAN	Z-DNA binding protein 1 isoform a	129	DRADA 2.					cytoplasm|nucleus	double-stranded RNA adenosine deaminase activity|left-handed Z-DNA binding|RNA binding			ovary(2)	2	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)			AGTGCTTGGGCGATGACCAGG	0.418													53	211					0	0	0.01441	0	0		T	56190060	T	T	56190060	3	4	212	1	0	0	0	0	1	0	0	0	17546	768	27	1	1001	1	ZBP1	20	56190060	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	51283	56190060	6835460	1499	105304											
ZNF831	128611	broad.mit.edu	37	chr20	57766431	57766431	+	Silent	SNP	C	T	T	0	0	0	1	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	ctgacggtgaacatcgtgggCactctgcctgtcctgtcgcc	5	10	12	14	3	1	2	0	2	1	0	4	2	2	2	3	2	2	1	3	2	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:57766431C>T	uc002yan.2	+	1	357	c.357C>T	c.(355-357)GGC>GGT	p.G119G		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	119						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACATCGTGGGCACTCTGCCTG	0.687													8	36					0	0	0.00308	0	0		T	57766431	T	T	57766431	2	4	212	1	0	0	0	0	0	0	0	1	18210	697	25	2		2	ZNF831	20	57766431	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1576371	57766431	5259089	1500	105305											
ZNF831	128611	broad.mit.edu	37	chr20	57767406	57767406	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagcatcgacctgcccacGccctacacctacaaggactc	10	5	8	18	2	0	0	0	0	0	0	2	2	0	1	4	2	4	2	4	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:57767406G>A	uc002yan.2	+	1	1332	c.1332G>A	c.(1330-1332)ACG>ACA	p.T444T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	444						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACCTGCCCACGCCCTACACCT	0.682													6	54					0	0	0.001168	0	0		A	57767406	A	A	57767406	2	1	212	1	0	0	0	0	0	0	0	1	18210	1074	38	1		1	ZNF831	20	57767406	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	975	57767406	5258114	1501	105306											
CDH4	1002	broad.mit.edu	37	chr20	60511884	60511884	+	Silent	SNP	C	T	T	0	0	0	1	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	gggagcggctccaccgcaggCtccgtcagctccctgaactc	6	6	12	17	3	1	1	1	1	0	0	5	2	4	2	4	3	3	4	4	3	1	0	rs145794407	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:60511884C>T	uc002ybn.1	+	16	2648	c.2634C>T	c.(2632-2634)GGC>GGT	p.G878G	CDH4_uc002ybp.1_Silent_p.G804G|uc002ybr.1_5'Flank	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	878	Ser-rich.|Cytoplasmic (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			CCACCGCAGGCTCCGTCAGCT	0.627													5	50					0	0	0.000602	0	0		T	60511884	T	T	60511884	2	4	212	1	0	0	0	0	0	0	0	1	3115	784	28	2		2	CDH4	20	60511884	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2744478	60511884	2513636	1502	105307											
NTSR1	4923	broad.mit.edu	37	chr20	61340658	61340658	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggcgctgctggccccGggcttcggcaacgcttcggg	4	6	18	13	5	0	0	0	0	0	0	2	2	0	1	2	6	2	5	2	6	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:61340658G>A	uc002ydf.2	+	1	470	c.99G>A	c.(97-99)CCG>CCA	p.P33P		NM_002531	NP_002522	P30989	NTR1_HUMAN	neurotensin receptor 1	33	Extracellular (Potential).					endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	neurotensin receptor activity, G-protein coupled			skin(2)|lung(1)|central_nervous_system(1)	4	Breast(26;3.65e-08)		BRCA - Breast invasive adenocarcinoma(19;3.63e-06)			TGCTGGCCCCGGGCTTCGGCA	0.726													4	21					0	0	0.000602	0	0		A	61340658	A	A	61340658	2	1	212	1	0	0	0	0	0	0	0	1	10729	1103	39	1		1	NTSR1	20	61340658	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	828774	61340658	1684862	1503	105308											
COL9A3	1299	broad.mit.edu	37	chr20	61467861	61467861	+	Missense_Mutation	SNP	A	G	G	1	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	cagcgagcagcgcatcagggAgctgtgtggggggatgatca	9	6	18	8	2	2	1	2	1	0	0	2	4	2	3	0	4	4	3	0	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:61467861A>G	uc002ydm.2	+	29	1583	c.1580A>G	c.(1579-1581)GAG>GGG	p.E527G	COL9A3_uc002ydn.2_Missense_Mutation_p.E21G	NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	527	Nonhelical region 3 (NC3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					CGCATCAGGGAGCTGTGTGGG	0.672													10	23					0	0	0.008291	0	0		G	61467861	G	G	61467861	3	3	212	1	0	0	0	0	1	0	0	0	3712	304	11	3	1694	3	COL9A3	20	61467861	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	127203	61467861	1557659	1504	105309											
EEF1A2	1917	broad.mit.edu	37	chr20	62127345	62127345	+	Missense_Mutation	SNP	A	G	G	1	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	cgcgctcacgctccgccttcAgcttgtccagcacccaggca	6	7	9	19	4	2	0	2	0	0	0	4	0	4	0	4	1	2	5	4	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:62127345A>G	uc002yfd.1	-	2	289	c.188T>C	c.(187-189)CTG>CCG	p.L63P	EEF1A2_uc002yfe.1_Missense_Mutation_p.L63P|EEF1A2_uc010gkg.1_Missense_Mutation_p.L63P	NM_001958	NP_001949	Q05639	EF1A2_HUMAN	eukaryotic translation elongation factor 1 alpha	63						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			CTCCGCCTTCAGCTTGTCCAG	0.632											OREG0026129	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	34	132					0	0	0.005524	0	0		G	62127345	G	G	62127345	3	3	212	1	0	0	0	0	1	0	0	0	4930	188	7	3	1227	3	EEF1A2	20	62127345	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	659484	62127345	898175	1505	105310											
ZGPAT	84619	broad.mit.edu	37	chr20	62340125	62340125	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagcagcttgttggccGcgctggacgaagagcgcccg	8	5	17	11	5	0	2	0	0	0	2	0	5	0	4	2	3	3	4	2	3	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:62340125G>A	uc002ygk.2	+	2	371	c.193G>A	c.(193-195)GCG>ACG	p.A65T	ARFRP1_uc002yga.2_5'Flank|ARFRP1_uc002ygc.2_5'Flank|ARFRP1_uc002ygh.3_5'Flank|ARFRP1_uc011abf.1_5'Flank|ARFRP1_uc011abg.1_5'Flank|ARFRP1_uc002yge.2_5'Flank|ARFRP1_uc002ygd.2_5'Flank|ARFRP1_uc002ygf.2_5'Flank|ARFRP1_uc002ygg.2_5'Flank|ARFRP1_uc011abh.1_5'Flank|ZGPAT_uc002ygi.2_Missense_Mutation_p.A65T|ZGPAT_uc002ygj.2_Missense_Mutation_p.A65T|ZGPAT_uc010gkk.1_Intron|ZGPAT_uc010gkl.1_Missense_Mutation_p.A65T|ZGPAT_uc002ygm.2_Missense_Mutation_p.A65T|ZGPAT_uc002ygn.3_RNA	NM_032527	NP_115916	Q8N5A5	ZGPAT_HUMAN	zinc finger, CCCH-type with G patch domain	65					negative regulation of epidermal growth factor receptor activity|negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_cancers(38;1.13e-12)|all_epithelial(29;2.64e-14)|Lung NSC(23;4.79e-10)|all_lung(23;1.7e-09)					CTTGTTGGCCGCGCTGGACGA	0.672													70	74					0	0	0.01441	0	0		A	62340125	A	A	62340125	3	1	212	1	0	0	0	0	1	0	0	0	17699	1087	38	1	195	1	ZGPAT	20	62340125	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	212780	62340125	685395	1506	105311											
PRPF6	24148	broad.mit.edu	37	chr20	62664278	62664278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgccgtgtccaaggacatcGccaactggcagaagaagatc	12	5	12	12	3	0	3	0	0	0	3	3	4	1	4	3	2	1	1	3	2	4	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr20:62664278G>A	uc002yho.2	+	21	2926	c.2758G>A	c.(2758-2760)GCC>ACC	p.A920T	PRPF6_uc002yhp.2_Missense_Mutation_p.A880T|NCRNA00176_uc002yhq.2_5'Flank|NCRNA00176_uc011abq.1_5'Flank	NM_012469	NP_036601	O94906	PRP6_HUMAN	PRP6 pre-mRNA processing factor 6 homolog	920					assembly of spliceosomal tri-snRNP|positive regulation of transcription from RNA polymerase II promoter|spliceosome assembly	catalytic step 2 spliceosome|nucleoplasm|U4/U6 snRNP|U4/U6 x U5 tri-snRNP complex|U5 snRNP	androgen receptor binding|ribonucleoprotein binding|transcription coactivator activity			ovary(2)	2	all_cancers(38;6.47e-12)|all_epithelial(29;1.26e-13)|Lung NSC(23;9.37e-10)|all_lung(23;3.23e-09)					CAAGGACATCGCCAACTGGCA	0.637													13	64					0	0	0.003163	0	0		A	62664278	A	A	62664278	3	1	212	1	0	0	0	0	1	0	0	0	12596	1087	38	1	2840	1	PRPF6	20	62664278	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	324153	62664278	361242	1507	105312											
NRIP1	8204	broad.mit.edu	37	chr21	16340025	16340025	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttaaagaatcatgactgagGgcatatccttgctccttgag	11	13	9	8	0	1	4	1	3	0	1	3	4	3	4	2	1	1	2	2	1	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:16340025G>T	uc002yjx.2	-	4	1087	c.489C>A	c.(487-489)GCC>GCA	p.A163A		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	163	Repression domain 1.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CATGACTGAGGGCATATCCTT	0.418													6	36					3.59834e-05	3.75159e-05	0.001168	1	0		T	16340025	T	T	16340025	2	4	212	1	0	0	0	0	0	0	0	1	10671	1219	43	5		5	NRIP1	21	16340025	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08		16340025	31789870	1508	105313											
USP25	29761	broad.mit.edu	37	chr21	17199417	17199417	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcagtcccggatacctccaGatttgcccatgcatccggca	8	9	8	16	2	1	1	1	0	0	1	4	2	4	2	5	2	3	2	5	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:17199417G>T	uc002yjy.1	+	14	1805	c.1588G>T	c.(1588-1590)GAT>TAT	p.D530Y	USP25_uc011aby.1_Missense_Mutation_p.D530Y|USP25_uc002yjz.1_Missense_Mutation_p.D530Y|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	530					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		GATACCTCCAGATTTGCCCAT	0.458													7	89					2.0095e-06	2.11915e-06	0.001984	1	0		T	17199417	T	T	17199417	3	4	212	1	0	0	0	0	1	0	0	0	17082	942	33	5	1642	5	USP25	21	17199417	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	859392	17199417	30930478	1509	105314											
APP	351	broad.mit.edu	37	chr21	27394342	27394342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcttcctcctctgctacttCtactactttgtcttcactgt	4	20	3	14	0	5	0	1	0	4	0	7	0	7	0	2	0	4	1	2	0	3	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:27394342C>T	uc002ylz.2	-	6	879	c.679G>A	c.(679-681)GAA>AAA	p.E227K	APP_uc010glk.2_Missense_Mutation_p.E222K|APP_uc002yma.2_Missense_Mutation_p.E227K|APP_uc011ach.1_Missense_Mutation_p.E171K|APP_uc002ymb.2_Missense_Mutation_p.E227K|APP_uc010glj.2_Missense_Mutation_p.E171K|APP_uc011aci.1_Missense_Mutation_p.E192K|APP_uc011acj.1_Missense_Mutation_p.E227K	NM_000484	NP_000475	P05067	A4_HUMAN	amyloid beta A4 protein isoform a precursor	227	Extracellular (Potential).				adult locomotory behavior|axon cargo transport|axon midline choice point recognition|cell adhesion|cellular copper ion homeostasis|collateral sprouting in absence of injury|dendrite development|endocytosis|extracellular matrix organization|G2 phase of mitotic cell cycle|innate immune response|ionotropic glutamate receptor signaling pathway|mating behavior|mRNA polyadenylation|neuron apoptosis|neuron remodeling|Notch signaling pathway|platelet activation|platelet degranulation|positive regulation of mitotic cell cycle|protein phosphorylation|regulation of epidermal growth factor receptor activity|regulation of multicellular organism growth|regulation of synapse structure and activity|regulation of translation|visual learning	axon|cell surface|coated pit|dendritic shaft|dendritic spine|extracellular region|Golgi apparatus|integral to plasma membrane|platelet alpha granule lumen	acetylcholine receptor binding|DNA binding|heparin binding|identical protein binding|metal ion binding|protein binding|protein binding|PTB domain binding|serine-type endopeptidase inhibitor activity			ovary(1)	1		Breast(209;0.00295)				tctgctacttctactactttg	0.139													28	49					0	0	0.004656	0	0		T	27394342	T	T	27394342	3	4	212	1	0	0	0	0	1	0	0	0	815	922	32	4	1685	4	APP	21	27394342	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	10194925	27394342	20735553	1510	105315											
CLDN17	26285	broad.mit.edu	37	chr21	31538754	31538754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tatagaacttgcattgcaacCggaccctggcttgtcggatg	9	11	11	10	2	0	1	0	0	0	1	1	3	0	3	2	3	4	3	2	3	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:31538754C>T	uc011acv.1	-	1	182	c.182G>A	c.(181-183)CGG>CAG	p.R61Q		NM_012131	NP_036263	P56750	CLD17_HUMAN	claudin 17	61	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	Golgi apparatus|integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(2)	2						GCATTGCAACCGGACCCTGGC	0.547													51	18					0	0	0.01441	0	0		T	31538754	T	T	31538754	3	4	212	1	0	0	0	0	1	0	0	0	3481	652	23	1	496	1	CLDN17	21	31538754	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4144412	31538754	16591141	1511	105316											
KRTAP20-2	337976	broad.mit.edu	37	chr21	32007684	32007684	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tatggccatggctatggaggCctgggctgtggctatggccg	5	10	17	9	1	0	0	0	0	0	0	0	1	0	1	3	7	0	3	3	7	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:32007684C>T	uc011adg.1	+	1	102	c.102C>T	c.(100-102)GGC>GGT	p.G34G		NM_181616	NP_853647	Q3LI61	KR202_HUMAN	keratin associated protein 20-2	34						intermediate filament				central_nervous_system(1)	1						GCTATGGAGGCCTGGGCTGTG	0.552													35	65					0	0	0.003755	0	0		T	32007684	T	T	32007684	2	4	212	1	0	0	0	0	0	0	0	1	8553	726	26	2		2	KRTAP20-2	21	32007684	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	468930	32007684	16122211	1512	105317											
ITSN1	6453	broad.mit.edu	37	chr21	35183448	35183448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccccaaactggccttgcGtgagacccccgcccctttgg	5	8	10	18	2	0	1	0	1	0	1	0	2	0	1	7	2	3	0	7	2	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:35183448G>A	uc002yta.1	+	21	2757	c.2489G>A	c.(2488-2490)CGT>CAT	p.R830H	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Missense_Mutation_p.R825H|ITSN1_uc010gmg.2_Missense_Mutation_p.R788H|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Missense_Mutation_p.R830H|ITSN1_uc010gmi.2_Missense_Mutation_p.R793H|ITSN1_uc010gmj.2_Missense_Mutation_p.R709H|ITSN1_uc002ysy.2_Missense_Mutation_p.R825H|ITSN1_uc002ysx.2_Missense_Mutation_p.R788H|ITSN1_uc002ytb.1_Missense_Mutation_p.R825H|ITSN1_uc002ytc.1_Missense_Mutation_p.R825H|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Missense_Mutation_p.R793H|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Missense_Mutation_p.R825H|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Missense_Mutation_p.R764H|ITSN1_uc002ytf.1_RNA	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	830					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CTGGCCTTGCGTGAGACCCCC	0.557													8	164					0	0	0.00308	0	0		A	35183448	A	A	35183448	3	1	212	1	0	0	0	0	1	0	0	0	7942	1145	40	1	2567	1	ITSN1	21	35183448	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3175764	35183448	12946447	1513	105318											
RUNX1	861	broad.mit.edu	37	chr21	36171665	36171665	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcacgtccaggtgaaatgggCgttgctgggtgcacagaagg	9	7	17	8	2	0	2	0	1	0	1	1	2	1	2	1	4	2	4	1	4	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:36171665C>T	uc002yuh.2	-	5	2397	c.819G>A	c.(817-819)ACG>ACA	p.T273T	RUNX1_uc002yui.2_Silent_p.T209T|RUNX1_uc010gmu.2_Silent_p.T300T|RUNX1_uc010gmv.2_Silent_p.T300T|RUNX1_uc002yuj.3_Silent_p.T168T|RUNX1_uc002yuk.3_Silent_p.T300T|RUNX1_uc002yul.1_Silent_p.T65T|RUNX1_uc002yum.1_Silent_p.T104T	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform	273	Pro/Ser/Thr-rich.			Missing: No DNA-binding.|T->A: Reduced phsphorylation; when associated with A-276.	myeloid cell differentiation|negative regulation of granulocyte differentiation|positive regulation of angiogenesis|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent	nucleus|nucleus	ATP binding|calcium ion binding|DNA binding|DNA binding|protein binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			haematopoietic_and_lymphoid_tissue(383)|lung(2)|ovary(1)|central_nervous_system(1)	387						GTGAAATGGGCGTTGCTGGGT	0.527			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				25	139					0	0	0.009535	0	0		T	36171665	T	T	36171665	2	4	212	1	0	0	0	0	0	0	0	1	13771	755	27	1		1	RUNX1	21	36171665	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	988217	36171665	11958230	1514	105319											
TRAPPC10	7109	broad.mit.edu	37	chr21	45504008	45504008	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctttgactctaggccaaGgaacctggaacgtatacact	12	11	8	10	1	2	1	0	1	2	0	2	3	2	3	2	3	3	1	2	3	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:45504008G>T	uc002zea.2	+	15	2413	c.2244G>T	c.(2242-2244)AAG>AAT	p.K748N	TRAPPC10_uc010gpo.2_Missense_Mutation_p.K459N|TRAPPC10_uc011afa.1_Missense_Mutation_p.K167N	NM_003274	NP_003265	P48553	TPC10_HUMAN	trafficking protein particle complex 10	748					vesicle-mediated transport	Golgi apparatus|integral to membrane	binding|sodium ion transmembrane transporter activity			ovary(1)|skin(1)	2						TCTAGGCCAAGGAACCTGGAA	0.557													6	20					5.18039e-06	5.4443e-06	0.00308	1	0		T	45504008	T	T	45504008	3	4	212	1	0	0	0	0	1	0	0	0	16483	991	35	5	2302	5	TRAPPC10	21	45504008	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9332343	45504008	2625887	1515	105320											
ADARB1	104	broad.mit.edu	37	chr21	46596496	46596496	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gggctgcgcagtctgccctgGccgccatttttaacttgcac	5	11	11	14	2	1	0	0	0	1	0	1	0	1	0	3	2	4	3	3	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:46596496G>A	uc002zgy.2	+	4	1315	c.880G>A	c.(880-882)GCC>ACC	p.A294T	ADARB1_uc002zgr.2_Missense_Mutation_p.A294T|ADARB1_uc002zgs.2_RNA|ADARB1_uc002zgw.2_Missense_Mutation_p.A294T|ADARB1_uc002zgv.2_RNA|ADARB1_uc002zgt.2_Missense_Mutation_p.A294T|ADARB1_uc010gpx.2_Intron|ADARB1_uc002zgq.2_RNA|ADARB1_uc002zgu.2_RNA|ADARB1_uc011afo.1_Missense_Mutation_p.A343T	NM_015833	NP_056648	P78563	RED1_HUMAN	RNA-specific adenosine deaminase B1 isoform 2	294	DRBM 2.				adenosine to inosine editing|mRNA modification|mRNA processing|RNA processing	nucleoplasm|nucleus	double-stranded RNA adenosine deaminase activity|double-stranded RNA adenosine deaminase activity|double-stranded RNA binding|double-stranded RNA binding|metal ion binding|mRNA binding|RNA binding			skin(1)	1				Colorectal(79;0.115)		GTCTGCCCTGGCCGCCATTTT	0.557													23	39					0	0	0.00278	0	0		A	46596496	A	A	46596496	3	1	212	1	0	0	0	0	1	0	0	0	282	1203	42	2	886	2	ADARB1	21	46596496	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1092488	46596496	1533399	1516	105321											
COL18A1	80781	broad.mit.edu	37	chr21	46888631	46888631	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttgctcggtcctcacggggCctggagctggagcctggcgc	3	8	16	14	3	1	0	1	0	0	0	3	2	2	2	3	6	3	2	3	6	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:46888631C>T	uc011afs.1	+	2	1848	c.1827C>T	c.(1825-1827)GGC>GGT	p.G609G	COL18A1_uc002zhg.2_Silent_p.G194G|COL18A1_uc002zhi.2_Silent_p.G374G	NM_130444	NP_569711	P39060	COIA1_HUMAN	alpha 1 type XVIII collagen isoform 3 precursor	609	TSP N-terminal.				cell adhesion|negative regulation of cell proliferation|organ morphogenesis|visual perception	collagen|extracellular space	extracellular matrix structural constituent|metal ion binding|protein binding			central_nervous_system(1)	1				Colorectal(79;0.0157)|READ - Rectum adenocarcinoma(84;0.0929)		CCTCACGGGGCCTGGAGCTGG	0.652													7	13					0	0	0.00308	0	0		T	46888631	T	T	46888631	2	4	212	1	0	0	0	0	0	0	0	1	3678	726	26	2		2	COL18A1	21	46888631	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	292135	46888631	1241264	1517	105322											
DIP2A	23181	broad.mit.edu	37	chr21	47985786	47985786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ccttcggcgaacagagctcaCtgatgccagtggaggtgagg	9	7	15	10	2	1	3	1	2	0	1	2	5	1	4	2	4	3	1	2	4	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr21:47985786C>T	uc002zjo.2	+	36	4508	c.4325C>T	c.(4324-4326)ACT>ATT	p.T1442I	DIP2A_uc011afz.1_Missense_Mutation_p.T1438I|DIP2A_uc002zjs.2_Missense_Mutation_p.T122I|DIP2A_uc002zjt.2_RNA	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a	1442					multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		ACAGAGCTCACTGATGCCAGT	0.602													50	76					0	0	0.01441	0	0		T	47985786	T	T	47985786	3	4	212	1	0	0	0	0	1	0	0	0	4533	565	20	4	4580	4	DIP2A	21	47985786	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1097155	47985786	144109	1518	105323											
CECR6	27439	broad.mit.edu	37	chr22	17601186	17601186	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcggtagcggccgagggggCgggcagatgcaggggcggcg	6	2	24	9	6	0	1	0	0	0	1	0	2	0	1	1	8	3	3	1	8	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:17601186C>T	uc002zmb.2	-	1	1028	c.832G>A	c.(832-834)GCC>ACC	p.A278T	CECR6_uc002zma.2_Intron|uc002zmc.2_5'Flank	NM_031890	NP_114096	Q9BXQ6	CECR6_HUMAN	cat eye syndrome chromosome region, candidate 6	278	Ala-rich.										0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.221)		GCCGAGGGGGCGGGCAGATGC	0.532													6	8					0	0	0.00308	0	0		T	17601186	T	T	17601186	3	4	212	1	0	0	0	0	1	0	0	0	3211	768	27	1	908	1	CECR6	22	17601186	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		17601186	33703380	1519	105324											
CECR6	27439	broad.mit.edu	37	chr22	17601202	17601202	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggggcgggcagatgcaggggCggcgcggcgtggtggtggtg	3	5	26	7	5	0	1	0	0	0	1	0	1	0	1	0	10	1	2	0	10	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:17601202C>T	uc002zmb.2	-	1	1012	c.816G>A	c.(814-816)CCG>CCA	p.P272P	CECR6_uc002zma.2_Intron|uc002zmc.2_5'Flank	NM_031890	NP_114096	Q9BXQ6	CECR6_HUMAN	cat eye syndrome chromosome region, candidate 6	272	Ala-rich.										0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.221)		GATGCAGGGGCGGCGCGGCGT	0.562													8	13					0	0	0.006214	0	0		T	17601202	T	T	17601202	2	4	212	1	0	0	0	0	0	0	0	1	3211	755	27	1		1	CECR6	22	17601202	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	16	17601202	33703364	1520	105325											
CECR2	27443	broad.mit.edu	37	chr22	17976597	17976597	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gattaccggctggatgcagaCgatgtcttcgatcttctaaa	10	12	10	9	3	3	1	0	0	3	1	4	5	3	2	1	2	2	2	1	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:17976597C>T	uc010gqw.1	+	2	384	c.258C>T	c.(256-258)GAC>GAT	p.D86D	CECR2_uc010gqv.1_Translation_Start_Site|CECR2_uc002zml.2_Translation_Start_Site|CECR2_uc002zmm.1_5'Flank	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2	128					chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		TGGATGCAGACGATGTCTTCG	0.512													26	44					0	0	0.009535	0	0		T	17976597	T	T	17976597	2	4	212	1	0	0	0	0	0	0	0	1	3209	535	19	1		1	CECR2	22	17976597	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	375395	17976597	33327969	1521	105326											
TSSK2	23617	broad.mit.edu	37	chr22	19119916	19119916	+	Missense_Mutation	SNP	A	G	G	1	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	gaacgagaacaggatggaggAcaggctggccgagacctcca	13	3	15	10	2	0	2	0	0	0	2	1	8	1	5	3	5	2	1	3	5	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:19119916A>G	uc002zow.2	+	1	1596	c.1004A>G	c.(1003-1005)GAC>GGC	p.D335G	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	335					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					AGGATGGAGGACAGGCTGGCC	0.617													17	31					0	0	0.004007	0	0		G	19119916	G	G	19119916	3	3	212	1	0	0	0	0	1	0	0	0	16695	275	10	3	1006	3	TSSK2	22	19119916	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1143319	19119916	32184650	1522	105327											
GNB1L	54584	broad.mit.edu	37	chr22	19789618	19789618	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctgggagtcaaagtcaaggTccatgacgggctcctcatgg	9	9	13	10	1	4	1	3	1	1	0	6	2	6	2	2	4	0	1	2	4	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:19789618T>C	uc002zqe.1	-	6	1032	c.638A>G	c.(637-639)GAC>GGC	p.D213G	GNB1L_uc002zqd.1_Missense_Mutation_p.D69G|GNB1L_uc002zqf.1_Missense_Mutation_p.D213G	NM_053004	NP_443730	Q9BYB4	GNB1L_HUMAN	guanine nucleotide binding protein	213	WD 4.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	internal side of plasma membrane|intracellular				breast(1)	1	Colorectal(54;0.0993)					AAAGTCAAGGTCCATGACGGG	0.642													9	21					0	0	0.004482	0	0		C	19789618	C	C	19789618	3	2	212	1	0	0	0	0	1	0	0	0	6531	1667	58	3	353	3	GNB1L	22	19789618	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	669702	19789618	31514948	1523	105328											
ZDHHC8	29801	broad.mit.edu	37	chr22	20130500	20130500	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggggatcatgtggccctgcaGcccctgcgctctgagggggg	4	7	18	12	1	2	1	1	1	1	0	2	2	2	2	3	6	3	2	3	6	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:20130500G>T	uc002zrq.2	+	10	1453	c.1347G>T	c.(1345-1347)CAG>CAT	p.Q449H	ZDHHC8_uc002zrr.1_Missense_Mutation_p.Q449H|ZDHHC8_uc010gsa.2_Missense_Mutation_p.Q255H	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	449	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					TGGCCCTGCAGCCCCTGCGCT	0.697													5	14					8.12818e-05	8.44081e-05	0.001984	1	0		T	20130500	T	T	20130500	3	4	212	1	0	0	0	0	1	0	0	0	17646	962	34	5	1385	5	ZDHHC8	22	20130500	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	340882	20130500	31174066	1524	105329											
AIFM3	150209	broad.mit.edu	37	chr22	21322240	21322240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caggccactcgccatgggcgGctgcttctccaaacccaaac	9	6	9	17	2	1	0	0	0	1	0	3	0	1	0	4	3	3	2	4	3	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:21322240G>A	uc002ztj.2	+	2	226	c.8G>A	c.(7-9)GGC>GAC	p.G3D	AIFM3_uc002ztk.2_Missense_Mutation_p.G3D|AIFM3_uc002ztl.2_Missense_Mutation_p.G3D|AIFM3_uc011ahx.1_Missense_Mutation_p.A28T	NM_144704	NP_653305	Q96NN9	AIFM3_HUMAN	apoptosis-inducing factor,	3					activation of caspase activity by cytochrome c|cell redox homeostasis|electron transport chain|induction of apoptosis|mitochondrial depolarization|transport	endoplasmic reticulum|mitochondrial inner membrane	2 iron, 2 sulfur cluster binding|caspase activator activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity|protein binding			ovary(2)|lung(2)	4	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)			GCCATGGGCGGCTGCTTCTCC	0.502													19	25					0	0	0.012319	0	0		A	21322240	A	A	21322240	3	1	212	1	0	0	0	0	1	0	0	0	428	1203	42	2	10	2	AIFM3	22	21322240	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1191740	21322240	29982326	1525	105330											
THAP7	80764	broad.mit.edu	37	chr22	21354389	21354389	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcgccgcttccagagtaagGcgctgcccacctggtagctg	6	8	12	15	3	0	1	0	0	0	1	2	1	1	1	4	2	2	5	4	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:21354389G>A	uc002ztr.1	-	5	740	c.710C>T	c.(709-711)GCC>GTC	p.A237V	THAP7_uc002zts.1_Missense_Mutation_p.A237V|FLJ39582_uc002ztt.1_5'Flank|FLJ39582_uc002ztu.1_5'Flank|FLJ39582_uc002ztv.2_5'Flank	NM_001008695	NP_001008695	Q9BT49	THAP7_HUMAN	THAP domain containing 7 isoform 2	237					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck	C2H2 zinc finger domain binding|DNA binding|metal ion binding|protein N-terminus binding				0	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-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;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)			CCAGAGTAAGGCGCTGCCCAC	0.672													3	18					0	0	0.004672	0	0		A	21354389	A	A	21354389	3	1	212	1	0	0	0	0	1	0	0	0	15874	1203	42	2	223	2	THAP7	22	21354389	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	32149	21354389	29950177	1526	105331											
HIC2	23119	broad.mit.edu	37	chr22	21800451	21800451	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcagcggccatgccagcGcccactacatgtaccggcag	8	4	14	15	3	0	0	0	0	0	0	0	0	0	0	4	4	5	3	4	4	2	2	rs137951777		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:21800451G>A	uc002zur.3	+	3	1497	c.1267G>A	c.(1267-1269)GCC>ACC	p.A423T	HIC2_uc002zus.3_Missense_Mutation_p.A423T	NM_015094	NP_055909	Q96JB3	HIC2_HUMAN	hypermethylated in cancer 2	423					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	focal adhesion|nucleus	DNA binding|protein C-terminus binding|zinc ion binding			skin(1)	1	Melanoma(16;0.000465)|Ovarian(15;0.00438)|Colorectal(54;0.0968)	Lung SC(17;0.0262)|all_lung(157;0.205)				CCATGCCAGCGCCCACTACAT	0.642													33	49					0	0	0.003271	0	0		A	21800451	A	A	21800451	3	1	212	1	0	0	0	0	1	0	0	0	7118	1087	38	1	1273	1	HIC2	22	21800451	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	446062	21800451	29504115	1527	105332											
PPM1F	9647	broad.mit.edu	37	chr22	22285617	22285617	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccaggcgacgtgcagggtcGctcctgcaatgagcgcacac	8	5	14	14	4	0	1	0	1	0	0	2	2	1	1	2	2	3	4	2	2	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:22285617G>A	uc002zvp.1	-	6	908	c.794C>T	c.(793-795)GCG>GTG	p.A265V	PPM1F_uc011aik.1_Missense_Mutation_p.A161V|PPM1F_uc002zvq.2_Missense_Mutation_p.A265V	NM_014634	NP_055449	P49593	PPM1F_HUMAN	protein phosphatase 1F	265					apoptosis|protein dephosphorylation	protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity			ovary(2)|large_intestine(1)|breast(1)|kidney(1)	5	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.155)		GTGCAGGGTCGCTCCTGCAAT	0.453													8	52					0	0	0.004482	0	0		A	22285617	A	A	22285617	3	1	212	1	0	0	0	0	1	0	0	0	12361	1087	38	1	582	1	PPM1F	22	22285617	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	485166	22285617	29018949	1528	105333											
C22orf43	51233	broad.mit.edu	37	chr22	23968220	23968220	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcagaaattttaaactcaggCggtcctcagggggacctaaa	13	8	11	9	1	2	1	2	0	0	1	3	2	3	2	2	4	1	1	2	4	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:23968220C>T	uc002zxf.2	-	2	501	c.224G>A	c.(223-225)CGC>CAC	p.R75H		NM_016449	NP_057533	Q6PGQ1	CV043_HUMAN	hypothetical protein LOC51233	75										skin(1)	1						TAAACTCAGGCGGTCCTCAGG	0.498													16	57					0	0	0.00499	0	0		T	23968220	T	T	23968220	3	4	212	1	0	0	0	0	1	0	0	0	2153	768	27	1	509	1	C22orf43	22	23968220	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1682603	23968220	27336346	1529	105334											
SLC2A11	66035	broad.mit.edu	37	chr22	24219298	24219298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagctccgaggagctgtggCcatgagctcagccatcttta	8	9	13	11	1	2	1	1	1	1	0	3	4	3	3	3	3	4	3	3	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:24219298C>T	uc002zyn.3	+	5	575	c.476C>T	c.(475-477)GCC>GTC	p.A159V	SLC2A11_uc002zyl.1_Missense_Mutation_p.A166V|SLC2A11_uc002zym.3_Missense_Mutation_p.A166V|SLC2A11_uc002zyo.3_RNA|SLC2A11_uc011ajc.1_Missense_Mutation_p.A166V|SLC2A11_uc011ajd.1_Missense_Mutation_p.A153V|SLC2A11_uc002zyp.3_Missense_Mutation_p.A162V	NM_001024938	NP_001020109	Q9BYW1	GTR11_HUMAN	glucose transporter protein 10 isoform c	159	Helical; Name=5; (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity			ovary(1)	1						GGAGCTGTGGCCATGAGCTCA	0.597													18	86					0	0	0.008871	0	0		T	24219298	T	T	24219298	3	4	212	1	0	0	0	0	1	0	0	0	14565	739	26	2	574	2	SLC2A11	22	24219298	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	251078	24219298	27085268	1530	105335											
CABIN1	23523	broad.mit.edu	37	chr22	24483489	24483489	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aatgagctgaagagtgatggGcccatttggaagcatgccac	12	8	13	8	0	0	4	0	3	0	1	0	5	0	5	2	2	3	2	2	2	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:24483489G>A	uc002zzi.1	+	23	3475	c.3348G>A	c.(3346-3348)GGG>GGA	p.G1116G	CABIN1_uc002zzj.1_Silent_p.G1066G|CABIN1_uc002zzl.1_Silent_p.G1116G	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	1116	TPR 6.				cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AGAGTGATGGGCCCATTTGGA	0.557													24	56					0	0	0.00278	0	0		A	24483489	A	A	24483489	2	1	212	1	0	0	0	0	0	0	0	1	2531	1190	42	2		2	CABIN1	22	24483489	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	264191	24483489	26821077	1531	105336											
CABIN1	23523	broad.mit.edu	37	chr22	24573493	24573493	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaactgaggcctgagcCgagaagggatggggaggctc	10	4	20	7	1	0	3	0	2	0	1	1	7	0	6	2	7	2	1	2	7	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:24573493C>T	uc002zzi.1	+	36	6354	c.6227C>T	c.(6226-6228)CCG>CTG	p.P2076L	CABIN1_uc002zzj.1_Missense_Mutation_p.P1997L|CABIN1_uc002zzl.1_Missense_Mutation_p.P2076L|CABIN1_uc010gul.1_Missense_Mutation_p.P14L	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	2076					cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AGGCCTGAGCCGAGAAGGGAT	0.632													17	96					0	0	0.006122	0	0		T	24573493	T	T	24573493	3	4	212	1	0	0	0	0	1	0	0	0	2531	652	23	1	6365	1	CABIN1	22	24573493	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	90004	24573493	26731073	1532	105337											
SUSD2	56241	broad.mit.edu	37	chr22	24580178	24580178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttggcaatactacggcaccGccaacacctcaggcaacctc	11	6	8	16	2	1	0	1	0	0	0	2	0	1	0	4	3	4	4	4	3	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:24580178G>A	uc002zzn.1	+	4	558	c.514G>A	c.(514-516)GCC>ACC	p.A172T		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	172	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CTACGGCACCGCCAACACCTC	0.592													21	58					0	0	0.012319	0	0		A	24580178	A	A	24580178	3	1	212	1	0	0	0	0	1	0	0	0	15433	1087	38	1	528	1	SUSD2	22	24580178	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	6685	24580178	26724388	1533	105338											
GGT5	2687	broad.mit.edu	37	chr22	24628050	24628050	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgtcctccaccagcatctgGcccagcctccccgtgtagaa	8	8	8	17	1	1	1	0	0	1	1	4	1	4	1	7	1	2	2	7	1	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:24628050G>A	uc002zzo.3	-	5	1140	c.723C>T	c.(721-723)GGC>GGT	p.G241G	GGT5_uc002zzp.3_Silent_p.G241G|GGT5_uc002zzr.3_Silent_p.G209G|GGT5_uc002zzq.3_Silent_p.G209G|GGT5_uc011ajm.1_Silent_p.G164G|GGT5_uc011ajn.1_Intron	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b	241	Extracellular (Potential).				glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						CCAGCATCTGGCCCAGCCTCC	0.642													8	31					0	0	0.013537	0	0		A	24628050	A	A	24628050	2	1	212	1	0	0	0	0	0	0	0	1	6377	1190	42	2		2	GGT5	22	24628050	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	47872	24628050	26676516	1534	105339											
SGSM1	129049	broad.mit.edu	37	chr22	25297812	25297812	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcctatagccagagctgctgGatctgtacacggtgaacctg	9	9	12	11	1	1	2	0	1	1	1	1	3	1	3	3	2	5	3	3	2	4	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:25297812G>A	uc003abg.2	+	21	2945	c.2788G>A	c.(2788-2790)GAT>AAT	p.D930N	SGSM1_uc003abh.2_Missense_Mutation_p.D869N|SGSM1_uc010guu.1_Missense_Mutation_p.D875N|SGSM1_uc003abj.2_Missense_Mutation_p.D814N|SGSM1_uc003abi.1_Missense_Mutation_p.D850N	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	930	Rab-GAP TBC.					Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						AGAGCTGCTGGATCTGTACAC	0.542													3	16					0	0	0.000602	0	0		A	25297812	A	A	25297812	3	1	212	1	0	0	0	0	1	0	0	0	14247	1174	41	4	2870	4	SGSM1	22	25297812	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	669762	25297812	26006754	1535	105340											
MYO18B	84700	broad.mit.edu	37	chr22	26423175	26423175	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tttccagaaccgccagtttgCccacctgatggaggaacctc	9	9	9	14	1	0	2	0	1	0	1	2	4	1	4	6	2	3	1	6	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:26423175C>A	uc003abz.1	+	43	7485	c.7235C>A	c.(7234-7236)GCC>GAC	p.A2412D	MYO18B_uc003aca.1_Missense_Mutation_p.A2293D|MYO18B_uc010guy.1_Missense_Mutation_p.A2294D|MYO18B_uc010guz.1_Missense_Mutation_p.A2292D|MYO18B_uc011aka.1_Missense_Mutation_p.A1566D|MYO18B_uc011akb.1_Missense_Mutation_p.A1925D|MYO18B_uc010gva.1_Missense_Mutation_p.A395D|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2412						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CGCCAGTTTGCCCACCTGATG	0.572													29	123					1.5548e-18	1.78973e-18	0.005443	1	0		A	26423175	A	A	26423175	3	1	212	1	0	0	0	0	1	0	0	0	10084	739	26	5	7401	5	MYO18B	22	26423175	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1125363	26423175	24881391	1536	105341											
CRYBB1	1414	broad.mit.edu	37	chr22	26995521	26995521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccactgcttgtcacgcaggCgacgcagggactgcatctgt	7	8	13	13	3	2	0	1	0	1	0	2	2	2	1	1	2	2	4	1	2	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:26995521C>T	uc003acy.1	-	6	762	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_001887	NP_001878	P53674	CRBB1_HUMAN	crystallin, beta B1	231	Beta/gamma crystallin 'Greek key' 4.				visual perception		structural constituent of eye lens			ovary(1)	1						GTCACGCAGGCGACGCAGGGA	0.627													17	67					0	0	0.00499	0	0		T	26995521	T	T	26995521	3	4	212	1	0	0	0	0	1	0	0	0	3913	768	27	1	70	1	CRYBB1	22	26995521	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	572346	26995521	24309045	1537	105342											
RHBDD3	25807	broad.mit.edu	37	chr22	29656789	29656789	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccaaggtcctgcacaagacGccctcctgcagcacctgcag	9	5	10	17	1	0	1	0	0	0	1	2	1	2	1	5	1	4	4	5	1	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:29656789G>A	uc003aeq.1	-	5	969	c.597C>T	c.(595-597)GGC>GGT	p.G199G	RHBDD3_uc003aer.1_RNA	NM_012265	NP_036397	Q9Y3P4	RHBD3_HUMAN	rhomboid domain containing 3	199						integral to membrane	serine-type endopeptidase activity			ovary(1)	1						TGCACAAGACGCCCTCCTGCA	0.692													11	17					0	0	0.010729	0	0		A	29656789	A	A	29656789	2	1	212	1	0	0	0	0	0	0	0	1	13343	1074	38	1		1	RHBDD3	22	29656789	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2661268	29656789	21647777	1538	105343											
AP1B1	162	broad.mit.edu	37	chr22	29737717	29737717	+	Silent	SNP	G	T	T	0	0	1	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	agcaggcgccagtagatgtaGccacggtcccgcaggtctgg	8	6	15	12	3	1	1	0	0	1	1	2	1	2	1	3	4	2	4	3	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:29737717G>T	uc003afj.2	-	13	1753	c.1569C>A	c.(1567-1569)GGC>GGA	p.G523G	AP1B1_uc003afi.2_Silent_p.G523G|AP1B1_uc003afk.2_Silent_p.G523G|AP1B1_uc003afl.2_Silent_p.G523G|AP1B1_uc011ako.1_Silent_p.G76G	NM_001127	NP_001118	Q10567	AP1B1_HUMAN	adaptor-related protein complex 1 beta 1 subunit	523					endocytosis|intracellular protein transport|post-Golgi vesicle-mediated transport|regulation of defense response to virus by virus|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding|protein transporter activity			ovary(1)|skin(1)	2						AGTAGATGTAGCCACGGTCCC	0.597													10	62					0.000151284	0.000156837	0.001855	1	0		T	29737717	T	T	29737717	2	4	212	1	0	0	0	0	0	0	0	1	731	958	34	5		5	AP1B1	22	29737717	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	80928	29737717	21566849	1539	105344											
MTMR3	8897	broad.mit.edu	37	chr22	30415613	30415613	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagctgagcagcctggctggCcctggagaggatcccctttc	6	8	14	13	0	0	2	0	1	0	1	2	5	1	3	4	4	3	3	4	4	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:30415613C>T	uc003agv.3	+	17	2293	c.1965C>T	c.(1963-1965)GGC>GGT	p.G655G	MTMR3_uc003agu.3_Silent_p.G655G|MTMR3_uc003agw.3_Silent_p.G655G	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	655					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			GCCTGGCTGGCCCTGGAGAGG	0.662													25	133					0	0	0.00333	0	0		T	30415613	T	T	30415613	2	4	212	1	0	0	0	0	0	0	0	1	9963	726	26	2		2	MTMR3	22	30415613	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	677896	30415613	20888953	1540	105345											
TBC1D10A	83874	broad.mit.edu	37	chr22	30688804	30688804	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagctgaatgaggtgttcgcGctcaatctggcgctctgtca	7	11	12	11	3	4	2	2	2	2	0	5	2	4	2	0	2	1	4	0	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:30688804G>A	uc011akt.1	-	11	1111	c.1087C>T	c.(1087-1089)CGC>TGC	p.R363C	GATSL3_uc003ahf.2_RNA|GATSL3_uc003ahg.2_Intron|GATSL3_uc003ahh.2_Intron|GATSL3_uc010gvq.2_Intron|GATSL3_uc003ahi.2_Missense_Mutation_p.R221C|TBC1D10A_uc003ahj.3_Missense_Mutation_p.R275C|TBC1D10A_uc010gvu.2_Missense_Mutation_p.R370C|TBC1D10A_uc003ahk.3_Missense_Mutation_p.R363C	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	363						intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						AGGTGTTCGCGCTCAATCTGG	0.637													11	50					0	0	0.010729	0	0		A	30688804	A	A	30688804	3	1	212	1	0	0	0	0	1	0	0	0	15623	1087	38	1	443	1	TBC1D10A	22	30688804	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	273191	30688804	20615762	1541	105346											
SMTN	6525	broad.mit.edu	37	chr22	31487683	31487683	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgacactggggctgcgggcGcccccgaccctactcagcac	6	5	12	18	3	1	1	1	1	0	0	1	2	1	1	3	3	3	2	3	3	1	1	rs141823576		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:31487683G>A	uc003ajl.1	+	11	1700	c.1482G>A	c.(1480-1482)GCG>GCA	p.A494A	SMTN_uc003ajk.1_Silent_p.A494A|SMTN_uc003ajm.1_Silent_p.A494A|SMTN_uc011ale.1_Silent_p.A548A|SMTN_uc011alf.1_Silent_p.A550A|SMTN_uc003ajn.1_Silent_p.A486A|SMTN_uc011alg.1_Intron|SMTN_uc003ajo.1_5'Flank|SMTN_uc011alh.1_5'Flank|SMTN_uc010gwe.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	494					muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						GGCTGCGGGCGCCCCCGACCC	0.622													5	47					0	0	0.001168	0	0		A	31487683	A	A	31487683	2	1	212	1	0	0	0	0	0	0	0	1	14839	1074	38	1		1	SMTN	22	31487683	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	798879	31487683	19816883	1542	105347											
HMGXB4	10042	broad.mit.edu	37	chr22	35661161	35661161	+	Silent	SNP	A	G	G	1	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	tcatcctcagacgcacattcAtctcctggccctgaaggctg	8	10	8	15	1	4	2	3	1	1	1	6	2	5	2	3	2	0	2	3	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:35661161A>G	uc003anl.2	+	5	954	c.780A>G	c.(778-780)TCA>TCG	p.S260S	HMGXB4_uc011amh.1_Silent_p.S151S|HMGXB4_uc003ank.2_Silent_p.S151S	NM_001003681	NP_001003681	Q9UGU5	HMGX4_HUMAN	high-mobility group protein 2-like 1	260					endosome to lysosome transport|negative regulation of Wnt receptor signaling pathway|Wnt receptor signaling pathway	NURF complex	DNA binding			breast(1)|skin(1)	2						ACGCACATTCATCTCCTGGCC	0.517													19	92					0	0	0.007413	0	0		G	35661161	G	G	35661161	2	3	212	1	0	0	0	0	0	0	0	1	7255	204	8	3		3	HMGXB4	22	35661161	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4173478	35661161	15643405	1543	105348											
MPST	4357	broad.mit.edu	37	chr22	37425350	37425350	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagccctgaggagatccGccatctgttccaggagaaga	12	6	13	10	1	1	5	0	1	1	4	3	8	3	5	4	2	1	1	4	2	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:37425350G>A	uc003aqj.2	+	4	1101	c.689G>A	c.(688-690)CGC>CAC	p.R230H	MPST_uc003aqi.1_3'UTR|MPST_uc003aqm.2_Missense_Mutation_p.R230H|MPST_uc011amu.1_Missense_Mutation_p.R250H|MPST_uc003aql.2_Missense_Mutation_p.R230H|MPST_uc003aqn.2_3'UTR|MPST_uc003aqo.2_3'UTR	NM_001130517	NP_001123989	P25325	THTM_HUMAN	mercaptopyruvate sulfurtransferase isoform 2	230	Rhodanese 2.				cyanate catabolic process|response to toxin		3-mercaptopyruvate sulfurtransferase activity|thiosulfate sulfurtransferase activity				0						GAGGAGATCCGCCATCTGTTC	0.602													13	58					0	0	0.00245	0	0		A	37425350	A	A	37425350	3	1	212	1	0	0	0	0	1	0	0	0	9762	1087	38	1	759	1	MPST	22	37425350	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1764189	37425350	13879216	1544	105349											
TMPRSS6	164656	broad.mit.edu	37	chr22	37466617	37466617	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaccccgaacctggaggctgGcctgccatggccactcaccc	7	5	11	18	1	1	0	1	0	0	0	1	3	1	1	7	4	2	1	7	4	1	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:37466617G>T	uc003aqs.1	-	15	1889	c.1775C>A	c.(1774-1776)GCC>GAC	p.A592D	TMPRSS6_uc003aqt.1_Missense_Mutation_p.A583D	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6	592	Peptidase S1.|Extracellular (Potential).				angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						CTGGAGGCTGGCCTGCCATGG	0.582													20	76					1.73308e-25	2.02413e-25	0.012319	1	0		T	37466617	T	T	37466617	3	4	212	1	0	0	0	0	1	0	0	0	16276	1203	42	5	676	5	TMPRSS6	22	37466617	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	41267	37466617	13837949	1545	105350											
SOX10	6663	broad.mit.edu	37	chr22	38369822	38369822	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggggcccctggggccccgCggtctctgtcttcacctggg	1	9	16	15	2	3	0	1	0	2	0	4	0	3	0	5	6	0	0	5	6	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:38369822C>T	uc003aun.1	-	4	1359	c.1081G>A	c.(1081-1083)GCG>ACG	p.A361T	POLR2F_uc003aum.2_Intron|SOX10_uc003auo.1_Missense_Mutation_p.A361T	NM_006941	NP_008872	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	361						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity				0	Melanoma(58;0.045)					TGGGGCCCCGCGGTCTCTGTC	0.657													10	48					0	0	0.008291	0	0		T	38369822	T	T	38369822	3	4	212	1	0	0	0	0	1	0	0	0	14966	768	27	1	323	1	SOX10	22	38369822	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	903205	38369822	12934744	1546	105351											
PLA2G6	8398	broad.mit.edu	37	chr22	38528935	38528935	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggcacagtcgaagcggttgCgcatcaccgccacgtgcagg	8	6	14	13	5	1	0	1	0	0	0	2	1	1	0	2	3	3	4	2	3	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:38528935C>T	uc003auy.1	-	7	1116	c.980G>A	c.(979-981)CGC>CAC	p.R327H	PLA2G6_uc003auz.1_Missense_Mutation_p.R327H|PLA2G6_uc003ava.1_Missense_Mutation_p.R327H|PLA2G6_uc003avb.2_Missense_Mutation_p.R327H|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.R292H	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	327	ANK 6.				cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	GAAGCGGTTGCGCATCACCGC	0.682													5	3					0	0	0.001168	0	0		T	38528935	T	T	38528935	3	4	212	1	0	0	0	0	1	0	0	0	12027	768	27	1	1484	1	PLA2G6	22	38528935	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	159113	38528935	12775631	1547	105352											
SUN2	25777	broad.mit.edu	37	chr22	39134698	39134698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcggatgcgggcagagaggCggaccacggcgaagccttgt	8	4	19	10	5	0	1	0	0	0	1	0	5	0	3	2	6	2	1	2	6	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:39134698C>T	uc003awh.1	-	17	2125	c.1841G>A	c.(1840-1842)CGC>CAC	p.R614H	SUN2_uc011anz.1_Missense_Mutation_p.R649H|SUN2_uc011aoa.1_Missense_Mutation_p.R603H|SUN2_uc003awi.1_Missense_Mutation_p.R614H|SUN2_uc010gxq.1_Missense_Mutation_p.R635H|SUN2_uc010gxr.1_Missense_Mutation_p.R614H|SUN2_uc010gxs.1_Missense_Mutation_p.R614H	NM_015374	NP_056189	Q9UH99	SUN2_HUMAN	unc-84 homolog B	614	SUN.|Perinuclear space.				centrosome localization|cytoskeletal anchoring at nuclear membrane|mitotic spindle organization|nuclear envelope organization|nuclear matrix anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	endosome membrane|integral to membrane|nuclear inner membrane|SUN-KASH complex	lamin binding|microtubule binding			large_intestine(1)|skin(1)	2						GGCAGAGAGGCGGACCACGGC	0.632													59	85					0	0	0.01441	0	0		T	39134698	T	T	39134698	3	4	212	1	0	0	0	0	1	0	0	0	15417	768	27	1	324	1	SUN2	22	39134698	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	605763	39134698	12169868	1548	105353											
SMCR7L	54471	broad.mit.edu	37	chr22	39908309	39908309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttgaagaagtcacgactccGcatgtccctgcaggagaaac	12	7	10	12	2	1	3	1	1	0	2	3	5	3	3	2	1	2	2	2	1	3	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:39908309G>A	uc003axx.2	+	5	893	c.395G>A	c.(394-396)CGC>CAC	p.R132H	SMCR7L_uc003axw.2_Missense_Mutation_p.R132H|SMCR7L_uc010gxz.1_Intron|SMCR7L_uc003axy.2_Intron	NM_019008	NP_061881	Q9NQG6	SMC7L_HUMAN	hypothetical protein LOC54471	132						integral to membrane|mitochondrion				central_nervous_system(1)	1	Melanoma(58;0.04)					TCACGACTCCGCATGTCCCTG	0.592													32	40					0	0	0.009535	0	0		A	39908309	A	A	39908309	3	1	212	1	0	0	0	0	1	0	0	0	14816	1087	38	1	405	1	SMCR7L	22	39908309	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	773611	39908309	11396257	1549	105354											
SGSM3	27352	broad.mit.edu	37	chr22	40803271	40803271	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggaactggtggctgacctccGggaagccatcctgcgcgtgg	6	7	16	12	3	0	1	0	1	0	0	2	3	2	3	4	5	3	1	4	5	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:40803271G>T	uc003ayu.1	+	12	1516	c.1307G>T	c.(1306-1308)CGG>CTG	p.R436L	SGSM3_uc011aos.1_Missense_Mutation_p.R369L|SGSM3_uc011aot.1_Missense_Mutation_p.R373L|SGSM3_uc010gyd.1_Missense_Mutation_p.R479L	NM_015705	NP_056520	Q96HU1	SGSM3_HUMAN	small G protein signaling modulator 3	436	Potential.				cell cycle arrest|Rap protein signal transduction	cytoplasm	Rab GTPase activator activity|Rab GTPase binding			ovary(2)	2						GCTGACCTCCGGGAAGCCATC	0.622													25	74					1.1804e-14	1.33203e-14	0.003954	1	0		T	40803271	T	T	40803271	3	4	212	1	0	0	0	0	1	0	0	0	14249	1116	39	5	1349	5	SGSM3	22	40803271	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	894962	40803271	10501295	1550	105355											
RANGAP1	5905	broad.mit.edu	37	chr22	41652736	41652736	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttagcttgggcaggccgccGcggatggcatctgcaatggc	6	9	15	11	3	1	0	0	0	1	0	1	1	1	1	2	5	2	4	2	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:41652736G>A	uc003azs.2	-	7	2337	c.867C>T	c.(865-867)CGC>CGT	p.R289R	RANGAP1_uc003azt.2_Silent_p.R289R|RANGAP1_uc003azu.2_Silent_p.R289R|RANGAP1_uc011aoz.1_Silent_p.R234R	NM_002883	NP_002874	P46060	RAGP1_HUMAN	Ran GTPase activating protein 1	289					mitotic prometaphase|signal transduction	condensed chromosome kinetochore|cytosol|nuclear membrane|nuclear pore|soluble fraction|spindle pole	protein binding|Ran GTPase activator activity				0						GCAGGCCGCCGCGGATGGCAT	0.517													10	48					0	0	0.013537	0	0		A	41652736	A	A	41652736	2	1	212	1	0	0	0	0	0	0	0	1	13058	1074	38	1		1	RANGAP1	22	41652736	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	849465	41652736	9651830	1551	105356											
PMM1	5372	broad.mit.edu	37	chr22	41980050	41980050	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcatgccattccggaactcGatgaaggttccactggtggt	9	10	12	10	2	0	1	0	1	0	0	3	3	2	2	3	4	3	2	3	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:41980050G>A	uc003bal.2	-	5	449	c.387C>T	c.(385-387)ATC>ATT	p.I129I		NM_002676	NP_002667	Q92871	PMM1_HUMAN	phosphomannomutase 1	129					dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	metal ion binding|phosphomannomutase activity			ovary(1)	1						TCCGGAACTCGATGAAGGTTC	0.582													22	113					0	0	0.005443	0	0		A	41980050	A	A	41980050	2	1	212	1	0	0	0	0	0	0	0	1	12155	1048	37	1		1	PMM1	22	41980050	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	327314	41980050	9324516	1552	105357											
ARFGAP3	26286	broad.mit.edu	37	chr22	43231437	43231437	+	Silent	SNP	A	G	G	1	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	tccctatagagctgagcagcAcgactgttgtacttggcatt	9	12	10	10	1	0	2	0	1	0	1	1	3	1	2	1	1	4	6	1	1	3	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:43231437A>G	uc003bdd.2	-	4	544	c.324T>C	c.(322-324)CGT>CGC	p.R108R	ARFGAP3_uc010gzf.2_Intron|ARFGAP3_uc011apu.1_Intron	NM_014570	NP_055385	Q9NP61	ARFG3_HUMAN	ADP-ribosylation factor GTPase activating	108	Arf-GAP.				intracellular protein transport|protein secretion|regulation of ARF GTPase activity|vesicle-mediated transport	cytosol|Golgi membrane	ARF GTPase activator activity|protein transporter activity|zinc ion binding			breast(1)	1						GCTGAGCAGCACGACTGTTGT	0.433													8	71					0	0	0.006214	0	0		G	43231437	G	G	43231437	2	3	212	1	0	0	0	0	0	0	0	1	851	146	6	3		3	ARFGAP3	22	43231437	Silent	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1251387	43231437	8073129	1553	105358											
SAMM50	25813	broad.mit.edu	37	chr22	44368179	44368179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aactgaattgaggagattaaCgggcagttataacaccatgg	15	9	11	6	1	0	3	0	2	0	1	0	4	0	3	1	3	3	2	1	3	5	4	rs150984629	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:44368179C>T	uc003bej.2	+	5	583	c.386C>T	c.(385-387)ACG>ATG	p.T129M	SAMM50_uc011aqd.1_Intron|SAMM50_uc003bek.2_5'Flank	NM_015380	NP_056195	Q9Y512	SAM50_HUMAN	sorting and assembly machinery component 50	129					protein import into mitochondrial outer membrane	integral to membrane|integral to membrane of membrane fraction|mitochondrial sorting and assembly machinery complex	protein binding			skin(1)	1		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				AGGAGATTAACGGGCAGTTAT	0.363													12	63					0	0	0.00499	0	0		T	44368179	T	T	44368179	3	4	212	1	0	0	0	0	1	0	0	0	13854	536	19	1	404	1	SAMM50	22	44368179	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1136742	44368179	6936387	1554	105359											
FBLN1	2192	broad.mit.edu	37	chr22	45946477	45946477	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttcgagtgccctgagaactAccgccgctccgcagccacgt	7	7	10	17	5	0	1	0	1	0	1	2	3	1	1	5	0	4	2	5	0	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:45946477A>G	uc003bgj.1	+	14	1826	c.1679A>G	c.(1678-1680)TAC>TGC	p.Y560C	FBLN1_uc003bgg.1_Missense_Mutation_p.Y560C|FBLN1_uc003bgh.2_Missense_Mutation_p.Y560C|FBLN1_uc010gzz.2_Missense_Mutation_p.Y598C|FBLN1_uc003bgi.1_Missense_Mutation_p.Y560C	NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	560	EGF-like 9; calcium-binding.				interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		CCTGAGAACTACCGCCGCTCC	0.602													10	119					0	0	0.006214	0	0		G	45946477	G	G	45946477	3	3	212	1	0	0	0	0	1	0	0	0	5712	391	14	3	1733	3	FBLN1	22	45946477	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1578298	45946477	5358089	1555	105360											
FBLN1	2192	broad.mit.edu	37	chr22	45970457	45970457	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgccccaacgatgtcacatgCgtgttcgaccccgtgcacac	8	7	9	17	5	1	0	1	0	0	0	2	2	1	0	4	0	3	2	4	0	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:45970457C>T	uc003bgj.1	+	15	1911	c.1764C>T	c.(1762-1764)TGC>TGT	p.C588C		NM_006486	NP_006477	P23142	FBLN1_HUMAN	fibulin 1 isoform D	588					interspecies interaction between organisms	extracellular space|soluble fraction	calcium ion binding|extracellular matrix structural constituent|protein binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0182)		ATGTCACATGCGTGTTCGACC	0.637													13	52					0	0	0.00245	0	0		T	45970457	T	T	45970457	2	4	212	1	0	0	0	0	0	0	0	1	5712	776	27	1		1	FBLN1	22	45970457	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	23980	45970457	5334109	1556	105361											
PKDREJ	10343	broad.mit.edu	37	chr22	46654556	46654556	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggagatccttttgggaagggTgctgttcggaatggacatcc	8	11	15	7	1	0	1	0	0	0	1	3	5	2	4	2	5	1	2	2	5	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:46654556T>C	uc003bhh.2	-	1	4664	c.4664A>G	c.(4663-4665)CAC>CGC	p.H1555R		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	1555	Cytoplasmic (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)		TTGGGAAGGGTGCTGTTCGGA	0.458													52	170					0	0	0.01441	0	0		C	46654556	C	C	46654556	3	2	212	1	0	0	0	0	1	0	0	0	11989	1696	59	3	2101	3	PKDREJ	22	46654556	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	684099	46654556	4650010	1557	105362											
GTSE1	51512	broad.mit.edu	37	chr22	46724706	46724706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttttctccagaggaaagcGattctactttctccaaaagt	12	13	6	10	1	3	1	0	0	3	1	5	3	3	2	2	1	2	0	2	1	4	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:46724706G>A	uc011aqy.1	+	10	2058	c.1846G>A	c.(1846-1848)GAT>AAT	p.D616N	GTSE1_uc011aqz.1_Missense_Mutation_p.D463N|GTSE1_uc003bhm.1_Missense_Mutation_p.D241N|GTSE1_uc003bhn.2_5'Flank|uc011ara.1_5'Flank|uc003bho.3_5'Flank	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	597					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)		AGAGGAAAGCGATTCTACTTT	0.562													46	175					0	0	0.01441	0	0		A	46724706	A	A	46724706	3	1	212	1	0	0	0	0	1	0	0	0	6901	1058	37	1	1880	1	GTSE1	22	46724706	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	70150	46724706	4579860	1558	105363											
CELSR1	9620	broad.mit.edu	37	chr22	46773146	46773146	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggtgacaatcttcagaggcaGgacctccccgttctatgggc	8	9	12	12	1	3	2	1	1	2	1	4	3	4	3	3	4	0	2	3	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:46773146G>A	uc003bhw.1	-	24	7396	c.7396C>T	c.(7396-7398)CTG>TTG	p.L2466L	CELSR1_uc011arc.1_Silent_p.L787L	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2466	Extracellular (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		TTCAGAGGCAGGACCTCCCCG	0.557													8	45					0	0	0.004482	0	0		A	46773146	A	A	46773146	2	1	212	1	0	0	0	0	0	0	0	1	3224	991	35	4		4	CELSR1	22	46773146	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	48440	46773146	4531420	1559	105364											
CELSR1	9620	broad.mit.edu	37	chr22	46805670	46805670	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accttgctcacagttcttccCgccgaatcggagtggacact	8	10	9	14	3	2	0	1	0	1	0	4	3	3	2	3	2	1	2	3	2	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:46805670C>T	uc003bhw.1	-	8	5041	c.5041G>A	c.(5041-5043)GGG>AGG	p.G1681R	CELSR1_uc011arc.1_5'Flank	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1681	Extracellular (Potential).|EGF-like 4; calcium-binding.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		CAGTTCTTCCCGCCGAATCGG	0.612													90	70					0	0	0.01441	0	0		T	46805670	T	T	46805670	3	4	212	1	0	0	0	0	1	0	0	0	3224	652	23	1	4115	1	CELSR1	22	46805670	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	32524	46805670	4498896	1560	105365											
FAM19A5	25817	broad.mit.edu	37	chr22	49103583	49103583	+	Missense_Mutation	SNP	A	G	G	1	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	gcttccgtgtctggagggggAaggctgcgacttgttaatca	7	11	15	8	2	2	0	1	0	1	0	3	3	3	2	1	4	1	3	1	4	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:49103583A>G	uc003bim.3	+	3	434	c.317A>G	c.(316-318)GAA>GGA	p.E106G	FAM19A5_uc003bio.3_Missense_Mutation_p.E99G	NM_001082967	NP_001076436	Q7Z5A7	F19A5_HUMAN	family with sequence similarity 19 (chemokine	106						extracellular region|integral to membrane				large_intestine(1)	1		all_cancers(38;2.95e-11)|all_epithelial(38;3.07e-10)|all_lung(38;2.89e-05)|Breast(42;0.000396)|Lung NSC(38;0.000471)|Ovarian(80;0.00934)|Lung SC(80;0.195)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0227)|BRCA - Breast invasive adenocarcinoma(115;0.119)		CTGGAGGGGGAAGGCTGCGAC	0.567													8	115					0	0	0.006214	0	0		G	49103583	G	G	49103583	3	3	212	1	0	0	0	0	1	0	0	0	5546	246	9	3	422	3	FAM19A5	22	49103583	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	2297913	49103583	2200983	1561	105366											
BRD1	23774	broad.mit.edu	37	chr22	50192336	50192336	+	Splice_Site	SNP	T	G	G	0	1	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	cgacctgctccaccttcaccTgggggggcccagcagagcct	6	6	12	17	1	1	1	1	0	0	1	2	2	2	1	6	3	3	2	6	3	0	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:50192336T>G	uc003biv.2	-	4	2144	c.1657_splice	c.e4-1	p.V553_splice	BRD1_uc011arf.1_Splice_Site_p.V148_splice|BRD1_uc011arg.1_Splice_Site_p.V607_splice|BRD1_uc011arh.1_Splice_Site_p.V553_splice|BRD1_uc003biu.3_Splice_Site_p.V553_splice	NM_014577	NP_055392	O95696	BRD1_HUMAN	bromodomain containing protein 1						histone H3 acetylation	MOZ/MORF histone acetyltransferase complex	zinc ion binding			pancreas(1)	1		all_cancers(38;6.11e-10)|all_epithelial(38;8.06e-09)|all_lung(38;6.64e-05)|Lung NSC(38;0.0011)|Breast(42;0.00235)|Ovarian(80;0.0139)|Lung SC(80;0.164)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0369)|BRCA - Breast invasive adenocarcinoma(115;0.21)		CACCTTCACCTGGGGGGGCCC	0.687													4	17					0	0	0.000602	0	0		G	50192336	G	G	50192336	5	3	212	1	0	0	0	0	0	0	1	0	1504	1594	55	5	1557	5	BRD1	22	50192336	Splice_Site	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1088753	50192336	1112230	1562	105367											
PANX2	56666	broad.mit.edu	37	chr22	50615855	50615855	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgctgatcctgctgctgagCgccgtgcccatctcctacct	4	11	10	16	2	1	2	0	2	1	0	3	2	2	2	5	0	6	3	5	0	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:50615855C>T	uc003bjn.3	+	2	714	c.714C>T	c.(712-714)AGC>AGT	p.S238S	PANX2_uc003bjp.3_Silent_p.S104S|PANX2_uc003bjo.3_Silent_p.S238S	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	238	Helical; (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		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)		TGCTGCTGAGCGCCGTGCCCA	0.677													9	11					0	0	0.008291	0	0		T	50615855	T	T	50615855	2	4	212	1	0	0	0	0	0	0	0	1	11440	767	27	1		1	PANX2	22	50615855	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	423519	50615855	688711	1563	105368											
SELO	83642	broad.mit.edu	37	chr22	50649302	50649302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagctggaggaagacggggCgctggtgtccaagctcctgg	7	6	19	9	2	0	1	0	0	0	1	2	4	2	4	2	7	2	3	2	7	2	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:50649302C>T	uc011arr.1	+	5	1371	c.1313C>T	c.(1312-1314)GCG>GTG	p.A438V	SELO_uc010hap.2_Missense_Mutation_p.A249V|SELO_uc003bjy.2_Missense_Mutation_p.A118V|SELO_uc003bjz.2_Missense_Mutation_p.A118V	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	438											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		GAAGACGGGGCGCTGGTGTCC	0.617											OREG0026676	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	25	213					0	0	0.008361	0	0		T	50649302	T	T	50649302	3	4	212	1	0	0	0	0	1	0	0	0	14043	768	27	1	1331	1	SELO	22	50649302	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	33447	50649302	655264	1564	105369											
TUBGCP6	85378	broad.mit.edu	37	chr22	50657578	50657578	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccgcagtgcctcatagtgCgcctccaggtgcagctccac	6	8	11	16	2	1	0	1	0	0	0	3	0	3	0	5	1	5	3	5	1	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:50657578C>T	uc003bkb.1	-	20	5057	c.4545G>A	c.(4543-4545)GCG>GCA	p.A1515A	TUBGCP6_uc003bka.1_Silent_p.A602A|TUBGCP6_uc010har.1_Silent_p.A1507A|TUBGCP6_uc010has.1_RNA	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1515					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		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)		CCTCATAGTGCGCCTCCAGGT	0.647													12	19					0	0	0.001855	0	0		T	50657578	T	T	50657578	2	4	212	1	0	0	0	0	0	0	0	1	16796	755	27	1		1	TUBGCP6	22	50657578	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8276	50657578	646988	1565	105370											
TUBGCP6	85378	broad.mit.edu	37	chr22	50659740	50659740	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtgggctggctgctcccCtcctccagagcagcacgcct	4	9	11	17	1	1	1	0	0	1	1	4	1	4	1	5	2	3	5	5	2	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:50659740C>A	uc003bkb.1	-	16	3560	c.3048G>T	c.(3046-3048)GAG>GAT	p.E1016D	TUBGCP6_uc003bka.1_Missense_Mutation_p.E103D|TUBGCP6_uc010har.1_Missense_Mutation_p.E1008D|TUBGCP6_uc010has.1_RNA|TUBGCP6_uc010hat.1_Missense_Mutation_p.E212D	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	1016					G2/M transition of mitotic cell cycle|microtubule nucleation	centrosome|cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		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)		GGCTGCTCCCCTCCTCCAGAG	0.652													13	56					7.03913e-09	7.58441e-09	0.013537	1	0		A	50659740	A	A	50659740	3	1	212	1	0	0	0	0	1	0	0	0	16796	680	24	5	2451	5	TUBGCP6	22	50659740	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2162	50659740	644826	1566	105371											
KLHDC7B	113730	broad.mit.edu	37	chr22	50988099	50988099	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtaccgcttcgacctgctgCggggcgtgggcgccgccgtg	2	8	17	14	7	0	0	0	0	0	0	1	1	0	0	4	3	3	3	4	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:50988099C>T	uc003bmi.2	+	1	1638	c.1504C>T	c.(1504-1506)CGG>TGG	p.R502W		NM_138433	NP_612442	Q96G42	KLD7B_HUMAN	kelch domain containing 7B	502	Kelch 5.									central_nervous_system(1)	1		all_cancers(38;1.53e-10)|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)		OV - Ovarian serous cystadenocarcinoma(4;7.49e-69)|all cancers(3;9.79e-66)|Epithelial(4;1.3e-63)|GBM - Glioblastoma multiforme(4;0.000399)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		CGACCTGCTGCGGGGCGTGGG	0.697													28	96					0	0	0.009535	0	0		T	50988099	T	T	50988099	3	4	212	1	0	0	0	0	1	0	0	0	8377	759	27	1	1506	1	KLHDC7B	22	50988099	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	328359	50988099	316467	1567	105372											
ARSA	410	broad.mit.edu	37	chr22	51065640	51065641	+	Frame_Shift_Ins	INS	-	G	G																															aaatcgatggaagccctgatINSgggggggcaggaaggccccc																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chr22:51065640_51065641insG	uc003bnb.3	-	3	665_666	c.412_413insC	c.(412-414)CATfs	p.H138fs	ARSA_uc003bna.3_Frame_Shift_Ins_p.H54fs|ARSA_uc003bnc.3_Frame_Shift_Ins_p.H138fs|ARSA_uc003bnd.3_Frame_Shift_Ins_p.H138fs|ARSA_uc003bmz.3_Frame_Shift_Ins_p.H138fs|ARSA_uc010hbf.2_Frame_Shift_Ins_p.H138fs	NM_001085426	NP_001078895	P15289	ARSA_HUMAN	arylsulfatase A isoform a precursor	138						lysosome	arylsulfatase activity|calcium ion binding|cerebroside-sulfatase activity			pancreas(1)|skin(1)	2		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Micafungin(DB01141)	GAAGCCCTGATGGGGGGGCAGG	0.673													14	23	---	---	---	---						.	G	51065641	G	G	51065640	7	5	212	1	0	1	1	0	0	0	0	0	988	1464	51	0	1138	0	ARSA	22	51065640	Frame_Shift_Ins	INS	-	TCGA-HU-A4GU-01A-11D-A25D-08	77541	51065640	238926	1568	105373											
NLGN4X	57502	broad.mit.edu	37	chrX	5810908	5810908	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaatttgtactgttttgtcCtccactgaaggtgttaaaag	11	16	8	6	0	0	1	0	1	0	0	2	1	2	1	2	1	1	3	2	1	6	6			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:5810908C>T	uc010ndh.2	-	6	2902	c.2401G>A	c.(2401-2403)GGA>AGA	p.G801R	NLGN4X_uc004crp.2_Missense_Mutation_p.G821R|NLGN4X_uc004crq.2_Missense_Mutation_p.G801R|NLGN4X_uc010ndi.2_Missense_Mutation_p.G838R|NLGN4X_uc004crr.2_Missense_Mutation_p.G801R|NLGN4X_uc010ndj.2_Missense_Mutation_p.G801R	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	801	Cytoplasmic (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						CTGTTTTGTCCTCCACTGAAG	0.488													20	8					0	0	0.008871	0	0		T	5810908	T	T	5810908	3	4	212	1	0	0	0	0	1	0	0	0	10483	690	24	4	53	4	NLGN4X	23	5810908	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08		5810908	149459652	1569	105374											
KAL1	3730	broad.mit.edu	37	chrX	8565134	8565134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccattcgaacaacatttcTtcaccccagagcactcattg	12	10	4	15	1	3	1	2	0	1	1	4	2	3	1	3	0	3	1	3	0	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:8565134T>G	uc004csf.2	-	4	632	c.482A>C	c.(481-483)AAG>ACG	p.K161T		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	161	WAP.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						ACAACATTTCTTCACCCCAGA	0.537													17	5					0	0	0.006122	0	0		G	8565134	G	G	8565134	3	3	212	1	0	0	0	0	1	0	0	0	7990	1609	56	5	1604	5	KAL1	23	8565134	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	2754226	8565134	146705426	1570	105375											
MID1	4281	broad.mit.edu	37	chrX	10535364	10535364	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgttctgtagggtgacgttgCgcttgagcccgtctagacct	5	13	13	10	3	2	3	0	2	2	1	2	3	2	3	2	1	2	4	2	1	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:10535364C>T	uc004cte.3	-	2	415	c.224G>A	c.(223-225)CGC>CAC	p.R75H	MID1_uc004ctd.3_5'Flank|MID1_uc004ctg.3_Missense_Mutation_p.R75H|MID1_uc004cth.3_Missense_Mutation_p.R75H|MID1_uc004ctk.3_Missense_Mutation_p.R75H|MID1_uc004cti.3_Missense_Mutation_p.R75H|MID1_uc004ctj.3_Missense_Mutation_p.R75H|MID1_uc011mie.1_RNA|MID1_uc004ctm.1_Missense_Mutation_p.R75H|MID1_uc004ctn.1_Missense_Mutation_p.R75H|MID1_uc004cto.1_Missense_Mutation_p.R75H|MID1_uc010ndw.1_5'Flank|MID1_uc004cts.1_5'Flank|MID1_uc004ctt.2_Missense_Mutation_p.R75H|MID1_uc004ctu.2_Missense_Mutation_p.R75H|MID1_uc004ctv.2_Missense_Mutation_p.R75H|MID1_uc004ctw.2_Missense_Mutation_p.R75H|MID1_uc010ndy.1_Missense_Mutation_p.R75H|uc010ndz.1_5'Flank|MID1_uc004cty.2_Missense_Mutation_p.R75H|MID1_uc004ctz.1_5'Flank|MID1_uc004cua.1_RNA|MID1_uc004cub.1_Missense_Mutation_p.R75H|MID1_uc010nea.1_5'Flank|MID1_uc004cuc.1_Missense_Mutation_p.R75H|MID1_uc004cud.1_Missense_Mutation_p.R75H|MID1_uc004cue.1_Missense_Mutation_p.R75H|MID1_uc004cuf.1_Missense_Mutation_p.R75H|MID1_uc004cug.1_Missense_Mutation_p.R75H	NM_033290	NP_150632	O15344	TRI18_HUMAN	midline 1	75					microtubule cytoskeleton organization|pattern specification process|positive regulation of stress-activated MAPK cascade	cytoplasm|microtubule|microtubule associated complex|spindle	ligase activity|ubiquitin protein ligase binding|zinc ion binding			ovary(2)|pancreas(1)	3						GGTGACGTTGCGCTTGAGCCC	0.622													6	41					0	0	0.001984	0	0		T	10535364	T	T	10535364	3	4	212	1	0	0	0	0	1	0	0	0	9594	768	27	1	1815	1	MID1	23	10535364	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1970230	10535364	144735196	1571	105376											
RAI2	10742	broad.mit.edu	37	chrX	17818711	17818711	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgtcatagccctgaagcaCggagtcttctcttttgaagg	9	12	11	9	1	3	2	1	2	2	0	4	4	3	3	1	2	2	1	1	2	3	4	rs147416008	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:17818711C>T	uc004cyf.2	-	3	1990	c.1420G>A	c.(1420-1422)GTG>ATG	p.V474M	RAI2_uc004cyg.2_Missense_Mutation_p.V474M|RAI2_uc010nfa.2_Missense_Mutation_p.V474M|RAI2_uc004cyh.3_Missense_Mutation_p.V474M|RAI2_uc011miy.1_Missense_Mutation_p.V424M	NM_021785	NP_068557	Q9Y5P3	RAI2_HUMAN	retinoic acid induced 2	474					embryo development					ovary(1)|breast(1)	2	Hepatocellular(33;0.183)					CCCTGAAGCACGGAGTCTTCT	0.478													84	148					0	0	0.01441	0	0		T	17818711	T	T	17818711	3	4	212	1	0	0	0	0	1	0	0	0	13034	536	19	1	176	1	RAI2	23	17818711	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	7283347	17818711	137451849	1572	105377											
PHKA2	5256	broad.mit.edu	37	chrX	18958163	18958163	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcgacagcatccataacGcccctaataagagaaagtac	17	5	8	11	2	0	1	0	0	0	1	1	4	1	1	3	0	4	2	3	0	6	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:18958163G>A	uc004cyv.3	-	9	1298	c.868C>T	c.(868-870)CGT>TGT	p.R290C		NM_000292	NP_000283	P46019	KPB2_HUMAN	phosphorylase kinase, alpha 2 (liver)	290					glucose metabolic process|glycogen catabolic process	cytosol|phosphorylase kinase complex|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(1)|central_nervous_system(1)	2	Hepatocellular(33;0.183)					CATCCATAACGCCCCTAATAA	0.368													49	68					0	0	0.01441	0	0		A	18958163	A	A	18958163	3	1	212	1	0	0	0	0	1	0	0	0	11863	1087	38	1	2939	1	PHKA2	23	18958163	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	1139452	18958163	136312397	1573	105378											
SH3KBP1	30011	broad.mit.edu	37	chrX	19560215	19560215	+	Frame_Shift_Del	DEL	G	-	-																															tgttcccaaagaggatgacaGgggggagggcgccgctgagg																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:19560215delG	uc004czm.2	-	16	2036	c.1720delC	c.(1720-1722)CTGfs	p.L574fs	SH3KBP1_uc011mje.1_Frame_Shift_Del_p.L313fs|SH3KBP1_uc011mjf.1_Frame_Shift_Del_p.L336fs|SH3KBP1_uc004czl.2_Frame_Shift_Del_p.L537fs|SH3KBP1_uc010nfm.2_Frame_Shift_Del_p.L19fs	NM_031892	NP_114098	Q96B97	SH3K1_HUMAN	SH3-domain kinase binding protein 1 isoform a	574					apoptosis|cell-cell signaling|endocytosis|epidermal growth factor receptor signaling pathway|negative regulation of epidermal growth factor receptor signaling pathway	cytoplasmic vesicle membrane|cytoskeleton|cytosol|focal adhesion|nucleus|synapse|synaptosome	SH3 domain binding				0						GAGGATGACAGGGGGGAGGGC	0.647													26	54	---	---	---	---						.	-	19560215	-	-	19560215	7	5	212	1	0	1	0	1	0	0	0	0	14280	991	35	0	289	0	SH3KBP1	23	19560215	Frame_Shift_Del	DEL	G	TCGA-HU-A4GU-01A-11D-A25D-08	602052	19560215	135710345	1574	105379											
SMS	6611	broad.mit.edu	37	chrX	21985370	21985370	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttttccaggagcaggggatgGcggagtcggtgcacacctgg	7	8	17	9	2	0	0	0	0	0	0	2	3	1	3	2	7	2	2	2	7	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:21985370G>A	uc004dag.2	+	2	207	c.106G>A	c.(106-108)GCG>ACG	p.A36T	SMS_uc011mjq.1_5'UTR|SMS_uc004daf.1_Missense_Mutation_p.A36T	NM_004595	NP_004586	P52788	SPSY_HUMAN	spermine synthase	36					methionine metabolic process|spermine biosynthetic process	cytosol	spermidine synthase activity|spermine synthase activity			ovary(1)	1					Spermine(DB00127)	GCAGGGGATGGCGGAGTCGGT	0.522													20	33					0	0	0.010504	0	0		A	21985370	A	A	21985370	3	1	212	1	0	0	0	0	1	0	0	0	14838	1203	42	2	112	2	SMS	23	21985370	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2425155	21985370	133285190	1575	105380											
DMD	1756	broad.mit.edu	37	chrX	32662332	32662332	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctcttgtacttcagtttcTtcatcttctgataattttcc	6	21	4	10	0	6	1	2	1	4	0	7	1	7	1	1	0	2	3	1	0	2	9			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:32662332T>G	uc004dda.1	-	11	1492	c.1248A>C	c.(1246-1248)GAA>GAC	p.E416D	DMD_uc004dcz.2_Missense_Mutation_p.E293D|DMD_uc004dcy.1_Missense_Mutation_p.E412D|DMD_uc004ddb.1_Missense_Mutation_p.E408D|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.E408D|DMD_uc010ngp.1_Intron|DMD_uc010ngq.1_Intron|MIR548F5_hsa-mir-548f-5|MI0006378_5'Flank	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	416	Spectrin 1.				muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				CTTCAGTTTCTTCATCTTCTG	0.408													17	45					0	0	0.006122	0	0		G	32662332	G	G	32662332	3	3	212	1	0	0	0	0	1	0	0	0	4586	1606	56	5	10328	5	DMD	23	32662332	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	10676962	32662332	122608228	1576	105381											
CYBB	1536	broad.mit.edu	37	chrX	37665662	37665662	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctacttctactggctgtgccGggacacacatgcctttgagt	7	12	10	12	1	1	1	0	1	1	0	1	2	1	2	2	2	4	1	2	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:37665662G>A	uc004ddr.2	+	11	1398	c.1337G>A	c.(1336-1338)CGG>CAG	p.R446Q	CYBB_uc011mkf.1_Missense_Mutation_p.R414Q|CYBB_uc011mkg.1_Missense_Mutation_p.R179Q	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	446	Cytoplasmic (Potential).				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						TGGCTGTGCCGGGACACACAT	0.488													13	64					0	0	0.001855	0	0		A	37665662	A	A	37665662	3	1	212	1	0	0	0	0	1	0	0	0	4136	1116	39	1	1379	1	CYBB	23	37665662	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5003330	37665662	117604898	1577	105382											
RPGR	6103	broad.mit.edu	37	chrX	38160591	38160591	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caagtcctaattttccgtggCgaccatctccaaaagtatac	12	11	6	12	2	1	0	0	0	1	0	4	1	3	0	4	1	1	1	4	1	6	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:38160591C>T	uc004ded.1	-	9	1136	c.968G>A	c.(967-969)CGC>CAC	p.R323H	RPGR_uc004deb.2_Missense_Mutation_p.R323H|RPGR_uc004dea.2_RNA|RPGR_uc004dec.2_RNA|RPGR_uc004dee.1_Missense_Mutation_p.R8H	NM_001034853	NP_001030025	Q92834	RPGR_HUMAN	retinitis pigmentosa GTPase regulator isoform C	323	RCC1 6.				intracellular protein transport|response to stimulus|visual perception	Golgi apparatus|photoreceptor outer segment	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						TTTTCCGTGGCGACCATCTCC	0.328													4	33					0	0	0.001168	0	0		T	38160591	T	T	38160591	3	4	212	1	0	0	0	0	1	0	0	0	13573	768	27	1	3077	1	RPGR	23	38160591	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	494929	38160591	117109969	1578	105383											
USP9X	8239	broad.mit.edu	37	chrX	40982957	40982957	+	Frame_Shift_Del	DEL	C	-	-																															ctcctgatggacagtctcagCcccccctccaacagaatcag																										TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:40982957delC	uc004dfb.2	+	2	709	c.76delC	c.(76-78)CCCfs	p.P26fs	USP9X_uc004dfc.2_Frame_Shift_Del_p.P26fs	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	26					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						ACAGTCTCAGCCCCCCCTCCA	0.428													18	20	---	---	---	---						.	-	40982957	-	-	40982957	7	5	212	1	0	1	0	1	0	0	0	0	17116	739	26	0	78	0	USP9X	23	40982957	Frame_Shift_Del	DEL	C	TCGA-HU-A4GU-01A-11D-A25D-08	2822366	40982957	114287603	1579	105384											
DDX3X	1654	broad.mit.edu	37	chrX	41201758	41201758	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgctgttcaggtttgatgatCgtggacggagtgattacgat	8	14	14	5	3	1	3	1	3	0	0	2	6	1	5	0	3	2	3	0	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:41201758C>T	uc004dfe.2	+	5	1150	c.295C>T	c.(295-297)CGT>TGT	p.R99C	DDX3X_uc010nhf.1_Missense_Mutation_p.R83C|DDX3X_uc004dff.2_Missense_Mutation_p.R99C|DDX3X_uc011mkq.1_Missense_Mutation_p.R83C|DDX3X_uc011mkr.1_Missense_Mutation_p.R99C|DDX3X_uc011mks.1_Missense_Mutation_p.R99C|DDX3X_uc004dfg.2_RNA|DDX3X_uc011mkt.1_RNA	NM_001356	NP_001347	O00571	DDX3X_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 3	99					interspecies interaction between organisms	cytoplasm|nuclear speck	ATP binding|ATP-dependent RNA helicase activity|DNA binding|protein binding|RNA binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6						GTTTGATGATCGTGGACGGAG	0.428										HNSCC(61;0.18)			15	30					0	0	0.006122	0	0		T	41201758	T	T	41201758	3	4	212	1	0	0	0	0	1	0	0	0	4361	884	31	1	313	1	DDX3X	23	41201758	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	218801	41201758	114068802	1580	105385											
NYX	60506	broad.mit.edu	37	chrX	41333566	41333566	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgagctgctctacctggaccGcaacagcatcgccttcgtgg	7	8	11	15	4	1	0	0	0	1	0	3	2	1	1	3	2	5	4	3	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:41333566G>A	uc004dfh.2	+	2	1290	c.860G>A	c.(859-861)CGC>CAC	p.R287H	NYX_uc011mku.1_Missense_Mutation_p.R282H	NM_022567	NP_072089	Q9GZU5	NYX_HUMAN	nyctalopin precursor	287	LRR 10.				response to stimulus|visual perception	intracellular|proteinaceous extracellular matrix				lung(2)	2						TACCTGGACCGCAACAGCATC	0.701													23	36					0	0	0.014323	0	0		A	41333566	A	A	41333566	3	1	212	1	0	0	0	0	1	0	0	0	10816	1087	38	1	866	1	NYX	23	41333566	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	131808	41333566	113936994	1581	105386											
GPR82	27197	broad.mit.edu	37	chrX	41586781	41586781	+	Missense_Mutation	SNP	A	G	G	1	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	gagttgtactgggcataatcAttccagttaccgtatactac	11	13	8	9	1	1	0	1	0	0	0	2	1	2	0	2	1	4	5	2	1	6	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:41586781A>G	uc004dfs.1	+	3	742	c.502A>G	c.(502-504)ATT>GTT	p.I168V	CASK_uc004dfl.3_Intron|CASK_uc004dfm.3_Intron|CASK_uc004dfn.3_Intron|GPR82_uc004dft.2_Missense_Mutation_p.I168V|GPR82_uc004dfu.1_RNA	NM_080817	NP_543007	Q96P67	GPR82_HUMAN	G protein-coupled receptor 82	168	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2						GGGCATAATCATTCCAGTTAC	0.408													4	61					0	0	0.009096	0	0		G	41586781	G	G	41586781	3	3	212	1	0	0	0	0	1	0	0	0	6727	217	8	3	504	3	GPR82	23	41586781	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	253215	41586781	113683779	1582	105387											
DUSP21	63904	broad.mit.edu	37	chrX	44703615	44703615	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gttaccgatgctcgtgactcGcgtctctacgacttttttga	6	15	9	11	5	1	2	0	2	1	0	4	4	1	2	1	0	3	2	1	0	2	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:44703615G>A	uc004dgd.2	+	1	367	c.237G>A	c.(235-237)TCG>TCA	p.S79S		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	79	Tyrosine-protein phosphatase.|Sufficient for mitochondrial localization (By similarity).					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						CTCGTGACTCGCGTCTCTACG	0.527													6	85					0	0	0.001984	0	0		A	44703615	A	A	44703615	2	1	212	1	0	0	0	0	0	0	0	1	4826	1074	38	1		1	DUSP21	23	44703615	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3116834	44703615	110566945	1583	105388											
ELK1	2002	broad.mit.edu	37	chrX	47497297	47497297	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctaggtcccggggcttccgGcccttctgcggctgggagat	3	10	15	13	3	2	1	0	0	2	1	4	2	4	1	3	6	1	2	3	6	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:47497297G>A	uc004dik.3	-	5	1261	c.939C>T	c.(937-939)GGC>GGT	p.G313G	ELK1_uc010nhv.2_Silent_p.G313G|ELK1_uc010nhw.2_Silent_p.G203G|ELK1_uc004dil.3_Intron	NM_001114123	NP_001107595	P19419	ELK1_HUMAN	ELK1 protein	313					innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway		protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						GGGGCTTCCGGCCCTTCTGCG	0.716													7	7					0	0	0.00308	0	0		A	47497297	A	A	47497297	2	1	212	1	0	0	0	0	0	0	0	1	5067	1190	42	2		2	ELK1	23	47497297	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	2793682	47497297	107773263	1584	105389											
ZNF81	347344	broad.mit.edu	37	chrX	47775652	47775652	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tgaatgtgggaaggccttcaCcgacaggtcaaatttcaata	13	10	10	8	1	3	1	3	1	0	0	3	3	3	2	2	3	0	0	2	3	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:47775652C>T	uc010nhy.1	+	6	1975	c.1607C>T	c.(1606-1608)ACC>ATC	p.T536I		NM_007137	NP_009068	P51508	ZNF81_HUMAN	zinc finger protein 81	536	C2H2-type 8.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(315;0.0973)				AAGGCCTTCACCGACAGGTCA	0.448													29	37					0	0	0.012213	0	0		T	47775652	T	T	47775652	3	4	212	1	0	0	0	0	1	0	0	0	18199	507	18	4	1621	4	ZNF81	23	47775652	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	278355	47775652	107494908	1585	105390											
TIMM17B	10245	broad.mit.edu	37	chrX	48751229	48751229	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagtgaggaggatgccaacGccctcaatgagggccaacag	12	4	14	11	2	1	2	1	2	0	0	1	5	1	4	3	3	3	0	3	3	3	0	rs145478928	byFrequency	TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:48751229G>A	uc004dlc.1	-	6	533	c.384C>T	c.(382-384)GGC>GGT	p.G128G	TIMM17B_uc004dla.1_Silent_p.G178G|TIMM17B_uc004dlb.1_Silent_p.G148G	NM_005834	NP_005825	O60830	TI17B_HUMAN	translocase of inner mitochondrial membrane 17	128	Helical; (Potential).				protein targeting to mitochondrion	integral to membrane|microtubule cytoskeleton|mitochondrial inner membrane presequence translocase complex	P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						GGATGCCAACGCCCTCAATGA	0.597													3	11					0	0	0.009096	0	0		A	48751229	A	A	48751229	2	1	212	1	0	0	0	0	0	0	0	1	15934	1074	38	1		1	TIMM17B	23	48751229	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	975577	48751229	106519331	1586	105391											
PRICKLE3	4007	broad.mit.edu	37	chrX	49032321	49032321	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gttgtgatggtgatggtgatTatgatgatggtggcggcgac	7	13	18	3	2	0	5	0	5	0	0	0	6	0	5	0	5	0	1	0	5	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:49032321T>C	uc004dmy.1	-	9	1575	c.1549A>G	c.(1549-1551)AAT>GAT	p.N517D	PRICKLE3_uc011mmv.1_Missense_Mutation_p.N449D|PRICKLE3_uc011mmw.1_Missense_Mutation_p.N436D|PRICKLE3_uc011mmx.1_Missense_Mutation_p.N479D	NM_006150	NP_006141	O43900	PRIC3_HUMAN	LIM domain only 6	517	Poly-His.						protein binding|zinc ion binding			breast(1)	1						tgatggtgattatgatgatgg	0.602													7	38					0	0	0.00308	0	0		C	49032321	C	C	49032321	3	2	212	1	0	0	0	0	1	0	0	0	12510	1754	61	3	302	3	PRICKLE3	23	49032321	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	281092	49032321	106238239	1587	105392											
PPP1R3F	89801	broad.mit.edu	37	chrX	49127023	49127023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgggtcccggccaggcatccGcctcctcgcccgacgacggc	4	5	13	19	6	0	0	0	0	0	0	4	2	3	0	6	4	0	1	6	4	0	0			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:49127023G>A	uc004dnh.1	+	1	707	c.691G>A	c.(691-693)GCC>ACC	p.A231T	PPP1R3F_uc011mnd.1_Intron|PPP1R3F_uc004dni.2_Intron	NM_033215	NP_149992	Q6ZSY5	PPR3F_HUMAN	protein phosphatase 1, regulatory (inhibitor)	231	CBM21.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	Ovarian(276;0.236)					CCAGGCATCCGCCTCCTCGCC	0.736													10	6					0	0	0.008291	0	0		A	49127023	A	A	49127023	3	1	212	1	0	0	0	0	1	0	0	0	12397	1087	38	1	693	1	PPP1R3F	23	49127023	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	94702	49127023	106143537	1588	105393											
HUWE1	10075	broad.mit.edu	37	chrX	53575028	53575028	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtttccccctcaccgccagcGctcactggcactgacttcac	6	9	7	19	2	3	1	3	1	0	0	4	1	4	1	4	1	1	3	4	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:53575028G>A	uc004dsp.2	-	68	10644	c.10242C>T	c.(10240-10242)AGC>AGT	p.S3414S	HUWE1_uc004dsn.2_Silent_p.S2222S	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	3414					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17						CACCGCCAGCGCTCACTGGCA	0.557													9	14					0	0	0.008291	0	0		A	53575028	A	A	53575028	2	1	212	1	0	0	0	0	0	0	0	1	7477	1078	38	1		1	HUWE1	23	53575028	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	4448005	53575028	101695532	1589	105394											
FGD1	2245	broad.mit.edu	37	chrX	54496700	54496700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagctgatgctatcaatgcCgctgtcccggttgggcacct	6	10	12	13	3	1	1	1	1	0	0	2	2	2	1	3	2	3	5	3	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:54496700C>T	uc004dtg.2	-	4	1584	c.850G>A	c.(850-852)GGC>AGC	p.G284S	FGD1_uc011moi.1_Missense_Mutation_p.G42S	NM_004463	NP_004454	P98174	FGD1_HUMAN	faciogenital dysplasia protein	284	Pro-rich.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|organ morphogenesis|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|nucleus|plasma membrane|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(3)|skin(2)|central_nervous_system(1)	6						CTATCAATGCCGCTGTCCCGG	0.687													5	5					0	0	0.000602	0	0		T	54496700	T	T	54496700	3	4	212	1	0	0	0	0	1	0	0	0	5846	652	23	1	2095	1	FGD1	23	54496700	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	921672	54496700	100773860	1590	105395											
ITIH5L	347365	broad.mit.edu	37	chrX	54780160	54780160	+	Silent	SNP	G	A	A	0	0	1	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	aagcagatcttctcttctgaGtgtgggatttggatcacaaa	11	13	10	7	0	4	2	1	1	3	1	5	4	4	4	0	2	1	1	0	2	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:54780160G>A	uc004dtj.2	-	11	3306	c.3276C>T	c.(3274-3276)CAC>CAT	p.H1092H		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	1092					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						TCTCTTCTGAGTGTGGGATTT	0.502													9	27					0	0	0.006214	0	0		A	54780160	A	A	54780160	2	1	212	1	0	0	0	0	0	0	0	1	7924	1020	36	4		4	ITIH5L	23	54780160	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	283460	54780160	100490400	1591	105396											
TRO	7216	broad.mit.edu	37	chrX	54949190	54949190	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcaagaccaagaaggccccTataaagactattactaaggc	17	6	8	10	0	0	3	0	0	0	3	0	3	0	3	3	2	2	1	3	2	9	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:54949190T>G	uc004dtq.2	+	3	332	c.225T>G	c.(223-225)CCT>CCG	p.P75P	TRO_uc011moj.1_Silent_p.P18P|TRO_uc004dts.2_Silent_p.P75P|TRO_uc004dtr.2_Silent_p.P75P|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_Intron|TRO_uc004dtv.2_Intron|TRO_uc011mok.1_Intron|TRO_uc004dtw.2_Intron|TRO_uc004dtx.2_5'Flank	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	75					embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						AGAAGGCCCCTATAAAGACTA	0.532													6	8					0	0	0.001168	0	0		G	54949190	G	G	54949190	2	3	212	1	0	0	0	0	0	0	0	1	16600	1509	53	5		5	TRO	23	54949190	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	169030	54949190	100321370	1592	105397											
TRO	7216	broad.mit.edu	37	chrX	54953052	54953052	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcgcaagttggggctgcGccctgggtatgactgggctc	4	9	17	11	2	0	1	0	1	0	0	1	1	0	1	1	4	2	6	1	4	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:54953052G>A	uc004dtq.2	+	9	1801	c.1694G>A	c.(1693-1695)CGC>CAC	p.R565H	TRO_uc004dts.2_Missense_Mutation_p.R565H|TRO_uc004dtr.2_Missense_Mutation_p.R565H|TRO_uc004dtt.2_RNA|TRO_uc004dtu.2_RNA|TRO_uc004dtv.2_Missense_Mutation_p.R168H|TRO_uc011mok.1_Missense_Mutation_p.R96H|TRO_uc004dtw.2_Missense_Mutation_p.R168H|TRO_uc004dtx.2_5'UTR	NM_001039705	NP_001034794	Q12816	TROP_HUMAN	trophinin isoform 5	565	MAGE.				embryo implantation|homophilic cell adhesion	integral to plasma membrane				ovary(1)	1						TTGGGGCTGCGCCCTGGGTAT	0.577													58	67					0	0	0.01441	0	0		A	54953052	A	A	54953052	3	1	212	1	0	0	0	0	1	0	0	0	16600	1087	38	1	1724	1	TRO	23	54953052	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3862	54953052	100317508	1593	105398											
FAM123B	139285	broad.mit.edu	37	chrX	63412262	63412262	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggtcccccacagggccaTtgggtgggtttacctctcct	4	11	13	13	0	1	0	0	0	1	0	3	0	2	0	5	4	1	1	5	4	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:63412262T>C	uc004dvo.2	-	2	1178	c.905A>G	c.(904-906)AAT>AGT	p.N302S		NM_152424	NP_689637	Q5JTC6	F123B_HUMAN	family with sequence similarity 123B	302					Wnt receptor signaling pathway	cytoplasm|nucleus|plasma membrane		p.0?(40)		kidney(99)|large_intestine(6)|ovary(3)|lung(2)|breast(1)|liver(1)	112						CACAGGGCCATTGGGTGGGTT	0.537													8	100					0	0	0.00308	0	0		C	63412262	C	C	63412262	3	2	212	1	0	0	0	0	1	0	0	0	5434	1493	52	3	2506	3	FAM123B	23	63412262	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	8459210	63412262	91858298	1594	105399											
MSN	4478	broad.mit.edu	37	chrX	64955210	64955210	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaaccatgaactatacatgCgccgtcgcaagcctgatacc	12	7	9	13	3	0	2	0	2	0	0	1	3	0	3	4	1	6	1	4	1	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:64955210C>T	uc004dwf.2	+	8	1075	c.877C>T	c.(877-879)CGC>TGC	p.R293C		NM_002444	NP_002435	P26038	MOES_HUMAN	moesin	293	FERM.				leukocyte cell-cell adhesion|leukocyte migration|membrane to membrane docking	apical plasma membrane|cytoskeleton|extrinsic to membrane|microvillus membrane|nucleolus	cell adhesion molecule binding|receptor binding|structural constituent of cytoskeleton		MSN/ALK(6)	haematopoietic_and_lymphoid_tissue(6)|ovary(3)|lung(1)	10						ACTATACATGCGCCGTCGCAA	0.557			T	ALK	ALCL								7	7					0	0	0.001984	0	0		T	64955210	T	T	64955210	3	4	212	1	0	0	0	0	1	0	0	0	9903	768	27	1	907	1	MSN	23	64955210	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1542948	64955210	90315350	1595	105400											
AR	367	broad.mit.edu	37	chrX	66765826	66765826	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggagttccacccgctgtgCgtcccactccttgtgcccca	4	10	10	17	2	0	0	0	0	0	0	3	1	3	1	6	1	2	2	6	1	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:66765826C>T	uc004dwu.1	+	1	1953	c.838C>T	c.(838-840)CGT>TGT	p.R280C	AR_uc011mpd.1_Missense_Mutation_p.R280C|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Missense_Mutation_p.R280C	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	278	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	ACCCGCTGTGCGTCCCACTCC	0.577									Androgen_Insensitivity_Syndrome				36	38					0	0	0.004878	0	0		T	66765826	T	T	66765826	3	4	212	1	0	0	0	0	1	0	0	0	836	768	27	1	840	1	AR	23	66765826	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	1810616	66765826	88504734	1596	105401											
HDAC8	55869	broad.mit.edu	37	chrX	71788641	71788641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtccggatgatcatcatcGccctcttggctgaccttctg	6	12	10	13	2	4	2	2	2	2	0	6	4	5	3	3	2	0	1	3	2	0	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:71788641G>A	uc004eau.2	-	3	300	c.258C>T	c.(256-258)GGC>GGT	p.G86G	HDAC8_uc011mqe.1_5'Flank|HDAC8_uc011mqf.1_5'UTR|HDAC8_uc011mqg.1_Intron|HDAC8_uc011mqh.1_Intron|HDAC8_uc010nlk.1_Intron|HDAC8_uc004eav.2_Silent_p.G86G|HDAC8_uc004eaw.2_RNA	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8	86	Histone deacetylase.				chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	GATCATCATCGCCCTCTTGGC	0.448													11	20					0	0	0.001855	0	0		A	71788641	A	A	71788641	2	1	212	1	0	0	0	0	0	0	0	1	7029	1074	38	1		1	HDAC8	23	71788641	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5022815	71788641	83481919	1597	105402											
MAGEE1	57692	broad.mit.edu	37	chrX	75649600	75649600	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgcttctgtggaccggaaccCctccaagtgttcccttgttt	5	14	9	13	1	1	0	0	0	1	0	3	2	3	2	5	2	2	3	5	2	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:75649600C>A	uc004ecm.1	+	1	1484	c.1277C>A	c.(1276-1278)CCC>CAC	p.P426H		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	426						dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						GACCGGAACCCCTCCAAGTGT	0.587													7	26					5.18039e-06	5.4443e-06	0.00308	1	0		A	75649600	A	A	75649600	3	1	212	1	0	0	0	0	1	0	0	0	9203	623	22	5	1279	5	MAGEE1	23	75649600	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	3860959	75649600	79620960	1598	105403											
CYLC1	1538	broad.mit.edu	37	chrX	83128395	83128395	+	Missense_Mutation	SNP	T	G	G	0	1	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	caaagaaagatttgaagaggTcaaagactagtaatgatccc	18	8	9	6	0	1	6	1	2	0	4	2	6	2	6	1	1	0	1	1	1	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:83128395T>G	uc004eei.1	+	4	700	c.679T>G	c.(679-681)TCA>GCA	p.S227A	CYLC1_uc004eeh.1_Missense_Mutation_p.S226A	NM_021118	NP_066941	P35663	CYLC1_HUMAN	cylicin, basic protein of sperm head	227					cell differentiation|multicellular organismal development|spermatogenesis	acrosomal matrix|cytoskeletal calyx	structural molecule activity			ovary(4)|skin(1)	5						TTTGAAGAGGTCAAAGACTAG	0.318													3	11					0	0	0.004672	0	0		G	83128395	G	G	83128395	3	3	212	1	0	0	0	0	1	0	0	0	4144	1667	58	5	693	5	CYLC1	23	83128395	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	7478795	83128395	72142165	1599	105404											
ZNF711	7552	broad.mit.edu	37	chrX	84510604	84510604	+	Missense_Mutation	SNP	A	C	C	1	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	tgttactggtcctaatggacActtagaacatgtggtccaag	11	12	10	8	0	0	1	0	0	0	1	2	2	2	2	2	3	2	1	2	3	5	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:84510604A>C	uc004eeo.2	+	4	766	c.419A>C	c.(418-420)CAC>CCC	p.H140P	ZNF711_uc004eep.2_Missense_Mutation_p.H140P|ZNF711_uc004eeq.2_Missense_Mutation_p.H140P	NM_021998	NP_068838	Q9Y462	ZN711_HUMAN	zinc finger protein 711	140					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding|zinc ion binding			ovary(3)|skin(1)	4						CCTAATGGACACTTAGAACAT	0.428													27	38					0	0	0.005443	0	0		C	84510604	C	C	84510604	3	2	212	1	0	0	0	0	1	0	0	0	18141	159	6	5	425	5	ZNF711	23	84510604	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	1382209	84510604	70759956	1600	105405											
DACH2	117154	broad.mit.edu	37	chrX	85404035	85404035	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctccgcgggctgggggccatCcagcccggggtaaaccgctg	5	5	16	15	4	0	0	0	0	0	0	2	0	2	0	5	5	2	3	5	5	2	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:85404035C>G	uc004eew.2	+	1	581	c.411C>G	c.(409-411)ATC>ATG	p.I137M	DACH2_uc004eex.2_Missense_Mutation_p.I137M|DACH2_uc010nmq.2_Translation_Start_Site	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	137	DACHbox-N.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TGGGGGCCATCCAGCCCGGGG	0.557													22	24					0	0	0.00278	0	0		G	85404035	G	G	85404035	3	3	212	1	0	0	0	0	1	0	0	0	4224	845	30	5	413	5	DACH2	23	85404035	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	893431	85404035	69866525	1601	105406											
RPA4	29935	broad.mit.edu	37	chrX	96139929	96139929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catccaggacgaagtgctgcGtttgattcatgagtgtcctc	8	12	11	10	2	1	2	1	2	0	0	4	4	3	3	2	1	2	2	2	1	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:96139929G>A	uc004efv.3	+	1	918	c.620G>A	c.(619-621)CGT>CAT	p.R207H	DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa	207					DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						GAAGTGCTGCGTTTGATTCAT	0.507								Other_identified_genes_with_known_or_suspected_DNA_repair_function					9	85					0	0	0.004482	0	0		A	96139929	A	A	96139929	3	1	212	1	0	0	0	0	1	0	0	0	13564	1145	40	1	622	1	RPA4	23	96139929	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	10735894	96139929	59130631	1602	105407											
RPA4	29935	broad.mit.edu	37	chrX	96140040	96140040	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgattgattatctgaccgTtgagggccacatctatccca	10	11	9	11	2	2	3	0	3	2	0	3	4	3	3	3	1	1	1	3	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:96140040T>C	uc004efv.3	+	1	1029	c.731T>C	c.(730-732)GTT>GCT	p.V244A	DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa	244					DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						TATCTGACCGTTGAGGGCCAC	0.512								Other_identified_genes_with_known_or_suspected_DNA_repair_function					27	47					0	0	0.012213	0	0		C	96140040	C	C	96140040	3	2	212	1	0	0	0	0	1	0	0	0	13564	1725	60	3	733	3	RPA4	23	96140040	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	111	96140040	59130520	1603	105408											
HNRNPH2	3188	broad.mit.edu	37	chrX	100667424	100667424	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccagtggactttcaggggCgaagcacaggggaagccttt	9	8	15	9	1	1	0	1	0	0	0	1	3	1	2	2	5	3	1	2	5	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:100667424C>T	uc004ehm.2	+	2	618	c.448C>T	c.(448-450)CGA>TGA	p.R150*	HNRNPH2_uc004ehn.2_Nonsense_Mutation_p.R150*	NM_019597	NP_062543	P55795	HNRH2_HUMAN	heterogeneous nuclear ribonucleoprotein H2	150	RRM 2.				nuclear mRNA splicing, via spliceosome	actin cytoskeleton|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding				0						CTTTCAGGGGCGAAGCACAGG	0.473													33	47					0	0	0.003271	0	0		T	100667424	T	T	100667424	4	4	212	1	0	0	0	0	0	1	0	0	7283	760	27	1	450	1	HNRNPH2	23	100667424	Nonsense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	4527384	100667424	54603136	1604	105409											
ARMCX3	51566	broad.mit.edu	37	chrX	100880572	100880572	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaaatcagcgcaggcttaaAgtatacatgaatcaagtgtg	16	9	10	6	1	2	1	2	1	0	0	2	2	2	1	0	1	2	3	0	1	8	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:100880572A>T	uc004ehz.1	+	5	1136	c.603A>T	c.(601-603)AAA>AAT	p.K201N	ARMCX3_uc004eia.1_Missense_Mutation_p.K201N|ARMCX3_uc004eib.1_Missense_Mutation_p.K201N|ARMCX3_uc004eic.1_Missense_Mutation_p.K201N	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	201						integral to membrane	binding			ovary(1)|lung(1)	2						GCAGGCTTAAAGTATACATGA	0.398													18	33					0	0	0.006122	0	0		T	100880572	T	T	100880572	3	4	212	1	0	0	0	0	1	0	0	0	962	69	3	5	605	5	ARMCX3	23	100880572	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	213148	100880572	54389988	1605	105410											
ARMCX2	9823	broad.mit.edu	37	chrX	100911645	100911645	+	Silent	SNP	G	T	T	0	0	1	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	gccccatctccaggacggaaGcccatccccagttcgtctac	8	7	8	18	2	2	0	0	0	2	0	5	2	3	2	6	2	2	1	6	2	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:100911645G>T	uc004eid.2	-	3	1285	c.930C>A	c.(928-930)GGC>GGA	p.G310G	ARMCX2_uc004eie.3_Silent_p.G310G|ARMCX2_uc004eif.3_Silent_p.G310G|ARMCX2_uc004eig.3_Silent_p.G310G|ARMCX2_uc010nnt.2_Silent_p.G310G	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	310						integral to membrane	binding			ovary(6)	6						CAGGACGGAAGCCCATCCCCA	0.597													27	63					2.79863e-10	3.04401e-10	0.004656	1	0		T	100911645	T	T	100911645	2	4	212	1	0	0	0	0	0	0	0	1	961	958	34	5		5	ARMCX2	23	100911645	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	31073	100911645	54358915	1606	105411											
ARMCX2	9823	broad.mit.edu	37	chrX	100912155	100912155	+	Silent	SNP	T	C	C	0	1	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	tctgtcaccccgggaggtggTgctattgcagaagccattgc	7	10	13	11	1	2	1	1	0	1	1	2	2	2	2	3	3	4	2	3	3	2	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:100912155T>C	uc004eid.2	-	3	775	c.420A>G	c.(418-420)GCA>GCG	p.A140A	ARMCX2_uc004eie.3_Silent_p.A140A|ARMCX2_uc004eif.3_Silent_p.A140A|ARMCX2_uc004eig.3_Silent_p.A140A|ARMCX2_uc010nnt.2_Silent_p.A140A	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	140	Ala-rich.					integral to membrane	binding			ovary(6)	6						CGGGAGGTGGTGCTATTGCAG	0.627													39	47					0	0	0.00874	0	0		C	100912155	C	C	100912155	2	2	212	1	0	0	0	0	0	0	0	1	961	1683	59	3		3	ARMCX2	23	100912155	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	510	100912155	54358405	1607	105412											
PRPS1	5631	broad.mit.edu	37	chrX	106890852	106890852	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctagacttctctcagctggcGccaccagagtttatgccatc	8	11	8	14	1	2	2	1	0	1	2	4	2	2	2	3	1	2	2	3	1	2	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:106890852G>A	uc004ene.3	+	6	926	c.721G>A	c.(721-723)GCC>ACC	p.A241T	PRPS1_uc010npg.2_Missense_Mutation_p.A208T|PRPS1_uc011msj.1_Missense_Mutation_p.A37T	NM_002764	NP_002755	P60891	PRPS1_HUMAN	phosphoribosyl pyrophosphate synthetase 1	241					5-phosphoribose 1-diphosphate biosynthetic process|hypoxanthine biosynthetic process|nervous system development|nucleoside metabolic process|purine nucleotide biosynthetic process|pyrimidine nucleotide biosynthetic process|ribonucleoside monophosphate biosynthetic process|urate biosynthetic process	cytosol	ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			breast(3)|large_intestine(1)	4						CTCAGCTGGCGCCACCAGAGT	0.438													39	66					0	0	0.007835	0	0		A	106890852	A	A	106890852	3	1	212	1	0	0	0	0	1	0	0	0	12600	1087	38	1	743	1	PRPS1	23	106890852	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	5978697	106890852	48379708	1608	105413											
TSC22D3	1831	broad.mit.edu	37	chrX	106959928	106959928	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccagcggttacctgttgtcCagcttaacggaaaccacatc	10	9	9	13	2	0	0	0	0	0	0	2	1	1	1	4	2	5	3	4	2	3	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:106959928C>T	uc004eng.2	-	1	364	c.114G>A	c.(112-114)CTG>CTA	p.L38L	TSC22D3_uc004enf.2_5'Flank|TSC22D3_uc004enh.2_Intron|TSC22D3_uc004eni.2_Intron|TSC22D3_uc004enj.2_Intron	NM_004089	NP_004080	Q99576	T22D3_HUMAN	TSC22 domain family, member 3 isoform 2	38	AP1-binding (By similarity).						sequence-specific DNA binding transcription factor activity				0						ACCTGTTGTCCAGCTTAACGG	0.637													23	13					0	0	0.012319	0	0		T	106959928	T	T	106959928	2	4	212	1	0	0	0	0	0	0	0	1	16635	581	21	4		4	TSC22D3	23	106959928	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	69076	106959928	48310632	1609	105414											
TEX13B	56156	broad.mit.edu	37	chrX	107225281	107225281	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cggggcctttcgtgtgcctgGccattttctcgatgatgaag	5	13	13	10	3	1	2	0	2	1	0	3	3	1	2	3	3	1	0	3	3	1	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:107225281G>A	uc004enn.1	-	2	170	c.77C>T	c.(76-78)GCC>GTC	p.A26V		NM_031273	NP_112563	Q9BXU2	TX13B_HUMAN	testis expressed 13B	26										ovary(1)	1						CGTGTGCCTGGCCATTTTCTC	0.562													35	39					0	0	0.004878	0	0		A	107225281	A	A	107225281	3	1	212	1	0	0	0	0	1	0	0	0	15802	1203	42	2	869	2	TEX13B	23	107225281	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	265353	107225281	48045279	1610	105415											
COL4A5	1287	broad.mit.edu	37	chrX	107869522	107869522	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ggattacctggacagaaaggCgacaaaggtgatcctggtat	13	8	13	7	1	0	2	0	1	0	1	1	5	1	4	2	5	1	1	2	5	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:107869522C>T	uc004enz.1	+	36	3391	c.3189C>T	c.(3187-3189)GGC>GGT	p.G1063G	COL4A5_uc011mso.1_Silent_p.G1063G|COL4A5_uc004eob.1_Silent_p.G671G	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1063	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						GACAGAAAGGCGACAAAGGTG	0.488									Alport_syndrome_with_Diffuse_Leiomyomatosis				5	55					0	0	0.00308	0	0		T	107869522	T	T	107869522	2	4	212	1	0	0	0	0	0	0	0	1	3697	755	27	1		1	COL4A5	23	107869522	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	644241	107869522	47401038	1611	105416											
COL4A5	1287	broad.mit.edu	37	chrX	107909801	107909801	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaagatggtattcctggacCagctggacagaagggtgaac	12	8	13	8	0	1	3	1	1	0	2	2	5	2	5	2	4	2	2	2	4	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:107909801C>A	uc004enz.1	+	39	3732	c.3530C>A	c.(3529-3531)CCA>CAA	p.P1177Q	COL4A5_uc011mso.1_Missense_Mutation_p.P1177Q	NM_033380	NP_203699	P29400	CO4A5_HUMAN	type IV collagen alpha 5 isoform 2 precursor	1177	Triple-helical region.				axon guidance	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(3)|central_nervous_system(1)	4						ATTCCTGGACCAGCTGGACAG	0.443									Alport_syndrome_with_Diffuse_Leiomyomatosis				6	10					2.0095e-06	2.11915e-06	0.001984	1	0		A	107909801	A	A	107909801	3	1	212	1	0	0	0	0	1	0	0	0	3697	594	21	5	3684	5	COL4A5	23	107909801	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	40279	107909801	47360759	1612	105417											
GUCY2F	2986	broad.mit.edu	37	chrX	108718609	108718609	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	aggaaatgactccagcatgaGcccactggaaatatttcatg	14	9	9	9	0	1	2	1	2	0	0	2	4	2	4	2	2	2	1	2	2	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:108718609G>T	uc004eod.3	-	2	833	c.557C>A	c.(556-558)GCT>GAT	p.A186D	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	186	Extracellular (Potential).				intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity			lung(4)|breast(3)|central_nervous_system(1)	8						TCCAGCATGAGCCCACTGGAA	0.478											OREG0019905	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	35	60					6.53348e-20	7.55382e-20	0.003755	1	0		T	108718609	T	T	108718609	3	4	212	1	0	0	0	0	1	0	0	0	6914	971	34	5	2841	5	GUCY2F	23	108718609	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	808808	108718609	46551951	1613	105418											
SLC25A43	203427	broad.mit.edu	37	chrX	118586962	118586962	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatcagagtttgcagccccaGgaattacgagaattaaagaa	16	8	10	7	1	1	3	1	0	0	3	1	6	1	4	2	1	3	2	2	1	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:118586962G>T	uc004erd.2	+	5	1304	c.960G>T	c.(958-960)CAG>CAT	p.Q320H	SLC25A43_uc011mtt.1_3'UTR	NM_145305	NP_660348	Q8WUT9	S2543_HUMAN	mitochondrial solute carrier protein	320					transmembrane transport	integral to membrane|mitochondrial inner membrane	binding			skin(1)	1						TGCAGCCCCAGGAATTACGAG	0.398													5	101					5.9392e-07	6.29946e-07	0.001168	1	0		T	118586962	T	T	118586962	3	4	212	1	0	0	0	0	1	0	0	0	14533	991	35	5	978	5	SLC25A43	23	118586962	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	9868353	118586962	36683598	1614	105419											
UBE2A	7319	broad.mit.edu	37	chrX	118717107	118717107	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagtctctgttggatgaaccCaatcccaatagtccagcaaa	13	10	7	11	0	1	1	0	1	1	0	4	2	3	2	3	1	2	2	3	1	6	3			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:118717107C>A	uc004erl.2	+	6	524	c.348C>A	c.(346-348)CCC>CCA	p.P116P	UBE2A_uc004erm.2_Silent_p.P86P|UBE2A_uc004ern.2_RNA|UBE2A_uc004ero.2_RNA|UBE2A_uc004erp.2_Silent_p.P41P	NM_003336	NP_003327	P49459	UBE2A_HUMAN	ubiquitin-conjugating enzyme E2A isoform 1	116					histone H2A ubiquitination|positive regulation of cell proliferation|postreplication repair|protein autoubiquitination|protein K11-linked ubiquitination|protein K48-linked ubiquitination|response to UV|ubiquitin-dependent protein catabolic process		ATP binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity				0						TGGATGAACCCAATCCCAATA	0.398								Direct_reversal_of_damage|Rad6_pathway					23	44					1.10513e-12	1.23195e-12	0.014323	1	0		A	118717107	A	A	118717107	2	1	212	1	0	0	0	0	0	0	0	1	16870	581	21	5		5	UBE2A	23	118717107	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	130145	118717107	36553453	1615	105420											
THOC2	57187	broad.mit.edu	37	chrX	122755101	122755101	+	Missense_Mutation	SNP	A	G	G	1	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	tcctttaacattttcctttgAtttcatttcctttgctatat	7	23	2	9	0	1	1	1	1	0	0	4	1	4	1	3	0	2	1	3	0	3	10			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:122755101A>G	uc004etu.2	-	31	4155	c.4123T>C	c.(4123-4125)TCA>CCA	p.S1375P	THOC2_uc010nqt.1_RNA|THOC2_uc004etw.1_Missense_Mutation_p.S196P	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1375	Lys-rich.				intronless viral mRNA export from host nucleus|mRNA processing|RNA splicing	THO complex part of transcription export complex	protein binding|RNA binding			ovary(3)	3						TTTTCCTTTGATTTCATTTCC	0.413													26	35					0	0	0.004656	0	0		G	122755101	G	G	122755101	3	3	212	1	0	0	0	0	1	0	0	0	15890	333	12	3	690	3	THOC2	23	122755101	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4037994	122755101	32515459	1616	105421											
DCAF12L2	340578	broad.mit.edu	37	chrX	125299270	125299270	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagagccacggtgccgtcgCgggagccgctcacagctacg	8	4	14	15	6	1	1	1	0	0	1	2	2	1	2	3	2	5	2	3	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:125299270C>T	uc004euk.1	-	1	665	c.638G>A	c.(637-639)CGC>CAC	p.R213H		NM_001013628	NP_001013650	Q5VW00	DC122_HUMAN	DDB1 and CUL4 associated factor 12-like 2	213	WD 2.							p.R213C(1)		lung(2)|skin(2)|large_intestine(1)|pancreas(1)|ovary(1)	7						GGTGCCGTCGCGGGAGCCGCT	0.642													21	46					0	0	0.00278	0	0		T	125299270	T	T	125299270	3	4	212	1	0	0	0	0	1	0	0	0	4268	768	27	1	757	1	DCAF12L2	23	125299270	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	2544169	125299270	29971290	1617	105422											
DCAF12L1	139170	broad.mit.edu	37	chrX	125686047	125686047	+	Missense_Mutation	SNP	A	T	T	1	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	cgcccaggcacaggggatccAgggagggcagctggtagatg	9	4	18	10	1	0	1	0	0	0	1	1	3	1	3	2	6	1	4	2	6	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:125686047A>T	uc004eul.2	-	1	796	c.545T>A	c.(544-546)CTG>CAG	p.L182Q		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	182	WD 1.									skin(3)|ovary(1)	4						CAGGGGATCCAGGGAGGGCAG	0.672													20	28					0	0	0.008871	0	0		T	125686047	T	T	125686047	3	4	212	1	0	0	0	0	1	0	0	0	4267	188	7	5	850	5	DCAF12L1	23	125686047	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	386777	125686047	29584513	1618	105423											
OCRL	4952	broad.mit.edu	37	chrX	128710001	128710001	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagccagtactgcaagccatGgcttcgggctgaaccttttg	8	10	11	12	1	0	1	0	1	0	0	1	1	0	1	3	2	5	4	3	2	3	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:128710001G>T	uc004euq.2	+	17	2006	c.1841G>T	c.(1840-1842)TGG>TTG	p.W614L	OCRL_uc004eur.2_Missense_Mutation_p.W614L	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	614					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	clathrin-coated vesicle|cytosol|early endosome|Golgi stack|Golgi-associated vesicle	GTPase activator activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			lung(2)|ovary(1)|kidney(1)	4						TGCAAGCCATGGCTTCGGGCT	0.468													42	81					2.64894e-19	3.05878e-19	0.01441	1	0		T	128710001	T	T	128710001	3	4	212	1	0	0	0	0	1	0	0	0	10842	1357	47	5	1907	5	OCRL	23	128710001	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	3023954	128710001	26560559	1619	105424											
OR13H1	347468	broad.mit.edu	37	chrX	130678804	130678804	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggtgacaatcttctatgggTcagccatctccatgtatatg	9	14	9	9	0	4	1	1	1	3	0	5	1	4	1	2	2	1	1	2	2	4	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:130678804T>C	uc011muw.1	+	1	757	c.757T>C	c.(757-759)TCA>CCA	p.S253P	IGSF1_uc004ewf.2_Intron	NM_001004486	NP_001004486	Q8NG92	O13H1_HUMAN	olfactory receptor, family 13, subfamily H,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Acute lymphoblastic leukemia(192;0.000636)					CTTCTATGGGTCAGCCATCTC	0.478													53	64					0	0	0.01441	0	0		C	130678804	C	C	130678804	3	2	212	1	0	0	0	0	1	0	0	0	10962	1667	58	3	759	3	OR13H1	23	130678804	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	1968803	130678804	24591756	1620	105425											
ATP11C	286410	broad.mit.edu	37	chrX	138864876	138864876	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttgaaggctacacagagtgtCcgatacccatcctaggagta	12	9	10	10	1	0	2	0	1	0	1	2	4	2	3	3	2	2	2	3	2	5	5			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:138864876C>T	uc004faz.2	-	18	1890	c.1791G>A	c.(1789-1791)CGG>CGA	p.R597R	ATP11C_uc004fay.2_RNA|ATP11C_uc004fba.2_Silent_p.R597R	NM_173694	NP_775965	Q8NB49	AT11C_HUMAN	ATPase, class VI, type 11C isoform a	597	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(5)|large_intestine(3)	8	Acute lymphoblastic leukemia(192;0.000127)					CACAGAGTGTCCGATACCCAT	0.358													20	33					0	0	0.010504	0	0		T	138864876	T	T	138864876	2	4	212	1	0	0	0	0	0	0	0	1	1122	842	30	4		4	ATP11C	23	138864876	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	8186072	138864876	16405684	1621	105426											
UBE2NL	389898	broad.mit.edu	37	chrX	142967464	142967464	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tagacaagttggaaagaataAgtttagatattttgaaagat	18	13	9	1	0	0	5	0	1	0	4	0	6	0	6	0	1	0	2	0	1	8	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:142967464A>T	uc004fca.2	+	1	292	c.262A>T	c.(262-264)AGT>TGT	p.S88C		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	88							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					GGAAAGAATAAGTTTAGATAT	0.418													5	68					0	0	0.004482	0	0		T	142967464	T	T	142967464	3	4	212	1	0	0	0	0	1	0	0	0	16893	72	3	5	264	5	UBE2NL	23	142967464	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	4102588	142967464	12303096	1622	105427			1	47		6	6	194	N	T_G_C_A	8.501653e-13
UBE2NL	389898	broad.mit.edu	37	chrX	142967499	142967499	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aaagataagtggtccccagcCctgcagatccgcacagttct	11	8	9	13	1	1	2	0	0	1	2	3	2	3	2	4	1	2	3	4	1	2	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:142967499C>A	uc004fca.2	+	1	327	c.297C>A	c.(295-297)GCC>GCA	p.A99A		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	99							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					GGTCCCCAGCCCTGCAGATCC	0.423													10	102					6.72482e-11	7.36681e-11	0.003163	1	0		A	142967499	A	A	142967499	2	1	212	1	0	0	0	0	0	0	0	1	16893	610	22	5		5	UBE2NL	23	142967499	Silent	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	35	142967499	12303061	1623	105428			1	47		6	6	194	N	T_G_C_A	8.501653e-13
UBE2NL	389898	broad.mit.edu	37	chrX	142967543	142967543	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcgatccaggccttgttaaAtgctcccaatccagatgatc	11	11	7	12	1	0	2	0	1	0	1	5	3	3	2	4	1	1	2	4	1	3	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:142967543A>G	uc004fca.2	+	1	371	c.341A>G	c.(340-342)AAT>AGT	p.N114S		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	114							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					GCCTTGTTAAATGCTCCCAAT	0.453													7	119					0	0	0.006214	0	0		G	142967543	G	G	142967543	3	3	212	1	0	0	0	0	1	0	0	0	16893	101	4	3	343	3	UBE2NL	23	142967543	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	44	142967543	12303017	1624	105429			1	47		6	6	194	N	T_G_C_A	8.501653e-13
UBE2NL	389898	broad.mit.edu	37	chrX	142967582	142967582	+	Missense_Mutation	SNP	T	C	C	0	1	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	tccattagcaaatgatgtagTggagcagtggaagaccaacg	14	8	12	7	1	0	2	0	1	0	1	1	4	1	4	2	2	3	3	2	2	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:142967582T>C	uc004fca.2	+	1	410	c.380T>C	c.(379-381)GTG>GCG	p.V127A		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	127							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					AATGATGTAGTGGAGCAGTGG	0.453													19	118					0	0	0.014323	0	0		C	142967582	C	C	142967582	3	2	212	1	0	0	0	0	1	0	0	0	16893	1696	59	3	382	3	UBE2NL	23	142967582	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	39	142967582	12302978	1625	105430			1	47		6	6	194	N	T_G_C_A	8.501653e-13
UBE2NL	389898	broad.mit.edu	37	chrX	142967616	142967616	+	Silent	SNP	T	A	A	0	1	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	accaacgaagcccaagccatTgaaacagctagagcatggac	16	4	9	12	1	0	2	0	1	0	1	0	4	0	3	3	1	6	2	3	1	5	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:142967616T>A	uc004fca.2	+	1	444	c.414T>A	c.(412-414)ATT>ATA	p.I138I		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	138							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					CCCAAGCCATTGAAACAGCTA	0.428													24	124					0	0	0.013726	0	0		A	142967616	A	A	142967616	2	1	212	1	0	0	0	0	0	0	0	1	16893	1800	63	5		5	UBE2NL	23	142967616	Silent	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	34	142967616	12302944	1626	105431			1	47		6	6	194	N	T_G_C_A	8.501653e-13
UBE2NL	389898	broad.mit.edu	37	chrX	142967657	142967657	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggctatatgccatgaataGtatttaaattgatccaatca	15	14	6	6	0	1	2	1	2	0	0	2	2	2	2	2	1	1	2	2	1	9	8			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:142967657G>A	uc004fca.2	+	1	485	c.455G>A	c.(454-456)AGT>AAT	p.S152N		NM_001012989	NP_001013007	Q5JXB2	UE2NL_HUMAN	ubiquitin-conjugating enzyme E2N-like	152							acid-amino acid ligase activity				0	Acute lymphoblastic leukemia(192;6.56e-05)					GCCATGAATAGTATTTAAATT	0.398													7	79					0	0	0.013537	0	0		A	142967657	A	A	142967657	3	1	212	1	0	0	0	0	1	0	0	0	16893	1029	36	4	457	4	UBE2NL	23	142967657	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	41	142967657	12302903	1627	105432			1	47		6	6	194	N	T_G_C_A	8.501653e-13
MTMR1	8776	broad.mit.edu	37	chrX	149901161	149901161	+	Missense_Mutation	SNP	A	G	G	1	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	cacagtcacacaagcttatcAtctttgatgctcgacaaaac	14	10	5	12	1	3	1	2	1	1	0	4	2	3	1	0	0	3	2	0	0	4	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:149901161A>G	uc004fei.2	+	9	1150	c.1015A>G	c.(1015-1017)ATC>GTC	p.I339V	MTMR1_uc011mya.1_Missense_Mutation_p.I245V|MTMR1_uc004feg.1_Missense_Mutation_p.I339V|MTMR1_uc004feh.1_Missense_Mutation_p.I347V|MTMR1_uc004fej.2_RNA|MTMR1_uc010ntf.2_RNA	NM_003828	NP_003819	Q13613	MTMR1_HUMAN	myotubularin-related protein 1	339	Myotubularin phosphatase.					plasma membrane	protein tyrosine phosphatase activity			ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					CAAGCTTATCATCTTTGATGC	0.413													4	55					0	0	0.009096	0	0		G	149901161	G	G	149901161	3	3	212	1	0	0	0	0	1	0	0	0	9956	217	8	3	1049	3	MTMR1	23	149901161	Missense_Mutation	SNP	A	TCGA-HU-A4GU-01A-11D-A25D-08	6933504	149901161	5369399	1628	105433											
L1CAM	3897	broad.mit.edu	37	chrX	153129001	153129001	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctgggtgtcctccttatccTtcactggagacacagagagg	8	10	11	12	0	1	2	1	0	0	2	4	4	4	2	4	3	0	0	4	3	1	2			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:153129001T>G	uc004fjb.2	-	26	3569	c.3461A>C	c.(3460-3462)AAG>ACG	p.K1154T	L1CAM_uc004fjc.2_Missense_Mutation_p.K1154T|L1CAM_uc010nuo.2_Missense_Mutation_p.K1149T	NM_000425	NP_000416	P32004	L1CAM_HUMAN	L1 cell adhesion molecule isoform 1 precursor	1154	Cytoplasmic (Potential).				axon guidance|blood coagulation|cell death|leukocyte migration	integral to membrane				ovary(8)|central_nervous_system(1)	9	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)					CTCCTTATCCTTCACTGGAGA	0.642													5	16					0	0	0.001168	0	0		G	153129001	G	G	153129001	3	3	212	1	0	0	0	0	1	0	0	0	8604	1609	56	5	324	5	L1CAM	23	153129001	Missense_Mutation	SNP	T	TCGA-HU-A4GU-01A-11D-A25D-08	3227840	153129001	2141559	1629	105434											
HCFC1	3054	broad.mit.edu	37	chrX	153223661	153223661	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaccgatgtccccacctgggCggctgcagtcttcagcatgc	7	8	11	15	2	2	0	1	0	1	0	3	1	3	0	4	2	4	3	4	2	1	1			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:153223661C>T	uc004fjp.2	-	11	2371	c.1843G>A	c.(1843-1845)GCC>ACC	p.A615T		NM_005334	NP_005325	P51610	HCFC1_HUMAN	host cell factor 1	615	Interaction with SIN3A.				cell cycle|interspecies interaction between organisms|positive regulation of cell cycle|positive regulation of gene expression|protein stabilization|reactivation of latent virus|regulation of protein complex assembly|transcription from RNA polymerase II promoter	mitochondrion|MLL1 complex|MLL5-L complex|Set1C/COMPASS complex	chromatin binding|identical protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(2)	2	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)					CCCACCTGGGCGGCTGCAGTC	0.607													15	21					0	0	0.00499	0	0		T	153223661	T	T	153223661	3	4	212	1	0	0	0	0	1	0	0	0	7007	768	27	1	4328	1	HCFC1	23	153223661	Missense_Mutation	SNP	C	TCGA-HU-A4GU-01A-11D-A25D-08	94660	153223661	2046899	1630	105435											
FLNA	2316	broad.mit.edu	37	chrX	153592993	153592993	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacgtgaacggcatactcGccagcctcctgcggccagta	9	6	11	15	4	0	1	0	1	0	0	2	1	1	1	4	2	5	3	4	2	3	2	rs80338841		TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:153592993G>A	uc004fkk.2	-	13	2172	c.1923C>T	c.(1921-1923)GGC>GGT	p.G641G	FLNA_uc010nuu.1_Silent_p.G641G	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	641	Filamin 4.				actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CGGCATACTCGCCAGCCTCCT	0.622													25	29					0	0	0.00278	0	0		A	153592993	A	A	153592993	2	1	212	1	0	0	0	0	0	0	0	1	5947	1074	38	1		1	FLNA	23	153592993	Silent	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	369332	153592993	1677567	1631	105436											
CLIC2	1193	broad.mit.edu	37	chrX	154563727	154563727	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttgagtgccgggccgcaGgcctgacatctttgtcttta	6	12	11	12	2	2	2	0	2	2	0	2	2	2	2	3	2	1	1	3	2	1	4			TCGA-HU-A4GU-01A-11D-A25D-08	TCGA-HU-A4GU-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	58dd2029-bf64-426c-be2b-cc783ca6d671	9d2a2f5d-8369-40f9-8cc5-99b0c1ff8d88	g.chrX:154563727G>T	uc004fnf.2	-	1	260	c.10C>A	c.(10-12)CTG>ATG	p.L4M	CLIC2_uc010nvj.1_Missense_Mutation_p.L4M	NM_001289	NP_001280	O15247	CLIC2_HUMAN	chloride intracellular channel 2	4	N-terminal.|Required for insertion into the membrane (By similarity).				signal transduction	chloride channel complex|cytoplasm|nucleus	voltage-gated chloride channel activity			large_intestine(1)|ovary(1)|skin(1)	3	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)					CCGGGCCGCAGGCCTGACATC	0.413													25	62					3.86903e-22	4.49876e-22	0.013726	1	0		T	154563727	T	T	154563727	3	4	212	1	0	0	0	0	1	0	0	0	3529	991	35	5	757	5	CLIC2	23	154563727	Missense_Mutation	SNP	G	TCGA-HU-A4GU-01A-11D-A25D-08	970734	154563727	706833	1632	105437											
ATAD3A	55210	broad.mit.edu	37	chr1	1459758	1459758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcacaagctctttgactggGccaataccagccggcgcggg	8	7	13	13	3	1	1	0	1	1	0	1	1	1	1	3	3	4	2	3	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:1459758G>A	uc001afz.1	+	11	1433	c.1339G>A	c.(1339-1341)GCC>ACC	p.A447T	ATAD3A_uc001aga.1_Missense_Mutation_p.A399T|ATAD3A_uc001agb.1_Missense_Mutation_p.A320T	NM_018188	NP_060658	Q9NVI7	ATD3A_HUMAN	ATPase family, AAA domain containing 3A	447							ATP binding|nucleoside-triphosphatase activity|protein binding			skin(1)	1	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;1.12e-36)|OV - Ovarian serous cystadenocarcinoma(86;2.18e-22)|Colorectal(212;0.000164)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00233)|BRCA - Breast invasive adenocarcinoma(365;0.00469)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0347)|Lung(427;0.147)		CTTTGACTGGGCCAATACCAG	0.677													16	31					0	0	1	0	0		A	1459758	A	A	1459758	3	1	213	1	0	0	0	0	1	0	0	0	1074	1203	42	2	1381	2	ATAD3A	1	1459758	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		1459758	247790863	1	105438											
SKI	6497	broad.mit.edu	37	chr1	2235330	2235330	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtggcgcccaacgtggccctCgcaccgccggcccagcagaa	7	3	13	18	5	0	1	0	0	0	1	1	1	0	1	5	3	2	2	5	3	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:2235330C>T	uc001aja.3	+	4	1335	c.1263C>T	c.(1261-1263)CTC>CTT	p.L421L		NM_003036	NP_003027	P12755	SKI_HUMAN	v-ski sarcoma viral oncogene homolog	421					anterior/posterior axis specification|BMP signaling pathway|bone morphogenesis|cell motility|cell proliferation|embryonic limb morphogenesis|face morphogenesis|lens morphogenesis in camera-type eye|myelination in peripheral nervous system|myotube differentiation|negative regulation of activin receptor signaling pathway|negative regulation of BMP signaling pathway|negative regulation of fibroblast proliferation|negative regulation of osteoblast differentiation|negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|neural tube closure|nose morphogenesis|olfactory bulb development|palate development|positive regulation of DNA binding|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|protein homotrimerization|regulation of apoptosis|retina development in camera-type eye|skeletal muscle fiber development|SMAD protein signal transduction|somatic stem cell maintenance|transcription, DNA-dependent|transforming growth factor beta receptor signaling pathway	cytoplasm|PML body|transcription factor complex|transcriptional repressor complex	histone deacetylase inhibitor activity|nucleotide binding|protein domain specific binding|protein kinase binding|repressing transcription factor binding|SMAD binding|transcription corepressor activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	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)		ACGTGGCCCTCGCACCGCCGG	0.692													7	11					0	0	1	0	0		T	2235330	T	T	2235330	2	4	213	1	0	0	0	0	0	0	0	1	14382	871	31	1		1	SKI	1	2235330	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	775572	2235330	247015291	2	105439											
MMEL1	79258	broad.mit.edu	37	chr1	2523063	2523063	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaactcgggccggtaggaccCgcaccacacctgtgggcatg	8	5	14	14	3	0	0	0	0	0	0	1	2	0	1	4	4	1	3	4	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:2523063C>T	uc001ajy.2	-	23	2387	c.2173G>A	c.(2173-2175)GGG>AGG	p.G725R	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	725	Lumenal (Potential).				proteolysis	extracellular region|integral to membrane|intracellular membrane-bounded organelle	metal ion binding|metalloendopeptidase activity				0	all_cancers(77;0.000233)|all_epithelial(69;8.55e-05)|all_lung(157;0.0228)|Lung NSC(156;0.0402)|Ovarian(185;0.0634)	all_epithelial(116;1.03e-20)|all_lung(118;5.15e-09)|Lung NSC(185;9.02e-07)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;4.31e-38)|OV - Ovarian serous cystadenocarcinoma(86;8.52e-23)|GBM - Glioblastoma multiforme(42;1.49e-08)|Colorectal(212;4.79e-05)|COAD - Colon adenocarcinoma(227;0.000213)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00219)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.131)		CGGTAGGACCCGCACCACACC	0.647													39	82					0	0	1	0	0		T	2523063	T	T	2523063	3	4	213	1	0	0	0	0	1	0	0	0	9664	652	23	1	174	1	MMEL1	1	2523063	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	287733	2523063	246727558	3	105440											
PLEKHG5	57449	broad.mit.edu	37	chr1	6533171	6533171	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcgcagcccccggggcagccTgggcagcccgaagaggctgt	6	3	17	15	3	0	1	0	0	0	1	0	2	0	1	4	4	3	4	4	4	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:6533171T>C	uc001ano.1	-	10	1128	c.1027A>G	c.(1027-1029)AGG>GGG	p.R343G	PLEKHG5_uc001ann.1_Missense_Mutation_p.R324G|PLEKHG5_uc001anq.1_Missense_Mutation_p.R364G|PLEKHG5_uc001anp.1_Missense_Mutation_p.R364G|PLEKHG5_uc001anj.1_5'Flank|PLEKHG5_uc009vma.1_Missense_Mutation_p.R127G|PLEKHG5_uc010nzr.1_Missense_Mutation_p.R356G|PLEKHG5_uc001ank.1_Missense_Mutation_p.R287G|PLEKHG5_uc009vmb.1_Missense_Mutation_p.R287G|PLEKHG5_uc001anl.1_Missense_Mutation_p.R287G|PLEKHG5_uc001anm.1_Missense_Mutation_p.R287G	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	343					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)		CGGGGCAGCCTGGGCAGCCCG	0.622													20	25					0	0	1	0	0		C	6533171	C	C	6533171	3	2	213	1	0	0	0	0	1	0	0	0	12092	1579	55	3	2213	3	PLEKHG5	1	6533171	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4010108	6533171	242717450	4	105441											
TAS1R1	80835	broad.mit.edu	37	chr1	6636499	6636499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggagcagatccacaaggtgCatttccttctacacaaggac	12	9	9	11	0	1	1	0	0	1	1	3	3	3	3	2	3	3	2	2	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:6636499C>T	uc001ant.2	+	4	1285	c.1285C>T	c.(1285-1287)CAT>TAT	p.H429Y	TAS1R1_uc001anu.2_Missense_Mutation_p.H175Y|TAS1R1_uc001anv.2_Missense_Mutation_p.H175Y|TAS1R1_uc001anw.2_Intron	NM_138697	NP_619642	Q7RTX1	TS1R1_HUMAN	sweet taste receptor T1r isoform b	429	Extracellular (Potential).				sensory perception of umami taste	plasma membrane	protein heterodimerization activity|taste receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	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)		CCACAAGGTGCATTTCCTTCT	0.512													35	114					0	0	1	0	0		T	6636499	T	T	6636499	3	4	213	1	0	0	0	0	1	0	0	0	15587	710	25	2	1299	2	TAS1R1	1	6636499	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	103328	6636499	242614122	5	105442											
ERRFI1	54206	broad.mit.edu	37	chr1	8074255	8074255	+	Frame_Shift_Del	DEL	T	-	-																															aggggaaaagggaaggggagTtttttatgggtgtcagtgga																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:8074255delT	uc001aoz.2	-	4	653	c.404delA	c.(403-405)AACfs	p.N135fs	ERRFI1_uc001apa.1_Frame_Shift_Del_p.N60fs	NM_018948	NP_061821	Q9UJM3	ERRFI_HUMAN	mitogen-inducible gene 6 protein	135					lung alveolus development|lung epithelium development|lung vasculature development|negative regulation of epidermal growth factor receptor activity|negative regulation of protein autophosphorylation|regulation of keratinocyte differentiation|response to stress|skin morphogenesis	cytoplasm|extrinsic to internal side of plasma membrane|nucleus	protein kinase binding|Rho GTPase activator activity			ovary(1)	1	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)		GGAAGGGGAGTTTTTTATGGG	0.502													58	93	---	---	---	---						.	-	8074255	-	-	8074255	7	5	213	1	0	1	0	1	0	0	0	0	5252	1725	60	0	988	0	ERRFI1	1	8074255	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	1437756	8074255	241176366	6	105443											
RERE	473	broad.mit.edu	37	chr1	8415661	8415661	+	Splice_Site	SNP	T	G	G	0	1	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	tcacgggggtagggggtgccTgccgaacacaaaacaacctg	11	5	14	11	2	1	0	1	0	0	0	1	1	1	0	3	4	5	1	3	4	5	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:8415661T>G	uc001ape.2	-	23	5297	c.4487_splice	c.e23-1	p.G1496_splice	RERE_uc001apf.2_Splice_Site_p.G1496_splice|RERE_uc001apd.2_Splice_Site_p.G942_splice	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a						multicellular organismal development|NLS-bearing substrate import into nucleus	mitochondrion	poly-glutamine tract binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Ovarian(185;0.0661)	all_epithelial(116;1.17e-21)|all_lung(118;1.4e-06)|Lung NSC(185;3.06e-06)|Renal(390;0.000147)|Breast(348;0.000206)|Colorectal(325;0.00187)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;9.64e-67)|GBM - Glioblastoma multiforme(8;9.89e-33)|Colorectal(212;1.45e-07)|COAD - Colon adenocarcinoma(227;3.42e-05)|Kidney(185;6e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000533)|KIRC - Kidney renal clear cell carcinoma(229;0.00106)|STAD - Stomach adenocarcinoma(132;0.00118)|READ - Rectum adenocarcinoma(331;0.0419)|Lung(427;0.195)		AGGGGGTGCCTGCCGAACACA	0.642													5	11					0	0	1	0	0		G	8415661	G	G	8415661	5	3	213	1	0	0	0	0	0	0	1	0	13256	1594	55	5	223	5	RERE	1	8415661	Splice_Site	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	341406	8415661	240834960	7	105444											
SLC2A7	155184	broad.mit.edu	37	chr1	9067418	9067418	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaagacacagatgatgccGaggtaggacagctcggggac	13	4	15	9	2	0	3	0	1	0	2	1	6	0	5	1	4	2	3	1	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:9067418G>T	uc009vmo.1	-	10	1143	c.1143C>A	c.(1141-1143)CTC>CTA	p.L381L		NM_207420	NP_997303	Q6PXP3	GTR7_HUMAN	intestinal facilitative glucose transporter 7	381	Helical; (Potential).					integral to membrane|plasma membrane	sugar transmembrane transporter activity				0	Ovarian(185;0.112)|all_lung(157;0.185)	all_epithelial(116;1.34e-15)|all_lung(118;9.46e-05)|Lung NSC(185;0.000172)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.00715)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.04e-07)|COAD - Colon adenocarcinoma(227;7.66e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|STAD - Stomach adenocarcinoma(132;0.00177)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|READ - Rectum adenocarcinoma(331;0.0642)		AGATGATGCCGAGGTAGGACA	0.607													15	28					3.27435e-08	3.4689e-08	1	1	0		T	9067418	T	T	9067418	2	4	213	1	0	0	0	0	0	0	0	1	14575	1045	37	5		5	SLC2A7	1	9067418	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	651757	9067418	240183203	8	105445											
UBE4B	10277	broad.mit.edu	37	chr1	10155592	10155592	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctctaatagccttgaaacGcaatctcagtctctctcacg	10	11	5	15	2	4	1	2	1	4	0	7	1	4	1	2	0	2	1	2	0	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:10155592G>A	uc001aqs.3	+	3	998	c.285G>A	c.(283-285)ACG>ACA	p.T95T	UBE4B_uc001aqr.3_Silent_p.T95T|UBE4B_uc010oai.1_RNA|UBE4B_uc010oaj.1_5'UTR	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	95					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		GCCTTGAAACGCAATCTCAGT	0.443													14	41					0	0	1	0	0		A	10155592	A	A	10155592	2	1	213	1	0	0	0	0	0	0	0	1	16909	1074	38	1		1	UBE4B	1	10155592	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1088174	10155592	239095029	9	105446											
KIF1B	23095	broad.mit.edu	37	chr1	10384888	10384888	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagtgcccaagacgaaagCgaaaccactgtgactggcag	13	5	11	12	2	0	2	0	1	0	1	1	4	1	2	3	1	3	1	3	1	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:10384888C>T	uc001aqx.3	+	26	2812	c.2610C>T	c.(2608-2610)AGC>AGT	p.S870S	KIF1B_uc001aqw.3_Silent_p.S824S|KIF1B_uc001aqy.2_Silent_p.S844S|KIF1B_uc001aqz.2_Silent_p.S870S|KIF1B_uc001ara.2_Silent_p.S830S|KIF1B_uc001arb.2_Silent_p.S856S	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	870					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		AAGACGAAAGCGAAACCACTG	0.468													35	83					0	0	1	0	0		T	10384888	T	T	10384888	2	4	213	1	0	0	0	0	0	0	0	1	8300	767	27	1		1	KIF1B	1	10384888	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	229296	10384888	238865733	10	105447											
KIF1B	23095	broad.mit.edu	37	chr1	10399859	10399859	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccatgatgaagcattctccaCggagcccctcaaaaacaatg	14	7	7	13	1	2	2	1	2	1	0	3	3	2	3	4	1	3	1	4	1	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:10399859C>T	uc001aqx.3	+	32	3657	c.3455C>T	c.(3454-3456)ACG>ATG	p.T1152M	KIF1B_uc001aqw.3_Missense_Mutation_p.T1106M|KIF1B_uc001aqy.2_Missense_Mutation_p.T1126M|KIF1B_uc001aqz.2_Missense_Mutation_p.T1152M|KIF1B_uc001ara.2_Missense_Mutation_p.T1112M|KIF1B_uc001arb.2_Missense_Mutation_p.T1138M	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	1152					anterograde axon cargo transport|apoptosis|neuromuscular synaptic transmission|neuron-neuron synaptic transmission	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|mitochondrion	ATP binding|ATPase activity|kinesin binding|microtubule motor activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	Ovarian(185;0.203)	all_lung(284;1.31e-05)|Lung NSC(185;2.2e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0259)|Colorectal(212;9.79e-07)|COAD - Colon adenocarcinoma(227;0.000143)|BRCA - Breast invasive adenocarcinoma(304;0.000413)|Kidney(185;0.00134)|KIRC - Kidney renal clear cell carcinoma(229;0.0037)|STAD - Stomach adenocarcinoma(132;0.0113)|READ - Rectum adenocarcinoma(331;0.0642)		GCATTCTCCACGGAGCCCCTC	0.393													13	24					0	0	1	0	0		T	10399859	T	T	10399859	3	4	213	1	0	0	0	0	1	0	0	0	8300	536	19	1	4920	1	KIF1B	1	10399859	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	14971	10399859	238850762	11	105448											
C1orf187	374946	broad.mit.edu	37	chr1	11769435	11769435	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcctccaccagcctggcGcccaccatgttctttctcac	7	10	6	18	1	2	0	1	0	2	0	5	1	4	0	6	1	1	1	6	1	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:11769435G>A	uc001asr.1	+	3	695	c.555G>A	c.(553-555)GCG>GCA	p.A185A		NM_198545	NP_940947	Q8NBI3	DRAXI_HUMAN	chromosome 1 open reading frame 187 precursor	185					axon guidance|commissural neuron differentiation in spinal cord|dorsal spinal cord development|forebrain development|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	extracellular region					0	Ovarian(185;0.249)	Lung NSC(185;4.15e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00826)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.48e-06)|COAD - Colon adenocarcinoma(227;0.000283)|BRCA - Breast invasive adenocarcinoma(304;0.000316)|Kidney(185;0.000841)|KIRC - Kidney renal clear cell carcinoma(229;0.00269)|STAD - Stomach adenocarcinoma(313;0.00754)|READ - Rectum adenocarcinoma(331;0.0651)		CCAGCCTGGCGCCCACCATGT	0.632													11	23					0	0	1	0	0		A	11769435	A	A	11769435	2	1	213	1	0	0	0	0	0	0	0	1	2024	1074	38	1		1	C1orf187	1	11769435	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1369576	11769435	237481186	12	105449											
C1orf89	79363	broad.mit.edu	37	chr1	16558758	16558758	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccggaaggctgtgaggtcccGctcgggcacgtccgtgtgca	5	7	16	13	5	0	1	0	1	0	0	3	2	2	2	3	4	1	4	3	4	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:16558758G>A	uc001ayd.2	-	5	984	c.562C>T	c.(562-564)CGG>TGG	p.R188W		NM_030907	NP_112169	Q9BU20	RSG1_HUMAN	hypothetical protein LOC79363	188	Small GTPase-like.				cellular protein localization|cilium assembly|exocytosis|protein transport|regulation of exocytosis|regulation of vesicle fusion|small GTPase mediated signal transduction	cilium|microtubule basal body	GTP binding				0		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;0.0178)|Colorectal(212;3.2e-07)|COAD - Colon adenocarcinoma(227;2.07e-05)|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;0.0114)|READ - Rectum adenocarcinoma(331;0.0649)		GTGAGGTCCCGCTCGGGCACG	0.677													7	14					0	0	1	0	0		A	16558758	A	A	16558758	3	1	213	1	0	0	0	0	1	0	0	0	2069	1086	38	1	218	1	C1orf89	1	16558758	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4789323	16558758	232691863	13	105450											
C1QB	713	broad.mit.edu	37	chr1	22987798	22987798	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacgtcttcctgcaggccacCgacaagaactcactactggg	11	7	9	14	2	2	1	1	0	1	1	3	2	3	1	3	2	4	1	3	2	4	2	rs146518300		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:22987798C>T	uc001bgd.2	+	3	813	c.681C>T	c.(679-681)ACC>ACT	p.T227T		NM_000491	NP_000482	P02746	C1QB_HUMAN	complement component 1, q subcomponent, B chain	227	C1q.				complement activation, classical pathway|innate immune response	collagen|complement component C1 complex				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.06e-27)|Colorectal(126;1.58e-07)|GBM - Glioblastoma multiforme(114;6.72e-06)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000551)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)	Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	TGCAGGCCACCGACAAGAACT	0.567													18	61					0	0	1	0	0		T	22987798	T	T	22987798	2	4	213	1	0	0	0	0	0	0	0	1	1958	639	23	1		1	C1QB	1	22987798	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6429040	22987798	226262823	14	105451											
MYOM3	127294	broad.mit.edu	37	chr1	24400729	24400729	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagtaggtgcccaaatcctcGaggccgggttctttcaggat	8	10	13	10	2	2	0	1	0	1	0	4	3	3	1	3	4	1	2	3	4	2	3	rs143604444	by1000genomes	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:24400729G>A	uc001bin.3	-	23	3052	c.2889C>T	c.(2887-2889)CTC>CTT	p.L963L	MYOM3_uc001bim.3_Silent_p.L620L|MYOM3_uc001bio.2_Silent_p.L963L	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	963										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		CCAAATCCTCGAGGCCGGGTT	0.587													25	56					0	0	1	0	0		A	24400729	A	A	24400729	2	1	213	1	0	0	0	0	0	0	0	1	10111	1045	37	1		1	MYOM3	1	24400729	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1412931	24400729	224849892	15	105452											
NR0B2	8431	broad.mit.edu	37	chr1	27238397	27238397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caacatctccaatgatagggCgaaagaagaggtccccaagc	15	5	10	11	1	1	3	0	1	1	2	3	4	2	3	3	2	2	0	3	2	6	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:27238397C>T	uc001bnf.2	-	2	849	c.713G>A	c.(712-714)CGC>CAC	p.R238H		NM_021969	NP_068804	Q15466	NR0B2_HUMAN	short heterodimer partner	238					cholesterol metabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	DNA binding|protein domain specific binding|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|transcription corepressor activity				0		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)		AATGATAGGGCGAAAGAAGAG	0.612													24	85					0	0	1	0	0		T	27238397	T	T	27238397	3	4	213	1	0	0	0	0	1	0	0	0	10633	768	27	1	64	1	NR0B2	1	27238397	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2837668	27238397	222012224	16	105453											
WASF2	10163	broad.mit.edu	37	chr1	27736343	27736343	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cccggaggaggaggaggaggGggaggaggaggtgctcctcc	8	3	22	8	1	0	0	0	0	0	0	2	8	2	8	3	10	1	1	3	10	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:27736343G>A	uc001bof.1	-	8	1398	c.1182C>T	c.(1180-1182)CCC>CCT	p.P394P	WASF2_uc010ofl.1_Intron	NM_006990	NP_008921	Q9Y6W5	WASF2_HUMAN	WAS protein family, member 2	394	Poly-Pro.				actin cytoskeleton organization|G-protein signaling, coupled to cAMP nucleotide second messenger	actin cytoskeleton|lamellipodium	actin binding			skin(2)|ovary(1)	3		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0446)|OV - Ovarian serous cystadenocarcinoma(117;2.46e-25)|Colorectal(126;1.7e-08)|COAD - Colon adenocarcinoma(152;2e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00139)|KIRC - Kidney renal clear cell carcinoma(1967;0.00204)|STAD - Stomach adenocarcinoma(196;0.00325)|READ - Rectum adenocarcinoma(331;0.0481)		gaggaggagggggaggaggag	0.532													19	24					0	0	1	0	0		A	27736343	A	A	27736343	2	1	213	1	0	0	0	0	0	0	0	1	17279	1219	43	4		4	WASF2	1	27736343	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	497946	27736343	221514278	17	105454											
RCC1	1104	broad.mit.edu	37	chr1	28862888	28862888	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccatacagtctgcatggattCggaaggtagggcctttacgt	9	11	12	9	2	1	0	0	0	1	0	2	2	1	2	2	4	3	2	2	4	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:28862888C>T	uc001bqg.1	+	8	1017	c.932C>T	c.(931-933)TCG>TTG	p.S311L	SNHG3-RCC1_uc001bqa.1_Missense_Mutation_p.S311L|SNHG3-RCC1_uc001bqb.1_Missense_Mutation_p.S311L|SNHG3-RCC1_uc001bqc.1_Missense_Mutation_p.S311L|RCC1_uc001bqe.1_Missense_Mutation_p.S328L|RCC1_uc001bqf.1_Missense_Mutation_p.S342L	NM_001269	NP_001260	P18754	RCC1_HUMAN	regulator of chromosome condensation 1 isoform	311	RCC1 5.				cell division|chromosome segregation|G1/S transition of mitotic cell cycle|mitosis|mitotic spindle organization|regulation of mitosis|regulation of S phase of mitotic cell cycle|spindle assembly|viral reproduction	condensed nuclear chromosome|cytoplasm|nuclear chromatin|nuclear membrane|nucleoplasm	histone binding|nucleosomal DNA binding|Ran guanyl-nucleotide exchange factor activity			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000318)|all_lung(284;0.000434)|Renal(390;0.00121)|Breast(348;0.00345)|all_neural(195;0.00989)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0261)|Medulloblastoma(700;0.123)		Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|STAD - Stomach adenocarcinoma(196;0.00299)|KIRC - Kidney renal clear cell carcinoma(1967;0.0101)|BRCA - Breast invasive adenocarcinoma(304;0.022)|READ - Rectum adenocarcinoma(331;0.0649)		TGCATGGATTCGGAAGGTAGG	0.542													40	97					0	0	1	0	0		T	28862888	T	T	28862888	3	4	213	1	0	0	0	0	1	0	0	0	13198	893	31	1	1055	1	RCC1	1	28862888	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1126545	28862888	220387733	18	105455											
IQCC	55721	broad.mit.edu	37	chr1	32672879	32672879	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acactgagatccccagaggcGggcccgatcagagaggaacc	12	3	13	13	2	1	3	1	1	0	3	2	7	2	4	4	3	1	0	4	3	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:32672879G>A	uc001bum.2	+	5	644	c.597G>A	c.(595-597)GCG>GCA	p.A199A	IQCC_uc009vua.2_Silent_p.A279A|IQCC_uc010ogz.1_Silent_p.A99A|DCDC2B_uc001bun.2_5'Flank	NM_018134	NP_060604	Q4KMZ1	IQCC_HUMAN	IQ motif containing C isoform 2	199										ovary(4)	4		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				CCCCAGAGGCGGGCCCGATCA	0.567													33	83					0	0	1	0	0		A	32672879	A	A	32672879	2	1	213	1	0	0	0	0	0	0	0	1	7820	1103	39	1		1	IQCC	1	32672879	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3809991	32672879	216577742	19	105456											
CLSPN	63967	broad.mit.edu	37	chr1	36215282	36215283	+	Frame_Shift_Del	DEL	GA	-	-																															gaagtaaagtagaatctgatGagagagacttgggaacagag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:36215282_36215283delGA	uc001bzi.2	-	11	2238_2239	c.2158_2159delTC	c.(2158-2160)TCAfs	p.S720fs	CLSPN_uc009vux.2_Frame_Shift_Del_p.S656fs	NM_022111	NP_071394	Q9HAW4	CLSPN_HUMAN	claspin	720					activation of protein kinase activity|cell cycle|cellular component disassembly involved in apoptosis|DNA repair|DNA replication|G2/M transition DNA damage checkpoint|mitotic cell cycle DNA replication checkpoint|peptidyl-serine phosphorylation	nucleoplasm	anaphase-promoting complex binding|DNA binding			breast(2)|ovary(2)|central_nervous_system(1)|lung(1)|skin(1)|kidney(1)	8		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				AGAATCTGATGAGAGAGACTTG	0.381													22	33	---	---	---	---						.	-	36215283	-	-	36215282	7	5	213	1	0	1	0	1	0	0	0	0	3563	1294	45	0	1920	0	CLSPN	1	36215282	Frame_Shift_Del	DEL	GA	TCGA-HU-A4H3-01A-21D-A25D-08	3542403	36215282	213035339	20	105457											
EIF2C4	192670	broad.mit.edu	37	chr1	36288485	36288485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtagtagatacaatggtgCggcacttcaagatgcaaata	15	9	11	6	1	1	2	1	0	0	2	1	2	1	2	0	3	3	4	0	3	7	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:36288485C>T	uc001bzj.1	+	3	398	c.208C>T	c.(208-210)CGG>TGG	p.R70W		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	70					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TACAATGGTGCGGCACTTCAA	0.423													19	33					0	0	1	0	0		T	36288485	T	T	36288485	3	4	213	1	0	0	0	0	1	0	0	0	5014	759	27	1	218	1	EIF2C4	1	36288485	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	73203	36288485	212962136	21	105458											
STK40	83931	broad.mit.edu	37	chr1	36809855	36809855	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atgtcactgggcttgccacgGtacggccggcctacgggcac	6	7	14	14	4	1	0	1	0	0	0	1	0	1	0	3	5	3	3	3	5	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:36809855G>A	uc001cak.1	-	9	1157	c.750C>T	c.(748-750)TAC>TAT	p.Y250Y	STK40_uc001cal.1_Silent_p.Y255Y|STK40_uc001cam.1_Silent_p.Y250Y|STK40_uc009vva.1_Silent_p.Y250Y|STK40_uc001can.1_Silent_p.Y250Y	NM_032017	NP_114406	Q8N2I9	STK40_HUMAN	serine/threonine kinase 40	250	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)				GCTTGCCACGGTACGGCCGGC	0.637													26	51					0	0	1	0	0		A	36809855	A	A	36809855	2	1	213	1	0	0	0	0	0	0	0	1	15332	1256	44	4		4	STK40	1	36809855	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	521370	36809855	212440766	22	105459											
DNALI1	7802	broad.mit.edu	37	chr1	38027698	38027698	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcagatcgcagaattggagaCggaaaagagagacctggaga	16	5	14	6	2	1	6	1	0	0	6	2	10	1	7	1	3	0	1	1	3	3	1	rs140560934	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:38027698C>T	uc001cbj.2	+	5	669	c.659C>T	c.(658-660)ACG>ATG	p.T220M	DNALI1_uc010oie.1_RNA	NM_003462	NP_003453	O14645	IDLC_HUMAN	dynein, axonemal, light intermediate chain 1	198	Potential.				cellular component movement|single fertilization	axonemal dynein complex	microtubule motor activity			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				GAATTGGAGACGGAAAAGAGA	0.557											OREG0013380	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	50					0	0	1	0	0		T	38027698	T	T	38027698	3	4	213	1	0	0	0	0	1	0	0	0	4665	536	19	1	677	1	DNALI1	1	38027698	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1217843	38027698	211222923	23	105460											
INPP5B	3633	broad.mit.edu	37	chr1	38411462	38411462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccgtgctccaggcggtagcGcacgagtcccaggaggcggc	6	4	17	14	5	0	0	0	0	0	0	2	2	2	1	3	5	2	3	3	5	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:38411462G>A	uc001ccg.1	-	3	212	c.118C>T	c.(118-120)CGC>TGC	p.R40C	INPP5B_uc009vvk.1_5'UTR|INPP5B_uc001cch.2_5'UTR	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	40					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AGGCGGTAGCGCACGAGTCCC	0.667													36	62					0	0	1	0	0		A	38411462	A	A	38411462	3	1	213	1	0	0	0	0	1	0	0	0	7771	1087	38	1	2711	1	INPP5B	1	38411462	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	383764	38411462	210839159	24	105461											
BMP8A	353500	broad.mit.edu	37	chr1	39988086	39988086	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccctgcagatgacgtccgcGgctcccacggccggcaggtc	5	6	13	17	5	0	2	0	1	0	1	4	2	3	2	4	4	1	3	4	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:39988086G>A	uc001cdi.2	+	5	1226	c.880G>A	c.(880-882)GGC>AGC	p.G294S	PPIEL_uc001cdj.1_RNA|PPIEL_uc001cdk.2_RNA	NM_181809	NP_861525	Q7Z5Y6	BMP8A_HUMAN	bone morphogenetic protein 8A precursor	294					cartilage development|cell differentiation|growth|ossification	extracellular space	cytokine activity|growth factor activity				0	Lung NSC(20;2.08e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;9.69e-19)|Epithelial(16;9.34e-17)|all cancers(16;1.73e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TGACGTCCGCGGCTCCCACGG	0.597													17	81					0	0	1	0	0		A	39988086	A	A	39988086	3	1	213	1	0	0	0	0	1	0	0	0	1467	1116	39	1	898	1	BMP8A	1	39988086	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1576624	39988086	209262535	25	105462											
CCDC17	149483	broad.mit.edu	37	chr1	46086576	46086576	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccctgcgcaccacactcaccTgaggaatcccattcagctgc	9	7	7	18	1	2	1	2	1	0	0	3	2	3	2	4	1	3	2	4	1	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:46086576T>C	uc010olt.1	-	11	1746	c.1598A>G	c.(1597-1599)CAG>CGG	p.Q533R	CCDC17_uc009vxy.2_Missense_Mutation_p.Q501R|CCDC17_uc010ols.1_Missense_Mutation_p.Q524R|CCDC17_uc001com.3_Missense_Mutation_p.Q354R|CCDC17_uc001con.3_RNA|CCDC17_uc009vxz.2_Intron	NM_001114938	NP_001108410	Q96LX7	CCD17_HUMAN	coiled-coil domain containing 17	533										ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CACACTCACCTGAGGAATCCC	0.592													9	12					0	0	1	0	0		C	46086576	C	C	46086576	3	2	213	1	0	0	0	0	1	0	0	0	2796	1594	55	3	282	3	CCDC17	1	46086576	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	6098490	46086576	203164045	26	105463											
MAST2	23139	broad.mit.edu	37	chr1	46498028	46498028	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttcaccctgcgggccattcgCgtctacatgggtgactccga	6	10	11	14	4	2	1	1	1	1	0	4	2	3	1	3	2	2	0	3	2	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:46498028C>T	uc001cov.2	+	25	3649	c.3366C>T	c.(3364-3366)CGC>CGT	p.R1122R	MAST2_uc001cow.2_Silent_p.R1122R|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	1122	PDZ.				regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					GGGCCATTCGCGTCTACATGG	0.572													20	38					0	0	1	0	0		T	46498028	T	T	46498028	2	4	213	1	0	0	0	0	0	0	0	1	9343	755	27	1		1	MAST2	1	46498028	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	411452	46498028	202752593	27	105464											
C1orf190	541468	broad.mit.edu	37	chr1	46685377	46685377	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcccactcccccaggcttacCtgcgagccatcgatgtgaag	8	8	9	16	2	0	1	0	1	0	0	3	3	2	1	5	1	3	1	5	1	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:46685377C>A	uc010oma.1	+	2	298	c.205C>A	c.(205-207)CTG>ATG	p.L69M	POMGNT1_uc001cpg.2_5'UTR|POMGNT1_uc001cpf.2_5'UTR	NM_001013615	NP_001013633	Q96LR2	CA190_HUMAN	hypothetical protein LOC541468	69					positive regulation of cytokine production|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm				ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)					CCAGGCTTACCTGCGAGCCAT	0.592													24	72					5.45024e-15	6.04816e-15	1	1	0		A	46685377	A	A	46685377	3	1	213	1	0	0	0	0	1	0	0	0	2026	680	24	5	211	5	C1orf190	1	46685377	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	187349	46685377	202565244	28	105465											
CYP4B1	1580	broad.mit.edu	37	chr1	47280902	47280902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgttgtagagaggaggtcCgcgagatcctaggggaccag	10	7	16	8	3	0	2	0	0	0	2	3	6	2	4	3	4	0	2	3	4	2	3	rs56180718		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:47280902C>T	uc001cqm.3	+	8	1120	c.1036C>T	c.(1036-1038)CGC>TGC	p.R346C	CYP4B1_uc009vyl.1_Missense_Mutation_p.R183C|CYP4B1_uc001cqn.3_Missense_Mutation_p.R347C|CYP4B1_uc009vym.2_Missense_Mutation_p.R332C|CYP4B1_uc010omk.1_Missense_Mutation_p.R183C	NM_000779	NP_000770	P13584	CP4B1_HUMAN	cytochrome P450, family 4, subfamily B,	346					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(166;0.155)					AGAGGAGGTCCGCGAGATCCT	0.582													6	30					0	0	1	0	0		T	47280902	T	T	47280902	3	4	213	1	0	0	0	0	1	0	0	0	4188	652	23	1	1069	1	CYP4B1	1	47280902	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	595525	47280902	201969719	29	105466											
FAM151A	338094	broad.mit.edu	37	chr1	55075225	55075225	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcatatctgtgagcagctGttccctgtagccactgccca	8	11	9	13	0	1	1	0	1	1	0	2	1	2	1	3	0	5	5	3	0	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:55075225G>A	uc001cxn.2	-	8	1606	c.1474C>T	c.(1474-1476)CAG>TAG	p.Q492*	ACOT11_uc001cxj.1_3'UTR|ACOT11_uc001cxl.1_3'UTR|ACOT11_uc001cxm.1_Intron	NM_176782	NP_788954	Q8WW52	F151A_HUMAN	hypothetical protein LOC338094	492						integral to membrane					0						GTGAGCAGCTGTTCCCTGTAG	0.617													37	63					0	0	1	0	0		A	55075225	A	A	55075225	4	1	213	1	0	0	0	0	0	1	0	0	5469	1386	48	4	287	4	FAM151A	1	55075225	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7794323	55075225	194175396	30	105467											
LEPR	3953	broad.mit.edu	37	chr1	66102677	66102677	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cataagatcatggaaaacaaGatgtgtgacctaactgtgta	16	10	9	6	0	1	3	1	1	0	2	1	4	1	4	1	1	2	1	1	1	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:66102677G>T	uc001dci.2	+	20	3679	c.3477G>T	c.(3475-3477)AAG>AAT	p.K1159N	LEPR_uc009waq.2_3'UTR	NM_002303	NP_002294	P48357	LEPR_HUMAN	leptin receptor isoform 1	1159	Cytoplasmic (Potential).				energy reserve metabolic process|multicellular organismal development	extracellular region|integral to membrane|plasma membrane	cytokine receptor activity			skin(1)	1				OV - Ovarian serous cystadenocarcinoma(397;0.00722)|KIRC - Kidney renal clear cell carcinoma(1967;0.094)		TGGAAAACAAGATGTGTGACC	0.338													17	48					5.01169e-05	5.16892e-05	1	1	0		T	66102677	T	T	66102677	3	4	213	1	0	0	0	0	1	0	0	0	8744	933	33	5	3777	5	LEPR	1	66102677	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	11027452	66102677	183147944	31	105468											
DIRAS3	9077	broad.mit.edu	37	chr1	68512858	68512858	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaccagcggtgccgactacCacgacgcggtaatctctgat	10	7	10	14	5	1	1	0	1	1	0	2	3	1	1	3	2	3	1	3	2	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:68512858C>A	uc001ded.2	-	2	418	c.123G>T	c.(121-123)GTG>GTT	p.V41V	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	41					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						TGCCGACTACCACGACGCGGT	0.582													38	80					9.8876e-21	1.11607e-20	1	1	0		A	68512858	A	A	68512858	2	1	213	1	0	0	0	0	0	0	0	1	4538	581	21	5		5	DIRAS3	1	68512858	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2410181	68512858	180737763	32	105469											
FUBP1	8880	broad.mit.edu	37	chr1	78414859	78414859	+	Missense_Mutation	SNP	T	G	G	0	1	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	cctgaggtgctggaggatgcTgtggcattccctggggactt	5	11	16	9	0	0	1	0	1	0	0	1	4	1	4	2	6	2	3	2	6	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:78414859T>G	uc001dii.2	-	19	1996	c.1907A>C	c.(1906-1908)CAG>CCG	p.Q636P	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Missense_Mutation_p.Q657P	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	636					transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						TGGAGGATGCTGTGGCATTCC	0.458													29	83					0	0	1	0	0		G	78414859	G	G	78414859	3	3	213	1	0	0	0	0	1	0	0	0	6106	1580	55	5	35	5	FUBP1	1	78414859	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	9902001	78414859	170835762	33	105470											
LPAR3	23566	broad.mit.edu	37	chr1	85331255	85331255	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaacaaggtaactcctgctGtaaatgggggccagggaaga	15	6	13	7	0	0	1	0	0	0	1	1	2	1	2	2	4	3	3	2	4	7	2	rs144051702	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:85331255G>A	uc001dkl.2	-	1	588	c.549C>T	c.(547-549)TAC>TAT	p.Y183Y	LPAR3_uc009wcj.1_Silent_p.Y183Y	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	183	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				lung(3)|ovary(2)	5						AACTCCTGCTGTAAATGGGGG	0.537													26	57					0	0	1	0	0		A	85331255	A	A	85331255	2	1	213	1	0	0	0	0	0	0	0	1	8924	1372	48	4		4	LPAR3	1	85331255	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6916396	85331255	163919366	34	105471											
GBP6	163351	broad.mit.edu	37	chr1	89844152	89844152	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagatgaatacctggagaAtgccttgaagctgattcaag	15	9	11	6	0	1	6	1	3	0	3	1	7	1	6	2	1	3	1	2	1	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:89844152A>G	uc001dnf.2	+	5	879	c.605A>G	c.(604-606)AAT>AGT	p.N202S	GBP6_uc010ost.1_Missense_Mutation_p.N72S	NM_198460	NP_940862	Q6ZN66	GBP6_HUMAN	guanylate binding protein family, member 6	202							GTP binding|GTPase activity			ovary(2)	2		Lung NSC(277;0.0908)		all cancers(265;0.0108)|Epithelial(280;0.0398)		TACCTGGAGAATGCCTTGAAG	0.488													20	36					0	0	1	0	0		G	89844152	G	G	89844152	3	3	213	1	0	0	0	0	1	0	0	0	6293	101	4	3	619	3	GBP6	1	89844152	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	4512897	89844152	159406469	35	105472											
LRRC8D	55144	broad.mit.edu	37	chr1	90399416	90399416	+	Silent	SNP	T	C	C	0	1	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	actggctttaaattttcagcTgagaagcctgtgattgaagt	11	14	10	6	0	1	3	1	3	0	1	1	4	1	3	1	1	2	2	1	1	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:90399416T>C	uc001dnm.2	+	3	1214	c.789T>C	c.(787-789)GCT>GCC	p.A263A	LRRC8D_uc001dnn.2_Silent_p.A263A	NM_001134479	NP_001127951	Q7L1W4	LRC8D_HUMAN	leucine rich repeat containing 8 family, member	263						integral to membrane	protein binding			ovary(2)	2		all_lung(203;0.0894)|Lung NSC(277;0.227)		all cancers(265;0.0109)|Epithelial(280;0.0427)		AATTTTCAGCTGAGAAGCCTG	0.478													4	27					0	0	1	0	0		C	90399416	C	C	90399416	2	2	213	1	0	0	0	0	0	0	0	1	9042	1567	55	3		3	LRRC8D	1	90399416	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	555264	90399416	158851205	36	105473											
KIAA1324	57535	broad.mit.edu	37	chr1	109741246	109741246	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gggagatcaaccaccatccgCgtcaggtgcagtccacagaa	12	5	11	13	2	2	2	2	0	0	2	4	3	4	2	4	2	2	1	4	2	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:109741246C>T	uc001dwq.2	+	19	2587	c.2451C>T	c.(2449-2451)CGC>CGT	p.R817R	KIAA1324_uc009wex.1_Silent_p.R767R|KIAA1324_uc009wey.2_Silent_p.R730R|KIAA1324_uc010ovg.1_Silent_p.R715R|KIAA1324_uc001dwr.2_Silent_p.R467R|KIAA1324_uc001dws.1_RNA|KIAA1324_uc009wez.1_RNA	NM_020775	NP_065826	Q6UXG2	K1324_HUMAN	hypothetical protein LOC57535 precursor	817	Extracellular (Potential).				macroautophagy|positive regulation of vacuole organization|regulation of apoptosis	integral to plasma membrane				ovary(2)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	5		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)		CCACCATCCGCGTCAGGTGCA	0.532													10	11					0	0	1	0	0		T	109741246	T	T	109741246	2	4	213	1	0	0	0	0	0	0	0	1	8239	755	27	1		1	KIAA1324	1	109741246	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	19341830	109741246	139509375	37	105474											
EPS8L3	79574	broad.mit.edu	37	chr1	110301862	110301862	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcacccccgaccactcacccCcacttcctggcactggaaga	9	6	6	20	1	2	1	2	0	0	1	3	3	3	2	6	2	0	1	6	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:110301862C>A	uc001dyr.1	-	5	548	c.403G>T	c.(403-405)GGG>TGG	p.G135W	EPS8L3_uc001dys.1_Missense_Mutation_p.G135W|EPS8L3_uc001dyq.1_Missense_Mutation_p.G135W|EPS8L3_uc009wfm.1_Missense_Mutation_p.G101W|EPS8L3_uc009wfn.1_Missense_Mutation_p.G101W|EPS8L3_uc009wfo.1_Missense_Mutation_p.G82W	NM_133181	NP_573444	Q8TE67	ES8L3_HUMAN	epidermal growth factor receptor pathway	135						cytoplasm	protein binding			ovary(2)|skin(1)	3		all_epithelial(167;1.95e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)		Lung(183;0.0245)|Colorectal(144;0.0365)|all cancers(265;0.103)|Epithelial(280;0.109)|LUSC - Lung squamous cell carcinoma(189;0.137)|COAD - Colon adenocarcinoma(174;0.141)		CCACTCACCCCCACTTCCTGG	0.493													51	93					9.52127e-25	1.08168e-24	1	1	0		A	110301862	A	A	110301862	3	1	213	1	0	0	0	0	1	0	0	0	5205	623	22	5	1441	5	EPS8L3	1	110301862	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	560616	110301862	138948759	38	105475											
AHCYL1	10768	broad.mit.edu	37	chr1	110551702	110551702	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggagttcaccaaattccccaCcaaaactggccgaagatctt	13	8	7	13	1	2	1	1	0	1	1	3	3	3	2	5	2	1	1	5	2	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:110551702C>T	uc001dyx.2	+	2	534	c.167C>T	c.(166-168)ACC>ATC	p.T56I	AHCYL1_uc010ovw.1_Missense_Mutation_p.T9I|AHCYL1_uc001dyy.2_Missense_Mutation_p.T9I|AHCYL1_uc010ovx.1_Missense_Mutation_p.T9I	NM_006621	NP_006612	O43865	SAHH2_HUMAN	S-adenosylhomocysteine hydrolase-like 1	56					one-carbon metabolic process	endoplasmic reticulum	adenosylhomocysteinase activity			ovary(1)	1		all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0259)|Colorectal(144;0.123)|all cancers(265;0.134)|Epithelial(280;0.141)|LUSC - Lung squamous cell carcinoma(189;0.143)		AAATTCCCCACCAAAACTGGC	0.423													17	39					0	0	1	0	0		T	110551702	T	T	110551702	3	4	213	1	0	0	0	0	1	0	0	0	410	507	18	4	173	4	AHCYL1	1	110551702	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	249840	110551702	138698919	39	105476											
KCNC4	3749	broad.mit.edu	37	chr1	110754325	110754325	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcgcctggctggccgacccCgacggcgggggccggcccga	3	3	17	18	7	0	0	0	0	0	0	1	3	0	0	6	6	0	1	6	6	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:110754325C>T	uc001dzh.2	+	1	261	c.204C>T	c.(202-204)CCC>CCT	p.P68P	KCNC4_uc001dzf.2_Silent_p.P68P|KCNC4_uc009wfr.2_Silent_p.P68P|KCNC4_uc001dzg.2_Silent_p.P68P|KCNC4_uc001dzi.2_RNA	NM_004978	NP_004969	Q03721	KCNC4_HUMAN	Shaw-related voltage-gated potassium channel	68	Cytoplasmic (Potential).				synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3		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)		TGGCCGACCCCGACGGCGGGG	0.527													5	14					0	0	1	0	0		T	110754325	T	T	110754325	2	4	213	1	0	0	0	0	0	0	0	1	8033	639	23	1		1	KCNC4	1	110754325	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	202623	110754325	138496296	40	105477											
OTUD7B	56957	broad.mit.edu	37	chr1	149916658	149916658	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttctccagtgtctcagtgcCgctgcttcctcccaaccctg	4	12	7	18	1	2	0	1	0	2	0	6	0	4	0	5	0	3	2	5	0	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:149916658C>T	uc001etn.2	-	12	1986	c.1630G>A	c.(1630-1632)GGC>AGC	p.G544S		NM_020205	NP_064590	Q6GQQ9	OTU7B_HUMAN	zinc finger protein Cezanne	544					negative regulation of I-kappaB kinase/NF-kappaB cascade	cytoplasm|microtubule cytoskeleton|nucleus	cysteine-type peptidase activity|DNA binding|protein binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	Breast(34;0.0009)|Ovarian(49;0.0265)|all_hematologic(923;0.0597)|Hepatocellular(266;0.161)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)|STAD - Stomach adenocarcinoma(528;0.247)			GTCTCAGTGCCGCTGCTTCCT	0.582													54	90					0	0	1	0	0		T	149916658	T	T	149916658	3	4	213	1	0	0	0	0	1	0	0	0	11338	652	23	1	905	1	OTUD7B	1	149916658	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	39162333	149916658	99333963	41	105478											
PSMB4	5692	broad.mit.edu	37	chr1	151373273	151373273	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggacatgcttggtgtagcCtatgaagccccttcgctggc	6	11	13	11	1	0	1	0	1	0	0	1	2	0	2	3	3	3	3	3	3	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:151373273C>T	uc001eyc.1	+	4	551	c.528C>T	c.(526-528)GCC>GCT	p.A176A	PSMB4_uc010pda.1_3'UTR|PSMB4_uc001eyb.1_3'UTR	NM_002796	NP_002787	P28070	PSB4_HUMAN	proteasome beta 4 subunit	176					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex	threonine-type endopeptidase activity			ovary(2)	2	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)			TTGGTGTAGCCTATGAAGCCC	0.323													69	155					0	0	1	0	0		T	151373273	T	T	151373273	2	4	213	1	0	0	0	0	0	0	0	1	12701	668	24	4		4	PSMB4	1	151373273	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1456615	151373273	97877348	42	105479											
INTS3	65123	broad.mit.edu	37	chr1	153740271	153740271	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggaggacgatgtgcggctcCtgtgccacctcacgccctcc	6	7	12	16	3	1	0	1	0	0	0	3	3	3	2	5	3	2	1	5	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:153740271C>A	uc009wom.2	+	22	2433	c.2212C>A	c.(2212-2214)CTG>ATG	p.L738M	INTS3_uc001fct.2_Missense_Mutation_p.L738M|INTS3_uc001fcu.2_Missense_Mutation_p.L430M|INTS3_uc001fcv.2_Missense_Mutation_p.L532M|INTS3_uc010peb.1_Missense_Mutation_p.L532M|INTS3_uc001fcw.2_Missense_Mutation_p.L251M|INTS3_uc010pec.1_Missense_Mutation_p.L251M|INTS3_uc001fcy.2_Missense_Mutation_p.L35M|INTS3_uc001fcx.2_Missense_Mutation_p.L35M	NM_023015	NP_075391	Q68E01	INT3_HUMAN	integrator complex subunit 3	739					DNA repair|G2/M transition checkpoint|response to ionizing radiation|snRNA processing	integrator complex|SOSS complex	protein binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(78;3.75e-32)|Lung NSC(65;1.37e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)			TGTGCGGCTCCTGTGCCACCT	0.592													30	44					1.7881e-09	1.92143e-09	1	1	0		A	153740271	A	A	153740271	3	1	213	1	0	0	0	0	1	0	0	0	7795	680	24	5	2294	5	INTS3	1	153740271	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2366998	153740271	95510350	43	105480											
GATAD2B	57459	broad.mit.edu	37	chr1	153785764	153785764	+	Silent	SNP	G	A	A	0	0	1	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	tttcacaaatgcatttttcaGccggttggtgtgttcagctt	7	17	9	8	1	3	0	3	0	0	0	3	0	3	0	1	2	3	4	1	2	1	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:153785764G>A	uc001fdb.3	-	8	1625	c.1381C>T	c.(1381-1383)CTG>TTG	p.L461L		NM_020699	NP_065750	Q8WXI9	P66B_HUMAN	GATA zinc finger domain containing 2B	461	Potential.|GATA-type.|CR2.					nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	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)			GCATTTTTCAGCCGGTTGGTG	0.473													13	80					0	0	1	0	0		A	153785764	A	A	153785764	2	1	213	1	0	0	0	0	0	0	0	1	6276	962	34	2		2	GATAD2B	1	153785764	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	45493	153785764	95464857	44	105481											
ASH1L	55870	broad.mit.edu	37	chr1	155340428	155340428	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	actgtgattatgatactgctCaatcatcctgttcctaaaga	12	14	6	9	0	2	3	2	2	0	1	4	3	4	3	2	0	2	2	2	0	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:155340428C>G	uc009wqq.2	-	12	7048	c.6568G>C	c.(6568-6570)GAG>CAG	p.E2190Q	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.E2185Q	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2190	SET.				cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			TGATACTGCTCAATCATCCTG	0.393													6	68					0	0	1	0	0		G	155340428	G	G	155340428	3	3	213	1	0	0	0	0	1	0	0	0	1042	835	29	5	2409	5	ASH1L	1	155340428	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1554664	155340428	93910193	45	105482											
GON4L	54856	broad.mit.edu	37	chr1	155735282	155735282	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctctctagcttcttcaggttCcatcttgacaatttcctcta	7	17	4	13	0	5	1	1	1	4	0	8	1	7	1	2	1	1	2	2	1	3	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:155735282C>T	uc001flz.2	-	21	4079	c.3982G>A	c.(3982-3984)GAA>AAA	p.E1328K	GON4L_uc009wrg.1_RNA|GON4L_uc001fly.1_Missense_Mutation_p.E1328K|GON4L_uc009wrh.1_Missense_Mutation_p.E1328K|GON4L_uc001fma.1_Missense_Mutation_p.E1328K|GON4L_uc001fmb.3_Missense_Mutation_p.E524K|GON4L_uc001fmc.2_Missense_Mutation_p.E1328K|GON4L_uc001fmd.3_Missense_Mutation_p.E1328K|GON4L_uc009wri.2_Missense_Mutation_p.E914K	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a	1328					regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					TCTTCAGGTTCCATCTTGACA	0.517													26	56					0	0	1	0	0		T	155735282	T	T	155735282	3	4	213	1	0	0	0	0	1	0	0	0	6587	864	30	4	2905	4	GON4L	1	155735282	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	394854	155735282	93515339	46	105483											
UBQLN4	56893	broad.mit.edu	37	chr1	156013976	156013976	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctgggaggatgagctgtcGgagttcccggccagggaaga	8	6	19	8	2	0	2	0	1	0	1	2	6	1	6	2	6	1	3	2	6	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:156013976G>A	uc001fna.2	-	6	963	c.939C>T	c.(937-939)TCC>TCT	p.S313S	UBQLN4_uc010pgx.1_Silent_p.S293S	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	313						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)|skin(1)	2	Hepatocellular(266;0.133)|all_neural(408;0.195)					ATGAGCTGTCGGAGTTCCCGG	0.627													3	2					0	0	1	0	0		A	156013976	A	A	156013976	2	1	213	1	0	0	0	0	0	0	0	1	16925	1103	39	1		1	UBQLN4	1	156013976	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	278694	156013976	93236645	47	105484											
PRCC	5546	broad.mit.edu	37	chr1	156756452	156756452	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcttccccaacctaaaaaccTgactgtgaaagagactaaca	16	7	6	12	0	0	3	0	2	0	1	1	4	1	3	4	0	3	1	4	0	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:156756452T>C	uc001fqa.2	+	3	859	c.569T>C	c.(568-570)CTG>CCG	p.L190P	PRCC_uc001fqb.2_Missense_Mutation_p.L190P	NM_005973	NP_005964	Q92733	PRCC_HUMAN	papillary renal cell carcinoma	190					cell cycle|mitotic cell cycle checkpoint	nucleus	protein binding		PRCC/TFE3(25)	kidney(25)|central_nervous_system(2)	27	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CCTAAAAACCTGACTGTGAAA	0.542			T	TFE3	papillary renal 								34	60					0	0	1	0	0		C	156756452	C	C	156756452	3	2	213	1	0	0	0	0	1	0	0	0	12469	1580	55	3	579	3	PRCC	1	156756452	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	742476	156756452	92494169	48	105485											
PEAR1	375033	broad.mit.edu	37	chr1	156877817	156877817	+	Silent	SNP	C	T	T	0	0	0	1	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	cgattcactgggcagtgccgCtgcgctccgggttacactgg	5	9	14	13	4	1	0	1	0	0	0	2	1	2	0	2	3	3	4	2	3	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:156877817C>T	uc001fqj.1	+	8	992	c.876C>T	c.(874-876)CGC>CGT	p.R292R	PEAR1_uc009wsl.1_Silent_p.R93R|PEAR1_uc001fqk.1_5'UTR	NM_001080471	NP_001073940	Q5VY43	PEAR1_HUMAN	platelet endothelial aggregation receptor 1	292	EGF-like 3.					integral to membrane				ovary(2)|central_nervous_system(1)	3	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GGCAGTGCCGCTGCGCTCCGG	0.697													3	4					0	0	1	0	0		T	156877817	T	T	156877817	2	4	213	1	0	0	0	0	0	0	0	1	11731	784	28	2		2	PEAR1	1	156877817	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	121365	156877817	92372804	49	105486											
FCRL5	83416	broad.mit.edu	37	chr1	157490981	157490981	+	Frame_Shift_Del	DEL	G	-	-																															aaaaaaccggtacaggatcaGgggagagcctctcagggcct																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:157490981delG	uc001fqu.2	-	11	2499	c.2341delC	c.(2341-2343)CTGfs	p.L781fs	FCRL5_uc009wsm.2_Frame_Shift_Del_p.L781fs	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	781	Extracellular (Potential).|Ig-like C2-type 8.					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				TACAGGATCAGGGGAGAGCCT	0.612													28	64	---	---	---	---						.	-	157490981	-	-	157490981	7	5	213	1	0	1	0	1	0	0	0	0	5812	991	35	0	620	0	FCRL5	1	157490981	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	613164	157490981	91759640	50	105487											
SPTA1	6708	broad.mit.edu	37	chr1	158639341	158639341	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttttcacgtagggcatcccGccgggctaacagctgcaaaa	10	8	10	13	3	1	0	1	0	0	0	2	0	2	0	2	2	3	5	2	2	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:158639341G>A	uc001fst.1	-	14	1889	c.1690C>T	c.(1690-1692)CGG>TGG	p.R564W		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	564	Spectrin 6.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGGGCATCCCGCCGGGCTAAC	0.488													43	112					0	0	1	0	0		A	158639341	A	A	158639341	3	1	213	1	0	0	0	0	1	0	0	0	15141	1086	38	1	5725	1	SPTA1	1	158639341	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1148360	158639341	90611280	51	105488											
NIT1	4817	broad.mit.edu	37	chr1	161090341	161090342	+	Frame_Shift_Del	DEL	CA	-	-																															gtgctatgtagtggcagcagCacagtgtggacgccaccatg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:161090341_161090342delCA	uc001fxv.1	+	7	846_847	c.770_771delCA	c.(769-771)GCAfs	p.A257fs	PFDN2_uc001fxu.2_5'Flank|NIT1_uc001fxw.2_Intron|NIT1_uc001fxx.1_Frame_Shift_Del_p.A221fs|NIT1_uc001fxy.1_Frame_Shift_Del_p.A221fs|NIT1_uc010pka.1_Frame_Shift_Del_p.A242fs	NM_005600	NP_005591	Q86X76	NIT1_HUMAN	nitrilase 1	257	CN hydrolase.				nitrogen compound metabolic process	mitochondrion	nitrilase activity				0	all_cancers(52;3.39e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GTGGCAGCAGCACAGTGTGGAC	0.574													26	56	---	---	---	---						.	-	161090342	-	-	161090341	7	5	213	1	0	1	0	1	0	0	0	0	10452	710	25	0	853	0	NIT1	1	161090341	Frame_Shift_Del	DEL	CA	TCGA-HU-A4H3-01A-21D-A25D-08	2451000	161090341	88160280	52	105489											
DUSP27	92235	broad.mit.edu	37	chr1	167096269	167096269	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagctgctggagagaagccGgcagacgctggaggagagcc	10	3	19	9	2	0	3	0	0	0	3	0	8	0	6	2	5	4	4	2	5	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:167096269G>A	uc001geb.1	+	5	1901	c.1901G>A	c.(1900-1902)CGG>CAG	p.R634Q		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	634					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GAGAGAAGCCGGCAGACGCTG	0.637													12	18					0	0	1	0	0		A	167096269	A	A	167096269	3	1	213	1	0	0	0	0	1	0	0	0	4830	1116	39	1	1919	1	DUSP27	1	167096269	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6005928	167096269	82154352	53	105490											
ADCY10	55811	broad.mit.edu	37	chr1	167778932	167778932	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgttagaaatgattgtccaCggtattagctctcatcagga	12	13	9	7	1	2	2	2	1	1	1	4	3	3	3	1	2	1	3	1	2	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:167778932C>T	uc001ger.2	-	33	5114	c.4816G>A	c.(4816-4818)GTG>ATG	p.V1606M	ADCY10_uc009wvj.2_RNA|ADCY10_uc009wvk.2_Missense_Mutation_p.V1514M|ADCY10_uc010plj.1_Missense_Mutation_p.V1453M	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	1606					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TGATTGTCCACGGTATTAGCT	0.388													21	60					0	0	1	0	0		T	167778932	T	T	167778932	3	4	213	1	0	0	0	0	1	0	0	0	293	536	19	1	20	1	ADCY10	1	167778932	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	682663	167778932	81471689	54	105491											
SLC9A11	284525	broad.mit.edu	37	chr1	173516835	173516835	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaacagcaccaaccatttgtAttgcagctacatgcaatctg	13	10	7	11	0	1	0	0	0	1	0	1	1	1	0	2	0	7	5	2	0	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:173516835A>G	uc001giz.2	-	13	1973	c.1550T>C	c.(1549-1551)ATA>ACA	p.I517T	SLC9A11_uc009wwe.2_Missense_Mutation_p.I75T|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	517					sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						AACCATTTGTATTGCAGCTAC	0.363													15	35					0	0	1	0	0		G	173516835	G	G	173516835	3	3	213	1	0	0	0	0	1	0	0	0	14736	449	16	3	1888	3	SLC9A11	1	173516835	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	5737903	173516835	75733786	55	105492											
PAPPA2	60676	broad.mit.edu	37	chr1	176762727	176762727	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccccattgtgtgtaatcccCcccagtgaccccgtgatgct	6	11	8	16	1	0	2	0	2	0	0	2	2	2	2	7	0	1	2	7	0	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:176762727C>T	uc001gkz.2	+	20	6216	c.5052C>T	c.(5050-5052)CCC>CCT	p.P1684P	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1684	Sushi 5.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GTGTAATCCCCCCCAGTGACC	0.468													14	29					0	0	1	0	0		T	176762727	T	T	176762727	2	4	213	1	0	0	0	0	0	0	0	1	11452	610	22	4		4	PAPPA2	1	176762727	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3245892	176762727	72487894	56	105493											
ASTN1	460	broad.mit.edu	37	chr1	177133715	177133715	+	Missense_Mutation	SNP	A	G	G	1	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	tgcttttgagcttgcactccAgctccttggatggatccacg	6	13	10	12	1	0	1	0	1	0	0	3	3	3	3	3	2	4	4	3	2	0	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:177133715A>G	uc001glc.2	-	1	310	c.98T>C	c.(97-99)CTG>CCG	p.L33P	ASTN1_uc001glb.1_Missense_Mutation_p.L33P|ASTN1_uc001gld.1_Missense_Mutation_p.L33P|ASTN1_uc009wwx.1_Missense_Mutation_p.L33P	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	33					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						CTTGCACTCCAGCTCCTTGGA	0.677													10	12					0	0	1	0	0		G	177133715	G	G	177133715	3	3	213	1	0	0	0	0	1	0	0	0	1065	188	7	3	3882	3	ASTN1	1	177133715	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	370988	177133715	72116906	57	105494											
ASPM	259266	broad.mit.edu	37	chr1	197069737	197069737	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaccactgctgcttttctatAtagtaaaaactgttttctgg	11	16	6	8	0	2	0	0	0	2	0	2	0	2	0	1	1	4	4	1	1	7	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:197069737A>G	uc001gtu.2	-	18	8901	c.8644T>C	c.(8644-8646)TAT>CAT	p.Y2882H	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.Y730H	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2882	IQ 32.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GCTTTTCTATATAGTAAAAAC	0.368													7	34					0	0	1	0	0		G	197069737	G	G	197069737	3	3	213	1	0	0	0	0	1	0	0	0	1057	449	16	3	1833	3	ASPM	1	197069737	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	19936022	197069737	52180884	58	105495											
DDX59	83479	broad.mit.edu	37	chr1	200635327	200635327	+	Missense_Mutation	SNP	T	G	G	0	1	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	gctgtttaagattttcaatcTggtcttcctgaaggttcaaa	10	16	8	7	0	4	2	2	1	2	1	5	2	5	2	1	2	0	3	1	2	4	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:200635327T>G	uc009wzk.2	-	2	785	c.542A>C	c.(541-543)CAG>CCG	p.Q181P	DDX59_uc010ppl.1_Missense_Mutation_p.Q181P	NM_001031725	NP_001026895	Q5T1V6	DDX59_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	181						intracellular	ATP binding|ATP-dependent helicase activity|metal ion binding|RNA binding			ovary(2)|breast(1)|central_nervous_system(1)	4						ATTTTCAATCTGGTCTTCCTG	0.438													50	56					0	0	1	0	0		G	200635327	G	G	200635327	3	3	213	1	0	0	0	0	1	0	0	0	4379	1580	55	5	1345	5	DDX59	1	200635327	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3565590	200635327	48615294	59	105496											
PKP1	5317	broad.mit.edu	37	chr1	201252870	201252870	+	Missense_Mutation	SNP	T	C	C	0	1	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	agaccgccttggcgtacgaaTgcttccaggaccaggacaac	11	6	11	13	3	0	1	0	0	0	1	1	4	1	3	4	3	3	2	4	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:201252870T>C	uc001gwd.2	+	1	291	c.40T>C	c.(40-42)TGC>CGC	p.C14R	PKP1_uc001gwe.2_Missense_Mutation_p.C14R|PKP1_uc009wzm.2_5'UTR	NM_000299	NP_000290	Q13835	PKP1_HUMAN	plakophilin 1 isoform 1b	14					cell adhesion|cellular component disassembly involved in apoptosis|multicellular organismal development	desmosome|intermediate filament|nucleus	intermediate filament binding|signal transducer activity|structural constituent of epidermis			ovary(2)	2						GGCGTACGAATGCTTCCAGGA	0.642													16	28					0	0	1	0	0		C	201252870	C	C	201252870	3	2	213	1	0	0	0	0	1	0	0	0	12003	1464	51	3	42	3	PKP1	1	201252870	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	617543	201252870	47997751	60	105497											
TMCC2	9911	broad.mit.edu	37	chr1	205238321	205238321	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cggacaagcagcaggtgtcaCgcatcaagcaagtgttcgag	12	6	13	10	3	2	0	2	0	0	0	3	2	2	1	0	2	3	5	0	2	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:205238321C>T	uc001hbz.1	+	4	1435	c.991C>T	c.(991-993)CGC>TGC	p.R331C	TMCC2_uc010prf.1_Missense_Mutation_p.R253C|TMCC2_uc001hca.2_Missense_Mutation_p.R106C|TMCC2_uc001hcb.1_Missense_Mutation_p.R91C|TMCC2_uc001hcc.1_Translation_Start_Site|TMCC2_uc001hcd.2_Missense_Mutation_p.R98C	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	331						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GCAGGTGTCACGCATCAAGCA	0.557													20	34					0	0	1	0	0		T	205238321	T	T	205238321	3	4	213	1	0	0	0	0	1	0	0	0	16018	536	19	1	1001	1	TMCC2	1	205238321	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3985451	205238321	44012300	61	105498											
LAMB3	3914	broad.mit.edu	37	chr1	209807792	209807792	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaggattccctctacctacCttccccccatttaggcgtgc	6	12	6	17	1	2	0	1	0	1	0	4	1	4	1	6	2	3	0	6	2	3	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:209807792C>G	uc001hhg.2	-	5	954	c.564G>C	c.(562-564)AAG>AAC	p.K188N	LAMB3_uc009xco.2_Missense_Mutation_p.K188N|LAMB3_uc001hhh.2_Missense_Mutation_p.K188N|LAMB3_uc010psl.1_RNA|LAMB3_uc009xcp.1_Intron	NM_001017402	NP_001017402	Q13751	LAMB3_HUMAN	laminin, beta 3 precursor	188	Laminin N-terminal.				cell adhesion|epidermis development|hemidesmosome assembly		structural molecule activity			central_nervous_system(2)|skin(2)|large_intestine(1)|ovary(1)	6				OV - Ovarian serous cystadenocarcinoma(81;0.0519)		CTCTACCTACCTTCCCCCCAT	0.602													12	39					0	0	1	0	0		G	209807792	G	G	209807792	3	3	213	1	0	0	0	0	1	0	0	0	8628	695	24	5	3026	5	LAMB3	1	209807792	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4569471	209807792	39442829	62	105499											
USH2A	7399	broad.mit.edu	37	chr1	215848449	215848449	+	Silent	SNP	T	C	C	0	1	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	gaaacataggatatcacaggTggagagagaccttctggagg	14	7	14	6	0	2	2	1	0	1	2	2	7	2	4	1	5	1	0	1	5	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:215848449T>C	uc001hku.1	-	63	13191	c.12804A>G	c.(12802-12804)CCA>CCG	p.P4268P		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4268	Fibronectin type-III 28.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		atatcacaggtggagagagac	0.348										HNSCC(13;0.011)			19	43					0	0	1	0	0		C	215848449	C	C	215848449	2	2	213	1	0	0	0	0	0	0	0	1	17062	1683	59	3		3	USH2A	1	215848449	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	6040657	215848449	33402172	63	105500											
LBR	3930	broad.mit.edu	37	chr1	225591060	225591060	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gctgacagtacttttcccaaGccacgccgtatttcttctta	8	14	6	13	2	2	1	0	1	2	0	3	1	3	1	3	0	2	3	3	0	4	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:225591060G>A	uc001hoy.2	-	14	1936	c.1793C>T	c.(1792-1794)GCT>GTT	p.A598V	LBR_uc001hoz.2_Missense_Mutation_p.A598V	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	598					cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		CTTTTCCCAAGCCACGCCGTA	0.433													34	53					0	0	1	0	0		A	225591060	A	A	225591060	3	1	213	1	0	0	0	0	1	0	0	0	8668	971	34	2	58	2	LBR	1	225591060	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	9742611	225591060	23659561	64	105501											
CABC1	56997	broad.mit.edu	37	chr1	227171866	227171866	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctctgcagcccacatgtgcTgaccacagagctggtgtctg	7	9	12	13	0	2	2	0	1	2	1	2	2	2	2	2	1	4	4	2	1	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:227171866T>C	uc001hqm.1	+	16	4747	c.1328T>C	c.(1327-1329)CTG>CCG	p.L443P	CABC1_uc001hqn.1_Missense_Mutation_p.L443P|CABC1_uc009xeq.1_Missense_Mutation_p.L391P|CABC1_uc010pvq.1_Missense_Mutation_p.L164P|CABC1_uc010pvr.1_Missense_Mutation_p.L117P|CABC1_uc001hqo.1_Missense_Mutation_p.L164P|CABC1_uc009xer.1_5'UTR	NM_020247	NP_064632	Q8NI60	ADCK3_HUMAN	chaperone, ABC1 activity of bc1 complex like	443	Protein kinase.				cell death	mitochondrion	ATP binding|protein serine/threonine kinase activity				0		Prostate(94;0.0771)				CCACATGTGCTGACCACAGAG	0.622													18	25					0	0	1	0	0		C	227171866	C	C	227171866	3	2	213	1	0	0	0	0	1	0	0	0	2530	1580	55	3	1366	3	CABC1	1	227171866	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1580806	227171866	22078755	65	105502											
GJC2	57165	broad.mit.edu	37	chr1	228346746	228346746	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccgagaagggcagtgccagCagcagggacgggaagaccac	12	2	16	11	2	0	2	0	0	0	2	1	5	1	4	3	3	3	3	3	3	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:228346746C>T	uc001hsk.2	+	2	1462	c.1287C>T	c.(1285-1287)AGC>AGT	p.S429S		NM_020435	NP_065168	Q5T442	CXG2_HUMAN	gap junction protein, gamma 2, 47kDa	429	Cytoplasmic (Potential).				cell death	connexon complex|integral to membrane					0		Prostate(94;0.0405)				GCAGTGCCAGCAGCAGGGACG	0.716													14	23					0	0	1	0	0		T	228346746	T	T	228346746	2	4	213	1	0	0	0	0	0	0	0	1	6430	709	25	2		2	GJC2	1	228346746	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1174880	228346746	20903875	66	105503											
OBSCN	84033	broad.mit.edu	37	chr1	228464704	228464704	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gagaaggttaccctggagtgCgagctgtcgcgtcctaatgt	8	10	14	9	3	0	1	0	0	0	1	2	4	1	2	2	2	3	2	2	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:228464704C>T	uc009xez.1	+	23	6605	c.6561C>T	c.(6559-6561)TGC>TGT	p.C2187C	OBSCN_uc001hsn.2_Silent_p.C2187C|OBSCN_uc001hsp.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	2187	Ig-like 22.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				CCCTGGAGTGCGAGCTGTCGC	0.647													4	5					0	0	1	0	0		T	228464704	T	T	228464704	2	4	213	1	0	0	0	0	0	0	0	1	10831	776	27	1		1	OBSCN	1	228464704	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	117958	228464704	20785917	67	105504											
OBSCN	84033	broad.mit.edu	37	chr1	228560646	228560646	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgggcaggaagcgcaagtgGtcctcgccgtcacgcagcct	7	6	15	13	4	1	0	1	0	0	0	3	1	2	1	3	3	2	3	3	3	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:228560646G>C	uc009xez.1	+	94	22211	c.22167G>C	c.(22165-22167)TGG>TGC	p.W7389C	OBSCN_uc001hsr.1_Missense_Mutation_p.W2018C	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	7389					apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				AGCGCAAGTGGTCCTCGCCGT	0.667													4	17					0	0	1	0	0		C	228560646	C	C	228560646	3	2	213	1	0	0	0	0	1	0	0	0	10831	1270	44	5	23747	5	OBSCN	1	228560646	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	95942	228560646	20689975	68	105505											
PCNXL2	80003	broad.mit.edu	37	chr1	233120211	233120211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggcatcagggggctcacatgGctcggagaggtgcttccaaa	9	7	15	10	1	2	1	2	0	0	1	4	2	3	1	1	6	1	4	1	6	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:233120211G>A	uc001hvl.2	-	34	6488	c.6253C>T	c.(6253-6255)CCA>TCA	p.P2085S	PCNXL2_uc001hvk.1_3'UTR|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	2085						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GGCTCACATGGCTCGGAGAGG	0.582													13	39					0	0	1	0	0		A	233120211	A	A	233120211	3	1	213	1	0	0	0	0	1	0	0	0	11611	1203	42	2	164	2	PCNXL2	1	233120211	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4559565	233120211	16130410	69	105506											
KIAA1804	84451	broad.mit.edu	37	chr1	233514948	233514948	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcaccgtccttctggcatcGgtggctctgggactggacct	4	11	13	13	2	2	0	0	0	2	0	4	2	3	2	3	5	1	3	3	5	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:233514948G>T	uc001hvt.3	+	9	2457	c.2196G>T	c.(2194-2196)TCG>TCT	p.S732S	KIAA1804_uc001hvu.3_Silent_p.S178S	NM_032435	NP_115811	Q5TCX8	M3KL4_HUMAN	mixed lineage kinase 4	732					activation of JUN kinase activity|protein autophosphorylation		ATP binding|MAP kinase kinase kinase activity|protein homodimerization activity			lung(5)|central_nervous_system(2)|skin(1)	8		all_cancers(173;0.000405)|all_epithelial(177;0.0345)|Prostate(94;0.122)				TTCTGGCATCGGTGGCTCTGG	0.522													28	58					3.73988e-18	4.18104e-18	1	1	0		T	233514948	T	T	233514948	2	4	213	1	0	0	0	0	0	0	0	1	8275	1103	39	5		5	KIAA1804	1	233514948	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	394737	233514948	15735673	70	105507											
SLC35F3	148641	broad.mit.edu	37	chr1	234367306	234367306	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctggggcgtggcggtcgtgCtgtgcgtgtgctcctcgtgg	0	12	19	10	5	1	0	0	0	1	0	4	0	2	0	1	5	3	2	1	5	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:234367306C>T	uc001hwa.1	+	2	448	c.220C>T	c.(220-222)CTG>TTG	p.L74L	SLC35F3_uc001hvy.1_Silent_p.L143L	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	74	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			GGCGGTCGTGCTGTGCGTGTG	0.687													8	150					0	0	1	0	0		T	234367306	T	T	234367306	2	4	213	1	0	0	0	0	0	0	0	1	14615	796	28	2		2	SLC35F3	1	234367306	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	852358	234367306	14883315	71	105508											
B3GALNT2	148789	broad.mit.edu	37	chr1	235613601	235613603	+	In_Frame_Del	DEL	GAG	-	-																															cagttcccacggagaatactGaggagaagacagcattcctg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:235613601_235613603delGAG	uc001hxc.2	-	12	1650_1652	c.1421_1423delCTC	c.(1420-1425)CCTCAG>CAG	p.P474del		NM_152490	NP_689703	Q8NCR0	B3GL2_HUMAN	beta-1,3-N-acetylgalactosaminyltransferase 2	474	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity			breast(1)	1	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.0539)|Prostate(94;0.0353)	OV - Ovarian serous cystadenocarcinoma(106;0.000117)			GGAGAATACTGAGGAGAAGACAG	0.478													29	49	---	---	---	---						.	-	235613603	-	-	235613601	7	5	213	1	0	1	0	1	0	0	0	0	1247	1299	45	0	83	0	B3GALNT2	1	235613601	In_Frame_Del	DEL	GAG	TCGA-HU-A4H3-01A-21D-A25D-08	1246295	235613601	13637020	72	105509											
ACTN2	88	broad.mit.edu	37	chr1	236925859	236925859	+	Silent	SNP	G	A	A	0	0	1	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	tactcgggcccaggcagtgtGcctggtgcactggattacgc	6	9	14	12	2	0	0	0	0	0	0	1	1	0	1	2	4	4	2	2	4	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:236925859G>A	uc001hyf.2	+	21	2829	c.2625G>A	c.(2623-2625)GTG>GTA	p.V875V	ACTN2_uc001hyg.2_Silent_p.V667V|ACTN2_uc009xgi.1_Silent_p.V875V|ACTN2_uc010pxu.1_Silent_p.V564V|ACTN2_uc001hyh.2_Silent_p.V563V	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	875					focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)			CAGGCAGTGTGCCTGGTGCAC	0.592													8	23					0	0	1	0	0		A	236925859	A	A	236925859	2	1	213	1	0	0	0	0	0	0	0	1	205	1306	46	2		2	ACTN2	1	236925859	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1312258	236925859	12324762	73	105510											
OPN3	23596	broad.mit.edu	37	chr1	241767800	241767801	+	Frame_Shift_Ins	INS	-	A	A																															aatggccctccaggcccaggINSaaaaattgatcactctggca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:241767800_241767801insA	uc001hza.2	-	2	599_600	c.454_455insT	c.(454-456)TCCfs	p.S152fs	OPN3_uc001hzb.2_RNA|OPN3_uc001hzc.2_Intron	NM_014322	NP_055137	Q9H1Y3	OPN3_HUMAN	opsin 3	152	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|regulation of circadian rhythm|visual perception	integral to plasma membrane	G-protein coupled photoreceptor activity				0	Ovarian(103;0.103)|all_lung(81;0.23)	all_cancers(173;0.0231)	OV - Ovarian serous cystadenocarcinoma(106;0.0125)			CCAGGCCCAGGAAAAATTGATC	0.54													18	38	---	---	---	---						.	A	241767801	A	A	241767800	7	5	213	1	0	1	1	0	0	0	0	0	10900	1174	41	0	765	0	OPN3	1	241767800	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	4841941	241767800	7482821	74	105511											
PPPDE1	51029	broad.mit.edu	37	chr1	244855310	244855310	+	Silent	SNP	A	G	G	1	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	aactgcaatcatttttcttcAgctttatcagaggtaagcta	12	15	6	8	0	4	1	3	0	1	1	4	1	4	1	0	1	4	4	0	1	5	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:244855310A>G	uc001iao.2	+	4	603	c.339A>G	c.(337-339)TCA>TCG	p.S113S	PPPDE1_uc001iap.2_Silent_p.S80S	NM_016076	NP_057160	Q9BSY9	PPDE1_HUMAN	PPPDE peptidase domain containing 1	113	PPPDE peptidase.									breast(3)	3						ATTTTTCTTCAGCTTTATCAG	0.294													13	28					0	0	1	0	0		G	244855310	G	G	244855310	2	3	213	1	0	0	0	0	0	0	0	1	12430	175	7	3		3	PPPDE1	1	244855310	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	3087510	244855310	4395311	75	105512											
CNST	163882	broad.mit.edu	37	chr1	246810999	246810999	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgatggaaaatcaccacaggCgcaggctgactcagacggtt	12	7	12	10	2	2	3	2	2	0	1	2	4	2	4	1	4	0	3	1	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:246810999C>T	uc001ibp.2	+	9	1874	c.1496C>T	c.(1495-1497)GCG>GTG	p.A499V	CNST_uc001ibo.3_Missense_Mutation_p.A499V	NM_152609	NP_689822	Q6PJW8	CNST_HUMAN	hypothetical protein LOC163882 isoform 1	499					positive regulation of Golgi to plasma membrane protein transport	integral to membrane|plasma membrane|protein complex|trans-Golgi network|transport vesicle	connexin binding				0						TCACCACAGGCGCAGGCTGAC	0.478													22	56					0	0	1	0	0		T	246810999	T	T	246810999	3	4	213	1	0	0	0	0	1	0	0	0	3637	768	27	1	1526	1	CNST	1	246810999	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1955689	246810999	2439622	76	105513											
AHCTF1	25909	broad.mit.edu	37	chr1	247025328	247025328	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tagtttctttaagtcgttgaGgagaccttccaggtgatgga	9	14	12	6	1	1	3	0	2	1	1	3	5	2	4	2	3	0	2	2	3	2	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:247025328G>A	uc001ibu.1	-	27	3675	c.3668C>T	c.(3667-3669)CCT>CTT	p.P1223L	AHCTF1_uc001ibv.1_Missense_Mutation_p.P1232L|AHCTF1_uc009xgs.1_Missense_Mutation_p.P84L|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	1223	Necessary for nuclear localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			AAGTCGTTGAGGAGACCTTCC	0.418													11	30					0	0	1	0	0		A	247025328	A	A	247025328	3	1	213	1	0	0	0	0	1	0	0	0	408	1000	35	4	3168	4	AHCTF1	1	247025328	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	214329	247025328	2225293	77	105514											
TRIM58	25893	broad.mit.edu	37	chr1	248028188	248028188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaggccctgaaggagctggCggatgagctgcaggagaggt	10	5	18	8	1	0	3	0	2	0	1	0	6	0	5	1	6	3	3	1	6	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:248028188C>T	uc001ido.2	+	3	746	c.698C>T	c.(697-699)GCG>GTG	p.A233V		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	233	Potential.					intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			AAGGAGCTGGCGGATGAGCTG	0.672													7	5					0	0	1	0	0		T	248028188	T	T	248028188	3	4	213	1	0	0	0	0	1	0	0	0	16557	768	27	1	708	1	TRIM58	1	248028188	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1002860	248028188	1222433	78	105515											
OR2T8	343172	broad.mit.edu	37	chr1	248084594	248084594	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaagtaaggccatctcccGcgctggctgtggtgcgcaga	7	7	15	12	4	1	1	0	0	1	1	2	2	1	2	2	4	1	4	2	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:248084594G>A	uc010pzc.1	+	1	275	c.275G>A	c.(274-276)CGC>CAC	p.R92H		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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)			GCCATCTCCCGCGCTGGCTGT	0.582													10	20					0	0	1	0	0		A	248084594	A	A	248084594	3	1	213	1	0	0	0	0	1	0	0	0	11049	1087	38	1	277	1	OR2T8	1	248084594	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	56406	248084594	1166027	79	105516											
OR2T33	391195	broad.mit.edu	37	chr1	248436842	248436842	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctgcacaccacagccagcgCgggagatggccttacttccg	8	7	11	15	3	1	1	0	0	1	1	2	2	2	1	4	2	4	1	4	2	1	2	rs151096305	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr1:248436842C>T	uc010pzi.1	-	1	275	c.275G>A	c.(274-276)CGC>CAC	p.R92H		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			ACAGCCAGCGCGGGAGATGGC	0.572													17	76					0	0	1	0	0		T	248436842	T	T	248436842	3	4	213	1	0	0	0	0	1	0	0	0	11043	768	27	1	690	1	OR2T33	1	248436842	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	352248	248436842	813779	80	105517											
KIDINS220	57498	broad.mit.edu	37	chr2	8919071	8919071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccatttgttgctgaagttaCgagaaattttcttgcattgc	9	17	8	7	1	1	2	0	1	1	1	2	3	2	2	1	0	4	4	1	0	3	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:8919071C>T	uc002qzc.2	-	19	2751	c.2569G>A	c.(2569-2571)GTA>ATA	p.V857I	KIDINS220_uc010yiv.1_Missense_Mutation_p.V623I|KIDINS220_uc002qzd.2_Missense_Mutation_p.V815I|KIDINS220_uc010yiw.1_Missense_Mutation_p.V858I	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	857	KAP NTPase.|Cytoplasmic (Potential).				activation of MAPKK activity|nerve growth factor receptor signaling pathway	cytosol|integral to membrane				ovary(3)|central_nervous_system(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GCTGAAGTTACGAGAAATTTT	0.393													32	60					0	0	1	0	0		T	8919071	T	T	8919071	3	4	213	1	0	0	0	0	1	0	0	0	8287	536	19	1	2794	1	KIDINS220	2	8919071	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08		8919071	234280302	81	105518											
ASXL2	55252	broad.mit.edu	37	chr2	25991624	25991624	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgcctaccaggtttggcaggTacagagtcactggctgcttt	7	12	12	10	0	1	1	1	0	0	1	1	1	1	1	2	4	4	5	2	4	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:25991624T>C	uc002rgs.2	-	6	839	c.618A>G	c.(616-618)GTA>GTG	p.V206V	ASXL2_uc002rgt.1_5'UTR	NM_018263	NP_060733	Q76L83	ASXL2_HUMAN	additional sex combs like 2	206	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|protein binding			pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTTTGGCAGGTACAGAGTCAC	0.363													45	81					0	0	1	0	0		C	25991624	C	C	25991624	2	2	213	1	0	0	0	0	0	0	0	1	1068	1625	57	3		3	ASXL2	2	25991624	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	17072553	25991624	217207749	82	105519											
GTF3C2	2976	broad.mit.edu	37	chr2	27560874	27560874	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgggagccattcctcggcagTgtggtttctgtttctgagga	5	14	14	8	1	2	1	0	1	2	0	4	3	3	3	2	4	1	3	2	4	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:27560874T>C	uc002rjv.1	-	6	1232	c.869A>G	c.(868-870)CAC>CGC	p.H290R	GTF3C2_uc010eyy.1_5'Flank|GTF3C2_uc002rju.1_Missense_Mutation_p.H301R|GTF3C2_uc002rjw.1_Missense_Mutation_p.H290R|GTF3C2_uc010eyz.1_Missense_Mutation_p.H290R	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	290						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TCCTCGGCAGTGTGGTTTCTG	0.458													82	136					0	0	1	0	0		C	27560874	C	C	27560874	3	2	213	1	0	0	0	0	1	0	0	0	6889	1696	59	3	1926	3	GTF3C2	2	27560874	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1569250	27560874	215638499	83	105520											
EIF2B4	8890	broad.mit.edu	37	chr2	27591960	27591960	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcctgtttcagggcccgctCggcctcctgcttggctcgac	2	11	12	16	3	1	0	1	0	0	0	4	1	2	0	4	3	2	4	4	3	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:27591960C>T	uc002rkb.2	-	4	474	c.331G>A	c.(331-333)GAG>AAG	p.E111K	EIF2B4_uc002rjz.2_Missense_Mutation_p.E131K|EIF2B4_uc002rka.2_Missense_Mutation_p.E96K|EIF2B4_uc002rkc.2_Missense_Mutation_p.E110K|EIF2B4_uc002rkd.2_5'UTR|EIF2B4_uc002rke.2_Missense_Mutation_p.E80K|EIF2B4_uc002rkf.1_Missense_Mutation_p.E80K|SNX17_uc010ylj.1_5'Flank|SNX17_uc002rkg.1_5'Flank|SNX17_uc010ylk.1_5'Flank|SNX17_uc010eza.1_5'Flank|SNX17_uc002rki.1_5'Flank|SNX17_uc002rkh.1_5'Flank|SNX17_uc010yll.1_5'Flank|SNX17_uc010ylm.1_5'Flank|SNX17_uc010yln.1_5'Flank|SNX17_uc010ylo.1_5'Flank|SNX17_uc010ylp.1_5'Flank|SNX17_uc010ylq.1_5'Flank	NM_001034116	NP_001029288	Q9UI10	EI2BD_HUMAN	eukaryotic translation initiation factor 2B,	111					myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	translation initiation factor activity|translation initiation factor binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGGCCCGCTCGGCCTCCTGC	0.607													41	90					0	0	1	0	0		T	27591960	T	T	27591960	3	4	213	1	0	0	0	0	1	0	0	0	5009	893	31	1	1280	1	EIF2B4	2	27591960	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	31086	27591960	215607413	84	105521											
HNRPLL	92906	broad.mit.edu	37	chr2	38818748	38818748	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acagagtcctcgaacatggaCgacgggtgaaacagaaactt	15	6	11	9	3	0	3	0	1	0	2	2	6	1	4	1	2	3	0	1	2	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:38818748C>T	uc002rqw.2	-	2	642	c.232G>A	c.(232-234)GTC>ATC	p.V78I	HNRPLL_uc002rqx.2_Missense_Mutation_p.V73I	NM_138394	NP_612403	Q8WVV9	HNRLL_HUMAN	heterogeneous nuclear ribonucleoprotein L-like	78	RRM 1.				mRNA processing|positive regulation of RNA splicing	nucleus|ribonucleoprotein complex	mRNA binding|nucleotide binding|protein binding			skin(1)	1		all_hematologic(82;0.248)				CGAACATGGACGACGGGTGAA	0.383													28	68					0	0	1	0	0		T	38818748	T	T	38818748	3	4	213	1	0	0	0	0	1	0	0	0	7293	536	19	1	1444	1	HNRPLL	2	38818748	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	11226788	38818748	204380625	85	105522											
DHX57	90957	broad.mit.edu	37	chr2	39088771	39088771	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aattctttctataaatttttCtccacagatggacttgagag	12	16	6	7	0	3	2	0	1	3	2	4	4	3	3	1	1	0	0	1	1	4	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:39088771C>A	uc002rrf.2	-	5	880	c.781G>T	c.(781-783)GAA>TAA	p.E261*	DHX57_uc002rre.2_5'UTR|DHX57_uc002rrg.2_Nonsense_Mutation_p.E261*	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	261							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				ATAAATTTTTCTCCACAGATG	0.428													4	75					0.150653	0.15094	1	1	0		A	39088771	A	A	39088771	4	1	213	1	0	0	0	0	0	1	0	0	4519	922	32	5	3459	5	DHX57	2	39088771	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	270023	39088771	204110602	86	105523											
SLC3A1	6519	broad.mit.edu	37	chr2	44547361	44547361	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaaagactcagcccagatcGgctttgaagttatatcaaga	15	9	8	9	1	2	4	2	1	0	3	3	4	2	4	1	1	1	2	1	1	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:44547361G>A	uc002ruc.3	+	10	1719	c.1641G>A	c.(1639-1641)TCG>TCA	p.S547S	PREPL_uc002ruf.2_3'UTR|PREPL_uc002rug.2_3'UTR|PREPL_uc002ruh.2_3'UTR|PREPL_uc010fax.2_3'UTR|PREPL_uc002rui.3_3'UTR|PREPL_uc002ruj.1_3'UTR|PREPL_uc002ruk.1_3'UTR|SLC3A1_uc002rud.3_Silent_p.S269S|SLC3A1_uc002rue.3_Silent_p.S167S	NM_000341	NP_000332	Q07837	SLC31_HUMAN	solute carrier family 3, member 1	547	Extracellular (Potential).				carbohydrate metabolic process|cellular amino acid metabolic process|ion transport	integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity|catalytic activity|cation binding|L-cystine transmembrane transporter activity				0		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)			L-Cystine(DB00138)	AGCCCAGATCGGCTTTGAAGT	0.348													16	38					0	0	1	0	0		A	44547361	A	A	44547361	2	1	213	1	0	0	0	0	0	0	0	1	14651	1103	39	1		1	SLC3A1	2	44547361	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5458590	44547361	198652012	87	105524											
NRXN1	9378	broad.mit.edu	37	chr2	51254651	51254651	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggccttaccttggctgcagTccttgccgcggaagccggtt	4	10	14	13	3	0	0	0	0	0	0	1	1	1	1	5	4	4	3	5	4	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:51254651T>C	uc010fbq.2	-	2	2238	c.761A>G	c.(760-762)GAC>GGC	p.D254G	NRXN1_uc002rxe.3_Missense_Mutation_p.D254G|NRXN1_uc002rxd.1_Missense_Mutation_p.D254G	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTGGCTGCAGTCCTTGCCGCG	0.721													7	19					0	0	1	0	0		C	51254651	C	C	51254651	3	2	213	1	0	0	0	0	1	0	0	0	10684	1667	58	3	4237	3	NRXN1	2	51254651	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	6707290	51254651	191944722	88	105525											
CHAC2	494143	broad.mit.edu	37	chr2	53999079	53999079	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcttgttgaagatcctgcGgtatggtataaatattcttt	10	17	8	6	1	2	2	0	1	2	1	3	2	3	2	1	2	1	3	1	2	6	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:53999079G>T	uc002rxk.1	+	2	266	c.171G>T	c.(169-171)GCG>GCT	p.A57A	ASB3_uc002rxg.1_Intron|ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Intron|ASB3_uc010yoo.1_Intron	NM_001008708	NP_001008708	Q8WUX2	CHAC2_HUMAN	ChaC, cation transport regulator-like 2	57											0			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			AAGATCCTGCGGTATGGtata	0.259													16	66					3.45872e-05	3.57423e-05	1	1	0		T	53999079	T	T	53999079	2	4	213	1	0	0	0	0	0	0	0	1	3312	1130	39	5		5	CHAC2	2	53999079	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2744428	53999079	189200294	89	105526											
ERLEC1	27248	broad.mit.edu	37	chr2	54023109	54023109	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggccctaatccaagagagCttttggagccactatttaaa	14	10	8	9	0	0	1	0	0	0	1	1	3	1	2	3	2	2	1	3	2	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:54023109C>A	uc002rxl.2	+	3	587	c.307C>A	c.(307-309)CTT>ATT	p.L103I	ASB3_uc002rxi.3_Intron|ERLEC1_uc002rxm.2_Missense_Mutation_p.L103I|ERLEC1_uc002rxn.2_Missense_Mutation_p.L103I	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	103					ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2						TCCAAGAGAGCTTTTGGAGCC	0.343													22	24					3.10358e-05	3.21039e-05	1	1	0		A	54023109	A	A	54023109	3	1	213	1	0	0	0	0	1	0	0	0	5239	797	28	5	317	5	ERLEC1	2	54023109	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	24030	54023109	189176264	90	105527											
CCDC88A	55704	broad.mit.edu	37	chr2	55561433	55561433	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaatttctgcttgttgtcGgagtctcttattttccttct	4	23	6	8	1	3	0	0	0	3	0	6	1	4	1	1	1	1	2	1	1	2	9			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:55561433G>A	uc002ryv.2	-	15	3366	c.2524C>T	c.(2524-2526)CGA>TGA	p.R842*	CCDC88A_uc010yoz.1_Nonsense_Mutation_p.R842*|CCDC88A_uc010ypa.1_Nonsense_Mutation_p.R842*|CCDC88A_uc010ypb.1_Nonsense_Mutation_p.R744*|CCDC88A_uc002ryu.2_Nonsense_Mutation_p.R125*|CCDC88A_uc002ryw.2_Nonsense_Mutation_p.R125*	NM_001135597	NP_001129069	Q3V6T2	GRDN_HUMAN	coiled-coil domain containing 88A isoform 1	842	Potential.				activation of protein kinase B activity|cell migration|cellular membrane organization|DNA replication|lamellipodium assembly|microtubule cytoskeleton organization|regulation of actin cytoskeleton organization|regulation of cell proliferation|regulation of DNA replication|regulation of neuron projection development|TOR signaling cascade	cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|Golgi apparatus|lamellipodium|plasma membrane	actin binding|microtubule binding|phosphatidylinositol binding|protein homodimerization activity|protein kinase B binding			ovary(2)|skin(2)	4						GCTTGTTGTCGGAGTCTCTTA	0.318													22	43					0	0	1	0	0		A	55561433	A	A	55561433	4	1	213	1	0	0	0	0	0	1	0	0	2866	1124	39	1	3163	1	CCDC88A	2	55561433	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1538324	55561433	187637940	91	105528											
SMEK2	57223	broad.mit.edu	37	chr2	55791531	55791531	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccactggtgccacaactgcTtttccttcctcttcttcatc	5	16	4	16	0	3	0	1	0	2	0	7	0	6	0	4	1	3	1	4	1	1	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:55791531T>G	uc002rzc.2	-	15	2553	c.2178A>C	c.(2176-2178)AAA>AAC	p.K726N	SMEK2_uc002rzb.2_Missense_Mutation_p.K641N|SMEK2_uc002rzd.2_Missense_Mutation_p.K694N|SMEK2_uc002ryz.2_Missense_Mutation_p.K153N|SMEK2_uc002rza.2_Missense_Mutation_p.K510N	NM_001122964	NP_001116436	Q5MIZ7	P4R3B_HUMAN	SMEK homolog 2, suppressor of mek1 isoform 1	726						microtubule organizing center|nucleus	protein binding			skin(1)	1			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CCACAACTGCTTTTCCTTCCT	0.358													17	29					0	0	1	0	0		G	55791531	G	G	55791531	3	3	213	1	0	0	0	0	1	0	0	0	14819	1606	56	5	383	5	SMEK2	2	55791531	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	230098	55791531	187407842	92	105529											
NAGK	55577	broad.mit.edu	37	chr2	71299880	71299880	+	Silent	SNP	A	G	G	1	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	atgatgggtgatgagggttcAggtgagctcactgactggcc	8	10	16	7	0	2	5	2	5	0	0	2	5	2	5	1	4	1	2	1	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:71299880A>G	uc002shp.3	+	5	871	c.465A>G	c.(463-465)TCA>TCG	p.S155S	NAGK_uc010fea.2_RNA|NAGK_uc002shq.3_Silent_p.S6S|NAGK_uc002shr.2_Silent_p.S104S	NM_017567	NP_060037	Q9UJ70	NAGK_HUMAN	N-Acetylglucosamine kinase	155					N-acetylglucosamine metabolic process|N-acetylmannosamine metabolic process		ATP binding|N-acetylglucosamine kinase activity|protein binding				0					N-Acetyl-D-glucosamine(DB00141)	ATGAGGGTTCAGGTGAGCTCA	0.592													9	11					0	0	1	0	0		G	71299880	G	G	71299880	2	3	213	1	0	0	0	0	0	0	0	1	10160	202	7	3		3	NAGK	2	71299880	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	15508349	71299880	171899493	93	105530											
CYP26B1	56603	broad.mit.edu	37	chr2	72360353	72360353	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agcttctccagcacagtgggGtgcttcagcagctgcatgat	8	10	12	11	0	2	1	1	1	1	0	3	1	2	1	1	2	6	6	1	2	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:72360353G>A	uc002sih.1	-	5	945	c.945C>T	c.(943-945)CAC>CAT	p.H315H	CYP26B1_uc010yra.1_Silent_p.H298H|CYP26B1_uc010yrb.1_Silent_p.H240H	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	315					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						GCACAGTGGGGTGCTTCAGCA	0.657													10	20					0	0	1	0	0		A	72360353	A	A	72360353	2	1	213	1	0	0	0	0	0	0	0	1	4159	1252	44	4		4	CYP26B1	2	72360353	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1060473	72360353	170839020	94	105531											
TET3	200424	broad.mit.edu	37	chr2	74317097	74317097	+	Missense_Mutation	SNP	A	G	G	1	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	cctttggttgttcctggagcAtgtacttcaacggctgcaag	7	13	11	10	1	1	0	1	0	0	0	2	1	2	1	2	3	4	6	2	3	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:74317097A>G	uc002skb.3	+	5	2557	c.2557A>G	c.(2557-2559)ATG>GTG	p.M853V		NM_144993	NP_659430	O43151	TET3_HUMAN	tet oncogene family member 3	853							metal ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						TTCCTGGAGCATGTACTTCAA	0.592													77	128					0	0	1	0	0		G	74317097	G	G	74317097	3	3	213	1	0	0	0	0	1	0	0	0	15796	217	8	3	2575	3	TET3	2	74317097	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1956744	74317097	168882276	95	105532											
MOGS	7841	broad.mit.edu	37	chr2	74689670	74689670	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctcagacccttccacccCgatgtctggcaataccagcc	8	8	7	18	1	2	1	1	0	1	1	3	2	3	1	6	1	3	2	6	1	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:74689670C>A	uc010ffj.2	-	4	1409	c.1246G>T	c.(1246-1248)GGG>TGG	p.G416W	MOGS_uc010ffh.2_Missense_Mutation_p.G141W|MOGS_uc010yrt.1_Missense_Mutation_p.G297W|MOGS_uc010ffi.2_Missense_Mutation_p.G310W	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	416	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane|membrane fraction	mannosyl-oligosaccharide glucosidase activity				0						CCTTCCACCCCGATGTCTGGC	0.592													58	112					2.47907e-22	2.80428e-22	1	1	0		A	74689670	A	A	74689670	3	1	213	1	0	0	0	0	1	0	0	0	9715	652	23	5	1271	5	MOGS	2	74689670	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	372573	74689670	168509703	96	105533											
LBX2	85474	broad.mit.edu	37	chr2	74725093	74725093	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcctcgtctgacaggtggggCcgggagtcagggccggcagg	5	6	19	11	3	2	1	1	1	1	0	4	2	3	2	3	7	0	1	3	7	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:74725093C>T	uc002slv.3	-	2	563	c.558G>A	c.(556-558)CGG>CGA	p.R186R	LBX2_uc002slw.2_Silent_p.R182R	NM_001009812	NP_001009812	Q6XYB7	LBX2_HUMAN	ladybird homeobox 2	186						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACAGGTGGGGCCGGGAGTCAG	0.677													13	25					0	0	1	0	0		T	74725093	T	T	74725093	2	4	213	1	0	0	0	0	0	0	0	1	8670	726	26	2		2	LBX2	2	74725093	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	35423	74725093	168474280	97	105534											
CNNM3	26505	broad.mit.edu	37	chr2	97494763	97494763	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtacctcaatgcactcCtggctacccgagcccagaac	10	7	8	16	1	1	1	1	0	0	1	2	2	2	1	4	1	6	4	4	1	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:97494763C>A	uc002swy.2	+	7	1975	c.1951C>A	c.(1951-1953)CTG>ATG	p.L651M	CNNM3_uc002swz.2_Missense_Mutation_p.L603M	NM_017623	NP_060093	Q8NE01	CNNM3_HUMAN	cyclin M3 isoform 1	651					ion transport	integral to membrane|plasma membrane	protein binding			ovary(1)	1						CAATGCACTCCTGGCTACCCG	0.577													13	44					0.000151284	0.000155573	1	1	0		A	97494763	A	A	97494763	3	1	213	1	0	0	0	0	1	0	0	0	3617	680	24	5	1977	5	CNNM3	2	97494763	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	22769670	97494763	145704610	98	105535											
TBC1D8	11138	broad.mit.edu	37	chr2	101656773	101656773	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcgaacagtccacaaccGcgtgcagcttctccttcctc	9	8	8	16	3	1	1	0	0	1	1	5	2	3	1	4	0	5	2	4	0	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:101656773G>A	uc010fiv.2	-	6	1033	c.902C>T	c.(901-903)GCG>GTG	p.A301V	TBC1D8_uc010yvw.1_Missense_Mutation_p.A316V|TBC1D8_uc002tau.3_Missense_Mutation_p.A58V	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8	301	GRAM 2.				blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						GTCCACAACCGCGTGCAGCTT	0.577													14	23					0	0	1	0	0		A	101656773	A	A	101656773	3	1	213	1	0	0	0	0	1	0	0	0	15650	1087	38	1	2580	1	TBC1D8	2	101656773	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4162010	101656773	141542600	99	105536											
IL1R1	3554	broad.mit.edu	37	chr2	102781301	102781301	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatgaaattgatgttcgtccCtgtcctcttaacccaaatga	12	13	6	10	1	1	3	0	3	1	0	4	3	3	3	3	0	1	1	3	0	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:102781301C>T	uc002tbq.2	+	4	447	c.129C>T	c.(127-129)CCC>CCT	p.P43P	IL1R1_uc010fix.2_Silent_p.P43P|IL1R1_uc002tbp.2_Silent_p.P43P|IL1R1_uc002tbr.2_Silent_p.P43P	NM_000877	NP_000868	P14778	IL1R1_HUMAN	interleukin 1 receptor, type I precursor	43	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity|platelet-derived growth factor receptor binding			skin(1)	1					Anakinra(DB00026)	ATGTTCGTCCCTGTCCTCTTA	0.373													20	50					0	0	1	0	0		T	102781301	T	T	102781301	2	4	213	1	0	0	0	0	0	0	0	1	7674	668	24	4		4	IL1R1	2	102781301	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1124528	102781301	140418072	100	105537											
IL1RL1	9173	broad.mit.edu	37	chr2	102955439	102955439	+	Silent	SNP	A	G	G	1	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	agaaatcgtgtgtttgcctcAggccaacttctgaagtttct	9	14	9	9	1	3	2	1	1	2	1	4	2	3	2	2	1	2	2	2	1	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:102955439A>G	uc002tbu.1	+	3	475	c.204A>G	c.(202-204)TCA>TCG	p.S68S	IL1RL1_uc010ywa.1_Splice_Site|IL18R1_uc002tbw.3_Intron|IL1RL1_uc002tbv.2_Silent_p.S68S	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1	68	Extracellular (Potential).|Ig-like C2-type 1.				innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						TGTTTGCCTCAGGCCAACTTC	0.418													36	93					0	0	1	0	0		G	102955439	G	G	102955439	2	3	213	1	0	0	0	0	0	0	0	1	7679	175	7	3		3	IL1RL1	2	102955439	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	174138	102955439	140243934	101	105538											
RANBP2	5903	broad.mit.edu	37	chr2	109379767	109379767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcaacagatgcacacaccGccagtgcaaagctcatctgc	12	5	8	16	2	2	1	1	0	1	1	2	1	2	1	3	0	5	4	3	0	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:109379767G>A	uc002tem.3	+	20	2898	c.2772G>A	c.(2770-2772)CCG>CCA	p.P924P		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	924					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						TGCACACACCGCCAGTGCAAA	0.478													28	47					0	0	1	0	0		A	109379767	A	A	109379767	2	1	213	1	0	0	0	0	0	0	0	1	13053	1074	38	1		1	RANBP2	2	109379767	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6424328	109379767	133819606	102	105539											
EN1	2019	broad.mit.edu	37	chr2	119604484	119604484	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggctggtgagcaggcgccGcgagatgctgaggcggcggg	5	4	22	10	6	0	3	0	2	0	1	0	4	0	3	1	6	2	3	1	6	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:119604484G>A	uc002tlm.2	-	1	1276	c.260C>T	c.(259-261)GCG>GTG	p.A87V		NM_001426	NP_001417	Q05925	HME1_HUMAN	engrailed homeobox 1	87					skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|lung(1)	2						AGCAGGCGCCGCGAGATGCTG	0.348													12	11					0	0	1	0	0		A	119604484	A	A	119604484	3	1	213	1	0	0	0	0	1	0	0	0	5117	1087	38	1	926	1	EN1	2	119604484	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	10224717	119604484	123594889	103	105540											
IWS1	55677	broad.mit.edu	37	chr2	128252455	128252455	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaaatacttacttcttaaGgtgcataactacagcaggca	16	10	6	9	0	1	0	0	0	1	0	1	0	1	0	0	2	6	3	0	2	7	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:128252455G>A	uc002ton.2	-	8	2095	c.1792C>T	c.(1792-1794)CTT>TTT	p.L598F	IWS1_uc010yzl.1_RNA	NM_017969	NP_060439	Q96ST2	IWS1_HUMAN	IWS1 homolog	598					transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0735)		TACTTCTTAAGGTGCATAACT	0.279													12	28					0	0	1	0	0		A	128252455	A	A	128252455	3	1	213	1	0	0	0	0	1	0	0	0	7947	1000	35	4	695	4	IWS1	2	128252455	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	8647971	128252455	114946918	104	105541											
SAP130	79595	broad.mit.edu	37	chr2	128775465	128775465	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccctggcactgacttcaGaatctcgaccagattcatca	10	10	7	14	1	4	3	3	1	1	2	6	4	5	3	2	1	0	2	2	1	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:128775465G>T	uc002tpp.2	-	3	347	c.215C>A	c.(214-216)TCT>TAT	p.S72Y	SAP130_uc002tpo.2_5'Flank|SAP130_uc010fmd.2_Missense_Mutation_p.S72Y|SAP130_uc002tpq.1_Missense_Mutation_p.S46Y	NM_024545	NP_078821	Q9H0E3	SP130_HUMAN	Sin3A-associated protein, 130kDa isoform b	72					histone H3 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	STAGA complex	transcription coactivator activity			ovary(2)|skin(2)	4	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0771)		ACTGACTTCAGAATCTCGACC	0.507													22	32					1.96292e-10	2.11577e-10	1	1	0		T	128775465	T	T	128775465	3	4	213	1	0	0	0	0	1	0	0	0	13856	942	33	5	3112	5	SAP130	2	128775465	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	523010	128775465	114423908	105	105542											
TUBA3E	112714	broad.mit.edu	37	chr2	130949500	130949501	+	Frame_Shift_Del	DEL	AG	-	-																															gccaggtcctcgcgggcctcAgagaactctccctcttccat																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:130949500_130949501delAG	uc002tqv.2	-	5	1357_1358	c.1256_1257delCT	c.(1255-1257)TCTfs	p.S419fs		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	419					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					CGCGGGCCTCAGAGAACTCTCC	0.589													84	122	---	---	---	---						.	-	130949501	-	-	130949500	7	5	213	1	0	1	0	1	0	0	0	0	16774	175	7	0	99	0	TUBA3E	2	130949500	Frame_Shift_Del	DEL	AG	TCGA-HU-A4H3-01A-21D-A25D-08	2174035	130949500	112249873	106	105543											
PTPN18	26469	broad.mit.edu	37	chr2	131130739	131130739	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcttctcccaggtttcaaccTgcgcattgggaggccgaagg	7	10	12	12	2	3	0	1	0	2	0	4	2	3	1	3	4	2	2	3	4	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:131130739T>C	uc002trc.2	+	15	1426	c.1325T>C	c.(1324-1326)CTG>CCG	p.L442P	PTPN18_uc002trd.2_Missense_Mutation_p.L421P|PTPN18_uc002trb.2_Missense_Mutation_p.L335P|PTPN18_uc002tre.2_Missense_Mutation_p.L93P	NM_014369	NP_055184	Q99952	PTN18_HUMAN	protein tyrosine phosphatase, non-receptor type	442						cytoplasm|nucleus	non-membrane spanning protein tyrosine phosphatase activity			ovary(3)|kidney(1)	4	Colorectal(110;0.1)					GGTTTCAACCTGCGCATTGGG	0.622													8	11					0	0	1	0	0		C	131130739	C	C	131130739	3	2	213	1	0	0	0	0	1	0	0	0	12807	1580	55	3	1383	3	PTPN18	2	131130739	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	181239	131130739	112068634	107	105544											
LRP1B	53353	broad.mit.edu	37	chr2	141458136	141458136	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagttctccgggaatttcctCgataaagacagagttgctta	12	12	9	8	2	1	2	0	0	1	2	4	4	2	3	2	1	1	3	2	1	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:141458136C>T	uc002tvj.1	-	41	7454	c.6482G>A	c.(6481-6483)CGA>CAA	p.R2161Q		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2161	Extracellular (Potential).|EGF-like 5.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGAATTTCCTCGATAAAGACA	0.423										TSP Lung(27;0.18)			37	80					0	0	1	0	0		T	141458136	T	T	141458136	3	4	213	1	0	0	0	0	1	0	0	0	8973	884	31	1	7521	1	LRP1B	2	141458136	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	10327397	141458136	101741237	108	105545											
RIF1	55183	broad.mit.edu	37	chr2	152273371	152273371	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtttaacaaaggagagacGcattctgctgttgttgattt	10	15	10	6	1	1	2	0	1	1	1	1	4	1	3	0	1	2	5	0	1	2	6	rs149505451	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:152273371G>A	uc002txm.2	+	6	589	c.459G>A	c.(457-459)ACG>ACA	p.T153T	RIF1_uc002txl.2_Silent_p.T153T|RIF1_uc010fnv.1_Silent_p.T117T|RIF1_uc002txn.2_Silent_p.T153T|RIF1_uc002txo.2_Silent_p.T153T|RIF1_uc010zby.1_RNA	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	153					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AAGGAGAGACGCATTCTGCTG	0.299													10	37					0	0	1	0	0		A	152273371	A	A	152273371	2	1	213	1	0	0	0	0	0	0	0	1	13384	1074	38	1		1	RIF1	2	152273371	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	10815235	152273371	90926002	109	105546											
RIF1	55183	broad.mit.edu	37	chr2	152318968	152318970	+	In_Frame_Del	DEL	GAT	-	-																															aaaccaaaggaggattctaaGatgatgattacggtatgttt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:152318968_152318970delGAT	uc002txm.2	+	29	3481_3483	c.3351_3353delGAT	c.(3349-3354)AAGATG>AAG	p.M1119del	RIF1_uc002txl.2_In_Frame_Del_p.M1119del|RIF1_uc002txn.2_In_Frame_Del_p.M1119del|RIF1_uc002txo.2_In_Frame_Del_p.M1119del|RIF1_uc002txp.2_5'Flank	NM_018151	NP_060621	Q5UIP0	RIF1_HUMAN	RAP1 interacting factor 1	1119					cell cycle|response to DNA damage stimulus	chromosome, telomeric region|cytoplasm|nucleus|spindle	binding			ovary(5)|breast(4)|skin(3)|lung(2)|kidney(1)	15				BRCA - Breast invasive adenocarcinoma(221;0.0429)		AGGATTCTAAGATGATGATTACG	0.286													18	41	---	---	---	---						.	-	152318970	-	-	152318968	7	5	213	1	0	1	0	1	0	0	0	0	13384	933	33	0	3461	0	RIF1	2	152318968	In_Frame_Del	DEL	GAT	TCGA-HU-A4H3-01A-21D-A25D-08	45597	152318968	90880405	110	105547											
KCNJ3	3760	broad.mit.edu	37	chr2	155555820	155555820	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cgtggacgccttcctcatcgGctgcatgttcatcaagatgt	7	12	10	12	3	3	1	3	0	0	1	5	2	4	2	2	2	1	3	2	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:155555820G>A	uc002tyv.1	+	1	728	c.533G>A	c.(532-534)GGC>GAC	p.G178D	KCNJ3_uc010zce.1_Missense_Mutation_p.G178D	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3	178	Helical; Name=M2; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			upper_aerodigestive_tract(1)|pancreas(1)	2					Halothane(DB01159)	TTCCTCATCGGCTGCATGTTC	0.577													15	54					0	0	1	0	0		A	155555820	A	A	155555820	3	1	213	1	0	0	0	0	1	0	0	0	8068	1203	42	2	535	2	KCNJ3	2	155555820	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3236852	155555820	87643553	111	105548											
NR4A2	4929	broad.mit.edu	37	chr2	157186121	157186121	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgtgcaggggcccgtcgaagCgcatctggcaactagacacc	9	5	13	14	4	1	1	0	0	1	1	2	2	1	1	2	3	3	3	2	3	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:157186121C>T	uc002tyz.3	-	3	1000	c.578G>A	c.(577-579)CGC>CAC	p.R193H	NR4A2_uc002tyx.3_Missense_Mutation_p.R130H|NR4A2_uc010zcf.1_Missense_Mutation_p.R193H|NR4A2_uc010zcg.1_5'Flank	NM_006186	NP_006177	P43354	NR4A2_HUMAN	nuclear receptor subfamily 4, group A, member 2	193	Pro-rich.				cellular response to extracellular stimulus|dopaminergic neuron differentiation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to protein stimulus	nucleoplasm	sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(3)	3						CCCGTCGAAGCGCATCTGGCA	0.647													21	128					0	0	1	0	0		T	157186121	T	T	157186121	3	4	213	1	0	0	0	0	1	0	0	0	10652	768	27	1	1242	1	NR4A2	2	157186121	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1630301	157186121	86013252	112	105549											
UPP2	151531	broad.mit.edu	37	chr2	158971760	158971760	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtacaaaaccgggcctgtgCtcgccatcagtgtaagtatc	10	10	10	11	2	1	0	1	0	0	0	3	0	1	0	3	1	3	4	3	1	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:158971760C>T	uc002tzp.2	+	3	522	c.328C>T	c.(328-330)CTC>TTC	p.L110F	UPP2_uc002tzo.2_Missense_Mutation_p.L167F	NM_173355	NP_775491	O95045	UPP2_HUMAN	uridine phosphorylase 2 isoform a	110					nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage|uridine metabolic process	cytosol|type III intermediate filament	uridine phosphorylase activity				0						CGGGCCTGTGCTCGCCATCAG	0.448													7	36					0	0	1	0	0		T	158971760	T	T	158971760	3	4	213	1	0	0	0	0	1	0	0	0	17039	797	28	2	517	2	UPP2	2	158971760	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1785639	158971760	84227613	113	105550											
BAZ2B	29994	broad.mit.edu	37	chr2	160182228	160182228	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aactgaagtaaaactttcttGttttgacaagttaatagaag	16	14	7	4	0	1	3	0	2	1	1	1	3	1	3	0	0	2	3	0	0	8	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:160182228G>A	uc002uao.2	-	35	6497	c.6145C>T	c.(6145-6147)CAA>TAA	p.Q2049*	BAZ2B_uc002uap.2_Nonsense_Mutation_p.Q2013*	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	2049					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						AAACTTTCTTGTTTTGACAAG	0.333													24	42					0	0	1	0	0		A	160182228	A	A	160182228	4	1	213	1	0	0	0	0	0	1	0	0	1333	1386	48	4	373	4	BAZ2B	2	160182228	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1210468	160182228	83017145	114	105551											
TANK	10010	broad.mit.edu	37	chr2	162091980	162091980	+	Frame_Shift_Del	DEL	G	-	-																															cccaccatccattacatccaGgggggatttccttcggcatc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:162091980delG	uc002ubr.1	+	8	1387	c.1229delG	c.(1228-1230)AGGfs	p.R410fs	TANK_uc002ubs.2_Frame_Shift_Del_p.R410fs	NM_004180	NP_004171	Q92844	TANK_HUMAN	TRAF interacting protein TANK isoform a	410	C2H2-type.					cytosol	metal ion binding|protein binding			ovary(1)	1						ATTACATCCAGGGGGGATTTC	0.418													35	81	---	---	---	---						.	-	162091980	-	-	162091980	7	5	213	1	0	1	0	1	0	0	0	0	15571	1000	35	0	1288	0	TANK	2	162091980	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1909752	162091980	81107393	115	105552											
SCN9A	6335	broad.mit.edu	37	chr2	167055891	167055891	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtatgactgcaatgtacatgTtcaccacaaccaggaaggat	14	9	9	9	0	1	1	1	1	0	0	1	3	1	3	2	2	3	4	2	2	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:167055891T>C	uc010fpl.2	-	27	5566	c.5225A>G	c.(5224-5226)AAC>AGC	p.N1742S	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1753	Helical; Name=S6 of repeat IV; (Potential).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	AATGTACATGTTCACCACAAC	0.403													38	143					0	0	1	0	0		C	167055891	C	C	167055891	3	2	213	1	0	0	0	0	1	0	0	0	13950	1725	60	3	712	3	SCN9A	2	167055891	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4963911	167055891	76143482	116	105553											
SCN9A	6335	broad.mit.edu	37	chr2	167141203	167141203	+	Frame_Shift_Del	DEL	A	-	-																															cttctgctctcattgtctccAaaaatgctgtgctcatcatc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:167141203delA	uc010fpl.2	-	12	2075	c.1734delT	c.(1732-1734)TTTfs	p.F578fs	uc002udp.2_Intron|SCN9A_uc002udr.1_Frame_Shift_Del_p.F449fs|SCN9A_uc002uds.1_Frame_Shift_Del_p.F449fs|SCN9A_uc002udt.1_Frame_Shift_Del_p.F449fs	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	578						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CATTGTCTCCAAAAATGCTGT	0.507													29	56	---	---	---	---						.	-	167141203	-	-	167141203	7	5	213	1	0	1	0	1	0	0	0	0	13950	127	5	0	4263	0	SCN9A	2	167141203	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	85312	167141203	76058170	117	105554											
SCN7A	6332	broad.mit.edu	37	chr2	167289041	167289041	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgctcaattcagaaagggtAtggtcagaaatatcttcttt	12	15	8	6	0	5	2	3	0	2	2	5	2	5	2	0	2	1	2	0	2	5	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:167289041A>G	uc002udu.1	-	15	2506	c.2379T>C	c.(2377-2379)CAT>CAC	p.H793H	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	793					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						CAGAAAGGGTATGGTCAGAAA	0.358													52	99					0	0	1	0	0		G	167289041	G	G	167289041	2	3	213	1	0	0	0	0	0	0	0	1	13948	446	16	3		3	SCN7A	2	167289041	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	147838	167289041	75910332	118	105555											
TTC30B	150737	broad.mit.edu	37	chr2	178416799	178416799	+	Silent	SNP	A	G	G	1	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	ctgcgaacatcaatgccctcAgtggtcatgcccacacctag	10	8	8	15	1	3	0	3	0	0	0	3	1	3	0	3	1	4	0	3	1	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:178416799A>G	uc002uln.2	-	1	726	c.693T>C	c.(691-693)ACT>ACC	p.T231T	TTC30B_uc010zfc.1_Silent_p.T3T	NM_152517	NP_689730	Q8N4P2	TT30B_HUMAN	tetratricopeptide repeat domain 30B	231					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.00151)|Epithelial(96;0.00931)|all cancers(119;0.0362)			CAATGCCCTCAGTGGTCATGC	0.512													14	86					0	0	1	0	0		G	178416799	G	G	178416799	2	3	213	1	0	0	0	0	0	0	0	1	16725	175	7	3		3	TTC30B	2	178416799	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	11127758	178416799	64782574	119	105556											
TTC30A	92104	broad.mit.edu	37	chr2	178482730	178482730	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gccaacactgcgaacatcaaAgccctcggtggtcatgccca	11	6	9	15	2	2	0	2	0	0	0	3	1	2	0	3	2	5	0	3	2	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:178482730A>T	uc002ulo.2	-	1	965	c.700T>A	c.(700-702)TTT>ATT	p.F234I		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	234					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			CGAACATCAAAGCCCTCGGTG	0.517													14	57					0	0	1	0	0		T	178482730	T	T	178482730	3	4	213	1	0	0	0	0	1	0	0	0	16724	72	3	5	1301	5	TTC30A	2	178482730	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	65931	178482730	64716643	120	105557											
TTC30A	92104	broad.mit.edu	37	chr2	178482764	178482764	+	Silent	SNP	A	G	G	1	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	atgcccacacctagctcaggAtgctggcggatgccacgctc	8	7	11	15	2	1	0	1	0	0	0	2	2	1	2	3	3	4	3	3	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:178482764A>G	uc002ulo.2	-	1	931	c.666T>C	c.(664-666)CAT>CAC	p.H222H		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	222					cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			CTAGCTCAGGATGCTGGCGGA	0.532													7	50					0	0	1	0	0		G	178482764	G	G	178482764	2	3	213	1	0	0	0	0	0	0	0	1	16724	330	12	3		3	TTC30A	2	178482764	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	34	178482764	64716609	121	105558											
TTC30A	92104	broad.mit.edu	37	chr2	178483324	178483324	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggctccgctgcagttctcGgcccagcagctgcaccgcct	4	7	13	17	3	1	0	0	0	1	0	3	0	2	0	4	3	4	7	4	3	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:178483324G>C	uc002ulo.2	-	1	371	c.106C>G	c.(106-108)CGA>GGA	p.R36G		NM_152275	NP_689488	Q86WT1	TT30A_HUMAN	tetratricopeptide repeat domain 30A	36	TPR 1.				cell projection organization	cilium	binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.000423)|Epithelial(96;0.00373)|all cancers(119;0.0169)			TGCAGTTCTCGGCCCAGCAGC	0.687													4	12					0	0	1	0	0		C	178483324	C	C	178483324	3	2	213	1	0	0	0	0	1	0	0	0	16724	1124	39	5	1895	5	TTC30A	2	178483324	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	560	178483324	64716049	122	105559											
PDE11A	50940	broad.mit.edu	37	chr2	178937033	178937033	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggacctaaagccccctgaccCtgactgtgcctctgcagcca	8	7	9	17	0	1	2	0	2	1	0	1	3	1	3	6	1	4	1	6	1	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:178937033C>A	uc002ulq.2	-	1	450	c.132G>T	c.(130-132)CAG>CAT	p.Q44H	PDE11A_uc002ulr.2_Intron|PDE11A_uc002ult.1_Intron	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	44					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			CCCCCTGACCCTGACTGTGCC	0.567									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				12	28					1.08611e-07	1.14373e-07	1	1	0		A	178937033	A	A	178937033	3	1	213	1	0	0	0	0	1	0	0	0	11650	680	24	5	2749	5	PDE11A	2	178937033	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	453709	178937033	64262340	123	105560											
TTN	7273	broad.mit.edu	37	chr2	179399703	179399703	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttccatgctttcaaatgatTcatggaggtgtaagatgttt	10	16	9	6	0	2	2	2	1	0	1	3	3	3	3	1	2	1	3	1	2	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:179399703T>C	uc010zfg.1	-	307	94159	c.93935A>G	c.(93934-93936)GAA>GGA	p.E31312G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E25007G|TTN_uc010zfi.1_Missense_Mutation_p.E24940G|TTN_uc010zfj.1_Missense_Mutation_p.E24815G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32239							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCAAATGATTCATGGAGGTG	0.338													17	29					0	0	1	0	0		C	179399703	C	C	179399703	3	2	213	1	0	0	0	0	1	0	0	0	16761	1783	62	3	6360	3	TTN	2	179399703	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	462670	179399703	63799670	124	105561											
TTN	7273	broad.mit.edu	37	chr2	179435692	179435692	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caataatatttgtaaaactgGctttcatccaacggccctca	13	12	5	11	1	2	0	2	0	0	0	3	0	3	0	2	2	2	2	2	2	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:179435692G>A	uc010zfg.1	-	275	67687	c.67463C>T	c.(67462-67464)GCC>GTC	p.A22488V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.A16183V|TTN_uc010zfi.1_Missense_Mutation_p.A16116V|TTN_uc010zfj.1_Missense_Mutation_p.A15991V	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	23415							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TGTAAAACTGGCTTTCATCCA	0.433													51	125					0	0	1	0	0		A	179435692	A	A	179435692	3	1	213	1	0	0	0	0	1	0	0	0	16761	1203	42	2	32960	2	TTN	2	179435692	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	35989	179435692	63763681	125	105562											
TTN	7273	broad.mit.edu	37	chr2	179543552	179543552	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacaggtttcttgggcacttCaggaacttcaaagatatcaa	13	11	8	9	0	4	1	3	0	1	1	4	2	4	2	0	3	1	2	0	3	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:179543552C>A	uc010zfg.1	-	140	30240	c.30016G>T	c.(30016-30018)GAA>TAA	p.E10006*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.E6667*|TTN_uc010fre.1_Nonsense_Mutation_p.E663*|TTN_uc002una.1_RNA|TTN_uc010frf.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10933							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTGGGCACTTCAGGAACTTCA	0.423													23	36					6.21321e-17	6.92405e-17	1	1	0		A	179543552	A	A	179543552	4	1	213	1	0	0	0	0	0	1	0	0	16761	835	29	5	70661	5	TTN	2	179543552	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	107860	179543552	63655821	126	105563											
TTN	7273	broad.mit.edu	37	chr2	179583588	179583588	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcaccagttccctgctgccTttaaaccacttgaccttgaa	9	11	7	14	0	0	2	0	2	0	0	1	2	1	2	5	1	3	3	5	1	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:179583588T>G	uc010zfg.1	-	81	20831	c.20607A>C	c.(20605-20607)AAA>AAC	p.K6869N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K3530N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7796							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CCCTGCTGCCTTTAAACCACT	0.488													14	24					0	0	1	0	0		G	179583588	G	G	179583588	3	3	213	1	0	0	0	0	1	0	0	0	16761	1606	56	5	80306	5	TTN	2	179583588	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	40036	179583588	63615785	127	105564											
DNAJC10	54431	broad.mit.edu	37	chr2	183606066	183606066	+	Frame_Shift_Del	DEL	A	-	-																															aaaaactaaaaactctacttAaaaatgatcatattcaagta																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:183606066delA	uc002uow.1	+	13	1589	c.1174delA	c.(1174-1176)AAAfs	p.K392fs	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Frame_Shift_Del_p.K346fs|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	392					apoptosis in response to endoplasmic reticulum stress|cell redox homeostasis|ER-associated protein catabolic process|glycerol ether metabolic process|negative regulation of protein phosphorylation|protein folding|response to endoplasmic reticulum stress	endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|extracellular region	ATPase activator activity|ATPase binding|chaperone binding|electron carrier activity|heat shock protein binding|misfolded protein binding|protein disulfide oxidoreductase activity|unfolded protein binding			ovary(1)|large_intestine(1)|breast(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			AACTCTACTTAAAAATGATCA	0.279													8	9	---	---	---	---						.	-	183606066	-	-	183606066	7	5	213	1	0	1	0	1	0	0	0	0	4635	363	13	0	1216	0	DNAJC10	2	183606066	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	4022478	183606066	59593307	128	105565											
NAB1	4664	broad.mit.edu	37	chr2	191524419	191524419	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccactgagagcgagcacagcCtctccccagcagacctgggc	9	4	11	17	1	1	2	0	1	1	2	2	4	1	2	5	1	4	2	5	1	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:191524419C>T	uc002usb.2	+	4	1089	c.517C>T	c.(517-519)CTC>TTC	p.L173F	NAB1_uc010fsc.2_Missense_Mutation_p.L173F|NAB1_uc010fsd.2_Missense_Mutation_p.L173F|NAB1_uc002usc.2_Missense_Mutation_p.L173F|NAB1_uc010zgh.1_Missense_Mutation_p.L173F	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	173					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			CGAGCACAGCCTCTCCCCAGC	0.632													12	27					0	0	1	0	0		T	191524419	T	T	191524419	3	4	213	1	0	0	0	0	1	0	0	0	10149	681	24	4	519	4	NAB1	2	191524419	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7918353	191524419	51674954	129	105566											
STAT1	6772	broad.mit.edu	37	chr2	191873701	191873701	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ggtcatacctgaagattacgCttgcttttccttatgttatg	8	17	8	8	1	1	2	1	1	0	1	2	2	2	2	2	1	3	3	2	1	5	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:191873701C>A	uc002usj.2	-	4	649	c.261G>T	c.(259-261)AAG>AAT	p.K87N	STAT1_uc010fse.1_Missense_Mutation_p.K87N|STAT1_uc002usk.2_Missense_Mutation_p.K87N|STAT1_uc002usl.2_Missense_Mutation_p.K89N|STAT1_uc010fsf.1_5'UTR	NM_007315	NP_009330	P42224	STAT1_HUMAN	signal transducer and activator of transcription	87					activation of caspase activity|I-kappaB kinase/NF-kappaB cascade|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway|tyrosine phosphorylation of STAT protein	cytosol|nucleolus|nucleoplasm	calcium ion binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity|signal transducer activity			lung(3)|breast(3)|central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	10			OV - Ovarian serous cystadenocarcinoma(117;0.00434)|Epithelial(96;0.0555)|all cancers(119;0.141)		Fludarabine(DB01073)	GAAGATTACGCTTGCTTTTCC	0.378													9	28					0.00448238	0.004556	1	1	0		A	191873701	A	A	191873701	3	1	213	1	0	0	0	0	1	0	0	0	15289	796	28	5	2083	5	STAT1	2	191873701	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	349282	191873701	51325672	130	105567											
HECW2	57520	broad.mit.edu	37	chr2	197185165	197185165	+	Splice_Site	SNP	T	G	G	0	1	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	gtagctgagcatttgatcacTgcaagaagagaaatgcttct	13	11	10	7	0	2	4	1	2	1	2	2	5	2	4	0	0	4	5	0	0	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:197185165T>G	uc002utm.1	-	8	1068	c.885_splice	c.e8-1	p.G295_splice	HECW2_uc002utl.1_Intron	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						ATTTGATCACTGCAAGAAGAG	0.498													6	12					0	0	1	0	0		G	197185165	G	G	197185165	5	3	213	1	0	0	0	0	0	0	1	0	7059	1594	55	5	3923	5	HECW2	2	197185165	Splice_Site	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	5311464	197185165	46014208	131	105568											
CDK15	65061	broad.mit.edu	37	chr2	202671427	202671427	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaagactgtacagcctggaTgcagctgctaccattgttca	11	10	9	11	0	1	1	1	0	0	1	1	2	1	2	2	1	6	5	2	1	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:202671427T>C	uc002uyt.2	+	1	89	c.40T>C	c.(40-42)TGC>CGC	p.C14R	CDK15_uc010ftm.2_Intron|CDK15_uc002uys.2_Intron|CDK15_uc010ftn.1_Intron|CDK15_uc010fto.1_Missense_Mutation_p.C14R	NM_139158	NP_631897	Q96Q40	CDK15_HUMAN	PFTAIRE protein kinase 2	14							ATP binding|cyclin-dependent protein kinase activity|metal ion binding|protein binding			breast(2)|ovary(1)|lung(1)|kidney(1)	5					Adenosine triphosphate(DB00171)	ACAGCCTGGATGCAGCTGCTA	0.537													5	18					0	0	1	0	0		C	202671427	C	C	202671427	3	2	213	1	0	0	0	0	1	0	0	0	3134	1479	51	3		3	CDK15	2	202671427	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	5486262	202671427	40527946	132	105569											
PARD3B	117583	broad.mit.edu	37	chr2	206305215	206305215	+	Missense_Mutation	SNP	A	G	G	1	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	aaatggaccccaattatgccAgagtgaaccactttcgggaa	14	8	9	10	1	0	2	0	1	0	1	1	4	0	4	4	2	2	0	4	2	5	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:206305215A>G	uc002var.1	+	20	3070	c.2863A>G	c.(2863-2865)AGA>GGA	p.R955G	PARD3B_uc002vao.1_Intron|PARD3B_uc002vap.1_Missense_Mutation_p.R893G|PARD3B_uc002vaq.1_Missense_Mutation_p.R886G	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	955					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		CAATTATGCCAGAGTGAACCA	0.478													47	76					0	0	1	0	0		G	206305215	G	G	206305215	3	3	213	1	0	0	0	0	1	0	0	0	11463	180	7	3	2941	3	PARD3B	2	206305215	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	3633788	206305215	36894158	133	105570											
C2orf80	389073	broad.mit.edu	37	chr2	209035783	209035783	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttgttacctttcttgacttGacacctacagacagatgcag	10	13	8	10	0	1	4	0	2	1	2	1	4	1	4	2	0	3	3	2	0	2	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:209035783G>A	uc002vcr.2	-	8	631	c.459C>T	c.(457-459)GTC>GTT	p.V153V		NM_001099334	NP_001092804	Q0P641	CB080_HUMAN	hypothetical protein LOC389073	153										skin(1)	1						TTCTTGACTTGACACCTACAG	0.328													26	59					0	0	1	0	0		A	209035783	A	A	209035783	2	1	213	1	0	0	0	0	0	0	0	1	2200	1277	45	4		4	C2orf80	2	209035783	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2730568	209035783	34163590	134	105571											
SPAG16	79582	broad.mit.edu	37	chr2	214149345	214149345	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcgcctactacctggaacgTatccttcccgtggaggcgcg	6	8	13	14	5	0	0	0	0	0	0	2	2	2	2	4	4	3	1	4	4	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:214149345T>C	uc002veq.2	+	1	228	c.136_splice	c.e1+2	p.Q46_splice	SPAG16_uc010fuz.1_Splice_Site|SPAG16_uc002ver.2_Splice_Site|SPAG16_uc010zjk.1_Splice_Site|SPAG16_uc002veo.2_Splice_Site_p.Q46_splice|SPAG16_uc002vep.1_Splice_Site_p.Q46_splice|SPAG16_uc002ves.1_5'UTR	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1						cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		ACCTGGAACGTATCCTTCCCG	0.706													5	16					0	0	1	0	0		C	214149345	C	C	214149345	5	2	213	1	0	0	0	0	0	0	1	0	15003	1652	57	3	140	3	SPAG16	2	214149345	Splice_Site	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	5113562	214149345	29050028	135	105572											
FN1	2335	broad.mit.edu	37	chr2	216262403	216262403	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggaaaaaattcttcttacGtgtcaccactttgtttacaa	13	14	6	8	1	3	0	1	0	2	0	3	1	3	1	1	1	2	1	1	1	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:216262403G>A	uc002vfa.2	-	22	3783	c.3517C>T	c.(3517-3519)CCA>TCA	p.P1173S	FN1_uc002vfb.2_Missense_Mutation_p.P1173S|FN1_uc002vfc.2_Missense_Mutation_p.P1173S|FN1_uc002vfd.2_Missense_Mutation_p.P1173S|FN1_uc002vfe.2_Missense_Mutation_p.P1173S|FN1_uc002vff.2_Missense_Mutation_p.P1173S|FN1_uc002vfg.2_Missense_Mutation_p.P1173S|FN1_uc002vfh.2_Missense_Mutation_p.P1173S|FN1_uc002vfi.2_Missense_Mutation_p.P1173S|FN1_uc002vfj.2_Missense_Mutation_p.P1173S	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	1173	Fibronectin type-III 7.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTCTTCTTACGTGTCACCACT	0.383													29	43					0	0	1	0	0		A	216262403	A	A	216262403	3	1	213	1	0	0	0	0	1	0	0	0	5976	1159	40	1	4016	1	FN1	2	216262403	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2113058	216262403	26936970	136	105573											
MREG	55686	broad.mit.edu	37	chr2	216810377	216810377	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagttttaacaacatctctcGagctttccttgtgtttttag	8	18	6	9	1	1	0	0	0	1	0	4	1	2	0	1	0	3	3	1	0	3	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:216810377G>A	uc002vfo.2	-	4	723	c.427C>T	c.(427-429)CGA>TGA	p.R143*	MREG_uc002vfq.2_RNA	NM_018000	NP_060470	Q8N565	MREG_HUMAN	whn-dependent transcript 2	143						apical plasma membrane					0		Renal(323;0.0328)		Epithelial(149;4.64e-07)|all cancers(144;5.56e-05)|LUSC - Lung squamous cell carcinoma(224;0.00832)|Lung(261;0.0111)		AACATCTCTCGAGCTTTCCTT	0.393													14	24					0	0	1	0	0		A	216810377	A	A	216810377	4	1	213	1	0	0	0	0	0	1	0	0	9778	1066	37	1	225	1	MREG	2	216810377	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	547974	216810377	26388996	137	105574											
TNS1	7145	broad.mit.edu	37	chr2	218674599	218674599	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagagactttgaagtgaacGatggtggcagctggcgtggg	9	8	18	6	2	0	3	0	2	0	1	0	5	0	3	0	4	2	3	0	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:218674599G>A	uc002vgt.2	-	30	5306	c.4908C>T	c.(4906-4908)ATC>ATT	p.I1636I	TNS1_uc002vgr.2_Silent_p.I1622I|TNS1_uc002vgs.2_Silent_p.I1615I|TNS1_uc002vgq.2_Silent_p.I136I	NM_022648	NP_072174	Q9HBL0	TENS1_HUMAN	tensin	1636						cytoplasm|cytoskeleton|focal adhesion	actin binding			ovary(3)|breast(1)	4		Renal(207;0.0483)|Lung NSC(271;0.213)		Epithelial(149;4.43e-06)|all cancers(144;0.000653)|LUSC - Lung squamous cell carcinoma(224;0.0091)|Lung(261;0.013)		TGAAGTGAACGATGGTGGCAG	0.562													17	26					0	0	1	0	0		A	218674599	A	A	218674599	2	1	213	1	0	0	0	0	0	0	0	1	16368	1048	37	1		1	TNS1	2	218674599	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1864222	218674599	24524774	138	105575											
SLC4A3	6508	broad.mit.edu	37	chr2	220492742	220492742	+	Frame_Shift_Del	DEL	G	-	-																															acggagtgatcccgccgcccGggggcgcctcccccctaccc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:220492742delG	uc002vmp.3	+	2	297	c.28delG	c.(28-30)GGGfs	p.G10fs	SLC4A3_uc002vmn.2_Frame_Shift_Del_p.G10fs|SLC4A3_uc002vmo.3_Frame_Shift_Del_p.G10fs|SLC4A3_uc010fwm.2_5'UTR	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member	10	Cytoplasmic.				bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCCGCCGCCCGGGGGCGCCTC	0.622													4	5	---	---	---	---						.	-	220492742	-	-	220492742	7	5	213	1	0	1	0	1	0	0	0	0	14680	1116	39	0	30	0	SLC4A3	2	220492742	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1818143	220492742	22706631	139	105576											
IRS1	3667	broad.mit.edu	37	chr2	227662352	227662352	+	Frame_Shift_Del	DEL	G	-	-																															tggagcggctgtggttgagcGgggggtgcagccgggcgctg																								rs13306467		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:227662352delG	uc002voh.3	-	1	1155	c.1103delC	c.(1102-1104)CCGfs	p.P368fs		NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	368	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity			lung(5)|central_nervous_system(4)|ovary(2)|pancreas(1)	12		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)		GTGGTTGAGCGGGGGGTGCAG	0.706											OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	61	---	---	---	---						.	-	227662352	-	-	227662352	7	5	213	1	0	1	0	1	0	0	0	0	7856	1116	39	0	2629	0	IRS1	2	227662352	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	7169610	227662352	15537021	140	105577											
ARMC9	80210	broad.mit.edu	37	chr2	232123796	232123796	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgaccgcttgaaagccttctTgttgcaggctctgcgctggg	5	12	13	11	2	2	2	0	2	2	0	2	2	2	2	2	2	3	5	2	2	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:232123796T>C	uc002vrq.3	+	11	1119	c.1007T>C	c.(1006-1008)TTG>TCG	p.L336S	ARMC9_uc002vrp.3_Missense_Mutation_p.L336S	NM_025139	NP_079415	Q7Z3E5	ARMC9_HUMAN	armadillo repeat containing 9	336							binding			ovary(1)	1		Renal(207;0.0112)|all_lung(227;0.0744)|all_hematologic(139;0.0749)|Acute lymphoblastic leukemia(138;0.167)|Medulloblastoma(418;0.184)|Lung NSC(271;0.205)		Epithelial(121;1.43e-10)|LUSC - Lung squamous cell carcinoma(224;0.017)|Lung(119;0.0189)		AAAGCCTTCTTGTTGCAGGCT	0.438													17	29					0	0	1	0	0		C	232123796	C	C	232123796	3	2	213	1	0	0	0	0	1	0	0	0	959	1821	63	3	1045	3	ARMC9	2	232123796	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4461444	232123796	11075577	141	105578											
C2orf57	165100	broad.mit.edu	37	chr2	232458511	232458511	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accagcctgctggacaggggCgagggctccatcagctccct	7	6	13	15	1	1	0	1	0	0	0	3	2	3	1	4	4	3	3	4	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:232458511C>T	uc002vrz.2	+	1	900	c.849C>T	c.(847-849)GGC>GGT	p.G283G		NM_152614	NP_689827	Q53QW1	CB057_HUMAN	hypothetical protein LOC165100	283										ovary(1)	1		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)		TGGACAGGGGCGAGGGCTCCA	0.642													29	69					0	0	1	0	0		T	232458511	T	T	232458511	2	4	213	1	0	0	0	0	0	0	0	1	2181	755	27	1		1	C2orf57	2	232458511	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	334715	232458511	10740862	142	105579											
ALPP	250	broad.mit.edu	37	chr2	233246000	233246000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccgggacaggaaggcctacaCggtcctcctatacggaaacg	11	5	12	13	4	0	0	0	0	0	0	2	3	2	3	4	5	3	0	4	5	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:233246000C>T	uc002vsq.2	+	10	1397	c.1232C>T	c.(1231-1233)ACG>ATG	p.T411M	ALPP_uc002vsr.2_RNA	NM_001632	NP_001623	P05187	PPB1_HUMAN	placental alkaline phosphatase preproprotein	411						anchored to membrane|cell surface|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(1)	1		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;4.45e-22)|Kidney(3;4.42e-11)|KIRC - Kidney renal clear cell carcinoma(3;1.9e-09)|BRCA - Breast invasive adenocarcinoma(100;0.000767)|Lung(119;0.00566)|LUSC - Lung squamous cell carcinoma(224;0.00746)|STAD - Stomach adenocarcinoma(3;0.0181)|GBM - Glioblastoma multiforme(43;0.196)		AAGGCCTACACGGTCCTCCTA	0.587													11	30					0	0	1	0	0		T	233246000	T	T	233246000	3	4	213	1	0	0	0	0	1	0	0	0	548	536	19	1	1270	1	ALPP	2	233246000	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	787489	233246000	9953373	143	105580											
NEU2	4759	broad.mit.edu	37	chr2	233897493	233897493	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agcagtccctgctggccttcGcggaacagcgggcaagcaag	9	5	14	13	3	0	0	0	0	0	0	2	1	1	1	2	3	5	4	2	3	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:233897493G>A	uc010zmn.1	+	1	112	c.112G>A	c.(112-114)GCG>ACG	p.A38T		NM_005383	NP_005374	Q9Y3R4	NEUR2_HUMAN	neuraminidase 2	38							exo-alpha-sialidase activity				0		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0271)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0839)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000311)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(119;0.00942)|GBM - Glioblastoma multiforme(43;0.0488)		GCTGGCCTTCGCGGAACAGCG	0.622													32	38					0	0	1	0	0		A	233897493	A	A	233897493	3	1	213	1	0	0	0	0	1	0	0	0	10361	1087	38	1	114	1	NEU2	2	233897493	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	651493	233897493	9301880	144	105581											
UGT1A4	54657	broad.mit.edu	37	chr2	234627599	234627599	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagcccctggctcagcatgCgggaggccttgcgggagctc	5	6	16	14	2	1	0	1	0	0	0	2	2	1	2	3	4	5	4	3	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:234627599C>T	uc002vux.2	+	1	162	c.133C>T	c.(133-135)CGG>TGG	p.R45W	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Missense_Mutation_p.R45W	NM_007120	NP_009051	P22310	UD14_HUMAN	UDP glycosyltransferase 1 family, polypeptide A4	45					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	enzyme binding|glucuronosyltransferase activity|protein heterodimerization activity|protein homodimerization activity			skin(1)	1		Breast(86;0.000765)|all_lung(227;0.00266)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0327)|Lung NSC(271;0.0456)|Lung SC(224;0.128)		Epithelial(121;3.49e-18)|BRCA - Breast invasive adenocarcinoma(100;0.000504)|Lung(119;0.0026)|LUSC - Lung squamous cell carcinoma(224;0.00624)	Imipramine(DB00458)|Lamotrigine(DB00555)|Paricalcitol(DB00910)|Trifluoperazine(DB00831)	GCTCAGCATGCGGGAGGCCTT	0.607													16	44					0	0	1	0	0		T	234627599	T	T	234627599	3	4	213	1	0	0	0	0	1	0	0	0	16973	759	27	1	135	1	UGT1A4	2	234627599	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	730106	234627599	8571774	145	105582											
DNAJB3	414061	broad.mit.edu	37	chr2	234652144	234652144	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcactgaaggcagagaaaaGgggtgcagacgctctgcttc	11	8	13	9	1	2	3	1	1	1	2	3	4	2	3	0	3	2	4	0	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:234652144G>T	uc002vuz.2	-	1	518	c.419C>A	c.(418-420)CCT>CAT	p.P140H	UGT1A8_uc010zmv.1_Intron|UGT1A8_uc002vup.2_Intron|UGT1A10_uc002vuq.3_Intron|UGT1A10_uc002vur.2_Intron|UGT1A9_uc010zmw.1_Intron|UGT1A9_uc002vus.2_Intron|UGT1A7_uc010zmx.1_Intron|UGT1A7_uc002vut.2_Intron|UGT1A6_uc002vuu.2_Intron|UGT1A6_uc010zmy.1_Intron|UGT1A6_uc002vuv.3_Intron|UGT1A5_uc010zmz.1_Intron|UGT1A5_uc002vuw.2_Intron|UGT1A4_uc010zna.1_Intron|UGT1A4_uc002vux.2_Intron|UGT1A3_uc010znb.1_Intron|UGT1A3_uc002vuy.2_Intron	NM_001001394	NP_001001394	Q8WWF6	DNJB3_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 3	140					protein folding		heat shock protein binding|unfolded protein binding				0						GCAGAGAAAAGGGGTGCAGAC	0.517													17	28					4.7546e-09	5.07801e-09	1	1	0		T	234652144	T	T	234652144	3	4	213	1	0	0	0	0	1	0	0	0	4627	1000	35	5	22	5	DNAJB3	2	234652144	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	24545	234652144	8547229	146	105583											
TRPM8	79054	broad.mit.edu	37	chr2	234873391	234873391	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctggctaatgagtacgagacCcgggctgttggtgagtccac	8	9	14	10	2	0	3	0	2	0	1	1	4	1	3	2	3	1	4	2	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:234873391C>A	uc002vvh.2	+	14	1909	c.1869C>A	c.(1867-1869)ACC>ACA	p.T623T	TRPM8_uc010fyj.2_Silent_p.T311T	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	623	Cytoplasmic (Potential).					integral to membrane				skin(4)	4		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)	AGTACGAGACCCGGGCTGTTG	0.582													11	45					3.07112e-06	3.20517e-06	1	1	0		A	234873391	A	A	234873391	2	1	213	1	0	0	0	0	0	0	0	1	16618	610	22	5		5	TRPM8	2	234873391	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	221247	234873391	8325982	147	105584											
ILKAP	80895	broad.mit.edu	37	chr2	239092729	239092729	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccaaaaggcatctcttcacGgttttctctacactgattac	10	14	5	12	1	3	1	1	1	2	0	6	1	4	1	1	2	2	2	1	2	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:239092729G>A	uc002vxv.2	-	7	688	c.558C>T	c.(556-558)ACC>ACT	p.T186T	ILKAP_uc010zns.1_Silent_p.T118T|ILKAP_uc002vxw.2_Silent_p.T66T|ILKAP_uc010znt.1_Silent_p.T66T	NM_030768	NP_110395	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated protein	186	PP2C-like.					cytoplasm|protein serine/threonine phosphatase complex	metal ion binding|protein binding			ovary(3)	3		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)		ATCTCTTCACGGTTTTCTCTA	0.393													17	46					0	0	1	0	0		A	239092729	A	A	239092729	2	1	213	1	0	0	0	0	0	0	0	1	7730	1103	39	1		1	ILKAP	2	239092729	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4219338	239092729	4106644	148	105585											
HDAC4	9759	broad.mit.edu	37	chr2	240056254	240056254	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtggcaggcaggcccagcGtgatgttgggcaaggatggc	7	6	19	9	2	0	1	0	1	0	0	0	2	0	2	1	7	1	4	1	7	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:240056254G>A	uc002vyk.3	-	10	1856	c.1064C>T	c.(1063-1065)ACG>ATG	p.T355M	HDAC4_uc010fyz.1_Missense_Mutation_p.T350M|HDAC4_uc010zoa.1_Missense_Mutation_p.T350M|HDAC4_uc010fza.2_Missense_Mutation_p.T355M|HDAC4_uc010fyy.2_Missense_Mutation_p.T307M|HDAC4_uc010znz.1_Missense_Mutation_p.T238M|HDAC4_uc010fzb.1_RNA	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	355					B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		CAGGCCCAGCGTGATGTTGGG	0.647													23	28					0	0	1	0	0		A	240056254	A	A	240056254	3	1	213	1	0	0	0	0	1	0	0	0	7025	1145	40	1	2262	1	HDAC4	2	240056254	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	963525	240056254	3143119	149	105586											
AQP12B	653437	broad.mit.edu	37	chr2	241621893	241621893	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gggtgcaggcggcctgcatgCccagcccctgtgccgccagc	4	5	15	17	2	0	0	0	0	0	0	0	0	0	0	6	3	6	2	6	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:241621893C>T	uc010fzj.2	-	1	425	c.362G>A	c.(361-363)GGC>GAC	p.G121D	AQP12B_uc002vzt.2_RNA	NM_001102467	NP_001095937	A6NM10	AQ12B_HUMAN	aquaporin 12B	109	Helical; Name=3; (Potential).					integral to membrane	transporter activity				0		all_epithelial(40;1.71e-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;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)		GGCCTGCATGCCCAGCCCCTG	0.701													16	41					0	0	1	0	0		T	241621893	T	T	241621893	3	4	213	1	0	0	0	0	1	0	0	0	825	739	26	2	573	2	AQP12B	2	241621893	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1565639	241621893	1577480	150	105587											
SNED1	25992	broad.mit.edu	37	chr2	242004785	242004785	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctctatctcctggaacccGcccaatggtccagccgccag	7	8	9	17	2	2	0	0	0	2	0	5	1	3	1	6	2	2	0	6	2	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:242004785G>A	uc002wah.1	+	21	2784	c.2784G>A	c.(2782-2784)CCG>CCA	p.P928P	SNED1_uc002wai.1_Silent_p.P163P|SNED1_uc002waj.1_Silent_p.P15P|SNED1_uc002wak.2_Silent_p.P15P	NM_001080437	NP_001073906	Q8TER0	SNED1_HUMAN	6720455I24Rik homolog precursor	928	Fibronectin type-III 1.				cell-matrix adhesion	extracellular region	calcium ion binding			breast(1)|central_nervous_system(1)	2		all_cancers(19;7.48e-31)|all_epithelial(40;1.35e-12)|Breast(86;0.000148)|Renal(207;0.00528)|Ovarian(221;0.104)|Esophageal squamous(248;0.131)|all_lung(227;0.17)|all_hematologic(139;0.182)|Melanoma(123;0.238)		Epithelial(32;6.46e-32)|all cancers(36;6.23e-29)|OV - Ovarian serous cystadenocarcinoma(60;2.1e-14)|Kidney(56;6.35e-09)|KIRC - Kidney renal clear cell carcinoma(57;5.98e-08)|BRCA - Breast invasive adenocarcinoma(100;3.66e-06)|Lung(119;0.00072)|LUSC - Lung squamous cell carcinoma(224;0.00553)|Colorectal(34;0.0162)|COAD - Colon adenocarcinoma(134;0.109)		CCTGGAACCCGCCCAATGGTC	0.612													11	23					0	0	1	0	0		A	242004785	A	A	242004785	2	1	213	1	0	0	0	0	0	0	0	1	14870	1074	38	1		1	SNED1	2	242004785	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	382892	242004785	1194588	151	105588											
BOK	666	broad.mit.edu	37	chr2	242509686	242509686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agaccctggcaacctggctgCggagacgcggcggatgggtg	7	5	18	11	4	0	2	0	0	0	2	0	4	0	3	2	6	2	2	2	6	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr2:242509686C>T	uc002wbq.2	+	4	742	c.496C>T	c.(496-498)CGG>TGG	p.R166W	BOK_uc002wbr.2_5'Flank	NM_032515	NP_115904	Q9UMX3	BOK_HUMAN	BCL2-related ovarian killer	166	BH2.				activation of caspase activity|cell proliferation|signal transduction by p53 class mediator resulting in induction of apoptosis	mitochondrial membrane|nucleus				ovary(1)	1		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;2.04e-33)|all cancers(36;7.87e-31)|OV - Ovarian serous cystadenocarcinoma(60;3.52e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.64e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0835)		AACCTGGCTGCGGAGACGCgg	0.378													3	1					0	0	1	0	0		T	242509686	T	T	242509686	3	4	213	1	0	0	0	0	1	0	0	0	1485	759	27	1	506	1	BOK	2	242509686	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	504901	242509686	689687	152	105589											
C3orf32	51066	broad.mit.edu	37	chr3	8675523	8675523	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcgggggcttctgggaaggGcctgtggactcacgcgggcc	4	6	20	11	3	2	0	1	0	1	0	2	2	2	2	2	7	0	1	2	7	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:8675523G>A	uc003bqu.2	-	4	348	c.102C>T	c.(100-102)GGC>GGT	p.G34G	C3orf32_uc003bqz.2_Silent_p.G34G|C3orf32_uc003bqt.2_Intron|C3orf32_uc011atg.1_Intron|C3orf32_uc003bqv.2_Intron|C3orf32_uc003bqw.2_RNA|C3orf32_uc003bqx.2_Intron|C3orf32_uc003bqy.2_Silent_p.G34G	NM_015931	NP_057015	Q9Y2M2	CC032_HUMAN	hypothetical protein LOC51066	34										skin(1)	1						TCTGGGAAGGGCCTGTGGACT	0.647													7	40					0	0	1	0	0		A	8675523	A	A	8675523	2	1	213	1	0	0	0	0	0	0	0	1	2225	1190	42	2		2	C3orf32	3	8675523	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		8675523	189346907	153	105590											
CAND2	23066	broad.mit.edu	37	chr3	12867068	12867068	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacaagccctcgctagtccGggacctgctggatgacatcc	9	7	10	15	2	0	1	0	1	0	0	3	3	2	3	4	2	3	2	4	2	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:12867068G>A	uc003bxk.2	+	12	3189	c.3140G>A	c.(3139-3141)CGG>CAG	p.R1047Q	CAND2_uc003bxj.2_Missense_Mutation_p.R930Q	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	1047					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4						TCGCTAGTCCGGGACCTGCTG	0.612													6	7					0	0	1	0	0		A	12867068	A	A	12867068	3	1	213	1	0	0	0	0	1	0	0	0	2619	1116	39	1	3186	1	CAND2	3	12867068	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4191545	12867068	185155362	154	105591											
NKIRAS1	28512	broad.mit.edu	37	chr3	23952392	23952392	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cacaaccttgcagccctttcCcatcttctctcaggatatca	9	12	4	16	0	4	0	2	0	2	0	6	1	5	1	3	1	3	1	3	1	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:23952392C>A	uc003ccj.2	-	3	406	c.4G>T	c.(4-6)GGA>TGA	p.G2*	NKIRAS1_uc003cck.2_Nonsense_Mutation_p.G2*|NKIRAS1_uc003ccl.2_Nonsense_Mutation_p.G2*|NKIRAS1_uc003ccm.2_Nonsense_Mutation_p.G2*	NM_020345	NP_065078	Q9NYS0	KBRS1_HUMAN	kappa B-ras 1	2					I-kappaB kinase/NF-kappaB cascade|small GTPase mediated signal transduction	cytoplasm	GTP binding|GTPase activity				0						CAGCCCTTTCCCATCTTCTCT	0.353													15	24					0.000308642	0.000316155	1	1	0		A	23952392	A	A	23952392	4	1	213	1	0	0	0	0	0	1	0	0	10463	632	22	5	586	5	NKIRAS1	3	23952392	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	11085324	23952392	174070038	155	105592											
LRRC3B	116135	broad.mit.edu	37	chr3	26751452	26751452	+	Frame_Shift_Del	DEL	A	-	-																															tgagagttctcaacctgtccAaaaatggcattgagtttatc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:26751452delA	uc003cdp.2	+	2	878	c.289delA	c.(289-291)AAAfs	p.K97fs	LRRC3B_uc003cdq.2_Frame_Shift_Del_p.K97fs	NM_052953	NP_443185	Q96PB8	LRC3B_HUMAN	leucine rich repeat containing 3B precursor	97	LRR 2.					integral to membrane				pancreas(2)|ovary(1)|skin(1)	4						CAACCTGTCCAAAAATGGCAT	0.423													19	30	---	---	---	---						.	-	26751452	-	-	26751452	7	5	213	1	0	1	0	1	0	0	0	0	9014	131	5	0	291	0	LRRC3B	3	26751452	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	2799060	26751452	171270978	156	105593											
DYNC1LI1	51143	broad.mit.edu	37	chr3	32612171	32612171	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cggcgccaccgttgcccgacGctatctcgttgcccaagggg	5	7	13	16	6	1	0	0	0	1	0	2	1	1	0	4	3	2	3	4	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:32612171G>A	uc003cfb.3	-	1	180	c.92C>T	c.(91-93)GCG>GTG	p.A31V	DYNC1LI1_uc011axh.1_Missense_Mutation_p.A31V	NM_016141	NP_057225	Q9Y6G9	DC1L1_HUMAN	dynein, cytoplasmic 1, light intermediate chain	31					cell division|interspecies interaction between organisms|mitosis|positive regulation of mitotic cell cycle spindle assembly checkpoint|transport	centrosome|condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|plasma membrane|spindle pole	ATP binding|motor activity			ovary(1)	1						GTTGCCCGACGCTATCTCGTT	0.682													6	12					0	0	1	0	0		A	32612171	A	A	32612171	3	1	213	1	0	0	0	0	1	0	0	0	4850	1087	38	1	1531	1	DYNC1LI1	3	32612171	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5860719	32612171	165410259	157	105594											
LRRFIP2	9209	broad.mit.edu	37	chr3	37149577	37149577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcacccctggactgcttCgggctgaacttattcttgat	7	13	9	12	1	2	2	1	2	1	0	3	3	2	3	2	2	3	3	2	2	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:37149577C>T	uc003cgp.2	-	14	1124	c.701G>A	c.(700-702)CGA>CAA	p.R234Q	LRRFIP2_uc011ayf.1_Intron|LRRFIP2_uc003cgr.2_Intron|LRRFIP2_uc003cgs.3_Intron|LRRFIP2_uc003cgt.3_Intron	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	234	DVL3-binding.|Ser-rich.				Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						TGGACTGCTTCGGGCTGAACT	0.368													11	25					0	0	1	0	0		T	37149577	T	T	37149577	3	4	213	1	0	0	0	0	1	0	0	0	9046	884	31	1	1528	1	LRRFIP2	3	37149577	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4537406	37149577	160872853	158	105595											
DLEC1	9940	broad.mit.edu	37	chr3	38163221	38163221	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccagcagcgagtccgggagGtctacctgatgaacctgagc	9	6	14	12	2	1	3	0	3	1	0	2	5	2	4	4	2	5	1	4	2	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:38163221G>A	uc003cho.1	+	35	4990	c.4969G>A	c.(4969-4971)GTC>ATC	p.V1657I	DLEC1_uc003chp.1_Missense_Mutation_p.V1657I|DLEC1_uc010hgv.1_Missense_Mutation_p.V1660I|DLEC1_uc003chr.1_Missense_Mutation_p.V728I|DLEC1_uc003chs.1_Missense_Mutation_p.V214I	NM_007335	NP_031361	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	1657					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|skin(2)|breast(1)	9				KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)		AGTCCGGGAGGTCTACCTGAT	0.637													17	52					0	0	1	0	0		A	38163221	A	A	38163221	3	1	213	1	0	0	0	0	1	0	0	0	4558	1261	44	4	5107	4	DLEC1	3	38163221	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1013644	38163221	159859209	159	105596											
RPSA	3921	broad.mit.edu	37	chr3	39452388	39452388	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gaccccagggctgaccaccaGcctctcacggaggcatctta	9	6	10	16	1	2	1	1	1	2	0	3	3	2	2	5	3	1	2	5	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:39452388G>T	uc003cjp.2	+	4	481	c.396G>T	c.(394-396)CAG>CAT	p.Q132H	RPSA_uc003cjq.2_Missense_Mutation_p.Q137H|RPSA_uc003cjr.2_Missense_Mutation_p.Q132H|RPSA_uc003cjt.2_RNA|SNORA62_uc010hhs.2_5'Flank	NM_002295	NP_002286	P08865	RSSA_HUMAN	ribosomal protein SA	132					cell adhesion|endocrine pancreas development|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit assembly|rRNA export from nucleus|translational elongation|translational termination|viral transcription	90S preribosome|cytosolic small ribosomal subunit|nucleus|plasma membrane	protein binding|receptor activity|ribosome binding|structural constituent of ribosome			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0509)|Kidney(284;0.064)		CTGACCACCAGCCTCTCACGG	0.547													17	46					2.37509e-13	2.60814e-13	1	1	0		T	39452388	T	T	39452388	3	4	213	1	0	0	0	0	1	0	0	0	13688	962	34	5	406	5	RPSA	3	39452388	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1289167	39452388	158570042	160	105597											
KBTBD5	131377	broad.mit.edu	37	chr3	42727728	42727728	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cggtgggcgggtagcggcgaCgccgaggcgcaggctgagcg	5	3	22	11	8	0	1	0	1	0	0	0	3	0	1	1	6	2	3	1	6	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:42727728C>T	uc003clv.1	+	1	718	c.618C>T	c.(616-618)GAC>GAT	p.D206D		NM_152393	NP_689606	Q2TBA0	KBTB5_HUMAN	kelch repeat and BTB (POZ) domain containing 5	206	BACK.									ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.214)		GTAGCGGCGACGCCGAGGCGC	0.701													5	7					0	0	1	0	0		T	42727728	T	T	42727728	2	4	213	1	0	0	0	0	0	0	0	1	8012	535	19	1		1	KBTBD5	3	42727728	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3275340	42727728	155294702	161	105598											
CYP8B1	1582	broad.mit.edu	37	chr3	42916994	42916994	+	Frame_Shift_Del	DEL	T	-	-																															ccaaataccttcagcaccagTttttttgcatattgcccaaa																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:42916994delT	uc003cmh.2	-	1	640	c.315delA	c.(313-315)AAAfs	p.K105fs	CCBP2_uc003cmd.1_Intron|CCBP2_uc003cmg.2_Intron|CYP8B1_uc010hif.2_Frame_Shift_Del_p.K105fs	NM_004391	NP_004382	Q9UNU6	CP8B1_HUMAN	cytochrome P450, family 8, subfamily B,	105					bile acid biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	7alpha-hydroxycholest-4-en-3-one 12alpha-hydroxylase activity|electron carrier activity|heme binding|oxygen binding|sterol 12-alpha-hydroxylase activity			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.213)|Kidney(284;0.249)		TCAGCACCAGTTTTTTTGCAT	0.507													27	54	---	---	---	---						.	-	42916994	-	-	42916994	7	5	213	1	0	1	0	1	0	0	0	0	4201	1722	60	0	1194	0	CYP8B1	3	42916994	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	189266	42916994	155105436	162	105599											
KIAA1143	57456	broad.mit.edu	37	chr3	44795024	44795024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcgatatatgattcttccatCggctggagttggttcttcat	7	17	9	8	2	3	1	1	1	2	0	6	3	4	2	1	3	0	3	1	3	2	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:44795024C>T	uc011bac.1	-	3	353	c.274G>A	c.(274-276)GAT>AAT	p.D92N		NM_020696	NP_065747	Q96AT1	K1143_HUMAN	hypothetical protein LOC57456	92											0				BRCA - Breast invasive adenocarcinoma(193;0.00847)|KIRC - Kidney renal clear cell carcinoma(197;0.0465)|Kidney(197;0.0582)		ATTCTTCCATCGGCTGGAGTT	0.343													21	37					0	0	1	0	0		T	44795024	T	T	44795024	3	4	213	1	0	0	0	0	1	0	0	0	8225	884	31	1	194	1	KIAA1143	3	44795024	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1878030	44795024	153227406	163	105600											
CDCP1	64866	broad.mit.edu	37	chr3	45136923	45136923	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttggagccagatgtcagggTgaggttgctactgcaggtcc	7	11	15	8	0	1	2	1	1	0	1	2	3	2	3	2	4	4	3	2	4	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:45136923T>C	uc003com.2	-	5	1297	c.1162A>G	c.(1162-1164)ACC>GCC	p.T388A		NM_022842	NP_073753	Q9H5V8	CDCP1_HUMAN	CUB domain-containing protein 1 isoform 1	388	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00928)|KIRC - Kidney renal clear cell carcinoma(197;0.0519)|Kidney(197;0.0651)		GATGTCAGGGTGAGGTTGCTA	0.502													22	30					0	0	1	0	0		C	45136923	C	C	45136923	3	2	213	1	0	0	0	0	1	0	0	0	3096	1696	59	3	1368	3	CDCP1	3	45136923	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	341899	45136923	152885507	164	105601											
FYCO1	79443	broad.mit.edu	37	chr3	45965194	45965194	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	catgtagatgccgggtgtgcGaaccttgagctggccctgga	7	9	15	10	2	0	2	0	1	0	1	0	4	0	3	3	3	4	2	3	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:45965194G>A	uc003cpb.3	-	17	4521	c.4315C>T	c.(4315-4317)CGC>TGC	p.R1439C	FYCO1_uc011bal.1_Missense_Mutation_p.R1459C	NM_024513	NP_078789	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	1439	GOLD.				transport	integral to membrane	metal ion binding|protein binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CCGGGTGTGCGAACCTTGAGC	0.557													41	64					0	0	1	0	0		A	45965194	A	A	45965194	3	1	213	1	0	0	0	0	1	0	0	0	6139	1058	37	1	129	1	FYCO1	3	45965194	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	828271	45965194	152057236	165	105602											
PTPN23	25930	broad.mit.edu	37	chr3	47453790	47453790	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagctctggtgtgggccgcaCgggagcctttgcactgctct	4	10	14	13	2	2	0	0	0	2	0	2	1	2	1	2	3	4	4	2	3	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:47453790C>T	uc003crf.1	+	23	4292	c.4196C>T	c.(4195-4197)ACG>ATG	p.T1399M	PTPN23_uc011bax.1_RNA|PTPN23_uc011bay.1_Missense_Mutation_p.T1269M|uc003cri.2_5'Flank	NM_015466	NP_056281	Q9H3S7	PTN23_HUMAN	protein tyrosine phosphatase, non-receptor type	1399	Tyrosine-protein phosphatase.				cilium morphogenesis	cilium|cytoplasmic membrane-bounded vesicle|microtubule basal body	protein tyrosine phosphatase activity			breast(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000271)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GTGGGCCGCACGGGAGCCTTT	0.632													37	73					0	0	1	0	0		T	47453790	T	T	47453790	3	4	213	1	0	0	0	0	1	0	0	0	12813	536	19	1	4286	1	PTPN23	3	47453790	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1488596	47453790	150568640	166	105603											
DHX30	22907	broad.mit.edu	37	chr3	47882645	47882645	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tccatgacccagcaggattcCcacgctccactcagggactc	9	7	8	17	1	1	1	1	1	0	0	5	3	4	3	4	2	1	2	4	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:47882645C>A	uc003cru.2	+	7	1071	c.645C>A	c.(643-645)TCC>TCA	p.S215S	DHX30_uc003crs.2_Silent_p.S176S|DHX30_uc003crt.2_Silent_p.S176S|DHX30_uc010hjr.1_Silent_p.S243S	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	215						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		AGCAGGATTCCCACGCTCCAC	0.567													10	13					1.11149e-13	1.2231e-13	1	1	0		A	47882645	A	A	47882645	2	1	213	1	0	0	0	0	0	0	0	1	4510	610	22	5		5	DHX30	3	47882645	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	428855	47882645	150139785	167	105604											
CELSR3	1951	broad.mit.edu	37	chr3	48698423	48698423	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgcacctgcgccacgtagcGcttctcgctgaactgaggag	7	7	13	14	5	1	2	0	2	1	0	2	3	1	3	2	1	3	4	2	1	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:48698423G>A	uc003cul.2	-	1	1926	c.1645C>T	c.(1645-1647)CGC>TGC	p.R549C	CELSR3_uc003cuf.1_Missense_Mutation_p.R619C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	549	Extracellular (Potential).|Cadherin 3.				homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		GCCACGTAGCGCTTCTCGCTG	0.647													14	34					0	0	1	0	0		A	48698423	A	A	48698423	3	1	213	1	0	0	0	0	1	0	0	0	3226	1087	38	1	8433	1	CELSR3	3	48698423	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	815778	48698423	149324007	168	105605											
BSN	8927	broad.mit.edu	37	chr3	49691512	49691512	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcagagttctctacacagaCgccaagtccagcccctgcct	10	7	8	16	1	1	2	0	0	1	2	3	2	2	2	5	0	4	2	5	0	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:49691512C>T	uc003cxe.3	+	5	4637	c.4523C>T	c.(4522-4524)ACG>ATG	p.T1508M		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1508					synaptic transmission	cell junction|cytoplasm|cytoskeleton|nucleus|synaptosome	metal ion binding			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8				BRCA - Breast invasive adenocarcinoma(193;6.66e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0032)|Kidney(197;0.00336)		TCTACACAGACGCCAAGTCCA	0.622													42	65					0	0	1	0	0		T	49691512	T	T	49691512	3	4	213	1	0	0	0	0	1	0	0	0	1533	536	19	1	4541	1	BSN	3	49691512	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	993089	49691512	148330918	169	105606											
CAMKV	79012	broad.mit.edu	37	chr3	49899527	49899527	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agctttccgcaccttgcggcCgtcccgcttctggaacttct	4	12	9	16	4	2	0	0	0	2	0	4	1	4	1	4	2	3	3	4	2	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:49899527C>T	uc003cxt.1	-	3	371	c.178G>A	c.(178-180)GGC>AGC	p.G60S	CAMKV_uc011bcy.1_5'UTR|CAMKV_uc003cxv.1_Missense_Mutation_p.G60S|CAMKV_uc003cxw.1_5'UTR|CAMKV_uc003cxx.1_5'UTR|CAMKV_uc003cxu.2_Missense_Mutation_p.G60S|CAMKV_uc011bcz.1_Silent_p.T36T|CAMKV_uc011bda.1_Missense_Mutation_p.G60S|CAMKV_uc011bdb.1_RNA	NM_024046	NP_076951	Q8NCB2	CAMKV_HUMAN	CaM kinase-like vesicle-associated	60	Protein kinase.		G -> S (in an ovarian serous carcinoma sample; somatic mutation).			cytoplasmic vesicle membrane|plasma membrane	ATP binding|protein serine/threonine kinase activity	p.G60S(1)		ovary(2)|lung(2)|large_intestine(2)|central_nervous_system(1)	7				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		ACCTTGCGGCCGTCCCGCTTC	0.597													9	25					0	0	1	0	0		T	49899527	T	T	49899527	3	4	213	1	0	0	0	0	1	0	0	0	2611	652	23	1	1363	1	CAMKV	3	49899527	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	208015	49899527	148122903	170	105607											
GNAT1	2779	broad.mit.edu	37	chr3	50231088	50231088	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagtaccagctcaacgactcGgcgggctagtgagcgcgcgg	8	5	16	12	6	1	1	1	1	0	0	2	3	1	1	1	3	4	3	1	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:50231088G>A	uc003cym.2	+	4	557	c.441G>A	c.(439-441)TCG>TCA	p.S147S	GNAT1_uc003cyl.2_Silent_p.S147S	NM_144499	NP_653082	P11488	GNAT1_HUMAN	rod-type transducin alpha subunit	147					detection of chemical stimulus involved in sensory perception of bitter taste|G-protein signaling, coupled to cAMP nucleotide second messenger|negative regulation of cyclic-nucleotide phosphodiesterase activity|rhodopsin mediated phototransduction|sensory perception of umami taste	heterotrimeric G-protein complex|photoreceptor inner segment|photoreceptor outer segment membrane	acyl binding|G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GDP binding|GTP binding|GTPase activity|protein kinase binding|signal transducer activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		TCAACGACTCGGCGGGCTAGT	0.498													18	27					0	0	1	0	0		A	50231088	A	A	50231088	2	1	213	1	0	0	0	0	0	0	0	1	6526	1103	39	1		1	GNAT1	3	50231088	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	331561	50231088	147791342	171	105608											
RAD54L2	23132	broad.mit.edu	37	chr3	51696873	51696873	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggtcatctgccagcccccGtgcagccgtatgaacacggg	8	6	13	14	3	2	1	1	1	1	0	2	1	2	1	4	2	5	2	4	2	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:51696873G>A	uc011bdt.1	+	22	3966	c.3841G>A	c.(3841-3843)GTG>ATG	p.V1281M	RAD54L2_uc003dbh.2_Missense_Mutation_p.V870M|RAD54L2_uc011bdu.1_Missense_Mutation_p.V975M|RAD54L2_uc003dbj.2_Missense_Mutation_p.V607M	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	1281						nucleus	ATP binding|DNA binding|helicase activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;0.000102)|Kidney(197;0.000758)|KIRC - Kidney renal clear cell carcinoma(197;0.000896)		GCCAGCCCCCGTGCAGCCGTA	0.622													10	23					0	0	1	0	0		A	51696873	A	A	51696873	3	1	213	1	0	0	0	0	1	0	0	0	13019	1145	40	1	3923	1	RAD54L2	3	51696873	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1465785	51696873	146325557	172	105609											
STAB1	23166	broad.mit.edu	37	chr3	52539377	52539377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctctaccgaggccttcagcCgctttgaaaccatcctggag	8	9	9	15	2	2	1	1	1	1	0	3	3	3	2	6	2	3	1	6	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:52539377C>T	uc003dej.2	+	14	1635	c.1561C>T	c.(1561-1563)CGC>TGC	p.R521C	STAB1_uc003dei.1_Missense_Mutation_p.R521C	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	521	Extracellular (Potential).|FAS1 2.				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|upper_aerodigestive_tract(2)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	9				BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)		GGCCTTCAGCCGCTTTGAAAC	0.597													9	18					0	0	1	0	0		T	52539377	T	T	52539377	3	4	213	1	0	0	0	0	1	0	0	0	15262	652	23	1	1615	1	STAB1	3	52539377	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	842504	52539377	145483053	173	105610											
ITIH4	3700	broad.mit.edu	37	chr3	52850920	52850920	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgggcatcactgagaatagCgtctccttccacttgtacgc	8	10	9	14	3	2	1	1	1	1	1	4	2	3	1	3	1	2	2	3	1	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:52850920C>T	uc003dfz.2	-	21	2487	c.2451G>A	c.(2449-2451)ACG>ACA	p.T817T	ITIH4_uc011bel.1_Silent_p.T531T|ITIH4_uc003dfy.2_Silent_p.T612T|ITIH4_uc011bem.1_Silent_p.T822T|ITIH4_uc011ben.1_Silent_p.T787T	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	817				ET -> QR (in Ref. 5; AA sequence).	acute-phase response|hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		CTGAGAATAGCGTCTCCTTCC	0.587													55	155					0	0	1	0	0		T	52850920	T	T	52850920	2	4	213	1	0	0	0	0	0	0	0	1	7922	755	27	1		1	ITIH4	3	52850920	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	311543	52850920	145171510	174	105611											
RFT1	91869	broad.mit.edu	37	chr3	53126559	53126559	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttggccaagatgaagcccacGctgccacaccaacgggtcaa	12	5	10	14	2	1	2	1	1	0	1	1	2	1	2	4	2	3	1	4	2	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:53126559G>A	uc003dgj.2	-	12	1338	c.1284C>T	c.(1282-1284)AGC>AGT	p.S428S	RFT1_uc003dgk.2_Silent_p.S389S	NM_052859	NP_443091	Q96AA3	RFT1_HUMAN	RFT1 homolog	428	Helical; (Potential).				carbohydrate transport|dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane	lipid transporter activity			skin(1)	1				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)		TGAAGCCCACGCTGCCACACC	0.557													3	6					0	0	1	0	0		A	53126559	A	A	53126559	2	1	213	1	0	0	0	0	0	0	0	1	13282	1078	38	1		1	RFT1	3	53126559	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	275639	53126559	144895871	175	105612											
ACTR8	93973	broad.mit.edu	37	chr3	53906528	53906528	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccaacgattccaaaagttgcGgggtaaaacaaagccattgg	15	7	10	9	2	0	0	0	0	0	0	1	1	1	0	3	3	4	2	3	3	6	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:53906528G>A	uc003dhd.2	-	10	1244	c.1185C>T	c.(1183-1185)CCC>CCT	p.P395P	ACTR8_uc003dhb.2_Silent_p.P100P|ACTR8_uc003dhc.2_Silent_p.P284P	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8	395					cell division|DNA recombination|DNA repair|mitosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Ino80 complex	protein binding			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000143)|KIRC - Kidney renal clear cell carcinoma(284;0.00544)|Kidney(284;0.00607)|OV - Ovarian serous cystadenocarcinoma(275;0.111)		CAAAAGTTGCGGGGTAAAACA	0.438													57	74					0	0	1	0	0		A	53906528	A	A	53906528	2	1	213	1	0	0	0	0	0	0	0	1	217	1103	39	1		1	ACTR8	3	53906528	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	779969	53906528	144115902	176	105613											
CACNA2D3	55799	broad.mit.edu	37	chr3	54596940	54596940	+	Frame_Shift_Del	DEL	T	-	-																															actttggaagtgcaaagggcTtttttaggcagtatccgggt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:54596940delT	uc003dhf.2	+	6	706	c.658delT	c.(658-660)TTTfs	p.F220fs	CACNA2D3_uc011beu.1_RNA|CACNA2D3_uc003dhg.1_Frame_Shift_Del_p.F126fs|CACNA2D3_uc003dhh.1_RNA|CACNA2D3_uc010hmv.1_5'UTR	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha	220	Extracellular (Potential).					integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TGCAAAGGGCTTTTTTAGGCA	0.378													12	27	---	---	---	---						.	-	54596940	-	-	54596940	7	5	213	1	0	1	0	1	0	0	0	0	2553	1609	56	0	680	0	CACNA2D3	3	54596940	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	690412	54596940	143425490	177	105614											
ARF4	378	broad.mit.edu	37	chr3	57582804	57582804	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgcagcccctcactcacccaTcaaaatgcgcatctgcttct	9	9	5	18	2	5	0	3	0	2	0	5	0	5	0	3	0	3	3	3	0	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:57582804T>C	uc003dix.3	-	1	412	c.64A>G	c.(64-66)ATG>GTG	p.M22V	ARF4_uc003diy.3_RNA|ARF4_uc010hnd.2_Missense_Mutation_p.M22V|ARF4_uc003diz.3_RNA	NM_001660	NP_001651	P18085	ARF4_HUMAN	ADP-ribosylation factor 4	22					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus	GTP binding|GTPase activity			upper_aerodigestive_tract(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0449)|Kidney(284;0.0561)		CACTCACCCATCAAAATGCGC	0.587													15	21					0	0	1	0	0		C	57582804	C	C	57582804	3	2	213	1	0	0	0	0	1	0	0	0	846	1435	50	3	502	3	ARF4	3	57582804	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2985864	57582804	140439626	178	105615											
FLNB	2317	broad.mit.edu	37	chr3	58109159	58109159	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaagctggcctccttagcGtcgactgctcggaagcggga	7	8	15	11	4	0	1	0	1	0	0	3	4	1	3	2	3	4	2	2	3	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:58109159G>A	uc003djj.2	+	21	3631	c.3466G>A	c.(3466-3468)GTC>ATC	p.V1156I	FLNB_uc010hne.2_Missense_Mutation_p.V1156I|FLNB_uc003djk.2_Missense_Mutation_p.V1156I|FLNB_uc010hnf.2_Missense_Mutation_p.V1156I|FLNB_uc003djl.2_Missense_Mutation_p.V987I|FLNB_uc003djm.2_Missense_Mutation_p.V987I	NM_001457	NP_001448	O75369	FLNB_HUMAN	filamin B isoform 2	1156	Interaction with FBLP1.|Filamin 10.				actin cytoskeleton organization|cell differentiation|cytoskeletal anchoring at plasma membrane|signal transduction	cell cortex|integral to membrane|nucleus|sarcomere	actin binding			breast(8)|ovary(5)|lung(3)|skin(2)|central_nervous_system(1)	19				BRCA - Breast invasive adenocarcinoma(55;0.000335)|KIRC - Kidney renal clear cell carcinoma(284;0.0726)|Kidney(284;0.0898)		CCTCCTTAGCGTCGACTGCTC	0.582													36	80					0	0	1	0	0		A	58109159	A	A	58109159	3	1	213	1	0	0	0	0	1	0	0	0	5948	1145	40	1	3548	1	FLNB	3	58109159	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	526355	58109159	139913271	179	105616											
FAM3D	131177	broad.mit.edu	37	chr3	58620027	58620027	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taaaatggcttcgggggcatGcagccctccatctccagcag	9	8	11	13	1	1	0	0	0	1	0	4	0	2	0	3	3	3	4	3	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:58620027G>A	uc003dkq.2	-	10	951	c.654C>T	c.(652-654)TGC>TGT	p.C218C		NM_138805	NP_620160	Q96BQ1	FAM3D_HUMAN	family with sequence similarity 3, member D	218					negative regulation of insulin secretion	extracellular region	cytokine activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000225)|Kidney(10;0.000667)|KIRC - Kidney renal clear cell carcinoma(10;0.000802)|OV - Ovarian serous cystadenocarcinoma(275;0.169)		TCGGGGGCATGCAGCCCTCCA	0.552													26	56					0	0	1	0	0		A	58620027	A	A	58620027	2	1	213	1	0	0	0	0	0	0	0	1	5573	1311	46	2		2	FAM3D	3	58620027	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	510868	58620027	139402403	180	105617											
SLC25A26	115286	broad.mit.edu	37	chr3	66293695	66293695	+	Missense_Mutation	SNP	A	T	T	1	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	ctgattcatcttcatatttgAcacctatgaaacatatgttg	12	16	5	8	0	3	3	2	3	1	0	3	3	3	3	1	0	1	1	1	0	4	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:66293695A>T	uc011bfq.1	+	4	987	c.259A>T	c.(259-261)ACA>TCA	p.T87S	SLC25A26_uc011bfs.1_5'UTR|SLC25A26_uc011bft.1_RNA|SLC25A26_uc011bfr.1_Missense_Mutation_p.T87S|SLC25A26_uc003dmt.2_5'UTR	NM_173471	NP_775742	Q70HW3	SAMC_HUMAN	solute carrier family 25, member 26 isoform a	87	Solcar 2.|Helical; Name=3; (Potential).					integral to membrane|mitochondrial inner membrane|nucleus	S-adenosylmethionine transmembrane transporter activity			pancreas(1)	1		Lung NSC(201;0.00774)		BRCA - Breast invasive adenocarcinoma(55;0.00046)|KIRC - Kidney renal clear cell carcinoma(15;0.0515)|Kidney(15;0.0648)		TTCATATTTGACACCTATGAA	0.343													30	81					0	0	1	0	0		T	66293695	T	T	66293695	3	4	213	1	0	0	0	0	1	0	0	0	14514	275	10	5	71	5	SLC25A26	3	66293695	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	7673668	66293695	131728735	181	105618											
FOXP1	27086	broad.mit.edu	37	chr3	71090609	71090609	+	Missense_Mutation	SNP	T	C	C	0	1	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	atccaaactgctgtgattgtTgcctgtggtttcttctgcag	6	16	10	9	0	2	1	0	1	2	0	3	1	3	1	2	1	4	4	2	1	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:71090609T>C	uc003dol.2	-	7	1062	c.739A>G	c.(739-741)AAC>GAC	p.N247D	FOXP1_uc003dom.2_Missense_Mutation_p.N171D|FOXP1_uc003don.2_RNA|FOXP1_uc003doo.2_Missense_Mutation_p.N247D|FOXP1_uc003dop.2_Missense_Mutation_p.N247D|FOXP1_uc003doq.1_Missense_Mutation_p.N246D|FOXP1_uc003doi.2_Missense_Mutation_p.N147D|FOXP1_uc003doj.2_Missense_Mutation_p.N147D|FOXP1_uc003dok.2_Missense_Mutation_p.N60D|FOXP1_uc003dor.1_Missense_Mutation_p.N25D	NM_032682	NP_116071	Q9H334	FOXP1_HUMAN	forkhead box P1 isoform 1	247					cardiac muscle cell differentiation|embryo development|immunoglobulin V(D)J recombination|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of immunoglobulin production|positive regulation of mesenchymal cell proliferation|pre-B cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|skeletal muscle tissue development|smooth muscle tissue development	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(201;4.62e-05)|Prostate(10;0.0181)|Hepatocellular(537;0.186)|Myeloproliferative disorder(1037;0.209)		BRCA - Breast invasive adenocarcinoma(55;1.17e-05)|Epithelial(33;1.39e-05)|LUSC - Lung squamous cell carcinoma(21;2.35e-05)|Lung(16;4.26e-05)		CTGTGATTGTTGCCTGTGGTT	0.448			T	PAX5	ALL								15	56					0	0	1	0	0		C	71090609	C	C	71090609	3	2	213	1	0	0	0	0	1	0	0	0	6040	1812	63	3	1338	3	FOXP1	3	71090609	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4796914	71090609	126931821	182	105619											
PROS1	5627	broad.mit.edu	37	chr3	93605255	93605255	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtttccagcaatccattttcCggcttaaaaaggggtccagg	10	11	10	10	1	0	0	0	0	0	0	4	0	4	0	4	4	1	3	4	4	4	4	rs148869673	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:93605255C>T	uc003drb.3	-	11	1589	c.1248G>A	c.(1246-1248)CCG>CCA	p.P416P	PROS1_uc010hoo.2_Silent_p.P285P|PROS1_uc003dqz.3_Silent_p.P285P	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	416	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	ATCCATTTTCCGGCTTAAAAA	0.373													33	109					0	0	1	0	0		T	93605255	T	T	93605255	2	4	213	1	0	0	0	0	0	0	0	1	12580	639	23	1		1	PROS1	3	93605255	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	22514646	93605255	104417175	183	105620											
EPHA6	285220	broad.mit.edu	37	chr3	96706798	96706798	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcctcttggaaggtgcatcTgcagtacaggatatgaagaa	12	11	11	7	0	2	2	0	1	2	1	3	4	3	4	1	3	3	3	1	3	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:96706798T>C	uc010how.1	+	3	1118	c.1075T>C	c.(1075-1077)TGC>CGC	p.C359R	EPHA6_uc003drp.1_Missense_Mutation_p.C359R	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	264	Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity			stomach(5)|lung(4)|central_nervous_system(3)|breast(1)|skin(1)|ovary(1)|kidney(1)	16						AAGGTGCATCTGCAGTACAGG	0.378													20	39					0	0	1	0	0		C	96706798	C	C	96706798	3	2	213	1	0	0	0	0	1	0	0	0	5179	1580	55	3	1085	3	EPHA6	3	96706798	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3101543	96706798	101315632	184	105621											
IMPG2	50939	broad.mit.edu	37	chr3	100964796	100964796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	gcccatcttcgagggaaaggCtaatttgtgtgtagacacta	11	11	11	8	1	1	1	0	0	1	1	2	3	1	2	1	2	0	2	1	2	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:100964796C>T	uc003duq.1	-	12	1596	c.1393G>A	c.(1393-1395)GCC>ACC	p.A465T	IMPG2_uc011bhe.1_Missense_Mutation_p.A328T	NM_016247	NP_057331	Q9BZV3	IMPG2_HUMAN	interphotoreceptor matrix proteoglycan 2	465	Extracellular (Potential).				visual perception	integral to membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|hyaluronic acid binding|receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3						GAGGGAAAGGCTAATTTGTGT	0.507													31	72					0	0	1	0	0		T	100964796	T	T	100964796	3	4	213	1	0	0	0	0	1	0	0	0	7745	797	28	2	2364	2	IMPG2	3	100964796	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4257998	100964796	97057634	185	105622											
CASR	846	broad.mit.edu	37	chr3	121981056	121981056	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaacagctcgacagccttcCgacccctctgtacaggggat	9	7	10	15	2	1	0	0	0	1	0	3	3	2	1	4	2	4	3	4	2	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:121981056C>T	uc003eev.3	+	4	1546	c.1174C>T	c.(1174-1176)CGA>TGA	p.R392*	CASR_uc003eew.3_Nonsense_Mutation_p.R392*	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	392	Extracellular (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)|skin(2)|upper_aerodigestive_tract(1)	7				GBM - Glioblastoma multiforme(114;0.226)	Cinacalcet(DB01012)	GACAGCCTTCCGACCCCTCTG	0.493													20	54					0	0	1	0	0		T	121981056	T	T	121981056	4	4	213	1	0	0	0	0	0	1	0	0	2685	644	23	1	1184	1	CASR	3	121981056	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	21016260	121981056	76041374	186	105623											
EEFSEC	60678	broad.mit.edu	37	chr3	127983467	127983467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttctcttttctagctcctgaCgtcccagatttccatcccaa	7	15	4	15	1	2	2	0	1	2	1	7	2	6	2	4	0	1	1	4	0	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:127983467C>T	uc003eki.2	+	4	667	c.629C>T	c.(628-630)ACG>ATG	p.T210M	EEFSEC_uc003ekj.2_Intron	NM_021937	NP_068756	P57772	SELB_HUMAN	eukaryotic elongation factor,	210						cytoplasm|nucleus	GTP binding|GTPase activity|translation elongation factor activity			ovary(1)	1						TAGCTCCTGACGTCCCAGATT	0.567													44	112					0	0	1	0	0		T	127983467	T	T	127983467	3	4	213	1	0	0	0	0	1	0	0	0	4937	536	19	1	643	1	EEFSEC	3	127983467	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6002411	127983467	70038963	187	105624											
KIAA1257	57501	broad.mit.edu	37	chr3	128696934	128696934	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gttttttcttgttttcctggCggatgttcctggttcgactc	2	20	10	9	2	1	0	0	0	1	0	5	2	3	1	2	3	0	4	2	3	0	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:128696934C>T	uc003elj.3	-	5	958	c.762G>A	c.(760-762)CCG>CCA	p.P254P	KIAA1257_uc003elg.1_Silent_p.P254P|KIAA1257_uc003eli.3_Silent_p.P142P	NM_020741	NP_065792	Q9ULG3	K1257_HUMAN	hypothetical protein LOC57501	254											0						GTTTTCCTGGCGGATGTTCCT	0.433													23	51					0	0	1	0	0		T	128696934	T	T	128696934	2	4	213	1	0	0	0	0	0	0	0	1	8234	755	27	1		1	KIAA1257	3	128696934	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	713467	128696934	69325496	188	105625											
COL6A6	131873	broad.mit.edu	37	chr3	130377519	130377519	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgctgcttctgcttcttttaGattgacgacactggcacatt	7	16	8	10	1	2	2	0	1	2	1	2	3	2	2	0	1	3	4	0	1	1	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:130377519G>T	uc010htl.2	+	33	5765	c.5734_splice	c.e33-1	p.I1912_splice	COL6A6_uc003eni.3_Splice_Site_p.I11_splice	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor						axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						GCTTCTTTTAGATTGACGACA	0.478													5	10					0.00116845	0.00119109	1	1	0		T	130377519	T	T	130377519	5	4	213	1	0	0	0	0	0	0	1	0	3706	956	33	5	5863	5	COL6A6	3	130377519	Splice_Site	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1680585	130377519	67644911	189	105626											
MSL2	55167	broad.mit.edu	37	chr3	135871069	135871069	+	Silent	SNP	A	G	G	1	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	tcaacagtattacatacgtcAatcgtatttgaatgttcagg	13	14	7	7	2	3	1	3	1	0	0	4	1	3	1	0	1	3	3	0	1	7	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:135871069A>G	uc003eqx.1	-	2	1387	c.654T>C	c.(652-654)ATT>ATC	p.I218I	MSL2_uc011bmb.1_Silent_p.I144I	NM_018133	NP_060603	Q9HCI7	MSL2_HUMAN	ring finger protein 184 isoform 1	218					histone H4-K16 acetylation	MSL complex	zinc ion binding			central_nervous_system(1)	1						TACATACGTCAATCGTATTTG	0.393													18	46					0	0	1	0	0		G	135871069	G	G	135871069	2	3	213	1	0	0	0	0	0	0	0	1	9896	126	5	3		3	MSL2	3	135871069	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	5493550	135871069	62151361	190	105627											
SPSB4	92369	broad.mit.edu	37	chr3	140785540	140785540	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggatggccagtacctgggCgtggccttccgaggtctcaa	6	9	15	11	2	1	0	1	0	1	0	3	2	2	1	4	5	1	1	4	5	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:140785540C>T	uc003ett.2	+	2	848	c.594C>T	c.(592-594)GGC>GGT	p.G198G	SPSB4_uc010hum.2_Silent_p.G198G	NM_080862	NP_543138	Q96A44	SPSB4_HUMAN	splA/ryanodine receptor domain and SOCS box	198	B30.2/SPRY.				intracellular signal transduction	cytoplasm	protein binding				0						AGTACCTGGGCGTGGCCTTCC	0.632													9	45					0	0	1	0	0		T	140785540	T	T	140785540	2	4	213	1	0	0	0	0	0	0	0	1	15140	755	27	1		1	SPSB4	3	140785540	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4914471	140785540	57236890	191	105628											
TRPC1	7220	broad.mit.edu	37	chr3	142467219	142467219	+	Silent	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgctcttaaaacaggatgtAtctctacccaagccccatgc	12	10	6	13	0	2	0	0	0	2	0	3	1	2	1	3	1	5	2	3	1	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:142467219A>T	uc003evc.2	+	4	685	c.549A>T	c.(547-549)GTA>GTT	p.V183V	TRPC1_uc003evb.2_Silent_p.V149V	NM_003304	NP_003295	P48995	TRPC1_HUMAN	transient receptor potential cation channel,	183	Cytoplasmic (Potential).|ANK 4.				axon guidance|cytosolic calcium ion homeostasis|positive regulation of release of sequestered calcium ion into cytosol|response to calcium ion	cytosol|integral to plasma membrane	protein binding|store-operated calcium channel activity			ovary(2)	2						AACAGGATGTATCTCTACCCA	0.398													54	152					0	0	1	0	0		T	142467219	T	T	142467219	2	4	213	1	0	0	0	0	0	0	0	1	16604	436	16	5		5	TRPC1	3	142467219	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1681679	142467219	55555211	192	105629											
PAQR9	344838	broad.mit.edu	37	chr3	142682066	142682066	+	Frame_Shift_Del	DEL	G	-	-																															gcagcggcttggcagacgctGgggggtcccgggaggcggca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:142682066delG	uc003evg.2	-	1	113	c.113delC	c.(112-114)CCAfs	p.P38fs	PAQR9_uc003evf.1_5'Flank	NM_198504	NP_940906	Q6ZVX9	PAQR9_HUMAN	progestin and adipoQ receptor family member IX	38	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						GGCAGACGCTGGGGGGTCCCG	0.751													3	3	---	---	---	---						.	-	142682066	-	-	142682066	7	5	213	1	0	1	0	1	0	0	0	0	11461	1348	47	0	1024	0	PAQR9	3	142682066	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	214847	142682066	55340364	193	105630											
SR140	23350	broad.mit.edu	37	chr3	142773947	142773948	+	Frame_Shift_Ins	INS	-	A	A																															attctcctagagatgttagcINSaaaaaagccaaaaggtaaat																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:142773947_142773948insA	uc003evh.1	+	27	3036_3037	c.2937_2938insA	c.(2935-2940)AGCAAAfs	p.S979fs	SR140_uc003evi.1_Frame_Shift_Ins_p.S570fs|SR140_uc003evj.1_RNA|SR140_uc003evk.1_Frame_Shift_Ins_p.S978fs	NM_001080415	NP_001073884	O15042	SR140_HUMAN	U2-associated SR140 protein	979_980	Arg/Ser-rich.				RNA processing	nucleus	nucleotide binding|RNA binding				0						GAGATGTTAGCAAAAAAGCCAA	0.391													7	15	---	---	---	---						.	A	142773948	A	A	142773947	7	5	213	1	0	1	1	0	0	0	0	0	15156	709	25	0	3043	0	SR140	3	142773947	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	91881	142773947	55248483	194	105631											
IGSF10	285313	broad.mit.edu	37	chr3	151171285	151171285	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tataggagaccatctcttgaGggagggaggtcaggaagtta	12	9	15	5	0	2	2	1	1	1	1	3	6	2	5	1	5	0	1	1	5	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:151171285G>T	uc011bod.1	-	3	602	c.602C>A	c.(601-603)CCT>CAT	p.P201H		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	201	LRR 6.				cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CATCTCTTGAGGGAGGGAGGT	0.433													19	85					3.32936e-07	3.49899e-07	1	1	0		T	151171285	T	T	151171285	3	4	213	1	0	0	0	0	1	0	0	0	7613	1000	35	5	7333	5	IGSF10	3	151171285	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	8397338	151171285	46851145	195	105632											
PLCH1	23007	broad.mit.edu	37	chr3	155200527	155200527	+	Silent	SNP	A	G	G	1	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	cccttttccttgattttcacAccatgcagatcttgtgtggg	6	16	8	11	0	2	2	1	1	1	1	3	2	3	2	3	1	1	1	3	1	0	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:155200527A>G	uc011bok.1	-	23	3589	c.3312T>C	c.(3310-3312)GGT>GGC	p.G1104G	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Silent_p.G1066G	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1104					lipid catabolic process|phosphatidylinositol-mediated signaling	membrane	calcium ion binding|calcium-dependent phospholipase C activity|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(3)|ovary(1)	4			Lung(72;0.11)|LUSC - Lung squamous cell carcinoma(72;0.114)			TGATTTTCACACCATGCAGAT	0.473													48	150					0	0	1	0	0		G	155200527	G	G	155200527	2	3	213	1	0	0	0	0	0	0	0	1	12056	146	6	3		3	PLCH1	3	155200527	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	4029242	155200527	42821903	196	105633											
IL12A	3592	broad.mit.edu	37	chr3	159713213	159713213	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cctgaatttcaacagtgagaCtgtgccacaaaaatcctccc	13	9	6	13	0	1	2	1	2	0	1	3	3	3	2	4	0	2	0	4	0	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:159713213C>T	uc003fcx.2	+	7	844	c.629C>T	c.(628-630)ACT>ATT	p.T210I	uc003fcw.1_Intron	NM_000882	NP_000873	P29459	IL12A_HUMAN	interleukin 12A precursor	176					cell cycle arrest|cell migration|defense response to Gram-positive bacterium|immune response|negative regulation of interleukin-17 production|negative regulation of smooth muscle cell proliferation|positive regulation of cell adhesion|positive regulation of interferon-gamma production|positive regulation of natural killer cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|positive regulation of NK T cell activation|positive regulation of smooth muscle cell apoptosis|positive regulation of T cell mediated cytotoxicity|positive regulation of tyrosine phosphorylation of Stat4 protein|response to lipopolysaccharide|response to UV-B|response to virus	interleukin-12 complex	cytokine activity|growth factor activity|interleukin-12 receptor binding|interleukin-27 binding|protein heterodimerization activity				0			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AACAGTGAGACTGTGCCACAA	0.368													13	86					0	0	1	0	0		T	159713213	T	T	159713213	3	4	213	1	0	0	0	0	1	0	0	0	7640	565	20	4	655	4	IL12A	3	159713213	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4512686	159713213	38309217	197	105634											
SLC7A14	57709	broad.mit.edu	37	chr3	170216628	170216628	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caatgatggtcacgatgaccGcgatcaacagagccagaagg	14	5	12	10	3	2	4	2	2	0	2	2	6	2	4	2	2	2	0	2	2	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:170216628G>A	uc003fgz.2	-	4	903	c.587C>T	c.(586-588)GCG>GTG	p.A196V	CLDN11_uc011bpt.1_Intron|uc003fha.1_Intron	NM_020949	NP_066000	Q8TBB6	S7A14_HUMAN	solute carrier family 7 (cationic amino acid	196	Helical; (Potential).					integral to membrane	amino acid transmembrane transporter activity			ovary(2)|upper_aerodigestive_tract(1)|liver(1)|central_nervous_system(1)	5	all_cancers(22;2.41e-22)|all_epithelial(15;4.2e-27)|all_lung(20;1.17e-16)|Lung NSC(18;4.91e-16)|Ovarian(172;0.000902)|Breast(254;0.137)		Lung(28;6.23e-13)|LUSC - Lung squamous cell carcinoma(14;1.48e-12)			CACGATGACCGCGATCAACAG	0.473													19	76					0	0	1	0	0		A	170216628	A	A	170216628	3	1	213	1	0	0	0	0	1	0	0	0	14721	1087	38	1	1748	1	SLC7A14	3	170216628	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	10503415	170216628	27805802	198	105635											
ECT2	1894	broad.mit.edu	37	chr3	172520688	172520688	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaccgaagcttagtacagcGggttgaaacaatttctctag	12	11	9	9	2	2	1	1	1	1	0	3	2	2	1	1	1	4	3	1	1	6	5	rs146823982		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:172520688G>A	uc003fii.2	+	19	2069	c.1931G>A	c.(1930-1932)CGG>CAG	p.R644Q	ECT2_uc010hwv.1_Missense_Mutation_p.R675Q|ECT2_uc003fih.2_Missense_Mutation_p.R643Q|ECT2_uc003fij.1_Missense_Mutation_p.R644Q|ECT2_uc003fik.1_Missense_Mutation_p.R644Q|ECT2_uc003fil.1_Missense_Mutation_p.R675Q|ECT2_uc003fim.1_5'UTR	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene	644	PH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TTAGTACAGCGGGTTGAAACA	0.378													11	50					0	0	1	0	0		A	172520688	A	A	172520688	3	1	213	1	0	0	0	0	1	0	0	0	4907	1116	39	1	2001	1	ECT2	3	172520688	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2304060	172520688	25501742	199	105636											
KCNMB2	10242	broad.mit.edu	37	chr3	178546038	178546038	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acatttaattgctccttcagCtgtggtccagactgctggaa	9	13	9	10	0	1	1	1	0	0	1	3	2	3	2	2	2	3	3	2	2	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:178546038C>T	uc003fjd.2	+	4	643	c.300C>T	c.(298-300)AGC>AGT	p.S100S	uc003fjb.1_Intron|uc003fjc.1_Intron|KCNMB2_uc003fje.2_Silent_p.S100S|KCNMB2_uc003fjf.2_Silent_p.S100S|KCNMB2_uc011bqa.1_Intron|KCNMB2_uc011bqb.1_Intron	NM_181361	NP_852006	Q9Y691	KCMB2_HUMAN	calcium-activated potassium channel beta 2	100	Extracellular (Potential).				detection of calcium ion|platelet activation|regulation of action potential in neuron|regulation of vasoconstriction	voltage-gated potassium channel complex	calcium-activated potassium channel activity|ion channel inhibitor activity|potassium channel regulator activity			ovary(1)	1	all_cancers(143;5.38e-18)|Ovarian(172;0.00769)|Breast(254;0.125)		OV - Ovarian serous cystadenocarcinoma(80;1.32e-27)|GBM - Glioblastoma multiforme(14;0.0321)|BRCA - Breast invasive adenocarcinoma(182;0.0841)			GCTCCTTCAGCTGTGGTCCAG	0.512													20	64					0	0	1	0	0		T	178546038	T	T	178546038	2	4	213	1	0	0	0	0	0	0	0	1	8091	796	28	2		2	KCNMB2	3	178546038	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6025350	178546038	19476392	200	105637											
PIK3CA	5290	broad.mit.edu	37	chr3	178936091	178936091	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atcctctctctgaaatcactGagcaggagaaagattttcta	13	12	7	9	0	4	4	1	2	3	2	6	5	5	4	1	1	1	1	1	1	3	3	rs104886003		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:178936091G>A	uc003fjk.2	+	10	1790	c.1633G>A	c.(1633-1635)GAG>AAG	p.E545K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	545	PI3K helical.		E -> G (in KERSEB).|E -> A (in cancer).|E -> K (in KERSEB; 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; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E545K(735)|p.E545A(75)|p.E545G(55)|p.E545?(19)|p.E545D(15)|p.E545Q(12)|p.E545V(4)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			TGAAATCACTGAGCAGGAGAA	0.353	E545K(RERFLCSQ1_LUNG)|E545K(KYSE510_OESOPHAGUS)|E545K(NCIH508_LARGE_INTESTINE)|E545K(HCC202_BREAST)|E545K(BFTC909_KIDNEY)|E545K(HCT15_LARGE_INTESTINE)|E545K(NCIH596_LUNG)|E545K(L363_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|E545K(DLD1_LARGE_INTESTINE)|E545K(ESS1_ENDOMETRIUM)|E545K(MDAMB361_BREAST)|E545K(MKN1_STOMACH)|E545K(MCF7_BREAST)|E545K(NCIH460_LUNG)|E545K(TCCSUP_URINARY_TRACT)|E545K(HSC4_UPPER_AERODIGESTIVE_TRACT)|E545K(BC3C_URINARY_TRACT)|E545K(HUH28_BILIARY_TRACT)|E545K(HT1197_URINARY_TRACT)|E545K(TE5_OESOPHAGUS)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			16	54					0	0	1	0	0		A	178936091	A	A	178936091	3	1	213	1	0	0	0	0	1	0	0	0	11932	1291	45	4	1667	4	PIK3CA	3	178936091	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	390053	178936091	19086339	201	105638											
DVL3	1857	broad.mit.edu	37	chr3	183884279	183884279	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgagtaatgacgatgcagtcCgggtactgcgggagattgtg	9	10	16	6	3	0	3	0	2	0	1	1	5	1	3	1	2	3	3	1	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:183884279C>T	uc003fms.2	+	9	1089	c.949C>T	c.(949-951)CGG>TGG	p.R317W	DVL3_uc011bqw.1_Missense_Mutation_p.R317W|DVL3_uc003fmt.2_Silent_p.S5S|DVL3_uc003fmu.2_Missense_Mutation_p.R149W	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	317	PDZ.				canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CGATGCAGTCCGGGTACTGCG	0.537													39	92					0	0	1	0	0		T	183884279	T	T	183884279	3	4	213	1	0	0	0	0	1	0	0	0	4843	643	23	1	983	1	DVL3	3	183884279	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4948188	183884279	14138151	202	105639											
ABCF3	55324	broad.mit.edu	37	chr3	183908990	183908990	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctactacgatccgaagcacGtcatcttcagtcgcctctct	8	12	6	15	4	5	0	2	0	3	0	8	2	6	0	2	0	3	1	2	0	3	3	rs113949696		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:183908990G>A	uc003fmz.2	+	16	1649	c.1516G>A	c.(1516-1518)GTC>ATC	p.V506I	ABCF3_uc003fna.2_Missense_Mutation_p.V500I|ABCF3_uc003fnb.2_Missense_Mutation_p.V187I	NM_018358	NP_060828	Q9NUQ8	ABCF3_HUMAN	ATP-binding cassette, sub-family F (GCN20),	506	ABC transporter 2.						ATP binding|ATPase activity			ovary(3)|lung(1)	4	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.35e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCGAAGCACGTCATCTTCAG	0.542													35	167					0	0	1	0	0		A	183908990	A	A	183908990	3	1	213	1	0	0	0	0	1	0	0	0	67	1145	40	1	1578	1	ABCF3	3	183908990	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	24711	183908990	14113440	203	105640											
CLCN2	1181	broad.mit.edu	37	chr3	184075423	184075423	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cctacctccaataggtgccgCgaagcagcagcccaccccca	10	4	8	19	2	0	0	0	0	0	0	1	1	1	0	7	1	5	2	7	1	4	2	rs149439531		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:184075423C>T	uc003foi.2	-	7	881	c.757G>A	c.(757-759)GCG>ACG	p.A253T	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.A253T|CLCN2_uc011brl.1_Missense_Mutation_p.A253T|CLCN2_uc011brm.1_Missense_Mutation_p.A209T|CLCN2_uc011brn.1_Missense_Mutation_p.A253T	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	253						chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	ATAGGTGCCGCGAAGCAGCAG	0.647													19	65					0	0	1	0	0		T	184075423	T	T	184075423	3	4	213	1	0	0	0	0	1	0	0	0	3466	768	27	1	2011	1	CLCN2	3	184075423	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	166433	184075423	13947007	204	105641											
HRG	3273	broad.mit.edu	37	chr3	186395311	186395311	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatccccatggacaccatcCccactgccatgatttccaag	10	8	5	18	0	0	1	0	1	0	0	3	2	3	2	8	1	1	0	8	1	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:186395311C>A	uc003fqq.2	+	7	1240	c.1217C>A	c.(1216-1218)CCC>CAC	p.P406H		NM_000412	NP_000403	P04196	HRG_HUMAN	histidine-rich glycoprotein precursor	406	His/Pro-rich (HRR).				fibrinolysis|platelet activation|platelet degranulation	extracellular region|plasma membrane|platelet alpha granule lumen	cysteine-type endopeptidase inhibitor activity|heparin binding			ovary(1)|central_nervous_system(1)	2	all_cancers(143;6.64e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;5.73e-20)	GBM - Glioblastoma multiforme(93;0.0683)		ggacaccatccccactgccat	0.249													4	18					0.150653	0.15094	1	1	0		A	186395311	A	A	186395311	3	1	213	1	0	0	0	0	1	0	0	0	7370	623	22	5	1243	5	HRG	3	186395311	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2319888	186395311	11627119	205	105642											
LRRC15	131578	broad.mit.edu	37	chr3	194080887	194080887	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcatagagccaaagctcccGcaggttgggcatgggcccga	9	6	14	12	2	1	1	1	0	0	1	2	2	2	1	3	3	2	4	3	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:194080887G>A	uc003ftu.2	-	2	972	c.886C>T	c.(886-888)CGG>TGG	p.R296W	LRRC15_uc003ftt.2_Missense_Mutation_p.R302W	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	296	Extracellular (Potential).|LRR 11.					integral to membrane				ovary(3)	3	all_cancers(143;5.31e-09)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;2.2e-17)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;4.94e-05)		CAAAGCTCCCGCAGGTTGGGC	0.552													28	72					0	0	1	0	0		A	194080887	A	A	194080887	3	1	213	1	0	0	0	0	1	0	0	0	8988	1086	38	1	863	1	LRRC15	3	194080887	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7685576	194080887	3941543	206	105643											
TMEM44	93109	broad.mit.edu	37	chr3	194344395	194344395	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacactggccctgagctgccGcctcctcttcctctctcggg	3	10	9	19	2	2	1	0	1	2	0	6	1	4	1	5	2	2	1	5	2	0	1	rs141093359		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:194344395G>A	uc010hzn.2	-	4	557	c.388C>T	c.(388-390)CGG>TGG	p.R130W	TMEM44_uc003fue.2_Missense_Mutation_p.R130W|TMEM44_uc003fud.2_Missense_Mutation_p.R130W|TMEM44_uc003fuf.2_Missense_Mutation_p.R130W|TMEM44_uc011bsv.1_Missense_Mutation_p.R130W|TMEM44_uc003fuh.1_RNA	NM_001011655	NP_001011655	Q2T9K0	TMM44_HUMAN	transmembrane protein 44 isoform b	130	Cytoplasmic (Potential).					integral to membrane					0	all_cancers(143;1.41e-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;9.06e-06)		CTGAGCTGCCGCCTCCTCTTC	0.627													11	46					0	0	1	0	0		A	194344395	A	A	194344395	3	1	213	1	0	0	0	0	1	0	0	0	16193	1086	38	1	1105	1	TMEM44	3	194344395	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	263508	194344395	3678035	207	105644											
MUC4	4585	broad.mit.edu	37	chr3	195501057	195501057	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actcacgtagagggaatcacGgagagaggagccaaggggga	14	3	17	7	2	2	2	2	0	0	2	2	7	2	6	1	5	1	1	1	5	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr3:195501057G>A	uc011bto.1	-	5	13139	c.12679C>T	c.(12679-12681)CGT>TGT	p.R4227C	MUC4_uc003fuz.2_Silent_p.S34S|MUC4_uc003fva.2_5'UTR|MUC4_uc003fvb.2_5'UTR|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_5'UTR|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_5'UTR|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_5'UTR|MUC4_uc011bti.1_5'UTR|MUC4_uc011btj.1_Missense_Mutation_p.R96C|MUC4_uc011btk.1_5'UTR|MUC4_uc011btl.1_5'UTR|MUC4_uc011btm.1_Missense_Mutation_p.R96C|MUC4_uc011btn.1_5'UTR|MUC4_uc003fvo.2_Missense_Mutation_p.R119C|MUC4_uc003fvp.2_Missense_Mutation_p.R68C|MUC4_uc010hzu.1_Missense_Mutation_p.R967C	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1112					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGGGAATCACGGAGAGAGGAG	0.667													12	21					0	0	1	0	0		A	195501057	A	A	195501057	3	1	213	1	0	0	0	0	1	0	0	0	9996	1116	39	1	3263	1	MUC4	3	195501057	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1156662	195501057	2521373	208	105645											
PIGG	54872	broad.mit.edu	37	chr4	533012	533012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttccagttttcacgtacatcGttttggtgacatctctgcgt	6	17	8	10	3	2	1	1	1	1	0	5	1	3	1	1	1	2	3	1	1	1	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:533012G>A	uc003gak.3	+	13	2942	c.2806G>A	c.(2806-2808)GTT>ATT	p.V936I	PIGG_uc003gaj.3_Missense_Mutation_p.V928I|PIGG_uc011bux.1_RNA|PIGG_uc010ibf.2_Missense_Mutation_p.V803I|PIGG_uc003gal.3_Missense_Mutation_p.V847I	NM_001127178	NP_001120650	Q5H8A4	PIGG_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	936	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	CP2 mannose-ethanolamine phosphotransferase activity	p.V928I(1)		central_nervous_system(2)|ovary(1)|skin(1)	4						CACGTACATCGTTTTGGTGAC	0.398													24	34					0	0	1	0	0		A	533012	A	A	533012	3	1	213	1	0	0	0	0	1	0	0	0	11907	1145	40	1	2856	1	PIGG	4	533012	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		533012	190621264	209	105646											
TMEM175	84286	broad.mit.edu	37	chr4	951613	951613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctattcactgttctcagcGaagacaacgtcccggacccc	10	9	7	15	3	3	1	2	0	2	1	5	3	4	2	3	1	2	1	3	1	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:951613G>A	uc003gbq.2	+	11	942	c.844G>A	c.(844-846)GAA>AAA	p.E282K	TMEM175_uc003gbr.2_Missense_Mutation_p.E200K|TMEM175_uc003gbu.2_Missense_Mutation_p.E200K|TMEM175_uc003gbs.2_Missense_Mutation_p.E165K|TMEM175_uc003gbt.2_Missense_Mutation_p.E165K|TMEM175_uc003gbv.2_Missense_Mutation_p.E165K|TMEM175_uc010ibm.2_Missense_Mutation_p.E98K	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	282						integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			TGTTCTCAGCGAAGACAACGT	0.652													29	67					0	0	1	0	0		A	951613	A	A	951613	3	1	213	1	0	0	0	0	1	0	0	0	16116	1072	37	1	882	1	TMEM175	4	951613	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	418601	951613	190202663	210	105647											
ZFYVE28	57732	broad.mit.edu	37	chr4	2306598	2306598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catccgcacccacctcccagCcgtccaggtgcagccgcgag	7	4	10	20	4	0	0	0	0	0	0	3	1	3	0	7	1	3	2	7	1	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:2306598C>T	uc003gex.1	-	8	1788	c.1469G>A	c.(1468-1470)GGC>GAC	p.G490D	ZFYVE28_uc011bvk.1_Missense_Mutation_p.G420D|ZFYVE28_uc011bvl.1_Missense_Mutation_p.G460D|ZFYVE28_uc003gew.1_Missense_Mutation_p.G376D	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	490					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						CACCTCCCAGCCGTCCAGGTG	0.647													29	55					0	0	1	0	0		T	2306598	T	T	2306598	3	4	213	1	0	0	0	0	1	0	0	0	17695	739	26	2	1218	2	ZFYVE28	4	2306598	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1354985	2306598	188847678	211	105648											
EVC2	132884	broad.mit.edu	37	chr4	5696067	5696067	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacttaatacttaccaggcGgtgtgttataggagactctc	11	12	10	8	1	1	1	0	0	1	1	2	3	1	1	1	3	3	1	1	3	6	5	rs148388393		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:5696067G>A	uc003gij.2	-	3	499	c.445C>T	c.(445-447)CGC>TGC	p.R149C	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Missense_Mutation_p.R69C	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	149						integral to membrane				large_intestine(3)|ovary(2)	5						CTTACCAGGCGGTGTGTTATA	0.393													18	30					0	0	1	0	0		A	5696067	A	A	5696067	3	1	213	1	0	0	0	0	1	0	0	0	5294	1116	39	1	3561	1	EVC2	4	5696067	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3389469	5696067	185458209	212	105649											
CCDC96	257236	broad.mit.edu	37	chr4	7043818	7043818	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcccagatggcgcaggtacGcttgctctttctcgggggcc	4	10	14	13	3	2	1	0	0	2	1	3	1	2	1	2	4	3	4	2	4	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:7043818G>A	uc003gjv.2	-	1	911	c.848C>T	c.(847-849)GCG>GTG	p.A283V	TADA2B_uc003gjw.3_5'Flank|TADA2B_uc010idi.2_5'Flank	NM_153376	NP_699207	Q2M329	CCD96_HUMAN	coiled-coil domain containing 96	283											0						GCGCAGGTACGCTTGCTCTTT	0.652													35	133					0	0	1	0	0		A	7043818	A	A	7043818	3	1	213	1	0	0	0	0	1	0	0	0	2877	1087	38	1	823	1	CCDC96	4	7043818	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1347751	7043818	184110458	213	105650											
CPZ	8532	broad.mit.edu	37	chr4	8621094	8621094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaagtcatcatccccgcccGgatgaagagggctggccgtg	9	6	14	12	3	2	2	2	1	0	1	3	4	3	3	4	3	0	1	4	3	2	0	rs113699437	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:8621094G>A	uc003glm.2	+	11	1835	c.1709G>A	c.(1708-1710)CGG>CAG	p.R570Q	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.R433Q|CPZ_uc003glo.2_Missense_Mutation_p.R559Q|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	570					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						ATCCCCGCCCGGATGAAGAGG	0.577													13	34					0	0	1	0	0		A	8621094	A	A	8621094	3	1	213	1	0	0	0	0	1	0	0	0	3842	1116	39	1	1751	1	CPZ	4	8621094	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1577276	8621094	182533182	214	105651											
NKX3-2	579	broad.mit.edu	37	chr4	13545921	13545921	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agccgcggccaccgatgccgCtgtgcccccgggcgccgggc	3	3	16	19	7	0	0	0	0	0	0	0	1	0	0	7	3	3	1	7	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:13545921C>T	uc003gmx.2	-	1	194	c.118G>A	c.(118-120)GCG>ACG	p.A40T		NM_001189	NP_001180	P78367	NKX32_HUMAN	NK3 homeobox 2	40					negative regulation of chondrocyte differentiation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						ACCGATGCCGCTGTgcccccg	0.507													4	1					0	0	1	0	0		T	13545921	T	T	13545921	3	4	213	1	0	0	0	0	1	0	0	0	10475	797	28	2	891	2	NKX3-2	4	13545921	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4924827	13545921	177608355	215	105652											
SLIT2	9353	broad.mit.edu	37	chr4	20512694	20512694	+	Missense_Mutation	SNP	T	C	C	0	1	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	tatttctaatcttagtgaccTgagcaataatcagatctctg	12	15	6	8	0	4	3	1	2	3	1	5	3	4	3	1	0	1	1	1	0	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:20512694T>C	uc003gpr.1	+	11	1196	c.992T>C	c.(991-993)CTG>CCG	p.L331P	SLIT2_uc003gps.1_Missense_Mutation_p.L331P	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	331	LRR 8.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						CTTAGTGACCTGAGCAATAAT	0.378													29	36					0	0	1	0	0		C	20512694	C	C	20512694	3	2	213	1	0	0	0	0	1	0	0	0	14765	1580	55	3	1034	3	SLIT2	4	20512694	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	6966773	20512694	170641582	216	105653											
C4orf19	55286	broad.mit.edu	37	chr4	37592069	37592069	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cagtactgcaaatactgttcCcccaactcaacccttcctgg	10	10	5	16	0	1	0	1	0	0	0	3	0	3	0	4	1	5	3	4	1	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:37592069C>T	uc003gsw.3	+	4	575	c.392C>T	c.(391-393)CCC>CTC	p.P131L	C4orf19_uc003gsy.3_Missense_Mutation_p.P131L	NM_001104629	NP_001098099	Q8IY42	CD019_HUMAN	hypothetical protein LOC55286	131											0						AATACTGTTCCCCCAACTCAA	0.597													35	74					0	0	1	0	0		T	37592069	T	T	37592069	3	4	213	1	0	0	0	0	1	0	0	0	2256	623	22	4	398	4	C4orf19	4	37592069	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	17079375	37592069	153562207	217	105654											
TLR6	10333	broad.mit.edu	37	chr4	38830420	38830420	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcattcaatttaatattagtCagttgtaagcaccctaaagt	14	15	5	7	0	3	0	3	0	0	0	3	0	3	0	1	0	1	3	1	0	7	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:38830420C>T	uc003gtm.2	-	1	741	c.675G>A	c.(673-675)CTG>CTA	p.L225L	TLR6_uc010ifg.1_Silent_p.L225L	NM_006068	NP_006059	Q9Y2C9	TLR6_HUMAN	toll-like receptor 6 precursor	225	Extracellular (Potential).				activation of NF-kappaB-inducing kinase activity|cellular response to diacyl bacterial lipopeptide|defense response to bacterium|detection of diacyl bacterial lipopeptide|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-6 biosynthetic process|positive regulation of JUN kinase activity|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	integral to plasma membrane|phagocytic vesicle membrane	lipopeptide binding|transmembrane receptor activity			ovary(2)	2						TAATATTAGTCAGTTGTAAGC	0.333													13	29					0	0	1	0	0		T	38830420	T	T	38830420	2	4	213	1	0	0	0	0	0	0	0	1	15980	813	29	4		4	TLR6	4	38830420	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1238351	38830420	152323856	218	105655											
CORIN	10699	broad.mit.edu	37	chr4	47647195	47647196	+	Frame_Shift_Ins	INS	-	TC	TC																															tggatggacattcccaaagaINStctctctctttacaacctag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:47647195_47647196insTC	uc003gxm.2	-	14	1952_1953	c.1859_1860insGA	c.(1858-1860)GATfs	p.D620fs	CORIN_uc011bzf.1_Frame_Shift_Ins_p.D481fs|CORIN_uc011bzg.1_Frame_Shift_Ins_p.D553fs|CORIN_uc011bzh.1_Frame_Shift_Ins_p.D583fs	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	620	Extracellular (Potential).|LDL-receptor class A 6.				peptide hormone processing|regulation of systemic arterial blood pressure by atrial natriuretic peptide	integral to membrane|plasma membrane	scavenger receptor activity|serine-type endopeptidase activity|serine-type exopeptidase activity			ovary(1)|central_nervous_system(1)	2						ATTCCCAAAGATCTCTCTCTTT	0.371													34	75	---	---	---	---						.	TC	47647196	TC	TC	47647195	7	5	213	1	0	1	1	0	0	0	0	0	3755	330	12	0	1304	0	CORIN	4	47647195	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	8816775	47647195	143507081	219	105656											
SRD5A3	79644	broad.mit.edu	37	chr4	56236103	56236103	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatctacgtttccatggccGtcacctttgggttccacaac	7	13	8	13	2	2	1	1	1	1	0	4	1	4	1	4	2	2	2	4	2	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:56236103G>A	uc003hau.2	+	5	897	c.802G>A	c.(802-804)GTC>ATC	p.V268I	uc003hav.1_Intron|uc003haw.1_Intron	NM_024592	NP_078868	Q9H8P0	PORED_HUMAN	steroid 5 alpha-reductase 3	268	Helical; (Potential).				androgen biosynthetic process|dolichol metabolic process|dolichol-linked oligosaccharide biosynthetic process|polyprenol catabolic process	endoplasmic reticulum membrane|integral to membrane	3-oxo-5-alpha-steroid 4-dehydrogenase activity|oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor				0	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)			TTCCATGGCCGTCACCTTTGG	0.453													33	61					0	0	1	0	0		A	56236103	A	A	56236103	3	1	213	1	0	0	0	0	1	0	0	0	15165	1145	40	1	820	1	SRD5A3	4	56236103	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	8588908	56236103	134918173	220	105657											
C4orf14	84273	broad.mit.edu	37	chr4	57843591	57843591	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccgtgtccacggggtcaTaaggaagctcgcgtcccaga	8	7	12	14	4	1	1	1	0	0	1	5	2	4	2	4	3	1	1	4	3	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:57843591T>G	uc003hck.2	-	1	236	c.161A>C	c.(160-162)TAT>TCT	p.Y54S	POLR2B_uc003hcl.1_5'Flank|POLR2B_uc011cae.1_5'Flank|POLR2B_uc011caf.1_5'Flank	NM_032313	NP_115689	Q8NC60	CD014_HUMAN	hypothetical protein LOC84273	54							GTP binding			ovary(1)|breast(1)	2	Glioma(25;0.08)|all_neural(26;0.181)					CACGGGGTCATAAGGAAGCTC	0.652													25	57					0	0	1	0	0		G	57843591	G	G	57843591	3	3	213	1	0	0	0	0	1	0	0	0	2254	1406	49	5	1963	5	C4orf14	4	57843591	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1607488	57843591	133310685	221	105658											
EPHA5	2044	broad.mit.edu	37	chr4	66509085	66509085	+	Frame_Shift_Del	DEL	T	-	-																															ctttcataaaacttaccccaTtttttggaaaagcaatccat																								rs33932471	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:66509085delT	uc003hcy.2	-	2	435	c.242delA	c.(241-243)AATfs	p.N81fs	EPHA5_uc003hcx.2_Frame_Shift_Del_p.N12fs|EPHA5_uc003hcz.2_Frame_Shift_Del_p.N81fs|EPHA5_uc011cah.1_Frame_Shift_Del_p.N81fs|EPHA5_uc011cai.1_Frame_Shift_Del_p.N81fs|EPHA5_uc003hda.2_Frame_Shift_Del_p.N81fs	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	81	Extracellular (Potential).				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						ACTTACCCCATTTTTTGGAAA	0.338										TSP Lung(17;0.13)			22	40	---	---	---	---						.	-	66509085	-	-	66509085	7	5	213	1	0	1	0	1	0	0	0	0	5178	1493	52	0	2939	0	EPHA5	4	66509085	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	8665494	66509085	124645191	222	105659											
AFM	173	broad.mit.edu	37	chr4	74367503	74367503	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttgacatcttttggccacaGgtttcttgtcaacttagtga	8	17	8	8	0	3	2	1	2	2	0	3	2	3	2	1	2	1	1	1	2	2	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:74367503G>T	uc003hhb.2	+	13	1678	c.1647_splice	c.e13-1	p.R549_splice		NM_001133	NP_001124	P43652	AFAM_HUMAN	afamin precursor						vitamin transport		vitamin E binding			ovary(2)|central_nervous_system(1)	3	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TTTGGCCACAGGTTTCTTGTC	0.383													10	24					0.00829132	0.00841125	1	1	0		T	74367503	T	T	74367503	5	4	213	1	0	0	0	0	0	0	1	0	361	1014	35	5	1696	5	AFM	4	74367503	Splice_Site	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7858418	74367503	116786773	223	105660											
CXCL10	3627	broad.mit.edu	37	chr4	76943854	76943854	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcactcacatgatctcaaCacgtggacaaaattggcttg	12	12	7	10	1	3	1	3	1	1	0	4	2	3	2	0	2	1	1	0	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:76943854C>T	uc003hjl.3	-	2	248	c.178G>A	c.(178-180)GTT>ATT	p.V60I	ART3_uc003hji.2_Intron|ART3_uc003hjj.2_Intron|ART3_uc003hjk.2_Intron	NM_001565	NP_001556	P02778	CXL10_HUMAN	small inducible cytokine B10 precursor	60					blood circulation|cell surface receptor linked signaling pathway|cell-cell signaling|chemotaxis|inflammatory response|muscle organ development|positive regulation of cell proliferation	extracellular space	cAMP-dependent protein kinase regulator activity|chemokine activity				0			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			ATGATCTCAACACGTGGACAA	0.333													30	61					0	0	1	0	0		T	76943854	T	T	76943854	3	4	213	1	0	0	0	0	1	0	0	0	4081	478	17	4	130	4	CXCL10	4	76943854	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2576351	76943854	114210422	224	105661											
HPSE	10855	broad.mit.edu	37	chr4	84234371	84234371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatctgctgttcttaataacGcatttaggccaaagatcaag	14	12	7	8	1	3	1	1	0	2	1	3	1	3	1	1	1	2	3	1	1	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:84234371G>A	uc003hoj.3	-	4	668	c.569C>T	c.(568-570)GCG>GTG	p.A190V	HPSE_uc010ika.2_Intron|HPSE_uc011ccq.1_RNA|HPSE_uc011ccr.1_RNA|HPSE_uc011ccs.1_Intron|HPSE_uc011cct.1_Missense_Mutation_p.A190V|HPSE_uc003hok.3_Missense_Mutation_p.A190V	NM_001098540	NP_001092010	Q9Y251	HPSE_HUMAN	heparanase precursor	190					carbohydrate metabolic process|cell adhesion|proteoglycan metabolic process	extracellular region|lysosomal membrane|nucleus	beta-glucuronidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.114)		COAD - Colon adenocarcinoma(81;0.141)	Heparin(DB01109)	TCTTAATAACGCATTTAGGCC	0.413													8	45					0	0	1	0	0		A	84234371	A	A	84234371	3	1	213	1	0	0	0	0	1	0	0	0	7360	1087	38	1	1098	1	HPSE	4	84234371	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7290517	84234371	106919905	225	105662											
WDFY3	23001	broad.mit.edu	37	chr4	85708812	85708812	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtaggcatagaccgtgctcaCcactggtggatttgccgaac	9	9	12	11	2	1	1	1	0	0	1	1	3	1	2	3	3	3	3	3	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:85708812C>T	uc003hpd.2	-	23	4132	c.3724G>A	c.(3724-3726)GTG>ATG	p.V1242M		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1242						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		ACCGTGCTCACCACTGGTGGA	0.488													13	34					0	0	1	0	0		T	85708812	T	T	85708812	3	4	213	1	0	0	0	0	1	0	0	0	17296	507	18	4	7040	4	WDFY3	4	85708812	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1474441	85708812	105445464	226	105663											
ABCG2	9429	broad.mit.edu	37	chr4	89034590	89034590	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcttcttctcacccccGgaaagttgatgtaattcagc	8	15	6	12	1	5	1	2	1	4	0	6	2	5	2	2	1	1	2	2	1	2	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:89034590G>A	uc003hrg.2	-	9	1552	c.1059C>T	c.(1057-1059)TCC>TCT	p.S353S	ABCG2_uc003hrh.2_Silent_p.S353S|ABCG2_uc003hrf.2_Silent_p.S221S	NM_004827	NP_004818	Q9UNQ0	ABCG2_HUMAN	ATP-binding cassette, sub-family G, member 2	353	Cytoplasmic (Potential).				cellular iron ion homeostasis|urate metabolic process	integral to membrane|plasma membrane	ATP binding|heme transporter activity|protein homodimerization activity|xenobiotic-transporting ATPase activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;7.02e-05)	Imatinib(DB00619)|Mitoxantrone(DB01204)|Nicardipine(DB00622)|Nitrendipine(DB01054)|Rosuvastatin(DB01098)|Saquinavir(DB01232)|Topotecan(DB01030)	TCTCACCCCCGGAAAGTTGAT	0.428													38	87					0	0	1	0	0		A	89034590	A	A	89034590	2	1	213	1	0	0	0	0	0	0	0	1	69	1103	39	1		1	ABCG2	4	89034590	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3325778	89034590	102119686	227	105664											
PPM1K	152926	broad.mit.edu	37	chr4	89199582	89199582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggactcccactaccatctgGgtcaaaccgagaacacctag	12	7	8	14	1	2	1	1	0	1	1	3	3	3	2	4	2	3	0	4	2	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:89199582G>A	uc003hrm.3	-	2	544	c.154C>T	c.(154-156)CCA>TCA	p.P52S	PPM1K_uc010ikp.1_Missense_Mutation_p.P52S|PPM1K_uc003hrn.2_Missense_Mutation_p.P52S	NM_152542	NP_689755	Q8N3J5	PPM1K_HUMAN	protein phosphatase 1K (PP2C domain containing)	52					protein dephosphorylation	mitochondrial matrix|protein serine/threonine phosphatase complex	metal ion binding|protein serine/threonine phosphatase activity				0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000192)		CTACCATCTGGGTCAAACCGA	0.557													30	35					0	0	1	0	0		A	89199582	A	A	89199582	3	1	213	1	0	0	0	0	1	0	0	0	12365	1232	43	4	988	4	PPM1K	4	89199582	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	164992	89199582	101954694	228	105665											
MMRN1	22915	broad.mit.edu	37	chr4	90857091	90857091	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctaaaagagactttaagtActattaaggataatagtgag	17	11	8	5	0	0	2	0	1	0	1	0	4	0	3	1	1	1	1	1	1	8	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:90857091A>G	uc003hst.2	+	6	2331	c.2260A>G	c.(2260-2262)ACT>GCT	p.T754A	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.T496A	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	754					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GACTTTAAGTACTATTAAGGA	0.323													16	38					0	0	1	0	0		G	90857091	G	G	90857091	3	3	213	1	0	0	0	0	1	0	0	0	9688	391	14	3	2282	3	MMRN1	4	90857091	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1657509	90857091	100297185	229	105666											
GRID2	2895	broad.mit.edu	37	chr4	94376916	94376916	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcagtgggggtactacttcGaagggctgaaaagacagtgg	11	8	15	7	1	1	2	1	1	0	1	2	3	1	2	0	4	2	2	0	4	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:94376916G>A	uc011cdt.1	+	11	1907	c.1649G>A	c.(1648-1650)CGA>CAA	p.R550Q	GRID2_uc011cdu.1_Missense_Mutation_p.R455Q	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	550	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	GTACTACTTCGAAGGGCTGAA	0.483													35	74					0	0	1	0	0		A	94376916	A	A	94376916	3	1	213	1	0	0	0	0	1	0	0	0	6788	1058	37	1	1691	1	GRID2	4	94376916	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3519825	94376916	96777360	230	105667											
BMPR1B	658	broad.mit.edu	37	chr4	96052573	96052573	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcaaggcaaaccagcaattgCccatcgagatctgaaaagta	16	7	8	10	1	2	2	1	1	1	1	3	3	2	2	2	1	3	3	2	1	6	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:96052573C>T	uc003htm.3	+	10	1260	c.986C>T	c.(985-987)GCC>GTC	p.A329V	BMPR1B_uc010ilb.2_Missense_Mutation_p.A329V|BMPR1B_uc003htn.3_Missense_Mutation_p.A329V	NM_001203	NP_001194	O00238	BMR1B_HUMAN	bone morphogenetic protein receptor, type IB	329	Cytoplasmic (Potential).|Protein kinase.				BMP signaling pathway|cartilage condensation|eye development|limb morphogenesis|ovarian cumulus expansion|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	receptor complex	ATP binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|SMAD binding|transforming growth factor beta receptor activity			lung(4)|skin(2)|stomach(1)|breast(1)	8		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.51e-07)		CCAGCAATTGCCCATCGAGAT	0.393													29	61					0	0	1	0	0		T	96052573	T	T	96052573	3	4	213	1	0	0	0	0	1	0	0	0	1471	739	26	2	1012	2	BMPR1B	4	96052573	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1675657	96052573	95101703	231	105668											
METAP1	23173	broad.mit.edu	37	chr4	99960602	99960602	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaagatatagaagggatgCgacttgtatgtagggtaaga	14	10	14	3	1	0	4	0	1	0	3	0	6	0	5	0	2	1	3	0	2	7	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:99960602C>T	uc003huf.3	+	5	535	c.418C>T	c.(418-420)CGA>TGA	p.R140*	METAP1_uc003hug.2_RNA	NM_015143	NP_055958	P53582	AMPM1_HUMAN	methionyl aminopeptidase 1	140					N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis|regulation of translation	cytoplasm	aminopeptidase activity|metal ion binding|metalloexopeptidase activity|protein binding				0				OV - Ovarian serous cystadenocarcinoma(123;3.12e-07)		AGAAGGGATGCGACTTGTATG	0.363													15	49					0	0	1	0	0		T	99960602	T	T	99960602	4	4	213	1	0	0	0	0	0	1	0	0	9504	760	27	1	436	1	METAP1	4	99960602	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3908029	99960602	91193674	232	105669											
CENPE	1062	broad.mit.edu	37	chr4	104065724	104065724	+	Missense_Mutation	SNP	T	C	C	0	1	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	cattttctcctgagtctcatTgacagctgtcatcttaagaa	10	15	6	10	0	4	3	2	2	3	1	6	3	4	3	1	0	1	1	1	0	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:104065724T>C	uc003hxb.1	-	33	4999	c.4909A>G	c.(4909-4911)AAT>GAT	p.N1637D	CENPE_uc003hxc.1_Missense_Mutation_p.N1612D	NM_001813	NP_001804	Q02224	CENPE_HUMAN	centromere protein E	1637	Potential.				blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity			ovary(5)|breast(4)	9				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)		TGAGTCTCATTGACAGCTGTC	0.328													13	31					0	0	1	0	0		C	104065724	C	C	104065724	3	2	213	1	0	0	0	0	1	0	0	0	3233	1812	63	3	3264	3	CENPE	4	104065724	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4105122	104065724	87088552	233	105670											
SEC24B	10427	broad.mit.edu	37	chr4	110384496	110384496	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtcaactgtttctaatgcCgcgtatcctagtgtttcata	9	16	7	9	2	3	0	2	0	1	0	4	0	4	0	2	0	2	3	2	0	5	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:110384496C>T	uc003hzk.2	+	2	628	c.573C>T	c.(571-573)GCC>GCT	p.A191A	SEC24B_uc003hzl.2_Silent_p.A191A|SEC24B_uc011cfp.1_Silent_p.A222A|SEC24B_uc011cfq.1_Silent_p.A191A|SEC24B_uc011cfr.1_Silent_p.A191A	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a	191					COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		TTTCTAATGCCGCGTATCCTA	0.453													65	149					0	0	1	0	0		T	110384496	T	T	110384496	2	4	213	1	0	0	0	0	0	0	0	1	14020	639	23	1		1	SEC24B	4	110384496	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6318772	110384496	80769780	234	105671											
CFI	3426	broad.mit.edu	37	chr4	110687927	110687927	+	Frame_Shift_Del	DEL	T	-	-																															tcgcaggagaggtgagtataTttttttgctaagcacttttt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:110687927delT	uc003hzr.3	-	2	319	c.111delA	c.(109-111)AAAfs	p.K37fs	CFI_uc011cft.1_Frame_Shift_Del_p.K37fs|CFI_uc003hzs.3_Frame_Shift_Del_p.K37fs	NM_000204	NP_000195	P05156	CFAI_HUMAN	complement factor I preproprotein	37					complement activation, classical pathway|innate immune response|proteolysis	extracellular space|membrane	scavenger receptor activity|serine-type endopeptidase activity				0		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000331)		GGTGAGTATATTTTTTTGCTA	0.398													19	41	---	---	---	---						.	-	110687927	-	-	110687927	7	5	213	1	0	1	0	1	0	0	0	0	3292	1490	52	0	1688	0	CFI	4	110687927	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	303431	110687927	80466349	235	105672											
PRDM5	11107	broad.mit.edu	37	chr4	121738028	121738028	+	Frame_Shift_Del	DEL	A	-	-																															gaattgcaaacagagcactgAaaacttcgcgaagactcctt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:121738028delA	uc003idn.2	-	6	952	c.702delT	c.(700-702)TTTfs	p.F234fs	PRDM5_uc003ido.2_Intron|PRDM5_uc010ine.2_Intron|PRDM5_uc010inf.2_Intron	NM_018699	NP_061169	Q9NQX1	PRDM5_HUMAN	PR domain containing 5	234	C2H2-type 3; atypical.				histone deacetylation|histone H3-K9 methylation|mitotic cell cycle|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	repressing transcription factor binding|sequence-specific DNA binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2						CAGAGCACTGAAAACTTCGCG	0.383													59	131	---	---	---	---						.	-	121738028	-	-	121738028	7	5	213	1	0	1	0	1	0	0	0	0	12482	243	9	0	1234	0	PRDM5	4	121738028	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	11050101	121738028	69416248	236	105673											
FAT4	79633	broad.mit.edu	37	chr4	126370871	126370871	+	Silent	SNP	T	C	C	0	1	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	gtatttgcaacagatcctgaTgagggatcaaatggacaagt	14	10	11	6	0	1	3	1	2	0	1	2	5	2	5	1	2	2	2	1	2	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:126370871T>C	uc003ifj.3	+	9	8700	c.8700T>C	c.(8698-8700)GAT>GAC	p.D2900D	FAT4_uc011cgp.1_Silent_p.D1198D|FAT4_uc003ifi.1_Silent_p.D378D	NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	2900	Cadherin 28.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CAGATCCTGATGAGGGATCAA	0.358													33	79					0	0	1	0	0		C	126370871	C	C	126370871	2	2	213	1	0	0	0	0	0	0	0	1	5706	1461	51	3		3	FAT4	4	126370871	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4632843	126370871	64783405	237	105674											
C4orf49	84709	broad.mit.edu	37	chr4	140188117	140188117	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgggactttcttcagcatctAccacctcagcttccactata	9	13	5	14	0	4	0	2	0	2	0	5	1	5	1	3	1	3	2	3	1	3	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:140188117A>G	uc003ihr.1	-	4	539	c.359T>C	c.(358-360)GTA>GCA	p.V120A		NM_032623	NP_116012	Q8TDB4	CD049_HUMAN	ovary-specific acidic protein	120						integral to membrane				central_nervous_system(1)|skin(1)	2						TTCAGCATCTACCACCTCAGC	0.478													60	124					0	0	1	0	0		G	140188117	G	G	140188117	3	3	213	1	0	0	0	0	1	0	0	0	2278	391	14	3	367	3	C4orf49	4	140188117	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	13817246	140188117	50966159	238	105675											
SH3D19	152503	broad.mit.edu	37	chr4	152069209	152069209	+	Silent	SNP	A	T	T	1	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	tttttctgaagatccatgtcAgaagaggatcgattaaaagg	14	12	10	5	1	2	4	1	1	1	3	4	6	3	5	1	2	0	0	1	2	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:152069209A>T	uc010ipl.1	-	11	2197	c.1107T>A	c.(1105-1107)TCT>TCA	p.S369S	SH3D19_uc003imb.2_Silent_p.S147S|SH3D19_uc003imc.2_Silent_p.S333S|SH3D19_uc003ime.2_Silent_p.S369S|SH3D19_uc010ipm.2_Silent_p.S369S	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	369					cellular membrane organization|positive regulation of membrane protein ectodomain proteolysis|post-Golgi vesicle-mediated transport	cytosol|Golgi apparatus|nucleus|plasma membrane	proline-rich region binding			ovary(1)|skin(1)	2	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				GATCCATGTCAGAAGAGGATC	0.453													28	55					0	0	1	0	0		T	152069209	T	T	152069209	2	4	213	1	0	0	0	0	0	0	0	1	14274	175	7	5		5	SH3D19	4	152069209	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	11881092	152069209	39085067	239	105676											
FSTL5	56884	broad.mit.edu	37	chr4	162307519	162307519	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aacgcacttatagtccttcaAgttaattgtcttgatgtatg	11	16	7	7	1	2	1	1	1	1	0	3	1	3	1	1	0	1	3	1	0	6	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:162307519A>G	uc003iqh.2	-	16	2360	c.1924T>C	c.(1924-1926)TTG>CTG	p.L642L	FSTL5_uc003iqi.2_Silent_p.L641L|FSTL5_uc010iqv.2_Silent_p.L632L|uc010iqu.1_RNA	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	642						extracellular region	calcium ion binding			ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|skin(1)	8	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.179)		TAGTCCTTCAAGTTAATTGTC	0.393													16	28					0	0	1	0	0		G	162307519	G	G	162307519	2	3	213	1	0	0	0	0	0	0	0	1	6094	69	3	3		3	FSTL5	4	162307519	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	10238310	162307519	28846757	240	105677											
TRIM61	391712	broad.mit.edu	37	chr4	165891048	165891048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acataatgatgcaggagagaCagaagttatgcccacagctg	15	7	11	8	0	0	3	0	1	0	2	0	5	0	4	1	1	3	3	1	1	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:165891048C>T	uc003iqw.2	-	3	718	c.107G>A	c.(106-108)TGT>TAT	p.C36Y		NM_001012414	NP_001012414	Q5EBN2	TRI61_HUMAN	tripartite motif-containing 61	36	RING-type.					intracellular	zinc ion binding			skin(1)	1	all_hematologic(180;0.221)	Prostate(90;0.109)		GBM - Glioblastoma multiforme(119;0.155)		GCAGGAGAGACAGAAGTTATG	0.493													14	44					0	0	1	0	0		T	165891048	T	T	165891048	3	4	213	1	0	0	0	0	1	0	0	0	16562	478	17	4	530	4	TRIM61	4	165891048	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3583529	165891048	25263228	241	105678											
KLHL2	11275	broad.mit.edu	37	chr4	166238988	166238988	+	Silent	SNP	A	G	G	1	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	ttttttaaaggagtttgtgcAgttaatggtctgttatatgt	9	20	10	2	0	1	0	0	0	1	0	1	1	1	1	0	2	1	4	0	2	5	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:166238988A>G	uc003irb.2	+	14	1879	c.1620A>G	c.(1618-1620)GCA>GCG	p.A540A	KLHL2_uc011cjm.1_Silent_p.A544A|KLHL2_uc003irc.2_Silent_p.A452A|KLHL2_uc010ira.2_Silent_p.A193A	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	540	Kelch 5.				intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		GAGTTTGTGCAGTTAATGGTC	0.348													20	56					0	0	1	0	0		G	166238988	G	G	166238988	2	3	213	1	0	0	0	0	0	0	0	1	8390	175	7	3		3	KLHL2	4	166238988	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	347940	166238988	24915288	242	105679											
KIAA1430	57587	broad.mit.edu	37	chr4	186112044	186112044	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcctgttgtaacatcacacaAtttttttgatcttgaagagg	11	16	7	7	0	2	3	1	2	1	1	3	3	3	3	1	1	1	2	1	1	3	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:186112044A>T	uc003ixf.3	-	2	454	c.307T>A	c.(307-309)TTG>ATG	p.L103M	KIAA1430_uc003ixg.2_Missense_Mutation_p.L103M	NM_020827	NP_065878	Q9P2B7	K1430_HUMAN	hypothetical protein LOC57587	103											0		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;9.44e-26)|Epithelial(43;2.64e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.66e-11)|Colorectal(24;6.03e-05)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000331)|COAD - Colon adenocarcinoma(29;0.000427)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00924)|READ - Rectum adenocarcinoma(43;0.165)		ACATCACACAATTTTTTTGAT	0.368													6	17					0	0	1	0	0		T	186112044	T	T	186112044	3	4	213	1	0	0	0	0	1	0	0	0	8248	98	4	5	1307	5	KIAA1430	4	186112044	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	19873056	186112044	5042232	243	105680											
MTNR1A	4543	broad.mit.edu	37	chr4	187454886	187454886	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattattgttggtcatcagtGgagacggtttccatttaacc	9	15	9	8	1	2	1	2	0	0	1	3	2	3	1	2	3	1	2	2	3	2	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:187454886G>T	uc003izd.1	-	2	1028	c.1010C>A	c.(1009-1011)CCA>CAA	p.P337Q		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	337	Cytoplasmic (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	GGTCATCAGTGGAGACGGTTT	0.493													43	66					3.38236e-24	3.83845e-24	1	1	0		T	187454886	T	T	187454886	3	4	213	1	0	0	0	0	1	0	0	0	9969	1348	47	5	46	5	MTNR1A	4	187454886	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1342842	187454886	3699390	244	105681											
FAT1	2195	broad.mit.edu	37	chr4	187534385	187534385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcgttcacatcttctagcGtgagcacaatactggcttgg	9	13	9	10	2	3	1	1	1	2	0	4	1	3	1	0	2	3	3	0	2	4	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr4:187534385G>A	uc003izf.2	-	13	9529	c.9341C>T	c.(9340-9342)ACG>ATG	p.T3114M		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	3114	Extracellular (Potential).|Cadherin 28.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						ATCTTCTAGCGTGAGCACAAT	0.522										HNSCC(5;0.00058)			4	76					0	0	1	0	0		A	187534385	A	A	187534385	3	1	213	1	0	0	0	0	1	0	0	0	5703	1145	40	1	4485	1	FAT1	4	187534385	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	79499	187534385	3619891	245	105682											
TERT	7015	broad.mit.edu	37	chr5	1255409	1255409	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctgcacatacctgcgttCttggctttcaggatggagta	8	12	10	11	1	2	0	1	0	1	0	2	2	2	2	2	3	3	4	2	3	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:1255409C>A	uc003jcb.1	-	14	3208	c.3150G>T	c.(3148-3150)AAG>AAT	p.K1050N	TERT_uc003jbz.1_Missense_Mutation_p.K246N|TERT_uc003jca.1_Missense_Mutation_p.K1038N|TERT_uc003jcc.1_Missense_Mutation_p.K987N|TERT_uc003jcd.1_RNA|TERT_uc003jce.1_RNA	NM_198253	NP_937983	O14746	TERT_HUMAN	telomerase reverse transcriptase isoform 1	1050	CTE.				anti-apoptosis|DNA strand elongation|replicative senescence|telomere formation via telomerase|telomere maintenance via telomerase	cytoplasm|nucleolus|PML body|telomerase holoenzyme complex	protein homodimerization activity|telomeric DNA binding|telomeric RNA binding|telomeric template RNA reverse transcriptase activity			lung(7)|ovary(2)|central_nervous_system(2)|skin(1)	12	all_cancers(3;3.17e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.87e-10)		Epithelial(17;0.00105)|all cancers(22;0.00178)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TACCTGCGTTCTTGGCTTTCA	0.542									TERT_Mutation-Associated_Haematological_Disorders|Congenital_Dyskeratosis|Pulmonary_Fibrosis_Idiopathic				5	21					0.000602214	0.000615077	1	1	0		A	1255409	A	A	1255409	3	1	213	1	0	0	0	0	1	0	0	0	15789	912	32	5	260	5	TERT	5	1255409	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08		1255409	179659851	246	105683											
SLC6A3	6531	broad.mit.edu	37	chr5	1422074	1422074	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggctgtgagctgccaccGcggaggccccaggtcgtcga	6	5	16	14	4	0	1	0	1	0	0	2	3	0	2	4	4	2	3	4	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:1422074G>A	uc003jck.2	-	5	830	c.709C>T	c.(709-711)CGG>TGG	p.R237W		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	237	Extracellular (Potential).				cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	AGCTGCCACCGCGGAGGCCCC	0.657													42	61					0	0	1	0	0		A	1422074	A	A	1422074	3	1	213	1	0	0	0	0	1	0	0	0	14710	1086	38	1	1197	1	SLC6A3	5	1422074	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	166665	1422074	179493186	247	105684											
KIAA0947	23379	broad.mit.edu	37	chr5	5466528	5466528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccacaattacattcacGccctctgcagggtgtatgtg	9	11	10	11	1	2	0	1	0	1	0	2	1	2	1	2	2	2	2	2	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:5466528G>A	uc003jdm.3	+	14	6196	c.5974G>A	c.(5974-5976)GCC>ACC	p.A1992T		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1992										ovary(1)|central_nervous_system(1)	2						TTACATTCACGCCCTCTGCAG	0.398													9	32					0	0	1	0	0		A	5466528	A	A	5466528	3	1	213	1	0	0	0	0	1	0	0	0	8218	1087	38	1	6028	1	KIAA0947	5	5466528	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4044454	5466528	175448732	248	105685											
DNAH5	1767	broad.mit.edu	37	chr5	13919426	13919426	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcgtggcccaacgtcatcCgcttccttcagcagctgatt	6	11	9	15	3	2	1	2	1	0	0	5	1	4	1	3	1	3	4	3	1	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:13919426C>T	uc003jfd.2	-	7	876	c.834G>A	c.(832-834)GCG>GCA	p.A278A	DNAH5_uc003jfe.1_RNA	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	278	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					CAACGTCATCCGCTTCCTTCA	0.493									Kartagener_syndrome				50	119					0	0	1	0	0		T	13919426	T	T	13919426	2	4	213	1	0	0	0	0	0	0	0	1	4610	639	23	1		1	DNAH5	5	13919426	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8452898	13919426	166995834	249	105686											
FBXL7	23194	broad.mit.edu	37	chr5	15928475	15928475	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgcaggcggctcacagacCgagggctgtacaccatcgcc	8	5	13	15	3	1	1	1	0	0	1	2	2	1	1	3	3	2	5	3	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:15928475C>T	uc003jfn.1	+	3	1085	c.604C>T	c.(604-606)CGA>TGA	p.R202*		NM_012304	NP_036436	Q9UJT9	FBXL7_HUMAN	F-box and leucine-rich repeat protein 7	202	LRR 2.				ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(2)|lung(1)	3						GCTCACAGACCGAGGGCTGTA	0.597													8	24					0	0	1	0	0		T	15928475	T	T	15928475	4	4	213	1	0	0	0	0	0	1	0	0	5738	644	23	1	614	1	FBXL7	5	15928475	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2009049	15928475	164986785	250	105687											
RNASEN	29102	broad.mit.edu	37	chr5	31407020	31407020	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaacagccacagtgtaggttCgggcatgggatgggcccact	10	7	14	10	1	0	0	0	0	0	0	1	1	0	1	2	4	2	3	2	4	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:31407020C>T	uc003jhg.2	-	33	4246	c.3887G>A	c.(3886-3888)CGA>CAA	p.R1296Q	RNASEN_uc003jhh.2_Missense_Mutation_p.R1259Q	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	1296	Necessary for interaction with DGCR8 and pri-miRNA processing activity.|DRBM.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						AGTGTAGGTTCGGGCATGGGA	0.418													14	38					0	0	1	0	0		T	31407020	T	T	31407020	3	4	213	1	0	0	0	0	1	0	0	0	13442	884	31	1	249	1	RNASEN	5	31407020	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	15478545	31407020	149508240	251	105688											
RNASEN	29102	broad.mit.edu	37	chr5	31526886	31526886	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcacttggaggttcatattGatattgcacaggaggctgct	9	12	13	7	0	1	1	1	1	0	0	1	3	1	3	0	5	2	5	0	5	2	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:31526886G>A	uc003jhg.2	-	4	513	c.154C>T	c.(154-156)CAA>TAA	p.Q52*	RNASEN_uc003jhh.2_Nonsense_Mutation_p.Q52*|RNASEN_uc003jhi.2_Nonsense_Mutation_p.Q52*|RNASEN_uc010iui.1_Nonsense_Mutation_p.Q43*	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	52	Pro-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						GGTTCATATTGATATTGCACA	0.557													7	19					0	0	1	0	0		A	31526886	A	A	31526886	4	1	213	1	0	0	0	0	0	1	0	0	13442	1299	45	4	4098	4	RNASEN	5	31526886	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	119866	31526886	149388374	252	105689											
C5orf42	65250	broad.mit.edu	37	chr5	37164384	37164384	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatacataccaaaaggaaCgtcgaagtcatccaaaggat	18	6	7	10	2	1	0	1	0	0	0	3	3	2	2	2	2	3	0	2	2	7	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:37164384C>T	uc011cpa.1	-	37	7810	c.7579G>A	c.(7579-7581)GTT>ATT	p.V2527I	C5orf42_uc011coy.1_Missense_Mutation_p.V1027I|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.V1602I	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2527										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			CCAAAAGGAACGTCGAAGTCA	0.308													11	30					0	0	1	0	0		T	37164384	T	T	37164384	3	4	213	1	0	0	0	0	1	0	0	0	2304	536	19	1	2078	1	C5orf42	5	37164384	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5637498	37164384	143750876	253	105690											
FYB	2533	broad.mit.edu	37	chr5	39202605	39202605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggagtaggcccagatttcGggcctagtggctttaagtca	9	10	14	8	1	1	1	1	0	0	1	2	3	1	2	2	4	0	2	2	4	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:39202605G>A	uc003jls.2	-	1	525	c.458C>T	c.(457-459)CCG>CTG	p.P153L	FYB_uc003jlt.2_Missense_Mutation_p.P153L|FYB_uc003jlu.2_Missense_Mutation_p.P153L|FYB_uc011cpl.1_Missense_Mutation_p.P163L	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	153					cell junction assembly|immune response|intracellular protein kinase cascade|NLS-bearing substrate import into nucleus|protein phosphorylation|T cell receptor signaling pathway	cytosol|nucleus	protein binding			ovary(2)	2	all_lung(31;0.000343)		Epithelial(62;0.235)			CCCAGATTTCGGGCCTAGTGG	0.453													37	60					0	0	1	0	0		A	39202605	A	A	39202605	3	1	213	1	0	0	0	0	1	0	0	0	6138	1116	39	1	2103	1	FYB	5	39202605	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2038221	39202605	141712655	254	105691											
FGF10	2255	broad.mit.edu	37	chr5	44388550	44388550	+	Missense_Mutation	SNP	A	C	C	1	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	gaaagagaatagctttctccAgcggacatctccttgaaggt	12	10	10	9	1	2	2	0	1	2	1	4	5	2	3	2	2	2	1	2	2	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:44388550A>C	uc003jog.1	-	1	235	c.235T>G	c.(235-237)TGG>GGG	p.W79G		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	79					actin cytoskeleton reorganization|activation of MAPK activity|bud outgrowth involved in lung branching|ERK1 and ERK2 cascade|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|insulin receptor signaling pathway|lacrimal gland development|lung saccule development|mesonephros development|negative regulation of cell cycle arrest|positive regulation of ATPase activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of DNA repair|positive regulation of DNA replication|positive regulation of epithelial cell migration|positive regulation of epithelial cell proliferation involved in wound healing|positive regulation of ERK1 and ERK2 cascade|positive regulation of hair follicle cell proliferation|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of lymphocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of Ras protein signal transduction|positive regulation of transcription, DNA-dependent|positive regulation of urothelial cell proliferation|protein localization at cell surface|radial glial cell differentiation|regulation of saliva secretion|response to protein stimulus|secretion by lung epithelial cell involved in lung growth|tear secretion|thymus development|urothelial cell proliferation	cell surface|extracellular space|nucleus|plasma membrane	chemoattractant activity|growth factor activity|heparin binding|type 2 fibroblast growth factor receptor binding			lung(3)	3	Lung NSC(6;1.12e-06)					AGCTTTCTCCAGCGGACATCT	0.517													17	42					0	0	1	0	0		C	44388550	C	C	44388550	3	2	213	1	0	0	0	0	1	0	0	0	5853	188	7	5	403	5	FGF10	5	44388550	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	5185945	44388550	136526710	255	105692											
PLK2	10769	broad.mit.edu	37	chr5	57753096	57753096	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tactagcaattaagtgcttgGcaggagccagcaatgaggac	13	8	12	8	0	0	1	0	1	0	0	0	3	0	3	1	3	5	4	1	3	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:57753096G>A	uc003jrn.2	-	7	1047	c.920C>T	c.(919-921)GCC>GTC	p.A307V		NM_006622	NP_006613	Q9NYY3	PLK2_HUMAN	polo-like kinase 2	307	Protein kinase.				positive regulation of I-kappaB kinase/NF-kappaB cascade		ATP binding|protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4		all_cancers(5;1.76e-12)|all_epithelial(5;2.09e-13)|all_lung(5;6.64e-05)|Lung NSC(5;0.000127)|Prostate(74;0.055)|Breast(144;0.0602)|Ovarian(174;0.182)		OV - Ovarian serous cystadenocarcinoma(10;7.03e-37)		TAAGTGCTTGGCAGGAGCCAG	0.438													14	23					0	0	1	0	0		A	57753096	A	A	57753096	3	1	213	1	0	0	0	0	1	0	0	0	12115	1203	42	2	1169	2	PLK2	5	57753096	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	13364546	57753096	123162164	256	105693											
ADAMTS6	11174	broad.mit.edu	37	chr5	64466574	64466574	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cactgcacagttctcatctgCtgtccaaggccacactgagc	9	9	8	15	0	2	1	1	1	2	0	4	1	3	1	2	1	3	3	2	1	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:64466574C>T	uc003jtp.2	-	24	3928	c.3114G>A	c.(3112-3114)CAG>CAA	p.Q1038Q	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1038	TSP type-1 5.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Lung NSC(167;2.44e-06)|Prostate(74;0.014)|Ovarian(174;0.0549)|Breast(144;0.111)|Colorectal(97;0.235)		Lung(70;0.00942)		TTCTCATCTGCTGTCCAAGGC	0.413													22	40					0	0	1	0	0		T	64466574	T	T	64466574	2	4	213	1	0	0	0	0	0	0	0	1	270	796	28	2		2	ADAMTS6	5	64466574	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6713478	64466574	116448686	257	105694											
BDP1	55814	broad.mit.edu	37	chr5	70812075	70812075	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgatattaccaaaagatgaaActgaaaagaaagtcttaact	20	9	6	6	1	1	4	0	2	1	2	1	5	1	4	1	0	3	0	1	0	9	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:70812075A>T	uc003kbp.1	+	21	5100	c.4837A>T	c.(4837-4839)ACT>TCT	p.T1613S	BDP1_uc003kbo.2_Missense_Mutation_p.T1613S	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1613					regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		AAAAGATGAAACTGAAAAGAA	0.328													4	18					0	0	1	0	0		T	70812075	T	T	70812075	3	4	213	1	0	0	0	0	1	0	0	0	1396	43	2	5	4919	5	BDP1	5	70812075	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	6345501	70812075	110103185	258	105695											
PTCD2	79810	broad.mit.edu	37	chr5	71638851	71638851	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aatccagaaagcatagcctgCattaatttaaatgtaagtga	17	11	7	6	0	0	2	0	1	0	1	1	2	1	2	2	0	3	3	2	0	7	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:71638851C>T	uc003kcb.2	+	8	826	c.816C>T	c.(814-816)TGC>TGT	p.C272C	PTCD2_uc011csf.1_Silent_p.C82C|PTCD2_uc003kcc.2_Silent_p.C120C|PTCD2_uc011csg.1_Silent_p.C100C|PTCD2_uc011csh.1_Silent_p.C163C|PTCD2_uc003kcd.2_RNA	NM_024754	NP_079030	Q8WV60	PTCD2_HUMAN	pentatricopeptide repeat domain 2	272											0		Lung NSC(167;0.00237)|Ovarian(174;0.0175)|Prostate(461;0.141)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;1.73e-53)		GCATAGCCTGCATTAATTTAA	0.269													10	28					0	0	1	0	0		T	71638851	T	T	71638851	2	4	213	1	0	0	0	0	0	0	0	1	12750	718	25	2		2	PTCD2	5	71638851	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	826776	71638851	109276409	259	105696											
PAPD4	167153	broad.mit.edu	37	chr5	78964728	78964728	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgacaggagtcttttagtcCtgctatacagctgcaccttg	8	14	9	10	0	1	1	0	1	1	0	2	2	2	2	2	1	4	3	2	1	3	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:78964728C>T	uc010jae.1	+	13	1503	c.1085C>T	c.(1084-1086)CCT>CTT	p.P362L	PAPD4_uc003kgb.2_Missense_Mutation_p.P362L|PAPD4_uc010jaf.1_Missense_Mutation_p.P362L|PAPD4_uc003kga.2_Missense_Mutation_p.P358L|PAPD4_uc003kfz.2_Missense_Mutation_p.P319L	NM_001114393	NP_001107865	Q6PIY7	GLD2_HUMAN	PAP associated domain containing 4	362					histone mRNA catabolic process|mRNA processing|RNA polyadenylation	cytoplasm	ATP binding|metal ion binding|polynucleotide adenylyltransferase activity			ovary(1)	1		Lung NSC(167;0.00293)|all_lung(232;0.00323)|Ovarian(174;0.0261)		OV - Ovarian serous cystadenocarcinoma(54;8.61e-47)|Epithelial(54;1.32e-41)|all cancers(79;2.45e-36)		TCTTTTAGTCCTGCTATACAG	0.393													52	93					0	0	1	0	0		T	78964728	T	T	78964728	3	4	213	1	0	0	0	0	1	0	0	0	11443	681	24	4	1127	4	PAPD4	5	78964728	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7325877	78964728	101950532	260	105697											
CMYA5	202333	broad.mit.edu	37	chr5	79031946	79031946	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactcaggtctgttagtcCaactgagaagaaagataatt	17	10	8	6	0	2	3	1	1	1	3	3	4	3	3	1	1	2	1	1	1	7	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:79031946C>T	uc003kgc.2	+	2	7430	c.7358C>T	c.(7357-7359)CCA>CTA	p.P2453L		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	2453						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TCTGTTAGTCCAACTGAGAAG	0.368													17	27					0	0	1	0	0		T	79031946	T	T	79031946	3	4	213	1	0	0	0	0	1	0	0	0	3593	594	21	4	7364	4	CMYA5	5	79031946	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	67218	79031946	101883314	261	105698											
FAM151B	167555	broad.mit.edu	37	chr5	79815642	79815642	+	Frame_Shift_Del	DEL	T	-	-																															aagtaatagatgcaaaaccaTttttagacaccgtgatatcc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:79815642delT	uc003kgv.1	+	4	591	c.448delT	c.(448-450)TTTfs	p.F150fs	FAM151B_uc010jal.1_RNA	NM_205548	NP_991111	Q6UXP7	F151B_HUMAN	hypothetical protein LOC167555	150											0		Lung NSC(167;0.0427)|all_lung(232;0.0464)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;8.21e-47)|Epithelial(54;8.3e-42)|all cancers(79;1.97e-36)		TGCAAAACCATTTTTAGACAC	0.408													34	54	---	---	---	---						.	-	79815642	-	-	79815642	7	5	213	1	0	1	0	1	0	0	0	0	5470	1493	52	0	462	0	FAM151B	5	79815642	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	783696	79815642	101099618	262	105699											
LYSMD3	116068	broad.mit.edu	37	chr5	89814637	89814638	+	Frame_Shift_Del	DEL	TA	-	-																															tttgattatgagctaattgcTatgtttcctgttgagcagca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:89814637_89814638delTA	uc003kjr.2	-	3	1067_1068	c.919_920delTA	c.(919-921)TAGfs	p.*307fs	LYSMD3_uc010jaz.1_Frame_Shift_Del_p.H148fs|LYSMD3_uc003kjs.1_3'UTR	NM_198273	NP_938014	Q7Z3D4	LYSM3_HUMAN	LysM, putative peptidoglycan-binding, domain	307					cell wall macromolecule catabolic process	integral to membrane					0		all_cancers(142;5.03e-09)|all_epithelial(76;1.23e-11)|Lung NSC(167;2.46e-05)|all_lung(232;3.25e-05)|Ovarian(174;0.00832)|Colorectal(57;0.122)|Breast(839;0.198)		OV - Ovarian serous cystadenocarcinoma(54;1.94e-31)|Epithelial(54;5.22e-26)|all cancers(79;2.42e-22)		AGCTAATTGCTATGTTTCCTGT	0.366													32	62	---	---	---	---						.	-	89814638	-	-	89814637	7	5	213	1	0	1	0	1	0	0	0	0	9144	1535	53	0	4	0	LYSMD3	5	89814637	Frame_Shift_Del	DEL	TA	TCGA-HU-A4H3-01A-21D-A25D-08	9998995	89814637	91100623	263	105700											
GPR98	84059	broad.mit.edu	37	chr5	89949385	89949385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggatgctttgtactttaccGgactagagggtgcatttggg	7	13	14	7	2	0	1	0	0	0	1	0	3	0	3	1	4	4	3	1	4	3	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:89949385G>A	uc003kju.2	+	20	4090	c.3994G>A	c.(3994-3996)GGA>AGA	p.G1332R	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1332	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		GTACTTTACCGGACTAGAGGG	0.443													9	13					0	0	1	0	0		A	89949385	A	A	89949385	3	1	213	1	0	0	0	0	1	0	0	0	6737	1117	39	1	4072	1	GPR98	5	89949385	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	134748	89949385	90965875	264	105701											
WDR36	134430	broad.mit.edu	37	chr5	110446959	110446959	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagagttttctggacaccaAggccaaataaatgacatggt	15	9	10	7	0	1	2	0	1	1	1	1	4	1	3	2	3	0	1	2	3	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:110446959A>C	uc003kpd.2	+	15	1983	c.1866A>C	c.(1864-1866)CAA>CAC	p.Q622H	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	622	WD 8.				response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		CTGGACACCAAGGCCAAATAA	0.373													49	96					0	0	1	0	0		C	110446959	C	C	110446959	3	2	213	1	0	0	0	0	1	0	0	0	17316	69	3	5	1924	5	WDR36	5	110446959	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	20497574	110446959	70468301	265	105702											
APC	324	broad.mit.edu	37	chr5	112176209	112176209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccgggggatgatatgccaCgggtgtattgtgttgaaggg	8	10	17	6	2	0	2	0	2	0	0	0	3	0	3	2	4	1	2	2	4	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:112176209C>T	uc010jby.2	+	16	5298	c.4918C>T	c.(4918-4920)CGG>TGG	p.R1640W	APC_uc011cvt.1_Missense_Mutation_p.R1622W|APC_uc003kpz.3_Missense_Mutation_p.R1640W|APC_uc003kpy.3_Missense_Mutation_p.R1640W|APC_uc010jbz.2_Missense_Mutation_p.R1357W|APC_uc010jca.2_Missense_Mutation_p.R940W	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1640	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGATATGCCACGGGTGTATTG	0.443		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			22	72					0	0	1	0	0		T	112176209	T	T	112176209	3	4	213	1	0	0	0	0	1	0	0	0	763	527	19	1	4976	1	APC	5	112176209	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1729250	112176209	68739051	266	105703											
SEMA6A	57556	broad.mit.edu	37	chr5	115782634	115782634	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtggcttctcgtgagcgagTtcgtggggtagctcctctta	4	13	15	9	3	2	1	0	1	2	0	5	2	3	1	1	4	2	4	1	4	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:115782634T>A	uc010jck.2	-	19	3477	c.2768A>T	c.(2767-2769)AAC>ATC	p.N923I	SEMA6A_uc003krx.3_Missense_Mutation_p.N940I|SEMA6A_uc011cwe.1_Missense_Mutation_p.N302I|SEMA6A_uc003krv.3_Missense_Mutation_p.N350I|SEMA6A_uc003krw.3_Missense_Mutation_p.N400I|SEMA6A_uc010jcj.2_Missense_Mutation_p.N467I	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	923	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)		CGTGAGCGAGTTCGTGGGGTA	0.562													15	51					0	0	1	0	0		A	115782634	A	A	115782634	3	1	213	1	0	0	0	0	1	0	0	0	14064	1725	60	5	328	5	SEMA6A	5	115782634	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3606425	115782634	65132626	267	105704											
ALDH7A1	501	broad.mit.edu	37	chr5	125912806	125912806	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacagatcatggcgatggcGttgttccaaccatacactgc	10	9	9	13	2	1	1	1	0	0	1	2	2	2	1	3	2	3	2	3	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:125912806G>A	uc003ktx.2	-	6	807	c.615C>T	c.(613-615)AAC>AAT	p.N205N	ALDH7A1_uc003kty.2_RNA|ALDH7A1_uc011cxa.1_Silent_p.N232N|ALDH7A1_uc003ktz.2_Silent_p.N232N	NM_001182	NP_001173	P49419	AL7A1_HUMAN	aldehyde dehydrogenase 7 family, member A1	205					cellular aldehyde metabolic process|lysine catabolic process|sensory perception of sound	cytosol|mitochondrial matrix|nucleus	aldehyde dehydrogenase (NAD) activity|betaine-aldehyde dehydrogenase activity|L-aminoadipate-semialdehyde dehydrogenase activity			kidney(2)|ovary(1)	3		all_cancers(142;0.24)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0584)|Kidney(363;0.0934)	Epithelial(69;0.0417)|OV - Ovarian serous cystadenocarcinoma(64;0.068)|all cancers(49;0.109)	NADH(DB00157)|Pyridoxine(DB00165)	TGGCGATGGCGTTGTTCCAAC	0.448													15	35					0	0	1	0	0		A	125912806	A	A	125912806	2	1	213	1	0	0	0	0	0	0	0	1	504	1136	40	1		1	ALDH7A1	5	125912806	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	10130172	125912806	55002454	268	105705											
ISOC1	51015	broad.mit.edu	37	chr5	128440935	128440935	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taacagaacaataccctaaaGgtcttgggagcacggttcaa	15	8	9	9	1	2	1	1	0	1	1	2	2	2	2	1	3	4	2	1	3	7	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:128440935G>T	uc003kva.2	+	3	505	c.487G>T	c.(487-489)GGT>TGT	p.G163C		NM_016048	NP_057132	Q96CN7	ISOC1_HUMAN	isochorismatase domain containing 1	163						peroxisome	catalytic activity				0		all_cancers(142;0.0813)|Prostate(80;0.0865)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.138)|OV - Ovarian serous cystadenocarcinoma(64;0.164)		ATACCCTAAAGGTCTTGGGAG	0.368													8	38					1.06961e-07	1.12749e-07	1	1	0		T	128440935	T	T	128440935	3	4	213	1	0	0	0	0	1	0	0	0	7878	1000	35	5	497	5	ISOC1	5	128440935	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2528129	128440935	52474325	269	105706											
CHSY3	337876	broad.mit.edu	37	chr5	129521238	129521238	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggatttgatacctcaatacaAggctggggactagaagatgt	13	10	12	6	0	1	3	1	1	0	2	1	5	1	5	1	4	2	1	1	4	6	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:129521238A>G	uc003kvd.2	+	3	2403	c.2403A>G	c.(2401-2403)CAA>CAG	p.Q801Q		NM_175856	NP_787052	Q70JA7	CHSS3_HUMAN	chondroitin sulfate synthase 3	801	Lumenal (Potential).					Golgi cisterna membrane|integral to membrane	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			ovary(2)|pancreas(1)	3		all_cancers(142;0.0227)|Breast(839;0.198)|Prostate(80;0.215)|Lung NSC(810;0.239)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	OV - Ovarian serous cystadenocarcinoma(64;0.136)		CCTCAATACAAGGCTGGGGAC	0.403													26	60					0	0	1	0	0		G	129521238	G	G	129521238	2	3	213	1	0	0	0	0	0	0	0	1	3416	69	3	3		3	CHSY3	5	129521238	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1080303	129521238	51394022	270	105707											
RAPGEF6	51735	broad.mit.edu	37	chr5	130799880	130799880	+	Frame_Shift_Del	DEL	A	-	-																															ccaaattcatgaacagcatgAaaaactacttctttagctgt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:130799880delA	uc003kvn.1	-	18	2540	c.2334delT	c.(2332-2334)TTTfs	p.F778fs	RAPGEF6_uc003kvp.1_Frame_Shift_Del_p.F828fs|RAPGEF6_uc003kvo.1_Frame_Shift_Del_p.F783fs|RAPGEF6_uc010jdi.1_Frame_Shift_Del_p.F778fs|RAPGEF6_uc010jdj.1_Frame_Shift_Del_p.F778fs|RAPGEF6_uc003kvq.2_Frame_Shift_Del_p.F495fs|RAPGEF6_uc003kvr.2_Frame_Shift_Del_p.F778fs|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Frame_Shift_Del_p.F778fs	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	778	Ras-associating.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		GAACAGCATGAAAAACTACTT	0.383													19	18	---	---	---	---						.	-	130799880	-	-	130799880	7	5	213	1	0	1	0	1	0	0	0	0	13073	243	9	0	2982	0	RAPGEF6	5	130799880	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	1278642	130799880	50115380	271	105708											
RAPGEF6	51735	broad.mit.edu	37	chr5	130828390	130828390	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggctgaattgtagaggggacTcgcgggaagccttttgcagc	8	9	16	8	2	0	2	0	1	0	1	1	4	0	4	1	4	3	3	1	4	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:130828390T>C	uc003kvn.1	-	14	1822	c.1616A>G	c.(1615-1617)GAG>GGG	p.E539G	RAPGEF6_uc003kvp.1_Missense_Mutation_p.E589G|RAPGEF6_uc003kvo.1_Missense_Mutation_p.E539G|RAPGEF6_uc010jdi.1_Missense_Mutation_p.E539G|RAPGEF6_uc010jdj.1_Missense_Mutation_p.E539G|RAPGEF6_uc003kvq.2_Missense_Mutation_p.E256G|RAPGEF6_uc003kvr.2_Missense_Mutation_p.E539G|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.E539G	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	539	PDZ.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		TAGAGGGGACTCGCGGGAAGC	0.468													25	49					0	0	1	0	0		C	130828390	C	C	130828390	3	2	213	1	0	0	0	0	1	0	0	0	13073	1551	54	3	3735	3	RAPGEF6	5	130828390	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	28510	130828390	50086870	272	105709											
RAPGEF6	51735	broad.mit.edu	37	chr5	130828445	130828445	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cttagcctttgcagcacaggCaatattcaataaccggagat	13	10	8	10	1	1	1	1	0	0	1	1	2	1	1	2	2	4	3	2	2	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:130828445C>T	uc003kvn.1	-	14	1767	c.1561G>A	c.(1561-1563)GCC>ACC	p.A521T	RAPGEF6_uc003kvp.1_Missense_Mutation_p.A571T|RAPGEF6_uc003kvo.1_Missense_Mutation_p.A521T|RAPGEF6_uc010jdi.1_Missense_Mutation_p.A521T|RAPGEF6_uc010jdj.1_Missense_Mutation_p.A521T|RAPGEF6_uc003kvq.2_Missense_Mutation_p.A238T|RAPGEF6_uc003kvr.2_Missense_Mutation_p.A521T|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Missense_Mutation_p.A521T	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	521	N-terminal Ras-GEF.				Ras protein signal transduction|regulation of GTPase activity|regulation of small GTPase mediated signal transduction	cytoplasm|plasma membrane	GTP-dependent protein binding|guanyl-nucleotide exchange factor activity|Ras GTPase binding			ovary(1)|lung(1)|central_nervous_system(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Lung(113;0.0721)		GCAGCACAGGCAATATTCAAT	0.413													19	36					0	0	1	0	0		T	130828445	T	T	130828445	3	4	213	1	0	0	0	0	1	0	0	0	13073	710	25	2	3790	2	RAPGEF6	5	130828445	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	55	130828445	50086815	273	105710											
SLC22A5	6584	broad.mit.edu	37	chr5	131722731	131722731	+	Frame_Shift_Del	DEL	C	-	-																															tgccaggttcatccctgagtCcccccgatggctcatctctc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:131722731delC	uc003kww.3	+	5	1103	c.839delC	c.(838-840)TCCfs	p.S280fs	SLC22A5_uc003kwx.3_Frame_Shift_Del_p.S304fs|SLC22A5_uc010jdr.1_5'UTR	NM_003060	NP_003051	O76082	S22A5_HUMAN	solute carrier family 22 member 5	280	Cytoplasmic (Potential).				positive regulation of intestinal epithelial structure maintenance|quorum sensing involved in interaction with host|sodium ion transport|sodium-dependent organic cation transport	apical plasma membrane|brush border membrane|integral to membrane	ATP binding|carnitine transporter activity|PDZ domain binding|symporter activity				0		all_cancers(142;0.0751)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Carnitine(DB00583)	ATCCCTGAGTCCCCCCGATGG	0.547											OREG0016767	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	78	158	---	---	---	---						.	-	131722731	-	-	131722731	7	5	213	1	0	1	0	1	0	0	0	0	14482	855	30	0	857	0	SLC22A5	5	131722731	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	894286	131722731	49192529	274	105711											
REEP2	51308	broad.mit.edu	37	chr5	137780982	137780982	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacctgaccctgatccgggaCgaggacgcactgcccctgca	8	5	12	16	3	0	2	0	2	0	0	1	6	1	4	5	2	2	2	5	2	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:137780982C>T	uc003lcz.2	+	6	599	c.477C>T	c.(475-477)GAC>GAT	p.D159D	REEP2_uc003lda.2_Silent_p.D161D|REEP2_uc011cyt.1_Silent_p.D120D	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	159						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			TGATCCGGGACGAGGACGCAC	0.697													26	41					0	0	1	0	0		T	137780982	T	T	137780982	2	4	213	1	0	0	0	0	0	0	0	1	13230	535	19	1		1	REEP2	5	137780982	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6058251	137780982	43134278	275	105712											
EGR1	1958	broad.mit.edu	37	chr5	137803521	137803521	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actacctcttatccatccccGgccaccacctcatacccatc	9	9	2	21	1	2	0	1	0	1	0	5	0	4	0	8	1	2	0	8	1	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:137803521G>A	uc003ldb.1	+	2	1653	c.1383G>A	c.(1381-1383)CCG>CCA	p.P461P	EGR1_uc011cyu.1_Intron	NM_001964	NP_001955	P18146	EGR1_HUMAN	early growth response 1	461					cellular response to heparin|cellular response to mycophenolic acid|glomerular mesangial cell proliferation|interleukin-1-mediated signaling pathway|positive regulation of glomerular metanephric mesangial cell proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of protein sumoylation|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	cytoplasm|nucleus	histone acetyltransferase binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			atccatccccggccaccacct	0.154													17	56					0	0	1	0	0		A	137803521	A	A	137803521	2	1	213	1	0	0	0	0	0	0	0	1	4977	1103	39	1		1	EGR1	5	137803521	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	22539	137803521	43111739	276	105713											
CTNNA1	1495	broad.mit.edu	37	chr5	138269735	138269735	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagaagaagcacgtgaaccCggtgcaggccctcagcgagt	11	5	13	12	3	2	3	2	1	0	2	2	4	2	3	2	2	4	2	2	2	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:138269735C>T	uc003ldh.2	+	18	2773	c.2678C>T	c.(2677-2679)CCG>CTG	p.P893L	CTNNA1_uc011cyx.1_Missense_Mutation_p.P790L|CTNNA1_uc011cyy.1_Missense_Mutation_p.P770L|CTNNA1_uc003ldi.2_Missense_Mutation_p.P591L|CTNNA1_uc003ldj.2_3'UTR|CTNNA1_uc003ldl.2_Missense_Mutation_p.P523L	NM_001903	NP_001894	P35221	CTNA1_HUMAN	catenin, alpha 1	893					adherens junction organization|apical junction assembly|cell adhesion|cellular response to indole-3-methanol|muscle cell differentiation|positive regulation of muscle cell differentiation	actin cytoskeleton|catenin complex|cytosol	beta-catenin binding|cadherin binding|gamma-catenin binding|structural molecule activity|vinculin binding			breast(6)|ovary(2)|large_intestine(2)|kidney(1)	11			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			CACGTGAACCCGGTGCAGGCC	0.542													15	32					0	0	1	0	0		T	138269735	T	T	138269735	3	4	213	1	0	0	0	0	1	0	0	0	4015	652	23	1	2744	1	CTNNA1	5	138269735	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	466214	138269735	42645525	277	105714											
PCDHA5	56143	broad.mit.edu	37	chr5	140202594	140202594	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgttggtgctggacagcgccCtggaccgcgagagcgtgtcg	5	7	17	12	6	0	1	0	0	0	1	1	4	0	3	2	3	3	2	2	3	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:140202594C>A	uc003lhl.2	+	1	1234	c.1234C>A	c.(1234-1236)CTG>ATG	p.L412M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Missense_Mutation_p.L412M|PCDHA5_uc003lhj.1_Missense_Mutation_p.L412M	NM_018908	NP_061731	Q9Y5H7	PCDA5_HUMAN	protocadherin alpha 5 isoform 1 precursor	412	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(1)|breast(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGACAGCGCCCTGGACCGCGA	0.642													54	174					1.13709e-37	1.30307e-37	1	1	0		A	140202594	A	A	140202594	3	1	213	1	0	0	0	0	1	0	0	0	11546	680	24	5	1236	5	PCDHA5	5	140202594	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1932859	140202594	40712666	278	105715											
PCDHA7	56141	broad.mit.edu	37	chr5	140215588	140215588	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggtgagcgcgcgcgatgcGggcgtgccgcctctgggcag	4	5	19	13	7	1	1	0	1	1	0	1	2	1	1	2	3	3	1	2	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:140215588G>T	uc003lhq.2	+	1	1620	c.1620G>T	c.(1618-1620)GCG>GCT	p.A540A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Silent_p.A540A	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	540	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CGCGCGATGCGGGCGTGCCGC	0.682													73	140					9.2564e-22	1.04594e-21	1	1	0		T	140215588	T	T	140215588	2	4	213	1	0	0	0	0	0	0	0	1	11548	1103	39	5		5	PCDHA7	5	140215588	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	12994	140215588	40699672	279	105716											
PCDHA11	56138	broad.mit.edu	37	chr5	140250524	140250524	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttcatatgaattgcagccGgcggcgggcggctcgcgcat	6	9	14	12	6	1	1	1	1	0	0	2	1	1	1	1	4	2	3	1	4	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:140250524G>A	uc003lia.2	+	1	2694	c.1836G>A	c.(1834-1836)CCG>CCA	p.P612P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.P612P	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	612	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATTGCAGCCGGCGGCGGGCG	0.682													37	67					0	0	1	0	0		A	140250524	A	A	140250524	2	1	213	1	0	0	0	0	0	0	0	1	11540	1103	39	1		1	PCDHA11	5	140250524	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	34936	140250524	40664736	280	105717											
PCDHB4	56131	broad.mit.edu	37	chr5	140501700	140501700	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgttggaggaaacagagagCggctcctttgtagcccatct	9	10	13	9	1	1	1	0	0	1	1	2	4	2	3	2	3	3	3	2	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:140501700C>T	uc003lip.1	+	1	120	c.120C>T	c.(118-120)AGC>AGT	p.S40S		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	40	Cadherin 1.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AAACAGAGAGCGGCTCCTTTG	0.537													21	56					0	0	1	0	0		T	140501700	T	T	140501700	2	4	213	1	0	0	0	0	0	0	0	1	11563	767	27	1		1	PCDHB4	5	140501700	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	251176	140501700	40413560	281	105718											
PCDHB10	56126	broad.mit.edu	37	chr5	140573523	140573523	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtccgcgagaacaacagcccCgccctgcacatcggcagcgt	9	4	11	17	5	0	1	0	0	0	1	2	2	1	1	4	1	5	2	4	1	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:140573523C>T	uc003lix.2	+	1	1572	c.1398C>T	c.(1396-1398)CCC>CCT	p.P466P		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	466	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ACAACAGCCCCGCCCTGCACA	0.652													76	244					0	0	1	0	0		T	140573523	T	T	140573523	2	4	213	1	0	0	0	0	0	0	0	1	11554	639	23	1		1	PCDHB10	5	140573523	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	71823	140573523	40341737	282	105719											
PCDHGB2	56103	broad.mit.edu	37	chr5	140741226	140741226	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttatcctacgtgtccgtgagCgcgcagagcggggtggtgtt	5	11	16	9	5	0	2	0	1	0	1	2	2	2	2	2	3	3	2	2	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:140741226C>T	uc003ljs.1	+	1	1524	c.1524C>T	c.(1522-1524)AGC>AGT	p.S508S	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Silent_p.S508S|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	508	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCCGTGAGCGCGCAGAGCG	0.662													20	52					0	0	1	0	0		T	140741226	T	T	140741226	2	4	213	1	0	0	0	0	0	0	0	1	11582	767	27	1		1	PCDHGB2	5	140741226	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	167703	140741226	40174034	283	105720											
PCDHGA7	56108	broad.mit.edu	37	chr5	140762765	140762765	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agagatctgcgctcagagtgCgcggtgtctggtaaacttta	9	11	13	8	3	3	2	1	0	2	2	3	3	3	2	0	2	3	2	0	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:140762765C>T	uc003lka.1	+	1	299	c.299C>T	c.(298-300)GCG>GTG	p.A100V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.A100V	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	100	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTCAGAGTGCGCGGTGTCTG	0.483													14	45					0	0	1	0	0		T	140762765	T	T	140762765	3	4	213	1	0	0	0	0	1	0	0	0	11578	768	27	1	301	1	PCDHGA7	5	140762765	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	21539	140762765	40152495	284	105721											
SPINK5	11005	broad.mit.edu	37	chr5	147480951	147480951	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaagaaaagaaaaagaaggaAggtaaatcaagaaacaaaag	27	2	10	2	0	1	4	1	0	0	4	1	6	1	5	0	2	1	1	0	2	13	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:147480951A>G	uc003lox.2	+	14	1327	c.1254A>G	c.(1252-1254)GAA>GAG	p.E418E	SPINK5_uc010jgs.1_Silent_p.E390E|SPINK5_uc010jgr.2_Silent_p.E399E|SPINK5_uc003low.2_Silent_p.E418E|SPINK5_uc003loy.2_Silent_p.E418E	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	418	Kazal-like 6.				anagen|epithelial cell differentiation|extracellular matrix organization|hair cell differentiation|negative regulation of angiogenesis|negative regulation of immune response|regulation of T cell differentiation	cell cortex|cytosol|endoplasmic reticulum membrane|extracellular region|lamellar body|perinuclear region of cytoplasm	serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)|breast(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAAGAAGGAAGGTAAATCAA	0.378													9	21					0	0	1	0	0		G	147480951	G	G	147480951	2	3	213	1	0	0	0	0	0	0	0	1	15087	69	3	3		3	SPINK5	5	147480951	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	6718186	147480951	33434309	285	105722											
SH3TC2	79628	broad.mit.edu	37	chr5	148422396	148422396	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgttctagacacatggatacGtagcctaagaagtcaagcca	14	9	9	9	1	2	2	1	0	1	2	2	3	2	3	2	1	3	2	2	1	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:148422396G>A	uc003lpu.2	-	5	542	c.390C>T	c.(388-390)TAC>TAT	p.Y130Y	SH3TC2_uc003lpp.1_RNA|SH3TC2_uc003lps.2_5'Flank|SH3TC2_uc003lpt.2_Translation_Start_Site|SH3TC2_uc010jgx.2_Intron|SH3TC2_uc003lpv.1_Translation_Start_Site|SH3TC2_uc011dbz.1_Silent_p.Y15Y	NM_024577	NP_078853	Q8TF17	S3TC2_HUMAN	SH3 domain and tetratricopeptide repeats 2	130							binding			ovary(2)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACATGGATACGTAGCCTAAGA	0.423													22	56					0	0	1	0	0		A	148422396	A	A	148422396	2	1	213	1	0	0	0	0	0	0	0	1	14287	1140	40	1		1	SH3TC2	5	148422396	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	941445	148422396	32492864	286	105723											
GM2A	2760	broad.mit.edu	37	chr5	150646383	150646383	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgtacctttgaacacttctGtgatgtgcttgacatgttaa	9	16	8	8	0	1	3	0	3	1	0	1	3	1	3	1	0	3	3	1	0	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:150646383G>A	uc003ltr.3	+	3	500	c.335G>A	c.(334-336)TGT>TAT	p.C112Y	GM2A_uc011dcs.1_RNA|GM2A_uc011dcr.1_Missense_Mutation_p.C112Y|GM2A_uc003ltt.1_Missense_Mutation_p.C44Y|GM2A_uc003ltu.1_5'Flank	NM_000405	NP_000396	P17900	SAP3_HUMAN	GM2 ganglioside activator precursor	112						lysosome|nucleolus	sphingolipid activator protein activity				0		Medulloblastoma(196;0.091)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GAACACTTCTGTGATGTGCTT	0.498													31	59					0	0	1	0	0		A	150646383	A	A	150646383	3	1	213	1	0	0	0	0	1	0	0	0	6499	1377	48	4	345	4	GM2A	5	150646383	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2223987	150646383	30268877	287	105724											
CYFIP2	26999	broad.mit.edu	37	chr5	156752567	156752567	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttaaccatgggccgacgaAtccagttccccatcgagatg	11	8	10	12	3	0	1	0	0	0	1	3	4	2	1	5	1	1	2	5	1	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:156752567A>G	uc003lwq.2	+	19	2041	c.1903A>G	c.(1903-1905)ATC>GTC	p.I635V	CYFIP2_uc011ddn.1_Missense_Mutation_p.I609V|CYFIP2_uc011ddo.1_Missense_Mutation_p.I439V|CYFIP2_uc003lwr.2_Missense_Mutation_p.I635V|CYFIP2_uc003lws.2_Missense_Mutation_p.I635V|CYFIP2_uc003lwt.2_Missense_Mutation_p.I538V|CYFIP2_uc011ddp.1_Missense_Mutation_p.I369V	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	660					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GGGCCGACGAATCCAGTTCCC	0.527													16	18					0	0	1	0	0		G	156752567	G	G	156752567	3	3	213	1	0	0	0	0	1	0	0	0	4141	101	4	3	1965	3	CYFIP2	5	156752567	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	6106184	156752567	24162693	288	105725											
ODZ2	57451	broad.mit.edu	37	chr5	167545433	167545433	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctgcgggggccacggctcCtgcattgatgggaactgtgt	5	10	15	11	2	0	1	0	1	0	0	2	2	2	2	3	4	3	2	3	4	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:167545433C>A	uc010jjd.2	+	10	1950	c.1950C>A	c.(1948-1950)TCC>TCA	p.S650S	ODZ2_uc003lzq.2_Silent_p.S529S|ODZ2_uc003lzr.3_Silent_p.S418S|ODZ2_uc003lzt.3_Silent_p.S14S|uc003lzs.1_Intron	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)		GCCACGGCTCCTGCATTGATG	0.617													72	128					1.48005e-37	1.69424e-37	1	1	0		A	167545433	A	A	167545433	2	1	213	1	0	0	0	0	0	0	0	1	10854	668	24	5		5	ODZ2	5	167545433	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	10792866	167545433	13369827	289	105726											
RNF44	22838	broad.mit.edu	37	chr5	175957911	175957911	+	Frame_Shift_Del	DEL	G	-	-																															gggcgccatgtgggtgggctGggggggtggggccggtggtg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:175957911delG	uc003mek.1	-	5	1102	c.577delC	c.(577-579)CAGfs	p.Q193fs	RNF44_uc011dfo.1_Frame_Shift_Del_p.Q101fs|RNF44_uc003mel.1_5'Flank	NM_014901	NP_055716	Q7L0R7	RNF44_HUMAN	ring finger protein 44	193	Pro-rich.						zinc ion binding				0	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)			TGGGTGGGCTGGGGGGGTGGG	0.667													7	6	---	---	---	---						.	-	175957911	-	-	175957911	7	5	213	1	0	1	0	1	0	0	0	0	13521	1357	47	0	749	0	RNF44	5	175957911	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	8412478	175957911	4957349	290	105727											
CDHR2	54825	broad.mit.edu	37	chr5	176004677	176004677	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcagccagaacttctccgtcGccatggtgaccatccacctt	8	10	7	16	2	2	2	1	1	1	1	5	2	3	2	6	1	2	0	6	1	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:176004677G>A	uc003mem.1	+	14	1456	c.1390G>A	c.(1390-1392)GCC>ACC	p.A464T	CDHR2_uc003men.1_Missense_Mutation_p.A464T	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	464	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						CTTCTCCGTCGCCATGGTGAC	0.637													22	45					0	0	1	0	0		A	176004677	A	A	176004677	3	1	213	1	0	0	0	0	1	0	0	0	3122	1087	38	1	1440	1	CDHR2	5	176004677	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	46766	176004677	4910583	291	105728											
UIMC1	51720	broad.mit.edu	37	chr5	176397788	176397788	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcaagagctcctcttcttcCtcctcctggctgttcacctc	4	14	5	18	0	4	1	2	0	2	1	9	1	8	1	5	1	1	3	5	1	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:176397788C>T	uc011dfp.1	-	4	479	c.312G>A	c.(310-312)GAG>GAA	p.E104E	UIMC1_uc003mfc.1_5'UTR|UIMC1_uc003mfd.1_5'UTR|UIMC1_uc003mfg.1_Silent_p.E104E|UIMC1_uc003mfh.1_Silent_p.E104E|UIMC1_uc010jkj.1_Silent_p.E104E|UIMC1_uc011dfq.1_Silent_p.E104E|UIMC1_uc003mff.1_5'Flank	NM_016290	NP_057374	Q96RL1	UIMC1_HUMAN	ubiquitin interaction motif containing 1	104	Necessary for interaction with NR6A1 N- terminus.|UIM 2.|Glu-rich.				double-strand break repair|G2/M transition DNA damage checkpoint|histone H2A K63-linked deubiquitination|negative regulation of transcription, DNA-dependent|positive regulation of DNA repair|response to ionizing radiation|transcription, DNA-dependent	BRCA1-A complex	histone binding|K63-linked polyubiquitin binding			ovary(3)|skin(1)	4	all_cancers(89;7.96e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	Medulloblastoma(196;0.0145)|all_neural(177;0.0325)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CCTCTTCTTCCTCCTCCTGGC	0.438													39	69					0	0	1	0	0		T	176397788	T	T	176397788	2	4	213	1	0	0	0	0	0	0	0	1	16997	680	24	4		4	UIMC1	5	176397788	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	393111	176397788	4517472	292	105729											
NSD1	64324	broad.mit.edu	37	chr5	176710894	176710894	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgaatggagatacccGtgtaggcctttttgcactaa	9	13	11	8	1	1	2	0	1	1	1	1	3	1	2	2	2	2	2	2	2	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:176710894G>A	uc003mfr.3	+	20	6254	c.6116G>A	c.(6115-6117)CGT>CAT	p.R2039H	NSD1_uc003mft.3_Missense_Mutation_p.R1770H|NSD1_uc011dfx.1_Missense_Mutation_p.R1687H	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	2039	SET.				negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	androgen receptor binding|chromatin binding|estrogen receptor binding|histone methyltransferase activity (H3-K36 specific)|histone methyltransferase activity (H4-K20 specific)|ligand-dependent nuclear receptor binding|retinoid X receptor binding|thyroid hormone receptor binding|transcription corepressor activity|zinc ion binding			ovary(2)|kidney(1)	3	all_cancers(89;1.57e-05)|Renal(175;0.000269)|Lung NSC(126;0.00111)|all_lung(126;0.002)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)|Epithelial(233;0.198)	Kidney(146;0.235)		GGAGATACCCGTGTAGGCCTT	0.423			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			45	89					0	0	1	0	0		A	176710894	A	A	176710894	3	1	213	1	0	0	0	0	1	0	0	0	10688	1145	40	1	6190	1	NSD1	5	176710894	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	313106	176710894	4204366	293	105730											
DBN1	1627	broad.mit.edu	37	chr5	176885651	176885651	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccatggggccggcccaggccTgaggggctgctgctctggtc	3	7	17	14	1	1	1	0	1	1	0	2	1	1	1	4	7	2	3	4	7	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:176885651T>C	uc003mgy.2	-	12	1356	c.1184A>G	c.(1183-1185)CAG>CGG	p.Q395R	DBN1_uc011dga.1_Missense_Mutation_p.Q127R|DBN1_uc003mgx.2_Missense_Mutation_p.Q397R|DBN1_uc010jkn.1_Missense_Mutation_p.Q345R|DBN1_uc003mgz.1_Missense_Mutation_p.Q378R	NM_004395	NP_004386	Q16643	DREB_HUMAN	drebrin 1 isoform a	395					actin filament organization|regulation of dendrite development|regulation of neuronal synaptic plasticity	actomyosin|cytoplasm|dendrite	actin binding|profilin binding			breast(3)|ovary(1)|lung(1)|skin(1)	6	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)			GGCCCAGGCCTGAGGGGCTGC	0.662													6	7					0	0	1	0	0		C	176885651	C	C	176885651	3	2	213	1	0	0	0	0	1	0	0	0	4255	1580	55	3	777	3	DBN1	5	176885651	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	174757	176885651	4029609	294	105731											
RUFY1	80230	broad.mit.edu	37	chr5	178994485	178994485	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgtgggaagaggccgagCgtggctttatcttgcactca	8	10	14	9	2	2	1	1	0	1	1	2	3	2	2	1	3	3	3	1	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr5:178994485C>T	uc003mka.1	+	4	626	c.626C>T	c.(625-627)GCG>GTG	p.A209V	RUFY1_uc003mkb.1_Missense_Mutation_p.A101V|RUFY1_uc003mkc.1_Missense_Mutation_p.A101V	NM_025158	NP_079434	Q96T51	RUFY1_HUMAN	RUN and FYVE domain-containing 1 isoform a	209	RUN.				endocytosis|protein transport	early endosome membrane	lipid binding|zinc ion binding			ovary(4)|breast(1)	5	all_cancers(89;0.00018)|all_epithelial(37;8.37e-05)|Renal(175;0.000159)|Lung NSC(126;0.00108)|all_lung(126;0.00195)	all_cancers(40;0.0322)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AGAGGCCGAGCGTGGCTTTAT	0.403										HNSCC(44;0.11)			21	24					0	0	1	0	0		T	178994485	T	T	178994485	3	4	213	1	0	0	0	0	1	0	0	0	13763	768	27	1	640	1	RUFY1	5	178994485	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2108834	178994485	1920775	295	105732											
DSP	1832	broad.mit.edu	37	chr6	7569500	7569500	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtgacgggcccgggaggcGttgacatgcttgttccctct	5	10	14	12	4	1	2	0	2	1	0	2	3	2	3	2	3	1	3	2	3	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:7569500G>A	uc003mxp.1	+	12	1780	c.1501G>A	c.(1501-1503)GTT>ATT	p.V501I	DSP_uc003mxq.1_Missense_Mutation_p.V501I	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	501	Globular 1.|Interacts with plakophilin 1 and junction plakoglobin.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		CCCGGGAGGCGTTGACATGCT	0.562													38	68					0	0	1	0	0		A	7569500	A	A	7569500	3	1	213	1	0	0	0	0	1	0	0	0	4787	1145	40	1	1547	1	DSP	6	7569500	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		7569500	163545567	296	105733											
DSP	1832	broad.mit.edu	37	chr6	7580631	7580631	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caatctcacccgagaaaacaGgagcttatctgaagaaataa	18	7	7	9	1	2	3	1	1	2	2	3	5	2	4	1	1	2	1	1	1	7	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:7580631G>T	uc003mxp.1	+	23	4487	c.4208G>T	c.(4207-4209)AGG>ATG	p.R1403M	DSP_uc003mxq.1_Intron	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	1403	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		CGAGAAAACAGGAGCTTATCT	0.488													35	53					1.99505e-19	2.2447e-19	1	1	0		T	7580631	T	T	7580631	3	4	213	1	0	0	0	0	1	0	0	0	4787	1000	35	5	4298	5	DSP	6	7580631	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	11131	7580631	163534436	297	105734											
SNRNP48	154007	broad.mit.edu	37	chr6	7595261	7595261	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atttttttttttttgacagaTaaggactcacaattccagat	12	18	5	6	0	1	3	1	1	0	2	2	4	2	4	1	1	0	0	1	1	2	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:7595261T>C	uc003mxr.2	+	4	392	c.333T>C	c.(331-333)AAT>AAC	p.N111N	SNRNP48_uc003mxs.2_RNA	NM_152551	NP_689764	Q6IEG0	SNR48_HUMAN	U11/U12 snRNP 48K	111					mRNA processing	cytoplasm|U12-type spliceosomal complex	metal ion binding				0						TTTTGACAGATAAGGACTCAC	0.333													20	19					0	0	1	0	0		C	7595261	C	C	7595261	2	2	213	1	0	0	0	0	0	0	0	1	14882	1420	49	3		3	SNRNP48	6	7595261	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	14630	7595261	163519806	298	105735											
RANBP9	10048	broad.mit.edu	37	chr6	13634728	13634728	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	taccatttaggaaaccattgGatgaagtttctccaactcca	13	12	6	10	0	1	1	0	1	1	0	3	3	2	3	4	2	3	1	4	2	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:13634728G>A	uc003nbb.2	-	11	1789	c.1730C>T	c.(1729-1731)TCC>TTC	p.S577F	RANBP9_uc003nba.2_Missense_Mutation_p.S236F	NM_005493	NP_005484	Q96S59	RANB9_HUMAN	RAN binding protein 9	577					axon guidance|microtubule nucleation|protein complex assembly	cytosol|microtubule associated complex|nucleus	Ran GTPase binding			lung(1)|skin(1)	2	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.223)			GAAACCATTGGATGAAGTTTC	0.338													11	36					0	0	1	0	0		A	13634728	A	A	13634728	3	1	213	1	0	0	0	0	1	0	0	0	13057	1174	41	4	475	4	RANBP9	6	13634728	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6039467	13634728	157480339	299	105736											
JARID2	3720	broad.mit.edu	37	chr6	15520474	15520474	+	Missense_Mutation	SNP	T	C	C	0	1	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	catccaaaagtgcttcgagcTcatcatgaagatgccaacgc	13	8	8	12	2	2	2	2	1	0	1	4	3	3	2	2	0	4	2	2	0	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:15520474T>C	uc003nbj.2	+	18	3977	c.3733T>C	c.(3733-3735)TCA>CCA	p.S1245P	JARID2_uc011div.1_Missense_Mutation_p.S1073P	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	1245	Poly-Ser.				central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				tgcttcgagctcatcatgaag	0.343													15	55					0	0	1	0	0		C	15520474	C	C	15520474	3	2	213	1	0	0	0	0	1	0	0	0	7961	1551	54	3	3803	3	JARID2	6	15520474	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1885746	15520474	155594593	300	105737											
HIST1H1E	3008	broad.mit.edu	37	chr6	26156941	26156941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcgggttccttcaaactcaAcaagaaggcggcctctgggg	9	8	13	11	2	3	1	2	0	1	1	5	1	4	1	2	5	2	1	2	5	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:26156941A>G	uc003ngq.2	+	1	383	c.323A>G	c.(322-324)AAC>AGC	p.N108S	HIST1H2BD_uc003ngr.2_5'Flank|HIST1H2BD_uc003ngs.2_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	histone cluster 1, H1e	108	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			large_intestine(1)|ovary(1)	2						TTCAAACTCAACAAGAAGGCG	0.612													17	46					0	0	1	0	0		G	26156941	G	G	26156941	3	3	213	1	0	0	0	0	1	0	0	0	7142	43	2	3	325	3	HIST1H1E	6	26156941	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	10636467	26156941	144958126	301	105738											
ZSCAN16	80345	broad.mit.edu	37	chr6	28093420	28093420	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccagctgtgggagctctgcCgtcagtggctgaggccagaa	7	7	15	12	1	2	2	1	1	1	1	2	3	2	3	3	3	3	3	3	3	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:28093420C>T	uc003nkm.2	+	2	299	c.199C>T	c.(199-201)CGT>TGT	p.R67C	uc010jqw.1_Intron|uc003nkk.1_RNA|uc003nkl.1_Intron|ZSCAN16_uc011dky.1_Missense_Mutation_p.R67C	NM_025231	NP_079507	Q9H4T2	ZSC16_HUMAN	zinc finger and SCAN domain containing 16	67	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(1)	1						GGAGCTCTGCCGTCAGTGGCT	0.532													69	160					0	0	1	0	0		T	28093420	T	T	28093420	3	4	213	1	0	0	0	0	1	0	0	0	18254	652	23	1	201	1	ZSCAN16	6	28093420	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1936479	28093420	143021647	302	105739											
SCAND3	114821	broad.mit.edu	37	chr6	28543300	28543300	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtacagagatcttgataatgCaaaataaatctgtactcccc	15	11	6	9	0	2	2	0	1	2	1	3	3	3	2	2	0	3	3	2	0	7	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:28543300C>T	uc003nlo.2	-	3	1800	c.1182G>A	c.(1180-1182)TTG>TTA	p.L394L		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	394	Integrase catalytic.				DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CTTGATAATGCAAAATAAATC	0.333													26	63					0	0	1	0	0		T	28543300	T	T	28543300	2	4	213	1	0	0	0	0	0	0	0	1	13901	709	25	2		2	SCAND3	6	28543300	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	449880	28543300	142571767	303	105740											
OR10C1	442194	broad.mit.edu	37	chr6	29408447	29408447	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcatcctgggctcctacgggCgtatcctcgttaccatcttc	5	13	8	15	3	2	0	1	0	1	0	7	0	5	0	4	2	2	3	4	2	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:29408447C>T	uc011dlp.1	+	1	655	c.655C>T	c.(655-657)CGT>TGT	p.R219C	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	219	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTCCTACGGGCGTATCCTCGT	0.582													65	118					0	0	1	0	0		T	29408447	T	T	29408447	3	4	213	1	0	0	0	0	1	0	0	0	10917	768	27	1	657	1	OR10C1	6	29408447	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	865147	29408447	141706620	304	105741											
C6orf47	57827	broad.mit.edu	37	chr6	31627249	31627249	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agggagctcctggttcccccCgcagccagcccaacagcttc	7	6	10	18	1	0	0	0	0	0	0	3	1	2	1	6	2	5	4	6	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:31627249C>T	uc003nvm.1	-	1	1301	c.476G>A	c.(475-477)CGG>CAG	p.R159Q		NM_021184	NP_067007	O95873	CF047_HUMAN	G4 protein	159										ovary(1)	1						TGGTTCCCCCCGCAGCCAGCC	0.642													29	61					0	0	1	0	0		T	31627249	T	T	31627249	3	4	213	1	0	0	0	0	1	0	0	0	2367	652	23	1	412	1	C6orf47	6	31627249	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2218802	31627249	139487818	305	105742											
BTNL2	56244	broad.mit.edu	37	chr6	32363934	32363934	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcagggtcagtctgccctcGtcaatggcgtcactcaccag	7	9	11	14	2	5	0	4	0	1	0	6	0	5	0	2	2	2	1	2	2	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:32363934G>A	uc003obg.1	-	5	960	c.960C>T	c.(958-960)GAC>GAT	p.D320D	BTNL2_uc010jty.1_Silent_p.D43D|BTNL2_uc010jtz.1_RNA|BTNL2_uc010jua.1_Silent_p.D110D	NM_019602	NP_062548	Q9UIR0	BTNL2_HUMAN	butyrophilin-like 2	320	Extracellular (Potential).|Ig-like V-type 3.					integral to membrane				central_nervous_system(1)	1						GTCTGCCCTCGTCAATGGCGT	0.547													26	26					0	0	1	0	0		A	32363934	A	A	32363934	2	1	213	1	0	0	0	0	0	0	0	1	1568	1136	40	1		1	BTNL2	6	32363934	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	736685	32363934	138751133	306	105743											
BRD2	6046	broad.mit.edu	37	chr6	32947844	32947844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttgaaacactcaagccatCcacacttagagagcttgagc	13	10	7	11	0	1	3	1	2	0	1	2	4	2	3	2	0	4	1	2	0	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:32947844C>A	uc003ocn.3	+	11	3782	c.2081C>A	c.(2080-2082)TCC>TAC	p.S694Y	BRD2_uc003ocq.3_Missense_Mutation_p.S694Y|BRD2_uc003ocp.3_Missense_Mutation_p.S574Y|BRD2_uc010juh.2_Missense_Mutation_p.S729Y	NM_005104	NP_005095	P25440	BRD2_HUMAN	bromodomain containing 2	694	ET.				spermatogenesis	nucleus	protein serine/threonine kinase activity			central_nervous_system(3)|stomach(2)	5						CTCAAGCCATCCACACTTAGA	0.468													22	40					4.35082e-09	4.66096e-09	1	1	0		A	32947844	A	A	32947844	3	1	213	1	0	0	0	0	1	0	0	0	1505	855	30	5	2119	5	BRD2	6	32947844	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	583910	32947844	138167223	307	105744											
B3GALT4	8705	broad.mit.edu	37	chr6	33245676	33245676	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	accctcagcgggctgaactgGgctgagaaacactgccccat	10	6	11	14	1	1	2	1	2	0	1	1	3	1	2	3	2	4	2	3	2	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:33245676G>T	uc003odr.2	+	1	760	c.480G>T	c.(478-480)TGG>TGT	p.W160C		NM_003782	NP_003773	O96024	B3GT4_HUMAN	UDP-Gal:betaGlcNAc beta	160	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	ganglioside galactosyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)|breast(1)	2						GGCTGAACTGGGCTGAGAAAC	0.597													28	77					7.01153e-11	7.59643e-11	1	1	0		T	33245676	T	T	33245676	3	4	213	1	0	0	0	0	1	0	0	0	1250	1241	43	5	482	5	B3GALT4	6	33245676	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	297832	33245676	137869391	308	105745											
ITPR3	3710	broad.mit.edu	37	chr6	33608274	33608274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccccaggctggtggatgacCgctgtgtggtggagcccgcg	4	8	17	12	3	0	1	0	1	0	0	1	3	1	3	4	5	1	2	4	5	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:33608274C>T	uc011drk.1	+	2	322	c.103C>T	c.(103-105)CGC>TGC	p.R35C		NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	35	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						GGTGGATGACCGCTGTGTGGT	0.632													61	115					0	0	1	0	0		T	33608274	T	T	33608274	3	4	213	1	0	0	0	0	1	0	0	0	7938	652	23	1	109	1	ITPR3	6	33608274	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	362598	33608274	137506793	309	105746											
LEMD2	221496	broad.mit.edu	37	chr6	33740534	33740534	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggaactccacagctcggtcCcagacacgcttcatgcgcct	9	7	9	16	3	1	1	1	0	0	1	4	2	3	2	3	2	3	2	3	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:33740534C>A	uc011drm.1	-	9	1396	c.1383G>T	c.(1381-1383)TGG>TGT	p.W461C	LEMD2_uc010jvg.2_Missense_Mutation_p.W170C|LEMD2_uc011drl.1_Missense_Mutation_p.W159C|LEMD2_uc003ofe.2_Missense_Mutation_p.W159C	NM_181336	NP_851853	Q8NC56	LEMD2_HUMAN	LEM domain containing 2 isoform 1	461						integral to nuclear inner membrane				central_nervous_system(1)	1						CAGCTCGGTCCCAGACACGCT	0.627													13	21					7.93312e-07	8.32068e-07	1	1	0		A	33740534	A	A	33740534	3	1	213	1	0	0	0	0	1	0	0	0	8736	624	22	5	132	5	LEMD2	6	33740534	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	132260	33740534	137374533	310	105747											
TCP11	6954	broad.mit.edu	37	chr6	35088313	35088313	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gttgttggctgcctcattggGagaggggccagccacactgg	6	9	16	10	0	1	1	1	0	0	1	1	2	1	1	3	5	2	3	3	5	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:35088313G>A	uc003okd.2	-	7	1046	c.865C>T	c.(865-867)CCC>TCC	p.P289S	TCP11_uc003ojz.1_Missense_Mutation_p.P214S|TCP11_uc003oka.2_Missense_Mutation_p.P214S|TCP11_uc003okb.2_Missense_Mutation_p.P213S|TCP11_uc003okc.2_Missense_Mutation_p.P213S|TCP11_uc011dsu.1_Missense_Mutation_p.P271S|TCP11_uc011dsv.1_Missense_Mutation_p.P238S|TCP11_uc011dsw.1_Missense_Mutation_p.P243S	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	276					cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						GCCTCATTGGGAGAGGGGCCA	0.567													36	66					0	0	1	0	0		A	35088313	A	A	35088313	3	1	213	1	0	0	0	0	1	0	0	0	15738	1174	41	4	701	4	TCP11	6	35088313	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1347779	35088313	136026754	311	105748											
DNAH8	1769	broad.mit.edu	37	chr6	38840716	38840716	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcattttagatggtcctgtGgatgccatctggattgagaa	9	14	11	7	0	2	2	1	1	1	2	3	5	3	4	2	3	1	0	2	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:38840716G>T	uc003ooe.1	+	49	7221	c.6621G>T	c.(6619-6621)GTG>GTT	p.V2207V		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATGGTCCTGTGGATGCCATCT	0.348													18	33					3.41278e-10	3.67477e-10	1	1	0		T	38840716	T	T	38840716	2	4	213	1	0	0	0	0	0	0	0	1	4613	1335	47	5		5	DNAH8	6	38840716	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3752403	38840716	132274351	312	105749											
DNAH8	1769	broad.mit.edu	37	chr6	38942265	38942265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taatttacccatgtggaagcCgatgctttacacagtagcat	12	12	8	9	1	0	0	0	0	0	0	0	2	0	1	2	1	5	3	2	1	5	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:38942265C>T	uc003ooe.1	+	83	12743	c.12143C>T	c.(12142-12144)CCG>CTG	p.P4048L	DNAH8_uc003oog.1_Missense_Mutation_p.P497L	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATGTGGAAGCCGATGCTTTAC	0.458													23	48					0	0	1	0	0		T	38942265	T	T	38942265	3	4	213	1	0	0	0	0	1	0	0	0	4613	652	23	1	12465	1	DNAH8	6	38942265	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	101549	38942265	132172802	313	105750											
LRFN2	57497	broad.mit.edu	37	chr6	40359938	40359938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggagcaggctcctggccCgggccgcagggggccccagc	5	2	19	15	2	0	0	0	0	0	0	1	1	1	1	5	7	2	3	5	7	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:40359938C>T	uc003oph.1	-	3	2579	c.2114G>A	c.(2113-2115)CGG>CAG	p.R705Q		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	705	Cytoplasmic (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GCTCCTGGCCCGGGCCGCAGG	0.726													10	12					0	0	1	0	0		T	40359938	T	T	40359938	3	4	213	1	0	0	0	0	1	0	0	0	8956	652	23	1	259	1	LRFN2	6	40359938	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1417673	40359938	130755129	314	105751											
TBCC	6903	broad.mit.edu	37	chr6	42712855	42712855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggccagccagttaaaatcGtcaacatcgttccagttatt	11	11	8	11	3	1	0	1	0	0	0	4	0	2	0	3	1	2	3	3	1	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:42712855G>A	uc003osl.2	-	1	1030	c.957C>T	c.(955-957)GAC>GAT	p.D319D		NM_003192	NP_003183	Q15814	TBCC_HUMAN	beta-tubulin cofactor C	319	C-CAP/cofactor C-like.				'de novo' posttranslational protein folding|post-chaperonin tubulin folding pathway	cytoplasm|microtubule|photoreceptor connecting cilium	chaperone binding|GTPase activity				0	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)			AGTTAAAATCGTCAACATCGT	0.502													17	39					0	0	1	0	0		A	42712855	A	A	42712855	2	1	213	1	0	0	0	0	0	0	0	1	15656	1136	40	1		1	TBCC	6	42712855	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2352917	42712855	128402212	315	105752											
KIAA0240	23506	broad.mit.edu	37	chr6	42796578	42796578	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcagcctataggggtgacGcatgtgcctgttggagcatc	7	10	14	10	1	0	1	0	1	0	0	1	2	0	2	2	3	4	4	2	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:42796578G>A	uc003osn.1	+	6	658	c.507G>A	c.(505-507)ACG>ACA	p.T169T	KIAA0240_uc003osm.1_Silent_p.T169T|KIAA0240_uc011duw.1_Silent_p.T169T|KIAA0240_uc003oso.1_Silent_p.T169T|KIAA0240_uc003osp.1_Silent_p.T169T	NM_015349	NP_056164	Q6AI39	K0240_HUMAN	hypothetical protein LOC23506	169										ovary(1)	1	Colorectal(47;0.196)		Colorectal(64;0.00237)|COAD - Colon adenocarcinoma(64;0.00473)|all cancers(41;0.00524)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.104)			TAGGGGTGACGCATGTGCCTG	0.473													47	109					0	0	1	0	0		A	42796578	A	A	42796578	2	1	213	1	0	0	0	0	0	0	0	1	8180	1074	38	1		1	KIAA0240	6	42796578	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	83723	42796578	128318489	316	105753											
CUL7	9820	broad.mit.edu	37	chr6	43020085	43020085	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agtgaggggctcaatgctggCataggcgctgagcacgtgga	9	7	17	8	2	1	2	1	2	0	0	1	3	1	3	0	5	2	5	0	5	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:43020085C>T	uc003otq.2	-	2	745	c.442G>A	c.(442-444)GCC>ACC	p.A148T	CUL7_uc011dvb.1_Missense_Mutation_p.A200T|CUL7_uc010jyh.2_Intron|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	148					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			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)			TCAATGCTGGCATAGGCGCTG	0.552													14	40					0	0	1	0	0		T	43020085	T	T	43020085	3	4	213	1	0	0	0	0	1	0	0	0	4063	710	25	2	4850	2	CUL7	6	43020085	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	223507	43020085	128094982	317	105754											
CUL9	23113	broad.mit.edu	37	chr6	43192089	43192089	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtttgatgaggagctggacaAtgacagcttctcctacgatg	10	11	12	8	1	1	3	0	3	1	0	2	6	1	5	1	2	3	3	1	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:43192089A>G	uc003ouk.2	+	41	7535	c.7460A>G	c.(7459-7461)AAT>AGT	p.N2487S	CUL9_uc003oul.2_Missense_Mutation_p.N2459S|CUL9_uc010jyk.2_Missense_Mutation_p.N1639S|CUL9_uc003oun.2_Missense_Mutation_p.N282S	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	2487					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						GAGCTGGACAATGACAGCTTC	0.547													16	30					0	0	1	0	0		G	43192089	G	G	43192089	3	3	213	1	0	0	0	0	1	0	0	0	4064	101	4	3	7618	3	CUL9	6	43192089	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	172004	43192089	127922978	318	105755											
HMGCLL1	54511	broad.mit.edu	37	chr6	55443799	55443799	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccgatccagagatgctcccGgagaagctgctggtagctga	9	7	13	12	2	0	3	0	1	0	2	2	6	2	3	3	2	4	5	3	2	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:55443799G>A	uc003pcn.2	-	1	214	c.55C>T	c.(55-57)CGG>TGG	p.R19W	HMGCLL1_uc003pco.2_Missense_Mutation_p.R19W|HMGCLL1_uc010jzx.2_5'UTR|HMGCLL1_uc011dxc.1_Missense_Mutation_p.R19W|HMGCLL1_uc011dxd.1_Missense_Mutation_p.R19W|HMGCLL1_uc011dxe.1_Missense_Mutation_p.R19W|HMGCLL1_uc003pcp.2_Missense_Mutation_p.R19W	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	19							hydroxymethylglutaryl-CoA lyase activity|metal ion binding			skin(2)|ovary(1)|pancreas(1)	4	Lung NSC(77;0.0875)		LUSC - Lung squamous cell carcinoma(124;0.23)			AGATGCTCCCGGAGAAGCTGC	0.682													6	15					0	0	1	0	0		A	55443799	A	A	55443799	3	1	213	1	0	0	0	0	1	0	0	0	7246	1115	39	1	1097	1	HMGCLL1	6	55443799	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	12251710	55443799	115671268	319	105756											
PHF3	23469	broad.mit.edu	37	chr6	64410356	64410356	+	Silent	SNP	T	C	C	0	1	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	agacgaagagaaaacagacaTgtaagattatctataaatat	21	9	7	4	1	1	4	0	0	1	4	1	6	1	4	0	0	1	1	0	0	9	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:64410356T>C	uc003pep.1	+	8	3125	c.3099T>C	c.(3097-3099)CAT>CAC	p.H1033H	PHF3_uc010kah.1_Silent_p.H847H|PHF3_uc003pen.2_Silent_p.H945H|PHF3_uc011dxs.1_Silent_p.H302H	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	1033	TFIIS central.				multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			AAAACAGACATGTAAGATTAT	0.338													15	30					0	0	1	0	0		C	64410356	C	C	64410356	2	2	213	1	0	0	0	0	0	0	0	1	11855	1478	51	3		3	PHF3	6	64410356	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	8966557	64410356	106704711	320	105757											
KIAA1009	22832	broad.mit.edu	37	chr6	84925098	84925098	+	Frame_Shift_Del	DEL	A	-	-																															aagcctttctcaagcctggcAaaaaattgttctttctcctc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:84925098delA	uc010kbp.2	-	5	502	c.405delT	c.(403-405)TTTfs	p.F135fs	KIAA1009_uc003pkj.3_Frame_Shift_Del_p.F59fs|KIAA1009_uc003pkk.2_Frame_Shift_Del_p.F135fs	NM_014895	NP_055710	Q5TB80	QN1_HUMAN	KIAA1009 protein	135					cell division|mitosis	centrosome|nucleus|plasma membrane|spindle	protein binding			ovary(1)	1		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)		CAAGCCTGGCAAAAAATTGTT	0.368													7	14	---	---	---	---						.	-	84925098	-	-	84925098	7	5	213	1	0	1	0	1	0	0	0	0	8219	127	5	0	3898	0	KIAA1009	6	84925098	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	20514742	84925098	86189969	321	105758											
RNGTT	8732	broad.mit.edu	37	chr6	89616132	89616132	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacatatgaggaaaccagtgCgattgaagccatgagtacaa	16	7	10	8	1	0	3	0	3	0	0	0	5	0	4	2	1	4	1	2	1	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:89616132C>T	uc003pmr.2	-	5	615	c.395G>A	c.(394-396)CGC>CAC	p.R132H	RNGTT_uc003pms.2_Missense_Mutation_p.R132H|RNGTT_uc011dzu.1_Missense_Mutation_p.R72H|RNGTT_uc003pmt.2_Missense_Mutation_p.R132H	NM_003800	NP_003791	O60942	MCE1_HUMAN	RNA guanylyltransferase and 5'-phosphatase	132	TPase.				interspecies interaction between organisms|mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	GTP binding|mRNA guanylyltransferase activity|polynucleotide 5'-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			upper_aerodigestive_tract(1)	1		all_cancers(76;4.07e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;6.86e-05)		BRCA - Breast invasive adenocarcinoma(108;0.151)		GAAACCAGTGCGATTGAAGCC	0.323													7	26					0	0	1	0	0		T	89616132	T	T	89616132	3	4	213	1	0	0	0	0	1	0	0	0	13528	768	27	1	1446	1	RNGTT	6	89616132	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4691034	89616132	81498935	322	105759											
PNRC1	10957	broad.mit.edu	37	chr6	89793839	89793839	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctagtcactggatgggaaGcactgttgaaaattccaacc	12	10	9	10	0	1	1	1	1	0	0	3	3	3	3	3	2	2	2	3	2	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:89793839G>C	uc003pmv.2	+	2	1093	c.908G>C	c.(907-909)AGC>ACC	p.S303T	PNRC1_uc003pmx.2_Missense_Mutation_p.S118T	NM_006813	NP_006804	Q12796	PNRC1_HUMAN	proline-rich nuclear receptor coactivator 1	303					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding				0		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)		TGGATGGGAAGCACTGTTGAA	0.418										Multiple Myeloma(7;0.094)			30	50					0	0	1	0	0		C	89793839	C	C	89793839	3	2	213	1	0	0	0	0	1	0	0	0	12193	971	34	5	914	5	PNRC1	6	89793839	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	177707	89793839	81321228	323	105760											
MDN1	23195	broad.mit.edu	37	chr6	90461182	90461182	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	actcggactatatctctcagGttcagcttcacagaagatgt	11	12	8	10	1	4	2	3	0	1	2	6	3	4	3	0	2	1	2	0	2	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:90461182G>C	uc003pnn.1	-	23	3311	c.3195C>G	c.(3193-3195)AAC>AAG	p.N1065K	MDN1_uc003pno.1_Missense_Mutation_p.N484K	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1065					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)|skin(2)	10		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)		BRCA - Breast invasive adenocarcinoma(108;0.0193)		TATCTCTCAGGTTCAGCTTCA	0.488													19	29					0	0	1	0	0		C	90461182	C	C	90461182	3	2	213	1	0	0	0	0	1	0	0	0	9433	1252	44	5	13915	5	MDN1	6	90461182	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	667343	90461182	80653885	324	105761											
BACH2	60468	broad.mit.edu	37	chr6	90647937	90647937	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcgctgggccgcgatgcGgttcttgctgcgccgtcgga	3	8	17	13	7	1	0	0	0	1	0	2	2	1	1	2	3	4	4	2	3	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:90647937G>A	uc011eab.1	-	8	2778	c.1969C>T	c.(1969-1971)CGC>TGC	p.R657C	BACH2_uc003pnw.2_Missense_Mutation_p.R657C	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	657	Basic motif.					nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		GCCGCGATGCGGTTCTTGCTG	0.453													32	54					0	0	1	0	0		A	90647937	A	A	90647937	3	1	213	1	0	0	0	0	1	0	0	0	1285	1116	39	1	564	1	BACH2	6	90647937	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	186755	90647937	80467130	325	105762											
SLC35F1	222553	broad.mit.edu	37	chr6	118228882	118228882	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgccgccgcgcctcagcctCtgccgcgatgatcccccctg	3	7	10	21	6	2	1	1	1	1	0	4	2	3	1	8	0	2	0	8	0	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:118228882C>A	uc003pxx.3	+	1	194	c.-7C>A	c.(-9--5)CTCTG>CTATG			NM_001029858	NP_001025029	Q5T1Q4	S35F1_HUMAN	solute carrier family 35, member F1						transport	integral to membrane				breast(1)	1				GBM - Glioblastoma multiforme(226;0.217)		GCCTCAGCCTCTGCCGCGATG	0.637													8	6					1.12685e-05	1.16908e-05	1	1	0		A	118228882	A	A	118228882	1	1	213	1	0	0	0	0	0	0	0	0	14613	928	32	5		5	SLC35F1	6	118228882	Translation_Start_Site	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	27580945	118228882	52886185	326	105763											
FAM184A	79632	broad.mit.edu	37	chr6	119345439	119345439	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcaagtcttagctcctcaagCattttgtttagggactccac	9	14	7	11	0	3	0	2	0	1	0	5	1	5	1	2	1	2	3	2	1	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:119345439C>T	uc003pyj.2	-	2	1047	c.699G>A	c.(697-699)ATG>ATA	p.M233I	FAM184A_uc003pyk.3_Missense_Mutation_p.M113I|FAM184A_uc003pyl.3_Missense_Mutation_p.M113I	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	233	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						GCTCCTCAAGCATTTTGTTTA	0.418													19	46					0	0	1	0	0		T	119345439	T	T	119345439	3	4	213	1	0	0	0	0	1	0	0	0	5522	710	25	2	2791	2	FAM184A	6	119345439	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1116557	119345439	51769628	327	105764											
IFNGR1	3459	broad.mit.edu	37	chr6	137540418	137540418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgcggtgcccatctcagccCtgctcacaccctgcatgaca	7	7	8	19	2	2	1	2	1	1	0	3	1	2	1	4	1	4	2	4	1	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:137540418C>T	uc003qho.2	-	1	150	c.47G>A	c.(46-48)AGG>AAG	p.R16K	IFNGR1_uc011edm.1_5'Flank|IFNGR1_uc011edn.1_5'UTR	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	16					regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	CATCTCAGCCCTGCTCACACC	0.697													11	13					0	0	1	0	0		T	137540418	T	T	137540418	3	4	213	1	0	0	0	0	1	0	0	0	7565	681	24	4	1450	4	IFNGR1	6	137540418	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	18194979	137540418	33574649	328	105765											
TNFAIP3	7128	broad.mit.edu	37	chr6	138199749	138199749	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggatgtaaaatgtgaaacGcccaactgccccttcttcat	12	11	7	11	1	2	1	1	1	1	0	2	2	2	2	3	1	3	1	3	1	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:138199749G>A	uc003qhr.2	+	7	1233	c.1167G>A	c.(1165-1167)ACG>ACA	p.T389T	TNFAIP3_uc003qhs.2_Silent_p.T389T	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	389	Interaction with NAF1 (By similarity).|A20-type 1.				anti-apoptosis|apoptosis|B-1 B cell homeostasis|negative regulation of B cell activation|negative regulation of bone resorption|negative regulation of CD40 signaling pathway|negative regulation of endothelial cell apoptosis|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of inflammatory response|negative regulation of interleukin-2 production|negative regulation of interleukin-6 production|negative regulation of NF-kappaB transcription factor activity|negative regulation of osteoclast proliferation|negative regulation of protein ubiquitination|negative regulation of smooth muscle cell proliferation|negative regulation of toll-like receptor 2 signaling pathway|negative regulation of toll-like receptor 3 signaling pathway|negative regulation of tumor necrosis factor production|negative regulation of type I interferon production|positive regulation of protein catabolic process|protein K48-linked ubiquitination|protein K63-linked deubiquitination|protein oligomerization|regulation of defense response to virus by host|regulation of germinal center formation|regulation of vascular wound healing|tolerance induction to lipopolysaccharide	centrosome|cytosol|nucleus	caspase inhibitor activity|DNA binding|protease binding|protein self-association|ubiquitin binding|ubiquitin thiolesterase activity|ubiquitin-protein ligase activity|ubiquitin-specific protease activity|zinc ion binding	p.0?(22)		haematopoietic_and_lymphoid_tissue(133)|lung(3)|ovary(1)	137	Breast(32;0.135)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000849)|OV - Ovarian serous cystadenocarcinoma(155;0.00468)		AATGTGAAACGCCCAACTGCC	0.527			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								6	120					0	0	1	0	0		A	138199749	A	A	138199749	2	1	213	1	0	0	0	0	0	0	0	1	16299	1074	38	1		1	TNFAIP3	6	138199749	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	659331	138199749	32915318	329	105766											
PERP	64065	broad.mit.edu	37	chr6	138417555	138417557	+	In_Frame_Del	DEL	GAA	-	-																															atctggggtccacagagggcGaagaaggagaggatgaaaca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:138417555_138417557delGAA	uc003qht.2	-	2	472_474	c.289_291delTTC	c.(289-291)TTCdel	p.F97del		NM_022121	NP_071404	Q96FX8	PERP_HUMAN	PERP, TP53 apoptosis effector	97	Helical; (Potential).				apoptosis|cell adhesion	desmosome|Golgi apparatus|integral to membrane|nucleus					0	Breast(32;0.0799)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000878)|OV - Ovarian serous cystadenocarcinoma(155;0.000997)		CACAGAGGGCGAAGAAGGAGAGG	0.498													10	17	---	---	---	---						.	-	138417557	-	-	138417555	7	5	213	1	0	1	0	1	0	0	0	0	11751	1049	37	0	298	0	PERP	6	138417555	In_Frame_Del	DEL	GAA	TCGA-HU-A4H3-01A-21D-A25D-08	217806	138417555	32697512	330	105767											
HIVEP2	3097	broad.mit.edu	37	chr6	143093660	143093660	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cagccatggcaaatccactcCtgactccttcctgcatctgc	8	10	6	17	0	1	1	0	1	1	0	5	1	5	1	5	1	3	2	5	1	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:143093660C>A	uc003qjd.2	-	5	2959	c.2216G>T	c.(2215-2217)AGG>ATG	p.R739M		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	739					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		AAATCCACTCCTGACTCCTTC	0.537													17	43					4.7546e-09	5.07801e-09	1	1	0		A	143093660	A	A	143093660	3	1	213	1	0	0	0	0	1	0	0	0	7203	681	24	5	5148	5	HIVEP2	6	143093660	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4676105	143093660	28021407	331	105768											
SASH1	23328	broad.mit.edu	37	chr6	148761499	148761499	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aatcttctctcgtaggagtcGcttggcttctgtagcgccgt	5	14	11	11	4	3	0	0	0	3	0	6	1	3	1	1	2	1	4	1	2	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:148761499G>A	uc003qme.1	+	4	817	c.342G>A	c.(340-342)TCG>TCA	p.S114S		NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	114							protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CGTAGGAGTCGCTTGGCTTCT	0.473													28	54					0	0	1	0	0		A	148761499	A	A	148761499	2	1	213	1	0	0	0	0	0	0	0	1	13873	1074	38	1		1	SASH1	6	148761499	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5667839	148761499	22353568	332	105769											
KATNA1	11104	broad.mit.edu	37	chr6	149916287	149916287	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctccatagttgtaggcatgTgcatttcttctttggaaaga	9	15	9	8	0	2	1	0	0	2	1	3	2	3	2	2	2	1	4	2	2	3	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:149916287T>C	uc003qmr.1	-	10	1406	c.1361A>G	c.(1360-1362)CAC>CGC	p.H454R	KATNA1_uc003qms.2_Missense_Mutation_p.H454R|KATNA1_uc003qmt.2_3'UTR	NM_007044	NP_008975	O75449	KTNA1_HUMAN	katanin p60 subunit A 1	454					cell division|interphase of mitotic cell cycle|mitosis	microtubule|microtubule organizing center|spindle pole	ATP binding|microtubule binding|microtubule-severing ATPase activity|protein heterodimerization activity			skin(1)	1		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;2.95e-12)|GBM - Glioblastoma multiforme(68;0.173)		TGTAGGCATGTGCATTTCTTC	0.403													21	46					0	0	1	0	0		C	149916287	C	C	149916287	3	2	213	1	0	0	0	0	1	0	0	0	8000	1696	59	3	118	3	KATNA1	6	149916287	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1154788	149916287	21198780	333	105770											
SYNE1	23345	broad.mit.edu	37	chr6	152621778	152621778	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgccaactgggaggtacctGgttaacagaagcatctgtat	12	10	11	8	0	1	1	0	0	1	1	1	2	1	2	2	3	5	4	2	3	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:152621778G>A	uc010kiw.2	-	93	18282	c.17680C>T	c.(17680-17682)CAG>TAG	p.Q5894*	SYNE1_uc010kiv.2_Nonsense_Mutation_p.Q418*|SYNE1_uc003qos.3_Nonsense_Mutation_p.Q418*|SYNE1_uc003qot.3_Nonsense_Mutation_p.Q5823*|SYNE1_uc003qou.3_Nonsense_Mutation_p.Q5894*|SYNE1_uc010kiy.1_Intron	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5894	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GGAGGTACCTGGTTAACAGAA	0.502										HNSCC(10;0.0054)			14	28					0	0	1	0	0		A	152621778	A	A	152621778	4	1	213	1	0	0	0	0	0	1	0	0	15470	1357	47	4	9002	4	SYNE1	6	152621778	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2705491	152621778	18493289	334	105771											
SYNE1	23345	broad.mit.edu	37	chr6	152640107	152640107	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tttgccggctgagttcctggCtcgtggccttgctctgctca	2	14	12	13	2	2	1	1	1	1	0	4	1	3	1	3	3	3	5	3	3	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:152640107C>A	uc010kiw.2	-	85	16882	c.16280G>T	c.(16279-16281)AGC>ATC	p.S5427I	SYNE1_uc010kiv.2_5'Flank|SYNE1_uc003qos.3_5'Flank|SYNE1_uc003qot.3_Missense_Mutation_p.S5356I|SYNE1_uc003qou.3_Missense_Mutation_p.S5427I|SYNE1_uc010kiz.2_Missense_Mutation_p.S1182I	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5427	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GAGTTCCTGGCTCGTGGCCTT	0.373										HNSCC(10;0.0054)			8	28					1.12685e-05	1.16908e-05	1	1	0		A	152640107	A	A	152640107	3	1	213	1	0	0	0	0	1	0	0	0	15470	797	28	5	10434	5	SYNE1	6	152640107	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	18329	152640107	18474960	335	105772											
ARID1B	57492	broad.mit.edu	37	chr6	157528046	157528046	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctgctggaggacgagcccaGgagccgagacgagactcctc	9	4	15	13	3	0	2	0	0	0	2	2	8	1	5	3	3	3	2	3	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:157528046G>T	uc003qqn.2	+	20	5869	c.5717G>T	c.(5716-5718)AGG>ATG	p.R1906M	ARID1B_uc003qqo.2_Missense_Mutation_p.R1866M|ARID1B_uc003qqp.2_Missense_Mutation_p.R1853M	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1911					chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		GACGAGCCCAGGAGCCGAGAC	0.557													9	127					5.4927e-09	5.85443e-09	1	1	0		T	157528046	T	T	157528046	3	4	213	1	0	0	0	0	1	0	0	0	914	1000	35	5	5849	5	ARID1B	6	157528046	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4887939	157528046	13587021	336	105773											
T	6862	broad.mit.edu	37	chr6	166580164	166580164	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagtgggccccgaagttgggCgagtcggggtggatgtagac	7	7	19	8	3	0	1	0	0	0	1	1	4	0	2	2	5	0	2	2	5	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr6:166580164C>T	uc003quu.1	-	3	880	c.387G>A	c.(385-387)TCG>TCA	p.S129S	T_uc003qut.1_Silent_p.S129S|T_uc003quv.1_Silent_p.S129S	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	129	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		CGAAGTTGGGCGAGTCGGGGT	0.657									Chordoma_Familial_Clustering_of				26	42					0	0	1	0	0		T	166580164	T	T	166580164	2	4	213	1	0	0	0	0	0	0	0	1	15513	755	27	1		1	T	6	166580164	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	9052118	166580164	4534903	337	105774											
FAM20C	56975	broad.mit.edu	37	chr7	195728	195728	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctcccagaggatcaccagCgtgggtaggtgtccttgggt	7	9	15	10	1	1	1	1	0	0	1	3	2	3	2	3	4	2	2	3	4	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:195728C>T	uc003sip.2	+	2	1011	c.780C>T	c.(778-780)AGC>AGT	p.S260S		NM_020223	NP_064608	Q8IXL6	DMP4_HUMAN	family with sequence similarity 20, member C	260						extracellular region					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.57e-17)|Epithelial(4;1.26e-16)|all cancers(6;4.79e-14)		GGATCACCAGCGTGGGTAGGT	0.612													46	18					0	0	1	0	0		T	195728	T	T	195728	2	4	213	1	0	0	0	0	0	0	0	1	5550	767	27	1		1	FAM20C	7	195728	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08		195728	158942935	338	105775											
SDK1	221935	broad.mit.edu	37	chr7	4273010	4273010	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtggtggctgtgaatgaggCgggctacggggagcccagca	7	6	20	8	2	0	2	0	2	0	0	0	3	0	3	1	7	3	3	1	7	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:4273010C>T	uc003smx.2	+	41	6090	c.5951C>T	c.(5950-5952)GCG>GTG	p.A1984V	SDK1_uc010kso.2_Missense_Mutation_p.A1240V|SDK1_uc003smy.2_Missense_Mutation_p.A471V|SDK1_uc003smz.2_Missense_Mutation_p.A44V	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1984	Fibronectin type-III 13.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GTGAATGAGGCGGGCTACGGG	0.622													46	24					0	0	1	0	0		T	4273010	T	T	4273010	3	4	213	1	0	0	0	0	1	0	0	0	13993	768	27	1	6113	1	SDK1	7	4273010	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4077282	4273010	154865653	339	105776											
RBAK	57786	broad.mit.edu	37	chr7	5105012	5105012	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaaacctcactgtccactAcagaagccattcaggagaga	14	7	8	12	0	3	2	3	0	0	2	4	4	4	3	3	1	3	0	3	1	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:5105012A>G	uc010kss.1	+	6	2249	c.1925A>G	c.(1924-1926)TAC>TGC	p.Y642C	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.Y642C	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	642	C2H2-type 14.|Interaction with AR.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		ACTGTCCACTACAGAAGCCAT	0.393													6	106					0	0	1	0	0		G	5105012	G	G	5105012	3	3	213	1	0	0	0	0	1	0	0	0	13125	391	14	3	1939	3	RBAK	7	5105012	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	832002	5105012	154033651	340	105777											
PHF14	9678	broad.mit.edu	37	chr7	11091407	11091407	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagattccgataagaaacacGgtagtttattttttatttat	14	17	6	4	2	0	2	0	0	0	2	1	3	1	2	1	1	1	2	1	1	7	10			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:11091407G>T	uc003sry.1	+	14	2916	c.2481G>T	c.(2479-2481)ACG>ACT	p.T827T	PHF14_uc011jxi.1_Silent_p.T542T|PHF14_uc003srz.2_Silent_p.T827T|PHF14_uc011jxj.1_Silent_p.T542T	NM_014660	NP_055475	O94880	PHF14_HUMAN	PHD finger protein 14 isoform 2	827							zinc ion binding			kidney(2)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.205)		TAAGAAACACGGTAGTTTATT	0.388													3	26					1	1	1	1	0		T	11091407	T	T	11091407	2	4	213	1	0	0	0	0	0	0	0	1	11844	1130	39	5		5	PHF14	7	11091407	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5986395	11091407	148047256	341	105778											
DGKB	1607	broad.mit.edu	37	chr7	14775710	14775710	+	Missense_Mutation	SNP	T	C	C	0	1	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	tttttaccattggactagaaTgaggaaacttgttgctaaat	13	15	8	5	0	0	2	0	1	0	1	0	4	0	4	1	2	3	2	1	2	6	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:14775710T>C	uc003ssz.2	-	4	465	c.278A>G	c.(277-279)CAT>CGT	p.H93R	DGKB_uc011jxt.1_Missense_Mutation_p.H86R|DGKB_uc003sta.2_Missense_Mutation_p.H93R|DGKB_uc011jxu.1_Missense_Mutation_p.H93R|DGKB_uc011jxv.1_Missense_Mutation_p.H93R	NM_004080	NP_004071	Q9Y6T7	DGKB_HUMAN	diacylglycerol kinase, beta isoform 1	93					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	cytoplasm|plasma membrane	ATP binding|calcium ion binding|diacylglycerol kinase activity|protein binding			lung(5)|ovary(4)|breast(2)|skin(1)	12					Phosphatidylserine(DB00144)	TGGACTAGAATGAGGAAACTT	0.353													4	13					0	0	1	0	0		C	14775710	C	C	14775710	3	2	213	1	0	0	0	0	1	0	0	0	4472	1464	51	3	2239	3	DGKB	7	14775710	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3684303	14775710	144362953	342	105779											
FAM126A	84668	broad.mit.edu	37	chr7	22985387	22985387	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agcagatgacgggttatgtgGgactgtgacaccactgactt	10	10	13	8	1	0	4	0	3	0	1	0	5	0	5	1	2	1	2	1	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:22985387G>T	uc003svm.3	-	11	1642	c.1387C>A	c.(1387-1389)CCA>ACA	p.P463T	FAM126A_uc003svn.3_3'UTR	NM_032581	NP_115970	Q9BYI3	HYCCI_HUMAN	family with sequence similarity 126, member A	463						cytoplasm|membrane	signal transducer activity			central_nervous_system(1)	1						GGGTTATGTGGGACTGTGACA	0.468													36	98					1.836e-18	2.05476e-18	1	1	0		T	22985387	T	T	22985387	3	4	213	1	0	0	0	0	1	0	0	0	5440	1232	43	5	182	5	FAM126A	7	22985387	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	8209677	22985387	136153276	343	105780											
C7orf31	136895	broad.mit.edu	37	chr7	25194757	25194757	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaggtggggaacatggcgccGcgacagatgtgtgtgtggta	9	8	18	6	3	0	1	0	0	0	1	0	3	0	2	1	5	1	1	1	5	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:25194757G>A	uc003sxn.1	-	6	1029	c.468C>T	c.(466-468)CGC>CGT	p.R156R	C7orf31_uc003sxm.1_5'UTR	NM_138811	NP_620166	Q8N865	CG031_HUMAN	hypothetical protein LOC136895	156											0						ACATGGCGCCGCGACAGATGT	0.502													19	77					0	0	1	0	0		A	25194757	A	A	25194757	2	1	213	1	0	0	0	0	0	0	0	1	2390	1074	38	1		1	C7orf31	7	25194757	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2209370	25194757	133943906	344	105781											
GHRHR	2692	broad.mit.edu	37	chr7	31014105	31014105	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggccttcgaggacatcgcGtgagtcggagcggccacctt	6	8	14	13	5	0	1	0	1	0	0	3	4	0	3	3	4	1	0	3	4	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:31014105G>A	uc003tbx.2	+	8	860	c.812_splice	c.e8+1	p.A271_splice	GHRHR_uc003tbw.1_Splice_Site_p.A271_splice|GHRHR_uc003tby.2_Splice_Site_p.A207_splice|GHRHR_uc003tbz.2_Splice_Site_p.R37_splice	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor						activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	AGGACATCGCGTGAGTCGGAG	0.617													51	42					0	0	1	0	0		A	31014105	A	A	31014105	5	1	213	1	0	0	0	0	0	0	1	0	6388	1159	40	1	843	1	GHRHR	7	31014105	Splice_Site	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5819348	31014105	128124558	345	105782											
FKBP9	11328	broad.mit.edu	37	chr7	33014804	33014804	+	Frame_Shift_Del	DEL	C	-	-																															taatttctagctggtgtgatCccccccaattcagtgcttca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:33014804delC	uc003tdh.2	+	3	559	c.378delC	c.(376-378)ATCfs	p.I126fs	AVL9_uc011kai.1_Intron|FKBP9_uc011kak.1_RNA|FKBP9_uc011kal.1_Frame_Shift_Del_p.I179fs|FKBP9_uc003tdg.2_Frame_Shift_Del_p.I126fs|FKBP9_uc010kwm.2_Frame_Shift_Del_p.I33fs	NM_007270	NP_009201	O95302	FKBP9_HUMAN	FK506 binding protein 9 precursor	126	PPIase FKBP-type 1.				protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|ovary(1)	14			GBM - Glioblastoma multiforme(11;0.0156)			CTGGTGTGATCCCCCCCAATT	0.443													26	48	---	---	---	---						.	-	33014804	-	-	33014804	7	5	213	1	0	1	0	1	0	0	0	0	5929	845	30	0	388	0	FKBP9	7	33014804	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	2000699	33014804	126123859	346	105783											
NT5C3	51251	broad.mit.edu	37	chr7	33055402	33055402	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctattgtcttttagttgattGaaatattctgtattcctcaa	10	20	5	6	0	3	2	1	2	2	0	4	2	4	2	1	0	0	2	1	0	6	10			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:33055402G>A	uc003tdk.2	-	8	866	c.789C>T	c.(787-789)TTC>TTT	p.F263F	AVL9_uc011kai.1_Intron|NT5C3_uc003tdi.2_Silent_p.F224F|NT5C3_uc003tdj.2_Silent_p.F224F	NM_001002010	NP_001002010	Q9H0P0	5NT3_HUMAN	5'-nucleotidase, cytosolic III isoform 1	263					nucleotide metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol|endoplasmic reticulum	2'-phosphotransferase activity|5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1			GBM - Glioblastoma multiforme(11;0.0894)			TTAGTTGATTGAAATATTCTG	0.353													19	54					0	0	1	0	0		A	33055402	A	A	33055402	2	1	213	1	0	0	0	0	0	0	0	1	10707	1281	45	4		4	NT5C3	7	33055402	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	40598	33055402	126083261	347	105784											
BBS9	27241	broad.mit.edu	37	chr7	33545232	33545232	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctggaagcggcatttctgcCgctacaagaagacactcaag	12	8	10	11	2	3	2	1	0	2	2	3	3	3	3	1	2	3	2	1	2	5	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:33545232C>T	uc003tdn.1	+	20	2786	c.2273C>T	c.(2272-2274)CCG>CTG	p.P758L	BBS9_uc003tdo.1_Missense_Mutation_p.P723L|BBS9_uc003tdp.1_Missense_Mutation_p.P753L|BBS9_uc003tdq.1_Missense_Mutation_p.P718L|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Missense_Mutation_p.P282L|BBS9_uc003tds.1_Missense_Mutation_p.P181L|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	758					fat cell differentiation|response to stimulus|visual perception	BBSome|cilium membrane|microtubule organizing center|nucleus	protein binding			ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5			GBM - Glioblastoma multiforme(11;0.0894)			GCATTTCTGCCGCTACAAGAA	0.498									Bardet-Biedl_syndrome				31	39					0	0	1	0	0		T	33545232	T	T	33545232	3	4	213	1	0	0	0	0	1	0	0	0	1343	652	23	1	2347	1	BBS9	7	33545232	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	489830	33545232	125593431	348	105785											
EEPD1	80820	broad.mit.edu	37	chr7	36194050	36194050	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	attctagtgaatcaggagcgGctcaacatcaacactgccac	13	8	8	12	1	4	1	3	1	1	0	4	2	4	2	1	2	4	1	1	2	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:36194050G>A	uc003tfa.2	+	2	757	c.117G>A	c.(115-117)CGG>CGA	p.R39R		NM_030636	NP_085139	Q7L9B9	EEPD1_HUMAN	endonuclease/exonuclease/phosphatase family	39	HhH.				DNA repair		DNA binding				0						ATCAGGAGCGGCTCAACATCA	0.607													40	140					0	0	1	0	0		A	36194050	A	A	36194050	2	1	213	1	0	0	0	0	0	0	0	1	4938	1190	42	2		2	EEPD1	7	36194050	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2648818	36194050	122944613	349	105786											
AMPH	273	broad.mit.edu	37	chr7	38433753	38433753	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cctctgcttcctctcctgggGccccctcagctgctgacacc	3	10	8	20	0	3	1	1	1	2	0	5	1	4	1	6	2	3	3	6	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:38433753G>A	uc003tgu.2	-	18	1529	c.1460C>T	c.(1459-1461)GCC>GTC	p.A487V	AMPH_uc003tgv.2_Missense_Mutation_p.A445V|AMPH_uc003tgt.2_Missense_Mutation_p.A372V|AMPH_uc003tgw.1_Missense_Mutation_p.A510V|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	487					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						CTCTCCTGGGGCCCCCTCAGC	0.577													15	120					0	0	1	0	0		A	38433753	A	A	38433753	3	1	213	1	0	0	0	0	1	0	0	0	588	1203	42	2	643	2	AMPH	7	38433753	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2239703	38433753	120704910	350	105787											
GLI3	2737	broad.mit.edu	37	chr7	42116409	42116409	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	acggccctcatgatgtctggCatcaattggtacaggaggat	10	10	12	9	1	3	1	2	1	1	0	3	3	3	3	1	5	1	2	1	5	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:42116409C>T	uc011kbh.1	-	4	506	c.415G>A	c.(415-417)GCC>ACC	p.A139T	GLI3_uc011kbg.1_Missense_Mutation_p.A80T	NM_000168	NP_000159	P10071	GLI3_HUMAN	GLI-Kruppel family member GLI3	139					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			lung(11)|ovary(3)|large_intestine(2)|central_nervous_system(1)|kidney(1)|pancreas(1)	19						TGATGTCTGGCATCAATTGGT	0.413									Greig_Cephalopolysyndactyly|Pallister-Hall_syndrome				9	50					0	0	1	0	0		T	42116409	T	T	42116409	3	4	213	1	0	0	0	0	1	0	0	0	6454	710	25	2	4375	2	GLI3	7	42116409	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3682656	42116409	117022254	351	105788											
NUDCD3	23386	broad.mit.edu	37	chr7	44425629	44425629	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attaaaactgcacagcccccGgggagatgttgaacatggca	13	7	11	10	1	0	2	0	1	0	1	0	3	0	2	2	3	4	3	2	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:44425629G>A	uc003tkz.2	-	6	1253	c.1067C>T	c.(1066-1068)CCG>CTG	p.P356L	NUDCD3_uc010kye.2_RNA	NM_015332	NP_056147	Q8IVD9	NUDC3_HUMAN	NudC domain containing 3	356											0						CACAGCCCCCGGGGAGATGTT	0.562													23	52					0	0	1	0	0		A	44425629	A	A	44425629	3	1	213	1	0	0	0	0	1	0	0	0	10743	1116	39	1	22	1	NUDCD3	7	44425629	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2309220	44425629	114713034	352	105789											
NPC1L1	29881	broad.mit.edu	37	chr7	44576448	44576448	+	Frame_Shift_Del	DEL	C	-	-																															ccacttagcttacctttgtaCcccccaatggcaaggaaggg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:44576448delC	uc003tlb.2	-	3	1730	c.1674delG	c.(1672-1674)GGGfs	p.G558fs	NPC1L1_uc003tlc.2_Frame_Shift_Del_p.G558fs|NPC1L1_uc011kbw.1_Frame_Shift_Del_p.G558fs|NPC1L1_uc003tld.2_Frame_Shift_Del_p.G558fs	NM_013389	NP_037521	Q9UHC9	NPCL1_HUMAN	Niemann-Pick C1-like protein 1 isoform 1	558	Extracellular (Potential).				cholesterol biosynthetic process|intestinal cholesterol absorption|lipoprotein metabolic process	apical plasma membrane|cytoplasmic vesicle membrane|integral to membrane	hedgehog receptor activity|protein binding			ovary(3)|central_nervous_system(1)|skin(1)	5					Ezetimibe(DB00973)	TACCTTTGTACCCCCCAATGG	0.602													26	39	---	---	---	---						.	-	44576448	-	-	44576448	7	5	213	1	0	1	0	1	0	0	0	0	10590	494	18	0	2477	0	NPC1L1	7	44576448	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	150819	44576448	114562215	353	105790											
MYO1G	64005	broad.mit.edu	37	chr7	45015133	45015133	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccgatcgggtcccccttgaAgtcaaagttgatgtccatgt	8	12	10	11	2	1	2	1	2	0	0	5	3	4	2	4	1	0	1	4	1	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:45015133A>C	uc003tmh.2	-	4	658	c.514T>G	c.(514-516)TTC>GTC	p.F172V	MYO1G_uc003tmg.2_5'Flank|MYO1G_uc010kym.2_Missense_Mutation_p.F57V|MYO1G_uc003tmi.1_Missense_Mutation_p.F84V|MYO1G_uc003tmj.2_5'UTR	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	172	Myosin head-like.					myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						TCCCCCTTGAAGTCAAAGTTG	0.597													31	22					0	0	1	0	0		C	45015133	C	C	45015133	3	2	213	1	0	0	0	0	1	0	0	0	10092	72	3	5	2618	5	MYO1G	7	45015133	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	438685	45015133	114123530	354	105791											
TNS3	64759	broad.mit.edu	37	chr7	47344520	47344520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgtcgaggacgcatcagccCggagcatcgtggatttgggt	7	8	16	10	5	1	0	1	0	0	0	3	4	1	3	1	4	2	2	1	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:47344520C>T	uc003tnv.2	-	21	3099	c.2732G>A	c.(2731-2733)CGG>CAG	p.R911Q	TNS3_uc003tnw.2_Missense_Mutation_p.R911Q	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	911						focal adhesion	protein binding			ovary(4)	4						CGCATCAGCCCGGAGCATCGT	0.587													9	32					0	0	1	0	0		T	47344520	T	T	47344520	3	4	213	1	0	0	0	0	1	0	0	0	16369	652	23	1	1649	1	TNS3	7	47344520	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2329387	47344520	111794143	355	105792											
PKD1L1	168507	broad.mit.edu	37	chr7	47944770	47944770	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgaccattgggggatgctgaGtctttttttaatgcttcttg	6	18	11	6	0	2	2	0	2	2	0	2	3	2	3	1	2	2	2	1	2	1	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:47944770G>A	uc003tny.1	-	11	1675	c.1675C>T	c.(1675-1677)CTC>TTC	p.L559F		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	559	Extracellular (Potential).|PKD 1.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GGGATGCTGAGTCTTTTTTTA	0.443													49	31					0	0	1	0	0		A	47944770	A	A	47944770	3	1	213	1	0	0	0	0	1	0	0	0	11983	1029	36	4	7062	4	PKD1L1	7	47944770	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	600250	47944770	111193893	356	105793											
ABCA13	154664	broad.mit.edu	37	chr7	48313025	48313025	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cttaacttggagcaagtggaGaaatcccttttcaccatgga	12	11	9	9	0	1	1	1	0	0	1	2	4	2	3	2	3	2	1	2	3	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:48313025G>T	uc003toq.2	+	17	3787	c.3762G>T	c.(3760-3762)GAG>GAT	p.E1254D	ABCA13_uc010kyr.2_Missense_Mutation_p.E757D	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1254					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AGCAAGTGGAGAAATCCCTTT	0.388													8	25					1.06961e-07	1.12749e-07	1	1	0		T	48313025	T	T	48313025	3	4	213	1	0	0	0	0	1	0	0	0	31	933	33	5	3657	5	ABCA13	7	48313025	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	368255	48313025	110825638	357	105794											
ABCA13	154664	broad.mit.edu	37	chr7	48335320	48335320	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attgaaaagatatggtcctcGccgaatcagctaaattgtga	14	11	9	7	2	1	3	1	2	0	1	3	4	2	3	2	1	1	1	2	1	6	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:48335320G>A	uc003toq.2	+	21	9004	c.8979G>A	c.(8977-8979)TCG>TCA	p.S2993S	ABCA13_uc010kys.1_Silent_p.S67S	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	2993					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TATGGTCCTCGCCGAATCAGC	0.388													69	77					0	0	1	0	0		A	48335320	A	A	48335320	2	1	213	1	0	0	0	0	0	0	0	1	31	1074	38	1		1	ABCA13	7	48335320	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	22295	48335320	110803343	358	105795											
ABCA13	154664	broad.mit.edu	37	chr7	48654889	48654890	+	Frame_Shift_Ins	INS	-	GT	GT																															cttctttacagcatggaggaINSgtgtgaggctctttgcacaa																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:48654889_48654890insGT	uc003toq.2	+	59	14778_14779	c.14753_14754insGT	c.(14752-14754)GAGfs	p.E4918fs	ABCA13_uc010kys.1_Frame_Shift_Ins_p.E1993fs|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Frame_Shift_Ins_p.E648fs	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4918	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						AGCATGGAGGAGTGTGAGGCTC	0.436													5	3	---	---	---	---						.	GT	48654890	GT	GT	48654889	7	5	213	1	0	1	1	0	0	0	0	0	31	304	11	0	14816	0	ABCA13	7	48654889	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	319569	48654889	110483774	359	105796											
GTF2IRD1	9569	broad.mit.edu	37	chr7	74005272	74005272	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccttccggaaccccaacacGtacgacatccaccggctgga	10	5	8	18	4	0	0	0	0	0	0	2	3	2	2	6	3	3	2	6	3	3	2	rs113892752		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:74005272G>A	uc003uaq.2	+	24	2955	c.2562G>A	c.(2560-2562)ACG>ACA	p.T854T	GTF2IRD1_uc010lbq.2_Silent_p.T871T|GTF2IRD1_uc003uap.2_Silent_p.T839T|GTF2IRD1_uc003uar.1_Silent_p.T839T	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	854	GTF2I-like 5.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						ACCCCAACACGTACGACATCC	0.612													29	87					0	0	1	0	0		A	74005272	A	A	74005272	2	1	213	1	0	0	0	0	0	0	0	1	6884	1132	40	1		1	GTF2IRD1	7	74005272	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	25350383	74005272	85133391	360	105797											
HIP1	3092	broad.mit.edu	37	chr7	75189089	75189089	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtgtcctcccgctgcctcCtgagctcgtccagttctgcc	2	11	10	18	3	1	1	0	1	1	0	6	1	5	1	6	1	3	3	6	1	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:75189089C>A	uc003uds.1	-	14	1363	c.1322G>T	c.(1321-1323)AGG>ATG	p.R441M	HIP1_uc011kfz.1_Missense_Mutation_p.R318M	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	441	Potential.|pDED.				activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						CCGCTGCCTCCTGAGCTCGTC	0.493			T	PDGFRB	CMML								12	44					0.00185496	0.00188908	1	1	0		A	75189089	A	A	75189089	3	1	213	1	0	0	0	0	1	0	0	0	7130	681	24	5	1863	5	HIP1	7	75189089	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1183817	75189089	83949574	361	105798											
PCLO	27445	broad.mit.edu	37	chr7	82390055	82390055	+	Frame_Shift_Del	DEL	T	-	-																															ttgtttttttcttgatcaccTttttttgggtagaaatattc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:82390055delT	uc003uhx.2	-	24	15477	c.15188delA	c.(15187-15189)AAGfs	p.K5063fs		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4986	C2 2.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CTTGATCACCTTTTTTTGGGT	0.313													24	27	---	---	---	---						.	-	82390055	-	-	82390055	7	5	213	1	0	1	0	1	0	0	0	0	11602	1609	56	0	248	0	PCLO	7	82390055	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	7200966	82390055	76748608	362	105799											
SEMA3A	10371	broad.mit.edu	37	chr7	83823851	83823851	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	attctgatagtttgctcttgCtgtaagtaatactccccaga	10	15	7	9	0	2	2	0	1	2	1	3	2	3	2	2	0	3	5	2	0	4	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:83823851C>T	uc003uhz.2	-	1	367	c.52G>A	c.(52-54)GCA>ACA	p.A18T		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	18					axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TTTGCTCTTGCTGTAAGTAAT	0.393													24	187					0	0	1	0	0		T	83823851	T	T	83823851	3	4	213	1	0	0	0	0	1	0	0	0	14049	797	28	2	2331	2	SEMA3A	7	83823851	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1433796	83823851	75314812	363	105800											
DBF4	10926	broad.mit.edu	37	chr7	87507389	87507389	+	Frame_Shift_Del	DEL	A	-	-																															tggaatccaagtcaaaaatgAaaaaaacagaccatctctga																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:87507389delA	uc003ujf.1	+	2	572	c.68delA	c.(67-69)GAAfs	p.E23fs	SLC25A40_uc003uje.2_5'Flank|DBF4_uc003ujh.1_5'UTR|DBF4_uc003ujg.1_5'UTR|DBF4_uc011khf.1_5'UTR	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	23					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				GTCAAAAATGAAAAAAACAGA	0.299													75	99	---	---	---	---						.	-	87507389	-	-	87507389	7	5	213	1	0	1	0	1	0	0	0	0	4251	246	9	0	74	0	DBF4	7	87507389	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	3683538	87507389	71631274	364	105801											
CLDN12	9069	broad.mit.edu	37	chr7	90042232	90042232	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtactcatcagttgaccagcTggacctgcgtgtcctccagt	7	11	10	13	1	2	1	2	1	0	0	4	2	4	2	4	1	3	3	4	1	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:90042232T>C	uc003ukp.2	+	5	878	c.242T>C	c.(241-243)CTG>CCG	p.L81P	CLDN12_uc003ukq.2_Missense_Mutation_p.L81P|CLDN12_uc010leq.2_Missense_Mutation_p.L81P|CLDN12_uc003ukr.2_Missense_Mutation_p.L81P|CLDN12_uc003uks.2_Missense_Mutation_p.L81P	NM_012129	NP_036261	P56749	CLD12_HUMAN	claudin 12	81	Extracellular (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						GTTGACCAGCTGGACCTGCGT	0.562													53	174					0	0	1	0	0		C	90042232	C	C	90042232	3	2	213	1	0	0	0	0	1	0	0	0	3477	1580	55	3	244	3	CLDN12	7	90042232	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2534843	90042232	69096431	365	105802											
CASD1	64921	broad.mit.edu	37	chr7	94163028	94163028	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caatggtagcagtgaagcgcTttctcaatataaaatgaaca	16	10	8	7	1	1	2	1	2	1	0	2	2	1	2	0	1	3	3	0	1	8	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:94163028T>C	uc003uni.3	+	7	769	c.542T>C	c.(541-543)CTT>CCT	p.L181P	CASD1_uc003unh.2_Missense_Mutation_p.L181P|CASD1_uc003unj.3_Missense_Mutation_p.L181P	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	181						integral to membrane				ovary(2)	2	all_cancers(62;6.71e-10)|all_epithelial(64;5e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			AGTGAAGCGCTTTCTCAATAT	0.313													33	46					0	0	1	0	0		C	94163028	C	C	94163028	3	2	213	1	0	0	0	0	1	0	0	0	2667	1609	56	3	568	3	CASD1	7	94163028	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4120796	94163028	64975635	366	105803											
LMTK2	22853	broad.mit.edu	37	chr7	97821424	97821424	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cacaacctttctgttggaagCgactattatatccagttaga	12	13	7	9	1	1	1	0	0	1	1	2	3	2	2	2	1	2	2	2	1	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:97821424C>T	uc003upd.1	+	11	1940	c.1647C>T	c.(1645-1647)AGC>AGT	p.S549S		NM_014916	NP_055731	Q8IWU2	LMTK2_HUMAN	lemur tyrosine kinase 2 precursor	549					early endosome to late endosome transport|endocytic recycling|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation|receptor recycling|transferrin transport	early endosome|Golgi apparatus|integral to membrane|perinuclear region of cytoplasm|recycling endosome	ATP binding|myosin VI binding|protein phosphatase inhibitor activity|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(9)|stomach(3)|pancreas(2)|large_intestine(1)|breast(1)	16	all_cancers(62;3.23e-09)|all_epithelial(64;7.65e-10)|Lung NSC(181;0.00902)|all_lung(186;0.0104)|Esophageal squamous(72;0.0125)					CTGTTGGAAGCGACTATTATA	0.502													29	81					0	0	1	0	0		T	97821424	T	T	97821424	2	4	213	1	0	0	0	0	0	0	0	1	8876	767	27	1		1	LMTK2	7	97821424	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3658396	97821424	61317239	367	105804											
BAIAP2L1	55971	broad.mit.edu	37	chr7	97984432	97984432	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtagtaggcttttcctgccaGgatcatagctagacacaaaa	13	10	9	9	0	1	1	1	0	0	1	2	2	2	2	2	2	2	4	2	2	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:97984432G>A	uc003upj.2	-	3	399	c.136C>T	c.(136-138)CTG>TTG	p.L46L		NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1	46	IMD.				filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			TTTCCTGCCAGGATCATAGCT	0.498													19	27					0	0	1	0	0		A	97984432	A	A	97984432	2	1	213	1	0	0	0	0	0	0	0	1	1303	991	35	4		4	BAIAP2L1	7	97984432	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	163008	97984432	61154231	368	105805											
CYP3A7	1551	broad.mit.edu	37	chr7	99308406	99308406	+	Silent	SNP	A	G	G	1	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	tgcactttctgctggacatcAgggtgagtggccagttcata	8	12	12	9	0	3	1	2	1	1	0	3	2	3	2	1	3	2	3	1	3	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:99308406A>G	uc003uru.2	-	10	1080	c.975T>C	c.(973-975)CCT>CCC	p.P325P	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	325					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					GCTGGACATCAGGGTGAGTGG	0.443													40	28					0	0	1	0	0		G	99308406	G	G	99308406	2	3	213	1	0	0	0	0	0	0	0	1	4184	175	7	3		3	CYP3A7	7	99308406	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1323974	99308406	59830257	369	105806											
MCM7	4176	broad.mit.edu	37	chr7	99695354	99695354	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gattgaagctgccagcttttCgtagaaatcctcctctgtag	9	13	9	10	1	1	2	0	1	1	1	4	3	3	2	3	0	3	4	3	0	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:99695354C>T	uc003usw.1	-	9	1510	c.1000G>A	c.(1000-1002)GAA>AAA	p.E334K	MCM7_uc003usv.1_Missense_Mutation_p.E158K|MCM7_uc003usx.1_Missense_Mutation_p.E158K	NM_005916	NP_005907	P33993	MCM7_HUMAN	minichromosome maintenance complex component 7	334	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of phosphorylation|response to DNA damage stimulus|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|protein binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)				Atorvastatin(DB01076)	GCCAGCTTTTCGTAGAAATCC	0.507													8	230					0	0	1	0	0		T	99695354	T	T	99695354	3	4	213	1	0	0	0	0	1	0	0	0	9410	893	31	1	1187	1	MCM7	7	99695354	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	386948	99695354	59443309	370	105807											
TAF6	6878	broad.mit.edu	37	chr7	99706053	99706053	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcagcctgggcccgagcCttgaccacctgggagcagag	9	4	15	13	1	0	3	0	1	0	2	0	5	0	4	5	2	4	2	5	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:99706053C>T	uc003uti.2	-	13	1476	c.1395G>A	c.(1393-1395)AAG>AAA	p.K465K	AP4M1_uc003utd.2_Intron|TAF6_uc003utg.2_Silent_p.K387K|TAF6_uc003uth.2_Silent_p.K522K|TAF6_uc003utk.2_Silent_p.K465K|TAF6_uc011kji.1_Silent_p.K502K|TAF6_uc003utj.2_Silent_p.K455K|TAF6_uc003utl.2_Silent_p.K465K|TAF6_uc003utm.2_Silent_p.K465K	NM_139315	NP_647476	P49848	TAF6_HUMAN	TBP-associated factor 6 isoform alpha	465					negative regulation of cell cycle|negative regulation of cell proliferation|regulation of sequence-specific DNA binding transcription factor activity|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGGCCCGAGCCTTGACCACCT	0.647													77	76					0	0	1	0	0		T	99706053	T	T	99706053	2	4	213	1	0	0	0	0	0	0	0	1	15555	680	24	4		4	TAF6	7	99706053	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	10699	99706053	59432610	371	105808											
TSC22D4	81628	broad.mit.edu	37	chr7	100064709	100064709	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctccagcgcagcgttcCgctccgccaattcccggatc	5	8	9	19	5	0	0	0	0	0	0	5	1	4	1	6	1	3	4	6	1	1	2	rs143908452		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:100064709C>T	uc003uva.2	-	5	1816	c.1061G>A	c.(1060-1062)CGG>CAG	p.R354Q	C7orf61_uc003uuz.1_5'Flank|TSC22D4_uc003uvb.2_Missense_Mutation_p.R115Q|TSC22D4_uc011kjv.1_Missense_Mutation_p.R115Q|TSC22D4_uc010lgx.2_Missense_Mutation_p.R354Q	NM_030935	NP_112197	Q9Y3Q8	T22D4_HUMAN	TSC22 domain family, member 4	354	Leucine-zipper.				negative regulation of transcription, DNA-dependent	nucleus	protein binding|sequence-specific DNA binding transcription factor activity			breast(2)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CGCAGCGTTCCGCTCCGCCAA	0.697													16	38					0	0	1	0	0		T	100064709	T	T	100064709	3	4	213	1	0	0	0	0	1	0	0	0	16636	652	23	1	130	1	TSC22D4	7	100064709	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	358656	100064709	59073954	372	105809											
PCOLCE	5118	broad.mit.edu	37	chr7	100201580	100201580	+	Splice_Site	SNP	A	G	G	1	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	ccgcctctgtccccgctatcAggtccccgagggccagactg	5	7	11	18	3	2	1	1	0	1	1	4	2	4	1	7	2	0	1	7	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:100201580A>G	uc003uvo.2	+	3	403	c.205_splice	c.e3-2	p.V69_splice	uc011kjy.1_RNA|PCOLCE_uc011kkb.1_Splice_Site_p.V69_splice|PCOLCE_uc010lhb.1_Intron|PCOLCE_uc003uvp.1_5'Flank	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer						multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					CCCCGCTATCAGGTCCCCGAG	0.647													38	55					0	0	1	0	0		G	100201580	G	G	100201580	5	3	213	1	0	0	0	0	0	0	1	0	11613	202	7	3	213	3	PCOLCE	7	100201580	Splice_Site	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	136871	100201580	58937083	373	105810											
ZAN	7455	broad.mit.edu	37	chr7	100369603	100369603	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tacgcgtccctgtgtgcccaGgctggccaggcccctgcctg	3	8	13	17	2	0	0	0	0	0	0	1	0	1	0	6	3	3	1	6	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:100369603G>T	uc003uwj.2	+	29	5550	c.5385G>T	c.(5383-5385)CAG>CAT	p.Q1795H	ZAN_uc003uwk.2_Missense_Mutation_p.Q1795H|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kkd.1_Missense_Mutation_p.Q372H|ZAN_uc011kke.1_5'Flank	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	1795	Extracellular (Potential).				binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)|large_intestine(3)|central_nervous_system(2)|pancreas(2)	11	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			TGTGTGCCCAGGCTGGCCAGG	0.652													9	36					0.0477658	0.0479939	1	1	0		T	100369603	T	T	100369603	3	4	213	1	0	0	0	0	1	0	0	0	17539	991	35	5	5495	5	ZAN	7	100369603	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	168023	100369603	58769060	374	105811											
ACHE	43	broad.mit.edu	37	chr7	100489954	100489954	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctctccctctgcactgctgaCcctgtgcgggcaaagttggc	5	10	11	15	1	2	1	0	1	2	0	3	1	2	1	2	2	3	4	2	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:100489954C>T	uc003uxd.2	-	2	1709	c.1553_splice	c.e2+1	p.G518_splice	UFSP1_uc003uxc.3_5'Flank|ACHE_uc003uxe.2_Splice_Site_p.G518_splice|ACHE_uc003uxf.2_Splice_Site_p.G518_splice|ACHE_uc003uxg.2_Splice_Site_p.G518_splice|ACHE_uc003uxh.2_Splice_Site_p.G430_splice|ACHE_uc003uxi.2_Splice_Site_p.G518_splice	NM_000665	NP_000656	P22303	ACES_HUMAN	acetylcholinesterase isoform E4-E6 precursor						acetylcholine catabolic process in synaptic cleft|amyloid precursor protein metabolic process|cell adhesion|cell proliferation|choline metabolic process|DNA replication|muscle organ development|neurotransmitter biosynthetic process|osteoblast development|positive regulation of protein secretion|regulation of axonogenesis|regulation of dendrite morphogenesis|response to wounding|synapse assembly	anchored to membrane|axon|basal lamina|cell junction|cell surface|dendrite|endoplasmic reticulum lumen|extracellular space|Golgi apparatus|neuromuscular junction|nucleus|perinuclear region of cytoplasm|postsynaptic membrane|presynaptic membrane|synaptic cleft	acetylcholine binding|acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|collagen binding|laminin-1 binding|protein homodimerization activity|serine hydrolase activity			skin(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)				Ambenonium(DB01122)|Atropine(DB00572)|Choline(DB00122)|Decamethonium(DB01245)|Demecarium bromide(DB00944)|Donepezil(DB00843)|Edrophonium(DB01010)|Ephedrine(DB01364)|Galantamine(DB00674)|Gallamine Triethiodide(DB00483)|Isoflurophate(DB00677)|Neostigmine(DB01400)|Physostigmine(DB00981)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Tacrine(DB00382)|Tubocurarine(DB01199)	GCACTGCTGACCCTGTGCGGG	0.607													13	51					0	0	1	0	0		T	100489954	T	T	100489954	5	4	213	1	0	0	0	0	0	0	1	0	141	521	18	4	437	4	ACHE	7	100489954	Splice_Site	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	120351	100489954	58648709	375	105812											
MUC17	140453	broad.mit.edu	37	chr7	100682687	100682687	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgttgacaccaggacacttGtgaccacttccactggaacc	10	9	8	14	0	0	2	0	2	0	0	1	4	1	4	4	2	1	1	4	2	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:100682687G>A	uc003uxp.1	+	3	8043	c.7990G>A	c.(7990-7992)GTG>ATG	p.V2664M	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2664	Extracellular (Potential).|43.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CAGGACACTTGTGACCACTTC	0.463													15	429					0	0	1	0	0		A	100682687	A	A	100682687	3	1	213	1	0	0	0	0	1	0	0	0	9992	1377	48	4	8000	4	MUC17	7	100682687	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	192733	100682687	58455976	376	105813											
PLOD3	8985	broad.mit.edu	37	chr7	100853686	100853686	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctggaagtggccaggagccGgccaaattcatgctgattgc	9	9	13	10	1	2	1	1	1	1	0	2	3	2	3	3	4	3	1	3	4	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:100853686G>A	uc003uyd.2	-	14	1996	c.1540C>T	c.(1540-1542)CGG>TGG	p.R514W	PLOD3_uc010lhs.2_Missense_Mutation_p.R79W	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	514					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	GCCAGGAGCCGGCCAAATTCA	0.637													21	23					0	0	1	0	0		A	100853686	A	A	100853686	3	1	213	1	0	0	0	0	1	0	0	0	12122	1115	39	1	700	1	PLOD3	7	100853686	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	170999	100853686	58284977	377	105814											
LHFPL3	375612	broad.mit.edu	37	chr7	103969672	103969672	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctggatgcagctcacctccGgtgagtgcgcgctcacctcc	5	8	11	17	3	2	1	2	1	0	0	4	2	4	2	5	2	3	3	5	2	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:103969672G>A	uc003vce.2	+	1	569	c.445G>A	c.(445-447)GCT>ACT	p.A149T	LHFPL3_uc003vcf.2_Missense_Mutation_p.A149T	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	135	Helical; (Potential).					integral to membrane					0						GCTCACCTCCGGTGAGTGCGC	0.647													23	69					0	0	1	0	0		A	103969672	A	A	103969672	3	1	213	1	0	0	0	0	1	0	0	0	8782	1130	39	1	447	1	LHFPL3	7	103969672	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3115986	103969672	55168991	378	105815											
SRPK2	6733	broad.mit.edu	37	chr7	104773469	104773469	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacccaacaagcatttccCaggtcagcaatttttactct	12	11	4	14	0	2	0	1	0	1	0	3	0	3	0	3	1	4	2	3	1	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:104773469C>A	uc003vct.2	-	11	1780	c.1593G>T	c.(1591-1593)CTG>CTT	p.L531L	SRPK2_uc003vcu.2_Silent_p.L531L|SRPK2_uc003vcv.2_Silent_p.L542L|SRPK2_uc003vcw.1_Silent_p.L531L|SRPK2_uc003vcs.1_5'Flank	NM_182691	NP_872633	P78362	SRPK2_HUMAN	serine/arginine-rich protein-specific kinase 2	531	Protein kinase.				angiogenesis|cell differentiation|intracellular protein kinase cascade|negative regulation of viral genome replication|nuclear speck organization|positive regulation of cell cycle|positive regulation of cell proliferation|positive regulation of gene expression|positive regulation of neuron apoptosis|positive regulation of viral genome replication|spliceosome assembly	cytoplasm|nucleolus	14-3-3 protein binding|ATP binding|magnesium ion binding|protein serine/threonine kinase activity			central_nervous_system(3)|ovary(2)|upper_aerodigestive_tract(1)	6						AAGCATTTCCCAGGTCAGCAA	0.453													24	66					2.89027e-11	3.13783e-11	1	1	0		A	104773469	A	A	104773469	2	1	213	1	0	0	0	0	0	0	0	1	15185	581	21	5		5	SRPK2	7	104773469	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	803797	104773469	54365194	379	105816											
C7orf60	154743	broad.mit.edu	37	chr7	112462111	112462111	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttgagtacttgaagcgtttAaagcccagggactctatagc	11	12	10	8	1	1	2	0	2	1	0	1	3	1	3	1	1	4	2	1	1	6	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:112462111A>T	uc003vgo.1	-	5	1033	c.906T>A	c.(904-906)TTT>TTA	p.F302L	C7orf60_uc011kms.1_Missense_Mutation_p.F328L	NM_152556	NP_689769	Q1RMZ1	CG060_HUMAN	hypothetical protein LOC154743	302										ovary(2)|skin(1)	3						TGAAGCGTTTAAAGCCCAGGG	0.388													52	51					0	0	1	0	0		T	112462111	T	T	112462111	3	4	213	1	0	0	0	0	1	0	0	0	2410	359	13	5	315	5	C7orf60	7	112462111	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	7688642	112462111	46676552	380	105817											
MET	4233	broad.mit.edu	37	chr7	116381017	116381017	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgccacgacaaatgtgtgCgatcggaggaatgcctgagc	10	7	15	9	3	0	1	0	1	0	0	1	5	0	3	2	3	4	0	2	3	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:116381017C>T	uc003vij.2	+	5	1826	c.1639C>T	c.(1639-1641)CGA>TGA	p.R547*	MET_uc010lkh.2_Nonsense_Mutation_p.R547*|MET_uc011knc.1_Nonsense_Mutation_p.R547*|MET_uc011knd.1_Nonsense_Mutation_p.R547*|MET_uc011kne.1_Nonsense_Mutation_p.R519*|MET_uc011knf.1_Nonsense_Mutation_p.R547*|MET_uc011kng.1_Nonsense_Mutation_p.R547*|MET_uc011knh.1_Nonsense_Mutation_p.R547*|MET_uc011kni.1_Nonsense_Mutation_p.R547*|MET_uc011knj.1_Nonsense_Mutation_p.R117*|MET_uc011knb.1_Nonsense_Mutation_p.R547*	NM_000245	NP_000236	P08581	MET_HUMAN	met proto-oncogene isoform b precursor	547	Extracellular (Potential).				axon guidance|cell proliferation	basal plasma membrane|integral to plasma membrane	ATP binding|hepatocyte growth factor receptor activity|protein binding			upper_aerodigestive_tract(63)|lung(41)|kidney(18)|NS(10)|ovary(5)|thyroid(4)|central_nervous_system(4)|stomach(3)|liver(3)|pleura(2)|large_intestine(2)|breast(2)|testis(1)|skin(1)	159	all_cancers(3;1.25e-07)|all_epithelial(6;4.07e-08)|Lung NSC(10;0.00108)|all_lung(10;0.00125)	Ovarian(593;0.133)	GBM - Glioblastoma multiforme(2;2.31e-07)|all cancers(2;0.000419)|STAD - Stomach adenocarcinoma(10;0.000512)			CAAATGTGTGCGATCGGAGGA	0.507			Mis		papillary renal|head-neck squamous cell 	papillary renal			Hereditary_Papillary_Renal_Carcinoma_(type_1)				75	81					0	0	1	0	0		T	116381017	T	T	116381017	4	4	213	1	0	0	0	0	0	1	0	0	9503	760	27	1	1653	1	MET	7	116381017	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3918906	116381017	42757646	381	105818											
TSPAN12	23554	broad.mit.edu	37	chr7	120428948	120428948	+	Missense_Mutation	SNP	A	C	C	1	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	ggaatacattttcttcccacAaccctgtaaaagaaatacat	16	11	4	10	0	1	1	0	0	1	1	2	2	2	2	2	1	3	1	2	1	7	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:120428948A>C	uc003vjk.2	-	8	990	c.616T>G	c.(616-618)TGT>GGT	p.C206G	TSPAN12_uc010lkj.2_Missense_Mutation_p.C79G	NM_012338	NP_036470	O95859	TSN12_HUMAN	transmembrane 4 superfamily member 12	206	Extracellular (Potential).				angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)					TTCTTCCCACAACCCTGTAAA	0.378													30	27					0	0	1	0	0		C	120428948	C	C	120428948	3	2	213	1	0	0	0	0	1	0	0	0	16662	130	5	5	305	5	TSPAN12	7	120428948	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	4047931	120428948	38709715	382	105819											
TSPAN12	23554	broad.mit.edu	37	chr7	120455798	120455798	+	Silent	SNP	A	G	G	1	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	ctcaccataagttcctgttcAtatgtccaaacgccacaagc	12	10	5	14	1	2	0	2	0	0	0	4	0	4	0	4	0	2	2	4	0	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:120455798A>G	uc003vjk.2	-	5	719	c.345T>C	c.(343-345)TAT>TAC	p.Y115Y		NM_012338	NP_036470	O95859	TSN12_HUMAN	transmembrane 4 superfamily member 12	115	Extracellular (Potential).				angiogenesis|cell surface receptor linked signaling pathway|regulation of angiogenesis|retina layer formation	integral to plasma membrane|membrane fraction					0	all_neural(327;0.117)					GTTCCTGTTCATATGTCCAAA	0.294													4	21					0	0	1	0	0		G	120455798	G	G	120455798	2	3	213	1	0	0	0	0	0	0	0	1	16662	224	8	3		3	TSPAN12	7	120455798	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	26850	120455798	38682865	383	105820											
IQUB	154865	broad.mit.edu	37	chr7	123119935	123119935	+	Missense_Mutation	SNP	T	C	C	0	1	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	aatggaagcaattatctgagTctctttttccagaagttcac	12	14	7	8	0	3	2	1	1	2	1	5	3	4	3	1	1	1	2	1	1	5	4	rs111558568		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:123119935T>C	uc003vkn.2	-	8	1901	c.1324A>G	c.(1324-1326)ACT>GCT	p.T442A	IQUB_uc003vko.2_Missense_Mutation_p.T442A|IQUB_uc010lkt.2_Intron|IQUB_uc003vkp.1_Missense_Mutation_p.T442A	NM_178827	NP_849149	Q8NA54	IQUB_HUMAN	IQ motif and ubiquitin domain containing	442										ovary(3)|large_intestine(1)	4						ATTATCTGAGTCTCTTTTTCC	0.398													14	55					0	0	1	0	0		C	123119935	C	C	123119935	3	2	213	1	0	0	0	0	1	0	0	0	7836	1667	58	3	1075	3	IQUB	7	123119935	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2664137	123119935	36018728	384	105821											
FLNC	2318	broad.mit.edu	37	chr7	128470736	128470736	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacgccggcctcggcctgggCgatgagacagacgagatgcc	8	4	16	13	5	0	3	0	1	0	3	1	7	0	3	4	3	1	0	4	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:128470736C>T	uc003vnz.3	+	1	254	c.45C>T	c.(43-45)GGC>GGT	p.G15G	FLNC_uc003voa.3_Silent_p.G15G	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	15	Actin-binding.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TCGGCCTGGGCGATGAGACAG	0.468													11	33					0	0	1	0	0		T	128470736	T	T	128470736	2	4	213	1	0	0	0	0	0	0	0	1	5949	755	27	1		1	FLNC	7	128470736	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5350801	128470736	30667927	385	105822											
FLNC	2318	broad.mit.edu	37	chr7	128493858	128493858	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caccttccatcgccaccatcGgcagcacctgtgacctcaac	9	7	6	19	2	1	1	1	1	0	0	4	1	2	1	6	1	2	2	6	1	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:128493858G>A	uc003vnz.3	+	39	6660	c.6451G>A	c.(6451-6453)GGC>AGC	p.G2151S	FLNC_uc003voa.3_Missense_Mutation_p.G2118S	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2151					cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CGCCACCATCGGCAGCACCTG	0.667													10	55					0	0	1	0	0		A	128493858	A	A	128493858	3	1	213	1	0	0	0	0	1	0	0	0	5949	1116	39	1	6605	1	FLNC	7	128493858	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	23122	128493858	30644805	386	105823											
MGAM	8972	broad.mit.edu	37	chr7	141750592	141750592	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgggacggaggaacctagCaatgttacagtgaaacacaa	15	7	11	8	1	0	1	0	1	0	0	0	4	0	4	1	3	4	2	1	3	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:141750592C>A	uc003vwy.2	+	24	2787	c.2733C>A	c.(2731-2733)AGC>AGA	p.S911R		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	911	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)	AGGAACCTAGCAATGTTACAG	0.398													24	39					6.44725e-10	6.93508e-10	1	1	0		A	141750592	A	A	141750592	3	1	213	1	0	0	0	0	1	0	0	0	9559	709	25	5	2823	5	MGAM	7	141750592	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	13256734	141750592	17388071	387	105824											
OR2A5	393046	broad.mit.edu	37	chr7	143748314	143748314	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggagcagcagaaggtcCtttccctgttttacagcctt	8	12	10	11	0	0	2	0	1	0	1	2	3	2	3	3	2	4	3	3	2	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:143748314C>A	uc011ktw.1	+	1	820	c.820C>A	c.(820-822)CTT>ATT	p.L274I		NM_012365	NP_036497	Q96R48	OR2A5_HUMAN	olfactory receptor, family 2, subfamily A,	274	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Melanoma(164;0.0783)					GCAGAAGGTCCTTTCCCTGTT	0.547													41	102					2.59497e-14	2.86755e-14	1	1	0		A	143748314	A	A	143748314	3	1	213	1	0	0	0	0	1	0	0	0	11000	681	24	5	822	5	OR2A5	7	143748314	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1997722	143748314	15390349	388	105825											
ZNF467	168544	broad.mit.edu	37	chr7	149461869	149461869	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctggggccgcaagggcggcGtccggggccgcgtgggcggc	2	3	23	13	7	0	0	0	0	0	0	1	0	1	0	3	8	0	2	3	8	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:149461869G>A	uc003wgd.2	-	5	1863	c.1722C>T	c.(1720-1722)GAC>GAT	p.D574D	ZNF467_uc003wgc.2_Intron	NM_207336	NP_997219	Q7Z7K2	ZN467_HUMAN	zinc finger protein 467	574					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CAAGGGCGGCGTCCGGGGCCG	0.701													25	18					0	0	1	0	0		A	149461869	A	A	149461869	2	1	213	1	0	0	0	0	0	0	0	1	17952	1136	40	1		1	ZNF467	7	149461869	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5713555	149461869	9676794	389	105826											
ZNF862	643641	broad.mit.edu	37	chr7	149558562	149558562	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgagctgcaggaaggtgcGgcgcctctggagcaggagat	10	5	17	9	3	1	1	0	0	1	1	1	5	1	3	1	5	5	3	1	5	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:149558562G>T	uc010lpn.2	+	7	2505	c.2313G>T	c.(2311-2313)GCG>GCT	p.A771A	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	771					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						AGGAAGGTGCGGCGCCTCTGG	0.607													30	21					1.12875e-08	1.19944e-08	1	1	0		T	149558562	T	T	149558562	2	4	213	1	0	0	0	0	0	0	0	1	18220	1103	39	5		5	ZNF862	7	149558562	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	96693	149558562	9580101	390	105827											
ZNF775	285971	broad.mit.edu	37	chr7	150094403	150094403	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccgaggggccgggcgagccGcgccagttcatctgcaacga	7	4	15	15	6	2	0	1	0	1	0	2	3	2	0	4	3	3	2	4	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:150094403G>A	uc003whf.1	+	3	959	c.834G>A	c.(832-834)CCG>CCA	p.P278P		NM_173680	NP_775951	Q96BV0	ZN775_HUMAN	zinc finger protein 775	278					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Ovarian(565;0.183)|Melanoma(164;0.226)		OV - Ovarian serous cystadenocarcinoma(82;0.0173)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		cgggcgagccgcgccAGTTCA	0.438													20	20					0	0	1	0	0		A	150094403	A	A	150094403	2	1	213	1	0	0	0	0	0	0	0	1	18173	1074	38	1		1	ZNF775	7	150094403	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	535841	150094403	9044260	391	105828											
ATG9B	285973	broad.mit.edu	37	chr7	150720577	150720577	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agatgcaggcaaagccattcCgctggtggtagctgtagatg	10	9	14	8	1	0	2	0	0	0	2	1	2	1	2	2	3	3	6	2	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:150720577C>T	uc011kvc.1	-	3	690	c.614G>A	c.(613-615)CGG>CAG	p.R205Q	ATG9B_uc003wig.3_RNA	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	205	Cytoplasmic (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AAAGCCATTCCGCTGGTGGTA	0.632													18	3					0	0	1	0	0		T	150720577	T	T	150720577	3	4	213	1	0	0	0	0	1	0	0	0	1104	652	23	1	2203	1	ATG9B	7	150720577	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	626174	150720577	8418086	392	105829											
MLL3	58508	broad.mit.edu	37	chr7	151879153	151879153	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgaaggggcctagataccGatgataaaggtgtacagttt	12	12	12	5	1	0	3	0	2	0	1	0	4	0	3	2	3	2	2	2	3	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:151879153G>T	uc003wla.2	-	36	6011	c.5792C>A	c.(5791-5793)TCG>TAG	p.S1931*	MLL3_uc003wkz.2_Nonsense_Mutation_p.S992*	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	1931	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		CCTAGATACCGATGATAAAGG	0.448			N		medulloblastoma								87	65					9.35349e-44	1.07305e-43	1	1	0		T	151879153	T	T	151879153	4	4	213	1	0	0	0	0	0	1	0	0	9640	1059	37	5	9039	5	MLL3	7	151879153	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1158576	151879153	7259510	393	105830											
MLL3	58508	broad.mit.edu	37	chr7	151962260	151962260	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatctaagaggtctcccggGctgtcgcacactgcacagtt	8	10	11	12	2	2	2	0	1	2	1	4	2	2	2	1	2	1	4	1	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:151962260G>T	uc003wla.2	-	8	1266	c.1047C>A	c.(1045-1047)AGC>AGA	p.S349R		NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	349	PHD-type 1.|RING-type.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGTCTCCCGGGCTGTCGCACA	0.388			N		medulloblastoma								7	180					1.61879e-10	1.74843e-10	1	1	0		T	151962260	T	T	151962260	3	4	213	1	0	0	0	0	1	0	0	0	9640	1194	42	5	13896	5	MLL3	7	151962260	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	83107	151962260	7176403	394	105831											
WDR60	55112	broad.mit.edu	37	chr7	158716414	158716414	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggacgttccggaccgccacGttttccaccggtcagtgtca	6	10	11	14	5	2	0	2	0	0	0	4	2	4	2	5	3	0	2	5	3	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr7:158716414G>A	uc003woe.3	+	17	2405	c.2247G>A	c.(2245-2247)ACG>ACA	p.T749T	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Silent_p.T381T	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	749										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		GGACCGCCACGTTTTCCACCG	0.502													89	95					0	0	1	0	0		A	158716414	A	A	158716414	2	1	213	1	0	0	0	0	0	0	0	1	17337	1132	40	1		1	WDR60	7	158716414	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6754154	158716414	422249	395	105832											
DLGAP2	9228	broad.mit.edu	37	chr8	1645405	1645405	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gaggacgtcagcatgaagttCgacgagctgcagcggctgcg	9	6	16	10	5	1	1	1	1	0	0	2	5	1	2	0	2	5	5	0	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:1645405C>T	uc003wpl.2	+	11	2746	c.2649C>T	c.(2647-2649)TTC>TTT	p.F883F	DLGAP2_uc003wpm.2_Silent_p.F869F	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	962					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		GCATGAAGTTCGACGAGCTGC	0.642													37	89					0	0	1	0	0		T	1645405	T	T	1645405	2	4	213	1	0	0	0	0	0	0	0	1	4566	883	31	1		1	DLGAP2	8	1645405	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08		1645405	144718617	396	105833											
ARHGEF10	9639	broad.mit.edu	37	chr8	1851600	1851600	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatagccaaagccataaacGaaagatacctgaacaaggtt	20	6	7	8	1	0	2	0	1	0	1	0	3	0	2	3	1	5	1	3	1	9	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:1851600G>A	uc003wpr.2	+	16	1982	c.1804G>A	c.(1804-1806)GAA>AAA	p.E602K	ARHGEF10_uc003wpq.1_Missense_Mutation_p.E626K|ARHGEF10_uc003wps.2_Missense_Mutation_p.E564K|ARHGEF10_uc003wpt.2_Missense_Mutation_p.E478K|ARHGEF10_uc003wpv.2_Missense_Mutation_p.E335K|ARHGEF10_uc010lre.2_Missense_Mutation_p.E282K	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	627					centrosome duplication|myelination in peripheral nervous system|positive regulation of GTP catabolic process|positive regulation of stress fiber assembly|regulation of Rho protein signal transduction|spindle assembly involved in mitosis	centrosome|cytosol|soluble fraction	kinesin binding|Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)		AGCCATAAACGAAAGATACCT	0.398													12	67					0	0	1	0	0		A	1851600	A	A	1851600	3	1	213	1	0	0	0	0	1	0	0	0	894	1059	37	1	1862	1	ARHGEF10	8	1851600	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	206195	1851600	144512422	397	105834											
CSMD1	64478	broad.mit.edu	37	chr8	3224595	3224595	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctcgtacgaaattgagaagTctgatataaaccgaagctgg	14	9	10	8	3	1	2	0	2	1	1	2	5	1	2	2	1	3	2	2	1	7	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:3224595T>C	uc011kwk.1	-	20	3467	c.3077A>G	c.(3076-3078)GAC>GGC	p.D1026G	CSMD1_uc011kwj.1_Missense_Mutation_p.D418G|CSMD1_uc003wqe.2_Missense_Mutation_p.D182G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1026	Extracellular (Potential).|CUB 6.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AATTGAGAAGTCTGATATAAA	0.478													7	20					0	0	1	0	0		C	3224595	C	C	3224595	3	2	213	1	0	0	0	0	1	0	0	0	3947	1667	58	3	7824	3	CSMD1	8	3224595	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1372995	3224595	143139427	398	105835											
LGI3	203190	broad.mit.edu	37	chr8	22005848	22005848	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctcatcccactggtagatcTgggtgaaggagaaatcactg	11	9	11	10	0	3	3	2	1	1	2	4	4	4	3	2	3	0	1	2	3	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:22005848T>C	uc003xav.2	-	8	1761	c.1472A>G	c.(1471-1473)CAG>CGG	p.Q491R	LGI3_uc010ltu.2_Missense_Mutation_p.Q467R	NM_139278	NP_644807	Q8N145	LGI3_HUMAN	leucine-rich repeat LGI family, member 3	491	EAR 6.				exocytosis	cell junction|extracellular region|synaptic vesicle|synaptosome				ovary(1)	1				Colorectal(74;0.00189)|COAD - Colon adenocarcinoma(73;0.0612)|READ - Rectum adenocarcinoma(644;0.0999)		CTGGTAGATCTGGGTGAAGGA	0.652													13	47					0	0	1	0	0		C	22005848	C	C	22005848	3	2	213	1	0	0	0	0	1	0	0	0	8769	1580	55	3	178	3	LGI3	8	22005848	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	18781253	22005848	124358174	399	105836											
LOXL2	4017	broad.mit.edu	37	chr8	23198656	23198656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccctccatcactggggtgcGcttgcggtaggttgagagga	6	9	16	10	2	1	1	1	1	0	1	2	3	2	2	2	5	2	3	2	5	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:23198656G>A	uc003xdh.1	-	4	931	c.592C>T	c.(592-594)CGC>TGC	p.R198C	uc003xdj.2_RNA|uc003xdi.2_RNA	NM_002318	NP_002309	Q9Y4K0	LOXL2_HUMAN	lysyl oxidase-like 2 precursor	198	SRCR 2.				aging|cell adhesion|protein modification process	extracellular space|membrane	copper ion binding|electron carrier activity|oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor|scavenger receptor activity			breast(2)|ovary(1)	3		Prostate(55;0.0453)|Breast(100;0.143)		Colorectal(74;0.0288)|COAD - Colon adenocarcinoma(73;0.096)		ACTGGGGTGCGCTTGCGGTAG	0.567													29	121					0	0	1	0	0		A	23198656	A	A	23198656	3	1	213	1	0	0	0	0	1	0	0	0	8918	1087	38	1	1776	1	LOXL2	8	23198656	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1192808	23198656	123165366	400	105837											
PTK2B	2185	broad.mit.edu	37	chr8	27278190	27278190	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggtatgaccttcaaatcCgctacttgccagaagacttc	11	10	8	12	1	1	3	1	1	0	2	3	3	2	3	3	1	2	3	3	1	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:27278190C>T	uc003xfn.1	+	9	1208	c.400C>T	c.(400-402)CGC>TGC	p.R134C	PTK2B_uc003xfo.1_Missense_Mutation_p.R134C|PTK2B_uc003xfp.1_Missense_Mutation_p.R134C|PTK2B_uc003xfq.1_Missense_Mutation_p.R134C	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	134	FERM.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		CCTTCAAATCCGCTACTTGCC	0.493													30	96					0	0	1	0	0		T	27278190	T	T	27278190	3	4	213	1	0	0	0	0	1	0	0	0	12786	652	23	1	410	1	PTK2B	8	27278190	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4079534	27278190	119085832	401	105838											
PTK2B	2185	broad.mit.edu	37	chr8	27288462	27288462	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctcagggaggaggagtgcGtcatgaagttcttcaacact	10	9	13	9	2	4	1	3	1	1	0	4	4	4	4	0	3	2	2	0	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:27288462G>A	uc003xfn.1	+	13	1547	c.739G>A	c.(739-741)GTC>ATC	p.V247I	PTK2B_uc003xfo.1_Missense_Mutation_p.V247I|PTK2B_uc003xfp.1_Missense_Mutation_p.V247I|PTK2B_uc003xfq.1_Missense_Mutation_p.V247I|PTK2B_uc010luq.1_Missense_Mutation_p.V18I|PTK2B_uc003xfr.1_5'Flank	NM_173174	NP_775266	Q14289	FAK2_HUMAN	PTK2B protein tyrosine kinase 2 beta isoform a	247	FERM.				apoptosis|bone resorption|positive regulation of cell proliferation|signal complex assembly	cytosol	ATP binding|non-membrane spanning protein tyrosine kinase activity|signal transducer activity			lung(3)|ovary(1)|skin(1)	5		Ovarian(32;2.72e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.023)|Epithelial(17;6.61e-10)|BRCA - Breast invasive adenocarcinoma(99;0.226)|Colorectal(74;0.229)		GGAGGAGTGCGTCATGAAGTT	0.582													40	120					0	0	1	0	0		A	27288462	A	A	27288462	3	1	213	1	0	0	0	0	1	0	0	0	12786	1145	40	1	765	1	PTK2B	8	27288462	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	10272	27288462	119075560	402	105839											
EXTL3	2137	broad.mit.edu	37	chr8	28573610	28573610	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatgctgcggaatgggggcGcggggaacggaggtcagacc	8	4	19	10	4	1	1	1	0	0	1	1	4	1	4	2	7	3	1	2	7	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:28573610G>A	uc003xgz.1	+	3	627	c.34G>A	c.(34-36)GCG>ACG	p.A12T		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	12	Cytoplasmic (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		GAATGGGGGCGCGGGGAACGG	0.607													27	62					0	0	1	0	0		A	28573610	A	A	28573610	3	1	213	1	0	0	0	0	1	0	0	0	5335	1087	38	1	36	1	EXTL3	8	28573610	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1285148	28573610	117790412	403	105840											
EXTL3	2137	broad.mit.edu	37	chr8	28608343	28608343	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctgtgctcttcaagacacGcctgccccatgacaagacca	10	9	7	15	1	3	3	1	1	2	2	3	3	3	3	4	0	2	1	4	0	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:28608343G>A	uc003xgz.1	+	7	3313	c.2720G>A	c.(2719-2721)CGC>CAC	p.R907H		NM_001440	NP_001431	O43909	EXTL3_HUMAN	exostoses-like 3	907	Lumenal (Potential).					integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronyl-galactosyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|metal ion binding|protein binding			skin(2)	2		Ovarian(32;0.069)		KIRC - Kidney renal clear cell carcinoma(542;0.107)|Kidney(114;0.129)|Colorectal(74;0.228)		TTCAAGACACGCCTGCCCCAT	0.562													40	111					0	0	1	0	0		A	28608343	A	A	28608343	3	1	213	1	0	0	0	0	1	0	0	0	5335	1087	38	1	2738	1	EXTL3	8	28608343	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	34733	28608343	117755679	404	105841											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729956	37729956	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cccatctcttccagcttccgCatcatggaatcaatggaagg	10	10	8	13	1	3	0	2	0	1	0	6	2	5	2	3	3	1	2	3	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:37729956C>T	uc003xkm.1	-	4	2408	c.2364G>A	c.(2362-2364)ATG>ATA	p.M788I	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.M117I|RAB11FIP1_uc003xko.1_Missense_Mutation_p.M117I|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	788					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			CCAGCTTCCGCATCATGGAAT	0.547													33	93					0	0	1	0	0		T	37729956	T	T	37729956	3	4	213	1	0	0	0	0	1	0	0	0	12918	710	25	2	1499	2	RAB11FIP1	8	37729956	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	9121613	37729956	108634066	405	105842											
MYST3	7994	broad.mit.edu	37	chr8	41794925	41794925	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttcctcctcttcttcatcGatctcaaacgtgggttctaa	7	16	5	13	2	6	0	2	0	5	0	10	1	8	0	2	1	1	1	2	1	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:41794925G>A	uc010lxb.2	-	17	3745	c.3201C>T	c.(3199-3201)ATC>ATT	p.I1067I	MYST3_uc010lxc.2_Silent_p.I1067I|MYST3_uc003xon.3_Silent_p.I1067I	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	1067					histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			CTTCTTCATCGATCTCAAACG	0.433													26	90					0	0	1	0	0		A	41794925	A	A	41794925	2	1	213	1	0	0	0	0	0	0	0	1	10122	1048	37	1		1	MYST3	8	41794925	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4064969	41794925	104569097	406	105843											
MYST3	7994	broad.mit.edu	37	chr8	41906483	41906483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcagtataaagcgggtttgCgagttttaccatggtgaagg	10	12	13	6	2	1	1	1	1	0	0	1	2	1	1	1	3	3	3	1	3	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:41906483C>T	uc010lxb.2	-	3	557	c.13G>A	c.(13-15)GCA>ACA	p.A5T	MYST3_uc010lxc.2_Missense_Mutation_p.A5T|MYST3_uc003xon.3_Missense_Mutation_p.A5T|MYST3_uc010lxd.2_Missense_Mutation_p.A5T	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	5	Required for activation of RUNX1-1.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			AGCGGGTTTGCGAGTTTTACC	0.413													53	169					0	0	1	0	0		T	41906483	T	T	41906483	3	4	213	1	0	0	0	0	1	0	0	0	10122	768	27	1	6065	1	MYST3	8	41906483	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	111558	41906483	104457539	407	105844											
RNF170	81790	broad.mit.edu	37	chr8	42742939	42742939	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgccacaagtacttggtcGcttactccttctataactga	10	13	6	12	1	1	1	0	1	1	0	3	1	2	1	2	1	4	2	2	1	5	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:42742939G>A	uc003xpo.2	-	2	546	c.69C>T	c.(67-69)AGC>AGT	p.S23S	RNF170_uc011lcx.1_Silent_p.S23S|RNF170_uc010lxp.2_Intron|RNF170_uc003xpm.2_Silent_p.S23S|RNF170_uc003xpp.2_5'UTR|RNF170_uc003xpn.2_5'UTR|RNF170_uc003xpq.3_Silent_p.S23S	NM_001160223	NP_001153695	Q96K19	RN170_HUMAN	ring finger protein 170 isoform a	23						integral to membrane	zinc ion binding				0	all_lung(13;1.25e-11)|Lung NSC(13;3.55e-10)|Ovarian(28;0.01)|Prostate(17;0.0119)|Lung SC(25;0.184)	all_lung(54;0.00645)|Lung NSC(58;0.0176)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	Lung(22;0.048)|LUSC - Lung squamous cell carcinoma(45;0.114)			GTACTTGGTCGCTTACTCCTT	0.383													15	68					0	0	1	0	0		A	42742939	A	A	42742939	2	1	213	1	0	0	0	0	0	0	0	1	13487	1078	38	1		1	RNF170	8	42742939	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	836456	42742939	103621083	408	105845											
POTEA	340441	broad.mit.edu	37	chr8	43155752	43155752	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaagctaatttaaatgcacTtgataggtttggaaggtata	16	13	9	3	0	0	1	0	1	0	0	0	2	0	2	0	3	2	4	0	3	9	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:43155752T>G	uc003xpz.1	+	4	723	c.680T>G	c.(679-681)CTT>CGT	p.L227R	POTEA_uc003xqa.1_Missense_Mutation_p.L227R	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	227										ovary(1)	1						TTAAATGCACTTGATAGGTTT	0.318													15	58					0	0	1	0	0		G	43155752	G	G	43155752	3	3	213	1	0	0	0	0	1	0	0	0	12280	1609	56	5	694	5	POTEA	8	43155752	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	412813	43155752	103208270	409	105846											
PXDNL	137902	broad.mit.edu	37	chr8	52321056	52321056	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tagcaaaagagttaatgatgCctgcattcacgttggggttg	11	12	12	6	1	1	2	1	1	0	1	1	2	1	2	1	2	3	5	1	2	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:52321056C>T	uc003xqu.3	-	17	3229	c.3128G>A	c.(3127-3129)GGC>GAC	p.G1043D	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1043					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GTTAATGATGCCTGCATTCAC	0.498													7	22					0	0	1	0	0		T	52321056	T	T	52321056	3	4	213	1	0	0	0	0	1	0	0	0	12873	739	26	2	1291	2	PXDNL	8	52321056	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	9165304	52321056	94042966	410	105847											
PXDNL	137902	broad.mit.edu	37	chr8	52321771	52321771	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctagaaaccagccccagtGcatgagcatgcgcgtgtagc	10	7	11	13	2	1	2	0	1	1	1	1	2	1	2	3	0	6	3	3	0	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:52321771G>A	uc003xqu.3	-	17	2514	c.2413C>T	c.(2413-2415)CAC>TAC	p.H805Y	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	805					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				CAGCCCCAGTGCATGAGCATG	0.711													6	11					0	0	1	0	0		A	52321771	A	A	52321771	3	1	213	1	0	0	0	0	1	0	0	0	12873	1319	46	2	2006	2	PXDNL	8	52321771	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	715	52321771	94042251	411	105848											
RB1CC1	9821	broad.mit.edu	37	chr8	53596230	53596230	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttttaggaatagcaggtggaCgatcacataagatcatttct	13	13	9	6	1	3	1	2	0	1	1	3	4	3	3	0	3	1	1	0	3	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:53596230C>T	uc003xre.3	-	5	806	c.248G>A	c.(247-249)CGT>CAT	p.R83H	RB1CC1_uc003xrf.3_Missense_Mutation_p.R83H	NM_014781	NP_055596	Q8TDY2	RBCC1_HUMAN	Rb1-inducible coiled coil protein 1 isoform 1	83					autophagy|cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding			ovary(8)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	11		all_cancers(86;0.137)|all_epithelial(80;0.00494)|Lung NSC(129;0.011)|all_lung(136;0.023)				AGCAGGTGGACGATCACATAA	0.284													16	57					0	0	1	0	0		T	53596230	T	T	53596230	3	4	213	1	0	0	0	0	1	0	0	0	13124	536	19	1	4616	1	RB1CC1	8	53596230	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1274459	53596230	92767792	412	105849											
NPBWR1	2831	broad.mit.edu	37	chr8	53852972	53852972	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggggatcgtcacactcGtcgtgctgcccttcgcagtc	4	11	13	13	4	1	0	1	0	0	0	6	1	1	1	1	2	2	2	1	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:53852972G>A	uc011ldu.1	+	1	505	c.505G>A	c.(505-507)GTC>ATC	p.V169I		NM_005285	NP_005276	P48145	NPBW1_HUMAN	G protein-coupled receptor 7	169	Helical; Name=4; (Potential).				synaptic transmission	plasma membrane	opioid receptor activity|protein binding			ovary(2)|breast(1)	3		Lung NSC(129;0.0222)|all_epithelial(80;0.0301)|all_lung(136;0.0431)				CGTCACACTCGTCGTGCTGCC	0.726													3	16					0	0	1	0	0		A	53852972	A	A	53852972	3	1	213	1	0	0	0	0	1	0	0	0	10587	1145	40	1	507	1	NPBWR1	8	53852972	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	256742	53852972	92511050	413	105850											
OPRK1	4986	broad.mit.edu	37	chr8	54163406	54163406	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgaacactacggagtagacCgccgtgatgatgaccgggat	12	6	13	10	5	0	4	0	3	0	1	0	7	0	6	3	2	2	1	3	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:54163406C>T	uc003xrh.1	-	1	567	c.192G>A	c.(190-192)GCG>GCA	p.A64A	OPRK1_uc003xri.1_Silent_p.A64A|OPRK1_uc010lyc.1_5'UTR	NM_000912	NP_000903	P41145	OPRK_HUMAN	opioid receptor, kappa 1	64	Helical; Name=1; (Potential).				behavior|immune response|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception|synaptic transmission|viral genome replication	integral to plasma membrane	kappa-opioid receptor activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(80;0.066)|Lung NSC(129;0.0804)|all_lung(136;0.136)			Buprenorphine(DB00921)|Butorphanol(DB00611)|Cocaine(DB00907)|Codeine(DB00318)|Dezocine(DB01209)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Meperidine(DB00454)|Mirtazapine(DB00370)|Morphine(DB00295)|Nalbuphine(DB00844)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Tramadol(DB00193)	CGGAGTAGACCGCCGTGATGA	0.701													15	51					0	0	1	0	0		T	54163406	T	T	54163406	2	4	213	1	0	0	0	0	0	0	0	1	10904	639	23	1		1	OPRK1	8	54163406	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	310434	54163406	92200616	414	105851											
RGS20	8601	broad.mit.edu	37	chr8	54852152	54852152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcagcagatgggatcagagcGgatggagatgcggaagcggc	11	4	19	7	3	1	3	1	0	0	3	1	7	1	6	0	5	4	2	0	5	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:54852152G>A	uc003xrp.2	+	3	619	c.527G>A	c.(526-528)CGG>CAG	p.R176Q	RGS20_uc003xrq.2_Missense_Mutation_p.R61Q|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrs.2_Missense_Mutation_p.R29Q|RGS20_uc003xrt.2_Intron	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	176					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|nucleus|plasma membrane	GTPase activator activity|protein binding|signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(7;1.37e-06)|Epithelial(17;0.000126)|all cancers(17;0.0009)			GGATCAGAGCGGATGGAGATG	0.647													4	5					0	0	1	0	0		A	54852152	A	A	54852152	3	1	213	1	0	0	0	0	1	0	0	0	13328	1116	39	1	610	1	RGS20	8	54852152	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	688746	54852152	91511870	415	105852											
XKR4	114786	broad.mit.edu	37	chr8	56015229	56015229	+	Missense_Mutation	SNP	T	G	G	0	1	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	gctgcccggacggcggcggcTgctcgcgctgctgctgctgc	1	7	17	16	6	0	0	0	0	0	0	1	1	0	1	1	4	6	7	1	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:56015229T>G	uc003xsf.2	+	1	213	c.181T>G	c.(181-183)TGC>GGC	p.C61G		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	61						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			cggcggcggctgctcgcgctg	0.244													4	7					0	0	1	0	0		G	56015229	G	G	56015229	3	3	213	1	0	0	0	0	1	0	0	0	17459	1580	55	5	183	5	XKR4	8	56015229	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1163077	56015229	90348793	416	105853											
TMEM68	137695	broad.mit.edu	37	chr8	56663664	56663664	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctcctcagaatttcaacacaTttttctcttggtccatgtag	9	16	5	11	0	3	1	2	0	1	1	6	1	5	1	2	1	1	1	2	1	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:56663664T>C	uc003xsg.1	-	3	615	c.546A>G	c.(544-546)AAA>AAG	p.K182K	TMEM68_uc003xsh.1_Silent_p.K182K	NM_152417	NP_689630	Q96MH6	TMM68_HUMAN	transmembrane protein 68	182						integral to membrane	acyltransferase activity			skin(1)	1			Epithelial(17;0.000361)|all cancers(17;0.00326)			TTTCAACACATTTTTCTCTTG	0.378													34	86					0	0	1	0	0		C	56663664	C	C	56663664	2	2	213	1	0	0	0	0	0	0	0	1	16222	1490	52	3		3	TMEM68	8	56663664	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	648435	56663664	89700358	417	105854											
BHLHE22	27319	broad.mit.edu	37	chr8	65493419	65493419	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcctgcacaagagcctgagCgcctccacctccaagcgctt	8	8	8	17	2	0	2	0	1	0	1	3	2	3	2	6	0	4	2	6	0	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:65493419C>T	uc003xvi.2	+	1	606	c.72C>T	c.(70-72)AGC>AGT	p.S24S	LOC401463_uc003xvh.2_Intron	NM_152414	NP_689627	Q8NFJ8	BHE22_HUMAN	basic helix-loop-helix domain containing, class	24					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						AGAGCCTGAGCGCCTCCACCT	0.731													4	8					0	0	1	0	0		T	65493419	T	T	65493419	2	4	213	1	0	0	0	0	0	0	0	1	1422	767	27	1		1	BHLHE22	8	65493419	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8829755	65493419	80870603	418	105855											
DNAJC5B	85479	broad.mit.edu	37	chr8	66989062	66989062	+	Missense_Mutation	SNP	A	G	G	1	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	cgtggccgagcagtttggagAcgaaaacgttaacacctact	12	8	11	10	4	0	1	0	0	0	1	0	4	0	1	2	2	4	3	2	2	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:66989062A>G	uc003xvs.1	+	4	578	c.287A>G	c.(286-288)GAC>GGC	p.D96G	DNAJC5B_uc003xvt.1_RNA	NM_033105	NP_149096	Q9UF47	DNJ5B_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	96					protein folding	membrane	heat shock protein binding|unfolded protein binding				0		Lung NSC(129;0.114)|all_lung(136;0.188)	Epithelial(68;0.0213)|all cancers(69;0.0839)|BRCA - Breast invasive adenocarcinoma(89;0.0886)|OV - Ovarian serous cystadenocarcinoma(28;0.112)			CAGTTTGGAGACGAAAACGTT	0.448													30	108					0	0	1	0	0		G	66989062	G	G	66989062	3	3	213	1	0	0	0	0	1	0	0	0	4657	275	10	3	293	3	DNAJC5B	8	66989062	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1495643	66989062	79374960	419	105856											
SULF1	23213	broad.mit.edu	37	chr8	70514037	70514037	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgtgtgcctttttttattcGtggtccaagtgtagaaccag	7	16	10	8	2	0	1	0	0	0	1	3	1	1	1	3	1	2	1	3	1	4	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:70514037G>A	uc010lza.1	+	10	1751	c.1034G>A	c.(1033-1035)CGT>CAT	p.R345H	SULF1_uc003xyd.2_Missense_Mutation_p.R345H|SULF1_uc003xye.2_Missense_Mutation_p.R345H|SULF1_uc003xyf.2_Missense_Mutation_p.R345H|SULF1_uc003xyg.2_Missense_Mutation_p.R345H|SULF1_uc003xyh.1_RNA	NM_015170	NP_055985	Q8IWU6	SULF1_HUMAN	sulfatase 1 precursor	345					apoptosis|bone development|heparan sulfate proteoglycan metabolic process|kidney development|negative regulation of fibroblast growth factor receptor signaling pathway	cell surface|endoplasmic reticulum|extracellular space|Golgi stack	arylsulfatase activity|calcium ion binding			central_nervous_system(3)|ovary(2)|pancreas(1)|skin(1)	7	Breast(64;0.0654)		Epithelial(68;0.0124)|OV - Ovarian serous cystadenocarcinoma(28;0.0265)|all cancers(69;0.0534)			TTTTTTATTCGTGGTCCAAGT	0.413													57	181					0	0	1	0	0		A	70514037	A	A	70514037	3	1	213	1	0	0	0	0	1	0	0	0	15395	1145	40	1	1056	1	SULF1	8	70514037	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3524975	70514037	75849985	420	105857											
TRPA1	8989	broad.mit.edu	37	chr8	72967786	72967786	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	accttcattcagaagcctcgTatcacttatgtcttgtagga	10	14	7	10	1	4	1	3	0	1	1	5	2	4	2	2	1	1	2	2	1	4	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:72967786T>C	uc003xza.2	-	12	1589	c.1414A>G	c.(1414-1416)ACG>GCG	p.T472A		NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	472	ANK 11.|Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AGAAGCCTCGTATCACTTATG	0.388													15	70					0	0	1	0	0		C	72967786	C	C	72967786	3	2	213	1	0	0	0	0	1	0	0	0	16603	1638	57	3	2009	3	TRPA1	8	72967786	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2453749	72967786	73396236	421	105858											
ESRP1	54845	broad.mit.edu	37	chr8	95690446	95690446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tctaggcctgtctcctccctCctacacatttccagctcctg	5	13	5	18	0	2	0	0	0	2	0	7	0	6	0	6	1	2	1	6	1	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:95690446C>T	uc003ygq.3	+	13	1850	c.1667C>T	c.(1666-1668)TCC>TTC	p.S556F	ESRP1_uc003ygr.3_Missense_Mutation_p.S552F|ESRP1_uc003ygs.3_Missense_Mutation_p.S552F|ESRP1_uc003ygt.3_Missense_Mutation_p.S556F|ESRP1_uc003ygu.3_Missense_Mutation_p.S552F|ESRP1_uc003ygv.2_Missense_Mutation_p.S396F|ESRP1_uc003ygw.2_Missense_Mutation_p.S396F	NM_017697	NP_060167	Q6NXG1	ESRP1_HUMAN	RNA binding motif protein 35A isoform 1	556					mRNA processing|regulation of RNA splicing|RNA splicing	nucleus|plasma membrane	mRNA binding|nucleotide binding		ESRP1/RAF1(4)	prostate(4)	4						TCTCCTCCCTCCTACACATTT	0.478													18	61					0	0	1	0	0		T	95690446	T	T	95690446	3	4	213	1	0	0	0	0	1	0	0	0	5266	855	30	4	1717	4	ESRP1	8	95690446	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	22722660	95690446	50673576	422	105859											
VPS13B	157680	broad.mit.edu	37	chr8	100654601	100654601	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgacttacagctagagcCttttctgtactttattgtgt	7	18	9	7	0	1	2	0	1	1	1	1	2	1	2	1	1	4	2	1	1	4	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:100654601C>A	uc003yiv.2	+	34	5969	c.5858C>A	c.(5857-5859)CCT>CAT	p.P1953H	VPS13B_uc003yiw.2_Missense_Mutation_p.P1928H	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	1953					protein transport					ovary(7)|skin(4)|lung(3)|central_nervous_system(2)|pancreas(2)|breast(1)|kidney(1)	20	Breast(36;3.73e-07)		OV - Ovarian serous cystadenocarcinoma(57;0.00636)			CAGCTAGAGCCTTTTCTGTAC	0.463													48	125					1.89013e-27	2.15429e-27	1	1	0		A	100654601	A	A	100654601	3	1	213	1	0	0	0	0	1	0	0	0	17216	681	24	5	6182	5	VPS13B	8	100654601	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4964155	100654601	45709421	423	105860											
ANKRD46	157567	broad.mit.edu	37	chr8	101541845	101541845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtttccttgataatctgtggCcagaagatcggcaccgaatt	10	12	10	9	2	1	3	0	1	1	2	3	4	2	3	3	2	0	2	3	2	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:101541845C>T	uc003yjm.2	-	3	421	c.217G>A	c.(217-219)GCC>ACC	p.A73T	ANKRD46_uc003yjn.1_Missense_Mutation_p.A73T|ANKRD46_uc003yjo.1_Missense_Mutation_p.A73T|ANKRD46_uc003yjp.1_Missense_Mutation_p.A73T	NM_198401	NP_940683	Q86W74	ANR46_HUMAN	ankyrin repeat domain 46	73	ANK 2.					integral to membrane					0	all_cancers(14;5.07e-05)|all_epithelial(15;2.84e-07)|Lung NSC(17;0.000353)|all_lung(17;0.000998)		Epithelial(11;2.61e-11)|all cancers(13;5.03e-09)|OV - Ovarian serous cystadenocarcinoma(57;4.49e-06)|STAD - Stomach adenocarcinoma(118;0.0957)			TAATCTGTGGCCAGAAGATCG	0.458													28	72					0	0	1	0	0		T	101541845	T	T	101541845	3	4	213	1	0	0	0	0	1	0	0	0	674	739	26	2	481	2	ANKRD46	8	101541845	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	887244	101541845	44822177	424	105861											
DCAF13	25879	broad.mit.edu	37	chr8	104427341	104427341	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggagactctagtactgagggGgcaagaacggggcacagaca	13	4	16	8	1	1	4	0	1	1	3	1	5	1	4	0	5	2	3	0	5	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:104427341G>T	uc003yln.2	+	1	400	c.123G>T	c.(121-123)GGG>GGT	p.G41G	SLC25A32_uc003yll.2_5'UTR|SLC25A32_uc011lhr.1_5'UTR|DCAF13_uc003ylm.1_5'UTR|DCAF13_uc003ylo.2_5'UTR	NM_015420	NP_056235	Q9NV06	DCA13_HUMAN	WD repeats and SOF1 domain containing	Error:Variant_position_missing_in_Q9NV06_after_alignment					rRNA processing	CUL4 RING ubiquitin ligase complex|nucleolus|ribonucleoprotein complex				breast(1)	1						GTACTGAGGGGGCAAGAACGG	0.657													30	43					1.55811e-20	1.75684e-20	1	1	0		T	104427341	T	T	104427341	2	4	213	1	0	0	0	0	0	0	0	1	4269	1219	43	5		5	DCAF13	8	104427341	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2885496	104427341	41936681	425	105862											
RIMS2	9699	broad.mit.edu	37	chr8	104709417	104709417	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtgatgcgccaacctgtggtAtctgccacaaaacaaagttt	12	10	9	10	1	1	1	0	1	1	0	1	1	1	1	3	1	4	2	3	1	5	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:104709417A>G	uc003ylp.2	+	2	419	c.280A>G	c.(280-282)ATC>GTC	p.I94V		NM_001100117	NP_001093587	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	125	FYVE-type.|RabBD.				intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			AACCTGTGGTATCTGCCACAA	0.448										HNSCC(12;0.0054)			29	75					0	0	1	0	0		G	104709417	G	G	104709417	3	3	213	1	0	0	0	0	1	0	0	0	13393	449	16	3	286	3	RIMS2	8	104709417	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	282076	104709417	41654605	426	105863											
RIMS2	9699	broad.mit.edu	37	chr8	105026793	105026793	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagtactccagtcgcaggacGaaggggccgacagcttccac	11	5	12	13	3	0	0	0	0	0	0	3	3	2	1	3	3	2	3	3	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:105026793G>A	uc003yls.2	+	17	2745	c.2504G>A	c.(2503-2505)CGA>CAA	p.R835Q	RIMS2_uc003ylp.2_Missense_Mutation_p.R1095Q|RIMS2_uc003ylw.2_Missense_Mutation_p.R909Q|RIMS2_uc003ylq.2_Missense_Mutation_p.R909Q|RIMS2_uc003ylr.2_Missense_Mutation_p.R934Q	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1157					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			GTCGCAGGACGAAGGGGCCGA	0.433										HNSCC(12;0.0054)			22	63					0	0	1	0	0		A	105026793	A	A	105026793	3	1	213	1	0	0	0	0	1	0	0	0	13393	1058	37	1	3554	1	RIMS2	8	105026793	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	317376	105026793	41337229	427	105864											
KCNV1	27012	broad.mit.edu	37	chr8	110980792	110980792	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagtaggccgacttcttcgTaacactgggtgattgtcatc	8	12	11	10	2	2	1	1	1	1	0	4	2	2	1	1	2	1	3	1	2	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:110980792T>C	uc003ynr.3	-	3	1370	c.1028A>G	c.(1027-1029)TAC>TGC	p.Y343C	KCNV1_uc010mcw.2_Missense_Mutation_p.Y343C	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	343	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			GACTTCTTCGTAACACTGGGT	0.378													20	52					0	0	1	0	0		C	110980792	C	C	110980792	3	2	213	1	0	0	0	0	1	0	0	0	8110	1638	57	3	478	3	KCNV1	8	110980792	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	5953999	110980792	35383230	428	105865											
CSMD3	114788	broad.mit.edu	37	chr8	113314033	113314033	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatctgtacctaggcatctgGtttcagattcactccaaaga	12	12	7	10	0	4	2	2	0	2	2	5	2	5	2	2	2	1	3	2	2	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:113314033G>A	uc003ynu.2	-	53	8588	c.8429C>T	c.(8428-8430)ACC>ATC	p.T2810I	CSMD3_uc003yns.2_Missense_Mutation_p.T2012I|CSMD3_uc003ynt.2_Missense_Mutation_p.T2770I|CSMD3_uc011lhx.1_Missense_Mutation_p.T2641I	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2810	Extracellular (Potential).|Sushi 17.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						TAGGCATCTGGTTTCAGATTC	0.438										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			13	71					0	0	1	0	0		A	113314033	A	A	113314033	3	1	213	1	0	0	0	0	1	0	0	0	3949	1261	44	4	2770	4	CSMD3	8	113314033	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2333241	113314033	33049989	429	105866											
CSMD3	114788	broad.mit.edu	37	chr8	113518929	113518929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taagaactcacctgatgaacGccaaggagataacatagtct	16	8	8	9	1	2	4	1	2	1	2	2	5	2	4	2	1	3	0	2	1	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:113518929G>A	uc003ynu.2	-	29	5045	c.4886C>T	c.(4885-4887)GCG>GTG	p.A1629V	CSMD3_uc003yns.2_Missense_Mutation_p.A901V|CSMD3_uc003ynt.2_Missense_Mutation_p.A1589V|CSMD3_uc011lhx.1_Missense_Mutation_p.A1525V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1629	Extracellular (Potential).|CUB 9.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCTGATGAACGCCAAGGAGAT	0.373										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			15	94					0	0	1	0	0		A	113518929	A	A	113518929	3	1	213	1	0	0	0	0	1	0	0	0	3949	1087	38	1	6409	1	CSMD3	8	113518929	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	204896	113518929	32845093	430	105867											
CSMD3	114788	broad.mit.edu	37	chr8	113585761	113585761	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agttgaaagccttcatctgtCccttcagtatcggaattaaa	12	13	7	9	1	3	1	2	1	1	0	5	2	4	2	2	1	1	2	2	1	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:113585761C>A	uc003ynu.2	-	24	4170	c.4011G>T	c.(4009-4011)GGG>GGT	p.G1337G	CSMD3_uc003yns.2_Silent_p.G609G|CSMD3_uc003ynt.2_Silent_p.G1297G|CSMD3_uc011lhx.1_Silent_p.G1233G	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1337	Extracellular (Potential).|CUB 7.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CTTCATCTGTCCCTTCAGTAT	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			33	95					4.34311e-12	4.73466e-12	1	1	0		A	113585761	A	A	113585761	2	1	213	1	0	0	0	0	0	0	0	1	3949	842	30	5		5	CSMD3	8	113585761	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	66832	113585761	32778261	431	105868											
TRPS1	7227	broad.mit.edu	37	chr8	116430571	116430571	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcttaccgagtgaagcttcTggtagaggccacacgcgttg	8	11	12	10	3	2	2	0	1	2	1	2	3	2	2	2	2	2	3	2	2	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:116430571T>C	uc003ynz.2	-	5	3230	c.2771A>G	c.(2770-2772)CAG>CGG	p.Q924R	TRPS1_uc011lhy.1_Missense_Mutation_p.Q928R|TRPS1_uc003yny.2_Missense_Mutation_p.Q937R|TRPS1_uc010mcy.2_Missense_Mutation_p.Q924R	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	924					negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			GTGAAGCTTCTGGTAGAGGCC	0.488									Langer-Giedion_syndrome				39	100					0	0	1	0	0		C	116430571	C	C	116430571	3	2	213	1	0	0	0	0	1	0	0	0	16619	1580	55	3	1082	3	TRPS1	8	116430571	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2844810	116430571	29933451	432	105869											
COL14A1	7373	broad.mit.edu	37	chr8	121238900	121238900	+	Silent	SNP	T	C	C	0	1	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	cagcaatacttagaaattgaTgaggtgacgacagacagttt	15	10	10	6	1	0	5	0	3	0	2	0	6	0	5	0	1	2	2	0	1	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:121238900T>C	uc003yox.2	+	16	2164	c.1899T>C	c.(1897-1899)GAT>GAC	p.D633D	COL14A1_uc003yoy.2_Silent_p.D311D	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	633	Fibronectin type-III 5.				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			TAGAAATTGATGAGGTGACGA	0.473													12	28					0	0	1	0	0		C	121238900	C	C	121238900	2	2	213	1	0	0	0	0	0	0	0	1	3674	1461	51	3		3	COL14A1	8	121238900	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4808329	121238900	25125122	433	105870											
WDR67	93594	broad.mit.edu	37	chr8	124121565	124121565	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttttctttgtagaatgaattAccagatggattaaacaaaaa	17	14	6	4	0	1	3	0	1	1	2	1	4	1	4	1	1	2	1	1	1	8	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:124121565A>G	uc003ypp.1	+	9	1308	c.1218A>G	c.(1216-1218)TTA>TTG	p.L406L	WDR67_uc011lig.1_Silent_p.L406L|WDR67_uc011lih.1_Silent_p.L296L|WDR67_uc003ypq.1_RNA|WDR67_uc003yps.1_Silent_p.L119L	NM_145647	NP_663622	Q96DN5	WDR67_HUMAN	WD repeat domain 67 isoform 1	406						centrosome	Rab GTPase activator activity			skin(1)	1	Lung NSC(37;7e-10)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			AGAATGAATTACCAGATGGAT	0.294													20	45					0	0	1	0	0		G	124121565	G	G	124121565	2	3	213	1	0	0	0	0	0	0	0	1	17344	388	14	3		3	WDR67	8	124121565	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2882665	124121565	22242457	434	105871											
ATAD2	29028	broad.mit.edu	37	chr8	124359583	124359583	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggtatagatctgtgggtagCgtcgtcgtaaagcacataaa	12	11	12	6	3	1	1	0	0	1	1	3	1	1	1	0	2	2	4	0	2	7	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:124359583C>T	uc003yqh.3	-	16	2069	c.1961G>A	c.(1960-1962)CGC>CAC	p.R654H	ATAD2_uc011lii.1_Missense_Mutation_p.R445H|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.R654H	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	654					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			CTGTGGGTAGCGTCGTCGTAA	0.418													28	93					0	0	1	0	0		T	124359583	T	T	124359583	3	4	213	1	0	0	0	0	1	0	0	0	1072	768	27	1	2263	1	ATAD2	8	124359583	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	238018	124359583	22004439	435	105872											
ATAD2	29028	broad.mit.edu	37	chr8	124382200	124382200	+	Missense_Mutation	SNP	A	T	T	1	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	tcatcgtcatcatcatcatcAtcttcatcatcttcatcttc	9	17	1	14	1	12	0	9	0	3	0	14	0	12	0	0	0	0	0	0	0	0	3	rs149848860	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:124382200A>T	uc003yqh.3	-	7	900	c.792T>A	c.(790-792)GAT>GAA	p.D264E	ATAD2_uc011lii.1_Missense_Mutation_p.D55E|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.D264E	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	264	Asp-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			catcatcatcatcttcatcat	0.169													13	37					0	0	1	0	0		T	124382200	T	T	124382200	3	4	213	1	0	0	0	0	1	0	0	0	1072	214	8	5	3468	5	ATAD2	8	124382200	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	22617	124382200	21981822	436	105873											
TRMT12	55039	broad.mit.edu	37	chr8	125464363	125464363	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcaaaggtgggcagaatctGcagaaactcgaatcgccact	13	6	12	10	2	1	2	0	0	1	2	3	3	1	2	1	3	2	3	1	3	4	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:125464363G>A	uc003yra.3	+	1	1316	c.1195G>A	c.(1195-1197)GCA>ACA	p.A399T		NM_017956	NP_060426	Q53H54	TYW2_HUMAN	homolog of yeast tRNA methyltransferase 12	399					tRNA processing		methyltransferase activity			upper_aerodigestive_tract(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			GGCAGAATCTGCAGAAACTCG	0.488													11	45					0	0	1	0	0		A	125464363	A	A	125464363	3	1	213	1	0	0	0	0	1	0	0	0	16590	1319	46	2	1197	2	TRMT12	8	125464363	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1082163	125464363	20899659	437	105874											
RNF139	11236	broad.mit.edu	37	chr8	125499032	125499032	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attaatgtctctcagtgcctCtcatgtgtcatcttttcgta	7	18	6	10	1	5	0	3	0	3	0	8	0	5	0	1	0	1	1	1	0	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:125499032C>A	uc003yrc.2	+	2	1485	c.1142C>A	c.(1141-1143)TCT>TAT	p.S381Y		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	381					negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			CTCAGTGCCTCTCATGTGTCA	0.393									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				94	311					4.66267e-56	5.35495e-56	1	1	0		A	125499032	A	A	125499032	3	1	213	1	0	0	0	0	1	0	0	0	13467	913	32	5	1148	5	RNF139	8	125499032	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	34669	125499032	20864990	438	105875											
PHF20L1	51105	broad.mit.edu	37	chr8	133837586	133837586	+	Frame_Shift_Del	DEL	A	-	-																															gaccaaaacagaagaagaagAaaaaaaagaaaaagaaatct																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:133837586delA	uc003ytt.2	+	14	2039	c.1714delA	c.(1714-1716)AAAfs	p.K572fs	PHF20L1_uc011lja.1_Frame_Shift_Del_p.K546fs|PHF20L1_uc003ytu.1_RNA	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	572	Lys-rich.						nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			gaagaagaagaaaaaaaagaa	0.194													4	8	---	---	---	---						.	-	133837586	-	-	133837586	7	5	213	1	0	1	0	1	0	0	0	0	11851	247	9	0	1860	0	PHF20L1	8	133837586	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	8338554	133837586	12526436	439	105876											
TG	7038	broad.mit.edu	37	chr8	133920513	133920513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagatgtgcagtgctgactaCgcggatttgctgcagacttt	9	12	12	8	2	0	3	0	1	0	2	0	4	0	4	0	1	5	4	0	1	2	3	rs143023529		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:133920513C>T	uc003ytw.2	+	18	3971	c.3930C>T	c.(3928-3930)TAC>TAT	p.Y1310Y	TG_uc010mdw.2_Silent_p.Y69Y	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1310					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GTGCTGACTACGCGGATTTGC	0.597													17	73					0	0	1	0	0		T	133920513	T	T	133920513	2	4	213	1	0	0	0	0	0	0	0	1	15838	547	19	1		1	TG	8	133920513	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	82927	133920513	12443509	440	105877											
EPPK1	83481	broad.mit.edu	37	chr8	144940592	144940592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccaccgacagcctcaggttgCgcacggggtcgatgacgaag	9	5	14	13	5	1	1	1	1	0	0	2	4	1	1	3	3	2	2	3	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:144940592C>T	uc003zaa.1	-	2	14853	c.14840G>A	c.(14839-14841)CGC>CAC	p.R4947H		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	4947	Plectin 62.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			CCTCAGGTTGCGCACGGGGTC	0.726													7	111					0	0	1	0	0		T	144940592	T	T	144940592	3	4	213	1	0	0	0	0	1	0	0	0	5198	768	27	1	436	1	EPPK1	8	144940592	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	11020079	144940592	1423430	441	105878											
EPPK1	83481	broad.mit.edu	37	chr8	144941378	144941378	+	Frame_Shift_Del	DEL	C	-	-																															ggtgctgtgggtcgatgacaCcccccgtggccacctgcacc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:144941378delC	uc003zaa.1	-	1	6057	c.6044delG	c.(6043-6045)GGTfs	p.G2015fs		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	2015	Plectin 34.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GTCGATGACACCCCCCGTGGC	0.622													19	43	---	---	---	---						.	-	144941378	-	-	144941378	7	5	213	1	0	1	0	1	0	0	0	0	5198	507	18	0	1222	0	EPPK1	8	144941378	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	786	144941378	1422644	442	105879											
PLEC	5339	broad.mit.edu	37	chr8	144991177	144991177	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccgtctcctcagtggggtctGaccaggaggccagctgggtc	5	8	15	13	1	3	1	1	1	2	0	5	2	3	2	4	5	1	1	4	5	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:144991177G>A	uc003zaf.1	-	32	13393	c.13223C>T	c.(13222-13224)TCA>TTA	p.S4408L	PLEC_uc003zab.1_Missense_Mutation_p.S4271L|PLEC_uc003zac.1_Missense_Mutation_p.S4275L|PLEC_uc003zad.2_Missense_Mutation_p.S4271L|PLEC_uc003zae.1_Missense_Mutation_p.S4239L|PLEC_uc003zag.1_Missense_Mutation_p.S4249L|PLEC_uc003zah.2_Missense_Mutation_p.S4257L|PLEC_uc003zaj.2_Missense_Mutation_p.S4298L	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	4408	Globular 2.|Plectin 29.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						AGTGGGGTCTGACCAGGAGGC	0.672													23	63					0	0	1	0	0		A	144991177	A	A	144991177	3	1	213	1	0	0	0	0	1	0	0	0	12071	1294	45	4	835	4	PLEC	8	144991177	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	49799	144991177	1372845	443	105880											
PLEC	5339	broad.mit.edu	37	chr8	144995188	144995188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcccgccgctgctctgccGtgaagtattccgagttgatg	5	11	13	12	4	1	2	0	2	1	0	3	3	3	2	4	1	2	4	4	1	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:144995188G>A	uc003zaf.1	-	32	9382	c.9212C>T	c.(9211-9213)ACG>ATG	p.T3071M	PLEC_uc003zab.1_Missense_Mutation_p.T2934M|PLEC_uc003zac.1_Missense_Mutation_p.T2938M|PLEC_uc003zad.2_Missense_Mutation_p.T2934M|PLEC_uc003zae.1_Missense_Mutation_p.T2902M|PLEC_uc003zag.1_Missense_Mutation_p.T2912M|PLEC_uc003zah.2_Missense_Mutation_p.T2920M|PLEC_uc003zaj.2_Missense_Mutation_p.T2961M	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3071	Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						CTGCTCTGCCGTGAAGTATTC	0.602													21	104					0	0	1	0	0		A	144995188	A	A	144995188	3	1	213	1	0	0	0	0	1	0	0	0	12071	1145	40	1	4846	1	PLEC	8	144995188	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4011	144995188	1368834	444	105881											
PLEC	5339	broad.mit.edu	37	chr8	144995398	144995398	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcgctccagtagctgcaggTacgtgaggttctcgtgcgtg	6	10	15	10	4	1	1	0	1	1	0	3	1	2	1	1	2	5	6	1	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:144995398T>C	uc003zaf.1	-	32	9172	c.9002A>G	c.(9001-9003)TAC>TGC	p.Y3001C	PLEC_uc003zab.1_Missense_Mutation_p.Y2864C|PLEC_uc003zac.1_Missense_Mutation_p.Y2868C|PLEC_uc003zad.2_Missense_Mutation_p.Y2864C|PLEC_uc003zae.1_Missense_Mutation_p.Y2832C|PLEC_uc003zag.1_Missense_Mutation_p.Y2842C|PLEC_uc003zah.2_Missense_Mutation_p.Y2850C|PLEC_uc003zaj.2_Missense_Mutation_p.Y2891C	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3001	Globular 2.|Plectin 5.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|hemidesmosome|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	9						TAGCTGCAGGTACGTGAGGTT	0.647													39	122					0	0	1	0	0		C	144995398	C	C	144995398	3	2	213	1	0	0	0	0	1	0	0	0	12071	1638	57	3	5056	3	PLEC	8	144995398	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	210	144995398	1368624	445	105882											
GPAA1	8733	broad.mit.edu	37	chr8	145139352	145139352	+	Silent	SNP	C	T	T	0	0	0	1	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	ggacatcattggatggaccgCtgcagggcctgcagacactg	9	7	14	11	1	1	1	1	0	0	1	1	4	1	4	2	4	2	3	2	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:145139352C>T	uc003zax.2	+	7	960	c.850C>T	c.(850-852)CTG>TTG	p.L284L	GPAA1_uc003zav.1_Silent_p.L162L|GPAA1_uc003zaw.1_Silent_p.L224L	NM_003801	NP_003792	O43292	GPAA1_HUMAN	glycosylphosphatidylinositol anchor attachment	284	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|protein complex assembly|protein retention in ER lumen	GPI-anchor transamidase complex	tubulin binding				0	all_cancers(97;2.87e-11)|all_epithelial(106;2.16e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;3.38e-41)|Epithelial(56;6.02e-40)|all cancers(56;2.11e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			GGATGGACCGCTGCAGGGCCT	0.657													26	84					0	0	1	0	0		T	145139352	T	T	145139352	2	4	213	1	0	0	0	0	0	0	0	1	6602	796	28	2		2	GPAA1	8	145139352	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	143954	145139352	1224670	446	105883											
RECQL4	9401	broad.mit.edu	37	chr8	145738257	145738257	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggcatgtccaaagcctgtaCggtaagctgtattgggagtg	9	10	14	8	2	0	0	0	0	0	0	1	1	1	1	2	3	3	5	2	3	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr8:145738257C>T	uc003zdj.2	-	16	2760	c.2728G>A	c.(2728-2730)GTA>ATA	p.V910I		NM_004260	NP_004251	O94761	RECQ4_HUMAN	RecQ protein-like 4	910					DNA duplex unwinding|DNA recombination|DNA repair	cytoplasm|nucleus	ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|DNA strand annealing activity|zinc ion binding			breast(2)|lung(1)|skin(1)	4	all_cancers(97;5.56e-11)|all_epithelial(106;3.54e-10)|Lung NSC(106;5.7e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.48e-41)|Epithelial(56;1.85e-40)|all cancers(56;3.59e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0483)|Colorectal(110;0.055)			AAAGCCTGTACGGTAAGCTGT	0.652			N|F|S			osteosarcoma|skin basal and sqamous cell		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	RAPADILINO_syndrome|Rothmund-Thomson_syndrome|Baller-Gerold_syndrome				3	13					0	0	1	0	0		T	145738257	T	T	145738257	3	4	213	1	0	0	0	0	1	0	0	0	13227	536	19	1	926	1	RECQL4	8	145738257	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	598905	145738257	625765	447	105884											
FOXD4	2298	broad.mit.edu	37	chr9	117822	117822	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggggctttgccggctgccGggcatcttcagaggccgccg	3	7	18	13	4	2	1	1	0	1	1	2	1	2	1	4	6	2	3	4	6	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:117822G>A	uc003zfz.2	-	1	596	c.298C>T	c.(298-300)CGG>TGG	p.R100W		NM_207305	NP_997188	Q12950	FOXD4_HUMAN	forkhead box D4	100					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(1)	1	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)		GCCGGCTGCCGGGCATCTTCA	0.682													30	158					0	0	1	0	0		A	117822	A	A	117822	3	1	213	1	0	0	0	0	1	0	0	0	6013	1115	39	1	1025	1	FOXD4	9	117822	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		117822	141095609	448	105885											
KIAA0020	9933	broad.mit.edu	37	chr9	2807900	2807900	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctacaagtgtttttgcaaaAcaacctgtaaaatatactga	16	13	5	7	0	1	1	0	1	1	0	1	1	1	1	1	0	5	3	1	0	9	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:2807900A>T	uc003zhp.1	-	17	1824	c.1728T>A	c.(1726-1728)TGT>TGA	p.C576*	KIAA0020_uc010mhc.1_Nonsense_Mutation_p.C575*|KIAA0020_uc003zhq.1_Nonsense_Mutation_p.C575*	NM_014878	NP_055693	Q15397	K0020_HUMAN	KIAA0020 protein	576						endoplasmic reticulum|nucleolus	RNA binding			ovary(1)	1				GBM - Glioblastoma multiforme(50;0.0319)		TTTTTGCAAAACAACCTGTAA	0.358													11	25					0	0	1	0	0		T	2807900	T	T	2807900	4	4	213	1	0	0	0	0	0	1	0	0	8168	41	2	5	226	5	KIAA0020	9	2807900	Nonsense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2690078	2807900	138405531	449	105886											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18504916	18504916	+	Frame_Shift_Del	DEL	T	-	-																															tgctcacgcacctgcgggggTggggcctcctactctctgag																								rs2277160	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:18504916delT	uc003zne.3	+	2	280	c.153delT	c.(151-153)GGTfs	p.G51fs	ADAMTSL1_uc003znb.2_Frame_Shift_Del_p.G51fs|ADAMTSL1_uc003znc.3_Frame_Shift_Del_p.G51fs	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	51	TSP type-1 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		CCTGCGGGGGTGGGGCCTCCT	0.627													19	44	---	---	---	---						.	-	18504916	-	-	18504916	7	5	213	1	0	1	0	1	0	0	0	0	274	1683	59	0	159	0	ADAMTSL1	9	18504916	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	15697016	18504916	122708515	450	105887											
ADAMTSL1	92949	broad.mit.edu	37	chr9	18777025	18777025	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcccccttcggctatctcaAgatccaccgcctcaagccct	7	8	7	19	2	2	1	2	0	1	1	5	1	3	1	6	2	1	1	6	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:18777025A>G	uc003zne.3	+	19	2925	c.2798A>G	c.(2797-2799)AAG>AGG	p.K933R		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	933	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		GGCTATCTCAAGATCCACCGC	0.657													29	56					0	0	1	0	0		G	18777025	G	G	18777025	3	3	213	1	0	0	0	0	1	0	0	0	274	72	3	3	2876	3	ADAMTSL1	9	18777025	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	272109	18777025	122436406	451	105888											
DENND4C	55667	broad.mit.edu	37	chr9	19346885	19346887	+	In_Frame_Del	DEL	CTT	-	-																															aactcataaagaacgttcaaCttctttgtcagcactggtgc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:19346885_19346887delCTT	uc003znq.2	+	18	3296_3298	c.3263_3265delCTT	c.(3262-3267)ACTTCT>ACT	p.S1089del	DENND4C_uc011lnc.1_In_Frame_Del_p.S419del|DENND4C_uc011lnd.1_In_Frame_Del_p.S377del|DENND4C_uc003znr.2_In_Frame_Del_p.S377del|DENND4C_uc003zns.2_In_Frame_Del_p.S271del|DENND4C_uc003znt.2_In_Frame_Del_p.S271del	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	1089						integral to membrane				ovary(1)|skin(1)	2						GAACGTTCAACTTCTTTGTCAGC	0.468													20	44	---	---	---	---						.	-	19346887	-	-	19346885	7	5	213	1	0	1	0	1	0	0	0	0	4441	565	20	0	3333	0	DENND4C	9	19346885	In_Frame_Del	DEL	CTT	TCGA-HU-A4H3-01A-21D-A25D-08	569860	19346885	121866546	452	105889											
KIAA1161	57462	broad.mit.edu	37	chr9	34372554	34372554	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcgagcagcccagcagggCgccatcgcggctgcaggagt	8	3	17	13	4	0	0	0	0	0	0	1	3	0	1	2	3	5	4	2	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:34372554C>T	uc003zue.3	-	3	555	c.388G>A	c.(388-390)GCC>ACC	p.A130T		NM_020702	NP_065753	Q6NSJ0	K1161_HUMAN	hypothetical protein LOC57462	130	Extracellular (Potential).				carbohydrate metabolic process	integral to membrane	hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|breast(1)|central_nervous_system(1)	3			LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.126)		CCCAGCAGGGCGCCATCGCGG	0.677													3	7					0	0	1	0	0		T	34372554	T	T	34372554	3	4	213	1	0	0	0	0	1	0	0	0	8227	768	27	1	1760	1	KIAA1161	9	34372554	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	15025669	34372554	106840877	453	105890											
VCP	7415	broad.mit.edu	37	chr9	35059794	35059794	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcacacagggggcagcttggCgggcctgtaggaggaatgga	9	5	19	8	1	0	0	0	0	0	0	0	3	0	3	1	7	1	4	1	7	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:35059794C>T	uc003zvy.2	-	14	2089	c.1700G>A	c.(1699-1701)CGC>CAC	p.R567H	VCP_uc003zvz.2_RNA|VCP_uc010mkh.1_Missense_Mutation_p.R236H|VCP_uc010mki.1_Missense_Mutation_p.R522H	NM_007126	NP_009057	P55072	TERA_HUMAN	valosin-containing protein	567					activation of caspase activity|double-strand break repair|endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|retrograde protein transport, ER to cytosol	cytosol|endoplasmic reticulum|microsome|nucleus|proteasome complex	ATP binding|ATPase activity|lipid binding|polyubiquitin binding|protein domain specific binding|protein phosphatase binding			upper_aerodigestive_tract(1)	1			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			GGCAGCTTGGCGGGCCTGTAG	0.413													17	56					0	0	1	0	0		T	35059794	T	T	35059794	3	4	213	1	0	0	0	0	1	0	0	0	17166	768	27	1	736	1	VCP	9	35059794	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	687240	35059794	106153637	454	105891											
PIGO	84720	broad.mit.edu	37	chr9	35091530	35091530	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagcttgagaagtgggggggCctgagaagggagtgaggaca	11	5	20	5	0	0	3	0	3	0	2	0	7	0	5	1	5	1	1	1	5	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:35091530C>G	uc003zwd.2	-	7	2750	c.2354G>C	c.(2353-2355)GGC>GCC	p.G785A	PIGO_uc003zwc.1_3'UTR|PIGO_uc003zwe.2_Intron|PIGO_uc003zwf.2_Intron|PIGO_uc003zwg.1_Missense_Mutation_p.G348A	NM_032634	NP_116023	Q8TEQ8	PIGO_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	785					C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane	transferase activity			large_intestine(1)|ovary(1)|skin(1)	3			LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00778)			AGTGGGGGGGCCTGAGAAGGG	0.597													24	59					0	0	1	0	0		G	35091530	G	G	35091530	3	3	213	1	0	0	0	0	1	0	0	0	11913	739	26	5	935	5	PIGO	9	35091530	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	31736	35091530	106121901	455	105892											
SIT1	27240	broad.mit.edu	37	chr9	35650182	35650182	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccacagttgactcaccCtggcagggcctccaagagtt	9	7	10	15	0	1	2	1	1	0	1	2	2	2	2	5	2	1	3	5	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:35650182C>A	uc003zxe.1	-	4	453	c.356G>T	c.(355-357)AGG>ATG	p.R119M	SIT1_uc003zxf.1_RNA	NM_014450	NP_055265	Q9Y3P8	SIT1_HUMAN	SHP2-interacting transmembrane adaptor protein	119	Cytoplasmic (Potential).				regulation of T cell activation|signal transduction	integral to plasma membrane	kinase binding|SH2 domain binding				0			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			TTGACTCACCCTGGCAGGGCC	0.577													10	33					2.17888e-05	2.2583e-05	1	1	0		A	35650182	A	A	35650182	3	1	213	1	0	0	0	0	1	0	0	0	14369	695	24	5	242	5	SIT1	9	35650182	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	558652	35650182	105563249	456	105893											
NPR2	4882	broad.mit.edu	37	chr9	35792877	35792877	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtttgtggtgacactacacGggcacttcaattggactgcc	9	11	11	10	1	1	1	1	1	0	0	1	2	1	2	1	3	2	2	1	3	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:35792877G>A	uc003zyd.2	+	1	472	c.472G>A	c.(472-474)GGG>AGG	p.G158R	NPR2_uc010mlb.2_Missense_Mutation_p.G158R	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	158	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	GACACTACACGGGCACTTCAA	0.567													34	63					0	0	1	0	0		A	35792877	A	A	35792877	3	1	213	1	0	0	0	0	1	0	0	0	10614	1116	39	1	474	1	NPR2	9	35792877	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	142695	35792877	105420554	457	105894											
PGM5	5239	broad.mit.edu	37	chr9	71002450	71002450	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ttgactttcatgccatcaagGgtttgctgactggacccagc	8	12	10	11	0	2	2	2	2	0	0	2	3	2	3	2	2	3	2	2	2	1	3	rs146547812	by1000genomes	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:71002450G>T	uc004agr.2	+	4	872	c.643G>T	c.(643-645)GGT>TGT	p.G215C		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	215					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2						TGCCATCAAGGGTTTGCTGAC	0.438													35	63					3.03874e-20	3.42265e-20	1	1	0		T	71002450	T	T	71002450	3	4	213	1	0	0	0	0	1	0	0	0	11820	1232	43	5	657	5	PGM5	9	71002450	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	35209573	71002450	70210981	458	105895											
MAMDC2	256691	broad.mit.edu	37	chr9	72741207	72741207	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatccagcaggggaatgacaAtgtcttttccctttacactc	10	12	8	11	0	1	1	0	1	1	0	4	3	3	2	2	2	2	1	2	2	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:72741207A>T	uc004ahm.2	+	6	1393	c.776A>T	c.(775-777)AAT>ATT	p.N259I	MAMDC2_uc004ahn.2_RNA	NM_153267	NP_694999	Q7Z304	MAMC2_HUMAN	MAM domain containing 2 precursor	259	MAM 2.					endoplasmic reticulum|membrane				central_nervous_system(1)|pancreas(1)	2						GGGAATGACAATGTCTTTTCC	0.557													23	31					0	0	1	0	0		T	72741207	T	T	72741207	3	4	213	1	0	0	0	0	1	0	0	0	9221	101	4	5	798	5	MAMDC2	9	72741207	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1738757	72741207	68472224	459	105896											
PRUNE2	158471	broad.mit.edu	37	chr9	79322953	79322953	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catccctgtttgcacatcacGggagtctagattgtaagacc	10	11	9	11	1	2	2	1	0	1	2	3	3	3	3	2	1	1	3	2	1	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:79322953G>A	uc010mpk.2	-	8	4361	c.4237C>T	c.(4237-4239)CGT>TGT	p.R1413C		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1413					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TGCACATCACGGGAGTCTAGA	0.453													18	28					0	0	1	0	0		A	79322953	A	A	79322953	3	1	213	1	0	0	0	0	1	0	0	0	12663	1116	39	1	5077	1	PRUNE2	9	79322953	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6581746	79322953	61890478	460	105897											
VPS13A	23230	broad.mit.edu	37	chr9	79824434	79824434	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aaatttccagtatccatattCgttatgaagatgatgtaagt	14	15	7	5	1	0	3	0	2	0	1	3	3	2	3	2	0	0	3	2	0	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:79824434C>T	uc004akr.2	+	6	741	c.481C>T	c.(481-483)CGT>TGT	p.R161C	VPS13A_uc004akp.3_Missense_Mutation_p.R161C|VPS13A_uc004akq.3_Missense_Mutation_p.R161C|VPS13A_uc004aks.2_Missense_Mutation_p.R161C	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	161			R -> H (in a colorectal cancer sample; somatic mutation).		Golgi to endosome transport|protein transport	intracellular	protein binding	p.R161H(1)		pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						TATCCATATTCGTTATGAAGA	0.274													9	20					0	0	1	0	0		T	79824434	T	T	79824434	3	4	213	1	0	0	0	0	1	0	0	0	17215	884	31	1	503	1	VPS13A	9	79824434	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	501481	79824434	61388997	461	105898											
CEP78	84131	broad.mit.edu	37	chr9	80858424	80858424	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacctgggctgagagtcttcGctataggagacctgatcttg	9	11	12	9	1	2	3	0	2	2	2	3	5	2	3	2	2	1	2	2	2	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:80858424G>A	uc004akx.2	+	5	926	c.650G>A	c.(649-651)CGC>CAC	p.R217H	CEP78_uc004aky.3_Missense_Mutation_p.R217H|CEP78_uc010mpp.2_Missense_Mutation_p.R217H|CEP78_uc011lsp.1_Missense_Mutation_p.R130H	NM_032171	NP_115547	Q5JTW2	CEP78_HUMAN	centrosomal protein 78kDa isoform b	217					G2/M transition of mitotic cell cycle	centrosome|cytosol				ovary(1)	1						GAGAGTCTTCGCTATAGGAGA	0.408													13	28					0	0	1	0	0		A	80858424	A	A	80858424	3	1	213	1	0	0	0	0	1	0	0	0	3265	1087	38	1	668	1	CEP78	9	80858424	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1033990	80858424	60355007	462	105899											
ZCCHC6	79670	broad.mit.edu	37	chr9	88925684	88925684	+	Silent	SNP	T	G	G	0	1	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	aaatggaagaacttcacaatTggcacctttgctgttgtaat	13	13	8	7	0	1	1	1	0	0	1	1	2	1	2	1	2	2	4	1	2	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:88925684T>G	uc004aoq.2	-	18	3530	c.3315A>C	c.(3313-3315)CCA>CCC	p.P1105P	ZCCHC6_uc010mqe.2_Silent_p.P43P|ZCCHC6_uc011ltf.1_Intron|ZCCHC6_uc004aor.2_RNA|ZCCHC6_uc004aos.2_RNA|ZCCHC6_uc004aot.2_Silent_p.P869P|ZCCHC6_uc004aou.2_Silent_p.P1105P	NM_024617	NP_078893	Q5VYS8	TUT7_HUMAN	zinc finger, CCHC domain containing 6	1105					RNA 3'-end processing		nucleic acid binding|RNA uridylyltransferase activity|zinc ion binding			ovary(2)	2						ACTTCACAATTGGCACCTTTG	0.343													12	31					0	0	1	0	0		G	88925684	G	G	88925684	2	3	213	1	0	0	0	0	0	0	0	1	17617	1799	63	5		5	ZCCHC6	9	88925684	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	8067260	88925684	52287747	463	105900											
S1PR3	1903	broad.mit.edu	37	chr9	91616486	91616486	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatgttcgtggcccttggggCgtccacctgcagcttactgg	4	12	13	12	2	0	0	0	0	0	0	2	0	1	0	3	4	3	3	3	4	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:91616486C>T	uc004aqe.2	+	2	767	c.371C>T	c.(370-372)GCG>GTG	p.A124V		NM_005226	NP_005217	Q99500	S1PR3_HUMAN	sphingosine-1-phosphate receptor 3	124	Helical; Name=3; (By similarity).				anatomical structure morphogenesis|elevation of cytosolic calcium ion concentration|inflammatory response|positive regulation of cell proliferation	integral to plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			ovary(2)|lung(1)|central_nervous_system(1)|skin(1)	5						GCCCTTGGGGCGTCCACCTGC	0.567											OREG0019291	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	44					0	0	1	0	0		T	91616486	T	T	91616486	3	4	213	1	0	0	0	0	1	0	0	0	13820	768	27	1	373	1	S1PR3	9	91616486	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2690802	91616486	49596945	464	105901											
NOL8	55035	broad.mit.edu	37	chr9	95064081	95064082	+	Frame_Shift_Ins	INS	-	T	T																															tagtttctcagcttcctcccINSttttcttttttcgttttgct																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:95064081_95064082insT	uc004arv.2	-	13	3263_3264	c.2926_2927insA	c.(2926-2928)AGGfs	p.R976fs	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Frame_Shift_Ins_p.R208fs|NOL8_uc011ltw.1_Frame_Shift_Ins_p.R908fs	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	976					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						AGCTTCCTCCCTTTTCTTTTTT	0.312													3	6	---	---	---	---						.	T	95064082	T	T	95064081	7	5	213	1	0	1	1	0	0	0	0	0	10546	681	24	0	596	0	NOL8	9	95064081	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	3447595	95064081	46149350	465	105902											
FGD3	89846	broad.mit.edu	37	chr9	95738814	95738814	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctggagagaactttccctgCgaggagggcttggaggctgg	7	8	18	8	1	0	1	0	0	0	1	1	6	1	4	1	6	2	3	1	6	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:95738814C>T	uc004asw.2	+	3	904	c.276C>T	c.(274-276)TGC>TGT	p.C92C	FGD3_uc004asx.2_Silent_p.C92C|FGD3_uc004asz.2_Silent_p.C92C	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	92					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						ACTTTCCCTGCGAGGAGGGCT	0.652													7	20					0	0	1	0	0		T	95738814	T	T	95738814	2	4	213	1	0	0	0	0	0	0	0	1	5848	776	27	1		1	FGD3	9	95738814	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	674733	95738814	45474617	466	105903											
ZNF169	169841	broad.mit.edu	37	chr9	97062749	97062749	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgacacttcaggtatacatcCtctctcactaatcacaagag	13	10	5	13	1	4	1	3	0	1	1	6	2	5	1	1	1	1	1	1	1	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:97062749C>A	uc004aum.1	+	5	1014	c.909C>A	c.(907-909)TCC>TCA	p.S303S		NM_194320	NP_919301	Q14929	ZN169_HUMAN	zinc finger protein 169	303	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.136)				GGTATACATCCTCTCTCACTA	0.552													29	78					4.87955e-14	5.37517e-14	1	1	0		A	97062749	A	A	97062749	2	1	213	1	0	0	0	0	0	0	0	1	17767	668	24	5		5	ZNF169	9	97062749	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1323935	97062749	44150682	467	105904											
FANCC	2176	broad.mit.edu	37	chr9	98003011	98003011	+	Frame_Shift_Del	DEL	T	-	-																															acataagcaccatattagaaTtttttggctttcatctacaa																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:98003011delT	uc004avh.2	-	4	527	c.265delA	c.(265-267)ATTfs	p.I89fs	FANCC_uc004avi.3_Frame_Shift_Del_p.I89fs|FANCC_uc010mrm.1_RNA|FANCC_uc011lul.1_RNA	NM_000136	NP_000127	Q00597	FANCC_HUMAN	Fanconi anemia, complementation group C	89					protein complex assembly	cytosol|nucleoplasm	protein binding			kidney(1)	1		Acute lymphoblastic leukemia(62;0.138)				CATATTAGAATTTTTTGGCTT	0.279			D|Mis|N|F|S			AML|leukemia		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				23	38	---	---	---	---						.	-	98003011	-	-	98003011	7	5	213	1	0	1	0	1	0	0	0	0	5678	1493	52	0	1459	0	FANCC	9	98003011	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	940262	98003011	43210420	468	105905											
PTCH1	5727	broad.mit.edu	37	chr9	98238403	98238403	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgatggacgtgagggccacGctggctcctgtgcgcttcag	5	9	15	12	3	1	2	1	2	0	0	2	3	2	3	2	3	1	3	2	3	0	1	rs2066830	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:98238403G>A	uc004avk.3	-	12	1829	c.1641C>T	c.(1639-1641)AGC>AGT	p.S547S	PTCH1_uc010mro.2_Silent_p.S396S|PTCH1_uc010mrp.2_Silent_p.S396S|PTCH1_uc010mrq.2_Silent_p.S396S|PTCH1_uc004avl.3_Silent_p.S396S|PTCH1_uc010mrr.2_Silent_p.S481S|PTCH1_uc004avm.3_Silent_p.S546S|PTCH1_uc010mrs.1_Silent_p.S215S	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	547	SSD.|Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity			skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				TGAGGGCCACGCTGGCTCCTG	0.592									Basal_Cell_Nevus_syndrome				12	13					0	0	1	0	0		A	98238403	A	A	98238403	2	1	213	1	0	0	0	0	0	0	0	1	12752	1078	38	1		1	PTCH1	9	98238403	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	235392	98238403	42975028	469	105906											
TBC1D2	55357	broad.mit.edu	37	chr9	100961816	100961816	+	Silent	SNP	C	T	T	0	0	0	1	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	tggaccatgcgcagctgccgCagctgtttcatgcggaaggg	7	8	15	11	3	1	0	1	0	0	0	1	2	1	2	2	3	5	5	2	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:100961816C>T	uc011lvb.1	-	13	2814	c.2634G>A	c.(2632-2634)CTG>CTA	p.L878L	TBC1D2_uc004ayp.2_Silent_p.L418L|TBC1D2_uc004ayq.2_Silent_p.L867L|TBC1D2_uc004ayr.2_Silent_p.L660L|TBC1D2_uc004ayo.3_3'UTR	NM_018421	NP_060891	Q9BYX2	TBD2A_HUMAN	TBC1 domain family, member 2	878	Potential.					cell junction|cytoplasmic membrane-bounded vesicle|nucleus	Rab GTPase activator activity			ovary(3)	3		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;2.55e-37)		GCAGCTGCCGCAGCTGTTTCA	0.637													77	160					0	0	1	0	0		T	100961816	T	T	100961816	2	4	213	1	0	0	0	0	0	0	0	1	15633	697	25	2		2	TBC1D2	9	100961816	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2723413	100961816	40251615	470	105907											
ANKS6	203286	broad.mit.edu	37	chr9	101518711	101518711	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggggactcaccctcatctgTgatggtgccactgctggagc	7	9	13	12	0	3	1	2	1	1	0	3	3	3	3	2	4	3	1	2	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:101518711T>C	uc004ayu.2	-	12	2338	c.2317A>G	c.(2317-2319)ACA>GCA	p.T773A	ANKS6_uc004ayt.2_Missense_Mutation_p.T472A|ANKS6_uc004ayv.1_Missense_Mutation_p.T236A|ANKS6_uc004ayw.1_Missense_Mutation_p.T356A|ANKS6_uc004ayx.1_RNA|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain	773	SAM.									ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				CCCTCATCTGTGATGGTGCCA	0.567													19	55					0	0	1	0	0		C	101518711	C	C	101518711	3	2	213	1	0	0	0	0	1	0	0	0	692	1696	59	3	314	3	ANKS6	9	101518711	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	556895	101518711	39694720	471	105908											
INVS	27130	broad.mit.edu	37	chr9	103054983	103054983	+	Frame_Shift_Del	DEL	G	-	-																															tagccgccctggcagtgcccGgggggaggcggtccatgctg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:103054983delG	uc004bap.1	+	14	2656	c.2444delG	c.(2443-2445)CGGfs	p.R815fs	INVS_uc011lve.1_Frame_Shift_Del_p.R719fs|INVS_uc004bao.1_Intron|INVS_uc004baq.1_Intron|INVS_uc004bar.1_Frame_Shift_Del_p.R719fs|INVS_uc010mtb.1_Frame_Shift_Del_p.R489fs	NM_014425	NP_055240	Q9Y283	INVS_HUMAN	inversin isoform a	815					negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	cytoplasm|membrane|microtubule|nucleus|spindle	calmodulin binding			ovary(2)	2		Acute lymphoblastic leukemia(62;0.056)				GGCAGTGCCCGGGGGGAGGCG	0.587													20	40	---	---	---	---						.	-	103054983	-	-	103054983	7	5	213	1	0	1	0	1	0	0	0	0	7803	1116	39	0	2494	0	INVS	9	103054983	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1536272	103054983	38158448	472	105909											
LPPR1	54886	broad.mit.edu	37	chr9	104071658	104071658	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	caatgggaacatttgtactgGggacctggaagtgatagaaa	14	9	13	5	0	0	2	0	1	0	1	0	5	0	5	1	4	2	1	1	4	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:104071658G>T	uc004bbb.2	+	5	950	c.551G>T	c.(550-552)GGG>GTG	p.G184V	LPPR1_uc011lvi.1_Missense_Mutation_p.G160V|LPPR1_uc004bbc.2_Missense_Mutation_p.G184V|LPPR1_uc010mtc.2_Missense_Mutation_p.G168V	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	184						integral to membrane	catalytic activity				0						ATTTGTACTGGGGACCTGGAA	0.498													29	56					1.77063e-15	1.96695e-15	1	1	0		T	104071658	T	T	104071658	3	4	213	1	0	0	0	0	1	0	0	0	8942	1232	43	5	565	5	LPPR1	9	104071658	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1016675	104071658	37141773	473	105910											
ALDOB	229	broad.mit.edu	37	chr9	104193086	104193086	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcatctgcagccaggatcccCtttccattggcaacaatgct	9	11	7	14	0	2	0	1	0	1	0	4	1	4	1	4	2	4	3	4	2	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:104193086C>A	uc004bbk.2	-	2	166	c.84G>T	c.(82-84)AAG>AAT	p.K28N		NM_000035	NP_000026	P05062	ALDOB_HUMAN	aldolase B, fructose-bisphosphate	28					fructose 1,6-bisphosphate metabolic process|fructose catabolic process|gluconeogenesis|glycolysis|NADH oxidation|positive regulation of ATPase activity|vacuolar proton-transporting V-type ATPase complex assembly	centriolar satellite|cytosol	ATPase binding|cytoskeletal protein binding|fructose binding|fructose-bisphosphate aldolase activity|identical protein binding			skin(1)	1		Acute lymphoblastic leukemia(62;0.0559)				CCAGGATCCCCTTTCCATTGG	0.443													19	28					6.49762e-13	7.1055e-13	1	1	0		A	104193086	A	A	104193086	3	1	213	1	0	0	0	0	1	0	0	0	508	680	24	5	1042	5	ALDOB	9	104193086	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	121428	104193086	37020345	474	105911											
GRIN3A	116443	broad.mit.edu	37	chr9	104432344	104432344	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtaaaatgaagtattacctTggggtcatgtattccagaaa	15	12	9	5	0	1	2	1	1	0	1	2	2	2	2	2	2	1	3	2	2	7	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:104432344T>C	uc004bbp.1	-	3	2951	c.2350A>G	c.(2350-2352)AAG>GAG	p.K784E	GRIN3A_uc004bbq.1_Missense_Mutation_p.K784E	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	784	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	AGTATTACCTTGGGGTCATGT	0.383													23	51					0	0	1	0	0		C	104432344	C	C	104432344	3	2	213	1	0	0	0	0	1	0	0	0	6799	1821	63	3	1025	3	GRIN3A	9	104432344	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	239258	104432344	36781087	475	105912											
PAPPA	5069	broad.mit.edu	37	chr9	119097332	119097332	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagctgccagagaggggagaCctacagccctgccgagcaga	11	3	14	13	1	0	3	0	0	0	3	0	6	0	3	4	2	6	2	4	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:119097332C>T	uc004bjn.2	+	13	3971	c.3590C>T	c.(3589-3591)ACC>ATC	p.T1197I	PAPPA_uc011lxp.1_Missense_Mutation_p.T892I|PAPPA_uc011lxq.1_Missense_Mutation_p.T572I	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1197					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						AGAGGGGAGACCTACAGCCCT	0.617													28	67					0	0	1	0	0		T	119097332	T	T	119097332	3	4	213	1	0	0	0	0	1	0	0	0	11451	507	18	4	3640	4	PAPPA	9	119097332	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	14664988	119097332	22116099	476	105913											
DAB2IP	153090	broad.mit.edu	37	chr9	124329464	124329464	+	Translation_Start_Site	SNP	C	T	T	0	0	0	1	1	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	ccaggggctgggggcccacaCgccatggagcccgactccct	6	4	14	17	2	0	0	0	0	0	0	1	2	1	1	5	5	1	1	5	5	0	0	rs142520673	by1000genomes	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:124329464C>T	uc004bln.2	+	1	66	c.-3C>T	c.(-5--1)CACGC>CATGC			NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform						activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						GGGGCCCACACGCCATGGAGC	0.582													65	116					0	0	1	0	0		T	124329464	T	T	124329464	1	4	213	1	0	0	0	0	0	0	0	0	4222	551	19	1		1	DAB2IP	9	124329464	Translation_Start_Site	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5232132	124329464	16883967	477	105914											
MORN5	254956	broad.mit.edu	37	chr9	124936889	124936889	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtcaaggactataggaaccGctttctaagaaacgcaggta	15	8	10	8	2	2	1	1	0	1	1	2	3	2	3	1	3	2	3	1	3	7	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:124936889G>A	uc004blw.2	+	4	484	c.422G>A	c.(421-423)CGC>CAC	p.R141H	MORN5_uc011lyn.1_Missense_Mutation_p.R141H|MORN5_uc011lyo.1_3'UTR	NM_198469	NP_940871	Q5VZ52	MORN5_HUMAN	MORN repeat containing 5	141											0						TATAGGAACCGCTTTCTAAGA	0.458													28	51					0	0	1	0	0		A	124936889	A	A	124936889	3	1	213	1	0	0	0	0	1	0	0	0	9729	1087	38	1	436	1	MORN5	9	124936889	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	607425	124936889	16276542	478	105915											
PTGS1	5742	broad.mit.edu	37	chr9	125152626	125152626	+	Splice_Site	SNP	T	C	C	0	1	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	tccttccaggagctcgtaggTgagcagctgtttcctggatg	6	12	13	10	1	0	1	0	1	0	0	4	3	3	3	3	3	3	5	3	3	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:125152626T>C	uc004bmg.1	+	10	1579	c.1444_splice	c.e10+2	p.G482_splice	PTGS1_uc011lys.1_Splice_Site_p.G420_splice|PTGS1_uc010mwb.1_Splice_Site_p.G336_splice|PTGS1_uc004bmf.1_Splice_Site_p.G445_splice|PTGS1_uc004bmh.1_Splice_Site_p.G373_splice|PTGS1_uc011lyt.1_Splice_Site_p.G373_splice	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1						cyclooxygenase pathway|hormone biosynthetic process|regulation of blood pressure|response to oxidative stress|xenobiotic metabolic process	endoplasmic reticulum membrane|Golgi apparatus|microsome|plasma membrane	heme binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peroxidase activity|prostaglandin-endoperoxide synthase activity			ovary(1)|skin(1)	2					Acetaminophen(DB00316)|Aspirin(DB00945)|Balsalazide(DB01014)|Bromfenac(DB00963)|Ciclopirox(DB01188)|Diclofenac(DB00586)|Diflunisal(DB00861)|Dipyrone(DB04817)|Etodolac(DB00749)|Fenoprofen(DB00573)|Flurbiprofen(DB00712)|gamma-Homolinolenic acid(DB00154)|Ibuprofen(DB01050)|Icosapent(DB00159)|Indomethacin(DB00328)|Ketoprofen(DB01009)|Ketorolac(DB00465)|Lumiracoxib(DB01283)|Meclofenamic acid(DB00939)|Mefenamic acid(DB00784)|Mesalazine(DB00244)|Minoxidil(DB00350)|Nabumetone(DB00461)|Naproxen(DB00788)|Phenacetin(DB03783)|Piroxicam(DB00554)|Rofecoxib(DB00533)|Salicyclic acid(DB00936)|Salsalate(DB01399)|Sulindac(DB00605)|Suprofen(DB00870)|Tenoxicam(DB00469)|Tolmetin(DB00500)	AGCTCGTAGGTGAGCAGCTGT	0.323													12	25					0	0	1	0	0		C	125152626	C	C	125152626	5	2	213	1	0	0	0	0	0	0	1	0	12778	1710	59	3	1484	3	PTGS1	9	125152626	Splice_Site	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	215737	125152626	16060805	479	105916											
NR5A1	2516	broad.mit.edu	37	chr9	127265430	127265430	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgcttgcgctgcgtcttgtCgatcttgcagctctggctct	2	14	12	13	4	4	0	0	0	4	0	5	1	4	0	0	1	4	5	0	1	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:127265430C>T	uc004boo.1	-	3	359	c.172G>A	c.(172-174)GAC>AAC	p.D58N		NM_004959	NP_004950	Q13285	STF1_HUMAN	nuclear receptor subfamily 5, group A, member 1	58	NR C4-type.|Nuclear receptor.				cell-cell signaling|male gonad development|positive regulation of transcription from RNA polymerase II promoter|primary sex determination|regulation of steroid biosynthetic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	enzyme binding|phospholipid binding|steroid hormone receptor activity|transcription coactivator activity|zinc ion binding				0						TGCGTCTTGTCGATCTTGCAG	0.657													4	8					0	0	1	0	0		T	127265430	T	T	127265430	3	4	213	1	0	0	0	0	1	0	0	0	10654	884	31	1	1233	1	NR5A1	9	127265430	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2112804	127265430	13948001	480	105917											
FAM102A	399665	broad.mit.edu	37	chr9	130710444	130710444	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctggtcccaccacccttacaCgtcagctgcagggaggaatc	9	7	10	15	1	1	0	1	0	0	0	3	2	2	2	3	3	3	2	3	3	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:130710444C>T	uc004bsx.1	-	6	601	c.522G>A	c.(520-522)ACG>ACA	p.T174T	FAM102A_uc004bsw.1_Silent_p.T32T|FAM102A_uc004bsy.1_Translation_Start_Site	NM_001035254	NP_001030331	Q5T9C2	F102A_HUMAN	early estrogen-induced gene 1 protein isoform a	174	Ser-rich.									ovary(1)	1						CACCCTTACACGTCAGCTGCA	0.627													26	48					0	0	1	0	0		T	130710444	T	T	130710444	2	4	213	1	0	0	0	0	0	0	0	1	5393	523	19	1		1	FAM102A	9	130710444	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3445014	130710444	10502987	481	105918											
NUP214	8021	broad.mit.edu	37	chr9	134103717	134103717	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgccagcgcaggaggattcGggtaagccccctggggaggg	7	5	18	11	2	0	0	0	0	0	0	1	3	0	3	3	6	3	2	3	6	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:134103717G>A	uc004cag.2	+	33	6184	c.6073G>A	c.(6073-6075)GGG>AGG	p.G2025R	NUP214_uc004cah.2_Missense_Mutation_p.G2015R|NUP214_uc004cai.2_Missense_Mutation_p.G1455R|NUP214_uc010mzg.2_RNA|NUP214_uc011mcg.1_Missense_Mutation_p.G851R	NM_005085	NP_005076	P35658	NU214_HUMAN	nucleoporin 214kDa	2025	Pro/Ser/Thr-rich.|11 X 3 AA approximate repeats.|11 X 5 AA approximate repeats.|18 X 4 AA approximate repeats.				carbohydrate metabolic process|glucose transport|mRNA metabolic process|protein export from nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore|nucleoplasm	protein binding			breast(7)|lung(3)|skin(3)|ovary(2)|central_nervous_system(1)	16	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;3.42e-05)|Epithelial(140;0.000256)		AGGAGGATTCGGGTAAGCCCC	0.597			T	DEK|SET|ABL1	AML|T-ALL								11	34					0	0	1	0	0		A	134103717	A	A	134103717	3	1	213	1	0	0	0	0	1	0	0	0	10781	1130	39	1	6203	1	NUP214	9	134103717	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3393273	134103717	7109714	482	105919											
BAT2L1	84726	broad.mit.edu	37	chr9	134319684	134319684	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagggcgtcttagatctgtcGtatgggccaggaccaagcct	9	9	13	10	2	2	1	0	0	2	1	3	2	2	2	3	3	1	1	3	3	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:134319684G>A	uc004can.3	+	5	637	c.582G>A	c.(580-582)TCG>TCA	p.S194S	BAT2L1_uc004cam.1_Silent_p.S194S	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	194							protein binding				0						TAGATCTGTCGTATGGGCCAG	0.557													4	9					0	0	1	0	0		A	134319684	A	A	134319684	2	1	213	1	0	0	0	0	0	0	0	1	1321	1132	40	1		1	BAT2L1	9	134319684	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	215967	134319684	6893747	483	105920											
BAT2L1	84726	broad.mit.edu	37	chr9	134330506	134330508	+	In_Frame_Del	DEL	TGA	-	-																															tctgagaaactgaagttcagTgatgatgaagaggaggaaga																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:134330506_134330508delTGA	uc004can.3	+	9	1219_1221	c.1164_1166delTGA	c.(1162-1167)AGTGAT>AGT	p.D390del	BAT2L1_uc010mzj.1_5'UTR	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	390							protein binding				0						TGAAGTTCAGTGATGATGAAGAG	0.478													10	20	---	---	---	---						.	-	134330508	-	-	134330506	7	5	213	1	0	1	0	1	0	0	0	0	1321	1693	59	0	1198	0	BAT2L1	9	134330506	In_Frame_Del	DEL	TGA	TCGA-HU-A4H3-01A-21D-A25D-08	10822	134330506	6882925	484	105921											
POMT1	10585	broad.mit.edu	37	chr9	134390826	134390827	+	Frame_Shift_Ins	INS	-	C	C																															ttccaggcatgatgttgcagINScccccctgagcccccattca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:134390826_134390827insC	uc004cav.2	+	13	1457_1458	c.1255_1256insC	c.(1255-1257)GCCfs	p.A419fs	POMT1_uc004cax.2_Frame_Shift_Ins_p.A397fs|POMT1_uc011mcj.1_Frame_Shift_Ins_p.A175fs|POMT1_uc004cau.2_Frame_Shift_Ins_p.A397fs|POMT1_uc004caw.2_Frame_Shift_Ins_p.A343fs|POMT1_uc011mck.1_Frame_Shift_Ins_p.A280fs|POMT1_uc011mcl.1_Frame_Shift_Ins_p.A245fs|POMT1_uc011mcm.1_Frame_Shift_Ins_p.A367fs|POMT1_uc011mcn.1_Frame_Shift_Ins_p.A122fs	NM_007171	NP_009102	Q9Y6A1	POMT1_HUMAN	protein-O-mannosyltransferase 1 isoform a	419	MIR 2.				multicellular organismal development|protein O-linked glycosylation	endoplasmic reticulum membrane|integral to membrane	dolichyl-phosphate-mannose-protein mannosyltransferase activity|metal ion binding			upper_aerodigestive_tract(1)	1		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.65e-05)|Epithelial(140;0.000259)		TGATGTTGCAGCCCCCCTGAGC	0.505													41	91	---	---	---	---						.	C	134390827	C	C	134390826	7	5	213	1	0	1	1	0	0	0	0	0	12264	971	34	0	1301	0	POMT1	9	134390826	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	60320	134390826	6822605	485	105922											
GTF3C5	9328	broad.mit.edu	37	chr9	135929231	135929231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagataacaggcccctggcGcagcctatggattcgatttg	9	9	11	12	2	0	1	0	0	0	1	1	3	0	2	4	3	2	1	4	3	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:135929231G>A	uc004cci.3	+	6	1227	c.890G>A	c.(889-891)CGC>CAC	p.R297H	GTF3C5_uc010mzz.2_Missense_Mutation_p.R172H|GTF3C5_uc004ccj.3_Missense_Mutation_p.R297H	NM_012087	NP_036219	Q9Y5Q8	TF3C5_HUMAN	general transcription factor IIIC, polypeptide 5	297						transcription factor TFIIIC complex	DNA binding|protein binding				0				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		GGCCCCTGGCGCAGCCTATGG	0.493													13	27					0	0	1	0	0		A	135929231	A	A	135929231	3	1	213	1	0	0	0	0	1	0	0	0	6892	1087	38	1	912	1	GTF3C5	9	135929231	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1538405	135929231	5284200	486	105923											
RALGDS	5900	broad.mit.edu	37	chr9	136031317	136031317	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcagcttgggctgagggtaCtgtgacctgcaaccaagaag	11	7	14	9	0	0	3	0	2	0	1	0	3	0	3	2	2	5	5	2	2	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:136031317C>T	uc011mcw.1	-	5	513	c.232G>A	c.(232-234)GTA>ATA	p.V78I	GBGT1_uc004ccx.2_Silent_p.Q18Q|GBGT1_uc010nab.2_Silent_p.Q65Q|GBGT1_uc011mcx.1_Silent_p.Q48Q|GBGT1_uc004ccw.2_Silent_p.Q65Q|GBGT1_uc010nac.1_5'UTR|GBGT1_uc004ccy.1_Silent_p.Q65Q	NM_001042368	NP_001035827	Q12967	GNDS_HUMAN	ral guanine nucleotide dissociation stimulator	Error:Variant_position_missing_in_Q12967_after_alignment					nerve growth factor receptor signaling pathway|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol	Ral guanyl-nucleotide exchange factor activity			large_intestine(1)|lung(1)|ovary(1)	3				OV - Ovarian serous cystadenocarcinoma(145;3.66e-06)|Epithelial(140;2.77e-05)		GCTGAGGGTACTGTGACCTGC	0.562			T	CIITA	PMBL|Hodgkin Lymphona|								31	78					0	0	1	0	0		T	136031317	T	T	136031317	3	4	213	1	0	0	0	0	1	0	0	0	13041	564	20	4		4	RALGDS	9	136031317	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	102086	136031317	5182114	487	105924											
SNAPC4	6621	broad.mit.edu	37	chr9	139274297	139274297	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagcagagttacctggggtgCtctgggcacttgaggatgcc	8	9	15	9	0	1	2	0	1	1	1	1	3	1	3	2	4	4	4	2	4	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:139274297C>T	uc004chh.2	-	20	2528	c.2519G>A	c.(2518-2520)AGC>AAC	p.S840N		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	840					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		ACCTGGGGTGCTCTGGGCACT	0.597													4	22					0	0	1	0	0		T	139274297	T	T	139274297	3	4	213	1	0	0	0	0	1	0	0	0	14862	797	28	2	1902	2	SNAPC4	9	139274297	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3242980	139274297	1939134	488	105925											
SNAPC4	6621	broad.mit.edu	37	chr9	139277746	139277746	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcagggacctgcaccggactCgtctcctctccaggagccgc	6	6	12	17	3	2	0	0	0	2	0	5	3	2	3	5	3	2	2	5	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:139277746C>T	uc004chh.2	-	15	1884	c.1875G>A	c.(1873-1875)ACG>ACA	p.T625T		NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,	625					snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		GCACCGGACTCGTCTCCTCTC	0.721													12	25					0	0	1	0	0		T	139277746	T	T	139277746	2	4	213	1	0	0	0	0	0	0	0	1	14862	871	31	1		1	SNAPC4	9	139277746	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3449	139277746	1935685	489	105926											
UAP1L1	91373	broad.mit.edu	37	chr9	139973715	139973715	+	Missense_Mutation	SNP	A	G	G	1	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	gtcttggctgcaggtggtggAaaaggcataccccgaggagc	9	7	16	9	1	1	0	0	0	1	0	1	3	1	2	2	6	3	3	2	6	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:139973715A>G	uc010ncb.2	+	5	883	c.851A>G	c.(850-852)GAA>GGA	p.E284G	UAP1L1_uc004cla.3_Missense_Mutation_p.E161G	NM_207309	NP_997192	Q3KQV9	UAP1L_HUMAN	UDP-N-acteylglucosamine pyrophosphorylase 1-like	284							nucleotidyltransferase activity			ovary(1)	1	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)		CAGGTGGTGGAAAAGGCATAC	0.711													8	36					0	0	1	0	0		G	139973715	G	G	139973715	3	3	213	1	0	0	0	0	1	0	0	0	16852	246	9	3	869	3	UAP1L1	9	139973715	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	695969	139973715	1239716	490	105927											
MAN1B1	11253	broad.mit.edu	37	chr9	139990814	139990814	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgtggatccccgcccGgaaggagatccgcagaggac	8	4	14	15	3	0	2	0	0	0	2	2	6	2	5	6	4	0	1	6	4	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:139990814G>A	uc004cld.2	+	4	626	c.591G>A	c.(589-591)CCG>CCA	p.P197P	MAN1B1_uc004clc.2_Silent_p.P98P|MAN1B1_uc011meo.1_Silent_p.P98P|MAN1B1_uc011mep.1_Silent_p.P197P|MAN1B1_uc010ncc.2_RNA	NM_016219	NP_057303	Q9UKM7	MA1B1_HUMAN	alpha 1,2-mannosidase	197	Lumenal (Potential).				oligosaccharide metabolic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|endoplasmic reticulum quality control compartment|integral to membrane	alpha-mannosidase activity|calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			ovary(1)|central_nervous_system(1)	2	all_cancers(76;0.0926)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;3.08e-05)|Epithelial(140;0.000513)		ATCCCCGCCCGGAAGGAGATC	0.597													15	16					0	0	1	0	0		A	139990814	A	A	139990814	2	1	213	1	0	0	0	0	0	0	0	1	9230	1103	39	1		1	MAN1B1	9	139990814	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	17099	139990814	1222617	491	105928											
COBRA1	25920	broad.mit.edu	37	chr9	140166984	140166984	+	Silent	SNP	C	T	T	0	0	0	1	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	agaacgtgcaccggcacgcgCtgcggctcctcattcacctg	7	7	11	16	5	2	1	2	0	0	1	3	1	3	1	3	2	3	4	3	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:140166984C>T	uc004cmm.3	+	12	1716	c.1513C>T	c.(1513-1515)CTG>TTG	p.L505L		NM_015456	NP_056271	Q8WX92	NELFB_HUMAN	cofactor of BRCA1	505					negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleoplasm	protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.137)	OV - Ovarian serous cystadenocarcinoma(145;9.42e-05)|Epithelial(140;0.000766)		CCGGCACGCGCTGCGGCTCCT	0.701													7	17					0	0	1	0	0		T	140166984	T	T	140166984	2	4	213	1	0	0	0	0	0	0	0	1	3658	796	28	2		2	COBRA1	9	140166984	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	176170	140166984	1046447	492	105929											
ARRDC1	92714	broad.mit.edu	37	chr9	140508883	140508883	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgcctgccttgccccagtcgGccctgccgggctgcagcctc	2	8	12	19	2	0	0	0	0	0	0	2	0	0	0	7	2	6	2	7	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr9:140508883G>A	uc004cns.2	+	6	825	c.751G>A	c.(751-753)GCC>ACC	p.A251T	ARRDC1_uc004cnt.2_Missense_Mutation_p.A126T|ARRDC1_uc004cnu.2_RNA|ARRDC1_uc004cnv.2_Missense_Mutation_p.A231T|ARRDC1_uc004cnw.2_Missense_Mutation_p.A126T|ARRDC1_uc004cnp.1_Missense_Mutation_p.A251T|ARRDC1_uc004cnq.1_Missense_Mutation_p.A233T|ARRDC1_uc011mfb.1_Missense_Mutation_p.A126T|ARRDC1_uc004cnx.1_Missense_Mutation_p.A126T|ARRDC1_uc004cny.2_RNA	NM_152285	NP_689498	Q8N5I2	ARRD1_HUMAN	arrestin domain containing 1	251											0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.000273)|Epithelial(140;0.000464)		GCCCCAGTCGGCCCTGCCGGG	0.682													41	93					0	0	1	0	0		A	140508883	A	A	140508883	3	1	213	1	0	0	0	0	1	0	0	0	983	1203	42	2	773	2	ARRDC1	9	140508883	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	341899	140508883	704548	493	105930											
TUBB8	347688	broad.mit.edu	37	chr10	93397	93397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctgaaaatggcagccgccGttaggtagcggccgtgacgg	8	6	15	12	5	0	2	0	2	0	0	0	2	0	2	4	4	2	3	4	4	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:93397G>A	uc001ifi.2	-	4	935	c.935C>T	c.(934-936)ACG>ATG	p.T312M	TUBB8_uc009xhe.2_Missense_Mutation_p.T275M|TUBB8_uc010pzs.1_Missense_Mutation_p.T240M	NM_177987	NP_817124	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 isoform 1	312					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		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)		GGCAGCCGCCGTTAGGTAGCG	0.537													41	97					0	0	1	0	0		A	93397	A	A	93397	3	1	213	1	0	0	0	0	1	0	0	0	16787	1145	40	1	403	1	TUBB8	10	93397	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		93397	135441350	494	105931											
KLF6	1316	broad.mit.edu	37	chr10	3824017	3824017	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagggcagctccccgggcacGcaaccccacagttgagaagg	10	3	14	14	2	0	1	0	1	0	1	1	3	1	1	4	3	2	5	4	3	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:3824017G>A	uc001iha.2	-	2	759	c.492C>T	c.(490-492)TGC>TGT	p.C164C	KLF6_uc010qaj.1_Silent_p.C164C|KLF6_uc010qak.1_RNA|KLF6_uc010qal.1_Silent_p.C164C|KLF6_uc001ihb.2_Silent_p.C164C	NM_001300	NP_001291	Q99612	KLF6_HUMAN	Kruppel-like factor 6 isoform A	164					B cell differentiation	nucleus	zinc ion binding			central_nervous_system(3)|lung(1)	4				Colorectal(1;0.238)		CCCCGGGCACGCAACCCCACA	0.627											OREG0019980	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	81					0	0	1	0	0		A	3824017	A	A	3824017	2	1	213	1	0	0	0	0	0	0	0	1	8366	1079	38	1		1	KLF6	10	3824017	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3730620	3824017	131710730	495	105932											
C10orf18	54906	broad.mit.edu	37	chr10	5769037	5769037	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcatagattttggaggcaaGcagatgggtctgcatgggtt	9	12	15	5	0	1	2	0	0	1	2	1	3	1	3	0	4	3	5	0	4	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:5769037G>A	uc001iij.2	+	10	1063	c.438G>A	c.(436-438)AAG>AAA	p.K146K		NM_017782	NP_060252	Q5VWN6	CJ018_HUMAN	hypothetical protein LOC54906	146										ovary(1)|central_nervous_system(1)	2						TTGGAGGCAAGCAGATGGGTC	0.284													26	58					0	0	1	0	0		A	5769037	A	A	5769037	2	1	213	1	0	0	0	0	0	0	0	1	1599	962	34	2		2	C10orf18	10	5769037	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1945020	5769037	129765710	496	105933											
PRPF18	8559	broad.mit.edu	37	chr10	13639491	13639491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atttcaagcgtagtgagctcGccaaaaaagaagaggaagca	17	6	11	7	2	1	3	1	1	0	2	2	4	1	4	1	1	3	3	1	1	7	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:13639491G>A	uc001imp.2	+	2	248	c.100G>A	c.(100-102)GCC>ACC	p.A34T	PRPF18_uc001imq.2_Intron	NM_003675	NP_003666	Q99633	PRP18_HUMAN	PRP18 pre-mRNA processing factor 18 homolog	34					mRNA processing|RNA splicing	nuclear speck|spliceosomal complex				central_nervous_system(1)	1						TAGTGAGCTCGCCAAAAAAGA	0.289													3	22					0	0	1	0	0		A	13639491	A	A	13639491	3	1	213	1	0	0	0	0	1	0	0	0	12585	1087	38	1	106	1	PRPF18	10	13639491	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7870454	13639491	121895256	497	105934											
FAM107B	83641	broad.mit.edu	37	chr10	14816397	14816397	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggtgacttgaattccgattcGcactgccatttctctctgca	7	14	8	12	2	2	2	0	2	2	0	5	3	3	2	2	1	2	2	2	1	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:14816397G>A	uc001ina.1	-	1	500	c.266C>T	c.(265-267)GCG>GTG	p.A89V	FAM107B_uc010qbu.1_RNA	NM_031453	NP_113641	Q9H098	F107B_HUMAN	hypothetical protein LOC83641	Error:Variant_position_missing_in_Q9H098_after_alignment										breast(4)	4						ATTCCGATTCGCACTGCCATT	0.602													74	136					0	0	1	0	0		A	14816397	A	A	14816397	3	1	213	1	0	0	0	0	1	0	0	0	5401	1087	38	1	674	1	FAM107B	10	14816397	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1176906	14816397	120718350	498	105935											
TRDMT1	1787	broad.mit.edu	37	chr10	17201173	17201173	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggcttgaaagggtaatggcTctgactgaagctttgcaata	11	11	13	6	0	1	3	0	3	1	0	1	3	1	3	0	3	2	5	0	3	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:17201173T>C	uc001iop.2	-	7	563	c.515A>G	c.(514-516)GAG>GGG	p.E172G	TRDMT1_uc001ioq.2_Missense_Mutation_p.E148G|TRDMT1_uc001ior.2_Missense_Mutation_p.E126G|TRDMT1_uc001ios.2_Missense_Mutation_p.E101G|TRDMT1_uc009xjt.2_Missense_Mutation_p.E91G|TRDMT1_uc010qcc.1_Missense_Mutation_p.E101G|TRDMT1_uc010qcd.1_Intron|TRDMT1_uc009xjs.1_Missense_Mutation_p.E89G|TRDMT1_uc009xju.1_RNA	NM_004412	NP_004403	O14717	TRDMT_HUMAN	tRNA aspartic acid methyltransferase 1 isoform	172					tRNA processing	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|RNA binding			ovary(1)	1						GGGTAATGGCTCTGACTGAAG	0.308													20	52					0	0	1	0	0		C	17201173	C	C	17201173	3	2	213	1	0	0	0	0	1	0	0	0	16493	1551	54	3	680	3	TRDMT1	10	17201173	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2384776	17201173	118333574	499	105936											
ENKUR	219670	broad.mit.edu	37	chr10	25273749	25273749	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcttcttccagcctctgcTtgcggatcttctttggtata	4	19	7	11	1	5	0	0	0	5	0	6	1	6	1	2	2	3	2	2	2	2	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:25273749T>C	uc001isg.1	-	5	845	c.680A>G	c.(679-681)AAG>AGG	p.K227R	ENKUR_uc001ish.1_Missense_Mutation_p.K165R	NM_145010	NP_659447	Q8TC29	ENKUR_HUMAN	enkurin	227						cilium|flagellum	calmodulin binding|SH3 domain binding				0						CAGCCTCTGCTTGCGGATCTT	0.388													17	34					0	0	1	0	0		C	25273749	C	C	25273749	3	2	213	1	0	0	0	0	1	0	0	0	5128	1609	56	3	98	3	ENKUR	10	25273749	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	8072576	25273749	110260998	500	105937											
ARMC4	55130	broad.mit.edu	37	chr10	28233746	28233746	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggtgacagagccactcaccTtacatttgacttcatcggtt	10	12	8	11	1	2	3	2	2	0	1	3	3	2	3	2	2	2	1	2	2	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:28233746T>C	uc009xky.2	-	11	1630	c.1532A>G	c.(1531-1533)AAG>AGG	p.K511R	ARMC4_uc010qds.1_Missense_Mutation_p.K36R|ARMC4_uc010qdt.1_Missense_Mutation_p.K203R|ARMC4_uc001itz.2_Missense_Mutation_p.K511R|ARMC4_uc010qdu.1_Missense_Mutation_p.K203R	NM_018076	NP_060546	Q5T2S8	ARMC4_HUMAN	armadillo repeat containing 4	511	ARM 1.						binding			ovary(4)|skin(2)	6						GCCACTCACCTTACATTTGAC	0.493													32	72					0	0	1	0	0		C	28233746	C	C	28233746	3	2	213	1	0	0	0	0	1	0	0	0	954	1623	56	3	1642	3	ARMC4	10	28233746	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2959997	28233746	107301001	501	105938											
LYZL1	84569	broad.mit.edu	37	chr10	29599965	29599965	+	Missense_Mutation	SNP	A	G	G	1	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	gcagagacctgtccgagtggAaaaaaggctgtgaggtttcc	11	8	14	8	1	0	2	0	1	0	1	2	5	2	3	3	3	0	3	3	3	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:29599965A>G	uc001iul.2	+	5	619	c.562A>G	c.(562-564)AAA>GAA	p.K188E		NM_032517	NP_115906	Q6UWQ5	LYZL1_HUMAN	lysozyme-like 1	142					cell wall macromolecule catabolic process	extracellular region	lysozyme activity				0		Breast(68;0.203)				GTCCGAGTGGAAAAAAGGCTG	0.512													47	94					0	0	1	0	0		G	29599965	G	G	29599965	3	3	213	1	0	0	0	0	1	0	0	0	9149	247	9	3	580	3	LYZL1	10	29599965	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1366219	29599965	105934782	502	105939											
SVIL	6840	broad.mit.edu	37	chr10	29747513	29747513	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgatctgattggaaacttcCgtgtcctagagaagaggagg	11	10	14	6	1	1	4	0	2	1	2	3	7	3	6	2	3	1	0	2	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:29747513C>T	uc001iut.1	-	37	7161	c.6408G>A	c.(6406-6408)ACG>ACA	p.T2136T	LOC387647_uc001iuo.1_Intron|LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron|SVIL_uc010qdw.1_Silent_p.T1050T|SVIL_uc001iuu.1_Silent_p.T1710T	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	2136					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TGGAAACTTCCGTGTCCTAGA	0.542													36	50					0	0	1	0	0		T	29747513	T	T	29747513	2	4	213	1	0	0	0	0	0	0	0	1	15446	639	23	1		1	SVIL	10	29747513	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	147548	29747513	105787234	503	105940											
SVIL	6840	broad.mit.edu	37	chr10	29813557	29813557	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcggccaagcttagagtggaGgaatcaggttctccttgctc	8	11	12	10	1	2	1	1	0	1	1	5	3	2	3	2	4	2	3	2	4	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:29813557G>A	uc001iut.1	-	14	3183	c.2430C>T	c.(2428-2430)TCC>TCT	p.S810S	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Silent_p.S384S	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	810					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TTAGAGTGGAGGAATCAGGTT	0.468													52	84					0	0	1	0	0		A	29813557	A	A	29813557	2	1	213	1	0	0	0	0	0	0	0	1	15446	987	35	4		4	SVIL	10	29813557	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	66044	29813557	105721190	504	105941											
ZNF438	220929	broad.mit.edu	37	chr10	31133959	31133959	+	Frame_Shift_Del	DEL	T	-	-																															gtatttaaaatagcccacagTttggaagggtcctcacagtt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:31133959delT	uc010qdz.1	-	8	2853	c.2418delA	c.(2416-2418)AAAfs	p.K806fs	ZNF438_uc001ivn.2_Frame_Shift_Del_p.K757fs|ZNF438_uc010qdy.1_Frame_Shift_Del_p.K796fs|ZNF438_uc001ivo.3_Frame_Shift_Del_p.K370fs|ZNF438_uc009xlg.2_Frame_Shift_Del_p.K806fs|ZNF438_uc001ivp.3_Frame_Shift_Del_p.K796fs|ZNF438_uc010qea.1_Frame_Shift_Del_p.K806fs|ZNF438_uc010qeb.1_Frame_Shift_Del_p.K806fs	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	806					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				TAGCCCACAGTTTGGAAGGGT	0.512													83	182	---	---	---	---						.	-	31133959	-	-	31133959	7	5	213	1	0	1	0	1	0	0	0	0	17935	1722	60	0	72	0	ZNF438	10	31133959	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	1320402	31133959	104400788	505	105942											
ZEB1	6935	broad.mit.edu	37	chr10	31809766	31809766	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaaaatccagtcgctacaaaCagttgtaaaagtgaaaagtt	18	9	8	6	1	0	1	0	1	0	0	2	2	1	1	1	0	2	4	1	0	8	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:31809766C>T	uc001ivs.3	+	7	1566	c.1503C>T	c.(1501-1503)AAC>AAT	p.N501N	ZEB1_uc001ivr.3_Silent_p.N283N|ZEB1_uc010qee.1_Silent_p.N283N|ZEB1_uc010qef.1_Silent_p.N283N|ZEB1_uc009xlj.1_Silent_p.N427N|ZEB1_uc010qeg.1_Silent_p.N360N|ZEB1_uc009xlk.1_Silent_p.N283N|ZEB1_uc001ivt.3_Silent_p.N283N|ZEB1_uc001ivu.3_Silent_p.N502N|ZEB1_uc001ivv.3_Silent_p.N481N|ZEB1_uc010qeh.1_Silent_p.N434N|ZEB1_uc009xlo.1_Silent_p.N484N|ZEB1_uc009xlp.2_Silent_p.N485N	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	501					cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				TCGCTACAAACAGTTGTAAAA	0.378													27	46					0	0	1	0	0		T	31809766	T	T	31809766	2	4	213	1	0	0	0	0	0	0	0	1	17648	477	17	4		4	ZEB1	10	31809766	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	675807	31809766	103724981	506	105943											
ZEB1	6935	broad.mit.edu	37	chr10	31815922	31815922	+	Silent	SNP	C	T	T	0	0	0	1	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	acaagggaagaggatgaagaCagtgaaaaagaggaagagga	21	2	16	2	0	0	6	0	2	0	4	0	10	0	10	0	4	0	0	0	4	6	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:31815922C>T	uc001ivs.3	+	9	3168	c.3105C>T	c.(3103-3105)GAC>GAT	p.D1035D	ZEB1_uc001ivr.3_Silent_p.D817D|ZEB1_uc010qee.1_Silent_p.D817D|ZEB1_uc010qef.1_Silent_p.D817D|ZEB1_uc001ivt.3_Silent_p.D817D|ZEB1_uc001ivu.3_Silent_p.D1036D|ZEB1_uc001ivv.3_Silent_p.D1015D|ZEB1_uc010qeh.1_Silent_p.D968D|ZEB1_uc009xlp.2_Silent_p.D1019D	NM_030751	NP_110378	P37275	ZEB1_HUMAN	zinc finger E-box binding homeobox 1 isoform b	1035	Glu-rich (acidic).				cell proliferation|immune response|negative regulation of transcription from RNA polymerase II promoter|positive regulation of neuron differentiation	cytoplasm	E-box binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(3)|central_nervous_system(2)	5		Prostate(175;0.0156)				AGGATGAAGACAGTgaaaaag	0.299													8	14					0	0	1	0	0		T	31815922	T	T	31815922	2	4	213	1	0	0	0	0	0	0	0	1	17648	477	17	4		4	ZEB1	10	31815922	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6156	31815922	103718825	507	105944											
PARD3	56288	broad.mit.edu	37	chr10	34626308	34626308	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catactctgacgtccaaatcCttctcgttgaaaagcaagaa	14	10	6	11	2	2	3	0	2	2	1	5	3	4	3	2	0	2	2	2	0	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:34626308C>A	uc010qej.1	-	17	2464	c.2464G>T	c.(2464-2466)GGA>TGA	p.G822*	PARD3_uc010qek.1_Nonsense_Mutation_p.G819*|PARD3_uc010qel.1_Nonsense_Mutation_p.G822*|PARD3_uc010qem.1_Nonsense_Mutation_p.G806*|PARD3_uc010qen.1_Nonsense_Mutation_p.G806*|PARD3_uc010qeo.1_Nonsense_Mutation_p.G806*|PARD3_uc010qep.1_Nonsense_Mutation_p.G762*|PARD3_uc010qeq.1_Nonsense_Mutation_p.G762*|PARD3_uc001ixo.1_Nonsense_Mutation_p.G536*|PARD3_uc001ixp.1_Nonsense_Mutation_p.G684*|PARD3_uc001ixq.1_Nonsense_Mutation_p.G806*|PARD3_uc001ixr.1_Nonsense_Mutation_p.G819*|PARD3_uc001ixt.1_Nonsense_Mutation_p.G640*|PARD3_uc001ixu.1_Nonsense_Mutation_p.G765*|PARD3_uc001ixs.1_Nonsense_Mutation_p.G475*	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	822	Interacts with PRKCZ (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				CGTCCAAATCCTTCTCGTTGA	0.343													17	27					1.15088e-07	1.21072e-07	1	1	0		A	34626308	A	A	34626308	4	1	213	1	0	0	0	0	0	1	0	0	11462	690	24	5	1677	5	PARD3	10	34626308	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2810386	34626308	100908439	508	105945											
GDF10	2662	broad.mit.edu	37	chr10	48438501	48438501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagcgaccatgtcctgggcGctggggcccaacgtggcggc	6	5	16	14	4	0	0	0	0	0	0	1	1	1	0	3	5	2	1	3	5	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:48438501G>A	uc001jfb.2	-	1	666	c.210C>T	c.(208-210)AGC>AGT	p.S70S	GDF10_uc009xnp.2_Silent_p.S70S|GDF10_uc009xnq.1_Silent_p.S70S	NM_004962	NP_004953	P55107	BMP3B_HUMAN	growth differentiation factor 10 precursor	70					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			lung(1)|central_nervous_system(1)	2						TGTCCTGGGCGCTGGGGCCCA	0.741													3	9					0	0	1	0	0		A	48438501	A	A	48438501	2	1	213	1	0	0	0	0	0	0	0	1	6326	1078	38	1		1	GDF10	10	48438501	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	13812193	48438501	87096246	509	105946											
AGAP7	653268	broad.mit.edu	37	chr10	51465445	51465445	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgtccttggataggccatcGcttttagagctggagatggg	8	12	14	7	1	0	2	0	0	0	2	2	4	1	3	2	4	1	2	2	4	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:51465445G>A	uc001jio.2	-	7	1137	c.1011C>T	c.(1009-1011)AGC>AGT	p.S337S	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron	NM_001077685	NP_001071153	Q5VUJ5	AGAP7_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	337	PH.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						ATAGGCCATCGCTTTTAGAGC	0.542													30	146					0	0	1	0	0		A	51465445	A	A	51465445	2	1	213	1	0	0	0	0	0	0	0	1	373	1078	38	1		1	AGAP7	10	51465445	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3026944	51465445	84069302	510	105947											
SGMS1	259230	broad.mit.edu	37	chr10	52067830	52067830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccacagtgtagtggtcatgcGctaagagaatacagaagatt	14	9	11	7	1	1	3	1	0	0	3	1	4	1	3	1	1	2	2	1	1	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:52067830G>A	uc001jje.2	-	10	1928	c.974C>T	c.(973-975)GCG>GTG	p.A325V	SGMS1_uc010qhk.1_Missense_Mutation_p.A156V	NM_147156	NP_671512	Q86VZ5	SMS1_HUMAN	sphingomyelin synthase 1	331	Cytoplasmic (Potential).				apoptosis|cell growth|sphingomyelin biosynthetic process	endoplasmic reticulum|Golgi trans cisterna|integral to Golgi membrane|nucleus|plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			ovary(1)|kidney(1)	2						GTGGTCATGCGCTAAGAGAAT	0.502													34	51					0	0	1	0	0		A	52067830	A	A	52067830	3	1	213	1	0	0	0	0	1	0	0	0	14239	1087	38	1	275	1	SGMS1	10	52067830	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	602385	52067830	83466917	511	105948											
ZNF365	22891	broad.mit.edu	37	chr10	64159485	64159485	+	Silent	SNP	C	T	T	0	0	0	1	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	gagctcctggggtttggccgCaaaggcaacatcaggcccaa	10	6	13	12	1	1	0	1	0	0	0	2	1	2	0	3	5	2	4	3	5	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:64159485C>T	uc001jly.3	+	5	1268	c.1206C>T	c.(1204-1206)CGC>CGT	p.R402R	ZNF365_uc001jmb.3_Intron|ZNF365_uc001jmc.2_Intron|ZNF365_uc001jlz.3_Silent_p.R387R|ZNF365_uc001jma.3_RNA	NM_014951	NP_055766	Q70YC4	TALAN_HUMAN	zinc finger protein 365 isoform A	Error:Variant_position_missing_in_Q70YC4_after_alignment										ovary(1)|skin(1)	2	Prostate(12;0.0297)|all_hematologic(501;0.228)					GGTTTGGCCGCAAAGGCAACA	0.537													24	47					0	0	1	0	0		T	64159485	T	T	64159485	2	4	213	1	0	0	0	0	0	0	0	1	17894	697	25	2		2	ZNF365	10	64159485	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	12091655	64159485	71375262	512	105949											
JMJD1C	221037	broad.mit.edu	37	chr10	64974641	64974641	+	Frame_Shift_Del	DEL	T	-	-																															gatcccagggaggctggctaTtttttagggtctcttctcct																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:64974641delT	uc001jmn.2	-	8	1586	c.1286delA	c.(1285-1287)AATfs	p.N429fs	JMJD1C_uc001jml.2_Frame_Shift_Del_p.N210fs|JMJD1C_uc001jmm.2_Frame_Shift_Del_p.N141fs|JMJD1C_uc010qiq.1_Frame_Shift_Del_p.N247fs|JMJD1C_uc009xpi.2_Frame_Shift_Del_p.N247fs|JMJD1C_uc009xpj.1_RNA|JMJD1C_uc001jmp.1_Frame_Shift_Del_p.N141fs	NM_032776	NP_116165	Q15652	JHD2C_HUMAN	jumonji domain containing 1C isoform a	429					blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	histone demethylase activity (H3-K9 specific)|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|thyroid hormone receptor binding			ovary(4)|breast(1)|central_nervous_system(1)	6	Prostate(12;0.0119)|all_hematologic(501;0.191)					AGGCTGGCTATTTTTTAGGGT	0.363													22	48	---	---	---	---						.	-	64974641	-	-	64974641	7	5	213	1	0	1	0	1	0	0	0	0	7966	1493	52	0	6412	0	JMJD1C	10	64974641	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	815156	64974641	70560106	513	105950											
AIFM2	84883	broad.mit.edu	37	chr10	71874701	71874701	+	Silent	SNP	C	T	T	0	0	0	1	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	ttgtaggcctggagaggccgCtgcttcacagagttgacgat	8	10	14	9	2	1	3	1	1	0	2	1	5	1	3	2	3	1	4	2	3	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:71874701C>T	uc010qjg.1	-	7	958	c.945G>A	c.(943-945)CAG>CAA	p.Q315Q	AIFM2_uc001jqp.1_Silent_p.Q315Q	NM_032797	NP_116186	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor (AIF)-like	315					apoptotic mitochondrial changes|chromosome condensation|induction of apoptosis	cytosol|integral to membrane|mitochondrial outer membrane	DNA binding|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding			central_nervous_system(1)	1						GGAGAGGCCGCTGCTTCACAG	0.562													9	19					0	0	1	0	0		T	71874701	T	T	71874701	2	4	213	1	0	0	0	0	0	0	0	1	427	796	28	2		2	AIFM2	10	71874701	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6900060	71874701	63660046	514	105951											
C10orf54	64115	broad.mit.edu	37	chr10	73511467	73511467	+	Frame_Shift_Del	DEL	G	-	-																															tccggggcctggaggagacaGgggggtgctgggctccgaaa																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:73511467delG	uc001jsd.2	-	6	997	c.856delC	c.(856-858)CTGfs	p.L286fs	CDH23_uc001jrx.3_Intron|C10orf54_uc001jse.2_Frame_Shift_Del_p.L154fs|C10orf54_uc009xqm.2_Frame_Shift_Del_p.L124fs	NM_022153	NP_071436	Q9H7M9	GI24_HUMAN	platelet receptor Gi24 precursor	286	Cytoplasmic (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)|central_nervous_system(1)	3						GGAGGAGACAGGGGGGTGCTG	0.617													17	30	---	---	---	---						.	-	73511467	-	-	73511467	7	5	213	1	0	1	0	1	0	0	0	0	1610	991	35	0	87	0	C10orf54	10	73511467	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1636766	73511467	62023280	515	105952											
DNAJB12	54788	broad.mit.edu	37	chr10	74114697	74114697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagggagggggaggccgggcGagcgaagggctgcgccaccc	7	1	21	12	4	0	0	0	0	0	0	0	4	0	2	3	6	2	1	3	6	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:74114697G>T	uc010qjv.1	-	1	211	c.61C>A	c.(61-63)CGC>AGC	p.R21S	DNAJB12_uc001jsz.2_Missense_Mutation_p.R21S|DNAJB12_uc001jta.2_Missense_Mutation_p.R21S	NM_017626	NP_060096	Q9NXW2	DJB12_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 12	Error:Variant_position_missing_in_Q9NXW2_after_alignment					protein folding	endoplasmic reticulum|integral to membrane	heat shock protein binding|unfolded protein binding				0						GAGGCCGGGCGAGCGAAGGGC	0.672													11	29					5.50884e-06	5.72658e-06	1	1	0		T	74114697	T	T	74114697	3	4	213	1	0	0	0	0	1	0	0	0	4623	1058	37	5	1200	5	DNAJB12	10	74114697	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	603230	74114697	61420050	516	105953											
AGAP11	119385	broad.mit.edu	37	chr10	88769420	88769420	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggacagccatcctgctgCtggcacatggctcccgtgag	6	8	13	14	2	0	1	0	1	0	0	2	2	2	2	3	3	4	4	3	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:88769420C>T	uc001kee.2	+	12	2615	c.1411C>T	c.(1411-1413)CTG>TTG	p.L471L	AGAP11_uc001kef.2_Intron	NM_133447	NP_597704	Q8TF27	AGA11_HUMAN	ankyrin repeat and GTPase domain Arf GTPase	471					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding				0						CATCCTGCTGCTGGCACATGG	0.662													74	139					0	0	1	0	0		T	88769420	T	T	88769420	2	4	213	1	0	0	0	0	0	0	0	1	367	796	28	2		2	AGAP11	10	88769420	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	14654723	88769420	46765327	517	105954											
HTR7	3363	broad.mit.edu	37	chr10	92617113	92617113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gagcttcttgacgaagcacaCggagatcaccaccaggcagt	12	6	11	12	2	2	2	1	1	1	1	2	5	2	2	2	2	2	3	2	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:92617113C>T	uc001kha.2	-	1	559	c.316G>A	c.(316-318)GTG>ATG	p.V106M	HTR7_uc001kgz.2_Missense_Mutation_p.V106M|HTR7_uc001khb.2_Missense_Mutation_p.V106M	NM_019859	NP_062873	P34969	5HT7R_HUMAN	5-hydroxytryptamine receptor 7 isoform d	106	Cytoplasmic (By similarity).				blood circulation|circadian rhythm	integral to plasma membrane	protein binding|serotonin receptor activity			ovary(1)	1					Eletriptan(DB00216)|Methysergide(DB00247)|Ziprasidone(DB00246)	ACGAAGCACACGGAGATCACC	0.607													33	58					0	0	1	0	0		T	92617113	T	T	92617113	3	4	213	1	0	0	0	0	1	0	0	0	7468	536	19	1	1143	1	HTR7	10	92617113	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3847693	92617113	42917634	518	105955											
ZDHHC16	84287	broad.mit.edu	37	chr10	99211554	99211554	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctagtacagcgctggcgctAcggcaaggtctgcctgcgct	6	9	13	13	4	2	0	0	0	2	0	2	0	2	0	1	3	5	5	1	3	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:99211554A>T	uc001knj.2	+	3	471	c.122A>T	c.(121-123)TAC>TTC	p.Y41F	ZDHHC16_uc001knp.2_Missense_Mutation_p.Y41F|ZDHHC16_uc001knk.2_Missense_Mutation_p.Y41F|ZDHHC16_uc001knl.2_Missense_Mutation_p.Y41F|ZDHHC16_uc001knm.2_Missense_Mutation_p.Y41F|ZDHHC16_uc001knn.2_Missense_Mutation_p.Y41F|ZDHHC16_uc010qow.1_Missense_Mutation_p.Y41F|ZDHHC16_uc009xvq.2_RNA|ZDHHC16_uc001kno.2_Missense_Mutation_p.Y41F|ZDHHC16_uc009xvr.2_Missense_Mutation_p.Y41F	NM_198046	NP_932163	Q969W1	ZDH16_HUMAN	Abl-philin 2 isoform 1	41	Cytoplasmic (Potential).				apoptosis	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)	1		Colorectal(252;0.0846)		Epithelial(162;5.81e-10)|all cancers(201;4.19e-08)		CGCTGGCGCTACGGCAAGGTC	0.642													21	30					0	0	1	0	0		T	99211554	T	T	99211554	3	4	213	1	0	0	0	0	1	0	0	0	17631	391	14	5	124	5	ZDHHC16	10	99211554	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	6594441	99211554	36323193	519	105956											
SEC31B	25956	broad.mit.edu	37	chr10	102265915	102265915	+	Missense_Mutation	SNP	A	G	G	1	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	ggtcccgagggcaccactgcAcatcaaagcaccagctgctc	10	5	10	16	1	1	0	1	0	0	0	3	1	2	0	3	2	4	5	3	2	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:102265915A>G	uc001krc.1	-	9	1028	c.926T>C	c.(925-927)GTG>GCG	p.V309A	SEC31B_uc010qpo.1_Missense_Mutation_p.V308A|SEC31B_uc001krd.1_5'UTR|SEC31B_uc001krf.1_5'UTR|SEC31B_uc001kre.1_5'UTR|SEC31B_uc001krg.1_5'UTR|SEC31B_uc010qpp.1_Missense_Mutation_p.V312A|SEC31B_uc009xwn.1_Missense_Mutation_p.V309A|SEC31B_uc009xwo.1_Missense_Mutation_p.V309A|SEC31B_uc010qpq.1_Missense_Mutation_p.V152A	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	309	WD 6.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		GCACCACTGCACATCAAAGCA	0.512													43	58					0	0	1	0	0		G	102265915	G	G	102265915	3	3	213	1	0	0	0	0	1	0	0	0	14024	159	6	3	2685	3	SEC31B	10	102265915	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	3054361	102265915	33268832	520	105957											
DPCD	25911	broad.mit.edu	37	chr10	103360978	103360978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agcctatcttcatgcgcaagGacaccaagatgagtttccag	12	9	9	11	1	2	2	1	1	1	1	3	3	3	3	3	1	2	2	3	1	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:103360978G>A	uc001ktn.2	+	4	294	c.289G>A	c.(289-291)GAC>AAC	p.D97N	hsa-mir-3158-1|MI0014186_5'Flank	NM_015448	NP_056263	Q9BVM2	DPCD_HUMAN	DPCD protein	97							protein binding			skin(1)	1						CATGCGCAAGGACACCAAGAT	0.547													30	64					0	0	1	0	0		A	103360978	A	A	103360978	3	1	213	1	0	0	0	0	1	0	0	0	4717	1174	41	4	303	4	DPCD	10	103360978	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1095063	103360978	32173769	521	105958											
FBXL15	79176	broad.mit.edu	37	chr10	104181683	104181683	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctggcgcggaatccgcagcTgcggagtgtggcgttgggcg	4	7	20	10	6	0	0	0	0	0	0	1	2	1	2	1	5	2	4	1	5	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:104181683T>C	uc001kvk.2	+	3	1663	c.347T>C	c.(346-348)CTG>CCG	p.L116P	PSD_uc001kvg.1_5'Flank|PSD_uc001kvh.1_5'Flank|PSD_uc009xxd.1_5'Flank|PSD_uc001kvi.1_5'Flank|FBXL15_uc001kvj.1_Missense_Mutation_p.L116P|FBXL15_uc001kvl.1_Missense_Mutation_p.L203P	NM_024326	NP_077302	Q9H469	FXL15_HUMAN	F-box and leucine-rich repeat protein 15	116	Interaction with SMURF1.				bone mineralization|dorsal/ventral pattern formation|G2/M transition of mitotic cell cycle|positive regulation of BMP signaling pathway|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytoplasm|SCF ubiquitin ligase complex	protein binding			kidney(1)	1		Colorectal(252;0.207)		Epithelial(162;1.19e-08)|all cancers(201;2.65e-07)		AATCCGCAGCTGCGGAGTGTG	0.721													3	13					0	0	1	0	0		C	104181683	C	C	104181683	3	2	213	1	0	0	0	0	1	0	0	0	5725	1580	55	3	357	3	FBXL15	10	104181683	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	820705	104181683	31353064	522	105959											
TAF5	6877	broad.mit.edu	37	chr10	105138238	105138238	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgatgggatgccgcgtagTaagcaacagatagatgcgat	12	10	13	6	3	0	3	0	1	0	2	0	5	0	4	1	1	4	3	1	1	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:105138238T>C	uc001kwv.2	+	3	1067	c.1044T>C	c.(1042-1044)AGT>AGC	p.S348S	TAF5_uc010qqq.1_Silent_p.S348S	NM_006951	NP_008882	Q15542	TAF5_HUMAN	TBP-associated factor 5	348					histone acetylation|interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	actin cytoskeleton|transcription factor TFIID complex|transcription factor TFTC complex	protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;1.83e-09)|all cancers(201;1.4e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		TGCCGCGTAGTAAGCAACAGA	0.433													7	47					0	0	1	0	0		C	105138238	C	C	105138238	2	2	213	1	0	0	0	0	0	0	0	1	15553	1635	57	3		3	TAF5	10	105138238	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	956555	105138238	30396509	523	105960											
C10orf79	80217	broad.mit.edu	37	chr10	105953694	105953694	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggggattccttatcatataCgctgatgaagtagaccgagc	12	10	11	8	2	1	3	1	2	0	1	2	5	2	4	2	2	2	2	2	2	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:105953694C>T	uc001kxw.2	-	11	1488	c.1372G>A	c.(1372-1374)GTA>ATA	p.V458I	C10orf79_uc001kxx.3_Missense_Mutation_p.V459I|C10orf79_uc001kxy.1_Missense_Mutation_p.V459I	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	458	WD 7.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TTATCATATACGCTGATGAAG	0.552													36	48					0	0	1	0	0		T	105953694	T	T	105953694	3	4	213	1	0	0	0	0	1	0	0	0	1621	536	19	1	3737	1	C10orf79	10	105953694	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	815456	105953694	29581053	524	105961											
SORCS1	114815	broad.mit.edu	37	chr10	108923879	108923879	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccaggctcctgctgccCtccatctcttagcactcccc	5	10	6	20	0	1	0	0	0	1	0	6	0	5	0	6	1	3	3	6	1	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:108923879C>A	uc001kym.2	-	1	414	c.406G>T	c.(406-408)GGG>TGG	p.G136W	SORCS1_uc001kyl.2_Missense_Mutation_p.G136W|SORCS1_uc009xxs.2_Missense_Mutation_p.G136W|SORCS1_uc001kyn.1_Missense_Mutation_p.G136W|SORCS1_uc001kyo.2_Missense_Mutation_p.G136W	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	136	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		TCCTGCTGCCCTCCATCTCTT	0.687													15	78					7.21436e-19	8.09116e-19	1	1	0		A	108923879	A	A	108923879	3	1	213	1	0	0	0	0	1	0	0	0	14955	681	24	5	3438	5	SORCS1	10	108923879	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2970185	108923879	26610868	525	105962											
FAM160B1	57700	broad.mit.edu	37	chr10	116603660	116603660	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctacctcagtcagtggatcCgttagatattgaaaccgtgg	10	11	10	10	2	2	2	2	1	0	1	3	3	3	3	4	2	2	1	4	2	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:116603660C>T	uc001lcb.2	+	7	1312	c.977C>T	c.(976-978)CCG>CTG	p.P326L	FAM160B1_uc001lcc.2_Missense_Mutation_p.P326L	NM_020940	NP_065991	Q5W0V3	F16B1_HUMAN	hypothetical protein LOC57700 isoform a	326										lung(1)	1						TCAGTGGATCCGTTAGATATT	0.458													20	64					0	0	1	0	0		T	116603660	T	T	116603660	3	4	213	1	0	0	0	0	1	0	0	0	5481	652	23	1	1003	1	FAM160B1	10	116603660	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7679781	116603660	18931087	526	105963											
HSPA12A	259217	broad.mit.edu	37	chr10	118440716	118440716	+	Missense_Mutation	SNP	A	C	C	1	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	ccggtaaccggatctgatggActgtcaggtctacggtgcca	8	9	13	11	3	3	1	1	1	2	0	3	3	3	3	3	5	3	1	3	5	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:118440716A>C	uc001lct.2	-	9	1079	c.974T>G	c.(973-975)GTC>GGC	p.V325G	HSPA12A_uc001lcu.2_Missense_Mutation_p.V242G	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	325							ATP binding			ovary(1)	1				all cancers(201;0.0158)		GATCTGATGGACTGTCAGGTC	0.502													17	40					0	0	1	0	0		C	118440716	C	C	118440716	3	2	213	1	0	0	0	0	1	0	0	0	7420	275	10	5	1069	5	HSPA12A	10	118440716	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1837056	118440716	17094031	527	105964											
CPXM2	119587	broad.mit.edu	37	chr10	125506321	125506321	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccccgcagcttcagccGcctggctggcaggctgacgg	4	6	14	17	3	1	1	1	1	0	0	1	1	1	1	4	4	3	5	4	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:125506321G>A	uc001lhk.1	-	14	2555	c.2230C>T	c.(2230-2232)CGG>TGG	p.R744W	CPXM2_uc001lhj.2_Intron	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	744					cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding	p.R744Q(1)		ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		AGCTTCAGCCGCCTGGCTGGC	0.577													18	56					0	0	1	0	0		A	125506321	A	A	125506321	3	1	213	1	0	0	0	0	1	0	0	0	3841	1086	38	1	44	1	CPXM2	10	125506321	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7065605	125506321	10028426	528	105965											
PTPRE	5791	broad.mit.edu	37	chr10	129847931	129847931	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtttcgggaggagttcaacGtgagtgtggggagggctctc	7	10	18	6	2	2	1	1	1	1	0	4	4	2	4	0	5	1	3	0	5	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr10:129847931G>A	uc001lkb.2	+	6	699	c.420_splice	c.e6+1	p.N140_splice	PTPRE_uc009yat.2_Splice_Site_p.N151_splice|PTPRE_uc010qup.1_Splice_Site|PTPRE_uc009yau.2_Splice_Site_p.N140_splice|PTPRE_uc001lkc.1_Splice_Site|PTPRE_uc001lkd.2_Splice_Site_p.N82_splice|PTPRE_uc010quq.1_Splice_Site_p.N41_splice	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E						negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				GGAGTTCAACGTGAGTGTGGG	0.547													19	21					0	0	1	0	0		A	129847931	A	A	129847931	5	1	213	1	0	0	0	0	0	0	1	0	12825	1159	40	1	474	1	PTPRE	10	129847931	Splice_Site	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4341610	129847931	5686816	529	105966											
BET1L	51272	broad.mit.edu	37	chr11	205421	205421	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccttgccattgtggaaaagcGcttcacgctccctgtaagca	9	10	9	13	2	1	0	1	0	0	0	2	1	2	1	3	1	3	4	3	1	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:205421G>A	uc001loe.2	-	4	318	c.217C>T	c.(217-219)CGC>TGC	p.R73C	BET1L_uc001lod.2_3'UTR	NM_001098787	NP_001092257	Q9NYM9	BET1L_HUMAN	blocked early in transport 1 homolog (S.	73	Cytoplasmic (Potential).|t-SNARE coiled-coil homology.				protein transport|retrograde transport, endosome to Golgi	endosome|SNARE complex	SNAP receptor activity				0		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;4.2e-27)|Epithelial(43;2.8e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.7e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		GTGGAAAAGCGCTTCACGCTC	0.517													16	33					0	0	1	0	0		A	205421	A	A	205421	3	1	213	1	0	0	0	0	1	0	0	0	1410	1087	38	1	122	1	BET1L	11	205421	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		205421	134801095	530	105967											
NLRP6	171389	broad.mit.edu	37	chr11	281297	281297	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacggcggggtgcccaggacCgcggctggcggcgttgggac	4	4	21	12	6	0	0	0	0	0	0	0	3	0	2	2	8	1	2	2	8	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:281297C>T	uc010qvs.1	+	4	1563	c.1563C>T	c.(1561-1563)ACC>ACT	p.T521T	NLRP6_uc010qvt.1_Silent_p.T521T	NM_138329	NP_612202	P59044	NALP6_HUMAN	NLR family, pyrin domain containing 6	521						cytoplasm	ATP binding			upper_aerodigestive_tract(1)|skin(1)	2		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)		TGCCCAGGACCGCGGCTGGCG	0.672													16	51					0	0	1	0	0		T	281297	T	T	281297	2	4	213	1	0	0	0	0	0	0	0	1	10500	639	23	1		1	NLRP6	11	281297	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	75876	281297	134725219	531	105968											
C11orf35	256329	broad.mit.edu	37	chr11	555902	555902	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccctcggggccggagtctcgCggcgtgggatccggtgctca	3	7	17	14	6	2	0	1	0	1	0	5	2	3	2	3	6	1	1	3	6	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:555902C>T	uc001lpx.2	-	12	1469	c.1406G>A	c.(1405-1407)CGC>CAC	p.R469H	uc001lpy.2_5'Flank	NM_173573	NP_775844	Q8IXW0	CK035_HUMAN	hypothetical protein LOC256329	469										pancreas(1)	1		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;7.18e-28)|Epithelial(43;6.93e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.97e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0375)|LUSC - Lung squamous cell carcinoma(625;0.0703)		CGGAGTCTCGCGGCGTGGGAT	0.771													13	21					0	0	1	0	0		T	555902	T	T	555902	3	4	213	1	0	0	0	0	1	0	0	0	1641	768	27	1	510	1	C11orf35	11	555902	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	274605	555902	134450614	532	105969											
DEAF1	10522	broad.mit.edu	37	chr11	687963	687963	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgatgttccggcaccgtacGggcagctcactgtcgtacac	7	9	11	14	4	1	1	1	1	0	0	3	1	2	1	2	2	3	6	2	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:687963G>A	uc001lqq.1	-	4	1305	c.612C>T	c.(610-612)CCC>CCT	p.P204P	DEAF1_uc009ycf.1_RNA	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	204	SAND.				embryonic skeletal system development|germ cell development|neural tube closure|regulation of mammary gland epithelial cell proliferation|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|cytoplasm|extracellular region|nucleus	protein binding|zinc ion binding				0		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;1.76e-27)|Epithelial(43;8.42e-27)|OV - Ovarian serous cystadenocarcinoma(40;6.55e-21)|BRCA - Breast invasive adenocarcinoma(625;4.83e-05)|Lung(200;0.0259)|LUSC - Lung squamous cell carcinoma(625;0.075)		GGCACCGTACGGGCAGCTCAC	0.552													18	35					0	0	1	0	0		A	687963	A	A	687963	2	1	213	1	0	0	0	0	0	0	0	1	4383	1103	39	1		1	DEAF1	11	687963	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	132061	687963	134318553	533	105970											
MUC6	4588	broad.mit.edu	37	chr11	1026400	1026401	+	Frame_Shift_Ins	INS	-	G	G																															aactcacatgggcactcctcINSggggggcacacactgcccgt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:1026400_1026401insG	uc001lsw.2	-	20	2523_2524	c.2472_2473insC	c.(2470-2475)CCCGAGfs	p.P824fs		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	824_825					maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGCACTCCTCGGGGGGCACAC	0.649													12	20	---	---	---	---						.	G	1026401	G	G	1026400	7	5	213	1	0	1	1	0	0	0	0	0	9998	893	31	0	4902	0	MUC6	11	1026400	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	338437	1026400	133980116	534	105971											
MUC5B	727897	broad.mit.edu	37	chr11	1262736	1262736	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctggagggcacttatgccaGcagcctaaggacatagagtg	11	7	14	9	0	0	1	0	0	0	1	0	3	0	3	2	3	3	3	2	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:1262736G>A	uc009ycr.1	+	47	6831	c.6705G>A	c.(6703-6705)CAG>CAA	p.Q2235Q	MUC5B_uc001ltb.2_Silent_p.Q1545Q	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1542	7 X Cys-rich subdomain repeats.|Cys-rich subdomain 2.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACTTATGCCAGCAGCCTAAGG	0.582													11	16					0	0	1	0	0		A	1262736	A	A	1262736	2	1	213	1	0	0	0	0	0	0	0	1	9997	962	34	2		2	MUC5B	11	1262736	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	236336	1262736	133743780	535	105972											
MUC5B	727897	broad.mit.edu	37	chr11	1271141	1271141	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccagaacagaccaccacacCcgtggccaccatgtccacaa	13	3	6	19	1	0	2	0	0	0	2	1	2	1	2	7	1	1	0	7	1	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:1271141C>A	uc009ycr.1	+	51	14576	c.14450C>A	c.(14449-14451)CCC>CAC	p.P4817H	MUC5B_uc001ltb.2_Missense_Mutation_p.P4347H	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4344	23 X approximate tandem repeats, Ser/Thr- rich.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		ACCACCACACCCGTGGCCACC	0.627													48	104					1.35964e-18	1.52326e-18	1	1	0		A	1271141	A	A	1271141	3	1	213	1	0	0	0	0	1	0	0	0	9997	623	22	5	13162	5	MUC5B	11	1271141	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8405	1271141	133735375	536	105973											
TNNI2	7136	broad.mit.edu	37	chr11	1862085	1862085	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgcacgccaagatcgatgcgGctgaagaggagaagtacgac	13	5	14	9	4	0	4	0	1	0	3	1	7	0	4	1	2	3	3	1	2	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:1862085G>A	uc010qxe.1	+	4	245	c.223G>A	c.(223-225)GCT>ACT	p.A75T	TNNI2_uc010qxc.1_Missense_Mutation_p.A73T|TNNI2_uc010qxd.1_Missense_Mutation_p.A73T	NM_001145841	NP_001139313	P48788	TNNI2_HUMAN	fast-twitch skeletal muscle troponin I isoform	75					muscle filament sliding|positive regulation of transcription, DNA-dependent|skeletal muscle contraction	cytosol|nucleus|troponin complex	actin binding|troponin T binding				0		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)		GATCGATGCGGCTGAAGAGGA	0.527													6	19					0	0	1	0	0		A	1862085	A	A	1862085	3	1	213	1	0	0	0	0	1	0	0	0	16352	1203	42	2	256	2	TNNI2	11	1862085	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	590944	1862085	133144431	537	105974											
TRIM6	117854	broad.mit.edu	37	chr11	5632278	5632278	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttgctcaaaatcacagtgcTtactccaggtatcagcctca	11	12	6	12	0	4	0	4	0	0	0	5	0	5	0	2	1	4	3	2	1	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:5632278T>G	uc001mbc.1	+	8	1305	c.1173T>G	c.(1171-1173)GCT>GCG	p.A391A	HBG2_uc001mak.1_Intron|TRIM6-TRIM34_uc001mbf.2_Intron|TRIM6_uc009yeo.1_Silent_p.A365A|TRIM6_uc010qzj.1_Silent_p.A216A|TRIM6_uc001mbe.2_Silent_p.A216A|TRIM6_uc010qzk.1_Silent_p.A216A|TRIM6_uc010qzl.1_Silent_p.A216A|TRIM6_uc001mbd.2_Silent_p.A419A|TRIM6_uc001mbg.1_Silent_p.A216A|TRIM6_uc009yep.1_3'UTR	NM_058166	NP_477514	Q9C030	TRIM6_HUMAN	tripartite motif-containing 6 isoform 2	391	B30.2/SPRY.				protein trimerization	cytoplasm	zinc ion binding				0		Lung NSC(207;2.23e-07)|all_lung(207;1.81e-06)|Medulloblastoma(188;0.00225)|Breast(177;0.0101)|all_neural(188;0.0212)		Epithelial(150;1.12e-45)|BRCA - Breast invasive adenocarcinoma(625;0.00101)|LUSC - Lung squamous cell carcinoma(625;0.192)		ATCACAGTGCTTACTCCAGGT	0.478													31	79					0	0	1	0	0		G	5632278	G	G	5632278	2	3	213	1	0	0	0	0	0	0	0	1	16559	1596	56	5		5	TRIM6	11	5632278	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3770193	5632278	129374238	538	105975											
EIF4G2	1982	broad.mit.edu	37	chr11	10823308	10823308	+	Missense_Mutation	SNP	A	T	T	1	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	cctgactctggttatggtagAgctggcttagcccctatttc	6	14	10	11	0	1	2	0	1	1	1	2	2	1	2	3	3	2	4	3	3	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:10823308A>T	uc001mjc.2	-	14	1730	c.1313T>A	c.(1312-1314)CTC>CAC	p.L438H	EIF4G2_uc001mjb.2_Missense_Mutation_p.L232H|EIF4G2_uc009ygf.2_Missense_Mutation_p.L232H|EIF4G2_uc001mjd.2_Intron|EIF4G2_uc001mjf.1_Intron|SNORD97_uc009yge.2_5'Flank	NM_001418	NP_001409	P78344	IF4G2_HUMAN	eukaryotic translation initiation factor 4	438					cell cycle arrest|cell death|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			ovary(1)|central_nervous_system(1)	2				all cancers(16;2.8e-07)|Epithelial(150;4.18e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		GTTATGGTAGAGCTGGCTTAG	0.448													31	60					0	0	1	0	0		T	10823308	T	T	10823308	3	4	213	1	0	0	0	0	1	0	0	0	5045	304	11	5	1446	5	EIF4G2	11	10823308	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	5191030	10823308	124183208	539	105976											
ABCC8	6833	broad.mit.edu	37	chr11	17498278	17498278	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaccccctggtccacccGgtaggcggccgagtggttct	5	7	15	14	3	1	0	0	0	1	0	2	3	2	1	5	6	0	2	5	6	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:17498278G>A	uc001mnc.2	-	1	172	c.46C>T	c.(46-48)CGG>TGG	p.R16W	ABCC8_uc010rcy.1_Missense_Mutation_p.R16W	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	16	Extracellular (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	TGGTCCACCCGGTAGGCGGCC	0.687													7	17					0	0	1	0	0		A	17498278	A	A	17498278	3	1	213	1	0	0	0	0	1	0	0	0	58	1115	39	1	4855	1	ABCC8	11	17498278	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6674970	17498278	117508238	540	105977											
PTPN5	84867	broad.mit.edu	37	chr11	18763931	18763931	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggtccaggaagtcatcctcGatcttctcctccatccactc	8	11	6	16	1	3	0	1	0	2	0	10	2	7	1	5	2	0	0	5	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:18763931G>A	uc001mpd.2	-	7	1034	c.603C>T	c.(601-603)ATC>ATT	p.I201I	PTPN5_uc001mpb.2_Silent_p.I169I|PTPN5_uc001mpc.2_Silent_p.I201I|PTPN5_uc001mpe.2_Silent_p.I169I|PTPN5_uc010rdj.1_Silent_p.I145I|PTPN5_uc001mpf.2_Silent_p.I177I|PTPN5_uc010rdk.1_Silent_p.I146I	NM_006906	NP_008837	P54829	PTN5_HUMAN	protein-tyrosine-phosphatase non-receptor 5	201						integral to membrane	phosphotyrosine binding|protein tyrosine phosphatase activity			ovary(2)	2						AGTCATCCTCGATCTTCTCCT	0.617													19	38					0	0	1	0	0		A	18763931	A	A	18763931	2	1	213	1	0	0	0	0	0	0	0	1	12816	1048	37	1		1	PTPN5	11	18763931	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1265653	18763931	116242585	541	105978											
KCNA4	3739	broad.mit.edu	37	chr11	30034059	30034059	+	Frame_Shift_Del	DEL	C	-	-																															ggtgggagcccccaccagaaCccccgctaccttcgacagca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:30034059delC	uc001msk.2	-	2	1319	c.167delG	c.(166-168)GGTfs	p.G56fs		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	56						voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						CCCACCAGAACCCCCGCTACC	0.706													31	61	---	---	---	---						.	-	30034059	-	-	30034059	7	5	213	1	0	1	0	1	0	0	0	0	8021	507	18	0	1798	0	KCNA4	11	30034059	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	11270128	30034059	104972457	542	105979											
CD44	960	broad.mit.edu	37	chr11	35219723	35219723	+	Silent	SNP	T	C	C	0	1	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	ccaaatgaagaaaatgaagaTgaaagagacagacacctcag	21	4	9	7	0	1	7	1	3	0	4	1	8	1	7	2	0	0	0	2	0	6	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:35219723T>C	uc001mvu.2	+	7	1286	c.852T>C	c.(850-852)GAT>GAC	p.D284D	CD44_uc001mvv.2_Silent_p.D241D|CD44_uc001mvw.2_Intron|CD44_uc001mvx.2_Intron|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Intron|CD44_uc010rer.1_Intron|CD44_uc009ykh.2_Intron|CD44_uc010res.1_Intron|CD44_uc010ret.1_Intron|CD44_uc010reu.1_5'UTR	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	284	Extracellular (Potential).|Stem.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	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)		Hyaluronidase(DB00070)	AAAATGAAGATGAAAGAGACA	0.428													24	37					0	0	1	0	0		C	35219723	C	C	35219723	2	2	213	1	0	0	0	0	0	0	0	1	3020	1461	51	3		3	CD44	11	35219723	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	5185664	35219723	99786793	543	105980											
EXT2	2132	broad.mit.edu	37	chr11	44097139	44097139	+	Frame_Shift_Del	DEL	G	-	-																															ccacggtgctgtgtgaggccGggggtaagtgagctctgtgg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:44097139delG	uc010rfo.1	+	1	64	c.51delG	c.(49-51)CCGfs	p.P17fs	ACCS_uc010rfm.1_Frame_Shift_Del_p.G112fs|ACCS_uc009yks.1_Frame_Shift_Del_p.G185fs|ACCS_uc010rfn.1_3'UTR|ACCS_uc001mxx.2_Frame_Shift_Del_p.G185fs	NM_207122	NP_997005	Q93063	EXT2_HUMAN	exostosin 2 isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					glycosaminoglycan biosynthetic process|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|ossification|signal transduction	Golgi membrane|integral to membrane|intrinsic to endoplasmic reticulum membrane	glucuronosyl-N-acetylglucosaminyl-proteoglycan 4-alpha-N-acetylglucosaminyltransferase activity|heparan sulfate N-acetylglucosaminyltransferase activity|N-acetylglucosaminyl-proteoglycan 4-beta-glucuronosyltransferase activity|protein heterodimerization activity			lung(2)|breast(2)|skin(1)	5						GTGTGAGGCCGGGGGTAAGTG	0.582			Mis|N|F|S			exostoses|osteosarcoma			Hereditary_Multiple_Exostoses				25	43	---	---	---	---						.	-	44097139	-	-	44097139	7	5	213	1	0	1	0	1	0	0	0	0	5332	1116	39	0		0	EXT2	11	44097139	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	8877416	44097139	90909377	544	105981											
KIAA0652	9776	broad.mit.edu	37	chr11	46691079	46691079	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	gcacagtccatggctgaagaCttggtatggaaacgtcttcc	10	10	11	10	1	1	2	0	1	1	1	3	3	3	3	2	3	1	3	2	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:46691079C>G	uc009yld.2	+	17	2157	c.1473C>G	c.(1471-1473)GAC>GAG	p.D491E	KIAA0652_uc001nda.2_Missense_Mutation_p.D524E|KIAA0652_uc001ndb.2_Missense_Mutation_p.D491E|KIAA0652_uc001ncz.2_Missense_Mutation_p.D454E|KIAA0652_uc001ndc.2_Missense_Mutation_p.D454E|KIAA0652_uc010rgv.1_Missense_Mutation_p.D375E	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1	491					autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		TGGCTGAAGACTTGGTATGGA	0.502													26	37					0	0	1	0	0		G	46691079	G	G	46691079	3	3	213	1	0	0	0	0	1	0	0	0	8204	564	20	5	1531	5	KIAA0652	11	46691079	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2593940	46691079	88315437	545	105982											
LRP4	4038	broad.mit.edu	37	chr11	46894694	46894694	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggccattgggccaacccaGgtctgtgttgatgaggacct	9	9	13	10	0	1	2	0	2	1	0	1	3	1	3	4	4	1	1	4	4	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:46894694G>A	uc001ndn.3	-	30	4686	c.4540C>T	c.(4540-4542)CTG>TTG	p.L1514L	uc001ndl.2_RNA	NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	1514	Extracellular (Potential).|LDL-receptor class B 18.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		GGCCAACCCAGGTCTGTGTTG	0.552													25	55					0	0	1	0	0		A	46894694	A	A	46894694	2	1	213	1	0	0	0	0	0	0	0	1	8977	991	35	4		4	LRP4	11	46894694	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	203615	46894694	88111822	546	105983											
LRP4	4038	broad.mit.edu	37	chr11	46905424	46905424	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaggggcagccactcacccGcccatgggttccaccacgat	9	5	10	17	2	1	0	1	0	0	0	2	1	2	0	5	3	1	2	5	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:46905424G>A	uc001ndn.3	-	19	2756	c.2610C>T	c.(2608-2610)GGC>GGT	p.G870G		NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein	870	Extracellular (Potential).|LDL-receptor class B 7.				endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		CCACTCACCCGCCCATGGGTT	0.537													14	27					0	0	1	0	0		A	46905424	A	A	46905424	2	1	213	1	0	0	0	0	0	0	0	1	8977	1074	38	1		1	LRP4	11	46905424	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	10730	46905424	88101092	547	105984											
OR8H3	390152	broad.mit.edu	37	chr11	55890155	55890155	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctgctttgcccagatgttcTgttttgtcttcttgggtact	3	19	10	9	0	3	1	0	0	3	1	3	1	3	1	1	1	3	5	1	1	1	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:55890155T>C	uc001nii.1	+	1	307	c.307T>C	c.(307-309)TGT>CGT	p.C103R		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	103	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)					CCAGATGTTCTGTTTTGTCTT	0.433													131	211					0	0	1	0	0		C	55890155	C	C	55890155	3	2	213	1	0	0	0	0	1	0	0	0	11258	1580	55	3	309	3	OR8H3	11	55890155	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	8984731	55890155	79116361	548	105985											
OR5R1	219479	broad.mit.edu	37	chr11	56185040	56185040	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcggatccttaggatagcGgcaataataaagatgtagga	15	8	13	5	2	0	1	0	0	0	1	1	5	1	4	1	4	2	2	1	4	7	5	rs146417436		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:56185040G>T	uc010rji.1	-	1	669	c.669C>A	c.(667-669)GCC>GCA	p.A223A		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	223	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TTAGGATAGCGGCAATAATAA	0.448													14	83					2.31682e-05	2.39891e-05	1	1	0		T	56185040	T	T	56185040	2	4	213	1	0	0	0	0	0	0	0	1	11199	1103	39	5		5	OR5R1	11	56185040	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	294885	56185040	78821476	549	105986											
DTX4	23220	broad.mit.edu	37	chr11	58949400	58949400	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttccattggctttagctacGtaattgacttcaacaccatg	10	14	6	11	1	1	1	1	1	0	0	2	1	2	1	2	1	3	3	2	1	4	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:58949400G>A	uc001nns.2	+	2	657	c.400G>A	c.(400-402)GTA>ATA	p.V134I	DTX4_uc001nnr.2_Missense_Mutation_p.V28I	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	134	WWE 2.				Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				CTTTAGCTACGTAATTGACTT	0.592													34	61					0	0	1	0	0		A	58949400	A	A	58949400	3	1	213	1	0	0	0	0	1	0	0	0	4803	1145	40	1	406	1	DTX4	11	58949400	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2764360	58949400	76057116	550	105987											
DTX4	23220	broad.mit.edu	37	chr11	58949530	58949530	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ggctcagtcctggccagtcaGccctgggccagccacctcgc	5	6	12	18	1	2	0	2	0	0	0	4	0	3	0	6	3	2	1	6	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:58949530G>A	uc001nns.2	+	2	787	c.530G>A	c.(529-531)AGC>AAC	p.S177N	DTX4_uc001nnr.2_Missense_Mutation_p.S71N	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	177					Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				TGGCCAGTCAGCCCTGGGCCA	0.657													7	35					0	0	1	0	0		A	58949530	A	A	58949530	3	1	213	1	0	0	0	0	1	0	0	0	4803	971	34	2	536	2	DTX4	11	58949530	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	130	58949530	76056986	551	105988											
TMEM132A	54972	broad.mit.edu	37	chr11	60699530	60699530	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgcgccttgtcactgtggaCggcgggggggccttggtgga	3	9	20	9	3	1	0	1	0	0	0	1	2	1	2	2	7	1	0	2	7	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:60699530C>T	uc001nqj.2	+	7	1480	c.1287C>T	c.(1285-1287)GAC>GAT	p.D429D	TMEM132A_uc001nqi.2_Silent_p.D430D|TMEM132A_uc001nqk.2_Silent_p.D442D|TMEM132A_uc001nql.1_3'UTR|TMEM132A_uc001nqm.2_5'Flank	NM_178031	NP_821174	Q24JP5	T132A_HUMAN	transmembrane protein 132A isoform b	429	Extracellular (Potential).					endoplasmic reticulum membrane|Golgi membrane|integral to membrane				skin(1)	1						TCACTGTGGACGGCGGGGGGG	0.652													30	45					0	0	1	0	0		T	60699530	T	T	60699530	2	4	213	1	0	0	0	0	0	0	0	1	16070	535	19	1		1	TMEM132A	11	60699530	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1750000	60699530	74306986	552	105989											
SYT7	9066	broad.mit.edu	37	chr11	61318905	61318905	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccctgagtctggcgtgcccaCcgtctccaaggaattcttgt	6	11	10	14	2	3	1	0	1	3	0	4	2	3	2	4	2	1	0	4	2	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:61318905C>T	uc001nrv.2	-	3	172	c.166G>A	c.(166-168)GTG>ATG	p.V56M	SYT7_uc009ynr.2_Missense_Mutation_p.V56M|SYT7_uc001nrx.1_RNA	NM_004200	NP_004191	O43581	SYT7_HUMAN	synaptotagmin VII	56	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|pancreas(1)	4						GGCGTGCCCACCGTCTCCAAG	0.587													20	70					0	0	1	0	0		T	61318905	T	T	61318905	3	4	213	1	0	0	0	0	1	0	0	0	15504	507	18	4	1073	4	SYT7	11	61318905	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	619375	61318905	73687611	553	105990											
RTN3	10313	broad.mit.edu	37	chr11	63486964	63486967	+	Frame_Shift_Del	DEL	TGAT	-	-																															gaggtgtccagatgcgtgaaTgatatgcataactttactaa																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:63486964_63486967delTGAT	uc001nxq.2	+	3	1177_1180	c.990_993delTGAT	c.(988-993)AATGATfs	p.N330fs	RTN3_uc001nxo.2_Intron|RTN3_uc001nxm.2_Intron|RTN3_uc001nxn.2_Frame_Shift_Del_p.N311fs|RTN3_uc001nxp.2_Intron|RTN3_uc009yov.2_Frame_Shift_Del_p.N218fs|RTN3_uc010rmt.1_Intron|RTN3_uc010rmu.1_Intron	NM_201428	NP_958831	O95197	RTN3_HUMAN	reticulon 3 isoform b	330_331					apoptosis|endoplasmic reticulum tubular network organization|interspecies interaction between organisms|response to stress|vesicle-mediated transport	endoplasmic reticulum membrane|extracellular space|Golgi membrane|integral to membrane				ovary(1)	1						GATGCGTGAATGATATGCATAACT	0.431													21	48	---	---	---	---						.	-	63486967	-	-	63486964	7	5	213	1	0	1	0	1	0	0	0	0	13752	1461	51	0	1000	0	RTN3	11	63486964	Frame_Shift_Del	DEL	TGAT	TCGA-HU-A4H3-01A-21D-A25D-08	2168059	63486964	71519552	554	105991											
C11orf84	144097	broad.mit.edu	37	chr11	63585422	63585422	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcagcgggcgggcactgtgCatggtgtgtggcgctgagat	5	8	20	8	3	0	1	0	1	0	1	0	2	0	1	0	5	2	4	0	5	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:63585422C>T	uc001nxt.2	+	2	509	c.273C>T	c.(271-273)TGC>TGT	p.C91C		NM_138471	NP_612480	Q9BUA3	CK084_HUMAN	hypothetical protein LOC144097	91											0						GGGCACTGTGCATGGTGTGTG	0.652													12	33					0	0	1	0	0		T	63585422	T	T	63585422	2	4	213	1	0	0	0	0	0	0	0	1	1670	718	25	2		2	C11orf84	11	63585422	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	98458	63585422	71421094	555	105992											
TRPT1	83707	broad.mit.edu	37	chr11	63992188	63992188	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcatcagctccaacttaggtAcctggttgaacgggtagcag	10	9	12	10	1	1	1	1	1	0	0	2	1	2	1	2	3	5	6	2	3	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:63992188A>G	uc001nyo.2	-	5	543	c.329T>C	c.(328-330)GTA>GCA	p.V110A	TRPT1_uc010rnc.1_Missense_Mutation_p.V110A|TRPT1_uc010rnd.1_Missense_Mutation_p.V112A|TRPT1_uc001nyn.2_Missense_Mutation_p.V61A|TRPT1_uc010rne.1_Missense_Mutation_p.V110A|TRPT1_uc010rnf.1_Missense_Mutation_p.V110A|NUDT22_uc009ypd.2_5'Flank|NUDT22_uc001nyp.3_5'Flank|NUDT22_uc009ype.2_5'Flank|NUDT22_uc001nyq.3_5'Flank|NUDT22_uc010rng.1_5'Flank	NM_001033678	NP_001028850	Q86TN4	TRPT1_HUMAN	tRNA phosphotransferase 1 isoform 1	110							tRNA 2'-phosphotransferase activity				0						CAACTTAGGTACCTGGTTGAA	0.612													11	46					0	0	1	0	0		G	63992188	G	G	63992188	3	3	213	1	0	0	0	0	1	0	0	0	16620	405	14	3	451	3	TRPT1	11	63992188	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	406766	63992188	71014328	556	105993											
PPP1R14B	26472	broad.mit.edu	37	chr11	64014044	64014044	+	Frame_Shift_Del	DEL	G	-	-																															gggccctctcctgcggccccGggggggctctgaaagtagac																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:64014044delG	uc001nza.2	-	1	370	c.102delC	c.(100-102)CCCfs	p.P34fs		NM_138689	NP_619634	Q96C90	PP14B_HUMAN	protein phosphatase 1 regulatory subunit 14B	34					regulation of phosphorylation	cytoplasm	protein phosphatase inhibitor activity				0						CTGCGGCCCCGGGGGGGCTCT	0.547													6	7	---	---	---	---						.	-	64014044	-	-	64014044	7	5	213	1	0	1	0	1	0	0	0	0	12382	1103	39	0	357	0	PPP1R14B	11	64014044	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	21856	64014044	70992472	557	105994											
NRXN2	9379	broad.mit.edu	37	chr11	64390507	64390507	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggccctgatcccggcccccGatcttgatggcagcctggct	4	8	12	17	3	1	2	0	2	1	0	2	3	2	2	5	4	1	2	5	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:64390507G>A	uc001oap.2	-	6	1264	c.753C>T	c.(751-753)ATC>ATT	p.I251I	NRXN2_uc001oar.2_Silent_p.I1297I|NRXN2_uc001oas.2_Silent_p.I1227I|NRXN2_uc001oao.2_5'UTR|NRXN2_uc001oaq.2_Silent_p.I964I	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	251	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCCGGCCCCCGATCTTGATGG	0.498													5	11					0	0	1	0	0		A	64390507	A	A	64390507	2	1	213	1	0	0	0	0	0	0	0	1	10685	1048	37	1		1	NRXN2	11	64390507	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	376463	64390507	70616009	558	105995											
MAP4K2	5871	broad.mit.edu	37	chr11	64569590	64569590	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gccgctcctccaggggcccaGtggctgaaaggaaaagggag	10	4	16	11	1	0	1	0	1	0	0	2	3	2	3	4	5	0	2	4	5	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:64569590G>A	uc001obh.2	-	5	406	c.314C>T	c.(313-315)ACT>ATT	p.T105I	MAP4K2_uc001obi.2_Missense_Mutation_p.T105I|MAP4K2_uc010rnp.1_3'UTR	NM_004579	NP_004570	Q12851	M4K2_HUMAN	mitogen-activated protein kinase kinase kinase	105	Protein kinase.				activation of JUN kinase activity|immune response|positive regulation of JNK cascade|vesicle targeting	basolateral plasma membrane|Golgi membrane|soluble fraction	ATP binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(1)|pancreas(1)	2						CAGGGGCCCAGTGGCTGAAAG	0.627											OREG0004013	type=REGULATORY REGION|Gene=AF161342|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	5	19					0	0	1	0	0		A	64569590	A	A	64569590	3	1	213	1	0	0	0	0	1	0	0	0	9278	1029	36	4	2260	4	MAP4K2	11	64569590	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	179083	64569590	70436926	559	105996											
PPP2R5B	5526	broad.mit.edu	37	chr11	64693273	64693273	+	Frame_Shift_Del	DEL	C	-	-																															cccccgggctgtcgcctgtgCccccacccgacaaggtggac																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:64693273delC	uc001oby.2	+	2	652	c.67delC	c.(67-69)CCCfs	p.P23fs	PPP2R5B_uc001obz.2_Frame_Shift_Del_p.P23fs	NM_006244	NP_006235	Q15173	2A5B_HUMAN	beta isoform of regulatory subunit B56, protein	23					signal transduction	cytoplasm|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(2)	2						GTCGCCTGTGCCCCCACCCGA	0.697													7	10	---	---	---	---						.	-	64693273	-	-	64693273	7	5	213	1	0	1	0	1	0	0	0	0	12415	739	26	0	69	0	PPP2R5B	11	64693273	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	123683	64693273	70313243	560	105997											
NAALADL1	10004	broad.mit.edu	37	chr11	64815659	64815659	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgttgatgtaggccaccGtgcgctcctgcagcttgttg	5	11	12	13	3	0	1	0	1	0	0	1	1	1	1	4	1	3	6	4	1	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:64815659G>A	uc001ocn.2	-	10	1329	c.1313C>T	c.(1312-1314)ACG>ATG	p.T438M	NAALADL1_uc010rnw.1_Translation_Start_Site|NAALADL1_uc009ypz.2_RNA	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	438	NAALADase.|Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						GTAGGCCACCGTGCGCTCCTG	0.627													23	133					0	0	1	0	0		A	64815659	A	A	64815659	3	1	213	1	0	0	0	0	1	0	0	0	10147	1145	40	1	945	1	NAALADL1	11	64815659	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	122386	64815659	70190857	561	105998											
LTBP3	4054	broad.mit.edu	37	chr11	65325120	65325120	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccacgcggaagccggagcccGtgagcgtgtctgtgctgtgg	5	7	17	12	5	1	1	0	1	1	0	1	3	1	3	3	3	4	1	3	3	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:65325120G>A	uc001oej.2	-	1	580	c.311C>T	c.(310-312)ACG>ATG	p.T104M	LTBP3_uc010roi.1_Translation_Start_Site|LTBP3_uc001oei.2_Missense_Mutation_p.T104M|LTBP3_uc010roj.1_Missense_Mutation_p.T90M|LTBP3_uc010rok.1_Missense_Mutation_p.T15M	NM_001130144	NP_001123616	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding	104	Gly-rich.					extracellular region	calcium ion binding|growth factor binding			central_nervous_system(2)|lung(1)	3						GCCGGAGCCCGTGAGCGTGTC	0.672													36	54					0	0	1	0	0		A	65325120	A	A	65325120	3	1	213	1	0	0	0	0	1	0	0	0	9093	1145	40	1	3712	1	LTBP3	11	65325120	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	509461	65325120	69681396	562	105999											
RELA	5970	broad.mit.edu	37	chr11	65426295	65426295	+	Splice_Site	SNP	T	C	C	0	1	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	tcggcagtgttgggggcaccTgaggcagtgaaaacaaggga	11	6	17	7	1	0	2	0	2	0	0	1	3	0	3	1	5	1	4	1	5	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:65426295T>C	uc001ofg.2	-	7	700	c.560_splice	c.e7-1	p.R187_splice	RELA_uc001ofh.2_Splice_Site_p.R184_splice|RELA_uc010ron.1_Splice_Site_p.R198_splice|RELA_uc009yqr.2_Splice_Site_p.R134_splice|RELA_uc001ofe.2_Splice_Site_p.R187_splice|RELA_uc001off.2_Splice_Site_p.R187_splice|RELA_uc009yqs.1_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene						anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						TGGGGGCACCTGAGGCAGTGA	0.597													31	40					0	0	1	0	0		C	65426295	C	C	65426295	5	2	213	1	0	0	0	0	0	0	1	0	13241	1594	55	3	1117	3	RELA	11	65426295	Splice_Site	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	101175	65426295	69580221	563	106000											
SSH3	54961	broad.mit.edu	37	chr11	67079247	67079252	+	In_Frame_Del	DEL	GCAGGG	-	-																															caggccttccaggagcaggaGcaggggcaggggcaggggca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:67079247_67079252delGCAGGG	uc001okj.2	+	14	2047_2052	c.1869_1874delGCAGGG	c.(1867-1875)GAGCAGGGG>GAG	p.QG630del	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_In_Frame_Del_p.QG484del	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	630_631					regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			aggagcaggagcaggggcaggggcag	0.544													19	32	---	---	---	---						.	-	67079252	-	-	67079247	7	5	213	1	0	1	0	1	0	0	0	0	15211	962	34	0	1923	0	SSH3	11	67079247	In_Frame_Del	DEL	GCAGGG	TCGA-HU-A4H3-01A-21D-A25D-08	1652952	67079247	67927269	564	106001											
PITPNM1	9600	broad.mit.edu	37	chr11	67261407	67261407	+	Silent	SNP	C	T	T	0	0	0	1	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	gctcacctgaccaccatgcgCacggggtagacaccaatgcc	10	5	10	16	2	1	2	1	1	0	1	1	2	1	2	5	2	2	3	5	2	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:67261407C>T	uc001olx.2	-	19	3183	c.2994G>A	c.(2992-2994)GTG>GTA	p.V998V	PITPNM1_uc001olw.2_Silent_p.V280V|PITPNM1_uc001oly.2_Silent_p.V998V|PITPNM1_uc001olz.2_Silent_p.V997V	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	998					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						CCACCATGCGCACGGGGTAGA	0.537													3	14					0	0	1	0	0		T	67261407	T	T	67261407	2	4	213	1	0	0	0	0	0	0	0	1	11969	697	25	2		2	PITPNM1	11	67261407	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	182160	67261407	67745109	565	106002											
ALDH3B1	221	broad.mit.edu	37	chr11	67786680	67786680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catcggagattagcaagaacGtcgagaagatcctggccgag	13	6	13	9	4	0	4	0	0	0	4	3	7	1	4	2	2	2	1	2	2	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:67786680G>A	uc010rpy.1	+	6	552	c.436G>A	c.(436-438)GTC>ATC	p.V146I	ALDH3B1_uc001omz.2_Missense_Mutation_p.V146I|ALDH3B1_uc001ona.2_Missense_Mutation_p.V109I|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	146					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	TAGCAAGAACGTCGAGAAGAT	0.607													7	17					0	0	1	0	0		A	67786680	A	A	67786680	3	1	213	1	0	0	0	0	1	0	0	0	499	1145	40	1	449	1	ALDH3B1	11	67786680	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	525273	67786680	67219836	566	106003											
SHANK2	22941	broad.mit.edu	37	chr11	70333007	70333007	+	Frame_Shift_Del	DEL	C	-	-																															gctgtcctcgtcagcaaaatCcccctcctcggggaacatgg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:70333007delC	uc001oqc.2	-	21	3469	c.3391delG	c.(3391-3393)GATfs	p.D1131fs	SHANK2_uc010rqn.1_Frame_Shift_Del_p.D543fs|SHANK2_uc001opz.2_Frame_Shift_Del_p.D536fs|uc009ysn.1_Intron|SHANK2_uc001opy.2_Intron	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	752					intracellular signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	GKAP/Homer scaffold activity|ionotropic glutamate receptor binding|SH3 domain binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5			LUSC - Lung squamous cell carcinoma(11;4.72e-09)|STAD - Stomach adenocarcinoma(18;0.071)			TCAGCAAAATCCCCCTCCTCG	0.682													19	42	---	---	---	---						.	-	70333007	-	-	70333007	7	5	213	1	0	1	0	1	0	0	0	0	14290	855	30	0	2166	0	SHANK2	11	70333007	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	2546327	70333007	64673509	567	106004											
P2RY6	5031	broad.mit.edu	37	chr11	73007933	73007933	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcacctgcatcagcttccagCgctacctgggcatctgccac	7	9	8	17	1	3	0	2	0	1	0	4	0	4	0	4	1	5	4	4	1	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:73007933C>T	uc001otm.2	+	4	775	c.370C>T	c.(370-372)CGC>TGC	p.R124C	P2RY6_uc001otn.2_Missense_Mutation_p.R124C|P2RY6_uc001oto.2_Missense_Mutation_p.R124C|P2RY6_uc001otp.2_Missense_Mutation_p.R124C|P2RY6_uc001otq.2_Missense_Mutation_p.R124C|P2RY6_uc001otr.2_Missense_Mutation_p.R124C|P2RY6_uc001ots.2_Missense_Mutation_p.R124C	NM_176796	NP_789766	Q15077	P2RY6_HUMAN	pyrimidinergic receptor P2Y6	124	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1						CAGCTTCCAGCGCTACCTGGG	0.657													28	66					0	0	1	0	0		T	73007933	T	T	73007933	3	4	213	1	0	0	0	0	1	0	0	0	11373	768	27	1	372	1	P2RY6	11	73007933	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2674926	73007933	61998583	568	106005											
CHRDL2	25884	broad.mit.edu	37	chr11	74424463	74424463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacagcattgctgtggctccGtcacaggctgggggcagtgg	6	8	17	10	1	1	0	1	0	0	0	2	1	2	0	1	5	2	5	1	5	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:74424463G>A	uc001ovi.2	-	3	510	c.257C>T	c.(256-258)ACG>ATG	p.T86M	CHRDL2_uc001ovg.2_Intron|CHRDL2_uc001ovh.2_Missense_Mutation_p.T86M|CHRDL2_uc001ovk.1_Missense_Mutation_p.T86M			Q6WN34	CRDL2_HUMAN	RecName: Full=Chordin-like protein 2; AltName: Full=Chordin-related protein 2; AltName: Full=Breast tumor novel factor 1;          Short=BNF-1; Flags: Precursor;	86	VWFC 1.				cartilage development|cell differentiation|ossification	extracellular region|mitochondrion					0	Hepatocellular(1;0.098)					CTGTGGCTCCGTCACAGGCTG	0.597													15	41					0	0	1	0	0		A	74424463	A	A	74424463	3	1	213	1	0	0	0	0	1	0	0	0	3377	1145	40	1	1138	1	CHRDL2	11	74424463	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1416530	74424463	60582053	569	106006											
ODZ4	26011	broad.mit.edu	37	chr11	78449536	78449536	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatatccaaagagagggtTattgacaaaactgatgttca	15	12	9	5	0	1	3	1	2	0	1	2	4	2	3	1	1	1	3	1	1	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:78449536T>C	uc001ozl.3	-	20	3299	c.2836A>G	c.(2836-2838)AAC>GAC	p.N946D		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	946	Extracellular (Potential).				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						AAGAGAGGGTTATTGACAAAA	0.478													10	22					0	0	1	0	0		C	78449536	C	C	78449536	3	2	213	1	0	0	0	0	1	0	0	0	10856	1754	61	3	5533	3	ODZ4	11	78449536	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	4025073	78449536	56556980	570	106007											
FAT3	120114	broad.mit.edu	37	chr11	92086841	92086841	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatttgttaccatttgtcatTaatcagtttacaggtgttat	11	19	6	5	0	2	0	2	0	0	0	2	0	2	0	1	1	2	3	1	1	5	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:92086841T>C	uc001pdj.3	+	1	1580	c.1563T>C	c.(1561-1563)ATT>ATC	p.I521I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	521	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				CATTTGTCATTAATCAGTTTA	0.393										TCGA Ovarian(4;0.039)			30	81					0	0	1	0	0		C	92086841	C	C	92086841	2	2	213	1	0	0	0	0	0	0	0	1	5705	1742	61	3		3	FAT3	11	92086841	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	13637305	92086841	42919675	571	106008											
CEP57	9702	broad.mit.edu	37	chr11	95564332	95564332	+	Frame_Shift_Del	DEL	A	-	-																															tatgaaactgagacctggagAaaaaaggagaaaaaatcttc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:95564332delA	uc001pfp.1	+	11	1636	c.1415delA	c.(1414-1416)GAAfs	p.E472fs	CEP57_uc010ruh.1_Frame_Shift_Del_p.E463fs|CEP57_uc010rui.1_Frame_Shift_Del_p.E446fs|CEP57_uc009ywn.1_Frame_Shift_Del_p.E320fs|CEP57_uc001pfq.1_Frame_Shift_Del_p.E446fs|CEP57_uc001pfr.1_Frame_Shift_Del_p.E320fs	NM_014679	NP_055494	Q86XR8	CEP57_HUMAN	translokin	472	Mediates interaction with microtubules (By similarity).|Potential.				fibroblast growth factor receptor signaling pathway|G2/M transition of mitotic cell cycle|protein import into nucleus, translocation|spermatid development	centrosome|cytosol|Golgi apparatus|microtubule|nucleus	fibroblast growth factor binding|protein homodimerization activity			ovary(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				AGACCTGGAGAAAAAAGGAGA	0.383									Mosaic_Variegated_Aneuploidy_Syndrome				18	29	---	---	---	---						.	-	95564332	-	-	95564332	7	5	213	1	0	1	0	1	0	0	0	0	3259	246	9	0	1457	0	CEP57	11	95564332	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	3477491	95564332	39442184	572	106009											
CCDC82	79780	broad.mit.edu	37	chr11	96117891	96117891	+	Silent	SNP	A	G	G	1	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	ttagaatttctccttgtttcAtgtcttctaacatgtatcat	9	20	4	8	0	5	1	2	0	3	1	6	1	5	1	1	0	1	2	1	0	4	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:96117891A>G	uc009ywp.2	-	1	264	c.21T>C	c.(19-21)CAT>CAC	p.H7H	CCDC82_uc009ywq.2_Silent_p.H7H|CCDC82_uc001pfx.3_Silent_p.H7H|CCDC82_uc009ywr.2_Silent_p.H7H|CCDC82_uc009yws.2_Silent_p.H7H	NM_024725	NP_079001	Q8N4S0	CCD82_HUMAN	coiled-coil domain containing 82	7							protein binding			ovary(1)	1		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.154)		TCCTTGTTTCATGTCTTCTAA	0.299													9	14					0	0	1	0	0		G	96117891	G	G	96117891	2	3	213	1	0	0	0	0	0	0	0	1	2859	214	8	3		3	CCDC82	11	96117891	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	553559	96117891	38888625	573	106010											
CNTN5	53942	broad.mit.edu	37	chr11	99827598	99827598	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtggcggaagacagccggcGgttcatctcccaggagacag	9	6	15	11	3	2	2	1	0	1	2	3	4	2	3	2	5	1	1	2	5	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:99827598G>A	uc001pga.2	+	8	1073	c.734G>A	c.(733-735)CGG>CAG	p.R245Q	CNTN5_uc009ywv.1_Missense_Mutation_p.R245Q|CNTN5_uc001pfz.2_Missense_Mutation_p.R245Q|CNTN5_uc001pgb.2_Missense_Mutation_p.R171Q	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	245	Ig-like C2-type 2.				cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		GACAGCCGGCGGTTCATCTCC	0.413													20	47					0	0	1	0	0		A	99827598	A	A	99827598	3	1	213	1	0	0	0	0	1	0	0	0	3647	1116	39	1	756	1	CNTN5	11	99827598	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3709707	99827598	35178918	574	106011											
MMP10	4319	broad.mit.edu	37	chr11	102650093	102650093	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggtgtataattcacaatcCtggaggagaaaaattgaaga	16	10	10	5	0	1	3	1	1	0	2	2	5	2	4	1	3	0	1	1	3	6	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:102650093C>A	uc001phg.1	-	3	370	c.348_splice	c.e3-1	p.R116_splice		NM_002425	NP_002416	P09238	MMP10_HUMAN	matrix metalloproteinase 10 preproprotein						collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			kidney(1)|lung(1)|breast(1)|central_nervous_system(1)	4	all_epithelial(12;0.00961)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0303)|Lung(13;0.0828)|all cancers(10;0.116)|LUSC - Lung squamous cell carcinoma(19;0.151)	BRCA - Breast invasive adenocarcinoma(274;0.0145)		ATTCACAATCCTGGAGGAGAA	0.368													28	72					2.44723e-14	2.70714e-14	1	1	0		A	102650093	A	A	102650093	5	1	213	1	0	0	0	0	0	0	1	0	9667	695	24	5	1115	5	MMP10	11	102650093	Splice_Site	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2822495	102650093	32356423	575	106012											
ZC3H12C	85463	broad.mit.edu	37	chr11	110036198	110036198	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcagacttattccttgccCgataactccacacagccgtg	9	9	8	15	3	0	1	0	0	0	1	2	2	2	1	4	1	3	1	4	1	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:110036198C>T	uc009yxw.2	+	6	2439	c.2388C>T	c.(2386-2388)CCC>CCT	p.P796P	ZC3H12C_uc010rwc.1_Silent_p.P797P|ZC3H12C_uc010rwd.1_Silent_p.P797P|ZC3H12C_uc001pkr.3_Silent_p.P765P	NM_033390	NP_203748	Q9C0D7	ZC12C_HUMAN	zinc finger CCCH-type containing 12C	796							endonuclease activity|nucleic acid binding|zinc ion binding				0		all_cancers(61;3.24e-13)|all_epithelial(67;1.27e-07)|Melanoma(852;1.46e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;3.95e-05)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Breast(348;0.0544)		Epithelial(105;1.72e-06)|BRCA - Breast invasive adenocarcinoma(274;1.17e-05)|all cancers(92;9e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0279)		ATTCCTTGCCCGATAACTCCA	0.577													16	34					0	0	1	0	0		T	110036198	T	T	110036198	2	4	213	1	0	0	0	0	0	0	0	1	17588	639	23	1		1	ZC3H12C	11	110036198	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7386105	110036198	24970318	576	106013											
NNMT	4837	broad.mit.edu	37	chr11	114182908	114182908	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcacactgtgtctggatgcCgcctgcccagacctccccac	7	7	9	18	1	1	1	0	0	1	1	2	2	2	2	6	1	3	1	6	1	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:114182908C>T	uc001por.1	+	5	768	c.504C>T	c.(502-504)GCC>GCT	p.A168A	NNMT_uc001pos.1_Silent_p.A168A	NM_006169	NP_006160	P40261	NNMT_HUMAN	nicotinamide N-methyltransferase	168					xenobiotic metabolic process	cytosol	nicotinamide N-methyltransferase activity|pyridine N-methyltransferase activity			ovary(1)	1		all_cancers(61;4.83e-16)|all_epithelial(67;7.28e-09)|all_hematologic(158;0.000135)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.79e-06)|Epithelial(105;1.32e-05)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.128)	Niacin(DB00627)	GTCTGGATGCCGCCTGCCCAG	0.632													32	50					0	0	1	0	0		T	114182908	T	T	114182908	2	4	213	1	0	0	0	0	0	0	0	1	10528	639	23	1		1	NNMT	11	114182908	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4146710	114182908	20823608	577	106014											
SIDT2	51092	broad.mit.edu	37	chr11	117052201	117052201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgccgttgctgtttgtggtcCgccagaaggaggctgtggtg	4	11	17	9	3	0	1	0	0	0	1	1	2	1	2	3	4	1	4	3	4	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:117052201C>T	uc001pqh.1	+	2	294	c.253C>T	c.(253-255)CGC>TGC	p.R85C	SIDT2_uc010rxe.1_Missense_Mutation_p.R85C|SIDT2_uc001pqg.2_Missense_Mutation_p.R85C|SIDT2_uc001pqi.1_Missense_Mutation_p.R85C	NM_001040455	NP_001035545	Q8NBJ9	SIDT2_HUMAN	SID1 transmembrane family, member 2 precursor	85	Extracellular (Potential).					integral to membrane|lysosomal membrane					0	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.69e-05)|Epithelial(105;0.000219)|all cancers(92;0.00144)		GTTTGTGGTCCGCCAGAAGGA	0.602											OREG0021368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	26	40					0	0	1	0	0		T	117052201	T	T	117052201	3	4	213	1	0	0	0	0	1	0	0	0	14328	652	23	1	259	1	SIDT2	11	117052201	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2869293	117052201	17954315	578	106015											
TMPRSS4	56649	broad.mit.edu	37	chr11	117973950	117973950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	actgtgtcaagagcttccccGaagggcctgcagtggcaggt	8	8	14	11	1	1	1	1	0	0	1	2	2	2	1	3	3	2	3	3	3	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:117973950G>A	uc010rxo.1	+	4	583	c.292G>A	c.(292-294)GAA>AAA	p.E98K	TMPRSS4_uc010rxp.1_Missense_Mutation_p.E98K|TMPRSS4_uc010rxq.1_5'UTR|TMPRSS4_uc010rxr.1_Missense_Mutation_p.E73K|TMPRSS4_uc010rxs.1_Missense_Mutation_p.E58K|TMPRSS4_uc009yzu.2_RNA|TMPRSS4_uc010rxt.1_Missense_Mutation_p.E73K	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1	98	Extracellular (Potential).|SRCR.				proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		GAGCTTCCCCGAAGGGCCTGC	0.632													44	75					0	0	1	0	0		A	117973950	A	A	117973950	3	1	213	1	0	0	0	0	1	0	0	0	16274	1059	37	1	306	1	TMPRSS4	11	117973950	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	921749	117973950	17032566	579	106016											
RNF26	79102	broad.mit.edu	37	chr11	119207069	119207069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aaatcctgatgcgccaccccGtctaccaccgcaattgcccg	9	7	7	18	4	1	1	0	1	1	0	2	1	2	1	7	0	3	1	7	0	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:119207069G>A	uc001pwh.2	+	1	1833	c.1237G>A	c.(1237-1239)GTC>ATC	p.V413I		NM_032015	NP_114404	Q9BY78	RNF26_HUMAN	ring finger protein 26	413	RING-type.						zinc ion binding			ovary(1)	1		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;3.8e-05)		GCGCCACCCCGTCTACCACCG	0.632													42	68					0	0	1	0	0		A	119207069	A	A	119207069	3	1	213	1	0	0	0	0	1	0	0	0	13511	1145	40	1	1239	1	RNF26	11	119207069	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1233119	119207069	15799447	580	106017											
OR10G9	219870	broad.mit.edu	37	chr11	123894243	123894243	+	Missense_Mutation	SNP	A	G	G	1	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	tggacccaaccagatccagcActatttgtgtgatgcaccgc	10	9	9	13	1	0	2	0	1	0	1	1	3	1	3	4	1	3	2	4	1	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:123894243A>G	uc010sad.1	+	1	524	c.524A>G	c.(523-525)CAC>CGC	p.H175R		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CAGATCCAGCACTATTTGTGT	0.557													37	159					0	0	1	0	0		G	123894243	G	G	123894243	3	3	213	1	0	0	0	0	1	0	0	0	10923	159	6	3	526	3	OR10G9	11	123894243	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	4687174	123894243	11112273	581	106018											
ROBO3	64221	broad.mit.edu	37	chr11	124738822	124738822	+	Silent	SNP	T	C	C	0	1	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	ggccgaccccgacccaacatTgagtggtacaagaacggggc	11	4	13	13	3	0	2	0	1	0	1	0	4	0	2	4	4	3	1	4	4	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:124738822T>C	uc001qbc.2	+	2	477	c.285T>C	c.(283-285)ATT>ATC	p.I95I		NM_022370	NP_071765	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3	95	Ig-like C2-type 1.|Extracellular (Potential).				axon midline choice point recognition	integral to membrane	receptor activity			breast(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		GACCCAACATTGAGTGGTACA	0.701													5	5					0	0	1	0	0		C	124738822	C	C	124738822	2	2	213	1	0	0	0	0	0	0	0	1	13540	1800	63	3		3	ROBO3	11	124738822	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	844579	124738822	10267694	582	106019											
NFRKB	4798	broad.mit.edu	37	chr11	129743720	129743720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	catctgtggcaatgtctgtgCcggccctcccgactgctggg	4	10	13	14	2	2	0	0	0	2	0	3	1	3	0	3	3	2	2	3	3	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:129743720C>T	uc001qfi.2	-	22	2671	c.2470G>A	c.(2470-2472)GCA>ACA	p.A824T	NFRKB_uc001qfg.2_Missense_Mutation_p.A849T|NFRKB_uc001qfh.2_Missense_Mutation_p.A847T|NFRKB_uc010sbw.1_Missense_Mutation_p.A834T|NFRKB_uc009zcr.2_Missense_Mutation_p.A110T	NM_001143835	NP_001137307	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein	824					DNA recombination|DNA repair|inflammatory response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Ino80 complex	DNA binding|protease binding			ovary(3)	3	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0167)|Lung(977;0.171)|LUSC - Lung squamous cell carcinoma(976;0.184)		AATGTCTGTGCCGGCCCTCCC	0.642													35	61					0	0	1	0	0		T	129743720	T	T	129743720	3	4	213	1	0	0	0	0	1	0	0	0	10403	739	26	2	1453	2	NFRKB	11	129743720	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5004898	129743720	5262796	583	106020											
APLP2	334	broad.mit.edu	37	chr11	129979402	129979402	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttgtgggaagttaaatatgCatgtgaacattcagactggg	12	13	12	4	0	1	2	1	1	0	1	1	3	1	3	0	2	2	2	0	2	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:129979402C>T	uc010sby.1	+	2	341	c.184C>T	c.(184-186)CAT>TAT	p.H62Y	APLP2_uc001qfp.2_Missense_Mutation_p.H62Y|APLP2_uc001qfq.2_Missense_Mutation_p.H62Y|APLP2_uc010sbz.1_Intron|APLP2_uc001qfr.2_Splice_Site|APLP2_uc001qfs.2_Missense_Mutation_p.H62Y|APLP2_uc001qfv.2_Missense_Mutation_p.H9Y	NM_001642	NP_001633	Q06481	APLP2_HUMAN	amyloid beta (A4) precursor-like protein 2	62	Extracellular (Potential).				G-protein coupled receptor protein signaling pathway	integral to membrane|nucleus|plasma membrane	DNA binding|identical protein binding|serine-type endopeptidase inhibitor activity			ovary(3)	3	all_hematologic(175;0.0429)	Breast(109;0.00586)|Lung NSC(97;0.00785)|all_lung(97;0.0154)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.0197)|Lung(977;0.24)		GTTAAATATGCATGTGAACAT	0.443													18	29					0	0	1	0	0		T	129979402	T	T	129979402	3	4	213	1	0	0	0	0	1	0	0	0	779	710	25	2	190	2	APLP2	11	129979402	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	235682	129979402	5027114	584	106021											
ADAMTS15	170689	broad.mit.edu	37	chr11	130319163	130319163	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgggggctcttcagacctgCgacgctgcttctattctggg	4	11	13	13	3	4	1	1	0	3	1	4	2	4	1	2	3	2	3	2	3	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:130319163C>T	uc010scd.1	+	1	295	c.295C>T	c.(295-297)CGA>TGA	p.R99*		NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease	99					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		TTCAGACCTGCGACGCTGCTT	0.672													16	79					0	0	1	0	0		T	130319163	T	T	130319163	4	4	213	1	0	0	0	0	0	1	0	0	260	760	27	1	297	1	ADAMTS15	11	130319163	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	339761	130319163	4687353	585	106022											
NTM	50863	broad.mit.edu	37	chr11	132082036	132082036	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tacttggagacacatctctcCcaaaggtaagagaacagttt	14	10	8	9	0	1	2	0	0	1	2	3	4	2	2	1	2	2	2	1	2	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr11:132082036C>T	uc001qgp.2	+	3	1185	c.521C>T	c.(520-522)CCC>CTC	p.P174L	NTM_uc001qgm.2_Missense_Mutation_p.P174L|NTM_uc010sch.1_Missense_Mutation_p.P165L|NTM_uc010sci.1_Missense_Mutation_p.P174L|NTM_uc010scj.1_Missense_Mutation_p.P133L|NTM_uc001qgo.2_Missense_Mutation_p.P174L|NTM_uc001qgq.2_Missense_Mutation_p.P174L|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	174	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						CACATCTCTCCCAAAGGTAAG	0.443													14	67					0	0	1	0	0		T	132082036	T	T	132082036	3	4	213	1	0	0	0	0	1	0	0	0	10718	623	22	4	617	4	NTM	11	132082036	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1762873	132082036	2924480	586	106023											
WNK1	65125	broad.mit.edu	37	chr12	993365	993365	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtcctgtgccagaaagccGattacgagaatcaaaagttt	14	9	10	8	2	1	2	1	0	0	2	2	5	2	2	3	0	3	1	3	0	5	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:993365G>T	uc001qio.3	+	18	4307	c.3800G>T	c.(3799-3801)CGA>CTA	p.R1267L	WNK1_uc001qip.3_Missense_Mutation_p.R1020L|WNK1_uc001qir.3_Missense_Mutation_p.R440L	NM_018979	NP_061852	Q9H4A3	WNK1_HUMAN	WNK lysine deficient protein kinase 1	1267					intracellular protein kinase cascade|ion transport|neuron development	cytoplasm	ATP binding|protein binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			stomach(6)|breast(6)|ovary(5)|lung(4)|large_intestine(1)|central_nervous_system(1)	23	all_cancers(10;0.00611)|all_epithelial(11;0.00825)|all_lung(10;0.0331)|Ovarian(42;0.0512)|Lung NSC(10;0.0632)		Epithelial(1;1.74e-08)|all cancers(1;7.04e-08)|OV - Ovarian serous cystadenocarcinoma(31;0.000423)|BRCA - Breast invasive adenocarcinoma(9;0.0149)|Colorectal(1;0.0197)			CCAGAAAGCCGATTACGAGAA	0.408													40	74					4.32679e-17	4.82692e-17	1	1	0		T	993365	T	T	993365	3	4	213	1	0	0	0	0	1	0	0	0	17403	1058	37	5	5372	5	WNK1	12	993365	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		993365	132858530	587	106024											
TNFRSF1A	7132	broad.mit.edu	37	chr12	6438696	6438696	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagctccagccgatcgatctCgtggtcgctcagccctaggc	6	8	11	16	4	2	0	1	0	1	0	6	2	3	0	3	2	3	2	3	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:6438696C>T	uc001qnu.2	-	10	1431	c.1150G>A	c.(1150-1152)GAG>AAG	p.E384K	TNFRSF1A_uc001qnt.2_Missense_Mutation_p.E276K|TNFRSF1A_uc010sey.1_Missense_Mutation_p.E152K|TNFRSF1A_uc010sez.1_Missense_Mutation_p.E276K|TNFRSF1A_uc009zek.2_Missense_Mutation_p.E341K	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	384	Death.|Cytoplasmic (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						CGATCGATCTCGTGGTCGCTC	0.706													10	16					0	0	1	0	0		T	6438696	T	T	6438696	3	4	213	1	0	0	0	0	1	0	0	0	16318	893	31	1	221	1	TNFRSF1A	12	6438696	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5445331	6438696	127413199	588	106025											
LPAR5	57121	broad.mit.edu	37	chr12	6730002	6730002	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcccaggcagagcagccgcGccacgcggggccgccgcagg	6	0	17	18	7	0	1	0	0	0	1	0	1	0	1	5	4	2	3	5	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:6730002G>A	uc009zer.2	-	2	694	c.413C>T	c.(412-414)GCG>GTG	p.A138V	LPAR5_uc001qps.2_Missense_Mutation_p.A138V|LPAR5_uc010sff.1_Missense_Mutation_p.A138V	NM_001142961	NP_001136433	Q9H1C0	LPAR5_HUMAN	lysophosphatidic acid receptor 5	138	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)|skin(1)	2						GAGCAGCCGCGCCACGCGGGG	0.711													3	4					0	0	1	0	0		A	6730002	A	A	6730002	3	1	213	1	0	0	0	0	1	0	0	0	8926	1087	38	1	709	1	LPAR5	12	6730002	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	291306	6730002	127121893	589	106026											
USP5	8078	broad.mit.edu	37	chr12	6964600	6964600	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctacatctgtatgaacacGtttctgggctttgggaaaca	10	13	9	9	1	3	1	0	1	3	0	3	2	3	2	0	2	3	3	0	2	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:6964600G>A	uc001qri.3	+	2	206	c.147G>A	c.(145-147)ACG>ACA	p.T49T	USP5_uc001qrh.3_Silent_p.T49T	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	49					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						GTATGAACACGTTTCTGGGCT	0.488													59	135					0	0	1	0	0		A	6964600	A	A	6964600	2	1	213	1	0	0	0	0	0	0	0	1	17107	1132	40	1		1	USP5	12	6964600	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	234598	6964600	126887295	590	106027											
KLRC3	3823	broad.mit.edu	37	chr12	10587931	10587931	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggaataagaactattgttTttaacacagtggccatcagg	15	11	9	6	0	1	1	1	0	0	1	1	2	1	2	1	3	2	1	1	3	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:10587931T>C	uc001qyh.2	-	2	273	c.266A>G	c.(265-267)AAA>AGA	p.K89R	KLRC2_uc010she.1_Missense_Mutation_p.K89R|KLRC2_uc001qyk.2_Missense_Mutation_p.K89R	NM_002261	NP_002252	Q07444	NKG2E_HUMAN	killer cell lectin-like receptor subfamily C,	89	Helical; Signal-anchor for type II membrane protein; (Potential).				cellular defense response	integral to membrane	sugar binding|transmembrane receptor activity			ovary(2)|skin(1)	3						AACTATTGTTTTTAACACAGT	0.408													28	111					0	0	1	0	0		C	10587931	C	C	10587931	3	2	213	1	0	0	0	0	1	0	0	0	8433	1841	64	3		3	KLRC3	12	10587931	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3623331	10587931	123263964	591	106028											
LMO3	55885	broad.mit.edu	37	chr12	16753644	16753644	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttagtgtacagggtggagcCcacctctcccaagcgacagt	9	9	11	12	1	1	0	0	0	1	0	2	2	1	1	3	2	3	1	3	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:16753644C>A	uc001rdk.1	-	2	591	c.151G>T	c.(151-153)GGC>TGC	p.G51C	LMO3_uc001rdj.1_Missense_Mutation_p.G62C|LMO3_uc010shy.1_Missense_Mutation_p.G69C|LMO3_uc001rdl.1_Missense_Mutation_p.G51C|LMO3_uc009zii.1_RNA|LMO3_uc010shz.1_Intron|LMO3_uc001rdm.1_Missense_Mutation_p.G51C|LMO3_uc001rdo.1_Intron|LMO3_uc001rdp.1_Intron|LMO3_uc001rdn.1_Missense_Mutation_p.G51C|LMO3_uc009zij.1_RNA|LMO3_uc009zik.1_RNA	NM_018640	NP_061110	Q8TAP4	LMO3_HUMAN	LIM domain only 3	51	LIM zinc-binding 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent		zinc ion binding				0		Hepatocellular(102;0.244)				AGGGTGGAGCCCACCTCTCCC	0.483													7	74					8.12818e-05	8.37498e-05	1	1	0		A	16753644	A	A	16753644	3	1	213	1	0	0	0	0	1	0	0	0	8870	623	22	5	298	5	LMO3	12	16753644	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6165713	16753644	117098251	592	106029											
KRAS	3845	broad.mit.edu	37	chr12	25398281	25398281	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaaggcactcttgcctacgCcaccagctccaactaccaca	11	7	5	18	1	2	0	1	0	1	0	3	0	3	0	5	1	5	2	5	1	4	3	rs112445441		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:25398281C>T	uc001rgp.1	-	2	219	c.38G>A	c.(37-39)GGC>GAC	p.G13D	KRAS_uc001rgq.1_Missense_Mutation_p.G13D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	13	GTP.		G -> R (in pylocytic astrocytoma; somatic mutation; increase activation of the Ras pathway).|G -> D (in a breast carcinoma cell line and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G13D(2647)|p.G13C(182)|p.G13S(58)|p.G13R(41)|p.G13V(27)|p.G13A(24)|p.G13G(11)|p.G13E(4)|p.G12_G13insG(4)|p.G13N(3)|p.G13I(1)|p.G13_V14>DI(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			CTTGCCTACGCCACCAGCTCC	0.338	G13D(NCIH647_LUNG)|G13D(MDAMB231_BREAST)|G13D(NCIH747_LARGE_INTESTINE)|G13D(T84_LARGE_INTESTINE)|G13D(LOVO_LARGE_INTESTINE)|G13D(DLD1_LARGE_INTESTINE)|G13D(DV90_LUNG)|G13D(HCT15_LARGE_INTESTINE)|G13D(HCT116_LARGE_INTESTINE)|G13D(TOLEDO_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G13D(NOMO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			3	14					0	0	1	0	0		T	25398281	T	T	25398281	3	4	213	1	0	0	0	0	1	0	0	0	8454	739	26	2	668	2	KRAS	12	25398281	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8644637	25398281	108453614	593	106030											
TMTC1	83857	broad.mit.edu	37	chr12	29709910	29709910	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgttccaaggttgttgagcGcacttgcatggcgtggatac	7	12	14	8	2	0	1	0	1	0	0	1	2	1	2	1	3	3	5	1	3	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:29709910G>A	uc001rjb.2	-	10	1706	c.1232C>T	c.(1231-1233)GCG>GTG	p.A411V	TMTC1_uc001riz.2_Missense_Mutation_p.A168V|TMTC1_uc001rja.2_Missense_Mutation_p.A255V|TMTC1_uc001rjc.1_Missense_Mutation_p.A473V	NM_175861	NP_787057	Q8IUR5	TMTC1_HUMAN	transmembrane and tetratricopeptide repeat	519	TPR 2.					integral to membrane	binding				0	Lung NSC(12;7.61e-10)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.032)					GTTGTTGAGCGCACTTGCATG	0.463													29	30					0	0	1	0	0		A	29709910	A	A	29709910	3	1	213	1	0	0	0	0	1	0	0	0	16285	1087	38	1	1128	1	TMTC1	12	29709910	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4311629	29709910	104141985	594	106031											
MLL2	8085	broad.mit.edu	37	chr12	49420859	49420859	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcttcagggggccgggcacGgggcttgggtcgggctgatt	3	10	19	9	3	2	1	1	1	1	0	3	1	2	1	1	7	0	3	1	7	0	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:49420859G>A	uc001rta.3	-	48	14890	c.14890C>T	c.(14890-14892)CGT>TGT	p.R4964C		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	4964	Pro-rich.				chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						GGCCGGGCACGGGGCTTGGGT	0.627			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			26	66					0	0	1	0	0		A	49420859	A	A	49420859	3	1	213	1	0	0	0	0	1	0	0	0	9639	1116	39	1	1751	1	MLL2	12	49420859	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	19710949	49420859	84431036	595	106032											
AAAS	8086	broad.mit.edu	37	chr12	53701365	53701365	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggatgtctcagtaaagaGgggcaggtcatgaatagagc	12	8	16	5	0	2	3	2	1	1	2	3	4	2	4	0	5	1	2	0	5	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:53701365G>T	uc001scr.3	-	16	1712	c.1549C>A	c.(1549-1551)CTC>ATC	p.L517I	AAAS_uc001scs.3_Missense_Mutation_p.L484I	NM_015665	NP_056480	Q9NRG9	AAAS_HUMAN	achalasia, adrenocortical insufficiency,	517					carbohydrate metabolic process|glucose transport|nucleocytoplasmic transport|regulation of glucose transport|regulation of nucleocytoplasmic transport|transmembrane transport|viral reproduction	nuclear pore				ovary(1)	1						TCAGTAAAGAGGGGCAGGTCA	0.582													31	50					1.32181e-22	1.49682e-22	1	1	0		T	53701365	T	T	53701365	3	4	213	1	0	0	0	0	1	0	0	0	8	1000	35	5	95	5	AAAS	12	53701365	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4280506	53701365	80150530	596	106033											
MAP3K12	7786	broad.mit.edu	37	chr12	53877706	53877708	+	In_Frame_Del	DEL	CCT	-	-																															ggaactcacctgagctcctcCctcctcctcatcaccagttc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:53877706_53877708delCCT	uc001sdm.1	-	9	1344_1346	c.1246_1248delAGG	c.(1246-1248)AGGdel	p.R416del	MAP3K12_uc001sdn.1_In_Frame_Del_p.R449del	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	416					histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						TGAGCTCCTCCCTCCTCCTCATC	0.542													64	130	---	---	---	---						.	-	53877708	-	-	53877706	7	5	213	1	0	1	0	1	0	0	0	0	9264	622	22	0	1359	0	MAP3K12	12	53877706	In_Frame_Del	DEL	CCT	TCGA-HU-A4H3-01A-21D-A25D-08	176341	53877706	79974189	597	106034											
ZBTB39	9880	broad.mit.edu	37	chr12	57397071	57397071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cctctgacttgaagctctggCtgcacaagcggcagtggaag	9	8	13	11	1	2	2	0	2	2	0	2	3	2	3	1	3	3	4	1	3	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:57397071C>T	uc001sml.1	-	2	1717	c.1631G>A	c.(1630-1632)AGC>AAC	p.S544N	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	544	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						GAAGCTCTGGCTGCACAAGCG	0.562													8	25					0	0	1	0	0		T	57397071	T	T	57397071	3	4	213	1	0	0	0	0	1	0	0	0	17565	797	28	2	511	2	ZBTB39	12	57397071	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3519365	57397071	76454824	598	106035											
R3HDM2	22864	broad.mit.edu	37	chr12	57677634	57677634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggagatccttcccgcactgcCgcctttactgctgccgatgc	5	10	10	16	3	0	1	0	0	0	1	2	3	2	1	5	1	5	2	5	1	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:57677634C>T	uc009zpm.1	-	11	1137	c.1102G>A	c.(1102-1104)GGC>AGC	p.G368S	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_Missense_Mutation_p.G29S|R3HDM2_uc001snr.2_Missense_Mutation_p.G95S|R3HDM2_uc001sns.2_Missense_Mutation_p.G368S|R3HDM2_uc001snt.2_Missense_Mutation_p.G382S	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	368	Ser-rich.					nucleus	nucleic acid binding			ovary(2)	2						CCCGCACTGCCGCCTTTACTG	0.522													9	181					0	0	1	0	0		T	57677634	T	T	57677634	3	4	213	1	0	0	0	0	1	0	0	0	12913	652	23	1	1876	1	R3HDM2	12	57677634	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	280563	57677634	76174261	599	106036											
GLI1	2735	broad.mit.edu	37	chr12	57859007	57859007	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtgggatgatcccacatcCtcagtcccggggacccttcc	6	8	12	15	1	1	1	1	1	0	0	5	3	5	3	5	4	0	0	5	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:57859007C>A	uc001snx.2	+	5	581	c.503C>A	c.(502-504)CCT>CAT	p.P168H	GLI1_uc009zpq.2_Missense_Mutation_p.P40H	NM_005269	NP_005260	P08151	GLI1_HUMAN	GLI family zinc finger 1 isoform 1	168					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	transcription regulatory region DNA binding|zinc ion binding			skin(4)|ovary(4)|breast(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	15			GBM - Glioblastoma multiforme(3;3.99e-32)			ATCCCACATCCTCAGTCCCGG	0.592													12	25					3.07112e-06	3.20517e-06	1	1	0		A	57859007	A	A	57859007	3	1	213	1	0	0	0	0	1	0	0	0	6452	681	24	5	517	5	GLI1	12	57859007	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	181373	57859007	75992888	600	106037											
AVIL	10677	broad.mit.edu	37	chr12	58202264	58202264	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acagctgcttgaacatggccGactcagcaccatcgttgacg	10	8	10	13	3	1	2	1	2	0	0	2	3	1	2	2	1	4	4	2	1	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:58202264G>A	uc001sqj.1	-	9	1036	c.1007C>T	c.(1006-1008)TCG>TTG	p.S336L	AVIL_uc009zqe.1_Missense_Mutation_p.S329L|AVIL_uc001sqk.1_5'UTR|AVIL_uc001sql.3_Missense_Mutation_p.S313L	NM_006576	NP_006567	O75366	AVIL_HUMAN	advillin	336	Core (By similarity).				actin filament capping|cilium morphogenesis|cytoskeleton organization|positive regulation of neuron projection development	actin cytoskeleton|axon|cytoplasm	actin binding			central_nervous_system(1)	1	Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)					GAACATGGCCGACTCAGCACC	0.547													24	39					0	0	1	0	0		A	58202264	A	A	58202264	3	1	213	1	0	0	0	0	1	0	0	0	1228	1059	37	1	1496	1	AVIL	12	58202264	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	343257	58202264	75649631	601	106038											
XPOT	11260	broad.mit.edu	37	chr12	64808688	64808688	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttgttttgcaatcttataggCcctggcctattttgagcagt	7	17	9	8	0	1	1	0	1	1	0	1	1	1	1	2	2	2	3	2	2	4	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:64808688C>T	uc001ssb.2	+	3	488	c.62C>T	c.(61-63)GCC>GTC	p.A21V	XPOT_uc009zqm.1_5'UTR	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	21	Necessary for interaction with Ran, nuclear localization and nuclear import.				intracellular protein transport|tRNA export from nucleus	cytoplasm|nucleoplasm	protein transporter activity|tRNA binding			ovary(2)	2				GBM - Glioblastoma multiforme(28;0.0404)		ATCTTATAGGCCCTGGCCTAT	0.358													7	69					0	0	1	0	0		T	64808688	T	T	64808688	3	4	213	1	0	0	0	0	1	0	0	0	17476	753	26	2	68	2	XPOT	12	64808688	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6606424	64808688	69043207	602	106039											
PTPRR	5801	broad.mit.edu	37	chr12	71155319	71155319	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacattgatattaagtgaacGaagaacttcctcagagggca	16	9	9	7	1	1	4	1	2	0	2	2	5	2	4	1	1	3	1	1	1	6	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:71155319G>A	uc001swi.1	-	4	975	c.559C>T	c.(559-561)CGT>TGT	p.R187C	PTPRR_uc010stq.1_Missense_Mutation_p.R75C	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	187	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		TTAAGTGAACGAAGAACTTCC	0.368													37	79					0	0	1	0	0		A	71155319	A	A	71155319	3	1	213	1	0	0	0	0	1	0	0	0	12835	1058	37	1	1458	1	PTPRR	12	71155319	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6346631	71155319	62696576	603	106040											
NAV3	89795	broad.mit.edu	37	chr12	78571062	78571062	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgctggtgactgtggctcaGcatccatgaagccctcacaa	10	9	10	12	0	2	2	2	2	0	0	3	2	3	2	2	2	3	3	2	2	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:78571062G>T	uc001syp.2	+	27	5439	c.5266G>T	c.(5266-5268)GCA>TCA	p.A1756S	NAV3_uc001syo.2_Missense_Mutation_p.A1756S|NAV3_uc010sub.1_Missense_Mutation_p.A1235S|NAV3_uc009zsf.2_Missense_Mutation_p.A587S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1756						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CTGTGGCTCAGCATCCATGAA	0.433										HNSCC(70;0.22)			39	72					2.75727e-19	3.09899e-19	1	1	0		T	78571062	T	T	78571062	3	4	213	1	0	0	0	0	1	0	0	0	10203	971	34	5	5372	5	NAV3	12	78571062	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7415743	78571062	55280833	604	106041											
LUM	4060	broad.mit.edu	37	chr12	91502483	91502483	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atctagaatgagccactgcaGatcagttacattctcaaagg	14	10	8	9	0	3	3	2	1	2	2	4	3	3	3	1	1	3	2	1	1	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:91502483G>T	uc001tbm.2	-	2	663	c.274C>A	c.(274-276)CTG>ATG	p.L92M	LUM_uc001tbn.2_Intron	NM_002345	NP_002336	P51884	LUM_HUMAN	lumican precursor	92	LRR 2.				collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent			central_nervous_system(2)	2						AGCCACTGCAGATCAGTTACA	0.378													23	35					1.10513e-12	1.20727e-12	1	1	0		T	91502483	T	T	91502483	3	4	213	1	0	0	0	0	1	0	0	0	9103	933	33	5	750	5	LUM	12	91502483	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	12931421	91502483	42349412	605	106042											
ANKS1B	56899	broad.mit.edu	37	chr12	99837512	99837512	+	Missense_Mutation	SNP	T	C	C	0	1	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	caggggatggaggtgaacaaTcaggtgttgggcctgttgag	9	9	18	5	0	1	2	1	2	0	0	1	4	1	4	1	6	1	2	1	6	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:99837512T>C	uc001tge.1	-	11	1931	c.1514A>G	c.(1513-1515)GAT>GGT	p.D505G	ANKS1B_uc001tgf.1_Missense_Mutation_p.D85G|ANKS1B_uc009ztt.1_Missense_Mutation_p.D471G	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	505						Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		AGGTGAACAATCAGGTGTTGG	0.433													20	59					0	0	1	0	0		C	99837512	C	C	99837512	3	2	213	1	0	0	0	0	1	0	0	0	689	1435	50	3	2584	3	ANKS1B	12	99837512	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	8335029	99837512	34014383	606	106043											
SPIC	121599	broad.mit.edu	37	chr12	101873423	101873423	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaaggaaattccagctgctAtggagtgttgcctacagagg	12	9	12	8	0	0	1	0	0	0	1	1	3	1	3	2	3	4	3	2	3	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:101873423A>G	uc001tid.2	+	4	320	c.161A>G	c.(160-162)TAT>TGT	p.Y54C	SPIC_uc009zua.2_5'UTR|SPIC_uc010svp.1_Missense_Mutation_p.Y53C	NM_152323	NP_689536	Q8N5J4	SPIC_HUMAN	Spi-C transcription factor (Spi-1/PU.1 related)	54						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1						TCCAGCTGCTATGGAGTGTTG	0.373													9	39					0	0	1	0	0		G	101873423	G	G	101873423	3	3	213	1	0	0	0	0	1	0	0	0	15076	449	16	3	165	3	SPIC	12	101873423	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2035911	101873423	31978472	607	106044											
C12orf23	90488	broad.mit.edu	37	chr12	107365084	107365084	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtgaaagggggtgtctctgCtgtggctggaggtgttacag	6	11	19	5	0	1	1	0	1	1	0	2	2	1	2	0	6	2	3	0	6	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:107365084C>G	uc001tmb.2	+	4	640	c.266C>G	c.(265-267)GCT>GGT	p.A89G	C12orf23_uc001tmc.2_Missense_Mutation_p.A89G|C12orf23_uc001tmd.2_Missense_Mutation_p.A89G	NM_152261	NP_689474	Q8WUH6	CL023_HUMAN	hypothetical protein LOC90488	89	Helical; (Potential).					integral to membrane					0						GGTGTCTCTGCTGTGGCTGGA	0.473													30	58					0	0	1	0	0		G	107365084	G	G	107365084	3	3	213	1	0	0	0	0	1	0	0	0	1680	797	28	5	272	5	C12orf23	12	107365084	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5491661	107365084	26486811	608	106045											
FICD	11153	broad.mit.edu	37	chr12	108913176	108913176	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caccctgctttttgccacaaCtgagtactcggtggcactgc	7	11	9	14	1	0	1	0	1	0	0	1	1	0	1	2	2	5	3	2	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:108913176C>T	uc001tmx.1	+	3	1447	c.1301C>T	c.(1300-1302)ACT>ATT	p.T434I		NM_007076	NP_009007	Q9BVA6	FICD_HUMAN	Huntingtin interacting protein E	434					negative regulation of Rho GTPase activity	integral to membrane	binding|protein adenylyltransferase activity				0						TTTGCCACAACTGAGTACTCG	0.552													12	29					0	0	1	0	0		T	108913176	T	T	108913176	3	4	213	1	0	0	0	0	1	0	0	0	5901	565	20	4	1307	4	FICD	12	108913176	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1548092	108913176	24938719	609	106046											
KCTD10	83892	broad.mit.edu	37	chr12	109889532	109889532	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccgcctgtggcctccaggagCgcattgtcaggtccccggcc	4	7	13	17	3	1	0	1	0	0	0	3	1	3	1	7	4	1	1	7	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:109889532C>T	uc001toi.1	-	7	898	c.810G>A	c.(808-810)GCG>GCA	p.A270A	KCTD10_uc001toh.1_RNA|KCTD10_uc009zvi.1_Silent_p.A244A|KCTD10_uc001toj.1_Silent_p.A279A|KCTD10_uc001tok.1_Silent_p.A89A	NM_031954	NP_114160	Q9H3F6	BACD3_HUMAN	potassium channel tetramerisation domain	270					proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|nucleus|voltage-gated potassium channel complex	voltage-gated potassium channel activity				0						CCTCCAGGAGCGCATTGTCAG	0.647													15	27					0	0	1	0	0		T	109889532	T	T	109889532	2	4	213	1	0	0	0	0	0	0	0	1	8113	755	27	1		1	KCTD10	12	109889532	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	976356	109889532	23962363	610	106047											
CUX2	23316	broad.mit.edu	37	chr12	111734323	111734323	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctagagctgcggcggaagtaCgacgaggaggcagcatccaa	12	4	15	10	4	0	1	0	0	0	1	1	5	1	3	1	4	4	4	1	4	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:111734323C>T	uc001tsa.1	+	8	837	c.684C>T	c.(682-684)TAC>TAT	p.Y228Y		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	228	Potential.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						GGCGGAAGTACGACGAGGAGG	0.622													5	16					0	0	1	0	0		T	111734323	T	T	111734323	2	4	213	1	0	0	0	0	0	0	0	1	4068	547	19	1		1	CUX2	12	111734323	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1844791	111734323	22117572	611	106048											
NAA25	80018	broad.mit.edu	37	chr12	112492200	112492202	+	In_Frame_Del	DEL	ATC	-	-																															tatactaccaacccaatggtAtcatgctggatatgcttagc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:112492200_112492202delATC	uc001ttm.2	-	14	1638_1640	c.1618_1620delGAT	c.(1618-1620)GATdel	p.D540del	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_In_Frame_Del_p.D512del|NAA25_uc009zwa.1_In_Frame_Del_p.D540del	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	540						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						ACCCAATGGTATCATGCTGGATA	0.424													18	34	---	---	---	---						.	-	112492202	-	-	112492200	7	5	213	1	0	1	0	1	0	0	0	0	10139	446	16	0	1342	0	NAA25	12	112492200	In_Frame_Del	DEL	ATC	TCGA-HU-A4H3-01A-21D-A25D-08	757877	112492200	21359695	612	106049											
C12orf51	283450	broad.mit.edu	37	chr12	112607396	112607396	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcttgacgcagagctgagacGacggcactgaggccagctgc	9	5	15	12	3	0	4	0	3	0	2	0	6	0	4	1	2	3	5	1	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:112607396G>A	uc009zwc.2	-	63	10871	c.10853C>T	c.(10852-10854)TCG>TTG	p.S3618L		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						GAGCTGAGACGACGGCACTGA	0.577													26	42					0	0	1	0	0		A	112607396	A	A	112607396	3	1	213	1	0	0	0	0	1	0	0	0	1699	1059	37	1	1165	1	C12orf51	12	112607396	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	115196	112607396	21244499	613	106050											
MED13L	23389	broad.mit.edu	37	chr12	116429481	116429481	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggcgggctccacagagTtgaggggccgtgtagtagag	7	8	19	7	2	0	3	0	1	0	2	1	3	1	3	2	5	0	4	2	5	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:116429481T>C	uc001tvw.2	-	17	3333	c.3278A>G	c.(3277-3279)AAC>AGC	p.N1093S		NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like	1093					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		CTCCACAGAGTTGAGGGGCCG	0.547													16	24					0	0	1	0	0		C	116429481	C	C	116429481	3	2	213	1	0	0	0	0	1	0	0	0	9449	1725	60	3	3414	3	MED13L	12	116429481	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3822085	116429481	17422414	614	106051											
RNFT2	84900	broad.mit.edu	37	chr12	117187926	117187926	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atttccaccatggcggccacCgcgggggctccctgctgcag	5	7	13	16	3	0	0	0	0	0	0	2	0	2	0	5	4	2	3	5	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:117187926C>T	uc009zwn.2	+	4	597	c.364C>T	c.(364-366)CGC>TGC	p.R122C	RNFT2_uc001twb.3_Missense_Mutation_p.R122C|RNFT2_uc001twa.3_Missense_Mutation_p.R32C	NM_001109903	NP_001103373	Q96EX2	RNFT2_HUMAN	transmembrane protein 118 isoform 1	122	Extracellular (Potential).|His-rich.					integral to membrane	zinc ion binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)		TGGCGGCCACCGCGGGGGCTC	0.756													5	7					0	0	1	0	0		T	117187926	T	T	117187926	3	4	213	1	0	0	0	0	1	0	0	0	13527	652	23	1	374	1	RNFT2	12	117187926	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	758445	117187926	16663969	615	106052											
WDR66	144406	broad.mit.edu	37	chr12	122396297	122396297	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgccatctcctgccacccatAtcaacccctcattgccatcg	8	10	4	19	1	3	0	2	0	1	0	5	0	3	0	7	0	4	0	7	0	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:122396297A>G	uc009zxk.2	+	12	1992	c.1850A>G	c.(1849-1851)TAT>TGT	p.Y617C		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	617	WD 6.						calcium ion binding			ovary(1)|skin(1)	2	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)			OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)		TGCCACCCATATCAACCCCTC	0.458													54	103					0	0	1	0	0		G	122396297	G	G	122396297	3	3	213	1	0	0	0	0	1	0	0	0	17343	449	16	3	1892	3	WDR66	12	122396297	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	5208371	122396297	11455598	616	106053											
MLXIP	22877	broad.mit.edu	37	chr12	122623059	122623059	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgcaggaggaggcccggcGgctgcgggaggagatcgagg	8	3	22	8	4	0	1	0	0	0	1	1	7	0	4	1	8	2	2	1	8	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:122623059G>A	uc001ubq.2	+	14	2345	c.2345G>A	c.(2344-2346)CGG>CAG	p.R782Q	MLXIP_uc001ubt.2_Missense_Mutation_p.R389Q	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	782	Leucine-zipper.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		GAGGCCCGGCGGCTGCGGGAG	0.627													14	20					0	0	1	0	0		A	122623059	A	A	122623059	3	1	213	1	0	0	0	0	1	0	0	0	9654	1116	39	1	2399	1	MLXIP	12	122623059	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	226762	122623059	11228836	617	106054											
ZCCHC8	55596	broad.mit.edu	37	chr12	122958509	122958509	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacaaggtgatgaggcaacGgaattgccagttaaaggtgt	13	8	15	5	1	0	2	0	2	0	0	0	4	0	4	1	5	2	2	1	5	5	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:122958509G>A	uc001ucn.2	-	14	1790	c.1659C>T	c.(1657-1659)TCC>TCT	p.S553S	ZCCHC8_uc001ucl.2_Silent_p.S164S|ZCCHC8_uc001ucm.2_Silent_p.S315S|ZCCHC8_uc009zxp.2_Silent_p.S315S|ZCCHC8_uc009zxq.2_Silent_p.S315S	NM_017612	NP_060082	Q6NZY4	ZCHC8_HUMAN	zinc finger, CCHC domain containing 8	553						catalytic step 2 spliceosome	nucleic acid binding|protein binding|zinc ion binding				0	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)		ATGAGGCAACGGAATTGCCAG	0.532													68	154					0	0	1	0	0		A	122958509	A	A	122958509	2	1	213	1	0	0	0	0	0	0	0	1	17619	1103	39	1		1	ZCCHC8	12	122958509	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	335450	122958509	10893386	618	106055											
KNTC1	9735	broad.mit.edu	37	chr12	123060345	123060345	+	Splice_Site	SNP	A	G	G	1	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	atatgggtaaatttgctttcAgagtcaagttattacaggaa	14	14	9	4	0	2	1	2	0	0	1	2	2	2	2	0	2	2	3	0	2	7	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:123060345A>G	uc001ucv.2	+	29	2650	c.2487_splice	c.e29-2	p.K829_splice	KNTC1_uc010taf.1_Intron	NM_014708	NP_055523	P50748	KNTC1_HUMAN	Rough Deal homolog, centromere/kinetochore						cell division|mitotic cell cycle checkpoint|mitotic prometaphase|protein complex assembly|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|kinetochore microtubule|nucleus|spindle pole	protein binding			ovary(5)|kidney(3)|lung(1)|central_nervous_system(1)	10	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;7.21e-05)|Epithelial(86;0.000178)|BRCA - Breast invasive adenocarcinoma(302;0.217)		ATTTGCTTTCAGAGTCAAGTT	0.308													3	15					0	0	1	0	0		G	123060345	G	G	123060345	5	3	213	1	0	0	0	0	0	0	1	0	8444	202	7	3	2595	3	KNTC1	12	123060345	Splice_Site	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	101836	123060345	10791550	619	106056											
PITPNM2	57605	broad.mit.edu	37	chr12	123470761	123470761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gaagcaggtggttccgggagCgcagaaagtcgccctggccg	8	5	17	11	4	0	1	0	0	0	1	2	3	1	2	3	4	2	3	3	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:123470761C>T	uc001uej.1	-	25	4002	c.3863G>A	c.(3862-3864)CGC>CAC	p.R1288H	PITPNM2_uc001uek.1_Missense_Mutation_p.R1282H	NM_020845	NP_065896	Q9BZ72	PITM2_HUMAN	phosphatidylinositol transfer protein,	1288					metabolic process|transport	endomembrane system|integral to membrane|intracellular membrane-bounded organelle	calcium ion binding|lipid binding			ovary(1)|central_nervous_system(1)|skin(1)	3	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)		GTTCCGGGAGCGCAGAAAGTC	0.736													3	5					0	0	1	0	0		T	123470761	T	T	123470761	3	4	213	1	0	0	0	0	1	0	0	0	11970	768	27	1	190	1	PITPNM2	12	123470761	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	410416	123470761	10381134	620	106057											
DHX37	57647	broad.mit.edu	37	chr12	125449032	125449032	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgacacggaaggaggatacGccagtgacgcggtcgtagta	11	6	16	8	5	0	2	0	2	0	0	1	5	0	5	1	4	1	2	1	4	4	3	rs35913103	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:125449032G>A	uc001ugy.2	-	15	2052	c.1953C>T	c.(1951-1953)GGC>GGT	p.G651G		NM_032656	NP_116045	Q8IY37	DHX37_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 37	651	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;8.05e-05)|Epithelial(86;0.000486)|all cancers(50;0.00653)		AGGAGGATACGCCAGTGACGC	0.622													30	56					0	0	1	0	0		A	125449032	A	A	125449032	2	1	213	1	0	0	0	0	0	0	0	1	4516	1074	38	1		1	DHX37	12	125449032	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1978271	125449032	8402863	621	106058											
EP400	57634	broad.mit.edu	37	chr12	132445499	132445499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttcagcgctcagcctcggcGgtttgagcatgggtctccat	5	11	13	12	3	3	1	2	1	1	0	5	1	3	1	2	3	3	4	2	3	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:132445499G>A	uc001ujn.2	+	1	370	c.335G>A	c.(334-336)CGG>CAG	p.R112Q	EP400_uc001ujl.2_Missense_Mutation_p.R112Q|EP400_uc001ujm.2_Missense_Mutation_p.R112Q|EP400_uc001ujj.1_Missense_Mutation_p.R112Q|EP400_uc001ujk.2_Missense_Mutation_p.R112Q	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	112					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CAGCCTCGGCGGTTTGAGCAT	0.667													7	17					0	0	1	0	0		A	132445499	A	A	132445499	3	1	213	1	0	0	0	0	1	0	0	0	5157	1116	39	1	337	1	EP400	12	132445499	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6996467	132445499	1406396	622	106059											
GOLGA3	2802	broad.mit.edu	37	chr12	133349748	133349748	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtgtctctgtgggtcgccGcgtgggccggcgtgaccccc	1	9	16	15	5	1	1	0	1	1	0	3	1	1	1	4	3	0	0	4	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr12:133349748G>A	uc001ukz.1	-	24	4999	c.4440C>T	c.(4438-4440)CGC>CGT	p.R1480R		NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	1480					intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		GTGGGTCGCCGCGTGGGCCGG	0.701													3	2					0	0	1	0	0		A	133349748	A	A	133349748	2	1	213	1	0	0	0	0	0	0	0	1	6569	1074	38	1		1	GOLGA3	12	133349748	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	904249	133349748	502147	623	106060											
XPO4	64328	broad.mit.edu	37	chr13	21417957	21417957	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aattccatgctcaatccaatGttgctagttttacttgaact	11	16	5	9	0	1	1	1	1	0	0	3	1	3	1	2	0	4	4	2	0	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:21417957G>A	uc001unq.3	-	5	561	c.525C>T	c.(523-525)AAC>AAT	p.N175N	XPO4_uc010tcr.1_Silent_p.N101N	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	175					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TCAATCCAATGTTGCTAGTTT	0.333													18	34					0	0	1	0	0		A	21417957	A	A	21417957	2	1	213	1	0	0	0	0	0	0	0	1	17472	1368	48	4		4	XPO4	13	21417957	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		21417957	93751921	624	106061											
SACS	26278	broad.mit.edu	37	chr13	23906391	23906391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaactactctcttaactgtaCgcatttcattaggatctaat	13	15	4	9	1	3	0	1	0	2	0	4	1	3	1	0	1	4	2	0	1	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:23906391C>T	uc001uon.2	-	10	12213	c.11624G>A	c.(11623-11625)CGT>CAT	p.R3875H	SACS_uc001uoo.2_Missense_Mutation_p.R3728H|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3875					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		CTTAACTGTACGCATTTCATT	0.383													43	114					0	0	1	0	0		T	23906391	T	T	23906391	3	4	213	1	0	0	0	0	1	0	0	0	13829	536	19	1	2119	1	SACS	13	23906391	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2488434	23906391	91263487	625	106062											
SACS	26278	broad.mit.edu	37	chr13	23908934	23908934	+	Frame_Shift_Del	DEL	A	-	-																															tcatcctgtagtaaattgtcAaaaaatggtctagttttatt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:23908934delA	uc001uon.2	-	10	9670	c.9081delT	c.(9079-9081)TTTfs	p.F3027fs	SACS_uc001uoo.2_Frame_Shift_Del_p.F2880fs|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	3027					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		GTAAATTGTCAAAAAATGGTC	0.358													27	46	---	---	---	---						.	-	23908934	-	-	23908934	7	5	213	1	0	1	0	1	0	0	0	0	13829	127	5	0	4662	0	SACS	13	23908934	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	2543	23908934	91260944	626	106063											
SHISA2	387914	broad.mit.edu	37	chr13	26620736	26620736	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcctgtagccaggctgcaggCcgtccatgaaaggtggcaca	9	6	14	12	1	0	1	0	1	0	0	1	1	1	1	4	4	2	4	4	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:26620736C>T	uc001uqm.1	-	2	888	c.803G>A	c.(802-804)GGC>GAC	p.G268D		NM_001007538	NP_001007539	Q6UWI4	SHSA2_HUMAN	shisa homolog 2 precursor	268	Cytoplasmic (Potential).				multicellular organismal development	endoplasmic reticulum membrane|integral to membrane				ovary(1)|central_nervous_system(1)	2						AGGCTGCAGGCCGTCCATGAA	0.562													28	55					0	0	1	0	0		T	26620736	T	T	26620736	3	4	213	1	0	0	0	0	1	0	0	0	14305	739	26	2	88	2	SHISA2	13	26620736	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2711802	26620736	88549142	627	106064											
RNF6	6049	broad.mit.edu	37	chr13	26788460	26788460	+	Missense_Mutation	SNP	A	G	G	1	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	tatctgtacctaagttactcAgttctgagtgcatgtctggt	8	16	9	8	0	4	1	1	1	3	0	4	1	4	1	1	1	3	4	1	1	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:26788460A>G	uc001uqo.2	-	5	1850	c.1559T>C	c.(1558-1560)CTG>CCG	p.L520P	RNF6_uc001uqn.1_Intron|RNF6_uc010aak.2_Missense_Mutation_p.L520P|RNF6_uc001uqp.2_Missense_Mutation_p.L520P|RNF6_uc001uqq.2_Missense_Mutation_p.L520P|RNF6_uc010tdk.1_Missense_Mutation_p.L164P	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	520					negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		TAAGTTACTCAGTTCTGAGTG	0.473													39	79					0	0	1	0	0		G	26788460	G	G	26788460	3	3	213	1	0	0	0	0	1	0	0	0	13523	188	7	3	502	3	RNF6	13	26788460	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	167724	26788460	88381418	628	106065											
FLT3	2322	broad.mit.edu	37	chr13	28578289	28578289	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	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	tgtgaggacattccgaaacaCggccatccacattctgatac	12	9	8	12	2	1	2	0	2	1	0	3	4	3	3	3	2	2	0	3	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:28578289C>G	uc001urw.2	-	24	2964	c.2882G>C	c.(2881-2883)CGT>CCT	p.R961P	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Missense_Mutation_p.R920P	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	961	Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|vascular endothelial growth factor receptor activity			haematopoietic_and_lymphoid_tissue(8536)|lung(7)|ovary(3)|stomach(1)|central_nervous_system(1)|skin(1)	8549	Acute lymphoblastic leukemia(6;0.04)	Lung SC(185;0.0156)|Ovarian(182;0.0392)	Colorectal(13;0.000157)|READ - Rectum adenocarcinoma(15;0.105)	OV - Ovarian serous cystadenocarcinoma(117;0.00154)|all cancers(112;0.00459)|GBM - Glioblastoma multiforme(144;0.00562)|Epithelial(112;0.0959)|Lung(94;0.212)	Sorafenib(DB00398)|Sunitinib(DB01268)	TTCCGAAACACGGCCATCCAC	0.463			Mis|O		AML|ALL								8	38					0	0	1	0	0		G	28578289	G	G	28578289	3	3	213	1	0	0	0	0	1	0	0	0	5956	536	19	5	103	5	FLT3	13	28578289	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1789829	28578289	86591589	629	106066											
C13orf33	84935	broad.mit.edu	37	chr13	31480852	31480852	+	Frame_Shift_Del	DEL	G	-	-																															cggggagccggcggcggcgcGggggggcttcaacgtcttcg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:31480852delG	uc001uth.3	+	1	541	c.200delG	c.(199-201)CGGfs	p.R67fs	uc001utg.1_Intron	NM_032849	NP_116238	Q5VYS4	CM033_HUMAN	hypothetical protein LOC84935	67											0		Lung SC(185;0.0281)		all cancers(112;0.00914)|Epithelial(112;0.0474)|OV - Ovarian serous cystadenocarcinoma(117;0.0559)|GBM - Glioblastoma multiforme(144;0.244)		gcggcggcgcgggggggcTTC	0.582													3	5	---	---	---	---						.	-	31480852	-	-	31480852	7	5	213	1	0	1	0	1	0	0	0	0	1730	1116	39	0	202	0	C13orf33	13	31480852	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	2902563	31480852	83689026	630	106067											
SPG20	23111	broad.mit.edu	37	chr13	36905729	36905729	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ctagaggatataaccagtcaCaaacctgaaaggattcatta	17	9	7	8	0	2	2	2	1	0	1	2	4	2	4	2	2	2	0	2	2	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:36905729C>A	uc001uvn.2	-	4	1085	c.815G>T	c.(814-816)TGT>TTT	p.C272F	SPG20_uc010ten.1_Missense_Mutation_p.C272F|SPG20_uc001uvm.2_Missense_Mutation_p.C272F|SPG20_uc001uvo.2_Missense_Mutation_p.C272F|SPG20_uc001uvq.2_Missense_Mutation_p.C272F|SPG20_uc001uvp.2_Missense_Mutation_p.C272F	NM_001142296	NP_001135768	Q8N0X7	SPG20_HUMAN	spartin	272					cell death	cytoplasm	ubiquitin protein ligase binding				0		Breast(139;0.014)|Lung SC(185;0.0548)|Prostate(109;0.174)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;2.42e-08)|Epithelial(112;1.58e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00128)|BRCA - Breast invasive adenocarcinoma(63;0.0125)|GBM - Glioblastoma multiforme(144;0.026)		TAACCAGTCACAAACCTGAAA	0.318													14	33					9.05144e-12	9.85726e-12	1	1	0		A	36905729	A	A	36905729	3	1	213	1	0	0	0	0	1	0	0	0	15067	478	17	5	1213	5	SPG20	13	36905729	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5424877	36905729	78264149	631	106068											
AKAP11	11215	broad.mit.edu	37	chr13	42874500	42874500	+	Frame_Shift_Del	DEL	A	-	-																															ttgatcaaaaaaataaatctAaaaataaatccttaatgatt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:42874500delA	uc001uys.1	+	8	1793	c.1618delA	c.(1618-1620)AAAfs	p.K540fs		NM_016248	NP_057332	Q9UKA4	AKA11_HUMAN	A-kinase anchor protein 11	540					intracellular protein kinase cascade	microtubule organizing center	protein kinase A binding|protein phosphatase 1 binding			ovary(1)|central_nervous_system(1)	2		Lung NSC(96;1.86e-05)|Prostate(109;0.0165)|Lung SC(185;0.0262)|Breast(139;0.0707)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;0.000365)|GBM - Glioblastoma multiforme(144;0.00116)|BRCA - Breast invasive adenocarcinoma(63;0.19)		AAATAAATCTAAAAATAAATC	0.284													17	22	---	---	---	---						.	-	42874500	-	-	42874500	7	5	213	1	0	1	0	1	0	0	0	0	447	363	13	0	1640	0	AKAP11	13	42874500	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	5968771	42874500	72295378	632	106069											
ENOX1	55068	broad.mit.edu	37	chr13	43788214	43788214	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgaattcctgtttgaacatgCgtggcagcctcatcaaaagc	11	11	9	10	1	2	2	2	2	0	0	3	2	3	2	2	1	4	2	2	1	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:43788214C>T	uc001uza.3	-	17	2144	c.1844G>A	c.(1843-1845)CGC>CAC	p.R615H	ENOX1_uc001uzb.3_Missense_Mutation_p.R615H|ENOX1_uc001uzc.3_Missense_Mutation_p.R615H|ENOX1_uc001uyz.3_Missense_Mutation_p.R224H	NM_001127615	NP_001121087	Q8TC92	ENOX1_HUMAN	ecto-NOX disulfide-thiol exchanger 1	615					electron transport chain|rhythmic process|transport	extracellular space|plasma membrane	nucleic acid binding|nucleotide binding|oxidoreductase activity			pancreas(1)|skin(1)	2		Lung NSC(96;0.000518)|Prostate(109;0.0233)|Hepatocellular(98;0.0268)|Lung SC(185;0.0367)|Breast(139;0.0406)		GBM - Glioblastoma multiforme(144;0.00333)|BRCA - Breast invasive adenocarcinoma(63;0.172)		TTTGAACATGCGTGGCAGCCT	0.428													30	74					0	0	1	0	0		T	43788214	T	T	43788214	3	4	213	1	0	0	0	0	1	0	0	0	5134	768	27	1	91	1	ENOX1	13	43788214	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	913714	43788214	71381664	633	106070											
FAM124A	220108	broad.mit.edu	37	chr13	51825626	51825626	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagctttccgttgaagaggcGcaggaccctttcctggtcag	7	10	13	11	2	1	2	1	1	0	1	3	4	3	3	3	3	1	3	3	3	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:51825626G>A	uc001vfg.1	+	3	254	c.123G>A	c.(121-123)GCG>GCA	p.A41A	FAM124A_uc001vfe.2_Silent_p.A41A|FAM124A_uc001vff.1_Silent_p.A77A	NM_145019	NP_659456	Q86V42	F124A_HUMAN	hypothetical protein LOC220108	41										central_nervous_system(1)	1		Acute lymphoblastic leukemia(7;0.000334)|Breast(56;0.00156)|Prostate(109;0.00538)|Lung NSC(96;0.0216)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;4.25e-07)		TTGAAGAGGCGCAGGACCCTT	0.527													17	38					0	0	1	0	0		A	51825626	A	A	51825626	2	1	213	1	0	0	0	0	0	0	0	1	5436	1074	38	1		1	FAM124A	13	51825626	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	8037412	51825626	63344252	634	106071											
DIS3	22894	broad.mit.edu	37	chr13	73352362	73352363	+	Frame_Shift_Del	DEL	TT	-	-																															ccttcttctatggctttctcTttgtttctcctgtcatttgt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:73352362_73352363delTT	uc001vix.3	-	3	916_917	c.542_543delAA	c.(541-543)AAAfs	p.K181fs	DIS3_uc001viy.3_Frame_Shift_Del_p.K151fs|DIS3_uc001viz.2_RNA	NM_014953	NP_055768	Q9Y2L1	RRP44_HUMAN	DIS3 mitotic control isoform a	181	PINc.				CUT catabolic process|exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|rRNA catabolic process|rRNA processing	cytosol|exosome (RNase complex)|nucleolus|nucleoplasm	3'-5'-exoribonuclease activity|endonuclease activity|guanyl-nucleotide exchange factor activity|protein binding|RNA binding			central_nervous_system(1)	1		Breast(118;0.0074)|Acute lymphoblastic leukemia(28;0.0195)		GBM - Glioblastoma multiforme(99;0.000181)		TGGCTTTCTCTTTGTTTCTCCT	0.361										Multiple Myeloma(4;0.011)			20	32	---	---	---	---						.	-	73352363	-	-	73352362	7	5	213	1	0	1	0	1	0	0	0	0	4541	1606	56	0	2409	0	DIS3	13	73352362	Frame_Shift_Del	DEL	TT	TCGA-HU-A4H3-01A-21D-A25D-08	21526736	73352362	41817516	635	106072											
TBC1D4	9882	broad.mit.edu	37	chr13	75863191	75863191	+	Missense_Mutation	SNP	A	G	G	1	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	cctgaagctcatcctgtagcAcatgatattccacctcatag	11	11	6	13	0	2	2	2	2	0	0	4	2	4	2	4	0	2	3	4	0	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:75863191A>G	uc001vjl.1	-	20	3889	c.3542T>C	c.(3541-3543)GTG>GCG	p.V1181A	TBC1D4_uc010tht.1_Missense_Mutation_p.V391A|TBC1D4_uc010thu.1_Missense_Mutation_p.V338A|TBC1D4_uc010aer.2_Missense_Mutation_p.V1173A|TBC1D4_uc010aes.2_Missense_Mutation_p.V1118A	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	1181						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		ATCCTGTAGCACATGATATTC	0.418													32	58					0	0	1	0	0		G	75863191	G	G	75863191	3	3	213	1	0	0	0	0	1	0	0	0	15647	159	6	3	362	3	TBC1D4	13	75863191	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2510829	75863191	39306687	636	106073											
SLC15A1	6564	broad.mit.edu	37	chr13	99354751	99354751	+	Frame_Shift_Del	DEL	T	-	-																															tacctgattccattttccccTttttctggcttctggttaag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:99354751delT	uc001vno.2	-	18	1526	c.1449delA	c.(1447-1449)AAAfs	p.K483fs		NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide	483	Extracellular (Potential).				digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	CATTTTCCCCTTTTTCTGGCT	0.254													42	81	---	---	---	---						.	-	99354751	-	-	99354751	7	5	213	1	0	1	0	1	0	0	0	0	14423	1606	56	0	701	0	SLC15A1	13	99354751	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	23491560	99354751	15815127	637	106074											
NALCN	259232	broad.mit.edu	37	chr13	102029266	102029266	+	Splice_Site	SNP	A	G	G	1	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	cttattgtaaagcagcgctcActttaaaatatttgtaattc	13	16	5	7	1	1	0	1	0	0	0	2	0	1	0	0	0	2	4	0	0	7	9			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:102029266A>G	uc001vox.1	-	5	704	c.515_splice	c.e5+1	p.K172_splice	NALCN_uc001voy.2_Splice_Site|NALCN_uc001voz.2_Splice_Site_p.K172_splice|NALCN_uc001vpa.2_Splice_Site_p.K172_splice	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1							integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					AGCAGCGCTCACTTTAAAATA	0.388													16	42					0	0	1	0	0		G	102029266	G	G	102029266	5	3	213	1	0	0	0	0	0	0	1	0	10166	173	6	3	4859	3	NALCN	13	102029266	Splice_Site	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2674515	102029266	13140612	638	106075											
FAM155A	728215	broad.mit.edu	37	chr13	108518356	108518356	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcccccccggccgccccccGactccagttcctggcgcaca	4	5	9	23	4	0	0	0	0	0	0	3	1	3	0	9	2	0	2	9	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:108518356G>A	uc001vql.2	-	1	1105	c.589C>T	c.(589-591)CGG>TGG	p.R197W		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	197						integral to membrane	binding			skin(1)	1						GCCGCCCCCCGACTCCAGTTC	0.637													62	84					0	0	1	0	0		A	108518356	A	A	108518356	3	1	213	1	0	0	0	0	1	0	0	0	5476	1057	37	1	799	1	FAM155A	13	108518356	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6489090	108518356	6651522	639	106076											
LAMP1	3916	broad.mit.edu	37	chr13	113960868	113960868	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acgggaccgcgtgcataatgGccaacttctctgctgccttc	7	10	10	14	3	1	0	0	0	1	0	3	1	1	1	3	2	4	2	3	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:113960868G>A	uc001vtm.1	+	2	411	c.130G>A	c.(130-132)GCC>ACC	p.A44T	LAMP1_uc010tka.1_Missense_Mutation_p.A44T	NM_005561	NP_005552	P11279	LAMP1_HUMAN	lysosomal-associated membrane protein 1	44	Lumenal (Potential).|First lumenal domain.					endosome membrane|integral to plasma membrane|lysosomal membrane|membrane fraction				central_nervous_system(2)	2	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			GTGCATAATGGCCAACTTCTC	0.512													27	72					0	0	1	0	0		A	113960868	A	A	113960868	3	1	213	1	0	0	0	0	1	0	0	0	8633	1203	42	2	136	2	LAMP1	13	113960868	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5442512	113960868	1209010	640	106077											
UPF3A	65110	broad.mit.edu	37	chr13	115051799	115051800	+	Frame_Shift_Del	DEL	AG	-	-																															ctagaatatcctgcagtggtAgagtttgctccattccagaa																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr13:115051799_115051800delAG	uc001vup.2	+	4	481_482	c.444_445delAG	c.(442-447)GTAGAGfs	p.V148fs	UPF3A_uc001vuq.2_Intron|UPF3A_uc001vus.2_Intron|UPF3A_uc001vur.2_RNA|UPF3A_uc001vut.2_5'UTR|UPF3A_uc001vuu.2_5'UTR	NM_023011	NP_075387	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A	148_149					mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			skin(1)	1	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)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		CTGCAGTGGTAGAGTTTGCTCC	0.406													32	67	---	---	---	---						.	-	115051800	-	-	115051799	7	5	213	1	0	1	0	1	0	0	0	0	17031	407	15	0	458	0	UPF3A	13	115051799	Frame_Shift_Del	DEL	AG	TCGA-HU-A4H3-01A-21D-A25D-08	1090931	115051799	118079	641	106078											
OR4K17	390436	broad.mit.edu	37	chr14	20586464	20586464	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cggcaaccactctgtagataAgttccttgctgtgttttata	9	15	8	9	1	1	1	0	0	1	1	2	1	2	1	2	1	2	5	2	1	5	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:20586464A>C	uc001vwo.1	+	1	899	c.899A>C	c.(898-900)AAG>ACG	p.K300T		NM_001004715	NP_001004715	Q8NGC6	OR4KH_HUMAN	olfactory receptor, family 4, subfamily K,	272	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.77e-06)	GBM - Glioblastoma multiforme(265;0.0144)		TCTGTAGATAAGTTCCTTGCT	0.408													15	47					0	0	1	0	0		C	20586464	C	C	20586464	3	2	213	1	0	0	0	0	1	0	0	0	11090	72	3	5	901	5	OR4K17	14	20586464	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08		20586464	86763076	642	106079											
METT11D1	64745	broad.mit.edu	37	chr14	21458721	21458721	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cagaggagttgcaaagacggGctaggcatcttgagaaaaaa	16	6	13	6	1	1	3	0	1	1	3	1	5	1	4	0	3	1	4	0	3	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:21458721G>A	uc001vyn.2	+	3	525	c.328G>A	c.(328-330)GCT>ACT	p.A110T	METT11D1_uc010tlk.1_Missense_Mutation_p.A110T|METT11D1_uc001vym.2_Missense_Mutation_p.A110T|METT11D1_uc001vyo.2_Missense_Mutation_p.A110T|METT11D1_uc001vyp.2_5'UTR|METT11D1_uc001vyq.2_5'UTR	NM_022734	NP_073571	Q9H7H0	MET17_HUMAN	methyltransferase 11 domain containing 1 isoform	110					translation	mitochondrion|ribosome	copper ion binding|methyltransferase activity				0	all_cancers(95;0.00267)		OV - Ovarian serous cystadenocarcinoma(11;1.34e-10)|Epithelial(56;1.57e-08)|all cancers(55;7.45e-08)	GBM - Glioblastoma multiforme(265;0.0191)		GCAAAGACGGGCTAGGCATCT	0.453											OREG0022561	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	28	42					0	0	1	0	0		A	21458721	A	A	21458721	3	1	213	1	0	0	0	0	1	0	0	0	9509	1203	42	2	338	2	METT11D1	14	21458721	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	872257	21458721	85890819	643	106080											
CHD8	57680	broad.mit.edu	37	chr14	21897486	21897486	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aggaccagggtgatgcgtttCgattcaccctaaagtgaaga	12	9	12	8	2	1	3	1	2	0	1	2	5	1	4	2	2	1	1	2	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:21897486C>T	uc001was.1	-	3	109	c.15G>A	c.(13-15)TCG>TCA	p.S5S	CHD8_uc001war.1_5'UTR	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	284					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TGATGCGTTTCGATTCACCCT	0.443													15	18					0	0	1	0	0		T	21897486	T	T	21897486	2	4	213	1	0	0	0	0	0	0	0	1	3334	871	31	1		1	CHD8	14	21897486	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	438765	21897486	85452054	644	106081											
ABHD4	63874	broad.mit.edu	37	chr14	23072850	23072850	+	Missense_Mutation	SNP	T	C	C	0	1	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	agttaaacacctcatcctggTggacccatggggctttcccc	8	10	9	14	0	1	0	1	0	0	0	3	1	3	1	5	4	1	2	5	4	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:23072850T>C	uc001wgm.2	+	4	575	c.506T>C	c.(505-507)GTG>GCG	p.V169A	ABHD4_uc010tmz.1_3'UTR|ABHD4_uc010tna.1_Missense_Mutation_p.V169A|ABHD4_uc010tnb.1_Intron	NM_022060	NP_071343	Q8TB40	ABHD4_HUMAN	abhydrolase domain containing 4	169					lipid catabolic process		hydrolase activity			central_nervous_system(1)	1	all_cancers(95;5.49e-05)			GBM - Glioblastoma multiforme(265;0.0153)		CTCATCCTGGTGGACCCATGG	0.522													32	74					0	0	1	0	0		C	23072850	C	C	23072850	3	2	213	1	0	0	0	0	1	0	0	0	84	1696	59	3	520	3	ABHD4	14	23072850	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1175364	23072850	84276690	645	106082											
JUB	84962	broad.mit.edu	37	chr14	23451381	23451381	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaggcgccccttgcccggcCcgggggtcccgtcagaccca	4	6	13	18	4	1	1	1	0	0	1	2	1	2	1	6	4	1	0	6	4	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:23451381C>A	uc001whz.2	-	1	471	c.95G>T	c.(94-96)GGG>GTG	p.G32V		NM_032876	NP_116265	Q96IF1	JUB_HUMAN	ajuba isoform 1	32	PreLIM.				cell cycle|gene silencing by miRNA|positive regulation of protein complex assembly	cell-cell junction|cytoplasmic mRNA processing body|microtubule organizing center	alpha-catenin binding|zinc ion binding				0	all_cancers(95;4.6e-05)			GBM - Glioblastoma multiforme(265;0.0122)		CTTGCCCGGCCCGGGGGTCCC	0.677													23	39					3.08376e-08	3.27028e-08	1	1	0		A	23451381	A	A	23451381	3	1	213	1	0	0	0	0	1	0	0	0	7984	623	22	5	1553	5	JUB	14	23451381	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	378531	23451381	83898159	646	106083											
DCAF11	80344	broad.mit.edu	37	chr14	24590651	24590651	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagtgctgcacaccctcatcCgctgccggttctcccccatt	5	10	8	18	2	2	0	1	0	1	0	4	1	3	0	5	1	3	4	5	1	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:24590651C>T	uc001wlv.2	+	13	1604	c.1324C>T	c.(1324-1326)CGC>TGC	p.R442C	DCAF11_uc001wlw.2_Missense_Mutation_p.R442C|DCAF11_uc001wlz.2_Missense_Mutation_p.R342C|DCAF11_uc001wly.2_Missense_Mutation_p.R398C|DCAF11_uc001wme.2_Missense_Mutation_p.R402C|DCAF11_uc010tny.1_Missense_Mutation_p.R309C|DCAF11_uc001wmd.2_Missense_Mutation_p.R442C|DCAF11_uc001wmc.2_Missense_Mutation_p.R342C|DCAF11_uc001wmb.3_Missense_Mutation_p.R416C|DCAF11_uc001wma.3_Missense_Mutation_p.R442C	NM_001163484	NP_001156956	Q8TEB1	DCA11_HUMAN	DDB1 and CUL4 associated factor 11 isoform 1	442	WD 6.					CUL4 RING ubiquitin ligase complex	protein binding				0						CACCCTCATCCGCTGCCGGTT	0.592													27	51					0	0	1	0	0		T	24590651	T	T	24590651	3	4	213	1	0	0	0	0	1	0	0	0	4265	652	23	1	1370	1	DCAF11	14	24590651	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1139270	24590651	82758889	647	106084											
NOVA1	4857	broad.mit.edu	37	chr14	26917657	26917657	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctggcagctgctgcagccaaAgcccctgttgctgctgcttg	5	10	12	14	0	0	0	0	0	0	0	0	0	0	0	3	1	8	8	3	1	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:26917657A>G	uc001wpy.2	-	5	1350	c.1032T>C	c.(1030-1032)GCT>GCC	p.A344A	NOVA1_uc001wpz.2_Silent_p.A320A|NOVA1_uc001wqa.2_Silent_p.A222A	NM_002515	NP_002506	P51513	NOVA1_HUMAN	neuro-oncological ventral antigen 1 isoform 1	347	Ala-rich.				locomotory behavior|RNA splicing|synaptic transmission	nucleus	RNA binding			skin(2)|upper_aerodigestive_tract(1)|breast(1)|liver(1)	5				GBM - Glioblastoma multiforme(265;0.0135)		ctgcagccaaagcccctgttg	0.328													11	20					0	0	1	0	0		G	26917657	G	G	26917657	2	3	213	1	0	0	0	0	0	0	0	1	10573	59	3	3		3	NOVA1	14	26917657	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2327006	26917657	80431883	648	106085											
RALGAPA1	253959	broad.mit.edu	37	chr14	36197626	36197626	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgataaatgttaagaatgcGtttacacatatctgtgtgtt	12	15	8	6	2	1	1	0	0	1	1	1	2	1	1	1	0	2	3	1	0	6	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:36197626G>A	uc001wti.2	-	13	2069	c.1678C>T	c.(1678-1680)CGC>TGC	p.R560C	RALGAPA1_uc001wtj.2_Missense_Mutation_p.R560C|RALGAPA1_uc010tpv.1_Missense_Mutation_p.R560C|RALGAPA1_uc010tpw.1_Missense_Mutation_p.R560C|RALGAPA1_uc001wtk.1_Missense_Mutation_p.R411C	NM_014990	NP_055805	Q6GYQ0	RGPA1_HUMAN	Ral GTPase activating protein, alpha subunit 1	560					activation of Ral GTPase activity	cytosol|mitochondrion|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(3)|breast(1)	4						TTAAGAATGCGTTTACACATA	0.279													15	15					0	0	1	0	0		A	36197626	A	A	36197626	3	1	213	1	0	0	0	0	1	0	0	0	13038	1145	40	1	4697	1	RALGAPA1	14	36197626	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	9279969	36197626	71151914	649	106086											
NKX2-1	7080	broad.mit.edu	37	chr14	36987121	36987121	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacccggcgcttcctgcgcgGcgcgcttggcagcggggcca	3	5	16	17	7	0	0	0	0	0	0	1	0	1	0	3	5	2	3	3	5	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:36987121G>T	uc001wtt.2	-	2	819	c.478C>A	c.(478-480)CCG>ACG	p.P160T	SFTA3_uc001wts.2_Intron|NKX2-1_uc001wtu.2_Missense_Mutation_p.P190T|NKX2-1_uc001wtv.2_Missense_Mutation_p.P160T|uc001wtw.1_5'Flank	NM_003317	NP_003308	P43699	NKX21_HUMAN	thyroid transcription factor 1 isoform 2	160					epithelial tube branching involved in lung morphogenesis|globus pallidus development|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|thyroid gland development		protein binding|transcription regulatory region DNA binding			skin(1)	1	all_cancers(3;4.47e-51)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)|Breast(36;0.165)		Lung(8;1.8e-08)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.014)|all cancers(34;0.0366)|LUSC - Lung squamous cell carcinoma(13;0.132)	GBM - Glioblastoma multiforme(112;0.0171)		TTCCTGCGCGGCGCGCTTGGC	0.692			A		NSCLC								7	14					2.0095e-06	2.10347e-06	1	1	0		T	36987121	T	T	36987121	3	4	213	1	0	0	0	0	1	0	0	0	10468	1203	42	5	641	5	NKX2-1	14	36987121	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	789495	36987121	70362419	650	106087											
NKX2-8	26257	broad.mit.edu	37	chr14	37051465	37051465	+	Silent	SNP	G	A	A	0	0	1	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	gtggccgcgctccgaatccaGccaggcggcgcaggggtcgg	5	4	18	14	6	0	0	0	0	0	0	3	1	2	0	4	6	1	2	4	6	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:37051465G>A	uc001wtx.2	-	1	322	c.130C>T	c.(130-132)CTG>TTG	p.L44L		NM_014360	NP_055175	O15522	NKX28_HUMAN	NK2 homeobox 8	44					liver development|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Breast(36;0.143)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.12e-09)|LUAD - Lung adenocarcinoma(9;2.16e-07)|Epithelial(34;0.00357)|all cancers(34;0.0113)|LUSC - Lung squamous cell carcinoma(13;0.0189)	GBM - Glioblastoma multiforme(112;0.0171)		TCCGAATCCAGCCAGGCGGCG	0.692													4	15					0	0	1	0	0		A	37051465	A	A	37051465	2	1	213	1	0	0	0	0	0	0	0	1	10473	962	34	2		2	NKX2-8	14	37051465	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	64344	37051465	70298075	651	106088											
FOXA1	3169	broad.mit.edu	37	chr14	38061521	38061521	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaacgtcttggcgtcgccGccgccgcccgcgcggctgcg	2	7	15	17	10	1	1	0	1	1	0	2	1	1	1	4	2	2	1	4	2	1	2	rs142975212		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:38061521G>A	uc001wuf.2	-	2	780	c.468C>T	c.(466-468)GGC>GGT	p.G156G	FOXA1_uc010tpz.1_Silent_p.G123G	NM_004496	NP_004487	P55317	FOXA1_HUMAN	forkhead box A1	156					chromatin remodeling|embryo development|epithelial cell maturation involved in prostate gland development|epithelial tube branching involved in lung morphogenesis|epithelial-mesenchymal signaling involved in prostate gland development|glucose homeostasis|lung epithelial cell differentiation|negative regulation of survival gene product expression|neuron fate specification|pattern specification process|positive regulation of estrogen receptor signaling pathway|positive regulation of mitotic cell cycle|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|prostate gland epithelium morphogenesis|prostate gland stromal morphogenesis|response to estradiol stimulus|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding				0	Breast(36;0.0954)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;5.41e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.0454)|LUSC - Lung squamous cell carcinoma(13;0.0917)|all cancers(34;0.0925)|BRCA - Breast invasive adenocarcinoma(188;0.239)	GBM - Glioblastoma multiforme(112;0.0222)		TGGCGTcgccgccgccgcccg	0.557													22	30					0	0	1	0	0		A	38061521	A	A	38061521	2	1	213	1	0	0	0	0	0	0	0	1	6003	1074	38	1		1	FOXA1	14	38061521	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1010056	38061521	69288019	652	106089											
LRFN5	145581	broad.mit.edu	37	chr14	42355997	42355997	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acagaagaactgtggaactgCggttggcagacaattttgtt	12	11	12	6	1	0	3	0	0	0	3	0	4	0	4	0	3	3	3	0	3	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:42355997C>T	uc001wvm.2	+	3	1367	c.169C>T	c.(169-171)CGG>TGG	p.R57W	LRFN5_uc010ana.2_Missense_Mutation_p.R57W	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	57	Extracellular (Potential).|LRR 1.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TGTGGAACTGCGGTTGGCAGA	0.383										HNSCC(30;0.082)			16	27					0	0	1	0	0		T	42355997	T	T	42355997	3	4	213	1	0	0	0	0	1	0	0	0	8959	759	27	1	171	1	LRFN5	14	42355997	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4294476	42355997	64993543	653	106090											
LRFN5	145581	broad.mit.edu	37	chr14	42360596	42360596	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggttgcatccagtttactaCggaacaggattatgtgcgtt	9	13	12	7	2	0	0	0	0	0	0	1	2	1	2	1	3	5	4	1	3	4	6	rs150445484		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:42360596C>T	uc001wvm.2	+	4	2727	c.1529C>T	c.(1528-1530)ACG>ATG	p.T510M	LRFN5_uc010ana.2_Intron	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	510	Extracellular (Potential).					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		CAGTTTACTACGGAACAGGAT	0.448										HNSCC(30;0.082)			53	114					0	0	1	0	0		T	42360596	T	T	42360596	3	4	213	1	0	0	0	0	1	0	0	0	8959	536	19	1	1535	1	LRFN5	14	42360596	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4599	42360596	64988944	654	106091											
C14orf37	145407	broad.mit.edu	37	chr14	58598353	58598353	+	Frame_Shift_Del	DEL	C	-	-																															tgcaggggaaatgctgggttCccccaccattattccaggag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:58598353delC	uc001xdc.2	-	4	1819	c.1708delG	c.(1708-1710)GAAfs	p.E570fs	C14orf37_uc010tro.1_Frame_Shift_Del_p.E608fs|C14orf37_uc001xdd.2_Frame_Shift_Del_p.E570fs|C14orf37_uc001xde.2_Frame_Shift_Del_p.E570fs	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	570	Extracellular (Potential).					integral to membrane	binding				0						ATGCTGGGTTCCCCCACCATT	0.493													26	59	---	---	---	---						.	-	58598353	-	-	58598353	7	5	213	1	0	1	0	1	0	0	0	0	1774	864	30	0	636	0	C14orf37	14	58598353	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	16237757	58598353	48751187	655	106092											
JKAMP	51528	broad.mit.edu	37	chr14	59961785	59961785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cattatttgaatgcagcatgGcagctattatcaccttactt	11	15	6	9	0	1	1	1	1	0	0	1	1	1	1	1	1	4	4	1	1	5	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:59961785G>A	uc001xei.3	+	4	845	c.343G>A	c.(343-345)GCA>ACA	p.A115T	JKAMP_uc001xef.3_Missense_Mutation_p.A101T|JKAMP_uc001xeh.3_Missense_Mutation_p.A95T|JKAMP_uc001xeg.3_Missense_Mutation_p.A109T|JKAMP_uc010try.1_Missense_Mutation_p.A38T|JKAMP_uc001xej.3_Missense_Mutation_p.A38T	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	116	Helical; (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						ATGCAGCATGGCAGCTATTAT	0.378													5	25					0	0	1	0	0		A	59961785	A	A	59961785	3	1	213	1	0	0	0	0	1	0	0	0	7965	1203	42	2	315	2	JKAMP	14	59961785	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1363432	59961785	47387755	656	106093											
EIF2S1	1965	broad.mit.edu	37	chr14	67843159	67843159	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcattttatttctaggttTatagcattcttcgtcatgtt	7	23	5	6	1	4	0	2	0	2	0	5	0	4	0	0	1	1	3	0	1	4	11			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:67843159T>C	uc001xjg.2	+	4	466	c.325T>C	c.(325-327)TAT>CAT	p.Y109H		NM_004094	NP_004085	P05198	IF2A_HUMAN	eukaryotic translation initiation factor 2,	109						cytosol|eukaryotic translation initiation factor 2 complex|polysome|stress granule	protein binding|ribosome binding|translation initiation factor activity			ovary(1)	1				all cancers(60;0.000683)|OV - Ovarian serous cystadenocarcinoma(108;0.00579)|BRCA - Breast invasive adenocarcinoma(234;0.00937)		TTTCTAGGTTTATAGCATTCT	0.328													11	19					0	0	1	0	0		C	67843159	C	C	67843159	3	2	213	1	0	0	0	0	1	0	0	0	5015	1754	61	3	335	3	EIF2S1	14	67843159	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	7881374	67843159	39506381	657	106094											
SLC8A3	6547	broad.mit.edu	37	chr14	70512799	70512799	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcccctcccaggtgcggccgCcttcggtacaagagcacgct	6	7	11	17	4	0	1	0	0	0	1	3	1	2	1	5	3	3	3	5	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:70512799C>T	uc001xly.2	-	8	3403	c.2649G>A	c.(2647-2649)AGG>AGA	p.R883R	SLC8A3_uc001xlu.2_Silent_p.R240R|SLC8A3_uc001xlv.2_Silent_p.R254R|SLC8A3_uc001xlw.2_Silent_p.R880R|SLC8A3_uc001xlx.2_Silent_p.R881R|SLC8A3_uc001xlz.2_Silent_p.R877R|SLC8A3_uc010ara.2_RNA|SLC8A3_uc001xma.2_3'UTR	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	883	Extracellular (Potential).				cell communication|platelet activation	integral to membrane|plasma membrane	calcium:sodium antiporter activity|calmodulin binding			skin(3)|ovary(2)|breast(2)	7				BRCA - Breast invasive adenocarcinoma(234;0.0079)|all cancers(60;0.0102)|OV - Ovarian serous cystadenocarcinoma(108;0.0555)		GGTGCGGCCGCCTTCGGTACA	0.602											OREG0022773	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	27					0	0	1	0	0		T	70512799	T	T	70512799	2	4	213	1	0	0	0	0	0	0	0	1	14733	738	26	2		2	SLC8A3	14	70512799	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2669640	70512799	36836741	658	106095											
C14orf115	55237	broad.mit.edu	37	chr14	74825385	74825385	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caacctgtggtggcagcagcGggtggcagggatggccggat	7	6	19	9	2	0	0	0	0	0	0	0	2	0	2	2	7	3	3	2	7	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:74825385G>A	uc001xpw.3	+	2	2090	c.1899G>A	c.(1897-1899)GCG>GCA	p.A633A		NM_018228	NP_060698	Q9H8Y1	VRTN_HUMAN	hypothetical protein LOC55237	633					transposition, DNA-mediated		DNA binding|transposase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00147)		TGGCAGCAGCGGGTGGCAGGG	0.652													10	22					0	0	1	0	0		A	74825385	A	A	74825385	2	1	213	1	0	0	0	0	0	0	0	1	1743	1103	39	1		1	C14orf115	14	74825385	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4312586	74825385	32524155	659	106096											
KIAA0317	9870	broad.mit.edu	37	chr14	75142501	75142501	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcttcctcgtcaacagcagtGgatggccggcgctgggaaga	8	8	14	11	3	2	1	1	0	1	1	4	3	3	3	2	4	2	2	2	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:75142501G>T	uc001xqb.2	-	8	1486	c.981C>A	c.(979-981)TCC>TCA	p.S327S	KIAA0317_uc010tut.1_Silent_p.S166S|KIAA0317_uc001xqc.2_Silent_p.S327S	NM_001039479	NP_001034568	O15033	K0317_HUMAN	hypothetical protein LOC9870	327					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	integral to membrane|intracellular	ubiquitin-protein ligase activity			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5				BRCA - Breast invasive adenocarcinoma(234;0.00404)		CAACAGCAGTGGATGGCCGGC	0.522													94	165					4.21487e-37	4.81961e-37	1	1	0		T	75142501	T	T	75142501	2	4	213	1	0	0	0	0	0	0	0	1	8183	1335	47	5		5	KIAA0317	14	75142501	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	317116	75142501	32207039	660	106097											
DLST	1743	broad.mit.edu	37	chr14	75359617	75359617	+	Frame_Shift_Del	DEL	C	-	-																															ctacagcagcggcagttcctCcccctgcagcacccataccc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:75359617delC	uc001xqv.2	+	8	586	c.523delC	c.(523-525)CCCfs	p.P175fs	DLST_uc001xqu.2_Frame_Shift_Del_p.P87fs|DLST_uc001xqt.2_Frame_Shift_Del_p.P91fs|DLST_uc010tuw.1_Frame_Shift_Del_p.P89fs|DLST_uc001xqs.2_RNA|DLST_uc010tuv.1_Frame_Shift_Del_p.P175fs	NM_001933	NP_001924	P36957	ODO2_HUMAN	dihydrolipoamide S-succinyltransferase (E2	175					lysine catabolic process|tricarboxylic acid cycle	mitochondrial matrix|nucleus	dihydrolipoyllysine-residue succinyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.00698)		GGCAGTTCCTCCCCCTGCAGC	0.577													26	38	---	---	---	---						.	-	75359617	-	-	75359617	7	5	213	1	0	1	0	1	0	0	0	0	4575	855	30	0	553	0	DLST	14	75359617	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	217116	75359617	31989923	661	106098											
ALKBH1	8846	broad.mit.edu	37	chr14	78140528	78140528	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cactgtgcataaacatggccGtgggggcctcatccctttga	8	10	11	12	1	1	1	1	1	0	0	2	1	2	1	3	3	2	1	3	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:78140528G>A	uc001xuc.1	-	6	806	c.797C>T	c.(796-798)ACG>ATG	p.T266M	ALKBH1_uc001xud.1_RNA	NM_006020	NP_006011	Q13686	ALKB1_HUMAN	alkylated DNA repair protein alkB homolog	266	Fe2OG dioxygenase.			TA -> PP (in Ref. 1; CAA63047).	DNA dealkylation involved in DNA repair|DNA demethylation|oxidative demethylation|RNA repair	mitochondrion	DNA-(apurinic or apyrimidinic site) lyase activity|ferrous iron binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)|skin(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		AAACATGGCCGTGGGGGCCTC	0.463													15	23					0	0	1	0	0		A	78140528	A	A	78140528	3	1	213	1	0	0	0	0	1	0	0	0	526	1145	40	1	376	1	ALKBH1	14	78140528	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2780911	78140528	29209012	662	106099											
FLRT2	23768	broad.mit.edu	37	chr14	86089608	86089608	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaaatacaaccggggccggCggaaagatgattattgcgag	13	6	15	7	4	0	2	0	1	0	1	0	5	0	4	2	5	3	0	2	5	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:86089608C>T	uc001xvr.2	+	2	2517	c.1750C>T	c.(1750-1752)CGG>TGG	p.R584W	FLRT2_uc010atd.2_Missense_Mutation_p.R584W	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	584	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		CCGGGGCCGGCGGAAAGATGA	0.493													48	97					0	0	1	0	0		T	86089608	T	T	86089608	3	4	213	1	0	0	0	0	1	0	0	0	5953	759	27	1	1752	1	FLRT2	14	86089608	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7949080	86089608	21259932	663	106100											
EML5	161436	broad.mit.edu	37	chr14	89153595	89153595	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaatgcagctctttttataGcataggtcttgagacatctt	10	15	7	9	0	3	1	0	1	3	1	3	2	3	1	1	1	3	3	1	1	4	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:89153595G>A	uc001xxg.2	-	20	3005	c.2819C>T	c.(2818-2820)GCT>GTT	p.A940V	EML5_uc001xxh.1_Missense_Mutation_p.A79V	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	940	WD 15.					cytoplasm|microtubule				ovary(3)	3						TCTTTTTATAGCATAGGTCTT	0.373													5	7					0	0	1	0	0		A	89153595	A	A	89153595	3	1	213	1	0	0	0	0	1	0	0	0	5108	971	34	2	3214	2	EML5	14	89153595	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3063987	89153595	18195945	664	106101											
SMEK1	55671	broad.mit.edu	37	chr14	91942831	91942831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgttttgaggctgtagcGtttgggaaaacgcacaaaat	11	12	11	7	2	1	1	0	1	1	0	1	2	1	2	0	2	2	5	0	2	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:91942831G>A	uc001xzn.2	-	6	1853	c.1031C>T	c.(1030-1032)ACG>ATG	p.T344M	SMEK1_uc001xzm.2_Missense_Mutation_p.T344M|SMEK1_uc001xzo.2_Missense_Mutation_p.T344M|SMEK1_uc010atz.2_Missense_Mutation_p.T105M|SMEK1_uc001xzp.1_RNA|SMEK1_uc001xzq.1_Missense_Mutation_p.T220M	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	344						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		AGGCTGTAGCGTTTGGGAAAA	0.289													19	28					0	0	1	0	0		A	91942831	A	A	91942831	3	1	213	1	0	0	0	0	1	0	0	0	14818	1145	40	1	1471	1	SMEK1	14	91942831	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2789236	91942831	15406709	665	106102											
EML1	2009	broad.mit.edu	37	chr14	100402660	100402660	+	Frame_Shift_Del	DEL	A	-	-																															gtcaaattccggagactacgAaatcctctactgtgagtacc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:100402660delA	uc001ygs.2	+	19	2153	c.2084delA	c.(2083-2085)GAAfs	p.E695fs	EML1_uc010tww.1_Frame_Shift_Del_p.E683fs|EML1_uc001ygr.2_Frame_Shift_Del_p.E714fs	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	695	WD 9.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)				GGAGACTACGAAATCCTCTAC	0.507													11	22	---	---	---	---						.	-	100402660	-	-	100402660	7	5	213	1	0	1	0	1	0	0	0	0	5104	246	9	0	2219	0	EML1	14	100402660	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	8459829	100402660	6946880	666	106103											
HSP90AA1	3320	broad.mit.edu	37	chr14	102551762	102551762	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttttgttccacgacccataGgttcacctgcaagagaagaa	12	10	8	11	1	1	2	1	0	0	2	2	4	2	2	3	1	1	3	3	1	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:102551762G>T	uc001yku.3	-	4	726	c.536C>A	c.(535-537)CCT>CAT	p.P179H	HSP90AA1_uc001ykv.3_Missense_Mutation_p.P301H|HSP90AA1_uc001ykw.1_5'UTR|HSP90AA1_uc001ykx.1_Missense_Mutation_p.P168H	NM_005348	NP_005339	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 2	179					axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	ACGACCCATAGGTTCACCTGC	0.388													8	27					5.18039e-06	5.39048e-06	1	1	0		T	102551762	T	T	102551762	3	4	213	1	0	0	0	0	1	0	0	0	7417	1000	35	5	1694	5	HSP90AA1	14	102551762	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2149102	102551762	4797778	667	106104											
AKT1	207	broad.mit.edu	37	chr14	105239379	105239379	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatctcgtacatgaccacGcccagcccccaccagtccac	10	6	5	20	2	2	1	1	1	1	0	4	1	3	1	6	0	2	1	6	0	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:105239379G>A	uc001ypk.2	-	11	1562	c.1008C>T	c.(1006-1008)GGC>GGT	p.G336G	INF2_uc010tyi.1_Intron|AKT1_uc001ypl.2_Silent_p.G336G|AKT1_uc010axa.2_Silent_p.G336G|AKT1_uc001ypm.2_Silent_p.G336G|AKT1_uc001ypn.2_Silent_p.G336G|AKT1_uc001ypj.2_5'Flank|AKT1_uc010tyk.1_Silent_p.G274G	NM_005163	NP_005154	P31749	AKT1_HUMAN	AKT1 kinase	336	Protein kinase.				activation of pro-apoptotic gene products|activation-induced cell death of T cells|endocrine pancreas development|G-protein coupled receptor protein signaling pathway|glucose metabolic process|glycogen biosynthetic process|induction of apoptosis by intracellular signals|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|mRNA metabolic process|negative regulation of fatty acid beta-oxidation|negative regulation of plasma membrane long-chain fatty acid transport|negative regulation of protein kinase activity|nerve growth factor receptor signaling pathway|nitric oxide biosynthetic process|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of blood vessel endothelial cell migration|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of establishment of protein localization in plasma membrane|positive regulation of fat cell differentiation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|positive regulation of nitric oxide biosynthetic process|positive regulation of nitric-oxide synthase activity|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein autophosphorylation|protein import into nucleus, translocation|regulation of neuron projection development|regulation of translation|response to fluid shear stress|response to heat|response to UV-A|T cell costimulation	cytosol|nucleoplasm|plasma membrane	enzyme binding|identical protein binding|nitric-oxide synthase regulator activity|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|protein serine/threonine kinase activity			breast(86)|urinary_tract(12)|thyroid(10)|lung(7)|endometrium(5)|large_intestine(4)|skin(4)|prostate(3)|haematopoietic_and_lymphoid_tissue(1)|ovary(1)|NS(1)	134		all_cancers(154;3.77e-06)|all_lung(585;3.24e-07)|all_epithelial(191;3.45e-05)|all_neural(303;0.0459)|Melanoma(154;0.155)	all cancers(16;0.000486)|OV - Ovarian serous cystadenocarcinoma(23;0.00647)|Epithelial(46;0.0153)|GBM - Glioblastoma multiforme(11;0.116)	all cancers(159;0.0107)|OV - Ovarian serous cystadenocarcinoma(161;0.0132)|Epithelial(152;0.243)	Adenosine triphosphate(DB00171)|Arsenic trioxide(DB01169)	ACATGACCACGCCCAGCCCCC	0.612		1	Mis		breast|colorectal|ovarian|NSCLC								34	46					0	0	1	0	0		A	105239379	A	A	105239379	2	1	213	1	0	0	0	0	0	0	0	1	478	1074	38	1		1	AKT1	14	105239379	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2687617	105239379	2110161	668	106105											
KIAA0284	283638	broad.mit.edu	37	chr14	105344265	105344265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cccggaccagaagtacgtcaCgctgaagctcaacgatgtca	12	6	10	13	4	3	2	3	1	0	1	3	4	3	3	2	1	3	3	2	1	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr14:105344265C>T	uc010axb.2	+	4	463	c.239C>T	c.(238-240)ACG>ATG	p.T80M	INF2_uc010tyi.1_Intron|KIAA0284_uc001ypr.2_Missense_Mutation_p.T10M|KIAA0284_uc001yps.2_5'Flank	NM_001112726	NP_001106197	Q9Y4F5	K0284_HUMAN	hypothetical protein LOC283638 isoform 1	80						cytoplasm|microtubule				breast(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000472)|OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0149)|GBM - Glioblastoma multiforme(11;0.116)	Epithelial(152;0.178)		AAGTACGTCACGCTGAAGCTC	0.627													3	4					0	0	1	0	0		T	105344265	T	T	105344265	3	4	213	1	0	0	0	0	1	0	0	0	8182	536	19	1	249	1	KIAA0284	14	105344265	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	104886	105344265	2005275	669	106106											
OR4M2	390538	broad.mit.edu	37	chr15	22368585	22368585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattgaagaaatggaaactGcaaattacaccaaggtgaca	20	7	8	6	0	0	3	0	2	0	1	0	4	0	4	1	2	3	1	1	2	7	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:22368585G>A	uc010tzu.1	+	1	10	c.10G>A	c.(10-12)GCA>ACA	p.A4T	LOC727924_uc001yua.2_RNA|LOC727924_uc001yub.1_Intron|OR4N4_uc001yuc.1_Intron	NM_001004719	NP_001004719	Q8NGB6	OR4M2_HUMAN	olfactory receptor, family 4, subfamily M,	4	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		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)		AATGGAAACTGCAAATTACAC	0.328													35	235					0	0	1	0	0		A	22368585	A	A	22368585	3	1	213	1	0	0	0	0	1	0	0	0	11095	1319	46	2	12	2	OR4M2	15	22368585	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		22368585	80162807	670	106107											
OR4N4	283694	broad.mit.edu	37	chr15	22382692	22382692	+	Missense_Mutation	SNP	T	G	G	0	1	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	ccttcctggatgcatcctacTccttcattgtggctcccagg	5	13	8	15	0	1	0	1	0	0	0	5	1	5	1	5	3	2	2	5	3	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:22382692T>G	uc001yuc.1	+	7	1201	c.220T>G	c.(220-222)TCC>GCC	p.S74A	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Missense_Mutation_p.S74A	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	74	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		TGCATCCTACTCCTTCATTGT	0.473													56	384					0	0	1	0	0		G	22382692	G	G	22382692	3	3	213	1	0	0	0	0	1	0	0	0	11097	1551	54	5	222	5	OR4N4	15	22382692	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	14107	22382692	80148700	671	106108											
MKRN3	7681	broad.mit.edu	37	chr15	23811404	23811405	+	Frame_Shift_Ins	INS	-	C	C																															gactcaggaagtggcggaagINScccccccggctgcatcctcc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:23811404_23811405insC	uc001ywh.3	+	1	951_952	c.475_476insC	c.(475-477)GCCfs	p.A159fs	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Frame_Shift_Ins_p.A159fs	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	159						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		AGTGGCGGAAGCCCCCCCGGCT	0.644													20	44	---	---	---	---						.	C	23811405	C	C	23811404	7	5	213	1	0	1	1	0	0	0	0	0	9626	971	34	0	477	0	MKRN3	15	23811404	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	1428712	23811404	78719988	672	106109											
MTMR10	54893	broad.mit.edu	37	chr15	31234037	31234038	+	Frame_Shift_Del	DEL	CA	-	-																															agcggaagtagcacagtttcCacagttttatgtgtgttcca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:31234037_31234038delCA	uc001zfh.1	-	16	2067_2068	c.1969_1970delTG	c.(1969-1971)TGGfs	p.W657fs	MTMR15_uc001zff.2_3'UTR|MTMR15_uc001zfe.2_3'UTR|MTMR10_uc010ubk.1_Frame_Shift_Del_p.W71fs|MTMR10_uc001zfg.1_Frame_Shift_Del_p.W238fs|MTMR10_uc010azx.1_Frame_Shift_Del_p.W409fs|MTMR10_uc001zfi.1_3'UTR	NM_017762	NP_060232	Q9NXD2	MTMRA_HUMAN	myotubularin related protein 10	657	Myotubularin phosphatase.						phosphatase activity			ovary(1)	1		all_lung(180;2.81e-11)		all cancers(64;7.26e-15)|Epithelial(43;7.2e-11)|GBM - Glioblastoma multiforme(186;0.000158)|BRCA - Breast invasive adenocarcinoma(123;0.00426)|Lung(196;0.174)		GCACAGTTTCCACAGTTTTATG	0.525													22	33	---	---	---	---						.	-	31234038	-	-	31234037	7	5	213	1	0	1	0	1	0	0	0	0	9957	595	21	0	367	0	MTMR10	15	31234037	Frame_Shift_Del	DEL	CA	TCGA-HU-A4H3-01A-21D-A25D-08	7422633	31234037	71297355	673	106110											
RYR3	6263	broad.mit.edu	37	chr15	33873717	33873717	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccttctcagggaatgttGgcccttgtcttaaattgcat	7	16	8	10	0	3	0	1	0	3	0	5	1	3	1	2	2	1	2	2	2	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:33873717G>A	uc001zhi.2	+	14	1516	c.1446G>A	c.(1444-1446)TTG>TTA	p.L482L	RYR3_uc010bar.2_Silent_p.L482L	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	482	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		AGGGAATGTTGGCCCTTGTCT	0.438													19	58					0	0	1	0	0		A	33873717	A	A	33873717	2	1	213	1	0	0	0	0	0	0	0	1	13795	1339	47	4		4	RYR3	15	33873717	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2639680	33873717	68657675	674	106111											
RYR3	6263	broad.mit.edu	37	chr15	33893731	33893731	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaaacctactcctgcagacaCgactgattaacgatgtaacc	14	8	7	12	2	0	2	0	1	0	1	1	5	1	2	3	0	5	2	3	0	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:33893731C>T	uc001zhi.2	+	17	1970	c.1900C>T	c.(1900-1902)CGA>TGA	p.R634*	RYR3_uc010bar.2_Nonsense_Mutation_p.R634*	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	634	Cytoplasmic (By similarity).|B30.2/SPRY 1.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		CCTGCAGACACGACTGATTAA	0.527													12	16					0	0	1	0	0		T	33893731	T	T	33893731	4	4	213	1	0	0	0	0	0	1	0	0	13795	528	19	1	1966	1	RYR3	15	33893731	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	20014	33893731	68637661	675	106112											
C15orf55	256646	broad.mit.edu	37	chr15	34649312	34649312	+	Nonsense_Mutation	SNP	A	T	T	1	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	ccaaaggaaaggagaaaaagAaaaaggaagcagaggaagag	24	0	14	3	0	0	4	0	0	0	4	0	8	0	7	1	4	1	1	1	4	8	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:34649312A>T	uc001zif.2	+	7	3174	c.3019A>T	c.(3019-3021)AAA>TAA	p.K1007*	C15orf55_uc010ucc.1_Nonsense_Mutation_p.K1035*|C15orf55_uc010ucd.1_Nonsense_Mutation_p.K1025*	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	1007						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GGAGAAAAAGAAAAAGGAAGC	0.478			T	BRD3|BRD4	lethal midline carcinoma								13	38					0	0	1	0	0		T	34649312	T	T	34649312	4	4	213	1	0	0	0	0	0	1	0	0	1806	247	9	5	3045	5	C15orf55	15	34649312	Nonsense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	755581	34649312	67882080	676	106113											
C15orf55	256646	broad.mit.edu	37	chr15	34649327	34649327	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	1	0	0	0	0	aaaagaaaaaggaagcagagGaagaggatgaggaactctcc	20	3	13	5	0	1	4	0	1	1	3	2	8	1	8	1	4	2	1	1	4	7	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:34649327G>C	uc001zif.2	+	7	3189	c.3034G>C	c.(3034-3036)GAA>CAA	p.E1012Q	C15orf55_uc010ucc.1_Missense_Mutation_p.E1040Q|C15orf55_uc010ucd.1_Missense_Mutation_p.E1030Q	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	1012						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GGAAGCAGAGGAAGAGGATGA	0.488			T	BRD3|BRD4	lethal midline carcinoma								18	42					0	0	1	0	0		C	34649327	C	C	34649327	3	2	213	1	0	0	0	0	1	0	0	0	1806	1175	41	5	3060	5	C15orf55	15	34649327	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	15	34649327	67882065	677	106114											
C15orf23	90417	broad.mit.edu	37	chr15	40678643	40678643	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccaaacagcttcattcaGgaggtccagagaatgatgtt	12	12	9	8	0	2	2	2	1	0	1	4	4	4	3	2	2	2	2	2	2	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:40678643G>A	uc001zll.2	+	3	500	c.385G>A	c.(385-387)GGA>AGA	p.G129R	C15orf23_uc010ucp.1_Missense_Mutation_p.G129R|C15orf23_uc001zlo.2_Missense_Mutation_p.G129R|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	129						nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		GCTTCATTCAGGAGGTCCAGA	0.423													14	33					0	0	1	0	0		A	40678643	A	A	40678643	3	1	213	1	0	0	0	0	1	0	0	0	1788	1001	35	4	395	4	C15orf23	15	40678643	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	6029316	40678643	61852749	678	106115											
NUSAP1	51203	broad.mit.edu	37	chr15	41667943	41667943	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caagttgacaactgaggcaaCgcagactccagtctccaata	14	7	8	12	1	1	3	0	2	1	1	3	3	2	3	2	1	2	3	2	1	5	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:41667943C>T	uc001zns.3	+	9	1270	c.1040C>T	c.(1039-1041)ACG>ATG	p.T347M	NUSAP1_uc001znq.3_Intron|NUSAP1_uc001znr.3_Missense_Mutation_p.T346M|NUSAP1_uc010bce.2_Intron|NUSAP1_uc001znt.3_Missense_Mutation_p.T332M|NUSAP1_uc001znv.3_Missense_Mutation_p.T345M|NUSAP1_uc001znu.3_Missense_Mutation_p.T346M|NUSAP1_uc010ucw.1_Intron|NUSAP1_uc001znw.3_Missense_Mutation_p.T151M	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1	347	Interaction with microtubules (By similarity).				cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		ACTGAGGCAACGCAGACTCCA	0.393													18	34					0	0	1	0	0		T	41667943	T	T	41667943	3	4	213	1	0	0	0	0	1	0	0	0	10797	536	19	1	1074	1	NUSAP1	15	41667943	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	989300	41667943	60863449	679	106116											
MGA	23269	broad.mit.edu	37	chr15	42042041	42042041	+	Frame_Shift_Del	DEL	A	-	-																															gaatcgtaagagttccaaagAaaaagtggctgttctggaag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:42042041delA	uc010ucy.1	+	17	6417	c.6236delA	c.(6235-6237)GAAfs	p.E2079fs	MGA_uc010ucz.1_Frame_Shift_Del_p.E1870fs|MGA_uc010uda.1_Frame_Shift_Del_p.E695fs|MGA_uc001zoi.2_Frame_Shift_Del_p.E293fs	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2040	Basic motif.					MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	12		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)		AGTTCCAAAGAAAAAGTGGCT	0.368													14	31	---	---	---	---						.	-	42042041	-	-	42042041	7	5	213	1	0	1	0	1	0	0	0	0	9558	246	9	0	6298	0	MGA	15	42042041	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	374098	42042041	60489351	680	106117											
PLA2G4D	283748	broad.mit.edu	37	chr15	42377688	42377688	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	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	gggctgtgtgacattactcaCgtttcttccatcaggaactc	8	13	9	11	1	3	1	2	1	1	0	5	2	4	2	1	2	2	2	1	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:42377688C>T	uc001zox.2	-	5	523	c.428_splice	c.e5+1	p.T143_splice		NM_178034	NP_828848	Q86XP0	PA24D_HUMAN	phospholipase A2, group IVD						phospholipid catabolic process	cytoplasmic vesicle membrane|cytosol	metal ion binding|phospholipase A2 activity			large_intestine(1)|skin(1)	2		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)		ACATTACTCACGTTTCTTCCA	0.502													29	52					0	0	1	0	0		T	42377688	T	T	42377688	5	4	213	1	0	0	0	0	0	0	1	0	12023	550	19	1	2091	1	PLA2G4D	15	42377688	Splice_Site	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	335647	42377688	60153704	681	106118											
SLC24A5	283652	broad.mit.edu	37	chr15	48413289	48413289	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcgagaagggctctgttgctCggcatcctgtgggccactgc	5	9	15	12	2	1	1	0	0	1	1	3	2	2	1	2	3	2	4	2	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:48413289C>T	uc001zwe.2	+	1	121	c.48C>T	c.(46-48)CTC>CTT	p.L16L	SLC24A5_uc001zwd.2_Silent_p.L16L|SLC24A5_uc010bel.2_Silent_p.L16L	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	16					response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		CTCTGTTGCTCGGCATCCTGT	0.587													8	21					0	0	1	0	0		T	48413289	T	T	48413289	2	4	213	1	0	0	0	0	0	0	0	1	14494	871	31	1		1	SLC24A5	15	48413289	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6035601	48413289	54118103	682	106119											
ATP8B4	79895	broad.mit.edu	37	chr15	50264853	50264853	+	Frame_Shift_Del	DEL	A	-	-																															gggtacccgttttgtcggagAaaatgtactcaatctgcccc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:50264853delA	uc001zxu.2	-	13	1311	c.1169delT	c.(1168-1170)TTCfs	p.F390fs	ATP8B4_uc010ber.2_Frame_Shift_Del_p.F263fs|ATP8B4_uc010ufd.1_Frame_Shift_Del_p.F263fs|ATP8B4_uc010ufe.1_RNA	NM_024837	NP_079113	Q8TF62	AT8B4_HUMAN	ATPase class I type 8B member 4	390	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			skin(3)|ovary(2)|breast(2)|large_intestine(1)	8		all_lung(180;0.00183)		all cancers(107;2.41e-07)|GBM - Glioblastoma multiforme(94;8.28e-05)		TTTGTCGGAGAAAATGTACTC	0.423													17	33	---	---	---	---						.	-	50264853	-	-	50264853	7	5	213	1	0	1	0	1	0	0	0	0	1198	246	9	0	2473	0	ATP8B4	15	50264853	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	1851564	50264853	52266539	683	106120											
TMOD2	29767	broad.mit.edu	37	chr15	52075001	52075001	+	Silent	SNP	T	C	C	0	1	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	aagttcagcctggccgcaacTcgcagcaatgaccctgtggc	9	7	11	14	2	1	1	1	1	0	0	2	1	1	1	3	2	3	4	3	2	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:52075001T>C	uc002abk.2	+	7	929	c.708T>C	c.(706-708)ACT>ACC	p.T236T	TMOD2_uc002abl.3_Intron|TMOD2_uc010bfb.2_Silent_p.T192T	NM_014548	NP_055363	Q9NZR1	TMOD2_HUMAN	neuronal tropomodulin isoform a	236					nervous system development	cytoplasm|cytoskeleton	actin binding|tropomyosin binding			ovary(2)	2				all cancers(107;0.00435)		TGGCCGCAACTCGCAGCAATG	0.413													50	86					0	0	1	0	0		C	52075001	C	C	52075001	2	2	213	1	0	0	0	0	0	0	0	1	16259	1538	54	3		3	TMOD2	15	52075001	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1810148	52075001	50456391	684	106121											
UNC13C	440279	broad.mit.edu	37	chr15	54825154	54825154	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagtgtataaaacagatgagTttcgaactaaatcaaatgag	18	10	9	4	1	1	3	1	2	0	1	2	5	1	3	0	0	2	2	0	0	7	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:54825154T>C	uc002ack.2	+	24	5586	c.5586T>C	c.(5584-5586)AGT>AGC	p.S1862S		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1862					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		AACAGATGAGTTTCGAACTAA	0.308													5	12					0	0	1	0	0		C	54825154	C	C	54825154	2	2	213	1	0	0	0	0	0	0	0	1	17012	1722	60	3		3	UNC13C	15	54825154	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2750153	54825154	47706238	685	106122											
RFX7	64864	broad.mit.edu	37	chr15	56436614	56436614	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataccttttctctccattgCtgagaccagaaggcagctga	10	12	8	11	0	1	3	0	2	1	2	3	4	2	3	3	1	3	3	3	1	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:56436614C>T	uc010bfn.2	-	3	263	c.263G>A	c.(262-264)AGC>AAC	p.S88N		NM_022841	NP_073752	Q2KHR2	RFX7_HUMAN	regulatory factor X domain containing 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent	nucleus	DNA binding				0						CTCTCCATTGCTGAGACCAGA	0.358													21	42					0	0	1	0	0		T	56436614	T	T	56436614	3	4	213	1	0	0	0	0	1	0	0	0	13293	797	28	2	4147	2	RFX7	15	56436614	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1611460	56436614	46094778	686	106123											
PARP16	54956	broad.mit.edu	37	chr15	65555515	65555515	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggtttggcacttgacgtcCggatggtcaatgacctcaca	8	12	11	10	2	2	2	2	2	0	0	3	3	3	3	2	4	0	2	2	4	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:65555515C>T	uc002aoo.2	-	4	917	c.663G>A	c.(661-663)CCG>CCA	p.P221P	PARP16_uc002aop.2_Silent_p.P106P|PARP16_uc002aoq.2_Silent_p.P221P	NM_017851	NP_060321	Q8N5Y8	PAR16_HUMAN	poly (ADP-ribose) polymerase family, member 16	221	PARP catalytic.					integral to membrane	NAD+ ADP-ribosyltransferase activity			lung(2)	2						ACTTGACGTCCGGATGGTCAA	0.607													13	18					0	0	1	0	0		T	65555515	T	T	65555515	2	4	213	1	0	0	0	0	0	0	0	1	11479	639	23	1		1	PARP16	15	65555515	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	9118901	65555515	36975877	687	106124											
STOML1	9399	broad.mit.edu	37	chr15	74277088	74277088	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccccgacttggctgaccagGgcctcagacaggaagggctg	8	5	15	13	1	1	2	1	1	0	1	1	4	1	3	4	4	0	2	4	4	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:74277088G>T	uc002awe.2	-	6	986	c.915C>A	c.(913-915)GCC>GCA	p.A305A	STOML1_uc002awf.2_Silent_p.A304A|STOML1_uc010bje.2_Intron|STOML1_uc010uld.1_Silent_p.A262A|STOML1_uc002awh.2_Silent_p.A255A|STOML1_uc002awg.2_Silent_p.A254A|STOML1_uc002awi.2_Silent_p.A217A	NM_004809	NP_004800	Q9UBI4	STML1_HUMAN	stomatin (EPB72)-like 1	305	Cytoplasmic (Potential).|SCP2.					integral to membrane	sterol binding			skin(1)	1						GGCTGACCAGGGCCTCAGACA	0.632													27	41					8.24728e-16	9.1714e-16	1	1	0		T	74277088	T	T	74277088	2	4	213	1	0	0	0	0	0	0	0	1	15338	1219	43	5		5	STOML1	15	74277088	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	8721573	74277088	28254304	688	106125											
CYP1A1	1543	broad.mit.edu	37	chr15	75013634	75013634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgggatctgtcagagagccGgggccgccgtgacctgccaa	8	6	15	12	3	2	2	1	1	1	1	2	4	2	3	5	3	2	0	5	3	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:75013634G>A	uc002ayp.3	-	5	1194	c.1072C>T	c.(1072-1074)CGG>TGG	p.R358W	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.R94W|CYP1A1_uc010bjx.2_Missense_Mutation_p.R94W|CYP1A1_uc002ayq.3_Missense_Mutation_p.R358W|CYP1A1_uc010bjy.2_Missense_Mutation_p.R358W|CYP1A1_uc010bjz.1_Missense_Mutation_p.R94W	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	358					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	TCAGAGAGCCGGGGCCGCCGT	0.602									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				25	53					0	0	1	0	0		A	75013634	A	A	75013634	3	1	213	1	0	0	0	0	1	0	0	0	4152	1115	39	1	478	1	CYP1A1	15	75013634	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	736546	75013634	27517758	689	106126											
CIB2	10518	broad.mit.edu	37	chr15	78401674	78401674	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgttgaaagtgaggttcccCtcaccatcctcggaaaacgc	10	9	9	13	3	1	2	1	2	0	0	5	3	3	3	4	2	1	2	4	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:78401674C>A	uc002bdb.1	-	4	570	c.249G>T	c.(247-249)GAG>GAT	p.E83D	CIB2_uc002bdc.1_Missense_Mutation_p.E40D|CIB2_uc010ums.1_Missense_Mutation_p.E83D	NM_006383	NP_006374	O75838	CIB2_HUMAN	DNA-dependent protein kinase catalytic	83	EF-hand 1.						calcium ion binding				0						TGAGGTTCCCCTCACCATCCT	0.512													24	44					2.21704e-12	2.41942e-12	1	1	0		A	78401674	A	A	78401674	3	1	213	1	0	0	0	0	1	0	0	0	3424	680	24	5	326	5	CIB2	15	78401674	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3388040	78401674	24129718	690	106127											
CHRNB4	1143	broad.mit.edu	37	chr15	78927807	78927807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gataagctgggccagggagaGctgcagcttgatggagatga	11	7	17	6	0	0	4	0	2	0	2	0	7	0	4	1	3	4	4	1	3	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:78927807G>A	uc002bed.1	-	2	290	c.178C>T	c.(178-180)CTC>TTC	p.L60F	CHRNB4_uc002bee.1_Missense_Mutation_p.L60F|CHRNB4_uc010blh.1_5'UTR	NM_000750	NP_000741	P30926	ACHB4_HUMAN	cholinergic receptor, nicotinic, beta 4	60	Extracellular (Potential).				regulation of neurotransmitter secretion|synaptic transmission involved in micturition|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GCCAGGGAGAGCTGCAGCTTG	0.507													38	73					0	0	1	0	0		A	78927807	A	A	78927807	3	1	213	1	0	0	0	0	1	0	0	0	3396	971	34	2	1338	2	CHRNB4	15	78927807	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	526133	78927807	23603585	691	106128											
ADAMTS7	11173	broad.mit.edu	37	chr15	79092719	79092719	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggcggtcaggttgaagcgcaGctcgcgcccgcggtattgta	6	8	16	11	6	1	1	1	1	0	0	2	1	1	1	1	4	2	5	1	4	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:79092719G>A	uc002bej.3	-	2	482	c.271C>T	c.(271-273)CTG>TTG	p.L91L	ADAMTS7_uc010und.1_Silent_p.L91L|ADAMTS7_uc002bek.1_Silent_p.L91L	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	91					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TTGAAGCGCAGCTCGCGCCCG	0.567													5	21					0	0	1	0	0		A	79092719	A	A	79092719	2	1	213	1	0	0	0	0	0	0	0	1	271	962	34	2		2	ADAMTS7	15	79092719	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	164912	79092719	23438673	692	106129											
MEX3B	84206	broad.mit.edu	37	chr15	82336037	82336037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agaagagcaggaagaagataCcggagctgcaggtccgcctc	13	4	14	10	2	0	4	0	0	0	4	2	6	1	6	3	3	4	3	3	3	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:82336037C>T	uc002bgq.1	-	2	1489	c.1174G>A	c.(1174-1176)GTA>ATA	p.V392I		NM_032246	NP_115622	Q6ZN04	MEX3B_HUMAN	mex-3 homolog B	392					protein autophosphorylation	cytoplasmic mRNA processing body|nucleus	calcium ion binding|RNA binding|zinc ion binding			breast(1)|kidney(1)	2						gaagaagaTACCGGAGCTGCA	0.547													12	14					0	0	1	0	0		T	82336037	T	T	82336037	3	4	213	1	0	0	0	0	1	0	0	0	9528	507	18	4	539	4	MEX3B	15	82336037	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3243318	82336037	20195355	693	106130											
SH3GL3	6457	broad.mit.edu	37	chr15	84245409	84245409	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cgagtaggtaagataccagaCgaagaagtcagacaagcggt	16	5	13	7	3	1	4	1	0	0	4	1	6	1	4	1	2	2	2	1	2	6	3	rs138675150	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:84245409C>T	uc002bjw.2	+	6	735	c.540C>T	c.(538-540)GAC>GAT	p.D180D	SH3GL3_uc010uot.1_Silent_p.D180D|SH3GL3_uc002bjx.2_Silent_p.D111D|SH3GL3_uc002bju.2_Silent_p.D188D|SH3GL3_uc002bjv.2_RNA	NM_003027	NP_003018	Q99963	SH3G3_HUMAN	SH3-domain GRB2-like 3	180	BAR.				central nervous system development|endocytosis|signal transduction	early endosome membrane	identical protein binding|lipid binding			pancreas(1)|central_nervous_system(1)|skin(1)	3						AGATACCAGACGAAGAAGTCA	0.383													16	27					0	0	1	0	0		T	84245409	T	T	84245409	2	4	213	1	0	0	0	0	0	0	0	1	14277	535	19	1		1	SH3GL3	15	84245409	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1909372	84245409	18285983	694	106131											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84373227	84373227	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tttctggaagacacaacaggGgagcagttcctcacttatcg	11	10	10	10	1	2	1	1	0	1	1	4	3	3	3	1	3	2	2	1	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:84373227G>A	uc002bjz.3	+	3	380	c.156G>A	c.(154-156)GGG>GGA	p.G52G	ADAMTSL3_uc002bjy.1_Silent_p.G52G|ADAMTSL3_uc010bmt.1_Silent_p.G52G|ADAMTSL3_uc010bmu.1_Silent_p.G52G	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	52						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			ACACAACAGGGGAGCAGTTCC	0.463													55	109					0	0	1	0	0		A	84373227	A	A	84373227	2	1	213	1	0	0	0	0	0	0	0	1	276	1219	43	4		4	ADAMTSL3	15	84373227	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	127818	84373227	18158165	695	106132											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84657541	84657541	+	Missense_Mutation	SNP	A	G	G	1	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	agctaatcatcttggttcagAtgtggaaagttcttctgtgc	9	15	10	7	0	5	1	2	0	3	1	5	2	5	2	0	2	2	3	0	2	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:84657541A>G	uc002bjz.3	+	22	4039	c.3815A>G	c.(3814-3816)GAT>GGT	p.D1272G	ADAMTSL3_uc010bmt.1_Missense_Mutation_p.D1272G|ADAMTSL3_uc010bmu.1_Missense_Mutation_p.D1272G	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	1272	Ig-like C2-type 2.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			CTTGGTTCAGATGTGGAAAGT	0.323													12	49					0	0	1	0	0		G	84657541	G	G	84657541	3	3	213	1	0	0	0	0	1	0	0	0	276	333	12	3	3897	3	ADAMTSL3	15	84657541	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	284314	84657541	17873851	696	106133											
ALPK3	57538	broad.mit.edu	37	chr15	85400994	85400994	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagtggctgggcttagtcccCggacatcgaggcgcatcctg	7	8	14	12	3	0	0	0	0	0	0	3	2	2	1	3	4	0	3	3	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:85400994C>T	uc002ble.2	+	6	3798	c.3631C>T	c.(3631-3633)CGG>TGG	p.R1211W		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	1211					heart development	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(3)|ovary(3)|lung(2)|skin(2)|central_nervous_system(1)|breast(1)	12			BRCA - Breast invasive adenocarcinoma(143;0.0587)			GCTTAGTCCCCGGACATCGAG	0.662													18	42					0	0	1	0	0		T	85400994	T	T	85400994	3	4	213	1	0	0	0	0	1	0	0	0	546	643	23	1	3653	1	ALPK3	15	85400994	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	743453	85400994	17130398	697	106134											
MRPS11	64963	broad.mit.edu	37	chr15	89020237	89020237	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cagagagctaaacaaaagggCgtgatccacatccgagttgt	14	7	11	9	2	0	2	0	1	0	1	2	4	2	2	2	1	2	2	2	1	4	2	rs149594277	by1000genomes	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:89020237C>T	uc002bml.2	+	5	694	c.429C>T	c.(427-429)GGC>GGT	p.G143G	MRPS11_uc002bmm.2_Silent_p.G110G|MRPS11_uc002bmn.2_Silent_p.G142G|MRPS11_uc010bnj.2_RNA	NM_022839	NP_073750	P82912	RT11_HUMAN	mitochondrial ribosomal protein S11 isoform a	143					DNA damage response, detection of DNA damage|translation	mitochondrial small ribosomal subunit	structural constituent of ribosome				0	Lung NSC(78;0.203)		BRCA - Breast invasive adenocarcinoma(143;0.188)			AACAAAAGGGCGTGATCCACA	0.507											OREG0023439	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	14					0	0	1	0	0		T	89020237	T	T	89020237	2	4	213	1	0	0	0	0	0	0	0	1	9840	755	27	1		1	MRPS11	15	89020237	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3619243	89020237	13511155	698	106135											
CRTC3	64784	broad.mit.edu	37	chr15	91172715	91172715	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgaagcacatcaaggtttcaGcagacagctgtcttcaacca	13	9	8	11	0	4	2	3	1	1	1	4	2	4	2	1	1	4	4	1	1	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:91172715G>A	uc002bpp.2	+	11	1323	c.1217G>A	c.(1216-1218)AGC>AAC	p.S406N	CRTC3_uc002bpo.2_Missense_Mutation_p.S406N	NM_022769	NP_073606	Q6UUV7	CRTC3_HUMAN	transducer of regulated CREB protein 3 isoform	406					interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus			CRTC3/MAML2(26)	salivary_gland(26)|ovary(1)	27	Melanoma(11;0.00551)|Lung NSC(78;0.0931)|all_lung(78;0.163)		BRCA - Breast invasive adenocarcinoma(143;0.0745)			CAAGGTTTCAGCAGACAGCTG	0.562			T	MAML2	salivary gland mucoepidermoid								55	100					0	0	1	0	0		A	91172715	A	A	91172715	3	1	213	1	0	0	0	0	1	0	0	0	3904	971	34	2	1259	2	CRTC3	15	91172715	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2152478	91172715	11358677	699	106136											
MCTP2	55784	broad.mit.edu	37	chr15	94858782	94858782	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgggggaagccagtgatggcTtgagtaacctccccagccct	8	7	13	13	1	0	2	0	2	0	0	1	3	1	3	5	3	3	2	5	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:94858782T>C	uc002btj.2	+	3	618	c.553T>C	c.(553-555)TTG>CTG	p.L185L	MCTP2_uc010urg.1_Silent_p.L185L|MCTP2_uc002bti.2_Silent_p.L185L|MCTP2_uc010boj.2_5'UTR|MCTP2_uc010bok.2_Silent_p.L185L|MCTP2_uc002btg.3_Silent_p.L185L|MCTP2_uc002bth.3_Silent_p.L185L	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1	185	C2 1.				calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			CAGTGATGGCTTGAGTAACCT	0.527													8	24					0	0	1	0	0		C	94858782	C	C	94858782	2	2	213	1	0	0	0	0	0	0	0	1	9419	1606	56	3		3	MCTP2	15	94858782	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3686067	94858782	7672610	700	106137											
IGF1R	3480	broad.mit.edu	37	chr15	99442794	99442794	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgccattctcatgccttggtCtccttgtccttcctaaaaaa	8	14	5	14	1	2	0	1	0	2	0	6	0	4	0	5	1	1	0	5	1	3	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:99442794C>T	uc002bul.2	+	5	1241	c.1191C>T	c.(1189-1191)GTC>GTT	p.V397V	IGF1R_uc010urq.1_Silent_p.V397V|IGF1R_uc010bon.2_Silent_p.V397V	NM_000875	NP_000866	P08069	IGF1R_HUMAN	insulin-like growth factor 1 receptor precursor	397					anti-apoptosis|immune response|insulin receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of DNA replication|protein autophosphorylation|protein tetramerization	microsome	ATP binding|identical protein binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor receptor activity|metal ion binding|phosphatidylinositol 3-kinase binding			lung(3)|kidney(3)|ovary(1)|central_nervous_system(1)	8	all_cancers(4;4.17e-14)|all_epithelial(3;4.34e-15)|Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		Epithelial(2;1.94e-12)|all cancers(5;6.83e-11)|BRCA - Breast invasive adenocarcinoma(2;2.88e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00261)		Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Mecasermin(DB01277)	ATGCCTTGGTCTCCTTGTCCT	0.473													29	58					0	0	1	0	0		T	99442794	T	T	99442794	2	4	213	1	0	0	0	0	0	0	0	1	7587	900	32	4		4	IGF1R	15	99442794	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4584012	99442794	3088598	701	106138											
LRRC28	123355	broad.mit.edu	37	chr15	99926275	99926275	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcttactgctgctccaccCagtgtctgcagacttttgac	6	13	9	13	0	1	2	0	1	1	1	2	2	2	2	2	1	4	4	2	1	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:99926275C>T	uc002bva.1	+	10	1227	c.1072C>T	c.(1072-1074)CAG>TAG	p.Q358*	LRRC28_uc002bvb.1_Nonsense_Mutation_p.Q204*|LRRC28_uc010urt.1_Nonsense_Mutation_p.Q172*|LRRC28_uc002bvc.1_Silent_p.P304P|LRRC28_uc010uru.1_Nonsense_Mutation_p.Q289*|LRRC28_uc002bvd.1_Nonsense_Mutation_p.Q84*	NM_144598	NP_653199	Q86X40	LRC28_HUMAN	leucine rich repeat containing 28	358											0	Lung NSC(78;0.00175)|all_lung(78;0.00351)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00106)			CTGCTCCACCCAGTGTCTGCA	0.493													94	245					0	0	1	0	0		T	99926275	T	T	99926275	4	4	213	1	0	0	0	0	0	1	0	0	9000	595	21	4	1106	4	LRRC28	15	99926275	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	483481	99926275	2605117	702	106139											
ADAMTS17	170691	broad.mit.edu	37	chr15	100692871	100692871	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aacaggatctggcactgctcGttggcactgtagtgcatgcc	8	10	12	11	1	1	0	0	0	1	0	2	1	1	1	1	3	4	6	1	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr15:100692871G>A	uc002bvv.1	-	10	1498	c.1419C>T	c.(1417-1419)AAC>AAT	p.N473N	ADAMTS17_uc002bvx.1_Silent_p.N230N	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	473	Disintegrin.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		GGCACTGCTCGTTGGCACTGT	0.587													8	89					0	0	1	0	0		A	100692871	A	A	100692871	2	1	213	1	0	0	0	0	0	0	0	1	262	1136	40	1		1	ADAMTS17	15	100692871	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	766596	100692871	1838521	703	106140											
WDR90	197335	broad.mit.edu	37	chr16	700674	700674	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcgccagcctgctggtcaGgaacctgtacaccagtgacc	8	7	12	14	1	1	1	1	1	0	0	1	2	1	2	5	2	5	2	5	2	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:700674G>T	uc002cii.1	+	5	578	c.524G>T	c.(523-525)AGG>ATG	p.R175M	WDR90_uc002cig.1_Missense_Mutation_p.R175M|WDR90_uc002cih.1_Missense_Mutation_p.R175M|WDR90_uc002cij.1_RNA	NM_145294	NP_660337	Q96KV7	WDR90_HUMAN	WD repeat domain 90	175										ovary(1)	1		Hepatocellular(780;0.0218)				CTGCTGGTCAGGAACCTGTAC	0.612													22	29					5.26018e-13	5.75828e-13	1	1	0		T	700674	T	T	700674	3	4	213	1	0	0	0	0	1	0	0	0	17363	1000	35	5	542	5	WDR90	16	700674	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		700674	89654079	704	106141											
BAIAP3	8938	broad.mit.edu	37	chr16	1392008	1392008	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatcatgacgacgatgtatcCctggtagaagcgtgcaggaa	12	8	13	8	3	1	2	1	1	0	1	2	6	2	3	1	2	2	3	1	2	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:1392008C>A	uc002clk.1	+	10	903	c.903C>A	c.(901-903)TCC>TCA	p.S301S	BAIAP3_uc002clj.2_Silent_p.S283S|BAIAP3_uc010uuz.1_Silent_p.S266S|BAIAP3_uc010uva.1_Silent_p.S238S|BAIAP3_uc010uvb.1_Silent_p.S318S|BAIAP3_uc010uvc.1_Silent_p.S266S	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	301	C2 1.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				ACGATGTATCCCTGGTAGAAG	0.622													17	33					4.7546e-09	5.07801e-09	1	1	0		A	1392008	A	A	1392008	2	1	213	1	0	0	0	0	0	0	0	1	1305	610	22	5		5	BAIAP3	16	1392008	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	691334	1392008	88962745	705	106142											
CCNF	899	broad.mit.edu	37	chr16	2506911	2506911	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggaagtcatgtttacagtgtCgtcccccaagtcccccggag	8	9	11	13	2	1	0	1	0	0	0	4	2	3	2	4	2	1	1	4	2	3	2	rs142532028	by1000genomes	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:2506911C>T	uc002cqd.1	+	17	2339	c.2251C>T	c.(2251-2253)CGT>TGT	p.R751C	CCNF_uc002cqe.1_Missense_Mutation_p.R443C	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F	751	PEST.				cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				TTTACAGTGTCGTCCCCCAAG	0.587													26	47					0	0	1	0	0		T	2506911	T	T	2506911	3	4	213	1	0	0	0	0	1	0	0	0	2925	884	31	1	2317	1	CCNF	16	2506911	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1114903	2506911	87847842	706	106143											
ADCY9	115	broad.mit.edu	37	chr16	4164837	4164837	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggccgtaaggttggagctgtCgccgcgtcctgagacaggcg	6	7	17	11	5	0	1	0	1	0	1	2	3	1	2	3	4	1	3	3	4	1	2	rs143296765	by1000genomes	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:4164837C>T	uc002cvx.2	-	2	1146	c.607G>A	c.(607-609)GAC>AAC	p.D203N		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	203	Extracellular (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						TTGGAGCTGTCGCCGCGTCCT	0.597													33	51					0	0	1	0	0		T	4164837	T	T	4164837	3	4	213	1	0	0	0	0	1	0	0	0	301	884	31	1	3494	1	ADCY9	16	4164837	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1657926	4164837	86189916	707	106144											
GLIS2	84662	broad.mit.edu	37	chr16	4386992	4386992	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cccccgacggcggcccctatGtcagtggggcccagatcatc	6	6	12	17	3	2	1	2	0	0	1	3	2	2	1	5	4	0	0	5	4	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:4386992G>A	uc002cwc.1	+	6	1099	c.1042G>A	c.(1042-1044)GTC>ATC	p.V348I		NM_032575	NP_115964	Q9BZE0	GLIS2_HUMAN	GLIS family zinc finger 2	348					cell differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development	cytoplasm|nuclear speck	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|transcription regulatory region DNA binding|zinc ion binding				0						CGGCCCCTATGTCAGTGGGGC	0.701													7	7					0	0	1	0	0		A	4386992	A	A	4386992	3	1	213	1	0	0	0	0	1	0	0	0	6461	1377	48	4	1064	4	GLIS2	16	4386992	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	222155	4386992	85967761	708	106145											
TXNDC11	51061	broad.mit.edu	37	chr16	11781746	11781746	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgtccatgggcaggttcCgagctagctggatgaagatg	9	10	15	7	1	0	2	0	1	0	1	2	4	2	3	2	3	2	4	2	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:11781746C>T	uc010buu.1	-	11	2263	c.2201G>A	c.(2200-2202)CGG>CAG	p.R734Q	TXNDC11_uc002dbg.1_Missense_Mutation_p.R707Q	NM_015914	NP_056998	Q6PKC3	TXD11_HUMAN	thioredoxin domain containing 11	734	Thioredoxin 2.				cell redox homeostasis	endoplasmic reticulum membrane|integral to membrane					0						GGGCAGGTTCCGAGCTAGCTG	0.527													8	30					0	0	1	0	0		T	11781746	T	T	11781746	3	4	213	1	0	0	0	0	1	0	0	0	16818	652	23	1	768	1	TXNDC11	16	11781746	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7394754	11781746	78573007	709	106146											
TMC5	79838	broad.mit.edu	37	chr16	19498596	19498596	+	Frame_Shift_Del	DEL	T	-	-																															ctttcttcatcttcttgctcTttttcccatccttcaccggg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:19498596delT	uc002dgc.3	+	17	3270	c.2521delT	c.(2521-2523)TTTfs	p.F841fs	TMC5_uc010vaq.1_Frame_Shift_Del_p.F789fs|TMC5_uc002dgb.3_Frame_Shift_Del_p.F841fs|TMC5_uc010var.1_Frame_Shift_Del_p.F841fs|TMC5_uc002dgd.1_Frame_Shift_Del_p.F595fs|TMC5_uc002dge.3_Frame_Shift_Del_p.F595fs|TMC5_uc002dgf.3_Frame_Shift_Del_p.F524fs|TMC5_uc002dgg.3_Frame_Shift_Del_p.F482fs	NM_001105248	NP_001098718	Q6UXY8	TMC5_HUMAN	transmembrane channel-like 5 isoform a	841	Helical; (Potential).					integral to membrane				skin(1)	1						CTTCTTGCTCTTTTTCCCATC	0.547													23	49	---	---	---	---						.	-	19498596	-	-	19498596	7	5	213	1	0	1	0	1	0	0	0	0	16013	1609	56	0	2893	0	TMC5	16	19498596	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	7716850	19498596	70856157	710	106147											
C16orf88	400506	broad.mit.edu	37	chr16	19725566	19725566	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcatctttttctttgcggaGgccttagggtcatcacttat	6	18	8	9	1	5	0	3	0	2	0	5	1	5	1	1	3	1	0	1	3	2	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:19725566G>T	uc002dgq.2	-	2	807	c.792C>A	c.(790-792)GCC>GCA	p.A264A	IQCK_uc002dgr.2_5'Flank|IQCK_uc002dgs.2_5'Flank	NM_001012991	NP_001013009	Q1ED39	CP088_HUMAN	hypothetical protein LOC400506	264	Lys-rich.					nucleolus					0						TCTTTGCGGAGGCCTTAGGGT	0.478													63	77					3.37043e-27	3.83733e-27	1	1	0		T	19725566	T	T	19725566	2	4	213	1	0	0	0	0	0	0	0	1	1844	987	35	5		5	C16orf88	16	19725566	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	226970	19725566	70629187	711	106148											
PRKCB	5579	broad.mit.edu	37	chr16	24046762	24046762	+	Silent	SNP	G	A	A	0	0	1	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	tgcatgatgaatgtgcacaaGcgctgcgtgatgaatgttcc	10	11	12	8	2	0	4	0	4	0	0	1	4	1	4	1	0	4	4	1	0	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:24046762G>A	uc002dmd.2	+	5	620	c.423G>A	c.(421-423)AAG>AAA	p.K141K	PRKCB_uc002dme.2_Silent_p.K141K	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	141	Phorbol-ester/DAG-type 2.				apoptosis|B cell activation|B cell receptor signaling pathway|intracellular signal transduction|lipoprotein transport|platelet activation|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|synaptic transmission|transcription, DNA-dependent	cytosol|nucleus|plasma membrane	androgen receptor binding|ATP binding|chromatin binding|histone binding|histone kinase activity (H3-T6 specific)|ligand-dependent nuclear receptor transcription coactivator activity|protein kinase C activity|protein kinase C binding|zinc ion binding			ovary(3)|central_nervous_system(3)|lung(2)|large_intestine(1)	9					Vitamin E(DB00163)	ATGTGCACAAGCGCTGCGTGA	0.632													31	46					0	0	1	0	0		A	24046762	A	A	24046762	2	1	213	1	0	0	0	0	0	0	0	1	12530	962	34	2		2	PRKCB	16	24046762	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4321196	24046762	66307991	712	106149											
IL21R	50615	broad.mit.edu	37	chr16	27441397	27441397	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccgtgggagtcagcatgcCgcgtggctgggccgccccct	3	6	16	16	4	1	0	1	0	0	0	1	1	1	1	5	3	2	2	5	3	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:27441397C>T	uc002doq.1	+	2	238	c.5C>T	c.(4-6)CCG>CTG	p.P2L	IL21R_uc002dor.1_Missense_Mutation_p.P2L|IL21R_uc002dos.1_Missense_Mutation_p.P2L	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	2					natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						GTCAGCATGCCGCGTGGCTGG	0.701			T	BCL6	NHL								3	14					0	0	1	0	0		T	27441397	T	T	27441397	3	4	213	1	0	0	0	0	1	0	0	0	7687	652	23	1	7	1	IL21R	16	27441397	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3394635	27441397	62913356	713	106150											
ZNF688	146542	broad.mit.edu	37	chr16	30581665	30581665	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtcagggttgcgttccaccaGcacttcaggactctccttca	7	11	9	14	1	4	0	3	0	1	0	6	1	5	1	3	2	2	3	3	2	0	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:30581665G>A	uc002dyt.2	-	3	1181	c.403C>T	c.(403-405)CTG>TTG	p.L135L	ZNF688_uc002dys.2_Silent_p.L121L|uc002dyu.2_5'Flank	NM_145271	NP_660314	P0C7X2	ZN688_HUMAN	zinc finger protein 688 isoform a	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CGTTCCACCAGCACTTCAGGA	0.602													19	32					0	0	1	0	0		A	30581665	A	A	30581665	2	1	213	1	0	0	0	0	0	0	0	1	18118	962	34	2		2	ZNF688	16	30581665	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3140268	30581665	59773088	714	106151											
ZNF646	9726	broad.mit.edu	37	chr16	31091327	31091327	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accggcagagccaccagaccGgccactttggctgtcaggcc	8	5	12	16	2	1	2	1	0	0	2	1	2	1	2	6	4	1	2	6	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:31091327G>A	uc002eap.2	+	2	3971	c.3682G>A	c.(3682-3684)GGC>AGC	p.G1228S		NM_014699	NP_055514	O15015	ZN646_HUMAN	zinc finger protein 646	1228					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(2)	2						CCACCAGACCGGCCACTTTGG	0.627													12	31					0	0	1	0	0		A	31091327	A	A	31091327	3	1	213	1	0	0	0	0	1	0	0	0	18087	1116	39	1	3684	1	ZNF646	16	31091327	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	509662	31091327	59263426	715	106152											
TGFB1I1	7041	broad.mit.edu	37	chr16	31485172	31485172	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagcacggtatgcaagcctCggtccccaaagcctgcagcc	9	5	10	17	2	0	0	0	0	0	0	2	0	1	0	6	2	6	4	6	2	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:31485172C>T	uc002ecd.1	+	4	225	c.199C>T	c.(199-201)CGG>TGG	p.R67W	TGFB1I1_uc002ece.1_Missense_Mutation_p.R50W|TGFB1I1_uc010caq.1_5'UTR	NM_001042454	NP_001035919	O43294	TGFI1_HUMAN	transforming growth factor beta 1 induced	67	Transcription activation (By similarity).|Interaction with PTK2B.				androgen receptor signaling pathway|cell adhesion|negative regulation of cell proliferation|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor beta receptor signaling pathway|transcription from RNA polymerase II promoter|ubiquitin-dependent SMAD protein catabolic process|Wnt receptor signaling pathway	cytoplasm|cytoskeleton|focal adhesion|nuclear matrix	androgen receptor binding|I-SMAD binding|Roundabout binding|transcription coactivator activity|zinc ion binding				0						ATGCAAGCCTCGGTCCCCAAA	0.632													26	91					0	0	1	0	0		T	31485172	T	T	31485172	3	4	213	1	0	0	0	0	1	0	0	0	15842	875	31	1	213	1	TGFB1I1	16	31485172	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	393845	31485172	58869581	716	106153											
AKTIP	64400	broad.mit.edu	37	chr16	53534205	53534205	+	Translation_Start_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aacaaagaaagtcagtggtgTatcatccaaatcttctgtct	14	12	7	8	0	5	1	2	0	3	1	6	1	6	1	1	1	1	1	1	1	5	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:53534205T>C	uc002ehk.2	-	2	178	c.-33A>G	c.(-35--31)ATACA>ATGCA		AKTIP_uc002ehl.2_Translation_Start_Site|AKTIP_uc002ehm.2_Translation_Start_Site|AKTIP_uc010vgx.1_Translation_Start_Site	NM_001012398	NP_001012398	Q9H8T0	AKTIP_HUMAN	AKT interacting protein						apoptosis|early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|positive regulation of protein binding|positive regulation of protein phosphorylation|protein transport	FHF complex|plasma membrane	acid-amino acid ligase activity|protein binding				0		all_cancers(37;0.14)				GTCAGTGGTGTATCATCCAAA	0.368													16	29					0	0	1	0	0		C	53534205	C	C	53534205	1	2	213	1	0	0	0	0	0	0	0	0	482	1653	57	3		3	AKTIP	16	53534205	Translation_Start_Site	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	22049033	53534205	36820548	717	106154											
KATNB1	10300	broad.mit.edu	37	chr16	57789031	57789031	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctgagtttcacactttcagCtggaggtcctgccccggccc	5	10	11	15	1	2	1	2	1	0	0	3	2	3	2	4	3	2	3	4	3	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:57789031C>T	uc002eml.1	+	15	1671	c.1297C>T	c.(1297-1299)CTG>TTG	p.L433L		NM_005886	NP_005877	Q9BVA0	KTNB1_HUMAN	katanin p80 subunit B 1	433	Interaction with KATNA1 and NDEL1 (By similarity).|Interaction with PAFAH1B1 (By similarity).				cell division|mitosis|negative regulation of microtubule depolymerization|positive regulation of microtubule depolymerization|protein targeting	katanin complex|microtubule|spindle pole	microtubule binding|protein heterodimerization activity				0		all_neural(199;0.223)				ACACTTTCAGCTGGAGGTCCT	0.667													13	37					0	0	1	0	0		T	57789031	T	T	57789031	2	4	213	1	0	0	0	0	0	0	0	1	8003	811	28	2		2	KATNB1	16	57789031	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4254826	57789031	32565722	718	106155											
CDH16	1014	broad.mit.edu	37	chr16	66949216	66949216	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctggctcaggatgtggaatcGaagatccgagttggctgtgc	8	10	15	8	2	1	1	1	0	0	1	3	5	2	3	1	4	1	3	1	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:66949216G>A	uc002eql.2	-	6	563	c.490C>T	c.(490-492)CGA>TGA	p.R164*	CDH16_uc010cdy.2_Nonsense_Mutation_p.R164*|CDH16_uc002eqm.2_Intron	NM_004062	NP_004053	O75309	CAD16_HUMAN	cadherin 16 precursor	164	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|upper_aerodigestive_tract(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0877)|Epithelial(162;0.203)		ATGTGGAATCGAAGATCCGAG	0.617													25	38					0	0	1	0	0		A	66949216	A	A	66949216	4	1	213	1	0	0	0	0	0	1	0	0	3104	1066	37	1	2051	1	CDH16	16	66949216	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	9160185	66949216	23405537	719	106156											
TERF2	7014	broad.mit.edu	37	chr16	69400774	69400774	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggatggtggcgctgaagCggcctcctgggaggagttga	6	9	18	8	2	0	2	0	2	0	0	1	5	1	5	2	6	1	2	2	6	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:69400774C>T	uc002exd.2	-	7	1275	c.1150G>A	c.(1150-1152)GCT>ACT	p.A384T		NM_005652	NP_005643	Q15554	TERF2_HUMAN	telomeric repeat binding factor 2	384					age-dependent telomere shortening|cell cycle|cellular senescence|negative regulation of telomere maintenance via semi-conservative replication|protection from non-homologous end joining at telomere|protein localization to chromosome, telomeric region|regulation of transcription, DNA-dependent|telomeric loop formation	Golgi apparatus|nuclear telomere cap complex|nucleoplasm	double-stranded telomeric DNA binding|protein C-terminus binding|protein homodimerization activity			lung(1)	1		Ovarian(137;0.101)				GGCGCTGAAGCGGCCTCCTGG	0.557													12	29					0	0	1	0	0		T	69400774	T	T	69400774	3	4	213	1	0	0	0	0	1	0	0	0	15787	768	27	1	368	1	TERF2	16	69400774	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2451558	69400774	20953979	720	106157											
MTSS1L	92154	broad.mit.edu	37	chr16	70698147	70698147	+	Frame_Shift_Del	DEL	G	-	-																															cggcggatggtggccacgccGgggggtgcgcccgagggcag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:70698147delG	uc002ezj.2	-	15	1937	c.1677delC	c.(1675-1677)CCCfs	p.P559fs		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	559					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						TGGCCACGCCGGGGGGTGCGC	0.761													11	20	---	---	---	---						.	-	70698147	-	-	70698147	7	5	213	1	0	1	0	1	0	0	0	0	9981	1103	39	0	570	0	MTSS1L	16	70698147	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1297373	70698147	19656606	721	106158											
HYDIN	54768	broad.mit.edu	37	chr16	70841641	70841641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttgttgatcttcttgggccGcacagactctccagcgcgaa	7	11	11	12	3	3	2	0	1	3	1	4	3	3	2	2	1	1	3	2	1	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:70841641G>A	uc002ezr.2	-	86	15333	c.15205C>T	c.(15205-15207)CGG>TGG	p.R5069W	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	5070										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TTCTTGGGCCGCACAGACTCT	0.517													38	69					0	0	1	0	0		A	70841641	A	A	70841641	3	1	213	1	0	0	0	0	1	0	0	0	7483	1086	38	1	161	1	HYDIN	16	70841641	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	143494	70841641	19513112	722	106159											
TAT	6898	broad.mit.edu	37	chr16	71602123	71602123	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actcctggatccggctgcacGcctccagcatcatcacctcg	7	8	8	18	3	2	0	2	0	0	0	6	1	5	1	5	2	2	3	5	2	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:71602123G>A	uc002fap.2	-	12	1388	c.1289C>T	c.(1288-1290)GCG>GTG	p.A430V		NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	430					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	CCGGCTGCACGCCTCCAGCAT	0.507													26	28					0	0	1	0	0		A	71602123	A	A	71602123	3	1	213	1	0	0	0	0	1	0	0	0	15615	1087	38	1	79	1	TAT	16	71602123	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	760482	71602123	18752630	723	106160											
PHLPP2	23035	broad.mit.edu	37	chr16	71724517	71724517	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accacagaggacaactaggcGctcagcccacttatgcagct	12	6	9	14	1	1	1	1	0	0	1	1	2	1	2	2	2	4	3	2	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:71724517G>A	uc002fax.2	-	3	520	c.514C>T	c.(514-516)CGC>TGC	p.R172C	PHLPP2_uc010cgf.2_Missense_Mutation_p.R172C|PHLPP2_uc002fay.1_Missense_Mutation_p.R172C	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	172	PH.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2						ACAACTAGGCGCTCAGCCCAC	0.468													25	47					0	0	1	0	0		A	71724517	A	A	71724517	3	1	213	1	0	0	0	0	1	0	0	0	11874	1087	38	1	3521	1	PHLPP2	16	71724517	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	122394	71724517	18630236	724	106161											
GLG1	2734	broad.mit.edu	37	chr16	74496029	74496029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gctggagctgaggatccaggCggtagtccagggcggactcc	7	6	17	11	2	0	1	0	1	0	0	3	4	3	4	3	6	1	3	3	6	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:74496029C>T	uc002fcy.3	-	22	3049	c.2999G>A	c.(2998-3000)CGC>CAC	p.R1000H	GLG1_uc002fcx.2_Missense_Mutation_p.R1000H|GLG1_uc002fcw.3_Missense_Mutation_p.R989H|GLG1_uc002fcz.3_Missense_Mutation_p.R417H	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	1000	Extracellular (Potential).|Cys-rich GLG1 15.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						AGGATCCAGGCGGTAGTCCAG	0.537													11	40					0	0	1	0	0		T	74496029	T	T	74496029	3	4	213	1	0	0	0	0	1	0	0	0	6451	768	27	1	640	1	GLG1	16	74496029	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2771512	74496029	15858724	725	106162											
GLG1	2734	broad.mit.edu	37	chr16	74519764	74519764	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acaagcttcattcaaagctcGatcaatgcggtaatctgcac	13	10	7	11	2	4	0	3	0	1	0	5	1	4	0	0	1	4	4	0	1	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:74519764G>A	uc002fcy.3	-	9	1551	c.1501C>T	c.(1501-1503)CGA>TGA	p.R501*	GLG1_uc002fcx.2_Nonsense_Mutation_p.R501*|GLG1_uc002fcw.3_Nonsense_Mutation_p.R490*|GLG1_uc002fcz.3_Intron	NM_001145667	NP_001139139	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 3	501	Extracellular (Potential).|Cys-rich GLG1 7.					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2						TTCAAAGCTCGATCAATGCGG	0.388													39	62					0	0	1	0	0		A	74519764	A	A	74519764	4	1	213	1	0	0	0	0	0	1	0	0	6451	1066	37	1	2190	1	GLG1	16	74519764	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	23735	74519764	15834989	726	106163											
TAF1C	9013	broad.mit.edu	37	chr16	84215812	84215812	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcgcaagaaaggatacgcagCctgtcctgggcgcctccagc	9	6	12	14	3	0	1	0	0	0	1	3	2	2	2	4	2	3	2	4	2	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:84215812C>T	uc002fhn.2	-	7	945	c.717G>A	c.(715-717)AGG>AGA	p.R239R	TAF1C_uc002fhm.2_Silent_p.R172R|TAF1C_uc010vnx.1_Silent_p.R239R|TAF1C_uc010vny.1_5'UTR|TAF1C_uc010vnz.1_5'UTR|TAF1C_uc002fho.2_5'UTR|TAF1C_uc010voa.1_5'UTR|TAF1C_uc002fhp.1_RNA|TAF1C_uc010vob.1_Silent_p.R239R	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	239					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						GGATACGCAGCCTGTCCTGGG	0.637													24	31					0	0	1	0	0		T	84215812	T	T	84215812	2	4	213	1	0	0	0	0	0	0	0	1	15546	738	26	2		2	TAF1C	16	84215812	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	9696048	84215812	6138941	727	106164											
KCNG4	93107	broad.mit.edu	37	chr16	84256129	84256129	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accatgtccccgtagcccacCgttgtcatggagatgatggc	8	9	11	13	2	1	2	1	1	0	1	2	3	2	2	5	2	1	2	5	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:84256129C>T	uc010voc.1	-	3	1375	c.1254G>A	c.(1252-1254)ACG>ACA	p.T418T		NM_172347	NP_758857	Q8TDN1	KCNG4_HUMAN	potassium voltage-gated channel, subfamily G,	418	Selectivity filter (By similarity).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(3)	3						CGTAGCCCACCGTTGTCATGG	0.642													12	44					0	0	1	0	0		T	84256129	T	T	84256129	2	4	213	1	0	0	0	0	0	0	0	1	8046	639	23	1		1	KCNG4	16	84256129	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	40317	84256129	6098624	728	106165											
ZCCHC14	23174	broad.mit.edu	37	chr16	87445211	87445211	+	Frame_Shift_Del	DEL	T	-	-																															aacaagataggttcccgctcTttttgtgactggaaccattg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:87445211delT	uc002fjz.1	-	12	2732	c.2705delA	c.(2704-2706)AAGfs	p.K902fs	ZCCHC14_uc002fka.1_RNA|ZCCHC14_uc002fkb.2_Frame_Shift_Del_p.K678fs	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14	902					cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GTTCCCGCTCTTTTTGTGACT	0.592													39	89	---	---	---	---						.	-	87445211	-	-	87445211	7	5	213	1	0	1	0	1	0	0	0	0	17608	1609	56	0	152	0	ZCCHC14	16	87445211	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	3189082	87445211	2909542	729	106166											
TUBB3	10381	broad.mit.edu	37	chr16	90001915	90001915	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cccaacaacgtgaaggtggcCgtgtgtgacatcccgccccg	8	6	12	15	4	0	2	0	2	0	0	1	2	1	2	5	2	2	0	5	2	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr16:90001915C>T	uc002fph.1	+	4	1121	c.1056C>T	c.(1054-1056)GCC>GCT	p.A352A	TUBB3_uc002fpf.2_Silent_p.A699A|TUBB3_uc010ciz.1_Silent_p.A280A|TUBB3_uc002fpg.1_Silent_p.A206A|TUBB3_uc002fpi.1_Silent_p.A280A|TUBB3_uc002fpj.1_Silent_p.A280A|TUBB3_uc010cjb.1_Silent_p.A206A|TUBB3_uc002fpk.1_Silent_p.A206A	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	352					'de novo' posttranslational protein folding|axon guidance|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(2)|pancreas(1)	3		all_cancers(9;1.69e-11)|Lung NSC(15;8.94e-06)|all_lung(18;1.39e-05)|all_neural(9;0.00581)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0273)		TGAAGGTGGCCGTGTGTGACA	0.597													75	134					0	0	1	0	0		T	90001915	T	T	90001915	2	4	213	1	0	0	0	0	0	0	0	1	16783	639	23	1		1	TUBB3	16	90001915	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2556704	90001915	352838	730	106167											
SMG6	23293	broad.mit.edu	37	chr17	2203754	2203754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttggttgttcagttccttgCagacatctttaacgggctgt	6	16	10	9	1	2	1	1	0	1	1	3	1	3	1	1	2	2	5	1	2	1	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:2203754C>T	uc002fub.1	-	2	348	c.293G>A	c.(292-294)TGC>TAC	p.C98Y	SMG6_uc002fud.1_Missense_Mutation_p.C67Y	NM_017575	NP_060045	Q86US8	EST1A_HUMAN	Smg-6 homolog, nonsense mediated mRNA decay	98					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation|telomere maintenance	chromosome, telomeric region|cytosol|nucleolus|telomerase holoenzyme complex	endoribonuclease activity|metal ion binding|protein binding|telomeric DNA binding			central_nervous_system(2)|lung(1)|kidney(1)	4						CAGTTCCTTGCAGACATCTTT	0.448													56	130					0	0	1	0	0		T	2203754	T	T	2203754	3	4	213	1	0	0	0	0	1	0	0	0	14822	710	25	2	4038	2	SMG6	17	2203754	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08		2203754	78991456	731	106168											
KIAA0664	23277	broad.mit.edu	37	chr17	2598515	2598515	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gagcggacgggtggcacctgTaagtacgtcttgaagatgtg	9	9	16	7	3	1	2	0	1	1	1	1	4	1	3	1	3	2	3	1	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:2598515T>C	uc002fuy.1	-	15	2573	c.2487A>G	c.(2485-2487)TTA>TTG	p.L829L	KIAA0664_uc002fux.1_Silent_p.L762L|KIAA0664_uc010ckc.1_5'Flank	NM_015229	NP_056044	O75153	K0664_HUMAN	hypothetical protein LOC23277	829							binding			breast(2)	2						GTGGCACCTGTAAGTACGTCT	0.627													30	57					0	0	1	0	0		C	2598515	C	C	2598515	2	2	213	1	0	0	0	0	0	0	0	1	8205	1635	57	3		3	KIAA0664	17	2598515	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	394761	2598515	78596695	732	106169											
TRPV3	162514	broad.mit.edu	37	chr17	3431416	3431416	+	Missense_Mutation	SNP	A	G	G	1	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	tcagggccaaggggtgcgggAtggcctgcagggaaagaaga	11	4	19	7	1	1	2	1	0	0	2	1	4	1	4	2	6	2	1	2	6	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:3431416A>G	uc002fvt.1	-	11	1728	c.1406T>C	c.(1405-1407)ATC>ACC	p.I469T	TRPV3_uc002fvs.1_RNA|TRPV3_uc010vrh.1_Missense_Mutation_p.I453T|TRPV3_uc010vri.1_Missense_Mutation_p.I424T|TRPV3_uc010vrj.1_Missense_Mutation_p.I453T|TRPV3_uc010vrk.1_RNA|TRPV3_uc010vrl.1_Missense_Mutation_p.I453T|TRPV3_uc010vrm.1_RNA|TRPV3_uc002fvr.2_Missense_Mutation_p.I469T|TRPV3_uc002fvu.2_Missense_Mutation_p.I469T|TRPV3_uc010vrn.1_Missense_Mutation_p.I51T	NM_145068	NP_659505	Q8NET8	TRPV3_HUMAN	transient receptor potential cation channel,	469	Extracellular (Potential).					integral to membrane	calcium channel activity			ovary(4)	4					Menthol(DB00825)	GGGGTGCGGGATGGCCTGCAG	0.567													15	13					0	0	1	0	0		G	3431416	G	G	3431416	3	3	213	1	0	0	0	0	1	0	0	0	16623	333	12	3	998	3	TRPV3	17	3431416	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	832901	3431416	77763794	733	106170											
CTNS	1497	broad.mit.edu	37	chr17	3558639	3558639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggtgatcatgaattggaggCggaaaaggtaaccccctggg	12	7	15	7	1	1	2	1	2	0	0	1	4	1	4	2	6	1	1	2	6	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:3558639C>T	uc002fwb.2	+	7	1047	c.454C>T	c.(454-456)CGG>TGG	p.R152W	CTNS_uc002fwa.2_Missense_Mutation_p.R152W|CTNS_uc010ckj.2_Missense_Mutation_p.R152W|CTNS_uc010vrv.1_Missense_Mutation_p.R5W|CTNS_uc010vrw.1_Missense_Mutation_p.R44W	NM_004937	NP_004928	O60931	CTNS_HUMAN	cystinosin isoform 2	152	Cytoplasmic (Potential).|PQ-loop 1.				ATP metabolic process|brain development|cognition|glutathione metabolic process	integral to membrane|late endosome|lysosomal membrane	L-cystine transmembrane transporter activity				0				COAD - Colon adenocarcinoma(5;0.0829)	L-Cystine(DB00138)	GAATTGGAGGCGGAAAAGGTA	0.592													46	105					0	0	1	0	0		T	3558639	T	T	3558639	3	4	213	1	0	0	0	0	1	0	0	0	4024	759	27	1	472	1	CTNS	17	3558639	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	127223	3558639	77636571	734	106171											
ZZEF1	23140	broad.mit.edu	37	chr17	3974038	3974038	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caccagagcagcaaaggtggCgttcacagcttgatcaatag	13	7	11	10	1	2	2	2	1	0	1	2	2	2	2	1	2	3	4	1	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:3974038C>T	uc002fxe.2	-	26	4079	c.4015G>A	c.(4015-4017)GCC>ACC	p.A1339T	ZZEF1_uc002fxj.1_5'UTR	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1339							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCAAAGGTGGCGTTCACAGCT	0.398													48	71					0	0	1	0	0		T	3974038	T	T	3974038	3	4	213	1	0	0	0	0	1	0	0	0	18280	768	27	1	4990	1	ZZEF1	17	3974038	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	415399	3974038	77221172	735	106172											
CAMTA2	23125	broad.mit.edu	37	chr17	4885435	4885435	+	Silent	SNP	A	G	G	1	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	gtggggacgatggaagagtgAacgtagcagccatagagaca	14	5	16	6	2	0	3	0	1	0	2	0	7	0	5	1	3	3	2	1	3	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:4885435A>G	uc002gah.1	-	6	468	c.360T>C	c.(358-360)GTT>GTC	p.V120V	CAMTA2_uc010cku.1_Silent_p.V143V|CAMTA2_uc002gag.1_Intron|CAMTA2_uc002gai.1_Silent_p.V122V|CAMTA2_uc010ckv.1_5'Flank|CAMTA2_uc010vsu.1_5'UTR	NM_015099	NP_055914	O94983	CMTA2_HUMAN	calmodulin binding transcription activator 2	120	CG-1.				cardiac muscle hypertrophy in response to stress|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	calmodulin binding|chromatin binding|histone deacetylase binding|transcription factor binding			ovary(1)	1						TGGAAGAGTGAACGTAGCAGC	0.592													32	66					0	0	1	0	0		G	4885435	G	G	4885435	2	3	213	1	0	0	0	0	0	0	0	1	2617	233	9	3		3	CAMTA2	17	4885435	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	911397	4885435	76309775	736	106173											
NUP88	4927	broad.mit.edu	37	chr17	5312106	5312106	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctccattttcatataagatGtacagtgggtatgccactac	11	14	7	9	0	2	1	1	0	1	1	3	1	2	1	2	1	3	2	2	1	5	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:5312106G>A	uc002gbo.1	-	5	830	c.804C>T	c.(802-804)TAC>TAT	p.Y268Y	NUP88_uc010vsx.1_Silent_p.Y268Y|NUP88_uc010cle.1_Silent_p.Y267Y|NUP88_uc010vsy.1_Silent_p.Y268Y	NM_002532	NP_002523	Q99567	NUP88_HUMAN	nucleoporin 88kDa	268					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	transporter activity			kidney(1)	1						CATATAAGATGTACAGTGGGT	0.443													20	56					0	0	1	0	0		A	5312106	A	A	5312106	2	1	213	1	0	0	0	0	0	0	0	1	10790	1372	48	4		4	NUP88	17	5312106	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	426671	5312106	75883104	737	106174											
ACADVL	37	broad.mit.edu	37	chr17	7127562	7127562	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcaggcaaacagctgaggcGgtaggcttagggccagagcc	10	4	17	10	1	0	2	0	1	0	1	0	2	0	2	2	6	3	5	2	6	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:7127562G>A	uc002gev.2	+	15	1683	c.1532G>A	c.(1531-1533)CGG>CAG	p.R511Q	ACADVL_uc010vtp.1_Missense_Mutation_p.R521Q|ACADVL_uc002gew.2_Missense_Mutation_p.R489Q|ACADVL_uc002gex.2_Missense_Mutation_p.R435Q|uc002gey.1_5'Flank|MIR324_hsa-mir-324|MI0000813_5'Flank	NM_000018	NP_000009	P49748	ACADV_HUMAN	acyl-Coenzyme A dehydrogenase, very long chain	511	Membrane-anchoring (Probable).				energy derivation by oxidation of organic compounds|fatty acid beta-oxidation using acyl-CoA dehydrogenase|negative regulation of fatty acid biosynthetic process|negative regulation of fatty acid oxidation|regulation of cholesterol metabolic process|temperature homeostasis	mitochondrial inner membrane|mitochondrial nucleoid	long-chain-acyl-CoA dehydrogenase activity			ovary(3)	3						CAGCTGAGGCGGTAGGCTTAG	0.602													11	32					0	0	1	0	0		A	7127562	A	A	7127562	3	1	213	1	0	0	0	0	1	0	0	0	116	1130	39	1	1590	1	ACADVL	17	7127562	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1815456	7127562	74067648	738	106175											
TP53	7157	broad.mit.edu	37	chr17	7578475	7578475	+	Frame_Shift_Del	DEL	G	-	-																															cgcggacgcgggtgccgggcGggggtgtggaatcaacccac																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:7578475delG	uc002gim.2	-	5	649	c.455delC	c.(454-456)CCGfs	p.P152fs	TP53_uc002gig.1_Frame_Shift_Del_p.P152fs|TP53_uc002gih.2_Frame_Shift_Del_p.P152fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.P20fs|TP53_uc010cng.1_Frame_Shift_Del_p.P20fs|TP53_uc002gii.1_Frame_Shift_Del_p.P20fs|TP53_uc010cnh.1_Frame_Shift_Del_p.P152fs|TP53_uc010cni.1_Frame_Shift_Del_p.P152fs|TP53_uc002gij.2_Frame_Shift_Del_p.P152fs|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Frame_Shift_Del_p.P59fs|TP53_uc002gio.2_Frame_Shift_Del_p.P20fs|TP53_uc010vug.1_Frame_Shift_Del_p.P113fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	152	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		P -> R (in sporadic cancers; somatic mutation).|P -> T (in sporadic cancers; somatic mutation).|P -> L (in LFS; germline mutation and in sporadic cancers; somatic mutation).|P -> Q (in sporadic cancers; somatic mutation).|P -> S (in sporadic cancers; somatic mutation).|P -> A (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.P152L(57)|p.P152S(21)|p.P152fs*18(17)|p.P152T(7)|p.0?(7)|p.P152fs*29(5)|p.P152P(5)|p.P152Q(4)|p.P153fs*28(4)|p.P152fs*14(4)|p.P152fs*28(3)|p.P152R(3)|p.T150fs*16(3)|p.P152A(2)|p.P153fs*16(1)|p.P151_V173del23(1)|p.P152_P153del(1)|p.D148_T155delDSTPPPGT(1)|p.T150_P153delTPPP(1)|p.D148fs*23(1)|p.P152del(1)|p.S149fs*72(1)|p.S149fs*17(1)|p.Q144_G154del11(1)|p.P152_P153insXXX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GGTGCCGGGCGGGGGTGTGGA	0.612		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			23	53	---	---	---	---						.	-	7578475	-	-	7578475	7	5	213	1	0	1	0	1	0	0	0	0	16407	1116	39	0	843	0	TP53	17	7578475	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	450913	7578475	73616735	739	106176											
ALOX12B	242	broad.mit.edu	37	chr17	7979592	7979592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agtcattggggaggtagaggCtgtcataggtgagctccgac	9	9	16	7	1	2	2	2	1	0	1	3	4	3	3	1	5	1	3	1	5	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:7979592C>T	uc002gjy.1	-	11	1694	c.1433G>A	c.(1432-1434)AGC>AAC	p.S478N		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	478	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						GAGGTAGAGGCTGTCATAGGT	0.597										Multiple Myeloma(8;0.094)			14	17					0	0	1	0	0		T	7979592	T	T	7979592	3	4	213	1	0	0	0	0	1	0	0	0	537	797	28	2	692	2	ALOX12B	17	7979592	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	401117	7979592	73215618	740	106177											
C17orf59	54785	broad.mit.edu	37	chr17	8093038	8093038	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctcgtcgttgtcttcctcctCctgctgctcaacatccatcc	4	14	5	18	2	2	0	1	0	1	0	9	0	7	0	5	0	3	3	5	0	1	2	rs144247363	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:8093038C>G	uc010vut.1	-	1	527	c.421G>C	c.(421-423)GAG>CAG	p.E141Q		NM_017622	NP_060092	Q96GS4	CQ059_HUMAN	hypothetical protein LOC54785	141											0						TCTTCCTCCTCCTGCTGCTCA	0.716													17	27					0	0	1	0	0		G	8093038	G	G	8093038	3	3	213	1	0	0	0	0	1	0	0	0	1870	864	30	5	656	5	C17orf59	17	8093038	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	113446	8093038	73102172	741	106178											
MYH3	4621	broad.mit.edu	37	chr17	10538325	10538325	+	Silent	SNP	C	T	T	0	0	0	1	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	tcctcggaatcttgaaggcgCtgagcaagttttttccttaa	9	14	9	9	2	1	2	0	2	1	0	4	3	3	3	2	2	1	3	2	2	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:10538325C>T	uc002gmq.1	-	30	4265	c.4188G>A	c.(4186-4188)CAG>CAA	p.Q1396Q		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1396	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						CTTGAAGGCGCTGAGCAAGTT	0.433													22	46					0	0	1	0	0		T	10538325	T	T	10538325	2	4	213	1	0	0	0	0	0	0	0	1	10054	796	28	2		2	MYH3	17	10538325	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2445287	10538325	70656885	742	106179											
MYH3	4621	broad.mit.edu	37	chr17	10541627	10541627	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcgtggaggtgacgcctccCgcctcctccagccgctcgct	3	8	12	18	5	0	1	0	1	0	0	4	2	3	2	6	2	2	2	6	2	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:10541627C>T	uc002gmq.1	-	26	3539	c.3462G>A	c.(3460-3462)GCG>GCA	p.A1154A		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1154	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(2)|pancreas(1)	7						TGACGCCTCCCGCCTCCTCCA	0.652													24	35					0	0	1	0	0		T	10541627	T	T	10541627	2	4	213	1	0	0	0	0	0	0	0	1	10054	639	23	1		1	MYH3	17	10541627	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3302	10541627	70653583	743	106180											
ELAC2	60528	broad.mit.edu	37	chr17	12897751	12897751	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctttgctacctgtgtgtcTtttccactgcttcctcttcc	2	18	6	15	0	2	0	0	0	2	0	5	0	5	0	5	0	3	2	5	0	1	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:12897751T>G	uc002gnz.3	-	22	2194	c.2099A>C	c.(2098-2100)AAG>ACG	p.K700T	ELAC2_uc002gnu.3_Missense_Mutation_p.K97T|ELAC2_uc002gnv.3_Missense_Mutation_p.K328T|ELAC2_uc002gnw.3_Missense_Mutation_p.K356T|ELAC2_uc002gnx.3_Missense_Mutation_p.K460T|ELAC2_uc010vvo.1_Missense_Mutation_p.K498T|ELAC2_uc010vvp.1_Missense_Mutation_p.K681T|ELAC2_uc010vvq.1_Missense_Mutation_p.K699T|ELAC2_uc010vvr.1_Missense_Mutation_p.K660T	NM_018127	NP_060597	Q9BQ52	RNZ2_HUMAN	elaC homolog 2 isoform 1	700					tRNA processing	nucleus	endonuclease activity|metal ion binding|protein binding				0						CCTGTGTGTCTTTTCCACTGC	0.557									Hereditary_Prostate_Cancer				21	228					0	0	1	0	0		G	12897751	G	G	12897751	3	3	213	1	0	0	0	0	1	0	0	0	5055	1609	56	5	393	5	ELAC2	17	12897751	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2356124	12897751	68297459	744	106181											
TEKT3	64518	broad.mit.edu	37	chr17	15217493	15217493	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtcgtcgatccggtaagcCgtctgtttgtcactcaggtc	5	14	11	11	4	3	0	2	0	1	0	7	1	4	0	2	2	1	2	2	2	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:15217493C>T	uc002gon.2	-	6	976	c.789G>A	c.(787-789)ACG>ACA	p.T263T		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	263					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		TCCGGTAAGCCGTCTGTTTGT	0.557													13	28					0	0	1	0	0		T	15217493	T	T	15217493	2	4	213	1	0	0	0	0	0	0	0	1	15779	639	23	1		1	TEKT3	17	15217493	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2319742	15217493	65977717	745	106182											
ZNF624	57547	broad.mit.edu	37	chr17	16550695	16550695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaagatcttcatctggctggGtaacttcagggctctgatgg	8	12	13	8	0	5	2	2	1	3	1	5	3	5	2	0	4	1	3	0	4	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:16550695G>A	uc010cpi.1	-	3	184	c.101C>T	c.(100-102)ACC>ATC	p.T34I		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	34					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		ATCTGGCTGGGTAACTTCAGG	0.284													36	78					0	0	1	0	0		A	16550695	A	A	16550695	3	1	213	1	0	0	0	0	1	0	0	0	18073	1261	44	4	2512	4	ZNF624	17	16550695	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1333202	16550695	64644515	746	106183											
NT5M	56953	broad.mit.edu	37	chr17	17209922	17209922	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttgagcctctgccaggggcCgtggaagctgtcaaggagat	8	8	15	10	1	2	2	1	1	1	1	2	4	2	3	3	4	3	1	3	4	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:17209922C>T	uc002grf.2	+	2	518	c.333C>T	c.(331-333)GCC>GCT	p.A111A	NT5M_uc002gre.2_Silent_p.A111A|NT5M_uc002grg.2_Silent_p.A111A	NM_020201	NP_064586	Q9NPB1	NT5M_HUMAN	5',3'-nucleotidase, mitochondrial precursor	111					DNA replication|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	5'-nucleotidase activity|metal ion binding|nucleotide binding				0						TGCCAGGGGCCGTGGAAGCTG	0.493													42	103					0	0	1	0	0		T	17209922	T	T	17209922	2	4	213	1	0	0	0	0	0	0	0	1	10713	639	23	1		1	NT5M	17	17209922	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	659227	17209922	63985288	747	106184											
MYO15A	51168	broad.mit.edu	37	chr17	18023025	18023025	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccctttgatccggggtacaCctacggctacggctacgacg	7	8	11	15	5	0	1	0	1	0	0	1	2	1	1	4	4	4	3	4	4	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:18023025C>T	uc010vxh.1	+	2	1249	c.911C>T	c.(910-912)ACC>ATC	p.T304I		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	304	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCGGGGTACACCTACGGCTAC	0.627													33	87					0	0	1	0	0		T	18023025	T	T	18023025	3	4	213	1	0	0	0	0	1	0	0	0	10081	507	18	4	913	4	MYO15A	17	18023025	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	813103	18023025	63172185	748	106185											
MYO15A	51168	broad.mit.edu	37	chr17	18045519	18045519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcggcgattccgctctctgCgccacaagatcatcctgctg	7	9	10	15	4	2	1	1	0	1	1	5	2	4	1	3	1	3	2	3	1	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:18045519C>T	uc010vxh.1	+	23	6114	c.5776C>T	c.(5776-5778)CGC>TGC	p.R1926C		NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1926	Neck or regulatory domain.|IQ 2.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)	9	all_neural(463;0.228)					CCGCTCTCTGCGCCACAAGAT	0.597													9	23					0	0	1	0	0		T	18045519	T	T	18045519	3	4	213	1	0	0	0	0	1	0	0	0	10081	768	27	1	5862	1	MYO15A	17	18045519	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	22494	18045519	63149691	749	106186											
SMCR8	140775	broad.mit.edu	37	chr17	18219551	18219551	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acctggaggcccgtggcttcGtgaggccgttttgcatggct	4	11	15	11	3	0	1	0	1	0	0	1	2	0	2	3	5	1	4	3	5	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:18219551G>A	uc002gsy.3	+	1	958	c.448G>A	c.(448-450)GTG>ATG	p.V150M		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	150										central_nervous_system(1)	1						CCGTGGCTTCGTGAGGCCGTT	0.532													38	62					0	0	1	0	0		A	18219551	A	A	18219551	3	1	213	1	0	0	0	0	1	0	0	0	14817	1145	40	1	450	1	SMCR8	17	18219551	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	174032	18219551	62975659	750	106187											
SMCR8	140775	broad.mit.edu	37	chr17	18225952	18225952	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtggcctcccctgccggtgcCggtaccctccatgccctgag	3	8	12	18	2	0	1	0	1	0	0	2	1	2	1	8	3	4	1	8	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:18225952C>T	uc002gsy.3	+	2	2892	c.2382C>T	c.(2380-2382)GCC>GCT	p.A794A		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	794										central_nervous_system(1)	1						CTGCCGGTGCCGGTACCCTCC	0.637													16	65					0	0	1	0	0		T	18225952	T	T	18225952	2	4	213	1	0	0	0	0	0	0	0	1	14817	639	23	1		1	SMCR8	17	18225952	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6401	18225952	62969258	751	106188											
TNFAIP1	7126	broad.mit.edu	37	chr17	26671481	26671481	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgacaactccttgttggaggCcacaagccgtagccgcagcc	9	6	11	15	3	0	0	0	0	0	0	1	2	1	1	5	2	4	3	5	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:26671481C>T	uc002hax.1	+	7	825	c.806C>T	c.(805-807)GCC>GTC	p.A269V	TNFAIP1_uc002hay.2_Missense_Mutation_p.A269V|TNFAIP1_uc010waf.1_Missense_Mutation_p.A165V	NM_021137	NP_066960	Q13829	BACD2_HUMAN	tumor necrosis factor, alpha-induced protein 1	269					apoptosis|cell migration|DNA replication|embryo development|immune response|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|endosome|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		TTGTTGGAGGCCACAAGCCGT	0.592													16	32					0	0	1	0	0		T	26671481	T	T	26671481	3	4	213	1	0	0	0	0	1	0	0	0	16297	739	26	2	828	2	TNFAIP1	17	26671481	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8445529	26671481	54523729	752	106189											
NEK8	284086	broad.mit.edu	37	chr17	27064710	27064710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagggcagagaagtccgtggCccccagcaacacagggagca	12	2	14	13	1	0	1	0	0	0	1	1	3	1	2	3	3	3	3	3	3	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:27064710C>T	uc002hcp.2	+	6	845	c.845C>T	c.(844-846)GCC>GTC	p.A282V		NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	282						cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity	p.R282Q(1)		stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					AAGTCCGTGGCCCCCAGCAAC	0.597													32	62					0	0	1	0	0		T	27064710	T	T	27064710	3	4	213	1	0	0	0	0	1	0	0	0	10349	739	26	2	867	2	NEK8	17	27064710	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	393229	27064710	54130500	753	106190											
NEK8	284086	broad.mit.edu	37	chr17	27068189	27068189	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcaccctgtaaggtccaagGccttgagggcatcaagatgg	10	7	14	10	0	1	2	1	1	0	1	2	2	2	2	3	5	0	3	3	5	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:27068189G>A	uc002hcp.2	+	13	1826	c.1826G>A	c.(1825-1827)GGC>GAC	p.G609D	TRAF4_uc002hcq.1_5'Flank|TRAF4_uc002hcs.2_5'Flank	NM_178170	NP_835464	Q86SG6	NEK8_HUMAN	NIMA-related kinase 8	609	RCC1 4.					cytoplasm|primary cilium	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)|pancreas(1)|liver(1)|skin(1)	6	Lung NSC(42;0.0158)					AAGGTCCAAGGCCTTGAGGGC	0.582													28	50					0	0	1	0	0		A	27068189	A	A	27068189	3	1	213	1	0	0	0	0	1	0	0	0	10349	1203	42	2	1876	2	NEK8	17	27068189	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3479	27068189	54127021	754	106191											
MYO18A	399687	broad.mit.edu	37	chr17	27493332	27493332	+	Frame_Shift_Del	DEL	G	-	-																															ggtgggggcaggggcaccacGgggggcaggcgcaggtcgac																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:27493332delG	uc002hdt.1	-	2	785	c.627delC	c.(625-627)CCCfs	p.P209fs	MYO18A_uc010csa.1_Frame_Shift_Del_p.P209fs|MYO18A_uc002hdu.1_Frame_Shift_Del_p.P209fs	NM_078471	NP_510880	Q92614	MY18A_HUMAN	myosin 18A isoform a	209					anti-apoptosis|DNA metabolic process	ER-Golgi intermediate compartment|myosin complex	ATP binding|DNA binding|DNA-dependent ATPase activity|identical protein binding|motor activity				0			Epithelial(11;4.97e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000221)|all cancers(11;0.000234)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)			GGGGCACCACGGGGGGCAGGC	0.662													39	54	---	---	---	---						.	-	27493332	-	-	27493332	7	5	213	1	0	1	0	1	0	0	0	0	10083	1103	39	0	5701	0	MYO18A	17	27493332	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	425143	27493332	53701878	755	106192											
NF1	4763	broad.mit.edu	37	chr17	29509634	29509634	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttatcttgtgtccagaaaTaatccaggatatatccaaag	14	12	6	9	0	1	1	0	0	1	1	4	2	4	2	4	1	0	0	4	1	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:29509634T>C	uc002hgg.2	+	8	1172	c.839T>C	c.(838-840)ATA>ACA	p.I280T	NF1_uc002hge.1_Missense_Mutation_p.I280T|NF1_uc002hgf.1_Missense_Mutation_p.I280T|NF1_uc002hgh.2_Missense_Mutation_p.I280T|NF1_uc010csn.1_Missense_Mutation_p.I140T	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	280					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity			soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TGTCCAGAAATAATCCAGGAT	0.368			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)			8	16					0	0	1	0	0		C	29509634	C	C	29509634	3	2	213	1	0	0	0	0	1	0	0	0	10375	1406	49	3	869	3	NF1	17	29509634	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2016302	29509634	51685576	756	106193											
GPR179	440435	broad.mit.edu	37	chr17	36484278	36484278	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatcatttggagatttcCtaatggcctcagctcccaaa	10	13	7	11	0	2	1	2	0	0	1	4	2	4	1	3	2	1	2	3	2	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:36484278C>A	uc002hpz.2	-	11	5195	c.5174G>T	c.(5173-5175)AGG>ATG	p.R1725M		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1725	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TGGAGATTTCCTAATGGCCTC	0.547													4	77					0.00909568	0.00920063	1	1	0		A	36484278	A	A	36484278	3	1	213	1	0	0	0	0	1	0	0	0	6689	681	24	5	1933	5	GPR179	17	36484278	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6974644	36484278	44710932	757	106194											
FBXO47	494188	broad.mit.edu	37	chr17	37107906	37107906	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcataagaaattataaacgcGatggcactcaagttcatccc	15	9	7	10	2	2	1	2	0	0	1	3	2	3	1	1	1	1	3	1	1	6	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:37107906G>A	uc002hrc.2	-	6	744	c.544C>T	c.(544-546)CGC>TGC	p.R182C		NM_001008777	NP_001008777	Q5MNV8	FBX47_HUMAN	F-box protein 47	182											0						TTATAAACGCGATGGCACTCA	0.358													17	33					0	0	1	0	0		A	37107906	A	A	37107906	3	1	213	1	0	0	0	0	1	0	0	0	5770	1058	37	1	838	1	FBXO47	17	37107906	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	623628	37107906	44087304	758	106195											
KRTAP9-8	83901	broad.mit.edu	37	chr17	39394461	39394461	+	Frame_Shift_Del	DEL	A	-	-																															ctgccgcccaacttgctgtcAaaacacctgctgccagccca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:39394461delA	uc002hwh.3	+	1	192	c.158delA	c.(157-159)CAAfs	p.Q53fs	KRTAP9-9_uc010wfq.1_Intron	NM_031963	NP_114169	Q9BYQ0	KRA98_HUMAN	keratin associated protein 9.8	53	6.|15 X 5 AA repeats of C-C-[RQVSGE]- [SPSNQ]-[TASPI].					keratin filament				ovary(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			ACTTGCTGTCAAAACACCTGC	0.632													25	56	---	---	---	---						.	-	39394461	-	-	39394461	7	5	213	1	0	1	0	1	0	0	0	0	8592	130	5	0	160	0	KRTAP9-8	17	39394461	Frame_Shift_Del	DEL	A	TCGA-HU-A4H3-01A-21D-A25D-08	2286555	39394461	41800749	759	106196											
KRT34	3885	broad.mit.edu	37	chr17	39534393	39534393	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtggcgcatgggttgcagGggagcctaggaggacaagga	9	6	20	6	1	0	0	0	0	0	0	0	4	0	4	1	8	2	3	1	8	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:39534393G>T	uc002hwm.2	-	7	1241	c.1229C>A	c.(1228-1230)CCC>CAC	p.P410H		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	410	Tail.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)				TGGGTTGCAGGGGAGCCTAGG	0.483													7	23					0.0293803	0.0296055	1	1	0		T	39534393	T	T	39534393	3	4	213	1	0	0	0	0	1	0	0	0	8487	1232	43	5	85	5	KRT34	17	39534393	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	139932	39534393	41660817	760	106197											
CCR10	2826	broad.mit.edu	37	chr17	40832555	40832555	+	Silent	SNP	A	G	G	1	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	gcccggctgaaggcctggacAtcggccttgtagcaaagctc	8	7	13	13	2	0	1	0	1	0	0	2	2	0	2	3	4	2	4	3	4	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:40832555A>G	uc002iax.3	-	2	109	c.105T>C	c.(103-105)GAT>GAC	p.D35D	CNTNAP1_uc002iay.2_5'Flank|CNTNAP1_uc010wgs.1_5'Flank	NM_016602	NP_057686	P46092	CCR10_HUMAN	CC chemokine receptor 10	35	Extracellular (Potential).					integral to plasma membrane					0		Breast(137;0.000153)		BRCA - Breast invasive adenocarcinoma(366;0.14)		AGGCCTGGACATCGGCCTTGT	0.637													18	23					0	0	1	0	0		G	40832555	G	G	40832555	2	3	213	1	0	0	0	0	0	0	0	1	2943	214	8	3		3	CCR10	17	40832555	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1298162	40832555	40362655	761	106198											
BRCA1	672	broad.mit.edu	37	chr17	41243800	41243800	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgttcttagacagacactCggtagcaacggtgctatgcc	9	11	11	10	2	1	2	0	0	1	2	2	2	1	2	1	2	4	4	1	2	4	4	rs28897686	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:41243800C>T	uc002icq.2	-	10	3980	c.3748G>A	c.(3748-3750)GAG>AAG	p.E1250K	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.E1179K|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.E1203K|BRCA1_uc002ict.2_Missense_Mutation_p.E1250K|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.E1250K|BRCA1_uc002ide.1_Missense_Mutation_p.E1081K|BRCA1_uc010cyy.1_Missense_Mutation_p.E1250K|BRCA1_uc010whs.1_Missense_Mutation_p.E1250K|BRCA1_uc010cyz.2_Missense_Mutation_p.E1203K|BRCA1_uc010cza.2_Missense_Mutation_p.E1224K|BRCA1_uc010wht.1_Missense_Mutation_p.E954K	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	1250					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GACAGACACTCGGTAGCAACG	0.398			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			36	92					0	0	1	0	0		T	41243800	T	T	41243800	3	4	213	1	0	0	0	0	1	0	0	0	1501	893	31	1	1969	1	BRCA1	17	41243800	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	411245	41243800	39951410	762	106199											
C1QL1	10882	broad.mit.edu	37	chr17	43045010	43045010	+	Missense_Mutation	SNP	A	C	C	1	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	aaccctcgtgggggttcttgAggccggcgtagaaggccacg	7	7	16	11	4	1	2	0	1	1	1	2	2	1	2	3	5	1	2	3	5	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:43045010A>C	uc002ihv.2	-	1	635	c.407T>G	c.(406-408)CTC>CGC	p.L136R		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	136	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				GGGGTTCTTGAGGCCGGCGTA	0.473													33	53					0	0	1	0	0		C	43045010	C	C	43045010	3	2	213	1	0	0	0	0	1	0	0	0	1961	304	11	5	377	5	C1QL1	17	43045010	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1801210	43045010	38150200	763	106200											
NMT1	4836	broad.mit.edu	37	chr17	43174504	43174504	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctcttttccagggctctccGgccacccggctggctccccc	2	10	9	20	2	2	0	0	0	2	0	6	0	4	0	6	4	0	3	6	4	0	2	rs150418753		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:43174504G>A	uc002ihz.2	+	6	623	c.605G>A	c.(604-606)CGG>CAG	p.R202Q	NMT1_uc002iia.2_RNA	NM_021079	NP_066565	P30419	NMT1_HUMAN	N-myristoyltransferase 1	202					activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals|N-terminal protein myristoylation|protein lipoylation	actin cytoskeleton|cell junction|cytosol	glycylpeptide N-tetradecanoyltransferase activity				0		Prostate(33;0.155)				AGGGCTCTCCGGCCACCCGGC	0.602											OREG0024469	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	43	76					0	0	1	0	0		A	43174504	A	A	43174504	3	1	213	1	0	0	0	0	1	0	0	0	10522	1116	39	1	627	1	NMT1	17	43174504	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	129494	43174504	38020706	764	106201											
CRHR1	1394	broad.mit.edu	37	chr17	43907506	43907506	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactggaacctcatctccGccttcatcctgcgcaacgcc	7	9	6	19	3	3	0	2	0	1	0	6	1	5	1	6	1	3	1	6	1	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:43907506G>A	uc010dap.2	+	7	833	c.568G>A	c.(568-570)GCC>ACC	p.A190T	CRHR1_uc010wjx.1_5'UTR|CRHR1_uc002ijp.2_Missense_Mutation_p.A60T|CRHR1_uc002ijm.2_Missense_Mutation_p.A161T|CRHR1_uc002ijn.2_Missense_Mutation_p.A121T|CRHR1_uc010dar.2_Missense_Mutation_p.A161T|CRHR1_uc010dao.2_Missense_Mutation_p.A60T|CRHR1_uc010daq.2_Intron|CRHR1_uc010das.1_RNA|CRHR1_uc002ijo.1_RNA	NM_001145146	NP_001138618	P34998	CRFR1_HUMAN	corticotropin releasing hormone receptor 1	190	Helical; Name=2; (Potential).				female pregnancy|immune response|parturition	integral to plasma membrane	corticotrophin-releasing factor receptor activity|protein binding			lung(3)	3	Colorectal(2;0.0416)			BRCA - Breast invasive adenocarcinoma(366;0.161)		CCTCATCTCCGCCTTCATCCT	0.627													35	44					0	0	1	0	0		A	43907506	A	A	43907506	3	1	213	1	0	0	0	0	1	0	0	0	3874	1087	38	1	594	1	CRHR1	17	43907506	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	733002	43907506	37287704	765	106202											
CBX1	10951	broad.mit.edu	37	chr17	46154279	46154279	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cactttgccctttaccactcGacggtcgagaactttttcca	8	13	6	14	3	0	1	0	0	0	1	3	3	1	1	3	1	3	0	3	1	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:46154279G>A	uc002ind.3	-	2	569	c.88C>T	c.(88-90)CGA>TGA	p.R30*	CBX1_uc002ine.3_Nonsense_Mutation_p.R30*	NM_006807	NP_006798	P83916	CBX1_HUMAN	heterochromatin protein 1-beta	30	Chromo 1.					nuclear heterochromatin|nucleoplasm|spindle	chromatin binding|enzyme binding				0						TTTACCACTCGACGGTCGAGA	0.473													29	75					0	0	1	0	0		A	46154279	A	A	46154279	4	1	213	1	0	0	0	0	0	1	0	0	2720	1066	37	1	485	1	CBX1	17	46154279	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2246773	46154279	35040931	766	106203											
SNX11	29916	broad.mit.edu	37	chr17	46196139	46196139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattgagaagcgacgacaaGgtctgcagcacttccttgaa	12	9	10	10	2	2	2	1	2	1	1	3	5	3	2	1	1	3	2	1	1	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:46196139G>A	uc002inf.1	+	6	658	c.304G>A	c.(304-306)GGT>AGT	p.G102S	SNX11_uc010wlg.1_Missense_Mutation_p.G94S|SNX11_uc010wlh.1_Missense_Mutation_p.G94S|SNX11_uc010wli.1_Missense_Mutation_p.G41S|SNX11_uc010wlj.1_5'UTR|SNX11_uc002ing.1_Missense_Mutation_p.G102S|SNX11_uc002inh.1_Missense_Mutation_p.G102S	NM_152244	NP_689450	Q9Y5W9	SNX11_HUMAN	sorting nexin 11	102	PX.				cell communication|protein transport	membrane	phosphatidylinositol binding				0						GCGACGACAAGGTCTGCAGCA	0.552													19	31					0	0	1	0	0		A	46196139	A	A	46196139	3	1	213	1	0	0	0	0	1	0	0	0	14907	1000	35	4	318	4	SNX11	17	46196139	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	41860	46196139	34999071	767	106204											
XYLT2	64132	broad.mit.edu	37	chr17	48437479	48437479	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcacaggccctgcgctcGaggcctggacagacagggaa	10	4	14	13	2	1	1	1	0	0	1	2	4	1	3	2	4	2	2	2	4	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:48437479G>A	uc002iqo.2	+	11	2534	c.2425G>A	c.(2425-2427)GAG>AAG	p.E809K	XYLT2_uc010dbo.2_RNA	NM_022167	NP_071450	Q9H1B5	XYLT2_HUMAN	xylosyltransferase II	809	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			pancreas(1)	1	Breast(11;7.18e-19)					CCCTGCGCTCGAGGCCTGGAC	0.662													13	25					0	0	1	0	0		A	48437479	A	A	48437479	3	1	213	1	0	0	0	0	1	0	0	0	17490	1059	37	1	2467	1	XYLT2	17	48437479	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2241340	48437479	32757731	768	106205											
SPATA20	64847	broad.mit.edu	37	chr17	48629529	48629529	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgggggctggcctgcccctgCgtctgaaggacggtcagtgg	4	8	18	11	2	2	1	1	1	1	0	2	2	2	2	3	6	2	1	3	6	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:48629529C>T	uc002irf.2	+	13	2038	c.1897C>T	c.(1897-1899)CGT>TGT	p.R633C	SPATA20_uc002irc.2_Missense_Mutation_p.R300C|SPATA20_uc002ire.2_Missense_Mutation_p.R589C|SPATA20_uc002ird.2_Missense_Mutation_p.R649C|SPATA20_uc002irg.2_RNA	NM_022827	NP_073738	Q8TB22	SPT20_HUMAN	spermatogenesis associated 20	633					cell differentiation|mannose metabolic process|multicellular organismal development|spermatogenesis	extracellular region	mannose-6-phosphate isomerase activity|protein binding				0	Breast(11;1.23e-18)		BRCA - Breast invasive adenocarcinoma(22;9.38e-09)			CCTGCCCCTGCGTCTGAAGGA	0.657													13	25					0	0	1	0	0		T	48629529	T	T	48629529	3	4	213	1	0	0	0	0	1	0	0	0	15031	768	27	1	1999	1	SPATA20	17	48629529	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	192050	48629529	32565681	769	106206											
MKS1	54903	broad.mit.edu	37	chr17	56284534	56284534	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	tcctcagctcagccaccgtgCcaagctccacaggtctccac	8	7	7	19	1	3	0	2	0	1	0	6	0	5	0	6	1	4	2	6	1	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:56284534C>T	uc002ivr.1	-	15	1394	c.1319G>A	c.(1318-1320)GGC>GAC	p.G440D	MKS1_uc010wnq.1_Missense_Mutation_p.G237D|MKS1_uc002ivs.1_Intron	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	440					cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						AGCCACCGTGCCAAGCTCCAC	0.572													5	102					0	0	1	0	0		T	56284534	T	T	56284534	3	4	213	1	0	0	0	0	1	0	0	0	9627	739	26	2	376	2	MKS1	17	56284534	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7655005	56284534	24910676	770	106207											
BZRAP1	9256	broad.mit.edu	37	chr17	56386607	56386607	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgacttctcctcctcctcGtcctcctcttcctcttcctc	1	16	2	22	1	3	1	0	1	3	0	12	1	9	1	8	0	0	0	8	0	0	3	rs148608257	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:56386607G>A	uc002ivx.3	-	22	4897	c.4026C>T	c.(4024-4026)GAC>GAT	p.D1342D	BZRAP1_uc002ivw.2_5'Flank|BZRAP1_uc010dcs.2_Silent_p.D1282D|BZRAP1_uc010wnt.1_Silent_p.D1342D	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1342	Poly-Glu.					mitochondrion	benzodiazepine receptor binding			upper_aerodigestive_tract(2)|skin(1)	3	Medulloblastoma(34;0.127)|all_neural(34;0.237)					cctcctcctcgtcctcctctt	0.473													34	37					0	0	1	0	0		A	56386607	A	A	56386607	2	1	213	1	0	0	0	0	0	0	0	1	1580	1136	40	1		1	BZRAP1	17	56386607	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	102073	56386607	24808603	771	106208											
SMARCD2	6603	broad.mit.edu	37	chr17	61911635	61911635	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgatggcggccctcgtctgCgtgtgcactcccagcagcct	5	9	12	15	3	1	1	0	1	1	0	3	1	2	1	3	2	4	2	3	2	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:61911635C>T	uc010deb.1	-	8	1292	c.975G>A	c.(973-975)ACG>ACA	p.T325T	SMARCD2_uc010wpt.1_Silent_p.T277T|SMARCD2_uc010dea.1_Silent_p.T250T|SMARCD2_uc010dec.1_Silent_p.T304T	NM_001098426	NP_001091896	Q92925	SMRD2_HUMAN	SWI/SNF-related matrix-associated	325	SWIB.				chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity				0						CCCTCGTCTGCGTGTGCACTC	0.567											OREG0024642	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	10					0	0	1	0	0		T	61911635	T	T	61911635	2	4	213	1	0	0	0	0	0	0	0	1	14803	755	27	1		1	SMARCD2	17	61911635	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5525028	61911635	19283575	772	106209											
GH2	2689	broad.mit.edu	37	chr17	61958199	61958199	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	agacgttgctgtccgaggcgCcatacaccaggctgttggcg	7	8	14	12	4	0	1	0	0	0	1	1	2	1	1	3	3	2	4	3	3	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:61958199C>T	uc002jco.1	-	4	451	c.389G>A	c.(388-390)GGC>GAC	p.G130D	GH2_uc002jcj.2_Missense_Mutation_p.G130D|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Missense_Mutation_p.G130D|GH2_uc002jcm.1_Missense_Mutation_p.G130D|GH2_uc002jcn.1_Missense_Mutation_p.G115D	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	130						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						GTCCGAGGCGCCATACACCAG	0.612													41	58					0	0	1	0	0		T	61958199	T	T	61958199	3	4	213	1	0	0	0	0	1	0	0	0	6383	739	26	2	609	2	GH2	17	61958199	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	46564	61958199	19237011	773	106210											
CCDC45	90799	broad.mit.edu	37	chr17	62523312	62523312	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggaaatgaggaggtagaggaTggaactgaggagacactgtc	14	6	17	4	0	0	4	0	2	0	2	1	9	0	8	0	6	1	1	0	6	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:62523312T>G	uc002jem.2	+	11	1294	c.1236T>G	c.(1234-1236)GAT>GAG	p.D412E	CCDC45_uc002jen.2_RNA|CCDC45_uc010wqb.1_Missense_Mutation_p.D248E	NM_138363	NP_612372	Q96GE4	CEP95_HUMAN	coiled-coil domain containing 45	412						centrosome|spindle pole	protein binding				0	Breast(5;1.32e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			AGGTAGAGGATGGAACTGAGG	0.448													13	28					0	0	1	0	0		G	62523312	G	G	62523312	3	3	213	1	0	0	0	0	1	0	0	0	2819	1461	51	5	1278	5	CCDC45	17	62523312	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	565113	62523312	18671898	774	106211											
SOX9	6662	broad.mit.edu	37	chr17	70120416	70120416	+	Missense_Mutation	SNP	A	G	G	1	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	cacctacatgaaccccgctcAgcgccccatgtacaccccca	10	5	5	21	2	1	1	1	1	0	0	1	1	1	1	7	0	4	2	7	0	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:70120416A>G	uc002jiw.2	+	3	1790	c.1418A>G	c.(1417-1419)CAG>CGG	p.Q473R		NM_000346	NP_000337	P48436	SOX9_HUMAN	transcription factor SOX9	473					cAMP-mediated signaling|negative regulation of transcription, DNA-dependent|positive regulation of branching involved in ureteric bud morphogenesis|protein complex assembly|renal vesicle induction	nucleus|protein complex	core promoter sequence-specific DNA binding|enhancer binding|protein kinase A catalytic subunit binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription				0		Colorectal(1115;0.245)	STAD - Stomach adenocarcinoma(260;0.119)			AACCCCGCTCAGCGCCCCATG	0.637													31	71					0	0	1	0	0		G	70120416	G	G	70120416	3	3	213	1	0	0	0	0	1	0	0	0	14983	188	7	3	1428	3	SOX9	17	70120416	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	7597104	70120416	11074794	775	106212											
GALR2	8811	broad.mit.edu	37	chr17	74073226	74073226	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtcaaccccatcgtttacgCgctggtctccaagcacttcc	7	10	7	17	4	2	0	1	0	1	0	5	0	3	0	4	1	3	3	4	1	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:74073226C>T	uc002jqm.1	+	2	959	c.878C>T	c.(877-879)GCG>GTG	p.A293V	ZACN_uc002jqn.2_5'Flank|ZACN_uc002jqo.2_5'Flank|ZACN_uc010dgu.2_5'Flank	NM_003857	NP_003848	O43603	GALR2_HUMAN	galanin receptor 2	293	Cytoplasmic (Potential).				digestion|elevation of cytosolic calcium ion concentration|feeding behavior|learning or memory|muscle contraction	integral to membrane|plasma membrane	galanin receptor activity				0						ATCGTTTACGCGCTGGTCTCC	0.677													19	16					0	0	1	0	0		T	74073226	T	T	74073226	3	4	213	1	0	0	0	0	1	0	0	0	6243	768	27	1	884	1	GALR2	17	74073226	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3952810	74073226	7121984	776	106213											
QRICH2	84074	broad.mit.edu	37	chr17	74272799	74272799	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctggcagccttgtgtccatcCgtcccttgtaaatgtggcca	6	12	10	13	1	0	0	0	0	0	0	3	0	3	0	5	2	1	2	5	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:74272799C>T	uc002jrd.1	-	17	4997	c.4817G>A	c.(4816-4818)CGG>CAG	p.R1606Q	QRICH2_uc010wsz.1_Intron|QRICH2_uc010dgw.1_Missense_Mutation_p.R450Q	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	1606							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						TGTGTCCATCCGTCCCTTGTA	0.592													18	50					0	0	1	0	0		T	74272799	T	T	74272799	3	4	213	1	0	0	0	0	1	0	0	0	12905	652	23	1	186	1	QRICH2	17	74272799	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	199573	74272799	6922411	777	106214											
UBE2O	63893	broad.mit.edu	37	chr17	74395743	74395743	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgctctgccgagtgcagcCtgtcatctctgccttctttt	3	15	8	15	1	4	0	1	0	3	0	5	1	4	0	4	0	5	2	4	0	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:74395743C>A	uc002jrm.3	-	9	1480	c.1415G>T	c.(1414-1416)AGG>ATG	p.R472M	UBE2O_uc002jrn.3_Missense_Mutation_p.R472M|UBE2O_uc002jrl.3_Missense_Mutation_p.R75M	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	472							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						CGAGTGCAGCCTGTCATCTCT	0.612													4	74					0.00024832	0.000254861	1	1	0		A	74395743	A	A	74395743	3	1	213	1	0	0	0	0	1	0	0	0	16894	681	24	5	2503	5	UBE2O	17	74395743	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	122944	74395743	6799467	778	106215											
UBE2O	63893	broad.mit.edu	37	chr17	74396252	74396252	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggccatagagccctccccCtgggcgcagtttttttctgg	4	13	11	13	1	1	1	0	0	1	1	2	1	2	1	4	3	1	2	4	3	1	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:74396252C>T	uc002jrm.3	-	8	1196	c.1131G>A	c.(1129-1131)CAG>CAA	p.Q377Q	UBE2O_uc002jrn.3_Silent_p.Q377Q|UBE2O_uc002jrl.3_5'Flank	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	377							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						AGCCCTCCCCCTGGGCGCAGT	0.562													18	57					0	0	1	0	0		T	74396252	T	T	74396252	2	4	213	1	0	0	0	0	0	0	0	1	16894	680	24	4		4	UBE2O	17	74396252	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	509	74396252	6798958	779	106216											
SEPT9	10801	broad.mit.edu	37	chr17	75484868	75484868	+	Missense_Mutation	SNP	T	A	A	0	1	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	gaaatacctgcaggaggaggTcaacatcaaccgcaagaagc	16	4	11	10	1	2	1	2	0	0	1	2	4	2	3	2	3	5	2	2	3	6	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:75484868T>A	uc002jts.3	+	7	1310	c.1184T>A	c.(1183-1185)GTC>GAC	p.V395D	SEPT9_uc010wtk.1_Missense_Mutation_p.V376D|SEPT9_uc002jtt.3_Missense_Mutation_p.V231D|SEPT9_uc002jtu.3_Missense_Mutation_p.V377D|SEPT9_uc002jtv.2_Missense_Mutation_p.V388D|SEPT9_uc002jtw.2_Missense_Mutation_p.V231D|SEPT9_uc010wtl.1_Missense_Mutation_p.V171D|SEPT9_uc002jty.3_Missense_Mutation_p.V144D|SEPT9_uc010wtm.1_Missense_Mutation_p.V144D|SEPT9_uc010wtn.1_Missense_Mutation_p.V144D|SEPT9_uc010dhd.2_Missense_Mutation_p.V283D	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	395					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			CAGGAGGAGGTCAACATCAAC	0.602													14	65					0	0	1	0	0		A	75484868	A	A	75484868	3	1	213	1	0	0	0	0	1	0	0	0	14096	1667	58	5	1684	5	SEPT9	17	75484868	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1088616	75484868	5710342	780	106217											
CCDC40	55036	broad.mit.edu	37	chr17	78021186	78021186	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcagacctggaggagttcGtctcgcaggagccaggtgcc	7	7	14	13	2	2	1	1	0	1	1	4	4	2	4	4	4	2	2	4	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:78021186G>A	uc010dht.2	+	4	688	c.661G>A	c.(661-663)GTC>ATC	p.V221I	CCDC40_uc010wub.1_Missense_Mutation_p.V221I|CCDC40_uc002jxm.3_5'Flank	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40	221					axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GGAGGAGTTCGTCTCGCAGGA	0.657											OREG0031512	type=REGULATORY REGION|TFbs=ESR1|Dataset=Estrogen Receptor Alpha Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	6	12					0	0	1	0	0		A	78021186	A	A	78021186	3	1	213	1	0	0	0	0	1	0	0	0	2815	1145	40	1	675	1	CCDC40	17	78021186	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2536318	78021186	3174024	781	106218											
RNF213	57674	broad.mit.edu	37	chr17	78341576	78341576	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agagaactctgacgtgaagaCgcacgggccttttgaggccg	10	7	14	10	4	1	5	0	3	1	2	1	6	1	5	2	2	1	1	2	2	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:78341576C>T	uc002jyh.1	+	18	6342	c.6119C>T	c.(6118-6120)ACG>ATG	p.T2040M	uc002jyi.1_Intron|RNF213_uc010dhw.1_Missense_Mutation_p.T422M	NM_020914	NP_065965	Q9HCF4	ALO17_HUMAN	ring finger protein 213	Error:Variant_position_missing_in_Q9HCF4_after_alignment										ovary(8)|lung(6)|breast(3)|large_intestine(2)|central_nervous_system(1)|pancreas(1)	21	all_neural(118;0.0538)		BRCA - Breast invasive adenocarcinoma(99;0.0252)|OV - Ovarian serous cystadenocarcinoma(97;0.057)			GACGTGAAGACGCACGGGCCT	0.592													26	41					0	0	1	0	0		T	78341576	T	T	78341576	3	4	213	1	0	0	0	0	1	0	0	0	13502	536	19	1	12385	1	RNF213	17	78341576	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	320390	78341576	2853634	782	106219											
BAHCC1	57597	broad.mit.edu	37	chr17	79412060	79412060	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggatgtcatggaccaggcGtcactgtggccccccatgta	7	8	13	13	2	2	0	2	0	0	0	2	2	2	2	4	4	0	1	4	4	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:79412060G>A	uc002kaf.2	+	7	2691	c.2691G>A	c.(2689-2691)GCG>GCA	p.A897A	BAHCC1_uc002kae.2_Silent_p.A96A	NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	897	Pro-rich.						DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			TGGACCAGGCGTCACTGTGGC	0.721													5	6					0	0	1	0	0		A	79412060	A	A	79412060	2	1	213	1	0	0	0	0	0	0	0	1	1297	1132	40	1		1	BAHCC1	17	79412060	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1070484	79412060	1783150	783	106220											
ARL16	339231	broad.mit.edu	37	chr17	79649138	79649138	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agacctaagagctgcacacaGgatgcagagagctgggtggg	12	5	16	8	0	0	3	0	0	0	3	0	5	0	4	1	3	4	4	1	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:79649138G>A	uc002kbf.2	-	4	447	c.348C>T	c.(346-348)TCC>TCT	p.S116S	ARL16_uc002kbe.2_Silent_p.S45S|HGS_uc010wus.1_5'Flank|HGS_uc002kbg.2_5'Flank	NM_001040025	NP_001035114	Q0P5N6	ARL16_HUMAN	ADP-ribosylation factor-like 16	116							GTP binding				0	all_neural(118;0.0878)|all_lung(278;0.23)		BRCA - Breast invasive adenocarcinoma(99;0.0101)|OV - Ovarian serous cystadenocarcinoma(97;0.0739)			GCTGCACACAGGATGCAGAGA	0.537													7	20					0	0	1	0	0		A	79649138	A	A	79649138	2	1	213	1	0	0	0	0	0	0	0	1	932	987	35	4		4	ARL16	17	79649138	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	237078	79649138	1546072	784	106221											
PCYT2	5833	broad.mit.edu	37	chr17	79862799	79862799	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tccttggcttccttcttctgGtttcgcgcctcatactccaa	4	16	6	15	2	3	0	1	0	2	0	7	0	6	0	4	2	1	2	4	2	2	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:79862799G>A	uc002kcf.1	-	13	1143	c.1080C>T	c.(1078-1080)AAC>AAT	p.N360N	PCYT2_uc010wva.1_Silent_p.N328N|PCYT2_uc010wvb.1_Silent_p.N328N|PCYT2_uc002kce.1_Silent_p.N282N|PCYT2_uc002kcg.1_Silent_p.N389N|PCYT2_uc002kch.1_Silent_p.N378N|PCYT2_uc002kci.1_Silent_p.N319N|PCYT2_uc010dii.1_Silent_p.N338N|PCYT2_uc010wvc.1_Silent_p.N282N	NM_002861	NP_002852	Q99447	PCY2_HUMAN	phosphate cytidylyltransferase 2, ethanolamine	360					phospholipid biosynthetic process		ethanolamine-phosphate cytidylyltransferase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.013)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCTTCTTCTGGTTTCGCGCCT	0.637													14	10					0	0	1	0	0		A	79862799	A	A	79862799	2	1	213	1	0	0	0	0	0	0	0	1	11631	1252	44	4		4	PCYT2	17	79862799	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	213661	79862799	1332411	785	106222											
FASN	2194	broad.mit.edu	37	chr17	80044378	80044378	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ctgggccccatccagtccggGcaccaccatcttcagcccct	6	7	8	20	1	2	0	1	0	1	0	4	0	4	0	8	2	1	1	8	2	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:80044378G>A	uc002kdu.2	-	22	3601	c.3484C>T	c.(3484-3486)CCC>TCC	p.P1162S	FASN_uc002kdw.1_Missense_Mutation_p.P378S	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	1162					energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	TCCAGTCCGGGCACCACCATC	0.677													13	30					0	0	1	0	0		A	80044378	A	A	80044378	3	1	213	1	0	0	0	0	1	0	0	0	5697	1203	42	2	4139	2	FASN	17	80044378	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	181579	80044378	1150832	786	106223											
FASN	2194	broad.mit.edu	37	chr17	80046321	80046321	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgttggggaagtcctcggcGgccggcacgtcccaggccag	5	5	16	15	5	0	0	0	0	0	0	3	1	2	1	5	6	0	2	5	6	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:80046321G>A	uc002kdu.2	-	16	2655	c.2538C>T	c.(2536-2538)GCC>GCT	p.A846A	FASN_uc002kdw.1_Silent_p.A62A	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	846					energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	AGTCCTCGGCGGCCGGCACGT	0.657													14	32					0	0	1	0	0		A	80046321	A	A	80046321	2	1	213	1	0	0	0	0	0	0	0	1	5697	1103	39	1		1	FASN	17	80046321	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1943	80046321	1148889	787	106224											
FN3K	64122	broad.mit.edu	37	chr17	80708494	80708494	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcttcaccgcctaccacCggaagatccccaaggctccg	8	7	7	19	3	2	1	1	0	1	1	4	2	4	2	8	2	1	1	8	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:80708494C>T	uc010wvs.1	+	6	854	c.793C>T	c.(793-795)CGG>TGG	p.R265W	TBCD_uc002kfx.1_5'Flank|TBCD_uc002kfy.1_5'Flank|TBCD_uc002kfz.2_5'Flank	NM_022158	NP_071441	Q9H479	FN3K_HUMAN	fructosamine 3 kinase	265					fructoselysine metabolic process		fructosamine-3-kinase activity				0	Breast(20;0.000523)|all_neural(118;0.0952)		BRCA - Breast invasive adenocarcinoma(99;0.0344)|OV - Ovarian serous cystadenocarcinoma(97;0.061)			CGCCTACCACCGGAAGATCCC	0.567													69	158					0	0	1	0	0		T	80708494	T	T	80708494	3	4	213	1	0	0	0	0	1	0	0	0	5977	643	23	1	815	1	FN3K	17	80708494	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	662173	80708494	486716	788	106225											
TBCD	6904	broad.mit.edu	37	chr17	80721910	80721911	+	Frame_Shift_Ins	INS	-	T	T																															gcttcccttgtacatctggcINSttttaaatttctttacatca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr17:80721910_80721911insT	uc002kfz.2	+	3	435_436	c.305_306insT	c.(304-306)GCTfs	p.A102fs	TBCD_uc002kfx.1_Frame_Shift_Ins_p.A85fs|TBCD_uc002kfy.1_Frame_Shift_Ins_p.A102fs	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	102					'de novo' posttranslational protein folding|adherens junction assembly|negative regulation of cell-substrate adhesion|negative regulation of microtubule polymerization|post-chaperonin tubulin folding pathway|tight junction assembly	adherens junction|cytoplasm|lateral plasma membrane|microtubule|tight junction	beta-tubulin binding|chaperone binding|GTPase activator activity				0	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0266)|all_epithelial(8;0.0696)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.18)			GTACATCTGGCTTTTAAATTTC	0.376													15	13	---	---	---	---						.	T	80721911	T	T	80721910	7	5	213	1	0	1	1	0	0	0	0	0	15658	797	28	0	315	0	TBCD	17	80721910	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	13416	80721910	473300	789	106226											
LAMA1	284217	broad.mit.edu	37	chr18	7043243	7043243	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tactttgtgtggtctataatAtccatcaatacaggtttcac	11	16	6	8	0	3	0	2	0	1	0	4	0	4	0	1	2	2	1	1	2	6	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:7043243A>G	uc002knm.2	-	8	1232	c.1138T>C	c.(1138-1140)TAT>CAT	p.Y380H	LAMA1_uc010wzj.1_5'UTR	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	380	Laminin EGF-like 2.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGTCTATAATATCCATCAATA	0.403													14	170					0	0	1	0	0		G	7043243	G	G	7043243	3	3	213	1	0	0	0	0	1	0	0	0	8621	449	16	3	8313	3	LAMA1	18	7043243	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08		7043243	71034005	790	106227											
PTPRM	5797	broad.mit.edu	37	chr18	8113519	8113519	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttgaggaagaacgtcctcGaagaactaaaaagacgacag	17	6	11	7	3	0	4	0	1	0	3	2	7	1	5	1	1	2	1	1	1	7	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:8113519G>A	uc002knn.3	+	12	2395	c.1892G>A	c.(1891-1893)CGA>CAA	p.R631Q	PTPRM_uc010dkv.2_Missense_Mutation_p.R631Q|PTPRM_uc010wzl.1_Missense_Mutation_p.R418Q	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	631	Fibronectin type-III 4.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GAACGTCCTCGAAGAACTAAA	0.388													27	40					0	0	1	0	0		A	8113519	A	A	8113519	3	1	213	1	0	0	0	0	1	0	0	0	12831	1058	37	1	1938	1	PTPRM	18	8113519	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1070276	8113519	69963729	791	106228											
KIAA0802	23255	broad.mit.edu	37	chr18	8825585	8825585	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcggtgctacacccgtgtcGtctccttcccggagccttag	4	10	12	15	4	1	0	0	0	1	0	4	1	2	1	4	3	3	1	4	3	2	3	rs148473485		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:8825585G>A	uc002knr.2	+	15	4219	c.4077G>A	c.(4075-4077)TCG>TCA	p.S1359S	KIAA0802_uc002knq.2_Silent_p.S1318S|KIAA0802_uc002kns.2_Silent_p.S699S	NM_015210	NP_056025	Q9Y4B5	CC165_HUMAN	hypothetical protein LOC23255	1669											0						CACCCGTGTCGTCTCCTTCCC	0.622													11	14					0	0	1	0	0		A	8825585	A	A	8825585	2	1	213	1	0	0	0	0	0	0	0	1	8210	1132	40	1		1	KIAA0802	18	8825585	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	712066	8825585	69251663	792	106229											
ROCK1	6093	broad.mit.edu	37	chr18	18629104	18629105	+	Frame_Shift_Ins	INS	-	A	A																															tgatgtccctttcttcccagINSaaaaaagcagaatcagatct																								rs35810558		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:18629104_18629105insA	uc002kte.2	-	4	1303_1304	c.362_363insT	c.(361-363)TTCfs	p.F121fs		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	121	Protein kinase.				actin cytoskeleton organization|axon guidance|cellular component disassembly involved in apoptosis|cytokinesis|leukocyte tethering or rolling|membrane to membrane docking|Rho protein signal transduction	centriole|cytosol|Golgi membrane	ATP binding|identical protein binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|breast(2)|central_nervous_system(1)	5	Melanoma(1;0.165)					TTTCTTCCCAGAAAAAAGCAGA	0.361													35	48	---	---	---	---						.	A	18629105	A	A	18629104	7	5	213	1	0	1	1	0	0	0	0	0	13542	933	33	0	3821	0	ROCK1	18	18629104	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	9803519	18629104	59448144	793	106230											
SLC14A2	8170	broad.mit.edu	37	chr18	43207048	43207048	+	Missense_Mutation	SNP	A	G	G	1	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	tgatccagaatccctggtggAcaatcactgggggcctgggg	8	8	15	10	0	1	2	1	1	0	1	3	3	3	3	3	6	0	0	3	6	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:43207048A>G	uc010dnj.2	+	5	778	c.457A>G	c.(457-459)ACA>GCA	p.T153A	SLC14A2_uc002lbb.2_Missense_Mutation_p.T153A|SLC14A2_uc002lbe.2_Missense_Mutation_p.T153A	NM_007163	NP_009094	Q15849	UT2_HUMAN	solute carrier family 14 (urea transporter),	153	Helical; (Potential).					apical plasma membrane|integral to membrane|membrane fraction	protein binding|urea transmembrane transporter activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)|skin(1)	4						TCCCTGGTGGACAATCACTGG	0.552													23	132					0	0	1	0	0		G	43207048	G	G	43207048	3	3	213	1	0	0	0	0	1	0	0	0	14422	275	10	3	467	3	SLC14A2	18	43207048	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	24577944	43207048	34870200	794	106231											
SMAD2	4087	broad.mit.edu	37	chr18	45395727	45395727	+	Missense_Mutation	SNP	T	A	A	0	1	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	gttcatgatgactgtgaagaTcaggccagcgccataatcgg	11	9	12	9	2	2	4	2	3	0	1	3	4	2	4	2	2	1	1	2	2	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:45395727T>A	uc002lcy.2	-	4	655	c.407A>T	c.(406-408)GAT>GTT	p.D136V	SMAD2_uc002lcz.2_Missense_Mutation_p.D136V|SMAD2_uc010xdc.1_Missense_Mutation_p.D106V|SMAD2_uc010xdd.1_Missense_Mutation_p.D106V	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	136	MH1.				anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding			large_intestine(3)|lung(1)|central_nervous_system(1)	5						ACTGTGAAGATCAGGCCAGCG	0.423													15	32					0	0	1	0	0		A	45395727	A	A	45395727	3	1	213	1	0	0	0	0	1	0	0	0	14783	1435	50	5	1028	5	SMAD2	18	45395727	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2188679	45395727	32681521	795	106232											
NEDD4L	23327	broad.mit.edu	37	chr18	56002750	56002750	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcgcgttcatcaactgtcaCgggtggtgaggaaccaacgg	10	7	14	10	4	3	1	3	1	0	0	3	2	3	2	1	4	4	1	1	4	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:56002750C>T	uc002lgy.2	+	13	1380	c.1106C>T	c.(1105-1107)ACG>ATG	p.T369M	NEDD4L_uc002lgz.2_Intron|NEDD4L_uc002lgx.2_Intron|NEDD4L_uc010xee.1_Missense_Mutation_p.T248M|NEDD4L_uc002lhc.2_Missense_Mutation_p.T361M|NEDD4L_uc002lhd.2_Missense_Mutation_p.T248M|NEDD4L_uc002lhb.2_Intron|NEDD4L_uc002lhe.2_Intron|NEDD4L_uc002lhf.2_Intron|NEDD4L_uc002lhg.2_Missense_Mutation_p.T248M|NEDD4L_uc002lhh.2_Intron|NEDD4L_uc010dpm.1_Intron	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	369					cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						TCAACTGTCACGGGTGGTGAG	0.478													22	46					0	0	1	0	0		T	56002750	T	T	56002750	3	4	213	1	0	0	0	0	1	0	0	0	10330	536	19	1	1184	1	NEDD4L	18	56002750	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	10607023	56002750	22074498	796	106233											
SERPINB8	5271	broad.mit.edu	37	chr18	61654234	61654234	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttatgacttggagcctttcCttcgaagattaggaatgatc	10	14	10	7	1	0	3	0	2	0	1	3	6	1	5	2	2	1	1	2	2	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:61654234C>A	uc002ljv.2	+	7	1016	c.847C>A	c.(847-849)CTT>ATT	p.L283I	SERPINB8_uc002lju.2_Missense_Mutation_p.L283I|SERPINB8_uc010xex.1_Missense_Mutation_p.L101I	NM_198833	NP_942130	P50452	SPB8_HUMAN	serine (or cysteine) proteinase inhibitor, clade	283					regulation of proteolysis	cytosol	protein binding|serine-type endopeptidase inhibitor activity			skin(1)	1		Esophageal squamous(42;0.129)				GGAGCCTTTCCTTCGAAGATT	0.423													21	55					1.66031e-10	1.79143e-10	1	1	0		A	61654234	A	A	61654234	3	1	213	1	0	0	0	0	1	0	0	0	14132	681	24	5	882	5	SERPINB8	18	61654234	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5651484	61654234	16423014	797	106234											
CBLN2	147381	broad.mit.edu	37	chr18	70209335	70209335	+	Frame_Shift_Del	DEL	C	-	-																															gccgcccggctcgcgcagcgCcccccggcgcccgggcatca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:70209335delC	uc002lku.2	-	2	296	c.61delG	c.(61-63)GCGfs	p.A21fs	CBLN2_uc002lkv.2_Frame_Shift_Del_p.A21fs	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	21						integral to membrane					0		Esophageal squamous(42;0.131)				tcgcgcagcgccccccggcgc	0.502													5	10	---	---	---	---						.	-	70209335	-	-	70209335	7	5	213	1	0	1	0	1	0	0	0	0	2708	739	26	0	625	0	CBLN2	18	70209335	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	8555101	70209335	7867913	798	106235											
ZNF516	9658	broad.mit.edu	37	chr18	74153390	74153390	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcactgtccctctcgcggcGcgcgcggcgatgcacgcgtg	3	7	15	16	9	2	0	1	0	1	0	4	1	3	0	1	2	1	1	1	2	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:74153390G>A	uc010dqx.1	-	2	1856	c.1621C>T	c.(1621-1623)CGC>TGC	p.R541C	ZNF516_uc002lme.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	541					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CTCTCGCGGCGCGCGCGGCGA	0.697													4	12					0	0	1	0	0		A	74153390	A	A	74153390	3	1	213	1	0	0	0	0	1	0	0	0	17985	1087	38	1	1891	1	ZNF516	18	74153390	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3944055	74153390	3923858	799	106236											
ZNF236	7776	broad.mit.edu	37	chr18	74606996	74606996	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccgcgaggagaacggcgtgcGctggcatgtgtgtccctact	6	8	15	12	5	0	1	0	0	0	1	1	3	1	1	2	3	3	2	2	3	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr18:74606996G>A	uc002lmi.2	+	10	1637	c.1439G>A	c.(1438-1440)CGC>CAC	p.R480H	ZNF236_uc002lmj.2_RNA	NM_007345	NP_031371	Q9UL36	ZN236_HUMAN	zinc finger protein 236	480					cellular response to glucose stimulus	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)	4		Prostate(75;0.0405)|Esophageal squamous(42;0.129)|Melanoma(33;0.132)		OV - Ovarian serous cystadenocarcinoma(15;4.36e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0686)		AACGGCGTGCGCTGGCATGTG	0.662													55	92					0	0	1	0	0		A	74606996	A	A	74606996	3	1	213	1	0	0	0	0	1	0	0	0	17814	1087	38	1	1477	1	ZNF236	18	74606996	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	453606	74606996	3470252	800	106237											
MED16	10025	broad.mit.edu	37	chr19	873537	873537	+	Missense_Mutation	SNP	A	C	C	1	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	cctgcagtgtgttcatgtccAgcacaaattcctccgtcttg	7	13	8	13	1	2	0	1	0	1	0	5	0	5	0	4	0	2	3	4	0	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:873537A>C	uc002lqd.1	-	11	1968	c.1817T>G	c.(1816-1818)CTG>CGG	p.L606R	MED16_uc010drw.1_Missense_Mutation_p.L431R|MED16_uc002lqe.2_Missense_Mutation_p.L595R|MED16_uc002lqf.2_Missense_Mutation_p.L595R|MED16_uc010xfv.1_RNA|MED16_uc010xfw.1_Missense_Mutation_p.L526R|MED16_uc010xfx.1_Missense_Mutation_p.L451R|MED16_uc010xfy.1_Missense_Mutation_p.L183R|MED16_uc010xfz.1_RNA	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16	606					androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTTCATGTCCAGCACAAATTC	0.582													22	50					0	0	1	0	0		C	873537	C	C	873537	3	2	213	1	0	0	0	0	1	0	0	0	9452	188	7	5	840	5	MED16	19	873537	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08		873537	58255446	801	106238											
MBD3	53615	broad.mit.edu	37	chr19	1581156	1581156	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtgttgagccatacgccGgggttcttctccacggcggc	4	10	15	12	4	2	1	0	1	2	0	3	1	2	1	3	5	2	2	3	5	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:1581156G>A	uc002ltl.1	-	5	634	c.612C>T	c.(610-612)CCC>CCT	p.P204P	MBD3_uc002ltj.2_Silent_p.P204P|MBD3_uc002ltk.2_Silent_p.P172P	NM_003926	NP_003917	O95983	MBD3_HUMAN	methyl-CpG binding domain protein 3	204					transcription, DNA-dependent	NuRD complex	DNA binding|protein binding			ovary(1)|pancreas(1)|skin(1)	3		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)|Lung(535;0.179)|STAD - Stomach adenocarcinoma(1328;0.18)		GCCATACGCCGGGGTTCTTCT	0.657													9	37					0	0	1	0	0		A	1581156	A	A	1581156	2	1	213	1	0	0	0	0	0	0	0	1	9362	1103	39	1		1	MBD3	19	1581156	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	707619	1581156	57547827	802	106239											
TCF3	6929	broad.mit.edu	37	chr19	1627405	1627405	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tctcccgaaggaggcataggCgccccgctcaccgctcttgc	6	7	11	17	4	3	0	1	0	2	0	4	2	3	1	4	3	1	3	4	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:1627405C>T	uc002ltr.2	-	6	386	c.319G>A	c.(319-321)GCC>ACC	p.A107T	TCF3_uc002ltt.3_Missense_Mutation_p.A107T|TCF3_uc002ltq.2_Missense_Mutation_p.A56T|TCF3_uc002lts.1_Missense_Mutation_p.A23T	NM_003200	NP_003191	P15923	TFE2_HUMAN	transcription factor 3 isoform E12	107					B cell lineage commitment|B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			lung(2)|breast(2)|ovary(1)|large_intestine(1)|skin(1)	7		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)		GAGGCATAGGCGCCCCGCTCA	0.622			T	PBX1|HLF|TFPT	pre B-ALL								5	18					0	0	1	0	0		T	1627405	T	T	1627405	3	4	213	1	0	0	0	0	1	0	0	0	15719	768	27	1	1932	1	TCF3	19	1627405	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	46249	1627405	57501578	803	106240											
C19orf28	126321	broad.mit.edu	37	chr19	3547998	3547998	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaatagcagtgagaacacggCgccgacacccaccaccagca	14	2	10	15	3	0	1	0	1	0	1	0	4	0	1	4	1	3	2	4	1	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:3547998C>T	uc002lxz.2	-	4	855	c.685G>A	c.(685-687)GCC>ACC	p.A229T	C19orf28_uc002lxw.2_Missense_Mutation_p.A229T|C19orf28_uc002lxx.2_Missense_Mutation_p.A229T|C19orf28_uc002lxy.2_Missense_Mutation_p.A220T	NM_174983	NP_778148	Q6NUT3	CS028_HUMAN	hypothetical protein LOC126321 isoform c	229	Helical; (Potential).				transmembrane transport	integral to membrane				breast(1)|pancreas(1)	2		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00251)|STAD - Stomach adenocarcinoma(1328;0.18)		GAGAACACGGCGCCGACACCC	0.711													19	14					0	0	1	0	0		T	3547998	T	T	3547998	3	4	213	1	0	0	0	0	1	0	0	0	1920	768	27	1	992	1	C19orf28	19	3547998	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1920593	3547998	55580985	804	106241											
UBXN6	80700	broad.mit.edu	37	chr19	4446878	4446879	+	Frame_Shift_Ins	INS	-	A	A																															ttctggaacccaatggcctcINSaaaaaactcgtgggtccctt																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:4446878_4446879insA	uc002man.1	-	7	750_751	c.654_655insT	c.(652-657)TTTGAGfs	p.F218fs	UBXN6_uc010dty.1_Frame_Shift_Ins_p.F122fs|UBXN6_uc002mam.1_Frame_Shift_Ins_p.F165fs	NM_025241	NP_079517	Q9BZV1	UBXN6_HUMAN	UBX domain protein 6	218_219	PUB.					microtubule organizing center|nucleus	protein binding				0						CCAATGGCCTCAAAAAACTCGT	0.644													18	26	---	---	---	---						.	A	4446879	A	A	4446878	7	5	213	1	0	1	1	0	0	0	0	0	16943	835	29	0	690	0	UBXN6	19	4446878	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	898880	4446878	54682105	805	106242											
PLIN4	729359	broad.mit.edu	37	chr19	4512048	4512048	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agcccccttggccacgttcaCggcactggtgaccccactgt	6	8	10	17	2	1	1	1	1	0	0	1	1	1	1	5	3	1	2	5	3	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:4512048C>T	uc002mar.1	-	3	1882	c.1882G>A	c.(1882-1884)GTG>ATG	p.V628M	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	628	27 X 33 AA approximate tandem repeat.|17.					lipid particle|plasma membrane					0						GCCACGTTCACGGCACTGGTG	0.552													64	103					0	0	1	0	0		T	4512048	T	T	4512048	3	4	213	1	0	0	0	0	1	0	0	0	12111	536	19	1	2207	1	PLIN4	19	4512048	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	65170	4512048	54616935	806	106243											
SAFB2	9667	broad.mit.edu	37	chr19	5590298	5590298	+	Frame_Shift_Del	DEL	G	-	-																															cacccactaacctggggggaGggggcagcccccggccttca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:5590298delG	uc002mcd.2	-	18	2728	c.2516delC	c.(2515-2517)CCTfs	p.P839fs		NM_014649	NP_055464	Q14151	SAFB2_HUMAN	scaffold attachment factor B2	839	Interacts with SAFB1.|Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|nucleotide binding|protein binding|RNA binding				0				UCEC - Uterine corpus endometrioid carcinoma (162;0.000228)		CCTGGGGGGAGGGGGCAGCCC	0.687													4	5	---	---	---	---						.	-	5590298	-	-	5590298	7	5	213	1	0	1	0	1	0	0	0	0	13832	1000	35	0	361	0	SAFB2	19	5590298	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1078250	5590298	53538685	807	106244											
LONP1	9361	broad.mit.edu	37	chr19	5705847	5705847	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctcctcgtccacaacatccaTgacgtgcttggggaccacga	9	8	9	15	3	0	1	0	1	0	0	4	3	3	2	4	2	2	1	4	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:5705847T>C	uc002mcx.2	-	8	1336	c.1303A>G	c.(1303-1305)ATG>GTG	p.M435V	LONP1_uc002mcy.2_Missense_Mutation_p.M371V|LONP1_uc010duh.2_Missense_Mutation_p.M176V|LONP1_uc010dui.2_Missense_Mutation_p.M419V|LONP1_uc002mcz.2_Missense_Mutation_p.M239V	NM_004793	NP_004784	P36776	LONM_HUMAN	mitochondrial lon peptidase 1 precursor	435					cellular chaperone-mediated protein complex assembly|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process|mitochondrial DNA metabolic process|oxidation-dependent protein catabolic process|protein homooligomerization|response to hypoxia	mitochondrial nucleoid	ADP binding|ATP binding|ATP-dependent peptidase activity|DNA polymerase binding|G-quadruplex DNA binding|mitochondrial heavy strand promoter anti-sense binding|mitochondrial light strand promoter anti-sense binding|sequence-specific DNA binding|serine-type endopeptidase activity|single-stranded DNA binding|single-stranded RNA binding				0						ACAACATCCATGACGTGCTTG	0.622													29	55					0	0	1	0	0		C	5705847	C	C	5705847	3	2	213	1	0	0	0	0	1	0	0	0	8910	1464	51	3	1620	3	LONP1	19	5705847	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	115549	5705847	53423136	808	106245											
RFX2	5990	broad.mit.edu	37	chr19	6042053	6042053	+	Splice_Site	SNP	A	G	G	1	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	ggcccgcgggagaagcacgcAcatggctccattggtgtaga	9	6	15	11	3	0	2	0	0	0	2	1	3	1	2	2	4	1	4	2	4	2	2	rs111454935		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:6042053A>G	uc002meb.2	-	4	529	c.260_splice	c.e4+1	p.I87_splice	RFX2_uc002mec.2_Splice_Site_p.I87_splice|RFX2_uc010xiy.1_Splice_Site_p.I42_splice	NM_000635	NP_000626	P48378	RFX2_HUMAN	regulatory factor X2 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			breast(4)|ovary(1)|skin(1)	6						AGAAGCACGCACATGGCTCCA	0.602													26	95					0	0	1	0	0		G	6042053	G	G	6042053	5	3	213	1	0	0	0	0	0	0	1	0	13288	173	6	3	1969	3	RFX2	19	6042053	Splice_Site	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	336206	6042053	53086930	809	106246											
TRIP10	9322	broad.mit.edu	37	chr19	6746467	6746467	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctacccaccttgcagacagTggtgaccgaggattttagcc	9	10	10	12	1	1	2	0	1	1	1	1	4	1	3	4	2	3	1	4	2	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:6746467T>C	uc002mfs.2	+	11	1223	c.1157T>C	c.(1156-1158)GTG>GCG	p.V386A	TRIP10_uc010dux.1_Missense_Mutation_p.V330A|TRIP10_uc002mfr.2_Missense_Mutation_p.V330A|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_Missense_Mutation_p.V149A	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	386	Interaction with CDC42.|Interaction with PDE6G (By similarity).				actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						TTGCAGACAGTGGTGACCGAG	0.542													9	22					0	0	1	0	0		C	6746467	C	C	6746467	3	2	213	1	0	0	0	0	1	0	0	0	16580	1696	59	3	1027	3	TRIP10	19	6746467	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	704414	6746467	52382516	810	106247											
TRIP10	9322	broad.mit.edu	37	chr19	6750379	6750380	+	Frame_Shift_Ins	INS	-	C	C																															cggcacgcccggcctcccgaINScccccccgctagcgccccgc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:6750379_6750380insC	uc002mfs.2	+	13	1538_1539	c.1472_1473insC	c.(1471-1473)GACfs	p.D491fs	TRIP10_uc010dux.1_Frame_Shift_Ins_p.D435fs|TRIP10_uc002mfr.2_Frame_Shift_Ins_p.D435fs|TRIP10_uc010duy.2_RNA|TRIP10_uc010duz.2_Frame_Shift_Ins_p.D254fs	NM_004240	NP_004231	Q15642	CIP4_HUMAN	thyroid hormone receptor interactor 10	491	Interaction with CDC42.|Interaction with PDE6G (By similarity).|Interaction with DNM2 and WASL (By similarity).|Required for interaction with FASLG and localization to lysosomes.			ARPPDPPASAPPD -> KHPIICRLIHFSN (in Ref. 10; AAC41729).	actin cytoskeleton organization|cell communication|endocytosis|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell projection|cytoskeleton|cytosol|Golgi apparatus|lysosome|perinuclear region of cytoplasm|phagocytic cup	GTPase activator activity|identical protein binding|lipid binding			ovary(1)	1						CGGCCTCCCGACCCCCCCGCTA	0.658													29	42	---	---	---	---						.	C	6750380	C	C	6750379	7	5	213	1	0	1	1	0	0	0	0	0	16580	275	10	0	1350	0	TRIP10	19	6750379	Frame_Shift_Ins	INS	-	TCGA-HU-A4H3-01A-21D-A25D-08	3912	6750379	52378604	811	106248											
TIMM44	10469	broad.mit.edu	37	chr19	7999057	7999057	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggccgactgcttggccgtctTggctgcttcctccacgccct	2	11	11	17	3	1	0	0	0	1	0	3	1	3	0	5	3	2	3	5	3	0	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:7999057T>C	uc002miz.2	-	5	462	c.460A>G	c.(460-462)AAG>GAG	p.K154E	TIMM44_uc002mja.2_5'UTR|TIMM44_uc010dvx.1_RNA	NM_006351	NP_006342	O43615	TIM44_HUMAN	translocase of inner mitochondrial membrane 44	154					protein targeting to mitochondrion	mitochondrial inner membrane presequence translocase complex|mitochondrial matrix	ATP binding|P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						TTGGCCGTCTTGGCTGCTTCC	0.612													30	81					0	0	1	0	0		C	7999057	C	C	7999057	3	2	213	1	0	0	0	0	1	0	0	0	15937	1821	63	3	934	3	TIMM44	19	7999057	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	1248678	7999057	51129926	812	106249											
MYO1F	4542	broad.mit.edu	37	chr19	8620591	8620591	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggaggttggcggcaatggcGtcttcggtgatctggggaag	6	9	19	7	4	2	1	0	1	2	0	3	3	2	3	0	8	0	2	0	8	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:8620591G>A	uc002mkg.2	-	2	207	c.93C>T	c.(91-93)GAC>GAT	p.D31D	MYO1F_uc002mkh.2_Silent_p.D31D|MYO1F_uc010xkf.1_Silent_p.D31D	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	31	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						CGGCAATGGCGTCTTCGGTGA	0.617													24	51					0	0	1	0	0		A	8620591	A	A	8620591	2	1	213	1	0	0	0	0	0	0	0	1	10091	1136	40	1		1	MYO1F	19	8620591	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	621534	8620591	50508392	813	106250											
MUC16	94025	broad.mit.edu	37	chr19	9056201	9056201	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtgttgagagtgaaggaacTtgataagcacttgtcactgt	11	12	12	6	1	1	3	1	3	0	1	1	5	1	4	0	1	2	2	0	1	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:9056201T>G	uc002mkp.2	-	3	31449	c.31245A>C	c.(31243-31245)CAA>CAC	p.Q10415H		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	10417	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGAAGGAACTTGATAAGCAC	0.478													65	91					0	0	1	0	0		G	9056201	G	G	9056201	3	3	213	1	0	0	0	0	1	0	0	0	9991	1606	56	5	12606	5	MUC16	19	9056201	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	435610	9056201	50072782	814	106251											
MUC16	94025	broad.mit.edu	37	chr19	9087799	9087799	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcactgagtggggtgtaGagacctgagctgaacttgta	9	11	13	8	0	1	4	1	3	0	1	2	5	2	4	2	2	2	3	2	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:9087799G>T	uc002mkp.2	-	1	4220	c.4016C>A	c.(4015-4017)TCT>TAT	p.S1339Y		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	1339	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTGGGGTGTAGAGACCTGAGC	0.512													10	44					1.76689e-08	1.87565e-08	1	1	0		T	9087799	T	T	9087799	3	4	213	1	0	0	0	0	1	0	0	0	9991	942	33	5	39843	5	MUC16	19	9087799	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	31598	9087799	50041184	815	106252											
COL5A3	50509	broad.mit.edu	37	chr19	10078753	10078753	+	Silent	SNP	A	G	G	1	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	gagccaatgggaccagggggAccctaggaaaaggacatcgg	13	3	16	9	1	0	0	0	0	0	0	1	5	0	4	3	6	1	0	3	6	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:10078753A>G	uc002mmq.1	-	60	4403	c.4317T>C	c.(4315-4317)GGT>GGC	p.G1439G		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1439	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			GACCAGGGGGACCCTAGGAAA	0.582													22	45					0	0	1	0	0		G	10078753	G	G	10078753	2	3	213	1	0	0	0	0	0	0	0	1	3701	262	10	3		3	COL5A3	19	10078753	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	990954	10078753	49050230	816	106253											
PPAN-P2RY11	692312	broad.mit.edu	37	chr19	10224725	10224725	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccacctgcgacccaagcacGcctgggccgtgagcgctgcc	6	4	13	18	4	0	1	0	1	0	0	0	2	0	1	6	1	4	2	6	1	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:10224725G>A	uc002mna.2	+	13	1696	c.1696G>A	c.(1696-1698)GCC>ACC	p.A566T	PPAN-P2RY11_uc010xla.1_3'UTR|P2RY11_uc002mnc.2_Missense_Mutation_p.A146T	NM_001040664	NP_001035754	Q9NQ55	SSF1_HUMAN	PPAN-P2RY11 protein	Error:Variant_position_missing_in_Q9NQ55_after_alignment					RNA splicing	nucleolus	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(20;2.19e-08)|Epithelial(33;1.76e-05)|all cancers(31;3.54e-05)			ACCCAAGCACGCCTGGGCCGT	0.682													20	39					0	0	1	0	0		A	10224725	A	A	10224725	3	1	213	1	0	0	0	0	1	0	0	0	12308	1087	38	1		1	PPAN-P2RY11	19	10224725	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	145972	10224725	48904258	817	106254											
MRPL4	51073	broad.mit.edu	37	chr19	10368989	10368989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtctcaaagtggcactgacCgtcaagctggcccaggtaca	10	7	12	12	1	2	1	2	1	1	0	3	1	2	1	2	4	2	3	2	4	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:10368989C>T	uc002mnm.2	+	7	691	c.537C>T	c.(535-537)ACC>ACT	p.T179T	MRPL4_uc002mnn.2_Silent_p.T179T|MRPL4_uc002mno.2_Silent_p.T179T	NM_146387	NP_666499	Q9BYD3	RM04_HUMAN	mitochondrial ribosomal protein L4 isoform a	179					translation	mitochondrion|ribosome	structural constituent of ribosome			ovary(1)	1		Renal(1328;0.0112)	OV - Ovarian serous cystadenocarcinoma(20;1.39e-09)|Epithelial(33;1.99e-06)|all cancers(31;4.81e-06)	Lung(535;0.00705)		TGGCACTGACCGTCAAGCTGG	0.637													18	34					0	0	1	0	0		T	10368989	T	T	10368989	2	4	213	1	0	0	0	0	0	0	0	1	9821	639	23	1		1	MRPL4	19	10368989	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	144264	10368989	48759994	818	106255											
ICAM5	7087	broad.mit.edu	37	chr19	10404979	10404979	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctccgtggccaaaacagtcGtcgtgagcgcggagtgtgag	8	7	16	10	5	0	2	0	2	0	0	3	3	1	3	2	2	2	1	2	2	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:10404979G>A	uc002mnu.3	+	8	2040	c.1975G>A	c.(1975-1977)GTC>ATC	p.V659I	ICAM5_uc002mnv.3_Missense_Mutation_p.V534I	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	659	Extracellular (Potential).|Ig-like C2-type 7.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CAAAACAGTCGTCGTGAGCGC	0.657													79	163					0	0	1	0	0		A	10404979	A	A	10404979	3	1	213	1	0	0	0	0	1	0	0	0	7499	1145	40	1	2005	1	ICAM5	19	10404979	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	35990	10404979	48724004	819	106256											
DOCK6	57572	broad.mit.edu	37	chr19	11323941	11323941	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatgcggctgccacagtgtcGtaggagcctcaggcacaggt	8	7	15	11	2	1	0	1	0	0	0	2	2	1	1	2	4	3	3	2	4	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:11323941G>A	uc002mqs.3	-	35	4443	c.4402C>T	c.(4402-4404)CGA>TGA	p.R1468*	DOCK6_uc010xlq.1_Nonsense_Mutation_p.R807*	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1468					blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						CCACAGTGTCGTAGGAGCCTC	0.652													16	27					0	0	1	0	0		A	11323941	A	A	11323941	4	1	213	1	0	0	0	0	0	1	0	0	4697	1153	40	1	1797	1	DOCK6	19	11323941	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	918962	11323941	47805042	820	106257											
ACP5	54	broad.mit.edu	37	chr19	11687262	11687262	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtgtgcgggccagcttcacGtctcggggcctctcaggctg	3	10	15	13	3	3	0	2	0	2	0	5	0	3	0	2	4	2	2	2	4	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:11687262G>A	uc002msg.3	-	4	677	c.531C>T	c.(529-531)GAC>GAT	p.D177D	ACP5_uc002msh.3_Silent_p.D177D|ACP5_uc002msi.3_Silent_p.D177D|ACP5_uc002msj.3_Silent_p.D177D	NM_001611	NP_001602	P13686	PPA5_HUMAN	acid phosphatase 5, tartrate resistant	177				DVKL -> LT (in Ref. 1; AAA76849).	water-soluble vitamin metabolic process	cytosol|integral to membrane|lysosome	acid phosphatase activity|ferric iron binding|ferrous iron binding			central_nervous_system(1)	1						CCAGCTTCACGTCTCGGGGCC	0.597													19	43					0	0	1	0	0		A	11687262	A	A	11687262	2	1	213	1	0	0	0	0	0	0	0	1	164	1136	40	1		1	ACP5	19	11687262	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	363321	11687262	47441721	821	106258											
ZNF439	90594	broad.mit.edu	37	chr19	11979027	11979027	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actcacagtggagagaaaccGtataaatgcaagcaatgtgg	16	7	11	7	1	1	1	1	0	0	1	1	3	1	2	1	2	3	3	1	2	6	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:11979027G>A	uc002mss.2	+	3	1271	c.1143G>A	c.(1141-1143)CCG>CCA	p.P381P	ZNF439_uc002msr.2_Silent_p.P245P	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	381					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						GAGAGAAACCGTATAAATGCA	0.408													29	25					0	0	1	0	0		A	11979027	A	A	11979027	2	1	213	1	0	0	0	0	0	0	0	1	17936	1132	40	1		1	ZNF439	19	11979027	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	291765	11979027	47149956	822	106259											
ZNF791	163049	broad.mit.edu	37	chr19	12739129	12739129	+	Silent	SNP	C	T	T	0	0	0	1	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	cacacaagtgttctaacacaCatgataacacacaacggaga	18	6	6	11	1	1	2	0	1	1	1	1	3	1	2	0	1	3	1	0	1	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:12739129C>T	uc002mua.2	+	4	948	c.786C>T	c.(784-786)CAC>CAT	p.H262H	ZNF791_uc010xml.1_Silent_p.H230H|ZNF791_uc010dyu.1_Silent_p.H153H|ZNF791_uc010xmm.1_Silent_p.H153H	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	262	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTCTAACACACATGATAACAC	0.393													20	35					0	0	1	0	0		T	12739129	T	T	12739129	2	4	213	1	0	0	0	0	0	0	0	1	18188	477	17	4		4	ZNF791	19	12739129	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	760102	12739129	46389854	823	106260											
TNPO2	30000	broad.mit.edu	37	chr19	12813689	12813689	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcggttaatgatttccacCaggttgttgaggaccatctg	8	13	12	8	1	1	2	0	2	1	0	3	3	2	3	3	4	0	3	3	4	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:12813689C>T	uc002muo.2	-	20	2438	c.2253G>A	c.(2251-2253)CTG>CTA	p.L751L	TNPO2_uc002mup.2_Silent_p.L843L|TNPO2_uc002muq.2_Silent_p.L751L|TNPO2_uc002mur.2_Silent_p.L751L	NM_001136196	NP_001129668	O14787	TNPO2_HUMAN	transportin 2 (importin 3, karyopherin beta 2b)	751	HEAT 13.				intracellular protein transport	cytoplasm|nucleus	nuclear localization sequence binding|protein binding|protein transporter activity			ovary(1)	1						TGATTTCCACCAGGTTGTTGA	0.632													31	157					0	0	1	0	0		T	12813689	T	T	12813689	2	4	213	1	0	0	0	0	0	0	0	1	16361	581	21	4		4	TNPO2	19	12813689	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	74560	12813689	46315294	824	106261											
CYP4F11	57834	broad.mit.edu	37	chr19	16024639	16024639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcggggttcagtgtgggtcGgcaggatgcggaagtgcagc	6	8	20	7	3	1	0	1	0	0	0	2	2	1	2	0	6	4	3	0	6	1	1	rs151267237		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:16024639G>A	uc002nbu.2	-	13	1514	c.1478C>T	c.(1477-1479)CCG>CTG	p.P493L	CYP4F11_uc010eab.1_3'UTR|CYP4F11_uc002nbt.2_Missense_Mutation_p.P493L	NM_001128932	NP_001122404	Q9HBI6	CP4FB_HUMAN	cytochrome P450 family 4 subfamily F polypeptide	493					inflammatory response|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)	1						AGTGTGGGTCGGCAGGATGCG	0.627													3	36					0	0	1	0	0		A	16024639	A	A	16024639	3	1	213	1	0	0	0	0	1	0	0	0	4189	1116	39	1	100	1	CYP4F11	19	16024639	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3210950	16024639	43104344	825	106262											
C19orf44	84167	broad.mit.edu	37	chr19	16613907	16613907	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	actgagagcatttactgtacCcagcgtggaactctccagcg	10	9	10	12	2	1	1	0	1	1	1	2	3	1	2	2	1	6	2	2	1	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:16613907C>A	uc002neh.1	+	3	864	c.791C>A	c.(790-792)CCC>CAC	p.P264H	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.P264H|C19orf44_uc002neg.2_Missense_Mutation_p.P264H|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	264											0						TTTACTGTACCCAGCGTGGAA	0.418													19	61					2.35188e-11	2.55597e-11	1	1	0		A	16613907	A	A	16613907	3	1	213	1	0	0	0	0	1	0	0	0	1930	623	22	5	797	5	C19orf44	19	16613907	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	589268	16613907	42515076	826	106263											
SIN3B	23309	broad.mit.edu	37	chr19	16962273	16962273	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agcgtgcagaagaacgagcaCgacaagaccccggagcacag	15	1	13	12	4	0	3	0	0	0	3	0	6	0	4	2	1	5	3	2	1	3	0	rs149541599		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:16962273C>T	uc002ney.1	+	6	791	c.777C>T	c.(775-777)CAC>CAT	p.H259H	SIN3B_uc002new.2_Silent_p.H259H|SIN3B_uc002nex.2_Silent_p.H191H|SIN3B_uc002nez.1_Silent_p.H259H	NM_015260	NP_056075	O75182	SIN3B_HUMAN	SIN3 homolog B, transcription regulator	259					cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	protein binding			ovary(2)	2						AGAACGAGCACGACAAGACCC	0.647													30	74					0	0	1	0	0		T	16962273	T	T	16962273	2	4	213	1	0	0	0	0	0	0	0	1	14351	535	19	1		1	SIN3B	19	16962273	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	348366	16962273	42166710	827	106264											
ANO8	57719	broad.mit.edu	37	chr19	17441906	17441906	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagtacctgatcagcCtctgtgaatgtgtacaggac	9	10	10	12	0	2	2	1	2	1	0	2	3	2	3	3	1	4	2	3	1	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:17441906C>A	uc002ngf.2	-	7	981	c.822G>T	c.(820-822)GAG>GAT	p.E274D	ANO8_uc010eap.2_RNA	NM_020959	NP_066010	Q9HCE9	ANO8_HUMAN	anoctamin 8	274	Cytoplasmic (Potential).					chloride channel complex	chloride channel activity			ovary(3)	3						CCTGATCAGCCTCTGTGAATG	0.547													26	75					1.42536e-11	1.55065e-11	1	1	0		A	17441906	A	A	17441906	3	1	213	1	0	0	0	0	1	0	0	0	703	680	24	5	2924	5	ANO8	19	17441906	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	479633	17441906	41687077	828	106265											
SLC27A1	376497	broad.mit.edu	37	chr19	17611178	17611178	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggacacaatggagctgctgcGggatgcccagggcctctgca	8	6	15	12	1	1	0	0	0	1	0	1	3	1	3	2	4	5	3	2	4	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:17611178G>A	uc002ngu.1	+	8	1348	c.1298G>A	c.(1297-1299)CGG>CAG	p.R433Q	SLC27A1_uc010xpp.1_Missense_Mutation_p.R254Q|SLC27A1_uc002ngv.1_Missense_Mutation_p.R35Q	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	433	Sufficient for oligomerization (By similarity).|Cytoplasmic (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0						GAGCTGCTGCGGGATGCCCAG	0.682													15	45					0	0	1	0	0		A	17611178	A	A	17611178	3	1	213	1	0	0	0	0	1	0	0	0	14550	1116	39	1	1328	1	SLC27A1	19	17611178	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	169272	17611178	41517805	829	106266											
TMEM161A	54929	broad.mit.edu	37	chr19	19245695	19245695	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagctgtactccgaggaccGcctggggggaggggacatga	8	5	17	11	2	0	1	0	1	0	0	1	5	1	4	4	6	2	2	4	6	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:19245695G>A	uc002nlg.2	-	2	35	c.5C>T	c.(4-6)GCG>GTG	p.A2V	TMEM161A_uc010eca.2_RNA|TMEM161A_uc002nlh.2_Missense_Mutation_p.A2V|TMEM161A_uc002nli.2_Missense_Mutation_p.A2V|TMEM161A_uc002nlj.2_Intron	NM_017814	NP_060284	Q9NX61	T161A_HUMAN	transmembrane protein 161A precursor	2					cellular response to oxidative stress|cellular response to UV|negative regulation of apoptosis|positive regulation of DNA repair|response to retinoic acid	integral to membrane				breast(2)	2			OV - Ovarian serous cystadenocarcinoma(5;1.19e-05)|Epithelial(12;0.0011)			TCCGAGGACCGCCTGGGGGGA	0.627													5	5					0	0	1	0	0		A	19245695	A	A	19245695	3	1	213	1	0	0	0	0	1	0	0	0	16101	1101	38	1	1478	1	TMEM161A	19	19245695	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1634517	19245695	39883288	830	106267											
ZNF737	100129842	broad.mit.edu	37	chr19	20727464	20727464	+	Silent	SNP	G	A	A	0	0	1	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	gaggggcacttaaagcctttGccacattcttcacatttgta	10	13	8	10	0	2	0	1	0	1	0	2	1	2	0	2	2	2	2	2	2	3	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:20727464G>A	uc002npa.2	-	4	1725	c.1545C>T	c.(1543-1545)GGC>GGT	p.G515G		NM_001159293	NP_001152765	C9JHM3	C9JHM3_HUMAN	zinc finger protein 737	515					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TAAAGCCTTTGCCACATTCTT	0.403													3	8					0	0	1	0	0		A	20727464	A	A	20727464	2	1	213	1	0	0	0	0	0	0	0	1	18151	1306	46	2		2	ZNF737	19	20727464	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1481769	20727464	38401519	831	106268											
ZNF100	163227	broad.mit.edu	37	chr19	21948556	21948556	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagggcatccacttgctccCttgagaggacacattccata	10	9	8	14	0	0	1	0	1	0	1	3	3	3	2	4	2	1	2	4	2	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:21948556C>A	uc002nqi.2	-	2	235	c.36G>T	c.(34-36)AAG>AAT	p.K12N		NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100	12					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACTTGCTCCCTTGAGAGGAC	0.478													25	69					6.12954e-19	6.88183e-19	1	1	0		A	21948556	A	A	21948556	3	1	213	1	0	0	0	0	1	0	0	0	17738	680	24	5	1608	5	ZNF100	19	21948556	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1221092	21948556	37180427	832	106269											
ZNF99	7652	broad.mit.edu	37	chr19	22940057	22940057	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtttcctaagggttgaGgaattgttaaaagctttgcc	10	16	10	5	0	0	1	0	1	0	0	1	2	1	2	2	2	2	4	2	2	5	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:22940057G>T	uc010xrh.1	-	6	2274	c.2274C>A	c.(2272-2274)TCC>TCA	p.S758S		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				TAAGGGTTGAGGAATTGTTAA	0.353													15	40					9.16793e-09	9.75193e-09	1	1	0		T	22940057	T	T	22940057	2	4	213	1	0	0	0	0	0	0	0	1	18229	987	35	5		5	ZNF99	19	22940057	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	991501	22940057	36188926	833	106270											
ZNF681	148213	broad.mit.edu	37	chr19	23927980	23927980	+	Frame_Shift_Del	DEL	T	-	-																															ttaagtccattataacctccTttttgcactttgcactcatc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:23927980delT	uc002nrk.3	-	4	514	c.372delA	c.(370-372)AAAfs	p.K124fs	ZNF681_uc002nrl.3_Frame_Shift_Del_p.K55fs|ZNF681_uc002nrj.3_Frame_Shift_Del_p.K55fs	NM_138286	NP_612143	Q96N22	ZN681_HUMAN	zinc finger protein 681	124					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)				TATAACCTCCTTTTTGCACTT	0.294													12	23	---	---	---	---						.	-	23927980	-	-	23927980	7	5	213	1	0	1	0	1	0	0	0	0	18113	1606	56	0	1569	0	ZNF681	19	23927980	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	987923	23927980	35201003	834	106271											
TSHZ3	57616	broad.mit.edu	37	chr19	31769223	31769223	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacacttctcctcttcttcGccaggcttgtctttttgctt	3	19	5	14	1	5	0	1	0	4	0	7	0	5	0	2	1	1	2	2	1	0	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:31769223G>A	uc002nsy.3	-	2	1541	c.1476C>T	c.(1474-1476)GGC>GGT	p.G492G		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	492					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CCTCTTCTTCGCCAGGCTTGT	0.468													70	128					0	0	1	0	0		A	31769223	A	A	31769223	2	1	213	1	0	0	0	0	0	0	0	1	16651	1074	38	1		1	TSHZ3	19	31769223	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	7841243	31769223	27359760	835	106272											
PDCD5	9141	broad.mit.edu	37	chr19	33076813	33076813	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatggacaactaagtgagaaGgtaagcttagacagccttga	15	9	11	6	0	0	3	0	2	0	2	0	5	0	4	1	2	3	2	1	2	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:33076813G>T	uc002ntm.2	+	4	322	c.258G>T	c.(256-258)AAG>AAT	p.K86N	PDCD5_uc002ntl.2_Missense_Mutation_p.K86N|PDCD5_uc010ede.2_Intron	NM_004708	NP_004699	O14737	PDCD5_HUMAN	programmed cell death 5	86					apoptosis|induction of apoptosis	cytoplasm|nucleus	DNA binding			ovary(1)|lung(1)	2	Esophageal squamous(110;0.137)					TAAGTGAGAAGGTAAGCTTAG	0.373													15	45					2.32078e-09	2.49129e-09	1	1	0		T	33076813	T	T	33076813	3	4	213	1	0	0	0	0	1	0	0	0	11641	1014	35	5	272	5	PDCD5	19	33076813	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1307590	33076813	26052170	836	106273											
KCTD15	79047	broad.mit.edu	37	chr19	34292140	34292140	+	Frame_Shift_Del	DEL	C	-	-																															cccctggctgcccagggcatCcccctgccagcccagctcac																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:34292140delC	uc002nuy.3	+	4	403	c.135delC	c.(133-135)ATCfs	p.I45fs	KCTD15_uc002nuv.2_Frame_Shift_Del_p.I45fs|KCTD15_uc002nuw.3_Frame_Shift_Del_p.I45fs|KCTD15_uc010xrt.1_Frame_Shift_Del_p.I45fs|KCTD15_uc002nux.3_Frame_Shift_Del_p.I45fs	NM_001129994	NP_001123466	Q96SI1	KCD15_HUMAN	potassium channel tetramerisation domain	45						voltage-gated potassium channel complex	voltage-gated potassium channel activity			pancreas(1)	1	Esophageal squamous(110;0.162)					CCCAGGGCATCCCCCTGCCAG	0.612													36	52	---	---	---	---						.	-	34292140	-	-	34292140	7	5	213	1	0	1	0	1	0	0	0	0	8118	845	30	0	141	0	KCTD15	19	34292140	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	1215327	34292140	24836843	837	106274											
UBA2	10054	broad.mit.edu	37	chr19	34922769	34922769	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gttgtttatttttccaggttGccaaggaaagtgtactgcag	9	15	11	6	0	0	0	0	0	0	0	1	1	1	1	2	2	3	5	2	2	4	7			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:34922769G>A	uc002nvk.2	+	3	296	c.226G>A	c.(226-228)GCC>ACC	p.A76T	UBA2_uc010xrx.1_Intron|UBA2_uc002nvl.2_5'UTR	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	76					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			TTTCCAGGTTGCCAAGGAAAG	0.368													36	72					0	0	1	0	0		A	34922769	A	A	34922769	3	1	213	1	0	0	0	0	1	0	0	0	16854	1319	46	2	236	2	UBA2	19	34922769	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	630629	34922769	24206214	838	106275											
MLL4	9757	broad.mit.edu	37	chr19	36214714	36214714	+	Frame_Shift_Del	DEL	G	-	-																															tggtcctccaggcccacgccGgggggcgggagctggggggc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:36214714delG	uc010eei.2	+	9	3140	c.3140delG	c.(3139-3141)CGGfs	p.R1047fs		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1047					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GGCCCACGCCGGGGGGCGGGA	0.701													9	9	---	---	---	---						.	-	36214714	-	-	36214714	7	5	213	1	0	1	0	1	0	0	0	0	9641	1116	39	0	3170	0	MLL4	19	36214714	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1291945	36214714	22914269	839	106276											
MLL4	9757	broad.mit.edu	37	chr19	36215971	36215971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccgatggtgtgcaccgcGtccgtgtggattttaaggta	6	12	13	10	4	0	0	0	0	0	0	2	2	2	1	3	3	1	2	3	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:36215971G>A	uc010eei.2	+	11	3511	c.3511G>A	c.(3511-3513)GTC>ATC	p.V1171I		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1171					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			TGTGCACCGCGTCCGTGTGGA	0.567													5	49					0	0	1	0	0		A	36215971	A	A	36215971	3	1	213	1	0	0	0	0	1	0	0	0	9641	1145	40	1	3549	1	MLL4	19	36215971	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1257	36215971	22913012	840	106277											
MLL4	9757	broad.mit.edu	37	chr19	36218423	36218423	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggggcagcgcagccccgctGgcgagaggccctgagcgggg	5	3	20	13	4	0	2	0	1	0	1	0	3	0	2	3	6	3	3	3	6	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:36218423G>A	uc010eei.2	+	17	4202	c.4202G>A	c.(4201-4203)TGG>TAG	p.W1401*		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	1401					chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CAGCCCCGCTGGCGAGAGGCC	0.672													36	75					0	0	1	0	0		A	36218423	A	A	36218423	4	1	213	1	0	0	0	0	0	1	0	0	9641	1357	47	4	4264	4	MLL4	19	36218423	Nonsense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2452	36218423	22910560	841	106278											
MLL4	9757	broad.mit.edu	37	chr19	36228995	36228995	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgggcgaggcctgttctgtaAgcgcaacatcgacgcggggg	7	6	17	11	6	1	0	0	0	1	0	2	2	1	0	1	4	2	3	1	4	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:36228995A>G	uc010eei.2	+	37	7775	c.7775A>G	c.(7774-7776)AAG>AGG	p.K2592R		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	2592	SET.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTGTTCTGTAAGCGCAACATC	0.587													8	28					0	0	1	0	0		G	36228995	G	G	36228995	3	3	213	1	0	0	0	0	1	0	0	0	9641	72	3	3	7917	3	MLL4	19	36228995	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	10572	36228995	22899988	842	106279											
LRFN3	79414	broad.mit.edu	37	chr19	36430697	36430697	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	accggctgacctcactgggcGagggccagctgcgcggcctg	5	5	16	15	4	1	1	1	1	0	0	1	2	1	1	4	4	2	2	4	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:36430697G>A	uc002oco.2	+	2	822	c.370G>A	c.(370-372)GAG>AAG	p.E124K		NM_024509	NP_078785	Q9BTN0	LRFN3_HUMAN	leucine rich repeat and fibronectin type III	124	LRR 3.|Extracellular (Potential).				cell adhesion	axon|cell junction|dendrite|integral to membrane|postsynaptic membrane|presynaptic membrane					0	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.06)			CTCACTGGGCGAGGGCCAGCT	0.706													22	27					0	0	1	0	0		A	36430697	A	A	36430697	3	1	213	1	0	0	0	0	1	0	0	0	8957	1059	37	1	372	1	LRFN3	19	36430697	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	201702	36430697	22698286	843	106280											
HKR1	284459	broad.mit.edu	37	chr19	37854267	37854267	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggacacactcaggggagaagCcatttgtatgtgctgagtgt	10	10	14	7	0	1	2	1	1	0	1	1	4	1	3	1	3	2	2	1	3	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:37854267C>T	uc002ogb.2	+	6	1839	c.1570C>T	c.(1570-1572)CCA>TCA	p.P524S	HKR1_uc002ofx.2_Missense_Mutation_p.P240S|HKR1_uc002ofy.2_Missense_Mutation_p.P240S|HKR1_uc002oga.2_Missense_Mutation_p.P506S|HKR1_uc010xto.1_Missense_Mutation_p.P506S|HKR1_uc002ogc.2_Missense_Mutation_p.P505S|HKR1_uc010xtp.1_Missense_Mutation_p.P463S|HKR1_uc002ogd.2_Missense_Mutation_p.P463S	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	524					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGGGGAGAAGCCATTTGTATG	0.517													26	53					0	0	1	0	0		T	37854267	T	T	37854267	3	4	213	1	0	0	0	0	1	0	0	0	7210	739	26	2	1584	2	HKR1	19	37854267	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1423570	37854267	21274716	844	106281											
SIPA1L3	23094	broad.mit.edu	37	chr19	38573387	38573387	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgggcccacagcctcggaggCctggacccggccttcaccag	6	4	13	18	3	1	0	1	0	0	0	2	2	1	2	6	5	1	0	6	5	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:38573387C>T	uc002ohk.2	+	3	1691	c.1182C>T	c.(1180-1182)GGC>GGT	p.G394G		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	394					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			GCCTCGGAGGCCTGGACCCGG	0.682													27	30					0	0	1	0	0		T	38573387	T	T	38573387	2	4	213	1	0	0	0	0	0	0	0	1	14356	726	26	2		2	SIPA1L3	19	38573387	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	719120	38573387	20555596	845	106282											
CATSPERG	57828	broad.mit.edu	37	chr19	38850136	38850136	+	Missense_Mutation	SNP	T	G	G	0	1	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	caaggaaaacttcatctaccTggcagacttccccaaggaac	14	7	7	13	0	2	1	1	0	1	1	3	3	3	3	3	3	3	1	3	3	6	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:38850136T>G	uc002oih.3	+	14	1610	c.1523T>G	c.(1522-1524)CTG>CGG	p.L508R	CATSPERG_uc002oig.3_Missense_Mutation_p.L468R|CATSPERG_uc002oif.3_Missense_Mutation_p.L148R|CATSPERG_uc010efw.2_RNA	NM_021185	NP_067008	Q6ZRH7	CTSRG_HUMAN	cation channel, sperm-associated, gamma	508	Extracellular (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(1)|skin(1)	2						TTCATCTACCTGGCAGACTTC	0.572													7	25					0	0	1	0	0		G	38850136	G	G	38850136	3	3	213	1	0	0	0	0	1	0	0	0	2695	1580	55	5	1573	5	CATSPERG	19	38850136	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	276749	38850136	20278847	846	106283											
RYR1	6261	broad.mit.edu	37	chr19	38948905	38948905	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcgatgacctctattcctacGgctttgatggactgcatctc	7	13	9	12	2	2	2	0	2	2	0	4	4	3	3	2	2	2	2	2	2	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:38948905G>A	uc002oit.2	+	18	2270	c.2140G>A	c.(2140-2142)GGC>AGC	p.G714S	RYR1_uc002oiu.2_Missense_Mutation_p.G714S	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	714	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CTATTCCTACGGCTTTGATGG	0.637													49	95					0	0	1	0	0		A	38948905	A	A	38948905	3	1	213	1	0	0	0	0	1	0	0	0	13793	1116	39	1	2210	1	RYR1	19	38948905	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	98769	38948905	20180078	847	106284											
ACTN4	81	broad.mit.edu	37	chr19	39219655	39219655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtgaggccgagttcaaccGcatcatgagcctggtcgacc	8	7	14	12	3	2	2	2	2	0	0	3	4	2	2	4	3	2	2	4	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:39219655G>A	uc002oja.1	+	20	2497	c.2438G>A	c.(2437-2439)CGC>CAC	p.R813H	ACTN4_uc002ojb.1_Missense_Mutation_p.R135H	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	813	EF-hand 2.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAGTTCAACCGCATCATGAGC	0.637													32	73					0	0	1	0	0		A	39219655	A	A	39219655	3	1	213	1	0	0	0	0	1	0	0	0	207	1087	38	1	2516	1	ACTN4	19	39219655	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	270750	39219655	19909328	848	106285											
NCCRP1	342897	broad.mit.edu	37	chr19	39691081	39691081	+	Frame_Shift_Del	DEL	C	-	-																															cattgctcagcaccacgtggCcccccgaacttctgggagag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:39691081delC	uc002okq.1	+	5	663	c.644delC	c.(643-645)GCCfs	p.A215fs		NM_001001414	NP_001001414	Q6ZVX7	NCRP1_HUMAN	non-specific cytotoxic cell receptor protein 1	215	FBA.				protein catabolic process					ovary(1)	1						CACCACGTGGCCCCCCGAACT	0.672													52	115	---	---	---	---						.	-	39691081	-	-	39691081	7	5	213	1	0	1	0	1	0	0	0	0	10232	739	26	0	662	0	NCCRP1	19	39691081	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	471426	39691081	19437902	849	106286											
FBL	2091	broad.mit.edu	37	chr19	40325193	40325193	+	Frame_Shift_Del	DEL	G	-	-																															gaacttcagttcttcaccttGgggggtggcctgtgagagga																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:40325193delG	uc002omn.2	-	9	1065	c.951delC	c.(949-951)CCCfs	p.P317fs	DYRK1B_uc002omi.2_5'Flank|DYRK1B_uc002omj.2_5'Flank|DYRK1B_uc002omk.2_5'Flank|DYRK1B_uc002oml.2_5'Flank|FBL_uc002omm.1_3'UTR	NM_001436	NP_001427	P22087	FBRL_HUMAN	fibrillarin	317					rRNA processing|tRNA processing	box C/D snoRNP complex|Cajal body	methyltransferase activity|protein binding|RNA binding			ovary(1)	1	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)		TCTTCACCTTGGGGGGTGGCC	0.507													51	105	---	---	---	---						.	-	40325193	-	-	40325193	7	5	213	1	0	1	0	1	0	0	0	0	5710	1335	47	0	18	0	FBL	19	40325193	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	634112	40325193	18803790	850	106287											
PRX	57716	broad.mit.edu	37	chr19	40899951	40899951	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gaaaaccccacgctgggcagCcgcacccgcaatccaccctc	10	3	8	20	3	0	0	0	0	0	0	2	1	1	0	6	1	2	4	6	1	3	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:40899951C>T	uc002onr.2	-	7	4577	c.4308G>A	c.(4306-4308)CGG>CGA	p.R1436R	PRX_uc002onq.2_Silent_p.R1297R|PRX_uc002ons.2_3'UTR	NM_181882	NP_870998	Q9BXM0	PRAX_HUMAN	periaxin isoform 2	1436					axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			ovary(2)	2			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			CGCTGGGCAGCCGCACCCGCA	0.657													25	60					0	0	1	0	0		T	40899951	T	T	40899951	2	4	213	1	0	0	0	0	0	0	0	1	12664	726	26	2		2	PRX	19	40899951	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	574758	40899951	18229032	851	106288											
LTBP4	8425	broad.mit.edu	37	chr19	41128322	41128322	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaggcacgttcccaggctcGcagccccaggcacctgctag	7	5	11	18	2	0	0	0	0	0	0	2	0	1	0	5	3	2	6	5	3	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:41128322G>A	uc002ooh.1	+	27	3435	c.3435G>A	c.(3433-3435)TCG>TCA	p.S1145S	LTBP4_uc002oog.1_Silent_p.S1108S|LTBP4_uc002ooi.1_Silent_p.S1078S|LTBP4_uc002ooj.1_Silent_p.S18S|LTBP4_uc002ook.1_Silent_p.S279S|LTBP4_uc002ool.1_Silent_p.S157S|LTBP4_uc010xvp.1_Intron	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	1145	Pro-rich.				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TCCCAGGCTCGCAGCCCCAGG	0.677													4	9					0	0	1	0	0		A	41128322	A	A	41128322	2	1	213	1	0	0	0	0	0	0	0	1	9094	1074	38	1		1	LTBP4	19	41128322	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	228371	41128322	18000661	852	106289											
AXL	558	broad.mit.edu	37	chr19	41749584	41749584	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtaccgcgtgcgcaagtcCtacagtcgtcggaccactga	9	7	12	13	5	0	1	0	1	0	0	3	2	1	2	3	2	3	2	3	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:41749584C>A	uc010ehj.2	+	12	1699	c.1509C>A	c.(1507-1509)TCC>TCA	p.S503S	CYP2F1_uc010xvw.1_Intron|AXL_uc010ehi.1_Silent_p.S503S|AXL_uc010ehk.2_Silent_p.S494S	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	503	Cytoplasmic (Potential).					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						TGCGCAAGTCCTACAGTCGTC	0.562													29	74					1.61788e-16	1.80107e-16	1	1	0		A	41749584	A	A	41749584	2	1	213	1	0	0	0	0	0	0	0	1	1239	668	24	5		5	AXL	19	41749584	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	621262	41749584	17379399	853	106290											
HNRNPUL1	11100	broad.mit.edu	37	chr19	41808818	41808818	+	Frame_Shift_Del	DEL	G	-	-																															gtggcggcttccagaaccgaGggggaggcagcggtggagga																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:41808818delG	uc002oqb.3	+	12	2225	c.1936delG	c.(1936-1938)GGGfs	p.G646fs	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_Frame_Shift_Del_p.G546fs|HNRNPUL1_uc002oqa.3_Frame_Shift_Del_p.G546fs|HNRNPUL1_uc010ehm.2_Frame_Shift_Del_p.G646fs|HNRNPUL1_uc002oqc.3_Frame_Shift_Del_p.G532fs|HNRNPUL1_uc002oqe.3_Intron|HNRNPUL1_uc002oqd.3_Frame_Shift_Del_p.G546fs|HNRNPUL1_uc010ehn.2_Frame_Shift_Del_p.G546fs|HNRNPUL1_uc010eho.2_Frame_Shift_Del_p.G546fs|HNRNPUL1_uc010xvy.1_Frame_Shift_Del_p.G546fs|HNRNPUL1_uc010ehp.2_Frame_Shift_Del_p.G502fs|HNRNPUL1_uc002oqf.3_Frame_Shift_Del_p.G170fs	NM_007040	NP_008971	Q9BUJ2	HNRL1_HUMAN	heterogeneous nuclear ribonucleoprotein U-like 1	646	Necessary for transcription repression.|Necessary for interaction with TP53.|Gly-rich.|1-4.|5 X 3 AA repeats of R-G-G.				nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	enzyme binding|RNA binding			central_nervous_system(1)|skin(1)	2						CCAGAACCGAGGGGGAGGCAG	0.642													28	51	---	---	---	---						.	-	41808818	-	-	41808818	7	5	213	1	0	1	0	1	0	0	0	0	7290	1000	35	0	1982	0	HNRNPUL1	19	41808818	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	59234	41808818	17320165	854	106291											
CCDC97	90324	broad.mit.edu	37	chr19	41828591	41828591	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	atgaggaagaacctgaggatGcgcccagcccagagctggat	12	5	14	10	1	0	4	0	2	0	2	0	7	0	7	3	3	4	1	3	3	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:41828591G>A	uc002oqg.2	+	5	1125	c.1003G>A	c.(1003-1005)GCG>ACG	p.A335T	CYP2F1_uc010xvw.1_Intron	NM_052848	NP_443080	Q96F63	CCD97_HUMAN	coiled-coil domain containing 97	335											0						ACCTGAGGATGCGCCCAGCCC	0.617													20	57					0	0	1	0	0		A	41828591	A	A	41828591	3	1	213	1	0	0	0	0	1	0	0	0	2878	1319	46	2	1021	2	CCDC97	19	41828591	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	19773	41828591	17300392	855	106292											
ATP1A3	478	broad.mit.edu	37	chr19	42492119	42492119	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtcgtcctcggtgcccGcctggataccgtaggccagg	5	7	16	13	4	0	0	0	0	0	0	3	1	1	1	5	6	2	1	5	6	2	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:42492119G>A	uc002osg.2	-	4	480	c.326C>T	c.(325-327)GCG>GTG	p.A109V	ATP1A3_uc010xwf.1_Missense_Mutation_p.A120V|ATP1A3_uc010xwg.1_Missense_Mutation_p.A79V|ATP1A3_uc010xwh.1_Missense_Mutation_p.A122V|ATP1A3_uc002osh.2_Missense_Mutation_p.A109V	NM_152296	NP_689509	P13637	AT1A3_HUMAN	Na+/K+ -ATPase alpha 3 subunit	109	Extracellular (Potential).				ATP biosynthetic process	endoplasmic reticulum|Golgi apparatus	ATP binding|metal ion binding|sodium:potassium-exchanging ATPase activity			ovary(1)|pancreas(1)	2						CTCGGTGCCCGCCTGGATACC	0.607													48	71					0	0	1	0	0		A	42492119	A	A	42492119	3	1	213	1	0	0	0	0	1	0	0	0	1131	1087	38	1	2795	1	ATP1A3	19	42492119	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	663528	42492119	16636864	856	106293											
CIC	23152	broad.mit.edu	37	chr19	42797376	42797376	+	Frame_Shift_Del	DEL	C	-	-																															actcccacggcccggagcagCcccccactgcccccacctgc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:42797376delC	uc002otf.1	+	15	3778	c.3738delC	c.(3736-3738)AGCfs	p.S1246fs		NM_015125	NP_055940	Q96RK0	CIC_HUMAN	capicua homolog	1246	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(4)|breast(4)|lung(1)|central_nervous_system(1)|skin(1)	11		Prostate(69;0.00682)				CCCGGAGCAGCCCCCCACTGC	0.706			T	DUX4	soft tissue sarcoma								7	1	---	---	---	---						.	-	42797376	-	-	42797376	7	5	213	1	0	1	0	1	0	0	0	0	3427	738	26	0	3796	0	CIC	19	42797376	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	305257	42797376	16331607	857	106294											
MEGF8	1954	broad.mit.edu	37	chr19	42853697	42853697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggagaaggagacgcggcGgctgcagcgccctgggtctg	7	5	18	11	4	2	2	1	0	1	2	2	4	2	2	1	5	2	2	1	5	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:42853697G>T	uc002otl.3	+	13	2779	c.2144G>T	c.(2143-2145)CGG>CTG	p.R715L	MEGF8_uc002otm.3_Missense_Mutation_p.R323L	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	782	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				GAGACGCGGCGGCTGCAGCGC	0.652													19	25					2.37509e-13	2.60814e-13	1	1	0		T	42853697	T	T	42853697	3	4	213	1	0	0	0	0	1	0	0	0	9481	1116	39	5	2194	5	MEGF8	19	42853697	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	56321	42853697	16275286	858	106295											
PSG7	5676	broad.mit.edu	37	chr19	43430061	43430061	+	Silent	SNP	A	G	G	1	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	cctgatagctgaaacttcccAttaattgtccaagaatactg	13	12	6	10	0	0	3	0	2	0	1	2	3	2	3	3	0	3	1	3	0	6	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:43430061A>G	uc002ovl.3	-	6	1209	c.1107T>C	c.(1105-1107)AAT>AAC	p.N369N	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Silent_p.N282N|PSG7_uc002ous.1_RNA|PSG7_uc002out.1_Silent_p.N95N|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Intron|PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Silent_p.N282N|PSG7_uc010xwl.1_Silent_p.N247N	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	369	Ig-like C2-type 3.				female pregnancy	extracellular region					0		Prostate(69;0.00682)				GAAACTTCCCATTAATTGTCC	0.453													70	187					0	0	1	0	0		G	43430061	G	G	43430061	2	3	213	1	0	0	0	0	0	0	0	1	12682	214	8	3		3	PSG7	19	43430061	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	576364	43430061	15698922	859	106296											
ZNF221	7638	broad.mit.edu	37	chr19	44466912	44466912	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cacttgaactgcttcattcaGgactctgcaaattccctgaa	11	12	6	12	0	3	2	2	2	1	0	4	3	4	3	1	1	3	2	1	1	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:44466912G>A	uc002oxx.2	+	3	362	c.34G>A	c.(34-36)GGA>AGA	p.G12R	ZNF221_uc010ejb.1_Missense_Mutation_p.G12R|ZNF221_uc010xws.1_Missense_Mutation_p.G12R	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	12					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				GCTTCATTCAGGACTCTGCAA	0.423													14	33					0	0	1	0	0		A	44466912	A	A	44466912	3	1	213	1	0	0	0	0	1	0	0	0	17800	1001	35	4	36	4	ZNF221	19	44466912	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1036851	44466912	14662071	860	106297											
APOE	348	broad.mit.edu	37	chr19	45412438	45412438	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatgcagcgccagtgggcCgggctggtggagaaggtgca	8	5	19	9	2	0	1	0	0	0	1	0	3	0	1	2	5	3	3	2	5	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:45412438C>T	uc002pab.2	+	4	968	c.885C>T	c.(883-885)GCC>GCT	p.A295A		NM_000041	NP_000032	P02649	APOE_HUMAN	apolipoprotein E precursor	295					anti-apoptosis|Cdc42 protein signal transduction|cell death|cGMP-mediated signaling|cholesterol efflux|cholesterol homeostasis|chylomicron remnant clearance|cytoskeleton organization|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|induction of apoptosis|intracellular transport|negative regulation of blood vessel endothelial cell migration|negative regulation of cholesterol biosynthetic process|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of platelet activation|nitric oxide mediated signal transduction|phospholipid efflux|positive regulation of cGMP biosynthetic process|positive regulation of cholesterol efflux|positive regulation of cholesterol esterification|positive regulation of low-density lipoprotein particle receptor catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of nitric-oxide synthase activity|receptor-mediated endocytosis|regulation of axon extension|regulation of neuronal synaptic plasticity|response to reactive oxygen species|reverse cholesterol transport|synaptic transmission, cholinergic|triglyceride metabolic process|very-low-density lipoprotein particle clearance|very-low-density lipoprotein particle remodeling	chylomicron|dendrite|high-density lipoprotein particle|intermediate-density lipoprotein particle|low-density lipoprotein particle|neuronal cell body|very-low-density lipoprotein particle	antioxidant activity|beta-amyloid binding|heparin binding|low-density lipoprotein particle receptor binding|metal chelating activity|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding|protein heterodimerization activity|protein homodimerization activity|tau protein binding|very-low-density lipoprotein particle receptor binding				0	Lung NSC(12;0.0018)|all_lung(12;0.00481)	Ovarian(192;0.0728)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00327)|Epithelial(262;0.174)	Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	GCCAGTGGGCCGGGCTGGTGG	0.692													10	23					0	0	1	0	0		T	45412438	T	T	45412438	2	4	213	1	0	0	0	0	0	0	0	1	802	639	23	1		1	APOE	19	45412438	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	945526	45412438	13716545	861	106298											
EHD2	30846	broad.mit.edu	37	chr19	48229320	48229320	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgcccgaggtgctgcgcGtctacatcggctccttctgg	4	9	13	15	5	2	0	0	0	2	0	4	1	3	0	2	3	3	3	2	3	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:48229320G>A	uc002phj.3	+	4	1004	c.754G>A	c.(754-756)GTC>ATC	p.V252I	EHD2_uc010xyu.1_Missense_Mutation_p.V116I|EHD2_uc010xyv.1_5'Flank	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	252					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		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)		GGTGCTGCGCGTCTACATCGG	0.677													4	6					0	0	1	0	0		A	48229320	A	A	48229320	3	1	213	1	0	0	0	0	1	0	0	0	4984	1145	40	1	764	1	EHD2	19	48229320	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2816882	48229320	10899663	862	106299											
RPL18	6141	broad.mit.edu	37	chr19	49118647	49118647	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggttagtttttgtagcctcgGctggcccgtcggcctctggc	2	13	14	12	3	1	0	0	0	1	0	3	0	1	0	3	5	1	4	3	5	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:49118647G>A	uc002pjq.1	-	7	582	c.549C>T	c.(547-549)AGC>AGT	p.S183S	FAM83E_uc002pjn.2_5'Flank|RPL18_uc002pjp.1_Silent_p.S131S	NM_000979	NP_000970	Q07020	RL18_HUMAN	ribosomal protein L18	183					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit	RNA binding|structural constituent of ribosome				0		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)		TGTAGCCTCGGCTGGCCCGTC	0.552													49	132					0	0	1	0	0		A	49118647	A	A	49118647	2	1	213	1	0	0	0	0	0	0	0	1	13589	1194	42	2		2	RPL18	19	49118647	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	889327	49118647	10010336	863	106300											
BCAT2	587	broad.mit.edu	37	chr19	49299906	49299906	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagccaaagacttcccgcaCgcggccctcctccagggccc	7	4	10	20	4	0	1	0	0	0	1	3	2	3	1	6	2	1	1	6	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:49299906C>T	uc002pkr.2	-	9	1031	c.994G>A	c.(994-996)GTG>ATG	p.V332M	BCAT2_uc002pkp.2_Missense_Mutation_p.V292M|BCAT2_uc002pkq.3_Missense_Mutation_p.V292M|BCAT2_uc002pks.2_Missense_Mutation_p.V292M|BCAT2_uc002pkt.2_Missense_Mutation_p.V240M|BCAT2_uc010emh.1_Missense_Mutation_p.V332M|BCAT2_uc010emi.1_Missense_Mutation_p.V240M	NM_001190	NP_001181	O15382	BCAT2_HUMAN	branched chain aminotransferase 2, mitochondrial	332						mitochondrial matrix	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			ovary(1)	1		all_epithelial(76;7e-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;0.000138)|all cancers(93;0.000366)|Epithelial(262;0.0195)|GBM - Glioblastoma multiforme(486;0.0224)	L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|Pyridoxal Phosphate(DB00114)	ACTTCCCGCACGCGGCCCTCC	0.652													33	82					0	0	1	0	0		T	49299906	T	T	49299906	3	4	213	1	0	0	0	0	1	0	0	0	1356	536	19	1	196	1	BCAT2	19	49299906	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	181259	49299906	9829077	864	106301											
GYS1	2997	broad.mit.edu	37	chr19	49494662	49494662	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgccctgctccgtgtacggcCccaccaggaagtagttgtcg	6	8	12	15	4	0	0	0	0	0	0	2	1	1	1	5	2	2	4	5	2	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:49494662C>A	uc002plp.2	-	2	438	c.197G>T	c.(196-198)GGG>GTG	p.G66V	GYS1_uc010xzy.1_Intron|GYS1_uc010emm.2_Missense_Mutation_p.G66V|GYS1_uc010xzz.1_Intron|GYS1_uc010yaa.1_Intron|RUVBL2_uc002plq.1_5'Flank|RUVBL2_uc010yab.1_5'Flank|RUVBL2_uc002plr.1_5'Flank|RUVBL2_uc002pls.1_5'Flank|RUVBL2_uc010emn.1_5'Flank	NM_002103	NP_002094	P13807	GYS1_HUMAN	glycogen synthase 1 (muscle) isoform 1	66					glucose metabolic process|glycogen biosynthetic process	cytosol	glycogen (starch) synthase activity|protein binding			ovary(2)	2		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)		CGTGTACGGCCCCACCAGGAA	0.642													88	157					4.869e-31	5.55552e-31	1	1	0		A	49494662	A	A	49494662	3	1	213	1	0	0	0	0	1	0	0	0	6928	623	22	5	2076	5	GYS1	19	49494662	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	194756	49494662	9634321	865	106302											
TRPM4	54795	broad.mit.edu	37	chr19	49671926	49671926	+	Frame_Shift_Del	DEL	G	-	-																															gacggcacacacggctgcctGgggggcgagaaccgcttccg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:49671926delG	uc002pmw.2	+	6	801	c.729delG	c.(727-729)CTGfs	p.L243fs	TRPM4_uc010emu.2_Frame_Shift_Del_p.L243fs|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_Frame_Shift_Del_p.L69fs|TRPM4_uc010emv.2_Frame_Shift_Del_p.L128fs|TRPM4_uc010yal.1_5'UTR	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	243	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		ACGGCTGCCTGGGGGGCGAGA	0.652													10	19	---	---	---	---						.	-	49671926	-	-	49671926	7	5	213	1	0	1	0	1	0	0	0	0	16614	1335	47	0	751	0	TRPM4	19	49671926	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	177264	49671926	9457057	866	106303											
PIH1D1	55011	broad.mit.edu	37	chr19	49949891	49949891	+	Frame_Shift_Del	DEL	G	-	-																															gtctagatgatacagctgctGggggccccccatcaccaggc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:49949891delG	uc002pns.2	-	8	1032	c.748delC	c.(748-750)CAGfs	p.Q250fs	uc002pnr.1_5'Flank	NM_017916	NP_060386	Q9NWS0	PIHD1_HUMAN	NOP17	250					box C/D snoRNP assembly	pre-snoRNP complex					0		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)		TACAGCTGCTGGGGGCCCCCC	0.622													48	77	---	---	---	---						.	-	49949891	-	-	49949891	7	5	213	1	0	1	0	1	0	0	0	0	11925	1357	47	0	132	0	PIH1D1	19	49949891	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	277965	49949891	9179092	867	106304											
PRR12	57479	broad.mit.edu	37	chr19	50099705	50099705	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accacctgcagagtgtcatcCgcaccagtgccagcctggat	9	7	10	15	1	1	1	1	0	0	1	2	2	2	2	6	1	3	2	6	1	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:50099705C>T	uc002poo.3	+	4	2113	c.2113C>T	c.(2113-2115)CGC>TGC	p.R705C		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		GAGTGTCATCCGCACCAGTGC	0.662													5	13					0	0	1	0	0		T	50099705	T	T	50099705	3	4	213	1	0	0	0	0	1	0	0	0	12606	652	23	1	2127	1	PRR12	19	50099705	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	149814	50099705	9029278	868	106305											
PTOV1	53635	broad.mit.edu	37	chr19	50357780	50357780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaagctgctggcttggagcGgcgtcctcgagtggcaggag	7	7	17	10	3	0	0	0	0	0	0	2	3	1	2	1	5	3	4	1	5	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:50357780G>A	uc002pqf.1	+	2	459	c.289G>A	c.(289-291)GGC>AGC	p.G97S	uc002ppy.3_5'Flank|PTOV1_uc010ybf.1_Missense_Mutation_p.G65S|PTOV1_uc002ppz.3_RNA|PTOV1_uc002pqb.3_Missense_Mutation_p.G65S|PTOV1_uc002pqa.2_RNA|PTOV1_uc002pqc.1_RNA|PTOV1_uc002pqd.2_RNA|PTOV1_uc002pqe.1_RNA	NM_017432	NP_059128	Q86YD1	PTOV1_HUMAN	prostate tumor overexpressed 1	97					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|perinuclear region of cytoplasm|plasma membrane					0		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)		GGCTTGGAGCGGCGTCCTCGA	0.687													40	62					0	0	1	0	0		A	50357780	A	A	50357780	3	1	213	1	0	0	0	0	1	0	0	0	12792	1116	39	1	295	1	PTOV1	19	50357780	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	258075	50357780	8771203	869	106306											
FPR1	2357	broad.mit.edu	37	chr19	52249510	52249510	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagaaaaaaggctgctgcGacaaaggagaggacccgtaa	17	3	13	8	2	0	2	0	0	0	2	0	6	0	3	1	3	2	3	1	3	5	1	rs148898220		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:52249510G>A	uc002pxq.2	-	2	833	c.738C>T	c.(736-738)GTC>GTT	p.V246V		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	246	Helical; Name=6; (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	AGGCTGCTGCGACAAAGGAGA	0.493													21	36					0	0	1	0	0		A	52249510	A	A	52249510	2	1	213	1	0	0	0	0	0	0	0	1	6052	1045	37	1		1	FPR1	19	52249510	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1891730	52249510	6879473	870	106307											
PRKCG	5582	broad.mit.edu	37	chr19	54395893	54395893	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgctcaaggcgcccgtggatGgctggtgaggagcagggctg	6	7	19	9	2	1	1	1	1	0	0	1	3	1	3	1	6	2	4	1	6	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:54395893G>T	uc002qcq.1	+	7	1099	c.817G>T	c.(817-819)GGC>TGC	p.G273C	PRKCG_uc010eqz.1_Missense_Mutation_p.G273C|PRKCG_uc010yef.1_Missense_Mutation_p.G273C|PRKCG_uc010yeg.1_Missense_Mutation_p.G273C|PRKCG_uc010yeh.1_Missense_Mutation_p.G160C	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	273					activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GCCCGTGGATGGCTGGTGAGG	0.637													11	24					3.07112e-06	3.20517e-06	1	1	0		T	54395893	T	T	54395893	3	4	213	1	0	0	0	0	1	0	0	0	12534	1348	47	5	843	5	PRKCG	19	54395893	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2146383	54395893	4733090	871	106308											
CACNG7	59284	broad.mit.edu	37	chr19	54417817	54417817	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	accggagatcaatttggtgaCggaaaacacggagaatattc	15	8	11	7	3	1	3	1	1	0	2	2	6	1	4	1	4	1	0	1	4	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:54417817C>T	uc002qcr.1	+	2	275	c.260C>T	c.(259-261)ACG>ATG	p.T87M	CACNG7_uc010era.1_Missense_Mutation_p.T87M	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7	87					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0711)		AATTTGGTGACGGAAAACACG	0.552													11	39					0	0	1	0	0		T	54417817	T	T	54417817	3	4	213	1	0	0	0	0	1	0	0	0	2565	536	19	1	266	1	CACNG7	19	54417817	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	21924	54417817	4711166	872	106309											
LILRA2	11027	broad.mit.edu	37	chr19	55087402	55087402	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctgaccaaggagggggcaGgccatcccccactgcatctg	8	7	12	14	0	2	1	0	1	2	0	3	2	3	2	4	4	1	2	4	4	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:55087402G>T	uc002qgg.3	+	6	1170	c.1081G>T	c.(1081-1083)GGC>TGC	p.G361C	LILRA2_uc010ern.2_Missense_Mutation_p.G361C|LILRA2_uc002qgf.2_Missense_Mutation_p.G361C|LILRA2_uc010yfe.1_Missense_Mutation_p.G361C|LILRA2_uc010yff.1_Missense_Mutation_p.G349C|LILRA2_uc010ero.2_Missense_Mutation_p.G349C|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	361	Ig-like C2-type 4.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GGAGGGGGCAGGCCATCCCCC	0.612													25	50					1.1804e-14	1.30713e-14	1	1	0		T	55087402	T	T	55087402	3	4	213	1	0	0	0	0	1	0	0	0	8801	1000	35	5	1103	5	LILRA2	19	55087402	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	669585	55087402	4041581	873	106310											
LILRB1	10859	broad.mit.edu	37	chr19	55144041	55144041	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtataaggacggggaacGtgacttccttcagctcgctg	8	11	12	10	3	2	1	1	1	1	0	4	3	3	3	1	3	2	3	1	3	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:55144041G>A	uc002qgj.2	+	7	1128	c.788G>A	c.(787-789)CGT>CAT	p.R263H	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.R263H|LILRB1_uc002qgk.2_Missense_Mutation_p.R263H|LILRB1_uc002qgm.2_Missense_Mutation_p.R263H|LILRB1_uc010erq.2_Missense_Mutation_p.R263H|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	263	Ig-like C2-type 3.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		GACGGGGAACGTGACTTCCTT	0.617										HNSCC(37;0.09)			6	110					0	0	1	0	0		A	55144041	A	A	55144041	3	1	213	1	0	0	0	0	1	0	0	0	8806	1145	40	1	806	1	LILRB1	19	55144041	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	56639	55144041	3984942	874	106311											
KIR2DS4	3809	broad.mit.edu	37	chr19	55349279	55349279	+	Missense_Mutation	SNP	T	A	A	0	1	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	gctacggttctgttcctcacTccccctatcagttgtcagct	5	14	7	15	1	4	0	3	0	1	0	6	0	6	0	3	1	2	5	3	1	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:55349279T>A	uc002qhm.1	+	3	365	c.319T>A	c.(319-321)TCC>ACC	p.S107T	KIR2DS4_uc010yfj.1_Missense_Mutation_p.S100T|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Missense_Mutation_p.S107T|KIR2DS4_uc002qhn.1_Missense_Mutation_p.S54T	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	107	Extracellular (Potential).|Ig-like C2-type 1.					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		TGTTCCTCACTCCCCCTATCA	0.512													10	173					0	0	1	0	0		A	55349279	A	A	55349279	3	1	213	1	0	0	0	0	1	0	0	0	8335	1551	54	5	329	5	KIR2DS4	19	55349279	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	205238	55349279	3779704	875	106312											
NLRP13	126204	broad.mit.edu	37	chr19	56413493	56413493	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctgttcttgctcagattcagGtgtgtcaggctcctgttctg	4	16	11	10	0	5	1	3	0	2	1	6	1	6	1	1	2	1	4	1	2	0	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:56413493G>A	uc010ygg.1	-	9	2722	c.2697C>T	c.(2695-2697)CAC>CAT	p.H899H		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	899	LRR 4.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		TCAGATTCAGGTGTGTCAGGC	0.557													22	38					0	0	1	0	0		A	56413493	A	A	56413493	2	1	213	1	0	0	0	0	0	0	0	1	10494	1252	44	4		4	NLRP13	19	56413493	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1064214	56413493	2715490	876	106313											
ZIM2	23619	broad.mit.edu	37	chr19	57286450	57286450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttacacgttcacagagattcGcacactggacggaaggcttt	11	10	10	10	3	1	1	1	0	0	1	2	4	1	3	0	3	1	3	0	3	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:57286450G>A	uc002qnr.2	-	11	1572	c.1190C>T	c.(1189-1191)GCG>GTG	p.A397V	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.A193V|ZIM2_uc010ygr.1_Missense_Mutation_p.A193V|ZIM2_uc002qnq.2_Missense_Mutation_p.A397V|ZIM2_uc010etp.2_Missense_Mutation_p.A397V|ZIM2_uc010ygs.1_Missense_Mutation_p.A397V	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	397					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		ACAGAGATTCGCACACTGGAC	0.458													20	39					0	0	1	0	0		A	57286450	A	A	57286450	3	1	213	1	0	0	0	0	1	0	0	0	17709	1087	38	1	397	1	ZIM2	19	57286450	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	872957	57286450	1842533	877	106314											
ZNF548	147694	broad.mit.edu	37	chr19	57910087	57910087	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ccttcatttgggaagaaccaCagagttcacatggcagagga	13	8	11	9	0	2	3	2	0	0	3	2	5	2	5	2	3	1	2	2	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:57910087C>A	uc002qom.2	+	3	682	c.432C>A	c.(430-432)CAC>CAA	p.H144Q	ZNF547_uc002qpm.3_Intron|ZNF548_uc002qon.2_Missense_Mutation_p.H147Q	NM_152909	NP_690873	Q8NEK5	ZN548_HUMAN	zinc finger protein 548	144					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			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)		GGAAGAACCACAGAGTTCACA	0.488													22	37					8.04996e-18	8.98997e-18	1	1	0		A	57910087	A	A	57910087	3	1	213	1	0	0	0	0	1	0	0	0	18005	477	17	5	482	5	ZNF548	19	57910087	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	623637	57910087	1218896	878	106315											
ZSCAN4	201516	broad.mit.edu	37	chr19	58189949	58189949	+	Silent	SNP	C	T	T	0	0	0	1	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	gtctttaagtatctctgtcaCttattagctcaccagagaag	11	14	7	9	0	4	1	2	0	2	1	5	2	4	1	1	0	1	2	1	0	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:58189949C>T	uc002qpu.2	+	5	1675	c.978C>T	c.(976-978)CAC>CAT	p.H326H		NM_152677	NP_689890	Q8NAM6	ZSCA4_HUMAN	zinc finger and SCAN domain containing 4	326	C2H2-type 1.				telomere maintenance via telomere lengthening|viral reproduction	nuclear chromosome, telomeric region	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ATCTCTGTCACTTATTAGCTC	0.438													16	56					0	0	1	0	0		T	58189949	T	T	58189949	2	4	213	1	0	0	0	0	0	0	0	1	18262	564	20	4		4	ZSCAN4	19	58189949	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	279862	58189949	939034	879	106316											
ZNF551	90233	broad.mit.edu	37	chr19	58198694	58198694	+	Missense_Mutation	SNP	A	G	G	1	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	ttagctacaaatctaacctcAttgaacaccagagagttcac	15	10	5	11	0	3	2	2	1	1	1	3	3	3	2	2	0	4	2	2	0	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:58198694A>G	uc002qpw.3	+	3	1226	c.1003A>G	c.(1003-1005)ATT>GTT	p.I335V	ZNF551_uc002qpv.3_Missense_Mutation_p.I278V|ZNF776_uc002qpx.2_Intron	NM_138347	NP_612356	Q7Z340	ZN551_HUMAN	zinc finger protein 551	351	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0577)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		ATCTAACCTCATTGAACACCA	0.453													30	43					0	0	1	0	0		G	58198694	G	G	58198694	3	3	213	1	0	0	0	0	1	0	0	0	18008	217	8	3	1013	3	ZNF551	19	58198694	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	8745	58198694	930289	880	106317											
ZNF552	79818	broad.mit.edu	37	chr19	58319557	58319557	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggagctttcggcaaaagattTcccacattcactgcactcat	11	11	7	12	1	2	1	2	0	0	1	4	2	3	2	1	2	2	3	1	2	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr19:58319557T>G	uc002qqg.2	-	3	1245	c.1075A>C	c.(1075-1077)AAA>CAA	p.K359Q	ZNF587_uc002qqb.2_Intron|ZNF552_uc010yhg.1_Missense_Mutation_p.K355Q	NM_024762	NP_079038	Q9H707	ZN552_HUMAN	zinc finger protein 552	359	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		GCAAAAGATTTCCCACATTCA	0.433													27	45					0	0	1	0	0		G	58319557	G	G	58319557	3	3	213	1	0	0	0	0	1	0	0	0	18009	1792	62	5	152	5	ZNF552	19	58319557	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	120863	58319557	809426	881	106318											
SDCBP2	27111	broad.mit.edu	37	chr20	1291095	1291095	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcagtggcttcaggcatctGggatggagtggtccatggtg	6	11	17	7	0	2	0	1	0	1	0	3	2	3	2	1	6	1	3	1	6	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:1291095G>A	uc002wev.3	-	9	998	c.869C>T	c.(868-870)CCA>CTA	p.P290L	SDCBP2_uc002weu.3_Missense_Mutation_p.P205L	NM_080489	NP_536737	Q9H190	SDCB2_HUMAN	syndecan binding protein 2 isoform a	290					intracellular signal transduction|intracellular transport|nervous system development	cytoplasm	protein C-terminus binding|protein heterodimerization activity|protein homodimerization activity			large_intestine(1)|skin(1)	2						TCAGGCATCTGGGATGGAGTG	0.637													14	34					0	0	1	0	0		A	1291095	A	A	1291095	3	1	213	1	0	0	0	0	1	0	0	0	13981	1348	47	4	13	4	SDCBP2	20	1291095	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		1291095	61734425	882	106319											
ATRN	8455	broad.mit.edu	37	chr20	3540127	3540127	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtcattctttggcattataCaaggtaaagcatctccactc	11	13	7	10	0	3	0	1	0	2	0	5	0	3	0	1	3	2	3	1	3	5	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:3540127C>T	uc002wim.2	+	7	1290	c.1200C>T	c.(1198-1200)TAC>TAT	p.Y400Y	ATRN_uc002wil.2_Silent_p.Y400Y	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	400	Extracellular (Potential).|Kelch 1.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						TGGCATTATACAAGGTAAAGC	0.383													19	37					0	0	1	0	0		T	3540127	T	T	3540127	2	4	213	1	0	0	0	0	0	0	0	1	1207	489	17	4		4	ATRN	20	3540127	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2249032	3540127	59485393	883	106320											
CDS2	8760	broad.mit.edu	37	chr20	5167481	5167481	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	ggtgatccagtcagtcattgGctgggtatgtgccactcaca	8	11	12	10	0	3	1	3	1	0	0	4	1	4	1	2	3	1	2	2	3	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:5167481G>A	uc002wls.2	+	10	1234	c.977G>A	c.(976-978)GGC>GAC	p.G326D	CDS2_uc002wlr.1_Missense_Mutation_p.G248D|CDS2_uc010zqt.1_RNA|CDS2_uc002wlu.2_Missense_Mutation_p.G271D|CDS2_uc010zqu.1_Missense_Mutation_p.G206D|CDS2_uc002wlv.2_Missense_Mutation_p.G228D|CDS2_uc010zqv.1_Intron	NM_003818	NP_003809	O95674	CDS2_HUMAN	phosphatidate cytidylyltransferase 2	326					phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphatidate cytidylyltransferase activity				0						TCAGTCATTGGCTGGGTATGT	0.547													25	54					0	0	1	0	0		A	5167481	A	A	5167481	3	1	213	1	0	0	0	0	1	0	0	0	3181	1203	42	2	1015	2	CDS2	20	5167481	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1627354	5167481	57858039	884	106321											
JAG1	182	broad.mit.edu	37	chr20	10629248	10629248	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacagacactggaatctgttGatttcattctgacagtgacc	11	12	8	10	0	3	4	1	3	2	1	3	5	3	5	1	1	0	1	1	1	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:10629248G>A	uc002wnw.2	-	12	2034	c.1518C>T	c.(1516-1518)ATC>ATT	p.I506I	JAG1_uc010gcd.1_Silent_p.I64I	NM_000214	NP_000205	P78504	JAG1_HUMAN	jagged 1 precursor	506	EGF-like 8; calcium-binding (Potential).|Extracellular (Potential).				angiogenesis|cell communication|cell fate determination|endothelial cell differentiation|hemopoiesis|keratinocyte differentiation|myoblast differentiation|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation	extracellular region|integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding|structural molecule activity			lung(3)|ovary(2)|central_nervous_system(2)|breast(1)|pancreas(1)	9						GGAATCTGTTGATTTCATTCT	0.507									Alagille_Syndrome				23	28					0	0	1	0	0		A	10629248	A	A	10629248	2	1	213	1	0	0	0	0	0	0	0	1	7950	1280	45	4		4	JAG1	20	10629248	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5461767	10629248	52396272	885	106322											
KIF16B	55614	broad.mit.edu	37	chr20	16359706	16359706	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcactttttcctcctgacGtgcaatgttggcagtgaatt	7	15	8	11	1	1	2	1	2	0	0	3	2	3	2	3	1	1	3	3	1	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:16359706G>A	uc002wpg.1	-	19	3099	c.2941C>T	c.(2941-2943)CGT>TGT	p.R981C	KIF16B_uc002wpe.1_Missense_Mutation_p.R363C|KIF16B_uc002wpf.1_Missense_Mutation_p.R363C|KIF16B_uc010gch.1_Missense_Mutation_p.R981C|KIF16B_uc010gci.1_Missense_Mutation_p.R981C|KIF16B_uc010gcj.1_Missense_Mutation_p.R992C	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	981	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						TCCTCCTGACGTGCAATGTTG	0.512													47	123					0	0	1	0	0		A	16359706	A	A	16359706	3	1	213	1	0	0	0	0	1	0	0	0	8294	1145	40	1	1044	1	KIF16B	20	16359706	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5730458	16359706	46665814	886	106323											
CST7	8530	broad.mit.edu	37	chr20	24938043	24938043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgaaaagttcaacaactgcaCgaacgacatgttcttgttca	14	11	7	9	2	3	1	2	1	1	0	3	3	3	1	0	0	4	4	0	0	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:24938043C>T	uc002wtx.1	+	2	467	c.257C>T	c.(256-258)ACG>ATG	p.T86M		NM_003650	NP_003641	O76096	CYTF_HUMAN	cystatin F	64					immune response	cytoplasm|extracellular region	cysteine-type endopeptidase inhibitor activity			ovary(1)	1						AACAACTGCACGAACGACATG	0.493													26	70					0	0	1	0	0		T	24938043	T	T	24938043	3	4	213	1	0	0	0	0	1	0	0	0	3980	536	19	1	197	1	CST7	20	24938043	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8578337	24938043	38087477	887	106324											
RALGAPB	57148	broad.mit.edu	37	chr20	37168534	37168534	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctccagggatctgcactccaTgatagtggcagcttttcagt	8	12	10	11	0	2	1	1	1	1	0	4	2	4	2	2	2	2	3	2	2	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:37168534T>C	uc002xiw.2	+	17	2752	c.2495T>C	c.(2494-2496)ATG>ACG	p.M832T	RALGAPB_uc002xix.2_Missense_Mutation_p.M828T|RALGAPB_uc002xiy.1_Missense_Mutation_p.M832T|RALGAPB_uc002xiz.2_Missense_Mutation_p.M610T|RALGAPB_uc002xja.1_Missense_Mutation_p.M559T	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	832					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CTGCACTCCATGATAGTGGCA	0.453													14	52					0	0	1	0	0		C	37168534	C	C	37168534	3	2	213	1	0	0	0	0	1	0	0	0	13040	1464	51	3	2557	3	RALGAPB	20	37168534	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	12230491	37168534	25856986	888	106325											
PPP1R16B	26051	broad.mit.edu	37	chr20	37464806	37464806	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggaggcctcgctgaggaacGacgccgaggaaggtaggccc	9	4	17	11	4	0	1	0	1	0	0	1	6	0	4	3	6	1	2	3	6	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:37464806G>A	uc002xje.2	+	2	427	c.238G>A	c.(238-240)GAC>AAC	p.D80N	PPP1R16B_uc010ggc.2_Missense_Mutation_p.D80N	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	protein phosphatase 1 regulatory inhibitor	80					regulation of filopodium assembly|signal transduction	nucleus|plasma membrane	protein phosphatase binding			upper_aerodigestive_tract(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GCTGAGGAACGACGCCGAGGA	0.652													8	29					0	0	1	0	0		A	37464806	A	A	37464806	3	1	213	1	0	0	0	0	1	0	0	0	12388	1058	37	1	240	1	PPP1R16B	20	37464806	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	296272	37464806	25560714	889	106326											
DHX35	60625	broad.mit.edu	37	chr20	37617501	37617501	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggggtgcagtgctgggccacGaggtgggctactgcatccgc	5	7	18	11	2	0	0	0	0	0	0	1	1	1	0	2	5	4	4	2	5	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:37617501G>A	uc002xjh.2	+	5	402	c.391G>A	c.(391-393)GAG>AAG	p.E131K	DHX35_uc010zwa.1_5'UTR|DHX35_uc010zwb.1_5'UTR|DHX35_uc010zwc.1_Missense_Mutation_p.E100K	NM_021931	NP_068750	Q9H5Z1	DHX35_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 35	131	Helicase ATP-binding.					catalytic step 2 spliceosome	ATP binding|ATP-dependent helicase activity|nucleic acid binding			lung(1)|kidney(1)|skin(1)	3		Myeloproliferative disorder(115;0.00878)				GCTGGGCCACGAGGTGGGCTA	0.498													39	69					0	0	1	0	0		A	37617501	A	A	37617501	3	1	213	1	0	0	0	0	1	0	0	0	4514	1059	37	1	409	1	DHX35	20	37617501	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	152695	37617501	25408019	890	106327											
MAFB	9935	broad.mit.edu	37	chr20	39317379	39317379	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcccggacgctccgcgcGccccagtggctccttcttca	3	8	10	20	5	2	0	1	0	1	0	4	1	4	1	6	2	1	2	6	2	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:39317379G>A	uc002xji.2	-	1	498	c.112C>T	c.(112-114)CGC>TGC	p.R38C		NM_005461	NP_005452	Q9Y5Q3	MAFB_HUMAN	transcription factor MAFB	38					negative regulation of erythrocyte differentiation		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding				0		Myeloproliferative disorder(115;0.00878)				CGCTCCGCGCGCCCCAGTGGC	0.682			T	IGH@	MM								29	48					0	0	1	0	0		A	39317379	A	A	39317379	3	1	213	1	0	0	0	0	1	0	0	0	9176	1087	38	1	863	1	MAFB	20	39317379	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1699878	39317379	23708141	891	106328											
PLCG1	5335	broad.mit.edu	37	chr20	39791907	39791907	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tccagcagttccttcttgacTaccagggggtatggctgggc	6	11	13	11	0	1	1	0	1	1	0	3	1	3	1	3	4	2	4	3	4	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:39791907T>C	uc002xjp.1	+	8	902	c.781T>C	c.(781-783)TAC>CAC	p.Y261H	PLCG1_uc002xjo.1_Missense_Mutation_p.Y261H|PLCG1_uc010zwe.1_5'Flank|PLCG1_uc010ggf.2_5'Flank	NM_182811	NP_877963	P19174	PLCG1_HUMAN	phospholipase C, gamma 1 isoform b	261					activation of phospholipase C activity|axon guidance|blood coagulation|cellular response to epidermal growth factor stimulus|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|interspecies interaction between organisms|intracellular signal transduction|leukocyte migration|nerve growth factor receptor signaling pathway|phospholipid catabolic process|positive regulation of angiogenesis|positive regulation of blood vessel endothelial cell migration|positive regulation of epithelial cell migration|T cell receptor signaling pathway	cytosol|lamellipodium|plasma membrane|ruffle	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|receptor signaling protein activity			lung(3)|breast(3)|skin(2)	8		Myeloproliferative disorder(115;0.00878)				CCTTCTTGACTACCAGGGGGT	0.612													15	91					0	0	1	0	0		C	39791907	C	C	39791907	3	2	213	1	0	0	0	0	1	0	0	0	12054	1522	53	3	811	3	PLCG1	20	39791907	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	474528	39791907	23233613	892	106329											
PTPRT	11122	broad.mit.edu	37	chr20	40714411	40714411	+	Missense_Mutation	SNP	T	G	G	0	1	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	atattctgtggatgatgtccTcgtcgatgtctgcggagacg	7	13	13	8	4	2	2	0	1	2	1	5	5	3	3	1	2	1	0	1	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:40714411T>G	uc002xkg.2	-	28	4113	c.3929A>C	c.(3928-3930)GAG>GCG	p.E1310A	PTPRT_uc010ggj.2_Missense_Mutation_p.E1329A|PTPRT_uc010ggi.2_Missense_Mutation_p.E513A	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1310	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				GATGATGTCCTCGTCGATGTC	0.562													14	88					0	0	1	0	0		G	40714411	G	G	40714411	3	3	213	1	0	0	0	0	1	0	0	0	12837	1551	54	5	412	5	PTPRT	20	40714411	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	922504	40714411	22311109	893	106330											
TOX2	84969	broad.mit.edu	37	chr20	42683112	42683112	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cccagtgccactttcggtgaCgtgtccaaaatcgtggcctc	7	10	10	14	3	0	1	0	1	0	0	4	1	1	1	4	2	1	0	4	2	2	1	rs138861548		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:42683112C>T	uc002xlf.3	+	5	869	c.852C>T	c.(850-852)GAC>GAT	p.D284D	TOX2_uc010ggo.2_Silent_p.D275D|TOX2_uc002xle.3_Silent_p.D233D|TOX2_uc010ggp.2_Silent_p.D233D|TOX2_uc002xlg.2_Silent_p.D233D|TOX2_uc010zwk.1_Silent_p.D153D	NM_001098798	NP_001092268	Q96NM4	TOX2_HUMAN	TOX high mobility group box family member 2	284	HMG box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Myeloproliferative disorder(115;0.00452)	COAD - Colon adenocarcinoma(18;0.00189)			CTTTCGGTGACGTGTCCAAAA	0.592													11	29					0	0	1	0	0		T	42683112	T	T	42683112	2	4	213	1	0	0	0	0	0	0	0	1	16404	535	19	1		1	TOX2	20	42683112	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1968701	42683112	20342408	894	106331											
KCNS1	3787	broad.mit.edu	37	chr20	43726361	43726361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgcgccaacttgagtacgCggaagatgcgcatgaggcgg	9	5	17	10	6	0	3	0	2	0	1	0	4	0	4	1	4	3	2	1	4	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:43726361C>T	uc002xnc.2	-	4	1449	c.1052G>A	c.(1051-1053)CGC>CAC	p.R351H	KCNS1_uc002xnd.2_Missense_Mutation_p.R351H	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	351	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				CTTGAGTACGCGGAAGATGCG	0.682													8	20					0	0	1	0	0		T	43726361	T	T	43726361	3	4	213	1	0	0	0	0	1	0	0	0	8104	768	27	1	536	1	KCNS1	20	43726361	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1043249	43726361	19299159	895	106332											
WFDC6	140870	broad.mit.edu	37	chr20	44167994	44167994	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgtgcccaggttcctggatgTcccccaaaaggatgaatggt	9	9	12	11	1	0	1	0	1	0	0	2	3	2	3	4	4	1	1	4	4	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:44167994T>C	uc002xos.1	-	1	141	c.53A>G	c.(52-54)GAC>GGC	p.D18G	SPINLW1_uc010zxc.1_Intron	NM_080827	NP_543017	Q9BQY6	WFDC6_HUMAN	WAP four-disulfide core domain 6 precursor	18						extracellular region	serine-type endopeptidase inhibitor activity				0		Myeloproliferative disorder(115;0.0122)				TTCCTGGATGTCCCCCAAAAG	0.512													19	51					0	0	1	0	0		C	44167994	C	C	44167994	3	2	213	1	0	0	0	0	1	0	0	0	17381	1667	58	3	219	3	WFDC6	20	44167994	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	441633	44167994	18857526	896	106333											
ZNF335	63925	broad.mit.edu	37	chr20	44586250	44586250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctgtgccccccagttccCgctgagcactcatgttcagc	5	9	11	16	1	2	1	2	1	0	0	3	1	3	1	4	1	3	5	4	1	0	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:44586250C>T	uc002xqw.2	-	17	2540	c.2417G>A	c.(2416-2418)CGG>CAG	p.R806Q	ZNF335_uc002xqv.2_5'Flank|ZNF335_uc010zxk.1_Missense_Mutation_p.R651Q	NM_022095	NP_071378	Q9H4Z2	ZN335_HUMAN	zinc finger protein 335	806					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|ovary(1)	4		Myeloproliferative disorder(115;0.0122)				CCCCAGTTCCCGCTGAGCACT	0.488													9	29					0	0	1	0	0		T	44586250	T	T	44586250	3	4	213	1	0	0	0	0	1	0	0	0	17877	652	23	1	1659	1	ZNF335	20	44586250	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	418256	44586250	18439270	897	106334											
PREX1	57580	broad.mit.edu	37	chr20	47317421	47317421	+	Missense_Mutation	SNP	A	G	G	1	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	gcagatgtctgtgaggttggAaccctggaagcgcaatgagg	10	8	16	7	1	1	3	0	2	1	1	1	5	1	5	1	4	2	3	1	4	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:47317421A>G	uc002xtw.1	-	7	810	c.787T>C	c.(787-789)TCC>CCC	p.S263P		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	263					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GTGAGGTTGGAACCCTGGAAG	0.532													44	109					0	0	1	0	0		G	47317421	G	G	47317421	3	3	213	1	0	0	0	0	1	0	0	0	12498	246	9	3	4328	3	PREX1	20	47317421	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2731171	47317421	15708099	898	106335											
ATP9A	10079	broad.mit.edu	37	chr20	50273655	50273655	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccggaccttagtggtgagcGttgggcccttctgagccggt	4	10	16	11	3	1	2	0	2	1	0	1	3	1	3	4	4	2	1	4	4	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:50273655G>A	uc002xwg.1	-	14	1328	c.1328C>T	c.(1327-1329)ACG>ATG	p.T443M	ATP9A_uc010gih.1_Missense_Mutation_p.T307M|ATP9A_uc002xwf.1_Intron	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A	443	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(4)	4						AGTGGTGAGCGTTGGGCCCTT	0.577													9	37					0	0	1	0	0		A	50273655	A	A	50273655	3	1	213	1	0	0	0	0	1	0	0	0	1199	1145	40	1	1875	1	ATP9A	20	50273655	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2956234	50273655	12751865	899	106336											
SALL4	57167	broad.mit.edu	37	chr20	50406893	50406893	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtggatgctgggaagaggcGtggggaccttggaggagctg	8	7	21	5	1	0	1	0	0	0	1	0	6	0	6	1	7	2	2	1	7	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:50406893G>A	uc002xwh.3	-	2	2230	c.2129C>T	c.(2128-2130)ACG>ATG	p.T710M	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	710					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GGGAAGAGGCGTGGGGACCTT	0.587													24	30					0	0	1	0	0		A	50406893	A	A	50406893	3	1	213	1	0	0	0	0	1	0	0	0	13838	1145	40	1	1044	1	SALL4	20	50406893	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	133238	50406893	12618627	900	106337											
BCAS1	8537	broad.mit.edu	37	chr20	52645067	52645067	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccttgtccagcttgaagaatTtgtcaaaaaagctggagtcc	12	11	9	9	0	1	2	1	1	0	1	3	3	3	3	3	1	2	2	3	1	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:52645067T>C	uc002xws.2	-	4	925	c.587A>G	c.(586-588)AAA>AGA	p.K196R	BCAS1_uc010zzb.1_Missense_Mutation_p.K99R|BCAS1_uc010gim.2_Missense_Mutation_p.K99R|BCAS1_uc002xwt.2_Missense_Mutation_p.K196R|BCAS1_uc010gil.1_Missense_Mutation_p.K196R|BCAS1_uc010zzc.1_Missense_Mutation_p.K99R	NM_003657	NP_003648	O75363	BCAS1_HUMAN	breast carcinoma amplified sequence 1	196						cytoplasm	protein binding			ovary(2)|central_nervous_system(1)	3	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)			CTTGAAGAATTTGTCAAAAAA	0.572													55	118					0	0	1	0	0		C	52645067	C	C	52645067	3	2	213	1	0	0	0	0	1	0	0	0	1351	1841	64	3	1203	3	BCAS1	20	52645067	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2238174	52645067	10380453	901	106338											
CDH4	1002	broad.mit.edu	37	chr20	60498761	60498761	+	Silent	SNP	A	C	C	1	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	ggttcatgcagcaggctgtgAggtgggtgcacaggacatgc	8	8	17	8	0	1	1	1	1	0	0	1	2	1	2	0	5	4	5	0	5	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:60498761A>C	uc002ybn.1	+	10	1641	c.1627A>C	c.(1627-1629)AGA>CGA	p.R543R	CDH4_uc002ybp.1_Silent_p.R469R	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	543	Cadherin 4.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GCAGGCTGTGAGGTGGGTGCA	0.607													11	21					0	0	1	0	0		C	60498761	C	C	60498761	2	2	213	1	0	0	0	0	0	0	0	1	3115	318	11	5		5	CDH4	20	60498761	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	7853694	60498761	2526759	902	106339											
LSM14B	149986	broad.mit.edu	37	chr20	60704949	60704949	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaagctgttacctggcaaggGcaccacagggacgcagctca	12	5	12	12	1	1	0	1	0	0	0	1	1	1	1	2	3	3	6	2	3	3	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:60704949G>A	uc010gjy.1	+	4	742	c.536G>A	c.(535-537)GGC>GAC	p.G179D	LSM14B_uc010gjx.1_Missense_Mutation_p.G205D|LSM14B_uc002ybv.2_Missense_Mutation_p.G179D|LSM14B_uc010gjz.1_Missense_Mutation_p.G135D|LSM14B_uc010zzz.1_Missense_Mutation_p.G99D	NM_144703	NP_653304	Q9BX40	LS14B_HUMAN	LSM14 homolog B	179					multicellular organismal development|regulation of translation	ribonucleoprotein complex					0	Breast(26;3.97e-09)		BRCA - Breast invasive adenocarcinoma(19;1.28e-07)			CCTGGCAAGGGCACCACAGGG	0.557													6	14					0	0	1	0	0		A	60704949	A	A	60704949	3	1	213	1	0	0	0	0	1	0	0	0	9073	1203	42	2	550	2	LSM14B	20	60704949	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	206188	60704949	2320571	903	106340											
DIDO1	11083	broad.mit.edu	37	chr20	61511147	61511147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcggggccctgtccgggcGcactggaggagagcgcggag	5	4	19	13	5	0	1	0	0	0	1	2	4	1	3	3	6	1	1	3	6	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:61511147G>A	uc002ydr.1	-	16	6425	c.6161C>T	c.(6160-6162)GCG>GTG	p.A2054V	DIDO1_uc002yds.1_Missense_Mutation_p.A2054V	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	2054					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CTGTCCGGGCGCACTGGAGGA	0.716													49	94					0	0	1	0	0		A	61511147	A	A	61511147	3	1	213	1	0	0	0	0	1	0	0	0	4528	1087	38	1	565	1	DIDO1	20	61511147	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	806198	61511147	1514373	904	106341											
YTHDF1	54915	broad.mit.edu	37	chr20	61833843	61833843	+	Silent	SNP	A	G	G	1	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	cggagctggttattgggtacAtccttaacaaaaatccactg	12	11	9	9	1	0	0	0	0	0	0	2	1	2	1	2	3	3	3	2	3	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:61833843A>G	uc002yeh.2	-	4	1743	c.1449T>C	c.(1447-1449)GAT>GAC	p.D483D	YTHDF1_uc011aaq.1_Silent_p.D433D	NM_017798	NP_060268	Q9BYJ9	YTHD1_HUMAN	YTH domain family, member 1	483	YTH.									ovary(2)	2						TATTGGGTACATCCTTAACAA	0.542													32	46					0	0	1	0	0		G	61833843	G	G	61833843	2	3	213	1	0	0	0	0	0	0	0	1	17524	214	8	3		3	YTHDF1	20	61833843	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	322696	61833843	1191677	905	106342											
C20orf195	79025	broad.mit.edu	37	chr20	62187213	62187213	+	Frame_Shift_Del	DEL	C	-	-																															cctgctcaagcgccaccacgCccgcatgcagctgctgcgta																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:62187213delC	uc002yfj.2	+	2	289	c.197delC	c.(196-198)GCCfs	p.A66fs	C20orf195_uc002yfk.2_Frame_Shift_Del_p.A66fs	NM_024059	NP_076964	Q9BVV2	CT195_HUMAN	hypothetical protein LOC79025	66											0	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)			CGCCACCACGCCCGCATGCAG	0.652													13	28	---	---	---	---						.	-	62187213	-	-	62187213	7	5	213	1	0	1	0	1	0	0	0	0	2103	739	26	0	199	0	C20orf195	20	62187213	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	353370	62187213	838307	906	106343											
OPRL1	4987	broad.mit.edu	37	chr20	62729906	62729906	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgctggcccaagggctgggGgttcagccgagcagcgagac	7	5	18	11	2	1	1	1	0	0	1	1	3	1	1	2	4	4	4	2	4	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr20:62729906G>A	uc002yic.2	+	5	1269	c.867G>A	c.(865-867)GGG>GGA	p.G289G	OPRL1_uc002yid.2_Silent_p.G289G|OPRL1_uc002yif.3_Silent_p.G284G	NM_182647	NP_872588	P41146	OPRX_HUMAN	opiate receptor-like 1	289	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|inhibition of adenylate cyclase activity by G-protein signaling pathway|sensory perception	integral to plasma membrane	protein binding|X-opioid receptor activity			central_nervous_system(1)|skin(1)	2	all_cancers(38;4.74e-11)|all_epithelial(29;1.33e-12)|Lung NSC(23;3.27e-09)|all_lung(23;1.02e-08)					AAGGGCTGGGGGTTCAGCCGA	0.657													23	43					0	0	1	0	0		A	62729906	A	A	62729906	2	1	213	1	0	0	0	0	0	0	0	1	10905	1219	43	4		4	OPRL1	20	62729906	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	542693	62729906	295614	907	106344											
BAGE2	85319	broad.mit.edu	37	chr21	11049587	11049587	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgatctaagaggtctcccggGctgtcgcacactgcacagtt	8	10	11	12	2	2	2	0	1	2	1	4	2	2	2	1	2	1	4	1	2	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:11049587G>T	uc002yit.1	-	4	522	c.314C>A	c.(313-315)GCC>GAC	p.A105D		NM_182482	NP_872288			B melanoma antigen family, member 2 precursor												0			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GGTCTCCCGGGCTGTCGCACA	0.393													8	201					5.16669e-11	5.60346e-11	1	1	0		T	11049587	T	T	11049587	3	4	213	1	0	0	0	0	1	0	0	0	1293	1203	42	5	19	5	BAGE2	21	11049587	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		11049587	37080308	908	106345											
NRIP1	8204	broad.mit.edu	37	chr21	16339973	16339973	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agtttttaagtgacttgatgCaacaccatagcaccttaaat	14	13	6	8	0	0	2	0	2	0	0	0	2	0	2	2	0	3	3	2	0	5	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:16339973C>T	uc002yjx.2	-	4	1139	c.541G>A	c.(541-543)GCA>ACA	p.A181T		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	181	Repression domain 1.				androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		TGACTTGATGCAACACCATAG	0.388													15	16					0	0	1	0	0		T	16339973	T	T	16339973	3	4	213	1	0	0	0	0	1	0	0	0	10671	710	25	2	2939	2	NRIP1	21	16339973	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	5290386	16339973	31789922	909	106346											
USP25	29761	broad.mit.edu	37	chr21	17205809	17205809	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caacttgcccagaaagctttGcaggaaaagcttttagcgtc	12	10	9	10	1	0	1	0	0	0	1	1	2	0	2	1	1	6	3	1	1	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:17205809G>A	uc002yjy.1	+	17	2353	c.2136G>A	c.(2134-2136)TTG>TTA	p.L712L	USP25_uc011aby.1_Silent_p.L712L|USP25_uc002yjz.1_Silent_p.L712L|USP25_uc010gla.1_Intron	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	712	Potential.				protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		AGAAAGCTTTGCAGGAAAAGC	0.368													17	7					0	0	1	0	0		A	17205809	A	A	17205809	2	1	213	1	0	0	0	0	0	0	0	1	17082	1310	46	2		2	USP25	21	17205809	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	865836	17205809	30924086	910	106347											
ADAMTS1	9510	broad.mit.edu	37	chr21	28214913	28214913	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	taatgctttagaccactgccGtggaattctgccatcgactg	9	12	9	11	2	1	1	0	0	1	1	2	3	1	2	3	1	3	1	3	1	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:28214913G>A	uc002ymf.2	-	2	1277	c.822C>T	c.(820-822)CAC>CAT	p.H274H		NM_006988	NP_008919	Q9UHI8	ATS1_HUMAN	ADAM metallopeptidase with thrombospondin type 1	274	Peptidase M12B.				integrin-mediated signaling pathway|negative regulation of cell proliferation|proteolysis		heparin binding|zinc ion binding			lung(3)|large_intestine(2)|central_nervous_system(1)	6		Breast(209;0.000962)		Lung(58;0.215)		GACCACTGCCGTGGAATTCTG	0.483													13	15					0	0	1	0	0		A	28214913	A	A	28214913	2	1	213	1	0	0	0	0	0	0	0	1	255	1136	40	1		1	ADAMTS1	21	28214913	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	11009104	28214913	19914982	911	106348											
HUNK	30811	broad.mit.edu	37	chr21	33370854	33370854	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcagattcctttggctgccGcaatattttccgcaaaacct	9	13	7	12	2	0	1	0	0	0	1	2	1	2	1	4	1	3	4	4	1	4	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:33370854G>A	uc002yph.2	+	11	1862	c.1502G>A	c.(1501-1503)CGC>CAC	p.R501H		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	501					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						TTTGGCTGCCGCAATATTTTC	0.527													39	31					0	0	1	0	0		A	33370854	A	A	33370854	3	1	213	1	0	0	0	0	1	0	0	0	7474	1087	38	1	1544	1	HUNK	21	33370854	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5155941	33370854	14759041	912	106349											
CRYZL1	9946	broad.mit.edu	37	chr21	34997046	34997046	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtttcacaaagttatcCtctgtaacaggaagatcttc	13	13	7	8	0	3	2	1	1	2	1	5	3	4	3	1	1	1	3	1	1	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:34997046C>T	uc011adw.1	-	3	267	c.87G>A	c.(85-87)GAG>GAA	p.E29E	DONSON_uc002ysn.1_Intron|CRYZL1_uc002ysr.1_Silent_p.E53E|CRYZL1_uc002yss.1_RNA|CRYZL1_uc002yst.1_RNA|CRYZL1_uc002ysu.2_Silent_p.E29E	NM_145858	NP_665857	O95825	QORL1_HUMAN	crystallin, zeta-like 1	29					quinone cofactor metabolic process	cytosol	NADP binding|NADPH:quinone reductase activity|zinc ion binding				0						CAAAGTTATCCTCTGTAACAG	0.308													32	15					0	0	1	0	0		T	34997046	T	T	34997046	2	4	213	1	0	0	0	0	0	0	0	1	3926	680	24	4		4	CRYZL1	21	34997046	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1626192	34997046	13132849	913	106350											
ABCG1	9619	broad.mit.edu	37	chr21	43691237	43691237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	caatagtggtgagttggtggCcattatgggtccttccgggg	6	12	16	7	1	0	1	0	1	0	0	2	1	2	1	3	6	0	1	3	6	3	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:43691237C>T	uc002zaq.2	+	3	450	c.344C>T	c.(343-345)GCC>GTC	p.A115V	ABCG1_uc002zan.2_Missense_Mutation_p.A117V|ABCG1_uc002zam.2_Missense_Mutation_p.A93V|ABCG1_uc002zao.2_Missense_Mutation_p.A112V|ABCG1_uc002zap.2_Missense_Mutation_p.A115V|ABCG1_uc002zar.2_Missense_Mutation_p.A126V|ABCG1_uc011aev.1_Missense_Mutation_p.A126V	NM_004915	NP_004906	P45844	ABCG1_HUMAN	ATP-binding cassette sub-family G member 1	115	Cytoplasmic (Potential).|ABC transporter.				amyloid precursor protein catabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|detection of hormone stimulus|high-density lipoprotein particle remodeling|intracellular cholesterol transport|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|positive regulation of cholesterol biosynthetic process|regulation of cholesterol esterification|regulation of transcription, DNA-dependent|response to lipid|reverse cholesterol transport	endoplasmic reticulum membrane|external side of plasma membrane|Golgi membrane|recycling endosome	ADP binding|ATP binding|cholesterol transporter activity|glycoprotein transporter activity|phospholipid transporter activity|protein heterodimerization activity|protein homodimerization activity|sterol-transporting ATPase activity|toxin transporter activity			ovary(2)|central_nervous_system(1)	3					Adenosine triphosphate(DB00171)	GAGTTGGTGGCCATTATGGGT	0.502													13	18					0	0	1	0	0		T	43691237	T	T	43691237	3	4	213	1	0	0	0	0	1	0	0	0	68	739	26	2	522	2	ABCG1	21	43691237	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8694191	43691237	4438658	914	106351											
CBS	875	broad.mit.edu	37	chr21	44492285	44492285	+	Frame_Shift_Del	DEL	G	-	-																															tgtgggccccacttctgcctGgggggtctcagaaggcatgc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:44492285delG	uc002zcu.2	-	3	264	c.19delC	c.(19-21)CAGfs	p.Q7fs	CBS_uc002zct.2_Frame_Shift_Del_p.Q7fs|CBS_uc002zcw.3_Frame_Shift_Del_p.Q7fs|CBS_uc002zcv.2_Frame_Shift_Del_p.Q7fs	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	7					cysteine biosynthetic process from serine|cysteine biosynthetic process via cystathionine|homocysteine catabolic process|hydrogen sulfide biosynthetic process|L-cysteine catabolic process|L-serine catabolic process	cytosol|nucleolus	cystathionine beta-synthase activity|heme binding|protein homodimerization activity|pyridoxal phosphate binding|ubiquitin protein ligase binding				0					L-Cysteine(DB00151)|L-Serine(DB00133)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)|S-Adenosylmethionine(DB00118)	ACTTCTGCCTGGGGGGTCTCA	0.662													4	5	---	---	---	---						.	-	44492285	-	-	44492285	7	5	213	1	0	1	0	1	0	0	0	0	2714	1357	47	0	1696	0	CBS	21	44492285	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	801048	44492285	3637610	915	106352											
POFUT2	23275	broad.mit.edu	37	chr21	46705687	46705687	+	Silent	SNP	G	A	A	0	0	1	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	ggaatccggacctggtggatGtcaggactctgccagtgata	9	9	14	9	1	2	1	1	1	1	0	3	5	3	5	3	5	1	0	3	5	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:46705687G>A	uc002zhc.2	-	2	313	c.288C>T	c.(286-288)GAC>GAT	p.D96D	POFUT2_uc002zhb.2_RNA|POFUT2_uc002zhd.2_Silent_p.D96D|POFUT2_uc011afp.1_Silent_p.D96D|POFUT2_uc011afq.1_Silent_p.D96D|LOC642852_uc002zhf.2_5'Flank	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	96					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)		CCTGGTGGATGTCAGGACTCT	0.532													51	43					0	0	1	0	0		A	46705687	A	A	46705687	2	1	213	1	0	0	0	0	0	0	0	1	12203	1368	48	4		4	POFUT2	21	46705687	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2213402	46705687	1424208	916	106353											
COL6A1	1291	broad.mit.edu	37	chr21	47419132	47419132	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cggggtcccgagggcccccaGgtgggtggatgtggctgggt	3	7	21	10	2	0	0	0	0	0	0	1	2	1	1	3	8	0	1	3	8	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:47419132G>T	uc002zhu.1	+	26	1842	c.1740G>T	c.(1738-1740)CAG>CAT	p.Q580H	COL6A1_uc010gqd.1_Translation_Start_Site|COL6A1_uc002zhv.1_5'Flank	NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	580	Triple-helical region.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	AGGGCCCCCAGGTGGGTGGAT	0.652													3	5					0.004672	0.00474415	1	1	0		T	47419132	T	T	47419132	3	4	213	1	0	0	0	0	1	0	0	0	3702	1014	35	5	1842	5	COL6A1	21	47419132	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	713445	47419132	710763	917	106354											
PRMT2	3275	broad.mit.edu	37	chr21	48078788	48078788	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaggattatcgtagcaaggtGctcttctgggacaacgcgta	11	10	12	8	3	2	0	0	0	2	0	3	2	2	2	0	3	3	4	0	3	6	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr21:48078788G>A	uc002zjx.2	+	8	1100	c.786G>A	c.(784-786)GTG>GTA	p.V262V	PRMT2_uc002zjw.2_Silent_p.V262V|PRMT2_uc002zjy.2_Silent_p.V262V|PRMT2_uc010gqm.2_Intron|PRMT2_uc011aga.1_Intron|PRMT2_uc011agb.1_Silent_p.V262V|PRMT2_uc011agc.1_Intron|PRMT2_uc002zjz.1_Silent_p.V148V	NM_206962	NP_996845	P55345	ANM2_HUMAN	HMT1 hnRNP methyltransferase-like 1	262	Interaction with ESR1.				developmental cell growth|induction of apoptosis|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of NF-kappaB transcription factor activity|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of androgen receptor signaling pathway	cytosol|nucleus	androgen receptor binding|estrogen receptor binding|histone-arginine N-methyltransferase activity|peroxisome proliferator activated receptor binding|progesterone receptor binding|protein homodimerization activity|retinoic acid receptor binding|signal transducer activity|thyroid hormone receptor binding|transcription coactivator activity			ovary(1)	1	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)		GTAGCAAGGTGCTCTTCTGGG	0.592													10	11					0	0	1	0	0		A	48078788	A	A	48078788	2	1	213	1	0	0	0	0	0	0	0	1	12559	1306	46	2		2	PRMT2	21	48078788	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	659656	48078788	51107	918	106355											
DGCR8	54487	broad.mit.edu	37	chr22	20094884	20094884	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaactgggggtctttactgcGcatgtatggccgtgagagca	8	10	15	8	2	1	1	0	1	1	1	1	3	1	1	1	3	4	3	1	3	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:20094884G>A	uc002zri.2	+	12	2437	c.2087G>A	c.(2086-2088)CGC>CAC	p.R696H	DGCR8_uc010grz.2_Missense_Mutation_p.R663H|DGCR8_uc002zrj.2_Missense_Mutation_p.R339H	NM_022720	NP_073557	Q8WYQ5	DGCR8_HUMAN	DiGeorge syndrome critical region gene 8	696	Necessary for heme-binding and pri-miRNA processing.|Necessary for interaction with DROSHA.				primary miRNA processing	cytoplasm|cytoplasm|microtubule cytoskeleton|nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding				0	Colorectal(54;0.0993)					TCTTTACTGCGCATGTATGGC	0.547													23	44					0	0	1	0	0		A	20094884	A	A	20094884	3	1	213	1	0	0	0	0	1	0	0	0	4470	1087	38	1	2129	1	DGCR8	22	20094884	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08		20094884	31209682	919	106356											
ZDHHC8	29801	broad.mit.edu	37	chr22	20131022	20131022	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtggcgcccgcaaccctgcCctgcagacgtcactgtcctc	5	7	11	18	3	1	1	1	0	0	1	3	1	2	1	4	2	3	2	4	2	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:20131022C>A	uc002zrq.2	+	10	1975	c.1869C>A	c.(1867-1869)GCC>GCA	p.A623A	ZDHHC8_uc002zrr.1_Silent_p.A623A|ZDHHC8_uc010gsa.2_Silent_p.A429A	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	623	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					GCAACCCTGCCCTGCAGACGT	0.711													10	8					0.000442599	0.000452932	1	1	0		A	20131022	A	A	20131022	2	1	213	1	0	0	0	0	0	0	0	1	17646	610	22	5		5	ZDHHC8	22	20131022	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	36138	20131022	31173544	920	106357											
GNAZ	2781	broad.mit.edu	37	chr22	23438488	23438488	+	Frame_Shift_Del	DEL	G	-	-																															accttcaagatggtggacgtGggggggcagaggtcagagcg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:23438488delG	uc002zwu.1	+	2	1143	c.606delG	c.(604-606)GTGfs	p.V202fs	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	202	GTP (By similarity).					endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		TGGTGGACGTGGGGGGGCAGA	0.577													56	109	---	---	---	---						.	-	23438488	-	-	23438488	7	5	213	1	0	1	0	1	0	0	0	0	6529	1335	47	0	608	0	GNAZ	22	23438488	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	3307466	23438488	27866078	921	106358											
SUSD2	56241	broad.mit.edu	37	chr22	24584203	24584203	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctcaccaggacgcagctaCgcggtgctgttgggcatcat	7	8	12	14	3	2	0	2	0	0	0	2	1	2	1	2	3	3	5	2	3	1	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:24584203C>T	uc002zzn.1	+	14	2396	c.2352C>T	c.(2350-2352)TAC>TAT	p.Y784Y		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	784	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						GACGCAGCTACGCGGTGCTGT	0.652													24	38					0	0	1	0	0		T	24584203	T	T	24584203	2	4	213	1	0	0	0	0	0	0	0	1	15433	547	19	1		1	SUSD2	22	24584203	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1145715	24584203	26720363	922	106359											
MYO18B	84700	broad.mit.edu	37	chr22	26193919	26193919	+	Splice_Site	SNP	G	T	T	0	0	1	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	cctctctccctttgcccgcaGcctgaagataaacagaaggc	10	8	8	15	1	1	3	0	1	1	2	3	3	2	3	4	1	3	1	4	1	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:26193919G>T	uc003abz.1	+	12	2627	c.2377_splice	c.e12-1	p.P793_splice	MYO18B_uc003aca.1_Splice_Site_p.P674_splice|MYO18B_uc010guy.1_Splice_Site_p.P674_splice|MYO18B_uc010guz.1_Splice_Site_p.P674_splice|MYO18B_uc011aka.1_Intron|MYO18B_uc011akb.1_Splice_Site_p.P306_splice	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB							nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						TTTGCCCGCAGCCTGAAGATA	0.582													20	67					4.96729e-08	5.25713e-08	1	1	0		T	26193919	T	T	26193919	5	4	213	1	0	0	0	0	0	0	1	0	10084	985	34	5	2418	5	MYO18B	22	26193919	Splice_Site	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1609716	26193919	25110647	923	106360											
MTMR3	8897	broad.mit.edu	37	chr22	30403965	30403965	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcttttgatcttggatgcacGctcctatgcagctgctgtgg	5	14	12	10	1	1	1	0	1	1	0	2	2	2	2	1	2	4	6	1	2	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:30403965G>A	uc003agv.3	+	11	1281	c.953G>A	c.(952-954)CGC>CAC	p.R318H	MTMR3_uc003agu.3_Missense_Mutation_p.R318H|MTMR3_uc003agw.3_Missense_Mutation_p.R318H	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	318	Myotubularin phosphatase.				phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			TTGGATGCACGCTCCTATGCA	0.522													4	49					0	0	1	0	0		A	30403965	A	A	30403965	3	1	213	1	0	0	0	0	1	0	0	0	9963	1087	38	1	987	1	MTMR3	22	30403965	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	4210046	30403965	20900601	924	106361											
LIF	3976	broad.mit.edu	37	chr22	30640813	30640815	+	In_Frame_Del	DEL	GTT	-	-																															ctcctgatctggttcatgagGttgttgtgacatgggtggcg																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:30640813_30640815delGTT	uc003agz.2	-	2	239_241	c.127_129delAAC	c.(127-129)AACdel	p.N43del	LIF_uc011aks.1_Intron|uc003aha.2_5'Flank	NM_002309	NP_002300	P15018	LIF_HUMAN	leukemia inhibitory factor (cholinergic	43					immune response|leukemia inhibitory factor signaling pathway|negative regulation of hormone secretion|positive regulation of cell proliferation|positive regulation of macrophage differentiation|positive regulation of MAPKKK cascade|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of peptidyl-serine phosphorylation of STAT protein|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat1 protein|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of metanephric nephron tubule epithelial cell differentiation		cytokine activity|growth factor activity|leukemia inhibitory factor receptor binding				0			Epithelial(10;0.171)			GGTTCATGAGGTTGTTGTGACAT	0.562													22	42	---	---	---	---						.	-	30640815	-	-	30640813	7	5	213	1	0	1	0	1	0	0	0	0	8795	1252	44	0	487	0	LIF	22	30640813	In_Frame_Del	DEL	GTT	TCGA-HU-A4H3-01A-21D-A25D-08	236848	30640813	20663753	925	106362											
TRIOBP	11078	broad.mit.edu	37	chr22	38131430	38131430	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	caggagcactgcgaagggccCcagcttgccagagctgcagg	9	4	15	13	1	0	1	0	0	0	1	0	3	0	2	3	3	6	4	3	3	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:38131430C>A	uc003atr.2	+	9	5358	c.5087C>A	c.(5086-5088)CCC>CAC	p.P1696H	TRIOBP_uc003atu.2_Missense_Mutation_p.P1524H	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1696					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					GCGAAGGGCCCCAGCTTGCCA	0.617											OREG0026548	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	8					0.00909568	0.00920063	1	1	0		A	38131430	A	A	38131430	3	1	213	1	0	0	0	0	1	0	0	0	16579	623	22	5	5113	5	TRIOBP	22	38131430	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	7490617	38131430	13173136	926	106363											
SLC16A8	23539	broad.mit.edu	37	chr22	38476959	38476959	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgagcacctcgaactgcagCgcgcccaccatgccgtagga	10	5	11	15	4	0	1	0	1	0	0	1	3	0	2	4	1	5	3	4	1	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:38476959C>T	uc003auu.2	-	4	1216	c.1086G>A	c.(1084-1086)GCG>GCA	p.A362A		NM_013356	NP_037488	O95907	MOT3_HUMAN	solute carrier family 16, member 8	362	Helical; (Potential).				blood coagulation|leukocyte migration|pyruvate metabolic process	integral to plasma membrane|membrane fraction	lactate transmembrane transporter activity|secondary active monocarboxylate transmembrane transporter activity|symporter activity				0	Melanoma(58;0.045)				Pyruvic acid(DB00119)	CGAACTGCAGCGCGCCCACCA	0.711													4	5					0	0	1	0	0		T	38476959	T	T	38476959	2	4	213	1	0	0	0	0	0	0	0	1	14439	755	27	1		1	SLC16A8	22	38476959	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	345529	38476959	12827607	927	106364											
TMEM184B	25829	broad.mit.edu	37	chr22	38621509	38621509	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtaggggctgagcagctcccGggtggcgaagtagaagagga	10	5	19	7	2	0	3	0	1	0	2	1	5	1	4	1	5	2	5	1	5	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:38621509G>A	uc003avf.1	-	7	933	c.709C>T	c.(709-711)CGG>TGG	p.R237W	TMEM184B_uc003avg.1_Missense_Mutation_p.R237W|TMEM184B_uc003avh.1_Missense_Mutation_p.R171W|TMEM184B_uc010gxl.1_RNA	NM_012264	NP_036396	Q9Y519	T184B_HUMAN	transmembrane protein 184B	237						integral to membrane					0	Melanoma(58;0.045)					AGCAGCTCCCGGGTGGCGAAG	0.592													23	49					0	0	1	0	0		A	38621509	A	A	38621509	3	1	213	1	0	0	0	0	1	0	0	0	16130	1115	39	1	526	1	TMEM184B	22	38621509	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	144550	38621509	12683057	928	106365											
SCUBE1	80274	broad.mit.edu	37	chr22	43610096	43610096	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttctaggcccgcacttgcCtccacattccgacacgttgc	6	10	7	18	3	1	0	0	0	1	0	3	1	3	0	5	1	2	2	5	1	1	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:43610096C>A	uc003bdt.1	-	16	2141	c.2053G>T	c.(2053-2055)GGC>TGC	p.G685C		NM_173050	NP_766638	Q8IWY4	SCUB1_HUMAN	signal peptide, CUB domain, EGF-like 1	685					adult heart development|blood coagulation|endothelial cell differentiation|inflammatory response|post-embryonic development|protein homooligomerization	external side of plasma membrane|extracellular space|extrinsic to plasma membrane	calcium ion binding|identical protein binding|protein heterodimerization activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5		all_neural(38;0.0414)|Ovarian(80;0.07)				CCGCACTTGCCTCCACATTCC	0.657													4	16					0.00909568	0.00920063	1	1	0		A	43610096	A	A	43610096	3	1	213	1	0	0	0	0	1	0	0	0	13969	695	24	5	941	5	SCUBE1	22	43610096	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4988587	43610096	7694470	929	106366											
WNT7B	7477	broad.mit.edu	37	chr22	46345856	46345856	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cgagggcagagcagttccagCgtccgaagcggaactggtac	10	5	15	11	4	0	1	0	0	0	1	2	4	2	2	2	3	5	4	2	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:46345856C>T	uc003bgo.2	-	2	616	c.242G>A	c.(241-243)CGC>CAC	p.R81H	WNT7B_uc010haa.2_Missense_Mutation_p.R85H	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	81					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		GCAGTTCCAGCGTCCGAAGCG	0.637													15	38					0	0	1	0	0		T	46345856	T	T	46345856	3	4	213	1	0	0	0	0	1	0	0	0	17421	768	27	1	819	1	WNT7B	22	46345856	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2735760	46345856	4958710	930	106367											
ALG12	79087	broad.mit.edu	37	chr22	50297834	50297834	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtgtggatcctacctccaggCgctgttgacttggagaaacc	8	10	12	11	1	0	2	0	1	0	1	2	4	2	3	4	3	2	2	4	3	2	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chr22:50297834C>T	uc003biy.2	-	9	1505	c.1231G>A	c.(1231-1233)GCC>ACC	p.A411T		NM_024105	NP_077010	Q9BV10	ALG12_HUMAN	alpha-1,6-mannosyltransferase ALG12	411					dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane					0		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)		BRCA - Breast invasive adenocarcinoma(115;0.199)|LUAD - Lung adenocarcinoma(64;0.247)		TACCTCCAGGCGCTGTTGACT	0.657													24	35					0	0	1	0	0		T	50297834	T	T	50297834	3	4	213	1	0	0	0	0	1	0	0	0	514	768	27	1	243	1	ALG12	22	50297834	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3951978	50297834	1006732	931	106368											
GYG2	8908	broad.mit.edu	37	chrX	2795326	2795326	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tgctgaggctctcagggaccCcagtctgcaggatgcactgg	7	8	14	12	0	2	1	1	1	2	0	3	3	2	3	2	4	3	4	2	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:2795326C>T	uc004cqs.1	+	11	1604	c.1322C>T	c.(1321-1323)CCC>CTC	p.P441L	GYG2_uc004cqt.1_Missense_Mutation_p.P410L|GYG2_uc004cqu.1_Missense_Mutation_p.P409L|GYG2_uc004cqv.1_Intron|GYG2_uc004cqw.1_Missense_Mutation_p.P401L|GYG2_uc004cqx.1_Intron|GYG2_uc010ndc.1_Intron	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b	441					glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTCAGGGACCCCAGTCTGCAG	0.547													16	29					0	0	1	0	0		T	2795326	T	T	2795326	3	4	213	1	0	0	0	0	1	0	0	0	6922	623	22	4	1360	4	GYG2	23	2795326	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08		2795326	152475234	932	106369											
NLGN4X	57502	broad.mit.edu	37	chrX	5821694	5821694	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgacgtcgccgtcgatcaccGgcccgaaggctatgtggtag	7	8	14	12	6	1	1	1	1	0	0	3	3	1	1	3	3	0	2	3	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:5821694G>A	uc010ndh.2	-	5	1526	c.1025C>T	c.(1024-1026)CCG>CTG	p.P342L	NLGN4X_uc004crp.2_Missense_Mutation_p.P362L|NLGN4X_uc004crq.2_Missense_Mutation_p.P342L|NLGN4X_uc010ndi.2_Missense_Mutation_p.P379L|NLGN4X_uc004crr.2_Missense_Mutation_p.P342L|NLGN4X_uc010ndj.2_Missense_Mutation_p.P342L	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	342	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	chloride ion binding|neurexin binding|protein homodimerization activity|receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						GTCGATCACCGGCCCGAAGGC	0.587													35	86					0	0	1	0	0		A	5821694	A	A	5821694	3	1	213	1	0	0	0	0	1	0	0	0	10483	1116	39	1	1433	1	NLGN4X	23	5821694	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3026368	5821694	149448866	933	106370											
TBL1X	6907	broad.mit.edu	37	chrX	9661211	9661211	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	caatggaacactcttggctaCgggttcatatgacggttttg	9	13	11	8	2	2	1	1	1	1	0	2	2	2	2	0	4	2	3	0	4	4	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:9661211C>T	uc010ndq.2	+	10	1282	c.914C>T	c.(913-915)ACG>ATG	p.T305M	TBL1X_uc004csq.3_Missense_Mutation_p.T254M|TBL1X_uc010ndr.2_Missense_Mutation_p.T254M|TBL1X_uc004csr.2_Missense_Mutation_p.T305M|TBL1X_uc004css.2_Missense_Mutation_p.T256M	NM_001139466	NP_001132938	O60907	TBL1X_HUMAN	transducin beta-like 1X isoform a	305	WD 2.				canonical Wnt receptor signaling pathway|cellular lipid metabolic process|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|sensory perception of sound|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein C-terminus binding|protein domain specific binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)	1		Hepatocellular(5;0.000888)				CTCTTGGCTACGGGTTCATAT	0.532													46	83					0	0	1	0	0		T	9661211	T	T	9661211	3	4	213	1	0	0	0	0	1	0	0	0	15664	536	19	1	940	1	TBL1X	23	9661211	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3839517	9661211	145609349	934	106371											
SHROOM2	357	broad.mit.edu	37	chrX	9864116	9864116	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ccggatgggggatccagacaCtgtcccccacttctgggagg	7	7	14	13	1	1	1	0	0	1	1	3	4	3	4	4	5	0	0	4	5	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:9864116C>A	uc004csu.1	+	4	2258	c.2168C>A	c.(2167-2169)ACT>AAT	p.T723N		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	apical protein of Xenopus-like	723	ASD1.				apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			ovary(3)|skin(3)|upper_aerodigestive_tract(1)|breast(1)	8		Hepatocellular(5;0.000888)				GATCCAGACACTGTCCCCCAC	0.672													14	18					7.93312e-07	8.32068e-07	1	1	0		A	9864116	A	A	9864116	3	1	213	1	0	0	0	0	1	0	0	0	14319	565	20	5	2182	5	SHROOM2	23	9864116	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	202905	9864116	145406444	935	106372											
ARHGAP6	395	broad.mit.edu	37	chrX	11272825	11272825	+	Silent	SNP	A	C	C	1	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	atgctgttccaggtgaaatcAccctgtaggccaaaaaaaaa	16	8	8	9	0	1	1	1	1	0	0	2	1	2	1	3	2	1	3	3	2	6	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:11272825A>C	uc004cup.1	-	2	1464	c.591T>G	c.(589-591)GGT>GGG	p.G197G	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Silent_p.G197G|ARHGAP6_uc004cum.1_5'UTR|ARHGAP6_uc004cun.1_Silent_p.G17G|ARHGAP6_uc010neb.1_Silent_p.G19G|ARHGAP6_uc011mif.1_5'UTR	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	197					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						AGGTGAAATCACCCTGTAGGC	0.463													7	32					0	0	1	0	0		C	11272825	C	C	11272825	2	2	213	1	0	0	0	0	0	0	0	1	887	146	6	5		5	ARHGAP6	23	11272825	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1408709	11272825	143997735	936	106373											
ATXN3L	92552	broad.mit.edu	37	chrX	13337235	13337235	+	Silent	SNP	A	C	C	1	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	ttcggctgttctgaagcaggAgttacacatgatgtctttgg	8	14	12	7	1	2	2	0	2	2	0	3	3	2	3	0	3	2	4	0	3	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:13337235A>C	uc010ned.2	-	1	1284	c.819T>G	c.(817-819)ACT>ACG	p.T273T		NM_001135995	NP_001129467	Q9H3M9	ATX3L_HUMAN	ataxin 3-like	273					protein deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ubiquitin-specific protease activity			lung(2)|ovary(2)|large_intestine(1)|skin(1)	6						CTGAAGCAGGAGTTACACATG	0.438													66	210					0	0	1	0	0		C	13337235	C	C	13337235	2	2	213	1	0	0	0	0	0	0	0	1	1215	291	11	5		5	ATXN3L	23	13337235	Silent	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	2064410	13337235	141933325	937	106374											
GPR64	10149	broad.mit.edu	37	chrX	19028750	19028750	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctttgagccagaggggccaGcatgtcaggcggggaatgaa	10	6	16	9	1	1	3	1	2	0	1	1	4	1	4	3	5	2	1	3	5	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:19028750G>A	uc004cyx.2	-	17	1410	c.1246C>T	c.(1246-1248)CTG>TTG	p.L416L	GPR64_uc004cyy.2_Silent_p.L413L|GPR64_uc004cyz.2_Silent_p.L402L|GPR64_uc004czb.2_Silent_p.L416L|GPR64_uc004czc.2_Silent_p.L400L|GPR64_uc004czd.2_Silent_p.L392L|GPR64_uc004cze.2_Silent_p.L386L|GPR64_uc004czf.2_Silent_p.L378L|GPR64_uc004cza.2_Silent_p.L394L|GPR64_uc004cyw.2_Silent_p.L400L|GPR64_uc010nfj.2_Silent_p.L386L	NM_001079858	NP_001073327	Q8IZP9	GPR64_HUMAN	G protein-coupled receptor 64 isoform 1	416	Extracellular (Potential).				neuropeptide signaling pathway|spermatogenesis	cytoplasm|integral to plasma membrane	G-protein coupled receptor activity				0	Hepatocellular(33;0.183)					AGAGGGGCCAGCATGTCAGGC	0.522													47	117					0	0	1	0	0		A	19028750	A	A	19028750	2	1	213	1	0	0	0	0	0	0	0	1	6720	962	34	2		2	GPR64	23	19028750	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5691515	19028750	136241810	938	106375											
MAP3K15	389840	broad.mit.edu	37	chrX	19391783	19391783	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccatgggctctccctgtgtgGgcagggccaggacgacaccg	6	6	15	14	2	1	0	0	0	1	0	2	2	1	1	4	4	0	2	4	4	0	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:19391783G>T	uc004czk.1	-	22	2866	c.1229C>A	c.(1228-1230)CCC>CAC	p.P410H	MAP3K15_uc004czj.1_Missense_Mutation_p.P370H|MAP3K15_uc004czi.1_5'Flank	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	935							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					TCCCTGTGTGGGCAGGGCCAG	0.677													6	11					2.0095e-06	2.10347e-06	1	1	0		T	19391783	T	T	19391783	3	4	213	1	0	0	0	0	1	0	0	0	9267	1232	43	5	1173	5	MAP3K15	23	19391783	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	363033	19391783	135878777	939	106376											
YY2	404281	broad.mit.edu	37	chrX	21875411	21875411	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gatgttccgggattacgccgCcatgagaaaacatctccaca	12	8	9	12	3	1	1	0	1	1	1	3	4	2	2	4	1	2	1	4	1	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:21875411C>T	uc011mjp.1	+	1	809	c.809C>T	c.(808-810)GCC>GTC	p.A270V	MBTPS2_uc004dae.2_Intron|MBTPS2_uc010nfr.2_Intron|YY2_uc010nfq.2_Missense_Mutation_p.A488V|MBTPS2_uc004dab.2_Intron	NM_206923	NP_996806	O15391	TYY2_HUMAN	YY2 transcription factor	270	Mediates transcriptional repression.|C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|plasma membrane	DNA binding|zinc ion binding			breast(1)|skin(1)	2						GATTACGCCGCCATGAGAAAA	0.498													89	201					0	0	1	0	0		T	21875411	T	T	21875411	3	4	213	1	0	0	0	0	1	0	0	0	17535	739	26	2	811	2	YY2	23	21875411	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2483628	21875411	133395149	940	106377											
PHEX	5251	broad.mit.edu	37	chrX	22095708	22095708	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggggtttggtcagagagaaAgttcagccttctgcagacac	11	9	13	8	0	3	3	2	0	1	3	3	4	3	3	1	3	2	3	1	3	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:22095708A>G	uc004dah.2	+	5	754	c.551A>G	c.(550-552)AAG>AGG	p.K184R	PHEX_uc011mjr.1_Missense_Mutation_p.K184R|PHEX_uc011mjs.1_Missense_Mutation_p.K87R	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	184	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						TCAGAGAGAAAGTTCAGCCTT	0.488													67	160					0	0	1	0	0		G	22095708	G	G	22095708	3	3	213	1	0	0	0	0	1	0	0	0	11838	72	3	3	569	3	PHEX	23	22095708	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	220297	22095708	133174852	941	106378											
ZFX	7543	broad.mit.edu	37	chrX	24228545	24228545	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagagaaggccattgaatgCgatgagtgtgggaagcattt	12	9	15	5	1	0	3	0	2	0	1	0	6	0	4	1	2	2	2	1	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:24228545C>T	uc004dbf.2	+	9	1728	c.1470C>T	c.(1468-1470)TGC>TGT	p.C490C	ZFX_uc004dbe.2_3'UTR|ZFX_uc011mjv.1_Silent_p.C529C|ZFX_uc010nfz.2_Silent_p.C146C	NM_003410	NP_003401	P17010	ZFX_HUMAN	zinc finger protein, X-linked	490	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|transcription coactivator activity|zinc ion binding			ovary(2)	2						CCATTGAATGCGATGAGTGTG	0.443													41	71					0	0	1	0	0		T	24228545	T	T	24228545	2	4	213	1	0	0	0	0	0	0	0	1	17686	776	27	1		1	ZFX	23	24228545	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2132837	24228545	131042015	942	106379											
PDK3	5165	broad.mit.edu	37	chrX	24523371	24523371	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcctgttcatcctaaacacaTaggaagtatcgatcccacct	12	11	5	13	1	1	0	1	0	0	0	5	2	4	1	4	1	1	2	4	1	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:24523371T>C	uc004dbg.2	+	5	780	c.551T>C	c.(550-552)ATA>ACA	p.I184T	PDK3_uc004dbh.2_Missense_Mutation_p.I184T	NM_005391	NP_005382	Q15120	PDK3_HUMAN	pyruvate dehydrogenase kinase 3 isoform 2	184	Histidine kinase.				glucose metabolic process|peptidyl-histidine phosphorylation|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	ATP binding|protein binding|pyruvate dehydrogenase (acetyl-transferring) kinase activity|two-component sensor activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						CCTAAACACATAGGAAGTATC	0.453													25	37					0	0	1	0	0		C	24523371	C	C	24523371	3	2	213	1	0	0	0	0	1	0	0	0	11696	1406	49	3	569	3	PDK3	23	24523371	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	294826	24523371	130747189	943	106380											
IL1RAPL1	11141	broad.mit.edu	37	chrX	29959766	29959766	+	Splice_Site	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cattgtggttttttctttctAgagctaatgtacacagtgga	9	17	9	6	0	2	1	0	0	2	1	2	2	2	2	0	2	2	3	0	2	3	8			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:29959766A>C	uc004dby.2	+	9	1566	c.1058_splice	c.e9-2	p.E353_splice		NM_014271	NP_055086	Q9NZN1	IRPL1_HUMAN	interleukin 1 receptor accessory protein-like 1						innate immune response|negative regulation of calcium ion transport via voltage-gated calcium channel activity|negative regulation of exocytosis|regulation of neuron projection development	cytoplasm|integral to membrane|plasma membrane	protein binding|transmembrane receptor activity			ovary(3)|lung(1)|pancreas(1)	5						TTTTCTTTCTAGAGCTAATGT	0.363													66	107					0	0	1	0	0		C	29959766	C	C	29959766	5	2	213	1	0	0	0	0	0	0	1	0	7677	434	15	5	1086	5	IL1RAPL1	23	29959766	Splice_Site	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	5436395	29959766	125310794	944	106381											
MAGEB3	4114	broad.mit.edu	37	chrX	30254059	30254059	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atcatgcctcggggtcagaaGagtacgctccatgcacgtga	10	8	12	11	3	2	3	2	1	0	2	4	3	3	3	2	2	3	3	2	2	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:30254059G>T	uc004dca.1	+	5	755	c.18G>T	c.(16-18)AAG>AAT	p.K6N		NM_002365	NP_002356	O15480	MAGB3_HUMAN	melanoma antigen family B, 3	6											0						GGGGTCAGAAGAGTACGCTCC	0.547													18	42					9.16793e-09	9.75193e-09	1	1	0		T	30254059	T	T	30254059	3	4	213	1	0	0	0	0	1	0	0	0	9195	933	33	5	20	5	MAGEB3	23	30254059	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	294293	30254059	125016501	945	106382											
DMD	1756	broad.mit.edu	37	chrX	32717315	32717315	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggcaacatttccacttcctGgatggcttcaatgctcactt	8	14	7	12	0	2	0	2	0	0	0	4	1	4	1	2	3	2	3	2	3	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:32717315G>T	uc004dda.1	-	8	989	c.745C>A	c.(745-747)CAG>AAG	p.Q249K	DMD_uc004dcz.2_Missense_Mutation_p.Q126K|DMD_uc004dcy.1_Missense_Mutation_p.Q245K|DMD_uc004ddb.1_Missense_Mutation_p.Q241K|DMD_uc010ngo.1_Intron|DMD_uc004ddf.2_Missense_Mutation_p.Q241K|DMD_uc010ngp.1_Intron|DMD_uc010ngq.1_Intron|DMD_uc010ngr.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	249					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TCCACTTCCTGGATGGCTTCA	0.388													7	87					5.18039e-06	5.39048e-06	1	1	0		T	32717315	T	T	32717315	3	4	213	1	0	0	0	0	1	0	0	0	4586	1357	47	5	10843	5	DMD	23	32717315	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2463256	32717315	122553245	946	106383											
TMEM47	83604	broad.mit.edu	37	chrX	34675058	34675058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccaggtccagacacagcGccaggaagatgcacaccagc	12	2	10	17	1	0	2	0	0	0	2	1	3	1	3	5	2	3	1	5	2	1	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:34675058G>A	uc004ddh.2	-	1	348	c.89C>T	c.(88-90)GCG>GTG	p.A30V	TMEM47_uc010ngs.2_5'Flank	NM_031442	NP_113630	Q9BQJ4	TMM47_HUMAN	transmembrane protein 47	30	Helical; (Potential).					integral to membrane				lung(1)	1						CAGACACAGCGCCAGGAAGAT	0.682													4	7					0	0	1	0	0		A	34675058	A	A	34675058	3	1	213	1	0	0	0	0	1	0	0	0	16196	1087	38	1	468	1	TMEM47	23	34675058	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	1957743	34675058	120595502	947	106384											
CXorf22	170063	broad.mit.edu	37	chrX	35969461	35969461	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccatcatacaagatgatgcCgtgggagaagaattggtaag	14	8	13	6	1	1	4	1	1	0	3	1	5	1	4	2	2	2	1	2	2	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:35969461C>T	uc004ddj.2	+	5	929	c.870C>T	c.(868-870)GCC>GCT	p.A290A	CXorf22_uc010ngv.2_RNA	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063	290										large_intestine(1)|lung(1)|ovary(1)	3						AAGATGATGCCGTGGGAGAAG	0.368													8	16					0	0	1	0	0		T	35969461	T	T	35969461	2	4	213	1	0	0	0	0	0	0	0	1	4105	639	23	1		1	CXorf22	23	35969461	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1294403	35969461	119301099	948	106385											
FAM47C	442444	broad.mit.edu	37	chrX	37028275	37028275	+	Frame_Shift_Del	DEL	C	-	-																															tgtccagtctccccccggagCcccccgagactggagtgtcc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:37028275delC	uc004ddl.1	+	1	1806	c.1792delC	c.(1792-1794)CCCfs	p.P598fs		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	598										ovary(3)	3						CCCCCCGGAGCCCCCCGAGAC	0.647													32	62	---	---	---	---						.	-	37028275	-	-	37028275	7	5	213	1	0	1	0	1	0	0	0	0	5585	739	26	0	1794	0	FAM47C	23	37028275	Frame_Shift_Del	DEL	C	TCGA-HU-A4H3-01A-21D-A25D-08	1058814	37028275	118242285	949	106386											
SYTL5	94122	broad.mit.edu	37	chrX	37955458	37955458	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aggatactgtaagcataagaAgcaagtctgtccctggggct	12	9	12	8	0	1	1	0	0	1	1	2	2	2	2	1	3	3	4	1	3	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:37955458A>G	uc004ddu.2	+	10	1567	c.1033A>G	c.(1033-1035)AGC>GGC	p.S345G	SYTL5_uc004ddv.2_Missense_Mutation_p.S345G|SYTL5_uc004ddx.2_Missense_Mutation_p.S345G	NM_001163335	NP_001156807	Q8TDW5	SYTL5_HUMAN	synaptotagmin-like 5 isoform 1	345					intracellular protein transport	membrane	metal ion binding|Rab GTPase binding			skin(1)	1						AAGCATAAGAAGCAAGTCTGT	0.413													32	59					0	0	1	0	0		G	37955458	G	G	37955458	3	3	213	1	0	0	0	0	1	0	0	0	15511	72	3	3	1063	3	SYTL5	23	37955458	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	927183	37955458	117315102	950	106387											
USP9X	8239	broad.mit.edu	37	chrX	41069787	41069787	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggggtgagcctgttaatctgCgtgaacaacacgatgcttta	10	11	12	8	2	1	2	0	2	1	0	1	3	1	2	1	2	5	2	1	2	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:41069787C>T	uc004dfb.2	+	33	5674	c.5041C>T	c.(5041-5043)CGT>TGT	p.R1681C	USP9X_uc004dfc.2_Missense_Mutation_p.R1681C	NM_001039590	NP_001034679	Q93008	USP9X_HUMAN	ubiquitin specific protease 9, X-linked isoform	1681					BMP signaling pathway|cell division|chromosome segregation|female gamete generation|mitosis|protein deubiquitination|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent protein catabolic process	cytoplasm	co-SMAD binding|cysteine-type endopeptidase activity|ubiquitin thiolesterase activity			lung(3)|breast(2)|ovary(1)	6						TGTTAATCTGCGTGAACAACA	0.338													21	63					0	0	1	0	0		T	41069787	T	T	41069787	3	4	213	1	0	0	0	0	1	0	0	0	17116	768	27	1	5167	1	USP9X	23	41069787	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3114329	41069787	114200773	951	106388											
CXorf36	79742	broad.mit.edu	37	chrX	45013320	45013320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggagctggtaggcaaggtCggctgcctgatctgggggtg	6	8	19	8	1	1	1	0	1	1	0	2	2	1	2	1	7	2	4	1	7	2	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:45013320C>T	uc004dgg.2	-	4	871	c.796G>A	c.(796-798)GAC>AAC	p.D266N		NM_176819	NP_789789	Q9H7Y0	CX036_HUMAN	hypothetical protein LOC79742 isoform 1	266						extracellular region				lung(1)	1						TAGGCAAGGTCGGCTGCCTGA	0.562													23	64					0	0	1	0	0		T	45013320	T	T	45013320	3	4	213	1	0	0	0	0	1	0	0	0	4109	884	31	1	513	1	CXorf36	23	45013320	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3943533	45013320	110257240	952	106389											
ZNF157	7712	broad.mit.edu	37	chrX	47272096	47272096	+	Silent	SNP	T	C	C	0	1	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	agatcatacctcattgctcaTcagaaaactcacacagggga	15	8	7	11	0	5	2	5	0	0	2	5	3	5	3	1	2	3	1	1	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:47272096T>C	uc004dhr.1	+	4	693	c.624T>C	c.(622-624)CAT>CAC	p.H208H		NM_003446	NP_003437	P51786	ZN157_HUMAN	zinc finger protein 157	208	C2H2-type 2.				negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TCATTGCTCATCAGAAAACTC	0.433													20	36					0	0	1	0	0		C	47272096	C	C	47272096	2	2	213	1	0	0	0	0	0	0	0	1	17762	1432	50	3		3	ZNF157	23	47272096	Silent	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	2258776	47272096	107998464	953	106390											
UXT	8409	broad.mit.edu	37	chrX	47516675	47516675	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcccagggccacatagatgCgtgaagtatctgggctgagg	10	8	14	9	1	1	3	0	2	1	1	2	3	2	3	2	3	1	2	2	3	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:47516675C>T	uc004din.2	-	5	319	c.263G>A	c.(262-264)CGC>CAC	p.R88H	UXT_uc004dim.2_Missense_Mutation_p.R100H|LOC100133957_uc011mls.1_5'Flank|LOC100133957_uc011mlt.1_5'Flank	NM_004182	NP_004173	Q9UBK9	UXT_HUMAN	ubiquitously-expressed transcript isoform 2	88					centrosome organization|mitochondrion transport along microtubule|protein folding	centrosome|nucleus|prefoldin complex	beta-tubulin binding|microtubule binding|unfolded protein binding				0						CACATAGATGCGTGAAGTATC	0.358													5	10					0	0	1	0	0		T	47516675	T	T	47516675	3	4	213	1	0	0	0	0	1	0	0	0	17136	768	27	1	222	1	UXT	23	47516675	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	244579	47516675	107753885	954	106391											
ZNF630	57232	broad.mit.edu	37	chrX	47919007	47919007	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgtataatgagctgtgacTtcttgataaaggctttccca	11	14	9	7	0	1	3	0	3	1	0	2	4	2	3	1	1	1	3	1	1	4	6			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:47919007T>G	uc004div.3	-	5	1076	c.824A>C	c.(823-825)AAG>ACG	p.K275T	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.K151T	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	275	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						GAGCTGTGACTTCTTGATAAA	0.383													33	57					0	0	1	0	0		G	47919007	G	G	47919007	3	3	213	1	0	0	0	0	1	0	0	0	18079	1609	56	5	1153	5	ZNF630	23	47919007	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	402332	47919007	107351553	955	106392											
CCDC120	90060	broad.mit.edu	37	chrX	48925140	48925140	+	Frame_Shift_Del	DEL	G	-	-																															cagtggcggtggaacaggctGgggggagctgccgcctgcag																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:48925140delG	uc010nik.2	+	10	1892	c.1385delG	c.(1384-1386)TGGfs	p.W462fs	CCDC120_uc011mmq.1_Frame_Shift_Del_p.W450fs|CCDC120_uc004dmf.2_Frame_Shift_Del_p.W462fs|CCDC120_uc010nil.2_Frame_Shift_Del_p.W462fs|CCDC120_uc011mmr.1_Frame_Shift_Del_p.W462fs|CCDC120_uc011mms.1_Frame_Shift_Del_p.W450fs	NM_033626	NP_296375	Q96HB5	CC120_HUMAN	coiled-coil domain containing 120 isoform 3	462	Pro-rich.						protein binding			pancreas(1)	1						GGAACAGGCTGGGGGGAGCTG	0.697													15	24	---	---	---	---						.	-	48925140	-	-	48925140	7	5	213	1	0	1	0	1	0	0	0	0	2759	1357	47	0	1415	0	CCDC120	23	48925140	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	1006133	48925140	106345420	956	106393											
MAGED1	9500	broad.mit.edu	37	chrX	51638746	51638746	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccaggctgacatagagaccGacccaggtatctctgaacct	11	7	9	14	1	1	3	0	2	1	1	2	5	1	3	4	2	1	2	4	2	3	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:51638746G>A	uc004dpm.2	+	3	738	c.643G>A	c.(643-645)GAC>AAC	p.D215N	MAGED1_uc004dpn.2_Missense_Mutation_p.D271N|MAGED1_uc004dpo.2_Missense_Mutation_p.D215N	NM_001005332	NP_001005332	Q9Y5V3	MAGD1_HUMAN	melanoma antigen family D, 1 isoform b	215					apoptosis|induction of apoptosis by extracellular signals|negative regulation of epithelial cell proliferation|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|plasma membrane|protein complex	protein binding			ovary(3)	3	Ovarian(276;0.236)					CATAGAGACCGACCCAGGTAT	0.527										Multiple Myeloma(10;0.10)			10	19					0	0	1	0	0		A	51638746	A	A	51638746	3	1	213	1	0	0	0	0	1	0	0	0	9201	1058	37	1	821	1	MAGED1	23	51638746	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	2713606	51638746	103631814	957	106394											
RIBC1	158787	broad.mit.edu	37	chrX	53453324	53453324	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaaaccgattcttcaatgtgCggaaccgagtcatgggggtg	11	9	13	8	3	3	0	2	0	1	0	3	3	3	1	2	3	3	0	2	3	4	2			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:53453324C>T	uc004dsk.2	+	3	253	c.100C>T	c.(100-102)CGG>TGG	p.R34W	RIBC1_uc004dsj.1_Missense_Mutation_p.R34W|RIBC1_uc011mog.1_Missense_Mutation_p.R34W	NM_001031745	NP_001026915	Q8N443	RIBC1_HUMAN	RIB43A domain with coiled-coils 1 isoform 1	34											0						CTTCAATGTGCGGAACCGAGT	0.488													3	15					0	0	1	0	0		T	53453324	T	T	53453324	3	4	213	1	0	0	0	0	1	0	0	0	13377	759	27	1	102	1	RIBC1	23	53453324	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	1814578	53453324	101817236	958	106395											
RRAGB	10325	broad.mit.edu	37	chrX	55748700	55748700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	attatattgccagagacacaCgtcgccttggcgcaacaagt	12	9	9	11	3	0	1	0	0	0	1	1	2	0	1	2	1	2	1	2	1	4	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:55748700C>T	uc004dup.2	+	3	859	c.208C>T	c.(208-210)CGT>TGT	p.R70C	RRAGB_uc004duq.2_Missense_Mutation_p.R70C	NM_016656	NP_057740	Q5VZM2	RRAGB_HUMAN	Ras-related GTP binding B long isoform	70					cellular protein localization|cellular response to amino acid stimulus|positive regulation of TOR signaling cascade|signal transduction	Golgi apparatus|lysosome|nucleus	GTP binding|protein binding				0						CAGAGACACACGTCGCCTTGG	0.398													21	49					0	0	1	0	0		T	55748700	T	T	55748700	3	4	213	1	0	0	0	0	1	0	0	0	13698	536	19	1	218	1	RRAGB	23	55748700	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	2295376	55748700	99521860	959	106396											
EDA2R	60401	broad.mit.edu	37	chrX	65824948	65824948	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtgcagttgaccttctgaaCacgattgatgacagcacagg	11	10	11	9	1	1	4	0	4	1	0	1	5	1	4	1	1	3	3	1	1	1	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:65824948C>A	uc004dwq.2	-	2	219	c.208G>T	c.(208-210)GTT>TTT	p.V70F	EDA2R_uc004dwr.2_Missense_Mutation_p.V70F|EDA2R_uc004dws.2_Missense_Mutation_p.V70F|EDA2R_uc011mpb.1_RNA|EDA2R_uc011mpc.1_Intron|EDA2R_uc010nkt.1_Missense_Mutation_p.V70F|EDA2R_uc004dwt.1_Missense_Mutation_p.V70F	NM_021783	NP_068555	Q9HAV5	TNR27_HUMAN	X-linked ectodysplasin receptor	70	Extracellular (Potential).|TNFR-Cys 2.				cell differentiation|embryo development|epidermis development|positive regulation of JNK cascade|positive regulation of NF-kappaB transcription factor activity	integral to plasma membrane	tumor necrosis factor receptor activity			upper_aerodigestive_tract(1)	1						ACCTTCTGAACACGATTGATG	0.527													5	18					0.00116845	0.00119109	1	1	0		A	65824948	A	A	65824948	3	1	213	1	0	0	0	0	1	0	0	0	4910	478	17	5	701	5	EDA2R	23	65824948	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	10076248	65824948	89445612	960	106397											
NLGN3	54413	broad.mit.edu	37	chrX	70387541	70387541	+	Frame_Shift_Del	DEL	G	-	-																															atgaagtaccctatgtttttGgggttcctatggtaggcccc																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:70387541delG	uc004dzd.1	+	6	1794	c.1594delG	c.(1594-1596)GGGfs	p.G532fs	NLGN3_uc010nlb.1_Frame_Shift_Del_p.G492fs|NLGN3_uc004dzb.2_Frame_Shift_Del_p.G512fs|NLGN3_uc004dzc.2_Frame_Shift_Del_p.G395fs|NLGN3_uc011mps.1_Frame_Shift_Del_p.G492fs|NLGN3_uc004dze.2_Frame_Shift_Del_p.G330fs	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	532	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					CTATGTTTTTGGGGTTCCTAT	0.502													56	108	---	---	---	---						.	-	70387541	-	-	70387541	7	5	213	1	0	1	0	1	0	0	0	0	10482	1348	47	0	1616	0	NLGN3	23	70387541	Frame_Shift_Del	DEL	G	TCGA-HU-A4H3-01A-21D-A25D-08	4562593	70387541	84883019	961	106398											
TAF9B	51616	broad.mit.edu	37	chrX	77387182	77387182	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tcattggctgtgttctgtgaCgaaaccatgttggtggtaat	8	15	12	6	1	2	1	1	1	1	0	2	2	2	1	1	3	1	4	1	3	2	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:77387182C>T	uc004eda.2	-	7	752	c.681G>A	c.(679-681)TCG>TCA	p.S227S		NM_015975	NP_057059	Q9HBM6	TAF9B_HUMAN	transcription associated factor 9B	227					negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell growth|transcription initiation, DNA-dependent	transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding				0						TGTTCTGTGACGAAACCATGT	0.368													45	104					0	0	1	0	0		T	77387182	T	T	77387182	2	4	213	1	0	0	0	0	0	0	0	1	15561	523	19	1		1	TAF9B	23	77387182	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6999641	77387182	77883378	962	106399											
TAF9B	51616	broad.mit.edu	37	chrX	77393320	77393320	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggtggcagtctaggtcctgCatatggcttaatcagtggca	9	11	13	8	0	2	0	1	0	1	0	3	0	3	0	1	5	1	4	1	5	3	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:77393320C>T	uc004eda.2	-	4	402	c.331G>A	c.(331-333)GCA>ACA	p.A111T		NM_015975	NP_057059	Q9HBM6	TAF9B_HUMAN	transcription associated factor 9B	111					negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell growth|transcription initiation, DNA-dependent	transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|protein binding				0						CTAGGTCCTGCATATGGCTTA	0.338													20	66					0	0	1	0	0		T	77393320	T	T	77393320	3	4	213	1	0	0	0	0	1	0	0	0	15561	710	25	2	440	2	TAF9B	23	77393320	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	6138	77393320	77877240	963	106400											
FAM133A	286499	broad.mit.edu	37	chrX	92965080	92965080	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcgagaacaagcaaaggaaaAagtaaagaagaagaagaaga	25	1	12	3	1	0	6	0	0	0	6	0	8	0	7	0	1	2	2	0	1	11	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:92965080A>T	uc004efr.1	+	4	975	c.662A>T	c.(661-663)AAA>ATA	p.K221I		NM_173698	NP_775969	Q8N9E0	F133A_HUMAN	hypothetical protein LOC286499	221	Lys-rich.										0						GCAAAGGAAAAAGTAaagaag	0.274													13	25					0	0	1	0	0		T	92965080	T	T	92965080	3	4	213	1	0	0	0	0	1	0	0	0	5454	14	1	5	664	5	FAM133A	23	92965080	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	15571760	92965080	62305480	964	106401											
RPA4	29935	broad.mit.edu	37	chrX	96139979	96139979	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaagagcatccatgagctcCgggctcagctctgcgacctt	8	8	12	13	2	2	2	1	1	1	1	4	4	4	3	3	2	4	4	3	2	1	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:96139979C>T	uc004efv.3	+	1	968	c.670C>T	c.(670-672)CGG>TGG	p.R224W	DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa	224					DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						CCATGAGCTCCGGGCTCAGCT	0.522								Other_identified_genes_with_known_or_suspected_DNA_repair_function					33	83					0	0	1	0	0		T	96139979	T	T	96139979	3	4	213	1	0	0	0	0	1	0	0	0	13564	643	23	1	672	1	RPA4	23	96139979	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3174899	96139979	59130581	965	106402											
ZMAT1	84460	broad.mit.edu	37	chrX	101138490	101138490	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaaactaaacattcaaaatcCaagaatagactcatcccaaa	22	7	2	10	0	2	2	2	0	0	2	4	2	4	2	2	0	2	0	2	0	10	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:101138490C>A	uc004eim.2	-	2	4894	c.1396G>T	c.(1396-1398)GGA>TGA	p.G466*	ZMAT1_uc011mrl.1_Nonsense_Mutation_p.G637*|ZMAT1_uc004ein.2_Nonsense_Mutation_p.G466*|ZMAT1_uc011mrm.1_Nonsense_Mutation_p.G466*	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	466						nucleus	zinc ion binding			ovary(1)	1						ATTCAAAATCCAAGAATAGAC	0.353													5	74					0.014758	0.0148996	1	1	0		A	101138490	A	A	101138490	4	1	213	1	0	0	0	0	0	1	0	0	17716	603	21	5	11	5	ZMAT1	23	101138490	Nonsense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	4998511	101138490	54132070	966	106403											
CXorf41	139212	broad.mit.edu	37	chrX	106482225	106482225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaaacaatccttgaccttcGtactcctcagaagtgagtaa	13	10	8	10	1	1	3	1	2	0	1	4	4	3	4	3	1	2	2	3	1	5	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:106482225G>A	uc004enc.2	+	6	565	c.503G>A	c.(502-504)CGT>CAT	p.R168H	CXorf41_uc004end.2_Missense_Mutation_p.R168H	NM_173494	NP_775765	Q9NQM4	CX041_HUMAN	hypothetical protein LOC139212	168											0						CTTGACCTTCGTACTCCTCAG	0.284													15	44					0	0	1	0	0		A	106482225	A	A	106482225	3	1	213	1	0	0	0	0	1	0	0	0	4113	1145	40	1	521	1	CXorf41	23	106482225	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	5343735	106482225	48788335	967	106404											
PLS3	5358	broad.mit.edu	37	chrX	114879381	114879382	+	Frame_Shift_Del	DEL	CT	-	-																															accttccgtaactggatgaaCtctcttggtgtcaatcctca																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:114879381_114879382delCT	uc004eqd.2	+	11	1614_1615	c.1224_1225delCT	c.(1222-1227)AACTCTfs	p.N408fs	PLS3_uc010nqg.2_Frame_Shift_Del_p.N190fs|PLS3_uc011mtf.1_Frame_Shift_Del_p.N395fs|PLS3_uc004eqe.2_Frame_Shift_Del_p.N408fs|PLS3_uc011mtg.1_Frame_Shift_Del_p.N381fs|PLS3_uc011mth.1_Frame_Shift_Del_p.N363fs|PLS3_uc011mti.1_Frame_Shift_Del_p.N84fs|PLS3_uc011mtj.1_Frame_Shift_Del_p.N2fs|PLS3_uc011mtk.1_Frame_Shift_Del_p.N69fs|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	408_409	Actin-binding 2.|CH 3.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						ACTGGATGAACTCTCTTGGTGT	0.356													50	84	---	---	---	---						.	-	114879382	-	-	114879381	7	5	213	1	0	1	0	1	0	0	0	0	12127	564	20	0	1262	0	PLS3	23	114879381	Frame_Shift_Del	DEL	CT	TCGA-HU-A4H3-01A-21D-A25D-08	8397156	114879381	40391179	968	106405											
KIAA1210	57481	broad.mit.edu	37	chrX	118222649	118222649	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcttgattctgtgaagacTtctgcatcttcaggctcctc	6	15	8	12	0	4	3	1	2	3	1	6	3	5	3	1	1	2	3	1	1	1	4			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:118222649T>G	uc004era.3	-	11	2544	c.2544A>C	c.(2542-2544)GAA>GAC	p.E848D		NM_020721	NP_065772	Q9ULL0	K1210_HUMAN	hypothetical protein LOC57481	848										ovary(4)|skin(1)	5						CTGTGAAGACTTCTGCATCTT	0.488													15	19					0	0	1	0	0		G	118222649	G	G	118222649	3	3	213	1	0	0	0	0	1	0	0	0	8230	1606	56	5	2601	5	KIAA1210	23	118222649	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	3343268	118222649	37047911	969	106406											
CXorf56	63932	broad.mit.edu	37	chrX	118678354	118678354	+	Frame_Shift_Del	DEL	T	-	-																															tttctgagtatatatgttcgTtttcccaaagccctggccaa																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:118678354delT	uc004erk.1	-	4	431	c.385delA	c.(385-387)ACGfs	p.T129fs	CXorf56_uc004erj.1_Frame_Shift_Del_p.T80fs|CXorf56_uc011mtu.1_Frame_Shift_Del_p.T115fs	NM_022101	NP_071384	Q9H5V9	CX056_HUMAN	hypothetical protein LOC63932	129							protein binding				0						TATATGTTCGTTTTCCCAAAG	0.428													43	68	---	---	---	---						.	-	118678354	-	-	118678354	7	5	213	1	0	1	0	1	0	0	0	0	4115	1725	60	0	299	0	CXorf56	23	118678354	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	455705	118678354	36592206	970	106407											
GLUD2	2747	broad.mit.edu	37	chrX	120183165	120183165	+	Missense_Mutation	SNP	A	G	G	1	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	cagctgcctatgtcaatgccAttgaaaaagtcttcaaagtg	13	11	8	9	0	3	1	2	1	1	0	3	1	3	1	2	0	3	1	2	0	5	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:120183165A>G	uc004eto.2	+	1	1704	c.1627A>G	c.(1627-1629)ATT>GTT	p.I543V		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	543					glutamate biosynthetic process|glutamate catabolic process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGTCAATGCCATTGAAAAAGT	0.458													51	90					0	0	1	0	0		G	120183165	G	G	120183165	3	3	213	1	0	0	0	0	1	0	0	0	6492	217	8	3	1629	3	GLUD2	23	120183165	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	1504811	120183165	35087395	971	106408											
IGSF1	3547	broad.mit.edu	37	chrX	130419306	130419306	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agttgggacttggtaatccaCaggctctgcatatccctctt	8	13	9	11	0	2	0	0	0	2	0	4	1	4	1	2	3	1	4	2	3	2	5			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:130419306C>T	uc004ewd.2	-	5	752	c.514G>A	c.(514-516)GTG>ATG	p.V172M	IGSF1_uc004ewe.3_Missense_Mutation_p.V161M|IGSF1_uc004ewf.2_Missense_Mutation_p.V152M|IGSF1_uc004ewg.2_Missense_Mutation_p.V172M	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	172	Ig-like C2-type 2.|Extracellular (Potential).				regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						TGGTAATCCACAGGCTCTGCA	0.493													24	115					0	0	1	0	0		T	130419306	T	T	130419306	3	4	213	1	0	0	0	0	1	0	0	0	7612	478	17	4	3637	4	IGSF1	23	130419306	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	10236141	130419306	24851254	972	106409											
FRMD7	90167	broad.mit.edu	37	chrX	131211976	131211978	+	In_Frame_Del	DEL	TCT	-	-																															tgttgaaataagcatcttcaTcttcttcatctaactgtaga																										TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:131211976_131211978delTCT	uc004ewn.2	-	12	2245_2247	c.2067_2069delAGA	c.(2065-2070)GAAGAT>GAT	p.E689del	FRMD7_uc011muy.1_In_Frame_Del_p.E674del	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	689					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AGCATCTTCATCTTCTTCATCTA	0.384													30	63	---	---	---	---						.	-	131211978	-	-	131211976	7	5	213	1	0	1	0	1	0	0	0	0	6069	1435	50	0	79	0	FRMD7	23	131211976	In_Frame_Del	DEL	TCT	TCGA-HU-A4H3-01A-21D-A25D-08	792670	131211976	24058584	973	106410											
SLC9A6	10479	broad.mit.edu	37	chrX	135067850	135067850	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atcgtgtccgagaagcaagcCgaggagagccaccggcagga	12	3	15	11	4	0	2	0	0	0	2	2	6	1	3	4	3	3	2	4	3	2	0			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:135067850C>T	uc004ezj.2	+	1	265	c.189C>T	c.(187-189)GCC>GCT	p.A63A	SLC9A6_uc004ezk.2_Silent_p.A63A|SLC9A6_uc011mvx.1_Silent_p.A11A	NM_006359	NP_006350	Q92581	SL9A6_HUMAN	solute carrier family 9 (sodium/hydrogen	63					regulation of pH	early endosome membrane|endoplasmic reticulum membrane|integral to membrane|microsome|plasma membrane|recycling endosome membrane	sodium:hydrogen antiporter activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AGAAGCAAGCCGAGGAGAGCC	0.642													52	107					0	0	1	0	0		T	135067850	T	T	135067850	2	4	213	1	0	0	0	0	0	0	0	1	14743	639	23	1		1	SLC9A6	23	135067850	Silent	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	3855874	135067850	20202710	974	106411											
MCF2	4168	broad.mit.edu	37	chrX	138667228	138667228	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actatattattactaaccatGaggggcctattttcttcttc	10	17	5	9	0	2	1	0	1	2	0	3	1	2	1	2	2	2	0	2	2	6	10			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:138667228G>A	uc004fau.2	-	24	3036	c.2742C>T	c.(2740-2742)CTC>CTT	p.L914L	MCF2_uc004fav.2_Silent_p.L930L|MCF2_uc011mwl.1_Silent_p.L891L|MCF2_uc010nsh.1_Intron|MCF2_uc011mwm.1_Intron|MCF2_uc011mwn.1_Intron|MCF2_uc004faw.2_Silent_p.L974L|MCF2_uc011mwo.1_Silent_p.L990L	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	914					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TACTAACCATGAGGGGCCTAT	0.373													34	77					0	0	1	0	0		A	138667228	A	A	138667228	2	1	213	1	0	0	0	0	0	0	0	1	9396	1277	45	4		4	MCF2	23	138667228	Silent	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3599378	138667228	16603332	975	106412											
SPANXC	64663	broad.mit.edu	37	chrX	140335820	140335820	+	Frame_Shift_Del	DEL	T	-	-																															cgaggactcagatgttttcaTttttttaggagcaggttgcg																								rs57835830	byFrequency	TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:140335820delT	uc004fbk.2	-	2	180	c.124delA	c.(124-126)ATGfs	p.M42fs	SPANXC_uc004fbl.2_RNA	NM_022661	NP_073152	Q9NY87	SPNXC_HUMAN	sperm protein associated with the nucleus, X	42	Nuclear localization signal (Potential).					cytoplasm|nucleus					0	Acute lymphoblastic leukemia(192;7.65e-05)					GATGTTTTCATTTTTTTAGGA	0.498													16	22	---	---	---	---						.	-	140335820	-	-	140335820	7	5	213	1	0	1	0	1	0	0	0	0	15012	1493	52	0	173	0	SPANXC	23	140335820	Frame_Shift_Del	DEL	T	TCGA-HU-A4H3-01A-21D-A25D-08	1668592	140335820	14934740	976	106413											
MAGEC1	9947	broad.mit.edu	37	chrX	140996328	140996328	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagggagctcctcactaaAgtttgggtgcaggaacatta	11	9	11	10	0	1	0	1	0	0	0	2	2	2	2	2	3	3	3	2	3	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:140996328A>C	uc004fbt.2	+	4	3424	c.3138A>C	c.(3136-3138)AAA>AAC	p.K1046N	MAGEC1_uc010nsl.1_Missense_Mutation_p.K113N	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1046	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TCCTCACTAAAGTTTGGGTGC	0.552										HNSCC(15;0.026)			43	96					0	0	1	0	0		C	140996328	C	C	140996328	3	2	213	1	0	0	0	0	1	0	0	0	9198	69	3	5	3144	5	MAGEC1	23	140996328	Missense_Mutation	SNP	A	TCGA-HU-A4H3-01A-21D-A25D-08	660508	140996328	14274232	977	106414											
MAGEC1	9947	broad.mit.edu	37	chrX	140996374	140996374	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtaccgggaggtgcccaacTcttctcctcctcgttacgaa	8	10	9	14	3	2	0	0	0	2	0	5	2	3	1	4	2	4	2	4	2	4	3			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:140996374T>C	uc004fbt.2	+	4	3470	c.3184T>C	c.(3184-3186)TCT>CCT	p.S1062P	MAGEC1_uc010nsl.1_Missense_Mutation_p.S129P	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	1062	MAGE.						protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					GGTGCCCAACTCTTCTCCTCC	0.512										HNSCC(15;0.026)			55	103					0	0	1	0	0		C	140996374	C	C	140996374	3	2	213	1	0	0	0	0	1	0	0	0	9198	1551	54	3	3190	3	MAGEC1	23	140996374	Missense_Mutation	SNP	T	TCGA-HU-A4H3-01A-21D-A25D-08	46	140996374	14274186	978	106415											
SPANXN1	494118	broad.mit.edu	37	chrX	144329135	144329135	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcccacttcaagcatcaatgGggagaagaggaagagcccct	13	5	12	11	0	2	3	2	0	0	3	2	5	2	4	3	3	2	1	3	3	4	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:144329135G>T	uc004fcb.2	+	1	29	c.29G>T	c.(28-30)GGG>GTG	p.G10V		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein	10											0	Acute lymphoblastic leukemia(192;6.56e-05)					AGCATCAATGGGGAGAAGAGG	0.338													45	117					5.20006e-24	5.8949e-24	1	1	0		T	144329135	T	T	144329135	3	4	213	1	0	0	0	0	1	0	0	0	15015	1232	43	5	31	5	SPANXN1	23	144329135	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	3332761	144329135	10941425	979	106416											
MAGEA1	4100	broad.mit.edu	37	chrX	152482876	152482876	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gttgacccagcagtgggcacCtcctccagggtgcccaggac	7	6	13	15	0	0	1	0	1	0	0	2	2	2	2	5	3	2	3	5	3	0	1			TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:152482876C>A	uc004fhf.2	-	3	355	c.135G>T	c.(133-135)GAG>GAT	p.E45D		NM_004988	NP_004979	P43355	MAGA1_HUMAN	melanoma antigen family A, 1	45						cytoplasm|plasma membrane				central_nervous_system(7)|ovary(1)|lung(1)|breast(1)	10	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CAGTGGGCACCTCCTCCAGGG	0.632													62	109					1.08141e-31	1.23522e-31	1	1	0		A	152482876	A	A	152482876	3	1	213	1	0	0	0	0	1	0	0	0	9181	680	24	5	798	5	MAGEA1	23	152482876	Missense_Mutation	SNP	C	TCGA-HU-A4H3-01A-21D-A25D-08	8153741	152482876	2787684	980	106417											
TREX2	11219	broad.mit.edu	37	chrX	152710795	152710795	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcggtggacagcaaagaGggacagctcggcaatctcgg	11	4	17	9	3	1	1	0	0	1	1	3	4	1	4	0	6	3	3	0	6	2	0	rs151053685		TCGA-HU-A4H3-01A-21D-A25D-08	TCGA-HU-A4H3-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	d4217ee3-8720-46c6-86c4-981ce6377fa9	1f68952d-2c49-4562-815b-bab0dc54415a	g.chrX:152710795G>T	uc010nue.1	-	3	336	c.220C>A	c.(220-222)CTC>ATC	p.L74I	TREX2_uc010nud.1_Missense_Mutation_p.L32I|TREX2_uc011myp.1_Missense_Mutation_p.L32I|HAUS7_uc004fhl.2_RNA|HAUS7_uc004fhm.2_RNA	NM_080701	NP_542432	Q9BQ50	TREX2_HUMAN	three prime repair exonuclease 2	75					DNA repair	nucleus	3'-5'-exodeoxyribonuclease activity|exodeoxyribonuclease III activity|nucleic acid binding			large_intestine(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					ACAGCAAAGAGGGACAGCTCG	0.637								Editing_and_processing_nucleases					8	9					0.0381472	0.0384028	1	1	0		T	152710795	T	T	152710795	3	4	213	1	0	0	0	0	1	0	0	0	16503	1000	35	5	619	5	TREX2	23	152710795	Missense_Mutation	SNP	G	TCGA-HU-A4H3-01A-21D-A25D-08	227919	152710795	2559765	981	106418											
TPRG1L	127262	broad.mit.edu	37	chr1	3545105	3545105	+	Missense_Mutation	SNP	T	C	C	0	1	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	agacctacgtgggactcatgTccttcattaacaacgaggcg	11	9	10	11	3	2	1	2	0	0	1	3	3	3	2	2	2	3	0	2	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:3545105T>C	uc001akm.2	+	5	838	c.757T>C	c.(757-759)TCC>CCC	p.S253P	TPRG1L_uc009vlj.2_Missense_Mutation_p.S194P	NM_182752	NP_877429	Q5T0D9	TPRGL_HUMAN	tumor protein p63 regulated 1-like	253						cell junction|synaptic vesicle					0	all_cancers(77;0.0119)|all_epithelial(69;0.00481)|Ovarian(185;0.0634)|Lung NSC(156;0.162)|all_lung(157;0.172)	all_epithelial(116;7.37e-22)|all_lung(118;8.23e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.41e-38)|OV - Ovarian serous cystadenocarcinoma(86;3.83e-22)|GBM - Glioblastoma multiforme(42;4.77e-14)|Colorectal(212;1.12e-05)|COAD - Colon adenocarcinoma(227;5.61e-05)|Kidney(185;0.000351)|BRCA - Breast invasive adenocarcinoma(365;0.000688)|KIRC - Kidney renal clear cell carcinoma(229;0.00553)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.201)		GGGACTCATGTCCTTCATTAA	0.557													6	30					0	0	1	0	0		C	3545105	C	C	3545105	3	2	214	1	0	0	0	0	1	0	0	0	16445	1667	58	3	775	3	TPRG1L	1	3545105	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08		3545105	245705516	1	106419											
CHD5	26038	broad.mit.edu	37	chr1	6228223	6228223	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcacctctttcttcttcCgcttccctttacacttgttt	3	19	2	17	1	4	0	1	0	3	0	6	0	6	0	4	0	1	2	4	0	1	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:6228223C>T	uc001amb.1	-	2	294	c.194G>A	c.(193-195)CGG>CAG	p.R65Q		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	65	Lys-rich.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|DNA binding|zinc ion binding			central_nervous_system(3)|breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	12	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)		TTTCTTCTTCCGCTTCCCTTT	0.592													8	173					0	0	1	0	0		T	6228223	T	T	6228223	3	4	214	1	0	0	0	0	1	0	0	0	3331	652	23	1	5830	1	CHD5	1	6228223	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2683118	6228223	243022398	2	106420											
DNAJC11	55735	broad.mit.edu	37	chr1	6697386	6697386	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaacttcccgtaccaggcatTgacgatgatgaggcctaagg	12	8	11	10	2	0	3	0	3	0	0	1	4	1	3	3	3	2	2	3	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:6697386T>C	uc001aof.2	-	14	1502	c.1396A>G	c.(1396-1398)AAT>GAT	p.N466D	DNAJC11_uc010nzt.1_Intron|DNAJC11_uc001aog.2_Missense_Mutation_p.N414D|DNAJC11_uc010nzu.1_Missense_Mutation_p.N376D	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	466					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|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;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		TACCAGGCATTGACGATGATG	0.572													20	132					0	0	1	0	0		C	6697386	C	C	6697386	3	2	214	1	0	0	0	0	1	0	0	0	4636	1812	63	3	295	3	DNAJC11	1	6697386	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	469163	6697386	242553235	3	106421											
DNAJC11	55735	broad.mit.edu	37	chr1	6714070	6714070	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcatagcgatcaaaaaggtcGgtggcatctactccaacgct	12	9	9	11	3	3	0	2	0	1	0	5	1	4	0	1	3	3	2	1	3	5	2	rs147338908	byFrequency	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:6714070G>A	uc001aof.2	-	5	514	c.408C>T	c.(406-408)ACC>ACT	p.T136T	DNAJC11_uc010nzt.1_Silent_p.T98T|DNAJC11_uc001aog.2_Silent_p.T136T|DNAJC11_uc010nzu.1_Silent_p.T46T	NM_018198	NP_060668	Q9NVH1	DJC11_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 11	136					protein folding		heat shock protein binding|unfolded protein binding			ovary(1)|skin(1)	2	Ovarian(185;0.0265)|all_lung(157;0.154)	all_cancers(23;1.97e-27)|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;2.34e-07)|COAD - Colon adenocarcinoma(227;2.05e-05)|Kidney(185;7.67e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000639)|KIRC - Kidney renal clear cell carcinoma(229;0.00128)|STAD - Stomach adenocarcinoma(132;0.00179)|READ - Rectum adenocarcinoma(331;0.0649)		CAAAAAGGTCGGTGGCATCTA	0.458													11	88					0	0	1	0	0		A	6714070	A	A	6714070	2	1	214	1	0	0	0	0	0	0	0	1	4636	1103	39	1		1	DNAJC11	1	6714070	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	16684	6714070	242536551	4	106422											
ENO1	2023	broad.mit.edu	37	chr1	8926353	8926353	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttaccttctttattctccaGgatgttgggagcaaacccgc	8	14	8	11	1	2	0	0	0	2	0	3	2	2	2	3	2	3	2	3	2	3	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:8926353G>T	uc001apj.1	-	7	803	c.652C>A	c.(652-654)CTG>ATG	p.L218M	ENO1_uc001api.1_Missense_Mutation_p.L122M|ENO1_uc001apk.1_Missense_Mutation_p.L163M|ENO1_uc001apl.1_Missense_Mutation_p.L218M|ENO1_uc009vmi.1_Missense_Mutation_p.L175M|ENO1_uc009vmj.1_Missense_Mutation_p.L218M|ENO1_uc009vmk.1_Missense_Mutation_p.L92M|ENO1_uc009vml.1_Missense_Mutation_p.L218M	NM_001428	NP_001419	P06733	ENOA_HUMAN	enolase 1	218	Required for repression of c-myc promoter activity.				gluconeogenesis|glycolysis|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|response to virus	phosphopyruvate hydratase complex|plasma membrane|sarcomere	DNA binding|magnesium ion binding|phosphopyruvate hydratase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(2)|kidney(1)|central_nervous_system(1)	4	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)		TTATTCTCCAGGATGTTGGGA	0.567													8	90					5.18039e-06	5.54903e-06	1	1	0		T	8926353	T	T	8926353	3	4	214	1	0	0	0	0	1	0	0	0	5129	991	35	5	676	5	ENO1	1	8926353	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2212283	8926353	240324268	5	106423											
VPS13D	55187	broad.mit.edu	37	chr1	12337845	12337845	+	Silent	SNP	A	C	C	1	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	agtcctgagttgttggtgggAcacttgggacagatattcat	9	13	13	6	0	1	2	1	1	0	1	2	4	2	4	1	3	0	2	1	3	1	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:12337845A>C	uc001atv.2	+	19	4341	c.4200A>C	c.(4198-4200)GGA>GGC	p.G1400G	VPS13D_uc001atw.2_Silent_p.G1400G|VPS13D_uc001atx.2_Silent_p.G588G	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	1400					protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TGTTGGTGGGACACTTGGGAC	0.443													4	51					0	0	1	0	0		C	12337845	C	C	12337845	2	2	214	1	0	0	0	0	0	0	0	1	17218	262	10	5		5	VPS13D	1	12337845	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3411492	12337845	236912776	6	106424											
CLCNKA	1187	broad.mit.edu	37	chr1	16352735	16352735	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cggcagcaccctgttcctggGcaaagtggtatggtcaggtg	7	9	15	10	1	1	0	1	0	0	0	2	0	2	0	2	5	1	5	2	5	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:16352735G>A	uc001axu.2	+	5	571	c.491G>A	c.(490-492)GGC>GAC	p.G164D	CLCNKA_uc001axt.2_RNA|CLCNKA_uc001axv.2_Missense_Mutation_p.G164D|CLCNKA_uc010obw.1_Missense_Mutation_p.G121D|CLCNKB_uc001axw.3_Intron|CLCNKA_uc010obx.1_5'Flank|CLCNKA_uc010oby.1_5'Flank	NM_004070	NP_004061	P51800	CLCKA_HUMAN	chloride channel Ka isoform 1	164	Helical; (Potential).				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)	Niflumic Acid(DB04552)	CTGTTCCTGGGCAAAGTGGTA	0.587													5	65					0	0	1	0	0		A	16352735	A	A	16352735	3	1	214	1	0	0	0	0	1	0	0	0	3472	1203	42	2	505	2	CLCNKA	1	16352735	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4014890	16352735	232897886	7	106425											
USP48	84196	broad.mit.edu	37	chr1	22079511	22079511	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtccagtgtccaggcccaAggctttaacaaatcctgatg	10	11	9	11	0	0	1	0	1	0	0	3	1	3	1	4	2	1	1	4	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:22079511A>G	uc001bfb.2	-	4	752	c.514T>C	c.(514-516)TTG>CTG	p.L172L	USP48_uc010odq.1_Silent_p.L172L|USP48_uc009vqc.2_Silent_p.L172L|USP48_uc001bfc.2_Silent_p.L172L|USP48_uc001bfe.1_Silent_p.L172L|USP48_uc001bff.2_Silent_p.L172L	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	172					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		TCCAGGCCCAAGGCTTTAACA	0.378													16	44					0	0	1	0	0		G	22079511	G	G	22079511	2	3	214	1	0	0	0	0	0	0	0	1	17105	69	3	3		3	USP48	1	22079511	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5726776	22079511	227171110	8	106426											
UBXN11	91544	broad.mit.edu	37	chr1	26608997	26608997	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagcctgcagcgtgagtgtAtcgtcctggtagagggtggg	6	9	18	8	2	0	2	0	1	0	1	2	2	1	2	2	3	3	4	2	3	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:26608997A>G	uc001blw.2	-	16	1629	c.1356T>C	c.(1354-1356)GAT>GAC	p.D452D	UBXN11_uc001blz.1_Silent_p.D419D|UBXN11_uc001blv.2_Silent_p.D414D|UBXN11_uc001bly.2_Silent_p.D332D|UBXN11_uc001blx.2_Silent_p.D210D|UBXN11_uc001bma.2_Silent_p.D419D|UBXN11_uc001bmb.1_Silent_p.D452D	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2	452	UBX.					cytoplasm|cytoskeleton				ovary(1)	1						GCGTGAGTGTATCGTCCTGGT	0.577													13	83					0	0	1	0	0		G	26608997	G	G	26608997	2	3	214	1	0	0	0	0	0	0	0	1	16939	446	16	3		3	UBXN11	1	26608997	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4529486	26608997	222641624	9	106427											
OPRD1	4985	broad.mit.edu	37	chr1	29189495	29189495	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgggcgccttcgtggtgtgTtgggcgcccatccacatctt	3	12	14	12	3	1	0	0	0	1	0	3	0	2	0	3	3	0	1	3	3	0	3	rs142127727		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:29189495T>C	uc001brf.1	+	3	1061	c.819T>C	c.(817-819)TGT>TGC	p.C273C		NM_000911	NP_000902	P41143	OPRD_HUMAN	opioid receptor, delta 1	273	Helical; Name=6; (Potential).				immune response|protein import into nucleus, translocation	integral to plasma membrane	delta-opioid receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2		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)	Butorphanol(DB00611)|Codeine(DB00318)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Loperamide(DB00836)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Pimozide(DB01100)|Propoxyphene(DB00647)	TCGTGGTGTGTTGGGCGCCCA	0.677													5	9					0	0	1	0	0		C	29189495	C	C	29189495	2	2	214	1	0	0	0	0	0	0	0	1	10903	1731	60	3		3	OPRD1	1	29189495	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2580498	29189495	220061126	10	106428											
TMEM200B	399474	broad.mit.edu	37	chr1	29447700	29447700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcaaggcaggtaaccccaagCgaggattagcgggctctgaa	12	5	14	10	2	1	1	0	1	1	0	1	3	1	2	2	4	3	4	2	4	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:29447700C>T	uc001brn.1	-	2	701	c.641G>A	c.(640-642)CGC>CAC	p.R214H		NM_001003682	NP_001003682	Q69YZ2	T200B_HUMAN	transmembrane protein 200B	214	Pro-rich.					integral to membrane					0		Colorectal(325;3.46e-05)|Breast(348;0.00765)|Lung NSC(340;0.0153)|all_lung(284;0.0173)|all_neural(195;0.0199)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)|Medulloblastoma(700;0.123)		Colorectal(126;7.32e-08)|COAD - Colon adenocarcinoma(152;4.92e-06)|STAD - Stomach adenocarcinoma(196;0.00618)|BRCA - Breast invasive adenocarcinoma(304;0.0501)|READ - Rectum adenocarcinoma(331;0.0649)|KIRC - Kidney renal clear cell carcinoma(1967;0.126)		TAACCCCAAGCGAGGATTAGC	0.657													3	27					0	0	1	0	0		T	29447700	T	T	29447700	3	4	214	1	0	0	0	0	1	0	0	0	16149	768	27	1	286	1	TMEM200B	1	29447700	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	258205	29447700	219802921	11	106429											
PUM1	9698	broad.mit.edu	37	chr1	31467969	31467969	+	Silent	SNP	A	G	G	1	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	ttggtcttgtccatcacatcAccctcctccttcaaatctcc	7	14	3	17	0	5	0	3	0	2	0	9	0	8	0	5	1	0	0	5	1	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:31467969A>G	uc001bsi.1	-	6	932	c.819T>C	c.(817-819)GGT>GGC	p.G273G	PUM1_uc001bsf.1_5'Flank|PUM1_uc001bsg.1_Silent_p.G85G|PUM1_uc001bsh.1_Silent_p.G273G|PUM1_uc001bsj.1_Silent_p.G273G|PUM1_uc010oga.1_Silent_p.G177G|PUM1_uc001bsk.1_Silent_p.G309G|PUM1_uc010ogb.1_Silent_p.G213G	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	273					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		CCATCACATCACCCTCCTCCT	0.418													11	174					0	0	1	0	0		G	31467969	G	G	31467969	2	3	214	1	0	0	0	0	0	0	0	1	12850	146	6	3		3	PUM1	1	31467969	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2020269	31467969	217782652	12	106430											
PUM1	9698	broad.mit.edu	37	chr1	31532079	31532079	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgcatgaatgttatccccaGtaggccatcgatgtttgcta	9	13	9	10	1	0	1	0	1	0	0	2	2	1	1	3	1	2	5	3	1	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:31532079G>C	uc001bsi.1	-	2	448	c.335C>G	c.(334-336)ACT>AGT	p.T112S	PUM1_uc001bsh.1_Missense_Mutation_p.T112S|PUM1_uc001bsj.1_Missense_Mutation_p.T112S|PUM1_uc010oga.1_Missense_Mutation_p.T112S|PUM1_uc001bsk.1_Missense_Mutation_p.T148S|PUM1_uc010ogb.1_Missense_Mutation_p.T148S	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	112					cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		GTTATCCCCAGTAGGCCATCG	0.433													20	92					0	0	1	0	0		C	31532079	C	C	31532079	3	2	214	1	0	0	0	0	1	0	0	0	12850	1029	36	5	3315	5	PUM1	1	31532079	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	64110	31532079	217718542	13	106431											
KPNA6	23633	broad.mit.edu	37	chr1	32635611	32635611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggagagcaagagggcaagcGcagtggctcaggggtcaatc	11	5	17	8	1	2	2	2	0	0	2	3	3	2	2	0	5	2	4	0	5	3	0	rs142180334	by1000genomes	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:32635611G>A	uc001bug.2	+	13	1461	c.1373G>A	c.(1372-1374)CGC>CAC	p.R458H	KPNA6_uc001buh.2_Missense_Mutation_p.R233H|KPNA6_uc010ogx.1_Missense_Mutation_p.R455H|KPNA6_uc010ogy.1_Missense_Mutation_p.R463H|KPNA6_uc009vtz.2_Missense_Mutation_p.R353H	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	458	ARM 10; atypical.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				GAGGGCAAGCGCAGTGGCTCA	0.532													6	89					0	0	1	0	0		A	32635611	A	A	32635611	3	1	214	1	0	0	0	0	1	0	0	0	8450	1087	38	1	1423	1	KPNA6	1	32635611	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1103532	32635611	216615010	14	106432											
RNF19B	127544	broad.mit.edu	37	chr1	33404024	33404024	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgggttgtaggaactgatTatggaaccggccatagcacg	10	10	14	7	2	0	1	0	1	0	0	0	3	0	3	2	4	3	3	2	4	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:33404024T>C	uc010oho.1	-	8	1719	c.1719A>G	c.(1717-1719)ATA>ATG	p.I573M	RNF19B_uc001bwm.3_Missense_Mutation_p.I572M|RNF19B_uc010ohp.1_Missense_Mutation_p.I572M	NM_153341	NP_699172	Q6ZMZ0	RN19B_HUMAN	ring finger protein 19B isoform a	573						integral to membrane	ligase activity|protein binding|zinc ion binding				0		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				AGGAACTGATTATGGAACCGG	0.468													18	95					0	0	1	0	0		C	33404024	C	C	33404024	3	2	214	1	0	0	0	0	1	0	0	0	13496	1744	61	3	513	3	RNF19B	1	33404024	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	768413	33404024	215846597	15	106433											
CSMD2	114784	broad.mit.edu	37	chr1	33990501	33990501	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccagccaagtgcagctccacGccactgtggtcgatcatggt	8	8	11	14	2	1	0	1	0	0	0	3	1	2	0	4	2	3	2	4	2	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:33990501G>A	uc001bxn.1	-	65	9974	c.9945C>T	c.(9943-9945)GGC>GGT	p.G3315G	CSMD2_uc001bxm.1_Silent_p.G3459G	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	3315	Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GCAGCTCCACGCCACTGTGGT	0.562													9	42					0	0	1	0	0		A	33990501	A	A	33990501	2	1	214	1	0	0	0	0	0	0	0	1	3948	1074	38	1		1	CSMD2	1	33990501	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	586477	33990501	215260120	16	106434											
GJB5	2709	broad.mit.edu	37	chr1	35223145	35223145	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttgatgagttcttccctgtgTcccatgtgcgcctctgggcc	3	14	11	13	1	2	2	0	2	2	0	4	2	4	2	4	1	1	1	4	1	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:35223145T>C	uc001bxu.2	+	2	314	c.214T>C	c.(214-216)TCC>CCC	p.S72P	GJB4_uc001bxv.1_5'Flank	NM_005268	NP_005259	O95377	CXB5_HUMAN	gap junction protein, beta 5, 31.1kDa	72	Extracellular (Potential).				cell communication|epidermis development	connexon complex|integral to membrane				ovary(1)	1		Myeloproliferative disorder(586;0.0393)				CTTCCCTGTGTCCCATGTGCG	0.602													8	46					0	0	1	0	0		C	35223145	C	C	35223145	3	2	214	1	0	0	0	0	1	0	0	0	6426	1667	58	3	216	3	GJB5	1	35223145	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1232644	35223145	214027476	17	106435											
DLGAP3	58512	broad.mit.edu	37	chr1	35370053	35370053	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgccagtgcaggcaaggcagCggccttccgacccgcccgag	7	4	14	16	4	0	0	0	0	0	0	1	2	1	0	5	3	3	3	5	3	1	1	rs141061512	byFrequency	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:35370053C>T	uc001byc.2	-	1	932	c.932G>A	c.(931-933)CGC>CAC	p.R311H		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	311					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GGCAAGGCAGCGGCCTTCCGA	0.647													13	63					0	0	1	0	0		T	35370053	T	T	35370053	3	4	214	1	0	0	0	0	1	0	0	0	4567	768	27	1	2047	1	DLGAP3	1	35370053	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	146908	35370053	213880568	18	106436											
DLGAP3	58512	broad.mit.edu	37	chr1	35370418	35370418	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ttatagtcccgcttccccggCgcctccagagagtgggactt	6	10	11	14	3	0	1	0	0	0	1	3	3	3	2	5	2	0	1	5	2	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:35370418C>T	uc001byc.2	-	1	567	c.567G>A	c.(565-567)GCG>GCA	p.A189A		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	189					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				GCTTCCCCGGCGCCTCCAGAG	0.657													10	32					0	0	1	0	0		T	35370418	T	T	35370418	2	4	214	1	0	0	0	0	0	0	0	1	4567	755	27	1		1	DLGAP3	1	35370418	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	365	35370418	213880203	19	106437											
EIF2C4	192670	broad.mit.edu	37	chr1	36297173	36297173	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcatacatacttgccactcGaggtaagttaaattttcttt	12	15	6	8	1	1	0	0	0	1	0	2	1	1	0	1	1	4	3	1	1	5	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:36297173G>A	uc001bzj.1	+	8	1184	c.994G>A	c.(994-996)GAG>AAG	p.E332K		NM_017629	NP_060099	Q9HCK5	AGO4_HUMAN	eukaryotic translation initiation factor 2C, 4	332	PAZ.				mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CTTGCCACTCGAGGTAAGTTA	0.343													23	67					0	0	1	0	0		A	36297173	A	A	36297173	3	1	214	1	0	0	0	0	1	0	0	0	5014	1059	37	1	1024	1	EIF2C4	1	36297173	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	926755	36297173	212953448	20	106438											
ZC3H12A	80149	broad.mit.edu	37	chr1	37947263	37947263	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgttcacaccatcacgacgCgtgggtggcaagcgggtggt	7	8	16	10	4	2	0	2	0	0	0	2	1	2	0	1	4	1	2	1	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:37947263C>T	uc001cbb.3	+	4	795	c.645C>T	c.(643-645)CGC>CGT	p.R215R	ZC3H12A_uc001cbc.1_5'UTR	NM_025079	NP_079355	Q5D1E8	ZC12A_HUMAN	zinc finger CCCH-type containing 12A	215					angiogenesis|apoptosis|cell differentiation	cytoplasm|nucleus|plasma membrane	endonuclease activity|metal ion binding			ovary(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CATCACGACGCGTGGGTGGCA	0.587													10	120					0	0	1	0	0		T	37947263	T	T	37947263	2	4	214	1	0	0	0	0	0	0	0	1	17586	755	27	1		1	ZC3H12A	1	37947263	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1650090	37947263	211303358	21	106439											
MACF1	23499	broad.mit.edu	37	chr1	39798016	39798016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcttgccaataacttaaaatCgatttgtatacctgatgtga	13	15	6	7	1	1	2	0	2	1	0	2	3	1	2	2	0	3	1	2	0	6	6	rs150440643	by1000genomes	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:39798016C>T	uc010oiu.1	+	1	1207	c.1076C>T	c.(1075-1077)TCG>TTG	p.S359L	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc001cdb.1_Intron	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	1924					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AACTTAAAATCGATTTGTATA	0.428													10	68					0	0	1	0	0		T	39798016	T	T	39798016	3	4	214	1	0	0	0	0	1	0	0	0	9162	893	31	1	5847	1	MACF1	1	39798016	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1850753	39798016	209452605	22	106440											
PABPC4	8761	broad.mit.edu	37	chr1	40030189	40030189	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacgaggcccagactggcgTatagcacttggcattccttg	8	9	13	11	2	0	1	0	0	0	1	1	3	1	2	2	4	1	3	2	4	2	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:40030189T>C	uc010oiv.1	-	10	2257	c.1359A>G	c.(1357-1359)ATA>ATG	p.I453M	PABPC4_uc001cdl.2_Missense_Mutation_p.I453M|PABPC4_uc001cdm.2_Missense_Mutation_p.I453M	NM_003819	NP_003810	Q13310	PABP4_HUMAN	poly A binding protein, cytoplasmic 4 isoform 2	453					blood coagulation|RNA catabolic process|RNA processing|translation	cytoplasm|ribonucleoprotein complex	nucleotide binding|poly(A) RNA binding|poly(U) RNA binding|protein binding				0	Lung NSC(20;1.55e-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;2.89e-18)|Epithelial(16;6.17e-17)|all cancers(16;1.18e-15)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CAGACTGGCGTATAGCACTTG	0.547													9	94					0	0	1	0	0		C	40030189	C	C	40030189	3	2	214	1	0	0	0	0	1	0	0	0	11385	1628	57	3	647	3	PABPC4	1	40030189	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	232173	40030189	209220432	23	106441											
FAF1	11124	broad.mit.edu	37	chr1	50956312	50956312	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gctccaaacgaaactgttctGccatctctctctcgtgagct	8	12	7	14	2	3	1	0	1	3	0	7	2	4	1	2	0	4	3	2	0	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:50956312G>A	uc009vyx.1	-	18	1664	c.1601C>T	c.(1600-1602)GCA>GTA	p.A534V	FAF1_uc009vyw.1_RNA|FAF1_uc001cse.1_Missense_Mutation_p.A534V|FAF1_uc010onc.1_Missense_Mutation_p.A292V	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	FAS-associated factor 1	534					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity			ovary(1)|pancreas(1)	2				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		AAACTGTTCTGCCATCTCTCT	0.348													26	132					0	0	1	0	0		A	50956312	A	A	50956312	3	1	214	1	0	0	0	0	1	0	0	0	5380	1319	46	2	363	2	FAF1	1	50956312	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	10926123	50956312	198294309	24	106442											
CDKN2C	1031	broad.mit.edu	37	chr1	51439924	51439924	+	Silent	SNP	A	G	G	1	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	caggcaaacggggctgggggAgccacaaatcttcaataaac	14	5	12	10	1	2	0	1	0	1	0	2	1	2	1	1	5	3	2	1	5	5	2	rs66920231		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:51439924A>G	uc001csf.2	+	3	1705	c.489A>G	c.(487-489)GGA>GGG	p.G163G	CDKN2C_uc001csg.2_Silent_p.G163G	NM_001262	NP_001253	P42773	CDN2C_HUMAN	cyclin-dependent kinase inhibitor 2C	163					cell cycle arrest|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|regulation of cyclin-dependent protein kinase activity	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding	p.0?(4)|p.?(1)		central_nervous_system(7)|haematopoietic_and_lymphoid_tissue(5)|ovary(2)|thyroid(1)|lung(1)|kidney(1)	17				GBM - Glioblastoma multiforme(3;3.61e-13)|all cancers(3;0.00151)		GGGCTGGGGGAGCCACAAATC	0.507			D		glioma|MM				Multiple_Endocrine_Neoplasia_type_1				5	52					0	0	1	0	0		G	51439924	G	G	51439924	2	3	214	1	0	0	0	0	0	0	0	1	3168	291	11	3		3	CDKN2C	1	51439924	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	483612	51439924	197810697	25	106443											
DMRTB1	63948	broad.mit.edu	37	chr1	53930431	53930431	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cccgccaggctacctctctgCgctccacttcctccccccgc	3	8	6	24	3	1	0	0	0	1	0	5	0	4	0	8	1	2	2	8	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:53930431C>T	uc001cvq.1	+	3	927	c.872C>T	c.(871-873)GCG>GTG	p.A291V		NM_033067	NP_149056	Q96MA1	DMRTB_HUMAN	DMRT-like family B with proline-rich C-terminal,	291	Pro-rich.				sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)|skin(1)	2						TACCTCTCTGCGCTCCACTTC	0.517													12	56					0	0	1	0	0		T	53930431	T	T	53930431	3	4	214	1	0	0	0	0	1	0	0	0	4596	768	27	1	882	1	DMRTB1	1	53930431	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2490507	53930431	195320190	26	106444											
CYP2J2	1573	broad.mit.edu	37	chr1	60370559	60370559	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ttaccttgggcaggtggtacCcagccaaagtggtatcaact	10	10	11	10	0	1	0	1	0	0	0	1	0	1	0	3	4	4	3	3	4	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:60370559C>A	uc001czq.2	-	7	1180	c.1175G>T	c.(1174-1176)GGG>GTG	p.G392V		NM_000775	NP_000766	P51589	CP2J2_HUMAN	cytochrome P450, family 2, subfamily J,	392					epoxygenase P450 pathway|linoleic acid metabolic process|regulation of heart contraction|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	arachidonic acid 11,12-epoxygenase activity|arachidonic acid 14,15-epoxygenase activity|aromatase activity|electron carrier activity|heme binding|linoleic acid epoxygenase activity			ovary(1)	1	all_cancers(7;0.000396)					CAGGTGGTACCCAGCCAAAGT	0.473													10	40					0.00621372	0.00638487	1	1	0		A	60370559	A	A	60370559	3	1	214	1	0	0	0	0	1	0	0	0	4175	623	22	5	345	5	CYP2J2	1	60370559	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	6440128	60370559	188880062	27	106445											
RAVER2	55225	broad.mit.edu	37	chr1	65280486	65280486	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acaacacgcattggaaaagtGcattgcttattctccacctt	12	12	6	11	1	1	0	0	0	1	0	2	1	1	1	2	1	3	3	2	1	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:65280486G>A	uc001dbs.1	+	11	1931	c.1853G>A	c.(1852-1854)TGC>TAC	p.C618Y	RAVER2_uc001dbt.1_Missense_Mutation_p.C510Y|RAVER2_uc010opb.1_Missense_Mutation_p.C343Y	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2	631						cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						TTGGAAAAGTGCATTGCTTAT	0.403													7	53					0	0	1	0	0		A	65280486	A	A	65280486	3	1	214	1	0	0	0	0	1	0	0	0	13120	1319	46	2	1895	2	RAVER2	1	65280486	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4909927	65280486	183970135	28	106446											
JAK1	3716	broad.mit.edu	37	chr1	65307255	65307255	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttacatgatggtgtcactggCctgcaccggctttcatagaa	9	12	10	10	1	2	2	2	1	0	1	2	2	2	2	2	3	2	2	2	3	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:65307255C>T	uc001dbu.1	-	18	2682	c.2433G>A	c.(2431-2433)AGG>AGA	p.R811R	JAK1_uc009wam.1_Silent_p.R799R|JAK1_uc009wal.1_5'UTR	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	811	Protein kinase 1.				interferon-gamma-mediated signaling pathway|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|response to antibiotic|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|endomembrane system|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			haematopoietic_and_lymphoid_tissue(34)|prostate(7)|soft_tissue(6)|lung(4)|breast(3)|central_nervous_system(2)|liver(2)|large_intestine(1)|stomach(1)|ovary(1)	61				BRCA - Breast invasive adenocarcinoma(111;0.0485)		GTGTCACTGGCCTGCACCGGC	0.512			Mis		ALL								14	75					0	0	1	0	0		T	65307255	T	T	65307255	2	4	214	1	0	0	0	0	0	0	0	1	7953	738	26	2		2	JAK1	1	65307255	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	26769	65307255	183943366	29	106447											
C1orf173	127254	broad.mit.edu	37	chr1	75037669	75037669	+	Missense_Mutation	SNP	T	A	A	0	1	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	cgtgatctttggctgctagcTcctctgcctggcctgtggct	2	14	12	13	1	2	1	0	1	2	0	3	1	3	1	3	3	3	4	3	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:75037669T>A	uc001dgg.2	-	14	3944	c.3725A>T	c.(3724-3726)GAG>GTG	p.E1242V		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1242	Glu-rich.									ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						GGCTGCTAGCTCCTCTGCCTG	0.622													8	74					0	0	1	0	0		A	75037669	A	A	75037669	3	1	214	1	0	0	0	0	1	0	0	0	2017	1551	54	5	871	5	C1orf173	1	75037669	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	9730414	75037669	174212952	30	106448											
C1orf173	127254	broad.mit.edu	37	chr1	75097551	75097551	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgttaatgtttggaagttgaTatgaattcattctctgtgaa	11	18	9	3	0	2	3	1	3	1	0	3	4	2	4	0	1	0	3	0	1	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:75097551T>G	uc001dgg.2	-	7	884	c.665A>C	c.(664-666)TAT>TCT	p.Y222S	C1orf173_uc001dgi.3_Missense_Mutation_p.Y16S	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	222										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TGGAAGTTGATATGAATTCAT	0.403													14	86					0	0	1	0	0		G	75097551	G	G	75097551	3	3	214	1	0	0	0	0	1	0	0	0	2017	1406	49	5	3959	5	C1orf173	1	75097551	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	59882	75097551	174153070	31	106449											
FUBP1	8880	broad.mit.edu	37	chr1	78429831	78429831	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttatttgtgctatcctttcGggtgttgtcccatcatcttc	4	19	8	10	1	2	0	1	0	1	0	6	0	4	0	2	1	1	3	2	1	2	6	rs112997035		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:78429831G>A	uc001dii.2	-	12	1046	c.957C>T	c.(955-957)CCC>CCT	p.P319P	FUBP1_uc001dih.3_RNA|FUBP1_uc010orm.1_Silent_p.P340P	NM_003902	NP_003893	Q96AE4	FUBP1_HUMAN	far upstream element-binding protein	319	KH 3.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(2)|lung(1)	3						CTATCCTTTCGGGTGTTGTCC	0.353													18	154					0	0	1	0	0		A	78429831	A	A	78429831	2	1	214	1	0	0	0	0	0	0	0	1	6106	1103	39	1		1	FUBP1	1	78429831	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3332280	78429831	170820790	32	106450											
LRRC8B	23507	broad.mit.edu	37	chr1	90049599	90049599	+	Missense_Mutation	SNP	A	G	G	1	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	ctgcagtctcacagctggtcAacctcaaggagcttcgtgtg	8	10	11	12	1	3	0	3	0	1	0	5	1	3	1	1	2	4	3	1	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:90049599A>G	uc001dni.2	+	7	1897	c.1390A>G	c.(1390-1392)AAC>GAC	p.N464D	LRRC8B_uc001dnh.2_Missense_Mutation_p.N464D|LRRC8B_uc001dnj.2_Missense_Mutation_p.N464D	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	464	LRR 1.					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		ACAGCTGGTCAACCTCAAGGA	0.483													15	57					0	0	1	0	0		G	90049599	G	G	90049599	3	3	214	1	0	0	0	0	1	0	0	0	9040	130	5	3	1392	3	LRRC8B	1	90049599	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	11619768	90049599	159201022	33	106451											
HFM1	164045	broad.mit.edu	37	chr1	91784745	91784745	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcaaacttcttttcttgaGcagctacaaaatctgacaac	14	11	5	11	0	3	2	0	2	3	0	3	2	3	2	0	0	6	3	0	0	5	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:91784745G>A	uc001doa.3	-	25	2802	c.2702C>T	c.(2701-2703)GCT>GTT	p.A901V	HFM1_uc009wdb.2_RNA|HFM1_uc010osu.1_Missense_Mutation_p.A580V|HFM1_uc001dob.3_Intron|HFM1_uc010osv.1_Missense_Mutation_p.A585V	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	901	SEC63.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0		all_lung(203;0.00961)|Lung NSC(277;0.0351)		all cancers(265;0.000481)|Epithelial(280;0.00863)|OV - Ovarian serous cystadenocarcinoma(397;0.126)|KIRC - Kidney renal clear cell carcinoma(1967;0.171)		CTTTTCTTGAGCAGCTACAAA	0.299													3	34					0	0	1	0	0		A	91784745	A	A	91784745	3	1	214	1	0	0	0	0	1	0	0	0	7099	971	34	2	1665	2	HFM1	1	91784745	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1735146	91784745	157465876	34	106452											
AMY2B	280	broad.mit.edu	37	chr1	104117936	104117936	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aacgaggacatggggctggaGgagcctctattcttaccttc	9	10	12	10	1	2	0	0	0	2	0	3	4	2	3	2	5	3	1	2	5	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:104117936G>T	uc001duq.2	+	8	1586	c.970G>T	c.(970-972)GGA>TGA	p.G324*	AMY2B_uc010ouo.1_RNA|LOC648740_uc001dur.2_Nonsense_Mutation_p.G324*|AMY2B_uc001dus.1_5'Flank	NM_020978	NP_066188	P19961	AMY2B_HUMAN	amylase, pancreatic, alpha-2B precursor	324					carbohydrate metabolic process|digestion	extracellular region	alpha-amylase activity|metal ion binding				0		all_epithelial(167;3.05e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000451)		Colorectal(144;0.0669)|all cancers(265;0.083)|Epithelial(280;0.094)|Lung(183;0.112)		TGGGGCTGGAGGAGCCTCTAT	0.408													50	256					2.01807e-28	2.28732e-28	1	1	0		T	104117936	T	T	104117936	4	4	214	1	0	0	0	0	0	1	0	0	595	1001	35	5	992	5	AMY2B	1	104117936	Nonsense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	12333191	104117936	145132685	35	106453											
GPR61	83873	broad.mit.edu	37	chr1	110086505	110086505	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggggagggaaagcagcagtGgttctcctggctgtgggggg	6	7	22	6	0	1	0	0	0	1	0	2	2	1	2	1	8	2	4	1	8	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:110086505G>T	uc001dxy.2	+	2	1544	c.861G>T	c.(859-861)GTG>GTT	p.V287V		NM_031936	NP_114142	Q9BZJ8	GPR61_HUMAN	G protein-coupled receptor 61	287	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(2)	2		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Lung(183;0.0426)|Colorectal(144;0.11)|Epithelial(280;0.128)|all cancers(265;0.132)|LUSC - Lung squamous cell carcinoma(189;0.228)		AAGCAGCAGTGGTTCTCCTGG	0.612													14	75					1.49906e-05	1.59775e-05	1	1	0		T	110086505	T	T	110086505	2	4	214	1	0	0	0	0	0	0	0	1	6717	1335	47	5		5	GPR61	1	110086505	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	5968569	110086505	139164116	36	106454											
LRIG2	9860	broad.mit.edu	37	chr1	113655265	113655265	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aaagacgcatgcacgtcatgCccgaggatgacgtcttcttt	10	10	10	11	4	3	2	1	1	2	1	3	4	3	3	1	1	2	2	1	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:113655265C>A	uc001edf.1	+	14	2161	c.1963C>A	c.(1963-1965)CCC>ACC	p.P655T	LRIG2_uc009wgn.1_Missense_Mutation_p.P552T	NM_014813	NP_055628	O94898	LRIG2_HUMAN	leucine-rich repeats and immunoglobulin-like	655	Ig-like C2-type 2.|Extracellular (Potential).					cytoplasm|integral to membrane|plasma membrane				ovary(3)	3	Lung SC(450;0.246)	all_cancers(81;1.56e-05)|all_epithelial(167;2.62e-05)|all_lung(203;0.000665)|Lung NSC(69;0.000986)		Lung(183;0.0279)|Colorectal(144;0.0885)|COAD - Colon adenocarcinoma(174;0.134)|all cancers(265;0.139)|Epithelial(280;0.143)|LUSC - Lung squamous cell carcinoma(189;0.15)		GCACGTCATGCCCGAGGATGA	0.488													6	91					0.00198382	0.00206567	1	1	0		A	113655265	A	A	113655265	3	1	214	1	0	0	0	0	1	0	0	0	8963	739	26	5	2017	5	LRIG2	1	113655265	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3568760	113655265	135595356	37	106455											
VTCN1	79679	broad.mit.edu	37	chr1	117699342	117699342	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gatcagcaaacactgctgtcCggcctctgaacatttcatcc	10	10	7	14	1	3	1	2	1	1	0	5	2	5	1	3	1	4	2	3	1	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:117699342C>T	uc001ehb.2	-	3	371	c.299G>A	c.(298-300)CGG>CAG	p.R100Q	VTCN1_uc001ehc.2_Missense_Mutation_p.R5Q|VTCN1_uc009whf.1_Intron	NM_024626	NP_078902	Q7Z7D3	VTCN1_HUMAN	V-set domain containing T cell activation	100	Ig-like V-type 1.|Extracellular (Potential).					integral to membrane|plasma membrane					0	Lung SC(450;0.225)	all_cancers(81;6.05e-06)|all_epithelial(167;5.59e-07)|all_lung(203;2.85e-06)|Lung NSC(69;2e-05)		Lung(183;0.0664)|LUSC - Lung squamous cell carcinoma(189;0.214)|Colorectal(144;0.23)		CACTGCTGTCCGGCCTCTGAA	0.463													15	55					0	0	1	0	0		T	117699342	T	T	117699342	3	4	214	1	0	0	0	0	1	0	0	0	17260	652	23	1	561	1	VTCN1	1	117699342	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4044077	117699342	131551279	38	106456											
LOC200030	200030	broad.mit.edu	37	chr1	148341973	148341973	+	Silent	SNP	A	G	G	1	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	cattcctccagtgagtcctcAgggactttgctctcttcagt	6	14	8	13	0	3	1	2	1	1	0	7	2	6	2	3	1	1	1	3	1	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:148341973A>G	uc001eqf.2	-	5	635	c.600T>C	c.(598-600)CCT>CCC	p.P200P	LOC200030_uc001eqe.2_Intron|LOC200030_uc001eqg.2_Intron|NBPF14_uc009wkf.1_RNA|uc001erd.3_Silent_p.P200P|uc001erc.3_RNA|uc010paj.1_Intron|uc010pau.1_5'UTR|uc010pav.1_Silent_p.P200P|uc010paw.1_Silent_p.P125P	NM_017940	NP_060410	Q86T75	NBPFB_HUMAN	hypothetical protein LOC55672	200	NBPF 1.					cytoplasm					0						GTGAGTCCTCAGGGACTTTGC	0.507													18	486					0	0	1	0	0		G	148341973	G	G	148341973	2	3	214	1	0	0	0	0	0	0	0	1	8889	203	7	3		3	LOC200030	1	148341973	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	30642631	148341973	100908648	39	106457											
HIST2H2BF	440689	broad.mit.edu	37	chr1	149399121	149399121	+	RNA	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtccttcttctgcactttcGtaacagcctttttggagccc	5	15	7	14	2	2	0	0	0	2	0	4	1	3	1	3	1	4	2	3	1	1	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:149399121G>C	uc010pbi.1	-	1		c.109C>G						Q5QNW6	H2B2F_HUMAN	Homo sapiens histone cluster 2, H3, pseudogene 2, mRNA (cDNA clone IMAGE:5190019).						nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)					CTGCACTTTCGTAACAGCCTT	0.537													4	100					0	0	1	0	0		C	149399121	C	C	149399121	1	2	214	0	1	0	0	0	0	0	0	0	7196	1145	40	5		5	HIST2H2BF	1	149399121	RNA	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1057148	149399121	99851500	40	106458											
C1orf51	148523	broad.mit.edu	37	chr1	150258895	150258895	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctctcctgcatctcctatGgaaaagatggaccagacaca	12	9	7	13	0	2	2	0	0	2	2	5	4	3	4	4	2	1	1	4	2	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:150258895G>A	uc001euh.2	+	6	823	c.687G>A	c.(685-687)ATG>ATA	p.M229I	C1orf51_uc001eui.2_Missense_Mutation_p.M141I|C1orf51_uc001euj.2_Missense_Mutation_p.M229I	NM_144697	NP_653298	Q8N365	CA051_HUMAN	hypothetical protein LOC148523	229											0	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)			CATCTCCTATGGAAAAGATGG	0.468													18	128					0	0	1	0	0		A	150258895	A	A	150258895	3	1	214	1	0	0	0	0	1	0	0	0	2046	1348	47	4	705	4	C1orf51	1	150258895	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	859774	150258895	98991726	41	106459											
PRPF3	9129	broad.mit.edu	37	chr1	150300910	150300910	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccatcagagagccctggcatGctgactaagctccaggttag	10	8	11	12	0	1	2	1	1	0	1	2	3	2	2	3	2	3	4	3	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:150300910G>T	uc001eum.3	+	4	570	c.408G>T	c.(406-408)ATG>ATT	p.M136I	PRPF3_uc009wlo.2_Missense_Mutation_p.M136I|PRPF3_uc009wlp.2_RNA|PRPF3_uc010pca.1_Missense_Mutation_p.M95I|PRPF3_uc010pcb.1_Intron	NM_004698	NP_004689	O43395	PRPF3_HUMAN	PRP3 pre-mRNA processing factor 3 homolog	136					nuclear mRNA splicing, via spliceosome	Cajal body|cytoplasm|nuclear speck|spliceosomal complex	protein binding			ovary(1)	1	Lung NSC(24;5.57e-29)|Breast(34;0.000844)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Colorectal(459;0.171)		LUSC - Lung squamous cell carcinoma(543;0.171)	Colorectal(1306;0.0149)		GCCCTGGCATGCTGACTAAGC	0.473													20	172					3.62473e-10	4.00776e-10	1	1	0		T	150300910	T	T	150300910	3	4	214	1	0	0	0	0	1	0	0	0	12587	1319	46	5	418	5	PRPF3	1	150300910	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	42015	150300910	98949711	42	106460											
LINGO4	339398	broad.mit.edu	37	chr1	151774638	151774638	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccagggtgagggtgctcaaCttggctagccctgcaaaggc	8	8	14	11	0	1	1	1	1	0	0	2	1	2	1	2	4	4	3	2	4	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:151774638C>T	uc001ezf.1	-	2	733	c.543G>A	c.(541-543)AAG>AAA	p.K181K		NM_001004432	NP_001004432	Q6UY18	LIGO4_HUMAN	leucine rich repeat and Ig domain containing 4	181	Extracellular (Potential).|LRR 6.					integral to membrane				large_intestine(1)	1	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			GGGTGCTCAACTTGGCTAGCC	0.612													12	74					0	0	1	0	0		T	151774638	T	T	151774638	2	4	214	1	0	0	0	0	0	0	0	1	8834	564	20	4		4	LINGO4	1	151774638	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1473728	151774638	97475983	43	106461											
FLG	2312	broad.mit.edu	37	chr1	152279059	152279059	+	Missense_Mutation	SNP	T	G	G	0	1	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	tggagctgtcttgtgcctgcTcatggcgggatccttgtctt	3	15	13	10	1	3	0	1	0	2	0	4	2	4	2	2	3	3	2	2	3	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:152279059T>G	uc001ezu.1	-	3	8339	c.8303A>C	c.(8302-8304)GAG>GCG	p.E2768A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2768	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTGTGCCTGCTCATGGCGGGA	0.587									Ichthyosis				18	620					0	0	1	0	0		G	152279059	G	G	152279059	3	3	214	1	0	0	0	0	1	0	0	0	5936	1551	54	5	3886	5	FLG	1	152279059	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	504421	152279059	96971562	44	106462											
FLG	2312	broad.mit.edu	37	chr1	152279699	152279699	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcttgtcctgggcccctCtgattgtccctggcccacct	2	12	9	18	0	1	1	0	1	1	0	3	1	3	1	7	2	1	1	7	2	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:152279699C>A	uc001ezu.1	-	3	7699	c.7663G>T	c.(7663-7665)GAG>TAG	p.E2555*		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2555	Ser-rich.|Filaggrin 15.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGGCCCCTCTGATTGTCCC	0.597									Ichthyosis				49	375					2.43468e-25	2.75588e-25	1	1	0		A	152279699	A	A	152279699	4	1	214	1	0	0	0	0	0	1	0	0	5936	922	32	5	4526	5	FLG	1	152279699	Nonsense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	640	152279699	96970922	45	106463											
LCE2C	353140	broad.mit.edu	37	chr1	152648653	152648653	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgtggtcccagctctgggagCtgctgtggtcccagctctgg	3	11	15	12	0	2	0	0	0	2	0	4	1	4	1	2	4	4	4	2	4	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:152648653C>T	uc001fah.2	+	2	217	c.162C>T	c.(160-162)AGC>AGT	p.S54S		NM_178429	NP_848516	Q5TA81	LCE2C_HUMAN	late cornified envelope 2C	54	Cys-rich.				keratinization						0	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTCTGGGAGCTGCTGTGGTC	0.562													22	172					0	0	1	0	0		T	152648653	T	T	152648653	2	4	214	1	0	0	0	0	0	0	0	1	8683	796	28	2		2	LCE2C	1	152648653	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	368954	152648653	96601968	46	106464											
C1orf77	26097	broad.mit.edu	37	chr1	153609082	153609082	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagatggctgcacagtcagcGccgaaagttgtgctaaaaag	14	7	12	8	2	1	1	1	0	0	1	1	2	1	1	1	1	3	4	1	1	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:153609082G>A	uc001fcm.1	+	2	330	c.18G>A	c.(16-18)GCG>GCA	p.A6A	C1orf77_uc001fcn.1_Silent_p.A6A|C1orf77_uc001fco.1_5'UTR|S100A13_uc001fcj.2_5'Flank|C1orf77_uc009woi.1_Silent_p.A6A|C1orf77_uc009woj.1_Silent_p.A6A	NM_015607	NP_056422	Q9Y3Y2	CHTOP_HUMAN	small protein rich in arginine and glycine	6					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	protein binding|RNA binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)			CACAGTCAGCGCCGAAAGTTG	0.423													6	56					0	0	1	0	0		A	153609082	A	A	153609082	2	1	214	1	0	0	0	0	0	0	0	1	2062	1074	38	1		1	C1orf77	1	153609082	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	960429	153609082	95641539	47	106465											
GATAD2B	57459	broad.mit.edu	37	chr1	153800775	153800775	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcatctgctgggtccaagcTccgcttcaacagattcaagc	9	10	8	14	1	4	1	3	0	1	1	6	1	6	1	2	1	4	3	2	1	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:153800775T>A	uc001fdb.3	-	2	293	c.49A>T	c.(49-51)AGC>TGC	p.S17C		NM_020699	NP_065750	Q8WXI9	P66B_HUMAN	GATA zinc finger domain containing 2B	17						nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	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)			GGGTCCAAGCTCCGCTTCAAC	0.443													20	143					0	0	1	0	0		A	153800775	A	A	153800775	3	1	214	1	0	0	0	0	1	0	0	0	6276	1551	54	5	1772	5	GATAD2B	1	153800775	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	191693	153800775	95449846	48	106466											
DENND4B	9909	broad.mit.edu	37	chr1	153914362	153914362	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacgcttccaagggtaggcgGtgggggcctgagacggagta	8	6	18	9	3	0	1	0	1	0	1	1	3	1	2	2	6	0	3	2	6	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:153914362G>A	uc001fdd.1	-	6	1439	c.1038C>T	c.(1036-1038)CAC>CAT	p.H346H		NM_014856	NP_055671	O75064	DEN4B_HUMAN	DENN/MADD domain containing 4B	346	DENN.									ovary(1)	1	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)			AGGGTAGGCGGTGGGGGCCTG	0.632													5	92					0	0	1	0	0		A	153914362	A	A	153914362	2	1	214	1	0	0	0	0	0	0	0	1	4440	1252	44	4		4	DENND4B	1	153914362	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	113587	153914362	95336259	49	106467											
THBS3	7059	broad.mit.edu	37	chr1	155171231	155171231	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcaggacactgcaccattgcGttcaaagagacagtgagcat	13	7	11	10	1	1	2	1	1	0	1	1	4	1	3	1	1	3	4	1	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:155171231G>A	uc001fix.2	-	11	1329	c.1306C>T	c.(1306-1308)CGC>TGC	p.R436C	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.R427C|THBS3_uc001fiz.2_Missense_Mutation_p.R436C|THBS3_uc001fiy.2_Translation_Start_Site|THBS3_uc010pfu.1_Missense_Mutation_p.R316C|THBS3_uc010pfv.1_RNA|THBS3_uc001fja.2_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	436	EGF-like 4.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			GCACCATTGCGTTCAAAGAGA	0.617													20	110					0	0	1	0	0		A	155171231	A	A	155171231	3	1	214	1	0	0	0	0	1	0	0	0	15880	1145	40	1	1616	1	THBS3	1	155171231	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1256869	155171231	94079390	50	106468											
CLK2	1196	broad.mit.edu	37	chr1	155233108	155233108	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agggcttcacccaaggtcagCcgcttagctggttcatactc	8	10	10	13	1	3	0	3	0	0	0	4	0	3	0	2	3	3	4	2	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:155233108C>T	uc001fjy.2	-	13	1691	c.1401G>A	c.(1399-1401)CGG>CGA	p.R467R	RAG1AP1_uc010pey.1_Intron|SCAMP3_uc001fjr.2_5'Flank|SCAMP3_uc001fjs.2_5'Flank|SCAMP3_uc001fju.2_5'Flank|SCAMP3_uc001fjv.2_5'Flank|SCAMP3_uc001fjt.2_5'Flank|CLK2_uc001fjw.2_Silent_p.R466R|CLK2_uc001fjx.2_Silent_p.R239R|CLK2_uc009wqm.2_Silent_p.R467R	NM_003993	NP_003984	P49760	CLK2_HUMAN	CDC-like kinase 2	467	Protein kinase.					nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		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)			CCAAGGTCAGCCGCTTAGCTG	0.572								Other_conserved_DNA_damage_response_genes					6	76					0	0	1	0	0		T	155233108	T	T	155233108	2	4	214	1	0	0	0	0	0	0	0	1	3540	726	26	2		2	CLK2	1	155233108	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	61877	155233108	94017513	51	106469											
ASH1L	55870	broad.mit.edu	37	chr1	155317563	155317563	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcagagactgaggtctcacTgctgtctgcctcacttgctg	6	13	10	12	0	4	2	3	1	2	1	5	3	4	2	1	1	3	2	1	1	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:155317563T>C	uc009wqq.2	-	20	8182	c.7702A>G	c.(7702-7704)AGT>GGT	p.S2568G	RAG1AP1_uc010pey.1_Intron|ASH1L_uc001fkt.2_Missense_Mutation_p.S2563G|MIR555_hsa-mir-555|MI0003561_5'Flank	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	2568					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			skin(5)|ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	11	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)			GAGGTCTCACTGCTGTCTGCC	0.493													9	238					0	0	1	0	0		C	155317563	C	C	155317563	3	2	214	1	0	0	0	0	1	0	0	0	1042	1580	55	3	1243	3	ASH1L	1	155317563	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	84455	155317563	93933058	52	106470											
C1orf85	112770	broad.mit.edu	37	chr1	156263836	156263836	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acggccggtgcatattcatcGtcgatggagtgctgctcctg	6	11	13	11	4	1	0	1	0	0	0	4	2	2	1	2	3	3	3	2	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:156263836G>A	uc001foh.2	-	4	784	c.771C>T	c.(769-771)GAC>GAT	p.D257D	C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_Intron|C1orf85_uc001foi.2_Silent_p.D257D|C1orf85_uc009wrx.2_Silent_p.D190D|C1orf85_uc001foj.2_Silent_p.D171D	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor	257	Lumenal (Potential).				positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)					CATATTCATCGTCGATGGAGT	0.572													23	157					0	0	1	0	0		A	156263836	A	A	156263836	2	1	214	1	0	0	0	0	0	0	0	1	2065	1136	40	1		1	C1orf85	1	156263836	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	946273	156263836	92986785	53	106471											
CD1A	909	broad.mit.edu	37	chr1	158224875	158224875	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atctgttcttttgtcgcaggGctcaaggagcctctctcctt	5	15	9	12	1	4	0	1	0	3	0	7	1	5	1	2	2	1	3	2	2	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:158224875G>A	uc001frt.2	+	2	593	c.60G>A	c.(58-60)GGG>GGA	p.G20G		NM_001763	NP_001754	P06126	CD1A_HUMAN	CD1A antigen precursor	20	Extracellular (Potential).				antigen processing and presentation|immune response	endosome membrane|integral to plasma membrane|MHC class I protein complex				pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)				Antithymocyte globulin(DB00098)	TTGTCGCAGGGCTCAAGGAGC	0.478													4	74					0	0	1	0	0		A	158224875	A	A	158224875	2	1	214	1	0	0	0	0	0	0	0	1	2977	1217	42	2		2	CD1A	1	158224875	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1961039	158224875	91025746	54	106472											
OR10K1	391109	broad.mit.edu	37	chr1	158436275	158436275	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgaagaacaatcggccaaacTttctatcctcttagttaaag	14	11	6	10	2	2	1	0	0	2	1	4	2	3	1	2	1	2	1	2	1	8	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:158436275T>A	uc010pij.1	+	1	924	c.924T>A	c.(922-924)ACT>ACA	p.T308T		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TCGGCCAAACTTTCTATCCTC	0.224													7	60					0	0	1	0	0		A	158436275	A	A	158436275	2	1	214	1	0	0	0	0	0	0	0	1	10932	1596	56	5		5	OR10K1	1	158436275	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	211400	158436275	90814346	55	106473											
SPTA1	6708	broad.mit.edu	37	chr1	158592947	158592947	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgatctcgggaagtctctcTtgctggaaactctgcagact	8	12	11	10	1	4	2	0	1	4	1	6	4	4	4	0	2	3	2	0	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:158592947T>C	uc001fst.1	-	43	6145	c.5946A>G	c.(5944-5946)CAA>CAG	p.Q1982Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1982	Spectrin 19.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					GAAGTCTCTCTTGCTGGAAAC	0.493													68	269					0	0	1	0	0		C	158592947	C	C	158592947	2	2	214	1	0	0	0	0	0	0	0	1	15141	1606	56	3		3	SPTA1	1	158592947	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	156672	158592947	90657674	56	106474											
SPTA1	6708	broad.mit.edu	37	chr1	158617367	158617367	+	Missense_Mutation	SNP	A	C	C	1	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	aggtagaatttctgggcctcAtttaggctctccttacgatc	8	14	9	10	1	3	1	1	0	2	1	5	2	3	1	2	3	1	2	2	3	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:158617367A>C	uc001fst.1	-	27	4057	c.3858T>G	c.(3856-3858)AAT>AAG	p.N1286K		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1286	Spectrin 12.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCTGGGCCTCATTTAGGCTCT	0.542													22	100					0	0	1	0	0		C	158617367	C	C	158617367	3	2	214	1	0	0	0	0	1	0	0	0	15141	214	8	5	3505	5	SPTA1	1	158617367	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	24420	158617367	90633254	57	106475											
SPTA1	6708	broad.mit.edu	37	chr1	158627418	158627418	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcgcctagcagctcgagcaCggagagactccatattctgg	9	8	12	12	3	1	1	0	0	1	1	4	4	2	2	2	2	3	3	2	2	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:158627418C>T	uc001fst.1	-	19	2853	c.2654G>A	c.(2653-2655)CGT>CAT	p.R885H		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	885	Spectrin 9.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					AGCTCGAGCACGGAGAGACTC	0.468													19	136					0	0	1	0	0		T	158627418	T	T	158627418	3	4	214	1	0	0	0	0	1	0	0	0	15141	536	19	1	4741	1	SPTA1	1	158627418	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	10051	158627418	90623203	58	106476											
FCRL6	343413	broad.mit.edu	37	chr1	159785385	159785385	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagtgaggtttcatccacGgaggtgaatatgagaagcag	12	8	13	8	1	1	3	1	3	0	1	2	5	2	4	2	3	1	2	2	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:159785385G>A	uc001fud.3	+	10	1281	c.1239G>A	c.(1237-1239)ACG>ACA	p.T413T	FCRL6_uc001fuc.2_3'UTR|FCRL6_uc009wsz.1_3'UTR|FCRL6_uc009wta.2_3'UTR	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	413	Cytoplasmic (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					TTTCATCCACGGAGGTGAATA	0.522													12	70					0	0	1	0	0		A	159785385	A	A	159785385	2	1	214	1	0	0	0	0	0	0	0	1	5813	1103	39	1		1	FCRL6	1	159785385	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1157967	159785385	89465236	59	106477											
SLAMF1	6504	broad.mit.edu	37	chr1	160607221	160607221	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtgacgacaatgtggatgcTtttgttcatgctcttattta	8	18	9	6	1	2	1	1	1	1	0	2	3	2	2	0	1	2	3	0	1	3	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:160607221T>C	uc001fwl.3	-	2	521	c.175A>G	c.(175-177)AGC>GGC	p.S59G	SLAMF1_uc010pjk.1_RNA|SLAMF1_uc010pjl.1_RNA|SLAMF1_uc010pjm.1_RNA|SLAMF1_uc001fwm.2_Missense_Mutation_p.S59G	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	59	Extracellular (Potential).				interspecies interaction between organisms|lymphocyte activation|positive regulation of cell proliferation	integral to membrane	antigen binding|transmembrane receptor activity			ovary(1)|breast(1)	2	all_cancers(52;4.94e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			ATGTGGATGCTTTTGTTCATG	0.473													4	58					0	0	1	0	0		C	160607221	C	C	160607221	3	2	214	1	0	0	0	0	1	0	0	0	14392	1609	56	3	856	3	SLAMF1	1	160607221	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	821836	160607221	88643400	60	106478											
ADAMTS4	9507	broad.mit.edu	37	chr1	161163482	161163482	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gagcggaagcgggtacggcgGccctcacagtacttgccacc	8	5	14	14	4	1	0	1	0	0	0	1	2	1	1	3	4	5	2	3	4	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:161163482G>A	uc001fyt.3	-	6	2111	c.1683C>T	c.(1681-1683)GGC>GGT	p.G561G		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	561	TSP type-1.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GGGTACGGCGGCCCTCACAGT	0.647													11	138					0	0	1	0	0		A	161163482	A	A	161163482	2	1	214	1	0	0	0	0	0	0	0	1	268	1190	42	2		2	ADAMTS4	1	161163482	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	556261	161163482	88087139	61	106479											
DDR2	4921	broad.mit.edu	37	chr1	162724598	162724598	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtacaagatcaattacagtCgggatggcactcgctggatc	11	10	11	9	2	1	1	1	0	0	1	4	3	1	3	0	3	2	3	0	3	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:162724598C>T	uc001gcf.2	+	6	835	c.370C>T	c.(370-372)CGG>TGG	p.R124W	DDR2_uc001gcg.2_Missense_Mutation_p.R124W	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	124	Extracellular (Potential).|F5/8 type C.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			CAATTACAGTCGGGATGGCAC	0.522													15	55					0	0	1	0	0		T	162724598	T	T	162724598	3	4	214	1	0	0	0	0	1	0	0	0	4340	875	31	1	380	1	DDR2	1	162724598	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1561116	162724598	86526023	62	106480											
SCYL3	57147	broad.mit.edu	37	chr1	169831834	169831834	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgagacagcagcaccatccGcacatgctcttcatgaactt	11	9	8	13	1	2	2	1	2	1	1	3	3	3	2	2	0	4	4	2	0	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:169831834G>A	uc001ggs.2	-	10	1258	c.1060C>T	c.(1060-1062)CGG>TGG	p.R354W	SCYL3_uc010plw.1_5'UTR|SCYL3_uc001ggt.2_Missense_Mutation_p.R354W|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	354	HEAT 3.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGCACCATCCGCACATGCTCT	0.547													19	193					0	0	1	0	0		A	169831834	A	A	169831834	3	1	214	1	0	0	0	0	1	0	0	0	13974	1086	38	1	1188	1	SCYL3	1	169831834	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	7107236	169831834	79418787	63	106481											
TNN	63923	broad.mit.edu	37	chr1	175087876	175087876	+	Missense_Mutation	SNP	A	G	G	1	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	gcactgtcctgacgggcctgAggccgggcatggagtacacg	7	6	16	12	3	0	2	0	2	0	0	1	3	1	3	3	4	1	3	3	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:175087876A>G	uc001gkl.1	+	11	2679	c.2566A>G	c.(2566-2568)AGG>GGG	p.R856G		NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	856	Fibronectin type-III 7.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		GACGGGCCTGAGGCCGGGCAT	0.592													7	53					0	0	1	0	0		G	175087876	G	G	175087876	3	3	214	1	0	0	0	0	1	0	0	0	16348	295	11	3	2604	3	TNN	1	175087876	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5256042	175087876	74162745	64	106482											
XPR1	9213	broad.mit.edu	37	chr1	180832973	180832973	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgataagaatgctggagagaAcactttcctccgggaagaga	14	7	12	8	2	0	3	0	0	0	3	2	8	2	5	2	2	2	1	2	2	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:180832973A>G	uc001goi.2	+	12	1823	c.1631A>G	c.(1630-1632)AAC>AGC	p.N544S	XPR1_uc009wxn.2_Missense_Mutation_p.N479S	NM_004736	NP_004727	Q9UBH6	XPR1_HUMAN	xenotropic and polytropic retrovirus receptor	544	EXS.|Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity				0						GCTGGAGAGAACACTTTCCTC	0.398													24	98					0	0	1	0	0		G	180832973	G	G	180832973	3	3	214	1	0	0	0	0	1	0	0	0	17477	43	2	3	1677	3	XPR1	1	180832973	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5745097	180832973	68417648	65	106483											
HMCN1	83872	broad.mit.edu	37	chr1	186045737	186045737	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccctctgacctcaagtgataAagtattgattttgccaggta	11	13	8	9	0	2	3	1	3	1	0	2	3	2	3	3	1	1	2	3	1	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:186045737A>G	uc001grq.1	+	54	8697	c.8468A>G	c.(8467-8469)AAA>AGA	p.K2823R		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2823	Ig-like C2-type 26.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						TCAAGTGATAAAGTATTGATT	0.418													8	75					0	0	1	0	0		G	186045737	G	G	186045737	3	3	214	1	0	0	0	0	1	0	0	0	7236	14	1	3	8682	3	HMCN1	1	186045737	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5212764	186045737	63204884	66	106484											
TROVE2	6738	broad.mit.edu	37	chr1	193060808	193060808	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaataccctactaaataaatCattttagacatggagtgcag	17	11	6	7	0	1	1	1	0	0	1	1	2	1	2	1	1	3	1	1	1	8	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:193060808C>T	uc001gsw.2	+	10	1988	c.1571C>T	c.(1570-1572)TCA>TTA	p.S524L	TROVE2_uc009wyp.2_3'UTR|TROVE2_uc009wyq.2_3'UTR|TROVE2_uc001gsy.2_RNA	NM_001042369	NP_001035828	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 1	Error:Variant_position_missing_in_P10155_after_alignment					transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						CTAAATAAATCATTTTAGACA	0.323													6	49					0	0	1	0	0		T	193060808	T	T	193060808	3	4	214	1	0	0	0	0	1	0	0	0	16602	838	29	4	1697	4	TROVE2	1	193060808	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7015071	193060808	56189813	67	106485											
KCNT2	343450	broad.mit.edu	37	chr1	196227426	196227426	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaggttcagtcgctgctgggTtattttttcagctgttttac	5	18	11	7	1	2	0	2	0	0	0	3	1	2	0	0	2	3	6	0	2	2	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:196227426T>C	uc001gtd.1	-	26	3169	c.3109A>G	c.(3109-3111)ACC>GCC	p.T1037A	KCNT2_uc009wyt.1_RNA|KCNT2_uc001gte.1_Missense_Mutation_p.T970A|KCNT2_uc001gtf.1_Missense_Mutation_p.T1013A|KCNT2_uc001gtg.1_RNA|KCNT2_uc001gth.1_Missense_Mutation_p.T541A	NM_198503	NP_940905	Q6UVM3	KCNT2_HUMAN	potassium channel, subfamily T, member 2	1037	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ATP binding|calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(5)|breast(1)|skin(1)	7						CGCTGCTGGGTTATTTTTTCA	0.468													20	60					0	0	1	0	0		C	196227426	C	C	196227426	3	2	214	1	0	0	0	0	1	0	0	0	8108	1725	60	3	310	3	KCNT2	1	196227426	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3166618	196227426	53023195	68	106486											
F13B	2165	broad.mit.edu	37	chr1	197032148	197032148	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagtatagtaatattgggcaAttcttccattttccacatga	13	15	6	7	0	1	1	0	1	1	0	3	1	3	1	2	1	0	3	2	1	6	9			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:197032148A>C	uc001gtt.1	-	2	148	c.104T>G	c.(103-105)ATT>AGT	p.I35S		NM_001994	NP_001985	P05160	F13B_HUMAN	coagulation factor XIII B subunit precursor	35	Sushi 1.				blood coagulation	extracellular region				upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	3						ATATTGGGCAATTCTTCCATT	0.318													8	164					0	0	1	0	0		C	197032148	C	C	197032148	3	2	214	1	0	0	0	0	1	0	0	0	5349	101	4	5	1925	5	F13B	1	197032148	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	804722	197032148	52218473	69	106487											
ARL8A	127829	broad.mit.edu	37	chr1	202113660	202113660	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctcctccttccagaataggGccttgaaccagtccagcagc	9	9	8	15	0	1	2	0	1	1	1	5	2	4	2	6	1	3	1	6	1	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:202113660G>A	uc001gxk.1	-	1	207	c.41C>T	c.(40-42)GCC>GTC	p.A14V		NM_138795	NP_620150	Q96BM9	ARL8A_HUMAN	ADP-ribosylation factor-like 8A	14					cell division|chromosome segregation|mitosis|small GTPase mediated signal transduction	late endosome membrane|lysosomal membrane|midbody|spindle midzone	alpha-tubulin binding|beta-tubulin binding|GTP binding|GTPase activity			ovary(2)	2						CCAGAATAGGGCCTTGAACCA	0.667													4	51					0	0	1	0	0		A	202113660	A	A	202113660	3	1	214	1	0	0	0	0	1	0	0	0	947	1203	42	2	547	2	ARL8A	1	202113660	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	5081512	202113660	47136961	70	106488											
RABIF	5877	broad.mit.edu	37	chr1	202850209	202850209	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtctgcgcagaccagaaacTtgatgttgcccacgtccttg	9	10	10	12	2	1	3	0	1	1	2	2	3	2	3	3	0	3	2	3	0	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:202850209T>G	uc001gyl.2	-	2	306	c.269A>C	c.(268-270)AAG>ACG	p.K90T		NM_002871	NP_002862	P47224	MSS4_HUMAN	RAB-interacting factor	90					cellular membrane fusion|protein transport|small GTPase mediated signal transduction		guanyl-nucleotide exchange factor activity|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(75;0.166)			GACCAGAAACTTGATGTTGCC	0.502													5	72					0	0	1	0	0		G	202850209	G	G	202850209	3	3	214	1	0	0	0	0	1	0	0	0	12994	1609	56	5	106	5	RABIF	1	202850209	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	736549	202850209	46400412	71	106489											
NFASC	23114	broad.mit.edu	37	chr1	204945865	204945865	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgggaccagggcagttacacGtgtgtcgccagcaccgagct	8	6	14	13	4	0	0	0	0	0	0	1	2	0	1	3	2	3	4	3	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:204945865G>A	uc001hbj.2	+	16	2101	c.1773G>A	c.(1771-1773)ACG>ACA	p.T591T	NFASC_uc001hbh.2_Silent_p.T591T|NFASC_uc010pqz.1_Silent_p.T585T|NFASC_uc010pra.1_Silent_p.T602T|NFASC_uc001hbi.2_Silent_p.T602T|NFASC_uc010prb.1_Silent_p.T602T|NFASC_uc010prc.1_Silent_p.T158T|NFASC_uc001hbk.1_Silent_p.T412T	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	591	Extracellular (Potential).|Ig-like C2-type 6.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	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)			GCAGTTACACGTGTGTCGCCA	0.617													31	125					0	0	1	0	0		A	204945865	A	A	204945865	2	1	214	1	0	0	0	0	0	0	0	1	10378	1132	40	1		1	NFASC	1	204945865	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2095656	204945865	44304756	72	106490											
FAIM3	9214	broad.mit.edu	37	chr1	207087391	207087391	+	Missense_Mutation	SNP	A	G	G	1	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	tgatggtaactgatccgcccAgctccccctctacctttact	7	12	6	16	1	1	2	0	2	1	0	3	2	3	2	5	1	4	2	5	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:207087391A>G	uc001hey.2	-	2	265	c.86T>C	c.(85-87)CTG>CCG	p.L29P	FAIM3_uc010prz.1_Intron|FAIM3_uc010psa.1_5'UTR|FAIM3_uc010psb.1_Missense_Mutation_p.L29P	NM_005449	NP_005440	O60667	FAIM3_HUMAN	Fas apoptotic inhibitory molecule 3 isoform a	29	Extracellular (Potential).				anti-apoptosis|cellular defense response	integral to membrane				central_nervous_system(1)	1	Breast(84;0.201)					TGATCCGCCCAGCTCCCCCTC	0.483													18	102					0	0	1	0	0		G	207087391	G	G	207087391	3	3	214	1	0	0	0	0	1	0	0	0	5388	188	7	3	1114	3	FAIM3	1	207087391	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2141526	207087391	42163230	73	106491											
PLXNA2	5362	broad.mit.edu	37	chr1	208315796	208315796	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaccccaccatgggggggacCgtcggcccgaatctgtatga	8	6	14	13	3	1	1	0	1	1	0	2	4	1	2	5	4	0	1	5	4	2	1	rs147087031		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:208315796C>T	uc001hgz.2	-	4	2142	c.1384G>A	c.(1384-1386)GGT>AGT	p.G462S		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	462	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TGGGGGGGACCGTCGGCCCGA	0.592													25	131					0	0	1	0	0		T	208315796	T	T	208315796	3	4	214	1	0	0	0	0	1	0	0	0	12139	652	23	1	4416	1	PLXNA2	1	208315796	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1228405	208315796	40934825	74	106492											
KCNH1	3756	broad.mit.edu	37	chr1	210977394	210977394	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaatccttttggcacctggTagagcttcaggaagtcccga	9	11	10	11	1	2	1	2	0	0	1	4	3	4	2	3	3	1	3	3	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:210977394T>C	uc001hib.2	-	8	1747	c.1577A>G	c.(1576-1578)TAC>TGC	p.Y526C	KCNH1_uc001hic.2_Missense_Mutation_p.Y499C	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	526	Cytoplasmic (Potential).				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGGCACCTGGTAGAGCTTCAG	0.468													5	46					0	0	1	0	0		C	210977394	C	C	210977394	3	2	214	1	0	0	0	0	1	0	0	0	8047	1638	57	3	1408	3	KCNH1	1	210977394	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2661598	210977394	38273227	75	106493											
NEK2	4751	broad.mit.edu	37	chr1	211846962	211846962	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	attggctggtttcagatcccGatgcaatacggtatgaccac	10	11	10	10	2	1	2	1	1	0	1	2	3	2	2	2	3	2	4	2	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:211846962G>A	uc001hir.1	-	3	564	c.418C>T	c.(418-420)CGG>TGG	p.R140W	NEK2_uc001hiq.1_Missense_Mutation_p.R140W|NEK2_uc001his.3_Missense_Mutation_p.R140W|NEK2_uc001hit.1_RNA	NM_002497	NP_002488	P51955	NEK2_HUMAN	NIMA-related kinase 2	140	Protein kinase.				cell division|centrosome separation|G2/M transition of mitotic cell cycle|meiosis|protein autophosphorylation|regulation of mitosis	centrosome|condensed chromosome kinetochore|cytosol|nucleolus	ATP binding|metal ion binding|protein binding|protein phosphatase binding|protein serine/threonine kinase activity			breast(2)|stomach(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.00203)|all cancers(67;0.0339)|Epithelial(68;0.0546)		TTCAGATCCCGATGCAATACG	0.453													13	106					0	0	1	0	0		A	211846962	A	A	211846962	3	1	214	1	0	0	0	0	1	0	0	0	10343	1057	37	1	943	1	NEK2	1	211846962	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	869568	211846962	37403659	76	106494											
CENPF	1063	broad.mit.edu	37	chr1	214815439	214815439	+	Missense_Mutation	SNP	T	C	C	0	1	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	aaccagcaatttgcaagacaTgcagtcacaagaaattagtg	17	8	8	8	0	1	2	1	0	0	2	1	2	1	2	1	0	4	3	1	0	6	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:214815439T>C	uc001hkm.2	+	12	3932	c.3758T>C	c.(3757-3759)ATG>ACG	p.M1253T		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)|skin(1)	13				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		TTGCAAGACATGCAGTCACAA	0.393													16	61					0	0	1	0	0		C	214815439	C	C	214815439	3	2	214	1	0	0	0	0	1	0	0	0	3234	1464	51	3	3800	3	CENPF	1	214815439	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2968477	214815439	34435182	77	106495											
KCNK2	3776	broad.mit.edu	37	chr1	215345501	215345501	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggttatcactctaacaacTattggatttggtgactacgt	10	15	9	7	1	2	1	1	1	1	0	2	2	2	2	0	3	3	1	0	3	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:215345501T>C	uc001hkq.2	+	5	967	c.798T>C	c.(796-798)ACT>ACC	p.T266T	KCNK2_uc001hko.2_Silent_p.T262T|KCNK2_uc009xdm.2_Intron|KCNK2_uc001hkp.2_RNA|KCNK2_uc010pua.1_RNA|KCNK2_uc001hkr.3_Silent_p.T251T	NM_001017425	NP_001017425	O95069	KCNK2_HUMAN	potassium channel, subfamily K, member 2 isoform	266							outward rectifier potassium channel activity				0				OV - Ovarian serous cystadenocarcinoma(81;0.0399)|all cancers(67;0.0556)|GBM - Glioblastoma multiforme(131;0.068)	Dofetilide(DB00204)	CTCTAACAACTATTGGATTTG	0.413													8	131					0	0	1	0	0		C	215345501	C	C	215345501	2	2	214	1	0	0	0	0	0	0	0	1	8082	1509	53	3		3	KCNK2	1	215345501	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	530062	215345501	33905120	78	106496											
ESRRG	2104	broad.mit.edu	37	chr1	216680288	216680288	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agggagcttttagtcagaccTtggcctccaacatttccaaa	11	11	8	11	0	1	1	1	0	0	1	3	2	3	2	4	2	2	1	4	2	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:216680288T>C	uc001hkw.1	-	7	1536	c.1370A>G	c.(1369-1371)AAG>AGG	p.K457R	ESRRG_uc001hky.1_Missense_Mutation_p.K434R|ESRRG_uc009xdp.1_Missense_Mutation_p.K434R|ESRRG_uc001hkz.1_Missense_Mutation_p.K395R|ESRRG_uc010puc.1_Missense_Mutation_p.K434R|ESRRG_uc001hla.1_Missense_Mutation_p.K434R|ESRRG_uc001hlb.1_Missense_Mutation_p.K434R|ESRRG_uc010pud.1_Missense_Mutation_p.K265R|ESRRG_uc001hlc.1_Missense_Mutation_p.K434R|ESRRG_uc001hld.1_Missense_Mutation_p.K434R|ESRRG_uc001hkx.1_Missense_Mutation_p.K469R|ESRRG_uc009xdo.1_Missense_Mutation_p.K434R	NM_001438	NP_001429	P62508	ERR3_HUMAN	estrogen-related receptor gamma isoform 1	457					positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	AF-2 domain binding|retinoic acid receptor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(1)|kidney(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0358)|all cancers(67;0.0693)|GBM - Glioblastoma multiforme(131;0.0713)	Diethylstilbestrol(DB00255)	TAGTCAGACCTTGGCCTCCAA	0.433													7	52					0	0	1	0	0		C	216680288	C	C	216680288	3	2	214	1	0	0	0	0	1	0	0	0	5270	1609	56	3	10	3	ESRRG	1	216680288	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1334787	216680288	32570333	79	106497											
SPATA17	128153	broad.mit.edu	37	chr1	217915421	217915421	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaagcccgaaagatgcattAcctcctcagcacaaagcagg	14	5	8	14	1	1	1	1	0	0	1	2	2	2	1	4	1	5	3	4	1	4	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:217915421A>G	uc001hlh.1	+	6	526	c.500A>G	c.(499-501)TAC>TGC	p.Y167C	SPATA17_uc009xdr.1_RNA|SPATA17_uc001hli.2_Missense_Mutation_p.Y167C	NM_138796	NP_620151	Q96L03	SPT17_HUMAN	spermatogenesis associated 17	167						cytoplasm	calmodulin binding			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0516)|all cancers(67;0.0891)|GBM - Glioblastoma multiforme(131;0.117)		AAGATGCATTACCTCCTCAGC	0.483													9	102					0	0	1	0	0		G	217915421	G	G	217915421	3	3	214	1	0	0	0	0	1	0	0	0	15027	391	14	3	522	3	SPATA17	1	217915421	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1235133	217915421	31335200	80	106498											
C1orf115	79762	broad.mit.edu	37	chr1	220869994	220869994	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaaggatgccgctacgtggTcatcggcctgcaaggcttcg	8	8	13	12	4	1	0	1	0	0	0	3	1	1	1	2	4	3	3	2	4	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:220869994T>C	uc001hmp.1	+	2	467	c.350T>C	c.(349-351)GTC>GCC	p.V117A		NM_024709	NP_078985	Q9H7X2	CA115_HUMAN	hypothetical protein LOC79762	117	Helical; (Potential).					integral to membrane					0				GBM - Glioblastoma multiforme(131;0.0273)		CGCTACGTGGTCATCGGCCTG	0.527													10	118					0	0	1	0	0		C	220869994	C	C	220869994	3	2	214	1	0	0	0	0	1	0	0	0	1991	1667	58	3	356	3	C1orf115	1	220869994	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2954573	220869994	28380627	81	106499											
ABCB10	23456	broad.mit.edu	37	chr1	229676394	229676394	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcgaatgcctctttccttgCtaactgcattacatggtcca	8	13	8	12	1	1	0	0	0	1	0	3	1	3	0	3	2	5	2	3	2	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:229676394C>T	uc001htp.3	-	5	1205	c.1162G>A	c.(1162-1164)GCA>ACA	p.A388T		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	388	Mitochondrial intermembrane (Potential).|Mitochondrial matrix (Potential).|ABC transmembrane type-1.					integral to mitochondrial membrane|mitochondrial inner membrane	ATP binding|oligopeptide-transporting ATPase activity			breast(2)	2	Breast(184;0.143)|Ovarian(103;0.249)	Prostate(94;0.167)				TCTTTCCTTGCTAACTGCATT	0.403													18	79					0	0	1	0	0		T	229676394	T	T	229676394	3	4	214	1	0	0	0	0	1	0	0	0	41	797	28	2	1090	2	ABCB10	1	229676394	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8806400	229676394	19574227	82	106500											
TSNAX	7257	broad.mit.edu	37	chr1	231700443	231700443	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagtgagccagtttttacGtcaggtttatgatgggtttt	8	17	12	4	1	1	3	1	3	0	0	1	3	1	3	1	2	2	3	1	2	3	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:231700443G>A	uc001huw.2	+	6	823	c.665G>A	c.(664-666)CGT>CAT	p.R222H	TSNAX-DISC1_uc010pwe.1_Intron|TSNAX-DISC1_uc010pwf.1_Intron|TSNAX-DISC1_uc010pwg.1_Intron|TSNAX-DISC1_uc010pwh.1_Intron|TSNAX-DISC1_uc010pwi.1_Intron|TSNAX-DISC1_uc010pwj.1_Intron|TSNAX-DISC1_uc010pwk.1_Intron|TSNAX-DISC1_uc010pwl.1_Intron	NM_005999	NP_005990	Q99598	TSNAX_HUMAN	translin-associated factor X	222					cell differentiation|multicellular organismal development|spermatogenesis	nucleus|perinuclear region of cytoplasm	protein transporter activity|sequence-specific DNA binding				0		all_cancers(173;0.0395)|Acute lymphoblastic leukemia(190;3.76e-06)|Prostate(94;0.116)				CAGTTTTTACGTCAGGTTTAT	0.438													13	97					0	0	1	0	0		A	231700443	A	A	231700443	3	1	214	1	0	0	0	0	1	0	0	0	16657	1145	40	1	687	1	TSNAX	1	231700443	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2024049	231700443	17550178	83	106501											
C1orf57	84284	broad.mit.edu	37	chr1	233092116	233092116	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agagcctccacctggaaaacGtgaatgccgagttgggcagt	11	7	13	10	2	0	2	0	1	0	1	1	4	1	3	4	2	3	2	4	2	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:233092116G>A	uc001hvj.1	+	3	308	c.221G>A	c.(220-222)CGT>CAT	p.R74H	C1orf57_uc001hvi.2_Missense_Mutation_p.R74H|C1orf57_uc009xft.1_RNA	NM_032324	NP_115700	Q9BSD7	NTPCR_HUMAN	nucleoside-triphosphatase C1orf57	74							ATP binding|nucleoside-triphosphatase activity|nucleotide phosphatase activity|transferase activity				0		all_cancers(173;0.0818)|Prostate(94;0.137)				CCTGGAAAACGTGAATGCCGA	0.443													7	38					0	0	1	0	0		A	233092116	A	A	233092116	3	1	214	1	0	0	0	0	1	0	0	0	2052	1145	40	1	231	1	C1orf57	1	233092116	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1391673	233092116	16158505	84	106502											
SLC35F3	148641	broad.mit.edu	37	chr1	234452411	234452411	+	Missense_Mutation	SNP	A	G	G	1	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	cctacgctgatggcttccacAgccactccgtcatcggcatc	7	9	8	17	3	1	1	1	1	0	0	5	1	3	1	4	2	2	3	4	2	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:234452411A>G	uc001hwa.1	+	4	913	c.685A>G	c.(685-687)AGC>GGC	p.S229G	SLC35F3_uc001hvy.1_Missense_Mutation_p.S298G	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	229					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			TGGCTTCCACAGCCACTCCGT	0.587													8	225					0	0	1	0	0		G	234452411	G	G	234452411	3	3	214	1	0	0	0	0	1	0	0	0	14615	188	7	3	910	3	SLC35F3	1	234452411	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1360295	234452411	14798210	85	106503											
SLC35F3	148641	broad.mit.edu	37	chr1	234454627	234454627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctactttaccaaagtggaatActggagctcttttgatgaca	12	13	8	8	0	1	2	0	2	1	0	1	4	1	4	1	2	4	1	1	2	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:234454627A>G	uc001hwa.1	+	5	1106	c.878A>G	c.(877-879)TAC>TGC	p.Y293C	SLC35F3_uc001hvy.1_Missense_Mutation_p.Y362C	NM_173508	NP_775779	Q8IY50	S35F3_HUMAN	solute carrier family 35, member F3	293					transport	integral to membrane				ovary(2)	2	Ovarian(103;0.0454)	all_cancers(173;0.145)|Prostate(94;0.0885)	OV - Ovarian serous cystadenocarcinoma(106;0.00531)			AAAGTGGAATACTGGAGCTCT	0.403													10	153					0	0	1	0	0		G	234454627	G	G	234454627	3	3	214	1	0	0	0	0	1	0	0	0	14615	391	14	3	1107	3	SLC35F3	1	234454627	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2216	234454627	14795994	86	106504											
LYST	1130	broad.mit.edu	37	chr1	235976350	235976350	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagtcaggagttcttctctAcatgtcaatgcctatgtcag	10	13	9	9	0	5	1	3	0	2	1	6	2	5	2	1	1	2	1	1	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:235976350A>G	uc001hxj.2	-	4	379	c.204T>C	c.(202-204)TGT>TGC	p.C68C	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Silent_p.C68C	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	68					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			GTTCTTCTCTACATGTCAATG	0.393									Chediak-Higashi_syndrome				10	51					0	0	1	0	0		G	235976350	G	G	235976350	2	3	214	1	0	0	0	0	0	0	0	1	9146	389	14	3		3	LYST	1	235976350	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1521723	235976350	13274271	87	106505											
KMO	8564	broad.mit.edu	37	chr1	241731935	241731935	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtgccgttttttgggcaAggaatgaatgcggtaagttc	10	13	13	5	2	0	1	0	1	0	0	1	2	0	2	1	3	2	4	1	3	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:241731935A>G	uc009xgp.2	+	10	1010	c.945A>G	c.(943-945)CAA>CAG	p.Q315Q	KMO_uc001hyy.2_Silent_p.Q315Q|KMO_uc009xgo.1_Silent_p.Q315Q	NM_003679	NP_003670	O15229	KMO_HUMAN	kynurenine 3-monooxygenase	315					pyridine nucleotide biosynthetic process|response to salt stress	cytosol|integral to membrane|mitochondrial outer membrane	electron carrier activity|flavin adenine dinucleotide binding|kynurenine 3-monooxygenase activity|NAD(P)H oxidase activity			ovary(2)	2	Ovarian(103;0.103)|all_lung(81;0.23)		OV - Ovarian serous cystadenocarcinoma(106;0.0176)			TTTTTGGGCAAGGAATGAATG	0.418													4	24					0	0	1	0	0		G	241731935	G	G	241731935	2	3	214	1	0	0	0	0	0	0	0	1	8440	69	3	3		3	KMO	1	241731935	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5755585	241731935	7518686	88	106506											
EXO1	9156	broad.mit.edu	37	chr1	242035442	242035442	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgagcttttctgaagtgtTtgtgcctgacctggtaaatg	8	16	11	6	0	1	3	0	3	1	0	1	3	1	3	2	1	2	3	2	1	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:242035442T>C	uc001hzh.2	+	12	1916	c.1376T>C	c.(1375-1377)TTT>TCT	p.F459S	EXO1_uc001hzi.2_Missense_Mutation_p.F459S|EXO1_uc001hzj.2_Missense_Mutation_p.F459S|EXO1_uc009xgq.2_Missense_Mutation_p.F458S	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	459	Interaction with MLH1.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			TCTGAAGTGTTTGTGCCTGAC	0.363								Direct_reversal_of_damage|Editing_and_processing_nucleases					7	62					0	0	1	0	0		C	242035442	C	C	242035442	3	2	214	1	0	0	0	0	1	0	0	0	5308	1841	64	3	1410	3	EXO1	1	242035442	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	303507	242035442	7215179	89	106507											
C1orf101	257044	broad.mit.edu	37	chr1	244715941	244715941	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctgagtgatgatgaaagacGgagtgtggctcatgtgatct	10	12	14	5	1	3	6	1	5	2	1	3	7	3	7	0	2	0	1	0	2	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:244715941G>A	uc001iam.2	+	9	913	c.854G>A	c.(853-855)CGG>CAG	p.R285Q	C1orf101_uc001iak.1_Intron|C1orf101_uc001ial.2_Missense_Mutation_p.R285Q|C1orf101_uc010pym.1_Missense_Mutation_p.R134Q|C1orf101_uc010pyn.1_Missense_Mutation_p.R218Q	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	285	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			GATGAAAGACGGAGTGTGGCT	0.408													12	156					0	0	1	0	0		A	244715941	A	A	244715941	3	1	214	1	0	0	0	0	1	0	0	0	1979	1116	39	1	888	1	C1orf101	1	244715941	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2680499	244715941	4534680	90	106508											
AHCTF1	25909	broad.mit.edu	37	chr1	247050587	247050587	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaagaaatggcaaatacagTtgggaaagattcaatgggag	17	7	12	5	0	1	2	1	0	0	2	1	4	1	4	1	3	1	2	1	3	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:247050587T>C	uc001ibu.1	-	19	2405	c.2398A>G	c.(2398-2400)ACT>GCT	p.T800A	AHCTF1_uc001ibv.1_Missense_Mutation_p.T809A|AHCTF1_uc009xgs.1_5'UTR	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	800	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GCAAATACAGTTGGGAAAGAT	0.343													8	218					0	0	1	0	0		C	247050587	C	C	247050587	3	2	214	1	0	0	0	0	1	0	0	0	408	1725	60	3	4470	3	AHCTF1	1	247050587	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2334646	247050587	2200034	91	106509											
AHCTF1	25909	broad.mit.edu	37	chr1	247063505	247063505	+	Missense_Mutation	SNP	A	G	G	1	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	acttacaacagactccaatgAccacagtgcaaaataagagc	18	6	6	11	0	0	3	0	1	0	2	1	3	1	3	2	0	4	1	2	0	6	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:247063505A>G	uc001ibu.1	-	9	1301	c.1294T>C	c.(1294-1296)TCA>CCA	p.S432P	AHCTF1_uc001ibv.1_Missense_Mutation_p.S441P|AHCTF1_uc009xgs.1_5'Flank	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	432	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GACTCCAATGACCACAGTGCA	0.358													28	144					0	0	1	0	0		G	247063505	G	G	247063505	3	3	214	1	0	0	0	0	1	0	0	0	408	275	10	3	5614	3	AHCTF1	1	247063505	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	12918	247063505	2187116	92	106510											
OR2W5	441932	broad.mit.edu	37	chr1	247655067	247655067	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcctggtgccgctctccCtcatcctcatctcctatggc	3	13	6	19	1	4	0	2	0	2	0	9	0	7	0	6	2	1	1	6	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:247655067C>A	uc001icz.1	+	1	638	c.638C>A	c.(637-639)CCT>CAT	p.P213H		NM_001004698	NP_001004698	A6NFC9	OR2W5_HUMAN	olfactory receptor, family 2, subfamily W,	213					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3	all_cancers(71;4.51e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.222)	OV - Ovarian serous cystadenocarcinoma(106;0.0188)			GCCGCTCTCCCTCATCCTCAT	0.567													27	133					7.53681e-25	8.51988e-25	1	1	0		A	247655067	A	A	247655067	3	1	214	1	0	0	0	0	1	0	0	0	11053	681	24	5	640	5	OR2W5	1	247655067	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	591562	247655067	1595554	93	106511											
OR2L8	391190	broad.mit.edu	37	chr1	248112987	248112987	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gacaaggttctggctgtcttCtacaccatcctcaccccaat	9	11	6	15	0	4	0	1	0	3	0	5	1	5	0	4	2	1	2	4	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr1:248112987C>G	uc001idt.1	+	1	828	c.828C>G	c.(826-828)TTC>TTG	p.F276L	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	276	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TGGCTGTCTTCTACACCATCC	0.498													5	130					0	0	1	0	0		G	248112987	G	G	248112987	3	3	214	1	0	0	0	0	1	0	0	0	11028	912	32	5	830	5	OR2L8	1	248112987	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	457920	248112987	1137634	94	106512											
MYT1L	23040	broad.mit.edu	37	chr2	1893203	1893203	+	Missense_Mutation	SNP	A	G	G	1	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	cccgcggcctctgcttgttcAtgctgaggtccagggtcccg	3	10	13	15	3	2	1	1	1	1	0	4	1	4	1	4	3	2	3	4	3	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:1893203A>G	uc002qxe.2	-	16	3157	c.2330T>C	c.(2329-2331)ATG>ACG	p.M777T	MYT1L_uc002qxd.2_Missense_Mutation_p.M775T|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	777					cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		CTGCTTGTTCATGCTGAGGTC	0.597													5	66					0	0	1	0	0		G	1893203	G	G	1893203	3	3	214	1	0	0	0	0	1	0	0	0	10125	217	8	3	1270	3	MYT1L	2	1893203	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		1893203	241306170	95	106513											
ASAP2	8853	broad.mit.edu	37	chr2	9437519	9437519	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacccagatttaggaagtgCgttcctgaagttctcagtgt	9	13	11	8	1	1	3	1	2	1	1	3	4	2	4	2	1	1	2	2	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:9437519C>T	uc002qzh.2	+	3	630	c.290C>T	c.(289-291)GCG>GTG	p.A97V	ASAP2_uc002qzi.2_Missense_Mutation_p.A97V	NM_003887	NP_003878	O43150	ASAP2_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH	97					regulation of ARF GTPase activity	Golgi cisterna membrane|plasma membrane	ARF GTPase activator activity|protein binding|zinc ion binding				0						TTAGGAAGTGCGTTCCTGAAG	0.468													6	56					0	0	1	0	0		T	9437519	T	T	9437519	3	4	214	1	0	0	0	0	1	0	0	0	1012	768	27	1	300	1	ASAP2	2	9437519	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7544316	9437519	233761854	96	106514											
KCNF1	3754	broad.mit.edu	37	chr2	11053714	11053714	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cgctgggcaagctcaacgcgGccatcagcttcttgtgtggt	6	10	13	12	3	3	0	2	0	1	0	3	0	3	0	1	3	3	4	1	3	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:11053714G>A	uc002rax.2	+	1	1652	c.1162G>A	c.(1162-1164)GCC>ACC	p.A388T		NM_002236	NP_002227	Q9H3M0	KCNF1_HUMAN	potassium voltage-gated channel, subfamily F,	388	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.128)		GCTCAACGCGGCCATCAGCTT	0.582													8	52					0	0	1	0	0		A	11053714	A	A	11053714	3	1	214	1	0	0	0	0	1	0	0	0	8042	1203	42	2	1164	2	KCNF1	2	11053714	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1616195	11053714	232145659	97	106515											
DDX1	1653	broad.mit.edu	37	chr2	15760451	15760451	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgttccagatactgtacaCcatgttgttgtcccagtaaa	10	14	7	10	0	1	1	0	0	1	1	3	1	3	1	3	0	2	5	3	0	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:15760451C>A	uc002rce.2	+	17	1614	c.1326C>A	c.(1324-1326)CAC>CAA	p.H442Q	DDX1_uc010yjq.1_Missense_Mutation_p.H350Q	NM_004939	NP_004930	Q92499	DDX1_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 1	442	Necessary for interaction with RELA.				DNA duplex unwinding|double-strand break repair|multicellular organismal development|regulation of transcription, DNA-dependent|regulation of translational initiation|spliceosome assembly|transcription, DNA-dependent	cleavage body|stress granule|tRNA-splicing ligase complex	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|DNA/RNA helicase activity|exonuclease activity|poly(A) RNA binding|protein binding|RNA helicase activity|transcription cofactor activity			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)	all_epithelial(98;2.96e-07)|Acute lymphoblastic leukemia(84;4.24e-05)|Ovarian(717;0.0694)	GBM - Glioblastoma multiforme(3;0.00969)	Epithelial(75;4.35e-05)|OV - Ovarian serous cystadenocarcinoma(76;0.133)		ATACTGTACACCATGTTGTTG	0.378													5	61					1.23904e-05	1.32391e-05	1	1	0		A	15760451	A	A	15760451	3	1	214	1	0	0	0	0	1	0	0	0	4344	506	18	5	1392	5	DDX1	2	15760451	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4706737	15760451	227438922	98	106516											
GEN1	348654	broad.mit.edu	37	chr2	17961984	17961984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacatgtgaaatctttcataAgcagaattccaagttaaatt	16	13	5	7	0	2	2	1	1	1	1	3	2	3	2	1	0	1	2	1	0	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:17961984A>G	uc002rct.2	+	14	1578	c.1505A>G	c.(1504-1506)AAG>AGG	p.K502R	SMC6_uc010exo.2_Intron|GEN1_uc010yjs.1_Missense_Mutation_p.K502R|GEN1_uc002rcu.2_Missense_Mutation_p.K502R	NM_182625	NP_872431	Q17RS7	GEN_HUMAN	Gen homolog 1, endonuclease	502					DNA repair	nucleus	DNA binding|endonuclease activity|metal ion binding			breast(5)|kidney(1)|central_nervous_system(1)|skin(1)	8	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					ATCTTTCATAAGCAGAATTCC	0.363								Homologous_recombination					11	53					0	0	1	0	0		G	17961984	G	G	17961984	3	3	214	1	0	0	0	0	1	0	0	0	6350	72	3	3	1555	3	GEN1	2	17961984	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2201533	17961984	225237389	99	106517											
MATN3	4148	broad.mit.edu	37	chr2	20196998	20196998	+	Silent	SNP	G	T	T	0	0	1	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	atgtgctggcaaccatgagaGcctagggcacacttgtcacg	10	8	12	11	1	1	1	1	1	0	1	1	2	1	1	2	2	3	3	2	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:20196998G>T	uc002rdl.2	-	6	1254	c.1191C>A	c.(1189-1191)GGC>GGA	p.G397G	MATN3_uc010exu.1_Silent_p.G355G	NM_002381	NP_002372	O15232	MATN3_HUMAN	matrilin 3 precursor	397	EGF-like 4.				skeletal system development	proteinaceous extracellular matrix	extracellular matrix structural constituent|protein binding				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AACCATGAGAGCCTAGGGCAC	0.453													5	23					3.59834e-05	3.81628e-05	1	1	0		T	20196998	T	T	20196998	2	4	214	1	0	0	0	0	0	0	0	1	9353	958	34	5		5	MATN3	2	20196998	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2235014	20196998	223002375	100	106518											
C2orf39	92749	broad.mit.edu	37	chr2	26672938	26672938	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaatgctatctgctgaggctGgatgccatcttctccgtgag	7	12	12	10	1	3	2	0	2	3	0	4	4	3	3	2	2	3	3	2	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:26672938G>T	uc002rhg.2	+	12	1658	c.1584G>T	c.(1582-1584)CTG>CTT	p.L528L		NM_145038	NP_659475	Q96MC2	CC164_HUMAN	hypothetical protein LOC92749	528											0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCTGAGGCTGGATGCCATCT	0.612													4	22					0.00024832	0.000260463	1	1	0		T	26672938	T	T	26672938	2	4	214	1	0	0	0	0	0	0	0	1	2167	1335	47	5		5	C2orf39	2	26672938	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6475940	26672938	216526435	101	106519											
TCF23	150921	broad.mit.edu	37	chr2	27373194	27373194	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgcctggccctgcctggccGcccttcctgcgtggactccg	1	10	12	18	3	0	0	0	0	0	0	2	1	2	1	7	3	3	0	7	3	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:27373194G>A	uc010ylg.1	+	2	426	c.426G>A	c.(424-426)CCG>CCA	p.P142P		NM_175769	NP_786951	Q7RTU1	TCF23_HUMAN	transcription factor 23	142					cell differentiation|muscle organ development|regulation of transcription, DNA-dependent	nucleus					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTGCCTGGCCGCCCTTCCTGC	0.622													29	262					0	0	1	0	0		A	27373194	A	A	27373194	2	1	214	1	0	0	0	0	0	0	0	1	15717	1074	38	1		1	TCF23	2	27373194	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	700256	27373194	215826179	102	106520											
MPV17	4358	broad.mit.edu	37	chr2	27535602	27535602	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtggtgccagggatgaacCgatccaaaaccttgtaccag	11	8	12	10	1	0	1	0	1	0	0	1	3	1	2	5	3	4	1	5	3	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:27535602C>T	uc002rjr.2	-	3	271	c.224G>A	c.(223-225)CGG>CAG	p.R75Q	MPV17_uc002rjq.2_Missense_Mutation_p.R75Q|MPV17_uc002rjs.2_Missense_Mutation_p.R75Q|MPV17_uc002rjt.2_RNA	NM_002437	NP_002428	P39210	MPV17_HUMAN	Mpv17 protein	75					cellular response to reactive oxygen species|glomerular basement membrane development|homeostatic process|inner ear development|mitochondrial genome maintenance|regulation of reactive oxygen species metabolic process	integral to peroxisomal membrane|mitochondrial inner membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AGGGATGAACCGATCCAAAAC	0.557													13	60					0	0	1	0	0		T	27535602	T	T	27535602	3	4	214	1	0	0	0	0	1	0	0	0	9763	652	23	1	326	1	MPV17	2	27535602	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	162408	27535602	215663771	103	106521											
IFT172	26160	broad.mit.edu	37	chr2	27681051	27681051	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggcctgagtgatgtataGcactgacacatcttctggtc	8	12	11	10	0	2	3	0	3	2	0	3	3	2	3	1	2	1	2	1	2	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:27681051G>A	uc002rku.2	-	27	2968	c.2917C>T	c.(2917-2919)CTA>TTA	p.L973L		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	973	TPR 7.				cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					GTGATGTATAGCACTGACACA	0.552													18	112					0	0	1	0	0		A	27681051	A	A	27681051	2	1	214	1	0	0	0	0	0	0	0	1	7573	962	34	2		2	IFT172	2	27681051	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	145449	27681051	215518322	104	106522											
IFT172	26160	broad.mit.edu	37	chr2	27684212	27684212	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgttggctagcagttcctctCgggtcagcaccagccgagca	7	9	12	13	2	2	0	1	0	1	0	4	1	3	0	3	2	4	6	3	2	1	3	rs148237432		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:27684212C>T	uc002rku.2	-	22	2417	c.2366G>A	c.(2365-2367)CGA>CAA	p.R789Q		NM_015662	NP_056477	Q9UG01	IF172_HUMAN	selective LIM binding factor homolog	789					cilium assembly	cilium	binding			large_intestine(1)|ovary(1)	2	Acute lymphoblastic leukemia(172;0.155)					CAGTTCCTCTCGGGTCAGCAC	0.567													9	86					0	0	1	0	0		T	27684212	T	T	27684212	3	4	214	1	0	0	0	0	1	0	0	0	7573	884	31	1	2991	1	IFT172	2	27684212	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3161	27684212	215515161	105	106523											
FAM179A	165186	broad.mit.edu	37	chr2	29240782	29240782	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctccctgcccagcatcccCatcagccggcaggagccccg	6	4	10	21	2	1	0	1	0	0	0	3	1	3	1	8	2	4	2	8	2	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:29240782C>T	uc010ezl.2	+	10	1671	c.1320C>T	c.(1318-1320)CCC>CCT	p.P440P	FAM179A_uc010ymm.1_Intron|FAM179A_uc002rmr.3_Intron	NM_199280	NP_954974	Q6ZUX3	F179A_HUMAN	hypothetical protein LOC165186	440							binding			ovary(3)|skin(1)	4						CCAGCATCCCCATCAGCCGGC	0.682													5	19					0	0	1	0	0		T	29240782	T	T	29240782	2	4	214	1	0	0	0	0	0	0	0	1	5516	581	21	4		4	FAM179A	2	29240782	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1556570	29240782	213958591	106	106524											
CLIP4	79745	broad.mit.edu	37	chr2	29404451	29404451	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgcacagatcgaaagctgctTtgcgtcgcagttggagcagc	9	8	13	11	4	0	1	0	0	0	1	2	3	0	2	0	1	5	6	0	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:29404451T>C	uc002rmv.2	+	16	2049	c.1810T>C	c.(1810-1812)TTG>CTG	p.L604L	CLIP4_uc002rmw.2_RNA	NM_024692	NP_078968	Q8N3C7	CLIP4_HUMAN	CAP-GLY domain containing linker protein family,	604										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)					GAAAGCTGCTTTGCGTCGCAG	0.517													9	65					0	0	1	0	0		C	29404451	C	C	29404451	2	2	214	1	0	0	0	0	0	0	0	1	3538	1838	64	3		3	CLIP4	2	29404451	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	163669	29404451	213794922	107	106525											
SPAST	6683	broad.mit.edu	37	chr2	32339883	32339883	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggatctggtcctgctcctAccactcataaggtattctgg	8	12	10	11	0	3	0	1	0	2	0	5	1	5	1	3	4	2	2	3	4	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:32339883A>G	uc002roc.2	+	5	1080	c.859A>G	c.(859-861)ACC>GCC	p.T287A	SPAST_uc002rod.2_Missense_Mutation_p.T255A	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	287	Required for interaction with RTN1.|Required for interaction with microtubules and microtubule severing.|Sufficient for microtubule severing.|Sufficient for interaction with microtubules.				cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					TCCTGCTCCTACCACTCATAA	0.403													7	71					0	0	1	0	0		G	32339883	G	G	32339883	3	3	214	1	0	0	0	0	1	0	0	0	15022	391	14	3	877	3	SPAST	2	32339883	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2935432	32339883	210859490	108	106526											
YIPF4	84272	broad.mit.edu	37	chr2	32515676	32515676	+	Silent	SNP	T	C	C	0	1	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	tggcttctggaagttgaagaTgatgatcctgaagataacaa	14	11	11	5	0	1	6	0	4	1	2	2	7	2	7	1	2	1	2	1	2	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:32515676T>C	uc002rok.2	+	2	471	c.204T>C	c.(202-204)GAT>GAC	p.D68D		NM_032312	NP_115688	Q9BSR8	YIPF4_HUMAN	Yip1 domain family, member 4	68						endoplasmic reticulum|integral to membrane	protein binding				0	Acute lymphoblastic leukemia(172;0.155)					AAGTTGAAGATGATGATCCTG	0.323													19	69					0	0	1	0	0		C	32515676	C	C	32515676	2	2	214	1	0	0	0	0	0	0	0	1	17506	1461	51	3		3	YIPF4	2	32515676	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	175793	32515676	210683697	109	106527											
BIRC6	57448	broad.mit.edu	37	chr2	32668623	32668623	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgttgaaggctttacttgatAatatgtcatttttacctgca	10	18	7	6	0	1	2	1	2	0	0	1	2	1	2	1	1	3	3	1	1	5	9			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:32668623A>G	uc010ezu.2	+	20	4437	c.4303A>G	c.(4303-4305)AAT>GAT	p.N1435D		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	1435					anti-apoptosis|apoptosis	intracellular	acid-amino acid ligase activity|cysteine-type endopeptidase inhibitor activity|protein binding			ovary(5)|skin(4)|lung(2)|central_nervous_system(1)|breast(1)|pancreas(1)	14	Acute lymphoblastic leukemia(172;0.155)					TTTACTTGATAATATGTCATT	0.308													3	9					0	0	1	0	0		G	32668623	G	G	32668623	3	3	214	1	0	0	0	0	1	0	0	0	1439	362	13	3	4381	3	BIRC6	2	32668623	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	152947	32668623	210530750	110	106528											
STRN	6801	broad.mit.edu	37	chr2	37088308	37088308	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggggtcgatgttgggattagTggtattccagccctggatca	7	12	15	7	1	1	0	1	0	0	0	3	3	2	2	2	5	1	2	2	5	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:37088308T>A	uc002rpn.2	-	13	1645	c.1636A>T	c.(1636-1638)ACT>TCT	p.T546S	STRN_uc010ezx.2_Missense_Mutation_p.T509S	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	546	WD 2.				dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				TTGGGATTAGTGGTATTCCAG	0.408													11	96					0	0	1	0	0		A	37088308	A	A	37088308	3	1	214	1	0	0	0	0	1	0	0	0	15354	1696	59	5	730	5	STRN	2	37088308	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4419685	37088308	206111065	111	106529											
STRN	6801	broad.mit.edu	37	chr2	37126678	37126678	+	Silent	SNP	A	G	G	1	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	taactcactgttgaagtatcAatgacgcttttctctcttcc	9	16	5	11	1	4	2	2	2	2	0	6	2	5	2	1	0	1	3	1	0	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:37126678A>G	uc002rpn.2	-	6	792	c.783T>C	c.(781-783)ATT>ATC	p.I261I	STRN_uc010ezx.2_Silent_p.I261I	NM_003162	NP_003153	O43815	STRN_HUMAN	striatin, calmodulin binding protein	261					dendrite development|locomotory behavior|negative regulation of cell proliferation|tight junction assembly|Wnt receptor signaling pathway	cytoplasm|dendritic spine|neuronal cell body|postsynaptic density|postsynaptic membrane|tight junction	armadillo repeat domain binding|calmodulin binding|estrogen receptor binding|protein complex binding|protein phosphatase 2A binding			skin(1)	1		Ovarian(717;0.0129)|all_hematologic(82;0.21)				TTGAAGTATCAATGACGCTTT	0.333													4	38					0	0	1	0	0		G	37126678	G	G	37126678	2	3	214	1	0	0	0	0	0	0	0	1	15354	126	5	3		3	STRN	2	37126678	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	38370	37126678	206072695	112	106530											
CEBPZ	10153	broad.mit.edu	37	chr2	37441037	37441037	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ttcaaattcttcatcatccaCgtcttctatactttcttcat	9	19	1	12	1	8	0	4	0	4	0	9	0	9	0	1	0	1	0	1	0	3	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:37441037C>T	uc002rpz.2	-	10	2545	c.2515G>A	c.(2515-2517)GTG>ATG	p.V839M		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	839					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				TCATCATCCACGTCTTCTATA	0.289													3	20					0	0	1	0	0		T	37441037	T	T	37441037	3	4	214	1	0	0	0	0	1	0	0	0	3207	536	19	1	677	1	CEBPZ	2	37441037	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	314359	37441037	205758336	113	106531											
CEBPZ	10153	broad.mit.edu	37	chr2	37454737	37454737	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgtctgctgagaattcatTacttggaaaagcaacattaa	15	13	7	6	0	2	1	1	1	1	1	2	3	2	2	0	1	4	2	0	1	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:37454737T>C	uc002rpz.2	-	2	1629	c.1599A>G	c.(1597-1599)GTA>GTG	p.V533V		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	533					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				GAGAATTCATTACTTGGAAAA	0.353													20	122					0	0	1	0	0		C	37454737	C	C	37454737	2	2	214	1	0	0	0	0	0	0	0	1	3207	1741	61	3		3	CEBPZ	2	37454737	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	13700	37454737	205744636	114	106532											
PRKD3	23683	broad.mit.edu	37	chr2	37513366	37513366	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcctttcagtaaccgcttGcagtactgacatatcgtggg	9	11	11	10	2	1	1	1	1	0	0	2	1	1	1	2	2	3	4	2	2	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:37513366G>A	uc002rqd.2	-	5	1419	c.864C>T	c.(862-864)TGC>TGT	p.C288C	PRKD3_uc002rqf.1_Silent_p.C288C	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	288	Phorbol-ester/DAG-type 2.				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction	cytoplasm|membrane|nucleus	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(2)|ovary(1)|central_nervous_system(1)	4		all_hematologic(82;0.21)				GTAACCGCTTGCAGTACTGAC	0.413													10	64					0	0	1	0	0		A	37513366	A	A	37513366	2	1	214	1	0	0	0	0	0	0	0	1	12542	1311	46	2		2	PRKD3	2	37513366	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	58629	37513366	205686007	115	106533											
PREPL	9581	broad.mit.edu	37	chr2	44586851	44586851	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaataatttggtcttctgctGcatgatatcaaagtccctgg	11	14	8	8	0	3	1	1	1	2	0	4	1	4	1	1	2	2	2	1	2	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:44586851G>A	uc002ruf.2	-	1	39	c.4C>T	c.(4-6)CAG>TAG	p.Q2*	PREPL_uc002rug.2_Nonsense_Mutation_p.Q2*|PREPL_uc002ruh.2_Nonsense_Mutation_p.Q2*|PREPL_uc010fax.2_Nonsense_Mutation_p.Q2*|PREPL_uc002rui.3_Intron|PREPL_uc002ruj.1_Intron|PREPL_uc002ruk.1_Nonsense_Mutation_p.Q2*|C2orf34_uc002rum.2_5'Flank|C2orf34_uc002rul.2_5'Flank	NM_006036	NP_006027	Q4J6C6	PPCEL_HUMAN	prolyl endopeptidase-like isoform C	2					proteolysis	cytosol	serine-type endopeptidase activity			ovary(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)				GTCTTCTGCTGCATGATATCA	0.398													7	56					0	0	1	0	0		A	44586851	A	A	44586851	4	1	214	1	0	0	0	0	0	1	0	0	12497	1328	46	2	2235	2	PREPL	2	44586851	Nonsense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	7073485	44586851	198612522	116	106534											
NRXN1	9378	broad.mit.edu	37	chr2	51253569	51253569	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttggtcattgtcatgtaAcagcaccggcaaaacacact	12	10	7	12	1	2	0	2	0	0	0	3	0	3	0	2	2	3	3	2	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:51253569A>C	uc010fbq.2	-	3	2288	c.811T>G	c.(811-813)TTA>GTA	p.L271V	NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxd.1_Intron	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TTGTCATGTAACAGCACCGGC	0.373													3	7					0	0	1	0	0		C	51253569	C	C	51253569	3	2	214	1	0	0	0	0	1	0	0	0	10684	40	2	5	4183	5	NRXN1	2	51253569	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	6666718	51253569	191945804	117	106535											
ASB3	51130	broad.mit.edu	37	chr2	53992602	53992602	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cccctgttatcagcaacatcGacacttcggccctttttgag	8	12	7	14	2	1	1	1	1	0	0	3	2	1	1	3	1	2	2	3	1	2	4	rs147895055		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:53992602G>C	uc002rxg.1	-	2	243	c.108C>G	c.(106-108)GTC>GTG	p.V36V	ASB3_uc002rxh.1_Intron|ASB3_uc002rxi.3_Silent_p.V74V|ASB3_uc010yoo.1_Silent_p.V36V|CHAC2_uc002rxk.1_5'Flank|uc002rxj.1_5'Flank	NM_016115	NP_057199	Q9Y575	ASB3_HUMAN	ankyrin repeat and SOCS box-containing protein 3	36	ANK 1.				intracellular signal transduction					ovary(1)|kidney(1)	2			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			CAGCAACATCGACACTTCGGC	0.428													22	156					0	0	1	0	0		C	53992602	C	C	53992602	2	2	214	1	0	0	0	0	0	0	0	1	1025	1045	37	5		5	ASB3	2	53992602	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2739033	53992602	189206771	118	106536											
PNPT1	87178	broad.mit.edu	37	chr2	55908054	55908054	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gctaacagattacacagaacCtggtaaaagggaaaaaattt	19	8	8	6	0	0	2	0	0	0	2	0	3	0	3	1	2	3	2	1	2	8	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:55908054C>A	uc002rzf.2	-	6	507	c.454_splice	c.e6-1	p.V152_splice	PNPT1_uc002rzg.2_Splice_Site	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1						mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			TACACAGAACCTGGTAAAAGG	0.299													4	73					0.150653	0.151893	1	1	0		A	55908054	A	A	55908054	5	1	214	1	0	0	0	0	0	0	1	0	12192	695	24	5	1990	5	PNPT1	2	55908054	Splice_Site	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1915452	55908054	187291319	119	106537											
BCL11A	53335	broad.mit.edu	37	chr2	60688122	60688122	+	Missense_Mutation	SNP	A	G	G	1	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	tcgcggccgggggcaggtcgAactccttctcgagcttgatg	5	9	15	12	5	1	1	0	1	1	0	5	3	2	1	2	4	2	2	2	4	1	2	rs146235767		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:60688122A>G	uc002sae.1	-	4	2153	c.1925T>C	c.(1924-1926)TTC>TCC	p.F642S	BCL11A_uc002sab.2_Missense_Mutation_p.F642S|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.F311S|BCL11A_uc010ypj.1_Missense_Mutation_p.F608S|BCL11A_uc002sad.1_Missense_Mutation_p.F490S|BCL11A_uc002saf.1_Missense_Mutation_p.F608S	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	642					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			GGGCAGGTCGAACTCCTTCTC	0.662			T	IGH@	B-CLL								4	49					0	0	1	0	0		G	60688122	G	G	60688122	3	3	214	1	0	0	0	0	1	0	0	0	1364	246	9	3	692	3	BCL11A	2	60688122	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4780068	60688122	182511251	120	106538											
B3GNT2	10678	broad.mit.edu	37	chr2	62450292	62450292	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggggggttcctctactccGgccacctggccctgaggctg	4	8	15	14	1	1	1	0	1	1	0	3	2	3	1	5	6	1	2	5	6	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:62450292G>A	uc002sbs.2	+	2	1175	c.937G>A	c.(937-939)GGC>AGC	p.G313S		NM_006577	NP_006568	Q9NY97	B3GN2_HUMAN	UDP-GlcNAc:betaGal	313	Lumenal (Potential).					Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			ovary(1)	1	Lung NSC(7;0.031)|all_lung(7;0.0634)		LUSC - Lung squamous cell carcinoma(7;3.55e-06)|Epithelial(17;0.0963)			CCTCTACTCCGGCCACCTGGC	0.537													13	86					0	0	1	0	0		A	62450292	A	A	62450292	3	1	214	1	0	0	0	0	1	0	0	0	1258	1116	39	1	939	1	B3GNT2	2	62450292	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1762170	62450292	180749081	121	106539											
EHBP1	23301	broad.mit.edu	37	chr2	63091876	63091876	+	Silent	SNP	T	C	C	0	1	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	tattttatagaacctatcacTgaaacagcttcacctagaaa	16	12	4	9	0	2	3	2	1	0	2	2	3	2	3	2	0	3	1	2	0	8	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:63091876T>C	uc002sby.2	+	10	1355	c.873T>C	c.(871-873)ACT>ACC	p.T291T	EHBP1_uc010fcp.2_Silent_p.T256T|EHBP1_uc002sbx.2_Silent_p.T256T|EHBP1_uc002sbz.2_Silent_p.T256T|EHBP1_uc002scb.2_Silent_p.T256T	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	EH domain binding protein 1 isoform 1	291						cytoplasm|membrane				ovary(1)|breast(1)	2	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			AACCTATCACTGAAACAGCTT	0.303									Hereditary_Prostate_Cancer				18	61					0	0	1	0	0		C	63091876	C	C	63091876	2	2	214	1	0	0	0	0	0	0	0	1	4981	1567	55	3		3	EHBP1	2	63091876	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	641584	63091876	180107497	122	106540											
ATP6V1B1	525	broad.mit.edu	37	chr2	71185198	71185198	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgcccagtatgcggagatcgTccacttcaccctcccagatg	8	9	9	15	2	1	2	1	0	0	2	4	3	3	2	4	1	2	1	4	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:71185198T>C	uc002shj.2	+	3	284	c.197T>C	c.(196-198)GTC>GCC	p.V66A	ATP6V1B1_uc002shi.1_Missense_Mutation_p.V66A|ATP6V1B1_uc010fdv.2_Missense_Mutation_p.V66A|ATP6V1B1_uc010fdw.2_RNA|ATP6V1B1_uc010fdx.2_Missense_Mutation_p.V24A	NM_001692	NP_001683	P15313	VATB1_HUMAN	ATPase, H+ transporting, lysosomal 56/58kDa, V1	66					ATP hydrolysis coupled proton transport|calcium ion homeostasis|cellular iron ion homeostasis|excretion|inner ear morphogenesis|insulin receptor signaling pathway|ossification|pH reduction|sensory perception of sound|transferrin transport	apical plasma membrane|basolateral plasma membrane|cytosol|endomembrane system|lateral plasma membrane|microvillus|proton-transporting V-type ATPase, V1 domain|vacuolar proton-transporting V-type ATPase complex	ATP binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism			skin(1)	1						GCGGAGATCGTCCACTTCACC	0.612													7	23					0	0	1	0	0		C	71185198	C	C	71185198	3	2	214	1	0	0	0	0	1	0	0	0	1179	1667	58	3	207	3	ATP6V1B1	2	71185198	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	8093322	71185198	172014175	123	106541											
CYP26B1	56603	broad.mit.edu	37	chr2	72371240	72371240	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctcgcccatgaggatcttgcGcacgttctccgcgccggtca	5	9	11	16	6	3	1	1	1	2	0	5	2	3	2	3	2	1	2	3	2	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:72371240G>A	uc002sih.1	-	2	307	c.307C>T	c.(307-309)CGC>TGC	p.R103C	CYP26B1_uc010yra.1_Missense_Mutation_p.R86C|CYP26B1_uc010yrb.1_Intron	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	103					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						AGGATCTTGCGCACGTTCTCC	0.622													17	87					0	0	1	0	0		A	72371240	A	A	72371240	3	1	214	1	0	0	0	0	1	0	0	0	4159	1087	38	1	1251	1	CYP26B1	2	72371240	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1186042	72371240	170828133	124	106542											
ALMS1	7840	broad.mit.edu	37	chr2	73777450	73777450	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtgctaggcacaagagatGatgacctctcagccactgtt	11	9	11	10	0	1	3	1	2	1	1	2	4	1	3	2	2	2	3	2	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:73777450G>A	uc002sje.1	+	15	10078	c.9967G>A	c.(9967-9969)GAT>AAT	p.D3323N	ALMS1_uc002sjf.1_Missense_Mutation_p.D3279N|ALMS1_uc002sjg.2_Missense_Mutation_p.D2709N|ALMS1_uc002sjh.1_Missense_Mutation_p.D2709N|ALMS1_uc010fev.1_Intron	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3321					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						CACAAGAGATGATGACCTCTC	0.443													6	92					0	0	1	0	0		A	73777450	A	A	73777450	3	1	214	1	0	0	0	0	1	0	0	0	535	1290	45	4	10011	4	ALMS1	2	73777450	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1406210	73777450	169421923	125	106543											
SEMA4F	10505	broad.mit.edu	37	chr2	74884987	74884987	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctctgacccccaggacgaatGtcacaattttgtccagattc	10	11	7	13	1	2	2	1	1	1	1	4	4	3	3	3	1	0	0	3	1	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:74884987G>A	uc002sna.1	+	4	476	c.365G>A	c.(364-366)TGT>TAT	p.C122Y	SEMA4F_uc010ysb.1_Intron|SEMA4F_uc010ffq.1_Intron|SEMA4F_uc010ffr.1_5'UTR|SEMA4F_uc002snb.1_Intron|SEMA4F_uc002snc.1_Intron	NM_004263	NP_004254	O95754	SEM4F_HUMAN	semaphorin W precursor	122	Sema.|Extracellular (Potential).				cell-cell signaling	endoplasmic reticulum|integral to plasma membrane	receptor activity			ovary(2)|pancreas(1)|skin(1)	4						CAGGACGAATGTCACAATTTT	0.502													10	141					0	0	1	0	0		A	74884987	A	A	74884987	3	1	214	1	0	0	0	0	1	0	0	0	14060	1377	48	4	379	4	SEMA4F	2	74884987	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1107537	74884987	168314386	126	106544											
HK2	3099	broad.mit.edu	37	chr2	75100464	75100464	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtggaaggcagagacgttgTggctctgatccggaaggcca	10	7	16	8	2	1	2	0	1	1	1	2	5	2	4	2	5	0	3	2	5	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:75100464T>C	uc002snd.2	+	5	2483	c.557T>C	c.(556-558)GTG>GCG	p.V186A		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	186	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						AGAGACGTTGTGGCTCTGATC	0.552													13	103					0	0	1	0	0		C	75100464	C	C	75100464	3	2	214	1	0	0	0	0	1	0	0	0	7207	1696	59	3	575	3	HK2	2	75100464	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	215477	75100464	168098909	127	106545											
HK2	3099	broad.mit.edu	37	chr2	75112659	75112659	+	Silent	SNP	T	G	G	0	1	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	acaaaaggcttcaaggcatcTggctgcgagggcgaggacgt	11	6	15	9	3	2	0	1	0	1	0	2	3	2	1	0	5	1	3	0	5	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:75112659T>G	uc002snd.2	+	13	3804	c.1878T>G	c.(1876-1878)TCT>TCG	p.S626S		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	626	Catalytic.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						TCAAGGCATCTGGCTGCGAGG	0.557													13	71					0	0	1	0	0		G	75112659	G	G	75112659	2	3	214	1	0	0	0	0	0	0	0	1	7207	1567	55	5		5	HK2	2	75112659	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	12195	75112659	168086714	128	106546											
USP39	10713	broad.mit.edu	37	chr2	85848665	85848665	+	Silent	SNP	T	C	C	0	1	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	atctccctctcacacatcaaTgcttatgcctgtctggtgtg	7	14	7	13	0	4	0	2	0	3	0	6	0	4	0	2	1	2	1	2	1	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:85848665T>C	uc002sqe.2	+	3	432	c.396T>C	c.(394-396)AAT>AAC	p.N132N	USP39_uc002sqb.2_5'UTR|USP39_uc010ysu.1_Silent_p.N54N|USP39_uc010ysv.1_Intron|USP39_uc010fgn.1_Silent_p.N132N|USP39_uc002sqf.2_Silent_p.N132N|USP39_uc002sqg.2_Silent_p.N132N|USP39_uc010fgo.2_Silent_p.N132N	NM_006590	NP_006581	Q53GS9	SNUT2_HUMAN	ubiquitin specific protease 39	132	UBP-type.				spliceosome assembly|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)	1						CACACATCAATGCTTATGCCT	0.373													20	73					0	0	1	0	0		C	85848665	C	C	85848665	2	2	214	1	0	0	0	0	0	0	0	1	17096	1461	51	3		3	USP39	2	85848665	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	10736006	85848665	157350708	129	106547											
ASTL	431705	broad.mit.edu	37	chr2	96798424	96798424	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgggcgccagggagaccacCtgcatccctccactgcgccc	6	5	12	18	2	0	1	0	0	0	1	2	2	2	1	6	2	2	1	6	2	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:96798424C>A	uc010yui.1	-	6	492	c.492G>T	c.(490-492)CAG>CAT	p.Q164H		NM_001002036	NP_001002036	Q6HA08	ASTL_HUMAN	astacin-like metalloendopeptidase precursor	164					proteolysis		metalloendopeptidase activity|zinc ion binding				0						GGGAGACCACCTGCATCCCTC	0.637													8	90					0.00448238	0.00463918	1	1	0		A	96798424	A	A	96798424	3	1	214	1	0	0	0	0	1	0	0	0	1064	680	24	5	818	5	ASTL	2	96798424	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	10949759	96798424	146400949	130	106548											
ZAP70	7535	broad.mit.edu	37	chr2	98340736	98340736	+	Silent	SNP	A	G	G	1	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	ggcggcaaagcgcactgtggAccggcagagctctgcgagtt	8	6	16	11	4	1	1	0	0	1	1	1	3	1	2	1	4	3	5	1	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:98340736A>G	uc002syd.1	+	3	444	c.237A>G	c.(235-237)GGA>GGG	p.G79G	ZAP70_uc010yvf.1_Silent_p.G79G|ZAP70_uc002sye.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	79	SH2 1.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						CGCACTGTGGACCGGCAGAGC	0.682													3	11					0	0	1	0	0		G	98340736	G	G	98340736	2	3	214	1	0	0	0	0	0	0	0	1	17540	262	10	3		3	ZAP70	2	98340736	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1542312	98340736	144858637	131	106549											
GPR45	11250	broad.mit.edu	37	chr2	105858502	105858502	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcatcatcgtgtaccagaggCcggctatgcgctcggccatc	7	8	12	14	4	1	1	1	0	0	1	4	1	1	1	3	3	2	4	3	3	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:105858502C>T	uc002tco.1	+	1	303	c.187C>T	c.(187-189)CCG>TCG	p.P63S		NM_007227	NP_009158	Q9Y5Y3	GPR45_HUMAN	G protein-coupled receptor 45	63	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|breast(1)|central_nervous_system(1)	3						GTACCAGAGGCCGGCTATGCG	0.622													17	148					0	0	1	0	0		T	105858502	T	T	105858502	3	4	214	1	0	0	0	0	1	0	0	0	6711	739	26	2	189	2	GPR45	2	105858502	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7517766	105858502	137340871	132	106550											
RGPD3	653489	broad.mit.edu	37	chr2	107032334	107032334	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gctccataaggactgcattgGttgcctctatttcccgaagc	8	12	9	12	1	1	0	0	0	1	0	3	2	3	1	3	2	3	3	3	2	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:107032334G>T	uc010ywi.1	-	21	5093	c.5036C>A	c.(5035-5037)ACC>AAC	p.T1679N		NM_001144013	NP_001137485	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	1679					intracellular transport		binding			ovary(1)	1						GACTGCATTGGTTGCCTCTAT	0.438													7	170					2.80697e-09	3.08767e-09	1	1	0		T	107032334	T	T	107032334	3	4	214	1	0	0	0	0	1	0	0	0	13312	1261	44	5	252	5	RGPD3	2	107032334	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1173832	107032334	136167039	133	106551											
RANBP2	5903	broad.mit.edu	37	chr2	109383234	109383234	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgatgcgaagagaacaagTactaaaagtgtgtgctaatc	15	9	11	6	1	0	2	0	1	0	1	1	4	0	2	0	0	4	3	0	0	7	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:109383234T>C	uc002tem.3	+	20	6365	c.6239T>C	c.(6238-6240)GTA>GCA	p.V2080A		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2080	RanBD1 2.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AGAGAACAAGTACTAAAAGTG	0.428													54	390					0	0	1	0	0		C	109383234	C	C	109383234	3	2	214	1	0	0	0	0	1	0	0	0	13053	1638	57	3	6317	3	RANBP2	2	109383234	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2350900	109383234	133816139	134	106552											
BUB1	699	broad.mit.edu	37	chr2	111423901	111423901	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctccaccacctgatgcaacTtcttatgaagttcatccatt	10	14	4	13	0	3	2	1	2	2	0	5	2	4	2	4	0	2	2	4	0	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:111423901T>G	uc002tgc.2	-	9	1008	c.896A>C	c.(895-897)AAG>ACG	p.K299T	BUB1_uc010yxh.1_Missense_Mutation_p.K279T|BUB1_uc010fkb.2_Missense_Mutation_p.K299T|BUB1_uc002tgd.2_Missense_Mutation_p.K299T	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	299					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		CTGATGCAACTTCTTATGAAG	0.428													9	34					0	0	1	0	0		G	111423901	G	G	111423901	3	3	214	1	0	0	0	0	1	0	0	0	1573	1609	56	5	2429	5	BUB1	2	111423901	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2040667	111423901	131775472	135	106553											
CLASP1	23332	broad.mit.edu	37	chr2	122125256	122125256	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catctgagtaggggtacgggTtgtagtctcgcgcccgcggc	5	9	16	11	5	2	1	0	1	2	0	3	1	2	1	1	4	1	4	1	4	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:122125256T>C	uc002tnc.2	-	34	4184	c.3794A>G	c.(3793-3795)AAC>AGC	p.N1265S	CLASP1_uc010yyv.1_Missense_Mutation_p.N311S|CLASP1_uc002tmz.2_Missense_Mutation_p.N350S|CLASP1_uc002tna.2_Missense_Mutation_p.N311S|CLASP1_uc010yyw.1_RNA|CLASP1_uc002tnb.2_RNA|CLASP1_uc010yyx.1_RNA|CLASP1_uc010yyy.1_RNA|CLASP1_uc010yyz.1_Missense_Mutation_p.N1206S|CLASP1_uc010yza.1_Missense_Mutation_p.N1198S|CLASP1_uc010yzb.1_RNA|CLASP1_uc010yzc.1_RNA|CLASP1_uc002tmy.2_Missense_Mutation_p.N101S|CLASP1_uc002tnf.2_Missense_Mutation_p.N167S	NM_015282	NP_056097	Q7Z460	CLAP1_HUMAN	CLIP-associating protein 1 isoform 1	1265	Localization to kinetochores.|Interaction with PHLDB2 and RSN.|Interaction with CLIP2 (By similarity).				axon guidance|cell division|establishment or maintenance of cell polarity|exit from mitosis|G2/M transition of mitotic cell cycle|microtubule anchoring|microtubule bundle formation|microtubule nucleation|microtubule organizing center organization|mitotic prometaphase|negative regulation of microtubule depolymerization	centrosomal corona|condensed chromosome kinetochore|cortical microtubule cytoskeleton|cytoplasmic microtubule|cytosol|Golgi apparatus|kinetochore microtubule	kinetochore binding|microtubule plus-end binding			ovary(1)|central_nervous_system(1)	2	Renal(3;0.0496)					GGGGTACGGGTTGTAGTCTCG	0.592													13	100					0	0	1	0	0		C	122125256	C	C	122125256	3	2	214	1	0	0	0	0	1	0	0	0	3457	1725	60	3	846	3	CLASP1	2	122125256	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	10701355	122125256	121074117	136	106554											
LCT	3938	broad.mit.edu	37	chr2	136566638	136566638	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctttgatgacggcgtgggcTatcctatatggtgcccagcc	6	11	13	11	2	0	2	0	2	0	0	1	2	1	2	3	3	2	2	3	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:136566638T>G	uc002tuu.1	-	8	3290	c.3279A>C	c.(3277-3279)ATA>ATC	p.I1093I		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	1093	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		CGGCGTGGGCTATCCTATATG	0.547													14	54					0	0	1	0	0		G	136566638	G	G	136566638	2	3	214	1	0	0	0	0	0	0	0	1	8709	1512	53	5		5	LCT	2	136566638	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	14441382	136566638	106632735	137	106555											
LCT	3938	broad.mit.edu	37	chr2	136567189	136567189	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ataagcggaagaggacacgcCccacagaaagtcatcccgaa	16	3	10	12	3	1	2	1	0	0	2	2	5	2	4	3	2	1	0	3	2	4	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:136567189C>T	uc002tuu.1	-	8	2739	c.2728G>A	c.(2728-2730)GGC>AGC	p.G910S		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	910	3.|Extracellular (Potential).|4 X approximate repeats.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity	p.G910V(1)		ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		GAGGACACGCCCCACAGAAAG	0.532													11	85					0	0	1	0	0		T	136567189	T	T	136567189	3	4	214	1	0	0	0	0	1	0	0	0	8709	623	22	4	3095	4	LCT	2	136567189	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	551	136567189	106632184	138	106556											
SPOPL	339745	broad.mit.edu	37	chr2	139316684	139316684	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgtctagcagaagatttaggTaatctctgggaaaacacaag	15	9	10	7	1	2	2	0	0	2	2	3	3	2	3	0	2	2	2	0	2	7	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:139316684T>A	uc002tvh.2	+	6	973	c.573T>A	c.(571-573)GGT>GGA	p.G191G		NM_001001664	NP_001001664	Q6IQ16	SPOPL_HUMAN	speckle-type POZ protein-like	191						nucleus				skin(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(221;0.0296)		AAGATTTAGGTAATCTCTGGG	0.368													6	119					0	0	1	0	0		A	139316684	A	A	139316684	2	1	214	1	0	0	0	0	0	0	0	1	15110	1625	57	5		5	SPOPL	2	139316684	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2749495	139316684	103882689	139	106557											
NXPH2	11249	broad.mit.edu	37	chr2	139428686	139428686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgggtcaaagttgcacagggCggtctttttcgcccgatctg	6	12	13	10	3	3	0	1	0	2	0	4	1	3	0	1	3	1	2	1	3	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:139428686C>T	uc002tvi.2	-	2	601	c.601G>A	c.(601-603)GCC>ACC	p.A201T		NM_007226	NP_009157	O95156	NXPH2_HUMAN	neurexophilin 2 precursor	201	V (Cys-rich).				neuropeptide signaling pathway	extracellular region				ovary(3)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(221;0.101)		TTGCACAGGGCGGTCTTTTTC	0.468													6	27					0	0	1	0	0		T	139428686	T	T	139428686	3	4	214	1	0	0	0	0	1	0	0	0	10810	768	27	1	197	1	NXPH2	2	139428686	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	112002	139428686	103770687	140	106558											
LRP1B	53353	broad.mit.edu	37	chr2	141055405	141055405	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	catctgtctccggtgtattcCggctggcagtggcagtaagg	6	11	14	10	2	2	0	0	0	2	0	4	0	3	0	2	5	0	5	2	5	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:141055405C>T	uc002tvj.1	-	84	13911	c.12939G>A	c.(12937-12939)CCG>CCA	p.P4313P		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4313	Extracellular (Potential).|EGF-like 12.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CGGTGTATTCCGGCTGGCAGT	0.448										TSP Lung(27;0.18)			42	236					0	0	1	0	0		T	141055405	T	T	141055405	2	4	214	1	0	0	0	0	0	0	0	1	8973	639	23	1		1	LRP1B	2	141055405	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1626719	141055405	102143968	141	106559											
LRP1B	53353	broad.mit.edu	37	chr2	141055459	141055459	+	Silent	SNP	A	G	G	1	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	gtcacaatgcaggttcctccAttttgacaaaaatcctcaca	13	11	5	12	0	2	1	2	1	0	0	5	1	5	1	3	1	1	2	3	1	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:141055459A>G	uc002tvj.1	-	84	13857	c.12885T>C	c.(12883-12885)AAT>AAC	p.N4295N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4295	Extracellular (Potential).|EGF-like 12.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		AGGTTCCTCCATTTTGACAAA	0.488										TSP Lung(27;0.18)			22	191					0	0	1	0	0		G	141055459	G	G	141055459	2	3	214	1	0	0	0	0	0	0	0	1	8973	214	8	3		3	LRP1B	2	141055459	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	54	141055459	102143914	142	106560											
LRP1B	53353	broad.mit.edu	37	chr2	141232835	141232835	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tcttggtttctatgacaacaCtctgattggttccatccatt	8	17	6	10	0	3	2	0	2	3	0	5	2	5	2	2	2	1	2	2	2	2	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:141232835C>T	uc002tvj.1	-	60	10469	c.9497G>A	c.(9496-9498)AGT>AAT	p.S3166N		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	3166	Extracellular (Potential).|LDL-receptor class B 30.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		TATGACAACACTCTGATTGGT	0.373										TSP Lung(27;0.18)			9	80					0	0	1	0	0		T	141232835	T	T	141232835	3	4	214	1	0	0	0	0	1	0	0	0	8973	565	20	4	4430	4	LRP1B	2	141232835	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	177376	141232835	101966538	143	106561											
LRP1B	53353	broad.mit.edu	37	chr2	141253204	141253204	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tctgtacagaggcacttgtaAgtcccgtatgtattgatgca	10	13	10	8	1	1	2	0	1	1	1	2	2	2	2	1	1	2	6	1	1	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:141253204A>C	uc002tvj.1	-	56	9936	c.8964T>G	c.(8962-8964)ACT>ACG	p.T2988T		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2988	Extracellular (Potential).|EGF-like 7.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GGCACTTGTAAGTCCCGTATG	0.448										TSP Lung(27;0.18)			11	100					0	0	1	0	0		C	141253204	C	C	141253204	2	2	214	1	0	0	0	0	0	0	0	1	8973	59	3	5		5	LRP1B	2	141253204	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	20369	141253204	101946169	144	106562											
LRP1B	53353	broad.mit.edu	37	chr2	141641534	141641534	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcctgctatccagtcgactgTcaggccttctggagtagcca	7	11	10	13	1	2	0	1	0	1	0	5	2	4	1	4	2	2	2	4	2	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:141641534T>C	uc002tvj.1	-	25	4993	c.4021A>G	c.(4021-4023)ACA>GCA	p.T1341A	LRP1B_uc010fnl.1_Missense_Mutation_p.T523A	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1341	Extracellular (Potential).|LDL-receptor class B 9.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		CAGTCGACTGTCAGGCCTTCT	0.473										TSP Lung(27;0.18)			23	126					0	0	1	0	0		C	141641534	C	C	141641534	3	2	214	1	0	0	0	0	1	0	0	0	8973	1667	58	3	10046	3	LRP1B	2	141641534	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	388330	141641534	101557839	145	106563											
GALNT5	11227	broad.mit.edu	37	chr2	158114806	158114806	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaaattttttacagcagcaTaaaagagatgaaacctcccc	18	9	5	9	0	0	2	0	1	0	1	1	3	1	2	3	0	4	2	3	0	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:158114806T>C	uc002tzg.2	+	1	467	c.212T>C	c.(211-213)ATA>ACA	p.I71T	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	71	Lumenal (Potential).				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						TACAGCAGCATAAAAGAGATG	0.473													10	161					0	0	1	0	0		C	158114806	C	C	158114806	3	2	214	1	0	0	0	0	1	0	0	0	6231	1406	49	3	214	3	GALNT5	2	158114806	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	16473272	158114806	85084567	146	106564											
SCN2A	6326	broad.mit.edu	37	chr2	166152444	166152444	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagagaaagctaagagaccCaaacaggaacgcaaggatga	20	2	12	7	1	0	3	0	1	0	2	0	8	0	5	1	2	3	2	1	2	6	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:166152444C>A	uc002udc.2	+	2	401	c.111C>A	c.(109-111)CCC>CCA	p.P37P	SCN2A_uc002udd.2_Silent_p.P37P|SCN2A_uc002ude.2_Silent_p.P37P	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	37					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	CTAAGAGACCCAAACAGGAAC	0.473													4	21					0.00909568	0.00930166	1	1	0		A	166152444	A	A	166152444	2	1	214	1	0	0	0	0	0	0	0	1	13941	581	21	5		5	SCN2A	2	166152444	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8037638	166152444	77046929	147	106565											
SCN9A	6335	broad.mit.edu	37	chr2	167056026	167056026	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agtcgggtggcttactgttaAgaataggtgctagcaatcca	11	11	12	7	1	0	1	0	0	0	1	2	1	1	1	1	3	3	4	1	3	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:167056026A>G	uc010fpl.2	-	27	5431	c.5090T>C	c.(5089-5091)CTT>CCT	p.L1697P	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1708	IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	CTTACTGTTAAGAATAGGTGC	0.413													38	239					0	0	1	0	0		G	167056026	G	G	167056026	3	3	214	1	0	0	0	0	1	0	0	0	13950	72	3	3	847	3	SCN9A	2	167056026	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	903582	167056026	76143347	148	106566											
XIRP2	129446	broad.mit.edu	37	chr2	168107435	168107435	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccttctccacccaggagtcGctctgaacaacttgtcagac	9	9	7	16	1	3	2	1	1	2	1	5	3	3	3	3	1	2	1	3	1	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:168107435G>A	uc002udx.2	+	8	9551	c.9533G>A	c.(9532-9534)CGC>CAC	p.R3178H	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.R3003H|XIRP2_uc010fpq.2_Missense_Mutation_p.R2956H|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3003					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						CCCAGGAGTCGCTCTGAACAA	0.493													19	99					0	0	1	0	0		A	168107435	A	A	168107435	3	1	214	1	0	0	0	0	1	0	0	0	17456	1087	38	1	9563	1	XIRP2	2	168107435	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1051409	168107435	75091938	149	106567											
TTN	7273	broad.mit.edu	37	chr2	179400073	179400073	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattacccggaactggtaacTtgtttttccaaataagttga	12	15	7	7	1	0	1	0	1	0	0	1	2	1	2	2	2	3	3	2	2	6	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:179400073T>G	uc010zfg.1	-	307	93789	c.93565A>C	c.(93565-93567)AGT>CGT	p.S31189R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S24884R|TTN_uc010zfi.1_Missense_Mutation_p.S24817R|TTN_uc010zfj.1_Missense_Mutation_p.S24692R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32116							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AACTGGTAACTTGTTTTTCCA	0.418													19	108					0	0	1	0	0		G	179400073	G	G	179400073	3	3	214	1	0	0	0	0	1	0	0	0	16761	1609	56	5	6730	5	TTN	2	179400073	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	11292638	179400073	63799300	150	106568											
TTN	7273	broad.mit.edu	37	chr2	179442835	179442835	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttaatcctgtcactttaaAgtctctcatccttatcggag	10	15	6	10	1	3	0	2	0	1	0	7	1	5	1	2	1	0	1	2	1	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:179442835A>C	uc010zfg.1	-	271	60927	c.60703T>G	c.(60703-60705)TTT>GTT	p.F20235V	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.F13930V|TTN_uc010zfi.1_Missense_Mutation_p.F13863V|TTN_uc010zfj.1_Missense_Mutation_p.F13738V|uc002umv.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	21162							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTCACTTTAAAGTCTCTCATC	0.433													13	86					0	0	1	0	0		C	179442835	C	C	179442835	3	2	214	1	0	0	0	0	1	0	0	0	16761	72	3	5	39736	5	TTN	2	179442835	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	42762	179442835	63756538	151	106569											
TTN	7273	broad.mit.edu	37	chr2	179466741	179466741	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttcctaccttcattgctttCtttgcctttccatcaaattc	6	20	2	13	0	3	0	2	0	1	0	6	0	5	0	4	0	3	1	4	0	2	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:179466741C>G	uc010zfg.1	-	233	47777	c.47553G>C	c.(47551-47553)AAG>AAC	p.K15851N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K9546N|TTN_uc010zfi.1_Missense_Mutation_p.K9479N|TTN_uc010zfj.1_Missense_Mutation_p.K9354N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16778							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCATTGCTTTCTTTGCCTTTC	0.398													10	117					0	0	1	0	0		G	179466741	G	G	179466741	3	3	214	1	0	0	0	0	1	0	0	0	16761	912	32	5	52752	5	TTN	2	179466741	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	23906	179466741	63732632	152	106570											
TTN	7273	broad.mit.edu	37	chr2	179584494	179584494	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgttccagtcactacacactCtaatgcaaaaggatttccag	13	11	6	11	0	2	0	1	0	1	0	4	1	4	1	2	1	2	2	2	1	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:179584494C>A	uc010zfg.1	-	79	20217	c.19993G>T	c.(19993-19995)GAG>TAG	p.E6665*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.E3326*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7592							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			ACTACACACTCTAATGCAAAA	0.393													4	63					0.000602214	0.000630122	1	1	0		A	179584494	A	A	179584494	4	1	214	1	0	0	0	0	0	1	0	0	16761	922	32	5	80928	5	TTN	2	179584494	Nonsense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	117753	179584494	63614879	153	106571											
TTN	7273	broad.mit.edu	37	chr2	179614274	179614274	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agctggataatcataaaaatGtgcccttacagattctccct	13	12	6	10	0	2	1	1	0	1	1	3	2	2	2	2	1	3	1	2	1	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:179614274G>A	uc002unb.2	-	46	13077	c.12853C>T	c.(12853-12855)CAT>TAT	p.H4285Y	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TCATAAAAATGTGCCCTTACA	0.358													10	59					0	0	1	0	0		A	179614274	A	A	179614274	3	1	214	1	0	0	0	0	1	0	0	0	16761	1377	48	4	97444	4	TTN	2	179614274	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	29780	179614274	63585099	154	106572											
TTN	7273	broad.mit.edu	37	chr2	179616598	179616598	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctaaaacatatttaaatgtaAgtttctgggtaaaagaaggc	17	12	8	4	0	1	1	0	0	1	1	1	1	1	1	0	2	1	3	0	2	9	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:179616598A>C	uc002unb.2	-	46	10753	c.10529T>G	c.(10528-10530)CTT>CGT	p.L3510R	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTTAAATGTAAGTTTCTGGGT	0.378													23	134					0	0	1	0	0		C	179616598	C	C	179616598	3	2	214	1	0	0	0	0	1	0	0	0	16761	72	3	5	99768	5	TTN	2	179616598	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2324	179616598	63582775	155	106573											
TTN	7273	broad.mit.edu	37	chr2	179643977	179643977	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tttggtaatggatatccagaCatcttgcaatgaaaagtgac	14	12	9	6	0	1	3	0	2	1	1	2	4	2	4	1	2	1	2	1	2	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:179643977C>T	uc010zfg.1	-	23	4166	c.3942G>A	c.(3940-3942)ATG>ATA	p.M1314I	TTN_uc010zfh.1_Missense_Mutation_p.M1268I|TTN_uc010zfi.1_Missense_Mutation_p.M1268I|TTN_uc010zfj.1_Missense_Mutation_p.M1268I|TTN_uc002unb.2_Missense_Mutation_p.M1314I|uc002unc.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1314							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GATATCCAGACATCTTGCAAT	0.313													5	58					0	0	1	0	0		T	179643977	T	T	179643977	3	4	214	1	0	0	0	0	1	0	0	0	16761	478	17	4	107406	4	TTN	2	179643977	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	27379	179643977	63555396	156	106574											
NCKAP1	10787	broad.mit.edu	37	chr2	183792922	183792922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	tgcagcaatctggttgatggCtttggccaagcaatgtatgt	9	13	12	7	0	1	1	0	1	1	0	1	1	1	1	1	3	3	6	1	3	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:183792922C>T	uc002upc.2	-	29	3505	c.3103G>A	c.(3103-3105)GCC>ACC	p.A1035T	NCKAP1_uc002upb.2_Missense_Mutation_p.A1041T	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	1035					apoptosis|central nervous system development	integral to membrane|lamellipodium membrane	protein binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0942)|Epithelial(96;0.209)			TGGTTGATGGCTTTGGCCAAG	0.368													7	100					0	0	1	0	0		T	183792922	T	T	183792922	3	4	214	1	0	0	0	0	1	0	0	0	10240	797	28	2	295	2	NCKAP1	2	183792922	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4148945	183792922	59406451	157	106575											
GULP1	51454	broad.mit.edu	37	chr2	189406013	189406013	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aagattctgagtcaaataaaCatttgtgctatgtatttgac	14	15	7	5	0	2	3	1	2	1	1	2	3	2	3	0	0	2	2	0	0	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:189406013C>T	uc010fru.2	+	7	828	c.367C>T	c.(367-369)CAT>TAT	p.H123Y	GULP1_uc002uqc.3_Missense_Mutation_p.H123Y|GULP1_uc002uqd.2_Missense_Mutation_p.H123Y|GULP1_uc010zfw.1_Intron|GULP1_uc002uqe.2_Missense_Mutation_p.H123Y|GULP1_uc002uqf.2_Missense_Mutation_p.H123Y|GULP1_uc002uqg.2_Missense_Mutation_p.H123Y	NM_016315	NP_057399	Q9UBP9	GULP1_HUMAN	GULP, engulfment adaptor PTB domain containing	123	PID.				apoptosis|lipid transport|phagocytosis, engulfment	cytoplasm|intracellular membrane-bounded organelle	signal transducer activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0423)|Epithelial(96;0.158)			GTCAAATAAACATTTGTGCTA	0.363													13	68					0	0	1	0	0		T	189406013	T	T	189406013	3	4	214	1	0	0	0	0	1	0	0	0	6917	478	17	4	385	4	GULP1	2	189406013	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	5613091	189406013	53793360	158	106576											
MFSD6	54842	broad.mit.edu	37	chr2	191353530	191353530	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgccatgatcggaggcgtgtTagtcaattattttggtaaga	10	14	12	5	2	1	2	1	1	0	1	2	3	1	3	1	3	1	2	1	3	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:191353530T>C	uc002urz.2	+	5	2102	c.1778T>C	c.(1777-1779)TTA>TCA	p.L593S	MFSD6_uc010zge.1_Missense_Mutation_p.L55S	NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing	593	Helical; (Potential).				transmembrane transport	integral to membrane				ovary(2)	2						GGAGGCGTGTTAGTCAATTAT	0.433													13	106					0	0	1	0	0		C	191353530	C	C	191353530	3	2	214	1	0	0	0	0	1	0	0	0	9553	1764	61	3	1788	3	MFSD6	2	191353530	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1947517	191353530	51845843	159	106577											
GLS	2744	broad.mit.edu	37	chr2	191775034	191775034	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgctggagcaattgttgtgaCttcactaataaaggtaaaat	14	13	9	5	0	1	1	1	1	0	0	1	2	1	2	0	2	2	4	0	2	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:191775034C>A	uc002usf.2	+	7	1289	c.1025C>A	c.(1024-1026)ACT>AAT	p.T342N	GLS_uc002use.2_Missense_Mutation_p.T342N	NM_014905	NP_055720	O94925	GLSK_HUMAN	glutaminase precursor	342					cellular amino acid biosynthetic process|glutamate secretion|glutamine catabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity			ovary(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.00625)|Epithelial(96;0.0744)|all cancers(119;0.181)		L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	ATTGTTGTGACTTCACTAATA	0.269													3	32					0.150653	0.151893	1	1	0		A	191775034	A	A	191775034	3	1	214	1	0	0	0	0	1	0	0	0	6478	565	20	5	1051	5	GLS	2	191775034	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	421504	191775034	51424339	160	106578											
TMEFF2	23671	broad.mit.edu	37	chr2	192818505	192818505	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcgtacaggaccgggaacaaCgtatagaacactgtagtcct	13	8	10	10	3	0	1	0	0	0	1	2	3	1	3	2	2	4	3	2	2	7	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:192818505C>T	uc002utc.2	-	9	1322	c.928G>A	c.(928-930)GTT>ATT	p.V310I		NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	310	Required for shedding.|Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			CCGGGAACAACGTATAGAACA	0.448													10	67					0	0	1	0	0		T	192818505	T	T	192818505	3	4	214	1	0	0	0	0	1	0	0	0	16039	536	19	1	204	1	TMEFF2	2	192818505	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1043471	192818505	50380868	161	106579											
DNAH7	56171	broad.mit.edu	37	chr2	196837116	196837116	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acatactcgatgaggaaggcGaggcagtttttggaatccac	12	9	12	8	2	0	1	0	1	0	0	2	5	1	3	1	4	1	2	1	4	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:196837116G>A	uc002utj.3	-	16	2009	c.1908C>T	c.(1906-1908)CTC>CTT	p.L636L		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	636	Stem (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						TGAGGAAGGCGAGGCAGTTTT	0.398													15	95					0	0	1	0	0		A	196837116	A	A	196837116	2	1	214	1	0	0	0	0	0	0	0	1	4612	1045	37	1		1	DNAH7	2	196837116	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4018611	196837116	46362257	162	106580											
PGAP1	80055	broad.mit.edu	37	chr2	197763087	197763087	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacccaggtcttaggcactgCtgaactctaaaagaaaagaa	16	7	9	9	0	2	3	0	1	2	2	2	4	2	3	1	2	2	2	1	2	7	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:197763087C>T	uc002utw.2	-	6	928	c.814G>A	c.(814-816)GCA>ACA	p.A272T	PGAP1_uc002utx.2_Missense_Mutation_p.A98T|PGAP1_uc002uty.1_Missense_Mutation_p.A272T|PGAP1_uc010zgv.1_RNA|PGAP1_uc010fsj.2_Missense_Mutation_p.A98T	NM_024989	NP_079265	Q75T13	PGAP1_HUMAN	GPI deacylase	272	Lumenal (Potential).				attachment of GPI anchor to protein|C-terminal protein lipidation|intracellular protein transport|myo-inositol transport	integral to membrane|intrinsic to endoplasmic reticulum membrane	nuclease activity|phosphoric ester hydrolase activity			ovary(3)|central_nervous_system(1)	4						TTAGGCACTGCTGAACTCTAA	0.338													9	58					0	0	1	0	0		T	197763087	T	T	197763087	3	4	214	1	0	0	0	0	1	0	0	0	11796	797	28	2	2042	2	PGAP1	2	197763087	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	925971	197763087	45436286	163	106581											
ORC2L	4999	broad.mit.edu	37	chr2	201785740	201785740	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggagcattgaggtggtcaaTggatgctataaggtaaatgt	13	11	14	3	0	1	1	1	1	0	0	1	3	1	3	0	5	2	3	0	5	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:201785740T>C	uc002uwr.2	-	14	1527	c.1270A>G	c.(1270-1272)ATT>GTT	p.I424V	ORC2L_uc010zhj.1_Missense_Mutation_p.I424V	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	424					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0						AGGTGGTCAATGGATGCTATA	0.353													4	49					0	0	1	0	0		C	201785740	C	C	201785740	3	2	214	1	0	0	0	0	1	0	0	0	11281	1464	51	3	483	3	ORC2L	2	201785740	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4022653	201785740	41413633	164	106582											
PIKFYVE	200576	broad.mit.edu	37	chr2	209190429	209190429	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tagcacaacagcttgcccggCgggtctcccttgtgctttct	5	12	10	14	2	2	0	0	0	2	0	3	0	2	0	2	2	5	3	2	2	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:209190429C>T	uc002vcz.2	+	20	3052	c.2894C>T	c.(2893-2895)GCG>GTG	p.A965V	PIKFYVE_uc010fun.1_Missense_Mutation_p.A646V|PIKFYVE_uc002vcy.1_Missense_Mutation_p.A909V	NM_015040	NP_055855	Q9Y2I7	FYV1_HUMAN	phosphatidylinositol-3-phosphate 5-kinase type	965					cellular protein metabolic process|intracellular signal transduction|protein localization to nucleus|retrograde transport, endosome to Golgi	early endosome membrane|membrane raft	1-phosphatidylinositol-3-phosphate 5-kinase activity|1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|metal ion binding|protein binding			ovary(5)|kidney(2)|pancreas(1)|central_nervous_system(1)|skin(1)	10						GCTTGCCCGGCGGGTCTCCCT	0.502													4	82					0	0	1	0	0		T	209190429	T	T	209190429	3	4	214	1	0	0	0	0	1	0	0	0	11943	768	27	1	2979	1	PIKFYVE	2	209190429	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7404689	209190429	34008944	165	106583											
PTH2R	5746	broad.mit.edu	37	chr2	209302278	209302278	+	Silent	SNP	T	C	C	0	1	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	ttagaaggtaattgtttcccTgaatgggatggactcatttg	10	15	11	5	0	1	2	1	1	0	1	2	4	2	4	1	3	0	2	1	3	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:209302278T>C	uc002vdb.2	+	3	408	c.195T>C	c.(193-195)CCT>CCC	p.P65P	PTH2R_uc010zjb.1_Silent_p.P76P	NM_005048	NP_005039	P49190	PTH2R_HUMAN	parathyroid hormone 2 receptor precursor	65	Extracellular (Potential).					integral to plasma membrane	parathyroid hormone receptor activity			ovary(1)|breast(1)|skin(1)	3				Epithelial(149;0.0684)|Lung(261;0.0785)|LUSC - Lung squamous cell carcinoma(261;0.0836)		ATTGTTTCCCTGAATGGGATG	0.343													4	61					0	0	1	0	0		C	209302278	C	C	209302278	2	2	214	1	0	0	0	0	0	0	0	1	12783	1567	55	3		3	PTH2R	2	209302278	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	111849	209302278	33897095	166	106584											
TTLL4	9654	broad.mit.edu	37	chr2	219617886	219617886	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaagggttccacatgggagTtgtctctgattctgctccag	8	12	11	10	0	2	1	0	1	2	0	5	2	4	2	2	2	1	3	2	2	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:219617886T>C	uc002viy.2	+	18	3606	c.3236T>C	c.(3235-3237)GTT>GCT	p.V1079A	TTLL4_uc010zkl.1_Missense_Mutation_p.V914A|TTLL4_uc010fvx.2_Missense_Mutation_p.V1015A|TTLL4_uc010zkm.1_3'UTR	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	1079					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		CACATGGGAGTTGTCTCTGAT	0.537													35	266					0	0	1	0	0		C	219617886	C	C	219617886	3	2	214	1	0	0	0	0	1	0	0	0	16755	1725	60	3	3298	3	TTLL4	2	219617886	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	10315608	219617886	23581487	167	106585											
SPEG	10290	broad.mit.edu	37	chr2	220337027	220337027	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggtcacactcacatggaaccCccccaggagtctggacatgg	10	6	11	14	0	3	0	2	0	1	0	3	3	3	3	3	5	1	0	3	5	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:220337027C>T	uc010fwg.2	+	15	3914	c.3914C>T	c.(3913-3915)CCC>CTC	p.P1305L		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	1305	Fibronectin type-III 1.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		ACATGGAACCCCCCCAGGAGT	0.647													10	51					0	0	1	0	0		T	220337027	T	T	220337027	3	4	214	1	0	0	0	0	1	0	0	0	15061	623	22	4	3984	4	SPEG	2	220337027	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	719141	220337027	22862346	168	106586											
KIAA1486	57624	broad.mit.edu	37	chr2	226446682	226446682	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctaaaccaagaccccacagCgatgaatattccaagaagat	17	6	7	11	1	0	4	0	1	0	3	1	5	1	4	4	0	2	1	4	0	7	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:226446682C>T	uc002voe.2	+	4	724	c.549C>T	c.(547-549)AGC>AGT	p.S183S	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_5'UTR	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	183										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GACCCCACAGCGATGAATATT	0.408													20	136					0	0	1	0	0		T	226446682	T	T	226446682	2	4	214	1	0	0	0	0	0	0	0	1	8253	767	27	1		1	KIAA1486	2	226446682	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	6109655	226446682	16752691	169	106587											
PID1	55022	broad.mit.edu	37	chr2	229890417	229890417	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgctgtggatccgcccgtcGctcttcatactgtggaaagt	6	13	11	11	3	2	0	1	0	1	0	4	2	3	2	2	2	2	2	2	2	2	3	rs147151232		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:229890417G>A	uc002vpr.3	-	3	722	c.684C>T	c.(682-684)AGC>AGT	p.S228S	PID1_uc002vps.3_Silent_p.S226S|PID1_uc002vpt.3_Silent_p.S195S|PID1_uc002vpu.3_Silent_p.S146S	NM_001100818	NP_001094288	Q7Z2X4	PCLI1_HUMAN	phosphotyrosine interaction domain containing 1	228	PID.					cytoplasm				breast(3)|skin(1)	4		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)		TCCGCCCGTCGCTCTTCATAC	0.562													53	71					0	0	1	0	0		A	229890417	A	A	229890417	2	1	214	1	0	0	0	0	0	0	0	1	11901	1078	38	1		1	PID1	2	229890417	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3443735	229890417	13308956	170	106588											
NGEF	25791	broad.mit.edu	37	chr2	233745944	233745944	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gccacgtatgggtgcacgcaCtggacctgggggcagtctga	7	7	16	11	2	1	1	0	1	1	0	1	2	1	2	2	4	1	4	2	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:233745944C>A	uc002vts.2	-	14	2102	c.1854G>T	c.(1852-1854)CAG>CAT	p.Q618H	NGEF_uc010zmm.1_Missense_Mutation_p.Q341H|NGEF_uc010fyg.1_Missense_Mutation_p.Q526H	NM_019850	NP_062824	Q8N5V2	NGEF_HUMAN	neuronal guanine nucleotide exchange factor	618	SH3.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|nervous system development|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|growth cone|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)|skin(1)	7		Breast(86;0.00279)|Renal(207;0.00339)|all_hematologic(139;0.00793)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0271)|Lung NSC(271;0.0839)		Epithelial(121;8.65e-17)|BRCA - Breast invasive adenocarcinoma(100;0.00037)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(119;0.00984)|GBM - Glioblastoma multiforme(43;0.0604)		GGTGCACGCACTGGACCTGGG	0.657													4	95					0.00909568	0.00930166	1	1	0		A	233745944	A	A	233745944	3	1	214	1	0	0	0	0	1	0	0	0	10413	564	20	5	286	5	NGEF	2	233745944	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3855527	233745944	9453429	171	106589											
IQCA1	79781	broad.mit.edu	37	chr2	237285818	237285818	+	Missense_Mutation	SNP	A	G	G	1	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	caccagttccttatacagagActcgatggtcctggggagaa	11	9	11	10	1	0	2	0	0	0	2	3	5	2	2	3	3	1	1	3	3	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:237285818A>G	uc002vvz.1	-	13	1671	c.1489T>C	c.(1489-1491)TCT>CCT	p.S497P	IQCA1_uc002vwb.2_Missense_Mutation_p.S505P|IQCA1_uc002vwa.1_RNA|IQCA1_uc010zni.1_Missense_Mutation_p.S456P	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1	497							ATP binding			ovary(1)	1						TTATACAGAGACTCGATGGTC	0.438													4	70					0	0	1	0	0		G	237285818	G	G	237285818	3	3	214	1	0	0	0	0	1	0	0	0	7818	275	10	3	1007	3	IQCA1	2	237285818	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3539874	237285818	5913555	172	106590											
COL6A3	1293	broad.mit.edu	37	chr2	238289663	238289663	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgaacaccagggaggagtCgaaagcgatctcttccagct	12	7	12	10	2	1	1	0	1	1	0	4	6	2	3	2	2	3	1	2	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:238289663C>T	uc002vwl.2	-	5	2077	c.1792G>A	c.(1792-1794)GAC>AAC	p.D598N	COL6A3_uc002vwo.2_Missense_Mutation_p.D392N|COL6A3_uc010znj.1_Missense_Mutation_p.D191N|COL6A3_uc002vwq.2_Missense_Mutation_p.D392N|COL6A3_uc002vwr.2_Missense_Mutation_p.D191N|COL6A3_uc010znk.1_Missense_Mutation_p.D598N	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	598	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AGGGAGGAGTCGAAAGCGATC	0.592													8	59					0	0	1	0	0		T	238289663	T	T	238289663	3	4	214	1	0	0	0	0	1	0	0	0	3704	884	31	1	7948	1	COL6A3	2	238289663	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1003845	238289663	4909710	173	106591											
HDLBP	3069	broad.mit.edu	37	chr2	242194542	242194542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aacggtgaagccaggaagggGcggcgacagaggagacggtg	12	2	20	7	4	0	3	0	1	0	2	0	6	0	4	1	7	2	0	1	7	3	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:242194542G>A	uc002waz.2	-	9	1340	c.1112C>T	c.(1111-1113)GCC>GTC	p.A371V	HDLBP_uc002wba.2_Missense_Mutation_p.A371V|HDLBP_uc002wbb.2_Missense_Mutation_p.A323V|HDLBP_uc010fzn.1_Missense_Mutation_p.A100V	NM_203346	NP_976221	Q00341	VIGLN_HUMAN	high density lipoprotein binding protein	371	KH 3.				cholesterol metabolic process|lipid transport	cytoplasm|high-density lipoprotein particle|nucleus|plasma membrane	lipid binding|protein binding|RNA binding			breast(3)|skin(1)	4		all_cancers(19;7.77e-41)|all_epithelial(40;1.74e-18)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00338)|Ovarian(221;0.00556)|Lung NSC(271;0.0121)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;8.13e-34)|all cancers(36;4.71e-31)|OV - Ovarian serous cystadenocarcinoma(60;2.34e-15)|Kidney(56;3.72e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.76e-08)|BRCA - Breast invasive adenocarcinoma(100;3.38e-06)|Lung(119;0.000109)|LUSC - Lung squamous cell carcinoma(224;0.000964)|Colorectal(34;0.0132)|COAD - Colon adenocarcinoma(134;0.0928)		CCAGGAAGGGGCGGCGACAGA	0.522													35	194					0	0	1	0	0		A	242194542	A	A	242194542	3	1	214	1	0	0	0	0	1	0	0	0	7041	1203	42	2	2774	2	HDLBP	2	242194542	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3904879	242194542	1004831	174	106592											
GAL3ST2	64090	broad.mit.edu	37	chr2	242741350	242741350	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgccggctcacgcgtccacCtgggctacccctggctcttc	3	8	10	20	4	2	0	1	0	1	0	4	0	3	0	6	3	1	3	6	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr2:242741350C>A	uc002wcj.1	+	3	405	c.274C>A	c.(274-276)CTG>ATG	p.L92M		NM_022134	NP_071417	Q9H3Q3	G3ST2_HUMAN	galactose-3-O-sulfotransferase 2	92	Lumenal (Potential).				biosynthetic process	Golgi cisterna membrane|integral to membrane	galactosylceramide sulfotransferase activity				0		all_cancers(19;1.09e-40)|all_epithelial(40;2.03e-18)|Breast(86;1.53e-05)|all_lung(227;0.00338)|Renal(207;0.00502)|Ovarian(221;0.00716)|Lung NSC(271;0.012)|Esophageal squamous(248;0.129)|Melanoma(123;0.144)|all_hematologic(139;0.158)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;4.59e-33)|all cancers(36;9.89e-31)|OV - Ovarian serous cystadenocarcinoma(60;7.89e-15)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.63e-06)|Lung(119;0.000152)|LUSC - Lung squamous cell carcinoma(224;0.00154)|Colorectal(34;0.0129)|COAD - Colon adenocarcinoma(134;0.0833)		ACGCGTCCACCTGGGCTACCC	0.652													14	50					6.31663e-08	6.86034e-08	1	1	0		A	242741350	A	A	242741350	3	1	214	1	0	0	0	0	1	0	0	0	6213	680	24	5	284	5	GAL3ST2	2	242741350	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	546808	242741350	458023	175	106593											
RAD18	56852	broad.mit.edu	37	chr3	9000630	9000630	+	Missense_Mutation	SNP	A	G	G	1	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	gtgaacactgaggtattatcAttgcaatgttgaaatactcg	13	13	9	6	1	1	3	1	3	0	0	2	3	1	3	0	1	3	3	0	1	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:9000630A>G	uc003brd.2	-	2	184	c.107T>C	c.(106-108)ATG>ACG	p.M36T	RAD18_uc003bre.2_RNA	NM_020165	NP_064550	Q9NS91	RAD18_HUMAN	postreplication repair protein hRAD18p	36	RING-type.				DNA repair	nucleus|replication fork	damaged DNA binding|ligase activity|ubiquitin protein ligase binding|Y-form DNA binding|zinc ion binding			skin(3)|ovary(2)	5				OV - Ovarian serous cystadenocarcinoma(96;0.0552)		AGGTATTATCATTGCAATGTT	0.323								Rad6_pathway					7	158					0	0	1	0	0		G	9000630	G	G	9000630	3	3	214	1	0	0	0	0	1	0	0	0	13005	217	8	3	1428	3	RAD18	3	9000630	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		9000630	189021800	176	106594											
TMEM43	79188	broad.mit.edu	37	chr3	14174093	14174093	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggagacgaggtattcctAcagtgagtgctgggcccctt	9	9	14	9	1	0	2	0	1	0	1	1	5	1	2	3	3	2	2	3	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:14174093A>G	uc003byk.2	+	5	694	c.440A>G	c.(439-441)TAC>TGC	p.Y147C	TMEM43_uc003byl.1_Missense_Mutation_p.Y27C	NM_024334	NP_077310	Q9BTV4	TMM43_HUMAN	transmembrane protein 43	147	Lumenal (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|nuclear inner membrane				ovary(1)	1						AGGTATTCCTACAGTGAGTGC	0.627													8	45					0	0	1	0	0		G	14174093	G	G	14174093	3	3	214	1	0	0	0	0	1	0	0	0	16192	391	14	3	458	3	TMEM43	3	14174093	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5173463	14174093	183848337	177	106595											
EFHB	151651	broad.mit.edu	37	chr3	19930097	19930097	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctaaactcaagttggcctggTcacaagcttcctgcagctcg	9	10	9	13	1	2	0	2	0	0	0	4	0	3	0	2	2	4	4	2	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:19930097T>C	uc003cbl.3	-	10	1968	c.1772A>G	c.(1771-1773)GAC>GGC	p.D591G	EFHB_uc003cbm.2_Missense_Mutation_p.D461G	NM_144715	NP_653316	Q8N7U6	EFHB_HUMAN	EF hand domain family, member B	591	EF-hand 1.				signal transduction	proteinaceous extracellular matrix	calcium ion binding				0						GTTGGCCTGGTCACAAGCTTC	0.423													3	13					0	0	1	0	0		C	19930097	C	C	19930097	3	2	214	1	0	0	0	0	1	0	0	0	4951	1667	58	3	745	3	EFHB	3	19930097	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5756004	19930097	178092333	178	106596											
NR1D2	9975	broad.mit.edu	37	chr3	24006563	24006563	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcttcactccagcagtgaaAgaagtggtggaatttgcaaa	14	9	11	7	0	1	2	1	1	0	1	2	3	2	3	1	2	3	3	1	2	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:24006563A>C	uc003ccs.2	+	6	1561	c.1242A>C	c.(1240-1242)AAA>AAC	p.K414N	NR1D2_uc010hfd.2_RNA|NR1D2_uc011awk.1_Missense_Mutation_p.K339N	NM_005126	NP_005117	Q14995	NR1D2_HUMAN	nuclear receptor subfamily 1, group D, member 2	414					regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding			urinary_tract(1)|kidney(1)|skin(1)	3						CAGCAGTGAAAGAAGTGGTGG	0.428													12	138					0	0	1	0	0		C	24006563	C	C	24006563	3	2	214	1	0	0	0	0	1	0	0	0	10635	69	3	5	1264	5	NR1D2	3	24006563	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4076466	24006563	174015867	179	106597											
ZNF860	344787	broad.mit.edu	37	chr3	32031859	32031859	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agagatcttacaagtgtaatAaatgtggcaaattttttaga	16	14	8	3	0	1	2	0	0	1	2	1	3	1	2	0	1	1	2	0	1	7	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:32031859A>G	uc011axg.1	+	2	1837	c.1288A>G	c.(1288-1290)AAA>GAA	p.K430E		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	430	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CAAGTGTAATAAATGTGGCAA	0.353													6	29					0	0	1	0	0		G	32031859	G	G	32031859	3	3	214	1	0	0	0	0	1	0	0	0	18219	363	13	3	1290	3	ZNF860	3	32031859	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	8025296	32031859	165990571	180	106598											
ZNF860	344787	broad.mit.edu	37	chr3	32032011	32032011	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaattcatactggagagaaAccttacaagtgtaatgagtg	15	10	10	6	0	1	2	1	1	0	1	1	4	1	3	1	1	3	2	1	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:32032011A>C	uc011axg.1	+	2	1989	c.1440A>C	c.(1438-1440)AAA>AAC	p.K480N		NM_001137674	NP_001131146	A6NHJ4	ZN860_HUMAN	zinc finger protein 860	480					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTGGAGAGAAACCTTACAAGT	0.408													6	71					0	0	1	0	0		C	32032011	C	C	32032011	3	2	214	1	0	0	0	0	1	0	0	0	18219	40	2	5	1442	5	ZNF860	3	32032011	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	152	32032011	165990419	181	106599											
TRANK1	9881	broad.mit.edu	37	chr3	36887887	36887887	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tacagctgcttcagctctccGttgaggagctaaagataaca	12	10	9	10	1	2	2	1	1	1	1	3	3	2	3	1	1	6	5	1	1	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:36887887G>A	uc003cgj.2	-	7	3563	c.3261C>T	c.(3259-3261)AAC>AAT	p.N1087N		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	1637					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						TCAGCTCTCCGTTGAGGAGCT	0.448													3	33					0	0	1	0	0		A	36887887	A	A	36887887	2	1	214	1	0	0	0	0	0	0	0	1	16480	1136	40	1		1	TRANK1	3	36887887	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4855876	36887887	161134543	182	106600											
SCN10A	6336	broad.mit.edu	37	chr3	38739912	38739912	+	Missense_Mutation	SNP	A	T	T	1	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	gggcaggcagggacatcatgAgggcaaagagcagtgtgcgg	11	4	19	7	1	1	2	1	1	0	1	1	3	1	3	0	5	2	4	0	5	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:38739912A>T	uc003ciq.2	-	27	4799	c.4799T>A	c.(4798-4800)CTC>CAC	p.L1600H		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	1600	IV.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GGACATCATGAGGGCAAAGAG	0.557													16	94					0	0	1	0	0		T	38739912	T	T	38739912	3	4	214	1	0	0	0	0	1	0	0	0	13937	304	11	5	1075	5	SCN10A	3	38739912	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1852025	38739912	159282518	183	106601											
SCN11A	11280	broad.mit.edu	37	chr3	38889155	38889155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctcaggattcggccaatcCgagccaagcggacaattctg	10	7	11	13	3	2	0	1	0	1	0	4	3	3	2	4	3	2	0	4	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:38889155C>T	uc011ays.1	-	26	4605	c.4406G>A	c.(4405-4407)CGG>CAG	p.R1469Q		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1469	IV.|Helical; Voltage-sensor; Name=S4 of repeat IV; (By similarity).				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	TCGGCCAATCCGAGCCAAGCG	0.493													6	40					0	0	1	0	0		T	38889155	T	T	38889155	3	4	214	1	0	0	0	0	1	0	0	0	13938	652	23	1	973	1	SCN11A	3	38889155	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	149243	38889155	159133275	184	106602											
ZNF167	55888	broad.mit.edu	37	chr3	44598809	44598809	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atgccagaggtgcacaccaaGgagcagatcctggagctgct	11	6	13	11	0	0	2	0	0	0	2	1	4	1	4	3	3	5	4	3	3	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:44598809G>T	uc010hin.2	+	2	658	c.270G>T	c.(268-270)AAG>AAT	p.K90N	ZNF167_uc003cnh.2_RNA|ZNF167_uc003cni.2_Missense_Mutation_p.K90N|ZNF167_uc010hio.2_Intron|ZNF167_uc003cnj.2_Missense_Mutation_p.K90N|ZNF167_uc003cnk.2_Missense_Mutation_p.K90N	NM_018651	NP_061121	Q9P0L1	ZN167_HUMAN	zinc finger protein 167 isoform 1	90	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(197;0.0486)|Kidney(197;0.0609)		TGCACACCAAGGAGCAGATCC	0.617													16	58					8.60227e-14	9.68602e-14	1	1	0		T	44598809	T	T	44598809	3	4	214	1	0	0	0	0	1	0	0	0	17766	991	35	5	272	5	ZNF167	3	44598809	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	5709654	44598809	153423621	185	106603											
LTF	4057	broad.mit.edu	37	chr3	46491433	46491433	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gcaccctcgaaaacccaatgGcagagtccttgaacagcaga	14	5	9	13	1	0	3	0	1	0	2	2	4	1	3	3	1	3	3	3	1	4	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:46491433G>A	uc003cpq.2	-	8	1006	c.968C>T	c.(967-969)GCC>GTC	p.A323V	LTF_uc003fzr.2_Missense_Mutation_p.A279V|LTF_uc010hjh.2_Missense_Mutation_p.A323V|LTF_uc003cpr.2_Missense_Mutation_p.A310V	NM_002343	NP_002334	P02788	TRFL_HUMAN	lactotransferrin precursor	323	Transferrin-like 1.				cellular iron ion homeostasis|defense response to bacterium|humoral immune response|iron ion transport	extracellular region|stored secretory granule	ferric iron binding|heparin binding|protein binding|serine-type endopeptidase activity			central_nervous_system(2)|ovary(1)|lung(1)	4				all cancers(1;7.55e-14)|GBM - Glioblastoma multiforme(1;2.1e-09)|Epithelial(1;9.25e-07)|Colorectal(1;3.81e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00129)|COAD - Colon adenocarcinoma(1;0.00308)|KIRC - Kidney renal clear cell carcinoma(197;0.0205)|Kidney(197;0.0242)|OV - Ovarian serous cystadenocarcinoma(275;0.089)	Pefloxacin(DB00487)	AAACCCAATGGCAGAGTCCTT	0.493													7	72					0	0	1	0	0		A	46491433	A	A	46491433	3	1	214	1	0	0	0	0	1	0	0	0	9097	1203	42	2	1204	2	LTF	3	46491433	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1892624	46491433	151530997	186	106604											
CSPG5	10675	broad.mit.edu	37	chr3	47619224	47619224	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcagcttccagccaggcggTgccggtcaccgcagccgact	6	6	13	16	4	2	0	2	0	0	0	3	1	3	0	5	3	4	2	5	3	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:47619224T>C	uc003crp.3	-	2	468	c.292A>G	c.(292-294)ACC>GCC	p.T98A	CSPG5_uc003crn.2_5'UTR|CSPG5_uc003cro.3_Missense_Mutation_p.T98A|CSPG5_uc011bbb.1_5'UTR	NM_006574	NP_006565	O95196	CSPG5_HUMAN	chondroitin sulfate proteoglycan 5 (neuroglycan	98	Extracellular (Potential).				cell differentiation|intracellular transport|nervous system development|regulation of growth	endoplasmic reticulum membrane|Golgi-associated vesicle membrane|integral to plasma membrane|membrane fraction	growth factor activity			ovary(1)|central_nervous_system(1)	2				BRCA - Breast invasive adenocarcinoma(193;0.000266)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		AGCCAGGCGGTGCCGGTCACC	0.726													5	61					0	0	1	0	0		C	47619224	C	C	47619224	3	2	214	1	0	0	0	0	1	0	0	0	3964	1696	59	3	1343	3	CSPG5	3	47619224	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1127791	47619224	150403206	187	106605											
DHX30	22907	broad.mit.edu	37	chr3	47890542	47890542	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctggaggaaaacctgctgTacgcacccagcctgcgcttc	9	7	10	15	2	0	0	0	0	0	0	1	2	0	2	4	2	5	4	4	2	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:47890542T>C	uc003cru.2	+	18	3328	c.2902T>C	c.(2902-2904)TAC>CAC	p.Y968H	DHX30_uc003crt.2_Missense_Mutation_p.Y929H|MIR1226_hsa-mir-1226|MI0006313_5'Flank	NM_138615	NP_619520	Q7L2E3	DHX30_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 30	968						mitochondrial nucleoid	ATP binding|ATP-dependent helicase activity|protein binding|RNA binding			ovary(2)|skin(2)	4				BRCA - Breast invasive adenocarcinoma(193;0.000696)|KIRC - Kidney renal clear cell carcinoma(197;0.00609)|Kidney(197;0.007)		AAACCTGCTGTACGCACCCAG	0.652													10	63					0	0	1	0	0		C	47890542	C	C	47890542	3	2	214	1	0	0	0	0	1	0	0	0	4510	1638	57	3	2975	3	DHX30	3	47890542	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	271318	47890542	150131888	188	106606											
RBM6	10180	broad.mit.edu	37	chr3	50005505	50005505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acagtcccgttctgattttaGgaatagagatgtatctgatt	11	15	9	6	1	2	3	0	2	2	1	3	5	3	4	1	1	0	2	1	1	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:50005505G>A	uc003cyc.2	+	3	780	c.647G>A	c.(646-648)AGG>AAG	p.R216K	RBM6_uc011bdh.1_RNA|RBM6_uc010hlc.1_Intron|RBM6_uc003cyd.2_Intron|RBM6_uc003cye.2_Intron|RBM6_uc011bdi.1_Intron|RBM6_uc010hld.1_Intron|RBM6_uc010hle.1_Intron|RBM6_uc010hlf.1_Intron	NM_005777	NP_005768	P78332	RBM6_HUMAN	RNA binding motif protein 6	216					RNA processing	nucleus	DNA binding|nucleotide binding|RNA binding|zinc ion binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;6.81e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.0084)|Kidney(197;0.00977)		TCTGATTTTAGGAATAGAGAT	0.428													11	69					0	0	1	0	0		A	50005505	A	A	50005505	3	1	214	1	0	0	0	0	1	0	0	0	13169	1000	35	4	653	4	RBM6	3	50005505	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2114963	50005505	148016925	189	106607											
TKT	7086	broad.mit.edu	37	chr3	53289886	53289886	+	Missense_Mutation	SNP	T	C	C	0	1	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	agtggtggcctggatggagcTgatacgtaggcggttggccg	6	9	19	7	3	0	1	0	1	0	0	0	3	0	3	2	7	2	3	2	7	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:53289886T>C	uc003dgo.2	-	1	183	c.73A>G	c.(73-75)AGC>GGC	p.S25G	TKT_uc011beo.1_5'UTR|TKT_uc003dgq.2_Missense_Mutation_p.S25G|TKT_uc011beq.1_Missense_Mutation_p.S25G|TKT_uc011ber.1_5'UTR|TKT_uc011bep.1_Missense_Mutation_p.S25G	NM_001135055	NP_001128527	P29401	TKT_HUMAN	transketolase isoform 1	25					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|transketolase activity			ovary(2)	2		Prostate(884;0.0959)		BRCA - Breast invasive adenocarcinoma(193;0.000159)|OV - Ovarian serous cystadenocarcinoma(275;0.000314)|Kidney(197;0.00178)|KIRC - Kidney renal clear cell carcinoma(197;0.00201)	Thiamine(DB00152)	TGGATGGAGCTGATACGTAGG	0.522													6	23					0	0	1	0	0		C	53289886	C	C	53289886	3	2	214	1	0	0	0	0	1	0	0	0	15959	1580	55	3	1854	3	TKT	3	53289886	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3284381	53289886	144732544	190	106608											
TMF1	7110	broad.mit.edu	37	chr3	69077408	69077408	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcgtctcttcaagtgttcttAcatattcatcttttaggttt	7	21	5	8	1	5	0	2	0	3	0	7	0	5	0	0	1	1	2	0	1	4	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:69077408A>G	uc003dnn.2	-	12	2880	c.2633T>C	c.(2632-2634)GTA>GCA	p.V878A	TMF1_uc011bfx.1_Missense_Mutation_p.V881A	NM_007114	NP_009045	P82094	TMF1_HUMAN	TATA element modulatory factor 1	878	Potential.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	Golgi membrane|nucleus	DNA binding|protein binding|transcription cofactor activity				0		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;4.48e-05)|Epithelial(33;0.000274)|LUSC - Lung squamous cell carcinoma(21;0.0123)|KIRC - Kidney renal clear cell carcinoma(39;0.211)|Kidney(39;0.247)		AAGTGTTCTTACATATTCATC	0.353													4	50					0	0	1	0	0		G	69077408	G	G	69077408	3	3	214	1	0	0	0	0	1	0	0	0	16253	391	14	3	672	3	TMF1	3	69077408	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	15787522	69077408	128945022	191	106609											
PDZRN3	23024	broad.mit.edu	37	chr3	73433995	73433995	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcattacgggtgctctcgtcGgtccgccccacaccgctgtc	4	10	10	17	5	2	0	1	0	1	0	6	0	3	0	4	2	2	2	4	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:73433995G>A	uc003dpl.1	-	10	1818	c.1722C>T	c.(1720-1722)ACC>ACT	p.T574T	PDZRN3_uc011bgh.1_Silent_p.T231T|PDZRN3_uc010hoe.1_Silent_p.T272T|PDZRN3_uc011bgf.1_Silent_p.T291T|PDZRN3_uc011bgg.1_Silent_p.T294T	NM_015009	NP_055824	Q9UPQ7	PZRN3_HUMAN	PDZ domain containing ring finger 3	574							ubiquitin-protein ligase activity|zinc ion binding			pancreas(2)|ovary(2)|skin(2)|large_intestine(1)	7		Prostate(10;0.114)|Lung NSC(201;0.187)|Lung SC(41;0.236)		BRCA - Breast invasive adenocarcinoma(55;0.00041)|Epithelial(33;0.0023)|LUSC - Lung squamous cell carcinoma(21;0.0048)|Lung(16;0.0105)|KIRC - Kidney renal clear cell carcinoma(39;0.111)|Kidney(39;0.134)		TGCTCTCGTCGGTCCGCCCCA	0.597													5	33					0	0	1	0	0		A	73433995	A	A	73433995	2	1	214	1	0	0	0	0	0	0	0	1	11728	1103	39	1		1	PDZRN3	3	73433995	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4356587	73433995	124588435	192	106610											
ROBO1	6091	broad.mit.edu	37	chr3	78663796	78663796	+	Splice_Site	SNP	A	G	G	1	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	tcatccgtgtcaatggactcAccatctgtgtaggtttctct	7	15	8	11	1	5	0	3	0	2	0	7	1	6	1	2	2	0	2	2	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:78663796A>G	uc003dqe.2	-	28	4643	c.4435_splice	c.e28+1	p.D1479_splice	ROBO1_uc003dqb.2_Splice_Site_p.D1440_splice|ROBO1_uc003dqc.2_Splice_Site_p.D1379_splice|ROBO1_uc003dqd.2_Splice_Site_p.D1434_splice|ROBO1_uc010hoh.2_Splice_Site_p.D671_splice|ROBO1_uc011bgl.1_Splice_Site_p.D1051_splice	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a						activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		CAATGGACTCACCATCTGTGT	0.463													5	21					0	0	1	0	0		G	78663796	G	G	78663796	5	3	214	1	0	0	0	0	0	0	1	0	13538	173	6	3	534	3	ROBO1	3	78663796	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5229801	78663796	119358634	193	106611											
EPHA3	2042	broad.mit.edu	37	chr3	89445043	89445043	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctccagaaatagcatctctTtgtcctggcaagaacctgaa	12	10	7	12	0	1	3	0	1	1	2	4	3	3	3	4	1	2	2	4	1	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:89445043T>G	uc003dqy.2	+	6	1588	c.1363T>G	c.(1363-1365)TTG>GTG	p.L455V	EPHA3_uc003dqx.1_Missense_Mutation_p.L455V|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	455	Extracellular (Potential).|Fibronectin type-III 2.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TAGCATCTCTTTGTCCTGGCA	0.453										TSP Lung(6;0.00050)			22	119					0	0	1	0	0		G	89445043	G	G	89445043	3	3	214	1	0	0	0	0	1	0	0	0	5176	1838	64	5	1385	5	EPHA3	3	89445043	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	10781247	89445043	108577387	194	106612											
EPHA3	2042	broad.mit.edu	37	chr3	89528603	89528603	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acagaagaagatcatcagtaGcattaaagctctagaaacgc	18	7	8	8	1	3	4	2	0	1	4	3	4	3	4	0	0	3	3	0	0	7	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:89528603G>A	uc003dqy.2	+	17	3128	c.2903G>A	c.(2902-2904)AGC>AAC	p.S968N	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	968	Cytoplasmic (Potential).|SAM.					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		ATCATCAGTAGCATTAAAGCT	0.458										TSP Lung(6;0.00050)			3	38					0	0	1	0	0		A	89528603	A	A	89528603	3	1	214	1	0	0	0	0	1	0	0	0	5176	971	34	2	2995	2	EPHA3	3	89528603	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	83560	89528603	108493827	195	106613											
OR5K3	403277	broad.mit.edu	37	chr3	98110108	98110108	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatcaatgaattggtgttatTtatcttggcaggatcaattc	11	17	8	5	0	3	1	2	1	1	0	4	2	3	2	0	3	0	2	0	3	6	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:98110108T>G	uc011bgw.1	+	1	599	c.599T>G	c.(598-600)TTT>TGT	p.F200C		NM_001005516	NP_001005516	A6NET4	OR5K3_HUMAN	olfactory receptor, family 5, subfamily K,	200	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTGGTGTTATTTATCTTGGCA	0.313													5	47					0	0	1	0	0		G	98110108	G	G	98110108	3	3	214	1	0	0	0	0	1	0	0	0	11187	1841	64	5	601	5	OR5K3	3	98110108	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	8581505	98110108	99912322	196	106614											
CEP97	79598	broad.mit.edu	37	chr3	101475941	101475941	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agttgatgaaccaaagccaaAatgaagagttgtctcctctt	14	11	8	8	0	2	4	0	3	2	1	3	4	2	4	3	0	2	2	3	0	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:101475941A>G	uc003dvk.1	+	8	955	c.928A>G	c.(928-930)AAT>GAT	p.N310D	CEP97_uc010hpm.1_Missense_Mutation_p.N276D|CEP97_uc011bhf.1_Missense_Mutation_p.N310D|CEP97_uc003dvl.1_Missense_Mutation_p.N6D|CEP97_uc003dvm.1_Missense_Mutation_p.N148D	NM_024548	NP_078824	Q8IW35	CEP97_HUMAN	centrosomal protein 97kDa	310	CEP110 binding.					centrosome|nucleus	protein binding			ovary(2)	2						CCAAAGCCAAAATGAAGAGTT	0.398													13	49					0	0	1	0	0		G	101475941	G	G	101475941	3	3	214	1	0	0	0	0	1	0	0	0	3266	14	1	3	958	3	CEP97	3	101475941	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3365833	101475941	96546489	197	106615											
NFKBIZ	64332	broad.mit.edu	37	chr3	101574022	101574022	+	Silent	SNP	T	C	C	0	1	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	agaacacctctgcatgtgtgTgctgagaagggccactccca	10	8	11	12	0	1	2	0	1	1	2	2	3	2	2	3	1	3	2	3	1	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:101574022T>C	uc003dvp.2	+	7	1675	c.1560T>C	c.(1558-1560)TGT>TGC	p.C520C	NFKBIZ_uc003dvo.2_Silent_p.C420C|NFKBIZ_uc010hpo.2_Silent_p.C420C|NFKBIZ_uc003dvq.2_Silent_p.C398C	NM_031419	NP_113607	Q9BYH8	IKBZ_HUMAN	nuclear factor of kappa light polypeptide gene	520	Interaction with NFKB1/p50 (By similarity).|ANK 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(2)	2						TGCATGTGTGTGCTGAGAAGG	0.532													16	59					0	0	1	0	0		C	101574022	C	C	101574022	2	2	214	1	0	0	0	0	0	0	0	1	10402	1702	59	3		3	NFKBIZ	3	101574022	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	98081	101574022	96448408	198	106616											
DZIP3	9666	broad.mit.edu	37	chr3	108363596	108363596	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggcataccagtaccagaaaTcatacagaggatgttatcct	15	9	8	9	0	1	2	1	0	0	2	2	3	2	3	3	2	3	3	3	2	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:108363596T>C	uc003dxd.2	+	14	2149	c.1727T>C	c.(1726-1728)ATC>ACC	p.I576T	DZIP3_uc003dxf.1_Missense_Mutation_p.I576T|DZIP3_uc011bhm.1_Missense_Mutation_p.I27T|DZIP3_uc003dxe.1_Missense_Mutation_p.I576T|DZIP3_uc003dxg.1_Missense_Mutation_p.I299T	NM_014648	NP_055463	Q86Y13	DZIP3_HUMAN	DAZ interacting protein 3, zinc finger	576					protein polyubiquitination	cytoplasm	polyubiquitin binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GTACCAGAAATCATACAGAGG	0.284													10	104					0	0	1	0	0		C	108363596	C	C	108363596	3	2	214	1	0	0	0	0	1	0	0	0	4871	1435	50	3	1777	3	DZIP3	3	108363596	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	6789574	108363596	89658834	199	106617											
DPPA4	55211	broad.mit.edu	37	chr3	109050613	109050613	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaggcaaaggcacacaggcGcttatatgcatccaatttct	12	10	9	10	1	1	0	0	0	1	0	2	0	2	0	1	3	1	5	1	3	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:109050613G>A	uc003dxq.3	-	4	413	c.358C>T	c.(358-360)CGC>TGC	p.R120C	DPPA4_uc011bho.1_Missense_Mutation_p.R120C|DPPA4_uc011bhp.1_Missense_Mutation_p.R120C	NM_018189	NP_060659	Q7L190	DPPA4_HUMAN	developmental pluripotency associated 4	120						nucleus	protein binding			upper_aerodigestive_tract(1)	1						GCACACAGGCGCTTATATGCA	0.433													6	124					0	0	1	0	0		A	109050613	A	A	109050613	3	1	214	1	0	0	0	0	1	0	0	0	4742	1087	38	1	572	1	DPPA4	3	109050613	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	687017	109050613	88971817	200	106618											
PRR23A	729627	broad.mit.edu	37	chr3	138724615	138724615	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	tgcggagtccatctggagctCcggaaactcggggtccgcgt	6	8	15	12	5	1	0	0	0	1	0	5	3	4	3	3	5	3	1	3	5	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:138724615C>G	uc011bms.1	-	1	496	c.496G>C	c.(496-498)GAG>CAG	p.E166Q		NM_001134659	NP_001128131	A6NEV1	PR23A_HUMAN	proline rich 23A	166											0						ATCTGGAGCTCCGGAAACTCG	0.652													18	24					0	0	1	0	0		G	138724615	G	G	138724615	3	3	214	1	0	0	0	0	1	0	0	0	12616	864	30	5	308	5	PRR23A	3	138724615	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	29674002	138724615	59297815	201	106619											
PRR23A	729627	broad.mit.edu	37	chr3	138724709	138724709	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcctgctcaacgacgacGtcctccctgagagcgcccag	8	7	9	17	4	1	1	1	1	0	1	4	4	4	1	4	0	3	1	4	0	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:138724709G>A	uc011bms.1	-	1	402	c.402C>T	c.(400-402)GAC>GAT	p.D134D		NM_001134659	NP_001128131	A6NEV1	PR23A_HUMAN	proline rich 23A	134											0						CAACGACGACGTCCTCCCTGA	0.637													5	27					0	0	1	0	0		A	138724709	A	A	138724709	2	1	214	1	0	0	0	0	0	0	0	1	12616	1136	40	1		1	PRR23A	3	138724709	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	94	138724709	59297721	202	106620											
CLSTN2	64084	broad.mit.edu	37	chr3	140122478	140122478	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catccttctgcaggggaaatCtgtgcgttcaagatccatgg	9	11	11	10	1	3	1	1	0	2	1	5	2	5	2	2	3	2	2	2	3	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:140122478C>T	uc003etn.2	+	3	430	c.240C>T	c.(238-240)ATC>ATT	p.I80I	CLSTN2_uc003etm.2_Silent_p.I80I	NM_022131	NP_071414	Q9H4D0	CSTN2_HUMAN	calsyntenin 2 precursor	80	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|plasma membrane	calcium ion binding			skin(3)|large_intestine(2)|pancreas(1)|central_nervous_system(1)	7						CAGGGGAAATCTGTGCGTTCA	0.532										HNSCC(16;0.037)			30	181					0	0	1	0	0		T	140122478	T	T	140122478	2	4	214	1	0	0	0	0	0	0	0	1	3565	903	32	4		4	CLSTN2	3	140122478	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1397769	140122478	57899952	203	106621											
ZBTB38	253461	broad.mit.edu	37	chr3	141164211	141164211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgatggagacaaagcagtggGggctggaaaccaaggaaggc	14	4	17	6	0	0	2	0	1	0	1	0	5	0	4	1	6	2	2	1	6	4	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:141164211G>A	uc003etw.2	+	8	3963	c.2981G>A	c.(2980-2982)GGG>GAG	p.G994E	ZBTB38_uc010hun.2_Missense_Mutation_p.G991E|ZBTB38_uc010huo.2_Missense_Mutation_p.G994E|ZBTB38_uc003ety.2_Missense_Mutation_p.G994E|ZBTB38_uc010hup.2_Missense_Mutation_p.G995E	NM_001080412	NP_001073881	Q8NAP3	ZBT38_HUMAN	zinc finger and BTB domain containing 38	994					positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						AAAGCAGTGGGGGCTGGAAAC	0.542													9	22					0	0	1	0	0		A	141164211	A	A	141164211	3	1	214	1	0	0	0	0	1	0	0	0	17564	1232	43	4	2983	4	ZBTB38	3	141164211	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1041733	141164211	56858219	204	106622											
MED12L	116931	broad.mit.edu	37	chr3	151083753	151083753	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcaaatcacgtgtgggggTttaatgatgtactttgcact	9	15	10	7	1	2	1	2	1	0	0	2	1	2	1	0	2	2	3	0	2	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:151083753T>G	uc003eyp.2	+	21	3234	c.3196T>G	c.(3196-3198)TTT>GTT	p.F1066V	MED12L_uc011bnz.1_Missense_Mutation_p.F926V|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.F229V	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1066					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CGTGTGGGGGTTTAATGATGT	0.368													65	85					0	0	1	0	0		G	151083753	G	G	151083753	3	3	214	1	0	0	0	0	1	0	0	0	9447	1725	60	5	3278	5	MED12L	3	151083753	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	9919542	151083753	46938677	205	106623											
GPR149	344758	broad.mit.edu	37	chr3	154147110	154147110	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacagaaattggaagtaacCggggacctcgtttggccact	11	8	12	10	2	0	1	0	0	0	1	1	3	0	3	3	4	1	3	3	4	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:154147110C>G	uc003faa.2	-	1	395	c.295G>C	c.(295-297)GGT>CGT	p.G99R		NM_001038705	NP_001033794	Q86SP6	GP149_HUMAN	G protein-coupled receptor 149	99	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(6)	6			LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.173)			TGGAAGTAACCGGGGACCTCG	0.488													15	145					0	0	1	0	0		G	154147110	G	G	154147110	3	3	214	1	0	0	0	0	1	0	0	0	6669	652	23	5	1916	5	GPR149	3	154147110	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3063357	154147110	43875320	206	106624											
SI	6476	broad.mit.edu	37	chr3	164755788	164755788	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatacatatcaacccgttGtttcctccatggcctttttg	9	15	6	11	1	1	1	1	0	0	1	3	1	3	1	4	1	2	2	4	1	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:164755788G>A	uc003fei.2	-	21	2388	c.2326C>T	c.(2326-2328)CAA>TAA	p.Q776*		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	776	Lumenal.|Isomaltase.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TCAACCCGTTGTTTCCTCCAT	0.343										HNSCC(35;0.089)			6	74					0	0	1	0	0		A	164755788	A	A	164755788	4	1	214	1	0	0	0	0	0	1	0	0	14322	1386	48	4	3269	4	SI	3	164755788	Nonsense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	10608678	164755788	33266642	207	106625											
WDR49	151790	broad.mit.edu	37	chr3	167277983	167277983	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cccagtgtctatcatccagaAggaaacagtagaccctgtat	13	9	8	11	0	2	2	1	0	1	2	3	3	3	3	3	1	1	2	3	1	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:167277983A>G	uc003fev.1	-	5	826	c.520T>C	c.(520-522)TTC>CTC	p.F174L	WDR49_uc003feu.1_5'UTR|WDR49_uc011bpd.1_Missense_Mutation_p.F227L|WDR49_uc003few.1_Intron	NM_178824	NP_849146	Q8IV35	WDR49_HUMAN	WD repeat domain 49	174	WD 3.									large_intestine(1)|ovary(1)|skin(1)	3						ATCATCCAGAAGGAAACAGTA	0.378													22	73					0	0	1	0	0		G	167277983	G	G	167277983	3	3	214	1	0	0	0	0	1	0	0	0	17328	72	3	3	1617	3	WDR49	3	167277983	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2522195	167277983	30744447	208	106626											
PIK3CA	5290	broad.mit.edu	37	chr3	178952085	178952085	+	Missense_Mutation	SNP	A	G	G	1	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	gaaacaaatgaatgatgcacAtcatggtggctggacaacaa	17	7	10	7	0	1	2	1	2	0	0	1	4	1	3	0	3	3	2	0	3	5	0	rs121913279		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:178952085A>G	uc003fjk.2	+	21	3297	c.3140A>G	c.(3139-3141)CAT>CGT	p.H1047R		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	1047	PI3K/PI4K.		H -> L (in cancer).|H -> R (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo; requires binding to p85 regulatory subunit to induce cellular transformation but not interaction with RAS; may mimic the conformatitonal change triggered by the interaction with RAS; enhances invadopodia-mediated extracellular matrix degradation and invasion in breast cancer cells; increases lipid kinase activity; may alter the interaction of the PI3K/ PI4K kinase domain with the cell membrane).|H -> Y (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.H1047R(1269)|p.H1047L(152)|p.H1047Y(31)|p.H1047Q(3)|p.H1047T(1)		breast(1564)|large_intestine(776)|endometrium(246)|urinary_tract(195)|ovary(141)|skin(112)|stomach(98)|thyroid(77)|central_nervous_system(69)|lung(65)|upper_aerodigestive_tract(58)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|prostate(3)|kidney(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3553	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)			AATGATGCACATCATGGTGGC	0.378	H1047R(BT20_BREAST)|H1047R(NCIH1048_LUNG)|H1047R(MCAS_OVARY)|H1047R(HCC1954_BREAST)|H1047R(RKO_LARGE_INTESTINE)|H1047L(EFM19_BREAST)|H1047R(CAL33_UPPER_AERODIGESTIVE_TRACT)|H1047R(CAL29_URINARY_TRACT)|H1047R(DETROIT562_UPPER_AERODIGESTIVE_TRACT)|H1047R(LS180_LARGE_INTESTINE)|H1047R(T47D_BREAST)|H1047R(HCT116_LARGE_INTESTINE)|H1047R(HSC2_UPPER_AERODIGESTIVE_TRACT)|H1047R(SKOV3_OVARY)|H1047R(MDAMB453_BREAST)	57	Mis		colorectal|gastric|gliobastoma|breast					HNSCC(19;0.045)|TSP Lung(28;0.18)			26	95					0	0	1	0	0		G	178952085	G	G	178952085	3	3	214	1	0	0	0	0	1	0	0	0	11932	217	8	3	3218	3	PIK3CA	3	178952085	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	11674102	178952085	19070345	209	106627											
KLHL6	89857	broad.mit.edu	37	chr3	183225953	183225953	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccgtctccacaaagtaccacGggtccagaagcggtaagcgc	11	5	11	14	4	1	1	0	0	1	1	3	1	2	1	4	2	3	2	4	2	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:183225953G>T	uc003flr.2	-	3	861	c.803C>A	c.(802-804)CCG>CAG	p.P268Q	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Missense_Mutation_p.P266Q	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	268	BACK.									haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			AAAGTACCACGGGTCCAGAAG	0.577													10	133					1.41608e-15	1.59658e-15	1	1	0		T	183225953	T	T	183225953	3	4	214	1	0	0	0	0	1	0	0	0	8409	1116	39	5	1082	5	KLHL6	3	183225953	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4273868	183225953	14796477	210	106628											
KLHL6	89857	broad.mit.edu	37	chr3	183245660	183245660	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	aggttagcagcctccaggacCcgctggacattctgcttggt	7	10	12	12	1	1	0	0	0	1	0	2	2	2	2	3	4	3	4	3	4	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:183245660C>A	uc003flr.2	-	2	490	c.432G>T	c.(430-432)CGG>CGT	p.R144R	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_Silent_p.R142R	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	144										haematopoietic_and_lymphoid_tissue(2)|ovary(1)	3	all_cancers(143;9.2e-12)|Ovarian(172;0.0172)		all cancers(12;1.29e-44)|Epithelial(37;1.24e-38)|LUSC - Lung squamous cell carcinoma(7;2.58e-24)|Lung(8;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(80;2.32e-22)			CCTCCAGGACCCGCTGGACAT	0.512													9	83					3.09899e-07	3.34457e-07	1	1	0		A	183245660	A	A	183245660	2	1	214	1	0	0	0	0	0	0	0	1	8409	610	22	5		5	KLHL6	3	183245660	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	19707	183245660	14776770	211	106629											
ABCC5	10057	broad.mit.edu	37	chr3	183643441	183643441	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtctgcaaatgcttctcggaTggtctcttgaatcaataagt	10	14	9	8	1	4	1	1	1	3	0	6	2	4	2	0	2	2	2	0	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:183643441T>C	uc003fmg.2	-	29	4279	c.4114A>G	c.(4114-4116)ATC>GTC	p.I1372V	ABCC5_uc011bqt.1_Missense_Mutation_p.I900V|ABCC5_uc010hxl.2_Missense_Mutation_p.I1329V	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	1372	ABC transporter 2.					integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			GCTTCTCGGATGGTCTCTTGA	0.498													7	95					0	0	1	0	0		C	183643441	C	C	183643441	3	2	214	1	0	0	0	0	1	0	0	0	56	1464	51	3	207	3	ABCC5	3	183643441	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	397781	183643441	14378989	212	106630											
EIF2B5	8893	broad.mit.edu	37	chr3	183860111	183860111	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gaggaagatgaagatgatggCgagttcagtgatgattctgg	12	10	16	3	1	2	6	1	4	1	2	2	9	2	7	0	3	0	1	0	3	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:183860111C>T	uc003fmp.2	+	9	1753	c.1389C>T	c.(1387-1389)GGC>GGT	p.G463G	EIF2B5_uc003fmq.2_Silent_p.G184G|EIF2B5_uc003fmr.2_5'Flank	NM_003907	NP_003898	Q13144	EI2BE_HUMAN	eukaryotic translation initiation factor 2B,	463					astrocyte development|myelination|negative regulation of translational initiation in response to stress|oligodendrocyte development|ovarian follicle development|positive regulation of translational initiation|response to glucose stimulus|response to heat|response to peptide hormone stimulus|RNA metabolic process	cytosol|eukaryotic translation initiation factor 2B complex|nucleus	guanyl-nucleotide exchange factor activity|transferase activity|translation initiation factor activity|translation initiation factor binding			ovary(5)	5	all_cancers(143;7.59e-11)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			AAGATGATGGCGAGTTCAGTG	0.517													9	77					0	0	1	0	0		T	183860111	T	T	183860111	2	4	214	1	0	0	0	0	0	0	0	1	5010	755	27	1		1	EIF2B5	3	183860111	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	216670	183860111	14162319	213	106631											
DVL3	1857	broad.mit.edu	37	chr3	183885371	183885371	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcctcccacccccaggccTagacgacttccacttgtcca	7	8	6	20	1	0	1	0	0	0	1	3	2	3	1	7	1	1	0	7	1	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:183885371T>C	uc003fms.2	+	12	1342	c.1202T>C	c.(1201-1203)CTA>CCA	p.L401P	DVL3_uc011bqw.1_Missense_Mutation_p.L384P|DVL3_uc003fmt.2_Missense_Mutation_p.L72P|DVL3_uc003fmu.2_Missense_Mutation_p.L233P	NM_004423	NP_004414	Q92997	DVL3_HUMAN	dishevelled 3	401					canonical Wnt receptor signaling pathway|intracellular signal transduction|positive regulation of JUN kinase activity|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent	cytoplasm	beta-catenin binding|frizzled binding|protease binding|protein heterodimerization activity|signal transducer activity			ovary(1)|lung(1)|breast(1)	3	all_cancers(143;1.12e-10)|Ovarian(172;0.0339)		Epithelial(37;2.08e-34)|OV - Ovarian serous cystadenocarcinoma(80;1.31e-22)			CCCCCAGGCCTAGACGACTTC	0.328													8	62					0	0	1	0	0		C	183885371	C	C	183885371	3	2	214	1	0	0	0	0	1	0	0	0	4843	1522	53	3	1248	3	DVL3	3	183885371	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	25260	183885371	14137059	214	106632											
ECE2	9718	broad.mit.edu	37	chr3	184009927	184009927	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cacagccctgcccgcttccgCgtgctgggcactctctccaa	5	8	9	19	3	1	0	0	0	1	0	4	0	3	0	4	1	3	3	4	1	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:184009927C>T	uc003fni.3	+	19	2591	c.2553C>T	c.(2551-2553)CGC>CGT	p.R851R	ECE2_uc003fnl.3_Silent_p.R779R|ECE2_uc003fnm.3_Silent_p.R733R|ECE2_uc003fnk.3_Silent_p.R704R	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	851	Lumenal (Potential).|Endothelin-converting enzyme 2 region.				brain development|cardioblast differentiation|cell-cell signaling|peptide hormone processing	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	metal ion binding|metalloendopeptidase activity|methyltransferase activity			ovary(2)|skin(2)	4	all_cancers(143;1.39e-10)|Ovarian(172;0.0339)		Epithelial(37;8.28e-34)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CCCGCTTCCGCGTGCTGGGCA	0.672													21	85					0	0	1	0	0		T	184009927	T	T	184009927	2	4	214	1	0	0	0	0	0	0	0	1	4896	755	27	1		1	ECE2	3	184009927	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	124556	184009927	14012503	215	106633											
HRASLS	57110	broad.mit.edu	37	chr3	192973483	192973483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tttgaactaccctggcaaccCctgcccaggggacttgatcg	8	9	10	14	1	0	2	0	2	0	0	1	3	0	3	4	3	4	1	4	3	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:192973483C>T	uc003fta.2	+	2	449	c.44C>T	c.(43-45)CCC>CTC	p.P15L		NM_020386	NP_065119	Q9HDD0	HRSL1_HUMAN	HRAS-like suppressor	15											0	all_cancers(143;9.1e-09)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000159)		CCTGGCAACCCCTGCCCAGGG	0.468													7	188					0	0	1	0	0		T	192973483	T	T	192973483	3	4	214	1	0	0	0	0	1	0	0	0	7365	623	22	4	46	4	HRASLS	3	192973483	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8963556	192973483	5048947	216	106634											
ATP13A3	79572	broad.mit.edu	37	chr3	194158139	194158139	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggcaaccacactcatacGttgcaaagcagaagaaaatg	16	6	8	11	1	1	2	1	0	0	2	1	2	1	2	2	1	4	4	2	1	6	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:194158139G>A	uc003fty.3	-	18	2302	c.1900C>T	c.(1900-1902)CGT>TGT	p.R634C	ATP13A3_uc003ftz.1_Missense_Mutation_p.R340C	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	634					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		ACACTCATACGTTGCAAAGCA	0.458													20	87					0	0	1	0	0		A	194158139	A	A	194158139	3	1	214	1	0	0	0	0	1	0	0	0	1126	1145	40	1	1840	1	ATP13A3	3	194158139	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1184656	194158139	3864291	217	106635											
C3orf21	152002	broad.mit.edu	37	chr3	194790641	194790641	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgaagaagtcctggtcccCgaggtggccgcggaagtggt	7	7	18	9	3	0	2	0	1	0	1	2	4	2	3	4	6	0	0	4	6	3	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:194790641C>T	uc003fum.3	-	4	1093	c.985G>A	c.(985-987)GGG>AGG	p.G329R	C3orf21_uc003ful.2_Missense_Mutation_p.G126R|C3orf21_uc003fuk.2_Missense_Mutation_p.G123R	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	329						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		TCCTGGTCCCCGAGGTGGCCG	0.652													12	71					0	0	1	0	0		T	194790641	T	T	194790641	3	4	214	1	0	0	0	0	1	0	0	0	2217	652	23	1	200	1	C3orf21	3	194790641	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	632502	194790641	3231789	218	106636											
MUC4	4585	broad.mit.edu	37	chr3	195474070	195474070	+	Missense_Mutation	SNP	T	C	C	0	1	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	aggcaaggcctcagctgagtTcaggaaataggagaacctgg	13	6	14	8	0	2	2	2	1	0	1	2	4	2	3	2	5	2	3	2	5	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr3:195474070T>C	uc011bto.1	-	26	16292	c.15832A>G	c.(15832-15834)AAC>GAC	p.N5278D	MUC4_uc010hzq.2_Missense_Mutation_p.N263D|MUC4_uc003fuz.2_Missense_Mutation_p.N1004D|MUC4_uc003fva.2_Missense_Mutation_p.N886D|MUC4_uc003fvb.2_Missense_Mutation_p.N922D|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.N922D|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.N886D|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.N970D|MUC4_uc011bti.1_Missense_Mutation_p.N970D|MUC4_uc011btj.1_Missense_Mutation_p.N1147D|MUC4_uc011btk.1_Missense_Mutation_p.N886D|MUC4_uc011btl.1_Missense_Mutation_p.N915D|MUC4_uc011btm.1_Missense_Mutation_p.N1095D|MUC4_uc011btn.1_Missense_Mutation_p.N886D|MUC4_uc003fvo.2_Missense_Mutation_p.N1170D|MUC4_uc003fvp.2_Missense_Mutation_p.N1119D	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	2163					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		TCAGCTGAGTTCAGGAAATAG	0.602													9	178					0	0	1	0	0		C	195474070	C	C	195474070	3	2	214	1	0	0	0	0	1	0	0	0	9996	1783	62	3	26	3	MUC4	3	195474070	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	683429	195474070	2548360	219	106637											
HTT	3064	broad.mit.edu	37	chr4	3146957	3146957	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtttaggttggcactgtgggTatgtattttcctcagtatat	7	18	11	5	0	1	0	1	0	0	0	2	0	2	0	1	3	0	6	1	3	5	9			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:3146957T>C	uc011bvq.1	+	25	3294	c.3149_splice	c.e25+2	p.G1050_splice		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin						establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		GCACTGTGGGTATGTATTTTC	0.343													6	74					0	0	1	0	0		C	3146957	C	C	3146957	5	2	214	1	0	0	0	0	0	0	1	0	7473	1652	57	3	3239	3	HTT	4	3146957	Splice_Site	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08		3146957	188007319	220	106638											
SLIT2	9353	broad.mit.edu	37	chr4	20568977	20568977	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaatagtgatccagttgacTtttaccgatgcacctgtcca	10	13	8	10	1	0	2	0	2	0	0	2	3	2	2	4	0	2	3	4	0	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:20568977T>G	uc003gpr.1	+	27	3022	c.2818T>G	c.(2818-2820)TTT>GTT	p.F940V	SLIT2_uc003gps.1_Missense_Mutation_p.F932V	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	940	EGF-like 1.				apoptosis involved in luteolysis|axon extension involved in axon guidance|branching morphogenesis of a tube|cell migration involved in sprouting angiogenesis|cellular response to heparin|cellular response to hormone stimulus|chemorepulsion involved in postnatal olfactory bulb interneuron migration|corticospinal neuron axon guidance through spinal cord|induction of negative chemotaxis|motor axon guidance|negative regulation of actin filament polymerization|negative regulation of cell growth|negative regulation of cellular response to growth factor stimulus|negative regulation of chemokine-mediated signaling pathway|negative regulation of endothelial cell migration|negative regulation of lamellipodium assembly|negative regulation of mononuclear cell migration|negative regulation of neutrophil chemotaxis|negative regulation of protein phosphorylation|negative regulation of retinal ganglion cell axon guidance|negative regulation of small GTPase mediated signal transduction|negative regulation of smooth muscle cell chemotaxis|negative regulation of vascular permeability|positive regulation of apoptosis|positive regulation of axonogenesis|response to cortisol stimulus|retinal ganglion cell axon guidance|Roundabout signaling pathway|ureteric bud development	cell surface|cytoplasm|extracellular space|plasma membrane	calcium ion binding|GTPase inhibitor activity|heparin binding|laminin-1 binding|protein homodimerization activity|proteoglycan binding|Roundabout binding			central_nervous_system(4)|skin(4)|ovary(3)	11						TCCAGTTGACTTTTACCGATG	0.383													21	114					0	0	1	0	0		G	20568977	G	G	20568977	3	3	214	1	0	0	0	0	1	0	0	0	14765	1609	56	5	2924	5	SLIT2	4	20568977	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	17422020	20568977	170585299	221	106639											
PCDH7	5099	broad.mit.edu	37	chr4	30725990	30725990	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcatggggcgatacaggtcCgttaatggtgggcccggcag	8	7	17	9	3	0	0	0	0	0	0	1	1	1	0	2	6	2	3	2	6	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:30725990C>T	uc003gsk.1	+	1	3954	c.2946C>T	c.(2944-2946)TCC>TCT	p.S982S	PCDH7_uc011bxw.1_Silent_p.S935S|PCDH7_uc011bxx.1_Silent_p.S982S	NM_002589	NP_002580	O60245	PCDH7_HUMAN	protocadherin 7 isoform a precursor	982	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|liver(1)|skin(1)	4						GATACAGGTCCGTTAATGGTG	0.522													16	43					0	0	1	0	0		T	30725990	T	T	30725990	2	4	214	1	0	0	0	0	0	0	0	1	11535	639	23	1		1	PCDH7	4	30725990	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	10157013	30725990	160428286	222	106640											
UGT2B28	54490	broad.mit.edu	37	chr4	70160477	70160477	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcgtcacaaagttttgtctgTtttgtttctggaagtttgct	6	20	9	6	1	3	0	1	0	2	0	4	1	3	1	0	1	1	5	0	1	2	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:70160477T>G	uc003hej.2	+	6	1542	c.1540T>G	c.(1540-1542)TTT>GTT	p.F514V	UGT2B28_uc010ihr.2_3'UTR	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	514	Helical; (Potential).				xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(1)	1					Flunitrazepam(DB01544)	GTTTTGTCTGTTTTGTTTCTG	0.433													6	75					0	0	1	0	0		G	70160477	G	G	70160477	3	3	214	1	0	0	0	0	1	0	0	0	16986	1725	60	5	1562	5	UGT2B28	4	70160477	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	39434487	70160477	120993799	223	106641											
GRSF1	2926	broad.mit.edu	37	chr4	71701916	71701916	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	cttccatagtgcatgaccagGgcagtccttgagctcgaatg	9	10	11	11	1	0	2	0	2	0	0	3	3	2	2	3	1	2	3	3	1	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:71701916G>T	uc010iia.1	-	2	556	c.473C>A	c.(472-474)CCC>CAC	p.P158H	GRSF1_uc011caz.1_Missense_Mutation_p.P40H|GRSF1_uc003hfs.2_5'UTR	NM_002092	NP_002083	Q12849	GRSF1_HUMAN	G-rich RNA sequence binding factor 1 isoform 1	158	RRM 1.				mRNA polyadenylation		mRNA binding|nucleotide binding				0		all_hematologic(202;0.21)	Lung(101;0.235)			GCATGACCAGGGCAGTCCTTG	0.383													4	23					0.00909568	0.00930166	1	1	0		T	71701916	T	T	71701916	3	4	214	1	0	0	0	0	1	0	0	0	6825	1232	43	5	1001	5	GRSF1	4	71701916	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1541439	71701916	119452360	224	106642											
FRAS1	80144	broad.mit.edu	37	chr4	79429907	79429907	+	Missense_Mutation	SNP	A	C	C	1	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	ggtcacacttgctgactatgAccatgtggaagaagttacca	12	10	10	9	0	1	3	1	2	0	1	1	4	1	4	2	2	2	2	2	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:79429907A>C	uc003hlb.2	+	63	9967	c.9527A>C	c.(9526-9528)GAC>GCC	p.D3176A	FRAS1_uc003hlc.1_Missense_Mutation_p.D178A	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1	3171	Extracellular (Potential).				cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						GCTGACTATGACCATGTGGAA	0.512													3	27					0	0	1	0	0		C	79429907	C	C	79429907	3	2	214	1	0	0	0	0	1	0	0	0	6056	275	10	5	9852	5	FRAS1	4	79429907	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	7727991	79429907	111724369	225	106643											
WDFY3	23001	broad.mit.edu	37	chr4	85654581	85654581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggcacgtaagggtaatggTtataaaacatatcatttcgc	13	12	9	7	2	1	0	1	0	0	0	2	0	1	0	0	3	1	4	0	3	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:85654581T>C	uc003hpd.2	-	44	7583	c.7175A>G	c.(7174-7176)AAC>AGC	p.N2392S	WDFY3_uc003hpe.1_Missense_Mutation_p.N20S	NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2392						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		AGGGTAATGGTTATAAAACAT	0.463													36	226					0	0	1	0	0		C	85654581	C	C	85654581	3	2	214	1	0	0	0	0	1	0	0	0	17296	1725	60	3	3505	3	WDFY3	4	85654581	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	6224674	85654581	105499695	226	106644											
WDFY3	23001	broad.mit.edu	37	chr4	85707266	85707266	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	taatgacacaggggatggcaCcaccccttcggattttgcat	10	10	10	11	1	0	1	0	1	0	0	1	3	0	3	3	4	1	2	3	4	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:85707266C>A	uc003hpd.2	-	24	4336	c.3928G>T	c.(3928-3930)GTG>TTG	p.V1310L		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	1310						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		GGGGATGGCACCACCCCTTCG	0.388													12	54					6.40141e-05	6.74743e-05	1	1	0		A	85707266	A	A	85707266	3	1	214	1	0	0	0	0	1	0	0	0	17296	507	18	5	6832	5	WDFY3	4	85707266	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	52685	85707266	105447010	227	106645											
PTPN13	5783	broad.mit.edu	37	chr4	87735668	87735668	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgacacgtcttcaagcagaAgaagagcaaaaacagcagcc	17	4	9	11	1	2	4	1	1	1	3	2	4	2	4	1	0	5	3	1	0	5	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:87735668A>G	uc003hpz.2	+	48	7902	c.7422A>G	c.(7420-7422)GAA>GAG	p.E2474E	PTPN13_uc003hpy.2_Silent_p.E2479E|PTPN13_uc003hqa.2_Silent_p.E2455E|PTPN13_uc003hqb.2_Silent_p.E2283E	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	2474				E->D: No effect on substrate affinity.		cytoplasm|cytoskeleton|plasma membrane	protein binding|protein binding|protein tyrosine phosphatase activity			ovary(4)|breast(1)|kidney(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.00082)		TTCAAGCAGAAGAAGAGCAAA	0.408													8	34					0	0	1	0	0		G	87735668	G	G	87735668	2	3	214	1	0	0	0	0	0	0	0	1	12805	69	3	3		3	PTPN13	4	87735668	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2028402	87735668	103418608	228	106646											
GRID2	2895	broad.mit.edu	37	chr4	94690430	94690430	+	Silent	SNP	G	A	A	0	0	1	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	tggtggcctaagaatggccaGtgtgacctgtactcgtcagt	8	11	13	9	1	1	2	1	1	0	1	2	2	1	2	3	3	1	1	3	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:94690430G>A	uc011cdt.1	+	15	2688	c.2430G>A	c.(2428-2430)CAG>CAA	p.Q810Q	GRID2_uc011cdu.1_Silent_p.Q715Q	NM_001510	NP_001501	O43424	GRID2_HUMAN	glutamate receptor, ionotropic, delta 2	810	Extracellular (Potential).				glutamate signaling pathway	cell junction|integral to plasma membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)	6		Hepatocellular(203;0.114)|all_hematologic(202;0.177)		OV - Ovarian serous cystadenocarcinoma(123;3.22e-06)|LUSC - Lung squamous cell carcinoma(81;0.185)|Lung(65;0.191)	L-Glutamic Acid(DB00142)	AGAATGGCCAGTGTGACCTGT	0.488													33	59					0	0	1	0	0		A	94690430	A	A	94690430	2	1	214	1	0	0	0	0	0	0	0	1	6788	1020	36	4		4	GRID2	4	94690430	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6954762	94690430	96463846	229	106647											
PDLIM5	10611	broad.mit.edu	37	chr4	95506806	95506806	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagaagagactgattgaggaTactgaagactggcgtccaag	15	7	13	6	1	0	6	0	3	0	3	1	8	1	7	1	2	1	0	1	2	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:95506806T>C	uc003hti.2	+	6	952	c.801T>C	c.(799-801)GAT>GAC	p.D267D	PDLIM5_uc003htf.2_Silent_p.D144D|PDLIM5_uc003htg.2_Silent_p.D164D|PDLIM5_uc011cdx.1_Silent_p.D164D|PDLIM5_uc003hth.2_Silent_p.D158D|PDLIM5_uc003htj.2_5'UTR|PDLIM5_uc003htk.2_Silent_p.D164D|PDLIM5_uc011cdy.1_Silent_p.D145D|PDLIM5_uc003htl.2_5'UTR	NM_006457	NP_006448	Q96HC4	PDLI5_HUMAN	PDZ and LIM domain 5 isoform a	267					regulation of dendritic spine morphogenesis|regulation of synaptogenesis	actin cytoskeleton|cell junction|cytosol|postsynaptic density|postsynaptic membrane|synaptosome	actin binding|actinin binding|protein kinase C binding|zinc ion binding			ovary(1)|skin(1)	2		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.84e-09)		TGATTGAGGATACTGAAGACT	0.468													6	64					0	0	1	0	0		C	95506806	C	C	95506806	2	2	214	1	0	0	0	0	0	0	0	1	11702	1403	49	3		3	PDLIM5	4	95506806	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	816376	95506806	95647470	230	106648											
C4orf17	84103	broad.mit.edu	37	chr4	100460468	100460468	+	Silent	SNP	A	C	C	1	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	cccacagttaaattgcccccAaattttactgcaaaatcaaa	16	10	3	12	0	1	0	1	0	0	0	1	0	1	0	3	0	3	2	3	0	7	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:100460468A>C	uc003huw.2	+	7	1100	c.777A>C	c.(775-777)CCA>CCC	p.P259P	C4orf17_uc003hux.2_RNA	NM_032149	NP_115525	Q53FE4	CD017_HUMAN	hypothetical protein LOC84103	259											0				OV - Ovarian serous cystadenocarcinoma(123;2.08e-08)		AATTGCCCCCAAATTTTACTG	0.468													32	67					0	0	1	0	0		C	100460468	C	C	100460468	2	2	214	1	0	0	0	0	0	0	0	1	2255	117	5	5		5	C4orf17	4	100460468	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4953662	100460468	90693808	231	106649											
PPP3CA	5530	broad.mit.edu	37	chr4	101961640	101961640	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	agagtacgaatgcacccaccTgagcactgagaacactctgg	13	6	10	12	1	1	3	0	2	1	2	1	5	1	3	2	1	4	3	2	1	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:101961640T>A	uc011cen.1	-	11	1915	c.1240A>T	c.(1240-1242)AGA>TGA	p.R414*	PPP3CA_uc003hvu.2_Nonsense_Mutation_p.R414*|PPP3CA_uc010ilj.2_Nonsense_Mutation_p.R372*|PPP3CA_uc003hvt.2_Nonsense_Mutation_p.R401*|PPP3CA_uc003hvs.2_Nonsense_Mutation_p.R347*|PPP3CA_uc010ilk.2_Nonsense_Mutation_p.R182*	NM_000944	NP_000935	Q08209	PP2BA_HUMAN	protein phosphatase 3, catalytic subunit, alpha	414	Calmodulin-binding (Potential).				protein dephosphorylation	calcineurin complex|cytosol|nucleus	calcium ion binding|calmodulin binding			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(123;6.79e-08)		TGCACCCACCTGAGCACTGAG	0.378													12	61					0	0	1	0	0		A	101961640	A	A	101961640	4	1	214	1	0	0	0	0	0	1	0	0	12419	1594	55	5	341	5	PPP3CA	4	101961640	Nonsense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1501172	101961640	89192636	232	106650											
C4orf21	55345	broad.mit.edu	37	chr4	113524722	113524722	+	Silent	SNP	T	C	C	0	1	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	cacgtgctaggtaactctggTgtctctgtcataaagttttc	8	15	9	9	1	3	0	1	0	2	0	5	0	3	0	0	2	2	3	0	2	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:113524722T>C	uc003iau.2	-	10	3145	c.2934A>G	c.(2932-2934)ACA>ACG	p.T978T	C4orf21_uc003iaw.2_Silent_p.T978T	NM_018392	NP_060862	Q6ZU11	YD002_HUMAN	prematurely terminated mRNA decay factor-like	Error:Variant_position_missing_in_Q6ZU11_after_alignment						integral to membrane	zinc ion binding				0		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000676)		GTAACTCTGGTGTCTCTGTCA	0.383													7	62					0	0	1	0	0		C	113524722	C	C	113524722	2	2	214	1	0	0	0	0	0	0	0	1	2257	1683	59	3		3	C4orf21	4	113524722	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	11563082	113524722	77629554	233	106651											
NDST4	64579	broad.mit.edu	37	chr4	115773957	115773957	+	Silent	SNP	T	C	C	0	1	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	ctggaccagatgtctttgtgTcgtttatcatcacatggatt	8	16	9	8	1	3	1	2	0	1	1	4	3	3	3	1	2	0	1	1	2	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:115773957T>C	uc003ibu.2	-	8	2419	c.1740A>G	c.(1738-1740)CGA>CGG	p.R580R	NDST4_uc010imw.2_RNA	NM_022569	NP_072091	Q9H3R1	NDST4_HUMAN	heparan sulfate N-deacetylase/N-sulfotransferase	580	Lumenal (Potential).|Heparan sulfate N-deacetylase 4.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			skin(3)|ovary(1)	4		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.000562)		TGTCTTTGTGTCGTTTATCAT	0.368													4	40					0	0	1	0	0		C	115773957	C	C	115773957	2	2	214	1	0	0	0	0	0	0	0	1	10277	1654	58	3		3	NDST4	4	115773957	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2249235	115773957	75380319	234	106652											
KIAA1109	84162	broad.mit.edu	37	chr4	123283396	123283396	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaggcaaagacaaagaagaAcactaaaaaagtaatttgat	24	6	7	4	0	0	4	0	1	0	3	0	4	0	4	0	1	1	2	0	1	9	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:123283396A>G	uc003ieh.2	+	84	15057	c.15012A>G	c.(15010-15012)GAA>GAG	p.E5004E	KIAA1109_uc003iem.2_Silent_p.E1360E	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	5004					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ACAAAGAAGAACACTAAAAAA	0.303													3	42					0	0	1	0	0		G	123283396	G	G	123283396	2	3	214	1	0	0	0	0	0	0	0	1	8224	40	2	3		3	KIAA1109	4	123283396	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	7509439	123283396	67870880	235	106653											
ADAD1	132612	broad.mit.edu	37	chr4	123336654	123336654	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagacctcatattagtttagTaccctctgcatatccccttc	9	14	4	14	0	2	1	1	0	1	1	4	1	3	1	4	0	2	3	4	0	5	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:123336654T>C	uc003ieo.2	+	11	1602	c.1370T>C	c.(1369-1371)GTA>GCA	p.V457A	ADAD1_uc003iep.2_Missense_Mutation_p.V446A|ADAD1_uc003ieq.2_Missense_Mutation_p.V439A	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	457	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						ATTAGTTTAGTACCCTCTGCA	0.393													6	195					0	0	1	0	0		C	123336654	C	C	123336654	3	2	214	1	0	0	0	0	1	0	0	0	231	1638	57	3	1404	3	ADAD1	4	123336654	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	53258	123336654	67817622	236	106654											
ADAD1	132612	broad.mit.edu	37	chr4	123342544	123342544	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtacatatcatgcagctaAggtaagtccttaaaggaata	15	11	9	6	0	1	0	1	0	0	0	2	1	2	1	1	3	3	4	1	3	8	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:123342544A>C	uc003ieo.2	+	12	1848	c.1616A>C	c.(1615-1617)AAG>ACG	p.K539T	ADAD1_uc003iep.2_Missense_Mutation_p.K528T|ADAD1_uc003ieq.2_Missense_Mutation_p.K521T	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	539	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						CATGCAGCTAAGGTAAGTCCT	0.338													6	21					0	0	1	0	0		C	123342544	C	C	123342544	3	2	214	1	0	0	0	0	1	0	0	0	231	86	3	5	1654	5	ADAD1	4	123342544	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5890	123342544	67811732	237	106655											
NUDT6	11162	broad.mit.edu	37	chr4	123814250	123814250	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgaatgaatatggctttagGcggcagatgatatacatatc	13	12	11	5	1	0	4	0	3	0	1	1	4	0	4	0	3	1	2	0	3	7	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:123814250G>A	uc003iew.2	-	5	716	c.684C>T	c.(682-684)CGC>CGT	p.R228R	FGF2_uc003iev.1_3'UTR|NUDT6_uc003iex.2_Silent_p.R59R	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	228	Nudix hydrolase.					mitochondrion|nucleus	growth factor activity|hydrolase activity				0						ATGGCTTTAGGCGGCAGATGA	0.418													9	120					0	0	1	0	0		A	123814250	A	A	123814250	2	1	214	1	0	0	0	0	0	0	0	1	10762	1190	42	2		2	NUDT6	4	123814250	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	471706	123814250	67340026	238	106656											
ANKRD50	57182	broad.mit.edu	37	chr4	125590260	125590260	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtatccctccaacacttccTgatgccctctatcttgcatt	7	14	5	15	0	2	1	0	1	2	0	5	1	5	1	4	1	3	2	4	1	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:125590260T>C	uc003ifg.3	-	3	4438	c.4172A>G	c.(4171-4173)CAG>CGG	p.Q1391R	ANKRD50_uc011cgo.1_Missense_Mutation_p.Q1212R|ANKRD50_uc010inw.2_Missense_Mutation_p.Q1391R	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	1391										central_nervous_system(1)	1						CAACACTTCCTGATGCCCTCT	0.413													6	95					0	0	1	0	0		C	125590260	C	C	125590260	3	2	214	1	0	0	0	0	1	0	0	0	677	1580	55	3	121	3	ANKRD50	4	125590260	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1776010	125590260	65564016	239	106657											
HHIP	64399	broad.mit.edu	37	chr4	145640026	145640026	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgttatttctttctttaacaGgtgaagtttacattttatca	10	21	5	5	0	3	1	1	1	2	0	3	1	3	1	0	1	2	2	0	1	5	9			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:145640026G>T	uc003ijs.1	+	11	2334	c.1679_splice	c.e11-1	p.G560_splice		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor							cytoplasm|extracellular region	catalytic activity|protein binding|zinc ion binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.0185)		TTCTTTAACAGGTGAAGTTTA	0.333													4	49					0.014758	0.0150206	1	1	0		T	145640026	T	T	145640026	5	4	214	1	0	0	0	0	0	0	1	0	7108	1014	35	5	1720	5	HHIP	4	145640026	Splice_Site	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	20049766	145640026	45514250	240	106658											
ABCE1	6059	broad.mit.edu	37	chr4	146025624	146025624	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gacaaatgtaaacctaagaaAtgtcgacaggaatgcaaaaa	21	6	8	6	1	0	1	0	0	0	1	1	4	0	2	1	1	2	2	1	1	8	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:146025624A>G	uc003ijx.2	+	2	500	c.60A>G	c.(58-60)AAA>AAG	p.K20K	ABCE1_uc003ijy.2_Silent_p.K20K|ABCE1_uc010iot.2_RNA	NM_001040876	NP_001035809	P61221	ABCE1_HUMAN	ATP-binding cassette, sub-family E, member 1	20	4Fe-4S ferredoxin-type 1.				interspecies interaction between organisms|response to virus|RNA catabolic process	mitochondrion	ATP binding|ATPase activity|electron carrier activity|iron-sulfur cluster binding|ribonuclease inhibitor activity			skin(1)	1	all_hematologic(180;0.151)					AACCTAAGAAATGTCGACAGG	0.363													12	46					0	0	1	0	0		G	146025624	G	G	146025624	2	3	214	1	0	0	0	0	0	0	0	1	64	98	4	3		3	ABCE1	4	146025624	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	385598	146025624	45128652	241	106659											
FHDC1	85462	broad.mit.edu	37	chr4	153897212	153897212	+	Silent	SNP	A	G	G	1	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	tggaggcgaccagagctgtcAtcccgggggccctcccagaa	8	5	14	14	2	1	2	1	0	0	2	3	4	3	3	4	4	1	1	4	4	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:153897212A>G	uc003inf.2	+	11	2844	c.2769A>G	c.(2767-2769)TCA>TCG	p.S923S		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	923					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					CAGAGCTGTCATCCCGGGGGC	0.662													5	30					0	0	1	0	0		G	153897212	G	G	153897212	2	3	214	1	0	0	0	0	0	0	0	1	5890	204	8	3		3	FHDC1	4	153897212	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	7871588	153897212	37257064	242	106660											
GUCY1A3	2982	broad.mit.edu	37	chr4	156618035	156618035	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaccatgttctgcacgaagCtcaaggatctcaagatcaca	14	8	7	12	1	4	1	3	0	2	1	5	3	4	2	1	1	2	3	1	1	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:156618035C>T	uc003iov.2	+	4	552	c.16C>T	c.(16-18)CTC>TTC	p.L6F	GUCY1A3_uc003iou.2_Missense_Mutation_p.L6F|GUCY1A3_uc010iqc.2_Missense_Mutation_p.L6F|GUCY1A3_uc003iow.2_Missense_Mutation_p.L6F|GUCY1A3_uc010iqd.2_Missense_Mutation_p.L6F|GUCY1A3_uc003iox.2_Missense_Mutation_p.L6F|GUCY1A3_uc003ioz.2_Intron|GUCY1A3_uc003ioy.2_Missense_Mutation_p.L6F|GUCY1A3_uc010iqe.2_5'UTR|GUCY1A3_uc003ipa.2_RNA|GUCY1A3_uc003ipb.2_Missense_Mutation_p.L6F	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	6					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		CTGCACGAAGCTCAAGGATCT	0.493													5	39					0	0	1	0	0		T	156618035	T	T	156618035	3	4	214	1	0	0	0	0	1	0	0	0	6910	797	28	2	18	2	GUCY1A3	4	156618035	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2720823	156618035	34536241	243	106661											
RAPGEF2	9693	broad.mit.edu	37	chr4	160273979	160273979	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatgagaggcgccagaggcaTtctgtcagcatcgtggaaac	11	7	14	9	2	2	2	1	1	1	2	3	5	2	3	1	3	2	2	1	3	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:160273979T>C	uc003iqg.3	+	21	3835	c.3525T>C	c.(3523-3525)CAT>CAC	p.H1175H		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1175					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GCCAGAGGCATTCTGTCAGCA	0.483													7	58					0	0	1	0	0		C	160273979	C	C	160273979	2	2	214	1	0	0	0	0	0	0	0	1	13069	1490	52	3		3	RAPGEF2	4	160273979	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3655944	160273979	30880297	244	106662											
SH3RF1	57630	broad.mit.edu	37	chr4	170028302	170028302	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgctggaggagacacgcgggGcttccgtttagtggaggcgc	6	8	18	9	4	0	1	0	0	0	1	1	4	1	3	1	6	1	3	1	6	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:170028302G>A	uc003isa.1	-	11	2529	c.2194C>T	c.(2194-2196)CCC>TCC	p.P732S		NM_020870	NP_065921	Q7Z6J0	SH3R1_HUMAN	SH3 domain containing ring finger 1	732						Golgi apparatus|lamellipodium|perinuclear region of cytoplasm	ligase activity|zinc ion binding			breast(2)|lung(1)	3		Prostate(90;0.00267)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)		GACACGCGGGGCTTCCGTTTA	0.532													7	65					0	0	1	0	0		A	170028302	A	A	170028302	3	1	214	1	0	0	0	0	1	0	0	0	14283	1203	42	2	480	2	SH3RF1	4	170028302	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	9754323	170028302	21125974	245	106663											
WDR17	116966	broad.mit.edu	37	chr4	177063174	177063174	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtaaagtgctacacaaatatAaacatccagctgcagtgttt	15	11	7	8	0	0	0	0	0	0	0	1	0	1	0	1	0	5	5	1	0	7	5	rs77119360		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:177063174A>C	uc003iuj.2	+	12	1711	c.1555A>C	c.(1555-1557)AAA>CAA	p.K519Q	WDR17_uc003iuk.2_Missense_Mutation_p.K495Q|WDR17_uc003ium.3_Missense_Mutation_p.K495Q|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	519	WD 9.									ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		ACACAAATATAAACATCCAGC	0.259													4	91					0	0	1	0	0		C	177063174	C	C	177063174	3	2	214	1	0	0	0	0	1	0	0	0	17303	363	13	5	1597	5	WDR17	4	177063174	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	7034872	177063174	14091102	246	106664											
NEIL3	55247	broad.mit.edu	37	chr4	178283481	178283481	+	Silent	SNP	G	A	A	0	0	1	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	ccattctgcaaccatggcaaGcgttccaccatgaaaacagt	13	8	7	13	1	1	1	0	1	1	0	2	1	2	1	4	1	4	3	4	1	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:178283481G>A	uc003iut.2	+	10	1791	c.1674G>A	c.(1672-1674)AAG>AAA	p.K558K		NM_018248	NP_060718	Q8TAT5	NEIL3_HUMAN	nei endonuclease VIII-like 3	558					base-excision repair|nucleotide-excision repair	nucleus	bubble DNA binding|damaged DNA binding|DNA N-glycosylase activity|DNA-(apurinic or apyrimidinic site) lyase activity|double-stranded DNA binding|single-stranded DNA binding|zinc ion binding			lung(2)|ovary(1)|central_nervous_system(1)	4		Breast(14;6.27e-05)|Melanoma(52;0.00102)|Renal(120;0.00988)|Prostate(90;0.00996)|all_hematologic(60;0.014)|all_neural(102;0.164)		all cancers(43;1.96e-23)|Epithelial(43;2.52e-20)|OV - Ovarian serous cystadenocarcinoma(60;1.89e-11)|GBM - Glioblastoma multiforme(59;9.49e-05)|Colorectal(24;0.00013)|COAD - Colon adenocarcinoma(29;0.000696)|STAD - Stomach adenocarcinoma(60;0.00308)|LUSC - Lung squamous cell carcinoma(193;0.0398)|READ - Rectum adenocarcinoma(43;0.191)		ACCATGGCAAGCGTTCCACCA	0.373								BER_DNA_glycosylases					8	44					0	0	1	0	0		A	178283481	A	A	178283481	2	1	214	1	0	0	0	0	0	0	0	1	10339	962	34	2		2	NEIL3	4	178283481	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1220307	178283481	12870795	247	106665											
CDKN2AIP	55602	broad.mit.edu	37	chr4	184367704	184367704	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaagcagctcagagatcgaGgtgcccttgttgggctcctc	8	9	12	12	1	1	1	1	0	0	1	4	3	2	1	2	2	3	4	2	2	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:184367704G>T	uc003ivp.1	+	3	1029	c.867G>T	c.(865-867)GAG>GAT	p.E289D	CDKN2AIP_uc003ivq.1_Missense_Mutation_p.E34D	NM_017632	NP_060102	Q9NXV6	CARF_HUMAN	CDKN2A interacting protein	289	Ser-rich.				negative regulation of cell growth|positive regulation of signal transduction|regulation of protein stability	granular component|nucleoplasm	double-stranded RNA binding|p53 binding				0		all_lung(41;6.9e-12)|Lung NSC(41;1.28e-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;1.15e-26)|Epithelial(43;2.98e-22)|OV - Ovarian serous cystadenocarcinoma(60;7.64e-10)|GBM - Glioblastoma multiforme(59;4.22e-06)|Colorectal(24;5.87e-06)|STAD - Stomach adenocarcinoma(60;2.09e-05)|COAD - Colon adenocarcinoma(29;5.15e-05)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		CAGAGATCGAGGTGCCCTTGT	0.468													3	38					0.004672	0.00481222	1	1	0		T	184367704	T	T	184367704	3	4	214	1	0	0	0	0	1	0	0	0	3165	991	35	5	877	5	CDKN2AIP	4	184367704	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6084223	184367704	6786572	248	106666											
MTNR1A	4543	broad.mit.edu	37	chr4	187454870	187454870	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gagtccacctttactacattAttgttggtcatcagtggaga	10	14	9	8	0	2	1	2	0	0	1	3	3	3	1	2	2	2	1	2	2	3	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr4:187454870A>G	uc003izd.1	-	2	1044	c.1026T>C	c.(1024-1026)AAT>AAC	p.N342N		NM_005958	NP_005949	P48039	MTR1A_HUMAN	melatonin receptor 1A	342	Cytoplasmic (Potential).				circadian rhythm|G-protein signaling, coupled to cyclic nucleotide second messenger|mating behavior	integral to plasma membrane	melatonin receptor activity			ovary(1)|skin(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5		all_cancers(14;6.39e-56)|all_epithelial(14;1.48e-41)|all_lung(41;2.45e-15)|Lung NSC(41;7.26e-15)|Melanoma(20;1.91e-06)|Hepatocellular(41;0.00335)|Prostate(90;0.00996)|all_hematologic(60;0.014)|Colorectal(36;0.0161)|Renal(120;0.0183)|all_neural(102;0.202)		OV - Ovarian serous cystadenocarcinoma(60;7.63e-12)|BRCA - Breast invasive adenocarcinoma(30;6.68e-07)|GBM - Glioblastoma multiforme(59;3.44e-05)|LUSC - Lung squamous cell carcinoma(40;0.000106)|STAD - Stomach adenocarcinoma(60;0.000279)|READ - Rectum adenocarcinoma(43;0.159)	Melatonin(DB01065)|Ramelteon(DB00980)	TTACTACATTATTGTTGGTCA	0.502													20	62					0	0	1	0	0		G	187454870	G	G	187454870	2	3	214	1	0	0	0	0	0	0	0	1	9969	446	16	3		3	MTNR1A	4	187454870	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3087166	187454870	3699406	249	106667											
CEP72	55722	broad.mit.edu	37	chr5	635522	635522	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgagcccgcagttggtacagTaccagtgtggggactctggg	7	9	16	9	1	1	1	0	1	1	0	1	2	1	2	2	4	3	4	2	4	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:635522T>C	uc003jbf.2	+	6	799	c.727T>C	c.(727-729)TAC>CAC	p.Y243H	CEP72_uc011clz.1_RNA	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	243					G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			GTTGGTACAGTACCAGTGTGG	0.443													8	27					0	0	1	0	0		C	635522	C	C	635522	3	2	214	1	0	0	0	0	1	0	0	0	3263	1638	57	3	749	3	CEP72	5	635522	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08		635522	180279738	250	106668											
IRX2	153572	broad.mit.edu	37	chr5	2749639	2749639	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcttgttctccttcttgaggCgccggcgcgcgttggcgaac	3	12	13	13	6	3	1	0	1	3	0	4	2	3	1	2	3	1	2	2	3	1	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:2749639C>T	uc003jda.2	-	2	754	c.512G>A	c.(511-513)CGC>CAC	p.R171H	C5orf38_uc003jdc.2_5'Flank|C5orf38_uc011cmg.1_5'Flank|C5orf38_uc011cmh.1_5'Flank|C5orf38_uc011cmi.1_5'Flank|C5orf38_uc011cmj.1_5'Flank|IRX2_uc003jdb.2_Missense_Mutation_p.R171H	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	171	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		CTTCTTGAGGCGCCGGCGCGC	0.592													22	100					0	0	1	0	0		T	2749639	T	T	2749639	3	4	214	1	0	0	0	0	1	0	0	0	7860	768	27	1	915	1	IRX2	5	2749639	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2114117	2749639	178165621	251	106669											
SEMA5A	9037	broad.mit.edu	37	chr5	9108296	9108296	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccattctcacagatcctgcGgcgagcttgaatgccacccc	8	8	8	17	2	1	2	1	1	1	1	3	3	2	2	5	1	3	1	5	1	1	2	rs147869499		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:9108296G>A	uc003jek.2	-	16	2741	c.2029C>T	c.(2029-2031)CGC>TGC	p.R677C		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	677	TSP type-1 3.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						CAGATCCTGCGGCGAGCTTGA	0.562													3	24					0	0	1	0	0		A	9108296	A	A	9108296	3	1	214	1	0	0	0	0	1	0	0	0	14062	1116	39	1	1227	1	SEMA5A	5	9108296	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6358657	9108296	171806964	252	106670											
CDH18	1016	broad.mit.edu	37	chr5	19503152	19503152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacaggcaggcgttcatcaaGaaagaagttaaaccttggtc	14	9	10	8	1	2	2	2	0	0	2	3	2	2	2	1	3	2	3	1	3	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:19503152G>A	uc003jgc.2	-	10	1956	c.1579C>T	c.(1579-1581)CTT>TTT	p.L527F	CDH18_uc003jgd.2_Missense_Mutation_p.L527F|CDH18_uc011cnm.1_Missense_Mutation_p.L527F	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	527	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					CGTTCATCAAGAAAGAAGTTA	0.348													11	55					0	0	1	0	0		A	19503152	A	A	19503152	3	1	214	1	0	0	0	0	1	0	0	0	3106	942	33	4	805	4	CDH18	5	19503152	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	10394856	19503152	161412108	253	106671											
RXFP3	51289	broad.mit.edu	37	chr5	33938167	33938167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcgccgccccacgcggccgCggagccggacctgctctact	4	4	14	19	7	1	0	0	0	1	0	1	2	1	2	6	4	3	1	6	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:33938167C>T	uc003jic.1	+	1	1679	c.1322C>T	c.(1321-1323)GCG>GTG	p.A441V		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	441	Cytoplasmic (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						cacgcggccgcggAGCCGGAC	0.567													9	33					0	0	1	0	0		T	33938167	T	T	33938167	3	4	214	1	0	0	0	0	1	0	0	0	13786	768	27	1	1324	1	RXFP3	5	33938167	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	14435015	33938167	146977093	254	106672											
SPEF2	79925	broad.mit.edu	37	chr5	35641676	35641676	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgttatatcaattgtacaTtgctcttcagaaaaagaaga	15	13	7	6	0	3	3	2	0	1	3	3	3	3	3	0	0	2	4	0	0	7	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:35641676T>G	uc003jjo.2	+	3	416	c.305T>G	c.(304-306)ATT>AGT	p.I102S	SPEF2_uc003jjn.1_Missense_Mutation_p.I102S|SPEF2_uc003jjq.3_Missense_Mutation_p.I102S	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	102	CH.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CAATTGTACATTGCTCTTCAG	0.413													6	66					0	0	1	0	0		G	35641676	G	G	35641676	3	3	214	1	0	0	0	0	1	0	0	0	15060	1493	52	5	315	5	SPEF2	5	35641676	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1703509	35641676	145273584	255	106673											
SPEF2	79925	broad.mit.edu	37	chr5	35641743	35641743	+	Silent	SNP	A	G	G	1	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	caaaccatgcaacgtctgacAaatttaagacttcaaaacat	18	9	4	10	1	2	2	1	1	1	1	2	2	2	2	1	0	4	1	1	0	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:35641743A>G	uc003jjo.2	+	3	483	c.372A>G	c.(370-372)ACA>ACG	p.T124T	SPEF2_uc003jjn.1_Silent_p.T124T|SPEF2_uc003jjq.3_Silent_p.T124T	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	124					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AACGTCTGACAAATTTAAGAC	0.348													3	51					0	0	1	0	0		G	35641743	G	G	35641743	2	3	214	1	0	0	0	0	0	0	0	1	15060	117	5	3		3	SPEF2	5	35641743	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	67	35641743	145273517	256	106674											
WDR70	55100	broad.mit.edu	37	chr5	37516665	37516665	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	atggcatcccaaaataaaggGagaatttatgacttgctcaa	16	10	8	7	0	1	2	1	1	0	1	2	3	2	2	1	2	1	2	1	2	7	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:37516665G>A	uc003jkv.2	+	9	948	c.890G>A	c.(889-891)GGA>GAA	p.G297E	WDR70_uc010iva.1_Missense_Mutation_p.G297E	NM_018034	NP_060504	Q9NW82	WDR70_HUMAN	WD repeat domain 70	297	WD 3.									ovary(1)|central_nervous_system(1)	2	all_lung(31;0.000285)		COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAAATAAAGGGAGAATTTATG	0.303													7	62					0	0	1	0	0		A	37516665	A	A	37516665	3	1	214	1	0	0	0	0	1	0	0	0	17347	1174	41	4	924	4	WDR70	5	37516665	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1874922	37516665	143398595	257	106675											
CARD6	84674	broad.mit.edu	37	chr5	40853351	40853351	+	Silent	SNP	A	G	G	1	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	atgttctcttcttgcctcagAtgtgtgtctgtggaggatat	6	17	11	7	0	4	1	1	0	3	1	5	3	4	3	1	2	1	1	1	2	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:40853351A>G	uc003jmg.2	+	3	1992	c.1917A>G	c.(1915-1917)AGA>AGG	p.R639R		NM_032587	NP_115976	Q9BX69	CARD6_HUMAN	caspase recruitment domain family, member 6	639					apoptosis|regulation of apoptosis	intracellular				ovary(2)|skin(2)|lung(1)	5						CTTGCCTCAGATGTGTGTCTG	0.517													37	204					0	0	1	0	0		G	40853351	G	G	40853351	2	3	214	1	0	0	0	0	0	0	0	1	2653	330	12	3		3	CARD6	5	40853351	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3336686	40853351	140061909	258	106676											
RASGRF2	5924	broad.mit.edu	37	chr5	80388671	80388671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggaaacttagtaaagttcGcctgggttcgttgtctttga	8	14	13	6	2	1	1	0	1	1	0	3	2	1	2	1	3	1	4	1	3	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:80388671G>A	uc003kha.1	+	10	1442	c.1442G>A	c.(1441-1443)CGC>CAC	p.R481H	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	481	PH 2.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|endoplasmic reticulum membrane|plasma membrane	protein binding|Rho guanyl-nucleotide exchange factor activity			breast(5)|ovary(3)|large_intestine(2)|central_nervous_system(1)|skin(1)	12		Lung NSC(167;0.00498)|all_lung(232;0.00531)|Ovarian(174;0.0357)		OV - Ovarian serous cystadenocarcinoma(54;4.22e-42)|Epithelial(54;4.04e-35)|all cancers(79;2.52e-29)		AGTAAAGTTCGCCTGGGTTCG	0.368													17	87					0	0	1	0	0		A	80388671	A	A	80388671	3	1	214	1	0	0	0	0	1	0	0	0	13098	1087	38	1	1480	1	RASGRF2	5	80388671	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	39535320	80388671	100526589	259	106677											
SLCO6A1	133482	broad.mit.edu	37	chr5	101834355	101834355	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acttggcttttttcctttttCggaaaccgccgaaccttatc	7	16	6	12	3	0	0	0	0	0	0	3	2	1	1	4	2	2	1	4	2	3	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:101834355C>T	uc003knn.2	-	1	366	c.194G>A	c.(193-195)CGA>CAA	p.R65Q	SLCO6A1_uc003kno.2_Missense_Mutation_p.R65Q|SLCO6A1_uc003knp.2_Missense_Mutation_p.R65Q|SLCO6A1_uc003knq.2_Missense_Mutation_p.R65Q	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	65	Cytoplasmic (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		TTTCCTTTTTCGGAAACCGCC	0.542													75	135					0	0	1	0	0		T	101834355	T	T	101834355	3	4	214	1	0	0	0	0	1	0	0	0	14757	884	31	1	2017	1	SLCO6A1	5	101834355	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	21445684	101834355	79080905	260	106678											
WDR36	134430	broad.mit.edu	37	chr5	110436294	110436294	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcacttttgtagaagaatAcctgcagttgacttttgata	11	17	7	6	0	1	4	1	2	0	2	1	4	1	4	1	0	2	3	1	0	5	9			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:110436294A>G	uc003kpd.2	+	5	701	c.584A>G	c.(583-585)TAC>TGC	p.Y195C	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	195	WD 1.				response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		GTAGAAGAATACCTGCAGTTG	0.264													4	11					0	0	1	0	0		G	110436294	G	G	110436294	3	3	214	1	0	0	0	0	1	0	0	0	17316	391	14	3	602	3	WDR36	5	110436294	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	8601939	110436294	70478966	261	106679											
APC	324	broad.mit.edu	37	chr5	112174057	112174057	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagatgagagaaatgcactTagaagaagctctgctgccca	15	7	10	9	0	1	5	0	1	1	4	1	6	1	5	1	0	4	3	1	0	4	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:112174057T>C	uc010jby.2	+	16	3146	c.2766T>C	c.(2764-2766)CTT>CTC	p.L922L	APC_uc011cvt.1_Silent_p.L904L|APC_uc003kpz.3_Silent_p.L922L|APC_uc003kpy.3_Silent_p.L922L|APC_uc010jbz.2_Silent_p.L639L|APC_uc010jca.2_Silent_p.L222L	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	922	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		GAAATGCACTTAGAAGAAGCT	0.393		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			9	31					0	0	1	0	0		C	112174057	C	C	112174057	2	2	214	1	0	0	0	0	0	0	0	1	763	1741	61	3		3	APC	5	112174057	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1737763	112174057	68741203	262	106680											
FTMT	94033	broad.mit.edu	37	chr5	121187884	121187884	+	Missense_Mutation	SNP	T	C	C	0	1	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	gccagaacttccaccccgacTccgaggctgccatcaaccgc	9	5	8	19	3	1	1	1	0	0	1	3	3	3	1	7	1	3	1	7	1	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:121187884T>C	uc003kss.2	+	1	235	c.226T>C	c.(226-228)TCC>CCC	p.S76P		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	76	Ferritin-like diiron.				cellular iron ion homeostasis|iron ion transport|positive regulation of cell proliferation|positive regulation of lyase activity|positive regulation of oxidoreductase activity|positive regulation of transferase activity	mitochondrion	ferric iron binding|ferroxidase activity			ovary(1)	1		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	Epithelial(69;0.000171)|OV - Ovarian serous cystadenocarcinoma(64;0.000188)|all cancers(49;0.0027)		CCACCCCGACTCCGAGGCTGC	0.682													3	43					0	0	1	0	0		C	121187884	C	C	121187884	3	2	214	1	0	0	0	0	1	0	0	0	6099	1551	54	3	228	3	FTMT	5	121187884	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	9013827	121187884	59727376	263	106681											
CTXN3	613212	broad.mit.edu	37	chr5	126993191	126993191	+	Translation_Start_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaaagaaaaccaggatatcCtgtgctctggcttccctgga	12	9	10	10	0	1	1	0	0	1	1	3	4	3	3	3	3	2	2	3	3	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:126993191C>A	uc003kul.3	+	3	552	c.-22C>A	c.(-24--20)TCCTG>TCATG		CTXN3_uc003kum.3_Translation_Start_Site	NM_001048252	NP_001041717	Q4LDR2	CTXN3_HUMAN	cortexin 3							integral to membrane					0		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0128)|COAD - Colon adenocarcinoma(49;0.0234)|OV - Ovarian serous cystadenocarcinoma(64;0.038)		CCAGGATATCCTGTGCTCTGG	0.532													5	37					0.00116845	0.00121814	1	1	0		A	126993191	A	A	126993191	1	1	214	1	0	0	0	0	0	0	0	0	4053	696	24	5		5	CTXN3	5	126993191	Translation_Start_Site	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	5805307	126993191	53922069	264	106682											
C5orf32	84418	broad.mit.edu	37	chr5	139574218	139574218	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggctggcagggtggacctcaGgagcctcctaaaaccacagg	10	5	14	12	0	1	0	1	0	0	0	2	2	2	2	4	6	2	2	4	6	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:139574218G>T	uc003lfd.2	+	2	406	c.168G>T	c.(166-168)CAG>CAT	p.Q56H	C5orf32_uc010jfi.2_Intron	NM_032412	NP_115788	Q9H1C7	CE032_HUMAN	hypothetical protein LOC84418	56	Pro-rich.										0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGACCTCAGGAGCCTCCTA	0.532													5	47					0.184627	0.184627	1	1	0		T	139574218	T	T	139574218	3	4	214	1	0	0	0	0	1	0	0	0	2294	991	35	5	170	5	C5orf32	5	139574218	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	12581027	139574218	41341042	265	106683											
PCDHA9	9752	broad.mit.edu	37	chr5	140229950	140229950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcgcgagcatcccgttccgcGtggggctgtacacgggcgag	5	6	17	13	7	0	0	0	0	0	0	2	2	2	0	2	3	2	4	2	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140229950G>A	uc003lhu.2	+	1	2594	c.1870G>A	c.(1870-1872)GTG>ATG	p.V624M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lht.1_Missense_Mutation_p.V624M	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	624	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding	p.V624M(1)		large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCGTTCCGCGTGGGGCTGTA	0.672													10	120					0	0	1	0	0		A	140229950	A	A	140229950	3	1	214	1	0	0	0	0	1	0	0	0	11550	1145	40	1	1872	1	PCDHA9	5	140229950	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	655732	140229950	40685310	266	106684											
PCDHA11	56138	broad.mit.edu	37	chr5	140249772	140249772	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccctcccagtacgagaggacGctcagcccagcacggtcatt	9	6	10	16	3	2	1	2	0	0	1	3	3	3	2	3	2	3	3	3	2	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140249772G>A	uc003lia.2	+	1	1942	c.1084G>A	c.(1084-1086)GCT>ACT	p.A362T	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.A362T	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	362	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACGAGAGGACGCTCAGCCCAG	0.572													7	90					0	0	1	0	0		A	140249772	A	A	140249772	3	1	214	1	0	0	0	0	1	0	0	0	11540	1087	38	1	1086	1	PCDHA11	5	140249772	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	19822	140249772	40665488	267	106685											
PCDHAC1	56135	broad.mit.edu	37	chr5	140308912	140308912	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cgctaatgtcaatgccatggTaagcaaattttatggaattt	13	14	8	6	1	1	0	1	0	0	0	1	1	1	1	1	2	2	3	1	2	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140308912T>C	uc003lih.2	+	1	2609	c.2433_splice	c.e1+2	p.M811_splice	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Intron|PCDHA13_uc003lif.2_Intron|PCDHAC1_uc003lig.1_Missense_Mutation_p.V812A	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1						homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGCCATGGTAAGCAAATTT	0.403													8	183					0	0	1	0	0		C	140308912	C	C	140308912	5	2	214	1	0	0	0	0	0	0	1	0	11551	1652	57	3	2437	3	PCDHAC1	5	140308912	Splice_Site	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	59140	140308912	40606348	268	106686											
PCDHB5	26167	broad.mit.edu	37	chr5	140516810	140516810	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacggcgactcgggccagaaCgcctggctgtcgtaccagct	7	6	14	14	5	0	1	0	0	0	1	2	3	0	1	3	3	3	3	3	3	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140516810C>T	uc003liq.2	+	1	2011	c.1794C>T	c.(1792-1794)AAC>AAT	p.N598N		NM_015669	NP_056484	Q9Y5E4	PCDB5_HUMAN	protocadherin beta 5 precursor	598	Cadherin 6.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding|protein binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGGGCCAGAACGCCTGGCTGT	0.711													21	104					0	0	1	0	0		T	140516810	T	T	140516810	2	4	214	1	0	0	0	0	0	0	0	1	11564	535	19	1		1	PCDHB5	5	140516810	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	207898	140516810	40398450	269	106687											
PCDHB7	56129	broad.mit.edu	37	chr5	140552971	140552971	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catattaatgtccatgatagCggggaggggaatatctatcc	12	11	11	7	1	1	1	0	1	1	0	3	3	3	3	2	4	1	0	2	4	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140552971C>T	uc003lit.2	+	1	729	c.555C>T	c.(553-555)AGC>AGT	p.S185S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	185	Extracellular (Potential).|Cadherin 2.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|central_nervous_system(1)|skin(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCCATGATAGCGGGGAGGGGA	0.483													9	61					0	0	1	0	0		T	140552971	T	T	140552971	2	4	214	1	0	0	0	0	0	0	0	1	11566	767	27	1		1	PCDHB7	5	140552971	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	36161	140552971	40362289	270	106688											
PCDHB11	56125	broad.mit.edu	37	chr5	140580496	140580496	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaacggaagaattgtttgTtccattccggaagacctccc	11	10	9	11	2	0	2	0	0	0	2	3	5	3	4	4	2	1	2	4	2	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140580496T>C	uc003liy.2	+	1	1149	c.1149T>C	c.(1147-1149)TGT>TGC	p.C383C	PCDHB11_uc011daj.1_Silent_p.C18C	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	383	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GAATTGTTTGTTCCATTCCGG	0.448													14	138					0	0	1	0	0		C	140580496	C	C	140580496	2	2	214	1	0	0	0	0	0	0	0	1	11555	1731	60	3		3	PCDHB11	5	140580496	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	27525	140580496	40334764	271	106689											
PCDHGA1	56114	broad.mit.edu	37	chr5	140711907	140711907	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtgtctctcagcctattcctGctggaccagaacgacaacgc	9	9	9	14	2	2	1	1	0	1	1	4	3	3	2	3	1	4	1	3	1	3	2	rs115095833	byFrequency	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140711907G>A	uc003lji.1	+	1	1656	c.1656G>A	c.(1654-1656)CTG>CTA	p.L552L	PCDHGA1_uc011dan.1_Silent_p.L552L	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	552	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|breast(1)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCCTATTCCTGCTGGACCAGA	0.637													52	273					0	0	1	0	0		A	140711907	A	A	140711907	2	1	214	1	0	0	0	0	0	0	0	1	11569	1306	46	2		2	PCDHGA1	5	140711907	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	131411	140711907	40203353	272	106690											
PCDHGB5	56101	broad.mit.edu	37	chr5	140778762	140778762	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaaatgattctggaaaacgcGgtgcctggaacactaattgc	13	9	11	8	2	1	1	0	1	1	0	1	4	1	3	1	3	4	0	1	3	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140778762G>A	uc003lkf.1	+	1	1068	c.1068G>A	c.(1066-1068)GCG>GCA	p.A356A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc011daw.1_Silent_p.A356A	NM_018925	NP_061748	Q9Y5G0	PCDGH_HUMAN	protocadherin gamma subfamily B, 5 isoform 1	356	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGAAAACGCGGTGCCTGGAA	0.373													15	71					0	0	1	0	0		A	140778762	A	A	140778762	2	1	214	1	0	0	0	0	0	0	0	1	11585	1103	39	1		1	PCDHGB5	5	140778762	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	66855	140778762	40136498	273	106691											
PCDHGA10	56106	broad.mit.edu	37	chr5	140794641	140794641	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acgggcgaggtgcgcacggcGcgagccctgctggacagaga	8	3	18	12	6	0	1	0	0	0	1	0	5	0	2	1	4	3	2	1	4	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:140794641G>A	uc003lkl.1	+	1	1899	c.1899G>A	c.(1897-1899)GCG>GCA	p.A633A	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGA10_uc011day.1_Silent_p.A633A|PCDHGB7_uc003lkm.2_5'Flank|PCDHGB7_uc003lkn.1_5'Flank	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1	633	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCGCACGGCGCGAGCCCTGC	0.697													39	78					0	0	1	0	0		A	140794641	A	A	140794641	2	1	214	1	0	0	0	0	0	0	0	1	11570	1074	38	1		1	PCDHGA10	5	140794641	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	15879	140794641	40120619	274	106692											
KIAA0141	9812	broad.mit.edu	37	chr5	141318154	141318154	+	Missense_Mutation	SNP	A	G	G	1	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	gcccctccctctgcagcttgAacaccctgctagcaggaacc	8	7	8	18	0	1	1	0	1	1	0	2	2	2	2	5	1	6	4	5	1	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:141318154A>G	uc003lls.2	+	12	1500	c.1378A>G	c.(1378-1380)AAC>GAC	p.N460D	KIAA0141_uc003llt.2_Missense_Mutation_p.N460D|KIAA0141_uc003llu.1_RNA	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	460					apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCAGCTTGAACACCCTGCT	0.592													16	146					0	0	1	0	0		G	141318154	G	G	141318154	3	3	214	1	0	0	0	0	1	0	0	0	8172	246	9	3	1424	3	KIAA0141	5	141318154	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	523513	141318154	39597106	275	106693											
RBM27	54439	broad.mit.edu	37	chr5	145664188	145664188	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctaatatatattttagaccGcaaaccaagggccaaaattt	16	12	5	8	1	1	1	0	0	1	1	1	1	1	1	3	1	1	1	3	1	9	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:145664188G>A	uc003lnz.3	+	20	3158	c.2992G>A	c.(2992-2994)GCA>ACA	p.A998T		NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	998					mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATTTTAGACCGCAAACCAAGG	0.363													41	63					0	0	1	0	0		A	145664188	A	A	145664188	3	1	214	1	0	0	0	0	1	0	0	0	13152	1087	38	1	3070	1	RBM27	5	145664188	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4346034	145664188	35251072	276	106694											
GPR151	134391	broad.mit.edu	37	chr5	145895470	145895470	+	Silent	SNP	C	T	T	0	0	0	1	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	agggagtggatcatggatggCtttcctttccaagcattgtg	8	13	13	7	0	1	0	1	0	0	0	3	3	3	3	2	4	1	2	2	4	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:145895470C>T	uc003lod.1	-	1	207	c.207G>A	c.(205-207)AAG>AAA	p.K69K		NM_194251	NP_919227	Q8TDV0	GP151_HUMAN	G protein-coupled receptor 151	69	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TCATGGATGGCTTTCCTTTCC	0.537													22	35					0	0	1	0	0		T	145895470	T	T	145895470	2	4	214	1	0	0	0	0	0	0	0	1	6672	796	28	2		2	GPR151	5	145895470	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	231282	145895470	35019790	277	106695											
JAKMIP2	9832	broad.mit.edu	37	chr5	147016541	147016541	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tgcctacctgccctttctgaGccagagtcgcttccaggtct	5	12	9	15	1	2	2	0	1	2	1	4	2	3	2	5	1	4	1	5	1	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:147016541G>T	uc003loq.1	-	11	1983	c.1601C>A	c.(1600-1602)GCT>GAT	p.A534D	JAKMIP2_uc011dbx.1_Missense_Mutation_p.A492D|JAKMIP2_uc003lor.1_Missense_Mutation_p.A534D|uc003lop.1_Intron|JAKMIP2_uc010jgo.1_Missense_Mutation_p.A534D	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	534	Potential.					Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCTTTCTGAGCCAGAGTCGC	0.502													118	121					2.52883e-43	2.87002e-43	1	1	0		T	147016541	T	T	147016541	3	4	214	1	0	0	0	0	1	0	0	0	7957	971	34	5	875	5	JAKMIP2	5	147016541	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1121071	147016541	33898719	278	106696											
PDGFRB	5159	broad.mit.edu	37	chr5	149506146	149506146	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agcaccaccagggccaggatGgctgagatcaccaccacctt	11	5	10	15	0	1	1	1	1	0	1	1	3	1	2	6	3	1	2	6	3	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:149506146G>T	uc003lro.2	-	11	2080	c.1611C>A	c.(1609-1611)GCC>GCA	p.A537A	PDGFRB_uc010jhd.2_Silent_p.A376A	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta	537	Helical; (Potential).				aorta morphogenesis|cardiac myofibril assembly|hemopoiesis|metanephric glomerular capillary formation|metanephric glomerular mesangial cell proliferation involved in metanephros development|peptidyl-tyrosine phosphorylation|positive regulation of calcium ion import|positive regulation of chemotaxis|positive regulation of DNA biosynthetic process|positive regulation of ERK1 and ERK2 cascade|positive regulation of MAP kinase activity|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of mitosis|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of reactive oxygen species metabolic process|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|protein autophosphorylation|regulation of actin cytoskeleton organization|retina vasculature development in camera-type eye|smooth muscle cell chemotaxis	apical plasma membrane|cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|vascular endothelial growth factor receptor activity			central_nervous_system(4)|lung(4)|breast(3)|stomach(2)|prostate(2)|large_intestine(1)|ovary(1)	17		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Becaplermin(DB00102)|Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	GGGCCAGGATGGCTGAGATCA	0.582			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								5	73					3.59834e-05	3.81628e-05	1	1	0		T	149506146	T	T	149506146	2	4	214	1	0	0	0	0	0	0	0	1	11681	1335	47	5		5	PDGFRB	5	149506146	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2489605	149506146	31409114	279	106697											
TNIP1	10318	broad.mit.edu	37	chr5	150436498	150436498	+	Silent	SNP	A	G	G	1	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	agcatcaggttgccgtcctcAcggggcagggggcccagcgc	6	5	16	14	3	2	0	2	0	0	0	3	0	3	0	3	5	3	3	3	5	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:150436498A>G	uc003ltf.2	-	6	1045	c.456T>C	c.(454-456)CGT>CGC	p.R152R	TNIP1_uc010jhl.2_RNA|TNIP1_uc010jhm.2_Silent_p.R152R|TNIP1_uc010jhn.2_Silent_p.R152R|TNIP1_uc011dco.1_Silent_p.R152R|TNIP1_uc003lth.2_RNA|TNIP1_uc003lti.2_Silent_p.R152R|TNIP1_uc003ltg.2_Silent_p.R99R|TNIP1_uc003ltj.2_Silent_p.R152R|TNIP1_uc010jho.1_RNA|TNIP1_uc010jhq.1_Silent_p.R99R|TNIP1_uc010jhp.1_Silent_p.R99R|TNIP1_uc010jhr.1_Silent_p.R152R|TNIP1_uc003ltk.2_Silent_p.R152R	NM_006058	NP_006049	Q15025	TNIP1_HUMAN	TNFAIP3 interacting protein 1	152	Interacts with Nef.				defense response|glycoprotein biosynthetic process|negative regulation of viral genome replication|translation	cytoplasm|nucleus	protein binding			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(196;0.0911)|all_hematologic(541;0.207)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGCCGTCCTCACGGGGCAGGG	0.677													14	40					0	0	1	0	0		G	150436498	G	G	150436498	2	3	214	1	0	0	0	0	0	0	0	1	16339	146	6	3		3	TNIP1	5	150436498	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	930352	150436498	30478762	280	106698											
SLC36A1	206358	broad.mit.edu	37	chr5	150844683	150844683	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatactgtgatgtatggactAgaatccagcccctgctcctg	9	11	10	11	0	0	2	0	1	0	1	2	4	2	3	4	1	3	2	4	1	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:150844683A>G	uc003luc.2	+	5	589	c.372A>G	c.(370-372)CTA>CTG	p.L124L	GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Silent_p.L124L|SLC36A1_uc010jhw.1_Silent_p.L124L	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1	124	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)	TGTATGGACTAGAATCCAGCC	0.507													9	102					0	0	1	0	0		G	150844683	G	G	150844683	2	3	214	1	0	0	0	0	0	0	0	1	14618	407	15	3		3	SLC36A1	5	150844683	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	408185	150844683	30070577	281	106699											
THG1L	54974	broad.mit.edu	37	chr5	157166483	157166483	+	Missense_Mutation	SNP	A	G	G	1	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	tccagagattctagatgaagAcagctgacccttttgcgctt	10	12	9	10	1	1	5	0	2	1	3	2	6	2	5	2	0	2	2	2	0	2	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:157166483A>G	uc003lxd.2	+	6	1016	c.890A>G	c.(889-891)GAC>GGC	p.D297G	THG1L_uc011ddu.1_Missense_Mutation_p.D165G	NM_017872	NP_060342	Q9NWX6	THG1_HUMAN	interphase cytoplasmic foci protein 45	297					protein homotetramerization|tRNA modification	mitochondrion	GTP binding|metal ion binding|tRNA guanylyltransferase activity				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CTAGATGAAGACAGCTGACCC	0.547													45	86					0	0	1	0	0		G	157166483	G	G	157166483	3	3	214	1	0	0	0	0	1	0	0	0	15886	275	10	3	912	3	THG1L	5	157166483	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	6321800	157166483	23748777	282	106700											
SLIT3	6586	broad.mit.edu	37	chr5	168244441	168244441	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agccaggccaggtggcagtcGcagtacaggtggttggagtg	8	7	18	8	1	0	0	0	0	0	0	1	1	0	1	2	6	2	4	2	6	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:168244441G>T	uc003mab.2	-	8	1077	c.657C>A	c.(655-657)TGC>TGA	p.C219*	SLIT3_uc010jjg.2_Nonsense_Mutation_p.C219*|SLIT3_uc010jji.2_Nonsense_Mutation_p.C219*|SLIT3_uc003mac.1_Nonsense_Mutation_p.C16*	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor	219	LRRCT 1.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGTGGCAGTCGCAGTACAGGT	0.612													7	54					0.00448238	0.00463918	1	1	0		T	168244441	T	T	168244441	4	4	214	1	0	0	0	0	0	1	0	0	14766	1079	38	5	4030	5	SLIT3	5	168244441	Nonsense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	11077958	168244441	12670819	283	106701											
FOXI1	2299	broad.mit.edu	37	chr5	169533358	169533358	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attcctactcggctctcatcGccatggccatccacggggca	7	9	9	16	3	1	0	1	0	1	0	6	0	3	0	4	4	1	2	4	4	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:169533358G>A	uc003mai.3	+	1	442	c.397G>A	c.(397-399)GCC>ACC	p.A133T	FOXI1_uc003maj.3_Missense_Mutation_p.A133T	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	133	Fork-head.				epidermal cell fate specification|otic placode formation|pattern specification process|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(3)|central_nervous_system(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0267)|all_lung(126;0.04)	Medulloblastoma(196;0.0109)|all_neural(177;0.0298)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			GGCTCTCATCGCCATGGCCAT	0.642									Pendred_syndrome				3	15					0	0	1	0	0		A	169533358	A	A	169533358	3	1	214	1	0	0	0	0	1	0	0	0	6023	1087	38	1	399	1	FOXI1	5	169533358	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1288917	169533358	11381902	284	106702											
STK10	6793	broad.mit.edu	37	chr5	171488177	171488177	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcttcttcatgaggcactcGcgctccttgtcacagatctc	6	13	8	14	2	4	2	2	1	2	1	7	2	5	2	1	1	1	3	1	1	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:171488177G>A	uc003mbo.1	-	14	2478	c.2178C>T	c.(2176-2178)CGC>CGT	p.R726R		NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10	726	Potential.						ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TGAGGCACTCGCGCTCCTTGT	0.612													8	240					0	0	1	0	0		A	171488177	A	A	171488177	2	1	214	1	0	0	0	0	0	0	0	1	15311	1074	38	1		1	STK10	5	171488177	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1954819	171488177	9427083	285	106703											
KIAA1191	57179	broad.mit.edu	37	chr5	175777642	175777642	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgcttcggccactcgaaggtActtggtctcctcggtggtga	5	12	13	11	3	1	1	0	1	1	0	5	2	1	1	2	5	2	2	2	5	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:175777642A>C	uc003mdw.2	-	6	805	c.433T>G	c.(433-435)TAC>GAC	p.Y145D	KIAA1191_uc003mdx.2_Missense_Mutation_p.Y126D|KIAA1191_uc003mdy.2_Missense_Mutation_p.Y145D|KIAA1191_uc003mea.2_Intron|KIAA1191_uc003mdz.2_Intron	NM_020444	NP_065177	Q96A73	K1191_HUMAN	hypothetical protein LOC57179 isoform a	145							protein binding			ovary(1)	1	all_cancers(89;0.00575)|Renal(175;0.000269)|Lung NSC(126;0.0105)|all_lung(126;0.0168)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	Kidney(146;0.101)		ACTCGAAGGTACTTGGTCTCC	0.502													11	108					0	0	1	0	0		C	175777642	C	C	175777642	3	2	214	1	0	0	0	0	1	0	0	0	8228	391	14	5	500	5	KIAA1191	5	175777642	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4289465	175777642	5137618	286	106704											
PFN3	345456	broad.mit.edu	37	chr5	176827261	176827261	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcccattagcaccaggagcGcgcgcggcgcacggcccacg	7	2	15	17	7	0	0	0	0	0	0	0	1	0	1	3	4	2	2	3	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:176827261G>A	uc003mgl.2	-	1	377	c.317C>T	c.(316-318)GCG>GTG	p.A106V		NM_001029886	NP_001025057	P60673	PROF3_HUMAN	profilin 3	106					actin cytoskeleton organization	actin cytoskeleton|cytoplasm	actin binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CACCAGGAGCGCGCGCGGCGC	0.716													7	19					0	0	1	0	0		A	176827261	A	A	176827261	3	1	214	1	0	0	0	0	1	0	0	0	11788	1087	38	1	100	1	PFN3	5	176827261	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1049619	176827261	4087999	287	106705											
FLT4	2324	broad.mit.edu	37	chr5	180039544	180039544	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gagcaggtcccccaggatctCcaccagctccgagaatgcag	10	5	11	15	1	1	1	0	0	1	1	4	4	3	2	5	2	3	3	5	2	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr5:180039544C>A	uc003mma.3	-	26	3578	c.3499G>T	c.(3499-3501)GAG>TAG	p.E1167*	FLT4_uc003mlz.3_Nonsense_Mutation_p.E1167*	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	1167	Cytoplasmic (Potential).|Protein kinase.				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	CCCAGGATCTCCACCAGCTCC	0.657									Congenital_Hereditary_Lymphedema				16	124					6.72482e-11	7.47396e-11	1	1	0		A	180039544	A	A	180039544	4	1	214	1	0	0	0	0	0	1	0	0	5958	864	30	5	620	5	FLT4	5	180039544	Nonsense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3212283	180039544	875716	288	106706											
GCM2	9247	broad.mit.edu	37	chr6	10874777	10874777	+	Silent	SNP	A	G	G	1	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	tgctgtttgttggtgaaatcAaagcttctctcatagctgct	8	16	9	8	0	3	1	2	1	1	0	4	1	3	1	0	1	4	6	0	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:10874777A>G	uc003mzn.3	-	5	1044	c.972T>C	c.(970-972)TTT>TTC	p.F324F	SYCP2L_uc011dim.1_Intron	NM_004752	NP_004743	O75603	GCM2_HUMAN	glial cells missing homolog 2	324					cellular calcium ion homeostasis|cellular phosphate ion homeostasis|parathyroid gland development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|sequence-specific DNA binding			ovary(2)|central_nervous_system(1)	3	Breast(50;0.0838)|Ovarian(93;0.107)	all_hematologic(90;0.135)				TGGTGAAATCAAAGCTTCTCT	0.458													34	144					0	0	1	0	0		G	10874777	G	G	10874777	2	3	214	1	0	0	0	0	0	0	0	1	6313	127	5	3		3	GCM2	6	10874777	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		10874777	160240290	289	106707											
NEDD9	4739	broad.mit.edu	37	chr6	11191400	11191400	+	Silent	SNP	T	C	C	0	1	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	tagtctttttccctaagcccTgcttcatcccggcaagcaga	8	12	7	14	1	2	1	1	0	1	1	4	1	4	1	3	1	3	3	3	1	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:11191400T>C	uc003mzv.2	-	5	869	c.702A>G	c.(700-702)GCA>GCG	p.A234A	NEDD9_uc010joz.2_Silent_p.A234A|NEDD9_uc003mzw.3_Silent_p.A88A	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	234					actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CCCTAAGCCCTGCTTCATCCC	0.527													8	77					0	0	1	0	0		C	11191400	C	C	11191400	2	2	214	1	0	0	0	0	0	0	0	1	10332	1567	55	3		3	NEDD9	6	11191400	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	316623	11191400	159923667	290	106708											
NEDD9	4739	broad.mit.edu	37	chr6	11213531	11213531	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cacctttttacccacgtgggGcccactggttcccccaatgc	6	10	8	17	1	0	0	0	0	0	0	1	0	1	0	5	3	2	1	5	3	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:11213531G>A	uc003mzv.2	-	2	609	c.442C>T	c.(442-444)CCC>TCC	p.P148S	NEDD9_uc010joz.2_Missense_Mutation_p.P148S|NEDD9_uc003mzw.3_5'UTR|NEDD9_uc003mzx.2_Missense_Mutation_p.P148S	NM_006403	NP_006394	Q14511	CASL_HUMAN	neural precursor cell expressed, developmentally	148	Interacts strongly with spindle- regulatory protein D1M1.				actin filament bundle assembly|cell adhesion|cell division|integrin-mediated signaling pathway|mitosis|regulation of growth	cell cortex|focal adhesion|Golgi apparatus|lamellipodium|nucleus	protein binding				0	Breast(50;0.0768)|Ovarian(93;0.152)	all_hematologic(90;0.135)	Epithelial(50;0.0647)|all cancers(50;0.179)			CCCACGTGGGGCCCACTGGTT	0.448													5	58					0	0	1	0	0		A	11213531	A	A	11213531	3	1	214	1	0	0	0	0	1	0	0	0	10332	1203	42	2	2156	2	NEDD9	6	11213531	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	22131	11213531	159901536	291	106709											
HIVEP1	3096	broad.mit.edu	37	chr6	12122666	12122666	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttctatgatgatgtctttGtatcgggacctaacgctcct	7	16	8	10	2	2	2	0	2	2	0	4	3	3	3	2	1	1	2	2	1	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:12122666G>A	uc003nac.2	+	4	2817	c.2638G>A	c.(2638-2640)GTA>ATA	p.V880I	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	880					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				TGATGTCTTTGTATCGGGACC	0.443													15	141					0	0	1	0	0		A	12122666	A	A	12122666	3	1	214	1	0	0	0	0	1	0	0	0	7202	1377	48	4	2648	4	HIVEP1	6	12122666	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	909135	12122666	158992401	292	106710											
HIVEP1	3096	broad.mit.edu	37	chr6	12164142	12164142	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttcatcacaaagcagcccCgcccctcaggcacacattcc	10	6	5	20	1	3	0	3	0	0	0	4	0	4	0	6	1	2	2	6	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:12164142C>T	uc003nac.2	+	9	7784	c.7605C>T	c.(7603-7605)CCC>CCT	p.P2535P	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2535					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				AAAGCAGCCCCGCCCCTCAGG	0.537													14	87					0	0	1	0	0		T	12164142	T	T	12164142	2	4	214	1	0	0	0	0	0	0	0	1	7202	639	23	1		1	HIVEP1	6	12164142	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	41476	12164142	158950925	293	106711											
HIVEP1	3096	broad.mit.edu	37	chr6	12164656	12164656	+	Missense_Mutation	SNP	A	G	G	1	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	tgcacttcagcgacgtgagcAgcgatgatgacgaggacagg	11	6	15	9	4	1	3	1	3	0	0	1	7	1	4	0	2	4	2	0	2	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:12164656A>G	uc003nac.2	+	9	8298	c.8119A>G	c.(8119-8121)AGC>GGC	p.S2707G	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2707					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	Breast(50;0.0639)|Ovarian(93;0.0816)	all_hematologic(90;0.117)				CGACGTGAGCAGCGATGATGA	0.478													8	71					0	0	1	0	0		G	12164656	G	G	12164656	3	3	214	1	0	0	0	0	1	0	0	0	7202	188	7	3	8149	3	HIVEP1	6	12164656	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	514	12164656	158950411	294	106712											
NUP153	9972	broad.mit.edu	37	chr6	17665556	17665556	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaaataaacacttcgatttgTtgctatggaaactggctttg	13	14	8	6	1	0	0	0	0	0	0	1	2	0	1	0	2	3	3	0	2	6	6	rs112957894		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:17665556T>C	uc003ncd.1	-	9	1329	c.1129A>G	c.(1129-1131)ACA>GCA	p.T377A	NUP153_uc011dje.1_Missense_Mutation_p.T377A|NUP153_uc010jpl.1_Missense_Mutation_p.T377A	NM_005124	NP_005115	P49790	NU153_HUMAN	nucleoporin 153kDa	377					carbohydrate metabolic process|glucose transport|interspecies interaction between organisms|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytoplasm|nuclear membrane|nuclear pore|nucleolus|nucleoplasm	DNA binding|protein binding|transporter activity|zinc ion binding			lung(4)|ovary(2)|breast(2)|skin(1)	9	Breast(50;0.0259)|Ovarian(93;0.0584)	all_hematologic(90;0.125)	all cancers(50;0.0981)|Epithelial(50;0.112)			CTTCGATTTGTTGCTATGGAA	0.348													6	104					0	0	1	0	0		C	17665556	C	C	17665556	3	2	214	1	0	0	0	0	1	0	0	0	10774	1725	60	3	3354	3	NUP153	6	17665556	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5500900	17665556	153449511	295	106713											
KIF13A	63971	broad.mit.edu	37	chr6	17800233	17800233	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatttccccgctgctgtctaCgacttcaaggctcccacttt	6	13	7	15	2	2	0	1	0	1	0	4	2	4	0	3	1	2	3	3	1	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:17800233C>T	uc003ncg.3	-	21	2671	c.2566G>A	c.(2566-2568)GTA>ATA	p.V856I	KIF13A_uc003ncf.2_Missense_Mutation_p.V856I|KIF13A_uc003nch.3_Missense_Mutation_p.V856I|KIF13A_uc003nci.3_Missense_Mutation_p.V856I	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	856					cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			CTGCTGTCTACGACTTCAAGG	0.498													8	226					0	0	1	0	0		T	17800233	T	T	17800233	3	4	214	1	0	0	0	0	1	0	0	0	8290	536	19	1	2952	1	KIF13A	6	17800233	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	134677	17800233	153314834	296	106714											
MBOAT1	154141	broad.mit.edu	37	chr6	20212446	20212446	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgcggtaggaaaggctggacGgctgcggctctgctgccatc	6	8	16	11	3	1	0	0	0	1	0	2	2	1	2	1	6	4	5	1	6	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:20212446G>A	uc003ncx.1	-	1	225	c.20C>T	c.(19-21)CCG>CTG	p.P7L	MBOAT1_uc011dji.1_5'UTR	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain	7					phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			AAGGCTGGACGGCTGCGGCTC	0.706													3	30					0	0	1	0	0		A	20212446	A	A	20212446	3	1	214	1	0	0	0	0	1	0	0	0	9374	1116	39	1	1519	1	MBOAT1	6	20212446	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2412213	20212446	150902621	297	106715											
SCGN	10590	broad.mit.edu	37	chr6	25689706	25689706	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttttccttacacaggcttgTtctactgaagaaaggaaaag	13	13	8	7	0	1	2	0	1	1	1	2	3	2	3	1	2	2	2	1	2	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:25689706T>C	uc003nfb.2	+	9	782	c.579T>C	c.(577-579)TGT>TGC	p.C193C	SCGN_uc010jpz.2_Silent_p.C84C	NM_006998	NP_008929	O76038	SEGN_HUMAN	secretagogin precursor	193						extracellular region|transport vesicle membrane	calcium ion binding			ovary(2)|pancreas(1)	3						CACAGGCTTGTTCTACTGAAG	0.393													11	131					0	0	1	0	0		C	25689706	C	C	25689706	2	2	214	1	0	0	0	0	0	0	0	1	13928	1731	60	3		3	SCGN	6	25689706	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5477260	25689706	145425361	298	106716											
BTN3A1	11119	broad.mit.edu	37	chr6	26411795	26411795	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cctttcagaatggaaaaaggCcctcttcaagcctggtgagt	11	10	10	10	0	3	2	2	1	1	1	3	3	3	3	3	3	1	0	3	3	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:26411795C>T	uc003nhv.2	+	9	1372	c.1004C>T	c.(1003-1005)GCC>GTC	p.A335V	BTN3A1_uc011dkj.1_Missense_Mutation_p.A335V|BTN3A1_uc011dkk.1_Missense_Mutation_p.A283V|BTN3A1_uc010jqj.2_Missense_Mutation_p.A335V	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	335	Cytoplasmic (Potential).|B30.2/SPRY.				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						TGGAAAAAGGCCCTCTTCAAG	0.433													17	89					0	0	1	0	0		T	26411795	T	T	26411795	3	4	214	1	0	0	0	0	1	0	0	0	1565	739	26	2	1034	2	BTN3A1	6	26411795	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	722089	26411795	144703272	299	106717											
HIST1H2BJ	8970	broad.mit.edu	37	chr6	27100511	27100511	+	Missense_Mutation	SNP	A	T	T	1	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	ctttttcggggcgggagcagActtcgctggctctggcatag	5	11	15	10	3	1	1	0	0	1	1	3	2	1	2	0	5	1	4	0	5	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:27100511A>T	uc003niv.2	-	1	65	c.19T>A	c.(19-21)TCT>ACT	p.S7T	HIST1H2BJ_uc003niu.1_RNA|HIST1H2AG_uc003niw.2_5'Flank	NM_021058	NP_066402	P06899	H2B1J_HUMAN	histone cluster 1, H2bj	7					defense response to bacterium|nucleosome assembly	nucleosome|nucleus	DNA binding				0						GCGGGAGCAGACTTCGCTGGC	0.532													9	115					0	0	1	0	0		T	27100511	T	T	27100511	3	4	214	1	0	0	0	0	1	0	0	0	7165	275	10	5	365	5	HIST1H2BJ	6	27100511	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	688716	27100511	144014556	300	106718											
ZNF184	7738	broad.mit.edu	37	chr6	27420527	27420527	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtttatctccagtatgaaTtctttgatggtttataaggt	9	19	9	4	0	2	2	0	2	2	0	3	2	2	2	1	3	0	3	1	3	5	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:27420527T>A	uc003njj.2	-	5	1622	c.811A>T	c.(811-813)ATT>TTT	p.I271F	ZNF184_uc010jqv.2_Missense_Mutation_p.I271F|ZNF184_uc003nji.2_Missense_Mutation_p.I271F	NM_007149	NP_009080	Q99676	ZN184_HUMAN	zinc finger protein 184	271	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CCAGTATGAATTCTTTGATGG	0.368													17	106					0	0	1	0	0		A	27420527	A	A	27420527	3	1	214	1	0	0	0	0	1	0	0	0	17776	1493	52	5	1448	5	ZNF184	6	27420527	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	320016	27420527	143694540	301	106719											
NKAPL	222698	broad.mit.edu	37	chr6	28227462	28227462	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcactgctatgcagaagaaCggcagtcagcggaagactac	13	6	12	10	2	2	3	2	0	0	3	2	4	2	4	0	2	5	3	0	2	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:28227462C>T	uc003nkt.2	+	1	365	c.313C>T	c.(313-315)CGG>TGG	p.R105W	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	105										upper_aerodigestive_tract(1)|ovary(1)	2						TGCAGAAGAACGGCAGTCAGC	0.582													18	93					0	0	1	0	0		T	28227462	T	T	28227462	3	4	214	1	0	0	0	0	1	0	0	0	10459	527	19	1	315	1	NKAPL	6	28227462	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	806935	28227462	142887605	302	106720											
OR2H1	26716	broad.mit.edu	37	chr6	29430469	29430469	+	Missense_Mutation	SNP	A	G	G	1	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	gttactagggaaggaaagagActccagggaaagctggagag	15	5	16	5	0	0	2	0	0	0	2	1	7	1	5	1	4	2	2	1	4	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:29430469A>G	uc003nmi.2	+	3	1366	c.923A>G	c.(922-924)GAC>GGC	p.D308G	OR2H1_uc003nmj.1_Missense_Mutation_p.D308G|OR2H1_uc010jri.1_Missense_Mutation_p.D230G	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	308	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAGGAAAGAGACTCCAGGGAA	0.433													4	65					0	0	1	0	0		G	29430469	G	G	29430469	3	3	214	1	0	0	0	0	1	0	0	0	11020	275	10	3	925	3	OR2H1	6	29430469	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1203007	29430469	141684598	303	106721											
LY6G5C	80741	broad.mit.edu	37	chr6	31644790	31644790	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcagaaatccaggaagcagtAttgagagaatatccagaagc	17	6	11	7	0	0	4	0	1	0	3	2	6	2	5	2	1	2	3	2	1	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:31644790A>G	uc003nvu.1	-	3	388	c.388T>C	c.(388-390)TAC>CAC	p.Y130H	LY6G5C_uc003nvw.1_RNA|LY6G5C_uc010jtb.1_RNA	NM_025262	NP_079538	Q5SRR4	LY65C_HUMAN	lymphocyte antigen 6 complex G5C	133	UPAR/Ly6.					extracellular region					0						AGGAAGCAGTATTGAGAGAAT	0.458													13	139					0	0	1	0	0		G	31644790	G	G	31644790	3	3	214	1	0	0	0	0	1	0	0	0	9111	449	16	3	59	3	LY6G5C	6	31644790	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2214321	31644790	139470277	304	106722											
VARS	7407	broad.mit.edu	37	chr6	31749699	31749699	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgggcctccgcctcattgcGtccactcacccagtaccgcc	5	7	8	21	4	2	0	2	0	0	0	4	0	4	0	8	1	2	1	8	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:31749699G>A	uc003nxe.2	-	19	2695	c.2272C>T	c.(2272-2274)CGC>TGC	p.R758C	VARS_uc003nxf.1_5'Flank|VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	758					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GCCTCATTGCGTCCACTCACC	0.637													14	223					0	0	1	0	0		A	31749699	A	A	31749699	3	1	214	1	0	0	0	0	1	0	0	0	17149	1145	40	1	1570	1	VARS	6	31749699	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	104909	31749699	139365368	305	106723											
TNXB	7148	broad.mit.edu	37	chr6	32046817	32046817	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccctcactcacctgtcacGcccacggcggacaccgggcc	6	4	10	21	4	3	0	3	0	0	0	3	1	3	1	6	3	0	0	6	3	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:32046817G>A	uc003nzl.2	-	11	4570	c.4368C>T	c.(4366-4368)GGC>GGT	p.G1456G		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1543					actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CACCTGTCACGCCCACGGCGG	0.662													7	42					0	0	1	0	0		A	32046817	A	A	32046817	2	1	214	1	0	0	0	0	0	0	0	1	16371	1074	38	1		1	TNXB	6	32046817	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	297118	32046817	139068250	306	106724											
GPSM3	63940	broad.mit.edu	37	chr6	32159673	32159673	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gggagagcagggaggccgagCggggtcccagggctggggag	7	2	24	8	2	0	1	0	0	0	1	1	5	1	3	2	8	2	2	2	8	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:32159673C>T	uc003oay.3	-	3	551	c.158G>A	c.(157-159)CGC>CAC	p.R53H	PBX2_uc003oav.1_5'Flank|PBX2_uc003oaw.2_5'Flank|GPSM3_uc003oax.3_Intron|GPSM3_uc003oaz.2_Missense_Mutation_p.R53H	NM_022107	NP_071390	Q9Y4H4	GPSM3_HUMAN	G-protein signaling modulator 3 (AGS3-like, C.	53					signal transduction	cytoplasm	GTPase activator activity|protein binding				0						GGAGGCCGAGCGGGGTCCCAG	0.662													6	47					0	0	1	0	0		T	32159673	T	T	32159673	3	4	214	1	0	0	0	0	1	0	0	0	6752	768	27	1	332	1	GPSM3	6	32159673	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	112856	32159673	138955394	307	106725											
HLA-DRA	3122	broad.mit.edu	37	chr6	32410459	32410459	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaagcgctccaactatactcCgatcaccaatggtacctccc	12	8	5	16	2	1	0	1	0	0	0	4	1	4	0	5	1	4	2	5	1	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:32410459C>T	uc003obh.2	+	2	398	c.317C>T	c.(316-318)CCG>CTG	p.P106L	HLA-DRA_uc003obi.2_Missense_Mutation_p.P106L	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	106	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						AACTATACTCCGATCACCAAT	0.463									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				20	162					0	0	1	0	0		T	32410459	T	T	32410459	3	4	214	1	0	0	0	0	1	0	0	0	7223	652	23	1	323	1	HLA-DRA	6	32410459	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	250786	32410459	138704608	308	106726											
DAXX	1616	broad.mit.edu	37	chr6	33289197	33289197	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacatagagcttggctggccGgctccgggcccgagacagga	8	5	16	12	3	0	2	0	0	0	2	1	5	1	3	3	5	1	3	3	5	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:33289197G>A	uc003oec.2	-	3	559	c.355C>T	c.(355-357)CGG>TGG	p.R119W	DAXX_uc011drd.1_Missense_Mutation_p.R44W|DAXX_uc011dre.1_Missense_Mutation_p.R131W|DAXX_uc003oed.2_Missense_Mutation_p.R119W|DAXX_uc010juw.2_Missense_Mutation_p.R44W	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	119	Necessary for interaction with USP7.				activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						TTGGCTGGCCGGCTCCGGGCC	0.582			Mis|F|N		Pancreatic neuroendocrine tumors								9	127					0	0	1	0	0		A	33289197	A	A	33289197	3	1	214	1	0	0	0	0	1	0	0	0	4246	1115	39	1	1891	1	DAXX	6	33289197	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	878738	33289197	137825870	309	106727											
GRM4	2914	broad.mit.edu	37	chr6	34004301	34004301	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgcccttcactgtcttcttcCgctcacccggttggcagggc	3	12	10	16	2	4	0	2	0	2	0	5	0	5	0	3	3	1	3	3	3	0	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:34004301C>T	uc003oir.3	-	8	1756	c.1586G>A	c.(1585-1587)CGG>CAG	p.R529Q	GRM4_uc011dsn.1_Missense_Mutation_p.R482Q|GRM4_uc010jvh.2_Missense_Mutation_p.R529Q|GRM4_uc010jvi.2_Missense_Mutation_p.R221Q|GRM4_uc003oio.2_Missense_Mutation_p.R221Q|GRM4_uc003oip.2_RNA|GRM4_uc011dsl.1_Missense_Mutation_p.R389Q|GRM4_uc003oiq.2_Missense_Mutation_p.R396Q|GRM4_uc011dsm.1_Missense_Mutation_p.R360Q	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4 precursor	529	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			lung(3)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	6					L-Glutamic Acid(DB00142)	TGTCTTCTTCCGCTCACCCGG	0.622													24	58					0	0	1	0	0		T	34004301	T	T	34004301	3	4	214	1	0	0	0	0	1	0	0	0	6815	652	23	1	1164	1	GRM4	6	34004301	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	715104	34004301	137110766	310	106728											
UHRF1BP1	54887	broad.mit.edu	37	chr6	34826293	34826293	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cataccttgaattttgtagcCcccttccccctgtccatttg	6	15	5	15	0	0	1	0	1	0	0	2	1	2	1	6	0	2	1	6	0	3	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:34826293C>A	uc003oju.3	+	14	2394	c.2160C>A	c.(2158-2160)GCC>GCA	p.A720A	UHRF1BP1_uc010jvm.1_RNA|UHRF1BP1_uc010jvn.2_RNA|UHRF1BP1_uc010jvo.2_RNA	NM_017754	NP_060224	Q6BDS2	URFB1_HUMAN	ICBP90 binding protein 1	720										ovary(3)	3						ATTTTGTAGCCCCCTTCCCCC	0.547													4	75					0.0215528	0.0218585	1	1	0		A	34826293	A	A	34826293	2	1	214	1	0	0	0	0	0	0	0	1	16994	610	22	5		5	UHRF1BP1	6	34826293	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	821992	34826293	136288774	311	106729											
ANKS1A	23294	broad.mit.edu	37	chr6	35048916	35048916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccctgcggcaccctcccgagCggagcgcttcaggatccagg	6	5	13	17	4	1	0	1	0	0	0	3	3	3	2	4	4	3	2	4	4	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:35048916C>T	uc003ojx.3	+	17	2832	c.2690C>T	c.(2689-2691)GCG>GTG	p.A897V	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Missense_Mutation_p.A437V|ANKS1A_uc010jvp.1_Missense_Mutation_p.A271V	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	897						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						CCCTCCCGAGCGGAGCGCTTC	0.667													7	43					0	0	1	0	0		T	35048916	T	T	35048916	3	4	214	1	0	0	0	0	1	0	0	0	688	768	27	1	2756	1	ANKS1A	6	35048916	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	222623	35048916	136066151	312	106730											
LHFPL5	222662	broad.mit.edu	37	chr6	35782436	35782436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgctgggccactgcaccatcCgctgggccttcatgctggcc	4	8	12	17	2	1	0	1	0	0	0	2	0	2	0	5	3	2	4	5	3	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:35782436C>T	uc003olg.1	+	2	903	c.526C>T	c.(526-528)CGC>TGC	p.R176C		NM_182548	NP_872354	Q8TAF8	TMHS_HUMAN	lipoma HMGIC fusion partner-like 5	176			R -> L (in DFNB67).			integral to membrane				skin(1)	1						CTGCACCATCCGCTGGGCCTT	0.627													10	67					0	0	1	0	0		T	35782436	T	T	35782436	3	4	214	1	0	0	0	0	1	0	0	0	8784	652	23	1	532	1	LHFPL5	6	35782436	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	733520	35782436	135332631	313	106731											
DNAH8	1769	broad.mit.edu	37	chr6	38998037	38998037	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacccaaggaccccaagctgTatgtgtgtcctatttacaag	11	10	8	12	0	0	0	0	0	0	0	1	1	1	1	4	1	2	2	4	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:38998037T>C	uc003ooe.1	+	91	13942	c.13342T>C	c.(13342-13344)TAT>CAT	p.Y4448H		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						CCCCAAGCTGTATGTGTGTCC	0.502													15	100					0	0	1	0	0		C	38998037	C	C	38998037	3	2	214	1	0	0	0	0	1	0	0	0	4613	1638	57	3	13696	3	DNAH8	6	38998037	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3215601	38998037	132117030	314	106732											
KLHDC3	116138	broad.mit.edu	37	chr6	42986861	42986861	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggaaggcctgggagatgaaTttgaccttatagatcattct	12	12	11	6	0	2	4	1	2	1	2	2	6	2	5	2	3	0	0	2	3	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:42986861T>G	uc003otl.2	+	9	1130	c.961T>G	c.(961-963)TTT>GTT	p.F321V	C6orf153_uc003otp.1_5'Flank|KLHDC3_uc003otm.2_RNA|KLHDC3_uc010jyf.2_Missense_Mutation_p.F297V|KLHDC3_uc003otn.2_Missense_Mutation_p.F205V|KLHDC3_uc003oto.2_Missense_Mutation_p.F262V	NM_057161	NP_476502	Q9BQ90	KLDC3_HUMAN	kelch domain containing 3	321					reciprocal meiotic recombination	cytoplasm|nuclear chromatin	chromatin binding|protein binding			upper_aerodigestive_tract(1)	1			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			GGGAGATGAATTTGACCTTAT	0.433													5	113					0	0	1	0	0		G	42986861	G	G	42986861	3	3	214	1	0	0	0	0	1	0	0	0	8373	1493	52	5	991	5	KLHDC3	6	42986861	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3988824	42986861	128128206	315	106733											
CUL7	9820	broad.mit.edu	37	chr6	43020479	43020479	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaggataggcatgtaagccGggccccaggggcaccctgaa	10	5	14	12	1	1	1	1	1	0	0	1	2	1	2	4	5	1	3	4	5	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:43020479G>A	uc003otq.2	-	2	351	c.48C>T	c.(46-48)CCC>CCT	p.P16P	CUL7_uc011dvb.1_Silent_p.P68P|CUL7_uc010jyh.2_5'UTR|KLC4_uc003otr.1_Intron	NM_014780	NP_055595	Q14999	CUL7_HUMAN	cullin 7	16					interspecies interaction between organisms|ubiquitin-dependent protein catabolic process|vasculogenesis	anaphase-promoting complex|mitochondrion	ubiquitin protein ligase binding			ovary(3)|kidney(1)	4			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)			CATGTAAGCCGGGCCCCAGGG	0.597													5	55					0	0	1	0	0		A	43020479	A	A	43020479	2	1	214	1	0	0	0	0	0	0	0	1	4063	1103	39	1		1	CUL7	6	43020479	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	33618	43020479	128094588	316	106734											
PTK7	5754	broad.mit.edu	37	chr6	43098289	43098289	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgctggcaccccaggacgtGgtagtagcgaggtatgagga	9	7	17	8	2	0	1	0	1	0	0	0	4	0	3	2	5	2	5	2	5	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:43098289G>A	uc003oub.1	+	5	900	c.702G>A	c.(700-702)GTG>GTA	p.V234V	PTK7_uc003ouc.1_Silent_p.V234V|PTK7_uc003oud.1_Silent_p.V234V|PTK7_uc003oue.1_Silent_p.V234V|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Silent_p.V242V|PTK7_uc010jyj.1_5'Flank|PTK7_uc003oua.2_Silent_p.V234V	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	234	Ig-like C2-type 3.|Extracellular (Potential).				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity	p.V234M(1)		ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			CCCAGGACGTGGTAGTAGCGA	0.602													5	30					0	0	1	0	0		A	43098289	A	A	43098289	2	1	214	1	0	0	0	0	0	0	0	1	12788	1335	47	4		4	PTK7	6	43098289	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	77810	43098289	128016778	317	106735											
MEP1A	4224	broad.mit.edu	37	chr6	46777201	46777201	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgtatgcctttgagatgttcCgtctcaagtcctgtgtggat	6	16	11	8	1	1	1	1	1	1	1	4	3	3	2	3	1	1	2	3	1	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:46777201C>T	uc010jzh.1	+	6	349	c.307C>T	c.(307-309)CGT>TGT	p.R103C	MEP1A_uc011dwg.1_5'UTR|MEP1A_uc011dwh.1_Missense_Mutation_p.R131C|MEP1A_uc011dwi.1_Missense_Mutation_p.R3C	NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A alpha precursor	103	Extracellular (Potential).|Metalloprotease.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3			Lung(136;0.192)			TGAGATGTTCCGTCTCAAGTC	0.378													70	104					0	0	1	0	0		T	46777201	T	T	46777201	3	4	214	1	0	0	0	0	1	0	0	0	9493	652	23	1	329	1	MEP1A	6	46777201	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3678912	46777201	124337866	318	106736											
GPR111	222611	broad.mit.edu	37	chr6	47649925	47649925	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgccaaggcactccttatcCtctatggaatcatgattgtt	9	15	7	10	0	2	1	1	1	1	0	4	2	4	2	3	2	1	2	3	2	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:47649925C>A	uc010jzj.1	+	6	1631	c.1630C>A	c.(1630-1632)CTC>ATC	p.L544I	GPR111_uc010jzk.1_Missense_Mutation_p.L476I|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	544	Helical; Name=3; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						ACTCCTTATCCTCTATGGAAT	0.453													7	65					2.74318e-10	3.03697e-10	1	1	0		A	47649925	A	A	47649925	3	1	214	1	0	0	0	0	1	0	0	0	6643	681	24	5	1444	5	GPR111	6	47649925	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	872724	47649925	123465142	319	106737											
PAQR8	85315	broad.mit.edu	37	chr6	52268177	52268177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cttacatccgcaccggctacCgccccacggggcacgagtgg	7	5	12	17	5	0	0	0	0	0	0	1	1	1	0	5	4	2	3	5	4	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:52268177C>T	uc003pao.3	+	2	340	c.166C>T	c.(166-168)CGC>TGC	p.R56C		NM_133367	NP_588608	Q8TEZ7	MPRB_HUMAN	progestin and adipoQ receptor family member	56	Cytoplasmic (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding				0	Lung NSC(77;0.0875)					CACCGGCTACCGCCCCACGGG	0.602													11	121					0	0	1	0	0		T	52268177	T	T	52268177	3	4	214	1	0	0	0	0	1	0	0	0	11460	652	23	1	168	1	PAQR8	6	52268177	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4618252	52268177	118846890	320	106738											
EFHC1	114327	broad.mit.edu	37	chr6	52343854	52343854	+	Missense_Mutation	SNP	A	G	G	1	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	ggaatcccccatcccagaagAcaaagaccgcagatttgtct	13	7	8	13	1	1	4	0	0	1	4	3	5	3	5	4	1	0	1	4	1	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:52343854A>G	uc003pap.3	+	8	1513	c.1298A>G	c.(1297-1299)GAC>GGC	p.D433G	EFHC1_uc011dwv.1_Missense_Mutation_p.D342G|EFHC1_uc011dww.1_Missense_Mutation_p.D414G	NM_018100	NP_060570	Q5JVL4	EFHC1_HUMAN	EF-hand domain (C-terminal) containing 1	433	DM10 3.					axoneme|neuronal cell body	calcium ion binding|protein C-terminus binding			ovary(2)|skin(1)	3	Lung NSC(77;0.109)					ATCCCAGAAGACAAAGACCGC	0.393													15	84					0	0	1	0	0		G	52343854	G	G	52343854	3	3	214	1	0	0	0	0	1	0	0	0	4952	275	10	3	1338	3	EFHC1	6	52343854	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	75677	52343854	118771213	321	106739											
FBXO9	26268	broad.mit.edu	37	chr6	52957292	52957292	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagctgtattaaacttgttcCgtacacgtcctggagagaga	12	11	10	8	2	0	2	0	0	0	2	2	4	2	2	2	1	3	4	2	1	5	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:52957292C>T	uc003pbo.2	+	8	800	c.749C>T	c.(748-750)CCG>CTG	p.P250L	FBXO9_uc003pbk.2_Missense_Mutation_p.P206L|FBXO9_uc003pbl.2_Missense_Mutation_p.P240L|FBXO9_uc003pbm.2_Missense_Mutation_p.P130L|FBXO9_uc003pbn.2_Missense_Mutation_p.P130L	NM_012347	NP_036479	Q9UK97	FBX9_HUMAN	F-box only protein 9 isoform 1	250						ubiquitin ligase complex	ubiquitin-protein ligase activity			pancreas(1)	1	Lung NSC(77;0.103)					AAACTTGTTCCGTACACGTCC	0.418													49	75					0	0	1	0	0		T	52957292	T	T	52957292	3	4	214	1	0	0	0	0	1	0	0	0	5776	652	23	1	782	1	FBXO9	6	52957292	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	613438	52957292	118157775	322	106740											
PHF3	23469	broad.mit.edu	37	chr6	64404538	64404538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	taaaaaatggcagctagctcCtcttcgtaagatgggacaac	14	9	9	9	1	1	1	0	0	1	1	3	2	2	2	1	2	3	4	1	2	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:64404538C>T	uc003pep.1	+	5	2590	c.2564C>T	c.(2563-2565)CCT>CTT	p.P855L	PHF3_uc010kaf.1_Missense_Mutation_p.P855L|PHF3_uc003pem.2_Missense_Mutation_p.P808L|PHF3_uc010kag.1_Missense_Mutation_p.P767L|PHF3_uc010kah.1_Missense_Mutation_p.P669L|PHF3_uc003pen.2_Missense_Mutation_p.P767L|PHF3_uc011dxs.1_Missense_Mutation_p.P124L	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	855					multicellular organismal development|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	all_cancers(3;0.0241)|all_epithelial(2;0.00306)|Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(74;0.0644)|Lung(124;0.148)			CAGCTAGCTCCTCTTCGTAAG	0.378													17	146					0	0	1	0	0		T	64404538	T	T	64404538	3	4	214	1	0	0	0	0	1	0	0	0	11855	681	24	4	2582	4	PHF3	6	64404538	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	11447246	64404538	106710529	323	106741											
DOPEY1	23033	broad.mit.edu	37	chr6	83848666	83848666	+	Silent	SNP	A	G	G	1	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	ttgcatgctcagccaatcacAtgtcaaggcatgttcctctg	9	12	8	12	0	4	0	3	0	1	0	5	0	5	0	2	1	3	4	2	1	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:83848666A>G	uc003pjs.1	+	21	5165	c.4905A>G	c.(4903-4905)ACA>ACG	p.T1635T	DOPEY1_uc011dyy.1_Silent_p.T1626T|DOPEY1_uc010kbl.1_Silent_p.T1626T|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1635					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		AGCCAATCACATGTCAAGGCA	0.428													7	79					0	0	1	0	0		G	83848666	G	G	83848666	2	3	214	1	0	0	0	0	0	0	0	1	4713	204	8	3		3	DOPEY1	6	83848666	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	19444128	83848666	87266401	324	106742											
DOPEY1	23033	broad.mit.edu	37	chr6	83848693	83848693	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcatgttcctctgtgcagtGatacgagctttgcatcagca	8	12	11	10	1	2	1	1	1	1	0	3	2	3	1	1	1	5	6	1	1	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:83848693G>A	uc003pjs.1	+	21	5192	c.4932G>A	c.(4930-4932)GTG>GTA	p.V1644V	DOPEY1_uc011dyy.1_Silent_p.V1635V|DOPEY1_uc010kbl.1_Silent_p.V1635V|DOPEY1_uc003pjt.2_RNA	NM_015018	NP_055833	Q5JWR5	DOP1_HUMAN	dopey family member 1	1644					protein transport					ovary(2)|breast(1)|central_nervous_system(1)	4		all_cancers(76;2.29e-06)|Acute lymphoblastic leukemia(125;3.41e-06)|all_hematologic(105;0.000865)|all_epithelial(107;0.00203)		BRCA - Breast invasive adenocarcinoma(397;0.053)		TCTGTGCAGTGATACGAGCTT	0.448													12	82					0	0	1	0	0		A	83848693	A	A	83848693	2	1	214	1	0	0	0	0	0	0	0	1	4713	1277	45	4		4	DOPEY1	6	83848693	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	27	83848693	87266374	325	106743											
C6orf165	154313	broad.mit.edu	37	chr6	88125515	88125515	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agaattggaaagcctctaccGgaagattatcagctatgtgt	13	11	10	7	1	2	2	1	0	1	2	2	4	2	4	2	2	3	1	2	2	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:88125515G>A	uc003plv.2	+	5	487	c.395G>A	c.(394-396)CGG>CAG	p.R132Q	C6orf165_uc003plw.2_5'UTR|C6orf165_uc010kbv.1_RNA|C6orf165_uc003plu.1_Missense_Mutation_p.R132Q	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1	132										central_nervous_system(1)	1		all_cancers(76;3.93e-06)|Acute lymphoblastic leukemia(125;3.55e-10)|Prostate(29;3.51e-09)|all_hematologic(105;3.29e-06)|all_epithelial(107;0.00575)		BRCA - Breast invasive adenocarcinoma(108;0.0419)		AGCCTCTACCGGAAGATTATC	0.438													7	51					0	0	1	0	0		A	88125515	A	A	88125515	3	1	214	1	0	0	0	0	1	0	0	0	2344	1116	39	1	409	1	C6orf165	6	88125515	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4276822	88125515	82989552	326	106744											
SIM1	6492	broad.mit.edu	37	chr6	100838312	100838312	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggttgcatcctcagatgggaAgttacatcaaagtgtgagcc	11	10	12	8	0	2	2	2	1	0	1	3	3	3	3	2	2	3	3	2	2	3	2	rs139754745	byFrequency	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:100838312A>C	uc003pqj.3	-	11	2433	c.2226T>G	c.(2224-2226)ACT>ACG	p.T742T	SIM1_uc010kcu.2_Silent_p.T742T	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	742	Single-minded C-terminal.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		TCAGATGGGAAGTTACATCAA	0.413													27	112					0	0	1	0	0		C	100838312	C	C	100838312	2	2	214	1	0	0	0	0	0	0	0	1	14348	59	3	5		5	SIM1	6	100838312	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	12712797	100838312	70276755	327	106745											
C6orf170	221322	broad.mit.edu	37	chr6	121452898	121452898	+	Missense_Mutation	SNP	T	A	A	0	1	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	aaagcttgtcaagatcattgTctaatcagaaagataacata	18	11	6	6	0	4	3	3	0	1	3	4	3	4	3	0	0	2	1	0	0	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:121452898T>A	uc003pyo.1	-	25	2842	c.2774A>T	c.(2773-2775)GAC>GTC	p.D925V	C6orf170_uc003pyq.1_RNA|C6orf170_uc010kej.1_Missense_Mutation_p.D24V|C6orf170_uc003pyp.1_Missense_Mutation_p.D485V	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	925					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		AAGATCATTGTCTAATCAGAA	0.274													4	9					0	0	1	0	0		A	121452898	A	A	121452898	3	1	214	1	0	0	0	0	1	0	0	0	2347	1681	58	5	1031	5	C6orf170	6	121452898	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	20614586	121452898	49662169	328	106746											
SERINC1	57515	broad.mit.edu	37	chr6	122768310	122768310	+	Silent	SNP	T	C	C	0	1	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	aagagaattagtcctataatTccttgagcatgccaccactg	13	11	7	10	0	0	2	0	1	0	1	2	3	2	2	4	0	2	1	4	0	5	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:122768310T>C	uc003pyy.1	-	8	1021	c.951A>G	c.(949-951)GGA>GGG	p.G317G	SERINC1_uc003pyx.1_5'Flank	NM_020755	NP_065806	Q9NRX5	SERC1_HUMAN	serine incorporator 1	317	Helical; (Potential).				phosphatidylserine metabolic process|phospholipid biosynthetic process|positive regulation of transferase activity|sphingolipid metabolic process	endoplasmic reticulum membrane|integral to membrane|plasma membrane	L-serine transmembrane transporter activity|protein binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.126)		GTCCTATAATTCCTTGAGCAT	0.358													21	118					0	0	1	0	0		C	122768310	C	C	122768310	2	2	214	1	0	0	0	0	0	0	0	1	14104	1770	62	3		3	SERINC1	6	122768310	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1315412	122768310	48346757	329	106747											
NCOA7	135112	broad.mit.edu	37	chr6	126199499	126199499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgaataaacttttcacacatActattgttccaggccaggta	13	13	6	9	0	1	1	1	1	0	0	2	1	2	1	2	2	2	2	2	2	6	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:126199499A>G	uc010kes.2	+	7	891	c.442A>G	c.(442-444)ACT>GCT	p.T148A	NCOA7_uc003qae.3_Missense_Mutation_p.T148A|NCOA7_uc003qah.2_Missense_Mutation_p.T148A|NCOA7_uc003qai.2_Missense_Mutation_p.T148A|NCOA7_uc010ket.2_Missense_Mutation_p.T44A|NCOA7_uc003qaf.2_Missense_Mutation_p.T148A|NCOA7_uc003qag.2_Missense_Mutation_p.T148A	NM_181782	NP_861447	Q8NI08	NCOA7_HUMAN	nuclear receptor coactivator 7 isoform 1	148	LysM.				cell wall macromolecule catabolic process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			lung(2)|ovary(1)	3				UCEC - Uterine corpus endometrioid carcinoma (4;0.0803)|GBM - Glioblastoma multiforme(226;0.0193)|all cancers(137;0.237)		TTTCACACATACTATTGTTCC	0.358													6	33					0	0	1	0	0		G	126199499	G	G	126199499	3	3	214	1	0	0	0	0	1	0	0	0	10253	391	14	3	456	3	NCOA7	6	126199499	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3431189	126199499	44915568	330	106748											
HBS1L	10767	broad.mit.edu	37	chr6	135360709	135360709	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaagaacaagtaaaggcatAccttttgctatctttcctgt	14	13	6	8	0	1	1	0	0	1	1	2	1	2	1	2	1	3	3	2	1	8	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:135360709A>G	uc003qez.2	-	4	637	c.430_splice	c.e4+1	p.G144_splice	HBS1L_uc011ecy.1_Intron|HBS1L_uc011ecz.1_Intron|HBS1L_uc011eda.1_Splice_Site_p.G102_splice|HBS1L_uc003qfa.2_Splice_Site_p.G144_splice	NM_006620	NP_006611	Q9Y450	HBS1L_HUMAN	Hsp70 subfamily B suppressor 1-like protein						signal transduction		GTP binding|GTPase activity|translation elongation factor activity			skin(2)	2	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0046)|GBM - Glioblastoma multiforme(68;0.00702)		GTAAAGGCATACCTTTTGCTA	0.373													11	116					0	0	1	0	0		G	135360709	G	G	135360709	5	3	214	1	0	0	0	0	0	0	1	0	7003	405	14	3	3155	3	HBS1L	6	135360709	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	9161210	135360709	35754358	331	106749											
HIVEP2	3097	broad.mit.edu	37	chr6	143091156	143091156	+	Missense_Mutation	SNP	T	C	C	0	1	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	catgctcatgtccgatgccgTctcatcgatatctaattcat	9	14	6	12	3	4	0	3	0	2	0	7	2	5	0	2	0	2	1	2	0	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:143091156T>C	uc003qjd.2	-	5	5463	c.4720A>G	c.(4720-4722)ACG>GCG	p.T1574A		NM_006734	NP_006725	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer	1574	Ser-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		TCCGATGCCGTCTCATCGATA	0.537													16	111					0	0	1	0	0		C	143091156	C	C	143091156	3	2	214	1	0	0	0	0	1	0	0	0	7203	1667	58	3	2644	3	HIVEP2	6	143091156	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	7730447	143091156	28023911	332	106750											
UTRN	7402	broad.mit.edu	37	chr6	145115062	145115062	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccatccagatcccccggcagCtaggtgaagtagcagctttt	9	9	10	13	1	0	2	0	1	0	1	2	2	2	2	4	2	3	5	4	2	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:145115062C>A	uc003qkt.2	+	62	9105	c.9013C>A	c.(9013-9015)CTA>ATA	p.L3005I		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3005	Interaction with SYNM.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		CCCCCGGCAGCTAGGTGAAGT	0.502													9	69					0.000673444	0.000702938	1	1	0		A	145115062	A	A	145115062	3	1	214	1	0	0	0	0	1	0	0	0	17129	796	28	5	9259	5	UTRN	6	145115062	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2023906	145115062	26000005	333	106751											
ZC3H12D	340152	broad.mit.edu	37	chr6	149777879	149777879	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gggttctcgctctgcaggtcCcggtagttgtcgttggagac	4	12	15	10	3	2	1	0	0	2	1	5	2	3	1	1	4	1	6	1	4	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:149777879C>A	uc003qmn.1	-	3	673	c.603G>T	c.(601-603)CGG>CGT	p.R201R	PPIL4_uc010kic.2_Intron|ZC3H12D_uc003qmm.2_Silent_p.R201R|ZC3H12D_uc010kid.2_Silent_p.R201R	NM_207360	NP_997243	A2A288	ZC12D_HUMAN	zinc finger CCCH-type containing 12D	201						cytoplasm|nucleus	endonuclease activity|nucleic acid binding|zinc ion binding				0		Ovarian(120;0.0907)		OV - Ovarian serous cystadenocarcinoma(155;1.23e-11)|GBM - Glioblastoma multiforme(68;0.0921)		TCTGCAGGTCCCGGTAGTTGT	0.617													12	69					0.00244969	0.00254768	1	1	0		A	149777879	A	A	149777879	2	1	214	1	0	0	0	0	0	0	0	1	17589	610	22	5		5	ZC3H12D	6	149777879	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4662817	149777879	21337188	334	106752											
SYNE1	23345	broad.mit.edu	37	chr6	152686081	152686081	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgccttctggagaagtattcTgaaggacagattctcccctg	9	12	10	10	0	3	3	0	1	3	2	4	5	3	4	3	2	1	1	3	2	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:152686081T>G	uc010kiw.2	-	63	10648	c.10046A>C	c.(10045-10047)CAG>CCG	p.Q3349P	SYNE1_uc003qot.3_Missense_Mutation_p.Q3356P|SYNE1_uc003qou.3_Missense_Mutation_p.Q3349P|SYNE1_uc010kja.1_Missense_Mutation_p.Q54P	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	3349	Spectrin 7.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		AGAAGTATTCTGAAGGACAGA	0.433										HNSCC(10;0.0054)			13	58					0	0	1	0	0		G	152686081	G	G	152686081	3	3	214	1	0	0	0	0	1	0	0	0	15470	1580	55	5	16756	5	SYNE1	6	152686081	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2908202	152686081	18428986	335	106753											
UNC93A	54346	broad.mit.edu	37	chr6	167719508	167719508	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgtatggaaaggtctcgcagTacacgggcagggctgtgctg	8	9	16	8	2	1	0	0	0	1	0	2	1	1	1	0	4	2	6	0	4	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:167719508T>C	uc003qvq.2	+	6	1121	c.946T>C	c.(946-948)TAC>CAC	p.Y316H	UNC93A_uc003qvr.2_Missense_Mutation_p.Y274H	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	316						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GGTCTCGCAGTACACGGGCAG	0.577													4	94					0	0	1	0	0		C	167719508	C	C	167719508	3	2	214	1	0	0	0	0	1	0	0	0	17022	1638	57	3	968	3	UNC93A	6	167719508	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	15033427	167719508	3395559	336	106754											
MLLT4	4301	broad.mit.edu	37	chr6	168325765	168325765	+	Silent	SNP	A	G	G	1	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	atgggccttagcattgttgcAgcaaaggtaggccaattagt	11	11	12	7	0	0	0	0	0	0	0	0	0	0	0	2	3	3	5	2	3	5	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr6:168325765A>G	uc003qwd.2	+	22	3211	c.3069A>G	c.(3067-3069)GCA>GCG	p.A1023A	MLLT4_uc003qwb.1_Silent_p.A1008A|MLLT4_uc003qwc.1_Silent_p.A1024A|MLLT4_uc003qwg.1_Silent_p.A333A	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1024	PDZ.				adherens junction organization|cell adhesion|cell junction assembly|cell-cell signaling|signal transduction	adherens junction|cell-cell junction|cytosol|nucleus	protein C-terminus binding			ovary(2)|lung(1)|kidney(1)|central_nervous_system(1)	5		Breast(66;1.07e-05)|Ovarian(120;0.024)		Epithelial(4;2.38e-32)|OV - Ovarian serous cystadenocarcinoma(33;9.99e-23)|BRCA - Breast invasive adenocarcinoma(4;1.2e-11)|GBM - Glioblastoma multiforme(31;0.00117)		GCATTGTTGCAGCAAAGGTAG	0.458			T	MLL	AL								6	50					0	0	1	0	0		G	168325765	G	G	168325765	2	3	214	1	0	0	0	0	0	0	0	1	9647	175	7	3		3	MLLT4	6	168325765	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	606257	168325765	2789302	337	106755											
GET4	51608	broad.mit.edu	37	chr7	935043	935043	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gagccccagcgacggcagccCcatcgagctggactgaactg	9	4	13	15	3	0	1	0	1	0	0	1	5	0	2	4	2	5	2	4	2	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:935043C>A	uc003sjl.1	+	9	1060	c.968C>A	c.(967-969)CCC>CAC	p.P323H	GET4_uc003sjj.1_RNA	NM_015949	NP_057033	Q7L5D6	GET4_HUMAN	hypothetical protein LOC51608	323					tail-anchored membrane protein insertion into ER membrane|transport	BAT3 complex	protein binding				0						GACGGCAGCCCCATCGAGCTG	0.642													5	84					1.6384e-10	1.81621e-10	1	1	0		A	935043	A	A	935043	3	1	214	1	0	0	0	0	1	0	0	0	6351	623	22	5	1002	5	GET4	7	935043	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08		935043	158203620	338	106756											
EIF3B	8662	broad.mit.edu	37	chr7	2412376	2412376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgctgcacggagaggctccgCggatatctgtgtctttctac	6	12	12	11	3	3	1	0	0	3	1	4	3	4	2	1	3	3	3	1	3	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:2412376C>T	uc003slx.2	+	12	1839	c.1756C>T	c.(1756-1758)CGG>TGG	p.R586W	EIF3B_uc003sly.2_Missense_Mutation_p.R586W|EIF3B_uc003sma.2_Missense_Mutation_p.R314W	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,	586	WD 4.				regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		AGAGGCTCCGCGGATATCTGT	0.463													10	71					0	0	1	0	0		T	2412376	T	T	2412376	3	4	214	1	0	0	0	0	1	0	0	0	5019	759	27	1	1802	1	EIF3B	7	2412376	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1477333	2412376	156726287	339	106757											
SDK1	221935	broad.mit.edu	37	chr7	4213929	4213929	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggagctggagtatgaagccGggtcaggcactgaggccaag	10	5	18	8	1	1	2	1	2	0	0	1	4	1	4	2	5	2	3	2	5	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:4213929G>A	uc003smx.2	+	33	5015	c.4876G>A	c.(4876-4878)GGG>AGG	p.G1626R	SDK1_uc010kso.2_Missense_Mutation_p.G902R|SDK1_uc003smy.2_Missense_Mutation_p.G113R	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	1626	Fibronectin type-III 10.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		GTATGAAGCCGGGTCAGGCAC	0.547													10	254					0	0	1	0	0		A	4213929	A	A	4213929	3	1	214	1	0	0	0	0	1	0	0	0	13993	1116	39	1	5006	1	SDK1	7	4213929	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1801553	4213929	154924734	340	106758											
RBAK	57786	broad.mit.edu	37	chr7	5105149	5105149	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaacgagtgtgggaaaaaaTtccaccacagatcagccttc	14	8	9	10	1	1	1	1	0	0	1	3	3	2	2	3	1	2	1	3	1	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:5105149T>A	uc010kss.1	+	6	2386	c.2062T>A	c.(2062-2064)TTC>ATC	p.F688I	LOC389458_uc003snr.2_Intron|RBAK_uc003sns.1_Missense_Mutation_p.F688I	NM_021163	NP_066986	Q9NYW8	RBAK_HUMAN	RB-associated KRAB repressor	688	Interaction with AR.|C2H2-type 16.				negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(3)|kidney(1)|skin(1)	5		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0916)|OV - Ovarian serous cystadenocarcinoma(56;2.44e-14)		TGGGAAAAAATTCCACCACAG	0.383													14	117					0	0	1	0	0		A	5105149	A	A	5105149	3	1	214	1	0	0	0	0	1	0	0	0	13125	1493	52	5	2076	5	RBAK	7	5105149	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	891220	5105149	154033514	341	106759											
TNRC18	84629	broad.mit.edu	37	chr7	5355614	5355614	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttatagtcagggggcaggaGgcggatatgtgagaggggga	10	7	20	4	1	1	1	1	1	0	1	1	5	1	4	0	7	0	1	0	7	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:5355614G>T	uc003soi.3	-	25	7184	c.6835C>A	c.(6835-6837)CTC>ATC	p.L2279I		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2279							DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		GGGGGCAGGAGGCGGATATGT	0.612													4	40					0.150653	0.151893	1	1	0		T	5355614	T	T	5355614	3	4	214	1	0	0	0	0	1	0	0	0	16364	1000	35	5	2095	5	TNRC18	7	5355614	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	250465	5355614	153783049	342	106760											
ACTB	60	broad.mit.edu	37	chr7	5567657	5567657	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tgatcttcattgtgctgggtGccagggcagtgatctccttc	5	14	12	10	0	3	2	1	2	2	0	5	2	3	2	2	2	2	2	2	2	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:5567657G>A	uc003sos.3	-	4	998	c.962C>T	c.(961-963)GCA>GTA	p.A321V	ACTB_uc003sor.3_Missense_Mutation_p.A199V|ACTB_uc003sot.3_Missense_Mutation_p.A321V|ACTB_uc003soq.3_Missense_Mutation_p.A199V|ACTB_uc010ksy.2_Missense_Mutation_p.A199V	NM_001101	NP_001092	P60709	ACTB_HUMAN	beta actin	321					'de novo' posttranslational protein folding|adherens junction organization|axon guidance|blood coagulation|cell junction assembly|cellular component movement	cytoskeleton|cytosol|MLL5-L complex|NuA4 histone acetyltransferase complex|ribonucleoprotein complex	ATP binding|kinesin binding|nitric-oxide synthase binding|structural constituent of cytoskeleton				0		Ovarian(82;0.0606)		UCEC - Uterine corpus endometrioid carcinoma (126;0.175)|OV - Ovarian serous cystadenocarcinoma(56;4.24e-37)		TGTGCTGGGTGCCAGGGCAGT	0.597													12	123					0	0	1	0	0		A	5567657	A	A	5567657	3	1	214	1	0	0	0	0	1	0	0	0	193	1319	46	2	173	2	ACTB	7	5567657	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	212043	5567657	153571006	343	106761											
AHR	196	broad.mit.edu	37	chr7	17373617	17373617	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatcaatacttccacctcagTtggctttgtttgcgatagct	8	15	8	10	1	2	0	2	0	0	0	3	2	3	0	2	1	3	4	2	1	3	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:17373617T>C	uc011jxz.1	+	7	1400	c.787T>C	c.(787-789)TTG>CTG	p.L263L	AHR_uc003stt.3_RNA	NM_001621	NP_001612	P35869	AHR_HUMAN	aryl hydrocarbon receptor precursor	263					apoptosis|blood vessel development|cell cycle|regulation of B cell proliferation|response to stress|transcription from RNA polymerase II promoter|xenobiotic metabolic process	cytosolic aryl hydrocarbon receptor complex|transcription factor complex	Hsp90 protein binding|ligand-dependent nuclear receptor activity|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding			urinary_tract(1)|kidney(1)|pancreas(1)	3	Lung NSC(10;0.0392)|all_lung(11;0.0754)					TCCACCTCAGTTGGCTTTGTT	0.378													12	90					0	0	1	0	0		C	17373617	C	C	17373617	2	2	214	1	0	0	0	0	0	0	0	1	416	1722	60	3		3	AHR	7	17373617	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	11805960	17373617	141765046	344	106762											
CREB5	9586	broad.mit.edu	37	chr7	28858731	28858731	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgtctttttttttctccctAggtccagagagtagccctcc	5	17	7	12	0	2	1	0	0	2	1	5	2	4	1	4	1	1	1	4	1	2	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:28858731A>G	uc003szq.2	+	11	1754	c.1364_splice	c.e11-2	p.S455_splice	CREB5_uc003szo.2_Splice_Site_p.S422_splice|CREB5_uc003szr.2_Splice_Site_p.S448_splice|CREB5_uc003szs.2_Splice_Site_p.S316_splice	NM_182898	NP_878901	Q02930	CREB5_HUMAN	cAMP responsive element binding protein 5						positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)	2						TTTTCTCCCTAGGTCCAGAGA	0.458													10	156					0	0	1	0	0		G	28858731	G	G	28858731	5	3	214	1	0	0	0	0	0	0	1	0	3863	434	15	3	1455	3	CREB5	7	28858731	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	11485114	28858731	130279932	345	106763											
BMPER	168667	broad.mit.edu	37	chr7	34094781	34094781	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctttgggcccccaggactctActgtggtttgcaagaggaag	8	10	13	10	0	1	1	0	0	1	1	1	3	1	3	2	4	2	2	2	4	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:34094781A>G	uc011kap.1	+	9	907	c.793A>G	c.(793-795)ACT>GCT	p.T265A		NM_133468	NP_597725	Q8N8U9	BMPER_HUMAN	BMP-binding endothelial regulator precursor	265	VWFC 4.				blood vessel endothelial cell proliferation involved in sprouting angiogenesis|endothelial cell activation|negative regulation of BMP signaling pathway|positive regulation of ERK1 and ERK2 cascade|regulation of endothelial cell migration|regulation of pathway-restricted SMAD protein phosphorylation	extracellular space				ovary(2)|central_nervous_system(1)	3						CCAGGACTCTACTGTGGTTTG	0.498													5	131					0	0	1	0	0		G	34094781	G	G	34094781	3	3	214	1	0	0	0	0	1	0	0	0	1469	391	14	3	827	3	BMPER	7	34094781	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5236050	34094781	125043882	346	106764											
POU6F2	11281	broad.mit.edu	37	chr7	39247128	39247128	+	Silent	SNP	A	G	G	1	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	cagcaaggactggttctcacActgccaacagcgaatctcac	12	7	8	14	1	2	0	2	0	2	0	4	2	2	1	1	2	4	2	1	2	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:39247128A>G	uc003thb.1	+	4	462	c.420A>G	c.(418-420)ACA>ACG	p.T140T	POU6F2_uc010kxo.2_Silent_p.T132T	NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	140					central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						TGGTTCTCACACTGCCAACAG	0.582													15	118					0	0	1	0	0		G	39247128	G	G	39247128	2	3	214	1	0	0	0	0	0	0	0	1	12304	146	6	3		3	POU6F2	7	39247128	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5152347	39247128	119891535	347	106765											
POU6F2	11281	broad.mit.edu	37	chr7	39472723	39472723	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatccagggccatcgagccaAgcagcaagcggcactcaggg	12	3	13	13	2	1	0	1	0	0	0	3	1	2	0	3	3	4	3	3	3	3	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:39472723A>C	uc003thb.1	+	7	1116	c.1074A>C	c.(1072-1074)CAA>CAC	p.Q358H		NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	358	Gln-rich.				central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CATCGAGCCAAGCAGCAAGCG	0.587													11	76					0	0	1	0	0		C	39472723	C	C	39472723	3	2	214	1	0	0	0	0	1	0	0	0	12304	69	3	5	1100	5	POU6F2	7	39472723	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	225595	39472723	119665940	348	106766											
CDK13	8621	broad.mit.edu	37	chr7	39991418	39991418	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctacagcagcagcagctggcGccgctctcgcagtccctaca	8	6	10	17	3	1	0	0	0	1	0	3	0	2	0	2	1	6	6	2	1	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:39991418G>A	uc003thh.3	+	1	1460	c.1178G>A	c.(1177-1179)CGC>CAC	p.R393H	CDK13_uc003thi.3_Missense_Mutation_p.R393H	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	393					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						AGCAGCTGGCGCCGCTCTCGC	0.672													7	78					0	0	1	0	0		A	39991418	A	A	39991418	3	1	214	1	0	0	0	0	1	0	0	0	3132	1087	38	1	1180	1	CDK13	7	39991418	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	518695	39991418	119147245	349	106767											
CDK13	8621	broad.mit.edu	37	chr7	40027229	40027229	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcccgaagcagaagcccgTattcatctaggcattcaaga	14	8	8	11	2	3	2	2	0	1	2	4	3	4	2	2	1	2	3	2	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:40027229T>C	uc003thh.3	+	2	1525	c.1243T>C	c.(1243-1245)TAT>CAT	p.Y415H	CDK13_uc003thi.3_Missense_Mutation_p.Y415H|CDK13_uc011kbf.1_5'UTR	NM_003718	NP_003709	Q14004	CDK13_HUMAN	cell division cycle 2-like 5 isoform 1	415					alternative nuclear mRNA splicing, via spliceosome|hemopoiesis|interspecies interaction between organisms|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of cell proliferation|regulation of mitosis	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			lung(2)|skin(2)|ovary(1)	5						CAGAAGCCCGTATTCATCTAG	0.403													9	75					0	0	1	0	0		C	40027229	C	C	40027229	3	2	214	1	0	0	0	0	1	0	0	0	3132	1638	57	3	1249	3	CDK13	7	40027229	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	35811	40027229	119111434	350	106768											
DBNL	28988	broad.mit.edu	37	chr7	44091531	44091531	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggactgcccaaatttgtccTcatcaactgggtatgtggag	9	12	11	9	0	2	0	2	0	0	0	3	2	3	2	2	3	2	1	2	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:44091531T>C	uc003tjp.3	+	3	340	c.242T>C	c.(241-243)CTC>CCC	p.L81P	DBNL_uc003tjn.2_Intron|DBNL_uc003tjo.3_Missense_Mutation_p.L81P|DBNL_uc003tjr.3_Intron|DBNL_uc003tjq.3_Missense_Mutation_p.L81P|DBNL_uc011kbm.1_Missense_Mutation_p.L81P|DBNL_uc011kbn.1_Intron|DBNL_uc011kbo.1_Intron|DBNL_uc011kbp.1_Missense_Mutation_p.L81P|DBNL_uc011kbq.1_Intron|DBNL_uc011kbr.1_Missense_Mutation_p.L29P|DBNL_uc011kbs.1_5'Flank	NM_001014436	NP_001014436	Q9UJU6	DBNL_HUMAN	drebrin-like isoform b	81	ADF-H.				activation of JUN kinase activity|cellular component disassembly involved in apoptosis|endocytosis|Rac protein signal transduction	cell cortex|cytoskeleton|cytosol|lamellipodium	actin binding|enzyme activator activity|identical protein binding			skin(1)	1						AAATTTGTCCTCATCAACTGG	0.507													11	59					0	0	1	0	0		C	44091531	C	C	44091531	3	2	214	1	0	0	0	0	1	0	0	0	4258	1551	54	3	252	3	DBNL	7	44091531	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4064302	44091531	115047132	351	106769											
GUSB	2990	broad.mit.edu	37	chr7	65441103	65441103	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgggtcccagtcccattcgCcacgactttgttttctgcat	5	14	8	14	2	1	0	0	0	1	0	4	1	3	0	3	1	1	2	3	1	0	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:65441103C>A	uc003tun.2	-	5	887	c.811G>T	c.(811-813)GCG>TCG	p.A271S	GUSB_uc011kdt.1_Intron|GUSB_uc010kzw.1_Missense_Mutation_p.A104S	NM_000181	NP_000172	P08236	BGLR_HUMAN	glucuronidase, beta precursor	271					glycosaminoglycan catabolic process	lysosome	beta-glucuronidase activity|cation binding				0						GTCCCATTCGCCACGACTTTG	0.522													4	92					0.184627	0.184627	1	1	0		A	65441103	A	A	65441103	3	1	214	1	0	0	0	0	1	0	0	0	6918	739	26	5	1176	5	GUSB	7	65441103	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	21349572	65441103	93697560	352	106770											
PCLO	27445	broad.mit.edu	37	chr7	82389956	82389956	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctacataatacagagctaccTgaagagaatgtcctgcagga	15	8	9	9	0	0	3	0	1	0	2	1	5	1	4	2	1	5	2	2	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:82389956T>C	uc003uhx.2	-	24	15576	c.15287A>G	c.(15286-15288)CAG>CGG	p.Q5096R		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	5019	C2 2.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CAGAGCTACCTGAAGAGAATG	0.313													6	65					0	0	1	0	0		C	82389956	C	C	82389956	3	2	214	1	0	0	0	0	1	0	0	0	11602	1594	55	3	149	3	PCLO	7	82389956	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	16948853	82389956	76748707	353	106771											
PCLO	27445	broad.mit.edu	37	chr7	82578809	82578809	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taccgtatagccctcggtatActgaaaaggagccctggaac	12	8	10	11	2	0	1	0	1	0	0	1	3	0	3	3	3	5	2	3	3	8	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:82578809A>G	uc003uhx.2	-	6	11384	c.11095T>C	c.(11095-11097)TAT>CAT	p.Y3699H	PCLO_uc003uhv.2_Missense_Mutation_p.Y3699H|PCLO_uc010lec.2_Missense_Mutation_p.Y664H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3630					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CCCTCGGTATACTGAAAAGGA	0.473													21	192					0	0	1	0	0		G	82578809	G	G	82578809	3	3	214	1	0	0	0	0	1	0	0	0	11602	391	14	3	4430	3	PCLO	7	82578809	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	188853	82578809	76559854	354	106772											
SAMD9	54809	broad.mit.edu	37	chr7	92732286	92732286	+	Missense_Mutation	SNP	T	C	C	0	1	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	ttcctgtttcaccttcatgtTcatcgcggtgtcttgtgagt	4	18	9	10	2	4	1	3	1	1	0	6	1	5	1	2	1	0	2	2	1	0	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:92732286T>C	uc003umf.2	-	3	3381	c.3125A>G	c.(3124-3126)GAA>GGA	p.E1042G	SAMD9_uc003umg.2_Missense_Mutation_p.E1042G	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	1042						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			ACCTTCATGTTCATCGCGGTG	0.368													12	46					0	0	1	0	0		C	92732286	C	C	92732286	3	2	214	1	0	0	0	0	1	0	0	0	13851	1783	62	3	1648	3	SAMD9	7	92732286	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	10153477	92732286	66406377	355	106773											
SAMD9L	219285	broad.mit.edu	37	chr7	92764562	92764562	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tctccatggggtttgtccttGactccaaaatggatggtgcc	7	13	11	10	0	1	1	0	1	1	0	4	2	3	2	4	4	1	1	4	4	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:92764562G>A	uc003umh.1	-	5	1939	c.723C>T	c.(721-723)GTC>GTT	p.V241V	SAMD9L_uc003umj.1_Silent_p.V241V|SAMD9L_uc003umi.1_Silent_p.V241V|SAMD9L_uc010lfb.1_Silent_p.V241V|SAMD9L_uc003umk.1_Silent_p.V241V|SAMD9L_uc010lfc.1_Silent_p.V241V|SAMD9L_uc010lfd.1_Silent_p.V241V|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	241										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			GTTTGTCCTTGACTCCAAAAT	0.403													13	76					0	0	1	0	0		A	92764562	A	A	92764562	2	1	214	1	0	0	0	0	0	0	0	1	13852	1277	45	4		4	SAMD9L	7	92764562	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	32276	92764562	66374101	356	106774											
CCDC132	55610	broad.mit.edu	37	chr7	92970845	92970845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttttgacatctggggataCgctgtatgggttggcagaaa	9	12	15	5	1	1	2	0	1	1	1	1	3	1	3	0	5	1	5	0	5	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:92970845C>T	uc003umo.2	+	23	2293	c.2165C>T	c.(2164-2166)ACG>ATG	p.T722M	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.T692M|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.T442M	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	722											0	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)			TCTGGGGATACGCTGTATGGG	0.438													12	56					0	0	1	0	0		T	92970845	T	T	92970845	3	4	214	1	0	0	0	0	1	0	0	0	2770	536	19	1	2297	1	CCDC132	7	92970845	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	206283	92970845	66167818	357	106775											
CALCR	799	broad.mit.edu	37	chr7	93072923	93072923	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaatacataccccagccCaagagataataccaccgcaa	19	4	5	13	1	0	2	0	0	0	2	0	3	0	2	5	0	4	1	5	0	8	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:93072923C>A	uc003umv.1	-	10	1158	c.897G>T	c.(895-897)TTG>TTT	p.L299F	CALCR_uc011kia.1_Missense_Mutation_p.L79F|CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Missense_Mutation_p.L265F|CALCR_uc003umw.2_Missense_Mutation_p.L265F	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	281	Helical; Name=4; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9	all_cancers(62;3.18e-12)|all_epithelial(64;1.34e-11)|Breast(17;0.000675)|Lung NSC(181;0.207)		STAD - Stomach adenocarcinoma(171;0.000244)		Salmon Calcitonin(DB00017)	TACCCCAGCCCAAGAGATAAT	0.438													4	61					0.184627	0.184627	1	1	0		A	93072923	A	A	93072923	3	1	214	1	0	0	0	0	1	0	0	0	2582	593	21	5	653	5	CALCR	7	93072923	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	102078	93072923	66065740	358	106776											
PPP1R9A	55607	broad.mit.edu	37	chr7	94791244	94791244	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtgggtgtgacacagaattTtgcagcaacagttctcagaa	12	10	12	7	0	1	3	1	1	1	2	2	3	1	3	0	2	3	3	0	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:94791244T>G	uc003unp.2	+	5	1997	c.1715T>G	c.(1714-1716)TTT>TGT	p.F572C	PPP1R9A_uc010lfj.2_Missense_Mutation_p.F572C|PPP1R9A_uc011kif.1_Missense_Mutation_p.F572C|PPP1R9A_uc003unq.2_Missense_Mutation_p.F572C|PPP1R9A_uc011kig.1_Missense_Mutation_p.F572C	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	protein phosphatase 1, regulatory (inhibitor)	572	PDZ.					cell junction|synapse|synaptosome	actin binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4	all_cancers(62;9.12e-11)|all_epithelial(64;4.34e-09)		STAD - Stomach adenocarcinoma(171;0.0031)			ACACAGAATTTTGCAGCAACA	0.363										HNSCC(28;0.073)			6	37					0	0	1	0	0		G	94791244	G	G	94791244	3	3	214	1	0	0	0	0	1	0	0	0	12400	1841	64	5	1729	5	PPP1R9A	7	94791244	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1718321	94791244	64347419	359	106777											
MBLAC1	255374	broad.mit.edu	37	chr7	99725164	99725164	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ctccgtgaccctggtcctacCccagacccggggcccggcct	4	6	11	20	3	0	2	0	1	0	1	2	2	2	2	8	4	1	0	8	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:99725164C>T	uc003utp.2	+	2	545	c.146C>T	c.(145-147)CCC>CTC	p.P49L		NM_203397	NP_981942	A4D2B0	MBLC1_HUMAN	metallo-beta-lactamase domain containing 1	49							hydrolase activity|metal ion binding			breast(1)	1						CTGGTCCTACCCCAGACCCGG	0.751													3	12					0	0	1	0	0		T	99725164	T	T	99725164	3	4	214	1	0	0	0	0	1	0	0	0	9369	623	22	4	148	4	MBLAC1	7	99725164	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4933920	99725164	59413499	360	106778											
GPC2	221914	broad.mit.edu	37	chr7	99771477	99771477	+	Silent	SNP	A	G	G	1	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	cccagatagttgccccagtcAggctccagtcccctgctgct	6	9	9	17	0	1	1	1	0	0	1	3	1	3	1	6	1	3	4	6	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:99771477A>G	uc003utv.2	-	5	1041	c.873T>C	c.(871-873)CCT>CCC	p.P291P	GPC2_uc010lgr.2_Intron|GPC2_uc003utw.1_3'UTR	NM_152742	NP_689955	Q8N158	GPC2_HUMAN	glypican 2 precursor	291						anchored to membrane|endoplasmic reticulum|extracellular space|plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)|pancreas(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGCCCCAGTCAGGCTCCAGTC	0.453													17	294					0	0	1	0	0		G	99771477	G	G	99771477	2	3	214	1	0	0	0	0	0	0	0	1	6613	175	7	3		3	GPC2	7	99771477	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	46313	99771477	59367186	361	106779											
SPDYE6	729597	broad.mit.edu	37	chr7	101988938	101988938	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aacggtataactggaaccgaCgcttacggagcaagggtatg	13	7	13	8	4	0	0	0	0	0	0	0	3	0	2	1	4	5	4	1	4	7	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:101988938C>T	uc011kkp.1	-	6	1356	c.935G>A	c.(934-936)CGT>CAT	p.R312H	SPDYE6_uc003uzb.2_Missense_Mutation_p.R168H	NM_001146210	NP_001139682	P0CI01	SPDE6_HUMAN	speedy homolog E6	312	Arg-rich.										0						CTGGAACCGACGCTTACGGAG	0.567													17	550					0	0	1	0	0		T	101988938	T	T	101988938	3	4	214	1	0	0	0	0	1	0	0	0	15058	536	19	1	281	1	SPDYE6	7	101988938	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2217461	101988938	57149725	362	106780											
DLD	1738	broad.mit.edu	37	chr7	107545454	107545454	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatggagcagaagagtactgCagtaaaagctttaacaggtg	15	8	13	5	0	0	2	0	0	0	2	0	4	0	3	0	2	5	5	0	2	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:107545454C>A	uc003vet.2	+	6	499	c.389C>A	c.(388-390)GCA>GAA	p.A130E	DLD_uc010ljm.1_RNA|DLD_uc011kmg.1_Missense_Mutation_p.A130E|DLD_uc011kmh.1_Missense_Mutation_p.A107E|DLD_uc011kmi.1_Missense_Mutation_p.A31E	NM_000108	NP_000099	P09622	DLDH_HUMAN	dihydrolipoamide dehydrogenase precursor	130					branched chain family amino acid catabolic process|cell redox homeostasis|lysine catabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate|tricarboxylic acid cycle	mitochondrial matrix	dihydrolipoyl dehydrogenase activity			central_nervous_system(1)	1					NADH(DB00157)	AAGAGTACTGCAGTAAAAGCT	0.328													6	39					4.096e-09	4.49408e-09	1	1	0		A	107545454	A	A	107545454	3	1	214	1	0	0	0	0	1	0	0	0	4557	710	25	5	411	5	DLD	7	107545454	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	5556516	107545454	51593209	363	106781											
NRCAM	4897	broad.mit.edu	37	chr7	107832191	107832191	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accaacaacgctaagcacagCgctggcggagacgctgtcca	12	4	11	14	4	0	1	0	0	0	1	1	2	1	1	2	2	4	4	2	2	3	1	rs139663718	by1000genomes	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:107832191C>T	uc003vfb.2	-	18	2356	c.1885G>A	c.(1885-1887)GCT>ACT	p.A629T	NRCAM_uc003vfc.2_Missense_Mutation_p.A623T|NRCAM_uc011kmk.1_Missense_Mutation_p.A624T|NRCAM_uc003vfd.2_Missense_Mutation_p.A605T|NRCAM_uc003vfe.2_Missense_Mutation_p.A605T	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	629	Ig-like 6.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CTAAGCACAGCGCTGGCGGAG	0.433													7	47					0	0	1	0	0		T	107832191	T	T	107832191	3	4	214	1	0	0	0	0	1	0	0	0	10663	768	27	1	2123	1	NRCAM	7	107832191	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	286737	107832191	51306472	364	106782											
TMEM209	84928	broad.mit.edu	37	chr7	129832581	129832581	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agacggtaggtgaagaacggTagcgagatctcaatccactg	13	7	13	8	3	1	4	1	1	1	3	3	5	2	4	1	3	2	2	1	3	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:129832581T>C	uc003vpn.2	-	6	779	c.656A>G	c.(655-657)TAC>TGC	p.Y219C	TMEM209_uc010lmc.1_Missense_Mutation_p.Y219C	NM_032842	NP_116231	Q96SK2	TM209_HUMAN	transmembrane protein 209	219	Ser-rich.					integral to membrane				ovary(2)|large_intestine(1)	3	Melanoma(18;0.0435)					TGAAGAACGGTAGCGAGATCT	0.463													4	54					0	0	1	0	0		C	129832581	C	C	129832581	3	2	214	1	0	0	0	0	1	0	0	0	16159	1638	57	3	1069	3	TMEM209	7	129832581	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	22000390	129832581	29306082	365	106783											
EXOC4	60412	broad.mit.edu	37	chr7	133622681	133622681	+	Missense_Mutation	SNP	A	G	G	1	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	agtctgaagttcttattgggAacctgggtgataaattaatc	12	14	10	5	0	2	2	0	2	2	0	3	3	2	3	1	2	1	1	1	2	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:133622681A>G	uc003vrk.2	+	14	2100	c.2065A>G	c.(2065-2067)AAC>GAC	p.N689D	EXOC4_uc011kpo.1_Missense_Mutation_p.N588D|EXOC4_uc003vrl.2_Missense_Mutation_p.N299D|EXOC4_uc011kpp.1_Missense_Mutation_p.N221D|EXOC4_uc011kpq.1_5'UTR	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	SEC8 protein isoform a	689					vesicle docking involved in exocytosis	exocyst	protein N-terminus binding			ovary(4)|large_intestine(3)|upper_aerodigestive_tract(1)|skin(1)	9		Esophageal squamous(399;0.129)				TCTTATTGGGAACCTGGGTGA	0.463													21	139					0	0	1	0	0		G	133622681	G	G	133622681	3	3	214	1	0	0	0	0	1	0	0	0	5314	246	9	3	2128	3	EXOC4	7	133622681	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3790100	133622681	25515982	366	106784											
UBN2	254048	broad.mit.edu	37	chr7	138968847	138968847	+	Missense_Mutation	SNP	T	A	A	0	1	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	cctcacccaagccctctctgTcagctaagccttcagtatca	9	10	5	17	0	5	0	4	0	1	0	6	0	5	0	4	0	3	2	4	0	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:138968847T>A	uc011kqr.1	+	15	3196	c.3196T>A	c.(3196-3198)TCA>ACA	p.S1066T		NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	1066	Ser-rich.									ovary(1)|skin(1)	2						GCCCTCTCTGTCAGCTAAGCC	0.517													7	110					0	0	1	0	0		A	138968847	A	A	138968847	3	1	214	1	0	0	0	0	1	0	0	0	16919	1667	58	5	3254	5	UBN2	7	138968847	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5346166	138968847	20169816	367	106785											
ZNF398	57541	broad.mit.edu	37	chr7	148863337	148863337	+	Missense_Mutation	SNP	A	G	G	1	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	ggcaaaaggaactttacaagAatatcatgaagggcaactac	18	7	9	7	0	1	2	1	1	0	1	1	3	1	3	0	3	4	2	0	3	10	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:148863337A>G	uc003wfl.2	+	3	783	c.508A>G	c.(508-510)AAT>GAT	p.N170D	ZNF398_uc011kul.1_5'UTR|ZNF398_uc011kum.1_Missense_Mutation_p.N175D	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	170	KRAB.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			ACTTTACAAGAATATCATGAA	0.433													6	66					0	0	1	0	0		G	148863337	G	G	148863337	3	3	214	1	0	0	0	0	1	0	0	0	17910	246	9	3	518	3	ZNF398	7	148863337	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	9894490	148863337	10275326	368	106786											
ACCN3	9311	broad.mit.edu	37	chr7	150746007	150746007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggcccagaggaggcccggcGgccagcctcggacatccgcg	7	2	16	16	5	0	1	0	0	0	1	2	3	1	3	5	6	1	0	5	6	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:150746007G>A	uc003win.2	+	1	403	c.35G>A	c.(34-36)CGG>CAG	p.R12Q	ACCN3_uc003wio.2_Missense_Mutation_p.R12Q|ACCN3_uc003wip.2_Missense_Mutation_p.R12Q|ACCN3_uc003wiq.2_RNA	NM_004769	NP_004760	Q9UHC3	ACCN3_HUMAN	amiloride-sensitive cation channel 3 isoform a	12	Cytoplasmic (Potential).				sensory perception|signal transduction	cytoplasm|integral to plasma membrane	ligand-gated sodium channel activity			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAGGCCCGGCGGCCAGCCTCG	0.677													10	65					0	0	1	0	0		A	150746007	A	A	150746007	3	1	214	1	0	0	0	0	1	0	0	0	130	1116	39	1	37	1	ACCN3	7	150746007	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1882670	150746007	8392656	369	106787											
PTPRN2	5799	broad.mit.edu	37	chr7	157985105	157985105	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagggcctccaggaagggcaGgtggcgtcggagggcgttgg	6	5	21	9	3	0	0	0	0	0	0	2	2	1	2	2	8	0	2	2	8	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr7:157985105G>T	uc003wno.2	-	5	584	c.463C>A	c.(463-465)CTG>ATG	p.L155M	PTPRN2_uc003wnp.2_Missense_Mutation_p.L138M|PTPRN2_uc003wnq.2_Missense_Mutation_p.L155M|PTPRN2_uc003wnr.2_Missense_Mutation_p.L117M|PTPRN2_uc011kwa.1_Missense_Mutation_p.L178M	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	155	Extracellular (Potential).					integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|large_intestine(1)|pleura(1)|skin(1)	7	all_neural(206;0.181)	all_cancers(7;8.99e-13)|all_epithelial(9;2.4e-06)|all_hematologic(28;0.0155)|Breast(660;0.132)	OV - Ovarian serous cystadenocarcinoma(82;0.00463)	STAD - Stomach adenocarcinoma(7;0.0875)		AGGAAGGGCAGGTGGCGTCGG	0.652													15	60					3.57192e-18	4.03251e-18	1	1	0		T	157985105	T	T	157985105	3	4	214	1	0	0	0	0	1	0	0	0	12833	991	35	5	2660	5	PTPRN2	7	157985105	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	7239098	157985105	1153558	370	106788											
MYOM2	9172	broad.mit.edu	37	chr8	2033439	2033439	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccaccggtgtgcacgcttccGagatcagcagaaactatgtc	10	8	10	13	3	1	2	1	0	0	2	3	3	2	2	3	1	3	3	3	1	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:2033439G>A	uc003wpx.3	+	14	1699	c.1561G>A	c.(1561-1563)GAG>AAG	p.E521K	MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	521	Fibronectin type-III 2.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		GCACGCTTCCGAGATCAGCAG	0.592													8	64					0	0	1	0	0		A	2033439	A	A	2033439	3	1	214	1	0	0	0	0	1	0	0	0	10110	1059	37	1	1611	1	MYOM2	8	2033439	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08		2033439	144330583	371	106789											
SOX7	83595	broad.mit.edu	37	chr8	10583650	10583650	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agggccagggagcccaggggGtggctacagtggagagggct	8	4	21	8	0	0	1	0	0	0	1	0	3	0	2	2	7	2	2	2	7	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:10583650G>T	uc003wtf.2	-	2	844	c.765C>A	c.(763-765)CAC>CAA	p.H255Q	SOX7_uc011kwz.1_Missense_Mutation_p.H307Q	NM_031439	NP_113627	Q9BT81	SOX7_HUMAN	SRY-box 7	255					endoderm formation|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|positive regulation of caspase activity|regulation of canonical Wnt receptor signaling pathway	cytoplasm|nucleus	transcription regulatory region DNA binding			breast(1)	1				COAD - Colon adenocarcinoma(149;0.0732)		AGCCCAGGGGGTGGCTACAGT	0.697													6	32					3.59834e-05	3.81628e-05	1	1	0		T	10583650	T	T	10583650	3	4	214	1	0	0	0	0	1	0	0	0	14981	1252	44	5	405	5	SOX7	8	10583650	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	8550211	10583650	135780372	372	106790											
PSD3	23362	broad.mit.edu	37	chr8	18662245	18662245	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgttttgcaacatctgatcTtttgaatctgtccagctgat	8	17	8	8	0	3	3	0	3	3	0	4	3	4	3	1	0	3	3	1	0	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:18662245T>G	uc003wza.2	-	5	1901	c.1798A>C	c.(1798-1800)AGA>CGA	p.R600R	PSD3_uc003wyy.2_Silent_p.R66R|PSD3_uc003wyz.2_5'UTR	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	ADP-ribosylation factor guanine nucleotide	600	SEC7.				regulation of ARF protein signal transduction	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane	ARF guanyl-nucleotide exchange factor activity			ovary(3)	3				Colorectal(111;0.0281)|READ - Rectum adenocarcinoma(644;0.183)		ACATCTGATCTTTTGAATCTG	0.433													26	159					0	0	1	0	0		G	18662245	G	G	18662245	2	3	214	1	0	0	0	0	0	0	0	1	12670	1617	56	5		5	PSD3	8	18662245	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	8078595	18662245	127701777	373	106791											
GFRA2	2675	broad.mit.edu	37	chr8	21560366	21560366	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggtccccaagctggtactgTcactgaggtcatctggcaaa	9	10	11	11	0	3	1	2	1	1	0	4	1	4	1	2	4	2	3	2	4	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:21560366T>C	uc003wzu.1	-	7	1844	c.1169A>G	c.(1168-1170)GAC>GGC	p.D390G	GFRA2_uc003wzv.1_Missense_Mutation_p.D285G|GFRA2_uc003wzw.1_Missense_Mutation_p.D257G	NM_001495	NP_001486	O00451	GFRA2_HUMAN	GDNF family receptor alpha 2 isoform a	390						anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		GCTGGTACTGTCACTGAGGTC	0.632													7	34					0	0	1	0	0		C	21560366	C	C	21560366	3	2	214	1	0	0	0	0	1	0	0	0	6363	1667	58	3	237	3	GFRA2	8	21560366	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2898121	21560366	124803656	374	106792											
EPB49	2039	broad.mit.edu	37	chr8	21925174	21925174	+	Missense_Mutation	SNP	A	G	G	1	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	ttccctcctggaacacgtggAgctgcctcgcagccgcgagg	6	7	13	15	4	0	0	0	0	0	0	3	3	2	2	4	3	4	2	4	3	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:21925174A>G	uc011kyt.1	+	4	459	c.230A>G	c.(229-231)GAG>GGG	p.E77G	EPB49_uc010ltl.2_Missense_Mutation_p.E77G|EPB49_uc011kys.1_Missense_Mutation_p.E52G|EPB49_uc010ltn.2_Missense_Mutation_p.E52G|EPB49_uc011kyu.1_Missense_Mutation_p.E77G|EPB49_uc011kyv.1_Missense_Mutation_p.E77G|EPB49_uc010ltq.2_Missense_Mutation_p.E77G	NM_001114136	NP_001107608	Q08495	DEMA_HUMAN	erythrocyte membrane protein band 4.9 isoform 1	77					actin filament bundle assembly|actin filament capping	actin cytoskeleton|nucleus	actin binding			central_nervous_system(1)	1				Colorectal(74;9.05e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0631)		GAACACGTGGAGCTGCCTCGC	0.662													4	72					0	0	1	0	0		G	21925174	G	G	21925174	3	3	214	1	0	0	0	0	1	0	0	0	5167	304	11	3	240	3	EPB49	8	21925174	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	364808	21925174	124438848	375	106793											
NUDT18	79873	broad.mit.edu	37	chr8	21965115	21965115	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgccacccctctgctccataGggtcgaggccacaggcagtg	7	7	12	15	1	1	0	0	0	1	0	3	1	2	0	5	3	2	2	5	3	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:21965115G>T	uc003xaq.1	-	6	787	c.668C>A	c.(667-669)CCT>CAT	p.P223H	NUDT18_uc003xar.1_3'UTR	NM_024815	NP_079091	Q6ZVK8	NUD18_HUMAN	nudix (nucleoside diphosphate linked moiety	223							hydrolase activity|metal ion binding|protein binding				0				Colorectal(74;0.00185)|COAD - Colon adenocarcinoma(73;0.0608)|READ - Rectum adenocarcinoma(5;0.0986)		CTGCTCCATAGGGTCGAGGCC	0.617													6	86					2.7689e-08	3.01486e-08	1	1	0		T	21965115	T	T	21965115	3	4	214	1	0	0	0	0	1	0	0	0	10754	1000	35	5	307	5	NUDT18	8	21965115	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	39941	21965115	124398907	376	106794											
DCTN6	10671	broad.mit.edu	37	chr8	30040606	30040606	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttagccccagacactacagCtggatttcttgatgaaaatc	12	12	7	10	0	1	3	0	2	1	1	2	4	1	4	2	1	3	1	2	1	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:30040606C>A	uc003xhy.2	+	7	577	c.490C>A	c.(490-492)CTG>ATG	p.L164M		NM_006571	NP_006562	O00399	DCTN6_HUMAN	dynactin 6	164						centrosome	transferase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.099)|Kidney(114;0.119)		GACACTACAGCTGGATTTCTT	0.353													7	77					5.4927e-09	6.01115e-09	1	1	0		A	30040606	A	A	30040606	3	1	214	1	0	0	0	0	1	0	0	0	4314	796	28	5	516	5	DCTN6	8	30040606	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8075491	30040606	116323416	377	106795											
TEX15	56154	broad.mit.edu	37	chr8	30695503	30695503	+	Nonsense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttcaaccttttttggcgttAaatgatttcttttcagactg	8	20	6	7	1	3	2	2	1	1	1	3	2	3	2	1	1	1	1	1	1	3	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:30695503A>C	uc003xil.2	-	3	7148	c.7148T>G	c.(7147-7149)TTA>TGA	p.L2383*		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2383										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTTTGGCGTTAAATGATTTCT	0.378													19	140					0	0	1	0	0		C	30695503	C	C	30695503	4	2	214	1	0	0	0	0	0	1	0	0	15804	372	13	5	1229	5	TEX15	8	30695503	Nonsense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	654897	30695503	115668519	378	106796											
MYST3	7994	broad.mit.edu	37	chr8	41801380	41801380	+	Missense_Mutation	SNP	T	G	G	0	1	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	tgatctgcttgtcattttggTgataaaggcactccaatatt	10	16	8	7	0	2	2	1	2	1	0	3	2	3	2	1	2	1	2	1	2	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:41801380T>G	uc010lxb.2	-	14	2658	c.2114A>C	c.(2113-2115)CAC>CCC	p.H705P	MYST3_uc010lxc.2_Missense_Mutation_p.H705P|MYST3_uc003xon.3_Missense_Mutation_p.H705P|MYST3_uc010lxd.2_Missense_Mutation_p.H705P	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	705	Mediates interaction with BRPF1, required for histone H3 acetyltransferase activity.|Catalytic.				histone H3 acetylation|myeloid cell differentiation|negative regulation of transcription, DNA-dependent|nucleosome assembly|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	MOZ/MORF histone acetyltransferase complex|nucleosome	DNA binding|histone acetyltransferase activity|transcription coactivator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7	all_epithelial(6;1.12e-27)|all_lung(13;3.94e-12)|Lung NSC(13;6.54e-11)|Ovarian(28;0.00744)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000294)|Lung NSC(58;0.00105)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	Epithelial(1;2.82e-19)|all cancers(1;1.15e-16)|BRCA - Breast invasive adenocarcinoma(8;9.17e-11)|OV - Ovarian serous cystadenocarcinoma(14;9.4e-05)|Colorectal(10;0.000728)|Lung(22;0.00153)|LUSC - Lung squamous cell carcinoma(45;0.00741)|COAD - Colon adenocarcinoma(11;0.0171)			GTCATTTTGGTGATAAAGGCA	0.458													10	88					0	0	1	0	0		G	41801380	G	G	41801380	3	3	214	1	0	0	0	0	1	0	0	0	10122	1696	59	5	3920	5	MYST3	8	41801380	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	11105877	41801380	104562642	379	106797											
UBE2V2	7336	broad.mit.edu	37	chr8	48962467	48962467	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tagaatgtggacctaaatacCcagaagctcctccgtcagtt	12	10	8	11	1	1	2	1	0	0	2	3	3	3	3	4	1	2	2	4	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:48962467C>A	uc003xqm.2	+	3	241	c.220C>A	c.(220-222)CCA>ACA	p.P74T		NM_003350	NP_003341	Q15819	UB2V2_HUMAN	ubiquitin-conjugating enzyme E2v2	74					cell proliferation|DNA double-strand break processing|protein polyubiquitination|regulation of DNA repair	cytoplasm|nucleus|UBC13-MMS2 complex	acid-amino acid ligase activity|protein binding				0		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00171)|all_lung(136;0.00196)				ACCTAAATACCCAGAAGCTCC	0.299								Direct_reversal_of_damage|Rad6_pathway					4	73					4.096e-09	4.49408e-09	1	1	0		A	48962467	A	A	48962467	3	1	214	1	0	0	0	0	1	0	0	0	16902	623	22	5	230	5	UBE2V2	8	48962467	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7161087	48962467	97401555	380	106798											
RP1	6101	broad.mit.edu	37	chr8	55537275	55537275	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggtcccagatttattctgTttcttctgagaaaacacata	13	14	6	8	0	3	2	0	1	3	2	4	3	4	2	1	1	1	1	1	1	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:55537275T>C	uc003xsd.1	+	4	981	c.833T>C	c.(832-834)GTT>GCT	p.V278A	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	278					axoneme assembly|intracellular signal transduction|photoreceptor cell maintenance|photoreceptor cell outer segment organization|phototransduction, visible light|retinal cone cell development|retinal rod cell development	cilium axoneme|cytoplasm|microtubule|microtubule associated complex|photoreceptor connecting cilium|photoreceptor inner segment|photoreceptor outer segment	microtubule binding			skin(7)|ovary(4)|pancreas(1)	12		all_lung(136;0.0831)|Lung NSC(129;0.109)|all_epithelial(80;0.123)	OV - Ovarian serous cystadenocarcinoma(7;4.4e-07)|Epithelial(17;3.37e-05)|all cancers(17;0.000285)			ATTTATTCTGTTTCTTCTGAG	0.328													10	56					0	0	1	0	0		C	55537275	C	C	55537275	3	2	214	1	0	0	0	0	1	0	0	0	13557	1725	60	3	843	3	RP1	8	55537275	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	6574808	55537275	90826747	381	106799											
PDE7A	5150	broad.mit.edu	37	chr8	66659908	66659908	+	Silent	SNP	A	G	G	1	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	ttggcttgtccattataatcAtcatctaaaatgtttaggga	12	16	7	6	0	3	0	2	0	1	0	4	1	4	1	1	2	0	2	1	2	5	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:66659908A>G	uc003xvq.2	-	4	426	c.414T>C	c.(412-414)GAT>GAC	p.D138D	PDE7A_uc003xvr.2_Silent_p.D138D|PDE7A_uc003xvp.2_Silent_p.D112D	NM_002604	NP_002595	Q13946	PDE7A_HUMAN	phosphodiesterase 7A isoform b	138						cell fraction|cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding				0			Epithelial(68;0.0509)|BRCA - Breast invasive adenocarcinoma(89;0.111)|all cancers(69;0.168)|OV - Ovarian serous cystadenocarcinoma(28;0.238)		Dyphylline(DB00651)|Ketotifen(DB00920)	CATTATAATCATCATCTAAAA	0.333													10	41					0	0	1	0	0		G	66659908	G	G	66659908	2	3	214	1	0	0	0	0	0	0	0	1	11670	214	8	3		3	PDE7A	8	66659908	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	11122633	66659908	79704114	382	106800											
CSPP1	79848	broad.mit.edu	37	chr8	68092151	68092151	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcattattggaatctgatagTgcttttattggtgagtatat	10	19	9	3	0	2	2	1	2	1	0	2	3	2	3	0	2	1	2	0	2	6	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:68092151T>G	uc003xxi.2	+	28	3331	c.3300T>G	c.(3298-3300)AGT>AGG	p.S1100R	ARFGEF1_uc003xxl.1_Intron|CSPP1_uc003xxj.2_Missense_Mutation_p.S1065R|CSPP1_uc003xxk.2_Missense_Mutation_p.S720R|CSPP1_uc010lyw.2_Missense_Mutation_p.S160R	NM_001077204	NP_001070672	Q1MSJ5	CSPP1_HUMAN	centrosome spindle pole associated protein 1	1100						centrosome|microtubule|spindle				ovary(3)|breast(2)	5	Breast(64;0.214)	Lung NSC(129;0.0908)|all_lung(136;0.152)	Epithelial(68;0.00145)|OV - Ovarian serous cystadenocarcinoma(28;0.00589)|all cancers(69;0.0069)|BRCA - Breast invasive adenocarcinoma(89;0.153)			AATCTGATAGTGCTTTTATTG	0.284													19	39					0	0	1	0	0		G	68092151	G	G	68092151	3	3	214	1	0	0	0	0	1	0	0	0	3965	1693	59	5	3410	5	CSPP1	8	68092151	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1432243	68092151	78271871	383	106801											
PREX2	80243	broad.mit.edu	37	chr8	68931905	68931905	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggaacctgctttcttcactTtgtaggataaatttcttttt	8	19	7	7	0	3	0	1	0	2	0	3	2	3	2	1	2	2	2	1	2	4	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:68931905T>C	uc003xxv.1	+	3	362	c.335T>C	c.(334-336)TTT>TCT	p.F112S	PREX2_uc003xxu.1_Missense_Mutation_p.F112S|PREX2_uc011lez.1_Intron	NM_024870	NP_079146	Q70Z35	PREX2_HUMAN	DEP domain containing 2 isoform a	112	DH.				G-protein coupled receptor protein signaling pathway|intracellular signal transduction	intracellular	protein binding|Rac GTPase activator activity|Rac guanyl-nucleotide exchange factor activity			skin(6)|large_intestine(4)|pancreas(3)|lung(2)|ovary(1)|kidney(1)	17						TTTCTTCACTTTGTAGGATAA	0.353													6	49					0	0	1	0	0		C	68931905	C	C	68931905	3	2	214	1	0	0	0	0	1	0	0	0	12499	1855	64	3	345	3	PREX2	8	68931905	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	839754	68931905	77432117	384	106802											
LAPTM4B	55353	broad.mit.edu	37	chr8	98828297	98828297	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctgtttagcaacgcgcagcCtggatcatcccattcttctg	7	13	8	13	2	4	0	1	0	3	0	5	1	5	1	2	1	3	3	2	1	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:98828297C>A	uc003yia.2	+	4	726	c.570C>A	c.(568-570)GCC>GCA	p.A190A	LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4	243					transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			AACGCGCAGCCTGGATCATCC	0.328													13	197					9.05144e-12	1.01253e-11	1	1	0		A	98828297	A	A	98828297	2	1	214	1	0	0	0	0	0	0	0	1	8641	668	24	5		5	LAPTM4B	8	98828297	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	29896392	98828297	47535725	385	106803											
PKHD1L1	93035	broad.mit.edu	37	chr8	110523098	110523098	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctgaacaaatcttatgaaGtttacttcactggcaccagt	12	13	6	10	0	3	2	1	2	2	0	3	2	3	2	1	1	2	2	1	1	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:110523098G>A	uc003yne.2	+	71	11592	c.11488G>A	c.(11488-11490)GTT>ATT	p.V3830I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3830	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			ATCTTATGAAGTTTACTTCAC	0.443										HNSCC(38;0.096)			26	145					0	0	1	0	0		A	110523098	A	A	110523098	3	1	214	1	0	0	0	0	1	0	0	0	11991	1029	36	4	11770	4	PKHD1L1	8	110523098	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	11694801	110523098	35840924	386	106804											
CSMD3	114788	broad.mit.edu	37	chr8	113303840	113303840	+	Missense_Mutation	SNP	A	G	G	1	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	gattgcagtcatagaataccAcagtgccgtaagtaaaattt	15	11	8	7	1	1	1	1	0	0	1	1	2	1	1	2	0	3	3	2	0	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:113303840A>G	uc003ynu.2	-	56	9032	c.8873T>C	c.(8872-8874)GTG>GCG	p.V2958A	CSMD3_uc003yns.2_Missense_Mutation_p.V2160A|CSMD3_uc003ynt.2_Missense_Mutation_p.V2918A|CSMD3_uc011lhx.1_Missense_Mutation_p.V2789A	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2958	Extracellular (Potential).|Sushi 20.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						ATAGAATACCACAGTGCCGTA	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			5	100					0	0	1	0	0		G	113303840	G	G	113303840	3	3	214	1	0	0	0	0	1	0	0	0	3949	159	6	3	2314	3	CSMD3	8	113303840	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2780742	113303840	33060182	387	106805											
TG	7038	broad.mit.edu	37	chr8	133919106	133919106	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tatgtagcctggagagcggaCgctgggagtcacagctgcct	8	8	15	10	2	1	1	1	0	0	1	1	4	1	3	2	3	4	3	2	3	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:133919106C>T	uc003ytw.2	+	17	3849	c.3808C>T	c.(3808-3810)CGC>TGC	p.R1270C	TG_uc010mdw.2_Missense_Mutation_p.R29C	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1270					hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGAGAGCGGACGCTGGGAGTC	0.647													7	29					0	0	1	0	0		T	133919106	T	T	133919106	3	4	214	1	0	0	0	0	1	0	0	0	15838	536	19	1	3874	1	TG	8	133919106	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	20615266	133919106	12444916	388	106806											
TG	7038	broad.mit.edu	37	chr8	133945896	133945896	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctatgcttggacaagtgacaAtgttgcctgcatgacttctg	9	13	10	9	0	1	2	0	2	1	0	1	3	1	3	1	1	3	3	1	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:133945896A>G	uc003ytw.2	+	24	4948	c.4907A>G	c.(4906-4908)AAT>AGT	p.N1636S	TG_uc010mdw.2_Missense_Mutation_p.N395S|TG_uc011ljb.1_Missense_Mutation_p.N69S	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1636	Type IIIA.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		ACAAGTGACAATGTTGCCTGC	0.562													10	123					0	0	1	0	0		G	133945896	G	G	133945896	3	3	214	1	0	0	0	0	1	0	0	0	15838	101	4	3	5001	3	TG	8	133945896	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	26790	133945896	12418126	389	106807											
ZNF707	286075	broad.mit.edu	37	chr8	144776211	144776211	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccttcgagtgccccgagtgCggccagaccttccggtgggc	4	7	15	15	4	0	1	0	0	0	1	2	3	1	1	6	3	2	0	6	3	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:144776211C>T	uc003yze.3	+	7	942	c.627C>T	c.(625-627)TGC>TGT	p.C209C	ZNF707_uc010mfh.2_Silent_p.C209C|ZNF707_uc010mfi.2_Silent_p.C209C|ZNF707_uc003yzf.3_Silent_p.C209C|ZNF707_uc003yzh.3_Silent_p.C136C|ZNF707_uc011lkq.1_RNA	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	209	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCCCCGAGTGCGGCCAGACCT	0.677													3	19					0	0	1	0	0		T	144776211	T	T	144776211	2	4	214	1	0	0	0	0	0	0	0	1	18136	776	27	1		1	ZNF707	8	144776211	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	10830315	144776211	1587811	390	106808											
SPATC1	375686	broad.mit.edu	37	chr8	145095792	145095792	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcgcccagggtgccccccatCccccttcccgaatgcataat	7	8	7	19	2	0	0	0	0	0	0	3	1	2	0	7	1	2	1	7	1	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:145095792C>A	uc011lkw.1	+	3	1192	c.1090C>A	c.(1090-1092)CCC>ACC	p.P364T	SPATC1_uc011lkx.1_Missense_Mutation_p.P364T	NM_198572	NP_940974	Q76KD6	SPERI_HUMAN	spermatogenesis and centriole associated 1	364										ovary(1)|central_nervous_system(1)	2	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)			TGCCCCCCATCCCCCTTCCCG	0.512													9	40					7.48243e-07	8.04502e-07	1	1	0		A	145095792	A	A	145095792	3	1	214	1	0	0	0	0	1	0	0	0	15042	855	30	5	1100	5	SPATC1	8	145095792	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	319581	145095792	1268230	391	106809											
CPSF1	29894	broad.mit.edu	37	chr8	145623307	145623307	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccacggcgcactgcacgatGggggcgcccaggtccacggg	6	3	17	15	5	0	0	0	0	0	0	1	1	1	0	3	5	1	2	3	5	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr8:145623307G>T	uc003zcj.2	-	20	2010	c.1935C>A	c.(1933-1935)CCC>CCA	p.P645P		NM_013291	NP_037423	Q10570	CPSF1_HUMAN	cleavage and polyadenylation specific factor 1,	645					mRNA cleavage|mRNA export from nucleus|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	mRNA cleavage and polyadenylation specificity factor complex	mRNA 3'-UTR binding|protein binding			skin(1)	1	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;2.88e-41)|Epithelial(56;1.67e-40)|all cancers(56;1.2e-35)|BRCA - Breast invasive adenocarcinoma(115;0.0323)|Colorectal(110;0.055)			ACTGCACGATGGGGGCGCCCA	0.652													8	47					0.0381472	0.0385971	1	1	0		T	145623307	T	T	145623307	2	4	214	1	0	0	0	0	0	0	0	1	3827	1335	47	5		5	CPSF1	8	145623307	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	527515	145623307	740715	392	106810											
CBWD1	55871	broad.mit.edu	37	chr9	164038	164038	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacatagaagccactgcacCtgaaaatatataatattcat	19	10	4	8	0	1	2	1	1	0	1	1	2	1	2	2	0	3	1	2	0	9	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:164038C>G	uc003zga.3	-	5	537	c.431_splice	c.e5-1	p.G144_splice	CBWD1_uc010mgs.2_Splice_Site|CBWD1_uc003zgb.3_Splice_Site_p.G108_splice|CBWD1_uc003zgc.3_Splice_Site_p.G144_splice|CBWD1_uc011llr.1_Splice_Site_p.G108_splice	NM_018491	NP_060961	Q9BRT8	CBWD1_HUMAN	COBW domain containing 1 isoform 1								ATP binding|protein binding			ovary(1)	1	all_lung(41;0.218)	all_cancers(5;3.04e-16)|all_epithelial(5;4.68e-12)|all_lung(10;1.94e-10)|Lung NSC(10;3.61e-10)|Acute lymphoblastic leukemia(5;0.00439)|Breast(48;0.0148)|all_hematologic(5;0.024)|Prostate(43;0.122)	Kidney(42;0.112)|KIRC - Kidney renal clear cell carcinoma(5;0.157)	all cancers(5;0.000704)|Lung(218;0.00755)|GBM - Glioblastoma multiforme(5;0.0149)|Epithelial(6;0.0154)		GCCACTGCACCTGAAAATATA	0.269													6	189					0	0	1	0	0		G	164038	G	G	164038	5	3	214	1	0	0	0	0	0	0	1	0	2715	695	24	5	801	5	CBWD1	9	164038	Splice_Site	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08		164038	141049393	393	106811											
KANK1	23189	broad.mit.edu	37	chr9	732452	732452	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtcagatgacgagtgtgatgTcattgagtatcctcttgaag	10	13	12	6	1	3	5	2	4	1	1	4	6	4	5	1	0	0	1	1	0	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:732452T>G	uc003zgl.1	+	10	3729	c.3080T>G	c.(3079-3081)GTC>GGC	p.V1027G	KANK1_uc003zgm.2_3'UTR|KANK1_uc003zgn.1_Missense_Mutation_p.V1027G|KANK1_uc003zgs.1_Missense_Mutation_p.V869G|KANK1_uc010mgx.1_5'UTR|KANK1_uc010mgy.1_5'UTR|KANK1_uc003zgt.1_5'Flank	NM_015158	NP_055973	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1 isoform a	1027					negative regulation of actin filament polymerization	cytoplasm				ovary(2)|central_nervous_system(1)|pancreas(1)	4		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		GAGTGTGATGTCATTGAGTAT	0.458													6	132					0	0	1	0	0		G	732452	G	G	732452	3	3	214	1	0	0	0	0	1	0	0	0	7992	1667	58	5	3098	5	KANK1	9	732452	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	568414	732452	140480979	394	106812											
RFX3	5991	broad.mit.edu	37	chr9	3330369	3330369	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgagttgtcctcctgtgaCgcccatctgaatcccaccag	8	10	9	14	1	1	3	0	3	1	0	4	4	4	3	5	0	0	1	5	0	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:3330369C>T	uc003zhr.2	-	5	676	c.364G>A	c.(364-366)GTC>ATC	p.V122I	RFX3_uc010mhd.2_Missense_Mutation_p.V122I|RFX3_uc003zhs.1_Missense_Mutation_p.V122I|RFX3_uc003zht.1_Missense_Mutation_p.V122I|RFX3_uc010mhe.1_Missense_Mutation_p.V122I	NM_134428	NP_602304	P48380	RFX3_HUMAN	regulatory factor X3 isoform b	122					cell maturation|ciliary cell motility|cilium assembly|cilium movement involved in determination of left/right asymmetry|endocrine pancreas development|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|regulation of insulin secretion	nuclear chromatin	protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4				GBM - Glioblastoma multiforme(50;0.00124)|Lung(2;0.0337)		CCTCCTGTGACGCCCATCTGA	0.532													21	65					0	0	1	0	0		T	3330369	T	T	3330369	3	4	214	1	0	0	0	0	1	0	0	0	13289	536	19	1	2097	1	RFX3	9	3330369	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2597917	3330369	137883062	395	106813											
GLIS3	169792	broad.mit.edu	37	chr9	4117901	4117901	+	Missense_Mutation	SNP	A	G	G	1	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	cctcccctttgcgctggtcgAtgtggaccttctcgatgtgc	3	13	11	14	3	1	0	0	0	1	0	4	3	2	1	4	2	2	1	4	2	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:4117901A>G	uc003zhw.1	-	3	1306	c.1112T>C	c.(1111-1113)ATC>ACC	p.I371T	GLIS3_uc003zhx.1_Missense_Mutation_p.I526T|GLIS3_uc003zic.1_Missense_Mutation_p.I526T|GLIS3_uc003zie.1_Missense_Mutation_p.I526T|GLIS3_uc010mhh.1_Missense_Mutation_p.I401T|GLIS3_uc003zid.1_Missense_Mutation_p.I304T|GLIS3_uc010mhi.1_Missense_Mutation_p.I333T|GLIS3_uc003zif.1_Missense_Mutation_p.I304T|GLIS3_uc003zig.1_Missense_Mutation_p.I370T|GLIS3_uc003zih.1_Missense_Mutation_p.I304T|GLIS3_uc003zhy.1_Missense_Mutation_p.I304T|GLIS3_uc003zhz.1_Missense_Mutation_p.I304T|GLIS3_uc003zib.1_Missense_Mutation_p.I370T|GLIS3_uc010mhg.1_Missense_Mutation_p.I304T	NM_152629	NP_689842	Q8NEA6	GLIS3_HUMAN	GLIS family zinc finger 3 isoform b	371					negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		DNA binding|zinc ion binding			ovary(1)	1		Acute lymphoblastic leukemia(2;0.00464)|Breast(48;0.148)		Lung(2;0.00163)|GBM - Glioblastoma multiforme(50;0.00301)|LUSC - Lung squamous cell carcinoma(2;0.0148)		GCGCTGGTCGATGTGGACCTT	0.597													5	105					0	0	1	0	0		G	4117901	G	G	4117901	3	3	214	1	0	0	0	0	1	0	0	0	6462	333	12	3	1247	3	GLIS3	9	4117901	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	787532	4117901	137095530	396	106814											
C9orf46	55848	broad.mit.edu	37	chr9	5358278	5358278	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctactctgttcctttctggcTttttcaatgctttcaaaagt	7	19	5	10	0	4	0	2	0	2	0	5	0	5	0	1	1	2	3	1	1	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:5358278T>C	uc003zjc.2	-	6	609	c.405A>G	c.(403-405)AAA>AAG	p.K135K	C9orf46_uc003zjd.2_Silent_p.K135K	NM_018465	NP_060935	Q9HBL7	CI046_HUMAN	hypothetical protein LOC55848	135						integral to membrane				ovary(1)	1	all_hematologic(13;0.158)	Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.00106)|Lung(218;0.125)		CCTTTCTGGCTTTTTCAATGC	0.348													4	77					0	0	1	0	0		C	5358278	C	C	5358278	2	2	214	1	0	0	0	0	0	0	0	1	2487	1606	56	3		3	C9orf46	9	5358278	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1240377	5358278	135855153	397	106815											
PTPRD	5789	broad.mit.edu	37	chr9	8339045	8339045	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccagtattggtgacatttCtcctaaaaggagagaagatt	13	11	11	6	0	1	3	0	1	1	2	2	5	1	4	2	3	0	1	2	3	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:8339045C>A	uc003zkk.2	-	42	5967	c.5256G>T	c.(5254-5256)GAG>GAT	p.E1752D	PTPRD_uc003zkp.2_Missense_Mutation_p.E1346D|PTPRD_uc003zkq.2_Missense_Mutation_p.E1345D|PTPRD_uc003zkr.2_Missense_Mutation_p.E1336D|PTPRD_uc003zks.2_Missense_Mutation_p.E1345D|PTPRD_uc003zkl.2_Missense_Mutation_p.E1743D|PTPRD_uc003zkm.2_Missense_Mutation_p.E1739D|PTPRD_uc003zkn.2_Missense_Mutation_p.E1341D|PTPRD_uc003zko.2_Missense_Mutation_p.E1342D	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1752	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		GGTGACATTTCTCCTAAAAGG	0.338										TSP Lung(15;0.13)			8	33					0.00307968	0.00319512	1	1	0		A	8339045	A	A	8339045	3	1	214	1	0	0	0	0	1	0	0	0	12824	912	32	5	498	5	PTPRD	9	8339045	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2980767	8339045	132874386	398	106816											
PLAA	9373	broad.mit.edu	37	chr9	26910403	26910403	+	Silent	SNP	T	C	C	0	1	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	ttagggaaataaatattcatTgttttagatgcagctgatcg	13	15	9	4	1	1	2	1	1	0	1	2	3	1	3	0	1	2	3	0	1	6	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:26910403T>C	uc003zqd.2	-	12	2015	c.1590A>G	c.(1588-1590)ACA>ACG	p.T530T	PLAA_uc003zqe.2_Silent_p.T530T	NM_001031689	NP_001026859	Q9Y263	PLAP_HUMAN	phospholipase A2-activating protein	530					phospholipid metabolic process|signal transduction		phospholipase A2 activator activity				0		all_neural(3;3.53e-10)|Glioma(3;2.71e-09)		Lung(218;1.32e-05)|LUSC - Lung squamous cell carcinoma(38;0.00011)		AAATATTCATTGTTTTAGATG	0.303													11	55					0	0	1	0	0		C	26910403	C	C	26910403	2	2	214	1	0	0	0	0	0	0	0	1	12030	1799	63	3		3	PLAA	9	26910403	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	18571358	26910403	114303028	399	106817											
LINGO2	158038	broad.mit.edu	37	chr9	27948864	27948864	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggccttcaaatcattttcatGttgaacctcctgggtccagc	8	13	8	12	0	3	1	3	1	0	0	5	1	5	1	4	2	2	1	4	2	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:27948864G>T	uc003zqu.1	-	2	2000	c.1806C>A	c.(1804-1806)AAC>AAA	p.N602K	LINGO2_uc010mjf.1_Missense_Mutation_p.N602K|LINGO2_uc003zqv.1_Missense_Mutation_p.N602K	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2	602	Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		TCATTTTCATGTTGAACCTCC	0.443													18	95					6.94344e-10	7.66728e-10	1	1	0		T	27948864	T	T	27948864	3	4	214	1	0	0	0	0	1	0	0	0	8832	1368	48	5	18	5	LINGO2	9	27948864	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1038461	27948864	113264567	400	106818											
AQP7	364	broad.mit.edu	37	chr9	33386990	33386990	+	Missense_Mutation	SNP	A	C	C	1	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	agatgcggcctgccacgtgcActcccatggtgactccgaag	8	7	12	14	3	0	2	0	1	0	1	2	3	2	2	4	2	3	1	4	2	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:33386990A>C	uc003zst.2	-	4	417	c.245T>G	c.(244-246)GTG>GGG	p.V82G	SUGT1P1_uc010mjq.1_Intron|AQP7_uc003zsu.1_Missense_Mutation_p.V25G|AQP7_uc010mjs.2_Intron|AQP7_uc010mjt.2_Intron|AQP7_uc011lnx.1_Missense_Mutation_p.V82G|AQP7_uc011lny.1_Missense_Mutation_p.V81G|AQP7_uc003zss.3_Intron|AQP7_uc011lnz.1_Intron|AQP7_uc011loa.1_Intron	NM_001170	NP_001161	O14520	AQP7_HUMAN	aquaporin 7	82	Helical; (Potential).				excretion|generation of precursor metabolites and energy	cell-cell junction|cytoplasm|integral to plasma membrane	glycerol channel activity|water channel activity				0			LUSC - Lung squamous cell carcinoma(29;0.00788)	GBM - Glioblastoma multiforme(74;0.191)		TGCCACGTGCACTCCCATGGT	0.582													9	137					0	0	1	0	0		C	33386990	C	C	33386990	3	2	214	1	0	0	0	0	1	0	0	0	831	159	6	5	803	5	AQP7	9	33386990	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	5438126	33386990	107826441	401	106819											
RUSC2	9853	broad.mit.edu	37	chr9	35547010	35547010	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccatgggggacaacacgcagTcgggctggagtggtggaagg	9	5	19	8	2	0	0	0	0	0	0	1	3	0	3	1	7	1	2	1	7	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:35547010T>A	uc003zww.2	+	2	747	c.492T>A	c.(490-492)AGT>AGA	p.S164R	RUSC2_uc010mkq.2_RNA|RUSC2_uc003zwx.3_Missense_Mutation_p.S164R	NM_014806	NP_055621	Q8N2Y8	RUSC2_HUMAN	RUN and SH3 domain containing 2	164						cytosol				ovary(1)	1			Lung(28;0.000837)|LUSC - Lung squamous cell carcinoma(32;0.00109)|STAD - Stomach adenocarcinoma(86;0.194)			CAACACGCAGTCGGGCTGGAG	0.622													6	54					0	0	1	0	0		A	35547010	A	A	35547010	3	1	214	1	0	0	0	0	1	0	0	0	13776	1664	58	5	494	5	RUSC2	9	35547010	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2160020	35547010	105666421	402	106820											
OR13J1	392309	broad.mit.edu	37	chr9	35869594	35869594	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtgaagacctcatcagagaTgtgggcttccttactcttgg	8	13	11	9	0	3	3	2	1	1	2	4	4	4	3	2	2	1	1	2	2	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:35869594T>C	uc011lph.1	-	1	805	c.805A>G	c.(805-807)ATC>GTC	p.I269V		NM_001004487	NP_001004487	Q8NGT2	O13J1_HUMAN	olfactory receptor, family 13, subfamily J,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_epithelial(49;0.169)		LUSC - Lung squamous cell carcinoma(32;0.00343)|Lung(28;0.00494)|STAD - Stomach adenocarcinoma(86;0.194)			TCATCAGAGATGTGGGCTTCC	0.537													5	56					0	0	1	0	0		C	35869594	C	C	35869594	3	2	214	1	0	0	0	0	1	0	0	0	10963	1464	51	3	136	3	OR13J1	9	35869594	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	322584	35869594	105343837	403	106821											
FRMPD1	22844	broad.mit.edu	37	chr9	37746136	37746136	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggcccccctcacctcaccGccctctgcgggaagcccggt	5	6	10	20	3	3	0	2	0	1	0	3	1	3	1	7	3	2	0	7	3	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:37746136G>A	uc004aag.1	+	16	4151	c.4107G>A	c.(4105-4107)CCG>CCA	p.P1369P	FRMPD1_uc004aah.1_Silent_p.P1369P	NM_014907	NP_055722	Q5SYB0	FRPD1_HUMAN	FERM and PDZ domain containing 1	1369						cytoskeleton|cytosol|plasma membrane				ovary(4)|central_nervous_system(2)|skin(2)|breast(1)	9				GBM - Glioblastoma multiforme(29;0.00655)		TCACCTCACCGCCCTCTGCGG	0.647													8	149					0	0	1	0	0		A	37746136	A	A	37746136	2	1	214	1	0	0	0	0	0	0	0	1	6071	1074	38	1		1	FRMPD1	9	37746136	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1876542	37746136	103467295	404	106822											
CNTNAP3	79937	broad.mit.edu	37	chr9	39103747	39103747	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agtggcgagcttaccacgcaGctcaatcctgatgaaatctg	11	9	10	11	2	2	2	1	2	1	0	3	3	3	2	2	1	3	3	2	1	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:39103747G>T	uc004abi.2	-	16	2769	c.2530C>A	c.(2530-2532)CTG>ATG	p.L844M	CNTNAP3_uc004abj.2_Missense_Mutation_p.L843M|CNTNAP3_uc011lqr.1_RNA|CNTNAP3_uc004abk.1_Missense_Mutation_p.L844M	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor	844	Extracellular (Potential).|Laminin G-like 3.				cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TTACCACGCAGCTCAATCCTG	0.428													7	39					0.000157383	0.000165484	1	1	0		T	39103747	T	T	39103747	3	4	214	1	0	0	0	0	1	0	0	0	3651	962	34	5	1372	5	CNTNAP3	9	39103747	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1357611	39103747	102109684	405	106823											
PRKACG	5568	broad.mit.edu	37	chr9	71628021	71628021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gagctcttcctcctcgtagtCgtcaaagttactggcatccc	7	12	8	14	2	2	0	1	0	1	0	7	1	5	0	3	1	2	4	3	1	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:71628021C>T	uc004agy.2	-	1	1019	c.988G>A	c.(988-990)GAC>AAC	p.D330N		NM_002732	NP_002723	P22612	KAPCG_HUMAN	protein kinase, cAMP-dependent, catalytic,	330	AGC-kinase C-terminal.				activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|gluconeogenesis|intracellular protein kinase cascade|male gonad development|nerve growth factor receptor signaling pathway|regulation of insulin secretion|spermatogenesis|transmembrane transport|triglyceride catabolic process|water transport	cytosol|nucleoplasm	ATP binding|cAMP-dependent protein kinase activity			ovary(1)|pancreas(1)|skin(1)	3						TCCTCGTAGTCGTCAAAGTTA	0.527													9	86					0	0	1	0	0		T	71628021	T	T	71628021	3	4	214	1	0	0	0	0	1	0	0	0	12521	884	31	1	71	1	PRKACG	9	71628021	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	32524274	71628021	69585410	406	106824											
C9orf95	54981	broad.mit.edu	37	chr9	77684723	77684723	+	Silent	SNP	A	G	G	1	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	cttctattccatatagtgtcAaggggcctaaaataacagca	14	11	7	9	0	2	0	1	0	1	0	3	0	3	0	2	2	2	1	2	2	7	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:77684723A>G	uc004aju.2	-	6	922	c.324T>C	c.(322-324)CTT>CTC	p.L108L	C9orf95_uc004ajs.3_Silent_p.L112L|C9orf95_uc004ajr.3_Silent_p.L108L|C9orf95_uc004ajt.3_Intron	NM_017881	NP_060351	Q9NWW6	NRK1_HUMAN	nicotinamide riboside kinase 1 isoform 1	108					pyridine nucleotide biosynthetic process		ATP binding|metal ion binding|ribosylnicotinamide kinase activity				0						ATATAGTGTCAAGGGGCCTAA	0.363													13	49					0	0	1	0	0		G	77684723	G	G	77684723	2	3	214	1	0	0	0	0	0	0	0	1	2510	117	5	3		3	C9orf95	9	77684723	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	6056702	77684723	63528708	407	106825											
FLJ46321	389763	broad.mit.edu	37	chr9	84607874	84607874	+	Missense_Mutation	SNP	T	C	C	0	1	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	gaaacaacttgaaaatgcccTgacagtacgtttgagcaaga	16	8	9	8	1	0	4	0	3	0	1	0	5	0	4	1	0	5	3	1	0	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:84607874T>C	uc004amn.2	+	4	2536	c.2489T>C	c.(2488-2490)CTG>CCG	p.L830P		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	830						integral to membrane					0						GAAAATGCCCTGACAGTACGT	0.453													4	75					0	0	1	0	0		C	84607874	C	C	84607874	3	2	214	1	0	0	0	0	1	0	0	0	5946	1580	55	3	2503	3	FLJ46321	9	84607874	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	6923151	84607874	56605557	408	106826											
GOLM1	51280	broad.mit.edu	37	chr9	88655669	88655669	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gttacctgctgtctctggtcGttgttttcactcaggtctct	3	18	9	11	1	4	0	2	0	2	0	7	0	4	0	1	2	2	4	1	2	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:88655669G>A	uc004aol.2	-	6	780	c.582C>T	c.(580-582)AAC>AAT	p.N194N	GOLM1_uc010mqd.1_RNA|GOLM1_uc004aom.2_Silent_p.N194N	NM_016548	NP_057632	Q8NBJ4	GOLM1_HUMAN	golgi membrane protein 1	194	Potential.|Lumenal (Potential).					Golgi apparatus|integral to plasma membrane					0						GTCTCTGGTCGTTGTTTTCAC	0.463													14	60					0	0	1	0	0		A	88655669	A	A	88655669	2	1	214	1	0	0	0	0	0	0	0	1	6582	1136	40	1		1	GOLM1	9	88655669	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4047795	88655669	52557762	409	106827											
PHF2	5253	broad.mit.edu	37	chr9	96425855	96425855	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gagcagaagctagagaagtcGcctctagctggaaacaaaga	16	5	12	8	1	1	3	0	0	1	3	2	6	1	4	1	1	4	3	1	1	6	2	rs142130095		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:96425855G>A	uc004aub.2	+	14	2022	c.1875G>A	c.(1873-1875)TCG>TCA	p.S625S	PHF2_uc011lug.1_Silent_p.S508S|PHF2_uc004auc.2_Silent_p.S44S	NM_005392	NP_005383	O75151	PHF2_HUMAN	PHD finger protein 2	625	Lys-rich.				liver development|negative regulation of chromatin silencing at rDNA|transcription, DNA-dependent	nucleolus	histone demethylase activity (H3-K9 specific)|iron ion binding|methylated histone residue binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1		Myeloproliferative disorder(762;0.0255)		OV - Ovarian serous cystadenocarcinoma(323;9.11e-28)		TAGAGAAGTCGCCTCTAGCTG	0.507													16	58					0	0	1	0	0		A	96425855	A	A	96425855	2	1	214	1	0	0	0	0	0	0	0	1	11849	1074	38	1		1	PHF2	9	96425855	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	7770186	96425855	44787576	410	106828											
FAM22G	441457	broad.mit.edu	37	chr9	99697671	99697671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgctggaggagggactgtggCgggccatgcgggaatggcag	7	5	21	8	3	0	0	0	0	0	0	0	4	0	4	1	7	1	2	1	7	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:99697671C>T	uc004awq.1	+	3	1490	c.775C>T	c.(775-777)CGG>TGG	p.R259W	HIATL2_uc004awr.1_Intron	NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	259										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				GGGACTGTGGCGGGCCATGCG	0.622													14	74					0	0	1	0	0		T	99697671	T	T	99697671	3	4	214	1	0	0	0	0	1	0	0	0	5557	759	27	1	785	1	FAM22G	9	99697671	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3271816	99697671	41515760	411	106829											
OR13C2	392376	broad.mit.edu	37	chr9	107367621	107367621	+	Silent	SNP	G	T	T	0	0	1	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	aggaacatctgcactgcacaGccagaaagggaaatggtctt	14	7	11	9	0	2	1	0	0	2	1	2	3	2	3	1	3	4	2	1	3	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:107367621G>T	uc011lvq.1	-	1	288	c.288C>A	c.(286-288)GGC>GGA	p.G96G		NM_001004481	NP_001004481	Q8NGS9	O13C2_HUMAN	olfactory receptor, family 13, subfamily C,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCACTGCACAGCCAGAAAGGG	0.532													7	124					0.00621372	0.00638487	1	1	0		T	107367621	T	T	107367621	2	4	214	1	0	0	0	0	0	0	0	1	10953	958	34	5		5	OR13C2	9	107367621	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	7669950	107367621	33845810	412	106830											
ABCA1	19	broad.mit.edu	37	chr9	107591376	107591376	+	Silent	SNP	G	A	A	0	0	1	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	cactgagtaaatccaggccaGcgtcatgaagaggggcattg	12	7	13	9	1	1	3	1	2	0	1	2	3	2	3	2	3	1	2	2	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:107591376G>A	uc004bcl.2	-	15	2249	c.1936C>T	c.(1936-1938)CTG>TTG	p.L646L		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	646	Helical; (Potential).				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	ATCCAGGCCAGCGTCATGAAG	0.562													8	37					0	0	1	0	0		A	107591376	A	A	107591376	2	1	214	1	0	0	0	0	0	0	0	1	28	962	34	2		2	ABCA1	9	107591376	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	223755	107591376	33622055	413	106831											
ZNF883	169834	broad.mit.edu	37	chr9	115759835	115759835	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catgcattacactcatagggTttttctccagtatgaattct	10	16	6	9	0	3	1	1	1	2	0	4	1	3	1	1	1	2	3	1	1	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:115759835T>G	uc011lwy.1	-	5	1944	c.705A>C	c.(703-705)AAA>AAC	p.K235N		NM_001101338	NP_001094808	P0CG24	ZN883_HUMAN	hypothetical protein LOC169834	235					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACTCATAGGGTTTTTCTCCAG	0.428													4	44					0	0	1	0	0		G	115759835	G	G	115759835	3	3	214	1	0	0	0	0	1	0	0	0	18223	1722	60	5	436	5	ZNF883	9	115759835	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	8168459	115759835	25453596	414	106832											
RGS3	5998	broad.mit.edu	37	chr9	116279845	116279845	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tagatctctgtaatcctgccCggaccctcctgctgtcagag	7	11	9	14	1	2	2	1	0	1	2	5	3	4	3	4	1	2	2	4	1	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:116279845C>T	uc004bhq.2	+	17	1908	c.1699C>T	c.(1699-1701)CGG>TGG	p.R567W	RGS3_uc004bhr.2_Missense_Mutation_p.R455W|RGS3_uc004bhs.2_Missense_Mutation_p.R457W|RGS3_uc004bht.2_Missense_Mutation_p.R286W|RGS3_uc010muy.2_Missense_Mutation_p.R286W|RGS3_uc004bhu.2_Missense_Mutation_p.R193W	NM_144488	NP_652759	P49796	RGS3_HUMAN	regulator of G-protein signalling 3 isoform 6	567					inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	cytosol|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)|lung(1)|skin(1)	3						TAATCCTGCCCGGACCCTCCT	0.557													15	96					0	0	1	0	0		T	116279845	T	T	116279845	3	4	214	1	0	0	0	0	1	0	0	0	13331	643	23	1	1902	1	RGS3	9	116279845	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	520010	116279845	24933586	415	106833											
COL27A1	85301	broad.mit.edu	37	chr9	116930295	116930295	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcgacctcgacatgcacgacGggcgctggcaccacctggcc	7	5	12	17	5	0	0	0	0	0	0	2	3	0	0	4	3	1	3	4	3	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:116930295G>A	uc011lxl.1	+	3	460	c.460G>A	c.(460-462)GGG>AGG	p.G154R	COL27A1_uc004bii.2_RNA|COL27A1_uc010mvd.1_Missense_Mutation_p.G4R	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	154	Laminin G-like.|TSP N-terminal.				cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						CATGCACGACGGGCGCTGGCA	0.692													10	44					0	0	1	0	0		A	116930295	A	A	116930295	3	1	214	1	0	0	0	0	1	0	0	0	3688	1116	39	1	470	1	COL27A1	9	116930295	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	650450	116930295	24283136	416	106834											
DFNB31	25861	broad.mit.edu	37	chr9	117266634	117266634	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gatgctgaagcccaagccctCgtgggccttggcacgccgca	7	6	13	15	3	0	1	0	1	0	0	1	2	0	1	4	2	3	3	4	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:117266634C>T	uc004biz.3	-	1	1097	c.448G>A	c.(448-450)GAG>AAG	p.E150K	DFNB31_uc004biy.3_5'Flank|DFNB31_uc004bja.3_Missense_Mutation_p.E150K|DFNB31_uc004bjb.2_Missense_Mutation_p.E150K	NM_015404	NP_056219	Q9P202	WHRN_HUMAN	CASK-interacting protein CIP98 isoform 1	150	PDZ 1.				inner ear receptor stereocilium organization|retina homeostasis|sensory perception of light stimulus|sensory perception of sound	cytoplasm|growth cone|stereocilium				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CCCAAGCCCTCGTGGGCCTTG	0.706													15	87					0	0	1	0	0		T	117266634	T	T	117266634	3	4	214	1	0	0	0	0	1	0	0	0	4461	893	31	1	2323	1	DFNB31	9	117266634	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	336339	117266634	23946797	417	106835											
PAPPA	5069	broad.mit.edu	37	chr9	118989725	118989725	+	Silent	SNP	A	G	G	1	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	cctagagaattgggatcagcAtgtcatctttgcctggaagg	10	11	12	8	0	3	1	2	0	1	1	3	4	3	3	2	3	2	1	2	3	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:118989725A>G	uc004bjn.2	+	6	2508	c.2127A>G	c.(2125-2127)GCA>GCG	p.A709A	PAPPA_uc011lxp.1_Silent_p.A404A|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	709					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TGGGATCAGCATGTCATCTTT	0.532													25	136					0	0	1	0	0		G	118989725	G	G	118989725	2	3	214	1	0	0	0	0	0	0	0	1	11451	204	8	3		3	PAPPA	9	118989725	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1723091	118989725	22223706	418	106836											
ASTN2	23245	broad.mit.edu	37	chr9	119737575	119737575	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctccacaggcggaaccacaaAgcttttgctgacaggaagcc	12	6	10	13	1	0	1	0	1	0	0	1	3	1	3	3	3	4	2	3	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:119737575A>C	uc004bjs.1	-	10	1902	c.1801T>G	c.(1801-1803)TTT>GTT	p.F601V	ASTN2_uc004bjr.1_Missense_Mutation_p.F597V|ASTN2_uc004bjt.1_Missense_Mutation_p.F550V	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	601	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						GGAACCACAAAGCTTTTGCTG	0.547													7	93					0	0	1	0	0		C	119737575	C	C	119737575	3	2	214	1	0	0	0	0	1	0	0	0	1066	72	3	5	2506	5	ASTN2	9	119737575	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	747850	119737575	21475856	419	106837											
TLR4	7099	broad.mit.edu	37	chr9	120475722	120475722	+	Missense_Mutation	SNP	A	T	T	1	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	caatttgaaacaaatgagtgAgttttcagtattcctatcac	14	14	6	7	0	2	3	2	3	0	0	3	3	3	3	1	0	1	2	1	0	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:120475722A>T	uc004bjz.2	+	3	1607	c.1316A>T	c.(1315-1317)GAG>GTG	p.E439V	TLR4_uc004bka.2_Missense_Mutation_p.E399V|TLR4_uc004bkb.2_Missense_Mutation_p.E239V	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	439	LRR 13.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						CAAATGAGTGAGTTTTCAGTA	0.388													30	85					0	0	1	0	0		T	120475722	T	T	120475722	3	4	214	1	0	0	0	0	1	0	0	0	15978	304	11	5	1326	5	TLR4	9	120475722	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	738147	120475722	20737709	420	106838											
DAB2IP	153090	broad.mit.edu	37	chr9	124543823	124543823	+	Missense_Mutation	SNP	A	G	G	1	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	ctccaaacagaagatcattgAtgcccaggtgggggctccgg	10	7	13	11	1	1	3	1	1	0	2	3	3	3	3	3	4	2	1	3	4	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:124543823A>G	uc004bln.2	+	15	3380	c.3311A>G	c.(3310-3312)GAT>GGT	p.D1104G	DAB2IP_uc004blo.2_Missense_Mutation_p.D1008G|DAB2IP_uc004blp.2_Missense_Mutation_p.D537G	NM_032552	NP_115941	Q5VWQ8	DAB2P_HUMAN	disabled homolog 2 interacting protein isoform	1132	Potential.				activation of JUN kinase activity|apoptosis in response to endoplasmic reticulum stress|cellular response to epidermal growth factor stimulus|cellular response to tumor necrosis factor|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of epithelial cell migration|negative regulation of epithelial cell proliferation|negative regulation of epithelial to mesenchymal transition|negative regulation of fibroblast proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of MAP kinase activity|negative regulation of NF-kappaB transcription factor activity|negative regulation of Ras GTPase activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|intrinsic to internal side of plasma membrane	14-3-3 protein binding|death receptor binding|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity|protein phosphatase 2A binding|Ras GTPase activator activity|signaling adaptor activity			ovary(1)|central_nervous_system(1)	2						AAGATCATTGATGCCCAGGTG	0.547													17	57					0	0	1	0	0		G	124543823	G	G	124543823	3	3	214	1	0	0	0	0	1	0	0	0	4222	333	12	3	3369	3	DAB2IP	9	124543823	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4068101	124543823	16669608	421	106839											
MORN5	254956	broad.mit.edu	37	chr9	124936902	124936902	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aggaaccgctttctaagaaaCgcaggtaggtttcttccgac	11	10	10	10	3	2	1	0	0	2	1	3	3	3	2	2	3	2	4	2	3	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:124936902C>T	uc004blw.2	+	4	497	c.435C>T	c.(433-435)AAC>AAT	p.N145N	MORN5_uc011lyn.1_Silent_p.N145N|MORN5_uc011lyo.1_3'UTR	NM_198469	NP_940871	Q5VZ52	MORN5_HUMAN	MORN repeat containing 5	145											0						TTCTAAGAAACGCAGGTAGGT	0.448													13	88					0	0	1	0	0		T	124936902	T	T	124936902	2	4	214	1	0	0	0	0	0	0	0	1	9729	535	19	1		1	MORN5	9	124936902	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	393079	124936902	16276529	422	106840											
OR1L8	138881	broad.mit.edu	37	chr9	125330470	125330470	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acatctgtgtcagacacccaGcataggagatggtcttcttt	10	12	9	10	0	4	2	1	0	3	2	4	3	4	2	1	2	1	1	1	2	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:125330470G>A	uc004bmp.1	-	1	287	c.287C>T	c.(286-288)GCT>GTT	p.A96V		NM_001004454	NP_001004454	Q8NGR8	OR1L8_HUMAN	olfactory receptor, family 1, subfamily L,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3						CAGACACCCAGCATAGGAGAT	0.473													8	73					0	0	1	0	0		A	125330470	A	A	125330470	3	1	214	1	0	0	0	0	1	0	0	0	10986	971	34	2	646	2	OR1L8	9	125330470	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	393568	125330470	15882961	423	106841											
OR1L6	392390	broad.mit.edu	37	chr9	125512217	125512217	+	Missense_Mutation	SNP	A	G	G	1	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	tgcagaaacctctctttgccAtcttcctcatcatgtacctg	8	14	5	14	0	4	1	2	0	2	1	6	1	5	1	4	0	4	2	4	0	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:125512217A>G	uc011lzc.1	+	1	199	c.199A>G	c.(199-201)ATC>GTC	p.I67V		NM_001004453	NP_001004453	Q8NGR2	OR1L6_HUMAN	olfactory receptor, family 1, subfamily L,	67	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TCTCTTTGCCATCTTCCTCAT	0.537													6	149					0	0	1	0	0		G	125512217	G	G	125512217	3	3	214	1	0	0	0	0	1	0	0	0	10985	217	8	3	93	3	OR1L6	9	125512217	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	181747	125512217	15701214	424	106842											
GAPVD1	26130	broad.mit.edu	37	chr9	128064717	128064717	+	Missense_Mutation	SNP	A	G	G	1	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	gcttgttgaagatgaagatcAcctggaaacagatccaaaca	16	8	9	8	0	1	5	1	2	0	3	2	6	2	6	2	1	2	2	2	1	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:128064717A>G	uc010mwx.2	+	5	967	c.641A>G	c.(640-642)CAC>CGC	p.H214R	GAPVD1_uc004bpo.2_Missense_Mutation_p.H214R|GAPVD1_uc011lzs.1_Missense_Mutation_p.H214R|GAPVD1_uc004bpp.2_Missense_Mutation_p.H214R|GAPVD1_uc004bpq.2_Missense_Mutation_p.H214R|GAPVD1_uc004bpr.2_Missense_Mutation_p.H214R|GAPVD1_uc004bps.2_Missense_Mutation_p.H214R|GAPVD1_uc010mwy.1_Missense_Mutation_p.H73R	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	214	Ras-GAP.				endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GATGAAGATCACCTGGAAACA	0.393													9	37					0	0	1	0	0		G	128064717	G	G	128064717	3	3	214	1	0	0	0	0	1	0	0	0	6254	159	6	3	647	3	GAPVD1	9	128064717	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2552500	128064717	13148714	425	106843											
GAPVD1	26130	broad.mit.edu	37	chr9	128099344	128099344	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ctcagtcagagtctctgctgGccatgtttgatccactgtct	6	14	9	12	0	4	2	2	1	2	1	6	2	5	2	2	1	1	2	2	1	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:128099344G>A	uc010mwx.2	+	16	2802	c.2476G>A	c.(2476-2478)GCC>ACC	p.A826T	GAPVD1_uc011lzs.1_Missense_Mutation_p.A826T|GAPVD1_uc004bpp.2_Missense_Mutation_p.A853T|GAPVD1_uc004bpq.2_Missense_Mutation_p.A826T|GAPVD1_uc004bpr.2_Missense_Mutation_p.A805T|GAPVD1_uc004bps.2_Missense_Mutation_p.A826T|GAPVD1_uc010mwy.1_Intron	NM_015635	NP_056450	Q14C86	GAPD1_HUMAN	GTPase activating protein and VPS9 domains 1	826					endocytosis|regulation of protein transport|regulation of small GTPase mediated signal transduction|signal transduction	cytosol|endosome|membrane	GTPase activating protein binding|GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						GTCTCTGCTGGCCATGTTTGA	0.488													11	78					0	0	1	0	0		A	128099344	A	A	128099344	3	1	214	1	0	0	0	0	1	0	0	0	6254	1203	42	2	2611	2	GAPVD1	9	128099344	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	34627	128099344	13114087	426	106844											
ASB6	140459	broad.mit.edu	37	chr9	132401727	132401727	+	Missense_Mutation	SNP	A	G	G	1	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	cgtgatgcaccagcagctccAccatgtccggctggttccgc	6	8	11	16	3	0	1	0	1	0	0	3	1	3	1	5	2	3	5	5	2	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:132401727A>G	uc004byf.1	-	3	522	c.356T>C	c.(355-357)GTG>GCG	p.V119A	ASB6_uc004bye.1_Missense_Mutation_p.V44A|ASB6_uc004byg.1_Missense_Mutation_p.V119A|ASB6_uc011mbt.1_Missense_Mutation_p.V40A|ASB6_uc010myx.1_Missense_Mutation_p.V119A	NM_017873	NP_060343	Q9NWX5	ASB6_HUMAN	ankyrin repeat and SOCS box-containing 6 isoform	119	ANK 2.				intracellular signal transduction	cytoplasm					0		Ovarian(14;0.00556)				CAGCAGCTCCACCATGTCCGG	0.617													7	31					0	0	1	0	0		G	132401727	G	G	132401727	3	3	214	1	0	0	0	0	1	0	0	0	1028	159	6	3	925	3	ASB6	9	132401727	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4302383	132401727	8811704	427	106845											
MED22	6837	broad.mit.edu	37	chr9	136208461	136208461	+	Missense_Mutation	SNP	A	G	G	1	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	acgccagcagaggggccgagAggccatcagcagagtctgtg	10	4	16	11	2	2	3	1	0	1	3	2	4	2	3	3	3	2	2	3	3	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:136208461A>G	uc004cdc.2	-	5	731	c.497T>C	c.(496-498)CTC>CCC	p.L166P	MED22_uc004cdd.2_3'UTR	NM_133640	NP_598395	Q15528	MED22_HUMAN	mediator complex subunit 22 isoform b	166					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|mediator complex|soluble fraction	protein binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.14e-06)|Epithelial(140;8.2e-06)|all cancers(34;6.94e-05)		AGGGGCCGAGAGGCCATCAGC	0.647													5	28					0	0	1	0	0		G	136208461	G	G	136208461	3	3	214	1	0	0	0	0	1	0	0	0	9458	304	11	3	109	3	MED22	9	136208461	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3806734	136208461	5004970	428	106846											
TMEM8C	389827	broad.mit.edu	37	chr9	136380685	136380685	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctatctgctgggtgtagacGctcttgtctgggtacaggcc	5	12	13	11	1	3	1	0	0	3	1	3	1	3	1	2	3	2	4	2	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:136380685G>A	uc011mdk.1	-	4	444	c.444C>T	c.(442-444)AGC>AGT	p.S148S		NM_001080483	NP_001073952	A6NI61	TMM8C_HUMAN	transmembrane protein 8C	148						integral to membrane					0						GGGTGTAGACGCTCTTGTCTG	0.597													5	101					0	0	1	0	0		A	136380685	A	A	136380685	2	1	214	1	0	0	0	0	0	0	0	1	16241	1078	38	1		1	TMEM8C	9	136380685	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	172224	136380685	4832746	429	106847											
BRD3	8019	broad.mit.edu	37	chr9	136913497	136913497	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcttggggtctgacaacggcGggggcgactcactccggctg	5	7	17	12	4	2	1	1	1	1	0	3	2	3	1	1	6	1	2	1	6	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:136913497G>A	uc004cew.2	-	6	982	c.794C>T	c.(793-795)CCG>CTG	p.P265L	BRD3_uc004cex.2_Missense_Mutation_p.P265L	NM_007371	NP_031397	Q15059	BRD3_HUMAN	bromodomain containing protein 3	265						nucleus	protein binding		BRD3/C15orf55(3)	stomach(4)|midline_organs(3)|kidney(1)	8				OV - Ovarian serous cystadenocarcinoma(145;1.43e-08)|Epithelial(140;8.41e-08)|all cancers(34;5.21e-07)		TGACAACGGCGGGGGCGACTC	0.637			T	NUT|C15orf55	lethal midline carcinoma of young people								14	68					0	0	1	0	0		A	136913497	A	A	136913497	3	1	214	1	0	0	0	0	1	0	0	0	1506	1116	39	1	1414	1	BRD3	9	136913497	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	532812	136913497	4299934	430	106848											
COL5A1	1289	broad.mit.edu	37	chr9	137726910	137726910	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcccaccagaacgtcaccTaccactgctaccagtcagtg	10	7	7	17	1	2	1	2	0	0	1	2	1	2	1	5	0	5	1	5	0	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:137726910T>C	uc004cfe.2	+	65	5612	c.5230T>C	c.(5230-5232)TAC>CAC	p.Y1744H	uc004cff.2_Intron	NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1744	Fibrillar collagen NC1.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		GAACGTCACCTACCACTGCTA	0.637													3	31					0	0	1	0	0		C	137726910	C	C	137726910	3	2	214	1	0	0	0	0	1	0	0	0	3699	1522	53	3	5488	3	COL5A1	9	137726910	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	813413	137726910	3486521	431	106849											
KCNT1	57582	broad.mit.edu	37	chr9	138651627	138651627	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tccaccgtgggctacggtgaCgtcacgcccaagatctggcc	7	7	12	15	4	2	2	1	1	1	1	3	2	3	2	4	3	1	1	4	3	2	1	rs148562086	byFrequency	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:138651627C>T	uc011mdq.1	+	11	1031	c.957C>T	c.(955-957)GAC>GAT	p.D319D	KCNT1_uc011mdr.1_Silent_p.D146D|KCNT1_uc010nbf.2_Silent_p.D274D|KCNT1_uc004cgo.1_Silent_p.D68D	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1	319						membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		GCTACGGTGACGTCACGCCCA	0.647													8	50					0	0	1	0	0		T	138651627	T	T	138651627	2	4	214	1	0	0	0	0	0	0	0	1	8107	535	19	1		1	KCNT1	9	138651627	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	924717	138651627	2561804	432	106850											
LCN8	138307	broad.mit.edu	37	chr9	139651016	139651016	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	actgtctatttctgagcccaCgatcttctctatctcacagc	8	14	5	14	1	5	1	1	1	5	0	7	2	5	1	1	0	2	0	1	0	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:139651016C>T	uc004cjb.1	-	3	533	c.184G>A	c.(184-186)GTG>ATG	p.V62M	LCN8_uc004cja.2_5'Flank|LCN8_uc004cjc.1_Missense_Mutation_p.V62M	NM_178469	NP_848564	Q6JVE9	LCN8_HUMAN	lipocalin 8	85					transport	extracellular region	binding			pancreas(1)	1	all_cancers(76;0.0882)|all_epithelial(76;0.228)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;5.56e-06)|Epithelial(140;8.32e-05)		TCTGAGCCCACGATCTTCTCT	0.552													18	121					0	0	1	0	0		T	139651016	T	T	139651016	3	4	214	1	0	0	0	0	1	0	0	0	8702	536	19	1	294	1	LCN8	9	139651016	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	999389	139651016	1562415	433	106851											
TUBB2C	10383	broad.mit.edu	37	chr9	140137547	140137547	+	Missense_Mutation	SNP	A	G	G	1	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	tgcccgagctcacccagcagAtgtttgatgccaagaacatg	11	8	10	12	1	1	3	1	1	0	2	1	4	1	3	3	0	5	3	3	0	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr9:140137547A>G	uc004cmh.1	+	4	979	c.877A>G	c.(877-879)ATG>GTG	p.M293V	TUBB2C_uc004cmg.1_Missense_Mutation_p.M147V	NM_006088	NP_006079	P68371	TBB2C_HUMAN	tubulin, beta, 2	293					'de novo' posttranslational protein folding|cellular component movement|G2/M transition of mitotic cell cycle|microtubule-based movement|natural killer cell mediated cytotoxicity|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|MHC class I protein binding|structural molecule activity|unfolded protein binding			ovary(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)		CACCCAGCAGATGTTTGATGC	0.652													16	77					0	0	1	0	0		G	140137547	G	G	140137547	3	3	214	1	0	0	0	0	1	0	0	0	16782	333	12	3	891	3	TUBB2C	9	140137547	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	486531	140137547	1075884	434	106852											
PFKFB3	5209	broad.mit.edu	37	chr10	6255618	6255618	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctgaccaactcccccaccGtcatcgtcatggtgggcctc	7	8	9	17	2	2	1	2	1	0	0	5	1	3	1	5	2	2	1	5	2	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:6255618G>A	uc001ije.2	+	2	493	c.109G>A	c.(109-111)GTC>ATC	p.V37I	PFKFB3_uc001ijd.2_Missense_Mutation_p.V17I|PFKFB3_uc009xii.2_RNA|PFKFB3_uc010qaw.1_Missense_Mutation_p.V51I|PFKFB3_uc001ijf.2_Missense_Mutation_p.V37I	NM_004566	NP_004557	Q16875	F263_HUMAN	6-phosphofructo-2-kinase/fructose-2,	37	6-phosphofructo-2-kinase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(2)|central_nervous_system(1)	3						CTCCCCCACCGTCATCGTCAT	0.582													21	190					0	0	1	0	0		A	6255618	A	A	6255618	3	1	214	1	0	0	0	0	1	0	0	0	11781	1145	40	1	135	1	PFKFB3	10	6255618	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08		6255618	129279129	435	106853											
SFMBT2	57713	broad.mit.edu	37	chr10	7213964	7213964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctctgggggtggccggcgcaCgggctctgagccgctccgca	3	6	17	15	5	2	1	0	1	2	0	3	1	3	1	3	5	1	4	3	5	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:7213964C>T	uc009xio.1	-	19	2399	c.2308G>A	c.(2308-2310)GTG>ATG	p.V770M	SFMBT2_uc001ijn.1_Missense_Mutation_p.V770M|SFMBT2_uc010qay.1_Missense_Mutation_p.V605M	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	770					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GGCCGGCGCACGGGCTCTGAG	0.761													3	6					0	0	1	0	0		T	7213964	T	T	7213964	3	4	214	1	0	0	0	0	1	0	0	0	14183	536	19	1	388	1	SFMBT2	10	7213964	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	958346	7213964	128320783	436	106854											
BEND7	222389	broad.mit.edu	37	chr10	13542000	13542000	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctctccttctttgccaactcGctgatagatccgcccagtgc	6	12	7	16	2	2	2	0	1	2	1	5	2	3	2	4	0	3	1	4	0	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:13542000G>T	uc001imm.2	-	3	367	c.70C>A	c.(70-72)CGA>AGA	p.R24R	BEND7_uc001imo.3_Silent_p.R24R	NM_152751	NP_689964	Q8N7W2	BEND7_HUMAN	BEN domain containing 7 isoform 1	76							protein binding			ovary(1)|breast(1)	2						TTGCCAACTCGCTGATAGATC	0.483													13	189					2.61681e-11	2.91588e-11	1	1	0		T	13542000	T	T	13542000	2	4	214	1	0	0	0	0	0	0	0	1	1404	1095	38	5		5	BEND7	10	13542000	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6328036	13542000	121992747	437	106855											
ITGA8	8516	broad.mit.edu	37	chr10	15646264	15646264	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggtatcattacaaagagTtcagcttcatatgctccttc	10	15	6	10	0	4	1	3	0	1	1	6	1	5	1	1	1	3	4	1	1	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:15646264T>G	uc001ioc.1	-	20	2061	c.2061A>C	c.(2059-2061)GAA>GAC	p.E687D	ITGA8_uc010qcb.1_Missense_Mutation_p.E672D	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	687	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						TTACAAAGAGTTCAGCTTCAT	0.368													13	89					0	0	1	0	0		G	15646264	G	G	15646264	3	3	214	1	0	0	0	0	1	0	0	0	7898	1722	60	5	1174	5	ITGA8	10	15646264	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2104264	15646264	119888483	438	106856											
C10orf68	79741	broad.mit.edu	37	chr10	33165293	33165293	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	agtgttacatgctgctgcccGaaaatctgtaccacacccat	11	10	7	13	1	1	0	0	0	1	0	1	1	1	0	3	0	5	4	3	0	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:33165293G>C	uc001iwn.3	+	22	2332	c.1859G>C	c.(1858-1860)CGA>CCA	p.R620P	C10orf68_uc001iwl.1_Missense_Mutation_p.R579P|C10orf68_uc001iwm.1_Missense_Mutation_p.R624P|C10orf68_uc010qei.1_Missense_Mutation_p.R596P|C10orf68_uc001iwo.3_RNA	NM_024688	NP_078964	Q9H943	CJ068_HUMAN	chromosome 10 open reading frame 68	620										skin(2)|ovary(1)	3						GCTGCTGCCCGAAAATCTGTA	0.303													9	63					0	0	1	0	0		C	33165293	C	C	33165293	3	2	214	1	0	0	0	0	1	0	0	0	1616	1058	37	5	1937	5	C10orf68	10	33165293	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	17519029	33165293	102369454	439	106857											
CREM	1390	broad.mit.edu	37	chr10	35495831	35495831	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gttttactgcagctgccactGgtgacatgccaacttaccag	9	11	9	12	0	0	1	0	1	0	0	0	1	0	1	3	1	7	3	3	1	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:35495831G>A	uc001iyb.2	+	7	769	c.607G>A	c.(607-609)GGT>AGT	p.G203S	CREM_uc001ixy.2_5'UTR|CREM_uc001ixz.2_5'UTR|CREM_uc001iya.2_Missense_Mutation_p.G152S|CREM_uc001iyc.2_Missense_Mutation_p.G124S|CREM_uc001iyd.2_Missense_Mutation_p.G203S|CREM_uc001iye.2_Missense_Mutation_p.G140S|CREM_uc001iyf.2_Missense_Mutation_p.G173S|CREM_uc001iyg.2_Missense_Mutation_p.G110S|CREM_uc001iyh.2_Missense_Mutation_p.G148S|CREM_uc001iyi.2_Missense_Mutation_p.G85S|CREM_uc001iyj.2_Missense_Mutation_p.G82S|CREM_uc001iyk.2_Missense_Mutation_p.G82S|CREM_uc001iyl.2_Missense_Mutation_p.G24S|CREM_uc001iym.2_Missense_Mutation_p.G24S|CREM_uc001iyn.2_Missense_Mutation_p.G12S|CREM_uc001iyo.2_Missense_Mutation_p.G12S|CREM_uc001iyp.2_Missense_Mutation_p.G6S|CREM_uc001iyq.2_Missense_Mutation_p.G16S|CREM_uc001iyr.2_Missense_Mutation_p.G16S|CREM_uc001iys.2_5'UTR|CREM_uc001iyt.2_5'UTR	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a	264					cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCTGCCACTGGTGACATGCC	0.433													22	250					0	0	1	0	0		A	35495831	A	A	35495831	3	1	214	1	0	0	0	0	1	0	0	0	3871	1348	47	4	881	4	CREM	10	35495831	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2330538	35495831	100038916	440	106858											
ZNF37A	7587	broad.mit.edu	37	chr10	38406457	38406457	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tataataaaaatgggaacagCttctggctgaatgaagacct	16	10	9	6	0	1	3	0	2	1	1	1	4	1	4	1	2	2	2	1	2	8	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:38406457C>T	uc001izk.2	+	8	1197	c.378C>T	c.(376-378)AGC>AGT	p.S126S	ZNF37A_uc001izl.2_Silent_p.S126S|ZNF37A_uc001izm.2_Silent_p.S126S	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	126						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						ATGGGAACAGCTTCTGGCTGA	0.338													10	128					0	0	1	0	0		T	38406457	T	T	38406457	2	4	214	1	0	0	0	0	0	0	0	1	17897	796	28	2		2	ZNF37A	10	38406457	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2910626	38406457	97128290	441	106859											
ZNF37A	7587	broad.mit.edu	37	chr10	38406869	38406869	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tccttcatttacaacagagaAcacatacaggagaaaaacct	18	8	5	10	0	1	2	1	0	0	2	2	4	2	2	2	1	5	0	2	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:38406869A>G	uc001izk.2	+	8	1609	c.790A>G	c.(790-792)ACA>GCA	p.T264A	ZNF37A_uc001izl.2_Missense_Mutation_p.T264A|ZNF37A_uc001izm.2_Missense_Mutation_p.T264A	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	264	C2H2-type 2; degenerate.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						ACAACAGAGAACACATACAGG	0.373													12	139					0	0	1	0	0		G	38406869	G	G	38406869	3	3	214	1	0	0	0	0	1	0	0	0	17897	43	2	3	804	3	ZNF37A	10	38406869	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	412	38406869	97127878	442	106860											
CCDC6	8030	broad.mit.edu	37	chr10	61572399	61572399	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagaggctacgtacgctgtaActgagcagctctcagttgct	9	10	11	11	2	1	2	1	1	1	1	2	2	1	2	0	1	6	8	0	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:61572399A>G	uc001jks.3	-	5	1477	c.841T>C	c.(841-843)TTA>CTA	p.L281L		NM_005436	NP_005427	Q16204	CCDC6_HUMAN	coiled-coil domain containing 6	281	Potential.					cytoplasm|cytoskeleton	SH3 domain binding|structural constituent of cytoskeleton			ovary(3)|breast(1)	4				Kidney(211;0.0597)		GTACGCTGTAACTGAGCAGCT	0.373													14	93					0	0	1	0	0		G	61572399	G	G	61572399	2	3	214	1	0	0	0	0	0	0	0	1	2833	40	2	3		3	CCDC6	10	61572399	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	23165530	61572399	73962348	443	106861											
ANK3	288	broad.mit.edu	37	chr10	61829483	61829483	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcccatttttataggcgtgCgcaacttggggtcaacttta	8	15	9	9	2	1	0	1	0	0	0	2	0	2	0	1	3	3	1	1	3	5	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:61829483C>T	uc001jky.2	-	37	11348	c.11156G>A	c.(11155-11157)CGC>CAC	p.R3719H	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	3719					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TATAGGCGTGCGCAACTTGGG	0.493													26	215					0	0	1	0	0		T	61829483	T	T	61829483	3	4	214	1	0	0	0	0	1	0	0	0	622	768	27	1	2318	1	ANK3	10	61829483	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	257084	61829483	73705264	444	106862											
ANK3	288	broad.mit.edu	37	chr10	61833623	61833623	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgacttcagtgggctcagctTggttacctttttcgatgtgg	5	16	12	8	1	2	1	2	1	0	0	3	2	2	1	1	3	2	3	1	3	1	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:61833623T>C	uc001jky.2	-	37	7208	c.7016A>G	c.(7015-7017)CAA>CGA	p.Q2339R	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	2339					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						GGGCTCAGCTTGGTTACCTTT	0.413													7	142					0	0	1	0	0		C	61833623	C	C	61833623	3	2	214	1	0	0	0	0	1	0	0	0	622	1812	63	3	6458	3	ANK3	10	61833623	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4140	61833623	73701124	445	106863											
TMEM26	219623	broad.mit.edu	37	chr10	63170263	63170263	+	Silent	SNP	T	C	C	0	1	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	aacgaagcacggactgccaaTgccagcaccaccaagcggta	14	3	10	14	3	0	0	0	0	0	0	0	2	0	1	4	2	6	3	4	2	5	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:63170263T>C	uc001jlo.2	-	6	1293	c.924A>G	c.(922-924)GCA>GCG	p.A308A	TMEM26_uc010qij.1_RNA|TMEM26_uc001jlp.1_RNA	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26	308						integral to membrane					0	Prostate(12;0.0112)					GGACTGCCAATGCCAGCACCA	0.537													17	86					0	0	1	0	0		C	63170263	C	C	63170263	2	2	214	1	0	0	0	0	0	0	0	1	16176	1451	51	3		3	TMEM26	10	63170263	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1336640	63170263	72364484	446	106864											
MYPN	84665	broad.mit.edu	37	chr10	69948695	69948695	+	Missense_Mutation	SNP	A	G	G	1	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	caagctttgagcagaggctgAtgaatgaaatagagtttcgc	13	10	12	6	1	0	6	0	4	0	2	1	6	0	6	0	1	2	4	0	1	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:69948695A>G	uc001jnm.3	+	14	2922	c.2737A>G	c.(2737-2739)ATG>GTG	p.M913V	MYPN_uc001jnn.3_Missense_Mutation_p.M638V|MYPN_uc001jno.3_Missense_Mutation_p.M913V|MYPN_uc009xpt.2_Missense_Mutation_p.M913V|MYPN_uc010qit.1_Missense_Mutation_p.M619V|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	913						nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						GCAGAGGCTGATGAATGAAAT	0.403													3	34					0	0	1	0	0		G	69948695	G	G	69948695	3	3	214	1	0	0	0	0	1	0	0	0	10116	333	12	3	2783	3	MYPN	10	69948695	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	6778432	69948695	65586052	447	106865											
MYPN	84665	broad.mit.edu	37	chr10	69957155	69957155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acaaagagcccctacaggaaCgctttttccgaccacatttc	12	9	6	14	2	0	1	0	0	0	1	2	3	1	2	4	1	3	1	4	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:69957155C>T	uc001jnm.3	+	17	3390	c.3205C>T	c.(3205-3207)CGC>TGC	p.R1069C	MYPN_uc001jnn.3_Missense_Mutation_p.R794C|MYPN_uc001jno.3_Missense_Mutation_p.R1069C|MYPN_uc009xpt.2_Missense_Mutation_p.R1069C|MYPN_uc010qit.1_Missense_Mutation_p.R775C|MYPN_uc010qiu.1_RNA	NM_032578	NP_115967	Q86TC9	MYPN_HUMAN	myopalladin	1069	Interaction with ACTN.					nucleus|sarcomere	actin binding			ovary(3)|skin(2)	5						CCTACAGGAACGCTTTTTCCG	0.473													17	137					0	0	1	0	0		T	69957155	T	T	69957155	3	4	214	1	0	0	0	0	1	0	0	0	10116	536	19	1	3263	1	MYPN	10	69957155	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8460	69957155	65577592	448	106866											
TET1	80312	broad.mit.edu	37	chr10	70406188	70406188	+	Silent	SNP	A	T	T	1	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	tccattatgcaacccaaaacAgtatttccaccactcactca	14	10	2	15	0	2	0	2	0	0	0	4	0	4	0	4	0	3	2	4	0	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:70406188A>T	uc001jok.3	+	4	4207	c.3702A>T	c.(3700-3702)ACA>ACT	p.T1234T		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1234					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						AACCCAAAACAGTATTTCCAC	0.393													9	68					0	0	1	0	0		T	70406188	T	T	70406188	2	4	214	1	0	0	0	0	0	0	0	1	15794	175	7	5		5	TET1	10	70406188	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	449033	70406188	65128559	449	106867											
TET1	80312	broad.mit.edu	37	chr10	70406221	70406221	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcactcagataaaattacaGagatatcctgaatcagcaga	17	9	6	9	0	3	4	3	1	0	3	4	5	4	4	1	0	2	1	1	0	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:70406221G>T	uc001jok.3	+	4	4240	c.3735G>T	c.(3733-3735)CAG>CAT	p.Q1245H		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1245					DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9						TAAAATTACAGAGATATCCTG	0.408													12	73					1.49906e-05	1.59775e-05	1	1	0		T	70406221	T	T	70406221	3	4	214	1	0	0	0	0	1	0	0	0	15794	933	33	5	3745	5	TET1	10	70406221	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	33	70406221	65128526	450	106868											
SPOCK2	9806	broad.mit.edu	37	chr10	73823934	73823934	+	Splice_Site	SNP	A	G	G	1	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	agagcctggtctggcccctcAcctggcttcttcttggcggc	3	11	12	15	1	4	1	1	0	3	1	4	1	4	1	4	5	1	1	4	5	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:73823934A>G	uc001jso.1	-	9	1436	c.991_splice	c.e9+1	p.G331_splice	SPOCK2_uc001jsp.2_Splice_Site_p.G331_splice	NM_014767	NP_055582	Q92563	TICN2_HUMAN	sparc/osteonectin, cwcv and kazal-like domains						extracellular matrix organization|regulation of cell differentiation|signal transduction|synapse assembly	proteinaceous extracellular matrix	calcium ion binding				0						CTGGCCCCTCACCTGGCTTCT	0.647													4	20					0	0	1	0	0		G	73823934	G	G	73823934	5	3	214	1	0	0	0	0	0	0	1	0	15105	173	6	3	293	3	SPOCK2	10	73823934	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3417713	73823934	61710813	451	106869											
USP54	159195	broad.mit.edu	37	chr10	75276635	75276635	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agagaggattgttgctttgcCcatggccagtggcctttctc	6	13	12	10	0	1	1	0	0	1	1	2	3	1	2	3	3	2	2	3	3	0	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:75276635C>G	uc001juo.2	-	18	3566	c.3549G>C	c.(3547-3549)TGG>TGC	p.W1183C	USP54_uc010qkk.1_Missense_Mutation_p.W365C|USP54_uc001juk.2_Missense_Mutation_p.W271C|USP54_uc001jul.2_Missense_Mutation_p.W271C|USP54_uc001jum.2_RNA|USP54_uc001jun.2_RNA	NM_152586	NP_689799	Q70EL1	UBP54_HUMAN	ubiquitin specific peptidase 54	1183					ubiquitin-dependent protein catabolic process		protein binding|ubiquitin thiolesterase activity			breast(3)|lung(2)|kidney(1)	6	Prostate(51;0.0112)					GTTGCTTTGCCCATGGCCAGT	0.488													14	240					0	0	1	0	0		G	75276635	G	G	75276635	3	3	214	1	0	0	0	0	1	0	0	0	17111	624	22	5	1525	5	USP54	10	75276635	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1452701	75276635	60258112	452	106870											
SFTPA2	729238	broad.mit.edu	37	chr10	81317025	81317025	+	Silent	SNP	T	G	G	0	1	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	ctgtcattccactgcccatcTgtgtacatctccacacactg	8	12	5	16	0	3	0	1	0	2	0	5	0	4	0	3	0	2	1	3	0	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:81317025T>G	uc001kal.3	-	6	784	c.687A>C	c.(685-687)ACA>ACC	p.T229T	SFTPA2_uc001kan.3_Silent_p.T229T	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	229	C-type lectin.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	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)			ACTGCCCATCTGTGTACATCT	0.557									Pulmonary_Fibrosis_Idiopathic				35	124					0	0	1	0	0		G	81317025	G	G	81317025	2	3	214	1	0	0	0	0	0	0	0	1	14215	1567	55	5		5	SFTPA2	10	81317025	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	6040390	81317025	54217722	453	106871											
PAPSS2	9060	broad.mit.edu	37	chr10	89468995	89468995	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtagtctatcaggcccacCatgtgagcaggaataagaga	14	8	11	8	0	2	2	1	1	1	1	2	4	2	3	2	2	1	2	2	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:89468995C>A	uc001kex.2	+	2	333	c.70C>A	c.(70-72)CAT>AAT	p.H24N	PAPSS2_uc001kew.2_Missense_Mutation_p.H24N|PAPSS2_uc009xtg.1_RNA	NM_004670	NP_004661	O95340	PAPS2_HUMAN	3'-phosphoadenosine 5'-phosphosulfate synthase 2	24	Adenylyl-sulfate kinase.				3'-phosphoadenosine 5'-phosphosulfate biosynthetic process|skeletal system development|sulfate assimilation|xenobiotic metabolic process	cytosol	adenylylsulfate kinase activity|ATP binding|protein binding|sulfate adenylyltransferase (ATP) activity			central_nervous_system(1)|skin(1)	2		Melanoma(5;0.019)|Colorectal(252;0.123)		UCEC - Uterine corpus endometrioid carcinoma (6;0.00164)|Colorectal(12;0.000323)|COAD - Colon adenocarcinoma(12;0.00124)		TCAGGCCCACCATGTGAGCAG	0.403													10	100					2.80697e-09	3.08767e-09	1	1	0		A	89468995	A	A	89468995	3	1	214	1	0	0	0	0	1	0	0	0	11454	594	21	5	76	5	PAPSS2	10	89468995	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8151970	89468995	46065752	454	106872											
BTAF1	9044	broad.mit.edu	37	chr10	93770836	93770836	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atttctaaataaaggttacaGcaccaagtaaaaaggcacaa	20	8	6	7	0	1	0	0	0	1	0	1	0	1	0	1	2	2	4	1	2	10	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:93770836G>T	uc001khr.2	+	29	4208	c.4110G>T	c.(4108-4110)CAG>CAT	p.Q1370H		NM_003972	NP_003963	O14981	BTAF1_HUMAN	BTAF1 RNA polymerase II, B-TFIID transcription	1370	Helicase ATP-binding.				negative regulation of transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Colorectal(252;0.0846)				AAAGGTTACAGCACCAAGTAA	0.289													12	64					7.93312e-07	8.51892e-07	1	1	0		T	93770836	T	T	93770836	3	4	214	1	0	0	0	0	1	0	0	0	1539	962	34	5	4224	5	BTAF1	10	93770836	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4301841	93770836	41763911	455	106873											
SORBS1	10580	broad.mit.edu	37	chr10	97194454	97194454	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacagcagaaatagagcgtgCgcgtaaagggtcggcagttg	13	6	15	7	4	0	2	0	0	0	2	1	2	0	2	0	2	4	4	0	2	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:97194454C>T	uc001kkp.2	-	3	142	c.97G>A	c.(97-99)GCA>ACA	p.A33T	SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Missense_Mutation_p.A21T|SORBS1_uc001kko.2_Missense_Mutation_p.A33T|SORBS1_uc001kkq.2_Missense_Mutation_p.A33T|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Missense_Mutation_p.A33T|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Missense_Mutation_p.A33T|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron|SORBS1_uc001kkx.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	33					focal adhesion assembly|glucose transport|insulin receptor signaling pathway|muscle contraction|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of lipid biosynthetic process|stress fiber assembly	centrosome|cytosol|focal adhesion|membrane raft|nucleus|stress fiber|zonula adherens	actin binding|insulin receptor binding|SH3/SH2 adaptor activity			breast(1)	1		Colorectal(252;0.0429)		Epithelial(162;1.7e-06)|all cancers(201;6.52e-05)		ATAGAGCGTGCGCGTAAAGGG	0.478													7	62					0	0	1	0	0		T	97194454	T	T	97194454	3	4	214	1	0	0	0	0	1	0	0	0	14952	768	27	1	4094	1	SORBS1	10	97194454	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3423618	97194454	38340293	456	106874											
ENTPD1	953	broad.mit.edu	37	chr10	97605200	97605200	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgggggagcctctacacaAgtcacttttgtaccccaaaa	11	10	8	12	0	2	0	1	0	1	0	2	1	2	1	3	2	3	1	3	2	5	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:97605200A>C	uc001klh.3	+	6	984	c.660A>C	c.(658-660)CAA>CAC	p.Q220H	ENTPD1_uc001kle.1_Missense_Mutation_p.Q227H|ENTPD1_uc001kli.3_Missense_Mutation_p.Q227H|uc001klg.1_Intron|ENTPD1_uc010qoj.1_Missense_Mutation_p.Q232H|ENTPD1_uc010qok.1_Missense_Mutation_p.Q112H|ENTPD1_uc010qol.1_Missense_Mutation_p.Q112H|ENTPD1_uc010qom.1_Missense_Mutation_p.Q220H|ENTPD1_uc010qon.1_Missense_Mutation_p.Q82H|ENTPD1_uc009xva.2_Missense_Mutation_p.Q82H|ENTPD1_uc009xuz.2_RNA	NM_001776	NP_001767	P49961	ENTP1_HUMAN	ectonucleoside triphosphate diphosphohydrolase 1	220	Extracellular (Potential).				cell adhesion	integral to plasma membrane	ATP binding			ovary(3)	3		Colorectal(252;0.0821)		Epithelial(162;1.31e-07)|all cancers(201;5.33e-06)		CCTCTACACAAGTCACTTTTG	0.448													13	184					0	0	1	0	0		C	97605200	C	C	97605200	3	2	214	1	0	0	0	0	1	0	0	0	5146	69	3	5	779	5	ENTPD1	10	97605200	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	410746	97605200	37929547	457	106875											
LOXL4	84171	broad.mit.edu	37	chr10	100017803	100017803	+	Missense_Mutation	SNP	A	G	G	1	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	agcccagctgacgacacacgAcactggcagagatgaggttc	12	5	12	12	2	0	3	0	2	0	1	1	6	0	3	1	2	2	3	1	2	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:100017803A>G	uc001kpa.1	-	7	1191	c.1040T>C	c.(1039-1041)GTC>GCC	p.V347A		NM_032211	NP_115587	Q96JB6	LOXL4_HUMAN	lysyl oxidase-like 4 precursor	347	SRCR 3.					extracellular space|membrane	copper ion binding|protein binding|scavenger receptor activity			ovary(3)|breast(1)|skin(1)	5		Colorectal(252;0.234)		Epithelial(162;2.14e-11)|all cancers(201;2.49e-09)		ACGACACACGACACTGGCAGA	0.667													6	110					0	0	1	0	0		G	100017803	G	G	100017803	3	3	214	1	0	0	0	0	1	0	0	0	8920	275	10	3	1266	3	LOXL4	10	100017803	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2412603	100017803	35516944	458	106876											
NOLC1	9221	broad.mit.edu	37	chr10	103917033	103917033	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcctcatccagtgacagtgaGgacagcagcgaggaggagga	12	4	16	9	1	1	2	1	2	0	0	2	7	2	6	2	4	2	1	2	4	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:103917033G>T	uc001kuo.2	+	3	499	c.264G>T	c.(262-264)GAG>GAT	p.E88D	NOLC1_uc001kup.2_Missense_Mutation_p.E88D|NOLC1_uc001kuq.2_Missense_Mutation_p.E89D|NOLC1_uc009xxb.1_Intron|NOLC1_uc001kur.2_Intron	NM_004741	NP_004732	Q14978	NOLC1_HUMAN	nucleolar and coiled-body phosphoprotein 1	88	11 X 12 AA approximate repeats of an acidic serine cluster.|Acidic serine cluster 1.				mitosis|rRNA processing	cytoplasm|nucleolus	ATP binding|GTP binding|protein binding			ovary(1)	1		Colorectal(252;0.122)		Epithelial(162;5.19e-08)|all cancers(201;9.43e-07)		GTGACAGTGAGGACAGCAGCG	0.532													3	41					6.4e-05	6.74743e-05	1	1	0		T	103917033	T	T	103917033	3	4	214	1	0	0	0	0	1	0	0	0	10548	991	35	5	274	5	NOLC1	10	103917033	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3899230	103917033	31617714	459	106877											
SFXN2	118980	broad.mit.edu	37	chr10	104493348	104493348	+	Missense_Mutation	SNP	T	C	C	0	1	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	cgccccattgcaggtcatgcTgagcgggtgcttgtaagtat	7	11	13	10	2	1	1	1	1	0	0	1	1	1	1	2	2	4	5	2	2	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:104493348T>C	uc001kwb.2	+	10	975	c.809T>C	c.(808-810)CTG>CCG	p.L270P	SFXN2_uc001kwc.2_RNA|SFXN2_uc001kwd.2_RNA	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	270	Helical; (Potential).				iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		CAGGTCATGCTGAGCGGGTGC	0.463													18	85					0	0	1	0	0		C	104493348	C	C	104493348	3	2	214	1	0	0	0	0	1	0	0	0	14220	1580	55	3	843	3	SFXN2	10	104493348	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	576315	104493348	31041399	460	106878											
INA	9118	broad.mit.edu	37	chr10	105037208	105037208	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggctggacctgagccaggcGgcggcgcgcaccaacgagta	8	3	17	13	5	0	1	0	1	0	0	0	3	0	2	3	5	2	3	3	5	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:105037208G>A	uc001kws.2	+	1	289	c.240G>A	c.(238-240)GCG>GCA	p.A80A	uc001kwr.2_5'Flank|INA_uc009xxj.2_Silent_p.A80A	NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	80	Head.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		TGAGCCAGGCGGCGGCGCGCA	0.692													9	36					0	0	1	0	0		A	105037208	A	A	105037208	2	1	214	1	0	0	0	0	0	0	0	1	7746	1103	39	1		1	INA	10	105037208	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	543860	105037208	30497539	461	106879											
BAG3	9531	broad.mit.edu	37	chr10	121436122	121436122	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gtggattctaaacctgtttcCcagaagcccccacctccctc	8	10	6	17	0	1	1	0	0	1	1	4	2	3	2	6	1	2	1	6	1	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:121436122C>A	uc001lem.2	+	4	1362	c.1056C>A	c.(1054-1056)TCC>TCA	p.S352S	BAG3_uc001lel.2_Silent_p.S351S	NM_004281	NP_004272	O95817	BAG3_HUMAN	BCL2-associated athanogene 3	352					anti-apoptosis|apoptosis|protein folding	cytosol				ovary(2)	2		Lung NSC(174;0.109)|all_lung(145;0.142)		all cancers(201;0.00187)|BRCA - Breast invasive adenocarcinoma(275;0.148)		AACCTGTTTCCCAGAAGCCCC	0.552													20	154					1.28384e-07	1.38907e-07	1	1	0		A	121436122	A	A	121436122	2	1	214	1	0	0	0	0	0	0	0	1	1289	610	22	5		5	BAG3	10	121436122	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	16398914	121436122	14098625	462	106880											
WDR11	55717	broad.mit.edu	37	chr10	122624600	122624600	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgattgccttcagttggcatAcctgccttcaaaaaggaatc	11	12	8	10	0	2	1	2	1	0	0	3	2	2	2	3	2	3	2	3	2	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:122624600A>G	uc010qtf.1	+	6	993	c.755A>G	c.(754-756)TAC>TGC	p.Y252C	WDR11_uc010qte.1_Intron|WDR11_uc001lfd.1_Translation_Start_Site	NM_018117	NP_060587	Q9BZH6	WDR11_HUMAN	bromodomain and WD repeat domain containing 2	252						integral to membrane					0						CAGTTGGCATACCTGCCTTCA	0.378													13	101					0	0	1	0	0		G	122624600	G	G	122624600	3	3	214	1	0	0	0	0	1	0	0	0	17299	391	14	3	777	3	WDR11	10	122624600	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1188478	122624600	12910147	463	106881											
DMBT1	1755	broad.mit.edu	37	chr10	124402699	124402699	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcttcgcattgcccgcttcCggttcagggccttccacttc	3	13	8	17	3	2	0	1	0	1	0	6	0	4	0	4	2	1	3	4	2	0	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:124402699C>T	uc001lgk.1	+	53	7133	c.7027C>T	c.(7027-7029)CGG>TGG	p.R2343W	DMBT1_uc001lgl.1_Missense_Mutation_p.R2333W|DMBT1_uc001lgm.1_Missense_Mutation_p.R1715W|DMBT1_uc009xzz.1_Missense_Mutation_p.R2342W|DMBT1_uc010qtx.1_Missense_Mutation_p.R1063W|DMBT1_uc009yab.1_Missense_Mutation_p.R1046W|DMBT1_uc009yac.1_Missense_Mutation_p.R637W	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	2343	ZP.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				TGCCCGCTTCCGGTTCAGGGC	0.587													6	109					0	0	1	0	0		T	124402699	T	T	124402699	3	4	214	1	0	0	0	0	1	0	0	0	4583	643	23	1	7237	1	DMBT1	10	124402699	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1778099	124402699	11132048	464	106882											
VENTX	27287	broad.mit.edu	37	chr10	135053206	135053206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtaaggagccaaataccttgCgggccccccgtgtccgcaca	9	6	11	15	3	0	0	0	0	0	0	1	1	1	1	6	2	3	2	6	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr10:135053206C>T	uc010quy.1	+	2	279	c.268C>T	c.(268-270)CGG>TGG	p.R90W		NM_014468	NP_055283	O95231	VENTX_HUMAN	VENT homeobox	90					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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)		AAATACCTTGCGGGCCCCCCG	0.612													9	41					0	0	1	0	0		T	135053206	T	T	135053206	3	4	214	1	0	0	0	0	1	0	0	0	17179	759	27	1	274	1	VENTX	10	135053206	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	10650507	135053206	481541	465	106883											
RIC8A	60626	broad.mit.edu	37	chr11	214246	214246	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acaggaacagagtcatccagCcaatggggatgagtccccgg	12	5	13	11	1	1	2	1	1	0	1	3	4	3	4	4	4	2	0	4	4	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:214246C>T	uc001log.2	+	10	1817	c.1492C>T	c.(1492-1494)CCA>TCA	p.P498S	RIC8A_uc001lof.2_Missense_Mutation_p.P504S|RIC8A_uc001loh.2_Missense_Mutation_p.P491S	NM_021932	NP_068751	Q9NPQ8	RIC8A_HUMAN	resistance to inhibitors of cholinesterase 8	498						cytoplasm|plasma membrane	guanyl-nucleotide exchange factor activity				0		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;4.45e-27)|Epithelial(43;2.94e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.86e-21)|BRCA - Breast invasive adenocarcinoma(625;3.57e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		AGTCATCCAGCCAATGGGGAT	0.547													4	28					0	0	1	0	0		T	214246	T	T	214246	3	4	214	1	0	0	0	0	1	0	0	0	13380	739	26	2	1548	2	RIC8A	11	214246	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08		214246	134792270	466	106884											
LRDD	55367	broad.mit.edu	37	chr11	800377	800377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ccggtccagagtggtggtcaCgtatacctccttcacattct	7	12	9	13	2	3	1	2	0	1	1	5	1	5	1	4	3	1	1	4	3	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:800377C>T	uc001lro.1	-	13	2258	c.2116G>A	c.(2116-2118)GTG>ATG	p.V706M	SLC25A22_uc009yci.2_5'Flank|SLC25A22_uc001lrj.2_5'Flank|LRDD_uc009yck.1_Intron|LRDD_uc001lrk.1_Intron|LRDD_uc001lrl.1_Missense_Mutation_p.V549M|LRDD_uc001lrm.1_Missense_Mutation_p.V393M|LRDD_uc001lrn.1_Missense_Mutation_p.V549M|LRDD_uc001lrp.1_Intron	NM_145886	NP_665893	Q9HB75	PIDD_HUMAN	leucine rich repeat and death domain containing	706					apoptosis|signal transduction	cytoplasm|nucleus	death receptor binding				0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GTGGTGGTCACGTATACCTCC	0.642													11	56					0	0	1	0	0		T	800377	T	T	800377	3	4	214	1	0	0	0	0	1	0	0	0	8954	536	19	1	632	1	LRDD	11	800377	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	586131	800377	134206139	467	106885											
MUC5B	727897	broad.mit.edu	37	chr11	1283556	1283556	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gaaggaccaggaagcctctgGgaaggccaggcagggtgggg	10	3	20	8	0	1	0	0	0	1	0	1	4	1	3	3	8	1	1	3	8	3	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:1283556G>T	uc009ycr.1	+	72	18440	c.18314G>T	c.(18313-18315)GGG>GTG	p.G6105V		NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	Error:Variant_position_missing_in_Q9HC84_after_alignment					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GAAGCCTCTGGGAAGGCCAGG	0.677													5	38					0.184627	0.184627	1	1	0		T	1283556	T	T	1283556	3	4	214	1	0	0	0	0	1	0	0	0	9997	1247	43	5		5	MUC5B	11	1283556	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	483179	1283556	133722960	468	106886											
BRSK2	9024	broad.mit.edu	37	chr11	1477636	1477636	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cttccgggccgagtacaaggCcacgggggggccagccgtgt	6	5	17	13	4	0	0	0	0	0	0	1	1	1	0	5	5	2	1	5	5	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:1477636C>A	uc001lti.2	+	17	2113	c.1727C>A	c.(1726-1728)GCC>GAC	p.A576D	BRSK2_uc009ycv.1_Missense_Mutation_p.A598D|BRSK2_uc001lth.1_Missense_Mutation_p.A576D|BRSK2_uc001ltj.2_Missense_Mutation_p.A576D|BRSK2_uc001ltk.2_RNA|BRSK2_uc001ltl.2_Missense_Mutation_p.A576D|BRSK2_uc001ltm.2_Missense_Mutation_p.A622D|BRSK2_uc001ltn.2_RNA|BRSK2_uc010qwx.1_RNA|BRSK2_uc009ycw.2_Missense_Mutation_p.A72D	NM_003957	NP_003948	Q8IWQ3	BRSK2_HUMAN	BR serine/threonine kinase 2	576					establishment of cell polarity|neuron differentiation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity				0		all_epithelial(84;4.17e-05)|Breast(177;0.000307)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00144)|Lung(200;0.0713)|LUSC - Lung squamous cell carcinoma(625;0.0842)		GAGTACAAGGCCACGGGGGGG	0.622													5	16					1.024e-07	1.11074e-07	1	1	0		A	1477636	A	A	1477636	3	1	214	1	0	0	0	0	1	0	0	0	1527	739	26	5	1793	5	BRSK2	11	1477636	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	194080	1477636	133528880	469	106887											
OR52D1	390066	broad.mit.edu	37	chr11	5510028	5510028	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggctgcccacttctggattgCcatccctttctgtgccatgt	4	14	9	14	0	2	0	0	0	2	0	3	1	3	1	4	2	3	1	4	2	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:5510028C>T	uc010qzg.1	+	1	92	c.92C>T	c.(91-93)GCC>GTC	p.A31V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005163	NP_001005163	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D,	31	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.46e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTCTGGATTGCCATCCCTTTC	0.502													18	93					0	0	1	0	0		T	5510028	T	T	5510028	3	4	214	1	0	0	0	0	1	0	0	0	11133	739	26	2	94	2	OR52D1	11	5510028	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4032392	5510028	129496488	470	106888											
OR56A3	390083	broad.mit.edu	37	chr11	5969479	5969479	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttacggggtgagaacccaAgaaattaagcagggaatgca	16	7	12	6	1	0	2	0	1	0	2	0	4	0	3	1	3	4	2	1	3	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:5969479A>T	uc010qzt.1	+	1	903	c.903A>T	c.(901-903)CAA>CAT	p.Q301H		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;9.41e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGAGAACCCAAGAAATTAAGC	0.418													45	60					0	0	1	0	0		T	5969479	T	T	5969479	3	4	214	1	0	0	0	0	1	0	0	0	11153	69	3	5	905	5	OR56A3	11	5969479	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	459451	5969479	129037037	471	106889											
OR56A4	120793	broad.mit.edu	37	chr11	6023669	6023669	+	Missense_Mutation	SNP	A	G	G	1	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	aagagagtttggacacagacAggttactgcagatgcagttc	13	9	12	7	0	0	3	0	0	0	3	1	5	0	4	0	2	3	5	0	2	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:6023669A>G	uc010qzv.1	-	1	710	c.710T>C	c.(709-711)CTG>CCG	p.L237P		NM_001005179	NP_001005179	Q8NGH8	O56A4_HUMAN	olfactory receptor, family 56, subfamily A,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2		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)		GGACACAGACAGGTTACTGCA	0.458													10	45					0	0	1	0	0		G	6023669	G	G	6023669	3	3	214	1	0	0	0	0	1	0	0	0	11154	188	7	3	389	3	OR56A4	11	6023669	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	54190	6023669	128982847	472	106890											
DCHS1	8642	broad.mit.edu	37	chr11	6662259	6662259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccatctggaccggggcGtgtctccagccggaaggtct	6	8	14	13	3	3	0	0	0	3	0	5	2	4	2	4	5	1	0	4	5	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:6662259G>A	uc001mem.1	-	2	996	c.586C>T	c.(586-588)CGC>TGC	p.R196C		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	196	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGACCGGGGCGTGTCTCCAGC	0.602													6	85					0	0	1	0	0		A	6662259	A	A	6662259	3	1	214	1	0	0	0	0	1	0	0	0	4290	1145	40	1	9390	1	DCHS1	11	6662259	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	638590	6662259	128344257	473	106891											
GALNTL4	374378	broad.mit.edu	37	chr11	11400810	11400810	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcagcttctccttcagttcCtctgtcagggagaaaatgca	9	12	9	11	0	5	1	3	0	2	1	7	2	6	1	2	1	2	3	2	1	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:11400810C>A	uc001mjo.2	-	4	1018	c.597G>T	c.(595-597)GAG>GAT	p.E199D		NM_198516	NP_940918	Q6P9A2	GLTL4_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	199	Lumenal (Potential).|Catalytic subdomain A.					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding				0				all cancers(16;3.67e-05)|Epithelial(150;0.000184)		CCTTCAGTTCCTCTGTCAGGG	0.532													5	56					0.014758	0.0150206	1	1	0		A	11400810	A	A	11400810	3	1	214	1	0	0	0	0	1	0	0	0	6238	695	24	5	1258	5	GALNTL4	11	11400810	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4738551	11400810	123605706	474	106892											
MICAL2	9645	broad.mit.edu	37	chr11	12225943	12225943	+	Silent	SNP	T	C	C	0	1	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	cctttcaccatccatgacctTcgtggcctgggagccaagaa	9	9	9	14	1	1	2	1	1	0	1	3	3	2	3	6	2	1	0	6	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:12225943T>C	uc001mjz.2	+	4	699	c.411T>C	c.(409-411)CTT>CTC	p.L137L	MICAL2_uc010rch.1_Silent_p.L137L|MICAL2_uc001mjy.2_Silent_p.L137L|MICAL2_uc001mka.2_Silent_p.L137L|MICAL2_uc010rci.1_Silent_p.L137L|MICAL2_uc001mkb.2_Silent_p.L137L|MICAL2_uc001mkc.2_Silent_p.L137L	NM_014632	NP_055447	O94851	MICA2_HUMAN	microtubule associated monoxygenase, calponin	137						cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding			upper_aerodigestive_tract(2)	2				Epithelial(150;0.00552)		TCCATGACCTTCGTGGCCTGG	0.547													9	91					0	0	1	0	0		C	12225943	C	C	12225943	2	2	214	1	0	0	0	0	0	0	0	1	9588	1770	62	3		3	MICAL2	11	12225943	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	825133	12225943	122780573	475	106893											
PDE3B	5140	broad.mit.edu	37	chr11	14793532	14793532	+	Missense_Mutation	SNP	A	T	T	1	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	atggtataagcctcattatcAagtaagtataattaatatct	16	15	5	5	0	3	0	2	0	1	0	3	0	3	0	1	1	1	3	1	1	9	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:14793532A>T	uc001mln.2	+	2	1381	c.1028A>T	c.(1027-1029)CAA>CTA	p.Q343L	PDE3B_uc001mlm.2_Missense_Mutation_p.Q343L|PDE3B_uc010rcr.1_Missense_Mutation_p.Q343L	NM_000922	NP_000913	Q13370	PDE3B_HUMAN	phosphodiesterase 3B	343					cAMP catabolic process|insulin receptor signaling pathway|negative regulation of lipid catabolic process|platelet activation	cytosol|endoplasmic reticulum|Golgi apparatus|guanyl-nucleotide exchange factor complex|integral to membrane|microsome	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding|protein kinase B binding				0						CCTCATTATCAAGTAAGTATA	0.269													6	41					0	0	1	0	0		T	14793532	T	T	14793532	3	4	214	1	0	0	0	0	1	0	0	0	11657	144	5	5	1034	5	PDE3B	11	14793532	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2567589	14793532	120212984	476	106894											
SLC6A5	9152	broad.mit.edu	37	chr11	20628577	20628577	+	Missense_Mutation	SNP	T	A	A	0	1	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	tttcctcatcccttacctgaTgatgctggctctggctggat	5	15	9	12	0	2	2	1	2	1	0	4	3	4	3	3	3	2	3	3	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:20628577T>A	uc001mqd.2	+	4	977	c.704T>A	c.(703-705)ATG>AAG	p.M235K	SLC6A5_uc009yic.2_5'UTR	NM_004211	NP_004202	Q9Y345	SC6A5_HUMAN	solute carrier family 6 (neurotransmitter	235	Helical; Name=2; (Potential).				synaptic transmission	integral to membrane|plasma membrane	glycine:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(2)|breast(1)|skin(1)	4					Glycine(DB00145)	CCTTACCTGATGATGCTGGCT	0.577													19	55					0	0	1	0	0		A	20628577	A	A	20628577	3	1	214	1	0	0	0	0	1	0	0	0	14712	1464	51	5	718	5	SLC6A5	11	20628577	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5835045	20628577	114377939	477	106895											
NELL1	4745	broad.mit.edu	37	chr11	21594807	21594807	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctatcttagaaggggaatGttgtccccgctgtgtcagtg	8	12	13	8	1	2	1	1	0	1	1	3	2	3	2	2	2	1	3	2	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:21594807G>A	uc001mqe.2	+	19	2387	c.2234G>A	c.(2233-2235)TGT>TAT	p.C745Y	NELL1_uc001mqf.2_Missense_Mutation_p.C698Y|NELL1_uc009yid.2_Missense_Mutation_p.C773Y|NELL1_uc010rdo.1_Missense_Mutation_p.C688Y|NELL1_uc010rdp.1_Missense_Mutation_p.C458Y|NELL1_uc001mqh.2_Missense_Mutation_p.C290Y	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	745	VWFC 4.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3						GAAGGGGAATGTTGTCCCCGC	0.483													17	67					0	0	1	0	0		A	21594807	A	A	21594807	3	1	214	1	0	0	0	0	1	0	0	0	10352	1377	48	4	2308	4	NELL1	11	21594807	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	966230	21594807	113411709	478	106896											
TCP11L1	55346	broad.mit.edu	37	chr11	33083248	33083248	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctgaagcttctgaagtgggaCcacctccagaggccgttccc	8	8	11	14	1	1	3	0	2	1	1	3	4	3	4	5	2	1	2	5	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:33083248C>T	uc001mud.2	+	7	1348	c.948C>T	c.(946-948)GAC>GAT	p.D316D	TCP11L1_uc009yju.2_Silent_p.D131D|TCP11L1_uc010rei.1_Silent_p.D316D|TCP11L1_uc001mue.2_Silent_p.D316D|TCP11L1_uc001muf.1_RNA	NM_018393	NP_060863	Q9NUJ3	T11L1_HUMAN	t-complex 11 (mouse) like 1	316											0						TGAAGTGGGACCACCTCCAGA	0.512													4	29					0	0	1	0	0		T	33083248	T	T	33083248	2	4	214	1	0	0	0	0	0	0	0	1	15739	506	18	4		4	TCP11L1	11	33083248	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	11488441	33083248	101923268	479	106897											
CHST1	8534	broad.mit.edu	37	chr11	45672305	45672305	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatgtgggtcttgcgggagaGgttgtaggcgaaggtggggc	6	9	22	4	2	1	1	0	0	1	1	1	4	1	1	0	7	1	2	0	7	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:45672305G>T	uc001mys.1	-	4	840	c.169C>A	c.(169-171)CTC>ATC	p.L57I		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	57	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		TTGCGGGAGAGGTTGTAGGCG	0.652													13	64					3.27435e-08	3.5607e-08	1	1	0		T	45672305	T	T	45672305	3	4	214	1	0	0	0	0	1	0	0	0	3400	1000	35	5	1070	5	CHST1	11	45672305	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	12589057	45672305	89334211	480	106898											
CKAP5	9793	broad.mit.edu	37	chr11	46812089	46812089	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggttccagtattccctgcGcctcctggtgcagctggttt	3	15	11	12	1	0	0	0	0	0	0	3	0	3	0	4	3	3	5	4	3	1	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:46812089G>A	uc001ndi.1	-	14	1805	c.1695C>T	c.(1693-1695)GGC>GGT	p.G565G	CKAP5_uc009ylg.1_Silent_p.G451G|CKAP5_uc001ndj.1_Silent_p.G565G	NM_001008938	NP_001008938	Q14008	CKAP5_HUMAN	colonic and hepatic tumor over-expressed protein	565					cell division|centrosome organization|establishment or maintenance of microtubule cytoskeleton polarity|G2/M transition of mitotic cell cycle|mitotic prometaphase|RNA transport|spindle organization	centrosome|cytosol	protein binding|protein binding			ovary(1)|skin(1)	2						TATTCCCTGCGCCTCCTGGTG	0.423													11	61					0	0	1	0	0		A	46812089	A	A	46812089	2	1	214	1	0	0	0	0	0	0	0	1	3448	1074	38	1		1	CKAP5	11	46812089	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1139784	46812089	88194427	481	106899											
OR4C13	283092	broad.mit.edu	37	chr11	49974000	49974000	+	Missense_Mutation	SNP	A	G	G	1	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	gaatagaaacaatgtgacagAgtttattctattggggctta	14	13	10	4	0	1	3	0	1	1	2	1	4	1	3	0	2	1	2	0	2	7	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:49974000A>G	uc010rhz.1	+	1	26	c.26A>G	c.(25-27)GAG>GGG	p.E9G		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						AATGTGACAGAGTTTATTCTA	0.299													22	49					0	0	1	0	0		G	49974000	G	G	49974000	3	3	214	1	0	0	0	0	1	0	0	0	11066	304	11	3	28	3	OR4C13	11	49974000	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3161911	49974000	85032516	482	106900											
OR4C12	283093	broad.mit.edu	37	chr11	50003299	50003299	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatacagggcacaaagaataAgacaactactatgatgtgag	18	8	9	6	0	0	4	0	2	0	2	0	4	0	4	0	1	3	1	0	1	8	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:50003299A>C	uc010ria.1	-	1	739	c.739T>G	c.(739-741)TTA>GTA	p.L247V		NM_001005270	NP_001005270	Q96R67	OR4CC_HUMAN	olfactory receptor, family 4, subfamily C,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						ACAAAGAATAAGACAACTACT	0.413													12	30					0	0	1	0	0		C	50003299	C	C	50003299	3	2	214	1	0	0	0	0	1	0	0	0	11065	69	3	5	194	5	OR4C12	11	50003299	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	29299	50003299	85003217	483	106901											
OR8K1	390157	broad.mit.edu	37	chr11	56113902	56113902	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caatggcctatgatcgctacGtagccatctgtaaacctctt	10	12	7	12	2	2	1	0	1	2	0	3	1	2	1	3	1	3	3	3	1	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:56113902G>A	uc010rjg.1	+	1	388	c.388G>A	c.(388-390)GTA>ATA	p.V130I		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TGATCGCTACGTAGCCATCTG	0.413										HNSCC(65;0.19)			9	157					0	0	1	0	0		A	56113902	A	A	56113902	3	1	214	1	0	0	0	0	1	0	0	0	11262	1145	40	1	390	1	OR8K1	11	56113902	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6110603	56113902	78892614	484	106902											
OR5R1	219479	broad.mit.edu	37	chr11	56184755	56184755	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taataaagttttcttattttTaaaaatgttaatatctgtaa	16	20	3	2	0	2	0	0	0	2	0	2	0	2	0	0	0	0	3	0	0	10	11	rs141438285		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:56184755T>A	uc010rji.1	-	1	954	c.954A>T	c.(952-954)TTA>TTT	p.L318F		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	318	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TTCTTATTTTTAAAAATGTTA	0.294													4	19					0	0	1	0	0		A	56184755	A	A	56184755	3	1	214	1	0	0	0	0	1	0	0	0	11199	1751	61	5	22	5	OR5R1	11	56184755	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	70853	56184755	78821761	485	106903											
OR5B2	390190	broad.mit.edu	37	chr11	58190401	58190401	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataggccattgaggccaacaAgtaattttccaccgtggcca	12	9	9	11	1	0	1	0	1	0	0	1	1	1	1	5	3	1	1	5	3	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:58190401A>T	uc010rkg.1	-	1	334	c.334T>A	c.(334-336)TTG>ATG	p.L112M		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	112	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				GAGGCCAACAAGTAATTTTCC	0.527													33	71					0	0	1	0	0		T	58190401	T	T	58190401	3	4	214	1	0	0	0	0	1	0	0	0	11169	69	3	5	599	5	OR5B2	11	58190401	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2005646	58190401	76816115	486	106904											
DAGLA	747	broad.mit.edu	37	chr11	61490943	61490943	+	Silent	SNP	G	A	A	0	0	1	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	tgggtagtcatcctcagtgtGtgcatcactgtcctctgcgt	5	14	11	11	1	4	0	3	0	1	0	6	0	6	0	2	1	2	2	2	1	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:61490943G>A	uc001nsa.2	+	5	558	c.447G>A	c.(445-447)GTG>GTA	p.V149V		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	149	Helical; (Potential).				cell death|lipid catabolic process|platelet activation	integral to membrane|plasma membrane	acylglycerol lipase activity|metal ion binding|triglyceride lipase activity			ovary(2)|central_nervous_system(1)	3				READ - Rectum adenocarcinoma(4;0.219)		TCCTCAGTGTGTGCATCACTG	0.612													19	116					0	0	1	0	0		A	61490943	A	A	61490943	2	1	214	1	0	0	0	0	0	0	0	1	4229	1364	48	4		4	DAGLA	11	61490943	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3300542	61490943	73515573	487	106905											
TUT1	64852	broad.mit.edu	37	chr11	62358925	62358925	+	Silent	SNP	C	T	T	0	0	0	1	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	cagcggaaccccccacgcggCagcgattcgacatccgaatc	10	4	10	17	6	0	0	0	0	0	0	3	4	1	1	4	2	3	1	4	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:62358925C>T	uc001nto.2	-	1	185	c.147G>A	c.(145-147)CTG>CTA	p.L49L		NM_022830	NP_073741	Q9H6E5	STPAP_HUMAN	terminal uridylyl transferase 1, U6	11					mRNA cleavage|mRNA polyadenylation|snRNA processing	nuclear speck|nucleolus	ATP binding|enzyme binding|mRNA 3'-UTR binding|polynucleotide adenylyltransferase activity|RNA uridylyltransferase activity|zinc ion binding			central_nervous_system(1)|skin(1)	2						CCCCACGCGGCAGCGATTCGA	0.612													12	57					0	0	1	0	0		T	62358925	T	T	62358925	2	4	214	1	0	0	0	0	0	0	0	1	16806	697	25	2		2	TUT1	11	62358925	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	867982	62358925	72647591	488	106906											
C11orf68	83638	broad.mit.edu	37	chr11	65685438	65685438	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	agttggggctgtagccctgcCcatacactgcaatccagccc	8	8	10	15	0	0	0	0	0	0	0	1	0	1	0	4	2	5	4	4	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:65685438C>A	uc001ogi.2	-	2	403	c.374G>T	c.(373-375)GGG>GTG	p.G125V	C11orf68_uc009yqv.2_Missense_Mutation_p.G124V|DRAP1_uc001ogj.1_5'Flank	NM_001135635	NP_001129107	Q9H3H3	CK068_HUMAN	basophilic leukemia expressed protein BLES03	83											0				READ - Rectum adenocarcinoma(159;0.166)		GTAGCCCTGCCCATACACTGC	0.657													12	40					1.61879e-10	1.7968e-10	1	1	0		A	65685438	A	A	65685438	3	1	214	1	0	0	0	0	1	0	0	0	1661	623	22	5	511	5	C11orf68	11	65685438	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3326513	65685438	69321078	489	106907											
RBM4	5936	broad.mit.edu	37	chr11	66407488	66407488	+	Silent	SNP	T	C	C	0	1	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	gccaagtttgaggagtatggTccggtcatcgaatgtgacat	10	11	13	7	2	1	2	1	2	0	0	3	4	2	3	2	3	0	2	2	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:66407488T>C	uc009yrj.2	+	2	794	c.306T>C	c.(304-306)GGT>GGC	p.G102G	RBM4_uc009yrk.2_Intron|RBM4_uc001oiv.2_Silent_p.G102G|RBM4_uc001oiw.1_Silent_p.G102G|RBM4_uc001oix.1_Silent_p.G102G|RBM4_uc010rpj.1_Silent_p.G102G|RBM4_uc001oiy.1_Silent_p.G102G|RBM4_uc001oiz.1_Silent_p.G102G	NM_002896	NP_002887	Q9BWF3	RBM4_HUMAN	RNA binding motif protein 4	102	RRM 2.				circadian regulation of gene expression|entrainment of circadian clock by photoperiod|mRNA processing|negative regulation of translation in response to stress|negative regulation of translation involved in gene silencing by miRNA|negative regulation of translational initiation|positive regulation of muscle cell differentiation|regulation of alternative nuclear mRNA splicing, via spliceosome|regulation of nucleocytoplasmic transport|RNA splicing|stress-activated MAPK cascade	nuclear speck|nucleolus|stress granule	miRNA binding|mRNA 3'-UTR binding|nucleotide binding|protein binding|zinc ion binding			ovary(1)	1				Lung(977;0.0112)|LUSC - Lung squamous cell carcinoma(976;0.0266)		AGGAGTATGGTCCGGTCATCG	0.502													18	163					0	0	1	0	0		C	66407488	C	C	66407488	2	2	214	1	0	0	0	0	0	0	0	1	13159	1654	58	3		3	RBM4	11	66407488	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	722050	66407488	68599028	490	106908											
KDM2A	22992	broad.mit.edu	37	chr11	67018182	67018182	+	Missense_Mutation	SNP	A	G	G	1	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	tggagacgaaagctggatgcAgcgggaggtctggatgtctg	9	8	18	6	2	2	1	0	0	2	1	2	6	2	4	0	5	3	2	0	5	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:67018182A>G	uc001ojw.2	+	17	3545	c.2681A>G	c.(2680-2682)CAG>CGG	p.Q894R	KDM2A_uc001ojx.2_Intron|KDM2A_uc001ojy.2_Missense_Mutation_p.Q588R|KDM2A_uc010rpn.1_Missense_Mutation_p.Q455R|KDM2A_uc001ojz.1_Missense_Mutation_p.Q352R|KDM2A_uc001oka.2_5'Flank	NM_012308	NP_036440	Q9Y2K7	KDM2A_HUMAN	F-box and leucine-rich repeat protein 11	894	F-box.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|histone demethylase activity (H3-K36 specific)|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|protein binding|zinc ion binding			ovary(4)|lung(3)|breast(1)|skin(1)	9						AGCTGGATGCAGCGGGAGGTC	0.512													5	85					0	0	1	0	0		G	67018182	G	G	67018182	3	3	214	1	0	0	0	0	1	0	0	0	8140	188	7	3	2743	3	KDM2A	11	67018182	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	610694	67018182	67988334	491	106909											
SSH3	54961	broad.mit.edu	37	chr11	67076921	67076921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacaacttctaccctgagcGcttcacctaccacaatgtgc	10	10	6	15	1	2	2	1	2	1	0	2	2	2	2	3	0	5	1	3	0	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:67076921G>A	uc001okj.2	+	11	1293	c.1115G>A	c.(1114-1116)CGC>CAC	p.R372H	SSH3_uc001okk.2_RNA|SSH3_uc001okl.2_Missense_Mutation_p.R226H	NM_017857	NP_060327	Q8TE77	SSH3_HUMAN	slingshot homolog 3	372	Tyrosine-protein phosphatase.				regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of lamellipodium assembly	cytoplasm|cytoskeleton|nucleus	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)			TACCCTGAGCGCTTCACCTAC	0.612													6	92					0	0	1	0	0		A	67076921	A	A	67076921	3	1	214	1	0	0	0	0	1	0	0	0	15211	1087	38	1	1157	1	SSH3	11	67076921	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	58739	67076921	67929595	492	106910											
PITPNM1	9600	broad.mit.edu	37	chr11	67270120	67270120	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgctgcccccgggcccatCcgtgtagggccggttggcca	3	6	14	18	4	0	0	0	0	0	0	1	0	1	0	7	4	1	3	7	4	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:67270120C>A	uc001olx.2	-	2	337	c.148G>T	c.(148-150)GAT>TAT	p.D50Y	PITPNM1_uc001oly.2_Missense_Mutation_p.D50Y|PITPNM1_uc001olz.2_Missense_Mutation_p.D50Y	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	50					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						CCGGGCCCATCCGTGTAGGGC	0.662													10	94					1.08611e-07	1.17662e-07	1	1	0		A	67270120	A	A	67270120	3	1	214	1	0	0	0	0	1	0	0	0	11969	855	30	5	3674	5	PITPNM1	11	67270120	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	193199	67270120	67736396	493	106911											
PITPNM1	9600	broad.mit.edu	37	chr11	67270134	67270134	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcccatccgtgtagggccggTtggccaggatctccacgccg	5	7	14	15	4	1	0	0	0	1	0	3	1	2	1	6	4	0	2	6	4	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:67270134T>G	uc001olx.2	-	2	323	c.134A>C	c.(133-135)AAC>ACC	p.N45T	PITPNM1_uc001oly.2_Missense_Mutation_p.N45T|PITPNM1_uc001olz.2_Missense_Mutation_p.N45T	NM_004910	NP_004901	O00562	PITM1_HUMAN	phosphatidylinositol transfer protein,	45					brain development|lipid metabolic process|phototransduction|protein transport	cleavage furrow|endoplasmic reticulum membrane|Golgi cisterna membrane|lipid particle|membrane fraction|midbody	metal ion binding|phosphatidylinositol transporter activity			lung(2)|central_nervous_system(1)	3						GTAGGGCCGGTTGGCCAGGAT	0.657													6	94					0	0	1	0	0		G	67270134	G	G	67270134	3	3	214	1	0	0	0	0	1	0	0	0	11969	1725	60	5	3688	5	PITPNM1	11	67270134	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	14	67270134	67736382	494	106912											
CTTN	2017	broad.mit.edu	37	chr11	70253656	70253656	+	Silent	SNP	T	C	C	0	1	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	gagaaggagcaaagatggggTgccaagacggtgcagggctc	12	4	18	7	1	0	3	0	0	0	3	1	5	0	4	1	5	3	3	1	5	3	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:70253656T>C	uc001opv.3	+	4	326	c.120T>C	c.(118-120)GGT>GGC	p.G40G	CTTN_uc001opu.2_Silent_p.G40G|CTTN_uc001opw.3_Silent_p.G40G	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	40						cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		AAAGATGGGGTGCCAAGACGG	0.572													20	104					0	0	1	0	0		C	70253656	C	C	70253656	2	2	214	1	0	0	0	0	0	0	0	1	4047	1683	59	3		3	CTTN	11	70253656	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2983522	70253656	64752860	495	106913											
RNF169	254225	broad.mit.edu	37	chr11	74546898	74546898	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tccacgcaacctaaacagaaGcctgcagaagcagacttctt	14	7	7	13	1	1	3	0	0	1	3	2	3	2	3	3	0	5	3	3	0	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:74546898G>A	uc001ovl.3	+	6	1263	c.1250G>A	c.(1249-1251)AGC>AAC	p.S417N	XRRA1_uc001ovm.2_Intron	NM_001098638	NP_001092108	Q8NCN4	RN169_HUMAN	ring finger protein 169	417							zinc ion binding			ovary(1)	1						CTAAACAGAAGCCTGCAGAAG	0.498													8	120					0	0	1	0	0		A	74546898	A	A	74546898	3	1	214	1	0	0	0	0	1	0	0	0	13485	971	34	2	1272	2	RNF169	11	74546898	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4293242	74546898	60459618	496	106914											
NEU3	10825	broad.mit.edu	37	chr11	74716711	74716711	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggtcattggctcagagctgaAgcactgggccacatttgctg	8	10	13	10	0	2	2	2	1	0	1	2	2	2	2	1	3	3	4	1	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:74716711A>G	uc001ovw.2	+	3	716	c.560A>G	c.(559-561)AAG>AGG	p.K187R	NEU3_uc001ovv.2_Missense_Mutation_p.K177R|NEU3_uc010rrl.1_Missense_Mutation_p.K78R	NM_006656	NP_006647	A8K327	A8K327_HUMAN	sialidase 3	187										ovary(2)	2						TCAGAGCTGAAGCACTGGGCC	0.552													13	114					0	0	1	0	0		G	74716711	G	G	74716711	3	3	214	1	0	0	0	0	1	0	0	0	10362	72	3	3	570	3	NEU3	11	74716711	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	169813	74716711	60289805	497	106915											
POU2AF1	5450	broad.mit.edu	37	chr11	111229625	111229625	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	atggccgggccggggctgggGcttgctccggagctgtggct	2	8	20	11	3	0	0	0	0	0	0	1	1	1	1	3	8	2	5	3	8	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:111229625G>A	uc001plg.3	-	2	290	c.35C>T	c.(34-36)GCC>GTC	p.A12V		NM_006235	NP_006226	Q16633	OBF1_HUMAN	POU class 2 associating factor 1	12					humoral immune response|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			kidney(1)	1		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)		CGGGGCTGGGGCTTGCTCCGG	0.632			T	BCL6	NHL								4	40					0	0	1	0	0		A	111229625	A	A	111229625	3	1	214	1	0	0	0	0	1	0	0	0	12289	1203	42	2	751	2	POU2AF1	11	111229625	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	36512914	111229625	23776891	498	106916											
ZW10	9183	broad.mit.edu	37	chr11	113630950	113630950	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccttttgatggtgggaacttCcatacaatcagcttctgcca	9	13	8	11	0	2	1	1	1	1	0	3	2	3	2	3	2	4	1	3	2	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:113630950C>A	uc001poe.2	-	5	598	c.561G>T	c.(559-561)TGG>TGT	p.W187C	ZW10_uc009yyv.2_RNA	NM_004724	NP_004715	O43264	ZW10_HUMAN	centromere/kinetochore protein zw10	187	Interaction with RINT1.				cell division|ER to Golgi vesicle-mediated transport|establishment of mitotic spindle orientation|meiosis|mitotic cell cycle checkpoint|mitotic metaphase plate congression|mitotic prometaphase|protein complex assembly|protein localization to kinetochore|protein transport|regulation of exit from mitosis	condensed chromosome kinetochore|cytosol|endoplasmic reticulum membrane|kinetochore microtubule|nucleus|spindle pole	centromeric DNA binding|protein binding			central_nervous_system(1)|skin(1)	2		all_cancers(61;3.84e-16)|all_epithelial(67;1e-09)|Melanoma(852;1.46e-05)|all_hematologic(158;0.000237)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0101)|all_neural(223;0.0281)|Prostate(24;0.0421)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;2.94e-06)|Epithelial(105;0.000103)|all cancers(92;0.000786)		GTGGGAACTTCCATACAATCA	0.398													7	54					0.000673444	0.000702938	1	1	0		A	113630950	A	A	113630950	3	1	214	1	0	0	0	0	1	0	0	0	18272	856	30	5	1826	5	ZW10	11	113630950	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2401325	113630950	21375566	499	106917											
FAM55D	54827	broad.mit.edu	37	chr11	114453402	114453402	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctgaagcacctgccatcagCgctggggaagacatcctggc	9	6	12	14	1	1	2	1	1	0	1	2	3	2	3	4	3	3	2	4	3	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:114453402C>T	uc001ppc.2	-	3	619	c.438G>A	c.(436-438)GCG>GCA	p.A146A	FAM55D_uc001ppd.2_Intron	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1	146						extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		CTGCCATCAGCGCTGGGGAAG	0.592													8	35					0	0	1	0	0		T	114453402	T	T	114453402	2	4	214	1	0	0	0	0	0	0	0	1	5601	755	27	1		1	FAM55D	11	114453402	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	822452	114453402	20553114	500	106918											
DSCAML1	57453	broad.mit.edu	37	chr11	117374715	117374715	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagtgaggggcacagggtggTactgctgggggttcccgctc	5	8	18	10	1	0	1	0	1	0	0	2	1	1	1	1	6	2	5	1	6	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:117374715T>C	uc001prh.1	-	11	2386	c.2384A>G	c.(2383-2385)TAC>TGC	p.Y795C		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	735	Extracellular (Potential).|Ig-like C2-type 8.				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		CACAGGGTGGTACTGCTGGGG	0.632													16	55					0	0	1	0	0		C	117374715	C	C	117374715	3	2	214	1	0	0	0	0	1	0	0	0	4775	1638	57	3	4049	3	DSCAML1	11	117374715	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2921313	117374715	17631801	501	106919											
MLL	4297	broad.mit.edu	37	chr11	118371815	118371815	+	Missense_Mutation	SNP	A	G	G	1	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	ggatatcaacagcactgttgAacatgatgaaaacaggacca	17	7	9	8	0	1	3	1	3	0	0	1	5	1	5	1	2	4	2	1	2	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:118371815A>G	uc001pta.2	+	25	6286	c.6263A>G	c.(6262-6264)GAA>GGA	p.E2088G	MLL_uc001ptb.2_Missense_Mutation_p.E2091G	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	2088					apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AGCACTGTTGAACATGATGAA	0.408			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								8	76					0	0	1	0	0		G	118371815	G	G	118371815	3	3	214	1	0	0	0	0	1	0	0	0	9638	246	9	3	6361	3	MLL	11	118371815	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	997100	118371815	16634701	502	106920											
BCL9L	283149	broad.mit.edu	37	chr11	118769523	118769523	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccgagagggagtctgctcCgccatcatgttctgcaggtt	6	10	14	11	2	3	1	1	0	2	1	4	3	4	2	3	3	2	4	3	3	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:118769523C>T	uc001pug.2	-	8	5066	c.4101G>A	c.(4099-4101)GCG>GCA	p.A1367A	BCL9L_uc009zal.2_Silent_p.A1362A	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1367	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GAGTCTGCTCCGCCATCATGT	0.622													4	59					0	0	1	0	0		T	118769523	T	T	118769523	2	4	214	1	0	0	0	0	0	0	0	1	1383	639	23	1		1	BCL9L	11	118769523	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	397708	118769523	16236993	503	106921											
BCL9L	283149	broad.mit.edu	37	chr11	118779232	118779232	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tggtgctgagattgggccccGccattccctgtcttgccatg	4	12	12	13	1	1	1	0	1	1	1	2	2	2	1	5	2	2	1	5	2	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:118779232G>A	uc001pug.2	-	2	1124	c.159C>T	c.(157-159)GGC>GGT	p.G53G	BCL9L_uc009zal.2_Silent_p.G48G	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	53					negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		ATTGGGCCCCGCCATTCCCTG	0.632													9	144					0	0	1	0	0		A	118779232	A	A	118779232	2	1	214	1	0	0	0	0	0	0	0	1	1383	1074	38	1		1	BCL9L	11	118779232	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	9709	118779232	16227284	504	106922											
ABCG4	64137	broad.mit.edu	37	chr11	119031359	119031359	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatggagctcctatctctccTatgtcaggtcagtacccctg	8	12	8	13	0	3	0	2	0	1	0	6	1	5	1	4	2	2	2	4	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:119031359T>C	uc001pvs.2	+	14	2044	c.1708T>C	c.(1708-1710)TAT>CAT	p.Y570H	ABCG4_uc009zar.2_Missense_Mutation_p.Y570H	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	570	Extracellular (Potential).|ABC transmembrane type-2.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CTATCTCTCCTATGTCAGGTC	0.587													35	236					0	0	1	0	0		C	119031359	C	C	119031359	3	2	214	1	0	0	0	0	1	0	0	0	70	1522	53	3	1758	3	ABCG4	11	119031359	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	252127	119031359	15975157	505	106923											
TECTA	7007	broad.mit.edu	37	chr11	120983879	120983879	+	Silent	SNP	C	T	T	0	0	0	1	1	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	accacggggacggcgagtggCggcgaccccctgacaggtct	7	4	16	14	5	1	1	0	1	1	0	1	4	1	2	3	6	0	0	3	6	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:120983879C>T	uc010rzo.1	+	4	585	c.585C>T	c.(583-585)GGC>GGT	p.G195G		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	195	NIDO.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CGGCGAGTGGCGGCGACCCCC	0.577											OREG0021430	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	85					0	0	1	0	0		T	120983879	T	T	120983879	2	4	214	1	0	0	0	0	0	0	0	1	15772	755	27	1		1	TECTA	11	120983879	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1952520	120983879	14022637	506	106924											
TECTA	7007	broad.mit.edu	37	chr11	120998992	120998992	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acctgcttggctgcggggacTtcggatcctggtggccgacc	4	9	15	13	3	0	0	0	0	0	0	2	3	1	2	4	6	2	2	4	6	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:120998992T>A	uc010rzo.1	+	8	2306	c.2306T>A	c.(2305-2307)CTT>CAT	p.L769H		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	769	VWFD 2.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CTGCGGGGACTTCGGATCCTG	0.582													15	52					0	0	1	0	0		A	120998992	A	A	120998992	3	1	214	1	0	0	0	0	1	0	0	0	15772	1609	56	5	2336	5	TECTA	11	120998992	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	15113	120998992	14007524	507	106925											
C11orf63	79864	broad.mit.edu	37	chr11	122756782	122756782	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atggagcccgacagcttagaCgaggaggaaagccctcgatg	12	5	14	10	3	0	1	0	0	0	1	1	7	0	4	2	3	3	1	2	3	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:122756782C>T	uc001pym.2	+	2	522	c.225C>T	c.(223-225)GAC>GAT	p.D75D	C11orf63_uc001pyl.1_Silent_p.D75D	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	75										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		ACAGCTTAGACGAGGAGGAAA	0.532													71	81					0	0	1	0	0		T	122756782	T	T	122756782	2	4	214	1	0	0	0	0	0	0	0	1	1657	535	19	1		1	C11orf63	11	122756782	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1757790	122756782	12249734	508	106926											
C11orf63	79864	broad.mit.edu	37	chr11	122774668	122774668	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agacaaatattcagacctccGctatgacccgaactggaaga	15	7	8	11	2	1	4	1	1	0	3	2	6	2	5	3	1	1	1	3	1	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:122774668G>A	uc001pym.2	+	3	677	c.380G>A	c.(379-381)CGC>CAC	p.R127H	C11orf63_uc001pyl.1_Missense_Mutation_p.R127H	NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	127										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		TCAGACCTCCGCTATGACCCG	0.458													36	229					0	0	1	0	0		A	122774668	A	A	122774668	3	1	214	1	0	0	0	0	1	0	0	0	1657	1087	38	1	386	1	C11orf63	11	122774668	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	17886	122774668	12231848	509	106927											
OR10G9	219870	broad.mit.edu	37	chr11	123894413	123894413	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tgcggatccacacctcagagGggaggcacagagcctttcag	10	6	13	12	1	2	2	2	0	0	2	3	4	3	4	3	4	2	1	3	4	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:123894413G>T	uc010sad.1	+	1	694	c.694G>T	c.(694-696)GGG>TGG	p.G232W		NM_001001953	NP_001001953	Q8NGN4	O10G9_HUMAN	olfactory receptor, family 10, subfamily G,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)		CACCTCAGAGGGGAGGCACAG	0.537													7	94					3.86212e-05	4.08594e-05	1	1	0		T	123894413	T	T	123894413	3	4	214	1	0	0	0	0	1	0	0	0	10923	1232	43	5	696	5	OR10G9	11	123894413	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1119745	123894413	11112103	510	106928											
CDON	50937	broad.mit.edu	37	chr11	125851195	125851195	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccgttcatatctgatcCttggtagagatatcctggtg	7	14	10	10	1	2	2	1	1	1	1	4	3	4	2	3	2	1	2	3	2	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:125851195C>A	uc009zbw.2	-	17	3153	c.3025G>T	c.(3025-3027)GGA>TGA	p.G1009*	CDON_uc001qdb.3_Nonsense_Mutation_p.G386*|CDON_uc001qdc.3_Nonsense_Mutation_p.G1009*	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	1009	Cytoplasmic (Potential).				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		ATATCTGATCCTTGGTAGAGA	0.338													9	86					7.48243e-07	8.04502e-07	1	1	0		A	125851195	A	A	125851195	4	1	214	1	0	0	0	0	0	1	0	0	3173	690	24	5	785	5	CDON	11	125851195	Nonsense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1956782	125851195	9155321	511	106929											
SRPR	6734	broad.mit.edu	37	chr11	126136744	126136744	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctttggaaagttctactccGttctcaggacccactggaag	9	12	9	11	1	3	0	1	0	3	0	5	3	4	3	2	3	1	2	2	3	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:126136744G>A	uc001qdh.2	-	5	651	c.600C>T	c.(598-600)AAC>AAT	p.N200N	SRPR_uc010sbm.1_Silent_p.N172N|FOXRED1_uc001qdi.2_5'Flank|FOXRED1_uc010sbn.1_5'Flank|FOXRED1_uc010sbo.1_5'Flank|FOXRED1_uc010sbp.1_5'Flank|FOXRED1_uc010sbq.1_5'Flank|FOXRED1_uc001qdj.2_5'Flank|FOXRED1_uc010sbr.1_5'Flank	NM_003139	NP_003130	P08240	SRPR_HUMAN	signal recognition particle receptor	200					SRP-dependent cotranslational protein targeting to membrane	integral to membrane|signal recognition particle receptor complex	GTP binding|GTPase activity|receptor activity|signal recognition particle binding				0	all_hematologic(175;0.145)			BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0736)		GTTCTACTCCGTTCTCAGGAC	0.507													15	111					0	0	1	0	0		A	126136744	A	A	126136744	2	1	214	1	0	0	0	0	0	0	0	1	15187	1136	40	1		1	SRPR	11	126136744	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	285549	126136744	8869772	512	106930											
ST3GAL4	6484	broad.mit.edu	37	chr11	126278372	126278372	+	Missense_Mutation	SNP	T	C	C	0	1	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	cttccactggattgagaccaTcctgagtgataagaagcggg	11	9	12	9	1	0	4	0	3	0	2	2	6	2	5	3	2	1	0	3	2	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:126278372T>C	uc001qds.2	+	8	827	c.608T>C	c.(607-609)ATC>ACC	p.I203T	ST3GAL4_uc001qdt.2_Missense_Mutation_p.I199T|ST3GAL4_uc009zcc.2_Missense_Mutation_p.I39T|ST3GAL4_uc009zcd.2_Missense_Mutation_p.I192T|ST3GAL4_uc001qdu.2_Missense_Mutation_p.I199T|ST3GAL4_uc001qdv.2_Missense_Mutation_p.I203T|ST3GAL4_uc009zce.2_Missense_Mutation_p.I199T|ST3GAL4_uc001qdw.2_Missense_Mutation_p.I192T|ST3GAL4_uc001qdx.1_Missense_Mutation_p.I160T|ST3GAL4_uc001qdy.2_Missense_Mutation_p.I39T|ST3GAL4_uc001qdz.2_Missense_Mutation_p.I39T	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	203	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		ATTGAGACCATCCTGAGTGAT	0.572													3	43					0	0	1	0	0		C	126278372	C	C	126278372	3	2	214	1	0	0	0	0	1	0	0	0	15242	1435	50	3	622	3	ST3GAL4	11	126278372	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	141628	126278372	8728144	513	106931											
TP53AIP1	63970	broad.mit.edu	37	chr11	128807638	128807638	+	Silent	SNP	T	G	G	0	1	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	cgagaggttctggtctccccTgcccaggccctgcctcctgg	3	9	12	17	1	2	1	0	0	2	1	4	2	3	1	6	4	2	1	6	4	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr11:128807638T>G	uc001qey.2	-	2	286	c.76A>C	c.(76-78)AGG>CGG	p.R26R	TP53AIP1_uc001qex.2_Silent_p.R26R|TP53AIP1_uc009zcm.1_RNA			Q9HCN2	TPIP1_HUMAN	RecName: Full=p53-regulated apoptosis-inducing protein 1;          Short=p53AIP1;	26					apoptosis	mitochondrion				lung(1)	1						TGGTCTCCCCTGCCCAGGCCC	0.602													5	106					0	0	1	0	0		G	128807638	G	G	128807638	2	3	214	1	0	0	0	0	0	0	0	1	16408	1579	55	5		5	TP53AIP1	11	128807638	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2529266	128807638	6198878	514	106932											
SLC6A13	6540	broad.mit.edu	37	chr12	333661	333661	+	Missense_Mutation	SNP	A	G	G	1	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	ccacagcccgcgggtaagcgAtgaaagccaggccagggcct	10	3	14	14	3	0	1	0	1	0	0	0	2	0	1	5	3	3	1	5	3	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:333661A>G	uc001qic.1	-	10	1132	c.1079T>C	c.(1078-1080)ATC>ACC	p.I360T	SLC6A13_uc009zdj.1_Missense_Mutation_p.I350T|SLC6A13_uc010sdl.1_Missense_Mutation_p.I268T	NM_016615	NP_057699	Q9NSD5	S6A13_HUMAN	solute carrier family 6 (neurotransmitter	360					neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity				0	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)			CGGGTAAGCGATGAAAGCCAG	0.627													5	39					0	0	1	0	0		G	333661	G	G	333661	3	3	214	1	0	0	0	0	1	0	0	0	14701	333	12	3	753	3	SLC6A13	12	333661	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		333661	133518234	515	106933											
CACNA1C	775	broad.mit.edu	37	chr12	2795367	2795367	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tccacctggaatgtctgaagCgacagaaggaccgaggggga	12	5	15	9	2	1	2	0	1	1	1	2	7	2	5	3	4	1	0	3	4	3	0	rs78593627		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:2795367C>T	uc009zdu.1	+	48	6278	c.5965C>T	c.(5965-5967)CGA>TGA	p.R1989*	CACNA1C_uc009zdv.1_Nonsense_Mutation_p.R1903*|CACNA1C_uc001qkb.2_Nonsense_Mutation_p.R1906*|CACNA1C_uc001qkc.2_Nonsense_Mutation_p.R1925*|CACNA1C_uc001qke.2_Nonsense_Mutation_p.R1895*|CACNA1C_uc001qkf.2_Nonsense_Mutation_p.R1914*|CACNA1C_uc001qjz.2_Nonsense_Mutation_p.R1906*|CACNA1C_uc001qkd.2_Nonsense_Mutation_p.R1925*|CACNA1C_uc001qkg.2_Nonsense_Mutation_p.R1912*|CACNA1C_uc009zdw.1_Nonsense_Mutation_p.R1947*|CACNA1C_uc001qkh.2_Nonsense_Mutation_p.R1914*|CACNA1C_uc001qkl.2_Nonsense_Mutation_p.R1954*|CACNA1C_uc001qkn.2_Nonsense_Mutation_p.R1906*|CACNA1C_uc001qko.2_Nonsense_Mutation_p.R1926*|CACNA1C_uc001qkp.2_Nonsense_Mutation_p.R1906*|CACNA1C_uc001qkr.2_Nonsense_Mutation_p.R1923*|CACNA1C_uc001qku.2_Nonsense_Mutation_p.R1941*|CACNA1C_uc001qkq.2_Nonsense_Mutation_p.R1934*|CACNA1C_uc001qks.2_Nonsense_Mutation_p.R1906*|CACNA1C_uc001qkt.2_Nonsense_Mutation_p.R1925*|CACNA1C_uc001qki.1_Nonsense_Mutation_p.R1713*|CACNA1C_uc001qkj.1_Nonsense_Mutation_p.R1677*|CACNA1C_uc001qkk.1_Nonsense_Mutation_p.R1642*|CACNA1C_uc001qkm.1_Nonsense_Mutation_p.R1702*|CACNA1C_uc010sea.1_Nonsense_Mutation_p.R597*|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Nonsense_Mutation_p.R224*	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1989	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	ATGTCTGAAGCGACAGAAGGA	0.557													4	76					0	0	1	0	0		T	2795367	T	T	2795367	4	4	214	1	0	0	0	0	0	1	0	0	2543	760	27	1	6603	1	CACNA1C	12	2795367	Nonsense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2461706	2795367	131056528	516	106934											
ENO2	2026	broad.mit.edu	37	chr12	7031296	7031296	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgaggacacattcattgCtgacctggtggtggggctgt	7	11	15	8	0	1	2	1	2	0	0	1	4	1	3	1	5	1	2	1	5	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:7031296C>T	uc001qru.1	+	10	1367	c.1145C>T	c.(1144-1146)GCT>GTT	p.A382V	ENO2_uc009zfi.1_Missense_Mutation_p.A382V|ENO2_uc010sfq.1_Missense_Mutation_p.A339V|ENO2_uc001qrv.1_Missense_Mutation_p.A382V|ATN1_uc001qrw.1_5'Flank	NM_001975	NP_001966	P09104	ENOG_HUMAN	enolase 2	382					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex|plasma membrane	magnesium ion binding|phosphopyruvate hydratase activity				0						ACATTCATTGCTGACCTGGTG	0.567													9	47					0	0	1	0	0		T	7031296	T	T	7031296	3	4	214	1	0	0	0	0	1	0	0	0	5130	797	28	2	1179	2	ENO2	12	7031296	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4235929	7031296	126820599	517	106935											
RIMKLB	57494	broad.mit.edu	37	chr12	8904616	8904616	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tctggagttcccaatggtagTaaagaatacgcggggtcaca	12	9	12	8	2	2	1	1	0	1	1	3	2	3	2	1	4	1	3	1	4	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:8904616T>G	uc001quu.2	+	4	721	c.470T>G	c.(469-471)GTA>GGA	p.V157G	RIMKLB_uc009zgf.1_RNA|RIMKLB_uc001qux.2_Missense_Mutation_p.V157G|RIMKLB_uc010sgl.1_Missense_Mutation_p.V157G|RIMKLB_uc001quw.2_Missense_Mutation_p.V157G	NM_020734	NP_065785	Q9ULI2	RIMKB_HUMAN	ribosomal modification protein rimK-like family	157	ATP-grasp.|ATP (By similarity).				protein modification process	cytoplasm	acid-amino acid ligase activity|ATP binding|metal ion binding				0						CCAATGGTAGTAAAGAATACG	0.363													21	93					0	0	1	0	0		G	8904616	G	G	8904616	3	3	214	1	0	0	0	0	1	0	0	0	13391	1638	57	5	480	5	RIMKLB	12	8904616	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1873320	8904616	124947279	518	106936											
STYK1	55359	broad.mit.edu	37	chr12	10786645	10786645	+	Missense_Mutation	SNP	A	G	G	1	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	ctctgataaaaagccacaggAtgaccccaagaaggatgagg	16	5	11	9	0	1	4	0	3	1	1	1	6	1	6	3	3	1	0	3	3	5	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:10786645A>G	uc001qys.2	-	4	652	c.131T>C	c.(130-132)ATC>ACC	p.I44T		NM_018423	NP_060893	Q6J9G0	STYK1_HUMAN	serine/threonine/tyrosine kinase 1	44	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8						AAGCCACAGGATGACCCCAAG	0.473										HNSCC(73;0.22)			14	149					0	0	1	0	0		G	10786645	G	G	10786645	3	3	214	1	0	0	0	0	1	0	0	0	15384	333	12	3	1169	3	STYK1	12	10786645	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1882029	10786645	123065250	519	106937											
PDE6H	5149	broad.mit.edu	37	chr12	15130994	15130994	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccagcttcaaaccagggtccTaccaccccacgcaaaggccc	11	4	7	19	1	1	0	1	0	0	0	2	0	2	0	7	2	3	2	7	2	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:15130994T>C	uc001rcr.2	+	2	132	c.48T>C	c.(46-48)CCT>CCC	p.P16P		NM_006205	NP_006196	Q13956	CNCG_HUMAN	phosphodiesterase 6H	16					visual perception		3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|enzyme inhibitor activity			ovary(1)|skin(1)	2						ACCAGGGTCCTACCACCCCAC	0.517													5	29					0	0	1	0	0		C	15130994	C	C	15130994	2	2	214	1	0	0	0	0	0	0	0	1	11669	1509	53	3		3	PDE6H	12	15130994	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4344349	15130994	118720901	520	106938											
SOX5	6660	broad.mit.edu	37	chr12	23999114	23999114	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatgaagacataactttaTtgccatcaacttcctgaaag	16	11	5	9	0	1	3	1	2	0	1	2	3	2	3	2	0	3	0	2	0	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:23999114T>C	uc001rfw.2	-	3	386	c.284A>G	c.(283-285)AAT>AGT	p.N95S	SOX5_uc001rfx.2_Missense_Mutation_p.N82S|SOX5_uc001rfy.2_Missense_Mutation_p.N82S|SOX5_uc010siv.1_Missense_Mutation_p.N82S|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.N47S|SOX5_uc001rga.2_Missense_Mutation_p.N60S	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	95					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CATAACTTTATTGCCATCAAC	0.418													13	44					0	0	1	0	0		C	23999114	C	C	23999114	3	2	214	1	0	0	0	0	1	0	0	0	14979	1493	52	3	2069	3	SOX5	12	23999114	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	8868120	23999114	109852781	521	106939											
PPFIBP1	8496	broad.mit.edu	37	chr12	27834507	27834507	+	Missense_Mutation	SNP	A	G	G	1	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	atatgccatttgccaagtggAccaaggagcaggtttgcaat	12	10	11	8	0	0	0	0	0	0	0	0	2	0	2	3	3	4	3	3	3	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:27834507A>G	uc001ric.1	+	21	2319	c.1942A>G	c.(1942-1944)ACC>GCC	p.T648A	PPFIBP1_uc010sjr.1_Missense_Mutation_p.T479A|PPFIBP1_uc001rib.1_Missense_Mutation_p.T642A|PPFIBP1_uc001ria.2_Missense_Mutation_p.T617A|PPFIBP1_uc001rid.1_Missense_Mutation_p.T495A|PPFIBP1_uc001rif.1_Missense_Mutation_p.T155A	NM_003622	NP_003613	Q86W92	LIPB1_HUMAN	PTPRF interacting protein binding protein 1	648	SAM 1.				cell adhesion	plasma membrane	protein binding		PPFIBP1/ALK(3)	soft_tissue(3)|kidney(1)|skin(1)	5	Lung SC(9;0.0873)					TGCCAAGTGGACCAAGGAGCA	0.448													12	111					0	0	1	0	0		G	27834507	G	G	27834507	3	3	214	1	0	0	0	0	1	0	0	0	12332	275	10	3	2044	3	PPFIBP1	12	27834507	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3835393	27834507	106017388	522	106940											
CNTN1	1272	broad.mit.edu	37	chr12	41327326	41327326	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggatgtatatgcattgatggGccaaaatgtgaccttagaat	13	12	11	5	0	0	3	0	2	0	1	0	4	0	4	2	2	1	2	2	2	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:41327326G>A	uc001rmm.1	+	8	880	c.767G>A	c.(766-768)GGC>GAC	p.G256D	CNTN1_uc009zjy.1_Missense_Mutation_p.G256D|CNTN1_uc001rmn.1_Missense_Mutation_p.G245D|CNTN1_uc001rmo.2_Missense_Mutation_p.G256D	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	256	Ig-like C2-type 3.				axon guidance|cell adhesion|Notch signaling pathway	anchored to membrane|membrane fraction|plasma membrane				lung(4)|ovary(3)|large_intestine(1)|skin(1)	9	all_cancers(12;2.07e-06)|all_epithelial(1;4.26e-06)|Breast(8;0.0716)	Lung NSC(34;0.0211)|all_lung(34;0.0294)				GCATTGATGGGCCAAAATGTG	0.284													32	170					0	0	1	0	0		A	41327326	A	A	41327326	3	1	214	1	0	0	0	0	1	0	0	0	3643	1203	42	2	793	2	CNTN1	12	41327326	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	13492819	41327326	92524569	523	106941											
PRICKLE1	144165	broad.mit.edu	37	chr12	42858731	42858731	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	caattttcgagaaagggtgtCatcagcattgcctgagaggc	11	10	12	8	1	2	2	2	1	0	2	3	4	2	2	1	2	2	1	1	2	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:42858731C>T	uc010skv.1	-	7	1392	c.1105G>A	c.(1105-1107)GAC>AAC	p.D369N	PRICKLE1_uc001rnl.2_Missense_Mutation_p.D369N|PRICKLE1_uc010skw.1_Missense_Mutation_p.D369N|PRICKLE1_uc001rnm.2_Missense_Mutation_p.D369N	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	369					negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cardiac muscle cell myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein import into nucleus	cytosol|nuclear membrane	zinc ion binding			ovary(3)|skin(1)	4	all_cancers(12;4.25e-05)|Breast(8;0.176)			GBM - Glioblastoma multiforme(48;0.2)		GAAAGGGTGTCATCAGCATTG	0.483													6	76					0	0	1	0	0		T	42858731	T	T	42858731	3	4	214	1	0	0	0	0	1	0	0	0	12508	826	29	4	1398	4	PRICKLE1	12	42858731	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1531405	42858731	90993164	524	106942											
COL2A1	1280	broad.mit.edu	37	chr12	48393797	48393797	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcacgtcttcacagattatgTcgtcgcagaggacagtccca	10	10	9	12	3	3	2	2	0	1	2	6	3	4	3	1	1	0	1	1	1	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:48393797T>C	uc001rqu.2	-	2	378	c.197A>G	c.(196-198)GAC>GGC	p.D66G	COL2A1_uc001rqv.2_Intron	NM_001844	NP_001835	P02458	CO2A1_HUMAN	collagen, type II, alpha 1 isoform 1 precursor	66	VWFC.				axon guidance|collagen fibril organization|embryonic skeletal joint morphogenesis|sensory perception of sound|visual perception	collagen type II	identical protein binding|platelet-derived growth factor binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(13;0.108)|all_hematologic(14;0.214)			Collagenase(DB00048)	ACAGATTATGTCGTCGCAGAG	0.567													4	79					0	0	1	0	0		C	48393797	C	C	48393797	3	2	214	1	0	0	0	0	1	0	0	0	3690	1667	58	3	4478	3	COL2A1	12	48393797	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5535066	48393797	85458098	525	106943											
PFKM	5213	broad.mit.edu	37	chr12	48534510	48534510	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cttcctcctgtatagagtggTtcgcacacagtggctgtgat	7	13	11	10	1	0	2	0	1	0	1	3	2	2	2	2	2	0	4	2	2	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:48534510T>C	uc001rrc.2	+	14	1367	c.1197T>C	c.(1195-1197)GGT>GGC	p.G399G	PFKM_uc001rra.1_Silent_p.G84G|PFKM_uc001rrb.1_Silent_p.G470G|PFKM_uc001rrd.2_Silent_p.G84G|PFKM_uc001rre.1_Silent_p.G399G|PFKM_uc001rrg.1_Silent_p.G368G	NM_000289	NP_000280	P08237	K6PF_HUMAN	phosphofructokinase, muscle	399					fructose 6-phosphate metabolic process|glycolysis|muscle cell homeostasis	6-phosphofructokinase complex|apical plasma membrane	6-phosphofructokinase activity|ATP binding|identical protein binding|kinase binding|metal ion binding|protein C-terminus binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4						TATAGAGTGGTTCGCACACAG	0.562													7	115					0	0	1	0	0		C	48534510	C	C	48534510	2	2	214	1	0	0	0	0	0	0	0	1	11784	1712	60	3		3	PFKM	12	48534510	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	140713	48534510	85317385	526	106944											
PRKAG1	5571	broad.mit.edu	37	chr12	49406895	49406895	+	Splice_Site	SNP	T	C	C	0	1	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	agctatctgaagaaatgaccTggagagataagaaaacagat	19	7	10	5	0	1	6	0	2	1	4	1	8	1	7	1	1	2	1	1	1	6	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:49406895T>C	uc001rsy.2	-	2	79	c.10_splice	c.e2-1	p.V4_splice	uc001rsw.2_Intron|PRKAG1_uc010smd.1_Splice_Site|PRKAG1_uc001rsx.2_Splice_Site|PRKAG1_uc001rsz.2_Splice_Site_p.V4_splice|PRKAG1_uc009zlb.2_Splice_Site|PRKAG1_uc010sme.1_Splice_Site_p.V4_splice	NM_002733	NP_002724	P54619	AAKG1_HUMAN	AMP-activated protein kinase, noncatalytic						cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|positive regulation of protein kinase activity|regulation of fatty acid oxidation|regulation of glycolysis|spermatogenesis	cytosol	cAMP-dependent protein kinase activity|cAMP-dependent protein kinase regulator activity|protein kinase binding			kidney(1)	1						AGAAATGACCTGGAGAGATAA	0.418													4	57					0	0	1	0	0		C	49406895	C	C	49406895	5	2	214	1	0	0	0	0	0	0	1	0	12522	1594	55	3	1031	3	PRKAG1	12	49406895	Splice_Site	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	872385	49406895	84445000	527	106945											
PRPH	5630	broad.mit.edu	37	chr12	49690007	49690007	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggacgcggagcacaacctcGtgctcttccgcaaggtgagt	9	7	13	12	4	1	1	0	1	1	0	3	3	2	3	2	3	3	3	2	3	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:49690007G>A	uc001rtu.2	+	2	667	c.592G>A	c.(592-594)GTG>ATG	p.V198M		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	198	Coil 1B.|Rod.						structural molecule activity				0						GCACAACCTCGTGCTCTTCCG	0.677													4	24					0	0	1	0	0		A	49690007	A	A	49690007	3	1	214	1	0	0	0	0	1	0	0	0	12598	1145	40	1	598	1	PRPH	12	49690007	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	283112	49690007	84161888	528	106946											
LIMA1	51474	broad.mit.edu	37	chr12	50575791	50575791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actgtcttctgacattccacGcaggtctctcttgcaggtgc	6	13	9	13	1	4	1	0	1	4	0	6	1	5	1	1	2	2	2	1	2	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:50575791G>A	uc001rwj.3	-	10	1344	c.1170C>T	c.(1168-1170)TGC>TGT	p.C390C	LIMA1_uc001rwg.3_Silent_p.C88C|LIMA1_uc001rwh.3_Silent_p.C229C|LIMA1_uc001rwi.3_Silent_p.C231C|LIMA1_uc001rwk.3_Silent_p.C391C|LIMA1_uc010smr.1_RNA|LIMA1_uc010sms.1_RNA	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b	390	LIM zinc-binding.				actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						GACATTCCACGCAGGTCTCTC	0.478													14	94					0	0	1	0	0		A	50575791	A	A	50575791	2	1	214	1	0	0	0	0	0	0	0	1	8812	1079	38	1		1	LIMA1	12	50575791	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	885784	50575791	83276104	529	106947											
SCN8A	6334	broad.mit.edu	37	chr12	52200910	52200910	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtggcatccaatccttccaaAgtgtcttacgagccaatcac	11	10	7	13	1	2	0	1	0	1	0	5	1	5	0	4	1	2	1	4	1	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:52200910A>G	uc001ryw.2	+	27	5818	c.5640A>G	c.(5638-5640)AAA>AAG	p.K1880K	uc001rzb.1_5'Flank	NM_014191	NP_055006	Q9UQD0	SCN8A_HUMAN	sodium channel, voltage gated, type VIII, alpha	1880					axon guidance|myelination|peripheral nervous system development	cytoplasmic membrane-bounded vesicle|node of Ranvier	ATP binding|voltage-gated sodium channel activity			ovary(7)	7				BRCA - Breast invasive adenocarcinoma(357;0.181)	Lamotrigine(DB00555)	ATCCTTCCAAAGTGTCTTACG	0.582													26	187					0	0	1	0	0		G	52200910	G	G	52200910	2	3	214	1	0	0	0	0	0	0	0	1	13949	69	3	3		3	SCN8A	12	52200910	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1625119	52200910	81650985	530	106948											
KRT2	3849	broad.mit.edu	37	chr12	53040639	53040639	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccgcgccaagtcctccttggCctgctgcagggcctcctcca	4	8	10	19	2	0	0	0	0	0	0	4	0	4	0	8	2	2	2	8	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:53040639C>A	uc001sat.2	-	7	1387	c.1354G>T	c.(1354-1356)GCC>TCC	p.A452S		NM_000423	NP_000414	P35908	K22E_HUMAN	keratin 2	452	Coil 2.|Rod.				keratinization|keratinocyte activation|keratinocyte migration|keratinocyte proliferation	Golgi apparatus|keratin filament	protein binding|structural constituent of cytoskeleton			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.19)		TCCTCCTTGGCCTGCTGCAGG	0.597													20	128					7.45023e-12	8.34503e-12	1	1	0		A	53040639	A	A	53040639	3	1	214	1	0	0	0	0	1	0	0	0	8473	739	26	5	577	5	KRT2	12	53040639	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	839729	53040639	80811256	531	106949											
DCD	117159	broad.mit.edu	37	chr12	55042151	55042151	+	Splice_Site	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcttgggatctagggtgtcaAgactgcctctctgggccttt	5	14	12	10	0	4	1	1	0	3	1	5	2	4	2	2	3	1	0	2	3	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:55042151A>G	uc001sgj.2	-	1	1	c.-61_splice	c.e1-1		DCD_uc009znt.2_Splice_Site|DCD_uc009znu.2_Splice_Site	NM_053283	NP_444513	P81605	DCD_HUMAN	dermcidin preproprotein						defense response to bacterium|defense response to fungus|killing of cells of other organism	extracellular region	protein binding			ovary(1)	1		Myeloproliferative disorder(1001;0.0255)				TAGGGTGTCAAGACTGCCTCT	0.527													3	22					0	0	1	0	0		G	55042151	G	G	55042151	5	3	214	1	0	0	0	0	0	0	1	0	4286	87	3	3		3	DCD	12	55042151	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2001512	55042151	78809744	532	106950											
GLS2	27165	broad.mit.edu	37	chr12	56872948	56872948	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgcctgggtcaggagcacaAtgttgctgctcacacacctg	9	9	11	12	0	2	0	2	0	0	0	2	1	2	1	2	2	4	4	2	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:56872948A>G	uc001slj.2	-	4	701	c.422T>C	c.(421-423)ATT>ACT	p.I141T	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_Intron|GLS2_uc009zot.2_Intron	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	141					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAGGAGCACAATGTTGCTGCT	0.448													6	47					0	0	1	0	0		G	56872948	G	G	56872948	3	3	214	1	0	0	0	0	1	0	0	0	6479	101	4	3	1446	3	GLS2	12	56872948	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1830797	56872948	76978947	533	106951											
PTGES3	10728	broad.mit.edu	37	chr12	57064084	57064084	+	Missense_Mutation	SNP	A	G	G	1	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	agaaacgatcaaaattagacAtgtcttcatctgaatcatct	16	12	5	8	1	6	3	3	1	3	2	6	4	6	3	0	0	1	0	0	0	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:57064084A>G	uc001slu.3	-	5	645	c.350T>C	c.(349-351)ATG>ACG	p.M117T	PTGES3_uc001slw.3_RNA|PTGES3_uc010sqs.1_Missense_Mutation_p.M84T|PTGES3_uc001slv.3_Intron|PTGES3_uc010sqt.1_Missense_Mutation_p.M117T|PTGES3_uc009zox.2_Intron	NM_006601	NP_006592	Q15185	TEBP_HUMAN	prostaglandin-E synthase 3	117	Asp/Glu-rich.				chaperone cofactor-dependent protein refolding|hormone biosynthetic process|prostaglandin biosynthetic process|signal transduction|telomere maintenance	cytosol|telomerase holoenzyme complex	prostaglandin-E synthase activity|telomerase activity|unfolded protein binding				0						AAAATTAGACATGTCTTCATC	0.368													4	63					0	0	1	0	0		G	57064084	G	G	57064084	3	3	214	1	0	0	0	0	1	0	0	0	12771	217	8	3	148	3	PTGES3	12	57064084	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	191136	57064084	76787811	534	106952											
ZBTB39	9880	broad.mit.edu	37	chr12	57396722	57396722	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ccacagactgtgcagcggtaCatgagggcccccgagtgtgt	8	7	14	12	2	0	2	0	1	0	1	0	3	0	2	3	2	3	2	3	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:57396722C>T	uc001sml.1	-	2	2066	c.1980G>A	c.(1978-1980)ATG>ATA	p.M660I	RDH16_uc010sqx.1_5'Flank	NM_014830	NP_055645	O15060	ZBT39_HUMAN	zinc finger and BTB domain containing 39	660					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						TGCAGCGGTACATGAGGGCCC	0.557													8	89					0	0	1	0	0		T	57396722	T	T	57396722	3	4	214	1	0	0	0	0	1	0	0	0	17565	478	17	4	162	4	ZBTB39	12	57396722	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	332638	57396722	76455173	535	106953											
CYP27B1	1594	broad.mit.edu	37	chr12	58158953	58158953	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtcgggtggcacttgagcctCcaggcagcccaagcgcgagc	7	5	15	14	3	0	1	0	1	0	0	2	2	1	1	3	3	4	2	3	3	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:58158953C>A	uc001spz.1	-	4	783	c.631G>T	c.(631-633)GAG>TAG	p.E211*	CYP27B1_uc001sqa.1_5'UTR|CYP27B1_uc001sqb.1_Missense_Mutation_p.G91V|CYP27B1_uc001sqc.1_Missense_Mutation_p.G91V	NM_000785	NP_000776	O15528	CP27B_HUMAN	cytochrome P450, family 27, subfamily B,	211					bone mineralization|calcium ion homeostasis|calcium ion transport|decidualization|G1 to G0 transition|hormone biosynthetic process|negative regulation of calcidiol 1-monooxygenase activity|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of keratinocyte differentiation|positive regulation of vitamin D 24-hydroxylase activity|positive regulation of vitamin D receptor signaling pathway|regulation of bone mineralization|response to estrogen stimulus|response to interferon-gamma|response to lipopolysaccharide|response to tumor necrosis factor|response to vitamin D|vitamin D biosynthetic process|xenobiotic metabolic process	mitochondrial outer membrane	calcidiol 1-monooxygenase activity|electron carrier activity|heme binding			central_nervous_system(3)	3	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)		Calcidiol(DB00146)|Calcitriol(DB00136)|Ergocalciferol(DB00153)	ACTTGAGCCTCCAGGCAGCCC	0.697											OREG0021953	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	27					6.4e-05	6.74743e-05	1	1	0		A	58158953	A	A	58158953	4	1	214	1	0	0	0	0	0	1	0	0	4162	864	30	5	919	5	CYP27B1	12	58158953	Nonsense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	762231	58158953	75692942	536	106954											
LRIG3	121227	broad.mit.edu	37	chr12	59308081	59308081	+	Silent	SNP	T	C	C	0	1	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	tgaaggtggctcatggaactTgccttgatgaaagataatct	12	12	11	6	0	2	4	1	3	1	1	2	5	2	5	1	3	2	1	1	3	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:59308081T>C	uc001sqr.2	-	2	519	c.273A>G	c.(271-273)GCA>GCG	p.A91A	LRIG3_uc009zqh.2_Silent_p.A31A|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	91	LRR 1.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			TCATGGAACTTGCCTTGATGA	0.333													21	109					0	0	1	0	0		C	59308081	C	C	59308081	2	2	214	1	0	0	0	0	0	0	0	1	8964	1799	63	3		3	LRIG3	12	59308081	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1149128	59308081	74543814	537	106955											
FAM19A2	338811	broad.mit.edu	37	chr12	62148754	62148754	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttctatcttgttcttattaCagcatctgtggagtgccacc	7	16	7	11	0	4	0	0	0	4	0	4	1	4	1	2	1	3	2	2	1	3	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:62148754C>T	uc001sqw.2	-	3	1671	c.158G>A	c.(157-159)TGT>TAT	p.C53Y	FAM19A2_uc001sqv.2_RNA|FAM19A2_uc001sqx.2_Missense_Mutation_p.C53Y|FAM19A2_uc001sqy.2_RNA	NM_178539	NP_848634	Q8N3H0	F19A2_HUMAN	family with sequence similarity 19 (chemokine	53						cytoplasm				ovary(1)	1			GBM - Glioblastoma multiforme(1;0.00484)	GBM - Glioblastoma multiforme(3;0.02)		GTTCTTATTACAGCATCTGTG	0.478													4	46					0	0	1	0	0		T	62148754	T	T	62148754	3	4	214	1	0	0	0	0	1	0	0	0	5543	478	17	4	249	4	FAM19A2	12	62148754	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2840673	62148754	71703141	538	106956											
LGR5	8549	broad.mit.edu	37	chr12	71833904	71833904	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctcctgtccttgcctgtgcTgctgcagctggcgaccgggg	2	10	15	14	2	0	0	0	0	0	0	2	1	2	0	4	3	5	5	4	3	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:71833904T>C	uc001swl.2	+	1	92	c.44T>C	c.(43-45)CTG>CCG	p.L15P	TSPAN8_uc001swk.1_Intron|LGR5_uc001swm.2_Missense_Mutation_p.L15P|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	15						integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TTGCCTGTGCTGCTGCAGCTG	0.687													10	92					0	0	1	0	0		C	71833904	C	C	71833904	3	2	214	1	0	0	0	0	1	0	0	0	8773	1580	55	3	46	3	LGR5	12	71833904	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	9685150	71833904	62017991	539	106957											
KCNC2	3747	broad.mit.edu	37	chr12	75436122	75436122	+	Missense_Mutation	SNP	T	G	G	0	1	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	agatctggcctcggcttgcgTgtaaccagtaatgacaacct	10	10	10	11	2	1	2	0	1	1	1	2	2	1	2	3	2	3	3	3	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:75436122T>G	uc001sxe.2	-	5	2357	c.1813A>C	c.(1813-1815)ACG>CCG	p.T605P	KCNC2_uc009zry.2_Intron|KCNC2_uc001sxf.2_Missense_Mutation_p.T550P	NM_139136	NP_631874	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	Error:Variant_position_missing_in_Q96PR1_after_alignment					energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						TCGGCTTGCGTGTAACCAGTA	0.418													12	64					0	0	1	0	0		G	75436122	G	G	75436122	3	3	214	1	0	0	0	0	1	0	0	0	8031	1696	59	5	32	5	KCNC2	12	75436122	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3602218	75436122	58415773	540	106958											
CAPS2	84698	broad.mit.edu	37	chr12	75692521	75692521	+	Silent	SNP	A	G	G	1	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	tttcttcgtccacactgatgActataaatgcttttttgaat	10	18	5	8	1	1	3	0	3	1	0	3	3	2	3	1	0	1	1	1	0	4	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:75692521A>G	uc001sxk.3	-	12	1244	c.1047T>C	c.(1045-1047)AGT>AGC	p.S349S	CAPS2_uc001sxm.3_Silent_p.S117S|CAPS2_uc009zsa.2_Intron|CAPS2_uc001sxi.3_Silent_p.S85S|CAPS2_uc001sxj.3_Silent_p.S260S|CAPS2_uc001sxl.3_Silent_p.S330S	NM_032606	NP_115995	Q9BXY5	CAYP2_HUMAN	calcyphosine 2	349							calcium ion binding			ovary(2)	2						CACACTGATGACTATAAATGC	0.343													7	45					0	0	1	0	0		G	75692521	G	G	75692521	2	3	214	1	0	0	0	0	0	0	0	1	2641	272	10	3		3	CAPS2	12	75692521	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	256399	75692521	58159374	541	106959											
FAM71C	196472	broad.mit.edu	37	chr12	100042081	100042081	+	Silent	SNP	A	T	T	1	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	tatactatattcaggtatgcAcccatgtttgagagcgactt	11	14	8	8	1	1	1	1	1	0	1	1	3	1	1	1	1	3	3	1	1	5	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:100042081A>T	uc001tgn.2	+	1	551	c.129A>T	c.(127-129)GCA>GCT	p.A43A	ANKS1B_uc001tge.1_Intron|ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_153364	NP_699195	Q8NEG0	FA71C_HUMAN	hypothetical protein LOC196472	43											0				OV - Ovarian serous cystadenocarcinoma(2;0.00733)|Epithelial(2;0.0385)|all cancers(2;0.19)		TCAGGTATGCACCCATGTTTG	0.512													6	104					0	0	1	0	0		T	100042081	T	T	100042081	2	4	214	1	0	0	0	0	0	0	0	1	5623	146	6	5		5	FAM71C	12	100042081	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	24349560	100042081	33809814	542	106960											
NUAK1	9891	broad.mit.edu	37	chr12	106461727	106461727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gcatccaccgtatgagtcctCgagcatctaagggacaaggg	11	7	12	11	2	1	1	0	1	1	0	4	3	3	2	3	2	1	3	3	2	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:106461727C>T	uc001tlj.1	-	7	2219	c.839G>A	c.(838-840)CGA>CAA	p.R280Q		NM_014840	NP_055655	O60285	NUAK1_HUMAN	AMPK-related protein kinase 5	280	Protein kinase.						ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(1)|central_nervous_system(1)	2						TATGAGTCCTCGAGCATCTAA	0.537													7	59					0	0	1	0	0		T	106461727	T	T	106461727	3	4	214	1	0	0	0	0	1	0	0	0	10731	884	31	1	1150	1	NUAK1	12	106461727	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	6419646	106461727	27390168	543	106961											
POLR3B	55703	broad.mit.edu	37	chr12	106827564	106827564	+	Silent	SNP	A	G	G	1	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	tttcgactcatgagaagagcAggatatatcaatgaatttgt	14	13	9	5	1	2	3	2	2	0	2	3	6	2	4	0	1	1	1	0	1	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:106827564A>G	uc001tlp.2	+	16	1917	c.1695A>G	c.(1693-1695)GCA>GCG	p.A565A	POLR3B_uc001tlq.2_Silent_p.A507A	NM_018082	NP_060552	Q9NW08	RPC2_HUMAN	DNA-directed RNA polymerase III B isoform 1	565					innate immune response|positive regulation of innate immune response|positive regulation of interferon-beta production|response to virus|termination of RNA polymerase III transcription|transcription elongation from RNA polymerase III promoter	nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|ribonucleoside binding			ovary(1)|central_nervous_system(1)	2						TGAGAAGAGCAGGATATATCA	0.378													20	53					0	0	1	0	0		G	106827564	G	G	106827564	2	3	214	1	0	0	0	0	0	0	0	1	12248	175	7	3		3	POLR3B	12	106827564	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	365837	106827564	27024331	544	106962											
CUX2	23316	broad.mit.edu	37	chr12	111758153	111758153	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aaggtcaagtccgagatcggCgacgccggctacttcgacca	10	6	12	13	6	1	1	1	0	0	1	4	4	2	1	3	3	1	1	3	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:111758153C>T	uc001tsa.1	+	17	2493	c.2340C>T	c.(2338-2340)GGC>GGT	p.G780G		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	780						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						CCGAGATCGGCGACGCCGGCT	0.726													15	66					0	0	1	0	0		T	111758153	T	T	111758153	2	4	214	1	0	0	0	0	0	0	0	1	4068	755	27	1		1	CUX2	12	111758153	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4930589	111758153	22093742	545	106963											
TBX5	6910	broad.mit.edu	37	chr12	114841616	114841616	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctgggggccccgagcgcgcTctcgggtttcgaatcgcagg	4	7	17	13	6	1	0	0	0	1	0	4	2	1	0	2	4	1	4	2	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:114841616T>C	uc001tvo.2	-	2	583	c.88A>G	c.(88-90)AGC>GGC	p.S30G	TBX5_uc001tvp.2_Missense_Mutation_p.S30G|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Missense_Mutation_p.S30G	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	30				GFGLAHTPLEPDAKDLPCDSKPESALGAPSKSPSSPQAAFT QQ -> ALAGAHLWSLTQKTCLRFEPRARSGPPASPPGRPR SRLHPA (in Ref. 1; CAA70592).	cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)		CCGAGCGCGCTCTCGGGTTTC	0.677													6	90					0	0	1	0	0		C	114841616	C	C	114841616	3	2	214	1	0	0	0	0	1	0	0	0	15686	1551	54	3	1567	3	TBX5	12	114841616	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3083463	114841616	19010279	546	106964											
ANKLE2	23141	broad.mit.edu	37	chr12	133306511	133306511	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtgtcttggaaacgctaCgtcctatattttgcaaattc	9	15	8	9	2	1	0	0	0	1	0	3	1	2	1	1	2	3	2	1	2	5	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr12:133306511C>T	uc001ukx.2	-	11	2304	c.2237G>A	c.(2236-2238)CGT>CAT	p.R746H	ANKLE2_uc009zyw.1_Missense_Mutation_p.R101H	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	746						cytoplasm|integral to membrane|nuclear envelope					0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.3e-08)|Epithelial(86;1.56e-07)|all cancers(50;4.94e-06)		GGAAACGCTACGTCCTATATT	0.453													37	58					0	0	1	0	0		T	133306511	T	T	133306511	3	4	214	1	0	0	0	0	1	0	0	0	633	536	19	1	591	1	ANKLE2	12	133306511	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	18464895	133306511	545384	547	106965											
CRYL1	51084	broad.mit.edu	37	chr13	20978274	20978274	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcattacaagaaattcactgGggctgcacttgactcttcaa	12	11	8	10	0	3	2	2	1	1	1	3	2	3	2	0	2	2	3	0	2	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:20978274G>T	uc001une.2	-	8	1033	c.954C>A	c.(952-954)CCC>CCA	p.P318P	CRYL1_uc001unf.2_Silent_p.P296P|CRYL1_uc001ung.2_Silent_p.P296P	NM_015974	NP_057058	Q9Y2S2	CRYL1_HUMAN	lambda-crystallin	318					fatty acid metabolic process	cytosol	3-hydroxyacyl-CoA dehydrogenase activity|L-gulonate 3-dehydrogenase activity|NAD+ binding|protein homodimerization activity				0		all_cancers(29;2.27e-23)|all_epithelial(30;1.69e-19)|all_lung(29;8.29e-18)|Lung SC(185;0.0262)|Ovarian(182;0.0827)|Hepatocellular(188;0.244)		all cancers(112;6.6e-05)|Epithelial(112;0.00178)|OV - Ovarian serous cystadenocarcinoma(117;0.0169)|Lung(94;0.0215)|GBM - Glioblastoma multiforme(144;0.0402)|LUSC - Lung squamous cell carcinoma(192;0.061)		AAATTCACTGGGGCTGCACTT	0.542													7	110					1.76689e-08	1.92875e-08	1	1	0		T	20978274	T	T	20978274	2	4	214	1	0	0	0	0	0	0	0	1	3923	1219	43	5		5	CRYL1	13	20978274	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08		20978274	94191604	548	106966											
RNF6	6049	broad.mit.edu	37	chr13	26788301	26788301	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttcaactaaattgtttggaTttcgcaactgcctgccaccc	9	14	6	12	1	1	0	1	0	0	0	2	1	1	1	3	1	4	2	3	1	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:26788301T>G	uc001uqo.2	-	5	2009	c.1718A>C	c.(1717-1719)AAT>ACT	p.N573T	RNF6_uc001uqn.1_Intron|RNF6_uc010aak.2_Missense_Mutation_p.N573T|RNF6_uc001uqp.2_Missense_Mutation_p.N573T|RNF6_uc001uqq.2_Missense_Mutation_p.N573T|RNF6_uc010tdk.1_Missense_Mutation_p.N217T	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	573					negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		ATTGTTTGGATTTCGCAACTG	0.448													19	149					0	0	1	0	0		G	26788301	G	G	26788301	3	3	214	1	0	0	0	0	1	0	0	0	13523	1493	52	5	343	5	RNF6	13	26788301	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5810027	26788301	88381577	549	106967											
USPL1	10208	broad.mit.edu	37	chr13	31205337	31205337	+	Missense_Mutation	SNP	A	C	C	1	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	gatgtctctggaactggcagAccttcccctcaaaatgaagg	11	9	10	11	0	2	2	1	1	1	1	4	4	3	3	3	3	1	1	3	3	4	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:31205337A>C	uc001utc.2	+	4	1026	c.594A>C	c.(592-594)AGA>AGC	p.R198S	USPL1_uc001utb.2_Missense_Mutation_p.R17S|USPL1_uc001utd.2_Intron|USPL1_uc001ute.1_5'Flank	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	198					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		GAACTGGCAGACCTTCCCCTC	0.443													18	126					0	0	1	0	0		C	31205337	C	C	31205337	3	2	214	1	0	0	0	0	1	0	0	0	17118	272	10	5	604	5	USPL1	13	31205337	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4417036	31205337	83964541	550	106968											
USPL1	10208	broad.mit.edu	37	chr13	31232640	31232640	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aggtataaaccagaaggccaGccacgtatccaagaaagctc	16	5	9	11	1	0	2	0	0	0	2	2	2	1	2	4	2	3	3	4	2	7	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:31232640G>A	uc001utc.2	+	9	2858	c.2426G>A	c.(2425-2427)AGC>AAC	p.S809N	USPL1_uc001utd.2_Missense_Mutation_p.S480N|USPL1_uc001ute.1_Missense_Mutation_p.S480N	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	809					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		CAGAAGGCCAGCCACGTATCC	0.448													5	68					0	0	1	0	0		A	31232640	A	A	31232640	3	1	214	1	0	0	0	0	1	0	0	0	17118	971	34	2	2456	2	USPL1	13	31232640	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	27303	31232640	83937238	551	106969											
SMAD9	4093	broad.mit.edu	37	chr13	37446863	37446863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagggtagctggccgtgcacGgggactgggagaacgcgtgg	7	5	21	8	4	0	1	0	0	0	1	0	4	0	2	1	6	3	3	1	6	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:37446863G>A	uc001uvw.2	-	3	945	c.602C>T	c.(601-603)CCG>CTG	p.P201L	SMAD9_uc001uvx.2_Missense_Mutation_p.P201L|SMAD9_uc010tep.1_Missense_Mutation_p.P31L	NM_001127217	NP_001120689	O15198	SMAD9_HUMAN	SMAD family member 9 isoform a	201					BMP signaling pathway|transforming growth factor beta receptor signaling pathway	cytosol|transcription factor complex	sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity				0		Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.184)		all cancers(112;3.38e-07)|Epithelial(112;1.93e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00804)|BRCA - Breast invasive adenocarcinoma(63;0.0129)|GBM - Glioblastoma multiforme(144;0.026)		GGCCGTGCACGGGGACTGGGA	0.587													7	57					0	0	1	0	0		A	37446863	A	A	37446863	3	1	214	1	0	0	0	0	1	0	0	0	14789	1116	39	1	821	1	SMAD9	13	37446863	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6214223	37446863	77723015	552	106970											
PHF11	51131	broad.mit.edu	37	chr13	50095043	50095043	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atttcagactgctttgccagCaacatgctcaattcccgatc	10	12	6	13	1	2	1	2	0	0	1	4	2	3	1	2	0	5	3	2	0	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:50095043C>T	uc001vdb.2	+	5	809	c.472C>T	c.(472-474)CAA>TAA	p.Q158*	PHF11_uc001vdc.2_Nonsense_Mutation_p.Q119*|PHF11_uc001vdd.2_RNA	NM_001040443	NP_001035533	Q9UIL8	PHF11_HUMAN	PHD finger protein 11 isoform a	158	PHD-type; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding				0		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)		GCTTTGCCAGCAACATGCTCA	0.289													5	42					0	0	1	0	0		T	50095043	T	T	50095043	4	4	214	1	0	0	0	0	0	1	0	0	11841	711	25	2	490	2	PHF11	13	50095043	Nonsense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	12648180	50095043	65074835	553	106971											
THSD1	55901	broad.mit.edu	37	chr13	52952670	52952670	+	Missense_Mutation	SNP	A	G	G	1	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	gggcccgtctcccccatccgAgaagctcccgcgctgctcgc	4	6	11	20	5	1	1	0	0	1	1	5	2	3	1	5	1	2	3	5	1	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:52952670A>G	uc001vgo.2	-	5	1980	c.1435T>C	c.(1435-1437)TCG>CCG	p.S479P	THSD1_uc001vgp.2_Missense_Mutation_p.S426P|THSD1_uc010tgz.1_Missense_Mutation_p.S100P|THSD1_uc010aea.2_5'UTR	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	479	Cytoplasmic (Potential).					extracellular region|integral to membrane|intracellular membrane-bounded organelle				ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4		Breast(56;0.000207)|Lung NSC(96;0.00145)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.8e-08)		CCCCCATCCGAGAAGCTCCCG	0.652													4	59					0	0	1	0	0		G	52952670	G	G	52952670	3	3	214	1	0	0	0	0	1	0	0	0	15902	304	11	3	1127	3	THSD1	13	52952670	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2857627	52952670	62217208	554	106972											
EDNRB	1910	broad.mit.edu	37	chr13	78477385	78477385	+	Missense_Mutation	SNP	T	G	G	0	1	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	ttatatcaaaacctatggctTcagggacagccagaaccaca	15	8	7	11	0	2	1	2	0	0	1	2	2	2	2	3	2	3	1	3	2	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:78477385T>G	uc001vko.2	-	3	965	c.707A>C	c.(706-708)GAA>GCA	p.E236A	EDNRB_uc001vkq.1_Missense_Mutation_p.E236A|uc001vkn.1_Intron|EDNRB_uc010aez.1_Missense_Mutation_p.E236A|EDNRB_uc001vkp.1_Missense_Mutation_p.E319A	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	236	Helical; Name=4; (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	ACCTATGGCTTCAGGGACAGC	0.418													21	135					0	0	1	0	0		G	78477385	G	G	78477385	3	3	214	1	0	0	0	0	1	0	0	0	4926	1783	62	5	762	5	EDNRB	13	78477385	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	25524715	78477385	36692493	555	106973											
PCCA	5095	broad.mit.edu	37	chr13	100909900	100909900	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tggtggtgggaaaggcatgcGcattgcttgggatgatgaag	9	10	18	4	1	0	2	0	2	0	0	0	4	0	4	0	5	2	3	0	5	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr13:100909900G>A	uc001voo.2	+	9	727	c.689G>A	c.(688-690)CGC>CAC	p.R230H	PCCA_uc010aga.2_Missense_Mutation_p.R204H|PCCA_uc010tiz.1_Missense_Mutation_p.R230H	NM_000282	NP_000273	P05165	PCCA_HUMAN	propionyl-Coenzyme A carboxylase, alpha	230	ATP-grasp.|Biotin carboxylation.				fatty acid beta-oxidation	mitochondrial matrix	ATP binding|biotin binding|biotin carboxylase activity|enzyme binding|metal ion binding|propionyl-CoA carboxylase activity			skin(2)	2	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Biotin(DB00121)	AAAGGCATGCGCATTGCTTGG	0.443													7	38					0	0	1	0	0		A	100909900	A	A	100909900	3	1	214	1	0	0	0	0	1	0	0	0	11523	1087	38	1	723	1	PCCA	13	100909900	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	22432515	100909900	14259978	556	106974											
OR4K14	122740	broad.mit.edu	37	chr14	20483284	20483284	+	Silent	SNP	A	G	G	1	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	aatataaagaaaaaattttgAagatgtcgtgaagtgcagag	19	10	10	2	1	0	5	0	2	0	3	1	5	0	5	0	0	1	1	0	0	9	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:20483284A>G	uc010tky.1	-	1	69	c.69T>C	c.(67-69)CTT>CTC	p.L23L		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	23	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		AAAAATTTTGAAGATGTCGTG	0.403													13	48					0	0	1	0	0		G	20483284	G	G	20483284	2	3	214	1	0	0	0	0	0	0	0	1	11088	233	9	3		3	OR4K14	14	20483284	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		20483284	86866256	557	106975											
CHD8	57680	broad.mit.edu	37	chr14	21896152	21896152	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctcgccttcctcctctggccGaacgctgggcaactcgtcct	4	10	9	18	4	1	0	0	0	1	0	6	1	4	0	5	2	2	2	5	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:21896152G>A	uc001was.1	-	4	734	c.640C>T	c.(640-642)CGG>TGG	p.R214W	CHD8_uc001war.1_Missense_Mutation_p.R110W	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	493					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		TCCTCTGGCCGAACGCTGGGC	0.542													28	40					0	0	1	0	0		A	21896152	A	A	21896152	3	1	214	1	0	0	0	0	1	0	0	0	3334	1057	37	1	6408	1	CHD8	14	21896152	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1412868	21896152	85453388	558	106976											
MYH6	4624	broad.mit.edu	37	chr14	23874886	23874886	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gaggttgaaaagcaccgcggGctcgtgcaggaaggtcagca	11	5	16	9	3	1	1	1	1	0	0	2	3	1	2	1	4	3	5	1	4	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:23874886G>A	uc001wjv.2	-	4	362	c.295C>T	c.(295-297)CCC>TCC	p.P99S	MYH6_uc010akp.1_Missense_Mutation_p.P99S	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	99	Myosin head-like.				adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		AGCACCGCGGGCTCGTGCAGG	0.587													11	39					0	0	1	0	0		A	23874886	A	A	23874886	3	1	214	1	0	0	0	0	1	0	0	0	10056	1203	42	2	5668	2	MYH6	14	23874886	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1978734	23874886	83474654	559	106977											
SCFD1	23256	broad.mit.edu	37	chr14	31119854	31119854	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acacttggagctggccaattCaggtattactgttattaaat	12	14	8	7	0	1	0	1	0	0	0	1	1	1	1	1	3	2	3	1	3	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:31119854C>T	uc001wqm.1	+	9	777	c.753C>T	c.(751-753)TTC>TTT	p.F251F	SCFD1_uc001wqn.1_Silent_p.F184F|SCFD1_uc010tpg.1_Silent_p.F192F|SCFD1_uc010tph.1_Silent_p.F66F|SCFD1_uc010amf.1_Silent_p.F66F|SCFD1_uc010tpi.1_Silent_p.F159F|SCFD1_uc010amd.1_Silent_p.F83F|SCFD1_uc010ame.1_Silent_p.F184F	NM_016106	NP_057190	Q8WVM8	SCFD1_HUMAN	vesicle transport-related protein isoform a	251					post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		CTGGCCAATTCAGGTATTACT	0.289													3	35					0	0	1	0	0		T	31119854	T	T	31119854	2	4	214	1	0	0	0	0	0	0	0	1	13914	825	29	4		4	SCFD1	14	31119854	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7244968	31119854	76229686	560	106978											
BAZ1A	11177	broad.mit.edu	37	chr14	35264077	35264077	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtagtctagttttcactggtGttggttctggaagttcctga	6	17	12	6	0	3	1	1	1	2	0	4	2	4	2	1	3	0	5	1	3	3	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:35264077G>T	uc001wsk.2	-	11	1809	c.1241C>A	c.(1240-1242)ACA>AAA	p.T414K	BAZ1A_uc001wsl.2_Missense_Mutation_p.T414K	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	414					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		TTTCACTGGTGTTGGTTCTGG	0.363													10	67					2.17888e-05	2.31945e-05	1	1	0		T	35264077	T	T	35264077	3	4	214	1	0	0	0	0	1	0	0	0	1330	1377	48	5	3497	5	BAZ1A	14	35264077	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4144223	35264077	72085463	561	106979											
KLHL28	54813	broad.mit.edu	37	chr14	45398293	45398293	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccagctgaatccagccacgTatctgagataggatcatatt	12	10	9	10	1	2	2	1	2	1	1	3	4	3	3	3	1	2	2	3	1	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:45398293T>G	uc001wvq.2	-	5	1900	c.1654A>C	c.(1654-1656)ACG>CCG	p.T552P	KLHL28_uc001wvr.2_Missense_Mutation_p.T552P	NM_017658	NP_060128	Q9NXS3	KLH28_HUMAN	BTB (POZ) domain containing 5	552	Kelch 6.									ovary(1)	1						TCCAGCCACGTATCTGAGATA	0.438													10	161					0	0	1	0	0		G	45398293	G	G	45398293	3	3	214	1	0	0	0	0	1	0	0	0	8398	1638	57	5	65	5	KLHL28	14	45398293	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	10134216	45398293	61951247	562	106980											
DACT1	51339	broad.mit.edu	37	chr14	59113504	59113504	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agcccctacgcctacgtggcTagcgactccgagtactcggc	7	7	11	16	5	0	0	0	0	0	0	2	2	1	0	4	2	5	2	4	2	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:59113504T>C	uc001xdw.2	+	4	2327	c.2163T>C	c.(2161-2163)GCT>GCC	p.A721A	DACT1_uc010trv.1_Silent_p.A440A|DACT1_uc001xdx.2_Silent_p.A684A|DACT1_uc010trw.1_Silent_p.A440A	NM_016651	NP_057735	Q9NYF0	DACT1_HUMAN	dapper 1 isoform 1	721					multicellular organismal development|Wnt receptor signaling pathway	cytoplasm|nucleus				large_intestine(2)|lung(2)|ovary(1)	5						CCTACGTGGCTAGCGACTCCG	0.662													6	60					0	0	1	0	0		C	59113504	C	C	59113504	2	2	214	1	0	0	0	0	0	0	0	1	4225	1509	53	3		3	DACT1	14	59113504	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	13715211	59113504	48236036	563	106981											
JKAMP	51528	broad.mit.edu	37	chr14	59954418	59954418	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccaagaggacagagaacgaaTgcacagaaatattgtcagcc	17	5	10	9	1	1	3	1	0	0	3	1	6	1	4	2	1	3	1	2	1	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:59954418T>A	uc001xei.3	+	3	667	c.165T>A	c.(163-165)AAT>AAA	p.N55K	JKAMP_uc001xef.3_Missense_Mutation_p.N41K|JKAMP_uc001xeh.3_Missense_Mutation_p.N35K|JKAMP_uc001xeg.3_Missense_Mutation_p.N49K|JKAMP_uc010try.1_5'UTR|JKAMP_uc001xej.3_5'UTR	NM_001098625	NP_001092095	Q9P055	JKAMP_HUMAN	JNK1-associated membrane protein isoform 2	56	Lumenal (Potential).				ER-associated protein catabolic process|response to unfolded protein	endoplasmic reticulum membrane|integral to membrane	ubiquitin protein ligase binding			breast(1)	1						AGAGAACGAATGCACAGAAAT	0.358													12	132					0	0	1	0	0		A	59954418	A	A	59954418	3	1	214	1	0	0	0	0	1	0	0	0	7965	1461	51	5	133	5	JKAMP	14	59954418	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	840914	59954418	47395122	564	106982											
KCNH5	27133	broad.mit.edu	37	chr14	63483580	63483580	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcttttctgcatgacgtcagCtcgatgatatccagagagtt	9	13	10	9	2	2	3	1	2	1	1	4	5	3	3	1	0	2	4	1	0	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:63483580C>T	uc001xfx.2	-	2	217	c.166G>A	c.(166-168)GCT>ACT	p.A56T	KCNH5_uc001xfy.2_Missense_Mutation_p.A56T|KCNH5_uc001xfz.1_5'UTR|KCNH5_uc001xga.2_5'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	56	Cytoplasmic (Potential).|PAS.				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		ATGACGTCAGCTCGATGATAT	0.363													6	63					0	0	1	0	0		T	63483580	T	T	63483580	3	4	214	1	0	0	0	0	1	0	0	0	8051	797	28	2	2874	2	KCNH5	14	63483580	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3529162	63483580	43865960	565	106983											
ZBTB1	22890	broad.mit.edu	37	chr14	64988534	64988534	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaagtggcaatgaactacctAcagctatacaatgttcctga	15	10	7	9	0	0	2	0	2	0	0	1	2	1	2	2	1	5	3	2	1	8	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:64988534A>G	uc001xhh.3	+	4	743	c.312A>G	c.(310-312)CTA>CTG	p.L104L	ZBTB1_uc010aqg.2_Silent_p.L104L|ZBTB1_uc001xhi.2_Silent_p.L104L	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	104					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		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)		TGAACTACCTACAGCTATACA	0.378													6	108					0	0	1	0	0		G	64988534	G	G	64988534	2	3	214	1	0	0	0	0	0	0	0	1	17547	378	14	3		3	ZBTB1	14	64988534	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1504954	64988534	42361006	566	106984											
RAB15	376267	broad.mit.edu	37	chr14	65419254	65419254	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtatccgcactttgatgcCgtctacctctatggtcttca	6	15	7	13	2	4	1	1	1	3	0	5	1	5	1	3	1	2	2	3	1	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:65419254C>A	uc001xhz.2	-	2	241	c.160G>T	c.(160-162)GGC>TGC	p.G54C	FNTB_uc010tsl.1_Intron|FNTB_uc010tsm.1_Intron|RAB15_uc010aqk.2_RNA	NM_198686	NP_941959	P59190	RAB15_HUMAN	RAB15, member RAS onocogene family	54					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			ovary(1)	1				all cancers(60;0.00136)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.0102)		ACTTTGATGCCGTCTACCTCT	0.453													7	96					0.00307968	0.00319512	1	1	0		A	65419254	A	A	65419254	3	1	214	1	0	0	0	0	1	0	0	0	12926	652	23	5	490	5	RAB15	14	65419254	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	430720	65419254	41930286	567	106985											
EXD2	55218	broad.mit.edu	37	chr14	69707665	69707665	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgtcacagccagggtggcCtgcgctccctcatgcagctg	6	8	13	14	1	2	0	2	0	0	0	3	0	3	0	3	2	4	3	3	2	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:69707665C>A	uc001xkt.2	+	11	1998	c.1339C>A	c.(1339-1341)CTG>ATG	p.L447M	EXD2_uc001xku.2_Missense_Mutation_p.L317M|EXD2_uc001xkv.2_Missense_Mutation_p.L572M|EXD2_uc001xkw.2_Missense_Mutation_p.L447M|EXD2_uc010aqt.2_Missense_Mutation_p.L572M|EXD2_uc010tte.1_Missense_Mutation_p.L572M|EXD2_uc001xky.2_Missense_Mutation_p.L447M	NM_018199	NP_060669	Q9NVH0	EXD2_HUMAN	exonuclease 3'-5' domain containing 2	447					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						CCAGGGTGGCCTGCGCTCCCT	0.562													4	29					0.00024832	0.000260463	1	1	0		A	69707665	A	A	69707665	3	1	214	1	0	0	0	0	1	0	0	0	5306	680	24	5	1365	5	EXD2	14	69707665	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4288411	69707665	37641875	568	106986											
TMEM90A	646658	broad.mit.edu	37	chr14	74874344	74874344	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggctaggaagagggcccggCgggaggtggtgctggccagg	6	5	22	8	2	0	1	0	0	0	1	0	3	0	3	2	9	1	2	2	9	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:74874344C>T	uc001xpx.2	-	4	859	c.611G>A	c.(610-612)CGC>CAC	p.R204H		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	204					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		GAGGGCCCGGCGGGAGGTGGT	0.637													13	87					0	0	1	0	0		T	74874344	T	T	74874344	3	4	214	1	0	0	0	0	1	0	0	0	16243	768	27	1	109	1	TMEM90A	14	74874344	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	5166679	74874344	32475196	569	106987											
ALKBH1	8846	broad.mit.edu	37	chr14	78140225	78140225	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccagatggcagaaaccttctGtactgatgtctcttttttca	9	15	7	10	0	3	3	1	1	2	2	4	3	3	3	2	1	2	2	2	1	2	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:78140225G>A	uc001xuc.1	-	6	1109	c.1100C>T	c.(1099-1101)ACA>ATA	p.T367I	ALKBH1_uc001xud.1_RNA	NM_006020	NP_006011	Q13686	ALKB1_HUMAN	alkylated DNA repair protein alkB homolog	367					DNA dealkylation involved in DNA repair|DNA demethylation|oxidative demethylation|RNA repair	mitochondrion	DNA-(apurinic or apyrimidinic site) lyase activity|ferrous iron binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)|skin(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		GAAACCTTCTGTACTGATGTC	0.483													7	94					0	0	1	0	0		A	78140225	A	A	78140225	3	1	214	1	0	0	0	0	1	0	0	0	526	1377	48	4	73	4	ALKBH1	14	78140225	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3265881	78140225	29209315	570	106988											
C14orf156	81892	broad.mit.edu	37	chr14	78174499	78174499	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgcggcgctgcgtagaagTatcaatcagccggttgcttt	7	11	13	10	4	2	1	2	0	0	1	2	1	2	1	1	2	4	6	1	2	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:78174499T>C	uc001xue.3	+	1	75	c.45T>C	c.(43-45)AGT>AGC	p.S15S	ALKBH1_uc001xuc.1_5'Flank|ALKBH1_uc001xud.1_5'Flank	NM_031210	NP_112487	Q9GZT3	SLIRP_HUMAN	SRA stem-loop-interacting RNA-binding protein	15					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	nucleotide binding|RNA binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0276)		TGCGTAGAAGTATCAATCAGC	0.542													9	54					0	0	1	0	0		C	78174499	C	C	78174499	2	2	214	1	0	0	0	0	0	0	0	1	1757	1635	57	3		3	C14orf156	14	78174499	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	34274	78174499	29175041	571	106989											
BTBD7	55727	broad.mit.edu	37	chr14	93717898	93717898	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgtgacaacactgtggcacgGcattattgaccatgtagagc	11	10	11	9	1	0	3	0	2	0	1	0	3	0	3	1	2	2	3	1	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:93717898G>A	uc001ybo.2	-	8	2179	c.1853C>T	c.(1852-1854)GCC>GTC	p.A618V	BTBD7_uc010aur.2_Missense_Mutation_p.A143V|BTBD7_uc010two.1_Missense_Mutation_p.A438V|BTBD7_uc001ybp.2_Missense_Mutation_p.A267V	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	618										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		CTGTGGCACGGCATTATTGAC	0.493													24	160					0	0	1	0	0		A	93717898	A	A	93717898	3	1	214	1	0	0	0	0	1	0	0	0	1549	1203	42	2	1561	2	BTBD7	14	93717898	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	15543399	93717898	13631642	572	106990											
BCL11B	64919	broad.mit.edu	37	chr14	99641679	99641679	+	Frame_Shift_Del	DEL	G	-	-																															agctcgctggtgccgggctcGggggagctggcggccgagag																										TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:99641679delG	uc001yga.2	-	4	1761	c.1494delC	c.(1492-1494)CCCfs	p.P498fs	BCL11B_uc001ygb.2_Frame_Shift_Del_p.P427fs	NM_138576	NP_612808	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B isoform 1	498						nucleus	zinc ion binding			central_nervous_system(8)|large_intestine(1)|lung(1)	10		Melanoma(154;0.0866)|all_epithelial(191;0.241)		COAD - Colon adenocarcinoma(157;0.103)		TGCCGGGCTCGGGGGAGCTGG	0.721			T	TLX3	T-ALL								3	5	---	---	---	---						.	-	99641679	-	-	99641679	7	5	214	1	0	1	0	1	0	0	0	0	1365	1103	39	0	1194	0	BCL11B	14	99641679	Frame_Shift_Del	DEL	G	TCGA-HU-A4H4-01A-21D-A25D-08	5923781	99641679	7707861	573	106991											
DYNC1H1	1778	broad.mit.edu	37	chr14	102505767	102505767	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agatacacttcttgtaccagTactccctccagtttttcctg	8	15	5	13	0	1	1	0	0	1	1	4	1	4	1	4	0	3	3	4	0	3	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:102505767T>C	uc001yks.2	+	61	11643	c.11479T>C	c.(11479-11481)TAC>CAC	p.Y3827H		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3827					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CTTGTACCAGTACTCCCTCCA	0.542													10	54					0	0	1	0	0		C	102505767	C	C	102505767	3	2	214	1	0	0	0	0	1	0	0	0	4847	1638	57	3	11721	3	DYNC1H1	14	102505767	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2864088	102505767	4843773	574	106992											
KIF26A	26153	broad.mit.edu	37	chr14	104641626	104641626	+	Missense_Mutation	SNP	A	T	T	1	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	caagggtccccgagacgcagAccacttccgctgcagcacct	9	5	10	17	3	0	2	0	0	0	2	2	3	2	2	5	1	2	4	5	1	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:104641626A>T	uc001yos.3	+	12	2501	c.2501A>T	c.(2500-2502)GAC>GTC	p.D834V		NM_015656	NP_056471	Q9ULI4	KI26A_HUMAN	kinesin family member 26A	834					blood coagulation|enteric nervous system development|microtubule-based movement|negative regulation of signal transduction|regulation of cell growth by extracellular stimulus	cytosol|microtubule	ATP binding|microtubule binding|microtubule motor activity			pancreas(1)	1		all_cancers(154;0.109)|Melanoma(154;0.0525)|all_epithelial(191;0.0767)	Epithelial(46;0.152)	Epithelial(152;0.161)		CGAGACGCAGACCACTTCCGC	0.672													3	17					0	0	1	0	0		T	104641626	T	T	104641626	3	4	214	1	0	0	0	0	1	0	0	0	8310	275	10	5	2547	5	KIF26A	14	104641626	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2135859	104641626	2707914	575	106993											
AHNAK2	113146	broad.mit.edu	37	chr14	105414753	105414753	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgtcggcctccaccttcaaCgcagacacatccgctgaggc	9	6	9	17	4	1	2	1	1	0	1	4	2	3	2	4	2	1	2	4	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr14:105414753C>T	uc010axc.1	-	7	7155	c.7035G>A	c.(7033-7035)GCG>GCA	p.A2345A	AHNAK2_uc001ypx.2_Silent_p.A2245A	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2345						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCACCTTCAACGCAGACACAT	0.597													21	221					0	0	1	0	0		T	105414753	T	T	105414753	2	4	214	1	0	0	0	0	0	0	0	1	415	523	19	1		1	AHNAK2	14	105414753	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	773127	105414753	1934787	576	106994											
NDNL2	56160	broad.mit.edu	37	chr15	29561233	29561233	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggtaacgctgtcgcacaaagTcctcagtaatgagtttcttt	10	13	9	9	2	2	1	1	1	1	0	4	1	3	1	1	1	1	5	1	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:29561233T>C	uc001zco.2	-	1	785	c.677A>G	c.(676-678)GAC>GGC	p.D226G	FAM189A1_uc010azk.1_Intron	NM_138704	NP_619649	Q96MG7	MAGG1_HUMAN	necdin-like 2	226	MAGE.				regulation of growth	cytoplasm|nucleus					0		all_lung(180;4.69e-11)|Breast(32;0.0013)		all cancers(64;8.37e-11)|Epithelial(43;9.29e-10)|BRCA - Breast invasive adenocarcinoma(123;0.00736)|GBM - Glioblastoma multiforme(186;0.018)|Lung(196;0.153)		TCGCACAAAGTCCTCAGTAAT	0.537													13	106					0	0	1	0	0		C	29561233	C	C	29561233	3	2	214	1	0	0	0	0	1	0	0	0	10267	1667	58	3	241	3	NDNL2	15	29561233	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08		29561233	72970159	577	106995											
TJP1	7082	broad.mit.edu	37	chr15	30019143	30019143	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caattggataccactgggcaTagttaagacgatcaactgca	14	9	9	9	1	1	1	1	0	0	1	1	3	1	2	1	2	3	3	1	2	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:30019143T>C	uc001zcr.2	-	17	2628	c.2153A>G	c.(2152-2154)TAT>TGT	p.Y718C	TJP1_uc010azl.2_Missense_Mutation_p.Y706C|TJP1_uc001zcq.2_Missense_Mutation_p.Y722C|TJP1_uc001zcs.2_Missense_Mutation_p.Y718C	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	718	Guanylate kinase-like.				cell-cell junction assembly|cellular component disassembly involved in apoptosis	basolateral plasma membrane|cell-cell adherens junction|Golgi apparatus|tight junction				ovary(4)|central_nervous_system(1)|pancreas(1)	6		all_lung(180;7.48e-11)|Breast(32;0.000153)		all cancers(64;3.29e-10)|Epithelial(43;5.34e-09)|BRCA - Breast invasive adenocarcinoma(123;0.0034)|GBM - Glioblastoma multiforme(186;0.0139)|Lung(196;0.186)		CCACTGGGCATAGTTAAGACG	0.348													18	96					0	0	1	0	0		C	30019143	C	C	30019143	3	2	214	1	0	0	0	0	1	0	0	0	15954	1406	49	3	3141	3	TJP1	15	30019143	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	457910	30019143	72512249	578	106996											
AQR	9716	broad.mit.edu	37	chr15	35176884	35176884	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccgtaacatctggcaatgTactacctttatttttcactt	9	18	4	10	1	2	0	1	0	1	0	3	0	3	0	2	1	3	3	2	1	5	9			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:35176884T>C	uc001ziv.2	-	26	3050	c.2869A>G	c.(2869-2871)ACA>GCA	p.T957A		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	957						catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)		TCTGGCAATGTACTACCTTTA	0.368													7	49					0	0	1	0	0		C	35176884	C	C	35176884	3	2	214	1	0	0	0	0	1	0	0	0	835	1638	57	3	1628	3	AQR	15	35176884	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	5157741	35176884	67354508	579	106997											
SPRED1	161742	broad.mit.edu	37	chr15	38632046	38632046	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatataagaccttctcccTttgaagatctgaatgccaga	14	11	6	10	0	2	5	0	2	2	3	3	5	2	5	3	0	1	0	3	0	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:38632046T>C	uc001zka.3	+	5	867	c.532T>C	c.(532-534)TTT>CTT	p.F178L		NM_152594	NP_689807	Q7Z699	SPRE1_HUMAN	sprouty-related protein 1 with EVH-1 domain	178					inactivation of MAPK activity|multicellular organismal development	caveola|nucleus	stem cell factor receptor binding			ovary(2)|lung(2)|skin(1)	5		all_cancers(109;4.88e-13)|all_epithelial(112;1.83e-11)|Lung NSC(122;2.21e-09)|all_lung(180;4.64e-08)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(113;2.41e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0244)		ACCTTCTCCCTTTGAAGATCT	0.388									Legius_syndrome				9	47					0	0	1	0	0		C	38632046	C	C	38632046	3	2	214	1	0	0	0	0	1	0	0	0	15117	1609	56	3	550	3	SPRED1	15	38632046	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3455162	38632046	63899346	580	106998											
VPS18	57617	broad.mit.edu	37	chr15	41192972	41192972	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atccgctacatggagttctgCgtgaacgtgctgggggagac	8	9	15	9	3	1	2	0	1	1	1	2	4	2	3	1	3	4	3	1	3	2	2	rs140514025		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:41192972C>T	uc001zne.2	+	4	2295	c.1956C>T	c.(1954-1956)TGC>TGT	p.C652C		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	652	Clathrin.				endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		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)		TGGAGTTCTGCGTGAACGTGC	0.622													22	81					0	0	1	0	0		T	41192972	T	T	41192972	2	4	214	1	0	0	0	0	0	0	0	1	17220	776	27	1		1	VPS18	15	41192972	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2560926	41192972	61338420	581	106999											
PLA2G4F	255189	broad.mit.edu	37	chr15	42434265	42434265	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtctccacgttgttcaggaCgttgtatcgactgagggcca	7	11	13	10	3	2	1	1	1	1	0	4	3	2	2	2	3	0	4	2	3	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:42434265C>T	uc001zoz.2	-	20	2530	c.2467G>A	c.(2467-2469)GTC>ATC	p.V823I	PLA2G4F_uc010bcq.2_Missense_Mutation_p.V120I|PLA2G4F_uc001zoy.2_Missense_Mutation_p.V455I|PLA2G4F_uc010bcr.2_Missense_Mutation_p.V574I|PLA2G4F_uc001zpa.2_Missense_Mutation_p.V574I|PLA2G4F_uc010bcs.2_Missense_Mutation_p.V610I	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	823	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		TTGTTCAGGACGTTGTATCGA	0.597													8	62					0	0	1	0	0		T	42434265	T	T	42434265	3	4	214	1	0	0	0	0	1	0	0	0	12025	536	19	1	86	1	PLA2G4F	15	42434265	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1241293	42434265	60097127	582	107000											
DUOX2	50506	broad.mit.edu	37	chr15	45398766	45398766	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttccttcttcacgctctcTttgagtttcttttgtagctt	3	21	6	11	1	4	1	1	1	3	0	6	1	5	1	1	0	1	5	1	0	1	9			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:45398766T>G	uc010bea.2	-	16	2108	c.1905A>C	c.(1903-1905)AAA>AAC	p.K635N	DUOX2_uc001zun.2_Missense_Mutation_p.K635N	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	dual oxidase 2 precursor	635	Cytoplasmic (Potential).				cuticle development|cytokine-mediated signaling pathway|hormone biosynthetic process|hydrogen peroxide catabolic process|response to cAMP|response to virus	apical plasma membrane|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|NAD(P)H oxidase activity|peroxidase activity			ovary(2)|skin(2)|pancreas(1)	5		all_cancers(109;3.79e-11)|all_epithelial(112;2.92e-09)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;1.05e-18)|GBM - Glioblastoma multiforme(94;4.23e-07)|COAD - Colon adenocarcinoma(120;0.0668)|Colorectal(133;0.068)		TCACGCTCTCTTTGAGTTTCT	0.557													7	151					0	0	1	0	0		G	45398766	G	G	45398766	3	3	214	1	0	0	0	0	1	0	0	0	4807	1606	56	5	2817	5	DUOX2	15	45398766	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2964501	45398766	57132626	583	107001											
NARG2	79664	broad.mit.edu	37	chr15	60740299	60740299	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttccttcctgaggagctaggTattccgatgtatcttcaaca	9	14	8	10	1	2	1	1	1	1	0	5	3	5	2	3	2	2	3	3	2	4	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:60740299T>C	uc002agp.2	-	11	2400	c.2165A>G	c.(2164-2166)TAC>TGC	p.Y722C	NARG2_uc002ago.2_Missense_Mutation_p.Y585C|NARG2_uc002agq.3_Intron	NM_024611	NP_078887	Q659A1	NARG2_HUMAN	NMDA receptor regulated 2 isoform a	722						nucleus				ovary(1)|lung(1)	2						AGGAGCTAGGTATTCCGATGT	0.368													6	45					0	0	1	0	0		C	60740299	C	C	60740299	3	2	214	1	0	0	0	0	1	0	0	0	10187	1638	57	3	807	3	NARG2	15	60740299	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	15341533	60740299	41791093	584	107002											
NEO1	4756	broad.mit.edu	37	chr15	73562761	73562761	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ggtcgaagatcaagtacatgGagtatgacagcccatgggac	13	7	13	8	1	1	2	1	1	0	1	2	5	1	4	1	3	2	2	1	3	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:73562761G>A	uc002avm.3	+	18	2965	c.2823G>A	c.(2821-2823)TGG>TGA	p.W941*	NEO1_uc010ukx.1_Nonsense_Mutation_p.W941*|NEO1_uc010uky.1_Nonsense_Mutation_p.W941*|NEO1_uc010ukz.1_Nonsense_Mutation_p.W365*|NEO1_uc002avn.3_Nonsense_Mutation_p.W590*	NM_002499	NP_002490	Q92859	NEO1_HUMAN	neogenin homolog 1 precursor	941	Extracellular (Potential).|Fibronectin type-III 5.				axon guidance|cell adhesion|positive regulation of muscle cell differentiation	Golgi apparatus|integral to plasma membrane|nucleus				pancreas(1)	1						CAAGTACATGGAGTATGACAG	0.433													4	31					0	0	1	0	0		A	73562761	A	A	73562761	4	1	214	1	0	0	0	0	0	1	0	0	10355	1183	41	4	2893	4	NEO1	15	73562761	Nonsense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	12822462	73562761	28968631	585	107003											
LINGO1	84894	broad.mit.edu	37	chr15	77907220	77907220	+	Silent	SNP	A	G	G	1	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	agtgtggtcagctggttgccAgagacattgagcacgcgcag	9	8	15	9	2	1	2	1	1	0	1	1	3	1	2	1	2	3	4	1	2	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:77907220A>G	uc002bct.1	-	2	1081	c.1029T>C	c.(1027-1029)TCT>TCC	p.S343S	LINGO1_uc002bcu.1_Silent_p.S337S	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	343	Extracellular (Potential).|LRR 11.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						GCTGGTTGCCAGAGACATTGA	0.642													3	20					0	0	1	0	0		G	77907220	G	G	77907220	2	3	214	1	0	0	0	0	0	0	0	1	8831	175	7	3		3	LINGO1	15	77907220	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4344459	77907220	24624172	586	107004											
ADAMTS7	11173	broad.mit.edu	37	chr15	79058532	79058532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gccaacaggggacaaaggggGcagcgtggagctgggtctcg	9	4	19	9	2	1	0	0	0	1	0	2	2	1	2	1	6	3	2	1	6	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:79058532G>A	uc002bej.3	-	19	3932	c.3721C>T	c.(3721-3723)CCC>TCC	p.P1241S	ADAMTS7_uc010und.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1241					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						GACAAAGGGGGCAGCGTGGAG	0.652													5	31					0	0	1	0	0		A	79058532	A	A	79058532	3	1	214	1	0	0	0	0	1	0	0	0	271	1203	42	2	1363	2	ADAMTS7	15	79058532	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1151312	79058532	23472860	587	107005											
BTBD1	53339	broad.mit.edu	37	chr15	83710649	83710649	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ctttctcgaatactgagtgtGtctctctctaaaactgcaca	10	14	6	11	1	3	1	0	1	3	0	6	2	3	1	0	0	3	1	0	0	4	3	rs144730017		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:83710649G>C	uc002bjn.2	-	4	896	c.693C>G	c.(691-693)GAC>GAG	p.D231E	BTBD1_uc002bjo.2_Missense_Mutation_p.D231E	NM_025238	NP_079514	Q9H0C5	BTBD1_HUMAN	BTB (POZ) domain containing 1 isoform 1	231						cytoplasmic mRNA processing body|protein complex	protein binding			ovary(1)|central_nervous_system(1)	2				all cancers(203;0.000186)		TACTGAGTGTGTCTCTCTCTA	0.388													4	53					0	0	1	0	0		C	83710649	C	C	83710649	3	2	214	1	0	0	0	0	1	0	0	0	1540	1368	48	5	775	5	BTBD1	15	83710649	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4652117	83710649	18820743	588	107006											
HDGFRP3	50810	broad.mit.edu	37	chr15	83876145	83876145	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caggtcgcccgctttgtactCgcggggccgcggacgcgcca	4	6	15	16	8	0	0	0	0	0	0	2	1	0	1	3	4	1	2	3	4	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:83876145C>T	uc002bjs.1	-	1	177	c.22G>A	c.(22-24)GAG>AAG	p.E8K		NM_016073	NP_057157	Q9Y3E1	HDGR3_HUMAN	hepatoma-derived growth factor, related protein	8					cell proliferation	nucleus	growth factor activity				0						GCTTTGTACTCGCGGGGCCGC	0.612													4	11					0	0	1	0	0		T	83876145	T	T	83876145	3	4	214	1	0	0	0	0	1	0	0	0	7037	893	31	1	613	1	HDGFRP3	15	83876145	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	165496	83876145	18655247	589	107007											
AKAP13	11214	broad.mit.edu	37	chr15	86278836	86278836	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggccaagatcttaggagaaCggaatcagatagtggcctaa	14	8	12	7	1	2	3	1	0	1	3	2	5	2	4	2	4	1	0	2	4	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:86278836C>T	uc002blv.1	+	32	7657	c.7487C>T	c.(7486-7488)ACG>ATG	p.T2496M	AKAP13_uc002blu.1_Missense_Mutation_p.T2500M|AKAP13_uc002blw.1_Missense_Mutation_p.T961M|AKAP13_uc002blx.1_Missense_Mutation_p.T741M	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	2496	Interaction with ESR1.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						CTTAGGAGAACGGAATCAGAT	0.363													20	45					0	0	1	0	0		T	86278836	T	T	86278836	3	4	214	1	0	0	0	0	1	0	0	0	449	536	19	1	7679	1	AKAP13	15	86278836	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2402691	86278836	16252556	590	107008											
NTRK3	4916	broad.mit.edu	37	chr15	88680633	88680633	+	Splice_Site	SNP	A	G	G	1	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	ggccaggcggccactcactcAccacactgactgatgttcat	9	8	9	15	1	3	2	3	2	0	0	3	2	3	2	3	3	0	1	3	3	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:88680633A>G	uc002bme.1	-	6	784	c.622_splice	c.e6+1	p.D208_splice	NTRK3_uc002bmh.2_Splice_Site_p.D208_splice|NTRK3_uc002bmf.1_Splice_Site_p.D208_splice|NTRK3_uc010upl.1_Splice_Site_p.D110_splice|NTRK3_uc010bnh.1_Splice_Site_p.D208_splice|NTRK3_uc002bmg.2_Splice_Site_p.D208_splice	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			CCACTCACTCACCACACTGAC	0.597			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			9	22					0	0	1	0	0		G	88680633	G	G	88680633	5	3	214	1	0	0	0	0	0	0	1	0	10727	173	6	3	2213	3	NTRK3	15	88680633	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2401797	88680633	13850759	591	107009											
DET1	55070	broad.mit.edu	37	chr15	89074729	89074729	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agaaaaagcaataaagtagcGtccatcaggtgagaatttac	18	8	9	6	1	1	2	1	1	0	2	2	3	2	2	1	1	3	2	1	1	8	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:89074729G>A	uc002bmr.2	-	2	360	c.208C>T	c.(208-210)CGC>TGC	p.R70C	DET1_uc002bmp.3_Intron|DET1_uc010bnk.2_Intron|DET1_uc002bmq.2_Missense_Mutation_p.R81C	NM_001144074	NP_001137546	Q7L5Y6	DET1_HUMAN	de-etiolated 1 isoform 2	70						nucleus				lung(1)|pancreas(1)	2	Lung NSC(78;0.105)|all_lung(78;0.182)		BRCA - Breast invasive adenocarcinoma(143;0.188)			ATAAAGTAGCGTCCATCAGGT	0.473													27	90					0	0	1	0	0		A	89074729	A	A	89074729	3	1	214	1	0	0	0	0	1	0	0	0	4456	1145	40	1	1460	1	DET1	15	89074729	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	394096	89074729	13456663	592	107010											
RHCG	51458	broad.mit.edu	37	chr15	90039599	90039599	+	Silent	SNP	G	T	T	0	0	1	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	cggcgagacttacttgggtaGcgatagtagaattcgttctc	9	12	12	8	4	1	2	0	0	1	2	3	4	1	2	0	2	2	3	0	2	5	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:90039599G>T	uc002bnz.2	-	1	201	c.177C>A	c.(175-177)CGC>CGA	p.R59R	RHCG_uc002boa.2_RNA|RHCG_uc010bnq.1_5'UTR	NM_016321	NP_057405	Q9UBD6	RHCG_HUMAN	Rh family, C glycoprotein	59	Extracellular (Potential).				amine transport|cellular ion homeostasis|epithelial cell differentiation|transepithelial ammonium transport	apical plasma membrane|basolateral plasma membrane|cytoplasmic vesicle|integral to plasma membrane	ammonia transmembrane transporter activity|ammonium transmembrane transporter activity|ankyrin binding			kidney(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)					TACTTGGGTAGCGATAGTAGA	0.637													9	178					2.27111e-07	2.45417e-07	1	1	0		T	90039599	T	T	90039599	2	4	214	1	0	0	0	0	0	0	0	1	13351	958	34	5		5	RHCG	15	90039599	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	964870	90039599	12491793	593	107011											
MAN2A2	4122	broad.mit.edu	37	chr15	91462922	91462922	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tattccttcagccaacctccTtgacgttactgtaccctctg	7	14	5	15	1	2	1	1	1	1	0	4	1	4	1	5	0	4	2	5	0	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:91462922T>G	uc010bnz.2	+	23	3473	c.3358T>G	c.(3358-3360)TTG>GTG	p.L1120V	MAN2A2_uc002bqc.2_Missense_Mutation_p.L1120V|MAN2A2_uc010uql.1_Missense_Mutation_p.L782V|MAN2A2_uc010uqm.1_Missense_Mutation_p.L699V|MAN2A2_uc010uqn.1_RNA	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	1120					mannose metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-mannosidase activity|carbohydrate binding|mannosyl-oligosaccharide 1,3-1,6-alpha-mannosidase activity|zinc ion binding			large_intestine(2)|ovary(1)	3	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.229)			GCCAACCTCCTTGACGTTACT	0.577													23	170					0	0	1	0	0		G	91462922	G	G	91462922	3	3	214	1	0	0	0	0	1	0	0	0	9233	1606	56	5	3444	5	MAN2A2	15	91462922	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1423323	91462922	11068470	594	107012											
TARSL2	123283	broad.mit.edu	37	chr15	102211872	102211872	+	Splice_Site	SNP	A	G	G	1	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	ttgaagcatgtggtcgactcActttagggccataaaatgct	11	12	10	8	1	1	1	1	1	0	0	2	2	1	1	1	2	2	2	1	2	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr15:102211872A>G	uc002bxm.2	-	14	1921	c.1866_splice	c.e14+1	p.K622_splice	TARSL2_uc002bxl.2_Splice_Site_p.K167_splice|TARSL2_uc010usi.1_Splice_Site	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2						threonyl-tRNA aminoacylation	cytoplasm	ATP binding|threonine-tRNA ligase activity			ovary(2)	2	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000268)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGGTCGACTCACTTTAGGGCC	0.343													9	47					0	0	1	0	0		G	102211872	G	G	102211872	5	3	214	1	0	0	0	0	0	0	1	0	15586	173	6	3	564	3	TARSL2	15	102211872	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	10748950	102211872	319520	595	107013											
SOX8	30812	broad.mit.edu	37	chr16	1035326	1035326	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacggcctggccctgccgccCgcccacagccccaccagtca	7	3	9	22	3	1	0	1	0	0	0	1	0	1	0	8	2	3	0	8	2	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:1035326C>T	uc002ckn.2	+	3	1396	c.1281C>T	c.(1279-1281)CCC>CCT	p.P427P		NM_014587	NP_055402	P57073	SOX8_HUMAN	SRY (sex determining region Y)-box 8	427					adipose tissue development|enteric nervous system development|fat cell differentiation|in utero embryonic development|metanephric nephron tubule formation|morphogenesis of a branching epithelium|negative regulation of apoptosis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|neural crest cell migration|oligodendrocyte differentiation|osteoblast differentiation|peripheral nervous system development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of gliogenesis|positive regulation of osteoblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of hormone levels|renal vesicle induction|retinal rod cell differentiation|Sertoli cell development|signal transduction|spermatogenesis|ureter morphogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2		Hepatocellular(780;0.00308)				CCCTGCCGCCCGCCCACAGCC	0.736													3	14					0	0	1	0	0		T	1035326	T	T	1035326	2	4	214	1	0	0	0	0	0	0	0	1	14982	639	23	1		1	SOX8	16	1035326	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08		1035326	89319427	596	107014											
PRSS22	64063	broad.mit.edu	37	chr16	2903195	2903195	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccttgcacgatcttctccaCccaggagcggtgcgcagaga	8	7	11	15	3	2	1	0	0	2	1	3	4	2	2	3	2	3	2	3	2	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:2903195C>T	uc002cry.1	-	6	919	c.853G>A	c.(853-855)GTG>ATG	p.V285M	PRSS22_uc002crz.1_Missense_Mutation_p.V175M	NM_022119	NP_071402	Q9GZN4	BSSP4_HUMAN	protease, serine, 22 precursor	285	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1						ATCTTCTCCACCCAGGAGCGG	0.736													7	56					0	0	1	0	0		T	2903195	T	T	2903195	3	4	214	1	0	0	0	0	1	0	0	0	12641	507	18	4	104	4	PRSS22	16	2903195	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1867869	2903195	87451558	597	107015											
DNAJA3	9093	broad.mit.edu	37	chr16	4492299	4492299	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agttgacattcaatcaagctGcaaagggggtcaacaaggag	15	7	12	7	0	3	1	3	1	0	0	3	2	3	2	0	3	3	3	0	3	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:4492299G>A	uc002cwk.2	+	5	686	c.661G>A	c.(661-663)GCA>ACA	p.A221T	DNAJA3_uc002cwl.2_Missense_Mutation_p.A221T|DNAJA3_uc010uxk.1_Missense_Mutation_p.A68T	NM_005147	NP_005138	Q96EY1	DNJA3_HUMAN	DnaJ (Hsp40) homolog, subfamily A, member 3	221					activation of caspase activity|negative regulation of apoptosis|negative regulation of caspase activity|negative regulation of cell proliferation|negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interferon-gamma-mediated signaling pathway|negative regulation of NF-kappaB transcription factor activity|negative regulation of protein kinase activity|neuromuscular junction development|positive regulation of apoptosis|positive regulation of protein ubiquitination|protein folding|protein folding|protein stabilization|response to heat|response to interferon-gamma	cytosol|mitochondrial matrix|mitochondrial nucleoid|nucleus	ATP binding|heat shock protein binding|interferon-gamma receptor binding|metal ion binding|NF-kappaB binding|protein kinase binding			ovary(2)|breast(2)	4						CAATCAAGCTGCAAAGGGGGT	0.517													20	67					0	0	1	0	0		A	4492299	A	A	4492299	3	1	214	1	0	0	0	0	1	0	0	0	4619	1319	46	2	679	2	DNAJA3	16	4492299	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1589104	4492299	85862454	598	107016											
MGRN1	23295	broad.mit.edu	37	chr16	4723651	4723651	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gccaacaactgccccatctgCcggctgcgtgagttccccgg	6	7	11	17	3	1	1	0	1	1	0	2	1	2	1	6	2	5	2	6	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:4723651C>T	uc002cwz.2	+	10	1084	c.948C>T	c.(946-948)TGC>TGT	p.C316C	MGRN1_uc002cxa.2_Silent_p.C316C|MGRN1_uc010btx.2_Silent_p.C317C|MGRN1_uc010btw.2_Silent_p.C317C|MGRN1_uc002cxb.2_Silent_p.C355C|MGRN1_uc010uxo.1_Silent_p.C316C|MGRN1_uc010uxp.1_Silent_p.C316C|MGRN1_uc010uxq.1_RNA	NM_001142290	NP_001135762	O60291	MGRN1_HUMAN	mahogunin, ring finger 1 isoform 3	316	RING-type.				endosome to lysosome transport|negative regulation of cAMP-mediated signaling|negative regulation of G-protein coupled receptor protein signaling pathway|protein monoubiquitination	cytosol|early endosome|nucleus|plasma membrane|plasma membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2						GCCCCATCTGCCGGCTGCGTG	0.662													10	41					0	0	1	0	0		T	4723651	T	T	4723651	2	4	214	1	0	0	0	0	0	0	0	1	9577	747	26	2		2	MGRN1	16	4723651	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	231352	4723651	85631102	599	107017											
C16orf71	146562	broad.mit.edu	37	chr16	4787857	4787857	+	Silent	SNP	T	C	C	0	1	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	cgaaaccaaacctccctgatTccagacctgtcggaggagct	11	7	9	14	2	0	2	0	1	0	1	3	5	2	4	5	2	3	1	5	2	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:4787857T>C	uc002cxn.2	+	3	648	c.186T>C	c.(184-186)ATT>ATC	p.I62I		NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	62										central_nervous_system(1)	1						CCTCCCTGATTCCAGACCTGT	0.582													4	61					0	0	1	0	0		C	4787857	C	C	4787857	2	2	214	1	0	0	0	0	0	0	0	1	1833	1771	62	3		3	C16orf71	16	4787857	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	64206	4787857	85566896	600	107018											
UBN1	29855	broad.mit.edu	37	chr16	4924265	4924265	+	Silent	SNP	T	C	C	0	1	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	gtcccatcaggacagattggTggccccattgctttgccctc	6	11	10	14	0	1	1	1	0	0	1	3	2	2	2	4	3	2	1	4	3	0	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:4924265T>C	uc002cyb.2	+	15	2193	c.1854T>C	c.(1852-1854)GGT>GGC	p.G618G	UBN1_uc010uxw.1_Silent_p.G618G|UBN1_uc002cyc.2_Silent_p.G618G	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	618					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						GACAGATTGGTGGCCCCATTG	0.517													19	134					0	0	1	0	0		C	4924265	C	C	4924265	2	2	214	1	0	0	0	0	0	0	0	1	16918	1683	59	3		3	UBN1	16	4924265	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	136408	4924265	85430488	601	107019											
PPL	5493	broad.mit.edu	37	chr16	4940285	4940285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	actgcagcacgtggtcatggCcgcggtggaagtgctcgtag	7	8	16	10	4	1	0	1	0	0	0	2	1	1	1	1	4	3	4	1	4	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:4940285C>T	uc002cyd.1	-	18	2303	c.2213G>A	c.(2212-2214)GGC>GAC	p.G738D		NM_002705	NP_002696	O60437	PEPL_HUMAN	periplakin	738	Spectrin 4.|Potential.				keratinization	cytoskeleton|desmosome|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(4)|central_nervous_system(1)|skin(1)	6						GTGGTCATGGCCGCGGTGGAA	0.597													3	45					0	0	1	0	0		T	4940285	T	T	4940285	3	4	214	1	0	0	0	0	1	0	0	0	12356	739	26	2	3077	2	PPL	16	4940285	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	16020	4940285	85414468	602	107020											
CPPED1	55313	broad.mit.edu	37	chr16	12758926	12758926	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atgtcgaggttctggtaggtAcccccggcattcctgtggta	6	12	13	10	2	1	0	0	0	1	0	3	1	2	0	3	5	1	5	3	5	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:12758926A>G	uc002dca.3	-	4	873	c.762T>C	c.(760-762)GGT>GGC	p.G254G	CPPED1_uc002dcb.3_Silent_p.G112G|CPPED1_uc002dbz.3_RNA	NM_018340	NP_060810	Q9BRF8	CPPED_HUMAN	calcineurin-like phosphoesterase domain	254							hydrolase activity|metal ion binding				0						TCTGGTAGGTACCCCCGGCAT	0.572													4	42					0	0	1	0	0		G	12758926	G	G	12758926	2	3	214	1	0	0	0	0	0	0	0	1	3825	378	14	3		3	CPPED1	16	12758926	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	7818641	12758926	77595827	603	107021											
METTL9	51108	broad.mit.edu	37	chr16	21666562	21666562	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tattagtaggtggcaagtggGagaaaccatcagaaattttg	14	11	12	4	0	1	2	1	0	0	2	1	3	1	2	1	3	1	2	1	3	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:21666562G>T	uc002dje.2	+	5	965	c.766G>T	c.(766-768)GAG>TAG	p.E256*	uc002diq.3_Intron|METTL9_uc002djf.2_Nonsense_Mutation_p.E255*|IGSF6_uc002djg.1_5'Flank|IGSF6_uc010vbi.1_5'Flank	NM_016025	NP_057109	Q9H1A3	METL9_HUMAN	methyltransferase like 9 isoform 1	256										ovary(1)	1				GBM - Glioblastoma multiforme(48;0.0759)		TGGCAAGTGGGAGAAACCATC	0.343													4	21					2.7689e-08	3.01486e-08	1	1	0		T	21666562	T	T	21666562	4	4	214	1	0	0	0	0	0	1	0	0	9526	1175	41	5	784	5	METTL9	16	21666562	Nonsense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	8907636	21666562	68688191	604	107022											
MVP	9961	broad.mit.edu	37	chr16	29853066	29853066	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gacacagctaagagcctccaGcccttggcgccccggaacaa	11	4	10	16	2	0	1	0	0	0	1	1	3	1	2	5	2	4	1	5	2	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:29853066G>T	uc002dui.2	+	9	1425	c.1341G>T	c.(1339-1341)CAG>CAT	p.Q447H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc010vdz.1_RNA|MVP_uc002duj.2_Missense_Mutation_p.Q447H|MVP_uc010vea.1_Missense_Mutation_p.Q41H	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	447	MVP 8.				mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGAGCCTCCAGCCCTTGGCGC	0.647													3	20					0.004672	0.00481222	1	1	0		T	29853066	T	T	29853066	3	4	214	1	0	0	0	0	1	0	0	0	10014	962	34	5	1371	5	MVP	16	29853066	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	8186504	29853066	60501687	605	107023											
CHD9	80205	broad.mit.edu	37	chr16	53296901	53296901	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgccattatatatttcaggcGagttttgtggcatctggaaa	10	15	10	6	1	2	0	1	0	1	0	2	2	2	1	1	3	1	2	1	3	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:53296901G>A	uc002ehb.2	+	19	4376	c.4212G>A	c.(4210-4212)GCG>GCA	p.A1404A	CHD9_uc002egy.2_Silent_p.A1404A|CHD9_uc002ehc.2_Silent_p.A1404A|CHD9_uc002ehf.2_Silent_p.A518A|CHD9_uc002ehd.2_Silent_p.A930A	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1404					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				TATTTCAGGCGAGTTTTGTGG	0.353													14	64					0	0	1	0	0		A	53296901	A	A	53296901	2	1	214	1	0	0	0	0	0	0	0	1	3335	1045	37	1		1	CHD9	16	53296901	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	23443835	53296901	37057852	606	107024											
IRX6	79190	broad.mit.edu	37	chr16	55362689	55362689	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aggaagaggaggaggaggagGaggaagctgaagacgaggag	16	1	22	2	1	0	3	0	1	0	2	0	12	0	11	0	8	1	1	0	8	3	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:55362689G>A	uc002ehy.2	+	5	1332	c.799G>A	c.(799-801)GAG>AAG	p.E267K	IRX6_uc002ehx.2_Missense_Mutation_p.E267K	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	267						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						ggaggaggaggaggaagctga	0.502													4	54					0	0	1	0	0		A	55362689	A	A	55362689	3	1	214	1	0	0	0	0	1	0	0	0	7864	1175	41	4	817	4	IRX6	16	55362689	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2065788	55362689	34992064	607	107025											
HYDIN	54768	broad.mit.edu	37	chr16	70902515	70902515	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaggcatgtttctgggtacGtccacccacttgactgtgtg	6	12	11	12	1	1	1	0	1	1	0	2	1	2	1	3	2	1	3	3	2	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:70902515G>A	uc002ezr.2	-	66	11393	c.11265C>T	c.(11263-11265)GAC>GAT	p.D3755D	HYDIN_uc010cfy.2_5'Flank	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3756										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				TTCTGGGTACGTCCACCCACT	0.527													13	29					0	0	1	0	0		A	70902515	A	A	70902515	2	1	214	1	0	0	0	0	0	0	0	1	7483	1136	40	1		1	HYDIN	16	70902515	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	15539826	70902515	19452238	608	107026											
CHST4	10164	broad.mit.edu	37	chr16	71570602	71570602	+	Missense_Mutation	SNP	A	G	G	1	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	tgctactgcctaaaaaaatgAagctcctgctgtttctggtt	10	14	8	9	0	1	1	0	1	1	0	2	1	2	1	2	1	5	5	2	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:71570602A>G	uc002fan.2	+	2	203	c.22A>G	c.(22-24)AAG>GAG	p.K8E	CHST4_uc002fao.2_Missense_Mutation_p.K8E	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	8	Helical; Signal-anchor for type II membrane protein; (Potential).				cell-cell signaling|immune response|inflammatory response|N-acetylglucosamine metabolic process|protein sulfation	integral to membrane|intrinsic to Golgi membrane|trans-Golgi network	N-acetylglucosamine 6-O-sulfotransferase activity				0						TAAAAAAATGAAGCTCCTGCT	0.463													22	75					0	0	1	0	0		G	71570602	G	G	71570602	3	3	214	1	0	0	0	0	1	0	0	0	3409	247	9	3	24	3	CHST4	16	71570602	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	668087	71570602	18784151	609	107027											
MARVELD3	91862	broad.mit.edu	37	chr16	71668207	71668207	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caccagcttggggggcatttActactatcagttcggagggg	8	10	14	9	1	1	0	1	0	0	0	2	1	1	1	1	6	3	3	1	6	3	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:71668207A>G	uc002fat.2	+	3	770	c.707A>G	c.(706-708)TAC>TGC	p.Y236C	MARVELD3_uc002fau.2_Intron|MARVELD3_uc010cge.2_Intron	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	236	MARVEL.|Helical; (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				GGGGGCATTTACTACTATCAG	0.557													14	171					0	0	1	0	0		G	71668207	G	G	71668207	3	3	214	1	0	0	0	0	1	0	0	0	9337	391	14	3	717	3	MARVELD3	16	71668207	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	97605	71668207	18686546	610	107028											
ZFHX3	463	broad.mit.edu	37	chr16	72993579	72993579	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccactgccactcccacaggCgcccccgccctgggtcagct	5	5	10	21	2	1	0	1	0	0	0	2	0	2	0	6	2	2	1	6	2	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:72993579C>T	uc002fck.2	-	2	1139	c.466G>A	c.(466-468)GCC>ACC	p.A156T	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	156					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CTCCCACAGGCGCCCCCGCCC	0.677													8	37					0	0	1	0	0		T	72993579	T	T	72993579	3	4	214	1	0	0	0	0	1	0	0	0	17659	768	27	1	10681	1	ZFHX3	16	72993579	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1325372	72993579	17361174	611	107029											
ADAMTS18	170692	broad.mit.edu	37	chr16	77327097	77327097	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tctcggggagggtttctgcgGcagagcccttgcagaggagt	6	9	17	9	2	2	2	0	0	2	2	3	4	2	4	1	5	3	3	1	5	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:77327097G>A	uc002ffc.3	-	20	3484	c.3065C>T	c.(3064-3066)GCC>GTC	p.A1022V	ADAMTS18_uc010chc.1_Missense_Mutation_p.A610V	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1022	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						GGTTTCTGCGGCAGAGCCCTT	0.557													15	88					0	0	1	0	0		A	77327097	A	A	77327097	3	1	214	1	0	0	0	0	1	0	0	0	263	1203	42	2	616	2	ADAMTS18	16	77327097	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4333518	77327097	13027656	612	107030											
CDH13	1012	broad.mit.edu	37	chr16	83704413	83704413	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	agtttcaagccacagtcgagGaaggagctgtgggagttatt	11	10	14	6	1	1	0	1	0	0	0	2	4	1	3	1	3	2	3	1	3	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:83704413G>A	uc002fgx.2	+	9	1240	c.1120G>A	c.(1120-1122)GAA>AAA	p.E374K	CDH13_uc010vns.1_Missense_Mutation_p.E421K|CDH13_uc010vnt.1_Missense_Mutation_p.E120K|CDH13_uc010vnu.1_Missense_Mutation_p.E335K	NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	374	Cadherin 3.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)		COAD - Colon adenocarcinoma(5;0.0268)		CACAGTCGAGGAAGGAGCTGT	0.443													10	32					0	0	1	0	0		A	83704413	A	A	83704413	3	1	214	1	0	0	0	0	1	0	0	0	3102	1175	41	4	1154	4	CDH13	16	83704413	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6377316	83704413	6650340	613	107031											
FANCA	2175	broad.mit.edu	37	chr16	89831352	89831352	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gttctgtgtgtccagagagaGagggcagctctctgccagtc	7	10	14	10	0	2	2	0	0	2	2	5	4	3	2	2	1	2	3	2	1	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr16:89831352G>C	uc002fou.1	-	28	2766	c.2724C>G	c.(2722-2724)CTC>CTG	p.L908L	FANCA_uc010vpn.1_Silent_p.L908L|FANCA_uc010vpo.1_Silent_p.L37L	NM_000135	NP_000126	O15360	FANCA_HUMAN	Fanconi anemia, complementation group A isoform	908					DNA repair|protein complex assembly	cytoplasm|nucleoplasm	protein binding			ovary(2)|breast(2)|central_nervous_system(1)|skin(1)	6		Lung NSC(15;8.48e-06)|all_lung(18;1.31e-05)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.028)		TCCAGAGAGAGAGGGCAGCTC	0.552			D|Mis|N|F|S			AML|leukemia		Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				8	60					0	0	1	0	0		C	89831352	C	C	89831352	2	2	214	1	0	0	0	0	0	0	0	1	5676	929	33	5		5	FANCA	16	89831352	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6126939	89831352	523401	614	107032											
SGSM2	9905	broad.mit.edu	37	chr17	2278838	2278838	+	Missense_Mutation	SNP	A	C	C	1	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	ggagccccaggaccctgaagAttccagaccaaaacctgagc	13	4	10	14	0	0	4	0	2	0	2	1	6	1	6	6	2	3	0	6	2	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:2278838A>C	uc002fun.3	+	17	2193	c.2018A>C	c.(2017-2019)GAT>GCT	p.D673A	SGSM2_uc002fum.3_Missense_Mutation_p.D718A|SGSM2_uc010vqw.1_Missense_Mutation_p.D673A|SGSM2_uc002fup.1_5'UTR|SGSM2_uc002fuq.2_5'Flank	NM_001098509	NP_001091979	O43147	SGSM2_HUMAN	RUN and TBC1 domain containing 1 isoform 2	673	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0				Colorectal(2;5.15e-05)|READ - Rectum adenocarcinoma(2;0.000115)		GACCCTGAAGATTCCAGACCA	0.622													4	68					0	0	1	0	0		C	2278838	C	C	2278838	3	2	214	1	0	0	0	0	1	0	0	0	14248	333	12	5	2223	5	SGSM2	17	2278838	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		2278838	78916372	615	107033											
OR1G1	8390	broad.mit.edu	37	chr17	3030732	3030732	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggaggttgcctgccacCgtgaccaagtacatgaacag	12	7	12	10	1	0	3	0	3	0	0	0	4	0	4	4	2	4	2	4	2	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:3030732C>T	uc002fvc.1	-	1	114	c.114G>A	c.(112-114)ACG>ACA	p.T38T		NM_003555	NP_003546	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TGCCTGCCACCGTGACCAAGT	0.512													35	52					0	0	1	0	0		T	3030732	T	T	3030732	2	4	214	1	0	0	0	0	0	0	0	1	10976	639	23	1		1	OR1G1	17	3030732	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	751894	3030732	78164478	616	107034											
CAMKK1	84254	broad.mit.edu	37	chr17	3787183	3787183	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tatccccagactcacatagtGtctgtcttcactttcgttgt	7	16	6	12	1	4	1	2	0	2	1	6	1	5	1	2	0	0	1	2	0	2	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:3787183G>A	uc002fwt.2	-	4	551	c.457C>T	c.(457-459)CAC>TAC	p.H153Y	CAMKK1_uc002fwu.2_Missense_Mutation_p.H153Y|CAMKK1_uc002fwv.2_Missense_Mutation_p.H153Y	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	153	Protein kinase.				synaptic transmission	cytosol|nucleus	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			ovary(1)	1				LUAD - Lung adenocarcinoma(2;2.11e-05)|Lung(3;0.0176)		CTCACATAGTGTCTGTCTTCA	0.572													6	29					0	0	1	0	0		A	3787183	A	A	3787183	3	1	214	1	0	0	0	0	1	0	0	0	2609	1377	48	4	1234	4	CAMKK1	17	3787183	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	756451	3787183	77408027	617	107035											
ZZEF1	23140	broad.mit.edu	37	chr17	3937503	3937503	+	Silent	SNP	A	G	G	1	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	agggtgagatggtaggtttcAttcaggtggcctgcgtttga	7	13	16	5	1	2	2	2	2	0	1	2	3	2	2	1	5	1	3	1	5	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:3937503A>G	uc002fxe.2	-	40	6454	c.6390T>C	c.(6388-6390)AAT>AAC	p.N2130N	ZZEF1_uc002fxh.2_Silent_p.N444N|ZZEF1_uc002fxi.2_Silent_p.N365N|ZZEF1_uc002fxj.1_Silent_p.N743N	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	2130							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GGTAGGTTTCATTCAGGTGGC	0.542													16	74					0	0	1	0	0		G	3937503	G	G	3937503	2	3	214	1	0	0	0	0	0	0	0	1	18280	214	8	3		3	ZZEF1	17	3937503	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	150320	3937503	77257707	618	107036											
ALOX15	246	broad.mit.edu	37	chr17	4536510	4536510	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acttcactcccaggagccccCggtcggccaagtcatcaggg	8	6	11	16	2	3	0	3	0	0	0	5	1	4	1	4	4	1	0	4	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:4536510C>T	uc002fyh.2	-	10	1363	c.1349G>A	c.(1348-1350)CGG>CAG	p.R450Q	ALOX15_uc010vsd.1_Missense_Mutation_p.R411Q|ALOX15_uc010vse.1_Missense_Mutation_p.R472Q	NM_001140	NP_001131	P16050	LOX15_HUMAN	arachidonate 15-lipoxygenase	450	Lipoxygenase.				inflammatory response|leukotriene biosynthetic process	nucleus	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			skin(3)|ovary(1)|lung(1)	5				READ - Rectum adenocarcinoma(115;0.0327)	Ciclopirox(DB01188)|Masoprocol(DB00179)|Zileuton(DB00744)	CAGGAGCCCCCGGTCGGCCAA	0.602													20	27					0	0	1	0	0		T	4536510	T	T	4536510	3	4	214	1	0	0	0	0	1	0	0	0	538	652	23	1	659	1	ALOX15	17	4536510	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	599007	4536510	76658700	619	107037											
NLRP1	22861	broad.mit.edu	37	chr17	5424952	5424952	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gtgacgggaatgaagcgcagGgcattatggatcattttcag	11	10	14	6	2	2	2	2	2	0	0	2	4	2	4	0	3	1	2	0	3	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:5424952G>A	uc002gci.2	-	13	4230	c.3675C>T	c.(3673-3675)GCC>GCT	p.A1225A	NLRP1_uc002gcg.1_Silent_p.A1229A|NLRP1_uc002gck.2_Silent_p.A1225A|NLRP1_uc002gcj.2_Silent_p.A1195A|NLRP1_uc002gcl.2_Silent_p.A1195A|NLRP1_uc002gch.3_Silent_p.A1225A	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	1225					defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				TGAAGCGCAGGGCATTATGGA	0.552													5	52					0	0	1	0	0		A	5424952	A	A	5424952	2	1	214	1	0	0	0	0	0	0	0	1	10490	1219	43	4		4	NLRP1	17	5424952	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	888442	5424952	75770258	620	107038											
BCL6B	255877	broad.mit.edu	37	chr17	6930312	6930312	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgatccacaccggggagaAgccctacccttgccctacct	8	7	9	17	1	0	2	0	1	0	1	1	3	1	2	6	2	4	1	6	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:6930312A>C	uc002geg.2	+	8	1286	c.1229A>C	c.(1228-1230)AAG>ACG	p.K410T	BCL6B_uc010clt.1_Missense_Mutation_p.K411T	NM_181844	NP_862827	Q8N143	BCL6B_HUMAN	B-cell CLL/lymphoma 6, member B (zinc finger	410						nucleus	zinc ion binding			skin(1)	1						ACCGGGGAGAAGCCCTACCCT	0.627													7	64					0	0	1	0	0		C	6930312	C	C	6930312	3	2	214	1	0	0	0	0	1	0	0	0	1378	72	3	5	1255	5	BCL6B	17	6930312	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1505360	6930312	74264898	621	107039											
TP53	7157	broad.mit.edu	37	chr17	7577130	7577130	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcacaaacacgcacctcaaAgctgttccgtcccagtagat	12	7	8	14	2	1	1	1	0	0	1	3	1	3	1	3	1	2	5	3	1	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:7577130A>G	uc002gim.2	-	8	1002	c.808T>C	c.(808-810)TTT>CTT	p.F270L	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.F270L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.F138L|TP53_uc010cng.1_Missense_Mutation_p.F138L|TP53_uc002gii.1_Missense_Mutation_p.F138L|TP53_uc010cnh.1_Missense_Mutation_p.F270L|TP53_uc010cni.1_Missense_Mutation_p.F270L|TP53_uc002gij.2_Missense_Mutation_p.F270L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	270	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		F -> L (in sporadic cancers; somatic mutation).|F -> Y (in sporadic cancers; somatic mutation).|F -> C (in sporadic cancers; somatic mutation).|F -> V (in sporadic cancers; somatic mutation).|F -> S (in sporadic cancers; somatic mutation).|F -> I (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.F270L(22)|p.F270C(15)|p.F270V(8)|p.0?(7)|p.F270S(7)|p.F270Y(5)|p.F270I(3)|p.?(2)|p.G266_E271delGRNSFE(2)|p.G262_F270delGNLLGRNSF(2)|p.F270fs*72(1)|p.S269fs*75(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.E258fs*71(1)|p.S269fs*34(1)|p.F270_D281del12(1)|p.S269_F270insX(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CGCACCTCAAAGCTGTTCCGT	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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			8	16					0	0	1	0	0		G	7577130	G	G	7577130	3	3	214	1	0	0	0	0	1	0	0	0	16407	72	3	3	478	3	TP53	17	7577130	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	646818	7577130	73618080	622	107040											
DNAH2	146754	broad.mit.edu	37	chr17	7722644	7722644	+	Missense_Mutation	SNP	A	G	G	1	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	acatcagcctctttattctcAgcattgacaaaagccaccgc	12	10	5	14	1	3	1	2	1	2	0	4	1	3	1	3	0	3	1	3	0	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:7722644A>G	uc002giu.1	+	71	10947	c.10933A>G	c.(10933-10935)AGC>GGC	p.S3645G	DNAH2_uc010cnm.1_Missense_Mutation_p.S583G	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	3645					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				CTTTATTCTCAGCATTGACAA	0.522													5	64					0	0	1	0	0		G	7722644	G	G	7722644	3	3	214	1	0	0	0	0	1	0	0	0	4608	188	7	3	11215	3	DNAH2	17	7722644	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	145514	7722644	73472566	623	107041											
CHD3	1107	broad.mit.edu	37	chr17	7810228	7810228	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgggcgttggtcaatgccGgaactgatgcctgaccccag	9	8	13	11	2	1	2	1	2	0	0	1	3	1	3	4	3	3	1	4	3	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:7810228G>A	uc002gje.2	+	30	4695	c.4545G>A	c.(4543-4545)CCG>CCA	p.P1515P	CHD3_uc002gjd.2_Silent_p.P1574P|CHD3_uc002gjf.2_Silent_p.P1515P|CHD3_uc002gjh.2_Silent_p.P91P|CHD3_uc002gjj.2_5'Flank	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	1515					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				GGTCAATGCCGGAACTGATGC	0.587													22	124					0	0	1	0	0		A	7810228	A	A	7810228	2	1	214	1	0	0	0	0	0	0	0	1	3329	1103	39	1		1	CHD3	17	7810228	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	87584	7810228	73384982	624	107042											
FLCN	201163	broad.mit.edu	37	chr17	17122405	17122405	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcccacagcctgagagagaGgaggactctgccgggccctg	8	5	14	14	1	1	2	0	1	1	2	2	6	2	4	4	3	2	0	4	3	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:17122405G>T	uc002gra.3	-	9	1494	c.990C>A	c.(988-990)TCC>TCA	p.S330S	PLD6_uc010cpn.2_Intron	NM_144997	NP_659434	Q8NFG4	FLCN_HUMAN	folliculin isoform 1	330					regulation of protein phosphorylation	cytoplasm|nucleus|plasma membrane	protein binding			thyroid(1)|haematopoietic_and_lymphoid_tissue(1)|lung(1)	3						CTGAGAGAGAGGAGGACTCTG	0.637									Birt-Hogg-Dub__syndrome|Familial_Non-VHL_Clear_Cell_Renal_Cancer				15	129					2.61681e-11	2.91588e-11	1	1	0		T	17122405	T	T	17122405	2	4	214	1	0	0	0	0	0	0	0	1	5935	987	35	5		5	FLCN	17	17122405	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	9312177	17122405	64072805	625	107043											
SREBF1	6720	broad.mit.edu	37	chr17	17721095	17721095	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctgctgccaagggacaagGggctgctctggaaaggtgag	9	6	16	10	0	1	1	0	1	1	0	1	3	1	3	2	5	3	3	2	5	3	0	rs149397348		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:17721095G>T	uc002gru.1	-	7	1513	c.1319C>A	c.(1318-1320)CCC>CAC	p.P440H	SREBF1_uc002grp.1_Missense_Mutation_p.P10T|SREBF1_uc002grq.1_5'UTR|SREBF1_uc002grr.1_Missense_Mutation_p.P186H|SREBF1_uc002grs.1_Missense_Mutation_p.P416H|SREBF1_uc002grt.1_Missense_Mutation_p.P470H|SREBF1_uc010cpp.1_Missense_Mutation_p.P416H|SREBF1_uc010cpq.1_Missense_Mutation_p.P440H	NM_004176	NP_004167	P36956	SRBP1_HUMAN	sterol regulatory element binding transcription	440	Gly/Pro/Ser-rich.|Cytoplasmic (Potential).|Interaction with LMNA (By similarity).				cellular response to starvation|cholesterol metabolic process|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum|endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane|nuclear envelope|nucleus	protein binding|protein binding|sequence-specific DNA binding transcription factor activity|sterol response element binding			skin(1)	1						AAGGGACAAGGGGCTGCTCTG	0.642													14	55					6.72482e-11	7.47396e-11	1	1	0		T	17721095	T	T	17721095	3	4	214	1	0	0	0	0	1	0	0	0	15166	1232	43	5	2176	5	SREBF1	17	17721095	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	598690	17721095	63474115	626	107044											
NOS2	4843	broad.mit.edu	37	chr17	26097971	26097971	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agggcagtctccattgccaaAcgtactggtcaccaccaaca	12	7	8	14	1	2	0	1	0	1	0	3	0	2	0	4	2	4	2	4	2	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:26097971A>G	uc002gzu.2	-	15	2041	c.1777T>C	c.(1777-1779)TTT>CTT	p.F593L	NOS2_uc010crh.1_Missense_Mutation_p.F593L|NOS2_uc010wab.1_Intron	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	593	Flavodoxin-like.				arginine catabolic process|defense response to Gram-negative bacterium|innate immune response in mucosa|nitric oxide biosynthetic process|peptidyl-cysteine S-nitrosylation|platelet activation|positive regulation of killing of cells of other organism|positive regulation of leukocyte mediated cytotoxicity|regulation of cellular respiration|regulation of insulin secretion|superoxide metabolic process	cytosol|nucleus	arginine binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|protein homodimerization activity|tetrahydrobiopterin binding			skin(2)|ovary(1)|breast(1)	4					Dexamethasone(DB01234)|Hydrocortisone(DB00741)|L-Arginine(DB00125)|L-Citrulline(DB00155)	CCATTGCCAAACGTACTGGTC	0.602													5	26					0	0	1	0	0		G	26097971	G	G	26097971	3	3	214	1	0	0	0	0	1	0	0	0	10562	43	2	3	1736	3	NOS2	17	26097971	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	8376876	26097971	55097239	627	107045											
MYO1D	4642	broad.mit.edu	37	chr17	31048090	31048090	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaaggcaaatcctgcccgacGcactctcacattttccagta	11	9	7	14	2	1	0	1	0	1	0	4	2	3	0	3	1	1	3	3	1	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:31048090G>A	uc002hho.1	-	15	1876	c.1864C>T	c.(1864-1866)CGT>TGT	p.R622C	MYO1D_uc002hhp.1_Missense_Mutation_p.R622C	NM_015194	NP_056009	O94832	MYO1D_HUMAN	myosin ID	622	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3			BRCA - Breast invasive adenocarcinoma(9;0.0362)			CCTGCCCGACGCACTCTCACA	0.453													36	145					0	0	1	0	0		A	31048090	A	A	31048090	3	1	214	1	0	0	0	0	1	0	0	0	10089	1087	38	1	1188	1	MYO1D	17	31048090	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4950119	31048090	50147120	628	107046											
CCT6B	10693	broad.mit.edu	37	chr17	33269816	33269816	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagagaaagtaacacgcacgTtttttcatattccagtgaaa	16	11	7	7	2	1	2	1	1	0	1	2	3	2	2	1	0	1	3	1	0	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:33269816T>G	uc002hig.2	-	6	818	c.724A>C	c.(724-726)ACA>CCA	p.T242P	CCT6B_uc010ctg.2_Intron|CCT6B_uc010wcc.1_Missense_Mutation_p.T197P	NM_006584	NP_006575	Q92526	TCPW_HUMAN	chaperonin containing TCP1, subunit 6B	242					chaperone-mediated protein complex assembly|protein folding|spermatogenesis	cytoplasm	ATP binding|protein transporter activity|unfolded protein binding			pancreas(1)	1		Ovarian(249;0.17)				AACACGCACGTTTTTTCATAT	0.338													5	17					0	0	1	0	0		G	33269816	G	G	33269816	3	3	214	1	0	0	0	0	1	0	0	0	2961	1739	60	5	904	5	CCT6B	17	33269816	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2221726	33269816	47925394	629	107047											
PIP4K2B	8396	broad.mit.edu	37	chr17	36940538	36940538	+	Silent	SNP	T	C	C	0	1	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	ccaaacctctcccgaaggttTcggaacaccatggggcaata	12	7	9	13	2	1	0	0	0	1	0	3	2	1	1	4	4	2	2	4	4	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:36940538T>C	uc002hqs.2	-	3	793	c.312A>G	c.(310-312)CGA>CGG	p.R104R	PIP4K2B_uc010wdt.1_Silent_p.R104R|PIP4K2B_uc010wdu.1_Silent_p.R40R	NM_003559	NP_003550	P78356	PI42B_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type	104	PIPK.				cell surface receptor linked signaling pathway	endoplasmic reticulum membrane|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|receptor signaling protein activity			ovary(1)	1						CCCGAAGGTTTCGGAACACCA	0.498													9	50					0	0	1	0	0		C	36940538	C	C	36940538	2	2	214	1	0	0	0	0	0	0	0	1	11956	1770	62	3		3	PIP4K2B	17	36940538	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3670722	36940538	44254672	630	107048											
MED1	5469	broad.mit.edu	37	chr17	37564679	37564679	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaagatgccgtacaGgaattagatgatgggggagt	13	7	18	3	1	0	3	0	1	0	2	0	8	0	7	1	5	2	1	1	5	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:37564679G>T	uc002hrv.3	-	17	4007	c.3795C>A	c.(3793-3795)TCC>TCA	p.S1265S	MED1_uc010wee.1_Silent_p.S1093S|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	1265	Ser-rich.|Interaction with TP53.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		ATGCCGTACAGGAATTAGATG	0.478										HNSCC(31;0.082)			6	89					0.0293803	0.0297619	1	1	0		T	37564679	T	T	37564679	2	4	214	1	0	0	0	0	0	0	0	1	9443	987	35	5		5	MED1	17	37564679	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	624141	37564679	43630531	631	107049											
MED1	5469	broad.mit.edu	37	chr17	37565515	37565515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctggtttgctgtctaatcCgggccccgagagagtactat	7	11	11	12	2	1	1	0	0	1	1	2	3	2	1	4	2	2	3	4	2	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:37565515C>T	uc002hrv.3	-	17	3171	c.2959G>A	c.(2959-2961)GGA>AGA	p.G987R	MED1_uc010wee.1_Missense_Mutation_p.G815R|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	987	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		CTGTCTAATCCGGGCCCCGAG	0.502										HNSCC(31;0.082)			5	38					0	0	1	0	0		T	37565515	T	T	37565515	3	4	214	1	0	0	0	0	1	0	0	0	9443	661	23	1	1790	1	MED1	17	37565515	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	836	37565515	43629695	632	107050											
CDK12	51755	broad.mit.edu	37	chr17	37687432	37687432	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	actatggggagctggggccaGgaaccactggggccagcagc	9	4	17	11	0	0	0	0	0	0	0	0	2	0	2	3	7	4	2	3	7	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:37687432G>T	uc010cvv.2	+	14	4922	c.4336G>T	c.(4336-4338)GGA>TGA	p.G1446*	CDK12_uc002hrw.3_Nonsense_Mutation_p.G1437*	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1446					mRNA processing|phosphorylation of RNA polymerase II C-terminal domain|protein autophosphorylation|regulation of MAP kinase activity|RNA splicing	nuclear cyclin-dependent protein kinase holoenzyme complex|nuclear speck|nucleolus	ATP binding|cyclin-dependent protein kinase activity|protein binding|RNA polymerase II carboxy-terminal domain kinase activity			ovary(10)|lung(4)|breast(2)|skin(2)|large_intestine(1)	19						GCTGGGGCCAGGAACCACTGG	0.577										TCGA Ovarian(9;0.13)			5	83					0.184627	0.184627	1	1	0		T	37687432	T	T	37687432	4	4	214	1	0	0	0	0	0	1	0	0	3131	1001	35	5	4390	5	CDK12	17	37687432	Nonsense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	121917	37687432	43507778	633	107051											
KLHL10	317719	broad.mit.edu	37	chr17	40001522	40001522	+	Missense_Mutation	SNP	T	C	C	0	1	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	acatgaatggaccctctaatTctgatttcaccaacccactc	12	11	4	14	0	3	2	1	2	2	0	4	3	3	3	3	1	1	0	3	1	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:40001522T>C	uc010cxr.2	+	3	971	c.829T>C	c.(829-831)TCT>CCT	p.S277P	KLHL10_uc010wfv.1_Missense_Mutation_p.S271P|KLHL10_uc010wfw.1_Missense_Mutation_p.S189P	NM_152467	NP_689680	Q6JEL2	KLH10_HUMAN	kelch-like 10	277						cytoplasm				ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		Breast(137;0.000162)				ACCCTCTAATTCTGATTTCAC	0.483													24	70					0	0	1	0	0		C	40001522	C	C	40001522	3	2	214	1	0	0	0	0	1	0	0	0	8382	1783	62	3	839	3	KLHL10	17	40001522	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2314090	40001522	41193688	634	107052											
TMUB2	79089	broad.mit.edu	37	chr17	42266499	42266499	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggtgctgattctagccTtggtcctagcttggctctct	3	16	12	10	0	2	1	0	1	2	0	4	1	3	1	2	4	3	3	2	4	2	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:42266499T>C	uc002ifo.2	+	3	302	c.145T>C	c.(145-147)TTG>CTG	p.L49L	C17orf65_uc002ifn.2_5'Flank|TMUB2_uc002ifp.2_Silent_p.L29L|TMUB2_uc010wiu.1_Silent_p.L29L|TMUB2_uc002ifq.2_Silent_p.L49L|TMUB2_uc002ifr.2_Silent_p.L29L|TMUB2_uc002ifs.2_Intron|TMUB2_uc002ift.2_Silent_p.L29L|TMUB2_uc002ifu.2_Silent_p.L29L|TMUB2_uc002ifv.2_Silent_p.L29L|TMUB2_uc002ifw.1_Silent_p.L29L|TMUB2_uc002ifx.2_Silent_p.L29L|TMUB2_uc002ify.2_RNA	NM_001076674	NP_001070142	Q71RG4	TMUB2_HUMAN	transmembrane and ubiquitin-like domain	49	Helical; (Potential).					integral to membrane				lung(1)	1		Breast(137;0.00765)|Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.113)		GATTCTAGCCTTGGTCCTAGC	0.587													5	103					0	0	1	0	0		C	42266499	C	C	42266499	2	2	214	1	0	0	0	0	0	0	0	1	16290	1606	56	3		3	TMUB2	17	42266499	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2264977	42266499	38928711	635	107053											
FZD2	2535	broad.mit.edu	37	chr17	42635342	42635342	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcttcttcctgtgctccatgTacgcacccgtgtgcaccgtg	4	12	10	15	3	1	0	0	0	1	0	3	0	3	0	4	0	3	5	4	0	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:42635342T>C	uc002igx.1	+	1	418	c.286T>C	c.(286-288)TAC>CAC	p.Y96H		NM_001466	NP_001457	Q14332	FZD2_HUMAN	frizzled 2 precursor	96	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|positive regulation of cGMP metabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|lung(1)	3		Prostate(33;0.0181)		BRCA - Breast invasive adenocarcinoma(366;0.189)		GTGCTCCATGTACGCACCCGT	0.637													11	90					0	0	1	0	0		C	42635342	C	C	42635342	3	2	214	1	0	0	0	0	1	0	0	0	6144	1638	57	3	288	3	FZD2	17	42635342	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	368843	42635342	38559868	636	107054											
ADAM11	4185	broad.mit.edu	37	chr17	42849123	42849123	+	Splice_Site	SNP	G	T	T	0	0	1	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	gctgcgcctctctctccacaGtggggtcttctctgatggga	4	12	12	13	1	4	1	0	1	4	0	7	2	4	2	2	3	1	1	2	3	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:42849123G>T	uc002ihh.2	+	6	468	c.468_splice	c.e6-1	p.H156_splice	ADAM11_uc010wjd.1_Splice_Site	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein						integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				TCTCTCCACAGTGGGGTCTTC	0.657													12	48					3.07112e-06	3.29377e-06	1	1	0		T	42849123	T	T	42849123	5	4	214	1	0	0	0	0	0	0	1	0	235	1043	36	5	489	5	ADAM11	17	42849123	Splice_Site	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	213781	42849123	38346087	637	107055											
KIF18B	146909	broad.mit.edu	37	chr17	43005672	43005672	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ctgggcccctgtgaaggttgGgtgtcaggcagagaccctct	6	9	15	11	0	2	2	1	1	1	1	2	3	2	2	3	4	0	2	3	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:43005672G>T	uc010wji.1	-	13	2108	c.2007C>A	c.(2005-2007)ACC>ACA	p.T669T	KIF18B_uc002iht.2_Silent_p.T678T|KIF18B_uc010wjh.1_Silent_p.T666T	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				GTGAAGGTTGGGTGTCAGGCA	0.657													4	18					0.014758	0.0150206	1	1	0		T	43005672	T	T	43005672	2	4	214	1	0	0	0	0	0	0	0	1	8297	1219	43	5		5	KIF18B	17	43005672	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	156549	43005672	38189538	638	107056											
HOXB4	3214	broad.mit.edu	37	chr17	46654092	46654092	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgtgcgggggcactagagcgCgcgggggcctccattgggcc	4	5	19	13	5	0	1	0	0	0	1	1	1	1	1	3	5	2	1	3	5	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:46654092C>T	uc002inp.2	-	2	810	c.748G>A	c.(748-750)GCG>ACG	p.A250T	HOXB3_uc010wlm.1_Intron|HOXB3_uc010dbf.2_Intron|HOXB3_uc010dbg.2_Intron|HOXB3_uc002ino.2_5'Flank|HOXB3_uc010wlk.1_5'Flank|HOXB3_uc010wll.1_Intron	NM_024015	NP_076920	P17483	HXB4_HUMAN	homeobox B4	250						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CACTAGAGCGCGCGGGGGCCT	0.721													5	15					0	0	1	0	0		T	46654092	T	T	46654092	3	4	214	1	0	0	0	0	1	0	0	0	7319	768	27	1	11	1	HOXB4	17	46654092	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3648420	46654092	34541118	639	107057											
UTP18	51096	broad.mit.edu	37	chr17	49346264	49346264	+	Missense_Mutation	SNP	T	A	A	0	1	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	aagcggaaaacatcttcagaTggtgagcgttgatatttctg	12	12	11	6	2	3	3	1	2	2	1	3	4	3	4	0	2	3	1	0	2	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:49346264T>A	uc002its.2	+	4	670	c.621T>A	c.(619-621)GAT>GAA	p.D207E		NM_016001	NP_057085	Q9Y5J1	UTP18_HUMAN	UTP18, small subunit processome component	207					rRNA processing	nucleolus					0			BRCA - Breast invasive adenocarcinoma(22;2.09e-07)			CATCTTCAGATGGTGAGCGTT	0.378													6	47					0	0	1	0	0		A	49346264	A	A	49346264	3	1	214	1	0	0	0	0	1	0	0	0	17124	1478	51	5	635	5	UTP18	17	49346264	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2692172	49346264	31848946	640	107058											
HLF	3131	broad.mit.edu	37	chr17	53398104	53398104	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cgcccggaggctgaaagagaAccagatcgccatccgggcct	10	4	13	14	4	0	3	0	1	0	2	2	5	1	4	5	3	1	1	5	3	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:53398104A>G	uc002iug.1	+	4	1277	c.752A>G	c.(751-753)AAC>AGC	p.N251S	HLF_uc010dce.1_Missense_Mutation_p.N166S|HLF_uc002iuh.2_Missense_Mutation_p.N166S|HLF_uc010wni.1_Missense_Mutation_p.N198S	NM_002126	NP_002117	Q16534	HLF_HUMAN	hepatic leukemia factor	251					multicellular organismal development|rhythmic process|transcription from RNA polymerase II promoter	nucleus	double-stranded DNA binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2						CTGAAAGAGAACCAGATCGCC	0.577			T	TCF3	ALL								4	39					0	0	1	0	0		G	53398104	G	G	53398104	3	3	214	1	0	0	0	0	1	0	0	0	7230	43	2	3	766	3	HLF	17	53398104	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	4051840	53398104	27797106	641	107059											
TRIM37	4591	broad.mit.edu	37	chr17	57168701	57168701	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctgctctgtcagccagcGctaagggggcaaaagattag	10	9	12	10	1	3	1	1	0	2	1	4	1	3	1	1	2	3	3	1	2	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:57168701G>A	uc002iwy.3	-	3	568	c.124C>T	c.(124-126)CGC>TGC	p.R42C	TRIM37_uc002iwz.3_Missense_Mutation_p.R42C|TRIM37_uc002ixa.3_5'UTR|TRIM37_uc010woc.1_Missense_Mutation_p.R8C	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	42	RING-type; degenerate.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					GTCAGCCAGCGCTAAGGGGGC	0.284									Mulibrey_Nanism				30	46					0	0	1	0	0		A	57168701	A	A	57168701	3	1	214	1	0	0	0	0	1	0	0	0	16537	1101	38	1	2866	1	TRIM37	17	57168701	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3770597	57168701	24026509	642	107060											
DHX40	79665	broad.mit.edu	37	chr17	57644096	57644096	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggacaattcattccttattgTtactggaaatacaggaagtg	13	13	9	6	0	1	0	1	0	0	0	2	3	2	3	1	3	2	1	1	3	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:57644096T>G	uc002ixn.1	+	2	368	c.221T>G	c.(220-222)GTT>GGT	p.V74G	DHX40_uc010woe.1_Intron|DHX40_uc002ixo.1_5'UTR	NM_024612	NP_078888	Q8IX18	DHX40_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 40	74	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|nucleic acid binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)					TTCCTTATTGTTACTGGAAAT	0.343													3	48					0	0	1	0	0		G	57644096	G	G	57644096	3	3	214	1	0	0	0	0	1	0	0	0	4518	1725	60	5	227	5	DHX40	17	57644096	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	475395	57644096	23551114	643	107061											
MED13	9969	broad.mit.edu	37	chr17	60107230	60107230	+	Missense_Mutation	SNP	A	G	G	1	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	acttgttctgtgctctgttcAtattgcattcttgccaaact	7	18	6	10	0	4	0	1	0	3	0	4	0	4	0	1	0	4	4	1	0	2	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:60107230A>G	uc002izo.2	-	7	1231	c.1154T>C	c.(1153-1155)ATG>ACG	p.M385T	MED13_uc002izp.2_Missense_Mutation_p.M1T	NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	385					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						TGCTCTGTTCATATTGCATTC	0.338													7	95					0	0	1	0	0		G	60107230	G	G	60107230	3	3	214	1	0	0	0	0	1	0	0	0	9448	217	8	3	5466	3	MED13	17	60107230	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2463134	60107230	21087980	644	107062											
PSMC5	5705	broad.mit.edu	37	chr17	61907726	61907726	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccattagtgtcactgatgatGgtggagaaagtaccagattc	12	11	11	7	0	1	4	1	2	0	2	2	5	1	4	2	2	1	1	2	2	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:61907726G>A	uc002jcb.2	+	6	458	c.417G>A	c.(415-417)ATG>ATA	p.M139I	FTSJ3_uc002jca.2_5'Flank|PSMC5_uc010ddy.2_Missense_Mutation_p.M116I|PSMC5_uc010ddz.2_Missense_Mutation_p.M60I|PSMC5_uc002jcc.2_Missense_Mutation_p.M131I|PSMC5_uc002jcd.2_Missense_Mutation_p.M131I	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	139					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding			large_intestine(1)	1						CACTGATGATGGTGGAGAAAG	0.483													10	64					0	0	1	0	0		A	61907726	A	A	61907726	3	1	214	1	0	0	0	0	1	0	0	0	12712	1348	47	4	439	4	PSMC5	17	61907726	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1800496	61907726	19287484	645	107063											
PSMC5	5705	broad.mit.edu	37	chr17	61908549	61908549	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacgatgctggagttgctcaAccagctcgacggctttgagg	8	9	13	11	3	1	1	1	1	0	0	2	4	1	2	1	3	4	5	1	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:61908549A>C	uc002jcb.2	+	8	874	c.833A>C	c.(832-834)AAC>ACC	p.N278T	PSMC5_uc010ddy.2_Missense_Mutation_p.N255T|PSMC5_uc010ddz.2_Missense_Mutation_p.N199T|PSMC5_uc002jcc.2_Missense_Mutation_p.N270T|PSMC5_uc002jcd.2_Missense_Mutation_p.N270T	NM_002805	NP_002796	P62195	PRS8_HUMAN	proteasome 26S ATPase subunit 5	278					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of programmed cell death|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of transcription, DNA-dependent|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|transcription from RNA polymerase II promoter|viral reproduction	cytoplasm|nucleus|proteasome complex	ATP binding|ATPase activity|thyrotropin-releasing hormone receptor binding|transcription cofactor activity|transcription factor binding			large_intestine(1)	1						GAGTTGCTCAACCAGCTCGAC	0.597													8	123					0	0	1	0	0		C	61908549	C	C	61908549	3	2	214	1	0	0	0	0	1	0	0	0	12712	43	2	5	863	5	PSMC5	17	61908549	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	823	61908549	19286661	646	107064											
CSHL1	1444	broad.mit.edu	37	chr17	61988131	61988131	+	Missense_Mutation	SNP	T	G	G	0	1	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	cccaagagcttataaactccTggtaggtgtcaatggccagc	11	9	10	11	0	1	1	1	0	0	1	2	1	2	1	3	3	3	2	3	3	6	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:61988131T>G	uc002jda.1	-	2	226	c.164A>C	c.(163-165)CAG>CCG	p.Q55P	CSHL1_uc002jcz.1_Missense_Mutation_p.Q55P|CSHL1_uc002jdb.1_Intron|CSHL1_uc002jdc.1_Intron|CSHL1_uc002jdd.1_Intron|CSHL1_uc002jde.2_Missense_Mutation_p.Q83P|CSHL1_uc002jdf.2_Intron|CSHL1_uc002jdg.2_Missense_Mutation_p.Q55P|CSHL1_uc002jdh.2_Intron	NM_022579	NP_072101	Q14406	CSHL_HUMAN	chorionic somatomammotropin hormone-like 1	55						extracellular region	hormone activity|metal ion binding				0						TATAAACTCCTGGTAGGTGTC	0.557													8	220					0	0	1	0	0		G	61988131	G	G	61988131	3	3	214	1	0	0	0	0	1	0	0	0	3945	1580	55	5	520	5	CSHL1	17	61988131	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	79582	61988131	19207079	647	107065											
UNK	85451	broad.mit.edu	37	chr17	73806045	73806045	+	Silent	SNP	C	T	T	0	0	0	1	1	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	acaggcctctgcccggagggCgacgagtgagtgacccagcc	8	4	15	14	3	1	2	0	2	1	0	1	5	1	3	4	3	2	0	4	3	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:73806045C>T	uc002jpm.2	+	3	537	c.537C>T	c.(535-537)GGC>GGT	p.G179G		NM_001080419	NP_001073888	Q9C0B0	UNK_HUMAN	zinc finger CCCH-type domain containing 5	103	C3H1-type 1.						nucleic acid binding|zinc ion binding				0			all cancers(21;2.61e-06)|Epithelial(20;7.39e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCCCGGAGGGCGACGAGTGAG	0.647													6	76					0	0	1	0	0		T	73806045	T	T	73806045	2	4	214	1	0	0	0	0	0	0	0	1	17026	755	27	1		1	UNK	17	73806045	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	11817914	73806045	7389165	648	107066											
FOXJ1	2302	broad.mit.edu	37	chr17	74136102	74136102	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcagatgagcgtggcataCgagtagggaggcttcacgtg	10	8	16	7	3	1	2	1	1	0	1	1	4	1	3	0	3	3	4	0	3	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:74136102C>T	uc002jqw.2	-	1	465	c.375G>A	c.(373-375)TCG>TCA	p.S125S	FOXJ1_uc002jqx.2_Silent_p.S125S|uc002jqy.1_5'Flank	NM_001454	NP_001445	Q92949	FOXJ1_HUMAN	forkhead box J1	125	Fork-head.				actin cytoskeleton organization|activation of Rho GTPase activity|central tolerance induction|cilium assembly|epithelial cell differentiation|establishment of apical/basal cell polarity|heart looping|humoral immune response|left/right pattern formation|leukocyte migration|lung development|negative regulation of B cell activation|negative regulation of germinal center formation|negative regulation of humoral immune response mediated by circulating immunoglobulin|negative regulation of interleukin-6 biosynthetic process|negative regulation of NF-kappaB transcription factor activity|negative regulation of T cell differentiation in thymus|negative regulation of T cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of central B cell tolerance induction|spermatogenesis	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			pancreas(1)	1			LUSC - Lung squamous cell carcinoma(166;0.187)			GCGTGGCATACGAGTAGGGAG	0.647													7	45					0	0	1	0	0		T	74136102	T	T	74136102	2	4	214	1	0	0	0	0	0	0	0	1	6025	523	19	1		1	FOXJ1	17	74136102	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	330057	74136102	7059108	649	107067											
RHBDF2	79651	broad.mit.edu	37	chr17	74473803	74473803	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catcctcctccaggaagctcGggaaggcaaagctgcgcttg	9	7	12	13	2	0	0	0	0	0	0	4	2	3	2	3	3	3	4	3	3	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:74473803G>A	uc002jrq.1	-	7	1117	c.824C>T	c.(823-825)CCG>CTG	p.P275L	RHBDF2_uc002jrp.1_Missense_Mutation_p.P246L|RHBDF2_uc002jrr.1_Missense_Mutation_p.P127L|RHBDF2_uc010wtf.1_Missense_Mutation_p.P246L|RHBDF2_uc002jrs.1_Missense_Mutation_p.P270L	NM_024599	NP_078875	Q6PJF5	RHDF2_HUMAN	rhomboid, veinlet-like 6 isoform 1	275	Cytoplasmic (Potential).				negative regulation of protein secretion|protein transport|proteolysis	endoplasmic reticulum membrane|integral to membrane	growth factor binding|serine-type endopeptidase activity				0						CAGGAAGCTCGGGAAGGCAAA	0.622													14	104					0	0	1	0	0		A	74473803	A	A	74473803	3	1	214	1	0	0	0	0	1	0	0	0	13345	1116	39	1	1798	1	RHBDF2	17	74473803	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	337701	74473803	6721407	650	107068											
USP36	57602	broad.mit.edu	37	chr17	76799589	76799589	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catcccacctgctggccattCacctgtggctgtgtgccatc	5	11	9	16	0	1	0	1	0	0	0	3	0	2	0	5	2	2	2	5	2	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:76799589C>T	uc002jvz.1	-	16	3013	c.2688G>A	c.(2686-2688)GTG>GTA	p.V896V	USP36_uc002jwa.1_Silent_p.V896V|USP36_uc002jwb.1_Silent_p.V508V|USP36_uc002jwc.1_Silent_p.V596V|USP36_uc002jvy.1_5'Flank	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	896					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GCTGGCCATTCACCTGTGGCT	0.637													16	124					0	0	1	0	0		T	76799589	T	T	76799589	2	4	214	1	0	0	0	0	0	0	0	1	17093	813	29	4		4	USP36	17	76799589	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2325786	76799589	4395621	651	107069											
BAHCC1	57597	broad.mit.edu	37	chr17	79429898	79429898	+	Missense_Mutation	SNP	A	G	G	1	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	acctcccctacatcggccgcAtcgagagcatgtgggagtcg	8	7	12	14	4	0	1	0	0	0	1	4	3	1	2	4	2	2	2	4	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:79429898A>G	uc002kaf.2	+	25	7516	c.7516A>G	c.(7516-7518)ATC>GTC	p.I2506V		NM_001080519	NP_001073988	Q9P281	BAHC1_HUMAN	BAH domain and coiled-coil containing 1	2506	BAH.						DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)			CATCGGCCGCATCGAGAGCAT	0.637													6	80					0	0	1	0	0		G	79429898	G	G	79429898	3	3	214	1	0	0	0	0	1	0	0	0	1297	217	8	3	7453	3	BAHCC1	17	79429898	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2630309	79429898	1765312	652	107070											
SLC16A3	9123	broad.mit.edu	37	chr17	80195437	80195437	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtgcccgacaccaaggccgCcttcctgctcaccatcctgg	6	7	9	19	3	1	0	1	0	0	0	3	1	3	0	7	2	2	1	7	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:80195437C>T	uc002kea.2	+	4	930	c.791C>T	c.(790-792)GCC>GTC	p.A264V	SLC16A3_uc002kee.2_Missense_Mutation_p.A264V|SLC16A3_uc002keb.2_Missense_Mutation_p.A264V|SLC16A3_uc002kec.2_Missense_Mutation_p.A264V|SLC16A3_uc002ked.2_Missense_Mutation_p.A264V	NM_001042422	NP_001035887	O15427	MOT4_HUMAN	solute carrier family 16, member 3	264	Extracellular (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	actin cytoskeleton|integral to plasma membrane|membrane fraction|nuclear membrane	secondary active monocarboxylate transmembrane transporter activity|symporter activity			upper_aerodigestive_tract(1)|lung(1)	2	Breast(20;0.00285)|all_neural(118;0.0804)|Lung NSC(278;0.128)|all_lung(278;0.145)|Ovarian(332;0.227)		OV - Ovarian serous cystadenocarcinoma(97;0.00463)|BRCA - Breast invasive adenocarcinoma(99;0.0149)		Pyruvic acid(DB00119)	ACCAAGGCCGCCTTCCTGCTC	0.687													20	41					0	0	1	0	0		T	80195437	T	T	80195437	3	4	214	1	0	0	0	0	1	0	0	0	14434	739	26	2	801	2	SLC16A3	17	80195437	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	765539	80195437	999773	653	107071											
WDR45L	56270	broad.mit.edu	37	chr17	80579670	80579670	+	Missense_Mutation	SNP	A	G	G	1	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	actattgggacaaaggacacAgaggcctgcgtggagacaga	14	5	14	8	1	0	3	0	0	0	3	0	6	0	5	1	4	1	0	1	4	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr17:80579670A>G	uc002kfq.2	-	6	628	c.433T>C	c.(433-435)TGT>CGT	p.C145R	WDR45L_uc002kfr.2_RNA	NM_019613	NP_062559	Q5MNZ6	WIPI3_HUMAN	WDR45-like	145					autophagy|response to starvation	organelle membrane	phosphatidylinositol-3,5-bisphosphate binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0952)	all_cancers(8;0.101)|all_epithelial(8;0.198)	BRCA - Breast invasive adenocarcinoma(99;0.0262)|OV - Ovarian serous cystadenocarcinoma(97;0.0835)			CAAAGGACACAGAGGCCTGCG	0.542													9	25					0	0	1	0	0		G	80579670	G	G	80579670	3	3	214	1	0	0	0	0	1	0	0	0	17324	188	7	3	621	3	WDR45L	17	80579670	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	384233	80579670	615540	654	107072											
YES1	7525	broad.mit.edu	37	chr18	747955	747955	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatctgcaggcgctacataAttgctcgggatataaccatt	12	11	9	9	2	1	0	0	0	1	0	2	2	1	1	1	2	4	3	1	2	5	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:747955A>G	uc002kky.2	-	4	656	c.435T>C	c.(433-435)AAT>AAC	p.N145N	YES1_uc002kkz.2_Silent_p.N145N	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	145	SH3.				blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	GCGCTACATAATTGCTCGGGA	0.388													29	189					0	0	1	0	0		G	747955	G	G	747955	2	3	214	1	0	0	0	0	0	0	0	1	17500	98	4	3		3	YES1	18	747955	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		747955	77329293	655	107073											
ABHD3	171586	broad.mit.edu	37	chr18	19282376	19282376	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ataagatagtaggtctggtgCtggcatccatataacacgta	13	11	10	7	1	1	1	0	0	1	1	2	1	2	1	1	3	2	4	1	3	6	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:19282376C>T	uc002ktl.2	-	3	550	c.410G>A	c.(409-411)AGC>AAC	p.S137N	ABHD3_uc002ktm.2_Missense_Mutation_p.S137N|ABHD3_uc010xao.1_RNA|MIB1_uc002ktp.2_5'Flank|ABHD3_uc002kto.2_Missense_Mutation_p.S137N	NM_138340	NP_612213	Q8WU67	ABHD3_HUMAN	alpha/beta hydrolase domain containing protein	137						integral to membrane	carboxylesterase activity			central_nervous_system(1)	1						AGGTCTGGTGCTGGCATCCAT	0.398													6	59					0	0	1	0	0		T	19282376	T	T	19282376	3	4	214	1	0	0	0	0	1	0	0	0	83	797	28	2	847	2	ABHD3	18	19282376	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	18534421	19282376	58794872	656	107074											
GATA6	2627	broad.mit.edu	37	chr18	19751448	19751448	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctgggaggacttgctgctgTtcactgacctcgaccaagcc	7	9	12	13	1	1	1	1	1	0	0	2	4	1	3	3	2	3	4	3	2	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:19751448T>C	uc002ktt.1	+	2	608	c.343T>C	c.(343-345)TTC>CTC	p.F115L	GATA6_uc002ktu.1_Missense_Mutation_p.F115L	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	115					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			CTTGCTGCTGTTCACTGACCT	0.692													7	29					0	0	1	0	0		C	19751448	C	C	19751448	3	2	214	1	0	0	0	0	1	0	0	0	6273	1725	60	3	345	3	GATA6	18	19751448	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	469072	19751448	58325800	657	107075											
C18orf8	29919	broad.mit.edu	37	chr18	21107837	21107837	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaccatgagtataaaaagtAcctggatgccgagcagagtt	15	8	10	8	1	0	2	0	1	0	1	0	4	0	3	3	1	4	4	3	1	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:21107837A>G	uc010xax.1	+	15	1389	c.1268A>G	c.(1267-1269)TAC>TGC	p.Y423C	C18orf8_uc002kul.2_RNA|C18orf8_uc010xay.1_Missense_Mutation_p.Y47C	NM_013326	NP_037458	Q96DM3	MIC1_HUMAN	colon cancer-associated protein Mic1	423										ovary(1)	1	all_cancers(21;0.000122)|all_epithelial(16;8.08e-07)|Lung NSC(20;0.00206)|all_lung(20;0.00659)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TATAAAAAGTACCTGGATGCC	0.463													4	35					0	0	1	0	0		G	21107837	G	G	21107837	3	3	214	1	0	0	0	0	1	0	0	0	1910	391	14	3	1322	3	C18orf8	18	21107837	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1356389	21107837	56969411	658	107076											
DSC1	1823	broad.mit.edu	37	chr18	28711638	28711638	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccctgccccactcccttgacGgactccaaggtctgatgtcc	6	9	8	18	1	1	2	0	2	1	0	4	3	4	3	6	2	1	0	6	2	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:28711638G>A	uc002kwn.2	-	15	2668	c.2406C>T	c.(2404-2406)TCC>TCT	p.S802S	DSC1_uc002kwm.2_Silent_p.S802S|uc002kwo.1_RNA	NM_024421	NP_077739	Q08554	DSC1_HUMAN	desmocollin 1 isoform Dsc1a preproprotein	802	Cytoplasmic (Potential).				homophilic cell adhesion	desmosome|gap junction|integral to membrane|membrane fraction	calcium ion binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(10;0.00778)			CTCCCTTGACGGACTCCAAGG	0.512													5	109					0	0	1	0	0		A	28711638	A	A	28711638	2	1	214	1	0	0	0	0	0	0	0	1	4771	1103	39	1		1	DSC1	18	28711638	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	7603801	28711638	49365610	659	107077											
SMAD4	4089	broad.mit.edu	37	chr18	48591919	48591919	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggacccttctggaggagatcGcttttgtttgggtcaactct	6	14	12	9	1	3	1	1	0	2	1	4	4	3	3	1	4	1	2	1	4	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:48591919G>A	uc010xdp.1	+	9	1620	c.1082G>A	c.(1081-1083)CGC>CAC	p.R361H	SMAD4_uc002lfb.3_Missense_Mutation_p.R206H	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	361	MH2.		R -> H (in a colorectal cancer sample; somatic mutation).|R -> C (in JPS).		BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.R361C(6)|p.R361H(3)|p.?(2)|p.R361S(1)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		GGAGGAGATCGCTTTTGTTTG	0.413									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				14	51					0	0	1	0	0		A	48591919	A	A	48591919	3	1	214	1	0	0	0	0	1	0	0	0	14785	1087	38	1	1112	1	SMAD4	18	48591919	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	19880281	48591919	29485329	660	107078											
ZNF532	55205	broad.mit.edu	37	chr18	56620958	56620958	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	agtggccagtcctgggtggaCgtgttgggagtgtgactgcc	5	10	18	8	1	0	1	0	1	0	0	1	3	1	3	3	4	1	1	3	4	0	1	rs144779931		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:56620958C>T	uc002lho.2	+	8	3624	c.3077C>T	c.(3076-3078)ACG>ATG	p.T1026M	ZNF532_uc002lhp.2_Missense_Mutation_p.T1024M|ZNF532_uc010xeg.1_Missense_Mutation_p.T1024M|ZNF532_uc002lhr.2_Missense_Mutation_p.T1024M|ZNF532_uc002lhs.2_Missense_Mutation_p.T1024M|ZNF532_uc010xeh.1_Missense_Mutation_p.T118M	NM_018181	NP_060651	Q9HCE3	ZN532_HUMAN	zinc finger protein 532	1026	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CCTGGGTGGACGTGTTGGGAG	0.468													14	117					0	0	1	0	0		T	56620958	T	T	56620958	3	4	214	1	0	0	0	0	1	0	0	0	17997	536	19	1	3095	1	ZNF532	18	56620958	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8029039	56620958	21456290	661	107079											
CBLN2	147381	broad.mit.edu	37	chr18	70209167	70209167	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcctagggaggaggtgacggCgccgtccgccgacgggctgg	5	4	20	12	6	0	1	0	1	0	0	1	4	1	3	4	6	0	1	4	6	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr18:70209167C>T	uc002lku.2	-	2	464	c.229G>A	c.(229-231)GCC>ACC	p.A77T	CBLN2_uc002lkv.2_Missense_Mutation_p.A77T	NM_182511	NP_872317	Q8IUK8	CBLN2_HUMAN	cerebellin 2 precursor	77						integral to membrane					0		Esophageal squamous(42;0.131)				GAGGTGACGGCGCCGTCCGCC	0.711													6	9					0	0	1	0	0		T	70209167	T	T	70209167	3	4	214	1	0	0	0	0	1	0	0	0	2708	768	27	1	457	1	CBLN2	18	70209167	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	13588209	70209167	7868081	662	107080											
TJP3	27134	broad.mit.edu	37	chr19	3738575	3738575	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaatgacgtgccattccagaAcctgacacgggaggaggcag	12	5	14	10	2	0	3	0	2	0	1	1	6	1	5	3	3	2	1	3	3	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:3738575A>G	uc010xhv.1	+	11	1406	c.1406A>G	c.(1405-1407)AAC>AGC	p.N469S	TJP3_uc010xhs.1_Missense_Mutation_p.N436S|TJP3_uc010xht.1_Missense_Mutation_p.N400S|TJP3_uc010xhu.1_Missense_Mutation_p.N445S|TJP3_uc010xhw.1_Missense_Mutation_p.N455S	NM_014428	NP_055243	O95049	ZO3_HUMAN	tight junction protein 3	450	PDZ 3.					tight junction	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0118)|STAD - Stomach adenocarcinoma(1328;0.18)		CCATTCCAGAACCTGACACGG	0.587													9	120					0	0	1	0	0		G	3738575	G	G	3738575	3	3	214	1	0	0	0	0	1	0	0	0	15956	43	2	3	1448	3	TJP3	19	3738575	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08		3738575	55390408	663	107081											
EEF2	1938	broad.mit.edu	37	chr19	3976713	3976713	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acactgggggaacgcctggcCgcccgtgttggacctcaggt	6	7	15	13	3	1	0	1	0	0	0	1	2	1	2	4	5	1	1	4	5	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:3976713C>T	uc002lze.2	-	15	2499	c.2416G>A	c.(2416-2418)GGC>AGC	p.G806S		NM_001961	NP_001952	P13639	EF2_HUMAN	eukaryotic translation elongation factor 2	806						cytosol|ribonucleoprotein complex	GTP binding|GTPase activity|protein binding|translation elongation factor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|GBM - Glioblastoma multiforme(1328;0.0223)|STAD - Stomach adenocarcinoma(1328;0.18)		AACGCCTGGCCGCCCGTGTTG	0.652													3	7					0	0	1	0	0		T	3976713	T	T	3976713	3	4	214	1	0	0	0	0	1	0	0	0	4935	652	23	1	164	1	EEF2	19	3976713	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	238138	3976713	55152270	664	107082											
TUBB4	10382	broad.mit.edu	37	chr19	6495703	6495703	+	Silent	SNP	G	A	A	0	0	1	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	cggctggtcaggggtgcgaaGccgggcatgaagaagtgcag	9	5	19	8	3	1	2	1	1	0	1	1	3	1	2	1	5	3	3	1	5	3	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:6495703G>A	uc002mfg.1	-	4	914	c.807C>T	c.(805-807)GGC>GGT	p.G269G	TUBB4_uc002mff.1_Silent_p.G197G|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	269				G -> A (in Ref. 1; CAA25318).	'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GGGGTGCGAAGCCGGGCATGA	0.657													4	75					0	0	1	0	0		A	6495703	A	A	6495703	2	1	214	1	0	0	0	0	0	0	0	1	16784	958	34	2		2	TUBB4	19	6495703	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2518990	6495703	52633280	665	107083											
SH2D3A	10045	broad.mit.edu	37	chr19	6754871	6754871	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	taccaatagcaggtgaagggCggtgctcccaggatggtgct	9	8	15	9	1	0	1	0	1	0	0	1	2	1	2	2	5	4	3	2	5	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:6754871C>T	uc002mft.2	-	5	1146	c.952G>A	c.(952-954)GCC>ACC	p.A318T	SH2D3A_uc010xjg.1_Missense_Mutation_p.A196T	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	318					JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						AGGTGAAGGGCGGTGCTCCCA	0.637													7	70					0	0	1	0	0		T	6754871	T	T	6754871	3	4	214	1	0	0	0	0	1	0	0	0	14258	768	27	1	802	1	SH2D3A	19	6754871	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	259168	6754871	52374112	666	107084											
KIAA1543	57662	broad.mit.edu	37	chr19	7676871	7676871	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctccaagccatccctggccTccccctacctgcccgagggg	5	6	9	21	1	0	0	0	0	0	0	3	1	3	0	9	3	3	0	9	3	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:7676871T>C	uc002mgv.3	+	11	1593	c.1492T>C	c.(1492-1494)TCC>CCC	p.S498P	KIAA1543_uc002mgu.3_Missense_Mutation_p.S525P|KIAA1543_uc002mgw.2_5'Flank	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	498	Pro-rich.				epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						ATCCCTGGCCTCCCCCTACCT	0.667													3	49					0	0	1	0	0		C	7676871	C	C	7676871	3	2	214	1	0	0	0	0	1	0	0	0	8259	1551	54	3	1623	3	KIAA1543	19	7676871	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	922000	7676871	51452112	667	107085											
OR7E24	26648	broad.mit.edu	37	chr19	9362606	9362606	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatggtggcttcagtgatgtAcactgtggtcacccccatgc	7	12	11	11	0	2	1	2	1	0	0	2	1	2	1	2	3	2	2	2	3	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:9362606A>G	uc002mlb.1	+	1	887	c.887A>G	c.(886-888)TAC>TGC	p.Y296C		NM_001079935	NP_001073404	Q6IFN5	O7E24_HUMAN	olfactory receptor, family 7, subfamily E,	296	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TCAGTGATGTACACTGTGGTC	0.498													7	50					0	0	1	0	0		G	9362606	G	G	9362606	3	3	214	1	0	0	0	0	1	0	0	0	11240	391	14	3	889	3	OR7E24	19	9362606	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1685735	9362606	49766377	668	107086											
DNMT1	1786	broad.mit.edu	37	chr19	10249186	10249186	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caggcccggggagcaaacacGtgcagtggctccgggaacag	10	3	16	12	3	0	0	0	0	0	0	1	2	1	2	2	5	4	3	2	5	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:10249186G>A	uc002mng.2	-	34	4176	c.3996C>T	c.(3994-3996)CAC>CAT	p.H1332H	DNMT1_uc002mne.2_RNA|DNMT1_uc002mnf.2_Silent_p.H256H|DNMT1_uc010xlc.1_Silent_p.H1348H|DNMT1_uc002mnh.2_Silent_p.H1227H|DNMT1_uc010xld.1_Silent_p.H1332H	NM_001379	NP_001370	P26358	DNMT1_HUMAN	DNA (cytosine-5-)-methyltransferase 1 isoform b	1332	Catalytic.|Interaction with the PRC2/EED-EZH2 complex (By similarity).				chromatin modification|maintenance of DNA methylation|negative regulation of histone H3-K9 methylation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene expression|positive regulation of histone H3-K4 methylation|transcription, DNA-dependent	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|transcription factor binding			ovary(2)|prostate(1)|lung(1)|breast(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(20;1.59e-09)|Epithelial(33;2.86e-06)|all cancers(31;6.68e-06)		Azacitidine(DB00928)|Decitabine(DB01262)|Flucytosine(DB01099)|Ifosfamide(DB01181)|Procainamide(DB01035)	GAGCAAACACGTGCAGTGGCT	0.647													8	77					0	0	1	0	0		A	10249186	A	A	10249186	2	1	214	1	0	0	0	0	0	0	0	1	4681	1136	40	1		1	DNMT1	19	10249186	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	886580	10249186	48879797	669	107087											
S1PR2	9294	broad.mit.edu	37	chr19	10335474	10335474	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggatgacgatgaaggccgaGgccacctggcgggaggtcgt	9	5	18	9	4	0	2	0	2	0	0	1	6	0	4	3	6	0	0	3	6	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:10335474G>A	uc002mnl.2	-	2	219	c.108C>T	c.(106-108)GCC>GCT	p.A36A		NM_004230	NP_004221	O95136	S1PR2_HUMAN	endothelial differentiation, sphingolipid	36	Helical; Name=1; (By similarity).				activation of MAPK activity|positive regulation of cell proliferation	integral to membrane|plasma membrane	lipid binding|lysosphingolipid and lysophosphatidic acid receptor activity			lung(1)|central_nervous_system(1)	2						TGAAGGCCGAGGCCACCTGGC	0.552													23	171					0	0	1	0	0		A	10335474	A	A	10335474	2	1	214	1	0	0	0	0	0	0	0	1	13819	987	35	4		4	S1PR2	19	10335474	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	86288	10335474	48793509	670	107088											
SMARCA4	6597	broad.mit.edu	37	chr19	11097671	11097671	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagggcctcccaagccctGgcctgaaggtgagctccctc	6	7	13	15	0	0	2	0	2	0	0	3	3	2	3	5	4	2	1	5	4	2	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:11097671G>T	uc002mqf.3	+	5	1135	c.851G>T	c.(850-852)TGG>TTG	p.W284L	SMARCA4_uc010dxp.2_Missense_Mutation_p.W284L|SMARCA4_uc010dxo.2_Missense_Mutation_p.W284L|SMARCA4_uc002mqg.1_Missense_Mutation_p.W284L|SMARCA4_uc010dxq.2_Missense_Mutation_p.W284L|SMARCA4_uc010dxr.2_Missense_Mutation_p.W284L|SMARCA4_uc002mqj.3_Missense_Mutation_p.W284L|SMARCA4_uc010dxs.2_Missense_Mutation_p.W284L|SMARCA4_uc002mqe.2_Missense_Mutation_p.W284L	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	284					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CCCAAGCCCTGGCCTGAAGGT	0.637			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				7	37					5.4927e-09	6.01115e-09	1	1	0		T	11097671	T	T	11097671	3	4	214	1	0	0	0	0	1	0	0	0	14795	1357	47	5	865	5	SMARCA4	19	11097671	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	762197	11097671	48031312	671	107089											
ZNF709	163051	broad.mit.edu	37	chr19	12576221	12576221	+	Missense_Mutation	SNP	T	C	C	0	1	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	aactgaaagccttaccacacTgtttacatttatagggtttc	12	14	6	9	0	0	1	0	1	0	0	1	1	0	1	2	1	4	2	2	1	6	7			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:12576221T>C	uc002mtv.3	-	4	676	c.515A>G	c.(514-516)CAG>CGG	p.Q172R	ZNF709_uc002mtw.3_Missense_Mutation_p.Q140R|ZNF709_uc002mtx.3_Missense_Mutation_p.Q172R	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	172	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CTTACCACACTGTTTACATTT	0.388													5	65					0	0	1	0	0		C	12576221	C	C	12576221	3	2	214	1	0	0	0	0	1	0	0	0	18138	1580	55	3	1414	3	ZNF709	19	12576221	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1478550	12576221	46552762	672	107090											
ZNF490	57474	broad.mit.edu	37	chr19	12692000	12692000	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctctccagtgtgagtcctttCgtgggttagaaaaggctggt	7	13	13	8	1	1	2	0	1	1	1	4	2	2	2	2	3	0	2	2	3	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:12692000C>T	uc002mtz.2	-	5	1018	c.889G>A	c.(889-891)GAA>AAA	p.E297K		NM_020714	NP_065765	Q9ULM2	ZN490_HUMAN	zinc finger protein 490	297	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGAGTCCTTTCGTGGGTTAGA	0.428													10	64					0	0	1	0	0		T	12692000	T	T	12692000	3	4	214	1	0	0	0	0	1	0	0	0	17966	893	31	1	704	1	ZNF490	19	12692000	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	115779	12692000	46436983	673	107091											
HOOK2	29911	broad.mit.edu	37	chr19	12883842	12883842	+	Missense_Mutation	SNP	A	G	G	1	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	ctactaggctccgtaagaccAtcttcagattgctgacctag	10	11	8	12	1	2	3	1	1	1	2	3	3	3	3	3	1	2	3	3	1	4	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:12883842A>G	uc002muy.2	-	4	392	c.221T>C	c.(220-222)ATG>ACG	p.M74T	HOOK2_uc002muz.2_Missense_Mutation_p.M74T	NM_013312	NP_037444	Q96ED9	HOOK2_HUMAN	hook homolog 2 isoform 1	74	Sufficient for interaction with microtubules.|Required for localization to the centrosome and induction of aggresome formation.				early endosome to late endosome transport|endocytosis|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|protein transport	centrosome|FHF complex|microtubule	identical protein binding|microtubule binding			ovary(1)|breast(1)|skin(1)	3						CCGTAAGACCATCTTCAGATT	0.532													6	88					0	0	1	0	0		G	12883842	G	G	12883842	3	3	214	1	0	0	0	0	1	0	0	0	7299	217	8	3	2018	3	HOOK2	19	12883842	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	191842	12883842	46245141	674	107092											
NOTCH3	4854	broad.mit.edu	37	chr19	15300208	15300208	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcctcgtggcaggggttgctGacacaggcgtcatccaggtg	6	9	15	11	2	1	1	1	1	0	0	4	1	3	1	2	5	1	3	2	5	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:15300208G>T	uc002nan.2	-	7	1144	c.1068C>A	c.(1066-1068)GTC>GTA	p.V356V	NOTCH3_uc002nao.1_Silent_p.V356V	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	356	Extracellular (Potential).|EGF-like 9.				Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AGGGGTTGCTGACACAGGCGT	0.597													4	63					0.000602214	0.000630122	1	1	0		T	15300208	T	T	15300208	2	4	214	1	0	0	0	0	0	0	0	1	10569	1277	45	5		5	NOTCH3	19	15300208	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	2416366	15300208	43828775	675	107093											
COPE	11316	broad.mit.edu	37	chr19	19030060	19030060	+	Missense_Mutation	SNP	T	C	C	0	1	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	gctgcgcctcgtttatgcacTgctggtagctgccgatgtag	5	12	13	11	3	0	0	0	0	0	0	1	1	0	0	2	1	5	7	2	1	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:19030060T>C	uc002nkk.2	-	1	140	c.98A>G	c.(97-99)CAG>CGG	p.Q33R	COPE_uc002nkl.2_Missense_Mutation_p.Q33R|COPE_uc002nkm.2_Missense_Mutation_p.Q33R|COPE_uc002nkn.2_Missense_Mutation_p.Q33R|HOMER3_uc002nko.1_Intron|HOMER3_uc002nkp.1_Intron|DDX49_uc002nkq.1_5'Flank|DDX49_uc002nkr.1_5'Flank|DDX49_uc002nks.1_5'Flank|DDX49_uc002nkt.1_5'Flank	NM_007263	NP_009194	O14579	COPE_HUMAN	epsilon subunit of coatomer protein complex	33					COPI coating of Golgi vesicle|intra-Golgi vesicle-mediated transport|protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	binding|structural molecule activity				0						GTTTATGCACTGCTGGTAGCT	0.716													8	54					0	0	1	0	0		C	19030060	C	C	19030060	3	2	214	1	0	0	0	0	1	0	0	0	3733	1580	55	3	868	3	COPE	19	19030060	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3729852	19030060	40098923	676	107094											
SFRS14	10147	broad.mit.edu	37	chr19	19136068	19136068	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgaatgaggcaagcattttAgcacaggtttctgtttcaag	11	14	10	6	0	2	2	1	2	1	0	2	2	2	2	0	2	2	5	0	2	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:19136068A>G	uc002nkx.2	-	3	1235	c.1089T>C	c.(1087-1089)GCT>GCC	p.A363A	SFRS14_uc002nkz.1_Silent_p.A377A|SFRS14_uc002nla.1_Silent_p.A363A|SFRS14_uc002nlb.2_Silent_p.A363A|SFRS14_uc010xqk.1_Silent_p.A132A	NM_014884	NP_055699	Q8IX01	SUGP2_HUMAN	splicing factor, arginine/serine-rich 14	363					mRNA processing|RNA splicing	nucleus	RNA binding				0			OV - Ovarian serous cystadenocarcinoma(5;3.05e-05)|Epithelial(12;0.00161)			CAAGCATTTTAGCACAGGTTT	0.338													10	61					0	0	1	0	0		G	19136068	G	G	19136068	2	3	214	1	0	0	0	0	0	0	0	1	14195	407	15	3		3	SFRS14	19	19136068	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	106008	19136068	39992915	677	107095											
ZNF98	148198	broad.mit.edu	37	chr19	22585671	22585671	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaggtgatcaggtctggcTtagaggcagcaatacctgtt	10	10	13	8	0	2	2	1	1	1	1	2	3	2	2	1	4	2	4	1	4	3	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:22585671T>G	uc002nqt.2	-	3	295	c.173A>C	c.(172-174)AAG>ACG	p.K58T		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	58	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)				CAGGTCTGGCTTAGAGGCAGC	0.398													15	67					0	0	1	0	0		G	22585671	G	G	22585671	3	3	214	1	0	0	0	0	1	0	0	0	18228	1609	56	5	1553	5	ZNF98	19	22585671	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3449603	22585671	36543312	678	107096											
ZNF536	9745	broad.mit.edu	37	chr19	30934931	30934931	+	Silent	SNP	C	T	T	0	0	0	1	1	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	cacatgcgcacgcacacgggCgagaagcccttcaagtgccc	10	4	11	16	4	1	1	1	0	0	1	1	2	1	1	2	1	3	2	2	1	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:30934931C>T	uc002nsu.1	+	2	600	c.462C>T	c.(460-462)GGC>GGT	p.G154G	ZNF536_uc010edd.1_Silent_p.G154G	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	154					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					CGCACACGGGCGAGAAGCCCT	0.642													5	52					0	0	1	0	0		T	30934931	T	T	30934931	2	4	214	1	0	0	0	0	0	0	0	1	17999	755	27	1		1	ZNF536	19	30934931	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8349260	30934931	28194052	679	107097											
ZNF599	148103	broad.mit.edu	37	chr19	35251333	35251333	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ctgaatttttattagcttttCctcatctctagcttgcccca	7	18	4	12	0	2	1	1	1	1	0	4	1	3	1	3	0	3	2	3	0	4	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:35251333C>T	uc010edn.1	-	4	761	c.373G>A	c.(373-375)GAA>AAA	p.E125K	ZNF599_uc010edm.1_Missense_Mutation_p.E88K	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	125					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			ATTAGCTTTTCCTCATCTCTA	0.453													24	113					0	0	1	0	0		T	35251333	T	T	35251333	3	4	214	1	0	0	0	0	1	0	0	0	18054	864	30	4	1397	4	ZNF599	19	35251333	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4316402	35251333	23877650	680	107098											
MAG	4099	broad.mit.edu	37	chr19	35786697	35786697	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cccccggtggtcttcaagtcGcgcacccaagtagtccacga	8	7	10	16	4	2	0	1	0	1	0	4	1	3	0	4	2	0	2	4	2	3	2	rs142334011	byFrequency	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:35786697G>A	uc002nyy.1	+	4	377	c.228G>A	c.(226-228)TCG>TCA	p.S76S	MAG_uc002nyx.1_Silent_p.S76S|MAG_uc010eds.1_Silent_p.S51S|MAG_uc002nyz.1_Silent_p.S76S	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	76	Ig-like V-type.|Extracellular (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			TCTTCAAGTCGCGCACCCAAG	0.642													36	127					0	0	1	0	0		A	35786697	A	A	35786697	2	1	214	1	0	0	0	0	0	0	0	1	9180	1074	38	1		1	MAG	19	35786697	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	535364	35786697	23342286	681	107099											
FFAR2	2867	broad.mit.edu	37	chr19	35940885	35940885	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cctcacgagttttggcttctAcagcagcatctactgcagca	9	11	8	13	1	3	0	1	0	2	0	3	1	3	0	1	1	6	6	1	1	2	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:35940885A>G	uc002nzg.2	+	2	349	c.269A>G	c.(268-270)TAC>TGC	p.Y90C	FFAR2_uc010eea.2_Missense_Mutation_p.Y90C	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	90	Helical; Name=3; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TTTGGCTTCTACAGCAGCATC	0.622													3	20					0	0	1	0	0		G	35940885	G	G	35940885	3	3	214	1	0	0	0	0	1	0	0	0	5842	391	14	3	271	3	FFAR2	19	35940885	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	154188	35940885	23188098	682	107100											
ZNF829	374899	broad.mit.edu	37	chr19	37398892	37398892	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggctcttttccttgttccaaTaaggagatcacagctggctt	8	14	9	10	0	2	1	1	0	1	1	4	2	4	1	2	3	1	4	2	3	2	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:37398892T>C	uc002ofa.1	-	5	620	c.258A>G	c.(256-258)TTA>TTG	p.L86L	ZNF345_uc002oez.2_Intron|ZNF829_uc002ofb.2_Silent_p.L86L	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	86	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CTTGTTCCAATAAGGAGATCA	0.478													8	42					0	0	1	0	0		C	37398892	C	C	37398892	2	2	214	1	0	0	0	0	0	0	0	1	18207	1403	49	3		3	ZNF829	19	37398892	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1458007	37398892	21730091	683	107101											
ZNF180	7733	broad.mit.edu	37	chr19	44981523	44981523	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaaacaaggtgcgagctcCggctgaaggattttccacat	11	8	13	9	2	0	1	0	1	0	0	2	4	2	3	2	4	3	2	2	4	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:44981523C>T	uc002ozf.3	-	5	1457	c.1175G>A	c.(1174-1176)CGG>CAG	p.R392Q	ZNF180_uc002ozh.3_Missense_Mutation_p.R49Q|ZNF180_uc002ozi.3_Missense_Mutation_p.R365Q|ZNF180_uc002ozg.3_Missense_Mutation_p.R391Q|ZNF180_uc010ejm.2_Missense_Mutation_p.R367Q	NM_013256	NP_037388	Q9UJW8	ZN180_HUMAN	zinc finger protein 180	392	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Prostate(69;0.0435)				GTGCGAGCTCCGGCTGAAGGA	0.458													14	63					0	0	1	0	0		T	44981523	T	T	44981523	3	4	214	1	0	0	0	0	1	0	0	0	17773	652	23	1	907	1	ZNF180	19	44981523	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7582631	44981523	14147460	684	107102											
OPA3	80207	broad.mit.edu	37	chr19	46056830	46056830	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccgggattgcagagctggGcgcgcacctcttgcagctct	5	8	15	13	3	2	1	0	0	2	1	2	2	2	2	2	3	4	5	2	3	0	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:46056830G>A	uc002pck.3	-	2	582	c.482C>T	c.(481-483)GCC>GTC	p.A161V	OPA3_uc002pcj.3_Intron|OPA3_uc010xxk.1_Missense_Mutation_p.A108V	NM_025136	NP_079412	Q9H6K4	OPA3_HUMAN	OPA3 protein isoform b	161	Potential.				response to stimulus|visual perception	mitochondrion					0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.00778)|GBM - Glioblastoma multiforme(486;0.0976)|Epithelial(262;0.242)		GCAGAGCTGGGCGCGCACCTC	0.657													10	71					0	0	1	0	0		A	46056830	A	A	46056830	3	1	214	1	0	0	0	0	1	0	0	0	10891	1203	42	2	466	2	OPA3	19	46056830	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1075307	46056830	13072153	685	107103											
FBXO46	23403	broad.mit.edu	37	chr19	46215158	46215158	+	Silent	SNP	C	T	T	0	0	0	1	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	ttctcgtatctcttgcggcaCtgtttgcacggatcatcgcg	5	14	10	12	5	3	0	1	0	2	0	6	1	3	1	0	2	2	4	0	2	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:46215158C>T	uc002pcy.2	-	2	1721	c.1596G>A	c.(1594-1596)CAG>CAA	p.Q532Q	FBXO46_uc002pcz.2_Silent_p.Q532Q	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	532							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		TCTTGCGGCACTGTTTGCACG	0.627													6	32					0	0	1	0	0		T	46215158	T	T	46215158	2	4	214	1	0	0	0	0	0	0	0	1	5769	564	20	4		4	FBXO46	19	46215158	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	158328	46215158	12913825	686	107104											
RSPH6A	81492	broad.mit.edu	37	chr19	46318382	46318382	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggaggcctgagaagtcctcCggcccggaggctgctgggca	6	5	18	12	2	0	1	0	1	0	1	2	4	2	3	4	6	1	3	4	6	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:46318382C>T	uc002pdm.2	-	1	196	c.53G>A	c.(52-54)CGG>CAG	p.R18Q		NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	18						intracellular				ovary(1)|central_nervous_system(1)	2						AGAAGTCCTCCGGCCCGGAGG	0.672													7	31					0	0	1	0	0		T	46318382	T	T	46318382	3	4	214	1	0	0	0	0	1	0	0	0	13732	652	23	1	2124	1	RSPH6A	19	46318382	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	103224	46318382	12810601	687	107105											
MYPOP	339344	broad.mit.edu	37	chr19	46393902	46393902	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cacggagatttccatcggccGcgccttttccgtgtagggaa	7	10	12	12	5	0	1	0	0	0	1	3	3	2	2	4	3	0	1	4	3	2	4	rs138971632		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:46393902G>A	uc002pdt.2	-	3	1266	c.1179C>T	c.(1177-1179)CGC>CGT	p.R393R		NM_001012643	NP_001012661	Q86VE0	MYPOP_HUMAN	Myb protein P42POP	393	Nuclear localization signal (By similarity).					nucleus	DNA binding				0						TCCATCGGCCGCGCCTTTTCC	0.652													8	57					0	0	1	0	0		A	46393902	A	A	46393902	2	1	214	1	0	0	0	0	0	0	0	1	10117	1074	38	1		1	MYPOP	19	46393902	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	75520	46393902	12735081	688	107106											
PTGIR	5739	broad.mit.edu	37	chr19	47124717	47124717	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttgggtccctcctccctgaGgcgagctgggaaaggggtgt	5	9	16	11	1	0	1	0	1	0	0	3	3	3	2	3	5	1	1	3	5	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:47124717G>T	uc002pex.2	-	3	1094	c.981C>A	c.(979-981)GCC>GCA	p.A327A		NM_000960	NP_000951	P43119	PI2R_HUMAN	prostaglandin I2 (prostacyclin) receptor (IP)	327	Cytoplasmic (Potential).				cell-cell signaling|G-protein signaling, coupled to cyclic nucleotide second messenger|platelet activation	integral to plasma membrane	G-protein coupled receptor activity|guanyl-nucleotide exchange factor activity				0		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)|Dinoprostone(DB00917)|Epoprostenol(DB01240)|Iloprost(DB01088)|Misoprostol(DB00929)	TCCTCCCTGAGGCGAGCTGGG	0.667													4	51					1.23904e-05	1.32391e-05	1	1	0		T	47124717	T	T	47124717	2	4	214	1	0	0	0	0	0	0	0	1	12774	987	35	5		5	PTGIR	19	47124717	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	730815	47124717	12004266	689	107107											
EHD2	30846	broad.mit.edu	37	chr19	48244374	48244374	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacggcgaggagggctcggaCgacgaggccgagtgggtggt	7	4	22	8	6	0	0	0	0	0	0	1	7	0	2	1	7	0	1	1	7	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:48244374C>T	uc002phj.3	+	6	1567	c.1317C>T	c.(1315-1317)GAC>GAT	p.D439D	EHD2_uc010xyu.1_Silent_p.D303D|EHD2_uc010xyv.1_Silent_p.D122D	NM_014601	NP_055416	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	439					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			ovary(1)|skin(1)	2		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)		AGGGCTCGGACGACGAGGCCG	0.657													11	55					0	0	1	0	0		T	48244374	T	T	48244374	2	4	214	1	0	0	0	0	0	0	0	1	4984	535	19	1		1	EHD2	19	48244374	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	1119657	48244374	10884609	690	107108											
CCDC114	93233	broad.mit.edu	37	chr19	48801351	48801351	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcgtcggccagggaggtgaAgctctggagagtgtgggagc	8	6	20	7	2	1	2	0	1	1	1	2	5	1	4	1	5	3	1	1	5	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:48801351A>G	uc002pir.2	-	12	1980	c.1297T>C	c.(1297-1299)TTC>CTC	p.F433L	CCDC114_uc002piq.2_Missense_Mutation_p.F242L|CCDC114_uc002pio.2_Missense_Mutation_p.F470L|CCDC114_uc002pis.1_Missense_Mutation_p.F113L	NM_144577	NP_653178	Q96M63	CC114_HUMAN	coiled-coil domain containing 114 isoform 2	433										ovary(1)	1		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0228)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000134)|all cancers(93;0.000162)|Epithelial(262;0.0134)|GBM - Glioblastoma multiforme(486;0.0143)		AGGGAGGTGAAGCTCTGGAGA	0.677													5	50					0	0	1	0	0		G	48801351	G	G	48801351	3	3	214	1	0	0	0	0	1	0	0	0	2754	72	3	3	727	3	CCDC114	19	48801351	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	556977	48801351	10327632	691	107109											
PPFIA3	8541	broad.mit.edu	37	chr19	49651942	49651942	+	Missense_Mutation	SNP	A	C	C	1	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	gggtgagtctacattatgggAttatgtgcctgaaacggctc	9	12	13	7	1	1	2	0	2	1	0	2	3	1	3	1	3	3	1	1	3	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:49651942A>C	uc002pmr.2	+	25	3363	c.3031A>C	c.(3031-3033)ATT>CTT	p.I1011L	PPFIA3_uc010yai.1_RNA|PPFIA3_uc002pms.2_Missense_Mutation_p.I870L|PPFIA3_uc002pmt.2_Missense_Mutation_p.I150L|PPFIA3_uc002pmu.1_Missense_Mutation_p.I60L	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	1011	SAM 2.			I -> V (in Ref. 6; AAC26101).		cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		ACATTATGGGATTATGTGCCT	0.582													6	26					0	0	1	0	0		C	49651942	C	C	49651942	3	2	214	1	0	0	0	0	1	0	0	0	12330	333	12	5	3125	5	PPFIA3	19	49651942	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	850591	49651942	9477041	692	107110											
SLC17A7	57030	broad.mit.edu	37	chr19	49934368	49934368	+	Silent	SNP	C	T	T	0	0	0	1	1	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	atgaggatgctggcgtagcgCggggctatgtccaggtggtt	6	10	18	7	3	0	1	0	1	0	0	1	2	1	2	1	6	2	4	1	6	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:49934368C>T	uc002pnp.2	-	11	1465	c.1293G>A	c.(1291-1293)CCG>CCA	p.P431P	SLC17A7_uc002pno.2_Silent_p.P93P	NM_020309	NP_064705	Q9P2U7	VGLU1_HUMAN	solute carrier family 17, member 7	431	Cytoplasmic (Potential).				glutamate secretion|neurotransmitter secretion	cell junction|clathrin sculpted glutamate transport vesicle membrane|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|sodium-dependent phosphate transmembrane transporter activity|sodium:inorganic phosphate symporter activity			ovary(1)|pancreas(1)|skin(1)	3		all_lung(116;1.62e-07)|Lung NSC(112;8.47e-07)|all_neural(266;0.0381)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00153)|GBM - Glioblastoma multiforme(486;0.0245)		TGGCGTAGCGCGGGGCTATGT	0.607													3	23					0	0	1	0	0		T	49934368	T	T	49934368	2	4	214	1	0	0	0	0	0	0	0	1	14447	755	27	1		1	SLC17A7	19	49934368	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	282426	49934368	9194615	693	107111											
SPIB	6689	broad.mit.edu	37	chr19	50925742	50925742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgtatcagtacccagatggcGtcttctatgacctggacagc	9	10	10	12	2	3	2	1	1	2	1	3	3	3	3	2	2	2	2	2	2	3	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:50925742G>A	uc002psd.2	+	3	89	c.64G>A	c.(64-66)GTC>ATC	p.V22I	SPIB_uc002pse.2_Missense_Mutation_p.V22I|SPIB_uc010ycc.1_Silent_p.A2A	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	22	TAD1 (Acidic).				regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		CCCAGATGGCGTCTTCTATGA	0.617													9	41					0	0	1	0	0		A	50925742	A	A	50925742	3	1	214	1	0	0	0	0	1	0	0	0	15075	1145	40	1	74	1	SPIB	19	50925742	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	991374	50925742	8203241	694	107112											
KLK8	11202	broad.mit.edu	37	chr19	51499377	51499377	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gcggcagatgttggtatagaCgccaggtttgtcggacctcc	7	10	14	10	3	0	2	0	0	0	2	2	3	1	3	3	4	0	4	3	4	2	4	rs56296296	byFrequency	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:51499377C>T	uc002pur.1	-	6	900	c.721G>A	c.(721-723)GTC>ATC	p.V241I	KLK8_uc002puq.1_Missense_Mutation_p.V286I|KLK8_uc002pus.1_Missense_Mutation_p.V100I|KLK8_uc002put.1_3'UTR|KLK8_uc002puu.1_Missense_Mutation_p.V241I|KLK9_uc002puv.1_RNA	NM_007196	NP_009127	O60259	KLK8_HUMAN	kallikrein 8 isoform 1 preproprotein	241	Peptidase S1.				cell death|keratinocyte proliferation|memory|negative regulation of axon regeneration|negative regulation of myelination|neuron projection morphogenesis|proteolysis|regulation of synapse organization|response to wounding	cytoplasm|extracellular space	protein binding|serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.0033)|GBM - Glioblastoma multiforme(134;0.00888)		TTGGTATAGACGCCAGGTTTG	0.542													26	130					0	0	1	0	0		T	51499377	T	T	51499377	3	4	214	1	0	0	0	0	1	0	0	0	8426	536	19	1	65	1	KLK8	19	51499377	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	573635	51499377	7629606	695	107113											
LENG8	114823	broad.mit.edu	37	chr19	54968952	54968952	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaagtcgctgtgcatggtCaagtgccactggaaagagaa	15	7	12	7	1	1	1	1	0	0	1	2	3	1	2	1	2	2	2	1	2	5	0	rs142424676	by1000genomes	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:54968952C>T	uc002qfv.1	+	11	1791	c.1647C>T	c.(1645-1647)GTC>GTT	p.V549V	LENG8_uc002qfw.2_Silent_p.V586V			Q96PV6	LENG8_HUMAN	RecName: Full=Leukocyte receptor cluster member 8;	549							protein binding			central_nervous_system(1)|pancreas(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.139)		TGTGCATGGTCAAGTGCCACT	0.537													5	102					0	0	1	0	0		T	54968952	T	T	54968952	2	4	214	1	0	0	0	0	0	0	0	1	8740	813	29	4		4	LENG8	19	54968952	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3469575	54968952	4160031	696	107114											
ZNF264	9422	broad.mit.edu	37	chr19	57724326	57724326	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atcaaccataccaaagagaaAccccacaagtgtcttcactg	16	7	5	13	0	3	1	2	0	1	1	3	2	3	1	4	0	3	0	4	0	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:57724326A>C	uc002qob.2	+	4	2274	c.1861A>C	c.(1861-1863)ACC>CCC	p.T621P		NM_003417	NP_003408	O43296	ZN264_HUMAN	zinc finger protein 264	621					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		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)		CCAAAGAGAAACCCCACAAGT	0.388													9	79					0	0	1	0	0		C	57724326	C	C	57724326	3	2	214	1	0	0	0	0	1	0	0	0	17829	43	2	5	1875	5	ZNF264	19	57724326	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2755374	57724326	1404657	697	107115											
ZNF544	27300	broad.mit.edu	37	chr19	58757689	58757689	+	Missense_Mutation	SNP	T	C	C	0	1	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	atctgtgtgcttcgaggatgTggctatggcattcacacagg	8	12	13	8	1	2	0	1	0	1	0	3	2	2	1	0	4	1	3	0	4	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr19:58757689T>C	uc010euo.2	+	5	530	c.56T>C	c.(55-57)GTG>GCG	p.V19A	ZNF544_uc010eun.1_RNA|ZNF544_uc010yhw.1_RNA|ZNF544_uc010yhx.1_Missense_Mutation_p.V19A|ZNF544_uc010yhy.1_Missense_Mutation_p.V19A|ZNF544_uc002qrt.3_5'UTR|ZNF544_uc002qru.3_5'UTR|ZNF544_uc002qrv.2_RNA	NM_014480	NP_055295	Q6NX49	ZN544_HUMAN	zinc finger protein 544	19	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		all_cancers(17;4.17e-12)|all_epithelial(17;1.25e-08)|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;0.17)|GBM - Glioblastoma multiforme(193;0.018)		TTCGAGGATGTGGCTATGGCA	0.527													37	164					0	0	1	0	0		C	58757689	C	C	58757689	3	2	214	1	0	0	0	0	1	0	0	0	18002	1696	59	3	62	3	ZNF544	19	58757689	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1033363	58757689	371294	698	107116											
VPS16	64601	broad.mit.edu	37	chr20	2841689	2841689	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cttcacctaccgacacctggCactcttcacagacacaggct	10	8	6	17	1	3	1	2	0	1	1	3	2	3	1	3	2	1	2	3	2	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:2841689C>T	uc002whe.2	+	7	752	c.704C>T	c.(703-705)GCA>GTA	p.A235V	VPS16_uc002whh.2_5'Flank|VPS16_uc002whf.2_Missense_Mutation_p.A235V|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_5'Flank|VPS16_uc002whi.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	235					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CGACACCTGGCACTCTTCACA	0.592													12	160					0	0	1	0	0		T	2841689	T	T	2841689	3	4	214	1	0	0	0	0	1	0	0	0	17219	710	25	2	730	2	VPS16	20	2841689	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08		2841689	60183831	699	107117											
PROKR2	128674	broad.mit.edu	37	chr20	5294808	5294808	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcgataaagacaaagttacCgatgccgcagaccagcatga	16	5	10	10	3	0	3	0	1	0	2	0	5	0	3	3	0	4	3	3	0	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:5294808C>A	uc010zqw.1	-	1	208	c.208G>T	c.(208-210)GGT>TGT	p.G70C	PROKR2_uc010zqx.1_Missense_Mutation_p.G70C|PROKR2_uc010zqy.1_Missense_Mutation_p.G70C|uc002wly.1_5'Flank	NM_144773	NP_658986	Q8NFJ6	PKR2_HUMAN	prokineticin receptor 2	70	Helical; Name=1; (Potential).					integral to membrane|plasma membrane	neuropeptide Y receptor activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5						ACAAAGTTACCGATGCCGCAG	0.542										HNSCC(71;0.22)			20	100					1.50039e-11	1.67622e-11	1	1	0		A	5294808	A	A	5294808	3	1	214	1	0	0	0	0	1	0	0	0	12575	652	23	5	953	5	PROKR2	20	5294808	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2453119	5294808	57730712	700	107118											
SEL1L2	80343	broad.mit.edu	37	chr20	13856754	13856754	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcacggcagcattcccctctAaatacatctaggaagaaaaa	16	7	7	11	1	2	1	0	0	2	1	3	2	3	2	2	2	2	3	2	2	7	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:13856754A>G	uc010gcf.2	-	12	1116	c.1034T>C	c.(1033-1035)TTA>TCA	p.L345S	SEL1L2_uc002woq.3_Missense_Mutation_p.L206S|SEL1L2_uc010zrl.1_Missense_Mutation_p.L345S|SEL1L2_uc002wor.2_RNA	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	345	Extracellular (Potential).|Sel1-like 6.					integral to membrane	binding			ovary(2)	2						ATTCCCCTCTAAATACATCTA	0.294													10	181					0	0	1	0	0		G	13856754	G	G	13856754	3	3	214	1	0	0	0	0	1	0	0	0	14036	372	13	3	1068	3	SEL1L2	20	13856754	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	8561946	13856754	49168766	701	107119											
KIF16B	55614	broad.mit.edu	37	chr20	16360254	16360254	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcacccgcaggagggattccCgaatgccttccaggtccctc	7	8	10	16	2	1	0	1	0	0	0	5	3	4	2	5	3	1	1	5	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:16360254C>A	uc002wpg.1	-	19	2551	c.2393G>T	c.(2392-2394)CGG>CTG	p.R798L	KIF16B_uc002wpe.1_Missense_Mutation_p.R180L|KIF16B_uc002wpf.1_Missense_Mutation_p.R180L|KIF16B_uc010gch.1_Missense_Mutation_p.R798L|KIF16B_uc010gci.1_Missense_Mutation_p.R798L|KIF16B_uc010gcj.1_Missense_Mutation_p.R809L	NM_024704	NP_078980	Q96L93	KI16B_HUMAN	kinesin-like motor protein C20orf23	798	Glu-rich.|Potential.				cell communication|early endosome to late endosome transport|endoderm development|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|formation of primary germ layer|Golgi to endosome transport|microtubule-based movement|receptor catabolic process|regulation of receptor recycling	early endosome membrane|microtubule	ATP binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|plus-end-directed microtubule motor activity			skin(2)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|ovary(1)|kidney(1)	8						GAGGGATTCCCGAATGCCTTC	0.577													9	107					2.52707e-12	2.84171e-12	1	1	0		A	16360254	A	A	16360254	3	1	214	1	0	0	0	0	1	0	0	0	8294	652	23	5	1592	5	KIF16B	20	16360254	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2503500	16360254	46665266	702	107120											
PYGB	5834	broad.mit.edu	37	chr20	25259058	25259058	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtcgtccaagttcggctgccGggaccctgtgagaacctgtt	6	10	13	12	3	0	1	0	1	0	1	3	3	1	2	4	2	2	3	4	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:25259058G>A	uc002wup.2	+	8	1068	c.959G>A	c.(958-960)CGG>CAG	p.R320Q		NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase	320					glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	TTCGGCTGCCGGGACCCTGTG	0.622													12	94					0	0	1	0	0		A	25259058	A	A	25259058	3	1	214	1	0	0	0	0	1	0	0	0	12885	1116	39	1	989	1	PYGB	20	25259058	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	8898804	25259058	37766462	703	107121											
NINL	22981	broad.mit.edu	37	chr20	25485646	25485646	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccggatctggctctctggggTgtcaaaggaggggctgcagg	6	8	18	9	1	3	0	1	0	2	0	4	2	3	2	1	8	1	3	1	8	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:25485646T>C	uc002wux.1	-	6	660	c.586A>G	c.(586-588)ACC>GCC	p.T196A	NINL_uc010gdn.1_Missense_Mutation_p.T196A|NINL_uc010gdo.1_Missense_Mutation_p.T36A|NINL_uc010ztf.1_Missense_Mutation_p.T212A	NM_025176	NP_079452	Q9Y2I6	NINL_HUMAN	ninein-like	196	EF-hand 3.				G2/M transition of mitotic cell cycle	cytosol|microtubule|microtubule organizing center	calcium ion binding			ovary(2)|pancreas(1)|central_nervous_system(1)|skin(1)	5						CTCTCTGGGGTGTCAAAGGAG	0.637													6	33					0	0	1	0	0		C	25485646	C	C	25485646	3	2	214	1	0	0	0	0	1	0	0	0	10439	1696	59	3	3638	3	NINL	20	25485646	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	226588	25485646	37539874	704	107122											
MYH7B	57644	broad.mit.edu	37	chr20	33575629	33575629	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccggctgttcaggtggctggTgtctcggatcaaccagaccc	6	9	13	13	2	3	1	2	0	1	1	4	2	3	2	3	5	1	3	3	5	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:33575629T>C	uc002xbi.1	+	16	1546	c.1454T>C	c.(1453-1455)GTG>GCG	p.V485A	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	443	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			AGGTGGCTGGTGTCTCGGATC	0.612													10	124					0	0	1	0	0		C	33575629	C	C	33575629	3	2	214	1	0	0	0	0	1	0	0	0	10058	1696	59	3	1516	3	MYH7B	20	33575629	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	8089983	33575629	29449891	705	107123											
CHD6	84181	broad.mit.edu	37	chr20	40118621	40118621	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaatgtgatggactggatggTtttccctaggcccatctcat	8	13	11	9	0	1	1	1	1	1	0	3	4	2	3	2	4	0	1	2	4	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:40118621T>C	uc002xka.1	-	12	1655	c.1477A>G	c.(1477-1479)ACC>GCC	p.T493A	CHD6_uc002xkd.2_Missense_Mutation_p.T471A	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	493	ATP (Potential).|Helicase ATP-binding.				chromatin remodeling|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding			ovary(6)|skin(5)|lung(2)|central_nervous_system(1)	14		Myeloproliferative disorder(115;0.00425)				GACTGGATGGTTTTCCCTAGG	0.428													16	181					0	0	1	0	0		C	40118621	C	C	40118621	3	2	214	1	0	0	0	0	1	0	0	0	3332	1725	60	3	6774	3	CHD6	20	40118621	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	6542992	40118621	22906899	706	107124											
HNF4A	3172	broad.mit.edu	37	chr20	43034862	43034862	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcgtgcggaagaaccacatgTactcctgcaggtgaggagcc	10	6	14	11	2	0	2	0	1	0	1	1	4	1	4	3	3	5	2	3	3	3	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:43034862T>C	uc002xma.2	+	2	369	c.280T>C	c.(280-282)TAC>CAC	p.Y94H	HNF4A_uc010zwo.1_Silent_p.C84C|HNF4A_uc002xlt.2_Missense_Mutation_p.Y72H|HNF4A_uc002xlu.2_Missense_Mutation_p.Y72H|HNF4A_uc002xlv.2_Missense_Mutation_p.Y72H|HNF4A_uc002xly.2_Missense_Mutation_p.Y94H|HNF4A_uc002xlz.2_Missense_Mutation_p.Y94H|HNF4A_uc010ggq.2_Missense_Mutation_p.Y87H	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	94	Nuclear receptor.				blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|transcription regulatory region DNA binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			GAACCACATGTACTCCTGCAG	0.532													5	31					0	0	1	0	0		C	43034862	C	C	43034862	3	2	214	1	0	0	0	0	1	0	0	0	7269	1638	57	3	339	3	HNF4A	20	43034862	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2916241	43034862	19990658	707	107125											
ADA	100	broad.mit.edu	37	chr20	43249007	43249007	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaagctccctcttttcatcTtctgggaggaaactagattt	10	14	8	9	0	4	2	1	0	3	2	5	4	5	4	1	2	2	1	1	2	3	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:43249007T>G	uc002xmj.2	-	11	1139	c.1011A>C	c.(1009-1011)GAA>GAC	p.E337D	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	337			Missing (in ADASCID).		adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	TCTTTTCATCTTCTGGGAGGA	0.418									Adenosine_Deaminase_Deficiency				11	106					0	0	1	0	0		G	43249007	G	G	43249007	3	3	214	1	0	0	0	0	1	0	0	0	230	1606	56	5	88	5	ADA	20	43249007	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	214145	43249007	19776513	708	107126											
ADA	100	broad.mit.edu	37	chr20	43251662	43251662	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctcacctcttttactacttCggccgagcccacctccccgg	5	10	6	20	3	2	0	1	0	1	0	4	1	3	0	7	2	3	0	7	2	2	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:43251662C>T	uc002xmj.2	-	7	792	c.664G>A	c.(664-666)GAA>AAA	p.E222K	ADA_uc010ggt.2_RNA	NM_000022	NP_000013	P00813	ADA_HUMAN	adenosine deaminase	222					adenosine catabolic process|cell adhesion|hypoxanthine salvage|inosine biosynthetic process|negative regulation of adenosine receptor signaling pathway|purine nucleotide salvage|purine ribonucleoside monophosphate biosynthetic process|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation	cell junction|cytoplasmic membrane-bounded vesicle lumen|cytosol|external side of plasma membrane|lysosome	adenosine deaminase activity|protein binding|zinc ion binding			pancreas(2)|ovary(1)	3		all_lung(126;1.24e-07)|Lung NSC(126;1.94e-07)|Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)		Adenosine(DB00640)|Cladribine(DB00242)|Dipyridamole(DB00975)|Erythromycin(DB00199)|Fludarabine(DB01073)|Idoxuridine(DB00249)|Nelarabine(DB01280)|Pentostatin(DB00552)|Theophylline(DB00277)|Vidarabine(DB00194)	TTTACTACTTCGGCCGAGCCC	0.627									Adenosine_Deaminase_Deficiency				15	128					0	0	1	0	0		T	43251662	T	T	43251662	3	4	214	1	0	0	0	0	1	0	0	0	230	893	31	1	451	1	ADA	20	43251662	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2655	43251662	19773858	709	107127											
KCNS1	3787	broad.mit.edu	37	chr20	43726423	43726423	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtggccgaactccttgccGccctggtcgcccagtgccac	5	7	12	17	3	0	0	0	0	0	0	2	1	1	0	6	3	3	0	6	3	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:43726423G>A	uc002xnc.2	-	4	1387	c.990C>T	c.(988-990)GGC>GGT	p.G330G	KCNS1_uc002xnd.2_Silent_p.G330G	NM_002251	NP_002242	Q96KK3	KCNS1_HUMAN	potassium voltage-gated channel	330						voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity|protein binding				0		Myeloproliferative disorder(115;0.0122)				ACTCCTTGCCGCCCTGGTCGC	0.632													12	28					0	0	1	0	0		A	43726423	A	A	43726423	2	1	214	1	0	0	0	0	0	0	0	1	8104	1074	38	1		1	KCNS1	20	43726423	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	474761	43726423	19299097	710	107128											
NCOA3	8202	broad.mit.edu	37	chr20	46276073	46276073	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gacaaacacccccaagcaacTtagaatgcagcttcagcaga	16	5	7	13	0	1	2	1	0	0	2	1	3	1	2	2	0	6	4	2	0	5	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:46276073T>A	uc002xtk.2	+	18	3714	c.3509T>A	c.(3508-3510)CTT>CAT	p.L1170H	NCOA3_uc010ght.1_Missense_Mutation_p.L1165H|NCOA3_uc002xtl.2_Missense_Mutation_p.L1170H|NCOA3_uc002xtm.2_Missense_Mutation_p.L1170H|NCOA3_uc002xtn.2_Missense_Mutation_p.L1170H|NCOA3_uc010zyc.1_Missense_Mutation_p.L965H	NM_181659	NP_858045	Q9Y6Q9	NCOA3_HUMAN	nuclear receptor coactivator 3 isoform a	1170	Acetyltransferase.				androgen receptor signaling pathway|cellular lipid metabolic process|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleoplasm	androgen receptor binding|histone acetyltransferase activity|ligand-dependent nuclear receptor binding|protein N-terminus binding|signal transducer activity|thyroid hormone receptor binding			ovary(3)|lung(1)|skin(1)	5						CCCAAGCAACTTAGAATGCAG	0.493													4	73					0	0	1	0	0		A	46276073	A	A	46276073	3	1	214	1	0	0	0	0	1	0	0	0	10249	1609	56	5	3601	5	NCOA3	20	46276073	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	2549650	46276073	16749447	711	107129											
ARFGEF2	10564	broad.mit.edu	37	chr20	47570216	47570216	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtcaggcacaaagcaaaccaAcaactcccgaaaaaacagat	20	3	6	12	1	1	1	1	0	0	1	2	2	2	1	2	1	5	2	2	1	7	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:47570216A>G	uc002xtx.3	+	6	879	c.727A>G	c.(727-729)ACA>GCA	p.T243A		NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	243					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AAGCAAACCAACAACTCCCGA	0.473													5	89					0	0	1	0	0		G	47570216	G	G	47570216	3	3	214	1	0	0	0	0	1	0	0	0	853	43	2	3	749	3	ARFGEF2	20	47570216	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1294143	47570216	15455304	712	107130											
SALL4	57167	broad.mit.edu	37	chr20	50407791	50407791	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgaccacagacagagcacaCgaagggtctctctccagtgt	12	7	10	12	1	2	3	0	1	2	2	4	4	2	3	2	1	1	1	2	1	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:50407791C>T	uc002xwh.3	-	2	1332	c.1231G>A	c.(1231-1233)GTG>ATG	p.V411M	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	411	C2H2-type 2.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACAGAGCACACGAAGGGTCTC	0.552													7	64					0	0	1	0	0		T	50407791	T	T	50407791	3	4	214	1	0	0	0	0	1	0	0	0	13838	536	19	1	1942	1	SALL4	20	50407791	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	2837575	50407791	12617729	713	107131											
TSHZ2	128553	broad.mit.edu	37	chr20	51870590	51870590	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttcagctcggtgcagttgtAccgacagagcagcaagatgt	10	9	13	9	2	1	2	1	0	0	2	2	3	1	2	1	1	5	7	1	1	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:51870590A>G	uc002xwo.2	+	2	1549	c.593A>G	c.(592-594)TAC>TGC	p.Y198C		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	198				Y -> C (in Ref. 2; CAE45871).	multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			GTGCAGTTGTACCGACAGAGC	0.572													6	55					0	0	1	0	0		G	51870590	G	G	51870590	3	3	214	1	0	0	0	0	1	0	0	0	16650	391	14	3	599	3	TSHZ2	20	51870590	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1462799	51870590	11154930	714	107132											
TSHZ2	128553	broad.mit.edu	37	chr20	51872673	51872673	+	Silent	SNP	A	T	T	1	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	tctaagtttacgggactctcAatgaccactatcagtcactg	11	12	7	11	1	4	1	3	1	2	0	5	2	4	2	1	1	1	1	1	1	4	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:51872673A>T	uc002xwo.2	+	2	3632	c.2676A>T	c.(2674-2676)TCA>TCT	p.S892S		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	892	Homeobox; atypical.				multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CGGGACTCTCAATGACCACTA	0.498													5	97					0	0	1	0	0		T	51872673	T	T	51872673	2	4	214	1	0	0	0	0	0	0	0	1	16650	117	5	5		5	TSHZ2	20	51872673	Silent	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	2083	51872673	11152847	715	107133											
DOK5	55816	broad.mit.edu	37	chr20	53205314	53205314	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agccttggagagcctgacttActggccactggggttgagag	8	9	15	9	0	0	3	0	2	0	2	0	5	0	3	3	4	3	1	3	4	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:53205314A>C	uc002xwy.2	+	4	598	c.378A>C	c.(376-378)TTA>TTC	p.L126F	DOK5_uc010gin.2_Missense_Mutation_p.L18F|DOK5_uc002xwz.2_Missense_Mutation_p.Y10S	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5	126							insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			AGCCTGACTTACTGGCCACTG	0.423													11	89					0	0	1	0	0		C	53205314	C	C	53205314	3	2	214	1	0	0	0	0	1	0	0	0	4706	388	14	5	392	5	DOK5	20	53205314	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	1332641	53205314	9820206	716	107134											
CDH4	1002	broad.mit.edu	37	chr20	60485530	60485530	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaccgtggtcgcaaacctcaCggtgatggaccgagatcagc	10	6	13	12	4	2	2	2	1	0	1	3	5	2	3	3	3	2	1	3	3	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:60485530C>T	uc002ybn.1	+	9	1255	c.1241C>T	c.(1240-1242)ACG>ATG	p.T414M	CDH4_uc002ybp.1_Missense_Mutation_p.T340M	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	414	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GCAAACCTCACGGTGATGGAC	0.542													15	44					0	0	1	0	0		T	60485530	T	T	60485530	3	4	214	1	0	0	0	0	1	0	0	0	3115	536	19	1	1275	1	CDH4	20	60485530	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	7280216	60485530	2539990	717	107135											
DIDO1	11083	broad.mit.edu	37	chr20	61542343	61542343	+	Missense_Mutation	SNP	T	C	C	0	1	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	gggcaggacgccctccacagTgtcactggcctcggagccca	7	5	13	16	2	1	0	1	0	0	0	3	2	2	2	4	4	1	1	4	4	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:61542343T>C	uc002ydr.1	-	3	886	c.622A>G	c.(622-624)ACT>GCT	p.T208A	DIDO1_uc002yds.1_Missense_Mutation_p.T208A|DIDO1_uc002ydt.1_Missense_Mutation_p.T208A|DIDO1_uc002ydu.1_Missense_Mutation_p.T208A|DIDO1_uc002ydv.1_Missense_Mutation_p.T208A|DIDO1_uc002ydw.1_Missense_Mutation_p.T208A|DIDO1_uc002ydx.1_Missense_Mutation_p.T208A|DIDO1_uc011aao.1_Missense_Mutation_p.T208A	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	208					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					CCCTCCACAGTGTCACTGGCC	0.632													10	73					0	0	1	0	0		C	61542343	C	C	61542343	3	2	214	1	0	0	0	0	1	0	0	0	4528	1696	59	3	6286	3	DIDO1	20	61542343	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1056813	61542343	1483177	718	107136											
SLC17A9	63910	broad.mit.edu	37	chr20	61588850	61588850	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctggggctccatcacggcCgtcaccccactgctcgccca	5	6	10	20	3	2	0	2	0	0	0	4	0	3	0	6	3	1	2	6	3	0	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:61588850C>T	uc002yea.3	+	3	499	c.315C>T	c.(313-315)GCC>GCT	p.A105A	SLC17A9_uc002ydz.3_Silent_p.A99A|SLC17A9_uc011aap.1_Silent_p.A125A	NM_022082	NP_071365	Q9BYT1	S17A9_HUMAN	vesicular nucleotide transporter SLC17A9	105	Helical; (Potential).				exocytosis|transmembrane transport	integral to membrane	transporter activity			ovary(1)|skin(1)	2						CCATCACGGCCGTCACCCCAC	0.627													5	53					0	0	1	0	0		T	61588850	T	T	61588850	2	4	214	1	0	0	0	0	0	0	0	1	14449	639	23	1		1	SLC17A9	20	61588850	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	46507	61588850	1436670	719	107137											
KCNQ2	3785	broad.mit.edu	37	chr20	62046342	62046342	+	Missense_Mutation	SNP	A	G	G	1	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	cgaagctccagctcttgggcAccttgctggggctgtcctcg	4	10	13	14	2	1	0	0	0	1	0	4	1	3	0	3	3	3	5	3	3	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:62046342A>G	uc002yey.1	-	13	1616	c.1439T>C	c.(1438-1440)GTG>GCG	p.V480A	KCNQ2_uc002yez.1_Missense_Mutation_p.V450A|KCNQ2_uc002yfa.1_Missense_Mutation_p.V462A|KCNQ2_uc002yfb.1_Missense_Mutation_p.V452A	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	potassium voltage-gated channel KQT-like protein	480	Cytoplasmic (Potential).				axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			upper_aerodigestive_tract(1)|ovary(1)	2	all_cancers(38;1.24e-11)		BRCA - Breast invasive adenocarcinoma(10;1.04e-05)		Amitriptyline(DB00321)	GCTCTTGGGCACCTTGCTGGG	0.706													6	89					0	0	1	0	0		G	62046342	G	G	62046342	3	3	214	1	0	0	0	0	1	0	0	0	8099	159	6	3	1199	3	KCNQ2	20	62046342	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	457492	62046342	979178	720	107138											
DNAJC5	80331	broad.mit.edu	37	chr20	62559774	62559774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tccttgggttggacaagaacGcaacctcagatgacattaaa	14	9	9	9	1	1	3	1	1	0	2	2	4	2	4	2	2	2	2	2	2	5	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr20:62559774G>A	uc002yhf.2	+	2	246	c.76G>A	c.(76-78)GCA>ACA	p.A26T	DNAJC5_uc002yhg.1_Missense_Mutation_p.A26T|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	26	J.				neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GGACAAGAACGCAACCTCAGA	0.502													9	70					0	0	1	0	0		A	62559774	A	A	62559774	3	1	214	1	0	0	0	0	1	0	0	0	4656	1087	38	1	78	1	DNAJC5	20	62559774	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	513432	62559774	465746	721	107139											
NCAM2	4685	broad.mit.edu	37	chr21	22910175	22910175	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttatcttccagaaaattgcCtttaaaggaagaagatggga	15	12	9	5	0	1	3	0	0	1	3	2	5	2	5	2	2	1	0	2	2	7	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:22910175C>T	uc002yld.1	+	18	2660	c.2411C>T	c.(2410-2412)CCT>CTT	p.P804L	NCAM2_uc011acb.1_Missense_Mutation_p.P662L	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	804	Cytoplasmic (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		AGAAAATTGCCTTTAAAGGAA	0.318													6	65					0	0	1	0	0		T	22910175	T	T	22910175	3	4	214	1	0	0	0	0	1	0	0	0	10222	681	24	4	2481	4	NCAM2	21	22910175	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08		22910175	25219720	722	107140											
JAM2	58494	broad.mit.edu	37	chr21	27084687	27084687	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	atctaaagccacgacaatgaGtgaaaatgtgagtatcttta	16	11	8	6	1	2	3	0	3	2	0	2	4	2	3	1	0	1	1	1	0	7	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:27084687G>A	uc002ylp.1	+	9	1402	c.857G>A	c.(856-858)AGT>AAT	p.S286N	JAM2_uc011ace.1_3'UTR|JAM2_uc002ylq.1_RNA|JAM2_uc011acf.1_Missense_Mutation_p.S250N|JAM2_uc010glh.1_RNA|JAM2_uc002ylr.1_Missense_Mutation_p.S282N|JAM2_uc010gli.1_Intron	NM_021219	NP_067042	P57087	JAM2_HUMAN	junctional adhesion molecule 2 precursor	286	Cytoplasmic (Potential).				blood coagulation|cell-cell adhesion|leukocyte migration	integral to plasma membrane|tight junction					0						ACGACAATGAGTGAAAATGTG	0.313													10	69					0	0	1	0	0		A	27084687	A	A	27084687	3	1	214	1	0	0	0	0	1	0	0	0	7959	1029	36	4	891	4	JAM2	21	27084687	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4174512	27084687	21045208	723	107141											
RNF160	26046	broad.mit.edu	37	chr21	30309004	30309004	+	Missense_Mutation	SNP	A	G	G	1	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	tgttttccgaagatacatggAatacaaagcccgaagctggt	13	10	10	8	2	0	1	0	0	0	1	1	4	1	2	2	2	4	2	2	2	6	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:30309004A>G	uc002ymr.2	-	26	4649	c.4636T>C	c.(4636-4638)TCC>CCC	p.S1546P		NM_015565	NP_056380	O94822	LTN1_HUMAN	zinc finger protein 294	1500							ligase activity|zinc ion binding				0						AGATACATGGAATACAAAGCC	0.378													48	185					0	0	1	0	0		G	30309004	G	G	30309004	3	3	214	1	0	0	0	0	1	0	0	0	13480	246	9	3	822	3	RNF160	21	30309004	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	3224317	30309004	17820891	724	107142											
B3GALT5	10317	broad.mit.edu	37	chr21	41033164	41033164	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgttttctggcgacgtggcGagtcaggtgtacaatgtctc	6	13	14	8	3	3	0	1	0	2	0	4	2	3	0	0	3	1	2	0	3	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:41033164G>A	uc002yyb.1	+	5	1270	c.678G>A	c.(676-678)GCG>GCA	p.A226A	B3GALT5_uc002yye.2_Silent_p.A226A|B3GALT5_uc002yyi.1_Silent_p.A226A|B3GALT5_uc002yyj.1_Silent_p.A226A|B3GALT5_uc002yyk.1_Silent_p.A226A|B3GALT5_uc002yyl.1_Silent_p.A226A|B3GALT5_uc002yym.1_Silent_p.A226A	NM_033173	NP_149363	Q9Y2C3	B3GT5_HUMAN	UDP-Gal:betaGlcNAc beta	226	Lumenal (Potential).				protein glycosylation	endoplasmic reticulum|Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			skin(1)	1		Prostate(19;2.55e-06)				GCGACGTGGCGAGTCAGGTGT	0.522													24	63					0	0	1	0	0		A	41033164	A	A	41033164	2	1	214	1	0	0	0	0	0	0	0	1	1251	1045	37	1		1	B3GALT5	21	41033164	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	10724160	41033164	7096731	725	107143											
DSCAM	1826	broad.mit.edu	37	chr21	41719765	41719765	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaggatttcaccattgcggtAccaggagagttcctggtcct	8	11	12	10	1	1	1	1	0	0	1	3	4	3	2	4	4	2	2	4	4	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:41719765A>G	uc002yyq.1	-	6	1494	c.1042T>C	c.(1042-1044)TAC>CAC	p.Y348H	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	348	Extracellular (Potential).|Ig-like C2-type 4.				cell adhesion|dendrite self-avoidance|negative regulation of cell adhesion|positive regulation of axon extension involved in axon guidance|positive regulation of phosphorylation	axon|extracellular region|growth cone|integral to plasma membrane|membrane fraction	protein binding			ovary(6)|skin(4)|upper_aerodigestive_tract(1)	11		all_cancers(19;0.186)|Prostate(19;1.15e-05)|all_epithelial(19;0.0103)				CCATTGCGGTACCAGGAGAGT	0.502													10	96					0	0	1	0	0		G	41719765	G	G	41719765	3	3	214	1	0	0	0	0	1	0	0	0	4774	391	14	3	5108	3	DSCAM	21	41719765	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	686601	41719765	6410130	726	107144											
KRTAP10-2	386679	broad.mit.edu	37	chr21	45971299	45971299	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtcgtccacctgccaggagtTggtgcaggcgctggagcaga	7	7	16	11	2	0	1	0	0	0	1	2	3	1	3	3	4	3	4	3	4	0	1	rs233240	by1000genomes	TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:45971299T>C	uc002zfi.1	-	1	90	c.43A>G	c.(43-45)AAC>GAC	p.N15D	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198693	NP_941966	P60368	KR102_HUMAN	keratin associated protein 10-2	15						keratin filament		p.N15D(1)		large_intestine(1)	1						TGCCAGGAGTTGGTGCAGGCG	0.597													6	87					0	0	1	0	0		C	45971299	C	C	45971299	3	2	214	1	0	0	0	0	1	0	0	0	8525	1812	63	3	728	3	KRTAP10-2	21	45971299	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4251534	45971299	2158596	727	107145											
PCNT	5116	broad.mit.edu	37	chr21	47848469	47848469	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgacaagcgcagaggcgcGcgggagccagcaggagcacc	10	1	17	13	4	0	2	0	1	0	1	0	4	0	4	2	3	4	4	2	3	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:47848469G>A	uc002zji.3	+	35	7762	c.7655G>A	c.(7654-7656)CGC>CAC	p.R2552H	PCNT_uc002zjj.2_Missense_Mutation_p.R2434H	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	2552	Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GCAGAGGCGCGCGGGAGCCAG	0.692													4	10					0	0	1	0	0		A	47848469	A	A	47848469	3	1	214	1	0	0	0	0	1	0	0	0	11609	1087	38	1	7793	1	PCNT	21	47848469	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1877170	47848469	281426	728	107146											
DIP2A	23181	broad.mit.edu	37	chr21	47961668	47961668	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	catggtggttttattttctaGgccacctgatctgggaggac	7	14	12	8	0	2	1	0	1	2	0	2	3	2	3	2	5	0	1	2	5	2	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr21:47961668G>T	uc002zjo.2	+	18	2220	c.2037_splice	c.e18-1	p.R679_splice	DIP2A_uc011afy.1_Splice_Site_p.R615_splice|DIP2A_uc011afz.1_Splice_Site_p.R675_splice|DIP2A_uc002zjl.2_Splice_Site_p.R679_splice|DIP2A_uc002zjm.2_Splice_Site_p.R679_splice|DIP2A_uc010gql.2_Splice_Site_p.R636_splice|DIP2A_uc002zjn.2_Splice_Site_p.R679_splice|DIP2A_uc002zjp.1_Splice_Site_p.R424_splice|DIP2A_uc002zjq.2_Splice_Site_p.R71_splice	NM_015151	NP_055966	Q14689	DIP2A_HUMAN	disco-interacting protein 2A isoform a						multicellular organismal development	nucleus	catalytic activity|transcription factor binding			ovary(2)	2	Breast(49;0.0933)			Epithelial(3;3.12e-06)|OV - Ovarian serous cystadenocarcinoma(3;5.68e-06)|all cancers(3;4.08e-05)|Colorectal(79;0.0129)|COAD - Colon adenocarcinoma(84;0.0824)		TTATTTTCTAGGCCACCTGAT	0.493													6	33					0.0215528	0.0218585	1	1	0		T	47961668	T	T	47961668	5	4	214	1	0	0	0	0	0	0	1	0	4533	1014	35	5	2106	5	DIP2A	21	47961668	Splice_Site	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	113199	47961668	168227	729	107147											
TOP3B	8940	broad.mit.edu	37	chr22	22323108	22323108	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aaggagatgagagagctgtcTaaatcaccgtatttcccctg	12	10	10	9	1	2	3	1	1	1	2	3	5	3	3	3	1	1	2	3	1	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:22323108T>C	uc002zvs.2	-	7	1056	c.621A>G	c.(619-621)TTA>TTG	p.L207L	TOP3B_uc010gtm.1_5'Flank|TOP3B_uc002zvr.2_5'UTR|TOP3B_uc010gtl.2_Silent_p.L207L|TOP3B_uc002zvt.3_Silent_p.L207L	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	207					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		GAGAGCTGTCTAAATCACCGT	0.458													13	89					0	0	1	0	0		C	22323108	C	C	22323108	2	2	214	1	0	0	0	0	0	0	0	1	16394	1519	53	3		3	TOP3B	22	22323108	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08		22323108	28981458	730	107148											
MYO18B	84700	broad.mit.edu	37	chr22	26423589	26423589	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cgagcggagagagccagggaCggggaggaaagacgacgatg	13	1	20	7	5	0	2	0	0	0	2	0	10	0	6	1	5	2	0	1	5	1	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:26423589C>T	uc003abz.1	+	43	7899	c.7649C>T	c.(7648-7650)ACG>ATG	p.T2550M	MYO18B_uc003aca.1_Missense_Mutation_p.T2431M|MYO18B_uc010guy.1_Missense_Mutation_p.T2432M|MYO18B_uc010guz.1_Missense_Mutation_p.T2430M|MYO18B_uc011aka.1_Missense_Mutation_p.T1704M|MYO18B_uc011akb.1_Missense_Mutation_p.T2063M|MYO18B_uc010gva.1_Missense_Mutation_p.T533M|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2550						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						GAGCCAGGGACGGGGAGGAAA	0.552													6	17					0	0	1	0	0		T	26423589	T	T	26423589	3	4	214	1	0	0	0	0	1	0	0	0	10084	536	19	1	7815	1	MYO18B	22	26423589	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	4100481	26423589	24880977	731	107149											
NEFH	4744	broad.mit.edu	37	chr22	29886141	29886141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaggtgaaagtcaaagagCccccaaagaaggcagaggaa	18	2	14	7	0	1	4	1	1	0	3	1	6	1	6	2	4	1	1	2	4	5	0			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:29886141C>T	uc003afo.2	+	4	2583	c.2512C>T	c.(2512-2514)CCC>TCC	p.P838S	NEFH_uc003afp.2_5'UTR	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	844	Tail.				cell death|nervous system development	neurofilament					0						AGTCAAAGAGCCCCCAAAGAA	0.542													7	24					0	0	1	0	0		T	29886141	T	T	29886141	3	4	214	1	0	0	0	0	1	0	0	0	10333	739	26	2	2526	2	NEFH	22	29886141	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	3462552	29886141	21418425	732	107150											
MTMR3	8897	broad.mit.edu	37	chr22	30415734	30415734	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggagaacatcttgcaggagGccaccaaagaggagagtgga	14	5	15	7	0	1	3	0	0	1	3	1	7	1	5	2	5	2	1	2	5	2	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:30415734G>A	uc003agv.3	+	17	2414	c.2086G>A	c.(2086-2088)GCC>ACC	p.A696T	MTMR3_uc003agu.3_Missense_Mutation_p.A696T|MTMR3_uc003agw.3_Missense_Mutation_p.A696T	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	696					phosphatidylinositol dephosphorylation	cytoplasm|membrane|membrane fraction|nucleus	metal ion binding|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity			breast(3)|ovary(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(5;0.00204)|Epithelial(10;0.06)|all cancers(5;0.107)			CTTGCAGGAGGCCACCAAAGA	0.587													8	76					0	0	1	0	0		A	30415734	A	A	30415734	3	1	214	1	0	0	0	0	1	0	0	0	9963	1203	42	2	2144	2	MTMR3	22	30415734	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	529593	30415734	20888832	733	107151											
MB	4151	broad.mit.edu	37	chr22	36006983	36006983	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggcatgcgactgtgccaggGgcttaatctctgcctcatga	7	11	12	11	1	2	1	1	1	1	0	3	2	2	1	2	3	3	2	2	3	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:36006983G>A	uc003anz.2	-	2	346	c.266C>T	c.(265-267)CCC>CTC	p.P89L	MB_uc003aoa.2_Missense_Mutation_p.P89L|MB_uc003aob.2_Missense_Mutation_p.P89L	NM_005368	NP_005359	P02144	MYG_HUMAN	myoglobin	89							heme binding|oxygen transporter activity				0						CTGTGCCAGGGGCTTAATCTC	0.433													3	29					0	0	1	0	0		A	36006983	A	A	36006983	3	1	214	1	0	0	0	0	1	0	0	0	9359	1232	43	4	206	4	MB	22	36006983	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	5591249	36006983	15297583	734	107152											
XRCC6	2547	broad.mit.edu	37	chr22	42052906	42052906	+	Splice_Site	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaatttatctcctttcttcaGgcttccagctggtcttttta	7	19	5	10	0	4	0	1	0	3	0	6	0	5	0	2	2	1	2	2	2	3	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:42052906G>T	uc003bao.1	+	10	1362	c.1292_splice	c.e10-1	p.G431_splice	XRCC6_uc003bap.1_Splice_Site_p.G390_splice|XRCC6_uc011apc.1_Splice_Site_p.G381_splice|XRCC6_uc003baq.1_Splice_Site_p.G431_splice|XRCC6_uc003bar.1_Splice_Site_p.G431_splice|XRCC6_uc003bas.1_Splice_Site_p.G381_splice	NM_001469	NP_001460	P12956	XRCC6_HUMAN	ATP-dependent DNA helicase II, 70 kDa subunit						DNA ligation|double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|positive regulation of transcription from RNA polymerase II promoter|provirus integration|telomere maintenance|transcription, DNA-dependent	DNA-dependent protein kinase-DNA ligase 4 complex|Ku70:Ku80 complex|membrane fraction|nuclear telomere cap complex|transcription factor complex	5'-deoxyribose-5-phosphate lyase activity|ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|transcription regulatory region DNA binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5						CCTTTCTTCAGGCTTCCAGCT	0.318								Direct_reversal_of_damage|NHEJ					5	45					0.0215528	0.0218585	1	1	0		T	42052906	T	T	42052906	5	4	214	1	0	0	0	0	0	0	1	0	17483	1014	35	5	1325	5	XRCC6	22	42052906	Splice_Site	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	6045923	42052906	9251660	735	107153											
ATXN10	25814	broad.mit.edu	37	chr22	46114329	46114329	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacctctttctgaaaagcccGgaattggtacaagccatgtt	11	11	9	10	1	2	1	0	1	2	0	2	3	2	2	3	2	3	2	3	2	5	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:46114329G>A	uc003bgm.1	+	6	941	c.684G>A	c.(682-684)CCG>CCA	p.P228P	ATXN10_uc011aqt.1_Silent_p.P164P|ATXN10_uc003bgn.1_Silent_p.P39P	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	228					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		TGAAAAGCCCGGAATTGGTAC	0.413													23	106					0	0	1	0	0		A	46114329	A	A	46114329	2	1	214	1	0	0	0	0	0	0	0	1	1211	1103	39	1		1	ATXN10	22	46114329	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	4061423	46114329	5190237	736	107154											
PLXNB2	23654	broad.mit.edu	37	chr22	50718919	50718919	+	Missense_Mutation	SNP	T	C	C	0	1	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	tggccccgcccatgtgcaccTgcgcagcatcagcttggggt	5	8	13	15	2	1	0	1	0	0	0	1	0	1	0	4	3	4	4	4	3	0	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chr22:50718919T>C	uc003bkv.3	-	25	4280	c.4174A>G	c.(4174-4176)AGG>GGG	p.R1392G	PLXNB2_uc003bkt.1_Missense_Mutation_p.R184G|PLXNB2_uc003bku.1_Missense_Mutation_p.R377G	NM_012401	NP_036533	O15031	PLXB2_HUMAN	plexin B2 precursor	1392	Cytoplasmic (Potential).				regulation of small GTPase mediated signal transduction	integral to membrane|intracellular	GTPase activator activity|protein binding|receptor activity			ovary(4)|central_nervous_system(1)|skin(1)	6		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		cATGTGCACCTGCGCAGCATC	0.547													11	54					0	0	1	0	0		C	50718919	C	C	50718919	3	2	214	1	0	0	0	0	1	0	0	0	12143	1594	55	3	1394	3	PLXNB2	22	50718919	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4604590	50718919	585647	737	107155											
GPR143	4935	broad.mit.edu	37	chrX	9716642	9716642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggaagggtagtagagcatggCggctccctccacacagagca	11	5	14	11	1	0	2	0	0	0	2	2	3	2	3	2	4	2	5	2	4	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:9716642C>T	uc004cst.1	-	4	580	c.580G>A	c.(580-582)GCC>ACC	p.A194T		NM_000273	NP_000264	P51810	GP143_HUMAN	G protein-coupled receptor 143	174	Extracellular (Potential).				calcium-mediated signaling using intracellular calcium source|eye pigment biosynthetic process|melanosome organization|melanosome transport|phosphatidylinositol-mediated signaling|regulation of calcium-mediated signaling|visual perception	apical plasma membrane|Golgi apparatus|integral to membrane|lysosomal membrane|melanosome membrane|membrane fraction	dopamine binding|L-DOPA receptor activity|protein binding|tyrosine binding			ovary(1)	1		Hepatocellular(5;0.000888)				TAGAGCATGGCGGCTCCCTCC	0.587													9	45					0	0	1	0	0		T	9716642	T	T	9716642	3	4	214	1	0	0	0	0	1	0	0	0	6666	768	27	1	718	1	GPR143	23	9716642	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08		9716642	145553918	738	107156											
MAP3K15	389840	broad.mit.edu	37	chrX	19391803	19391803	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcagggccaggacgacaccGcggggaccttctgtaggggg	7	4	19	11	3	1	0	0	0	1	0	1	3	1	2	3	7	0	2	3	7	1	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:19391803G>A	uc004czk.1	-	22	2846	c.1209C>T	c.(1207-1209)CGC>CGT	p.R403R	MAP3K15_uc004czj.1_Silent_p.R363R|MAP3K15_uc004czi.1_5'Flank	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	928							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					GGACGACACCGCGGGGACCTT	0.677													3	18					0	0	1	0	0		A	19391803	A	A	19391803	2	1	214	1	0	0	0	0	0	0	0	1	9267	1074	38	1		1	MAP3K15	23	19391803	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	9675161	19391803	135878757	739	107157											
DMD	1756	broad.mit.edu	37	chrX	31893303	31893303	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttaaagcaaaaagttccctAccttaacgtcaaatggtcct	14	12	5	10	1	1	0	1	0	0	0	3	0	3	0	3	1	3	2	3	1	7	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:31893303A>T	uc004dda.1	-	48	7342	c.7098_splice	c.e48+1	p.Q2366_splice	DMD_uc004dcr.1_Splice_Site|DMD_uc004dcs.1_Splice_Site|DMD_uc004dct.1_Splice_Site|DMD_uc004dcu.1_Splice_Site|DMD_uc004dcv.1_Splice_Site|DMD_uc004dcw.2_Splice_Site_p.Q1022_splice|DMD_uc004dcx.2_Splice_Site_p.Q1025_splice|DMD_uc004dcz.2_Splice_Site_p.Q2243_splice|DMD_uc004dcy.1_Splice_Site_p.Q2362_splice|DMD_uc004ddb.1_Splice_Site_p.Q2358_splice	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform						muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				AAAGTTCCCTACCTTAACGTC	0.294													4	20					0	0	1	0	0		T	31893303	T	T	31893303	5	4	214	1	0	0	0	0	0	0	1	0	4586	406	14	5		5	DMD	23	31893303	Splice_Site	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	12501500	31893303	123377257	740	107158											
DMD	1756	broad.mit.edu	37	chrX	32328290	32328290	+	Missense_Mutation	SNP	T	C	C	0	1	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	gttccacttctaatagggctTgtgagacatgagtgatttca	10	14	10	7	0	2	3	1	3	1	1	3	4	3	3	1	1	0	2	1	1	2	6			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:32328290T>C	uc004dda.1	-	42	6270	c.6026A>G	c.(6025-6027)CAA>CGA	p.Q2009R	DMD_uc004dcw.2_Missense_Mutation_p.Q665R|DMD_uc004dcx.2_Missense_Mutation_p.Q668R|DMD_uc004dcz.2_Missense_Mutation_p.Q1886R|DMD_uc004dcy.1_Missense_Mutation_p.Q2005R|DMD_uc004ddb.1_Missense_Mutation_p.Q2001R|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2009					muscle filament sliding|peptide biosynthetic process	cell surface|costamere|cytoskeleton|cytosol|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|dystroglycan binding|nitric-oxide synthase binding|protein binding|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(3)|pancreas(2)|large_intestine(1)	6		all_cancers(2;1.22e-16)|Acute lymphoblastic leukemia(2;4.65e-06)|all_hematologic(2;0.00108)|all_epithelial(3;0.00626)|all_neural(2;0.0189)|all_lung(315;0.182)|Glioma(3;0.203)				TAATAGGGCTTGTGAGACATG	0.413													4	72					0	0	1	0	0		C	32328290	C	C	32328290	3	2	214	1	0	0	0	0	1	0	0	0	4586	1812	63	3	5331	3	DMD	23	32328290	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	434987	32328290	122942270	741	107159											
AKAP4	8852	broad.mit.edu	37	chrX	49957452	49957452	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttgaaggggttctcattaaGcagtttctgaatcagcatta	11	15	9	6	0	3	2	2	2	2	0	4	2	3	2	0	2	2	4	0	2	4	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:49957452G>A	uc004dow.1	-	5	2036	c.1912C>T	c.(1912-1914)CTT>TTT	p.L638F	AKAP4_uc004dov.1_Missense_Mutation_p.L255F|AKAP4_uc010njp.1_Missense_Mutation_p.L460F|AKAP4_uc004dou.1_Missense_Mutation_p.L629F	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	638					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TTCTCATTAAGCAGTTTCTGA	0.478													19	127					0	0	1	0	0		A	49957452	A	A	49957452	3	1	214	1	0	0	0	0	1	0	0	0	453	971	34	2	660	2	AKAP4	23	49957452	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	17629162	49957452	105313108	742	107160											
CCNB3	85417	broad.mit.edu	37	chrX	50055619	50055619	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaggaaatcttcagttacaTgaaagagagagaggtattta	17	10	10	4	0	2	3	1	1	1	2	2	6	2	4	0	2	1	2	0	2	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:50055619T>C	uc004dox.3	+	7	3708	c.3410T>C	c.(3409-3411)ATG>ACG	p.M1137T	CCNB3_uc004doy.2_Missense_Mutation_p.M1137T|CCNB3_uc004doz.2_Intron|CCNB3_uc010njq.2_Missense_Mutation_p.M29T	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1137					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					TTCAGTTACATGAAAGAGAGA	0.418													8	85					0	0	1	0	0		C	50055619	C	C	50055619	3	2	214	1	0	0	0	0	1	0	0	0	2917	1464	51	3	3428	3	CCNB3	23	50055619	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	98167	50055619	105214941	743	107161											
BMP15	9210	broad.mit.edu	37	chrX	50659507	50659507	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccggccctcctgtgtcccgtAtaagtatgttccaattagtg	7	13	9	12	2	0	0	0	0	0	0	3	0	3	0	5	1	0	3	5	1	5	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:50659507A>G	uc011mnw.1	+	2	1079	c.1079A>G	c.(1078-1080)TAT>TGT	p.Y360C		NM_005448	NP_005439	O95972	BMP15_HUMAN	bone morphogenetic protein 15 precursor	360					female gamete generation|granulosa cell development|ovarian follicle development	extracellular space	cytokine activity|growth factor activity			ovary(2)	2	Ovarian(276;0.236)					TGTGTCCCGTATAAGTATGTT	0.458													6	85					0	0	1	0	0		G	50659507	G	G	50659507	3	3	214	1	0	0	0	0	1	0	0	0	1459	449	16	3	1085	3	BMP15	23	50659507	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	603888	50659507	104611053	744	107162											
ITIH5L	347365	broad.mit.edu	37	chrX	54784484	54784484	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catcttcttggtagaggcagTagtagttgaggataagtaga	12	12	13	4	0	2	3	0	1	2	2	2	4	2	4	0	3	0	6	0	3	5	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:54784484T>C	uc004dtj.2	-	8	2053	c.2023A>G	c.(2023-2025)ACT>GCT	p.T675A		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	675					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						GTAGAGGCAGTAGTAGTTGAG	0.512													14	75					0	0	1	0	0		C	54784484	C	C	54784484	3	2	214	1	0	0	0	0	1	0	0	0	7924	1638	57	3	1942	3	ITIH5L	23	54784484	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4124977	54784484	100486076	745	107163											
LAS1L	81887	broad.mit.edu	37	chrX	64738227	64738227	+	Missense_Mutation	SNP	A	G	G	1	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	tggagacttcccaatgggggAggcctcagagccctcctgca	8	7	13	13	0	1	2	1	0	0	2	3	4	3	3	4	4	2	1	4	4	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:64738227A>G	uc004dwa.1	-	12	1639	c.1567T>C	c.(1567-1569)TCC>CCC	p.S523P	LAS1L_uc004dwc.1_Missense_Mutation_p.S506P|LAS1L_uc004dwd.1_Missense_Mutation_p.S464P|LAS1L_uc004dvy.1_Missense_Mutation_p.S36P|LAS1L_uc004dvz.1_Missense_Mutation_p.S36P	NM_031206	NP_112483	Q9Y4W2	LAS1L_HUMAN	LAS1-like	523						MLL1 complex|nucleolus	protein binding			ovary(3)|large_intestine(1)	4						CCAATGGGGGAGGCCTCAGAG	0.577													6	104					0	0	1	0	0		G	64738227	G	G	64738227	3	3	214	1	0	0	0	0	1	0	0	0	8652	304	11	3	649	3	LAS1L	23	64738227	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	9953743	64738227	90532333	746	107164											
STARD8	9754	broad.mit.edu	37	chrX	67941391	67941391	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcacagtcctccccaaggaTcagtggttggcagcagcaca	10	7	10	14	0	2	0	2	0	0	0	4	1	4	1	3	3	2	4	3	3	1	1			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:67941391T>A	uc004dxa.2	+	9	2394	c.2022T>A	c.(2020-2022)GAT>GAA	p.D674E	STARD8_uc004dxb.2_Missense_Mutation_p.D754E|STARD8_uc004dxc.3_Missense_Mutation_p.D674E	NM_014725	NP_055540	Q92502	STAR8_HUMAN	StAR-related lipid transfer (START) domain	674	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|focal adhesion	GTPase activator activity			breast(3)|ovary(2)|pancreas(1)	6						TCCCCAAGGATCAGTGGTTGG	0.562													5	56					0	0	1	0	0		A	67941391	A	A	67941391	3	1	214	1	0	0	0	0	1	0	0	0	15288	1432	50	5	2300	5	STARD8	23	67941391	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	3203164	67941391	87329169	747	107165											
P2RY4	5030	broad.mit.edu	37	chrX	69478742	69478742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagcaccacagctatggtgcGgagagagcggaggcgagaag	12	3	17	9	3	0	2	0	0	0	2	0	6	0	4	1	4	4	2	1	4	2	1	rs149438352		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:69478742G>A	uc004dxz.1	-	1	913	c.733C>T	c.(733-735)CGC>TGC	p.R245C		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	245	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|elevation of cytosolic calcium ion concentration	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1						GCTATGGTGCGGAGAGAGCGG	0.577													4	37					0	0	1	0	0		A	69478742	A	A	69478742	3	1	214	1	0	0	0	0	1	0	0	0	11372	1116	39	1	368	1	P2RY4	23	69478742	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	1537351	69478742	85791818	748	107166											
KIAA2022	340533	broad.mit.edu	37	chrX	73960013	73960013	+	Missense_Mutation	SNP	T	C	C	0	1	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	tgtgctttcccttacatttcTcatctctcagggccttggag	5	16	8	12	0	3	0	2	0	2	0	6	1	4	1	2	2	2	1	2	2	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:73960013T>C	uc004eby.2	-	3	4996	c.4379A>G	c.(4378-4380)GAG>GGG	p.E1460G		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1460					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						CTTACATTTCTCATCTCTCAG	0.433													6	79					0	0	1	0	0		C	73960013	C	C	73960013	3	2	214	1	0	0	0	0	1	0	0	0	8285	1551	54	3	179	3	KIAA2022	23	73960013	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	4481271	73960013	81310547	749	107167											
PCDH11X	27328	broad.mit.edu	37	chrX	91133620	91133620	+	Missense_Mutation	SNP	T	C	C	0	1	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	caaaagcactgaagcaccagTgaccccaaatactgagatag	17	5	8	11	0	0	3	0	3	0	1	0	4	0	3	3	0	3	2	3	0	6	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:91133620T>C	uc004efk.1	+	2	3226	c.2381T>C	c.(2380-2382)GTG>GCG	p.V794A	PCDH11X_uc004efl.1_Missense_Mutation_p.V794A|PCDH11X_uc004efo.1_Missense_Mutation_p.V794A|PCDH11X_uc010nmv.1_Missense_Mutation_p.V794A|PCDH11X_uc004efm.1_Missense_Mutation_p.V794A|PCDH11X_uc004efn.1_Missense_Mutation_p.V794A|PCDH11X_uc004efh.1_Missense_Mutation_p.V794A|PCDH11X_uc004efj.1_Missense_Mutation_p.V794A	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	794	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						GAAGCACCAGTGACCCCAAAT	0.448													23	100					0	0	1	0	0		C	91133620	C	C	91133620	3	2	214	1	0	0	0	0	1	0	0	0	11527	1696	59	3	2387	3	PCDH11X	23	91133620	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	17173607	91133620	64136940	750	107168											
PCDH19	57526	broad.mit.edu	37	chrX	99551676	99551676	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatctttcccaaaggttgCgaaagtccgtttggtggggc	8	11	13	9	2	1	0	0	0	1	0	3	2	3	0	2	4	1	2	2	4	2	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:99551676C>T	uc010nmz.2	-	6	4722	c.3046G>A	c.(3046-3048)GCA>ACA	p.A1016T	PCDH19_uc004efw.3_Missense_Mutation_p.A968T|PCDH19_uc004efx.3_Missense_Mutation_p.A969T	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	1016	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CCAAAGGTTGCGAAAGTCCGT	0.562													8	68					0	0	1	0	0		T	99551676	T	T	99551676	3	4	214	1	0	0	0	0	1	0	0	0	11533	768	27	1	404	1	PCDH19	23	99551676	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	8418056	99551676	55718884	751	107169											
TRMT2B	79979	broad.mit.edu	37	chrX	100297270	100297270	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	agtgggactcttctcttaagGcctgccatccaaagaacaca	12	9	8	12	0	2	1	0	0	2	1	4	2	3	2	3	2	2	0	3	2	3	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:100297270G>T	uc004egq.2	-	2	308	c.9C>A	c.(7-9)GGC>GGA	p.G3G	TRMT2B_uc004egp.2_RNA|TRMT2B_uc004egr.2_Silent_p.G3G|TRMT2B_uc004egs.2_Silent_p.G3G|TRMT2B_uc004egt.2_Silent_p.G3G|TRMT2B_uc004egu.2_5'UTR|TRMT2B_uc004egv.2_Silent_p.G3G	NM_024917	NP_079193	Q96GJ1	TRM2_HUMAN	TRM2 tRNA methyltransferase 2 homolog B	3							tRNA (uracil-5-)-methyltransferase activity			ovary(1)	1						TTCTCTTAAGGCCTGCCATCC	0.473													8	56					7.48243e-07	8.04502e-07	1	1	0		T	100297270	T	T	100297270	2	4	214	1	0	0	0	0	0	0	0	1	16592	1190	42	5		5	TRMT2B	23	100297270	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	745594	100297270	54973290	752	107170											
TAF7L	54457	broad.mit.edu	37	chrX	100536708	100536708	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acaaatagcatgtaactaacCtttttttgtgttttccggaa	12	16	6	7	1	0	0	0	0	0	0	1	1	1	1	2	1	3	3	2	1	5	8			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:100536708C>T	uc004ehb.2	-	6	732	c.720G>A	c.(718-720)AAG>AAA	p.K240K	TAF7L_uc004eha.2_Silent_p.K154K|TAF7L_uc004ehc.1_Silent_p.K154K	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	240					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						TGTAACTAACCTTTTTTTGTG	0.363													23	156					0	0	1	0	0		T	100536708	T	T	100536708	2	4	214	1	0	0	0	0	0	0	0	1	15558	695	24	4		4	TAF7L	23	100536708	Silent	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	239438	100536708	54733852	753	107171											
GPRASP1	9737	broad.mit.edu	37	chrX	101910109	101910109	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	catggcagatgaagccagcaTagagtccagtctacaagtgg	13	7	12	9	0	1	3	0	1	1	2	2	3	2	3	2	2	3	2	2	2	4	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:101910109T>C	uc004ejj.3	+	5	2069	c.1268T>C	c.(1267-1269)ATA>ACA	p.I423T	GPRASP1_uc004eji.3_Missense_Mutation_p.I423T|GPRASP1_uc010nod.2_Missense_Mutation_p.I423T	NM_014710	NP_055525	Q5JY77	GASP1_HUMAN	G protein-coupled receptor associated sorting	423						cytoplasm	protein binding			ovary(1)|lung(1)	2						GAAGCCAGCATAGAGTCCAGT	0.547													17	87					0	0	1	0	0		C	101910109	C	C	101910109	3	2	214	1	0	0	0	0	1	0	0	0	6738	1406	49	3	1270	3	GPRASP1	23	101910109	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	1373401	101910109	53360451	754	107172											
GPRASP2	114928	broad.mit.edu	37	chrX	101970627	101970627	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagatccaagcaagaagcctAtgttgattcctggtctggat	11	11	10	9	0	1	3	0	1	1	2	3	4	3	4	3	2	2	2	3	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:101970627A>G	uc004ejk.2	+	4	2164	c.830A>G	c.(829-831)TAT>TGT	p.Y277C	GPRASP2_uc004ejl.2_Missense_Mutation_p.Y277C|GPRASP2_uc004ejm.2_Missense_Mutation_p.Y277C|GPRASP2_uc011mrp.1_5'Flank	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	277						cytoplasm	protein binding			ovary(1)	1						CAAGAAGCCTATGTTGATTCC	0.522													24	150					0	0	1	0	0		G	101970627	G	G	101970627	3	3	214	1	0	0	0	0	1	0	0	0	6739	449	16	3	832	3	GPRASP2	23	101970627	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	60518	101970627	53299933	755	107173											
BHLHB9	80823	broad.mit.edu	37	chrX	102004550	102004550	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tatgaaattaatgaaaaaaaTaggcccaaggactggtctga	18	9	9	5	0	1	3	0	3	1	0	1	4	1	4	1	3	0	0	1	3	8	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:102004550T>C	uc010nog.2	+	4	1198	c.627T>C	c.(625-627)AAT>AAC	p.N209N	BHLHB9_uc011mrq.1_Silent_p.N209N|BHLHB9_uc011mrr.1_Silent_p.N209N|BHLHB9_uc011mrs.1_Silent_p.N209N|BHLHB9_uc011mrt.1_Silent_p.N209N|BHLHB9_uc004ejo.2_Silent_p.N209N|BHLHB9_uc011mru.1_Silent_p.N209N|BHLHB9_uc011mrv.1_Silent_p.N209N	NM_001142526	NP_001135998	Q6PI77	BHLH9_HUMAN	basic helix-loop-helix domain containing, class	209						cytoplasm|nucleus	binding			ovary(2)	2						ATGAAAAAAATAGGCCCAAGG	0.463													6	209					0	0	1	0	0		C	102004550	C	C	102004550	2	2	214	1	0	0	0	0	0	0	0	1	1421	1403	49	3		3	BHLHB9	23	102004550	Silent	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	33923	102004550	53266010	756	107174											
TCEAL1	9338	broad.mit.edu	37	chrX	102885195	102885195	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccgcaatttagaggggacatAcatggcagaaatttaagcaa	16	8	10	7	1	0	2	0	0	0	2	0	3	0	3	1	3	2	3	1	3	6	5			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:102885195A>G	uc004eks.2	+	3	525	c.351A>G	c.(349-351)ATA>ATG	p.I117M	TCEAL1_uc004ekt.2_Missense_Mutation_p.I117M|TCEAL1_uc004eku.2_Missense_Mutation_p.I117M	NM_001006640	NP_001006641	Q15170	TCAL1_HUMAN	transcription elongation factor A (SII)-like 1	115					negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GAGGGGACATACATGGCAGAA	0.438													4	62					0	0	1	0	0		G	102885195	G	G	102885195	3	3	214	1	0	0	0	0	1	0	0	0	15695	381	14	3	353	3	TCEAL1	23	102885195	Missense_Mutation	SNP	A	TCGA-HU-A4H4-01A-21D-A25D-08	880645	102885195	52385365	757	107175											
CHRDL1	91851	broad.mit.edu	37	chrX	109922617	109922617	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaagctcctcaaacatcctcTtggagatcttctcaatatgg	11	12	7	11	0	4	1	2	0	3	1	7	3	6	1	2	2	2	1	2	2	4	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:109922617T>C	uc004eou.3	-	11	1542	c.1193A>G	c.(1192-1194)AAG>AGG	p.K398R	CHRDL1_uc004eov.2_Missense_Mutation_p.K387R|CHRDL1_uc004eow.2_Missense_Mutation_p.K396R|CHRDL1_uc010nps.2_Missense_Mutation_p.K397R|CHRDL1_uc004eot.2_Missense_Mutation_p.K317R|CHRDL1_uc011mss.1_Missense_Mutation_p.K312R	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	390					BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						AAACATCCTCTTGGAGATCTT	0.453													11	79					0	0	1	0	0		C	109922617	C	C	109922617	3	2	214	1	0	0	0	0	1	0	0	0	3376	1609	56	3	191	3	CHRDL1	23	109922617	Missense_Mutation	SNP	T	TCGA-HU-A4H4-01A-21D-A25D-08	7037422	109922617	45347943	758	107176											
DCX	1641	broad.mit.edu	37	chrX	110644413	110644413	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaaagtccttgttctccctGgcctgtgcactgttgctgct	5	14	9	13	0	1	0	0	0	1	0	3	0	2	0	3	1	3	5	3	1	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:110644413G>C	uc004epd.2	-	3	925	c.753C>G	c.(751-753)GCC>GCG	p.A251A	DCX_uc011msv.1_Silent_p.A251A|DCX_uc004epe.2_Silent_p.A170A|DCX_uc004epf.2_Silent_p.A170A|DCX_uc004epg.2_Silent_p.A170A	NM_000555	NP_000546	O43602	DCX_HUMAN	doublecortin isoform a	251					axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			central_nervous_system(2)|lung(1)|skin(1)	4						TGTTCTCCCTGGCCTGTGCAC	0.527													19	60					0	0	1	0	0		C	110644413	C	C	110644413	2	2	214	1	0	0	0	0	0	0	0	1	4321	1335	47	5		5	DCX	23	110644413	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	721796	110644413	44626147	759	107177											
TRPC5	7224	broad.mit.edu	37	chrX	111020035	111020035	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggttctgatgagaggtggccCatggcaagtctttttcttgc	6	14	13	8	0	3	2	0	2	3	1	3	3	3	2	1	4	1	2	1	4	1	4			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:111020035C>A	uc004epl.1	-	11	3347	c.2428G>T	c.(2428-2430)GGG>TGG	p.G810W		NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	810	Cytoplasmic (Potential).				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						AGAGGTGGCCCATGGCAAGTC	0.488													36	176					2.6416e-12	2.96661e-12	1	1	0		A	111020035	A	A	111020035	3	1	214	1	0	0	0	0	1	0	0	0	16608	594	21	5	497	5	TRPC5	23	111020035	Missense_Mutation	SNP	C	TCGA-HU-A4H4-01A-21D-A25D-08	375622	111020035	44250525	760	107178											
HS6ST2	90161	broad.mit.edu	37	chrX	131762948	131762948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	agtccataaactctttgaggGggcagccagaccagtcatcg	11	8	11	11	1	2	2	1	1	1	1	4	2	3	2	3	2	2	1	3	2	2	2			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:131762948G>A	uc011mve.1	-	4	1537	c.1121C>T	c.(1120-1122)CCC>CTC	p.P374L	HS6ST2_uc011mvb.1_Missense_Mutation_p.P268L|HS6ST2_uc011mvc.1_Missense_Mutation_p.P228L|HS6ST2_uc011mvd.1_Missense_Mutation_p.P414L|HS6ST2_uc011mva.1_Missense_Mutation_p.P100L	NM_147175	NP_671704	Q96MM7	H6ST2_HUMAN	heparan sulfate 6-O-sulfotransferase 2 isoform	374	Lumenal (Potential).					integral to membrane	sulfotransferase activity				0	Acute lymphoblastic leukemia(192;0.000127)					CTCTTTGAGGGGGCAGCCAGA	0.582													6	42					0	0	1	0	0		A	131762948	A	A	131762948	3	1	214	1	0	0	0	0	1	0	0	0	7387	1232	43	4	700	4	HS6ST2	23	131762948	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	20742913	131762948	23507612	761	107179											
GPR112	139378	broad.mit.edu	37	chrX	135427817	135427817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	agctgcccatctgttctccaGcaatgagaccatttggactt	9	12	8	12	0	2	1	0	1	2	1	3	3	2	2	3	1	3	3	3	1	1	3			TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:135427817G>A	uc004ezu.1	+	6	2243	c.1952G>A	c.(1951-1953)AGC>AAC	p.S651N	GPR112_uc010nsb.1_Missense_Mutation_p.S446N|GPR112_uc010nsc.1_Missense_Mutation_p.S418N	NM_153834	NP_722576	Q8IZF6	GP112_HUMAN	G-protein coupled receptor 112	651	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(5)|large_intestine(2)|skin(2)|lung(1)|breast(1)|pancreas(1)	12	Acute lymphoblastic leukemia(192;0.000127)					CTGTTCTCCAGCAATGAGACC	0.473													6	75					0	0	1	0	0		A	135427817	A	A	135427817	3	1	214	1	0	0	0	0	1	0	0	0	6644	971	34	2	1962	2	GPR112	23	135427817	Missense_Mutation	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	3664869	135427817	19842743	762	107180											
PLXNB3	5365	broad.mit.edu	37	chrX	153039391	153039391	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gtaccagacagagcccacccGcagcgggtcttcttcaccct	8	7	9	17	2	3	2	1	0	2	2	3	2	3	2	4	1	3	2	4	1	1	3	rs149200734		TCGA-HU-A4H4-01A-21D-A25D-08	TCGA-HU-A4H4-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	547ef3c8-0c69-47cb-831e-6345a197bc7e	be800cd2-7e29-43cd-942a-d62c1297a71d	g.chrX:153039391G>A	uc004fii.2	+	20	3531	c.3357G>A	c.(3355-3357)CCG>CCA	p.P1119P	PLXNB3_uc010nuk.2_Silent_p.P1142P|PLXNB3_uc011mzd.1_Silent_p.P758P|PLXNB3_uc004fij.1_5'Flank|SRPK3_uc004fik.2_5'Flank	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3 isoform 1	1119	IPT/TIG 3.|Extracellular (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	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)					GAGCCCACCCGCAGCGGGTCT	0.667													7	105					0	0	1	0	0		A	153039391	A	A	153039391	2	1	214	1	0	0	0	0	0	0	0	1	12144	1074	38	1		1	PLXNB3	23	153039391	Silent	SNP	G	TCGA-HU-A4H4-01A-21D-A25D-08	17611574	153039391	2231169	763	107181											
NOC2L	26155	broad.mit.edu	37	chr1	883896	883896	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cgccttctcctgcaggttgaCattggacagcttcaggatca	8	11	10	12	1	3	1	2	1	1	0	4	3	3	3	2	3	2	3	2	3	0	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:883896C>T	uc001abz.3	-	13	1590	c.1531G>A	c.(1531-1533)GTC>ATC	p.V511I	NOC2L_uc001aby.3_Missense_Mutation_p.V308I|NOC2L_uc009vjq.2_Missense_Mutation_p.V511I	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	511						nucleolus	protein binding			ovary(1)|skin(1)	2	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00459)|Epithelial(90;1.86e-38)|OV - Ovarian serous cystadenocarcinoma(86;6.08e-23)|Colorectal(212;0.000161)|COAD - Colon adenocarcinoma(227;0.000194)|BRCA - Breast invasive adenocarcinoma(365;0.000475)|Kidney(185;0.00231)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0344)|Lung(427;0.2)		TGCAGGTTGACATTGGACAGC	0.632													18	30					0	0	0.008871	0	0		T	883896	T	T	883896	3	4	215	1	0	0	0	0	1	0	0	0	10532	478	17	4	746	4	NOC2L	1	883896	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		883896	248366725	1	107182											
LOC649330	649330	broad.mit.edu	37	chr1	12907401	12907401	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagtgggtccccctcctcagCagagtcttctgcacccccct	5	9	8	19	0	3	1	1	0	2	1	5	1	5	1	6	1	2	2	6	1	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:12907401C>A	uc009vno.2	-	1	837	c.742G>T	c.(742-744)GTT>TTT	p.V248F	HNRNPCL1_uc010obf.1_Missense_Mutation_p.A248S	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	248							nucleic acid binding|nucleotide binding				0						CCCTCCTCAGCAGAGTCTTCT	0.493													23	96					9.57634e-11	1.06233e-10	0.00333	1	0		A	12907401	A	A	12907401	3	1	215	1	0	0	0	0	1	0	0	0	8903	710	25	5	143	5	LOC649330	1	12907401	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	12023505	12907401	236343220	2	107183											
SPEN	23013	broad.mit.edu	37	chr1	16261743	16261743	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagtcaaccatgtcccctCggggcccagcatcccagcag	10	5	10	16	1	1	1	1	0	0	1	4	1	3	1	5	2	3	2	5	2	2	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:16261743C>T	uc001axk.1	+	11	9212	c.9008C>T	c.(9007-9009)TCG>TTG	p.S3003L	SPEN_uc010obp.1_Missense_Mutation_p.S2962L	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3003					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		CATGTCCCCTCGGGGCCCAGC	0.607													32	46					0	0	0.010818	0	0		T	16261743	T	T	16261743	3	4	215	1	0	0	0	0	1	0	0	0	15063	893	31	1	9050	1	SPEN	1	16261743	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	3354342	16261743	232988878	3	107184											
UBR4	23352	broad.mit.edu	37	chr1	19436703	19436703	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cttaatgttcacagccatgaGgaaaaggctgagagctaggg	13	8	13	7	0	1	2	1	2	0	1	1	4	1	3	1	3	2	3	1	3	4	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:19436703G>A	uc001bbi.2	-	81	11996	c.11992C>T	c.(11992-11994)CTC>TTC	p.L3998F		NM_020765	NP_065816	Q5T4S7	UBR4_HUMAN	retinoblastoma-associated factor 600	3998					interspecies interaction between organisms	cytoplasm|cytoskeleton|integral to membrane|nucleus	calmodulin binding|ubiquitin-protein ligase activity|zinc ion binding			kidney(10)|ovary(7)|breast(4)|pancreas(2)|skin(2)	25		Colorectal(325;3.46e-05)|Renal(390;0.000147)|all_lung(284;0.000328)|Lung NSC(340;0.000406)|Breast(348;0.000814)|Ovarian(437;0.00774)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00674)|BRCA - Breast invasive adenocarcinoma(304;5.43e-05)|Kidney(64;0.000337)|KIRC - Kidney renal clear cell carcinoma(64;0.00426)|STAD - Stomach adenocarcinoma(196;0.00715)|READ - Rectum adenocarcinoma(331;0.0816)		ACAGCCATGAGGAAAAGGCTG	0.507													15	38					0	0	0.004007	0	0		A	19436703	A	A	19436703	3	1	215	1	0	0	0	0	1	0	0	0	16930	1000	35	4	3663	4	UBR4	1	19436703	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	3174960	19436703	229813918	4	107185											
PINK1	65018	broad.mit.edu	37	chr1	20975025	20975025	+	Missense_Mutation	SNP	A	G	G	1	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	cccctggctggtgatcgcagAttttggctgctgcctggctg	3	12	14	12	1	0	2	0	1	0	1	1	2	0	2	3	4	2	5	3	4	0	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:20975025A>G	uc001bdm.2	+	6	1245	c.1151A>G	c.(1150-1152)GAT>GGT	p.D384G	PINK1_uc001bdn.2_Missense_Mutation_p.D77G	NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	384	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|COAD - Colon adenocarcinoma(152;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GTGATCGCAGATTTTGGCTGC	0.607													19	35					0	0	0.008871	0	0		G	20975025	G	G	20975025	3	3	215	1	0	0	0	0	1	0	0	0	11951	333	12	3	1173	3	PINK1	1	20975025	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	1538322	20975025	228275596	5	107186											
ALPL	249	broad.mit.edu	37	chr1	21904089	21904089	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcggcaggcagccttgctgCaggccccctgctgctcgcgc	3	7	13	18	3	0	0	0	0	0	0	2	0	0	0	3	3	5	6	3	3	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:21904089C>A	uc001bet.2	+	12	1780	c.1523C>A	c.(1522-1524)GCA>GAA	p.A508E	ALPL_uc010odn.1_Missense_Mutation_p.A456E|ALPL_uc010odo.1_Missense_Mutation_p.A453E|ALPL_uc010odp.1_Missense_Mutation_p.A431E|ALPL_uc001beu.3_Missense_Mutation_p.A508E	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	508					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	AGCCTTGCTGCAGGCCCCCTG	0.682													5	16					0.00116845	0.00120693	0.001168	1	0		A	21904089	A	A	21904089	3	1	215	1	0	0	0	0	1	0	0	0	547	710	25	5	1565	5	ALPL	1	21904089	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	929064	21904089	227346532	6	107187											
EPHA8	2046	broad.mit.edu	37	chr1	22903206	22903206	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccttctcggaggcagtgaCgggggccgactcgtcctcac	5	8	14	14	4	2	1	1	1	1	0	5	3	3	2	3	4	1	1	3	4	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:22903206C>T	uc001bfx.1	+	3	781	c.656C>T	c.(655-657)ACG>ATG	p.T219M	EPHA8_uc001bfw.2_Missense_Mutation_p.T219M	NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	219	Extracellular (Potential).|Cys-rich.					integral to plasma membrane	ATP binding|ephrin receptor activity	p.T219T(1)		central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GAGGCAGTGACGGGGGCCGAC	0.637													15	28					0	0	0.00245	0	0		T	22903206	T	T	22903206	3	4	215	1	0	0	0	0	1	0	0	0	5181	536	19	1	666	1	EPHA8	1	22903206	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	999117	22903206	226347415	7	107188											
MYOM3	127294	broad.mit.edu	37	chr1	24409198	24409198	+	Silent	SNP	T	C	C	0	1	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	cccgtcctcagcccgggaacTgtaaacctgggagagaaatg	11	6	12	12	2	1	1	1	0	0	1	2	4	2	3	4	2	3	1	4	2	4	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:24409198T>C	uc001bin.3	-	17	2140	c.1977A>G	c.(1975-1977)ACA>ACG	p.T659T	MYOM3_uc001bim.3_Silent_p.T316T|MYOM3_uc001bio.2_Silent_p.T659T|MYOM3_uc001bip.1_3'UTR	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	659	Fibronectin type-III 3.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GCCCGGGAACTGTAAACCTGG	0.542													14	25					0	0	0.00499	0	0		C	24409198	C	C	24409198	2	2	215	1	0	0	0	0	0	0	0	1	10111	1567	55	3		3	MYOM3	1	24409198	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	1505992	24409198	224841423	8	107189											
MYOM3	127294	broad.mit.edu	37	chr1	24433597	24433597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tcttccagtcccgcctctggCgcagcagccggtgggtctgc	3	9	13	16	3	3	0	0	0	3	0	5	0	5	0	4	3	3	2	4	3	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:24433597C>T	uc001bin.3	-	4	531	c.368G>A	c.(367-369)CGC>CAC	p.R123H	MYOM3_uc001bio.2_Missense_Mutation_p.R123H|MYOM3_uc001bip.1_5'UTR	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	123	Potential.									skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		CCGCCTCTGGCGCAGCAGCCG	0.687													6	12					0	0	0.001168	0	0		T	24433597	T	T	24433597	3	4	215	1	0	0	0	0	1	0	0	0	10111	768	27	1	4081	1	MYOM3	1	24433597	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	24399	24433597	224817024	9	107190											
CSMD2	114784	broad.mit.edu	37	chr1	34052731	34052731	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gtgacgacttcggcgttgggGaggatggtgggaggagggca	7	7	22	5	3	0	1	0	1	0	0	1	6	0	5	0	8	0	2	0	8	0	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:34052731G>T	uc001bxn.1	-	46	6929	c.6900C>A	c.(6898-6900)CTC>CTA	p.L2300L	CSMD2_uc001bxm.1_Silent_p.L2298L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2300	Sushi 13.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CGGCGTTGGGGAGGATGGTGG	0.502													3	11					4.096e-09	4.45779e-09	0.001168	1	0		T	34052731	T	T	34052731	2	4	215	1	0	0	0	0	0	0	0	1	3948	1161	41	5		5	CSMD2	1	34052731	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	9619134	34052731	215197890	10	107191											
BMP8B	656	broad.mit.edu	37	chr1	40230409	40230409	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggactcggactggccctgaAgaaagtgaccacgaaaggct	12	5	14	10	2	0	3	0	2	0	1	1	6	0	5	2	4	0	1	2	4	3	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:40230409A>G	uc001cdz.1	-	4	1130	c.754T>C	c.(754-756)TTC>CTC	p.F252L	BMP8B_uc001cea.1_Intron	NM_001720	NP_001711	P34820	BMP8B_HUMAN	bone morphogenetic protein 8B preproprotein	252					cartilage development|cell differentiation|growth|ossification	extracellular space	cytokine activity|growth factor activity				0	all_cancers(7;5.56e-14)|all_lung(5;3.88e-17)|all_epithelial(6;3.78e-16)|Lung NSC(20;7.03e-07)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;1.92e-17)|all cancers(16;4.03e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			CTGGCCCTGAAGAAAGTGACC	0.647													32	83					0	0	0.01441	0	0		G	40230409	G	G	40230409	3	3	215	1	0	0	0	0	1	0	0	0	1468	72	3	3	470	3	BMP8B	1	40230409	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	6177678	40230409	209020212	11	107192											
RAVER2	55225	broad.mit.edu	37	chr1	65247062	65247062	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taatagaatgtattgtatcaGcttgcacaggatgaaggtag	14	12	11	4	0	1	2	1	1	0	1	1	3	1	3	0	2	2	5	0	2	7	7			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:65247062G>C	uc001dbs.1	+	4	865	c.787_splice	c.e4-1	p.L263_splice	RAVER2_uc001dbt.1_Splice_Site_p.L142_splice|RAVER2_uc010opb.1_Splice_Site_p.L142_splice	NM_018211	NP_060681	Q9HCJ3	RAVR2_HUMAN	ribonucleoprotein, PTB-binding 2							cytoplasm|nucleus	nucleotide binding|RNA binding			large_intestine(1)	1						TATTGTATCAGCTTGCACAGG	0.398													36	60					0	0	0.00623	0	0		C	65247062	C	C	65247062	5	2	215	1	0	0	0	0	0	0	1	0	13120	985	34	5	800	5	RAVER2	1	65247062	Splice_Site	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	25016653	65247062	184003559	12	107193											
DIRAS3	9077	broad.mit.edu	37	chr1	68512430	68512430	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gctcctgcacattcacatcgGtcttggctgaaatctccatg	8	12	8	13	1	3	1	1	1	2	0	6	1	4	1	2	2	1	3	2	2	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:68512430G>C	uc001ded.2	-	2	846	c.551C>G	c.(550-552)ACC>AGC	p.T184S	uc001deb.1_Intron|uc001dec.1_Intron	NM_004675	NP_004666	O95661	DIRA3_HUMAN	DIRAS family, GTP-binding RAS-like 3	184					regulation of cyclin-dependent protein kinase activity|regulation of gene expression by genetic imprinting|small GTPase mediated signal transduction	plasma membrane	GTP binding|GTPase activity			skin(1)	1						ATTCACATCGGTCTTGGCTGA	0.542													59	63					0	0	0.01441	0	0		C	68512430	C	C	68512430	3	2	215	1	0	0	0	0	1	0	0	0	4538	1261	44	5	142	5	DIRAS3	1	68512430	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	3265368	68512430	180738191	13	107194											
WLS	79971	broad.mit.edu	37	chr1	68616029	68616029	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggtcatggaaatcccaagggCaaagatgactctgatggtga	13	8	13	7	0	2	4	1	3	1	1	3	5	3	5	1	4	0	1	1	4	3	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:68616029C>T	uc001def.1	-	6	1085	c.814G>A	c.(814-816)GCC>ACC	p.A272T	uc001deb.1_Intron|uc001dec.1_Intron|WLS_uc001dee.2_Missense_Mutation_p.A270T|WLS_uc001deg.1_Missense_Mutation_p.A181T|WLS_uc009wbf.1_Missense_Mutation_p.A227T	NM_024911	NP_079187	Q5T9L3	WLS_HUMAN	G protein-coupled receptor 177 isoform 1	272	Helical; Name=2; (Potential).				multicellular organismal development|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Wnt receptor signaling pathway	cytoplasmic vesicle membrane|Golgi membrane|integral to membrane	signal transducer activity				0						ATCCCAAGGGCAAAGATGACT	0.448													27	80					0	0	0.008361	0	0		T	68616029	T	T	68616029	3	4	215	1	0	0	0	0	1	0	0	0	17402	710	25	2	965	2	WLS	1	68616029	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	103599	68616029	180634592	14	107195											
DBT	1629	broad.mit.edu	37	chr1	100684199	100684199	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tacattgttttccattgccaGacggcgaactgcaggagttg	9	12	11	9	2	0	1	0	0	0	1	1	3	1	2	2	2	4	3	2	2	2	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:100684199G>A	uc001dta.2	-	5	571	c.538C>T	c.(538-540)CTG>TTG	p.L180L	DBT_uc010oug.1_5'UTR	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	180					branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		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)		TCCATTGCCAGACGGCGAACT	0.393													32	84					0	0	0.003271	0	0		A	100684199	A	A	100684199	2	1	215	1	0	0	0	0	0	0	0	1	4261	933	33	4		4	DBT	1	100684199	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	32068170	100684199	148566422	15	107196											
SLC16A1	6566	broad.mit.edu	37	chr1	113456781	113456781	+	Missense_Mutation	SNP	A	T	T	1	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	agtctccatacatgtcattgAgccgacctaaatatgtaaaa	15	11	6	9	1	2	1	1	1	1	0	3	2	2	1	3	0	2	1	3	0	6	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:113456781A>T	uc001ecx.2	-	5	2067	c.1235T>A	c.(1234-1236)CTC>CAC	p.L412H	SLC16A1_uc001ecy.2_Missense_Mutation_p.L412H	NM_003051	NP_003042	P53985	MOT1_HUMAN	solute carrier family 16, member 1	412	Extracellular (Potential).				blood coagulation|leukocyte migration|organic anion transport|pyruvate metabolic process	integral to membrane|membrane fraction|plasma membrane	mevalonate transmembrane transporter activity|protein binding|secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	Lung SC(450;0.246)	all_cancers(81;7.6e-08)|all_epithelial(167;3.82e-07)|all_lung(203;3.07e-05)|Lung NSC(69;5.51e-05)|Prostate(1639;0.00232)		Epithelial(280;7.31e-13)|all cancers(265;5.1e-10)|Kidney(133;5.29e-07)|KIRC - Kidney renal clear cell carcinoma(1967;8.63e-06)|OV - Ovarian serous cystadenocarcinoma(397;1.48e-05)|BRCA - Breast invasive adenocarcinoma(282;0.003)|LUSC - Lung squamous cell carcinoma(189;0.008)|Lung(183;0.00948)|Colorectal(144;0.0325)|COAD - Colon adenocarcinoma(174;0.0643)	Pyruvic acid(DB00119)	CATGTCATTGAGCCGACCTAA	0.378													10	49					0	0	0.006214	0	0		T	113456781	T	T	113456781	3	4	215	1	0	0	0	0	1	0	0	0	14427	304	11	5	271	5	SLC16A1	1	113456781	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	12772582	113456781	135793840	16	107197											
DENND2C	163259	broad.mit.edu	37	chr1	115130457	115130457	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gtgggacttacggaatggttCcctttggaaaacacgctccc	9	10	11	11	2	0	0	0	0	0	0	2	3	2	3	2	4	2	2	2	4	4	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:115130457C>A	uc001efd.1	-	19	3250	c.2548G>T	c.(2548-2550)GAA>TAA	p.E850*	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Nonsense_Mutation_p.E793*	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	850	dDENN.									skin(3)	3	all_epithelial(7;9.54e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CGGAATGGTTCCCTTTGGAAA	0.488													13	39					3.27435e-08	3.53016e-08	0.00245	1	0		A	115130457	A	A	115130457	4	1	215	1	0	0	0	0	0	1	0	0	4436	864	30	5	250	5	DENND2C	1	115130457	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1673676	115130457	134120164	17	107198											
NOTCH2	4853	broad.mit.edu	37	chr1	120480053	120480053	+	Missense_Mutation	SNP	A	C	C	1	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	tgttgccagcattgatgcagAcacctgagtgctggcacaag	10	9	12	10	0	0	3	0	2	0	1	0	3	0	3	2	1	4	5	2	1	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:120480053A>C	uc001eik.2	-	21	3630	c.3374T>G	c.(3373-3375)GTC>GGC	p.V1125G	NOTCH2_uc001eil.2_Missense_Mutation_p.V1125G	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	1125	EGF-like 29.|Extracellular (Potential).				anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ATTGATGCAGACACCTGAGTG	0.522			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				19	27					0	0	0.007413	0	0		C	120480053	C	C	120480053	3	2	215	1	0	0	0	0	1	0	0	0	10567	275	10	5	4097	5	NOTCH2	1	120480053	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	5349596	120480053	128770568	18	107199											
PDE4DIP	9659	broad.mit.edu	37	chr1	144882804	144882804	+	Missense_Mutation	SNP	T	A	A	0	1	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	tctccttgtcttcctcgatcTcccatccatcagacattgct	6	15	4	16	1	4	1	1	0	3	1	9	2	6	1	4	0	1	1	4	0	0	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:144882804T>A	uc001elw.3	-	24	3506	c.3215A>T	c.(3214-3216)GAG>GTG	p.E1072V	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.E1138V|PDE4DIP_uc001elv.3_Missense_Mutation_p.E79V	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	1072					cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		TTCCTCGATCTCCCATCCATC	0.502			T	PDGFRB	MPD								54	455					0	0	0.01441	0	0		A	144882804	A	A	144882804	3	1	215	1	0	0	0	0	1	0	0	0	11662	1551	54	5	3909	5	PDE4DIP	1	144882804	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	24402751	144882804	104367817	19	107200											
POGZ	23126	broad.mit.edu	37	chr1	151378394	151378394	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttacaggtagctgttgttcGcgctgggttagcacccactc	6	13	11	11	2	0	0	0	0	0	0	2	0	0	0	1	2	3	7	1	2	3	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:151378394G>A	uc001eyd.1	-	19	3423	c.3117C>T	c.(3115-3117)CGC>CGT	p.R1039R	POGZ_uc001eye.1_Silent_p.R986R|POGZ_uc010pdb.1_Silent_p.R1030R|POGZ_uc001eyf.1_Silent_p.R995R|POGZ_uc010pdc.1_Silent_p.R977R|POGZ_uc009wmv.1_Silent_p.R944R|POGZ_uc010pdd.1_Silent_p.R530R	NM_015100	NP_055915	Q7Z3K3	POGZ_HUMAN	pogo transposable element with ZNF domain	1039	HTH CENPB-type.				cell division|kinetochore assembly|mitotic sister chromatid cohesion|regulation of transcription, DNA-dependent	cytoplasm|nuclear chromatin	DNA binding|protein binding|zinc ion binding			ovary(3)	3	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)			GCTGTTGTTCGCGCTGGGTTA	0.522													19	160					0	0	0.007413	0	0		A	151378394	A	A	151378394	2	1	215	1	0	0	0	0	0	0	0	1	12205	1074	38	1		1	POGZ	1	151378394	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	6495590	151378394	97872227	20	107201											
TDRD10	126668	broad.mit.edu	37	chr1	154479756	154479756	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccccaactctctgataaactGtttgggaagaatggagtgtt	11	12	10	8	0	1	2	0	1	1	1	2	4	1	4	2	2	2	2	2	2	5	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:154479756G>C	uc009wow.2	+	3	880	c.42G>C	c.(40-42)CTG>CTC	p.L14L	TDRD10_uc001ffd.2_Silent_p.L14L	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	14							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)			CTGATAAACTGTTTGGGAAGA	0.502													11	46					0	0	0.010729	0	0		C	154479756	C	C	154479756	2	2	215	1	0	0	0	0	0	0	0	1	15756	1364	48	5		5	TDRD10	1	154479756	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	3101362	154479756	94770865	21	107202											
IFI16	3428	broad.mit.edu	37	chr1	158984584	158984584	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gatttaaaacttaatttaaaAatgagagaagagtatgacaa	21	11	7	2	0	0	4	0	2	0	2	0	6	0	4	0	0	1	1	0	0	9	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:158984584A>T	uc001ftf.1	+	3	721	c.114A>T	c.(112-114)AAA>AAT	p.K38N	IFI16_uc001ftg.2_Missense_Mutation_p.K38N|IFI16_uc010pis.1_Missense_Mutation_p.K38N	NM_005531	NP_005522	Q16666	IF16_HUMAN	interferon, gamma-inducible protein 16	38	DAPIN.|Lys-rich.				cell proliferation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|monocyte differentiation|negative regulation of transcription, DNA-dependent|response to virus|transcription, DNA-dependent	cytoplasm|nuclear speck|nucleolus	double-stranded DNA binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)					TTAATTTAAAAATGAGAGAAG	0.318													14	91					0	0	0.003163	0	0		T	158984584	T	T	158984584	3	4	215	1	0	0	0	0	1	0	0	0	7527	11	1	5	116	5	IFI16	1	158984584	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	4504828	158984584	90266037	22	107203											
RC3H1	149041	broad.mit.edu	37	chr1	173915728	173915728	+	Silent	SNP	T	C	C	0	1	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	tttccatgactggccacttcTgacatagatattctctccct	8	15	5	13	0	2	3	0	2	2	1	5	3	4	3	3	1	0	0	3	1	2	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:173915728T>C	uc001gju.3	-	16	2934	c.2847A>G	c.(2845-2847)TCA>TCG	p.S949S	RC3H1_uc010pms.1_Silent_p.S949S|RC3H1_uc001gjv.2_Silent_p.S949S|RC3H1_uc010pmt.1_Silent_p.S949S	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	949					cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TGGCCACTTCTGACATAGATA	0.388													39	73					0	0	0.011902	0	0		C	173915728	C	C	173915728	2	2	215	1	0	0	0	0	0	0	0	1	13191	1567	55	3		3	RC3H1	1	173915728	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	14931144	173915728	75334893	23	107204											
RFWD2	64326	broad.mit.edu	37	chr1	176118177	176118177	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcttgcaaccttgaggaattCcataagaatctgtagttggg	11	13	10	7	0	2	2	0	1	2	1	3	3	3	3	2	2	2	3	2	2	5	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:176118177C>A	uc001gku.1	-	6	1052	c.796G>T	c.(796-798)GAA>TAA	p.E266*	RFWD2_uc001gkv.1_Nonsense_Mutation_p.E262*|RFWD2_uc001gkw.1_Nonsense_Mutation_p.E26*|RFWD2_uc009wwv.2_Nonsense_Mutation_p.E26*|RFWD2_uc001gkt.1_Nonsense_Mutation_p.E125*	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	266	Potential.				DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TTGAGGAATTCCATAAGAATC	0.269													51	32					2.44813e-32	2.96353e-32	0.01441	1	0		A	176118177	A	A	176118177	4	1	215	1	0	0	0	0	0	1	0	0	13285	864	30	5	1459	5	RFWD2	1	176118177	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	2202449	176118177	73132444	24	107205											
FAM5B	57795	broad.mit.edu	37	chr1	177250236	177250236	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaagactttctttgagacaGttcatgtttacctacggagc	10	13	10	8	1	2	2	1	1	1	2	2	5	2	4	1	2	3	2	1	2	3	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:177250236G>C	uc001glf.2	+	8	2236	c.1924G>C	c.(1924-1926)GTT>CTT	p.V642L	FAM5B_uc001glg.2_Missense_Mutation_p.V537L	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	642						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CTTTGAGACAGTTCATGTTTA	0.483													52	39					0	0	0.01441	0	0		C	177250236	C	C	177250236	3	2	215	1	0	0	0	0	1	0	0	0	5607	1029	36	5	1950	5	FAM5B	1	177250236	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1132059	177250236	72000385	25	107206											
CFH	3075	broad.mit.edu	37	chr1	196659341	196659341	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	acatgtatggagaatggctgGtctcctactcccagatgcat	10	11	10	10	0	1	2	0	0	1	2	3	3	2	2	2	3	2	3	2	3	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:196659341G>C	uc001gtj.3	+	9	1548	c.1308G>C	c.(1306-1308)TGG>TGC	p.W436C	CFH_uc001gti.3_Missense_Mutation_p.W436C|CFH_uc009wyw.2_Missense_Mutation_p.W411C|CFH_uc009wyx.2_Missense_Mutation_p.W372C	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	436	Sushi 7.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						AGAATGGCTGGTCTCCTACTC	0.438													13	23					0	0	0.004007	0	0		C	196659341	C	C	196659341	3	2	215	1	0	0	0	0	1	0	0	0	3286	1270	44	5	1342	5	CFH	1	196659341	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	19409105	196659341	52591280	26	107207											
NFASC	23114	broad.mit.edu	37	chr1	204945883	204945883	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acgtgtgtcgccagcaccgaGctagaccaagacctggccaa	11	5	11	14	3	0	2	0	0	0	2	1	3	0	2	5	1	2	2	5	1	3	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:204945883G>C	uc001hbj.2	+	16	2119	c.1791G>C	c.(1789-1791)GAG>GAC	p.E597D	NFASC_uc001hbh.2_Missense_Mutation_p.E597D|NFASC_uc010pqz.1_Missense_Mutation_p.E591D|NFASC_uc010pra.1_Missense_Mutation_p.E608D|NFASC_uc001hbi.2_Missense_Mutation_p.E608D|NFASC_uc010prb.1_Missense_Mutation_p.E608D|NFASC_uc010prc.1_Missense_Mutation_p.E164D|NFASC_uc001hbk.1_Missense_Mutation_p.E418D	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	597	Extracellular (Potential).|Ig-like C2-type 6.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	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)			CCAGCACCGAGCTAGACCAAG	0.617													43	104					0	0	0.011902	0	0		C	204945883	C	C	204945883	3	2	215	1	0	0	0	0	1	0	0	0	10378	962	34	5	1900	5	NFASC	1	204945883	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	8286542	204945883	44304738	27	107208											
LYPLAL1	127018	broad.mit.edu	37	chr1	219366473	219366473	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccaatgtatggtttgacagaTttaaaataaccaatgactgc	15	12	7	7	0	0	3	0	2	0	1	0	3	0	3	2	1	2	2	2	1	6	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:219366473T>C	uc001hlq.3	+	3	282	c.241T>C	c.(241-243)TTT>CTT	p.F81L	LYPLAL1_uc001hlr.3_Missense_Mutation_p.F65L|LYPLAL1_uc001hls.3_Intron|LYPLAL1_uc001hlt.3_Intron|LYPLAL1_uc009xds.2_Intron	NM_138794	NP_620149	Q5VWZ2	LYPL1_HUMAN	lysophospholipase-like 1	81						cytoplasm	lysophospholipase activity				0				GBM - Glioblastoma multiforme(131;0.055)|all cancers(67;0.105)|OV - Ovarian serous cystadenocarcinoma(81;0.116)		GTTTGACAGATTTAAAATAAC	0.373													13	43					0	0	0.00245	0	0		C	219366473	C	C	219366473	3	2	215	1	0	0	0	0	1	0	0	0	9136	1493	52	3	251	3	LYPLAL1	1	219366473	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	14420590	219366473	29884148	28	107209											
GUK1	2987	broad.mit.edu	37	chr1	228333735	228333735	+	Missense_Mutation	SNP	A	G	G	1	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	tctctctgctagataccacgAggaacccgaggcccggcgag	9	6	12	14	4	2	1	0	0	2	1	3	5	2	2	3	3	3	1	3	3	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:228333735A>G	uc001hsh.2	+	4	424	c.121A>G	c.(121-123)AGG>GGG	p.R41G	GUK1_uc001hsi.2_Missense_Mutation_p.R62G|GUK1_uc001hsj.2_5'UTR|GUK1_uc010pvv.1_Missense_Mutation_p.R41G	NM_000858	NP_000849	Q16774	KGUA_HUMAN	guanylate kinase 1 isoform b	41	Guanylate kinase-like.				nucleobase, nucleoside and nucleotide interconversion|purine nucleotide metabolic process	cytosol	ATP binding|guanylate kinase activity				0		Prostate(94;0.0405)				AGATACCACGAGGAACCCGAG	0.672													35	45					0	0	0.005524	0	0		G	228333735	G	G	228333735	3	3	215	1	0	0	0	0	1	0	0	0	6916	295	11	3	194	3	GUK1	1	228333735	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	8967262	228333735	20916886	29	107210											
TAF5L	27097	broad.mit.edu	37	chr1	229730770	229730770	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gagctgtccgcgaggaacctCgtgctgtacactggtccgca	7	8	13	13	4	0	0	0	0	0	0	3	3	2	1	3	2	4	4	3	2	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:229730770C>G	uc001htq.2	-	5	1210	c.1044G>C	c.(1042-1044)ACG>ACC	p.T348T		NM_014409	NP_055224	O75529	TAF5L_HUMAN	PCAF associated factor 65 beta isoform a	348	WD 2.				histone H3 acetylation|transcription from RNA polymerase II promoter	STAGA complex|transcription factor TFTC complex	sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)	1	Breast(184;0.193)|Ovarian(103;0.249)	Prostate(94;0.167)				CGAGGAACCTCGTGCTGTACA	0.542													36	70					0	0	0.00623	0	0		G	229730770	G	G	229730770	2	3	215	1	0	0	0	0	0	0	0	1	15554	871	31	5		5	TAF5L	1	229730770	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1397035	229730770	19519851	30	107211											
RBM34	23029	broad.mit.edu	37	chr1	235324532	235324532	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cttccgtttgctcatcccttCcaaggccattcttactccaa	7	14	4	16	1	2	0	1	0	1	0	6	0	6	0	5	1	2	2	5	1	3	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:235324532C>G	uc001hwn.2	-	1	40	c.10G>C	c.(10-12)GAA>CAA	p.E4Q	RBM34_uc001hwo.2_RNA|ARID4B_uc001hwp.2_RNA|RBM34_uc010pxp.1_Missense_Mutation_p.E4Q	NM_015014	NP_055829	P42696	RBM34_HUMAN	RNA binding motif protein 34 isoform 1	4						nucleolus	nucleotide binding|RNA binding			central_nervous_system(1)	1	Ovarian(103;0.0398)	all_cancers(173;0.177)|Prostate(94;0.0166)	OV - Ovarian serous cystadenocarcinoma(106;5.43e-05)|Epithelial(3;0.000121)			CTCATCCCTTCCAAGGCCATT	0.627													20	126					0	0	0.008871	0	0		G	235324532	G	G	235324532	3	3	215	1	0	0	0	0	1	0	0	0	13156	864	30	5	1347	5	RBM34	1	235324532	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	5593762	235324532	13926089	31	107212											
ARID4B	51742	broad.mit.edu	37	chr1	235377164	235377164	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tctttaatactagcttcataCattttttgatttttccctcg	8	21	3	9	1	2	1	1	1	1	0	4	1	3	1	1	0	3	1	1	0	4	11			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:235377164C>A	uc001hwq.2	-	17	2259	c.1761G>T	c.(1759-1761)ATG>ATT	p.M587I	ARID4B_uc001hwr.2_Intron|ARID4B_uc001hws.3_Intron|ARID4B_uc001hwt.3_Missense_Mutation_p.M268I	NM_016374	NP_057458	Q4LE39	ARI4B_HUMAN	AT rich interactive domain 4B isoform 1	587					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|protein binding			ovary(2)|lung(1)	3	Ovarian(103;0.0473)|Breast(184;0.23)	all_cancers(173;0.000782)|Prostate(94;0.0132)|all_epithelial(177;0.0808)|Lung SC(1967;0.24)	OV - Ovarian serous cystadenocarcinoma(106;2.86e-05)			TAGCTTCATACATTTTTTGAT	0.398													76	84					4.38691e-48	5.4053e-48	0.01441	1	0		A	235377164	A	A	235377164	3	1	215	1	0	0	0	0	1	0	0	0	920	478	17	5	2209	5	ARID4B	1	235377164	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	52632	235377164	13873457	32	107213											
LYST	1130	broad.mit.edu	37	chr1	235866229	235866229	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tatcatggtttctagcgctcGtctctgaactggatcttcaa	8	15	8	10	2	5	1	2	1	3	0	7	2	5	2	0	2	2	2	0	2	4	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:235866229G>A	uc001hxj.2	-	45	10367	c.10192C>T	c.(10192-10194)CGA>TGA	p.R3398*	LYST_uc001hxi.2_Nonsense_Mutation_p.R622*	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3398	BEACH.				defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TCTAGCGCTCGTCTCTGAACT	0.453									Chediak-Higashi_syndrome				52	153					0	0	0.01441	0	0		A	235866229	A	A	235866229	4	1	215	1	0	0	0	0	0	1	0	0	9146	1153	40	1	1249	1	LYST	1	235866229	Nonsense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	489065	235866229	13384392	33	107214											
CEP170	9859	broad.mit.edu	37	chr1	243289777	243289777	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttgtactgtaacatcttcctCttccccatcggggttgaatc	7	15	7	12	1	2	1	0	1	2	0	6	1	4	1	3	2	2	3	3	2	3	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr1:243289777C>T	uc001hzs.2	-	20	5137	c.4729G>A	c.(4729-4731)GAG>AAG	p.E1577K	CEP170_uc001hzt.2_Missense_Mutation_p.E1453K|CEP170_uc001hzu.2_Missense_Mutation_p.E1479K|CEP170_uc001hzr.2_Missense_Mutation_p.E166K|CEP170_uc001hzv.1_Intron	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	1577	Targeting to microtubules.|Targeting to centrosomes.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			ACATCTTCCTCTTCCCCATCG	0.403													4	13					0	0	0.009096	0	0		T	243289777	T	T	243289777	3	4	215	1	0	0	0	0	1	0	0	0	3253	922	32	4	29	4	CEP170	1	243289777	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	7423548	243289777	5960844	34	107215											
GREB1	9687	broad.mit.edu	37	chr2	11716623	11716623	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ggtccgtaatgcacaagggaCtctaaccaaaggacctttaa	14	8	9	10	1	1	0	0	0	1	0	2	2	2	2	3	3	2	2	3	3	5	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:11716623C>T	uc002rbk.1	+	5	899	c.599C>T	c.(598-600)ACT>ATT	p.T200I	GREB1_uc002rbl.2_Missense_Mutation_p.T200I|GREB1_uc002rbm.2_Missense_Mutation_p.T90I|GREB1_uc002rbn.1_Missense_Mutation_p.T200I	NM_014668	NP_055483	Q4ZG55	GREB1_HUMAN	growth regulation by estrogen in breast cancer 1	200						integral to membrane				ovary(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.115)|OV - Ovarian serous cystadenocarcinoma(76;0.186)		GCACAAGGGACTCTAACCAAA	0.498													28	111					0	0	0.008361	0	0		T	11716623	T	T	11716623	3	4	215	1	0	0	0	0	1	0	0	0	6776	565	20	4	613	4	GREB1	2	11716623	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		11716623	231482750	35	107216											
APOB	338	broad.mit.edu	37	chr2	21234023	21234023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	catttgtatgtgcatcgatgGtcatggtaaacggggccatt	9	13	12	7	2	1	0	1	0	0	0	2	1	1	0	1	4	2	3	1	4	3	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:21234023G>A	uc002red.2	-	26	5845	c.5717C>T	c.(5716-5718)ACC>ATC	p.T1906I		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1906					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGCATCGATGGTCATGGTAAA	0.478													78	48					0	0	0.01441	0	0		A	21234023	A	A	21234023	3	1	215	1	0	0	0	0	1	0	0	0	785	1261	44	4	7990	4	APOB	2	21234023	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	9517400	21234023	221965350	36	107217											
XDH	7498	broad.mit.edu	37	chr2	31593300	31593300	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcatcagcggaaatgaaaCaaacaaaccctggaaccttc	17	6	6	12	1	2	1	2	1	0	0	3	3	2	3	2	2	5	0	2	2	5	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:31593300C>T	uc002rnv.1	-	18	1980	c.1901G>A	c.(1900-1902)TGT>TAT	p.C634Y		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	634					purine nucleotide catabolic process|xanthine catabolic process	cytosol|extracellular region|peroxisome	2 iron, 2 sulfur cluster binding|electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|molybdopterin cofactor binding|protein homodimerization activity|xanthine dehydrogenase activity|xanthine oxidase activity			skin(4)|breast(2)|ovary(1)|central_nervous_system(1)	8	Acute lymphoblastic leukemia(172;0.155)				Allopurinol(DB00437)|Carvedilol(DB01136)|Daunorubicin(DB00694)|Deferoxamine(DB00746)|Desflurane(DB01189)|Menadione(DB00170)|Mercaptopurine(DB01033)|Methotrexate(DB00563)|NADH(DB00157)|Nitrofurazone(DB00336)|Papaverine(DB01113)|Procarbazine(DB01168)|Pyrazinamide(DB00339)|Rasburicase(DB00049)|Spermine(DB00127)|Trifluoperazine(DB00831)|Vitamin E(DB00163)	GGAAATGAAACAAACAAACCC	0.443													10	30					0	0	0.010729	0	0		T	31593300	T	T	31593300	3	4	215	1	0	0	0	0	1	0	0	0	17452	478	17	4	2176	4	XDH	2	31593300	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	10359277	31593300	211606073	37	107218											
TTC27	55622	broad.mit.edu	37	chr2	33002969	33002969	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctcggggtgtggttttctctCggttgtgcctatttggcctt	1	18	13	9	2	1	0	0	0	1	0	4	0	1	0	2	5	1	2	2	5	1	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:33002969C>G	uc002rom.2	+	14	1932	c.1701C>G	c.(1699-1701)CTC>CTG	p.L567L	TTC27_uc010ymx.1_Silent_p.L517L|TTC27_uc002ron.2_RNA	NM_017735	NP_060205	Q6P3X3	TTC27_HUMAN	tetratricopeptide repeat domain 27	567	HAT 1.|TPR 4.						protein binding			central_nervous_system(1)	1						GGTTTTCTCTCGGTTGTGCCT	0.403													10	48					0	0	0.013537	0	0		G	33002969	G	G	33002969	2	3	215	1	0	0	0	0	0	0	0	1	16721	871	31	5		5	TTC27	2	33002969	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1409669	33002969	210196404	38	107219											
USP34	9736	broad.mit.edu	37	chr2	61483553	61483553	+	Missense_Mutation	SNP	A	C	C	1	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	tactttcttcccacaatgagAacaagtatacatgttatcac	14	13	4	10	0	2	1	1	1	1	1	3	2	3	1	1	0	3	2	1	0	7	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:61483553A>C	uc002sbe.2	-	48	6209	c.6187T>G	c.(6187-6189)TCT>GCT	p.S2063A	USP34_uc002sbf.2_Missense_Mutation_p.S213A	NM_014709	NP_055524	Q70CQ2	UBP34_HUMAN	ubiquitin specific protease 34	2063					positive regulation of canonical Wnt receptor signaling pathway|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway		cysteine-type endopeptidase activity|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(8)|breast(5)|skin(3)|lung(2)|prostate(1)	19			Epithelial(17;0.229)			CCACAATGAGAACAAGTATAC	0.308													19	19					0	0	0.012319	0	0		C	61483553	C	C	61483553	3	2	215	1	0	0	0	0	1	0	0	0	17091	246	9	5	4585	5	USP34	2	61483553	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	28480584	61483553	181715820	39	107220											
IMMT	10989	broad.mit.edu	37	chr2	86371621	86371621	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tttaaatgtgtttatatcctCagggcagagctctgggggcg	8	13	13	7	1	2	1	1	0	1	1	3	1	3	1	1	3	1	3	1	3	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:86371621C>G	uc002sqz.3	-	15	2435	c.2047G>C	c.(2047-2049)GAG>CAG	p.E683Q	IMMT_uc002sqy.3_Missense_Mutation_p.E424Q|IMMT_uc002srb.3_Missense_Mutation_p.E672Q|IMMT_uc002sra.3_Missense_Mutation_p.E682Q|IMMT_uc010ytd.1_Missense_Mutation_p.E671Q|IMMT_uc010yte.1_Missense_Mutation_p.E636Q	NM_006839	NP_006830	Q16891	IMMT_HUMAN	inner membrane protein, mitochondrial isoform 1	683	Mitochondrial intermembrane (Potential).					integral to mitochondrial inner membrane	protein binding			skin(1)	1						TTTATATCCTCAGGGCAGAGC	0.473													20	47					0	0	0.007413	0	0		G	86371621	G	G	86371621	3	3	215	1	0	0	0	0	1	0	0	0	7734	835	29	5	233	5	IMMT	2	86371621	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	24888068	86371621	156827752	40	107221											
TSGA10	80705	broad.mit.edu	37	chr2	99651877	99651877	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtaaggtagaaatctgggacTtgtaagacctttctgcattt	11	14	10	6	0	2	2	0	0	2	2	2	3	2	3	1	2	1	4	1	2	4	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:99651877T>A	uc002szg.3	-	15	2058	c.1430A>T	c.(1429-1431)AAG>ATG	p.K477M	TSGA10_uc002szh.3_Missense_Mutation_p.K477M|TSGA10_uc002szi.3_Missense_Mutation_p.K477M|TSGA10_uc010fin.1_Missense_Mutation_p.K477M	NM_182911	NP_878915	Q9BZW7	TSG10_HUMAN	testis specific, 10	477					spermatogenesis	cytoplasm|nuclear membrane				ovary(1)|central_nervous_system(1)	2						AATCTGGGACTTGTAAGACCT	0.303													10	47					0	0	0.006214	0	0		A	99651877	A	A	99651877	3	1	215	1	0	0	0	0	1	0	0	0	16643	1609	56	5	686	5	TSGA10	2	99651877	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	13280256	99651877	143547496	41	107222											
EIF5B	9669	broad.mit.edu	37	chr2	99977640	99977640	+	Silent	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aacaatgaagaggaattcacCtcaaaagataaaaaaaagaa	25	5	6	5	0	2	4	2	1	0	3	2	5	2	5	1	1	1	0	1	1	11	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:99977640C>G	uc002tab.2	+	4	460	c.276C>G	c.(274-276)ACC>ACG	p.T92T		NM_015904	NP_056988	O60841	IF2P_HUMAN	eukaryotic translation initiation factor 5B	92				T -> I (in Ref. 1; CAB44357).	regulation of translational initiation	cytosol	GTP binding|GTPase activity|protein binding|translation initiation factor activity			ovary(2)|pancreas(1)	3						AGGAATTCACCTCAAAAGATA	0.294													22	40					0	0	0.00333	0	0		G	99977640	G	G	99977640	2	3	215	1	0	0	0	0	0	0	0	1	5052	668	24	5		5	EIF5B	2	99977640	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	325763	99977640	143221733	42	107223											
RGPD4	285190	broad.mit.edu	37	chr2	108488641	108488641	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttatgataataagcaagttcGtatagtgatgagaagggacc	15	11	11	4	1	0	3	0	3	0	1	1	5	0	4	1	1	1	3	1	1	7	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:108488641G>A	uc010ywk.1	+	20	4263	c.4181G>A	c.(4180-4182)CGT>CAT	p.R1394H	RGPD4_uc002tdu.2_Missense_Mutation_p.R581H|RGPD4_uc010ywl.1_Intron	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1394	RanBD1 2.				intracellular transport		binding			skin(2)	2						AAGCAAGTTCGTATAGTGATG	0.358													39	288					0	0	0.01441	0	0		A	108488641	A	A	108488641	3	1	215	1	0	0	0	0	1	0	0	0	13313	1145	40	1	4259	1	RGPD4	2	108488641	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	8511001	108488641	134710732	43	107224											
CCDC138	165055	broad.mit.edu	37	chr2	109432434	109432434	+	Missense_Mutation	SNP	T	A	A	0	1	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	agtttatgaacttttaactgTcttcatggactggatttcgg	9	17	9	6	1	2	1	1	1	1	0	3	3	2	3	0	3	2	1	0	3	3	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:109432434T>A	uc002ten.1	+	10	1139	c.1079T>A	c.(1078-1080)GTC>GAC	p.V360D	CCDC138_uc002teo.1_Missense_Mutation_p.V360D|CCDC138_uc002tep.1_Missense_Mutation_p.V44D|CCDC138_uc010fjm.1_Missense_Mutation_p.V44D	NM_144978	NP_659415	Q96M89	CC138_HUMAN	coiled-coil domain containing 138	360											0						CTTTTAACTGTCTTCATGGAC	0.333													22	78					0	0	0.003954	0	0		A	109432434	A	A	109432434	3	1	215	1	0	0	0	0	1	0	0	0	2775	1667	58	5	1117	5	CCDC138	2	109432434	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	943793	109432434	133766939	44	107225											
BUB1	699	broad.mit.edu	37	chr2	111408206	111408206	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	catctggtggatcttctgcaAtggcagcgtcagtgtctgtg	6	13	13	9	1	5	0	1	0	4	0	5	1	5	1	0	3	2	2	0	3	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:111408206A>C	uc002tgc.2	-	18	2232	c.2120T>G	c.(2119-2121)ATT>AGT	p.I707S	BUB1_uc010yxh.1_Missense_Mutation_p.I687S|BUB1_uc010fkb.2_Missense_Mutation_p.I707S	NM_004336	NP_004327	O43683	BUB1_HUMAN	budding uninhibited by benzimidazoles 1	707					apoptosis|cell division|chromosome segregation|interspecies interaction between organisms|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|regulation of sister chromatid cohesion	condensed chromosome kinetochore|cytosol	ATP binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(2)|stomach(1)|ovary(1)|kidney(1)	7		Ovarian(717;0.0822)		BRCA - Breast invasive adenocarcinoma(221;0.0556)		ATCTTCTGCAATGGCAGCGTC	0.532													19	28					0	0	0.007413	0	0		C	111408206	C	C	111408206	3	2	215	1	0	0	0	0	1	0	0	0	1573	101	4	5	1169	5	BUB1	2	111408206	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	1975772	111408206	131791167	45	107226											
RBM43	375287	broad.mit.edu	37	chr2	152108058	152108058	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cacggagattcttccattggGtttcaaaggactgaagctta	11	12	10	8	1	2	2	1	1	1	1	3	4	3	3	1	3	1	2	1	3	3	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:152108058G>C	uc002txh.2	-	4	584	c.436C>G	c.(436-438)CCC>GCC	p.P146A		NM_198557	NP_940959	Q6ZSC3	RBM43_HUMAN	RNA binding motif protein 43	146							nucleotide binding|RNA binding				0				BRCA - Breast invasive adenocarcinoma(221;0.131)		CTTCCATTGGGTTTCAAAGGA	0.388													38	180					0	0	0.006999	0	0		C	152108058	C	C	152108058	3	2	215	1	0	0	0	0	1	0	0	0	13162	1261	44	5	641	5	RBM43	2	152108058	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	40699852	152108058	91091315	46	107227											
SCN3A	6328	broad.mit.edu	37	chr2	165947259	165947259	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tataaactgggtcgcatcggGatcaaacttttcccaaacct	12	11	7	11	2	1	0	1	0	0	0	4	1	2	1	2	2	3	1	2	2	5	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:165947259G>A	uc002ucx.2	-	28	5896	c.5404C>T	c.(5404-5406)CCC>TCC	p.P1802S	SCN3A_uc010zcy.1_Missense_Mutation_p.P285S|SCN3A_uc002ucy.2_Missense_Mutation_p.P1753S|SCN3A_uc002ucz.2_Missense_Mutation_p.P1753S	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	1802						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	GTCGCATCGGGATCAAACTTT	0.458													85	62					0	0	0.01441	0	0		A	165947259	A	A	165947259	3	1	215	1	0	0	0	0	1	0	0	0	13943	1174	41	4	602	4	SCN3A	2	165947259	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	13839201	165947259	77252114	47	107228											
RAPGEF4	11069	broad.mit.edu	37	chr2	173832034	173832034	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caaatatttattctatcgatTtctggatgatgagcacgagg	12	14	9	6	2	2	2	0	2	2	0	3	5	2	3	0	2	1	1	0	2	4	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:173832034T>A	uc002uhv.3	+	10	1053	c.866T>A	c.(865-867)TTT>TAT	p.F289Y	RAPGEF4_uc002uhu.2_Missense_Mutation_p.F289Y|RAPGEF4_uc002uhw.3_Missense_Mutation_p.F145Y|RAPGEF4_uc010zec.1_Missense_Mutation_p.F136Y|RAPGEF4_uc010zed.1_Missense_Mutation_p.F118Y|RAPGEF4_uc010zee.1_Missense_Mutation_p.F136Y|RAPGEF4_uc010fqo.2_Missense_Mutation_p.F118Y|RAPGEF4_uc010zef.1_Missense_Mutation_p.F69Y|RAPGEF4_uc010zeg.1_Missense_Mutation_p.F116Y|RAPGEF4_uc010fqp.1_Missense_Mutation_p.F69Y|RAPGEF4_uc010zeh.1_Missense_Mutation_p.F69Y	NM_007023	NP_008954	Q8WZA2	RPGF4_HUMAN	Rap guanine nucleotide exchange factor (GEF) 4	289	DEP.				blood coagulation|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of insulin secretion|regulation of protein phosphorylation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cAMP-dependent protein kinase complex|membrane fraction|plasma membrane	cAMP binding|cAMP-dependent protein kinase regulator activity|Ras GTPase binding|Ras guanyl-nucleotide exchange factor activity			large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.194)			TTCTATCGATTTCTGGATGAT	0.522													4	36					0	0	0.009096	0	0		A	173832034	A	A	173832034	3	1	215	1	0	0	0	0	1	0	0	0	13071	1841	64	5	920	5	RAPGEF4	2	173832034	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	7884775	173832034	69367339	48	107229											
ZAK	51776	broad.mit.edu	37	chr2	174104139	174104139	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttcctgttttaggactcagGaggtgaacctgaagaaaatg	12	12	11	6	0	1	3	1	2	0	1	2	5	2	5	2	3	1	1	2	3	5	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:174104139G>T	uc002uhz.2	+	16	1474	c.1274G>T	c.(1273-1275)GGA>GTA	p.G425V	uc002uib.2_Intron	NM_016653	NP_057737	Q9NYL2	MLTK_HUMAN	MLK-related kinase isoform 1	425					activation of JUN kinase activity|activation of MAPKK activity|cell cycle arrest|cell death|cell differentiation|cell proliferation|DNA damage checkpoint|positive regulation of apoptosis|response to radiation	cytoplasm|nucleus	ATP binding|identical protein binding|magnesium ion binding|MAP kinase kinase kinase activity|protein binding			lung(3)|stomach(1)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(117;0.176)			TAGGACTCAGGAGGTGAACCT	0.353													28	17					3.73148e-12	4.19335e-12	0.007291	1	0		T	174104139	T	T	174104139	3	4	215	1	0	0	0	0	1	0	0	0	17538	1174	41	5	1717	5	ZAK	2	174104139	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	272105	174104139	69095234	49	107230											
EVX2	344191	broad.mit.edu	37	chr2	176947082	176947082	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggagccacccagcgccgcgcTcccgccgctgcctccgctgc	3	4	12	22	6	0	0	0	0	0	0	2	1	2	1	7	1	4	3	7	1	0	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:176947082T>A	uc010zeu.1	-	2	709	c.523A>T	c.(523-525)AGC>TGC	p.S175C		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	175						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		AGCGCCGCGCTCCCGCCGCTG	0.721													7	28					0	0	0.00308	0	0		A	176947082	A	A	176947082	3	1	215	1	0	0	0	0	1	0	0	0	5303	1551	54	5	913	5	EVX2	2	176947082	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	2842943	176947082	66252291	50	107231											
MSTN	2660	broad.mit.edu	37	chr2	190924970	190924970	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtcaagtttcagagatcggaTtccagtataccttgtaccgt	10	13	9	9	2	2	1	2	0	0	1	4	3	3	2	3	1	2	3	3	1	4	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:190924970T>A	uc002urp.2	-	2	698	c.565A>T	c.(565-567)ATC>TTC	p.I189F		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	189					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			AGAGATCGGATTCCAGTATAC	0.428													27	149					0	0	0.005443	0	0		A	190924970	A	A	190924970	3	1	215	1	0	0	0	0	1	0	0	0	9911	1493	52	5	570	5	MSTN	2	190924970	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	13977888	190924970	52274403	51	107232											
RFTN2	130132	broad.mit.edu	37	chr2	198495934	198495934	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttgaagactgtatacaatttGttatctgaggctaggcattc	11	15	9	6	0	1	3	0	2	1	1	2	3	1	3	0	2	1	4	0	2	6	7			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:198495934G>C	uc002uuo.3	-	5	1131	c.729C>G	c.(727-729)AAC>AAG	p.N243K		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	243						plasma membrane					0						TATACAATTTGTTATCTGAGG	0.348													14	66					0	0	0.004007	0	0		C	198495934	C	C	198495934	3	2	215	1	0	0	0	0	1	0	0	0	13284	1368	48	5	796	5	RFTN2	2	198495934	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	7570964	198495934	44703439	52	107233											
ORC2L	4999	broad.mit.edu	37	chr2	201822831	201822831	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cagcatcttgtcttcctttaAttctggtttactcattgttg	6	20	6	9	0	4	0	1	0	3	0	5	0	5	0	1	1	2	3	1	1	2	9			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:201822831A>G	uc002uwr.2	-	3	273	c.16T>C	c.(16-18)TTA>CTA	p.L6L	ORC2L_uc010zhj.1_Silent_p.L6L	NM_006190	NP_006181	Q13416	ORC2_HUMAN	origin recognition complex, subunit 2	6					cell cycle checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0						TCTTCCTTTAATTCTGGTTTA	0.333													19	76					0	0	0.007413	0	0		G	201822831	G	G	201822831	2	3	215	1	0	0	0	0	0	0	0	1	11281	98	4	3		3	ORC2L	2	201822831	Silent	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	3326897	201822831	41376542	53	107234											
ZDBF2	57683	broad.mit.edu	37	chr2	207172799	207172799	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	aaataactattttggagcagGagcacattgaactagaaggt	16	10	10	5	0	0	2	0	1	0	1	0	4	0	4	0	3	4	2	0	3	6	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:207172799G>T	uc002vbp.2	+	5	3797	c.3547G>T	c.(3547-3549)GAG>TAG	p.E1183*		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	1183							nucleic acid binding|zinc ion binding			ovary(3)	3						TTTGGAGCAGGAGCACATTGA	0.403													20	76					3.51602e-12	3.96414e-12	0.008871	1	0		T	207172799	T	T	207172799	4	4	215	1	0	0	0	0	0	1	0	0	17624	1175	41	5	3557	5	ZDBF2	2	207172799	Nonsense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	5349968	207172799	36026574	54	107235											
PLEKHM3	389072	broad.mit.edu	37	chr2	208725964	208725964	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taatgaccttgcccaagaatGgagccagctttccctctatt	10	12	7	12	0	1	2	0	1	1	1	2	3	2	3	4	1	3	1	4	1	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:208725964G>C	uc002vcl.2	-	7	2463	c.1973C>G	c.(1972-1974)CCA>CGA	p.P658R		NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	658					intracellular signal transduction		metal ion binding			ovary(1)	1						GCCCAAGAATGGAGCCAGCTT	0.443													21	99					0	0	0.014323	0	0		C	208725964	C	C	208725964	3	2	215	1	0	0	0	0	1	0	0	0	12101	1348	47	5	320	5	PLEKHM3	2	208725964	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1553165	208725964	34473409	55	107236											
CYP27A1	1593	broad.mit.edu	37	chr2	219677108	219677108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	cttcggggaaccaggtgtcgGacatggctcaactcttctac	8	10	11	12	2	3	0	1	0	2	0	5	2	3	2	1	5	3	1	1	5	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:219677108G>A	uc002viz.3	+	3	1044	c.610G>A	c.(610-612)GAC>AAC	p.D204N		NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,	204					bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	CCAGGTGTCGGACATGGCTCA	0.557													36	221					0	0	0.004878	0	0		A	219677108	A	A	219677108	3	1	215	1	0	0	0	0	1	0	0	0	4161	1174	41	4	620	4	CYP27A1	2	219677108	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	10951144	219677108	23522265	56	107237											
DOCK10	55619	broad.mit.edu	37	chr2	225651752	225651752	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aacttacctgcccataaaatGccacacgatagtagcgacca	15	7	6	13	2	0	0	0	0	0	0	0	2	0	0	4	0	5	1	4	0	6	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr2:225651752G>A	uc010fwz.1	-	50	5881	c.5642C>T	c.(5641-5643)GCA>GTA	p.A1881V	DOCK10_uc002vob.2_Missense_Mutation_p.A1875V|DOCK10_uc002voa.2_Missense_Mutation_p.A537V|DOCK10_uc002voc.2_Missense_Mutation_p.A702V	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1881	DHR-2.						GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		CCCATAAAATGCCACACGATA	0.433													23	70					0	0	0.005443	0	0		A	225651752	A	A	225651752	3	1	215	1	0	0	0	0	1	0	0	0	4691	1319	46	2	946	2	DOCK10	2	225651752	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	5974644	225651752	17547621	57	107238											
TMPPE	643853	broad.mit.edu	37	chr3	33134422	33134422	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtgcctgggctgacatacacGaatgtagcctgggccacctg	8	8	13	12	1	0	1	0	1	0	0	0	2	0	1	4	2	3	2	4	2	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:33134422G>A	uc003cfk.2	-	2	1457	c.1266C>T	c.(1264-1266)TTC>TTT	p.F422F	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Silent_p.F285F	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	422						integral to membrane	metal ion binding				0						TGACATACACGAATGTAGCCT	0.577													23	51					0	0	0.014323	0	0		A	33134422	A	A	33134422	2	1	215	1	0	0	0	0	0	0	0	1	16263	1049	37	1		1	TMPPE	3	33134422	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08		33134422	164888008	58	107239											
CTNNB1	1499	broad.mit.edu	37	chr3	41266100	41266100	+	Missense_Mutation	SNP	T	C	C	0	1	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	agcaacagtcttacctggacTctggaatccattctggtgcc	9	11	9	12	0	3	0	0	0	3	0	4	2	4	2	3	3	4	1	3	3	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:41266100T>C	uc010hia.1	+	4	253	c.97T>C	c.(97-99)TCT>CCT	p.S33P	CTNNB1_uc003ckp.2_Missense_Mutation_p.S33P|CTNNB1_uc003ckq.2_Missense_Mutation_p.S33P|CTNNB1_uc003ckr.2_Missense_Mutation_p.S33P|CTNNB1_uc011azf.1_Missense_Mutation_p.S26P|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	33			S -> F (in PTR, MDB and hepatocellular carcinoma).|Missing (in hepatocellular carcinoma).|S -> Y (in colorectal cancer and PTR; enhances transactivation of target genes).|S -> L (in hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.S33C(131)|p.S33F(79)|p.A5_A80del(63)|p.S33Y(52)|p.S33P(37)|p.S33A(14)|p.H24_S47del(9)|p.A5_A80>D(7)|p.A5_Q143del(7)|p.Q28_H134del(5)|p.S33L(4)|p.W25_D32del(4)|p.W25_I140del(4)|p.S33N(3)|p.S23_S33del(3)|p.V22_G38del(3)|p.T3_A126del(2)|p.M5_N141>D(2)|p.D32_S47del(2)|p.W25_H36del(2)|p.Y30_S33del(2)|p.V22_S33del(2)|p.V22_L139>V(2)|p.A5_Y142>D(2)|p.A5fs*7(2)|p.?(2)|p.L10_N141del(2)|p.D6_A43del(1)|p.E9_S47del(1)|p.Q28_Q61del(1)|p.S33T(1)|p.S33S(1)|p.A20_R151del(1)|p.A20_N141del(1)|p.D11_Y142>H(1)|p.H24_G38del(1)|p.S29_H36del(1)|p.Y30_A97del(1)|p.A20_A80del(1)|p.Q28_A43del(1)|p.E15_I140>V(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.L7_I140del(1)|p.K19_Y142>V(1)|p.A20_L148del(1)|p.V22_A80del(1)|p.W25_I35del(1)|p.V22_G80>NNNNN(1)|p.A5_I35del(1)|p.E9_A80del(1)|p.A20_Q143del(1)|p.A13_R151del(1)|p.S23_I140del(1)|p.M1_A87del(1)|p.W25_S33del(1)|p.V22_T102del(1)|p.S33_G34del(1)|p.S23_A39del(1)|p.A21_A80del(1)|p.D6_I140del(1)|p.Q28_I140del(1)|p.M14_S45del(1)|p.M8_G50del(1)|p.A5_G80>(1)|p.D32_H36>D(1)|p.S33_G34insGTS(1)|p.P16_K133del(1)|p.A5_T59del(1)|p.A20_I35del(1)|p.M1_V173del(1)|p.A5_R90del(1)|p.W25_A80del(1)|p.M8_A80del(1)|p.S33_S37del(1)|p.E9_I140del(1)|p.D32_S33insS(1)|p.S33_G34insS(1)|p.Y30_T40del(1)|p.S33_G34insGI(1)|p.M1_T42del(1)|p.A5_Q143>E(1)|p.A5_Q72del(1)|p.Y30_A80del(1)|p.D32fs*9(1)|p.D6_K133del(1)|p.A5_T42del(1)|p.A5_D144>D(1)|p.A5_T40del(1)|p.D17_A126del(1)|p.A5_E54del(1)|p.S23_I35del(1)|p.V22_S71>A(1)|p.V22_Y64del(1)|p.A20_Q72del(1)|p.A20_S111del(1)|p.D32_H36del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	TTACCTGGACTCTGGAATCCA	0.488		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				24	27					0	0	0.003954	0	0		C	41266100	C	C	41266100	3	2	215	1	0	0	0	0	1	0	0	0	4019	1551	54	3	103	3	CTNNB1	3	41266100	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	8131678	41266100	156756330	59	107240											
CCR9	10803	broad.mit.edu	37	chr3	45943257	45943257	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgtgggtgagagattccgccGggatctcgtgaaaaccctga	9	9	14	9	3	1	4	0	3	1	1	3	6	2	5	3	2	1	0	3	2	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:45943257G>A	uc003coz.1	+	3	1134	c.977G>A	c.(976-978)CGG>CAG	p.R326Q	LZTFL1_uc003coy.1_Intron|LZTFL1_uc011bak.1_Intron|CCR9_uc010hiv.1_Missense_Mutation_p.R314Q|CCR9_uc003cpa.1_Missense_Mutation_p.R314Q	NM_031200	NP_112477	P51686	CCR9_HUMAN	chemokine (C-C motif) receptor 9 isoform A	326	Cytoplasmic (Potential).				cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane				ovary(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00118)|KIRC - Kidney renal clear cell carcinoma(197;0.0182)|Kidney(197;0.0214)		AGATTCCGCCGGGATCTCGTG	0.507													49	47					0	0	0.01441	0	0		A	45943257	A	A	45943257	3	1	215	1	0	0	0	0	1	0	0	0	2951	1116	39	1	983	1	CCR9	3	45943257	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	4677157	45943257	152079173	60	107241											
PLXNB1	5364	broad.mit.edu	37	chr3	48455322	48455322	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	accgtgaactcaggcaaagaGtcaggtgcctctcggagggc	10	6	14	11	2	3	2	2	1	1	1	4	3	3	3	2	4	2	1	2	4	2	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:48455322G>C	uc003csw.2	-	22	4638	c.4368C>G	c.(4366-4368)GAC>GAG	p.D1456E	PLXNB1_uc003cst.2_5'UTR|PLXNB1_uc003csu.2_Missense_Mutation_p.D1273E|PLXNB1_uc003csx.2_Missense_Mutation_p.D1456E|PLXNB1_uc010hjx.1_RNA	NM_002673	NP_002664	O43157	PLXB1_HUMAN	plexin B1 precursor	1456	Extracellular (Potential).				axon guidance|cell migration|intracellular signal transduction|regulation of cell shape|regulation of cytoskeleton organization|regulation of small GTPase mediated signal transduction|semaphorin-plexin signaling pathway	extracellular region|integral to plasma membrane|intracellular|semaphorin receptor complex	GTPase activator activity|semaphorin receptor activity|semaphorin receptor binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CAGGCAAAGAGTCAGGTGCCT	0.667													17	50					0	0	0.006122	0	0		C	48455322	C	C	48455322	3	2	215	1	0	0	0	0	1	0	0	0	12142	1020	36	5	2107	5	PLXNB1	3	48455322	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2512065	48455322	149567108	61	107242											
PFKFB4	5210	broad.mit.edu	37	chr3	48576698	48576698	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	actactcaccacgatgttggCagctatgacctcaggatcca	11	9	8	13	1	2	1	2	1	0	0	3	3	3	2	3	2	2	3	3	2	2	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:48576698C>G	uc003ctv.2	-	6	516	c.499G>C	c.(499-501)GCC>CCC	p.A167P	PFKFB4_uc003ctw.2_5'UTR|PFKFB4_uc010hkc.2_Missense_Mutation_p.A167P|PFKFB4_uc003ctx.2_Missense_Mutation_p.A124P|PFKFB4_uc010hkb.2_Missense_Mutation_p.A167P|PFKFB4_uc011bbm.1_Missense_Mutation_p.A156P|PFKFB4_uc011bbn.1_RNA	NM_004567	NP_004558	Q16877	F264_HUMAN	6-phosphofructo-2-kinase/fructose-2,	167	6-phosphofructo-2-kinase.				fructose 2,6-bisphosphate metabolic process|glycolysis	cytosol	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.0003)|KIRC - Kidney renal clear cell carcinoma(197;0.00596)|Kidney(197;0.00684)		ACGATGTTGGCAGCTATGACC	0.522													19	31					0	0	0.012319	0	0		G	48576698	G	G	48576698	3	3	215	1	0	0	0	0	1	0	0	0	11782	710	25	5	946	5	PFKFB4	3	48576698	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	121376	48576698	149445732	62	107243											
NISCH	11188	broad.mit.edu	37	chr3	52526002	52526002	+	Missense_Mutation	SNP	A	T	T	1	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	ccaaaagatggctgagccagAgaaggccccagccctcagca	13	3	11	14	0	1	3	1	1	0	2	1	4	1	3	5	2	3	2	5	2	3	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:52526002A>T	uc011beg.1	+	22	4091	c.4019A>T	c.(4018-4020)GAG>GTG	p.E1340V	NISCH_uc003ded.3_Missense_Mutation_p.E1340V|NISCH_uc003dee.3_Missense_Mutation_p.E829V|NISCH_uc003deg.1_RNA|NISCH_uc003deh.3_Missense_Mutation_p.E89V	NM_007184	NP_009115	Q9Y2I1	NISCH_HUMAN	nischarin	1340					apoptosis|cell communication	cytosol|early endosome|plasma membrane|recycling endosome	phosphatidylinositol binding|receptor activity			ovary(3)|central_nervous_system(1)	4				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)		GCTGAGCCAGAGAAGGCCCCA	0.622													28	67					0	0	0.007291	0	0		T	52526002	T	T	52526002	3	4	215	1	0	0	0	0	1	0	0	0	10451	304	11	5	4101	5	NISCH	3	52526002	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	3949304	52526002	145496428	63	107244											
ERC2	26059	broad.mit.edu	37	chr3	56330199	56330199	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	actttgcaacatctcaagaaGttttttaattgactcatctc	12	16	4	9	0	3	2	2	1	2	1	5	2	3	2	0	0	2	2	0	0	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:56330199G>T	uc003dhr.1	-	3	1178	c.922C>A	c.(922-924)CTT>ATT	p.L308I		NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	308	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		ATCTCAAGAAGTTTTTTAATT	0.468													124	248					1.77192e-52	2.19108e-52	0.01441	1	0		T	56330199	T	T	56330199	3	4	215	1	0	0	0	0	1	0	0	0	5219	1029	36	5	2001	5	ERC2	3	56330199	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	3804197	56330199	141692231	64	107245											
VGLL3	389136	broad.mit.edu	37	chr3	87017820	87017820	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaggtagcagaggtgactGtagttggttctgtctttgtg	6	15	15	5	0	2	3	0	2	2	1	2	3	2	3	0	3	1	5	0	3	2	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:87017820G>T	uc003dqn.2	-	3	1221	c.857C>A	c.(856-858)ACA>AAA	p.T286K		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		AGAGGTGACTGTAGTTGGTTC	0.532													11	32					5.50884e-06	5.81208e-06	0.013537	1	0		T	87017820	T	T	87017820	3	4	215	1	0	0	0	0	1	0	0	0	17186	1377	48	5	131	5	VGLL3	3	87017820	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	30687621	87017820	111004610	65	107246											
VGLL3	389136	broad.mit.edu	37	chr3	87017831	87017831	+	Silent	SNP	T	C	C	0	1	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	gaggtgactgtagttggttcTgtctttgtgatgtcacactg	6	16	13	6	0	3	2	1	2	2	0	3	3	3	2	0	2	0	3	0	2	1	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:87017831T>C	uc003dqn.2	-	3	1210	c.846A>G	c.(844-846)ACA>ACG	p.T282T		NM_016206	NP_057290	A8MV65	VGLL3_HUMAN	colon carcinoma related protein	282					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0	all_cancers(8;0.109)|Lung SC(3;0.184)	Lung NSC(201;0.0777)		LUSC - Lung squamous cell carcinoma(29;0.00241)|Lung(72;0.00712)		TAGTTGGTTCTGTCTTTGTGA	0.557													5	38					0	0	0.000602	0	0		C	87017831	C	C	87017831	2	2	215	1	0	0	0	0	0	0	0	1	17186	1567	55	3		3	VGLL3	3	87017831	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	11	87017831	111004599	66	107247											
EPHA3	2042	broad.mit.edu	37	chr3	89457249	89457249	+	Missense_Mutation	SNP	A	T	T	1	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	taagtcaaaacatggggcagAtgaaaaaagacttcattttg	17	10	9	5	0	2	3	2	1	0	2	2	3	2	3	0	2	1	1	0	2	6	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:89457249A>T	uc003dqy.2	+	9	1955	c.1730A>T	c.(1729-1731)GAT>GTT	p.D577V	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	577	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		CATGGGGCAGATGAAAAAAGA	0.348										TSP Lung(6;0.00050)			76	113					0	0	0.01441	0	0		T	89457249	T	T	89457249	3	4	215	1	0	0	0	0	1	0	0	0	5176	333	12	5	1790	5	EPHA3	3	89457249	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	2439418	89457249	108565181	67	107248											
GOLGB1	2804	broad.mit.edu	37	chr3	121418664	121418664	+	Missense_Mutation	SNP	T	G	G	0	1	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	gaacacatcacttacctcacTgacttctctgtctgcctccc	8	12	4	17	0	4	1	2	1	2	0	6	2	5	1	3	0	3	0	3	0	2	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:121418664T>G	uc003eei.3	-	12	1699	c.1573A>C	c.(1573-1575)AGT>CGT	p.S525R	GOLGB1_uc010hrc.2_Missense_Mutation_p.S530R|GOLGB1_uc003eej.3_Missense_Mutation_p.S491R|GOLGB1_uc011bjm.1_Missense_Mutation_p.S411R|GOLGB1_uc010hrd.1_Missense_Mutation_p.S489R	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	525	Potential.|Cytoplasmic (Potential).				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		CTTACCTCACTGACTTCTCTG	0.368													18	27					0	0	0.007413	0	0		G	121418664	G	G	121418664	3	3	215	1	0	0	0	0	1	0	0	0	6580	1580	55	5	8250	5	GOLGB1	3	121418664	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	31961415	121418664	76603766	68	107249											
UROC1	131669	broad.mit.edu	37	chr3	126214935	126214935	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgttgtccatgtactgcagCttcacagacaccttcactgc	9	12	7	13	0	2	1	2	0	0	1	3	1	3	1	2	0	4	4	2	0	1	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:126214935C>A	uc003eiz.1	-	15	1487	c.1455G>T	c.(1453-1455)AAG>AAT	p.K485N	UROC1_uc010hsi.1_Missense_Mutation_p.K545N	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	485					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		TGTACTGCAGCTTCACAGACA	0.657													9	8					0.000978159	0.00101341	0.010729	1	0		A	126214935	A	A	126214935	3	1	215	1	0	0	0	0	1	0	0	0	17054	796	28	5	599	5	UROC1	3	126214935	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	4796271	126214935	71807495	69	107250											
XRN1	54464	broad.mit.edu	37	chr3	142133030	142133030	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgctggaagtacagcaagaaGctgttcaaatggcttaaaag	15	9	11	6	0	1	1	1	0	0	1	1	2	1	2	0	2	4	6	0	2	7	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:142133030G>T	uc003eus.2	-	14	1607	c.1540C>A	c.(1540-1542)CTT>ATT	p.L514I	XRN1_uc010huu.2_5'Flank|XRN1_uc003eut.2_Missense_Mutation_p.L514I|XRN1_uc003euu.2_Missense_Mutation_p.L514I|XRN1_uc003euv.1_Missense_Mutation_p.L375I	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	514					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						ACAGCAAGAAGCTGTTCAAAT	0.358													46	66					4.64027e-19	5.42675e-19	0.01441	1	0		T	142133030	T	T	142133030	3	4	215	1	0	0	0	0	1	0	0	0	17485	971	34	5	3696	5	XRN1	3	142133030	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	15918095	142133030	55889400	70	107251											
PLSCR2	57047	broad.mit.edu	37	chr3	146173129	146173129	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taatcctcaaggtaaaaggtCtagaccgcccacagcaattt	14	9	7	11	1	2	1	1	0	1	1	3	1	3	1	3	2	1	2	3	2	6	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:146173129C>T	uc003evv.1	-	5	551	c.218G>A	c.(217-219)AGA>AAA	p.R73K	PLSCR2_uc003evw.1_Missense_Mutation_p.R142K	NM_020359	NP_065092	Q9NRY7	PLS2_HUMAN	phospholipid scramblase 2	73	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity				0						GGTAAAAGGTCTAGACCGCCC	0.418													52	61					0	0	0.01441	0	0		T	146173129	T	T	146173129	3	4	215	1	0	0	0	0	1	0	0	0	12129	913	32	4	472	4	PLSCR2	3	146173129	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	4040099	146173129	51849301	71	107252											
DNAJC19	131118	broad.mit.edu	37	chr3	180704741	180704741	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	attattttaccttacacctaGtattaatgctgcttcccgtt	9	18	4	10	1	0	0	0	0	0	0	1	0	1	0	3	0	4	4	3	0	6	9			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:180704741G>T	uc003fkt.2	-	4	339	c.199C>A	c.(199-201)CTA>ATA	p.L67I	DNAJC19_uc003fku.2_Intron	NM_145261	NP_660304	Q96DA6	TIM14_HUMAN	DnaJ homolog, subfamily C, member 19	67	J.|Mitochondrial matrix (Potential).				genitalia development|protein folding|protein targeting to mitochondrion|transmembrane transport|visual perception	integral to membrane|mitochondrial inner membrane	heat shock protein binding				0	all_cancers(143;3.12e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-36)|OV - Ovarian serous cystadenocarcinoma(80;1.55e-22)			CTTACACCTAGTATTAATGCT	0.363													18	66					2.4624e-09	2.68838e-09	0.008871	1	0		T	180704741	T	T	180704741	3	4	215	1	0	0	0	0	1	0	0	0	4644	1020	36	5	163	5	DNAJC19	3	180704741	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	34531612	180704741	17317689	72	107253											
ATP13A5	344905	broad.mit.edu	37	chr3	192992921	192992921	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcatggctttcatagcctccGttgatgtagaatccattttt	8	17	7	9	1	2	2	2	1	0	1	4	2	4	2	3	1	1	3	3	1	3	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr3:192992921G>A	uc011bsq.1	-	30	3567	c.3567C>T	c.(3565-3567)AAC>AAT	p.N1189N		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	1189					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		CATAGCCTCCGTTGATGTAGA	0.433													42	171					0	0	0.007835	0	0		A	192992921	A	A	192992921	2	1	215	1	0	0	0	0	0	0	0	1	1128	1136	40	1		1	ATP13A5	3	192992921	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	12288180	192992921	5029509	73	107254											
NKX3-2	579	broad.mit.edu	37	chr4	13543878	13543878	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaccagattttcacctgcgtCtcggtgagcttcagcgacgc	8	10	10	13	4	3	2	2	1	1	1	4	3	3	2	2	1	4	1	2	1	1	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:13543878C>G	uc003gmx.2	-	2	817	c.741G>C	c.(739-741)GAG>GAC	p.E247D		NM_001189	NP_001180	P78367	NKX32_HUMAN	NK3 homeobox 2	247	Homeobox.				negative regulation of chondrocyte differentiation|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TCACCTGCGTCTCGGTGAGCT	0.672													11	17					0	0	0.010729	0	0		G	13543878	G	G	13543878	3	3	215	1	0	0	0	0	1	0	0	0	10475	912	32	5	264	5	NKX3-2	4	13543878	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		13543878	177610398	74	107255											
CWH43	80157	broad.mit.edu	37	chr4	49052744	49052744	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	agaatctcccatgctgaactGagtgattcagaaattcagat	14	11	8	8	0	3	6	2	3	1	3	4	6	3	6	1	0	2	1	1	0	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:49052744G>C	uc003gyv.2	+	15	2081	c.1899G>C	c.(1897-1899)CTG>CTC	p.L633L	CWH43_uc011bzl.1_Silent_p.L606L	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	633					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ATGCTGAACTGAGTGATTCAG	0.383													11	71					0	0	0.010729	0	0		C	49052744	C	C	49052744	2	2	215	1	0	0	0	0	0	0	0	1	4076	1277	45	5		5	CWH43	4	49052744	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	35508866	49052744	142101532	75	107256											
ANKRD17	26057	broad.mit.edu	37	chr4	73957880	73957880	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tagcagcagtggtggtaggtGctgatgaccctattttggaa	9	12	14	6	0	0	2	0	2	0	0	0	3	0	3	1	4	3	4	1	4	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:73957880G>A	uc003hgp.2	-	29	5582	c.5465C>T	c.(5464-5466)GCA>GTA	p.A1822V	ANKRD17_uc003hgo.2_Missense_Mutation_p.A1709V|ANKRD17_uc003hgq.2_Missense_Mutation_p.A1571V|ANKRD17_uc003hgr.2_Missense_Mutation_p.A1821V	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1822					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GGTGGTAGGTGCTGATGACCC	0.403													39	141					0	0	0.00874	0	0		A	73957880	A	A	73957880	3	1	215	1	0	0	0	0	1	0	0	0	646	1319	46	2	2370	2	ANKRD17	4	73957880	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	24905136	73957880	117196396	76	107257											
ANKRD17	26057	broad.mit.edu	37	chr4	73957892	73957892	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tggtaggtgctgatgaccctAttttggaatttgctgaggag	8	14	14	5	0	0	3	0	3	0	0	0	5	0	5	1	4	2	3	1	4	3	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:73957892A>C	uc003hgp.2	-	29	5570	c.5453T>G	c.(5452-5454)ATA>AGA	p.I1818R	ANKRD17_uc003hgo.2_Missense_Mutation_p.I1705R|ANKRD17_uc003hgq.2_Missense_Mutation_p.I1567R|ANKRD17_uc003hgr.2_Missense_Mutation_p.I1817R	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	1818					interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGATGACCCTATTTTGGAATT	0.393													35	135					0	0	0.00623	0	0		C	73957892	C	C	73957892	3	2	215	1	0	0	0	0	1	0	0	0	646	449	16	5	2382	5	ANKRD17	4	73957892	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	12	73957892	117196384	77	107258											
SEC31A	22872	broad.mit.edu	37	chr4	83763493	83763493	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctgtgctgcgtacagctgaGactgcccagtataggaagaa	11	8	13	9	1	0	2	0	1	0	2	0	4	0	3	1	1	5	5	1	1	5	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:83763493G>T	uc003hnf.2	-	22	2932	c.2768C>A	c.(2767-2769)TCT>TAT	p.S923Y	SEC31A_uc003hnd.2_Missense_Mutation_p.S79Y|SEC31A_uc003hne.2_Missense_Mutation_p.S687Y|SEC31A_uc011ccl.1_Missense_Mutation_p.S884Y|SEC31A_uc003hnl.2_Intron|SEC31A_uc003hng.2_Missense_Mutation_p.S923Y|SEC31A_uc003hnh.2_Missense_Mutation_p.S923Y|SEC31A_uc003hni.2_Intron|SEC31A_uc003hnj.2_Missense_Mutation_p.S884Y|SEC31A_uc011ccm.1_Missense_Mutation_p.S918Y|SEC31A_uc011ccn.1_Missense_Mutation_p.S923Y|SEC31A_uc003hnk.2_Missense_Mutation_p.S884Y|SEC31A_uc003hnm.2_Missense_Mutation_p.S923Y	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1	923	Interaction with PDCD6.|Pro-rich.				COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				GTACAGCTGAGACTGCCCAGT	0.542													17	14					1.02788e-11	1.14764e-11	0.00499	1	0		T	83763493	T	T	83763493	3	4	215	1	0	0	0	0	1	0	0	0	14023	942	33	5	918	5	SEC31A	4	83763493	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	9805601	83763493	107390783	78	107259											
LARP1B	55132	broad.mit.edu	37	chr4	129043260	129043260	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	caaaaatcacatctgaacttGctaaagttatcaatgatggc	16	11	6	8	0	3	2	2	2	1	0	3	2	3	2	0	1	2	2	0	1	7	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:129043260G>T	uc003iga.2	+	11	1572	c.1441G>T	c.(1441-1443)GCT>TCT	p.A481S	LARP1B_uc003igc.2_5'UTR|LARP1B_uc003ifz.1_Missense_Mutation_p.A481S|LARP1B_uc003igb.1_Missense_Mutation_p.A196S	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2	481							RNA binding				0						ATCTGAACTTGCTAAAGTTAT	0.393													46	43					4.86159e-25	5.74401e-25	0.01441	1	0		T	129043260	T	T	129043260	3	4	215	1	0	0	0	0	1	0	0	0	8645	1319	46	5	1564	5	LARP1B	4	129043260	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	45279767	129043260	62111016	79	107260											
NPY2R	4887	broad.mit.edu	37	chr4	156135770	156135770	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtctttcttccttgttgatcTtgtatgttttgcctctgggc	2	21	9	9	0	4	1	0	1	4	0	5	1	5	1	2	1	1	3	2	1	1	8	rs149843372	byFrequency	TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:156135770T>C	uc003ioq.2	+	2	1174	c.679T>C	c.(679-681)TTG>CTG	p.L227L	NPY2R_uc003ior.2_Silent_p.L227L	NM_000910	NP_000901	P49146	NPY2R_HUMAN	neuropeptide Y receptor Y2	227	Helical; Name=5; (Potential).				cardiac left ventricle morphogenesis|inhibition of adenylate cyclase activity by G-protein signaling pathway|locomotory behavior|outflow tract morphogenesis	integral to plasma membrane	calcium channel regulator activity			lung(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0854)				CTTGTTGATCTTGTATGTTTT	0.448													53	26					0	0	0.01441	0	0		C	156135770	C	C	156135770	2	2	215	1	0	0	0	0	0	0	0	1	10628	1606	56	3		3	NPY2R	4	156135770	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	27092510	156135770	35018506	80	107261											
FAT1	2195	broad.mit.edu	37	chr4	187549439	187549439	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaggaagcggtgaaccacGgggcgtggtcattcgtgtcg	8	7	18	8	5	1	1	1	1	0	0	3	3	1	3	1	6	2	0	1	6	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr4:187549439G>C	uc003izf.2	-	9	4867	c.4679C>G	c.(4678-4680)CCG>CGG	p.P1560R		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1560	Extracellular (Potential).|Cadherin 13.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GGTGAACCACGGGGCGTGGTC	0.498										HNSCC(5;0.00058)			8	15					0	0	0.004482	0	0		C	187549439	C	C	187549439	3	2	215	1	0	0	0	0	1	0	0	0	5703	1116	39	5	9163	5	FAT1	4	187549439	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	31413669	187549439	3604837	81	107262											
SLC12A7	10723	broad.mit.edu	37	chr5	1076859	1076859	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaggcgatgaggatgccagtCtcgcagatgaggactgtcag	10	7	16	8	2	2	3	1	2	1	1	3	7	2	5	1	3	1	1	1	3	0	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:1076859C>G	uc003jbu.2	-	13	1764	c.1698G>C	c.(1696-1698)GAG>GAC	p.E566D		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	566	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GGATGCCAGTCTCGCAGATGA	0.657													15	74					0	0	0.003163	0	0		G	1076859	G	G	1076859	3	3	215	1	0	0	0	0	1	0	0	0	14413	912	32	5	1601	5	SLC12A7	5	1076859	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		1076859	179838401	82	107263											
GZMK	3003	broad.mit.edu	37	chr5	54327286	54327286	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aaccaaatgcaaggttactgGctggggagccaccgatccag	12	6	12	11	1	0	0	0	0	0	0	1	2	1	1	4	4	4	3	4	4	4	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:54327286G>A	uc003jpl.1	+	4	502	c.458G>A	c.(457-459)GGC>GAC	p.G153D		NM_002104	NP_002095	P49863	GRAK_HUMAN	granzyme K precursor	153	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				AAGGTTACTGGCTGGGGAGCC	0.448													43	68					0	0	0.013114	0	0		A	54327286	A	A	54327286	3	1	215	1	0	0	0	0	1	0	0	0	6934	1203	42	2	472	2	GZMK	5	54327286	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	53250427	54327286	126587974	83	107264											
JMY	133746	broad.mit.edu	37	chr5	78612029	78612029	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctacccgatacagaccctCtaacacggagcatccatgaa	13	8	6	14	2	2	2	0	1	2	1	3	4	3	3	3	1	4	1	3	1	4	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:78612029C>G	uc003kfx.3	+	10	3386	c.2866C>G	c.(2866-2868)CTA>GTA	p.L956V		NM_152405	NP_689618	Q8N9B5	JMY_HUMAN	junction-mediating and regulatory protein	956					'de novo' actin filament nucleation|actin polymerization-dependent cell motility|Arp2/3 complex-mediated actin nucleation|cell cycle arrest|DNA repair|induction of apoptosis|positive regulation of sequence-specific DNA binding transcription factor activity|regulation of transcription from RNA polymerase II promoter	cell leading edge|cytoplasm|cytoskeleton|nucleus	actin binding|transcription coactivator activity				0		all_lung(232;0.00051)|Lung NSC(167;0.00131)|Ovarian(174;0.0261)|Prostate(461;0.191)		OV - Ovarian serous cystadenocarcinoma(54;4.45e-45)|Epithelial(54;5.85e-40)|all cancers(79;2.89e-35)		TACAGACCCTCTAACACGGAG	0.428													8	8					0	0	0.00308	0	0		G	78612029	G	G	78612029	3	3	215	1	0	0	0	0	1	0	0	0	7973	912	32	5	2904	5	JMY	5	78612029	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	24284743	78612029	102303231	84	107265											
GIN1	54826	broad.mit.edu	37	chr5	102433117	102433117	+	Missense_Mutation	SNP	A	T	T	1	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	gtattatcaccatccacttcAtgaagactatctgaagtctc	12	13	5	11	0	4	3	2	2	2	1	6	3	5	3	2	0	0	1	2	0	5	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:102433117A>T	uc003koa.1	-	6	991	c.909T>A	c.(907-909)CAT>CAA	p.H303Q	GIN1_uc003kob.1_Missense_Mutation_p.H156Q|GIN1_uc003koc.1_Intron	NM_017676	NP_060146	Q9NXP7	GIN1_HUMAN	zinc finger, H2C2 domain containing	303					DNA integration		DNA binding			ovary(1)|skin(1)	2		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)		CATCCACTTCATGAAGACTAT	0.328													40	121					0	0	0.010771	0	0		T	102433117	T	T	102433117	3	4	215	1	0	0	0	0	1	0	0	0	6401	214	8	5	671	5	GIN1	5	102433117	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	23821088	102433117	78482143	85	107266											
SNCAIP	9627	broad.mit.edu	37	chr5	121739486	121739486	+	Splice_Site	SNP	A	C	C	1	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	tcttctctggcttcccgttcAgtattcagtcacatcactca	7	15	5	14	1	7	0	5	0	2	0	9	0	8	0	1	1	0	3	1	1	1	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:121739486A>C	uc003ksw.1	+	3	264	c.58_splice	c.e3-2	p.Y20_splice	SNCAIP_uc011cwl.1_Splice_Site|SNCAIP_uc010jct.2_Splice_Site_p.Y20_splice|SNCAIP_uc003ksx.1_Splice_Site_p.Y67_splice|SNCAIP_uc003ksy.1_Splice_Site_p.L4_splice|SNCAIP_uc003ksz.1_Splice_Site_p.L4_splice|SNCAIP_uc010jcu.2_Splice_Site_p.L4_splice|SNCAIP_uc011cwm.1_Splice_Site_p.L4_splice|SNCAIP_uc003kta.1_Splice_Site_p.S2_splice|SNCAIP_uc010jcv.1_Splice_Site|SNCAIP_uc010jcw.1_Splice_Site_p.L4_splice|SNCAIP_uc010jcx.1_Splice_Site_p.Y20_splice	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein						cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CTTCCCGTTCAGTATTCAGTC	0.438													49	78					0	0	0.01441	0	0		C	121739486	C	C	121739486	5	2	215	1	0	0	0	0	0	0	1	0	14866	202	7	5	62	5	SNCAIP	5	121739486	Splice_Site	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	19306369	121739486	59175774	86	107267											
PCDHA1	56147	broad.mit.edu	37	chr5	140167155	140167155	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctatgagctggtggtgaccgCgcgggacgggggctcgcctt	4	8	18	11	5	0	2	0	2	0	0	1	3	0	3	2	5	1	2	2	5	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:140167155C>T	uc003lhb.2	+	1	1280	c.1280C>T	c.(1279-1281)GCG>GTG	p.A427V	PCDHA1_uc003lha.2_Missense_Mutation_p.A427V|PCDHA1_uc003lgz.2_Missense_Mutation_p.A427V	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	427	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTGGTGACCGCGCGGGACGGG	0.647													43	141					0	0	0.011902	0	0		T	140167155	T	T	140167155	3	4	215	1	0	0	0	0	1	0	0	0	11538	768	27	1	1282	1	PCDHA1	5	140167155	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	18427669	140167155	40748105	87	107268											
PCDHB15	56121	broad.mit.edu	37	chr5	140626809	140626809	+	Missense_Mutation	SNP	A	C	C	1	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	gagtgctggtgctggacgccAacgacaactcgcccttcgtg	7	8	13	13	4	0	0	0	0	0	0	2	3	0	1	2	2	4	2	2	2	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:140626809A>C	uc003lje.2	+	1	1663	c.1663A>C	c.(1663-1665)AAC>CAC	p.N555H		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	555	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCTGGACGCCAACGACAACTC	0.716													39	49					0	0	0.00623	0	0		C	140626809	C	C	140626809	3	2	215	1	0	0	0	0	1	0	0	0	11559	130	5	5	1665	5	PCDHB15	5	140626809	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	459654	140626809	40288451	88	107269											
ABLIM3	22885	broad.mit.edu	37	chr5	148627430	148627430	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agatccctggacccctccccGgagctccaccagcagccggg	7	4	11	19	2	0	1	0	0	0	1	3	3	3	3	8	3	3	2	8	3	0	0	rs138587496		TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:148627430G>A	uc003lpy.2	+	18	1888	c.1637G>A	c.(1636-1638)CGG>CAG	p.R546Q	ABLIM3_uc003lpz.1_Missense_Mutation_p.R546Q|ABLIM3_uc003lqa.1_Missense_Mutation_p.R443Q|ABLIM3_uc003lqb.2_Missense_Mutation_p.R435Q|ABLIM3_uc003lqc.1_Missense_Mutation_p.R513Q|ABLIM3_uc003lqd.1_Missense_Mutation_p.R451Q|ABLIM3_uc003lqf.2_Missense_Mutation_p.R435Q|ABLIM3_uc003lqe.1_Missense_Mutation_p.R435Q	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3	546					axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCCCTCCCCGGAGCTCCACC	0.612													7	21					0	0	0.00308	0	0		A	148627430	A	A	148627430	3	1	215	1	0	0	0	0	1	0	0	0	96	1116	39	1	1703	1	ABLIM3	5	148627430	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	8000621	148627430	32287830	89	107270											
ATP10B	23120	broad.mit.edu	37	chr5	160029611	160029611	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgtagaggtagtacaccacCatcctggccaggcgcgagta	10	8	12	11	2	0	1	0	0	0	1	1	2	1	1	4	3	1	4	4	3	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr5:160029611C>G	uc003lym.1	-	21	4183	c.3336G>C	c.(3334-3336)ATG>ATC	p.M1112I	ATP10B_uc010jit.1_Missense_Mutation_p.M429I	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1112	Helical; (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGTACACCACCATCCTGGCCA	0.572													9	38					0	0	0.010729	0	0		G	160029611	G	G	160029611	3	3	215	1	0	0	0	0	1	0	0	0	1118	594	21	5	1073	5	ATP10B	5	160029611	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	11402181	160029611	20885649	90	107271											
DUSP22	56940	broad.mit.edu	37	chr6	311948	311948	+	Silent	SNP	A	C	C	1	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	tgtctgtccacgatagtgccAggcctatgttggaggtaaga	9	11	13	8	1	1	1	0	0	1	1	2	3	2	2	3	3	1	2	3	3	3	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:311948A>C	uc003msx.2	+	3	563	c.124A>C	c.(124-126)AGG>CGG	p.R42R	DUSP22_uc011dhn.1_Silent_p.R42R|DUSP22_uc003msy.1_5'UTR	NM_020185	NP_064570	Q9NRW4	DUS22_HUMAN	dual specificity phosphatase 22	42					apoptosis|cell proliferation|inactivation of MAPK activity|multicellular organismal development|positive regulation of JNK cascade|regulation of cell proliferation|transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(77;0.228)	Breast(5;0.0249)|all_hematologic(90;0.0489)		OV - Ovarian serous cystadenocarcinoma(45;0.0277)|BRCA - Breast invasive adenocarcinoma(62;0.0669)		CGATAGTGCCAGGCCTATGTT	0.502													27	37					0	0	0.003271	0	0		C	311948	C	C	311948	2	2	215	1	0	0	0	0	0	0	0	1	4827	179	7	5		5	DUSP22	6	311948	Silent	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08		311948	170803119	91	107272											
DSP	1832	broad.mit.edu	37	chr6	7574926	7574926	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gcactgctccaggctattctCcaaacagaagacatgttaaa	14	9	7	11	0	1	2	0	0	1	2	3	2	2	2	2	1	2	4	2	1	5	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:7574926C>A	uc003mxp.1	+	17	2613	c.2334C>A	c.(2332-2334)CTC>CTA	p.L778L	DSP_uc003mxq.1_Silent_p.L778L	NM_004415	NP_004406	P15924	DESP_HUMAN	desmoplakin isoform I	778	Globular 1.				cellular component disassembly involved in apoptosis|keratinocyte differentiation|peptide cross-linking	cornified envelope|cytoplasm|desmosome	protein binding, bridging|structural constituent of cytoskeleton			central_nervous_system(6)|ovary(2)|skin(1)	9	Ovarian(93;0.0584)	all_hematologic(90;0.236)		OV - Ovarian serous cystadenocarcinoma(45;0.000508)		AGGCTATTCTCCAAACAGAAG	0.453													48	157					1.00221e-16	1.1564e-16	0.01441	1	0		A	7574926	A	A	7574926	2	1	215	1	0	0	0	0	0	0	0	1	4787	842	30	5		5	DSP	6	7574926	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	7262978	7574926	163540141	92	107273											
GABBR1	2550	broad.mit.edu	37	chr6	29574171	29574171	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	gcccacatcccacacaccaaGccatgtattcatcttcctgg	10	9	5	17	0	2	0	1	0	1	0	4	0	4	0	5	1	1	1	5	1	2	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:29574171G>A	uc003nmt.3	-	19	2644	c.2308C>T	c.(2308-2310)CTT>TTT	p.L770F	GABBR1_uc003nmp.3_Missense_Mutation_p.L653F|GABBR1_uc003nms.3_Missense_Mutation_p.L653F|GABBR1_uc003nmu.3_Missense_Mutation_p.L708F|GABBR1_uc011dlr.1_Missense_Mutation_p.L593F	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	770	Helical; Name=5; (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	CACACACCAAGCCATGTATTC	0.547													76	95					0	0	0.01441	0	0		A	29574171	A	A	29574171	3	1	215	1	0	0	0	0	1	0	0	0	6169	971	34	2	597	2	GABBR1	6	29574171	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	21999245	29574171	141540896	93	107274											
HLA-E	3133	broad.mit.edu	37	chr6	30459040	30459040	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gcaggatggggagggccataCccaggacacggagctcgtgg	9	4	18	10	2	0	0	0	0	0	0	1	4	0	4	2	7	2	2	2	7	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:30459040C>G	uc003nqg.2	+	4	775	c.737C>G	c.(736-738)ACC>AGC	p.T246S	HLA-E_uc011dmg.1_RNA|HLA-E_uc011dmh.1_Missense_Mutation_p.T287S	NM_005516	NP_005507	P13747	HLAE_HUMAN	major histocompatibility complex, class I, E	246	Ig-like C1-type.|Alpha-3.|Extracellular (Potential).				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex	MHC class I receptor activity			central_nervous_system(4)|ovary(1)	5						GAGGGCCATACCCAGGACACG	0.632													89	108					0	0	0.01441	0	0		G	30459040	G	G	30459040	3	3	215	1	0	0	0	0	1	0	0	0	7226	507	18	5	751	5	HLA-E	6	30459040	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	884869	30459040	140656027	94	107275											
NCR3	259197	broad.mit.edu	37	chr6	31556854	31556854	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acaatcaggctcagcctcctGggactgggggaagcagatgt	10	7	14	10	0	2	1	2	0	0	1	3	3	3	3	2	4	2	2	2	4	2	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:31556854G>T	uc003nuv.2	-	4	860	c.596C>A	c.(595-597)CCA>CAA	p.P199Q	NCR3_uc003nuw.2_3'UTR	NM_147130	NP_667341	O14931	NCTR3_HUMAN	natural cytotoxicity triggering receptor 3	199	Cytoplasmic (Potential).				cell recognition|immune response|inflammatory response|positive regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane	receptor activity			ovary(1)|skin(1)	2						TCAGCCTCCTGGGACTGGGGG	0.597													16	39					0.00074312	0.000772218	0.006122	1	0		T	31556854	T	T	31556854	3	4	215	1	0	0	0	0	1	0	0	0	10258	1348	47	5	13	5	NCR3	6	31556854	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1097814	31556854	139558213	95	107276											
TAP2	6891	broad.mit.edu	37	chr6	32782949	32782949	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cagcatctggctgccccagcTtggtcaatgccacaaacatc	10	8	8	15	0	2	0	1	0	1	0	3	0	2	0	3	2	5	3	3	2	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:32782949T>A	uc011dqf.1	-	13	2176	c.2054A>T	c.(2053-2055)AAG>ATG	p.K685M	HLA-DOB_uc003oca.2_Missense_Mutation_p.K78M|HLA-DOB_uc011dqg.1_Missense_Mutation_p.K78M	NM_018833	NP_061313	Q03519	TAP2_HUMAN	transporter 2, ATP-binding cassette, sub-family	Error:Variant_position_missing_in_Q03519_after_alignment					antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-dependent|antigen processing and presentation of endogenous peptide antigen via MHC class Ib via ER pathway, TAP-dependent|antigen processing and presentation of exogenous protein antigen via MHC class Ib, TAP-dependent|cytosol to ER transport|intracellular transport of viral proteins in host cell|peptide antigen transport|positive regulation of antigen processing and presentation of peptide antigen via MHC class I|positive regulation of T cell mediated cytotoxicity	nucleus|plasma membrane|TAP complex	ATP binding|MHC class I protein binding|oligopeptide-transporting ATPase activity|peptide antigen binding|peptide antigen-transporting ATPase activity|TAP1 binding|TAP2 binding|tapasin binding				0						CTGCCCCAGCTTGGTCAATGC	0.527													42	92					0	0	0.013114	0	0		A	32782949	A	A	32782949	3	1	215	1	0	0	0	0	1	0	0	0	15576	1609	56	5		5	TAP2	6	32782949	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	1226095	32782949	138332118	96	107277											
ITPR3	3710	broad.mit.edu	37	chr6	33652701	33652701	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggccatccacctgctggatgGtggcaacacagagatccagg	10	6	13	12	0	0	1	0	0	0	1	2	3	2	2	4	5	2	2	4	5	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:33652701G>C	uc011drk.1	+	39	5507	c.5288G>C	c.(5287-5289)GGT>GCT	p.G1763A	ITPR3_uc003oey.2_5'Flank	NM_002224	NP_002215	Q14573	ITPR3_HUMAN	inositol 1,4,5-triphosphate receptor, type 3	1763	Cytoplasmic (Potential).				activation of phospholipase C activity|calcium ion transport into cytosol|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|nerve growth factor receptor signaling pathway|platelet activation|protein heterooligomerization|protein homooligomerization|regulation of insulin secretion|response to calcium ion	apical part of cell|brush border|endoplasmic reticulum membrane|integral to plasma membrane|myelin sheath|neuronal cell body|nuclear outer membrane|platelet dense tubular network membrane	inositol 1,3,4,5 tetrakisphosphate binding|inositol 1,4,5 trisphosphate binding|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|inositol hexakisphosphate binding|intracellular ligand-gated calcium channel activity|protein binding			ovary(6)|lung(5)|central_nervous_system(5)|breast(2)|kidney(1)	19						CTGCTGGATGGTGGCAACACA	0.607													17	113					0	0	0.007413	0	0		C	33652701	C	C	33652701	3	2	215	1	0	0	0	0	1	0	0	0	7938	1261	44	5	5442	5	ITPR3	6	33652701	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	869752	33652701	137462366	97	107278											
TCP11	6954	broad.mit.edu	37	chr6	35088008	35088022	+	In_Frame_Del	DEL	AAAACACTGCCGGAG	-	-																															caaattggggtgagccaaacAaaacactgccggagaaacta																								rs2234046	byFrequency	TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:35088008_35088022delAAAACACTGCCGGAG	uc003okd.2	-	8	1249_1263	c.1068_1082delCTCCGGCAGTGTTTT	c.(1066-1083)TTCTCCGGCAGTGTTTTG>TTG	p.FSGSV356del	TCP11_uc003ojz.1_In_Frame_Del_p.FSGSV281del|TCP11_uc003oka.2_In_Frame_Del_p.FSGSV281del|TCP11_uc003okb.2_In_Frame_Del_p.FSGSV280del|TCP11_uc003okc.2_In_Frame_Del_p.FSGSV280del|TCP11_uc011dsu.1_In_Frame_Del_p.FSGSV338del|TCP11_uc011dsv.1_In_Frame_Del_p.FSGSV305del|TCP11_uc011dsw.1_In_Frame_Del_p.FSGSV310del	NM_001093728	NP_001087197	Q8WWU5	TCP11_HUMAN	t-complex 11 isoform 1	343_347	Helical; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				ovary(3)|skin(2)	5						TGAGCCAAACAAAACACTGCCGGAGAAACTACTGG	0.493													29	59	---	---	---	---						.	-	35088022	-	-	35088008	7	5	215	1	0	1	0	1	0	0	0	0	15738	131	5	0	480	0	TCP11	6	35088008	In_Frame_Del	DEL	AAAACACTGCCGGAG	TCGA-HU-A4H5-01A-21D-A25D-08	1435307	35088008	136027059	98	107279											
DEFB110	245913	broad.mit.edu	37	chr6	49976974	49976974	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatctatactttggttcaaaAttgcttctggctgcaatcaa	12	15	6	8	0	4	0	2	0	2	0	4	0	4	0	0	2	3	4	0	2	7	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:49976974A>G	uc011dwr.1	-	2	112	c.66T>C	c.(64-66)AAT>AAC	p.N22N		NM_001037728	NP_001032817	Q30KQ9	DB110_HUMAN	beta-defensin 110 isoform b	22					defense response to bacterium	extracellular region				ovary(1)	1	Lung NSC(77;0.042)					TTGGTTCAAAATTGCTTCTGG	0.303													16	35					0	0	0.004007	0	0		G	49976974	G	G	49976974	2	3	215	1	0	0	0	0	0	0	0	1	4405	98	4	3		3	DEFB110	6	49976974	Silent	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	14888966	49976974	121138093	99	107280											
ICK	22858	broad.mit.edu	37	chr6	52905948	52905948	+	Silent	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	acttactttttaatagcgatCagctccccagactcaatgct	11	13	5	12	1	2	1	2	0	0	1	3	2	3	1	2	0	4	2	2	0	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:52905948C>A	uc003pbh.2	-	3	577	c.87G>T	c.(85-87)CTG>CTT	p.L29L	ICK_uc003pbi.2_Silent_p.L29L|ICK_uc003pbj.2_Silent_p.L29L	NM_016513	NP_057597	Q9UPZ9	ICK_HUMAN	intestinal cell kinase	29	Protein kinase.				intracellular protein kinase cascade|multicellular organismal development	cytosol|nucleus	ATP binding|cyclin-dependent protein kinase activity|magnesium ion binding			ovary(1)|large_intestine(1)|lung(1)|kidney(1)|central_nervous_system(1)	5	Lung NSC(77;0.103)					TAATAGCGATCAGCTCCCCAG	0.468													44	108					1.21353e-23	1.42891e-23	0.01441	1	0		A	52905948	A	A	52905948	2	1	215	1	0	0	0	0	0	0	0	1	7500	813	29	5		5	ICK	6	52905948	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	2928974	52905948	118209119	100	107281											
PRSS35	167681	broad.mit.edu	37	chr6	84234250	84234250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagacaaaaagaattggaagCgcaaaatcattgcggtctac	17	7	9	8	2	2	2	1	0	1	2	2	3	2	3	0	2	3	1	0	2	7	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:84234250C>T	uc003pjz.2	+	2	1253	c.1090C>T	c.(1090-1092)CGC>TGC	p.R364C	PRSS35_uc010kbm.2_Missense_Mutation_p.R364C	NM_153362	NP_699193	Q8N3Z0	PRS35_HUMAN	protease, serine, 35 precursor	364	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1		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)		GAATTGGAAGCGCAAAATCAT	0.512													46	27					0	0	0.01441	0	0		T	84234250	T	T	84234250	3	4	215	1	0	0	0	0	1	0	0	0	12646	768	27	1	1092	1	PRSS35	6	84234250	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	31328302	84234250	86880817	101	107282											
BACH2	60468	broad.mit.edu	37	chr6	90661069	90661069	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccggaatgtgcttgcaaaAcctgaggtactgtgtgatga	10	11	12	8	1	0	3	0	3	0	0	1	4	1	4	2	2	4	3	2	2	4	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:90661069A>C	uc011eab.1	-	7	1565	c.756T>G	c.(754-756)GGT>GGG	p.G252G	BACH2_uc003pnw.2_Silent_p.G252G|BACH2_uc010kch.2_Silent_p.G252G	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	252						nucleus	protein dimerization activity|sequence-specific DNA binding			ovary(3)|pancreas(1)|lung(1)|skin(1)	6		all_cancers(76;7.37e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.0063)		BRCA - Breast invasive adenocarcinoma(108;0.0799)		TGCTTGCAAAACCTGAGGTAC	0.493													66	38					0	0	0.01441	0	0		C	90661069	C	C	90661069	2	2	215	1	0	0	0	0	0	0	0	1	1285	30	2	5		5	BACH2	6	90661069	Silent	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	6426819	90661069	80453998	102	107283											
LATS1	9113	broad.mit.edu	37	chr6	149983002	149983002	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	attatatgggtagccattgtCatcaaaaaaccttcggaagg	14	11	9	7	1	2	0	2	0	0	0	3	1	2	1	2	3	2	1	2	3	7	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:149983002C>A	uc003qmu.1	-	8	3804	c.3256G>T	c.(3256-3258)GAC>TAC	p.D1086Y	LATS1_uc010kif.1_Missense_Mutation_p.D981Y	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	1086	AGC-kinase C-terminal.				cell division|cytoplasmic sequestering of protein|G2/M transition of mitotic cell cycle|hippo signaling cascade|hormone-mediated signaling pathway|mitosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|positive regulation of peptidyl-serine phosphorylation|regulation of actin filament polymerization|sister chromatid segregation	microtubule organizing center|spindle pole	ATP binding|magnesium ion binding|protein kinase binding|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6		Ovarian(120;0.0164)		OV - Ovarian serous cystadenocarcinoma(155;6.93e-13)|GBM - Glioblastoma multiforme(68;0.116)		TAGCCATTGTCATCAAAAAAC	0.373													14	121					6.31663e-08	6.7889e-08	0.003163	1	0		A	149983002	A	A	149983002	3	1	215	1	0	0	0	0	1	0	0	0	8662	826	29	5	140	5	LATS1	6	149983002	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	59321933	149983002	21132065	103	107284											
SYNE1	23345	broad.mit.edu	37	chr6	152653023	152653023	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagctgtactctctgcatcaGatctgaaaatacatggaaag	14	10	8	9	0	3	2	1	1	2	1	4	3	3	3	0	1	4	3	0	1	5	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:152653023G>A	uc010kiw.2	-	78	13399	c.12797C>T	c.(12796-12798)TCT>TTT	p.S4266F	SYNE1_uc003qot.3_Missense_Mutation_p.S4195F|SYNE1_uc003qou.3_Missense_Mutation_p.S4266F|SYNE1_uc010kiz.2_Missense_Mutation_p.S21F	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4266	Cytoplasmic (Potential).|Spectrin 12.				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		CTCTGCATCAGATCTGAAAAT	0.348										HNSCC(10;0.0054)			21	95					0	0	0.004656	0	0		A	152653023	A	A	152653023	3	1	215	1	0	0	0	0	1	0	0	0	15470	942	33	4	13945	4	SYNE1	6	152653023	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2670021	152653023	18462044	104	107285											
VIP	7432	broad.mit.edu	37	chr6	153073373	153073373	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctcttctcagtgtgctcttcTcacagacttcggcatggcct	5	14	8	14	1	4	1	2	0	4	1	7	1	4	1	1	2	1	2	1	2	0	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:153073373T>A	uc003qpe.2	+	2	233	c.61T>A	c.(61-63)TCA>ACA	p.S21T	VIP_uc003qpf.2_Missense_Mutation_p.S21T|VIP_uc010kjd.2_Missense_Mutation_p.S21T	NM_003381	NP_003372	P01282	VIP_HUMAN	vasoactive intestinal peptide isoform 1	21					body fluid secretion|G-protein coupled receptor protein signaling pathway|positive regulation of cell proliferation	extracellular region	neuropeptide hormone activity				0		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;4.5e-11)|BRCA - Breast invasive adenocarcinoma(81;0.144)		TGTGCTCTTCTCACAGACTTC	0.473													16	81					0	0	0.006122	0	0		A	153073373	A	A	153073373	3	1	215	1	0	0	0	0	1	0	0	0	17193	1551	54	5	63	5	VIP	6	153073373	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	420350	153073373	18041694	105	107286											
TULP4	56995	broad.mit.edu	37	chr6	158923411	158923411	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggtgtgccggccccgcaccCggatgctgtgctcccagaac	6	6	13	16	3	0	1	0	0	0	1	1	2	1	2	5	3	4	3	5	3	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr6:158923411C>A	uc003qrf.2	+	13	4073	c.2716C>A	c.(2716-2718)CGG>AGG	p.R906R	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	906					intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		GCCCCGCACCCGGATGCTGTG	0.652													50	127					3.68337e-26	4.39711e-26	0.01441	1	0		A	158923411	A	A	158923411	2	1	215	1	0	0	0	0	0	0	0	1	16802	643	23	5		5	TULP4	6	158923411	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	5850038	158923411	12191656	106	107287											
CARD11	84433	broad.mit.edu	37	chr7	2962848	2962848	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agtgcacgaagctccctcgcGcgttgccccccagcagggtg	6	6	13	16	4	0	0	0	0	0	0	2	1	1	0	4	1	4	4	4	1	1	1	rs41493047	byFrequency	TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:2962848G>A	uc003smv.2	-	16	2464	c.2060C>T	c.(2059-2061)GCG>GTG	p.A687V		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	687	PDZ.				positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GCTCCCTCGCGCGTTGCCCCC	0.697			Mis		DLBCL								11	70					0	0	0.001855	0	0		A	2962848	A	A	2962848	3	1	215	1	0	0	0	0	1	0	0	0	2648	1087	38	1	1444	1	CARD11	7	2962848	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08		2962848	156175815	107	107288											
MMD2	221938	broad.mit.edu	37	chr7	4949532	4949532	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	catggagaggatgaccagggCggggaagaagcccattacga	13	4	16	8	2	0	3	0	1	0	2	0	7	0	5	2	5	2	0	2	5	3	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:4949532C>T	uc003sno.3	-	6	785	c.589G>A	c.(589-591)GCC>ACC	p.A197T	MMD2_uc003snl.1_RNA|MMD2_uc003snn.3_Missense_Mutation_p.A173T|MMD2_uc010ksq.2_Missense_Mutation_p.A173T	NM_001100600	NP_001094070	Q8IY49	PAQRA_HUMAN	monocyte to macrophage	197	Helical; (Potential).					integral to membrane	receptor activity			central_nervous_system(1)	1		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.097)|OV - Ovarian serous cystadenocarcinoma(56;3.4e-14)		ATGACCAGGGCGGGGAAGAAG	0.478													28	13					0	0	0.004656	0	0		T	4949532	T	T	4949532	3	4	215	1	0	0	0	0	1	0	0	0	9662	768	27	1	231	1	MMD2	7	4949532	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1986684	4949532	154189131	108	107289											
FSCN1	6624	broad.mit.edu	37	chr7	5632769	5632769	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcctgcgcagccacctgggcCgctacctggcggcggacaag	6	4	15	16	4	0	0	0	0	0	0	0	1	0	1	5	4	3	2	5	4	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:5632769C>T	uc003sou.2	+	1	316	c.202C>T	c.(202-204)CGC>TGC	p.R68C		NM_003088	NP_003079	Q16658	FSCN1_HUMAN	fascin 1	68					actin filament bundle assembly|cell migration|cell proliferation	cell junction|cytoplasm|filopodium|invadopodium|stress fiber	actin filament binding|drug binding|protein binding, bridging			ovary(1)	1		Ovarian(82;0.0694)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;1.21e-13)		CCACCTGGGCCGCTACCTGGC	0.711													9	11					0	0	0.006214	0	0		T	5632769	T	T	5632769	3	4	215	1	0	0	0	0	1	0	0	0	6081	652	23	1	204	1	FSCN1	7	5632769	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	683237	5632769	153505894	109	107290											
HDAC9	9734	broad.mit.edu	37	chr7	18688166	18688166	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcattagaggtacccacaaaTtgccccgtcacagacccctg	11	7	8	15	1	1	2	1	0	0	2	1	2	1	2	5	1	2	2	5	1	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:18688166T>C	uc003suh.2	+	10	1359	c.1318T>C	c.(1318-1320)TTG>CTG	p.L440L	HDAC9_uc003sue.2_Silent_p.L440L|HDAC9_uc011jyd.1_Silent_p.L440L|HDAC9_uc003sui.2_Silent_p.L443L|HDAC9_uc003suj.2_Silent_p.L399L|HDAC9_uc011jya.1_Silent_p.L437L|HDAC9_uc003sua.1_Silent_p.L418L|HDAC9_uc011jyb.1_Silent_p.L396L|HDAC9_uc003sud.1_Silent_p.L440L|HDAC9_uc011jyc.1_Silent_p.L399L|HDAC9_uc003suf.1_Silent_p.L471L|HDAC9_uc010kud.1_Silent_p.L443L|HDAC9_uc011jye.1_Silent_p.L412L|HDAC9_uc011jyf.1_Silent_p.L363L|HDAC9_uc010kue.1_Silent_p.L183L	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	440					B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	TACCCACAAATTGCCCCGTCA	0.478													49	75					0	0	0.01441	0	0		C	18688166	C	C	18688166	2	2	215	1	0	0	0	0	0	0	0	1	7030	1490	52	3		3	HDAC9	7	18688166	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	13055397	18688166	140450497	110	107291											
DNAH11	8701	broad.mit.edu	37	chr7	21775375	21775375	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagtgggaaaaacagtctttGtaggtgacacattggcaagt	13	10	13	5	0	1	1	0	1	1	0	1	3	1	2	0	3	1	2	0	3	4	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:21775375G>T	uc003svc.2	+	47	7610	c.7579G>T	c.(7579-7581)GTA>TTA	p.V2527L		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2527	AAA 3 (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						AACAGTCTTTGTAGGTGACAC	0.438									Kartagener_syndrome				29	43					7.63505e-26	9.08307e-26	0.012213	1	0		T	21775375	T	T	21775375	3	4	215	1	0	0	0	0	1	0	0	0	4605	1377	48	5	7762	5	DNAH11	7	21775375	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	3087209	21775375	137363288	111	107292											
POMZP3	22932	broad.mit.edu	37	chr7	76254944	76254944	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtacagtctcctttgcacatGggtctggggcattacttgat	7	14	11	9	0	2	1	0	1	2	0	3	1	2	1	1	3	3	3	1	3	2	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:76254944G>C	uc003uft.2	-	3	869	c.122C>G	c.(121-123)CCA>CGA	p.P41R	uc003ufs.1_Intron|POMZP3_uc003ufu.2_Missense_Mutation_p.P41R|POMZP3_uc003ufv.2_RNA|POMZP3_uc011kgm.1_RNA	NM_012230	NP_036362	Q6PJE2	POZP3_HUMAN	POMZP3 fusion protein isoform 1	41											0		Myeloproliferative disorder(862;0.204)				CTTTGCACATGGGTCTGGGGC	0.418													46	251					0	0	0.01441	0	0		C	76254944	C	C	76254944	3	2	215	1	0	0	0	0	1	0	0	0	12266	1348	47	5	464	5	POMZP3	7	76254944	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	54479569	76254944	82883719	112	107293											
FGL2	10875	broad.mit.edu	37	chr7	76828646	76828646	+	Silent	SNP	A	G	G	1	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	ttcagcttctccaggcgaccAtgaagtacattgatctcctc	9	12	7	13	1	3	2	1	2	2	0	6	3	3	2	3	1	2	2	3	1	2	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:76828646A>G	uc003ugb.2	-	1	505	c.465T>C	c.(463-465)CAT>CAC	p.H155H	CCDC146_uc003ufz.1_Intron|CCDC146_uc003uga.2_Intron	NM_006682	NP_006673	Q14314	FGL2_HUMAN	fibrinogen-like 2 precursor	155	Potential.				signal transduction	fibrinogen complex	receptor binding			skin(2)	2						CCAGGCGACCATGAAGTACAT	0.393													63	44					0	0	0.01441	0	0		G	76828646	G	G	76828646	2	3	215	1	0	0	0	0	0	0	0	1	5887	214	8	3		3	FGL2	7	76828646	Silent	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	573702	76828646	82310017	113	107294											
PCLO	27445	broad.mit.edu	37	chr7	82545735	82545735	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtttggggagcagttcttGgtcgctcaatgccatgctga	7	12	13	9	1	2	1	1	1	1	0	3	2	2	2	1	3	3	5	1	3	1	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:82545735G>C	uc003uhx.2	-	7	11856	c.11567C>G	c.(11566-11568)CCA>CGA	p.P3856R	PCLO_uc003uhv.2_Missense_Mutation_p.P3856R|PCLO_uc010lec.2_Missense_Mutation_p.P821R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3787					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGCAGTTCTTGGTCGCTCAAT	0.468													58	195					0	0	0.01441	0	0		C	82545735	C	C	82545735	3	2	215	1	0	0	0	0	1	0	0	0	11602	1348	47	5	3954	5	PCLO	7	82545735	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	5717089	82545735	76592928	114	107295											
PCLO	27445	broad.mit.edu	37	chr7	82585418	82585418	+	Silent	SNP	T	G	G	0	1	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	cctgcatcttcatcaatgctTgtgctactttttcgagtcag	7	16	7	11	1	4	0	3	0	1	0	5	1	4	0	1	0	4	3	1	0	2	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:82585418T>G	uc003uhx.2	-	5	5140	c.4851A>C	c.(4849-4851)ACA>ACC	p.T1617T	PCLO_uc003uhv.2_Silent_p.T1617T	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1548					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						CATCAATGCTTGTGCTACTTT	0.408													55	174					0	0	0.01441	0	0		G	82585418	G	G	82585418	2	3	215	1	0	0	0	0	0	0	0	1	11602	1799	63	5		5	PCLO	7	82585418	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	39683	82585418	76553245	115	107296											
SAMD9L	219285	broad.mit.edu	37	chr7	92763387	92763387	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atccacgggcgggcaaaaacCttcttgatgaccgagtcacc	11	7	10	13	3	2	2	1	2	1	0	3	3	3	2	4	2	1	1	4	2	2	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:92763387C>T	uc003umh.1	-	5	3114	c.1898G>A	c.(1897-1899)AGG>AAG	p.R633K	SAMD9L_uc003umj.1_Missense_Mutation_p.R633K|SAMD9L_uc003umi.1_Missense_Mutation_p.R633K|SAMD9L_uc010lfb.1_Missense_Mutation_p.R633K|SAMD9L_uc003umk.1_Missense_Mutation_p.R633K|SAMD9L_uc010lfc.1_Missense_Mutation_p.R633K|SAMD9L_uc010lfd.1_Missense_Mutation_p.R633K|SAMD9L_uc011khx.1_Intron	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	633										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			GGGCAAAAACCTTCTTGATGA	0.398													26	98					0	0	0.005443	0	0		T	92763387	T	T	92763387	3	4	215	1	0	0	0	0	1	0	0	0	13852	681	24	4	2860	4	SAMD9L	7	92763387	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	10177969	92763387	66375276	116	107297											
NPTX2	4885	broad.mit.edu	37	chr7	98256551	98256551	+	Silent	SNP	C	A	A	0	0	0	1	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	acctggacgacacgggatggCatgtgggaggcattccagga	10	6	16	9	2	0	0	0	0	0	0	1	5	1	4	2	6	0	2	2	6	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:98256551C>A	uc003upl.2	+	4	1140	c.963C>A	c.(961-963)GGC>GGA	p.G321G		NM_002523	NP_002514	P47972	NPTX2_HUMAN	neuronal pentraxin II precursor	321	Pentaxin.				synaptic transmission	extracellular region	metal ion binding|sugar binding			central_nervous_system(2)|skin(1)	3	all_cancers(62;2.28e-09)|all_epithelial(64;4.86e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0128)|all_lung(186;0.0142)		STAD - Stomach adenocarcinoma(171;0.215)			CACGGGATGGCATGTGGGAGG	0.622													16	61					9.16793e-09	9.91516e-09	0.00499	1	0		A	98256551	A	A	98256551	2	1	215	1	0	0	0	0	0	0	0	1	10622	697	25	5		5	NPTX2	7	98256551	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	5493164	98256551	60882112	117	107298											
PLOD3	8985	broad.mit.edu	37	chr7	100859255	100859255	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tcgtcatcatccttgtacttCcactggcgcacgatttggtg	6	14	9	12	3	2	0	2	0	0	0	5	1	4	0	2	2	1	2	2	2	1	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:100859255C>T	uc003uyd.2	-	5	1005	c.549G>A	c.(547-549)TGG>TGA	p.W183*	ZNHIT1_uc003uye.2_5'Flank|ZNHIT1_uc003uyf.2_5'Flank	NM_001084	NP_001075	O60568	PLOD3_HUMAN	procollagen-lysine, 2-oxoglutarate 5-dioxygenase	183					protein modification process	rough endoplasmic reticulum membrane	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-lysine 5-dioxygenase activity|protein binding			ovary(1)|skin(1)	2	Lung NSC(181;0.168)|all_lung(186;0.215)				Succinic acid(DB00139)|Vitamin C(DB00126)	CCTTGTACTTCCACTGGCGCA	0.612													9	69					0	0	0.010729	0	0		T	100859255	T	T	100859255	4	4	215	1	0	0	0	0	0	1	0	0	12122	856	30	4	1727	4	PLOD3	7	100859255	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	2602704	100859255	58279408	118	107299											
LHFPL3	375612	broad.mit.edu	37	chr7	103969641	103969641	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcaacacggccactgtgtaCaagatatgtgcctggatgca	11	9	11	10	1	0	1	0	0	0	1	0	2	0	2	2	2	5	3	2	2	4	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:103969641C>A	uc003vce.2	+	1	538	c.414C>A	c.(412-414)TAC>TAA	p.Y138*	LHFPL3_uc003vcf.2_Nonsense_Mutation_p.Y138*	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3	124						integral to membrane					0						CCACTGTGTACAAGATATGTG	0.607													21	79					2.89027e-11	3.21659e-11	0.014323	1	0		A	103969641	A	A	103969641	4	1	215	1	0	0	0	0	0	1	0	0	8782	489	17	5	416	5	LHFPL3	7	103969641	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	3110386	103969641	55169022	119	107300											
KIAA1549	57670	broad.mit.edu	37	chr7	138566147	138566147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	taataaccttcctctgtgacGaacattcttggaagggatct	11	13	8	9	1	3	1	0	1	3	0	4	4	4	3	2	2	2	0	2	2	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:138566147G>A	uc011kql.1	-	11	4265	c.4216C>T	c.(4216-4218)CGT>TGT	p.R1406C	KIAA1549_uc011kqi.1_Missense_Mutation_p.R190C|KIAA1549_uc003vuk.3_Missense_Mutation_p.R1356C|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1406C|KIAA1549_uc011kqk.1_Missense_Mutation_p.R190C	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1406						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						CCTCTGTGACGAACATTCTTG	0.502			O	BRAF	pilocytic astrocytoma								85	27					0	0	0.01441	0	0		A	138566147	A	A	138566147	3	1	215	1	0	0	0	0	1	0	0	0	8260	1058	37	1	1676	1	KIAA1549	7	138566147	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	34596506	138566147	20572516	120	107301											
TAS2R4	50832	broad.mit.edu	37	chr7	141478478	141478478	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttatgctgggactatttctgGtgaacaccatctacttcgtc	8	15	8	10	1	2	1	0	1	2	0	4	2	2	2	1	2	3	1	1	2	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:141478478G>A	uc003vwq.1	+	1	190	c.190G>A	c.(190-192)GTG>ATG	p.V64M		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	64	Helical; Name=2; (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		ACTATTTCTGGTGAACACCAT	0.433													33	165					0	0	0.004289	0	0		A	141478478	A	A	141478478	3	1	215	1	0	0	0	0	1	0	0	0	15602	1261	44	4	192	4	TAS2R4	7	141478478	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2912331	141478478	17660185	121	107302											
EPHB6	2051	broad.mit.edu	37	chr7	142566048	142566048	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acctacgaggacccctgtcaGgccatccgagaacttgcccg	9	6	10	16	3	1	1	1	0	0	1	2	4	2	2	6	2	3	0	6	2	2	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:142566048G>T	uc011kst.1	+	14	2755	c.1968G>T	c.(1966-1968)CAG>CAT	p.Q656H	EPHB6_uc011ksu.1_Missense_Mutation_p.Q656H|EPHB6_uc003wbs.2_Missense_Mutation_p.Q364H|EPHB6_uc003wbt.2_Missense_Mutation_p.Q130H|EPHB6_uc003wbu.2_Missense_Mutation_p.Q364H|EPHB6_uc003wbv.2_Missense_Mutation_p.Q40H	NM_004445	NP_004436	O15197	EPHB6_HUMAN	ephrin receptor EphB6 precursor	656	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(8)|large_intestine(4)|central_nervous_system(3)|stomach(1)|skin(1)|ovary(1)|pancreas(1)	19	Melanoma(164;0.059)					ACCCCTGTCAGGCCATCCGAG	0.557													25	92					3.6726e-16	4.22349e-16	0.003954	1	0		T	142566048	T	T	142566048	3	4	215	1	0	0	0	0	1	0	0	0	5186	991	35	5	2006	5	EPHB6	7	142566048	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1087570	142566048	16572615	122	107303											
TRPV6	55503	broad.mit.edu	37	chr7	142573524	142573524	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gccatacctcccgcttcttgGtggtgatgataagttccagc	7	12	10	12	1	1	2	0	2	1	0	3	2	3	2	4	2	2	2	4	2	2	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:142573524G>A	uc003wbx.1	-	7	1112	c.896C>T	c.(895-897)ACC>ATC	p.T299I	TRPV6_uc003wbw.1_Missense_Mutation_p.T85I|TRPV6_uc010lou.1_Missense_Mutation_p.T170I	NM_018646	NP_061116	Q9H1D0	TRPV6_HUMAN	transient receptor potential cation channel,	299	Cytoplasmic (Potential).				regulation of calcium ion-dependent exocytosis	integral to plasma membrane	calcium channel activity|calmodulin binding			ovary(2)	2	Melanoma(164;0.059)					CCGCTTCTTGGTGGTGATGAT	0.572													10	121					0	0	0.008291	0	0		A	142573524	A	A	142573524	3	1	215	1	0	0	0	0	1	0	0	0	16626	1261	44	4	1317	4	TRPV6	7	142573524	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	7476	142573524	16565139	123	107304											
CNTNAP2	26047	broad.mit.edu	37	chr7	147183113	147183113	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttgtgatgagacaggatacaGtggggccacctgccacaact	11	8	12	10	0	0	2	0	2	0	1	0	4	0	3	3	3	3	0	3	3	2	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:147183113G>A	uc003weu.1	+	11	2273	c.1757G>A	c.(1756-1758)AGT>AAT	p.S586N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	586	EGF-like 1.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			ACAGGATACAGTGGGGCCACC	0.463										HNSCC(39;0.1)			19	63					0	0	0.007413	0	0		A	147183113	A	A	147183113	3	1	215	1	0	0	0	0	1	0	0	0	3650	1029	36	4	1799	4	CNTNAP2	7	147183113	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	4609589	147183113	11955550	124	107305											
EZH2	2146	broad.mit.edu	37	chr7	148543680	148543680	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaattttctgacgattggaaCtaaacatactcttaaaaaaa	19	12	4	6	1	2	1	0	1	2	0	2	3	2	2	0	1	3	0	0	1	9	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:148543680C>A	uc003wfd.1	-	3	294	c.128G>T	c.(127-129)AGT>ATT	p.S43I	EZH2_uc011kug.1_Missense_Mutation_p.S43I|EZH2_uc003wfb.1_Missense_Mutation_p.S43I|EZH2_uc003wfc.1_Missense_Mutation_p.S43I|EZH2_uc011kuh.1_Missense_Mutation_p.S43I|EZH2_uc011kui.1_Missense_Mutation_p.S43I|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	43	Interaction with DNMT1, DNMT3A and DNMT3B.|Interaction with EED (By similarity).				negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding			haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			ACGATTGGAACTAAACATACT	0.353			Mis		DLBCL								13	5					4.3838e-07	4.65357e-07	0.001855	1	0		A	148543680	A	A	148543680	3	1	215	1	0	0	0	0	1	0	0	0	5342	565	20	5	2199	5	EZH2	7	148543680	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1360567	148543680	10594983	125	107306											
SSPO	23145	broad.mit.edu	37	chr7	149474038	149474038	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtgcagacctccagaaacccGgcctgccaagtggaaccgga	11	4	12	14	2	0	2	0	0	0	2	1	4	1	4	6	3	4	1	6	3	3	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:149474038G>C	uc010lpk.2	+	3	248	c.248G>C	c.(247-249)CGG>CCG	p.R83P	SSPO_uc010lpl.1_Intron	NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	83	EMI.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCAGAAACCCGGCCTGCCAAG	0.632													13	54					0	0	0.003163	0	0		C	149474038	C	C	149474038	3	2	215	1	0	0	0	0	1	0	0	0	15214	1116	39	5	258	5	SSPO	7	149474038	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	930358	149474038	9664625	126	107307											
EN2	2020	broad.mit.edu	37	chr7	155255080	155255080	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acccaggtcccaggtctcgaAaaccaaagaagaagaacccg	16	3	9	13	2	1	3	0	0	1	3	3	4	2	3	4	2	2	0	4	2	6	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr7:155255080A>G	uc003wmb.2	+	2	949	c.700A>G	c.(700-702)AAA>GAA	p.K234E		NM_001427	NP_001418	P19622	HME2_HUMAN	engrailed homeobox 2	234						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1	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)		CAGGTCTCGAAAACCAAAGAA	0.512													31	115					0	0	0.003755	0	0		G	155255080	G	G	155255080	3	3	215	1	0	0	0	0	1	0	0	0	5118	15	1	3	706	3	EN2	7	155255080	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	5781042	155255080	3883583	127	107308											
SGK223	157285	broad.mit.edu	37	chr8	8234613	8234613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggccttggccctgggcagCagctgcatgttctatcttgg	4	12	13	12	0	2	0	0	0	2	0	2	0	2	0	2	4	3	5	2	4	1	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:8234613C>T	uc003wsh.3	-	2	1306	c.1306G>A	c.(1306-1308)GCT>ACT	p.A436T		NM_001080826	NP_001074295	Q86YV5	SG223_HUMAN	pragmin	436	Poly-Ala.						ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CCCTGGGCAGCAGCTGCATGT	0.607													34	75					0	0	0.005524	0	0		T	8234613	T	T	8234613	3	4	215	1	0	0	0	0	1	0	0	0	14235	710	25	2	2918	2	SGK223	8	8234613	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		8234613	138129409	128	107309											
GFRA2	2675	broad.mit.edu	37	chr8	21560414	21560414	+	Missense_Mutation	SNP	T	A	A	0	1	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	tcttctccacccgaggggccTgggtggcctggaacgagggg	5	7	17	12	2	2	0	0	0	2	0	3	3	2	1	4	7	1	0	4	7	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:21560414T>A	uc003wzu.1	-	7	1796	c.1121A>T	c.(1120-1122)CAG>CTG	p.Q374L	GFRA2_uc003wzv.1_Missense_Mutation_p.Q269L|GFRA2_uc003wzw.1_Missense_Mutation_p.Q241L	NM_001495	NP_001486	O00451	GFRA2_HUMAN	GDNF family receptor alpha 2 isoform a	374						anchored to membrane|extrinsic to membrane|plasma membrane	glial cell-derived neurotrophic factor receptor activity				0				Colorectal(74;0.0189)|COAD - Colon adenocarcinoma(73;0.0727)		CCGAGGGGCCTGGGTGGCCTG	0.627													14	26					0	0	0.00245	0	0		A	21560414	A	A	21560414	3	1	215	1	0	0	0	0	1	0	0	0	6363	1580	55	5	285	5	GFRA2	8	21560414	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	13325801	21560414	124803608	129	107310											
FGF17	8822	broad.mit.edu	37	chr8	21905563	21905563	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggcacgagggctggttcatgGccttcacgcggcaggggcgg	5	6	19	11	4	2	0	2	0	0	0	2	1	2	0	1	8	0	4	1	8	0	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:21905563G>A	uc003xag.2	+	5	466	c.454G>A	c.(454-456)GCC>ACC	p.A152T	FGF17_uc003xah.2_Missense_Mutation_p.A141T|FGF17_uc003xai.2_Missense_Mutation_p.A175T	NM_003867	NP_003858	O60258	FGF17_HUMAN	fibroblast growth factor 17 precursor	152					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|nervous system development	extracellular space	growth factor activity|type 1 fibroblast growth factor receptor binding|type 2 fibroblast growth factor receptor binding				0				Colorectal(74;8.48e-05)|READ - Rectum adenocarcinoma(5;0.0276)|COAD - Colon adenocarcinoma(73;0.0618)		CTGGTTCATGGCCTTCACGCG	0.657													8	26					0	0	0.00308	0	0		A	21905563	A	A	21905563	3	1	215	1	0	0	0	0	1	0	0	0	5859	1203	42	2	472	2	FGF17	8	21905563	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	345149	21905563	124458459	130	107311											
NEFM	4741	broad.mit.edu	37	chr8	24774588	24774588	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccttagaaaactcctggaggGtgaagagactagatttagca	14	9	11	7	0	0	4	0	1	0	3	1	6	1	5	2	2	2	1	2	2	6	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:24774588G>T	uc003xed.3	+	3	1253	c.1220G>T	c.(1219-1221)GGT>GTT	p.G407V	NEFM_uc011lac.1_Missense_Mutation_p.G407V|NEFM_uc010lue.2_Missense_Mutation_p.G31V	NM_005382	NP_005373	P07197	NFM_HUMAN	neurofilament, medium polypeptide 150kDa isoform	407	Rod.|Coil 2B.					neurofilament	protein binding|structural constituent of cytoskeleton			breast(1)	1		Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0197)|Epithelial(17;2.44e-10)|Colorectal(74;0.0108)|COAD - Colon adenocarcinoma(73;0.0375)		CTCCTGGAGGGTGAAGAGACT	0.423													15	59					8.00594e-06	8.42088e-06	0.007413	1	0		T	24774588	T	T	24774588	3	4	215	1	0	0	0	0	1	0	0	0	10335	1261	44	5	1230	5	NEFM	8	24774588	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2869025	24774588	121589434	131	107312											
XKR4	114786	broad.mit.edu	37	chr8	56436707	56436707	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggctattttagcttttgaatGttccccatctcctccaaggc	7	15	7	12	0	1	1	0	1	1	0	4	1	3	1	4	2	1	3	4	2	4	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:56436707G>A	uc003xsf.2	+	3	1906	c.1874G>A	c.(1873-1875)TGT>TAT	p.C625Y		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	625						integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			GCTTTTGAATGTTCCCCATCT	0.448													10	67					0	0	0.008291	0	0		A	56436707	A	A	56436707	3	1	215	1	0	0	0	0	1	0	0	0	17459	1377	48	4	1884	4	XKR4	8	56436707	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	31662119	56436707	89927315	132	107313											
GDF6	392255	broad.mit.edu	37	chr8	97157138	97157138	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgtgccgcttgccatggcGactggcgaaggccgtgcgcc	4	6	16	15	6	0	0	0	0	0	0	0	2	0	0	5	3	3	1	5	3	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:97157138G>A	uc003yhp.2	-	2	1121	c.1021C>T	c.(1021-1023)CGC>TGC	p.R341C		NM_001001557	NP_001001557	Q6KF10	GDF6_HUMAN	growth differentiation factor 6 precursor	341					activin receptor signaling pathway|BMP signaling pathway|growth|pathway-restricted SMAD protein phosphorylation|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			ovary(1)|breast(1)|pancreas(1)	3	Breast(36;2.67e-05)					TTGCCATGGCGACTGGCGAAG	0.428													10	15					0	0	0.006214	0	0		A	97157138	A	A	97157138	3	1	215	1	0	0	0	0	1	0	0	0	6332	1058	37	1	350	1	GDF6	8	97157138	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	40720431	97157138	49206884	133	107314											
PKHD1L1	93035	broad.mit.edu	37	chr8	110487423	110487423	+	Silent	SNP	T	C	C	0	1	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	gctctgattccaaatgcaaaTcacattaactggtattttaa	14	14	5	8	0	2	1	1	1	1	0	3	1	3	1	1	1	2	3	1	1	5	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:110487423T>C	uc003yne.2	+	51	8786	c.8682T>C	c.(8680-8682)AAT>AAC	p.N2894N		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2894	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CAAATGCAAATCACATTAACT	0.338										HNSCC(38;0.096)			11	36					0	0	0.013537	0	0		C	110487423	C	C	110487423	2	2	215	1	0	0	0	0	0	0	0	1	11991	1432	50	3		3	PKHD1L1	8	110487423	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	13330285	110487423	35876599	134	107315											
RNF139	11236	broad.mit.edu	37	chr8	125499620	125499620	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgccttcggaaatggctgtAcattcaagatacttgtccaa	11	13	8	9	1	1	1	1	0	0	1	3	2	2	2	2	2	3	2	2	2	5	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:125499620A>G	uc003yrc.2	+	2	2073	c.1730A>G	c.(1729-1731)TAC>TGC	p.Y577C		NM_007218	NP_009149	Q8WU17	RN139_HUMAN	ring finger protein 139	577	RING-type; atypical.			Missing: Increases proliferation. Rescues MHC class I to the cell surface. Fails to down-regulate SREBF1 and SREBF2.	negative regulation of cell proliferation|regulation of protein ubiquitination	endoplasmic reticulum membrane|integral to membrane	protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			kidney(1)	1	Ovarian(258;0.00438)|all_neural(195;0.0779)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			AAATGGCTGTACATTCAAGAT	0.363									Renal_Cell_Cancer_associated_with_constitutional_translocation_of_chromosome_3				27	41					0	0	0.004656	0	0		G	125499620	G	G	125499620	3	3	215	1	0	0	0	0	1	0	0	0	13467	391	14	3	1736	3	RNF139	8	125499620	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	15012197	125499620	20864402	135	107316											
ASAP1	50807	broad.mit.edu	37	chr8	131146567	131146567	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ataatcctgctcatcttctgCctgaaagtgatatgttctat	10	16	6	9	0	4	2	1	2	3	0	5	2	5	2	2	0	2	2	2	0	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:131146567C>A	uc003yta.1	-	14	1220	c.1192G>T	c.(1192-1194)GCA>TCA	p.A398S	ASAP1_uc003ysz.1_Missense_Mutation_p.A209S|ASAP1_uc011liw.1_Missense_Mutation_p.A391S	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	398	PH.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TCATCTTCTGCCTGAAAGTGA	0.338													14	45					0.000219431	0.000228713	0.00245	1	0		A	131146567	A	A	131146567	3	1	215	1	0	0	0	0	1	0	0	0	1011	739	26	5	2261	5	ASAP1	8	131146567	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	5646947	131146567	15217455	136	107317											
EPPK1	83481	broad.mit.edu	37	chr8	144943893	144943893	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	tacccacctctgcacagaggCtagcagctgtggcacagtgg	9	7	12	13	0	1	1	0	0	1	1	1	1	1	1	2	3	4	5	2	3	2	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr8:144943893C>G	uc003zaa.1	-	1	3542	c.3529G>C	c.(3529-3531)GCC>CCC	p.A1177P		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1177						cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)|skin(1)	2	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)			TGCACAGAGGCTAGCAGCTGT	0.677													3	10					0	0	0.009096	0	0		G	144943893	G	G	144943893	3	3	215	1	0	0	0	0	1	0	0	0	5198	797	28	5	3737	5	EPPK1	8	144943893	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	13797326	144943893	1420129	137	107318											
KDM4C	23081	broad.mit.edu	37	chr9	7169838	7169838	+	Missense_Mutation	SNP	A	T	T	1	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	ccagatagcaatgaagagagAggacatctacactttagatg	16	8	10	7	0	1	5	0	1	1	4	1	7	1	6	1	1	2	1	1	1	5	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr9:7169838A>T	uc003zkh.2	+	21	3522	c.2942A>T	c.(2941-2943)GAG>GTG	p.E981V	KDM4C_uc003zkg.2_Missense_Mutation_p.E981V|KDM4C_uc011lmk.1_Missense_Mutation_p.E726V|KDM4C_uc011lml.1_Missense_Mutation_p.E668V	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	981	Tudor 2.				positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						ATGAAGAGAGAGGACATCTAC	0.388													29	60					0	0	0.003755	0	0		T	7169838	T	T	7169838	3	4	215	1	0	0	0	0	1	0	0	0	8146	304	11	5	3112	5	KDM4C	9	7169838	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08		7169838	134043593	138	107319											
TLN1	7094	broad.mit.edu	37	chr9	35720037	35720037	+	Missense_Mutation	SNP	A	G	G	1	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	gtggaagtgggacacttaccAgaggaggcatgtgtcctcgg	9	8	16	8	1	0	1	0	0	0	1	2	4	1	4	2	5	1	1	2	5	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr9:35720037A>G	uc003zxt.2	-	13	1817	c.1463T>C	c.(1462-1464)CTG>CCG	p.L488P		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	488					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			GACACTTACCAGAGGAGGCAT	0.602													22	47					0	0	0.014323	0	0		G	35720037	G	G	35720037	3	3	215	1	0	0	0	0	1	0	0	0	15972	202	7	3	6342	3	TLN1	9	35720037	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	28550199	35720037	105493394	139	107320											
RECK	8434	broad.mit.edu	37	chr9	36102209	36102209	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	atgatctgaagaattgtataCctttggatacatacctcagt	13	14	7	7	0	2	3	1	2	1	1	2	4	2	4	2	1	3	1	2	1	6	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr9:36102209C>T	uc003zyv.2	+	12	1503	c.1417C>T	c.(1417-1419)CCT>TCT	p.P473S	RECK_uc003zyw.2_Missense_Mutation_p.P345S|RECK_uc003zyx.2_RNA	NM_021111	NP_066934	O95980	RECK_HUMAN	RECK protein precursor	473						anchored to membrane|peripheral to membrane of membrane fraction|plasma membrane	metalloendopeptidase inhibitor activity|serine-type endopeptidase inhibitor activity			skin(2)|ovary(1)	3			LUSC - Lung squamous cell carcinoma(32;0.112)|STAD - Stomach adenocarcinoma(86;0.228)			GAATTGTATACCTTTGGATAC	0.338													33	54					0	0	0.004289	0	0		T	36102209	T	T	36102209	3	4	215	1	0	0	0	0	1	0	0	0	13225	507	18	4	1463	4	RECK	9	36102209	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	382172	36102209	105111222	140	107321											
LCN15	389812	broad.mit.edu	37	chr9	139658879	139658879	+	Missense_Mutation	SNP	T	A	A	0	1	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	agtcaggctgcagcagaaccTcagcctgagccgtgggcgcc	8	5	14	14	2	2	2	2	1	0	1	2	2	2	2	4	2	5	3	4	2	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr9:139658879T>A	uc004cjd.2	-	1	87	c.62A>T	c.(61-63)GAG>GTG	p.E21V		NM_203347	NP_976222	Q6UWW0	LCN15_HUMAN	lipocalin 15 precursor	21					lipid metabolic process	extracellular region	binding|transporter activity				0						CAGCAGAACCTCAGCCTGAGC	0.632													27	12					0	0	0.004656	0	0		A	139658879	A	A	139658879	3	1	215	1	0	0	0	0	1	0	0	0	8699	1551	54	5	516	5	LCN15	9	139658879	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	103556670	139658879	1554552	141	107322											
ABCA2	20	broad.mit.edu	37	chr9	139912242	139912242	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agtcccggcccgcgcacctcCttgagccggtgctccttctc	3	9	10	19	4	1	1	0	1	1	0	5	1	4	1	6	2	2	2	6	2	0	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr9:139912242C>A	uc011mem.1	-	15	2353	c.2205G>T	c.(2203-2205)AAG>AAT	p.K735N	ABCA2_uc011mel.1_Missense_Mutation_p.K736N|ABCA2_uc004ckl.1_Missense_Mutation_p.K666N|ABCA2_uc004ckm.1_Missense_Mutation_p.K766N|ABCA2_uc004ckn.1_RNA	NM_001606	NP_001597	Q9BZC7	ABCA2_HUMAN	ATP-binding cassette, sub-family A, member 2	735					cholesterol homeostasis|lipid metabolic process|regulation of intracellular cholesterol transport|regulation of transcription from RNA polymerase II promoter|response to drug|response to steroid hormone stimulus	ATP-binding cassette (ABC) transporter complex|cytoplasmic membrane-bounded vesicle|endosome|integral to membrane|microtubule organizing center	ATP binding|ATPase activity, coupled to transmembrane movement of substances				0	all_cancers(76;0.16)	Myeloproliferative disorder(178;0.0511)	STAD - Stomach adenocarcinoma(284;0.123)	OV - Ovarian serous cystadenocarcinoma(145;2.94e-05)|Epithelial(140;0.00048)		CGCGCACCTCCTTGAGCCGGT	0.697													37	14					6.1244e-12	6.86013e-12	0.007835	1	0		A	139912242	A	A	139912242	3	1	215	1	0	0	0	0	1	0	0	0	32	680	24	5	5238	5	ABCA2	9	139912242	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	253363	139912242	1301189	142	107323											
WDR85	92715	broad.mit.edu	37	chr9	140468751	140468751	+	Frame_Shift_Del	DEL	G	-	-																															gaggccactttctgcagcctGggcctcgtctcattcaccat																										TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr9:140468751delG	uc004cnk.1	-	5	707	c.549delC	c.(547-549)CCCfs	p.P183fs	WDR85_uc004cnl.1_Frame_Shift_Del_p.P7fs|WDR85_uc004cnm.1_5'UTR|WDR85_uc004cnn.1_Intron	NM_138778	NP_620133	Q9BTV6	WDR85_HUMAN	WD repeat domain 85	183					peptidyl-diphthamide biosynthetic process from peptidyl-histidine						0	all_cancers(76;0.106)			OV - Ovarian serous cystadenocarcinoma(145;0.00029)|Epithelial(140;0.000509)		TCTGCAGCCTGGGCCTCGTCT	0.537													63	139	---	---	---	---						.	-	140468751	-	-	140468751	7	5	215	1	0	1	0	1	0	0	0	0	17359	1335	47	0	829	0	WDR85	9	140468751	Frame_Shift_Del	DEL	G	TCGA-HU-A4H5-01A-21D-A25D-08	556509	140468751	744680	143	107324											
ALOX5	240	broad.mit.edu	37	chr10	45938620	45938620	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaagaagacatcccctactaCttctaccgggacgacgggct	12	7	9	13	3	1	2	0	0	1	2	2	4	2	3	3	2	3	1	3	2	5	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:45938620C>T	uc001jce.2	+	10	1506	c.1407C>T	c.(1405-1407)TAC>TAT	p.Y469Y	ALOX5_uc009xmt.2_Silent_p.Y437Y|ALOX5_uc010qfg.1_Silent_p.Y469Y	NM_000698	NP_000689	P09917	LOX5_HUMAN	arachidonate 5-lipoxygenase	469	Lipoxygenase.				hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	cytosol|nuclear envelope lumen|nuclear matrix|nuclear membrane	arachidonate 5-lipoxygenase activity|iron ion binding|lipoxygenase activity|protein binding			ovary(1)|pancreas(1)	2		Lung SC(717;0.0257)			Diethylcarbamazine(DB00711)|Hydrocortisone(DB00741)|Leflunomide(DB01097)|Masoprocol(DB00179)|Meclofenamic acid(DB00939)|Minocycline(DB01017)|Montelukast(DB00471)|Quinacrine(DB01103)|Vitamin E(DB00163)|Zileuton(DB00744)	TCCCCTACTACTTCTACCGGG	0.652													49	229					0	0	0.01441	0	0		T	45938620	T	T	45938620	2	4	215	1	0	0	0	0	0	0	0	1	540	576	20	4		4	ALOX5	10	45938620	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		45938620	89596127	144	107325											
SLC16A9	220963	broad.mit.edu	37	chr10	61432609	61432609	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caggcctccagccaccatgaAgccactgaagattgtgacag	12	6	10	13	0	0	4	0	3	0	1	1	4	1	4	5	1	2	0	5	1	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:61432609A>C	uc010qig.1	-	3	708	c.259T>G	c.(259-261)TTC>GTC	p.F87V		NM_194298	NP_919274	Q7RTY1	MOT9_HUMAN	solute carrier family 16 (monocarboxylic acid	87	Helical; (Potential).				urate metabolic process	integral to membrane|plasma membrane	symporter activity			skin(2)|ovary(1)	3						GCCACCATGAAGCCACTGAAG	0.418													10	53					0	0	0.006214	0	0		C	61432609	C	C	61432609	3	2	215	1	0	0	0	0	1	0	0	0	14440	72	3	5	1286	5	SLC16A9	10	61432609	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	15493989	61432609	74102138	145	107326											
RHOBTB1	9886	broad.mit.edu	37	chr10	62631340	62631340	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctcgttcccttttcacacgcTggtagtgatcttcttccttc	4	17	6	14	2	3	1	1	1	2	0	7	1	5	1	2	1	0	3	2	1	1	7			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:62631340T>G	uc001jli.2	-	12	2429	c.1991A>C	c.(1990-1992)CAG>CCG	p.Q664P	RHOBTB1_uc001jlh.2_Missense_Mutation_p.Q664P|RHOBTB1_uc001jlj.2_Missense_Mutation_p.Q664P|RHOBTB1_uc001jlk.2_Missense_Mutation_p.Q664P|RHOBTB1_uc009xpe.1_Missense_Mutation_p.Q602P|RHOBTB1_uc009xpd.2_3'UTR|RHOBTB1_uc001jll.2_Missense_Mutation_p.Q414P	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1	664					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					TTTCACACGCTGGTAGTGATC	0.502													22	30					0	0	0.014323	0	0		G	62631340	G	G	62631340	3	3	215	1	0	0	0	0	1	0	0	0	13358	1580	55	5	103	5	RHOBTB1	10	62631340	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	1198731	62631340	72903407	146	107327											
CUTC	51076	broad.mit.edu	37	chr10	101502973	101502973	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tgtgatgattcggccacgggGaggtgattttttgtattcag	7	15	14	5	2	1	3	1	3	0	0	2	4	1	4	1	4	0	1	1	4	1	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:101502973G>A	uc001kqd.3	+	4	405	c.257G>A	c.(256-258)GGA>GAA	p.G86E	CUTC_uc010qpk.1_Missense_Mutation_p.G86E|CUTC_uc001kqe.3_RNA	NM_015960	NP_057044	Q9NTM9	CUTC_HUMAN	cutC copper transporter homolog	86					copper ion homeostasis|copper ion transport|protein tetramerization	cytoplasm|nucleus	copper ion binding			breast(1)	1		Colorectal(252;0.234)		Epithelial(162;3e-10)|all cancers(201;2.37e-08)		CGGCCACGGGGAGGTGATTTT	0.418													46	45					0	0	0.01441	0	0		A	101502973	A	A	101502973	3	1	215	1	0	0	0	0	1	0	0	0	4066	1174	41	4	271	4	CUTC	10	101502973	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	38871633	101502973	34031774	147	107328											
NEURL	9148	broad.mit.edu	37	chr10	105349314	105349314	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggtatcccatcactcccctgCtcccctgcctccacgccaac	6	8	5	22	1	1	0	1	0	0	0	5	0	5	0	8	1	3	2	8	1	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:105349314C>A	uc001kxh.2	+	5	1793	c.1383C>A	c.(1381-1383)TGC>TGA	p.C461*	SH3PXD2A_uc010qqr.1_Intron	NM_004210	NP_004201	O76050	NEU1A_HUMAN	neuralized-like	461					nervous system development	perinuclear region of cytoplasm	zinc ion binding				0				Epithelial(162;2.12e-09)|all cancers(201;6.99e-08)|BRCA - Breast invasive adenocarcinoma(275;0.125)		CACTCCCCTGCTCCCCTGCCT	0.662													44	26					1.62957e-23	1.91225e-23	0.00874	1	0		A	105349314	A	A	105349314	4	1	215	1	0	0	0	0	0	1	0	0	10364	805	28	5	1401	5	NEURL	10	105349314	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	3846341	105349314	30185433	148	107329											
HSPA12A	259217	broad.mit.edu	37	chr10	118434408	118434408	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtctggatctccctccgggCgggcaccgcagtgccactgg	4	7	15	15	3	2	0	0	0	2	0	4	1	3	1	4	5	1	2	4	5	0	0	rs41284376		TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:118434408C>T	uc001lct.2	-	12	2017	c.1912G>A	c.(1912-1914)GCC>ACC	p.A638T	HSPA12A_uc001lcu.2_Missense_Mutation_p.A555T	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	638							ATP binding			ovary(1)	1				all cancers(201;0.0158)		TCCCTCCGGGCGGGCACCGCA	0.577													40	45					0	0	0.010771	0	0		T	118434408	T	T	118434408	3	4	215	1	0	0	0	0	1	0	0	0	7420	768	27	1	119	1	HSPA12A	10	118434408	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	13085094	118434408	17100339	149	107330											
PDZD8	118987	broad.mit.edu	37	chr10	119043502	119043502	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcaacacgaggaggcaggccTaagagggtttcctgtccttc	9	9	12	11	1	1	1	1	0	0	1	4	3	3	2	3	4	1	2	3	4	2	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:119043502T>G	uc001lde.1	-	5	2941	c.2742A>C	c.(2740-2742)TTA>TTC	p.L914F		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	914					intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GAGGCAGGCCTAAGAGGGTTT	0.418													11	50					0	0	0.008291	0	0		G	119043502	G	G	119043502	3	3	215	1	0	0	0	0	1	0	0	0	11724	1519	53	5	726	5	PDZD8	10	119043502	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	609094	119043502	16491245	150	107331											
TACC2	10579	broad.mit.edu	37	chr10	123845760	123845760	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgctgcccagagaggagcaGaagacagtggagtgaaagct	13	5	16	7	0	0	4	0	1	0	3	0	7	0	6	1	2	4	3	1	2	2	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr10:123845760G>A	uc001lfv.2	+	4	4105	c.3745G>A	c.(3745-3747)GAA>AAA	p.E1249K	TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Missense_Mutation_p.E1249K|TACC2_uc010qtv.1_Missense_Mutation_p.E1249K	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing	1249						microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GAGAGGAGCAGAAGACAGTGG	0.597													84	180					0	0	0.01441	0	0		A	123845760	A	A	123845760	3	1	215	1	0	0	0	0	1	0	0	0	15527	943	33	4	3755	4	TACC2	10	123845760	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	4802258	123845760	11688987	151	107332											
PAMR1	25891	broad.mit.edu	37	chr11	35492330	35492330	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	acctcaacatagtcatactgGcacatgtagtcaaactccag	14	9	6	12	0	3	0	3	0	0	0	4	0	4	0	2	1	3	2	2	1	5	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:35492330G>A	uc001mwg.2	-	5	574	c.531C>T	c.(529-531)TGC>TGT	p.C177C	PAMR1_uc001mwf.2_Silent_p.C177C|PAMR1_uc010rew.1_Intron|PAMR1_uc010rex.1_Silent_p.C137C	NM_001001991	NP_001001991	Q6UXH9	PAMR1_HUMAN	regeneration associated muscle protease isoform	177	CUB.				proteolysis	extracellular region	serine-type endopeptidase activity			ovary(2)	2						AGTCATACTGGCACATGTAGT	0.562													22	14					0	0	0.005443	0	0		A	35492330	A	A	35492330	2	1	215	1	0	0	0	0	0	0	0	1	11432	1195	42	2		2	PAMR1	11	35492330	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08		35492330	99514186	152	107333											
CRY2	1408	broad.mit.edu	37	chr11	45891339	45891339	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttcctgacccgcggggacCtctgggtcagctgggagagc	5	7	16	13	2	2	2	1	1	1	1	3	4	3	3	3	4	2	2	3	4	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:45891339C>T	uc010rgn.1	+	7	1250	c.1228C>T	c.(1228-1230)CTC>TTC	p.L410F	CRY2_uc009ykw.2_Missense_Mutation_p.L328F|CRY2_uc010rgo.1_Missense_Mutation_p.L132F	NM_021117	NP_066940	Q49AN0	CRY2_HUMAN	cryptochrome 2 (photolyase-like) isoform 1	389	FAD-binding.				DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	blue light photoreceptor activity|damaged DNA binding|DNA photolyase activity|nucleotide binding|protein binding|single-stranded DNA binding			central_nervous_system(1)	1						CCGCGGGGACCTCTGGGTCAG	0.647													24	51					0	0	0.003954	0	0		T	45891339	T	T	45891339	3	4	215	1	0	0	0	0	1	0	0	0	3907	681	24	4	1290	4	CRY2	11	45891339	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	10399009	45891339	89115177	153	107334											
MAPK8IP1	9479	broad.mit.edu	37	chr11	45926588	45926588	+	Missense_Mutation	SNP	A	C	C	1	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	gcggatatcatccaaagaacAacaagtaagtgggggtggga	15	6	14	6	1	1	1	1	0	0	1	2	3	2	3	1	4	2	1	1	4	6	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:45926588A>C	uc001nbr.2	+	10	2130	c.1960A>C	c.(1960-1962)AAC>CAC	p.N654H		NM_005456	NP_005447	Q9UQF2	JIP1_HUMAN	mitogen-activated protein kinase 8 interacting	654	PID.				vesicle-mediated transport	nucleus|perinuclear region of cytoplasm	kinesin binding|MAP-kinase scaffold activity|protein kinase inhibitor activity			ovary(2)|breast(1)|skin(1)	4				GBM - Glioblastoma multiforme(35;0.231)		TCCAAAGAACAACAAGTAAGT	0.542													32	54					0	0	0.003755	0	0		C	45926588	C	C	45926588	3	2	215	1	0	0	0	0	1	0	0	0	9302	130	5	5	1998	5	MAPK8IP1	11	45926588	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	35249	45926588	89079928	154	107335											
KIAA0652	9776	broad.mit.edu	37	chr11	46671862	46671862	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gggcatgaatatgtcatattAtacaggtaaacagcatagat	16	11	9	5	0	1	2	1	1	0	1	1	2	1	2	0	2	3	3	0	2	8	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:46671862A>C	uc009yld.2	+	7	1137	c.453A>C	c.(451-453)TTA>TTC	p.L151F	KIAA0652_uc001nda.2_Missense_Mutation_p.L151F|KIAA0652_uc001ndb.2_Missense_Mutation_p.L151F|KIAA0652_uc001ncz.2_Missense_Mutation_p.L151F|KIAA0652_uc001ndc.2_Missense_Mutation_p.L151F|KIAA0652_uc010rgv.1_Missense_Mutation_p.L72F	NM_001142673	NP_001136145	O75143	ATG13_HUMAN	autophagy-related protein 13 isoform 1	151					autophagic vacuole assembly	cytosol|pre-autophagosomal structure|ULK1-ATG13-FIP200 complex	protein binding				0				GBM - Glioblastoma multiforme(35;0.226)		ATGTCATATTATACAGGTAAA	0.423													71	101					0	0	0.01441	0	0		C	46671862	C	C	46671862	3	2	215	1	0	0	0	0	1	0	0	0	8204	446	16	5	471	5	KIAA0652	11	46671862	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	745274	46671862	88334654	155	107336											
OR5M8	219484	broad.mit.edu	37	chr11	56257957	56257957	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctctttgattaatgcttctTttacatttttatttctaagg	8	22	5	6	0	3	1	0	1	3	0	3	1	3	1	0	1	2	2	0	1	4	10			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:56257957T>A	uc001nix.1	-	1	890	c.890A>T	c.(889-891)AAA>ATA	p.K297I		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TAATGCTTCTTTTACATTTTT	0.308													5	40					0	0	0.000602	0	0		A	56257957	A	A	56257957	3	1	215	1	0	0	0	0	1	0	0	0	11195	1841	64	5	49	5	OR5M8	11	56257957	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	9586095	56257957	78748559	156	107337											
ZDHHC5	25921	broad.mit.edu	37	chr11	57457633	57457633	+	Missense_Mutation	SNP	T	A	A	0	1	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	ctttggcctcctttatgtccTctaccacatagaggaactct	8	14	6	13	0	2	1	0	0	2	1	4	2	4	2	4	2	2	0	4	2	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:57457633T>A	uc001nkx.1	+	5	1771	c.515T>A	c.(514-516)CTC>CAC	p.L172H	ZDHHC5_uc001nky.1_Missense_Mutation_p.L119H|ZDHHC5_uc001nkz.1_5'UTR	NM_015457	NP_056272	Q9C0B5	ZDHC5_HUMAN	zinc finger, DHHC domain containing 5	172						integral to membrane	acyltransferase activity|zinc ion binding			skin(1)	1						CTTTATGTCCTCTACCACATA	0.498													43	101					0	0	0.011902	0	0		A	57457633	A	A	57457633	3	1	215	1	0	0	0	0	1	0	0	0	17643	1551	54	5	529	5	ZDHHC5	11	57457633	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	1199676	57457633	77548883	157	107338											
OR5A1	219982	broad.mit.edu	37	chr11	59210971	59210971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttttttttctttgtcggcatGggtctgtctgagtgcctcct	2	20	10	9	1	3	1	0	1	3	0	5	1	4	1	2	2	1	1	2	2	0	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:59210971G>A	uc001nnx.1	+	1	330	c.330G>A	c.(328-330)ATG>ATA	p.M110I		NM_001004728	NP_001004728	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A,	110	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2						TTGTCGGCATGGGTCTGTCTG	0.527													45	193					0	0	0.01441	0	0		A	59210971	A	A	59210971	3	1	215	1	0	0	0	0	1	0	0	0	11158	1348	47	4	332	4	OR5A1	11	59210971	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1753338	59210971	75795545	158	107339											
SLC22A9	114571	broad.mit.edu	37	chr11	63141464	63141464	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ccctggcaggcctggcttttGccattcgagactggcatatc	6	11	11	13	1	0	1	0	0	0	1	2	2	0	1	3	4	1	3	3	4	1	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:63141464G>C	uc001nww.2	+	4	1028	c.760G>C	c.(760-762)GCC>CCC	p.A254P	SLC22A9_uc001nwx.2_RNA	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	254	Helical; (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3						CCTGGCTTTTGCCATTCGAGA	0.468													11	46					0	0	0.010729	0	0		C	63141464	C	C	63141464	3	2	215	1	0	0	0	0	1	0	0	0	14486	1319	46	5	774	5	SLC22A9	11	63141464	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	3930493	63141464	71865052	159	107340											
SUV420H1	51111	broad.mit.edu	37	chr11	67947642	67947642	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	actgtcagattttgaaaaatGccttgagctcctcgaaggaa	13	11	9	8	1	1	3	1	2	0	1	3	5	2	4	2	1	2	1	2	1	4	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:67947642G>T	uc001onm.1	-	4	590	c.334C>A	c.(334-336)CAT>AAT	p.H112N	SUV420H1_uc009yse.1_5'UTR|SUV420H1_uc001onn.1_5'UTR|SUV420H1_uc009ysf.2_5'UTR|SUV420H1_uc001ono.1_Missense_Mutation_p.H112N|SUV420H1_uc001onp.2_Missense_Mutation_p.H112N|SUV420H1_uc010rqa.1_Intron|SUV420H1_uc001onq.2_Missense_Mutation_p.H112N	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	112					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						tttgaaaaatgccttgagctc	0.134													3	14					0.00909568	0.0093116	0.009096	1	0		T	67947642	T	T	67947642	3	4	215	1	0	0	0	0	1	0	0	0	15439	1319	46	5	2363	5	SUV420H1	11	67947642	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	4806178	67947642	67058874	160	107341											
CPT1A	1374	broad.mit.edu	37	chr11	68582853	68582853	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagtccagagagatagatTtgtctaagagcttcatggct	12	12	11	6	0	2	5	1	1	1	4	3	6	3	5	1	1	1	2	1	1	3	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:68582853T>A	uc001oog.3	-	2	260	c.90A>T	c.(88-90)CAA>CAT	p.Q30H	CPT1A_uc001oof.3_Missense_Mutation_p.Q30H|CPT1A_uc009ysj.2_Missense_Mutation_p.Q30H	NM_001876	NP_001867	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A liver isoform	30	Cytoplasmic (Potential).				carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			skin(2)	2	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	AGAGATAGATTTGTCTAAGAG	0.438													16	60					0	0	0.00499	0	0		A	68582853	A	A	68582853	3	1	215	1	0	0	0	0	1	0	0	0	3834	1838	64	5	2343	5	CPT1A	11	68582853	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	635211	68582853	66423663	161	107342											
WNT11	7481	broad.mit.edu	37	chr11	75898212	75898212	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gctcgaccacgcggtctgtgTaggggttgtagccacgcccg	5	8	15	13	5	1	0	0	0	1	0	2	1	1	0	3	3	1	4	3	3	2	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:75898212T>C	uc001oxe.2	-	5	1085	c.962A>G	c.(961-963)TAC>TGC	p.Y321C		NM_004626	NP_004617	O96014	WNT11_HUMAN	wingless-type MMTV integration site family,	321					adrenal gland development|anterior/posterior pattern formation|artery morphogenesis|axis specification|bone mineralization|cellular response to retinoic acid|cloacal septation|embryonic skeletal system development|endoderm development|lung-associated mesenchyme development|mesonephric duct development|negative regulation of apoptosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell migration|negative regulation of transcription, DNA-dependent|neuroendocrine cell differentiation|neuron differentiation|osteoblast differentiation|outflow tract morphogenesis|palate development|positive regulation of cell migration|positive regulation of protein kinase C signaling cascade|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor-beta2 production|protein localization at cell surface|protein phosphorylation|tight junction assembly|ureteric bud morphogenesis|ventricular septum morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|protein kinase activator activity|Ras GTPase activator activity|transcription regulatory region DNA binding			lung(1)|skin(1)	2						GCGGTCTGTGTAGGGGTTGTA	0.602													38	58					0	0	0.007835	0	0		C	75898212	C	C	75898212	3	2	215	1	0	0	0	0	1	0	0	0	17410	1638	57	3	106	3	WNT11	11	75898212	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	7315359	75898212	59108304	162	107343											
CWF19L2	143884	broad.mit.edu	37	chr11	107197652	107197652	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacctcaatagtttttacttTtggtgaagtcatatggtttc	9	18	7	7	0	2	1	2	1	0	0	3	1	2	1	1	2	1	2	1	2	5	8			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:107197652T>A	uc010rvp.1	-	18	2699	c.2669A>T	c.(2668-2670)AAA>ATA	p.K890I	CWF19L2_uc001pjh.3_RNA|CWF19L2_uc009yxo.2_RNA	NM_152434	NP_689647	Q2TBE0	C19L2_HUMAN	CWF19-like 2, cell cycle control	890							catalytic activity				0		Melanoma(852;1.75e-05)|all_epithelial(67;6.27e-05)|Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Breast(348;0.0258)		Epithelial(105;7.18e-06)|BRCA - Breast invasive adenocarcinoma(274;1.65e-05)|all cancers(92;1.76e-05)		GTTTTTACTTTTGGTGAAGTC	0.403													14	44					0	0	0.004007	0	0		A	107197652	A	A	107197652	3	1	215	1	0	0	0	0	1	0	0	0	4075	1841	64	5	19	5	CWF19L2	11	107197652	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	31299440	107197652	27808864	163	107344											
BTG4	54766	broad.mit.edu	37	chr11	111366030	111366030	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agattgaaagggctgtttcaAgttttcaacctggaaaaaaa	16	11	9	5	0	2	2	2	1	0	1	2	3	2	3	1	2	1	3	1	2	6	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:111366030A>C	uc001plj.2	-	5	705	c.520T>G	c.(520-522)TTG>GTG	p.L174V		NM_017589	NP_060059	Q9NY30	BTG4_HUMAN	B-cell translocation gene 4	174					cell cycle arrest|negative regulation of cell proliferation|neuron differentiation						0		all_cancers(61;3.78e-13)|all_epithelial(67;5.29e-08)|Melanoma(852;3.15e-06)|all_hematologic(158;0.000405)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0204)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		Epithelial(105;1.22e-06)|BRCA - Breast invasive adenocarcinoma(274;1.72e-06)|all cancers(92;2.18e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0509)		GGCTGTTTCAAGTTTTCAACC	0.413													18	72					0	0	0.008871	0	0		C	111366030	C	C	111366030	3	2	215	1	0	0	0	0	1	0	0	0	1559	69	3	5	159	5	BTG4	11	111366030	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	4168378	111366030	23640486	164	107345											
FDXACB1	91893	broad.mit.edu	37	chr11	111749799	111749799	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ctgatccagggtttcgctcaGagcggcggcgaaggagaaat	10	7	15	9	4	1	3	1	1	0	2	3	5	2	3	1	4	1	2	1	4	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:111749799G>A	uc001pmc.3	-	1	355	c.58C>T	c.(58-60)CTG>TTG	p.L20L	ALG9_uc010rwo.1_5'UTR|FDXACB1_uc009yyi.2_5'UTR|C11orf1_uc001pmd.2_5'Flank|C11orf1_uc001pme.2_5'Flank	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	20					phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						GTTTCGCTCAGAGCGGCGGCG	0.657											OREG0021330	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	57					0	0	0.003163	0	0		A	111749799	A	A	111749799	2	1	215	1	0	0	0	0	0	0	0	1	5820	933	33	4		4	FDXACB1	11	111749799	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	383769	111749799	23256717	165	107346											
APOA5	116519	broad.mit.edu	37	chr11	116661139	116661139	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgggggtccgggccggccCcttcctcagtcccagtgcct	2	9	13	17	2	2	0	1	0	1	0	5	0	5	0	7	4	1	0	7	4	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:116661139C>A	uc001ppr.2	-	3	814	c.806G>T	c.(805-807)GGG>GTG	p.G269V	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Missense_Mutation_p.G269V|APOA5_uc009yzf.2_Missense_Mutation_p.G269V|APOA5_uc009yzg.2_Missense_Mutation_p.G295V	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	269					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CGGGCCGGCCCCTTCCTCAGT	0.657													56	67					2.34445e-45	2.86821e-45	0.01441	1	0		A	116661139	A	A	116661139	3	1	215	1	0	0	0	0	1	0	0	0	784	623	22	5	298	5	APOA5	11	116661139	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	4911340	116661139	18345377	166	107347											
DSCAML1	57453	broad.mit.edu	37	chr11	117299141	117299141	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgagaagcgagtccctggagCcccccattttggtgtgtggg	6	9	15	11	2	0	1	0	0	0	1	1	4	1	2	4	3	2	0	4	3	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:117299141C>T	uc001prh.1	-	33	6247	c.6245G>A	c.(6244-6246)GGC>GAC	p.G2082D		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	2022	Cytoplasmic (Potential).				axonogenesis|brain development|cell fate determination|dorsal/ventral pattern formation|embryonic skeletal system morphogenesis|homophilic cell adhesion	cell surface|integral to membrane|plasma membrane	protein homodimerization activity			ovary(3)|large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)	8	all_hematologic(175;0.0487)	Breast(348;0.0424)|Medulloblastoma(222;0.0523)|all_hematologic(192;0.232)		BRCA - Breast invasive adenocarcinoma(274;9.12e-06)|Epithelial(105;0.00172)		GTCCCTGGAGCCCCCCATTTT	0.701													9	61					0	0	0.001855	0	0		T	117299141	T	T	117299141	3	4	215	1	0	0	0	0	1	0	0	0	4775	739	26	2	100	2	DSCAML1	11	117299141	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	638002	117299141	17707375	167	107348											
TECTA	7007	broad.mit.edu	37	chr11	120998579	120998579	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccgtgcacagagggctgCgagtgcaaccagggcttcgt	8	6	15	12	4	0	1	0	0	0	1	1	2	0	1	2	2	4	4	2	2	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:120998579C>T	uc010rzo.1	+	8	1893	c.1893C>T	c.(1891-1893)TGC>TGT	p.C631C		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	631	TIL 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CAGAGGGCTGCGAGTGCAACC	0.647													36	52					0	0	0.003271	0	0		T	120998579	T	T	120998579	2	4	215	1	0	0	0	0	0	0	0	1	15772	776	27	1		1	TECTA	11	120998579	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	3699438	120998579	14007937	168	107349											
BSX	390259	broad.mit.edu	37	chr11	122848402	122848402	+	Silent	SNP	G	A	A	0	0	1	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	agctccccctcgtctccaatGtccacctcgtcctctggctc	4	11	6	20	2	2	0	0	0	2	0	9	0	5	0	6	1	1	2	6	1	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:122848402G>A	uc010rzs.1	-	3	657	c.657C>T	c.(655-657)GAC>GAT	p.D219D		NM_001098169	NP_001091639	Q3C1V8	BSH_HUMAN	brain specific homeobox	219											0		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;0.0361)		CGTCTCCAATGTCCACCTCGT	0.736													31	47					0	0	0.010818	0	0		A	122848402	A	A	122848402	2	1	215	1	0	0	0	0	0	0	0	1	1538	1368	48	4		4	BSX	11	122848402	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1849823	122848402	12158114	169	107350											
OR6M1	390261	broad.mit.edu	37	chr11	123676812	123676812	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gttttctcttctcctaggagGcaggccaacaactttggggt	7	13	11	10	0	2	0	0	0	2	0	4	1	2	1	2	5	2	2	2	5	3	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:123676812G>A	uc010rzz.1	-	1	246	c.246C>T	c.(244-246)TGC>TGT	p.C82C		NM_001005325	NP_001005325	Q8NGM8	OR6M1_HUMAN	olfactory receptor, family 6, subfamily M,	82	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Breast(109;0.0109)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.028)		CTCCTAGGAGGCAGGCCAACA	0.433													47	82					0	0	0.01441	0	0		A	123676812	A	A	123676812	2	1	215	1	0	0	0	0	0	0	0	1	11224	1195	42	2		2	OR6M1	11	123676812	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	828410	123676812	11329704	170	107351											
ACRV1	56	broad.mit.edu	37	chr11	125547724	125547724	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttgaaattggtgcacctgaaGcctgttcccctgaagcgtgc	8	11	11	11	1	0	3	0	3	0	0	1	3	1	3	4	1	4	2	4	1	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr11:125547724G>A	uc001qcs.2	-	2	788	c.521C>T	c.(520-522)GCT>GTT	p.A174V	ACRV1_uc001qck.2_Intron|ACRV1_uc001qcl.2_Missense_Mutation_p.A104V|ACRV1_uc001qcm.2_Intron|ACRV1_uc001qcn.2_Missense_Mutation_p.A119V|ACRV1_uc001qco.2_Missense_Mutation_p.A79V|ACRV1_uc001qcp.2_Intron|ACRV1_uc001qcq.2_Missense_Mutation_p.A104V|ACRV1_uc001qcr.2_Intron	NM_001612	NP_001603	P26436	ASPX_HUMAN	acrosomal vesicle protein 1 isoform a precursor	174	3-9.|9 X 5 AA repeats of [SV]-G-E-Q-[PSA].				multicellular organismal development	acrosomal vesicle					0	all_hematologic(175;0.177)	Breast(109;0.0021)|all_lung(97;0.0179)|Lung NSC(97;0.0185)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.1e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0713)		TGCACCTGAAGCCTGTTCCCC	0.532													91	28					0	0	0.01441	0	0		A	125547724	A	A	125547724	3	1	215	1	0	0	0	0	1	0	0	0	172	971	34	2	288	2	ACRV1	11	125547724	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1870912	125547724	9458792	171	107352											
IQSEC3	440073	broad.mit.edu	37	chr12	280291	280291	+	Silent	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcaaagccaaaagggaagcCgcgctcagggagaggccggc	12	3	15	11	3	2	1	2	0	0	1	2	3	2	2	3	4	2	1	3	4	4	1	rs151163146	byFrequency	TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:280291C>G	uc001qhw.1	+	10	2175	c.2169C>G	c.(2167-2169)GCC>GCG	p.A723A	IQSEC3_uc001qhu.1_Silent_p.A723A	NM_015232	NP_056047	Q9UPP2	IQEC3_HUMAN	IQ motif and Sec7 domain 3	1026					regulation of ARF protein signal transduction	cytoplasm	ARF guanyl-nucleotide exchange factor activity			central_nervous_system(2)|large_intestine(1)|skin(1)	4	all_cancers(10;0.016)|all_lung(10;0.0222)|all_epithelial(11;0.0262)|Lung NSC(10;0.031)		OV - Ovarian serous cystadenocarcinoma(31;0.00456)	LUAD - Lung adenocarcinoma(1;0.172)|Lung(1;0.179)		AAAGGGAAGCCGCGCTCAGGG	0.622													34	59					0	0	0.006999	0	0		G	280291	G	G	280291	2	3	215	1	0	0	0	0	0	0	0	1	7835	639	23	5		5	IQSEC3	12	280291	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		280291	133571604	172	107353											
CACNA1C	775	broad.mit.edu	37	chr12	2795345	2795345	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tttgcaggtcgaagggcctcCttccacctggaatgtctgaa	8	11	11	11	1	1	1	0	1	1	0	4	3	3	2	4	3	1	1	4	3	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:2795345C>T	uc009zdu.1	+	48	6256	c.5943C>T	c.(5941-5943)TCC>TCT	p.S1981S	CACNA1C_uc009zdv.1_Silent_p.S1895S|CACNA1C_uc001qkb.2_Silent_p.S1898S|CACNA1C_uc001qkc.2_Silent_p.S1917S|CACNA1C_uc001qke.2_Silent_p.S1887S|CACNA1C_uc001qkf.2_Silent_p.S1906S|CACNA1C_uc001qjz.2_Silent_p.S1898S|CACNA1C_uc001qkd.2_Silent_p.S1917S|CACNA1C_uc001qkg.2_Silent_p.S1904S|CACNA1C_uc009zdw.1_Silent_p.S1939S|CACNA1C_uc001qkh.2_Silent_p.S1906S|CACNA1C_uc001qkl.2_Silent_p.S1946S|CACNA1C_uc001qkn.2_Silent_p.S1898S|CACNA1C_uc001qko.2_Silent_p.S1918S|CACNA1C_uc001qkp.2_Silent_p.S1898S|CACNA1C_uc001qkr.2_Silent_p.S1915S|CACNA1C_uc001qku.2_Silent_p.S1933S|CACNA1C_uc001qkq.2_Silent_p.S1926S|CACNA1C_uc001qks.2_Silent_p.S1898S|CACNA1C_uc001qkt.2_Silent_p.S1917S|CACNA1C_uc001qki.1_Silent_p.S1705S|CACNA1C_uc001qkj.1_Silent_p.S1669S|CACNA1C_uc001qkk.1_Silent_p.S1634S|CACNA1C_uc001qkm.1_Silent_p.S1694S|CACNA1C_uc010sea.1_Silent_p.S589S|uc001qkx.1_Intron|CACNA1C_uc001qky.1_Silent_p.S216S	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	1981	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	GAAGGGCCTCCTTCCACCTGG	0.577													50	117					0	0	0.01441	0	0		T	2795345	T	T	2795345	2	4	215	1	0	0	0	0	0	0	0	1	2543	668	24	4		4	CACNA1C	12	2795345	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	2515054	2795345	131056550	173	107354											
ZNF705A	440077	broad.mit.edu	37	chr12	8329733	8329733	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaaacagtgtggaaaatctCttcgtaatcttttctcccct	10	14	6	11	1	3	0	0	0	3	0	6	1	3	1	2	1	1	2	2	1	4	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:8329733C>A	uc001qud.1	+	5	529	c.457C>A	c.(457-459)CTT>ATT	p.L153I		NM_001004328	NP_001004328	Q6ZN79	Z705A_HUMAN	zinc finger protein 705A	153					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				Kidney(36;0.0877)		TGGAAAATCTCTTCGTAATCT	0.368													81	53					5.10314e-47	6.26543e-47	0.01441	1	0		A	8329733	A	A	8329733	3	1	215	1	0	0	0	0	1	0	0	0	18133	913	32	5	475	5	ZNF705A	12	8329733	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	5534388	8329733	125522162	174	107355											
IPO8	10526	broad.mit.edu	37	chr12	30834694	30834694	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcttgtcgaccactcctggCcagtgaccaggaaaatcatg	11	9	9	12	1	2	1	1	1	1	0	4	3	3	2	4	2	0	0	4	2	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:30834694C>T	uc001rjd.2	-	4	551	c.381G>A	c.(379-381)TGG>TGA	p.W127*		NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8	127					intracellular protein transport|signal transduction	cytoplasm|nucleus	protein transporter activity|Ran GTPase binding			skin(2)|central_nervous_system(1)	3	all_lung(12;6.66e-10)|Lung NSC(12;4.84e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0355)|Lung SC(12;0.0905)|Esophageal squamous(101;0.233)					CCACTCCTGGCCAGTGACCAG	0.403													22	15					0	0	0.012319	0	0		T	30834694	T	T	30834694	4	4	215	1	0	0	0	0	0	1	0	0	7814	740	26	2	2820	2	IPO8	12	30834694	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	22504961	30834694	103017201	175	107356											
DDX23	9416	broad.mit.edu	37	chr12	49226289	49226289	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agccaatgtacaccacagcaGgtcgccgaagatagctcctg	12	6	10	13	2	0	1	0	0	0	1	2	2	1	1	4	1	4	3	4	1	4	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:49226289G>C	uc001rsm.2	-	14	1962	c.1871C>G	c.(1870-1872)CCT>CGT	p.P624R		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	624	Helicase ATP-binding.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			kidney(3)|ovary(1)|lung(1)|skin(1)	6						CACCACAGCAGGTCGCCGAAG	0.587													44	15					0	0	0.009718	0	0		C	49226289	C	C	49226289	3	2	215	1	0	0	0	0	1	0	0	0	4353	1000	35	5	607	5	DDX23	12	49226289	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	18391595	49226289	84625606	176	107357											
KRT73	319101	broad.mit.edu	37	chr12	53007514	53007514	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gcctcggccttgctcttccgGgcgatctcctcatactgggc	3	11	11	16	3	3	0	1	0	2	0	6	1	4	0	4	3	2	1	4	3	1	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:53007514G>C	uc001sas.2	-	5	977	c.942C>G	c.(940-942)GCC>GCG	p.A314A		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	314	Rod.|Coil 2.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TGCTCTTCCGGGCGATCTCCT	0.587													41	25					0	0	0.007835	0	0		C	53007514	C	C	53007514	2	2	215	1	0	0	0	0	0	0	0	1	8502	1219	43	5		5	KRT73	12	53007514	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	3781225	53007514	80844381	177	107358											
TPH2	121278	broad.mit.edu	37	chr12	72425323	72425323	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	actttgcaaagtcaattaccCgtcccttctcagtatacttc	10	14	4	13	1	2	0	2	0	1	0	5	0	3	0	2	0	3	2	2	0	5	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:72425323C>T	uc009zrw.1	+	11	1462	c.1321C>T	c.(1321-1323)CGT>TGT	p.R441C	TPH2_uc001swy.2_Missense_Mutation_p.R351C	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	441			R -> H (may be due to a rare RNA editing event; functional polymorphism linked with susceptibility to major depressive disorder; 80% loss of function; decreases solubility; decreases thermal stability; reduces catalytic activity).		aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	GTCAATTACCCGTCCCTTCTC	0.418													32	29					0	0	0.013726	0	0		T	72425323	T	T	72425323	3	4	215	1	0	0	0	0	1	0	0	0	16428	652	23	1	1363	1	TPH2	12	72425323	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	19417809	72425323	61426572	178	107359											
KCNC2	3747	broad.mit.edu	37	chr12	75444690	75444690	+	Missense_Mutation	SNP	A	T	T	1	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	ccaagcaccctcagacctacAaaatggcgggtgagcttgaa	13	6	10	12	1	1	3	1	2	0	1	1	3	1	3	3	2	3	2	3	2	5	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:75444690A>T	uc001sxg.1	-	3	1639	c.1095T>A	c.(1093-1095)TTT>TTA	p.F365L	KCNC2_uc009zry.2_Missense_Mutation_p.F365L|KCNC2_uc001sxe.2_Missense_Mutation_p.F365L|KCNC2_uc001sxf.2_Missense_Mutation_p.F365L|KCNC2_uc010stw.1_Missense_Mutation_p.F365L	NM_139137	NP_631875	Q96PR1	KCNC2_HUMAN	Shaw-related voltage-gated potassium channel	365	Helical; Voltage-sensor; Name=Segment S4; (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	voltage-gated potassium channel activity			breast(2)|pancreas(2)|skin(1)|lung(1)	6						TCAGACCTACAAAATGGCGGG	0.448													14	52					0	0	0.00245	0	0		T	75444690	T	T	75444690	3	4	215	1	0	0	0	0	1	0	0	0	8031	127	5	5	899	5	KCNC2	12	75444690	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	3019367	75444690	58407205	179	107360											
ACSS3	79611	broad.mit.edu	37	chr12	81647273	81647273	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ccatctgaactttctctctaGatataaatgcaacagaggag	14	11	7	9	0	3	3	0	1	3	2	4	4	3	4	1	1	3	1	1	1	6	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:81647273G>C	uc001szl.1	+	15	1911	c.1820_splice	c.e15-1	p.D607_splice	ACSS3_uc001szm.1_Splice_Site_p.D606_splice|ACSS3_uc001szn.1_Splice_Site_p.D289_splice	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3							mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TTTCTCTCTAGATATAAATGC	0.388													27	65					0	0	0.003954	0	0		C	81647273	C	C	81647273	5	2	215	1	0	0	0	0	0	0	1	0	190	956	33	5	1877	5	ACSS3	12	81647273	Splice_Site	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	6202583	81647273	52204622	180	107361											
ATXN2	6311	broad.mit.edu	37	chr12	111990188	111990188	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcacgtttcggccccgaaCtggattctgtacttttctca	6	15	7	13	3	3	0	2	0	2	0	5	2	3	1	2	2	2	2	2	2	2	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr12:111990188C>T	uc001tsj.2	-	5	1109	c.947G>A	c.(946-948)AGT>AAT	p.S316N	ATXN2_uc001tsh.2_Missense_Mutation_p.S51N|ATXN2_uc001tsi.2_Missense_Mutation_p.S27N|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsm.1_Missense_Mutation_p.S51N	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	316					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						CGGCCCCGAACTGGATTCTGT	0.348													9	43					0	0	0.006214	0	0		T	111990188	T	T	111990188	3	4	215	1	0	0	0	0	1	0	0	0	1212	565	20	4	3078	4	ATXN2	12	111990188	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	30342915	111990188	21861707	181	107362											
DIAPH3	81624	broad.mit.edu	37	chr13	60545039	60545039	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aggtttaaattctttctttgGtttcaacccaaatggcagga	11	15	8	7	0	3	0	1	0	2	0	3	1	3	1	1	4	1	3	1	4	4	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr13:60545039G>C	uc001vht.2	-	16	2125	c.1906C>G	c.(1906-1908)CCA>GCA	p.P636A	DIAPH3_uc001vhu.2_Missense_Mutation_p.P373A|DIAPH3_uc001vhv.2_Missense_Mutation_p.P214A	NM_001042517	NP_001035982	Q9NSV4	DIAP3_HUMAN	diaphanous homolog 3 isoform a	636	FH2.|Pro-rich.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)	2		Breast(118;0.052)|Prostate(109;0.103)|Hepatocellular(98;0.132)		GBM - Glioblastoma multiforme(99;2.77e-05)		TCTTTCTTTGGTTTCAACCCA	0.403													16	101					0	0	0.003163	0	0		C	60545039	C	C	60545039	3	2	215	1	0	0	0	0	1	0	0	0	4526	1261	44	5	1747	5	DIAPH3	13	60545039	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08		60545039	54624839	182	107363											
SLITRK6	84189	broad.mit.edu	37	chr13	86370114	86370114	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gaacaaatcggaagatgtttGgaggaagactctcaatagca	16	8	11	6	1	1	2	1	0	1	2	3	6	1	5	0	3	2	2	0	3	6	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr13:86370114G>A	uc001vll.1	-	2	989	c.530C>T	c.(529-531)CCA>CTA	p.P177L	SLITRK6_uc010afe.1_5'Flank	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	177	LRR 4.|Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		GAAGATGTTTGGAGGAAGACT	0.363													65	124					0	0	0.01441	0	0		A	86370114	A	A	86370114	3	1	215	1	0	0	0	0	1	0	0	0	14772	1348	47	4	1999	4	SLITRK6	13	86370114	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	25825075	86370114	28799764	183	107364											
NALCN	259232	broad.mit.edu	37	chr13	101720273	101720273	+	Missense_Mutation	SNP	T	A	A	0	1	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	acaacccactcccatacctcTcttttatcatccaccatgtt	10	13	1	17	0	2	0	1	0	1	0	5	0	4	0	5	0	2	1	5	0	3	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr13:101720273T>A	uc001vox.1	-	39	4632	c.4443A>T	c.(4441-4443)AGA>AGT	p.R1481S		NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	1481	Cytoplasmic (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|skin(2)|pancreas(1)|central_nervous_system(1)	16	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)					CCCATACCTCTCTTTTATCAT	0.388													11	65					0	0	0.013537	0	0		A	101720273	A	A	101720273	3	1	215	1	0	0	0	0	1	0	0	0	10166	1548	54	5	797	5	NALCN	13	101720273	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	15350159	101720273	13449605	184	107365											
TNFSF13B	10673	broad.mit.edu	37	chr13	108922355	108922355	+	Missense_Mutation	SNP	T	G	G	0	1	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	tcccacggaaggaaagccccTctgtccgatcctccaaagac	11	6	8	16	2	1	1	0	0	1	1	5	4	5	3	6	2	1	0	6	2	3	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr13:108922355T>G	uc001vqr.2	+	1	379	c.112T>G	c.(112-114)TCT>GCT	p.S38A	TNFSF13B_uc010agj.2_Missense_Mutation_p.S38A	NM_006573	NP_006564	Q9Y275	TN13B_HUMAN	tumor necrosis factor superfamily, member 13b	38	Cytoplasmic (Potential).				cell proliferation|immune response|signal transduction	extracellular space|integral to membrane|plasma membrane|soluble fraction	cytokine activity|tumor necrosis factor receptor binding				0	all_lung(23;0.000396)|all_neural(89;0.00256)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00902)|Lung SC(71;0.104)		all cancers(43;0.184)|BRCA - Breast invasive adenocarcinoma(86;0.19)			GGAAAGCCCCTCTGTCCGATC	0.537													43	399					0	0	0.01441	0	0		G	108922355	G	G	108922355	3	3	215	1	0	0	0	0	1	0	0	0	16331	1551	54	5	114	5	TNFSF13B	13	108922355	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	7202082	108922355	6247523	185	107366											
MCF2L	23263	broad.mit.edu	37	chr13	113733042	113733042	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggaggaggaaagcctggcCatcctgcgcaggtgggtgcg	8	5	19	9	2	0	0	0	0	0	0	1	4	1	3	3	6	3	1	3	6	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr13:113733042C>T	uc001vsu.2	+	15	1990	c.1968C>T	c.(1966-1968)GCC>GCT	p.A656A	MCF2L_uc001vsq.2_Silent_p.A656A|MCF2L_uc010tjr.1_Silent_p.A599A|MCF2L_uc001vsr.2_Silent_p.A603A|MCF2L_uc001vss.3_Silent_p.A597A|MCF2L_uc010tjs.1_Silent_p.A597A|MCF2L_uc001vst.1_Silent_p.A561A	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming	629					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_cancers(25;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				AAAGCCTGGCCATCCTGCGCA	0.657													5	24					0	0	0.000602	0	0		T	113733042	T	T	113733042	2	4	215	1	0	0	0	0	0	0	0	1	9397	581	21	4		4	MCF2L	13	113733042	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	4810687	113733042	1436836	186	107367											
PCID2	55795	broad.mit.edu	37	chr13	113834471	113834471	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	aggaaggatggcatactctaCctcacagctctggttacttc	10	11	9	11	0	3	0	1	0	2	0	4	2	3	2	1	4	4	3	1	4	4	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr13:113834471C>A	uc010tju.1	-	11	941	c.860_splice	c.e11+1	p.S287_splice	PCID2_uc001vtb.2_Splice_Site_p.S120_splice|PCID2_uc010tjv.1_Splice_Site_p.S287_splice|PCID2_uc010tjw.1_Splice_Site_p.S287_splice|PCID2_uc001vte.2_Splice_Site_p.S180_splice|PCID2_uc001vtd.2_Splice_Site_p.S180_splice|PCID2_uc001vtf.2_Splice_Site_p.S180_splice	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2						negative regulation of apoptosis|negative regulation of cysteine-type endopeptidase activity|positive regulation of mitotic cell cycle spindle assembly checkpoint|positive regulation of transcription, DNA-dependent|regulation of mRNA stability|spleen development		protein binding				0	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_lung(25;0.216)|all_epithelial(44;0.234)	all cancers(43;0.104)			GCATACTCTACCTCACAGCTC	0.483													81	116					6.10891e-31	7.34346e-31	0.01441	1	0		A	113834471	A	A	113834471	5	1	215	1	0	0	0	0	0	0	1	0	11598	521	18	5	354	5	PCID2	13	113834471	Splice_Site	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	101429	113834471	1335407	187	107368											
GZMB	3002	broad.mit.edu	37	chr14	25101228	25101228	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggggccgtctgcccccagcCggccacactgcatgtctgcc	4	6	13	18	2	2	0	0	0	2	0	2	0	2	0	6	3	4	1	6	3	0	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:25101228C>T	uc001wps.2	-	4	502	c.436G>A	c.(436-438)GGC>AGC	p.G146S	GZMB_uc010ama.2_Missense_Mutation_p.G134S|GZMB_uc010amb.2_RNA	NM_004131	NP_004122	P10144	GRAB_HUMAN	granzyme B precursor	146	Peptidase S1.				activation of pro-apoptotic gene products|cleavage of lamin|cytolysis|induction of apoptosis by intracellular signals	cytosol|immunological synapse|nucleus	protein binding|serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.028)		TGCCCCCAGCCGGCCACACTG	0.592													30	68					0	0	0.00632	0	0		T	25101228	T	T	25101228	3	4	215	1	0	0	0	0	1	0	0	0	6932	652	23	1	315	1	GZMB	14	25101228	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		25101228	82248312	188	107369											
FOXG1	2290	broad.mit.edu	37	chr14	29237432	29237432	+	Missense_Mutation	SNP	T	C	C	0	1	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	catgtcgcccttcctgtcccTgcaccacccccgcgccagca	5	7	7	22	3	0	0	0	0	0	0	3	0	2	0	7	0	2	2	7	0	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:29237432T>C	uc001wqe.2	+	1	1146	c.947T>C	c.(946-948)CTG>CCG	p.L316P		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	316				RAGSLYWPMSPFLSLHHPR -> APAPSTGPCRPSCPCTTP (in Ref. 1; CAA52240 and 2; CAA55038).	axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of neuron differentiation|negative regulation of transcription, DNA-dependent|nonmotile primary cilium assembly|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			ovary(2)|lung(2)	4			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)		TTCCTGTCCCTGCACCACCCC	0.662													34	125					0	0	0.006999	0	0		C	29237432	C	C	29237432	3	2	215	1	0	0	0	0	1	0	0	0	6021	1580	55	3	949	3	FOXG1	14	29237432	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	4136204	29237432	78112108	189	107370											
NPAS3	64067	broad.mit.edu	37	chr14	34269574	34269574	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agcatgaccaagccccccagCtctgagcacttcccgtcccc	8	6	7	20	1	1	2	0	2	1	0	3	2	3	2	7	0	4	3	7	0	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:34269574C>A	uc001wru.2	+	12	2125	c.2061C>A	c.(2059-2061)AGC>AGA	p.S687R	NPAS3_uc001wrs.2_Missense_Mutation_p.S674R|NPAS3_uc001wrt.2_Missense_Mutation_p.S655R|NPAS3_uc001wrv.2_Missense_Mutation_p.S657R	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	687					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		AGCCCCCCAGCTCTGAGCACT	0.617													21	82					4.63292e-17	5.36362e-17	0.008871	1	0		A	34269574	A	A	34269574	3	1	215	1	0	0	0	0	1	0	0	0	10583	796	28	5	2162	5	NPAS3	14	34269574	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	5032142	34269574	73079966	190	107371											
SIP1	8487	broad.mit.edu	37	chr14	39583510	39583510	+	Missense_Mutation	SNP	A	T	T	1	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	ctgtgacctagaatgggcgcAtgcgccgagcggaactggct	8	7	15	11	4	0	2	0	1	0	1	0	4	0	3	2	3	3	2	2	3	3	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:39583510A>T	uc001wuq.2	+	1	23	c.1A>T	c.(1-3)ATG>TTG	p.M1L	SIP1_uc001wur.2_Missense_Mutation_p.M1L|SIP1_uc001wus.2_Missense_Mutation_p.M1L|SIP1_uc010amx.2_RNA	NM_003616	NP_003607	O14893	GEMI2_HUMAN	SMN-interacting protein 1 isoform alpha	1					ncRNA metabolic process|spliceosomal snRNP assembly|spliceosome assembly	Cajal body|cytosol|spliceosomal complex	protein binding				0	Hepatocellular(127;0.213)		Lung(238;0.00047)|LUAD - Lung adenocarcinoma(48;0.000565)	GBM - Glioblastoma multiforme(112;0.0121)		GAATGGGCGCATGCGCCGAGC	0.567													6	20					0	0	0.001168	0	0		T	39583510	T	T	39583510	3	4	215	1	0	0	0	0	1	0	0	0	14352	217	8	5	3	5	SIP1	14	39583510	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	5313936	39583510	67766030	191	107372											
RTN1	6252	broad.mit.edu	37	chr14	60213055	60213055	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtgacgtggccattttccTtctgaagaattccagtaaaa	11	13	9	8	1	1	3	0	2	1	1	3	3	3	3	3	2	0	1	3	2	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:60213055T>C	uc001xen.1	-	2	595	c.386A>G	c.(385-387)AAG>AGG	p.K129R		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	129					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		GCCATTTTCCTTCTGAAGAAT	0.478													12	29					0	0	0.001855	0	0		C	60213055	C	C	60213055	3	2	215	1	0	0	0	0	1	0	0	0	13750	1609	56	3	2041	3	RTN1	14	60213055	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	20629545	60213055	47136485	192	107373											
ACYP1	97	broad.mit.edu	37	chr14	75520211	75520211	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctttttcattgttgaagtttGctttgtcgatgtgtgattta	6	22	9	4	1	1	2	1	2	0	0	2	3	1	2	0	0	1	3	0	0	2	8			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:75520211G>A	uc001xrg.2	-	3	324	c.236C>T	c.(235-237)GCA>GTA	p.A79V	MLH3_uc001xrd.1_5'Flank|MLH3_uc001xre.1_5'Flank|ACYP1_uc001xrf.2_3'UTR	NM_001107	NP_001098	P07311	ACYP1_HUMAN	acylphosphatase 1 isoform a	79	Acylphosphatase-like.				phosphate metabolic process		acylphosphatase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00646)		GTTGAAGTTTGCTTTGTCGAT	0.393													29	61					0	0	0.005443	0	0		A	75520211	A	A	75520211	3	1	215	1	0	0	0	0	1	0	0	0	228	1319	46	2	67	2	ACYP1	14	75520211	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	15307156	75520211	31829329	193	107374											
CCDC88C	440193	broad.mit.edu	37	chr14	91791123	91791123	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggcaccaggcgctacctacCgtctgacaagtctgcgttct	7	9	10	15	4	3	1	0	1	3	0	3	1	3	1	3	2	3	3	3	2	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:91791123C>A	uc010aty.2	-	12	1441	c.1342G>T	c.(1342-1344)GCC>TCC	p.A448S		NM_001080414	NP_001073883	Q9P219	DAPLE_HUMAN	DVL-binding protein DAPLE	448					microtubule cytoskeleton organization|protein destabilization|protein homooligomerization|regulation of protein phosphorylation|Wnt receptor signaling pathway	cytoplasm|insoluble fraction	microtubule binding|PDZ domain binding|protein self-association			ovary(3)	3		all_cancers(154;0.0468)				CGCTACCTACCGTCTGACAAG	0.607													26	47					3.99451e-17	4.64009e-17	0.009535	1	0		A	91791123	A	A	91791123	3	1	215	1	0	0	0	0	1	0	0	0	2868	666	23	5	4820	5	CCDC88C	14	91791123	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	16270912	91791123	15558417	194	107375											
ATG2B	55102	broad.mit.edu	37	chr14	96798640	96798640	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	caaatgtcttatttttacttAcatgtcttctgtaaaggtgt	10	19	6	6	0	3	0	0	0	3	0	3	0	3	0	0	1	2	1	0	1	6	7			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:96798640A>T	uc001yfi.2	-	10	1833	c.1468_splice	c.e10+1	p.S490_splice		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B											ovary(1)|kidney(1)|skin(1)	3		all_cancers(154;0.0462)|all_epithelial(191;0.123)|Melanoma(154;0.155)		Epithelial(152;0.21)|COAD - Colon adenocarcinoma(157;0.244)		ATTTTTACTTACATGTCTTCT	0.378													23	47					0	0	0.00333	0	0		T	96798640	T	T	96798640	5	4	215	1	0	0	0	0	0	0	1	0	1095	405	14	5	4898	5	ATG2B	14	96798640	Splice_Site	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	5007517	96798640	10550900	195	107376											
TRMT61A	115708	broad.mit.edu	37	chr14	103996627	103996627	+	Silent	SNP	C	A	A	0	0	0	1	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	atgttggagcttcggcccggCtctgtggtctgtgagtctgg	3	13	16	9	2	3	1	0	1	3	0	4	2	3	2	1	5	1	3	1	5	0	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:103996627C>A	uc001yng.2	+	2	431	c.312C>A	c.(310-312)GGC>GGA	p.G104G	TRMT61A_uc010aws.2_Intron	NM_152307	NP_689520	Q96FX7	TRM61_HUMAN	tRNA(m1A58)-methyltransferase subunit TRM61	104						nucleus	protein binding|tRNA (adenine-N1-)-methyltransferase activity				0						TTCGGCCCGGCTCTGTGGTCT	0.592													16	51					2.32078e-09	2.54181e-09	0.003163	1	0		A	103996627	A	A	103996627	2	1	215	1	0	0	0	0	0	0	0	1	16595	784	28	5		5	TRMT61A	14	103996627	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	7197987	103996627	3352913	196	107377											
C14orf80	283643	broad.mit.edu	37	chr14	105960171	105960171	+	Splice_Site	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ggtctgcactacctgttttaGatccacctgtacacacgcgg	8	11	9	13	2	1	1	0	0	1	1	2	1	2	1	3	2	3	3	3	2	3	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr14:105960171G>C	uc001yrm.2	+	5	713	c.586_splice	c.e5-1	p.I196_splice	C14orf80_uc001yrj.2_Intron|C14orf80_uc001yrk.2_Intron|C14orf80_uc001yrn.2_Splice_Site_p.I196_splice|C14orf80_uc001yro.2_Intron|C14orf80_uc010tys.1_Splice_Site_p.I18_splice	NM_001134875	NP_001128347	Q86SX3	CN080_HUMAN	hypothetical protein LOC283643 isoform 1												0		Melanoma(154;0.226)	OV - Ovarian serous cystadenocarcinoma(23;0.00596)|Epithelial(46;0.0188)	Epithelial(152;0.239)		ACCTGTTTTAGATCCACCTGT	0.607													11	19					0	0	0.013537	0	0		C	105960171	C	C	105960171	5	2	215	1	0	0	0	0	0	0	1	0	1784	956	33	5	631	5	C14orf80	14	105960171	Splice_Site	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1963544	105960171	1389369	197	107378											
OR4N4	283694	broad.mit.edu	37	chr15	22382673	22382673	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttatttctgggcaacttggcCttcctggatgcatcctactc	6	15	8	12	0	1	0	0	0	1	0	4	1	3	1	3	3	3	2	3	3	3	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:22382673C>A	uc001yuc.1	+	7	1182	c.201C>A	c.(199-201)GCC>GCA	p.A67A	LOC727924_uc001yub.1_RNA|OR4N4_uc010tzv.1_Silent_p.A67A	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		GCAACTTGGCCTTCCTGGATG	0.483													38	270					1.54043e-34	1.87791e-34	0.01441	1	0		A	22382673	A	A	22382673	2	1	215	1	0	0	0	0	0	0	0	1	11097	668	24	5		5	OR4N4	15	22382673	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		22382673	80148719	198	107379											
EXD1	161829	broad.mit.edu	37	chr15	41482139	41482139	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	agagagctgcacctacctcaGtgcctccaagccggtctgca	9	7	10	15	1	2	1	1	0	1	1	3	2	3	1	5	1	6	3	5	1	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:41482139G>A	uc001znk.2	-	9	1069	c.878C>T	c.(877-879)ACT>ATT	p.T293I	EXD1_uc001znj.2_Missense_Mutation_p.T91I|EXD1_uc010ucv.1_Missense_Mutation_p.T351I	NM_152596	NP_689809	Q8NHP7	EXD1_HUMAN	exonuclease 3'-5' domain containing 1	293					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding			ovary(1)	1						ACCTACCTCAGTGCCTCCAAG	0.517													53	36					0	0	0.01441	0	0		A	41482139	A	A	41482139	3	1	215	1	0	0	0	0	1	0	0	0	5305	1029	36	4	674	4	EXD1	15	41482139	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	19099466	41482139	61049253	199	107380											
SPTBN5	51332	broad.mit.edu	37	chr15	42171635	42171635	+	Missense_Mutation	SNP	A	G	G	1	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	actcctgcagaaaactgcacActtccacactgtgtgccagc	11	8	7	15	0	0	1	0	0	0	1	2	1	2	1	3	0	5	2	3	0	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:42171635A>G	uc001zos.2	-	16	3233	c.2900T>C	c.(2899-2901)GTG>GCG	p.V967A		NM_016642	NP_057726	Q9NRC6	SPTN5_HUMAN	spectrin, beta, non-erythrocytic 5	1002					actin cytoskeleton organization|actin filament capping|axon guidance	cytosol|membrane|spectrin				ovary(1)|central_nervous_system(1)	2		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)		AAAACTGCACACTTCCACACT	0.632													9	5					0	0	0.004482	0	0		G	42171635	G	G	42171635	3	3	215	1	0	0	0	0	1	0	0	0	15147	159	6	3	8231	3	SPTBN5	15	42171635	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	689496	42171635	60359757	200	107381											
CCNDBP1	23582	broad.mit.edu	37	chr15	43483628	43483628	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccttactctggcctcttGaatgatactgaggagaacaa	12	10	9	10	0	2	4	0	3	2	1	2	6	2	4	2	2	3	0	2	2	5	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:43483628G>T	uc001zqv.2	+	8	846	c.615G>T	c.(613-615)TTG>TTT	p.L205F	CCNDBP1_uc001zqu.2_Missense_Mutation_p.L77F|CCNDBP1_uc010bdc.2_Missense_Mutation_p.L205F|CCNDBP1_uc010bdb.2_Missense_Mutation_p.L77F|CCNDBP1_uc010udl.1_Missense_Mutation_p.L44F|CCNDBP1_uc001zqw.2_RNA|CCNDBP1_uc001zqx.2_Missense_Mutation_p.L77F|CCNDBP1_uc010bdd.2_Missense_Mutation_p.L77F|CCNDBP1_uc001zqy.2_Missense_Mutation_p.L77F	NM_012142	NP_036274	O95273	CCDB1_HUMAN	cyclin D-type binding-protein 1 isoform 1	205	Required for interaction with CCND1.|Interaction with TCF3.				cell cycle	cytoplasm|nucleus	protein binding			ovary(1)|kidney(1)	2		all_cancers(109;3.31e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.42e-07)		CTGGCCTCTTGAATGATACTG	0.413													37	23					2.00842e-17	2.34089e-17	0.010771	1	0		T	43483628	T	T	43483628	3	4	215	1	0	0	0	0	1	0	0	0	2922	1281	45	5	645	5	CCNDBP1	15	43483628	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1311993	43483628	59047764	201	107382											
TGM7	116179	broad.mit.edu	37	chr15	43572086	43572086	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccaggaagggcaaagaaGctctttgggggcccagcatt	11	7	14	9	0	1	1	0	0	1	1	2	3	2	2	2	4	2	3	2	4	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:43572086G>C	uc001zrf.1	-	10	1420	c.1415C>G	c.(1414-1416)GCT>GGT	p.A472G		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	472					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;9.14e-07)	L-Glutamine(DB00130)	GGGCAAAGAAGCTCTTTGGGG	0.592													52	49					0	0	0.01441	0	0		C	43572086	C	C	43572086	3	2	215	1	0	0	0	0	1	0	0	0	15860	971	34	5	733	5	TGM7	15	43572086	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	88458	43572086	58959306	202	107383											
STRC	161497	broad.mit.edu	37	chr15	43892850	43892850	+	Missense_Mutation	SNP	A	T	T	1	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	tgttcctcagagcactggagAtgcagggtgccgaggaagag	10	7	16	8	1	1	3	1	0	0	3	2	6	2	4	2	3	3	3	2	3	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:43892850A>T	uc001zsf.2	-	26	4953	c.4875T>A	c.(4873-4875)CAT>CAA	p.H1625Q	STRC_uc010bdl.2_Missense_Mutation_p.H852Q|STRC_uc001zse.2_Missense_Mutation_p.H143Q	NM_153700	NP_714544	Q7RTU9	STRC_HUMAN	stereocilin precursor	1625					sensory perception of sound	cell surface					0		all_cancers(109;3.26e-15)|all_epithelial(112;1.48e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.027)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.56e-07)		AGCACTGGAGATGCAGGGTGC	0.537													13	44					0	0	0.013537	0	0		T	43892850	T	T	43892850	3	4	215	1	0	0	0	0	1	0	0	0	15353	330	12	5	468	5	STRC	15	43892850	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	320764	43892850	58638542	203	107384											
ALDH1A2	8854	broad.mit.edu	37	chr15	58306438	58306438	+	Silent	SNP	T	C	C	0	1	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	ggattatagacagggaacacTctcccactctctgagttctg	10	11	9	11	0	3	2	0	1	3	1	5	4	3	4	1	2	1	1	1	2	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:58306438T>C	uc002aex.2	-	2	217	c.159A>G	c.(157-159)AGA>AGG	p.R53R	ALDH1A2_uc002aey.2_Silent_p.R53R|ALDH1A2_uc010ugv.1_Silent_p.R32R|ALDH1A2_uc010ugw.1_Silent_p.R24R|ALDH1A2_uc002aew.2_5'Flank	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	53					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CAGGGAACACTCTCCCACTCT	0.423													47	77					0	0	0.01441	0	0		C	58306438	C	C	58306438	2	2	215	1	0	0	0	0	0	0	0	1	491	1548	54	3		3	ALDH1A2	15	58306438	Silent	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	14413588	58306438	44224954	204	107385											
DAPK2	23604	broad.mit.edu	37	chr15	64200767	64200767	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggagggctttcctcctggcGatgtcctcctcagtgtcact	4	13	11	13	1	2	0	2	0	0	0	6	2	6	1	4	3	0	1	4	3	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:64200767G>A	uc002amr.2	-	12	1096	c.1065C>T	c.(1063-1065)ATC>ATT	p.I355I	DAPK2_uc010uim.1_RNA	NM_014326	NP_055141	Q9UIK4	DAPK2_HUMAN	death-associated kinase 2	355					apoptosis|induction of apoptosis|intracellular protein kinase cascade	cytoplasm	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|identical protein binding			stomach(1)|central_nervous_system(1)	2				LUAD - Lung adenocarcinoma(2;0.215)		TCCTCCTGGCGATGTCCTCCT	0.617													9	10					0	0	0.006214	0	0		A	64200767	A	A	64200767	2	1	215	1	0	0	0	0	0	0	0	1	4239	1048	37	1		1	DAPK2	15	64200767	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	5894329	64200767	38330625	205	107386											
LARP6	55323	broad.mit.edu	37	chr15	71124440	71124440	+	Missense_Mutation	SNP	T	G	G	0	1	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	catgaaatcctctggtgttgTcaggacccctgggcaacctc	8	10	10	13	0	2	1	1	1	1	0	4	2	3	2	4	3	1	2	4	3	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:71124440T>G	uc002ass.2	-	3	1498	c.1427A>C	c.(1426-1428)GAC>GCC	p.D476A		NM_018357	NP_060827	Q9BRS8	LARP6_HUMAN	La ribonucleoprotein domain family, member 6	476					RNA processing	Golgi apparatus|nucleus|ribonucleoprotein complex	nucleotide binding|RNA binding				0						TCTGGTGTTGTCAGGACCCCT	0.527													32	78					0	0	0.013726	0	0		G	71124440	G	G	71124440	3	3	215	1	0	0	0	0	1	0	0	0	8648	1667	58	5	52	5	LARP6	15	71124440	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	6923673	71124440	31406952	206	107387											
PKM2	5315	broad.mit.edu	37	chr15	72499084	72499084	+	Silent	SNP	C	T	T	0	0	0	1	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	ctcaccaggtgctgcatgcgCacagcctccagaggatagtc	9	7	11	14	1	1	1	1	0	0	1	3	2	2	2	3	2	4	3	3	2	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:72499084C>T	uc002atx.1	-	8	1366	c.1125G>A	c.(1123-1125)GTG>GTA	p.V375V	PKM2_uc002ats.1_Silent_p.V42V|PKM2_uc002att.1_Silent_p.V141V|PKM2_uc002atu.1_Silent_p.V141V|PKM2_uc010bit.1_Silent_p.V380V|PKM2_uc010uki.1_Silent_p.V449V|PKM2_uc002atv.1_Silent_p.V410V|PKM2_uc002atw.1_Silent_p.V375V|PKM2_uc002aty.1_Silent_p.V375V|PKM2_uc010ukj.1_Silent_p.V360V|PKM2_uc010ukk.1_Silent_p.V301V|PKM2_uc010biu.1_Silent_p.V396V|PKM2_uc002atz.1_RNA	NM_182471	NP_872271	P14618	KPYM_HUMAN	pyruvate kinase, muscle isoform M1	375	Interaction with POU5F1.				glycolysis|programmed cell death	cytosol|nucleus|plasma membrane	ATP binding|magnesium ion binding|potassium ion binding|protein binding|pyruvate kinase activity			breast(1)	1					Pyruvic acid(DB00119)	GCTGCATGCGCACAGCCTCCA	0.597													42	25					0	0	0.011902	0	0		T	72499084	T	T	72499084	2	4	215	1	0	0	0	0	0	0	0	1	11996	697	25	2		2	PKM2	15	72499084	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1374644	72499084	30032308	207	107388											
CPLX3	594855	broad.mit.edu	37	chr15	75122677	75122677	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gatctcaagcaatcagctgaGaagtgtcacgtcatgtgacc	12	9	10	10	1	4	2	4	2	1	1	5	4	4	2	1	0	2	2	1	0	3	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr15:75122677G>T	uc002ayu.1	+	3	553	c.459G>T	c.(457-459)GAG>GAT	p.E153D		NM_001030005	NP_001025176	Q8WVH0	CPLX3_HUMAN	complexin 3 precursor	153						cell junction|synapse	syntaxin binding				0						AATCAGCTGAGAAGTGTCACG	0.592													6	25					0.00198382	0.00204304	0.001984	1	0		T	75122677	T	T	75122677	3	4	215	1	0	0	0	0	1	0	0	0	3809	933	33	5	469	5	CPLX3	15	75122677	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2623593	75122677	27408715	208	107389											
BAIAP3	8938	broad.mit.edu	37	chr16	1395887	1395887	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggggctgggcacccagcttgGccaggtgtgtgggtgggccc	3	7	20	11	0	0	0	0	0	0	0	0	0	0	0	3	7	1	3	3	7	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr16:1395887G>T	uc002clk.1	+	23	2309	c.2309G>T	c.(2308-2310)GGC>GTC	p.G770V	BAIAP3_uc002clj.2_Missense_Mutation_p.G752V|BAIAP3_uc010uuz.1_Missense_Mutation_p.G735V|BAIAP3_uc010uva.1_Missense_Mutation_p.G707V|BAIAP3_uc010uvc.1_Missense_Mutation_p.G699V	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	770	MHD1.				G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				ACCCAGCTTGGCCAGGTGTGT	0.706													4	10					2.56e-06	2.7092e-06	0.009096	1	0		T	1395887	T	T	1395887	3	4	215	1	0	0	0	0	1	0	0	0	1305	1203	42	5	2399	5	BAIAP3	16	1395887	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08		1395887	88958866	209	107390											
SEZ6L2	26470	broad.mit.edu	37	chr16	29888680	29888680	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtgtgaggtcgggcccagaGgagagaaggcggcggcgcgg	8	3	22	8	5	0	3	0	1	0	2	1	5	0	4	1	7	0	0	1	7	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr16:29888680G>A	uc002duq.3	-	11	2061	c.1821C>T	c.(1819-1821)TCC>TCT	p.S607S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Silent_p.S537S|SEZ6L2_uc002dur.3_Silent_p.S537S|SEZ6L2_uc002dus.3_Silent_p.S493S|SEZ6L2_uc010vec.1_Silent_p.S607S|SEZ6L2_uc010ved.1_Silent_p.S563S	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	607	CUB 3.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						CGGGCCCAGAGGAGAGAAGGC	0.672													20	16					0	0	0.010504	0	0		A	29888680	A	A	29888680	2	1	215	1	0	0	0	0	0	0	0	1	14169	987	35	4		4	SEZ6L2	16	29888680	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	28492793	29888680	60466073	210	107391											
STX4	6810	broad.mit.edu	37	chr16	31049878	31049878	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caggccttaaatgagatctcGgcccggcacagtgagatcca	11	7	11	12	2	1	2	0	2	1	2	3	4	2	2	3	3	0	1	3	3	2	1	rs114513418	by1000genomes	TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr16:31049878G>A	uc002eal.2	+	8	836	c.612G>A	c.(610-612)TCG>TCA	p.S204S	STX4_uc002eak.2_Silent_p.S202S|STX4_uc002eam.2_Silent_p.S126S	NM_004604	NP_004595	Q12846	STX4_HUMAN	syntaxin 4	204	Cytoplasmic (Potential).|Interaction with CENPF (By similarity).|t-SNARE coiled-coil homology.				intracellular protein transport|platelet activation|post-Golgi vesicle-mediated transport	basolateral plasma membrane|cell surface|cytosol|integral to membrane|plasma membrane enriched fraction|specific granule|vacuole	SNAP receptor activity				0						ATGAGATCTCGGCCCGGCACA	0.572													34	13					0	0	0.010818	0	0		A	31049878	A	A	31049878	2	1	215	1	0	0	0	0	0	0	0	1	15372	1103	39	1		1	STX4	16	31049878	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1161198	31049878	59304875	211	107392											
RLTPR	146206	broad.mit.edu	37	chr16	67686189	67686189	+	Frame_Shift_Del	DEL	G	-	-																															agcccagcctccttgagcctGgggaattggaaggtcttttc																										TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr16:67686189delG	uc002etn.2	+	27	2884	c.2764delG	c.(2764-2766)GGGfs	p.G922fs	RLTPR_uc010cel.1_Frame_Shift_Del_p.G915fs|RLTPR_uc010vjr.1_Frame_Shift_Del_p.G886fs|RLTPR_uc010vjs.1_5'Flank	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	922	Pro-rich.									breast(1)	1		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)		CCTTGAGCCTGGGGAATTGGA	0.498													55	50	---	---	---	---						.	-	67686189	-	-	67686189	7	5	215	1	0	1	0	1	0	0	0	0	13419	1348	47	0	2870	0	RLTPR	16	67686189	Frame_Shift_Del	DEL	G	TCGA-HU-A4H5-01A-21D-A25D-08	36636311	67686189	22668564	212	107393											
MARVELD3	91862	broad.mit.edu	37	chr16	71668441	71668441	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	cttgttggacatgctcatcgCgggggggtacatcccggcct	5	10	14	12	3	1	0	1	0	0	0	3	1	2	1	2	5	2	3	2	5	1	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr16:71668441C>A	uc002fat.2	+	3	1004	c.941C>A	c.(940-942)GCG>GAG	p.A314E	MARVELD3_uc002fau.2_Intron|MARVELD3_uc010cge.2_Intron	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	314	MARVEL.|Helical; (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				ATGCTCATCGCGGGGGGGTAC	0.577													30	18					1.08312e-15	1.24145e-15	0.009535	1	0		A	71668441	A	A	71668441	3	1	215	1	0	0	0	0	1	0	0	0	9337	768	27	5	951	5	MARVELD3	16	71668441	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	3982252	71668441	18686312	213	107394											
ATP2A3	489	broad.mit.edu	37	chr17	3839595	3839595	+	Missense_Mutation	SNP	A	C	C	1	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	tatcggaagaagagccagccActgatgagggcttctcgggg	10	7	15	9	2	1	4	0	2	1	2	3	5	1	5	2	4	2	1	2	4	3	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:3839595A>C	uc002fxb.1	-	16	2641	c.2490T>G	c.(2488-2490)AGT>AGG	p.S830R	ATP2A3_uc002fwx.1_Missense_Mutation_p.S830R|ATP2A3_uc002fwy.1_Missense_Mutation_p.S830R|ATP2A3_uc002fwz.1_Missense_Mutation_p.S830R|ATP2A3_uc002fxa.1_Missense_Mutation_p.S830R|ATP2A3_uc002fxc.1_Missense_Mutation_p.S830R|ATP2A3_uc002fxd.1_Missense_Mutation_p.S830R	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	830	Helical; Name=7; (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		AGAGCCAGCCACTGATGAGGG	0.602													33	50					0	0	0.010818	0	0		C	3839595	C	C	3839595	3	2	215	1	0	0	0	0	1	0	0	0	1139	156	6	5	744	5	ATP2A3	17	3839595	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08		3839595	77355615	214	107395											
SPNS2	124976	broad.mit.edu	37	chr17	4416589	4416589	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttggggtcaaggaccgaggcGccggcctgctgcagtcaggt	6	7	17	11	3	2	0	2	0	0	0	2	2	2	1	3	6	2	2	3	6	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:4416589G>A	uc002fxx.2	+	2	632	c.418G>A	c.(418-420)GCC>ACC	p.A140T		NM_001124758	NP_001118230	Q8IVW8	SPNS2_HUMAN	spinster homolog 2	140					lipid transport|transmembrane transport	integral to membrane					0						GGACCGAGGCGCCGGCCTGCT	0.667													62	17					0	0	0.01441	0	0		A	4416589	A	A	4416589	3	1	215	1	0	0	0	0	1	0	0	0	15100	1087	38	1	424	1	SPNS2	17	4416589	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	576994	4416589	76778621	215	107396											
NLRP1	22861	broad.mit.edu	37	chr17	5442791	5442791	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcacagagcagtcgcacGccaacgtcatccaggttgtt	9	8	9	15	3	2	1	2	0	0	1	4	1	3	1	3	1	2	4	3	1	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:5442791G>A	uc002gci.2	-	7	3369	c.2814C>T	c.(2812-2814)GGC>GGT	p.G938G	NLRP1_uc002gcg.1_Silent_p.G938G|NLRP1_uc002gck.2_Silent_p.G938G|NLRP1_uc002gcj.2_Silent_p.G938G|NLRP1_uc002gcl.2_Silent_p.G938G|NLRP1_uc002gch.3_Silent_p.G938G|NLRP1_uc010clh.2_Silent_p.G938G	NM_033004	NP_127497	Q9C000	NALP1_HUMAN	NLR family, pyrin domain containing 1 isoform 1	938	LRR 5.				defense response to bacterium|induction of apoptosis|neuron apoptosis|positive regulation of interleukin-1 beta secretion|response to muramyl dipeptide	cytoplasm|NALP1 inflammasome complex|nucleus	ATP binding|caspase activator activity|enzyme binding|protein domain specific binding			lung(4)|breast(2)|ovary(1)|central_nervous_system(1)|skin(1)	9		Colorectal(1115;3.48e-05)				GCAGTCGCACGCCAACGTCAT	0.622													6	27					0	0	0.001168	0	0		A	5442791	A	A	5442791	2	1	215	1	0	0	0	0	0	0	0	1	10490	1074	38	1		1	NLRP1	17	5442791	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1026202	5442791	75752419	216	107397											
CHD3	1107	broad.mit.edu	37	chr17	7794305	7794305	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgcttctgacctggggcctGgaggatgtggagcatgtgtt	5	12	16	8	0	1	1	0	1	1	0	1	4	1	4	2	5	2	3	2	5	0	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:7794305G>T	uc002gje.2	+	4	582	c.432G>T	c.(430-432)CTG>CTT	p.L144L	CHD3_uc002gjd.2_Silent_p.L203L|CHD3_uc002gjf.2_Silent_p.L144L|CHD3_uc002gjg.1_5'UTR	NM_001005273	NP_001005273	Q12873	CHD3_HUMAN	chromodomain helicase DNA binding protein 3	144					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	microtubule organizing center|NuRD complex	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(1)	1		Prostate(122;0.202)				CCTGGGGCCTGGAGGATGTGG	0.552													29	91					4.74835e-14	5.38876e-14	0.010818	1	0		T	7794305	T	T	7794305	2	4	215	1	0	0	0	0	0	0	0	1	3329	1335	47	5		5	CHD3	17	7794305	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2351514	7794305	73400905	217	107398											
AURKB	9212	broad.mit.edu	37	chr17	8108360	8108360	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaagcggggaactttaggtcCacctgcaggtgtgaagagat	11	8	15	7	1	0	2	0	1	0	1	1	5	1	3	2	4	3	1	2	4	4	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:8108360C>T	uc002gkm.2	-	9	925	c.864G>A	c.(862-864)GTG>GTA	p.V288V	AURKB_uc010cnu.2_Silent_p.V108V|AURKB_uc002gkn.2_Silent_p.V289V|AURKB_uc010vuu.1_Silent_p.V247V|AURKB_uc002gko.2_RNA	NM_004217	NP_004208	Q96GD4	AURKB_HUMAN	aurora kinase B	288	Protein kinase.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|mitotic prometaphase|protein localization to kinetochore	chromosome passenger complex|condensed nuclear chromosome, centromeric region|cytosol|spindle	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(2)|breast(1)|central_nervous_system(1)	4						ACTTTAGGTCCACCTGCAGGT	0.557													5	15					0	0	0.001984	0	0		T	8108360	T	T	8108360	2	4	215	1	0	0	0	0	0	0	0	1	1224	581	21	4		4	AURKB	17	8108360	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	314055	8108360	73086850	218	107399											
EVPLL	645027	broad.mit.edu	37	chr17	18284926	18284926	+	Silent	SNP	G	A	A																															cttcttgacagcatcgagcaGctgcacgagcgggtgaccca																										TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:18284926G>A	uc002gte.2	+	4	483	c.228G>A	c.(226-228)CAG>CAA	p.Q76Q		NM_001145127	NP_001138599	A8MZ36	EVPLL_HUMAN	envoplakin-like	76	Potential.										0						GCATCGAGCAGCTGCACGAGC	0.662													15	43					0	0	0.00499	0	0		A	18284926	A	A	18284926	2	1	215	1	0	0	0	0	0	0	0	1	5301	962	34	2		2	EVPLL	17	18284926	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	10176566	18284926	62910284	219	107400	194	2									
EVPLL	645027	broad.mit.edu	37	chr17	18284928	18284928	+	Missense_Mutation	SNP	T	C	C																															tcttgacagcatcgagcagcTgcacgagcgggtgacccagg																										TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:18284928T>C	uc002gte.2	+	4	485	c.230T>C	c.(229-231)CTG>CCG	p.L77P		NM_001145127	NP_001138599	A8MZ36	EVPLL_HUMAN	envoplakin-like	77	Potential.										0						ATCGAGCAGCTGCACGAGCGG	0.662													14	45					0	0	0.004007	0	0		C	18284928	C	C	18284928	3	2	215	1	0	0	0	0	1	0	0	0	5301	1580	55	3	240	3	EVPLL	17	18284928	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	2	18284928	62910282	220	107401	194	2									
SLC6A4	6532	broad.mit.edu	37	chr17	28537594	28537594	+	Missense_Mutation	SNP	T	C	C	0	1	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	ccacggcgagcacgaaccgcTcccggcgcttggcccagacg	7	3	13	18	7	0	1	0	0	0	1	1	3	1	1	4	3	2	3	4	3	1	1	rs35514331		TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:28537594T>C	uc002hey.3	-	11	1932	c.1388A>G	c.(1387-1389)GAG>GGG	p.E463G	SLC6A4_uc010csg.2_RNA	NM_001045	NP_001036	P31645	SC6A4_HUMAN	solute carrier family 6 member 4	463					response to toxin|serotonin uptake|thalamus development	cytosol|endomembrane system|endosome membrane|membrane raft	actin filament binding|Rab GTPase binding|serotonin transmembrane transporter activity|serotonin:sodium symporter activity			skin(3)|ovary(1)	4					Amineptine(DB04836)|Amitriptyline(DB00321)|Amoxapine(DB00543)|Citalopram(DB00215)|Clomipramine(DB01242)|Cocaine(DB00907)|Desipramine(DB01151)|Dexfenfluramine(DB01191)|Dextromethorphan(DB00514)|Doxepin(DB01142)|Duloxetine(DB00476)|Escitalopram(DB01175)|Fluoxetine(DB00472)|Fluvoxamine(DB00176)|Imipramine(DB00458)|Methylphenidate(DB00422)|Milnacipran(DB04896)|Minaprine(DB00805)|Nefazodone(DB01149)|Nortriptyline(DB00540)|Paroxetine(DB00715)|Phentermine(DB00191)|Protriptyline(DB00344)|Sertraline(DB01104)|Sibutramine(DB01105)|Tegaserod(DB01079)|Tramadol(DB00193)|Trazodone(DB00656)|Trimipramine(DB00726)|Venlafaxine(DB00285)|Zimelidine(DB04832)	CACGAACCGCTCCCGGCGCTT	0.597													26	91					0	0	0.00632	0	0		C	28537594	C	C	28537594	3	2	215	1	0	0	0	0	1	0	0	0	14711	1551	54	3	524	3	SLC6A4	17	28537594	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	10252666	28537594	52657616	221	107402											
MSL1	339287	broad.mit.edu	37	chr17	38282661	38282661	+	Splice_Site	SNP	T	A	A	0	1	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	gtggaaagggacataaaaggTgtgctgataactttgtttga	13	12	13	3	0	0	2	0	2	0	0	0	4	0	4	0	3	2	2	0	3	4	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:38282661T>A	uc002hub.2	+	2	408	c.389_splice	c.e2+2	p.R130_splice	MSL1_uc002hua.3_Splice_Site_p.R68_splice|MSL1_uc002huc.2_Splice_Site_p.R68_splice	NM_001012241	NP_001012241	Q68DK7	MSL1_HUMAN	hampin						histone H4-K16 acetylation	MSL complex					0						ACATAAAAGGTGTGCTGATAA	0.448													8	17					0	0	0.004482	0	0		A	38282661	A	A	38282661	5	1	215	1	0	0	0	0	0	0	1	0	9895	1710	59	5	207	5	MSL1	17	38282661	Splice_Site	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	9745067	38282661	42912549	222	107403											
TNS4	84951	broad.mit.edu	37	chr17	38645216	38645216	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggaggtcacctcgatgtactTtatgtctttgggggagaaaa	10	12	13	6	1	2	1	1	0	1	1	3	4	2	2	1	4	1	1	1	4	4	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:38645216T>A	uc010cxb.2	-	3	609	c.445A>T	c.(445-447)AAG>TAG	p.K149*		NM_032865	NP_116254	Q8IZW8	TENS4_HUMAN	tensin 4 precursor	149					apoptosis|protein localization	cytoplasm|cytoskeleton|focal adhesion	actin binding			large_intestine(1)|ovary(1)|central_nervous_system(1)|skin(1)	4		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(5;5.91e-05)			TCGATGTACTTTATGTCTTTG	0.443													43	33					0	0	0.01441	0	0		A	38645216	A	A	38645216	4	1	215	1	0	0	0	0	0	1	0	0	16370	1850	64	5	1746	5	TNS4	17	38645216	Nonsense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	362555	38645216	42549994	223	107404											
KRT9	3857	broad.mit.edu	37	chr17	39728197	39728197	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaggccgcccccgccaccCccgccgctgcggctcaagta	5	3	10	23	5	1	0	1	0	0	0	1	0	1	0	8	2	1	3	8	2	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:39728197C>T	uc002hxe.3	-	1	114	c.48G>A	c.(46-48)GGG>GGA	p.G16G	JUP_uc010wfs.1_Intron	NM_000226	NP_000217	P35527	K1C9_HUMAN	keratin 9	16	Poly-Gly.|Head.				intermediate filament organization|skin development		protein binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Breast(137;0.000307)				CCCCGCCACCCCCGCCGCTGC	0.647													7	2					0	0	0.004482	0	0		T	39728197	T	T	39728197	2	4	215	1	0	0	0	0	0	0	0	1	8517	610	22	4		4	KRT9	17	39728197	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1082981	39728197	41467013	224	107405											
RUNDC3A	10900	broad.mit.edu	37	chr17	42392111	42392111	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcctccccacagacggttctAtgactctggagccatcatgc	8	9	9	15	1	3	2	1	1	2	1	4	3	4	3	4	2	2	1	4	2	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:42392111A>G	uc002igl.3	+	5	741	c.467A>G	c.(466-468)TAT>TGT	p.Y156C	RUNDC3A_uc002igi.2_Missense_Mutation_p.Y156C|RUNDC3A_uc002igj.2_Missense_Mutation_p.Y151C|RUNDC3A_uc002igk.2_Missense_Mutation_p.Y152C	NM_001144825	NP_001138297	Q59EK9	RUN3A_HUMAN	RUN domain containing 3A isoform 1	156	Interaction with RAP2A (By similarity).|RUN.				small GTPase mediated signal transduction		small GTPase regulator activity				0		Prostate(33;0.0233)		BRCA - Breast invasive adenocarcinoma(366;0.189)		AGACGGTTCTATGACTCTGGA	0.642													5	52					0	0	0.00308	0	0		G	42392111	G	G	42392111	3	3	215	1	0	0	0	0	1	0	0	0	13769	449	16	3	485	3	RUNDC3A	17	42392111	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	2663914	42392111	38803099	225	107406											
HIGD1B	51751	broad.mit.edu	37	chr17	42926756	42926756	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagtgggtgcaatcatgctaGgtgagtagctttgtggggtc	7	12	16	6	0	1	1	1	1	0	0	2	1	1	1	0	4	3	4	0	4	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:42926756G>C	uc002ihm.2	+	2	477	c.235G>C	c.(235-237)GGT>CGT	p.G79R		NM_016438	NP_057522	Q9P298	HIG1B_HUMAN	HIG1 hypoxia inducible domain family, member 1B	79	HIG1.|Helical; (Potential).					integral to membrane					0		Prostate(33;0.109)				AATCATGCTAGGTGAGTAGCT	0.483													25	38					0	0	0.00632	0	0		C	42926756	C	C	42926756	3	2	215	1	0	0	0	0	1	0	0	0	7123	1014	35	5	241	5	HIGD1B	17	42926756	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	534645	42926756	38268454	226	107407											
KIF18B	146909	broad.mit.edu	37	chr17	43005443	43005443	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	cagctcctggggtattttgtCccagccaatgcattcatgga	8	12	10	11	0	1	0	1	0	0	0	3	1	3	1	3	3	3	3	3	3	2	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:43005443C>G	uc010wji.1	-	13	2337	c.2236G>C	c.(2236-2238)GAC>CAC	p.D746H	KIF18B_uc002iht.2_Missense_Mutation_p.D755H|KIF18B_uc010wjh.1_Missense_Mutation_p.D743H	NM_001080443	NP_001073912			kinesin family member 18B											ovary(2)	2		Prostate(33;0.155)				GGTATTTTGTCCCAGCCAATG	0.602													5	38					0	0	0.001168	0	0		G	43005443	G	G	43005443	3	3	215	1	0	0	0	0	1	0	0	0	8297	855	30	5	346	5	KIF18B	17	43005443	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	78687	43005443	38189767	227	107408											
UTP18	51096	broad.mit.edu	37	chr17	49354532	49354532	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaaattcagagcatctatttGgaaaggtttccaatctttaa	15	14	6	6	0	3	1	1	0	2	1	4	2	4	2	1	2	1	2	1	2	6	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:49354532G>C	uc002its.2	+	7	928	c.879G>C	c.(877-879)TTG>TTC	p.L293F		NM_016001	NP_057085	Q9Y5J1	UTP18_HUMAN	UTP18, small subunit processome component	293	WD 2.				rRNA processing	nucleolus					0			BRCA - Breast invasive adenocarcinoma(22;2.09e-07)			GCATCTATTTGGAAAGGTTTC	0.383													30	69					0	0	0.009535	0	0		C	49354532	C	C	49354532	3	2	215	1	0	0	0	0	1	0	0	0	17124	1339	47	5	905	5	UTP18	17	49354532	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	6349089	49354532	31840678	228	107409											
KIF2B	84643	broad.mit.edu	37	chr17	51900950	51900950	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ataccagaaaccccaactacGaaatcatgcacatgatcgaa	18	6	5	12	2	1	2	1	1	0	1	2	4	1	2	3	0	5	1	3	0	6	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:51900950G>A	uc002iua.2	+	1	712	c.556G>A	c.(556-558)GAA>AAA	p.E186K	uc010wna.1_RNA	NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	186					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)|skin(3)	8						CCCCAACTACGAAATCATGCA	0.567													66	88					0	0	0.01441	0	0		A	51900950	A	A	51900950	3	1	215	1	0	0	0	0	1	0	0	0	8314	1059	37	1	558	1	KIF2B	17	51900950	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2546418	51900950	29294260	229	107410											
HEATR6	63897	broad.mit.edu	37	chr17	58123518	58123518	+	Missense_Mutation	SNP	T	G	G	0	1	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	ctcaatgatttctgcaaatgTgggtttttctatatgagagg	10	16	10	5	0	3	2	1	2	2	1	3	3	3	2	0	2	1	2	0	2	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:58123518T>G	uc002iyk.1	-	19	2859	c.2842A>C	c.(2842-2844)ACA>CCA	p.T948P	HEATR6_uc010ddk.1_Missense_Mutation_p.T487P|HEATR6_uc010wos.1_Missense_Mutation_p.T668P	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	948							binding			ovary(1)|skin(1)	2	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)			TCTGCAAATGTGGGTTTTTCT	0.398													31	100					0	0	0.013726	0	0		G	58123518	G	G	58123518	3	3	215	1	0	0	0	0	1	0	0	0	7049	1696	59	5	711	5	HEATR6	17	58123518	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	6222568	58123518	23071692	230	107411											
DDX5	1655	broad.mit.edu	37	chr17	62496077	62496077	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gttggcattggataaccaatCataggtgcagctgcagtagc	11	10	12	8	0	1	0	1	0	0	0	1	1	1	1	1	3	5	6	1	3	4	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:62496077C>T	uc002jek.2	-	13	2056	c.1809G>A	c.(1807-1809)ATG>ATA	p.M603I	POLG2_uc002jei.2_5'Flank|POLG2_uc010deg.1_5'Flank|DDX5_uc010deh.2_Missense_Mutation_p.M603I|DDX5_uc002jej.2_Missense_Mutation_p.M498I|DDX5_uc010wqa.1_Missense_Mutation_p.M524I	NM_004396	NP_004387	P17844	DDX5_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 5	603					cell growth|regulation of alternative nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA helicase activity|transcription cofactor activity			ovary(2)|lung(1)	3	Breast(5;2.15e-14)		BRCA - Breast invasive adenocarcinoma(8;8.6e-12)			GATAACCAATCATAGGTGCAG	0.363			T	ETV4	prostate								18	52					0	0	0.010504	0	0		T	62496077	T	T	62496077	3	4	215	1	0	0	0	0	1	0	0	0	4370	826	29	4	39	4	DDX5	17	62496077	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	4372559	62496077	18699133	231	107412											
AXIN2	8313	broad.mit.edu	37	chr17	63554148	63554148	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	cccccactcctcacatattcGaggtatatatcagaagtcaa	13	10	5	13	1	3	1	3	0	0	1	5	2	4	1	3	1	0	1	3	1	6	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:63554148G>C	uc002jfi.2	-	2	880	c.591C>G	c.(589-591)CTC>CTG	p.L197L	AXIN2_uc010den.1_Silent_p.L197L|AXIN2_uc002jfh.2_Silent_p.L197L|AXIN2_uc002jfj.1_Silent_p.L197L	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	197	RGS.				cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						TCACATATTCGAGGTATATAT	0.483									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				39	79					0	0	0.00623	0	0		C	63554148	C	C	63554148	2	2	215	1	0	0	0	0	0	0	0	1	1238	1045	37	5		5	AXIN2	17	63554148	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1058071	63554148	17641062	232	107413											
BPTF	2186	broad.mit.edu	37	chr17	65862627	65862627	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaagaaaatttggtattacaGcacaaaggtccaacttgcag	17	9	8	7	0	0	1	0	0	0	1	1	1	1	1	1	2	4	3	1	2	7	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:65862627G>C	uc002jgf.2	+	3	1545	c.1484G>C	c.(1483-1485)AGC>ACC	p.S495T	BPTF_uc002jge.2_Missense_Mutation_p.S495T|BPTF_uc010wqm.1_Missense_Mutation_p.S495T	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	495					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			ovary(2)|skin(2)	4	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			TGGTATTACAGCACAAAGGTC	0.333													60	66					0	0	0.01441	0	0		C	65862627	C	C	65862627	3	2	215	1	0	0	0	0	1	0	0	0	1498	971	34	5	1494	5	BPTF	17	65862627	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2308479	65862627	15332583	233	107414											
ABCA8	10351	broad.mit.edu	37	chr17	66929370	66929370	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aaccttccttccaaaatactGaaacttcacagtaaacatct	16	11	2	12	0	2	1	1	1	1	0	4	1	4	1	3	0	4	1	3	0	7	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:66929370G>C	uc002jhp.2	-	5	688	c.509C>G	c.(508-510)TCA>TGA	p.S170*	ABCA8_uc002jhq.2_Nonsense_Mutation_p.S170*|ABCA8_uc010wqq.1_Nonsense_Mutation_p.S170*|ABCA8_uc010wqr.1_Nonsense_Mutation_p.S109*|ABCA8_uc002jhr.2_Nonsense_Mutation_p.S170*|ABCA8_uc002jhs.2_Nonsense_Mutation_p.S170*|ABCA8_uc002jht.2_Nonsense_Mutation_p.S170*	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	170						integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CCAAAATACTGAAACTTCACA	0.299													30	135					0	0	0.009535	0	0		C	66929370	C	C	66929370	4	2	215	1	0	0	0	0	0	1	0	0	38	1294	45	5	4372	5	ABCA8	17	66929370	Nonsense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1066743	66929370	14265840	234	107415											
AZI1	22994	broad.mit.edu	37	chr17	79180992	79180992	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	tggcaggcctctttttcccaCtggggctgccctcgaagagc	5	10	12	14	1	1	1	0	0	1	1	3	2	2	1	3	4	2	2	3	4	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:79180992C>G	uc002jzp.1	-	4	520	c.320G>C	c.(319-321)AGT>ACT	p.S107T	AZI1_uc002jzn.1_Missense_Mutation_p.S107T|AZI1_uc002jzo.1_Missense_Mutation_p.S107T|AZI1_uc010wum.1_Missense_Mutation_p.S107T	NM_014984	NP_055799	Q9UPN4	AZI1_HUMAN	5-azacytidine induced 1 isoform a	107					cell differentiation|G2/M transition of mitotic cell cycle|multicellular organismal development|spermatogenesis	centrosome|cytosol|intracellular membrane-bounded organelle				central_nervous_system(2)|large_intestine(1)|ovary(1)	4	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			CTTTTTCCCACTGGGGCTGCC	0.647													43	38					0	0	0.01441	0	0		G	79180992	G	G	79180992	3	3	215	1	0	0	0	0	1	0	0	0	1241	565	20	5	3014	5	AZI1	17	79180992	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	12251622	79180992	2014218	235	107416											
SLC38A10	124565	broad.mit.edu	37	chr17	79226981	79226981	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctgctccagctcctctctctCcttcggcagcttcggcttct	2	14	7	18	2	3	0	0	0	3	0	9	0	5	0	3	2	3	5	3	2	0	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr17:79226981C>G	uc002jzz.1	-	12	1723	c.1348G>C	c.(1348-1350)GAG>CAG	p.E450Q	SLC38A10_uc002jzy.1_Missense_Mutation_p.E368Q|SLC38A10_uc002kab.2_Missense_Mutation_p.E450Q	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	450					amino acid transport|sodium ion transport	integral to membrane				pancreas(1)|skin(1)	2	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			TCCTCTCTCTCCTTCGGCAGC	0.657											OREG0024813	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	66	70					0	0	0.01441	0	0		G	79226981	G	G	79226981	3	3	215	1	0	0	0	0	1	0	0	0	14627	864	30	5	2309	5	SLC38A10	17	79226981	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	45989	79226981	1968229	236	107417											
SMAD7	4092	broad.mit.edu	37	chr18	46476217	46476217	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggctaaggtgatgggggttgCagcacaccagctcggggttg	7	8	18	8	1	0	1	0	1	0	0	1	1	0	1	1	6	3	6	1	6	1	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr18:46476217C>T	uc002ldg.2	-	1	865	c.578G>A	c.(577-579)TGC>TAC	p.C193Y	SMAD7_uc010xde.1_5'Flank	NM_005904	NP_005895	O15105	SMAD7_HUMAN	SMAD family member 7	193	MH1.				adherens junction assembly|artery morphogenesis|BMP signaling pathway|cellular protein complex localization|negative regulation of BMP signaling pathway|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|negative regulation of pathway-restricted SMAD protein phosphorylation|negative regulation of peptidyl-serine phosphorylation|negative regulation of peptidyl-threonine phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of ubiquitin-protein ligase activity|pathway-restricted SMAD protein phosphorylation|positive regulation of anti-apoptosis|positive regulation of cell-cell adhesion|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein stabilization|regulation of activin receptor signaling pathway|response to laminar fluid shear stress|transforming growth factor beta receptor signaling pathway|ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	centrosome|cytosol|nucleolus|plasma membrane|transcription factor complex	activin binding|beta-catenin binding|I-SMAD binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transforming growth factor beta receptor, inhibitory cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding				0	Colorectal(1;0.0518)					ATGGGGGTTGCAGCACACCAG	0.557											OREG0024975	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	33					0	0	0.000602	0	0		T	46476217	T	T	46476217	3	4	215	1	0	0	0	0	1	0	0	0	14788	710	25	2	718	2	SMAD7	18	46476217	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		46476217	31601031	237	107418											
C19orf29	58509	broad.mit.edu	37	chr19	3613108	3613108	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggcgctgcaggtcctcatcCggttccagcacgtgcgcgtc	5	8	13	15	5	1	0	1	0	0	0	5	0	4	0	3	3	3	4	3	3	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:3613108C>A	uc002lyh.2	-	9	1787	c.1734G>T	c.(1732-1734)CCG>CCT	p.P578P	C19orf29_uc010xho.1_Silent_p.P37P|C19orf29_uc010dtn.2_Silent_p.P426P|C19orf29_uc002lyi.3_Silent_p.P578P|C19orf29_uc010dto.2_RNA|C19orf29_uc010xhp.1_RNA	NM_001080543	NP_001074012	Q8WUQ7	CS029_HUMAN	chromosome 19 open reading frame 29	578						catalytic step 2 spliceosome	protein binding				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)		GGTCCTCATCCGGTTCCAGCA	0.711													17	10					8.60227e-14	9.73044e-14	0.004007	1	0		A	3613108	A	A	3613108	2	1	215	1	0	0	0	0	0	0	0	1	1921	639	23	5		5	C19orf29	19	3613108	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		3613108	55515875	238	107419											
DAPK3	1613	broad.mit.edu	37	chr19	3969677	3969677	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcagacagctcacctgccCagctcctcccccatctcata	8	7	7	19	0	2	1	2	0	1	1	5	1	4	1	5	1	3	3	5	1	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:3969677C>T	uc002lzc.1	-	1	150	c.57G>A	c.(55-57)CTG>CTA	p.L19L	DAPK3_uc002lzd.1_Silent_p.L19L	NM_001348	NP_001339	O43293	DAPK3_HUMAN	death-associated protein kinase 3	19	ATP (By similarity).|Protein kinase.				apoptosis|chromatin modification|induction of apoptosis|intracellular protein kinase cascade	cytoplasm|PML body	ATP binding|leucine zipper domain binding|protein serine/threonine kinase activity			central_nervous_system(3)|lung(2)|ovary(1)|large_intestine(1)	7		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CTCACCTGCCCAGCTCCTCCC	0.607											OREG0025158	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	32	27					0	0	0.012213	0	0		T	3969677	T	T	3969677	2	4	215	1	0	0	0	0	0	0	0	1	4240	581	21	4		4	DAPK3	19	3969677	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	356569	3969677	55159306	239	107420											
PTPRS	5802	broad.mit.edu	37	chr19	5212247	5212247	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgacgataaagcagcctgtgCggcccacaccggcactgcag	10	5	12	14	3	0	1	0	1	0	0	0	2	0	1	3	2	4	3	3	2	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:5212247C>T	uc002mbv.2	-	32	5018	c.4784G>A	c.(4783-4785)CGC>CAC	p.R1595H	PTPRS_uc002mbu.1_Missense_Mutation_p.R1164H|PTPRS_uc010xin.1_Missense_Mutation_p.R1137H|PTPRS_uc002mbw.2_Missense_Mutation_p.R1557H|PTPRS_uc002mbx.2_Missense_Mutation_p.R1152H|PTPRS_uc002mby.2_Missense_Mutation_p.R1148H	NM_002850	NP_002841	Q13332	PTPRS_HUMAN	protein tyrosine phosphatase, receptor type,	1595	Substrate binding (By similarity).|Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				cell adhesion	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(2)|ovary(1)|central_nervous_system(1)	4				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0321)|Lung(535;0.182)		GCAGCCTGTGCGGCCCACACC	0.652													18	58					0	0	0.00278	0	0		T	5212247	T	T	5212247	3	4	215	1	0	0	0	0	1	0	0	0	12836	768	27	1	1090	1	PTPRS	19	5212247	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	1242570	5212247	53916736	240	107421											
FBN3	84467	broad.mit.edu	37	chr19	8203127	8203127	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggacccatgccattggatcCgaagcccaggaggccaggga	10	4	15	12	1	0	0	0	0	0	0	1	5	1	4	5	5	2	0	5	5	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:8203127C>T	uc002mjf.2	-	9	1120	c.1099G>A	c.(1099-1101)GGA>AGA	p.G367R		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	367						proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CCATTGGATCCGAAGCCCAGG	0.642													16	6					0	0	0.00499	0	0		T	8203127	T	T	8203127	3	4	215	1	0	0	0	0	1	0	0	0	5718	661	23	1	7550	1	FBN3	19	8203127	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	2990880	8203127	50925856	241	107422											
ANGPTL6	83854	broad.mit.edu	37	chr19	10205482	10205482	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acctgcaggcatgggagaagCcatgggctcctgctgtctct	7	9	13	12	0	1	1	0	0	1	1	3	2	2	1	3	3	3	4	3	3	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:10205482C>A	uc002mmx.1	-	3	833	c.715G>T	c.(715-717)GCT>TCT	p.A239S	ANGPTL6_uc002mmy.1_Missense_Mutation_p.A239S	NM_031917	NP_114123	Q8NI99	ANGL6_HUMAN	angiopoietin-like 6 precursor	239					angiogenesis|cell differentiation|signal transduction	extracellular space	receptor binding				0			OV - Ovarian serous cystadenocarcinoma(20;3.58e-08)|Epithelial(33;2.5e-05)|all cancers(31;5.96e-05)			ATGGGAGAAGCCATGGGCTCC	0.597													69	108					3.31162e-33	4.02292e-33	0.01441	1	0		A	10205482	A	A	10205482	3	1	215	1	0	0	0	0	1	0	0	0	618	739	26	5	713	5	ANGPTL6	19	10205482	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	2002355	10205482	48923501	242	107423											
DNM2	1785	broad.mit.edu	37	chr19	10893683	10893683	+	Nonsense_Mutation	SNP	A	T	T	1	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	agaaggatattgagggcaagAaggacatccgtgcagcactg	14	6	14	7	1	0	3	0	1	0	2	1	5	1	5	1	3	2	3	1	3	4	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:10893683A>T	uc002mps.1	+	6	900	c.736A>T	c.(736-738)AAG>TAG	p.K246*	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Nonsense_Mutation_p.K246*|DNM2_uc002mpv.1_Nonsense_Mutation_p.K246*|DNM2_uc002mpu.1_Nonsense_Mutation_p.K246*|DNM2_uc010dxl.1_Nonsense_Mutation_p.K246*|DNM2_uc002mpw.2_5'UTR	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	246					G2/M transition of mitotic cell cycle|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|post-Golgi vesicle-mediated transport|receptor internalization|signal transduction|synaptic vesicle transport|transferrin transport	cell junction|cytosol|Golgi membrane|microtubule|postsynaptic density|postsynaptic membrane	GTP binding|GTPase activity|microtubule binding			central_nervous_system(2)|skin(2)|ovary(1)|breast(1)	6			Epithelial(33;4.17e-05)|all cancers(31;8.48e-05)			TGAGGGCAAGAAGGACATCCG	0.607													26	54					0	0	0.00632	0	0		T	10893683	T	T	10893683	4	4	215	1	0	0	0	0	0	1	0	0	4678	247	9	5	758	5	DNM2	19	10893683	Nonsense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	688201	10893683	48235300	243	107424											
MAST1	22983	broad.mit.edu	37	chr19	12984515	12984515	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttcggcccagcacgctgcacGgactgtcgccaaagctccat	8	7	10	16	4	0	0	0	0	0	0	3	1	1	1	3	2	3	4	3	2	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:12984515G>C	uc002mvm.2	+	26	3672	c.3544G>C	c.(3544-3546)GGA>CGA	p.G1182R		NM_014975	NP_055790	Q9Y2H9	MAST1_HUMAN	microtubule associated serine/threonine kinase	1182					cytoskeleton organization|intracellular protein kinase cascade	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|large_intestine(1)|skin(1)	7						CACGCTGCACGGACTGTCGCC	0.687													9	19					0	0	0.006214	0	0		C	12984515	C	C	12984515	3	2	215	1	0	0	0	0	1	0	0	0	9342	1117	39	5	3646	5	MAST1	19	12984515	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2090832	12984515	46144468	244	107425											
CACNA1A	773	broad.mit.edu	37	chr19	13418938	13418938	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgtgaaggacttactggcCgccgaagagttgcattccca	9	9	11	12	2	0	2	0	1	0	1	1	4	1	3	4	2	2	2	4	2	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:13418938C>A	uc010dze.2	-	14	2148	c.1912G>T	c.(1912-1914)GGC>TGC	p.G638C	CACNA1A_uc010dzc.2_Missense_Mutation_p.G163C|CACNA1A_uc002mwy.3_Missense_Mutation_p.G637C|CACNA1A_uc010xne.1_Missense_Mutation_p.G163C	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	638	Extracellular (Potential).|II.				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	ACTTACTGGCCGCCGAAGAGT	0.547													16	36					3.41278e-10	3.74971e-10	0.00499	1	0		A	13418938	A	A	13418938	3	1	215	1	0	0	0	0	1	0	0	0	2541	652	23	5	5858	5	CACNA1A	19	13418938	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	434423	13418938	45710045	245	107426											
DDX39	10212	broad.mit.edu	37	chr19	14521880	14521880	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgaagctcctattccgcacGagcgccaggatgcggcccgg	7	6	13	15	5	0	1	0	1	0	0	2	3	2	2	4	3	3	2	4	3	2	2	rs142002555	byFrequency	TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:14521880G>A	uc010xnp.1	-	5	579	c.534C>T	c.(532-534)CTC>CTT	p.L178L	DDX39_uc002myo.2_Silent_p.L178L|DDX39_uc010dzl.2_RNA|DDX39_uc010dzm.1_Silent_p.L178L	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39	178	Helicase ATP-binding.				mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						TATTCCGCACGAGCGCCAGGA	0.557													33	164					0	0	0.003271	0	0		A	14521880	A	A	14521880	2	1	215	1	0	0	0	0	0	0	0	1	4360	1045	37	1		1	DDX39	19	14521880	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1102942	14521880	44607103	246	107427											
AKAP8	10270	broad.mit.edu	37	chr19	15484654	15484654	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tcccgcccctgcctccttccTtggacatcatgtccaaacgc	6	10	6	19	2	1	0	1	0	0	0	5	1	5	1	7	1	2	0	7	1	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:15484654T>C	uc002nav.2	-	4	375	c.314A>G	c.(313-315)AAG>AGG	p.K105R	AKAP8_uc010dzy.2_5'Flank|AKAP8_uc010dzz.1_RNA|AKAP8_uc010xog.1_Intron	NM_005858	NP_005849	O43823	AKAP8_HUMAN	A-kinase anchor protein 8	105					signal transduction	nuclear matrix				ovary(1)|breast(1)	2						GCCTCCTTCCTTGGACATCAT	0.637													20	33					0	0	0.008871	0	0		C	15484654	C	C	15484654	3	2	215	1	0	0	0	0	1	0	0	0	457	1609	56	3	1808	3	AKAP8	19	15484654	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	962774	15484654	43644329	247	107428											
CYP4F3	4051	broad.mit.edu	37	chr19	15769193	15769193	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cattgtgctcccagacggccGggtcatccccaaaggtgcca	8	7	11	15	2	1	1	1	0	0	1	3	1	3	1	5	3	2	1	5	3	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:15769193G>T	uc002nbj.2	+	10	1285	c.1235G>T	c.(1234-1236)CGG>CTG	p.R412L	CYP4F3_uc010xok.1_Missense_Mutation_p.R412L|CYP4F3_uc010xol.1_Missense_Mutation_p.R412L|CYP4F3_uc010xom.1_Missense_Mutation_p.R263L|CYP4F3_uc002nbk.2_Missense_Mutation_p.R412L|CYP4F3_uc010xon.1_Missense_Mutation_p.R122L	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	412					leukotriene metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3						CCAGACGGCCGGGTCATCCCC	0.637													57	79					1.59911e-31	1.929e-31	0.01441	1	0		T	15769193	T	T	15769193	3	4	215	1	0	0	0	0	1	0	0	0	4193	1116	39	5	1269	5	CYP4F3	19	15769193	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	284539	15769193	43359790	248	107429											
ZNF93	81931	broad.mit.edu	37	chr19	20045443	20045443	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacacataagatacttcataCtggagagaaaccttatagat	17	11	6	7	0	1	3	1	0	0	3	1	5	1	4	1	1	4	0	1	1	7	7			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:20045443C>A	uc002non.2	+	4	1790	c.1679C>A	c.(1678-1680)ACT>AAT	p.T560N		NM_031218	NP_112495	P35789	ZNF93_HUMAN	zinc finger protein 93	560						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1						ATACTTCATACTGGAGAGAAA	0.368													21	26					4.35082e-09	4.72023e-09	0.010504	1	0		A	20045443	A	A	20045443	3	1	215	1	0	0	0	0	1	0	0	0	18227	565	20	5	1693	5	ZNF93	19	20045443	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	4276250	20045443	39083540	249	107430											
ZNF626	199777	broad.mit.edu	37	chr19	20808345	20808345	+	Nonsense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cacttatacatcctttttttAactgtaaattgtcatgttca	11	19	3	8	0	2	0	2	0	0	0	3	0	3	0	1	0	2	2	1	0	5	9			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:20808345A>T	uc002npb.1	-	4	488	c.338T>A	c.(337-339)TTA>TAA	p.L113*	ZNF626_uc002npc.1_Nonsense_Mutation_p.L37*	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	113					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TCCTTTTTTTAACTGTAAATT	0.353													17	77					0	0	0.006122	0	0		T	20808345	T	T	20808345	4	4	215	1	0	0	0	0	0	1	0	0	18075	372	13	5	1252	5	ZNF626	19	20808345	Nonsense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	762902	20808345	38320638	250	107431											
ZNF536	9745	broad.mit.edu	37	chr19	31039034	31039034	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tctctgttcatcaggccagaCatcctgaggggggccttcaa	8	10	11	12	0	4	2	3	1	1	1	6	2	5	2	3	4	0	1	3	4	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:31039034C>A	uc002nsu.1	+	4	2646	c.2508C>A	c.(2506-2508)GAC>GAA	p.D836E	ZNF536_uc010edd.1_Missense_Mutation_p.D836E	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	836					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(7)|large_intestine(2)|skin(2)	11	Esophageal squamous(110;0.0834)					TCAGGCCAGACATCCTGAGGG	0.582													42	100					1.03325e-14	1.17647e-14	0.011902	1	0		A	31039034	A	A	31039034	3	1	215	1	0	0	0	0	1	0	0	0	17999	477	17	5	2518	5	ZNF536	19	31039034	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	10230689	31039034	28089949	251	107432											
LRP3	4037	broad.mit.edu	37	chr19	33698246	33698246	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggcctgcgagacccagagtGcaggcccgtggacaaggaca	10	3	16	12	2	0	2	0	0	0	2	0	5	0	4	3	4	2	1	3	4	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:33698246G>T	uc010edh.2	+	7	2171	c.2078G>T	c.(2077-2079)TGC>TTC	p.C693F	LRP3_uc002nuk.3_Missense_Mutation_p.C567F	NM_002333	NP_002324	O75074	LRP3_HUMAN	low density lipoprotein receptor-related protein	693	Cytoplasmic (Potential).				receptor-mediated endocytosis	coated pit|integral to membrane	receptor activity			pancreas(2)|ovary(1)	3	Esophageal squamous(110;0.137)					GACCCAGAGTGCAGGCCCGTG	0.711													9	8					3.86212e-05	4.03767e-05	0.008291	1	0		T	33698246	T	T	33698246	3	4	215	1	0	0	0	0	1	0	0	0	8976	1319	46	5	2104	5	LRP3	19	33698246	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2659212	33698246	25430737	252	107433											
RYR1	6261	broad.mit.edu	37	chr19	39062794	39062794	+	Missense_Mutation	SNP	A	T	T	1	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	agggcgatgaggatgagaacAtggtgtactacttcctggag	11	9	15	6	1	0	2	0	2	0	1	1	6	1	4	1	4	3	1	1	4	3	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:39062794A>T	uc002oit.2	+	95	14012	c.13882A>T	c.(13882-13884)ATG>TTG	p.M4628L	RYR1_uc002oiu.2_Missense_Mutation_p.M4623L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4628					muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GGATGAGAACATGGTGTACTA	0.607													50	114					0	0	0.01441	0	0		T	39062794	T	T	39062794	3	4	215	1	0	0	0	0	1	0	0	0	13793	217	8	5	14260	5	RYR1	19	39062794	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	5364548	39062794	20066189	253	107434											
AXL	558	broad.mit.edu	37	chr19	41765531	41765531	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttacagagctgcgggaagatTtggagaacacactgaaggcc	13	7	13	8	1	0	4	0	1	0	3	0	6	0	5	1	3	4	1	1	3	4	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:41765531T>G	uc010ehj.2	+	20	2597	c.2407T>G	c.(2407-2409)TTG>GTG	p.L803V	CYP2F1_uc010xvw.1_Intron|HNRNPUL1_uc002opz.3_5'Flank|HNRNPUL1_uc002oqa.3_5'Flank|AXL_uc010ehk.2_Missense_Mutation_p.L794V	NM_021913	NP_068713	P30530	UFO_HUMAN	AXL receptor tyrosine kinase isoform 1	803	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(4)|stomach(3)|ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)	13						GCGGGAAGATTTGGAGAACAC	0.562													28	54					0	0	0.00632	0	0		G	41765531	G	G	41765531	3	3	215	1	0	0	0	0	1	0	0	0	1239	1838	64	5	2485	5	AXL	19	41765531	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	2702737	41765531	17363452	254	107435											
FBXO46	23403	broad.mit.edu	37	chr19	46215449	46215449	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgccgtgccctcggcatcGtctgggccgggcgcagtggc	2	7	16	16	6	1	0	0	0	1	0	4	0	2	0	4	4	1	2	4	4	0	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:46215449G>A	uc002pcy.2	-	2	1430	c.1305C>T	c.(1303-1305)GAC>GAT	p.D435D	FBXO46_uc002pcz.2_Silent_p.D435D	NM_001080469	NP_001073938	Q6PJ61	FBX46_HUMAN	F-box protein 46	435							protein binding			ovary(1)|lung(1)|breast(1)	3		Ovarian(192;0.179)|all_neural(266;0.224)		OV - Ovarian serous cystadenocarcinoma(262;0.00568)|GBM - Glioblastoma multiforme(486;0.0844)|Epithelial(262;0.201)		CCTCGGCATCGTCTGGGCCGG	0.716													8	10					0	0	0.00308	0	0		A	46215449	A	A	46215449	2	1	215	1	0	0	0	0	0	0	0	1	5769	1136	40	1		1	FBXO46	19	46215449	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	4449918	46215449	12913534	255	107436											
STRN4	29888	broad.mit.edu	37	chr19	47230796	47230796	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cccccgatagtgtccatgatGaagacgtctgaggagaagcc	11	7	12	11	2	1	5	0	3	1	2	2	7	2	5	4	1	1	0	4	1	3	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:47230796G>A	uc002pfl.2	-	9	1194	c.1161C>T	c.(1159-1161)TTC>TTT	p.F387F	STRN4_uc002pfm.2_Silent_p.F394F|STRN4_uc010xyf.1_RNA|STRN4_uc010xyg.1_RNA	NM_013403	NP_037535	Q9NRL3	STRN4_HUMAN	zinedin isoform 1	387						cytoplasm|membrane	armadillo repeat domain binding|calmodulin binding|protein complex binding|protein phosphatase 2A binding				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000563)|all cancers(93;0.00138)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.035)		TGTCCATGATGAAGACGTCTG	0.428													10	32					0	0	0.006214	0	0		A	47230796	A	A	47230796	2	1	215	1	0	0	0	0	0	0	0	1	15356	1281	45	4		4	STRN4	19	47230796	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1015347	47230796	11898187	256	107437											
GLTSCR1	29998	broad.mit.edu	37	chr19	48185352	48185352	+	Silent	SNP	A	T	T	1	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	gccacccccgtcgccaaaggAgctggcctcggccctcaggc	6	4	12	19	3	1	0	1	0	0	0	3	1	1	1	6	4	1	1	6	4	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:48185352A>T	uc002phh.3	+	7	2420	c.2226A>T	c.(2224-2226)GGA>GGT	p.G742G	GLTSCR1_uc002phi.3_Silent_p.G500G	NM_015711	NP_056526	Q9NZM4	GSCR1_HUMAN	glioma tumor suppressor candidate region gene 1	742							protein binding			pancreas(3)	3		all_cancers(25;1.8e-07)|all_lung(116;5.73e-06)|Lung NSC(112;9.69e-06)|all_epithelial(76;2.42e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		all cancers(93;0.000358)|OV - Ovarian serous cystadenocarcinoma(262;0.000576)|Epithelial(262;0.0212)|GBM - Glioblastoma multiforme(486;0.0355)		TCGCCAAAGGAGCTGGCCTCG	0.736													4	3					0	0	0.009096	0	0		T	48185352	T	T	48185352	2	4	215	1	0	0	0	0	0	0	0	1	6489	291	11	5		5	GLTSCR1	19	48185352	Silent	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	954556	48185352	10943631	257	107438											
ALDH16A1	126133	broad.mit.edu	37	chr19	49965150	49965150	+	Frame_Shift_Del	DEL	G	-	-																															ggggtccctaggaagggcgtGcccttcgacggagcctggcg																										TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:49965150delG	uc002pnt.2	+	7	885	c.769delG	c.(769-771)GCCfs	p.A257fs	ALDH16A1_uc010yar.1_Intron|ALDH16A1_uc010yas.1_Frame_Shift_Del_p.A92fs|ALDH16A1_uc010yat.1_Frame_Shift_Del_p.A94fs	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1	257							oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		GGAAGGGCGTGCCCTTCGACG	0.726													9	10	---	---	---	---						.	-	49965150	-	-	49965150	7	5	215	1	0	1	0	1	0	0	0	0	488	1319	46	0	795	0	ALDH16A1	19	49965150	Frame_Shift_Del	DEL	G	TCGA-HU-A4H5-01A-21D-A25D-08	1779798	49965150	9163833	258	107439											
PRR12	57479	broad.mit.edu	37	chr19	50098928	50098928	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggggccaggcttattcccccGgtcagcctcaagggcttctg	5	9	13	14	1	3	0	2	0	1	0	4	0	4	0	4	5	1	2	4	5	2	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:50098928G>A	uc002poo.3	+	4	1336	c.1336G>A	c.(1336-1338)GGT>AGT	p.G446S		NM_020719	NP_065770	Q9ULL5	PRR12_HUMAN	proline rich 12	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							DNA binding			central_nervous_system(1)|pancreas(1)	2		all_lung(116;2.45e-07)|Lung NSC(112;1.24e-06)|Ovarian(192;0.0728)|all_neural(266;0.0887)		OV - Ovarian serous cystadenocarcinoma(262;0.00319)|GBM - Glioblastoma multiforme(134;0.0132)		TTATTCCCCCGGTCAGCCTCA	0.687													14	27					0	0	0.004007	0	0		A	50098928	A	A	50098928	3	1	215	1	0	0	0	0	1	0	0	0	12606	1116	39	1	1350	1	PRR12	19	50098928	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	133778	50098928	9030055	259	107440											
PRKCG	5582	broad.mit.edu	37	chr19	54394966	54394966	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taattcctatggaccccaatGgtctctctgatccctatgtg	8	14	7	12	0	2	1	0	1	2	0	5	2	4	2	4	2	0	0	4	2	4	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:54394966G>C	uc002qcq.1	+	6	850	c.568G>C	c.(568-570)GGT>CGT	p.G190R	PRKCG_uc010eqz.1_Missense_Mutation_p.G190R|PRKCG_uc010yef.1_Missense_Mutation_p.G190R|PRKCG_uc010yeg.1_Missense_Mutation_p.G190R|PRKCG_uc010yeh.1_Missense_Mutation_p.G77R	NM_002739	NP_002730	P05129	KPCG_HUMAN	protein kinase C, gamma	190	C2.				activation of phospholipase C activity|cell death|intracellular signal transduction|negative regulation of protein catabolic process|negative regulation of protein ubiquitination|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of mismatch repair|synaptic transmission	cytosol	ATP binding|protein kinase C activity|zinc ion binding			lung(4)|ovary(2)|pancreas(2)|large_intestine(1)	9	all_cancers(19;0.0462)|all_epithelial(19;0.0258)|all_lung(19;0.185)|Ovarian(34;0.19)|Lung NSC(19;0.218)			GBM - Glioblastoma multiforme(134;0.0521)		GGACCCCAATGGTCTCTCTGA	0.552													81	51					0	0	0.01441	0	0		C	54394966	C	C	54394966	3	2	215	1	0	0	0	0	1	0	0	0	12534	1348	47	5	590	5	PRKCG	19	54394966	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	4296038	54394966	4734017	260	107441											
NLRP8	126205	broad.mit.edu	37	chr19	56466661	56466661	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tgaaacagcaaatggagagaGgaaacaatctcacacagtca	19	5	9	8	0	2	2	2	1	1	1	3	5	2	4	0	2	3	1	0	2	4	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:56466661G>A	uc002qmh.2	+	3	1308	c.1237G>A	c.(1237-1239)GGA>AGA	p.G413R	NLRP8_uc010etg.2_Missense_Mutation_p.G413R	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	413	NACHT.					cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		AATGGAGAGAGGAAACAATCT	0.478													17	50					0	0	0.006122	0	0		A	56466661	A	A	56466661	3	1	215	1	0	0	0	0	1	0	0	0	10502	1001	35	4	1247	4	NLRP8	19	56466661	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2071695	56466661	2662322	261	107442											
ZNF530	348327	broad.mit.edu	37	chr19	58115657	58115657	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	catcatagcaggtttttgtaGcctttgaggatgtggccatt	8	15	11	7	0	1	1	1	1	0	0	1	2	1	2	2	3	2	3	2	3	2	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr19:58115657G>A	uc002qpk.2	+	2	263	c.43G>A	c.(43-45)GCC>ACC	p.A15T	ZNF547_uc002qpm.3_Intron|ZNF530_uc002qpl.2_RNA	NM_020880	NP_065931	Q6P9A1	ZN530_HUMAN	zinc finger protein 530	15	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0443)|Breast(46;0.0848)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)		GGTTTTTGTAGCCTTTGAGGA	0.522													26	66					0	0	0.003954	0	0		A	58115657	A	A	58115657	3	1	215	1	0	0	0	0	1	0	0	0	17996	971	34	2	49	2	ZNF530	19	58115657	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1648996	58115657	1013326	262	107443											
RALGAPA2	57186	broad.mit.edu	37	chr20	20453520	20453520	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttcacagccctgctggcgttGatgcacgtggcacatacaag	9	9	11	12	2	1	1	1	1	0	0	1	1	1	1	1	2	4	4	1	2	2	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr20:20453520G>A	uc002wrz.2	-	37	5591	c.5448C>T	c.(5446-5448)ATC>ATT	p.I1816I	RALGAPA2_uc010gcx.2_Silent_p.I1520I|RALGAPA2_uc010zsg.1_Silent_p.I1264I|RALGAPA2_uc002wsa.1_Silent_p.I588I	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	1816	Rap-GAP.				activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						TGCTGGCGTTGATGCACGTGG	0.458													42	14					0	0	0.010771	0	0		A	20453520	A	A	20453520	2	1	215	1	0	0	0	0	0	0	0	1	13039	1280	45	4		4	RALGAPA2	20	20453520	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08		20453520	42572000	263	107444											
PTPRT	11122	broad.mit.edu	37	chr20	41385177	41385177	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cacacagcggtacttgctgaCgctccgctgggcagtgtctg	6	9	13	13	3	1	1	0	1	1	0	2	1	2	1	1	2	3	5	1	2	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr20:41385177C>T	uc002xkg.2	-	6	968	c.784G>A	c.(784-786)GTC>ATC	p.V262I	PTPRT_uc010ggj.2_Missense_Mutation_p.V262I	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	262	Extracellular (Potential).|Ig-like C2-type.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TACTTGCTGACGCTCCGCTGG	0.612													22	76					0	0	0.012319	0	0		T	41385177	T	T	41385177	3	4	215	1	0	0	0	0	1	0	0	0	12837	536	19	1	3706	1	PTPRT	20	41385177	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	20931657	41385177	21640343	264	107445											
TP53TG5	27296	broad.mit.edu	37	chr20	44003762	44003762	+	Missense_Mutation	SNP	A	G	G	1	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	gacccaacgcagggtggaggAtctgcacatcaccctgggcg	9	5	14	13	2	2	0	1	0	1	0	2	3	2	2	2	4	2	2	2	4	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr20:44003762A>G	uc002xny.2	-	4	766	c.685T>C	c.(685-687)TCC>CCC	p.S229P	SYS1_uc002xnw.1_3'UTR|SYS1-DBNDD2_uc002xnx.2_Intron	NM_014477	NP_055292	Q9Y2B4	T53G5_HUMAN	TP53-target gene 5 protein	229					intracellular signal transduction|negative regulation of cell growth	cytoplasm|nucleus				central_nervous_system(1)	1						AGGGTGGAGGATCTGCACATC	0.597													92	133					0	0	0.01441	0	0		G	44003762	G	G	44003762	3	3	215	1	0	0	0	0	1	0	0	0	16417	333	12	3	195	3	TP53TG5	20	44003762	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	2618585	44003762	19021758	265	107446											
ZNF217	7764	broad.mit.edu	37	chr20	52198293	52198293	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatccgcgtccacggagggcGcttcgccgtgggagtgtttg	4	9	17	11	6	0	0	0	0	0	0	3	3	2	2	3	3	0	2	3	3	0	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr20:52198293G>C	uc002xwq.3	-	1	1344	c.1073C>G	c.(1072-1074)GCG>GGG	p.A358G	ZNF217_uc010gij.1_Missense_Mutation_p.A350G	NM_006526	NP_006517	O75362	ZN217_HUMAN	zinc finger protein 217	358					negative regulation of transcription, DNA-dependent	histone deacetylase complex	protein binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			skin(2)|ovary(1)|large_intestine(1)|lung(1)|breast(1)	6	all_cancers(1;6.75e-17)|all_epithelial(1;1.76e-18)|Breast(2;3.83e-14)|Lung NSC(4;9.04e-07)|all_lung(4;2.5e-06)|Ovarian(1;0.0398)		BRCA - Breast invasive adenocarcinoma(1;9.88e-17)|Epithelial(1;1.56e-14)|all cancers(1;9.44e-13)|STAD - Stomach adenocarcinoma(23;0.0474)|Colorectal(105;0.198)			CACGGAGGGCGCTTCGCCGTG	0.562													20	329					0	0	0.008871	0	0		C	52198293	C	C	52198293	3	2	215	1	0	0	0	0	1	0	0	0	17797	1087	38	5	2089	5	ZNF217	20	52198293	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	8194531	52198293	10827227	266	107447											
CDH26	60437	broad.mit.edu	37	chr20	58560139	58560139	+	Missense_Mutation	SNP	T	G	G	0	1	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	acgaccaccgttcacgtggaTgtgcaagaaggcaacaacca	14	5	10	12	3	1	1	1	0	0	1	1	3	1	2	3	2	3	3	3	2	4	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr20:58560139T>G	uc002ybe.2	+	7	1092	c.792T>G	c.(790-792)GAT>GAG	p.D264E	CDH26_uc010zzy.1_RNA	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	cadherin-like 26 isoform a	264	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4	all_lung(29;0.00963)		BRCA - Breast invasive adenocarcinoma(7;5.58e-09)			TTCACGTGGATGTGCAAGAAG	0.557													14	82					0	0	0.00245	0	0		G	58560139	G	G	58560139	3	3	215	1	0	0	0	0	1	0	0	0	3113	1461	51	5	818	5	CDH26	20	58560139	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08	6361846	58560139	4465381	267	107448											
OSBPL2	9885	broad.mit.edu	37	chr20	60859101	60859101	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaaaatcccatttaattacaGcaaaaagaagctctttatga	19	11	4	7	0	1	2	0	1	1	1	2	2	2	2	1	0	3	2	1	0	8	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr20:60859101G>A	uc002yck.1	+	10	1075	c.873_splice	c.e10-1	p.N291_splice	OSBPL2_uc002ycl.1_Splice_Site_p.N279_splice|OSBPL2_uc011aah.1_Splice_Site_p.N199_splice|OSBPL2_uc002ycm.1_Splice_Site_p.N103_splice	NM_144498	NP_653081	Q9H1P3	OSBL2_HUMAN	oxysterol-binding protein-like protein 2 isoform						lipid transport		lipid binding			ovary(1)|central_nervous_system(1)	2	Breast(26;7.76e-09)		BRCA - Breast invasive adenocarcinoma(19;1.33e-06)			TTTAATTACAGCAAAAAGAAG	0.388													21	148					0	0	0.010504	0	0		A	60859101	A	A	60859101	5	1	215	1	0	0	0	0	0	0	1	0	11297	985	34	2	906	2	OSBPL2	20	60859101	Splice_Site	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2298962	60859101	2166419	268	107449											
DNAJC5	80331	broad.mit.edu	37	chr20	62559705	62559705	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	tagaatagcctaacatggcaGaccagagacagcgctcactg	14	6	10	11	1	1	3	1	0	0	3	1	4	1	3	2	1	3	2	2	1	4	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr20:62559705G>C	uc002yhf.2	+	2	177	c.7G>C	c.(7-9)GAC>CAC	p.D3H	DNAJC5_uc002yhg.1_Missense_Mutation_p.D3H|DNAJC5_uc002yhh.2_RNA	NM_025219	NP_079495	Q9H3Z4	DNJC5_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	3					neurotransmitter secretion|protein folding	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|melanosome|plasma membrane	heat shock protein binding|unfolded protein binding			pancreas(1)	1	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					TAACATGGCAGACCAGAGACA	0.423													38	139					0	0	0.00623	0	0		C	62559705	C	C	62559705	3	2	215	1	0	0	0	0	1	0	0	0	4656	942	33	5	9	5	DNAJC5	20	62559705	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1700604	62559705	465815	269	107450											
USP25	29761	broad.mit.edu	37	chr21	17172100	17172100	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tatttaatcttttggaatttAgaagattagttctgaattac	13	19	6	3	0	2	3	0	1	2	2	2	4	2	4	0	1	1	1	0	1	8	10			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr21:17172100A>G	uc002yjy.1	+	6	797	c.580A>G	c.(580-582)AGA>GGA	p.R194G	USP25_uc011aby.1_Missense_Mutation_p.R194G|USP25_uc002yjz.1_Missense_Mutation_p.R194G|USP25_uc010gla.1_Missense_Mutation_p.R194G	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	194					protein modification process|ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin thiolesterase activity|ubiquitin-specific protease activity			ovary(3)|liver(2)	5				Epithelial(23;7.55e-05)|all cancers(11;0.000429)|COAD - Colon adenocarcinoma(22;0.00543)|OV - Ovarian serous cystadenocarcinoma(11;0.00743)|Colorectal(24;0.0116)|Lung(58;0.0853)|LUSC - Lung squamous cell carcinoma(23;0.0889)		TTTGGAATTTAGAAGATTAGT	0.299													22	19					0	0	0.00333	0	0		G	17172100	G	G	17172100	3	3	215	1	0	0	0	0	1	0	0	0	17082	412	15	3	602	3	USP25	21	17172100	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08		17172100	30957795	270	107451											
COL6A2	1292	broad.mit.edu	37	chr21	47545507	47545507	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcaacaggctgggtgccatcGctaaggaccccaagtccgag	10	6	12	13	2	1	0	1	0	0	0	3	2	2	1	4	3	2	2	4	3	3	1	rs142002945		TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr21:47545507G>A	uc002zia.1	+	25	2027	c.1945G>A	c.(1945-1947)GCT>ACT	p.A649T	COL6A2_uc002zhy.1_Missense_Mutation_p.A649T|COL6A2_uc002zhz.1_Missense_Mutation_p.A649T|COL6A2_uc002zib.1_Missense_Mutation_p.A55T|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	649	VWFA 2.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)			Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)		GGGTGCCATCGCTAAGGACCC	0.627													23	11					0	0	0.003954	0	0		A	47545507	A	A	47545507	3	1	215	1	0	0	0	0	1	0	0	0	3703	1087	38	1	2039	1	COL6A2	21	47545507	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	30373407	47545507	584388	271	107452											
ZDHHC8	29801	broad.mit.edu	37	chr22	20126835	20126835	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggaccctggtgttttccccCgaggtagggccctgtgctgc	3	11	14	13	1	0	0	0	0	0	0	1	2	1	1	4	4	2	3	4	4	1	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr22:20126835C>T	uc002zrq.2	+	2	329	c.223C>T	c.(223-225)CGA>TGA	p.R75*	ZDHHC8_uc002zrr.1_Nonsense_Mutation_p.R75*|ZDHHC8_uc010gsa.2_5'Flank	NM_013373	NP_037505	Q9ULC8	ZDHC8_HUMAN	zinc finger, DHHC domain containing 8	75	Cytoplasmic (Potential).					cytoplasmic vesicle membrane|integral to membrane	acyltransferase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2	Colorectal(54;0.0993)					TGTTTTCCCCCGAGGTAGGGC	0.562													18	101					0	0	0.006122	0	0		T	20126835	T	T	20126835	4	4	215	1	0	0	0	0	0	1	0	0	17646	644	23	1	229	1	ZDHHC8	22	20126835	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08		20126835	31177731	272	107453											
HPS4	89781	broad.mit.edu	37	chr22	26849268	26849268	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gagaggctgaaggcgccatcCtgagggtttgggaagccgga	9	6	18	8	2	0	3	0	2	0	1	1	6	1	5	3	5	1	2	3	5	2	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr22:26849268C>T	uc003acl.2	-	14	2717	c.2058G>A	c.(2056-2058)CAG>CAA	p.Q686Q	HPS4_uc003aci.2_Silent_p.Q681Q|HPS4_uc003acj.2_Silent_p.Q550Q|HPS4_uc003ack.2_Silent_p.Q477Q|HPS4_uc003acn.2_Silent_p.Q532Q|HPS4_uc003ach.2_Silent_p.Q421Q	NM_022081	NP_071364	Q9NQG7	HPS4_HUMAN	light ear protein isoform a	686					lysosome organization|positive regulation of eye pigmentation|protein stabilization|protein targeting	lysosome|melanosome|membrane fraction|platelet dense granule	protein homodimerization activity				0						AGGCGCCATCCTGAGGGTTTG	0.592									Hermansky-Pudlak_syndrome				42	201					0	0	0.00874	0	0		T	26849268	T	T	26849268	2	4	215	1	0	0	0	0	0	0	0	1	7357	680	24	4		4	HPS4	22	26849268	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	6722433	26849268	24455298	273	107454											
CRYBB1	1414	broad.mit.edu	37	chr22	26995521	26995521	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccactgcttgtcacgcaggCgacgcagggactgcatctgt	7	8	13	13	3	2	0	1	0	1	0	2	2	2	1	1	2	2	4	1	2	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr22:26995521C>T	uc003acy.1	-	6	762	c.692G>A	c.(691-693)CGC>CAC	p.R231H		NM_001887	NP_001878	P53674	CRBB1_HUMAN	crystallin, beta B1	231	Beta/gamma crystallin 'Greek key' 4.				visual perception		structural constituent of eye lens			ovary(1)	1						GTCACGCAGGCGACGCAGGGA	0.627													58	13					0	0	0.01441	0	0		T	26995521	T	T	26995521	3	4	215	1	0	0	0	0	1	0	0	0	3913	768	27	1	70	1	CRYBB1	22	26995521	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	146253	26995521	24309045	274	107455											
CACNA1I	8911	broad.mit.edu	37	chr22	40045825	40045825	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggatgtgtggcgggagacGcgagccaagctgcgcggcat	7	5	20	9	5	0	1	0	0	0	1	0	4	0	2	1	5	3	2	1	5	1	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr22:40045825G>A	uc003ayc.2	+	10	1887	c.1887G>A	c.(1885-1887)ACG>ACA	p.T629T	CACNA1I_uc003ayd.2_Silent_p.T594T|CACNA1I_uc003aye.2_Silent_p.T544T|CACNA1I_uc003ayf.2_Silent_p.T509T	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	629	II.|Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)	GGCGGGAGACGCGAGCCAAGC	0.537													6	28					0	0	0.001168	0	0		A	40045825	A	A	40045825	2	1	215	1	0	0	0	0	0	0	0	1	2549	1074	38	1		1	CACNA1I	22	40045825	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	13050304	40045825	11258741	275	107456											
CHKB	1120	broad.mit.edu	37	chr22	51018797	51018797	+	Silent	SNP	G	A	A	0	0	1	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	cttctcctaccttcctggatGtcattgtggcagaagacgac	8	12	9	12	1	2	2	1	0	1	2	4	4	3	3	3	2	1	1	3	2	2	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chr22:51018797G>A	uc003bms.2	-	6	944	c.726C>T	c.(724-726)GAC>GAT	p.D242D	CPT1B_uc003bmk.3_5'Flank|CPT1B_uc003bml.2_5'Flank|CPT1B_uc003bmm.2_5'Flank|CPT1B_uc003bmo.2_5'Flank|CPT1B_uc011asa.1_5'Flank|CPT1B_uc003bmn.2_5'Flank|CPT1B_uc011asb.1_5'Flank|CHKB-CPT1B_uc003bmp.2_5'Flank|CHKB-CPT1B_uc003bmt.1_Silent_p.D33D|CHKB-CPT1B_uc003bmu.2_Silent_p.D121D|CHKB_uc003bmv.2_Silent_p.D242D|LOC100144603_uc003bmw.3_5'Flank	NM_005198	NP_005189	Q9Y259	CHKB_HUMAN	choline kinase beta	242					phosphatidylethanolamine biosynthetic process		ATP binding|choline kinase activity|ethanolamine kinase activity				0		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)	CTTCCTGGATGTCATTGTGGC	0.552													153	54					0	0	0.01441	0	0		A	51018797	A	A	51018797	2	1	215	1	0	0	0	0	0	0	0	1	3351	1368	48	4		4	CHKB	22	51018797	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	10972972	51018797	285769	276	107457											
PIGA	5277	broad.mit.edu	37	chrX	15342846	15342846	+	Missense_Mutation	SNP	T	A	A	0	1	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	agtctttactatgttatggaTgttttctggagctggcaatg	8	17	11	5	0	2	0	0	0	2	0	2	2	2	2	0	3	2	4	0	3	4	6			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:15342846T>A	uc004cwr.2	-	5	1229	c.1129A>T	c.(1129-1131)ATC>TTC	p.I377F	PIGA_uc010neu.2_Intron|PIGA_uc004cwq.2_Missense_Mutation_p.I62F|PIGA_uc010nev.2_Missense_Mutation_p.I208F|PIGA_uc004cws.2_Missense_Mutation_p.I62F|PIGA_uc011miq.1_Missense_Mutation_p.I143F	NM_002641	NP_002632	P37287	PIGA_HUMAN	phosphatidylinositol	377	Cytoplasmic (Potential).				C-terminal protein lipidation|positive regulation of metabolic process|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity|protein binding				0	Hepatocellular(33;0.183)					ATGTTATGGATGTTTTCTGGA	0.383													94	29					0	0	0.01441	0	0		A	15342846	A	A	15342846	3	1	215	1	0	0	0	0	1	0	0	0	11903	1464	51	5	333	5	PIGA	23	15342846	Missense_Mutation	SNP	T	TCGA-HU-A4H5-01A-21D-A25D-08		15342846	139927714	277	107458											
FAM47B	170062	broad.mit.edu	37	chrX	34962700	34962700	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gatgaacccgacattcttgaCggtctttatggaccaattgc	10	12	9	10	2	2	2	0	2	2	0	2	5	2	3	2	2	2	0	2	2	3	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:34962700C>T	uc004ddi.1	+	1	1770	c.1752C>T	c.(1750-1752)GAC>GAT	p.D584D		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	584										ovary(3)|breast(1)	4						ACATTCTTGACGGTCTTTATG	0.453													89	33					0	0	0.01441	0	0		T	34962700	T	T	34962700	2	4	215	1	0	0	0	0	0	0	0	1	5584	535	19	1		1	FAM47B	23	34962700	Silent	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	19619854	34962700	120307860	278	107459											
MAGEB16	139604	broad.mit.edu	37	chrX	35820338	35820338	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcaggatcaggagagtccaCgatgcacacatgatcagcac	13	6	10	12	1	3	2	3	1	0	1	4	5	4	3	1	2	2	2	1	2	0	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:35820338C>T	uc010ngt.1	+	2	304	c.25C>T	c.(25-27)CGA>TGA	p.R9*		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	9										lung(3)|ovary(2)|breast(1)|skin(1)	7						GGAGAGTCCACGATGCACACA	0.562													21	23					0	0	0.014323	0	0		T	35820338	T	T	35820338	4	4	215	1	0	0	0	0	0	1	0	0	9192	528	19	1	27	1	MAGEB16	23	35820338	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	857638	35820338	119450222	279	107460											
TAF1	6872	broad.mit.edu	37	chrX	70618460	70618460	+	Missense_Mutation	SNP	A	G	G	1	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	tgatgaacaacatcgggaagAgatgcgaaaagaacggcgga	17	4	14	6	4	0	4	0	2	0	2	1	8	0	6	0	3	4	0	0	3	6	0			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:70618460A>G	uc004dzu.3	+	24	3707	c.3656A>G	c.(3655-3657)GAG>GGG	p.E1219G	BCYRN1_uc011mpt.1_Intron|TAF1_uc004dzt.3_Missense_Mutation_p.E1240G|TAF1_uc004dzv.3_Missense_Mutation_p.E393G	NM_138923	NP_620278	P21675	TAF1_HUMAN	TBP-associated factor 1 isoform 2	1219	HMG box.				G1 phase of mitotic cell cycle|interspecies interaction between organisms|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription initiation from RNA polymerase II promoter|protein autophosphorylation|regulation of transcription involved in G2/M-phase of mitotic cell cycle|RNA polymerase II transcriptional preinitiation complex assembly|transcription elongation from RNA polymerase II promoter|viral reproduction	MLL1 complex|transcription factor TFIID complex	ATP binding|histone acetyl-lysine binding|histone acetyltransferase activity|p53 binding|protein binding|protein serine/threonine kinase activity|sequence-specific DNA binding|TBP-class protein binding|transcription coactivator activity			ovary(7)|breast(4)|large_intestine(2)|central_nervous_system(2)|lung(1)|skin(1)	17	Renal(35;0.156)	all_lung(315;0.000321)				CATCGGGAAGAGATGCGAAAA	0.468													27	16					0	0	0.00632	0	0		G	70618460	G	G	70618460	3	3	215	1	0	0	0	0	1	0	0	0	15538	304	11	3	3813	3	TAF1	23	70618460	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	34798122	70618460	84652100	280	107461											
CDX4	1046	broad.mit.edu	37	chrX	72667553	72667553	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	ccccagcaggagccgccacaGcccctatgcatggatgcgca	9	4	11	17	2	0	0	0	0	0	0	0	2	0	2	6	2	5	3	6	2	1	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:72667553G>C	uc011mqk.1	+	1	464	c.464G>C	c.(463-465)AGC>ACC	p.S155T		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	155						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					AGCCGCCACAGCCCCTATGCA	0.622													10	32					0	0	0.001855	0	0		C	72667553	C	C	72667553	3	2	215	1	0	0	0	0	1	0	0	0	3187	971	34	5	466	5	CDX4	23	72667553	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	2049093	72667553	82603007	281	107462											
DACH2	117154	broad.mit.edu	37	chrX	85969556	85969556	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactgtctcttttaggactgGatctgccatttatgatgatg	8	16	9	8	0	2	2	0	2	2	0	3	4	2	4	1	2	1	0	1	2	2	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:85969556G>T	uc004eew.2	+	6	1107	c.937G>T	c.(937-939)GAT>TAT	p.D313Y	DACH2_uc004eex.2_Missense_Mutation_p.D300Y|DACH2_uc010nmq.2_Missense_Mutation_p.D179Y|DACH2_uc011mra.1_Missense_Mutation_p.D146Y|DACH2_uc010nmr.2_Missense_Mutation_p.D94Y|DACH2_uc004eey.2_5'UTR|DACH2_uc004eez.2_5'UTR	NM_053281	NP_444511	Q96NX9	DACH2_HUMAN	dachshund 2 isoform a	313					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|nucleotide binding			ovary(4)|pancreas(1)	5						TTTAGGACTGGATCTGCCATT	0.348													59	24					9.5628e-27	1.14554e-26	0.01441	1	0		T	85969556	T	T	85969556	3	4	215	1	0	0	0	0	1	0	0	0	4224	1174	41	5	959	5	DACH2	23	85969556	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	13302003	85969556	69301004	282	107463											
ZMAT1	84460	broad.mit.edu	37	chrX	101138838	101138838	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agtattgttttctgaagagaGgtgcttgtaaacttcagatt	11	16	10	4	0	2	3	1	1	1	2	2	4	2	3	0	1	2	4	0	1	4	8			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:101138838G>C	uc004eim.2	-	2	4546	c.1048C>G	c.(1048-1050)CTC>GTC	p.L350V	ZMAT1_uc011mrl.1_Missense_Mutation_p.L521V|ZMAT1_uc004ein.2_Missense_Mutation_p.L350V|ZMAT1_uc011mrm.1_Missense_Mutation_p.L350V	NM_032441	NP_115817	Q5H9K5	ZMAT1_HUMAN	zinc finger, matrin type 1 isoform 3	350						nucleus	zinc ion binding			ovary(1)	1						TCTGAAGAGAGGTGCTTGTAA	0.418													11	22					0	0	0.008291	0	0		C	101138838	C	C	101138838	3	2	215	1	0	0	0	0	1	0	0	0	17716	1000	35	5	359	5	ZMAT1	23	101138838	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	15169282	101138838	54131722	283	107464											
TCEAL3	85012	broad.mit.edu	37	chrX	102864295	102864295	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cgggccgccgaaaagcgcccGgctgaagattatgtgccccg	8	5	14	14	6	0	2	0	1	0	1	0	3	0	2	5	2	2	1	5	2	4	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:102864295G>A	uc004ekq.2	+	3	565	c.303G>A	c.(301-303)CCG>CCA	p.P101P	TCEAL3_uc004ekr.2_Silent_p.P101P	NM_001006933	NP_001006934	Q969E4	TCAL3_HUMAN	transcription elongation factor A (SII)-like 3	101					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0						AAAAGCGCCCGGCTGAAGATT	0.612													144	26					0	0	0.01441	0	0		A	102864295	A	A	102864295	2	1	215	1	0	0	0	0	0	0	0	1	15697	1103	39	1		1	TCEAL3	23	102864295	Silent	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	1725457	102864295	52406265	284	107465											
DOCK11	139818	broad.mit.edu	37	chrX	117744266	117744266	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccagagatttcccgagacatAtcatcatgtcttacattcac	12	12	5	12	1	4	2	3	0	1	2	5	4	5	2	2	0	1	0	2	0	2	4			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:117744266A>T	uc004eqp.2	+	28	3044	c.2981A>T	c.(2980-2982)TAT>TTT	p.Y994F	DOCK11_uc004eqq.2_Missense_Mutation_p.Y760F	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	994					blood coagulation	cytosol	GTP binding			ovary(3)	3						CCCGAGACATATCATCATGTC	0.403													22	47					0	0	0.003954	0	0		T	117744266	T	T	117744266	3	4	215	1	0	0	0	0	1	0	0	0	4692	449	16	5	3091	5	DOCK11	23	117744266	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	14879971	117744266	37526294	285	107466											
DDX26B	203522	broad.mit.edu	37	chrX	134711259	134711259	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggaaaccacaaacaccacctActgtaactaaccatgtgggc	15	6	7	13	0	0	0	0	0	0	0	0	1	0	1	4	2	5	1	4	2	5	3			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:134711259A>T	uc004eyw.3	+	14	2278	c.1915A>T	c.(1915-1917)ACT>TCT	p.T639S	DDX26B_uc004eyx.3_Missense_Mutation_p.T240S	NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide	639											0	Acute lymphoblastic leukemia(192;6.56e-05)					AACACCACCTACTGTAACTAA	0.483													25	166					0	0	0.005443	0	0		T	134711259	T	T	134711259	3	4	215	1	0	0	0	0	1	0	0	0	4356	391	14	5	1969	5	DDX26B	23	134711259	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	16966993	134711259	20559301	286	107467											
ARHGEF6	9459	broad.mit.edu	37	chrX	135861601	135861601	+	Missense_Mutation	SNP	A	T	T	1	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	ggagggttgcacatcctttcAggaagtcattgatgttgttg	8	14	13	6	0	2	1	2	1	0	0	3	3	3	3	1	3	1	4	1	3	1	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:135861601A>T	uc004fab.2	-	2	683	c.221T>A	c.(220-222)CTG>CAG	p.L74Q		NM_004840	NP_004831	Q15052	ARHG6_HUMAN	Rac/Cdc42 guanine nucleotide exchange factor 6	74	CH.				apoptosis|cell junction assembly|induction of apoptosis by extracellular signals|JNK cascade|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity				0	Acute lymphoblastic leukemia(192;0.000127)					ACATCCTTTCAGGAAGTCATT	0.458													102	22					0	0	0.01441	0	0		T	135861601	T	T	135861601	3	4	215	1	0	0	0	0	1	0	0	0	910	188	7	5	2193	5	ARHGEF6	23	135861601	Missense_Mutation	SNP	A	TCGA-HU-A4H5-01A-21D-A25D-08	1150342	135861601	19408959	287	107468											
SLC10A3	8273	broad.mit.edu	37	chrX	153717161	153717161	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggctgtcccttgggcccccCatggcaggctgatgagcagc	5	8	14	14	0	0	2	0	2	0	0	1	2	1	2	4	4	2	4	4	4	0	1			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:153717161C>T	uc004flq.2	-	3	383	c.119G>A	c.(118-120)TGG>TAG	p.W40*	UBL4A_uc004flo.2_5'Flank|SLC10A3_uc004flr.2_Nonsense_Mutation_p.W40*|SLC10A3_uc004flp.2_Nonsense_Mutation_p.W40*	NM_001142392	NP_001135864	P09131	P3_HUMAN	solute carrier family 10, member 3 isoform 1	40					organic anion transport	integral to membrane	bile acid:sodium symporter activity			ovary(1)|skin(1)	2	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)					TTGGGCCCCCCATGGCAGGCT	0.657													39	57					0	0	0.00623	0	0		T	153717161	T	T	153717161	4	4	215	1	0	0	0	0	0	1	0	0	14400	595	21	4	1318	4	SLC10A3	23	153717161	Nonsense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	17855560	153717161	1553399	288	107469											
MPP1	4354	broad.mit.edu	37	chrX	154020488	154020488	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	ctcctgtcccttgacctgggCagggctacctggggcaggag	5	8	15	13	0	0	1	0	1	0	0	2	2	2	2	4	5	1	3	4	5	1	2			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:154020488C>T	uc004fmp.1	-	2	290	c.175G>A	c.(175-177)GCC>ACC	p.A59T	MPP1_uc010nvg.1_Missense_Mutation_p.A59T|MPP1_uc011mzv.1_Missense_Mutation_p.A29T|MPP1_uc004fmq.1_Missense_Mutation_p.A13T|MPP1_uc011mzw.1_Missense_Mutation_p.A59T|MPP1_uc010nvh.1_Intron	NM_002436	NP_002427	Q00013	EM55_HUMAN	palmitoylated membrane protein 1	59					regulation of neutrophil chemotaxis|signal transduction	integral to plasma membrane|membrane fraction|stereocilium	guanylate kinase activity|protein binding			ovary(2)|central_nervous_system(1)	3	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)					TTGACCTGGGCAGGGCTACCT	0.542													57	67					0	0	0.01441	0	0		T	154020488	T	T	154020488	3	4	215	1	0	0	0	0	1	0	0	0	9751	710	25	2	1269	2	MPP1	23	154020488	Missense_Mutation	SNP	C	TCGA-HU-A4H5-01A-21D-A25D-08	303327	154020488	1250072	289	107470											
FUNDC2	65991	broad.mit.edu	37	chrX	154282921	154282921	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taactgggggatttttcggaGgctttctgcttggcatggca	6	14	14	7	1	1	0	0	0	1	0	2	2	1	2	0	6	2	4	0	6	1	5			TCGA-HU-A4H5-01A-21D-A25D-08	TCGA-HU-A4H5-11A-11D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	26e080d1-cf7d-47c4-b396-034204ca8b04	aa498ac3-968f-488a-a476-d8d2b398fb49	g.chrX:154282921G>C	uc004fmw.2	+	5	694	c.544G>C	c.(544-546)GGC>CGC	p.G182R		NM_023934	NP_076423	Q9BWH2	FUND2_HUMAN	FUN14 domain containing 2	182						mitochondrion					0	all_cancers(53;3.51e-17)|all_epithelial(53;5.13e-11)|all_lung(58;3.84e-07)|Lung NSC(58;1.2e-06)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					ATTTTTCGGAGGCTTTCTGCT	0.428													201	32					0	0	0.01441	0	0		C	154282921	C	C	154282921	3	2	215	1	0	0	0	0	1	0	0	0	6112	1000	35	5	562	5	FUNDC2	23	154282921	Missense_Mutation	SNP	G	TCGA-HU-A4H5-01A-21D-A25D-08	262433	154282921	987639	290	107471											
GPR153	387509	broad.mit.edu	37	chr1	6314738	6314738	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagagaccctcattccactcGaagtcggggcgctgccgccg	7	6	12	16	5	1	1	1	0	0	1	4	3	2	1	4	2	1	1	4	2	1	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:6314738G>A	uc001amp.1	-	2	488	c.228C>T	c.(226-228)TTC>TTT	p.F76F		NM_207370	NP_997253	Q6NV75	GP153_HUMAN	G protein-coupled receptor 153	76	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0	Ovarian(185;0.0634)	all_cancers(23;8.07e-33)|all_epithelial(116;4.45e-18)|all_lung(118;1.09e-06)|all_neural(13;3.68e-06)|Lung NSC(185;1.52e-05)|all_hematologic(16;2.39e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00475)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;1.91e-37)|GBM - Glioblastoma multiforme(13;4.87e-29)|OV - Ovarian serous cystadenocarcinoma(86;3.03e-19)|Colorectal(212;1.33e-07)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(365;0.00109)|STAD - Stomach adenocarcinoma(132;0.00313)|READ - Rectum adenocarcinoma(331;0.0642)|Lung(427;0.246)		CATTCCACTCGAAGTCGGGGC	0.612													25	128					0	0	0.004656	0	0		A	6314738	A	A	6314738	2	1	216	1	0	0	0	0	0	0	0	1	6674	1049	37	1		1	GPR153	1	6314738	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		6314738	242935883	1	107472											
CLCNKB	1188	broad.mit.edu	37	chr1	16375656	16375656	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	tcatgtcttcccacttctctGtctgggattactggaggggc	5	14	11	11	0	4	0	1	0	3	0	6	2	5	2	1	4	1	0	1	4	1	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:16375656G>A	uc001axw.3	+	8	777	c.697G>A	c.(697-699)GTC>ATC	p.V233I	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.V233I|CLCNKB_uc001axy.3_Missense_Mutation_p.V64I	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	233					excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		CCACTTCTCTGTCTGGGATTA	0.632													19	162					0	0	0.014323	0	0		A	16375656	A	A	16375656	3	1	216	1	0	0	0	0	1	0	0	0	3473	1377	48	4	871	4	CLCNKB	1	16375656	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	10060918	16375656	232874965	2	107473											
PTPRF	5792	broad.mit.edu	37	chr1	44071064	44071064	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gcctctgcctacatagaggaCggccgcttcgatctctccat	7	10	9	15	3	2	1	0	0	2	1	5	3	3	2	4	2	2	1	4	2	2	3	rs148630488		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:44071064C>T	uc001cjr.2	+	18	3679	c.3339C>T	c.(3337-3339)GAC>GAT	p.D1113D	PTPRF_uc001cjs.2_Silent_p.D1104D|PTPRF_uc001cju.2_Silent_p.D491D|PTPRF_uc009vwt.2_Silent_p.D673D|PTPRF_uc001cjv.2_Silent_p.D573D|PTPRF_uc001cjw.2_Silent_p.D339D	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	1113	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ACATAGAGGACGGCCGCTTCG	0.667													8	53					0	0	0.008291	0	0		T	44071064	T	T	44071064	2	4	216	1	0	0	0	0	0	0	0	1	12826	535	19	1		1	PTPRF	1	44071064	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	27695408	44071064	205179557	3	107474											
CYP4X1	260293	broad.mit.edu	37	chr1	47501734	47501734	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	atatttgaactcagcaaaatCatatttcaccgcttgtacag	14	13	5	9	1	3	1	3	1	0	0	3	1	3	1	1	0	3	3	1	0	6	6			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:47501734C>T	uc001cqt.2	+	6	916	c.666C>T	c.(664-666)ATC>ATT	p.I222I	CYP4X1_uc001cqr.2_Silent_p.I221I|CYP4X1_uc001cqs.2_Silent_p.I157I	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	222						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						TCAGCAAAATCATATTTCACC	0.383													11	146					0	0	0.00245	0	0		T	47501734	T	T	47501734	2	4	216	1	0	0	0	0	0	0	0	1	4196	816	29	4		4	CYP4X1	1	47501734	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	3430670	47501734	201748887	4	107475											
ASB17	127247	broad.mit.edu	37	chr1	76397900	76397900	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtagggagggtcttttaacaAttttgtcaaggagattgcag	11	13	13	4	0	2	1	1	0	1	1	2	3	2	2	0	3	2	2	0	3	4	6			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:76397900A>T	uc001dhe.1	-	1	217	c.77T>A	c.(76-78)ATT>AAT	p.I26N	ASB17_uc001dhf.1_RNA	NM_080868	NP_543144	Q8WXJ9	ASB17_HUMAN	ankyrin repeat and SOCS box-containing 17	26					intracellular signal transduction					ovary(1)	1						TCTTTTAACAATTTTGTCAAG	0.378													9	72					0	0	0.004482	0	0		T	76397900	T	T	76397900	3	4	216	1	0	0	0	0	1	0	0	0	1022	101	4	5	822	5	ASB17	1	76397900	Missense_Mutation	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08	28896166	76397900	172852721	5	107476											
ATP8B2	57198	broad.mit.edu	37	chr1	154313404	154313404	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gttctgcatgaagaagcggaCgcctgcagaagcccgcacca	11	5	12	13	3	1	3	0	1	1	2	1	4	1	4	3	1	4	4	3	1	3	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:154313404C>T	uc001fex.2	+	13	1208	c.1208C>T	c.(1207-1209)ACG>ATG	p.T403M		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	389	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AAGAAGCGGACGCCTGCAGAA	0.567													14	104					0	0	0.001855	0	0		T	154313404	T	T	154313404	3	4	216	1	0	0	0	0	1	0	0	0	1196	536	19	1	1388	1	ATP8B2	1	154313404	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	77915504	154313404	94937217	6	107477											
POGK	57645	broad.mit.edu	37	chr1	166819614	166819614	+	Missense_Mutation	SNP	T	A	A	0	1	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	gaggagaaccaccaaaagatTgtgacaccgaaagcatggct	16	5	11	9	1	0	3	0	1	0	2	0	6	0	3	3	2	2	2	3	2	4	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:166819614T>A	uc001gdt.1	+	5	1918	c.1798T>A	c.(1798-1800)TGT>AGT	p.C600S	POGK_uc010ple.1_Missense_Mutation_p.C515S|POGK_uc010plf.1_Missense_Mutation_p.C482S	NM_017542	NP_060012	Q9P215	POGK_HUMAN	pogo transposable element with KRAB domain	600					multicellular organismal development|regulation of transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						ACCAAAAGATTGTGACACCGA	0.348													4	38					0	0	0.009096	0	0		A	166819614	A	A	166819614	3	1	216	1	0	0	0	0	1	0	0	0	12204	1812	63	5	1812	5	POGK	1	166819614	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08	12506210	166819614	82431007	7	107478											
GORAB	92344	broad.mit.edu	37	chr1	170508603	170508603	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	acaaccacagggcattgaaaGtcagccaaaggaactgggac	16	4	11	10	0	1	1	1	1	0	0	1	3	1	3	2	3	3	1	2	3	4	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:170508603G>A	uc001gha.2	+	2	416	c.389G>A	c.(388-390)AGT>AAT	p.S130N	GORAB_uc009wvw.2_3'UTR|GORAB_uc001ggz.3_Missense_Mutation_p.S130N|GORAB_uc009wvx.2_5'UTR|GORAB_uc001ghb.2_5'UTR|GORAB_uc001ghc.2_5'UTR	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a	130						Golgi apparatus|nucleus					0						GGCATTGAAAGTCAGCCAAAG	0.448													11	81					0	0	0.010729	0	0		A	170508603	A	A	170508603	3	1	216	1	0	0	0	0	1	0	0	0	6589	1029	36	4	395	4	GORAB	1	170508603	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	3688989	170508603	78742018	8	107479											
FMO3	2328	broad.mit.edu	37	chr1	171083421	171083421	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ttgagaagtcaaccatagcaGtgattggctttgtccagtcc	10	12	10	9	0	1	2	1	2	0	1	3	3	3	2	3	1	2	2	3	1	3	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:171083421G>A	uc001ghi.2	+	7	1213	c.1102G>A	c.(1102-1104)GTG>ATG	p.V368M	FMO3_uc001ghh.2_Missense_Mutation_p.V368M|FMO3_uc010pmb.1_Missense_Mutation_p.V348M|FMO3_uc010pmc.1_Missense_Mutation_p.V305M	NM_001002294	NP_001002294	P31513	FMO3_HUMAN	flavin containing monooxygenase 3	368					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AACCATAGCAGTGATTGGCTT	0.448													5	69					0	0	0.000602	0	0		A	171083421	A	A	171083421	3	1	216	1	0	0	0	0	1	0	0	0	5970	1029	36	4	1124	4	FMO3	1	171083421	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	574818	171083421	78167200	9	107480											
TNR	7143	broad.mit.edu	37	chr1	175355235	175355235	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acggcactgactgacacctcGtatcgggagccaggccgcag	9	5	13	14	4	0	2	0	2	0	0	2	3	0	3	3	3	1	3	3	3	1	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:175355235G>A	uc001gkp.1	-	6	1791	c.1710C>T	c.(1708-1710)TAC>TAT	p.Y570Y	TNR_uc009wwu.1_Silent_p.Y570Y	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	570	Fibronectin type-III 3.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					CTGACACCTCGTATCGGGAGC	0.632													10	111					0	0	0.008291	0	0		A	175355235	A	A	175355235	2	1	216	1	0	0	0	0	0	0	0	1	16363	1140	40	1		1	TNR	1	175355235	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	4271814	175355235	73895386	10	107481											
PTPRC	5788	broad.mit.edu	37	chr1	198721391	198721391	+	Missense_Mutation	SNP	A	C	C	1	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	tatctaggaaatctgtgctcAgtactggggagaaggaaagc	13	9	13	6	0	3	1	1	0	2	1	3	4	3	3	0	4	3	2	0	4	6	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:198721391A>C	uc001gur.1	+	30	3395	c.3215A>C	c.(3214-3216)CAG>CCG	p.Q1072P	PTPRC_uc001gus.1_Missense_Mutation_p.Q1024P|PTPRC_uc001gut.1_Missense_Mutation_p.Q911P	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	1072	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						ATCTGTGCTCAGTACTGGGGA	0.378													7	64					0	0	0.001984	0	0		C	198721391	C	C	198721391	3	2	216	1	0	0	0	0	1	0	0	0	12822	188	7	5	3340	5	PTPRC	1	198721391	Missense_Mutation	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08	23366156	198721391	50529230	11	107482											
C1orf124	83932	broad.mit.edu	37	chr1	231488616	231488616	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ttagtaacagtcaccaaaatGttctaagcaactactttcct	14	13	4	10	0	2	0	1	0	1	0	3	0	3	0	2	0	4	3	2	0	7	6			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:231488616G>A	uc001hur.2	+	5	1427	c.979G>A	c.(979-981)GTT>ATT	p.V327I	C1orf124_uc001hus.2_3'UTR|C1orf124_uc001hut.2_3'UTR	NM_032018	NP_114407	Q9H040	CA124_HUMAN	hypothetical protein LOC83932 isoform a	327					DNA repair	nuclear speck	DNA binding|metal ion binding				0	Breast(184;0.0871)	all_cancers(173;0.151)|Prostate(94;0.183)				TCACCAAAATGTTCTAAGCAA	0.388													8	93					0	0	0.004482	0	0		A	231488616	A	A	231488616	3	1	216	1	0	0	0	0	1	0	0	0	1995	1377	48	4	1032	4	C1orf124	1	231488616	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	32767225	231488616	17762005	12	107483											
OR2G3	81469	broad.mit.edu	37	chr1	247769302	247769302	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	atgtagtcatcatgaacccaCggctttgccaacagctggca	11	9	9	12	1	2	1	2	1	0	0	2	1	2	1	2	2	4	4	2	2	3	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:247769302C>T	uc010pyz.1	+	1	415	c.415C>T	c.(415-417)CGG>TGG	p.R139W		NM_001001914	NP_001001914	Q8NGZ4	OR2G3_HUMAN	olfactory receptor, family 2, subfamily G,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	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)			CATGAACCCACGGCTTTGCCA	0.512													11	171					0	0	0.008291	0	0		T	247769302	T	T	247769302	3	4	216	1	0	0	0	0	1	0	0	0	11018	527	19	1	417	1	OR2G3	1	247769302	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	16280686	247769302	1481319	13	107484											
OR2T3	343173	broad.mit.edu	37	chr1	248637551	248637551	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atttacagtctccgcaacaaAgatgtcaccagggctctgag	12	9	9	11	1	3	2	1	1	2	1	4	2	3	2	2	1	2	2	2	1	3	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr1:248637551A>C	uc001iel.1	+	1	900	c.900A>C	c.(898-900)AAA>AAC	p.K300N		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	300	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			TCCGCAACAAAGATGTCACCA	0.478													25	250					0	0	0.003271	0	0		C	248637551	C	C	248637551	3	2	216	1	0	0	0	0	1	0	0	0	11042	69	3	5	902	5	OR2T3	1	248637551	Missense_Mutation	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08	868249	248637551	613070	14	107485											
TSPYL6	388951	broad.mit.edu	37	chr2	54482767	54482767	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctattgctctgttttcttcCgccacgtccatttcttcgcc	3	18	5	15	3	4	0	0	0	4	0	7	0	6	0	4	0	1	2	4	0	1	7			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:54482767C>T	uc002rxr.2	-	1	643	c.522G>A	c.(520-522)GCG>GCA	p.A174A	ACYP2_uc002rxq.3_Intron	NM_001003937	NP_001003937	Q8N831	TSYL6_HUMAN	TSPY-like 6	174					nucleosome assembly	nucleus					0						TGTTTTCTTCCGCCACGTCCA	0.612													6	90					0	0	0.00308	0	0		T	54482767	T	T	54482767	2	4	216	1	0	0	0	0	0	0	0	1	16689	639	23	1		1	TSPYL6	2	54482767	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08		54482767	188716606	15	107486											
BCL11A	53335	broad.mit.edu	37	chr2	60687922	60687922	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gccgctgcgccccgagatccCtccgtccagctccccgggcg	3	5	12	21	6	0	1	0	0	0	1	4	2	4	1	8	1	2	2	8	1	0	0			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:60687922C>T	uc002sae.1	-	4	2353	c.2125G>A	c.(2125-2127)GGG>AGG	p.G709R	BCL11A_uc002sab.2_Missense_Mutation_p.G709R|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.G378R|BCL11A_uc010ypj.1_Missense_Mutation_p.G675R|BCL11A_uc002sad.1_Missense_Mutation_p.G557R|BCL11A_uc002saf.1_Missense_Mutation_p.G675R	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	709					negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			CCCGAGATCCCTCCGTCCAGC	0.662			T	IGH@	B-CLL								11	87					0	0	0.010729	0	0		T	60687922	T	T	60687922	3	4	216	1	0	0	0	0	1	0	0	0	1364	681	24	4	492	4	BCL11A	2	60687922	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	6205155	60687922	182511451	16	107487											
ZAP70	7535	broad.mit.edu	37	chr2	98341619	98341619	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggagaagctcattgctacgaCggcccacgagcggatgccct	9	6	13	13	4	1	1	1	0	0	1	1	5	1	2	2	3	5	2	2	3	2	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:98341619C>T	uc002syd.1	+	4	674	c.467C>T	c.(466-468)ACG>ATG	p.T156M	ZAP70_uc010yvf.1_Missense_Mutation_p.T156M|ZAP70_uc002sye.1_Missense_Mutation_p.T46M	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	156	Interdomain A.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						ATTGCTACGACGGCCCACGAG	0.632													11	60					0	0	0.010729	0	0		T	98341619	T	T	98341619	3	4	216	1	0	0	0	0	1	0	0	0	17540	536	19	1	473	1	ZAP70	2	98341619	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	37653697	98341619	144857754	17	107488											
EN1	2019	broad.mit.edu	37	chr2	119600593	119600593	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccatgaggtgcagcgccaggCcgttcttgatgcctgtggct	5	10	14	12	2	1	2	0	2	1	0	1	2	1	2	4	3	3	3	4	3	0	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:119600593C>T	uc002tlm.2	-	2	2116	c.1100G>A	c.(1099-1101)GGC>GAC	p.G367D		NM_001426	NP_001417	Q05925	HME1_HUMAN	engrailed homeobox 1	367					skeletal system development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|lung(1)	2						CAGCGCCAGGCCGTTCTTGAT	0.552													6	69					0	0	0.00308	0	0		T	119600593	T	T	119600593	3	4	216	1	0	0	0	0	1	0	0	0	5117	739	26	2	82	2	EN1	2	119600593	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	21258974	119600593	123598780	18	107489											
RBMS1	5937	broad.mit.edu	37	chr2	161133833	161133833	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaacaggaaccgctgtcGtctgcatatgtgcatactgt	9	11	9	12	2	2	0	1	0	1	0	3	1	2	1	2	1	5	3	2	1	4	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:161133833G>A	uc002ubo.2	-	12	1568	c.1124C>T	c.(1123-1125)ACG>ATG	p.T375M	RBMS1_uc002ubj.2_Missense_Mutation_p.T355M|RBMS1_uc002ubk.2_Missense_Mutation_p.T339M|RBMS1_uc002ubl.2_Missense_Mutation_p.T370M|RBMS1_uc002ubn.2_Missense_Mutation_p.T372M|RBMS1_uc002ubi.3_Missense_Mutation_p.T388M|RBMS1_uc002ubm.2_Missense_Mutation_p.T358M|RBMS1_uc002ubp.2_Missense_Mutation_p.T391M	NM_016836	NP_058520	P29558	RBMS1_HUMAN	RNA binding motif, single stranded interacting	375					DNA replication|RNA processing	nucleus	double-stranded DNA binding|nucleotide binding|protein binding|RNA binding|single-stranded DNA binding				0						AACCGCTGTCGTCTGCATATG	0.433													6	82					0	0	0.004482	0	0		A	161133833	A	A	161133833	3	1	216	1	0	0	0	0	1	0	0	0	13173	1145	40	1	104	1	RBMS1	2	161133833	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	41533240	161133833	82065540	19	107490											
GALNT3	2591	broad.mit.edu	37	chr2	166618440	166618440	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcatctaaaaatgtgagcgtTtcagctgttgcgactgttgc	9	13	11	8	2	2	1	1	1	1	0	2	2	2	1	0	0	4	5	0	0	3	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:166618440T>A	uc010fph.1	-	4	1200	c.813A>T	c.(811-813)GAA>GAT	p.E271D	GALNT3_uc010fpi.1_Missense_Mutation_p.E271D	NM_004482	NP_004473	Q14435	GALT3_HUMAN	polypeptide N-acetylgalactosaminyltransferase 3	271	Catalytic subdomain A.|Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	Golgi cisterna membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	calcium ion binding|manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(2)|ovary(1)	3						ATGTGAGCGTTTCAGCTGTTG	0.363													8	98					0	0	0.004482	0	0		A	166618440	A	A	166618440	3	1	216	1	0	0	0	0	1	0	0	0	6229	1838	64	5	1120	5	GALNT3	2	166618440	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08	5484607	166618440	76580933	20	107491											
SLC39A10	57181	broad.mit.edu	37	chr2	196573489	196573489	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgctgtattgaaaggacTtgttgctctaggaggcattt	9	15	12	5	0	1	2	0	2	1	0	1	4	1	4	0	3	2	5	0	3	3	6			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:196573489T>G	uc002utg.3	+	5	1710	c.1496T>G	c.(1495-1497)CTT>CGT	p.L499R	SLC39A10_uc002uth.3_Missense_Mutation_p.L499R|SLC39A10_uc010zgp.1_Missense_Mutation_p.L49R	NM_001127257	NP_001120729	Q9ULF5	S39AA_HUMAN	solute carrier family 39 (zinc transporter),	499	Helical; (Potential).				zinc ion transport	integral to membrane	metal ion transmembrane transporter activity			pancreas(1)|skin(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.221)			TTGAAAGGACTTGTTGCTCTA	0.348													12	62					0	0	0.013537	0	0		G	196573489	G	G	196573489	3	3	216	1	0	0	0	0	1	0	0	0	14638	1609	56	5	1510	5	SLC39A10	2	196573489	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08	29955049	196573489	46625884	21	107492											
RFTN2	130132	broad.mit.edu	37	chr2	198540173	198540173	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcttctagctttctaagtcCgcaccccatggcaaaatctg	9	12	7	13	1	4	0	0	0	4	0	5	0	5	0	3	1	1	3	3	1	4	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:198540173C>T	uc002uuo.3	-	1	412	c.10G>A	c.(10-12)GGA>AGA	p.G4R		NM_144629	NP_653230	Q52LD8	RFTN2_HUMAN	raftlin family member 2	4						plasma membrane					0						TTTCTAAGTCCGCACCCCATG	0.418													15	141					0	0	0.00245	0	0		T	198540173	T	T	198540173	3	4	216	1	0	0	0	0	1	0	0	0	13284	661	23	1	1531	1	RFTN2	2	198540173	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	1966684	198540173	44659200	22	107493											
RNF25	64320	broad.mit.edu	37	chr2	219529554	219529554	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ctggtagagccgcttgcgttCttcttgctggcgcaagctct	4	13	12	12	3	3	1	0	0	3	1	3	1	3	1	1	2	4	6	1	2	2	5			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr2:219529554C>G	uc002vit.2	-	9	797	c.709G>C	c.(709-711)GAA>CAA	p.E237Q	RNF25_uc010fvw.2_Missense_Mutation_p.E125Q	NM_022453	NP_071898	Q96BH1	RNF25_HUMAN	ring finger protein 25	237					positive regulation of NF-kappaB transcription factor activity	cytosol|nucleus	NF-kappaB binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Renal(207;0.0474)		Epithelial(149;6.99e-07)|all cancers(144;0.000129)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CGCTTGCGTTCTTCTTGCTGG	0.552													8	46					0	0	0.004482	0	0		G	219529554	G	G	219529554	3	3	216	1	0	0	0	0	1	0	0	0	13510	922	32	5	678	5	RNF25	2	219529554	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	20989381	219529554	23669819	23	107494											
ZNF385D	79750	broad.mit.edu	37	chr3	21552505	21552505	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtgcctttgtagtgggccGcagcctggctctacaaagga	7	10	13	11	2	1	0	0	0	1	0	2	1	1	1	3	3	3	3	3	3	3	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr3:21552505G>A	uc003cce.2	-	4	695	c.287C>T	c.(286-288)GCG>GTG	p.A96V	ZNF385D_uc010hfb.1_RNA	NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	96	Matrin-type 1.					nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						GTAGTGGGCCGCAGCCTGGCT	0.443													8	60					0	0	0.00308	0	0		A	21552505	A	A	21552505	3	1	216	1	0	0	0	0	1	0	0	0	17903	1087	38	1	920	1	ZNF385D	3	21552505	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		21552505	176469925	24	107495											
MYD88	4615	broad.mit.edu	37	chr3	38181925	38181925	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttcatctgctattgccccagCgacatccagtttgtgcagga	8	12	9	12	1	2	0	1	0	1	0	3	2	3	1	3	1	4	3	3	1	1	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr3:38181925C>T	uc003chx.2	+	3	733	c.549C>T	c.(547-549)AGC>AGT	p.S183S	MYD88_uc011ayh.1_3'UTR|MYD88_uc011ayi.1_Silent_p.S183S|MYD88_uc011ayj.1_Intron|MYD88_uc011ayk.1_Intron|MYD88_uc011ayl.1_Silent_p.S138S	NM_002468	NP_002459	Q99836	MYD88_HUMAN	myeloid differentiation primary response gene	170	TIR.				3'-UTR-mediated mRNA stabilization|anti-apoptosis|cellular response to mechanical stimulus|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-17 production|positive regulation of interleukin-23 production|positive regulation of interleukin-6 production|regulation of inflammatory response|response to interleukin-1|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|intrinsic to membrane|plasma membrane	death receptor binding|TIR domain binding|transmembrane receptor activity			haematopoietic_and_lymphoid_tissue(93)|breast(1)	94				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		ATTGCCCCAGCGACATCCAGT	0.562			Mis 		ABC-DLBCL								10	96					0	0	0.001855	0	0		T	38181925	T	T	38181925	2	4	216	1	0	0	0	0	0	0	0	1	10041	767	27	1		1	MYD88	3	38181925	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	16629420	38181925	159840505	25	107496											
TRAK1	22906	broad.mit.edu	37	chr3	42244190	42244190	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccggcttctctggcatgtccTtcagcagccgctcctacctg	4	11	9	17	2	2	0	1	0	1	0	5	0	4	0	5	2	3	4	5	2	1	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr3:42244190T>C	uc003cky.2	+	13	1906	c.1690T>C	c.(1690-1692)TTC>CTC	p.F564L	TRAK1_uc011azh.1_Missense_Mutation_p.F564L|TRAK1_uc011azi.1_Missense_Mutation_p.F564L|TRAK1_uc003ckz.3_Missense_Mutation_p.F490L|TRAK1_uc011azj.1_Missense_Mutation_p.F490L|TRAK1_uc003cla.2_Missense_Mutation_p.F506L	NM_001042646	NP_001036111	Q9UPV9	TRAK1_HUMAN	OGT(O-Glc-NAc transferase)-interacting protein	564					endosome to lysosome transport|protein O-linked glycosylation|protein targeting|regulation of transcription from RNA polymerase II promoter	early endosome|mitochondrion|nucleus				ovary(1)	1						TGGCATGTCCTTCAGCAGCCG	0.657													6	79					0	0	0.001168	0	0		C	42244190	C	C	42244190	3	2	216	1	0	0	0	0	1	0	0	0	16475	1609	56	3	1856	3	TRAK1	3	42244190	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08	4062265	42244190	155778240	26	107497											
CDHR4	389118	broad.mit.edu	37	chr3	49836305	49836305	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggagcagagtgtacagcCgagccccaggtgtgactgtc	9	6	16	10	1	0	2	0	1	0	1	1	5	0	4	3	3	4	2	3	3	1	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr3:49836305C>T	uc010hkz.2	-	4	458	c.449G>A	c.(448-450)CGG>CAG	p.R150Q	CDHR4_uc003cxp.2_Silent_p.S175S|CDHR4_uc011bcw.1_Missense_Mutation_p.R150Q	NM_001007540	NP_001007541	A6H8M9	CDHR4_HUMAN	cadherin-like 29 precursor	150	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0						AGTGTACAGCCGAGCCCCAGG	0.632													4	19					0	0	0.009096	0	0		T	49836305	T	T	49836305	3	4	216	1	0	0	0	0	1	0	0	0	3124	652	23	1	1981	1	CDHR4	3	49836305	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	7592115	49836305	148186125	27	107498											
DNAH1	25981	broad.mit.edu	37	chr3	52404605	52404605	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cactggggacagcagtggccGcaccagtttcagccactggc	8	6	13	14	1	1	0	1	0	0	0	1	1	1	1	3	4	2	3	3	4	0	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr3:52404605G>A	uc011bef.1	+	40	6632	c.6371G>A	c.(6370-6372)CGC>CAC	p.R2124H		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	2124					ciliary or flagellar motility|microtubule-based movement|response to mechanical stimulus	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(193;2.02e-05)|OV - Ovarian serous cystadenocarcinoma(275;0.000207)|Kidney(197;0.0022)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		AGCAGTGGCCGCACCAGTTTC	0.597													3	14					0	0	0.009096	0	0		A	52404605	A	A	52404605	3	1	216	1	0	0	0	0	1	0	0	0	4603	1087	38	1	6525	1	DNAH1	3	52404605	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	2568300	52404605	145617825	28	107499											
HTT	3064	broad.mit.edu	37	chr4	3215685	3215685	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gactcggtacttccctttagGccctgtcctggcatttgatc	5	14	9	13	1	0	1	0	1	0	0	4	2	2	1	3	3	1	2	3	3	2	5			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr4:3215685G>T	uc011bvq.1	+	51	6926	c.6781G>T	c.(6781-6783)GCC>TCC	p.A2261S		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	2259					establishment of mitotic spindle orientation|Golgi organization|retrograde vesicle-mediated transport, Golgi to ER|vesicle transport along microtubule	autophagic vacuole|axon|cytoplasmic vesicle membrane|cytosol|dendrite|endoplasmic reticulum|Golgi apparatus|late endosome|membrane fraction|nucleus|protein complex	beta-tubulin binding|dynactin binding|dynein intermediate chain binding|p53 binding|transcription factor binding			skin(2)|ovary(1)|lung(1)	4		all_epithelial(65;0.18)		UCEC - Uterine corpus endometrioid carcinoma (64;0.187)		TTCCCTTTAGGCCCTGTCCTG	0.592													16	81					8.04996e-18	8.88051e-18	0.012319	1	0		T	3215685	T	T	3215685	3	4	216	1	0	0	0	0	1	0	0	0	7473	1217	42	5	6973	5	HTT	4	3215685	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		3215685	187938591	29	107500											
STK32B	55351	broad.mit.edu	37	chr4	5170125	5170125	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	atgaggttcggaatgttttcCgggagctgcagatcatgcaa	10	11	13	7	2	1	2	1	1	0	1	3	4	2	4	1	3	3	5	1	3	2	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr4:5170125C>T	uc003gih.1	+	3	272	c.208C>T	c.(208-210)CGG>TGG	p.R70W	STK32B_uc010ida.1_Missense_Mutation_p.R23W	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	70	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						GAATGTTTTCCGGGAGCTGCA	0.537													5	34					0	0	0.000602	0	0		T	5170125	T	T	5170125	3	4	216	1	0	0	0	0	1	0	0	0	15323	643	23	1	218	1	STK32B	4	5170125	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	1954440	5170125	185984151	30	107501											
PCDH18	54510	broad.mit.edu	37	chr4	138452081	138452081	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	ttctccattcagcccagaatCcttgtcctgaactctgacca	9	12	5	15	0	3	3	1	2	2	1	6	3	5	3	5	0	2	0	5	0	2	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr4:138452081C>T	uc003ihe.3	-	1	1549	c.1162G>A	c.(1162-1164)GAT>AAT	p.D388N	PCDH18_uc003ihf.3_Missense_Mutation_p.D381N|PCDH18_uc011cgz.1_Intron|PCDH18_uc003ihg.3_Missense_Mutation_p.D168N|PCDH18_uc011cha.1_Intron	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	388	Cadherin 4.|Extracellular (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					AGCCCAGAATCCTTGTCCTGA	0.348													6	56					0	0	0.001984	0	0		T	138452081	T	T	138452081	3	4	216	1	0	0	0	0	1	0	0	0	11532	855	30	4	2261	4	PCDH18	4	138452081	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	133281956	138452081	52702195	31	107502											
DMXL1	1657	broad.mit.edu	37	chr5	118500266	118500266	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gaagaagaactgctgaacatGttgccagccatgcagaaaga	16	6	11	8	0	0	5	0	1	0	4	0	6	0	5	2	0	6	3	2	0	5	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:118500266G>A	uc003ksd.2	+	20	4948	c.4767G>A	c.(4765-4767)ATG>ATA	p.M1589I	DMXL1_uc010jcl.1_Missense_Mutation_p.M1589I	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1589										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		TGCTGAACATGTTGCCAGCCA	0.438													15	77					0	0	0.003163	0	0		A	118500266	A	A	118500266	3	1	216	1	0	0	0	0	1	0	0	0	4600	1377	48	4	4845	4	DMXL1	5	118500266	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		118500266	62414994	32	107503											
PCDHA2	56146	broad.mit.edu	37	chr5	140174841	140174841	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	accgggaggagctgtgcgggCggagcgcggaatgtagcatc	8	5	19	9	5	0	0	0	0	0	0	1	4	0	4	1	5	4	3	1	5	2	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:140174841C>T	uc003lhd.2	+	1	398	c.292C>T	c.(292-294)CGG>TGG	p.R98W	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.R98W|PCDHA2_uc011czy.1_Missense_Mutation_p.R98W	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	98	Extracellular (Potential).|Cadherin 1.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(4)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGTGCGGGCGGAGCGCGGA	0.572													35	159					0	0	0.004289	0	0		T	140174841	T	T	140174841	3	4	216	1	0	0	0	0	1	0	0	0	11543	759	27	1	294	1	PCDHA2	5	140174841	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	21674575	140174841	40740419	33	107504											
PCDHA4	56144	broad.mit.edu	37	chr5	140188818	140188818	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaaggcctcctcacgggcGttggtgggcgctgtgggtcc	4	8	16	13	3	1	0	1	0	0	0	3	0	3	0	4	5	0	2	4	5	1	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:140188818G>A	uc003lhi.2	+	1	2147	c.2046G>A	c.(2044-2046)GCG>GCA	p.A682A	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.A682A|PCDHA4_uc011daa.1_Silent_p.A682A	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	682	Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCACGGGCGTTGGTGGGCG	0.637													10	86					0	0	0.006214	0	0		A	140188818	A	A	140188818	2	1	216	1	0	0	0	0	0	0	0	1	11545	1132	40	1		1	PCDHA4	5	140188818	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	13977	140188818	40726442	34	107505											
PCDHB15	56121	broad.mit.edu	37	chr5	140626263	140626263	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctgtttaggattagagacCgagactctggggaaaatgga	12	9	13	7	1	1	2	0	0	1	2	1	7	1	5	2	4	0	1	2	4	4	3	rs139626656		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:140626263C>T	uc003lje.2	+	1	1117	c.1117C>T	c.(1117-1119)CGA>TGA	p.R373*		NM_018935	NP_061758	Q9Y5E8	PCDBF_HUMAN	protocadherin beta 15 precursor	373	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			ovary(2)|breast(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GATTAGAGACCGAGACTCTGG	0.413													12	70					0	0	0.010729	0	0		T	140626263	T	T	140626263	4	4	216	1	0	0	0	0	0	1	0	0	11559	644	23	1	1119	1	PCDHB15	5	140626263	Nonsense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	437445	140626263	40288997	35	107506											
SH3RF2	153769	broad.mit.edu	37	chr5	145439671	145439671	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tccactccgcggccagctccCtcattatggaagacaaagaa	12	7	8	14	2	1	2	1	0	0	2	4	3	4	3	4	2	1	1	4	2	4	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:145439671C>T	uc003lnt.2	+	9	2036	c.1798C>T	c.(1798-1800)CTC>TTC	p.L600F	SH3RF2_uc011dbl.1_Missense_Mutation_p.L600F|SH3RF2_uc011dbm.1_Missense_Mutation_p.L85F|SH3RF2_uc003lnu.2_Missense_Mutation_p.L91F|SH3RF2_uc011dbn.1_Missense_Mutation_p.L91F|SH3RF2_uc011dbo.1_Missense_Mutation_p.L57F	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	600							ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GGCCAGCTCCCTCATTATGGA	0.607													16	68					0	0	0.007413	0	0		T	145439671	T	T	145439671	3	4	216	1	0	0	0	0	1	0	0	0	14284	681	24	4	1828	4	SH3RF2	5	145439671	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	4813408	145439671	35475589	36	107507											
NDST1	3340	broad.mit.edu	37	chr5	149901309	149901309	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	actgtgtggcctacggcgtgGgcatcattggcttcttcaag	6	12	13	10	2	3	0	2	0	1	0	3	0	3	0	1	4	1	2	1	4	2	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:149901309G>A	uc003lsk.3	+	2	995	c.493G>A	c.(493-495)GGC>AGC	p.G165S	NDST1_uc011dcj.1_Missense_Mutation_p.G165S|NDST1_uc003lsl.2_Missense_Mutation_p.G165S	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan	165	Heparan sulfate N-deacetylase 1.|Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTACGGCGTGGGCATCATTGG	0.478													12	133					0	0	0.001855	0	0		A	149901309	A	A	149901309	3	1	216	1	0	0	0	0	1	0	0	0	10274	1232	43	4	495	4	NDST1	5	149901309	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	4461638	149901309	31013951	37	107508											
CYFIP2	26999	broad.mit.edu	37	chr5	156766134	156766134	+	Missense_Mutation	SNP	A	G	G	1	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	gtaagcatatgacgctggacAgcttcgatgccatgttccga	10	10	11	10	3	0	1	0	1	0	0	2	4	1	2	2	1	3	5	2	1	2	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:156766134A>G	uc003lwq.2	+	24	2593	c.2455A>G	c.(2455-2457)AGC>GGC	p.S819G	CYFIP2_uc011ddn.1_Missense_Mutation_p.S793G|CYFIP2_uc011ddo.1_Missense_Mutation_p.S623G|CYFIP2_uc003lwr.2_Missense_Mutation_p.S819G|CYFIP2_uc003lws.2_Missense_Mutation_p.S819G|CYFIP2_uc003lwt.2_Missense_Mutation_p.S722G|CYFIP2_uc011ddp.1_Missense_Mutation_p.S553G	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2	844					apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GACGCTGGACAGCTTCGATGC	0.552													5	33					0	0	0.001168	0	0		G	156766134	G	G	156766134	3	3	216	1	0	0	0	0	1	0	0	0	4141	188	7	3	2537	3	CYFIP2	5	156766134	Missense_Mutation	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08	6864825	156766134	24149126	38	107509											
EBF1	1879	broad.mit.edu	37	chr5	158250237	158250237	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtcaagcctccgagccctcCgcccatgcttggaattatta	8	10	9	14	2	1	0	1	0	0	0	3	2	3	1	5	2	3	1	5	2	4	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr5:158250237C>T	uc010jip.2	-	8	1027	c.725G>A	c.(724-726)CGG>CAG	p.R242Q	EBF1_uc011ddw.1_Missense_Mutation_p.R109Q|EBF1_uc011ddx.1_Missense_Mutation_p.R242Q|EBF1_uc003lxl.3_Missense_Mutation_p.R219Q	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	242					multicellular organismal development	nucleus	DNA binding|metal ion binding	p.R242Q(1)	HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCGAGCCCTCCGCCCATGCTT	0.488			T	HMGA2	lipoma								6	30					0	0	0.006214	0	0		T	158250237	T	T	158250237	3	4	216	1	0	0	0	0	1	0	0	0	4886	652	23	1	1086	1	EBF1	5	158250237	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	1484103	158250237	22665023	39	107510											
F13A1	2162	broad.mit.edu	37	chr6	6167728	6167728	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggatggttagcacggtggacTtttgcttggccagaacatcc	8	11	13	9	1	0	1	0	0	0	1	1	3	1	3	2	5	3	3	2	5	2	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr6:6167728T>G	uc003mwv.2	-	13	1994	c.1871A>C	c.(1870-1872)AAG>ACG	p.K624T	F13A1_uc011dib.1_Missense_Mutation_p.K561T	NM_000129	NP_000120	P00488	F13A_HUMAN	coagulation factor XIII A1 subunit precursor	624					peptide cross-linking|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|pancreas(1)|skin(1)	6	Ovarian(93;0.0816)	all_hematologic(90;0.152)			L-Glutamine(DB00130)	CACGGTGGACTTTTGCTTGGC	0.507													5	61					0	0	0.001168	0	0		G	6167728	G	G	6167728	3	3	216	1	0	0	0	0	1	0	0	0	5348	1609	56	5	339	5	F13A1	6	6167728	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08		6167728	164947339	40	107511											
SLC17A3	10786	broad.mit.edu	37	chr6	25850092	25850092	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacacaatgtgcttaatccGcaagagagcgtcagcaaggc	13	7	11	10	2	1	2	1	1	0	1	2	3	2	2	1	1	3	3	1	1	4	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr6:25850092G>A	uc003nfi.3	-	9	1088	c.978C>T	c.(976-978)TGC>TGT	p.C326C	SLC17A3_uc003nfk.3_Silent_p.C404C	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	326	Helical; (Potential).				glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						TGCTTAATCCGCAAGAGAGCG	0.433													35	81					0	0	0.003271	0	0		A	25850092	A	A	25850092	2	1	216	1	0	0	0	0	0	0	0	1	14443	1079	38	1		1	SLC17A3	6	25850092	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	19682364	25850092	145264975	41	107512											
OR10C1	442194	broad.mit.edu	37	chr6	29408592	29408592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctaaggccagctacgatcCggccactgaccctctggtgt	7	8	10	16	2	1	1	0	1	1	0	2	2	2	1	5	3	2	1	5	3	2	2	rs150247833	by1000genomes	TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr6:29408592C>T	uc011dlp.1	+	1	800	c.800C>T	c.(799-801)CCG>CTG	p.P267L	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGCTACGATCCGGCCACTGAC	0.567													33	275					0	0	0.003271	0	0		T	29408592	T	T	29408592	3	4	216	1	0	0	0	0	1	0	0	0	10917	652	23	1	802	1	OR10C1	6	29408592	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	3558500	29408592	141706475	42	107513											
TREML4	285852	broad.mit.edu	37	chr6	41196170	41196170	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	acagatctgggctggaatggCctggggtggggtccacacct	7	8	16	10	0	1	1	0	0	1	1	2	2	2	2	3	7	0	1	3	7	1	0			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr6:41196170C>A	uc003oqc.2	+	1	109	c.5C>A	c.(4-6)GCC>GAC	p.A2D	TREML4_uc003oqd.2_5'Flank	NM_198153	NP_937796	Q6UXN2	TRML4_HUMAN	triggering receptor expressed on myeloid	2						extracellular region				breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)					GCTGGAATGGCCTGGGGTGGG	0.602													6	20					0.00116845	0.00120307	0.001168	1	0		A	41196170	A	A	41196170	3	1	216	1	0	0	0	0	1	0	0	0	16500	739	26	5	7	5	TREML4	6	41196170	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	11787578	41196170	129918897	43	107514											
LAMA2	3908	broad.mit.edu	37	chr6	129722454	129722454	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catactcgatgaagccaaccGtcttgcagatgaaatcaact	14	9	7	11	2	2	3	1	2	1	1	3	4	2	3	2	0	5	1	2	0	5	2	rs150691000	byFrequency	TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr6:129722454G>A	uc003qbn.2	+	38	5636	c.5531G>A	c.(5530-5532)CGT>CAT	p.R1844H	LAMA2_uc003qbo.2_Missense_Mutation_p.R1844H	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1844	Domain II and I.|Potential.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		GAAGCCAACCGTCTTGCAGAT	0.403													24	68					0	0	0.00632	0	0		A	129722454	A	A	129722454	3	1	216	1	0	0	0	0	1	0	0	0	8622	1145	40	1	5681	1	LAMA2	6	129722454	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	88526284	129722454	41392613	44	107515											
SYNE1	23345	broad.mit.edu	37	chr6	152650951	152650951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	taaatccgcagaaatcagctCcttggcctttgtgaacttct	10	13	7	11	1	2	2	1	1	1	1	4	2	4	2	3	1	2	2	3	1	4	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr6:152650951C>T	uc010kiw.2	-	78	15471	c.14869G>A	c.(14869-14871)GAG>AAG	p.E4957K	SYNE1_uc003qot.3_Missense_Mutation_p.E4886K|SYNE1_uc003qou.3_Missense_Mutation_p.E4957K|SYNE1_uc010kiz.2_Missense_Mutation_p.E712K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	4957	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GAAATCAGCTCCTTGGCCTTT	0.478										HNSCC(10;0.0054)			14	220					0	0	0.00245	0	0		T	152650951	T	T	152650951	3	4	216	1	0	0	0	0	1	0	0	0	15470	864	30	4	11873	4	SYNE1	6	152650951	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	22928497	152650951	18464116	45	107516											
WBSCR17	64409	broad.mit.edu	37	chr7	70885982	70885982	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tcaaacaggacaactttgagGtgcagcggtacgagaactcg	13	7	12	9	3	1	2	1	1	0	1	2	4	1	3	0	3	6	2	0	3	4	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr7:70885982G>A	uc003tvy.2	+	5	853	c.853G>A	c.(853-855)GTG>ATG	p.V285M	WBSCR17_uc003tvz.2_Translation_Start_Site	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	285	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				CAACTTTGAGGTGCAGCGGTA	0.567													18	120					0	0	0.008871	0	0		A	70885982	A	A	70885982	3	1	216	1	0	0	0	0	1	0	0	0	17290	1261	44	4	871	4	WBSCR17	7	70885982	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		70885982	88252681	46	107517											
SEMA3C	10512	broad.mit.edu	37	chr7	80374379	80374379	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	gcatttctgagtggctgaatGcccccatgatgtccttcggg	6	12	12	11	1	1	3	0	3	1	0	3	3	2	3	3	2	1	2	3	2	1	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr7:80374379G>T	uc003uhj.2	-	18	2649	c.2087C>A	c.(2086-2088)GCA>GAA	p.A696E	SEMA3C_uc011kgw.1_Missense_Mutation_p.A714E	NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C precursor	696					immune response|response to drug	membrane	receptor activity			ovary(1)	1						GTGGCTGAATGCCCCCATGAT	0.502													43	71					3.4345e-17	3.75902e-17	0.011902	1	0		T	80374379	T	T	80374379	3	4	216	1	0	0	0	0	1	0	0	0	14051	1319	46	5	172	5	SEMA3C	7	80374379	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	9488397	80374379	78764284	47	107518											
CLCN1	1180	broad.mit.edu	37	chr7	143013337	143013337	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ccggtcacagcagcgtggggGtgaacaaagctggtggggta	9	6	18	8	2	1	1	1	1	0	0	1	1	1	1	1	6	4	3	1	6	3	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr7:143013337G>T	uc003wcr.1	+	1	119	c.32G>T	c.(31-33)GGT>GTT	p.G11V	CLCN1_uc011ktc.1_5'UTR	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	11	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					CAGCGTGGGGGTGAACAAAGC	0.627													15	76					0.000219431	0.000227619	0.00245	1	0		T	143013337	T	T	143013337	3	4	216	1	0	0	0	0	1	0	0	0	3465	1261	44	5	34	5	CLCN1	7	143013337	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	62638958	143013337	16125326	48	107519											
CRYGN	155051	broad.mit.edu	37	chr7	151133409	151133409	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tctaggcggaaatgttctccGtgctccaagaccaagcaaaa	13	8	9	11	2	2	1	0	0	2	1	4	2	3	2	3	2	2	3	3	2	6	2	rs146240466		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr7:151133409G>A	uc003wke.2	-	3	369	c.273C>T	c.(271-273)CAC>CAT	p.H91H	CRYGN_uc003wkf.2_Intron|CRYGN_uc003wkg.2_RNA|CRYGN_uc010lqd.1_RNA	NM_144727	NP_653328	Q8WXF5	CRGN_HUMAN	gammaN-crystallin	91											0			OV - Ovarian serous cystadenocarcinoma(82;0.00358)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		AATGTTCTCCGTGCTCCAAGA	0.547													7	45					0	0	0.004482	0	0		A	151133409	A	A	151133409	2	1	216	1	0	0	0	0	0	0	0	1	3921	1136	40	1		1	CRYGN	7	151133409	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	8120072	151133409	8005254	49	107520											
DLGAP2	9228	broad.mit.edu	37	chr8	1645408	1645408	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gacgtcagcatgaagttcgaCgagctgcagcggctgcggct	8	7	15	11	5	1	1	1	1	0	0	2	4	1	1	0	2	5	6	0	2	1	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr8:1645408C>T	uc003wpl.2	+	11	2749	c.2652C>T	c.(2650-2652)GAC>GAT	p.D884D	DLGAP2_uc003wpm.2_Silent_p.D870D	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	963					neuron-neuron synaptic transmission	cell junction|neurofilament|postsynaptic density|postsynaptic membrane	protein binding				0		Ovarian(12;0.0271)|Hepatocellular(245;0.0838)|Colorectal(14;0.0846)		BRCA - Breast invasive adenocarcinoma(11;0.000169)|READ - Rectum adenocarcinoma(644;0.171)		TGAAGTTCGACGAGCTGCAGC	0.632													9	88					0	0	0.006214	0	0		T	1645408	T	T	1645408	2	4	216	1	0	0	0	0	0	0	0	1	4566	535	19	1		1	DLGAP2	8	1645408	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08		1645408	144718614	50	107521											
DCAF4L2	138009	broad.mit.edu	37	chr8	88886059	88886059	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgcagcttacacgcagctcGcgagctatacggcaatagtt	11	9	10	11	4	0	0	0	0	0	0	1	1	0	0	0	1	6	7	0	1	5	5	rs142584363	byFrequency	TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr8:88886059G>A	uc003ydz.2	-	1	238	c.141C>T	c.(139-141)CGC>CGT	p.R47R		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	47										ovary(1)	1						CACGCAGCTCGCGAGCTATAC	0.498													9	84					0	0	0.004482	0	0		A	88886059	A	A	88886059	2	1	216	1	0	0	0	0	0	0	0	1	4275	1074	38	1		1	DCAF4L2	8	88886059	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	87240651	88886059	57477963	51	107522											
ZNF707	286075	broad.mit.edu	37	chr8	144776021	144776021	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aaggacagacgccaagcccaCggctttcccgtgtcaggtgc	9	6	12	14	3	1	1	1	0	0	1	2	2	2	2	3	3	2	1	3	3	2	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr8:144776021C>T	uc003yze.3	+	7	752	c.437C>T	c.(436-438)ACG>ATG	p.T146M	ZNF707_uc010mfh.2_Missense_Mutation_p.T146M|ZNF707_uc010mfi.2_Missense_Mutation_p.T146M|ZNF707_uc003yzf.3_Missense_Mutation_p.T146M|ZNF707_uc003yzh.3_Missense_Mutation_p.T73M|ZNF707_uc011lkq.1_RNA	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	146					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCCAAGCCCACGGCTTTCCCG	0.647													4	39					0	0	0.000602	0	0		T	144776021	T	T	144776021	3	4	216	1	0	0	0	0	1	0	0	0	18136	536	19	1	451	1	ZNF707	8	144776021	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	55889962	144776021	1588001	52	107523											
NPR2	4882	broad.mit.edu	37	chr9	35799621	35799621	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctggtacagactgtaTtggtgatcacgtaccgagaa	10	11	12	8	2	1	3	1	1	0	2	1	4	1	3	1	2	4	5	1	2	4	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr9:35799621T>C	uc003zyd.2	+	3	880	c.880T>C	c.(880-882)TTG>CTG	p.L294L	NPR2_uc010mlb.2_Silent_p.L294L	NM_003995	NP_003986	P20594	ANPRB_HUMAN	natriuretic peptide receptor B precursor	294	Extracellular (Potential).				intracellular signal transduction|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure	integral to membrane|plasma membrane	GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|protein kinase activity|transmembrane receptor activity			ovary(2)|stomach(1)	3	all_epithelial(49;0.161)		LUSC - Lung squamous cell carcinoma(32;0.00521)|Lung(28;0.00697)|STAD - Stomach adenocarcinoma(86;0.194)		Erythrityl Tetranitrate(DB01613)|Nesiritide(DB04899)	ACAGACTGTATTGGTGATCAC	0.483													12	160					0	0	0.003163	0	0		C	35799621	C	C	35799621	2	2	216	1	0	0	0	0	0	0	0	1	10614	1490	52	3		3	NPR2	9	35799621	Silent	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08		35799621	105413810	53	107524											
SEMA4D	10507	broad.mit.edu	37	chr9	92002361	92002361	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggcctgggtccggtccaccaCgatctgggtgtagttcacat	6	10	13	12	2	2	0	1	0	1	0	4	1	4	0	4	4	0	2	4	4	1	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr9:92002361C>T	uc004aqo.1	-	14	1842	c.1270G>A	c.(1270-1272)GTG>ATG	p.V424M	SEMA4D_uc011ltm.1_Missense_Mutation_p.V424M|SEMA4D_uc011ltn.1_RNA|SEMA4D_uc011lto.1_RNA|SEMA4D_uc004aqp.1_Missense_Mutation_p.V422M	NM_006378	NP_006369	Q92854	SEM4D_HUMAN	semaphorin 4D isoform 1	424	Sema.|Extracellular (Potential).				anti-apoptosis|axon guidance|cell adhesion|immune response	integral to membrane|plasma membrane	receptor activity|receptor binding			ovary(1)|pancreas(1)	2						CGGTCCACCACGATCTGGGTG	0.532													13	84					0	0	0.003163	0	0		T	92002361	T	T	92002361	3	4	216	1	0	0	0	0	1	0	0	0	14059	536	19	1	1908	1	SEMA4D	9	92002361	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	56202740	92002361	49211070	54	107525											
FRMD4A	55691	broad.mit.edu	37	chr10	13717017	13717017	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccagcatgtccttcttggccGactgcgagctatctgattcc	6	12	9	14	2	2	1	0	1	2	0	4	3	4	1	4	1	3	2	4	1	1	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr10:13717017G>A	uc001ims.2	-	16	1497	c.1145C>T	c.(1144-1146)TCG>TTG	p.S382L	FRMD4A_uc009xjf.1_Missense_Mutation_p.S382L|FRMD4A_uc001imt.1_Missense_Mutation_p.S415L	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A	382	Potential.					cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						CTTCTTGGCCGACTGCGAGCT	0.532													6	93					0	0	0.004482	0	0		A	13717017	A	A	13717017	3	1	216	1	0	0	0	0	1	0	0	0	6065	1059	37	1	2010	1	FRMD4A	10	13717017	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		13717017	121817730	55	107526											
NRP1	8829	broad.mit.edu	37	chr10	33496543	33496543	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccattctgagccccagtccGccatgagtggctctctcggg	5	10	11	15	2	2	2	0	2	2	0	6	2	4	2	5	2	1	1	5	2	0	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr10:33496543G>T	uc001iwx.3	-	10	2239	c.1716C>A	c.(1714-1716)GGC>GGA	p.G572G	NRP1_uc001iwv.3_Silent_p.G572G|NRP1_uc009xlz.2_Silent_p.G572G|NRP1_uc001iww.3_Silent_p.G391G|NRP1_uc001iwy.3_Silent_p.G572G|NRP1_uc001iwz.2_Silent_p.G572G|NRP1_uc001ixa.2_Silent_p.G572G|NRP1_uc001ixb.1_Silent_p.G572G	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	572	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	GCCCCAGTCCGCCATGAGTGG	0.493													20	163					2.37509e-13	2.55921e-13	0.010504	1	0		T	33496543	T	T	33496543	2	4	216	1	0	0	0	0	0	0	0	1	10679	1074	38	5		5	NRP1	10	33496543	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	19779526	33496543	102038204	56	107527											
C10orf137	26098	broad.mit.edu	37	chr10	127429072	127429072	+	Silent	SNP	A	C	C	1	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	aattattccagtcaatctggAatgatccctggctcttggca	10	13	8	10	0	3	1	1	1	2	0	5	2	5	2	2	3	0	2	2	3	4	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr10:127429072A>C	uc001liq.1	+	16	2315	c.2022A>C	c.(2020-2022)GGA>GGC	p.G674G	C10orf137_uc001lin.2_Silent_p.G640G|C10orf137_uc001lio.1_Silent_p.G640G|C10orf137_uc001lip.1_Silent_p.G378G|C10orf137_uc001lir.2_Silent_p.G168G|C10orf137_uc001lis.1_5'UTR	NM_015608	NP_056423	Q3B7T1	EDRF1_HUMAN	erythroid differentiation-related factor 1	674					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	binding			ovary(5)|large_intestine(3)|lung(2)	10		all_lung(145;0.0096)|Lung NSC(174;0.0145)|Colorectal(57;0.0846)|all_neural(114;0.0936)				GTCAATCTGGAATGATCCCTG	0.423													5	37					0	0	0.001168	0	0		C	127429072	C	C	127429072	2	2	216	1	0	0	0	0	0	0	0	1	1597	233	9	5		5	C10orf137	10	127429072	Silent	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08	93932529	127429072	8105675	57	107528											
DPYSL4	10570	broad.mit.edu	37	chr10	134006210	134006210	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gggggcatcaagaccattgaCgcccacggcctgatggtcct	8	7	13	13	2	1	3	1	2	0	1	2	3	2	3	4	4	0	1	4	4	1	1	rs142922640		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr10:134006210C>T	uc009ybb.2	+	3	331	c.177C>T	c.(175-177)GAC>GAT	p.D59D		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	59					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		AGACCATTGACGCCCACGGCC	0.582													7	97					0	0	0.004482	0	0		T	134006210	T	T	134006210	2	4	216	1	0	0	0	0	0	0	0	1	4755	535	19	1		1	DPYSL4	10	134006210	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	6577138	134006210	1528537	58	107529											
OR52H1	390067	broad.mit.edu	37	chr11	5566092	5566092	+	Missense_Mutation	SNP	A	G	G	1	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	gtgcgtaggaaacagcaatgAgaatcacatctgagatgacc	15	7	11	8	1	2	3	1	3	1	2	2	6	2	4	1	1	3	2	1	1	4	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:5566092A>G	uc010qzh.1	-	1	662	c.662T>C	c.(661-663)CTC>CCC	p.L221P	HBG2_uc001mak.1_Intron	NM_001005289	NP_001005289	Q8NGJ2	O52H1_HUMAN	olfactory receptor, family 52, subfamily H,	221	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;5.33e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AACAGCAATGAGAATCACATC	0.507													12	44					0	0	0.010729	0	0		G	5566092	G	G	5566092	3	3	216	1	0	0	0	0	1	0	0	0	11138	304	11	3	303	3	OR52H1	11	5566092	Missense_Mutation	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08		5566092	129440424	59	107530											
AHNAK	79026	broad.mit.edu	37	chr11	62290003	62290003	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccaccttgggtcctgagacGtcaaggtcagccttgggcag	7	9	13	12	1	2	1	2	1	0	1	4	2	4	1	4	3	1	1	4	3	1	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:62290003G>A	uc001ntl.2	-	5	12186	c.11886C>T	c.(11884-11886)GAC>GAT	p.D3962D	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3962					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				GTCCTGAGACGTCAAGGTCAG	0.483													52	348					0	0	0.01441	0	0		A	62290003	A	A	62290003	2	1	216	1	0	0	0	0	0	0	0	1	414	1136	40	1		1	AHNAK	11	62290003	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	56723911	62290003	72716513	60	107531											
SLC29A2	3177	broad.mit.edu	37	chr11	66133938	66133938	+	Silent	SNP	C	T	T	0	0	0	1	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	aagactgaaggttttcctggCttctggggctcatctggctc	6	13	12	10	0	3	2	1	1	2	1	5	2	4	2	1	5	0	4	1	5	2	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:66133938C>T	uc001oht.2	-	8	1060	c.831G>A	c.(829-831)AAG>AAA	p.K277K	SLC29A2_uc001ohs.2_Silent_p.K157K|SLC29A2_uc010rpb.1_RNA|SLC29A2_uc009yrf.2_Silent_p.K157K|SLC29A2_uc001ohu.2_Silent_p.K277K|SLC29A2_uc001ohv.2_Intron|uc001ohw.1_5'Flank	NM_001532	NP_001523	Q14542	S29A2_HUMAN	solute carrier family 29 (nucleoside	277					cell proliferation|nucleobase, nucleoside and nucleotide metabolic process	basolateral plasma membrane|integral to plasma membrane|nuclear membrane|nucleolus	nucleoside transmembrane transporter activity			ovary(1)	1						GTTTTCCTGGCTTCTGGGGCT	0.512													7	45					0	0	0.001984	0	0		T	66133938	T	T	66133938	2	4	216	1	0	0	0	0	0	0	0	1	14560	796	28	2		2	SLC29A2	11	66133938	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	3843935	66133938	68872578	61	107532											
CTSC	1075	broad.mit.edu	37	chr11	88027276	88027276	+	Silent	SNP	G	A	A	0	0	1	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	ccattctcaccccagccggtGccccagctgtttttaacaat	8	11	6	16	1	1	0	1	0	1	0	2	0	1	0	6	1	4	2	6	1	2	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:88027276G>A	uc001pck.3	-	7	1391	c.1290C>T	c.(1288-1290)GGC>GGT	p.G430G	CTSC_uc001pcl.3_Silent_p.G282G	NM_001814	NP_001805	P53634	CATC_HUMAN	cathepsin C isoform a preproprotein	430					immune response	lysosome	cysteine-type endopeptidase activity				0		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				CCCAGCCGGTGCCCCAGCTGT	0.507													7	74					0	0	0.001984	0	0		A	88027276	A	A	88027276	2	1	216	1	0	0	0	0	0	0	0	1	4034	1306	46	2		2	CTSC	11	88027276	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	21893338	88027276	46979240	62	107533											
MTNR1B	4544	broad.mit.edu	37	chr11	92714934	92714934	+	Missense_Mutation	SNP	A	C	C	1	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	cttctttgtggggtccctggAgtacgacccacgcatctatt	6	13	10	12	2	2	0	0	0	2	0	3	2	3	1	2	3	1	2	2	3	2	5			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:92714934A>C	uc001pdk.1	+	2	648	c.545A>C	c.(544-546)GAG>GCG	p.E182A		NM_005959	NP_005950	P49286	MTR1B_HUMAN	melatonin receptor 1B	182	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|glucose homeostasis|regulation of insulin secretion|synaptic transmission	integral to plasma membrane	melatonin receptor activity			ovary(1)|central_nervous_system(1)	2		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)			Ramelteon(DB00980)	GGGTCCCTGGAGTACGACCCA	0.612													7	45					0	0	0.00308	0	0		C	92714934	C	C	92714934	3	2	216	1	0	0	0	0	1	0	0	0	9970	304	11	5	551	5	MTNR1B	11	92714934	Missense_Mutation	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08	4687658	92714934	42291582	63	107534											
ANGPTL5	253935	broad.mit.edu	37	chr11	101762246	101762246	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	attgaccaggcatgcagggcGacacccatcattatcaacat	13	8	8	12	1	2	1	2	1	0	0	2	2	2	1	2	2	2	2	2	2	2	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:101762246G>C	uc001pgl.2	-	9	1527	c.931C>G	c.(931-933)CGC>GGC	p.R311G		NM_178127	NP_835228	Q86XS5	ANGL5_HUMAN	angiopoietin-like 5 precursor	311	Fibrinogen C-terminal.				signal transduction	extracellular space	receptor binding			ovary(1)	1		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.043)		BRCA - Breast invasive adenocarcinoma(274;0.0328)		CATGCAGGGCGACACCCATCA	0.438													10	63					0	0	0.008291	0	0		C	101762246	C	C	101762246	3	2	216	1	0	0	0	0	1	0	0	0	617	1058	37	5	239	5	ANGPTL5	11	101762246	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	9047312	101762246	33244270	64	107535											
APOA1	335	broad.mit.edu	37	chr11	116706562	116706562	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttagtgtactcctcgagagCgctcaggaagctgaccttga	9	10	11	11	2	1	3	1	2	0	1	3	5	2	4	2	1	3	3	2	1	3	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:116706562C>A	uc001ppu.1	-	4	845	c.766G>T	c.(766-768)GCT>TCT	p.A256S	APOA1_uc001ppv.1_Missense_Mutation_p.A256S	NM_000039	NP_000030	P02647	APOA1_HUMAN	apolipoprotein A-I preproprotein	256	10.|10 X approximate tandem repeats.				Cdc42 protein signal transduction|cholesterol efflux|cholesterol homeostasis|cholesterol import|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|negative regulation of cytokine secretion involved in immune response|negative regulation of interleukin-1 beta secretion|negative regulation of very-low-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|phospholipid efflux|platelet activation|platelet degranulation|positive regulation of cholesterol esterification|positive regulation of hydrolase activity|protein stabilization|reverse cholesterol transport	endocytic vesicle|endoplasmic reticulum lumen|plasma membrane|spherical high-density lipoprotein particle|stored secretory granule|very-low-density lipoprotein particle	apolipoprotein A-I receptor binding|beta-amyloid binding|cholesterol binding|cholesterol transporter activity|enzyme binding|high-density lipoprotein particle receptor binding|identical protein binding|phosphatidylcholine-sterol O-acyltransferase activator activity|phospholipid binding				0	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)		TCCTCGAGAGCGCTCAGGAAG	0.632													24	111					5.61819e-17	6.101e-17	0.005443	1	0		A	116706562	A	A	116706562	3	1	216	1	0	0	0	0	1	0	0	0	780	768	27	5	41	5	APOA1	11	116706562	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	14944316	116706562	18299954	65	107536											
ARCN1	372	broad.mit.edu	37	chr11	118452182	118452182	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atcactaccaaaaacagcaaCattttagaagatttggagac	18	9	6	8	0	1	3	1	0	0	3	1	4	1	3	1	1	4	1	1	1	6	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr11:118452182C>T	uc001ptq.2	+	2	386	c.225C>T	c.(223-225)AAC>AAT	p.N75N	ARCN1_uc009zah.2_Intron|ARCN1_uc010ryg.1_Intron|ARCN1_uc009zag.2_Silent_p.N116N	NM_001655	NP_001646	P48444	COPD_HUMAN	archain isoform 1	75					COPI coating of Golgi vesicle|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	clathrin adaptor complex|COPI vesicle coat|cytosol					0	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)		AAAACAGCAACATTTTAGAAG	0.368													29	91					0	0	0.007291	0	0		T	118452182	T	T	118452182	2	4	216	1	0	0	0	0	0	0	0	1	842	477	17	4		4	ARCN1	11	118452182	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	1745620	118452182	16554334	66	107537											
ADIPOR2	79602	broad.mit.edu	37	chr12	1882101	1882101	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	tacaagcccatcatgctatgGaaaaaatggaagaatttgtt	16	11	8	6	0	1	1	1	0	0	1	1	3	1	3	1	2	3	2	1	2	8	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr12:1882101G>A	uc001qjm.2	+	3	462	c.265G>A	c.(265-267)GAA>AAA	p.E89K	ADIPOR2_uc001qjn.2_Missense_Mutation_p.E89K	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	89	Cytoplasmic (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			TCATGCTATGGAAAAAATGGA	0.413													10	44					0	0	0.008291	0	0		A	1882101	A	A	1882101	3	1	216	1	0	0	0	0	1	0	0	0	319	1175	41	4	271	4	ADIPOR2	12	1882101	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		1882101	131969794	67	107538											
PTPRR	5801	broad.mit.edu	37	chr12	71158529	71158529	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aagatccgaagcaaggttatGttcagcttgtttacatccat	12	13	8	8	1	1	1	1	0	0	1	3	2	3	1	2	1	3	5	2	1	5	5			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr12:71158529G>A	uc001swi.1	-	3	803	c.387C>T	c.(385-387)AAC>AAT	p.N129N	PTPRR_uc010stq.1_Silent_p.N17N	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	129	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		GCAAGGTTATGTTCAGCTTGT	0.378													7	77					0	0	0.00308	0	0		A	71158529	A	A	71158529	2	1	216	1	0	0	0	0	0	0	0	1	12835	1368	48	4		4	PTPRR	12	71158529	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	69276428	71158529	62693366	68	107539											
NAV3	89795	broad.mit.edu	37	chr12	78400648	78400648	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atagcagtcccaaagtgtcaCctaagttggcccctccaaaa	13	8	7	13	0	1	0	1	0	0	0	3	0	3	0	5	1	1	2	5	1	5	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr12:78400648C>T	uc001syp.2	+	8	1503	c.1330C>T	c.(1330-1332)CCT>TCT	p.P444S	NAV3_uc001syo.2_Missense_Mutation_p.P444S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	444						nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						CAAAGTGTCACCTAAGTTGGC	0.408										HNSCC(70;0.22)			12	75					0	0	0.00245	0	0		T	78400648	T	T	78400648	3	4	216	1	0	0	0	0	1	0	0	0	10203	507	18	4	1360	4	NAV3	12	78400648	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	7242119	78400648	55451247	69	107540											
DAO	1610	broad.mit.edu	37	chr12	109293196	109293196	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aactggcttccggccagtacGcccccagattcggctagaaa	10	7	10	14	3	0	2	0	0	0	2	2	2	1	2	4	3	2	3	4	3	4	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr12:109293196G>A	uc001tnr.3	+	10	1010	c.857G>A	c.(856-858)CGC>CAC	p.R286H	DAO_uc001tnq.3_Missense_Mutation_p.R220H|DAO_uc009zvb.2_RNA|DAO_uc001tns.3_RNA	NM_001917	NP_001908	P14920	OXDA_HUMAN	D-amino-acid oxidase	286					glyoxylate metabolic process	peroxisomal matrix	binding|D-amino-acid oxidase activity			ovary(1)|skin(1)	2						CGGCCAGTACGCCCCCAGATT	0.468													5	24					0	0	0.001984	0	0		A	109293196	A	A	109293196	3	1	216	1	0	0	0	0	1	0	0	0	4234	1087	38	1	891	1	DAO	12	109293196	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	30892548	109293196	24558699	70	107541											
TPTE2	93492	broad.mit.edu	37	chr13	20038658	20038658	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaatgacatagcaataatacGttctgaaagtcaaaatcatc	19	10	5	7	1	3	2	2	2	1	0	4	2	3	2	0	0	2	2	0	0	8	4	rs148045725		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr13:20038658G>A	uc001umd.2	-	11	890	c.679C>T	c.(679-681)CGT>TGT	p.R227C	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.R116C|TPTE2_uc001ume.2_Missense_Mutation_p.R150C|TPTE2_uc009zzm.2_Translation_Start_Site|TPTE2_uc010tcm.1_RNA	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	227	Phosphatase tensin-type.					endoplasmic reticulum membrane|integral to membrane	ion channel activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(29;1.23e-20)|all_lung(29;1.97e-20)|all_epithelial(30;5.86e-20)|Lung NSC(5;3.36e-17)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;1.73e-05)|Epithelial(112;7.42e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.000785)|Lung(94;0.0176)|LUSC - Lung squamous cell carcinoma(192;0.089)		GCAATAATACGTTCTGAAAGT	0.299													6	91					0	0	0.001168	0	0		A	20038658	A	A	20038658	3	1	216	1	0	0	0	0	1	0	0	0	16457	1145	40	1	933	1	TPTE2	13	20038658	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		20038658	95131220	71	107542											
PDS5B	23047	broad.mit.edu	37	chr13	33261280	33261280	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgtttttaagtggagagtaCgcaaagaagccatgatggga	13	11	13	4	1	0	3	0	1	0	2	0	5	0	4	1	2	2	3	1	2	4	5			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr13:33261280C>T	uc010abf.2	+	12	1371	c.1213C>T	c.(1213-1215)CGC>TGC	p.R405C	PDS5B_uc001uuo.2_Missense_Mutation_p.R405C|PDS5B_uc010abg.2_RNA|PDS5B_uc010teb.1_Missense_Mutation_p.R107C	NM_015032	NP_055847	Q9NTI5	PDS5B_HUMAN	PDS5, regulator of cohesion maintenance, homolog	405	HEAT.				cell division|cell proliferation|mitotic sister chromatid cohesion|negative regulation of cell proliferation	chromatin|nucleus	ATP binding|DNA binding|identical protein binding			ovary(2)|lung(1)|pancreas(1)	4		Lung SC(185;0.0367)		all cancers(112;5.55e-06)|Epithelial(112;2.7e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00303)|BRCA - Breast invasive adenocarcinoma(63;0.0204)		GTGGAGAGTACGCAAAGAAGC	0.333													19	175					0	0	0.008871	0	0		T	33261280	T	T	33261280	3	4	216	1	0	0	0	0	1	0	0	0	11711	536	19	1	1255	1	PDS5B	13	33261280	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	13222622	33261280	81908598	72	107543											
NBEA	26960	broad.mit.edu	37	chr13	36167537	36167537	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagatcgaaccttctcatccGttgcaaggtcttggagaact	10	11	9	11	2	2	2	1	0	2	2	5	4	3	2	2	2	3	2	2	2	3	3	rs116439886	by1000genomes	TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr13:36167537G>A	uc001uvb.2	+	47	7455	c.7249G>A	c.(7249-7251)GTT>ATT	p.V2417I	NBEA_uc010abi.2_Missense_Mutation_p.V1073I|NBEA_uc010tee.1_Missense_Mutation_p.V210I|NBEA_uc010tef.1_Missense_Mutation_p.V210I|NBEA_uc010teg.1_Missense_Mutation_p.V210I|NBEA_uc001uvd.2_5'UTR	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2417	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		CTTCTCATCCGTTGCAAGGTC	0.338													18	67					0	0	0.012319	0	0		A	36167537	A	A	36167537	3	1	216	1	0	0	0	0	1	0	0	0	10205	1145	40	1	7435	1	NBEA	13	36167537	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	2906257	36167537	79002341	73	107544											
DCLK1	9201	broad.mit.edu	37	chr13	36402445	36402445	+	Splice_Site	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catactctctagcagtcgatCtgcgaagagaaagttcatgt	12	11	9	9	2	3	1	1	0	2	1	5	4	3	1	0	0	3	2	0	0	4	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr13:36402445C>T	uc001uvf.2	-	9	1463	c.1230_splice	c.e9-1	p.R410_splice	DCLK1_uc001uve.3_Splice_Site_p.R103_splice|DCLK1_uc010teh.1_Splice_Site_p.R103_splice|DCLK1_uc010abk.2_Intron	NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1						cell differentiation|central nervous system development|endosome transport|intracellular signal transduction|response to virus	integral to plasma membrane	ATP binding|protein serine/threonine kinase activity|receptor signaling protein activity			stomach(6)|ovary(2)|skin(1)	9		Breast(139;0.0147)|Lung SC(185;0.0685)|Prostate(109;0.122)	KIRC - Kidney renal clear cell carcinoma(5;0.119)|Kidney(79;0.169)	all cancers(112;1.72e-06)|Epithelial(112;4.24e-05)|BRCA - Breast invasive adenocarcinoma(63;0.00159)|OV - Ovarian serous cystadenocarcinoma(117;0.0158)|GBM - Glioblastoma multiforme(144;0.0638)		AGCAGTCGATCTGCGAAGAGA	0.323													5	18					0	0	0.000602	0	0		T	36402445	T	T	36402445	5	4	216	1	0	0	0	0	0	0	1	0	4294	927	32	4	1000	4	DCLK1	13	36402445	Splice_Site	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	234908	36402445	78767433	74	107545											
FRMD6	122786	broad.mit.edu	37	chr14	52174910	52174910	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatatatcaaagaggctgtcCgactggatgacgtcgctgtt	11	11	11	8	3	1	2	1	1	0	1	3	4	2	3	1	2	0	3	1	2	4	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr14:52174910C>T	uc001wzd.2	+	7	958	c.673C>T	c.(673-675)CGA>TGA	p.R225*	FRMD6_uc001wzb.2_Nonsense_Mutation_p.R217*|FRMD6_uc001wzc.2_Nonsense_Mutation_p.R217*|FRMD6_uc001wze.2_Nonsense_Mutation_p.R148*	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	225	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					AGAGGCTGTCCGACTGGATGA	0.408													5	46					0	0	0.001984	0	0		T	52174910	T	T	52174910	4	4	216	1	0	0	0	0	0	1	0	0	6068	644	23	1	671	1	FRMD6	14	52174910	Nonsense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08		52174910	55174630	75	107546											
RPAP1	26015	broad.mit.edu	37	chr15	41813089	41813089	+	Missense_Mutation	SNP	T	A	A	0	1	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	tggcaggaagggccagtcggTgggcagcagcggctccgtag	7	5	19	10	3	0	0	0	0	0	0	2	1	1	1	2	6	2	5	2	6	2	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr15:41813089T>A	uc001zod.2	-	22	3419	c.3295A>T	c.(3295-3297)ACC>TCC	p.T1099S	RPAP1_uc001zoc.2_Missense_Mutation_p.T118S	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	1099	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GGCCAGTCGGTGGGCAGCAGC	0.667													6	76					0	0	0.001168	0	0		A	41813089	A	A	41813089	3	1	216	1	0	0	0	0	1	0	0	0	13566	1696	59	5	902	5	RPAP1	15	41813089	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08		41813089	60718303	76	107547											
CACNA1H	8912	broad.mit.edu	37	chr16	1259298	1259298	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcggccggccgccctcccGcctaccaagtgccgcgatcg	4	5	12	20	7	0	0	0	0	0	0	2	1	1	0	7	2	3	0	7	2	2	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr16:1259298G>A	uc002cks.2	+	17	3878	c.3630G>A	c.(3628-3630)CCG>CCA	p.P1210P	CACNA1H_uc002ckt.2_Silent_p.P1210P|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1210	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CCGCCCTCCCGCCTACCAAGT	0.746													5	10					0	0	0.001168	0	0		A	1259298	A	A	1259298	2	1	216	1	0	0	0	0	0	0	0	1	2548	1074	38	1		1	CACNA1H	16	1259298	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		1259298	89095455	77	107548											
ABCA3	21	broad.mit.edu	37	chr16	2331217	2331217	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaggggcacccgctgctcGtacacctgcaggcacccaac	9	4	12	16	2	0	0	0	0	0	0	1	1	0	1	3	4	4	6	3	4	2	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr16:2331217G>A	uc002cpy.1	-	28	4882	c.4170C>T	c.(4168-4170)TAC>TAT	p.Y1390Y	ABCA3_uc010bsk.1_Silent_p.Y1332Y	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	1390	ABC transporter 2.				response to drug	integral to membrane|lamellar body|membrane fraction|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			breast(5)|ovary(5)|central_nervous_system(3)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	16		Ovarian(90;0.17)				CCCGCTGCTCGTACACCTGCA	0.642													9	55					0	0	0.006214	0	0		A	2331217	A	A	2331217	2	1	216	1	0	0	0	0	0	0	0	1	33	1140	40	1		1	ABCA3	16	2331217	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	1071919	2331217	88023536	78	107549											
MYH11	4629	broad.mit.edu	37	chr16	15931818	15931818	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgtgtagcacggaggcttCgttgaggcacgtcagctccg	6	10	15	10	4	1	1	1	1	0	0	3	2	2	2	1	3	2	7	1	3	1	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr16:15931818C>T	uc002ddy.2	-	2	399	c.292G>A	c.(292-294)GAA>AAA	p.E98K	MYH11_uc002ddv.2_Missense_Mutation_p.E98K|MYH11_uc002ddw.2_Missense_Mutation_p.E98K|MYH11_uc002ddx.2_Missense_Mutation_p.E98K|MYH11_uc010bvg.2_5'UTR|MYH11_uc002deb.3_Missense_Mutation_p.E98K	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	98	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(6)|skin(3)|lung(2)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)	15						ACGGAGGCTTCGTTGAGGCAC	0.532			T	CBFB	AML								23	97					0	0	0.014323	0	0		T	15931818	T	T	15931818	3	4	216	1	0	0	0	0	1	0	0	0	10049	893	31	1	5846	1	MYH11	16	15931818	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	13600601	15931818	74422935	79	107550											
PPP4C	5531	broad.mit.edu	37	chr16	30096288	30096288	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cagccatcttggagctggacGagcatctccagaaagatttc	11	9	10	11	1	2	2	0	0	2	2	4	5	2	4	2	2	3	2	2	2	1	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr16:30096288G>A	uc002dwe.2	+	9	973	c.829G>A	c.(829-831)GAG>AAG	p.E277K	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Missense_Mutation_p.E277K|PPP4C_uc002dwg.2_RNA|PPP4C_uc002dwh.2_Missense_Mutation_p.E198K	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	277				E->K: Abolishes interaction with PPP4R4; no effect on interaction with PPP4R1 and PPP4R2.	microtubule cytoskeleton organization|regulation of double-strand break repair via homologous recombination	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1						GGAGCTGGACGAGCATCTCCA	0.632													11	109					0	0	0.008291	0	0		A	30096288	A	A	30096288	3	1	216	1	0	0	0	0	1	0	0	0	12424	1059	37	1	859	1	PPP4C	16	30096288	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	14164470	30096288	60258465	80	107551											
NOB1	28987	broad.mit.edu	37	chr16	69782198	69782198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaatcagcatgccgttcaccGccagcacgtgcagccccatc	9	6	9	17	3	2	0	2	0	0	0	3	1	2	0	5	0	5	4	5	0	1	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr16:69782198G>A	uc002exs.2	-	7	777	c.761C>T	c.(760-762)GCG>GTG	p.A254V		NM_014062	NP_054781	Q9ULX3	NOB1_HUMAN	nin one binding protein	254						nucleus	metal ion binding|protein binding				0						GCCGTTCACCGCCAGCACGTG	0.488													9	41					0	0	0.006214	0	0		A	69782198	A	A	69782198	3	1	216	1	0	0	0	0	1	0	0	0	10530	1087	38	1	489	1	NOB1	16	69782198	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	39685910	69782198	20572555	81	107552											
MYH2	4620	broad.mit.edu	37	chr17	10424716	10424716	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagctcatgctggagcttgcGgaatttagctagattggtgt	8	13	13	7	1	1	1	1	0	0	1	1	3	1	3	0	3	5	4	0	3	3	5			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr17:10424716G>A	uc010coi.2	-	40	5835	c.5707C>T	c.(5707-5709)CGC>TGC	p.R1903C	uc002gml.1_Intron|MYH1_uc002gmo.2_5'Flank|MYH2_uc002gmp.3_Missense_Mutation_p.R1903C|MYH2_uc010coj.2_Missense_Mutation_p.R670C	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1903	Potential.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						TGGAGCTTGCGGAATTTAGCT	0.473													15	106					0	0	0.00499	0	0		A	10424716	A	A	10424716	3	1	216	1	0	0	0	0	1	0	0	0	10053	1116	39	1	122	1	MYH2	17	10424716	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		10424716	70770494	82	107553											
GPR179	440435	broad.mit.edu	37	chr17	36486359	36486359	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tctactgcaacagagagggcCctccagagcctggctcgagc	9	6	12	14	1	1	2	0	0	1	2	3	4	2	2	3	2	5	2	3	2	2	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr17:36486359C>T	uc002hpz.2	-	11	3114	c.3093G>A	c.(3091-3093)AGG>AGA	p.R1031R		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1031	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				CAGAGAGGGCCCTCCAGAGCC	0.597													22	58					0	0	0.00333	0	0		T	36486359	T	T	36486359	2	4	216	1	0	0	0	0	0	0	0	1	6689	622	22	4		4	GPR179	17	36486359	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	26061643	36486359	44708851	83	107554											
C1QL1	10882	broad.mit.edu	37	chr17	43044868	43044868	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atactggtgccgtcgccgccGcgcatgaggacatggtaggt	7	8	15	11	5	0	1	0	1	0	0	1	2	0	2	3	4	2	2	3	4	2	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr17:43044868G>A	uc002ihv.2	-	1	777	c.549C>T	c.(547-549)CGC>CGT	p.R183R		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	183	C1q.				locomotory behavior	collagen					0		Prostate(33;0.155)				CGTCGCCGCCGCGCATGAGGA	0.642													13	61					0	0	0.001855	0	0		A	43044868	A	A	43044868	2	1	216	1	0	0	0	0	0	0	0	1	1961	1074	38	1		1	C1QL1	17	43044868	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	6558509	43044868	38150342	84	107555											
RSAD1	55316	broad.mit.edu	37	chr17	48559708	48559708	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgcccaggtgcagcggggtgCccttccagcccctgacccgg	4	5	14	18	3	0	1	0	1	0	0	1	1	1	1	6	4	4	1	6	4	0	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr17:48559708C>G	uc002iqw.1	+	4	787	c.731C>G	c.(730-732)GCC>GGC	p.A244G	RSAD1_uc010wmq.1_RNA	NM_018346	NP_060816	Q9HA92	RSAD1_HUMAN	radical S-adenosyl methionine domain containing	244					porphyrin biosynthetic process	mitochondrion	4 iron, 4 sulfur cluster binding|coproporphyrinogen oxidase activity|metal ion binding				0	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			CAGCGGGGTGCCCTTCCAGCC	0.647											OREG0024567	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	33	83					0	0	0.004878	0	0		G	48559708	G	G	48559708	3	3	216	1	0	0	0	0	1	0	0	0	13719	739	26	5	745	5	RSAD1	17	48559708	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	5514840	48559708	32635502	85	107556											
ALPK2	115701	broad.mit.edu	37	chr18	56246059	56246059	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gtcttacctgaggaggatcaCtccagtctggaacctggctt	8	11	11	11	0	3	1	1	1	2	0	4	4	4	4	3	4	2	1	3	4	2	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr18:56246059C>A	uc002lhj.3	-	4	2163	c.1949G>T	c.(1948-1950)AGT>ATT	p.S650I		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	650							ATP binding|protein serine/threonine kinase activity	p.A650A(1)		ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AGGAGGATCACTCCAGTCTGG	0.328													10	123					7.48243e-07	7.87922e-07	0.006214	1	0		A	56246059	A	A	56246059	3	1	216	1	0	0	0	0	1	0	0	0	545	565	20	5	4603	5	ALPK2	18	56246059	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08		56246059	21831189	86	107557											
C19orf35	374872	broad.mit.edu	37	chr19	2280863	2280863	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcttaccaaggttgctatacGtgggctgagtcgaccaggtg	8	10	14	9	2	0	1	0	1	0	0	1	2	0	1	2	3	3	4	2	3	4	4	rs141253643		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:2280863G>A	uc002lvn.2	-	2	168	c.68C>T	c.(67-69)ACG>ATG	p.T23M	SPPL2B_uc010dsw.1_Intron	NM_198532	NP_940934	Q6ZS72	CS035_HUMAN	hypothetical protein LOC374872	23										pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GTTGCTATACGTGGGCTGAGT	0.507													6	23					0	0	0.00308	0	0		A	2280863	A	A	2280863	3	1	216	1	0	0	0	0	1	0	0	0	1923	1145	40	1	1365	1	C19orf35	19	2280863	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08		2280863	56848120	87	107558											
MUC16	94025	broad.mit.edu	37	chr19	9090314	9090314	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaggatgtcagagctccCgtgggcagctgtgctggaac	7	8	14	12	1	2	1	2	0	0	1	3	3	3	3	2	3	4	4	2	3	1	0			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:9090314C>T	uc002mkp.2	-	1	1705	c.1501G>A	c.(1501-1503)GGG>AGG	p.G501R		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	501	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TCAGAGCTCCCGTGGGCAGCT	0.547													9	64					0	0	0.004482	0	0		T	9090314	T	T	9090314	3	4	216	1	0	0	0	0	1	0	0	0	9991	652	23	1	42358	1	MUC16	19	9090314	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	6809451	9090314	50038669	88	107559											
ZNF506	440515	broad.mit.edu	37	chr19	19905748	19905748	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttaaaagctttgccacattcCtcacatttgtagggtttctc	9	16	6	10	0	2	0	1	0	1	0	4	0	3	0	2	1	2	3	2	1	3	6			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:19905748C>A	uc010eci.2	-	4	1096	c.948G>T	c.(946-948)GAG>GAT	p.E316D	ZNF506_uc002nog.2_Intron|ZNF506_uc002noh.3_Missense_Mutation_p.E284D	NM_001099269	NP_001092739	Q5JVG8	ZN506_HUMAN	zinc finger protein 506 isoform 1	316	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|zinc ion binding				0						TGCCACATTCCTCACATTTGT	0.378													6	50					3.59834e-05	3.76067e-05	0.001168	1	0		A	19905748	A	A	19905748	3	1	216	1	0	0	0	0	1	0	0	0	17977	680	24	5	390	5	ZNF506	19	19905748	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	10815434	19905748	39223235	89	107560											
ZNF43	7594	broad.mit.edu	37	chr19	21991525	21991525	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttatgtttagtaagggttgaGggccagttaaaggctttgcc	9	14	13	5	0	0	1	0	1	0	0	0	1	0	1	2	3	1	5	2	3	5	7			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:21991525G>A	uc002nqj.2	-	4	1444	c.1314C>T	c.(1312-1314)CCC>CCT	p.P438P	ZNF43_uc010ecv.2_Silent_p.P432P|ZNF43_uc002nql.2_Silent_p.P432P|ZNF43_uc002nqm.2_Silent_p.P432P|ZNF43_uc002nqk.2_Silent_p.P368P	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	438	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)		TAAGGGTTGAGGGCCAGTTAA	0.393													5	44					0	0	0.001168	0	0		A	21991525	A	A	21991525	2	1	216	1	0	0	0	0	0	0	0	1	17928	987	35	4		4	ZNF43	19	21991525	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	2085777	21991525	37137458	90	107561											
C19orf2	8725	broad.mit.edu	37	chr19	30505944	30505944	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggaaagagggtttcaaagTttaaagctgccagattgcaa	14	10	11	6	0	1	2	1	0	0	2	1	3	1	3	1	2	3	4	1	2	5	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:30505944T>C	uc002nsr.2	+	11	1606	c.1576T>C	c.(1576-1578)TTT>CTT	p.F526L	C19orf2_uc002nsq.2_Intron|C19orf2_uc002nss.2_Missense_Mutation_p.F486L|C19orf2_uc002nst.2_Missense_Mutation_p.F450L	NM_003796	NP_003787	O94763	RMP_HUMAN	RPB5-mediating protein isoform a	526					protein folding|regulation of transcription from RNA polymerase II promoter|response to virus	DNA-directed RNA polymerase II, core complex|prefoldin complex	transcription corepressor activity|unfolded protein binding			ovary(1)|kidney(1)	2	Ovarian(5;0.000902)|Breast(6;0.0203)|Esophageal squamous(110;0.195)	Hepatocellular(1079;0.137)|Renal(1328;0.228)	STAD - Stomach adenocarcinoma(5;5.36e-06)|Lung(7;0.0144)|LUAD - Lung adenocarcinoma(5;0.115)	STAD - Stomach adenocarcinoma(1328;0.18)		GGTTTCAAAGTTTAAAGCTGC	0.433													16	95					0	0	0.007413	0	0		C	30505944	C	C	30505944	3	2	216	1	0	0	0	0	1	0	0	0	1914	1725	60	3	1618	3	C19orf2	19	30505944	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08	8514419	30505944	28623039	91	107562											
ZNF585A	199704	broad.mit.edu	37	chr19	37647180	37647180	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agcatcacatcccggtacagGtttctctgagaagggtccag	10	9	11	11	1	2	1	1	1	1	1	5	2	4	1	2	3	2	3	2	3	2	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:37647180G>A	uc002ofo.1	-	3	381	c.150C>T	c.(148-150)AAC>AAT	p.N50N	ZNF585A_uc002ofm.1_5'UTR|ZNF585A_uc002ofn.1_5'UTR	NM_199126	NP_954577	Q6P3V2	Z585A_HUMAN	zinc finger protein 585A	50	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCCGGTACAGGTTTCTCTGAG	0.512													8	72					0	0	0.004482	0	0		A	37647180	A	A	37647180	2	1	216	1	0	0	0	0	0	0	0	1	18042	1276	44	4		4	ZNF585A	19	37647180	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	7141236	37647180	21481803	92	107563											
RYR1	6261	broad.mit.edu	37	chr19	38956931	38956931	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctcggctggtgccctaccGcctgctggatgaagccacca	6	7	11	17	2	0	1	0	1	0	0	1	2	0	2	6	3	4	2	6	3	2	1	rs148146893		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:38956931G>A	uc002oit.2	+	24	3201	c.3071G>A	c.(3070-3072)CGC>CAC	p.R1024H	RYR1_uc002oiu.2_Missense_Mutation_p.R1024H	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	1024	6 X approximate repeats.|2.|Cytoplasmic.|B30.2/SPRY 2.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	GTGCCCTACCGCCTGCTGGAT	0.687													9	24					0	0	0.006214	0	0		A	38956931	A	A	38956931	3	1	216	1	0	0	0	0	1	0	0	0	13793	1087	38	1	3165	1	RYR1	19	38956931	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	1309751	38956931	20172052	93	107564											
PSG4	5672	broad.mit.edu	37	chr19	43708213	43708213	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccatatataattctttgaccGtctactacatatgatgtaat	13	16	4	8	1	2	2	0	2	2	0	2	2	2	2	2	0	2	1	2	0	7	9	rs77454946	by1000genomes	TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:43708213G>A	uc002ovy.2	-	2	357	c.255C>T	c.(253-255)GAC>GAT	p.D85D	PSG4_uc002owa.2_RNA|PSG4_uc002owb.2_Silent_p.D85D|PSG4_uc002ovz.2_Silent_p.D85D	NM_002780	NP_002771	Q00888	PSG4_HUMAN	pregnancy specific beta-1-glycoprotein 4 isoform	85	Ig-like V-type.				defense response|female pregnancy	extracellular region				ovary(1)	1		Prostate(69;0.00682)				TTCTTTGACCGTCTACTACAT	0.423													13	163					0	0	0.013537	0	0		A	43708213	A	A	43708213	2	1	216	1	0	0	0	0	0	0	0	1	12679	1136	40	1		1	PSG4	19	43708213	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	4751282	43708213	15420770	94	107565											
HRC	3270	broad.mit.edu	37	chr19	49655303	49655303	+	Missense_Mutation	SNP	A	G	G	1	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	gaccagcgggcagagatagcAgaactgacagtgctggaggc	12	4	16	9	1	0	3	0	1	0	2	0	6	0	4	1	3	4	3	1	3	2	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:49655303A>G	uc002pmv.2	-	4	2171	c.1984T>C	c.(1984-1986)TGC>CGC	p.C662R		NM_002152	NP_002143	P23327	SRCH_HUMAN	histidine rich calcium binding protein	662	Metal-binding (Potential).				muscle contraction	sarcoplasmic reticulum lumen	calcium ion binding			ovary(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.01e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.00019)|GBM - Glioblastoma multiforme(486;0.00279)|Epithelial(262;0.00622)		CAGAGATAGCAGAACTGACAG	0.682													15	55					0	0	0.00499	0	0		G	49655303	G	G	49655303	3	3	216	1	0	0	0	0	1	0	0	0	7368	188	7	3	127	3	HRC	19	49655303	Missense_Mutation	SNP	A	TCGA-HU-A4H6-01A-11D-A25D-08	5947090	49655303	9473680	95	107566											
ZNF784	147808	broad.mit.edu	37	chr19	56133315	56133315	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	gaggagttgttgaaggtgcgGtcgcagagcgtgcagcggaa	9	7	19	6	4	0	2	0	1	0	1	1	5	0	4	0	4	4	4	0	4	2	2			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr19:56133315G>C	uc002qll.1	-	2	788	c.774C>G	c.(772-774)GAC>GAG	p.D258E	ZNF784_uc010etb.1_RNA	NM_203374	NP_976308	Q8NCA9	ZN784_HUMAN	zinc finger protein 784	258	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TGAAGGTGCGGTCGCAGAGCG	0.682													4	16					0	0	0.001984	0	0		C	56133315	C	C	56133315	3	2	216	1	0	0	0	0	1	0	0	0	18181	1252	44	5	201	5	ZNF784	19	56133315	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	6478012	56133315	2995668	96	107567											
SCRT2	85508	broad.mit.edu	37	chr20	644735	644735	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttgtggcggctcaggttCgacgacgtggcgtaggtctt	4	12	16	9	5	2	0	1	0	1	0	3	2	2	0	0	5	1	4	0	5	1	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr20:644735C>T	uc002wec.2	-	2	1082	c.504G>A	c.(502-504)TCG>TCA	p.S168S	SRXN1_uc002web.2_Intron	NM_033129	NP_149120	Q9NQ03	SCRT2_HUMAN	scratch 2 protein	168	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGCTCAGGTTCGACGACGTGG	0.517													9	42					0	0	0.006214	0	0		T	644735	T	T	644735	2	4	216	1	0	0	0	0	0	0	0	1	13967	871	31	1		1	SCRT2	20	644735	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08		644735	62380785	97	107568											
XKR7	343702	broad.mit.edu	37	chr20	30584971	30584971	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aaggactacaggtgctgagcGggatggggcctcggcgggag	8	5	20	8	3	0	1	0	1	0	0	1	4	0	4	1	7	3	1	1	7	2	1	rs147437006		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr20:30584971G>A	uc002wxe.2	+	3	1625	c.1451G>A	c.(1450-1452)CGG>CAG	p.R484Q		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	484						integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			GGTGCTGAGCGGGATGGGGCC	0.692													8	49					0	0	0.004482	0	0		A	30584971	A	A	30584971	3	1	216	1	0	0	0	0	1	0	0	0	17462	1116	39	1	1461	1	XKR7	20	30584971	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	29940236	30584971	32440549	98	107569											
ZNF295	49854	broad.mit.edu	37	chr21	43411786	43411786	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aacgggcaaagaaaagttttCggtgggtgccatgttgttct	10	12	13	6	2	1	1	0	0	1	1	2	1	1	1	1	3	2	4	1	3	4	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr21:43411786C>T	uc002zab.3	-	3	2633	c.2419G>A	c.(2419-2421)GAA>AAA	p.E807K	ZNF295_uc002yzz.3_Missense_Mutation_p.E606K|ZNF295_uc002yzy.3_Missense_Mutation_p.E807K|ZNF295_uc002zaa.3_Missense_Mutation_p.E807K	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	807					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GAAAAGTTTTCGGTGGGTGCC	0.517													42	112					0	0	0.009718	0	0		T	43411786	T	T	43411786	3	4	216	1	0	0	0	0	1	0	0	0	17852	893	31	1	785	1	ZNF295	21	43411786	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08		43411786	4718109	99	107570											
CCT8L2	150160	broad.mit.edu	37	chr22	17071982	17071982	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caccccttcctgggccacatTtattatcccttcagttccca	7	13	4	17	0	1	0	1	0	0	0	4	0	4	0	6	1	0	1	6	1	2	6			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr22:17071982T>G	uc002zlp.1	-	1	1719	c.1459A>C	c.(1459-1461)AAT>CAT	p.N487H		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	487					cellular protein metabolic process	cytoplasm	anion channel activity|ATP binding|calcium-activated potassium channel activity			ovary(1)	1	all_hematologic(4;0.00567)|Acute lymphoblastic leukemia(84;0.0977)	all_epithelial(15;0.0157)|Lung NSC(13;0.147)|all_lung(157;0.175)				TGGGCCACATTTATTATCCCT	0.512													9	144					0	0	0.010729	0	0		G	17071982	G	G	17071982	3	3	216	1	0	0	0	0	1	0	0	0	2964	1841	64	5	218	5	CCT8L2	22	17071982	Missense_Mutation	SNP	T	TCGA-HU-A4H6-01A-11D-A25D-08		17071982	34232584	100	107571											
THOC5	8563	broad.mit.edu	37	chr22	29924124	29924124	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctcttcagcatctccttgcGtttgtcgtccaactgaaccc	6	13	6	16	2	3	1	1	1	2	0	6	1	4	1	4	0	4	2	4	0	2	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr22:29924124G>A	uc003afr.2	-	12	1344	c.1009C>T	c.(1009-1011)CGC>TGC	p.R337C	THOC5_uc003afq.2_Translation_Start_Site|THOC5_uc003afs.2_Missense_Mutation_p.R337C|THOC5_uc003aft.2_Missense_Mutation_p.R337C|THOC5_uc003afu.2_Missense_Mutation_p.R337C|THOC5_uc010gvo.2_Missense_Mutation_p.R81C	NM_001002878	NP_001002878	Q13769	THOC5_HUMAN	THO complex 5	337					intronless viral mRNA export from host nucleus|monocyte differentiation|mRNA processing|primitive hemopoiesis|RNA splicing	cytoplasm|intermediate filament cytoskeleton|THO complex part of transcription export complex	protein binding|RNA binding			breast(3)	3						ATCTCCTTGCGTTTGTCGTCC	0.527													9	81					0	0	0.010729	0	0		A	29924124	A	A	29924124	3	1	216	1	0	0	0	0	1	0	0	0	15893	1145	40	1	1082	1	THOC5	22	29924124	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	12852142	29924124	21380442	101	107572											
CACNG2	10369	broad.mit.edu	37	chr22	36962410	36962410	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tggctgttacctgcagacacGaagaagatgccggcactcag	11	7	12	11	2	1	3	1	0	0	3	1	4	1	3	2	2	3	4	2	2	3	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr22:36962410G>A	uc003aps.1	-	3	708	c.426C>T	c.(424-426)TTC>TTT	p.F142F		NM_006078	NP_006069	Q9Y698	CCG2_HUMAN	voltage-dependent calcium channel gamma-2	142	Helical; (Potential).				membrane depolarization|regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity				0						CTGCAGACACGAAGAAGATGC	0.577													9	75					0	0	0.006214	0	0		A	36962410	A	A	36962410	2	1	216	1	0	0	0	0	0	0	0	1	2560	1049	37	1		1	CACNG2	22	36962410	Silent	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	7038286	36962410	14342156	102	107573											
SELO	83642	broad.mit.edu	37	chr22	50648639	50648639	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cgcacggcgcggatggtggcCgagtggcagtgtgtgggctt	4	8	20	9	5	0	0	0	0	0	0	0	2	0	1	1	6	0	3	1	6	0	1			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chr22:50648639C>T	uc011arr.1	+	4	1027	c.969C>T	c.(967-969)GCC>GCT	p.A323A	SELO_uc010hap.2_Silent_p.A134A|SELO_uc003bjy.2_Silent_p.A3A|SELO_uc003bjz.2_Silent_p.A3A	NM_031454	NP_113642	Q9BVL4	SELO_HUMAN	selenoprotein O	323											0		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		GGATGGTGGCCGAGTGGCAGT	0.657											OREG0026676	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	38					0	0	0.001168	0	0		T	50648639	T	T	50648639	2	4	216	1	0	0	0	0	0	0	0	1	14043	639	23	1		1	SELO	22	50648639	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	13686229	50648639	655927	103	107574											
VCX	26609	broad.mit.edu	37	chrX	7811739	7811739	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtgagcgaggggacccagcaCgaccccctgagtcaggaggc	9	3	16	13	2	1	2	1	2	0	0	1	6	1	4	3	4	2	1	3	4	0	0	rs151212725		TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chrX:7811739C>T	uc004crz.2	+	3	522	c.303C>T	c.(301-303)CAC>CAT	p.H101H		NM_013452	NP_038480	Q9H320	VCX1_HUMAN	variable charge, X chromosome	101	Glu-rich.				chromatin organization|ribosome assembly|spermatogenesis	nucleolus	chromatin binding				0		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)				GGACCCAGCACGACCCCCTGA	0.682													23	181					0	0	0.003954	0	0		T	7811739	T	T	7811739	2	4	216	1	0	0	0	0	0	0	0	1	17168	535	19	1		1	VCX	23	7811739	Silent	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08		7811739	147458821	104	107575											
ACRC	93953	broad.mit.edu	37	chrX	70823670	70823670	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gattcggaagctcccgacgaCaatagtgatgattcggatgt	11	10	12	8	4	0	2	0	2	0	0	3	7	1	4	1	2	1	1	1	2	3	3			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chrX:70823670C>A	uc004eae.2	+	8	1044	c.543C>A	c.(541-543)GAC>GAA	p.D181E	BCYRN1_uc011mpt.1_Intron	NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	181	Asp/Ser-rich.					nucleus				ovary(3)	3	Renal(35;0.156)					CTCCCGACGACAATAGTGATG	0.498													30	313					2.80507e-11	2.99927e-11	0.012213	1	0		A	70823670	A	A	70823670	3	1	216	1	0	0	0	0	1	0	0	0	171	477	17	5	569	5	ACRC	23	70823670	Missense_Mutation	SNP	C	TCGA-HU-A4H6-01A-11D-A25D-08	63011931	70823670	84446890	105	107576											
RGAG4	340526	broad.mit.edu	37	chrX	71349770	71349770	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggggcgtcttcgaacttggcGttgtcctaaacgacctgtgc	6	11	13	11	4	1	0	0	0	1	0	3	2	2	0	2	3	3	1	2	3	3	4			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chrX:71349770G>A	uc010nlh.1	-	1	1982	c.1621C>T	c.(1621-1623)CGC>TGC	p.R541C	NHSL2_uc011mqa.1_Intron|RGAG4_uc004eaj.1_RNA	NM_001024455	NP_001019626	Q5HYW3	RGAG4_HUMAN	retrotransposon gag domain containing 4	541										ovary(2)|skin(1)	3	Renal(35;0.156)					CGAACTTGGCGTTGTCCTAAA	0.597													11	50					0	0	0.010729	0	0		A	71349770	A	A	71349770	3	1	216	1	0	0	0	0	1	0	0	0	13300	1145	40	1	92	1	RGAG4	23	71349770	Missense_Mutation	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	526100	71349770	83920790	106	107577											
IL9R	3581	broad.mit.edu	37	chrX	155227302	155227302	+	Translation_Start_Site	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcctgtgtgaacctgtcGtgcaaagctcacgtcaccaa	9	8	11	13	3	2	1	2	1	0	0	3	1	2	1	3	1	3	2	3	1	3	0			TCGA-HU-A4H6-01A-11D-A25D-08	TCGA-HU-A4H6-10A-01D-A25E-08									Somatic	Phase_I	Capture				Illumina GAIIx	4ea56632-805f-4c0e-a396-ed3c34ae3628	13caa5d8-ddfe-43eb-91b6-cf308ef7c28f	g.chrX:155227302G>A	uc004fnv.1	+	1	57	c.-122G>A	c.(-124--120)TCGTG>TCATG		IL9R_uc010nvn.2_Translation_Start_Site|IL9R_uc004fnu.1_Translation_Start_Site	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor						cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					TGAACCTGTCGTGCAAAGCTC	0.527													3	17					0	0	0.004672	0	0		A	155227302	A	A	155227302	1	1	216	1	0	0	0	0	0	0	0	0	7724	1160	40	1		1	IL9R	23	155227302	Translation_Start_Site	SNP	G	TCGA-HU-A4H6-01A-11D-A25D-08	83877532	155227302	43258	107	107578											
PRAMEF17	391004	broad.mit.edu	37	chr1	13716908	13716908	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccagaggccatgagtaagaGgcagacagtggaggactatc	13	5	14	9	0	0	4	0	1	0	3	1	6	0	6	2	4	0	2	2	4	2	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr1:13716908G>A	uc009vnz.1	+	2	425	c.395G>A	c.(394-396)AGG>AAG	p.R132K		NM_001099851	NP_001093321	Q5VTA0	PRA17_HUMAN	PRAME family member 17	132											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;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)		ATGAGTAAGAGGCAGACAGTG	0.527													12	316					0	0	0.020292	0	0		A	13716908	A	A	13716908	3	1	217	1	0	0	0	0	1	0	0	0	12454	1000	35	4	401	4	PRAMEF17	1	13716908	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08		13716908	235533713	1	107579											
TBX15	6913	broad.mit.edu	37	chr1	119427517	119427517	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgcctctctccaaaggccccGttggaaggagaagaacagag	12	6	12	11	1	1	3	0	0	1	3	3	5	2	4	4	3	2	1	4	3	4	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr1:119427517G>A	uc001ehl.1	-	8	1644	c.1329C>T	c.(1327-1329)AAC>AAT	p.N443N	TBX15_uc009whj.1_Silent_p.N267N	NM_152380	NP_689593	Q96SF7	TBX15_HUMAN	T-box 15	549						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			large_intestine(1)|pancreas(1)	2	all_neural(166;0.117)	all_cancers(81;0.000692)|all_lung(203;3.05e-06)|Lung NSC(69;2.13e-05)|all_epithelial(167;0.000237)		Lung(183;0.044)|LUSC - Lung squamous cell carcinoma(189;0.141)		CAAAGGCCCCGTTGGAAGGAG	0.522													17	40					0	0	0.049695	0	0		A	119427517	A	A	119427517	2	1	217	1	0	0	0	0	0	0	0	1	15677	1136	40	1		1	TBX15	1	119427517	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	105710609	119427517	129823104	2	107580											
SMG5	23381	broad.mit.edu	37	chr1	156222291	156222291	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttcagcaaatccaggccatcGatcactggtgggcaaggtag	11	8	12	10	1	2	0	2	0	0	0	4	1	3	0	2	4	1	3	2	4	3	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr1:156222291G>A	uc001foc.3	-	19	2816	c.2667C>T	c.(2665-2667)ATC>ATT	p.I889I	SMG5_uc009wrv.2_Intron	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay	889	PINc.				mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					CCAGGCCATCGATCACTGGTG	0.527													26	27					0	0	0.054565	0	0		A	156222291	A	A	156222291	2	1	217	1	0	0	0	0	0	0	0	1	14821	1048	37	1		1	SMG5	1	156222291	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	36794774	156222291	93028330	3	107581											
CFHR3	10878	broad.mit.edu	37	chr1	196748348	196748348	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtctatttcatgagaatatgCgtagaccatactttccagta	12	14	7	8	1	2	2	1	1	1	2	3	3	3	2	2	0	2	2	2	0	6	7	rs143890724		TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr1:196748348C>T	uc001gtl.2	+	2	202	c.115C>T	c.(115-117)CGT>TGT	p.R39C	CFHR3_uc001gtk.2_Missense_Mutation_p.R39C|CFHR3_uc010poy.1_Missense_Mutation_p.R39C|CFHR1_uc001gtm.2_Missense_Mutation_p.R2C	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	39	Sushi 1.					extracellular space					0						TGAGAATATGCGTAGACCATA	0.323													22	60					0	0	0.108266	0	0		T	196748348	T	T	196748348	3	4	217	1	0	0	0	0	1	0	0	0	3289	768	27	1	121	1	CFHR3	1	196748348	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	40526057	196748348	52502273	4	107582											
IKBKE	9641	broad.mit.edu	37	chr1	206650166	206650166	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cccctttggtgggccacggcGgaacaaggagatcatgtacg	9	7	14	11	3	1	1	1	0	0	1	1	3	1	2	3	5	2	1	3	5	3	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr1:206650166G>A	uc001hdz.1	+	7	1054	c.686G>A	c.(685-687)CGG>CAG	p.R229Q	IKBKE_uc009xbu.1_Missense_Mutation_p.R229Q|IKBKE_uc009xbv.1_Missense_Mutation_p.R229Q|IKBKE_uc001hea.1_Missense_Mutation_p.R144Q	NM_014002	NP_054721	Q14164	IKKE_HUMAN	IKK-related kinase epsilon	229	Protein kinase.				DNA damage response, signal transduction resulting in induction of apoptosis|innate immune response|MyD88-independent toll-like receptor signaling pathway|negative regulation of type I interferon production|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane|PML body	ATP binding|IkappaB kinase activity|NF-kappaB-inducing kinase activity|protein binding			ovary(3)|lung(3)|central_nervous_system(1)|skin(1)	8	Breast(84;0.137)					GGGCCACGGCGGAACAAGGAG	0.622													38	60					0	0	0.048971	0	0		A	206650166	A	A	206650166	3	1	217	1	0	0	0	0	1	0	0	0	7628	1116	39	1	704	1	IKBKE	1	206650166	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	9901818	206650166	42600455	5	107583											
RYR2	6262	broad.mit.edu	37	chr1	237729908	237729908	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcggcaccggggaaaggttcCgaatcttccgtgccgagaag	9	6	15	11	5	1	1	0	0	1	1	3	4	3	2	4	4	1	2	4	4	3	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr1:237729908C>T	uc001hyl.1	+	28	3376	c.3256C>T	c.(3256-3258)CGA>TGA	p.R1086*		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1086	Cytoplasmic (By similarity).|4 X approximate repeats.|B30.2/SPRY 2.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			GGAAAGGTTCCGAATCTTCCG	0.542													20	29					0	0	0.049695	0	0		T	237729908	T	T	237729908	4	4	217	1	0	0	0	0	0	1	0	0	13794	644	23	1	3366	1	RYR2	1	237729908	Nonsense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	31079742	237729908	11520713	6	107584											
RYR2	6262	broad.mit.edu	37	chr1	237794733	237794733	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attgtcctttctagggatatTatgaataacaaagtgtttta	13	17	7	4	0	1	1	0	1	1	0	2	2	2	2	1	1	1	1	1	1	7	8			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr1:237794733T>A	uc001hyl.1	+	42	6567	c.6447T>A	c.(6445-6447)ATT>ATA	p.I2149I		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2149	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			CTAGGGATATTATGAATAACA	0.418													11	16					0	0	0.09319	0	0		A	237794733	A	A	237794733	2	1	217	1	0	0	0	0	0	0	0	1	13794	1742	61	5		5	RYR2	1	237794733	Silent	SNP	T	TCGA-IN-7806-01A-11D-2053-08	64825	237794733	11455888	7	107585											
PXDN	7837	broad.mit.edu	37	chr2	1670198	1670198	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtggcgctgcactccagcGtgacgctctccccaaccagc	6	7	10	18	3	1	1	0	1	1	0	3	1	2	1	4	1	4	3	4	1	1	0			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:1670198G>A	uc002qxa.2	-	10	1143	c.1079C>T	c.(1078-1080)ACG>ATG	p.T360M	PXDN_uc002qxb.1_Missense_Mutation_p.T360M|PXDN_uc002qxc.1_Missense_Mutation_p.T177M	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	360	Ig-like C2-type 2.				extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		GCACTCCAGCGTGACGCTCTC	0.572													11	19					0	0	0.105934	0	0		A	1670198	A	A	1670198	3	1	217	1	0	0	0	0	1	0	0	0	12872	1145	40	1	3416	1	PXDN	2	1670198	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08		1670198	241529175	8	107586											
MSH6	2956	broad.mit.edu	37	chr2	48025978	48025978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gcagtggagtgggggatagtGagagtgaaggcctgaacagc	11	6	19	5	0	0	3	0	3	0	1	0	6	0	5	1	4	2	1	1	4	3	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:48025978G>A	uc002rwd.3	+	4	1008	c.856G>A	c.(856-858)GAG>AAG	p.E286K	MSH6_uc002rwc.2_Missense_Mutation_p.E286K|MSH6_uc010fbj.2_5'UTR|MSH6_uc010yoi.1_Missense_Mutation_p.E156K|MSH6_uc010yoj.1_5'UTR	NM_000179	NP_000170	P52701	MSH6_HUMAN	mutS homolog 6	286					determination of adult lifespan|DNA damage response, signal transduction resulting in induction of apoptosis|isotype switching|meiotic mismatch repair|negative regulation of DNA recombination|positive regulation of helicase activity|reciprocal meiotic recombination|response to UV|somatic hypermutation of immunoglobulin genes	MutSalpha complex	ATP binding|DNA-dependent ATPase activity|protein binding			large_intestine(53)|central_nervous_system(28)|endometrium(28)|stomach(22)|haematopoietic_and_lymphoid_tissue(9)|lung(7)|skin(6)|urinary_tract(5)|breast(5)|ovary(3)|thyroid(1)|upper_aerodigestive_tract(1)	168		Acute lymphoblastic leukemia(82;0.0299)|all_hematologic(82;0.0358)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			GGGGGATAGTGAGAGTGAAGG	0.468			Mis|N|F|S		colorectal	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				57	162					0	0	0.048971	0	0		A	48025978	A	A	48025978	3	1	217	1	0	0	0	0	1	0	0	0	9892	1291	45	4	870	4	MSH6	2	48025978	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	46355780	48025978	195173395	9	107587											
C2orf42	54980	broad.mit.edu	37	chr2	70392720	70392720	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	agatattctttgttgcagggCatcaaaaaatgactgaggaa	15	11	10	5	0	2	3	1	2	1	1	2	4	2	4	0	2	1	3	0	2	5	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:70392720C>T	uc002sgh.2	-	7	1520	c.1192G>A	c.(1192-1194)GCC>ACC	p.A398T		NM_017880	NP_060350	Q9NWW7	CB042_HUMAN	hypothetical protein LOC54980	398											0						TGTTGCAGGGCATCAAAAAAT	0.418													23	52					0	0	0.076483	0	0		T	70392720	T	T	70392720	3	4	217	1	0	0	0	0	1	0	0	0	2169	710	25	2	548	2	C2orf42	2	70392720	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	22366742	70392720	172806653	10	107588											
SLC35F5	80255	broad.mit.edu	37	chr2	114513058	114513058	+	Missense_Mutation	SNP	T	C	C	0	1	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	taagagcccttctgagatccTcaagagcaatgccggaaaac	14	7	9	11	1	2	3	1	1	1	3	3	5	3	4	3	1	4	1	3	1	5	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:114513058T>C	uc002tku.1	-	2	528	c.104A>G	c.(103-105)GAG>GGG	p.E35G	SLC35F5_uc002tkt.2_RNA|SLC35F5_uc002tkv.2_Missense_Mutation_p.E29G|SLC35F5_uc002tkw.2_Missense_Mutation_p.E35G	NM_025181	NP_079457	Q8WV83	S35F5_HUMAN	solute carrier family 35, member F5	35					transport	integral to membrane					0						TCTGAGATCCTCAAGAGCAAT	0.393													15	21					0	0	0.049695	0	0		C	114513058	C	C	114513058	3	2	217	1	0	0	0	0	1	0	0	0	14617	1551	54	3	1523	3	SLC35F5	2	114513058	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	44120338	114513058	128686315	11	107589											
LRP2	4036	broad.mit.edu	37	chr2	170099465	170099465	+	Splice_Site	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctgggtatgtgttacttaCgacagcctgcttcatccgag	7	14	10	10	2	2	0	1	0	1	0	3	2	3	0	2	1	4	3	2	1	3	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:170099465C>T	uc002ues.2	-	24	3880	c.3667_splice	c.e24+1	p.P1223_splice	LRP2_uc010zdf.1_Splice_Site_p.P1086_splice	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2						hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	GTGTTACTTACGACAGCCTGC	0.408													34	200					0	0	0.048971	0	0		T	170099465	T	T	170099465	5	4	217	1	0	0	0	0	0	0	1	0	8974	550	19	1	10523	1	LRP2	2	170099465	Splice_Site	SNP	C	TCGA-IN-7806-01A-11D-2053-08	55586407	170099465	73099908	12	107590											
TTN	7273	broad.mit.edu	37	chr2	179549695	179549695	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaactttcttttctggcacaAttttcttaggtgcttcagga	8	17	8	8	0	4	0	1	0	3	0	4	2	4	1	0	3	2	2	0	3	3	7			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:179549695A>G	uc010zfg.1	-	127	28984	c.28760T>C	c.(28759-28761)ATT>ACT	p.I9587T	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.I6248T|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10514							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TTCTGGCACAATTTTCTTAGG	0.368													3	10					0	0	0.004672	0	0		G	179549695	G	G	179549695	3	3	217	1	0	0	0	0	1	0	0	0	16761	101	4	3	71969	3	TTN	2	179549695	Missense_Mutation	SNP	A	TCGA-IN-7806-01A-11D-2053-08	9450230	179549695	63649678	13	107591											
COL5A2	1290	broad.mit.edu	37	chr2	189933586	189933586	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgaggaccttcagggcctcGcgcccctgtaggacctgctt	5	9	12	15	2	1	1	1	1	0	0	2	3	1	3	5	3	1	2	5	3	1	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:189933586G>A	uc002uqk.2	-	19	1458	c.1183C>T	c.(1183-1185)CGA>TGA	p.R395*	COL5A2_uc010frx.2_Intron	NM_000393	NP_000384	P05997	CO5A2_HUMAN	alpha 2 type V collagen preproprotein	395					axon guidance|collagen fibril organization|eye morphogenesis|skin development	collagen type V	extracellular matrix structural constituent			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.127)			TCAGGGCCTCGCGCCCCTGTA	0.493													8	19					0	0	0.080935	0	0		A	189933586	A	A	189933586	4	1	217	1	0	0	0	0	0	1	0	0	3700	1095	38	1	3460	1	COL5A2	2	189933586	Nonsense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	10383891	189933586	53265787	14	107592											
MYO1B	4430	broad.mit.edu	37	chr2	192194740	192194740	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttctcattactggggaaagtGgagcaggaaaaacaggtaag	15	8	13	5	0	1	0	1	0	1	0	2	3	1	3	0	5	3	2	0	5	5	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:192194740G>T	uc010fsg.2	+	4	586	c.331G>T	c.(331-333)GGA>TGA	p.G111*	MYO1B_uc002usq.2_Nonsense_Mutation_p.G111*|MYO1B_uc002usr.2_Nonsense_Mutation_p.G111*|MYO1B_uc002uss.1_Nonsense_Mutation_p.G111*	NM_001130158	NP_001123630	O43795	MYO1B_HUMAN	myosin IB isoform 1	111	Myosin head-like.					myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(5)|large_intestine(2)|ovary(1)	8			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.104)|all cancers(119;0.236)			TGGGGAAAGTGGAGCAGGAAA	0.468													42	126					1.57019e-19	1.68469e-19	0.09836	1	0		T	192194740	T	T	192194740	4	4	217	1	0	0	0	0	0	1	0	0	10087	1349	47	5	341	5	MYO1B	2	192194740	Nonsense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	2261154	192194740	51004633	15	107593											
GLB1L	79411	broad.mit.edu	37	chr2	220104395	220104395	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagccagcctgtgtagtactCagagtttacctagagtgtga	10	11	11	9	0	1	3	1	1	0	2	1	3	1	3	3	0	4	3	3	0	4	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:220104395C>T	uc002vkm.2	-	9	1029	c.790G>A	c.(790-792)GAG>AAG	p.E264K	GLB1L_uc002vkk.2_Missense_Mutation_p.E21K|GLB1L_uc010zkx.1_Missense_Mutation_p.E174K|GLB1L_uc002vkn.2_Missense_Mutation_p.E264K	NM_024506	NP_078782	Q6UWU2	GLB1L_HUMAN	galactosidase, beta 1-like precursor	264		Nucleophile (Potential).			carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds				0		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)		GTGTAGTACTCAGAGTTTACC	0.512													79	154					0	0	0.048971	0	0		T	220104395	T	T	220104395	3	4	217	1	0	0	0	0	1	0	0	0	6443	835	29	4	1210	4	GLB1L	2	220104395	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	27909655	220104395	23094978	16	107594											
KIAA1486	57624	broad.mit.edu	37	chr2	226446838	226446838	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccagatgggcagccccgcGggagaccccgaggaagagga	10	2	16	13	3	0	3	0	0	0	3	1	7	1	5	5	4	1	1	5	4	1	0			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:226446838G>A	uc002voe.2	+	4	880	c.705G>A	c.(703-705)GCG>GCA	p.A235A	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Silent_p.A5A	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	235										ovary(2)|central_nervous_system(1)	3		Renal(207;0.0112)|all_lung(227;0.0477)|Lung NSC(271;0.0644)|all_hematologic(139;0.101)|Esophageal squamous(248;0.129)		Epithelial(121;6.73e-10)|all cancers(144;4.32e-07)|Lung(261;0.0161)|LUSC - Lung squamous cell carcinoma(224;0.0223)		GCAGCCCCGCGGGAGACCCCG	0.602													37	71					0	0	0.074837	0	0		A	226446838	A	A	226446838	2	1	217	1	0	0	0	0	0	0	0	1	8253	1103	39	1		1	KIAA1486	2	226446838	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	6342443	226446838	16752535	17	107595											
PRR21	643905	broad.mit.edu	37	chr2	240981279	240981279	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagaaacaagaagacaggtgTtgaaggtggccctggcagac	14	6	14	7	0	0	5	0	1	0	4	0	5	0	5	1	4	1	2	1	4	5	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr2:240981279T>C	uc010zod.1	-	1	1121	c.1121A>G	c.(1120-1122)AAC>AGC	p.N374S		NM_001080835	NP_001074304	Q8WXC7	PRR21_HUMAN	proline rich 21	374										ovary(1)|skin(1)	2						AAGACAGGTGTTGAAGGTGGC	0.458													24	52					0	0	0.099896	0	0		C	240981279	C	C	240981279	3	2	217	1	0	0	0	0	1	0	0	0	12614	1725	60	3	51	3	PRR21	2	240981279	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	14534441	240981279	2218094	18	107596											
C3orf45	132228	broad.mit.edu	37	chr3	50324175	50324175	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctgggcgttttgccgccGtcactgtgtgcccaggctgg	2	11	15	13	3	1	0	1	0	0	0	1	0	1	0	3	3	3	3	3	3	0	2	rs146794860		TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr3:50324175G>A	uc003cyz.2	+	3	270	c.243G>A	c.(241-243)CCG>CCA	p.P81P		NM_153215	NP_694947	Q8N112	CC045_HUMAN	hypothetical protein LOC132228	81						integral to membrane				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		TTTTGCCGCCGTCACTGTGTG	0.637													3	50					0	0	0.004672	0	0		A	50324175	A	A	50324175	2	1	217	1	0	0	0	0	0	0	0	1	2234	1132	40	1		1	C3orf45	3	50324175	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08		50324175	147698255	19	107597											
LRRC58	116064	broad.mit.edu	37	chr3	120067767	120067767	+	Frame_Shift_Del	DEL	C	-	-																															tgggccaggcccttgggcagCgcactgggcccgccgagccg																										TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr3:120067767delC	uc003edr.2	-	1	420	c.324delG	c.(322-324)GCGfs	p.A108fs		NM_001099678	NP_001093148	Q96CX6	LRC58_HUMAN	leucine rich repeat containing 58	108	LRR 3.										0				GBM - Glioblastoma multiforme(114;0.147)		CCTTGGGCAGCGCACTGGGCC	0.706													2	4	---	---	---	---						.	-	120067767	-	-	120067767	7	5	217	1	0	1	0	1	0	0	0	0	9032	755	27	0	807	0	LRRC58	3	120067767	Frame_Shift_Del	DEL	C	TCGA-IN-7806-01A-11D-2053-08	69743592	120067767	77954663	20	107598											
JAKMIP1	152789	broad.mit.edu	37	chr4	6107592	6107592	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagctccttggtcttctcctCatgcagcttggccttgagct	4	14	9	14	0	3	1	1	1	2	0	5	1	4	1	3	2	4	4	3	2	0	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr4:6107592C>T	uc003giu.3	-	3	508	c.232G>A	c.(232-234)GAG>AAG	p.E78K	JAKMIP1_uc010idb.1_Missense_Mutation_p.E78K|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Missense_Mutation_p.E78K|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Missense_Mutation_p.E78K|JAKMIP1_uc010ide.2_Missense_Mutation_p.E78K	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	78	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GTCTTCTCCTCATGCAGCTTG	0.677													17	13					0	0	0.049695	0	0		T	6107592	T	T	6107592	3	4	217	1	0	0	0	0	1	0	0	0	7956	835	29	4	2414	4	JAKMIP1	4	6107592	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08		6107592	185046684	21	107599											
LIMCH1	22998	broad.mit.edu	37	chr4	41615625	41615625	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cagcctggattcctttggctCtcgctctcggcagacgcctt	4	12	10	15	3	2	1	0	0	2	1	5	2	3	2	3	3	1	3	3	3	0	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr4:41615625C>T	uc003gvu.3	+	7	683	c.629C>T	c.(628-630)TCT>TTT	p.S210F	LIMCH1_uc003gvt.1_Missense_Mutation_p.S51F|LIMCH1_uc003gvv.3_Missense_Mutation_p.S210F|LIMCH1_uc003gvw.3_Missense_Mutation_p.S210F|LIMCH1_uc003gvx.3_Missense_Mutation_p.S210F|LIMCH1_uc003gwe.3_Missense_Mutation_p.S210F|LIMCH1_uc003gvy.3_Missense_Mutation_p.S51F|LIMCH1_uc003gwa.3_Missense_Mutation_p.S51F|LIMCH1_uc003gvz.3_Missense_Mutation_p.S51F|LIMCH1_uc011byu.1_Missense_Mutation_p.S56F|LIMCH1_uc003gwc.3_Missense_Mutation_p.S56F|LIMCH1_uc003gwd.3_Missense_Mutation_p.S56F|LIMCH1_uc011byv.1_5'UTR|LIMCH1_uc003gwb.1_Missense_Mutation_p.S58F	NM_014988	NP_055803	Q9UPQ0	LIMC1_HUMAN	LIM and calponin homology domains 1 isoform a	210					actomyosin structure organization		actin binding|zinc ion binding			ovary(2)|pancreas(1)|skin(1)	4						TCCTTTGGCTCTCGCTCTCGG	0.527													20	35					0	0	0.108266	0	0		T	41615625	T	T	41615625	3	4	217	1	0	0	0	0	1	0	0	0	8813	913	32	4	683	4	LIMCH1	4	41615625	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	35508033	41615625	149538651	22	107600											
PKD2	5311	broad.mit.edu	37	chr4	88995977	88995977	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	cttgcagcctggtgagacgaGtggaccggatggagcattcc	8	8	15	10	2	0	1	0	1	0	1	1	6	1	4	3	4	3	2	3	4	0	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr4:88995977G>A	uc003hre.2	+	14	2602	c.2536G>A	c.(2536-2538)GTG>ATG	p.V846M	PKD2_uc011cdf.1_Missense_Mutation_p.V264M|PKD2_uc011cdg.1_Missense_Mutation_p.V172M|PKD2_uc011cdh.1_Missense_Mutation_p.V69M	NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	846	Potential.|C-terminal coiled coil domain.|Cytoplasmic (Potential).			V->E: Loss of protein solubility.		basal cortex|basal plasma membrane|endoplasmic reticulum|integral to membrane|lamellipodium|microtubule basal body	calcium ion binding|cytoskeletal protein binding|voltage-gated chloride channel activity|voltage-gated sodium channel activity			skin(1)	1		Hepatocellular(203;0.114)|Acute lymphoblastic leukemia(40;0.221)		OV - Ovarian serous cystadenocarcinoma(123;9.98e-10)|COAD - Colon adenocarcinoma(81;0.0237)		GGTGAGACGAGTGGACCGGAT	0.498													32	30					0	0	0.086207	0	0		A	88995977	A	A	88995977	3	1	217	1	0	0	0	0	1	0	0	0	11985	1029	36	4	2590	4	PKD2	4	88995977	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	47380352	88995977	102158299	23	107601											
PDHA2	5161	broad.mit.edu	37	chr4	96761778	96761778	+	Nonsense_Mutation	SNP	T	A	A	0	1	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	atgtataccaagaacttctaTgggggcaatggcatcgtcgg	11	10	12	8	2	1	1	0	0	1	1	3	1	1	1	1	4	2	3	1	4	6	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr4:96761778T>A	uc003htr.3	+	1	540	c.477T>A	c.(475-477)TAT>TAA	p.Y159*		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	159					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	AGAACTTCTATGGGGGCAATG	0.493													22	26					0	0	0.099896	0	0		A	96761778	A	A	96761778	4	1	217	1	0	0	0	0	0	1	0	0	11684	1471	51	5	479	5	PDHA2	4	96761778	Nonsense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	7765801	96761778	94392498	24	107602											
ANK2	287	broad.mit.edu	37	chr4	114257924	114257924	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gcaccaaccttaagattactAtgcagcataacaggtgagtc	14	9	8	10	0	0	2	0	1	0	1	1	2	0	2	2	1	5	3	2	1	5	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr4:114257924A>G	uc003ibe.3	+	31	3883	c.3783A>G	c.(3781-3783)CTA>CTG	p.L1261L	ANK2_uc003ibd.3_Silent_p.L1252L|ANK2_uc003ibf.3_Silent_p.L1261L|ANK2_uc011cgc.1_Silent_p.L437L|ANK2_uc003ibg.3_Silent_p.L256L|ANK2_uc011cgb.1_Silent_p.L1276L	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1228					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TAAGATTACTATGCAGCATAA	0.373													36	31					0	0	0.042209	0	0		G	114257924	G	G	114257924	2	3	217	1	0	0	0	0	0	0	0	1	621	436	16	3		3	ANK2	4	114257924	Silent	SNP	A	TCGA-IN-7806-01A-11D-2053-08	17496146	114257924	76896352	25	107603											
TMEM184C	55751	broad.mit.edu	37	chr4	148546061	148546061	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gggattccttaccaattatcTaactaaccggtatccaaatc	13	12	5	11	1	1	0	0	0	1	0	4	1	3	1	4	2	3	1	4	2	7	6			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr4:148546061T>A	uc003ila.3	+	4	967	c.398T>A	c.(397-399)CTA>CAA	p.L133Q		NM_018241	NP_060711	Q9NVA4	T184C_HUMAN	transmembrane protein 184C	133						integral to membrane					0						ACCAATTATCTAACTAACCGG	0.388													8	139					0	0	0.038147	0	0		A	148546061	A	A	148546061	3	1	217	1	0	0	0	0	1	0	0	0	16131	1522	53	5	412	5	TMEM184C	4	148546061	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	34288137	148546061	42608215	26	107604											
LRBA	987	broad.mit.edu	37	chr4	151388910	151388910	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgacccaaggaaacactggaTactgatttaagtcattataa	16	11	7	7	0	1	2	1	2	0	0	1	4	1	4	1	2	2	0	1	2	6	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr4:151388910T>C	uc010ipj.2	-	45	7202	c.6728A>G	c.(6727-6729)TAT>TGT	p.Y2243C	LRBA_uc010ipi.2_5'UTR|LRBA_uc003ils.3_Missense_Mutation_p.Y133C|LRBA_uc003ilt.3_Missense_Mutation_p.Y891C|LRBA_uc003ilu.3_Missense_Mutation_p.Y2232C	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	2243	BEACH.					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					AAACACTGGATACTGATTTAA	0.323													47	121					0	0	0.048971	0	0		C	151388910	C	C	151388910	3	2	217	1	0	0	0	0	1	0	0	0	8949	1406	49	3	1919	3	LRBA	4	151388910	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	2842849	151388910	39765366	27	107605											
HIST1H2AD	3013	broad.mit.edu	37	chr6	26199398	26199398	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtacgcggcccacagggaacTggagtccggcccgcgaagag	9	3	16	13	5	0	1	0	0	0	1	1	4	1	3	3	4	2	1	3	4	3	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr6:26199398T>G	uc003ngw.2	-	1	74	c.74A>C	c.(73-75)CAG>CCG	p.Q25P	HIST1H3D_uc003ngv.2_5'UTR|HIST1H2BF_uc003ngx.2_5'Flank	NM_021065	NP_066409	P20671	H2A1D_HUMAN	histone cluster 1, H2ad	25					nucleosome assembly	nucleosome|nucleus	DNA binding				0		all_hematologic(11;0.196)				CACAGGGAACTGGAGTCCGGC	0.617													12	19					0	0	0.080935	0	0		G	26199398	G	G	26199398	3	3	217	1	0	0	0	0	1	0	0	0	7147	1580	55	5	322	5	HIST1H2AD	6	26199398	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08		26199398	144915669	28	107606											
VPS52	6293	broad.mit.edu	37	chr6	33232167	33232167	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcacatagtggggccgagtaTccaacccccctaggcgctgg	8	7	12	14	2	1	0	1	0	0	0	2	1	2	0	5	4	1	2	5	4	4	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr6:33232167T>C	uc003odm.1	-	14	1718	c.1508A>G	c.(1507-1509)GAT>GGT	p.D503G	VPS52_uc003odn.1_Missense_Mutation_p.D314G	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	503					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						GGGCCGAGTATCCAACCCCCC	0.557													40	87					0	0	0.048971	0	0		C	33232167	C	C	33232167	3	2	217	1	0	0	0	0	1	0	0	0	17240	1435	50	3	691	3	VPS52	6	33232167	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	7032769	33232167	137882900	29	107607											
RSPH9	221421	broad.mit.edu	37	chr6	43612845	43612845	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ccgctgacctgatggacgccGacagcctcctgctgtctctg	5	9	11	16	3	1	2	0	2	1	0	3	4	2	3	5	1	2	2	5	1	0	0			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr6:43612845G>A	uc003ovw.1	+	1	36	c.10G>A	c.(10-12)GAC>AAC	p.D4N	RSPH9_uc003ovx.1_Missense_Mutation_p.D4N	NM_152732	NP_689945	Q9H1X1	RSPH9_HUMAN	radial spoke head 9 homolog	4					cilium axoneme assembly|cilium movement	cytoplasm|cytoskeleton				upper_aerodigestive_tract(1)|skin(1)	2						GATGGACGCCGACAGCCTCCT	0.667									Kartagener_syndrome				9	15					0	0	0.069234	0	0		A	43612845	A	A	43612845	3	1	217	1	0	0	0	0	1	0	0	0	13733	1058	37	1	12	1	RSPH9	6	43612845	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	10380678	43612845	127502222	30	107608											
PKHD1	5314	broad.mit.edu	37	chr6	51882288	51882288	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggcattgggaactttcctcGcaaatgtagaggtaaggcca	12	9	12	8	1	0	1	0	0	0	1	2	2	1	2	2	4	1	4	2	4	4	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr6:51882288G>A	uc003pah.1	-	34	5796	c.5520C>T	c.(5518-5520)TGC>TGT	p.C1840C	PKHD1_uc003pai.2_Silent_p.C1840C	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1840	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					AACTTTCCTCGCAAATGTAGA	0.493													72	125					0	0	0.048971	0	0		A	51882288	A	A	51882288	2	1	217	1	0	0	0	0	0	0	0	1	11990	1079	38	1		1	PKHD1	6	51882288	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	8269443	51882288	119232779	31	107609											
AHI1	54806	broad.mit.edu	37	chr6	135784438	135784438	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	actgtgtcaccagagatggtCaatgtactacaaatataatc	15	11	7	8	0	2	1	2	0	0	1	3	2	2	1	1	1	2	1	1	1	6	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr6:135784438C>T	uc003qgi.2	-	8	1140	c.756G>A	c.(754-756)TTG>TTA	p.L252L	AHI1_uc003qgh.2_Silent_p.L252L|AHI1_uc003qgj.2_Silent_p.L252L|AHI1_uc003qgk.3_RNA|AHI1_uc003qgl.3_Silent_p.L252L	NM_001134831	NP_001128303	Q8N157	AHI1_HUMAN	Abelson helper integration site 1 isoform a	252						adherens junction|cilium|microtubule basal body				ovary(1)|kidney(1)|central_nervous_system(1)	3	Breast(56;0.239)|Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00904)|OV - Ovarian serous cystadenocarcinoma(155;0.00991)		CAGAGATGGTCAATGTACTAC	0.323													21	70					0	0	0.0918	0	0		T	135784438	T	T	135784438	2	4	217	1	0	0	0	0	0	0	0	1	413	825	29	4		4	AHI1	6	135784438	Silent	SNP	C	TCGA-IN-7806-01A-11D-2053-08	83902150	135784438	35330629	32	107610											
STYXL1	51657	broad.mit.edu	37	chr7	75634686	75634686	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aacgaagaccttccctggcaCgatttcaatggggtatggct	10	10	11	10	2	1	1	1	0	0	1	2	3	2	1	2	4	1	3	2	4	4	3	rs147059565		TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr7:75634686C>T	uc003uej.3	-	6	663	c.490G>A	c.(490-492)GTG>ATG	p.V164M	STYXL1_uc003uef.2_Translation_Start_Site|STYXL1_uc011kgf.1_Missense_Mutation_p.V26M|STYXL1_uc011kgg.1_Missense_Mutation_p.V16M|STYXL1_uc003ueh.2_Missense_Mutation_p.V26M|STYXL1_uc003uek.3_Missense_Mutation_p.V68M|STYXL1_uc003uel.2_Missense_Mutation_p.V164M|STYXL1_uc003uem.2_Missense_Mutation_p.V164M|STYXL1_uc010ldg.1_RNA|STYXL1_uc010ldh.1_Missense_Mutation_p.V164M|STYXL1_uc003uen.1_Missense_Mutation_p.V164M	NM_016086	NP_057170	Q9Y6J8	STYL1_HUMAN	map kinase phosphatase-like protein MK-STYX	164	Tyrosine-protein phosphatase.				intracellular signal transduction|protein dephosphorylation	intracellular	protein binding|protein tyrosine/serine/threonine phosphatase activity				0						TTCCCTGGCACGATTTCAATG	0.478													4	90					0	0	0.021553	0	0		T	75634686	T	T	75634686	3	4	217	1	0	0	0	0	1	0	0	0	15386	536	19	1	467	1	STYXL1	7	75634686	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08		75634686	83503977	33	107611											
MUC17	140453	broad.mit.edu	37	chr7	100684763	100684763	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccacgccagtggtcagttctGaggctagcaccctttccaca	8	9	9	15	1	2	1	1	1	1	0	3	1	3	1	4	2	1	3	4	2	1	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr7:100684763G>A	uc003uxp.1	+	3	10119	c.10066G>A	c.(10066-10068)GAG>AAG	p.E3356K	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	3356	Extracellular (Potential).|54.|59 X approximate tandem repeats.|Ser-rich.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					GGTCAGTTCTGAGGCTAGCAC	0.483													17	505					0	0	0.038395	0	0		A	100684763	A	A	100684763	3	1	217	1	0	0	0	0	1	0	0	0	9992	1291	45	4	10076	4	MUC17	7	100684763	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	25050077	100684763	58453900	34	107612											
RELN	5649	broad.mit.edu	37	chr7	103290823	103290823	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aggaaggggaattgttattcGgttccacctgcaagaaattt	12	12	11	6	1	0	1	0	0	0	1	2	3	1	3	2	4	1	3	2	4	5	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr7:103290823G>A	uc003vca.2	-	16	2060	c.1900C>T	c.(1900-1902)CGA>TGA	p.R634*	RELN_uc010liz.2_Nonsense_Mutation_p.R634*	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	634					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		ATTGTTATTCGGTTCCACCTG	0.413													19	66					0	0	0.076483	0	0		A	103290823	A	A	103290823	4	1	217	1	0	0	0	0	0	1	0	0	13245	1124	39	1	8682	1	RELN	7	103290823	Nonsense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	2606060	103290823	55847840	35	107613											
CSMD1	64478	broad.mit.edu	37	chr8	3263657	3263657	+	Missense_Mutation	SNP	A	T	T	1	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	gccatcatcacagtggaaagAaaccgagctcccgagtagaa	15	5	10	11	2	2	2	2	0	0	2	3	5	3	3	3	1	2	2	3	1	4	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr8:3263657A>T	uc011kwk.1	-	15	2551	c.2161T>A	c.(2161-2163)TCT>ACT	p.S721T	CSMD1_uc011kwj.1_Missense_Mutation_p.S113T	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	721	Sushi 4.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAGTGGAAAGAAACCGAGCTC	0.512													4	30					0	0	0.014758	0	0		T	3263657	T	T	3263657	3	4	217	1	0	0	0	0	1	0	0	0	3947	246	9	5	8760	5	CSMD1	8	3263657	Missense_Mutation	SNP	A	TCGA-IN-7806-01A-11D-2053-08		3263657	143100365	36	107614											
RAB11FIP1	80223	broad.mit.edu	37	chr8	37729256	37729256	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	acacaggccctcccccagtaCcaacctatctgcctcgccac	9	6	5	21	1	1	0	0	0	1	0	3	0	2	0	7	1	3	1	7	1	3	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr8:37729256C>T	uc003xkm.1	-	4	3108	c.3064G>A	c.(3064-3066)GTA>ATA	p.V1022I	RAB11FIP1_uc010lvz.1_Intron|RAB11FIP1_uc003xkn.1_Intron|RAB11FIP1_uc003xkl.1_Missense_Mutation_p.V351I|RAB11FIP1_uc003xko.1_Missense_Mutation_p.V351I|RAB11FIP1_uc003xkp.1_Intron	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	1022					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;3.62e-11)			TCCCCCAGTACCAACCTATCT	0.562													19	28					0	0	0.055883	0	0		T	37729256	T	T	37729256	3	4	217	1	0	0	0	0	1	0	0	0	12918	507	18	4	799	4	RAB11FIP1	8	37729256	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	34465599	37729256	108634766	37	107615											
DCAF4L2	138009	broad.mit.edu	37	chr8	88885231	88885231	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gccacgactccttcttcttcGttcacatgcacgggtaggta	7	12	9	13	3	3	0	1	0	2	0	5	1	4	0	2	2	1	4	2	2	2	6			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr8:88885231G>A	uc003ydz.2	-	1	1066	c.969C>T	c.(967-969)AAC>AAT	p.N323N		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	323	WD 2.									ovary(1)	1						CTTCTTCTTCGTTCACATGCA	0.547													23	44					0	0	0.037714	0	0		A	88885231	A	A	88885231	2	1	217	1	0	0	0	0	0	0	0	1	4275	1136	40	1		1	DCAF4L2	8	88885231	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	51155975	88885231	57478791	38	107616											
DPYS	1807	broad.mit.edu	37	chr8	105405080	105405080	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaggaataaacttcccatCtcctgccgtgacactgaaca	12	9	7	13	2	1	2	0	2	1	0	4	4	2	3	3	1	3	0	3	1	4	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr8:105405080C>A	uc003yly.3	-	8	1504	c.1375G>T	c.(1375-1377)GAT>TAT	p.D459Y	DPYS_uc010mcf.1_Missense_Mutation_p.D29Y	NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	459					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AACTTCCCATCTCCTGCCGTG	0.483													78	163					8.2577e-42	9.24504e-42	0.048971	1	0		A	105405080	A	A	105405080	3	1	217	1	0	0	0	0	1	0	0	0	4752	913	32	5	192	5	DPYS	8	105405080	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	16519849	105405080	40958942	39	107617											
IARS	3376	broad.mit.edu	37	chr9	95009740	95009740	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttaaaggctcccttcagacGcttccccaggaccatgtgat	9	10	8	14	1	1	2	1	1	0	1	3	3	3	3	4	2	0	2	4	2	2	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr9:95009740G>A	uc004art.1	-	26	2967	c.2710C>T	c.(2710-2712)CGT>TGT	p.R904C	IARS_uc004ars.1_Missense_Mutation_p.R749C|IARS_uc004aru.3_Missense_Mutation_p.R904C|IARS_uc010mqr.2_Missense_Mutation_p.R794C|IARS_uc010mqt.2_Missense_Mutation_p.R127C	NM_013417	NP_038203	P41252	SYIC_HUMAN	isoleucine tRNA synthetase	904					isoleucyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	ATP binding|isoleucine-tRNA ligase activity|protein binding			ovary(1)|skin(1)	2					L-Isoleucine(DB00167)	CCCTTCAGACGCTTCCCCAGG	0.483													34	47					0	0	0.080422	0	0		A	95009740	A	A	95009740	3	1	217	1	0	0	0	0	1	0	0	0	7489	1087	38	1	1114	1	IARS	9	95009740	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08		95009740	46203691	40	107618											
ACTL7A	10881	broad.mit.edu	37	chr9	111625637	111625637	+	Silent	SNP	G	A	A	0	0	1	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	accgtgtcctgccttaacaaGtgtgacatcgccctcaaacg	10	9	8	14	3	1	1	1	1	0	0	3	1	2	1	4	0	3	0	4	0	3	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr9:111625637G>A	uc004bdj.1	+	1	1035	c.1035G>A	c.(1033-1035)AAG>AAA	p.K345K		NM_006687	NP_006678	Q9Y615	ACL7A_HUMAN	actin-like 7A	345						cytoplasm|cytoskeleton|protein complex	structural constituent of cytoskeleton				0						GCCTTAACAAGTGTGACATCG	0.572													46	83					0	0	0.048971	0	0		A	111625637	A	A	111625637	2	1	217	1	0	0	0	0	0	0	0	1	200	1020	36	4		4	ACTL7A	9	111625637	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	16615897	111625637	29587794	41	107619											
REXO4	57109	broad.mit.edu	37	chr9	136282791	136282791	+	Silent	SNP	T	C	C	0	1	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	tcttctggtgcctttggaggTcgcaccacagcaccggggcc	5	9	13	14	2	2	0	0	0	2	0	3	1	2	1	4	5	2	2	4	5	0	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr9:136282791T>C	uc004cdm.2	-	1	374	c.174A>G	c.(172-174)CGA>CGG	p.R58R	ADAMTS13_uc004cdp.3_Intron|REXO4_uc011mde.1_5'UTR|REXO4_uc011mdf.1_5'UTR|REXO4_uc004cdn.2_5'UTR|REXO4_uc004cdo.2_Silent_p.R58R	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog	58						nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		CCTTTGGAGGTCGCACCACAG	0.572													3	151					0	0	0.004672	0	0		C	136282791	C	C	136282791	2	2	217	1	0	0	0	0	0	0	0	1	13268	1654	58	3		3	REXO4	9	136282791	Silent	SNP	T	TCGA-IN-7806-01A-11D-2053-08	24657154	136282791	4930640	42	107620											
PHPT1	29085	broad.mit.edu	37	chr9	139744466	139744466	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggccgccctcccatcccagcGgacatctacgacaaagtgtc	9	6	9	17	3	1	0	0	0	1	0	4	2	3	1	4	2	2	0	4	2	2	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr9:139744466G>A	uc004cjp.2	+	3	784	c.162G>A	c.(160-162)GCG>GCA	p.A54A	PHPT1_uc011mei.1_Silent_p.A54A|PHPT1_uc004cjq.3_Silent_p.A54A|MAMDC4_uc004cjs.2_5'Flank|MAMDC4_uc011mej.1_5'Flank	NM_014172	NP_054891	Q9NRX4	PHP14_HUMAN	phosphohistidine phosphatase 1 isoform 3	54						cytosol	phosphohistidine phosphatase activity|phosphoprotein phosphatase activity				0	all_cancers(76;0.0763)|all_epithelial(76;0.198)	Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;1.52e-05)|Epithelial(140;0.000171)		CCATCCCAGCGGACATCTACG	0.642													26	83					0	0	0.054565	0	0		A	139744466	A	A	139744466	2	1	217	1	0	0	0	0	0	0	0	1	11879	1130	39	1		1	PHPT1	9	139744466	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	3461675	139744466	1468965	43	107621											
PRKCQ	5588	broad.mit.edu	37	chr10	6472771	6472771	+	Splice_Site	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	ggcccatgagcgagtccttaCcactttcggccggaacggtg	7	8	13	13	4	0	1	0	1	0	0	2	3	1	2	4	4	3	0	4	4	2	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr10:6472771C>A	uc001ijj.1	-	17	2040	c.1965_splice	c.e17+1	p.V655_splice	PRKCQ_uc009xim.1_Splice_Site_p.V592_splice|PRKCQ_uc001iji.1_Splice_Site_p.V688_splice|PRKCQ_uc009xin.1_Splice_Site_p.V619_splice|PRKCQ_uc010qax.1_Splice_Site_p.V530_splice	NM_006257	NP_006248	Q04759	KPCT_HUMAN	protein kinase C, theta						axon guidance|cellular component disassembly involved in apoptosis|intracellular signal transduction|membrane protein ectodomain proteolysis|platelet activation|regulation of cell growth|T cell receptor signaling pathway	cytosol	ATP binding|metal ion binding|protein binding|protein kinase C activity			ovary(3)|lung(2)|large_intestine(1)	6						CGAGTCCTTACCACTTTCGGC	0.632													5	111					0.00198382	0.00200327	0.02938	1	0		A	6472771	A	A	6472771	5	1	217	1	0	0	0	0	0	0	1	0	12537	521	18	5	162	5	PRKCQ	10	6472771	Splice_Site	SNP	C	TCGA-IN-7806-01A-11D-2053-08		6472771	129061976	44	107622											
C10orf71	118461	broad.mit.edu	37	chr10	50530852	50530852	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tttggagccagttaccgtcaCagggcacggaacattcgggc	9	8	13	11	3	1	0	1	0	0	0	2	2	1	2	2	4	3	2	2	4	2	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr10:50530852C>A	uc010qgp.1	+	3	601	c.262C>A	c.(262-264)CAG>AAG	p.Q88K		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	88											0						GTTACCGTCACAGGGCACGGA	0.577													37	59					2.58029e-29	2.82733e-29	0.11126	1	0		A	50530852	A	A	50530852	3	1	217	1	0	0	0	0	1	0	0	0	1617	479	17	5	264	5	C10orf71	10	50530852	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	44058081	50530852	85003895	45	107623											
GRID1	2894	broad.mit.edu	37	chr10	87379661	87379661	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctgtaggggctgccatgctGcagggcaatcccgtaaccct	7	8	12	14	1	0	0	0	0	0	0	1	0	1	0	4	3	4	6	4	3	3	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr10:87379661G>T	uc001kdl.1	-	14	2424	c.2323C>A	c.(2323-2325)CAG>AAG	p.Q775K	GRID1_uc009xsu.1_Intron|GRID1_uc010qmf.1_Missense_Mutation_p.Q346K	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	775	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CTGCCATGCTGCAGGGCAATC	0.592										Multiple Myeloma(13;0.14)			20	35					1.42536e-11	1.48295e-11	0.099896	1	0		T	87379661	T	T	87379661	3	4	217	1	0	0	0	0	1	0	0	0	6787	1328	46	5	718	5	GRID1	10	87379661	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	36848809	87379661	48155086	46	107624											
SEC31B	25956	broad.mit.edu	37	chr10	102265860	102265860	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	atcacagagtacaaactgatCcagccgttgaaggaggcagc	14	6	11	10	1	1	3	1	2	0	1	2	4	2	4	2	2	4	3	2	2	3	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr10:102265860C>A	uc001krc.1	-	9	1083	c.981G>T	c.(979-981)TGG>TGT	p.W327C	SEC31B_uc010qpo.1_Missense_Mutation_p.W326C|SEC31B_uc001krd.1_5'UTR|SEC31B_uc001krf.1_5'UTR|SEC31B_uc001kre.1_5'UTR|SEC31B_uc001krg.1_5'UTR|SEC31B_uc010qpp.1_Missense_Mutation_p.W330C|SEC31B_uc009xwn.1_Missense_Mutation_p.W327C|SEC31B_uc009xwo.1_Missense_Mutation_p.W327C|SEC31B_uc010qpq.1_Missense_Mutation_p.W170C	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	327	WD 6.				protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		ACAAACTGATCCAGCCGTTGA	0.532													65	123					1.84395e-34	2.04223e-34	0.048971	1	0		A	102265860	A	A	102265860	3	1	217	1	0	0	0	0	1	0	0	0	14024	856	30	5	2630	5	SEC31B	10	102265860	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	14886199	102265860	33268887	47	107625											
TRIM34	53840	broad.mit.edu	37	chr11	5655984	5655984	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagaaaagaagacgctggatAagtttgcagaggctgaggat	16	7	14	4	1	0	5	0	1	0	4	0	7	0	7	0	3	1	4	0	3	5	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:5655984A>G	uc001mbh.2	+	4	800	c.643A>G	c.(643-645)AAG>GAG	p.K215E	HBG2_uc001mak.1_Intron|TRIM6-TRIM34_uc001mbf.2_Missense_Mutation_p.K569E|TRIM34_uc009yeq.2_Translation_Start_Site|TRIM34_uc001mbi.2_Missense_Mutation_p.K215E|TRIM34_uc001mbj.2_Missense_Mutation_p.K215E	NM_001003827	NP_001003827	Q9BYJ4	TRI34_HUMAN	tripartite motif protein 34 isoform 1	215	Potential.				protein trimerization	cytoplasm	zinc ion binding			ovary(1)	1		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)		GACGCTGGATAAGTTTGCAGA	0.448													16	49					0	0	0.028581	0	0		G	5655984	G	G	5655984	3	3	217	1	0	0	0	0	1	0	0	0	16534	363	13	3	653	3	TRIM34	11	5655984	Missense_Mutation	SNP	A	TCGA-IN-7806-01A-11D-2053-08		5655984	129350532	48	107626											
DTX4	23220	broad.mit.edu	37	chr11	58949457	58949457	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agacccagcgccaacgccgcGtccgccggcgcctcgacctc	6	3	11	21	8	0	1	0	0	0	1	3	2	1	1	7	1	2	0	7	1	1	0			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:58949457G>A	uc001nns.2	+	2	714	c.457G>A	c.(457-459)GTC>ATC	p.V153I	DTX4_uc001nnr.2_Missense_Mutation_p.V47I	NM_015177	NP_055992	Q9Y2E6	DTX4_HUMAN	deltex 4 homolog	153	WWE 2.				Notch signaling pathway	cytoplasm	zinc ion binding			lung(2)|central_nervous_system(1)	3		all_epithelial(135;0.125)				CCAACGCCGCGTCCGCCGGCG	0.627													37	56					0	0	0.092188	0	0		A	58949457	A	A	58949457	3	1	217	1	0	0	0	0	1	0	0	0	4803	1145	40	1	463	1	DTX4	11	58949457	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	53293473	58949457	76057059	49	107627											
MEN1	4221	broad.mit.edu	37	chr11	64572604	64572604	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcccatttgcagatgccgtCgtagaatcgcagcaggtggg	8	9	13	11	3	0	2	0	0	0	2	3	2	1	2	2	2	3	4	2	2	2	2	rs104894264		TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:64572604C>A	uc001obj.2	-	9	1340	c.1267G>T	c.(1267-1269)GAC>TAC	p.D423Y	MAP4K2_uc001obh.2_5'Flank|MAP4K2_uc001obi.2_5'Flank|MAP4K2_uc010rnp.1_5'Flank|MEN1_uc001obk.2_Missense_Mutation_p.D423Y|MEN1_uc001obl.2_Missense_Mutation_p.D383Y|MEN1_uc001obm.2_Missense_Mutation_p.D418Y|MEN1_uc001obn.2_Missense_Mutation_p.D423Y|MEN1_uc001obo.2_Missense_Mutation_p.D423Y|MEN1_uc001obp.2_Missense_Mutation_p.D418Y|MEN1_uc001obq.2_Missense_Mutation_p.D423Y|MEN1_uc001obr.2_Missense_Mutation_p.D423Y	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	423			Missing (in MEN1).|D -> H (in MEN1).|D -> N (in MEN1).|Missing (in MEN1).		DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding	p.D418N(1)|p.L414_E425del(1)		parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						CAGATGCCGTCGTAGAATCGC	0.632			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				18	46					9.86323e-18	1.04733e-17	0.0918	1	0		A	64572604	A	A	64572604	3	1	217	1	0	0	0	0	1	0	0	0	9490	884	31	5	588	5	MEN1	11	64572604	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	5623147	64572604	70433912	50	107628											
MEN1	4221	broad.mit.edu	37	chr11	64575026	64575026	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cattggctcagccctcacctGctgcagctgcagaagctcca	8	8	9	16	0	2	1	2	0	0	1	3	1	3	1	3	1	6	6	3	1	1	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:64575026G>A	uc001obj.2	-	4	869	c.796C>T	c.(796-798)CAG>TAG	p.Q266*	MEN1_uc001obk.2_Nonsense_Mutation_p.Q266*|MEN1_uc001obl.2_Nonsense_Mutation_p.Q226*|MEN1_uc001obm.2_Nonsense_Mutation_p.Q261*|MEN1_uc001obn.2_Nonsense_Mutation_p.Q266*|MEN1_uc001obo.2_Nonsense_Mutation_p.Q266*|MEN1_uc001obp.2_Nonsense_Mutation_p.Q261*|MEN1_uc001obq.2_Nonsense_Mutation_p.Q266*|MEN1_uc001obr.2_Nonsense_Mutation_p.Q266*	NM_130800	NP_570712	O00255	MEN1_HUMAN	menin isoform 1	266	Interaction with FANCD2.		Q -> QLQ (in MEN1).		DNA repair|histone lysine methylation|MAPKKK cascade|negative regulation of cell proliferation|negative regulation of cyclin-dependent protein kinase activity|negative regulation of JNK cascade|negative regulation of osteoblast differentiation|negative regulation of protein phosphorylation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of telomerase activity|negative regulation of transcription from RNA polymerase II promoter|osteoblast development|positive regulation of protein binding|positive regulation of transforming growth factor beta receptor signaling pathway|response to gamma radiation|response to UV|transcription, DNA-dependent	chromatin|cleavage furrow|cytosol|histone methyltransferase complex|nuclear matrix|soluble fraction	double-stranded DNA binding|four-way junction DNA binding|protein binding, bridging|protein N-terminus binding|R-SMAD binding|transcription regulatory region DNA binding|Y-form DNA binding	p.W265_L267del(1)		parathyroid(105)|pancreas(64)|gastrointestinal_tract_(site_indeterminate)(15)|small_intestine(13)|lung(9)|pituitary(7)|NS(7)|adrenal_gland(5)|soft_tissue(4)|central_nervous_system(4)|thymus(2)|stomach(1)|retroperitoneum(1)|skin(1)	238						gccctcacctgctgcagctgc	0.259			D|Mis|N|F|S		parathyroid tumors|Pancreatic neuroendocrine tumors	parathyroid adenoma|pituitary adenoma|pancreatic islet cell|carcinoid			Hyperparathyroidism_Familial_Isolated|Multiple_Endocrine_Neoplasia_type_1				10	38					0	0	0.080935	0	0		A	64575026	A	A	64575026	4	1	217	1	0	0	0	0	0	1	0	0	9490	1328	46	2	1079	2	MEN1	11	64575026	Nonsense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	2422	64575026	70431490	51	107629											
CARNS1	57571	broad.mit.edu	37	chr11	67191993	67191993	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaccgaggcccgtctccGcctgctgggcctctgccagg	3	6	12	20	3	2	0	0	0	2	0	3	1	2	0	8	3	2	1	8	3	0	0			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:67191993G>A	uc009yrp.2	+	9	2857	c.2405G>A	c.(2404-2406)CGC>CAC	p.R802H	CARNS1_uc001olc.3_Missense_Mutation_p.R941H	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	802					carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						GCCCGTCTCCGCCTGCTGGGC	0.672													6	9					0	0	0.021553	0	0		A	67191993	A	A	67191993	3	1	217	1	0	0	0	0	1	0	0	0	2659	1087	38	1	2808	1	CARNS1	11	67191993	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	2616967	67191993	67814523	52	107630											
UCP3	7352	broad.mit.edu	37	chr11	73717372	73717372	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaggatggtgcccagcacgCcacggtactgcacgagccgg	8	5	14	14	4	1	0	1	0	0	0	1	2	1	1	3	4	5	3	3	4	1	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:73717372C>G	uc001our.2	-	3	534	c.179G>C	c.(178-180)GGC>GCC	p.G60A	UCP3_uc001ous.2_Missense_Mutation_p.G60A	NM_003356	NP_003347	P55916	UCP3_HUMAN	uncoupling protein 3 isoform UCP3L	60	Solcar 1.				mitochondrial transport|respiratory electron transport chain|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	binding			pancreas(1)	1	Breast(11;2.08e-05)					GCCCAGCACGCCACGGTACTG	0.657													4	8					0	0	0.009096	0	0		G	73717372	G	G	73717372	3	3	217	1	0	0	0	0	1	0	0	0	16958	739	26	5	783	5	UCP3	11	73717372	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	6525379	73717372	61289144	53	107631											
MYO7A	4647	broad.mit.edu	37	chr11	76893499	76893499	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtctggatcaccatcctcCgcttcatgggggacctccct	5	10	10	16	2	3	0	2	0	1	0	6	2	6	2	5	4	0	1	5	4	0	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:76893499C>T	uc001oyb.2	+	25	3411	c.3139C>T	c.(3139-3141)CGC>TGC	p.R1047C	MYO7A_uc010rsl.1_Missense_Mutation_p.R1047C|MYO7A_uc010rsm.1_Missense_Mutation_p.R1036C|MYO7A_uc001oyc.2_Missense_Mutation_p.R1047C|MYO7A_uc001oyd.2_Missense_Mutation_p.R387C|MYO7A_uc009yus.1_RNA|MYO7A_uc009yut.1_Missense_Mutation_p.R258C	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	1047	MyTH4 1.				actin filament-based movement|equilibrioception|lysosome organization|sensory perception of sound|visual perception	cytosol|lysosomal membrane|myosin complex|photoreceptor inner segment|photoreceptor outer segment|synapse	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|breast(1)	4						CACCATCCTCCGCTTCATGGG	0.582													5	6					0	0	0.021553	0	0		T	76893499	T	T	76893499	3	4	217	1	0	0	0	0	1	0	0	0	10100	652	23	1	3233	1	MYO7A	11	76893499	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	3176127	76893499	58113017	54	107632											
ODZ4	26011	broad.mit.edu	37	chr11	78498043	78498043	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggtggcaggcccgctggtcGcaggctgcccccatccagcc	4	5	15	17	2	0	0	0	0	0	0	2	0	1	0	5	5	2	4	5	5	0	0			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:78498043G>A	uc001ozl.3	-	16	2728	c.2265C>T	c.(2263-2265)TGC>TGT	p.C755C		NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	755	Extracellular (Potential).|EGF-like 6.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CCCGCTGGTCGCAGGCTGCCC	0.692													3	7					0	0	0.004672	0	0		A	78498043	A	A	78498043	2	1	217	1	0	0	0	0	0	0	0	1	10856	1079	38	1		1	ODZ4	11	78498043	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	1604544	78498043	56508473	55	107633											
DYNC2H1	79659	broad.mit.edu	37	chr11	103086494	103086494	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctaaagctcttgtggatgaActgaacagaaaagctggaga	15	8	12	6	0	1	4	0	2	1	2	1	6	1	5	0	2	4	3	0	2	6	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr11:103086494A>G	uc001pho.2	+	55	8883	c.8739A>G	c.(8737-8739)GAA>GAG	p.E2913E	DYNC2H1_uc001phn.1_Silent_p.E2913E|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	2913	Potential.|Stalk (By similarity).				cell projection organization|Golgi organization|microtubule-based movement|multicellular organismal development	cilium axoneme|dynein complex|Golgi apparatus|microtubule|plasma membrane	ATP binding|ATPase activity|microtubule motor activity				0		Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00348)		BRCA - Breast invasive adenocarcinoma(274;0.000177)|Epithelial(105;0.0785)		TTGTGGATGAACTGAACAGAA	0.358													4	17					0	0	0.009096	0	0		G	103086494	G	G	103086494	2	3	217	1	0	0	0	0	0	0	0	1	4852	40	2	3		3	DYNC2H1	11	103086494	Silent	SNP	A	TCGA-IN-7806-01A-11D-2053-08	24588451	103086494	31920022	56	107634											
TAS2R43	259289	broad.mit.edu	37	chr12	11244154	11244154	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcacagtttgcaaagctttTatgtggaccttggtgctggg	8	14	12	7	0	1	0	1	0	0	0	1	1	1	1	1	3	3	4	1	3	2	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr12:11244154T>C	uc001qzq.1	-	1	759	c.675A>G	c.(673-675)ATA>ATG	p.I225M	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176884	NP_795365	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	225	Cytoplasmic (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	cilium membrane|motile cilium	bitter taste receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		GCAAAGCTTTTATGTGGACCT	0.383													34	52					0	0	0.048971	0	0		C	11244154	C	C	11244154	3	2	217	1	0	0	0	0	1	0	0	0	15606	1744	61	3	258	3	TAS2R43	12	11244154	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08		11244154	122607741	57	107635											
ACVR1B	91	broad.mit.edu	37	chr12	52387827	52387827	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gtatgccaacggcgcagcccGcctgacggccctgcgcatca	7	5	12	17	5	1	1	1	1	0	0	1	1	1	1	4	2	4	3	4	2	2	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr12:52387827G>A	uc001rzn.2	+	9	1493	c.1451G>A	c.(1450-1452)CGC>CAC	p.R484H	ACVR1B_uc010snn.1_Missense_Mutation_p.R525H	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	484	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	GGCGCAGCCCGCCTGACGGCC	0.622													33	45					0	0	0.080422	0	0		A	52387827	A	A	52387827	3	1	217	1	0	0	0	0	1	0	0	0	221	1087	38	1	1612	1	ACVR1B	12	52387827	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	41143673	52387827	81464068	58	107636											
ACAD10	80724	broad.mit.edu	37	chr12	112193499	112193499	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttggatatagccatgattAaaatggtcgccccgtccatg	10	11	9	11	2	0	1	0	1	0	0	2	2	1	2	5	2	1	0	5	2	4	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr12:112193499A>C	uc001tsq.2	+	20	3189	c.2989A>C	c.(2989-2991)AAA>CAA	p.K997Q	ACAD10_uc009zvx.2_Missense_Mutation_p.K1028Q|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	997							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						AGCCATGATTAAAATGGTCGC	0.542													93	151					0	0	0.048971	0	0		C	112193499	C	C	112193499	3	2	217	1	0	0	0	0	1	0	0	0	108	363	13	5	3160	5	ACAD10	12	112193499	Missense_Mutation	SNP	A	TCGA-IN-7806-01A-11D-2053-08	59805672	112193499	21658396	59	107637											
IL31	386653	broad.mit.edu	37	chr12	122658467	122658467	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catcacttggtcgtagtaaaCggacgggcaacgtgtgggag	10	8	15	8	4	1	0	1	0	0	0	2	2	1	2	0	4	2	3	0	4	4	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr12:122658467C>T	uc001ubv.2	-	2	116	c.89G>A	c.(88-90)CGT>CAT	p.R30H	LRRC43_uc001ubw.3_Intron|LRRC43_uc009zxl.1_Intron	NM_001014336	NP_001014358	Q6EBC2	IL31_HUMAN	interleukin 31 precursor	30						extracellular space	cytokine activity			central_nervous_system(1)	1	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;6.93e-05)|Breast(359;0.0544)		OV - Ovarian serous cystadenocarcinoma(86;3.27e-29)|Epithelial(86;4.86e-27)|BRCA - Breast invasive adenocarcinoma(302;0.223)		TCGTAGTAAACGGACGGGCAA	0.517													33	54					0	0	0.069456	0	0		T	122658467	T	T	122658467	3	4	217	1	0	0	0	0	1	0	0	0	7706	536	19	1	413	1	IL31	12	122658467	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	10464968	122658467	11193428	60	107638											
ZMYM2	7750	broad.mit.edu	37	chr13	20641135	20641135	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcaacttgatgaagatcttCtggtattagatgagttaaaa	14	13	10	4	0	2	5	0	3	2	2	2	5	2	5	0	2	1	3	0	2	6	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr13:20641135C>T	uc001umr.2	+	21	3575	c.3277C>T	c.(3277-3279)CTG>TTG	p.L1093L	ZMYM2_uc001ums.2_Silent_p.L1093L|ZMYM2_uc001umt.2_Silent_p.L1093L|ZMYM2_uc001umv.2_Silent_p.L473L|ZMYM2_uc001umw.2_Silent_p.L546L	NM_003453	NP_003444	Q9UBW7	ZMYM2_HUMAN	zinc finger protein 198	1093					regulation of transcription, DNA-dependent|transcription, DNA-dependent	PML body	ubiquitin conjugating enzyme binding|zinc ion binding			lung(3)|ovary(2)|prostate(1)	6		all_cancers(29;8.65e-21)|all_epithelial(30;1.04e-18)|all_lung(29;6.75e-18)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;0.000148)|Epithelial(112;0.000249)|OV - Ovarian serous cystadenocarcinoma(117;0.00816)|Lung(94;0.0173)|LUSC - Lung squamous cell carcinoma(192;0.0856)		TGAAGATCTTCTGGTATTAGA	0.313													20	41					0	0	0.030593	0	0		T	20641135	T	T	20641135	2	4	217	1	0	0	0	0	0	0	0	1	17725	912	32	4		4	ZMYM2	13	20641135	Silent	SNP	C	TCGA-IN-7806-01A-11D-2053-08		20641135	94528743	61	107639											
DNAJC3	5611	broad.mit.edu	37	chr13	96375503	96375503	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ttttaattttcagatggtgaCcctgataactatattgctta	11	18	6	6	0	1	3	1	2	0	1	1	3	1	3	1	1	2	1	1	1	5	9			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr13:96375503C>T	uc001vmq.2	+	3	309	c.201C>T	c.(199-201)GAC>GAT	p.D67D	DNAJC3_uc001vmp.2_Silent_p.D67D|DNAJC3_uc001vmr.2_Silent_p.D67D	NM_006260	NP_006251	Q13217	DNJC3_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 3	67	TPR 1.				protein folding|response to unfolded protein|response to virus		heat shock protein binding|protein kinase inhibitor activity|unfolded protein binding				0	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.126)			CAGATGGTGACCCTGATAACT	0.303													23	40					0	0	0.034045	0	0		T	96375503	T	T	96375503	2	4	217	1	0	0	0	0	0	0	0	1	4653	506	18	4		4	DNAJC3	13	96375503	Silent	SNP	C	TCGA-IN-7806-01A-11D-2053-08	75734368	96375503	18794375	62	107640											
APBA2	321	broad.mit.edu	37	chr15	29406154	29406154	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	accgcatcatcgagatcaacGggcagagcgtggtggccaca	11	5	13	12	4	2	2	2	0	0	2	3	3	2	2	2	3	2	2	2	3	1	0			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr15:29406154G>A	uc001zck.2	+	13	2320	c.2113G>A	c.(2113-2115)GGG>AGG	p.G705R	APBA2_uc010uat.1_Missense_Mutation_p.G693R|APBA2_uc001zcl.2_Missense_Mutation_p.G693R	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	705	PDZ 2.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		CGAGATCAACGGGCAGAGCGT	0.607													30	75					0	0	0.050027	0	0		A	29406154	A	A	29406154	3	1	217	1	0	0	0	0	1	0	0	0	757	1116	39	1	2155	1	APBA2	15	29406154	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08		29406154	73125238	63	107641											
WDR76	79968	broad.mit.edu	37	chr15	44120487	44120487	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agctacaacccaagagaacgGcagatgcgatgaatctcagt	15	6	10	10	2	1	3	1	1	1	2	2	5	1	3	1	1	5	2	1	1	5	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr15:44120487G>T	uc001zti.1	+	2	408	c.385G>T	c.(385-387)GCA>TCA	p.A129S		NM_024908	NP_079184	Q9H967	WDR76_HUMAN	WD repeat domain 76	129											0		all_cancers(109;3.26e-11)|all_epithelial(112;4.82e-09)|Lung NSC(122;1.61e-06)|all_lung(180;1.5e-05)|Melanoma(134;0.0417)		all cancers(107;3.78e-21)|GBM - Glioblastoma multiforme(94;5.04e-07)		CAAGAGAACGGCAGATGCGAT	0.428													36	75					1.47244e-24	1.59644e-24	0.086207	1	0		T	44120487	T	T	44120487	3	4	217	1	0	0	0	0	1	0	0	0	17352	1203	42	5	391	5	WDR76	15	44120487	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	14714333	44120487	58410905	64	107642											
HDC	3067	broad.mit.edu	37	chr15	50534549	50534550	+	Frame_Shift_Ins	INS	-	T	T																															acgctgtagaatttgatgagINSttttttgaaggcacttttct																										TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr15:50534549_50534550insT	uc001zxz.2	-	12	2002_2003	c.1896_1897insA	c.(1894-1899)AAACTCfs	p.K632fs	HDC_uc001zxy.2_Frame_Shift_Ins_p.K375fs|HDC_uc010uff.1_Frame_Shift_Ins_p.K599fs	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	632_633					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	AATTTGATGAGTTTTTTGAAGG	0.49													37	81	---	---	---	---						.	T	50534550	T	T	50534549	7	5	217	1	0	1	1	0	0	0	0	0	7031	1029	36	0	95	0	HDC	15	50534549	Frame_Shift_Ins	INS	-	TCGA-IN-7806-01A-11D-2053-08	6414062	50534549	51996843	65	107643											
UNC13C	440279	broad.mit.edu	37	chr15	54630687	54630687	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tactcccagctaacagacccGgtaagaaaatatgtatgtct	14	10	7	10	1	1	2	0	0	1	2	2	2	2	2	2	1	3	3	2	1	7	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr15:54630687G>A	uc002ack.2	+	15	4713	c.4713G>A	c.(4711-4713)CCG>CCA	p.P1571P	UNC13C_uc002acl.2_Silent_p.P401P	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1571					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(5)|pancreas(2)	7				GBM - Glioblastoma multiforme(80;0.0789)|all cancers(107;0.124)		TAACAGACCCGGTAAGAAAAT	0.363													19	54					0	0	0.076483	0	0		A	54630687	A	A	54630687	2	1	217	1	0	0	0	0	0	0	0	1	17012	1130	39	1		1	UNC13C	15	54630687	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	4096138	54630687	47900705	66	107644											
FAM154B	283726	broad.mit.edu	37	chr15	82575372	82575372	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ccaaggtcataaattcttccGcaagattattcctgcagtga	12	12	7	10	1	2	2	1	1	1	1	4	2	4	2	3	1	1	2	3	1	5	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr15:82575372G>A	uc002bgv.2	+	3	1235	c.1166G>A	c.(1165-1167)CGC>CAC	p.R389H	FAM154B_uc010unr.1_Missense_Mutation_p.R374H|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	389										skin(2)	2						AAATTCTTCCGCAAGATTATT	0.388													26	35					0	0	0.050027	0	0		A	82575372	A	A	82575372	3	1	217	1	0	0	0	0	1	0	0	0	5475	1087	38	1	1176	1	FAM154B	15	82575372	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	27944685	82575372	19956020	67	107645											
TEKT5	146279	broad.mit.edu	37	chr16	10729625	10729625	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ggcctccctcacttacttcaActgcgggatgtccctgcaca	7	10	8	16	1	2	0	2	0	0	0	4	1	4	1	3	2	4	1	3	2	2	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr16:10729625A>T	uc002czz.1	-	6	1309	c.1237T>A	c.(1237-1239)TTG>ATG	p.L413M		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	413					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						ACTTACTTCAACTGCGGGATG	0.627													46	110					0	0	0.048971	0	0		T	10729625	T	T	10729625	3	4	217	1	0	0	0	0	1	0	0	0	15781	40	2	5	228	5	TEKT5	16	10729625	Missense_Mutation	SNP	A	TCGA-IN-7806-01A-11D-2053-08		10729625	79625128	68	107646											
CYLD	1540	broad.mit.edu	37	chr16	50785785	50785785	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtgatgttttgccaggaaaaGaaagcttaggatattttgtt	12	15	11	3	0	0	2	0	1	0	1	0	4	0	4	1	2	2	3	1	2	5	7			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr16:50785785G>A	uc002egp.1	+	5	1190	c.775G>A	c.(775-777)GAA>AAA	p.E259K	CYLD_uc002egn.1_Missense_Mutation_p.E259K|CYLD_uc002ego.2_Missense_Mutation_p.E259K|CYLD_uc010cbs.1_Missense_Mutation_p.E259K|CYLD_uc002egq.1_Missense_Mutation_p.E259K|CYLD_uc002egr.1_Missense_Mutation_p.E259K|CYLD_uc002egs.1_Missense_Mutation_p.E259K	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	259	CAP-GLY 2.|Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			skin(19)|large_intestine(3)|haematopoietic_and_lymphoid_tissue(3)|central_nervous_system(3)	28		all_cancers(37;0.0156)				GCCAGGAAAAGAAAGCTTAGG	0.284			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				12	38					0	0	0.024245	0	0		A	50785785	A	A	50785785	3	1	217	1	0	0	0	0	1	0	0	0	4146	943	33	4	781	4	CYLD	16	50785785	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	40056160	50785785	39568968	69	107647											
TP53	7157	broad.mit.edu	37	chr17	7577094	7577094	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	attctcttcctctgtgcgccGgtctctcccaggacaggcac	5	11	9	16	2	3	0	0	0	3	0	7	1	5	1	3	3	1	1	3	3	0	2	rs28934574		TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr17:7577094G>A	uc002gim.2	-	8	1038	c.844C>T	c.(844-846)CGG>TGG	p.R282W	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.R282W|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R150W|TP53_uc010cng.1_Missense_Mutation_p.R150W|TP53_uc002gii.1_Missense_Mutation_p.R150W|TP53_uc010cnh.1_Missense_Mutation_p.R282W|TP53_uc010cni.1_Missense_Mutation_p.R282W|TP53_uc002gij.2_Missense_Mutation_p.R282W	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	282	|Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		R -> G (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|DR -> EW (in sporadic cancers; somatic mutation).|R -> Q (in a familial cancer not matching LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> H (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R282W(367)|p.R282G(27)|p.R282Q(20)|p.R282P(14)|p.R282R(8)|p.0?(7)|p.R282L(3)|p.D281fs*63(2)|p.?(2)|p.R282fs*24(2)|p.D281_R282>EW(2)|p.A276_R283delACPGRDRR(1)|p.R280fs*62(1)|p.R282_E287delRRTEEE(1)|p.G279fs*59(1)|p.S269fs*21(1)|p.C275_R283delCACPGRDRR(1)|p.D281_R282insXX(1)|p.L265_K305del41(1)|p.R282H(1)|p.R283_T284>T(1)|p.V272_K292del21(1)|p.R282fs*63(1)|p.C275fs*20(1)|p.D281_R282delDR(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			11	14					0	0	0.080935	0	0		A	7577094	A	A	7577094	3	1	217	1	0	0	0	0	1	0	0	0	16407	1115	39	1	442	1	TP53	17	7577094	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08		7577094	73618116	70	107648											
PLXDC1	57125	broad.mit.edu	37	chr17	37264391	37264391	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctcaccattgtcaaagtaaaCaactgtggagttgtcggagt	12	11	10	8	1	2	0	2	0	0	0	3	2	2	2	1	2	2	2	1	2	4	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr17:37264391C>T	uc002hrg.2	-	5	789	c.577G>A	c.(577-579)GTT>ATT	p.V193I	uc002hrf.1_3'UTR|PLXDC1_uc002hrh.2_RNA|PLXDC1_uc002hri.2_RNA|PLXDC1_uc002hrj.1_RNA|PLXDC1_uc002hrk.1_RNA	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor	193	Extracellular (Potential).				angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						TCAAAGTAAACAACTGTGGAG	0.532													8	158					0	0	0.038147	0	0		T	37264391	T	T	37264391	3	4	217	1	0	0	0	0	1	0	0	0	12136	478	17	4	965	4	PLXDC1	17	37264391	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08	29687297	37264391	43930819	71	107649											
TEX14	56155	broad.mit.edu	37	chr17	56665028	56665028	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aaacaggttccacactcatcCtgaattgcacgggttttttg	10	13	8	10	1	1	1	1	1	0	0	3	1	3	1	2	2	2	3	2	2	2	5			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr17:56665028C>G	uc010dcz.1	-	17	2839	c.2721_splice	c.e17-1	p.R907_splice	TEX14_uc002iwr.1_Splice_Site_p.R901_splice|TEX14_uc002iws.1_Splice_Site_p.R901_splice|TEX14_uc010dda.1_Splice_Site_p.R681_splice	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a							cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					CACACTCATCCTGAATTGCAC	0.438											OREG0024616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	31					0	0	0.09319	0	0		G	56665028	G	G	56665028	5	3	217	1	0	0	0	0	0	0	1	0	15803	695	24	5	1841	5	TEX14	17	56665028	Splice_Site	SNP	C	TCGA-IN-7806-01A-11D-2053-08	19400637	56665028	24530182	72	107650											
FASN	2194	broad.mit.edu	37	chr17	80046085	80046085	+	Missense_Mutation	SNP	T	C	C	0	1	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	gcccagggcgcgggccagcgTcttccacactatgctcaggt	6	7	13	15	3	2	0	1	0	1	0	3	0	3	0	3	3	2	1	3	3	1	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr17:80046085T>C	uc002kdu.2	-	17	2809	c.2692A>G	c.(2692-2694)ACG>GCG	p.T898A	FASN_uc002kdw.1_Missense_Mutation_p.T114A	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	898					energy reserve metabolic process|fatty acid biosynthetic process|long-chain fatty-acyl-CoA biosynthetic process|pantothenate metabolic process|positive regulation of cellular metabolic process|triglyceride biosynthetic process	cytosol|Golgi apparatus|melanosome|plasma membrane	3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity|acyl carrier activity|cofactor binding|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|myristoyl-[acyl-carrier-protein] hydrolase activity|oleoyl-[acyl-carrier-protein] hydrolase activity|palmitoyl-[acyl-carrier-protein] hydrolase activity|phosphopantetheine binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_neural(118;0.0878)|Ovarian(332;0.227)|all_lung(278;0.246)		OV - Ovarian serous cystadenocarcinoma(97;0.0211)|BRCA - Breast invasive adenocarcinoma(99;0.0237)		Cerulenin(DB01034)|Orlistat(DB01083)|Pyrazinamide(DB00339)	CGGGCCAGCGTCTTCCACACT	0.652													15	44					0	0	0.043863	0	0		C	80046085	C	C	80046085	3	2	217	1	0	0	0	0	1	0	0	0	5697	1667	58	3	4951	3	FASN	17	80046085	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	23381057	80046085	1149125	73	107651											
LAMA1	284217	broad.mit.edu	37	chr18	6942154	6942154	+	Missense_Mutation	SNP	A	G	G	1	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	tgctgaagtcaaaggactgcAcctgcgggctcttaatcaga	11	9	11	10	1	3	2	2	1	1	1	3	3	3	3	1	2	3	3	1	2	3	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr18:6942154A>G	uc002knm.2	-	63	9246	c.9152T>C	c.(9151-9153)GTG>GCG	p.V3051A	LAMA1_uc002knk.2_Missense_Mutation_p.V381A|LAMA1_uc002knl.2_Missense_Mutation_p.V504A|LAMA1_uc010wzj.1_Missense_Mutation_p.V2527A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	3051	Laminin G-like 5.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	AAAGGACTGCACCTGCGGGCT	0.532													25	47					0	0	0.083992	0	0		G	6942154	G	G	6942154	3	3	217	1	0	0	0	0	1	0	0	0	8621	159	6	3	79	3	LAMA1	18	6942154	Missense_Mutation	SNP	A	TCGA-IN-7806-01A-11D-2053-08		6942154	71135094	74	107652											
NETO1	81832	broad.mit.edu	37	chr18	70417340	70417340	+	Missense_Mutation	SNP	T	C	C	0	1	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	ggacagcctgtgactggtggTcggcacctcttcgatttcat	6	12	12	11	2	2	1	1	1	1	0	4	3	2	2	2	4	1	1	2	4	0	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr18:70417340T>C	uc002lkw.2	-	9	1782	c.1498A>G	c.(1498-1500)ACC>GCC	p.T500A	NETO1_uc002lkx.1_Missense_Mutation_p.T499A|NETO1_uc002lky.1_Missense_Mutation_p.T500A	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	500	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TGACTGGTGGTCGGCACCTCT	0.453													15	47					0	0	0.038395	0	0		C	70417340	C	C	70417340	3	2	217	1	0	0	0	0	1	0	0	0	10358	1667	58	3	111	3	NETO1	18	70417340	Missense_Mutation	SNP	T	TCGA-IN-7806-01A-11D-2053-08	63475186	70417340	7659908	75	107653											
COL5A3	50509	broad.mit.edu	37	chr19	10077052	10077052	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	cgccgtgaagttgcaaaaaaCcctgaacgagtcccgcgcgc	11	5	11	14	6	0	2	0	2	0	0	1	3	1	2	3	0	3	2	3	0	5	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr19:10077052C>A	uc002mmq.1	-	64	4806	c.4720G>T	c.(4720-4722)GTT>TTT	p.V1574F		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1574	Fibrillar collagen NC1.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			TTGCAAAAAACCCTGAACGAG	0.607													15	47					3.5997e-14	3.78336e-14	0.069288	1	0		A	10077052	A	A	10077052	3	1	217	1	0	0	0	0	1	0	0	0	3701	507	18	5	533	5	COL5A3	19	10077052	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08		10077052	49051931	76	107654											
ILVBL	10994	broad.mit.edu	37	chr19	15233935	15233935	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggactgggtacctgcagcaGagtgctggcagccccaccca	9	5	13	14	0	0	1	0	0	0	1	0	2	0	2	4	3	5	5	4	3	1	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr19:15233935G>A	uc002nam.2	-	4	578	c.457C>T	c.(457-459)CTG>TTG	p.L153L	ILVBL_uc010dzw.2_Silent_p.L46L|ILVBL_uc010dzx.1_Silent_p.L153L	NM_006844	NP_006835	A1L0T0	ILVBL_HUMAN	ilvB (bacterial acetolactate synthase)-like	153						integral to membrane	magnesium ion binding|thiamine pyrophosphate binding|transferase activity			ovary(2)	2						ACCTGCAGCAGAGTGCTGGCA	0.627													34	54					0	0	0.069456	0	0		A	15233935	A	A	15233935	2	1	217	1	0	0	0	0	0	0	0	1	7731	933	33	4		4	ILVBL	19	15233935	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08	5156883	15233935	43895048	77	107655											
C5AR1	728	broad.mit.edu	37	chr19	47823124	47823124	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acccctgtggataaaacttcTaacacgctgcgtgttccaga	11	10	8	12	2	1	1	0	0	1	1	2	2	2	2	3	1	3	2	3	1	3	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr19:47823124T>C	uc002pgj.1	+	2	139	c.90T>C	c.(88-90)TCT>TCC	p.S30S		NM_001736	NP_001727	P21730	C5AR_HUMAN	complement component 5 receptor 1	30	Extracellular (Potential).				activation of MAPK activity|activation of phospholipase C activity|cellular defense response|elevation of cytosolic calcium ion concentration|immune response|sensory perception of chemical stimulus	integral to plasma membrane	C5a anaphylatoxin receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		all_cancers(25;2e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000267)|OV - Ovarian serous cystadenocarcinoma(262;0.000618)|Epithelial(262;0.0142)|GBM - Glioblastoma multiforme(486;0.0242)		ATAAAACTTCTAACACGCTGC	0.532													34	81					0	0	0.092188	0	0		C	47823124	C	C	47823124	2	2	217	1	0	0	0	0	0	0	0	1	2284	1509	53	3		3	C5AR1	19	47823124	Silent	SNP	T	TCGA-IN-7806-01A-11D-2053-08	32589189	47823124	11305859	78	107656											
AP2A1	160	broad.mit.edu	37	chr19	50302934	50302934	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcggctgacctcctctacGccatgtgtgaccggagcaat	7	8	13	13	3	1	2	0	2	1	0	2	3	2	3	4	3	2	2	4	3	2	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr19:50302934G>T	uc002ppn.2	+	10	1394	c.1183G>T	c.(1183-1185)GCC>TCC	p.A395S	AP2A1_uc010enj.1_RNA|AP2A1_uc002ppo.2_Missense_Mutation_p.A395S|AP2A1_uc002ppp.1_5'Flank	NM_014203	NP_055018	O95782	AP2A1_HUMAN	adaptor-related protein complex 2, alpha 1	395					axon guidance|endocytosis|epidermal growth factor receptor signaling pathway|Golgi to endosome transport|intracellular protein transport|negative regulation of epidermal growth factor receptor signaling pathway|nerve growth factor receptor signaling pathway|regulation of defense response to virus by virus|synaptic transmission|viral reproduction	AP-2 adaptor complex|clathrin coat of trans-Golgi network vesicle|cytosol	protein binding|protein transporter activity			ovary(2)	2		all_lung(116;3.24e-07)|Lung NSC(112;1.6e-06)|all_neural(266;0.0459)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.0023)|GBM - Glioblastoma multiforme(134;0.0157)		CCTCCTCTACGCCATGTGTGA	0.632													31	69					3.3946e-10	3.49644e-10	0.080422	1	0		T	50302934	T	T	50302934	3	4	217	1	0	0	0	0	1	0	0	0	739	1087	38	5	1221	5	AP2A1	19	50302934	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	2479810	50302934	8826049	79	107657											
FPR2	2358	broad.mit.edu	37	chr19	52272624	52272624	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggcatgattaaatccagccGtcccttacgggtcctcactg	8	10	10	13	2	1	1	1	1	0	0	4	1	4	1	4	2	2	1	4	2	3	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr19:52272624G>A	uc002pxr.2	+	2	758	c.713G>A	c.(712-714)CGT>CAT	p.R238H	FPR2_uc002pxs.3_Missense_Mutation_p.R238H|FPR2_uc010epf.2_Missense_Mutation_p.R238H	NM_001005738	NP_001005738	P25090	FPR2_HUMAN	formyl peptide receptor-like 1	238	Cytoplasmic (Potential).				cell adhesion|cellular component movement|chemotaxis|inflammatory response	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(3)|ovary(1)	4						AAATCCAGCCGTCCCTTACGG	0.507													10	25					0	0	0.09319	0	0		A	52272624	A	A	52272624	3	1	217	1	0	0	0	0	1	0	0	0	6053	1145	40	1	715	1	FPR2	19	52272624	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	1969690	52272624	6856359	80	107658											
FLRT3	23767	broad.mit.edu	37	chr20	14306395	14306395	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gaagtttccctgatttccagGatagagttgtccttcttagt	8	16	9	8	0	1	2	0	1	1	1	4	4	4	3	3	1	0	2	3	1	3	6			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr20:14306395G>A	uc002wov.1	-	3	2225	c.1758C>T	c.(1756-1758)ATC>ATT	p.I586I	MACROD2_uc002wot.2_Intron|MACROD2_uc002wou.2_Intron|FLRT3_uc002wow.1_Silent_p.I586I	NM_198391	NP_938205	Q9NZU0	FLRT3_HUMAN	fibronectin leucine rich transmembrane protein 3	586	Cytoplasmic (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			kidney(1)	1		Colorectal(1;0.0464)	COAD - Colon adenocarcinoma(2;0.129)	Colorectal(1;0.0393)		TGATTTCCAGGATAGAGTTGT	0.418													8	145					0	0	0.058154	0	0		A	14306395	A	A	14306395	2	1	217	1	0	0	0	0	0	0	0	1	5954	1164	41	4		4	FLRT3	20	14306395	Silent	SNP	G	TCGA-IN-7806-01A-11D-2053-08		14306395	48719125	81	107659											
C20orf195	79025	broad.mit.edu	37	chr20	62187465	62187465	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gctccggtcgccagacccacGgcccttcctggccgactggg	4	6	13	18	4	0	1	0	0	0	1	3	2	2	1	6	4	0	1	6	4	0	1			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chr20:62187465G>A	uc002yfj.2	+	2	541	c.449G>A	c.(448-450)CGG>CAG	p.R150Q	C20orf195_uc002yfk.2_Missense_Mutation_p.R150Q	NM_024059	NP_076964	Q9BVV2	CT195_HUMAN	hypothetical protein LOC79025	150											0	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)			CCAGACCCACGGCCCTTCCTG	0.682													14	11					0	0	0.055883	0	0		A	62187465	A	A	62187465	3	1	217	1	0	0	0	0	1	0	0	0	2103	1116	39	1	451	1	C20orf195	20	62187465	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	47881070	62187465	838055	82	107660											
MCF2	4168	broad.mit.edu	37	chrX	138724648	138724648	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcattccttctgaacctcatCttgcctctccggggatttgc	5	14	8	14	1	4	1	1	1	3	0	6	2	5	2	4	2	3	1	4	2	1	4			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chrX:138724648C>A	uc004fau.2	-	1	324	c.30G>T	c.(28-30)AAG>AAT	p.K10N	MCF2_uc004fav.2_Missense_Mutation_p.K10N|MCF2_uc011mwl.1_Missense_Mutation_p.K10N|MCF2_uc010nsh.1_Missense_Mutation_p.K10N|MCF2_uc011mwm.1_Missense_Mutation_p.K10N|MCF2_uc011mwn.1_Intron|MCF2_uc004faw.2_Intron|MCF2_uc011mwo.1_Intron	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	10	CRAL-TRIO.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					TGAACCTCATCTTGCCTCTCC	0.493													111	51					3.67666e-70	4.16149e-70	0.048971	1	0		A	138724648	A	A	138724648	3	1	217	1	0	0	0	0	1	0	0	0	9396	912	32	5	2927	5	MCF2	23	138724648	Missense_Mutation	SNP	C	TCGA-IN-7806-01A-11D-2053-08		138724648	16545912	83	107661											
SLITRK2	84631	broad.mit.edu	37	chrX	144906417	144906417	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccaccctttactgcaagctaAgccgcaatcagaaccggact	12	7	7	15	2	1	1	1	0	0	1	1	2	1	2	4	1	5	3	4	1	5	3			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chrX:144906417A>C	uc004fcd.2	+	5	3464	c.2474A>C	c.(2473-2475)AAG>ACG	p.K825T	SLITRK2_uc010nsp.2_Missense_Mutation_p.K825T|SLITRK2_uc010nso.2_Missense_Mutation_p.K825T|SLITRK2_uc011mwq.1_Missense_Mutation_p.K825T|SLITRK2_uc011mwr.1_Missense_Mutation_p.K825T|SLITRK2_uc011mws.1_Missense_Mutation_p.K825T|SLITRK2_uc004fcg.2_Missense_Mutation_p.K825T|SLITRK2_uc011mwt.1_Missense_Mutation_p.K825T|CXorf1_uc004fch.2_5'Flank	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	825	Cytoplasmic (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CTGCAAGCTAAGCCGCAATCA	0.448													45	27					0	0	0.048971	0	0		C	144906417	C	C	144906417	3	2	217	1	0	0	0	0	1	0	0	0	14768	72	3	5	2476	5	SLITRK2	23	144906417	Missense_Mutation	SNP	A	TCGA-IN-7806-01A-11D-2053-08	6181769	144906417	10364143	84	107662											
ATP2B3	492	broad.mit.edu	37	chrX	152807375	152807375	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tggtgggggacattgcccagGtcaagtacggtgagtgccct	7	9	16	9	1	1	1	1	1	0	0	1	2	1	2	2	5	3	1	2	5	2	2			TCGA-IN-7806-01A-11D-2053-08	TCGA-IN-7806-11A-01D-2053-08									Somatic	Phase_I	Capture				Illumina GAIIx	576a1741-8c65-40da-9f0f-b2ca805d70f3	e58e46f5-292f-4f08-ab37-f1d7f43c5a23	g.chrX:152807375G>A	uc004fht.1	+	3	781	c.655G>A	c.(655-657)GTC>ATC	p.V219I	ATP2B3_uc004fhs.1_Missense_Mutation_p.V219I	NM_001001344	NP_001001344	Q16720	AT2B3_HUMAN	plasma membrane calcium ATPase 3 isoform 3b	219	Cytoplasmic (Potential).				ATP biosynthetic process|platelet activation	integral to membrane|plasma membrane	ATP binding|calcium-transporting ATPase activity|calmodulin binding|metal ion binding			pancreas(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					CATTGCCCAGGTCAAGTACGG	0.637													9	58					0	0	0.069234	0	0		A	152807375	A	A	152807375	3	1	217	1	0	0	0	0	1	0	0	0	1142	1261	44	4	665	4	ATP2B3	23	152807375	Missense_Mutation	SNP	G	TCGA-IN-7806-01A-11D-2053-08	7900958	152807375	2463185	85	107663											
ALDH4A1	8659	broad.mit.edu	37	chr1	19203948	19203948	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actgtgctcctccagcagccGccctttgatctgcggccaca	6	9	9	17	2	1	1	0	1	1	0	3	1	3	1	5	1	4	2	5	1	0	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:19203948G>A	uc001bbb.2	-	10	1375	c.1099C>T	c.(1099-1101)CGG>TGG	p.R367W	ALDH4A1_uc010ocu.1_Missense_Mutation_p.R307W|ALDH4A1_uc001bbc.2_Missense_Mutation_p.R367W	NM_170726	NP_733844	P30038	AL4A1_HUMAN	aldehyde dehydrogenase 4A1 isoform a precursor	367					proline biosynthetic process|proline catabolic process	mitochondrial matrix	1-pyrroline-5-carboxylate dehydrogenase activity|aldehyde dehydrogenase (NAD) activity|electron carrier activity				0		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00479)|BRCA - Breast invasive adenocarcinoma(304;3.67e-05)|Kidney(64;0.000182)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	NADH(DB00157)	TCCAGCAGCCGCCCTTTGATC	0.687													6	6					0	0	0.02938	0	0		A	19203948	A	A	19203948	3	1	218	1	0	0	0	0	1	0	0	0	501	1086	38	1	616	1	ALDH4A1	1	19203948	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08		19203948	230046673	1	107664											
MACF1	23499	broad.mit.edu	37	chr1	39919394	39919394	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tttaggaattcatgaagaaaGtagaagaaaagcgagtggac	18	8	12	3	1	1	4	1	1	0	3	1	7	1	6	0	2	1	1	0	2	8	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:39919394G>T	uc010oiu.1	+	53	16218	c.16087G>T	c.(16087-16089)GTA>TTA	p.V5363L	MACF1_uc010ois.1_Missense_Mutation_p.V4861L	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CATGAAGAAAGTAGAAGAAAA	0.408													15	101					0.00244969	0.00253845	0.020292	1	0		T	39919394	T	T	39919394	3	4	218	1	0	0	0	0	1	0	0	0	9162	1029	36	5	21066	5	MACF1	1	39919394	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	20715446	39919394	209331227	2	107665											
HIVEP3	59269	broad.mit.edu	37	chr1	42047371	42047371	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctggcggggccacccgcGctggtggagccactggggct	3	7	17	14	3	1	0	0	0	1	0	2	1	1	1	3	7	1	2	3	7	0	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:42047371G>A	uc001cgz.3	-	4	4311	c.3098C>T	c.(3097-3099)GCG>GTG	p.A1033V	HIVEP3_uc001cha.3_Missense_Mutation_p.A1033V|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	1033	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6	Ovarian(52;0.00769)|all_hematologic(146;0.109)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0367)				GGCCACCCGCGCTGGTGGAGC	0.587													13	43					0	0	0.013537	0	0		A	42047371	A	A	42047371	3	1	218	1	0	0	0	0	1	0	0	0	7204	1087	38	1	4146	1	HIVEP3	1	42047371	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	2127977	42047371	207203250	3	107666											
RBM15	64783	broad.mit.edu	37	chr1	110883915	110883915	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tggaccgggacagaggtgatCgagatctgcccagcagcaga	11	5	15	10	2	1	4	0	1	1	3	2	7	1	6	2	3	3	2	2	3	0	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:110883915C>G	uc001dzl.1	+	1	1971	c.1888C>G	c.(1888-1890)CGA>GGA	p.R630G	RBM15_uc001dzm.1_Missense_Mutation_p.R630G|uc001dzj.2_5'Flank	NM_022768	NP_073605	Q96T37	RBM15_HUMAN	RNA binding motif protein 15	630	Arg-rich.				interspecies interaction between organisms	nucleus	nucleotide binding|protein binding|RNA binding			ovary(3)	3		all_cancers(81;2.89e-06)|all_epithelial(167;2.96e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)|Breast(1374;0.0634)		BRCA - Breast invasive adenocarcinoma(282;0.000224)|Epithelial(280;0.000476)|Kidney(133;0.000539)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|all cancers(265;0.00144)|Lung(183;0.0238)|Colorectal(144;0.103)|LUSC - Lung squamous cell carcinoma(189;0.135)		CAGAGGTGATCGAGATCTGCC	0.602			T	MKL1	acute megakaryocytic leukemia								3	36					0	0	0.004672	0	0		G	110883915	G	G	110883915	3	3	218	1	0	0	0	0	1	0	0	0	13141	876	31	5	1890	5	RBM15	1	110883915	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	68836544	110883915	138366706	4	107667											
HIST2H3D	653604	broad.mit.edu	37	chr1	149785222	149785222	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcgacttgcgggcagtctgCttagtacgggccatgctgtc	5	11	14	11	3	1	0	0	0	1	0	3	1	1	0	1	2	4	4	1	2	2	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:149785222C>G	uc010pbl.1	-	1	15	c.15G>C	c.(13-15)AAG>AAC	p.K5N	HIST2H2BF_uc010pbj.1_5'Flank|HIST2H2BF_uc010pbk.1_5'Flank|HIST2H2BF_uc001esr.2_5'Flank	NM_001123375	NP_001116847	Q71DI3	H32_HUMAN	histone cluster 2, H3d	5					blood coagulation|nucleosome assembly	nucleoplasm|nucleosome	DNA binding|protein binding				0						GGGCAGTCTGCTTAGTACGGG	0.572													6	60					0	0	0.00308	0	0		G	149785222	G	G	149785222	3	3	218	1	0	0	0	0	1	0	0	0	7197	796	28	5	397	5	HIST2H3D	1	149785222	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	38901307	149785222	99465399	5	107668											
SELENBP1	8991	broad.mit.edu	37	chr1	151338282	151338282	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	gccagcccttcactttcttgGggggcacctggatcaccttc	5	11	10	15	0	3	0	2	0	1	0	4	1	3	1	4	4	1	1	4	4	0	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:151338282G>A	uc001exx.2	-	8	931	c.884C>T	c.(883-885)CCC>CTC	p.P295L	SELENBP1_uc010pcy.1_Missense_Mutation_p.P337L|SELENBP1_uc001exy.2_Missense_Mutation_p.P192L|SELENBP1_uc001exz.2_Missense_Mutation_p.P192L|SELENBP1_uc010pcz.1_Missense_Mutation_p.P233L|SELENBP1_uc009wms.2_Missense_Mutation_p.P131L|SELENBP1_uc009wmt.2_Missense_Mutation_p.P192L|SELENBP1_uc001eya.2_Missense_Mutation_p.P231L|SELENBP1_uc009wmu.2_Missense_Mutation_p.P192L	NM_003944	NP_003935	Q13228	SBP1_HUMAN	selenium binding protein 1	295					protein transport	cytosol|membrane|nucleolus	protein binding|selenium binding				0	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)			CACTTTCTTGGGGGGCACCTG	0.547													26	237					0	0	0.037714	0	0		A	151338282	A	A	151338282	3	1	218	1	0	0	0	0	1	0	0	0	14039	1232	43	4	554	4	SELENBP1	1	151338282	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	1553060	151338282	97912339	6	107669											
CHRNB2	1141	broad.mit.edu	37	chr1	154542274	154542274	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttcctccctgcagcatgagCgggagcagatcatgaccacc	9	7	10	15	1	1	3	1	2	0	1	3	4	3	4	4	1	4	3	4	1	0	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:154542274C>T	uc001ffg.2	+	3	481	c.217C>T	c.(217-219)CGG>TGG	p.R73W		NM_000748	NP_000739	P17787	ACHB2_HUMAN	neuronal nicotinic acetylcholine receptor beta 2	73	Extracellular (Potential).				B cell activation|behavioral response to nicotine|calcium ion transport|central nervous system projection neuron axonogenesis|lateral geniculate nucleus development|locomotory behavior|membrane depolarization|memory|negative regulation of action potential|optic nerve morphogenesis|positive regulation of B cell proliferation|positive regulation of dopamine secretion|regulation of circadian sleep/wake cycle, REM sleep|regulation of dendrite morphogenesis|regulation of dopamine metabolic process|regulation of synaptogenesis|response to cocaine|response to ethanol|response to hypoxia|sensory perception of pain|sensory perception of sound|smooth muscle contraction|social behavior|synaptic transmission involved in micturition|synaptic transmission, cholinergic|vestibulocochlear nerve development|visual learning|visual perception	cell junction|external side of plasma membrane|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0	all_lung(78;2.22e-29)|Lung NSC(65;3.66e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		LUSC - Lung squamous cell carcinoma(543;0.185)		Nicotine(DB00184)	GCAGCATGAGCGGGAGCAGAT	0.607													39	70					0	0	0.01441	0	0		T	154542274	T	T	154542274	3	4	218	1	0	0	0	0	1	0	0	0	3394	759	27	1	227	1	CHRNB2	1	154542274	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	3203992	154542274	94708347	7	107670											
IGSF8	93185	broad.mit.edu	37	chr1	160062789	160062789	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	aagccgggtcccagaccctcGaacataggctttggcgaggc	9	6	13	13	3	0	1	0	0	0	1	2	3	1	1	3	4	2	1	3	4	3	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:160062789G>A	uc001fva.2	-	4	1282	c.1237C>T	c.(1237-1239)CGA>TGA	p.R413*	IGSF8_uc001fuz.2_Nonsense_Mutation_p.R413*|IGSF8_uc009wtf.2_Nonsense_Mutation_p.R413*	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	413	Ig-like C2-type 3.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CCAGACCCTCGAACATAGGCT	0.652													8	44					0	0	0.004482	0	0		A	160062789	A	A	160062789	4	1	218	1	0	0	0	0	0	1	0	0	7620	1066	37	1	616	1	IGSF8	1	160062789	Nonsense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	5520515	160062789	89187832	8	107671											
PIK3C2B	5287	broad.mit.edu	37	chr1	204401491	204401491	+	Missense_Mutation	SNP	A	G	G	1	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	gattatggatgaaaaaattgAgctttgtggctacactgccc	12	12	10	7	0	0	2	0	2	0	0	0	4	0	3	1	2	3	2	1	2	5	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:204401491A>G	uc001haw.2	-	28	4471	c.3992T>C	c.(3991-3993)CTC>CCC	p.L1331P	PIK3C2B_uc010pqv.1_Missense_Mutation_p.L1303P	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta	1331	PI3K/PI4K.				cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			GAAAAAATTGAGCTTTGTGGC	0.502													16	51					0	0	0.0333	0	0		G	204401491	G	G	204401491	3	3	218	1	0	0	0	0	1	0	0	0	11929	304	11	3	940	3	PIK3C2B	1	204401491	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08	44338702	204401491	44849130	9	107672											
OR1C1	26188	broad.mit.edu	37	chr1	247921378	247921378	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cacacacagaaggaggctgtCcatattcacaaaagaaacga	18	5	8	10	1	1	2	1	0	0	2	2	4	2	3	1	2	1	1	1	2	5	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:247921378C>A	uc010pza.1	-	1	331	c.331G>T	c.(331-333)GAC>TAC	p.D111Y		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	111	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			AGGAGGCTGTCCATATTCACA	0.478													4	36					2.56e-06	2.816e-06	0.009096	1	0		A	247921378	A	A	247921378	3	1	218	1	0	0	0	0	1	0	0	0	10971	855	30	5	615	5	OR1C1	1	247921378	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	43519887	247921378	1329243	10	107673											
OR2T12	127064	broad.mit.edu	37	chr1	248458842	248458842	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggtgtggttaaagagtccTaggagaataaaatctggggt	12	11	14	4	0	1	2	0	0	1	2	2	3	2	2	1	5	0	1	1	5	6	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr1:248458842T>C	uc010pzj.1	-	1	39	c.39A>G	c.(37-39)CTA>CTG	p.L13L		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			TAAAGAGTCCTAGGAGAATAA	0.448													5	110					0	0	0.02938	0	0		C	248458842	C	C	248458842	2	2	218	1	0	0	0	0	0	0	0	1	11038	1509	53	3		3	OR2T12	1	248458842	Silent	SNP	T	TCGA-IN-7808-01A-11D-2201-08	537464	248458842	791779	11	107674											
E2F6	1876	broad.mit.edu	37	chr2	11587867	11587867	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caaatagacatcgataggtcCgttggtgctccttatgtgca	10	12	10	9	2	0	1	0	0	0	1	3	2	2	1	2	2	2	3	2	2	4	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr2:11587867C>T	uc002rbh.2	-	6	977	c.685G>A	c.(685-687)GGA>AGA	p.G229R	E2F6_uc002rbe.2_Missense_Mutation_p.G154R|E2F6_uc002rbf.2_Missense_Mutation_p.G197R|E2F6_uc002rbg.2_Missense_Mutation_p.G154R|E2F6_uc002rbi.2_Missense_Mutation_p.G154R|E2F6_uc010yjl.1_RNA	NM_198256	NP_937987	O75461	E2F6_HUMAN	E2F transcription factor 6	229	Transcription repression.			G -> E (in Ref. 8; AAC14694).	negative regulation of transcription from RNA polymerase II promoter	MLL1 complex|transcription factor complex	DNA binding|transcription corepressor activity			skin(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.114)|OV - Ovarian serous cystadenocarcinoma(76;0.168)		TCGATAGGTCCGTTGGTGCTC	0.433													3	61					0	0	0.004672	0	0		T	11587867	T	T	11587867	3	4	218	1	0	0	0	0	1	0	0	0	4877	661	23	1	168	1	E2F6	2	11587867	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		11587867	231611506	12	107675											
CAD	790	broad.mit.edu	37	chr2	27440776	27440776	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggcatggtcggctaccccgaGgccctcaccgatccctccta	6	7	10	18	3	1	0	1	0	0	0	4	2	3	0	6	4	1	2	6	4	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr2:27440776G>T	uc002rji.2	+	2	276	c.114G>T	c.(112-114)GAG>GAT	p.E38D	CAD_uc010eyw.2_Missense_Mutation_p.E38D	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	38	GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	GCTACCCCGAGGCCCTCACCG	0.587													22	73					9.86323e-18	1.1194e-17	0.021523	1	0		T	27440776	T	T	27440776	3	4	218	1	0	0	0	0	1	0	0	0	2568	991	35	5	120	5	CAD	2	27440776	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	15852909	27440776	215758597	13	107676											
MSH2	4436	broad.mit.edu	37	chr2	47657028	47657028	+	Nonsense_Mutation	SNP	T	G	G	0	1	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	caagattgttaccgactctaTcagggtataaatcaactacc	14	11	6	10	1	3	1	2	0	1	1	3	2	3	1	2	1	3	2	2	1	8	6	rs63750132		TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr2:47657028T>G	uc002rvy.1	+	7	1292	c.1224T>G	c.(1222-1224)TAT>TAG	p.Y408*	MSH2_uc010yoh.1_Nonsense_Mutation_p.Y342*|MSH2_uc002rvz.2_Nonsense_Mutation_p.Y408*|MSH2_uc010fbg.2_Nonsense_Mutation_p.Y218*	NM_000251	NP_000242	P43246	MSH2_HUMAN	mutS homolog 2	408					B cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|double-strand break repair|intra-S DNA damage checkpoint|isotype switching|maintenance of DNA repeat elements|male gonad development|meiotic gene conversion|meiotic mismatch repair|negative regulation of neuron apoptosis|negative regulation of reciprocal meiotic recombination|positive regulation of helicase activity|postreplication repair|response to UV-B|response to X-ray|somatic hypermutation of immunoglobulin genes	MutSalpha complex|MutSbeta complex|nuclear chromosome	ATP binding|DNA-dependent ATPase activity|double-strand/single-strand DNA junction binding|guanine/thymine mispair binding|loop DNA binding|protein C-terminus binding|protein homodimerization activity|protein kinase binding|Y-form DNA binding	p.?(1)		large_intestine(33)|haematopoietic_and_lymphoid_tissue(6)|endometrium(4)|ovary(3)|cervix(2)|central_nervous_system(2)|stomach(1)|small_intestine(1)|breast(1)|skin(1)|prostate(1)	55		all_hematologic(82;0.0359)|Acute lymphoblastic leukemia(82;0.175)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)			ACCGACTCTATCAGGGTATAA	0.348			D|Mis|N|F|S		colorectal|endometrial|ovarian	colorectal|endometrial|ovarian		MMR	Lynch_syndrome|Muir-Torre_syndrome|Turcot_syndrome|Constitutional_Mismatch_Repair_Deficiency_Syndrome				19	69					0	0	0.010504	0	0		G	47657028	G	G	47657028	4	3	218	1	0	0	0	0	0	1	0	0	9888	1442	50	5	1250	5	MSH2	2	47657028	Nonsense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08	20216252	47657028	195542345	14	107677											
NRXN1	9378	broad.mit.edu	37	chr2	50280681	50280681	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggctggccctgctctttccCgccaattattatggttgctt	4	15	10	12	1	1	0	0	0	1	0	2	0	2	0	3	3	2	4	3	3	3	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr2:50280681C>T	uc010fbp.2	-	4	1468	c.661G>A	c.(661-663)GGG>AGG	p.G221R	NRXN1_uc002rxb.3_Missense_Mutation_p.G958R|NRXN1_uc010fbq.2_Missense_Mutation_p.G1326R|NRXN1_uc002rxe.3_Missense_Mutation_p.G1256R	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	221	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			TGCTCTTTCCCGCCAATTATT	0.448													5	95					0	0	0.021553	0	0		T	50280681	T	T	50280681	3	4	218	1	0	0	0	0	1	0	0	0	10684	652	23	1	679	1	NRXN1	2	50280681	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	2623653	50280681	192918692	15	107678											
IL18R1	8809	broad.mit.edu	37	chr2	102992506	102992506	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taatatcaccaaaaccttcaAtataacaatagtggaaggta	19	10	5	7	0	2	0	2	0	0	0	2	1	2	1	2	2	2	1	2	2	11	7			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr2:102992506A>G	uc002tbw.3	+	5	758	c.608A>G	c.(607-609)AAT>AGT	p.N203S	IL18R1_uc010ywc.1_Missense_Mutation_p.N203S|IL18R1_uc010ywd.1_Missense_Mutation_p.N48S|IL18R1_uc010fiy.2_Missense_Mutation_p.N203S	NM_003855	NP_003846	Q13478	IL18R_HUMAN	interleukin 18 receptor 1 precursor	203	Ig-like C2-type 2.|Extracellular (Potential).				innate immune response	integral to membrane|plasma membrane	interleukin-1 receptor activity			ovary(2)|pancreas(1)	3						AAAACCTTCAATATAACAATA	0.338													13	33					0	0	0.028581	0	0		G	102992506	G	G	102992506	3	3	218	1	0	0	0	0	1	0	0	0	7663	101	4	3	622	3	IL18R1	2	102992506	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08	52711825	102992506	140206867	16	107679											
OSBPL6	114880	broad.mit.edu	37	chr2	179197640	179197640	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgcatgggtctccaaactgCgacatcatcggttgtatcgt	9	12	10	10	3	2	0	1	0	1	0	5	1	2	0	1	2	3	3	1	2	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr2:179197640C>T	uc002ulx.2	+	8	907	c.529C>T	c.(529-531)CGA>TGA	p.R177*	OSBPL6_uc002ulw.2_Nonsense_Mutation_p.R177*|OSBPL6_uc002uly.2_Nonsense_Mutation_p.R177*|OSBPL6_uc010zfe.1_Nonsense_Mutation_p.R177*|OSBPL6_uc002ulz.2_Nonsense_Mutation_p.R177*|OSBPL6_uc002uma.2_Nonsense_Mutation_p.R156*	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	177	PH.				lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			CTCCAAACTGCGACATCATCG	0.433													26	121					0	0	0.037714	0	0		T	179197640	T	T	179197640	4	4	218	1	0	0	0	0	0	1	0	0	11300	760	27	1	594	1	OSBPL6	2	179197640	Nonsense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	76205134	179197640	64001733	17	107680											
TTN	7273	broad.mit.edu	37	chr2	179669352	179669352	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtaacggctgcgtaaacgtCggtgcttgagttgtcatctt	7	14	12	8	4	2	1	1	1	1	0	3	1	2	1	0	2	4	5	0	2	3	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr2:179669352C>T	uc002und.2	-	2	243	c.18G>A	c.(16-18)CCG>CCA	p.P6P	TTN_uc010zfg.1_Silent_p.P6P|TTN_uc010zfh.1_Silent_p.P6P|TTN_uc010zfi.1_Silent_p.P6P|TTN_uc010zfj.1_Silent_p.P6P|TTN_uc002unb.2_Silent_p.P6P			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	6							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCGTAAACGTCGGTGCTTGAG	0.463													5	43					0	0	0.00308	0	0		T	179669352	T	T	179669352	2	4	218	1	0	0	0	0	0	0	0	1	16761	871	31	1		1	TTN	2	179669352	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	471712	179669352	63530021	18	107681											
BAP1	8314	broad.mit.edu	37	chr3	52443593	52443593	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgacatttgctctgaaggtcGtagatctcctccacttgcac	8	13	8	12	1	2	3	0	2	2	1	5	3	3	3	2	1	2	3	2	1	2	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr3:52443593G>T	uc003ddx.2	-	3	214	c.99C>A	c.(97-99)TAC>TAA	p.Y33*	PHF7_uc003ddy.2_5'Flank|PHF7_uc003ddz.2_5'Flank	NM_004656	NP_004647	Q92560	BAP1_HUMAN	BRCA1 associated protein-1	33					monoubiquitinated histone H2A deubiquitination|negative regulation of cell proliferation|protein K48-linked deubiquitination|regulation of cell cycle|regulation of cell growth|ubiquitin-dependent protein catabolic process	cytoplasm|nucleolus|PR-DUB complex	chromatin binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			pleura(32)|eye(28)|lung(2)|ovary(2)|breast(1)	65				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)		TCTGAAGGTCGTAGATCTCCT	0.612			N|Mis|F|S|O		uveal melanoma|breast|NSCLC								105	253					1.81142e-54	2.10596e-54	0.01441	1	0		T	52443593	T	T	52443593	4	4	218	1	0	0	0	0	0	1	0	0	1312	1140	40	5	2150	5	BAP1	3	52443593	Nonsense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08		52443593	145578837	19	107682											
LRIG1	26018	broad.mit.edu	37	chr3	66436708	66436708	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	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	ttctggctgggtgatgatctGtggcttcaggaagtcatctg	6	14	14	7	0	5	2	2	2	3	0	5	3	5	3	0	4	0	2	0	4	1	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr3:66436708G>A	uc003dmx.2	-	13	1500	c.1486C>T	c.(1486-1488)CAG>TAG	p.Q496*	SLC25A26_uc011bft.1_RNA|LRIG1_uc011bfu.1_Nonsense_Mutation_p.Q116*|LRIG1_uc003dmw.2_Nonsense_Mutation_p.Q162*|LRIG1_uc010hnz.2_Nonsense_Mutation_p.Q212*|LRIG1_uc010hoa.2_Nonsense_Mutation_p.Q520*	NM_015541	NP_056356	Q96JA1	LRIG1_HUMAN	leucine-rich repeats and immunoglobulin-like	496	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane				skin(3)|ovary(2)	5		Lung NSC(201;0.0101)		BRCA - Breast invasive adenocarcinoma(55;0.00047)		GTGATGATCTGTGGCTTCAGG	0.537													25	156					0	0	0.021523	0	0		A	66436708	A	A	66436708	4	1	218	1	0	0	0	0	0	1	0	0	8962	1386	48	4	1823	4	LRIG1	3	66436708	Nonsense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	13993115	66436708	131585722	20	107683											
KIAA2018	205717	broad.mit.edu	37	chr3	113376724	113376724	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cagattaaccgttgcaggcaCagttgtttgctctgaagttg	9	13	11	8	1	1	2	0	1	1	1	1	2	1	2	1	1	3	7	1	1	2	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr3:113376724C>T	uc003eam.2	-	7	4216	c.3805G>A	c.(3805-3807)GTG>ATG	p.V1269M	KIAA2018_uc003eal.2_Missense_Mutation_p.V1213M	NM_001009899	NP_001009899	Q68DE3	K2018_HUMAN	hypothetical protein LOC205717	1269					regulation of transcription, DNA-dependent	membrane|nucleus	calcium ion binding|DNA binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity			skin(2)|ovary(1)	3						GTTGCAGGCACAGTTGTTTGC	0.468													10	70					0	0	0.006214	0	0		T	113376724	T	T	113376724	3	4	218	1	0	0	0	0	1	0	0	0	8284	478	17	4	2936	4	KIAA2018	3	113376724	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	46940016	113376724	84645706	21	107684											
STAG1	10274	broad.mit.edu	37	chr3	136096538	136096538	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gtattaacattagacaggcaCtgctggcaaacagccaaaaa	17	7	8	9	0	0	1	0	0	0	1	0	1	0	1	1	2	4	4	1	2	6	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr3:136096538C>A	uc003era.1	-	23	2626	c.2334G>T	c.(2332-2334)CAG>CAT	p.Q778H	STAG1_uc003erb.1_Missense_Mutation_p.Q778H|STAG1_uc003erc.1_Missense_Mutation_p.Q552H	NM_005862	NP_005853	Q8WVM7	STAG1_HUMAN	stromal antigen 1	778					cell division|chromosome segregation|mitotic metaphase/anaphase transition|mitotic prometaphase	cell junction|chromatin|chromosome, centromeric region|nucleoplasm	protein binding			ovary(2)	2						TAGACAGGCACTGCTGGCAAA	0.358													8	60					0.000274275	0.000294897	0.004482	1	0		A	136096538	A	A	136096538	3	1	218	1	0	0	0	0	1	0	0	0	15267	564	20	5	1490	5	STAG1	3	136096538	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	22719814	136096538	61925892	22	107685											
CEP70	80321	broad.mit.edu	37	chr3	138248265	138248265	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcatccagatttctgtagtcGttttcttcttctgactgact	6	18	7	10	1	4	3	0	2	4	1	6	3	5	3	1	0	0	3	1	0	1	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr3:138248265G>A	uc003esl.2	-	9	930	c.732C>T	c.(730-732)AAC>AAT	p.N244N	CEP70_uc011bmk.1_Silent_p.N224N|CEP70_uc011bml.1_Silent_p.N226N|CEP70_uc011bmm.1_Silent_p.N92N|CEP70_uc003esm.2_Silent_p.N244N	NM_024491	NP_077817	Q8NHQ1	CEP70_HUMAN	centrosomal protein 70 kDa	244					G2/M transition of mitotic cell cycle	centrosome|cytosol	protein binding			skin(1)	1						TTCTGTAGTCGTTTTCTTCTT	0.289													15	62					0	0	0.006122	0	0		A	138248265	A	A	138248265	2	1	218	1	0	0	0	0	0	0	0	1	3262	1136	40	1		1	CEP70	3	138248265	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	2151727	138248265	59774165	23	107686											
RSRC1	51319	broad.mit.edu	37	chr3	157920896	157920896	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcgtctccgttctcatagtcGtagcagtgaaaggtccagtc	8	12	10	11	3	2	1	1	1	2	0	8	1	3	1	2	1	1	3	2	1	3	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr3:157920896G>T	uc003fbt.2	+	4	467	c.356G>T	c.(355-357)CGT>CTT	p.R119L	RSRC1_uc011bou.1_Intron|RSRC1_uc003fbu.1_Missense_Mutation_p.R119L|RSRC1_uc003fbv.2_Intron	NM_016625	NP_057709	Q96IZ7	RSRC1_HUMAN	arginine/serine-rich coiled-coil 1	119	Arg/Ser-rich.				nucleocytoplasmic transport	cytoplasm|nuclear speck	protein binding				0			Lung(72;0.00416)|LUSC - Lung squamous cell carcinoma(72;0.00575)			TCTCATAGTCGTAGCAGTGAA	0.378													4	45					1.23904e-05	1.34229e-05	0.014758	1	0		T	157920896	T	T	157920896	3	4	218	1	0	0	0	0	1	0	0	0	13739	1145	40	5	366	5	RSRC1	3	157920896	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	19672631	157920896	40101534	24	107687											
FXR1	8087	broad.mit.edu	37	chr3	180685947	180685947	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgagacagccgacatcagcGtgacagcaggagacgcccag	12	3	13	13	4	1	3	1	1	0	2	2	6	1	3	2	1	3	1	2	1	0	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr3:180685947G>A	uc003fkq.2	+	14	1329	c.1307G>A	c.(1306-1308)CGT>CAT	p.R436H	FXR1_uc003fkp.2_Missense_Mutation_p.R351H|FXR1_uc003fkr.2_Missense_Mutation_p.R436H|FXR1_uc011bqj.1_Missense_Mutation_p.R350H|FXR1_uc003fks.2_Missense_Mutation_p.R379H|FXR1_uc011bqk.1_Missense_Mutation_p.R387H|FXR1_uc011bql.1_Missense_Mutation_p.R423H	NM_005087	NP_005078	P51114	FXR1_HUMAN	fragile X mental retardation-related protein 1	436					apoptosis|cell differentiation|muscle organ development	nucleolus|polysome				breast(1)	1	all_cancers(143;6.07e-14)|Ovarian(172;0.0212)		Epithelial(37;3.05e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.4e-22)			CGACATCAGCGTGACAGCAGG	0.547													8	74					0	0	0.006214	0	0		A	180685947	A	A	180685947	3	1	218	1	0	0	0	0	1	0	0	0	6129	1145	40	1	1361	1	FXR1	3	180685947	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	22765051	180685947	17336483	25	107688											
MFSD7	84179	broad.mit.edu	37	chr4	680390	680390	+	Nonsense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	aatggggtggataccacgagGtagaccagtgacagccagtt	12	7	14	8	1	0	2	0	1	0	1	0	4	0	3	3	4	2	2	3	4	3	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr4:680390G>C	uc003gay.2	-	2	282	c.225C>G	c.(223-225)TAC>TAG	p.Y75*	MFSD7_uc003gaw.2_5'Flank|MFSD7_uc003gax.2_Nonsense_Mutation_p.Y75*|MFSD7_uc003gaz.2_Nonsense_Mutation_p.Y53*|MFSD7_uc003gba.2_Nonsense_Mutation_p.Y75*|MFSD7_uc003gbb.1_Nonsense_Mutation_p.Y11*	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	75	Helical; (Potential).				transmembrane transport	integral to membrane					0						ATACCACGAGGTAGACCAGTG	0.627													13	76					0	0	0.020292	0	0		C	680390	C	C	680390	4	2	218	1	0	0	0	0	0	1	0	0	9555	1256	44	5	1490	5	MFSD7	4	680390	Nonsense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08		680390	190473886	26	107689											
DCAF4L1	285429	broad.mit.edu	37	chr4	41984892	41984892	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccgtactctgcctccgaggaCgacattcccagcgtggcctt	6	9	10	16	4	1	0	0	0	1	0	3	3	3	1	5	2	3	1	5	2	1	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr4:41984892C>T	uc003gwk.2	+	1	1180	c.1083C>T	c.(1081-1083)GAC>GAT	p.D361D		NM_001029955	NP_001025126	Q3SXM0	DC4L1_HUMAN	WD repeat domain 21B	361										skin(1)	1						CCTCCGAGGACGACATTCCCA	0.627													9	53					0	0	0.008291	0	0		T	41984892	T	T	41984892	2	4	218	1	0	0	0	0	0	0	0	1	4274	535	19	1		1	DCAF4L1	4	41984892	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	41304502	41984892	149169384	27	107690											
KCTD8	386617	broad.mit.edu	37	chr4	44450216	44450216	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtcccgcagataatccagcaCgtacctgaaaaggaagccgt	13	6	10	12	3	0	2	0	1	0	1	2	3	2	3	4	1	3	3	4	1	5	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr4:44450216C>T	uc003gwu.2	-	1	609	c.325G>A	c.(325-327)GTG>ATG	p.V109M		NM_198353	NP_938167	Q6ZWB6	KCTD8_HUMAN	potassium channel tetramerisation domain	109	BTB.					cell junction|postsynaptic membrane|presynaptic membrane|voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(2)|ovary(1)	3						TAATCCAGCACGTACCTGAAA	0.567										HNSCC(17;0.042)			4	27					0	0	0.009096	0	0		T	44450216	T	T	44450216	3	4	218	1	0	0	0	0	1	0	0	0	8131	536	19	1	1104	1	KCTD8	4	44450216	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	2465324	44450216	146704060	28	107691											
NEUROG2	63973	broad.mit.edu	37	chr4	113436204	113436204	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tggtgagcttggcgtcctcgGggaacgtggggagcacctcg	5	8	18	10	4	0	1	0	1	0	0	3	3	1	3	2	6	3	2	2	6	1	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr4:113436204G>A	uc003ias.2	-	2	755	c.428C>T	c.(427-429)CCC>CTC	p.P143L		NM_024019	NP_076924	Q9H2A3	NGN2_HUMAN	neurogenin 2	143	Helix-loop-helix motif.				positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent	nucleus	E-box binding			skin(2)|central_nervous_system(1)	3		Ovarian(17;0.156)		OV - Ovarian serous cystadenocarcinoma(123;0.00168)		GGCGTCCTCGGGGAACGTGGG	0.607													4	46					0	0	0.014758	0	0		A	113436204	A	A	113436204	3	1	218	1	0	0	0	0	1	0	0	0	10372	1232	43	4	394	4	NEUROG2	4	113436204	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	68985988	113436204	77718072	29	107692											
KIAA1109	84162	broad.mit.edu	37	chr4	123192559	123192559	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	ctttagccgcagttctagagGaagtcttaatggtggcaata	11	12	11	7	1	2	1	0	0	2	1	2	2	2	2	1	3	1	3	1	3	6	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr4:123192559G>A	uc003ieh.2	+	45	7925	c.7880G>A	c.(7879-7881)GGA>GAA	p.G2627E	KIAA1109_uc003iel.1_Missense_Mutation_p.G562E|KIAA1109_uc003iek.2_Missense_Mutation_p.G1246E	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	2627					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AGTTCTAGAGGAAGTCTTAAT	0.403													7	33					0	0	0.02938	0	0		A	123192559	A	A	123192559	3	1	218	1	0	0	0	0	1	0	0	0	8224	1174	41	4	8058	4	KIAA1109	4	123192559	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	9756355	123192559	67961717	30	107693											
ZNF827	152485	broad.mit.edu	37	chr4	146686173	146686173	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggggacagtgtggcatttcTtatgctccagcagctgttcg	6	13	13	9	1	1	0	0	0	1	0	3	1	2	1	1	3	3	5	1	3	1	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr4:146686173T>C	uc003ikn.2	-	13	3245	c.3197A>G	c.(3196-3198)AAG>AGG	p.K1066R	ZNF827_uc003ikm.2_Missense_Mutation_p.K1066R|ZNF827_uc010iox.2_Missense_Mutation_p.K716R|ZNF827_uc003ikl.2_Missense_Mutation_p.K151R	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	1066	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GTGGCATTTCTTATGCTCCAG	0.493													24	99					0	0	0.021523	0	0		C	146686173	C	C	146686173	3	2	218	1	0	0	0	0	1	0	0	0	18205	1609	56	3	40	3	ZNF827	4	146686173	Missense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08	23493614	146686173	44468103	31	107694											
EDNRA	1909	broad.mit.edu	37	chr4	148463689	148463689	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atgacctcggtccccatgaaCggaacaagcatccagtggaa	13	6	10	12	2	0	2	0	2	0	0	3	4	2	4	4	3	3	1	4	3	4	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr4:148463689C>T	uc003iky.2	+	8	1895	c.1203C>T	c.(1201-1203)AAC>AAT	p.N401N	EDNRA_uc011cid.1_Silent_p.N176N|EDNRA_uc010ipf.1_RNA|EDNRA_uc010ipg.1_Silent_p.N292N	NM_001957	NP_001948	P25101	EDNRA_HUMAN	endothelin receptor type A isoform a precursor	401	Cytoplasmic (Potential).				activation of adenylate cyclase activity|artery smooth muscle contraction|cell proliferation|glucose transport|respiratory gaseous exchange	integral to plasma membrane	endothelin-A receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|breast(1)	2	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.154)	Bosentan(DB00559)	TCCCCATGAACGGAACAAGCA	0.532													10	73					0	0	0.008291	0	0		T	148463689	T	T	148463689	2	4	218	1	0	0	0	0	0	0	0	1	4925	535	19	1		1	EDNRA	4	148463689	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	1777516	148463689	42690587	32	107695											
LMBRD2	92255	broad.mit.edu	37	chr5	36137532	36137532	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ttgcatatgactgcataaaaGgtaagagaatcctagatgga	16	10	10	5	0	0	3	0	1	0	2	1	5	1	4	1	2	2	3	1	2	6	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr5:36137532G>A	uc003jkb.1	-	5	795	c.380C>T	c.(379-381)CCT>CTT	p.P127L		NM_001007527	NP_001007528	Q68DH5	LMBD2_HUMAN	LMBR1 domain containing 2	127	Cytoplasmic (Potential).					integral to membrane					0	all_lung(31;0.000146)		Epithelial(62;0.0396)|Lung(74;0.111)|all cancers(62;0.115)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			CTGCATAAAAGGTAAGAGAAT	0.333													49	66					0	0	0.01441	0	0		A	36137532	A	A	36137532	3	1	218	1	0	0	0	0	1	0	0	0	8860	1000	35	4	1763	4	LMBRD2	5	36137532	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08		36137532	144777728	33	107696											
ST8SIA4	7903	broad.mit.edu	37	chr5	100147763	100147763	+	Nonsense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtgaatttcatcacagaatcTtgtggcaagtgtatacatga	13	13	9	6	0	3	3	2	2	1	1	3	3	3	3	0	1	1	2	0	1	5	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr5:100147763T>A	uc003knk.2	-	5	1196	c.868A>T	c.(868-870)AGA>TGA	p.R290*		NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide	290	Lumenal (Potential).				axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		TCACAGAATCTTGTGGCAAGT	0.363													20	50					0	0	0.016522	0	0		A	100147763	A	A	100147763	4	1	218	1	0	0	0	0	0	1	0	0	15259	1617	56	5	215	5	ST8SIA4	5	100147763	Nonsense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08	64010231	100147763	80767497	34	107697											
PCDHB10	56126	broad.mit.edu	37	chr5	140573656	140573656	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tctccatcaacgcggacaacGgccacctgttcgccctcagg	8	7	9	17	4	3	0	2	0	1	0	5	1	3	1	4	3	2	1	4	3	2	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr5:140573656G>A	uc003lix.2	+	1	1705	c.1531G>A	c.(1531-1533)GGC>AGC	p.G511S		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	511	Cadherin 5.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CGCGGACAACGGCCACCTGTT	0.692													30	124					0	0	0.013726	0	0		A	140573656	A	A	140573656	3	1	218	1	0	0	0	0	1	0	0	0	11554	1116	39	1	1533	1	PCDHB10	5	140573656	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	40425893	140573656	40341604	35	107698											
PCDHGB4	8641	broad.mit.edu	37	chr5	140769437	140769437	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccacgttgcacctggtcttCgccgacagcttgcaggaggt	6	9	13	13	3	1	0	0	0	1	0	2	2	1	1	3	3	3	4	3	3	0	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr5:140769437C>T	uc003lkc.1	+	1	1986	c.1986C>T	c.(1984-1986)TTC>TTT	p.F662F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc011dav.1_Silent_p.F662F	NM_003736	NP_003727	Q9UN71	PCDGG_HUMAN	protocadherin gamma subfamily B, 4 isoform 1	662	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ACCTGGTCTTCGCCGACAGCT	0.657													19	62					0	0	0.007413	0	0		T	140769437	T	T	140769437	2	4	218	1	0	0	0	0	0	0	0	1	11584	883	31	1		1	PCDHGB4	5	140769437	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	195781	140769437	40145823	36	107699											
PCDHGB6	56100	broad.mit.edu	37	chr5	140788444	140788444	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacccaccaagaagtgccacCgctcacatagaaatttctgt	13	8	7	13	1	2	2	1	0	1	2	2	3	2	2	4	0	1	1	4	0	4	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr5:140788444C>T	uc003lkj.1	+	1	675	c.675C>T	c.(673-675)ACC>ACT	p.T225T	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lki.1_Silent_p.T225T	NM_018926	NP_061749	Q9Y5F9	PCDGI_HUMAN	protocadherin gamma subfamily B, 6 isoform 1	225	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAGTGCCACCGCTCACATAG	0.473													5	11					0	0	0.021553	0	0		T	140788444	T	T	140788444	2	4	218	1	0	0	0	0	0	0	0	1	11586	639	23	1		1	PCDHGB6	5	140788444	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	19007	140788444	40126816	37	107700											
ZNF346	23567	broad.mit.edu	37	chr5	176468802	176468802	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aaaaaacatgccaacaaagtGaagagatacctagcaatcca	21	5	6	9	0	0	2	0	1	0	1	1	3	1	2	3	0	5	1	3	0	9	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr5:176468802G>A	uc003mfi.2	+	3	346	c.303G>A	c.(301-303)GTG>GTA	p.V101V	ZNF346_uc011dfr.1_Intron|ZNF346_uc011dfs.1_Intron|ZNF346_uc003mfj.2_Intron|ZNF346_uc003mfk.1_Silent_p.V126V|ZNF346_uc011dft.1_Intron	NM_012279	NP_036411	Q9UL40	ZN346_HUMAN	zinc finger protein 346	101	Matrin-type 1.					cytoplasm|nucleolus	double-stranded RNA binding|zinc ion binding				0	all_cancers(89;6.3e-05)|Renal(175;0.000269)|Lung NSC(126;0.00476)|all_lung(126;0.00806)	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)			CCAACAAAGTGAAGAGATACC	0.413													9	28					0	0	0.006214	0	0		A	176468802	A	A	176468802	2	1	218	1	0	0	0	0	0	0	0	1	17885	1277	45	4		4	ZNF346	5	176468802	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	35680358	176468802	4446458	38	107701											
CDC5L	988	broad.mit.edu	37	chr6	44376302	44376302	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tacacttttgtctgagtacaAtgtcaccaacaacagcgttg	12	12	7	10	1	2	1	1	1	1	0	2	1	2	1	1	0	5	2	1	0	5	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr6:44376302A>G	uc003oxl.2	+	8	1284	c.1025A>G	c.(1024-1026)AAT>AGT	p.N342S		NM_001253	NP_001244	Q99459	CDC5L_HUMAN	CDC5-like	342	Interaction with PPP1R8.				cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	catalytic step 2 spliceosome|cytoplasm|nuclear speck|nucleolus	DNA binding|RNA binding			lung(3)|ovary(1)|kidney(1)|skin(1)	6	all_lung(25;0.00433)|Ovarian(13;0.0273)|all_hematologic(164;0.208)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			TCTGAGTACAATGTCACCAAC	0.453													14	68					0	0	0.024245	0	0		G	44376302	G	G	44376302	3	3	218	1	0	0	0	0	1	0	0	0	3085	101	4	3	1055	3	CDC5L	6	44376302	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08		44376302	126738765	39	107702											
MANEA	79694	broad.mit.edu	37	chr6	96034725	96034725	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttgggaccctagaatagccaAgaattatccacaagggagac	15	7	10	9	0	0	3	0	0	0	3	1	5	1	4	3	2	1	0	3	2	7	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr6:96034725A>G	uc003poo.1	+	2	550	c.410A>G	c.(409-411)AAG>AGG	p.K137R	MANEA_uc003pon.2_Missense_Mutation_p.K137R	NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	137	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		AGAATAGCCAAGAATTATCCA	0.398													33	87					0	0	0.015359	0	0		G	96034725	G	G	96034725	3	3	218	1	0	0	0	0	1	0	0	0	9239	72	3	3	412	3	MANEA	6	96034725	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08	51658423	96034725	75080342	40	107703											
GHRHR	2692	broad.mit.edu	37	chr7	31018824	31018824	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctaagtggaccacgccttccCgctcggcggcaaaggtgctg	7	7	13	14	4	0	0	0	0	0	0	2	1	1	1	3	4	1	3	3	4	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr7:31018824C>T	uc003tbx.2	+	13	1285	c.1237C>T	c.(1237-1239)CGC>TGC	p.R413C	GHRHR_uc003tby.2_Missense_Mutation_p.R349C|GHRHR_uc003tbz.2_3'UTR	NM_000823	NP_000814	Q02643	GHRHR_HUMAN	growth hormone releasing hormone receptor	413	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of cell proliferation|positive regulation of growth hormone secretion|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of multicellular organism growth|response to estrogen stimulus|response to glucocorticoid stimulus	cell surface|integral to membrane|nuclear inner membrane|nuclear matrix|nuclear outer membrane|plasma membrane|stored secretory granule	growth factor binding|growth hormone-releasing hormone receptor activity|peptide hormone binding			ovary(2)|lung(1)|breast(1)|large_intestine(1)	5					Sermorelin(DB00010)	CACGCCTTCCCGCTCGGCGGC	0.602													8	60					0	0	0.004482	0	0		T	31018824	T	T	31018824	3	4	218	1	0	0	0	0	1	0	0	0	6388	652	23	1	1327	1	GHRHR	7	31018824	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		31018824	128119839	41	107704											
ZNF716	441234	broad.mit.edu	37	chr7	57529052	57529052	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	attcatactggagagaaaccCtacacatgtgaagaatgtgg	15	9	10	7	0	1	3	1	1	0	2	1	5	1	4	1	2	3	0	1	2	5	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr7:57529052C>A	uc011kdi.1	+	4	997	c.885C>A	c.(883-885)CCC>CCA	p.P295P		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						GAGAGAAACCCTACACATGTG	0.413													18	48					1.33834e-09	1.48358e-09	0.007413	1	0		A	57529052	A	A	57529052	2	1	218	1	0	0	0	0	0	0	0	1	18144	668	24	5		5	ZNF716	7	57529052	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	26510228	57529052	101609611	42	107705											
MAGI2	9863	broad.mit.edu	37	chr7	77789453	77789453	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggtctgcaggctgtgggaggCgaagccttcagggggagagg	7	6	21	7	1	2	1	1	0	1	1	2	4	2	2	1	7	2	2	1	7	1	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr7:77789453C>T	uc003ugx.2	-	16	2988	c.2734G>A	c.(2734-2736)GCC>ACC	p.A912T	MAGI2_uc003ugy.2_Missense_Mutation_p.A898T|MAGI2_uc010ldx.1_Missense_Mutation_p.A505T	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	912						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				CTGTGGGAGGCGAAGCCTTCA	0.577													4	74					0	0	0.009096	0	0		T	77789453	T	T	77789453	3	4	218	1	0	0	0	0	1	0	0	0	9209	768	27	1	1661	1	MAGI2	7	77789453	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	20260401	77789453	81349210	43	107706											
PCLO	27445	broad.mit.edu	37	chr7	82579844	82579844	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tgaagctgtggtggttgcatCttcagttgcccaaaattgac	9	13	11	8	0	2	2	1	2	1	0	2	2	2	2	1	2	3	4	1	2	3	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr7:82579844C>A	uc003uhx.2	-	6	10349	c.10060G>T	c.(10060-10062)GAT>TAT	p.D3354Y	PCLO_uc003uhv.2_Missense_Mutation_p.D3354Y|PCLO_uc010lec.2_Missense_Mutation_p.D319Y	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3285					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTGGTTGCATCTTCAGTTGCC	0.483													6	29					0.00116845	0.00122859	0.021553	1	0		A	82579844	A	A	82579844	3	1	218	1	0	0	0	0	1	0	0	0	11602	913	32	5	5465	5	PCLO	7	82579844	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	4790391	82579844	76558819	44	107707											
SLC26A4	5172	broad.mit.edu	37	chr7	107314680	107314680	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cccccgacgaacactttctcGtatccagcagcaatggaact	11	8	7	15	3	1	0	0	0	1	0	3	3	2	1	3	1	4	3	3	1	4	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr7:107314680G>A	uc003vep.2	+	5	711	c.487G>A	c.(487-489)GTA>ATA	p.V163I		NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	163	Extracellular (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						ACACTTTCTCGTATCCAGCAG	0.453									Pendred_syndrome				17	106					0	0	0.007413	0	0		A	107314680	A	A	107314680	3	1	218	1	0	0	0	0	1	0	0	0	14544	1145	40	1	501	1	SLC26A4	7	107314680	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	24734836	107314680	51823983	45	107708											
NUP205	23165	broad.mit.edu	37	chr7	135304191	135304191	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atactggatgatgaagctgcGcaagagttaatgcctgtggt	11	11	13	6	1	0	3	0	2	0	1	0	4	0	4	1	2	4	3	1	2	4	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr7:135304191G>A	uc003vsw.2	+	29	4015	c.3984G>A	c.(3982-3984)GCG>GCA	p.A1328A	NUP205_uc003vsx.2_5'Flank	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1328					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						ATGAAGCTGCGCAAGAGTTAA	0.443													38	110					0	0	0.036044	0	0		A	135304191	A	A	135304191	2	1	218	1	0	0	0	0	0	0	0	1	10778	1074	38	1		1	NUP205	7	135304191	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	27989511	135304191	23834472	46	107709											
GBX1	2636	broad.mit.edu	37	chr7	150864322	150864322	+	Missense_Mutation	SNP	A	C	C	1	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	gcggctccgcgaagctgggcAgcgcggtggtcagcgccacc	5	4	17	15	6	1	0	1	0	0	0	2	1	2	0	3	4	3	3	3	4	1	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr7:150864322A>C	uc011kvg.1	-	1	546	c.314T>G	c.(313-315)CTG>CGG	p.L105R		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	105	Ala-rich.|Pro-rich.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAAGCTGGGCAGCGCGGTGGT	0.577													2	1					0	0	0.004672	0	0		C	150864322	C	C	150864322	3	2	218	1	0	0	0	0	1	0	0	0	6295	188	7	5	784	5	GBX1	7	150864322	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08	15560131	150864322	8274341	47	107710											
FGF20	26281	broad.mit.edu	37	chr8	16850819	16850819	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	taaagatgcattcggaagtaAgtttctcctgaaagagagaa	16	10	10	5	1	1	4	0	1	1	3	3	6	1	5	1	1	1	3	1	1	6	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr8:16850819A>G	uc003wxc.1	-	3	531	c.398T>C	c.(397-399)CTT>CCT	p.L133P	FGF20_uc010lsv.1_RNA|FGF20_uc010lsw.1_Silent_p.T98T	NM_019851	NP_062825	Q9NP95	FGF20_HUMAN	fibroblast growth factor 20	133					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular region|soluble fraction	growth factor activity			lung(1)	1				Colorectal(111;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		TTCGGAAGTAAGTTTCTCCTG	0.323													38	90					0	0	0.030466	0	0		G	16850819	G	G	16850819	3	3	218	1	0	0	0	0	1	0	0	0	5863	72	3	3	241	3	FGF20	8	16850819	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08		16850819	129513203	48	107711											
POP1	10940	broad.mit.edu	37	chr8	99135655	99135655	+	Missense_Mutation	SNP	A	T	T	1	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	tctggctttgtggctgacagAggtgtaaagcaccacagtgg	9	10	14	8	0	1	2	0	1	1	1	1	2	1	2	1	4	1	4	1	4	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr8:99135655A>T	uc003yij.3	+	2	190	c.90A>T	c.(88-90)AGA>AGT	p.R30S	POP1_uc011lgv.1_Missense_Mutation_p.R30S|POP1_uc003yik.2_Missense_Mutation_p.R30S	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	30					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TGGCTGACAGAGGTGTAAAGC	0.353													8	75					0	0	0.006214	0	0		T	99135655	T	T	99135655	3	4	218	1	0	0	0	0	1	0	0	0	12270	301	11	5	92	5	POP1	8	99135655	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08	82284836	99135655	47228367	49	107712											
RIMS2	9699	broad.mit.edu	37	chr8	104898126	104898126	+	Silent	SNP	T	C	C	0	1	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	aggaccacaaaccatagtccTcctacccccaggaggagtcc	12	5	8	16	0	0	0	0	0	0	0	3	3	3	3	7	3	2	0	7	3	3	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr8:104898126T>C	uc003yls.2	+	2	874	c.633T>C	c.(631-633)CCT>CCC	p.P211P	RIMS2_uc003ylp.2_Silent_p.P433P|RIMS2_uc003ylw.2_Silent_p.P241P|RIMS2_uc003ylq.2_Silent_p.P241P|RIMS2_uc003ylr.2_Silent_p.P241P	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	464					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)			ACCATAGTCCTCCTACCCCCA	0.488										HNSCC(12;0.0054)			34	64					0	0	0.015359	0	0		C	104898126	C	C	104898126	2	2	218	1	0	0	0	0	0	0	0	1	13393	1538	54	3		3	RIMS2	8	104898126	Silent	SNP	T	TCGA-IN-7808-01A-11D-2201-08	5762471	104898126	41465896	50	107713											
OC90	729330	broad.mit.edu	37	chr8	133044144	133044144	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atacctgtctaggtcatcccTtggctcgcctcttccttctt	4	16	6	15	1	4	0	1	0	3	0	7	0	6	0	4	2	1	1	4	2	2	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr8:133044144T>G	uc003ytg.2	-	11	1015	c.1015A>C	c.(1015-1017)AGG>CGG	p.R339R	OC90_uc011lix.1_Silent_p.R339R	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	355	Phospholipase A2-like 2.				lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			AGGTCATCCCTTGGCTCGCCT	0.557													5	40					0	0	0.014758	0	0		G	133044144	G	G	133044144	2	3	218	1	0	0	0	0	0	0	0	1	10833	1608	56	5		5	OC90	8	133044144	Silent	SNP	T	TCGA-IN-7808-01A-11D-2201-08	28146018	133044144	13319878	51	107714											
TRPM6	140803	broad.mit.edu	37	chr9	77354315	77354315	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggtatggtttgtggtttcacTtggttgaaggtatagatcaa	9	16	13	3	0	2	2	2	1	0	1	2	2	2	2	0	5	0	5	0	5	5	7			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr9:77354315T>A	uc004ajl.1	-	35	5776	c.5538A>T	c.(5536-5538)CAA>CAT	p.Q1846H	TRPM6_uc004ajk.1_Missense_Mutation_p.Q1841H|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Missense_Mutation_p.Q797H|TRPM6_uc010mpd.1_Missense_Mutation_p.Q679H|TRPM6_uc010mpe.1_Missense_Mutation_p.Q393H|TRPM6_uc004ajj.1_Missense_Mutation_p.Q802H	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1846	Alpha-type protein kinase.|Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GTGGTTTCACTTGGTTGAAGG	0.388													10	113					0	0	0.020292	0	0		A	77354315	A	A	77354315	3	1	218	1	0	0	0	0	1	0	0	0	16616	1606	56	5	550	5	TRPM6	9	77354315	Missense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08		77354315	63859116	52	107715											
PTPDC1	138639	broad.mit.edu	37	chr9	96864034	96864034	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cactttttttattagagaagGtaaagtggctgtaggaccag	12	13	11	5	0	0	1	0	0	0	1	0	3	0	2	1	3	0	3	1	3	6	7			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr9:96864034G>A	uc004auf.1	+	8	2377	c.2037_splice	c.e8+1	p.K679_splice	PTPDC1_uc004aug.1_Splice_Site_p.K674_splice|PTPDC1_uc004auh.1_Splice_Site_p.K731_splice|PTPDC1_uc010mrj.1_Splice_Site_p.K733_splice	NM_177995	NP_818931	A2A3K4	PTPC1_HUMAN	protein tyrosine phosphatase domain containing 1								protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(1)	1						ATTAGAGAAGGTAAAGTGGCT	0.413													17	22					0	0	0.006122	0	0		A	96864034	A	A	96864034	5	1	218	1	0	0	0	0	0	0	1	0	12796	1275	44	4	2306	4	PTPDC1	9	96864034	Splice_Site	SNP	G	TCGA-IN-7808-01A-11D-2201-08	19509719	96864034	44349397	53	107716											
IKBKAP	8518	broad.mit.edu	37	chr9	111674597	111674597	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ttgaattatctcccacgctcCggtcagtcgtccagtgccaa	8	11	8	14	3	2	1	1	1	1	0	6	1	4	1	4	1	1	1	4	1	3	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr9:111674597C>T	uc004bdm.3	-	11	1656	c.1136G>A	c.(1135-1137)CGG>CAG	p.R379Q	IKBKAP_uc004bdl.2_Missense_Mutation_p.R30Q|IKBKAP_uc011lwc.1_Missense_Mutation_p.R265Q|IKBKAP_uc010mtq.2_Missense_Mutation_p.R30Q	NM_003640	NP_003631	O95163	ELP1_HUMAN	inhibitor of kappa light polypeptide gene	379					immune response|protein complex assembly|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|DNA-directed RNA polymerase II, holoenzyme|nucleolus|transcription elongation factor complex	phosphorylase kinase regulator activity|protein binding|signal transducer activity			ovary(2)|skin(2)|upper_aerodigestive_tract(1)|breast(1)|kidney(1)	7						TCCCACGCTCCGGTCAGTCGT	0.542													7	103					0	0	0.004482	0	0		T	111674597	T	T	111674597	3	4	218	1	0	0	0	0	1	0	0	0	7626	652	23	1	2970	1	IKBKAP	9	111674597	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	14810563	111674597	29538834	54	107717											
PDCL	5082	broad.mit.edu	37	chr9	125588916	125588916	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgttaactgagatgccttCgcctgccagctcagcctctg	6	12	10	13	1	2	1	1	1	1	1	3	2	2	1	4	0	5	2	4	0	1	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr9:125588916C>T	uc004bmz.1	-	2	247	c.151G>A	c.(151-153)GAA>AAA	p.E51K	PDCL_uc004bna.2_Missense_Mutation_p.E51K	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	51					signal transduction|visual perception						0						GAGATGCCTTCGCCTGCCAGC	0.463													14	66					0	0	0.020292	0	0		T	125588916	T	T	125588916	3	4	218	1	0	0	0	0	1	0	0	0	11645	893	31	1	766	1	PDCL	9	125588916	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	13914319	125588916	15624515	55	107718											
LAMC3	10319	broad.mit.edu	37	chr9	133960933	133960933	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	atgaagctgcagtttccccgGcccaaggaccaggcggcatt	9	7	12	13	2	0	1	0	1	0	0	1	2	1	2	4	4	2	4	4	4	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr9:133960933G>T	uc004caa.1	+	25	4151	c.4053G>T	c.(4051-4053)CGG>CGT	p.R1351R	LAMC3_uc010mze.1_Intron	NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor	1351	Domain II and I.				cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		AGTTTCCCCGGCCCAAGGACC	0.627													5	87					0.000602214	0.000642662	0.014758	1	0		T	133960933	T	T	133960933	2	4	218	1	0	0	0	0	0	0	0	1	8632	1190	42	5		5	LAMC3	9	133960933	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	8372017	133960933	7252498	56	107719											
TRDMT1	1787	broad.mit.edu	37	chr10	17199614	17199614	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	cttgttgatttttcctgtgaAtttcttctgcagtttcaagc	6	20	7	8	0	3	2	1	2	2	0	4	2	4	2	1	0	2	3	1	0	2	7			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr10:17199614A>C	uc001iop.2	-	8	761	c.713T>G	c.(712-714)ATT>AGT	p.I238S	TRDMT1_uc001ioq.2_Missense_Mutation_p.I214S|TRDMT1_uc001ior.2_Missense_Mutation_p.I192S|TRDMT1_uc001ios.2_Missense_Mutation_p.I167S|TRDMT1_uc009xjt.2_Missense_Mutation_p.I157S|TRDMT1_uc010qcc.1_Missense_Mutation_p.I167S|TRDMT1_uc010qcd.1_Missense_Mutation_p.I115S	NM_004412	NP_004403	O14717	TRDMT_HUMAN	tRNA aspartic acid methyltransferase 1 isoform	238					tRNA processing	nucleus	DNA (cytosine-5-)-methyltransferase activity|DNA binding|RNA binding			ovary(1)	1						TTTCCTGTGAATTTCTTCTGC	0.353													5	19					0	0	0.014758	0	0		C	17199614	C	C	17199614	3	2	218	1	0	0	0	0	1	0	0	0	16493	101	4	5	478	5	TRDMT1	10	17199614	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08		17199614	118335133	57	107720											
HECTD2	143279	broad.mit.edu	37	chr10	93244365	93244365	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaatttccacctataacaaAgtgttcctggtggattccat	12	13	7	9	0	0	1	0	0	0	1	3	2	3	2	4	2	1	1	4	2	4	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr10:93244365A>G	uc001khl.2	+	9	1023	c.923A>G	c.(922-924)AAG>AGG	p.K308R	LOC100188947_uc010qnl.1_Intron|HECTD2_uc010qnm.1_Missense_Mutation_p.K312R|HECTD2_uc001khm.2_RNA|HECTD2_uc009xty.1_5'UTR|HECTD2_uc001khn.1_5'UTR	NM_182765	NP_877497	Q5U5R9	HECD2_HUMAN	HECT domain containing 2 isoform a	308					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			skin(1)	1						CCTATAACAAAGTGTTCCTGG	0.363													21	31					0	0	0.012319	0	0		G	93244365	G	G	93244365	3	3	218	1	0	0	0	0	1	0	0	0	7056	72	3	3	981	3	HECTD2	10	93244365	Missense_Mutation	SNP	A	TCGA-IN-7808-01A-11D-2201-08	76044751	93244365	42290382	58	107721											
CWF19L1	55280	broad.mit.edu	37	chr10	101997883	101997883	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccttatacttctccacctCttctaccacctctgctgaaa	8	13	4	16	0	4	1	0	1	4	0	5	1	4	1	5	1	3	1	5	1	4	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr10:101997883C>A	uc001kqq.1	-	11	1237	c.1150G>T	c.(1150-1152)GAG>TAG	p.E384*	CWF19L1_uc001kqs.1_Nonsense_Mutation_p.E136*|CWF19L1_uc001kqr.1_Nonsense_Mutation_p.E384*|CWF19L1_uc001kqt.1_Nonsense_Mutation_p.E88*|CWF19L1_uc010qpn.1_Nonsense_Mutation_p.E247*|SNORA12_uc001kqu.1_5'Flank	NM_018294	NP_060764	Q69YN2	C19L1_HUMAN	CWF19-like 1, cell cycle control	384							catalytic activity				0		Colorectal(252;0.117)		Epithelial(162;3.78e-10)|all cancers(201;3.1e-08)		TTCTCCACCTCTTCTACCACC	0.488													30	171					1.62565e-12	1.81615e-12	0.012213	1	0		A	101997883	A	A	101997883	4	1	218	1	0	0	0	0	0	1	0	0	4074	922	32	5	482	5	CWF19L1	10	101997883	Nonsense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	8753518	101997883	33536864	59	107722											
OR51G2	81282	broad.mit.edu	37	chr11	4936857	4936857	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cagcaggaaggtagcagaaaCgctgctgctgctgtttccca	10	8	12	11	1	0	1	0	0	0	1	1	2	1	2	1	2	6	8	1	2	3	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr11:4936857C>T	uc001lzr.1	-	1	37	c.37G>A	c.(37-39)GTT>ATT	p.V13I		NM_001005238	NP_001005238	Q8NGK0	O51G2_HUMAN	olfactory receptor, family 51, subfamily G,	13	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		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)		GTAGCAGAAACGCTGCTGCTG	0.557													6	55					0	0	0.02938	0	0		T	4936857	T	T	4936857	3	4	218	1	0	0	0	0	1	0	0	0	11118	536	19	1	911	1	OR51G2	11	4936857	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		4936857	130069659	60	107723											
OR52A5	390054	broad.mit.edu	37	chr11	5152993	5152993	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	cttggtcttcactccatagaCaatagggttgagaaaaggtg	12	11	11	7	0	2	2	1	1	1	2	3	3	3	2	1	3	0	1	1	3	5	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr11:5152993C>A	uc010qyx.1	-	1	880	c.880G>T	c.(880-882)GTC>TTC	p.V294F		NM_001005160	NP_001005160	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A,	294	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|lung(1)|central_nervous_system(1)	4		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		ACTCCATAGACAATAGGGTTG	0.378													9	72					0.000673444	0.000713352	0.008291	1	0		A	5152993	A	A	5152993	3	1	218	1	0	0	0	0	1	0	0	0	11129	478	17	5	73	5	OR52A5	11	5152993	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	216136	5152993	129853523	61	107724											
HBG2	3048	broad.mit.edu	37	chr11	5275585	5275585	+	Silent	SNP	G	C	C	0	0	1	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	tcactcagctgggcaaaggtGcccttgagatcatccaggtg	9	9	12	11	0	3	1	3	1	0	1	4	2	4	1	2	3	2	2	2	3	1	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr11:5275585G>C	uc001mai.1	-	2	689	c.252C>G	c.(250-252)GGC>GGG	p.G84G	HBG2_uc001mak.1_RNA|HBG2_uc001maj.1_Silent_p.G84G	NM_000559	NP_000550	P69892	HBG2_HUMAN	A-gamma globin	84					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGGCAAAGGTGCCCTTGAGAT	0.522													13	154					0	0	0.013537	0	0		C	5275585	C	C	5275585	2	2	218	1	0	0	0	0	0	0	0	1	6999	1306	46	5		5	HBG2	11	5275585	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	122592	5275585	129730931	62	107725											
OR4A47	403253	broad.mit.edu	37	chr11	48510956	48510956	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gtggccaatggaggactggcTtgcactattgtgtttctgct	6	14	13	8	0	1	0	0	0	1	0	1	2	1	2	1	4	2	4	1	4	2	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr11:48510956T>C	uc010rhx.1	+	1	612	c.612T>C	c.(610-612)GCT>GCC	p.A204A		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GAGGACTGGCTTGCACTATTG	0.438													33	74					0	0	0.013726	0	0		C	48510956	C	C	48510956	2	2	218	1	0	0	0	0	0	0	0	1	11061	1596	56	3		3	OR4A47	11	48510956	Silent	SNP	T	TCGA-IN-7808-01A-11D-2201-08	43235371	48510956	86495560	63	107726											
OR8I2	120586	broad.mit.edu	37	chr11	55861250	55861250	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgtgataggcttcacaagctCgctgatatctgtctgggtga	8	13	12	8	1	3	3	1	3	2	0	4	3	3	3	0	2	1	3	0	2	3	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr11:55861250C>T	uc010rix.1	+	1	467	c.467C>T	c.(466-468)TCG>TTG	p.S156L		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	156	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TTCACAAGCTCGCTGATATCT	0.433													19	137					0	0	0.010504	0	0		T	55861250	T	T	55861250	3	4	218	1	0	0	0	0	1	0	0	0	11259	893	31	1	469	1	OR8I2	11	55861250	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	7350294	55861250	79145266	64	107727											
TECTA	7007	broad.mit.edu	37	chr11	120998499	120998499	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cgagcttcagccactactccGtgtgcacaagcagctgcccc	8	7	9	17	2	1	0	1	0	0	0	2	1	2	0	4	0	7	4	4	0	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr11:120998499G>A	uc010rzo.1	+	8	1813	c.1813G>A	c.(1813-1815)GTG>ATG	p.V605M		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	605	TIL 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CCACTACTCCGTGTGCACAAG	0.637													17	107					0	0	0.01892	0	0		A	120998499	A	A	120998499	3	1	218	1	0	0	0	0	1	0	0	0	15772	1145	40	1	1843	1	TECTA	11	120998499	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	65137249	120998499	14008017	65	107728											
IGSF9B	22997	broad.mit.edu	37	chr11	133794727	133794727	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	caaaatacctgtgctggagaCgccggcgatgttgctgggct	8	9	14	10	3	0	1	0	0	0	1	0	3	0	1	2	3	3	4	2	3	3	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr11:133794727C>T	uc001qgx.3	-	15	2338	c.2107G>A	c.(2107-2109)GTC>ATC	p.V703I	IGSF9B_uc001qgy.1_Missense_Mutation_p.V545I	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	703	Fibronectin type-III 2.|Extracellular (Potential).					integral to membrane|plasma membrane					0	all_hematologic(175;0.127)	all_cancers(12;1.58e-21)|all_epithelial(12;5.17e-16)|all_lung(97;1.6e-05)|Lung NSC(97;3.86e-05)|Breast(109;0.000126)|Medulloblastoma(222;0.0245)|all_neural(223;0.0505)|Esophageal squamous(93;0.0559)		Epithelial(10;7.19e-10)|BRCA - Breast invasive adenocarcinoma(10;9.69e-09)|all cancers(11;1.23e-08)|OV - Ovarian serous cystadenocarcinoma(99;0.00328)|Lung(977;0.221)		GTGCTGGAGACGCCGGCGATG	0.562													16	93					0	0	0.006122	0	0		T	133794727	T	T	133794727	3	4	218	1	0	0	0	0	1	0	0	0	7622	536	19	1	1962	1	IGSF9B	11	133794727	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	12796228	133794727	1211789	66	107729											
CD163L1	283316	broad.mit.edu	37	chr12	7531888	7531888	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caagcctcagctccatatccGatgcatctgaaaccaaatac	14	8	5	14	1	2	1	1	1	1	0	4	2	4	1	4	0	5	2	4	0	5	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr12:7531888G>A	uc001qsy.2	-	9	2083	c.2057C>T	c.(2056-2058)TCG>TTG	p.S686L	CD163L1_uc010sge.1_Missense_Mutation_p.S696L	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	686	Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CTCCATATCCGATGCATCTGA	0.463													8	31					0	0	0.00308	0	0		A	7531888	A	A	7531888	3	1	218	1	0	0	0	0	1	0	0	0	2971	1059	37	1	2348	1	CD163L1	12	7531888	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08		7531888	126320007	67	107730											
FAM90A1	55138	broad.mit.edu	37	chr12	8374923	8374923	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agttcaggcaagcctgaatcGgagccggggcagatctcttg	9	8	14	10	2	2	2	1	1	1	1	4	3	2	3	2	4	2	3	2	4	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr12:8374923G>A	uc001qui.2	-	7	1449	c.890C>T	c.(889-891)CCG>CTG	p.P297L	FAM90A1_uc001quh.2_Missense_Mutation_p.P297L	NM_018088	NP_060558	Q86YD7	F90A1_HUMAN	hypothetical protein LOC55138	297							nucleic acid binding|zinc ion binding			ovary(1)	1				Kidney(36;0.0866)		AGCCTGAATCGGAGCCGGGGC	0.642													16	43					0	0	0.007413	0	0		A	8374923	A	A	8374923	3	1	218	1	0	0	0	0	1	0	0	0	5664	1116	39	1	508	1	FAM90A1	12	8374923	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	843035	8374923	125476972	68	107731											
KRT6C	286887	broad.mit.edu	37	chr12	52865203	52865203	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gaaggatggtggagatgcttActgcatcatacaaggctctc	11	10	12	8	0	2	1	1	0	1	1	3	4	2	2	0	4	4	3	0	4	4	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr12:52865203A>T	uc001sal.3	-	4	960	c.912_splice	c.e4+1	p.A304_splice		NM_173086	NP_775109	P48668	K2C6C_HUMAN	keratin 6C						cytoskeleton organization	keratin filament	structural molecule activity	p.?(1)		ovary(2)	2				BRCA - Breast invasive adenocarcinoma(357;0.0828)		GGAGATGCTTACTGCATCATA	0.463													12	63					0	0	0.016723	0	0		T	52865203	T	T	52865203	5	4	218	1	0	0	0	0	0	0	1	0	8498	405	14	5	804	5	KRT6C	12	52865203	Splice_Site	SNP	A	TCGA-IN-7808-01A-11D-2201-08	44490280	52865203	80986692	69	107732											
KRT4	3851	broad.mit.edu	37	chr12	53207428	53207428	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gttgaggagcttgatctgttCgcgctcttccgtccggactt	4	14	12	11	4	2	2	0	2	2	0	5	4	4	4	2	2	1	4	2	2	0	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr12:53207428C>T	uc001saz.2	-	1	908	c.637G>A	c.(637-639)GAA>AAA	p.E213K		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	139						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						TTGATCTGTTCGCGCTCTTCC	0.567													20	150					0	0	0.010504	0	0		T	53207428	T	T	53207428	3	4	218	1	0	0	0	0	1	0	0	0	8493	893	31	1	1183	1	KRT4	12	53207428	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	342225	53207428	80644467	70	107733											
NOC4L	79050	broad.mit.edu	37	chr12	132635872	132635872	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtctttcacgtcaagtaccgCgcccgcttcttccacctggc	5	11	8	17	4	4	0	2	0	2	0	5	0	5	0	4	1	1	2	4	1	2	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr12:132635872C>T	uc001ujz.1	+	11	1073	c.1032C>T	c.(1030-1032)CGC>CGT	p.R344R		NM_024078	NP_076983	Q9BVI4	NOC4L_HUMAN	nucleolar complex associated 4 homolog	344					rRNA processing	integral to membrane|nuclear membrane|nucleolus	protein binding				0	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)		TCAAGTACCGCGCCCGCTTCT	0.657													14	111					0	0	0.006122	0	0		T	132635872	T	T	132635872	2	4	218	1	0	0	0	0	0	0	0	1	10534	755	27	1		1	NOC4L	12	132635872	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	79428444	132635872	1216023	71	107734											
GOLGA3	2802	broad.mit.edu	37	chr12	133381458	133381458	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	caggtcagtcatggctcgctCcaggtcccagcacgactgct	7	8	11	15	2	2	0	2	0	0	0	5	1	4	0	2	3	2	4	2	3	0	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr12:133381458C>G	uc001ukz.1	-	7	2000	c.1441G>C	c.(1441-1443)GAG>CAG	p.E481Q	GOLGA3_uc001ula.1_Missense_Mutation_p.E481Q|GOLGA3_uc001ulb.2_Missense_Mutation_p.E481Q	NM_005895	NP_005886	Q08378	GOGA3_HUMAN	Golgi autoantigen, golgin subfamily a, 3	481	Potential.				intra-Golgi vesicle-mediated transport	Golgi cisterna membrane|Golgi transport complex	protein binding|transporter activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0176)|Lung NSC(355;0.204)		OV - Ovarian serous cystadenocarcinoma(86;2.27e-08)|Epithelial(86;3.34e-07)|all cancers(50;9.4e-06)		ATGGCTCGCTCCAGGTCCCAG	0.622													9	79					0	0	0.008291	0	0		G	133381458	G	G	133381458	3	3	218	1	0	0	0	0	1	0	0	0	6569	864	30	5	3265	5	GOLGA3	12	133381458	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	745586	133381458	470437	72	107735											
PABPC3	5042	broad.mit.edu	37	chr13	25670716	25670716	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tgcttttggtaacatcctttCgtgtaacgtggtttgtgatg	6	18	11	6	2	0	1	0	1	0	0	2	1	1	1	1	2	3	4	1	2	2	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr13:25670716C>T	uc001upy.2	+	1	441	c.380C>T	c.(379-381)TCG>TTG	p.S127L		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	127	RRM 2.				mRNA metabolic process	cytoplasm	nucleotide binding|poly(A) RNA binding			ovary(3)|skin(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		AACATCCTTTCGTGTAACGTG	0.368													29	71					0	0	0.010818	0	0		T	25670716	T	T	25670716	3	4	218	1	0	0	0	0	1	0	0	0	11384	893	31	1	382	1	PABPC3	13	25670716	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		25670716	89499162	73	107736											
FAM123A	219287	broad.mit.edu	37	chr13	25745314	25745314	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgctggcgagggagcccccGccgggccctgcggctctggg	2	5	18	16	4	1	0	0	0	1	0	1	2	1	1	4	5	3	2	4	5	0	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr13:25745314G>A	uc001uqb.2	-	1	544	c.444C>T	c.(442-444)GGC>GGT	p.G148G	FAM123A_uc001uqa.2_Silent_p.G148G|FAM123A_uc001uqc.2_Silent_p.G148G	NM_152704	NP_689917	Q8N7J2	F123A_HUMAN	hypothetical protein LOC219287 isoform 1	148	Gly-rich.									ovary(2)|large_intestine(1)|lung(1)	4		Lung SC(185;0.0225)|Breast(139;0.0602)		all cancers(112;0.0071)|Epithelial(112;0.0398)|OV - Ovarian serous cystadenocarcinoma(117;0.151)|GBM - Glioblastoma multiforme(144;0.222)|Lung(94;0.241)		GGGAGCCCCCGCCGGGCCCTG	0.567													8	14					0	0	0.00308	0	0		A	25745314	A	A	25745314	2	1	218	1	0	0	0	0	0	0	0	1	5433	1074	38	1		1	FAM123A	13	25745314	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	74598	25745314	89424564	74	107737											
EPSTI1	94240	broad.mit.edu	37	chr13	43543271	43543271	+	Missense_Mutation	SNP	T	A	A	0	1	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	gaaccggtttagctctgttcTgctccttccacttctccagg	5	14	8	14	1	3	0	0	0	3	0	6	1	5	0	4	2	3	4	4	2	2	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr13:43543271T>A	uc001uyw.1	-	3	366	c.290A>T	c.(289-291)CAG>CTG	p.Q97L	EPSTI1_uc001uyx.1_Missense_Mutation_p.Q97L	NM_001002264	NP_001002264	Q96J88	ESIP1_HUMAN	epithelial stromal interaction 1 isoform 1	97	Potential.									ovary(1)	1		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)		AGCTCTGTTCTGCTCCTTCCA	0.532													7	66					0	0	0.00308	0	0		A	43543271	A	A	43543271	3	1	218	1	0	0	0	0	1	0	0	0	5206	1580	55	5	986	5	EPSTI1	13	43543271	Missense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08	17797957	43543271	71626607	75	107738											
TNFSF13B	10673	broad.mit.edu	37	chr13	108959245	108959245	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	aaaatgcacaaatatcactgGatggagatgtcacatttttt	15	13	7	6	0	2	1	2	0	0	1	2	3	2	2	0	2	1	1	0	2	4	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr13:108959245G>A	uc001vqr.2	+	6	1084	c.817G>A	c.(817-819)GAT>AAT	p.D273N	TNFSF13B_uc010agj.2_Missense_Mutation_p.D254N	NM_006573	NP_006564	Q9Y275	TN13B_HUMAN	tumor necrosis factor superfamily, member 13b	273	Extracellular (Potential).				cell proliferation|immune response|signal transduction	extracellular space|integral to membrane|plasma membrane|soluble fraction	cytokine activity|tumor necrosis factor receptor binding				0	all_lung(23;0.000396)|all_neural(89;0.00256)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00902)|Lung SC(71;0.104)		all cancers(43;0.184)|BRCA - Breast invasive adenocarcinoma(86;0.19)			AATATCACTGGATGGAGATGT	0.383													9	58					0	0	0.008291	0	0		A	108959245	A	A	108959245	3	1	218	1	0	0	0	0	1	0	0	0	16331	1174	41	4	839	4	TNFSF13B	13	108959245	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	65415974	108959245	6210633	76	107739											
FRMD6	122786	broad.mit.edu	37	chr14	52186866	52186866	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcgggccagcgggagcagtgCgggcagcatgaaacacaagc	11	2	17	11	3	0	1	0	1	0	0	0	2	0	2	1	3	6	3	1	3	2	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr14:52186866C>T	uc001wzd.2	+	11	1403	c.1118C>T	c.(1117-1119)GCG>GTG	p.A373V	FRMD6_uc001wzb.2_Missense_Mutation_p.A365V|FRMD6_uc001wzc.2_Missense_Mutation_p.A365V|FRMD6_uc001wze.2_Missense_Mutation_p.A296V|FRMD6_uc001wzf.2_Missense_Mutation_p.A66V|FRMD6_uc001wzg.2_Missense_Mutation_p.A15V	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	373						cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GGGAGCAGTGCGGGCAGCATG	0.607													6	36					0	0	0.021553	0	0		T	52186866	T	T	52186866	3	4	218	1	0	0	0	0	1	0	0	0	6068	768	27	1	1132	1	FRMD6	14	52186866	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		52186866	55162674	77	107740											
DDHD1	80821	broad.mit.edu	37	chr14	53560062	53560062	+	Silent	SNP	T	C	C	0	1	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	aatcccagtttttgggtaacTgttcttgcaattttagatgt	9	18	8	6	0	1	1	0	0	1	1	2	1	2	1	1	1	2	4	1	1	4	7			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr14:53560062T>C	uc001xai.2	-	3	1343	c.1113A>G	c.(1111-1113)ACA>ACG	p.T371T	DDHD1_uc001xaj.2_Silent_p.T378T|DDHD1_uc001xah.2_Silent_p.T371T|DDHD1_uc001xag.2_5'UTR	NM_001160148	NP_001153620	Q8NEL9	DDHD1_HUMAN	DDHD domain containing 1 isoform c	371					lipid catabolic process	cytoplasm	hydrolase activity|metal ion binding			ovary(2)	2	Breast(41;0.037)					TTTGGGTAACTGTTCTTGCAA	0.333													7	35					0	0	0.02938	0	0		C	53560062	C	C	53560062	2	2	218	1	0	0	0	0	0	0	0	1	4329	1567	55	3		3	DDHD1	14	53560062	Silent	SNP	T	TCGA-IN-7808-01A-11D-2201-08	1373196	53560062	53789478	78	107741											
ZFYVE1	53349	broad.mit.edu	37	chr14	73441486	73441486	+	Splice_Site	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	agctcccaggtcccacgttaCctaactggacgttcctggct	7	10	9	15	2	0	0	0	0	0	0	3	1	3	1	4	3	3	4	4	3	2	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr14:73441486C>G	uc001xnm.2	-	10	2627	c.1987_splice	c.e10+1	p.A663_splice	ZFYVE1_uc001xnl.2_Splice_Site_p.A248_splice|ZFYVE1_uc010arj.2_Splice_Site_p.A649_splice	NM_021260	NP_067083	Q9HBF4	ZFYV1_HUMAN	zinc finger, FYVE domain containing 1 isoform 1							endoplasmic reticulum|Golgi stack|perinuclear region of cytoplasm	1-phosphatidylinositol binding|phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3,4-bisphosphate binding|zinc ion binding			skin(1)	1		all_lung(585;1.33e-09)		OV - Ovarian serous cystadenocarcinoma(108;1.6e-46)|BRCA - Breast invasive adenocarcinoma(234;0.00349)		TCCCACGTTACCTAACTGGAC	0.602													9	43					0	0	0.006214	0	0		G	73441486	G	G	73441486	5	3	218	1	0	0	0	0	0	0	1	0	17688	521	18	5	357	5	ZFYVE1	14	73441486	Splice_Site	SNP	C	TCGA-IN-7808-01A-11D-2201-08	19881424	73441486	33908054	79	107742											
SERPINA5	5104	broad.mit.edu	37	chr14	95053780	95053780	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cgccaccacccccgggagatGaagaagagagtcgaggacct	12	3	13	13	3	0	4	0	1	0	3	1	8	0	5	5	2	0	0	5	2	2	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr14:95053780G>A	uc001ydm.2	+	3	291	c.81G>A	c.(79-81)ATG>ATA	p.M27I	SERPINA5_uc010ave.2_Missense_Mutation_p.M27I|SERPINA5_uc001ydn.1_Missense_Mutation_p.M27I	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	27					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	CCCGGGAGATGAAGAAGAGAG	0.612													15	48					0	0	0.028581	0	0		A	95053780	A	A	95053780	3	1	218	1	0	0	0	0	1	0	0	0	14117	1290	45	4	83	4	SERPINA5	14	95053780	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	21612294	95053780	12295760	80	107743											
MNS1	55329	broad.mit.edu	37	chr15	56726358	56726358	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgtctgcaaggaattgttggCgacgctcttcaataagtttt	9	15	10	7	2	3	0	1	0	2	0	3	2	3	1	0	2	1	4	0	2	4	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr15:56726358C>T	uc002adr.2	-	8	1412	c.1247G>A	c.(1246-1248)CGC>CAC	p.R416H	MNS1_uc010bfo.2_Missense_Mutation_p.R284H|TEX9_uc002adp.2_Intron|TEX9_uc010ugl.1_Intron	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	416					meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		GAATTGTTGGCGACGCTCTTC	0.348													75	141					0	0	0.01441	0	0		T	56726358	T	T	56726358	3	4	218	1	0	0	0	0	1	0	0	0	9695	768	27	1	252	1	MNS1	15	56726358	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		56726358	45805034	81	107744											
TMEM202	338949	broad.mit.edu	37	chr15	72691142	72691142	+	Missense_Mutation	SNP	T	G	G	0	1	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	gctgatcgccatgtccccacTgaactgggtacagtttctgg	7	11	11	12	1	1	2	0	2	1	0	3	2	2	2	3	2	2	3	3	2	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr15:72691142T>G	uc002auq.2	+	2	230	c.230T>G	c.(229-231)CTG>CGG	p.L77R	TMEM202_uc002aur.2_Intron	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	77						integral to membrane				central_nervous_system(1)|skin(1)	2						ATGTCCCCACTGAACTGGGTA	0.532													14	93					0	0	0.024245	0	0		G	72691142	G	G	72691142	3	3	218	1	0	0	0	0	1	0	0	0	16152	1580	55	5	236	5	TMEM202	15	72691142	Missense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08	15964784	72691142	29840250	82	107745											
CD276	80381	broad.mit.edu	37	chr15	73996565	73996565	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggagcccaacaaggacctgcGgccaggggacacggtgacca	11	2	15	13	2	0	1	0	1	0	0	0	4	0	4	4	6	3	0	4	6	2	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr15:73996565G>A	uc002avv.1	+	6	1355	c.1121G>A	c.(1120-1122)CGG>CAG	p.R374Q	CD276_uc010bjd.1_Missense_Mutation_p.R228Q|CD276_uc002avu.1_Missense_Mutation_p.R374Q|CD276_uc002avw.1_Missense_Mutation_p.R156Q|CD276_uc010ulb.1_Missense_Mutation_p.R320Q|CD276_uc002avx.2_RNA	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a	374	Extracellular (Potential).|Ig-like C2-type 2.				cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						AAGGACCTGCGGCCAGGGGAC	0.652													12	19					0	0	0.016723	0	0		A	73996565	A	A	73996565	3	1	218	1	0	0	0	0	1	0	0	0	2995	1116	39	1	1139	1	CD276	15	73996565	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	1305423	73996565	28534827	83	107746											
RASGRF1	5923	broad.mit.edu	37	chr15	79296145	79296145	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgacggcatggccactcactCtgcttgctgagcgctgaagg	7	8	13	13	3	2	2	1	2	1	0	2	3	2	2	1	3	3	4	1	3	1	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr15:79296145C>G	uc002beq.2	-	16	2871	c.2496G>C	c.(2494-2496)CAG>CAC	p.Q832H	RASGRF1_uc002bep.2_Missense_Mutation_p.Q816H|RASGRF1_uc010blm.1_Missense_Mutation_p.Q741H|RASGRF1_uc002ber.3_Missense_Mutation_p.Q816H|RASGRF1_uc010unh.1_Missense_Mutation_p.Q227H|RASGRF1_uc002beo.2_Missense_Mutation_p.Q48H	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	834					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GCCACTCACTCTGCTTGCTGA	0.627													7	47					0	0	0.004482	0	0		G	79296145	G	G	79296145	3	3	218	1	0	0	0	0	1	0	0	0	13097	927	32	5	1377	5	RASGRF1	15	79296145	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	5299580	79296145	23235247	84	107747											
ASB7	140460	broad.mit.edu	37	chr15	101169989	101169989	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atggtttcctgttgcgatacGccgtgatcaaaagcaatcac	11	11	9	10	3	2	1	2	1	0	0	3	2	3	1	2	1	3	3	2	1	4	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr15:101169989G>A	uc002bwk.2	+	5	1328	c.559G>A	c.(559-561)GCC>ACC	p.A187T	ASB7_uc002bwj.2_Missense_Mutation_p.A187T	NM_198243	NP_937886	Q9H672	ASB7_HUMAN	ankyrin repeat and SOCS box-containing protein 7	187	ANK 6.				intracellular signal transduction					skin(1)	1	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)			GTTGCGATACGCCGTGATCAA	0.483													19	31					0	0	0.008871	0	0		A	101169989	A	A	101169989	3	1	218	1	0	0	0	0	1	0	0	0	1029	1087	38	1	565	1	ASB7	15	101169989	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	21873844	101169989	1361403	85	107748											
OR4F6	390648	broad.mit.edu	37	chr15	102346572	102346572	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ttttttaattctcataatctCttacatctttattttggtga	9	23	3	6	0	3	1	1	1	3	0	5	1	3	1	0	1	1	0	0	1	4	10			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr15:102346572C>T	uc010utr.1	+	1	650	c.650C>T	c.(649-651)TCT>TTT	p.S217F		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	217	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTCATAATCTCTTACATCTTT	0.368													9	107					0	0	0.006214	0	0		T	102346572	T	T	102346572	3	4	218	1	0	0	0	0	1	0	0	0	11085	913	32	4	652	4	OR4F6	15	102346572	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	1176583	102346572	184820	86	107749											
WFIKKN1	117166	broad.mit.edu	37	chr16	683929	683930	+	Frame_Shift_Ins	INS	-	T	T																															gctggtcatcatgggtgaggINStgcgcgatggcgtggccgtg																										TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr16:683929_683930insT	uc002cht.1	+	2	1761_1762	c.1519_1520insT	c.(1519-1521)GTGfs	p.V507fs	WFIKKN1_uc002chs.1_3'UTR|uc010uuk.1_5'Flank	NM_053284	NP_444514	Q96NZ8	WFKN1_HUMAN	WAP, follistatin/kazal, immunoglobulin, kunitz	507	NTR.					extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity				0		Hepatocellular(780;0.00335)				CATGGGTGAGGTGCGCGATGGC	0.683													3	6	---	---	---	---						.	T	683930	T	T	683929	7	5	218	1	0	1	1	0	0	0	0	0	17384	1261	44	0	1525	0	WFIKKN1	16	683929	Frame_Shift_Ins	INS	-	TCGA-IN-7808-01A-11D-2201-08		683929	89670824	87	107750											
PKD1	5310	broad.mit.edu	37	chr16	2161261	2161261	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	aggctgcgtggggatgcaggCggcgggttcaacgcgcagca	7	5	19	10	5	1	0	1	0	0	0	1	1	1	1	0	6	4	5	0	6	1	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr16:2161261C>T	uc002cos.1	-	15	4116	c.3907G>A	c.(3907-3909)GCC>ACC	p.A1303T	PKD1_uc002cot.1_Missense_Mutation_p.A1303T	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	1303	PKD 8.|Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						GGGATGCAGGCGGCGGGTTCA	0.706													9	16					0	0	0.010729	0	0		T	2161261	T	T	2161261	3	4	218	1	0	0	0	0	1	0	0	0	11982	768	27	1	9132	1	PKD1	16	2161261	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	1477332	2161261	88193492	88	107751											
ALG1	56052	broad.mit.edu	37	chr16	5125503	5125503	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatcatgggtctggtgcatGgccccaaccatcccctcgtt	6	10	9	16	1	2	0	1	0	1	0	4	0	3	0	6	3	2	2	6	3	1	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr16:5125503G>A	uc002cym.2	+	4	546	c.505G>A	c.(505-507)GGC>AGC	p.G169S	ALG1_uc002cyj.2_Missense_Mutation_p.G58S|ALG1_uc002cyn.2_Missense_Mutation_p.G169S|ALG1_uc010bue.2_Missense_Mutation_p.G58S|ALG1_uc010uxy.1_Missense_Mutation_p.G58S	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	beta-1,4-mannosyltransferase	169	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			upper_aerodigestive_tract(1)|ovary(1)	2		Ovarian(90;0.0164)				TCTGGTGCATGGCCCCAACCA	0.542													15	70					0	0	0.006122	0	0		A	5125503	A	A	5125503	3	1	218	1	0	0	0	0	1	0	0	0	510	1348	47	4	519	4	ALG1	16	5125503	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	2964242	5125503	85229250	89	107752											
CHD9	80205	broad.mit.edu	37	chr16	53321899	53321899	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gatccagaatacaaacctgcCccagccatctttaaagatga	15	8	6	12	0	1	3	0	1	1	2	2	4	2	3	5	0	4	0	5	0	5	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr16:53321899C>T	uc002ehb.2	+	26	5384	c.5220C>T	c.(5218-5220)GCC>GCT	p.A1740A	CHD9_uc002egy.2_Silent_p.A1740A|CHD9_uc002ehc.2_Silent_p.A1740A|CHD9_uc002ehf.2_Silent_p.A854A|CHD9_uc010cbw.2_Silent_p.A108A	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	1740					cellular lipid metabolic process|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleoplasm	ATP binding|DNA binding|helicase activity|protein binding			lung(2)|central_nervous_system(1)|breast(1)|skin(1)|ovary(1)|kidney(1)	7		all_cancers(37;0.0212)				ACAAACCTGCCCCAGCCATCT	0.323													21	48					0	0	0.037714	0	0		T	53321899	T	T	53321899	2	4	218	1	0	0	0	0	0	0	0	1	3335	610	22	4		4	CHD9	16	53321899	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	48196396	53321899	37032854	90	107753											
CDH1	999	broad.mit.edu	37	chr16	68845649	68845649	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgtgaacacctacaatgccGccatcgcttacaccatcctc	11	9	5	16	2	0	1	0	1	0	0	3	1	1	1	5	0	4	1	5	0	4	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr16:68845649G>T	uc002ewg.1	+	7	1019	c.895G>T	c.(895-897)GCC>TCC	p.A299S	CDH1_uc010vlj.1_RNA|CDH1_uc010cfg.1_Missense_Mutation_p.A299S	NM_004360	NP_004351	P12830	CADH1_HUMAN	cadherin 1, type 1 preproprotein	299	Cadherin 2.|Extracellular (Potential).				adherens junction organization|cellular component disassembly involved in apoptosis|cellular response to indole-3-methanol|cellular response to lithium ion|homophilic cell adhesion|negative regulation of cell-cell adhesion|positive regulation of transcription factor import into nucleus|positive regulation of transcription, DNA-dependent|regulation of immune response	actin cytoskeleton|aggresome|apical junction complex|catenin complex|cell-cell adherens junction|endosome|focal adhesion|Golgi apparatus|integral to membrane|internal side of plasma membrane|lateral plasma membrane|perinuclear region of cytoplasm	cell adhesion molecule binding|gamma-catenin binding			breast(148)|stomach(71)|biliary_tract(8)|endometrium(3)|soft_tissue(2)|large_intestine(2)|urinary_tract(2)|oesophagus(2)|ovary(2)|thyroid(1)|central_nervous_system(1)|lung(1)	243		all_neural(199;0.0189)|Ovarian(137;0.0563)		Epithelial(162;8.44e-05)|all cancers(182;0.000404)|OV - Ovarian serous cystadenocarcinoma(108;0.000426)|BRCA - Breast invasive adenocarcinoma(181;0.0261)		CTACAATGCCGCCATCGCTTA	0.502			Mis|N|F|S		lobular breast|gastric	gastric			Hereditary_Diffuse_Gastric_Cancer				22	58					1.17739e-12	1.32573e-12	0.027356	1	0		T	68845649	T	T	68845649	3	4	218	1	0	0	0	0	1	0	0	0	3098	1087	38	5	921	5	CDH1	16	68845649	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	15523750	68845649	21509104	91	107754											
TP53	7157	broad.mit.edu	37	chr17	7577538	7577538	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tgatggtgaggatgggcctcCggttcatgccgcccatgcag	6	9	15	11	2	1	2	1	2	0	0	2	3	2	3	4	4	2	2	4	4	0	1	rs11540652		TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr17:7577538C>T	uc002gim.2	-	7	937	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	TP53_uc002gig.1_Missense_Mutation_p.R248Q|TP53_uc002gih.2_Missense_Mutation_p.R248Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116Q|TP53_uc010cng.1_Missense_Mutation_p.R116Q|TP53_uc002gii.1_Missense_Mutation_p.R116Q|TP53_uc010cnh.1_Missense_Mutation_p.R248Q|TP53_uc010cni.1_Missense_Mutation_p.R248Q|TP53_uc002gij.2_Missense_Mutation_p.R248Q|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.R155Q|TP53_uc002gio.2_Missense_Mutation_p.R116Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(523)|p.R248W(443)|p.R248L(63)|p.R248P(12)|p.R248G(11)|p.R248R(10)|p.0?(7)|p.R155Q(4)|p.N247_R248delNR(2)|p.N247_R248>KW(2)|p.M246_P250delMNRRP(2)|p.R248fs*97(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		GATGGGCCTCCGGTTCATGCC	0.572	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			34	56					0	0	0.021022	0	0		T	7577538	T	T	7577538	3	4	218	1	0	0	0	0	1	0	0	0	16407	652	23	1	547	1	TP53	17	7577538	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		7577538	73617672	92	107755											
MYH4	4622	broad.mit.edu	37	chr17	10369949	10369949	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccttagggtccaccacaaaGactgatgtcttggcatcaaa	12	10	8	11	0	2	2	1	1	1	1	4	2	4	2	3	2	0	1	3	2	3	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr17:10369949G>T	uc002gmn.2	-	3	225	c.114C>A	c.(112-114)GTC>GTA	p.V38V	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	38	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CCACCACAAAGACTGATGTCT	0.507													54	91					2.76378e-25	3.18727e-25	0.01441	1	0		T	10369949	T	T	10369949	2	4	218	1	0	0	0	0	0	0	0	1	10055	929	33	5		5	MYH4	17	10369949	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	2792411	10369949	70825261	93	107756											
NCOR1	9611	broad.mit.edu	37	chr17	15989742	15989742	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	attagttatcacttgatgtgGagcaggctgaaggactttta	11	14	11	5	0	1	2	1	2	0	0	1	4	1	4	0	3	1	3	0	3	4	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr17:15989742G>A	uc002gpo.2	-	23	3271	c.3031C>T	c.(3031-3033)CCA>TCA	p.P1011S	NCOR1_uc002gpn.2_Missense_Mutation_p.P1027S|NCOR1_uc002gpp.1_Missense_Mutation_p.P918S|NCOR1_uc002gpq.1_Missense_Mutation_p.P103S	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	1011	Interaction with ETO.				cellular lipid metabolic process|chromatin modification|negative regulation of JNK cascade|regulation of glycolysis by negative regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by negative regulation of transcription from an RNA polymerase II promoter|spindle assembly|transcription from RNA polymerase II promoter	nuclear chromatin|spindle microtubule|transcriptional repressor complex	histone deacetylase binding|transcription corepressor activity|transcription regulatory region DNA binding			upper_aerodigestive_tract(2)|ovary(1)|central_nervous_system(1)|kidney(1)	5				UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		ACTTGATGTGGAGCAGGCTGA	0.443													15	24					0	0	0.0333	0	0		A	15989742	A	A	15989742	3	1	218	1	0	0	0	0	1	0	0	0	10254	1174	41	4	4387	4	NCOR1	17	15989742	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	5619793	15989742	65205468	94	107757											
EFTUD2	9343	broad.mit.edu	37	chr17	42931680	42931680	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggttccccactggaaaccTtgaacgatgctgtccttcac	8	11	8	14	1	1	1	1	1	0	0	3	3	3	2	4	2	3	2	4	2	2	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr17:42931680T>G	uc002ihn.2	-	23	2565	c.2304A>C	c.(2302-2304)CAA>CAC	p.Q768H	EFTUD2_uc010wje.1_Missense_Mutation_p.Q733H|EFTUD2_uc010wjf.1_Missense_Mutation_p.Q758H	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	768						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				ACTGGAAACCTTGAACGATGC	0.562													13	132					0	0	0.020292	0	0		G	42931680	G	G	42931680	3	3	218	1	0	0	0	0	1	0	0	0	4967	1606	56	5	638	5	EFTUD2	17	42931680	Missense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08	26941938	42931680	38263530	95	107758											
KIAA1267	284058	broad.mit.edu	37	chr17	44249491	44249491	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agctgctgcgtcagtgagagCgggcgccatcgcagccattc	7	7	14	13	4	1	1	1	1	0	1	3	2	1	1	2	1	5	3	2	1	0	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr17:44249491C>T	uc002ikb.2	-	1	104	c.19G>A	c.(19-21)GCT>ACT	p.A7T	KIAA1267_uc002ikc.2_Missense_Mutation_p.A7T|KIAA1267_uc002ikd.2_Missense_Mutation_p.A7T|KIAA1267_uc010dav.2_Missense_Mutation_p.A7T	NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058	7						MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				TCAGTGAGAGCGGGCGCCATC	0.622													8	65					0	0	0.004482	0	0		T	44249491	T	T	44249491	3	4	218	1	0	0	0	0	1	0	0	0	8235	768	27	1	3354	1	KIAA1267	17	44249491	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	1317811	44249491	36945719	96	107759											
EPX	8288	broad.mit.edu	37	chr17	56270828	56270828	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accaggacagttgttcgggcCgcagattatatgcatgtggc	9	10	13	9	2	0	1	0	0	0	1	1	2	0	2	2	3	1	4	2	3	2	4	rs138191637		TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr17:56270828C>T	uc002ivq.2	+	3	353	c.267C>T	c.(265-267)GCC>GCT	p.A89A		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	89					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						TTGTTCGGGCCGCAGATTATA	0.572													9	57					0	0	0.006214	0	0		T	56270828	T	T	56270828	2	4	218	1	0	0	0	0	0	0	0	1	5208	639	23	1		1	EPX	17	56270828	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	12021337	56270828	24924382	97	107760											
LAMA1	284217	broad.mit.edu	37	chr18	7037734	7037734	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaagtcggtgaccagccacCcggacatactgtttacctta	10	10	8	13	2	1	1	1	1	0	0	2	2	1	2	4	2	3	1	4	2	4	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr18:7037734C>G	uc002knm.2	-	12	1674	c.1580G>C	c.(1579-1581)GGG>GCG	p.G527A	LAMA1_uc010wzj.1_Missense_Mutation_p.G3A	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	527	Laminin IV type A 1.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GACCAGCCACCCGGACATACT	0.453													7	41					0	0	0.00308	0	0		G	7037734	G	G	7037734	3	3	218	1	0	0	0	0	1	0	0	0	8621	623	22	5	7855	5	LAMA1	18	7037734	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		7037734	71039514	98	107761											
ESCO1	114799	broad.mit.edu	37	chr18	19110421	19110421	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gagaaagcaatttcttctttGctcaaatatgagccatatat	14	14	6	7	0	3	2	1	1	2	1	3	3	3	2	1	0	3	2	1	0	6	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr18:19110421G>C	uc002kth.1	-	12	3340	c.2406C>G	c.(2404-2406)AGC>AGG	p.S802R	ESCO1_uc002kti.1_RNA	NM_052911	NP_443143	Q5FWF5	ESCO1_HUMAN	establishment of cohesion 1 homolog 1	802					cell cycle|post-translational protein acetylation|regulation of DNA replication	chromatin|nucleus	acyltransferase activity|metal ion binding				0						TTTCTTCTTTGCTCAAATATG	0.333													10	55					0	0	0.008291	0	0		C	19110421	C	C	19110421	3	2	218	1	0	0	0	0	1	0	0	0	5256	1310	46	5	120	5	ESCO1	18	19110421	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	12072687	19110421	58966827	99	107762											
ZNF521	25925	broad.mit.edu	37	chr18	22671939	22671939	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aagcagactggacacttgaaGgtgcctcccatcccttcgaa	11	8	9	13	1	0	2	0	1	0	1	3	4	2	3	3	2	2	1	3	2	3	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr18:22671939G>T	uc002kvk.2	-	6	4012	c.3765C>A	c.(3763-3765)ACC>ACA	p.T1255T	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.T1255T|ZNF521_uc002kvl.2_Silent_p.T1035T	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	1255					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein domain specific binding|zinc ion binding			ovary(4)|large_intestine(2)|lung(1)	7	all_cancers(21;0.0025)|all_epithelial(16;3.62e-05)|Ovarian(20;0.0991)					GACACTTGAAGGTGCCTCCCA	0.498			T	PAX5	ALL								6	40					5.18039e-06	5.65493e-06	0.00308	1	0		T	22671939	T	T	22671939	2	4	218	1	0	0	0	0	0	0	0	1	17990	987	35	5		5	ZNF521	18	22671939	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	3561518	22671939	55405309	100	107763											
DSG4	147409	broad.mit.edu	37	chr18	28983413	28983413	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	acagctacaggaaccatatgTattgaggttcctgatatcaa	14	11	8	8	0	1	2	1	2	0	0	2	3	2	3	2	2	3	3	2	2	6	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr18:28983413T>C	uc002kwq.2	+	11	1587	c.1452T>C	c.(1450-1452)TGT>TGC	p.C484C	DSG4_uc002kwr.2_Silent_p.C484C	NM_177986	NP_817123	Q86SJ6	DSG4_HUMAN	desmoglein 4 isoform 2 preproprotein	484	Extracellular (Potential).|Cadherin 4.				homophilic cell adhesion	desmosome|integral to membrane	calcium ion binding			central_nervous_system(5)|ovary(3)	8			OV - Ovarian serous cystadenocarcinoma(10;0.00504)			GAACCATATGTATTGAGGTTC	0.388													5	19					0	0	0.014758	0	0		C	28983413	C	C	28983413	2	2	218	1	0	0	0	0	0	0	0	1	4785	1644	57	3		3	DSG4	18	28983413	Silent	SNP	T	TCGA-IN-7808-01A-11D-2201-08	6311474	28983413	49093835	101	107764											
NEDD4L	23327	broad.mit.edu	37	chr18	55996338	55996338	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gacttggagcccgagccctcGgagggcggggatgtccccga	6	5	17	13	4	0	0	0	0	0	0	2	6	1	3	4	5	2	0	4	5	0	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr18:55996338G>A	uc002lgy.2	+	10	1066	c.792G>A	c.(790-792)TCG>TCA	p.S264S	NEDD4L_uc002lgz.2_Silent_p.S264S|NEDD4L_uc002lgx.2_Silent_p.S264S|NEDD4L_uc010xee.1_Silent_p.S143S|NEDD4L_uc002lhc.2_Silent_p.S256S|NEDD4L_uc002lhd.2_Silent_p.S143S|NEDD4L_uc002lhb.2_Silent_p.S143S|NEDD4L_uc002lhe.2_Silent_p.S256S|NEDD4L_uc002lhf.2_Silent_p.S143S|NEDD4L_uc002lhg.2_Silent_p.S143S|NEDD4L_uc002lhh.2_Silent_p.S143S|NEDD4L_uc010dpm.1_Silent_p.S115S	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	264					cellular sodium ion homeostasis|excretion|interspecies interaction between organisms|positive regulation of endocytosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of protein catabolic process|response to metal ion|sodium ion transport|water homeostasis	cytoplasm	protein binding|sodium channel regulator activity|ubiquitin-protein ligase activity			lung(4)	4						CCGAGCCCTCGGAGGGCGGGG	0.572													3	17					0	0	0.009096	0	0		A	55996338	A	A	55996338	2	1	218	1	0	0	0	0	0	0	0	1	10330	1103	39	1		1	NEDD4L	18	55996338	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	27012925	55996338	22080910	102	107765											
WDR18	57418	broad.mit.edu	37	chr19	992107	992107	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ggggcctcactctgcgcctgGgcctccaccagcaggtacgg	5	6	14	16	2	2	0	1	0	1	0	3	0	3	0	5	5	3	2	5	5	1	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:992107G>A	uc002lqm.1	+	8	1110	c.1084G>A	c.(1084-1086)GGC>AGC	p.G362S	WDR18_uc002lqn.1_RNA|WDR18_uc010drx.1_Missense_Mutation_p.G325S|WDR18_uc010dry.1_Missense_Mutation_p.G362S	NM_024100	NP_077005	Q9BV38	WDR18_HUMAN	WD repeat domain 18	362										skin(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		TCTGCGCCTGGGCCTCCACCA	0.716													8	5					0	0	0.006214	0	0		A	992107	A	A	992107	3	1	218	1	0	0	0	0	1	0	0	0	17304	1232	43	4	1114	4	WDR18	19	992107	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08		992107	58136876	103	107766											
TUBB4	10382	broad.mit.edu	37	chr19	6496043	6496043	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgcggtctgggaactcctcgCggatcttactgatgagcagc	7	10	13	11	3	2	2	0	2	2	0	4	4	3	4	1	3	5	1	1	3	2	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:6496043C>T	uc002mfg.1	-	4	574	c.467G>A	c.(466-468)CGC>CAC	p.R156H	TUBB4_uc002mff.1_Missense_Mutation_p.R84H|MIR220B_hsa-mir-220b|MI0005529_RNA	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	156					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GAACTCCTCGCGGATCTTACT	0.637													40	94					0	0	0.027894	0	0		T	6496043	T	T	6496043	3	4	218	1	0	0	0	0	1	0	0	0	16784	768	27	1	871	1	TUBB4	19	6496043	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	5503936	6496043	52632940	104	107767											
LASS4	79603	broad.mit.edu	37	chr19	8316115	8316115	+	Missense_Mutation	SNP	T	A	A	0	1	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	ggcgctggtcctcctggccaTgcgccttgcctttgagaggt	3	11	14	13	2	0	1	0	1	0	1	2	2	2	1	5	4	2	1	5	4	0	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:8316115T>A	uc002mjg.2	+	3	475	c.155T>A	c.(154-156)ATG>AAG	p.M52K	LASS4_uc002mjh.2_Missense_Mutation_p.M1K|LASS4_uc002mji.2_Intron|LASS4_uc010dvz.2_Missense_Mutation_p.M52K	NM_024552	NP_078828	Q9HA82	CERS4_HUMAN	LAG1 homolog, ceramide synthase 4	52	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			ovary(1)	1						CTCCTGGCCATGCGCCTTGCC	0.622													72	101					0	0	0.01441	0	0		A	8316115	A	A	8316115	3	1	218	1	0	0	0	0	1	0	0	0	8657	1464	51	5	157	5	LASS4	19	8316115	Missense_Mutation	SNP	T	TCGA-IN-7808-01A-11D-2201-08	1820072	8316115	50812868	105	107768											
ZNF85	7639	broad.mit.edu	37	chr19	21132969	21132969	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tggcaaagcctttaaccagtCctcaaaccttactaaacata	15	10	4	12	0	1	0	1	0	0	0	2	0	2	0	4	1	5	1	4	1	7	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:21132969C>T	uc002npg.3	+	4	1776	c.1649C>T	c.(1648-1650)TCC>TTC	p.S550F	ZNF85_uc010ecn.2_Missense_Mutation_p.S485F|ZNF85_uc010eco.2_Missense_Mutation_p.S498F|ZNF85_uc002npi.2_Missense_Mutation_p.S491F	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85	550	C2H2-type 15.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						TTTAACCAGTCCTCAAACCTT	0.348													17	40					0	0	0.008871	0	0		T	21132969	T	T	21132969	3	4	218	1	0	0	0	0	1	0	0	0	18218	855	30	4	1663	4	ZNF85	19	21132969	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	12816854	21132969	37996014	106	107769											
ZNF208	7757	broad.mit.edu	37	chr19	22154592	22154592	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttcacatttgtagggttcctCtccagcatgagttgccttat	7	16	8	10	0	2	1	1	1	1	0	4	1	3	1	3	1	2	4	3	1	2	6			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:22154592C>A	uc002nqp.2	-	6	3009	c.2860G>T	c.(2860-2862)GAG>TAG	p.E954*	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TAGGGTTCCTCTCCAGCATGA	0.438													50	114					3.76997e-23	4.31284e-23	0.01441	1	0		A	22154592	A	A	22154592	4	1	218	1	0	0	0	0	0	1	0	0	17791	922	32	5	602	5	ZNF208	19	22154592	Nonsense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	1021623	22154592	36974391	107	107770											
WDR88	126248	broad.mit.edu	37	chr19	33628609	33628609	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tttaaaattctgagtgggcaCgagcacgctgtgagcacctg	10	10	12	9	2	1	2	0	2	1	0	1	3	1	2	1	1	2	4	1	1	2	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:33628609C>T	uc002nui.2	+	2	381	c.303C>T	c.(301-303)CAC>CAT	p.H101H		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	101	WD 1.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					TGAGTGGGCACGAGCACGCTG	0.408													5	70					0	0	0.00308	0	0		T	33628609	T	T	33628609	2	4	218	1	0	0	0	0	0	0	0	1	17361	535	19	1		1	WDR88	19	33628609	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	11474017	33628609	25500374	108	107771											
WDR88	126248	broad.mit.edu	37	chr19	33651380	33651380	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tatttgggatgtagcagaagGctaccggaagctctctttga	10	12	12	7	1	1	2	0	1	1	1	2	4	1	4	1	3	3	4	1	3	5	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:33651380G>A	uc002nui.2	+	8	1136	c.1058G>A	c.(1057-1059)GGC>GAC	p.G353D		NM_173479	NP_775750	Q6ZMY6	WDR88_HUMAN	PQQ repeat and WD repeat domain containing	353	WD 6.									ovary(1)|breast(1)|central_nervous_system(1)	3	Esophageal squamous(110;0.137)					GTAGCAGAAGGCTACCGGAAG	0.438													19	187					0	0	0.008871	0	0		A	33651380	A	A	33651380	3	1	218	1	0	0	0	0	1	0	0	0	17361	1203	42	2	1088	2	WDR88	19	33651380	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	22771	33651380	25477603	109	107772											
ZNF382	84911	broad.mit.edu	37	chr19	37118196	37118196	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gggggaaaaaccctatatttGtaatgaatgtgggaagtcct	13	11	12	5	0	0	1	0	1	0	0	1	3	1	3	2	3	1	1	2	3	7	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:37118196G>T	uc002oek.2	+	5	1510	c.1397G>T	c.(1396-1398)TGT>TTT	p.C466F	ZNF382_uc010efa.2_Missense_Mutation_p.C417F|ZNF382_uc010efb.2_Missense_Mutation_p.C465F|ZNF382_uc002oel.2_Missense_Mutation_p.C465F	NM_032825	NP_116214	Q96SR6	ZN382_HUMAN	zinc finger protein 382	466	Required for transcriptional repression activity; probably mediates sequence- specific DNA-binding (By similarity).|C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)			CCCTATATTTGTAATGAATGT	0.448													7	47					0.00198382	0.0020707	0.02938	1	0		T	37118196	T	T	37118196	3	4	218	1	0	0	0	0	1	0	0	0	17898	1377	48	5	1407	5	ZNF382	19	37118196	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	3466816	37118196	22010787	110	107773											
LTBP4	8425	broad.mit.edu	37	chr19	41119862	41119862	+	Silent	SNP	C	G	G	0	0	0	1	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	gaggacctttgccagagcggCatctgtaccaacaccgacgg	10	6	12	13	3	1	1	0	0	1	1	1	4	1	2	4	3	4	2	4	3	2	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:41119862C>G	uc002ooh.1	+	21	2799	c.2799C>G	c.(2797-2799)GGC>GGG	p.G933G	LTBP4_uc002oog.1_Silent_p.G896G|LTBP4_uc002ooi.1_Silent_p.G866G|LTBP4_uc002ooj.1_5'UTR|LTBP4_uc002ook.1_Silent_p.G153G|LTBP4_uc002ool.1_Silent_p.G31G|LTBP4_uc002oom.1_RNA|LTBP4_uc010xvp.1_5'Flank	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding	933	Cys-rich.|EGF-like 11; calcium-binding (Potential).				growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			GCCAGAGCGGCATCTGTACCA	0.692													9	35					0	0	0.004482	0	0		G	41119862	G	G	41119862	2	3	218	1	0	0	0	0	0	0	0	1	9094	697	25	5		5	LTBP4	19	41119862	Silent	SNP	C	TCGA-IN-7808-01A-11D-2201-08	4001666	41119862	18009121	111	107774											
MEGF8	1954	broad.mit.edu	37	chr19	42853692	42853692	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gctcatcaggagaaggagacGcggcggctgcagcgccctgg	8	4	17	12	4	2	2	2	0	0	2	2	4	2	2	1	5	2	3	1	5	1	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:42853692G>A	uc002otl.3	+	13	2774	c.2139G>A	c.(2137-2139)ACG>ACA	p.T713T	MEGF8_uc002otm.3_Silent_p.T321T	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	780	Extracellular (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)				AGAAGGAGACGCGGCGGCTGC	0.642													3	19					0	0	0.004672	0	0		A	42853692	A	A	42853692	2	1	218	1	0	0	0	0	0	0	0	1	9481	1074	38	1		1	MEGF8	19	42853692	Silent	SNP	G	TCGA-IN-7808-01A-11D-2201-08	1733830	42853692	16275291	112	107775											
KIR2DL1	3802	broad.mit.edu	37	chr19	55284925	55284925	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggatgtttaacgacactttgCgcctcattggagaacaccat	11	11	9	10	2	1	1	1	0	0	1	1	4	1	2	2	2	3	1	2	2	2	4			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:55284925C>T	uc002qhb.1	+	3	249	c.211C>T	c.(211-213)CGC>TGC	p.R71C	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR2DL3_uc010erw.1_Intron|KIR2DL1_uc002qgz.1_Intron|KIR2DL3_uc002qha.1_Intron|KIR3DP1_uc010yfi.1_Intron|KIR2DL1_uc010erz.1_Missense_Mutation_p.R71C	NM_014218	NP_055033	P43626	KI2L1_HUMAN	killer cell immunoglobulin-like receptor, two	71	Extracellular (Potential).|Ig-like C2-type 1.				immune response|natural killer cell inhibitory signaling pathway	integral to plasma membrane	protein binding|receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		CGACACTTTGCGCCTCATTGG	0.507													20	180					0	0	0.024334	0	0		T	55284925	T	T	55284925	3	4	218	1	0	0	0	0	1	0	0	0	8332	768	27	1	221	1	KIR2DL1	19	55284925	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	12431233	55284925	3844058	113	107776											
NLRP7	199713	broad.mit.edu	37	chr19	55450893	55450893	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gagcctttccaggtcctctcGgtggaacacggacatctgcg	7	9	12	13	3	2	0	0	0	2	0	5	3	4	2	3	4	3	0	3	4	1	1	rs104895530		TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:55450893G>A	uc002qih.3	-	4	1370	c.1294C>T	c.(1294-1296)CGA>TGA	p.R432*	NLRP7_uc002qig.3_Nonsense_Mutation_p.R432*|NLRP7_uc002qii.3_Nonsense_Mutation_p.R432*|NLRP7_uc010esk.2_Nonsense_Mutation_p.R432*|NLRP7_uc010esl.2_Nonsense_Mutation_p.R460*	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	432	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		AGGTCCTCTCGGTGGAACACG	0.687													8	50					0	0	0.006214	0	0		A	55450893	A	A	55450893	4	1	218	1	0	0	0	0	0	1	0	0	10501	1124	39	1	1851	1	NLRP7	19	55450893	Nonsense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08	165968	55450893	3678090	114	107777											
ZNF471	57573	broad.mit.edu	37	chr19	57036978	57036978	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	attcatactggagagaagccTtatgaatgtattgaatgtgg	13	13	11	4	0	1	3	1	2	0	1	1	5	1	4	1	2	2	1	1	2	6	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:57036978T>G	uc002qnh.2	+	5	1675	c.1542T>G	c.(1540-1542)CCT>CCG	p.P514P		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	514					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		GAGAGAAGCCTTATGAATGTA	0.373													20	70					0	0	0.008871	0	0		G	57036978	G	G	57036978	2	3	218	1	0	0	0	0	0	0	0	1	17955	1596	56	5		5	ZNF471	19	57036978	Silent	SNP	T	TCGA-IN-7808-01A-11D-2201-08	1586085	57036978	2092005	115	107778											
ZNF132	7691	broad.mit.edu	37	chr19	58944765	58944765	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccacactggctacactcataAgtcctttctctggtgtgaac	9	12	7	13	0	2	1	1	1	1	0	4	1	3	1	2	2	2	1	2	2	3	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr19:58944765A>G	uc002qst.3	-	3	2447	c.2046T>C	c.(2044-2046)ACT>ACC	p.T682T		NM_003433	NP_003424	P52740	ZN132_HUMAN	zinc finger protein 132	682						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		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)		TACACTCATAAGTCCTTTCTC	0.443													32	127					0	0	0.023175	0	0		G	58944765	G	G	58944765	2	3	218	1	0	0	0	0	0	0	0	1	17747	59	3	3		3	ZNF132	19	58944765	Silent	SNP	A	TCGA-IN-7808-01A-11D-2201-08	1907787	58944765	184218	116	107779											
TGM6	343641	broad.mit.edu	37	chr20	2398117	2398117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acctcacctcccgggcccagCgggtgagggtcaacctgagc	7	5	13	16	2	2	2	2	2	0	0	3	2	3	2	5	3	3	0	5	3	1	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr20:2398117C>T	uc002wfy.1	+	10	1637	c.1576C>T	c.(1576-1578)CGG>TGG	p.R526W	TGM6_uc010gal.1_Missense_Mutation_p.R526W	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	526					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	CCGGGCCCAGCGGGTGAGGGT	0.647													12	22					0	0	0.013537	0	0		T	2398117	T	T	2398117	3	4	218	1	0	0	0	0	1	0	0	0	15859	759	27	1	1614	1	TGM6	20	2398117	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		2398117	60627403	117	107780											
SSTR4	6754	broad.mit.edu	37	chr20	23016224	23016224	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tccggcggaggcggaggaggCggtggcggggcccggggacg	4	2	25	10	7	0	0	0	0	0	0	1	4	1	4	2	12	0	0	2	12	0	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr20:23016224C>T	uc002wsr.2	+	1	168	c.104C>T	c.(103-105)GCG>GTG	p.A35V		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	35	Extracellular (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			ovary(1)	1	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					GCGGAGGAGGCGGTggcgggg	0.612													4	42					0	0	0.009096	0	0		T	23016224	T	T	23016224	3	4	218	1	0	0	0	0	1	0	0	0	15225	768	27	1	106	1	SSTR4	20	23016224	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	20618107	23016224	40009296	118	107781											
CHMP4B	128866	broad.mit.edu	37	chr20	32436452	32436452	+	Splice_Site	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggcggcccatgacaacatgTacgtgtccacccgcccctgc	8	6	10	17	3	0	1	0	1	0	0	1	1	1	1	5	2	3	1	5	2	2	1			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr20:32436452T>C	uc002xaa.2	+	2	524	c.368_splice	c.e2+2	p.M123_splice		NM_176812	NP_789782	Q9H444	CHM4B_HUMAN	chromatin modifying protein 4B						cellular membrane organization|endosome transport|protein transport	cytosol|late endosome membrane	protein binding			ovary(1)|central_nervous_system(1)	2						TGACAACATGTACGTGTCCAC	0.612													4	29					0	0	0.014758	0	0		C	32436452	C	C	32436452	5	2	218	1	0	0	0	0	0	0	1	0	3360	1652	57	3	376	3	CHMP4B	20	32436452	Splice_Site	SNP	T	TCGA-IN-7808-01A-11D-2201-08	9420228	32436452	30589068	119	107782											
ARFGEF2	10564	broad.mit.edu	37	chr20	47633918	47633918	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tattttcaaaacaaccatccCacatgtgtaagtgttcatgc	13	13	5	10	0	2	0	2	0	0	0	3	0	3	0	2	0	3	2	2	0	5	5			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr20:47633918C>T	uc002xtx.3	+	32	4600	c.4448C>T	c.(4447-4449)CCA>CTA	p.P1483L	ARFGEF2_uc010zyf.1_Missense_Mutation_p.P776L	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1483					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			ACAACCATCCCACATGTGTAA	0.373													9	165					0	0	0.010729	0	0		T	47633918	T	T	47633918	3	4	218	1	0	0	0	0	1	0	0	0	853	594	21	4	4574	4	ARFGEF2	20	47633918	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	15197466	47633918	15391602	120	107783											
ZNF512B	57473	broad.mit.edu	37	chr20	62591290	62591290	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccttccggccggtggagcccCgggcccccttgtctctgcat	2	9	12	18	3	1	0	0	0	1	0	3	1	2	1	7	4	2	1	7	4	0	2			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr20:62591290C>T	uc002yhl.1	-	17	2684	c.2630G>A	c.(2629-2631)CGG>CAG	p.R877Q		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	877					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					GGTGGAGCCCCGGGCCCCCTT	0.711													12	30					0	0	0.013537	0	0		T	62591290	T	T	62591290	3	4	218	1	0	0	0	0	1	0	0	0	17982	652	23	1	52	1	ZNF512B	20	62591290	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	14957372	62591290	434230	121	107784											
CSF2RB	1439	broad.mit.edu	37	chr22	37331476	37331476	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tccgcttctgtggcatctacGggtacaggtgaggggactct	6	11	14	10	2	3	1	0	1	3	0	4	2	4	2	1	5	2	3	1	5	2	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr22:37331476G>A	uc003aqa.3	+	11	1616	c.1399G>A	c.(1399-1401)GGG>AGG	p.G467R	CSF2RB_uc003aqc.3_Missense_Mutation_p.G473R	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	467	Cytoplasmic (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	TGGCATCTACGGGTACAGGTG	0.662													9	44					0	0	0.006214	0	0		A	37331476	A	A	37331476	3	1	218	1	0	0	0	0	1	0	0	0	3938	1116	39	1	1437	1	CSF2RB	22	37331476	Missense_Mutation	SNP	G	TCGA-IN-7808-01A-11D-2201-08		37331476	13973090	122	107785											
MICALL1	85377	broad.mit.edu	37	chr22	38323469	38323469	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccgccctcggccacaccatCgccagcgctcagcgtggaga	7	4	12	18	5	1	1	1	0	0	1	3	2	1	1	5	2	2	1	5	2	0	0			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chr22:38323469C>T	uc003aui.2	+	9	1601	c.1517C>T	c.(1516-1518)TCG>TTG	p.S506L		NM_033386	NP_203744	Q8N3F8	MILK1_HUMAN	molecule interacting with Rab13	506	Pro-rich.					cytoplasm|cytoskeleton	protein binding|zinc ion binding			breast(1)	1	Melanoma(58;0.045)					GCCACACCATCGCCAGCGCTC	0.677													3	13					0	0	0.009096	0	0		T	38323469	T	T	38323469	3	4	218	1	0	0	0	0	1	0	0	0	9591	893	31	1	1551	1	MICALL1	22	38323469	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08	991993	38323469	12981097	123	107786											
AFF2	2334	broad.mit.edu	37	chrX	147743964	147743964	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatctttcaatccaattcacCggaagaatctgaattcgccg	13	11	6	11	3	4	2	2	1	2	1	6	3	5	3	3	1	0	0	3	1	6	3			TCGA-IN-7808-01A-11D-2201-08	TCGA-IN-7808-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	be1f362d-e971-44b7-bcbb-6f9847d2089f	61d934db-293d-4f2f-b0c1-e7b60a93e314	g.chrX:147743964C>T	uc004fcp.2	+	3	1195	c.716C>T	c.(715-717)CCG>CTG	p.P239L	AFF2_uc004fco.2_Missense_Mutation_p.P235L|AFF2_uc004fcq.2_Missense_Mutation_p.P235L|AFF2_uc004fcr.2_Missense_Mutation_p.P235L|AFF2_uc011mxb.1_Missense_Mutation_p.P239L|AFF2_uc004fcs.2_Missense_Mutation_p.P235L	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	239					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TCCAATTCACCGGAAGAATCT	0.453													72	66					0	0	0.01441	0	0		T	147743964	T	T	147743964	3	4	218	1	0	0	0	0	1	0	0	0	357	652	23	1	726	1	AFF2	23	147743964	Missense_Mutation	SNP	C	TCGA-IN-7808-01A-11D-2201-08		147743964	7526596	124	107787											
KLHL21	9903	broad.mit.edu	37	chr1	6653646	6653646	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctctaccacgtccgagagttCaaatgtattgtcgtatcccc	9	12	7	13	3	2	1	1	0	1	1	5	2	4	1	4	0	1	3	4	0	4	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:6653646C>A	uc001aoa.2	-	4	1625	c.1573G>T	c.(1573-1575)GAA>TAA	p.E525*	KLHL21_uc001anz.1_3'UTR|KLHL21_uc009vme.2_Nonsense_Mutation_p.E158*	NM_014851	NP_055666	Q9UJP4	KLH21_HUMAN	kelch-like 21	525	Kelch 6.				anaphase|cytokinesis|mitosis|protein ubiquitination	Cul3-RING ubiquitin ligase complex|cytoplasm|polar microtubule				central_nervous_system(1)	1	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;1.36e-07)|COAD - Colon adenocarcinoma(227;1.4e-05)|Kidney(185;4.95e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000528)|KIRC - Kidney renal clear cell carcinoma(229;0.000927)|STAD - Stomach adenocarcinoma(132;0.0172)|READ - Rectum adenocarcinoma(331;0.0644)		TCCGAGAGTTCAAATGTATTG	0.607													5	25					0.000602214	0.000638492	0.000602	1	0		A	6653646	A	A	6653646	4	1	219	1	0	0	0	0	0	1	0	0	8392	835	29	5	224	5	KLHL21	1	6653646	Nonsense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		6653646	242596975	1	107788											
AKR7A3	22977	broad.mit.edu	37	chr1	19612421	19612421	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	atccagccgttgctcttgcaGagggtacagatctcggccac	8	9	11	13	2	2	2	0	0	2	2	4	2	3	2	3	2	4	4	3	2	1	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:19612421G>C	uc001bbv.1	-	3	545	c.468C>G	c.(466-468)CTC>CTG	p.L156L		NM_012067	NP_036199	O95154	ARK73_HUMAN	aldo-keto reductase family 7, member A3	156					cellular aldehyde metabolic process	cytosol	aldo-keto reductase (NADP) activity|electron carrier activity				0		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)		TGCTCTTGCAGAGGGTACAGA	0.587													11	35					0	0	0.010729	0	0		C	19612421	C	C	19612421	2	2	219	1	0	0	0	0	0	0	0	1	476	929	33	5		5	AKR7A3	1	19612421	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	12958775	19612421	229638200	2	107789											
DLGAP3	58512	broad.mit.edu	37	chr1	35370318	35370318	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggtggtgatggtggtgatGggaggtgtgggggcctccag	4	10	23	4	0	0	2	0	2	0	0	1	3	1	3	2	8	0	0	2	8	0	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:35370318G>T	uc001byc.2	-	1	667	c.667C>A	c.(667-669)CAT>AAT	p.H223N		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	223	Poly-His.				cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				tggtggtgatggGAGGTGTGG	0.552													12	47					9.05144e-12	1.07639e-11	0.001855	1	0		T	35370318	T	T	35370318	3	4	219	1	0	0	0	0	1	0	0	0	4567	1348	47	5	2312	5	DLGAP3	1	35370318	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	15757897	35370318	213880303	3	107790											
TIE1	7075	broad.mit.edu	37	chr1	43778104	43778104	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgctgcgcctgtgggacGggacacgggggcaggagcgg	5	5	20	11	4	0	0	0	0	0	0	1	3	1	3	2	6	3	2	2	6	0	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:43778104G>A	uc001ciu.2	+	12	1838	c.1759G>A	c.(1759-1761)GGG>AGG	p.G587R	TIE1_uc010okd.1_Missense_Mutation_p.G587R|TIE1_uc010oke.1_Missense_Mutation_p.G542R|TIE1_uc009vwq.2_Missense_Mutation_p.G543R|TIE1_uc010okf.1_Missense_Mutation_p.G232R|TIE1_uc010okg.1_Missense_Mutation_p.G232R	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	587	Fibronectin type-III 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCTGTGGGACGGGACACGGGG	0.692													9	25					0	0	0.008291	0	0		A	43778104	A	A	43778104	3	1	219	1	0	0	0	0	1	0	0	0	15918	1116	39	1	1805	1	TIE1	1	43778104	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	8407786	43778104	205472517	4	107791											
ORC1L	4998	broad.mit.edu	37	chr1	52861837	52861837	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	catgttctgctggggtccaaGaagggctctctgcactctta	7	12	11	11	0	3	1	0	0	3	1	5	1	4	1	1	3	2	4	1	3	3	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:52861837G>A	uc001ctt.2	-	5	821	c.602C>T	c.(601-603)TCT>TTT	p.S201F	ORC1L_uc010oni.1_Missense_Mutation_p.S201F|ORC1L_uc001ctu.2_Missense_Mutation_p.S201F|ORC1L_uc009vzd.2_5'UTR	NM_004153	NP_004144	Q13415	ORC1_HUMAN	origin recognition complex, subunit 1	201					cell cycle checkpoint|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle	cytosol|nuclear origin of replication recognition complex|nucleolus|nucleoplasm|plasma membrane	ATP binding|DNA binding|nucleoside-triphosphatase activity|protein binding				0						TGGGGTCCAAGAAGGGCTCTC	0.512													19	53					0	0	0.007413	0	0		A	52861837	A	A	52861837	3	1	219	1	0	0	0	0	1	0	0	0	11280	942	33	4	2035	4	ORC1L	1	52861837	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	9083733	52861837	196388784	5	107792											
ROR1	4919	broad.mit.edu	37	chr1	64643444	64643444	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gatccccacactctgatgttGgctgcagcagtgatgaagat	10	10	11	10	0	1	4	0	3	1	1	2	5	2	4	2	1	2	4	2	1	1	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:64643444G>A	uc001dbj.2	+	9	2119	c.1720G>A	c.(1720-1722)GGC>AGC	p.G574S	uc001dbm.2_5'Flank	NM_005012	NP_005003	Q01973	ROR1_HUMAN	receptor tyrosine kinase-like orphan receptor 1	574	Cytoplasmic (Potential).|Protein kinase.				transmembrane receptor protein tyrosine kinase signaling pathway	cytoplasm|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			ovary(6)|large_intestine(3)|breast(3)|stomach(2)|lung(2)|central_nervous_system(1)|skin(1)|kidney(1)	19						CTCTGATGTTGGCTGCAGCAG	0.483													13	44					0	0	0.013537	0	0		A	64643444	A	A	64643444	3	1	219	1	0	0	0	0	1	0	0	0	13551	1348	47	4	1762	4	ROR1	1	64643444	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	11781607	64643444	184607177	6	107793											
LRRC8B	23507	broad.mit.edu	37	chr1	90050004	90050004	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgatcagctgtgacctggaaCgcatcccacattccattttc	9	12	7	13	1	1	2	1	2	0	0	4	3	3	3	3	1	2	2	3	1	1	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:90050004C>T	uc001dni.2	+	7	2302	c.1795C>T	c.(1795-1797)CGC>TGC	p.R599C	LRRC8B_uc001dnh.2_Missense_Mutation_p.R599C|LRRC8B_uc001dnj.2_Missense_Mutation_p.R599C	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	599	LRR 6.					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		TGACCTGGAACGCATCCCACA	0.403													19	53					0	0	0.006122	0	0		T	90050004	T	T	90050004	3	4	219	1	0	0	0	0	1	0	0	0	9040	536	19	1	1797	1	LRRC8B	1	90050004	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	25406560	90050004	159200617	7	107794											
FLG	2312	broad.mit.edu	37	chr1	152283559	152283559	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	cactgtcctggctaacactgGatccctggtgcctgcttgtc	5	12	10	14	0	0	0	0	0	0	0	3	1	2	1	3	3	3	2	3	3	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:152283559G>T	uc001ezu.1	-	3	3839	c.3803C>A	c.(3802-3804)TCC>TAC	p.S1268Y	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1268	Ser-rich.|Filaggrin 7.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GCTAACACTGGATCCCTGGTG	0.468									Ichthyosis				63	192					4.45325e-31	5.59838e-31	0.01441	1	0		T	152283559	T	T	152283559	3	4	219	1	0	0	0	0	1	0	0	0	5936	1174	41	5	8386	5	FLG	1	152283559	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	62233555	152283559	96967062	8	107795											
FLG	2312	broad.mit.edu	37	chr1	152286203	152286203	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtctgctgactgctggtggcCggatccatgtctttctcctg	3	14	12	12	1	3	1	0	1	3	0	5	2	4	2	3	3	2	2	3	3	0	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:152286203C>T	uc001ezu.1	-	3	1195	c.1159G>A	c.(1159-1161)GGC>AGC	p.G387S	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	387	Ser-rich.|Filaggrin 2.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TGCTGGTGGCCGGATCCATGT	0.582									Ichthyosis				101	309					0	0	0.01441	0	0		T	152286203	T	T	152286203	3	4	219	1	0	0	0	0	1	0	0	0	5936	652	23	1	11030	1	FLG	1	152286203	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	2644	152286203	96964418	9	107796											
IQGAP3	128239	broad.mit.edu	37	chr1	156496382	156496382	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cacaccctcatactggagctGcaggagatcctaggagggaa	12	6	12	11	0	1	1	1	0	0	1	2	5	2	4	2	4	3	2	2	4	3	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:156496382G>T	uc001fpf.2	-	38	4867	c.4792C>A	c.(4792-4794)CAG>AAG	p.Q1598K		NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	1598					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TACTGGAGCTGCAGGAGATCC	0.493													6	44					0.00198382	0.00209073	0.001984	1	0		T	156496382	T	T	156496382	3	4	219	1	0	0	0	0	1	0	0	0	7832	1328	46	5	107	5	IQGAP3	1	156496382	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	4210179	156496382	92754239	10	107797											
ADCY10	55811	broad.mit.edu	37	chr1	167874377	167874377	+	Missense_Mutation	SNP	A	G	G	1	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	attcttcttttggagtgttcAtgttcaagacaaatgttcag	10	17	8	6	0	5	1	3	0	2	1	5	2	5	2	0	1	0	3	0	1	2	7			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:167874377A>G	uc001ger.2	-	2	300	c.2T>C	c.(1-3)ATG>ACG	p.M1T	ADCY10_uc009wvk.2_5'UTR|ADCY10_uc010plj.1_Intron|ADCY10_uc009wvl.2_Missense_Mutation_p.M1T|ADCY10_uc009wvm.2_RNA	NM_018417	NP_060887	Q96PN6	ADCYA_HUMAN	adenylate cyclase 10	1					intracellular signal transduction|spermatogenesis	cytoskeleton|cytosol|perinuclear region of cytoplasm|plasma membrane|soluble fraction	adenylate cyclase activity|ATP binding|magnesium ion binding			central_nervous_system(2)|ovary(1)	3						TGGAGTGTTCATGTTCAAGAC	0.398													20	63					0	0	0.012319	0	0		G	167874377	G	G	167874377	3	3	219	1	0	0	0	0	1	0	0	0	293	217	8	3	4958	3	ADCY10	1	167874377	Missense_Mutation	SNP	A	TCGA-IN-8462-01A-11D-2340-08	11377995	167874377	81376244	11	107798											
HMCN1	83872	broad.mit.edu	37	chr1	186114580	186114580	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggctggggaacatgcagccGgacgtgtaacggagggcaga	10	5	18	8	3	0	1	0	0	0	1	0	4	0	4	1	6	4	4	1	6	2	1	rs141397809		TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:186114580G>A	uc001grq.1	+	92	14541	c.14312G>A	c.(14311-14313)CGG>CAG	p.R4771Q	HMCN1_uc001grs.1_Missense_Mutation_p.R340Q	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4771	TSP type-1 5.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACATGCAGCCGGACGTGTAAC	0.552													13	30					0	0	0.001855	0	0		A	186114580	A	A	186114580	3	1	219	1	0	0	0	0	1	0	0	0	7236	1116	39	1	14678	1	HMCN1	1	186114580	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	18240203	186114580	63136041	12	107799											
CFHR3	10878	broad.mit.edu	37	chr1	196749062	196749062	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gcagaccacagttacatgtaCggagaaaggctggtctccta	12	8	11	10	1	1	2	0	0	1	2	2	3	1	2	2	3	2	4	2	3	4	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:196749062C>T	uc001gtl.2	+	3	476	c.389C>T	c.(388-390)ACG>ATG	p.T130M	CFHR3_uc001gtk.2_Missense_Mutation_p.T130M|CFHR3_uc010poy.1_Missense_Mutation_p.T130M|CFHR1_uc001gtm.2_Intron	NM_021023	NP_066303	Q02985	FHR3_HUMAN	complement factor H-related 3 precursor	130	Sushi 2.					extracellular space					0						GTTACATGTACGGAGAAAGGC	0.473													13	48					0	0	0.001855	0	0		T	196749062	T	T	196749062	3	4	219	1	0	0	0	0	1	0	0	0	3289	536	19	1	399	1	CFHR3	1	196749062	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	10634482	196749062	52501559	13	107800											
PM20D1	148811	broad.mit.edu	37	chr1	205817084	205817084	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagctaaaagtcactgttGgaatctggatggcacctgtc	11	10	11	9	0	2	1	1	0	1	1	3	3	2	3	1	3	1	3	1	3	3	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:205817084G>A	uc001hdj.2	-	2	230	c.185C>T	c.(184-186)CCA>CTA	p.P62L	PM20D1_uc009xbr.2_RNA	NM_152491	NP_689704	Q6GTS8	P20D1_HUMAN	peptidase M20 domain containing 1 precursor	62						extracellular region	metal ion binding|peptidase activity			skin(1)	1	Breast(84;0.201)		BRCA - Breast invasive adenocarcinoma(75;0.0252)			AGTCACTGTTGGAATCTGGAT	0.403													15	36					0	0	0.004007	0	0		A	205817084	A	A	205817084	3	1	219	1	0	0	0	0	1	0	0	0	12147	1348	47	4	1371	4	PM20D1	1	205817084	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	9068022	205817084	43433537	14	107801											
FMN2	56776	broad.mit.edu	37	chr1	240371492	240371492	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcctccccctctacccggagCgggcataccccctcctcccc	4	7	6	24	2	1	0	0	0	1	0	5	1	5	1	9	2	3	1	9	2	2	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr1:240371492C>T	uc010pyd.1	+	5	3605	c.3380C>T	c.(3379-3381)GCG>GTG	p.A1127V	FMN2_uc010pye.1_Missense_Mutation_p.A1131V	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1127	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CTACCCGGAGCGGGCATACCC	0.721													5	18					0	0	0.001984	0	0		T	240371492	T	T	240371492	3	4	219	1	0	0	0	0	1	0	0	0	5964	768	27	1	3398	1	FMN2	1	240371492	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	34554408	240371492	8879129	15	107802											
TXNDC9	10190	broad.mit.edu	37	chr2	99944024	99944024	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gtggagtctctgtagaaatgGcaaaccacattttcactctc	11	12	8	10	0	3	1	1	0	2	1	5	2	3	2	1	2	1	2	1	2	3	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:99944024G>A	uc002szz.2	-	3	473	c.282C>T	c.(280-282)TGC>TGT	p.C94C	TXNDC9_uc010yvp.1_Silent_p.C111C|TXNDC9_uc002taa.1_Silent_p.C94C	NM_005783	NP_005774	O14530	TXND9_HUMAN	thioredoxin domain containing 9	94	Thioredoxin.				cell redox homeostasis		protein binding				0						TGTAGAAATGGCAAACCACAT	0.378													7	57					0	0	0.00308	0	0		A	99944024	A	A	99944024	2	1	219	1	0	0	0	0	0	0	0	1	16828	1195	42	2		2	TXNDC9	2	99944024	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08		99944024	143255349	16	107803											
THSD7B	80731	broad.mit.edu	37	chr2	138169203	138169203	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	aagcagaaagaaggagaaatGccaggattctgacctttacc	16	7	10	8	0	1	4	0	1	1	3	1	6	1	5	3	2	3	1	3	2	5	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:138169203G>A	uc002tva.1	+	13	2627	c.2627G>A	c.(2626-2628)TGC>TAC	p.C876Y	THSD7B_uc010zbj.1_Intron|THSD7B_uc002tvb.2_Missense_Mutation_p.C766Y	NM_001080427	NP_001073896			thrombospondin, type I, domain containing 7B											ovary(4)|central_nervous_system(2)|pancreas(1)	7				BRCA - Breast invasive adenocarcinoma(221;0.19)		AAGGAGAAATGCCAGGATTCT	0.373													29	35					0	0	0.007291	0	0		A	138169203	A	A	138169203	3	1	219	1	0	0	0	0	1	0	0	0	15905	1319	46	2	2677	2	THSD7B	2	138169203	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	38225179	138169203	105030170	17	107804											
ZEB2	9839	broad.mit.edu	37	chr2	145162506	145162506	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ctgcgctgaaggtactcctcGatgctgactgcatgaccatc	8	10	10	13	2	0	3	0	3	0	0	3	4	1	3	2	1	4	4	2	1	2	1	rs138859323	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:145162506G>A	uc002tvu.2	-	5	969	c.489C>T	c.(487-489)ATC>ATT	p.I163I	ZEB2_uc002tvv.2_Silent_p.I157I|ZEB2_uc010zbm.1_Silent_p.I134I|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Silent_p.I192I	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	163						cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GGTACTCCTCGATGCTGACTG	0.478													3	24					0	0	0.009096	0	0		A	145162506	A	A	145162506	2	1	219	1	0	0	0	0	0	0	0	1	17649	1048	37	1		1	ZEB2	2	145162506	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	6993303	145162506	98036867	18	107805											
NEUROD1	4760	broad.mit.edu	37	chr2	182542645	182542645	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgcctgagaagattgatcCgtggctttgggcccctgcca	6	10	14	11	1	0	3	0	2	0	2	1	4	1	3	5	3	2	1	5	3	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:182542645C>T	uc002uof.2	-	2	1179	c.943G>A	c.(943-945)GGA>AGA	p.G315R	CERKL_uc002uod.1_Intron	NM_002500	NP_002491	Q13562	NDF1_HUMAN	neurogenic differentiation 1	315					amacrine cell differentiation|cerebellum development|dentate gyrus development|embryonic organ morphogenesis|enteroendocrine cell differentiation|glucose homeostasis|inner ear development|insulin secretion|negative regulation of apoptosis|nitric oxide mediated signal transduction|positive regulation of apoptosis|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of cell cycle arrest|regulation of intestinal epithelial structure maintenance|response to glucose stimulus	cytoplasm|nucleus	chromatin binding|E-box binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.088)			AAGATTGATCCGTGGCTTTGG	0.512													31	51					0	0	0.009535	0	0		T	182542645	T	T	182542645	3	4	219	1	0	0	0	0	1	0	0	0	10367	661	23	1	131	1	NEUROD1	2	182542645	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	37380139	182542645	60656728	19	107806											
DNAH7	56171	broad.mit.edu	37	chr2	196737066	196737066	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	aatgacacgggagaaatcacGgaggttgaacaagtagtgag	16	6	14	5	2	1	4	1	3	0	1	1	6	1	5	0	3	1	2	0	3	5	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:196737066G>A	uc002utj.3	-	40	6642	c.6541C>T	c.(6541-6543)CGT>TGT	p.R2181C		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	2181	AAA 3 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						GAGAAATCACGGAGGTTGAAC	0.393													7	96					0	0	0.001984	0	0		A	196737066	A	A	196737066	3	1	219	1	0	0	0	0	1	0	0	0	4612	1116	39	1	5637	1	DNAH7	2	196737066	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	14194421	196737066	46462307	20	107807											
PLCL1	5334	broad.mit.edu	37	chr2	198948639	198948639	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aaattctcgcatttacaaccGttttttcactctggacacag	11	14	5	11	2	3	0	1	0	2	0	4	1	3	1	1	1	2	2	1	1	3	6			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:198948639G>A	uc010fsp.2	+	2	689	c.398G>A	c.(397-399)CGT>CAT	p.R133H	PLCL1_uc002uuv.3_Missense_Mutation_p.R54H	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	133	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	ATTTACAACCGTTTTTTCACT	0.443													4	38					0	0	0.009096	0	0		A	198948639	A	A	198948639	3	1	219	1	0	0	0	0	1	0	0	0	12058	1145	40	1	404	1	PLCL1	2	198948639	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	2211573	198948639	44250734	21	107808											
ERBB4	2066	broad.mit.edu	37	chr2	212248608	212248608	+	Missense_Mutation	SNP	T	G	G	0	1	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	gtatgttgttcttcaggtacTcagcttttcccaaggtgttg	6	17	10	8	0	3	0	2	0	1	0	4	0	4	0	1	2	2	6	1	2	3	8			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:212248608T>G	uc002veg.1	-	28	3757	c.3659A>C	c.(3658-3660)GAG>GCG	p.E1220A	ERBB4_uc002veh.1_Missense_Mutation_p.E1204A|ERBB4_uc010zji.1_Missense_Mutation_p.E1210A|ERBB4_uc010zjj.1_Missense_Mutation_p.E1194A	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1220	Cytoplasmic (Potential).				cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transmembrane receptor protein tyrosine kinase signaling pathway	basolateral plasma membrane|cytoplasm|integral to membrane|nucleus	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(21)|skin(5)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	33		Renal(323;0.06)|Lung NSC(271;0.197)		UCEC - Uterine corpus endometrioid carcinoma (47;0.214)|Epithelial(149;5.86e-06)|all cancers(144;2.95e-05)|Lung(261;0.00244)|LUSC - Lung squamous cell carcinoma(224;0.00266)		CTTCAGGTACTCAGCTTTTCC	0.502										TSP Lung(8;0.080)			13	158					0	0	0.00245	0	0		G	212248608	G	G	212248608	3	3	219	1	0	0	0	0	1	0	0	0	5217	1551	54	5	271	5	ERBB4	2	212248608	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	13299969	212248608	30950765	22	107809											
SPEG	10290	broad.mit.edu	37	chr2	220329225	220329225	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aggctgagggtgggctgtgcCggctgcggatcctggctgca	4	8	19	10	2	0	1	0	1	0	0	1	2	1	2	2	6	3	5	2	6	0	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:220329225C>T	uc010fwg.2	+	9	2776	c.2776C>T	c.(2776-2778)CGG>TGG	p.R926W	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_Missense_Mutation_p.R134W|SPEG_uc002vln.1_Missense_Mutation_p.R134W|SPEG_uc002vlp.1_Missense_Mutation_p.R134W|SPEG_uc002vlq.2_Missense_Mutation_p.R77W	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	926	Ig-like 3.				muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			stomach(9)|ovary(4)|central_nervous_system(1)	14		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)		TGGGCTGTGCCGGCTGCGGAT	0.647													25	36					0	0	0.00278	0	0		T	220329225	T	T	220329225	3	4	219	1	0	0	0	0	1	0	0	0	15061	643	23	1	2810	1	SPEG	2	220329225	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	8080617	220329225	22870148	23	107810											
SLC19A3	80704	broad.mit.edu	37	chr2	228566967	228566967	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	gtctcatcatggagaaaaaaCcaaataagcagaggatcaca	19	6	8	8	0	3	2	3	0	1	2	4	4	3	3	1	2	2	1	1	2	5	1	rs121917882		TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:228566967C>A	uc002vpi.2	-	2	157	c.68G>T	c.(67-69)GGT>GTT	p.G23V	SLC19A3_uc002vpj.2_RNA|SLC19A3_uc010zlv.1_5'UTR	NM_025243	NP_079519	Q9BZV2	S19A3_HUMAN	solute carrier family 19, member 3	23	Helical; (Potential).		G -> V (in BBGD).		thiamine-containing compound metabolic process	integral to membrane|plasma membrane	folic acid binding|reduced folate carrier activity|thiamine uptake transmembrane transporter activity			ovary(2)	2		Renal(207;0.0112)|all_lung(227;0.0335)|Lung NSC(271;0.142)|all_hematologic(139;0.21)|Esophageal squamous(248;0.236)		Epithelial(121;1.58e-10)|all cancers(144;8.55e-08)|Lung(261;0.00948)|LUSC - Lung squamous cell carcinoma(224;0.0125)	L-Cysteine(DB00151)	GGAGAAAAAACCAAATAAGCA	0.393													10	74					2.80697e-09	3.20797e-09	0.010729	1	0		A	228566967	A	A	228566967	3	1	219	1	0	0	0	0	1	0	0	0	14455	507	18	5	1442	5	SLC19A3	2	228566967	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	8237742	228566967	14632406	24	107811											
TRIP12	9320	broad.mit.edu	37	chr2	230664072	230664072	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggccctcgttttggcagtcgTtttctctttagaacatcact	6	16	8	11	2	2	1	1	0	1	1	5	1	2	1	1	2	1	3	1	2	2	6			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr2:230664072T>A	uc002vpw.1	-	21	3118	c.3009A>T	c.(3007-3009)AAA>AAT	p.K1003N	TRIP12_uc002vpx.1_Missense_Mutation_p.K1051N|TRIP12_uc002vpy.1_Missense_Mutation_p.K733N|TRIP12_uc010zlz.1_Intron	NM_004238	NP_004229	Q14669	TRIPC_HUMAN	thyroid hormone receptor interactor 12	1003					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	proteasome complex	thyroid hormone receptor binding|ubiquitin-protein ligase activity			ovary(4)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	9		Renal(207;0.025)|all_hematologic(139;0.122)|all_lung(227;0.126)|Acute lymphoblastic leukemia(138;0.164)		Epithelial(121;4.76e-13)|all cancers(144;4.34e-10)|LUSC - Lung squamous cell carcinoma(224;0.00864)|Lung(119;0.0116)		TTGGCAGTCGTTTTCTCTTTA	0.393													4	58					0	0	0.000602	0	0		A	230664072	A	A	230664072	3	1	219	1	0	0	0	0	1	0	0	0	16582	1722	60	5	3053	5	TRIP12	2	230664072	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	2097105	230664072	12535301	25	107812											
CHL1	10752	broad.mit.edu	37	chr3	407660	407660	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aaaacttagagtttctcctaAgaatcctcgtatccccaaat	14	12	4	11	1	1	2	0	0	1	2	5	2	3	2	4	0	1	2	4	0	7	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:407660A>G	uc003bou.2	+	14	1836	c.1565A>G	c.(1564-1566)AAG>AGG	p.K522R	CHL1_uc003bot.2_Missense_Mutation_p.K538R|CHL1_uc003bow.1_Missense_Mutation_p.K522R|CHL1_uc011asi.1_Missense_Mutation_p.K538R|uc003box.1_Intron	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	522	Ig-like C2-type 6.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		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)		GTTTCTCCTAAGAATCCTCGT	0.338													4	22					0	0	0.009096	0	0		G	407660	G	G	407660	3	3	219	1	0	0	0	0	1	0	0	0	3352	72	3	3	1663	3	CHL1	3	407660	Missense_Mutation	SNP	A	TCGA-IN-8462-01A-11D-2340-08		407660	197614770	26	107813											
GRM7	2917	broad.mit.edu	37	chr3	7456790	7456790	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccgaatactgggaggaaaacTtcaactgcaagttgacgatt	14	9	10	8	2	1	1	1	1	0	0	1	5	1	3	1	2	4	2	1	2	6	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:7456790T>G	uc003bqm.2	+	5	1388	c.1114T>G	c.(1114-1116)TTC>GTC	p.F372V	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.F372V|GRM7_uc003bql.2_Missense_Mutation_p.F372V|GRM7_uc003bqn.1_5'UTR	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	372	Extracellular (Potential).				negative regulation of adenylate cyclase activity|negative regulation of cAMP biosynthetic process|negative regulation of glutamate secretion|sensory perception of smell|sensory perception of sound|synaptic transmission	asymmetric synapse|axon|cell cortex|dendritic shaft|integral to plasma membrane|postsynaptic membrane|presynaptic active zone	adenylate cyclase inhibitor activity|calcium ion binding|glutamate binding|group III metabotropic glutamate receptor activity|PDZ domain binding|serine binding			ovary(4)|lung(3)	7					L-Glutamic Acid(DB00142)	GGAGGAAAACTTCAACTGCAA	0.388													20	35					0	0	0.008871	0	0		G	7456790	G	G	7456790	3	3	219	1	0	0	0	0	1	0	0	0	6818	1609	56	5	1132	5	GRM7	3	7456790	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	7049130	7456790	190565640	27	107814											
IL17RC	84818	broad.mit.edu	37	chr3	9971770	9971770	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	gagacacgaggcccccaggaCaacagatccctctgtgcctt	10	6	10	15	1	1	2	0	0	1	2	2	5	2	3	4	2	2	0	4	2	1	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:9971770C>A	uc003bua.2	+	14	1664	c.1428C>A	c.(1426-1428)GAC>GAA	p.D476E	CIDEC_uc003bto.2_Intron|IL17RC_uc010hcs.2_Missense_Mutation_p.D380E|IL17RC_uc003btz.2_Missense_Mutation_p.D405E|IL17RC_uc011atp.1_Missense_Mutation_p.D244E|IL17RC_uc003bud.2_Intron|IL17RC_uc003bub.2_Missense_Mutation_p.D390E|IL17RC_uc010hct.2_Missense_Mutation_p.D405E|IL17RC_uc010hcu.2_Missense_Mutation_p.D388E|IL17RC_uc010hcv.2_Missense_Mutation_p.D373E|IL17RC_uc011atq.1_Missense_Mutation_p.D390E|IL17RC_uc003buc.2_5'UTR|IL17RC_uc003bue.2_Missense_Mutation_p.D41E	NM_153461	NP_703191	Q8NAC3	I17RC_HUMAN	interleukin 17 receptor C isoform 1 precursor	476	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(1)|pancreas(1)	2						GCCCCCAGGACAACAGATCCC	0.587													14	48					7.93312e-07	8.67223e-07	0.00245	1	0		A	9971770	A	A	9971770	3	1	219	1	0	0	0	0	1	0	0	0	7657	477	17	5	1482	5	IL17RC	3	9971770	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	2514980	9971770	188050660	28	107815											
RFTN1	23180	broad.mit.edu	37	chr3	16475457	16475457	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aggggtgcagggccgccagcGagaagccctgctggtacagc	8	4	17	12	2	0	1	0	0	0	1	0	2	0	1	3	4	6	3	3	4	2	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:16475457G>T	uc003cay.2	-	3	515	c.233C>A	c.(232-234)TCG>TAG	p.S78*	RFTN1_uc010hes.2_Nonsense_Mutation_p.S42*	NM_015150	NP_055965	Q14699	RFTN1_HUMAN	raft-linking protein	78						plasma membrane				ovary(3)|central_nervous_system(1)	4						GGCCGCCAGCGAGAAGCCCTG	0.652													23	53					1.10923e-09	1.28437e-09	0.00278	1	0		T	16475457	T	T	16475457	4	4	219	1	0	0	0	0	0	1	0	0	13283	1059	37	5	1535	5	RFTN1	3	16475457	Nonsense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	6503687	16475457	181546973	29	107816											
GRM2	2912	broad.mit.edu	37	chr3	51749520	51749520	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cctgtcaccatcgcctgcctCggtgccctggccaccctctt	3	10	8	20	2	2	0	1	0	1	0	4	0	2	0	7	2	2	0	7	2	0	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:51749520C>T	uc010hlv.2	+	4	1970	c.1731C>T	c.(1729-1731)CTC>CTT	p.L577L	GRM2_uc003dbo.3_5'UTR|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	577	Helical; Name=1; (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	TCGCCTGCCTCGGTGCCCTGG	0.637													19	48					0	0	0.007413	0	0		T	51749520	T	T	51749520	2	4	219	1	0	0	0	0	0	0	0	1	6813	871	31	1		1	GRM2	3	51749520	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	35274063	51749520	146272910	30	107817											
POLQ	10721	broad.mit.edu	37	chr3	121228447	121228447	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcattctctaaaacaaagccCttcattgctctttgcaggtc	10	14	5	12	0	4	0	2	0	2	0	6	0	4	0	1	1	4	2	1	1	3	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:121228447C>A	uc003eee.3	-	12	2049	c.1920G>T	c.(1918-1920)AAG>AAT	p.K640N		NM_199420	NP_955452	O75417	DPOLQ_HUMAN	DNA polymerase theta	640					DNA repair|DNA replication	nucleoplasm	ATP binding|ATP-dependent helicase activity|damaged DNA binding|DNA-directed DNA polymerase activity|single-stranded DNA-dependent ATPase activity			ovary(4)|breast(3)|lung(2)|upper_aerodigestive_tract(1)|skin(1)	11				GBM - Glioblastoma multiforme(114;0.0915)		AAACAAAGCCCTTCATTGCTC	0.343								DNA_polymerases_(catalytic_subunits)					10	63					1.76689e-08	1.99342e-08	0.006214	1	0		A	121228447	A	A	121228447	3	1	219	1	0	0	0	0	1	0	0	0	12227	680	24	5	5928	5	POLQ	3	121228447	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	69478927	121228447	76793983	31	107818											
XRN1	54464	broad.mit.edu	37	chr3	142031582	142031582	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttgagccaaagagatgagacGacgaaggcattatattagct	15	9	11	6	2	0	3	0	2	0	2	0	7	0	3	1	1	2	2	1	1	5	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:142031582G>A	uc003eus.2	-	41	4743	c.4676C>T	c.(4675-4677)TCG>TTG	p.S1559L	XRN1_uc010huu.2_Missense_Mutation_p.S1013L|XRN1_uc003eut.2_Missense_Mutation_p.S1546L|XRN1_uc003euu.2_Missense_Mutation_p.S1547L	NM_019001	NP_061874	Q8IZH2	XRN1_HUMAN	5'-3' exoribonuclease 1 isoform a	1559					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|nuclear mRNA surveillance|rRNA catabolic process	cytosol|Golgi apparatus|intermediate filament cytoskeleton|plasma membrane	5'-3' exonuclease activity|DNA binding|protein binding|RNA binding			ovary(3)	3						GAGATGAGACGACGAAGGCAT	0.443													14	102					0	0	0.001855	0	0		A	142031582	A	A	142031582	3	1	219	1	0	0	0	0	1	0	0	0	17485	1059	37	1	452	1	XRN1	3	142031582	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	20803135	142031582	55990848	32	107819											
P2RY1	5028	broad.mit.edu	37	chr3	152554180	152554180	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaaaaccatcacctgttaCgacaccacctcagacgagta	16	6	5	14	2	2	1	2	0	0	1	2	3	2	1	4	0	3	2	4	0	5	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:152554180C>T	uc003ezq.2	+	1	1445	c.609C>T	c.(607-609)TAC>TAT	p.Y203Y		NM_002563	NP_002554	P47900	P2RY1_HUMAN	purinergic receptor P2Y1	203	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation	integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0628)|Lung(72;0.11)			TCACCTGTTACGACACCACCT	0.537													50	44					0	0	0.01441	0	0		T	152554180	T	T	152554180	2	4	219	1	0	0	0	0	0	0	0	1	11365	547	19	1		1	P2RY1	3	152554180	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	10522598	152554180	45468250	33	107820											
CCDC50	152137	broad.mit.edu	37	chr3	191107374	191107374	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	cacacggcatttctcaaaatCagagtcctctcataaaggta	14	10	6	11	1	3	1	3	0	2	1	6	1	4	1	1	2	0	2	1	2	5	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr3:191107374C>T	uc003fsw.2	+	10	1474	c.884C>T	c.(883-885)TCA>TTA	p.S295L	CCDC50_uc003fsv.2_Missense_Mutation_p.S471L	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform	295						cytoplasm	protein binding				0	all_cancers(143;8.88e-09)|Ovarian(172;0.103)|Breast(254;0.221)		LUSC - Lung squamous cell carcinoma(58;2.42e-06)|Lung(62;2.86e-06)	GBM - Glioblastoma multiforme(46;0.000136)		TTCTCAAAATCAGAGTCCTCT	0.388													35	85					0	0	0.012213	0	0		T	191107374	T	T	191107374	3	4	219	1	0	0	0	0	1	0	0	0	2823	838	29	4	1454	4	CCDC50	3	191107374	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	38553194	191107374	6915056	34	107821											
GPRIN3	285513	broad.mit.edu	37	chr4	90169424	90169424	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cagaacctgggctggagtcaCccatgggatcagatggcagg	10	6	15	10	0	2	2	2	0	0	2	2	4	2	4	2	5	1	2	2	5	1	0	rs148884438		TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr4:90169424C>T	uc003hsm.1	-	2	2357	c.1838G>A	c.(1837-1839)GGT>GAT	p.G613D		NM_198281	NP_938022	Q6ZVF9	GRIN3_HUMAN	G protein-regulated inducer of neurite outgrowth	613										ovary(3)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;5.67e-05)		GCTGGAGTCACCCATGGGATC	0.582													4	60					0	0	0.000602	0	0		T	90169424	T	T	90169424	3	4	219	1	0	0	0	0	1	0	0	0	6747	507	18	4	496	4	GPRIN3	4	90169424	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		90169424	100984852	35	107822											
SLC9A3	6550	broad.mit.edu	37	chr5	488520	488520	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcctcaaacacggccaggaCggccaccgggtccacagccg	9	3	11	18	4	1	0	1	0	0	0	3	1	3	1	6	4	2	0	6	4	1	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr5:488520C>T	uc003jbe.2	-	3	698	c.586G>A	c.(586-588)GTC>ATC	p.V196I	SLC9A3_uc011clx.1_Missense_Mutation_p.V196I	NM_004174	NP_004165	P48764	SL9A3_HUMAN	solute carrier family 9 (sodium/hydrogen	196	Helical; Name=F/M5A; (Potential).					cell surface|integral to membrane	sodium:hydrogen antiporter activity				0			Epithelial(17;0.000529)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|all cancers(22;0.00186)|Lung(60;0.0863)			ACGGCCAGGACGGCCACCGGG	0.642													3	16					0	0	0.004672	0	0		T	488520	T	T	488520	3	4	219	1	0	0	0	0	1	0	0	0	14738	536	19	1	1978	1	SLC9A3	5	488520	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		488520	180426740	36	107823											
ENC1	8507	broad.mit.edu	37	chr5	73931384	73931384	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttctggtctaccagatacaaCttgtcacacatgaaagtctg	12	12	7	10	0	4	2	1	1	3	1	4	2	4	2	1	1	3	0	1	1	4	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr5:73931384C>T	uc003kdc.3	-	2	2058	c.927G>A	c.(925-927)AAG>AAA	p.K309K	ENC1_uc011css.1_Silent_p.K236K	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	309	Kelch 1.				nervous system development	cytoplasm|cytoskeleton|nuclear matrix	actin binding			ovary(1)|pancreas(1)|skin(1)	3		all_lung(232;0.0154)|Lung NSC(167;0.0331)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.45e-59)		CCAGATACAACTTGTCACACA	0.507													6	57					0	0	0.001984	0	0		T	73931384	T	T	73931384	2	4	219	1	0	0	0	0	0	0	0	1	5121	564	20	4		4	ENC1	5	73931384	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	73442864	73931384	106983876	37	107824											
DMGDH	29958	broad.mit.edu	37	chr5	78338268	78338268	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctttgatgtgttccatgattCgatctagatcagactcaaag	11	14	8	8	1	3	4	2	2	1	2	5	5	4	4	1	0	0	1	1	0	2	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr5:78338268C>A	uc003kfs.2	-	7	1037	c.1031G>T	c.(1030-1032)CGA>CTA	p.R344L	DMGDH_uc011cte.1_Missense_Mutation_p.R194L|DMGDH_uc011ctf.1_Missense_Mutation_p.R143L|DMGDH_uc011ctg.1_Intron	NM_013391	NP_037523	Q9UI17	M2GD_HUMAN	dimethylglycine dehydrogenase precursor	344					choline metabolic process|glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|dimethylglycine dehydrogenase activity|electron carrier activity			ovary(2)|liver(1)|skin(1)	4		all_lung(232;0.000638)|Lung NSC(167;0.00173)|Ovarian(174;0.0262)|Prostate(461;0.192)		OV - Ovarian serous cystadenocarcinoma(54;6.52e-45)|Epithelial(54;5.96e-40)|all cancers(79;3.56e-35)		TTCCATGATTCGATCTAGATC	0.428													8	59					0.00307968	0.00322633	0.00308	1	0		A	78338268	A	A	78338268	3	1	219	1	0	0	0	0	1	0	0	0	4587	884	31	5	1609	5	DMGDH	5	78338268	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	4406884	78338268	102576992	38	107825											
DMXL1	1657	broad.mit.edu	37	chr5	118484637	118484637	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atggacttcagagcaatagtAgtataactgtacctggtagg	13	11	11	6	0	1	1	1	0	0	1	1	2	1	2	1	3	3	5	1	3	7	7	rs149431940	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr5:118484637A>T	uc003ksd.2	+	18	3296	c.3115A>T	c.(3115-3117)AGT>TGT	p.S1039C	DMXL1_uc010jcl.1_Missense_Mutation_p.S1039C	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	1039										ovary(2)	2		all_cancers(142;0.0314)|all_epithelial(76;0.00559)|Prostate(80;0.11)|Breast(839;0.231)		OV - Ovarian serous cystadenocarcinoma(64;0.000563)|Epithelial(69;0.00179)|all cancers(49;0.0243)		GAGCAATAGTAGTATAACTGT	0.398													9	122					0	0	0.004482	0	0		T	118484637	T	T	118484637	3	4	219	1	0	0	0	0	1	0	0	0	4600	420	15	5	3185	5	DMXL1	5	118484637	Missense_Mutation	SNP	A	TCGA-IN-8462-01A-11D-2340-08	40146369	118484637	62430623	39	107826											
PCDHB9	56127	broad.mit.edu	37	chr5	140567301	140567301	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cgccagtgtttcggcacaaaGagatggtcttaaaaatatca	14	10	9	8	2	2	1	1	0	1	1	3	2	2	1	1	2	0	2	1	2	5	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr5:140567301G>C	uc003liw.1	+	1	409	c.409G>C	c.(409-411)GAG>CAG	p.E137Q		NM_019119	NP_061992	Q9Y5E1	PCDB9_HUMAN	protocadherin beta 9 precursor	137	Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			TCGGCACAAAGAGATGGTCTT	0.403													22	35					0	0	0.010504	0	0		C	140567301	C	C	140567301	3	2	219	1	0	0	0	0	1	0	0	0	11568	943	33	5	411	5	PCDHB9	5	140567301	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	22082664	140567301	40347959	40	107827											
TCERG1	10915	broad.mit.edu	37	chr5	145838886	145838886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aacaactgctacttcagttgCgcagacagtatcaagtgagt	13	10	9	9	1	2	2	2	1	0	1	2	2	2	2	0	0	5	4	0	0	5	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr5:145838886C>T	uc003lob.2	+	4	918	c.878C>T	c.(877-879)GCG>GTG	p.A293V	TCERG1_uc003loc.2_Missense_Mutation_p.A293V|TCERG1_uc011dbt.1_Missense_Mutation_p.A293V	NM_006706	NP_006697	O14776	TCRG1_HUMAN	transcription elongation regulator 1 isoform 1	293	Thr-rich.				regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	protein binding|transcription coactivator activity			ovary(1)|skin(1)	2		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)			ACTTCAGTTGCGCAGACAGTA	0.463													10	75					0	0	0.008291	0	0		T	145838886	T	T	145838886	3	4	219	1	0	0	0	0	1	0	0	0	15710	768	27	1	892	1	TCERG1	5	145838886	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	5271585	145838886	35076374	41	107828											
HIST1H4H	8365	broad.mit.edu	37	chr6	26285503	26285504	+	Frame_Shift_Del	DEL	CT	-	-																															acggtcttgcgtttggcgtgCtctgtgtaagtgacagcgtc																								rs41266829	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:26285503_26285504delCT	uc003nhm.2	-	1	224_225	c.224_225delAG	c.(223-225)GAGfs	p.E75fs	HIST1H4H_uc003nhl.1_RNA	NM_003543	NP_003534	P62805	H4_HUMAN	histone cluster 1, H4h	75					CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(2)	2						GTTTGGCGTGCTCTGTGTAAGT	0.55										HNSCC(76;0.23)			21	43	---	---	---	---						.	-	26285504	-	-	26285503	7	5	219	1	0	1	0	1	0	0	0	0	7188	796	28	0	90	0	HIST1H4H	6	26285503	Frame_Shift_Del	DEL	CT	TCGA-IN-8462-01A-11D-2340-08		26285503	144829564	42	107829											
FKSG83	83954	broad.mit.edu	37	chr6	27293549	27293549	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	cattttaaatatgattatttCcccctgcttaccacacagct	11	15	3	12	0	0	1	0	1	0	0	1	1	1	1	3	0	3	2	3	0	5	6			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:27293549C>T	uc010jqt.2	+	1	972	c.488C>T	c.(487-489)TCC>TTC	p.S163F	FKSG83_uc010jqs.1_3'UTR	NM_032030	NP_114419	Q3KNW7	Q3KNW7_HUMAN	FKSG83	163						integral to membrane	pheromone receptor activity				0						ATGATTATTTCCCCCTGCTTA	0.294													8	15					0	0	0.006214	0	0		T	27293549	T	T	27293549	3	4	219	1	0	0	0	0	1	0	0	0	5932	855	30	4	490	4	FKSG83	6	27293549	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	1008046	27293549	143821518	43	107830											
VARS2	57176	broad.mit.edu	37	chr6	30890881	30890881	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cctcgattcttcccttccagCgggcgacttgcacctgtcag	5	11	9	16	3	2	0	1	0	1	0	5	2	4	0	4	1	2	1	4	1	0	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:30890881C>T	uc003nsc.1	+	23	2818	c.2186C>T	c.(2185-2187)GCG>GTG	p.A729V	VARS2_uc011dmx.1_Missense_Mutation_p.A729V|VARS2_uc011dmy.1_Missense_Mutation_p.A589V|VARS2_uc011dmz.1_Missense_Mutation_p.A759V|VARS2_uc011dna.1_Missense_Mutation_p.A727V|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Missense_Mutation_p.A167V|VARS2_uc010jsg.1_Missense_Mutation_p.A101V|VARS2_uc010jsh.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	729					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TCCCTTCCAGCGGGCGACTTG	0.582													19	87					0	0	0.006122	0	0		T	30890881	T	T	30890881	3	4	219	1	0	0	0	0	1	0	0	0	17150	782	27	1	2370	1	VARS2	6	30890881	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	3597332	30890881	140224186	44	107831											
C6orf27	80737	broad.mit.edu	37	chr6	31733757	31733757	+	Missense_Mutation	SNP	A	G	G	1	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	cagtcacagtcaccatcaccAcggaatccggggccgctgaa	11	5	10	15	3	3	1	3	1	0	0	4	2	4	2	4	3	0	1	4	3	2	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:31733757A>G	uc011dog.1	-	16	2640	c.2402T>C	c.(2401-2403)GTG>GCG	p.V801A		NM_025258	NP_079534	Q9Y334	G7C_HUMAN	G7c protein precursor	801						extracellular region				ovary(3)	3						CACCATCACCACGGAATCCGG	0.647													29	139					0	0	0.007291	0	0		G	31733757	G	G	31733757	3	3	219	1	0	0	0	0	1	0	0	0	2365	159	6	3	280	3	C6orf27	6	31733757	Missense_Mutation	SNP	A	TCGA-IN-8462-01A-11D-2340-08	842876	31733757	139381310	45	107832											
TRERF1	55809	broad.mit.edu	37	chr6	42227349	42227349	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ggttcgggttgtaggagggcGgcggcgggatgaagagaggt	7	7	23	4	4	0	2	0	1	0	1	1	5	0	4	0	8	0	3	0	8	2	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:42227349G>A	uc003osd.2	-	9	2560	c.1997C>T	c.(1996-1998)CCG>CTG	p.P666L	TRERF1_uc011duq.1_Missense_Mutation_p.P583L|TRERF1_uc003osb.2_Missense_Mutation_p.P422L|TRERF1_uc003osc.2_Missense_Mutation_p.P422L|TRERF1_uc003ose.2_Missense_Mutation_p.P686L	NM_033502	NP_277037	Q96PN7	TREF1_HUMAN	transcriptional regulating factor 1	666	Pro-rich.|Interacts with CREBBP.				cholesterol catabolic process|homeostatic process|multicellular organismal development|positive regulation of transcription, DNA-dependent|regulation of hormone biosynthetic process|steroid biosynthetic process	nucleus	DNA bending activity|ligand-dependent nuclear receptor transcription coactivator activity|RNA polymerase II transcription cofactor activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|zinc ion binding			ovary(3)|pancreas(1)|skin(1)	5	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)			GTAGGAGGGCGGCGGCGGGAT	0.672													8	40					0	0	0.00308	0	0		A	42227349	A	A	42227349	3	1	219	1	0	0	0	0	1	0	0	0	16501	1116	39	1	1645	1	TRERF1	6	42227349	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	10493592	42227349	128887718	46	107833											
ENPP5	59084	broad.mit.edu	37	chr6	46135702	46135702	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	caaggagaaagatttgttccGaataggatcaaacatatcat	17	10	8	6	1	2	2	2	0	0	2	3	5	3	3	1	2	1	1	1	2	6	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:46135702G>A	uc003oxz.1	-	2	506	c.298C>T	c.(298-300)CGG>TGG	p.R100W	ENPP5_uc003oya.1_Missense_Mutation_p.R100W|ENPP5_uc011dvz.1_Missense_Mutation_p.R6W|ENPP5_uc010jzc.1_Missense_Mutation_p.R100W	NM_021572	NP_067547	Q9UJA9	ENPP5_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	100						extracellular region|integral to membrane	hydrolase activity				0						GATTTGTTCCGAATAGGATCA	0.378													18	45					0	0	0.008871	0	0		A	46135702	A	A	46135702	3	1	219	1	0	0	0	0	1	0	0	0	5141	1057	37	1	1147	1	ENPP5	6	46135702	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	3908353	46135702	124979365	47	107834											
KIAA1586	57691	broad.mit.edu	37	chr6	56918804	56918804	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggcatgcatatcctatattaTatatgcatttttctcattct	10	19	4	8	0	2	0	1	0	2	0	4	0	3	0	1	1	2	3	1	1	6	9			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:56918804T>C	uc003pdj.2	+	4	1677	c.1507T>C	c.(1507-1509)TAT>CAT	p.Y503H	KIAA1586_uc011dxm.1_Missense_Mutation_p.Y476H	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	503							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCCTATATTATATATGCATTT	0.348													7	37					0	0	0.00308	0	0		C	56918804	C	C	56918804	3	2	219	1	0	0	0	0	1	0	0	0	8261	1406	49	3	1521	3	KIAA1586	6	56918804	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	10783102	56918804	114196263	48	107835											
RIMS1	22999	broad.mit.edu	37	chr6	72678732	72678732	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgctgcctgcaaaacaccaAgaaatgctgaaaaccagccc	15	5	7	14	0	0	2	0	1	0	1	0	2	0	2	4	0	7	3	4	0	6	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:72678732A>G	uc003pga.2	+	2	288	c.211A>G	c.(211-213)AGA>GGA	p.R71G		NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	71	RabBD.				calcium ion-dependent exocytosis|cellular membrane fusion|glutamate secretion|intracellular protein transport|protein complex assembly|regulated secretory pathway|response to stimulus|synaptic vesicle exocytosis|visual perception	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(7)|pancreas(2)|breast(1)	10		all_epithelial(107;0.179)|all_hematologic(105;0.212)				CAAAACACCAAGAAATGCTGA	0.453													22	71					0	0	0.014323	0	0		G	72678732	G	G	72678732	3	3	219	1	0	0	0	0	1	0	0	0	13392	64	3	3	217	3	RIMS1	6	72678732	Missense_Mutation	SNP	A	TCGA-IN-8462-01A-11D-2340-08	15759928	72678732	98436335	49	107836											
SNX14	57231	broad.mit.edu	37	chr6	86303411	86303411	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gccgctgcttcagcttctgcCccatcgtccgcacccagggc	4	8	10	19	3	2	0	1	0	1	0	4	0	3	0	5	1	3	4	5	1	0	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr6:86303411C>G	uc003pkr.2	-	1	219	c.26G>C	c.(25-27)GGG>GCG	p.G9A	SNX14_uc011dzg.1_Intron|SNX14_uc003pks.2_Missense_Mutation_p.G9A|SNX14_uc003pkt.2_Missense_Mutation_p.G9A	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	9					cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		CAGCTTCTGCCCCATCGTCCG	0.672													5	24					0	0	0.000602	0	0		G	86303411	G	G	86303411	3	3	219	1	0	0	0	0	1	0	0	0	14910	623	22	5	2930	5	SNX14	6	86303411	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	13624679	86303411	84811656	50	107837											
EPDR1	54749	broad.mit.edu	37	chr7	37989889	37989889	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctacagtgtgatattgtctaCgcggttttttgacatccagc	8	15	9	9	2	1	2	0	2	1	0	2	2	2	2	1	1	3	1	1	1	3	7	rs147990215	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr7:37989889C>T	uc003tfp.2	+	3	945	c.926C>T	c.(925-927)ACG>ATG	p.T309M	EPDR1_uc003tfq.2_3'UTR|EPDR1_uc010kxh.2_Missense_Mutation_p.T128M	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	189					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						ATATTGTCTACGCGGTTTTTT	0.463													10	33					0	0	0.006214	0	0		T	37989889	T	T	37989889	3	4	219	1	0	0	0	0	1	0	0	0	5171	536	19	1	936	1	EPDR1	7	37989889	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		37989889	121148774	51	107838											
TNS3	64759	broad.mit.edu	37	chr7	47343060	47343060	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaagcaggacagcactgggGagtccttcctggtaccggag	9	6	16	10	1	0	0	0	0	0	0	2	4	2	4	3	6	3	3	3	6	2	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr7:47343060G>T	uc003tnv.2	-	22	3312	c.2945C>A	c.(2944-2946)TCC>TAC	p.S982Y	TNS3_uc003tnw.2_Missense_Mutation_p.S982Y	NM_022748	NP_073585	Q68CZ2	TENS3_HUMAN	tensin 3	982						focal adhesion	protein binding			ovary(4)	4						CAGCACTGGGGAGTCCTTCCT	0.672													5	25					3.59834e-05	3.88532e-05	0.001168	1	0		T	47343060	T	T	47343060	3	4	219	1	0	0	0	0	1	0	0	0	16369	1174	41	5	1432	5	TNS3	7	47343060	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	9353171	47343060	111795603	52	107839											
FZD1	8321	broad.mit.edu	37	chr7	90895695	90895695	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cccctcttcgtgtacctgttTatcggcacgtcctttctgct	3	16	7	15	3	2	0	0	0	2	0	5	0	3	0	4	1	2	4	4	1	2	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr7:90895695T>C	uc003ula.2	+	1	1913	c.1500T>C	c.(1498-1500)TTT>TTC	p.F500F		NM_003505	NP_003496	Q9UP38	FZD1_HUMAN	frizzled 1 precursor	500	Helical; Name=5; (Potential).				autocrine signaling|axonogenesis|brain development|canonical Wnt receptor signaling pathway involved in mesenchymal stem cell differentiation|canonical Wnt receptor signaling pathway involved in osteoblast differentiation|embryo development|epithelial cell differentiation|G-protein signaling, coupled to cGMP nucleotide second messenger|gonad development|lung alveolus development|negative regulation of BMP signaling pathway|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|response to drug|vasculature development|Wnt receptor signaling pathway, calcium modulating pathway	apical part of cell|cell surface|cytoplasm|integral to membrane|neuron projection membrane	G-protein coupled receptor activity|PDZ domain binding|receptor binding|Wnt receptor activity|Wnt-protein binding				0	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)			TGTACCTGTTTATCGGCACGT	0.602													6	99					0	0	0.001168	0	0		C	90895695	C	C	90895695	2	2	219	1	0	0	0	0	0	0	0	1	6142	1751	61	3		3	FZD1	7	90895695	Silent	SNP	T	TCGA-IN-8462-01A-11D-2340-08	43552635	90895695	68242968	53	107840											
WDR91	29062	broad.mit.edu	37	chr7	134889047	134889047	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccgaaggactctttcttggcCgagctctgaggttgaggagg	7	10	15	9	2	3	2	0	2	3	0	3	6	3	4	2	5	1	2	2	5	1	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr7:134889047C>T	uc003vsp.2	-	6	926	c.864G>A	c.(862-864)TCG>TCA	p.S288S	WDR91_uc010lmq.2_5'UTR|WDR91_uc010lmr.2_RNA	NM_014149	NP_054868	A4D1P6	WDR91_HUMAN	WD repeat domain 91	288										breast(2)|ovary(1)|skin(1)	4						CTTTCTTGGCCGAGCTCTGAG	0.592													12	14					0	0	0.013537	0	0		T	134889047	T	T	134889047	2	4	219	1	0	0	0	0	0	0	0	1	17364	639	23	1		1	WDR91	7	134889047	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	43993352	134889047	24249616	54	107841											
TMEM213	155006	broad.mit.edu	37	chr7	138487766	138487766	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ctcatcctgctctgtgtggaCaaactgatgaagctgactcc	9	11	9	12	0	2	3	1	3	1	0	4	4	4	4	2	1	3	2	2	1	2	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr7:138487766C>A	uc010lna.2	+	3	387	c.276C>A	c.(274-276)GAC>GAA	p.D92E	TMEM213_uc010lnb.2_Missense_Mutation_p.D91E	NM_001085429	NP_001078898	A2RRL7	TM213_HUMAN	transmembrane protein 213	92	Cytoplasmic (Potential).					integral to membrane					0						TCTGTGTGGACAAACTGATGA	0.587													6	12					5.9392e-07	6.57421e-07	0.001168	1	0		A	138487766	A	A	138487766	3	1	219	1	0	0	0	0	1	0	0	0	16161	477	17	5	286	5	TMEM213	7	138487766	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	3598719	138487766	20650897	55	107842											
SLC4A2	6522	broad.mit.edu	37	chr7	150772385	150772385	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcatgctgcagaagggctccGgcttccacctggacctgctg	6	8	13	14	1	0	1	0	0	0	1	2	2	2	2	4	3	3	6	4	3	1	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr7:150772385G>A	uc003wit.3	+	20	3347	c.3091G>A	c.(3091-3093)GGC>AGC	p.G1031S	SLC4A2_uc011kve.1_Missense_Mutation_p.G1022S|SLC4A2_uc003wiu.3_Missense_Mutation_p.G1017S|SLC4A2_uc003wiv.3_Missense_Mutation_p.G225S|uc011kvf.1_Silent_p.A167A	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	1031	Membrane (anion exchange).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		GAAGGGCTCCGGCTTCCACCT	0.642													6	16					0	0	0.001168	0	0		A	150772385	A	A	150772385	3	1	219	1	0	0	0	0	1	0	0	0	14679	1116	39	1	3165	1	SLC4A2	7	150772385	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	12284619	150772385	8366278	56	107843											
DDHD2	23259	broad.mit.edu	37	chr8	38095671	38095671	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ttcaacacccacggagcaggGtcgaccaagaactgtgaaga	14	5	11	11	2	1	3	1	1	0	2	2	5	1	4	2	2	3	1	2	2	4	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr8:38095671G>A	uc003xlb.2	+	5	943	c.566G>A	c.(565-567)GGT>GAT	p.G189D	DDHD2_uc003xla.2_Missense_Mutation_p.G189D|DDHD2_uc003xlc.2_Missense_Mutation_p.G189D|DDHD2_uc011lbl.1_Intron	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1	189					lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			ACGGAGCAGGGTCGACCAAGA	0.403													16	46					0	0	0.006122	0	0		A	38095671	A	A	38095671	3	1	219	1	0	0	0	0	1	0	0	0	4330	1261	44	4	580	4	DDHD2	8	38095671	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08		38095671	108268351	57	107844											
RBM12B	389677	broad.mit.edu	37	chr8	94746335	94746335	+	Silent	SNP	T	C	C	0	1	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	ggcgggcgcctgaaatgctcTgggggtggccgcctgaagtg	5	7	19	10	3	1	2	0	2	1	0	1	2	1	2	3	5	1	1	3	5	2	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr8:94746335T>C	uc003yfz.2	-	3	2497	c.2304A>G	c.(2302-2304)CCA>CCG	p.P768P		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	768							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			TGAAATGCTCTGGGGGTGGCC	0.677													17	64					0	0	0.010504	0	0		C	94746335	C	C	94746335	2	2	219	1	0	0	0	0	0	0	0	1	13139	1567	55	3		3	RBM12B	8	94746335	Silent	SNP	T	TCGA-IN-8462-01A-11D-2340-08	56650664	94746335	51617687	58	107845			1	48		2	2	15	T		6.014671e-05
RBM12B	389677	broad.mit.edu	37	chr8	94746349	94746349	+	Silent	SNP	T	G	G	0	1	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	atgctctgggggtggccgccTgaagtgctctgggggtggcc	3	9	19	10	1	2	1	0	1	2	0	2	1	2	1	3	6	2	2	3	6	1	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr8:94746349T>G	uc003yfz.2	-	3	2483	c.2290A>C	c.(2290-2292)AGG>CGG	p.R764R		NM_203390	NP_976324	Q8IXT5	RB12B_HUMAN	RNA binding motif protein 12B	764							nucleotide binding|RNA binding				0	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.0168)			GGTGGCCGCCTGAAGTGCTCT	0.677													9	76					0	0	0.013537	0	0		G	94746349	G	G	94746349	2	3	219	1	0	0	0	0	0	0	0	1	13139	1579	55	5		5	RBM12B	8	94746349	Silent	SNP	T	TCGA-IN-8462-01A-11D-2340-08	14	94746349	51617673	59	107846			1	48		2	2	15	T		6.014671e-05
TSPYL5	85453	broad.mit.edu	37	chr8	98289373	98289373	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gcgctccaagtgctgcagtcGcaactgcccaaacttcctgg	8	8	10	15	2	0	0	0	0	0	0	3	0	2	0	3	1	5	4	3	1	3	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr8:98289373G>A	uc003yhy.2	-	1	804	c.700C>T	c.(700-702)CGA>TGA	p.R234*		NM_033512	NP_277047	Q86VY4	TSYL5_HUMAN	TSPY-like 5	234					cellular response to gamma radiation|nucleosome assembly|positive regulation of cell proliferation|positive regulation of protein kinase B signaling cascade|positive regulation of protein ubiquitination|regulation of growth	nucleus	protein binding			large_intestine(1)|ovary(1)	2	Breast(36;2.56e-06)					TGCTGCAGTCGCAACTGCCCA	0.567													13	47					0	0	0.013537	0	0		A	98289373	A	A	98289373	4	1	219	1	0	0	0	0	0	1	0	0	16688	1095	38	1	557	1	TSPYL5	8	98289373	Nonsense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	3543024	98289373	48074649	60	107847											
CSMD3	114788	broad.mit.edu	37	chr8	113332148	113332148	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acctatttcaaattcatcatCttccgtcaaaatttcagcat	13	15	2	11	1	6	0	5	0	1	0	7	0	7	0	2	0	1	1	2	0	4	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr8:113332148C>T	uc003ynu.2	-	46	7387	c.7228G>A	c.(7228-7230)GAT>AAT	p.D2410N	CSMD3_uc003yns.2_Missense_Mutation_p.D1612N|CSMD3_uc003ynt.2_Missense_Mutation_p.D2370N|CSMD3_uc011lhx.1_Missense_Mutation_p.D2306N|CSMD3_uc003ynw.1_Missense_Mutation_p.D121N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2410	Extracellular (Potential).|Sushi 13.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						AATTCATCATCTTCCGTCAAA	0.353										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			21	46					0	0	0.010504	0	0		T	113332148	T	T	113332148	3	4	219	1	0	0	0	0	1	0	0	0	3949	913	32	4	3999	4	CSMD3	8	113332148	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	15042775	113332148	33031874	61	107848											
CYLC2	1539	broad.mit.edu	37	chr9	105767544	105767544	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagaatctgaaggtgaaaaaGgaggtacagagaaagatagc	19	5	13	4	0	1	5	0	2	1	3	1	7	1	6	0	3	2	1	0	3	7	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr9:105767544G>A	uc004bbs.2	+	5	701	c.631G>A	c.(631-633)GGA>AGA	p.G211R		NM_001340	NP_001331	Q14093	CYLC2_HUMAN	cylicin 2	211	3 X approximate tandem repeats.|31 X 3 AA repeats of K-K-X.|2.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			skin(1)	1		all_hematologic(171;0.125)				AGGTGAAAAAGGAGGTACAGA	0.279													8	16					0	0	0.00308	0	0		A	105767544	A	A	105767544	3	1	219	1	0	0	0	0	1	0	0	0	4145	1001	35	4	649	4	CYLC2	9	105767544	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08		105767544	35445887	62	107849											
SVEP1	79987	broad.mit.edu	37	chr9	113173397	113173397	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ccacaagataccgggtggcaCgtcggtataggactactcca	11	7	11	12	3	0	1	0	0	0	1	2	2	1	2	3	4	2	2	3	4	5	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr9:113173397C>T	uc010mtz.2	-	37	6931	c.6594G>A	c.(6592-6594)ACG>ACA	p.T2198T	SVEP1_uc010mty.2_Silent_p.T124T	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2198	Sushi 13.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CCGGGTGGCACGTCGGTATAG	0.522													10	32					0	0	0.008291	0	0		T	113173397	T	T	113173397	2	4	219	1	0	0	0	0	0	0	0	1	15445	523	19	1		1	SVEP1	9	113173397	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	7405853	113173397	28040034	63	107850											
CERCAM	51148	broad.mit.edu	37	chr9	131186739	131186739	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	cccaccaagaaccgccagcgCcggggctgcttccgtgtccc	6	5	11	19	4	0	1	0	0	0	1	2	1	2	1	7	2	3	2	7	2	2	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr9:131186739C>T	uc004buz.3	+	5	1010	c.612C>T	c.(610-612)CGC>CGT	p.R204R	CERCAM_uc004buy.1_Silent_p.R126R|CERCAM_uc010mxz.2_Silent_p.R126R|CERCAM_uc010mya.1_Silent_p.R45R	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	204					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						ACCGCCAGCGCCGGGGCTGCT	0.647													22	86					0	0	0.014323	0	0		T	131186739	T	T	131186739	2	4	219	1	0	0	0	0	0	0	0	1	3269	726	26	2		2	CERCAM	9	131186739	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	18013342	131186739	10026692	64	107851											
COL5A1	1289	broad.mit.edu	37	chr9	137708924	137708924	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	atcggggcctccaggaaaaaGggtaaataatcctgcaggca	14	6	12	9	1	0	0	0	0	0	0	3	1	2	1	3	5	1	3	3	5	5	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr9:137708924G>T	uc004cfe.2	+	53	4557	c.4175G>T	c.(4174-4176)AGG>ATG	p.R1392M		NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein	1392	Triple-helical region.				axon guidance|cell adhesion|collagen biosynthetic process|collagen fibril organization|eye morphogenesis|fibril organization|integrin biosynthetic process|skin development|wound healing, spreading of epidermal cells	collagen type V	heparin binding|integrin binding|platelet-derived growth factor binding|proteoglycan binding			skin(4)|ovary(3)|pancreas(2)|central_nervous_system(1)|kidney(1)	11		Myeloproliferative disorder(178;0.0341)		all cancers(34;2.28e-08)|OV - Ovarian serous cystadenocarcinoma(145;6.03e-08)|Epithelial(140;6.4e-08)|GBM - Glioblastoma multiforme(294;0.131)		CCAGGAAAAAGGGTAAATAAT	0.572													8	30					0.000157383	0.000167876	0.00308	1	0		T	137708924	T	T	137708924	3	4	219	1	0	0	0	0	1	0	0	0	3699	1014	35	5	4385	5	COL5A1	9	137708924	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	6522185	137708924	3504507	65	107852											
DOCK1	1793	broad.mit.edu	37	chr10	129179558	129179558	+	Missense_Mutation	SNP	T	C	C	0	1	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	tcaggtatttgtacaagctcTgtgacctgcacaaggagtgt	10	12	11	8	0	2	1	1	1	1	0	2	2	2	2	1	2	3	4	1	2	4	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr10:129179558T>C	uc001ljt.2	+	37	3734	c.3670T>C	c.(3670-3672)TGT>CGT	p.C1224R	DOCK1_uc010qun.1_Missense_Mutation_p.C1245R|DOCK1_uc009yaq.2_Missense_Mutation_p.C219R	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1224	DHR-2.				apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding			central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)		GTACAAGCTCTGTGACCTGCA	0.388													15	50					0	0	0.00499	0	0		C	129179558	C	C	129179558	3	2	219	1	0	0	0	0	1	0	0	0	4690	1580	55	3	3816	3	DOCK1	10	129179558	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08		129179558	6355189	66	107853											
MUC5B	727897	broad.mit.edu	37	chr11	1263339	1263339	+	Silent	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tccaaagagccgctgaccacGagcctggcgccaacactcac	11	4	9	17	3	1	2	1	1	0	1	2	3	2	2	5	1	3	1	5	1	2	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:1263339G>C	uc009ycr.1	+	47	7434	c.7308G>C	c.(7306-7308)ACG>ACC	p.T2436T	MUC5B_uc001ltb.2_Silent_p.T1746T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1743	7 X Cys-rich subdomain repeats.|Thr-rich.				cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding				0		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		CGCTGACCACGAGCCTGGCGC	0.642													7	20					0	0	0.001984	0	0		C	1263339	C	C	1263339	2	2	219	1	0	0	0	0	0	0	0	1	9997	1045	37	5		5	MUC5B	11	1263339	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08		1263339	133743177	67	107854											
APBB1	322	broad.mit.edu	37	chr11	6432394	6432394	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	cttggcattggcagggcctgGctcaggcccaccaccctccc	5	7	11	18	0	1	0	1	0	0	0	2	0	2	0	5	5	0	3	5	5	0	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:6432394G>T	uc001mdb.1	-	2	284	c.184C>A	c.(184-186)CCA>ACA	p.P62T	APBB1_uc001mdc.1_Missense_Mutation_p.P62T|APBB1_uc010rah.1_Intron	NM_001164	NP_001155	O00213	APBB1_HUMAN	amyloid beta A4 precursor protein-binding,	62					apoptosis|axonogenesis|cell cycle arrest|histone H4 acetylation|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of thymidylate synthase biosynthetic process|positive regulation of apoptosis|positive regulation of transcription, DNA-dependent|response to DNA damage stimulus|signal transduction|transcription, DNA-dependent	cytoplasm|growth cone|lamellipodium|nucleus|plasma membrane|synapse	beta-amyloid binding|chromatin binding|histone binding|proline-rich region binding|transcription factor binding			breast(2)	2		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)		GCAGGGCCTGGCTCAGGCCCA	0.662													30	109					1.16021e-09	1.33462e-09	0.007291	1	0		T	6432394	T	T	6432394	3	4	219	1	0	0	0	0	1	0	0	0	759	1203	42	5	2000	5	APBB1	11	6432394	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	5169055	6432394	128574122	68	107855											
PTPRJ	5795	broad.mit.edu	37	chr11	48149352	48149352	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atgctattcaggtttttgacGtcaccgctgtgaacatcagt	9	14	9	9	2	3	2	3	2	0	0	3	2	3	2	1	1	2	3	1	1	2	4	rs2229703	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:48149352G>A	uc001ngp.3	+	7	1469	c.1114G>A	c.(1114-1116)GTC>ATC	p.V372I	PTPRJ_uc001ngo.3_Missense_Mutation_p.V372I	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	372	Extracellular (Potential).|Fibronectin type-III 4.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity	p.V372L(1)		breast(3)|kidney(3)|ovary(1)|skin(1)	8						GGTTTTTGACGTCACCGCTGT	0.498													13	47					0	0	0.013537	0	0		A	48149352	A	A	48149352	3	1	219	1	0	0	0	0	1	0	0	0	12829	1145	40	1	1140	1	PTPRJ	11	48149352	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	41716958	48149352	86857164	69	107856											
OR9G4	283189	broad.mit.edu	37	chr11	56510343	56510343	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtctgtgttgctttcctgaaGgcctctttgatatctttgtt	4	20	9	8	0	3	2	0	2	3	0	4	2	4	2	2	1	1	3	2	1	2	6			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:56510343G>T	uc010rjo.1	-	1	945	c.945C>A	c.(943-945)GCC>GCA	p.A315A		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	315	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CTTTCCTGAAGGCCTCTTTGA	0.408													25	56					4.26978e-12	5.11211e-12	0.00333	1	0		T	56510343	T	T	56510343	2	4	219	1	0	0	0	0	0	0	0	1	11270	987	35	5		5	OR9G4	11	56510343	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	8360991	56510343	78496173	70	107857											
BAD	572	broad.mit.edu	37	chr11	64037700	64037700	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtcactgggagggggcggagCttcccctgcccaagttccga	6	7	15	13	2	1	0	1	0	0	0	3	3	3	2	4	4	2	2	4	4	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:64037700C>T	uc001nzd.2	-	4	570	c.488G>A	c.(487-489)AGC>AAC	p.S163N	BAD_uc001nzc.2_Missense_Mutation_p.S163N|GPR137_uc009ypj.1_5'UTR	NM_032989	NP_116784	Q92934	BAD_HUMAN	BCL2-associated agonist of cell death	163					activation of pro-apoptotic gene products|ADP metabolic process|ATP metabolic process|cellular response to hypoxia|cellular response to mechanical stimulus|cellular response to nicotine|glucose homeostasis|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|pore complex assembly|positive regulation of epithelial cell proliferation|positive regulation of glucokinase activity|positive regulation of insulin secretion|positive regulation of mitochondrial membrane potential|positive regulation of type B pancreatic cell development|regulation of mitochondrial membrane permeability|type B pancreatic cell proliferation	cytosol|mitochondrial outer membrane	caspase activator activity|phospholipid binding|protein kinase binding			central_nervous_system(1)	1						GGGGGCGGAGCTTCCCCTGCC	0.637													8	31					0	0	0.004482	0	0		T	64037700	T	T	64037700	3	4	219	1	0	0	0	0	1	0	0	0	1286	797	28	2	22	2	BAD	11	64037700	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	7527357	64037700	70968816	71	107858											
SLC22A12	116085	broad.mit.edu	37	chr11	64360337	64360337	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctggtgggagctgctgcgtgCggccctgcctcagacaggtg	4	8	17	12	2	1	1	1	0	0	1	1	2	1	2	2	4	5	2	2	4	0	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:64360337C>T	uc001oam.1	+	2	1236	c.489C>T	c.(487-489)TGC>TGT	p.C163C	SLC22A12_uc009ypr.1_Silent_p.C163C|SLC22A12_uc001oal.1_5'UTR|SLC22A12_uc009yps.1_Silent_p.C163C|SLC22A12_uc001oan.1_Silent_p.C163C|SLC22A12_uc009ypt.2_5'Flank	NM_144585	NP_653186	Q96S37	S22AC_HUMAN	urate anion exchanger 1 isoform a	163	Helical; (Potential).				cellular homeostasis|response to drug|urate metabolic process	apical plasma membrane|brush border membrane|integral to membrane	PDZ domain binding|urate transmembrane transporter activity			ovary(1)	1						CTGCTGCGTGCGGCCCTGCCT	0.627													15	46					0	0	0.00245	0	0		T	64360337	T	T	64360337	2	4	219	1	0	0	0	0	0	0	0	1	14468	776	27	1		1	SLC22A12	11	64360337	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	322637	64360337	70646179	72	107859											
CADM1	23705	broad.mit.edu	37	chr11	115099839	115099839	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	accagggtactcacactgtaCttctagataccgctgggtct	9	11	9	12	1	3	1	1	0	2	1	3	1	3	1	2	2	3	3	2	2	4	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:115099839C>A	uc001ppi.3	-	5	844	c.715G>T	c.(715-717)GTA>TTA	p.V239L	CADM1_uc001ppf.3_Missense_Mutation_p.V239L|CADM1_uc001ppk.3_Missense_Mutation_p.V239L|CADM1_uc001ppj.3_Missense_Mutation_p.V239L|CADM1_uc001ppl.2_Missense_Mutation_p.V239L	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1	239	Extracellular (Potential).				adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TCACACTGTACTTCTAGATAC	0.483													9	23					0.00829132	0.00858395	0.008291	1	0		A	115099839	A	A	115099839	3	1	219	1	0	0	0	0	1	0	0	0	2569	565	20	5	637	5	CADM1	11	115099839	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	50739502	115099839	19906677	73	107860											
APOA5	116519	broad.mit.edu	37	chr11	116661339	116661339	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agctcctgcacgtggcgcccGatgccgctcaccaggctctc	5	7	11	18	4	2	0	1	0	1	0	4	1	3	0	4	2	3	4	4	2	0	0	rs140482460		TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:116661339G>A	uc001ppr.2	-	3	614	c.606C>T	c.(604-606)ATC>ATT	p.I202I	ZNF259_uc001ppp.2_5'Flank|ZNF259_uc009yzd.2_5'Flank|ZNF259_uc001ppq.2_5'Flank|APOA5_uc009yze.2_Silent_p.I202I|APOA5_uc009yzf.2_Silent_p.I202I|APOA5_uc009yzg.2_Silent_p.I228I	NM_052968	NP_443200	Q6Q788	APOA5_HUMAN	apolipoprotein AV precursor	202					acylglycerol homeostasis|cholesterol homeostasis|lipid transport|lipoprotein metabolic process|positive regulation of fatty acid biosynthetic process|positive regulation of lipoprotein lipase activity|positive regulation of receptor-mediated endocytosis|positive regulation of triglyceride catabolic process|positive regulation of very-low-density lipoprotein particle remodeling|tissue regeneration|triglyceride catabolic process|triglyceride homeostasis	chylomicron|high-density lipoprotein particle|very-low-density lipoprotein particle	enzyme binding|heparin binding|lipoprotein lipase activator activity|low-density lipoprotein particle receptor binding|phosphatidylcholine binding				0	all_hematologic(175;0.0487)	all_cancers(61;3.31e-09)|all_epithelial(67;8.03e-06)|Breast(348;0.0126)|Melanoma(852;0.0153)|Acute lymphoblastic leukemia(157;0.0257)|Medulloblastoma(222;0.0425)|all_hematologic(158;0.0433)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;4.93e-06)|all cancers(92;0.000123)|OV - Ovarian serous cystadenocarcinoma(223;0.149)		CGTGGCGCCCGATGCCGCTCA	0.697													7	30					0	0	0.001984	0	0		A	116661339	A	A	116661339	2	1	219	1	0	0	0	0	0	0	0	1	784	1048	37	1		1	APOA5	11	116661339	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	1561500	116661339	18345177	74	107861											
GRIK4	2900	broad.mit.edu	37	chr11	120531035	120531035	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggattcatagaagatgccccGcgtctcggcgcctttggtgc	6	10	13	12	4	2	2	1	0	1	2	3	3	2	3	3	3	2	0	3	3	2	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:120531035G>A	uc001pxn.2	+	3	295	c.8G>A	c.(7-9)CGC>CAC	p.R3H	GRIK4_uc009zav.1_Missense_Mutation_p.R3H|GRIK4_uc009zaw.1_Missense_Mutation_p.R3H|GRIK4_uc009zax.1_Missense_Mutation_p.R3H	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	3					glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	AAGATGCCCCGCGTCTCGGCG	0.637											OREG0021424	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	64					0	0	0.006122	0	0		A	120531035	A	A	120531035	3	1	219	1	0	0	0	0	1	0	0	0	6792	1087	38	1	10	1	GRIK4	11	120531035	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	3869696	120531035	14475481	75	107862											
GRIK4	2900	broad.mit.edu	37	chr11	120732714	120732714	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttgtggatgatcgtgtcaAcatcctgggattttccattt	7	16	9	9	1	1	1	1	1	0	0	4	3	3	3	3	2	1	0	3	2	1	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:120732714A>T	uc001pxn.2	+	9	1078	c.791A>T	c.(790-792)AAC>ATC	p.N264I	GRIK4_uc009zav.1_Missense_Mutation_p.N264I|GRIK4_uc009zaw.1_Missense_Mutation_p.N264I|GRIK4_uc009zax.1_Missense_Mutation_p.N264I	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	264	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|central_nervous_system(1)	3		Breast(109;0.000868)|Medulloblastoma(222;0.0453)|all_neural(223;0.116)|all_hematologic(192;0.21)		BRCA - Breast invasive adenocarcinoma(274;1.24e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.116)	L-Glutamic Acid(DB00142)	GATCGTGTCAACATCCTGGGA	0.488													145	135					0	0	0.01441	0	0		T	120732714	T	T	120732714	3	4	219	1	0	0	0	0	1	0	0	0	6792	43	2	5	817	5	GRIK4	11	120732714	Missense_Mutation	SNP	A	TCGA-IN-8462-01A-11D-2340-08	201679	120732714	14273802	76	107863											
ADAMTS8	11095	broad.mit.edu	37	chr11	130297579	130297579	+	Silent	SNP	C	T	T	0	0	0	1	1	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	gtggcccccaggggcggtggCggctcgctagcgccttctgc	2	7	17	15	4	1	0	0	0	1	0	2	0	1	0	3	6	2	2	3	6	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr11:130297579C>T	uc001qgg.3	-	1	961	c.603G>A	c.(601-603)CCG>CCA	p.P201P		NM_007037	NP_008968	Q9UP79	ATS8_HUMAN	ADAM metallopeptidase with thrombospondin type 1	201	Poly-Pro.				negative regulation of cell proliferation|proteolysis	proteinaceous extracellular matrix	heparin binding|integrin binding|low affinity phosphate transmembrane transporter activity|metalloendopeptidase activity|zinc ion binding			central_nervous_system(1)	1	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.039)|Lung(977;0.213)		GGGGCGGTGGCGGCTCGCTAG	0.657													6	11					0	0	0.001168	0	0		T	130297579	T	T	130297579	2	4	219	1	0	0	0	0	0	0	0	1	272	755	27	1		1	ADAMTS8	11	130297579	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	9564865	130297579	4708937	77	107864											
ABCC9	10060	broad.mit.edu	37	chr12	22059168	22059169	+	Frame_Shift_Ins	INS	-	T	T																															caggcatacaattttagaagINStttgatgcctttcaatattt																										TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:22059168_22059169insT	uc001rfi.1	-	10	1529_1530	c.1509_1510insA	c.(1507-1512)AAACTTfs	p.K503fs	ABCC9_uc001rfh.2_Frame_Shift_Ins_p.K503fs|ABCC9_uc001rfj.1_Frame_Shift_Ins_p.K503fs	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	503_504	Cytoplasmic (Potential).|ABC transmembrane type-1 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AATTTTAGAAGTTTGATGCCTT	0.337													13	24	---	---	---	---						.	T	22059169	T	T	22059168	7	5	219	1	0	1	1	0	0	0	0	0	59	1029	36	0	3397	0	ABCC9	12	22059168	Frame_Shift_Ins	INS	-	TCGA-IN-8462-01A-11D-2340-08		22059168	111792727	78	107865											
PDZRN4	29951	broad.mit.edu	37	chr12	41900470	41900470	+	Silent	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctggccaagcttcgtccaccTacccctccagtgccagacat	8	8	7	18	1	0	1	0	0	0	1	3	1	2	1	7	1	3	1	7	1	2	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:41900470T>A	uc010skn.1	+	4	527	c.459T>A	c.(457-459)CCT>CCA	p.P153P	PDZRN4_uc001rmq.3_Silent_p.P94P|PDZRN4_uc009zjz.2_Silent_p.P92P|PDZRN4_uc001rmr.2_5'Flank	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	352							ubiquitin-protein ligase activity|zinc ion binding			lung(3)|skin(3)|ovary(2)|large_intestine(1)|kidney(1)|pancreas(1)	11	all_cancers(12;0.000673)	Lung NSC(34;0.0205)|all_lung(34;0.0264)				TTCGTCCACCTACCCCTCCAG	0.493													17	49					0	0	0.00499	0	0		A	41900470	A	A	41900470	2	1	219	1	0	0	0	0	0	0	0	1	11729	1509	53	5		5	PDZRN4	12	41900470	Silent	SNP	T	TCGA-IN-8462-01A-11D-2340-08	19841302	41900470	91951425	79	107866											
MAP3K12	7786	broad.mit.edu	37	chr12	53879109	53879109	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctagttctcaccagatgtcGaccttctcagacacaggttc	9	11	7	14	1	2	2	2	0	2	2	6	3	2	2	3	1	0	2	3	1	1	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:53879109G>T	uc001sdm.1	-	6	971	c.873C>A	c.(871-873)GTC>GTA	p.V291V	MAP3K12_uc001sdn.1_Silent_p.V324V	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	291	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						ACCAGATGTCGACCTTCTCAG	0.557													25	79					9.57634e-11	1.12362e-10	0.00333	1	0		T	53879109	T	T	53879109	2	4	219	1	0	0	0	0	0	0	0	1	9264	1045	37	5		5	MAP3K12	12	53879109	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	11978639	53879109	79972786	80	107867											
MARS	4141	broad.mit.edu	37	chr12	57898029	57898029	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	agcctcagtgtaaagtctgcCgatcatgccctgtggtgcag	8	10	12	11	1	3	0	2	0	1	0	3	1	3	0	3	1	4	2	3	1	2	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:57898029C>T	uc001sog.2	+	11	1338	c.1315C>T	c.(1315-1317)CGA>TGA	p.R439*	MARS_uc001sof.1_RNA|MARS_uc010srp.1_Nonsense_Mutation_p.R312*|MARS_uc010srq.1_Nonsense_Mutation_p.R205*	NM_004990	NP_004981	P56192	SYMC_HUMAN	methionyl-tRNA synthetase	439					methionyl-tRNA aminoacylation	cytosol	ATP binding|methionine-tRNA ligase activity|protein binding|tRNA binding			ovary(3)|central_nervous_system(1)|pancreas(1)	5			GBM - Glioblastoma multiforme(3;4.27e-41)		L-Methionine(DB00134)	TAAAGTCTGCCGATCATGCCC	0.557													5	46					0	0	0.001168	0	0		T	57898029	T	T	57898029	4	4	219	1	0	0	0	0	0	1	0	0	9334	644	23	1	1357	1	MARS	12	57898029	Nonsense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	4018920	57898029	75953866	81	107868											
OS9	10956	broad.mit.edu	37	chr12	58109707	58109707	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caggccatcctctgtcacccTtccctacagcctgaggagta	8	9	8	16	0	2	1	1	1	1	0	4	2	4	2	5	2	2	1	5	2	2	3	rs73125477	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:58109707T>G	uc001spj.2	+	6	803	c.744T>G	c.(742-744)CCT>CCG	p.P248P	OS9_uc010srx.1_Intron|OS9_uc001spk.2_Silent_p.P248P|OS9_uc001spl.2_Silent_p.P248P|OS9_uc001spm.2_Silent_p.P248P|OS9_uc001spn.2_Silent_p.P248P|OS9_uc010sry.1_Silent_p.P215P|OS9_uc010srz.1_Silent_p.P189P	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	248					ER-associated protein catabolic process|protein retention in ER lumen|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to endoplasmic reticulum stress	endoplasmic reticulum lumen|Hrd1p ubiquitin ligase complex	glycoprotein binding|protein binding|sugar binding			ovary(1)	1	all_neural(12;0.00548)|Glioma(12;0.0126)|Melanoma(17;0.122)		BRCA - Breast invasive adenocarcinoma(9;0.109)			TCTGTCACCCTTCCCTACAGC	0.627													6	66					0	0	0.001984	0	0		G	58109707	G	G	58109707	2	3	219	1	0	0	0	0	0	0	0	1	11291	1596	56	5		5	OS9	12	58109707	Silent	SNP	T	TCGA-IN-8462-01A-11D-2340-08	211678	58109707	75742188	82	107869											
C12orf66	144577	broad.mit.edu	37	chr12	64587770	64587770	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tggtaaagtgaggttccgggCgggttaggaagtaggtactc	9	10	17	5	2	0	1	0	1	0	0	2	2	1	2	1	6	1	5	1	6	6	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:64587770C>T	uc001srw.3	-	3	1249	c.1190G>A	c.(1189-1191)CGC>CAC	p.R397H	C12orf66_uc009zql.2_Missense_Mutation_p.R344H	NM_152440	NP_689653	Q96MD2	CL066_HUMAN	hypothetical protein LOC144577	397										ovary(1)	1						AGGTTCCGGGCGGGTTAGGAA	0.448													29	85					0	0	0.009535	0	0		T	64587770	T	T	64587770	3	4	219	1	0	0	0	0	1	0	0	0	1712	768	27	1	151	1	C12orf66	12	64587770	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	6478063	64587770	69264125	83	107870											
MGAT4C	25834	broad.mit.edu	37	chr12	86373542	86373542	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	catccttcagcttattctccGtccctttgtatgatgaataa	9	16	5	11	1	2	2	1	2	1	0	5	2	4	2	3	0	1	2	3	0	4	6	rs145801611	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:86373542G>A	uc001tai.3	-	8	2212	c.962C>T	c.(961-963)ACG>ATG	p.T321M	MGAT4C_uc001tal.3_Missense_Mutation_p.T321M|MGAT4C_uc001taj.3_Missense_Mutation_p.T321M|MGAT4C_uc001tak.3_Missense_Mutation_p.T321M|MGAT4C_uc010sum.1_Missense_Mutation_p.T345M|MGAT4C_uc001tah.3_Missense_Mutation_p.T321M	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	321	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						CTTATTCTCCGTCCCTTTGTA	0.403													12	62					0	0	0.001855	0	0		A	86373542	A	A	86373542	3	1	219	1	0	0	0	0	1	0	0	0	9565	1145	40	1	478	1	MGAT4C	12	86373542	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	21785772	86373542	47478353	84	107871											
WSCD2	9671	broad.mit.edu	37	chr12	108641943	108641943	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgtcagggaggaccggctGctctgtgtggagagccagaa	8	7	17	9	1	2	2	1	0	1	2	2	5	2	4	2	4	2	3	2	4	1	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr12:108641943G>T	uc001tms.2	+	9	2265	c.1521G>T	c.(1519-1521)CTG>CTT	p.L507L	WSCD2_uc001tmt.2_Silent_p.L507L|WSCD2_uc001tmu.2_Silent_p.L275L	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	507						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						AGGACCGGCTGCTCTGTGTGG	0.602													14	29					7.93312e-07	8.67223e-07	0.00245	1	0		T	108641943	T	T	108641943	2	4	219	1	0	0	0	0	0	0	0	1	17433	1306	46	5		5	WSCD2	12	108641943	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	22268401	108641943	25209952	85	107872											
RAP2A	5911	broad.mit.edu	37	chr13	98116563	98116563	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ccttgctgaagagtggggctGcccctttatggaaacttccg	7	11	12	11	1	0	2	0	1	0	1	1	3	1	3	4	3	3	2	4	3	3	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr13:98116563G>T	uc001vnd.2	+	2	669	c.419G>T	c.(418-420)TGC>TTC	p.C140F		NM_021033	NP_066361	P10114	RAP2A_HUMAN	RAP2A, member of RAS oncogene family precursor	140					actin cytoskeleton reorganization|cellular protein localization|establishment of protein localization|positive regulation of protein autophosphorylation|Rap protein signal transduction|regulation of dendrite morphogenesis|regulation of JNK cascade	recycling endosome membrane	GTP binding|GTPase activity|protein binding			central_nervous_system(1)	1	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.166)			GAGTGGGGCTGCCCCTTTATG	0.488													43	53					6.4771e-29	8.08489e-29	0.010771	1	0		T	98116563	T	T	98116563	3	4	219	1	0	0	0	0	1	0	0	0	13065	1319	46	5	425	5	RAP2A	13	98116563	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08		98116563	17053315	86	107873											
MYO16	23026	broad.mit.edu	37	chr13	109792648	109792648	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	accgcacagcgacgactacaGcaccatgaagaagattcctc	14	5	8	14	3	0	3	0	1	0	2	2	5	1	3	3	0	3	2	3	0	3	2	rs145367903		TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr13:109792648G>T	uc001vqt.1	+	32	4148	c.4022G>T	c.(4021-4023)AGC>ATC	p.S1341I	MYO16_uc010agk.1_Missense_Mutation_p.S1363I	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	1341					cerebellum development|negative regulation of cell proliferation|negative regulation of S phase of mitotic cell cycle	myosin complex|nucleoplasm|perinuclear region of cytoplasm|plasma membrane	actin filament binding|ATP binding|motor activity			ovary(6)|large_intestine(1)|kidney(1)|breast(1)|central_nervous_system(1)	10	all_lung(23;0.000332)|all_neural(89;0.00294)|Medulloblastoma(90;0.00596)|Lung NSC(43;0.00751)|Lung SC(71;0.104)		BRCA - Breast invasive adenocarcinoma(86;0.19)|all cancers(43;0.201)			GACGACTACAGCACCATGAAG	0.602													11	16					5.50884e-06	5.98491e-06	0.013537	1	0		T	109792648	T	T	109792648	3	4	219	1	0	0	0	0	1	0	0	0	10082	971	34	5	4144	5	MYO16	13	109792648	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	11676085	109792648	5377230	87	107874											
PRKD1	5587	broad.mit.edu	37	chr14	30102110	30102110	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcctgtgtcattctgaaagaGggtaatacatttgctatcca	11	14	8	8	0	2	2	1	1	1	1	4	2	4	2	2	1	2	2	2	1	4	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:30102110G>A	uc001wqh.2	-	9	1538	c.1357C>T	c.(1357-1359)CTC>TTC	p.L453F		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	453	PH.				cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		TTCTGAAAGAGGGTAATACAT	0.368													29	184					0	0	0.010818	0	0		A	30102110	A	A	30102110	3	1	219	1	0	0	0	0	1	0	0	0	12540	1000	35	4	1421	4	PRKD1	14	30102110	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08		30102110	77247430	88	107875											
BAZ1A	11177	broad.mit.edu	37	chr14	35224069	35224069	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	acacttattcactttttcacGaattatatttaaggcaatgg	13	16	5	7	1	2	0	2	0	0	0	2	1	2	0	0	2	0	1	0	2	6	8			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:35224069G>A	uc001wsk.2	-	26	5006	c.4438C>T	c.(4438-4440)CGT>TGT	p.R1480C	BAZ1A_uc001wsl.2_Missense_Mutation_p.R1448C	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1480	Bromo.				chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		ACTTTTTCACGAATTATATTT	0.284													10	71					0	0	0.013537	0	0		A	35224069	A	A	35224069	3	1	219	1	0	0	0	0	1	0	0	0	1330	1058	37	1	240	1	BAZ1A	14	35224069	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	5121959	35224069	72125471	89	107876											
LRFN5	145581	broad.mit.edu	37	chr14	42356169	42356169	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tagcaacagattgactaaaaTtacaaatgatatgttcagtg	17	12	7	5	0	1	3	1	2	0	1	1	3	1	3	0	0	3	2	0	0	7	6			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:42356169T>G	uc001wvm.2	+	3	1539	c.341T>G	c.(340-342)ATT>AGT	p.I114S	LRFN5_uc010ana.2_Missense_Mutation_p.I114S	NM_152447	NP_689660	Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III	114	Extracellular (Potential).|LRR 3.					integral to membrane				ovary(5)|pancreas(2)|central_nervous_system(1)	8			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		TTGACTAAAATTACAAATGAT	0.353										HNSCC(30;0.082)			16	60					0	0	0.003163	0	0		G	42356169	G	G	42356169	3	3	219	1	0	0	0	0	1	0	0	0	8959	1493	52	5	343	5	LRFN5	14	42356169	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	7132100	42356169	64993371	90	107877											
FSCB	84075	broad.mit.edu	37	chr14	44974311	44974311	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cttcagcgggggcctcctcaGctggtggaggctgaacttca	6	9	14	12	1	3	1	3	1	0	0	4	2	4	2	2	5	3	2	2	5	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:44974311G>A	uc001wvn.2	-	1	2189	c.1880C>T	c.(1879-1881)GCT>GTT	p.A627V		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	627	Ala-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GGCCTCCTCAGCTGGTGGAGG	0.632													5	36					0	0	0.001168	0	0		A	44974311	A	A	44974311	3	1	219	1	0	0	0	0	1	0	0	0	6080	971	34	2	601	2	FSCB	14	44974311	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	2618142	44974311	62375229	91	107878											
GNPNAT1	64841	broad.mit.edu	37	chr14	53251263	53251263	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cctcaaaaccaagccttctcCaggatgtgttggggaaatgg	11	9	11	10	0	2	0	1	0	1	0	3	2	2	2	4	4	2	1	4	4	4	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:53251263C>T	uc001xab.2	-	2	361	c.106G>A	c.(106-108)GGA>AGA	p.G36R		NM_198066	NP_932332	Q96EK6	GNA1_HUMAN	glucosamine-phosphate N-acetyltransferase 1	36					dolichol-linked oligosaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol|endosome membrane|Golgi membrane	glucosamine 6-phosphate N-acetyltransferase activity				0	Breast(41;0.176)					AAGCCTTCTCCAGGATGTGTT	0.408													8	72					0	0	0.004482	0	0		T	53251263	T	T	53251263	3	4	219	1	0	0	0	0	1	0	0	0	6559	603	21	4	468	4	GNPNAT1	14	53251263	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	8276952	53251263	54098277	92	107879											
TMEM90A	646658	broad.mit.edu	37	chr14	74876050	74876050	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctcctcttcctcctggtcaTcctcctggtcccgcagctcc	2	12	6	21	1	2	0	1	0	1	0	9	0	9	0	8	2	1	2	8	2	0	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:74876050T>C	uc001xpx.2	-	2	646	c.398A>G	c.(397-399)GAT>GGT	p.D133G		NM_001105579	NP_001099049	A6NDD5	SYN1L_HUMAN	transmembrane protein 90A	133					response to biotic stimulus	Golgi apparatus|integral to membrane					0				BRCA - Breast invasive adenocarcinoma(234;0.00159)		CTCCTGGTCATCCTCCTGGTC	0.418													36	90					0	0	0.006999	0	0		C	74876050	C	C	74876050	3	2	219	1	0	0	0	0	1	0	0	0	16243	1435	50	3	330	3	TMEM90A	14	74876050	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	21624787	74876050	32473490	93	107880											
ZDHHC22	283576	broad.mit.edu	37	chr14	77600151	77600151	+	Frame_Shift_Del	DEL	C	-	-																															gggccgggccctcactgccaCccccttccgcacctggtggc																										TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:77600151delC	uc010asp.2	-	3	870	c.667delG	c.(667-669)GTGfs	p.V223fs		NM_174976	NP_777636	Q8N966	ZDH22_HUMAN	zinc finger, DHHC domain containing 22	223						integral to membrane	acyltransferase activity|zinc ion binding				0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0277)		CTCACTGCCACCCCCTTCCGC	0.652													10	8	---	---	---	---						.	-	77600151	-	-	77600151	7	5	219	1	0	1	0	1	0	0	0	0	17638	507	18	0	128	0	ZDHHC22	14	77600151	Frame_Shift_Del	DEL	C	TCGA-IN-8462-01A-11D-2340-08	2724101	77600151	29749389	94	107881											
KCNK13	56659	broad.mit.edu	37	chr14	90651110	90651110	+	Silent	SNP	C	T	T	0	0	0	1	1	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	aacatctccatagagacagaCggggtggcagagagtgacac	14	5	13	9	1	1	4	0	1	1	3	2	6	1	4	1	3	1	1	1	3	2	1	rs139112374		TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr14:90651110C>T	uc001xye.1	+	2	1432	c.990C>T	c.(988-990)GAC>GAT	p.D330D		NM_022054	NP_071337	Q9HB14	KCNKD_HUMAN	potassium channel, subfamily K, member 13	330	Cytoplasmic (Potential).					integral to membrane	potassium channel activity|voltage-gated ion channel activity			skin(1)	1		all_cancers(154;0.186)				TAGAGACAGACGGGGTGGCAG	0.622													15	47					0	0	0.00245	0	0		T	90651110	T	T	90651110	2	4	219	1	0	0	0	0	0	0	0	1	8077	535	19	1		1	KCNK13	14	90651110	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	13050959	90651110	16698430	95	107882											
SLTM	79811	broad.mit.edu	37	chr15	59186099	59186099	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttatcattcttctcatctttAccttctattttcttagtatc	7	23	1	10	0	6	0	2	0	5	0	8	0	6	0	1	0	1	1	1	0	5	11			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr15:59186099A>G	uc002afp.2	-	12	1657	c.1569T>C	c.(1567-1569)GGT>GGC	p.G523G	SLTM_uc002afn.2_Splice_Site_p.G92_splice|SLTM_uc002afo.2_Silent_p.G505G|SLTM_uc002afq.2_Silent_p.G92G|SLTM_uc010bgd.2_Silent_p.G92G	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	523					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						TCTCATCTTTACCTTCTATTT	0.348													44	23					0	0	0.011902	0	0		G	59186099	G	G	59186099	2	3	219	1	0	0	0	0	0	0	0	1	14779	378	14	3		3	SLTM	15	59186099	Silent	SNP	A	TCGA-IN-8462-01A-11D-2340-08		59186099	43345293	96	107883											
DENND4A	10260	broad.mit.edu	37	chr15	65988761	65988761	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acttgtaccagtgaggcgaaCgatactggaagaattttgat	13	11	11	6	2	0	3	0	2	0	1	0	6	0	4	1	2	3	1	1	2	5	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr15:65988761C>T	uc002aph.2	-	21	3271	c.2893G>A	c.(2893-2895)GTT>ATT	p.V965I	DENND4A_uc002api.2_Missense_Mutation_p.V1008I|DENND4A_uc002apj.3_Missense_Mutation_p.V965I	NM_005848	NP_005839	Q7Z401	MYCPP_HUMAN	DENN/MADD domain containing 4A isoform 2	965					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4						GTGAGGCGAACGATACTGGAA	0.383													6	20					0	0	0.001168	0	0		T	65988761	T	T	65988761	3	4	219	1	0	0	0	0	1	0	0	0	4439	536	19	1	2746	1	DENND4A	15	65988761	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	6802662	65988761	36542631	97	107884											
CORO2B	10391	broad.mit.edu	37	chr15	69004026	69004026	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gctgcgtgtgattgagccccGctctggccgtgttctgcagg	3	11	15	12	3	2	2	0	2	2	0	2	2	2	2	3	2	3	4	3	2	0	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr15:69004026G>A	uc002arj.3	+	5	658	c.629G>A	c.(628-630)CGC>CAC	p.R210H	CORO2B_uc010bic.2_Missense_Mutation_p.R205H|CORO2B_uc002ark.2_5'Flank	NM_006091	NP_006082	Q9UQ03	COR2B_HUMAN	coronin, actin binding protein, 2B	210	WD 3.				actin cytoskeleton organization	actin cytoskeleton|cytoplasm|membrane	actin filament binding			ovary(3)|skin(2)|large_intestine(1)	6						ATTGAGCCCCGCTCTGGCCGT	0.557													22	9					0	0	0.00333	0	0		A	69004026	A	A	69004026	3	1	219	1	0	0	0	0	1	0	0	0	3760	1087	38	1	647	1	CORO2B	15	69004026	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	3015265	69004026	33527366	98	107885											
C15orf42	90381	broad.mit.edu	37	chr15	90164697	90164697	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tttggggcaatgtctgagatGatcagcccctcagaaaaggg	11	9	13	8	0	3	3	2	2	1	2	3	4	3	3	2	3	1	1	2	3	3	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr15:90164697G>T	uc002boe.2	+	19	3228	c.3228G>T	c.(3226-3228)ATG>ATT	p.M1076I	C15orf42_uc010upv.1_5'Flank	NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	1076					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			TGTCTGAGATGATCAGCCCCT	0.423													12	31					1.36491e-13	1.64537e-13	0.001855	1	0		T	90164697	T	T	90164697	3	4	219	1	0	0	0	0	1	0	0	0	1799	1290	45	5	3302	5	C15orf42	15	90164697	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	21160671	90164697	12366695	99	107886											
PKD1	5310	broad.mit.edu	37	chr16	2143019	2143019	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	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	ggcgctttgcagacggtaggCgtgcccatggcatgaggcat	7	8	16	10	3	0	2	0	1	0	1	0	2	0	2	1	5	2	5	1	5	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:2143019C>A	uc002cos.1	-	38	11301	c.11092G>T	c.(11092-11094)GCC>TCC	p.A3698S	PKD1_uc002cot.1_Missense_Mutation_p.A3697S|MIR1225_hsa-mir-1225|MI0006311_5'Flank|PKD1_uc010bse.1_RNA	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	3698	Extracellular (Potential).				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(2)|skin(1)	3						AGACGGTAGGCGTGCCCATGG	0.642													24	84					3.7963e-18	4.67237e-18	0.00333	1	0		A	2143019	A	A	2143019	3	1	219	1	0	0	0	0	1	0	0	0	11982	768	27	5	1855	5	PKD1	16	2143019	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		2143019	88211734	100	107887											
TRAP1	10131	broad.mit.edu	37	chr16	3724366	3724366	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gggcacgtagaagatgctgcGgatgttgagcggtgcgtccg	7	8	18	8	5	0	3	0	1	0	2	1	4	1	4	1	3	4	4	1	3	2	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:3724366G>A	uc002cvt.3	-	9	1107	c.1018C>T	c.(1018-1020)CGC>TGC	p.R340C	TRAP1_uc002cvs.2_Missense_Mutation_p.R131C|TRAP1_uc010uxf.1_Missense_Mutation_p.R287C	NM_016292	NP_057376	Q12931	TRAP1_HUMAN	TNF receptor-associated protein 1 precursor	340					cellular response to oxidative stress|protein folding	mitochondrion	ATP binding|tumor necrosis factor receptor binding|unfolded protein binding			central_nervous_system(1)	1		Ovarian(90;0.0261)				AAGATGCTGCGGATGTTGAGC	0.607													7	44					0	0	0.00308	0	0		A	3724366	A	A	3724366	3	1	219	1	0	0	0	0	1	0	0	0	16481	1116	39	1	1136	1	TRAP1	16	3724366	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	1581347	3724366	86630387	101	107888											
SEC14L5	9717	broad.mit.edu	37	chr16	5064914	5064914	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcttctcccagctcagcgcCgccacctcgtcctcctcctc	3	9	7	22	3	2	0	1	0	1	0	8	0	5	0	7	1	2	2	7	1	0	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:5064914C>T	uc002cye.2	+	16	2214	c.2034C>T	c.(2032-2034)GCC>GCT	p.A678A		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	678	Ser-rich.					integral to membrane|intracellular	transporter activity				0						AGCTCAGCGCCGCCACCTCGT	0.662													7	27					0	0	0.00308	0	0		T	5064914	T	T	5064914	2	4	219	1	0	0	0	0	0	0	0	1	14010	639	23	1		1	SEC14L5	16	5064914	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	1340548	5064914	85289839	102	107889											
GP2	2813	broad.mit.edu	37	chr16	20335179	20335179	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	accagggagtgccttccaacCggtacacatggtacccgcct	9	7	10	15	2	0	0	0	0	0	0	1	1	1	1	6	3	4	2	6	3	3	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:20335179C>A	uc002dgv.2	-	3	577	c.494G>T	c.(493-495)CGG>CTG	p.R165L	GP2_uc002dgw.2_Missense_Mutation_p.R165L|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	165						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						GCCTTCCAACCGGTACACATG	0.577													5	17					1.6384e-10	1.90966e-10	0.001984	1	0		A	20335179	A	A	20335179	3	1	219	1	0	0	0	0	1	0	0	0	6597	652	23	5	1159	5	GP2	16	20335179	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	15270265	20335179	70019574	103	107890											
NKD1	85407	broad.mit.edu	37	chr16	50642255	50642255	+	Silent	SNP	C	T	T	0	0	0	1	1	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	ctcagcgaggaagaggaggaCgactttcggctggaaggtat	11	7	16	7	3	1	1	1	0	0	1	2	7	1	5	0	6	1	2	0	6	3	2	rs115028583	by1000genomes	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:50642255C>T	uc002egg.1	+	4	467	c.243C>T	c.(241-243)GAC>GAT	p.D81D		NM_033119	NP_149110	Q969G9	NKD1_HUMAN	naked cuticle homolog 1	81					Wnt receptor signaling pathway	cytoplasm|plasma membrane	calcium ion binding|protein binding				0		all_cancers(37;0.229)		GBM - Glioblastoma multiforme(240;0.243)		AAGAGGAGGACGACTTTCGGC	0.602													23	79					0	0	0.00333	0	0		T	50642255	T	T	50642255	2	4	219	1	0	0	0	0	0	0	0	1	10460	535	19	1		1	NKD1	16	50642255	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	30307076	50642255	39712498	104	107891											
NDRG4	65009	broad.mit.edu	37	chr16	58538551	58538551	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctatgtgctggccaagtttGcagtgagtctccccatgccc	6	11	10	14	0	1	1	0	1	1	0	2	1	1	1	5	1	3	3	5	1	2	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:58538551G>T	uc002eno.2	+	5	476	c.370G>T	c.(370-372)GCA>TCA	p.A124S	NDRG4_uc002enk.2_Missense_Mutation_p.A156S|NDRG4_uc002enm.2_Missense_Mutation_p.A176S|NDRG4_uc010vif.1_Missense_Mutation_p.A156S|NDRG4_uc010cdk.2_Missense_Mutation_p.A142S|NDRG4_uc010vig.1_Missense_Mutation_p.A154S|NDRG4_uc010vih.1_Missense_Mutation_p.A69S|NDRG4_uc010vii.1_Missense_Mutation_p.A142S|NDRG4_uc002enp.2_Missense_Mutation_p.A124S|NDRG4_uc002enq.1_5'Flank	NM_022910	NP_075061	Q9ULP0	NDRG4_HUMAN	NDRG family member 4 isoform 1	124					cell differentiation|cell growth|multicellular organismal development|response to stress	cytoplasm				skin(1)	1						GGCCAAGTTTGCAGTGAGTCT	0.607													11	37					7.03913e-09	7.99281e-09	0.013537	1	0		T	58538551	T	T	58538551	3	4	219	1	0	0	0	0	1	0	0	0	10273	1319	46	5	552	5	NDRG4	16	58538551	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	7896296	58538551	31816202	105	107892											
MLKL	197259	broad.mit.edu	37	chr16	74716642	74716642	+	Missense_Mutation	SNP	A	C	C	1	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	acagctccctcagggtcccgAgttcacagtactccatgaca	10	8	8	15	1	2	1	2	1	0	0	5	2	5	1	3	1	2	3	3	1	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:74716642A>C	uc002fdb.2	-	6	1304	c.863T>G	c.(862-864)CTC>CGC	p.L288R	MLKL_uc002fdc.2_Intron	NM_152649	NP_689862	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like isoform 1	288	Protein kinase.						ATP binding|protein binding|protein kinase activity			stomach(2)	2						CAGGGTCCCGAGTTCACAGTA	0.557													6	43					0	0	0.001984	0	0		C	74716642	C	C	74716642	3	2	219	1	0	0	0	0	1	0	0	0	9637	304	11	5	607	5	MLKL	16	74716642	Missense_Mutation	SNP	A	TCGA-IN-8462-01A-11D-2340-08	16178091	74716642	15638111	106	107893											
C16orf46	123775	broad.mit.edu	37	chr16	81097557	81097557	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ctcatttttctgacagagatCcattactgtgatgcttgctt	8	17	7	9	0	2	3	1	2	1	1	3	4	3	3	1	0	3	2	1	0	1	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr16:81097557C>A	uc002fgc.3	-	3	263	c.4G>T	c.(4-6)GAT>TAT	p.D2Y	C16orf46_uc010chf.2_Missense_Mutation_p.D2Y|C16orf46_uc010vno.1_Intron	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	2											0						TGACAGAGATCCATTACTGTG	0.294													17	46					1.02788e-11	1.21414e-11	0.00499	1	0		A	81097557	A	A	81097557	3	1	219	1	0	0	0	0	1	0	0	0	1818	855	30	5	1219	5	C16orf46	16	81097557	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	6380915	81097557	9257196	107	107894											
KRT36	8689	broad.mit.edu	37	chr17	39645762	39645762	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gatgcggctctccagctccgCgttctcccgctccagctgac	4	9	10	18	4	2	1	0	1	2	0	6	2	4	1	4	1	3	5	4	1	0	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr17:39645762C>T	uc002hwt.2	-	1	355	c.355G>A	c.(355-357)GCG>ACG	p.A119T		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	119	Rod.|Coil 1A.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)				TCCAGCTCCGCGTTCTCCCGC	0.572													24	116					0	0	0.014323	0	0		T	39645762	T	T	39645762	3	4	219	1	0	0	0	0	1	0	0	0	8489	768	27	1	1076	1	KRT36	17	39645762	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		39645762	41549448	108	107895											
CD300A	11314	broad.mit.edu	37	chr17	72470705	72470705	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	acacctgcaagtatcactgcGgccaagacctcaacaatcac	14	6	6	15	1	3	1	3	0	0	1	3	1	3	1	3	1	3	2	3	1	5	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr17:72470705G>A	uc002jkv.2	+	3	735	c.414G>A	c.(412-414)GCG>GCA	p.A138A	CD300A_uc002jkw.2_Silent_p.A25A|CD300A_uc010dfr.2_Silent_p.A25A|CD300A_uc010dfs.2_Intron	NM_007261	NP_009192	Q9UGN4	CLM8_HUMAN	leukocyte membrane antigen	138	Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	receptor activity	p.A138A(1)		ovary(1)|skin(1)	2						GTATCACTGCGGCCAAGACCT	0.547													10	42					0	0	0.008291	0	0		A	72470705	A	A	72470705	2	1	219	1	0	0	0	0	0	0	0	1	2999	1103	39	1		1	CD300A	17	72470705	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	32824943	72470705	8724505	109	107896											
SEC14L1	6397	broad.mit.edu	37	chr17	75186883	75186883	+	Splice_Site	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcttggtttttaaatttatAggcctatgaaaggaggttcc	10	17	9	5	0	1	1	0	1	1	0	2	2	2	2	2	4	0	2	2	4	6	10			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr17:75186883A>T	uc002jto.2	+	4	331	c.64_splice	c.e4-2	p.A22_splice	SEC14L1_uc010dhc.2_Splice_Site_p.A22_splice|SEC14L1_uc010wth.1_Splice_Site_p.A22_splice|SEC14L1_uc002jtm.2_Splice_Site_p.A22_splice|SEC14L1_uc010wti.1_Splice_Site	NM_003003	NP_002994	Q92503	S14L1_HUMAN	SEC14 (S. cerevisiae)-like 1 isoform a						transport	Golgi apparatus|integral to membrane	binding			ovary(2)	2						TTAAATTTATAGGCCTATGAA	0.483													18	32					0	0	0.006122	0	0		T	75186883	T	T	75186883	5	4	219	1	0	0	0	0	0	0	1	0	14006	434	15	5	68	5	SEC14L1	17	75186883	Splice_Site	SNP	A	TCGA-IN-8462-01A-11D-2340-08	2716178	75186883	6008327	110	107897											
PIK3C3	5289	broad.mit.edu	37	chr18	39570432	39570432	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttttttcagagtgaaaaaCgaagttctaatttcatgtac	13	17	6	5	1	3	2	2	1	1	1	3	3	3	2	0	0	2	2	0	0	5	8			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr18:39570432C>T	uc002lap.2	+	6	686	c.628C>T	c.(628-630)CGA>TGA	p.R210*	PIK3C3_uc010xcl.1_Nonsense_Mutation_p.R147*	NM_002647	NP_002638	Q8NEB9	PK3C3_HUMAN	catalytic phosphatidylinositol 3-kinase 3	210					cell cycle|cytokinesis|fibroblast growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway	midbody|phosphatidylinositol 3-kinase complex	1-phosphatidylinositol-3-kinase activity|ATP binding|protein binding			lung(8)|ovary(1)|breast(1)	10						GAGTGAAAAACGAAGTTCTAA	0.284										TSP Lung(28;0.18)			9	50					0	0	0.004482	0	0		T	39570432	T	T	39570432	4	4	219	1	0	0	0	0	0	1	0	0	11931	528	19	1	650	1	PIK3C3	18	39570432	Nonsense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		39570432	38506816	111	107898											
ST8SIA5	29906	broad.mit.edu	37	chr18	44272196	44272196	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	ctggaggctcttccacctgtCgaacagctctgactgcttca	7	11	9	14	1	3	1	1	1	2	0	5	3	4	2	2	2	3	3	2	2	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr18:44272196C>G	uc002lcj.1	-	3	815	c.247G>C	c.(247-249)GAC>CAC	p.D83H	ST8SIA5_uc002lci.1_5'UTR|ST8SIA5_uc010xcy.1_Missense_Mutation_p.D119H|ST8SIA5_uc010xcz.1_Missense_Mutation_p.D52H|ST8SIA5_uc010dno.1_Missense_Mutation_p.D119H	NM_013305	NP_037437	O15466	SIA8E_HUMAN	ST8 alpha-N-acetyl-neuraminide	83	Lumenal (Potential).				glycosphingolipid biosynthetic process|protein glycosylation	integral to Golgi membrane				upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						TTCCACCTGTCGAACAGCTCT	0.527													5	35					0	0	0.000602	0	0		G	44272196	G	G	44272196	3	3	219	1	0	0	0	0	1	0	0	0	15260	884	31	5	903	5	ST8SIA5	18	44272196	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	4701764	44272196	33805052	112	107899											
SMAD4	4089	broad.mit.edu	37	chr18	48593393	48593393	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttttttcttcctaaggttgCacataggcaaaggtgtgcag	9	14	10	8	0	1	0	0	0	1	0	2	0	2	0	1	3	2	4	1	3	3	7			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr18:48593393C>G	uc010xdp.1	+	10	1682	c.1144C>G	c.(1144-1146)CAC>GAC	p.H382D	SMAD4_uc002lfb.3_Missense_Mutation_p.H227D	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	382	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		CCTAAGGTTGCACATAGGCAA	0.333									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				16	37					0	0	0.006122	0	0		G	48593393	G	G	48593393	3	3	219	1	0	0	0	0	1	0	0	0	14785	710	25	5	1178	5	SMAD4	18	48593393	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	4321197	48593393	29483855	113	107900											
NETO1	81832	broad.mit.edu	37	chr18	70417501	70417501	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcatctcttgtgctgaggTtactgcggctgcctttagtg	6	14	12	9	1	1	1	0	1	1	0	2	1	1	1	1	2	5	4	1	2	3	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr18:70417501T>G	uc002lkw.2	-	9	1621	c.1337A>C	c.(1336-1338)AAC>ACC	p.N446T	NETO1_uc002lkx.1_Missense_Mutation_p.N445T|NETO1_uc002lky.1_Missense_Mutation_p.N446T	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	446	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		TGTGCTGAGGTTACTGCGGCT	0.463													12	18					0	0	0.001855	0	0		G	70417501	G	G	70417501	3	3	219	1	0	0	0	0	1	0	0	0	10358	1725	60	5	272	5	NETO1	18	70417501	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	21824108	70417501	7659747	114	107901											
ARID3A	1820	broad.mit.edu	37	chr19	971927	971927	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	acgccaacctctgctcccaaCaaaggaggcggcggcggcgg	9	3	14	15	5	1	0	0	0	1	0	2	1	2	1	3	6	3	1	3	6	3	0			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:971927C>G	uc002lql.2	+	9	1934	c.1644C>G	c.(1642-1644)AAC>AAG	p.N548K		NM_005224	NP_005215	Q99856	ARI3A_HUMAN	AT rich interactive domain 3A (BRIGHT- like)	548	Important for cytoplasmic localization (By similarity).					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGCTCCCAACAAAGGAggcg	0.532													6	57					0	0	0.001984	0	0		G	971927	G	G	971927	3	3	219	1	0	0	0	0	1	0	0	0	916	477	17	5	1674	5	ARID3A	19	971927	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08		971927	58157056	115	107902											
ADAMTS10	81794	broad.mit.edu	37	chr19	8668685	8668685	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacaccacatgtggtccactTtcctccgggctccgagaacc	8	9	8	16	2	0	1	0	0	0	1	4	2	4	1	6	2	2	1	6	2	2	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:8668685T>C	uc002mkj.1	-	5	793	c.519A>G	c.(517-519)GAA>GAG	p.E173E	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	173					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GTGGTCCACTTTCCTCCGGGC	0.597													8	20					0	0	0.00308	0	0		C	8668685	C	C	8668685	2	2	219	1	0	0	0	0	0	0	0	1	256	1838	64	3		3	ADAMTS10	19	8668685	Silent	SNP	T	TCGA-IN-8462-01A-11D-2340-08	7696758	8668685	50460298	116	107903											
ZNF491	126069	broad.mit.edu	37	chr19	11917976	11917976	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	atatattagaatacatgaaaGaattcacactggagagaaac	20	9	7	5	0	1	4	1	1	0	3	1	6	1	5	0	1	2	0	0	1	8	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:11917976G>T	uc002mso.1	+	3	1493	c.1208G>T	c.(1207-1209)AGA>ATA	p.R403I		NM_152356	NP_689569	Q8N8L2	ZN491_HUMAN	zinc finger protein 491	403	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ATACATGAAAGAATTCACACT	0.368													7	30					8.12818e-05	8.72293e-05	0.001984	1	0		T	11917976	T	T	11917976	3	4	219	1	0	0	0	0	1	0	0	0	17967	942	33	5	1210	5	ZNF491	19	11917976	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	3249291	11917976	47211007	117	107904											
TSHZ3	57616	broad.mit.edu	37	chr19	31769087	31769087	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccagctaggagtgccgttctGggccttgttgattgcggatg	5	12	15	9	2	1	1	0	1	1	0	1	3	1	3	3	3	3	3	3	3	1	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:31769087G>T	uc002nsy.3	-	2	1677	c.1612C>A	c.(1612-1614)CAG>AAG	p.Q538K		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	538					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					GTGCCGTTCTGGGCCTTGTTG	0.532													9	121					3.09899e-07	3.45203e-07	0.004482	1	0		T	31769087	T	T	31769087	3	4	219	1	0	0	0	0	1	0	0	0	16651	1357	47	5	1637	5	TSHZ3	19	31769087	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	19851111	31769087	27359896	118	107905											
TRPM4	54795	broad.mit.edu	37	chr19	49661469	49661469	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agctggatccccaagatcttCaagaagaagacctgcacgac	14	6	9	12	1	2	4	1	0	1	4	3	6	3	5	3	1	2	2	3	1	4	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:49661469C>A	uc002pmw.2	+	2	117	c.45C>A	c.(43-45)TTC>TTA	p.F15L	TRPM4_uc010emu.2_Missense_Mutation_p.F15L|TRPM4_uc010yak.1_5'UTR|TRPM4_uc002pmx.2_5'UTR|TRPM4_uc010emv.2_Missense_Mutation_p.F15L|TRPM4_uc010yal.1_5'UTR|HRC_uc002pmv.2_5'Flank	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,	15	Cytoplasmic (Potential).				dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		CCAAGATCTTCAAGAAGAAGA	0.602													46	115					2.74695e-27	3.40467e-27	0.01441	1	0		A	49661469	A	A	49661469	3	1	219	1	0	0	0	0	1	0	0	0	16614	825	29	5	51	5	TRPM4	19	49661469	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	17892382	49661469	9467514	119	107906											
VRK3	51231	broad.mit.edu	37	chr19	50498471	50498471	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tatttgtcctggtgaacaccGaaacccatgcaggtagggat	11	10	11	9	1	0	1	0	1	0	0	1	3	1	2	3	3	3	2	3	3	4	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:50498471G>A	uc002prg.2	-	8	839	c.741C>T	c.(739-741)TTC>TTT	p.F247F	VRK3_uc002prh.1_Silent_p.F247F|VRK3_uc002pri.1_Silent_p.F197F|VRK3_uc010ens.2_Silent_p.F247F|VRK3_uc010ybl.1_Silent_p.F197F|VRK3_uc010ybm.1_Intron|VRK3_uc002prj.1_Silent_p.F197F|VRK3_uc002prk.1_Silent_p.F247F|VRK3_uc010ent.1_Silent_p.F3F|VRK3_uc002prl.2_Silent_p.F247F|VRK3_uc010ybn.1_Missense_Mutation_p.S225L	NM_016440	NP_057524	Q8IV63	VRK3_HUMAN	vaccinia related kinase 3 isoform 1	247	Protein kinase.					nucleus	ATP binding|protein kinase activity			stomach(1)|skin(1)	2		all_neural(266;0.0459)|Ovarian(192;0.0481)		GBM - Glioblastoma multiforme(134;0.00166)|OV - Ovarian serous cystadenocarcinoma(262;0.00652)		GGTGAACACCGAAACCCATGC	0.562													6	25					0	0	0.001984	0	0		A	50498471	A	A	50498471	2	1	219	1	0	0	0	0	0	0	0	1	17247	1049	37	1		1	VRK3	19	50498471	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	837002	50498471	8630512	120	107907											
LRRC4B	94030	broad.mit.edu	37	chr19	51022345	51022345	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccaggttgaggtagcgcaGgttgaccagcccctcgaagg	8	6	15	12	2	0	2	0	2	0	0	1	3	0	2	4	4	2	4	4	4	2	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:51022345G>A	uc002pss.2	-	3	762	c.625C>T	c.(625-627)CTG>TTG	p.L209L		NM_001080457	NP_001073926	Q9NT99	LRC4B_HUMAN	leucine rich repeat containing 4B precursor	209	Extracellular (Potential).|LRR 6.					cell junction|integral to membrane|presynaptic membrane				central_nervous_system(1)|skin(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00284)|GBM - Glioblastoma multiforme(134;0.0188)		AGGTAGCGCAGGTTGACCAGC	0.667													7	17					0	0	0.001984	0	0		A	51022345	A	A	51022345	2	1	219	1	0	0	0	0	0	0	0	1	9025	991	35	4		4	LRRC4B	19	51022345	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	523874	51022345	8106638	121	107908											
SIGLEC14	100049587	broad.mit.edu	37	chr19	52149516	52149516	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ggttcctgccatacctgtcaCctccaagttcagcttattct	7	14	6	14	0	3	0	2	0	1	0	5	0	5	0	5	1	3	3	5	1	3	5			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:52149516C>A	uc002pxf.3	-	2	535	c.415G>T	c.(415-417)GTG>TTG	p.V139L		NM_001098612	NP_001092082	Q08ET2	SIG14_HUMAN	sialic acid binding Ig-like lectin 14 precursor	139	Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane	protein binding|sugar binding			ovary(1)	1		all_neural(266;0.0299)		GBM - Glioblastoma multiforme(134;0.000965)|OV - Ovarian serous cystadenocarcinoma(262;0.0195)		ATACCTGTCACCTCCAAGTTC	0.557													20	37					1.50538e-07	1.68756e-07	0.00632	1	0		A	52149516	A	A	52149516	3	1	219	1	0	0	0	0	1	0	0	0	14334	507	18	5	799	5	SIGLEC14	19	52149516	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	1127171	52149516	6979467	122	107909											
LILRA3	11026	broad.mit.edu	37	chr19	54802027	54802027	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	gtccccgcgtgggccgaggtCacaggactcatggggaattc	7	7	15	12	3	2	0	2	0	0	0	4	3	3	2	3	5	0	0	3	5	1	1			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:54802027C>T	uc002qfd.2	-	6	1226	c.1161G>A	c.(1159-1161)GTG>GTA	p.V387V	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Silent_p.V323V	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	387	Ig-like C2-type 4.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGCCGAGGTCACAGGACTCA	0.587													23	99					0	0	0.00278	0	0		T	54802027	T	T	54802027	2	4	219	1	0	0	0	0	0	0	0	1	8802	813	29	4		4	LILRA3	19	54802027	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	2652511	54802027	4326956	123	107910											
FCAR	2204	broad.mit.edu	37	chr19	55396777	55396777	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgatcataaaaaactccacGtaccgagagataggcagaag	18	6	9	8	2	1	3	1	1	0	2	2	5	2	3	2	1	2	2	2	1	6	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:55396777G>A	uc002qhr.1	+	3	398	c.201G>A	c.(199-201)ACG>ACA	p.T67T	FCAR_uc002qhq.2_Silent_p.T67T|FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Silent_p.T40T|FCAR_uc010esi.1_Silent_p.T40T|FCAR_uc002qhu.1_Silent_p.T67T|FCAR_uc002qhv.1_Silent_p.T67T|FCAR_uc002qhw.1_Silent_p.T55T|FCAR_uc002qhx.1_Silent_p.T55T|FCAR_uc002qhy.1_Silent_p.T55T|FCAR_uc002qhz.1_Silent_p.T55T|FCAR_uc002qia.1_Intron	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	67	Extracellular (Potential).|Ig-like C2-type 1.				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		AAAACTCCACGTACCGAGAGA	0.488													20	49					0	0	0.008871	0	0		A	55396777	A	A	55396777	2	1	219	1	0	0	0	0	0	0	0	1	5787	1132	40	1		1	FCAR	19	55396777	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	594750	55396777	3732206	124	107911											
NCR1	9437	broad.mit.edu	37	chr19	55421410	55421410	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	acaccagccttgcacctgaaGaccccacctttcctggtgag	9	8	8	16	0	0	3	0	2	0	1	1	3	1	3	7	1	2	1	7	1	1	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr19:55421410G>A	uc002qib.2	+	5	705	c.667G>A	c.(667-669)GAC>AAC	p.D223N	NCR1_uc002qic.2_Missense_Mutation_p.D223N|NCR1_uc002qie.2_Missense_Mutation_p.D223N|NCR1_uc002qid.2_Missense_Mutation_p.D128N|NCR1_uc002qif.2_Missense_Mutation_p.D128N|NCR1_uc010esj.2_Missense_Mutation_p.D116N	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	223	Extracellular (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		TGCACCTGAAGACCCCACCTT	0.438													29	100					0	0	0.00632	0	0		A	55421410	A	A	55421410	3	1	219	1	0	0	0	0	1	0	0	0	10256	942	33	4	685	4	NCR1	19	55421410	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	24633	55421410	3707573	125	107912											
PIWIL3	440822	broad.mit.edu	37	chr22	25153973	25153973	+	Missense_Mutation	SNP	T	C	C	0	1	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	tctcctgcaagggcgctgtaTgcaacccagcctcaggtcca	8	8	10	15	1	2	0	1	0	1	0	4	0	3	0	4	2	4	4	4	2	3	1	rs142994368	byFrequency	TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chr22:25153973T>C	uc003abd.1	-	4	674	c.257A>G	c.(256-258)CAT>CGT	p.H86R	PIWIL3_uc011ajx.1_5'UTR|PIWIL3_uc011ajy.1_5'UTR|PIWIL3_uc010gut.1_Missense_Mutation_p.H86R	NM_001008496	NP_001008496	Q7Z3Z3	PIWL3_HUMAN	piwi-like 3	86					cell differentiation|gene silencing by RNA|meiosis|multicellular organismal development|regulation of translation|spermatogenesis	cytoplasm	RNA binding			ovary(3)|central_nervous_system(1)	4						GGGCGCTGTATGCAACCCAGC	0.438													53	181					0	0	0.01441	0	0		C	25153973	C	C	25153973	3	2	219	1	0	0	0	0	1	0	0	0	11978	1464	51	3	2463	3	PIWIL3	22	25153973	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08		25153973	26150593	126	107913											
CCNB3	85417	broad.mit.edu	37	chrX	50085293	50085293	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gtatgcaagaaggataagttAcaactccttggtgccactgc	12	10	10	9	0	0	1	0	0	0	1	1	2	1	2	2	2	5	3	2	2	6	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chrX:50085293A>G	uc004dox.3	+	9	3907	c.3609A>G	c.(3607-3609)TTA>TTG	p.L1203L	CCNB3_uc004doy.2_Silent_p.L1203L|CCNB3_uc004doz.2_Silent_p.L99L|CCNB3_uc010njq.2_Silent_p.L95L|CCNB3_uc004dpa.2_Silent_p.L42L	NM_033031	NP_149020	Q8WWL7	CCNB3_HUMAN	cyclin B3 isoform 3	1203					cell division|meiosis|regulation of cyclin-dependent protein kinase activity|regulation of G2/M transition of mitotic cell cycle	nucleus	protein kinase binding			ovary(4)|lung(3)|large_intestine(1)|pancreas(1)	9	Ovarian(276;0.236)					AGGATAAGTTACAACTCCTTG	0.473													20	13					0	0	0.008871	0	0		G	50085293	G	G	50085293	2	3	219	1	0	0	0	0	0	0	0	1	2917	388	14	3		3	CCNB3	23	50085293	Silent	SNP	A	TCGA-IN-8462-01A-11D-2340-08		50085293	105185267	127	107914											
HEPH	9843	broad.mit.edu	37	chrX	65483491	65483491	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tttccccccaaccagaacacTtaagccctctcaccgtcatc	10	9	3	19	1	2	1	2	0	1	1	5	1	3	1	6	0	3	0	6	0	3	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chrX:65483491T>G	uc011moz.1	+	20	3274	c.3214T>G	c.(3214-3216)TTA>GTA	p.L1072V	HEPH_uc004dwn.2_Missense_Mutation_p.L1072V|HEPH_uc004dwo.2_Missense_Mutation_p.L802V|HEPH_uc010nkr.2_Missense_Mutation_p.L880V|HEPH_uc011mpa.1_Missense_Mutation_p.L1072V	NM_138737	NP_620074	Q9BQS7	HEPH_HUMAN	hephaestin isoform a	1069	Extracellular (Potential).|Plastocyanin-like 6.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	integral to membrane|plasma membrane	copper ion binding|oxidoreductase activity			lung(5)|ovary(4)	9						ACCAGAACACTTAAGCCCTCT	0.438													23	24					0	0	0.005443	0	0		G	65483491	G	G	65483491	3	3	219	1	0	0	0	0	1	0	0	0	7070	1606	56	5	3445	5	HEPH	23	65483491	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	15398198	65483491	89787069	128	107915											
AR	367	broad.mit.edu	37	chrX	66765882	66765882	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggttctctgctagacgacagCgcaggcaagagcactgaaga	12	6	13	10	2	1	4	0	1	1	3	2	5	1	4	0	2	3	5	0	2	3	2			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chrX:66765882C>T	uc004dwu.1	+	1	2009	c.894C>T	c.(892-894)AGC>AGT	p.S298S	AR_uc011mpd.1_Silent_p.S298S|AR_uc011mpe.1_RNA|AR_uc011mpf.1_Silent_p.S298S	NM_000044	NP_000035	P10275	ANDR_HUMAN	androgen receptor isoform 1	296	Modulating.				cell death|cell growth|cell proliferation|cell-cell signaling|negative regulation of apoptosis|negative regulation of integrin biosynthetic process|positive regulation of cell proliferation|positive regulation of integrin biosynthetic process|positive regulation of NF-kappaB transcription factor activity|positive regulation of phosphorylation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|regulation of establishment of protein localization in plasma membrane|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transport	cytoplasm|nuclear chromatin|nucleoplasm	androgen binding|androgen receptor activity|beta-catenin binding|enzyme binding|ligand-regulated transcription factor activity|protein dimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			ovary(3)|lung(2)|breast(2)|central_nervous_system(1)	8	all_cancers(1;0.173)|Prostate(1;2.27e-16)|all_epithelial(1;0.102)	all_lung(315;1.3e-11)			Bicalutamide(DB01128)|Cyproterone(DB04839)|Dromostanolone(DB00858)|Finasteride(DB01216)|Fluoxymesterone(DB01185)|Flutamide(DB00499)|Nandrolone(DB00984)|Nilutamide(DB00665)|Oxandrolone(DB00621)|Testosterone(DB00624)	TAGACGACAGCGCAGGCAAGA	0.572									Androgen_Insensitivity_Syndrome				9	11					0	0	0.006214	0	0		T	66765882	T	T	66765882	2	4	219	1	0	0	0	0	0	0	0	1	836	767	27	1		1	AR	23	66765882	Silent	SNP	C	TCGA-IN-8462-01A-11D-2340-08	1282391	66765882	88504678	129	107916											
KLHL4	56062	broad.mit.edu	37	chrX	86877278	86877278	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctaatgaaatttcaaaacTtctgtgcagtgatgacatta	15	13	7	6	0	2	3	1	3	1	0	2	3	2	3	0	0	3	2	0	0	5	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chrX:86877278T>G	uc004efb.2	+	5	1174	c.992T>G	c.(991-993)CTT>CGT	p.L331R	KLHL4_uc004efa.2_Missense_Mutation_p.L331R	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	331						cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						ATTTCAAAACTTCTGTGCAGT	0.398													13	7					0	0	0.001855	0	0		G	86877278	G	G	86877278	3	3	219	1	0	0	0	0	1	0	0	0	8407	1609	56	5	1010	5	KLHL4	23	86877278	Missense_Mutation	SNP	T	TCGA-IN-8462-01A-11D-2340-08	20111396	86877278	68393282	130	107917											
AKAP14	158798	broad.mit.edu	37	chrX	119037549	119037549	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaattgacgaatatttttcGgtaagttaggccgaccactc	12	12	8	9	3	0	1	0	1	0	0	2	3	0	1	2	2	0	2	2	2	5	6			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chrX:119037549G>A	uc004ese.2	+	4	399	c.261G>A	c.(259-261)TCG>TCA	p.S87S	AKAP14_uc004esd.2_Silent_p.S87S|AKAP14_uc004esf.2_Silent_p.S87S	NM_178813	NP_848928	Q86UN6	AKA28_HUMAN	A kinase (PRKA) anchor protein 14 isoform a	87						cytoplasm					0						AATATTTTTCGGTAAGTTAGG	0.413													16	9					0	0	0.003163	0	0		A	119037549	A	A	119037549	2	1	219	1	0	0	0	0	0	0	0	1	450	1130	39	1		1	AKAP14	23	119037549	Silent	SNP	G	TCGA-IN-8462-01A-11D-2340-08	32160271	119037549	36233011	131	107918											
ZNF75D	7626	broad.mit.edu	37	chrX	134426308	134426308	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctttctggaacacacccattGgttggggctctgctggcttc	5	13	11	12	0	2	0	0	0	2	0	3	1	2	1	1	5	2	4	1	5	1	4			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chrX:134426308G>T	uc004eyp.2	-	4	3158	c.503C>A	c.(502-504)CCA>CAA	p.P168Q	ZNF75D_uc004eym.2_Intron|ZNF75D_uc004eyn.2_5'UTR|ZNF75D_uc004eyo.2_Intron	NM_007131	NP_009062	P51815	ZN75D_HUMAN	zinc finger protein 75	168					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CACACCCATTGGTTGGGGCTC	0.507													26	23					4.87955e-14	5.92277e-14	0.005443	1	0		T	134426308	T	T	134426308	3	4	219	1	0	0	0	0	1	0	0	0	18159	1348	47	5	1045	5	ZNF75D	23	134426308	Missense_Mutation	SNP	G	TCGA-IN-8462-01A-11D-2340-08	15388759	134426308	20844252	132	107919											
PNMA5	114824	broad.mit.edu	37	chrX	152159886	152159886	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	ccaccacttcccaggagccaCcctttcctggtatgtgactg	7	10	8	16	0	0	1	0	1	0	0	2	2	2	2	6	2	1	1	6	2	1	3			TCGA-IN-8462-01A-11D-2340-08	TCGA-IN-8462-10A-01D-2341-08									Somatic	Phase_I	Capture				Illumina GAIIx	c924532b-9a64-43cd-8d71-30c832d3214d	eb8505c1-8121-4be9-9e58-889c9d7cb1e0	g.chrX:152159886C>T	uc010ntw.2	-	3	596	c.257G>A	c.(256-258)GGT>GAT	p.G86D	PNMA5_uc004fha.3_Missense_Mutation_p.G86D|PNMA5_uc010ntx.2_Missense_Mutation_p.G86D|PNMA5_uc004fgy.3_Missense_Mutation_p.G86D	NM_001103151	NP_001096621	Q96PV4	PNMA5_HUMAN	paraneoplastic antigen like 5	86					apoptosis					ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					ccaggagccaccctttcctgg	0													37	31					0	0	0.004878	0	0		T	152159886	T	T	152159886	3	4	219	1	0	0	0	0	1	0	0	0	12175	507	18	4	1093	4	PNMA5	23	152159886	Missense_Mutation	SNP	C	TCGA-IN-8462-01A-11D-2340-08	17733578	152159886	3110674	133	107920											
CA6	765	broad.mit.edu	37	chr1	9017326	9017326	+	Silent	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tctgagcacaccgtggacggGatcagacatgtgatcgaggt	10	8	14	9	3	2	3	1	2	1	1	3	6	2	5	1	3	1	1	1	3	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:9017326G>T	uc001apm.2	+	3	414	c.390G>T	c.(388-390)GGG>GGT	p.G130G	CA6_uc009vmn.2_Silent_p.G70G	NM_001215	NP_001206	P23280	CAH6_HUMAN	carbonic anhydrase VI precursor	130					one-carbon metabolic process	extracellular region	carbonate dehydratase activity|zinc ion binding			ovary(2)	2	Ovarian(185;0.112)|all_lung(157;0.143)	all_epithelial(116;1.02e-19)|all_lung(118;3.6e-06)|Lung NSC(185;7.94e-06)|Renal(390;0.000147)|Breast(348;0.00123)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.9e-07)|COAD - Colon adenocarcinoma(227;8.28e-05)|Kidney(185;0.000268)|KIRC - Kidney renal clear cell carcinoma(229;0.000971)|STAD - Stomach adenocarcinoma(132;0.00184)|BRCA - Breast invasive adenocarcinoma(304;0.00192)|READ - Rectum adenocarcinoma(331;0.0649)		CCGTGGACGGGATCAGACATG	0.478													11	46					0.00316338	0.00318762	0.479597	1	0		T	9017326	T	T	9017326	2	4	220	1	0	0	0	0	0	0	0	1	2524	1161	41	5		5	CA6	1	9017326	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08		9017326	240233295	1	107921											
SLC25A33	84275	broad.mit.edu	37	chr1	9642545	9642545	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	taattgtgtacctgttagaaGaccgtactcagtaacaggcc	12	11	9	9	1	1	2	1	0	0	2	1	2	1	2	3	1	3	4	3	1	6	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:9642545G>A	uc001apw.2	+	7	1175	c.952G>A	c.(952-954)GAC>AAC	p.D318N	SLC25A33_uc001apx.2_Missense_Mutation_p.D251N	NM_032315	NP_115691	Q9BSK2	S2533_HUMAN	mitochondrial carrier protein MGC4399	318	Helical; Name=6; (Potential).				transport	integral to membrane|mitochondrial inner membrane					0	all_lung(157;0.246)	all_epithelial(116;1.16e-18)|all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Breast(348;0.00191)|Colorectal(325;0.00205)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;6.01e-08)|COAD - Colon adenocarcinoma(227;1.44e-05)|Kidney(185;0.000262)|KIRC - Kidney renal clear cell carcinoma(229;0.000957)|BRCA - Breast invasive adenocarcinoma(304;0.0019)|STAD - Stomach adenocarcinoma(132;0.00355)|READ - Rectum adenocarcinoma(331;0.0419)		CCTGTTAGAAGACCGTACTCA	0.388													12	13					0	0	0.38729	0	0		A	9642545	A	A	9642545	3	1	220	1	0	0	0	0	1	0	0	0	14522	942	33	4	978	4	SLC25A33	1	9642545	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	625219	9642545	239608076	2	107922											
KIF17	57576	broad.mit.edu	37	chr1	21031239	21031239	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agcgcccgtccaccagcgccGagatgacattgcccagtgcc	8	5	11	17	4	0	2	0	1	0	1	1	3	1	2	6	0	4	0	6	0	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:21031239G>A	uc001bdr.3	-	5	942	c.824C>T	c.(823-825)TCG>TTG	p.S275L	KIF17_uc001bds.3_Missense_Mutation_p.S275L	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	275					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00179)|Ovarian(437;0.00327)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		CACCAGCGCCGAGATGACATT	0.667													15	94					0	0	0.520397	0	0		A	21031239	A	A	21031239	3	1	220	1	0	0	0	0	1	0	0	0	8295	1059	37	1	2309	1	KIF17	1	21031239	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	11388694	21031239	228219382	3	107923											
PTPRU	10076	broad.mit.edu	37	chr1	29641952	29641952	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacatggcagagtgtgaggGcgtcgtggacatttacaact	10	9	15	7	2	0	2	0	1	0	1	1	4	0	4	0	4	2	1	0	4	2	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:29641952G>A	uc001bru.2	+	24	3436	c.3326G>A	c.(3325-3327)GGC>GAC	p.G1109D	PTPRU_uc001brv.2_Missense_Mutation_p.G1105D|PTPRU_uc001brw.2_Missense_Mutation_p.G1099D|PTPRU_uc009vtq.2_Missense_Mutation_p.G1105D|PTPRU_uc009vtr.2_Missense_Mutation_p.G1096D	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	1109	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GAGTGTGAGGGCGTCGTGGAC	0.592													62	45					0	0	0.870114	0	0		A	29641952	A	A	29641952	3	1	220	1	0	0	0	0	1	0	0	0	12838	1203	42	2	3442	2	PTPRU	1	29641952	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	8610713	29641952	219608669	4	107924											
TIE1	7075	broad.mit.edu	37	chr1	43778820	43778820	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccagggcctccagcccccCgacacctccacgcccaggcc	6	2	8	25	2	0	0	0	0	0	0	2	1	2	0	11	2	1	0	11	2	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:43778820C>T	uc001ciu.2	+	13	2021	c.1942C>T	c.(1942-1944)CGA>TGA	p.R648*	TIE1_uc010okd.1_Nonsense_Mutation_p.R648*|TIE1_uc010oke.1_Nonsense_Mutation_p.R603*|TIE1_uc009vwq.2_Nonsense_Mutation_p.R604*|TIE1_uc010okf.1_Nonsense_Mutation_p.R293*|TIE1_uc010okg.1_Nonsense_Mutation_p.R293*	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	648	Fibronectin type-III 3.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				TCCAGCCCCCCGACACCTCCA	0.627													26	31					0	0	0.693898	0	0		T	43778820	T	T	43778820	4	4	220	1	0	0	0	0	0	1	0	0	15918	644	23	1	1992	1	TIE1	1	43778820	Nonsense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	14136868	43778820	205471801	5	107925											
ATG4C	84938	broad.mit.edu	37	chr1	63282426	63282426	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tgggtggggctgcacattgaGaactggccagatgctcttgg	7	10	16	8	0	1	2	0	1	1	2	1	3	1	2	1	5	3	3	1	5	1	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:63282426G>A	uc001dat.2	+	4	503	c.341G>A	c.(340-342)AGA>AAA	p.R114K	ATG4C_uc001dau.2_Missense_Mutation_p.R114K	NM_178221	NP_835739	Q96DT6	ATG4C_HUMAN	APG4 autophagy 4 homolog C isoform 8	114					autophagic vacuole assembly|protein targeting to membrane|proteolysis	cytosol|extracellular region	cysteine-type endopeptidase activity			ovary(1)	1						TGCACATTGAGAACTGGCCAG	0.378													8	28					0	0	0.307466	0	0		A	63282426	A	A	63282426	3	1	220	1	0	0	0	0	1	0	0	0	1099	942	33	4	351	4	ATG4C	1	63282426	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	19503606	63282426	185968195	6	107926											
NEGR1	257194	broad.mit.edu	37	chr1	72400786	72400786	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cacagttagatgcacctgcaTtgttctgggtgtatgttgag	8	14	12	7	0	1	2	0	1	1	1	1	2	1	2	1	1	2	6	1	1	2	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:72400786T>G	uc001dfw.2	-	2	485	c.385A>C	c.(385-387)ATG>CTG	p.M129L	NEGR1_uc001dfv.2_Missense_Mutation_p.M1L|NEGR1_uc010oqs.1_Missense_Mutation_p.M129L	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	129	Ig-like C2-type 1.				cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		TGCACCTGCATTGTTCTGGGT	0.373													9	29					0	0	0.361761	0	0		G	72400786	G	G	72400786	3	3	220	1	0	0	0	0	1	0	0	0	10336	1493	52	5	703	5	NEGR1	1	72400786	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	9118360	72400786	176849835	7	107927											
OLFM3	118427	broad.mit.edu	37	chr1	102302454	102302454	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ccttttccagtagttggcgaAgttgcctgcttttggcatcc	5	15	10	11	1	0	0	0	0	0	0	2	1	2	0	4	2	2	5	4	2	2	7			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:102302454A>G	uc001duf.2	-	2	328	c.257T>C	c.(256-258)CTT>CCT	p.L86P	OLFM3_uc001dug.2_Missense_Mutation_p.L66P|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_5'UTR|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	86	Potential.					extracellular region				ovary(2)|skin(1)	3		all_epithelial(167;1.87e-06)|all_lung(203;8.12e-05)|Lung NSC(277;0.000189)		all cancers(265;0.0843)|Epithelial(280;0.0921)|COAD - Colon adenocarcinoma(174;0.145)		TAGTTGGCGAAGTTGCCTGCT	0.463													24	74					0	0	0.667858	0	0		G	102302454	G	G	102302454	3	3	220	1	0	0	0	0	1	0	0	0	10873	72	3	3	1199	3	OLFM3	1	102302454	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	29901668	102302454	146948167	8	107928											
KIRREL	55243	broad.mit.edu	37	chr1	158057634	158057634	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gccaggccacagccaaccccGagatcttgggctacaggtga	10	5	12	14	1	1	2	0	1	1	1	1	3	1	2	5	3	3	1	5	3	2	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:158057634G>A	uc001frn.3	+	6	1155	c.751G>A	c.(751-753)GAG>AAG	p.E251K	KIRREL_uc010pib.1_Missense_Mutation_p.E151K|KIRREL_uc009wsq.2_Missense_Mutation_p.E87K|KIRREL_uc001fro.3_Missense_Mutation_p.E49K	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	251	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					AGCCAACCCCGAGATCTTGGG	0.597											OREG0013906	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	21					0	0	0.457914	0	0		A	158057634	A	A	158057634	3	1	220	1	0	0	0	0	1	0	0	0	8340	1059	37	1	773	1	KIRREL	1	158057634	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	55755180	158057634	91192987	9	107929											
OR10X1	128367	broad.mit.edu	37	chr1	158549035	158549035	+	Missense_Mutation	SNP	A	G	G	1	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	acccagcaaaccagacactgAgatcagtgttataatgaatt	16	9	7	9	0	1	3	1	2	0	2	1	4	1	3	2	0	2	2	2	0	4	3	rs141124758		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:158549035A>G	uc010pin.1	-	1	655	c.655T>C	c.(655-657)TCA>CCA	p.S219P		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	219	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CCAGACACTGAGATCAGTGTT	0.448													35	37					0	0	0.779181	0	0		G	158549035	G	G	158549035	3	3	220	1	0	0	0	0	1	0	0	0	10941	304	11	3	320	3	OR10X1	1	158549035	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	491401	158549035	90701586	10	107930											
BAT2L2	23215	broad.mit.edu	37	chr1	171506531	171506531	+	Missense_Mutation	SNP	T	C	C	0	1	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	cctttctgagcctcgtatgcTgtgggggtcagatccctatc	5	13	11	12	1	2	2	1	1	1	1	5	2	3	2	3	2	2	2	3	2	2	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:171506531T>C	uc010pmg.1	+	15	2683	c.2417T>C	c.(2416-2418)CTG>CCG	p.L806P	BAT2L2_uc010pmh.1_5'Flank	NM_015172	NP_055987	Q9Y520	PRC2C_HUMAN	HBxAg transactivated protein 2	806							protein C-terminus binding				0						CCTCGTATGCTGTGGGGGTCA	0.458													2	5					0	0	0.115264	0	0		C	171506531	C	C	171506531	3	2	220	1	0	0	0	0	1	0	0	0	1322	1580	55	3	2471	3	BAT2L2	1	171506531	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	12957496	171506531	77744090	11	107931											
TNN	63923	broad.mit.edu	37	chr1	175066623	175066623	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccaccatctcctgggacccGgtacaggccaccattgacaa	10	6	9	16	1	1	1	0	1	1	0	2	2	1	2	6	3	1	1	6	3	2	2	rs147951218		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:175066623G>A	uc001gkl.1	+	8	1772	c.1659G>A	c.(1657-1659)CCG>CCA	p.P553P	TNN_uc010pmx.1_Intron	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	553	Fibronectin type-III 4.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CCTGGGACCCGGTACAGGCCA	0.542													24	36					0	0	0.624587	0	0		A	175066623	A	A	175066623	2	1	220	1	0	0	0	0	0	0	0	1	16348	1103	39	1		1	TNN	1	175066623	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	3560092	175066623	74183998	12	107932											
NPHS2	7827	broad.mit.edu	37	chr1	179544780	179544780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	cacctcggtgccctcctcgcCggagcctcggacctcatcca	5	7	9	20	4	1	0	1	0	0	0	6	2	3	2	7	3	2	0	7	3	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:179544780C>T	uc001gmq.3	-	1	305	c.220G>A	c.(220-222)GGC>AGC	p.G74S	NPHS2_uc009wxi.2_Missense_Mutation_p.G74S	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	74	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						CCCTCCTCGCCGGAGCCTCGG	0.706													3	13					0	0	0.150653	0	0		T	179544780	T	T	179544780	3	4	220	1	0	0	0	0	1	0	0	0	10602	652	23	1	963	1	NPHS2	1	179544780	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	4478157	179544780	69705841	13	107933											
FAM5C	339479	broad.mit.edu	37	chr1	190234081	190234081	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ataagaagcggctagctgatGtagcgtctccagagtgaccg	11	8	13	9	3	1	4	0	2	1	2	2	4	1	4	2	1	3	3	2	1	4	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:190234081G>A	uc001gse.1	-	4	764	c.532C>T	c.(532-534)CAT>TAT	p.H178Y	FAM5C_uc010pot.1_Missense_Mutation_p.H76Y	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	178						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)					GCTAGCTGATGTAGCGTCTCC	0.468													35	47					0	0	0.788014	0	0		A	190234081	A	A	190234081	3	1	220	1	0	0	0	0	1	0	0	0	5608	1377	48	4	1788	4	FAM5C	1	190234081	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	10689301	190234081	59016540	14	107934											
PTPRC	5788	broad.mit.edu	37	chr1	198719705	198719705	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tttggcagatgatcttccaaAgaaaagtcaaagttattgtt	14	14	8	5	0	2	3	1	1	1	2	3	3	3	3	1	1	0	3	1	1	5	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:198719705A>C	uc001gur.1	+	29	3331	c.3151A>C	c.(3151-3153)AGA>CGA	p.R1051R	PTPRC_uc001gus.1_Silent_p.R1003R|PTPRC_uc001gut.1_Silent_p.R890R	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	1051	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				axon guidance|B cell proliferation|B cell receptor signaling pathway|defense response to virus|immunoglobulin biosynthetic process|negative regulation of cytokine-mediated signaling pathway|negative regulation of protein kinase activity|negative regulation of T cell mediated cytotoxicity|positive regulation of antigen receptor-mediated signaling pathway|positive regulation of B cell proliferation|positive regulation of protein kinase activity|positive regulation of T cell proliferation|regulation of S phase|release of sequestered calcium ion into cytosol|T cell differentiation|T cell receptor signaling pathway	focal adhesion|integral to plasma membrane|membrane raft	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			breast(4)|skin(3)|ovary(2)|lung(1)|kidney(1)|pancreas(1)	12						GATCTTCCAAAGAAAAGTCAA	0.388													33	64					0	0	0.779181	0	0		C	198719705	C	C	198719705	2	2	220	1	0	0	0	0	0	0	0	1	12822	64	3	5		5	PTPRC	1	198719705	Silent	SNP	A	TCGA-IN-8663-01A-11D-2394-08	8485624	198719705	50530916	15	107935											
CAMSAP1L1	23271	broad.mit.edu	37	chr1	200823978	200823978	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tttggcatcgctgaacacggGtgataacgagagtgtacatt	11	11	12	7	3	0	3	0	2	0	1	1	4	0	3	0	2	3	3	0	2	3	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:200823978G>A	uc001gvl.2	+	15	4160	c.3890G>A	c.(3889-3891)GGT>GAT	p.G1297D	CAMSAP1L1_uc001gvk.2_Missense_Mutation_p.G1286D|CAMSAP1L1_uc001gvm.2_Missense_Mutation_p.G1270D	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein	1297						cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CTGAACACGGGTGATAACGAG	0.343													6	17					0	0	0.248553	0	0		A	200823978	A	A	200823978	3	1	220	1	0	0	0	0	1	0	0	0	2615	1261	44	4	3911	4	CAMSAP1L1	1	200823978	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	2104273	200823978	48426643	16	107936											
LEFTY1	10637	broad.mit.edu	37	chr1	226075298	226075298	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gaagttcacggcctcggtcaCgtcgaaggccttccagccgc	7	7	12	15	5	2	0	2	0	0	0	5	2	3	0	4	3	1	1	4	3	2	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:226075298C>T	uc001hpo.2	-	3	608	c.538G>A	c.(538-540)GTG>ATG	p.V180M	LEFTY1_uc010pvj.1_Missense_Mutation_p.R288H|LEFTY1_uc009xej.1_3'UTR	NM_020997	NP_066277	O75610	LFTY1_HUMAN	left-right determination, factor B	180					cell growth|multicellular organismal development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity|transforming growth factor beta receptor binding				0	Breast(184;0.197)					GCCTCGGTCACGTCGAAGGCC	0.697													8	20					0	0	0.27861	0	0		T	226075298	T	T	226075298	3	4	220	1	0	0	0	0	1	0	0	0	8731	536	19	1	570	1	LEFTY1	1	226075298	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	25251320	226075298	23175323	17	107937											
OR2G2	81470	broad.mit.edu	37	chr1	247752495	247752495	+	Silent	SNP	T	C	C	0	1	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	gaccagggcaagtttgtttcTctcttctacactgtggtaac	8	14	9	10	0	3	0	0	0	3	0	4	1	3	0	1	2	2	4	1	2	3	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:247752495T>C	uc010pyy.1	+	1	834	c.834T>C	c.(832-834)TCT>TCC	p.S278S		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.017)			AGTTTGTTTCTCTCTTCTACA	0.363													96	75					0	0	0.870114	0	0		C	247752495	C	C	247752495	2	2	220	1	0	0	0	0	0	0	0	1	11017	1538	54	3		3	OR2G2	1	247752495	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	21677197	247752495	1498126	18	107938											
OR2T12	127064	broad.mit.edu	37	chr1	248458004	248458004	+	Missense_Mutation	SNP	T	C	C	0	1	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	cagggcttccttgacctcacTgttcctcacactgtagatga	8	12	8	13	0	2	3	2	2	0	1	4	3	4	3	3	1	0	3	3	1	1	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:248458004T>C	uc010pzj.1	-	1	877	c.877A>G	c.(877-879)AGT>GGT	p.S293G		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.S293N(1)		skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			TTGACCTCACTGTTCCTCACA	0.483													108	86					0	0	0.870114	0	0		C	248458004	C	C	248458004	3	2	220	1	0	0	0	0	1	0	0	0	11038	1580	55	3	88	3	OR2T12	1	248458004	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	705509	248458004	792617	19	107939											
OR2T3	343173	broad.mit.edu	37	chr1	248637432	248637432	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgctgctcttcggtgcttccTtctacacctacatgctcccg	4	14	7	16	2	2	0	0	0	2	0	5	0	4	0	3	1	6	4	3	1	2	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr1:248637432T>G	uc001iel.1	+	1	781	c.781T>G	c.(781-783)TTC>GTC	p.F261V		NM_001005495	NP_001005495	Q8NH03	OR2T3_HUMAN	olfactory receptor, family 2, subfamily T,	261	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CGGTGCTTCCTTCTACACCTA	0.552													24	292					0	0	0.870114	0	0		G	248637432	G	G	248637432	3	3	220	1	0	0	0	0	1	0	0	0	11042	1609	56	5	783	5	OR2T3	1	248637432	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	179428	248637432	613189	20	107940											
SNTG2	54221	broad.mit.edu	37	chr2	1241710	1241710	+	Missense_Mutation	SNP	T	C	C	0	1	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	cggagtcagctctgggatccTccggttttacacagcccagg	7	9	12	13	2	2	0	1	0	1	0	4	2	4	2	3	4	3	2	3	4	1	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:1241710T>C	uc002qwq.2	+	10	898	c.770T>C	c.(769-771)CTC>CCC	p.L257P	SNTG2_uc010ewi.2_Missense_Mutation_p.L130P	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	257					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		TCTGGGATCCTCCGGTTTTAC	0.642													7	10					0	0	0.248553	0	0		C	1241710	C	C	1241710	3	2	220	1	0	0	0	0	1	0	0	0	14900	1551	54	3	808	3	SNTG2	2	1241710	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08		1241710	241957663	21	107941											
ATP6V1C2	245973	broad.mit.edu	37	chr2	10917808	10917808	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	ccctgataggcctgctgcggGgcagaccgacagagagagag	10	4	16	11	2	0	4	0	1	0	3	0	7	0	4	3	3	2	2	3	3	1	1	rs117054621	by1000genomes	TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:10917808G>A	uc002ras.2	+	11	1032	c.923G>A	c.(922-924)GGG>GAG	p.G308E	ATP6V1C2_uc002rat.2_Intron	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a	308					ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		CCTGCTGCGGGGCAGACCGAC	0.597													5	90					0	0	0.217242	0	0		A	10917808	A	A	10917808	3	1	220	1	0	0	0	0	1	0	0	0	1182	1232	43	4	961	4	ATP6V1C2	2	10917808	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	9676098	10917808	232281565	22	107942											
ADCY3	109	broad.mit.edu	37	chr2	25141312	25141312	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggctgaggctgaggggcagcGtgatgaagaaggagaagaca	13	4	19	5	1	0	7	0	4	0	3	0	8	0	7	0	5	1	3	0	5	3	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:25141312G>A	uc002rfs.3	-	1	744	c.545C>T	c.(544-546)ACG>ATG	p.T182M	ADCY3_uc010ykm.1_Missense_Mutation_p.T182M	NM_004036	NP_004027	O60266	ADCY3_HUMAN	adenylate cyclase 3	182	Helical; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|sensory perception of smell|synaptic transmission|transmembrane transport|water transport	cytoplasm|integral to plasma membrane	ATP binding|calmodulin binding|metal ion binding			breast(3)|ovary(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.203)					GAGGGGCAGCGTGATGAAGAA	0.627													21	69					0	0	0.592651	0	0		A	25141312	A	A	25141312	3	1	220	1	0	0	0	0	1	0	0	0	295	1145	40	1	2973	1	ADCY3	2	25141312	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	14223504	25141312	218058061	23	107943											
ALMS1	7840	broad.mit.edu	37	chr2	73716933	73716933	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctcagaaatgaccagaggacGgcagaacccatcatcatgca	15	5	9	12	1	3	4	3	1	0	3	3	5	3	5	2	2	2	2	2	2	2	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:73716933G>A	uc002sje.1	+	12	7961	c.7850G>A	c.(7849-7851)CGG>CAG	p.R2617Q	ALMS1_uc002sjf.1_Missense_Mutation_p.R2573Q|ALMS1_uc002sjg.2_Missense_Mutation_p.R2003Q|ALMS1_uc002sjh.1_Missense_Mutation_p.R2003Q	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	2615					G2/M transition of mitotic cell cycle	centrosome|cilium|cytosol|microtubule basal body|spindle pole				skin(3)|ovary(2)|breast(2)|pancreas(1)|lung(1)	9						ACCAGAGGACGGCAGAACCCA	0.453													26	78					0	0	0.654019	0	0		A	73716933	A	A	73716933	3	1	220	1	0	0	0	0	1	0	0	0	535	1116	39	1	7882	1	ALMS1	2	73716933	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	48575621	73716933	169482440	24	107944											
RGPD4	285190	broad.mit.edu	37	chr2	108487634	108487634	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ataggagaagaaggtgaaaaAgttctgtattcacagggggt	15	9	14	3	0	2	3	1	1	1	2	2	4	2	3	0	4	0	2	0	4	6	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:108487634A>C	uc010ywk.1	+	20	3256	c.3174A>C	c.(3172-3174)AAA>AAC	p.K1058N	RGPD4_uc002tdu.2_Missense_Mutation_p.K245N|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1058	RanBD1 1.				intracellular transport		binding			skin(2)	2						AAGGTGAAAAAGTTCTGTATT	0.393													150	480					0	0	0.870114	0	0		C	108487634	C	C	108487634	3	2	220	1	0	0	0	0	1	0	0	0	13313	69	3	5	3252	5	RGPD4	2	108487634	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	34770701	108487634	134711739	25	107945											
LRP2	4036	broad.mit.edu	37	chr2	170131608	170131608	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcctcagggaagcctggtagTacacttgtgggttggtctct	6	12	14	9	0	2	0	1	0	1	0	3	1	2	1	2	4	2	3	2	4	3	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:170131608T>G	uc002ues.2	-	14	2126	c.1913A>C	c.(1912-1914)TAC>TCC	p.Y638S	LRP2_uc010zdf.1_Missense_Mutation_p.Y569S	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	638	LDL-receptor class B 5.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	AGCCTGGTAGTACACTTGTGG	0.493													23	31					0	0	0.654019	0	0		G	170131608	G	G	170131608	3	3	220	1	0	0	0	0	1	0	0	0	8974	1638	57	5	12318	5	LRP2	2	170131608	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	61643974	170131608	73067765	26	107946											
GAD1	2571	broad.mit.edu	37	chr2	171700589	171700589	+	Missense_Mutation	SNP	A	G	G	1	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	ttgcaccagtgtttgtcctcAtggaacaaataacacttaag	13	12	7	9	0	1	0	1	0	0	0	2	1	2	1	2	1	3	2	2	1	4	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:171700589A>G	uc002ugi.2	+	7	1095	c.673A>G	c.(673-675)ATG>GTG	p.M225V		NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	225					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GTTTGTCCTCATGGAACAAAT	0.373													20	53					0	0	0.608945	0	0		G	171700589	G	G	171700589	3	3	220	1	0	0	0	0	1	0	0	0	6193	217	8	3	736	3	GAD1	2	171700589	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	1568981	171700589	71498784	27	107947											
SLC25A12	8604	broad.mit.edu	37	chr2	172690559	172690559	+	Missense_Mutation	SNP	A	T	T	1	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	tagcgtatggcactctgggcAaattcctctggaacagagaa	12	9	11	9	1	2	1	0	0	2	1	3	3	3	2	1	3	2	3	1	3	5	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:172690559A>T	uc002uhh.2	-	8	848	c.759T>A	c.(757-759)TTT>TTA	p.F253L	SLC25A12_uc010fqh.2_Missense_Mutation_p.F146L|SLC25A12_uc010zdv.1_RNA	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12	253					gluconeogenesis|malate-aspartate shuttle|response to calcium ion	integral to membrane|mitochondrial inner membrane	calcium ion binding|L-aspartate transmembrane transporter activity|L-glutamate transmembrane transporter activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)		L-Aspartic Acid(DB00128)	CACTCTGGGCAAATTCCTCTG	0.328													45	84					0	0	0.870114	0	0		T	172690559	T	T	172690559	3	4	220	1	0	0	0	0	1	0	0	0	14499	127	5	5	1321	5	SLC25A12	2	172690559	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	989970	172690559	70508814	28	107948											
HOXD8	3234	broad.mit.edu	37	chr2	176995668	176995668	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tgtttccgtggatgagaccaCaaggttgggatgcatttttt	8	15	12	6	1	0	1	0	1	0	1	1	4	1	3	2	3	1	3	2	3	1	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:176995668C>A	uc002uko.2	+	1	1192	c.574C>A	c.(574-576)CAA>AAA	p.Q192K	uc002ukl.1_5'Flank|uc002ukm.1_5'Flank|HOXD8_uc002ukn.2_Missense_Mutation_p.Q8K|HOXD8_uc002ukp.2_Missense_Mutation_p.Q192K	NM_019558	NP_062458	P13378	HXD8_HUMAN	homeobox D8	192					anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.195)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		GATGAGACCACAAGGTTGGGA	0.463													28	31					5.61819e-17	5.958e-17	0.693898	1	0		A	176995668	A	A	176995668	3	1	220	1	0	0	0	0	1	0	0	0	7341	479	17	5	576	5	HOXD8	2	176995668	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	4305109	176995668	66203705	29	107949											
TTN	7273	broad.mit.edu	37	chr2	179472135	179472135	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	caacattccttaccaaaaacTtctaccctggctgctgcaaa	13	10	4	14	0	1	0	0	0	1	0	2	0	2	0	3	1	6	3	3	1	6	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:179472135T>G	uc010zfg.1	-	226	45800	c.45576A>C	c.(45574-45576)GAA>GAC	p.E15192D	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E8887D|TTN_uc010zfi.1_Missense_Mutation_p.E8820D|TTN_uc010zfj.1_Missense_Mutation_p.E8695D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16119							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TACCAAAAACTTCTACCCTGG	0.383													52	118					0	0	0.870114	0	0		G	179472135	G	G	179472135	3	3	220	1	0	0	0	0	1	0	0	0	16761	1606	56	5	54757	5	TTN	2	179472135	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	2476467	179472135	63727238	30	107950											
CWC22	57703	broad.mit.edu	37	chr2	180815583	180815583	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aagacctatagaagtaaagaAgttgatggcaaaccgagtgt	17	8	11	5	1	0	4	0	1	0	3	0	5	0	4	2	1	1	3	2	1	8	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:180815583A>C	uc010frh.1	-	18	2188	c.1888T>G	c.(1888-1890)TTC>GTC	p.F630V	CWC22_uc002uno.2_Missense_Mutation_p.F152V|CWC22_uc002unp.2_Missense_Mutation_p.F630V	NM_020943	NP_065994	Q9HCG8	CWC22_HUMAN	CWC22 spliceosome-associated protein homolog	630						catalytic step 2 spliceosome	protein binding|RNA binding				0						GAAGTAAAGAAGTTGATGGCA	0.313													11	6					0	0	0.38729	0	0		C	180815583	C	C	180815583	3	2	220	1	0	0	0	0	1	0	0	0	4071	72	3	5	850	5	CWC22	2	180815583	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	1343448	180815583	62383790	31	107951											
PLCL1	5334	broad.mit.edu	37	chr2	198950817	198950817	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	aggaggaaaggcacagaagcGcagtctttcagtgagaatgg	14	6	15	6	1	2	2	1	1	1	2	2	5	2	4	0	4	1	2	0	4	3	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:198950817G>A	uc010fsp.2	+	2	2867	c.2576G>A	c.(2575-2577)CGC>CAC	p.R859H	PLCL1_uc002uuv.3_Missense_Mutation_p.R780H	NM_001114661	NP_001108133	Q15111	PLCL1_HUMAN	RecName: Full=Inactive phospholipase C-like protein 1;          Short=PLC-L1; AltName: Full=Phospholipase C-deleted in lung carcinoma; AltName: Full=Phospholipase C-related but catalytically inactive protein;          Short=PRIP;	859					intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	GCACAGAAGCGCAGTCTTTCA	0.438													42	28					0	0	0.834066	0	0		A	198950817	A	A	198950817	3	1	220	1	0	0	0	0	1	0	0	0	12058	1087	38	1	2582	1	PLCL1	2	198950817	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	18135234	198950817	44248556	32	107952											
NBEAL1	65065	broad.mit.edu	37	chr2	204055113	204055113	+	Splice_Site	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	caccctgtcaattattaaagGtaagtcaacaacttaagaag	17	10	6	8	0	2	1	2	0	0	1	2	1	2	1	1	1	2	1	1	1	9	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:204055113G>A	uc002uzt.3	+	45	7167	c.6834_splice	c.e45+1	p.K2278_splice	NBEAL1_uc002uzs.3_Splice_Site_p.K988_splice	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3								binding			ovary(1)|skin(1)	2						ATTATTAAAGGTAAGTCAACA	0.338													22	86					0	0	0.624587	0	0		A	204055113	A	A	204055113	5	1	220	1	0	0	0	0	0	0	1	0	10206	1275	44	4	7009	4	NBEAL1	2	204055113	Splice_Site	SNP	G	TCGA-IN-8663-01A-11D-2394-08	5104296	204055113	39144260	33	107953											
NPPC	4880	broad.mit.edu	37	chr2	232790333	232790333	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cggtcgcccttgagattggcGcccccgcccccgggagcctt	3	7	13	18	5	0	1	0	1	0	1	1	3	0	2	6	3	1	0	6	3	0	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:232790333G>A	uc002vsl.1	-	2	183	c.183C>T	c.(181-183)GGC>GGT	p.G61G		NM_024409	NP_077720	P23582	ANFC_HUMAN	natriuretic peptide precursor C precursor	61					cGMP biosynthetic process|growth plate cartilage chondrocyte differentiation|growth plate cartilage chondrocyte proliferation|ossification|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vasoconstriction		hormone activity				0		all_hematologic(139;0.0123)|Acute lymphoblastic leukemia(138;0.0182)|Renal(207;0.025)		Epithelial(121;9.35e-14)|BRCA - Breast invasive adenocarcinoma(100;0.00119)|LUSC - Lung squamous cell carcinoma(224;0.00746)|Lung(119;0.00834)		TGAGATTGGCGCCCCCGCCCC	0.731													11	7					0	0	0.411799	0	0		A	232790333	A	A	232790333	2	1	220	1	0	0	0	0	0	0	0	1	10612	1074	38	1		1	NPPC	2	232790333	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	28735220	232790333	10409040	34	107954											
COL6A3	1293	broad.mit.edu	37	chr2	238283448	238283448	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcccagcagggtcagctggcGgacagcgttgacgacgtcct	7	7	14	13	4	1	1	1	1	0	0	3	3	3	2	2	3	3	3	2	3	0	1	rs114852262	by1000genomes	TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr2:238283448G>A	uc002vwl.2	-	8	3571	c.3286C>T	c.(3286-3288)CGC>TGC	p.R1096C	COL6A3_uc002vwo.2_Missense_Mutation_p.R890C|COL6A3_uc010znj.1_Missense_Mutation_p.R489C|COL6A3_uc002vwq.2_Missense_Mutation_p.R890C|COL6A3_uc002vwr.2_Missense_Mutation_p.R689C	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	1096	Nonhelical region.|VWFA 6.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		GTCAGCTGGCGGACAGCGTTG	0.637													5	77					0	0	0.217242	0	0		A	238283448	A	A	238283448	3	1	220	1	0	0	0	0	1	0	0	0	3704	1116	39	1	6442	1	COL6A3	2	238283448	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	5493115	238283448	4915925	35	107955											
SCN5A	6331	broad.mit.edu	37	chr3	38651268	38651268	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	agggattcccagaccaagccGtcggcctccacggagccgtt	8	6	12	15	4	0	1	0	0	0	1	3	3	2	3	6	3	2	1	6	3	1	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:38651268G>A	uc003cio.2	-	7	1085	c.891C>T	c.(889-891)GAC>GAT	p.D297D	SCN5A_uc003cin.2_Silent_p.D297D|SCN5A_uc003cil.3_Silent_p.D297D|SCN5A_uc010hhi.2_Silent_p.D297D|SCN5A_uc010hhk.2_Silent_p.D297D|SCN5A_uc011ayr.1_Silent_p.D297D|SCN5A_uc010hhl.1_Silent_p.D120D	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	297					blood circulation|cellular response to calcium ion|muscle contraction|regulation of heart contraction	sarcolemma|voltage-gated sodium channel complex	protein binding|voltage-gated sodium channel activity			ovary(4)|pancreas(2)|skin(2)|central_nervous_system(1)	9	Medulloblastoma(35;0.163)			KIRC - Kidney renal clear cell carcinoma(284;0.0822)|Kidney(284;0.1)	Benzonatate(DB00868)|Bepridil(DB01244)|Carbamazepine(DB00564)|Cocaine(DB00907)|Dibucaine(DB00527)|Disopyramide(DB00280)|Encainide(DB01228)|Ethotoin(DB00754)|Flecainide(DB01195)|Fosphenytoin(DB01320)|Hexylcaine(DB00473)|Indecainide(DB00192)|Lamotrigine(DB00555)|Lidocaine(DB00281)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mibefradil(DB01388)|Moricizine(DB00680)|Oxcarbazepine(DB00776)|Phenytoin(DB00252)|Prilocaine(DB00750)|Procainamide(DB01035)|Propafenone(DB01182)|Quinidine(DB00908)|Riluzole(DB00740)|Tocainide(DB01056)|Verapamil(DB00661)	AGACCAAGCCGTCGGCCTCCA	0.602													13	45					0	0	0.411799	0	0		A	38651268	A	A	38651268	2	1	220	1	0	0	0	0	0	0	0	1	13947	1136	40	1		1	SCN5A	3	38651268	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08		38651268	159371162	36	107956											
SCN10A	6336	broad.mit.edu	37	chr3	38783917	38783917	+	Missense_Mutation	SNP	A	C	C	1	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	tccgtcacaagcccaaagagAattgtcttgagcttcaccca	12	9	7	13	1	3	2	2	1	1	1	4	3	4	2	3	0	2	1	3	0	3	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:38783917A>C	uc003ciq.2	-	13	1971	c.1971T>G	c.(1969-1971)ATT>ATG	p.I657M		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	657					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	GCCCAAAGAGAATTGTCTTGA	0.532													59	41					0	0	0.870114	0	0		C	38783917	C	C	38783917	3	2	220	1	0	0	0	0	1	0	0	0	13937	242	9	5	3959	5	SCN10A	3	38783917	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	132649	38783917	159238513	37	107957											
GRM2	2912	broad.mit.edu	37	chr3	51746690	51746690	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtctgagggcgactatggcGagacaggcattgaggccttt	8	9	15	9	3	1	3	0	2	1	1	1	5	1	3	1	4	0	1	1	4	1	3	rs143196180		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:51746690G>A	uc010hlv.2	+	3	891	c.652G>A	c.(652-654)GAG>AAG	p.E218K	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	218	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	CGACTATGGCGAGACAGGCAT	0.592													21	68					0	0	0.592651	0	0		A	51746690	A	A	51746690	3	1	220	1	0	0	0	0	1	0	0	0	6813	1059	37	1	658	1	GRM2	3	51746690	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	12962773	51746690	146275740	38	107958											
PPP4R2	151987	broad.mit.edu	37	chr3	73108206	73108206	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	agtatcccttttactattcaGcgactatgtgaattgttaac	11	16	6	8	1	1	1	1	1	0	0	2	2	2	1	1	0	3	2	1	0	6	8			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:73108206G>T	uc003dph.1	+	4	376	c.306G>T	c.(304-306)CAG>CAT	p.Q102H	PPP4R2_uc003dpi.1_Missense_Mutation_p.Q45H|FLJ10213_uc003dpj.2_5'Flank	NM_174907	NP_777567	Q9NY27	PP4R2_HUMAN	protein phosphatase 4, regulatory subunit 2	102					mRNA processing|protein modification process|regulation of double-strand break repair via homologous recombination|RNA splicing	centrosome|nucleus|protein phosphatase 4 complex	protein binding, bridging|protein phosphatase type 4 regulator activity			lung(1)	1		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)		TTACTATTCAGCGACTATGTG	0.308													17	15					5.3912e-06	5.47447e-06	0.539581	1	0		T	73108206	T	T	73108206	3	4	220	1	0	0	0	0	1	0	0	0	12426	962	34	5	320	5	PPP4R2	3	73108206	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	21361516	73108206	124914224	39	107959											
CNTN3	5067	broad.mit.edu	37	chr3	74411082	74411082	+	Silent	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acatcccccttcttccaggaAgagagtgcccttggggaggc	8	8	12	13	0	1	1	0	0	1	1	3	4	3	3	4	4	1	0	4	4	1	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:74411082A>C	uc003dpm.1	-	10	1403	c.1323T>G	c.(1321-1323)TCT>TCG	p.S441S		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	441	Ig-like C2-type 5.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)|skin(1)	5		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		TCTTCCAGGAAGAGAGTGCCC	0.478													17	58					0	0	0.557998	0	0		C	74411082	C	C	74411082	2	2	220	1	0	0	0	0	0	0	0	1	3645	59	3	5		5	CNTN3	3	74411082	Silent	SNP	A	TCGA-IN-8663-01A-11D-2394-08	1302876	74411082	123611348	40	107960											
ROBO1	6091	broad.mit.edu	37	chr3	78649331	78649331	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgcatttctgcaatatttcTtcgacctacatttgcttgtt	7	19	5	10	1	2	0	0	0	2	0	3	1	2	0	1	0	4	4	1	0	3	8			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:78649331T>G	uc003dqe.2	-	30	5081	c.4873A>C	c.(4873-4875)AGA>CGA	p.R1625R	ROBO1_uc003dqb.2_Silent_p.R1586R|ROBO1_uc003dqc.2_Silent_p.R1525R|ROBO1_uc003dqd.2_Silent_p.R1580R|ROBO1_uc010hoh.2_Silent_p.R817R	NM_002941	NP_002932	Q9Y6N7	ROBO1_HUMAN	roundabout 1 isoform a	1625	Cytoplasmic (Potential).				activation of caspase activity|axon midline choice point recognition|cell migration involved in sprouting angiogenesis|chemorepulsion involved in postnatal olfactory bulb interneuron migration|homophilic cell adhesion|negative regulation of chemokine-mediated signaling pathway|negative regulation of mammary gland epithelial cell proliferation|negative regulation of negative chemotaxis|positive regulation of axonogenesis|Roundabout signaling pathway	cell surface|cytoplasm|integral to plasma membrane	axon guidance receptor activity|identical protein binding|LRR domain binding			large_intestine(2)	2		Lung SC(41;0.0257)|Lung NSC(201;0.0439)		LUSC - Lung squamous cell carcinoma(21;0.008)|Epithelial(33;0.00999)|Lung(72;0.0177)|BRCA - Breast invasive adenocarcinoma(55;0.0274)		GCAATATTTCTTCGACCTACA	0.373													28	21					0	0	0.681144	0	0		G	78649331	G	G	78649331	2	3	220	1	0	0	0	0	0	0	0	1	13538	1617	56	5		5	ROBO1	3	78649331	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	4238249	78649331	119373099	41	107961											
BCHE	590	broad.mit.edu	37	chr3	165503945	165503945	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agacacacctgtcatttccaAgacttttggaaaaaatgatg	15	11	7	8	0	1	3	1	1	0	2	2	4	2	4	2	1	0	0	2	1	4	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:165503945A>C	uc003fem.3	-	3	1832	c.1672T>G	c.(1672-1674)TTG>GTG	p.L558V	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	558					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	GTCATTTCCAAGACTTTTGGA	0.358													29	31					0	0	0.750413	0	0		C	165503945	C	C	165503945	3	2	220	1	0	0	0	0	1	0	0	0	1359	69	3	5	144	5	BCHE	3	165503945	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	86854614	165503945	32518485	42	107962											
ATP11B	23200	broad.mit.edu	37	chr3	182631761	182631761	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ggaacgagttataggaagatGtagtccaacccacatcagca	15	7	10	9	1	1	1	1	0	0	1	2	4	2	3	2	2	3	3	2	2	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr3:182631761G>A	uc003flb.2	+	29	3688	c.3431G>A	c.(3430-3432)TGT>TAT	p.C1144Y	ATP11B_uc003flc.2_Missense_Mutation_p.C728Y|ATP11B_uc010hxg.2_RNA|ATP11B_uc010hxh.1_3'UTR	NM_014616	NP_055431	Q9Y2G3	AT11B_HUMAN	ATPase, class VI, type 11B	1144	Cytoplasmic (Potential).				aminophospholipid transport|ATP biosynthetic process	integral to membrane|nuclear inner membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(2)|pancreas(1)	3	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)			ATAGGAAGATGTAGTCCAACC	0.483													92	107					0	0	0.870114	0	0		A	182631761	A	A	182631761	3	1	220	1	0	0	0	0	1	0	0	0	1121	1377	48	4	3545	4	ATP11B	3	182631761	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	17127816	182631761	15390669	43	107963											
MAEA	10296	broad.mit.edu	37	chr4	1316182	1316182	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctctaaggacctagtgaataTtgagatgttcctgacggcca	11	11	10	9	1	1	3	0	3	1	1	2	5	2	4	3	2	0	1	3	2	4	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr4:1316182T>C	uc003gda.2	+	4	500	c.470T>C	c.(469-471)ATT>ACT	p.I157T	MAEA_uc010ibs.1_Intron|MAEA_uc003gdb.2_Intron|MAEA_uc011bvb.1_Missense_Mutation_p.I89T|MAEA_uc003gdc.2_Intron|MAEA_uc003gdd.2_Intron|MAEA_uc011bvc.1_Missense_Mutation_p.I156T|MAEA_uc011bvd.1_Missense_Mutation_p.I109T|MAEA_uc010ibt.2_Intron	NM_001017405	NP_001017405	Q7L5Y9	MAEA_HUMAN	macrophage erythroblast attacher isoform 1	157					cell adhesion|cell cycle|cell division|erythrocyte maturation|negative regulation of myeloid cell apoptosis|regulation of mitotic cell cycle	actomyosin contractile ring|integral to plasma membrane|membrane fraction|nuclear matrix|spindle	actin binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(23;0.0201)			CTAGTGAATATTGAGATGTTC	0.607													98	166					0	0	0.870114	0	0		C	1316182	C	C	1316182	3	2	220	1	0	0	0	0	1	0	0	0	9171	1493	52	3	484	3	MAEA	4	1316182	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08		1316182	189838094	44	107964											
ADAMTS3	9508	broad.mit.edu	37	chr4	73148877	73148877	+	Silent	SNP	T	G	G	0	1	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	ctttctaaggtggatgatctTgtcggacgtctgttgtcaat	7	16	11	7	2	4	1	1	1	3	0	5	3	4	3	0	3	0	1	0	3	2	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr4:73148877T>G	uc003hgk.1	-	22	3631	c.3594A>C	c.(3592-3594)ACA>ACC	p.T1198T		NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1198					collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TGGATGATCTTGTCGGACGTC	0.443													23	81					0	0	0.654019	0	0		G	73148877	G	G	73148877	2	3	220	1	0	0	0	0	0	0	0	1	267	1799	63	5		5	ADAMTS3	4	73148877	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	71832695	73148877	118005399	45	107965											
MMRN1	22915	broad.mit.edu	37	chr4	90849051	90849051	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gactgtgaatgatgtaaggaAcacttactcctccctagaag	13	10	9	9	0	0	3	0	2	0	1	2	5	2	4	2	1	2	1	2	1	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr4:90849051A>C	uc003hst.2	+	5	1132	c.1061A>C	c.(1060-1062)AAC>ACC	p.N354T	MMRN1_uc010iku.2_Missense_Mutation_p.N320T|MMRN1_uc011cds.1_Missense_Mutation_p.N96T	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	354	Potential.				cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		GATGTAAGGAACACTTACTCC	0.333													34	54					0	0	0.769981	0	0		C	90849051	C	C	90849051	3	2	220	1	0	0	0	0	1	0	0	0	9688	43	2	5	1079	5	MMRN1	4	90849051	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	17700174	90849051	100305225	46	107966											
TTC29	83894	broad.mit.edu	37	chr4	147724808	147724808	+	Missense_Mutation	SNP	A	C	C	1	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	gttgtgtcaaaagcttgctgAaagcattcagaagctttgtt	11	14	10	6	0	2	2	2	1	0	1	2	2	2	2	0	0	4	6	0	0	4	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr4:147724808A>C	uc003ikw.3	-	11	1358	c.1131T>G	c.(1129-1131)TTT>TTG	p.F377L	TTC29_uc010ipc.2_RNA|TTC29_uc003ikx.3_Missense_Mutation_p.F403L|TTC29_uc010ipd.1_Missense_Mutation_p.F377L	NM_031956	NP_114162	Q8NA56	TTC29_HUMAN	tetratricopeptide repeat domain 29	377	TPR 5.						binding				0	all_hematologic(180;0.151)					AAGCTTGCTGAAAGCATTCAG	0.353													11	2					0	0	0.361761	0	0		C	147724808	C	C	147724808	3	2	220	1	0	0	0	0	1	0	0	0	16722	243	9	5	308	5	TTC29	4	147724808	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	56875757	147724808	43429468	47	107967											
TRIML2	205860	broad.mit.edu	37	chr4	189012589	189012589	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gatggtgagggagtctggacTtgtgtctccatttgggatac	7	13	15	6	0	2	1	0	1	2	0	3	5	2	4	1	4	1	0	1	4	1	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr4:189012589T>G	uc003izl.2	-	7	1138	c.1102A>C	c.(1102-1104)AGT>CGT	p.S368R	TRIML2_uc003izj.1_Missense_Mutation_p.S196R|TRIML2_uc003izk.1_Missense_Mutation_p.S176R|TRIML2_uc011cle.1_Missense_Mutation_p.S443R	NM_173553	NP_775824	Q8N7C3	TRIMM_HUMAN	tripartite motif family-like 2	368	B30.2/SPRY.						ligase activity			central_nervous_system(2)	2		all_cancers(14;3.11e-44)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|all_hematologic(60;0.0202)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)		OV - Ovarian serous cystadenocarcinoma(60;1.79e-11)|BRCA - Breast invasive adenocarcinoma(30;4.52e-06)|GBM - Glioblastoma multiforme(59;1.62e-05)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.0091)|READ - Rectum adenocarcinoma(43;0.163)		GAGTCTGGACTTGTGTCTCCA	0.473													82	19					0	0	0.870114	0	0		G	189012589	G	G	189012589	3	3	220	1	0	0	0	0	1	0	0	0	16577	1609	56	5	65	5	TRIML2	4	189012589	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	41287781	189012589	2141687	48	107968											
MYO10	4651	broad.mit.edu	37	chr5	16701398	16701398	+	Missense_Mutation	SNP	T	G	G	0	1	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	gggcaccaccgtgtcgttcaTgtatgggtcctcctctgaag	6	11	12	12	2	2	1	1	1	1	0	5	1	4	1	4	2	0	3	4	2	2	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr5:16701398T>G	uc003jft.3	-	25	3574	c.3106A>C	c.(3106-3108)ATG>CTG	p.M1036L	MYO10_uc011cnc.1_5'Flank|MYO10_uc011cnd.1_Missense_Mutation_p.M393L|MYO10_uc011cne.1_Missense_Mutation_p.M393L|MYO10_uc010itx.2_Missense_Mutation_p.M659L	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	myosin X	1036					axon guidance|signal transduction	myosin complex	actin binding|ATP binding|motor activity			ovary(2)|pancreas(1)	3						GTGTCGTTCATGTATGGGTCC	0.642													12	31					0	0	0.411799	0	0		G	16701398	G	G	16701398	3	3	220	1	0	0	0	0	1	0	0	0	10080	1464	51	5	3138	5	MYO10	5	16701398	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08		16701398	164213862	49	107969											
CDH18	1016	broad.mit.edu	37	chr5	19503122	19503122	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ttcattgtccttcagagtgaAgtttggatttacaggcaggc	9	14	11	7	0	2	2	2	1	0	1	3	3	3	3	1	3	1	2	1	3	2	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr5:19503122A>C	uc003jgc.2	-	10	1986	c.1609T>G	c.(1609-1611)TTC>GTC	p.F537V	CDH18_uc003jgd.2_Missense_Mutation_p.F537V|CDH18_uc011cnm.1_Missense_Mutation_p.F537V	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	537	Extracellular (Potential).|Cadherin 5.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)|skin(1)	7	Lung NSC(1;0.00734)|all_lung(1;0.0197)					TTCAGAGTGAAGTTTGGATTT	0.343													31	33					0	0	0.750413	0	0		C	19503122	C	C	19503122	3	2	220	1	0	0	0	0	1	0	0	0	3106	72	3	5	775	5	CDH18	5	19503122	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	2801724	19503122	161412138	50	107970											
ADAMTS12	81792	broad.mit.edu	37	chr5	33891855	33891855	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cttgcctcctgtccgggaagCgaaccgggcctggctgaggc	5	7	15	14	3	0	1	0	1	0	0	2	3	2	2	5	4	3	1	5	4	2	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr5:33891855C>T	uc003jia.1	-	1	270	c.107G>A	c.(106-108)CGC>CAC	p.R36H	ADAMTS12_uc010iuq.1_Missense_Mutation_p.R36H|ADAMTS12_uc003jib.1_Missense_Mutation_p.R36H	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	36					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GTCCGGGAAGCGAACCGGGCC	0.532										HNSCC(64;0.19)			35	129					0	0	0.796494	0	0		T	33891855	T	T	33891855	3	4	220	1	0	0	0	0	1	0	0	0	257	768	27	1	4773	1	ADAMTS12	5	33891855	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	14388733	33891855	147023405	51	107971											
SPEF2	79925	broad.mit.edu	37	chr5	35807336	35807336	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcaagacctgatttcaaattAttcagactataagtttcctg	13	15	5	8	0	3	3	3	1	0	2	4	3	4	3	2	0	0	1	2	0	5	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr5:35807336A>G	uc003jjo.2	+	36	5471	c.5360A>G	c.(5359-5361)TAT>TGT	p.Y1787C	SPEF2_uc003jjp.1_Missense_Mutation_p.Y1273C|SPEF2_uc003jjr.2_Missense_Mutation_p.Y842C	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1787					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			ATTTCAAATTATTCAGACTAT	0.403													66	60					0	0	0.870114	0	0		G	35807336	G	G	35807336	3	3	220	1	0	0	0	0	1	0	0	0	15060	449	16	3	5523	3	SPEF2	5	35807336	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	1915481	35807336	145107924	52	107972											
C5orf42	65250	broad.mit.edu	37	chr5	37198821	37198821	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	taccttctgcatgacttttcTtgcccacctcaactgcaata	9	14	4	14	0	3	1	1	1	2	0	3	1	3	1	3	0	5	2	3	0	4	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr5:37198821T>G	uc011cpa.1	-	20	3886	c.3655A>C	c.(3655-3657)AGA>CGA	p.R1219R	C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Silent_p.R294R|C5orf42_uc011cpb.1_Silent_p.R100R	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	1219										ovary(4)|breast(2)|skin(1)	7	all_lung(31;0.000616)		COAD - Colon adenocarcinoma(61;0.14)|Epithelial(62;0.177)|Colorectal(62;0.202)			ATGACTTTTCTTGCCCACCTC	0.363													24	91					0	0	0.729181	0	0		G	37198821	G	G	37198821	2	3	220	1	0	0	0	0	0	0	0	1	2304	1617	56	5		5	C5orf42	5	37198821	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	1391485	37198821	143716439	53	107973											
PCDHB10	56126	broad.mit.edu	37	chr5	140572774	140572774	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	taaccctcacagcgctggatGgtgggtctccatccaggtct	7	10	11	13	1	3	0	1	0	2	0	5	1	4	1	3	4	2	1	3	4	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr5:140572774G>A	uc003lix.2	+	1	823	c.649G>A	c.(649-651)GGT>AGT	p.G217S		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	217	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AGCGCTGGATGGTGGGTCTCC	0.547													73	22					0	0	0.870114	0	0		A	140572774	A	A	140572774	3	1	220	1	0	0	0	0	1	0	0	0	11554	1348	47	4	651	4	PCDHB10	5	140572774	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	103373953	140572774	40342486	54	107974											
IRF4	3662	broad.mit.edu	37	chr6	401485	401485	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtgaaggagctgaccacgtcCagccccgagggctgccggat	8	5	15	13	3	0	2	0	2	0	0	1	5	1	4	5	3	3	2	5	3	1	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:401485C>T	uc003msz.3	+	7	920	c.807C>T	c.(805-807)TCC>TCT	p.S269S	IRF4_uc010jne.1_Silent_p.S269S|IRF4_uc003mta.3_RNA|IRF4_uc003mtb.3_Silent_p.S268S|IRF4_uc003mtc.1_Silent_p.S99S	NM_002460	NP_002451	Q15306	IRF4_HUMAN	interferon regulatory factor 4	269					interferon-gamma-mediated signaling pathway|positive regulation of interleukin-10 biosynthetic process|positive regulation of interleukin-13 biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-4 biosynthetic process|positive regulation of transcription, DNA-dependent|regulation of T-helper cell differentiation|T cell activation|type I interferon-mediated signaling pathway	cytoplasm	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(1)	1		Breast(5;0.0155)|all_lung(73;0.0691)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.03)|BRCA - Breast invasive adenocarcinoma(62;0.0702)		TGACCACGTCCAGCCCCGAGG	0.602			T	IGH@	MM 								31	32					0	0	0.760397	0	0		T	401485	T	T	401485	2	4	220	1	0	0	0	0	0	0	0	1	7848	581	21	4		4	IRF4	6	401485	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08		401485	170713582	55	107975											
NKAPL	222698	broad.mit.edu	37	chr6	28227881	28227882	+	Frame_Shift_Ins	INS	-	A	A																															aaaagaagaataagaaaaccINSaaaaaagaatccagtgactc																										TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:28227881_28227882insA	uc003nkt.2	+	1	784_785	c.732_733insA	c.(730-735)ACCAAAfs	p.T244fs	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	244_245	Lys-rich.									upper_aerodigestive_tract(1)|ovary(1)	2						ataagaaAACCAAAAAAGAATC	0.292													13	19	---	---	---	---						.	A	28227882	A	A	28227881	7	5	220	1	0	1	1	0	0	0	0	0	10459	581	21	0	734	0	NKAPL	6	28227881	Frame_Shift_Ins	INS	-	TCGA-IN-8663-01A-11D-2394-08	27826396	28227881	142887186	56	107976											
KIAA1949	170954	broad.mit.edu	37	chr6	30652350	30652350	+	Silent	SNP	A	C	C	1	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	gttggggtggctggggtcgcAgggggcacagaccgccgggg	4	5	23	9	3	0	1	0	0	0	1	1	1	0	1	2	9	0	4	2	9	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:30652350A>C	uc003nra.2	-	2	1677	c.1446T>G	c.(1444-1446)CCT>CCG	p.P482P	KIAA1949_uc003nrb.3_Silent_p.P482P	NM_001134870	NP_001128342	Q6NYC8	PHTNS_HUMAN	phostensin	482						cytoplasm|cytoskeleton	actin binding				0						CTGGGGTCGCAGGGGGCACAG	0.677													13	11					0	0	0.435327	0	0		C	30652350	C	C	30652350	2	2	220	1	0	0	0	0	0	0	0	1	8279	175	7	5		5	KIAA1949	6	30652350	Silent	SNP	A	TCGA-IN-8663-01A-11D-2394-08	2424469	30652350	140462717	57	107977											
DNAH8	1769	broad.mit.edu	37	chr6	38834386	38834386	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gaaccctggatatgctgggcGccaggaactaccagaaaacc	13	5	11	12	1	0	1	0	0	0	1	0	4	0	3	4	3	5	1	4	3	6	2	rs139579198		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:38834386G>A	uc003ooe.1	+	44	6467	c.5867G>A	c.(5866-5868)CGC>CAC	p.R1956H		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						TATGCTGGGCGCCAGGAACTA	0.323													13	31					0	0	0.411799	0	0		A	38834386	A	A	38834386	3	1	220	1	0	0	0	0	1	0	0	0	4613	1087	38	1	6033	1	DNAH8	6	38834386	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	8182036	38834386	132280681	58	107978											
DAAM2	23500	broad.mit.edu	37	chr6	39824229	39824229	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	acgcagaggagctcaacatcCgctttgcagagctggtggtc	9	8	13	11	2	1	2	1	0	0	2	3	3	2	3	1	3	4	5	1	3	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:39824229C>T	uc003oow.2	+	2	307	c.151C>T	c.(151-153)CGC>TGC	p.R51C	DAAM2_uc010jxc.2_Missense_Mutation_p.R51C|DAAM2_uc003oox.2_Missense_Mutation_p.R51C|DAAM2_uc003oov.3_Missense_Mutation_p.R51C|DAAM2_uc003ooy.3_Missense_Mutation_p.R51C	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of	51	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					GCTCAACATCCGCTTTGCAGA	0.617													2	2					0	0	0.115264	0	0		T	39824229	T	T	39824229	3	4	220	1	0	0	0	0	1	0	0	0	4219	652	23	1	153	1	DAAM2	6	39824229	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	989843	39824229	131290838	59	107979											
HTR1E	3354	broad.mit.edu	37	chr6	87725376	87725376	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gacatgacctgctgcacctgCtccatcctccacctctgtgt	6	11	7	17	0	1	1	0	1	1	0	4	2	4	1	6	0	3	3	6	0	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:87725376C>A	uc003pli.2	+	2	1027	c.324C>A	c.(322-324)TGC>TGA	p.C108*		NM_000865	NP_000856	P28566	5HT1E_HUMAN	5-hydroxytryptamine (serotonin) receptor 1E	108	Helical; Name=3; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane	protein binding|serotonin binding|serotonin receptor activity			ovary(2)|skin(1)	3		all_cancers(76;7.11e-06)|Acute lymphoblastic leukemia(125;1.2e-09)|Prostate(29;3.51e-09)|all_hematologic(105;7.43e-06)|all_epithelial(107;0.00819)		BRCA - Breast invasive adenocarcinoma(108;0.055)	Eletriptan(DB00216)	GCTGCACCTGCTCCATCCTCC	0.562													55	47					1.27862e-28	1.38385e-28	0.870114	1	0		A	87725376	A	A	87725376	4	1	220	1	0	0	0	0	0	1	0	0	7455	805	28	5	326	5	HTR1E	6	87725376	Nonsense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	47901147	87725376	83389691	60	107980											
SFRS13B	135295	broad.mit.edu	37	chr6	89816961	89816961	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gccatatcgaccaaactcacGgcgcaagtcctcaggcctga	11	6	9	15	3	2	1	2	1	0	0	4	2	3	1	4	2	1	1	4	2	3	1	rs138061111	by1000genomes	TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:89816961G>A	uc003pmy.3	-	2	276	c.82C>T	c.(82-84)CGT>TGT	p.R28C		NM_080743	NP_542781	Q8WXF0	SRS12_HUMAN	serine-arginine repressor protein	28	RRM.				assembly of spliceosomal tri-snRNP|cytoplasmic transport|negative regulation of nuclear mRNA splicing, via spliceosome|nuclear mRNA 5'-splice site recognition|regulation of alternative nuclear mRNA splicing, via spliceosome	nucleoplasm	nucleotide binding|RNA binding|RS domain binding|unfolded protein binding				0						CCAAACTCACGGCGCAAGTCC	0.398													31	31					0	0	0.729181	0	0		A	89816961	A	A	89816961	3	1	220	1	0	0	0	0	1	0	0	0	14194	1116	39	1	719	1	SFRS13B	6	89816961	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	2091585	89816961	81298106	61	107981											
IGF2R	3482	broad.mit.edu	37	chr6	160485874	160485874	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	acttcagattgttcctacttGtttgagtggcgaacgcagta	9	14	10	8	2	1	2	1	1	0	1	2	3	2	2	1	1	2	4	1	1	3	7			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr6:160485874G>C	uc003qta.2	+	29	4204	c.4056G>C	c.(4054-4056)TTG>TTC	p.L1352F		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1352	9.|Lumenal (Potential).				receptor-mediated endocytosis	cell surface|endocytic vesicle|endosome|integral to plasma membrane|lysosomal membrane|trans-Golgi network transport vesicle	glycoprotein binding|insulin-like growth factor receptor activity|phosphoprotein binding|transporter activity			ovary(3)	3		Breast(66;0.000777)|Ovarian(120;0.0305)		OV - Ovarian serous cystadenocarcinoma(65;2.45e-17)|BRCA - Breast invasive adenocarcinoma(81;1.09e-05)		GTTCCTACTTGTTTGAGTGGC	0.378													24	43					0	0	0.654019	0	0		C	160485874	C	C	160485874	3	2	220	1	0	0	0	0	1	0	0	0	7592	1368	48	5	4170	5	IGF2R	6	160485874	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	70668913	160485874	10629193	62	107982											
SDK1	221935	broad.mit.edu	37	chr7	4014046	4014046	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gccctgactccatcgagcacGtctaggatcgtggtggagaa	9	8	13	11	3	1	2	0	1	1	1	4	5	2	3	2	3	1	1	2	3	2	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:4014046G>A	uc003smx.2	+	13	2002	c.1863G>A	c.(1861-1863)ACG>ACA	p.T621T		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	621	Ig-like C2-type 6.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		CATCGAGCACGTCTAGGATCG	0.547													31	28					0	0	0.729181	0	0		A	4014046	A	A	4014046	2	1	220	1	0	0	0	0	0	0	0	1	13993	1132	40	1		1	SDK1	7	4014046	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08		4014046	155124617	63	107983											
LOC402644	402644	broad.mit.edu	37	chr7	28319234	28319234	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttttctgctgtctttggaaActtttctgcaaacagctcaa	9	16	7	9	0	4	0	1	0	3	0	4	1	4	1	0	1	5	4	0	1	3	5	rs177484	by1000genomes	TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:28319234A>C	uc010kuz.1	-	1	85	c.85T>G	c.(85-87)TTT>GTT	p.F29V		NM_001126493	NP_001119965			hypothetical protein LOC402644												0						GTCTTTGGAAACTTTTCTGCA	0.468													7	77					0	0	0.27861	0	0		C	28319234	C	C	28319234	3	2	220	1	0	0	0	0	1	0	0	0	8896	43	2	5	395	5	LOC402644	7	28319234	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	24305188	28319234	130819429	64	107984											
ABCA13	154664	broad.mit.edu	37	chr7	48654929	48654929	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	agactggccataatggttaaCggcagcttcaaatgtcttgg	11	11	11	8	1	2	1	1	0	1	1	2	1	2	1	1	4	2	3	1	4	3	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:48654929C>T	uc003toq.2	+	59	14818	c.14793C>T	c.(14791-14793)AAC>AAT	p.N4931N	ABCA13_uc010kys.1_Silent_p.N2006N|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Silent_p.N661N	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4931	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TAATGGTTAACGGCAGCTTCA	0.423													4	3					0	0	0.184627	0	0		T	48654929	T	T	48654929	2	4	220	1	0	0	0	0	0	0	0	1	31	535	19	1		1	ABCA13	7	48654929	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	20335695	48654929	110483734	65	107985											
MAGI2	9863	broad.mit.edu	37	chr7	77885499	77885499	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcacaatggttaaggtcataAgttcagcttgggtggcccca	10	11	11	9	0	3	0	3	0	0	0	3	0	3	0	2	4	1	3	2	4	3	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:77885499A>G	uc003ugx.2	-	10	2062	c.1808T>C	c.(1807-1809)CTT>CCT	p.L603P	MAGI2_uc003ugy.2_Missense_Mutation_p.L603P|MAGI2_uc010ldx.1_Missense_Mutation_p.L212P|MAGI2_uc010ldy.1_Missense_Mutation_p.L212P|MAGI2_uc011kgr.1_Missense_Mutation_p.L435P|MAGI2_uc011kgs.1_Missense_Mutation_p.L440P	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	603						cell junction|synapse|synaptosome	phosphatase binding			ovary(5)|lung(4)|breast(1)|skin(1)	11		all_cancers(73;0.0064)|all_epithelial(88;0.087)|all_neural(109;0.0936)|Medulloblastoma(109;0.166)|Melanoma(862;0.236)				TAAGGTCATAAGTTCAGCTTG	0.522													24	33					0	0	0.681144	0	0		G	77885499	G	G	77885499	3	3	220	1	0	0	0	0	1	0	0	0	9209	72	3	3	2611	3	MAGI2	7	77885499	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	29230570	77885499	81253164	66	107986											
PCLO	27445	broad.mit.edu	37	chr7	82582248	82582248	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgaaacctcagtcttggaaActtcagtagtgagaaactgt	13	11	9	8	0	3	2	2	2	1	1	3	4	3	3	1	1	3	1	1	1	4	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:82582248A>G	uc003uhx.2	-	5	8310	c.8021T>C	c.(8020-8022)GTT>GCT	p.V2674A	PCLO_uc003uhv.2_Missense_Mutation_p.V2674A|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2605					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGTCTTGGAAACTTCAGTAGT	0.458													26	49					0	0	0.681144	0	0		G	82582248	G	G	82582248	3	3	220	1	0	0	0	0	1	0	0	0	11602	43	2	3	7508	3	PCLO	7	82582248	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	4696749	82582248	76556415	67	107987											
PCLO	27445	broad.mit.edu	37	chr7	82584865	82584865	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttgattttttactagaacTctttctttgttgctgttcta	6	23	5	7	0	3	2	0	1	3	1	3	2	3	2	0	0	3	3	0	0	4	10			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:82584865T>C	uc003uhx.2	-	5	5693	c.5404A>G	c.(5404-5406)AGT>GGT	p.S1802G	PCLO_uc003uhv.2_Missense_Mutation_p.S1802G	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1733					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTACTAGAACTCTTTCTTTGT	0.373													82	85					0	0	0.870114	0	0		C	82584865	C	C	82584865	3	2	220	1	0	0	0	0	1	0	0	0	11602	1551	54	3	10125	3	PCLO	7	82584865	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	2617	82584865	76553798	68	107988											
SAMD9L	219285	broad.mit.edu	37	chr7	92760645	92760645	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ctgaataaacagatattactGgtatttttattttttcctct	11	20	4	6	0	1	2	0	1	1	1	2	2	2	2	1	1	2	1	1	1	7	10			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:92760645G>T	uc003umh.1	-	5	5856	c.4640C>A	c.(4639-4641)CCA>CAA	p.P1547Q	SAMD9L_uc003umj.1_Missense_Mutation_p.P1547Q|SAMD9L_uc003umi.1_Missense_Mutation_p.P1547Q|SAMD9L_uc010lfb.1_Missense_Mutation_p.P1547Q|SAMD9L_uc003umk.1_Missense_Mutation_p.P1547Q|SAMD9L_uc010lfc.1_Missense_Mutation_p.P1547Q|SAMD9L_uc010lfd.1_Missense_Mutation_p.P1547Q|SAMD9L_uc011khx.1_3'UTR	NM_152703	NP_689916	Q8IVG5	SAM9L_HUMAN	sterile alpha motif domain containing 9-like	1547										ovary(4)	4	all_cancers(62;4.15e-11)|all_epithelial(64;2.29e-10)|Breast(17;0.000675)|Lung NSC(181;0.0755)|all_lung(186;0.0989)		STAD - Stomach adenocarcinoma(171;0.000302)			AGATATTACTGGTATTTTTAT	0.393													83	33					1.91123e-38	2.0857e-38	0.870114	1	0		T	92760645	T	T	92760645	3	4	220	1	0	0	0	0	1	0	0	0	13852	1348	47	5	118	5	SAMD9L	7	92760645	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	10175780	92760645	66378018	69	107989											
TRRAP	8295	broad.mit.edu	37	chr7	98574180	98574180	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgggactgccagcccagcgcGctgaactgctttgtggaagc	7	7	14	13	3	0	1	0	1	0	0	0	3	0	3	2	2	6	2	2	2	2	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:98574180G>A	uc003upp.2	+	54	8222	c.8013G>A	c.(8011-8013)GCG>GCA	p.A2671A	TRRAP_uc011kis.1_Silent_p.A2653A|TRRAP_uc003upr.2_Silent_p.A2370A	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	2671					histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			AGCCCAGCGCGCTGAACTGCT	0.587													57	74					0	0	0.870114	0	0		A	98574180	A	A	98574180	2	1	220	1	0	0	0	0	0	0	0	1	16627	1074	38	1		1	TRRAP	7	98574180	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	5813535	98574180	60564483	70	107990											
PCOLCE	5118	broad.mit.edu	37	chr7	100204069	100204069	+	Silent	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tccgaagggaatgaactcctCgtccagttcgtctcagatct	9	11	9	12	3	2	2	1	1	2	1	8	4	5	3	3	1	1	1	3	1	3	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:100204069C>A	uc003uvo.2	+	6	954	c.756C>A	c.(754-756)CTC>CTA	p.L252L	uc011kjy.1_5'Flank|PCOLCE_uc010lhb.1_RNA|PCOLCE_uc003uvp.1_RNA	NM_002593	NP_002584	Q15113	PCOC1_HUMAN	procollagen C-endopeptidase enhancer	252	CUB 2.				multicellular organismal development	extracellular space	collagen binding|heparin binding|peptidase activator activity				0	Lung NSC(181;0.0261)|all_lung(186;0.0392)|Esophageal squamous(72;0.0439)					ATGAACTCCTCGTCCAGTTCG	0.627													17	59					1.99824e-07	2.05288e-07	0.520397	1	0		A	100204069	A	A	100204069	2	1	220	1	0	0	0	0	0	0	0	1	11613	871	31	5		5	PCOLCE	7	100204069	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	1629889	100204069	58934594	71	107991											
CUX1	1523	broad.mit.edu	37	chr7	101813812	101813812	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ctccagctggcctcacagatCcagaaggcaccagacgtggt	10	6	11	14	1	1	3	1	0	0	3	3	3	3	3	4	3	1	2	4	3	1	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:101813812C>G	uc003uyx.3	+	10	848	c.810C>G	c.(808-810)ATC>ATG	p.I270M	CUX1_uc003uys.3_Missense_Mutation_p.I281M|CUX1_uc003uyt.2_Missense_Mutation_p.I281M|CUX1_uc011kkn.1_Missense_Mutation_p.I244M|CUX1_uc003uyw.2_Missense_Mutation_p.I235M|CUX1_uc003uyv.2_Missense_Mutation_p.I265M|CUX1_uc003uyu.2_Missense_Mutation_p.I281M	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	270	Potential.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						CCTCACAGATCCAGAAGGCAC	0.607													5	5					0	0	0.184627	0	0		G	101813812	G	G	101813812	3	3	220	1	0	0	0	0	1	0	0	0	4067	845	30	5	915	5	CUX1	7	101813812	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	1609743	101813812	57324851	72	107992											
SLC26A4	5172	broad.mit.edu	37	chr7	107341590	107341590	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tataataagaggctgaaagcGctgaggaaaatacagaaact	19	7	10	5	1	0	4	0	2	0	2	0	5	0	5	0	2	3	2	0	2	8	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:107341590G>A	uc003vep.2	+	16	1976	c.1752G>A	c.(1750-1752)GCG>GCA	p.A584A	SLC26A4_uc011kmb.1_Silent_p.A171A|SLC26A4_uc011kmc.1_Silent_p.A145A|SLC26A4_uc011kmd.1_Silent_p.A153A	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	584	STAS.|Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						GGCTGAAAGCGCTGAGGAAAA	0.343									Pendred_syndrome				36	8					0	0	0.819951	0	0		A	107341590	A	A	107341590	2	1	220	1	0	0	0	0	0	0	0	1	14544	1074	38	1		1	SLC26A4	7	107341590	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	5527778	107341590	51797073	73	107993											
PPP1R3A	5506	broad.mit.edu	37	chr7	113519745	113519745	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agctcctccttcatgtttttTattaaggtttcctgccatta	7	19	5	10	0	1	0	1	0	0	0	4	0	4	0	4	1	2	3	4	1	3	7			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:113519745T>C	uc010ljy.1	-	4	1433	c.1402A>G	c.(1402-1404)AAA>GAA	p.K468E		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	468					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TCATGTTTTTTATTAAGGTTT	0.398													39	17					0	0	0.796494	0	0		C	113519745	C	C	113519745	3	2	220	1	0	0	0	0	1	0	0	0	12393	1763	61	3	1970	3	PPP1R3A	7	113519745	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	6178155	113519745	45618918	74	107994											
KCND2	3751	broad.mit.edu	37	chr7	119915642	119915642	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cctggggtacacactgaagaGttgtgcctcagaattgggct	9	10	13	9	0	1	3	1	1	0	2	1	3	1	3	2	3	2	3	2	3	3	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr7:119915642G>A	uc003vjj.1	+	1	1921	c.956G>A	c.(955-957)AGT>AAT	p.S319N		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	319	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					ACACTGAAGAGTTGTGCCTCA	0.522													52	8					0	0	0.870114	0	0		A	119915642	A	A	119915642	3	1	220	1	0	0	0	0	1	0	0	0	8035	1029	36	4	958	4	KCND2	7	119915642	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	6395897	119915642	39223021	75	107995											
WRN	7486	broad.mit.edu	37	chr8	30938648	30938648	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tacttggaaataaagtggaaCgaaaagaagatggatttgaa	19	9	11	2	1	0	3	0	1	0	2	0	7	0	6	0	3	2	0	0	3	9	4	rs17847577		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:30938648C>T	uc003xio.3	+	9	1893	c.1105C>T	c.(1105-1107)CGA>TGA	p.R369*	WRN_uc011lbd.1_Nonsense_Mutation_p.R72*|WRN_uc011lbe.1_5'Flank	NM_000553	NP_000544	Q14191	WRN_HUMAN	Werner syndrome protein	369					base-excision repair|cellular response to starvation|DNA recombination|DNA synthesis involved in DNA repair|multicellular organismal aging|nucleolus to nucleoplasm transport|positive regulation of hydrolase activity|regulation of apoptosis|replication fork processing|response to oxidative stress|response to UV-C|telomere maintenance	centrosome|nucleolus|nucleoplasm	3'-5' exonuclease activity|ATP binding|ATP-dependent 3'-5' DNA helicase activity|bubble DNA binding|four-way junction helicase activity|G-quadruplex DNA binding|magnesium ion binding|manganese ion binding|protein complex binding|protein homodimerization activity|Y-form DNA binding			ovary(2)|kidney(2)|large_intestine(1)|lung(1)|skin(1)	7		Breast(100;0.195)		KIRC - Kidney renal clear cell carcinoma(542;0.147)|Kidney(114;0.176)|Colorectal(111;0.192)		TAAAGTGGAACGAAAAGAAGA	0.343			Mis|N|F|S			osteosarcoma|meningioma|others		Genes_defective_in_diseases_associated_with_sensitivity_to_DNA_damaging_agents	Werner_syndrome				16	8					0	0	0.520397	0	0		T	30938648	T	T	30938648	4	4	220	1	0	0	0	0	0	1	0	0	17428	528	19	1	1135	1	WRN	8	30938648	Nonsense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08		30938648	115425374	76	107996											
NRG1	3084	broad.mit.edu	37	chr8	31498085	31498085	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggccaccccgccttcccctcCtgcgggaggctcaaggagga	6	5	13	17	2	1	0	1	0	0	0	3	3	3	3	7	5	1	1	7	5	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:31498085C>T	uc003xip.2	+	1	818	c.585C>T	c.(583-585)TCC>TCT	p.S195S		NM_013962	NP_039256	Q02297	NRG1_HUMAN	neuregulin 1 isoform GGF2	Error:Variant_position_missing_in_Q02297_after_alignment					activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|cardiac muscle cell differentiation|cell communication|cell proliferation|cellular protein complex disassembly|embryo development|mammary gland development|negative regulation of cardiac muscle cell apoptosis|negative regulation of secretion|negative regulation of transcription, DNA-dependent|nervous system development|neural crest cell development|Notch signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell adhesion|positive regulation of cell growth|positive regulation of striated muscle cell differentiation|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|transmembrane receptor protein tyrosine kinase signaling pathway|ventricular cardiac muscle cell differentiation|wound healing|wound healing	apical plasma membrane|extracellular region|extracellular space|integral to membrane|nucleus|plasma membrane	cytokine activity|ErbB-3 class receptor binding|growth factor activity|growth factor activity|protein binding|protein tyrosine kinase activator activity|receptor tyrosine kinase binding|transcription cofactor activity|transmembrane receptor protein tyrosine kinase activator activity				0		Breast(100;0.203)		KIRC - Kidney renal clear cell carcinoma(67;0.0768)|Kidney(114;0.0943)		CCTTCCCCTCCTGCGGGAGGC	0.682													11	10					0	0	0.38729	0	0		T	31498085	T	T	31498085	2	4	220	1	0	0	0	0	0	0	0	1	10666	668	24	4		4	NRG1	8	31498085	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	559437	31498085	114865937	77	107997											
VCPIP1	80124	broad.mit.edu	37	chr8	67577705	67577705	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	cctcagctgtccatgagtacTttttgccaggttatacaatt	9	15	7	10	0	1	1	1	1	0	0	2	1	2	1	3	1	4	3	3	1	4	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:67577705T>C	uc003xwn.2	-	1	1748	c.1489A>G	c.(1489-1491)AGT>GGT	p.S497G	SGK3_uc003xwp.2_5'Flank|C8orf44_uc003xwo.1_5'Flank	NM_025054	NP_079330	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex	497					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			lung(2)|ovary(2)|central_nervous_system(1)|breast(1)|skin(1)|kidney(1)	8		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CCATGAGTACTTTTTGCCAGG	0.428													244	198					0	0	0.870114	0	0		C	67577705	C	C	67577705	3	2	220	1	0	0	0	0	1	0	0	0	17167	1609	56	3	2191	3	VCPIP1	8	67577705	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	36079620	67577705	78786317	78	107998											
PRDM14	63978	broad.mit.edu	37	chr8	70981763	70981763	+	Silent	SNP	C	A	A	0	0	0	1	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	ctgctgctcaggaagggcggCacttccctggggacgtgggg	5	7	18	11	2	1	0	1	0	0	0	2	2	2	2	1	7	2	3	1	7	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:70981763C>A	uc003xym.2	-	2	535	c.333G>T	c.(331-333)GTG>GTT	p.V111V		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	111					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			GGAAGGGCGGCACTTCCCTGG	0.627													11	39					2.80697e-09	2.90643e-09	0.38729	1	0		A	70981763	A	A	70981763	2	1	220	1	0	0	0	0	0	0	0	1	12477	697	25	5		5	PRDM14	8	70981763	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	3404058	70981763	75382259	79	107999											
KCNB2	9312	broad.mit.edu	37	chr8	73480224	73480224	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactataatctgaacgagaaCgagtatttctttgatcggca	13	12	9	7	3	2	3	0	2	2	1	3	6	2	3	0	1	2	2	0	1	5	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:73480224C>G	uc003xzb.2	+	2	843	c.255C>G	c.(253-255)AAC>AAG	p.N85K		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	85	Cytoplasmic (Potential).				regulation of smooth muscle contraction	voltage-gated potassium channel complex	delayed rectifier potassium channel activity|protein binding			skin(3)|large_intestine(1)|pancreas(1)|ovary(1)|central_nervous_system(1)	7	Breast(64;0.137)		Epithelial(68;0.105)			TGAACGAGAACGAGTATTTCT	0.512													93	96					0	0	0.870114	0	0		G	73480224	G	G	73480224	3	3	220	1	0	0	0	0	1	0	0	0	8029	535	19	5	257	5	KCNB2	8	73480224	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	2498461	73480224	72883798	80	108000											
CNBD1	168975	broad.mit.edu	37	chr8	88296940	88296940	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacctttgggactctggaagTtatgcctcagaatgaatcgg	10	12	11	8	1	2	2	1	1	1	1	3	4	2	4	2	3	2	1	2	3	5	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:88296940T>G	uc003ydy.2	+	7	854	c.806T>G	c.(805-807)GTT>GGT	p.V269G		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	269										ovary(3)	3						ACTCTGGAAGTTATGCCTCAG	0.388													23	9					0	0	0.639603	0	0		G	88296940	G	G	88296940	3	3	220	1	0	0	0	0	1	0	0	0	3594	1725	60	5	832	5	CNBD1	8	88296940	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	14816716	88296940	58067082	81	108001											
DPYS	1807	broad.mit.edu	37	chr8	105436539	105436539	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tacagctattcttccttttcTtggatagagattaaaaattt	12	18	5	6	0	2	1	0	0	2	1	3	3	3	2	1	1	2	1	1	1	6	10			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:105436539T>C	uc003yly.3	-	7	1300	c.1171A>G	c.(1171-1173)AGA>GGA	p.R391G		NM_001385	NP_001376	Q14117	DPYS_HUMAN	dihydropyrimidinase	391					protein homotetramerization|pyrimidine nucleoside catabolic process|thymine catabolic process|uracil catabolic process	cytosol	dihydropyrimidinase activity|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CTTCCTTTTCTTGGATAGAGA	0.373													68	111					0	0	0.870114	0	0		C	105436539	C	C	105436539	3	2	220	1	0	0	0	0	1	0	0	0	4752	1617	56	3	400	3	DPYS	8	105436539	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	17139599	105436539	40927483	82	108002											
ZFPM2	23414	broad.mit.edu	37	chr8	106813482	106813482	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccatgtccctagcggcaaacTtcccagagaaagtgacatgg	12	7	10	12	1	0	2	0	1	0	1	2	3	2	2	3	2	2	1	3	2	3	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:106813482T>G	uc003ymd.2	+	8	1195	c.1172T>G	c.(1171-1173)CTT>CGT	p.L391R	ZFPM2_uc011lhs.1_Missense_Mutation_p.L122R|uc003yme.1_5'Flank	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	391					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			AGCGGCAAACTTCCCAGAGAA	0.517													48	414					0	0	0.859065	0	0		G	106813482	G	G	106813482	3	3	220	1	0	0	0	0	1	0	0	0	17683	1609	56	5	1202	5	ZFPM2	8	106813482	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	1376943	106813482	39550540	83	108003											
SYBU	55638	broad.mit.edu	37	chr8	110592127	110592127	+	Missense_Mutation	SNP	T	G	G	0	1	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	ggatattgacagggctcagcTgattcctgcacagcatggac	10	9	12	10	0	1	2	1	2	0	0	2	4	2	4	1	3	3	4	1	3	1	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:110592127T>G	uc003ynj.3	-	5	798	c.635A>C	c.(634-636)CAG>CCG	p.Q212P	SYBU_uc003yni.3_Missense_Mutation_p.Q209P|SYBU_uc003ynk.3_Missense_Mutation_p.Q93P|SYBU_uc010mco.2_Missense_Mutation_p.Q211P|SYBU_uc003ynl.3_Missense_Mutation_p.Q211P|SYBU_uc010mcp.2_Missense_Mutation_p.Q212P|SYBU_uc010mcq.2_Missense_Mutation_p.Q212P|SYBU_uc003yno.3_Missense_Mutation_p.Q93P|SYBU_uc010mcr.2_Missense_Mutation_p.Q212P|SYBU_uc003ynm.3_Missense_Mutation_p.Q211P|SYBU_uc003ynn.3_Missense_Mutation_p.Q211P|SYBU_uc010mcs.2_Missense_Mutation_p.Q93P|SYBU_uc010mct.2_Missense_Mutation_p.Q212P|SYBU_uc010mcu.2_Missense_Mutation_p.Q211P|SYBU_uc003ynp.3_Missense_Mutation_p.Q144P|SYBU_uc010mcv.2_Missense_Mutation_p.Q212P|SYBU_uc003ynh.3_Missense_Mutation_p.Q6P|SYBU_uc011lhw.1_Missense_Mutation_p.Q82P	NM_001099754	NP_001093224	Q9NX95	SYBU_HUMAN	Golgi-localized syntaphilin-related protein	212	Sufficient for interaction with KIF5B.|Ser-rich.					cytoplasmic membrane-bounded vesicle|cytoskeleton|Golgi membrane|integral to membrane				ovary(1)	1						AGGGCTCAGCTGATTCCTGCA	0.557													92	322					0	0	0.870114	0	0		G	110592127	G	G	110592127	3	3	220	1	0	0	0	0	1	0	0	0	15452	1580	55	5	1368	5	SYBU	8	110592127	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	3778645	110592127	35771895	84	108004											
CSMD3	114788	broad.mit.edu	37	chr8	113933891	113933891	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtgatcactccaagcagcaAaaacttcagctatccgttga	13	10	7	11	1	2	2	2	2	0	0	4	2	4	2	2	0	4	4	2	0	4	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:113933891A>C	uc003ynu.2	-	10	1757	c.1598T>G	c.(1597-1599)TTT>TGT	p.F533C	CSMD3_uc003ynt.2_Missense_Mutation_p.F493C|CSMD3_uc011lhx.1_Missense_Mutation_p.F429C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	533	Extracellular (Potential).|Sushi 2.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CCAAGCAGCAAAAACTTCAGC	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			75	71					0	0	0.870114	0	0		C	113933891	C	C	113933891	3	2	220	1	0	0	0	0	1	0	0	0	3949	14	1	5	9773	5	CSMD3	8	113933891	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	3341764	113933891	32430131	85	108005											
TRPS1	7227	broad.mit.edu	37	chr8	116426893	116426893	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcaggtctcatgtacttttcTataggactgcctctctcaga	8	14	8	11	0	4	1	2	0	3	1	6	2	4	2	1	2	2	2	1	2	3	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr8:116426893T>C	uc003ynz.2	-	6	3663	c.3204A>G	c.(3202-3204)ATA>ATG	p.I1068M	TRPS1_uc011lhy.1_Missense_Mutation_p.I1072M|TRPS1_uc003yny.2_Missense_Mutation_p.I1081M|TRPS1_uc010mcy.2_Missense_Mutation_p.I1068M	NM_014112	NP_054831	Q9UHF7	TRPS1_HUMAN	zinc finger transcription factor TRPS1	1068	Mediates interaction with RNF4 (By similarity).				negative regulation of transcription from RNA polymerase II promoter|NLS-bearing substrate import into nucleus|regulation of chondrocyte differentiation|skeletal system development|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(2)|pancreas(1)|lung(1)|kidney(1)	7	all_cancers(13;5.44e-23)|all_epithelial(1;2.14e-27)|Lung NSC(37;2.55e-05)|Ovarian(258;0.0219)		Epithelial(1;9.78e-37)|all cancers(1;3.14e-31)|BRCA - Breast invasive adenocarcinoma(1;2.56e-12)			TGTACTTTTCTATAGGACTGC	0.428									Langer-Giedion_syndrome				125	197					0	0	0.870114	0	0		C	116426893	C	C	116426893	3	2	220	1	0	0	0	0	1	0	0	0	16619	1512	53	3	645	3	TRPS1	8	116426893	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	2493002	116426893	29937129	86	108006											
PTPRD	5789	broad.mit.edu	37	chr9	8389280	8389280	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atgacaactgtggcactccgTtgttcccatatcattctcca	9	13	6	13	1	2	1	1	1	1	0	5	1	4	1	3	1	1	3	3	1	2	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:8389280T>C	uc003zkk.2	-	36	5049	c.4338A>G	c.(4336-4338)CAA>CAG	p.Q1446Q	PTPRD_uc003zkp.2_Silent_p.Q1040Q|PTPRD_uc003zkq.2_Silent_p.Q1039Q|PTPRD_uc003zkr.2_Silent_p.Q1030Q|PTPRD_uc003zks.2_Silent_p.Q1039Q|PTPRD_uc003zkl.2_Silent_p.Q1437Q|PTPRD_uc003zkm.2_Silent_p.Q1433Q|PTPRD_uc003zkn.2_Silent_p.Q1035Q|PTPRD_uc003zko.2_Silent_p.Q1036Q	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	1446	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 1.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(14)|large_intestine(3)|ovary(2)|breast(2)|urinary_tract(1)	22		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)		TGGCACTCCGTTGTTCCCATA	0.413										TSP Lung(15;0.13)			97	109					0	0	0.870114	0	0		C	8389280	C	C	8389280	2	2	220	1	0	0	0	0	0	0	0	1	12824	1722	60	3		3	PTPRD	9	8389280	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08		8389280	132824151	87	108007											
CDKN2A	1029	broad.mit.edu	37	chr9	21971000	21971000	+	Nonsense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gacatcgcgatggcccagctCctcagccaggtccacgggca	8	5	12	16	3	1	0	1	0	0	0	4	2	3	0	4	3	2	2	4	3	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:21971000C>A	uc003zpk.2	-	2	570	c.358G>T	c.(358-360)GAG>TAG	p.E120*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_3'UTR	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	120	ANK 4.		E -> A (in non-small cell lung carcinoma).|E -> K (in non-small cell lung carcinoma).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(13)|p.E120*(8)|p.E120K(4)|p.E120A(1)|p.A118fs*10(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TGGCCCAGCTCCTCAGCCAGG	0.726		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			30	38					3.73148e-12	3.94128e-12	0.717897	1	0		A	21971000	A	A	21971000	4	1	220	1	0	0	0	0	0	1	0	0	3164	864	30	5	120	5	CDKN2A	9	21971000	Nonsense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	13581720	21971000	119242431	88	108008											
TMEM215	401498	broad.mit.edu	37	chr9	32784496	32784496	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagacctagaatccggcaaGgggagctcagatgagctggc	11	6	14	10	1	2	4	2	1	0	3	3	5	3	5	2	4	2	3	2	4	3	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:32784496G>A	uc003zri.3	+	2	680	c.315G>A	c.(313-315)AAG>AAA	p.K105K		NM_212558	NP_997723	Q68D42	TM215_HUMAN	transmembrane protein 215	105						integral to membrane					0						AATCCGGCAAGGGGAGCTCAG	0.612													34	62					0	0	0.769981	0	0		A	32784496	A	A	32784496	2	1	220	1	0	0	0	0	0	0	0	1	16163	991	35	4		4	TMEM215	9	32784496	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	10813496	32784496	108428935	89	108009											
FBP1	2203	broad.mit.edu	37	chr9	97369109	97369109	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tcacttactggggggaacttCttcctctggatgtactcagt	7	14	10	10	0	4	0	2	0	2	0	5	2	5	2	1	4	3	1	1	4	3	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:97369109C>T	uc004auw.3	-	5	1024	c.693G>A	c.(691-693)AAG>AAA	p.K231K	FBP1_uc010mrl.2_Silent_p.K231K	NM_000507	NP_000498	P09467	F16P1_HUMAN	fructose-1,6-bisphosphatase 1	231					gluconeogenesis	cytosol	fructose 1,6-bisphosphate 1-phosphatase activity|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding|metal ion binding				0		Acute lymphoblastic leukemia(62;0.136)			Adenosine monophosphate(DB00131)	GGGGGAACTTCTTCCTCTGGA	0.562													17	27					0	0	0.500413	0	0		T	97369109	T	T	97369109	2	4	220	1	0	0	0	0	0	0	0	1	5719	912	32	4		4	FBP1	9	97369109	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	64584613	97369109	43844322	90	108010											
MUSK	4593	broad.mit.edu	37	chr9	113550077	113550077	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctttcagagggaggcagcccTcatggcagaatttgacaacc	11	8	11	11	0	2	3	2	1	0	2	2	4	2	4	2	3	2	2	2	3	2	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:113550077T>C	uc004bey.2	+	13	1984	c.1886T>C	c.(1885-1887)CTC>CCC	p.L629P	MUSK_uc004bez.1_Missense_Mutation_p.L209P	NM_005592	NP_005583	O15146	MUSK_HUMAN	skeletal muscle receptor tyrosine kinase	629	Protein kinase.|Cytoplasmic (Potential).				transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|ovary(2)|central_nervous_system(1)	6						GAGGCAGCCCTCATGGCAGAA	0.428													17	21					0	0	0.557998	0	0		C	113550077	C	C	113550077	3	2	220	1	0	0	0	0	1	0	0	0	10007	1551	54	3	1972	3	MUSK	9	113550077	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	16180968	113550077	27663354	91	108011											
SPTAN1	6709	broad.mit.edu	37	chr9	131329241	131329241	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	tctgatgagaattataaagaCccaaccaacttgcaggtacg	15	9	8	9	1	1	3	0	2	1	2	1	4	1	3	2	1	4	2	2	1	7	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:131329241C>G	uc004bvl.3	+	2	335	c.222C>G	c.(220-222)GAC>GAG	p.D74E	SPTAN1_uc011mbg.1_Missense_Mutation_p.D74E|SPTAN1_uc011mbh.1_Missense_Mutation_p.D86E|SPTAN1_uc004bvm.3_Missense_Mutation_p.D74E|SPTAN1_uc004bvn.3_Missense_Mutation_p.D74E	NM_003127	NP_003118	Q13813	SPTA2_HUMAN	spectrin, alpha, non-erythrocytic 1	74	Spectrin 2.				actin filament capping|axon guidance|cellular component disassembly involved in apoptosis	cytosol|intracellular membrane-bounded organelle|membrane fraction|microtubule cytoskeleton|spectrin	actin binding|calcium ion binding|calmodulin binding|structural constituent of cytoskeleton			breast(5)|ovary(4)|pancreas(1)	10						ATTATAAAGACCCAACCAACT	0.398													29	57					0	0	0.740014	0	0		G	131329241	G	G	131329241	3	3	220	1	0	0	0	0	1	0	0	0	15142	506	18	5	224	5	SPTAN1	9	131329241	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	17779164	131329241	9884190	92	108012											
ABL1	25	broad.mit.edu	37	chr9	133738348	133738348	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	ccatgaagcacaagctgggcGggggccagtacggggaggtg	9	4	19	9	2	0	1	0	1	0	0	0	2	0	2	2	6	3	3	2	6	3	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:133738348G>A	uc004bzw.2	+	4	751	c.748G>A	c.(748-750)GGG>AGG	p.G250R	ABL1_uc004bzv.2_Missense_Mutation_p.G269R|uc004bzx.1_5'Flank	NM_005157	NP_005148	P00519	ABL1_HUMAN	c-abl oncogene 1, receptor tyrosine kinase	250	Protein kinase.|ATP.				actin cytoskeleton organization|axon guidance|blood coagulation|cell adhesion|DNA damage induced protein phosphorylation|DNA damage response, signal transduction resulting in induction of apoptosis|mismatch repair|muscle cell differentiation|negative regulation of protein serine/threonine kinase activity|peptidyl-tyrosine phosphorylation|positive regulation of muscle cell differentiation|positive regulation of oxidoreductase activity|regulation of transcription involved in S phase of mitotic cell cycle	cytoskeleton|cytosol|nuclear membrane|nucleolus|perinuclear region of cytoplasm	ATP binding|DNA binding|magnesium ion binding|manganese ion binding|mitogen-activated protein kinase binding|non-membrane spanning protein tyrosine kinase activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding	p.G250E(72)		haematopoietic_and_lymphoid_tissue(807)|lung(5)|stomach(2)|central_nervous_system(1)|breast(1)|skin(1)	817		all_hematologic(13;0.0361)|Acute lymphoblastic leukemia(5;0.0543)|Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.4e-05)	Adenosine triphosphate(DB00171)|Dasatinib(DB01254)|Imatinib(DB00619)	CAAGCTGGGCGGGGGCCAGTA	0.612			T|Mis	BCR|ETV6|NUP214	CML|ALL|T-ALL								37	46					0	0	0.779181	0	0		A	133738348	A	A	133738348	3	1	220	1	0	0	0	0	1	0	0	0	92	1116	39	1	902	1	ABL1	9	133738348	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	2409107	133738348	7475083	93	108013											
DBH	1621	broad.mit.edu	37	chr9	136501612	136501612	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ggtggccgcactgcagggctCggctccccgtgagagccccc	4	5	15	17	3	0	1	0	1	0	1	2	2	1	1	5	4	2	4	5	4	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr9:136501612C>T	uc004cel.2	+	1	128	c.119C>T	c.(118-120)TCG>TTG	p.S40L		NM_000787	NP_000778	P09172	DOPO_HUMAN	dopamine beta hydroxylase precursor	40	Intragranular (Potential).				hormone biosynthetic process	chromaffin granule lumen|chromaffin granule membrane|extracellular region|integral to membrane|membrane fraction|soluble fraction|transport vesicle membrane	dopamine beta-monooxygenase activity|L-ascorbic acid binding			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(145;2.33e-07)|Epithelial(140;1.5e-06)|all cancers(34;1.66e-05)	Dopamine(DB00988)|Vitamin C(DB00126)	CTGCAGGGCTCGGCTCCCCGT	0.662													24	48					0	0	0.654019	0	0		T	136501612	T	T	136501612	3	4	220	1	0	0	0	0	1	0	0	0	4253	893	31	1	121	1	DBH	9	136501612	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	2763264	136501612	4711819	94	108014											
CUBN	8029	broad.mit.edu	37	chr10	16957886	16957886	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agaagaattctgaaggttaaAgtcttcaaaagagatggtga	17	10	11	3	0	3	5	1	2	2	3	3	6	3	5	0	2	0	1	0	2	7	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:16957886A>G	uc001ioo.2	-	46	7196	c.7144T>C	c.(7144-7146)TTT>CTT	p.F2382L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2382	CUB 17.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)|kidney(1)	19					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	TGAAGGTTAAAGTCTTCAAAA	0.423													53	77					0	0	0.870114	0	0		G	16957886	G	G	16957886	3	3	220	1	0	0	0	0	1	0	0	0	4054	72	3	3	3815	3	CUBN	10	16957886	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08		16957886	118576861	95	108015											
GPR158	57512	broad.mit.edu	37	chr10	25861698	25861698	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtttctcattggctggacTtcatctgtgtgccagaattt	6	17	10	8	0	3	1	2	0	2	1	4	2	3	2	1	3	1	2	1	3	1	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:25861698T>G	uc001isj.2	+	7	1695	c.1635T>G	c.(1633-1635)ACT>ACG	p.T545T		NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	545	Helical; Name=4; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TTGGCTGGACTTCATCTGTGT	0.473													32	42					0	0	0.750413	0	0		G	25861698	G	G	25861698	2	3	220	1	0	0	0	0	0	0	0	1	6678	1596	56	5		5	GPR158	10	25861698	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	8903812	25861698	109673049	96	108016											
MASTL	84930	broad.mit.edu	37	chr10	27459533	27459533	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agaatagtaagagggactacTtaagttctagttttctatgt	13	15	9	4	0	2	2	0	0	2	2	2	3	2	3	0	1	1	3	0	1	7	9			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:27459533T>A	uc001itm.2	+	8	2284	c.1645T>A	c.(1645-1647)TTA>ATA	p.L549I	MASTL_uc001itl.2_Missense_Mutation_p.L549I|MASTL_uc009xkw.1_Missense_Mutation_p.L549I|MASTL_uc009xkx.1_RNA	NM_032844	NP_116233	Q96GX5	GWL_HUMAN	microtubule associated serine/threonine	549	Protein kinase.				cell division|G2/M transition of mitotic cell cycle|mitosis|negative regulation of protein phosphatase type 2A activity|regulation of cell cycle|response to DNA damage stimulus	centrosome|cleavage furrow|nucleus	ATP binding|protein phosphatase 2A binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						GAGGGACTACTTAAGTTCTAG	0.318													52	60					0	0	0.870114	0	0		A	27459533	A	A	27459533	3	1	220	1	0	0	0	0	1	0	0	0	9346	1606	56	5	1675	5	MASTL	10	27459533	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	1597835	27459533	108075214	97	108017											
KIAA1462	57608	broad.mit.edu	37	chr10	30316027	30316027	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tgtcaaacttccgagggaccGcttcacttggtttcacagag	9	11	10	11	2	3	1	3	0	0	1	4	3	4	2	2	2	1	2	2	2	1	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:30316027G>C	uc001iux.2	-	2	3109	c.3050C>G	c.(3049-3051)GCG>GGG	p.A1017G	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.A879G|KIAA1462_uc009xle.1_Missense_Mutation_p.A1017G	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1017										ovary(4)	4						CCGAGGGACCGCTTCACTTGG	0.572													69	119					0	0	0.870114	0	0		C	30316027	C	C	30316027	3	2	220	1	0	0	0	0	1	0	0	0	8250	1087	38	5	1037	5	KIAA1462	10	30316027	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	2856494	30316027	105218720	98	108018											
ZNF25	219749	broad.mit.edu	37	chr10	38241394	38241394	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	aatgttttcccacatttattAcattcaaagggtttctcccc	10	16	4	11	0	2	0	1	0	1	0	4	0	3	0	3	1	1	2	3	1	4	7			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:38241394A>G	uc001ize.1	-	6	1137	c.1032T>C	c.(1030-1032)TGT>TGC	p.C344C	ZNF25_uc001izf.1_Silent_p.C308C	NM_145011	NP_659448	P17030	ZNF25_HUMAN	zinc finger protein 25	344	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|ovary(1)|central_nervous_system(1)	4		all_neural(218;0.0218)|Breast(68;0.0389)|Ovarian(717;0.0443)|Renal(717;0.157)				CACATTTATTACATTCAAAGG	0.408													45	38					0	0	0.853193	0	0		G	38241394	G	G	38241394	2	3	220	1	0	0	0	0	0	0	0	1	17819	389	14	3		3	ZNF25	10	38241394	Silent	SNP	A	TCGA-IN-8663-01A-11D-2394-08	7925367	38241394	97293353	99	108019											
ZNF33A	7581	broad.mit.edu	37	chr10	38345147	38345147	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cctatgaatgcaatgaatgtGggaaattcttcaggcacaaa	15	10	9	7	0	2	2	1	2	1	0	2	3	2	3	1	2	1	2	1	2	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:38345147G>A	uc001izh.2	+	5	2270	c.2092G>A	c.(2092-2094)GGG>AGG	p.G698R	ZNF33A_uc001izg.2_Missense_Mutation_p.G699R|ZNF33A_uc010qev.1_Missense_Mutation_p.G705R|ZNF33A_uc001izi.1_Intron	NM_006974	NP_008905	Q06730	ZN33A_HUMAN	zinc finger protein 33A isoform b	698	C2H2-type 14.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|skin(1)	3						CAATGAATGTGGGAAATTCTT	0.383													50	97					0	0	0.870114	0	0		A	38345147	A	A	38345147	3	1	220	1	0	0	0	0	1	0	0	0	17879	1348	47	4	2109	4	ZNF33A	10	38345147	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	103753	38345147	97189600	100	108020											
STOX1	219736	broad.mit.edu	37	chr10	70644497	70644497	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aagaagtttggttttagtctCttatggcgcagcttatctag	9	16	10	6	1	2	1	0	0	2	1	3	1	2	1	0	2	1	4	0	2	6	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:70644497C>G	uc001jos.2	+	3	1032	c.945C>G	c.(943-945)CTC>CTG	p.L315L	STOX1_uc001jor.2_Intron|STOX1_uc009xpy.2_Intron|STOX1_uc001joq.2_Silent_p.L205L	NM_001130161	NP_001123633	Q6ZVD7	STOX1_HUMAN	storkhead box 1 isoform a	315						cytoplasm|nucleolus	DNA binding			kidney(1)|skin(1)	2						GTTTTAGTCTCTTATGGCGCA	0.463													59	84					0	0	0.870114	0	0		G	70644497	G	G	70644497	2	3	220	1	0	0	0	0	0	0	0	1	15344	900	32	5		5	STOX1	10	70644497	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	32299350	70644497	64890250	101	108021											
AIFM2	84883	broad.mit.edu	37	chr10	71876494	71876494	+	Missense_Mutation	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgatgtactctcgatactcaTtgagaggcagctcctccaga	10	11	9	11	1	2	3	1	2	1	2	5	5	4	3	2	1	3	3	2	1	2	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:71876494T>C	uc010qjg.1	-	6	666	c.653A>G	c.(652-654)AAT>AGT	p.N218S	AIFM2_uc001jqp.1_Missense_Mutation_p.N218S	NM_032797	NP_116186	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor (AIF)-like	218					apoptotic mitochondrial changes|chromosome condensation|induction of apoptosis	cytosol|integral to membrane|mitochondrial outer membrane	DNA binding|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding			central_nervous_system(1)	1						TCGATACTCATTGAGAGGCAG	0.582											OREG0020234	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	77	91					0	0	0.870114	0	0		C	71876494	C	C	71876494	3	2	220	1	0	0	0	0	1	0	0	0	427	1493	52	3	480	3	AIFM2	10	71876494	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	1231997	71876494	63658253	102	108022											
KCNMA1	3778	broad.mit.edu	37	chr10	78674744	78674744	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagttgtgatggatggttgaCgtaacatcccgtgcactggg	8	11	14	8	2	0	2	0	2	0	0	1	3	1	3	1	3	2	4	1	3	1	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:78674744C>T	uc001jxn.2	-	24	3143	c.2966G>A	c.(2965-2967)CGT>CAT	p.R989H	KCNMA1_uc001jxj.2_Missense_Mutation_p.R935H|KCNMA1_uc001jxk.1_Missense_Mutation_p.R607H|KCNMA1_uc009xrt.1_Missense_Mutation_p.R780H|KCNMA1_uc001jxl.1_Missense_Mutation_p.R614H|KCNMA1_uc001jxo.2_Missense_Mutation_p.R972H|KCNMA1_uc001jxm.2_Missense_Mutation_p.R931H|KCNMA1_uc001jxq.2_Missense_Mutation_p.R934H	NM_001161352	NP_001154824	Q12791	KCMA1_HUMAN	large conductance calcium-activated potassium	989	Cytoplasmic (Potential).				cellular potassium ion homeostasis|negative regulation of cell volume|platelet activation|positive regulation of apoptosis|regulation of membrane potential|response to calcium ion|response to carbon monoxide|response to hypoxia|response to osmotic stress|smooth muscle contraction involved in micturition	apical plasma membrane|caveola|integral to membrane|voltage-gated potassium channel complex	actin binding|calcium-activated potassium channel activity|large conductance calcium-activated potassium channel activity|metal ion binding|voltage-gated potassium channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.203)|all_epithelial(25;0.00604)|Prostate(51;0.0198)		OV - Ovarian serous cystadenocarcinoma(4;0.0586)|Epithelial(14;0.081)|all cancers(16;0.183)		Bendroflumethiazide(DB00436)|Benzthiazide(DB00562)|Chlorothiazide(DB00880)|Chlorzoxazone(DB00356)|Cromoglicate(DB01003)|Cyclothiazide(DB00606)|Diazoxide(DB01119)|Enflurane(DB00228)|Hydrochlorothiazide(DB00999)|Hydroflumethiazide(DB00774)|Methyclothiazide(DB00232)|Quinethazone(DB01325)|Trichlormethiazide(DB01021)	GGATGGTTGACGTAACATCCC	0.483													117	171					0	0	0.870114	0	0		T	78674744	T	T	78674744	3	4	220	1	0	0	0	0	1	0	0	0	8089	536	19	1	793	1	KCNMA1	10	78674744	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	6798250	78674744	56860003	103	108023											
ZMIZ1	57178	broad.mit.edu	37	chr10	81052014	81052014	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcggcagccgctgcagcagcGgcagtggcagcagcagcagc	8	2	17	14	3	0	0	0	0	0	0	0	0	0	0	1	3	8	9	1	3	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:81052014G>A	uc001kaf.2	+	11	1430	c.858G>A	c.(856-858)GCG>GCA	p.A286A	ZMIZ1_uc001kag.2_Silent_p.A162A|ZMIZ1_uc001kah.1_Silent_p.A162A	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17	286	Ala-rich.				transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			ctgcagcagcggcagtggcag	0.502													76	83					0	0	0.870114	0	0		A	81052014	A	A	81052014	2	1	220	1	0	0	0	0	0	0	0	1	17721	1103	39	1		1	ZMIZ1	10	81052014	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	2377270	81052014	54482733	104	108024											
CDHR1	92211	broad.mit.edu	37	chr10	85974024	85974024	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tgcggcgggtgctccgcaagCggcccagccctgcgccccgc	3	4	15	19	6	0	0	0	0	0	0	1	0	1	0	5	3	5	2	5	3	1	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:85974024C>T	uc001kcv.2	+	17	2227	c.2227C>T	c.(2227-2229)CGG>TGG	p.R743W	CDHR1_uc001kcw.2_Intron|CDHR1_uc009xst.2_Missense_Mutation_p.R447W|CDHR1_uc001kcx.2_Missense_Mutation_p.R57W	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	743	Cytoplasmic (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						GCTCCGCAAGCGGCCCAGCCC	0.602													20	54					0	0	0.608945	0	0		T	85974024	T	T	85974024	3	4	220	1	0	0	0	0	1	0	0	0	3121	759	27	1	2293	1	CDHR1	10	85974024	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	4922010	85974024	49560723	105	108025											
ATRNL1	26033	broad.mit.edu	37	chr10	117026352	117026352	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aagcctccaaattgcaaggcTttcagagatgaagaactttg	14	10	9	8	0	1	3	1	1	0	2	2	4	2	3	2	1	3	2	2	1	5	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:117026352T>C	uc001lcg.2	+	12	2237	c.1851T>C	c.(1849-1851)GCT>GCC	p.A617A		NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	617	PSI 1.|Kelch 6.|Extracellular (Potential).					integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		ATTGCAAGGCTTTCAGAGATG	0.333													76	78					0	0	0.870114	0	0		C	117026352	C	C	117026352	2	2	220	1	0	0	0	0	0	0	0	1	1208	1596	56	3		3	ATRNL1	10	117026352	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	31052328	117026352	18508395	106	108026											
ADAM12	8038	broad.mit.edu	37	chr10	127724751	127724751	+	Missense_Mutation	SNP	T	G	G	0	1	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	gcaggcttggctggcaggggTctggcagggacgctaggtgc	5	7	20	9	1	1	0	0	0	1	0	1	1	1	1	0	8	1	6	0	8	1	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr10:127724751T>G	uc001ljk.2	-	21	2915	c.2502A>C	c.(2500-2502)AGA>AGC	p.R834S	ADAM12_uc010qul.1_Missense_Mutation_p.R785S	NM_003474	NP_003465	O43184	ADA12_HUMAN	ADAM metallopeptidase domain 12 isoform 1	834	SH3-binding; class II (By similarity).|SH3-binding; class I (By similarity).|Cytoplasmic (Potential).				cell adhesion|epidermal growth factor receptor signaling pathway|myoblast fusion|proteolysis	extracellular region|integral to membrane|plasma membrane	metalloendopeptidase activity|protein binding|SH3 domain binding|zinc ion binding			breast(4)|ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)	9		all_epithelial(44;7.06e-05)|all_lung(145;0.00563)|Lung NSC(174;0.00834)|Colorectal(57;0.102)|all_neural(114;0.107)|Breast(234;0.22)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.216)		CTGGCAGGGGTCTGGCAGGGA	0.502													9	56					0	0	0.819951	0	0		G	127724751	G	G	127724751	3	3	220	1	0	0	0	0	1	0	0	0	236	1664	58	5	239	5	ADAM12	10	127724751	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	10698399	127724751	7809996	107	108027											
MUC6	4588	broad.mit.edu	37	chr11	1017663	1017663	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tggtggggttgggggtgatgTtggtggtagaagttgaggtg	5	13	23	0	0	0	3	0	2	0	1	0	3	0	3	0	8	0	4	0	8	2	4	rs72022620		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:1017663T>A	uc001lsw.2	-	31	5189	c.5138A>T	c.(5137-5139)AAC>ATC	p.N1713I		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	1713	Thr-rich.|1; truncated.|Approximate repeats.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGGGTGATGTTGGTGGTAGA	0.527													59	293					0	0	0.870114	0	0		A	1017663	A	A	1017663	3	1	220	1	0	0	0	0	1	0	0	0	9998	1725	60	5	2193	5	MUC6	11	1017663	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08		1017663	133988853	108	108028											
OR52I2	143502	broad.mit.edu	37	chr11	4608534	4608534	+	Missense_Mutation	SNP	A	T	T	1	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	aagcctctacactacaagagAattctcacgcctcaagtgat	14	9	6	12	1	3	2	2	1	2	1	4	3	3	2	2	0	3	0	2	0	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:4608534A>T	uc010qyh.1	+	1	492	c.492A>T	c.(490-492)AGA>AGT	p.R164S		NM_001005170	NP_001005170	Q8NH67	O52I2_HUMAN	olfactory receptor, family 52, subfamily I,	164	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACTACAAGAGAATTCTCACGC	0.493													23	34					0	0	0.667858	0	0		T	4608534	T	T	4608534	3	4	220	1	0	0	0	0	1	0	0	0	11140	243	9	5	494	5	OR52I2	11	4608534	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	3590871	4608534	130397982	109	108029											
LMO2	4005	broad.mit.edu	37	chr11	33886163	33886163	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtacctgagatagtctctcCggcagagcttccggcccagt	7	9	12	13	2	1	2	0	1	1	2	4	3	3	2	4	3	2	3	4	3	2	3	rs111991485		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:33886163C>T	uc001mve.2	-	2	681	c.242G>A	c.(241-243)CGG>CAG	p.R81Q	LMO2_uc001mvc.2_Missense_Mutation_p.R74Q|LMO2_uc001mvd.2_Missense_Mutation_p.R74Q|LMO2_uc010rel.1_Missense_Mutation_p.R81Q|LMO2_uc010rem.1_Missense_Mutation_p.R150Q	NM_001142316	NP_001135788	P25791	RBTN2_HUMAN	LIM domain only 2 isoform 2	81	LIM zinc-binding 1.				multicellular organismal development	nucleus	protein binding|zinc ion binding			lung(1)	1						ATAGTCTCTCCGGCAGAGCTT	0.647			T	TRD@	T-ALL								8	15					0	0	0.307466	0	0		T	33886163	T	T	33886163	3	4	220	1	0	0	0	0	1	0	0	0	8869	652	23	1	242	1	LMO2	11	33886163	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	29277629	33886163	101120353	110	108030											
ACCSL	390110	broad.mit.edu	37	chr11	44074565	44074565	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ctgttacaaacacccatcctTtccagctcactgtggacaag	11	10	6	14	0	1	0	1	0	0	0	3	1	3	1	3	1	3	2	3	1	3	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:44074565T>A	uc001mxw.1	+	7	951	c.895T>A	c.(895-897)TTC>ATC	p.F299I	ACCSL_uc009ykr.2_Missense_Mutation_p.F118I	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase	299							1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						CACCCATCCTTTCCAGCTCAC	0.453													31	40					0	0	0.779181	0	0		A	44074565	A	A	44074565	3	1	220	1	0	0	0	0	1	0	0	0	134	1841	64	5	921	5	ACCSL	11	44074565	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	10188402	44074565	90931951	111	108031											
OR5D13	390142	broad.mit.edu	37	chr11	55541187	55541187	+	Nonsense_Mutation	SNP	A	T	T	1	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	agaacttggttgtggaatacAgaaccatctctttctctggt	10	14	9	8	0	2	2	0	0	2	2	4	3	2	3	1	3	3	1	1	3	4	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:55541187A>T	uc010ril.1	+	1	274	c.274A>T	c.(274-276)AGA>TGA	p.R92*		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	92	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				TGTGGAATACAGAACCATCTC	0.393													45	167					0	0	0.870114	0	0		T	55541187	T	T	55541187	4	4	220	1	0	0	0	0	0	1	0	0	11173	180	7	5	276	5	OR5D13	11	55541187	Nonsense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	11466622	55541187	79465329	112	108032											
OR5T3	390154	broad.mit.edu	37	chr11	56019837	56019837	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	acagatgattttgagctgcaAgtcttcctatttttactatt	10	18	6	7	0	1	3	0	2	1	1	2	3	2	3	1	0	3	2	1	0	4	9			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:56019837A>G	uc010rjd.1	+	1	162	c.162A>G	c.(160-162)CAA>CAG	p.Q54Q		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	54	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TTGAGCTGCAAGTCTTCCTAT	0.393													27	84					0	0	0.693898	0	0		G	56019837	G	G	56019837	2	3	220	1	0	0	0	0	0	0	0	1	11202	69	3	3		3	OR5T3	11	56019837	Silent	SNP	A	TCGA-IN-8663-01A-11D-2394-08	478650	56019837	78986679	113	108033											
GPR137	56834	broad.mit.edu	37	chr11	64055814	64055814	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gcccctgccttcccacaggcGgacctggtgaatgacctggg	6	7	13	15	1	0	2	0	2	0	0	1	3	1	3	6	4	1	0	6	4	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:64055814G>A	uc001nzg.1	+	6	1094	c.786G>A	c.(784-786)GCG>GCA	p.A262A	GPR137_uc010rni.1_Silent_p.A320A|GPR137_uc001nzf.2_Silent_p.A212A|GPR137_uc001nzi.2_Silent_p.A262A|GPR137_uc010rnj.1_Silent_p.A262A|KCNK4_uc009ypl.1_5'Flank|KCNK4_uc001nzj.1_5'Flank|KCNK4_uc001nzk.1_5'Flank|KCNK4_uc010rnk.1_5'Flank	NM_020155	NP_064540	Q96N19	G137A_HUMAN	G protein-coupled receptor 137	262	Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						TCCCACAGGCGGACCTGGTGA	0.627													106	22					0	0	0.870114	0	0		A	64055814	A	A	64055814	2	1	220	1	0	0	0	0	0	0	0	1	6660	1103	39	1		1	GPR137	11	64055814	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	8035977	64055814	70950702	114	108034											
GRM5	2915	broad.mit.edu	37	chr11	88583222	88583222	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cagcagcttatcaaagctctGctcccctgcattactgtaga	10	11	7	13	0	2	1	1	0	1	1	3	1	3	1	2	0	6	6	2	0	4	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:88583222G>T	uc001pcq.2	-	2	963	c.763C>A	c.(763-765)CAG>AAG	p.Q255K	GRM5_uc009yvm.2_Missense_Mutation_p.Q255K	NM_001143831	NP_001137303	P41594	GRM5_HUMAN	glutamate receptor, metabotropic 5 isoform a	255	Extracellular (Potential).				activation of phospholipase C activity by metabotropic glutamate receptor signaling pathway|synaptic transmission	integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			central_nervous_system(4)|ovary(2)|lung(2)|breast(1)	9		Acute lymphoblastic leukemia(157;2.54e-05)|all_hematologic(158;0.00834)			Acamprosate(DB00659)	TCAAAGCTCTGCTCCCCTGCA	0.512													39	10					8.72198e-27	9.40115e-27	0.870114	1	0		T	88583222	T	T	88583222	3	4	220	1	0	0	0	0	1	0	0	0	6816	1328	46	5	2907	5	GRM5	11	88583222	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	24527408	88583222	46423294	115	108035											
FOLH1B	219595	broad.mit.edu	37	chr11	89431691	89431691	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggacccttccaaggcctgggGagatgtgaagagacagattt	11	8	14	8	0	0	4	0	1	0	3	1	7	1	5	3	4	0	0	3	4	2	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:89431691G>T	uc001pda.2	+	14	1779	c.1253G>T	c.(1252-1254)GGA>GTA	p.G418V		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	418					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						AAGGCCTGGGGAGATGTGAAG	0.473													114	18					2.32112e-61	2.5542e-61	0.870114	1	0		T	89431691	T	T	89431691	3	4	220	1	0	0	0	0	1	0	0	0	5994	1174	41	5	1299	5	FOLH1B	11	89431691	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	848469	89431691	45574825	116	108036											
GLB1L2	89944	broad.mit.edu	37	chr11	134214955	134214955	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	gtcctgatggccgcagagatCgggctgtgggtgattctgcg	5	10	17	9	3	1	3	0	2	1	1	3	4	2	3	2	3	1	2	2	3	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr11:134214955C>T	uc001qhp.2	+	4	569	c.381C>T	c.(379-381)ATC>ATT	p.I127I	GLB1L2_uc009zdg.1_5'Flank	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	127					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(1)|pancreas(1)|skin(1)	3	all_hematologic(175;0.127)	all_cancers(12;2.85e-18)|all_epithelial(12;1.21e-12)|all_lung(97;0.000276)|Lung NSC(97;0.000518)|Breast(109;0.00122)|Medulloblastoma(222;0.0399)|all_neural(223;0.0412)|Esophageal squamous(93;0.0844)		Epithelial(10;1.37e-11)|all cancers(11;2.2e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000885)|Lung(977;0.223)		CCGCAGAGATCGGGCTGTGGG	0.662													17	20					0	0	0.520397	0	0		T	134214955	T	T	134214955	2	4	220	1	0	0	0	0	0	0	0	1	6444	874	31	1		1	GLB1L2	11	134214955	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	44783264	134214955	791561	117	108037											
FGF6	2251	broad.mit.edu	37	chr12	4543436	4543436	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggggacaccttgctgcccCgctttacccgtccgtatttg	4	12	10	15	4	0	0	0	0	0	0	2	1	1	1	5	2	3	3	5	2	2	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:4543436C>T	uc001qmr.1	-	3	616	c.572G>A	c.(571-573)CGG>CAG	p.R191Q		NM_020996	NP_066276	P10767	FGF6_HUMAN	fibroblast growth factor 6 precursor	191					angiogenesis|cell proliferation|cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|positive regulation of cell division|positive regulation of cell proliferation	extracellular space	growth factor activity			lung(2)|ovary(1)	3			Colorectal(7;0.00165)|COAD - Colon adenocarcinoma(12;0.0229)			CTTGCTGCCCCGCTTTACCCG	0.493													43	47					0	0	0.834066	0	0		T	4543436	T	T	4543436	3	4	220	1	0	0	0	0	1	0	0	0	5870	652	23	1	58	1	FGF6	12	4543436	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08		4543436	129308459	118	108038											
KCNA5	3741	broad.mit.edu	37	chr12	5154932	5154932	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	agtccttaaggaagagcaggGcactcagagccaggggccgg	11	4	16	10	1	1	2	1	0	0	2	2	3	2	3	3	5	2	2	3	5	2	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:5154932G>A	uc001qni.2	+	1	1848	c.1619G>A	c.(1618-1620)GGC>GAC	p.G540D		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	540						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						GAAGAGCAGGGCACTCAGAGC	0.622													22	21					0	0	0.608945	0	0		A	5154932	A	A	5154932	3	1	220	1	0	0	0	0	1	0	0	0	8022	1203	42	2	1621	2	KCNA5	12	5154932	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	611496	5154932	128696963	119	108039											
BCAT1	586	broad.mit.edu	37	chr12	25002867	25002867	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gcagggctttggtaggcttcTtgactccaagagaaggctgc	8	10	14	9	0	1	2	0	1	1	1	2	3	2	2	1	4	1	5	1	4	3	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:25002867T>G	uc001rgd.3	-	6	969	c.527A>C	c.(526-528)AAG>ACG	p.K176T	BCAT1_uc001rgc.2_Missense_Mutation_p.K175T|BCAT1_uc010six.1_Missense_Mutation_p.K188T|BCAT1_uc010siy.1_Missense_Mutation_p.K139T|BCAT1_uc001rge.3_Missense_Mutation_p.K115T	NM_005504	NP_005495	P54687	BCAT1_HUMAN	branched chain aminotransferase 1, cytosolic	176					branched chain family amino acid biosynthetic process|branched chain family amino acid catabolic process|cell proliferation|G1/S transition of mitotic cell cycle	cytosol	L-isoleucine transaminase activity|L-leucine transaminase activity|L-valine transaminase activity			lung(1)|breast(1)	2	Acute lymphoblastic leukemia(6;0.00112)|all_hematologic(7;0.00152)|Ovarian(17;0.107)|Colorectal(261;0.196)				Gabapentin(DB00996)|L-Glutamic Acid(DB00142)|L-Isoleucine(DB00167)|L-Leucine(DB00149)|L-Valine(DB00161)|Pyridoxal Phosphate(DB00114)	GGTAGGCTTCTTGACTCCAAG	0.428													322	42					0	0	0.870114	0	0		G	25002867	G	G	25002867	3	3	220	1	0	0	0	0	1	0	0	0	1355	1609	56	5	657	5	BCAT1	12	25002867	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	19847935	25002867	108849028	120	108040											
LRRK2	120892	broad.mit.edu	37	chr12	40697927	40697927	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	ctgcatctttctcacaataaActgaaagaggtaagacgatt	15	11	7	8	1	2	3	1	1	2	2	3	4	2	3	0	1	2	2	0	1	5	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:40697927A>C	uc001rmg.3	+	27	3889	c.3768A>C	c.(3766-3768)AAA>AAC	p.K1256N	LRRK2_uc001rmh.1_Missense_Mutation_p.K878N|LRRK2_uc009zjw.2_Missense_Mutation_p.K94N|LRRK2_uc001rmi.2_Missense_Mutation_p.K89N	NM_198578	NP_940980	Q5S007	LRRK2_HUMAN	leucine-rich repeat kinase 2	1256	LRR 11.				activation of MAPKK activity|determination of adult lifespan|exploration behavior|intracellular distribution of mitochondria|negative regulation of branching morphogenesis of a nerve|negative regulation of dendritic spine morphogenesis|negative regulation of neuroblast proliferation|negative regulation of neuron maturation|neuromuscular junction development|neuron death|peptidyl-serine phosphorylation|positive regulation of autophagy|positive regulation of dopamine receptor signaling pathway|positive regulation of programmed cell death|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of protein ubiquitination|protein autophosphorylation|regulation of kidney size|regulation of locomotion|regulation of membrane potential|response to oxidative stress|small GTPase mediated signal transduction|tangential migration from the subventricular zone to the olfactory bulb	external side of mitochondrial outer membrane	ATP binding|GTP binding|GTP-dependent protein kinase activity|GTPase activator activity|MAP kinase kinase activity|protein homodimerization activity|tubulin binding			ovary(12)|stomach(5)|upper_aerodigestive_tract(2)|lung(2)|large_intestine(1)|urinary_tract(1)|pancreas(1)	24	all_cancers(12;0.00108)|Breast(8;0.218)	Lung NSC(34;0.0942)|all_lung(34;0.11)				CTCACAATAAACTGAAAGAGG	0.308													33	48					0	0	0.760397	0	0		C	40697927	C	C	40697927	3	2	220	1	0	0	0	0	1	0	0	0	9051	40	2	5	3874	5	LRRK2	12	40697927	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	15695060	40697927	93153968	121	108041											
MLL2	8085	broad.mit.edu	37	chr12	49416540	49416540	+	Silent	SNP	G	A	A	0	0	1	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	gttcttccattcggtgcgcaGccgccggtactgagatgact	6	11	12	12	4	1	2	0	2	1	1	3	3	2	2	3	2	3	3	3	2	1	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:49416540G>A	uc001rta.3	-	51	16171	c.16171C>T	c.(16171-16173)CTG>TTG	p.L5391L		NM_003482	NP_003473	O14686	MLL2_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 2	5391					chromatin silencing|histone H3-K4 methylation|oocyte growth|positive regulation of cell proliferation|positive regulation of estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to estrogen stimulus|transcription, DNA-dependent	histone methyltransferase complex	histone-lysine N-methyltransferase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			kidney(16)|central_nervous_system(12)|lung(4)|skin(4)|ovary(3)|pancreas(2)	41						TCGGTGCGCAGCCGCCGGTAC	0.552			N|F|Mis		medulloblastoma|renal					HNSCC(34;0.089)			37	65					0	0	0.812448	0	0		A	49416540	A	A	49416540	2	1	220	1	0	0	0	0	0	0	0	1	9639	962	34	2		2	MLL2	12	49416540	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	8718613	49416540	84435355	122	108042											
C1QL4	338761	broad.mit.edu	37	chr12	49729959	49729959	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcacgtagccggcagcgggcGccaccccgcccggacctgga	6	2	15	18	6	0	0	0	0	0	0	0	2	0	2	6	4	2	3	6	4	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:49729959G>A	uc001rtz.1	-	1	1013	c.302C>T	c.(301-303)GCG>GTG	p.A101V		NM_001008223	NP_001008224	Q86Z23	C1QL4_HUMAN	complement component 1, q subcomponent-like 4	101						collagen					0						GGCAGCGGGCGCCACCCCGCC	0.746													3	13					0	0	0.115264	0	0		A	49729959	A	A	49729959	3	1	220	1	0	0	0	0	1	0	0	0	1964	1087	38	1	422	1	C1QL4	12	49729959	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	313419	49729959	84121936	123	108043											
NAV3	89795	broad.mit.edu	37	chr12	78443852	78443852	+	Silent	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aatttagaagagactatgtcCagtcttcgtgggactcagat	12	12	10	7	1	2	3	1	0	1	3	4	5	3	4	1	1	0	0	1	1	4	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:78443852C>A	uc001syp.2	+	10	2276	c.2103C>A	c.(2101-2103)TCC>TCA	p.S701S	NAV3_uc001syo.2_Silent_p.S701S|NAV3_uc010sub.1_Silent_p.S201S	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	701	Potential.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	17						AGACTATGTCCAGTCTTCGTG	0.328										HNSCC(70;0.22)			25	40					7.01153e-11	7.31759e-11	0.717897	1	0		A	78443852	A	A	78443852	2	1	220	1	0	0	0	0	0	0	0	1	10203	581	21	5		5	NAV3	12	78443852	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	28713893	78443852	55408043	124	108044											
MGAT4C	25834	broad.mit.edu	37	chr12	86373864	86373864	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	ataatagtctgaagtattggCacaaaaattaagcagaaaag	20	9	8	4	0	1	2	0	1	1	1	1	2	1	2	0	1	1	3	0	1	9	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:86373864C>A	uc001tai.3	-	8	1890	c.640G>T	c.(640-642)GCC>TCC	p.A214S	MGAT4C_uc001tal.3_Missense_Mutation_p.A214S|MGAT4C_uc001taj.3_Missense_Mutation_p.A214S|MGAT4C_uc001tak.3_Missense_Mutation_p.A214S|MGAT4C_uc010sum.1_Missense_Mutation_p.A238S|MGAT4C_uc001tah.3_Missense_Mutation_p.A214S	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	214	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						GAAGTATTGGCACAAAAATTA	0.333													51	88					1.05386e-31	1.14531e-31	0.870114	1	0		A	86373864	A	A	86373864	3	1	220	1	0	0	0	0	1	0	0	0	9565	710	25	5	800	5	MGAT4C	12	86373864	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	7930012	86373864	47478031	125	108045											
KSR2	283455	broad.mit.edu	37	chr12	118105417	118105417	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gatgttctcgcagctgcctaCgctgctgtggatcttgaggt	5	13	13	10	2	2	1	0	1	2	0	3	3	2	2	1	2	4	5	1	2	1	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:118105417C>T	uc001two.2	-	5	1001	c.946G>A	c.(946-948)GTA>ATA	p.V316I		NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	kinase suppressor of ras 2	345					intracellular signal transduction	cytoplasm|membrane	ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(10)|central_nervous_system(2)|stomach(1)|large_intestine(1)|breast(1)	15	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CAGCTGCCTACGCTGCTGTGG	0.542													13	23					0	0	0.479597	0	0		T	118105417	T	T	118105417	3	4	220	1	0	0	0	0	1	0	0	0	8598	536	19	1	1883	1	KSR2	12	118105417	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	31731553	118105417	15746478	126	108046											
EP400	57634	broad.mit.edu	37	chr12	132546656	132546656	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctctgtttgccttttctagaCgccgggaggctctgctcccg	3	13	11	14	3	3	1	0	0	3	1	4	2	4	2	3	2	2	3	3	2	1	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr12:132546656C>T	uc001ujn.2	+	45	7921	c.7886C>T	c.(7885-7887)ACG>ATG	p.T2629M	EP400_uc001ujl.2_Missense_Mutation_p.T2628M|EP400_uc001ujm.2_Missense_Mutation_p.T2548M|EP400_uc001ujp.2_5'Flank	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	2665	Interaction with ZNF42 (By similarity).				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CTTTTCTAGACGCCGGGAGGC	0.617													12	29					0	0	0.38729	0	0		T	132546656	T	T	132546656	3	4	220	1	0	0	0	0	1	0	0	0	5157	550	19	1	8061	1	EP400	12	132546656	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	14441239	132546656	1305239	127	108047											
MTUS2	23281	broad.mit.edu	37	chr13	29608101	29608101	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccctccaactttctatcggtCagccatgctccttaagcccc	7	11	5	18	1	2	0	1	0	1	0	5	0	4	0	6	1	4	1	6	1	3	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr13:29608101C>T	uc001usl.3	+	2	2373	c.2315C>T	c.(2314-2316)TCA>TTA	p.S772L		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	762	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						TTCTATCGGTCAGCCATGCTC	0.463													22	27					0	0	0.639603	0	0		T	29608101	T	T	29608101	3	4	220	1	0	0	0	0	1	0	0	0	9984	838	29	4	2321	4	MTUS2	13	29608101	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08		29608101	85561777	128	108048											
NBEA	26960	broad.mit.edu	37	chr13	35644947	35644947	+	Missense_Mutation	SNP	A	T	T	1	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	tccactttttgcccaattggAtaataggcagctcaatgaca	12	12	7	10	0	1	1	1	1	0	0	2	2	2	2	2	2	2	2	2	2	4	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr13:35644947A>T	uc001uvb.2	+	11	1735	c.1529A>T	c.(1528-1530)GAT>GTT	p.D510V		NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	510						cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)		GCCCAATTGGATAATAGGCAG	0.368													38	58					0	0	0.804634	0	0		T	35644947	T	T	35644947	3	4	220	1	0	0	0	0	1	0	0	0	10205	333	12	5	1567	5	NBEA	13	35644947	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	6036846	35644947	79524931	129	108049											
POSTN	10631	broad.mit.edu	37	chr13	38137480	38137480	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttttggattttcactgagaaCgaccttcccttaatcgtctt	8	17	6	10	2	2	1	1	1	1	1	4	4	3	2	2	1	1	0	2	1	2	7			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr13:38137480C>T	uc001uwo.3	-	23	2619	c.2501G>A	c.(2500-2502)CGT>CAT	p.R834H	POSTN_uc010tet.1_Missense_Mutation_p.R335H|POSTN_uc001uwp.3_Missense_Mutation_p.R777H|POSTN_uc001uwr.2_Missense_Mutation_p.R779H|POSTN_uc001uwq.2_Missense_Mutation_p.R749H	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	834					cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		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)		TCACTGAGAACGACCTTCCCT	0.308													11	39					0	0	0.411799	0	0		T	38137480	T	T	38137480	3	4	220	1	0	0	0	0	1	0	0	0	12278	536	19	1	13	1	POSTN	13	38137480	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	2492533	38137480	77032398	130	108050											
MTRF1	9617	broad.mit.edu	37	chr13	41834883	41834883	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	atctcctggaccaattcttaCttaacagatgaagaatgcaa	15	11	6	9	0	2	3	0	1	2	2	3	4	2	4	2	1	3	1	2	1	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr13:41834883C>T	uc001uxx.2	-	4	631	c.161G>A	c.(160-162)AGT>AAT	p.S54N	MTRF1_uc001uxy.2_Missense_Mutation_p.S54N|MTRF1_uc001uxz.2_5'UTR|MTRF1_uc010tff.1_Missense_Mutation_p.S67N|MTRF1_uc001uyc.1_Missense_Mutation_p.S54N	NM_004294	NP_004285	O75570	RF1M_HUMAN	mitochondrial translational release factor 1	54					regulation of translational termination	mitochondrion	translation release factor activity, codon specific				0		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)|Ovarian(182;0.125)		OV - Ovarian serous cystadenocarcinoma(117;4.24e-10)|all cancers(112;2.05e-09)|Epithelial(112;2.48e-09)|GBM - Glioblastoma multiforme(144;0.00115)|BRCA - Breast invasive adenocarcinoma(63;0.0721)|KIRC - Kidney renal clear cell carcinoma(186;0.248)		CCAATTCTTACTTAACAGATG	0.388													51	147					0	0	0.870114	0	0		T	41834883	T	T	41834883	3	4	220	1	0	0	0	0	1	0	0	0	9977	565	20	4	1212	4	MTRF1	13	41834883	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	3697403	41834883	73334995	131	108051											
PCDH8	5100	broad.mit.edu	37	chr13	53420277	53420277	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	gtggcgatggcgatgatggcGgccagcagcagcgtgcagct	7	6	18	10	4	0	1	0	1	0	0	0	3	0	1	1	4	5	4	1	4	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr13:53420277G>A	uc001vhi.2	-	1	2498	c.2295C>T	c.(2293-2295)GCC>GCT	p.A765A	PCDH8_uc001vhj.2_Silent_p.A765A	NM_002590	NP_002581	O95206	PCDH8_HUMAN	protocadherin 8 isoform 1 precursor	765	Helical; (Potential).				cell-cell signaling|homophilic cell adhesion	cell junction|dendrite|integral to plasma membrane|postsynaptic membrane|presynaptic membrane	calcium ion binding			breast(1)	1		Lung NSC(96;0.0019)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;2.19e-08)		CGATGATGGCGGCCAGCAGCA	0.607													23	48					0	0	0.681144	0	0		A	53420277	A	A	53420277	2	1	220	1	0	0	0	0	0	0	0	1	11536	1103	39	1		1	PCDH8	13	53420277	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	11585394	53420277	61749601	132	108052											
MYCBP2	23077	broad.mit.edu	37	chr13	77664288	77664288	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	taggaatagctttaactcgtGcaggtaaaatggagtgttgt	12	13	12	4	1	0	0	0	0	0	0	1	2	0	2	0	3	3	4	0	3	6	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr13:77664288G>T	uc001vkf.2	-	61	10455	c.10364C>A	c.(10363-10365)GCA>GAA	p.A3455E	MYCBP2_uc010aev.2_Missense_Mutation_p.A2859E|MYCBP2_uc001vke.2_Missense_Mutation_p.A75E	NM_015057	NP_055872	O75592	MYCB2_HUMAN	MYC binding protein 2	3455					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	ligase activity|protein binding|zinc ion binding			ovary(4)|breast(4)|skin(3)|lung(2)|pancreas(1)	14		Breast(118;0.212)|Acute lymphoblastic leukemia(28;0.22)		GBM - Glioblastoma multiforme(99;0.109)		TTTAACTCGTGCAGGTAAAAT	0.358													73	75					3.4887e-51	3.82304e-51	0.870114	1	0		T	77664288	T	T	77664288	3	4	220	1	0	0	0	0	1	0	0	0	10036	1319	46	5	3654	5	MYCBP2	13	77664288	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	24244011	77664288	37505590	133	108053											
OCA2	4948	broad.mit.edu	37	chr15	28261279	28261279	+	Silent	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	acctcaaaggtcctgctcatCactgagtgctcgcttctcct	7	12	7	15	1	4	1	3	1	1	0	7	1	5	1	3	1	2	3	3	1	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:28261279C>G	uc001zbh.3	-	8	971	c.861G>C	c.(859-861)GTG>GTC	p.V287V	OCA2_uc010ayv.2_Silent_p.V287V	NM_000275	NP_000266	Q04671	P_HUMAN	oculocutaneous albinism II	287	Extracellular (Potential).				eye pigment biosynthetic process	endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosomal membrane|melanosome membrane	arsenite transmembrane transporter activity|citrate transmembrane transporter activity|L-tyrosine transmembrane transporter activity|protein binding			ovary(3)|breast(1)|pancreas(1)	5		all_lung(180;2.93e-12)|Breast(32;0.000315)|Colorectal(260;0.234)		all cancers(64;5.03e-07)|Epithelial(43;2.13e-06)|BRCA - Breast invasive adenocarcinoma(123;0.045)		TCCTGCTCATCACTGAGTGCT	0.502									Oculocutaneous_Albinism				55	75					0	0	0.870114	0	0		G	28261279	G	G	28261279	2	3	220	1	0	0	0	0	0	0	0	1	10834	813	29	5		5	OCA2	15	28261279	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08		28261279	74270113	134	108054											
FMN1	342184	broad.mit.edu	37	chr15	33261648	33261648	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tatcattgcatgctcgccccGgatatgaaatgcccgaagtt	10	11	9	11	3	1	1	1	1	0	0	2	3	1	2	3	1	3	3	3	1	4	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:33261648G>A	uc001zhf.3	-	4	1585	c.1585C>T	c.(1585-1587)CGG>TGG	p.R529W		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	752	Potential.|Mediates interaction with alpha-catenin (By similarity).				actin cytoskeleton organization	actin cytoskeleton|adherens junction|cytoplasm|nucleus	actin binding			ovary(1)	1		all_lung(180;1.14e-07)		all cancers(64;3.05e-15)|Epithelial(43;1.67e-10)|GBM - Glioblastoma multiforme(186;4.95e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0262)		TGCTCGCCCCGGATATGAAAT	0.403													74	88					0	0	0.870114	0	0		A	33261648	A	A	33261648	3	1	220	1	0	0	0	0	1	0	0	0	5963	1115	39	1	2061	1	FMN1	15	33261648	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	5000369	33261648	69269744	135	108055											
RPAP1	26015	broad.mit.edu	37	chr15	41812627	41812627	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	cagagctcgcaaggctcccaCgtgttccccaaagagggcaa	11	5	11	14	2	0	2	0	0	0	2	3	2	2	2	3	2	1	5	3	2	3	1	rs143725774	by1000genomes	TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:41812627C>T	uc001zod.2	-	22	3881	c.3757G>A	c.(3757-3759)GTG>ATG	p.V1253M	RPAP1_uc001zoc.2_Missense_Mutation_p.V272M	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	1253	Leu-rich.					nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)		AAGGCTCCCACGTGTTCCCCA	0.642													20	33					0	0	0.608945	0	0		T	41812627	T	T	41812627	3	4	220	1	0	0	0	0	1	0	0	0	13566	536	19	1	440	1	RPAP1	15	41812627	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	8550979	41812627	60718765	136	108056											
MYO5A	4644	broad.mit.edu	37	chr15	52667640	52667640	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggttgctgccttggttctgCgcagaaacttagcatagctg	7	13	12	9	1	1	1	0	0	1	1	1	1	1	1	1	2	6	6	1	2	3	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:52667640C>A	uc002aby.2	-	20	2682	c.2438G>T	c.(2437-2439)CGC>CTC	p.R813L	MYO5A_uc002abx.3_Missense_Mutation_p.R813L|MYO5A_uc010uge.1_Missense_Mutation_p.R682L	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	813	IQ 2.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		CTTGGTTCTGCGCAGAAACTT	0.413													22	39					2.98393e-07	3.0536e-07	0.639603	1	0		A	52667640	A	A	52667640	3	1	220	1	0	0	0	0	1	0	0	0	10096	768	27	5	3217	5	MYO5A	15	52667640	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	10855013	52667640	49863752	137	108057											
CILP	8483	broad.mit.edu	37	chr15	65491108	65491108	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	catgtacacatggccaaagcGcatgggctccccattgtcag	10	8	10	13	1	1	0	1	0	0	0	2	0	2	0	3	2	2	3	3	2	2	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:65491108G>A	uc002aon.2	-	9	1697	c.1516C>T	c.(1516-1518)CGC>TGC	p.R506C		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	506					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						TGGCCAAAGCGCATGGGCTCC	0.607													33	42					0	0	0.750413	0	0		A	65491108	A	A	65491108	3	1	220	1	0	0	0	0	1	0	0	0	3432	1087	38	1	2042	1	CILP	15	65491108	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	12823468	65491108	37040284	138	108058											
C15orf59	388135	broad.mit.edu	37	chr15	74032739	74032739	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	ggcggtagtcagggccagccCctggccgagtcgactcggga	6	5	17	13	4	1	0	1	0	0	0	3	3	1	1	4	5	1	1	4	5	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:74032739C>T	uc002avy.2	-	2	746	c.401G>A	c.(400-402)GGG>GAG	p.G134E		NM_001039614	NP_001034703	Q2T9L4	CO059_HUMAN	hypothetical protein LOC388135	134										pancreas(1)	1						AGGGCCAGCCCCTGGCCGAGT	0.627													56	88					0	0	0.870114	0	0		T	74032739	T	T	74032739	3	4	220	1	0	0	0	0	1	0	0	0	1810	623	22	4	484	4	C15orf59	15	74032739	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	8541631	74032739	28498653	139	108059											
ARNT2	9915	broad.mit.edu	37	chr15	80806710	80806710	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	aagcccaatatgctgtggtcCactgtacaggatacatcaag	13	9	9	10	0	1	0	1	0	0	0	2	1	2	1	2	2	4	2	2	2	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:80806710C>T	uc002bfr.2	+	8	1007	c.841C>T	c.(841-843)CAC>TAC	p.H281Y	ARNT2_uc010unm.1_Missense_Mutation_p.H270Y|ARNT2_uc002bfs.2_Missense_Mutation_p.H270Y	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	281					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			TGCTGTGGTCCACTGTACAGG	0.493													102	150					0	0	0.870114	0	0		T	80806710	T	T	80806710	3	4	220	1	0	0	0	0	1	0	0	0	967	594	21	4	871	4	ARNT2	15	80806710	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	6773971	80806710	21724682	140	108060											
ADAMTSL3	57188	broad.mit.edu	37	chr15	84539669	84539669	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aggggctccgagaggcaaacTtttaagattccaggacctct	11	9	11	10	1	1	2	0	0	1	2	3	4	3	3	3	4	1	2	3	4	2	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr15:84539669T>G	uc002bjz.3	+	9	1142	c.918T>G	c.(916-918)ACT>ACG	p.T306T	ADAMTSL3_uc010bmt.1_Silent_p.T306T|ADAMTSL3_uc010bmu.1_Silent_p.T306T	NM_207517	NP_997400	P82987	ATL3_HUMAN	ADAMTS-like 3 precursor	306						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(6)|central_nervous_system(5)|lung(5)|large_intestine(4)|breast(3)|skin(2)|kidney(1)|pancreas(1)	27			BRCA - Breast invasive adenocarcinoma(143;0.211)			AGAGGCAAACTTTTAAGATTC	0.438													44	67					0	0	0.853193	0	0		G	84539669	G	G	84539669	2	3	220	1	0	0	0	0	0	0	0	1	276	1596	56	5		5	ADAMTSL3	15	84539669	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	3732959	84539669	17991723	141	108061											
ZNF267	10308	broad.mit.edu	37	chr16	31926651	31926652	+	Frame_Shift_Ins	INS	-	T	T																															atgtggcaaggtctttaaccINSttaactgtagtttatacctt																										TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr16:31926651_31926652insT	uc002ecs.3	+	4	1290_1291	c.1081_1082insT	c.(1081-1083)CTTfs	p.L361fs		NM_003414	NP_003405	Q14586	ZN267_HUMAN	zinc finger protein 267	361					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|breast(1)|skin(1)	4						GGTCTTTAACCTTAACTGTAGT	0.371													83	39	---	---	---	---						.	T	31926652	T	T	31926651	7	5	220	1	0	1	1	0	0	0	0	0	17831	681	24	0	1095	0	ZNF267	16	31926651	Frame_Shift_Ins	INS	-	TCGA-IN-8663-01A-11D-2394-08		31926651	58428102	142	108062											
ADAMTS18	170692	broad.mit.edu	37	chr16	77327095	77327095	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gctctcggggagggtttctgCggcagagcccttgcagagga	6	8	17	10	2	2	2	0	0	2	2	3	4	2	4	1	5	3	4	1	5	0	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr16:77327095C>T	uc002ffc.3	-	20	3486	c.3067G>A	c.(3067-3069)GCA>ACA	p.A1023T	ADAMTS18_uc010chc.1_Missense_Mutation_p.A611T	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1023	TSP type-1 3.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						AGGGTTTCTGCGGCAGAGCCC	0.562													54	80					0	0	0.870114	0	0		T	77327095	T	T	77327095	3	4	220	1	0	0	0	0	1	0	0	0	263	768	27	1	614	1	ADAMTS18	16	77327095	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	45400444	77327095	13027658	143	108063											
AMAC1L3	643664	broad.mit.edu	37	chr17	7385463	7385463	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggggcctgcctgctggcttcGtgggccccctttctcatatg	2	12	13	14	1	1	0	1	0	1	0	3	0	1	0	4	4	2	2	4	4	1	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:7385463G>A	uc010cmj.1	+	2	275	c.160G>A	c.(160-162)GTG>ATG	p.V54M	ZBTB4_uc002ghc.3_5'Flank|ZBTB4_uc002ghd.3_Intron|POLR2A_uc002ghe.2_5'Flank|POLR2A_uc002ghf.3_5'Flank	NM_001102614	NP_001096084	P0C7Q6	AMCL3_HUMAN	acyl-malonyl condensing enzyme 1-like 3	54	DUF6 1.|Helical; (Potential).					integral to membrane					0		Prostate(122;0.173)				TGCTGGCTTCGTGGGCCCCCT	0.647													5	103					0	0	0.217242	0	0		A	7385463	A	A	7385463	3	1	220	1	0	0	0	0	1	0	0	0	561	1145	40	1	166	1	AMAC1L3	17	7385463	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08		7385463	73809747	144	108064											
DNAH2	146754	broad.mit.edu	37	chr17	7689646	7689646	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gccgcgccggagaccctaacTtcaacattgttagagtacgg	10	8	11	12	4	1	2	1	0	0	2	1	3	1	2	3	2	3	2	3	2	4	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:7689646T>G	uc002giu.1	+	39	6348	c.6334T>G	c.(6334-6336)TTC>GTC	p.F2112V		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2112	AAA 2 (By similarity).				ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(6)|central_nervous_system(1)	13		all_cancers(10;4.66e-07)|Prostate(122;0.081)				AGACCCTAACTTCAACATTGT	0.597													21	11					0	0	0.575678	0	0		G	7689646	G	G	7689646	3	3	220	1	0	0	0	0	1	0	0	0	4608	1609	56	5	6488	5	DNAH2	17	7689646	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	304183	7689646	73505564	145	108065											
ZNF287	57336	broad.mit.edu	37	chr17	16470856	16470856	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	gagttgactcaatgcctttcGaggaccagccaggtctgggt	8	10	13	10	1	2	1	1	1	1	0	3	4	2	2	3	3	2	1	3	3	1	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:16470856G>C	uc002gqi.2	-	2	643	c.190C>G	c.(190-192)CGA>GGA	p.R64G		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	57	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)		AATGCCTTTCGAGGACCAGCC	0.463													59	18					0	0	0.870114	0	0		C	16470856	C	C	16470856	3	2	220	1	0	0	0	0	1	0	0	0	17850	1066	37	5	2115	5	ZNF287	17	16470856	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	8781210	16470856	64724354	146	108066											
ERBB2	2064	broad.mit.edu	37	chr17	37863285	37863285	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	gctgcggctccctgccagtcCcgagacccacctggacatgc	6	6	11	18	2	0	1	0	0	0	1	2	3	2	2	5	2	3	2	5	2	0	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:37863285C>T	uc002hso.2	+	2	354	c.116C>T	c.(115-117)CCC>CTC	p.P39L	ERBB2_uc002hsm.2_Missense_Mutation_p.P9L|ERBB2_uc010cwa.2_Missense_Mutation_p.P24L|ERBB2_uc002hsp.2_5'UTR|ERBB2_uc010cwb.2_Missense_Mutation_p.P39L|ERBB2_uc010wek.1_Intron|ERBB2_uc002hsl.2_Missense_Mutation_p.P9L|ERBB2_uc002hsn.1_Missense_Mutation_p.P39L	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	39	Extracellular (Potential).				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	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)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	CCTGCCAGTCCCGAGACCCAC	0.642		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			28	16					0	0	0.769981	0	0		T	37863285	T	T	37863285	3	4	220	1	0	0	0	0	1	0	0	0	5214	623	22	4	122	4	ERBB2	17	37863285	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	21392429	37863285	43331925	147	108067											
ERBB2	2064	broad.mit.edu	37	chr17	37880998	37880998	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	ggaagcatacgtgatggctgGtgtgggctccccatatgtct	7	11	14	9	1	1	1	0	1	1	0	2	2	2	2	2	4	2	3	2	4	3	2	rs144434331		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:37880998G>T	uc002hso.2	+	20	2565	c.2327G>T	c.(2326-2328)GGT>GTT	p.G776V	ERBB2_uc002hsm.2_Missense_Mutation_p.G746V|ERBB2_uc010cwa.2_Missense_Mutation_p.G761V|ERBB2_uc002hsp.2_Missense_Mutation_p.G579V|ERBB2_uc010cwb.2_Missense_Mutation_p.G776V|ERBB2_uc010wek.1_Missense_Mutation_p.G500V	NM_004448	NP_004439	P04626	ERBB2_HUMAN	erbB-2 isoform a	776	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|heart development|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of cell adhesion|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|protein autophosphorylation|regulation of angiogenesis|regulation of microtubule-based process|regulation of transcription, DNA-dependent|transcription, DNA-dependent|wound healing	integral to membrane|nucleus|perinuclear region of cytoplasm|receptor complex	ATP binding|DNA binding|epidermal growth factor receptor activity|ErbB-3 class receptor binding|identical protein binding|protein C-terminus binding|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.A775_G776insYVMA(19)|p.G776>VC(8)|p.G776>LC(3)|p.G776V(2)|p.G776S(2)		lung(73)|central_nervous_system(16)|ovary(16)|stomach(14)|breast(9)|upper_aerodigestive_tract(5)|large_intestine(3)|liver(3)|endometrium(2)|skin(1)|pancreas(1)	143	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)	Lapatinib(DB01259)|Letrozole(DB01006)|Trastuzumab(DB00072)	GTGATGGCTGGTGTGGGCTCC	0.577		1	A|Mis|O		breast|ovarian|other tumour types|NSCLC|gastric					TCGA GBM(5;<1E-08)			54	17					2.14255e-21	2.28134e-21	0.870114	1	0		T	37880998	T	T	37880998	3	4	220	1	0	0	0	0	1	0	0	0	5214	1261	44	5	2405	5	ERBB2	17	37880998	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	17713	37880998	43314212	148	108068											
ATP6V0A1	535	broad.mit.edu	37	chr17	40650953	40650953	+	Silent	SNP	T	C	C	0	1	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	ttatgacagatttggaacatTgctaccaataaactgacgtt	14	13	7	7	1	0	3	0	2	0	1	0	4	0	4	1	1	4	2	1	1	6	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:40650953T>C	uc002hzr.2	+	15	1739	c.1572T>C	c.(1570-1572)ATT>ATC	p.I524I	ATP6V0A1_uc002hzq.2_Silent_p.I524I|ATP6V0A1_uc002hzs.2_Silent_p.I531I|ATP6V0A1_uc010wgj.1_Silent_p.I481I|ATP6V0A1_uc010wgk.1_Silent_p.I481I|ATP6V0A1_uc010cyg.2_Silent_p.I170I|ATP6V0A1_uc010wgl.1_Silent_p.I383I	NM_001130021	NP_001123493	Q93050	VPP1_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit a1	524	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytoplasmic vesicle membrane|endosome membrane|Golgi apparatus|integral to membrane|melanosome|nucleus|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	ATPase binding|hydrogen ion transmembrane transporter activity			pancreas(1)	1		all_cancers(22;1.18e-05)|Breast(137;0.000105)|all_epithelial(22;0.000254)		BRCA - Breast invasive adenocarcinoma(366;0.137)		TTTGGAACATTGCTACCAATA	0.328													58	19					0	0	0.870114	0	0		C	40650953	C	C	40650953	2	2	220	1	0	0	0	0	0	0	0	1	1169	1800	63	3		3	ATP6V0A1	17	40650953	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	2769955	40650953	40544257	149	108069											
INTS2	57508	broad.mit.edu	37	chr17	59946443	59946443	+	Missense_Mutation	SNP	G	C	C	0	0	1	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	agctaaacgagccacactaaGtgactttggtaatgcatatt	14	11	8	8	1	0	1	0	1	0	0	0	2	0	1	1	1	4	3	1	1	5	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:59946443G>C	uc002izn.2	-	23	3296	c.3220C>G	c.(3220-3222)CTT>GTT	p.L1074V	INTS2_uc002izm.2_Missense_Mutation_p.L1066V	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	1074					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						GCCACACTAAGTGACTTTGGT	0.343													38	10					0	0	0.870114	0	0		C	59946443	C	C	59946443	3	2	220	1	0	0	0	0	1	0	0	0	7794	1029	36	5	406	5	INTS2	17	59946443	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	19295490	59946443	21248767	150	108070											
AATK	9625	broad.mit.edu	37	chr17	79095778	79095778	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagtcagcggcagcgggggcGcccctgagctccccaaaggg	7	3	16	15	3	1	1	1	1	0	0	2	1	2	1	4	4	3	2	4	4	1	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr17:79095778G>A	uc010dia.2	-	11	2038	c.1958C>T	c.(1957-1959)GCG>GTG	p.A653V	AATK_uc010dhz.2_RNA	NM_001080395	NP_001073864	Q6ZMQ8	LMTK1_HUMAN	apoptosis-associated tyrosine kinase	653						integral to membrane|mitochondrion|perinuclear region of cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(4)|ovary(2)|lung(2)|upper_aerodigestive_tract(1)	9	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			CAGCGGGGGCGCCCCTGAGCT	0.706													7	11					0	0	0.307466	0	0		A	79095778	A	A	79095778	3	1	220	1	0	0	0	0	1	0	0	0	26	1087	38	1	2182	1	AATK	17	79095778	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	19149335	79095778	2099432	151	108071											
LAMA1	284217	broad.mit.edu	37	chr18	6977748	6977748	+	Missense_Mutation	SNP	T	C	C	0	1	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	aagctgcttgtttgcgggccTggctgatcaacagtttaatt	8	14	11	8	1	1	1	1	1	0	0	1	1	1	1	1	2	4	5	1	2	3	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr18:6977748T>C	uc002knm.2	-	44	6417	c.6323A>G	c.(6322-6324)CAG>CGG	p.Q2108R	LAMA1_uc010wzj.1_Missense_Mutation_p.Q1584R	NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2108	Domain II and I.|Potential.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|upper_aerodigestive_tract(2)|breast(2)|skin(2)|pancreas(2)|central_nervous_system(1)	21		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TTTGCGGGCCTGGCTGATCAA	0.488													18	10					0	0	0.539581	0	0		C	6977748	C	C	6977748	3	2	220	1	0	0	0	0	1	0	0	0	8621	1580	55	3	2984	3	LAMA1	18	6977748	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08		6977748	71099500	152	108072											
TCEB3B	51224	broad.mit.edu	37	chr18	44559804	44559804	+	Missense_Mutation	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gctgctctggggcgtccggaAgccgcaggtactgctccctc	4	8	14	15	3	1	0	0	0	1	0	4	1	3	1	3	4	4	5	3	4	2	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr18:44559804A>G	uc002lcr.1	-	1	2185	c.1832T>C	c.(1831-1833)CTT>CCT	p.L611P	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	611	Activation domain (By similarity).				regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGCGTCCGGAAGCCGCAGGTA	0.502													27	91					0	0	0.693898	0	0		G	44559804	G	G	44559804	3	3	220	1	0	0	0	0	1	0	0	0	15707	72	3	3	433	3	TCEB3B	18	44559804	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	37582056	44559804	33517444	153	108073											
CXXC1	30827	broad.mit.edu	37	chr18	47813192	47813192	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctcggacttgctgtcctcccCggcatctggaggctctgggt	3	11	13	14	2	2	0	0	0	2	0	5	2	4	2	3	5	1	3	3	5	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr18:47813192C>T	uc002leq.3	-	2	773	c.40G>A	c.(40-42)GGG>AGG	p.G14R	CXXC1_uc002lep.3_5'UTR|CXXC1_uc002ler.3_Missense_Mutation_p.G14R|CXXC1_uc010doy.2_Missense_Mutation_p.G14R|CXXC1_uc002les.2_Missense_Mutation_p.G14R	NM_014593	NP_055408	Q9P0U4	CXXC1_HUMAN	CXXC finger 1 (PHD domain) isoform 2	14					histone H3-K4 methylation|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck|Set1C/COMPASS complex	protein binding|unmethylated CpG binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTGTCCTCCCCGGCATCTGGA	0.597													42	83					0	0	0.870114	0	0		T	47813192	T	T	47813192	3	4	220	1	0	0	0	0	1	0	0	0	4100	652	23	1	1998	1	CXXC1	18	47813192	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	3253388	47813192	30264056	154	108074											
DCC	1630	broad.mit.edu	37	chr18	50985613	50985613	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	gttccataggaaacgggccaCccacagtgctggcaaaagga	13	5	12	11	1	0	0	0	0	0	0	1	2	1	2	3	4	2	3	3	4	4	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr18:50985613C>T	uc002lfe.1	+	24	3991	c.3404C>T	c.(3403-3405)ACC>ATC	p.T1135I	DCC_uc010dpf.1_Missense_Mutation_p.T770I	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	1135	Cytoplasmic (Potential).				apoptosis|induction of apoptosis|negative regulation of collateral sprouting|negative regulation of dendrite development	cytosol|integral to membrane				skin(8)|ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	17		all_cancers(7;0.11)|all_epithelial(6;0.00126)		Colorectal(16;0.0251)|COAD - Colon adenocarcinoma(17;0.0942)		AAACGGGCCACCCACAGTGCT	0.448													18	58					0	0	0.575678	0	0		T	50985613	T	T	50985613	3	4	220	1	0	0	0	0	1	0	0	0	4285	507	18	4	3498	4	DCC	18	50985613	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	3172421	50985613	27091635	155	108075											
ADAMTSL5	339366	broad.mit.edu	37	chr19	1508022	1508022	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	1	0	0	0	0	tcacgaaacacgcgctgcacGaaaaggcacgagtcgttggc	12	5	12	12	6	1	0	1	0	0	0	2	3	1	0	0	2	2	4	0	2	3	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:1508022G>C	uc002ltd.2	-	7	1020	c.576C>G	c.(574-576)TTC>TTG	p.F192L	ADAMTSL5_uc010dsl.2_5'UTR|ADAMTSL5_uc010xgq.1_Missense_Mutation_p.F202L	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5 precursor	192						proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CGCGCTGCACGAAAAGGCACG	0.652													4	7					0	0	0.150653	0	0		C	1508022	C	C	1508022	3	2	220	1	0	0	0	0	1	0	0	0	278	1049	37	5	863	5	ADAMTSL5	19	1508022	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08		1508022	57620961	156	108076											
C3	718	broad.mit.edu	37	chr19	6694539	6694539	+	Silent	SNP	C	T	T	0	0	0	1	1	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	tgcacagcgatgaccgtgggCgtcatgccgatcatgttctg	7	10	13	11	4	3	1	2	1	1	0	3	3	3	1	2	1	3	2	2	1	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:6694539C>T	uc002mfm.2	-	24	3119	c.3057G>A	c.(3055-3057)ACG>ACA	p.T1019T	C3_uc002mfl.2_5'Flank	NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	1019					complement activation, alternative pathway|complement activation, classical pathway|G-protein coupled receptor protein signaling pathway|inflammatory response|positive regulation vascular endothelial growth factor production	extracellular space	endopeptidase inhibitor activity|receptor binding			skin(3)|ovary(1)|pancreas(1)	5				GBM - Glioblastoma multiforme(1328;1.36e-05)|Lung(535;0.00661)		TGACCGTGGGCGTCATGCCGA	0.607													23	41					0	0	0.639603	0	0		T	6694539	T	T	6694539	2	4	220	1	0	0	0	0	0	0	0	1	2207	755	27	1		1	C3	19	6694539	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	5186517	6694539	52434444	157	108077											
OR2Z1	284383	broad.mit.edu	37	chr19	8841424	8841424	+	Missense_Mutation	SNP	T	A	A	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	atcagtcggtggcctcagacTtcattctggtgggcctcttc	5	13	11	12	1	5	1	3	0	2	1	7	1	5	1	2	4	0	0	2	4	0	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:8841424T>A	uc010xkg.1	+	1	34	c.34T>A	c.(34-36)TTC>ATC	p.F12I		NM_001004699	NP_001004699	Q8NG97	OR2Z1_HUMAN	olfactory receptor, family 2, subfamily Z,	12	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|skin(1)	2						GGCCTCAGACTTCATTCTGGT	0.502													18	31					0	0	0.575678	0	0		A	8841424	A	A	8841424	3	1	220	1	0	0	0	0	1	0	0	0	11055	1609	56	5	36	5	OR2Z1	19	8841424	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	2146885	8841424	50287559	158	108078											
OR7D4	125958	broad.mit.edu	37	chr19	9324989	9324989	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccggttcacagaagaaatgCggaatctcagtgcctgtgga	11	8	13	9	2	2	2	2	0	1	2	3	4	2	4	2	3	2	1	2	3	3	1	rs111293642	byFrequency	TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:9324989C>T	uc002mla.1	-	1	525	c.525G>A	c.(523-525)CCG>CCA	p.P175P		NM_001005191	NP_001005191	Q8NG98	OR7D4_HUMAN	olfactory receptor, family 7, subfamily D,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4						AGAAGAAATGCGGAATCTCAG	0.507													24	48					0	0	0.654019	0	0		T	9324989	T	T	9324989	2	4	220	1	0	0	0	0	0	0	0	1	11239	755	27	1		1	OR7D4	19	9324989	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	483565	9324989	49803994	159	108079											
CALR3	125972	broad.mit.edu	37	chr19	16590003	16590003	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cgtgcctgttaatttttcccGacagcagctcttcctcctct	5	15	6	15	2	2	0	0	0	2	0	5	1	5	0	4	0	3	3	4	0	1	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:16590003G>A	uc002ned.2	-	9	1157	c.1094C>T	c.(1093-1095)TCG>TTG	p.S365L	MED26_uc002nee.2_RNA	NM_145046	NP_659483	Q96L12	CALR3_HUMAN	calreticulin 3 precursor	365	C-domain.				protein folding	endoplasmic reticulum lumen	calcium ion binding|sugar binding|unfolded protein binding				0						AATTTTTCCCGACAGCAGCTC	0.443													30	55					0	0	0.750413	0	0		A	16590003	A	A	16590003	3	1	220	1	0	0	0	0	1	0	0	0	2596	1059	37	1	64	1	CALR3	19	16590003	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	7265014	16590003	42538980	160	108080											
MAP1S	55201	broad.mit.edu	37	chr19	17838295	17838295	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	1	0	0	0	0	ggacgagtccctgtcggtgtCctttgagcaggtgctgccgc	4	10	15	12	3	0	1	0	1	0	0	3	3	2	2	3	3	3	2	3	3	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:17838295C>G	uc002nhe.1	+	5	2111	c.2102C>G	c.(2101-2103)TCC>TGC	p.S701C	MAP1S_uc010eba.1_Intron|MAP1S_uc002nhf.1_5'UTR|MAP1S_uc010xpv.1_Missense_Mutation_p.S675C	NM_018174	NP_060644	Q66K74	MAP1S_HUMAN	BPY2 interacting protein 1	701	Pro-rich.|Necessary for the microtubule-organizing center localization.|Necessary for interaction with RASSF1 isoform A and isoform C.				apoptosis|brain development|microtubule bundle formation|mitochondrion transport along microtubule|neuron projection morphogenesis	cytosol|dendrite|microtubule|neuronal cell body|nucleus|perinuclear region of cytoplasm|spindle|synapse	actin filament binding|beta-tubulin binding|DNA binding|microtubule binding			central_nervous_system(1)	1						CTGTCGGTGTCCTTTGAGCAG	0.711													4	10					0	0	0.150653	0	0		G	17838295	G	G	17838295	3	3	220	1	0	0	0	0	1	0	0	0	9252	855	30	5	2120	5	MAP1S	19	17838295	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	1248292	17838295	41290688	161	108081											
FKBP8	23770	broad.mit.edu	37	chr19	18652694	18652694	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcaccctctgcatcctcaacCccatccagtacctcgaagtc	9	9	4	19	1	3	0	2	0	1	0	7	1	5	0	6	0	3	2	6	0	3	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:18652694C>T	uc002njk.1	-	2	200	c.87G>A	c.(85-87)GGG>GGA	p.G29G	FKBP8_uc002nji.1_5'Flank|FKBP8_uc010xqi.1_Silent_p.G58G|FKBP8_uc002njj.1_Silent_p.G29G|FKBP8_uc002njl.1_Silent_p.G29G|FKBP8_uc002njm.1_Silent_p.G29G|FKBP8_uc010ebr.1_5'UTR|FKBP8_uc002njn.2_RNA	NM_012181	NP_036313	Q14318	FKBP8_HUMAN	FK506-binding protein 8	29	Glu-rich.				apoptosis|interspecies interaction between organisms|intracellular signal transduction|protein folding	integral to endoplasmic reticulum membrane|mitochondrial membrane	FK506 binding|peptidyl-prolyl cis-trans isomerase activity|protein binding			ovary(1)	1						CATCCTCAACCCCATCCAGTA	0.547													10	9					0	0	0.335167	0	0		T	18652694	T	T	18652694	2	4	220	1	0	0	0	0	0	0	0	1	5928	610	22	4		4	FKBP8	19	18652694	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	814399	18652694	40476289	162	108082											
ZNF486	90649	broad.mit.edu	37	chr19	20295168	20295168	+	Missense_Mutation	SNP	T	C	C	0	1	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	gtgtgtgtgtttttcaggaaTcattgcaatttagagatgtg	9	17	12	3	0	2	1	2	0	0	1	2	3	2	2	0	1	1	2	0	1	3	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:20295168T>C	uc002nou.2	+	2	91	c.34T>C	c.(34-36)TCA>CCA	p.S12P		NM_052852	NP_443084	Q96H40	ZN486_HUMAN	zinc finger protein 486	12					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTTCAGGAATCATTGCAATT	0.398													99	81					0	0	0.870114	0	0		C	20295168	C	C	20295168	3	2	220	1	0	0	0	0	1	0	0	0	17964	1435	50	3	40	3	ZNF486	19	20295168	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	1642474	20295168	38833815	163	108083											
PAK4	10298	broad.mit.edu	37	chr19	39664631	39664631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cctgcgcaagcagcagaggcGcgagctgctcttcaacgagg	9	5	14	13	4	2	1	1	0	1	1	2	3	2	1	1	2	6	5	1	2	2	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:39664631G>A	uc002okj.1	+	6	1540	c.1079G>A	c.(1078-1080)CGC>CAC	p.R360H	PAK4_uc002okl.1_Missense_Mutation_p.R360H|PAK4_uc002okn.1_Missense_Mutation_p.R360H|PAK4_uc002okm.1_Missense_Mutation_p.R207H|PAK4_uc002oko.1_Missense_Mutation_p.R207H|PAK4_uc002okp.1_Missense_Mutation_p.R270H	NM_001014831	NP_001014831	O96013	PAK4_HUMAN	p21-activated kinase 4 isoform 1	360	Protein kinase.				cellular component movement|signal transduction	Golgi apparatus	ATP binding|protein binding|protein serine/threonine kinase activity			lung(3)|ovary(1)	4	all_cancers(60;1.03e-07)|all_epithelial(25;9.66e-08)|all_lung(34;1.58e-07)|Lung NSC(34;1.88e-07)|Ovarian(47;0.0454)		Epithelial(26;4.82e-25)|all cancers(26;2.94e-22)|Lung(45;0.000797)|LUSC - Lung squamous cell carcinoma(53;0.00113)			CAGCAGAGGCGCGAGCTGCTC	0.517													8	6					0	0	0.307466	0	0		A	39664631	A	A	39664631	3	1	220	1	0	0	0	0	1	0	0	0	11422	1087	38	1	1089	1	PAK4	19	39664631	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	19369463	39664631	19464352	164	108084											
ZC3H4	23211	broad.mit.edu	37	chr19	47597703	47597703	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	ttctctttctcccgctctttCttccgtttccgcttcagtct	1	20	4	16	3	6	0	1	0	5	0	10	0	8	0	3	0	0	3	3	0	0	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:47597703C>G	uc002pga.3	-	3	362	c.324G>C	c.(322-324)AAG>AAC	p.K108N	ZC3H4_uc002pgb.1_RNA	NM_015168	NP_055983	Q9UPT8	ZC3H4_HUMAN	zinc finger CCCH-type containing 4	108	Potential.						nucleic acid binding|zinc ion binding			skin(4)|ovary(2)	6		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)		CCCGCTCTTTCTTCCGTTTCC	0.552													103	323					0	0	0.870114	0	0		G	47597703	G	G	47597703	3	3	220	1	0	0	0	0	1	0	0	0	17595	912	32	5	3639	5	ZC3H4	19	47597703	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	7933072	47597703	11531280	165	108085											
RCN3	57333	broad.mit.edu	37	chr19	50031892	50031892	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cccacgggaacttccagtacGaccatgaggctttcctggga	9	8	11	13	2	0	1	0	1	0	0	2	4	2	3	4	3	2	2	4	3	2	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:50031892G>A	uc002poj.2	+	2	610	c.163G>A	c.(163-165)GAC>AAC	p.D55N		NM_020650	NP_065701	Q96D15	RCN3_HUMAN	reticulocalbin 3, EF-hand calcium binding domain	55						endoplasmic reticulum lumen	calcium ion binding|protein binding			ovary(1)	1		all_lung(116;7.84e-06)|Lung NSC(112;2.8e-05)|all_neural(266;0.0966)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00295)|GBM - Glioblastoma multiforme(134;0.0159)		CTTCCAGTACGACCATGAGGC	0.642													54	50					0	0	0.870114	0	0		A	50031892	A	A	50031892	3	1	220	1	0	0	0	0	1	0	0	0	13206	1058	37	1	165	1	RCN3	19	50031892	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	2434189	50031892	9097091	166	108086											
ZNF347	84671	broad.mit.edu	37	chr19	53644890	53644890	+	Silent	SNP	T	C	C	0	1	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	ttacatttgtaaggtttttcTccactgtgggttgcctgatg	6	18	10	7	0	1	1	0	1	1	0	2	1	1	1	2	2	2	3	2	2	2	6	rs145023051		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:53644890T>C	uc002qbb.1	-	5	1260	c.1191A>G	c.(1189-1191)GGA>GGG	p.G397G	ZNF347_uc010eql.1_Silent_p.G398G|ZNF347_uc002qbc.1_Silent_p.G398G	NM_032584	NP_115973	Q96SE7	ZN347_HUMAN	zinc finger protein 347	397					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.0179)		AAGGTTTTTCTCCACTGTGGG	0.413													67	53					0	0	0.870114	0	0		C	53644890	C	C	53644890	2	2	220	1	0	0	0	0	0	0	0	1	17886	1538	54	3		3	ZNF347	19	53644890	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	3612998	53644890	5484093	167	108087											
VN1R2	317701	broad.mit.edu	37	chr19	53762323	53762323	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	catttttcctatttatacaaCtggcaaatggagcaacaaca	15	12	5	9	0	0	0	0	0	0	0	1	1	1	1	1	2	5	2	1	2	7	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:53762323C>A	uc002qbi.2	+	1	779	c.695C>A	c.(694-696)ACT>AAT	p.T232N		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	232	Extracellular (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		ATTTATACAACTGGCAAATGG	0.423													36	45					6.02846e-25	6.47136e-25	0.779181	1	0		A	53762323	A	A	53762323	3	1	220	1	0	0	0	0	1	0	0	0	17205	565	20	5	697	5	VN1R2	19	53762323	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	117433	53762323	5366660	168	108088											
VN1R4	317703	broad.mit.edu	37	chr19	53770580	53770580	+	Silent	SNP	T	C	C	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaagttttgcccacctggaTttcctggagctgaccgtgat	7	14	10	10	1	0	2	0	2	0	0	1	4	1	4	4	2	2	2	4	2	1	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:53770580T>C	uc010ydu.1	-	1	339	c.339A>G	c.(337-339)AAA>AAG	p.K113K		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	113	Cytoplasmic (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		CCCACCTGGATTTCCTGGAGC	0.498										HNSCC(26;0.072)			25	22					0	0	0.681144	0	0		C	53770580	C	C	53770580	2	2	220	1	0	0	0	0	0	0	0	1	17206	1490	52	3		3	VN1R4	19	53770580	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	8257	53770580	5358403	169	108089											
VN1R4	317703	broad.mit.edu	37	chr19	53770593	53770593	+	Missense_Mutation	SNP	A	C	C	1	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	acctggatttcctggagctgAccgtgatcacctggaagaca	10	9	11	11	1	1	3	1	2	0	1	2	6	2	6	4	3	1	1	4	3	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:53770593A>C	uc010ydu.1	-	1	326	c.326T>G	c.(325-327)GTC>GGC	p.V109G		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	109	Helical; Name=3; (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		CCTGGAGCTGACCGTGATCAC	0.502										HNSCC(26;0.072)			21	20					0	0	0.639603	0	0		C	53770593	C	C	53770593	3	2	220	1	0	0	0	0	1	0	0	0	17206	275	10	5	582	5	VN1R4	19	53770593	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	13	53770593	5358390	170	108090											
CNOT3	4849	broad.mit.edu	37	chr19	54659088	54659090	+	In_Frame_Del	DEL	GAA	-	-																															tacgagaagtggggccagcgGaagaaggaaggcttcacctt																										TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:54659088_54659090delGAA	uc002qdj.1	+	18	2516_2518	c.2205_2207delGAA	c.(2203-2208)CGGAAG>CGG	p.K737del	CNOT3_uc002qdi.2_3'UTR|CNOT3_uc002qdk.1_In_Frame_Del_p.K737del|CNOT3_uc010ere.1_RNA	NM_014516	NP_055331	O75175	CNOT3_HUMAN	CCR4-NOT transcription complex, subunit 3	737					nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol|nucleus	protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					GGGGCCAGCGGAAGAAGGAAGGC	0.635													11	13	---	---	---	---						.	-	54659090	-	-	54659088	7	5	220	1	0	1	0	1	0	0	0	0	3623	1161	41	0	2271	0	CNOT3	19	54659088	In_Frame_Del	DEL	GAA	TCGA-IN-8663-01A-11D-2394-08	888495	54659088	4469895	171	108091											
TMC4	147798	broad.mit.edu	37	chr19	54664210	54664210	+	Silent	SNP	T	C	C	0	1	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	cccgcctggctcaccgtctgTctctgacgtttgagctcaga	5	11	10	15	3	4	3	2	2	2	1	5	3	4	3	3	1	1	3	3	1	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:54664210T>C	uc010erf.2	-	14	2196	c.2064A>G	c.(2062-2064)AGA>AGG	p.R688R	LENG1_uc002qdm.2_5'Flank|TMC4_uc002qdn.2_Silent_p.R402R|TMC4_uc002qdo.2_Silent_p.R682R	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	688	Cytoplasmic (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)					TCACCGTCTGTCTCtgacgtt	0.473													49	37					0	0	0.870114	0	0		C	54664210	C	C	54664210	2	2	220	1	0	0	0	0	0	0	0	1	16012	1664	58	3		3	TMC4	19	54664210	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	5122	54664210	4464773	172	108092											
ZNF471	57573	broad.mit.edu	37	chr19	57037314	57037314	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	agtcatactggagaagaaccTtaagaatgtagtgcatgtgg	14	10	12	5	0	1	3	1	0	0	3	1	4	1	3	1	2	3	2	1	2	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:57037314T>G	uc002qnh.2	+	5	2011	c.1878T>G	c.(1876-1878)CCT>CCG	p.P626P		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	626					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		GAGAAGAACCTTAAGAATGTA	0.388													44	43					0	0	0.864702	0	0		G	57037314	G	G	57037314	2	3	220	1	0	0	0	0	0	0	0	1	17955	1596	56	5		5	ZNF471	19	57037314	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	2373104	57037314	2091669	173	108093											
ZNF71	58491	broad.mit.edu	37	chr19	57133214	57133214	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	acacgggcgagaagccctatGcctgcggggactgcggcaag	9	4	16	12	4	0	1	0	0	0	1	0	3	0	2	2	4	4	1	2	4	3	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:57133214G>T	uc002qnm.3	+	3	797	c.559G>T	c.(559-561)GCC>TCC	p.A187S		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	187	C2H2-type 3.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1				GBM - Glioblastoma multiforme(193;0.062)|Lung(386;0.0681)|LUSC - Lung squamous cell carcinoma(496;0.18)		GAAGCCCTATGCCTGCGGGGA	0.632													33	26					1.56442e-22	1.67253e-22	0.760397	1	0		T	57133214	T	T	57133214	3	4	220	1	0	0	0	0	1	0	0	0	18139	1319	46	5	561	5	ZNF71	19	57133214	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	95900	57133214	1995769	174	108094											
ZNF814	730051	broad.mit.edu	37	chr19	58385714	58385714	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ccacattcataatgttttttTtcagtgtgaactctctgatg	9	18	6	8	0	3	2	2	2	1	0	4	2	3	2	1	0	1	1	1	0	2	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:58385714T>G	uc002qqo.2	-	3	1316	c.1044A>C	c.(1042-1044)GAA>GAC	p.E348D	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	348					regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						AATGTTTTTTTTCAGTGTGAA	0.368													7	13					0	0	0.27861	0	0		G	58385714	G	G	58385714	3	3	220	1	0	0	0	0	1	0	0	0	18201	1838	64	5	1527	5	ZNF814	19	58385714	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	1252500	58385714	743269	175	108095											
ZNF329	79673	broad.mit.edu	37	chr19	58639918	58639918	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	tgaagggtttcccacattcgTtacatctatatggtttttcc	8	17	7	9	1	1	1	0	1	1	0	4	1	3	1	2	2	1	3	2	2	4	7			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr19:58639918T>G	uc002qrn.2	-	4	1190	c.953A>C	c.(952-954)AAC>ACC	p.N318T	ZNF329_uc010euk.1_RNA|ZNF329_uc002qro.1_RNA|ZNF329_uc002qrp.1_RNA	NM_024620	NP_078896	Q86UD4	ZN329_HUMAN	zinc finger protein 329	318	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.029)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.017)|Lung(386;0.216)		CCCACATTCGTTACATCTATA	0.428													41	87					0	0	0.812448	0	0		G	58639918	G	G	58639918	3	3	220	1	0	0	0	0	1	0	0	0	17872	1725	60	5	676	5	ZNF329	19	58639918	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08	254204	58639918	489065	176	108096											
ProSAPiP1	9762	broad.mit.edu	37	chr20	3146889	3146889	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	tccgcctttgaggccaccagGgccctgccgtccctcaggag	5	7	12	17	2	1	1	1	1	0	0	3	2	3	2	7	3	1	0	7	3	0	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr20:3146889G>C	uc002wia.1	-	2	1975	c.577C>G	c.(577-579)CCT>GCT	p.P193A	ProSAPiP1_uc002wib.1_Missense_Mutation_p.P193A	NM_014731	NP_055546	O60299	PRIP1_HUMAN	ProSAPiP1 protein	193						cell junction|cytoplasm|postsynaptic density|postsynaptic membrane				pancreas(1)	1						AGGCCACCAGGGCCCTGCCGT	0.622													6	21					0	0	0.217242	0	0		C	3146889	C	C	3146889	3	2	220	1	0	0	0	0	1	0	0	0	12895	1232	43	5	1452	5	ProSAPiP1	20	3146889	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08		3146889	59878631	177	108097											
C20orf196	149840	broad.mit.edu	37	chr20	5843951	5843951	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggcccgggtgatcttcaacCgggacggctgctccgtctta	5	10	13	13	4	3	1	1	1	2	0	4	2	4	2	3	4	2	2	3	4	2	2	rs140278441		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr20:5843951C>T	uc002wmf.2	+	3	547	c.460C>T	c.(460-462)CGG>TGG	p.R154W		NM_152504	NP_689717	Q8IYI0	CT196_HUMAN	hypothetical protein LOC149840	154											0						GATCTTCAACCGGGACGGCTG	0.522													17	54					0	0	0.539581	0	0		T	5843951	T	T	5843951	3	4	220	1	0	0	0	0	1	0	0	0	2104	643	23	1	466	1	C20orf196	20	5843951	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	2697062	5843951	57181569	178	108098											
REM1	28954	broad.mit.edu	37	chr20	30064147	30064147	+	Translation_Start_Site	SNP	C	G	G	0	0	0	1	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gaagccatacagcagctcatCaggacactatagaaagaagc	17	5	9	10	0	2	2	2	0	0	2	2	4	2	3	1	1	5	2	1	1	6	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr20:30064147C>G	uc002wwa.2	+	2	183	c.-101C>G	c.(-103--99)ATCAG>ATGAG			NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM						small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			AGCAGCTCATCAGGACACTAT	0.507													7	30					0	0	0.248553	0	0		G	30064147	G	G	30064147	1	3	220	1	0	0	0	0	0	0	0	0	13247	841	29	5		5	REM1	20	30064147	Translation_Start_Site	SNP	C	TCGA-IN-8663-01A-11D-2394-08	24220196	30064147	32961373	179	108099											
REM1	28954	broad.mit.edu	37	chr20	30064401	30064401	+	Silent	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cggctgggccaatcagcctcCctcaaccctcccacccagaa	9	5	7	20	1	2	1	2	0	0	1	4	1	4	1	6	2	2	1	6	2	3	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr20:30064401C>T	uc002wwa.2	+	2	437	c.153C>T	c.(151-153)TCC>TCT	p.S51S		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	51					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			AATCAGCCTCCCTCAACCCTC	0.642													15	80					0	0	0.500413	0	0		T	30064401	T	T	30064401	2	4	220	1	0	0	0	0	0	0	0	1	13247	610	22	4		4	REM1	20	30064401	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	254	30064401	32961119	180	108100											
KCNG1	3755	broad.mit.edu	37	chr20	49626407	49626407	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gccgtccaggtggtcctccgCgatgccccagtacagcagct	6	7	12	16	3	0	0	0	0	0	0	3	1	3	0	6	2	4	3	6	2	1	1			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr20:49626407C>T	uc002xwa.3	-	2	764	c.469G>A	c.(469-471)GCG>ACG	p.A157T	KCNG1_uc002xwb.2_Missense_Mutation_p.A157T	NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	157	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2						TGGTCCTCCGCGATGCCCCAG	0.657													32	62					0	0	0.740014	0	0		T	49626407	T	T	49626407	3	4	220	1	0	0	0	0	1	0	0	0	8043	768	27	1	1080	1	KCNG1	20	49626407	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	19562006	49626407	13399113	181	108101											
BRWD1	54014	broad.mit.edu	37	chr21	40571563	40571563	+	Silent	SNP	A	G	G	1	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	tttcgagtggcttttctgccAcatccatttgctaatgaaac	9	15	7	10	1	1	1	0	1	1	0	3	2	2	1	2	1	3	2	2	1	2	5	rs2234546		TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr21:40571563A>G	uc002yxk.1	-	40	4918	c.4779T>C	c.(4777-4779)TGT>TGC	p.C1593C	BRWD1_uc010goc.1_Silent_p.C236C|BRWD1_uc002yxl.2_Silent_p.C1593C	NM_018963	NP_061836	Q9NSI6	BRWD1_HUMAN	bromodomain and WD repeat domain containing 1	1593					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				skin(3)|ovary(1)	4		Prostate(19;8.44e-08)|all_epithelial(19;0.223)				CTTTTCTGCCACATCCATTTG	0.318											OREG0003861	type=REGULATORY REGION|Gene=BRWD1|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	4	56					0	0	0.217242	0	0		G	40571563	G	G	40571563	2	3	220	1	0	0	0	0	0	0	0	1	1528	157	6	3		3	BRWD1	21	40571563	Silent	SNP	A	TCGA-IN-8663-01A-11D-2394-08		40571563	7558332	182	108102											
ARVCF	421	broad.mit.edu	37	chr22	19960533	19960533	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgtctgcagcacgtgtgacGccgccttcgcttcgcgtacc	4	10	11	16	6	1	1	0	1	1	0	3	1	1	1	3	0	3	4	3	0	1	3	rs115199082	by1000genomes	TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr22:19960533G>A	uc002zqz.2	-	15	2736	c.2465C>T	c.(2464-2466)GCG>GTG	p.A822V	ARVCF_uc002zqy.2_Missense_Mutation_p.A338V	NM_001670	NP_001661	O00192	ARVC_HUMAN	armadillo repeat protein	822	ARM 10.				cell adhesion|multicellular organismal development		protein binding			liver(1)	1	Colorectal(54;0.0993)					CACGTGTGACGCCGCCTTCGC	0.687													5	59					0	0	0.184627	0	0		A	19960533	A	A	19960533	3	1	220	1	0	0	0	0	1	0	0	0	1004	1087	38	1	443	1	ARVCF	22	19960533	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08		19960533	31344033	183	108103											
TOM1	10043	broad.mit.edu	37	chr22	35743071	35743071	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ttgacaaattcctggaagaaCgggccaaagccgcggaccga	13	5	12	11	4	0	2	0	1	0	1	1	5	1	4	4	3	2	0	4	3	4	2			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr22:35743071C>T	uc003ann.2	+	15	1473	c.1348C>T	c.(1348-1350)CGG>TGG	p.R450W	TOM1_uc011ami.1_Missense_Mutation_p.R418W|TOM1_uc011amj.1_Missense_Mutation_p.R293W|TOM1_uc003ans.2_Missense_Mutation_p.R293W|TOM1_uc011amk.1_Missense_Mutation_p.R412W|TOM1_uc003anp.2_Missense_Mutation_p.R451W|TOM1_uc011aml.1_Missense_Mutation_p.R405W|TOM1_uc003ano.2_RNA|TOM1_uc003anq.2_Missense_Mutation_p.R444W|TOM1_uc003anr.2_Missense_Mutation_p.R293W	NM_005488	NP_005479	O60784	TOM1_HUMAN	target of myb1 isoform 1	450					endocytosis|endosome transport|intracellular protein transport	cytosol|early endosome|membrane	protein binding			ovary(1)	1						CCTGGAAGAACGGGCCAAAGC	0.672													38	15					0	0	0.827153	0	0		T	35743071	T	T	35743071	3	4	220	1	0	0	0	0	1	0	0	0	16376	527	19	1	1409	1	TOM1	22	35743071	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	15782538	35743071	15561495	184	108104											
APOL2	23780	broad.mit.edu	37	chr22	36624137	36624137	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	1	0	1	0	0	0	gcaatggtggtgcctctgtgGacctgctcaacctcctctgc	5	11	11	14	0	3	0	1	0	2	0	4	1	4	1	4	3	4	2	4	3	2	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chr22:36624137G>A	uc003aoz.2	-	5	663	c.327C>T	c.(325-327)GTC>GTT	p.V109V	APOL2_uc011amm.1_Silent_p.V221V|APOL2_uc003apa.2_Silent_p.V109V	NM_030882	NP_112092	Q9BQE5	APOL2_HUMAN	apolipoprotein L2	109					acute-phase response|cholesterol metabolic process|lipid transport|lipoprotein metabolic process|maternal process involved in female pregnancy|multicellular organismal development	endoplasmic reticulum membrane|extracellular region	high-density lipoprotein particle binding|lipid binding|receptor binding				0						TGCCTCTGTGGACCTGCTCAA	0.552													34	66					0	0	0.750413	0	0		A	36624137	A	A	36624137	2	1	220	1	0	0	0	0	0	0	0	1	806	1161	41	4		4	APOL2	22	36624137	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	881066	36624137	14680429	185	108105											
SCML2	10389	broad.mit.edu	37	chrX	18352182	18352182	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	aatcttaccttcattcactgTttgtcccatggtatccctat	8	17	4	12	0	3	0	2	0	1	0	5	0	5	0	3	1	1	2	3	1	4	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:18352182T>G	uc004cyl.2	-	2	167	c.10A>C	c.(10-12)ACA>CCA	p.T4P	SCML2_uc004cyk.3_RNA|SCML2_uc010nfd.1_Missense_Mutation_p.T4P|SCML2_uc011miz.1_5'UTR	NM_006089	NP_006080	Q9UQR0	SCML2_HUMAN	sex comb on midleg-like 2	4					anatomical structure morphogenesis	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0	Hepatocellular(33;0.183)					TCATTCACTGTTTGTCCCATG	0.328													12	2					0	0	0.500413	0	0		G	18352182	G	G	18352182	3	3	220	1	0	0	0	0	1	0	0	0	13935	1725	60	5	2148	5	SCML2	23	18352182	Missense_Mutation	SNP	T	TCGA-IN-8663-01A-11D-2394-08		18352182	136918378	186	108106											
MAGEB4	4115	broad.mit.edu	37	chrX	30261268	30261268	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	tgcgtattccagggccacatCcagtagctcttcccaaccca	9	9	7	16	1	1	0	0	0	1	0	4	0	4	0	5	1	3	3	5	1	3	4			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:30261268C>T	uc004dcb.2	+	1	1100	c.1016C>T	c.(1015-1017)TCC>TTC	p.S339F	MAGEB1_uc004dcc.2_5'Flank|MAGEB1_uc004dcd.2_5'Flank	NM_002367	NP_002358	O15481	MAGB4_HUMAN	melanoma antigen family B, 4	339										ovary(1)	1						AGGGCCACATCCAGTAGCTCT	0.512													17	3					0	0	0.557998	0	0		T	30261268	T	T	30261268	3	4	220	1	0	0	0	0	1	0	0	0	9196	855	30	4	1018	4	MAGEB4	23	30261268	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	11909086	30261268	125009292	187	108107											
KLHL4	56062	broad.mit.edu	37	chrX	86877393	86877393	+	Silent	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	gaactggggatgctgctttcTtacatcagactgccattact	9	13	9	10	0	2	1	1	0	1	1	2	3	2	2	1	2	6	2	1	2	3	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:86877393T>G	uc004efb.2	+	5	1289	c.1107T>G	c.(1105-1107)TCT>TCG	p.S369S	KLHL4_uc004efa.2_Silent_p.S369S	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1	369						cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TGCTGCTTTCTTACATCAGAC	0.413													82	11					0	0	0.870114	0	0		G	86877393	G	G	86877393	2	3	220	1	0	0	0	0	0	0	0	1	8407	1596	56	5		5	KLHL4	23	86877393	Silent	SNP	T	TCGA-IN-8663-01A-11D-2394-08	56616125	86877393	68393167	188	108108											
NAP1L3	4675	broad.mit.edu	37	chrX	92927344	92927344	+	Silent	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ggcccgagcttgtcaacattCtttaaaacaatcagccaata	14	10	6	11	1	3	0	2	0	1	0	3	1	3	0	2	1	4	1	2	1	6	5			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:92927344C>T	uc004efq.2	-	1	1265	c.960G>A	c.(958-960)AAG>AAA	p.K320K	FAM133A_uc004efr.1_5'Flank	NM_004538	NP_004529	Q99457	NP1L3_HUMAN	nucleosome assembly protein 1-like 3	320					nucleosome assembly	chromatin assembly complex				ovary(1)|skin(1)	2						TGTCAACATTCTTTAAAACAA	0.438													61	10					0	0	0.870114	0	0		T	92927344	T	T	92927344	2	4	220	1	0	0	0	0	0	0	0	1	10176	912	32	4		4	NAP1L3	23	92927344	Silent	SNP	C	TCGA-IN-8663-01A-11D-2394-08	6049951	92927344	62343216	189	108109											
NRK	203447	broad.mit.edu	37	chrX	105190451	105190451	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tgtctgatgtgaccctgccaAagaatgtaagataacacctt	13	11	8	9	0	1	4	0	2	1	2	1	4	1	4	3	0	2	1	3	0	4	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:105190451A>C	uc004emd.2	+	26	4651	c.4348A>C	c.(4348-4350)AAG>CAG	p.K1450Q	NRK_uc011msi.1_5'Flank	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	1450	CNH.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						GACCCTGCCAAAGAATGTAAG	0.348										HNSCC(51;0.14)			67	11					0	0	0.870114	0	0		C	105190451	C	C	105190451	3	2	220	1	0	0	0	0	1	0	0	0	10674	15	1	5	4450	5	NRK	23	105190451	Missense_Mutation	SNP	A	TCGA-IN-8663-01A-11D-2394-08	12263107	105190451	50080109	190	108110											
SPANXN3	139067	broad.mit.edu	37	chrX	142596856	142596856	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gatggagttctcttgggactGttcattctccagttgatttg	6	17	11	7	0	3	1	1	1	2	0	5	4	3	3	1	2	0	3	1	2	0	6			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:142596856G>T	uc004fbw.2	-	2	302	c.214C>A	c.(214-216)CAG>AAG	p.Q72K		NM_001009609	NP_001009609	Q5MJ09	SPXN3_HUMAN	SPANX-N3 protein	72										ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TCTTGGGACTGTTCATTCTCC	0.388													203	20					2.19268e-84	2.42301e-84	0.870114	1	0		T	142596856	T	T	142596856	3	4	220	1	0	0	0	0	1	0	0	0	15017	1386	48	5	215	5	SPANXN3	23	142596856	Missense_Mutation	SNP	G	TCGA-IN-8663-01A-11D-2394-08	37406405	142596856	12673704	191	108111											
AFF2	2334	broad.mit.edu	37	chrX	147743836	147743836	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caagccaaactggaagacttCtttgtctacccagctgaaca	13	9	7	12	0	2	2	0	1	2	1	2	3	2	3	2	1	5	1	2	1	5	3			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:147743836C>A	uc004fcp.2	+	3	1067	c.588C>A	c.(586-588)TTC>TTA	p.F196L	AFF2_uc004fco.2_Missense_Mutation_p.F192L|AFF2_uc004fcq.2_Missense_Mutation_p.F192L|AFF2_uc004fcr.2_Missense_Mutation_p.F192L|AFF2_uc011mxb.1_Missense_Mutation_p.F196L|AFF2_uc004fcs.2_Missense_Mutation_p.F192L	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	196					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					TGGAAGACTTCTTTGTCTACC	0.483													276	15					8.70211e-101	9.65678e-101	0.870114	1	0		A	147743836	A	A	147743836	3	1	220	1	0	0	0	0	1	0	0	0	357	912	32	5	598	5	AFF2	23	147743836	Missense_Mutation	SNP	C	TCGA-IN-8663-01A-11D-2394-08	5146980	147743836	7526724	192	108112											
FLNA	2316	broad.mit.edu	37	chrX	153592921	153592921	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gggtggaagtcctggggcgcGtcacggatgtcagccatgaa	8	7	17	9	3	2	1	2	1	0	0	3	3	3	3	2	5	1	0	2	5	2	0			TCGA-IN-8663-01A-11D-2394-08	TCGA-IN-8663-11A-01D-2394-08									Somatic	Phase_I	Capture				Illumina GAIIx	2d623764-e721-4047-95f9-0dd043773c44	d61b230b-32df-4b22-a686-8c943bd1f7a8	g.chrX:153592921G>A	uc004fkk.2	-	13	2244	c.1995C>T	c.(1993-1995)GAC>GAT	p.D665D	FLNA_uc010nuu.1_Silent_p.D665D	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	665					actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					CCTGGGGCGCGTCACGGATGT	0.622													108	13					0	0	0.870114	0	0		A	153592921	A	A	153592921	2	1	220	1	0	0	0	0	0	0	0	1	5947	1136	40	1		1	FLNA	23	153592921	Silent	SNP	G	TCGA-IN-8663-01A-11D-2394-08	5849085	153592921	1677639	193	108113											
PTCHD2	57540	broad.mit.edu	37	chr1	11561896	11561896	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	agctcatcttcctggcgcgcGgcgacgcggagcgcaacatt	7	7	13	14	7	2	0	1	0	1	0	3	2	3	1	1	3	3	2	1	3	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:11561896G>A	uc001ash.3	+	2	985	c.847G>A	c.(847-849)GGC>AGC	p.G283S	PTCHD2_uc001asi.1_Missense_Mutation_p.G283S	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	283	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		CCTGGCGCGCGGCGACGCGGA	0.647													6	18					0	0	1	0	0		A	11561896	A	A	11561896	3	1	221	1	0	0	0	0	1	0	0	0	12755	1116	39	1	849	1	PTCHD2	1	11561896	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08		11561896	237688725	1	108114											
CSMD2	114784	broad.mit.edu	37	chr1	34070967	34070967	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tggccagtcaattgatacccCgggaggcactcgaaggtcac	10	7	12	12	2	2	1	2	1	0	0	3	3	2	2	3	4	1	1	3	4	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:34070967C>T	uc001bxn.1	-	43	6482	c.6453G>A	c.(6451-6453)CCG>CCA	p.P2151P	CSMD2_uc001bxm.1_Silent_p.P2149P|CSMD2_uc001bxo.1_Silent_p.P1022P	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2151	Sushi 12.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				ATTGATACCCCGGGAGGCACT	0.577													15	32					0	0	1	0	0		T	34070967	T	T	34070967	2	4	221	1	0	0	0	0	0	0	0	1	3948	639	23	1		1	CSMD2	1	34070967	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	22509071	34070967	215179654	2	108115											
DLGAP3	58512	broad.mit.edu	37	chr1	35365751	35365751	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gggagatgtcttggggctgcCgtctgagtctccgctctcct	3	12	14	12	2	4	2	0	1	4	1	6	3	4	2	3	3	1	2	3	3	0	1	rs146586197	by1000genomes	TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:35365751C>T	uc001byc.2	-	2	1231	c.1231G>A	c.(1231-1233)GGC>AGC	p.G411S		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	411					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)				TTGGGGCTGCCGTCTGAGTCT	0.642													46	69					0	0	1	0	0		T	35365751	T	T	35365751	3	4	221	1	0	0	0	0	1	0	0	0	4567	652	23	1	1744	1	DLGAP3	1	35365751	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	1294784	35365751	213884870	3	108116											
COL11A1	1301	broad.mit.edu	37	chr1	103435780	103435780	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	aacaaggtcacttacagtctCcccacgttgcccagggtgtc	9	9	9	14	1	2	0	1	0	1	0	4	0	2	0	3	2	3	1	3	2	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:103435780C>T	uc001dul.2	-	37	3175	c.2857G>A	c.(2857-2859)GAG>AAG	p.E953K	COL11A1_uc001duk.2_Missense_Mutation_p.E149K|COL11A1_uc001dum.2_Missense_Mutation_p.E965K|COL11A1_uc001dun.2_Missense_Mutation_p.E914K|COL11A1_uc009weh.2_Missense_Mutation_p.E837K	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	953	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CTTACAGTCTCCCCACGTTGC	0.363													13	48					0	0	1	0	0		T	103435780	T	T	103435780	3	4	221	1	0	0	0	0	1	0	0	0	3670	864	30	4	2687	4	COL11A1	1	103435780	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	68070029	103435780	145814841	4	108117											
SHE	126669	broad.mit.edu	37	chr1	154461630	154461630	+	Silent	SNP	C	T	T	0	0	0	1	1	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	agccggctgtctgggggccgCgccttcccctctgccctggg	1	8	15	17	3	2	0	0	0	2	0	3	0	3	0	6	4	2	1	6	4	0	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:154461630C>T	uc001ffb.2	-	3	1008	c.921G>A	c.(919-921)GCG>GCA	p.A307A	SHE_uc001ffc.2_RNA	NM_001010846	NP_001010846	Q5VZ18	SHE_HUMAN	Src homology 2 domain containing E	307										breast(3)|ovary(2)|central_nervous_system(1)	6	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)			CTGGGGGCCGCGCCTTCCCCT	0.662													5	27					0	0	1	0	0		T	154461630	T	T	154461630	2	4	221	1	0	0	0	0	0	0	0	1	14301	755	27	1		1	SHE	1	154461630	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	51025850	154461630	94788991	5	108118											
OR10X1	128367	broad.mit.edu	37	chr1	158549094	158549094	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	tacaagacagcctaataactGccagcatatggcagaagaag	17	6	9	9	0	0	3	0	0	0	3	0	3	0	3	2	1	5	2	2	1	7	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:158549094G>T	uc010pin.1	-	1	596	c.596C>A	c.(595-597)GCA>GAA	p.A199E		NM_001004477	NP_001004477	Q8NGY0	O10X1_HUMAN	olfactory receptor, family 10, subfamily X,	199	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CCTAATAACTGCCAGCATATG	0.443													17	33					1.96292e-10	2.10414e-10	1	1	0		T	158549094	T	T	158549094	3	4	221	1	0	0	0	0	1	0	0	0	10941	1319	46	5	379	5	OR10X1	1	158549094	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	4087464	158549094	90701527	6	108119											
PAPPA2	60676	broad.mit.edu	37	chr1	176564113	176564113	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gactgacttggtcctgacagCgagctttgagcctgtgaaca	9	10	12	10	1	0	4	0	4	0	0	1	6	1	4	2	1	4	1	2	1	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:176564113C>T	uc001gkz.2	+	3	2537	c.1373C>T	c.(1372-1374)GCG>GTG	p.A458V	PAPPA2_uc001gky.1_Missense_Mutation_p.A458V|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	458	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GTCCTGACAGCGAGCTTTGAG	0.532													19	48					0	0	1	0	0		T	176564113	T	T	176564113	3	4	221	1	0	0	0	0	1	0	0	0	11452	768	27	1	1379	1	PAPPA2	1	176564113	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	18015019	176564113	72686508	7	108120											
ASTN1	460	broad.mit.edu	37	chr1	176845761	176845761	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cgtcctgtgttgtccactccCcacagcgtgaacctggcagg	6	9	11	15	2	0	1	0	1	0	0	3	1	3	1	5	2	2	2	5	2	1	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:176845761C>A	uc001glc.2	-	21	3587	c.3375G>T	c.(3373-3375)TGG>TGT	p.W1125C	ASTN1_uc001glb.1_Missense_Mutation_p.W1125C|ASTN1_uc001gld.1_Missense_Mutation_p.W1125C	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	1133	Fibronectin type-III 1.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						TGTCCACTCCCCACAGCGTGA	0.602													8	26					1.12685e-05	1.15794e-05	1	1	0		A	176845761	A	A	176845761	3	1	221	1	0	0	0	0	1	0	0	0	1065	624	22	5	525	5	ASTN1	1	176845761	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	281648	176845761	72404860	8	108121											
ASPM	259266	broad.mit.edu	37	chr1	197070783	197070783	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	cagcctgaataaccacagcaGaatgccattgtctgatataa	15	9	7	10	0	1	3	0	2	1	1	1	3	1	3	3	0	4	1	3	0	5	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:197070783G>C	uc001gtu.2	-	18	7855	c.7598C>G	c.(7597-7599)TCT>TGT	p.S2533C	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Missense_Mutation_p.S381C	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2533	IQ 27.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AACCACAGCAGAATGCCATTG	0.343													12	37					0	0	1	0	0		C	197070783	C	C	197070783	3	2	221	1	0	0	0	0	1	0	0	0	1057	942	33	5	2879	5	ASPM	1	197070783	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	20225022	197070783	52179838	9	108122											
CRB1	23418	broad.mit.edu	37	chr1	197404316	197404316	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aatcggaggcatttatctctCttactttgaaaatgttcatg	11	16	7	7	1	3	1	1	1	2	0	5	2	3	2	0	2	1	2	0	2	5	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:197404316C>T	uc001gtz.2	+	9	3458	c.3323C>T	c.(3322-3324)TCT>TTT	p.S1108F	CRB1_uc010poz.1_Missense_Mutation_p.S1084F|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.S996F|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.S589F|CRB1_uc001gub.1_Missense_Mutation_p.S757F	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1108	Extracellular (Potential).|Laminin G-like 3.				cell-cell signaling|establishment or maintenance of cell polarity	apical plasma membrane|extracellular region|integral to membrane	calcium ion binding|protein binding			ovary(5)|skin(3)|large_intestine(1)	9						ATTTATCTCTCTTACTTTGAA	0.363													17	37					0	0	1	0	0		T	197404316	T	T	197404316	3	4	221	1	0	0	0	0	1	0	0	0	3851	913	32	4	3357	4	CRB1	1	197404316	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	333533	197404316	51846305	10	108123											
KCTD3	51133	broad.mit.edu	37	chr1	215781446	215781446	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gccaggttctactcctttagCgtcattcaagatactatccc	9	13	6	13	1	3	1	2	0	1	1	5	1	5	1	3	1	3	1	3	1	5	7			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:215781446C>T	uc001hks.2	+	14	1691	c.1397C>T	c.(1396-1398)GCG>GTG	p.A466V	KCTD3_uc001hkt.2_Missense_Mutation_p.A466V|KCTD3_uc010pub.1_Missense_Mutation_p.A364V|KCTD3_uc009xdn.2_Intron	NM_016121	NP_057205	Q9Y597	KCTD3_HUMAN	potassium channel tetramerisation domain	466						voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			ovary(3)	3				all cancers(67;0.0164)|OV - Ovarian serous cystadenocarcinoma(81;0.019)|GBM - Glioblastoma multiforme(131;0.0862)|Epithelial(68;0.13)		ACTCCTTTAGCGTCATTCAAG	0.433													22	53					0	0	1	0	0		T	215781446	T	T	215781446	3	4	221	1	0	0	0	0	1	0	0	0	8126	768	27	1	1451	1	KCTD3	1	215781446	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	18377130	215781446	33469175	11	108124											
C1orf198	84886	broad.mit.edu	37	chr1	231004179	231004179	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agaagtaagtgaagcgctttCgctcccggtcgtccagaggc	9	8	13	11	4	0	3	0	1	0	2	4	3	2	3	2	2	1	3	2	2	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr1:231004179C>T	uc001hub.2	-	1	124	c.80G>A	c.(79-81)CGA>CAA	p.R27Q	C1orf198_uc001huc.1_Intron|C1orf198_uc001hud.1_Intron	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1	27											0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				GAAGCGCTTTCGCTCCCGGTC	0.637													9	12					0	0	1	0	0		T	231004179	T	T	231004179	3	4	221	1	0	0	0	0	1	0	0	0	2029	884	31	1	919	1	C1orf198	1	231004179	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	15222733	231004179	18246442	12	108125											
PXDN	7837	broad.mit.edu	37	chr2	1653281	1653281	+	Silent	SNP	G	T	T	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	tcgaaggcggtcagcgaggcGccccacatggggtgctgcag	7	5	17	12	4	1	0	1	0	0	0	2	2	1	0	2	5	3	2	2	5	1	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:1653281G>T	uc002qxa.2	-	17	2335	c.2271C>A	c.(2269-2271)GGC>GGA	p.G757G		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	757					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		TCAGCGAGGCGCCCCACATGG	0.637													46	87					6.9144e-35	7.6884e-35	1	1	0		T	1653281	T	T	1653281	2	4	221	1	0	0	0	0	0	0	0	1	12872	1074	38	5		5	PXDN	2	1653281	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08		1653281	241546092	13	108126											
OTOF	9381	broad.mit.edu	37	chr2	26712165	26712165	+	Splice_Site	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ggttcttggagtgaatcaccTttcaggcagaaccacagccc	10	9	10	12	0	3	2	2	1	1	1	3	3	3	3	3	3	2	2	3	3	2	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:26712165T>G	uc002rhk.2	-	11	1088	c.961_splice	c.e11-1	p.V321_splice		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a						cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GTGAATCACCTTTCAGGCAGA	0.612													6	15					0	0	1	0	0		G	26712165	G	G	26712165	5	3	221	1	0	0	0	0	0	0	1	0	11322	1623	56	5	5507	5	OTOF	2	26712165	Splice_Site	SNP	T	TCGA-IP-7968-01A-11D-2201-08	25058884	26712165	216487208	14	108127											
FOSL2	2355	broad.mit.edu	37	chr2	28627222	28627223	+	Frame_Shift_Ins	INS	-	C	C																															gccgcaggaggagagatgagINScaggtacagctcagaccagt																										TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:28627222_28627223insC	uc002rma.2	+	2	1160_1161	c.351_352insC	c.(349-354)GAGCAGfs	p.E117fs	FOSL2_uc010ymi.1_Frame_Shift_Ins_p.E78fs	NM_005253	NP_005244	P15408	FOSL2_HUMAN	FOS-like antigen 2	117_118					cell death|regulation of transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(172;0.155)					GGAGAGATGAGCAGGTACAGCT	0.604													34	69	---	---	---	---						.	C	28627223	C	C	28627222	7	5	221	1	0	1	1	0	0	0	0	0	6002	962	34	0	357	0	FOSL2	2	28627222	Frame_Shift_Ins	INS	-	TCGA-IP-7968-01A-11D-2201-08	1915057	28627222	214572151	15	108128											
ZFP36L2	678	broad.mit.edu	37	chr2	43452440	43452440	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggcacttttcgccgtacttgCacgtgccgctctcctcgaag	5	11	10	15	5	1	0	0	0	1	0	4	1	1	0	3	1	3	4	3	1	2	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:43452440C>T	uc002rsv.3	-	2	794	c.503G>A	c.(502-504)TGC>TAC	p.C168Y	LOC100129726_uc010ynx.1_5'Flank	NM_006887	NP_008818	P47974	TISD_HUMAN	zinc finger protein 36, C3H type-like 2	168	C3H1-type 1.				cell proliferation	nucleus	DNA binding|RNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Acute lymphoblastic leukemia(82;0.00323)|all_hematologic(82;0.00824)				GCCGTACTTGCACGTGCCGCT	0.637													12	22					0	0	1	0	0		T	43452440	T	T	43452440	3	4	221	1	0	0	0	0	1	0	0	0	17672	710	25	2	985	2	ZFP36L2	2	43452440	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	14825218	43452440	199746933	16	108129											
TSN	7247	broad.mit.edu	37	chr2	122519067	122519067	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	atttggaaacagaaacactaGtgactcgagaagcagttaca	17	8	9	7	1	0	3	0	1	0	2	1	5	0	4	0	1	4	2	0	1	5	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:122519067G>A	uc002tnl.2	+	4	575	c.340G>A	c.(340-342)GTG>ATG	p.V114M	TSN_uc002tnm.2_Missense_Mutation_p.V67M|TSN_uc010yze.1_Missense_Mutation_p.V114M|TSN_uc010flt.2_Intron	NM_004622	NP_004613	Q15631	TSN_HUMAN	translin	114					DNA recombination	cytoplasm|nucleus	sequence-specific DNA binding			breast(2)|large_intestine(1)	3		Ovarian(717;0.0563)|Prostate(154;0.116)				AGAAACACTAGTGACTCGAGA	0.428													58	101					0	0	1	0	0		A	122519067	A	A	122519067	3	1	221	1	0	0	0	0	1	0	0	0	16655	1029	36	4	354	4	TSN	2	122519067	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	79066627	122519067	120680306	17	108130											
GALNT3	2591	broad.mit.edu	37	chr2	166606374	166606374	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	ttccttctggatgttgtgccGaatttcatgttgagcagagt	7	16	11	7	1	2	2	1	1	1	1	3	4	3	3	2	1	2	3	2	1	1	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:166606374G>A	uc010fph.1	-	10	2044	c.1657C>T	c.(1657-1659)CGG>TGG	p.R553W		NM_004482	NP_004473	Q14435	GALT3_HUMAN	polypeptide N-acetylgalactosaminyltransferase 3	553	Ricin B-type lectin.|Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	Golgi cisterna membrane|integral to membrane|membrane fraction|nucleus|perinuclear region of cytoplasm	calcium ion binding|manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			central_nervous_system(2)|ovary(1)	3						ATGTTGTGCCGAATTTCATGT	0.403													39	71					0	0	1	0	0		A	166606374	A	A	166606374	3	1	221	1	0	0	0	0	1	0	0	0	6229	1057	37	1	252	1	GALNT3	2	166606374	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	44087307	166606374	76592999	18	108131											
SCN9A	6335	broad.mit.edu	37	chr2	167133552	167133552	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	aaggcacatagcttgaccagCgacctccatacagtcccaca	13	6	7	15	1	0	1	0	1	0	0	2	2	2	1	4	1	3	2	4	1	3	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:167133552C>T	uc010fpl.2	-	16	3123	c.2782G>A	c.(2782-2784)GCT>ACT	p.A928T	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	939	II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GCTTGACCAGCGACCTCCATA	0.478													17	241					0	0	1	0	0		T	167133552	T	T	167133552	3	4	221	1	0	0	0	0	1	0	0	0	13950	768	27	1	3199	1	SCN9A	2	167133552	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	527178	167133552	76065821	19	108132											
METTL8	79828	broad.mit.edu	37	chr2	172216943	172216943	+	Missense_Mutation	SNP	A	G	G	1	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	gttgactaccttgctcttccAgaaggactcgcacagctgag	9	10	10	12	1	1	3	0	2	1	1	3	4	2	4	2	1	3	4	2	1	2	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:172216943A>G	uc010zdo.1	-	3	365	c.224T>C	c.(223-225)CTG>CCG	p.L75P	METTL8_uc002ugu.3_Missense_Mutation_p.L75P|METTL8_uc002ugv.3_Missense_Mutation_p.L75P|METTL8_uc002ugt.3_Missense_Mutation_p.L75P|METTL8_uc002ugs.3_Missense_Mutation_p.L25P|METTL8_uc010zdp.1_Missense_Mutation_p.L30P	NM_024770	NP_079046	B3KW44	B3KW44_HUMAN	methyltransferase like 8	75							methyltransferase activity			ovary(1)	1						TTGCTCTTCCAGAAGGACTCG	0.443													8	15					0	0	1	0	0		G	172216943	G	G	172216943	3	3	221	1	0	0	0	0	1	0	0	0	9525	188	7	3	1031	3	METTL8	2	172216943	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	5083391	172216943	70982430	20	108133											
HOXD10	3236	broad.mit.edu	37	chr2	176981726	176981726	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	caaacctgtggactgctcccGtctctggccaaaagagaagt	11	8	10	12	1	1	1	0	0	1	1	3	3	2	2	3	2	2	1	3	2	4	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:176981726G>A	uc002ukj.2	+	1	235	c.165G>A	c.(163-165)CCG>CCA	p.P55P		NM_002148	NP_002139	P28358	HXD10_HUMAN	homeobox D10	55						nucleus	sequence-specific DNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0226)|READ - Rectum adenocarcinoma(9;0.0556)		GACTGCTCCCGTCTCTGGCCA	0.488													30	53					0	0	1	0	0		A	176981726	A	A	176981726	2	1	221	1	0	0	0	0	0	0	0	1	7335	1132	40	1		1	HOXD10	2	176981726	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	4764783	176981726	66217647	21	108134											
PDE11A	50940	broad.mit.edu	37	chr2	178769850	178769850	+	Nonsense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ttctttcatattctttccttGaggcagcaaagagctgagcg	9	14	9	9	1	3	3	1	2	2	1	4	3	4	3	1	1	3	3	1	1	2	6			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:178769850G>T	uc002ulq.2	-	3	1454	c.1136C>A	c.(1135-1137)TCA>TAA	p.S379*	PDE11A_uc002ulr.2_Nonsense_Mutation_p.S129*|PDE11A_uc002uls.1_Nonsense_Mutation_p.S21*|PDE11A_uc002ult.1_Nonsense_Mutation_p.S129*|PDE11A_uc002ulu.1_Nonsense_Mutation_p.S21*	NM_016953	NP_058649	Q9HCR9	PDE11_HUMAN	phosphodiesterase 11A isoform 4	379					platelet activation|signal transduction	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding			ovary(3)|large_intestine(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00121)|Epithelial(96;0.00455)|all cancers(119;0.02)			TTCTTTCCTTGAGGCAGCAAA	0.358									Primary_Pigmented_Nodular_Adrenocortical_Disease_Familial				13	23					3.27435e-08	3.43576e-08	1	1	0		T	178769850	T	T	178769850	4	4	221	1	0	0	0	0	0	1	0	0	11650	1294	45	5	1737	5	PDE11A	2	178769850	Nonsense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	1788124	178769850	64429523	22	108135											
TTN	7273	broad.mit.edu	37	chr2	179548772	179548772	+	Missense_Mutation	SNP	T	G	G	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	ttaggtttgagtttcagaacTttttcttctgggacagctct	7	18	9	7	0	4	2	1	1	3	1	4	3	4	3	0	2	2	3	0	2	2	6			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:179548772T>G	uc010zfg.1	-	130	29252	c.29028A>C	c.(29026-29028)AAA>AAC	p.K9676N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.K6337N|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10603							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GTTTCAGAACTTTTTCTTCTG	0.368													10	41					0	0	1	0	0		G	179548772	G	G	179548772	3	3	221	1	0	0	0	0	1	0	0	0	16761	1606	56	5	71689	5	TTN	2	179548772	Missense_Mutation	SNP	T	TCGA-IP-7968-01A-11D-2201-08	778922	179548772	63650601	23	108136											
SLC23A3	151295	broad.mit.edu	37	chr2	220032917	220032917	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ctgcccagacccacacatacCgaaaggagccggaagacagg	14	2	11	14	2	0	2	0	0	0	2	0	5	0	4	4	3	3	0	4	3	3	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr2:220032917C>T	uc010zks.1	-	6	909	c.798G>A	c.(796-798)TCG>TCA	p.S266S	NHEJ1_uc002vjq.3_RNA|SLC23A3_uc010zkr.1_Silent_p.S274S|SLC23A3_uc010fwb.2_Missense_Mutation_p.R256Q|SLC23A3_uc002vjs.1_Missense_Mutation_p.G119S|SLC23A3_uc002vjt.1_Missense_Mutation_p.G126S	NM_001144889	NP_001138361	Q6PIS1	S23A3_HUMAN	solute carrier family 23 (nucleobase	266	Extracellular (Potential).				transmembrane transport	integral to membrane	protein binding|transporter activity				0		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)		CCACACATACCGAAAGGAGCC	0.587													12	27					0	0	1	0	0		T	220032917	T	T	220032917	2	4	221	1	0	0	0	0	0	0	0	1	14489	666	23	1		1	SLC23A3	2	220032917	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	40484145	220032917	23166456	24	108137											
SLC6A1	6529	broad.mit.edu	37	chr3	11060366	11060366	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tcctgggccatttactacctGtacaactccttcaccacggt	8	12	6	15	1	1	0	1	0	0	0	3	0	3	0	5	2	4	1	5	2	4	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr3:11060366G>A	uc010hdq.2	+	5	864	c.453G>A	c.(451-453)CTG>CTA	p.L151L		NM_003042	NP_003033	P30531	SC6A1_HUMAN	solute carrier family 6 (neurotransmitter	151	Extracellular (Potential).				neurotransmitter secretion	integral to plasma membrane	gamma-aminobutyric acid:sodium symporter activity|neurotransmitter:sodium symporter activity			ovary(1)|skin(1)	2		Ovarian(110;0.0392)		OV - Ovarian serous cystadenocarcinoma(96;0.00099)	Cocaine(DB00907)|Tiagabine(DB00906)	TTTACTACCTGTACAACTCCT	0.582													13	34					0	0	1	0	0		A	11060366	A	A	11060366	2	1	221	1	0	0	0	0	0	0	0	1	14698	1364	48	4		4	SLC6A1	3	11060366	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08		11060366	186962064	25	108138											
SEMA3B	7869	broad.mit.edu	37	chr3	50314117	50314117	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ctcgcgctgagcgggggccgCgcagcgcaacgcactggtga	6	4	17	14	7	0	2	0	2	0	0	1	2	0	2	1	3	3	4	1	3	1	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr3:50314117C>T	uc003cyu.2	+	19	2472	c.2230C>T	c.(2230-2232)CGC>TGC	p.R744C	SEMA3B_uc003cyt.2_Missense_Mutation_p.R743C|SEMA3B_uc003cyv.2_Missense_Mutation_p.R631C|SEMA3B_uc003cyw.2_Missense_Mutation_p.R467C|SEMA3B_uc010hli.2_Missense_Mutation_p.R636C|SEMA3B_uc003cyx.2_Missense_Mutation_p.R630C|SEMA3B_uc003cyy.2_Missense_Mutation_p.R401C|SEMA3B_uc011bdo.1_Missense_Mutation_p.R401C|C3orf45_uc003cyz.2_5'Flank	NM_004636	NP_004627	Q13214	SEM3B_HUMAN	semaphorin 3B isoform 1 precursor	744	Arg-rich (basic).				axon guidance|cell-cell signaling	endoplasmic reticulum|extracellular region|membrane	receptor activity			lung(2)|central_nervous_system(2)|kidney(1)|skin(1)	6				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00605)		GCGGGGGCCGCGCAGCGCAAC	0.692													7	8					0	0	1	0	0		T	50314117	T	T	50314117	3	4	221	1	0	0	0	0	1	0	0	0	14050	768	27	1	2295	1	SEMA3B	3	50314117	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	39253751	50314117	147708313	26	108139											
GLYCTK	132158	broad.mit.edu	37	chr3	52325055	52325055	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcccggaccgcgatgcgctgCgggctgcactggccatccag	5	6	14	16	5	0	0	0	0	0	0	2	2	2	1	4	3	3	3	4	3	0	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr3:52325055C>T	uc003ddo.2	+	3	553	c.457C>T	c.(457-459)CGG>TGG	p.R153W	GLYCTK_uc003ddq.2_Missense_Mutation_p.R153W|GLYCTK_uc003ddm.2_RNA|GLYCTK_uc003ddn.2_RNA|GLYCTK_uc003ddp.1_Missense_Mutation_p.R153W|GLYCTK_uc003ddr.2_5'Flank	NM_145262	NP_660305	Q8IVS8	GLCTK_HUMAN	glycerate kinase isoform 1	153					protein phosphorylation	Golgi apparatus|mitochondrion	ATP binding|glycerate kinase activity|protein binding				0				BRCA - Breast invasive adenocarcinoma(193;3.56e-05)|Kidney(197;0.00171)|KIRC - Kidney renal clear cell carcinoma(197;0.00194)|OV - Ovarian serous cystadenocarcinoma(275;0.235)		CGATGCGCTGCGGGCTGCACT	0.612													45	20					0	0	1	0	0		T	52325055	T	T	52325055	3	4	221	1	0	0	0	0	1	0	0	0	6497	759	27	1	463	1	GLYCTK	3	52325055	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	2010938	52325055	145697375	27	108140											
ERC2	26059	broad.mit.edu	37	chr3	56115004	56115004	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tcttccagtcgtaatctcagCgcatctacctgaaatcagga	11	11	7	12	2	4	1	2	1	3	0	7	2	5	2	2	1	2	2	2	1	3	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr3:56115004C>T	uc003dhr.1	-	7	1738	c.1482G>A	c.(1480-1482)GCG>GCA	p.A494A	ERC2_uc003dht.1_5'UTR	NM_015576	NP_056391	O15083	ERC2_HUMAN	cytomatrix protein p110	494	Potential.					cell junction|cytoplasm|cytoskeleton|growth cone|presynaptic membrane|synaptosome	protein binding			ovary(2)	2				KIRC - Kidney renal clear cell carcinoma(284;0.0667)|Kidney(284;0.0873)|OV - Ovarian serous cystadenocarcinoma(275;0.219)		GTAATCTCAGCGCATCTACCT	0.438													5	11					0	0	1	0	0		T	56115004	T	T	56115004	2	4	221	1	0	0	0	0	0	0	0	1	5219	755	27	1		1	ERC2	3	56115004	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	3789949	56115004	141907426	28	108141											
C3orf21	152002	broad.mit.edu	37	chr3	194790650	194790650	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gtcctggtccccgaggtggcCgcggaagtggtacttgtcgg	4	9	17	11	4	0	0	0	0	0	0	3	2	2	1	4	6	1	1	4	6	2	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr3:194790650C>T	uc003fum.3	-	4	1084	c.976G>A	c.(976-978)GGC>AGC	p.G326S	C3orf21_uc003ful.2_Missense_Mutation_p.G123S|C3orf21_uc003fuk.2_Missense_Mutation_p.G120S	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	326						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		CCGAGGTGGCCGCGGAAGTGG	0.642													18	40					0	0	1	0	0		T	194790650	T	T	194790650	3	4	221	1	0	0	0	0	1	0	0	0	2217	652	23	1	209	1	C3orf21	3	194790650	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	138675646	194790650	3231780	29	108142											
RGS12	6002	broad.mit.edu	37	chr4	3418745	3418745	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	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	gccgtgcactcccggactcgCagcaggtccccagcagcccg	6	4	12	19	4	0	0	0	0	0	0	3	1	2	1	5	2	4	4	5	2	0	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr4:3418745C>T	uc003ggw.2	+	8	3437	c.2533C>T	c.(2533-2535)CAG>TAG	p.Q845*	RGS12_uc010ics.1_Nonsense_Mutation_p.Q44*|RGS12_uc003ggv.2_Nonsense_Mutation_p.Q845*|RGS12_uc003ggy.1_Nonsense_Mutation_p.Q243*|RGS12_uc010ict.1_Nonsense_Mutation_p.Q197*|RGS12_uc003ggz.2_Nonsense_Mutation_p.Q197*|RGS12_uc010icu.1_Nonsense_Mutation_p.Q44*|RGS12_uc011bvs.1_Nonsense_Mutation_p.Q187*|RGS12_uc003gha.2_Nonsense_Mutation_p.Q187*|RGS12_uc010icv.2_Nonsense_Mutation_p.Q44*|RGS12_uc003ghb.2_Nonsense_Mutation_p.Q44*	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	845						condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CCCGGACTCGCAGCAGGTCCC	0.602													26	31					0	0	1	0	0		T	3418745	T	T	3418745	4	4	221	1	0	0	0	0	0	1	0	0	13320	711	25	2	2617	2	RGS12	4	3418745	Nonsense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08		3418745	187735531	30	108143											
BOD1L	259282	broad.mit.edu	37	chr4	13605585	13605585	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	ccttctgtgtactatgtgctGaagaagaagcagtctctaat	11	13	9	8	0	2	3	0	1	2	2	3	3	2	3	1	0	3	3	1	0	6	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr4:13605585G>A	uc003gmz.1	-	10	3056	c.2939C>T	c.(2938-2940)TCA>TTA	p.S980L	BOD1L_uc010idr.1_Missense_Mutation_p.S317L	NM_148894	NP_683692	Q8NFC6	BOD1L_HUMAN	biorientation of chromosomes in cell division	980	Lys-rich.						DNA binding			ovary(5)|breast(1)	6						ACTATGTGCTGAAGAAGAAGC	0.388													45	73					0	0	1	0	0		A	13605585	A	A	13605585	3	1	221	1	0	0	0	0	1	0	0	0	1484	1294	45	4	6284	4	BOD1L	4	13605585	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	10186840	13605585	177548691	31	108144											
MTTP	4547	broad.mit.edu	37	chr4	100503097	100503097	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	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	tctcattaaataatgaccggCtgtacaagctcacgtactcc	12	11	6	12	2	2	1	2	1	1	0	4	1	3	1	2	1	3	4	2	1	6	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr4:100503097C>A	uc003hvc.3	+	3	353	c.97C>A	c.(97-99)CTG>ATG	p.L33M	MTTP_uc011cej.1_Missense_Mutation_p.L60M|MTTP_uc003hvb.2_Missense_Mutation_p.L33M	NM_000253	NP_000244	P55157	MTP_HUMAN	microsomal triglyceride transfer protein large	33	Vitellogenin.				lipid metabolic process|lipoprotein metabolic process	endoplasmic reticulum lumen	lipid binding|lipid transporter activity			ovary(3)|central_nervous_system(1)	4				OV - Ovarian serous cystadenocarcinoma(123;6.04e-09)	Hesperetin(DB01094)	TAATGACCGGCTGTACAAGCT	0.463													37	53					5.34276e-22	5.85346e-22	1	1	0		A	100503097	A	A	100503097	3	1	221	1	0	0	0	0	1	0	0	0	9982	796	28	5	103	5	MTTP	4	100503097	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	86897512	100503097	90651179	32	108145											
SGMS2	166929	broad.mit.edu	37	chr4	108816777	108816777	+	Missense_Mutation	SNP	C	G	G	0	0	0	1	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	acccagtgatcctacgaacaCttatgcaagacccgctgaac	13	7	7	14	2	0	3	0	2	0	1	1	4	1	3	3	0	4	2	3	0	5	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr4:108816777C>G	uc003hyl.3	+	3	623	c.68C>G	c.(67-69)ACT>AGT	p.T23S	uc003hym.1_Intron|SGMS2_uc003hyn.2_Missense_Mutation_p.T23S|SGMS2_uc003hyo.2_Missense_Mutation_p.T23S	NM_001136258	NP_001129730	Q8NHU3	SMS2_HUMAN	sphingomyelin synthase 2	23					sphingomyelin biosynthetic process	integral to Golgi membrane|integral to plasma membrane	ceramide cholinephosphotransferase activity|kinase activity|sphingomyelin synthase activity			lung(1)	1				OV - Ovarian serous cystadenocarcinoma(123;2.95e-05)	Choline(DB00122)	CCTACGAACACTTATGCAAGA	0.423													17	40					0	0	1	0	0		G	108816777	G	G	108816777	3	3	221	1	0	0	0	0	1	0	0	0	14240	565	20	5	70	5	SGMS2	4	108816777	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	8313680	108816777	82337499	33	108146											
PCDH10	57575	broad.mit.edu	37	chr4	134071388	134071388	+	Silent	SNP	C	T	T	0	0	0	1	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	caggaggagcaggaacatggCactttcgtggggaatatcgc	11	7	15	8	2	0	0	0	0	0	0	2	4	0	4	0	6	2	2	0	6	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr4:134071388C>T	uc003iha.2	+	1	919	c.93C>T	c.(91-93)GGC>GGT	p.G31G	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Silent_p.G31G	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	31	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		AGGAACATGGCACTTTCGTGG	0.493													23	152					0	0	1	0	0		T	134071388	T	T	134071388	2	4	221	1	0	0	0	0	0	0	0	1	11526	697	25	2		2	PCDH10	4	134071388	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	25254611	134071388	57082888	34	108147											
PCDH10	57575	broad.mit.edu	37	chr4	134071615	134071615	+	Missense_Mutation	SNP	A	G	G	1	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	gaaccccctggagctgttccAggtggagatcgaggtgctgg	7	8	16	10	1	0	1	0	0	0	1	2	5	1	2	3	5	3	3	3	5	1	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr4:134071615A>G	uc003iha.2	+	1	1146	c.320A>G	c.(319-321)CAG>CGG	p.Q107R	uc003igy.2_5'Flank|PCDH10_uc003igz.2_Missense_Mutation_p.Q107R	NM_032961	NP_116586	Q9P2E7	PCD10_HUMAN	protocadherin 10 isoform 1 precursor	107	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2				LUSC - Lung squamous cell carcinoma(193;0.227)		GAGCTGTTCCAGGTGGAGATC	0.572													69	46					0	0	1	0	0		G	134071615	G	G	134071615	3	3	221	1	0	0	0	0	1	0	0	0	11526	188	7	3	322	3	PCDH10	4	134071615	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	227	134071615	57082661	35	108148											
SPATA4	132851	broad.mit.edu	37	chr4	177113976	177113976	+	Missense_Mutation	SNP	A	T	T	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	atagtccgtgaaattcacaaAgtcatcctggatacttttaa	14	13	6	8	1	2	1	2	1	0	0	4	2	4	2	2	1	1	0	2	1	5	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr4:177113976A>T	uc003iuo.1	-	4	599	c.490T>A	c.(490-492)TTT>ATT	p.F164I		NM_144644	NP_653245	Q8NEY3	SPAT4_HUMAN	spermatogenesis associated 4	164					apoptosis|spermatogenesis						0		Breast(14;0.0011)|Prostate(90;0.0129)|Melanoma(52;0.0133)|Renal(120;0.0376)|all_hematologic(60;0.124)		all cancers(43;2.9e-20)|Epithelial(43;1.99e-17)|OV - Ovarian serous cystadenocarcinoma(60;2.58e-09)|GBM - Glioblastoma multiforme(59;0.000162)|STAD - Stomach adenocarcinoma(60;0.000543)|LUSC - Lung squamous cell carcinoma(193;0.096)		AAATTCACAAAGTCATCCTGG	0.313													9	18					0	0	1	0	0		T	177113976	T	T	177113976	3	4	221	1	0	0	0	0	1	0	0	0	15035	72	3	5	439	5	SPATA4	4	177113976	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	43042361	177113976	14040300	36	108149											
RXFP3	51289	broad.mit.edu	37	chr5	33936956	33936956	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cttctggaggcggccaacacGagtggtaacgcgtcgctgca	8	7	14	12	5	1	0	0	0	1	0	2	2	1	1	1	4	3	3	1	4	2	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr5:33936956G>A	uc003jic.1	+	1	468	c.111G>A	c.(109-111)ACG>ACA	p.T37T		NM_016568	NP_057652	Q9NSD7	RL3R1_HUMAN	relaxin/insulin-like family peptide receptor 3	37	Extracellular (Potential).					integral to plasma membrane	N-formyl peptide receptor activity			upper_aerodigestive_tract(1)	1						CGGCCAACACGAGTGGTAACG	0.667													68	39					0	0	1	0	0		A	33936956	A	A	33936956	2	1	221	1	0	0	0	0	0	0	0	1	13786	1045	37	1		1	RXFP3	5	33936956	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08		33936956	146978304	37	108150											
TMEM161B	153396	broad.mit.edu	37	chr5	87501702	87501703	+	Frame_Shift_Ins	INS	-	A	A																															gtcgtaatccaggaaatgtcINSaaaaaagccccaatgaatga																								rs78741910		TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr5:87501702_87501703insA	uc003kjc.2	-	8	853_854	c.728_729insT	c.(727-729)TTGfs	p.L243fs	TMEM161B_uc011cty.1_Frame_Shift_Ins_p.L232fs|TMEM161B_uc010jax.2_RNA|TMEM161B_uc011ctz.1_Frame_Shift_Ins_p.L110fs|TMEM161B_uc011ctx.1_Frame_Shift_Ins_p.L61fs	NM_153354	NP_699185	Q8NDZ6	T161B_HUMAN	transmembrane protein 161B	243	Helical; (Potential).					integral to membrane				skin(2)	2		all_cancers(142;0.000275)|Lung NSC(167;0.00901)|all_lung(232;0.0111)|Colorectal(57;0.0959)|Ovarian(174;0.1)		OV - Ovarian serous cystadenocarcinoma(54;6.24e-36)|Epithelial(54;6.8e-31)|all cancers(79;1.07e-26)		CAGGAAATGTCAAAAAAGCCCC	0.342													19	25	---	---	---	---						.	A	87501703	A	A	87501702	7	5	221	1	0	1	1	0	0	0	0	0	16102	825	29	0	754	0	TMEM161B	5	87501702	Frame_Shift_Ins	INS	-	TCGA-IP-7968-01A-11D-2201-08	53564746	87501702	93413558	38	108151											
ARSI	340075	broad.mit.edu	37	chr5	149677329	149677329	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcaatgttgtgcaggatctcCgtgcgtggtgaggcccggcc	5	10	15	11	3	2	1	1	1	1	0	3	2	2	2	3	4	2	2	3	4	1	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr5:149677329C>T	uc003lrv.2	-	2	1747	c.1158G>A	c.(1156-1158)ACG>ACA	p.T386T		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	386						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GCAGGATCTCCGTGCGTGGTG	0.652													16	14					0	0	1	0	0		T	149677329	T	T	149677329	2	4	221	1	0	0	0	0	0	0	0	1	995	639	23	1		1	ARSI	5	149677329	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	62175627	149677329	31237931	39	108152											
GFOD1	54438	broad.mit.edu	37	chr6	13365421	13365421	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gacatcctgcttgaactcgcCgggcacgttgaagttgaggg	8	9	14	10	3	0	3	0	3	0	0	2	4	1	3	2	2	2	4	2	2	2	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr6:13365421C>T	uc003nat.1	-	2	1392	c.727G>A	c.(727-729)GGC>AGC	p.G243S	GFOD1_uc003nas.1_Missense_Mutation_p.G140S	NM_018988	NP_061861	Q9NXC2	GFOD1_HUMAN	glucose-fructose oxidoreductase domain	243						extracellular region	binding|oxidoreductase activity			ovary(2)	2	Breast(50;0.0296)|Ovarian(93;0.0454)	all_hematologic(90;0.135)	Epithelial(50;0.0348)|BRCA - Breast invasive adenocarcinoma(129;0.1)|all cancers(50;0.108)			TTGAACTCGCCGGGCACGTTG	0.657													3	42					0	0	1	0	0		T	13365421	T	T	13365421	3	4	221	1	0	0	0	0	1	0	0	0	6358	652	23	1	449	1	GFOD1	6	13365421	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08		13365421	157749646	40	108153											
C6orf153	88745	broad.mit.edu	37	chr6	42996916	42996916	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	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	acttcttgagtcgaaagaggCgacgaaatgcaggcaaggac	14	6	13	8	3	1	2	0	1	1	1	2	6	1	3	0	3	1	2	0	3	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr6:42996916C>T	uc003otp.1	+	7	738	c.730C>T	c.(730-732)CGA>TGA	p.R244*		NM_033112	NP_149103	Q96EU6	RRP36_HUMAN	hypothetical protein LOC88745	244	Nuclear localization signal (Potential).				ribosomal small subunit biogenesis|rRNA processing	nucleolus					0			Colorectal(64;0.00237)|all cancers(41;0.0034)|COAD - Colon adenocarcinoma(64;0.00473)|OV - Ovarian serous cystadenocarcinoma(102;0.0539)|KIRC - Kidney renal clear cell carcinoma(15;0.133)|Kidney(15;0.188)			TCGAAAGAGGCGACGAAATGC	0.502													62	15					0	0	1	0	0		T	42996916	T	T	42996916	4	4	221	1	0	0	0	0	0	1	0	0	2341	760	27	1	756	1	C6orf153	6	42996916	Nonsense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	29631495	42996916	128118151	41	108154											
DST	667	broad.mit.edu	37	chr6	56362226	56362226	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tttccggtaaacctcccagcGgtttagatgccaacagatga	11	10	9	11	2	0	3	0	1	0	2	2	3	2	3	4	2	4	2	4	2	4	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr6:56362226G>A	uc003pdf.2	-	76	13845	c.13817C>T	c.(13816-13818)CCG>CTG	p.P4606L	DST_uc003pcz.3_Missense_Mutation_p.P4428L|DST_uc011dxj.1_Missense_Mutation_p.P4457L|DST_uc011dxk.1_Missense_Mutation_p.P4468L|DST_uc003pcy.3_Missense_Mutation_p.P4102L	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6514	Spectrin 16.				cell adhesion|cell cycle arrest|cell motility|hemidesmosome assembly|integrin-mediated signaling pathway|intermediate filament cytoskeleton organization|maintenance of cell polarity|microtubule cytoskeleton organization|response to wounding	actin cytoskeleton|axon|axon part|basement membrane|cell cortex|cell leading edge|cytoplasmic membrane-bounded vesicle|endoplasmic reticulum membrane|hemidesmosome|hemidesmosome|integral to membrane|intermediate filament|intermediate filament cytoskeleton|microtubule cytoskeleton|microtubule plus end|nuclear envelope|sarcomere|Z disc	actin binding|calcium ion binding|integrin binding|microtubule plus-end binding|protein binding|protein C-terminus binding|protein homodimerization activity			ovary(7)|central_nervous_system(6)|upper_aerodigestive_tract(1)	14	Lung NSC(77;0.103)		LUSC - Lung squamous cell carcinoma(124;0.0485)|Lung(124;0.0956)			ACCTCCCAGCGGTTTAGATGC	0.463													48	25					0	0	1	0	0		A	56362226	A	A	56362226	3	1	221	1	0	0	0	0	1	0	0	0	4789	1116	39	1	3298	1	DST	6	56362226	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	13365310	56362226	114752841	42	108155											
DDX43	55510	broad.mit.edu	37	chr6	74115481	74115481	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccaatcctacctgcacatttGatgacgcctttcaatgttat	10	14	5	12	1	1	2	1	2	0	0	2	2	2	2	4	0	2	2	4	0	4	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr6:74115481G>T	uc003pgw.2	+	6	1074	c.730G>T	c.(730-732)GAT>TAT	p.D244Y	DDX43_uc011dyn.1_RNA	NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	244	Q motif.					intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						CTGCACATTTGATGACGCCTT	0.358													14	24					1.49906e-05	1.52986e-05	1	1	0		T	74115481	T	T	74115481	3	4	221	1	0	0	0	0	1	0	0	0	4366	1290	45	5	752	5	DDX43	6	74115481	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	17753255	74115481	96999586	43	108156											
TNRC18	84629	broad.mit.edu	37	chr7	5353457	5353457	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	aagggggtactggggacctcGtctgttgggttcccctcctc	4	11	14	12	1	1	0	0	0	1	0	5	1	3	1	4	5	1	3	4	5	2	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:5353457G>A	uc003soi.3	-	27	7414	c.7065C>T	c.(7063-7065)GAC>GAT	p.D2355D		NM_001080495	NP_001073964	O15417	TNC18_HUMAN	trinucleotide repeat containing 18	2355	Pro-rich.						DNA binding				0		Ovarian(82;0.142)		UCEC - Uterine corpus endometrioid carcinoma (126;0.195)|OV - Ovarian serous cystadenocarcinoma(56;5.32e-15)		TGGGGACCTCGTCTGTTGGGT	0.627													10	25					0	0	1	0	0		A	5353457	A	A	5353457	2	1	221	1	0	0	0	0	0	0	0	1	16364	1136	40	1		1	TNRC18	7	5353457	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08		5353457	153785206	44	108157											
EPDR1	54749	broad.mit.edu	37	chr7	37988642	37988642	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtggtcggacagaaagtcagCtagatcctgtaagggttcaa	12	9	13	7	1	2	2	2	0	0	2	4	3	3	3	1	3	1	3	1	3	4	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:37988642C>T	uc003tfp.2	+	2	849	c.830C>T	c.(829-831)GCT>GTT	p.A277V	EPDR1_uc003tfq.2_Intron|EPDR1_uc010kxh.2_Missense_Mutation_p.A96V	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	157					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						AGAAAGTCAGCTAGATCCTGT	0.463													14	34					0	0	1	0	0		T	37988642	T	T	37988642	3	4	221	1	0	0	0	0	1	0	0	0	5171	797	28	2	836	2	EPDR1	7	37988642	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	32635185	37988642	121150021	45	108158											
ZNF479	90827	broad.mit.edu	37	chr7	57187725	57187725	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ctttgccacattcttcacatGtgtagggtctctctccagta	7	15	7	12	0	4	0	1	0	3	0	6	0	4	0	2	1	1	2	2	1	2	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:57187725G>T	uc010kzo.2	-	5	1668	c.1397C>A	c.(1396-1398)ACA>AAA	p.T466K		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	466	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TTCTTCACATGTGTAGGGTCT	0.428													6	121					0.000157383	0.000159525	1	1	0		T	57187725	T	T	57187725	3	4	221	1	0	0	0	0	1	0	0	0	17958	1377	48	5	181	5	ZNF479	7	57187725	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	19199083	57187725	101950938	46	108159											
ZNF655	79027	broad.mit.edu	37	chr7	99170715	99170715	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	cagaaaattcacaaagagatGccctgtaagtgtactgtatg	15	10	9	7	0	1	2	1	0	0	2	1	3	1	2	1	0	2	3	1	0	6	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:99170715G>T	uc003urh.2	+	3	1377	c.984G>T	c.(982-984)ATG>ATT	p.M328I	ZNF655_uc010lga.2_Missense_Mutation_p.M363I|ZNF655_uc010lgc.2_Missense_Mutation_p.M363I|ZNF655_uc003urj.2_Missense_Mutation_p.M328I|ZNF655_uc003urk.2_Missense_Mutation_p.M165I|ZNF655_uc010lgd.2_Missense_Mutation_p.M165I	NM_138494	NP_612503	Q8N720	ZN655_HUMAN	zinc finger protein 655 isoform a	328					G1 phase|regulation of mitotic cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1	all_epithelial(64;3.19e-09)|Lung NSC(181;0.0066)|all_lung(186;0.011)|Esophageal squamous(72;0.0166)					ACAAAGAGATGCCCTGTAAGT	0.413													32	60					1.58521e-26	1.7496e-26	1	1	0		T	99170715	T	T	99170715	3	4	221	1	0	0	0	0	1	0	0	0	18093	1319	46	5	1521	5	ZNF655	7	99170715	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	41982990	99170715	59967948	47	108160											
CHRM2	1129	broad.mit.edu	37	chr7	136699730	136699730	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcagtttggtgaccattatcGggaacatcctagtcatggtt	9	14	10	8	1	2	1	2	1	0	0	4	2	3	2	2	3	1	2	2	3	3	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:136699730G>A	uc003vtf.1	+	4	741	c.118G>A	c.(118-120)GGG>AGG	p.G40R	CHRM2_uc003vtg.1_Missense_Mutation_p.G40R|CHRM2_uc003vtj.1_Missense_Mutation_p.G40R|CHRM2_uc003vtk.1_Missense_Mutation_p.G40R|CHRM2_uc003vtl.1_Missense_Mutation_p.G40R|CHRM2_uc003vtm.1_Missense_Mutation_p.G40R|CHRM2_uc003vti.1_Missense_Mutation_p.G40R|CHRM2_uc003vto.1_Missense_Mutation_p.G40R|CHRM2_uc003vtn.1_Missense_Mutation_p.G40R|uc003vtp.1_Intron	NM_001006630	NP_001006631	P08172	ACM2_HUMAN	cholinergic receptor, muscarinic 2	40	Helical; Name=1; (By similarity).				activation of phospholipase C activity by muscarinic acetylcholine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|nervous system development|regulation of heart contraction|response to virus	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|protein binding			ovary(4)|central_nervous_system(1)	5					Anisotropine Methylbromide(DB00517)|Atropine(DB00572)|Benzquinamide(DB00767)|Carbachol(DB00411)|Cryptenamine(DB00785)|Cyclizine(DB01176)|Desipramine(DB01151)|Diphenidol(DB01231)|Doxacurium(DB01334)|Doxacurium chloride(DB01135)|Flavoxate(DB01148)|Gallamine Triethiodide(DB00483)|Homatropine Methylbromide(DB00725)|Hyoscyamine(DB00424)|Ipratropium(DB00332)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Metocurine(DB01336)|Mivacurium(DB01226)|Olanzapine(DB00334)|Oxybutynin(DB01062)|Oxyphencyclimine(DB00383)|Pilocarpine(DB01085)|Procyclidine(DB00387)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Rocuronium(DB00728)|Thiethylperazine(DB00372)|Tolterodine(DB01036)|Tridihexethyl(DB00505)|Triflupromazine(DB00508)	GACCATTATCGGGAACATCCT	0.448													15	56					0	0	1	0	0		A	136699730	A	A	136699730	3	1	221	1	0	0	0	0	1	0	0	0	3380	1116	39	1	120	1	CHRM2	7	136699730	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	37529015	136699730	22438933	48	108161											
OR2A2	442361	broad.mit.edu	37	chr7	143807591	143807591	+	Missense_Mutation	SNP	A	T	T	1	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	ccctccacagagcactccagAggaagaggtccatgagaacg	13	4	11	13	1	0	4	0	1	0	4	3	6	3	5	4	2	2	1	4	2	2	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:143807591A>T	uc011ktz.1	+	1	916	c.916A>T	c.(916-918)AGG>TGG	p.R306W		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					AGCACTCCAGAGGAAGAGGTC	0.443													65	29					0	0	1	0	0		T	143807591	T	T	143807591	3	4	221	1	0	0	0	0	1	0	0	0	10996	295	11	5	918	5	OR2A2	7	143807591	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	7107861	143807591	15331072	49	108162											
DPP6	1804	broad.mit.edu	37	chr7	154593099	154593099	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	gttctccaaggatggccgaaAgtttttcttcatcagagcca	10	12	9	10	1	4	1	2	0	2	1	5	3	4	2	3	2	1	2	3	2	2	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:154593099A>C	uc003wlk.2	+	13	1463	c.1334A>C	c.(1333-1335)AAG>ACG	p.K445T	DPP6_uc003wli.2_Missense_Mutation_p.K381T|DPP6_uc003wlm.2_Missense_Mutation_p.K383T|DPP6_uc011kvq.1_Missense_Mutation_p.K338T	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	445	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			GATGGCCGAAAGTTTTTCTTC	0.483													4	6					0	0	1	0	0		C	154593099	C	C	154593099	3	2	221	1	0	0	0	0	1	0	0	0	4736	72	3	5	1500	5	DPP6	7	154593099	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	10785508	154593099	4545564	50	108163											
DPP6	1804	broad.mit.edu	37	chr7	154595588	154595588	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttcagcccaacagcagcaaCgacaacatccagtccatcac	14	6	5	16	1	2	0	2	0	0	0	4	1	4	0	3	0	6	2	3	0	3	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr7:154595588C>T	uc003wlk.2	+	14	1551	c.1422C>T	c.(1420-1422)AAC>AAT	p.N474N	DPP6_uc003wli.2_Silent_p.N410N|DPP6_uc003wlm.2_Silent_p.N412N|DPP6_uc011kvq.1_Silent_p.N367N	NM_130797	NP_570629	P42658	DPP6_HUMAN	dipeptidyl-peptidase 6 isoform 1	474	Extracellular (Potential).				cell death|proteolysis	integral to membrane	dipeptidyl-peptidase activity|serine-type peptidase activity			pancreas(3)|breast(1)	4	all_neural(206;0.181)	all_hematologic(28;0.0044)|all_lung(21;0.0176)|Lung NSC(21;0.0204)	OV - Ovarian serous cystadenocarcinoma(82;0.0562)			ACAGCAGCAACGACAACATCC	0.567													9	21					0	0	1	0	0		T	154595588	T	T	154595588	2	4	221	1	0	0	0	0	0	0	0	1	4736	535	19	1		1	DPP6	7	154595588	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	2489	154595588	4543075	51	108164											
ZNF596	169270	broad.mit.edu	37	chr8	195985	195985	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ctgaatcttctgtgcttaaaCgacatgagagaattcacact	13	12	7	9	1	3	3	1	2	2	1	3	5	3	3	0	0	2	1	0	0	4	3	rs140067348	byFrequency	TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr8:195985C>T	uc003wot.2	+	6	1426	c.1138C>T	c.(1138-1140)CGA>TGA	p.R380*	ZNF596_uc003wou.2_Nonsense_Mutation_p.R279*|ZNF596_uc003wov.2_Nonsense_Mutation_p.R380*|ZNF596_uc003wow.2_Nonsense_Mutation_p.R380*	NM_173539	NP_775810	Q8TC21	ZN596_HUMAN	zinc finger protein 596	380	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(2;4.81e-29)|all_epithelial(2;5.03e-19)|Lung NSC(2;8.68e-08)|all_lung(2;1.52e-07)|Ovarian(12;0.00965)|Colorectal(14;0.0367)|all_neural(12;0.0837)|Myeloproliferative disorder(644;0.116)|all_hematologic(2;0.138)|Acute lymphoblastic leukemia(644;0.242)		Epithelial(5;3.77e-18)|all cancers(2;5.2e-17)|OV - Ovarian serous cystadenocarcinoma(5;5.37e-09)|BRCA - Breast invasive adenocarcinoma(11;1.7e-06)|Colorectal(2;6.51e-05)|READ - Rectum adenocarcinoma(2;0.0276)|COAD - Colon adenocarcinoma(149;0.0702)		TGTGCTTAAACGACATGAGAG	0.433													25	20					0	0	1	0	0		T	195985	T	T	195985	4	4	221	1	0	0	0	0	0	1	0	0	18051	528	19	1	1156	1	ZNF596	8	195985	Nonsense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08		195985	146168037	52	108165											
KCNU1	157855	broad.mit.edu	37	chr8	36788588	36788588	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggtgtggcagatagctgcacGtcgctcttgtctggaagaaa	9	10	14	8	2	2	2	0	0	2	2	3	3	2	3	0	3	2	4	0	3	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr8:36788588G>A	uc010lvw.2	+	25	2943	c.2856G>A	c.(2854-2856)ACG>ACA	p.T952T	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	952	Cytoplasmic (Potential).					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		ATAGCTGCACGTCGCTCTTGT	0.448													31	18					0	0	1	0	0		A	36788588	A	A	36788588	2	1	221	1	0	0	0	0	0	0	0	1	8109	1132	40	1		1	KCNU1	8	36788588	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	36592603	36788588	109575434	53	108166											
PXDNL	137902	broad.mit.edu	37	chr8	52321899	52321899	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	ggccgagcccgcggggcgcgCggatgccgtcccggtaggct	3	4	19	15	8	0	0	0	0	0	0	1	2	1	1	4	6	2	2	4	6	1	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr8:52321899C>T	uc003xqu.3	-	17	2386	c.2285G>A	c.(2284-2286)CGC>CAC	p.R762H	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	762					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GCGGGGCGCGCGGATGCCGTC	0.791													9	4					0	0	1	0	0		T	52321899	T	T	52321899	3	4	221	1	0	0	0	0	1	0	0	0	12873	768	27	1	2134	1	PXDNL	8	52321899	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	15533311	52321899	94042123	54	108167											
ADCY8	114	broad.mit.edu	37	chr8	131955619	131955619	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	gggccagtcgatcaaatctgGcaaagagctcgttgagcatc	11	8	12	10	2	2	2	1	1	1	1	5	3	2	2	1	2	2	4	1	2	2	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr8:131955619G>T	uc003ytd.3	-	4	1587	c.1331C>A	c.(1330-1332)GCC>GAC	p.A444D	ADCY8_uc010mds.2_Missense_Mutation_p.A444D	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	444	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			ATCAAATCTGGCAAAGAGCTC	0.448										HNSCC(32;0.087)			17	45					1.28384e-07	1.32842e-07	1	1	0		T	131955619	T	T	131955619	3	4	221	1	0	0	0	0	1	0	0	0	300	1203	42	5	2484	5	ADCY8	8	131955619	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	79633720	131955619	14408403	55	108168											
ZFAT	57623	broad.mit.edu	37	chr8	135614315	135614315	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	ggcatttccccaggggcctcCggctccttccggccctcctc	2	9	10	20	2	0	0	0	0	0	0	6	0	5	0	8	5	0	2	8	5	0	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr8:135614315C>T	uc003yup.2	-	6	1822	c.1647G>A	c.(1645-1647)CCG>CCA	p.P549P	ZFAT_uc003yun.2_Silent_p.P537P|ZFAT_uc003yuo.2_Silent_p.P537P|ZFAT_uc010meh.2_Silent_p.P537P|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Silent_p.P537P|ZFAT_uc010mej.2_Silent_p.P487P|ZFAT_uc003yur.2_Silent_p.P537P	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	549					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			CAGGGGCCTCCGGCTCCTTCC	0.652													3	6					0	0	1	0	0		T	135614315	T	T	135614315	2	4	221	1	0	0	0	0	0	0	0	1	17657	639	23	1		1	ZFAT	8	135614315	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	3658696	135614315	10749707	56	108169											
RCL1	10171	broad.mit.edu	37	chr9	4849472	4849472	+	Missense_Mutation	SNP	A	G	G	1	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	atgcgtagactcgaccaaccAaagcctggcgctactactca	12	7	8	14	3	1	1	1	0	0	1	2	2	1	1	3	1	5	2	3	1	5	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr9:4849472A>G	uc003zis.2	+	8	1151	c.893A>G	c.(892-894)CAA>CGA	p.Q298R	RCL1_uc003zit.2_Missense_Mutation_p.Q140R|RCL1_uc010mhk.1_Missense_Mutation_p.Q140R|RCL1_uc010mhl.1_Missense_Mutation_p.Q112R	NM_005772	NP_005763	Q9Y2P8	RCL1_HUMAN	RNA terminal phosphate cyclase-like 1	298					ribosome biogenesis|RNA processing	nucleolus	RNA-3'-phosphate cyclase activity				0	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0206)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0244)		TCGACCAACCAAAGCCTGGCG	0.433													4	36					0	0	1	0	0		G	4849472	G	G	4849472	3	3	221	1	0	0	0	0	1	0	0	0	13203	130	5	3	923	3	RCL1	9	4849472	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08		4849472	136363959	57	108170											
FAM129B	64855	broad.mit.edu	37	chr9	130271314	130271314	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	cgtgctggacacatcaaatcGctgctgcagcccgtccagtc	8	8	10	15	3	1	0	1	0	0	0	4	1	2	1	2	1	4	4	2	1	1	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr9:130271314G>A	uc004brh.2	-	10	1460	c.1258C>T	c.(1258-1260)CGA>TGA	p.R420*	FAM129B_uc004bri.2_Nonsense_Mutation_p.R407*|FAM129B_uc004brj.3_Nonsense_Mutation_p.R420*	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	420							protein binding				0						ACATCAAATCGCTGCTGCAGC	0.617													16	24					0	0	1	0	0		A	130271314	A	A	130271314	4	1	221	1	0	0	0	0	0	1	0	0	5448	1095	38	1	1002	1	FAM129B	9	130271314	Nonsense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	125421842	130271314	10942117	58	108171											
NTNG2	84628	broad.mit.edu	37	chr9	135073611	135073611	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tggagaagtccctggacaacGggcgcacctggcagccctac	9	5	13	14	2	0	1	0	0	0	1	1	3	1	2	3	4	3	2	3	4	3	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr9:135073611G>A	uc004cbh.2	+	3	1248	c.472G>A	c.(472-474)GGG>AGG	p.G158R		NM_032536	NP_115925	Q96CW9	NTNG2_HUMAN	netrin G2 precursor	158	Laminin N-terminal.				axonogenesis	anchored to plasma membrane					0				OV - Ovarian serous cystadenocarcinoma(145;1.23e-05)|Epithelial(140;0.000173)		CCTGGACAACGGGCGCACCTG	0.652													23	28					0	0	1	0	0		A	135073611	A	A	135073611	3	1	221	1	0	0	0	0	1	0	0	0	10724	1116	39	1	478	1	NTNG2	9	135073611	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	4802297	135073611	6139820	59	108172											
PPIF	10105	broad.mit.edu	37	chr10	81107467	81107467	+	Missense_Mutation	SNP	A	T	T	1	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	tgtacctggacgtggacgccAacgggaagccgctcggccgc	7	5	15	14	6	0	0	0	0	0	0	1	3	0	3	4	4	3	2	4	4	3	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr10:81107467A>T	uc001kai.2	+	1	248	c.163A>T	c.(163-165)AAC>TAC	p.N55Y	PPIF_uc001kaj.2_Missense_Mutation_p.N55Y	NM_005729	NP_005720	P30405	PPIF_HUMAN	peptidylprolyl isomerase F precursor	55	PPIase cyclophilin-type.				protein folding	membrane fraction|mitochondrial matrix	peptidyl-prolyl cis-trans isomerase activity			skin(1)	1	all_cancers(46;0.0893)|Breast(12;8.52e-05)|all_epithelial(25;0.00449)|Prostate(51;0.00985)		Epithelial(14;0.00242)|all cancers(16;0.0069)|Colorectal(32;0.229)		Dimethyl sulfoxide(DB01093)|L-Proline(DB00172)	CGTGGACGCCAACGGGAAGCC	0.522													3	8					0	0	1	0	0		T	81107467	T	T	81107467	3	4	221	1	0	0	0	0	1	0	0	0	12345	130	5	5	165	5	PPIF	10	81107467	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08		81107467	54427280	60	108173											
HSPA12A	259217	broad.mit.edu	37	chr10	118434842	118434842	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccccaaaagcagcctgcaccGcctgctgcagcaggggcgcc	8	3	12	18	2	0	0	0	0	0	0	0	0	0	0	6	2	6	5	6	2	2	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr10:118434842G>A	uc001lct.2	-	12	1583	c.1478C>T	c.(1477-1479)GCG>GTG	p.A493V	HSPA12A_uc001lcu.2_Missense_Mutation_p.A410V	NM_025015	NP_079291	O43301	HS12A_HUMAN	heat shock 70kDa protein 12A	493							ATP binding			ovary(1)	1				all cancers(201;0.0158)		AGCCTGCACCGCCTGCTGCAG	0.647													7	8					0	0	1	0	0		A	118434842	A	A	118434842	3	1	221	1	0	0	0	0	1	0	0	0	7420	1087	38	1	553	1	HSPA12A	10	118434842	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	37327375	118434842	17099905	61	108174											
DPYSL4	10570	broad.mit.edu	37	chr10	134006217	134006217	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	tcaagaccattgacgcccacGgcctgatggtccttcctggt	7	10	10	14	2	1	3	1	2	0	1	3	3	3	3	5	3	0	0	5	3	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr10:134006217G>A	uc009ybb.2	+	3	338	c.184G>A	c.(184-186)GGC>AGC	p.G62S		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	62					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		TGACGCCCACGGCCTGATGGT	0.582													20	30					0	0	1	0	0		A	134006217	A	A	134006217	3	1	221	1	0	0	0	0	1	0	0	0	4755	1116	39	1	194	1	DPYSL4	10	134006217	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	15571375	134006217	1528530	62	108175											
ZNF195	7748	broad.mit.edu	37	chr11	3380678	3380678	+	Silent	SNP	C	T	T	0	0	0	1	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	cattcgtcacatttgtagggCttctctccagtatgggtttt	6	17	9	9	1	2	0	1	0	1	0	5	0	3	0	1	2	0	4	1	2	2	7			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr11:3380678C>T	uc001lxt.2	-	6	1738	c.1560G>A	c.(1558-1560)AAG>AAA	p.K520K	uc001lxr.2_5'Flank|ZNF195_uc001lxv.2_Silent_p.K497K|ZNF195_uc001lxs.2_Silent_p.K448K|ZNF195_uc010qxr.1_Silent_p.K501K|ZNF195_uc009ydz.2_Silent_p.K475K|ZNF195_uc001lxu.2_Silent_p.K452K	NM_001130520	NP_001123992	O14628	ZN195_HUMAN	zinc finger protein 195 isoform 1	520					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Medulloblastoma(188;0.00106)|Breast(177;0.00328)|all_neural(188;0.00681)|Ovarian(85;0.00965)		BRCA - Breast invasive adenocarcinoma(625;0.0361)|LUSC - Lung squamous cell carcinoma(625;0.2)		ATTTGTAGGGCTTCTCTCCAG	0.403													5	130					0	0	1	0	0		T	3380678	T	T	3380678	2	4	221	1	0	0	0	0	0	0	0	1	17783	796	28	2		2	ZNF195	11	3380678	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08		3380678	131625838	63	108176											
OR51B5	282763	broad.mit.edu	37	chr11	5364380	5364381	+	Nonsense_Mutation	DNP	GC	TT	TT																															gaggtatatctaagagggttGcagatggcaataaaacggtc																										TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr11:5364380_5364381GC>TT	uc001map.1	-	1	374_375	c.374_375GC>AA	c.(373-375)TGC>TAA	p.C125*	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Nonsense_Mutation_p.C125*	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TAAGAGGGTTGCAGATGGCAAT	0.47													17	32					0	0	1	0	0		TT	5364381	TT	TT	5364380	4	4	221	1	0	0	0	0	0	1	0	0	11110	1311	46	5	567	5	OR51B5	11	5364380	Nonsense_Mutation	DNP	GC	TCGA-IP-7968-01A-11D-2201-08	1983702	5364380	129642136	64	108177											
CD82	3732	broad.mit.edu	37	chr11	44626715	44626715	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tcggcgccgtcaacgaggtcCgctgcctgctggggctggtg	3	8	17	13	5	1	0	1	0	0	0	3	1	2	0	3	5	3	3	3	5	1	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr11:44626715C>T	uc001myc.2	+	5	492	c.244C>T	c.(244-246)CGC>TGC	p.R82C	CD82_uc001myd.2_Missense_Mutation_p.R82C	NM_002231	NP_002222	P27701	CD82_HUMAN	CD82 antigen isoform 1	82	Cytoplasmic (Potential).					integral to plasma membrane	protein binding			ovary(1)	1						CAACGAGGTCCGCTGCCTGCT	0.652													13	36					0	0	1	0	0		T	44626715	T	T	44626715	3	4	221	1	0	0	0	0	1	0	0	0	3043	652	23	1	254	1	CD82	11	44626715	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	39262335	44626715	90379801	65	108178											
RSF1	51773	broad.mit.edu	37	chr11	77412319	77412319	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggccaccaacagtacttgtaCtctggcattctaccacttct	9	12	6	14	0	3	0	0	0	3	0	3	0	3	0	3	2	4	3	3	2	4	6			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr11:77412319C>T	uc001oyn.2	-	6	2075	c.1955G>A	c.(1954-1956)AGT>AAT	p.S652N	RSF1_uc001oym.2_Missense_Mutation_p.S400N	NM_016578	NP_057662	Q96T23	RSF1_HUMAN	remodeling and spacing factor 1	652					CenH3-containing nucleosome assembly at centromere|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|nucleosome positioning|positive regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription initiation, DNA-dependent	RSF complex	histone binding|protein binding|zinc ion binding			ovary(2)|central_nervous_system(2)	4	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)			AGTACTTGTACTCTGGCATTC	0.428													76	37					0	0	1	0	0		T	77412319	T	T	77412319	3	4	221	1	0	0	0	0	1	0	0	0	13724	565	20	4	2414	4	RSF1	11	77412319	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	32785604	77412319	57594197	66	108179											
GRIA4	2893	broad.mit.edu	37	chr11	105732912	105732912	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	aatagactgtgagatagagaGacttcaaaacatattagaac	19	9	8	5	0	1	5	1	1	0	5	1	7	1	5	0	0	2	0	0	0	8	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr11:105732912G>C	uc001pix.2	+	5	1096	c.650G>C	c.(649-651)AGA>ACA	p.R217T	GRIA4_uc001piu.1_Missense_Mutation_p.R217T|GRIA4_uc001piw.2_Missense_Mutation_p.R217T|GRIA4_uc001piv.2_Missense_Mutation_p.R217T|GRIA4_uc009yxk.1_Missense_Mutation_p.R217T	NM_000829	NP_000820	P48058	GRIA4_HUMAN	glutamate receptor, ionotrophic, AMPA 4 isoform	217	Extracellular (Potential).				glutamate signaling pathway|synaptic transmission	cell junction|endocytic vesicle membrane|integral to membrane|postsynaptic membrane	alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|extracellular-glutamate-gated ion channel activity			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8		Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000994)|all_hematologic(158;0.0017)|Breast(348;0.0323)		BRCA - Breast invasive adenocarcinoma(274;0.000147)|Epithelial(105;0.0291)|all cancers(92;0.0899)	L-Glutamic Acid(DB00142)	GAGATAGAGAGACTTCAAAAC	0.328													9	2					0	0	1	0	0		C	105732912	C	C	105732912	3	2	221	1	0	0	0	0	1	0	0	0	6786	942	33	5	664	5	GRIA4	11	105732912	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	28320593	105732912	29273604	67	108180											
TNFRSF1A	7132	broad.mit.edu	37	chr12	6440068	6440068	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	atctggggtaggcacaacttCgtgcactccaggcttttctt	7	13	10	11	1	2	0	0	0	2	0	4	0	3	0	1	4	2	4	1	4	2	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:6440068C>T	uc001qnu.2	-	6	857	c.576G>A	c.(574-576)ACG>ACA	p.T192T	TNFRSF1A_uc001qnt.2_Silent_p.T84T|TNFRSF1A_uc010sey.1_5'UTR|TNFRSF1A_uc010sez.1_Silent_p.T84T|TNFRSF1A_uc009zek.2_Silent_p.T149T	NM_001065	NP_001056	P19438	TNR1A_HUMAN	tumor necrosis factor receptor 1 precursor	192	TNFR-Cys 4.|Extracellular (Potential).				apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|inflammatory response|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of inflammatory response|positive regulation of transcription from RNA polymerase II promoter|prostaglandin metabolic process	extracellular region|integral to plasma membrane|membrane raft	tumor necrosis factor receptor activity			lung(2)|skin(1)	3						GGCACAACTTCGTGCACTCCA	0.507													7	8					0	0	1	0	0		T	6440068	T	T	6440068	2	4	221	1	0	0	0	0	0	0	0	1	16318	871	31	1		1	TNFRSF1A	12	6440068	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08		6440068	127411827	68	108181											
SOX5	6660	broad.mit.edu	37	chr12	23793813	23793813	+	Missense_Mutation	SNP	T	A	A	0	1	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	ccatggtagttgggatcagcTgaacagggtaagggtcacct	10	9	14	8	0	2	1	2	1	0	0	2	2	2	2	2	4	2	4	2	4	3	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:23793813T>A	uc001rfw.2	-	8	1052	c.950A>T	c.(949-951)CAG>CTG	p.Q317L	SOX5_uc001rfx.2_Missense_Mutation_p.Q304L|SOX5_uc001rfy.2_Missense_Mutation_p.Q304L|SOX5_uc010siv.1_Missense_Mutation_p.Q304L|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.Q269L	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	317					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						TGGGATCAGCTGAACAGGGTA	0.483													49	51					0	0	1	0	0		A	23793813	A	A	23793813	3	1	221	1	0	0	0	0	1	0	0	0	14979	1580	55	5	1383	5	SOX5	12	23793813	Missense_Mutation	SNP	T	TCGA-IP-7968-01A-11D-2201-08	17353745	23793813	110058082	69	108182											
TUBA1A	7846	broad.mit.edu	37	chr12	49579682	49579682	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	tgccataatcaactgagagaCgttccatgagcagcgaggtg	12	8	12	9	2	1	3	1	2	0	1	2	5	2	3	2	1	4	2	2	1	2	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:49579682C>T	uc009zlf.2	-	4	739	c.467G>A	c.(466-468)CGT>CAT	p.R156H	TUBA1B_uc001rto.2_Intron|TUBA1A_uc001rtp.2_Missense_Mutation_p.R156H|TUBA1A_uc001rtq.2_Missense_Mutation_p.R3H|TUBA1A_uc001rtr.2_Missense_Mutation_p.R3H|TUBA1A_uc009zlg.2_Missense_Mutation_p.R3H	NM_006009	NP_006000	Q71U36	TBA1A_HUMAN	tubulin, alpha 1a	156					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|structural molecule activity				0						AACTGAGAGACGTTCCATGAG	0.537													10	20					0	0	1	0	0		T	49579682	T	T	49579682	3	4	221	1	0	0	0	0	1	0	0	0	16769	536	19	1	892	1	TUBA1A	12	49579682	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	25785869	49579682	84272213	70	108183											
NEUROD4	58158	broad.mit.edu	37	chr12	55421022	55421022	+	Nonsense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	gtgggaacttctccttgaagCaagatgggtctcctgaccta	9	11	11	10	0	2	3	0	2	2	1	4	4	2	4	3	2	2	1	3	2	4	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:55421022C>T	uc001sgp.3	+	2	1177	c.799C>T	c.(799-801)CAA>TAA	p.Q267*		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	267					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						CTCCTTGAAGCAAGATGGGTC	0.512													33	64					0	0	1	0	0		T	55421022	T	T	55421022	4	4	221	1	0	0	0	0	0	1	0	0	10369	711	25	2	801	2	NEUROD4	12	55421022	Nonsense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	5841340	55421022	78430873	71	108184											
GLS2	27165	broad.mit.edu	37	chr12	56874168	56874168	+	Silent	SNP	A	G	G	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	agcatgccactttctgatgaAtcactgtttgggggcagaga	10	11	12	8	0	2	3	1	2	1	1	2	4	2	3	1	2	2	3	1	2	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:56874168A>G	uc001slj.2	-	2	465	c.186T>C	c.(184-186)GAT>GAC	p.D62D	GLS2_uc009zos.2_RNA|GLS2_uc001slk.2_5'UTR|GLS2_uc009zot.2_5'UTR	NM_013267	NP_037399	Q9UI32	GLSL_HUMAN	glutaminase 2 precursor	62					cellular amino acid biosynthetic process|glutamate secretion|glutamine metabolic process|neurotransmitter secretion	mitochondrial matrix	glutaminase activity|protein binding			ovary(1)|central_nervous_system(1)	2					L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TTTCTGATGAATCACTGTTTG	0.488													28	38					0	0	1	0	0		G	56874168	G	G	56874168	2	3	221	1	0	0	0	0	0	0	0	1	6479	98	4	3		3	GLS2	12	56874168	Silent	SNP	A	TCGA-IP-7968-01A-11D-2201-08	1453146	56874168	76977727	72	108185											
SRGAP1	57522	broad.mit.edu	37	chr12	64456870	64456870	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atggagatgtaccctgctgcGttctgtccaccaatgaagtt	9	12	10	10	1	1	2	0	1	1	1	2	3	2	2	3	1	3	4	3	1	3	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:64456870G>A	uc010ssp.1	+	7	1031	c.975G>A	c.(973-975)GCG>GCA	p.A325A	SRGAP1_uc001srt.2_Silent_p.A325A|SRGAP1_uc001srv.2_Silent_p.A285A	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	325					axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		ACCCTGCTGCGTTCTGTCCAC	0.393													11	91					0	0	1	0	0		A	64456870	A	A	64456870	2	1	221	1	0	0	0	0	0	0	0	1	15170	1132	40	1		1	SRGAP1	12	64456870	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	7582702	64456870	69395025	73	108186											
IL26	55801	broad.mit.edu	37	chr12	68618976	68618976	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	atgaaagtcctccacaaagcGtattttcttgcagccttgca	11	12	7	11	1	1	1	0	1	1	0	3	1	3	1	3	0	4	3	3	0	3	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:68618976G>A	uc001stx.1	-	3	351	c.316C>T	c.(316-318)CGC>TGC	p.R106C		NM_018402	NP_060872	Q9NPH9	IL26_HUMAN	interleukin 26 precursor	106					cell-cell signaling|negative regulation of epithelial cell proliferation|positive regulation of cytokine secretion|positive regulation of ERK1 and ERK2 cascade|positive regulation of JAK-STAT cascade|positive regulation of protein kinase B signaling cascade|positive regulation of stress-activated MAPK cascade|positive regulation of transcription from RNA polymerase II promoter	cytosol|extracellular space|soluble fraction	cytokine activity				0			Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;0.000515)		TCCACAAAGCGTATTTTCTTG	0.378													24	50					0	0	1	0	0		A	68618976	A	A	68618976	3	1	221	1	0	0	0	0	1	0	0	0	7695	1145	40	1	211	1	IL26	12	68618976	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	4162106	68618976	65232919	74	108187											
PLEKHG7	440107	broad.mit.edu	37	chr12	93135306	93135306	+	Missense_Mutation	SNP	A	G	G	1	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	acagtctctttggcatcatcAaggactatgtagacgcttct	10	13	8	10	1	4	1	2	0	2	1	5	2	4	2	0	2	0	3	0	2	3	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:93135306A>G	uc001tcj.2	+	4	369	c.139A>G	c.(139-141)AAG>GAG	p.K47E		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G	47	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						TGGCATCATCAAGGACTATGT	0.418													7	87					0	0	1	0	0		G	93135306	G	G	93135306	3	3	221	1	0	0	0	0	1	0	0	0	12094	131	5	3	149	3	PLEKHG7	12	93135306	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	24516330	93135306	40716589	75	108188											
PRDM4	11108	broad.mit.edu	37	chr12	108145867	108145867	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	tccaacatttccattggactGatagggatctagtgctgaag	11	12	10	8	0	1	2	0	2	1	0	3	4	3	4	2	2	2	1	2	2	4	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr12:108145867G>A	uc001tmp.2	-	5	888	c.451C>T	c.(451-453)CAG>TAG	p.Q151*	PRDM4_uc001tmq.2_RNA	NM_012406	NP_036538	Q9UKN5	PRDM4_HUMAN	PR domain containing 4	151					cell proliferation|negative regulation of cell cycle|nerve growth factor receptor signaling pathway|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			breast(1)|skin(1)	2						CCATTGGACTGATAGGGATCT	0.438													51	103					0	0	1	0	0		A	108145867	A	A	108145867	4	1	221	1	0	0	0	0	0	1	0	0	12481	1299	45	4	1986	4	PRDM4	12	108145867	Nonsense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	15010561	108145867	25706028	76	108189											
TRPC4	7223	broad.mit.edu	37	chr13	38357362	38357362	+	Missense_Mutation	SNP	A	C	C	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	tcccttttccacagcattcaAgtaggctttttctgatggcg	7	15	8	11	1	2	1	1	1	1	0	4	1	4	1	2	2	1	3	2	2	2	6			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr13:38357362A>C	uc001uws.2	-	2	344	c.109T>G	c.(109-111)TTG>GTG	p.L37V	TRPC4_uc010abv.2_5'UTR|TRPC4_uc001uwt.2_Missense_Mutation_p.L37V|TRPC4_uc010tey.1_Missense_Mutation_p.L37V|TRPC4_uc010abw.2_Missense_Mutation_p.L37V|TRPC4_uc010abx.2_Missense_Mutation_p.L37V|TRPC4_uc010aby.2_Missense_Mutation_p.L37V	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	37	Cytoplasmic (Potential).|ANK 1.				axon guidance|calcium ion import	basolateral plasma membrane|calcium channel complex|cell surface|cortical cytoskeleton	beta-catenin binding|cadherin binding|store-operated calcium channel activity			ovary(3)|skin(2)|breast(1)	6				all cancers(112;1.92e-08)|Epithelial(112;5.04e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000677)|GBM - Glioblastoma multiforme(144;0.00623)|BRCA - Breast invasive adenocarcinoma(63;0.0126)		ACAGCATTCAAGTAGGCTTTT	0.328													42	105					0	0	1	0	0		C	38357362	C	C	38357362	3	2	221	1	0	0	0	0	1	0	0	0	16606	69	3	5	2879	5	TRPC4	13	38357362	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08		38357362	76812516	77	108190											
OR11H12	440153	broad.mit.edu	37	chr14	19378556	19378556	+	Silent	SNP	A	G	G	1	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	gccctgaggaaagttctgggAagttccaacataatctaagg	13	9	11	8	0	2	1	0	1	2	0	3	3	3	3	2	3	1	2	2	3	5	4	rs144290036	by1000genomes	TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr14:19378556A>G	uc010tkp.1	+	1	963	c.963A>G	c.(961-963)GGA>GGG	p.G321G		NM_001013354	NP_001013372	B2RN74	O11HC_HUMAN	olfactory receptor, family 11, subfamily H,	321	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		AAGTTCTGGGAAGTTCCAACA	0.363													4	23					0	0	1	0	0		G	19378556	G	G	19378556	2	3	221	1	0	0	0	0	0	0	0	1	10946	233	9	3		3	OR11H12	14	19378556	Silent	SNP	A	TCGA-IP-7968-01A-11D-2201-08		19378556	87970984	78	108191											
DYNC1H1	1778	broad.mit.edu	37	chr14	102516478	102516478	+	Silent	SNP	T	C	C	0	1	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	aatgccatctcaaccgccctTcccctgacgcagctgcgctg	7	8	8	18	3	1	1	1	1	1	0	3	1	2	1	5	0	4	3	5	0	2	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr14:102516478T>C	uc001yks.2	+	77	13919	c.13755T>C	c.(13753-13755)CTT>CTC	p.L4585L		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	4585					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						CAACCGCCCTTCCCCTGACGC	0.572													3	44					0	0	1	0	0		C	102516478	C	C	102516478	2	2	221	1	0	0	0	0	0	0	0	1	4847	1770	62	3		3	DYNC1H1	14	102516478	Silent	SNP	T	TCGA-IP-7968-01A-11D-2201-08	83137922	102516478	4833062	79	108192											
MTA1	9112	broad.mit.edu	37	chr14	105931130	105931130	+	Missense_Mutation	SNP	G	T	T	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	gcccggcgcctgtgccgtgaGatcctgcgcccgtggcacgc	3	6	15	17	6	0	1	0	1	0	1	1	2	1	1	5	2	2	1	5	2	0	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr14:105931130G>T	uc001yqx.2	+	15	1651	c.1464G>T	c.(1462-1464)GAG>GAT	p.E488D	MTA1_uc001yqy.2_RNA|MTA1_uc001yrb.2_Missense_Mutation_p.E249D	NM_004689	NP_004680	Q13330	MTA1_HUMAN	metastasis associated protein	488					signal transduction	cytoplasm|nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)	2		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)		TGTGCCGTGAGATCCTGCGCC	0.667													11	6					2.61681e-11	2.8254e-11	1	1	0		T	105931130	T	T	105931130	3	4	221	1	0	0	0	0	1	0	0	0	9926	933	33	5	1522	5	MTA1	14	105931130	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	3414652	105931130	1418410	80	108193											
MKRN3	7681	broad.mit.edu	37	chr15	23811866	23811866	+	Missense_Mutation	SNP	A	T	T	1	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	gtatggacaaggtgtgtggcAtctgcatggaggttgtctat	8	13	15	5	0	2	0	0	0	2	0	2	2	2	2	0	5	1	4	0	5	3	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr15:23811866A>T	uc001ywh.3	+	1	1413	c.937A>T	c.(937-939)ATC>TTC	p.I313F	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.I313F	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	313	RING-type.					ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GGTGTGTGGCATCTGCATGGA	0.502													19	17					0	0	1	0	0		T	23811866	T	T	23811866	3	4	221	1	0	0	0	0	1	0	0	0	9626	217	8	5	939	5	MKRN3	15	23811866	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08		23811866	78719526	81	108194											
WDR72	256764	broad.mit.edu	37	chr15	53992012	53992012	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caattaaaaaattctcaaccGggtgccattttatcatcctc	13	13	4	11	1	2	0	2	0	1	0	5	0	3	0	3	1	2	0	3	1	6	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr15:53992012G>A	uc002acj.2	-	13	1742	c.1700C>T	c.(1699-1701)CCG>CTG	p.P567L	WDR72_uc010bfi.1_Missense_Mutation_p.P567L	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	567	WD 8.									lung(1)|skin(1)	2				all cancers(107;0.0511)		ATTCTCAACCGGGTGCCATTT	0.423													30	112					0	0	1	0	0		A	53992012	A	A	53992012	3	1	221	1	0	0	0	0	1	0	0	0	17348	1116	39	1	1640	1	WDR72	15	53992012	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	30180146	53992012	48539380	82	108195											
LBXCOR1	390598	broad.mit.edu	37	chr15	68118581	68118581	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	cggtacagctggagattctgCgtcgggccggggccatgccc	5	7	16	13	4	1	1	0	0	1	1	2	2	1	1	3	5	4	2	3	5	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr15:68118581C>T	uc002aqy.1	+	2	388	c.388C>T	c.(388-390)CGT>TGT	p.R130C		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	139					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0						GGAGATTCTGCGTCGGGCCGG	0.632													9	27					0	0	1	0	0		T	68118581	T	T	68118581	3	4	221	1	0	0	0	0	1	0	0	0	8671	768	27	1	394	1	LBXCOR1	15	68118581	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	14126569	68118581	34412811	83	108196											
CYP1A2	1544	broad.mit.edu	37	chr15	75042262	75042262	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgaccctggggaagaacccGcacctggcactgtcaaggat	10	6	12	13	1	1	2	1	1	0	1	1	4	1	4	3	4	1	2	3	4	3	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr15:75042262G>A	uc002ayr.1	+	2	247	c.183G>A	c.(181-183)CCG>CCA	p.P61P		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	61					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GGAAGAACCCGCACCTGGCAC	0.647													14	35					0	0	1	0	0		A	75042262	A	A	75042262	2	1	221	1	0	0	0	0	0	0	0	1	4153	1074	38	1		1	CYP1A2	15	75042262	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	6923681	75042262	27489130	84	108197											
ACAN	176	broad.mit.edu	37	chr15	89402387	89402387	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tgccttcagccactcccacgGcttctggagacaggactgaa	9	8	10	14	1	2	2	1	1	1	1	3	4	3	3	3	3	2	1	3	3	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr15:89402387G>A	uc010upo.1	+	12	6945	c.6571G>A	c.(6571-6573)GCT>ACT	p.A2191T	ACAN_uc010upp.1_Missense_Mutation_p.A2191T|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	2191					cell adhesion		hyaluronic acid binding|sugar binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CACTCCCACGGCTTCTGGAGA	0.607													24	73					0	0	1	0	0		A	89402387	A	A	89402387	3	1	221	1	0	0	0	0	1	0	0	0	117	1203	42	2	6613	2	ACAN	15	89402387	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	14360125	89402387	13129005	85	108198											
TSC2	7249	broad.mit.edu	37	chr16	2134515	2134515	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	cggggaaagtgctgcctggtCggcctcgggcgaagacagtc	7	6	17	11	4	0	1	0	0	0	1	3	3	0	2	2	5	2	1	2	5	2	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr16:2134515C>T	uc002con.2	+	34	4398	c.4292C>T	c.(4291-4293)TCG>TTG	p.S1431L	TSC2_uc010bsd.2_Missense_Mutation_p.S1408L|TSC2_uc002coo.2_Missense_Mutation_p.S1364L|TSC2_uc010uvv.1_Missense_Mutation_p.S1328L|TSC2_uc010uvw.1_Missense_Mutation_p.S1316L|TSC2_uc002cop.2_Missense_Mutation_p.S1187L|TSC2_uc002coq.2_Missense_Mutation_p.S206L|TSC2_uc002cor.2_Missense_Mutation_p.S132L	NM_000548	NP_000539	P49815	TSC2_HUMAN	tuberous sclerosis 2 isoform 1	1431					cell cycle arrest|endocytosis|heart development|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|negative regulation of cell size|negative regulation of phosphatidylinositol 3-kinase cascade|negative regulation of protein kinase B signaling cascade|negative regulation of TOR signaling cascade|negative regulation of Wnt receptor signaling pathway|nerve growth factor receptor signaling pathway|neural tube closure|phosphatidylinositol-mediated signaling|positive chemotaxis|protein import into nucleus|protein kinase B signaling cascade|regulation of endocytosis|regulation of insulin receptor signaling pathway|regulation of small GTPase mediated signal transduction	Golgi apparatus|nucleus|perinuclear region of cytoplasm|TSC1-TSC2 complex	GTPase activator activity|protein homodimerization activity			central_nervous_system(4)|lung(3)|ovary(2)|pancreas(1)	10		Hepatocellular(780;0.0202)				GCTGCCTGGTCGGCCTCGGGC	0.711			D|Mis|N|F|S			hamartoma|renal cell			Tuberous_Sclerosis				3	4					0	0	1	0	0		T	2134515	T	T	2134515	3	4	221	1	0	0	0	0	1	0	0	0	16632	893	31	1	4422	1	TSC2	16	2134515	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08		2134515	88220238	86	108199											
TAOK2	9344	broad.mit.edu	37	chr16	29994174	29994174	+	Missense_Mutation	SNP	C	A	A	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	aagatgaagaagatcctgttCcaagaggcacccaacggccc	14	5	10	12	1	0	5	0	1	0	4	2	5	2	5	4	2	1	2	4	2	5	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr16:29994174C>A	uc002dva.1	+	11	1734	c.951C>A	c.(949-951)TTC>TTA	p.F317L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Missense_Mutation_p.F317L|TAOK2_uc002dvc.1_Missense_Mutation_p.F317L|TAOK2_uc010bzm.1_Missense_Mutation_p.F317L|TAOK2_uc002dvd.1_Missense_Mutation_p.F144L	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	317					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						AGATCCTGTTCCAAGAGGCAC	0.607													22	136					4.7796e-09	5.08686e-09	1	1	0		A	29994174	A	A	29994174	3	1	221	1	0	0	0	0	1	0	0	0	15573	854	30	5	989	5	TAOK2	16	29994174	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	27859659	29994174	60360579	87	108200											
CORO1A	11151	broad.mit.edu	37	chr16	30198029	30198029	+	Silent	SNP	C	T	T	0	0	0	1	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	attgccagtggctccgaggaCtgcacagtcatggtgagtgg	8	9	15	9	1	1	1	1	1	0	0	2	3	2	2	2	4	2	2	2	4	0	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr16:30198029C>T	uc002dww.2	+	3	431	c.309C>T	c.(307-309)GAC>GAT	p.D103D	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|CORO1A_uc010vej.1_Silent_p.D103D|CORO1A_uc010bzq.2_Silent_p.D103D|CORO1A_uc010bzr.2_Silent_p.D103D|CORO1A_uc002dwx.2_5'UTR|CORO1A_uc002dwy.1_5'UTR|LOC606724_uc002dwz.1_5'Flank	NM_007074	NP_009005	P31146	COR1A_HUMAN	coronin, actin binding protein, 1A	103	WD 2.				cell-substrate adhesion|innate immune response|leukocyte chemotaxis|negative regulation of actin nucleation|phagolysosome assembly|positive chemotaxis|regulation of cell shape|uropod organization	actin filament|cortical actin cytoskeleton|lamellipodium|phagocytic cup|phagocytic vesicle membrane	actin filament binding|phosphatidylinositol 3-kinase binding|protein C-terminus binding|protein homodimerization activity				0						GCTCCGAGGACTGCACAGTCA	0.612													6	24					0	0	1	0	0		T	30198029	T	T	30198029	2	4	221	1	0	0	0	0	0	0	0	1	3756	564	20	4		4	CORO1A	16	30198029	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08	203855	30198029	60156724	88	108201											
ZNF689	115509	broad.mit.edu	37	chr16	30615983	30615983	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gcaggggtagggcttctctcCggtgtgcaagagctggtgct	5	10	17	9	1	1	1	0	0	1	1	3	1	2	1	1	5	3	6	1	5	2	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr16:30615983C>T	uc002dyx.2	-	3	1425	c.1105G>A	c.(1105-1107)GGA>AGA	p.G369R	ZNF689_uc010bzy.2_Silent_p.P24P	NM_138447	NP_612456	Q96CS4	ZN689_HUMAN	zinc finger protein HIT-39	369					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			Colorectal(24;0.198)			GGCTTCTCTCCGGTGTGCAAG	0.682													6	36					0	0	1	0	0		T	30615983	T	T	30615983	3	4	221	1	0	0	0	0	1	0	0	0	18119	661	23	1	401	1	ZNF689	16	30615983	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	417954	30615983	59738770	89	108202											
CDH11	1009	broad.mit.edu	37	chr16	65016158	65016158	+	Missense_Mutation	SNP	G	T	T	0	0	1	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	ggtcgatgtgcacgttggctGcctctaccttcaagctatag	7	12	11	11	2	2	0	1	0	1	0	3	1	2	0	2	2	4	4	2	2	4	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr16:65016158G>T	uc002eoi.2	-	8	1480	c.1046C>A	c.(1045-1047)GCA>GAA	p.A349E	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Missense_Mutation_p.A349E|CDH11_uc010vin.1_Missense_Mutation_p.A223E|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	349	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		CACGTTGGCTGCCTCTACCTT	0.453			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			15	20					1.67942e-08	1.7747e-08	1	1	0		T	65016158	T	T	65016158	3	4	221	1	0	0	0	0	1	0	0	0	3100	1319	46	5	1368	5	CDH11	16	65016158	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	34400175	65016158	25338595	90	108203											
WDR59	79726	broad.mit.edu	37	chr16	74943527	74943527	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	cagagttggggagtgcaaacGggttgctggaagcgctgtct	8	9	17	7	2	1	1	0	0	1	1	1	3	1	3	0	4	4	5	0	4	2	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr16:74943527G>A	uc002fdh.1	-	16	1616	c.1514C>T	c.(1513-1515)CCG>CTG	p.P505L	WDR59_uc002fdi.2_Missense_Mutation_p.P505L|WDR59_uc002fdg.1_Missense_Mutation_p.P97L	NM_030581	NP_085058	Q6PJI9	WDR59_HUMAN	WD repeat domain 59	505										ovary(1)|breast(1)	2						GAGTGCAAACGGGTTGCTGGA	0.502													51	61					0	0	1	0	0		A	74943527	A	A	74943527	3	1	221	1	0	0	0	0	1	0	0	0	17334	1116	39	1	1454	1	WDR59	16	74943527	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	9927369	74943527	15411226	91	108204											
C16orf3	750	broad.mit.edu	37	chr16	90095731	90095731	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	gacctggagactcctgccccGcagcagaggacagtttcatc	9	7	11	14	1	1	2	1	0	0	2	3	5	2	3	4	2	2	3	4	2	0	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr16:90095731G>A	uc002fqk.1	-	1	579	c.20C>T	c.(19-21)GCG>GTG	p.A7V	GAS8_uc010vps.1_Intron|GAS8_uc002fqh.2_Intron|GAS8_uc010vpt.1_Intron|GAS8_uc010vpu.1_Intron|GAS8_uc010vpv.1_Intron|GAS8_uc010cjc.1_Intron|GAS8_uc002fqi.1_Intron|GAS8_uc010vpw.1_Intron|GAS8_uc002fqj.1_Intron	NM_001214	NP_001205	O95177	CP003_HUMAN	hypothetical protein LOC750	7											0		all_cancers(9;9.01e-08)|Hepatocellular(780;0.000325)|Lung NSC(15;0.0104)|all_lung(18;0.0239)		BRCA - Breast invasive adenocarcinoma(80;0.0272)		ctcctgccccgcagcagagga	0.184													21	57					0	0	1	0	0		A	90095731	A	A	90095731	3	1	221	1	0	0	0	0	1	0	0	0	1815	1087	38	1	337	1	C16orf3	16	90095731	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	15152204	90095731	259022	92	108205											
RAP1GAP2	23108	broad.mit.edu	37	chr17	2934234	2934234	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	1	0	0	0	1	0	1	0	0	0	agatgccaaaagcagaaactCcccgagatcgaacctgaaat	17	5	8	11	2	0	4	0	1	0	3	2	6	1	4	4	0	4	1	4	0	5	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr17:2934234C>T	uc010ckd.2	+	23	2216	c.2126C>T	c.(2125-2127)TCC>TTC	p.S709F	RAP1GAP2_uc010cke.2_Missense_Mutation_p.S694F	NM_015085	NP_055900	Q684P5	RPGP2_HUMAN	RAP1 GTPase activating protein 2 isoform 1	709	Ser-rich.				regulation of small GTPase mediated signal transduction	centrosome|cytosol|perinuclear region of cytoplasm	GTPase activator activity			ovary(1)	1						AGCAGAAACTCCCCGAGATCG	0.572													3	6					0	0	1	0	0		T	2934234	T	T	2934234	3	4	221	1	0	0	0	0	1	0	0	0	13063	855	30	4	2216	4	RAP1GAP2	17	2934234	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08		2934234	78260976	93	108206											
TP53	7157	broad.mit.edu	37	chr17	7574003	7574003	+	Nonsense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	caaggcctcattcagctctcGgaacatctcgaagcgctcac	10	8	8	15	3	5	0	3	0	2	0	7	2	5	1	1	2	3	2	1	2	3	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr17:7574003G>A	uc002gim.2	-	10	1218	c.1024C>T	c.(1024-1026)CGA>TGA	p.R342*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Nonsense_Mutation_p.R210*|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Nonsense_Mutation_p.R342*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	342	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.		R -> P (in sporadic cancers; somatic mutation).|R -> Q (in sporadic cancers; somatic mutation).|R -> L (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R342*(49)|p.0?(7)|p.R342fs*3(5)|p.R342P(3)|p.R342Q(2)|p.?(1)|p.R342_N345delRELN(1)|p.I332fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TTCAGCTCTCGGAACATCTCG	0.498		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			19	5					0	0	1	0	0		A	7574003	A	A	7574003	4	1	221	1	0	0	0	0	0	1	0	0	16407	1124	39	1	165	1	TP53	17	7574003	Nonsense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	4639769	7574003	73621207	94	108207											
C17orf42	79736	broad.mit.edu	37	chr17	29226358	29226358	+	Silent	SNP	G	C	C	0	0	1	0	0	0	0	1	0	0	0	1	0	1	0	1	0	0	0	0	0	0	0	0	1	1	0	1	1	0	gccttcagtatagaatcgaaGagaaactgcttcactagctc	13	10	8	10	1	2	2	2	0	0	2	4	4	2	2	1	0	3	3	1	0	6	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr17:29226358G>C	uc002hfu.2	-	4	982	c.912C>G	c.(910-912)CTC>CTG	p.L304L	C17orf42_uc002hfv.2_RNA	NM_024683	NP_078959	Q96QE5	TEFM_HUMAN	hypothetical protein LOC79736	304					oxidative phosphorylation|regulation of transcription, DNA-dependent|transcription from mitochondrial promoter	mitochondrial nucleoid|ribonucleoprotein complex	DNA polymerase processivity factor activity|nucleic acid binding|protein binding			ovary(1)	1		all_cancers(10;4.64e-07)|all_hematologic(16;0.014)|Acute lymphoblastic leukemia(14;0.0236)|Myeloproliferative disorder(56;0.0255)				TAGAATCGAAGAGAAACTGCT	0.428													21	51					0	0	1	0	0		C	29226358	C	C	29226358	2	2	221	1	0	0	0	0	0	0	0	1	1859	929	33	5		5	C17orf42	17	29226358	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	21652355	29226358	51968852	95	108208											
KRT23	25984	broad.mit.edu	37	chr17	39081631	39081631	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	actctctccctccaggagccGtcggtacgtggtgatttcct	5	12	10	14	3	1	1	0	1	1	0	6	2	4	2	4	3	2	1	4	3	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr17:39081631G>A	uc002hvm.1	-	7	1706	c.1117C>T	c.(1117-1119)CGG>TGG	p.R373W	KRT23_uc010wfl.1_Missense_Mutation_p.R236W|KRT23_uc010cxf.1_Missense_Mutation_p.R160W|KRT23_uc010cxg.2_Missense_Mutation_p.R373W	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	373	Rod.|Coil 2.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				TCCAGGAGCCGTCGGTACGTG	0.562													36	399					0	0	1	0	0		A	39081631	A	A	39081631	3	1	221	1	0	0	0	0	1	0	0	0	8476	1144	40	1	163	1	KRT23	17	39081631	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	9855273	39081631	42113579	96	108209											
KRT40	125115	broad.mit.edu	37	chr17	39135121	39135121	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ccctccagccgggccttcacGtccaggagcacctggtactc	6	7	10	18	2	1	0	1	0	0	0	4	1	3	1	6	3	3	2	6	3	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr17:39135121G>A	uc010cxh.1	-	8	1292	c.1131C>T	c.(1129-1131)GAC>GAT	p.D377D	KRT40_uc002hvq.1_RNA	NM_182497	NP_872303	Q6A162	K1C40_HUMAN	type I hair keratin KA36	377	Rod.|Coil 2.					intermediate filament	structural molecule activity				0		Breast(137;0.00043)				GGGCCTTCACGTCCAGGAGCA	0.587													35	372					0	0	1	0	0		A	39135121	A	A	39135121	2	1	221	1	0	0	0	0	0	0	0	1	8494	1136	40	1		1	KRT40	17	39135121	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	53490	39135121	42060089	97	108210											
HEATR6	63897	broad.mit.edu	37	chr17	58134504	58134504	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	ggaatcctccttgggcagtaCgacaatggaaatgcagagtc	12	8	12	9	1	0	1	0	0	0	1	3	4	2	3	2	3	2	3	2	3	4	2	rs147472962	byFrequency	TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr17:58134504C>T	uc002iyk.1	-	12	2001	c.1984G>A	c.(1984-1986)GTA>ATA	p.V662I	HEATR6_uc010ddk.1_Missense_Mutation_p.V201I|HEATR6_uc010wos.1_Missense_Mutation_p.V494I	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	662							binding			ovary(1)|skin(1)	2	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)			TTGGGCAGTACGACAATGGAA	0.557													22	81					0	0	1	0	0		T	58134504	T	T	58134504	3	4	221	1	0	0	0	0	1	0	0	0	7049	536	19	1	1597	1	HEATR6	17	58134504	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	18999383	58134504	23060706	98	108211											
PTPRM	5797	broad.mit.edu	37	chr18	8376491	8376491	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	ggaggactggctgtttcatcGtcattgatatcatgttggac	8	14	12	7	1	3	1	3	1	0	0	4	4	3	4	0	4	0	3	0	4	1	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr18:8376491G>A	uc002knn.3	+	24	3822	c.3319G>A	c.(3319-3321)GTC>ATC	p.V1107I	PTPRM_uc010dkv.2_Missense_Mutation_p.V1120I|PTPRM_uc010wzl.1_Missense_Mutation_p.V894I	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1107	Tyrosine-protein phosphatase 1.|Cytoplasmic (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				CTGTTTCATCGTCATTGATAT	0.517													47	60					0	0	1	0	0		A	8376491	A	A	8376491	3	1	221	1	0	0	0	0	1	0	0	0	12831	1145	40	1	3460	1	PTPRM	18	8376491	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08		8376491	69700757	99	108212											
CIDEA	1149	broad.mit.edu	37	chr18	12274118	12274118	+	Silent	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	cagcacgtccccacttgctcGccgccgaagaggtcgggaat	8	6	12	15	5	0	1	0	0	0	1	3	3	1	2	4	2	2	2	4	2	2	1	rs140727009	byFrequency	TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr18:12274118G>A	uc002kqt.3	+	4	422	c.357G>A	c.(355-357)TCG>TCA	p.S119S	CIDEA_uc002kqu.3_Silent_p.S153S|CIDEA_uc010dlc.2_RNA	NM_001279	NP_001270	O60543	CIDEA_HUMAN	cell death-inducing DFFA-like effector a isoform	119					DNA damage response, signal transduction resulting in induction of apoptosis|DNA fragmentation involved in apoptotic nuclear change|lipid metabolic process|lipid storage|negative regulation of apoptosis|negative regulation of cytokine secretion|negative regulation of lipid catabolic process|negative regulation of transforming growth factor beta receptor signaling pathway|negative regulation of tumor necrosis factor production|positive regulation of sequestering of triglyceride|temperature homeostasis	mitochondrial envelope|nucleus	protein homodimerization activity			ovary(1)|central_nervous_system(1)	2						CCACTTGCTCGCCGCCGAAGA	0.592													28	31					0	0	1	0	0		A	12274118	A	A	12274118	2	1	221	1	0	0	0	0	0	0	0	1	3428	1074	38	1		1	CIDEA	18	12274118	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	3897627	12274118	65803130	100	108213											
TMPRSS9	360200	broad.mit.edu	37	chr19	2403177	2403177	+	Silent	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	gaggactgctccgatgggtcCgacgaggcgcactgcggtca	7	6	16	12	5	1	0	1	0	0	0	3	5	3	1	2	4	2	2	2	4	0	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:2403177C>T	uc010xgx.1	+	5	552	c.552C>T	c.(550-552)TCC>TCT	p.S184S	TMPRSS9_uc002lvv.1_Silent_p.S218S	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9	184	LDL-receptor class A.|Extracellular (Potential).				proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				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)		CCGATGGGTCCGACGAGGCGC	0.632													6	5					0	0	1	0	0		T	2403177	T	T	2403177	2	4	221	1	0	0	0	0	0	0	0	1	16278	639	23	1		1	TMPRSS9	19	2403177	Silent	SNP	C	TCGA-IP-7968-01A-11D-2201-08		2403177	56725806	101	108214											
PLIN4	729359	broad.mit.edu	37	chr19	4512722	4512722	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	tgttcagcccagtttgcatgGcccccttggccacattcgct	5	12	9	15	1	1	0	1	0	0	0	2	0	1	0	4	2	2	4	4	2	0	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:4512722G>A	uc002mar.1	-	3	1208	c.1208C>T	c.(1207-1209)GCC>GTC	p.A403V	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	403	10.|27 X 33 AA approximate tandem repeat.					lipid particle|plasma membrane					0						AGTTTGCATGGCCCCCTTGGC	0.567													4	81					0	0	1	0	0		A	4512722	A	A	4512722	3	1	221	1	0	0	0	0	1	0	0	0	12111	1203	42	2	2881	2	PLIN4	19	4512722	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	2109545	4512722	54616261	102	108215											
TICAM1	148022	broad.mit.edu	37	chr19	4817152	4817152	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	caagggcctccagcttctccCgaacccgcagggcgatgtgt	7	7	12	15	3	1	0	0	0	1	0	3	2	2	0	4	2	2	2	4	2	2	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:4817152C>T	uc002mbi.2	-	2	1489	c.1238G>A	c.(1237-1239)CGG>CAG	p.R413Q		NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1	413	TIR.				apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		CAGCTTCTCCCGAACCCGCAG	0.617													5	27					0	0	1	0	0		T	4817152	T	T	4817152	3	4	221	1	0	0	0	0	1	0	0	0	15917	652	23	1	904	1	TICAM1	19	4817152	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	304430	4817152	54311831	103	108216											
ADAMTS10	81794	broad.mit.edu	37	chr19	8670208	8670208	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gtccacgcgggtggggaaggCgatctcatagctctccagac	8	7	14	12	3	2	1	1	0	2	1	5	3	3	2	2	4	1	1	2	4	2	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:8670208C>T	uc002mkj.1	-	4	398	c.124G>A	c.(124-126)GCC>ACC	p.A42T	ADAMTS10_uc002mkk.1_5'UTR	NM_030957	NP_112219	Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1	42					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			pancreas(2)|skin(2)	4						GTGGGGAAGGCGATCTCATAG	0.677													3	7					0	0	1	0	0		T	8670208	T	T	8670208	3	4	221	1	0	0	0	0	1	0	0	0	256	768	27	1	3279	1	ADAMTS10	19	8670208	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	3853056	8670208	50458775	104	108217											
MUC16	94025	broad.mit.edu	37	chr19	9058711	9058711	+	Missense_Mutation	SNP	A	T	T	1	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	cagtccaggggtcagagatgAcattgactctatctcaatcc	11	10	9	11	0	3	3	2	2	2	1	6	4	5	3	2	2	0	0	2	2	2	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:9058711A>T	uc002mkp.2	-	3	28939	c.28735T>A	c.(28735-28737)TCA>ACA	p.S9579T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9581	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTCAGAGATGACATTGACTCT	0.502													11	27					0	0	1	0	0		T	9058711	T	T	9058711	3	4	221	1	0	0	0	0	1	0	0	0	9991	275	10	5	15116	5	MUC16	19	9058711	Missense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	388503	9058711	50070272	105	108218											
OR7D2	162998	broad.mit.edu	37	chr19	9297245	9297245	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tggggtccacttcacttctgCggtgactcactcttcccaga	6	12	9	14	1	4	2	2	1	2	1	6	2	6	2	2	3	1	0	2	3	0	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:9297245C>T	uc002mkz.1	+	1	976	c.788C>T	c.(787-789)GCG>GTG	p.A263V		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	263	Extracellular (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TTCACTTCTGCGGTGACTCAC	0.507													26	68					0	0	1	0	0		T	9297245	T	T	9297245	3	4	221	1	0	0	0	0	1	0	0	0	11238	768	27	1	790	1	OR7D2	19	9297245	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	238534	9297245	49831738	106	108219											
RAVER1	125950	broad.mit.edu	37	chr19	10434179	10434179	+	Missense_Mutation	SNP	T	C	C	0	1	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	ctgctgtgcctcctccgccaTctcagccgtctcatactcca	5	11	6	19	2	2	0	2	0	2	0	7	0	5	0	6	0	4	1	6	0	1	1			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:10434179T>C	uc002moa.2	-	4	951	c.871A>G	c.(871-873)ATG>GTG	p.M291V		NM_133452	NP_597709	Q8IY67	RAVR1_HUMAN	RAVER1	274	RRM 3.					cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(20;1.81e-09)|Epithelial(33;3.65e-06)|all cancers(31;8.35e-06)			TCCTCCGCCATCTCAGCCGTC	0.697													15	33					0	0	1	0	0		C	10434179	C	C	10434179	3	2	221	1	0	0	0	0	1	0	0	0	13119	1435	50	3	1439	3	RAVER1	19	10434179	Missense_Mutation	SNP	T	TCGA-IP-7968-01A-11D-2201-08	1136934	10434179	48694804	107	108220											
NOTCH3	4854	broad.mit.edu	37	chr19	15311632	15311632	+	Frame_Shift_Del	DEL	G	-	-																															ccccgctagcagcagcagcaGgggcagcgcccgcacgggtg																										TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:15311632delG	uc002nan.2	-	1	161	c.85delC	c.(85-87)CTGfs	p.L29fs	NOTCH3_uc002nao.1_Frame_Shift_Del_p.L29fs	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	29					Notch receptor processing|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			lung(8)|ovary(5)|skin(4)|prostate(2)|central_nervous_system(1)|breast(1)	21			OV - Ovarian serous cystadenocarcinoma(3;2.6e-20)|Epithelial(3;1.34e-16)|all cancers(3;5.13e-15)			AGCAGCAGCAGGGGCAGCGCC	0.597													2	4	---	---	---	---						.	-	15311632	-	-	15311632	7	5	221	1	0	1	0	1	0	0	0	0	10569	991	35	0	7012	0	NOTCH3	19	15311632	Frame_Shift_Del	DEL	G	TCGA-IP-7968-01A-11D-2201-08	4877453	15311632	43817351	108	108221											
ZNF99	7652	broad.mit.edu	37	chr19	22951157	22951157	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	tcatattccaaggctctttcCcttgcttcagacaagttatc	9	15	5	12	0	3	1	2	0	1	1	6	1	5	1	2	1	1	3	2	1	4	6			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:22951157C>T	uc010xrh.1	-	3	239	c.239G>A	c.(238-240)GGG>GAG	p.G80E		NM_001080409	NP_001073878			zinc finger protein 99											ovary(1)|skin(1)	2		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)				AGGCTCTTTCCCTTGCTTCAG	0.363													7	15					0	0	1	0	0		T	22951157	T	T	22951157	3	4	221	1	0	0	0	0	1	0	0	0	18229	623	22	4	2893	4	ZNF99	19	22951157	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	7639525	22951157	36177826	109	108222											
FPR3	2359	broad.mit.edu	37	chr19	52327921	52327921	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	tctctacgtctttatgggtcGtaacttccaagaaagactga	11	13	8	9	2	2	3	0	1	2	2	5	3	3	3	1	1	2	1	1	1	5	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:52327921G>A	uc002pxt.1	+	2	1104	c.920G>A	c.(919-921)CGT>CAT	p.R307H		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	307	Cytoplasmic (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						TTTATGGGTCGTAACTTCCAA	0.473													47	86					0	0	1	0	0		A	52327921	A	A	52327921	3	1	221	1	0	0	0	0	1	0	0	0	6054	1145	40	1	922	1	FPR3	19	52327921	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	29376764	52327921	6801062	110	108223											
ZNF813	126017	broad.mit.edu	37	chr19	53994528	53994528	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	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	cccttacatgccatcgtagaCttcatactggagagaaacct	12	10	7	12	1	1	2	1	0	0	2	2	4	1	3	3	1	4	1	3	1	4	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:53994528C>T	uc002qbu.2	+	4	1170	c.1042C>T	c.(1042-1044)CTT>TTT	p.L348F	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	348	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		CCATCGTAGACTTCATACTGG	0.418													12	191					0	0	1	0	0		T	53994528	T	T	53994528	3	4	221	1	0	0	0	0	1	0	0	0	18200	565	20	4	1052	4	ZNF813	19	53994528	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	1666607	53994528	5134455	111	108224											
ZNF813	126017	broad.mit.edu	37	chr19	53994690	53994690	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	agttaacccttaaatgccatCgtagacttcataccggagag	13	10	8	10	2	1	2	1	0	0	2	2	3	1	2	3	1	3	2	3	1	5	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:53994690C>T	uc002qbu.2	+	4	1332	c.1204C>T	c.(1204-1206)CGT>TGT	p.R402C	ZNF813_uc010eqq.1_Intron	NM_001004301	NP_001004301	Q6ZN06	ZN813_HUMAN	zinc finger protein 813	402	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00619)		TAAATGCCATCGTAGACTTCA	0.408													10	36					0	0	1	0	0		T	53994690	T	T	53994690	3	4	221	1	0	0	0	0	1	0	0	0	18200	884	31	1	1214	1	ZNF813	19	53994690	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	162	53994690	5134293	112	108225											
ZNF471	57573	broad.mit.edu	37	chr19	57036448	57036448	+	Nonsense_Mutation	SNP	A	T	T	1	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	cgtcttttgctcgacatcagAgatgtcacactggcaaaaga	12	10	9	10	2	3	2	2	0	1	2	4	4	3	2	0	1	1	2	0	1	2	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:57036448A>T	uc002qnh.2	+	5	1145	c.1012A>T	c.(1012-1014)AGA>TGA	p.R338*		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	338	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Colorectal(82;5.46e-05)|Ovarian(87;0.0822)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0307)		TCGACATCAGAGATGTCACAC	0.428													12	33					0	0	1	0	0		T	57036448	T	T	57036448	4	4	221	1	0	0	0	0	0	1	0	0	17955	296	11	5	1026	5	ZNF471	19	57036448	Nonsense_Mutation	SNP	A	TCGA-IP-7968-01A-11D-2201-08	3041758	57036448	2092535	113	108226											
ZNF418	147686	broad.mit.edu	37	chr19	58439318	58439318	+	Silent	SNP	A	T	T	1	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	caagagtgggccttcttgggAgacacacctgccccaggagt	9	7	13	12	0	1	2	0	0	1	2	1	4	1	3	4	3	1	0	4	3	1	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:58439318A>T	uc002qqs.1	-	4	523	c.231T>A	c.(229-231)TCT>TCA	p.S77S	ZNF418_uc010yhn.1_RNA|ZNF418_uc010yho.1_5'UTR	NM_133460	NP_597717	Q8TF45	ZN418_HUMAN	zinc finger protein 418	77	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		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)		CCTTCTTGGGAGACACACCTG	0.502													18	40					0	0	1	0	0		T	58439318	T	T	58439318	2	4	221	1	0	0	0	0	0	0	0	1	17920	291	11	5		5	ZNF418	19	58439318	Silent	SNP	A	TCGA-IP-7968-01A-11D-2201-08	1402870	58439318	689665	114	108227											
ZNF606	80095	broad.mit.edu	37	chr19	58489952	58489952	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	tctctccagtatgagttctcCggtgtgcaatgaggtgagaa	9	12	12	8	1	2	3	0	3	2	1	5	4	3	3	2	2	1	3	2	2	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr19:58489952C>T	uc002qqw.2	-	7	2714	c.2096G>A	c.(2095-2097)CGG>CAG	p.R699Q	ZNF606_uc010yhp.1_Missense_Mutation_p.R609Q	NM_025027	NP_079303	Q8WXB4	ZN606_HUMAN	zinc finger protein 606	699	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2		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)		ATGAGTTCTCCGGTGTGCAAT	0.408													16	50					0	0	1	0	0		T	58489952	T	T	58489952	3	4	221	1	0	0	0	0	1	0	0	0	18057	652	23	1	286	1	ZNF606	19	58489952	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	50634	58489952	639031	115	108228											
NCOA5	57727	broad.mit.edu	37	chr20	44698970	44698970	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tctaagatccctcacgtcccGaacgtcgcgcacactcctgc	8	8	7	18	5	2	1	1	0	1	1	6	2	5	1	3	0	2	1	3	0	2	1	rs41282786		TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr20:44698970G>A	uc002xrd.2	-	2	772	c.244C>T	c.(244-246)CGG>TGG	p.R82W	NCOA5_uc002xrc.2_5'UTR|NCOA5_uc002xre.2_Missense_Mutation_p.R82W	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	82	Arg/Asp-rich (mixed charge).|Transcription repression.				regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				CTCACGTCCCGAACGTCGCGC	0.532													62	117					0	0	1	0	0		A	44698970	A	A	44698970	3	1	221	1	0	0	0	0	1	0	0	0	10251	1057	37	1	1519	1	NCOA5	20	44698970	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08		44698970	18326550	116	108229											
NFATC2	4773	broad.mit.edu	37	chr20	50140079	50140079	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	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	gacggggcacgggcgagtggCggcccaggcagctgtcctcg	5	4	19	13	5	0	0	0	0	0	0	2	2	1	0	2	6	1	3	2	6	0	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr20:50140079C>T	uc002xwd.2	-	2	921	c.701G>A	c.(700-702)CGC>CAC	p.R234H	NFATC2_uc002xwc.2_Missense_Mutation_p.R234H|NFATC2_uc010zyv.1_Missense_Mutation_p.R15H|NFATC2_uc010zyw.1_Missense_Mutation_p.R15H|NFATC2_uc010zyx.1_Missense_Mutation_p.R214H|NFATC2_uc010zyy.1_Missense_Mutation_p.R15H|NFATC2_uc010zyz.1_Missense_Mutation_p.R15H|NFATC2_uc002xwe.2_Missense_Mutation_p.R214H	NM_173091	NP_775114	Q13469	NFAC2_HUMAN	nuclear factor of activated T-cells,	234	3 X approximate SP repeats.				B cell receptor signaling pathway|positive regulation of B cell proliferation|response to DNA damage stimulus|response to drug	actin cytoskeleton|nucleus|plasma membrane	protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2	Hepatocellular(150;0.248)					GGGCGAGTGGCGGCCCAGGCA	0.662													34	159					0	0	1	0	0		T	50140079	T	T	50140079	3	4	221	1	0	0	0	0	1	0	0	0	10381	768	27	1	2160	1	NFATC2	20	50140079	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	5441109	50140079	12885441	117	108230											
SALL4	57167	broad.mit.edu	37	chr20	50405596	50405596	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	tcatccctggggacaatgtcGagggtcccacaaatgtgcca	10	8	11	12	1	1	0	1	0	0	0	4	2	3	1	3	3	1	0	3	3	2	0			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr20:50405596G>A	uc002xwh.3	-	3	2647	c.2546C>T	c.(2545-2547)TCG>TTG	p.S849L	SALL4_uc010gii.2_Missense_Mutation_p.S412L|SALL4_uc002xwi.3_Missense_Mutation_p.S72L	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	849					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GGACAATGTCGAGGGTCCCAC	0.582													13	45					0	0	1	0	0		A	50405596	A	A	50405596	3	1	221	1	0	0	0	0	1	0	0	0	13838	1059	37	1	623	1	SALL4	20	50405596	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	265517	50405596	12619924	118	108231											
DIDO1	11083	broad.mit.edu	37	chr20	61513397	61513397	+	Missense_Mutation	SNP	G	A	A	0	0	1	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	ctgttttggaagcagacgaaGcggtggaggaagctgccgtg	9	8	17	7	3	0	1	0	0	0	1	0	5	0	4	1	4	4	3	1	4	3	2			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr20:61513397G>A	uc002ydr.1	-	16	4175	c.3911C>T	c.(3910-3912)GCT>GTT	p.A1304V	DIDO1_uc002yds.1_Missense_Mutation_p.A1304V	NM_033081	NP_149072	Q9BTC0	DIDO1_HUMAN	death inducer-obliterator 1 isoform c	1304					apoptosis|transcription, DNA-dependent	cytoplasm|nucleus	zinc ion binding			ovary(3)|skin(3)	6	Breast(26;5.68e-08)					AGCAGACGAAGCGGTGGAGGA	0.602													61	134					0	0	1	0	0		A	61513397	A	A	61513397	3	1	221	1	0	0	0	0	1	0	0	0	4528	971	34	2	2815	2	DIDO1	20	61513397	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	11107801	61513397	1512123	119	108232											
ZBTB46	140685	broad.mit.edu	37	chr20	62422081	62422081	+	Silent	SNP	G	A	A	0	0	1	0	0	0	0	1	0	1	0	0	0	1	0	1	0	0	0	0	0	0	0	0	1	0	1	1	0	1	aggtgccggtagtgggacgtGatttccatatcttcctttcg	6	14	12	9	3	1	1	0	1	1	0	4	2	3	2	3	3	1	1	3	3	2	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr20:62422081G>A	uc002ygv.1	-	2	231	c.30C>T	c.(28-30)ATC>ATT	p.I10I	ZBTB46_uc002ygu.2_RNA	NM_025224	NP_079500	Q86UZ6	ZBT46_HUMAN	zinc finger and BTB domain containing 46	10					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)|ovary(1)	2	all_cancers(38;2.09e-12)|all_epithelial(29;3.8e-14)|Lung NSC(23;7.61e-10)|all_lung(23;2.64e-09)					AGTGGGACGTGATTTCCATAT	0.567													8	33					0	0	1	0	0		A	62422081	A	A	62422081	2	1	221	1	0	0	0	0	0	0	0	1	17572	1280	45	4		4	ZBTB46	20	62422081	Silent	SNP	G	TCGA-IP-7968-01A-11D-2201-08	908684	62422081	603439	120	108233											
ZNF512B	57473	broad.mit.edu	37	chr20	62597698	62597698	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgtcacaagctttgttaccGtaatgggtttggtgacaggt	8	14	12	7	1	1	1	1	1	0	0	1	1	1	1	1	3	2	4	1	3	3	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr20:62597698G>A	uc002yhl.1	-	5	884	c.830C>T	c.(829-831)ACG>ATG	p.T277M		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					CTTTGTTACCGTAATGGGTTT	0.577													107	529					0	0	1	0	0		A	62597698	A	A	62597698	3	1	221	1	0	0	0	0	1	0	0	0	17982	1145	40	1	1900	1	ZNF512B	20	62597698	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	175617	62597698	427822	121	108234											
GGTLC2	91227	broad.mit.edu	37	chr22	22988895	22988895	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	1	0	0	0	0	0	0	0	0	0	cccgatctcctactacaagcCcgagttctacacgccggttg	8	9	8	16	4	2	0	0	0	2	0	3	2	2	0	4	1	4	2	4	1	4	5			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chr22:22988895C>T	uc010gtt.2	+	1	114	c.80C>T	c.(79-81)CCC>CTC	p.P27L	LOC96610_uc011aim.1_Intron|POM121L1P_uc011ait.1_5'Flank|GGTLC2_uc010gts.2_Missense_Mutation_p.P27L	NM_199127	NP_954578	Q14390	GGTL2_HUMAN	gamma-glutamyltransferase-like 4 isoform 1	27					glutathione biosynthetic process		gamma-glutamyltransferase activity			ovary(1)	1	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)		TACTACAAGCCCGAGTTCTAC	0.602													25	21					0	0	1	0	0		T	22988895	T	T	22988895	3	4	221	1	0	0	0	0	1	0	0	0	6381	623	22	4	82	4	GGTLC2	22	22988895	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08		22988895	28315671	122	108235											
ARHGAP6	395	broad.mit.edu	37	chrX	11174711	11174711	+	Missense_Mutation	SNP	G	C	C	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	1	0	0	0	0	0	0	0	0	tcaggatcggtctctaacagGctgatcagcacttcgttctg	8	12	10	11	2	4	1	2	1	2	0	7	2	4	2	0	3	2	3	0	3	1	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chrX:11174711G>C	uc004cup.1	-	10	2718	c.1845C>G	c.(1843-1845)AGC>AGG	p.S615R	ARHGAP6_uc004cuo.1_RNA|ARHGAP6_uc004cur.1_Missense_Mutation_p.S615R|ARHGAP6_uc004cum.1_Missense_Mutation_p.S412R|ARHGAP6_uc004cun.1_Missense_Mutation_p.S435R|ARHGAP6_uc010neb.1_Missense_Mutation_p.S437R|ARHGAP6_uc011mif.1_Missense_Mutation_p.S412R	NM_013427	NP_038286	O43182	RHG06_HUMAN	Rho GTPase activating protein 6 isoform 1	615					actin filament polymerization|activation of phospholipase C activity|negative regulation of focal adhesion assembly|negative regulation of stress fiber assembly|Rho protein signal transduction	actin filament|cytosol	phospholipase activator activity|phospholipase binding|Rho GTPase activator activity|SH3 domain binding|SH3/SH2 adaptor activity			urinary_tract(1)|lung(1)	2						TCTCTAACAGGCTGATCAGCA	0.458													6	5					0	0	1	0	0		C	11174711	C	C	11174711	3	2	221	1	0	0	0	0	1	0	0	0	887	1194	42	5	1217	5	ARHGAP6	23	11174711	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08		11174711	144095849	123	108236											
MAP3K15	389840	broad.mit.edu	37	chrX	19387274	19387274	+	Missense_Mutation	SNP	G	A	A	0	0	1	0	0	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	ctgggggatagccctcttccGcttcatccatgtccttatct	5	14	8	14	1	3	0	1	0	2	0	6	1	6	1	4	2	1	1	4	2	2	4			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chrX:19387274G>A	uc004czk.1	-	26	3526	c.1889C>T	c.(1888-1890)GCG>GTG	p.A630V	MAP3K15_uc004czj.1_Missense_Mutation_p.A590V|MAP3K15_uc004czi.1_Missense_Mutation_p.A89V	NM_001001671	NP_001001671	Q6ZN16	M3K15_HUMAN	mitogen-activated protein kinase kinase kinase	1155							ATP binding|MAP kinase kinase kinase activity|metal ion binding			ovary(3)|lung(2)|stomach(1)|skin(1)	7	Hepatocellular(33;0.183)					GCCCTCTTCCGCTTCATCCAT	0.587													37	22					0	0	1	0	0		A	19387274	A	A	19387274	3	1	221	1	0	0	0	0	1	0	0	0	9267	1087	38	1	497	1	MAP3K15	23	19387274	Missense_Mutation	SNP	G	TCGA-IP-7968-01A-11D-2201-08	8212563	19387274	135883286	124	108237											
GPR174	84636	broad.mit.edu	37	chrX	78426762	78426762	+	Missense_Mutation	SNP	T	A	A	0	1	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	ttgaatcatgactggccattTgggcctggtctctgcatgtt	6	15	11	9	0	2	2	1	2	1	0	3	2	2	2	2	3	1	2	2	3	1	3			TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chrX:78426762T>A	uc004edg.1	+	1	294	c.258T>A	c.(256-258)TTT>TTA	p.F86L		NM_032553	NP_115942	Q9BXC1	GP174_HUMAN	putative purinergic receptor FKSG79	86	Extracellular (Potential).					integral to membrane|plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			lung(1)|central_nervous_system(1)	2						ACTGGCCATTTGGGCCTGGTC	0.423										HNSCC(63;0.18)			10	1					0	0	1	0	0		A	78426762	A	A	78426762	3	1	221	1	0	0	0	0	1	0	0	0	6687	1809	63	5	260	5	GPR174	23	78426762	Missense_Mutation	SNP	T	TCGA-IP-7968-01A-11D-2201-08	59039488	78426762	76843798	125	108238											
AMOT	154796	broad.mit.edu	37	chrX	112048266	112048266	+	Missense_Mutation	SNP	C	T	T	0	0	0	1	1	0	0	0	0	0	0	0	0	0	0	0	0	0	1	0	0	0	0	0	0	0	0	0	0	0	tttggtcctcattggtagaaCgggcagtggccagctccgct	6	11	13	11	2	1	1	1	0	0	1	3	1	3	1	3	4	2	4	3	4	2	3	rs139517376		TCGA-IP-7968-01A-11D-2201-08	TCGA-IP-7968-11A-01D-2201-08									Somatic	Phase_I	Capture				Illumina GAIIx	3cd2ff4e-689b-4c9f-87b7-083a64c1e68f	28c72da0-4ad9-4df1-8584-302a03dfb8f0	g.chrX:112048266C>T	uc004epr.2	-	5	1685	c.1685G>A	c.(1684-1686)CGT>CAT	p.R562H	AMOT_uc004eps.2_Missense_Mutation_p.R153H	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	562	Potential.				actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						ATTGGTAGAACGGGCAGTGGC	0.517													76	41					0	0	1	0	0		T	112048266	T	T	112048266	3	4	221	1	0	0	0	0	1	0	0	0	582	536	19	1	1597	1	AMOT	23	112048266	Missense_Mutation	SNP	C	TCGA-IP-7968-01A-11D-2201-08	33621504	112048266	43222294	126	108239											
